# hmmscan :: search sequence(s) against a profile database
# HMMER 3.2.1 (June 2018); http://hmmer.org/
# Copyright (C) 2018 Howard Hughes Medical Institute.
# Freely distributed under the BSD open source license.
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
# query sequence file:             /oak/stanford/groups/akundaje/marinovg/genomes/Bacteria/Bacteriovorax_sp._STB_52-ASM2871048v1/GCA_028710485.1_ASM2871048v1_genomic.ORF.faa
# target HMM database:             /oak/stanford/groups/akundaje/marinovg/genomes/PFam/PFam32.0/Pfam-A.hmm
# output directed to file:         /oak/stanford/groups/akundaje/marinovg/genomes/Bacteria/Bacteriovorax_sp._STB_52-ASM2871048v1/GCA_028710485.1_ASM2871048v1_genomic.ORF.Pfam32
# per-seq hits tabular output:     /oak/stanford/groups/akundaje/marinovg/genomes/Bacteria/Bacteriovorax_sp._STB_52-ASM2871048v1/GCA_028710485.1_ASM2871048v1_genomic.ORF.Pfam32.tblout
# number of worker threads:        20
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

Query:       PHY93_21215|PHY93_21215  [L=371]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.3e-86  288.4   0.0      1e-85  288.2   0.0    1.0  1  DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
    7.3e-11   41.8   0.1    1.8e-07   30.7   0.1    2.1  2  Aminotran_1_2    Aminotransferase class I and II
    0.00012   21.2   0.0    0.00028   20.0   0.0    1.3  1  Aminotran_5      Aminotransferase class-V
      0.002   16.7   0.1     0.0027   16.3   0.1    1.2  1  Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
  ------ inclusion threshold ------
      0.076   12.3   0.1       0.15   11.3   0.1    1.7  1  Beta_elim_lyase  Beta-eliminating lyase


Domain annotation for each model (and alignments):
>> DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  288.2   0.0   2.9e-89     1e-85       8     352 ..      15     362 ..       9     371 .] 0.89

  Alignments for each domain:
  == domain 1  score: 288.2 bits;  conditional E-value: 2.9e-89
                              HHHHHHHTSS-SSS.SHHHHHHHHHHHHHHT-SEEEEESSHHHHHHHHHHHTTTTTT-EEEEESSS-THHHHHHHHTT-EEEEE-B CS
          DegT_DnrJ_EryC1   8 eaveevlksgwlts.gpeveeFEkafaaylgvkhaiavssGtaAlhlaLralgvgpgdeVIvpsltFvatanavlelgakpvfvDv 92 
                              +++ e++ +++l+  g ++++  + f + ++   a  + s+ta+l++a   ++++pgdeVI+ps+tF++tanav+  g  pvf+D+
  PHY93_21215|PHY93_21215  15 KYIMEAIANKKLSGdGAFNKKCSQWFMKNVKCLSANLTPSCTASLEMAFIIIDLKPGDEVIMPSFTFTSTANAVALFGGIPVFIDI 100
                              555666666666666888888889999999999999999*********************************************** PP

                              -TTTSSB-GGGCGGG--TTEEEEEEB-GGGB---HHHHHHHHHHCT-EEEEE-TT-TT-EETTEECCCSSSEEEEE-BTTSSS-SS CS
          DegT_DnrJ_EryC1  93 dpdtynidpaaieaaitertkaIlpVhlyGqvadmdalkaiaakhglkvieDaAhAlGatykgkkvGalgdaavfSFyptKnlttG 178
                              dp+t+n+d++ ie+ait++tkaI+pVh++G  +dmd++ +ia+k +l vieDaA+++ a+ykg+++G+lgd++++SF++tKn+ +G
  PHY93_21215|PHY93_21215 101 DPETLNMDVNLIEEAITPKTKAIVPVHYAGMTCDMDKVLEIAKKNNLFVIEDAAQGMFAKYKGRHLGTLGDISAISFHETKNIVCG 186
                              ************************************************************************************** PP

                              S-EEEEESTHHHHHHHHHHHBTTCECCTCSSCECCS......S---B-B-BHHHHHHHHHHHCTHHHHHHHHHHHHHHHHHHHHTC CS
          DegT_DnrJ_EryC1 179 eGGavvtndeelaekarvlrnhGlkrkaekryvgev......elGynyrlteiqAAiglaqLerldelvarRreiaelykeeLael 258
                              eGGa++ n+++l e+a + r +G++r  ++  +gev      + G++y l+e++AA +laqLe  ++++++R ++++ y+e ++e 
  PHY93_21215|PHY93_21215 187 EGGAILINNPALMERADIVRDKGSNR--QQFLRGEVdkytwqDKGSSYLLSELAAAFLLAQLEVGEKITKTRLAHWNKYNEMFKEF 270
                              ***********************996..4555555566899999*************************************99999 PP

                              CCCEESCGGTTSS..SEEESCEEEEEHCCHHHCHHHHHHHHHHCCEE-B-SGSCHGGGSCCHHHHHHCCCHC-HHHHHHHHHEEEE CS
          DegT_DnrJ_EryC1 259 egtaelttpketk..khawhlyavlveeeaevkrdelvealkeegigtrvhypnplhrqpvyaerkeeasgdlpnaerlaervlsL 342
                              e    l+ +   +  +h+ h +  +  +++   ++++ ++l +++i++++hy +plh+ p+ ++  ++   ++ n++ l er l +
  PHY93_21215|PHY93_21215 271 EDSGMLKRQSIPEynEHNAHIFYAVFATKE--LQQKVHQKLLADNIKATMHY-VPLHSSPAGKKF-GRIGSSMNNSDILPERLLRF 352
                              877666666665554577777666666553..4889****************.8***99998777.566779************** PP

                              EGGTTGSHHH CS
          DegT_DnrJ_EryC1 343 plypelteed 352
                              p+y++l e+ 
  PHY93_21215|PHY93_21215 353 PMYKDLPENV 362
                              ****997765 PP

>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.7   0.1   4.9e-11   1.8e-07      49     189 ..      32     154 ..      25     186 .. 0.82
   2 !    9.2   0.0   0.00017       0.6     253     353 ..     231     341 ..     220     346 .. 0.83

  Alignments for each domain:
  == domain 1  score: 30.7 bits;  conditional E-value: 4.9e-11
                              HHHHHHHHHCTCTTCHTTGGEGEEEESHHHHHHHHHHHHHHHTTT-EEEEEESS-THHHHHHHHTTSEEEEEEBEETTTTEE-HHH CS
            Aminotran_1_2  49 leealakflgrseklklkreaavvvgsGagaliealifllklnpgdeilvpdptyasyknilrlsggevvryplyseedfhldlea 134
                              ++++  +++  ++++ l ++    +++ ++a +e+++ +++l pgde+++p+ t++s  n++ l gg  v + ++ +e+ ++d++ 
  PHY93_21215|PHY93_21215  32 FNKKCSQWFM-KNVKCLSAN----LTPSCTASLEMAFIIIDLKPGDEVIMPSFTFTSTANAVALFGGIPVFIDID-PETLNMDVNL 111
                              5566666665.333333333....44555666777777777********************************66.9********* PP

                              HHHHHTTHHCTTETEEEEEEESS-TTT--B--HHHHHHHHHHHHHTTEEEEEEET CS
            Aminotran_1_2 135 leealkeapegnkktkvilvesphNPtGtvatleeleklldlakkynlllfvDea 189
                              +eea++       ktk i+   p +  G  ++ +++ ++   akk+nl+++ D a
  PHY93_21215|PHY93_21215 112 IEEAITP------KTKAIV---PVHYAGMTCDMDKVLEI---AKKNNLFVIEDAA 154
                              ******9......9****9...99999*********999...********99987 PP

  == domain 2  score: 9.2 bits;  conditional E-value: 0.00017
                              SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS......TEEEECCS.CSSEEEEEETHHCHHHHHHHHHHTCTEE CS
            Aminotran_1_2 253 ssllqaavaaalsdallkqseleemrqrlqkrrkelrdeLael......glkvlasq.sgmflltdlsaetakelskkLleevgvy 331
                              s ll++++aa l ++l++ ++++++r  ++++  e+++e+++        ++ + ++ +++f+ +  ++e ++++ +kLl   ++ 
  PHY93_21215|PHY93_21215 231 SYLLSELAAAFLLAQLEVGEKITKTRLAHWNKYNEMFKEFEDSgmlkrqSIPEYNEHnAHIFYAVFATKELQQKVHQKLLAD-NIK 315
                              5678999999999*****99********************888***999888888876999999999999888888889888.777 PP

                              EEEGGGGTS.....TTEEEEECTTS-H CS
            Aminotran_1_2 332 vtpgtsftv.....pgrlRitvAglte 353
                               t    +       ++++Ri   ++++
  PHY93_21215|PHY93_21215 316 ATMHYVPLHsspagKKFGRIGS-SMNN 341
                              7765555556777788888876.5555 PP

>> Aminotran_5  Aminotransferase class-V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.0   0.0   7.8e-08   0.00028      68     181 ..      53     158 ..      51     178 .. 0.87

  Alignments for each domain:
  == domain 1  score: 20.0 bits;  conditional E-value: 7.8e-08
                              SSHHHHHHHHHHHCCCC-TTTSEEEEETTSHGGGTHHHHHHHHHHTEEEEEEEBETTS.CBEGGGHHHH--TTEEEEEEESBETTT CS
              Aminotran_5  68 sGtteainlvalslarslkpgdeivvteaehhanlvpwqelakrtgakvkvipldeeg.eldldelekllnektklvaithvsnvt 152
                               ++t +++++ + +   lkpgde+++ +    ++    +++a + g+ v +i +d+e  ++d++ +e+++++ktk++   h     
  PHY93_21215|PHY93_21215  53 PSCTASLEMAFIII--DLKPGDEVIMPSFTFTSTA---NAVALFGGIPV-FIDIDPETlNMDVNLIEEAITPKTKAIVPVHY---A 129
                              57899999999999..59***********999998...66777889999.888887652799**************999996...6 PP

                              TEB--HHHHHHHHHHTT-EEEEE-TTTTT CS
              Aminotran_5 153 GtiqpveeigklakkkgalvlvDaaqavg 181
                              G+  +++++ ++akk++ +v+ Daaq++ 
  PHY93_21215|PHY93_21215 130 GMTCDMDKVLEIAKKNNLFVIEDAAQGMF 158
                              8889999999999*************975 PP

>> Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.1   7.5e-07    0.0027      70     175 ..      49     154 ..      40     207 .. 0.79

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 7.5e-07
                              EEEESSHHHHHHHHHHTT.S-TTEEEEEESTSSHHHHHHHHHT...HHHTTCEEEEESTTSHHHHHHHCCTTEEEEEEESS-TTTT CS
          Cys_Met_Meta_PP  70 alavssGmaAiaaailal.lkaGdeivvsddlYggtqrllkkv...lkklgievkfvdtsdleelekaikentklvylEtptnpll 151
                              a +++s +a++++a++ + lk Gde+++ +  + +t + +  +      + i+ +  ++ d++ +e+ai+++tk++    p     
  PHY93_21215|PHY93_21215  49 ANLTPSCTASLEMAFIIIdLKPGDEVIMPSFTFTSTANAVALFggiPVFIDIDPETLNM-DVNLIEEAITPKTKAIV---PVHYAG 130
                              5567777777766554443899**************99776551103446677777776.899************95...777778 PP

                              ----HHHHHHHHHHTT-EEEEEGT CS
          Cys_Met_Meta_PP 152 kvvDiekiaklakkagvlvvvDnt 175
                               ++D+ k++++akk+++ v+ D++
  PHY93_21215|PHY93_21215 131 MTCDMDKVLEIAKKNNLFVIEDAA 154
                              889**************9999875 PP

>> Beta_elim_lyase  Beta-eliminating lyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.1   4.2e-05      0.15      53     170 ..      52     155 ..      30     294 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 4.2e-05
                              ES-HHHHHHHHHHHH-.-TTEEEEEETT-HHHHSSTTHHHHCC--EEEEE-EBTT.TBE-HHHHHHHS--S-TTS-EEEEEEEESS CS
          Beta_elim_lyase  53 vpqGtaAnsillkill.qrgeevivtepahihfdetgaiaelagvklrdlknkea.GkmdlekleaaikevgaheekiklisltvT 136
                              +p+ ta+ ++++ i+  ++g+evi+  p+ +++ ++ a+a ++g+ ++ ++++ +  +md++ +e+ai+++ +  + +++ +   T
  PHY93_21215|PHY93_21215  52 TPSCTASLEMAFIIIDlKPGDEVIM--PSFTFTSTANAVALFGGI-PVFIDIDPEtLNMDVNLIEEAITPKTK--AIVPVHYAGMT 132
                              6777777777876665599999985..899999999***999999.76666554439*************777..77777677677 PP

                              BTTTTTB---HHHHHHHHHHHHHCT-EEEEEETT CS
          Beta_elim_lyase 137 nntagGqvvsleelrevaaiakkygiplhlDgAR 170
                              +            +++v +iakk+++ ++ D+A 
  PHY93_21215|PHY93_21215 133 CD-----------MDKVLEIAKKNNLFVIEDAAQ 155
                              66...........578888888888888888885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (371 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       509  (0.0283898); expected 358.6 (0.02)
Passed bias filter:                      418  (0.0233142); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.52u 1.49s 00:00:02.00 Elapsed: 00:00:02.39
# Mc/sec: 471.28
//
Query:       PHY93_16330|PHY93_16330  [L=132]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.9e-13   49.0   0.0      1e-12   48.5   0.0    1.2  1  YtkA          YtkA-like
    0.00078   19.7   0.0     0.0016   18.7   0.0    1.5  1  Invasin_D3    Invasin, domain 3
     0.0011   18.9   0.0     0.0043   17.0   0.0    1.8  2  Big_1         Bacterial Ig-like domain (group 1)
  ------ inclusion threshold ------
      0.025   15.4   0.0      0.032   15.0   0.0    1.1  1  Filamin       Filamin/ABP280 repeat
      0.049   13.3   1.0       0.12   12.1   1.0    1.7  1  TCR_zetazeta  T-cell surface glycoprotein CD3 zeta chain
      0.088   12.9   0.0       0.13   12.4   0.0    1.3  1  Cupredoxin_1  Cupredoxin-like domain


Domain annotation for each model (and alignments):
>> YtkA  YtkA-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.5   0.0   3.4e-16     1e-12      14      83 ..      43     111 ..      40     114 .. 0.91

  Alignments for each domain:
  == domain 1  score: 48.5 bits;  conditional E-value: 3.4e-16
                     YtkA  14 peepkagen.tivvt.vtqggkpVedadvkvefwmpameGmeemttkvelkesedGvYeaevnfsmeGtWqv 83 
                              pe++  g++ +++++ +++++ p+e+a+ +ve++m  ++Gm + tt+++  +  +GvY++++++sm+G+W++
  PHY93_16330|PHY93_16330  43 PEKIILGDDvEFTFRlKDKKNRPIENAKMQVEATMN-HAGMIPITTEATPLP--NGVYKFKIKLSMAGDWIL 111
                              78889999977***8899*****************9.6*****999999888..****************87 PP

>> Invasin_D3  Invasin, domain 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   0.0   5.4e-07    0.0016      23      80 ..      53     115 ..      43     130 .. 0.81

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 5.4e-07
               Invasin_D3  23 tltvtlkDangnpvsgltvtfstt..sag...tlsavtdngdGtytatLtattagtatitptv 80 
                                t+ lkD+++ p+ ++++++ +t   ag    ++++t   +G+y+ +++ + ag   +  t+
  PHY93_16330|PHY93_16330  53 EFTFRLKDKKNRPIENAKMQVEATmnHAGmipITTEATPLPNGVYKFKIKLSMAGDWILFLTI 115
                              689*************99777766558888886678889999*****9998888887766665 PP

>> Big_1  Bacterial Ig-like domain (group 1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.0   1.4e-06    0.0043       5      58 ..      50     107 ..      49     111 .. 0.85
   2 ?   -0.4   0.0       0.4   1.2e+03      12      22 ..     114     124 ..     110     132 .] 0.73

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 1.4e-06
                    Big_1   5 dtntltatvkDangnpvagatVtfsvsg..gals....assgtTdanGkatvtltstkag 58 
                              d +++t ++kD+++ p+++a+  ++++   +       ++++t   nG++ ++++ + ag
  PHY93_16330|PHY93_16330  50 DDVEFTFRLKDKKNRPIENAKMQVEATMnhA--GmipiTTEATPLPNGVYKFKIKLSMAG 107
                              67899***************99999888533..335899999999*******99988887 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 0.4
                    Big_1  12 tvkDangnpva 22 
                              t+k a+gn ++
  PHY93_16330|PHY93_16330 114 TIKKADGNIIK 124
                              89999999775 PP

>> Filamin  Filamin/ABP280 repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   0.0   1.1e-05     0.032      17      94 ..      45     117 ..      29     126 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 1.1e-05
                              E.ETTS-EEEEEEESSSTSCCCSTTS..EEEEE..ESSTS.....EEEEEEEE-SSSEEEEEE--SSSCEEEEEEEETT CS
                  Filamin  17 s.vagesltFtvytkdakgeksevggdelqvrivtgsphgaatkssvkievvdnedgtytvsYtpeepgtyrvsvkldg 94 
                              + + g+ ++Ft  +kd+k++++e    ++qv+   + +h    +  +++e +   +g+y+ + +++++g+  + +++++
  PHY93_16330|PHY93_16330  45 KiILGDDVEFTFRLKDKKNRPIEN--AKMQVEA--TMNHAGM-I-PITTEATPLPNGVYKFKIKLSMAGDWILFLTIKK 117
                              248899***********9998775..7899999..4443331.2.78899****************9999988888776 PP

>> TCR_zetazeta  T-cell surface glycoprotein CD3 zeta chain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   1.0     4e-05      0.12      11      27 ..       7      23 ..       6      27 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 4e-05
             TCR_zetazeta 11 iLliYgiIiTaLFlReK 27
                             +L+++++I T+L++ +K
  PHY93_16330|PHY93_16330  7 VLFLFALIATGLYFIKK 23
                             8************9776 PP

>> Cupredoxin_1  Cupredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   4.2e-05      0.13       3      96 ..      12     105 ..       5     111 .. 0.62

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 4.2e-05
             Cupredoxin_1   3 aalavllllsskaaaaaektveitvkdggfePskievkagekvklkiknkdktpeefesedlgeekvla..pgktttitiaplkpG 86 
                              a++a  l++ +k+ + ++ + + ++ + +  P+ki +  + ++++++k k+++p  +e  ++++e + +       t + +pl  G
  PHY93_16330|PHY93_16330  12 ALIATGLYFIKKELKTSSSSSQFVILNWHHHPEKIILGDDVEFTFRLKDKKNRP--IENAKMQVEATMNhaGMIPITTEATPLPNG 95 
                              44444444444444555555555555567789*999988776666666666665..5555555555555004555666778999** PP

             Cupredoxin_1  87 eYeftcdmhm 96 
                               Y+f  ++ m
  PHY93_16330|PHY93_16330  96 VYKFKIKLSM 105
                              ***9988776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (132 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       745  (0.0415528); expected 358.6 (0.02)
Passed bias filter:                      593  (0.0330749); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.49u 0.83s 00:00:01.31 Elapsed: 00:00:00.55
# Mc/sec: 721.68
//
Query:       PHY93_21260|PHY93_21260  [L=314]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.7e-49  168.4   0.0      2e-49  168.2   0.0    1.0  1  Epimerase        NAD dependent epimerase/dehydratase family
      6e-46  157.4   0.0    1.1e-45  156.5   0.0    1.4  1  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
    1.1e-13   50.8   0.0      2e-13   50.0   0.0    1.4  1  3Beta_HSD        3-beta hydroxysteroid dehydrogenase/isomeras
    3.5e-12   46.1   1.5    1.9e-11   43.7   1.5    2.2  1  Polysacc_synt_2  Polysaccharide biosynthesis protein
    2.3e-09   36.8   0.8    5.5e-08   32.3   0.0    2.6  2  NAD_binding_4    Male sterility protein
    2.7e-07   30.0   0.0    3.3e-07   29.7   0.0    1.1  1  RmlD_sub_bind    RmlD substrate binding domain
    0.00046   20.1   0.0    0.00062   19.7   0.0    1.2  1  NAD_binding_10   NAD(P)H-binding
     0.0015   18.1   0.2       0.12   11.9   0.0    2.2  2  NmrA             NmrA-like family
  ------ inclusion threshold ------
      0.016   14.7   0.1      0.031   13.7   0.1    1.7  1  adh_short        short chain dehydrogenase
       0.03   14.3   0.1       0.22   11.6   0.0    2.0  2  Mob1_phocein     Mob1/phocein family
      0.074   13.3   0.0       0.13   12.5   0.0    1.4  1  TrkA_N           TrkA-N domain
       0.14   12.1   0.7       0.64    9.9   0.7    2.1  1  KR               KR domain


Domain annotation for each model (and alignments):
>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  168.2   0.0   1.4e-52     2e-49       1     241 []       4     237 ..       4     237 .. 0.95

  Alignments for each domain:
  == domain 1  score: 168.2 bits;  conditional E-value: 1.4e-52
                              EEEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHCEEEE--TT-HHHHHHHHHHHT-SEEEE--S---HHHHHHSHHH CS
                Epimerase   1 ilVtGatGfiGsalvkallekgyevigldrlssasntarledlelveldltdrsalerlfkeeqpdavihlAavggvaassedpad 86 
                              ilVtG++GfiGs++++ + +kg++v+++d+ls + ++++ ++++lv +d+++r++le +    ++++++hlAa ++ +  +++  d
  PHY93_21260|PHY93_21260   4 ILVTGGAGFIGSNFCNLMVKKGHDVTAFDNLSLGVKENLVPEVKLVVGDVKNRVELESAGM--DFEYIVHLAASSSAPMFVDHLRD 87 
                              8**********************************************************99..89********9999999****** PP

                              HHHHHTHHHHHHHHHHHHHTCTEEEEEEEGGGGTSCSSSSBSTCSTTS----SSHHHHHHHHHHHHHHHHHHHHT-EEEEEEESEE CS
                Epimerase  87 fieknlqgtlnlleaarkagvkrllflsSsevYGkdaeqpkeettltgplkpnspYaaaKlageklveayaaqyglnaiilrlfnl 172
                               +e+n++g l++l+ ar+ ++k+++f+s+s++YG++++ p +e+     + p + Y+++K+  e+  + y + y+l++i++r  ++
  PHY93_21260|PHY93_21260  88 SMENNIMGHLDVLNFARDIKAKKVMFASTSSIYGNNPT-PLTEDQ---FVLPPNFYSVTKHSQESTSRVYSKVYDLEIIAFRFMSV 169
                              **********************************9999.955555...3578899******************************* PP

                              ESTTS-TTS.TTSHHHHHHHHHHTTSSSEEEETTST-EEEEEEHHHHHHHHHHHHHHHTT-STTEEEEES CS
                Epimerase 173 yGprngege.vsrvipalirkilegkqevtllgdgtalRdflyveDvaeaillvlehvdagdkgeiyniG 241
                              yGp++g+++  ++v++++i  ++ gk + +l+gdgt+ Rdf  v+Dv+++i l+++  +++   +i+niG
  PHY93_21260|PHY93_21260 170 YGPNEGHKKiFANVLSQFIWGMKMGK-PAILYGDGTQERDFTNVRDVVQGIELAMNS-EKKYGFNIFNIG 237
                              ****999999****************.*****************************9.6667788****9 PP

>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  156.5   0.0   7.5e-49   1.1e-45       1     331 [.       5     301 ..       5     302 .. 0.85

  Alignments for each domain:
  == domain 1  score: 156.5 bits;  conditional E-value: 7.5e-49
                              EEETTTSHHHHHHHHHHHHCT-CCEEEEEEESS-TTHHHHHCTTT...TTGCCEEEEE--TT-HHHHHHHHHHHT-SEEEE--S-- CS
            GDP_Man_Dehyd   1 LiTGiaGfiGsylaelLlekgyevhgivrrsssfntgriehlakdpkeeleenlklhkgDltDssslerllaevqpdevynLAAqs 86 
                              L+TG+aGfiGs++++l+++kg++v+ ++++s        e+l         +++kl+ gD++++ +le++   ++++ +++LAA s
  PHY93_21260|PHY93_21260   5 LVTGGAGFIGSNFCNLMVKKGHDVTAFDNLSLG----VKENLV--------PEVKLVVGDVKNRVELESA--GMDFEYIVHLAASS 76 
                              9************************99877654....456665........4589********9999986..67789********* PP

                              -HHHHTTSHHHHHHHHTHHHHHHHHHHHHCT..TTSEEEEEEEGGGG-S-SSSSB-TTS-----SHHHHHHHHHHHHHHHHHHHH- CS
            GDP_Man_Dehyd  87 hVdvsfekPeytaevnvlGtlrLLeairalglekkvrfyqaStsEvYGkvqevpqtEttpfyPrsPYaaaKlyadwivvnyreayg 172
                                +  +++    +e+n++G l +L+ +r+++    +++++aSts +YG+   +p tE++ + P + Y+++K +++   + y + y+
  PHY93_21260|PHY93_21260  77 SAPMFVDHLRDSMENNIMGHLDVLNFARDIKA---KKVMFASTSSIYGNNP-TPLTEDQFVLPPNFYSVTKHSQESTSRVYSKVYD 158
                              *****************************964...68999*********97.9********************************* PP

                              --EEEEEE-EEESTTS-TT.SCCCHHHHHHHHHHTTS-C-EECTTTT-EEEEEEHHHHHHHHHHHHHCSS---EEE-TT-EEECHH CS
            GDP_Man_Dehyd 173 lfavngilfnhesprrget.fvtrkitravarialgkqevlylGnldakRdwghvkDyveamwlmlqqdkpedyviatgethsvre 257
                              l ++  ++   ++p  g++ +  + +++++  +++gk + + +G++ + Rd++ v+D+v+++ l+++++k+  ++      +++++
  PHY93_21260|PHY93_21260 159 LEIIAFRFMSVYGPNEGHKkIFANVLSQFIWGMKMGK-PAILYGDGTQERDFTNVRDVVQGIELAMNSEKKYGFN-----IFNIGT 238
                              ****************98548889999*********9.55669************************99975443.....445555 PP

                              CHHCCHHCCCHHHHHH............TTGGCCCEECGG--SS--SB--B-THHHHHHH----SS-HHHHHHH CS
            GDP_Man_Dehyd 258 fvelaflelgktiewegkgeeevgrakesgkvvvevdpkyfrpgevdlllgdaskakeeLgWkpkvsfeelvre 331
                                 ++++el+k i++       +g+     +++ ++ +++ + g  ++ l+ ++k+ +eLg+kp v++ee+++e
  PHY93_21260|PHY93_21260 239 AEAINLIELVKIINKV------MGT-----SIEPQCIENPIKSGYIKTQLAGIEKISNELGFKPMVGLEEGIKE 301
                              5555555555433322......121.....2233444556666667888999********************98 PP

>> 3Beta_HSD  3-beta hydroxysteroid dehydrogenase/isomerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.0   0.0   1.3e-16     2e-13       1     228 [.       5     222 ..       5     228 .. 0.77

  Alignments for each domain:
  == domain 1  score: 50.0 bits;  conditional E-value: 1.3e-16
                3Beta_HSD   1 vvtGgaGFlGralvkeLvrleelkevrvlDlrespelleelskvnvkkviegDvtdkdkleealegvdvvihlaslvdvag.klte 85 
                              +vtGgaGF+G++ ++ +v+ +  ++v ++D      + + + +  vk ++ gDv++  +le a  + + ++hla+ +     +++ 
  PHY93_21260|PHY93_21260   5 LVTGGAGFIGSNFCNLMVKKG--HDVTAFDNLSLGVKENLVPE--VK-LVVGDVKNRVELESAGMDFEYIVHLAASSSAPMfVDHL 85 
                              69******************9..5******8777666444444..44.77***********************9876543334555 PP

                3Beta_HSD  86 deimkvnvkGTrnvleacvkagvrvlvYtSsaevvgpnslgeeilngdEeleyeslhqdaypesKalaEklvlkaNgrtlknggrl 171
                                 m+ n+ G   vl+ +++   +++++ S+ ++ g+  +  +++     +  + l+ + y+ +K+  E        r+ +   +l
  PHY93_21260|PHY93_21260  86 RDSMENNIMGHLDVLNFARDIKAKKVMFASTSSIYGN--NPTPLT-----EDQFVLPPNFYSVTKHSQEST-----SRVYSKVYDL 159
                              55899********************************..455666.....455677888999999998864.....5556667799 PP

                3Beta_HSD 172 yTcaLRpagiyGegd...kllvpllkql...aklglalfkigdeevlsdrvYvgNvawahilA 228
                                +a R + +yG+ +   k + ++l q    +k+g+  + +gd  +  d++ v  v++ + lA
  PHY93_21260|PHY93_21260 160 EIIAFRFMSVYGPNEghkKIFANVLSQFiwgMKMGKPAILYGDGTQERDFTNVRDVVQGIELA 222
                              ************976211333344444333357777777788888888888888777766666 PP

>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.7   1.5   1.3e-14   1.9e-11       1     250 [.       4     258 ..       4     287 .. 0.73

  Alignments for each domain:
  == domain 1  score: 43.7 bits;  conditional E-value: 1.3e-14
                              EEEETTTSHHHHHHHHHHHHHB-SEEEEEES-HHHHHHHHHH......-TTEEEE....E--TT-HHHHHHHTT..T-SEEEE--- CS
          Polysacc_synt_2   1 vlvtGagGsiGselvrqilkkkpkkiillerdElklyeiekeleeelkkkklkveivpvigdvrdkerlekaleelkvdvvfhaAA 86 
                              +lvtG++G iGs++++ ++kk  + +  +++  l    ++++l   + +  +      v+gdv+++ +le+a    + ++++h AA
  PHY93_21260|PHY93_21260   4 ILVTGGAGFIGSNFCNLMVKKG-HDVTAFDNLSL---GVKENL---VPE--V----KLVVGDVKNRVELESAGM--DFEYIVHLAA 74 
                              89*************9888765.67778876544...344555...333..3....347************988..99******** PP

                              ---HHHHHHSHHHHHHHHHHHHHHHHHHHHHTT-SEEEEEEE.............GGGSS--SHHHHHHHHHHHHHHHGGG--SSS CS
          Polysacc_synt_2  87 lKhVPlveenpleaiktNvlgtenvieaaieagvkkvvliSt.............DKAvnPtnvmGatKrlaekllqalakeseek 159
                                  P+   +  + +++N++g   v++ a + + kkv++ St             D  v P n + +tK  +e +   ++k     
  PHY93_21260|PHY93_21260  75 SSSAPMFVDHLRDSMENNIMGHLDVLNFARDIKAKKVMFASTssiygnnptplteDQFVLPPNFYSVTKHSQESTSRVYSKVY--- 157
                              ****************************************9977777777777778888889999999999998888887777... PP

                              --EEEEEEE-EETTGT.T......SSHHHHHHHHHTTSS.EEES-TT-EEEEE-HHHHHHHHHHHHHH--SS-..EEEE--.-EEE CS
          Polysacc_synt_2 160 ktkfvvvRfGNVlgSr.G......SviplFkkqikeggp.vtvTdpemtRyfmtieeavqLvlqalalakgge..ifvldmGepvk 235
                              + ++++ Rf  V g + G       v+  F   +k g+p +   d +  R f  +++ vq +  a++  k+    if     e+++
  PHY93_21260|PHY93_21260 158 DLEIIAFRFMSVYGPNeGhkkifaNVLSQFIWGMKMGKPaILYGDGTQERDFTNVRDVVQGIELAMNSEKKYGfnIFNIGTAEAIN 243
                              67777778777777542222222246666666777776523345666677777777777766666655544431144444446666 PP

                              HHHHHHHH....... CS
          Polysacc_synt_2 236 ivdlakalielsgle 250
                              +++l+k + +++g++
  PHY93_21260|PHY93_21260 244 LIELVKIINKVMGTS 258
                              677777776666655 PP

>> NAD_binding_4  Male sterility protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.3   0.1     0.053        80       1      21 [.       6      26 ..       6      34 .. 0.81
   2 !   32.3   0.0   3.7e-11   5.5e-08      88     254 ..      66     216 ..      30     219 .. 0.88

  Alignments for each domain:
  == domain 1  score: 2.3 bits;  conditional E-value: 0.053
                             EE-TTSHHHHHHHHHHHHHS- CS
            NAD_binding_4  1 lTGaTGFLGkvLlekLLrttp 21
                             +TG+ GF+G+ + + ++++  
  PHY93_21260|PHY93_21260  6 VTGGAGFIGSNFCNLMVKKGH 26
                             7********998877777665 PP

  == domain 2  score: 32.3 bits;  conditional E-value: 3.7e-11
                              --EEEE--SS-S....STTSSEEHHHHHHHHHHHHHHHTSSS--.-EEEEEEGGGTTS-TTT--SSS-H......HHH--EEEETT CS
            NAD_binding_4  88 vdviihsaAtvn...fdepykellrvNveGtrevlelakklkklkvllhvSTayvngeregeveekvyeegekeekldederaklk 170
                               + i+h aA+ +   f++++++ ++ N++G  +vl++a+ +k++  +++ ST+ ++g++ + +                 ++++  
  PHY93_21260|PHY93_21260  66 FEYIVHLAASSSapmFVDHLRDSMENNIMGHLDVLNFARDIKAK-KVMFASTSSIYGNNPTPL-----------------TEDQFV 133
                              678******986555999**************************.**************9765.................667888 PP

                              TCCCHHHHHHHHHHHHHHHHHHHH---EEEEEE-EEE--SSST---TTSHHHHHHHHHHHH-EEES-SB---TT--EEEHHHHH CS
            NAD_binding_4 171 glpntYeqsKalaEklvrearrrsglpvvivRpsiitgesktGwingsdlgirgllgliakgvlpeilgdkeavldlvpvDyva 254
                                pn Y+ +K+  E   r +++  +l ++ +R   ++g +  G  + + ++++ ++ ++++g+   ++gd  ++ d++ v  v+
  PHY93_21260|PHY93_21260 134 LPPNFYSVTKHSQESTSRVYSKVYDLEIIAFRFMSVYG-PNEGHKKIFANVLSQFIWGMKMGKPAILYGDGTQERDFTNVRDVV 216
                              999*********************************99.999*****999***********99999999988888888876555 PP

>> RmlD_sub_bind  RmlD substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.7   0.0   2.2e-10   3.3e-07       2     155 ..       3     176 ..       2     270 .. 0.81

  Alignments for each domain:
  == domain 1  score: 29.7 bits;  conditional E-value: 2.2e-10
                              EEEEESTTSHHHHHHHHHCTTTSEEEEEE-TT...............T--TTSHHHHHHHHHHH--SEEEE------HHHHHHSHH CS
            RmlD_sub_bind   2 kilvtGanGqlGseLakqlaeeglevlaltre...............eldltdaeavaellkeakpdvvvnaAAytavDkaEseee 72 
                              kilvtG+ G +Gs+  +++ ++g++v+a+++                  d++++ +++++  +   + +v++AA        ++ +
  PHY93_21260|PHY93_21260   3 KILVTGGAGFIGSNFCNLMVKKGHDVTAFDNLslgvkenlvpevklvVGDVKNRVELESAGMD--FEYIVHLAASSSAPMFVDHLR 86 
                              79***************************8777999999999987777788888888887777..778*********999999999 PP

                              HHHHHHTHHHHHHHHHHHHCT-E.EEEEEEGGGS-S-TTS-B-TTS----SSHHHHHHHHHHHHHHH....H-SSEEEEEE-SEES CS
            RmlD_sub_bind  73 aayavnaeavealAeaaaavgal.LihvStDyVFdGekkrpYeeddetsPlnvYGrtKlaGEqavla....agkkalivRtswvyg 153
                               +++ n  +   + + a+ ++a+ +++ St  ++ G++++p +ed+ + P n+Y  tK+  E + +     +  +++ +R+  vyg
  PHY93_21260|PHY93_21260  87 DSMENNIMGHLDVLNFARDIKAKkVMFASTSSIY-GNNPTPLTEDQFVLPPNFYSVTKHSQESTSRVyskvYDLEIIAFRFMSVYG 171
                              9999******999999999998636678888888.788************************986662232334677789999998 PP

                              S...S CS
            RmlD_sub_bind 154 e...k 155
                                  +
  PHY93_21260|PHY93_21260 172 PnegH 176
                              74333 PP

>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.7   0.0   4.2e-07   0.00062       1     111 [.       8     129 ..       8     164 .. 0.76

  Alignments for each domain:
  == domain 1  score: 19.7 bits;  conditional E-value: 4.2e-07
                              TTTSHHHHHHHHHHHHC-T-EEEEEETTHHHCHHHHCTTTCEEEE--TT-CCHHHHHHTT-S.EEEES---TCC.......HHHH. CS
           NAD_binding_10   1 GAtGkvGrllvkellargghevtalvRnpeklaeleaeeglevvegdvtdvedlaealkgad.aVvsalggggk.......deeg. 77 
                              G+ G +G+  ++  +++ gh+vta+   +  ++e    +++++v+gdv +  +l++a  + + +V  a+++++        d  + 
  PHY93_21260|PHY93_21260   8 GGAGFIGSNFCNLMVKK-GHDVTAFDNLSLGVKENL-VPEVKLVVGDVKNRVELESAGMDFEyIVHLAASSSAPmfvdhlrD--Sm 89 
                              99***************.5******55555666543.59******************9999945666665555588766541..13 PP

                              ......HHHHHHHHHHCT--EEEEEEETTTTSGCGCHHHH CS
           NAD_binding_10  78 ......aknivdaakeagvkRfvlvsaigvgdevpgefge 111
                                    +  +++ a+  + k++ + s+  ++ + p+++ e
  PHY93_21260|PHY93_21260  90 ennimgHLDVLNFARDIKAKKVMFASTSSIYGNNPTPLTE 129
                              4455677777899999999999999999999876666544 PP

>> NmrA  NmrA-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.9   0.0   8.3e-05      0.12       1      28 [.       4      31 ..       4      78 .. 0.74
   2 ?    4.3   0.0     0.017        25     148     229 ..     180     259 ..     160     262 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 8.3e-05
                             EEESSTTSHHHHHHHHHHHHHT-EEEEE CS
                     NmrA  1 IlviGaTGrqGksvvrallkaghkvral 28
                             Ilv+G++G +G+ + + ++k+gh+v a 
  PHY93_21260|PHY93_21260  4 ILVTGGAGFIGSNFCNLMVKKGHDVTAF 31
                             9************************996 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.017
                              -BSSS-SS-BEEE-TTS.-EEEEESS-TTS-EE-HHHHHHHHHHHHHHHHHHHTTEEEE.E-SEEE-HHHHHHHHHHHHTS-E CS
                     NmrA 148 flsllaqlkvgdtappedkvtllgpgnpkavlldaeeDiGafvikilkdprklkgkrik.lagntlsgneivelfekkigktv 229
                              f+ +l q  +   +++++ ++l g+g  +  +  +++D+ + +  +++ ++k+  ++ +  + + + + e+v++++k++g ++
  PHY93_21260|PHY93_21260 180 FANVLSQ--FIWGMKMGKPAILYGDGTQERDFT-NVRDVVQGIELAMNSEKKYGFNIFNiGTAEAINLIELVKIINKVMGTSI 259
                              5555555..333444444679999999888888.*******************555554157899**************9876 PP

>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.1   2.1e-05     0.031       2      63 ..       3      58 ..       2     128 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 2.1e-05
                             EEEEESTTSHHHHHHHHHHHHTT-EEEEEESCHHHHHHHHHHHHHTTSEEEEEE-TTTSHHH CS
                adh_short  2 vvlvtGassGIGraiakelakeGakvvvvdrseekleevakelkeegakalaiqvDvtdree 63
                              +lvtG+++ IG ++++ ++k+G +v+++d+ +  +   +++l     ++  + +Dv++r e
  PHY93_21260|PHY93_21260  3 KILVTGGAGFIGSNFCNLMVKKGHDVTAFDNLSLGV---KENLVP---EVKLVVGDVKNRVE 58
                             58*************************998764433...333333...36666666666555 PP

>> Mob1_phocein  Mob1/phocein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00014      0.22      57     128 ..      62     157 ..      49     169 .. 0.85
   2 ?    0.2   0.0      0.45   6.8e+02      26      50 ..     241     266 ..     238     276 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00014
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.............................xxxxxxxxxxxxxxxxxx RF
             Mob1_phocein  57 agpkyeYlwadeevkkpvklsApeYidllmdwiesqlnd.............................lfpskagspfpknflkvv 113
                              ag  +eY  +      +++ sAp ++d+l d +e+++                               +  ++ +   p+nf++v 
  PHY93_21260|PHY93_21260  62 AGMDFEYIVHL-----AASSSAPMFVDHLRDSMENNIMGhldvlnfardikakkvmfastssiygnnpTPLTEDQFVLPPNFYSVT 142
                              55444444444.....4578*****************99999***********************9975555666789******** PP

                              xxxxxxxxxxxxxxx RF
             Mob1_phocein 114 kkilkrlfrvyaHiY 128
                              k+  +   rvy+ +Y
  PHY93_21260|PHY93_21260 143 KHSQESTSRVYSKVY 157
                              *************99 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.45
                              xxxxxxxxxxxxxxxxx.xxxxxxxx RF
             Mob1_phocein  26 avhvvdffneinllygt.isefcteq 50 
                              a++++++++ in ++gt i+  c e+
  PHY93_21260|PHY93_21260 241 AINLIELVKIINKVMGTsIEPQCIEN 266
                              78999************899999775 PP

>> TrkA_N  TrkA-N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   8.8e-05      0.13       5      61 ..       9      65 ..       4      95 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 8.8e-05
                             S-SHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHTTSEEEES-TTSHHHHHHTTGG CS
                   TrkA_N  5 GlGrvGrslaeeLseggkdvvvidkdeerveelreeglevvvgdatdeevLeeagie 61
                             G+G +G++ ++ + ++g+dv++ d+    v+e    +++ vvgd+ ++  Le+ag++
  PHY93_21260|PHY93_21260  9 GAGFIGSNFCNLMVKKGHDVTAFDNLSLGVKENLVPEVKLVVGDVKNRVELESAGMD 65
                             89*************5558********99***99999******************86 PP

>> KR  KR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.7   0.00043      0.64       3      25 ..       4      26 ..       2     125 .. 0.91

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00043
                             EEEETTTSHHHHHHHHHHHHHHS CS
                       KR  3 ylitGGlGgLGlelarwlaekga 25
                              l+tGG+G +G  +++ +++kg 
  PHY93_21260|PHY93_21260  4 ILVTGGAGFIGSNFCNLMVKKGH 26
                             69*******************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (314 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       427  (0.0238162); expected 358.6 (0.02)
Passed bias filter:                      379  (0.0211389); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.61u 0.70s 00:00:01.31 Elapsed: 00:00:00.55
# Mc/sec: 1713.31
//
Query:       PHY93_18240|PHY93_18240  [L=408]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.5e-42  145.1  40.5    2.5e-42  145.1  40.5    1.4  1  MFS_1     Major Facilitator Superfamily
    1.1e-11   44.2  10.1    1.1e-11   44.2  10.1    3.0  2  Sugar_tr  Sugar (and other) transporter
    9.1e-09   34.2   8.5    1.7e-08   33.3   8.5    1.3  1  MFS_3     Transmembrane secretion effector
  ------ inclusion threshold ------
        5.3    6.9  14.0        0.2   11.5   5.2    2.9  3  DUF2427   Domain of unknown function (DUF2427)


Domain annotation for each model (and alignments):
>> MFS_1  Major Facilitator Superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  145.1  40.5   5.6e-46   2.5e-42       4     349 ..      25     367 ..      22     372 .. 0.85

  Alignments for each domain:
  == domain 1  score: 145.1 bits;  conditional E-value: 5.6e-46
                    MFS_1   4 aaflsalarsilgpalplalaedlgispseigllltlyalgaavaslplGrlsdrfGrrrvlllglllfalglllllfasslwlll 89 
                              ++++  l++++++pa+p  +++++ + +s+i l l+++++g a+++l++G+l+d +Gr++ l+lg+l+++++++ ++f++++ +++
  PHY93_18240|PHY93_18240  25 LTAFDPLSIDMYLPAFP-QIGKSFSVGASSIELSLSAFFIGLALGQLIYGPLADIYGRKKPLILGMLIYFFASIGCSFSTNIEMFI 109
                              56788899*********.8*****************************************************77777977777*** PP

                    MFS_1  90 vlrvlqGlgagalfpagaaliadwfpkeergraigllsagfslGailgpllggllasslgWravfyilaivsllafvlfllllpee 175
                               +rvlq+lg+++++ +  a+++d+f k++ +  +++l++ +++++il+pllgg+l+  +gWr +f +l+++sl+++ + ll+lpe+
  PHY93_18240|PHY93_18240 110 TFRVLQALGGCSGMVITRAIVSDLFDKKRAAHIYSMLMLVMGVAPILAPLLGGYLTKFFGWRIIFDVLGLLSLISIACTLLFLPET 195
                              ******************************************************************************99****** PP

                    MFS_1 176 pperkrkspkeeekgtgpaplvp...awkallkdpvlwillialllfffgfsglltllplylqevlglsglllaglllallalvga 258
                              +++   k+ ++     + + l+p   ++  l+kd+v++++ ++  l+ ++++++ + +p+ + + +g +     gl+++  a++++
  PHY93_18240|PHY93_18240 196 HKPTLAKTARPG----FFSLLKPtliGYYDLCKDRVFMSYSLSGGLMRAAMFAYIAGSPFVFITLFGVP-PEKYGLIFGTNAVGII 276
                              ******999999....88888889999**********655555556666777799999**99*******.6777777888888777 PP

                    MFS_1 259 ilallagrlsdrlgr.rrrlllallllllaalglallavtssavllllvlvliGfglgfvfpsllalasdlappeeagtasglfnt 343
                              +++ +  +l++r++   ++ ++++++ll+a+++++   +++s ++ll++l+l+ +++gf+fp ++al   + + ++ag+as+l +t
  PHY93_18240|PHY93_18240 277 GSSQINRFLLRRFSLeTIYKNVMYASLLMALILVINSIFFHSLFALLIPLFLLMTTMGFIFPNSAALGLAHQG-HRAGMASALLGT 361
                              7877888888998873334444444444444444444444555777777777777999999999999999887.9********997 PP

                    MFS_1 344 agslgg 349
                              ++   +
  PHY93_18240|PHY93_18240 362 LQWSIA 367
                              765444 PP

>> Sugar_tr  Sugar (and other) transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.2  10.1   2.5e-15   1.1e-11      48     194 ..      54     195 ..      40     205 .. 0.93
   2 ?   -2.2   8.0      0.31   1.4e+03     385     431 ..     353     399 ..     268     405 .. 0.83

  Alignments for each domain:
  == domain 1  score: 44.2 bits;  conditional E-value: 2.5e-15
                              HHHHHHTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHH-TTTTSS-TGGGGGHHHHHHHHHHHHHHHHHHHHTTS-S CS
                 Sugar_tr  48 sglivsiflvGaiiGslfagllgdrfGRkkslliaavlfvigavlqaaakgknsvevlivgRvlvGigvGlasvlvPmyisEiApk 133
                              + l++s+f++G ++G+l+ g+l+d++GRkk l+ + ++++ +++ + +++   ++e++i+ Rvl  +g     v++   +s +  k
  PHY93_18240|PHY93_18240  54 IELSLSAFFIGLALGQLIYGPLADIYGRKKPLILGMLIYFFASIGCSFST---NIEMFITFRVLQALGGCSGMVITRAIVSDLFDK 136
                              66889*********************************************...***************999999************ PP

                              CCHHHHHHHHHHHHHHHHHHHHHHHHHHHTSS-TTHHHHHHHCCHHHHHHHHHHG.GGS--- CS
                 Sugar_tr 134 klRgalvslyqlaitfGilvaaifglglnktsnadgwrillglqlvpallllill.lflPES 194
                              k +  + s+  l + +  ++a  +g  l k+ +   wri + +  +++l+ +++  lflPE+
  PHY93_18240|PHY93_18240 137 KRAAHIYSMLMLVMGVAPILAPLLGGYLTKFFG---WRIIFDVLGLLSLISIACTlLFLPET 195
                              *********99999999****************...*******99999998877549****9 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 0.31
                              HHHHHHHHHHHHHHHHHHHHHHHHHHCHHHT-HHHHHHHHHHHHHHH CS
                 Sugar_tr 385 skalaiavavnwlanflisllfpiiteaigggyvflvfaglavlfii 431
                              + a+a+  +++w + f+ s++  +++++   ++++++f++ +++++ 
  PHY93_18240|PHY93_18240 353 GMASALLGTLQWSIAFFSSFFVSFFHNNTPTPMTGVIFTSTLMAALC 399
                              46888888999999999999999999999999999999887766654 PP

>> MFS_3  Transmembrane secretion effector
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.3   8.5   3.8e-12   1.7e-08      62     312 ..      69     323 ..      56     340 .. 0.77

  Alignments for each domain:
  == domain 1  score: 33.3 bits;  conditional E-value: 3.8e-12
                    MFS_3  62 silaGalaDnfdrRkvllavqlllalvsvlltvlaalgllspwlllaltlligiGaalndPaWqAsvgelvkrrdvpaAvaLnsvg 147
                               ++ G laD++ r+k l+ ++l+   +s+    ++ +++      +++ +l ++G    +   +A+v++l +++       +  + 
  PHY93_18240|PHY93_18240  69 QLIYGPLADIYGRKKPLILGMLIYFFASIGCSFSTNIEM-----FITFRVLQALGGCSGMVITRAIVSDLFDKKRAAHIYSMLMLV 149
                              478899**********************99999887775.....57777777888888888889*************9999999** PP

                    MFS_3 148 iniaRsvGPAlgGvlvaavGaalafavna.lsylalivallrwkrevrks..slprEkllealragl........Rftaasreika 222
                              + +a    P lgG l  ++G  + f v   ls + + ++ll    + ++   +  r  +++ l+ +l          + +s ++  
  PHY93_18240|PHY93_18240 150 MGVAPILAPLLGGYLTKFFGWRIIFDVLGlLSLISIACTLLFLPETHKPTlaKTARPGFFSLLKPTLigyydlckDRVFMSYSLSG 235
                              *************************8865156666666776555444332113334445555554432111111145679999999 PP

                    MFS_3 223 vlvRaalFglsasavlaLLPlvardqldgdalvyGillgalGvGAilgalllsrLRerlsserl...vllaavalAlvllslalas 305
                               l+Raa+F   a +     P+v     +  +  yG+++g+  vG i+++ ++ +L +r+s e++   v++a++ +Al+l++ ++  
  PHY93_18240|PHY93_18240 236 GLMRAAMFAYIAGS-----PFVFITLFGVPPEKYGLIFGTNAVGIIGSSQINRFLLRRFSLETIyknVMYASLLMALILVINSIFF 316
                              99999999877776.....99999999***********************************985556788999999888877654 PP

                    MFS_3 306 slwvavl 312
                              +   a+l
  PHY93_18240|PHY93_18240 317 HSLFALL 323
                              4333332 PP

>> DUF2427  Domain of unknown function (DUF2427)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.1      0.44     2e+03      19      34 ..     139     154 ..     105     160 .. 0.62
   2 ?    0.1   0.4      0.15   6.6e+02      75     100 ..     294     319 ..     275     326 .. 0.59
   3 ?   11.5   5.2   4.5e-05       0.2      17     103 ..     321     405 ..     317     407 .. 0.85

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.44
                  DUF2427  19 wvHiilmtlalvvvyP 34 
                               +Hi  m++ ++ v P
  PHY93_18240|PHY93_18240 139 AAHIYSMLMLVMGVAP 154
                              4555555555555544 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.15
                  DUF2427  75 lypnniyaklswillillavqvvlav 100
                               y+n +ya+l   l++++   ++ ++
  PHY93_18240|PHY93_18240 294 IYKNVMYASLLMALILVINSIFFHSL 319
                              55555555555555555444444333 PP

  == domain 3  score: 11.5 bits;  conditional E-value: 4.5e-05
                  DUF2427  17 alwvHiilmtlalvvvyPvalvLslaksrwylpvqivnlvlavlglllghiykgstPelypnniyaklswillillavqvvlavll 102
                              al++  +l+++++++++P + +L+la++     +  + l ++  ++++++ +  s+  + +n+    +++i++ +l++ ++la+++
  PHY93_18240|PHY93_18240 321 ALLIPLFLLMTTMGFIFPNSAALGLAHQGHRAGMASALLGTLQWSIAFFSSFFVSF--FHNNTPTPMTGVIFTSTLMAALCLALIT 404
                              566778999******************99999999999999999999999999998..7666666667888888899999999998 PP

                  DUF2427 103 k 103
                              k
  PHY93_18240|PHY93_18240 405 K 405
                              6 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (408 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       858  (0.0478554); expected 358.6 (0.02)
Passed bias filter:                      327  (0.0182386); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.68u 0.60s 00:00:01.28 Elapsed: 00:00:00.53
# Mc/sec: 2320.35
//
Query:       PHY93_18245|PHY93_18245  [L=229]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.015   15.2   0.3      0.043   13.7   0.3    1.9  1  zf-U11-48K  U11-48K-like CHHC zinc finger
          2    9.4   8.8        5.6    8.0   8.8    1.9  1  Fer4_16     4Fe-4S double cluster binding domain


Domain annotation for each model (and alignments):
>> zf-U11-48K  U11-48K-like CHHC zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.3   4.8e-06     0.043       4      22 ..     197     215 ..     194     216 .. 0.93

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 4.8e-06
               zf-U11-48K   4 CPyNpsHrvpesrLqkHlk 22 
                              CPy + H++  +++q+H++
  PHY93_18245|PHY93_18245 197 CPYQREHQYKLEQIQYHMT 215
                              *****************97 PP

>> Fer4_16  4Fe-4S double cluster binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   8.8   0.00063       5.6       2      38 ..     147     184 ..     146     226 .. 0.80

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.00063
                  Fer4_16   2 CgtCgk..CaevCPtnaikekkekeiearecisyntaek 38 
                              C +C+   C+++CP++ai     ++++   c + +t ++
  PHY93_18245|PHY93_18245 147 CESCETkdCISACPAAAIALS-GESLKLGSCANHRTLKD 184
                              99997667**********998.56777777776644444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (229 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       489  (0.0272742); expected 358.6 (0.02)
Passed bias filter:                      267  (0.0148921); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.49s 00:00:01.00 Elapsed: 00:00:00.48
# Mc/sec: 1442.95
//
Query:       PHY93_18250|PHY93_18250  [L=407]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0022   18.3   0.2      0.028   14.7   0.0    2.8  2  Wzz              Chain length determinant protein
  ------ inclusion threshold ------
       0.03   14.1   1.0      0.075   12.9   0.7    1.9  1  DUF1854          Domain of unknown function (DUF1854)
      0.075   13.2   0.3       0.15   12.3   0.3    1.4  1  PEP-utilisers_N  PEP-utilising enzyme, N-terminal
        0.1   12.7   0.1       0.32   11.1   0.1    1.9  1  DUF4951          Domian of unknown function (DUF4951)
       0.11   12.7  12.4       0.54   10.5   1.5    3.5  3  XhlA             Haemolysin XhlA


Domain annotation for each model (and alignments):
>> Wzz  Chain length determinant protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.0   7.7e-06     0.028       1      32 [.       5      36 ..       5      45 .. 0.94
   2 ?   -0.5   0.0      0.42   1.5e+03      45      81 ..     152     206 ..     149     214 .. 0.49

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 7.7e-06
                             XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                      Wzz  1 eeiDLieLlsvLwkrkklIilvtllfallavi 32
                             +ei+L ++l+++ kr+k +i+++l+f+l+a+i
  PHY93_18250|PHY93_18250  5 DEISLHQILQIFTKRWKYLIVLALFFTLGALI 36
                             79***************************997 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.42
                              EEEES--CHHH.HH.HHHHCC................HHHHHHHHHHHHHHHHHS CS
                      Wzz  45 aqilvpekkqv.ea.ssltaq................dvqanlqlasteieilkS 81 
                              a ilv + k++ ++ s++ ++                d+++  ++++ eie  +S
  PHY93_18250|PHY93_18250 152 ADILVVDAKSNnKElSVILVNetlkeaqknliereldDLNRAENYFKLEIEGVRS 206
                              5566666666432224444444444333333333444444444566666655555 PP

>> DUF1854  Domain of unknown function (DUF1854)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.7   2.1e-05     0.075      17      75 ..     152     217 ..     139     249 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 2.1e-05
                  DUF1854  17 eyislvded..gkElaiiedladLdeesrklleeeL.....arrefvpeIkrIksvsekagpstwe 75 
                                i +vd++  +kEl +i   ++L+e++++l+e+eL     a+++f  eI+ ++s  ++ ++st++
  PHY93_18250|PHY93_18250 152 ADILVVDAKsnNKELSVILVNETLKEAQKNLIERELddlnrAENYFKLEIEGVRSRLDRIENSTVT 217
                              445556555559************************444444799*****9999888777777654 PP

>> PEP-utilisers_N  PEP-utilising enzyme, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.3   4.1e-05      0.15      22      99 ..     176     261 ..     157     272 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 4.1e-05
                              ---G.GGHHHHHHHHHHHHHHHHHHHHHHHHHH........T-HHHHHHHHHHHHHHT-HHHHHHHHHHHHHHT--HHHHHHHHHH CS
          PEP-utilisers_N  22 eeveaedveaelerleeAlekvreelealaeka........lgeeeaaifeahlmlleDpelleeveerIregglnaeaAveevve 99 
                              +e++++ +e+el+ l++A +  + e+e +++++         + ++ +if++ ++  e +++++e++++I++++++  + v++ +e
  PHY93_18250|PHY93_18250 176 KEAQKNLIERELDDLNRAENYFKLEIEGVRSRLdrienstvTKMQKNQIFSVDMEKGESSKYIGELKKNINNAKISLSNNVSKIAE 261
                              455556688999888888888888887766555554444454445699***********************999998888877665 PP

>> DUF4951  Domian of unknown function (DUF4951)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.1   8.9e-05      0.32      22      71 ..     202     252 ..     198     263 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 8.9e-05
                  DUF4951  22 egarqrleniqredveii.kqkGvtlemikawqefyeqeaqrdannPtary 71 
                              eg r rl+ i++  v+ + k++  +++m k   + y  e ++++nn     
  PHY93_18250|PHY93_18250 202 EGVRSRLDRIENSTVTKMqKNQIFSVDMEKGESSKYIGELKKNINNAKISL 252
                              899***********98772556779*********************87665 PP

>> XhlA  Haemolysin XhlA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   1.5   0.00015      0.54       8      48 ..     174     215 ..     172     216 .. 0.92
   2 ?    8.1   0.6   0.00083         3      20      50 ..     238     268 ..     231     279 .. 0.91
   3 ?   -2.1   0.1       1.3   4.7e+03       5      18 ..     300     313 ..     285     316 .. 0.69

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00015
                     XhlA   8 rietkldnlee.rvdkleekaaeaeekiknleedlkklesnq 48 
                              ++++ ++nl e ++d+l++ ++ ++ +i+ +  +l+++e+++
  PHY93_18250|PHY93_18250 174 TLKEAQKNLIErELDDLNRAENYFKLEIEGVRSRLDRIENST 215
                              788899999998***************************875 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.00083
                     XhlA  20 vdkleekaaeaeekiknleedlkklesnqkW 50 
                              + +l+++ ++a+ ++ n+  ++++l+ n+k 
  PHY93_18250|PHY93_18250 238 IGELKKNINNAKISLSNNVSKIAELQTNIKA 268
                              6789*************************97 PP

  == domain 3  score: -2.1 bits;  conditional E-value: 1.3
                     XhlA   5 rlerietkldnlee 18 
                              +l++ +t l+n+e+
  PHY93_18250|PHY93_18250 300 ELKTYQTYLKNYET 313
                              45666666777766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (407 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1775  (0.0990016); expected 358.6 (0.02)
Passed bias filter:                      556  (0.0310112); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.63u 0.66s 00:00:01.29 Elapsed: 00:00:00.51
# Mc/sec: 2393.90
//
Query:       PHY93_18255|PHY93_18255  [L=172]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.5e-08   32.1   0.0    1.2e-07   31.5   0.0    1.3  1  SLBB      SLBB domain


Domain annotation for each model (and alignments):
>> SLBB  SLBB domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.5   0.0   6.5e-12   1.2e-07       2      46 ..      53      97 ..      52     102 .. 0.91

  Alignments for each domain:
  == domain 1  score: 31.5 bits;  conditional E-value: 6.5e-12
                             EEEESSBSS-EEEEEETT-BHHHHHHTTT-SBSS.........-E CS
                     SLBB  2 VtVtGeVkrPgnyevpigttlsdlieqaGGltddadlksvnLarl 46
                             +++ G++k+ g y +p ++ l  l+++aGG t dadl+++ ++  
  PHY93_18255|PHY93_18255 53 IRLLGAIKNAGLYHIPTNMKLTTLLALAGGTTTDADLENIIIGND 97
                             5789**********************************9998875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (172 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       629  (0.0350828); expected 358.6 (0.02)
Passed bias filter:                      343  (0.019131); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.55s 00:00:01.02 Elapsed: 00:00:00.46
# Mc/sec: 1115.87
//
Query:       PHY93_18260|PHY93_18260  [L=433]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.1e-10   39.9   6.2    3.1e-10   39.9   6.2    3.4  3  Wzy_C     O-Antigen ligase


Domain annotation for each model (and alignments):
>> Wzy_C  O-Antigen ligase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   2.6     0.063   1.1e+03      19      49 ..      51      93 ..      37     114 .. 0.54
   2 ?   -2.2   8.4      0.15   2.8e+03      13      59 ..     107     158 ..      95     168 .. 0.58
   3 !   39.9   6.2   1.7e-14   3.1e-10       2     154 ..     214     363 ..     213     401 .. 0.83

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 0.063
                    Wzy_C 19 iigllvalivlliifykrri............pfllllgilvg 49
                             +i +++ ++++li++y ++             ++++ l++++ 
  PHY93_18260|PHY93_18260 51 YINFGLQFVIALILLYVWLKkshavtlspiykSYIYSLMAVLS 93
                             5556555555555555555544447765544322222222222 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 0.15
                    Wzy_C  13 stsRsgiigllvalivlliifykrri.......pfllllgilvgvilliilfvl 59 
                              s + + i gl+ al+++l+  y   i       +f++++  +++v++++ ++ l
  PHY93_18260|PHY93_18260 107 SSALVQIAGLGMALMLILV--YGIIIptlfdlkKFIYWITRICVVLVVASFLCL 158
                              4444444444333333322..222223456888999****77777777777665 PP

  == domain 3  score: 39.9 bits;  conditional E-value: 1.7e-14
                    Wzy_C   2 alllsllalflstsRsgiigllvalivlliifykrri.....pfllllgilvgvilliilfvlstnletlknitkafgkldkkkgk 82 
                              ++++++la++l+ + +++ ++++a  v++++f  ++      +f +l+ ++v v+l+ ++ +  + ++ ++  +  fg     +++
  PHY93_18260|PHY93_18260 214 VIFILALAVLLTSTKAAFGTMAIAGFVGIFLFGSKKKsirlfKFSFLSCFFVSVLLIGAPTS--QFMYEVTTGKTGFGL----RKA 293
                              689999***************99999999999999996776666666666666666666655..889999988888885....999 PP

                    Wzy_C  83 dksgssRlyiwkralplikdspilGtGvfdfpqgdligkyyaydtpnivvdkaHNlyLqilvetGiiGlvlf 154
                              ++  s R++   r+++++++sp +G G     ++ +++ +  +  + + ++ +HNl++  +v  G + +++ 
  PHY93_18260|PHY93_18260 294 QDGVSTRMEEVTRGWSMFEKSPYFGLGL--LYKFLNNSQEGIEVESYNSFKDPHNLFVSAAVIGGYPLFIFA 363
                              9**************************2..2333333333334444556788*************9999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (433 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       862  (0.0480785); expected 358.6 (0.02)
Passed bias filter:                      273  (0.0152267); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.60u 0.49s 00:00:01.08 Elapsed: 00:00:00.47
# Mc/sec: 2759.77
//
Query:       PHY93_18265|PHY93_18265  [L=325]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   6.1e-122  406.6   0.0   7.2e-122  406.4   0.0    1.0  1  Methyltransf_10  RNA methyltransferase
    3.8e-07   29.8   0.0    6.4e-07   29.1   0.0    1.3  1  MTS              Methyltransferase small domain
     0.0011   18.4   0.0     0.0017   17.8   0.0    1.2  1  PrmA             Ribosomal protein L11 methyltransferase (Prm
     0.0082   16.8   0.0      0.017   15.8   0.0    1.5  1  Methyltransf_25  Methyltransferase domain
     0.0094   15.6   0.0      0.015   15.0   0.0    1.2  1  UPF0020          Putative RNA methylase family UPF0020
  ------ inclusion threshold ------
      0.015   15.1   0.0      0.026   14.3   0.0    1.4  1  Methyltransf_23  Methyltransferase domain
      0.048   13.5   0.0        0.1   12.4   0.0    1.6  1  Methyltransf_31  Methyltransferase domain
      0.074   13.7   0.0       0.17   12.6   0.0    1.6  1  Methyltransf_11  Methyltransferase domain


Domain annotation for each model (and alignments):
>> Methyltransf_10  RNA methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  406.4   0.0  3.2e-125  7.2e-122       3     298 ..      11     312 ..       9     313 .. 0.97

  Alignments for each domain:
  == domain 1  score: 406.4 bits;  conditional E-value: 3.2e-125
                              XXSSSXTTXTTTTSXXHHHHHHHXHHHHTTXEEXTTSXEES-TTSHHHHHHHHHHHHHHHH----.---TTS----HHHHHHHHHH CS
          Methyltransf_10   3 lksglhprnrhkdkydfaalikvvPelkqfvilnpkGrvsidfadPlavkalnkallrefygvsewdiPdgfliPpvPgradyihy 88 
                              lk+glhprnrh+++ydf++l+k +Pel +fv +n +   sidfa+P avk ln+a+l+ fy++++w+iP ++l+Pp+Pgradyih+
  PHY93_18265|PHY93_18265  11 LKPGLHPRNRHNSRYDFPELMKRTPELTKFVSKNKYNDDSIDFANPDAVKTLNQAILKYFYNITNWNIPLNYLCPPIPGRADYIHQ 96 
                              689*********************************************************************************** PP

                              HHHHHTGGGSG.TTS..--EEEEES-TTTTHHHHHHHHHH--EEEEEES-HHHHHHHHHHHHHT.T-TTTEEEEE--TT-SCCHHS CS
          Methyltransf_10  89 vadllgkadsd.isa..qvraldiGvGanCiyPllGvteyGWrfvgsevddvslasakaivesnsklsdaiklrkqkekkaifdgl 171
                              +adllg+++++ i++  q+r+ld+GvGanC+yPl+   eyGW+fvgs++d+ +++s k+i+e+n +lsd iklr q  +k+if+g+
  PHY93_18265|PHY93_18265  97 IADLLGSKNGGtIPTgdQIRVLDVGVGANCVYPLIAFREYGWNFVGSDIDPTAINSGKQIIEAN-NLSDSIKLRLQTSSKNIFKGI 181
                              ******999876999999**********************************************.********************* PP

                              STTSS-EEEEEE-S---SS------------...---.........---------TTTSHHHHHHHHHHHHHHHHHHHHGGGEEEE CS
          Methyltransf_10 172 ieenerydvtlCnPPfhaslaeakagserklknlgkank....tralpslnfgGqkaelyceGGevafikklieeskqlakqvlWf 253
                              i+e+e +d+t+ nPPfh+sl+ea++g++rk+knlg+ ++     r +++lnfgG  +el+c+GGevaf +k+iees +++ + +Wf
  PHY93_18265|PHY93_18265 182 IHEKEFFDITISNPPFHSSLEEAQEGNQRKTKNLGRGKEfsnaPRKTTTLNFGGVGNELWCDGGEVAFATKMIEESIEFKSNCFWF 267
                              ***********************************97666655555678************************************* PP

                              EEEESSGGGHHHHHHHHHHTT-SEEEEEEEEETTEEEEEEEEES- CS
          Methyltransf_10 254 ttlvskkenlaplkeelkklGaskvtvvelaqGqklsrfiaWsfl 298
                              +tl+sk ++l+ ++eelkk G+ + +++++aqGqk sr++aW+f 
  PHY93_18265|PHY93_18265 268 STLISKYTSLPIIYEELKKAGVLDFKTIDMAQGQKKSRIVAWTFK 312
                              *******************************************96 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.1   0.0   2.8e-10   6.4e-07      31     115 ..     113     205 ..     107     213 .. 0.86

  Alignments for each domain:
  == domain 1  score: 29.1 bits;  conditional E-value: 2.8e-10
                              TCSEEEEET-TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHTTGC......EEEEE-STTTTST..TS-EEEEEE---ST CS
                      MTS  31 lsgkvlDlGcGaGvlgaalakespeaevtlvdvdarAlesakenleankle......vevvasdvleeve..ekkfdlivsNPPfh 108
                               + +vlD+G Ga  +   +a ++   + +  d+d  A++s k+ +ean+l+      +++  +++++ +   ++ fd+ +sNPPfh
  PHY93_18265|PHY93_18265 113 DQIRVLDVGVGANCVYPLIAFREYGWNFVGSDIDPTAINSGKQIIEANNLSdsiklrLQTSSKNIFKGIIheKEFFDITISNPPFH 198
                              55679**********99999999999************************99988888888999999975325669********** PP

                              TTCHCHH CS
                      MTS 109 agkatel 115
                              ++ ++ +
  PHY93_18265|PHY93_18265 199 SSLEEAQ 205
                              *987655 PP

>> PrmA  Ribosomal protein L11 methyltransferase (PrmA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.0   7.6e-07    0.0017     164     233 ..     116     194 ..     108     195 .. 0.72

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 7.6e-07
                     PrmA 164 evlDvGtGSG.iLaiaaakLgakkvvavDiDevAvkvakeNaelNkveakleval...seellk.....eekadvivaN 233
                              +vlDvG G+  +  + a +    + v+ DiD+ A+++ k+ +e N++++++++ l   s++++k     +e +d+ ++N
  PHY93_18265|PHY93_18265 116 RVLDVGVGANcVYPLIAFREYGWNFVGSDIDPTAINSGKQIIEANNLSDSIKLRLqtsSKNIFKgiiheKEFFDITISN 194
                              79******862666666666667899***********************999865111333333344335566777766 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.0   7.5e-06     0.017       1      77 [.     117     201 ..     117     214 .. 0.71

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 7.5e-06
                              EEEET-TTSHHHHHHH.CTSTSSEEEEEESSHHHHHHHHHHHHHTTT......TEEEEESBC.CGBSSSTTTEEEEEEEST.GGG. CS
          Methyltransf_25   1 vLdlGcGtGrltlala.krlgkakvtgvDiseemleaareraeeegl......nvefvqgda.edlpfedgsfDlvvssga.lhh. 76 
                              vLd+G G   +   +a +++g  +++g Di++++++  ++ +e+++l      +++   +++ + +  e++ fD+ +s+   +h  
  PHY93_18265|PHY93_18265 117 VLDVGVGANCVYPLIAfREYG-WNFVGSDIDPTAINSGKQIIEANNLsdsiklRLQTSSKNIfKGIIHEKEFFDITISN-PpFHSs 200
                              8******98665544414446.********************99999994433333333444233557999****9995.547763 PP

                              S CS
          Methyltransf_25  77 l 77 
                              l
  PHY93_18265|PHY93_18265 201 L 201
                              3 PP

>> UPF0020  Putative RNA methylase family UPF0020
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   6.8e-06     0.015      77     141 ..     138     207 ..     129     220 .. 0.79

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 6.8e-06
                              --EEEEES-HHHHHHHHHHHHHTT-GGGEEEE.E--GGG--....STTS---EEEE----------HHHH CS
                  UPF0020  77 lklygsDldrrvvqgareNaekagvgdliefs.qadaakLr....lkegevdvivtnpPYGerlgskkal 141
                               +++gsD+d+ +++ +++  e+ +++d+i+++ q   +++     ++++ +d+ ++npP+  +l+++++ 
  PHY93_18265|PHY93_18265 138 WNFVGSDIDPTAINSGKQIIEANNLSDSIKLRlQTSSKNIFkgiiHEKEFFDITISNPPFHSSLEEAQEG 207
                              4599***************99999999999873333333333665566689**************99876 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0   1.2e-05     0.026      24      62 ..     108     191 ..      81     233 .. 0.70

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.2e-05
          Methyltransf_23  24 g.......rvLdiGcGtGillevl..rengfsvtgvDlspeaveiae....................................k 62 
                                      rvLd+G G   + +++  re+g++++g D++p a++  +                                    +
  PHY93_18265|PHY93_18265 108 TiptgdqiRVLDVGVGANCVYPLIafREYGWNFVGSDIDPTAINSGKqiieannlsdsiklrlqtssknifkgiihekeffdiT 191
                              14444455**********77665556**************99997766666666666666666655555555555555555554 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   4.6e-05       0.1       3      84 ..     113     197 ..     111     223 .. 0.74

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 4.6e-05
          Methyltransf_31   3 kglrvlDlGCGtGeltfelaeelgp.kaevvGiDiseeaielArenaqklgld.nveFeq....gdiee.leklledekfDlilsn 81 
                              + +rvlD+G G+ + ++ l    ++ + ++vG Di+++ai++ +++ + ++l+  ++++      +i++ +    e+e fD+ +sn
  PHY93_18265|PHY93_18265 113 DQIRVLDVGVGA-NCVYPLI-AFREyGWNFVGSDIDPTAINSGKQIIEANNLSdSIKLRLqtssKNIFKgII--HEKEFFDITISN 194
                              5789*****999.7777777.34443678****************999999887555555222255555544..455889999998 PP

          Methyltransf_31  82 evl 84 
                               ++
  PHY93_18265|PHY93_18265 195 PPF 197
                              666 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   7.6e-05      0.17       1      73 [.     118     199 ..     118     211 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 7.6e-05
                              EEET-TTSHHHHHHH..HTTSEEEEEES-HHHHHHHHHHCCHHT-......EEEETTEECCC.TSS-TT-EEEEEEES-CCC CS
          Methyltransf_11   1 LdvGcGtGrlaeala..krgarvvgvDlskemlklakekaseegl......kvefvvadaek.lpfednsfDlvvssevlhh 73 
                              LdvG+G+  +   +a  ++g + vg D+++++++  k+ ++ ++l      +++    ++ k +  e++ fD+ +s+  +h 
  PHY93_18265|PHY93_18265 118 LDVGVGANCVYPLIAfrEYGWNFVGSDIDPTAINSGKQIIEANNLsdsiklRLQTSSKNIFKgIIHEKEFFDITISNPPFHS 199
                              8*****99999999997777*************9999988888888866554444555555545677788888888876666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (325 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       515  (0.0287244); expected 358.6 (0.02)
Passed bias filter:                      387  (0.0215851); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.57u 0.56s 00:00:01.12 Elapsed: 00:00:00.48
# Mc/sec: 2045.35
//
Query:       PHY93_07835|PHY93_07835  [L=189]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (189 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       353  (0.0196888); expected 358.6 (0.02)
Passed bias filter:                      296  (0.0165096); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.53s 00:00:01.03 Elapsed: 00:00:00.50
# Mc/sec: 1130.43
//
Query:       PHY93_07840|PHY93_07840  [L=293]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.3e-31  109.2   0.0      3e-31  108.9   0.0    1.1  1  NTP_transferase  Nucleotidyl transferase
      4e-05   24.0   0.0    6.1e-05   23.4   0.0    1.3  1  NTP_transf_3     MobA-like NTP transferase domain
    0.00051   20.0   0.0    0.00091   19.2   0.0    1.4  1  CTP_transf_3     Cytidylyltransferase


Domain annotation for each model (and alignments):
>> NTP_transferase  Nucleotidyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  108.9   0.0   5.1e-35     3e-31       2     242 ..       6     267 ..       5     271 .. 0.88

  Alignments for each domain:
  == domain 1  score: 108.9 bits;  conditional E-value: 5.1e-35
                              EEEE--S--GGGTTCCTTSSGGGSEETTETETTHHHHHHHHHTT-SEEEEEEETTTHHHHHHHHTTSGGGT............... CS
          NTP_transferase   2 avILaGGsGtRLwPLtrtlakklvpvlgkerliqatlsrlansgieeiivvltqehsflveeqlkegskfg............... 72 
                              avI + G+GtR+ P t++++k ++p+ +  ++i +++++++ sgie++i++++   ++ +e+++ ++ +++               
  PHY93_07840|PHY93_07840   6 AVIPVAGKGTRFLPATKQVPKEMIPIINL-PMIHYVVEEAILSGIEQVIFITS-SGKHAIEDYFDRNFELEdflikngkikelemi 89 
                              688899***********************.*****************777665.77889999999998888999************ PP

                              ......SEEEEEEESS--BGGHHHHHTHHHHTTSSE..EEEEETTEEEEST..THHHHHHHHHTHSSTTSEEEEEEESS-CTTSEE CS
          NTP_transferase  73 ......vevlialepegkgtAdAvalaaelledeksdelvlvLggDhlikd..ayeeavkkaiekaakgtvtfgivpveeateyGv 150
                                    vev+ + ++e+ g+ +Av+ a++++++e     +++Lg+ ++ +     +++++  ++++ +  + ++  + +e ++yGv
  PHY93_07840|PHY93_07840  90 qqigkmVEVTSVRQKEQLGLGHAVLCAQDIVGNEPF---AVILGDEIVRGPnpVTKQLMAVSQKYSGANVIGVMEIDPQETSKYGV 172
                              *********************************996...8888888888878444555555555555447778888889999**** PP

                              EEEC......TTSBEEEEECS-SSHSH.CSEECCSEEEEETTHHHHHHHCCHHHTTSSCHHHHHHHHHHHTTEEEEEECSTTEE-E CS
          NTP_transferase 151 iead......eegrverfvEKPkeaka.selassGiYvfnsevllflakdleelkrgedeitdilpkaleegkvalaflfkdaeyW 229
                              ++ +      ++ r +++vEKPk a+a s+la  G Y+f +e+++ l k + +   ge ++td+++ + +e++v +a++f++++  
  PHY93_07840|PHY93_07840 173 VKGNfldeskKTMRMTDMVEKPKPADApSNLATPGRYIFRPEIFDAL-KVIPKGVGGEYQLTDAINLLARESEV-YAHVFEGQR-- 254
                              **99998765566***********99999*****************9.9999999***********99888655.577999977.. PP

                              EEXSSHHHHHHHH CS
          NTP_transferase 230 sDvGtldsllean 242
                               D+G+++ +l+a+
  PHY93_07840|PHY93_07840 255 FDTGNIEGYLNAT 267
                              *********9986 PP

>> NTP_transf_3  MobA-like NTP transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.4   0.0     1e-08   6.1e-05       2     102 ..       7     138 ..       6     174 .. 0.75

  Alignments for each domain:
  == domain 1  score: 23.4 bits;  conditional E-value: 1e-08
                              EEEEESS-TTT....TT.THHHHCCCCCCHHHHHHHHHCTT.-CEEEEECSH..CHHHH.........................HH CS
             NTP_transf_3   2 viLAGGrSsRm....gg.dKallplggkpllervldalraagvdevvvvggd..eevla.........................al 55 
                              vi  +G+++R+    ++ +K ++p+ + p++++v++ +  +g+++v+ ++ +  +++++                         + 
  PHY93_07840|PHY93_07840   7 VIPVAGKGTRFlpatKQvPKEMIPIINLPMIHYVVEEAILSGIEQVIFITSSgkHAIEDyfdrnfeledflikngkikelemiqQ- 91 
                              66679******7766458*****************************99866557888866777766666666666665554431. PP

                              TTC....TS-EEE-TTSS-SHHHHHHHHHHHH.SSSCEEEEETT-TT--HH CS
             NTP_transf_3  56 arl....gvrvvededpgkgplaslaaalraaadadavlvlacDmPlltpe 102
                                     +v+ v+++ ++ g ++++++a + + ++++++v+++D +   p+
  PHY93_07840|PHY93_07840  92 --IgkmvEVTSVRQK-EQLGLGHAVLCAQDIV-GNEPFAVILGDEIVRGPN 138
                              ..2332256666665.479**********988.9**********7665554 PP

>> CTP_transf_3  Cytidylyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.2   0.0   1.5e-07   0.00091      16      49 ..      26      59 ..      24      84 .. 0.86

  Alignments for each domain:
  == domain 1  score: 19.2 bits;  conditional E-value: 1.5e-07
                             GGGSEETTEEHHHHHHHHHHHTTTTSEEEEEES- CS
             CTP_transf_3 16 KnlldlggkpliayvleaalkskafekvivaTDs 49
                             K ++++ + p+i+yv+e+a+ s+  + +++ ++ 
  PHY93_07840|PHY93_07840 26 KEMIPIINLPMIHYVVEEAILSGIEQVIFITSSG 59
                             899*********************9999997654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (293 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       500  (0.0278878); expected 358.6 (0.02)
Passed bias filter:                      385  (0.0214736); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.60s 00:00:01.14 Elapsed: 00:00:00.50
# Mc/sec: 1778.07
//
Query:       PHY93_07845|PHY93_07845  [L=322]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
       0.51   10.5   3.0          1    9.5   3.0    1.5  1  Myco_arth_vir_N  Mycoplasma virulence signal region (Myco_art


Domain annotation for each model (and alignments):
>> Myco_arth_vir_N  Mycoplasma virulence signal region (Myco_arth_vir_N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   3.0   5.7e-05         1      10      26 ..       2      18 ..       1      21 [. 0.94

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 5.7e-05
          Myco_arth_vir_N 10 kIltlalvaaLlaaltf 26
                             kIl+++l +a ++al+f
  PHY93_07845|PHY93_07845  2 KILIIVLSVAFFTALSF 18
                             9***************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (322 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       889  (0.0495845); expected 358.6 (0.02)
Passed bias filter:                      505  (0.0281667); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.61s 00:00:01.17 Elapsed: 00:00:00.50
# Mc/sec: 1944.22
//
Query:       PHY93_07850|PHY93_07850  [L=665]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.9e-17   62.4   0.0    6.2e-17   61.3   0.0    1.6  1  PriA_3primeBD    3′ DNA-binding domain (3′BD)
    2.2e-16   60.5   0.2    5.6e-16   59.1   0.2    1.8  1  PriA_C           Primosomal protein N C-terminal domain
    1.4e-11   44.7   0.0    5.5e-11   42.8   0.0    2.1  1  ResIII           Type III restriction enzyme, res subunit
    5.1e-10   39.7   0.6    9.4e-09   35.6   0.0    3.0  3  Helicase_C       Helicase conserved C-terminal domain
    7.4e-10   38.9   0.0    2.7e-09   37.0   0.0    2.0  2  DEAD             DEAD/DEAH box helicase
    1.1e-07   31.7   2.2    1.1e-07   31.7   2.2    2.6  2  PriA_CRR         PriA DNA helicase Cys-rich region (CRR) doma
    0.00046   19.5   0.1     0.0011   18.3   0.1    1.6  1  PIF1             PIF1-like helicase
     0.0023   18.4   6.9     0.0047   17.4   6.9    1.4  1  zf-CHY           CHY zinc finger
  ------ inclusion threshold ------
      0.014   14.7   0.1       0.03   13.6   0.0    1.5  2  DUF2075          Uncharacterized conserved protein (DUF2075)
      0.044   13.5   0.0      0.078   12.7   0.0    1.4  1  Viral_helicase1  Viral (Superfamily 1) RNA helicase
       0.15   11.3   0.1       0.37   10.1   0.0    1.6  2  ATPase           KaiC
        1.2    9.2  13.1        5.8    7.0  13.3    1.9  2  zinc-ribbons_6   zinc-ribbons
          9    6.3  12.1        0.9    9.5   6.8    1.9  2  zf-C3HC4_3       Zinc finger, C3HC4 type (RING finger)


Domain annotation for each model (and alignments):
>> PriA_3primeBD  3′ DNA-binding domain (3′BD)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.3   0.0   4.5e-20   6.2e-17       2      96 .]       8     105 ..       7     105 .. 0.91

  Alignments for each domain:
  == domain 1  score: 61.3 bits;  conditional E-value: 4.5e-20
            PriA_3primeBD   2 Vavdlpld.rtfdYrvpeelevki..GsrVlVpfgkrklvGiVvalkeeseve.eeklkpieevldeepllteellelaewlaeyy 83 
                              Vav+ p++ ++++Y++  e++     G+ ++Vp+gkr + G+ +++ ++s+++ ++k+k+i+e+ + e +l+e   el++w+a+yy
  PHY93_07850|PHY93_07850   8 VAVNSPFNgSLLTYKATPEMASILkrGQLIKVPLGKRVIDGCLWGVGDSSNIKdPSKIKNISEI-EREIFLSEVECELYQWMANYY 92 
                              899999774789*******9554456***********************998769********8.569****************** PP

            PriA_3primeBD  84 laplgevlkaalP 96 
                              ++plg+ ++ +lP
  PHY93_07850|PHY93_07850  93 HYPLGQLIHDVLP 105
                              *********9998 PP

>> PriA_C  Primosomal protein N C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.1   0.2   4.1e-19   5.6e-16       1      94 []     568     663 ..     568     663 .. 0.93

  Alignments for each domain:
  == domain 1  score: 59.1 bits;  conditional E-value: 4.1e-19
                   PriA_C   1 PFsrlalirvsgkdeekveeaaeelaellkealkl..eeveilgpapapiakikgryryqillksksrkalqkllkellekleklk 84 
                              P  +l+li + +k++e v++++++ a+ l++ + +  e+veilgp p++i+k  +++ + ++++s++ ++l++l+k++ ++++   
  PHY93_07850|PHY93_07850 568 PMKKLILIYFNSKSQEMVIKESSNQANSLRALAAKhfEQVEILGPRPSMIEKKVNKFTWSLMIRSSDLNQLHNLIKTFSKNYRPPH 653
                              6679**************************975445899*******************************************7766 PP

                   PriA_C  85 kvrvsiDvDP 94 
                               ++++iDvDP
  PHY93_07850|PHY93_07850 654 TISLKIDVDP 663
                              9********9 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.8   0.0     4e-14   5.5e-11       2     169 ..     126     290 ..     125     292 .. 0.81

  Alignments for each domain:
  == domain 1  score: 42.8 bits;  conditional E-value: 4e-14
                              -EE-HHHHHHHHHHT......TTSEEEEEESTTSTHHHHHHHHHHHH-S.....-EEEEESSHHHHHHHHHHGGGGTGG....GEE CS
                   ResIII   2 lelreyQeeaienlleklkskrdkrglikmaTGtGKTlvaaklierllkkgkeekflflvprkslleqtleefkkflseaykeigk 87 
                              +e+++ Q+++++ +      ++  + l++  TG+GKTl++++li+++  ++k   +lfl p+++l+ q l++f+ +l+ +  + + 
  PHY93_07850|PHY93_07850 126 IEMNDEQKDVVDHITGYGF-DKFSKWLVHGVTGAGKTLIYLELIKKIIVQKK--SVLFLLPEINLTPQFLKTFQTYLDVPIYSYNS 208
                              6788999999999996666.8999************************9855..9***********************99988666 PP

                              EESSS-B--..........-SEEEEEHHHHHHTH........HHHTTT-SEEEEETGGGTTS.T...........TTHH.HHHT-- CS
                   ResIII  88 kvsgdkkka...kekdstnkkilvttiqsldadseeeeeeseellrdrfdviiiDEaHrlgakk...........swre.ilekfk 158
                              ++s+  k       +++++ k+++   +s+  ++            ++  ++i+DE H  + k+           ++++ +lek++
  PHY93_07850|PHY93_07850 209 SISNSDKFGlwkLLQEDDSPKMILGVRSSIFLPI------------KNLGLVIVDEEHDQSFKQddrctynardiAIKRaALEKIP 282
                              6666666666878889999999999999999999............8889********9999735666563444433331355555 PP

                              -SEEEEEESS- CS
                   ResIII 159 eavllglTATp 169
                                v+lg +ATp
  PHY93_07850|PHY93_07850 283 --VVLG-SATP 290
                              ..8888.9998 PP

>> Helicase_C  Helicase conserved C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.0       1.9   2.6e+03       6      52 ..     164     212 ..     155     225 .. 0.52
   2 ?    0.1   0.0      0.74     1e+03      11      35 ..     349     370 ..     342     408 .. 0.67
   3 !   35.6   0.0   6.8e-12   9.4e-09      55     111 .]     457     525 ..     433     525 .. 0.86

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 1.9
                              HHHHH.HHTTTTSEEEEEESSHHHHHH.HHHHHHHTTSTEEEESTTSTH CS
               Helicase_C   6 llell.kleeeggkilifvntidrlek.vklllekkgikvavlhgelpq 52 
                               lel+ k  ++++ +l  ++ i+   + +k +++  ++ +  +++++++
  PHY93_07850|PHY93_07850 164 YLELIkKIIVQKKSVLFLLPEINLTPQfLKTFQTYLDVPIYSYNSSISN 212
                              3444422223334444444455433213344433336666666666665 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.74
                              HHTTTTSEEEEEESSHHHHHHHHHH CS
               Helicase_C  11 kleeeggkilifvntidrlekvkll 35 
                              k  e+++++l+f+n+   +   ++l
  PHY93_07850|PHY93_07850 349 KALEREEQVLVFINRLGYA---NYL 370
                              3448999******998755...444 PP

  == domain 3  score: 35.6 bits;  conditional E-value: 6.8e-12
                              HHHHHHHHHTTSSSEEEESGGGTSSSTSTTESEEEESSSSSSH............HHHHHHHTTSSSTT CS
               Helicase_C  55 reeileqfnkgesdvLiatdvaerGidipkvnlVinfdlprnv............tsyiqriGRtgRag 111
                               e +l++f k+e+dvL+ t+++++G ++++vnlV +++++ ++            +++ q +GR+gR+g
  PHY93_07850|PHY93_07850 457 LENVLDRFHKKEIDVLVGTQMLSKGHNFKNVNLVLILGIDSQLnfpdfrsnervyQTLTQVSGRAGRFG 525
                              5789************************************444444555555666************86 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.0   0.0     2e-12   2.7e-09       4     174 ..     132     296 ..     129     298 .. 0.77
   2 ?   -2.0   0.0       1.9   2.6e+03      91     124 ..     461     489 ..     442     499 .. 0.65

  Alignments for each domain:
  == domain 1  score: 37.0 bits;  conditional E-value: 2e-12
                              HHHHHHHHH.....TTCEEEEEESTTSSHHHHHHHHHHHHHHHSTTSTS-EEEEEESSHHHHHHHHHHHHHHTTTSTSEEEEEETT CS
                              xxxxxxxxx.....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD   4 Qaeaiplil.....gggdvlvaaeTGsGKTlaflipvlqivyetkgktgpkalivePtreLaeqtlnnlkkfkkyidlrvlliigg 84 
                              Q+ ++++i      +  + lv++ TG+GKTl++l  + +i+      +++ +l++ P   L+ q l++++++++   +++++ i++
  PHY93_07850|PHY93_07850 132 QKDVVDHITgygfdKFSKWLVHGVTGAGKTLIYLELIKKII-----VQKKSVLFLLPEINLTPQFLKTFQTYLDVPIYSYNSSISN 212
                              77777777743332226788************998888888.....56778***********************744578888888 PP

                              SSHHHHHHHHHTT..CSEEEEEHHHHHHHHHCTSSHCTTEEEEEEETHHHHHHTTTHHHHHHHHHHSHHHCTTSTTTSEEEEEESS CS
                              xxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  85 vaardqlskldng..vdivvgtpgrlddllstgklnlsqvrflVlDEadrlldqgfsdfinrilnqlpqitcdgklqrqvivlSAT 168
                              +++   ++ l+++  +++++g  + ++       l ++++ ++++DE +  + + + d +   ++ ++ i+    ++  v++ SAT
  PHY93_07850|PHY93_07850 213 SDKFGLWKLLQEDdsPKMILGVRSSIF-------LPIKNLGLVIVDEEHDQSFK-QDDRCTYNARDIA-IKRAALEKIPVVLGSAT 289
                              888788888853345999999988777.......4689**********998887.7777777778883.4444446777******* PP

                              BS.HHHH CS
                              xx.xxxx RF
                     DEAD 169 lp.kdvk 174
                              +  +++k
  PHY93_07850|PHY93_07850 290 PMvETYK 296
                              9866665 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 1.9
                              HHHHH.TTCSEEEEEHHHHHHHHHCTSSHCTTEEE CS
                              xxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  91 lskld.ngvdivvgtpgrlddllstgklnlsqvrf 124
                              l++++ +++d++vgt      +ls+g+ n+++v++
  PHY93_07850|PHY93_07850 461 LDRFHkKEIDVLVGTQ-----MLSKGH-NFKNVNL 489
                              3334325599999997.....444444.5666655 PP

>> PriA_CRR  PriA DNA helicase Cys-rich region (CRR) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.3   1.5      0.13   1.7e+02      15      25 ..     368     378 ..     366     378 .. 0.87
   2 !   31.7   2.2   7.8e-11   1.1e-07       1      27 []     381     407 ..     381     407 .. 0.99

  Alignments for each domain:
  == domain 1  score: 2.3 bits;  conditional E-value: 0.13
                 PriA_CRR  15 nrLrCHyCgyt 25 
                              n L+C  Cg++
  PHY93_07850|PHY93_07850 368 NYLQCNACGHQ 378
                              78********7 PP

  == domain 2  score: 31.7 bits;  conditional E-value: 7.8e-11
                 PriA_CRR   1 CpnCdvsltyHksrnrLrCHyCgyteP 27 
                              CpnC+ +l+y+k+rn+L C  C y++P
  PHY93_07850|PHY93_07850 381 CPNCSTNLKYFKKRNELSCQTCEYKQP 407
                              **************************9 PP

>> PIF1  PIF1-like helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.1   7.6e-07    0.0011       2      54 ..     128     179 ..     127     182 .. 0.89

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 7.6e-07
                              --HHHHHHHHHH......HCTS-EEEEESTTSSCHHHHHHHHHHCHCTCCCEE CS
                     PIF1   2 LneeQkkvfdaiieavlnekgklfFvtGsgGtgKtflwkallkklrsegkivl 54 
                              +n+eQk v+d+i+   +++ +k   v+G  G+gKt ++ +l+kk+  ++k vl
  PHY93_07850|PHY93_07850 128 MNDEQKDVVDHITGYGFDKFSKW-LVHGVTGAGKTLIYLELIKKIIVQKKSVL 179
                              79**********88877777765.69*********************999998 PP

>> zf-CHY  CHY zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   6.9   3.4e-06    0.0047      11      62 ..     370     417 ..     365     433 .. 0.80

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 3.4e-06
                   zf-CHY  11 irapcCkklyaCreCHeeledhelerlevkevlcllCeteqekavlCkkCkk 62 
                              ++++ C + +aC +C +  + + +++   +e+ c++Ce +q++ ++C +C +
  PHY93_07850|PHY93_07850 370 LQCNACGHQFACPNCST--NLKYFKK--RNELSCQTCEYKQPAPEMCPECMN 417
                              799************99..3333433..44568*****************76 PP

>> DUF2075  Uncharacterized conserved protein (DUF2075)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   2.2e-05      0.03       5      38 ..     151     182 ..     148     213 .. 0.87
   2 ?   -3.5   0.0       3.3   4.6e+03     212     236 ..     583     607 ..     569     646 .. 0.54

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 2.2e-05
                  DUF2075   5 lVtGvaGtGKtvvllnllaeleddeeertavyls 38 
                              lV+Gv+G+GKt++ l+l+ ++    +++++ +l+
  PHY93_07850|PHY93_07850 151 LVHGVTGAGKTLIYLELIKKI--IVQKKSVLFLL 182
                              8*******************9..66666666665 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 3.3
                  DUF2075 212 kkalkeknkesgrsrlvatydakrl 236
                              +  +ke +++ ++ r +a+  ++  
  PHY93_07850|PHY93_07850 583 EMVIKESSNQANSLRALAAKHFEQV 607
                              3445555555555555555555544 PP

>> Viral_helicase1  Viral (Superfamily 1) RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   5.6e-05     0.078       2      54 ..     151     199 ..     150     210 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 5.6e-05
          Viral_helicase1   2 vvhGvpGcGKStlirkllrtsliltvnrptaelltegkpklpnlsvrtvdsfl 54 
                              +vhGv G+GK+ +  +l+++  i+++ ++   ll e   +l+ +  +t++++l
  PHY93_07850|PHY93_07850 151 LVHGVTGAGKTLIYLELIKK--IIVQKKSVLFLLPE--INLTPQFLKTFQTYL 199
                              7*******************..77777764444444..467777777777776 PP

>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.0   0.00027      0.37       9      51 ..     137     178 ..     134     190 .. 0.85
   2 ?   -4.0   0.0       5.6   7.8e+03     105     134 ..     428     457 ..     424     463 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00027
                   ATPase   9 DeilkgGipegrvvlitGepGtGKtifalqFlikgaekygepg 51 
                              D+i+  G+ + +  l+ G++G+GKt++ l+ + k +++  + +
  PHY93_07850|PHY93_07850 137 DHITGYGFDKFSKWLVHGVTGAGKTLIYLELIKKIIVQ-KKSV 178
                              889999*********************99988877776.5555 PP

  == domain 2  score: -4.0 bits;  conditional E-value: 5.6
                   ATPase 105 eelieelaeaikeikakrvviDsitglaye 134
                              e+  e l++++ ++k++r   D i+++++ 
  PHY93_07850|PHY93_07850 428 EKAYEVLKDILPDKKIERFDRDEIKTFTQL 457
                              566788999999999999999999999444 PP

>> zinc-ribbons_6  zinc-ribbons
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.2   1.4     0.015        21      17      43 ..     370     392 ..     363     393 .. 0.80
   2 ?    7.0  13.3    0.0042       5.8       2      36 ..     380     416 ..     371     421 .. 0.93

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.015
                              EE-TTT--EEEEEEE-SSS-S---EEE CS
           zinc-ribbons_6  17 yhCeaCqedlkkealCpeCeqelevlk 43 
                              ++C+aC +++     Cp+C+ +l+ +k
  PHY93_07850|PHY93_07850 370 LQCNACGHQF----ACPNCSTNLKYFK 392
                              6799998877....6999999998776 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.0042
                              --SSS-S--E..E-SSEEE-TTT--EEEEEEE-SSS- CS
           zinc-ribbons_6   2 kCpeCqqele..krgeqyhCeaCqedlkkealCpeCe 36 
                               Cp+C ++l+  k+ ++++C++C+ +     +CpeC 
  PHY93_07850|PHY93_07850 380 ACPNCSTNLKyfKKRNELSCQTCEYKQPAPEMCPECM 416
                              6********9878889********************6 PP

>> zf-C3HC4_3  Zinc finger, C3HC4 type (RING finger)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   6.8   0.00065       0.9      17      44 ..     372     403 ..     366     407 .. 0.83
   2 ?   -1.4   2.9       1.6   2.2e+03      25      43 ..     398     415 ..     395     418 .. 0.71

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00065
                              ETTEEEEEE-HHHHHHHHH....TT-B-TTT- CS
               zf-C3HC4_3  17 llpCgHlvlCeeCaekllk....rkkkCpiCr 44 
                              +  CgH+++C +C+++l+     ++ +C  C 
  PHY93_07850|PHY93_07850 372 CNACGHQFACPNCSTNLKYfkkrNELSCQTCE 403
                              567**************878777778898886 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 1.6
                              E-HHHHHHHHHTT-B-TTT CS
               zf-C3HC4_3  25 lCeeCaekllkrkkkCpiC 43 
                               C++C  k     + Cp C
  PHY93_07850|PHY93_07850 398 SCQTCEYKQ-PAPEMCPEC 415
                              588888888.456666666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (665 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       958  (0.053433); expected 358.6 (0.02)
Passed bias filter:                      671  (0.0374254); expected 358.6 (0.02)
Passed Vit filter:                        96  (0.00535445); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.78u 0.72s 00:00:01.50 Elapsed: 00:00:00.55
# Mc/sec: 3627.75
//
Query:       PHY93_21265|PHY93_21265  [L=328]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.1e-54  182.3   0.1      7e-54  181.9   0.1    1.2  1  2-Hacid_dh_C     D-isomer specific 2-hydroxyacid dehydrogenas
    2.1e-28   98.7   0.0    2.5e-28   98.4   0.0    1.1  1  2-Hacid_dh       D-isomer specific 2-hydroxyacid dehydrogenas
    9.8e-06   25.2   0.2    0.00011   21.8   0.1    2.2  2  IlvN             Acetohydroxy acid isomeroreductase, NADPH-bi
    8.9e-05   21.9   0.2    0.00038   19.8   0.2    1.9  1  AlaDh_PNT_C      Alanine dehydrogenase/PNT, C-terminal domain
    0.00012   22.3   0.1    0.00021   21.5   0.1    1.4  1  NAD_binding_2    NAD binding domain of 6-phosphogluconate deh
     0.0062   16.5   0.0      0.017   15.1   0.0    1.7  1  ADH_zinc_N       Zinc-binding dehydrogenase
  ------ inclusion threshold ------
      0.021   15.1   0.6        3.1    8.1   0.4    2.8  2  Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding doma
      0.044   13.8   0.0       0.14   12.2   0.0    1.8  1  Shikimate_DH     Shikimate / quinate 5-dehydrogenase
      0.053   14.1   0.0       0.14   12.7   0.0    1.8  1  F420_oxidored    NADP oxidoreductase coenzyme F420-dependent
      0.061   13.4   1.1       0.09   12.8   0.4    1.7  2  AdoHcyase_NAD    S-adenosyl-L-homocysteine hydrolase, NAD bin
      0.085   13.2   0.0       0.15   12.4   0.0    1.3  1  Hint_2           Hint domain


Domain annotation for each model (and alignments):
>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  181.9   0.1   4.3e-57     7e-54       1     178 []     110     305 ..     110     305 .. 0.93

  Alignments for each domain:
  == domain 1  score: 181.9 bits;  conditional E-value: 4.3e-57
                              HHHHHHHHTTHHHHHHHHHTTCCHTTCCGSBS-GTTSEEEEES-SHHHHHHHHHHHHTT-EEEEESSSHHHHHCHHHHTCEECSHH CS
             2-Hacid_dh_C   1 lalllallrrlaeadeevregewksekallgkelsgktvGiiGlGrIGqavakrlkafgmkviaydrskkkeeeeeelgvelvsle 86 
                              ++llla +r++  a+++v+ege+ +++ l+g +l+gk +G+iG+G+IGq+v+k++++fgmkv+++d +++++  +++lg+++v+le
  PHY93_21265|PHY93_21265 110 FGLLLASARKIVVAHQSVEEGEF-DPEGLTGVDLYGKMLGVIGCGKIGQNVIKIARGFGMKVLGVDAYPDQKI-AKRLGFKYVDLE 193
                              589********************.9*******************************************99776.************ PP

                              HHHHH-SEEEE-S--STTTTTSBSHHHHHCSTTTEEEEESS-GGGB-HHHHHHHHHTTSCCEEEES--SSS............... CS
             2-Hacid_dh_C  87 ellaesDivslhlpltpetrhlinaeelakmkkgailiNtaRGglvdeeaLleaLksgkiagaalDvfeee............... 157
                              + l+e+D+v+lh+p+ +et h+in++++++mkkg++liNtaRG++v++ea+l aL+ + +aga+lD++e e               
  PHY93_21265|PHY93_21265 194 TCLNEADFVTLHVPAIKETFHMINKKNIKLMKKGSFLINTARGAVVETEAILWALNHKILAGAGLDTTEDEsmvesmstvlsekir 279
                              ***********************************************************************888888887777666 PP

                              .....SSGTCHHHHHSTTEEE-SS-T CS
             2-Hacid_dh_C 158 .....plpedspllelpnviltPHia 178
                                   ++ + + l++ + v++tPH a
  PHY93_21265|PHY93_21265 280 keqlqDVLTYHLLRDRDDVVFTPHNA 305
                              6544433344899***********87 PP

>> 2-Hacid_dh  D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   98.4   0.0   1.5e-31   2.5e-28      26     124 ..      35     327 ..       6     328 .] 0.96

  Alignments for each domain:
  == domain 1  score: 98.4 bits;  conditional E-value: 1.5e-31
                              SCSSHHHCHHHHTTESEEEE-TTS-BSHHHHHHHTT--EEEESSSSCTTB-HHHHHHTT-EEEE-TTTTHHHHHHHH......... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......... RF
               2-Hacid_dh  26 dellteellekakdadalivrsntkvtaevlealpkLkviaragvGvDnvDldaakerGilVtnvpgystesvAElt......... 102
                              +e++++  +e ak++d+l v+  +k+++ vl++lp+Lk++ ++++G+D++D++ +k+rGi+V +vp+y +++vAE++         
  PHY93_21265|PHY93_21265  35 KEIQDD--IELAKKYDILSVFIYSKIDKSVLDKLPNLKMVTTRSTGFDHIDIEECKKRGIVVGSVPDYGSNTVAEYAfglllasar 118
                              355555..899*************************************************************************** PP

                              ...................................................................................... CS
                              ...................................................................................... RF
               2-Hacid_dh 103 ...................................................................................... 102
                                                                                                                    
  PHY93_21265|PHY93_21265 119 kivvahqsveegefdpegltgvdlygkmlgvigcgkigqnvikiargfgmkvlgvdaypdqkiakrlgfkyvdletclneadfvtl 204
                              ************************************************************************************** PP

                              ...................................................................................... CS
                              ...................................................................................... RF
               2-Hacid_dh 103 ...................................................................................... 102
                                                                                                                    
  PHY93_21265|PHY93_21265 205 hvpaiketfhminkkniklmkkgsflintargavveteailwalnhkilagagldttedesmvesmstvlsekirkeqlqdvltyh 290
                              ************************************************************************************** PP

                              ...............T-BHHHHHHHHHHHHHHHHHHH CS
                              ...............xxxxxxxxxxxxxxxxxxxxxx RF
               2-Hacid_dh 103 ...............aaTeeaqeniaeeaaenlvafl 124
                                             ++++ea+e+i+++++en+ +f 
  PHY93_21265|PHY93_21265 291 llrdrddvvftphnaFNSKEAIERIMKTTIENINSFT 327
                              *********************************9885 PP

>> IlvN  Acetohydroxy acid isomeroreductase, NADPH-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   0.0      0.14   2.3e+02      43      95 ..      73     124 ..      37     134 .. 0.84
   2 !   21.8   0.1   6.9e-08   0.00011       2     103 ..     142     243 ..     141     254 .. 0.77

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.14
                              HHHHTT-EEEEHHHHHHT-SEEEE-S-HHHHHHHHHHHTGGG--TT-EEEESS CS
                     IlvN  43 kAkeegfevltvaeavkkadvvmiliPDelqkevyeeeiepnlkegkalafah 95 
                              + +++gf+ ++++e  k   +v+  +PD   ++v e +    l + + ++ ah
  PHY93_21265|PHY93_21265  73 TTRSTGFDHIDIEECKK-RGIVVGSVPDYGSNTVAEYAFGLLLASARKIVVAH 124
                              56678999999988655.56888899999999999988888888888888887 PP

  == domain 2  score: 21.8 bits;  conditional E-value: 6.9e-08
                              HHTS-EEEES-SHHHHHHHHHHHHTT--EEEEE-TT-HHHHHHHHTT-EEEEHHHHHHT-SEEEE-S-H..HHHHHHHHHHTGGG- CS
                     IlvN   2 lkgkkiaviGyGsqGhaqalnlrdsgldvvvglregsksvkkAkeegfevltvaeavkkadvvmiliPD..elqkevyeeeiepnl 85 
                              l gk + viG+G  G++  +  r  g++v  g+ +     k Ak+ gf+ ++++   ++ad+v++ +P   e+ + + +++i + +
  PHY93_21265|PHY93_21265 142 LYGKMLGVIGCGKIGQNVIKIARGFGMKVL-GVDAYP-DQKIAKRLGFKYVDLETCLNEADFVTLHVPAikETFHMINKKNI-KLM 224
                              568999**********************96.555444.5699**************************73133445555555.677 PP

                              -TT-EE.EESSSHHHHTTS CS
                     IlvN  86 kegkal.afahGfnihfgl 103
                              k+g+ l   a G  +  + 
  PHY93_21265|PHY93_21265 225 KKGSFLiNTARGAVVETEA 243
                              8887541567776666655 PP

>> AlaDh_PNT_C  Alanine dehydrogenase/PNT, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.8   0.2   2.3e-07   0.00038      33     136 ..     149     240 ..     136     245 .. 0.82

  Alignments for each domain:
  == domain 1  score: 19.8 bits;  conditional E-value: 2.3e-07
                              EESTSHHHHHHHHHHHHTT-EEEEEESSHHHHHHHHHTTTCECEEHCHHHHHHHHHHHH-SEEEE---BTTSS.---SC-HHHHHT CS
              AlaDh_PNT_C  33 viGgGvaGlqAiatakglgakVtvlDvrparleqleslgakfvevlksqeellaeavkeadvvigtvlipGkk.aPkLvteemvks 117
                              viG G  G++ i++a+g+g kV  +D  p+++   + lg k+          l+  ++ead v  t ++p+ k + ++++++ +k 
  PHY93_21265|PHY93_21265 149 VIGCGKIGQNVIKIARGFGMKVLGVDAYPDQK-IAKRLGFKY--------VDLETCLNEADFV--TLHVPAIKeTFHMINKKNIKL 223
                              9**************************99975.345577774........457889999**98..899999651568********* PP

                              S-TTEEEEETTGGGT-SBT CS
              AlaDh_PNT_C 118 MkpgsVivDvAidqGGnve 136
                              Mk+gs ++  A  +G  ve
  PHY93_21265|PHY93_21265 224 MKKGSFLINTA--RGAVVE 240
                              ******99766..566666 PP

>> NAD_binding_2  NAD binding domain of 6-phosphogluconate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.1   1.3e-07   0.00021       2     105 ..     147     249 ..     146     258 .. 0.86

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 1.3e-07
                              EEEE--SHHHHHHHHHHHHTT-EEEEE-SSHHHHHHHHHTTEEE-SSHHHHHHHCSEEEE-SSSHHHHHHHHHS.HCCC--TT-EE CS
            NAD_binding_2   2 igfiGlGvMGsnmalnllkagykvavynrtkekveelvaegakaaesieelvasldvvitmvkagkavdevieg.llealkkgdil 86 
                              +g+iG G++G+n ++     g+kv +++  ++  ++++++    + ++e +++++d+v + v+a k++ ++i++  ++ +kkg++l
  PHY93_21265|PHY93_21265 147 LGVIGCGKIGQNVIKIARGFGMKVLGVDAYPD--QKIAKRLGFKYVDLETCLNEADFVTLHVPAIKETFHMINKkNIKLMKKGSFL 230
                              69*************99999999999997754..5666666667788999***********************9999********* PP

                              EE-S---HHHHHHHHHHHH CS
            NAD_binding_2  87 idgstsspedtrelakelk 105
                              i+++  ++ +t+ +  +l+
  PHY93_21265|PHY93_21265 231 INTARGAVVETEAILWALN 249
                              *998888887777666655 PP

>> ADH_zinc_N  Zinc-binding dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0     1e-05     0.017       2      38 ..     155     190 ..     155     212 .. 0.92

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1e-05
                              HHHHHHHHHHHTT-EEEEEESSHHHHHHHHHTTESEE CS
               ADH_zinc_N   2 vGlaavqlAkalGaeviavdsseeklelakklGadev 38 
                              +G+ ++++A+ +G++v +vd  ++  ++ak+lG ++v
  PHY93_21265|PHY93_21265 155 IGQNVIKIARGFGMKVLGVDAYPD-QKIAKRLGFKYV 190
                              89*********************9.5*******9987 PP

>> Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   0.0      0.03        49      41      89 ..      63     109 ..      36     111 .. 0.73
   2 ?    8.1   0.4    0.0019       3.1       2      77 ..     148     234 ..     147     254 .. 0.73

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.03
                              HCHHTTTCEEEEE--TTTHHHHHHHHHTTSSEEEE-SSGGGHHHHHHHH CS
          Sacchrp_dh_NADP  41 aakalgvrfeaialdaenyeavLaallkegdlvvnlsppissldvlkaC 89 
                              ++k+ + ++ ++  +  ++ + +++ +k++++vv  +p++ s++v++++
  PHY93_21265|PHY93_21265  63 LDKLPNLKMVTTRSTGFDHID-IEE-CKKRGIVVGSVPDYGSNTVAEYA 109
                              444455556666666666666.444.9******************9987 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.0019
                              EEE--SHHHHHHHHHHHCTCCT-GEEEEEESSHHHHHHHHCHH..................TTTCEEEEE--TTTHHHHHHHHHTT CS
          Sacchrp_dh_NADP   2 liiGaGsvGqavaellarhfdvdaeitvadrskeklealaaka..................lgvrfeaialdaenyeavLaallke 69 
                               +iG+G++Gq v++ +ar f +  ++  +d + ++  ++a+ +                  l+v ++++++   n++    +l+k+
  PHY93_21265|PHY93_21265 148 GVIGCGKIGQNVIK-IARGFGM--KVLGVDAYPDQ--KIAKRLgfkyvdletclneadfvtLHVPAIKETFHMINKKN--IKLMKK 226
                              69*********995.7888888..89999999888..78776677778888877777777766677777777777776..677777 PP

                              SSEEEE-S CS
          Sacchrp_dh_NADP  70 gdlvvnls 77 
                              g +++n +
  PHY93_21265|PHY93_21265 227 GSFLINTA 234
                              77777766 PP

>> Shikimate_DH  Shikimate / quinate 5-dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   8.7e-05      0.14       9      99 ..     141     225 ..     136     235 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 8.7e-05
                              ..TT-EEEEES-SHHHHHHHHHHHCCT-CEEEEEESSHHHHHHHHHHHT.ET-EEEEGCGHHHHHHT-SEE...EE-SSSSS-SB- CS
             Shikimate_DH   9 slkekkvlliGaGemaelvakhLlakgvkkvvvaNRtlerakelaeelkgeeiealkleelkellaeadvv...isataseepile 91 
                              +l +k   +iG G++++ v+k     g+k   v++ +    +++a++l+ +      + +l+++l+ead v   + a++ + ++++
  PHY93_21265|PHY93_21265 141 DLYGKMLGVIGCGKIGQNVIKIARGFGMK---VLGVDAYPDQKIAKRLGFK------YVDLETCLNEADFVtlhVPAIKETFHMIN 217
                              57788999*************88777777...99999999********544......77899999999999444457777777888 PP

                              HHHHHCCH CS
             Shikimate_DH  92 keeveeal 99 
                              k++++ ++
  PHY93_21265|PHY93_21265 218 KKNIKLMK 225
                              88777554 PP

>> F420_oxidored  NADP oxidoreductase coenzyme F420-dependent
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   8.7e-05      0.14       2      71 ..     147     208 ..     146     236 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 8.7e-05
                              EEEETTSHHHHHHHHHHHHTTS-GGCEEEEEESSCCCHHHHHHHHC-EEECECHHHHHHH-SEEEE-S-H CS
            F420_oxidored   2 igiiGaGnmgealasgllaagaqpheivvansrnpekaeelaeelgvkvtavdneeaaeeadvvvlavkp 71 
                              +g+iG+G++g+ +++ +   g    +++ + +  p+  +++a++lg   + vd e++++ead+v l v+ 
  PHY93_21265|PHY93_21265 147 LGVIGCGKIGQNVIKIARGFG---MKVL-GVDAYPD--QKIAKRLG--FKYVDLETCLNEADFVTLHVPA 208
                              79*************888888...8999.7788888..89999*99..555569********99998874 PP

>> AdoHcyase_NAD  S-adenosyl-L-homocysteine hydrolase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0       3.7   6.1e+03     109     141 ..      30      64 ..      29      88 .. 0.66
   2 ?   12.8   0.4   5.5e-05      0.09      18     109 ..     139     233 ..     135     272 .. 0.83

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 3.7
                              -SSTTTTB..THHHHHTTT-EEEEEETTEEEEE-T CS
            AdoHcyase_NAD 109 iGhfdsei..dvaaleanalkkeevkpqvdrvtlk 141
                              +G f++ei  d++  +++++  + + +++d+ +l+
  PHY93_21265|PHY93_21265  30 VGIFEKEIqdDIELAKKYDILSVFIYSKIDKSVLD 64 
                              57777777323445555567777777777766554 PP

  == domain 2  score: 12.8 bits;  conditional E-value: 5.5e-05
                              -S--TTSEEEEE--SHHHHHHHHHHHHCT-EEEEE-S-HHHHHHHHCTT-EE--HHHCTTT-SEEEE....-SSSSSSB-HHHHCC CS
            AdoHcyase_NAD  18 dvllaGkvavvaGyGdvGkGcaaslkglGarvivtevdPicalqaameGfevvtleevvkkadivvt....ttGnkdiitlehlkk 99 
                               v l Gk+  v+G G +G+   +  +g+G +v+  +  P   + a   Gf+ v le+ +++ad+v         +  +i+++++k 
  PHY93_21265|PHY93_21265 139 GVDLYGKMLGVIGCGKIGQNVIKIARGFGMKVLGVDAYPDQKI-AKRLGFKYVDLETCLNEADFVTLhvpaIKETFHMINKKNIKL 223
                              56688***************************99999998877.5667***************87531111234557899999999 PP

                              S-TTEEEEE- CS
            AdoHcyase_NAD 100 mkddaivcni 109
                              mk+ + + n 
  PHY93_21265|PHY93_21265 224 MKKGSFLINT 233
                              9998887775 PP

>> Hint_2  Hint domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   9.1e-05      0.15      70     131 ..     239     301 ..     215     309 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 9.1e-05
                   Hint_2  70 vpardLlvspqhrlllese.lfgeeevlvpakhLvngasireeeaeevtyvhllldrhevvla 131
                              v ++++l + +h +l+ +   + e+e++v+  + v  ++ir+e+ ++v  +hll dr +vv++
  PHY93_21265|PHY93_21265 239 VETEAILWALNHKILAGAGlDTTEDESMVESMSTVLSEKIRKEQLQDVLTYHLLRDRDDVVFT 301
                              4477888889999999987888999************************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (328 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       668  (0.0372581); expected 358.6 (0.02)
Passed bias filter:                      473  (0.0263818); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.56u 0.62s 00:00:01.18 Elapsed: 00:00:00.51
# Mc/sec: 1942.23
//
Query:       PHY93_07855|PHY93_07855  [L=667]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
        0.1   12.5   1.9       0.21   11.5   1.9    1.4  1  DUF507          Protein of unknown function (DUF507)
       0.18   12.5   1.9         20    5.9   0.3    2.6  2  DNA_repr_REX1B  DNA repair REX1-B


Domain annotation for each model (and alignments):
>> DUF507  Protein of unknown function (DUF507)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   1.9   2.3e-05      0.21      85     154 ..     267     335 ..     263     343 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 2.3e-05
                   DUF507  85 laeeegvilnseerlneishkileellkedlievsvsenkirnkIfkilkeylkeeeeidkevrekikny 154
                              +ae ++ i  + + l++i++ki  el    l+ v+++ +ki   + ki +++ ke + id++ ++k++ +
  PHY93_07855|PHY93_07855 267 IAEARKSIG-NADALKDIAEKIKSELDAGYLVAVKQDVEKISSSMLKIEDRLTKERDTIDETTAKKLARQ 335
                              666666655.789999**********************************************99999875 PP

>> DNA_repr_REX1B  DNA repair REX1-B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   0.1     0.004        35      42      67 ..     298     323 ..     277     338 .. 0.81
   2 ?    5.9   0.3    0.0022        20       4      33 ..     476     505 ..     474     513 .. 0.79

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.004
           DNA_repr_REX1B  42 evTeefseiSkevleieaaLreeasr 67 
                              +v ++ ++iS+ +l+ie++L++e+++
  PHY93_07855|PHY93_07855 298 AVKQDVEKISSSMLKIEDRLTKERDT 323
                              5778999**************98633 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.0022
           DNA_repr_REX1B   4 rrflelqeeRaeiYkefeegfkaylksgae 33 
                              + ++++++eR ++Y+++++ + +y++++++
  PHY93_07855|PHY93_07855 476 APIQKTERERTATYEKMNKRWYDYQNDEQA 505
                              5688999*****************995544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (667 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1028  (0.0573373); expected 358.6 (0.02)
Passed bias filter:                      582  (0.0324614); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.71u 0.78s 00:00:01.49 Elapsed: 00:00:00.55
# Mc/sec: 3669.17
//
Query:       PHY93_07860|PHY93_07860  [L=422]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        0.1   12.8   0.0        0.2   11.9   0.0    1.4  1  CNDH2_N   Condensin II complex subunit CAP-H2 or CNDH2, N-ter


Domain annotation for each model (and alignments):
>> CNDH2_N  Condensin II complex subunit CAP-H2 or CNDH2, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   1.1e-05       0.2       6      71 ..      99     167 ..      96     187 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 1.1e-05
                  CNDH2_N   6 rdlakNwd.vdiakeLeeYLe.eleeiaisf..dggkttlnFaeAaLliqgsavvYsrKveyLyslvyqt 71 
                              rdl+k  d v i  ++ e+++ e+e++  ++   + +++++Fa+A  +i+g  +vY+ Kv+y + + +q+
  PHY93_07860|PHY93_07860  99 RDLNKEIDsVKIGLSVGEFFKsEIEKLHRANgiTNAERKIEFANAFPVINGH-MVYNSKVQYDHYIFIQM 167
                              667666644777777777765267887777633477899******9999985.79*******99887775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (422 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       500  (0.0278878); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.65u 0.50s 00:00:01.14 Elapsed: 00:00:00.51
# Mc/sec: 2491.21
//
Query:       PHY93_07865|PHY93_07865  [L=488]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.022   13.5   4.5      0.082   11.6   4.2    2.1  1  Alginate_exp  Alginate export


Domain annotation for each model (and alignments):
>> Alginate_exp  Alginate export
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   4.2   4.6e-06     0.082     200     393 ..     261     472 ..      88     477 .. 0.56

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 4.6e-06
                              EEEEEEEEEEEEESTT-SSEEEEEEEEEEEEEEEEEETTEE......EEEEEEEEEEE..E-SSSEEEEEEEEEE-T-----SB-- CS
             Alginate_exp 200 derlttlglraagkakntrldydlelmyqtGrvgttvaraw......navaaelGytfklpwkPrlslgydyASGdrnpndggles 279
                               +++t+ +l ++ +   +++d  +e+ + +G+ g+t+a         +a+  ++ y+     +  +++g+d +  +  + dg+   
  PHY93_07865|PHY93_07865 261 ANDITVTDLYLKKVF--GKFDLAIEVPLMSGDLGKTTATTSattysaKAFLLQANYKH----TDSWTIGFDGGQVS--GHDGSTAK 338
                              555666666666666..66666666666666663333322222444444444444444....55666666655444..45555555 PP

                              -EE-TTSSS.ETT-TTT-EESSSEEEEEEEEEEEE................TTTEEEE.EEEEEEEESSTTS--..EESS--.... CS
             Alginate_exp 280 FnslFggar.kyfgladyvelaNlqalklrlelqp................aenldls.layhkfwradaadai..gasgnnalrd 345
                              F  l+ + + +   l ++ + a l +++  +++                  +e+++++ +++++  ++ a+ ++  ++  nn ++ 
  PHY93_07865|PHY93_07865 339 FSALYLNPNyQVANLLFRYNIAALGTPNQGVSVYDsyitnaryfklrssynSEKWTFDsAIIYAKALEVAKAGFvaYNHTNNKIFT 424
                              55555444422222223333333333333333222233333333333333344444431333333444333333115555666888 PP

                              ----TT-EEEEEEEEESGGGT-SSSEEEEEEEEEEE-TTT-TTS-S-E CS
             Alginate_exp 346 aagqsgkdlGqeldlrlrwlleaslllalgaahfkpGdalrnagdata 393
                              a+ + +++lG e+d+ ++++ ++++++  g ++++ Gd +  + d t+
  PHY93_07865|PHY93_07865 425 ATTSQSDNLGTEIDFNAKYHWNKEISIGSGLGYLFTGDYFSYTNDTTK 472
                              888888********************************9987777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (488 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       426  (0.0237604); expected 358.6 (0.02)
Passed bias filter:                      273  (0.0152267); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.62u 0.43s 00:00:01.05 Elapsed: 00:00:00.49
# Mc/sec: 3003.91
//
Query:       PHY93_07870|PHY93_07870  [L=646]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.8e-50  170.3   0.0    5.1e-50  169.4   0.0    1.4  1  Transgly        Transglycosylase
     0.0067   15.7   0.1      0.054   12.7   0.0    2.1  2  Transpeptidase  Penicillin binding protein transpeptidase dom
  ------ inclusion threshold ------
       0.13   12.3   2.3       0.12   12.4   0.4    1.9  2  Vma12           Endoplasmic reticulum-based factor for assemb


Domain annotation for each model (and alignments):
>> Transgly  Transglycosylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  169.4   0.0   8.6e-54   5.1e-50      13     176 ..     128     295 ..     119     297 .. 0.97

  Alignments for each domain:
  == domain 1  score: 169.4 bits;  conditional E-value: 8.6e-54
                 Transgly  13 nrelvkleeippalkkavvaiEDrrFyehkGvdlkgiarAvlknlksgkssqGgSTitqQlvknlflseertlerKlkeavlAlkl 98 
                               +++v+++ ip+ + k ++ +ED+r+++h+Gvdlk+i+rA+++n+++ + +qGgSTi+qQlvknlf+++e+t++rK+ke+v+++ +
  PHY93_07870|PHY93_07870 128 YQHYVSFDYIPSIFWKGLIGVEDQRYLTHHGVDLKSIFRAFVTNVRKMRFEQGGSTISQQLVKNLFFTNEKTFSRKIKEMVMSIYI 213
                              6789********************************************************************************** PP

                 Transgly  99 ekklsKdeILeaYlNsvylgr....evyGieaAarayFgkdakdLtlaeaalLagllkaPsrynplenpeeakkrrkvvler 176
                              e+++ K++ILeaYlN+vy+g     ++ Gi  A+ +yFgk+++d+++ e a+L++llk Ps+++pl++ +++++r  vv ++
  PHY93_07870|PHY93_07870 214 ESRFPKEKILEAYLNEVYWGAlqgiKIKGILGASLFYFGKKPADVSAYEGAILISLLKGPSYFSPLKKIQRLRERSLVVYNK 295
                              ********************88999**************************************************9988876 PP

>> Transpeptidase  Penicillin binding protein transpeptidase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.7   0.0     9e-06     0.054      38     126 ..     410     498 ..     386     505 .. 0.73
   2 ?    0.2   0.0     0.056   3.4e+02     240     271 ..     575     607 ..     553     616 .. 0.69

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 9e-06
                              HHH--BB-GGGGHHHHHHHHHHTTSSTTSEEEEETCCEETTSS.ECTCCCC-SSSSEEEHHHHHHTT-HHHHHHHHHHH-HHHHHH CS
           Transpeptidase  38 avqsqyePGStfKvvtaaaaleagvikpdetlddsggkiqggqsikdweqdnkgsegitlrealekSsntyfvklaqklgadklrk 123
                               ++++ + GSt+K+++ +   e g+  +d + +++ + + ++ ++   e +   + ++tl eal kS n  + ++a+++g +k+++
  PHY93_07870|PHY93_07870 410 IYSERHQVGSTIKPILYSVYEEFGKKLTDMVQTKEIKLQLNSGPWSPKEAHIIKESEVTLLEALLKSYNRPVIRIADEIGFEKVEE 495
                              56788899*********99999996555555555544445544454444444445677**********************998776 PP

                              HHH CS
           Transpeptidase 124 ylk 126
                               lk
  PHY93_07870|PHY93_07870 496 KLK 498
                              554 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.056
                              S--EEEEEEEEECSSSTTSEEEEEE.EEEEEEE CS
           Transpeptidase 240 ykvagKTGTAevagkkgngkkegak.iswfvgy 271
                               +  gKTGT++  +++     +g++  + +vgy
  PHY93_07870|PHY93_07870 575 LRFFGKTGTTNNGYDNWYVAFDGKNlSIIWVGY 607
                              57779****999887666666655554455555 PP

>> Vma12  Endoplasmic reticulum-based factor for assembly of V-ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.1       1.5   8.8e+03      77     101 ..      11      35 ..      10      43 .. 0.81
   2 ?   12.4   0.4   2.1e-05      0.12      10      99 ..     302     397 ..     293     418 .. 0.75

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 1.5
                    Vma12  77 lilvlNiliSvvavffavwialrsa 101
                              ++lv  i++  ++ +fa w +++++
  PHY93_07870|PHY93_07870  11 VSLVCFIILFAAGLGFAKWTIAETS 35 
                              6788889999999999999998876 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 2.1e-05
                    Vma12  10 vpppppkpepspEykallarLraeqeereYkrlinsvdpsqksgktdspss.......sd.deltaqelkevnrqlilvlNiliSv 87 
                              +p+ p +    +++ + +a+L+ +++++ Y+ + ++ + ++ + +  +  +       +d ++ +++++++v++ + +v +i + v
  PHY93_07870|PHY93_07870 302 IPNDPSQIWSQKDWDKWTAKLKLQEKQQYYQSIWRTLNDNDPTLSAYE--KfvliqkvADvRSKIKEKFASVENGVNSVADISVKV 385
                              6888888888999*********************99775544433333..134443333353333799999999999999999999 PP

                    Vma12  88 vavffavwialr 99 
                              +   + + ++ +
  PHY93_07870|PHY93_07870 386 MLGPVNGNSWYS 397
                              887666655555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (646 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       848  (0.0472977); expected 358.6 (0.02)
Passed bias filter:                      548  (0.030565); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.68u 0.62s 00:00:01.30 Elapsed: 00:00:00.50
# Mc/sec: 3859.44
//
Query:       PHY93_07880|PHY93_07880  [L=312]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    9.3e-51  170.7   0.2    3.4e-49  165.6   0.0    2.4  2  Pribosyltran_N  N-terminal domain of ribose phosphate pyropho
    1.9e-28   99.7   1.0    4.2e-27   95.4   0.6    2.4  2  Pribosyl_synth  Phosphoribosyl synthetase-associated domain
    2.8e-16   59.4   0.1    2.4e-15   56.4   0.2    2.4  3  Pribosyltran    Phosphoribosyl transferase domain
      0.006   16.0   0.0      0.012   15.1   0.0    1.5  1  UPRTase         Uracil phosphoribosyltransferase
  ------ inclusion threshold ------
      0.078   12.4   0.0       0.13   11.7   0.0    1.3  1  PdxA            Pyridoxal phosphate biosynthetic protein PdxA


Domain annotation for each model (and alignments):
>> Pribosyltran_N  N-terminal domain of ribose phosphate pyrophosphokinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  165.6   0.0   9.4e-53   3.4e-49       1     116 []       4     120 ..       4     120 .. 0.99
   2 ?    2.7   0.0     0.032   1.2e+02      41      84 ..     206     245 ..     181     254 .. 0.75

  Alignments for each domain:
  == domain 1  score: 165.6 bits;  conditional E-value: 9.4e-53
           Pribosyltran_N   1 lkifagssskeLaekiakrlgvelgkakvsrfadgEikveieesvrgkdvfiiqslskpvndnlmelllmidalrrasakritaVi 86 
                              +++++gss++ L+++i+++l+v+l+++++ rfa+gEi++eie+ vrg+dvf+iqs+++pvndnlmell+midal+rasa++it Vi
  PHY93_07880|PHY93_07880   4 IVLVSGSSNQTLSNQISDYLDVPLVNPQLVRFANGEIYCEIEKHVRGADVFVIQSTCSPVNDNLMELLIMIDALKRASASSITTVI 89 
                              579*********************************************************************************** PP

           Pribosyltran_N  87 Pylgysrqdrk.ksrepisaklvaklLeaaG 116
                              P++gy+rqdrk ++r+pisaklva+lL+ aG
  PHY93_07880|PHY93_07880  90 PFYGYARQDRKaSPRTPISAKLVADLLTVAG 120
                              ***********999**************999 PP

  == domain 2  score: 2.7 bits;  conditional E-value: 0.032
           Pribosyltran_N  41 ieesvrgkdvfiiqslskpvndnlmelllmidalrrasakrita 84 
                              +  +v gk+++ii ++ +    +l+e    ++alrr  a +i a
  PHY93_07880|PHY93_07880 206 VIGNVSGKECIIIDDMIDT-AGTLVE---ACKALRRNGATKIYA 245
                              4458999999999999877.344554...568999999999876 PP

>> Pribosyl_synth  Phosphoribosyl synthetase-associated domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.5   0.0     0.037   1.3e+02       3      34 ..     162     193 ..     161     202 .. 0.88
   2 !   95.4   0.6   1.2e-30   4.2e-27      74     182 ..     203     312 .]     194     312 .] 0.95

  Alignments for each domain:
  == domain 1  score: 2.5 bits;  conditional E-value: 0.037
                              GGEEEEESSGGGHHHHHHHHHHTT-EEEEE-- CS
           Pribosyl_synth   3 rnavivakspgsakkatsyaerlrlglavihG 34 
                               n++ v+ + g +++ + ya++l+  +a+i  
  PHY93_07880|PHY93_07880 162 ENTIFVSPDAGGVERVRFYAKKLNADIAMIDK 193
                              58999***********************9975 PP

  == domain 2  score: 95.4 bits;  conditional E-value: 1.2e-30
                              ---EES--TTSEEEEEEEEE-S-HHHHHHHHHHHHTT--EEEEEEEEE---TTHHHHHHHS.S--EEEEESSS--HHHHHT-TTEE CS
           Pribosyl_synth  74 pltvvGdvgGriaiivddliddvesfvaaaevlkerGaykiyvlathGllssdaprllees.aidevvvtntipheiqklrcskik 158
                               ++v+G+v+G+  ii+dd+id + ++v+a + l+ +Ga kiy+ ath ++s+ a +++ e  ++d v+vt+tip      +c+kik
  PHY93_07880|PHY93_07880 203 AMNVIGNVSGKECIIIDDMIDTAGTLVEACKALRRNGATKIYACATHPVFSDPAIKRISECeELDRVIVTDTIPLTELARKCDKIK 288
                              69*****************************************************99977527***********9999******** PP

                              EE--HHHHHHHHHHHHHT---TT- CS
           Pribosyl_synth 159 tvdislllaeairrihngesmsyl 182
                               +  + lla+ai r +n++s+s l
  PHY93_07880|PHY93_07880 289 VLSTAELLAKAIHRTFNNDSVSSL 312
                              ********************9976 PP

>> Pribosyltran  Phosphoribosyl transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0      0.59   2.1e+03      44      56 ..      16      28 ..      13      38 .. 0.81
   2 ?   -1.0   0.0      0.31   1.1e+03     106     132 ..      73      99 ..      70     108 .. 0.75
   3 !   56.4   0.2   6.8e-19   2.4e-15      24     124 ..     157     249 ..     142     277 .. 0.86

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 0.59
                             HHHHHHHSTT-EE CS
             Pribosyltran 44 akiladeLevpla 56
                              ++++d+L+vpl+
  PHY93_07880|PHY93_07880 16 SNQISDYLDVPLV 28
                             6899*******97 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.31
                              HHHHHHCC-BSEEEEEEEEE-HHHHHH CS
             Pribosyltran 106 alelLkekgpeevriavlvdkpateee 132
                              ++++Lk++ + ++ ++ +++  a++ +
  PHY93_07880|PHY93_07880  73 MIDALKRASASSITTVIPFYGYARQDR 99 
                              6899***********999955444443 PP

  == domain 3  score: 56.4 bits;  conditional E-value: 6.8e-19
                              EE--GGGEEEEEEETTTHHHHHHHHHHSTT-EE-EEEEEE-TTT--EE........EE----TTSEEEEE-SEESSSHHHHHHHHH CS
             Pribosyltran  24 eeyngkpdvvvgiargGvpfakiladeLevplayvrkvkyrpdgseeaargssdesrlledpagkkVliVDDildtGgTllaalel 109
                              +e++ +++++v ++ gGv ++  +a++L++ +a+++k++  ++ +e +           +++ gk ++i+DD++dt+gTl +a+++
  PHY93_07880|PHY93_07880 157 KEIFSENTIFVSPDAGGVERVRFYAKKLNADIAMIDKRRTGKNIAEAMN--------VIGNVSGKECIIIDDMIDTAGTLVEACKA 234
                              335557******************************************6........89*************************** PP

                              HHCC-BSEEEEEEEE CS
             Pribosyltran 110 Lkekgpeevriavlv 124
                              L++ g++++ +++ +
  PHY93_07880|PHY93_07880 235 LRRNGATKIYACATH 249
                              *******99888766 PP

>> UPRTase  Uracil phosphoribosyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0   3.4e-06     0.012     109     171 ..     200     262 ..     175     276 .. 0.71

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 3.4e-06
                  UPRTase 109 veyynkLPkkiaertvlllDpviaTGgsaaaaiqlLkergvgeekIlvlsvlaseegvkrlae 171
                                   ++  +++ ++ +++D +i T g++++a++ L+++g+++        + s  ++kr++e
  PHY93_07880|PHY93_07880 200 IAEAMNVIGNVSGKECIIIDDMIDTAGTLVEACKALRRNGATKIYACATHPVFSDPAIKRISE 262
                              444445555667788***********************9987555555556777777777765 PP

>> PdxA  Pyridoxal phosphate biosynthetic protein PdxA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   3.5e-05      0.13     115     158 ..     262     305 ..     229     310 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 3.5e-05
                              EETTEEEEESS-SS-GGGHHHH--HHHHHHHHHHHHHHHHHTTT CS
                     PdxA 115 aseeLrvalvTthipLkevakaitkerllevlrllakalkrdfg 158
                               +eeL  + vT+ ipL e a+++ k ++l++ +llaka++r+f+
  PHY93_07880|PHY93_07880 262 ECEELDRVIVTDTIPLTELARKCDKIKVLSTAELLAKAIHRTFN 305
                              5899************************************9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (312 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       520  (0.0290033); expected 358.6 (0.02)
Passed bias filter:                      461  (0.0257125); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.52u 0.57s 00:00:01.08 Elapsed: 00:00:00.49
# Mc/sec: 1897.19
//
Query:       PHY93_07885|PHY93_07885  [L=187]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.7e-56  190.9   0.0      2e-56  190.6   0.0    1.0  1  Pept_tRNA_hydro  Peptidyl-tRNA hydrolase


Domain annotation for each model (and alignments):
>> Pept_tRNA_hydro  Peptidyl-tRNA hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  190.6   0.0   1.1e-60     2e-56       1     169 [.       4     181 ..       4     183 .. 0.91

  Alignments for each domain:
  == domain 1  score: 190.6 bits;  conditional E-value: 1.1e-60
                              EEEE---SSTCCTTCGGGHHHHHHHHHHHH..........TCEEEEEETTEEEEEEEESS-GGGHHHHHHHHHHHCT--..GEEEE CS
          Pept_tRNA_hydro   1 livGLGNpgkeYektRHNvGflvvdelakk..........aevaegkiegekvlllkPqtymNlsGeavkellkfykieseeilvv 76 
                              livGLGNpg++Y++tRHN+G++v +el+ +          +++a ++ + +k+++lkP+t+mNlsGe+++ ++ f+ki++e+ilvv
  PHY93_07885|PHY93_07885   4 LIVGLGNPGSKYHHTRHNIGWDVFEELSFArdlkwsakfkGQYAVHTNGADKIYFLKPETFMNLSGESLQPMMAFFKIDTENILVV 89 
                              8************************9965544666655555566669999*****************************9****** PP

                              EEETTSSTTEEEEEESS--TT-HHHHHHHHHHT-S-SEEEEEEE---ST-CGGHHHHCTSB-HHHHHC.HHHHHHHHHHCHHHHHH CS
          Pept_tRNA_hydro  77 hDdldlplgkirlkkkgssgghnGlksiikklgtekfvRlriGIgrpekakkkvadyVLskfskeeek.leevlekaaealeellk 161
                              hD++dlp+g+i +kk+g+ +ghnGlksi++klg+++f Rlr+GIgrp +   +v+++VLs  + e+++ +   l+ aa a+ee++k
  PHY93_07885|PHY93_07885  90 HDEIDLPFGTIAFKKGGGLAGHNGLKSITEKLGSQEFKRLRVGIGRPVH--GDVSNWVLSGYTGEDKDfFVPYLKGAALAVEEYIK 173
                              ***********************************************96..47**********99988888999999999***998 PP

                              HTSCCHCC CS
          Pept_tRNA_hydro 162 eeleaamn 169
                               ++++a +
  PHY93_07885|PHY93_07885 174 LGFDKAST 181
                              77888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (187 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       262  (0.0146132); expected 358.6 (0.02)
Passed bias filter:                      238  (0.0132746); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.41s 00:00:00.86 Elapsed: 00:00:00.45
# Mc/sec: 1237.20
//
Query:       PHY93_07890|PHY93_07890  [L=367]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.3e-40  136.7   3.5    4.1e-40  135.8   0.6    2.6  3  YchF-GTPase_C  Protein of unknown function (DUF933)
    7.3e-23   80.8   0.3      4e-22   78.5   0.0    2.2  2  MMR_HSR1       50S ribosome-binding GTPase
    1.1e-08   34.8   0.0    2.3e-08   33.7   0.0    1.6  1  FeoB_N         Ferrous iron transport protein B
  ------ inclusion threshold ------
      0.074   13.1   0.0       0.13   12.3   0.0    1.3  1  DUF3551        Protein of unknown function (DUF3551)


Domain annotation for each model (and alignments):
>> YchF-GTPase_C  Protein of unknown function (DUF933)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.1      0.26   1.2e+03      73      81 ..     107     115 ..     104     117 .. 0.85
   2 ?   -1.7   0.0      0.74   3.3e+03      10      33 ..     225     248 ..     221     273 .. 0.73
   3 !  135.8   0.6   9.2e-44   4.1e-40       1      83 [.     285     367 .]     285     367 .] 0.99

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.26
            YchF-GTPase_C  73 vqdgDiilf 81 
                              ++dgDii++
  PHY93_07890|PHY93_07890 107 FEDGDIIHV 115
                              79*****97 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 0.74
            YchF-GTPase_C  10 kevraWtikkgttapqaAgviHsD 33 
                              k vr++  k++++++  +g+  s+
  PHY93_07890|PHY93_07890 225 KTVREYAAKENSEVQVICGKLESE 248
                              567777777777777777766554 PP

  == domain 3  score: 135.8 bits;  conditional E-value: 9.2e-44
            YchF-GTPase_C   1 LitffTaGekevraWtikkgttapqaAgviHsDfekgFiraevikyedlvelgseaaakeagklrlegkdyvvqdgDiilfkf 83 
                              L+t+fTaG kevraWt+++g +apq+AgviH+Dfe+gFiraev++y+dlv++gsea++keagk+r+egk+yvvqdgDi++f+f
  PHY93_07890|PHY93_07890 285 LKTYFTAGVKEVRAWTFEDGFKAPQCAGVIHTDFERGFIRAEVFSYDDLVKFGSEAKVKEAGKFRVEGKEYVVQDGDIMHFRF 367
                              79********************************************************************************8 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.5   0.0   8.9e-26     4e-22       2      93 ..       5     122 ..       4     155 .. 0.80
   2 ?   -0.2   0.1      0.23     1e+03      73     103 ..     200     230 ..     179     268 .. 0.64

  Alignments for each domain:
  == domain 1  score: 78.5 bits;  conditional E-value: 8.9e-26
                              EEEEESTTSSHHHHHHHHHTSTEEESSSTTSSSSEEEEEEEETTEE.................EEEEECGGCSSHHHHHHHHHHHH CS
                 MMR_HSR1   2 vaivGrpNvGKStLinaltgekaivsdkpgtTrdinegrvklkgke.................ielvDtpGliegaseekglgkaf 70 
                              ++ivG pNvGKSt+++a+t + a+++++p++T+++n g v++++ +                 +e+vD++Gl++gas+++glg++f
  PHY93_07890|PHY93_07890   5 CGIVGLPNVGKSTIFSAITSAPAEAANYPFCTIEPNVGIVAVSDLRmqkiadiigpekliptsVEFVDIAGLVKGASKGEGLGNQF 90 
                              79**************************************96642245566666666677777*********************** PP

                              HHHHC.TSEEEEEEETT........TTCSHHH CS
                 MMR_HSR1  71 lalee.adlillvvdas........eeklkpl 93 
                              l +++ +++i++vv++         ++k++p+
  PHY93_07890|PHY93_07890  91 LGHIRaVNAIIHVVRCFedgdiihvHGKVDPK 122
                              *****55*******998665555553344444 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.23
                              HHCTSEEEEEEETTTTCSHHHHHHHHHHHHH CS
                 MMR_HSR1  73 leeadlillvvdaseeklkpldeeleellee 103
                              l+ ++ +l+++++ ee++++++  ++ ++e 
  PHY93_07890|PHY93_07890 200 LITMKKVLYLCNVDEEGVANENAYVKTVREY 230
                              4456667777776666666666555555332 PP

>> FeoB_N  Ferrous iron transport protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.7   0.0   5.1e-12   2.3e-08       3      66 ..       5      69 ..       3      82 .. 0.90

  Alignments for each domain:
  == domain 1  score: 33.7 bits;  conditional E-value: 5.1e-12
                             EEEEESTTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEETT.EEEEEEE----SSSSSSSHH CS
                   FeoB_N  3 valvGnpnvGkttlfnaltgakqkvgNwpGvtvekkegklklkg.keveivDlPGiYslsaysee 66
                             + +vG pnvGk+t+f a+t a  + +N+p  t+e + g + +++ +  +i D+ G  +l ++s e
  PHY93_07890|PHY93_07890  5 CGIVGLPNVGKSTIFSAITSAPAEAANYPFCTIEPNVGIVAVSDlRMQKIADIIGPEKLIPTSVE 69
                             678**************************************999677799999998888777765 PP

>> DUF3551  Protein of unknown function (DUF3551)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0     3e-05      0.13      14      37 ..      19      42 ..      13      46 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 3e-05
                  DUF3551 14 laaaattpAeArdypyClqgreyg 37
                             + a++++pAeA +yp+C   +++g
  PHY93_07890|PHY93_07890 19 FSAITSAPAEAANYPFCTIEPNVG 42
                             456669***********8777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (367 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       606  (0.0338); expected 358.6 (0.02)
Passed bias filter:                      428  (0.0238719); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.58u 0.52s 00:00:01.10 Elapsed: 00:00:00.49
# Mc/sec: 2266.20
//
Query:       PHY93_07895|PHY93_07895  [L=696]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.7e-28   97.5   0.0    8.2e-28   96.4   0.0    1.5  1  SLT       Transglycosylase SLT domain
  ------ inclusion threshold ------
      0.032   14.3   0.0         20    5.6   0.0    3.0  2  TPR_2     Tetratricopeptide repeat
      0.096   12.9   1.5        7.1    7.1   0.0    3.3  3  TPR_8     Tetratricopeptide repeat
        0.2   12.1   0.1         19    5.7   0.0    2.6  3  BTAD      Bacterial transcriptional activator domain


Domain annotation for each model (and alignments):
>> SLT  Transglycosylase SLT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   96.4   0.0   1.8e-31   8.2e-28       7     107 ..     541     639 ..     538     646 .. 0.95

  Alignments for each domain:
  == domain 1  score: 96.4 bits;  conditional E-value: 1.8e-31
                              HHHHTS-HHHHHHHHHHHHTT-TT-B-TTSEBTTTTBETTTHHHHHHHHT-SHHHHCSHHHHHHHHHHHHHHHHHTTTTHHHHHHH CS
                      SLT   7 ekkygvepsllaaiaqvESgfnpkAvsksgavGLmQimpstakrlglrvklsedelldPeknisagakyLkslykqyngslllala 92 
                              +++++++p ++  ++++ES+fnp+A+s++ga GLmQ+mp+takr+ ++    ++ l +Pe n+ +g +yL++l+++++g+l++ala
  PHY93_07895|PHY93_07895 541 KNAESLDPLIVISLIRQESAFNPEAKSGVGAKGLMQLMPATAKRFNKK--VRVSHLGNPEINVAIGSRYLRQLLARFDGNLIFALA 624
                              6788999*************************************9986..7899******************************** PP

                              HHHH-HHHHHHTTHS CS
                      SLT  93 AYNaGegtvkkakke 107
                              +YNaGe+++ ++ ke
  PHY93_07895|PHY93_07895 625 SYNAGENRIDRWRKE 639
                              ************986 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.5   0.0    0.0049        22       8      27 ..     293     312 ..     290     317 .. 0.88
   2 ?    5.6   0.0    0.0045        20       2      32 ..     360     390 ..     359     392 .. 0.87

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.0049
                    TPR_2   8 GlayyklgdyeeAleafekA 27 
                              G+a++++g+ ++A+e f+ A
  PHY93_07895|PHY93_07895 293 GKALFYKGRDADAIEIFNLA 312
                              99*************99977 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.0045
                    TPR_2   2 ealynlGlayyklgdyeeAleafekAleldP 32 
                              ++ y++++a +k gd ++  ++f+k +   P
  PHY93_07895|PHY93_07895 360 KLQYWIAYAFLKTGDVKKGTAFFNKIINTSP 390
                              5789*******************99886655 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.1       1.5   6.6e+03      11      25 ..     253     267 ..     250     270 .. 0.73
   2 ?    3.2   0.1     0.028   1.3e+02       8      31 ..     293     316 ..     291     319 .. 0.90
   3 ?    7.1   0.0    0.0016       7.1       2      32 ..     360     390 ..     359     391 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 1.5
                              HHHTT-HHHHHHHHH CS
                    TPR_8  11 ylklgdyeeAkeyye 25 
                                ++gd ++Ak  ++
  PHY93_07895|PHY93_07895 253 AAEKGDNQQAKLMIN 267
                              568999999997666 PP

  == domain 2  score: 3.2 bits;  conditional E-value: 0.028
                              HHHHHHTT-HHHHHHHHHHHHHHH CS
                    TPR_8   8 gsiylklgdyeeAkeyyekaleld 31 
                              g++++ +g+   A+e ++ a +++
  PHY93_07895|PHY93_07895 293 GKALFYKGRDADAIEIFNLAKSIS 316
                              789999**************9987 PP

  == domain 3  score: 7.1 bits;  conditional E-value: 0.0016
                              CHHHHHHHHHHHTT-HHHHHHHHHHHHHHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeAkeyyekaleldp 32 
                              ++ y+++++ lk+gd ++  ++++k +  +p
  PHY93_07895|PHY93_07895 360 KLQYWIAYAFLKTGDVKKGTAFFNKIINTSP 390
                              5789*********************997665 PP

>> BTAD  Bacterial transcriptional activator domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   0.0    0.0042        19       4      36 ..     241     273 ..     240     283 .. 0.92
   2 ?    3.5   0.0      0.02        92     104     129 ..     294     319 ..     291     324 .. 0.88
   3 ?   -3.7   0.0       3.3   1.5e+04      27      59 ..     606     638 ..     600     641 .. 0.75

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.0042
                              HHHHHHHHHHHHHHHTT-HHHHHHHHHHHHTT- CS
                     BTAD   4 arfealvaagraalaagdpeeaaelleaAlalw 36 
                              ++f++l +++++a+++gd ++a   ++ A+ ++
  PHY93_07895|PHY93_07895 241 EEFQRLSHDAQEAAEKGDNQQAKLMINSAVIFY 273
                              58********************99999998877 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.02
                              HHHHHTT-HHHHHHHHHHHHHHHHHH CS
                     BTAD 104 rAlarsGrqaeALevYerlrrlLaee 129
                              +Al++ Gr a+A+e ++ ++++  +e
  PHY93_07895|PHY93_07895 294 KALFYKGRDADAIEIFNLAKSISTKE 319
                              69***************999887776 PP

  == domain 3  score: -3.7 bits;  conditional E-value: 3.3
                              HHHHHHHTT--SSTTGGGTTSTTHHHHHHHHHH CS
                     BTAD  27 elleaAlalwrGpaladleagewleaererlee 59 
                              + l++ la ++G +   l +++  e ++ r+++
  PHY93_07895|PHY93_07895 606 RYLRQLLARFDGNLIFALASYNAGENRIDRWRK 638
                              567788888888888888887777777777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (696 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       663  (0.0369792); expected 358.6 (0.02)
Passed bias filter:                      321  (0.017904); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.68u 0.38s 00:00:01.06 Elapsed: 00:00:00.48
# Mc/sec: 4382.90
//
Query:       PHY93_07900|PHY93_07900  [L=145]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.091   12.4   0.0       0.18   11.5   0.0    1.7  2  CENP-P    CENP-A-nucleosome distal (CAD) centromere subunit, 
       0.33   11.1   3.8       0.66   10.1   3.3    1.7  1  TssO      Type VI secretion system, TssO


Domain annotation for each model (and alignments):
>> CENP-P  CENP-A-nucleosome distal (CAD) centromere subunit, CENP-P
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0      0.45   4.1e+03      83      94 ..       6      17 ..       3      34 .. 0.64
   2 ?   11.5   0.0     2e-05      0.18      62      99 ..      74     112 ..      59     142 .. 0.87

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 0.45
                   CENP-P 83 khfkekypevvn 94
                              hf  k pe+ +
  PHY93_07900|PHY93_07900  6 THFALKNPEIAS 17
                             577777777754 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 2e-05
                   CENP-P  62 llffrslrsfaewcedrrrtfkhfkekyp.evvnlpeGa 99 
                               l+fr+   f e  +d ++tf h+++ y  ++v l+e +
  PHY93_07900|PHY93_07900  74 SLYFRKGDYFQELADDVNETFDHLENGYKnDLVYLSEVT 112
                              589*************************63689999865 PP

>> TssO  Type VI secretion system, TssO
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   3.3   7.4e-05      0.66      11     101 ..      29     125 ..      20     129 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 7.4e-05
                     TssO  11 lyflllFlvtvlllflivffffks....splqekeil.lkelerkkkfeekqkelkkkvdsiykkIdsL.kpevnavfleneIkkd 90 
                              ++ ll++ +t+l++f++vff+ k     ++lq++ +l ++ ++  +  + k + +++  d + ++ d+L +  +n+ +  +e++  
  PHY93_07900|PHY93_07900  29 FLILLHLGFTCLTFFICVFFSHKIagplYKLQKHLKLlREGNNPGSLYFRKGDYFQELADDVNETFDHLeNGYKNDLVYLSEVTSY 114
                              34456788999999999**9988433337888888887888888888899999999999999999999999999999999999999 PP

                     TssO  91 lndikntygkn 101
                              +n+++ + +++
  PHY93_07900|PHY93_07900 115 INNLSLVVPDD 125
                              99998877766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (145 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       663  (0.0369792); expected 358.6 (0.02)
Passed bias filter:                      496  (0.0276647); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.56s 00:00:01.09 Elapsed: 00:00:00.50
# Mc/sec: 877.71
//
Query:       PHY93_21270|PHY93_21270  [L=83]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.3e-10   40.0   0.7    4.2e-10   39.7   0.7    1.1  1  HTH_17         Helix-turn-helix domain
    4.5e-09   36.3   0.1    6.9e-09   35.7   0.1    1.3  1  MerR_1         MerR HTH family regulatory protein
    6.8e-06   25.8   0.1    1.2e-05   25.0   0.1    1.4  1  MerR           MerR family regulatory protein
  ------ inclusion threshold ------
      0.024   14.0   0.0       0.05   13.0   0.0    1.5  1  HTH_Tnp_ISL3   Helix-turn-helix domain of transposase family 
      0.047   13.5   0.1        0.1   12.4   0.0    1.6  2  HTH_23         Homeodomain-like domain
      0.098   12.8   0.0       0.17   12.0   0.0    1.5  1  Phage_CI_repr  Bacteriophage CI repressor helix-turn-helix do


Domain annotation for each model (and alignments):
>> HTH_17  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.7   0.7   1.4e-13   4.2e-10       1      43 [.      32      76 ..      32      80 .. 0.91

  Alignments for each domain:
  == domain 1  score: 39.7 bits;  conditional E-value: 1.4e-13
                   HTH_17  1 lltveEaAelLgvsrstvyrlirrgelpaakiGrr..wriprsdl 43
                             lltv+E+A+lL+vs+ t+ r+ +rg+lpa +i+ r  +r++++++
  PHY93_21270|PHY93_21270 32 LLTVAEVADLLRVSKLTIKRWGKRGKLPAIRINARgdRRYRKEAV 76
                             79****************************9666666*****987 PP

>> MerR_1  MerR HTH family regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.7   0.1   2.3e-12   6.9e-09       2      49 ..      34      82 ..      33      83 .] 0.95

  Alignments for each domain:
  == domain 1  score: 35.7 bits;  conditional E-value: 2.3e-12
                             EHHHHHHHHTS-HHHHHHHHHHTT-S-EE.-TTS-EEEEHHHHHHHHHH CS
                   MerR_1  2 sigevakilgvtthtlrywekegllkpkr.teggrryYtdedierLkli 49
                             ++ eva +l v++ t++ w k+g+l+  r + +g r+Y++e + +L  i
  PHY93_21270|PHY93_21270 34 TVAEVADLLRVSKLTIKRWGKRGKLPAIRiNARGDRRYRKEAVLWLLGI 82
                             899******************************************9877 PP

>> MerR  MerR family regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.0   0.1     4e-09   1.2e-05       1      38 []      34      71 ..      34      71 .. 0.97

  Alignments for each domain:
  == domain 1  score: 25.0 bits;  conditional E-value: 4e-09
                             EHHHHHHHHTTTHHHHHHHHHTTSSTSEEETTTSSEEE CS
                     MerR  1 tIgevAeltGvsprtLRyYEreGLipppeRtegGyRlY 38
                             t+ evA+l+ vs  t+ ++ ++G++p+ + ++ G R+Y
  PHY93_21270|PHY93_21270 34 TVAEVADLLRVSKLTIKRWGKRGKLPAIRINARGDRRY 71
                             789**********************************9 PP

>> HTH_Tnp_ISL3  Helix-turn-helix domain of transposase family ISL3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   1.7e-05      0.05      28      47 ..      33      52 ..      28      55 .. 0.91

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 1.7e-05
             HTH_Tnp_ISL3 28 rsvkavArqlgvSwtTVwri 47
                              +v++vA++l+vS  T++r+
  PHY93_21270|PHY93_21270 33 LTVAEVADLLRVSKLTIKRW 52
                             59*****************8 PP

>> HTH_23  Homeodomain-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   3.5e-05       0.1      17      37 ..      32      52 ..      25      56 .. 0.88
   2 ?   -2.7   0.1         2   5.9e+03      40      44 ..      70      74 ..      68      80 .. 0.57

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 3.5e-05
                   HTH_23 17 GlsvreIAreLgvsrrTvyrw 37
                              l+v+e+A++L vs+ T+ rw
  PHY93_21270|PHY93_21270 32 LLTVAEVADLLRVSKLTIKRW 52
                             689****************** PP

  == domain 2  score: -2.7 bits;  conditional E-value: 2
                   HTH_23 40 ryree 44
                             ryr+e
  PHY93_21270|PHY93_21270 70 RYRKE 74
                             55444 PP

>> Phage_CI_repr  Bacteriophage CI repressor helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   5.7e-05      0.17      17      40 ..      37      60 ..      19      63 .. 0.94

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 5.7e-05
                             HHHCCTT--HHHHHHHHHSSS--H CS
            Phage_CI_repr 17 eLAdlLgiakssvstwvrRdffPg 40
                             e AdlL ++k ++  w +R++ P+
  PHY93_21270|PHY93_21270 37 EVADLLRVSKLTIKRWGKRGKLPA 60
                             78*******************995 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (83 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       344  (0.0191868); expected 358.6 (0.02)
Passed bias filter:                      303  (0.0169); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.42u 0.39s 00:00:00.81 Elapsed: 00:00:00.44
# Mc/sec: 572.74
//
Query:       PHY93_07905|PHY93_07905  [L=396]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    6.9e-90  300.8   0.0    9.1e-90  300.4   0.0    1.1  1  ParA            NUBPL iron-transfer P-loop NTPase
    3.5e-14   53.1   0.7    1.2e-10   41.6   0.2    2.4  2  AAA_31          AAA domain
    3.6e-13   49.7   0.1    8.5e-13   48.5   0.0    1.6  2  CbiA            CobQ/CobB/MinD/ParA nucleotide binding domain
    2.2e-08   33.7   0.0    4.9e-08   32.6   0.0    1.6  1  MipZ            ATPase MipZ
    6.9e-05   22.4   0.0     0.0061   16.1   0.0    2.1  2  CBP_BcsQ        Cellulose biosynthesis protein BcsQ
    0.00024   20.5   0.1     0.0022   17.4   0.0    2.2  2  VirC1           VirC1 protein
     0.0003   20.3   0.0     0.0035   16.8   0.1    2.1  2  Fer4_NifH       4Fe-4S iron sulfur cluster binding proteins, 
     0.0015   17.8   0.3      0.009   15.2   0.4    2.1  2  ArsA_ATPase     Anion-transporting ATPase
     0.0082   16.0   3.0       0.61    9.9   0.0    2.9  3  AAA_26          AAA domain
  ------ inclusion threshold ------
      0.024   14.4   0.0       0.25   11.1   0.0    2.1  2  CLP1_P          mRNA cleavage and polyadenylation factor CLP1
      0.025   12.8   0.1      0.032   12.4   0.1    1.3  1  FTHFS           Formate--tetrahydrofolate ligase
       0.08   11.9   0.1       0.15   11.0   0.1    1.4  1  MeaB            Methylmalonyl Co-A mutase-associated GTPase M
       0.08   13.1   0.0       0.21   11.8   0.0    1.8  1  FeS_assembly_P  Iron-sulfur cluster assembly protein
       0.17   12.2   0.0        0.4   11.0   0.0    1.6  1  SspK            Small acid-soluble spore protein K family


Domain annotation for each model (and alignments):
>> ParA  NUBPL iron-transfer P-loop NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  300.4   0.0   7.1e-93   9.1e-90       3     245 ..     131     376 ..     129     377 .. 0.95

  Alignments for each domain:
  == domain 1  score: 300.4 bits;  conditional E-value: 7.1e-93
                     ParA   3 kkviavlSgKGGVGKStvavnlAlaLakkglkvgllDaDiyGpsiprllgveeekpeqs.ekkliPveakgikvmSigfllesede 87 
                              kkviav+S KGGVGKStvavnlA+aL++ g+kvgllDaDiyGps+p ll+ +e+kp ++ ekk++P++a+gi ++S+g++++ e++
  PHY93_07905|PHY93_07905 131 KKVIAVSSNKGGVGKSTVAVNLAFALKNLGKKVGLLDADIYGPSMPMLLNKREAKPGATsEKKILPIDAYGIPFISFGLFIN-EKD 215
                              89***************************************************9998876888******************9.9** PP

                     ParA  88 avvwrGpmkskaikqllkdvewgelDyLiiDlPPGtgDeqltvaqklplagaviVttpqevaladvkkaiemfkkvkvkvlGvveN 173
                              +v+wrGpm+ ++++q+l dv+w+ lDyLiiDlPPGtgD+ql+++q  +++g+++V+tpq++a+ d+kk+++mf++vk++vlG+veN
  PHY93_07905|PHY93_07905 216 PVIWRGPMLGGVLNQFLFDVAWEGLDYLIIDLPPGTGDMQLSMVQATDIDGVIVVSTPQDIAVLDTKKGLNMFTQVKIPVLGMVEN 301
                              ************************************************************************************** PP

                     ParA 174 msgfvcpkc.gekteifgkgggeklaeelgvpllgeipldpeireasdegkplvlkepe..seaakaleeiaekv 245
                              ms+fv ++  ++k+ ifg+gg++++a+el+v+ll+eipl++++re sd+g p++ +++    ++ +a++++a++v
  PHY93_07905|PHY93_07905 302 MSYFVPDDApTKKYFIFGEGGVKRAAAELNVNLLAEIPLEMALREGSDKGFPYMNEKKYegRPVWNAYMNLAKNV 376
                              *****99873577889************************************99887654477999999999886 PP

>> AAA_31  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.6   0.2   9.5e-14   1.2e-10       2      40 ..     132     170 ..     131     199 .. 0.91
   2 !    9.6   0.0   0.00064      0.82     117     167 ..     239     291 ..     220     299 .. 0.79

  Alignments for each domain:
  == domain 1  score: 41.6 bits;  conditional E-value: 9.5e-14
                   AAA_31   2 kvIaianqKGGvGKTTtsvnlaaalaklgkkvLlvDlDp 40 
                              kvIa++ +KGGvGK+T +vnla al +lgkkv l D+D 
  PHY93_07905|PHY93_07905 132 KVIAVSSNKGGVGKSTVAVNLAFALKNLGKKVGLLDADI 170
                              9************************************96 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 0.00064
                   AAA_31 117 eYDyiiiDcpPsLglltenaLvasds..viipvqaeayaleGleqllktieev 167
                                Dy iiD pP  g +  + + a d   vi++  +++ a+   ++ l+++++v
  PHY93_07905|PHY93_07905 239 GLDYLIIDLPPGTGDMQLSMVQATDIdgVIVVSTPQDIAVLDTKKGLNMFTQV 291
                              47************999988888764339***9**999988777777776666 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0       4.5   5.7e+03      74      87 ..      11      24 ..       4      49 .. 0.68
   2 !   48.5   0.0   6.6e-16   8.5e-13       1     120 [.     134     346 ..     134     353 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 4.5
                             ..EEEEEEEEESS. CS
                             xxxxxxxxxxxxxx RF
                     CbiA 74 lkiagvvlnrvdge 87
                              k++gv++n  +g+
  PHY93_07905|PHY93_07905 11 SKLLGVIINPNNGK 24
                             67788888865554 PP

  == domain 2  score: 48.5 bits;  conditional E-value: 6.6e-16
                              EEEEESSTTSSHHHHHHHHHHHHHHTT--EEEEEEEESSCCCCHHTTEB-HHHH................................ CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx................................ RF
                     CbiA   1 iaiastkGGvGKTtlaanLaralarrglrVllvDaDpqannlaileglendiep................................ 54 
                              ia+ s kGGvGK+t+a+nLa+al++ g++V l+DaD  +++    + l +++++                                
  PHY93_07905|PHY93_07905 134 IAVSSNKGGVGKSTVAVNLAFALKNLGKKVGLLDADIYGPSMP--MLLNKREAKpgatsekkilpidaygipfisfglfinekdpv 217
                              7999*************************************99..33333333358999999************************ PP

                              ..............................................................CCHCCCHHHHHHCHCHHHH..... CS
                              ..............................................................xxxxxxxxxxxxxxxxxxx...xx RF
                     CbiA  55 ..............................................................dlkrllellealgkkkall...lk 75 
                                                                                            d k++l+++ +++++  +l    +
  PHY93_07905|PHY93_07905 218 iwrgpmlggvlnqflfdvawegldyliidlppgtgdmqlsmvqatdidgvivvstpqdiavlDTKKGLNMFTQVKIP--VLgmvEN 301
                              ***********************************************************************999987..5556889 PP

                              EEEEEEEEESS...-TTCHHHHHHHHHHCTS-EEEEEE--CCHCC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     CbiA  76 iagvvlnrvdgeneetllkealeelkqrygvpvlgviprdeavae 120
                              +  +v+     ++++   + ++++  ++++v++l++ip   a+ e
  PHY93_07905|PHY93_07905 302 MSYFVPDDAPTKKYFIFGEGGVKRAAAELNVNLLAEIPLEMALRE 346
                              999999999999999999999999998889999999998777765 PP

>> MipZ  ATPase MipZ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.6   0.0   3.9e-11   4.9e-08       2      55 ..     133     186 ..     132     281 .. 0.75

  Alignments for each domain:
  == domain 1  score: 32.6 bits;  conditional E-value: 3.9e-11
                              EEEE--SSTTSSHHHHHHHHHHHHHTTT--EEEEE--TTT-HHHHHHHHHHHHH CS
                     MipZ   2 vivlgnekGGsGksttavhvavaLlkkGarvaaidldlrqrtlarylenraata 55 
                              vi ++ +kGG Gkst+av +a aL + G++v+ +d d+   ++   l+ r a  
  PHY93_07905|PHY93_07905 133 VIAVSSNKGGVGKSTVAVNLAFALKNLGKKVGLLDADIYGPSMPMLLNKREAKP 186
                              89999****************************************999998753 PP

>> CBP_BcsQ  Cellulose biosynthesis protein BcsQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   4.8e-06    0.0061       2      38 ..     132     168 ..     131     195 .. 0.94
   2 ?    4.4   0.0     0.017        22     109     145 ..     232     269 ..     197     289 .. 0.78

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 4.8e-06
                 CBP_BcsQ   2 kvlalqGvRGGvGttsllaaLawalhelgesvlviDl 38 
                              kv+a++  +GGvG++++++ La al++lg++v ++D+
  PHY93_07905|PHY93_07905 132 KVIAVSSNKGGVGKSTVAVNLAFALKNLGKKVGLLDA 168
                              68999999************************99996 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.017
                 CBP_BcsQ 109 lkelk.eqyrwillDlpagasaltrellaladlvllvv 145
                              l  ++ e  +++++Dlp g+ +++ ++++ +d++  +v
  PHY93_07905|PHY93_07905 232 LFDVAwEGLDYLIIDLPPGTGDMQLSMVQATDIDGVIV 269
                              5555557789*******************998863333 PP

>> VirC1  VirC1 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.0   1.7e-06    0.0022       2      40 ..     132     170 ..     131     189 .. 0.91
   2 ?    0.3   0.0      0.27   3.5e+02      79     130 ..     235     291 ..     226     305 .. 0.70

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 1.7e-06
                    VirC1   2 klitfcslkGGaGkttalmglcsalasdgkrvalfeade 40 
                              k+i+++s kGG Gk+t  + l  al + gk+v+l++ad 
  PHY93_07905|PHY93_07905 132 KVIAVSSNKGGVGKSTVAVNLAFALKNLGKKVGLLDADI 170
                              67999********************************96 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.27
                    VirC1  79 aegeGfdyaladtrgGsselnntiiassdl...lli..Ptmltpldidealatyryv 130
                              ++ eG dy ++d   G+ ++   ++ ++d+   +++  P  ++ ld  + l+ +  v
  PHY93_07905|PHY93_07905 235 VAWEGLDYLIIDLPPGTGDMQLSMVQATDIdgvIVVstPQDIAVLDTKKGLNMFTQV 291
                              667899999999999999999999988886332443335566777777777777655 PP

>> Fer4_NifH  4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.1   2.8e-06    0.0035       7      44 ..     139     176 ..     132     186 .. 0.80
   2 ?    0.9   0.0      0.19   2.5e+02     193     245 ..     323     377 ..     316     382 .. 0.74

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 2.8e-06
                Fer4_NifH   7 GkGGiGksttsqnlsaalaemgkkvlivGCDPkaDstr 44 
                               kGG+Gkst + nl+ al++ gkkv ++  D    s  
  PHY93_07905|PHY93_07905 139 NKGGVGKSTVAVNLAFALKNLGKKVGLLDADIYGPSMP 176
                              59***********************8887776555555 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.19
                Fer4_NifH 193 iekfaeelgtkvlevvPrdeivrkaelrkktvieyapese..qakeyrelarkil 245
                              +++ a+el++++l+ +P++  +r+ + +    ++ ++ +   + + y +la+++ 
  PHY93_07905|PHY93_07905 323 VKRAAAELNVNLLAEIPLEMALREGSDKGFPYMNEKKYEGrpVWNAYMNLAKNVD 377
                              56778999***********999998777654443333222338899999999986 PP

>> ArsA_ATPase  Anion-transporting ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.4     7e-06     0.009       7      38 ..     138     169 ..     131     173 .. 0.84
   2 ?   -0.4   0.0      0.41   5.3e+02     205     244 ..     263     302 ..     236     316 .. 0.73

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 7e-06
                              EESTTSSHHHHHHHHHHHHHHTTS-EEEEE-S CS
              ArsA_ATPase   7 gGKGGVGKttvsaatavklsekgkkvllistD 38 
                              + KGGVGK+tv+  +a  l + gkkv l+  D
  PHY93_07905|PHY93_07905 138 SNKGGVGKSTVAVNLAFALKNLGKKVGLLDAD 169
                              57***********************9887665 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 0.41
                              TTEEEEEEEESSHHHHHHHHHHHHHHHHTT-EEEEEEEEE CS
              ArsA_ATPase 205 ertsfrlVvipEklslkEteRaikeLkkygikvdavivNk 244
                              ++  +++V++p  +++ +t++ ++ +++++i v  ++ N 
  PHY93_07905|PHY93_07905 263 DIDGVIVVSTPQDIAVLDTKKGLNMFTQVKIPVLGMVENM 302
                              4445777888888888888888888888888877777665 PP

>> AAA_26  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   0.1      0.41   5.3e+02     156     172 ..       9      31 ..       4      61 .. 0.64
   2 ?    4.4   0.3     0.023        29       3      33 ..     134     164 ..     132     166 .. 0.89
   3 !    9.9   0.0   0.00047      0.61     116     195 ..     251     345 ..     238     348 .. 0.79

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 0.41
                   AAA_26 156 nv.rvlGvilNkvrnp...e..n 172
                              nv ++lGvi+N  + +   e  +
  PHY93_07905|PHY93_07905   9 NVsKLLGVIINPNNGKtlkEegR 31 
                              45369******744444431342 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.023
                   AAA_26   3 ifvtgtdtgvGKTvvslgLvralkrkgvkvg 33 
                              i v++   gvGK++v+  L+ alk+ g kvg
  PHY93_07905|PHY93_07905 134 IAVSSNKGGVGKSTVAVNLAFALKNLGKKVG 164
                              77899999***************99999987 PP

  == domain 3  score: 9.9 bits;  conditional E-value: 0.00047
                   AAA_26 116 eellnadiaknlgapvilVargglg.tinqllltiealrqknvrvlGvilNk...vrnpe...........nvetlekksgipvlG 186
                               ++++  ++++ +++ ++V+++ ++ ++ ++   ++++ q +++vlG++ N    v++++            v+ + +  ++++l+
  PHY93_07905|PHY93_07905 251 TGDMQLSMVQATDIDGVIVVSTPQDiAVLDTKKGLNMFTQVKIPVLGMVENMsyfVPDDAptkkyfifgegGVKRAAAELNVNLLA 336
                              5678888999999997777777555499***********************966544443566777777789999999999***** PP

                   AAA_26 187 vvPylpdle 195
                              ++P +  l+
  PHY93_07905|PHY93_07905 337 EIPLEMALR 345
                              ***987776 PP

>> CLP1_P  mRNA cleavage and polyadenylation factor CLP1 P-loop
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   0.00019      0.25       4      33 ..     142     171 ..     140     177 .. 0.91
   2 ?    0.6   0.0      0.32   4.1e+02     120     168 ..     253     301 ..     242     314 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00019
                   CLP1_P   4 dsGKSTlarlLlNyalrkgrkpvyvDlDvG 33 
                               +GKST+a +L+  + + g+k+ ++D+D+ 
  PHY93_07905|PHY93_07905 142 GVGKSTVAVNLAFALKNLGKKVGLLDADIY 171
                              59**************************96 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.32
                   CLP1_P 120 ellleliealepdvvvvldqeellnelkrdlplskvkvvklpkspgvvq 168
                              ++ l++++a  +d v+v++  ++ + l  +  l+ ++ vk+p++++v +
  PHY93_07905|PHY93_07905 253 DMQLSMVQATDIDGVIVVSTPQDIAVLDTKKGLNMFTQVKIPVLGMVEN 301
                              567889999**********999999999988899999999999988865 PP

>> FTHFS  Formate--tetrahydrofolate ligase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   2.5e-05     0.032      58      90 ..     132     164 ..      55     200 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 2.5e-05
                              EEEESS--TT--SHHHHHHHHHHHHHHTT--EE CS
                    FTHFS  58 lvtaitPtplGeGKttttigLaqalnklgkkav 90 
                               v a++  + G GK+t+++ La al++lgkk+ 
  PHY93_07905|PHY93_07905 132 KVIAVSSNKGGVGKSTVAVNLAFALKNLGKKVG 164
                              57899999**********************975 PP

>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.1   0.00012      0.15      26      66 ..     128     169 ..     123     177 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00012
                              -S-SEEEEEEE.-TTSSHHHHHHHHHHHHHCTT--EEEEEE- CS
                     MeaB  26 aGraqvvGltG.vPGaGkstlvealglelrrrGkrvavlavD 66 
                              aG  +v+ +     G+Gkst+  +l+  l++ Gk+v++l  D
  PHY93_07905|PHY93_07905 128 AGAKKVIAVSSnKGGVGKSTVAVNLAFALKNLGKKVGLLDAD 169
                              677777777651468**********************99877 PP

>> FeS_assembly_P  Iron-sulfur cluster assembly protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   0.00016      0.21       2      72 ..       8      78 ..       7      80 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00016
                             HHHHHHHTT-B-TTTSSBCCCCT---EEEE-T-EEEEEE--SSTT-TTHHHHHHHHHHHHC.STT--EEEE CS
           FeS_assembly_P  2 eavlaaLrtVtDPelgvdlvslglvreidieggkVsvditltypacslaeairadaeaalralpgvevveV 72
                             e v + L  ++ P+ g++l + g + ei+ ++++  ++   + +   ++  i++++++a++   ++e+v+V
  PHY93_07905|PHY93_07905  8 ENVSKLLGVIINPNNGKTLKEEGRIVEIKADQNELLFKYKRDGITPEQKRIIENSIISAVADFYPAEKVTV 78
                             679999********************************999988877999999999999998888788877 PP

>> SspK  Small acid-soluble spore protein K family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   0.00032       0.4       5      21 ..     349     365 ..     347     370 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00032
                     SspK   5 akgFPnknnnkfeGepr 21 
                               kgFP++n++k+eG+p 
  PHY93_07905|PHY93_07905 349 DKGFPYMNEKKYEGRPV 365
                              59************996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (396 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       431  (0.0240393); expected 358.6 (0.02)
Passed bias filter:                      376  (0.0209716); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.62u 0.51s 00:00:01.12 Elapsed: 00:00:00.50
# Mc/sec: 2398.72
//
Query:       PHY93_07910|PHY93_07910  [L=173]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (173 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       326  (0.0181828); expected 358.6 (0.02)
Passed bias filter:                      271  (0.0151152); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.43s 00:00:00.94 Elapsed: 00:00:00.48
# Mc/sec: 1085.78
//
Query:       PHY93_07915|PHY93_07915  [L=61]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
     0.0074   16.2   0.1     0.0085   16.0   0.1    1.2  1  RepB-RCR_reg  Replication regulatory protein RepB
  ------ inclusion threshold ------
       0.03   13.2   0.1       0.03   13.2   0.1    1.0  1  FBPase_glpX   Bacterial fructose-1,6-bisphosphatase, glpX-enc
      0.082   12.9   0.1       0.11   12.5   0.1    1.2  1  RHH_1         Ribbon-helix-helix protein, copG family
       0.12   12.2   0.0       0.14   12.0   0.0    1.2  1  DUF2610       Domain of unknown function (DUF2610)


Domain annotation for each model (and alignments):
>> RepB-RCR_reg  Replication regulatory protein RepB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.1   1.9e-06    0.0085      37      75 ..       9      47 ..       2      54 .. 0.87

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 1.9e-06
             RepB-RCR_reg 37 lthkeikvfiknelkdslvqlCeeeGitqaqlieklikk 75
                             +  ke+kv+i++   dsl ++ + +G+t a+l+   +k+
  PHY93_07915|PHY93_07915  9 GELKELKVMIEKDVIDSLERMTKGSGMTVADLVVVALKR 47
                             5679***************************99877766 PP

>> FBPase_glpX  Bacterial fructose-1,6-bisphosphatase, glpX-encoded
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.1   6.7e-06      0.03     129     166 ..      14      51 ..       2      58 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 6.7e-06
              FBPase_glpX 129 gvidldapveenlkavakalgkevedltvvvLdrpRhe 166
                               ++ +++ v + l+++ k  g +v dl+vv L r R +
  PHY93_07915|PHY93_07915  14 LKVMIEKDVIDSLERMTKGSGMTVADLVVVALKRYRSA 51 
                              5799******************************9976 PP

>> RHH_1  Ribbon-helix-helix protein, copG family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.1   2.4e-05      0.11       4      37 ..      16      49 ..      13      50 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 2.4e-05
                             EEEEHHHHHHHHHHHHHHTSSHHHHHHHHHHHHH CS
                    RHH_1  4 irldeellerLdelarrrgrSrSelIReAlreyl 37
                             + +++++++ L+++ + +g+++ +l+  Al++y+
  PHY93_07915|PHY93_07915 16 VMIEKDVIDSLERMTKGSGMTVADLVVVALKRYR 49
                             66899*********************99999885 PP

>> DUF2610  Domain of unknown function (DUF2610)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   3.2e-05      0.14      40      78 ..      12      47 ..       2      50 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 3.2e-05
                  DUF2610 40 keRggqvpeevveslskLfklakennvsfeeLivyaLen 78
                             ke    ++++v++sl+++   +k+ ++++++L+v aL+ 
  PHY93_07915|PHY93_07915 12 KELKVMIEKDVIDSLERM---TKGSGMTVADLVVVALKR 47
                             556677999999999876...6799***********985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (61 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       604  (0.0336884); expected 358.6 (0.02)
Passed bias filter:                      444  (0.0247643); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.46u 0.44s 00:00:00.90 Elapsed: 00:00:00.46
# Mc/sec: 402.38
//
Query:       PHY93_07920|PHY93_07920  [L=342]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (342 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1197  (0.0667633); expected 358.6 (0.02)
Passed bias filter:                      510  (0.0284455); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.58u 0.54s 00:00:01.12 Elapsed: 00:00:00.49
# Mc/sec: 2097.99
//
Query:       PHY93_07925|PHY93_07925  [L=318]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.1e-35  121.5   0.8    1.1e-35  121.5   0.8    2.1  2  ETF_alpha  Electron transfer flavoprotein FAD-binding domain
      1e-27   97.2   0.1    1.9e-27   96.3   0.1    1.5  1  ETF        Electron transfer flavoprotein domain


Domain annotation for each model (and alignments):
>> ETF_alpha  Electron transfer flavoprotein FAD-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.1      0.45     4e+03      33      49 ..     164     180 ..     155     184 .. 0.74
   2 !  121.5   0.8   1.2e-39   1.1e-35       2      84 .]     195     277 ..     194     277 .. 0.98

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 0.45
                              T-EEEE-HHHHTTTSS- CS
                ETF_alpha  33 gaavgasRavvdagwip 49 
                                a + s  +vdag++ 
  PHY93_07925|PHY93_07925 164 ASAAATSETAVDAGVMR 180
                              55678888899998875 PP

  == domain 2  score: 121.5 bits;  conditional E-value: 1.2e-39
                              -TTT-S-EEEE-GGGSSGGGHHHHHHHHHHHT-EEEE-HHHHTTTSS-CCCB-SSSS-----S-EEEES----HHHHGGGTT- CS
                ETF_alpha   2 dLeeakvvvsgGrGlkskenlelleelaealgaavgasRavvdagwipeerqvGqtGktvaPklyiavGisGaiqhlaGmkes 84 
                              dL+ea+++vsgGr++k+++n+++l+ela+ +ga+vgasRa+vd+g++p++ qvGqtGktvaP+lyia+GisGaiqhlaGm++s
  PHY93_07925|PHY93_07925 195 DLTEANIIVSGGRAMKDAANFKILDELANVIGATVGASRAAVDSGFAPHAMQVGQTGKTVAPTLYIACGISGAIQHLAGMRTS 277
                              89******************************************************************************987 PP

>> ETF  Electron transfer flavoprotein domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   96.3   0.1   2.2e-31   1.9e-27      12     174 ..      14     169 ..       4     177 .. 0.84

  Alignments for each domain:
  == domain 1  score: 96.3 bits;  conditional E-value: 2.2e-31
                              CE-HHHHHHHHHHHHHHHHHT--EEEEEEES....S-CHHHHHHCT-SEEEEEE-GGGSS--CCHHHHHHHHHHHHC--SEEEEES CS
                      ETF  12 klnpvdlealeaArrlkekaggevtavvvGppeaeealrealaamGadkvilvddpalagydaeatakalaalikkedpdlvlaga 97 
                              +++ v+le l+   rl   +g++v +  +G+  + ea  + la+ Ga+kv+ ++ + l+ y +e +a+al  +i   ++d v+aga
  PHY93_07925|PHY93_07925  14 QVKGVTLEILG---RL---TGHTVEVAAIGKIPS-EA-SADLAKFGASKVHSLNGAGLDKYSPEGYANALHSFISGGSFDYVFAGA 91 
                              55555555554...45...5799********555.44.588999****************************************** PP

                              SCCHHHHHHHHHHHCT-EEEEEESEEEEETCCEEEEEECCCCTEEEEEE-T.SSSEEEEE-TTSS----S-TT---EE CS
                      ETF  98 taigkqvaprlAalLgvplitdvteleveggkltvtRpieggnglaevvea.dlpavltvrpgafepaaimaakkkev 174
                              t+ gk+++pr+A +++++++++vt++  eg+k   tRp+++g+++a+v+ + ++p ++tvrp+a    a   a +++ 
  PHY93_07925|PHY93_07925  92 TSLGKDLLPRVATKFDAGMASEVTNFIMEGDKFAGTRPLFAGKCFAKVEITgPKPHFVTVRPNALGMNANPTASAAAT 169
                              ***************************************************************999933333333332 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (318 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       383  (0.021362); expected 358.6 (0.02)
Passed bias filter:                      298  (0.0166211); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.55u 0.43s 00:00:00.98 Elapsed: 00:00:00.47
# Mc/sec: 2035.26
//
Query:       PHY93_07930|PHY93_07930  [L=260]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.7e-37  128.4   1.5    3.5e-37  128.0   1.5    1.1  1  ETF       Electron transfer flavoprotein domain
  ------ inclusion threshold ------
      0.022   15.3   0.1      0.044   14.3   0.1    1.5  1  Usp       Universal stress protein family


Domain annotation for each model (and alignments):
>> ETF  Electron transfer flavoprotein domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  128.0   1.5   3.9e-41   3.5e-37       4     181 ..      26     209 ..      23     210 .. 0.95

  Alignments for each domain:
  == domain 1  score: 128.0 bits;  conditional E-value: 3.9e-41
                              EE-EC.CCCE-HHHHHHHHHHHHHHHH.HT--EEEEEEES....S-CHHHHHHCT-SEEEEEE-GGGSS--CCHHHHHHHHHHHHC CS
                      ETF   4 laehgvdgklnpvdlealeaArrlkek.aggevtavvvGppeaeealrealaamGadkvilvddpalagydaeatakalaalikke 88 
                              +++++ ++++np+d+ a+e+A+ ++++ +g +vt++ vG+++  ea+r+a+a mGad++ lv+ ++    d++ +akal+ +i+k 
  PHY93_07930|PHY93_07930  26 IETSSIKWIMNPYDEFAVEQALLVQAAnTGSTVTVLRVGSSKDTEAVRTAMA-MGADEAFLVEAADNL--DSYSIAKALKGAIAKS 108
                              6778899*****************999878**********************.*********988765..**************** PP

                              ..--SEEEEESSCC.H..HHHHHHHHHHCT-EEEEEESEEEEETCCEEEEEECCCCTEEEEEE-TSSSEEEEE-TTSS--.....- CS
                      ETF  89 ..dpdlvlagatai.g..kqvaprlAalLgvplitdvteleveggkltvtRpieggnglaevveadlpavltvrpgafep.....a 164
                                 pdl+++g++ai +   qv++ lA ++++p +t v++ e ++ +++v+R++eg  g  ev  ++lpa++ +++g++ p     +
  PHY93_07930|PHY93_07930 109 gkTPDLIFTGKQAIdDdcLQVPQILATMMDIPSVTVVVSYEGSATDIVVKREVEG--GALEVYGVKLPAMIACNKGINTPryaslP 192
                              777***********66**************************9888*********..8889************************* PP

                              -S-TT---EEEE--HHH CS
                      ETF 165 aimaakkkeveevevad 181
                              +im+akkk+++++++ad
  PHY93_07930|PHY93_07930 193 GIMKAKKKPLTVLALAD 209
                              *************9987 PP

>> Usp  Universal stress protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.1   4.9e-06     0.044      14      71 ..      38      98 ..      35     126 .. 0.83

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 4.9e-06
                             HHHHHHHHHHH.HHHHCTSEEEEEEEEESSHCCCCCCCHHHHHHHHHHHHHHHHHHHH..H CS
                      Usp 14 eskkAlewAle.lakargaelillhvidprasgavsdadeeaeeeeleleeaeleada..a 71
                             + + A+e+Al  +a+++g+++++l+v ++++ +av +a+   ++e+   e+a +      a
  PHY93_07930|PHY93_07930 38 YDEFAVEQALLvQAANTGSTVTVLRVGSSKDTEAVRTAMAMGADEAFLVEAADNLDSYsiA 98
                             6678999999999999****************************99999999887655543 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (260 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       447  (0.0249317); expected 358.6 (0.02)
Passed bias filter:                      348  (0.0194099); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.42s 00:00:00.92 Elapsed: 00:00:00.44
# Mc/sec: 1773.81
//
Query:       PHY93_07935|PHY93_07935  [L=377]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    7.5e-52  175.5   0.3    1.2e-51  174.9   0.3    1.3  1  Acyl-CoA_dh_1  Acyl-CoA dehydrogenase, C-terminal domain
    1.8e-25   89.0   0.2      3e-25   88.2   0.2    1.4  1  Acyl-CoA_dh_M  Acyl-CoA dehydrogenase, middle domain
    5.5e-25   88.2   0.0    1.4e-24   86.9   0.0    1.7  2  Acyl-CoA_dh_N  Acyl-CoA dehydrogenase, N-terminal domain
    2.2e-22   79.8   0.1      3e-22   79.3   0.1    1.2  1  Acyl-CoA_dh_2  Acyl-CoA dehydrogenase, C-terminal domain
  ------ inclusion threshold ------
      0.016   14.9   0.1      0.033   13.8   0.1    1.5  1  HpaB_N         4-hydroxyphenylacetate 3-hydroxylase N termina
      0.071   13.0   0.0       0.14   12.1   0.0    1.4  1  Phage_TTP_11   Phage tail tube, TTP, lambda-like


Domain annotation for each model (and alignments):
>> Acyl-CoA_dh_1  Acyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  174.9   0.3   3.9e-55   1.2e-51       1     149 [.     228     376 ..     228     377 .] 0.99

  Alignments for each domain:
  == domain 1  score: 174.9 bits;  conditional E-value: 3.9e-55
                              TBHHHHHTTTT--S-----..-SHHHHHHHHHHHHHHHTSB-CC-BGGGSHHHHHHHHHHHHHHHHHHHHHHHHHH--------HH CS
            Acyl-CoA_dh_1   1 gkGfrvametlnheRlavaaaalglarraleealeyarrrkafgkplidhqlvreklaemaaeleaarllvyraaealdagkpdra 86 
                              +kG+ +am+tl+h+R++vaa a+g  ++a+++a++ya++r +f+ p+  hq++++++a+ma ++ea+rllv +aa++ld+++p+++
  PHY93_07935|PHY93_07935 228 NKGWGIAMKTLDHSRPMVAASAVGGSQCAFDHAVKYAKERVQFNIPISGHQAIQFMIADMAMKIEASRLLVHKAAWLLDNHQPNTQ 313
                              89************************************************************************************ PP

                              HHHHHHHHHHHHHHHHHHHHHHHHGGGTTSGGGHHHHHHHHTHHHHHSSS-HHHHHHHHHHHH CS
            Acyl-CoA_dh_1  87 easmaKlfaselaqevadlamqllGgaGyleeypverlyrdarvlrigeGtseiqrniiarrl 149
                               as aK+fa++ +++++++a+q++Gg+Gy++eypve+++rda++ +++eGts+iqr++ia+ +
  PHY93_07935|PHY93_07935 314 LASYAKAFAADSCMQITTDAVQIYGGYGYSKEYPVEKIMRDAKLIQLYEGTSQIQRLVIAKEI 376
                              ************************************************************987 PP

>> Acyl-CoA_dh_M  Acyl-CoA dehydrogenase, middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.2   0.2     1e-28     3e-25       1      97 []     121     216 ..     121     216 .. 0.96

  Alignments for each domain:
  == domain 1  score: 88.2 bits;  conditional E-value: 1e-28
                              EEE---SS-SS-GGG---EEEEETT.EEEEEEEEEEEETTTT-SEEEEEEETS-------EEEEEEE..GGGEEE-----BSS-TT CS
            Acyl-CoA_dh_M   1 afalTEpqaGsdvasvkttaaerdggeyvlnGeKiwitnaaiatlalvlartekpdrarglslflvprdapgvsvrrieeklGlrg 86 
                              af+lTEp  Gsd+a++kt  +++dg+++v+nG+K+witna++a+l+++++ t+++ +++g++ +++++++pg++++++e+k+G r 
  PHY93_07935|PHY93_07935 121 AFCLTEPANGSDAAGIKT-SIKEDGDDVVINGNKMWITNAGYADLFVLYGTTDHTLKHKGITAVVIEKGTPGIELGKKEDKMGHRC 205
                              79****************.9*******************************555558***************************** PP

                              S-EEEEEEE.. CS
            Acyl-CoA_dh_M  87 lptgelvfedv 97 
                               +t  ++f++v
  PHY93_07935|PHY93_07935 206 SDTRAVTFNNV 216
                              *********97 PP

>> Acyl-CoA_dh_N  Acyl-CoA dehydrogenase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.9   0.0   4.7e-28   1.4e-24       1     110 [.       6     114 ..       6     116 .. 0.95
   2 ?   -3.1   0.0         4   1.2e+04       7      46 ..     314     327 ..     282     346 .. 0.58

  Alignments for each domain:
  == domain 1  score: 86.9 bits;  conditional E-value: 4.7e-28
                              THHHHHHHHHHHHHHHHHTHHHHHHHHHHTSGHHHHHHHHHHTTCTSTTS-GGGTS--S-HHHHHHHHHHHHHH-HHHHHHHHHHH CS
            Acyl-CoA_dh_N   1 teeqealrdtvrefaeeelaphaaewdeegefprelwkklaelGllgitvpeeygGagldyleaaivaeelaradaglalllgvhs 86 
                              t+eq +++d + +fa++e+ p+a+e de++e pr++++k+  lGl++ ++p eygG g+++++++i++e la++++g+ +++++++
  PHY93_07935|PHY93_07935   6 TPEQIEIKDLAMKFARNEMMPKAREFDEKAELPRDILEKAWSLGLVNTCIPVEYGGNGFSAIDSMIITEALAYGCMGMNTAIMAND 91 
                              79******************************************************************************888865 PP

                              HTTHHHHHHHS-HHHHHHHHHHHH CS
            Acyl-CoA_dh_N  87 slvapailrfGteeqkrryLpkla 110
                               l   +i+  Gt+eqk+r+L ++ 
  PHY93_07935|PHY93_07935  92 -LTLLPIVIGGTDEQKKRFLTPFT 114
                              .55569**************9975 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 4
                              HHHHHHHHHHHHTHHHHHHHHHHTSGHHHHHHHHHHTTCT CS
            Acyl-CoA_dh_N   7 lrdtvrefaeeelaphaaewdeegefprelwkklaelGll 46 
                              l   +++fa++++                          +
  PHY93_07935|PHY93_07935 314 LASYAKAFAADSC--------------------------M 327
                              3333334444333..........................3 PP

>> Acyl-CoA_dh_2  Acyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.3   0.1     1e-25     3e-22       2     133 ..     244     365 ..     243     366 .. 0.97

  Alignments for each domain:
  == domain 1  score: 79.3 bits;  conditional E-value: 1e-25
                              HHHHHHHHHHHHHHHHHHHHHHHHHCTTT-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT----HHHHHHHHHHH CS
            Acyl-CoA_dh_2   2 giaavalGaAraalaefvelarervrassgekladdpatqlalaeaaarldAAralleraaaraealaaagkevtvedraearraa 87 
                              ++aa a+G  + a++++v++a+erv+  ++ +++ ++a+q+ +a++a++++A r+l+++aa+      ++++++    ++ a+ a+
  PHY93_07935|PHY93_07935 244 MVAASAVGGSQCAFDHAVKYAKERVQ--FNIPISGHQAIQFMIADMAMKIEASRLLVHKAAWL----LDNHQPN----TQLASYAK 319
                              689***********************..***********************************....9999998....999***** PP

                              HHHHHHHHHHHHHHHHHCGGGGGBTT-HHHHHHHHHHHHCTSGGG- CS
            Acyl-CoA_dh_2  88 alavelaiaavdalfeaaGgsalrkesplqRlwRDahaaaaHaaln 133
                              a+a++ + +++ +++++ Gg+++ ke+p++ ++RDa+ ++ +++++
  PHY93_07935|PHY93_07935 320 AFAADSCMQITTDAVQIYGGYGYSKEYPVEKIMRDAKLIQLYEGTS 365
                              ******************************************9986 PP

>> HpaB_N  4-hydroxyphenylacetate 3-hydroxylase N terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.1   1.1e-05     0.033     173     235 ..     141     201 ..     126     224 .. 0.73

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 1.1e-05
                              EE-SSEEEEEEEEEEEE-.--SSEEEE---SS-..TTSGGG-EEEEEETT-TTEEEEE----- CS
                   HpaB_N 173 eetddGivVrGakvlaTgaaladeilvlptramlkeedkdyavafavpvdapGlklicresfe 235
                              +e+ d +v++G k+ +T+a +ad ++++ t       + +   a++++  +pG++l  +e   
  PHY93_07935|PHY93_07935 141 KEDGDDVVINGNKMWITNAGYADLFVLYGTTDH--TLKHKGITAVVIEKGTPGIELGKKEDKM 201
                              566677*****************9999999544..45788889999*******9986655533 PP

>> Phage_TTP_11  Phage tail tube, TTP, lambda-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   4.5e-05      0.14      77     113 ..     131     167 ..     118     189 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 4.5e-05
             Phage_TTP_11  77 sdavdvkptvstkgddfvlptartwitfegyvsdfpf 113
                              sda ++k ++  +gdd v+   + wit  gy   f +
  PHY93_07935|PHY93_07935 131 SDAAGIKTSIKEDGDDVVINGNKMWITNAGYADLFVL 167
                              9******************************877754 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (377 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       377  (0.0210274); expected 358.6 (0.02)
Passed bias filter:                      340  (0.0189637); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.56u 0.48s 00:00:01.04 Elapsed: 00:00:00.49
# Mc/sec: 2304.19
//
Query:       PHY93_07940|PHY93_07940  [L=155]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.1e-29  101.3   0.0      5e-29  101.1   0.0    1.1  1  HPPK      7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase


Domain annotation for each model (and alignments):
>> HPPK  7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  101.1   0.0   2.8e-33     5e-29       1     110 [.       8     133 ..       8     135 .. 0.93

  Alignments for each domain:
  == domain 1  score: 101.1 bits;  conditional E-value: 2.8e-33
                              EEEEEE-SSSHHHHHHHHHHHHHH..EEEEE---EEE--S...SS-GEEEEEEEEEESS-.HHHHHHHHHHHHHHTT--C..STS- CS
                     HPPK   1 ylalGsNlgdreanleealealee..kvvkvSslyetepv...dqpdFlNavvevetels.peellealkeiEkelgrer..rwgp 78 
                              ++a GsNlgdr++nl ea   l++  ++++ S++ye+++v   +qpdF+N+v+e++  l+ pe++++ l ++Eke+gr+r   +gp
  PHY93_07940|PHY93_07940   8 FIATGSNLGDRAQNLFEAKVLLQQhfELIAESRIYESPAVdylNQPDFYNQVLEFTLPLEnPETIMSLLLHLEKEMGRNRliPKGP 93 
                              699*******************8877789***********7777***********9976549*****************87669** PP

                              BS-EEEEEEET........EEES-TTGGG-HHHHHHHHHH CS
                     HPPK  79 RtlDlDillyg........ltlPhprlaeraFvlvplael 110
                              R +DlDil++g        l++Phprl  r+Fv+ pl el
  PHY93_07940|PHY93_07940  94 RLIDLDILFWGllkiqsetLQIPHPRLFARSFVVLPLSEL 133
                              *************************************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (155 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       251  (0.0139997); expected 358.6 (0.02)
Passed bias filter:                      227  (0.0126611); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.36s 00:00:00.84 Elapsed: 00:00:00.46
# Mc/sec: 1018.17
//
Query:       PHY93_07945|PHY93_07945  [L=343]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
      0.001   19.2   2.2     0.0019   18.3   2.2    1.5  1  OMP_b-brl  Outer membrane protein beta-barrel domain


Domain annotation for each model (and alignments):
>> OMP_b-brl  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   2.2   1.1e-07    0.0019      34     110 ..     202     276 ..     185     337 .. 0.74

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 1.1e-07
                OMP_b-brl  34 kvdgvgsdsgfgfgvgagyefndnvgvegglsysgdkdysgsgktdikinllsvpvnagyafnlsds..vlpyggaGlg 110
                              +vdg++ ++ +++++ + y+++dn+  e+g++ +  +dy     t  + +l ++ v+a+y+f+ + +  ++py+g++  
  PHY93_07945|PHY93_07945 202 DVDGSK-KNYTQINGAWAYQLTDNIWAEAGVGTNTVRDYPF---TGLDTRLINIEVKAKYTFGAPFYsyIQPYVGYQTI 276
                              223443.467*************999*******99999998...699***************96444779999998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (343 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       699  (0.0389871); expected 358.6 (0.02)
Passed bias filter:                      377  (0.0210274); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.58u 0.44s 00:00:01.02 Elapsed: 00:00:00.47
# Mc/sec: 2209.77
//
Query:       PHY93_07950|PHY93_07950  [L=236]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.5e-06   25.7   0.1      0.038   14.1   0.1    2.8  2  LysM      LysM domain


Domain annotation for each model (and alignments):
>> LysM  LysM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.8   0.0   9.3e-05       1.7       1      36 [.     119     157 ..     119     163 .. 0.79
   2 !   14.1   0.1   2.1e-06     0.038       1      41 [.     180     225 ..     180     226 .. 0.89

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 9.3e-05
                              EEE-TT--HHHHHHHC...TCHHHHHHHHC..TCSSCGG-- CS
                     LysM   1 YtVkkGDTLwsIAkry...gitveklleaN..nlsspdkif 36 
                              Y+ +kGDTL  +A +       +++l+e+N  ++++    +
  PHY93_07950|PHY93_07950 119 YHFQKGDTLMMVAFKIygdYRKWKDLREWNkdKIKTKM--E 157
                              7889***********999744578******88887754..5 PP

  == domain 2  score: 14.1 bits;  conditional E-value: 2.1e-06
                              EEE-TT--HHHHH.HHCTCH..HHHHHHHC..TCSSCGG--TTEEE CS
                     LysM   1 YtVkkGDTLwsIA.krygit..veklleaN..nlsspdkifpGqkL 41 
                              Y Vk+GDTL  ++ ++yg+t  ++ + e N   +++p++if+G ++
  PHY93_07950|PHY93_07950 180 YMVKTGDTLQIVSmDKYGTTkkWKNIYENNrpLIRDPNLIFAGFTI 225
                              99***********55788876699******************9776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (236 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       452  (0.0252106); expected 358.6 (0.02)
Passed bias filter:                      388  (0.0216409); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.35s 00:00:00.92 Elapsed: 00:00:00.46
# Mc/sec: 1535.28
//
Query:       PHY93_21275|PHY93_21275  [L=66]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (66 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       205  (0.011434); expected 358.6 (0.02)
Passed bias filter:                      159  (0.00886831); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.33s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 451.98
//
Query:       PHY93_07955|PHY93_07955  [L=253]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (253 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       692  (0.0385967); expected 358.6 (0.02)
Passed bias filter:                      411  (0.0229238); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.43s 00:00:00.96 Elapsed: 00:00:00.48
# Mc/sec: 1586.60
//
Query:       PHY93_07960|PHY93_07960  [L=342]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    3.5e-24   86.0   0.0    4.8e-24   85.6   0.0    1.2  1  APH          Phosphotransferase enzyme family
    4.5e-08   32.7   5.9      9e-08   31.8   5.9    1.5  1  EcKinase     Ecdysteroid kinase
    9.1e-06   24.8  10.8     0.0001   21.3   9.7    2.3  2  DUF1679      Protein of unknown function (DUF1679)
  ------ inclusion threshold ------
      0.022   14.1   0.0      0.036   13.3   0.0    1.3  1  Pkinase_Tyr  Protein tyrosine kinase
      0.092   12.7   0.2       0.23   11.5   0.2    1.6  1  Gin          Inhibitor of sigma-G Gin


Domain annotation for each model (and alignments):
>> APH  Phosphotransferase enzyme family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.6   0.0   1.3e-27   4.8e-24       2     218 ..      32     251 ..      31     272 .. 0.77

  Alignments for each domain:
  == domain 1  score: 85.6 bits;  conditional E-value: 1.3e-27
                              EEEE--.SSCEEEEEEETT.--EEEEEE-TTS-HHHHHHHHHHHHHHHHTT-B--B-CTTBS-EEETTE.......EEEEEE---- CS
                      APH   2 vrelsggasnrtylvttpa.gryvlrrnpparaaeeirrevallrlLakagvpvPevlagdtddeeigl.......lfalieyvpg 79 
                              ++ l g+as r+y++ +++ ++yv  + +p   + + + ++++ r+L+  +v+vP +l+    +++  +        + ++    +
  PHY93_07960|PHY93_07960  32 IEKLTGDASTRKYYRIWTStTSYVACLDNPTTDPSDEPTFLKIQRVLHSENVRVPLILDK-DLGTG--YileedlgDVTFLKD--I 112
                              78899***********99988**********88889999********************2.22222..223566555555555..4 PP

                              EE-SSHHHHHHHHHHHHHHHHHHCCHHCH.-STTTB-SHHCHTCCHHHHHHCHHHCCCGCCTCC...HHHHHHHHHHHHHHHH--S CS
                      APH  80 rsllrklsaaqlpellealgeflaalhqvdpaalpladflaqdlellrqlesatarllaselld...lleeleeqvlaalaallpg 162
                              +++++    ++ ++++ +++++ a +h+v +a+ + ++f++   + + ++++      +  +l+    l   ++  ++al ++l  
  PHY93_07960|PHY93_07960 113 AQIST---KDEEYQFYKKAIDLMATIHNVNTAKYKEESFTKLAFDTEKLFAEM--EFTKKYFLKmylGLDVTTS-GIDALYKRLYD 192
                              44444...67**********************999999998766655555555..2222222224422444444.78888777777 PP

                              ......SS-EEEE-SS-SGGGEEEC..TTEEEEE---TT-EEEECCHHHHCCHHHCSCHCCC CS
                      APH 163 ......elptvllHgDlhpgNllvdpddgrvtGviDfedaglgpplyDlavllrswtseldp 218
                                    ++p++l+H+D+h++Nl+++ d+ +v  viDf+da++g plyDl +ll +++  ld+
  PHY93_07960|PHY93_07960 193 mcymlsSEPRTLVHRDYHSRNLMIK-DGEQV--VIDFQDARMGTPLYDLTSLLEDCYYQLDD 251
                              899999*******************.88999..********************775555554 PP

>> EcKinase  Ecdysteroid kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.8   5.9   2.5e-11     9e-08     161     284 ..     142     264 ..     112     272 .. 0.68

  Alignments for each domain:
  == domain 1  score: 31.8 bits;  conditional E-value: 2.5e-11
                 EcKinase 161 eafeelleellkaalealreelpelekea.......ekleklkenlferllelveekeeefnvlnHGDlwvnNimfkydeegeped 239
                              +  ee +++l     +++ +e++ ++k+        +     ++ l++rl +++   ++e ++l+H D++++N+m+k  e+     
  PHY93_07960|PHY93_07960 142 KYKEESFTKLAFDTEKLF-AEMEFTKKYFlkmylglDVTTSGIDALYKRLYDMCYMLSSEPRTLVHRDYHSRNLMIKDGEQ----- 221
                              444455555555556666.566666566655565655666667788888888888999******************98866..... PP

                 EcKinase 240 vilvDFQlsrygSpalDLlyflytsteeelrkekfdellriYhes 284
                               + +DFQ +r+g+p  DL  +l  +   +l +++ ++l+++Y++ 
  PHY93_07960|PHY93_07960 222 -VVIDFQDARMGTPLYDLTSLLEDCYY-QLDDANKKKLIKYYFDT 264
                              .89****************99977654.45566667777777654 PP

>> DUF1679  Protein of unknown function (DUF1679)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.9   0.0       1.3   4.6e+03     200     225 ..      11      36 ..       3      57 .. 0.60
   2 !   21.3   9.7   2.9e-08    0.0001     254     361 ..     187     284 ..     109     324 .. 0.73

  Alignments for each domain:
  == domain 1  score: -3.9 bits;  conditional E-value: 1.3
                  DUF1679 200 sgadfleevleellseeelkkifeql 225
                               ++ f +++ ++ll+++ +++i + +
  PHY93_07960|PHY93_07960  11 VEELFKKTISKNLLDDDVIENIEKLT 36 
                              45555555566666666666665544 PP

  == domain 2  score: 21.3 bits;  conditional E-value: 2.9e-08
                  DUF1679 254 lekaskvskvlGi.kkvlvhgDlwsaNiLfseeeegklklkkviDyQlvslgnpaeDlvrlllscLsgedRrarkeelLeqyyetf 338
                               +++ +++ +l      lvh+D  s N++ +  e+       viD+Q + +g+p  Dl+ ll  c  + d  a+k++l++ y++t+
  PHY93_07960|PHY93_07960 187 YKRLYDMCYMLSSePRTLVHRDYHSRNLMIKDGEQ------VVIDFQDARMGTPLYDLTSLLEDCYYQLD-DANKKKLIKYYFDTY 265
                              45566677777775678*************99666......8************************9999.588999********* PP

                  DUF1679 339 lkaledngeepytleqLkdsYkl 361
                               k+++ +     ++eq    Y++
  PHY93_07960|PHY93_07960 266 FKNFDPS----KSFEQFMYVYDM 284
                              ***9433....355666666555 PP

>> Pkinase_Tyr  Protein tyrosine kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0     1e-05     0.036      33     144 ..     109     224 ..     100     234 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1e-05
                              EEEESTTSSHHHHHHHHH.HHHHHHTS-BTTB--EEEEEE.....SSSSEEEEEE--TTEBHHHHHHHTCTTTSBHHHHHHHHHHH CS
              Pkinase_Tyr  33 vKtlkeeateeekeelle.eakimkklkhpnivkllgvct.....keepllivteyvkgGdLlkfLrkkekekltlkdllsfalqv 112
                              +K + + +t++e+ ++++  +++m ++++ n  k+          ++e+l+  +e+ k+  L+ +L  +  ++  ++ l++  +++
  PHY93_07960|PHY93_07960 109 LKDIAQISTKDEEYQFYKkAIDLMATIHNVNTAKYKEESFtklafDTEKLFAEMEFTKKYFLKMYLGLD-VTTSGIDALYKRLYDM 193
                              566667677777777776467888888888888876544434555888899999999999999999998.8888889999999998 PP

                              HHHHHHHHHTTEEEST-SGGGEEEEETTEEEE CS
              Pkinase_Tyr 113 AkGmeyLeskklvHrdlaarNvLlsenkvvki 144
                              +  ++  e ++lvHrd  +rN +++++++v i
  PHY93_07960|PHY93_07960 194 CYMLS-SEPRTLVHRDYHSRNLMIKDGEQVVI 224
                              87554.58899**************9999866 PP

>> Gin  Inhibitor of sigma-G Gin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.2   6.3e-05      0.23      25      44 ..     110     129 ..     109     129 .. 0.92

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 6.3e-05
                              HHHHHHS---S---XXXXXX CS
                      Gin  25 kkivntevddpkYefykekl 44 
                              k+i +++++d++Y+fyk+ +
  PHY93_07960|PHY93_07960 110 KDIAQISTKDEEYQFYKKAI 129
                              789**************976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (342 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       639  (0.0356406); expected 358.6 (0.02)
Passed bias filter:                      321  (0.017904); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.59u 0.42s 00:00:01.01 Elapsed: 00:00:00.48
# Mc/sec: 2152.76
//
Query:       PHY93_07965|PHY93_07965  [L=286]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.1e-08   34.7   0.0    2.8e-08   34.3   0.0    1.2  1  NTP_transf_3     MobA-like NTP transferase domain
    1.1e-06   28.4   0.0    2.1e-06   27.5   0.0    1.5  1  NTP_transferase  Nucleotidyl transferase


Domain annotation for each model (and alignments):
>> NTP_transf_3  MobA-like NTP transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.3   0.0   3.2e-12   2.8e-08       1      98 [.       6     115 ..       6     143 .. 0.82

  Alignments for each domain:
  == domain 1  score: 34.3 bits;  conditional E-value: 3.2e-12
                              EEEEEESS-TTTTT.....THHHHCCCCCCHHHHHHHHHCTT.-CEEEEECSH..CHHHHHHTTCT....S-EEE-TTSS-SHHHH CS
             NTP_transf_3   1 aviLAGGrSsRmgg.....dKallplggkpllervldalraagvdevvvvggd..eevlaalarlg....vrvvededpgkgplas 75 
                              a+iL +G ++Rmg+     +K l p+  k++le +++  +++g++++++++    +e+ + la+ +    v+v++ ed+    +++
  PHY93_07965|PHY93_07965   6 ALILSAGLGTRMGEvgkliPKVLWPIYFKTMLELQIRYCEDLGIKKIYINTHFlhDEIVKFLAEANlsssVTVLH-EDSLLDSGGA 90 
                              79***********666899********************************988789999888775222255555.5678999999 PP

                              HHHHHHH..H.SSSCEEEEETT-TT CS
             NTP_transf_3  76 laaalra..aadadavlvlacDmPl 98 
                              ++  +++  ++ + ++l++ +D+ l
  PHY93_07965|PHY93_07965  91 IHNLAARpeINYTGRLLLVNGDQFL 115
                              999999844559**********865 PP

>> NTP_transferase  Nucleotidyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.5   0.0   2.4e-10   2.1e-06       2     114 ..       6     114 ..       5     156 .. 0.83

  Alignments for each domain:
  == domain 1  score: 27.5 bits;  conditional E-value: 2.4e-10
                              EEEE--S--GGGTTCCTTSSGGGSEETTETETTHHHHHHHHHTT-SEEEEEEETTTHHHHHHHHTTSGGGTSEEEEEEESS--BGG CS
          NTP_transferase   2 avILaGGsGtRLwPLtrtlakklvpvlgkerliqatlsrlansgieeiivvltqehsflveeqlkegskfgvevlialepegkgtA 87 
                              a+IL+ G GtR+  + + ++k l p++ k ++++ ++  + + gi++ i++ t++   ++ + l+e++ ++ +v++++e++  ++ 
  PHY93_07965|PHY93_07965   6 ALILSAGLGTRMGEVGKLIPKVLWPIYFK-TMLELQIRYCEDLGIKK-IYINTHFLHDEIVKFLAEAN-LSSSVTVLHEDSLLDSG 88 
                              89***************************.*****************.**************999997.6669************* PP

                              HHHHHTHHHHTTSSE..EEEEETTEEE CS
          NTP_transferase  88 dAvalaaelledeksdelvlvLggDhl 114
                              +A+   a   e ++    +l ++gD++
  PHY93_07965|PHY93_07965  89 GAIHNLAARPEINYT-GRLLLVNGDQF 114
                              **9988877777774.45555566654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (286 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       421  (0.0234815); expected 358.6 (0.02)
Passed bias filter:                      353  (0.0196888); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.37s 00:00:00.90 Elapsed: 00:00:00.44
# Mc/sec: 1950.92
//
Query:       PHY93_07970|PHY93_07970  [L=89]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.3e-10   38.4  16.7    4.7e-05   23.0   2.3    2.2  2  Fer4      4Fe-4S binding domain
    6.4e-09   35.8  23.0    2.9e-07   30.6  13.2    1.4  2  Fer4_9    4Fe-4S dicluster domain
    5.5e-08   32.8  15.2    9.2e-08   32.1  15.2    1.4  1  Fer4_21   4Fe-4S dicluster domain
    6.9e-08   32.5   9.8    1.1e-07   31.8   9.8    1.4  1  Fer4_10   4Fe-4S dicluster domain
      7e-08   33.0  37.9    1.7e-05   25.3  14.5    1.9  3  Fer4_7    4Fe-4S dicluster domain
    1.9e-07   31.9  12.5      0.001   19.9   1.0    2.2  2  Fer4_16   4Fe-4S double cluster binding domain
    5.1e-07   30.1   8.4     0.0034   17.8   3.8    2.1  2  Fer4_8    4Fe-4S dicluster domain
    1.9e-06   28.3   6.7     0.0023   18.4   0.1    2.1  2  Fer4_17   4Fe-4S dicluster domain
    3.5e-06   26.9  19.3    0.00019   21.3   3.5    2.2  2  Fer4_6    4Fe-4S binding domain
    4.1e-06   26.6  11.2     0.0017   18.3   1.9    2.3  2  Fer4_2    4Fe-4S binding domain
    0.00039   21.2  20.2      0.043   14.8   8.9    2.2  2  Fer4_3    4Fe-4S binding domain
    0.00098   19.4   9.2      0.081   13.5   0.8    2.3  2  Fer4_4    4Fe-4S binding domain
  ------ inclusion threshold ------
      0.011   15.9  12.3       0.14   12.4   2.0    2.1  2  Fer4_18   4Fe-4S dicluster domain
       0.11   13.0  15.4       0.88   10.2  15.4    2.3  1  Fer4_13   4Fe-4S single cluster domain of Ferredoxin I
        3.1    8.7  14.2        1.5    9.7   2.2    2.1  2  Fer4_22   4Fe-4S dicluster domain
        4.1    8.2  16.2          8    7.3   1.8    3.0  3  Fer4_15   4Fe-4S single cluster domain


Domain annotation for each model (and alignments):
>> Fer4  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.0   2.3   4.2e-08   4.7e-05       6      23 ..      33      50 ..      30      51 .. 0.93
   2 !   21.1   6.8   1.7e-07   0.00019       8      24 .]      64      80 ..      63      80 .. 0.95

  Alignments for each domain:
  == domain 1  score: 23.0 bits;  conditional E-value: 4.2e-08
                             TTSSS-THHHHHSTTTEE CS
                     Fer4  6 ekCigCGaCvevCPvgAI 23
                              +Ci C +C  vCP +AI
  PHY93_07970|PHY93_07970 33 TLCISCDNCKLVCPENAI 50
                             68***************9 PP

  == domain 2  score: 21.1 bits;  conditional E-value: 1.7e-07
                             SSS-THHHHHSTTTEEE CS
                     Fer4  8 CigCGaCvevCPvgAIt 24
                             C+ C+aC evCPv++I+
  PHY93_07970|PHY93_07970 64 CTLCNACLEVCPVDCIK 80
                             ***************96 PP

>> Fer4_9  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   2.1   5.9e-06    0.0067      34      51 .]      33      50 ..      14      50 .. 0.71
   2 !   30.6  13.2   2.6e-10   2.9e-07       2      51 .]      35      79 ..      34      79 .. 0.95

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 5.9e-06
                   Fer4_9 34 eaCigCgaCveaCpkgai 51
                             + Ci+C  C  +Cp++ai
  PHY93_07970|PHY93_07970 33 TLCISCDNCKLVCPENAI 50
                             579999999999999887 PP

  == domain 2  score: 30.6 bits;  conditional E-value: 2.6e-10
                   Fer4_9  2 CtgCgaCveaCpagvvvedaaerkarlraaseeaCigCgaCveaCpkgai 51
                             C++C++C  +Cp +++ +   e++++      ++C+ C+aC+e+Cp ++i
  PHY93_07970|PHY93_07970 35 CISCDNCKLVCPENAILKNGMEYIVET-----WSCTLCNACLEVCPVDCI 79
                             *****************9999999998.....89************9987 PP

>> Fer4_21  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.1  15.2   8.2e-11   9.2e-08       6      58 ..      33      80 ..      29      81 .. 0.88

  Alignments for each domain:
  == domain 1  score: 32.1 bits;  conditional E-value: 8.2e-11
                  Fer4_21  6 dkCigCgkCliaCedtshqaieidaktvlkvvedeCvGCnlCssvCPvedcie 58
                               Ci+C +C ++C++   +ai +++ ++  v + +C+ Cn C++vCPv dci+
  PHY93_07970|PHY93_07970 33 TLCISCDNCKLVCPE---NAILKNGMEY-IVETWSCTLCNACLEVCPV-DCIK 80
                             57************7...8999887777.577889************9.***8 PP

>> Fer4_10  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.8   9.8   9.9e-11   1.1e-07       7      56 .]      33      75 ..      28      81 .. 0.87

  Alignments for each domain:
  == domain 1  score: 31.8 bits;  conditional E-value: 9.9e-11
                  Fer4_10  7 dtCirCgkCvkaCPadltsvgakgeaseeeavrk.kvekCtgcgaCveaCP 56
                               Ci C +C+ +CP         +++ +++++ +   ++Ct c aC e+CP
  PHY93_07970|PHY93_07970 33 TLCISCDNCKLVCPE--------NAILKNGMEYIvETWSCTLCNACLEVCP 75
                             57*************........66666666666688*************9 PP

>> Fer4_7  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   2.4   1.8e-05      0.02      36      52 .]      33      49 ..      13      49 .. 0.76
   2 !   25.3  14.5   1.5e-08   1.7e-05       2      51 ..      35      77 ..      34      78 .. 0.91
   3 !   15.2   5.4   2.2e-05     0.025       2      19 ..      64      81 ..      63      88 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.8e-05
                   Fer4_7 36 ekClgCgaCvavCPtga 52
                             + C++C++C  vCP +a
  PHY93_07970|PHY93_07970 33 TLCISCDNCKLVCPENA 49
                             56999999999999876 PP

  == domain 2  score: 25.3 bits;  conditional E-value: 1.5e-08
                   Fer4_7  2 CigCgaCvaaCpvkaieldeeenekgtekveidpekClgCgaCvavCPtg 51
                             Ci C +C  +Cp +ai  +         ++ ++ ++C+ C+aC +vCP++
  PHY93_07970|PHY93_07970 35 CISCDNCKLVCPENAILKNGM-------EYIVETWSCTLCNACLEVCPVD 77
                             *****************9775.......577889**************97 PP

  == domain 3  score: 15.2 bits;  conditional E-value: 2.2e-05
                   Fer4_7  2 CigCgaCvaaCpvkaiel 19
                             C+ C+aC ++Cpv++i+l
  PHY93_07970|PHY93_07970 64 CTLCNACLEVCPVDCIKL 81
                             999999999999999886 PP

>> Fer4_16  4Fe-4S double cluster binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.9   1.0   9.3e-07     0.001       2      20 ..      35      53 ..      34      61 .. 0.87
   2 !   17.1   4.6   7.2e-06    0.0081       2      20 ..      64      82 ..      63      89 .] 0.85

  Alignments for each domain:
  == domain 1  score: 19.9 bits;  conditional E-value: 9.3e-07
                  Fer4_16  2 CgtCgkCaevCPtnaikek 20
                             C++C +C  vCP+nai ++
  PHY93_07970|PHY93_07970 35 CISCDNCKLVCPENAILKN 53
                             ****************987 PP

  == domain 2  score: 17.1 bits;  conditional E-value: 7.2e-06
                  Fer4_16  2 CgtCgkCaevCPtnaikek 20
                             C+ C++C+evCP+++ik  
  PHY93_07970|PHY93_07970 64 CTLCNACLEVCPVDCIKLI 82
                             ***************9865 PP

>> Fer4_8  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.1   2.1e-05     0.023      46      64 ..      30      48 ..       7      49 .. 0.81
   2 !   17.8   3.8     3e-06    0.0034      48      64 ..      61      77 ..      51      78 .. 0.88

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 2.1e-05
                   Fer4_8 46 ealwsCttcgaCtevCpvg 64
                             e+   C +c +C+ vCp++
  PHY93_07970|PHY93_07970 30 EINTLCISCDNCKLVCPEN 48
                             56678************87 PP

  == domain 2  score: 17.8 bits;  conditional E-value: 3e-06
                   Fer4_8 48 lwsCttcgaCtevCpvg 64
                              wsCt c+aC evCpv+
  PHY93_07970|PHY93_07970 61 TWSCTLCNACLEVCPVD 77
                             6**************96 PP

>> Fer4_17  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.1   2.1e-06    0.0023      26      59 ..      14      48 ..       3      49 .. 0.73
   2 !   12.0   2.7   0.00021      0.23      45      58 ..      63      76 ..      51      79 .. 0.83

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 2.1e-06
                  Fer4_17 26 lraaklglleeaeke.ekaslCieCgeCerkCPqg 59
                             lr+  l+ +ee++   e   lCi+C +C+ +CP++
  PHY93_07970|PHY93_07970 14 LRRSDLANIEEMIPYlEINTLCISCDNCKLVCPEN 48
                             455455556666555567789************97 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 0.00021
                  Fer4_17 45 lCieCgeCerkCPq 58
                             +C+ C+ C ++CP 
  PHY93_07970|PHY93_07970 63 SCTLCNACLEVCPV 76
                             79999999999996 PP

>> Fer4_6  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   3.5   1.7e-07   0.00019       8      24 .]      34      50 ..      31      50 .. 0.93
   2 !   11.4   7.9   0.00023      0.26       8      24 .]      63      79 ..      63      79 .. 0.90

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 1.7e-07
                   Fer4_6  8 kCigCgdCvrvCPegai 24
                             +Ci+C++C  vCPe+ai
  PHY93_07970|PHY93_07970 34 LCISCDNCKLVCPENAI 50
                             8***************8 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 0.00023
                   Fer4_6  8 kCigCgdCvrvCPegai 24
                             +C+ C++C  vCP + i
  PHY93_07970|PHY93_07970 63 SCTLCNACLEVCPVDCI 79
                             6************9765 PP

>> Fer4_2  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.5   2.1   5.3e-05     0.059       3      22 .]      29      47 ..      27      47 .. 0.84
   2 !   18.3   1.9   1.5e-06    0.0017       4      21 ..      58      75 ..      55      76 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 5.3e-05
                   Fer4_2  3 vvvdtdrCigCgaCvsaCPa 22
                              +++t  Ci+C  C  +CP+
  PHY93_07970|PHY93_07970 29 LEINTL-CISCDNCKLVCPE 47
                             567777.************5 PP

  == domain 2  score: 18.3 bits;  conditional E-value: 1.5e-06
                   Fer4_2  4 vvdtdrCigCgaCvsaCP 21
                              v+t +C+ C+aC+ +CP
  PHY93_07970|PHY93_07970 58 IVETWSCTLCNACLEVCP 75
                             578889************ PP

>> Fer4_3  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.4   3.4   0.00022      0.25       1      15 []      35      49 ..      35      49 .. 0.97
   2 !   14.8   8.9   3.9e-05     0.043       1      14 [.      64      77 ..      64      78 .. 0.95

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.00022
                   Fer4_3  1 CtgCgaCvevCPvgA 15
                             C+ C  C  vCP++A
  PHY93_07970|PHY93_07970 35 CISCDNCKLVCPENA 49
                             *************98 PP

  == domain 2  score: 14.8 bits;  conditional E-value: 3.9e-05
                   Fer4_3  1 CtgCgaCvevCPvg 14
                             Ct C+aC+evCPv+
  PHY93_07970|PHY93_07970 64 CTLCNACLEVCPVD 77
                             ************97 PP

>> Fer4_4  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.5   0.8   7.3e-05     0.081       4      16 ..      35      47 ..      32      56 .. 0.91
   2 !   10.3   2.0   0.00077      0.86       3      16 ..      63      76 ..      60      77 .. 0.91

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 7.3e-05
                   Fer4_4  4 CigCgsCvaaCPq 16
                             Ci C+ C  +CP 
  PHY93_07970|PHY93_07970 35 CISCDNCKLVCPE 47
                             ************5 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 0.00077
                   Fer4_4  3 rCigCgsCvaaCPq 16
                             +C+ C +C  +CP+
  PHY93_07970|PHY93_07970 63 SCTLCNACLEVCPV 76
                             5************7 PP

>> Fer4_18  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   2.0   0.00012      0.14      59      83 ..      33      57 ..      15      64 .. 0.85
   2 ?    8.3   4.5    0.0022       2.5      60      74 ..      63      77 ..      56      86 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.00012
                  Fer4_18 59 gdcidcescvkvcPtgidirkGlql 83
                             + ci+c+ c  vcP +  +++G+ +
  PHY93_07970|PHY93_07970 33 TLCISCDNCKLVCPENAILKNGMEY 57
                             56***************9***9975 PP

  == domain 2  score: 8.3 bits;  conditional E-value: 0.0022
                  Fer4_18 60 dcidcescvkvcPtg 74
                              c+ c++c++vcP++
  PHY93_07970|PHY93_07970 63 SCTLCNACLEVCPVD 77
                             7************86 PP

>> Fer4_13  4Fe-4S single cluster domain of Ferredoxin I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2  15.4   0.00079      0.88       4      57 ..      33      80 ..      31      81 .. 0.87

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00079
                  Fer4_13  4 dtCiacgaCvelaPdvFeeddeggasvvaeqptseeekadaeeAadaCPvesIg 57
                               Ci+c++C  ++P+    ++  g+ +++e ++ +    ++++ ++ CPv++I+
  PHY93_07970|PHY93_07970 33 TLCISCDNCKLVCPENAILKN--GMEYIVETWSCT----LCNACLEVCPVDCIK 80
                             67*************855554..799*******77....9*************8 PP

>> Fer4_22  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   2.2    0.0014       1.5       2      14 ..      35      47 ..      34      57 .. 0.90
   2 ?    4.5   4.6     0.057        64       2      17 ..      64      80 ..      63      89 .] 0.67

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.0014
                  Fer4_22  2 ClsCgaCtlvCpt 14
                             C+sC +C+lvCp 
  PHY93_07970|PHY93_07970 35 CISCDNCKLVCPE 47
                             ***********95 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.057
                  Fer4_22  2 ClsCgaCtlvCpt.CsC 17
                             C  C+aC  vCp  C+ 
  PHY93_07970|PHY93_07970 64 CTLCNACLEVCPVdCIK 80
                             99999999999963443 PP

>> Fer4_15  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3   1.8    0.0072         8       6      23 ..      33      50 ..      29      61 .. 0.77
   2 ?    7.0   3.9    0.0086       9.6       3      19 ..      59      75 ..      58      76 .. 0.91
   3 ?    6.0   0.5     0.017        20      57      65 ..      72      80 ..      71      81 .. 0.86

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0072
                  Fer4_15  6 daCigcglCvaeapevfe 23
                             ++Ci+c +C  ++pe   
  PHY93_07970|PHY93_07970 33 TLCISCDNCKLVCPENAI 50
                             79***********98654 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.0086
                  Fer4_15  3 vDrdaCigcglCvaeap 19
                             v+ + C+ c++C++++p
  PHY93_07970|PHY93_07970 59 VETWSCTLCNACLEVCP 75
                             78899**********98 PP

  == domain 3  score: 6.0 bits;  conditional E-value: 0.017
                  Fer4_15 57 raCPvdAIr 65
                             ++CPvd+I 
  PHY93_07970|PHY93_07970 72 EVCPVDCIK 80
                             68******7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (89 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       673  (0.037537); expected 358.6 (0.02)
Passed bias filter:                      228  (0.0127168); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                        16  (0.000892409); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              16  [number of targets reported over threshold]
# CPU time: 0.47u 0.32s 00:00:00.79 Elapsed: 00:00:00.44
# Mc/sec: 604.96
//
Query:       PHY93_07975|PHY93_07975  [L=173]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.67    9.6   2.7        1.1    8.9   2.7    1.3  1  EMC1_C    ER membrane protein complex subunit 1, C-terminal


Domain annotation for each model (and alignments):
>> EMC1_C  ER membrane protein complex subunit 1, C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   2.7   6.2e-05       1.1     165     199 ..      14      48 ..      10      53 .. 0.85

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 6.2e-05
                   EMC1_C 165 ltrvaPsksFDlLskdFnkilLiltvvallvlvlv 199
                              +  v   k+F lLs++Fnk++L+l+ v l++++++
  PHY93_07975|PHY93_07975  14 CLIVIVGKNFILLSDSFNKLTLVLSFVYLVFAFYF 48 
                              55666789999*****************9998876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (173 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       650  (0.0362541); expected 358.6 (0.02)
Passed bias filter:                      390  (0.0217525); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.48s 00:00:01.02 Elapsed: 00:00:00.47
# Mc/sec: 1100.52
//
Query:       PHY93_07980|PHY93_07980  [L=165]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (165 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       872  (0.0486363); expected 358.6 (0.02)
Passed bias filter:                      515  (0.0287244); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.42s 00:00:00.93 Elapsed: 00:00:00.45
# Mc/sec: 1092.71
//
Query:       PHY93_07985|PHY93_07985  [L=276]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    8.3e-16   58.1   0.0      1e-15   57.7   0.0    1.2  1  AP_endonuc_2  Xylose isomerase-like TIM barrel


Domain annotation for each model (and alignments):
>> AP_endonuc_2  Xylose isomerase-like TIM barrel
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.7   0.0   5.8e-20     1e-15       2     207 ..      28     236 ..      27     252 .. 0.88

  Alignments for each domain:
  == domain 1  score: 57.7 bits;  conditional E-value: 5.8e-20
                              HHHHHCT-SEEEEECCTCSHHHHCHHHHHHHHHHHHHHTTSEEEEEEECCCHSTCTHCHTTCS.HHHHHHHHHHHHHHHHHHTBSE CS
             AP_endonuc_2   2 aaaaeaGfdgvElfgrdlvpvselsdeelrelrkaldelglriaslslftrfgypdederear.reesvdalkraielaaaLGapl 86 
                              ++++++G d+++l ++ +v ++e   e    lrk   elg+ ++s+ +++ + +  e     +  + sv+++ ++++++  +Ga+ 
  PHY93_07985|PHY93_07985  28 KQVHALGLDCMQLEFAHGVRMKE---EVSSGLRKVSYELGVPLTSHGPYYINLNARE----QDkIDSSVERIIQTAKISDLCGAES 106
                              7899*****************95...899999**********************776....3346999****************** PP

                              EEEEBCCGBCTTTSGHHHHHHHHHHHHHHHHHHHHHHT..SEEEEE--TTTTSSSTCHHHHHHHHHHTTTTEEEEEEHHHHHHH.. CS
             AP_endonuc_2  87 lvlhpGtagagpkgseeeawerlaeslneladyaekeg..vklalEtlagsgvelgdeelarlldavdspnvgvclDtgHllia.. 168
                              +++h+    ++ k+s+ + ++++ +sln + + + + +  ++l  E + ++ ++   eel +l + v+s  +  c+D++Hl+++  
  PHY93_07985|PHY93_07985 107 MTFHAA---FYMKDSPYDVFDLVQKSLNVIEERLNRLDiqIELRPELTGKTSQFGSLEELIDLTKSVSS--CSPCMDFSHLFARtn 187
                              ****88...**************************8774466777777777776666999999999998..*************** PP

                              ....TTTHHHHHHHHHGG.......EEEEEE.EESSTTTTSSTTEESTTS CS
             AP_endonuc_2 169 ....eedvddalraladr.......ikhvHikDakgdlgagrdrhvpige 207
                                   e + ++l++l++          h+Hi+ +   +++g+  h+++ +
  PHY93_07985|PHY93_07985 188 eyntYEEFCTVLEKLKEEldpnalqNMHIHISGISS-NSKGDLKHLNLED 236
                              ****999**********99999*9989999988877.6666666666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (276 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       504  (0.0281109); expected 358.6 (0.02)
Passed bias filter:                      431  (0.0240393); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.40s 00:00:00.96 Elapsed: 00:00:00.48
# Mc/sec: 1734.58
//
Query:       PHY93_07990|PHY93_07990  [L=232]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
  ------ inclusion threshold ------
      0.073   13.1   0.0       0.17   11.9   0.0    1.6  2  CorC_HlyC  Transporter associated domain


Domain annotation for each model (and alignments):
>> CorC_HlyC  Transporter associated domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0      0.51   9.2e+03      23      40 ..     101     118 ..      98     121 .. 0.65
   2 ?   11.9   0.0   9.7e-06      0.17      19      55 ..     180     215 ..     174     230 .. 0.78

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 0.51
                              HTSTTHHCT-SBHHHHHH CS
                CorC_HlyC  23 lglelpeedyeTlgGlll 40 
                              l+l+  e +  T++ l++
  PHY93_07990|PHY93_07990 101 LKLKSNEAKHRTVASLIF 118
                              555555556778888876 PP

  == domain 2  score: 11.9 bits;  conditional E-value: 9.7e-06
                              HHHHHTS.TTHHCT-SBHHHHHHHHH-S---TT-EEEE CS
                CorC_HlyC  19 leeelgl.elpeedyeTlgGlllellgriPkegesvev 55 
                              ++ ++++ +lp    +++gGll+++l+++ ++ +  +v
  PHY93_07990|PHY93_07990 180 ISALFKVnHLPVCSEDSVGGLLMNELNHVKNQTD--DV 215
                              6677888668998889***************998..44 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (232 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       496  (0.0276647); expected 358.6 (0.02)
Passed bias filter:                      313  (0.0174578); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.31s 00:00:00.84 Elapsed: 00:00:00.46
# Mc/sec: 1517.55
//
Query:       PHY93_07995|PHY93_07995  [L=622]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.5e-28   99.5   0.0    4.2e-28   98.7   0.0    1.2  1  CHASE2         CHASE2 domain
    8.2e-26   90.7   0.1    1.6e-25   89.7   0.1    1.5  1  HATPase_c      Histidine kinase-, DNA gyrase B-, and HSP90-li
    8.1e-09   35.4   0.0    1.5e-08   34.5   0.0    1.5  1  HisKA          His Kinase A (phospho-acceptor) domain
    0.00048   20.0   0.0      0.001   18.9   0.0    1.4  1  HATPase_c_3    Histidine kinase-, DNA gyrase B-, and HSP90-li
    0.00079   19.3   0.1     0.0017   18.2   0.1    1.6  1  HATPase_c_5    GHKL domain
     0.0058   16.8   0.2      0.013   15.7   0.2    1.5  1  DUF1939        Domain of unknown function (DUF1939)
  ------ inclusion threshold ------
      0.018   15.0   0.0      0.041   13.8   0.0    1.5  1  HATPase_c_2    Histidine kinase-like ATPase domain
      0.041   13.5   1.0      0.088   12.5   1.0    1.5  1  DUF2244        Integral membrane protein (DUF2244)
      0.075   12.2   0.0       0.12   11.5   0.0    1.2  1  Herpes_UL37_1  Herpesvirus UL37 tegument protein


Domain annotation for each model (and alignments):
>> CHASE2  CHASE2 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   98.7   0.0   2.1e-31   4.2e-28       2     250 ..      19     320 ..      18     324 .. 0.69

  Alignments for each domain:
  == domain 1  score: 98.7 bits;  conditional E-value: 2.1e-31
                   CHASE2   2 lllalllllslgllqlelklyDlllrlrge..pe..iviVaIDeeslae..grwpwsravlarllerLeaagakaiglDilfse.. 79 
                              +l+++++l++ +l +le  +yDl++r+     p+  iviV++Dees ++    +p+s a++ r+le+L ++++k+i +   + e  
  PHY93_07995|PHY93_07995  19 TLIFVTILFQYPLASLESIFYDLRVRMDFGikPTeeIVIVTMDEESDDYlgDTYPYSYATHSRFLEKLLSSKPKIINFLSRMPEat 104
                              677889999999***********9997666773346***********956767*************************99888855 PP

                   CHASE2  80 peeydealaealak..........gpnv.........vp...aaaglGfvnvvpDa..........DgvvRrpll.veselipsla 132
                              p  +d+   e ++k          +  v         v    ++++l  +n++  +          D vvRr+++ v+ e   sl 
  PHY93_07995|PHY93_07995 105 P--DDQPYFEGFKKnlknfdamggK--VnfgtevdetVGevlPPENLREFNYALAQlnidnntfakDDVVRRAIFnVSGEE--SLH 184
                              3..4444444444422224444330..122322222211233554444444432112222244555******888555557..*** PP

                   CHASE2 133 lalalryl..kae..........klrlpvdesgg..........lllnyrgg...sk.tfptvsladvle..vppeefkdkiVliG 190
                              l +a +y   +                                 +l +y+++   s+ +++t++++ vl   ++pe fkdkiVliG
  PHY93_07995|PHY93_07995 185 LLTANQYRtiS-GknpinvpdvlG---------AyyndeadanfVLFRYASSpiySDfKYKTIPYHRVLVgnFSPEIFKDKIVLIG 260
                              *****998432.234555553331.........12223334556888886556642234699*******55899999********* PP

                   CHASE2 191 atatglkdl.fstPfss...empgveihAnalsnllsalkpgefllevppewaellwlllllll 250
                              +   + +d  + tPf++   + p   ihA ++++++    +++++  +p  + ++l++++ ++l
  PHY93_07995|PHY93_07995 261 PNYISQRDNfYLTPFNQeeyKAPKLIIHASIIDAFI----QNKTIKMIPRVVSNVLAFIVGIIL 320
                              ***88888769****88***99**************....777788888888888886666554 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   89.7   0.1   8.2e-29   1.6e-25       2     108 ..     514     621 ..     513     622 .] 0.92

  Alignments for each domain:
  == domain 1  score: 89.7 bits;  conditional E-value: 8.2e-29
                              HHHHHHHHHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCH.HCSTCHTSTSSSHHHHHHHHHHH CS
                HATPase_c   2 dekrLrqiisnlvdNavkfatkageieveikaseddlvisveDnGiGipkedlkklfekfsq.ddstkrggggtGlGlsivkklve 86 
                              d++ ++++isnlv+Na+k++++++ ++++   +++++ i+++DnG Gip+e+l+++fekf++ +++++++ +gtGlGl++vk +ve
  PHY93_07995|PHY93_07995 514 DSTLITRVISNLVENAIKYSGNGSIVHIKTWDDDKWVYIEITDNGTGIPPEELQNIFEKFYRiKNDANHSIKGTGLGLYLVKYFVE 599
                              678899*************7777777888776668****************************9999******************* PP

                              HTTTEEEEEEETTTEEEEEEEE CS
                HATPase_c  87 lmgGeiwvesepgrGttftftl 108
                              l+gG+i+ves  g+ t+f ++l
  PHY93_07995|PHY93_07995 600 LHGGTISVESILGKETKFLVKL 621
                              *****************99876 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.5   0.0   7.6e-12   1.5e-08       2      66 ..     403     467 ..     402     468 .. 0.94

  Alignments for each domain:
  == domain 1  score: 34.5 bits;  conditional E-value: 7.6e-12
                              HHHHHHHHHHHHHHHHHHHHHHHHHH..HC..T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHHH CS
                    HisKA   2 lgrflagvaHELrtPLsailgnaeaL..kregklteelkeyletiesearrldhlvedlLdlsriea 66 
                              ++ fl+ ++H+L+tP++ i g a+ L  ++  + ++e +e  + i+++++ l++ ++ +Ldl++ie+
  PHY93_07995|PHY93_07995 403 KQNFLSLMSHDLKTPVAKIAGVADNLyhQN--SGNPEIREKSQLIIDSTKELNKFISSILDLTKIES 467
                              789***********************7666..678******************************97 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.0     5e-07     0.001       5      69 ..     520     586 ..     516     594 .. 0.76

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 5e-07
              HATPase_c_3   5 kAlaelvdNsld..AdaenvkievnknrgktgeivieDdGkGmseeelknal.rlatsskeakrksts 69 
                               ++  lv+N++   ++   v+i+  +++ k   i i+D+G+G+++eel+n + ++ + +++a+++ + 
  PHY93_07995|PHY93_07995 520 RVISNLVENAIKysGNGSIVHIKTWDDD-KWVYIEITDNGTGIPPEELQNIFeKFYRIKNDANHSIKG 586
                              678899****876577777999888875.6899*****************884577666665544333 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.1   8.6e-07    0.0017       6      89 ..     518     609 ..     513     622 .] 0.75

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 8.6e-07
              HATPase_c_5   6 lcvilgnlLdNAieacskieeekrfIrltvrekkksliisieNsyeg..........ekkkle....sskskkeehGiGlksirei 77 
                              ++++++nl +NAi  + +     ++++++ + ++k ++i+i+ + +g          e  k+     + +++ +  G+Gl  +++ 
  PHY93_07995|PHY93_07995 518 ITRVISNLVENAIKYSGNG----SIVHIKTWDDDKWVYIEITDNGTGippeelqnifE--KFYriknDANHSIKGTGLGLYLVKYF 597
                              7899999999999887775....59****************99988878876654331..33312223345556789********* PP

              HATPase_c_5  78 vkkykgnlsiea 89 
                              v+ ++g++s+e 
  PHY93_07995|PHY93_07995 598 VELHGGTISVES 609
                              ******999874 PP

>> DUF1939  Domain of unknown function (DUF1939)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.2   6.4e-06     0.013      27      53 ..     531     559 ..     520     561 .. 0.88

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 6.4e-06
                  DUF1939  27 dytGnss..vdvtvdedGwvkievppkgy 53 
                               y+Gn s    +t d d+wv+ie+ ++g 
  PHY93_07995|PHY93_07995 531 KYSGNGSivHIKTWDDDKWVYIEITDNGT 559
                              59*****97789*************9995 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0     2e-05     0.041      40     109 ..     526     598 ..     518     601 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 2e-05
              HATPase_c_2  40 ctNavehayleapegpvevrlesdeealtvevaDsGpgfdpetlpdpteeep......keslkegGrGlalikglv 109
                              + Na+++  ++     v+++ ++d++++ +e++D+G g +pe+l++  e+ +      ++s k  G+Gl+l+k +v
  PHY93_07995|PHY93_07995 526 VENAIKYSGNG---SIVHIKTWDDDKWVYIEITDNGTGIPPEELQNIFEKFYrikndaNHSIKGTGLGLYLVKYFV 598
                              55777777764...679************************99988877655999998999999*******99876 PP

>> DUF2244  Integral membrane protein (DUF2244)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   1.0   4.4e-05     0.088      10      53 ..     331     374 ..     327     408 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 4.4e-05
                  DUF2244  10 rgflllllalalvslvialafllaGawpvlpFaglevlalalaf 53 
                               g+++ +l+l+ ++++  l+f+l+G+w+    +++++++++++ 
  PHY93_07995|PHY93_07995 331 DGLIITILMLVSILIISYLLFVLMGFWLYTAHLVVTIFVVYYIW 374
                              57788899999999999999******************999864 PP

>> Herpes_UL37_1  Herpesvirus UL37 tegument protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   6.2e-05      0.12     101     151 ..     161     211 ..     151     252 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 6.2e-05
                              HHHHHHHHHHHHHHHHHT-HHHHHHHHHTT--S--TTSHHHHHHHHHHHHH CS
            Herpes_UL37_1 101 eqenrelevlkdlvaavtgsetlhaLsankLrtsaklGPvsvrqliveWid 151
                              ++ + + +v+++ + +v g+e+lh L an+ rt +   P++v  ++  + +
  PHY93_07995|PHY93_07995 161 NNTFAKDDVVRRAIFNVSGEESLHLLTANQYRTISGKNPINVPDVLGAYYN 211
                              45677889**************************99999999887766655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (622 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1246  (0.0694963); expected 358.6 (0.02)
Passed bias filter:                      597  (0.033298); expected 358.6 (0.02)
Passed Vit filter:                        74  (0.00412739); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.78u 0.47s 00:00:01.25 Elapsed: 00:00:00.52
# Mc/sec: 3622.34
//
Query:       PHY93_08000|PHY93_08000  [L=496]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.1e-69  231.3   0.0    8.7e-69  230.5   0.0    1.4  1  Sigma54_activat  Sigma-54 interaction domain
    2.4e-29  101.7   0.8    4.5e-29  100.9   0.8    1.5  1  Response_reg     Response regulator receiver domain
    1.8e-23   83.2   0.0    4.1e-23   82.0   0.0    1.7  1  Sigma54_activ_2  Sigma-54 interaction domain
    1.1e-06   28.7   0.0    5.5e-06   26.4   0.0    2.2  2  AAA_5            AAA domain (dynein-related subfamily)
    0.00025   20.6   0.1     0.0024   17.4   0.0    2.3  2  AAA_7            P-loop containing dynein motor region
    0.00034   21.0   0.1     0.0011   19.4   0.0    1.9  2  AAA              ATPase family associated with various cellul
     0.0016   18.2   0.1     0.0034   17.1   0.1    1.6  1  HTH_8            Bacterial regulatory protein, Fis family
     0.0032   17.3   0.0     0.0084   16.0   0.0    1.7  1  AAA_3            ATPase family associated with various cellul
  ------ inclusion threshold ------
      0.032   13.6   0.0      0.071   12.5   0.0    1.5  1  ATPase           KaiC
      0.094   12.1   0.0        4.7    6.5   0.0    2.2  2  Mg_chelatase     Magnesium chelatase, subunit ChlI


Domain annotation for each model (and alignments):
>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  230.5   0.0   4.8e-72   8.7e-69       2     167 ..     142     307 ..     141     308 .. 0.99

  Alignments for each domain:
  == domain 1  score: 230.5 bits;  conditional E-value: 4.8e-72
                              ---SHHHHHHHHHHHHHCTSSS-EEEECSTTSSHHHHHHHHHHHSTTTTS-EEEEETTTS-TTCHHHHHHEBSSSSSTTTSS-BEH CS
          Sigma54_activat   2 igesealkelleqikkvaktdlsvlitGesGtGKellaraiheaskrkekpfvavncaaipeelleseLFGhekGaFtGAekekkG 87 
                              +ges+ ++++++ i+k+ak +++vli+GesGtGKel+araih + +rk+++fv++n aa+pe+l+eseLFGhekGaFtGA+++k G
  PHY93_08000|PHY93_08000 142 VGESHVMQKVFNVIDKLAKVNTPVLIRGESGTGKELVARAIHYNGPRKDAKFVTINLAAVPENLIESELFGHEKGAFTGANERKLG 227
                              7999********************************************************************************** PP

                              HHHHTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEESBTSSSEEE--EEEEEEESS-HHHHHHTTSS-HHHHHHHTSEEE CS
          Sigma54_activat  88 lfekadgGtlfLDeigelplelQekLlrvlqegevervGsskeikvdvriiaatnedleeaveegkfredLyyrlnviei 167
                              +f+ adgGtlfLDeig++++++Q+kLlrvlqe++++++Gs++ ikvdvr+iaa+++  e+++++g+fredL+yrlnv+++
  PHY93_08000|PHY93_08000 228 KFQYADGGTLFLDEIGDVTPTMQVKLLRVLQEKTFTPIGSNRDIKVDVRVIAASHKPFEQMIKDGTFREDLFYRLNVLPV 307
                              *****************************************************************************986 PP

>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  100.9   0.8   2.5e-32   4.5e-29       1     111 [.       4     113 ..       4     114 .. 0.98

  Alignments for each domain:
  == domain 1  score: 100.9 bits;  conditional E-value: 2.5e-32
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseeeda 86 
                              vl+vdDd+++++ ++++l  + + +v++a++gkeal  + +ek+dl+++D+nmp+mdG+ +l+ei++ dp++ viilta+s+ +da
  PHY93_08000|PHY93_08000   4 VLVVDDDKVLQNSVKEALLYHSF-SVDVANNGKEALLAVYKEKYDLVVMDVNMPEMDGISALTEIKKVDPSVIVIILTAYSNVSDA 88 
                              8**********************.************************************************************** PP

                              HHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  87 vealkagaddflsKpfdpeeLlkal 111
                              v+++k ga+ +l Kp++ e+L++ +
  PHY93_08000|PHY93_08000  89 VKVVKEGAYNYLEKPISSENLVALI 113
                              *********************9987 PP

>> Sigma54_activ_2  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   82.0   0.0   2.3e-26   4.1e-23       1     138 []     142     312 ..     142     312 .. 0.90

  Alignments for each domain:
  == domain 1  score: 82.0 bits;  conditional E-value: 2.3e-26
                              X---HHHHHHHHHHHHHHT-SS-EEEEEETT--HHHHHHCC--TTS-EE--SSTTHHHH-HHHHHHH................... CS
          Sigma54_activ_2   1 lgasaaiqelkerLeqaaqsklpvfltGekGsgkelvArlLhknsgpwleifvverlaklpldlleq................... 67 
                              +g+s ++q+ ++ ++++a+ ++pv++ Ge G+gkelvAr++h n+ ++++ fv ++la+ p +l+e+                   
  PHY93_08000|PHY93_08000 142 VGESHVMQKVFNVIDKLAKVNTPVLIRGESGTGKELVARAIHYNGPRKDAKFVTINLAAVPENLIESelfghekgaftganerklg 227
                              79***********************************************************6666665555555555555555555 PP

                              ....TTTSEEEEEE-TT--HHHHHHHHHHHHH.........HT.TTT-EEEEEEEE-TTT..----HHHHHHHHSSSEEEEE--- CS
          Sigma54_activ_2  68 ....akggtLylkdiadlskaeqkeLlellak.........ae.ksslrlVstsskdleqlleagafdekLlkeLselrlhvPpL 138
                                  a+ggtL+l +i d  +  q +Ll +l++          + k ++r++++s k  eq+++ g f e L+++L  l + +PpL
  PHY93_08000|PHY93_08000 228 kfqyADGGTLFLDEIGDVTPTMQVKLLRVLQEktftpigsnRDiKVDVRVIAASHKPFEQMIKDGTFREDLFYRLNVLPVYLPPL 312
                              55558***********************************94459**************************************98 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       3.2   5.7e+03      70      88 ..      63      81 ..      59      90 .. 0.82
   2 !   26.4   0.0   3.1e-09   5.5e-06       1     123 [.     164     284 ..     164     293 .. 0.80

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 3.2
                             EEESGGG--HHHHHHHHHH CS
                    AAA_5 70 vlDEveraesevlnsLlsl 88
                              l E+++++++v+ + l+ 
  PHY93_08000|PHY93_08000 63 ALTEIKKVDPSVIVIILTA 81
                             5779999999999998875 PP

  == domain 2  score: 26.4 bits;  conditional E-value: 3.1e-09
                              EEEEE--SSSSHHHHHHHGGGGB...S--EEEEE-...-TT--HHHHH--B--..........--------G-SEEEEESGGG--H CS
                    AAA_5   1 dvlLvGppGtgKselaerlaaal...nreveyvql...trdtteedlkgrreik.ngttslvdsplvraaregeilvlDEveraes 79 
                              +vl+ G++GtgK  +a+ +        +++++++l   ++++ e++l+g+ + +  g  +++ +++      g +l+lDE+  + +
  PHY93_08000|PHY93_08000 164 PVLIRGESGTGKELVARAIHYNGprkDAKFVTINLaavPENLIESELFGHEKGAfTGANERKLGKFQ--YADGGTLFLDEIGDVTP 247
                              5899***************999997666666655422256777777777777556666666666666..449************** PP

                              HHHHHHHHHHHSSEEE..-SSSEEE---......-EEEEEESS- CS
                    AAA_5  80 evlnsLlslleerrllleeggelvkaknddllerfrviatanpl 123
                               ++ +Ll++l e+++ +  +++ +k++       +rvia+++++
  PHY93_08000|PHY93_08000 248 TMQVKLLRVLQEKTFTPIGSNRDIKVD-------VRVIAASHKP 284
                              ****************99999999886.......8999999875 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   0.0      0.24   4.3e+02      95     119 ..      39      63 ..      22      68 .. 0.76
   2 !   17.4   0.0   1.3e-06    0.0024      25      72 ..     154     201 ..     145     259 .. 0.85

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 0.24
                    AAA_7  95 gPpggkklvvFvDDlnmpakekyga 119
                               +  ++k+ + v D+nmp+++   a
  PHY93_08000|PHY93_08000  39 LAVYKEKYDLVVMDVNMPEMDGISA 63 
                              5566677777889******997665 PP

  == domain 2  score: 17.4 bits;  conditional E-value: 1.3e-06
                    AAA_7  25 llelllknkkpvllvGptGtGKtviikdllkkldkekylsltinfsaq 72 
                              ++++l k + pvl+ G++GtGK ++++ +  + ++++ +++tin+ a 
  PHY93_08000|PHY93_08000 154 VIDKLAKVNTPVLIRGESGTGKELVARAIHYNGPRKDAKFVTINLAAV 201
                              7899************************9999999********99875 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       4.4     8e+03      92     110 ..      66      81 ..      50      88 .. 0.61
   2 !   19.4   0.0   6.1e-07    0.0011       1     115 [.     165     289 ..     165     303 .. 0.74

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 4.4
                              HHHHTTTSSSTEEEEEEES CS
                      AAA  92 eldgvkkkeskvivigatn 110
                              e+++v   +  vivi+ t 
  PHY93_08000|PHY93_08000  66 EIKKV---DPSVIVIILTA 81 
                              22222...44577777665 PP

  == domain 2  score: 19.4 bits;  conditional E-value: 6.1e-07
                              EEEESSTTSSHHHHHHHHHHHH...THEEEEEETTTCSSS.....STTHHHHHHHHHHHHHHHTS.......TSEEEEEETGGGHH CS
                      AAA   1 vllyGppGtGKTllakavakel...gvefleisgsellsk.....yvgesekkirelfkeakeka.......kpsilfiDEidala 71 
                              vl+ G  GtGK l+a+a+  +    +++f++i+++ + ++     +      + ++ f+ a e +       +   lf+DEi  ++
  PHY93_08000|PHY93_08000 165 VLIRGESGTGKELVARAIHYNGprkDAKFVTINLAAVPENlieseL----FGHEKGAFTGANERKlgkfqyaDGGTLFLDEIGDVT 246
                              6889***************995443699*****9999955555552....44444444444444444455533488********** PP

                              HHHTTCCCHHHHHHHHHHHHHHHHTTTS........SSTEEEEEEESS..GGGS CS
                      AAA  72 ksrsgseseeeervvnqLlteldgvkkk........eskvivigatnr..pdkl 115
                              ++            + +Ll++l++ +          + +v vi+a+++  ++++
  PHY93_08000|PHY93_08000 247 PTM-----------QVKLLRVLQEKTFTpigsnrdiKVDVRVIAASHKpfEQMI 289
                              **9...........8888888888888788888888888*******99544555 PP

>> HTH_8  Bacterial regulatory protein, Fis family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.1   1.9e-06    0.0034       5      42 .]     451     488 ..     449     488 .. 0.97

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 1.9e-06
                              HHHHHHHHHHHHTTT-HHHHHHHHTS-HHHHHHHHHHT CS
                    HTH_8   5 vEkelIeaALertgGnkskAArlLGisRrtLyrKLkkY 42 
                              +Eke I+ AL++++G + ++A   +i  +tL rK++kY
  PHY93_08000|PHY93_08000 451 FEKEFIVWALRQNRGKINQTALKANIPKKTLLRKIEKY 488
                              8************************************9 PP

>> AAA_3  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.0   4.7e-06    0.0084       2     115 ..     165     287 ..     164     296 .. 0.69

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 4.7e-06
                    AAA_3   2 vllegvPGlaktllvkalaka...ldlefkriqftpdllPsdilGtevfeekekefefkk....Gpvf.a..nllladeinrappk 77 
                              vl++g  G++k l+++a+       d++f  i      +P +++ +e+f +++  f+  +    G    a    l+ dei   +p 
  PHY93_08000|PHY93_08000 165 VLIRGESGTGKELVARAIHYNgprKDAKFVTIN--LAAVPENLIESELFGHEKGAFTGANerklGKFQyAdgGTLFLDEIGDVTPT 248
                              789999999999999998654111445555554..455788888888887777555433200113321111136788********* PP

                    AAA_3  78 tqsalleameerqvtvegethklpepflvlat.qnPieq 115
                              +q  ll +++e++ t  g++++++    v+a+ + P eq
  PHY93_08000|PHY93_08000 249 MQVKLLRVLQEKTFTPIGSNRDIKVDVRVIAAsHKPFEQ 287
                              ***********************9999888651678887 PP

>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   3.9e-05     0.071      20      66 ..     163     208 ..     154     223 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 3.9e-05
                   ATPase  20 rvvlitGepGtGKtifalqFlikgaekygepgvfvtveepaedlren 66 
                              + vli Ge+GtGK ++a    ++g +k + + v + +   +e+l+e+
  PHY93_08000|PHY93_08000 163 TPVLIRGESGTGKELVARAIHYNGPRK-DAKFVTINLAAVPENLIES 208
                              679*********************888.***9999999999999875 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.0     0.027        49      25      44 ..     165     184 ..     155     202 .. 0.88
   2 ?    6.5   0.0    0.0026       4.7      93     128 ..     220     255 ..     211     280 .. 0.78

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.027
             Mg_chelatase  25 lllvGppGsGKtmlakrlps 44 
                              +l+ G +G+GK ++a++++ 
  PHY93_08000|PHY93_08000 165 VLIRGESGTGKELVARAIHY 184
                              7999************9975 PP

  == domain 2  score: 6.5 bits;  conditional E-value: 0.0026
             Mg_chelatase  93 ggskpkpGeislahnGvLfLDElpefkrkvlevLRe 128
                              g ++ k G+   a  G LfLDE+ + + ++   L +
  PHY93_08000|PHY93_08000 220 GANERKLGKFQYADGGTLFLDEIGDVTPTMQVKLLR 255
                              6678889****************9988776544444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (496 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       600  (0.0334653); expected 358.6 (0.02)
Passed bias filter:                      467  (0.0260472); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.69u 0.43s 00:00:01.11 Elapsed: 00:00:00.52
# Mc/sec: 2847.22
//
Query:       PHY93_21280|PHY93_21280  [L=72]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (72 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       208  (0.0116013); expected 358.6 (0.02)
Passed bias filter:                      186  (0.0103743); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.31s 00:00:00.72 Elapsed: 00:00:00.43
# Mc/sec: 504.05
//
Query:       PHY93_08005|PHY93_08005  [L=159]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.5e-37  127.8   8.1    4.1e-37  127.5   8.1    1.0  1  Peptidase_A8  Signal peptidase (SPase) II
  ------ inclusion threshold ------
      0.018   15.2   1.6      0.035   14.3   0.9    1.8  2  YbjM          Putative inner membrane protein of Enterobacter


Domain annotation for each model (and alignments):
>> Peptidase_A8  Signal peptidase (SPase) II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  127.5   8.1   4.6e-41   4.1e-37       2     141 .]       5     148 ..       4     148 .. 0.90

  Alignments for each domain:
  == domain 1  score: 127.5 bits;  conditional E-value: 4.6e-41
             Peptidase_A8   2 allllllDqltKllvvenlkte.svevipgffkltyveNrgaafglle...sgakrkllillslvvilllivlllkkkkkskllri 83 
                              ++ ++++Dq+tK lv++++    sv vipg+f+ltyv+N+gaafg+l+   +  +  l+++l +++++ li+l++++++k+ + ++
  PHY93_08005|PHY93_08005   5 IATIIIADQITKGLVQQKFFLGeSVPVIPGLFHLTYVRNPGAAFGMLAyapEYIRGPLFFALPVLACFWLIYLIWSNRNKNLIHCL 90 
                              6789***********87777766999********************9976433344699999999999999999988788899999 PP

             Peptidase_A8  84 alalilgGalGNliDrllygkVvDfldfsleliefpvFNvADvaitvGvilliiallf 141
                              a++li++Ga+GNliDr+++++VvDf+df + + +f++FN+AD+ai++++++li++l+f
  PHY93_08005|PHY93_08005  91 AYSLIFAGAVGNLIDRFTMNYVVDFFDFFWGSHHFAAFNIADSAISIAAMILIVDLIF 148
                              ****************************999999********************9986 PP

>> YbjM  Putative inner membrane protein of Enterobacteriaceae
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.9   3.9e-06     0.035      47     111 ..      44     107 ..       1     112 [. 0.78
   2 ?   -1.1   0.0      0.23     2e+03       7      23 ..     136     152 ..     131     158 .. 0.64

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 3.9e-06
                     YbjM  47 PGivaallskekr.llvpllGallaapvcllvlklvlaseeslwqelayllSavFWcalGallvll 111
                              PG+   +l+   + +  pl+ al  +++++l++ ++   +++l + lay  S +F  a+G l+ ++
  PHY93_08005|PHY93_08005  44 PGAAFGMLAYAPEyIRGPLFFALPVLACFWLIYLIWSNRNKNLIHCLAY--SLIFAGAVGNLIDRF 107
                              888888887665515589*****************************99..779999999998766 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.23
                     YbjM   7 gvvlcfllftlvflsqk 23 
                              ++++ +l++ l+fl +k
  PHY93_08005|PHY93_08005 136 SIAAMILIVDLIFLNKK 152
                              45555666667777666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (159 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       626  (0.0349155); expected 358.6 (0.02)
Passed bias filter:                      312  (0.017402); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.35s 00:00:00.82 Elapsed: 00:00:00.44
# Mc/sec: 1083.73
//
Query:       PHY93_08010|PHY93_08010  [L=223]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.2e-36  124.1  14.1    6.2e-36  123.8  14.1    1.0  1  LGT       Prolipoprotein diacylglyceryl transferase


Domain annotation for each model (and alignments):
>> LGT  Prolipoprotein diacylglyceryl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  123.8  14.1   3.5e-40   6.2e-36      21     239 ..       4     218 ..       1     220 [. 0.79

  Alignments for each domain:
  == domain 1  score: 123.8 bits;  conditional E-value: 3.5e-40
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxx.xxxxxxxxxxxxxxxxxxxxxx RF
                      LGT  21 gfllavllakrrakkeglkeekdkvddlliyavilgiiGaRlgyvlfYylsnp...leilkiw.egGlaihGgligvllalllyak 102
                              +  ++++l+++ ++k++ +    k+ +l + ++  + iGa+ ++++f +++++   l    +w  gG++++Ggli +l+  l+y+ 
  PHY93_08010|PHY93_08010   4 AWGVGYYLTQYLFEKNHEDS--SKLFQLYVGVFTSAWIGAKAFFLFFSAQHKIyqyLYANYFWlGGGFVFYGGLIFGLIFYLIYSL 87 
                              56688999999999955555..46******************9998653333311144444552579*****************97 PP

                              .xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                      LGT 103 .kkklsflkvlDivapvvalgqaigRlGNfingelyGkptdlpwglvfkkaeelplprhPtqlYeslenlllflilllllskkkkk 187
                                kk++f k   +++p++++g+aigR+G+f+ g++yG+++dlpw+   +k++++   rhP qlYe++  ++l  + l ++  ++k 
  PHY93_08010|PHY93_08010  88 wLKKFNFQKS-YLLVPGLVFGHAIGRVGCFLTGCCYGSKCDLPWA---VKMDGEF--RHPVQLYEAFALFCLGYLTLKWI--ERK- 164
                              5567777665.599******************************6...6677777..9********77444444443334..233. PP

                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxx RF
                      LGT 188 kkkdgevfglylilyglgRffiEflRtds...lllgslrmgqllsiplvlagial 239
                               k++  ++  y+++y+++Rf+iEf+R d+   +++ sl+++ql+s+ l+++++++
  PHY93_08010|PHY93_08010 165 -KTNLYIVTHYFLVYSAVRFIIEFFRGDEvrgVFWLSLSTSQLISLGLFIIALVV 218
                              .56899********************9965664459***************9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (223 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       691  (0.0385409); expected 358.6 (0.02)
Passed bias filter:                      300  (0.0167327); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.38s 00:00:00.88 Elapsed: 00:00:00.46
# Mc/sec: 1462.67
//
Query:       PHY93_08015|PHY93_08015  [L=215]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        0.1   12.2   0.0       0.21   11.3   0.0    1.5  1  BAG6      BCL2-associated athanogene 6


Domain annotation for each model (and alignments):
>> BAG6  BCL2-associated athanogene 6
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   1.2e-05      0.21      10      49 ..     135     174 ..     131     180 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 1.2e-05
                     BAG6  10 evqerlePfleryieileedptfeesdntegreeaqrild 49 
                                ++ l+Pf+ ry  i+e   t++ ++n++++ +a  i++
  PHY93_08015|PHY93_08015 135 MASNSLRPFMSRYSRIIEVGDTVTVQENSAKLAKAYEIIK 174
                              56789**************999999999999988877765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (215 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1463  (0.0815996); expected 358.6 (0.02)
Passed bias filter:                      499  (0.027832); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.33s 00:00:00.89 Elapsed: 00:00:00.45
# Mc/sec: 1450.97
//
Query:       PHY93_08020|PHY93_08020  [L=138]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.2e-11   42.5   7.6    1.5e-10   41.5   7.6    1.6  1  Fer4_7    4Fe-4S dicluster domain
    1.6e-10   40.9   3.5    1.6e-05   24.9   0.1    2.3  2  Fer4_10   4Fe-4S dicluster domain
    2.9e-10   40.1   6.7    2.1e-05   24.5   0.6    2.2  2  Fer4_21   4Fe-4S dicluster domain
    1.8e-09   37.0  13.2    0.00012   21.7   2.2    2.3  2  Fer4      4Fe-4S binding domain
    1.3e-07   31.6  30.9    8.5e-05   22.6  12.1    2.2  3  Fer4_9    4Fe-4S dicluster domain
    3.8e-06   26.7  12.9     0.0021   18.1   2.8    2.3  2  Fer4_2    4Fe-4S binding domain
    8.3e-06   25.7  10.0     0.0011   18.9   1.2    2.2  2  Fer4_6    4Fe-4S binding domain
    2.1e-05   25.3   2.2       0.11   13.3   0.2    2.2  2  Fer4_22   4Fe-4S dicluster domain
    2.2e-05   25.3  10.8      0.012   16.5  11.0    2.4  3  Fer4_16   4Fe-4S double cluster binding domain
    0.00072   20.0  11.1      0.024   15.1   1.9    2.1  3  Fer4_8    4Fe-4S dicluster domain
     0.0018   18.8  12.3      0.022   15.3  12.2    2.2  1  Fer4_17   4Fe-4S dicluster domain
     0.0044   17.7   8.7      0.025   15.3   0.2    2.6  2  Fer4_15   4Fe-4S single cluster domain
     0.0086   16.5   8.8       0.77   10.4   2.2    2.2  2  Fer4_4    4Fe-4S binding domain
  ------ inclusion threshold ------
      0.084   13.4  12.9       0.34   11.5   0.8    3.3  3  Fer4_13   4Fe-4S single cluster domain of Ferredoxin I
       0.13   12.5   9.2         32    4.8   9.2    2.2  1  Fer4_18   4Fe-4S dicluster domain
       0.54   11.3  15.2       0.34   12.0   3.8    2.3  2  Fer4_3    4Fe-4S binding domain


Domain annotation for each model (and alignments):
>> Fer4_7  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.5   7.6   1.4e-13   1.5e-10       2      51 ..      48     100 ..      47     101 .. 0.86

  Alignments for each domain:
  == domain 1  score: 41.5 bits;  conditional E-value: 1.4e-13
                   Fer4_7   2 CigCgaCvaaCpvkaielde...eenekgtekveidpekClgCgaCvavCPtg 51 
                              C+gC+ C + Cpv+ iel +   +en++ +++veid  +C+gC++C + CP++
  PHY93_08020|PHY93_08020  48 CTGCEICIQGCPVDSIELVPgplSENPQFQQTVEIDLARCIGCQNCSTDCPWE 100
                              *****************9964434455555999******************96 PP

>> Fer4_10  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.5   4.1e-06    0.0046       3      22 ..      42      61 ..      40      77 .. 0.84
   2 !   24.9   0.1   1.4e-08   1.6e-05       2      23 ..      80     101 ..      79     135 .. 0.78

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 4.1e-06
                  Fer4_10  3 vidddtCirCgkCvkaCPad 22
                             v+ ++ C++C+ C + CP+d
  PHY93_08020|PHY93_08020 42 VVHQSGCTGCEICIQGCPVD 61
                             667899************94 PP

  == domain 2  score: 24.9 bits;  conditional E-value: 1.4e-08
                  Fer4_10   2 vvidddtCirCgkCvkaCPadl 23 
                              v+id  +Ci+C++C + CP+  
  PHY93_08020|PHY93_08020  80 VEIDLARCIGCQNCSTDCPWET 101
                              789*****************44 PP

>> Fer4_21  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.5   0.6   1.9e-08   2.1e-05      33      58 ..      40      64 ..      26      65 .. 0.81
   2 !   18.8   0.8   1.1e-06    0.0013      33      59 .]      79     104 ..      71     104 .. 0.80

  Alignments for each domain:
  == domain 1  score: 24.5 bits;  conditional E-value: 1.9e-08
                  Fer4_21 33 vlkvvedeCvGCnlCssvCPvedcie 58
                              + v ++ C+GC++C++ CPv d ie
  PHY93_08020|PHY93_08020 40 LAVVHQSGCTGCEICIQGCPV-DSIE 64
                             44566899************9.8876 PP

  == domain 2  score: 18.8 bits;  conditional E-value: 1.1e-06
                  Fer4_21  33 vlkvvedeCvGCnlCssvCPvedciem 59 
                              ++++   +C+GC+ Cs+ CP  + i+m
  PHY93_08020|PHY93_08020  79 TVEIDLARCIGCQNCSTDCPW-ETITM 104
                              45566689************6.89988 PP

>> Fer4  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.9   3.5     2e-07   0.00022       2      24 .]      42      64 ..      41      64 .. 0.91
   2 !   21.7   2.2   1.1e-07   0.00012       1      24 []      80     103 ..      80     103 .. 0.93

  Alignments for each domain:
  == domain 1  score: 20.9 bits;  conditional E-value: 2e-07
                             EEETTTSSS-THHHHHSTTTEEE CS
                     Fer4  2 videekCigCGaCvevCPvgAIt 24
                             v++++ C+gC +C++ CPv+ I+
  PHY93_08020|PHY93_08020 42 VVHQSGCTGCEICIQGCPVDSIE 64
                             788999**************986 PP

  == domain 2  score: 21.7 bits;  conditional E-value: 1.1e-07
                              EEEETTTSSS-THHHHHSTTTEEE CS
                     Fer4   1 vvideekCigCGaCvevCPvgAIt 24 
                              v+id  +CigC +C   CP + It
  PHY93_08020|PHY93_08020  80 VEIDLARCIGCQNCSTDCPWETIT 103
                              689****************99886 PP

>> Fer4_9  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.9   2.5e-06    0.0028      33      50 ..      38      62 ..      13      63 .. 0.70
   2 !   22.6  12.1   7.6e-08   8.5e-05       2      48 ..      48      99 ..      47     102 .. 0.80
   3 !   14.5   3.1   2.6e-05     0.029       1      21 [.      86     106 ..      86     115 .. 0.83

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 2.5e-06
                   Fer4_9 33 e.......eaCigCgaCveaCpkga 50
                             +       + C+gC+ C++ Cp + 
  PHY93_08020|PHY93_08020 38 KllavvhqSGCTGCEICIQGCPVDS 62
                             0344444457************875 PP

  == domain 2  score: 22.6 bits;  conditional E-value: 7.6e-08
                   Fer4_9  2 CtgCgaCveaCpagvvvedaaerkarlraase.....eaCigCgaCveaCpk 48
                             CtgC  C++ Cp + ++   ++   + + ++       +CigC+ C   Cp 
  PHY93_08020|PHY93_08020 48 CTGCEICIQGCPVDSIELVPGPLSENPQFQQTveidlARCIGCQNCSTDCPW 99
                             ***********8888877777777665554447788889***********96 PP

  == domain 3  score: 14.5 bits;  conditional E-value: 2.6e-05
                   Fer4_9   1 kCtgCgaCveaCpagvvveda 21 
                              +C+gC++C + Cp +++++ +
  PHY93_08020|PHY93_08020  86 RCIGCQNCSTDCPWETITMYE 106
                              5************99987655 PP

>> Fer4_2  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.0   2.6   3.5e-05      0.04       8      21 ..      46      59 ..      40      60 .. 0.84
   2 !   18.1   2.8   1.9e-06    0.0021       3      21 ..      80      98 ..      79      99 .. 0.91

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 3.5e-05
                   Fer4_2  8 drCigCgaCvsaCP 21
                               C+gC++C++ CP
  PHY93_08020|PHY93_08020 46 SGCTGCEICIQGCP 59
                             56************ PP

  == domain 2  score: 18.1 bits;  conditional E-value: 1.9e-06
                   Fer4_2  3 vvvdtdrCigCgaCvsaCP 21
                             v++d +rCigC  C + CP
  PHY93_08020|PHY93_08020 80 VEIDLARCIGCQNCSTDCP 98
                             5799**********999** PP

>> Fer4_6  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.5   2.1   0.00023      0.25       3      22 ..      42      61 ..      40      63 .. 0.82
   2 !   18.9   1.2     1e-06    0.0011       2      21 ..      80      99 ..      79     105 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00023
                   Fer4_6  3 eidpdkCigCgdCvrvCPeg 22
                             ++ ++ C+gC+ C+  CP +
  PHY93_08020|PHY93_08020 42 VVHQSGCTGCEICIQGCPVD 61
                             566677************86 PP

  == domain 2  score: 18.9 bits;  conditional E-value: 1e-06
                   Fer4_6  2 veidpdkCigCgdCvrvCPe 21
                             veid  +CigC +C + CP 
  PHY93_08020|PHY93_08020 80 VEIDLARCIGCQNCSTDCPW 99
                             99*****************5 PP

>> Fer4_22  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.2    0.0001      0.11      69      94 ..      35      60 ..       7      62 .. 0.77
   2 !   12.0   0.2   0.00026      0.29      77      94 ..      82      99 ..      73     116 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 0.0001
                  Fer4_22 69 klsefkekfgesgCvGCgRCieacpv 94
                             k  ++ + +++sgC+GC  Ci+ cpv
  PHY93_08020|PHY93_08020 35 KPPKLLAVVHQSGCTGCEICIQGCPV 60
                             444566677999************97 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 0.00026
                  Fer4_22 77 fgesgCvGCgRCieacpv 94
                             ++   C+GC  C++ cp 
  PHY93_08020|PHY93_08020 82 IDLARCIGCQNCSTDCPW 99
                             466778888888888874 PP

>> Fer4_16  4Fe-4S double cluster binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.2   2.3   5.9e-05     0.066      38      66 ..      32      60 ..       3      61 .. 0.61
   2 !   16.5  11.0   1.1e-05     0.012       2      66 ..      48      99 ..      47     100 .. 0.79
   3 !   13.9   2.3   7.2e-05     0.081       1      24 [.      86     109 ..      86     137 .. 0.63

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 5.9e-05
                  Fer4_16 38 kkdlaedeekckkqeaitgCdiCqdvCPa 66
                             k + +++  +   q  +tgC iC + CP+
  PHY93_08020|PHY93_08020 32 KGKKPPKLLAVVHQSGCTGCEICIQGCPV 60
                             22233444555568999*******99997 PP

  == domain 2  score: 16.5 bits;  conditional E-value: 1.1e-05
                  Fer4_16  2 CgtCgkCaevCPtnaikekkekeiearecisyntaekkdlaedeekckkqeaitgCdiCqdvCPa 66
                             C++C+ C++ CP++ i+         +   s+n + ++++++d ++c       gC++C + CP+
  PHY93_08020|PHY93_08020 48 CTGCEICIQGCPVDSIELV-------PGPLSENPQFQQTVEIDLARCI------GCQNCSTDCPW 99
                             *****************99.......4444544445567777777666......**********9 PP

  == domain 3  score: 13.9 bits;  conditional E-value: 7.2e-05
                  Fer4_16   1 rCgtCgkCaevCPtnaikekkeke 24 
                              rC++C++C   CP + i++ +++ 
  PHY93_08020|PHY93_08020  86 RCIGCQNCSTDCPWETITMYEHND 109
                              699999999999999999874333 PP

>> Fer4_8  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.0   2.5    0.0017       1.9      50      63 ..      47      60 ..      18      63 .. 0.75
   2 !   15.0  12.5   2.3e-05     0.026       3      62 ..      46      98 ..      44     101 .. 0.82
   3 !   15.1   1.9   2.1e-05     0.024       2      17 ..      84     104 ..      83     134 .. 0.71

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.0017
                   Fer4_8 50 sCttcgaCtevCpv 63
                              Ct+c+ C + Cpv
  PHY93_08020|PHY93_08020 47 GCTGCEICIQGCPV 60
                             57777777777766 PP

  == domain 2  score: 15.0 bits;  conditional E-value: 2.3e-05
                   Fer4_8  3 ekCieCgaCqsaCpvlrrtk.khlldargeaaedvqeeqvleeeealwsCttcgaCtevCp 62
                             + C++C+ C + Cpv + +    +l+ + + ++  +e +       l +C +c++C++ Cp
  PHY93_08020|PHY93_08020 46 SGCTGCEICIQGCPVDSIELvPGPLSENPQFQQ-TVEID-------LARCIGCQNCSTDCP 98
                             57************9999997777777777666.55544.......69************9 PP

  == domain 3  score: 15.1 bits;  conditional E-value: 2.1e-05
                   Fer4_8   2 lekCieCgaCqsaCp.....v 17 
                              l +Ci+C+ C + Cp     +
  PHY93_08020|PHY93_08020  84 LARCIGCQNCSTDCPwetitM 104
                              678999999999998444432 PP

>> Fer4_17  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3  12.2   1.9e-05     0.022       2      57 ..      48      98 ..      47     102 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 1.9e-05
                  Fer4_17  2 CiqCgyClpeCpsyeaydnepkkllraaklglleeaekeekaslCieCgeCerkCP 57
                             C++C+ C++ Cp   + +  p  l ++ +++++     e    +Ci+C++C+++CP
  PHY93_08020|PHY93_08020 48 CTGCEICIQGCPVDSI-ELVPGPLSENPQFQQTV----EIDLARCIGCQNCSTDCP 98
                             ************9777.45588888887776443....4589************** PP

>> Fer4_15  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.9   3.5      0.04        45       3      19 ..      43      59 ..      42      65 .. 0.86
   2 !   15.3   0.2   2.2e-05     0.025       1      19 [.      80      98 ..      80     137 .. 0.75

  Alignments for each domain:
  == domain 1  score: 4.9 bits;  conditional E-value: 0.04
                  Fer4_15  3 vDrdaCigcglCvaeap 19
                             v ++ C+gc+ C++ +p
  PHY93_08020|PHY93_08020 43 VHQSGCTGCEICIQGCP 59
                             56789********9987 PP

  == domain 2  score: 15.3 bits;  conditional E-value: 2.2e-05
                  Fer4_15  1 VvvDrdaCigcglCvaeap 19
                             V++D  +Cigc +C + +p
  PHY93_08020|PHY93_08020 80 VEIDLARCIGCQNCSTDCP 98
                             89**************997 PP

>> Fer4_4  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.4   2.2   0.00069      0.77       2      16 ..      46      60 ..      45      67 .. 0.90
   2 !   10.0   0.6   0.00092         1       3      15 ..      86      98 ..      84     114 .. 0.89

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00069
                   Fer4_4  2 erCigCgsCvaaCPq 16
                             + C+gC  C+  CP+
  PHY93_08020|PHY93_08020 46 SGCTGCEICIQGCPV 60
                             56************7 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00092
                   Fer4_4  3 rCigCgsCvaaCP 15
                             rCigC  C   CP
  PHY93_08020|PHY93_08020 86 RCIGCQNCSTDCP 98
                             9*******99998 PP

>> Fer4_13  4Fe-4S single cluster domain of Ferredoxin I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   5.1     0.045        51       3      17 ..      45      59 ..      43      60 .. 0.89
   2 ?    5.3   0.1     0.026        29      48      57 ..      55      64 ..      55      65 .. 0.86
   3 ?   11.5   0.8    0.0003      0.34       1      17 [.      82      98 ..      82     119 .. 0.87

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.045
                  Fer4_13  3 rdtCiacgaCvelaP 17
                             ++ C++c++C + +P
  PHY93_08020|PHY93_08020 45 QSGCTGCEICIQGCP 59
                             789**********99 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.026
                  Fer4_13 48 adaCPvesIg 57
                             +++CPv+sI+
  PHY93_08020|PHY93_08020 55 IQGCPVDSIE 64
                             579******7 PP

  == domain 3  score: 11.5 bits;  conditional E-value: 0.0003
                  Fer4_13  1 VDrdtCiacgaCvelaP 17
                             +D  +Ci+c++C   +P
  PHY93_08020|PHY93_08020 82 IDLARCIGCQNCSTDCP 98
                             7999*********9999 PP

>> Fer4_18  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   9.2     0.029        32      47      80 ..      34      68 ..      19     116 .. 0.61

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.029
                  Fer4_18 47 lkekeerkekgagdcidcescvkvcPtg.idirkG 80
                             +k  ++ +   ++ c+ ce c++ cP++ i++  G
  PHY93_08020|PHY93_08020 34 KKPPKLLAVVHQSGCTGCEICIQGCPVDsIELVPG 68
                             44555556677899************853655444 PP

>> Fer4_3  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   3.8    0.0003      0.34       1      14 [.      48      61 ..      48      62 .. 0.94
   2 ?    5.1   3.6     0.048        54       1      12 [.      87      98 ..      87     100 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.0003
                   Fer4_3  1 CtgCgaCvevCPvg 14
                             CtgC+ C + CPv+
  PHY93_08020|PHY93_08020 48 CTGCEICIQGCPVD 61
                             ************97 PP

  == domain 2  score: 5.1 bits;  conditional E-value: 0.048
                   Fer4_3  1 CtgCgaCvevCP 12
                             C+gC+ C   CP
  PHY93_08020|PHY93_08020 87 CIGCQNCSTDCP 98
                             *******99888 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (138 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       575  (0.0320709); expected 358.6 (0.02)
Passed bias filter:                      283  (0.0157845); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              16  [number of targets reported over threshold]
# CPU time: 0.48u 0.31s 00:00:00.79 Elapsed: 00:00:00.44
# Mc/sec: 933.75
//
Query:       PHY93_08025|PHY93_08025  [L=1049]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
   2.4e-129  432.2   0.0   3.4e-129  431.7   0.0    1.2  1  MM_CoA_mutase   Methylmalonyl-CoA mutase
    1.7e-35  122.3   0.0    2.9e-35  121.5   0.0    1.3  1  MeaB            Methylmalonyl Co-A mutase-associated GTPase M
    7.8e-12   45.3   0.1    2.1e-11   43.9   0.1    1.7  1  B12-binding     B12 binding domain
    1.1e-09   38.1   0.0    1.3e-08   34.7   0.0    2.4  2  cobW            CobW/HypB/UreG, nucleotide-binding domain
     0.0074   16.2   0.0      0.018   15.0   0.0    1.6  1  Ploopntkinase3  P-loop Nucleotide Kinase3
  ------ inclusion threshold ------
      0.011   15.2   0.0      0.039   13.4   0.0    1.8  2  CBP_BcsQ        Cellulose biosynthesis protein BcsQ
      0.028   14.5   0.0      0.091   12.8   0.0    1.9  1  CbiA            CobQ/CobB/MinD/ParA nucleotide binding domain
      0.065   13.1   0.0         19    5.1   0.0    2.7  2  DUF3189         Protein of unknown function (DUF3189)
       0.12   12.2   0.0        0.3   10.9   0.0    1.6  1  AAA_29          P-loop containing region of AAA domain
       0.13   12.5   0.0        1.2    9.4   0.0    2.6  3  AAA_22          AAA domain


Domain annotation for each model (and alignments):
>> MM_CoA_mutase  Methylmalonyl-CoA mutase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  431.7   0.0  1.9e-132  3.4e-129      22     513 .]     536    1045 ..     518    1045 .. 0.94

  Alignments for each domain:
  == domain 1  score: 431.7 bits;  conditional E-value: 1.9e-132
            MM_CoA_mutase   22 lgeslPGefPftRGvkatmyrgrpWtirqyagfstaeetnerykklLeaGqtg.lsvafdlptlrgyDsd.hpraegevGkaGv 103 
                                 ++lPG fPf  G+ +  +r  +   r++ag++ + +tn+r+++l +  q   ls+afd+ tl+g D+d  p   g++G+aGv
  PHY93_08025|PHY93_08025  536 KSSNLPGHFPFAAGIFPF-KRADEDPKRMFAGEGGPLRTNKRFHYLSKDDQAKrLSTAFDSVTLYGEDPDiRPDIFGKIGEAGV 618 
                               5679************98.8889*********************9999888666****************4466778******* PP

            MM_CoA_mutase  104 aidsledmetlldgidldk..vsvsmtinaaalpllamylaaaeeqgvd.............leklsgtiqnDiLkellargty 172 
                               +i++l+dme+l++g+ l +  +svsmtin++a+++lamy++aa +q ++             +++++gt+q+DiLke  a++t+
  PHY93_08025|PHY93_08025  619 SIATLDDMEDLYKGFSLIDpfTSVSMTINGPAPIILAMYMNAAMKQVLQgddylnpekrievMRQVRGTVQADILKEDQAQNTC 702 
                               *****************9889**************************99999*********999******************** PP

            MM_CoA_mutase  173 iyppepslrliadiiey.aakevpkfntisvsgyhireaGatavqElAftladGveYvralleaGldvdefaprlsFffaigsd 255 
                               i++ e +l++++di e  +++++++++++s+sgyhi+eaGa++++++Aftl +G+++v+ +l++G+d+++f+++ls+ff++g d
  PHY93_08025|PHY93_08025  703 IFSLEFALKMMGDIQELfCRQKIKNYYSVSISGYHIAEAGANPISQMAFTLTNGFTFVEYYLSRGMDINDFCQNLSYFFSNGLD 786 
                               ****************77****************************************************************** PP

            MM_CoA_mutase  256 ffeeiAklRAaRrlWarivkekfgakeekslklrvhaqTsgvsltaqdpyvNilRttlealaAvlggtqslhtnsfDealalPt 339 
                                 +++   R+aR++Wa ++++k+ga+e+ s+++++h+qTsg sl+aq++ +N +Rttl+a+ A  ++++slhtn++Dea+++Pt
  PHY93_08025|PHY93_08025  787 PEYTVMG-RVARKIWAVTLRDKYGANEK-SQQFKYHVQTSGRSLHAQEIDFNDIRTTLQAFLALSDNCNSLHTNAYDEAITTPT 868 
                               ******9.*****************966.******************************************************* PP

            MM_CoA_mutase  340 efsariArntqlilaeEsgvakvvDPlgGSyyvEaLTdelaekawklfqeieeaGGmlkaiesGlvqeeiaesaarrqkaiesr 423 
                               e+s+r A+ +q+i+++E+g++k+ +Pl+G+y+vE+L + ++e++++ f++i ++GG+l a+es +++++i+e++  +++  +s+
  PHY93_08025|PHY93_08025  869 EESVRRAMAIQMIINREFGMNKTDNPLQGAYIVEELAAIVEEQVLREFENISDKGGVLGAMESMYQRSKIQEESLYYETLKDSG 952 
                               ************************************************************************************ PP

            MM_CoA_mutase  424 kevivGvNkfr....pneeekelevlkideeveerqaerlealraerdeaavkaaLaalgeaarse.nllaraveaaralatlG 502 
                               +  i+GvN++     +++  ke+e+ +++++ + +q+ rl+++++ r+ +++ aaL++l+ +a  + n+++ ++  ++  a+lG
  PHY93_08025|PHY93_08025  953 EFPIIGVNTYValniKEQMAKEIEISRCSDDEKMEQITRLNKFKE-RNIDKAAAALQRLKVVALANgNVFEELLSTVNY-ASLG 1034
                               **********87555444556999999999999999999999996.56777899*******665556**********98.**** PP

            MM_CoA_mutase  503 eisdaleevfg 513 
                               +i++ l ev g
  PHY93_08025|PHY93_08025 1035 QITNLLYEVGG 1045
                               *****999866 PP

>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  121.5   0.0   1.6e-38   2.9e-35      22     193 ..     172     344 ..     158     393 .. 0.92

  Alignments for each domain:
  == domain 1  score: 121.5 bits;  conditional E-value: 1.6e-38
                              HGGG-S-SEEEEEEE-TTSSHHHHHHHHHHHHHCT..T--EEEEEE------------------HCCCTSTTEEEEEE-----HHH CS
                     MeaB  22 llakaGraqvvGltGvPGaGkstlvealglelrrr..GkrvavlavDPsspftGGsilGDklRleelavdegvfiRslpsrGalGG 105
                              +   aG+  v+G+tG+ GaGks l+++l l++ r+    r+a+++vDP+ + t G++lGD++Rl + +   + +iRsl++r     
  PHY93_08025|PHY93_08025 172 IKYIAGNVPVLGITGTGGAGKSSLIDELLLRFYRHspSSRIALISVDPTKKKTSGALLGDRIRLGSAS-FSNFYIRSLATRNSNTE 256
                              55679**************************99873358*************************8765.579************** PP

                              HHHHHHHHHHHHHHTT-SEEEEEEESSTTHHHHHHTT-SEEEEEEESSTTTTTTT--CCCHHH-SEEEEE---HHHHHHHHHHHHH CS
                     MeaB 106 laaktrevvllleaaGfDvvlietvGvGqsevdvaevvdtfvvlllpeaGDelqgikkGileiaDiivvnkaDkkeaekaarelra 191
                              l+ + ++vv +l +  fD +l+et G+Gq+  ++ +v+d ++ +++pe G   q  k  +le a  iv+nk +k+ +e a r++r+
  PHY93_08025|PHY93_08025 257 LSPHIKDVVSFLKSQPFDLILVETSGIGQASDEITKVADKCIYVMTPEYGAPTQLEKIEMLESASFIVINKFEKPRSEDALRDIRK 342
                              *************************************************************************9999999988876 PP

                              HH CS
                     MeaB 192 al 193
                                
  PHY93_08025|PHY93_08025 343 QY 344
                              65 PP

>> B12-binding  B12 binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.9   0.1   1.2e-14   2.1e-11       3      93 ..       6      96 ..       4     108 .. 0.89

  Alignments for each domain:
  == domain 1  score: 43.9 bits;  conditional E-value: 1.2e-14
              B12-binding  3 vllatvggdlhplGlavlaaalrdagfeVqllganvenedivaairaekpdvvglSalltsqleavkelvel.lkrirprvkvvvGGa 89
                             ++ a   +d h++ +++  ++l+ +g+eV++lg n +++++v+a+ +e++  v+lS++ + ++e ++ + el  ++  +++k++ GG 
  PHY93_08025|PHY93_08025  6 FVTAASLFDGHDVSINIMRRMLQSKGVEVIHLGHNRSAQEVVDAALQEDVNGVALSSYQGGHVEYFTYIRELlDAAGASKIKIFGGGG 93
                             67788889****************************************************************8555557899999997 PP

              B12-binding 90 hpsl 93
                             +  +
  PHY93_08025|PHY93_08025 94 G-VI 96
                             6.44 PP

>> cobW  CobW/HypB/UreG, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.7   0.0   7.1e-12   1.3e-08       1     167 [.     180     345 ..     180     351 .. 0.83
   2 ?    0.2   0.1      0.27   4.9e+02      33      61 ..     992    1020 ..     974    1039 .. 0.82

  Alignments for each domain:
  == domain 1  score: 34.7 bits;  conditional E-value: 7.1e-12
                              EEEEEEESTTCCHHHHHHHHH....CT--SS-EEEEESS-SSCHCCCCCCHCCCT..........EEEETTTTECCHCTT-HHHHH CS
                     cobW   1 pvtvltGflGsGKTtLlnhll....enraglklavivNefgevsiDaellretgve.........ivelenGciCctlredllkel 73 
                              pv+++tG  G+GK++L+ +ll    +++ + ++a+i  +  + +  ++ll ++            i +l++      l+  +  ++
  PHY93_08025|PHY93_08025 180 PVLGITGTGGAGKSSLIDELLlrfyRHSPSSRIALISVDPTKKKTSGALLGDRIRLgsasfsnfyIRSLATRNSNTELSPHIKDVV 265
                              7999*********************9************************777433444666677778887766666666666666 PP

                              HHHHHHHTT-SEEEEEECTTTTHHHHHTTSHHHHHCCCECEEEEEEETTTH.CCHCCHHHHHHHHHHTSSEEEEE-HHHHCHC..H CS
                     cobW  74 ealeereerldviliEttGlaePapvafteeelksdltldavvavvDaknleaeeekieekaedqlaaadllvlnKtDlldeeall 159
                              + l++++  +d+il+Et+G+ ++               +d  ++v+      + + +++ +  ++l+ a+++v+nK +   +e+ l
  PHY93_08025|PHY93_08025 266 SFLKSQP--FDLILVETSGIGQASDE--------ITKVADKCIYVMTP----EYGAPTQLEKIEMLESASFIVINKFEKPRSEDAL 337
                              6666666..**********9998766........2567899*******....899***********************99999766 PP

                              HHHHHHHH CS
                     cobW 160 ekleerlr 167
                              + ++++ r
  PHY93_08025|PHY93_08025 338 RDIRKQYR 345
                              77666655 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.27
                               ESS-SSCHCCCCCCHCCCT.EEEETTTTE CS
                     cobW   33 vNefgevsiDaellretgveivelenGci 61  
                               +N f+e +iD++  + +  ++v l+nG +
  PHY93_08025|PHY93_08025  992 LNKFKERNIDKAAAALQRLKVVALANGNV 1020
                               599**************999*******75 PP

>> Ploopntkinase3  P-loop Nucleotide Kinase3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0     1e-05     0.018       8      95 ..     184     281 ..     178     294 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 1e-05
           Ploopntkinase3   8 lvGqPGaGkstlmaeltkgfdrskveqeeetvphdvlvdrttGevvgaelGkrreafsG..........tdalassiidkavPwve 83 
                              + G+ GaGks l+ el   f r++ +++  +++ d   ++t+G+ +g  +     +fs           +++  s  i   v +++
  PHY93_08025|PHY93_08025 184 ITGTGGAGKSSLIDELLLRFYRHSPSSRIALISVDPTKKKTSGALLGDRIRLGSASFSNfyirslatrnSNTELSPHIKDVVSFLK 269
                              67999*****************9999788999***************998888888885332211111123334667999****** PP

           Ploopntkinase3  84 tkPydlllaeGa 95 
                              ++P+dl+l e +
  PHY93_08025|PHY93_08025 270 SQPFDLILVETS 281
                              ********9975 PP

>> CBP_BcsQ  Cellulose biosynthesis protein BcsQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   2.2e-05     0.039     104     173 ..     260     330 ..     245     349 .. 0.80
   2 ?   -2.4   0.0       1.4   2.6e+03      56      84 ..     734     762 ..     729     772 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 2.2e-05
                 CBP_BcsQ 104 allaalkelk.eqyrwillDlpagasaltrellaladlvllvvepdanchvrLhqqa.lpaaellLiNqfea 173
                              ++++ ++ lk + +++il++  +g  +   e++++ad+ + v++p+  +  +L++ + l++a+ + iN+fe 
  PHY93_08025|PHY93_08025 260 HIKDVVSFLKsQPFDLILVET-SGIGQASDEITKVADKCIYVMTPEYGAPTQLEKIEmLESASFIVINKFEK 330
                              5566667777789*****997.588899999**********************9976267788899****85 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 1.4
                 CBP_BcsQ  56 egwaraeldgapwrqaaleyapgldllPf 84 
                              +g+  ae+ ++p++q a+ +++g++++ +
  PHY93_08025|PHY93_08025 734 SGYHIAEAGANPISQMAFTLTNGFTFVEY 762
                              6889999999**************99877 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   5.1e-05     0.091       5     102 ..     185     346 ..     181     363 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 5.1e-05
                              ESSTTSSHHHHHHHHHHHHHHT..T--EEEEEEEESSCCCCHHTTEB-HHHH.................................. CS
                              xxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxx.................................. RF
                     CbiA   5 stkGGvGKTtlaanLaralarr..glrVllvDaDpqannlaileglendiep.................................. 54 
                               ++GG+GK++l   L+  + r+    r++l+ +Dp  + ++    l +d+ +                                  
  PHY93_08025|PHY93_08025 185 TGTGGAGKSSLIDELLLRFYRHspSSRIALISVDPTKKKTS--GALLGDRIRlgsasfsnfyirslatrnsntelsphikdvvsfl 268
                              699************99999965699**********99999..333444433577******************************* PP

                              .....................................CCHCCCHHHHHHCHCHHHH..EEEEEEEEESS...-TTCHHHHHHHHH CS
                              .....................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     CbiA  55 .....................................dlkrllellealgkkkalllkiagvvlnrvdgeneetllkealeelkq 102
                                                                   ++   le +e+l           ++v+n+++++++e +l++  +++ +
  PHY93_08025|PHY93_08025 269 ksqpfdlilvetsgigqasdeitkvadkciyvmtpeyGAPTQLEKIEMLESA-------SFIVINKFEKPRSEDALRDIRKQYRR 346
                              *************************************999999999999988.......9**********999999998877654 PP

>> DUF3189  Protein of unknown function (DUF3189)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.9   0.0     0.012        22      48     100 ..     228     281 ..     209     290 .. 0.84
   2 ?    5.1   0.0     0.011        19      86     140 ..     855     909 ..     838     911 .. 0.85

  Alignments for each domain:
  == domain 1  score: 4.9 bits;  conditional E-value: 0.012
                  DUF3189  48 eiGkliyiGkDelgn.evYvlGvkgssklvekalkdlleilgieeeelllvdtl 100
                               +G  i +G  +++n  + +l+ ++s++ +++ +kd+++ l+ +  +l+lv+t+
  PHY93_08025|PHY93_08025 228 LLGDRIRLGSASFSNfYIRSLATRNSNTELSPHIKDVVSFLKSQPFDLILVETS 281
                              5666777777777773477899*****************************997 PP

  == domain 2  score: 5.1 bits;  conditional E-value: 0.011
                  DUF3189  86 ilgieeeelllvdtlptvnllmkiggflsrrlglvklGrplvvkgikkaykkive 140
                              + +  ++e +   t + v  +m i +++ r++g++k+ +pl   +i +++  ive
  PHY93_08025|PHY93_08025 855 LHTNAYDEAITTPTEESVRRAMAIQMIINREFGMNKTDNPLQGAYIVEELAAIVE 909
                              445558999********************************99999888877775 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   0.00017       0.3      27      41 ..     184     198 ..     175     206 .. 0.87

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00017
                   AAA_29  27 ltGpsGsGKSTllDA 41 
                              +tG+ G+GKS+l+D 
  PHY93_08025|PHY93_08025 184 ITGTGGAGKSSLIDE 198
                              9*************5 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4   0.0   0.00066       1.2      10      57 ..     184     229 ..     180     268 .. 0.84
   2 ?   -1.7   0.0       1.8   3.1e+03      38      70 ..     755     787 ..     737     833 .. 0.73
   3 ?   -3.7   0.0       7.3   1.3e+04      91     117 ..     887     921 ..     838     924 .. 0.62

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.00066
                   AAA_22  10 vtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsstsskdll 57 
                              +tG  G+GK+ l+ +ll ++  + +    r  +++v+++++++s  ll
  PHY93_08025|PHY93_08025 184 ITGTGGAGKSSLIDELLLRF--YRHSPSSRIALISVDPTKKKTSGALL 229
                              89*****************9..33444478888899999999887776 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 1.8
                   AAA_22  38 erpevvfvtlpsstsskdllrellralglelka 70 
                              ++ ++v+++l+ +++  d++++l  ++ ++l+ 
  PHY93_08025|PHY93_08025 755 NGFTFVEYYLSRGMDINDFCQNLSYFFSNGLDP 787
                              56788999999999******9998887766665 PP

  == domain 3  score: -3.7 bits;  conditional E-value: 7.3
                   AAA_22  91 v........ielliiDEaqhlrseealeeLrslln 117
                                       +++ i++E   + +e++l+e+ ++++
  PHY93_08025|PHY93_08025 887 GmnktdnplQGAYIVEELAAIVEEQVLREFENISD 921
                              14444556667778888888545666666665555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1049 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       849  (0.0473534); expected 358.6 (0.02)
Passed bias filter:                      615  (0.034302); expected 358.6 (0.02)
Passed Vit filter:                        71  (0.00396006); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.90u 0.48s 00:00:01.38 Elapsed: 00:00:00.50
# Mc/sec: 6347.46
//
Query:       PHY93_08030|PHY93_08030  [L=187]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.2e-56  188.7   0.0    9.4e-56  188.5   0.0    1.0  1  Cob_adeno_trans  Cobalamin adenosyltransferase
  ------ inclusion threshold ------
      0.076   13.0   0.5         12    6.0   0.0    2.9  3  Pik1             Yeast phosphatidylinositol-4-OH kinase Pik1


Domain annotation for each model (and alignments):
>> Cob_adeno_trans  Cobalamin adenosyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  188.5   0.0     1e-59   9.4e-56       1     163 [.       6     172 ..       6     173 .. 0.91

  Alignments for each domain:
  == domain 1  score: 188.5 bits;  conditional E-value: 1e-59
                              XXXXXXXXXXXXXXXX.XXXTTHHHHHHHHHHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHHHHHHHHHT.-BTCCG-S--.. CS
          Cob_adeno_trans   1 iyTrtGDkGtTslvggervsKddprveayGtvDelnsaiglarallaeeeeelkeaLeeiqneLfdlgaelatpekkkekkkit.. 84 
                              +yTrtGD+GtT+lvgg+r++K+dpr+ +yG+vDelns+igl +++l+++     + L+eiq++Lfdlg++la++++k+e+ k+   
  PHY93_08030|PHY93_08030   6 VYTRTGDEGTTGLVGGTRIKKSDPRIYLYGEVDELNSHIGLGISFLPKD--FDLKFLHEIQSSLFDLGSNLACEKEKREQFKLPqv 89 
                              7******************************************999765..45689****************99555555444421 PP

                              .HHHHHHHHHHHHHHHHHS--EESEEES-SSHHHHHHHHHHHHHHHHHHHHHHHHHHS....HHHHHHHHHHHHHHHHHHHHH CS
          Cob_adeno_trans  85 .eeeveelekeideleaelpplksfilpggspaaaalhvaRtvcRraERavvelaeee...veeevlkylNRLSDlLfvlarv 163
                               +  +e+lekeid++++ lpplk+filpggs +a+a+hv+RtvcR++ER++v++++++   v e+ l+++NRLSD++f+lar+
  PHY93_08030|PHY93_08030  90 kDTLIERLEKEIDQMDSLLPPLKTFILPGGSLEASAFHVCRTVCRKVERQLVDFEDQHpgeVPESGLRFINRLSDYFFILARY 172
                              05569*************************************************99889988899*****************8 PP

>> Pik1  Yeast phosphatidylinositol-4-OH kinase Pik1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.1    0.0095        85       9      32 ..      58      84 ..      57      85 .. 0.75
   2 ?    6.0   0.0    0.0013        12       2      22 ..     124     144 ..     123     151 .. 0.81
   3 ?    0.1   0.0     0.089     8e+02       9      34 ..     157     181 ..     156     182 .. 0.74

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.0095
                             HHHHHHT--SS-SS....----TT--S CS
                     Pik1  9 rvlNklQfilFnlsa...seqkkkkkf 32
                             ++l ++Q+ lF l +    e++k+++f
  PHY93_08030|PHY93_08030 58 KFLHEIQSSLFDLGSnlaCEKEKREQF 84
                             58889*******998555566666666 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.0013
                              -TTHHHHHHHHHHT--SS-SS CS
                     Pik1   2 ygFqvcrrvlNklQfilFnls 22 
                              ++F+vcr v  k+ ++l   +
  PHY93_08030|PHY93_08030 124 SAFHVCRTVCRKVERQLVDFE 144
                              69*******999999987665 PP

  == domain 3  score: 0.1 bits;  conditional E-value: 0.089
                              HHHHHHT--SS-SS.----TT--SS- CS
                     Pik1   9 rvlNklQfilFnlsaseqkkkkkfrE 34 
                              r++N+l    F l     +  kk++E
  PHY93_08030|PHY93_08030 157 RFINRLSDYFFILA-RYANHLKKIEE 181
                              89****99999887.45555666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (187 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       518  (0.0288917); expected 358.6 (0.02)
Passed bias filter:                      466  (0.0259914); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.48s 00:00:00.97 Elapsed: 00:00:00.48
# Mc/sec: 1168.32
//
Query:       PHY93_08035|PHY93_08035  [L=187]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    7.2e-12   45.5   0.3    1.8e-11   44.2   0.1    1.8  2  FHA           FHA domain
      1e-09   38.6   0.0    2.7e-09   37.2   0.0    1.7  1  Yop-YscD_cpl  Inner membrane component of T3SS, cytoplasmic d


Domain annotation for each model (and alignments):
>> FHA  FHA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.2   0.1     2e-15   1.8e-11       1      69 []      22      86 ..      22     106 .. 0.93
   2 ?   -2.0   0.0      0.53   4.8e+03       3      14 ..     105     121 ..     103     142 .. 0.58

  Alignments for each domain:
  == domain 1  score: 44.2 bits;  conditional E-value: 2e-15
                             EEEESSTTSSEETTSTTSTTTEEEEEEETTCEEEEEEEESSSSSEEETTEEESTTSEEEE-TTEEEEET CS
                      FHA  1 vtiGRssdcdivlddpsiSrkHalikfdkgsgkvyleDlgSknGtfvNgqrigkgepveLksgdvielG 69
                             +++GRs+++d+ ldd+++S kH  ++ +++ g++  +Dl+S+nG ++N+++i+k   ++ k  ++++lG
  PHY93_08035|PHY93_08035 22 CIVGRSARSDLKLDDKQMSGKHGMFELNGK-GELIYTDLDSTNGSYLNNSQIQK---IQFKISETLRLG 86
                             68**************************99.9*********************9...777777777776 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.53
                              EESS.....TTSSEETT CS
                      FHA   3 iGRs.....sdcdivld 14 
                              iGR       + ++v++
  PHY93_08035|PHY93_08035 105 IGRGqpednGNETLVIP 121
                              67765555555555555 PP

>> Yop-YscD_cpl  Inner membrane component of T3SS, cytoplasmic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.2   0.0     3e-13   2.7e-09      10      89 ..      12      93 ..       8      96 .. 0.89

  Alignments for each domain:
  == domain 1  score: 37.2 bits;  conditional E-value: 3e-13
                             -EEEE.TTEEEEEES-TT-SEE---TTS-TT-EEEEEE.TTEEEEEE-CESS--EETTEE-SECC--TTSEEEETTEEEEEE CS
             Yop-YscD_cpl 10 aeveL.eegevviGsdedcDivLsDkevsrkhlkLeve.eesvrledlgsrngllvngerveelelrpgdvlelGttelalv 89
                             +e+eL   g++++G++ ++D+ L+Dk++s kh   e++ + ++  +dl+s+ng+++n+ ++++ + +  + l lG+t +++ 
  PHY93_08035|PHY93_08035 12 QEFELpILGKCIVGRSARSDLKLDDKQMSGKHGMFELNgKGELIYTDLDSTNGSYLNNSQIQKIQFKISETLRLGNTMITID 93
                             6788867799****************************55567779******************************998775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (187 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1003  (0.0559429); expected 358.6 (0.02)
Passed bias filter:                      326  (0.0181828); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.34s 00:00:00.86 Elapsed: 00:00:00.46
# Mc/sec: 1225.70
//
Query:       PHY93_08040|PHY93_08040  [L=109]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    7.9e-21   74.3   0.0    8.8e-21   74.2   0.0    1.0  1  Fe-S_biosyn  Iron-sulphur cluster biosynthesis


Domain annotation for each model (and alignments):
>> Fe-S_biosyn  Iron-sulphur cluster biosynthesis
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.2   0.0   4.9e-25   8.8e-21       3     111 .]       6     107 ..       4     107 .. 0.96

  Alignments for each domain:
  == domain 1  score: 74.2 bits;  conditional E-value: 4.9e-25
                              EEE-HHHHHHHHHHHHCTTEC....EEEEEECCTSCCGGS.TT.EEEEEEEEESSTSTTTEEEEEETTEEEEEEGGGHHHS.TTEE CS
              Fe-S_biosyn   3 itlteaAaeklkkllaedkke....lrLdvddgggpyskggCsiggkyslvlvdeedeeydevlesnggkvyvksyslvfldeglv 84 
                              + +te+A +++++   +++k     lrL+v  gg       Cs g +y++++ d++  e d  ++ +++k++++++s+ +l +g++
  PHY93_08040|PHY93_08040   6 VSVTEKALQHIREIYLKEDKGvdmgLRLGVTGGG-------CS-GLSYKIEFSDKK--EKDNIIDFGDIKIFIDPKSSIYL-KGVE 80 
                              579**********9999888889**********9.......**.********9987..99*********************.9*** PP

                              EEEEEETTEEEEEEETCCEEEEEEEEE CS
              Fe-S_biosyn  85 ldfvedlgtlgLksdngilddnvglgk 111
                              ldf+++l++ g+ ++n+++++++g+g+
  PHY93_08040|PHY93_08040  81 LDFKDGLNGKGFVFNNPNANNTCGCGE 107
                              *************************85 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (109 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       386  (0.0215294); expected 358.6 (0.02)
Passed bias filter:                      328  (0.0182944); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.35s 00:00:00.82 Elapsed: 00:00:00.45
# Mc/sec: 735.70
//
Query:       PHY93_08045|PHY93_08045  [L=523]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.6e-21   72.5   3.7    0.00031   20.6   0.1    6.1  5  TPR_2     Tetratricopeptide repeat
    1.9e-19   69.0   1.4      1e-07   31.5   0.0    5.4  6  TPR_11    TPR repeat
      6e-19   67.0   8.2    1.9e-05   24.3   0.1    6.7  7  TPR_1     Tetratricopeptide repeat
    2.7e-15   56.7   0.0    2.9e-06   27.8   0.0    3.1  3  TPR_16    Tetratricopeptide repeat
    1.2e-14   53.2   6.4     0.0091   16.1   0.3    6.4  6  TPR_8     Tetratricopeptide repeat
    3.8e-12   45.7   0.0      0.044   14.2   0.0    5.0  4  TPR_17    Tetratricopeptide repeat
    2.1e-11   44.1   0.5    1.2e-05   25.8   0.0    3.5  3  TPR_19    Tetratricopeptide repeat
    1.5e-10   41.2   1.4    0.00041   20.6   0.0    4.5  4  TPR_12    Tetratricopeptide repeat
    2.4e-10   40.3   0.2      0.047   14.5   0.0    5.1  5  TPR_14    Tetratricopeptide repeat
    1.3e-09   37.3   0.1      0.072   13.2   0.1    5.1  4  TPR_7     Tetratricopeptide repeat
    4.7e-07   29.9   0.1        1.1    9.4   0.0    3.6  3  TPR_9     Tetratricopeptide repeat
      5e-07   29.8   0.1     0.0033   17.6   0.0    2.7  2  ANAPC3    Anaphase-promoting complex, cyclosome, subunit 3
    6.5e-07   29.6   1.4      0.095   13.4   0.4    4.2  3  TPR_6     Tetratricopeptide repeat
    7.6e-05   22.5   0.9          3    7.9   0.0    5.3  5  TPR_10    Tetratricopeptide repeat
    0.00053   19.4   0.0    0.00087   18.7   0.0    1.4  1  GCV_T     Aminomethyltransferase folate-binding domain
  ------ inclusion threshold ------
      0.047   13.4   1.1      0.076   12.7   0.1    1.8  2  TPR_21    Tetratricopeptide repeat-like domain
      0.061   14.0   0.0        5.3    8.0   0.0    2.8  2  TPR_4     Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.6   0.1   2.9e-07   0.00031       2      33 ..     295     326 ..     294     327 .. 0.94
   2 !   12.1   0.0   0.00016      0.17       1      33 [.     328     360 ..     328     361 .. 0.93
   3 ?    5.3   0.0     0.024        26       3      22 ..     364     383 ..     362     384 .. 0.89
   4 !   14.6   0.0   2.4e-05     0.026       3      31 ..     437     465 ..     435     468 .. 0.90
   5 !   15.4   0.2   1.3e-05     0.014       3      30 ..     471     498 ..     469     501 .. 0.90

  Alignments for each domain:
  == domain 1  score: 20.6 bits;  conditional E-value: 2.9e-07
                    TPR_2   2 ealynlGlayyklgdyeeAleafekAleldPn 33 
                                ly lG   ++++++++Ale++++Al+ dP 
  PHY93_08045|PHY93_08045 295 LELYHLGVENFQSNNLADALECLKRALSFDPS 326
                              679***************************96 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 0.00016
                    TPR_2   1 aealynlGlayyklgdyeeAleafekAleldPn 33 
                              a+a+  lG  + +  +++eA+e+++k l   P+
  PHY93_08045|PHY93_08045 328 ADAYESLGVMLGREEKFQEAIEWMDKLLIVSPQ 360
                              789999*********************998886 PP

  == domain 3  score: 5.3 bits;  conditional E-value: 0.024
                    TPR_2   3 alynlGlayyklgdyeeAle 22 
                              a+ n  l +++lg+ eeA++
  PHY93_08045|PHY93_08045 364 AHTNKSLYLMRLGKIEEAEA 383
                              788999************85 PP

  == domain 4  score: 14.6 bits;  conditional E-value: 2.4e-05
                    TPR_2   3 alynlGlayyklgdyeeAleafekAleld 31 
                              aly +G++ ++++d++ A++ +ek++  d
  PHY93_08045|PHY93_08045 437 ALYGMGDIFFQRKDFQSAIKNLEKVIVVD 465
                              89**********************98655 PP

  == domain 5  score: 15.4 bits;  conditional E-value: 1.3e-05
                    TPR_2   3 alynlGlayyklgdyeeAleafekAlel 30 
                              a+  lG+ay++ gd e+A+  +++ + l
  PHY93_08045|PHY93_08045 471 AYLLLGKAYEAEGDIEKARSVYQAGIIL 498
                              8999*******************98877 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.0      0.78   8.2e+02      28      39 ..     198     209 ..     194     209 .. 0.80
   2 !   29.1   0.0   5.6e-10     6e-07       5      36 ..     305     336 ..     301     341 .. 0.92
   3 ?    0.4   0.0       0.5   5.3e+02       9      33 ..     343     367 ..     339     376 .. 0.84
   4 !    6.0   0.0    0.0091       9.5      18      40 ..     425     447 ..     424     447 .. 0.92
   5 !   31.5   0.0   9.5e-11     1e-07       1      42 []     442     483 ..     442     483 .. 0.96
   6 ?    0.5   0.0      0.47     5e+02       7      21 ..     482     496 ..     481     498 .. 0.87

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.78
                   TPR_11  28 aeayynLGlayy 39 
                              a + +n+G+ayy
  PHY93_08045|PHY93_08045 198 AKIENNRGAAYY 209
                              66678******9 PP

  == domain 2  score: 29.1 bits;  conditional E-value: 5.6e-10
                   TPR_11   5 yeqGkyeeAieaYkkAlkldPdnaeayynLGl 36 
                              ++ +++ +A+e++k+Al +dP++a+ay  LG+
  PHY93_08045|PHY93_08045 305 FQSNNLADALECLKRALSFDPSFADAYESLGV 336
                              899****************************7 PP

  == domain 3  score: 0.4 bits;  conditional E-value: 0.5
                   TPR_11   9 kyeeAieaYkkAlkldPdnaeayyn 33 
                              k+ eAie+  k l  +P+++ a+ n
  PHY93_08045|PHY93_08045 343 KFQEAIEWMDKLLIVSPQSVMAHTN 367
                              899****999999999999999987 PP

  == domain 4  score: 6.0 bits;  conditional E-value: 0.0091
                   TPR_11  18 kkAlkldPdnaeayynLGlayyk 40 
                               + l++d+++  a+y++G+++++
  PHY93_08045|PHY93_08045 425 LQVLEIDEEDTIALYGMGDIFFQ 447
                              589****************9986 PP

  == domain 5  score: 31.5 bits;  conditional E-value: 9.5e-11
                   TPR_11   1 GdayyeqGkyeeAieaYkkAlkldPdnaeayynLGlayykqG 42 
                              Gd+++++ ++  Ai++++k +  d+++ +ay+ LG+ay + G
  PHY93_08045|PHY93_08045 442 GDIFFQRKDFQSAIKNLEKVIVVDSKYSTAYLLLGKAYEAEG 483
                              9*************************************9765 PP

  == domain 6  score: 0.5 bits;  conditional E-value: 0.47
                   TPR_11   7 qGkyeeAieaYkkAl 21 
                               G++e+A  +Y++ +
  PHY93_08045|PHY93_08045 482 EGDIEKARSVYQAGI 496
                              79*********9865 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.3      0.25   2.6e+02       1      12 [.     198     209 ..     198     209 .. 0.89
   2 !   24.3   0.1   1.8e-08   1.9e-05       2      34 .]     295     327 ..     294     327 .. 0.94
   3 !    8.3   0.0     0.002       2.1       1      22 [.     328     349 ..     328     359 .. 0.94
   4 ?    0.4   0.0      0.63   6.6e+02      11      21 ..     372     382 ..     363     383 .. 0.80
   5 ?   -1.9   0.0       3.2   3.4e+03      22      33 ..     422     433 ..     421     434 .. 0.81
   6 !   19.3   0.0   6.5e-07   0.00069       3      33 ..     437     467 ..     435     468 .. 0.93
   7 !   10.8   0.1   0.00033      0.35       3      28 ..     471     496 ..     469     501 .. 0.87

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.25
                              HHHHHHHHHHHH CS
                    TPR_1   1 akalynlGnayf 12 
                              ak+ +n+G+ay+
  PHY93_08045|PHY93_08045 198 AKIENNRGAAYY 209
                              6888*******7 PP

  == domain 2  score: 24.3 bits;  conditional E-value: 1.8e-08
                              HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTH CS
                    TPR_1   2 kalynlGnayfklgkydeAleyyekALelnPnn 34 
                                ly lG+  f+ +++ +Ale+ ++AL+ +P++
  PHY93_08045|PHY93_08045 295 LELYHLGVENFQSNNLADALECLKRALSFDPSF 327
                              569****************************96 PP

  == domain 3  score: 8.3 bits;  conditional E-value: 0.002
                              HHHHHHHHHHHHHTT-HHHHHH CS
                    TPR_1   1 akalynlGnayfklgkydeAle 22 
                              a+a+  lG+++ + +k++eA+e
  PHY93_08045|PHY93_08045 328 ADAYESLGVMLGREEKFQEAIE 349
                              899******************9 PP

  == domain 4  score: 0.4 bits;  conditional E-value: 0.63
                              HHHTT-HHHHH CS
                    TPR_1  11 yfklgkydeAl 21 
                              +++lgk +eA+
  PHY93_08045|PHY93_08045 372 LMRLGKIEEAE 382
                              789*******7 PP

  == domain 5  score: -1.9 bits;  conditional E-value: 3.2
                              HHHHHHHHHSTT CS
                    TPR_1  22 eyyekALelnPn 33 
                              + + ++Le++++
  PHY93_08045|PHY93_08045 422 KMFLQVLEIDEE 433
                              67899*****87 PP

  == domain 6  score: 19.3 bits;  conditional E-value: 6.5e-07
                              HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT CS
                    TPR_1   3 alynlGnayfklgkydeAleyyekALelnPn 33 
                              aly++G ++f+ ++++ A++  ek++ ++ +
  PHY93_08045|PHY93_08045 437 ALYGMGDIFFQRKDFQSAIKNLEKVIVVDSK 467
                              9*************************99876 PP

  == domain 7  score: 10.8 bits;  conditional E-value: 0.00033
                              HHHHHHHHHHHTT-HHHHHHHHHHHH CS
                    TPR_1   3 alynlGnayfklgkydeAleyyekAL 28 
                              a+  lG ay   g+ ++A   y+  +
  PHY93_08045|PHY93_08045 471 AYLLLGKAYEAEGDIEKARSVYQAGI 496
                              999***************99998766 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.6   0.0   2.8e-08     3e-05       8      67 ..     305     361 ..     298     362 .. 0.94
   2 ?    2.1   0.0      0.29   3.1e+02      30      55 ..     358     383 ..     354     391 .. 0.86
   3 !   27.8   0.0   2.8e-09   2.9e-06       1      59 [.     439     494 ..     439     501 .. 0.94

  Alignments for each domain:
  == domain 1  score: 24.6 bits;  conditional E-value: 2.8e-08
                   TPR_16   8 lragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraalraapda 67 
                              +++++ +dA++ l++al  d   P  a+A+  lg+++ r   ++eA+++ +++l  +p++
  PHY93_08045|PHY93_08045 305 FQSNNLADALECLKRALSFD---PSFADAYESLGVMLGREEKFQEAIEWMDKLLIVSPQS 361
                              799*****************...******************************9998885 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.29
                   TPR_16  30 sPdaaeAllllgdaalrqgrlaeAaa 55 
                              sP+ + A+ ++ + + r+g  +eA+a
  PHY93_08045|PHY93_08045 358 SPQSVMAHTNKSLYLMRLGKIEEAEA 383
                              68999999999999999999999984 PP

  == domain 3  score: 27.8 bits;  conditional E-value: 2.8e-09
                   TPR_16   1 lalaraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyra 59 
                              + +++++++++d++ A++ le ++  d   +    A+lllg a+ + g+ ++A+ +y+a
  PHY93_08045|PHY93_08045 439 YGMGDIFFQRKDFQSAIKNLEKVIVVD---SKYSTAYLLLGKAYEAEGDIEKARSVYQA 494
                              6689***********************...*************************9998 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.1   0.0   0.00037      0.39       4      33 ..     297     326 ..     297     327 .. 0.94
   2 !    6.9   0.0    0.0081       8.6       1      28 [.     328     355 ..     328     361 .. 0.89
   3 ?    4.3   0.1     0.055        57       4      22 ..     365     383 ..     364     384 .. 0.86
   4 ?   -0.5   0.0       1.9     2e+03      21      33 ..     421     433 ..     419     434 .. 0.85
   5 !   11.7   0.0   0.00022      0.23       3      28 ..     437     462 ..     436     468 .. 0.91
   6 !   16.1   0.3   8.6e-06    0.0091       2      27 ..     470     495 ..     469     501 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00037
                              HHHHHHHHHHTT-HHHHHHHHHHHHHHHHH CS
                    TPR_8   4 yynlgsiylklgdyeeAkeyyekaleldpd 33 
                              +y+lg   ++ +++  A e++++al+ dp+
  PHY93_08045|PHY93_08045 297 LYHLGVENFQSNNLADALECLKRALSFDPS 326
                              69999***********************96 PP

  == domain 2  score: 6.9 bits;  conditional E-value: 0.0081
                              CCHHHHHHHHHHHTT-HHHHHHHHHHHH CS
                    TPR_8   1 aeayynlgsiylklgdyeeAkeyyekal 28 
                              a+ay  lg  +   ++++eA+e++ k l
  PHY93_08045|PHY93_08045 328 ADAYESLGVMLGREEKFQEAIEWMDKLL 355
                              68999*******************9987 PP

  == domain 3  score: 4.3 bits;  conditional E-value: 0.055
                              HHHHHHHHHHTT-HHHHHH CS
                    TPR_8   4 yynlgsiylklgdyeeAke 22 
                              + n+++ ++ lg++eeA++
  PHY93_08045|PHY93_08045 365 HTNKSLYLMRLGKIEEAEA 383
                              67889999*********86 PP

  == domain 4  score: -0.5 bits;  conditional E-value: 1.9
                              HHHHHHHHHHHHH CS
                    TPR_8  21 keyyekaleldpd 33 
                              ++ + ++le+d++
  PHY93_08045|PHY93_08045 421 EKMFLQVLEIDEE 433
                              5889*******97 PP

  == domain 5  score: 11.7 bits;  conditional E-value: 0.00022
                              HHHHHHHHHHHTT-HHHHHHHHHHHH CS
                    TPR_8   3 ayynlgsiylklgdyeeAkeyyekal 28 
                              a+y +g+i ++ +d+++A++ +ek++
  PHY93_08045|PHY93_08045 437 ALYGMGDIFFQRKDFQSAIKNLEKVI 462
                              6899********************98 PP

  == domain 6  score: 16.1 bits;  conditional E-value: 8.6e-06
                              CHHHHHHHHHHHTT-HHHHHHHHHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeAkeyyeka 27 
                               ay++lg++y+  gd+e+A ++y+  
  PHY93_08045|PHY93_08045 470 TAYLLLGKAYEAEGDIEKARSVYQAG 495
                              59*********************875 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.2   0.0   4.2e-05     0.044       1      34 []     316     349 ..     316     349 .. 0.94
   2 ?    5.5   0.0     0.024        26       4      33 ..     353     382 ..     351     383 .. 0.90
   3 ?    6.5   0.0     0.012        13       1      33 [.     423     455 ..     423     456 .. 0.94
   4 !   13.4   0.0   7.4e-05     0.078       3      33 ..     459     489 ..     457     490 .. 0.94

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 4.2e-05
                   TPR_17   1 lylkaleldPnnadaynnLAelllknGdlmtArq 34 
                              ++++al  dP+ aday  L++ l +  ++++A++
  PHY93_08045|PHY93_08045 316 CLKRALSFDPSFADAYESLGVMLGREEKFQEAIE 349
                              689*********************9999999986 PP

  == domain 2  score: 5.5 bits;  conditional E-value: 0.024
                   TPR_17   4 kaleldPnnadaynnLAelllknGdlmtAr 33 
                              k l   P ++ a++n+  +l ++G+ ++A+
  PHY93_08045|PHY93_08045 353 KLLIVSPQSVMAHTNKSLYLMRLGKIEEAE 382
                              667779**********************98 PP

  == domain 3  score: 6.5 bits;  conditional E-value: 0.012
                   TPR_17   1 lylkaleldPnnadaynnLAelllknGdlmtAr 33 
                              ++l++le+d  +  a++ ++ ++ +++d++ A+
  PHY93_08045|PHY93_08045 423 MFLQVLEIDEEDTIALYGMGDIFFQRKDFQSAI 455
                              589*************************99997 PP

  == domain 4  score: 13.4 bits;  conditional E-value: 7.4e-05
                   TPR_17   3 lkaleldPnnadaynnLAelllknGdlmtAr 33 
                              +k++  d +++ ay +L+++++  Gd ++Ar
  PHY93_08045|PHY93_08045 459 EKVIVVDSKYSTAYLLLGKAYEAEGDIEKAR 489
                              8999*************************98 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.6   0.0   0.00014      0.15       3      57 ..     306     360 ..     304     364 .. 0.90
   2 ?    6.3   0.0     0.013        14       4      46 ..     341     383 ..     338     386 .. 0.94
   3 !   25.8   0.0   1.1e-08   1.2e-05       2      50 ..     446     494 ..     445     498 .. 0.94

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 0.00014
                   TPR_19   3 aegdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeedpd 57 
                              +++++a+Al+ l++al+ dp  a+a   L   l     ++eA++ +d+l+   p+
  PHY93_08045|PHY93_08045 306 QSNNLADALECLKRALSFDPSFADAYESLGVMLGREEKFQEAIEWMDKLLIVSPQ 360
                              78899*****************************************999877666 PP

  == domain 2  score: 6.3 bits;  conditional E-value: 0.013
                   TPR_19   4 egdyaeAlalleqalqedpknaearllLAeallalgqldeAea 46 
                              e++++eA++ + ++l  +p++  a  +    l+ lg ++eAea
  PHY93_08045|PHY93_08045 341 EEKFQEAIEWMDKLLIVSPQSVMAHTNKSLYLMRLGKIEEAEA 383
                              689************************9*************97 PP

  == domain 3  score: 25.8 bits;  conditional E-value: 1.1e-08
                   TPR_19   2 laegdyaeAlalleqalqedpknaearllLAeallalgqldeAealLda 50 
                              ++++d+++A++ le+++  d k++ a llL +a+ a g++++A+ + +a
  PHY93_08045|PHY93_08045 446 FQRKDFQSAIKNLEKVIVVDSKYSTAYLLLGKAYEAEGDIEKARSVYQA 494
                              7899****************************************98765 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.3   0.0    0.0055       5.8      48      74 ..     297     323 ..     292     326 .. 0.88
   2 !    8.7   0.0    0.0019         2       3      52 ..     328     376 ..     326     388 .. 0.69
   3 !    8.8   0.0    0.0019         2      46      71 ..     436     461 ..     422     465 .. 0.69
   4 !   20.6   0.0   3.9e-07   0.00041       4      69 ..     436     493 ..     433     496 .. 0.87

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0055
                   TPR_12  48 lrnLgrlyralgryeeAlelleealai 74 
                              l+ Lg   ++++++++Ale l++al  
  PHY93_08045|PHY93_08045 297 LYHLGVENFQSNNLADALECLKRALSF 323
                              57899999999************9975 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 0.0019
                   TPR_12   3 atalnnlaavlrrlgrydeAlellekaleia.rrllGpdhpltattlrnLg 52 
                              a a+  l+++l r ++++eA+e+ +k l +  +++    h + + +l  Lg
  PHY93_08045|PHY93_08045 328 ADAYESLGVMLGREEKFQEAIEWMDKLLIVSpQSVM--AHTNKSLYLMRLG 376
                              677877999999999999999999998877755552..2444555555555 PP

  == domain 3  score: 8.8 bits;  conditional E-value: 0.0019
                   TPR_12  46 ttlrnLgrlyralgryeeAlelleea 71 
                              ++l+++g++++++++++ A++ le++
  PHY93_08045|PHY93_08045 436 IALYGMGDIFFQRKDFQSAIKNLEKV 461
                              45666666666666666666666664 PP

  == domain 4  score: 20.6 bits;  conditional E-value: 3.9e-07
                   TPR_12   4 talnnlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelle 69 
                              +al+ ++++ +++++++ A+++lek++ +        +  ++t++  Lg +y+a g+ e+A++ ++
  PHY93_08045|PHY93_08045 436 IALYGMGDIFFQRKDFQSAIKNLEKVIVVD-------S-KYSTAYLLLGKAYEAEGDIEKARSVYQ 493
                              46669*********************4444.......3.4789*******************9998 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.5   0.0   4.5e-05     0.047       7      42 ..     300     335 ..     294     340 .. 0.85
   2 ?    0.9   0.0       1.1   1.1e+03      13      39 ..     340     366 ..     334     370 .. 0.85
   3 ?   -0.6   0.0       3.1   3.3e+03      10      22 ..     371     383 ..     369     389 .. 0.86
   4 !   11.0   0.0    0.0006      0.63       3      43 ..     437     477 ..     435     478 .. 0.95
   5 !   12.4   0.1   0.00021      0.22       3      28 ..     471     496 ..     469     506 .. 0.92

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 4.5e-05
                   TPR_14   7 laeallalGdpdeAiallrralalaPddaeawllla 42 
                              l+   +++ ++++A+++l+ral+ +P++a+a+  l+
  PHY93_08045|PHY93_08045 300 LGVENFQSNNLADALECLKRALSFDPSFADAYESLG 335
                              555567899*********************997765 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 1.1
                   TPR_14  13 alGdpdeAiallrralalaPddaeawl 39 
                              + ++++eAi+  +++l   P++  a++
  PHY93_08045|PHY93_08045 340 REEKFQEAIEWMDKLLIVSPQSVMAHT 366
                              56789***********99999999986 PP

  == domain 3  score: -0.6 bits;  conditional E-value: 3.1
                   TPR_14  10 allalGdpdeAia 22 
                              +l++lG+ +eA+a
  PHY93_08045|PHY93_08045 371 YLMRLGKIEEAEA 383
                              6899**9999986 PP

  == domain 4  score: 11.0 bits;  conditional E-value: 0.0006
                   TPR_14   3 allalaeallalGdpdeAiallrralalaPddaeawlllaq 43 
                              al+ ++++++++ d++ Ai+ l++++  + +  +a+lll++
  PHY93_08045|PHY93_08045 437 ALYGMGDIFFQRKDFQSAIKNLEKVIVVDSKYSTAYLLLGK 477
                              78999**********************************97 PP

  == domain 5  score: 12.4 bits;  conditional E-value: 0.00021
                   TPR_14   3 allalaeallalGdpdeAiallrral 28 
                              a+l+l++a++a Gd ++A+ ++++ +
  PHY93_08045|PHY93_08045 471 AYLLLGKAYEAEGDIEKARSVYQAGI 496
                              89********************9976 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.0     0.032        33      11      31 ..     306     326 ..     305     331 .. 0.77
   2 ?    4.5   0.0     0.041        43       1      24 [.     330     353 ..     330     362 .. 0.84
   3 !    8.3   0.0    0.0024       2.5       1      29 [.     437     463 ..     437     467 .. 0.87
   4 !   13.2   0.1   6.8e-05     0.072       1      24 [.     471     494 ..     471     504 .. 0.92

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.032
                    TPR_7  11 rlGdyeeAielyeqsLaltkd 31 
                              + ++ ++A+e+++++L ++ +
  PHY93_08045|PHY93_08045 306 QSNNLADALECLKRALSFDPS 326
                              578999********7766554 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.041
                    TPR_7   1 aLlnLarlysrlGdyeeAielyeq 24 
                              a+  L+++  r+ +++eAie   +
  PHY93_08045|PHY93_08045 330 AYESLGVMLGREEKFQEAIEWMDK 353
                              6789***************98777 PP

  == domain 3  score: 8.3 bits;  conditional E-value: 0.0024
                    TPR_7   1 aLlnLarlysrlGdyeeAielyeqsLalt 29 
                              aL+ ++++++++ d++ Ai+ +e+  ++ 
  PHY93_08045|PHY93_08045 437 ALYGMGDIFFQRKDFQSAIKNLEK--VIV 463
                              7999*******************9..443 PP

  == domain 4  score: 13.2 bits;  conditional E-value: 6.8e-05
                    TPR_7   1 aLlnLarlysrlGdyeeAielyeq 24 
                              a+l L+ +y+++Gd e+A ++y++
  PHY93_08045|PHY93_08045 471 AYLLLGKAYEAEGDIEKARSVYQA 494
                              799*******************98 PP

>> TPR_9  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.4   0.0    0.0022       2.3      27      66 ..     292     331 ..     289     333 .. 0.88
   2 !    9.4   0.0    0.0011       1.1       7      49 ..     340     382 ..     334     384 .. 0.93
   3 !    7.6   0.0    0.0038         4       4      60 ..     444     500 ..     419     515 .. 0.77

  Alignments for each domain:
  == domain 1  score: 8.4 bits;  conditional E-value: 0.0022
                    TPR_9  27 ddpeerrdRGlllaqlGclsaAladLeaylalapdapdae 66 
                              + + e++  G+ ++q+++l+ Al++L ++l+ +p+ +da+
  PHY93_08045|PHY93_08045 292 EMALELYHLGVENFQSNNLADALECLKRALSFDPSFADAY 331
                              5678889999999*********************888875 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.0011
                    TPR_9   7 reedweralavverllllaPddpeerrdRGlllaqlGclsaAl 49 
                              ree++++a++  + ll++ P+++  +    l l++lG +++A 
  PHY93_08045|PHY93_08045 340 REEKFQEAIEWMDKLLIVSPQSVMAHTNKSLYLMRLGKIEEAE 382
                              89*************************************9995 PP

  == domain 3  score: 7.6 bits;  conditional E-value: 0.0038
                    TPR_9   4 iaireedweralavverllllaPddpeerrdRGlllaqlGclsaAladLeaylalap 60 
                              i  +++d++ a++ +e +++++++    ++  G +++  G++++A+   +a + la 
  PHY93_08045|PHY93_08045 444 IFFQRKDFQSAIKNLEKVIVVDSKYSTAYLLLGKAYEAEGDIEKARSVYQAGIILAS 500
                              456788888888888888888888888888888888888888888877766665555 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.0   3.1e-06    0.0033       2      77 ..     307     383 ..     306     384 .. 0.93
   2 !    9.4   0.0    0.0011       1.2      23      80 ..     435     493 ..     411     495 .. 0.68

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 3.1e-06
                              TT-HHHHHHHHHHHH.HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-HHHHHHHHHHHHHTT-HHHHHH CS
                   ANAPC3   2 qnnyknAiflaerllaaetespedayllAlclylngqykrAyellrka.klnskslgcrylfAqcllkLkkyeeAia 77 
                               nn+ +A+ ++ r+l+ ++  +++   l+  l + +++++A+e+ +k+    ++s  ++  +   l  L+k+eeA+a
  PHY93_08045|PHY93_08045 307 SNNLADALECLKRALSFDPSFADAYESLGVMLGREEKFQEAIEWMDKLlIVSPQSVMAHTNKSLYLMRLGKIEEAEA 383
                              6899***********888888888888*********************999************************86 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.0011
                              HHHHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-HHHHHHHHHHHHHTT-HHHHHHHH- CS
                   ANAPC3  23 pedayllAlclylngqykrAyellrka.klnskslgcrylfAqcllkLkkyeeAiaaLe 80 
                                ++y  +  +++++++++A++ l+k    +sk   + +l+++++ + + +e+A+++++
  PHY93_08045|PHY93_08045 435 TIALYGMGDIFFQRKDFQSAIKNLEKViVVDSKYSTAYLLLGKAYEAEGDIEKARSVYQ 493
                              33444458888888888888888888866666666777777777777777777777765 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.0      0.44   4.6e+02       3      28 ..     297     322 ..     297     326 .. 0.81
   2 !    9.9   0.0    0.0012       1.3       2      27 ..     437     462 ..     436     463 .. 0.96
   3 !   13.4   0.4     9e-05     0.095       2      24 ..     471     493 ..     470     494 .. 0.94

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.44
                              HHHHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   3 lyklalsyrklgdtdkAlealerlik 28 
                              ly+l+   ++ ++ ++Ale l+r ++
  PHY93_08045|PHY93_08045 297 LYHLGVENFQSNNLADALECLKRALS 322
                              788997777756**********9875 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 0.0012
                              HHHHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   2 AlyklalsyrklgdtdkAlealerli 27 
                              Aly ++  +++ +d + A++ le++i
  PHY93_08045|PHY93_08045 437 ALYGMGDIFFQRKDFQSAIKNLEKVI 462
                              9**********99***********98 PP

  == domain 3  score: 13.4 bits;  conditional E-value: 9e-05
                              HHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   2 AlyklalsyrklgdtdkAleale 24 
                              A+++l+++y++ gd +kA+  ++
  PHY93_08045|PHY93_08045 471 AYLLLGKAYEAEGDIEKARSVYQ 493
                              99*********99********99 PP

>> TPR_10  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   0.0     0.055        58       7      30 ..     299     322 ..     297     323 .. 0.86
   2 !    7.9   0.0    0.0028         3       2      29 ..     328     355 ..     327     358 .. 0.91
   3 ?    0.7   0.0      0.52   5.5e+02       9      23 ..     369     383 ..     366     389 .. 0.84
   4 ?    0.4   0.0      0.63   6.6e+02      11      29 ..     444     462 ..     437     464 .. 0.85
   5 ?    2.0   0.2      0.19     2e+02      11      33 ..     471     493 ..     468     495 .. 0.82

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.055
                   TPR_10   7 NLanalrqrgrydeAealleeala 30 
                              +L++  +q +++++A++ l++al+
  PHY93_08045|PHY93_08045 299 HLGVENFQSNNLADALECLKRALS 322
                              688888999************996 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.0028
                   TPR_10   2 AsslnNLanalrqrgrydeAealleeal 29 
                              A ++  L+++l +  +++eA +++++ l
  PHY93_08045|PHY93_08045 328 ADAYESLGVMLGREEKFQEAIEWMDKLL 355
                              8899*******************99876 PP

  == domain 3  score: 0.7 bits;  conditional E-value: 0.52
                   TPR_10   9 analrqrgrydeAea 23 
                              + +l ++g+ +eAea
  PHY93_08045|PHY93_08045 369 SLYLMRLGKIEEAEA 383
                              678999*******97 PP

  == domain 4  score: 0.4 bits;  conditional E-value: 0.63
                   TPR_10  11 alrqrgrydeAealleeal 29 
                              + +qr++++ A + le+++
  PHY93_08045|PHY93_08045 444 IFFQRKDFQSAIKNLEKVI 462
                              6689************997 PP

  == domain 5  score: 2.0 bits;  conditional E-value: 0.19
                   TPR_10  11 alrqrgrydeAealleealairr 33 
                              a+  +g+  eAe + e+a ++++
  PHY93_08045|PHY93_08045 471 AYLLLGKAYEAEGDIEKARSVYQ 493
                              77778888999999999999987 PP

>> GCV_T  Aminomethyltransferase folate-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   0.0   8.3e-07   0.00087      51     139 ..      21     106 ..       8     166 .. 0.82

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 8.3e-07
                    GCV_T  51 ievsGpdaaalLqrlltndisklkpgkatytlllnedGgvidDlivarldedefllvvnaankekdlawlekaaekkdldvevedv 136
                              i+v G d+++++q  +tnd+s+l+ +++++t+ ln  G   + +++a+l+e  ++l+++    e +   +ek +   + dv +e+v
  PHY93_08045|PHY93_08045  21 IKVAGADRESFFQGQVTNDLSSLPINEGQLTARLNRLGKLQSFFFIAKLNE-CLFLLCPKILVESIKMDFEKFII--MDDVVLESV 103
                              78************************************************6.55555555555555555566566..666666666 PP

                    GCV_T 137 tee 139
                              +++
  PHY93_08045|PHY93_08045 104 DSD 106
                              665 PP

>> TPR_21  Tetratricopeptide repeat-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0       5.6     6e+03      86     104 ..     304     322 ..     291     347 .. 0.69
   2 ?   12.7   0.1   7.2e-05     0.076     113     190 ..     435     517 ..     422     520 .. 0.78

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 5.6
                   TPR_21  86 aveagdlaaAkaqLewvle 104
                              ++++++la+A + L+++l+
  PHY93_08045|PHY93_08045 304 NFQSNNLADALECLKRALS 322
                              5556666666666655543 PP

  == domain 2  score: 12.7 bits;  conditional E-value: 7.2e-05
                   TPR_21 113 alarlRLarvllaekkydeAlktLeak..keeafaalvaelrGDilvaqgkldeAraaYqaAlaaleeka....rellqlKldd 190
                              ++a   +  + ++ k+++ A+k Le++   +++++ ++  l G ++ a+g++++Ar+ Yqa++   +++      + +q +l++
  PHY93_08045|PHY93_08045 435 TIALYGMGDIFFQRKDFQSAIKNLEKVivVDSKYSTAYL-LLGKAYEAEGDIEKARSVYQAGIILASKRGdmmpANEMQSRLNQ 517
                              677777888999************996326788888887.77*******************98665555445555555555555 PP

>> TPR_4  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.0      0.21   2.2e+02       3      22 ..     364     383 ..     362     384 .. 0.86
   2 ?    8.0   0.0    0.0051       5.3       3      24 ..     471     492 ..     469     494 .. 0.90

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.21
                    TPR_4   3 allaLArallalGdldeAra 22 
                              a+ +    l +lG  +eA+a
  PHY93_08045|PHY93_08045 364 AHTNKSLYLMRLGKIEEAEA 383
                              7788888999********98 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.0051
                    TPR_4   3 allaLArallalGdldeArall 24 
                              a+l+L+ a+ a Gd + Ar + 
  PHY93_08045|PHY93_08045 471 AYLLLGKAYEAEGDIEKARSVY 492
                              789****************876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (523 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       801  (0.0446762); expected 358.6 (0.02)
Passed bias filter:                      539  (0.030063); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              17  [number of targets reported over threshold]
# CPU time: 0.72u 0.43s 00:00:01.14 Elapsed: 00:00:00.53
# Mc/sec: 2977.12
//
Query:       PHY93_08050|PHY93_08050  [L=123]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (123 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       187  (0.01043); expected 358.6 (0.02)
Passed bias filter:                      134  (0.00747392); expected 358.6 (0.02)
Passed Vit filter:                         3  (0.000167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.28s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 820.88
//
Query:       PHY93_21285|PHY93_21285  [L=57]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (57 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       167  (0.00931452); expected 358.6 (0.02)
Passed bias filter:                      103  (0.00574488); expected 358.6 (0.02)
Passed Vit filter:                         6  (0.000334653); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.27s 00:00:00.70 Elapsed: 00:00:00.44
# Mc/sec: 389.16
//
Query:       PHY93_18270|PHY93_18270  [L=240]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.073   13.7   1.4       0.72   10.5   1.4    2.3  1  NEAT      Iron Transport-associated domain


Domain annotation for each model (and alignments):
>> NEAT  Iron Transport-associated domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   1.4     4e-05      0.72      32     106 ..      64     229 ..      60     239 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 4e-05
                              SEEEEEETTEEEEEEEEESGGGEEEEEEEETT.TE............EEEEEEEEEET............................ CS
                     NEAT  32 paklevknGkyyvtltlknsdwiknfkvekvn.Gy............kvkttvvseda............................ 76 
                              + ++ vk+Gk  v+lt  ++++++ f        y            k                                      
  PHY93_18270|PHY93_18270  64 KSTVSVKDGKISVSLTAMKNQMGMGFCADV-IvPYieyvniglldkgK---------Yqiavnekstwekksnitiseasssside 139
                              5799******************99995533.35776556666666442.........03333333456666777777777888888 PP

                              ...........................................................TTT.EEEEEEEESTTTSEEEEEEEEEE CS
                     NEAT  77 ...........................................................gkd.trvvkfevedldkklkvkvhvfv 102
                                                                                         +k  + +++fev+++ +  kv +hv v
  PHY93_18270|PHY93_18270 140 tiyanvdeivrgdegsrkvalkgynpsdcfelkeiiivdngvdtysvlpkmkqvktfcpKKMiPFTYEFEVPEKLEAEKVLLHVRV 225
                              88888888888888999999999999999999999999999999999999999999998666799999999999999999999999 PP

                              CCCC CS
                     NEAT 103 pign 106
                              ++g+
  PHY93_18270|PHY93_18270 226 MDGR 229
                              8876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (240 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       544  (0.0303419); expected 358.6 (0.02)
Passed bias filter:                      422  (0.0235373); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.58u 0.33s 00:00:00.90 Elapsed: 00:00:00.48
# Mc/sec: 1510.91
//
Query:       PHY93_18275|PHY93_18275  [L=289]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
      0.031   14.9   0.0      0.055   14.1   0.0    1.3  1  Nucleos_tra2_N  Na+ dependent nucleoside transporter N-termin
      0.086   12.6   0.0       0.17   11.6   0.0    1.4  1  Peptidase_M48   Peptidase family M48


Domain annotation for each model (and alignments):
>> Nucleos_tra2_N  Na+ dependent nucleoside transporter N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   6.2e-06     0.055      12      45 ..     187     220 ..     184     234 .. 0.92

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 6.2e-06
                              HT-S-GGG--HHHHHHHHHHHHHHHHHHHTSHHH CS
           Nucleos_tra2_N  12 llSenrkainwrtVigglllQfvlAlfvlktpag 45 
                              +lS+ r +i  r+V++gl++  v+A ++  tpa+
  PHY93_18275|PHY93_18275 187 ALSKCRDNICARIVLSGLAVSQVFASLINGTPAP 220
                              69***************************99987 PP

>> Peptidase_M48  Peptidase family M48
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   1.9e-05      0.17      30      77 ..      78     131 ..      53     135 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 1.9e-05
                              E-....GGGT-EEEEESSS-E.EEEEEHHHH.-SSB-HHHHHHHHHHHHHHHHT CS
                              xx....xxxxxxxxxxxxxxx.xxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48  30 vn....spkrNAFalgggknk.rivltdgLl.kqllseeelaaVlGHElGHikh 77 
                              ++    +p+++AFa+   +n+  iv++ gL  +  ++++  +    HElGH+  
  PHY93_18275|PHY93_18275  78 IDrkwaDPTVDAFATRDDANNpVIVMNGGLArHPQMTKDGFLLLVCHELGHHLG 131
                              5444447888***********888888888844578999999999******975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (289 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       378  (0.0210832); expected 358.6 (0.02)
Passed bias filter:                      365  (0.0203581); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.39s 00:00:00.96 Elapsed: 00:00:00.48
# Mc/sec: 1809.84
//
Query:       PHY93_18280|PHY93_18280  [L=217]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      8e-22   76.6   0.1    1.1e-21   76.1   0.1    1.2  1  DUF374    Domain of unknown function (DUF374)
  ------ inclusion threshold ------
       0.13   12.4   0.1       0.38   10.9   0.1    1.7  2  LPD38     Large polyvalent protein associated domain 38


Domain annotation for each model (and alignments):
>> DUF374  Domain of unknown function (DUF374)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.1   0.1   1.3e-25   1.1e-21       5      69 .]      61     125 ..      57     125 .. 0.95

  Alignments for each domain:
  == domain 1  score: 76.1 bits;  conditional E-value: 1.3e-25
                   DUF374   5 kkklaaliSrsrDGeliarvlerlGiktirGSsskggaealremlralkegesvaitpDgPrGPr 69 
                              ++++ ++iS+s+DGel+a +++++G ++ rGSs++gg++a++e+++ +k+g   a+t+DgP+GP+
  PHY93_18280|PHY93_18280  61 GEHFTMVISDSKDGELVAVTCKKFGHHPARGSSTRGGKKAMIEIVKNMKKGFPGALTVDGPKGPA 125
                              567899**********************************************************6 PP

>> LPD38  Large polyvalent protein associated domain 38
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0      0.37   3.3e+03      35      54 ..      54      73 ..      53      82 .. 0.77
   2 ?   10.9   0.1   4.2e-05      0.38      13      43 ..     151     178 ..     149     207 .. 0.76

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.37
                    LPD38 35 grvfgtigerlleaardsdp 54
                             g++f+ ige +  +++ds++
  PHY93_18280|PHY93_18280 54 GAIFSHIGEHFTMVISDSKD 73
                             8899*****99999985543 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 4.2e-05
                    LPD38  13 drnwiipiGdgkfirIPkPfelgrvfgtige 43 
                              +++w++++ +++f rIPkPf    ++  ige
  PHY93_18280|PHY93_18280 151 EKYWVFKKSWDQF-RIPKPFTK--IIVVIGE 178
                              68*********99.****9965..6666666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (217 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       291  (0.0162307); expected 358.6 (0.02)
Passed bias filter:                      279  (0.0155614); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.31s 00:00:00.81 Elapsed: 00:00:00.44
# Mc/sec: 1489.13
//
Query:       PHY93_18285|PHY93_18285  [L=192]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    6.8e-20   71.8   0.0    1.3e-19   70.9   0.0    1.4  2  2OG-FeII_Oxy_3  2OG-Fe(II) oxygenase superfamily
    7.2e-12   45.8   0.0    1.3e-11   45.0   0.0    1.4  1  2OG-FeII_Oxy_4  2OG-Fe(II) oxygenase superfamily
    0.00038   20.9   0.0     0.0006   20.3   0.0    1.3  1  2OG-FeII_Oxy    2OG-Fe(II) oxygenase superfamily
     0.0039   17.6   0.0       0.24   11.8   0.0    2.4  1  2OG-FeII_Oxy_5  Putative 2OG-Fe(II) oxygenase
  ------ inclusion threshold ------
       0.04   13.0   0.0      0.049   12.7   0.0    1.2  1  Pox_C4_C10      Poxvirus C4/C10 protein


Domain annotation for each model (and alignments):
>> 2OG-FeII_Oxy_3  2OG-Fe(II) oxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0         4   1.4e+04      55      71 ..      49      65 ..      34      74 .. 0.73
   2 !   70.9   0.0   3.6e-23   1.3e-19       2      96 .]     101     190 ..     100     190 .. 0.92

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 4
                             .....---TT-EEEEE- CS
           2OG-FeII_Oxy_3 55 eavkikpkkgrlvlFes 71
                             ++++i+  +++ +++ s
  PHY93_18285|PHY93_18285 49 SEQNIPSIRNDSIFWLS 65
                             56677777888888877 PP

  == domain 2  score: 70.9 bits;  conditional E-value: 3.6e-23
                              EEEEE-TT-EEEEE-SS----TT.-.EEEEEEEEE....ET-B--EEE.............---TT-EEEEE-..B-TEEE--B.- CS
           2OG-FeII_Oxy_3   2 qvlrygegqeykpHvDnfekeegsgqrrltvllyLnekeseeGGelelyekdk...eavkikpkkgrlvlFesdellpHevlpvtk 84 
                              ++++y++g++yk+H D+f   +g+++r ++++ yLn  ++ +GGel+ y++d+    +++i+p +g+lv+F s+++  Hevlp+t+
  PHY93_18285|PHY93_18285 101 HFACYDQGGFYKKHLDQF---KGNNERLISAVTYLN--TPIQGGELRTYSRDNqdiIEADIAPIAGTLVCFLSNQI-YHEVLPTTS 180
                              689**************9...66688*********8..6789***********9**9****************999.5*****866 PP

                              SS-EEEEEEEEE CS
           2OG-FeII_Oxy_3  85 ggeRlsltgwir 96 
                                eRls++gw+r
  PHY93_18285|PHY93_18285 181 --ERLSIAGWLR 190
                              ..9*******86 PP

>> 2OG-FeII_Oxy_4  2OG-Fe(II) oxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.0   0.0   3.7e-15   1.3e-11       3      93 .]     102     190 ..     100     190 .. 0.81

  Alignments for each domain:
  == domain 1  score: 45.0 bits;  conditional E-value: 3.7e-15
           2OG-FeII_Oxy_4   3 vssYekgdvllnHdDvleg..eRrvayilyleeeWkeddGGaL.llsddegd.vtksivPkwnqlvlFevkes.hsvaevasvaek 83 
                              +++Y +g ++ +H D+++g  eR ++ + yl++   + +GG+L  +s+d++d +  +i+P  ++lv F +++  h+v       + 
  PHY93_18285|PHY93_18285 102 FACYDQGGFYKKHLDQFKGnnERLISAVTYLNT---PIQGGELrTYSRDNQDiIEADIAPIAGTLVCFLSNQIyHEVLPT----TS 180
                              689*************974338*********97...567****55555666634679************97655777774....46 PP

           2OG-FeII_Oxy_4  84 eRlsisgWfh 93 
                              eRlsi+gW++
  PHY93_18285|PHY93_18285 181 ERLSIAGWLR 190
                              9*******85 PP

>> 2OG-FeII_Oxy  2OG-Fe(II) oxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.3   0.0   1.7e-07    0.0006       8     100 ..     104     190 ..      98     191 .. 0.72

  Alignments for each domain:
  == domain 1  score: 20.3 bits;  conditional E-value: 1.7e-07
                              EE.....E-S---------EEEEEESSSEEEEEEE-.TT---EE.EETE.EEE----TTEEEEEE-HHHHHHTTS-S----EEE-- CS
             2OG-FeII_Oxy   8 ny.....ypphpdpevilglgahtdaslltillqdd.vgglevf.kdgk.wlrvppvdnslivniGdallflsngryksvlHrVlp 85 
                              +y     y+ h d ++  g    +  s +t+l++    g+l+ + +d++ +++     + + + +G  + flsn+      H+Vlp
  PHY93_18285|PHY93_18285 104 CYdqggfYKKHLDQFK--G-NNERLISAVTYLNTPIqGGELRTYsRDNQdIIE-----ADIAPIAGTLVCFLSNQ----IYHEVLP 177
                              5666666788888884..3.667777889999999944445544233332333.....568999***********....99****5 PP

                              --GTGSEEEEEEEE- CS
             2OG-FeII_Oxy  86 vnegerRvsiayfie 100
                              ++  e R+sia +++
  PHY93_18285|PHY93_18285 178 TTS-E-RLSIAGWLR 190
                              555.6.*******97 PP

>> 2OG-FeII_Oxy_5  Putative 2OG-Fe(II) oxygenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.8   0.0   6.8e-05      0.24      50      99 ..     138     186 ..     112     187 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 6.8e-05
           2OG-FeII_Oxy_5  50 gaparkeeakeenqslvdvkpkeGdlvlFPs.wlrHevlpnegeeeRisis 99 
                              g++ r++++++++  + d++p +G+lv F s +++Hevlp ++e  R+si+
  PHY93_18285|PHY93_18285 138 GGELRTYSRDNQDIIEADIAPIAGTLVCFLSnQIYHEVLPTTSE--RLSIA 186
                              34445555555566677899999999999872468999998876..77776 PP

>> Pox_C4_C10  Poxvirus C4/C10 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   1.4e-05     0.049      72     123 ..     102     151 ..      48     173 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 1.4e-05
               Pox_C4_C10  72 lvkyekgdyfkrtrnlstklskntveyylvlyLekpeeGGetkiyikptgsi 123
                              +  y++g  +k++ ++ +  ++n   ++ v yL++p++GGe ++y +++++i
  PHY93_18285|PHY93_18285 102 FACYDQGGFYKKHLDQFK--GNNERLISAVTYLNTPIQGGELRTYSRDNQDI 151
                              678999999999988655..5566667889***************8877774 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (192 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       604  (0.0336884); expected 358.6 (0.02)
Passed bias filter:                      503  (0.0280551); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.53u 0.48s 00:00:01.01 Elapsed: 00:00:00.48
# Mc/sec: 1201.67
//
Query:       PHY93_18290|PHY93_18290  [L=303]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.8e-54  184.2  11.1    1.8e-54  184.2  11.1    1.8  3  TerC      Integral membrane protein TerC family


Domain annotation for each model (and alignments):
>> TerC  Integral membrane protein TerC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.1      0.26   4.6e+03     161     173 ..      33      45 ..       8      52 .. 0.47
   2 !  184.2  11.1     1e-58   1.8e-54       1     180 [.      68     271 ..      68     272 .. 0.93
   3 ?   -3.1   0.6       0.3   5.5e+03     166     178 ..     282     294 ..     276     298 .. 0.46

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 0.26
                     TerC 161 tlkylalalllli 173
                               +k  +++  ++i
  PHY93_18290|PHY93_18290  33 SVKESLIWTCVWI 45 
                              2333333333333 PP

  == domain 2  score: 184.2 bits;  conditional E-value: 1e-58
                     TerC   1 ltlvlleivLsiDNlvviallvkk..lpeeqqkkalllGilgAlvlRillillavallelfdlilligglfLlytavkellekr.. 82 
                              lt+++le++LsiDN++v+ +++ +  + +++q+++l++GilgAlv+Ri++il +va++e+f+++l+i+g+fL+yt++k++++ +  
  PHY93_18290|PHY93_18290  68 LTCYVLEKSLSIDNIFVMTIIFGYfkVLPKYQHRVLFWGILGALVMRIIFILGGVAIIEHFHFVLYIFGAFLIYTGFKMFFSGDee 153
                              589********************999999****************************************************98877 PP

                     TerC  83 ..le.nklvkeekkkkkktkst.................llavviqielaDlvfslDSvlaavaitsdlfivitavilsilvlrfl 148
                                +e   ++k  kk  k t+++                 l++v+++ie +D++f+lDS++a +++t+++fi +t++i++il+lr+l
  PHY93_18290|PHY93_18290 154 mnPEhGLIYKISKKYFKMTNHFvdhkffvkksgmfymtpLFLVLLIIESTDVIFALDSIPATLSVTKNPFIAYTSNIFAILGLRSL 239
                              77333566666666666666669999999999****************************************************** PP

                     TerC 149 akllakllerfptlkylalalllligvklvle 180
                              ++++a ++  f++l+y++ a+l++ig k++le
  PHY93_18290|PHY93_18290 240 YFAFAGVIGLFRFLSYALSAVLIFIGSKMLLE 271
                              *****************************997 PP

  == domain 3  score: -3.1 bits;  conditional E-value: 0.3
                     TerC 166 alalllligvklv 178
                              ++++l+ i+++++
  PHY93_18290|PHY93_18290 282 LAIVLGTIAISVI 294
                              3444444444433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (303 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       898  (0.0500865); expected 358.6 (0.02)
Passed bias filter:                      271  (0.0151152); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.37s 00:00:00.93 Elapsed: 00:00:00.46
# Mc/sec: 1975.23
//
Query:       PHY93_18295|PHY93_18295  [L=289]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      1e-18   67.0   0.1    2.4e-18   65.8   0.0    1.7  2  HTH_1           Bacterial regulatory helix-turn-helix protein
    8.4e-15   54.7   0.0    1.1e-14   54.3   0.0    1.2  1  LysR_substrate  LysR substrate binding domain


Domain annotation for each model (and alignments):
>> HTH_1  Bacterial regulatory helix-turn-helix protein, lysR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.8   0.0   2.7e-22   2.4e-18       3      60 .]       8      65 ..       6      65 .. 0.97
   2 ?   -3.0   0.0      0.84   7.5e+03       7      17 ..      81      91 ..      77      92 .. 0.78

  Alignments for each domain:
  == domain 1  score: 65.8 bits;  conditional E-value: 2.7e-22
                             HHHHHHHHHHHSSHHHHHHHHTS-HHHHHHHHHHHHHHHTS-SEEESSSEEEE-HHHH CS
                    HTH_1  3 qlrlfvavaeegsftrAAeeLglsqpavsrqikrLEeelgvpLfeRtgrglrLTeaGe 60
                             +l +f ++a +gs+++A e+L + qpa+s+q+k+LEeel+ +LfeR++r+l LT+aG+
  PHY93_18295|PHY93_18295  8 HLIYFREIANTGSISKASEKLLIGQPALSAQLKQLEEELQIELFERKNRKLILTDAGK 65
                             799*****************************************************95 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 0.84
                             HHHHHHHSSHH CS
                    HTH_1  7 fvavaeegsft 17
                             +++v+ e+sft
  PHY93_18295|PHY93_18295 81 LLQVVHEKSFT 91
                             56788889987 PP

>> LysR_substrate  LysR substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.3   0.0   1.3e-18   1.1e-14       6     197 ..      94     284 ..      91     289 .] 0.93

  Alignments for each domain:
  == domain 1  score: 54.3 bits;  conditional E-value: 1.3e-18
                              EEEEEEEECCCHHHHHHHHHHHHHHHSTTEEEEEEEESHHHHHHHHHTTSSSEEEEESSS...CCTTEEEEEEEEEEEEEEEETTS CS
           LysR_substrate   6 grLrigapptlaryllppllarfraryPevelelvegdseelldllaegelDlairagpp...edsglearpLaeeplvlvaspdh 88 
                               +Lr+ga +++  +++ ++ ++  + y +  +++ eg++eel   l+ + +D+ i        +d ++ +  + + p+ ++ s+++
  PHY93_18295|PHY93_18295  94 TTLRLGALDSVPKQIVWEITQKA-RSYGDCFVSIIEGSQEELTSELLLRNIDCFISNYAGdisRDKNMNSKSFVKAPVSIYGSKEY 178
                              69*********999999999665.99*****************************9888888************************ PP

                              GGGGSSSECGGGGCTSEEEEESTTSTHHHHHHHHHHCTTEECEEEEEESSHHHHHHHHHTTS-BEEEEGGGHHCCCHTTTEEEEEE CS
           LysR_substrate  89 pLargepvsledLadeplilleegsglrdlledalreaglkprvalevnsleallalvaaGlGiallprsavrdeladgrlvalpl 174
                               L  ++   ++ L + p+il +++s lr  l+ +++ +++k+   le+ +++ ++ ++++G G+a lp+ a+ + +++  l     
  PHY93_18295|PHY93_18295 179 -LTCRKNF-PRSLNGIPMILPTHHSKLRHDLDYFFDTKKIKIVSELETQDTALMKIFASQGAGVAALPDIAALNLVREKSLY-KIG 261
                              .****999.************************************************************************9.555 PP

                              SSTTCEEEEEEEEETTCCCHHHH CS
           LysR_substrate 175 pepplprelylvyrkgrelspav 197
                                p+++ e++++  k+   +p +
  PHY93_18295|PHY93_18295 262 TLPNIKEEYWVISSKRTIDNPIA 284
                              555999*****999998666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (289 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       546  (0.0304535); expected 358.6 (0.02)
Passed bias filter:                      412  (0.0229795); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.36s 00:00:00.92 Elapsed: 00:00:00.45
# Mc/sec: 1920.19
//
Query:       PHY93_18300|PHY93_18300  [L=362]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.2e-14   53.5   0.1    5.9e-14   52.7   0.1    1.4  1  baeRF_family3   Bacterial archaeo-eukaryotic release factor f
    2.8e-07   30.8   0.1    4.9e-07   30.1   0.1    1.4  1  baeRF_family7   Bacterial archaeo-eukaryotic release factor f
    3.1e-05   24.1   0.0    5.5e-05   23.3   0.0    1.4  1  baeRF_family8   Bacterial archaeo-eukaryotic release factor f
    0.00037   20.9   0.1    0.00062   20.2   0.1    1.4  1  baeRF_family6   Bacterial archaeo-eukaryotic release factor f
     0.0092   16.3   0.0      0.015   15.6   0.0    1.3  1  baeRF_family11  Bacterial archaeo-eukaryotic release factor f
  ------ inclusion threshold ------
      0.012   15.7   0.2       0.38   10.8   0.0    2.5  2  Mei5_like       Putative double-strand recombination repair-l


Domain annotation for each model (and alignments):
>> baeRF_family3  Bacterial archaeo-eukaryotic release factor family 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.7   0.1     2e-17   5.9e-14      52     168 .]     161     277 ..     141     277 .. 0.91

  Alignments for each domain:
  == domain 1  score: 52.7 bits;  conditional E-value: 2e-17
            baeRF_family3  52 kkseyrdedtrrFlreVdkalqevlsesplplvlaGveenlslfrevsknpsliegglegnpaelsaeeLreaawplveayaeeer 137
                                +++ + + r+F+ +   +l+++ls+ +lp++laGv+e+l + ++  +++ ++e+ + gn ++++ e+Lr ++ +l+e+ +++++
  PHY93_18300|PHY93_18300 161 NTNKNLNMNPREFIAHTSIELNRMLSKYKLPIILAGVNEHLGHMKKYLDHSMVLEESIVGNVERAKSEKLRGKCFELLEPFYHQKE 246
                              34444777889*************************************************************************** PP

            baeRF_family3 138 aealeeldeargrgkfaagldevwqaareGR 168
                               + +eel+ a++++ +++ +++++ +a+ G+
  PHY93_18300|PHY93_18300 247 LQEVEELNLAVKKNYAITYIEDIAVSAVYGK 277
                              **************************99886 PP

>> baeRF_family7  Bacterial archaeo-eukaryotic release factor family 7
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.1   0.1   1.6e-10   4.9e-07      75     144 .]     171     240 ..     142     240 .. 0.88

  Alignments for each domain:
  == domain 1  score: 30.1 bits;  conditional E-value: 1.6e-10
            baeRF_family7  75 lrYfrkvdngvekllkkenspLvlAgvdylipiYrevnkYkhLleeaisgnpdqlskeeLhekaweivep 144
                               +++ + + +++++l+k + p++lAgv++ + + ++  + + +lee+i gn ++ ++e+L+ k  e++ep
  PHY93_18300|PHY93_18300 171 REFIAHTSIELNRMLSKYKLPIILAGVNEHLGHMKKYLDHSMVLEESIVGNVERAKSEKLRGKCFELLEP 240
                              4788888899********************************************************9987 PP

>> baeRF_family8  Bacterial archaeo-eukaryotic release factor family 8
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.3   0.0   1.8e-08   5.5e-05      66     139 ..     171     244 ..     150     246 .. 0.89

  Alignments for each domain:
  == domain 1  score: 23.3 bits;  conditional E-value: 1.8e-08
            baeRF_family8  66 rkYaRkvdraLrpllkgqdlpLILaateplasifrsvssypelldegIegnpeelsdeeLasaarevlddlyaa 139
                              r+++ +   +L  +l++ +lp+ILa+ +++ +  ++   ++  l+e I gn+e+ + e L  +  e+l+  y +
  PHY93_18300|PHY93_18300 171 REFIAHTSIELNRMLSKYKLPIILAGVNEHLGHMKKYLDHSMVLEESIVGNVERAKSEKLRGKCFELLEPFYHQ 244
                              566667777899************************************************99999999888865 PP

>> baeRF_family6  Bacterial archaeo-eukaryotic release factor family 6
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.2   0.1   2.1e-07   0.00062      88     147 ..     180     239 ..     154     240 .. 0.88

  Alignments for each domain:
  == domain 1  score: 20.2 bits;  conditional E-value: 2.1e-07
            baeRF_family6  88 aLkeelenekaplvLaaleelqplfrkvnkypylaeeaisgspeqlsaeelhekaeeive 147
                               L+++l++ k p++La+++e++ + +k+ + + ++ee i g++e+++ e+l  k  e++e
  PHY93_18300|PHY93_18300 180 ELNRMLSKYKLPIILAGVNEHLGHMKKYLDHSMVLEESIVGNVERAKSEKLRGKCFELLE 239
                              58899999999***************************************9988766665 PP

>> baeRF_family11  Bacterial archaeo-eukaryotic release factor family 11
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   5.1e-06     0.015      61     138 ..     166     243 ..     142     244 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 5.1e-06
           baeRF_family11  61 qkvrleqYarkvdkalrpvLagrdlPLiLaaaeplaslyrsvnsypkLleegiegspeslsdeelaaaarpvLdelya 138
                               +++ ++++ +   +l ++L++ +lP+iLa++++     ++  ++  +lee+i g+ e+ + e+l  +  ++L+ +y+
  PHY93_18300|PHY93_18300 166 LNMNPREFIAHTSIELNRMLSKYKLPIILAGVNEHLGHMKKYLDHSMVLEESIVGNVERAKSEKLRGKCFELLEPFYH 243
                              456678999999999*****************9999999999999999999**********************99986 PP

>> Mei5_like  Putative double-strand recombination repair-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   0.00013      0.38      68      94 ..      30      56 ..      19      65 .. 0.75
   2 ?    2.2   0.0      0.06   1.8e+02      43      81 ..     151     191 ..     140     210 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00013
                Mei5_like 68 nkdleeliekwkevieeciiiLkkefe 94
                               d+++l+ekwke++ ++ + L k + 
  PHY93_18300|PHY93_18300 30 ALDIKSLTEKWKESLTKAEFFLLKDYT 56
                             569*************99655555443 PP

  == domain 2  score: 2.2 bits;  conditional E-value: 0.06
                Mei5_like  43 qFkdplfiekdiyrKLkliek.f.kkknkdleeliekwkev 81 
                              +F+++   + ++++ L++  + f  +   +l+++  k+k  
  PHY93_18300|PHY93_18300 151 TFRNETEAAENTNKNLNMNPReFiAHTSIELNRMLSKYKLP 191
                              79****************75523144556778899999864 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (362 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       559  (0.0311785); expected 358.6 (0.02)
Passed bias filter:                      360  (0.0200792); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.58u 0.35s 00:00:00.93 Elapsed: 00:00:00.46
# Mc/sec: 2372.97
//
Query:       PHY93_18305|PHY93_18305  [L=41]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (41 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       259  (0.0144459); expected 358.6 (0.02)
Passed bias filter:                      156  (0.00870099); expected 358.6 (0.02)
Passed Vit filter:                         5  (0.000278878); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.27s 00:00:00.69 Elapsed: 00:00:00.43
# Mc/sec: 288.60
//
Query:       PHY93_18310|PHY93_18310  [L=136]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (136 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       427  (0.0238162); expected 358.6 (0.02)
Passed bias filter:                      250  (0.0139439); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.29s 00:00:00.76 Elapsed: 00:00:00.44
# Mc/sec: 931.06
//
Query:       PHY93_18315|PHY93_18315  [L=131]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.029   14.0   0.1        5.2    6.8   0.0    2.9  3  Vac_Fusion  Chordopoxvirus multifunctional envelope protein A


Domain annotation for each model (and alignments):
>> Vac_Fusion  Chordopoxvirus multifunctional envelope protein A27
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.0     0.032   5.7e+02       7      22 ..       3      18 ..       1      27 [. 0.78
   2 ?    6.8   0.0   0.00029       5.2       8      33 ..      72      97 ..      70     102 .. 0.94
   3 ?    3.2   0.0    0.0038        69      25      37 ..     116     128 ..     103     131 .] 0.79

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.032
                             HHHHHHHHHHHHHHHH CS
               Vac_Fusion  7 erllvlekdfqlvikc 22
                              rl+++ +df++  + 
  PHY93_18315|PHY93_18315  3 IRLITVREDFEKAYNI 18
                             6999999999988765 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.00029
                             HHHHHHHHHHHHHHHHHHHHHHHHHH CS
               Vac_Fusion  8 rllvlekdfqlvikcckrvnealkRl 33
                             ++l +++++q+ ik +k   + l+Rl
  PHY93_18315|PHY93_18315 72 KILEVKEIYQTNIKGYKVLMDFLDRL 97
                             7999*********************9 PP

  == domain 3  score: 3.2 bits;  conditional E-value: 0.0038
                              HHHHHHHHHH-XX CS
               Vac_Fusion  25 rvnealkRlEnHl 37 
                               ++++ +RlEn l
  PHY93_18315|PHY93_18315 116 MNQNVFDRLENFL 128
                              47899*****976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (131 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       742  (0.0413855); expected 358.6 (0.02)
Passed bias filter:                      557  (0.031067); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.39s 00:00:00.90 Elapsed: 00:00:00.47
# Mc/sec: 842.84
//
Query:       PHY93_16480|PHY93_16480  [L=168]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (168 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       562  (0.0313459); expected 358.6 (0.02)
Passed bias filter:                      254  (0.014167); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.29s 00:00:00.75 Elapsed: 00:00:00.42
# Mc/sec: 1206.81
//
Query:       PHY93_18320|PHY93_18320  [L=225]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.7e-35  122.6   0.0    2.1e-35  122.3   0.0    1.1  1  Pro_CA    Carbonic anhydrase


Domain annotation for each model (and alignments):
>> Pro_CA  Carbonic anhydrase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  122.3   0.0   1.2e-39   2.1e-35       1     156 []      75     224 ..      75     224 .. 0.84

  Alignments for each domain:
  == domain 1  score: 122.3 bits;  conditional E-value: 1.2e-39
                              EEEEEETTTTS-HHHHTTS-TTSEEEEEETTG---TT-HHHHHHHHHHHHTS--SEEEEEEETT-HHHHHHHS..HHCCSTTSSHH CS
                   Pro_CA   1 alvigCsDSRvppelitdagpGdlFvvrnvgnlvppadssvlaaleyAvevlkvkhivVlGHskCGavkaalk..aekseeeagai 84 
                              a++++CsDSRvppe+++d+++G++Fvvr++g+ +   d + +a++ey+v++l+ + iv++GH++CGavkaal+  +   +  ++ +
  PHY93_18320|PHY93_18320  75 AIILSCSDSRVPPEIVFDQKLGEIFVVRTAGQSL---DYAAIASIEYGVSHLGSNLIVIMGHESCGAVKAALAtlK-GGDAGSPWL 156
                              589*******************************...99******************************9999533.333445555 PP

                              HHHHHHHHHHHHHCHHHHHTTSSHHHHHHHHHHHHHHHHHHHHHCS.HHHHHHHHTTS-EEEEEEEETTTTEE CS
                   Pro_CA  85 dkwlekirealekveeelesekekearerlleeenVaeqlenLlek.pvvreavekgklkvhGlvydletGev 156
                              +k+++ +++ l++ +e     ++++ +    + +nV+   + Lle+ +v+r+ v++g++k+  ++y+le+G+v
  PHY93_18320|PHY93_18320 157 NKLVTDLHPHLKRFSE----LSQTDGVVVE-SWANVEGVAHDLLERsEVIRNLVQSGDVKIQNALYHLESGQV 224
                              6666666665555554....4444555555.789*********9999************************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (225 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       322  (0.0179597); expected 358.6 (0.02)
Passed bias filter:                      312  (0.017402); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.34s 00:00:00.87 Elapsed: 00:00:00.46
# Mc/sec: 1466.62
//
Query:       PHY93_18325|PHY93_18325  [L=267]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    5.4e-17   62.3   0.1      1e-16   61.4   0.1    1.4  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
      8e-07   29.0   1.1    1.1e-06   28.5   0.1    1.9  2  HisKA        His Kinase A (phospho-acceptor) domain
  ------ inclusion threshold ------
      0.015   15.2   0.1      0.044   13.7   0.1    1.8  1  HATPase_c_5  GHKL domain
      0.038   14.3   0.7        6.9    7.0   0.0    2.6  2  DUF1828      Domain of unknown function DUF1828
      0.057   13.4   0.0       0.12   12.3   0.0    1.6  1  HATPase_c_2  Histidine kinase-like ATPase domain


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.4   0.1   2.9e-20     1e-16       8     107 ..     158     264 ..     152     267 .] 0.85

  Alignments for each domain:
  == domain 1  score: 61.4 bits;  conditional E-value: 2.9e-20
                              HHHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCS.TTCHHCSTCHTSTSSSHHHHHHHHHHHHTTTEE CS
                HATPase_c   8 qiisnlvdNavkfatkageieveikaseddlvisveDnGiGipkedlkklfe.kfsqddstkrggggtGlGlsivkklvelmgGei 92 
                               i++nl++Na+kf+ +++++++ ik++e+++ ++++D GiGip+e l+ lf+    +++  ++g  gtGlG+ ++k + +l+g ++
  PHY93_18325|PHY93_18325 158 NIFNNLISNAIKFSESNSTVDIFIKQTEENIIVTISDHGIGIPEELLPYLFAyDKETSRLGTIGERGTGLGMPLMKLFLDLYGVKF 243
                              699**********88999*******8789**********************9744445899999*******************999 PP

                              EE..EEET......TTEEEEEEE CS
                HATPase_c  93 wv..esep......grGttftft 107
                              ++  +         ++Gt++ + 
  PHY93_18325|PHY93_18325 244 SIesI--TkerhpvKHGTSVELI 264
                              99551..3334457889999875 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.2       1.7     6e+03      33      46 ..      15      28 ..       7      34 .. 0.60
   2 !   28.5   0.1   3.1e-10   1.1e-06       4      63 ..      42      99 ..      39     103 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 1.7
                             -HSSCHHHHHHHHH CS
                    HisKA 33 lteelkeyleties 46
                              t  lk++l+ i+ 
  PHY93_18325|PHY93_18325 15 RTAHLKQALHEIKI 28
                             45667777776665 PP

  == domain 2  score: 28.5 bits;  conditional E-value: 3.1e-10
                             HHHHHHHHHHHHHHHHHHHHHHHHHC..T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCC CS
                    HisKA  4 rflagvaHELrtPLsailgnaeaLkregklteelkeyletiesearrldhlvedlLdlsr 63
                             ++l  ++H+L +PL  + + +eaL +  + ++el +++++++++++ + ++++  ++l  
  PHY93_18325|PHY93_18325 42 KMLRLISHDLANPLQILGMSIEALTD--RCPPELSKLVDRMKRSTDTMGQILSLTRELQA 99
                             578889******************99..799********************998877765 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.1   1.2e-05     0.044      10      88 ..     156     246 ..     150     252 .. 0.72

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1.2e-05
              HATPase_c_5  10 lgnlLdNAieacskieeekrfIrltvrekkksliisieNsyeg............ekkklesskskkeehGiGlksireivkkykg 83 
                                n+++N i  + k++e+++ +++ ++++++++i++i+ +  g            +k++ +  +  ++  G+G+  ++  ++ y+ 
  PHY93_18325|PHY93_18325 156 CNNIFNNLISNAIKFSESNSTVDIFIKQTEENIIVTISDHGIGipeellpylfayDKETSRLGTIGERGTGLGMPLMKLFLDLYGV 241
                              445555555555567777889*****************996666666666666554444444456678899999999999999988 PP

              HATPase_c_5  84 nlsie 88 
                              ++sie
  PHY93_18325|PHY93_18325 242 KFSIE 246
                              88776 PP

>> DUF1828  Domain of unknown function DUF1828
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.3    0.0095        34      46      83 ..      13      50 ..       2      55 .. 0.79
   2 ?    7.0   0.0    0.0019       6.9       6      29 ..     172     196 ..     168     201 .. 0.86

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.0095
                  DUF1828 46 kkRkellesilakfgvtledgelsvkvteenlaaakhr 83
                             ++R++ l+++l++ ++++e+ el+ + + + l    h+
  PHY93_18325|PHY93_18325 13 EERTAHLKQALHEIKIKEEQLELCYSENVKMLRLISHD 50
                             689999*****999999999999988777766665555 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.0019
                  DUF1828   6 edgDsiqiyvkkkegdei.rLtDdG 29 
                              e++++++i++k+ e++ i +++D+G
  PHY93_18325|PHY93_18325 172 ESNSTVDIFIKQTEENIIvTISDHG 196
                              789*******9999877679****9 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   3.4e-05      0.12      39     110 ..     163     237 ..     136     253 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 3.4e-05
              HATPase_c_2  39 actNavehayleapegpvevrlesdeealtvevaDsGpgfdpetlpdpteeep......keslkegGrGlalikglvD 110
                              +++Na++       + +v + ++++ee + v+++D+G g + e lp   + ++      +  ++  G+G+ l+k + D
  PHY93_18325|PHY93_18325 163 LISNAIKFSES---NSTVDIFIKQTEENIIVTISDHGIGIPEELLPYLFAYDKetsrlgTIGERGTGLGMPLMKLFLD 237
                              45666666665...5789*********************877776655444445566666666777777777776666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (267 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1292  (0.072062); expected 358.6 (0.02)
Passed bias filter:                      734  (0.0409393); expected 358.6 (0.02)
Passed Vit filter:                        65  (0.00362541); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.58u 0.46s 00:00:01.04 Elapsed: 00:00:00.47
# Mc/sec: 1711.40
//
Query:       PHY93_18330|PHY93_18330  [L=100]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (100 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       528  (0.0294495); expected 358.6 (0.02)
Passed bias filter:                      371  (0.0206927); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.36s 00:00:00.83 Elapsed: 00:00:00.45
# Mc/sec: 672.29
//
Query:       PHY93_18335|PHY93_18335  [L=266]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      5e-69  233.0   0.1    5.7e-69  232.8   0.1    1.0  1  Aldedh    Aldehyde dehydrogenase family
  ------ inclusion threshold ------
      0.032   13.3   0.0      0.046   12.8   0.0    1.2  1  LuxC      Acyl-CoA reductase (LuxC)


Domain annotation for each model (and alignments):
>> Aldedh  Aldehyde dehydrogenase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  232.8   0.1   6.3e-73   5.7e-69       1     248 [.      20     266 .]      20     266 .] 0.97

  Alignments for each domain:
  == domain 1  score: 232.8 bits;  conditional E-value: 6.3e-73
                              EET-SSSEEEEEETTTCEEEEEEE-B-HHHHHHHHHHHHHHHHHHTTS-HHHHHHHHHHHHHHHHHTHHHHHHHHHHHH---HHHH CS
                   Aldedh   1 wvesesetievinPatgeviakvpaataedvdaavaaAkeafkawaklpaeeRaeiLrkaadlleerkeelaeletletGkplaea 86 
                              +v++++e+i+vi+P++g++i+++ + t++ vd a++ A+ a+++wa+++++eR +++ +++++l ++ +e+a+l + e Gk++ e 
  PHY93_18335|PHY93_18335  20 FVKGNGEKIQVISPYNGKPIGEFYSTTQSVVDLAISDAQIAQRSWAEISMKERTKVMFNFRNILMRDMDEIAHLKSSESGKNFDEG 105
                              68889999****************************************************************************** PP

                              HHHHHHHHHHHHHHHHHHHHHSEEEEEECTTEEEEEEEEE-SEEEEEE-SSSCCHHHHHHHHHHHHTT-EEEEEE-TTSHHHHHHH CS
                   Aldedh  87 raeveeaidvlryyaelaeklegevlpssegklalvrrePlGvvgaItPWNfPlllaawklapalaaGNtvvlKPaeetplsalll 172
                              +a +++ i+vl+y+++l +   g  +++s+g  + +rreP+Gvv+ ItP+NfP+++++w++ +al  GN+ ++KP+e+tpl+++++
  PHY93_18335|PHY93_18335 106 KAGLMKGIEVLEYAIALQNMDIGGRVEVSRGVSCEYRREPVGVVANITPFNFPAMVPMWTIPIALTLGNAYIWKPSEKTPLTSMKI 191
                              *******************96666668889******************************************************** PP

                              HHHHHHTTS-TTSEEE--SSTCCHHHHHHH-TTESEEEEES-HHHHHHHHHHHHCTTSEEEEEE---EEEEE-TTS CS
                   Aldedh 173 aelfeeaglPkgvlnvvtgsgsevgealvehpevdkvsftGstevgrkiakaaaknlkrvtlElGGknplivleda 248
                              a +++eaglP+g+++v++g  +e+ ea+++h  v+++ f+Gst++++ ++ + ++  krv++  G+kn++i l+da
  PHY93_18335|PHY93_18335 192 AAALKEAGLPDGLFQVLQG-TKETVEAIIDHVAVKAIGFVGSTKIAKAVYDRGTNLGKRVLALGGAKNHVILLPDA 266
                              *******************.88999***************************99999****************997 PP

>> LuxC  Acyl-CoA reductase (LuxC)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   5.1e-06     0.046      86     141 ..     142     198 ..     139     244 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 5.1e-06
                     LuxC  86 kaqprglvlhvlsgNvp.llpvmsilqglLvknvnllkvSssdpflaaallksladv 141
                              ++ p g+v  +++ N p ++p++ i  +l  +n+ + k+S   p +++++++ l++ 
  PHY93_18335|PHY93_18335 142 RREPVGVVANITPFNFPaMVPMWTIPIALTLGNAYIWKPSEKTPLTSMKIAAALKEA 198
                              56799**********994689*******************************99986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (266 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       528  (0.0294495); expected 358.6 (0.02)
Passed bias filter:                      495  (0.0276089); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.37s 00:00:00.94 Elapsed: 00:00:00.45
# Mc/sec: 1762.07
//
Query:       PHY93_21690|PHY93_21690  [L=284]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (284 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       473  (0.0263818); expected 358.6 (0.02)
Passed bias filter:                      313  (0.0174578); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.28s 00:00:00.80 Elapsed: 00:00:00.45
# Mc/sec: 1879.21
//
Query:       PHY93_21695|PHY93_21695  [L=270]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-39  136.0   0.0    1.7e-39  135.6   0.0    1.1  1  ThiF             ThiF family
     0.0043   17.3   1.0      0.039   14.2   1.1    2.0  1  Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding doma


Domain annotation for each model (and alignments):
>> ThiF  ThiF family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  135.6   0.0   1.9e-43   1.7e-39       1     219 [.       3     250 ..       3     267 .. 0.80

  Alignments for each domain:
  == domain 1  score: 135.6 bits;  conditional E-value: 1.9e-43
                              THHHHHHHHHHHHHHHHTSEEEEE--SHHHHHHHHHHHHHTTTEEEEEESSB--GGGGGTBTTS-GGGTTSBHHHHHHHHHHHT-T CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     ThiF   1 ysrqlallgedgqekLrdskvllvGaGglGsellknLalsGvgkltlvDnDkielsNlnRqflfreediGkpKaevaaealqeinp 86 
                              ysr++ l+ e+ q+k+ + ++l+ G+Gg G  +++ L+++G+gk+++ D+D+ e sN nRq   +++ iG++K+ev++e l +inp
  PHY93_21695|PHY93_21695   3 YSRNIGLITEAEQKKICNGSILIAGVGGMGGVAAEVLVRMGLGKIKICDHDTFEESNFNRQLHSNTQTIGRAKVEVLKEELLKINP 88 
                              89************************************************************************************ PP

                              TSEEEEEES-CCGCCS-HHHHTT-SEEEEESSSHHHHHHHHHHHHHHT-EEEEEEEETTEEEEEEEEE..CCS-ECTSS-....TG CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxx....xx RF
                     ThiF  87 dveveavteritdetvleellesvDlVvdalDniearrlvnracvkkgiplieagtlgfegqvvviip..gktgcyeCld....ps 166
                              ++++e +te +t+e++  +ll +v++V++++D++   +++ r +++kg+ +++a  l+ +  v+v+ p   + + + +l+    p 
  PHY93_21695|PHY93_21695  89 NLKIESYTEGVTKENI-HQLLDDVQIVINGMDKMYYSLILERTAREKGLTIVDA-WLTPYASVFVMTPnsPHWEEFMDLPtngvP- 171
                              *************995.6***********************************5.555555555554522333333333333331. PP

                              GS.EECCCCEEHHH..........................HHHCT...E-B-HHHHHHHHHHHHHHHHHHH.TTBCGGGCCEE CS
                              xxxxxxxxxxxxxx..........................xxxxx...xxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxx RF
                     ThiF 167 stedptekkvplct..........................siagn...ipaiatttavvaglaalellkll.sgkeklensll 219
                                   ++ +++lc                           +ia+     p++a+++ + ++l+a+e++k+l  ++++ ++ ++
  PHY93_21695|PHY93_21695 172 ----LDQITEELCRkavekeieytfshftpyqiidrslvnGIANDkrvRPSLAPVVWLSGILMANEAVKVLtGQPHTDHAGIF 250
                              ....222233333344445555556666699999999888666668899**********************644555555555 PP

>> Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.2   1.1   4.3e-06     0.039       1     101 [.      23     143 ..      23     157 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 4.3e-06
                              EEEE--SHHHHHHHHHHHCTCCT-GEEEEEESSHHHHHHHHCHH.....................TTTCEEEEE--TTTHHHHHHH CS
          Sacchrp_dh_NADP   1 vliiGaGsvGqavaellarhfdvdaeitvadrskeklealaaka.....................lgvrfeaialdaenyeavLaa 65 
                              +li G G++G ++ae+l+r +    +i ++d +  +  +   ++                      ++++++++ +    ++ + +
  PHY93_21695|PHY93_21695  23 ILIAGVGGMGGVAAEVLVRMGLG--KIKICDHDTFEESNFNRQLhsntqtigrakvevlkeellkINPNLKIESYTEGVTKENIHQ 106
                              7999***************9965..9999999887766666666888999************999888888888888888888999 PP

                              HHTTSSEEEE-SSGG.GHHHHHHHHHHHT-EEEESS- CS
          Sacchrp_dh_NADP  66 llkegdlvvnlsppi.ssldvlkaCietgvhyvdtsi 101
                              ll + ++v+n +  + +sl + ++++e+g   vd+  
  PHY93_21695|PHY93_21695 107 LLDDVQIVINGMDKMyYSLILERTAREKGLTIVDAWL 143
                              *************9988999999***********544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (270 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       479  (0.0267165); expected 358.6 (0.02)
Passed bias filter:                      363  (0.0202465); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.55u 0.32s 00:00:00.87 Elapsed: 00:00:00.46
# Mc/sec: 1779.02
//
Query:       PHY93_21700|PHY93_21700  [L=125]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (125 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       465  (0.0259356); expected 358.6 (0.02)
Passed bias filter:                      254  (0.014167); expected 358.6 (0.02)
Passed Vit filter:                         6  (0.000334653); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.29s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 837.34
//
Query:       PHY93_21705|PHY93_21705  [L=305]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.014   15.1   0.4       0.28   10.9   0.0    2.2  2  DUF4423   Domain of unknown function (DUF4423)
       0.15   12.1   0.6        1.1    9.3   0.1    2.5  3  DUF3768   Protein of unknown function (DUF3768)


Domain annotation for each model (and alignments):
>> DUF4423  Domain of unknown function (DUF4423)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   3.1e-05      0.28      10      76 ..      31      95 ..      14     101 .. 0.86
   2 ?    2.1   0.2     0.016   1.4e+02     126     154 ..     149     177 ..     136     184 .. 0.85

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 3.1e-05
                  DUF4423 10 Ldeeefe.yfssWyypvirellplkdfkadpeelakrlrpkisaeevekalefLlklgllkkdedgky 76
                             L+ e++e +  + y +++++  ++++   +  e+++++  +  ++++e+ +e+ lk+gl++k+ dgk+
  PHY93_21705|PHY93_21705 31 LSPEQIEeINTDDYSLTLFNATRMQPL--SLGEIKRQFV-ETEQKKAESVMERFLKIGLIHKTDDGKF 95
                             666777777788888889998888887..999*****99.9************************986 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.016
                  DUF4423 126 iskedyekikkeirefrkkilaiaeeske 154
                              +++++ ++i+++++e + k  ++a+e+++
  PHY93_21705|PHY93_21705 149 FTEDQSKEIQEMLKEVKLKTKQFANENDK 177
                              68899999*********9999**999886 PP

>> DUF3768  Protein of unknown function (DUF3768)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.2      0.12   1.1e+03      23      53 ..     106     146 ..      95     154 .. 0.59
   2 ?    9.3   0.1   0.00013       1.1       9      69 ..     153     214 ..     145     218 .. 0.87
   3 ?   -2.4   0.0      0.57   5.1e+03      47      70 ..     253     275 ..     241     281 .. 0.60

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.12
                  DUF3768  23 fddftednDPhgehdfGav..........elkgekvfwKiD 53 
                              ++d+  d D + ++d  ++          e+ ++k ++ iD
  PHY93_21705|PHY93_21705 106 YADYRYDGDLEAKKDSKVFklmkentgkkEYWKDKSYFSID 146
                              56666666666666666665555222222444445555555 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.00013
                  DUF3768   9 seeelqellkavr.efddftednDPhgehdfGavelkgekvfwKiDyydrelefgsedpadp 69 
                              +++e+qe+lk+v+ + ++f ++nD  g + + +  +k   +fw + +   +++ +s +p+ +
  PHY93_21705|PHY93_21705 153 QSKEIQEMLKEVKlKTKQFANENDKLGIKGMKFRRFKFYDMFWAFALIALTFSLTSLHPSST 214
                              67799*******956789*************************9999999999999888765 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 0.57
                  DUF3768  47 kvfwKiDyydrelefgsedpadpd 70 
                              + f  iD+ d+e   g +dp++++
  PHY93_21705|PHY93_21705 253 ASFMNIDITDNEGG-GGHDPENNS 275
                              45666777776544.445555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (305 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1047  (0.058397); expected 358.6 (0.02)
Passed bias filter:                      520  (0.0290033); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.62u 0.34s 00:00:00.96 Elapsed: 00:00:00.47
# Mc/sec: 1931.23
//
Query:       PHY93_21710|PHY93_21710  [L=158]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.4e-12   47.5   0.2    2.9e-12   46.5   0.2    1.6  1  HTH_3     Helix-turn-helix
    1.5e-11   44.2   0.1    6.8e-11   42.0   0.0    2.0  2  HTH_19    Helix-turn-helix domain
    9.6e-08   32.3   0.0    1.5e-07   31.7   0.0    1.3  1  HTH_31    Helix-turn-helix domain
     0.0006   20.2   0.1    0.00099   19.5   0.1    1.3  1  HTH_26    Cro/C1-type HTH DNA-binding domain
  ------ inclusion threshold ------
       0.12   12.3   0.2       0.27   11.1   0.2    1.7  1  HTH_25    Helix-turn-helix domain


Domain annotation for each model (and alignments):
>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.5   0.2     8e-16   2.9e-12       1      54 [.      12      65 ..      12      66 .. 0.97

  Alignments for each domain:
  == domain 1  score: 46.5 bits;  conditional E-value: 8e-16
                             HHHHHHHTTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHHH CS
                    HTH_3  1 lkelRkqlglsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvslde 54
                             ++++R+++++ q +L + ++++r++is+iE G r+++   l+++a+aLg+++d 
  PHY93_21710|PHY93_21710 12 IRQARLAKKMKQSDLDADANLPRTSISKIELGNREITSPELVRIARALGTPIDS 65
                             8**************************************************985 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.0   0.0   1.9e-14   6.8e-11       1      59 [.       9      66 ..       9      69 .. 0.96
   2 ?   -0.9   0.0      0.47   1.7e+03      27      37 ..      95     105 ..      90     124 .. 0.74

  Alignments for each domain:
  == domain 1  score: 42.0 bits;  conditional E-value: 1.9e-14
                   HTH_19  1 GerLkeaReelgltqeelaerlgisrskisaiEngkkdvpsaelllkiaealgidleyl 59
                             Ger+++aR  ++++q +l  ++   r++is+iE g++ ++++++l +ia+alg +++ l
  PHY93_21710|PHY93_21710  9 GERIRQARLAKKMKQSDLDADANLPRTSISKIELGNR-EITSPELVRIARALGTPIDSL 66
                             9************************************.8889*************9976 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.47
                   HTH_19  27 skisaiEngkk 37 
                              + is+iE   +
  PHY93_21710|PHY93_21710  95 RIISMIEASVY 105
                              56899997655 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.7   0.0   4.1e-11   1.5e-07       1      59 [.       7      64 ..       7      68 .. 0.95

  Alignments for each domain:
  == domain 1  score: 31.7 bits;  conditional E-value: 4.1e-11
                   HTH_31  1 aLGalLralReraGLsqeevAerlgvsestlsrlEqGrrgrpspavlealaralgldpa 59
                             ++G++ r++R +  ++q ++ + +++ ++ +s++E G r + +   l ++aralg++ +
  PHY93_21710|PHY93_21710  7 EIGERIRQARLAKKMKQSDLDADANLPRTSISKIELGNR-EITSPELVRIARALGTPID 64
                             58*************************************.8***************955 PP

>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.5   0.1   2.8e-07   0.00099       1      55 [.      11      64 ..      11      67 .. 0.92

  Alignments for each domain:
  == domain 1  score: 19.5 bits;  conditional E-value: 2.8e-07
                   HTH_26  1 kLrelmadrgitkseLargtgisaatlsrlvkgkpervsldtLdkiCdaLgctpg 55
                             ++r++  ++++++s+L  ++++ ++++s++  g  + ++  +L +i++aLg  ++
  PHY93_21710|PHY93_21710 11 RIRQARLAKKMKQSDLDADANLPRTSISKIELGN-REITSPELVRIARALGTPID 64
                             67888889************************98.8***************9886 PP

>> HTH_25  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.2   7.4e-05      0.27       1      34 [.      11      44 ..      11      64 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 7.4e-05
                             HHHHHHHTTT--HHHHHHHSS--HHHHHHHHCT- CS
                   HTH_25  1 rLraaRearglsleevaketkIrkdylealEedd 34
                             r r+aR+a+++   ++ +  +++   + ++E ++
  PHY93_21710|PHY93_21710 11 RIRQARLAKKMKQSDLDADANLPRTSISKIELGN 44
                             579****************************886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (158 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       917  (0.0511462); expected 358.6 (0.02)
Passed bias filter:                      411  (0.0229238); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.48u 0.35s 00:00:00.83 Elapsed: 00:00:00.45
# Mc/sec: 1050.14
//
Query:       PHY93_21715|PHY93_21715  [L=68]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (68 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       358  (0.0199677); expected 358.6 (0.02)
Passed bias filter:                      277  (0.0154498); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.30s 00:00:00.75 Elapsed: 00:00:00.45
# Mc/sec: 452.34
//
Query:       PHY93_16485|PHY93_16485  [L=167]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (167 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       936  (0.0522059); expected 358.6 (0.02)
Passed bias filter:                      431  (0.0240393); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.54u 0.36s 00:00:00.90 Elapsed: 00:00:00.47
# Mc/sec: 1066.83
//
Query:       PHY93_21720|PHY93_21720  [L=47]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (47 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       542  (0.0302304); expected 358.6 (0.02)
Passed bias filter:                      271  (0.0151152); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.30s 00:00:00.71 Elapsed: 00:00:00.43
# Mc/sec: 327.18
//
Query:       PHY93_21725|PHY93_21725  [L=47]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (47 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       915  (0.0510346); expected 358.6 (0.02)
Passed bias filter:                      383  (0.021362); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.29s 00:00:00.72 Elapsed: 00:00:00.42
# Mc/sec: 339.92
//
Query:       PHY93_18340|PHY93_18340  [L=196]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (196 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       603  (0.0336327); expected 358.6 (0.02)
Passed bias filter:                      453  (0.0252663); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.34s 00:00:00.84 Elapsed: 00:00:00.44
# Mc/sec: 1336.82
//
Query:       PHY93_18345|PHY93_18345  [L=221]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (221 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       776  (0.0432818); expected 358.6 (0.02)
Passed bias filter:                      406  (0.0226449); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.35s 00:00:00.85 Elapsed: 00:00:00.44
# Mc/sec: 1510.77
//
Query:       PHY93_18350|PHY93_18350  [L=289]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    3.3e-32  112.0   3.6    5.1e-32  111.4   0.2    2.1  2  YicC_N     YicC-like family, N-terminal region
    1.2e-30  105.3   6.1    2.6e-30  104.2   5.0    2.2  2  DUF1732    Domain of unknown function (DUF1732)
  ------ inclusion threshold ------
        2.2    8.5   8.8        1.1    9.4   1.6    2.5  2  Fib_alpha  Fibrinogen alpha/beta chain family


Domain annotation for each model (and alignments):
>> YicC_N  YicC-like family, N-terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  111.4   0.2   8.5e-36   5.1e-32       2     149 ..       4     154 ..       3     156 .. 0.92
   2 ?    1.6   0.3     0.056   3.4e+02      84     144 ..     233     286 ..     178     287 .. 0.53

  Alignments for each domain:
  == domain 1  score: 111.4 bits;  conditional E-value: 8.5e-36
                   YicC_N   2 kSMTGfgraeae.eegkitveikSvNsRfldlslrlpeelraleeeirelikerlsRGkvevsvsleseeeeekalkvneellkay 86 
                              +SMTGfg+a a+ ++  ++veikSvN+Rf d+++++p +l+ale e+++ +++ +sRG+ +v+v+++++e++++  +++ + ++++
  PHY93_18350|PHY93_18350   4 QSMTGFGQAVAQsNNFAVSVEIKSVNNRFKDIRFKMPGSLSALEIELKKELNDLFSRGTFDVYVNVKRAENKSRFDDLDPNKISQF 89 
                              7**********9777*****************************************************998889999********* PP

                   YicC_N  87 lealkelaeelg.aeelslaellrlpgvleeeee.edeleeallealeealealvemRerEGeaL 149
                              +++++ + ++ g   +++++++lr +  +e++ee  +el+e +l+a+++al +l+++Re+EGe+L
  PHY93_18350|PHY93_18350  90 VSKIAPILKSNGlVPQVNMTDFLRSEFFIEQDEEnLSELNELALKAFKDALMSLKKSRESEGEKL 154
                              *****998887667889*******9999964444345579************************9 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.056
                   YicC_N  84 kaylealkelaeelgaeelslaellrlpgvleeeeeede...leeallealeealealvemRer 144
                              ++++++ +e+ +++   ++ ++el r  + +             +++ +a+ ++  +l++mRe+
  PHY93_18350|PHY93_18350 233 QNLIKSSNEVGRQI---DFLIQELNRETNTM-------GsksTMKEISDAVVQMKVQLEKMREQ 286
                              22222222221111...12333333333333.......02223677777777777888888875 PP

>> DUF1732  Domain of unknown function (DUF1732)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.0       1.6   9.4e+03      46      54 ..      49      57 ..      42      62 .. 0.57
   2 !  104.2   5.0   4.3e-34   2.6e-30       1      83 [.     207     289 .]     207     289 .] 0.98

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 1.6
                  DUF1732 46 ElnReanTi 54
                             El++e+n +
  PHY93_18350|PHY93_18350 49 ELKKELNDL 57
                             555555555 PP

  == domain 2  score: 104.2 bits;  conditional E-value: 4.3e-34
                  DUF1732   1 qevallaekldisEElvRlkshlkelrelleeeesvGrkLdFllQElnReanTigskandleitklvvelKseiekirEqvqN 83 
                              qev++++ek+di+EE++R+++hl+++++l++++++vGr++dFl+QElnRe+nT+gsk++  ei+++vv++K+++ek+rEq  N
  PHY93_18350|PHY93_18350 207 QEVVFYLEKIDIHEEINRIHAHLEKFQNLIKSSNEVGRQIDFLIQELNRETNTMGSKSTMKEISDAVVQMKVQLEKMREQGLN 289
                              79******************************************************************************766 PP

>> Fib_alpha  Fibrinogen alpha/beta chain family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.7   0.9     0.022   1.3e+02      54     110 ..     155     209 ..     115     215 .. 0.57
   2 ?    9.4   1.6   0.00019       1.1      32      94 ..     217     281 ..     210     286 .. 0.78

  Alignments for each domain:
  == domain 1  score: 2.7 bits;  conditional E-value: 0.022
                              HHHHHHHHHHHHHHHHHHHHHH.HHHHHHHHHHHHHCCCHHHHHHHCCHHHHHHHHHH CS
                Fib_alpha  54 aeelvkeikdslrekqkskkdn.dnvikksskeleeeilrlketidaqesnirvLqnv 110
                              ++ lvk+++++ + +    ++n d+   +++++l++++ ++k  i   + + r Lq+v
  PHY93_18350|PHY93_18350 155 IKVLVKHLETY-ETHFVIIEGNaDHFKANVEEKLKKRVDDYKSLIE--VDQSRLLQEV 209
                              23333333333.3333334445477777888888888888888884..4455556665 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.00019
                              CCCHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH..HHHHHHHHHHHHHCCCHHH CS
                Fib_alpha  32 dvkkdlekleneleeisnstkeaeelvkeikdslrekqkskkdn..dnvikksskeleeeilrlk 94 
                              d+++++++++ +le+++n  k+++e+ ++i+  ++e +++++    ++++k++s+ + +  ++l+
  PHY93_18350|PHY93_18350 217 DIHEEINRIHAHLEKFQNLIKSSNEVGRQIDFLIQELNRETNTMgsKSTMKEISDAVVQMKVQLE 281
                              7899**************************99888877766653447777777777665555544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (289 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1432  (0.0798706); expected 358.6 (0.02)
Passed bias filter:                      453  (0.0252663); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.61u 0.29s 00:00:00.89 Elapsed: 00:00:00.47
# Mc/sec: 1848.05
//
Query:       PHY93_18355|PHY93_18355  [L=190]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.3e-50  169.4   0.1    7.1e-50  169.2   0.1    1.0  1  Guanylate_kin  Guanylate kinase
    1.8e-06   28.2   0.0      4e-06   27.0   0.0    1.6  1  AAA_33         AAA domain
    1.9e-05   25.2   0.0    3.1e-05   24.5   0.0    1.4  1  AAA_18         AAA domain
    0.00014   22.1   0.0    0.00025   21.3   0.0    1.8  1  AAA_22         AAA domain
    0.00015   22.3   0.0    0.00017   22.1   0.0    1.3  1  ABC_tran       ABC transporter
    0.00064   19.8   0.0    0.00094   19.2   0.0    1.7  1  MMR_HSR1       50S ribosome-binding GTPase
    0.00079   19.4   0.1     0.0031   17.4   0.0    1.9  2  RsgA_GTPase    RsgA GTPase
     0.0051   16.7   0.1      0.014   15.4   0.0    1.8  1  Rad17          Rad17 P-loop domain
  ------ inclusion threshold ------
      0.012   16.0   0.0       0.02   15.3   0.0    1.6  1  AAA_16         AAA ATPase domain
      0.017   14.9   0.0      0.027   14.2   0.0    1.3  1  AAA_30         AAA domain
      0.019   14.6   0.1       0.17   11.5   0.1    2.0  2  AAA_25         AAA domain
      0.026   14.3   0.0      0.063   13.0   0.0    1.6  1  AAA_24         AAA domain
      0.031   13.8   0.0      0.055   13.0   0.0    1.4  1  AAA_7          P-loop containing dynein motor region
      0.042   14.6   0.0         10    6.9   0.0    2.6  2  PTS_IIB        PTS system, Lactose/Cellobiose specific IIB su
      0.073   11.9   0.0        4.9    5.8   0.0    2.2  2  Adeno_IVa2     Adenovirus IVa2 protein
       0.08   13.2   0.1       0.14   12.4   0.1    1.9  1  AAA_28         AAA domain
       0.08   12.9   0.3        7.6    6.4   0.0    2.2  2  JAKMIP_CC3     JAKMIP CC3 domain
      0.087   12.8   0.1       0.15   12.0   0.1    1.3  1  PPL4           Prim-pol 4
      0.093   11.5   0.3       0.21   10.4   0.0    1.7  2  AAA_35         AAA-like domain


Domain annotation for each model (and alignments):
>> Guanylate_kin  Guanylate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  169.2   0.1   7.5e-53   7.1e-50       2     180 ..       8     187 ..       7     189 .. 0.96

  Alignments for each domain:
  == domain 1  score: 169.2 bits;  conditional E-value: 7.5e-53
                              SSEEEEESTTTSSHHHHHHHHHHHSTTTEEE--EEESS---TTS-TTTSEEE--HHHHHHHHHTTTEEEEEEETTEEEEEEHHHHH CS
            Guanylate_kin   2 rrpvvlvgpsgaGksslkkaLlselpekfgvsvshtTrdprkgevdGkdYyFvskeemekdiskneflEaaefsgnlygtsveaie 87 
                               +++v+v+psg+Gks+++k L + +p+    svs+tTr+ r+gev+Gk Y+F+s+ee+ ++ ++neflE+ae+++n ygts++ +e
  PHY93_18355|PHY93_18355   8 GKLIVIVAPSGTGKSTMIKRLKEDFPSIV-ESVSYTTRPMRPGEVHGKSYFFISNEEFRAMRDNNEFLEWAEVHNNFYGTSKKFVE 92 
                              589*****************999999875.69****************************************************** PP

                              HHHHTTSEEEEE--CHHHHHHHHT.TTTEEEEEEEESSHHHHHHHHTTSSSSHHHHHHHHHHHHHHHHGGG.CSSEEEEESSHHHH CS
            Guanylate_kin  88 evlekgkiviLDvdiqavkqlrka.elspiivFikppslkelqrrlksrgkeqeeklakrlaaaekelqey.efdvvivnddleea 171
                              e l+ g++ + D d+q+  ++++  + ++ ++Fi pps++el++rl++rg+e+ ++++ rl +a+kel    ++d++i ndd+e+a
  PHY93_18355|PHY93_18355  93 ECLAAGRNLLFDLDVQGTDSMKAYfKEKANVIFISPPSVEELEKRLRHRGTESTQVINIRLMNARKELLRKnDYDFLIYNDDIEKA 178
                              **********************998999***************************************999968************* PP

                              HHHHHHHHH CS
            Guanylate_kin 172 lkklkelle 180
                              +kkl e+ +
  PHY93_18355|PHY93_18355 179 YKKLCEITQ 187
                              ****99865 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.0   0.0   4.2e-09     4e-06       1     123 [.      10     146 ..      10     162 .. 0.76

  Alignments for each domain:
  == domain 1  score: 27.0 bits;  conditional E-value: 4.2e-09
                   AAA_33   1 lvllvGlpGsGKstlaerllkklg..avllssdt...................lrrrlfgtdqqsktdytrvldrlyqilnelark 65 
                              l+++v ++G+GKst ++rl +  +  ++ +s  t                   ++r+++  d++   ++++v +++y++ ++++++
  PHY93_18355|PHY93_18355  10 LIVIVAPSGTGKSTMIKRLKEDFPsiVESVSYTTrpmrpgevhgksyffisneEFRAMR--DNNEFLEWAEVHNNFYGTSKKFVEE 93 
                              6788889***********99888854444555447777777777777777776666666..44556699***************** PP

                   AAA_33  66 alsagrnvildatnlsrrerarflklarrlgvpvrivvvetdeetlkeRlakRaangd 123
                              +l+agrn+++d   l+ +  + + + +++      i +  ++ e+l++Rl+ R  +++
  PHY93_18355|PHY93_18355  94 CLAAGRNLLFD---LDVQGTDSMKAYFKEKA--NVIFISPPSVEELEKRLRHRGTEST 146
                              ***********...67777777777777444..4677777888999999999998754 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.5   0.0   3.3e-08   3.1e-05       1     117 [.      11     145 ..      11     162 .. 0.73

  Alignments for each domain:
  == domain 1  score: 24.5 bits;  conditional E-value: 3.3e-08
                   AAA_18   1 IlltGtpGvGKttlakeLskrl.gf................gvnlrdvakenglllevdpealdeskrldedkldklldaleenss 69 
                              I++  ++G+GK+t+ k+L++    +                + ++ + +++++ + ++d++++ e  ++  ++     + +ee   
  PHY93_18355|PHY93_18355  11 IVIVAPSGTGKSTMIKRLKEDFpSIvesvsyttrpmrpgevHGKSYFFISNEEFRAMRDNNEFLEWAEVHNNFYGTSKKFVEE--- 93 
                              89999*************99975559999999998888888888888888888888888885555555555555555555555... PP

                   AAA_18  70 aleegknlvidghlaeleseaakdikk...vvLtasp.eelleRlekRgyee 117
                               l+ g nl++d  ++   s++a ++ k   +++  +  eel +Rl+ Rg+e+
  PHY93_18355|PHY93_18355  94 CLAAGRNLLFDLDVQGTDSMKAYFKEKanvIFISPPSvEELEKRLRHRGTES 145
                              4789999988854444444444444447756666666************886 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.0   2.7e-07   0.00025       5      30 ..       8      33 ..       4     162 .. 0.91

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 2.7e-07
                   AAA_22  5 agilvvtGesGtGKTtllrrlleqld 30
                              +++v++++sGtGK+t ++rl+e ++
  PHY93_18355|PHY93_18355  8 GKLIVIVAPSGTGKSTMIKRLKEDFP 33
                             689*******************9885 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.1   0.0   1.8e-07   0.00017       5      52 ..       2      55 ..       1     165 [. 0.74

  Alignments for each domain:
  == domain 1  score: 22.1 bits;  conditional E-value: 1.8e-07
                             EEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG......B CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......x RF
                 ABC_tran  5 slklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke......q 52
                             s ++k+g++++iv ++G+GKSt++k l +      +++ +  ++++        
  PHY93_18355|PHY93_18355  2 SNQIKAGKLIVIVAPSGTGKSTMIKRLKEDFPSIVESVSYTTRPMRPgevhgkS 55
                             6689************************99999999998888888773333322 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.2   0.0     1e-06   0.00094       2      48 ..      11      56 ..      10     186 .. 0.88

  Alignments for each domain:
  == domain 1  score: 19.2 bits;  conditional E-value: 1e-06
                             EEEEESTTSSHHHHHHHHHTS.TEEESSSTTSSSSEEEEEEEETTEEE CS
                 MMR_HSR1  2 vaivGrpNvGKStLinaltge.kaivsdkpgtTrdinegrvklkgkei 48
                             ++iv  + +GKSt+i++l ++  +iv++   tTr ++ g+v+  gk++
  PHY93_18355|PHY93_18355 11 IVIVAPSGTGKSTMIKRLKEDfPSIVESVSYTTRPMRPGEVH--GKSY 56
                             67888999************989***************9998..5444 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.0   3.3e-06    0.0031      96     132 ..       4      41 ..       1      47 [. 0.83
   2 ?   -1.3   0.0       1.8   1.7e+03      65      95 ..     154     184 ..     143     188 .. 0.77

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 3.3e-06
                              HCTT.SEEEEECSTTSSHHHHHHHHCTT-----S---- CS
              RsgA_GTPase  96 llkd.ktsvlvGqSGvGKStLinallpelelktgevse 132
                              ++k  k++v+v +SG GKSt+i++l+++    +++vs 
  PHY93_18355|PHY93_18355   4 QIKAgKLIVIVAPSGTGKSTMIKRLKEDFPSIVESVSY 41 
                              555559********************998888888875 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 1.8
                              HHHHHHHHHHTTSEEEE--TTTHTTHHHHHH CS
              RsgA_GTPase  65 leelkeelealgyevllvsaktkegleelke 95 
                              +++ ke l++ +y++l+ + + ++++++l e
  PHY93_18355|PHY93_18355 154 MNARKELLRKNDYDFLIYNDDIEKAYKKLCE 184
                              5677888999999999999888888887765 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   1.4e-05     0.014      45     112 ..       8      83 ..       1     117 [. 0.65

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 1.4e-05
                    Rad17  45 kriLLisGPsGCgkstvvkvLskel...giklrewlnpvs...lkepdn...qksdfkgltekesrflsqiesfkel 112
                               ++++i  PsG gkst++k L   +   + ++     p+    ++  ++    +++f+++ + ++ fl   e+++++
  PHY93_18355|PHY93_18355   8 GKLIVIVAPSGTGKSTMIKRLKEDFpsiVESVSYTTRPMRpgeVHGKSYffiSNEEFRAMRDNNE-FLEWAEVHNNF 83 
                              35999****************66541112233333333331113333334566677777766666.77777777766 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.3   0.0   2.1e-05      0.02      24      48 ..       8      32 ..       2     181 .. 0.71

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 2.1e-05
                   AAA_16 24 pelvllsGesGvGKsslvrellral 48
                             + l++++ +sG+GKs+++++l++ +
  PHY93_18355|PHY93_18355  8 GKLIVIVAPSGTGKSTMIKRLKEDF 32
                             37899***************99843 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   2.8e-05     0.027      19      40 ..       9      30 ..       2      43 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 2.8e-05
                   AAA_30 19 rvavltGpAGtGKttalkalre 40
                             ++ v+++p GtGK+t++k l+e
  PHY93_18355|PHY93_18355  9 KLIVIVAPSGTGKSTMIKRLKE 30
                             5899**************9987 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   0.00018      0.17      30      50 ..       5      25 ..       1      29 [. 0.89
   2 ?    1.3   0.0      0.23   2.1e+02     104     139 ..     103     140 ..      57     180 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00018
                   AAA_25 30 lpagelallaGapgtGKttla 50
                             + ag+l+++++++gtGK+t+ 
  PHY93_18355|PHY93_18355  5 IKAGKLIVIVAPSGTGKSTMI 25
                             789****************85 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.23
                   AAA_25 104 lvldlagveslpLfakdrggtl..ltadvdaleaaiee 139
                              + ld++g +s+  ++k++ + +   ++ v++le+++++
  PHY93_18355|PHY93_18355 103 FDLDVQGTDSMKAYFKEKANVIfiSPPSVEELEKRLRH 140
                              44444444666666666666666447777777777665 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   6.7e-05     0.063       4      24 ..      10      30 ..       7      40 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 6.7e-05
                   AAA_24  4 kiliyGpsgiGKTtlakelgp 24
                              i+i++psg+GK+t++k+l++
  PHY93_18355|PHY93_18355 10 LIVIVAPSGTGKSTMIKRLKE 30
                             699***************954 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   5.9e-05     0.055      29      58 ..       4      33 ..       1      46 [. 0.83

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 5.9e-05
                    AAA_7 29 llknkkpvllvGptGtGKtviikdllkkld 58
                              +k++k +++v p+GtGK+++ik+l + ++
  PHY93_18355|PHY93_18355  4 QIKAGKLIVIVAPSGTGKSTMIKRLKEDFP 33
                             5789999****************9988777 PP

>> PTS_IIB  PTS system, Lactose/Cellobiose specific IIB subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.9   0.0     0.011        10       2      22 ..      11      30 ..      10      75 .. 0.89
   2 ?    5.3   0.0     0.034        32      28      82 ..     100     154 ..      87     181 .. 0.65

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.011
                             EEEEESSSHHHHHHHHHHHHH CS
                  PTS_IIB  2 illaCgaGmatSlmaaeklek 22
                             i+++ ++G + S+m+ ++l++
  PHY93_18355|PHY93_18355 11 IVIVAPSGTGKSTMI-KRLKE 30
                             99*************.88876 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.034
                              T....EEEEETTEEGGGHHHHHHT-SEEEEEESSGG..CTHHHHTT.SEEEEECTTHHHCCH CS
                  PTS_IIB  28 g....ieaegeagveleaeeiaddaDlvllapqvrv..kdlarfag.kpvavinikdalgim 82 
                              +    ++++g+ +     +  +++a +++++p      ++  r+ g    +vini+     m
  PHY93_18355|PHY93_18355 100 NllfdLDVQGTDSM---KAYFKEKANVIFISPPSVEelEKRLRHRGtESTQVINIRL----M 154
                              25666788888888...4444555889999986664365555555532344444443....3 PP

>> Adeno_IVa2  Adenovirus IVa2 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.1   0.0     0.018        17      91     107 ..      12      28 ..       3      43 .. 0.88
   2 ?    5.8   0.0    0.0052       4.9     294     329 ..     153     187 ..     117     189 .. 0.77

  Alignments for each domain:
  == domain 1  score: 4.1 bits;  conditional E-value: 0.018
               Adeno_IVa2  91 viyGPtGsGksqllrnl 107
                              vi  P G+Gks +++ l
  PHY93_18355|PHY93_18355  12 VIVAPSGTGKSTMIKRL 28 
                              899**********9987 PP

  == domain 2  score: 5.8 bits;  conditional E-value: 0.0052
               Adeno_IVa2 294 llkaifefleqksrysfilynvePvrealrWclldq 329
                              l++a  e l +k++y+f++yn + ++   + c + q
  PHY93_18355|PHY93_18355 153 LMNARKE-LLRKNDYDFLIYNDDIEKAYKKLCEITQ 187
                              5555544.7789**********99998888998876 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   0.00015      0.14       2      28 ..      11      37 ..      10     177 .. 0.92

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.00015
                   AAA_28  2 ivitGgestGKTtlleaLaargypvvp 28
                             ivi+ +++tGK+t++++L+++  ++v+
  PHY93_18355|PHY93_18355 11 IVIVAPSGTGKSTMIKRLKEDFPSIVE 37
                             899999*************98766665 PP

>> JAKMIP_CC3  JAKMIP CC3 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.1     0.032        30     169     184 ..      61      76 ..      59      81 .. 0.89
   2 ?    6.4   0.0    0.0081       7.6     124     156 ..     131     162 ..     122     184 .. 0.87

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.032
               JAKMIP_CC3 169 kqeiqdlrdqnelLEf 184
                              ++e +++rd ne+LE+
  PHY93_18355|PHY93_18355  61 NEEFRAMRDNNEFLEW 76 
                              6899***********7 PP

  == domain 2  score: 6.4 bits;  conditional E-value: 0.0081
               JAKMIP_CC3 124 ikdLeeaLaqkGqdskwveekQalikrnqeLve 156
                              +++Le+ L+++G +s+ v +   l++  +eL+ 
  PHY93_18355|PHY93_18355 131 VEELEKRLRHRGTESTQVINIR-LMNARKELLR 162
                              89**************999865.8888888754 PP

>> PPL4  Prim-pol 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.1   0.00015      0.15      37      82 ..      58     111 ..      47     125 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00015
                     PPL4  37 hir...fdpealyneilnlyka......eksimyveEirtekfrLylDiDlkvke 82 
                              +i+   f+  +  ne+l+ +++        s+++veE + +  +L +D+D++ + 
  PHY93_18355|PHY93_18355  58 FISneeFRAMRDNNEFLE-WAEvhnnfyGTSKKFVEECLAAGRNLLFDLDVQGTD 111
                              344666777777777775.55556567689********************87665 PP

>> AAA_35  AAA-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0   0.00022      0.21      28      52 ..       5      29 ..       1      41 [. 0.89
   2 ?   -2.2   0.0       1.5   1.4e+03     251     275 ..     158     182 ..     143     188 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00022
                   AAA_35 28 ekpGalirikapkkmGKtSLlaril 52
                              k+G+li i ap+ +GK+ +++r+ 
  PHY93_18355|PHY93_18355  5 IKAGKLIVIVAPSGTGKSTMIKRLK 29
                             589*******************986 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 1.5
                   AAA_35 251 eelleeaateegiYsdhLrrllvkL 275
                              +ell++   +  iY+d +++ + kL
  PHY93_18355|PHY93_18355 158 KELLRKNDYDFLIYNDDIEKAYKKL 182
                              5777888888888888888777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (190 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       813  (0.0453455); expected 358.6 (0.02)
Passed bias filter:                      624  (0.0348039); expected 358.6 (0.02)
Passed Vit filter:                       109  (0.00607954); expected 17.9 (0.001)
Passed Fwd filter:                        19  (0.00105974); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              19  [number of targets reported over threshold]
# CPU time: 0.61u 0.38s 00:00:00.99 Elapsed: 00:00:00.46
# Mc/sec: 1242.69
//
Query:       PHY93_18360|PHY93_18360  [L=732]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    6.5e-49  165.7   0.1    1.1e-48  164.9   0.1    1.4  1  HD_4       HD domain
    3.7e-35  120.7   3.1    4.9e-35  120.3   0.0    2.8  3  RelA_SpoT  Region found in RelA / SpoT proteins
    1.9e-22   79.1   0.0    4.2e-22   78.0   0.0    1.6  1  TGS        TGS domain
    3.8e-11   43.4   0.1    3.8e-11   43.4   0.1    3.1  4  ACT_4      ACT domain
    1.6e-08   34.8   1.1    4.2e-08   33.4   0.4    2.1  2  HD         HD domain
    2.2e-07   30.5   0.0    7.1e-07   28.9   0.0    2.0  1  ACT        ACT domain
  ------ inclusion threshold ------
      0.013   16.1   0.0      0.037   14.7   0.0    1.8  1  ThiS       ThiS family
      0.058   13.2   0.0       0.12   12.2   0.0    1.5  1  Ub-Mut7C   Mut7-C ubiquitin
      0.083   12.8   0.8        3.9    7.4   0.1    2.6  2  DUF1514    Protein of unknown function (DUF1514)
       0.15   11.6   0.0       0.36   10.4   0.0    1.6  1  CinA       Competence-damaged protein


Domain annotation for each model (and alignments):
>> HD_4  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  164.9   0.1   6.3e-52   1.1e-48       1     155 [.      37     186 ..      37     187 .. 0.98

  Alignments for each domain:
  == domain 1  score: 164.9 bits;  conditional E-value: 6.3e-52
                     HD_4   1 AlelaaelhagqrkltgepllahalevAailaelgldaetviAalLhdvveda.lsleeirerfGeevarLvegvsklkrlqkvaa 85 
                              A+ +a+++h+gq++ +ge+++ h++ vAa l +l++d +t+iA+lLhdvved+  s  ei+++f+  va+Lv g++k+++++ +  
  PHY93_18360|PHY93_18360  37 AYLFAEKAHRGQKRSSGEDYIIHPVNVAATLIRLHMDIDTIIAGLLHDVVEDCnISPMEIEKEFNLGVADLVVGLTKISKIKFK-- 120
                              6779*************************************************7777*************************99.. PP

                     HD_4  86 adeaeekaeqvenlRkmLlAmveDirvvliklAdrlqtlrslaaakeekrrdvaretldiyaplAnrlGi 155
                                   ++++q+en+Rkm +Am++D+rv+++klAdr++++r+l+  ++ek++++a+etldiy plA rlGi
  PHY93_18360|PHY93_18360 121 ----TKEESQIENFRKMVVAMAKDLRVIIVKLADRMHNMRTLQYVSDEKQKKIAQETLDIYVPLASRLGI 186
                              ....899**************************************************************8 PP

>> RelA_SpoT  Region found in RelA / SpoT proteins
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.3       1.8   3.2e+03      23      59 ..     129     167 ..     113     193 .. 0.54
   2 ?   -3.9   0.1       8.8   1.6e+04       7      26 ..     207     226 ..     205     229 .. 0.69
   3 !  120.3   0.0   2.7e-38   4.9e-35       1     115 [.     246     355 ..     246     357 .. 0.98

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 1.8
                              CCCCSSTSEE..EEEEESSHHHHHHHHHHHHT-SSSEEE CS
                RelA_SpoT  23 kfeeitDlig..iRvivefkddvyevlelikklwdvkpk 59 
                              +f+++   ++  +Rvi+ +  d  + ++ ++   d k+k
  PHY93_18360|PHY93_18360 129 NFRKMVVAMAkdLRVIIVKLADRMHNMRTLQYVSDEKQK 167
                              344433333333666666655555555555544444443 PP

  == domain 2  score: -3.9 bits;  conditional E-value: 8.8
                              HHHHHHHHHCT--CCCCCCC CS
                RelA_SpoT   7 ysiieKlerkgikveekfee 26 
                              y+++eK+  k+ +++++ +e
  PHY93_18360|PHY93_18360 207 YRLAEKVSMKKSERDNYIRE 226
                              67888888888666666655 PP

  == domain 3  score: 120.3 bits;  conditional E-value: 2.7e-38
                              EEE--HHHHHHHHHHCT--CCCCCCCSSTSEEEEEEESSHHHHHHHHHHHHT-SSSEEEEEEETSTSHCTTCCSEEEEEEEETTEE CS
                RelA_SpoT   1 gRvKslysiieKlerkgikveekfeeitDligiRvivefkddvyevlelikklwdvkpkrfkdyiaepkengYrslHtvvssekge 86 
                              gR+K++ysi++K++++g     +fe+++Dl+++R iv++++++y++l++i++ + ++p+rfkdyia+pk n+Y+slHt+v    g+
  PHY93_18360|PHY93_18360 246 GRPKHFYSIYKKMTSRG-V---DFEQVQDLLAFRLIVSNITECYKALGIIHSSFIPIPGRFKDYIAIPKVNNYQSLHTAV---IGP 324
                              6****************.6...7*********************************************************...*** PP

                              EEEEEEEEEEEHHHHHHHH..HHHHHHHHCT CS
                RelA_SpoT  87 ekvlvEiQiRtiamdawae..iehhlrYkek 115
                              +  ++EiQiRt +md++ae  +++h++Yke+
  PHY93_18360|PHY93_18360 325 RAERIEIQIRTNEMDEVAEagVAAHWKYKEG 355
                              *****************************86 PP

>> TGS  TGS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.0   0.0   2.3e-25   4.2e-22       1      60 []     396     455 ..     396     455 .. 0.98

  Alignments for each domain:
  == domain 1  score: 78.0 bits;  conditional E-value: 2.3e-25
                              EEEEETTSSEEEEETTB-HHHHHHHHSTTHHHHEEEEEECSEEEETTSBB-SSEEEEEEE CS
                      TGS   1 irvytPdGkvpdlprgatveDfAykIhrslakkfiyAlVnGqrvgldhvLedgdvveIvt 60 
                              ++v+tP+G+v +l+ gat+ DfAy Ih+++++++++A++nG++v+l h L++gd +eI+t
  PHY93_18360|PHY93_18360 396 VFVFTPKGDVRELKYGATPLDFAYEIHTEVGHHCVGAKINGKIVPLRHILKSGDSIEILT 455
                              68********************************************************97 PP

>> ACT_4  ACT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.2       3.9     7e+03      35      69 ..     115     148 ..     112     178 .. 0.62
   2 ?   -3.5   0.0       9.5   1.7e+04      14      30 ..     218     234 ..     213     247 .. 0.70
   3 ?   -0.6   0.5       1.2   2.1e+03      11      48 ..     558     594 ..     557     608 .. 0.78
   4 !   43.4   0.1   2.1e-14   3.8e-11       5      79 ..     659     732 .]     656     732 .] 0.96

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 3.9
                    ACT_4  35 vsvnaktrkkdglaeikitveVkdvehLsrviakL 69 
                              +++++kt++ ++  e   ++ V  +++L+ +i kL
  PHY93_18360|PHY93_18360 115 SKIKFKTKE-ESQIENFRKMVVAMAKDLRVIIVKL 148
                              555555543.4455555555555555555555554 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 9.5
                    ACT_4  14 edrkglLaditqvisee 30 
                              + r++ ++++++ i+e+
  PHY93_18360|PHY93_18360 218 SERDNYIREVITSIKEK 234
                              56777777777777664 PP

  == domain 3  score: -0.6 bits;  conditional E-value: 1.2
                    ACT_4  11 veaedrkglLaditqviseekanivsvnaktrkkdgla 48 
                              v a++ +gl  +i+++ s +k+  ++v+ kt+++ + +
  PHY93_18360|PHY93_18360 558 VLAQNVTGLEDKISEIESYSKTMTKNVRKKTHSD-NAV 594
                              779999999999*9999999*******9999875.333 PP

  == domain 4  score: 43.4 bits;  conditional E-value: 2.1e-14
                    ACT_4   5 ytvrleveaedrkglLaditqviseekanivsvnaktrkkdglaeikitveVkdvehLsrviakLraipgVisVe 79 
                              ++v+++v+++d++g+L+ i+++i+++++ni+s  ak+   d   ++ +++eVkd ++L + i +++++++VisV+
  PHY93_18360|PHY93_18360 659 HPVSVRVMTQDKPGILSLISKTINNTGINIRSAMAKSMP-DRKGSFIFEIEVKDYSELLKTISSIESLEEVISVT 732
                              689**********************************75.99*******************************95 PP

>> HD  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.4   0.4   2.4e-11   4.2e-08       1     122 []      56     155 ..      56     155 .. 0.83
   2 ?   -2.0   0.0       2.3   4.1e+03      59      85 ..     490     513 ..     476     553 .. 0.72

  Alignments for each domain:
  == domain 1  score: 33.4 bits;  conditional E-value: 2.4e-11
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTHHHHTS..HHHHHHCTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                       HD   1 rleHsleVaklarrlaedlgeeedrellllaaLlHDiGkgpfgdafekkeeefekflaHekvgaeilrevekrlgldledvaklir 86 
                              +++H+++Va  + rl +d++       + +a+LlHD++++ + +   ++e+ef+  +a  +vg +++++++   ++        i+
  PHY93_18360|PHY93_18360  56 YIIHPVNVAATLIRLHMDID-------TIIAGLLHDVVEDCNIS-PMEIEKEFNLGVADLVVGLTKISKIKFKTKE-----ESQIE 128
                              689*****************.......*************9443.333467799999*****************88.....55555 PP

                              TTCCHHHHHHHHHHHHCCTSCHHHHHHHHHHHHHHH CS
                       HD  87 ehheswegkkrprglaerqlslearivklaDrlaam 122
                              + +++ +         +++++l+++ivklaDr+++m
  PHY93_18360|PHY93_18360 129 NFRKMVV---------AMAKDLRVIIVKLADRMHNM 155
                              5555555.........3466667***********98 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 2.3
                              HHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                       HD  59 Hekvgaeilrevekrlgldledvakli 85 
                              + + g+ il++++k +g++   +  l 
  PHY93_18360|PHY93_18360 490 NRDLGRDILEKAFKAFGTS---IKTLK 513
                              5678899999999998873...33333 PP

>> ACT  ACT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.9   0.0     4e-10   7.1e-07       2      66 ..     662     726 ..     661     727 .. 0.88

  Alignments for each domain:
  == domain 1  score: 28.9 bits;  conditional E-value: 4e-10
                              EEEEEEESSTTHHHHHHHHHHHTTSEEEEEEEEEESTTECEEEEEEEEEEHHHHHHHHHHHHTTC CS
                      ACT   2 vlrvgvpDrPGlLarvfgaladrgiNidsieqrssedkvagivfvvivvdeedleevlealkkle 66 
                              ++rv  +D+PG+L+ ++ ++ + giNi+s+  +s+ d+ ++++f ++v d ++l +++  +++le
  PHY93_18360|PHY93_18360 662 SVRVMTQDKPGILSLISKTINNTGINIRSAMAKSMPDRKGSFIFEIEVKDYSELLKTISSIESLE 726
                              789999*******************************8888888888888888888887777776 PP

>> ThiS  ThiS family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.0     2e-05     0.037      42      72 ..     428     455 ..     405     456 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 2e-05
                              TTEEEEETTEEEGCCTTTSB--TTCEEEEEE CS
                     ThiS  42 rrvavavNgeivprlwldtelkdgDevailp 72 
                                v + +Ng+ivp     ++lk+gD ++il+
  PHY93_18360|PHY93_18360 428 HCVGAKINGKIVPL---RHILKSGDSIEILT 455
                              668899********...************97 PP

>> Ub-Mut7C  Mut7-C ubiquitin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   6.9e-05      0.12      46      78 ..     422     458 ..     422     461 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 6.9e-05
                 Ub-Mut7C  46 htEVel....ilvnGesvgfshiledGdrvavypvfe 78 
                              htEV+      ++nG+ v++ hil+ Gd++++ + + 
  PHY93_18360|PHY93_18360 422 HTEVGHhcvgAKINGKIVPLRHILKSGDSIEILTSKT 458
                              7777752222478******************998765 PP

>> DUF1514  Protein of unknown function (DUF1514)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.1     0.054        96       9      35 ..     137     163 ..     132     172 .. 0.81
   2 ?    7.4   0.1    0.0022       3.9      16      60 ..     534     576 ..     533     578 .. 0.84

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.054
                  DUF1514   9 lailLLvllsiisdkakeieaLeYmnd 35 
                              +a  L v++   +d++++++ L+Y+ d
  PHY93_18360|PHY93_18360 137 MAKDLRVIIVKLADRMHNMRTLQYVSD 163
                              55567899999*************987 PP

  == domain 2  score: 7.4 bits;  conditional E-value: 0.0022
                  DUF1514  16 llsiisdkakeieaLeYmndYLldelvktkGveGLedYeieleri 60 
                              ++ + s k    + LeY+    l+e+v  + v GLed   e+e  
  PHY93_18360|PHY93_18360 534 CVQVGSGKYSAKQVLEYIPS--LKEVVLAQNVTGLEDKISEIESY 576
                              66777888888899999986..9**************99999865 PP

>> CinA  Competence-damaged protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0    0.0002      0.36      35     101 ..     534     600 ..     530     633 .. 0.92

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.0002
                     CinA  35 tsvpGaSavfeggvvtYsneaKeelLgvseetleehgavSeevaeemaegarerlgadiavavtGiA 101
                              +   G+ ++  + v  Y  ++Ke +L  + + le + +  e + + m +++r+++++d av v G++
  PHY93_18360|PHY93_18360 534 CVQVGSGKYSAKQVLEYIPSLKEVVLAQNVTGLEDKISEIESYSKTMTKNVRKKTHSDNAVVVDGMS 600
                              5566888888999999*********************************************999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (732 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       887  (0.0494729); expected 358.6 (0.02)
Passed bias filter:                      524  (0.0292264); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.70u 0.36s 00:00:01.06 Elapsed: 00:00:00.47
# Mc/sec: 4696.22
//
Query:       PHY93_18365|PHY93_18365  [L=199]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      3e-10   40.2   0.0    4.2e-10   39.7   0.0    1.3  1  DUF218          DUF218 domain
     0.0091   15.7   0.4      0.012   15.3   0.4    1.1  1  PGAP1           PGAP1-like protein
  ------ inclusion threshold ------
      0.022   15.0   0.3      0.075   13.2   0.1    1.9  2  CH              Calponin homology (CH) domain
      0.074   12.8   0.0      0.083   12.6   0.0    1.2  1  Glyco_hydro_18  Glycosyl hydrolases family 18


Domain annotation for each model (and alignments):
>> DUF218  DUF218 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.7   0.0   9.5e-14   4.2e-10       1     104 [.      47     148 ..      47     186 .. 0.74

  Alignments for each domain:
  == domain 1  score: 39.7 bits;  conditional E-value: 9.5e-14
                   DUF218   1 daivVL.GaalpllaeRldeaaelyrag..k.iivsGggadedvseaeamaeylrelgvpeeailledrsrnTeenarfskell.. 80 
                              d ivV+ G +      R+++a++ +++   + + ++G   +e+ s  ++m  +   + v+  +i l+ ++rnT en++ + ++l  
  PHY93_18365|PHY93_18365  47 DLIVVFtG-G----PGRIEYAIKKAQEFkqPnVFITGV--HEKNSVKNIMNTI-NPQEVD--HIELDYTARNTVENVVSTLKYLrn 122
                              68999944.3....47******9999996526****94..3455555555543.335666..7*********************** PP

                   DUF218  81 ..kersillVTsafHmpRalllfrka 104
                                + ++il+++s++H+ R + + + +
  PHY93_18365|PHY93_18365 123 nrGLNKILIISSDYHIMRIKQIINTL 148
                              *74459*************9999877 PP

>> PGAP1  PGAP1-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.4   2.7e-06     0.012     111     225 ..      77     185 ..      72     191 .. 0.88

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 2.7e-06
                    PGAP1 111 lknyikqsvntiltlasPhalpplsfdkdilklyervnefwkkeleekeklenvllvsitggirdsmvpaeyssleelvpstngls 196
                                 + k+sv++i+    P +   +++d +  +  e+v + +k   +++  l+++l++s     +d+++    +++++l+++  ++s
  PHY93_18365|PHY93_18365  77 TGVHEKNSVKNIMNTINPQEVDHIELDYTARNTVENVVSTLKYLRNNR-GLNKILIIS-----SDYHIMRIKQIINTLIKEDDKFS 156
                              5568899********************999999999999988776666.488888887.....799999999************** PP

                    PGAP1 197 vattsipkvwlsidhlaivwckqlrrvva 225
                               + +++++ +ls  +  i++++ +  v  
  PHY93_18365|PHY93_18365 157 FYFSAVTSNYLSFRNIKILYIETFKLVRT 185
                              *********************99987655 PP

>> CH  Calponin homology (CH) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.0      0.48   2.1e+03      64      84 ..      58      78 ..      57      88 .. 0.78
   2 ?   13.2   0.1   1.7e-05     0.075      39     100 ..      87     148 ..      84     150 .. 0.89

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.48
                             HHHHHHHHHHHHTTCHTTSS.- CS
                       CH 64 Ninlaldvaekklgvpkvli.e 84
                             +i++a++ a+ +++ p v i +
  PHY93_18365|PHY93_18365 58 RIEYAIKKAQ-EFKQPNVFItG 78
                             6899999999.99999988744 PP

  == domain 2  score: 13.2 bits;  conditional E-value: 1.7e-05
                              HHHHHHSTTTSSGGGSTTTHHHHHHHHHHHHHHHHHHTTCHTTSS-HHHHHTTSHHHHHHHH CS
                       CH  39 kLlnklapglvdkkklnksefkkleNinlaldvaekklgvpkvlieaedlvegknksvltll 100
                              +++n ++p+ vd+ +l +++ + +eN+   l+ ++++ g++k+li ++d    + k+++++l
  PHY93_18365|PHY93_18365  87 NIMNTINPQEVDHIELDYTARNTVENVVSTLKYLRNNRGLNKILIISSDYHIMRIKQIINTL 148
                              689*****************************************988887666666666665 PP

>> Glyco_hydro_18  Glycosyl hydrolases family 18
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   1.9e-05     0.083      87     159 ..      79     140 ..      22     198 .. 0.73

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 1.9e-05
                              HHHHHHHHHHHHHHHHCT-SEEEEEES-TTTSTCHHHHHHHHHHHHHHHHHHHHHHTSTTCEEEEEEESSHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
           Glyco_hydro_18  87 asrkkfadsvvsllrkygfDGiDidweypggnpedkenytallkelrealdkakategkkllLsaavpasasd 159
                               ++k+ ++++++++++  +D i +d+   ++     en +  lk lr+        +g +++L +   ++   
  PHY93_18365|PHY93_18365  79 VHEKNSVKNIMNTINPQEVDHIELDYTARNT----VENVVSTLKYLRNN-------RGLNKILIISSDYHIMR 140
                              678999*********************7766....88999999999992.......34444554444444333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (199 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1107  (0.0617435); expected 358.6 (0.02)
Passed bias filter:                      537  (0.0299515); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.54u 0.37s 00:00:00.91 Elapsed: 00:00:00.44
# Mc/sec: 1349.52
//
Query:       PHY93_18370|PHY93_18370  [L=124]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.3e-37  126.8   0.0    4.8e-37  126.6   0.0    1.0  1  Ribonuc_L-PSP  Endoribonuclease L-PSP
  ------ inclusion threshold ------
       0.14   12.2   0.0       0.22   11.6   0.0    1.3  1  PAS_8          PAS domain


Domain annotation for each model (and alignments):
>> Ribonuc_L-PSP  Endoribonuclease L-PSP
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  126.6   0.0   5.4e-41   4.8e-37       2     119 ..      10     124 .]       9     124 .] 0.97

  Alignments for each domain:
  == domain 1  score: 126.6 bits;  conditional E-value: 5.4e-41
                              TTSTTTSSS-BSEEEETTEEEEEEE-SB-TTTSCB.-SSHHHHHHHHHHHHHHHHHHTT--GGGEEEEEEEESSGGGHHHHHHHHH CS
            Ribonuc_L-PSP   2 eaapaaaapYsqavkagnlvyvsGqlpldpetgelvegdveeqtrqalenlkavLaaagaslsdvVkvtvFladiedfaevnevya 87 
                              ++apaa++pYsq+v  +++ y+sGq++ldp+t+ l  + + +q + +++n++ +L ++g+s ++++k+++F++d+++faevn++y 
  PHY93_18370|PHY93_18370  10 DNAPAAIGPYSQGVGLNGTYYFSGQIGLDPKTQVL-ADGFSAQLKMVMQNIDGLLGSQGLSRDNIIKTSIFVTDLNNFAEVNQAYI 94 
                              79****************************77777.9999********************************************** PP

                              HHSSSSTS--EEEEEE-SBSGGG-SEEEEEEE CS
            Ribonuc_L-PSP  88 eafdelkeaParsaveVaaLpkgakvEIeaia 119
                              e+f+e++  Pars+veV++Lpkg +vEIe+ia
  PHY93_18370|PHY93_18370  95 EFFKEPY--PARSTVEVSKLPKGSLVEIEVIA 124
                              ******7..*********************98 PP

>> PAS_8  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   2.4e-05      0.22      11      37 ..      75     100 ..      72     121 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 2.4e-05
                    PAS_8  11 pdgiavvdlgdrivdvNqaalellGys 37 
                                +i+v+dl++ + +vNqa++e++  +
  PHY93_18370|PHY93_18370  75 KTSIFVTDLNN-FAEVNQAYIEFFKEP 100
                              5689****989.************844 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (124 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       361  (0.020135); expected 358.6 (0.02)
Passed bias filter:                      329  (0.0183502); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.37s 00:00:00.81 Elapsed: 00:00:00.43
# Mc/sec: 856.97
//
Query:       PHY93_18375|PHY93_18375  [L=771]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    7.2e-88  295.0   0.1    1.2e-87  294.3   0.1    1.3  1  PTA_PTB        Phosphate acetyl/butaryl transferase
    4.6e-26   91.7   0.3    1.8e-23   83.3   0.3    2.4  1  malic          Malic enzyme, N-terminal domain
    2.7e-19   69.5   0.2    8.3e-19   67.9   0.2    1.8  1  Malic_M        Malic enzyme, NAD binding domain
     0.0095   15.7   0.1      0.033   13.9   0.0    1.9  2  ELFV_dehydrog  Glutamate/Leucine/Phenylalanine/Valine dehydro


Domain annotation for each model (and alignments):
>> PTA_PTB  Phosphate acetyl/butaryl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  294.3   0.1   2.6e-91   1.2e-87       9     319 .]     451     762 ..     441     762 .. 0.95

  Alignments for each domain:
  == domain 1  score: 294.3 bits;  conditional E-value: 2.6e-91
                              HHCTS--EEEES-TTSHHHHHHHHHHHHTTSSEEEEES-HHHHHHHHHHCTB--TT..-EEE-TTT-CCHHHHHHHHHHHCCCC.S CS
                  PTA_PTB   9 kakkekkrivlpegedervlkAakelleegiadviLigdeaeikakaleldldlsg..ieivdpetsekleeyadelyelrkrkgv 92 
                              +++ +k + +++eg++ r+l A+k+l+ee+  ++iL+g ++ i++k   l+l+  +  ++ v+p++ e+ e+y++ + + r+r gv
  PHY93_18375|PHY93_18375 451 AKRGQKIKMIFAEGTNTRILLAVKQLIEEEKIEPILLGRKKAIHKKMDLLGLENLKdeVKTVNPRKHEQFENYVRMYSKERQRSGV 536
                              355788999*****************************77777777666666654445**************************** PP

                              -HCCHHHHTTSHHHHHHHHHHTTSSSEEEE-TTS-HHHHHHHHHHCT-B-TT----EEEEEEEETTEEEEEESSSS-SS--HHHHH CS
                  PTA_PTB  93 tieearevvrdatyfaamlvklgeaDglvsGavnttadtlrpalqiiktkpgvklvSsvfimlledrlllfaDcavnvnPtaeela 178
                              ti +a+e ++ ++yf+ m+vk+g aD++++G + ++ad   p + +++t++  k ++++fim l++r+l+faDcav+++P+ ++l 
  PHY93_18375|PHY93_18375 537 TIYHAEELMSHQNYFGSMMVKHGLADAVIAGPTLNYADCFPPLMHVLGTQE-KKSAAGIFIMTLKNRVLFFADCAVQIEPNEDQLC 621
                              *************************************************99.78888***************************** PP

                              HHHHHHHHHHHHCCSS--EEEEE-SSSTTSS-SHHHHHHHHHHHHHHHH-TTSEEEEEE-HHHHH-HHHHHHH-TTSTTTT--SEE CS
                  PTA_PTB 179 eialesaktakalgeeeprvAlLSyStkgsakgesvekvrealkivkekapdlvvdGelqlDaAlseevaekkapesevaGkAnvl 264
                              eia  +a+ +++l++ epr+A+LSyS++gs ++e++ kv+ a++++k + p+l v+Ge q+D+A+++++++k +  s++ G  ++l
  PHY93_18375|PHY93_18375 622 EIAAGTADLFRKLMKREPRIAFLSYSNFGSNDHEKAAKVKRAVQLTKTRYPNLLVEGEVQADVAVNKSLMDKLFSFSTLDGPTDIL 707
                              ************************************************************************************** PP

                              E-SSHHHHHHHHHHHHHCCTEEEEEEEEESBSS-EEE--TT--HHHHHHHHHHHH CS
                  PTA_PTB 265 vfPdLeagnigykivqrlakaeaiGPilqGlakPvndlSrgasvedivnvaaita 319
                              +fP+L+++ni+yk++ +la+a+aiGPil+ +++P+n++ r a+v +ivn+ ++ a
  PHY93_18375|PHY93_18375 708 IFPELNSANISYKLLAQLANANAIGPILVPMNHPANIIPRTATVTEIVNMCVLSA 762
                              **************************************************99875 PP

>> malic  Malic enzyme, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   83.3   0.3   4.1e-27   1.8e-23       2     181 ..      28     159 ..      27     160 .. 0.97

  Alignments for each domain:
  == domain 1  score: 83.3 bits;  conditional E-value: 4.1e-27
                              TTECCCCCCHHCCCHHHHHHHHSTTCHHHHHHHHHHHGGCHHSCCCEGGGETCHHHHHTTSS.SS..EEEEE-SSSBTTTBS-G.H CS
                    malic   2 eknetlfykllkekleellpivYtPtvgeacqeyseeyrkarglylsikdkekikeilknlpeedvkvivvtdgeriLGlGdlG.v 86 
                              +k+e++++k++ ++   +l  +Y+P+v+ +c e++++++ ++ +y+s+++                 v+v+++g+++LGlG++G +
  PHY93_18375|PHY93_18375  28 GKIEVVTTKPFLTN--IDLGKAYSPGVAYPCLEIARDPELVY-KYTSKGNL----------------VAVISNGTAVLGLGNIGaL 94 
                              68899999999999..7999**********************.********................******************* PP

                              HHHHHHHHHHHHHHHHHS-EGGGEEEEEECS-BS.HHHHC.TT..S.SSB...SHHHHHHHHHHHHHHHHHHGCTSEEEE-S--CC CS
                    malic  87 agvgimvGKlaLytalagidPekvlpvvldvgtnneelledplYlGlrkkRvkgeeydefvdefveavkelfppkaliqfEDfkak 172
                              ag+++m+GK  L++++a+id   v++++++                             +++ ++++v++l+p+++++++ED+ka+
  PHY93_18375|PHY93_18375  95 AGKPVMEGKGNLFKKFADID---VFDIEVNEP---------------------------TIEGMIKIVAALEPTFGGVNLEDIKAP 150
                              ********************...*******99...........................9************************** PP

                              HHHHHHHHH CS
                    malic 173 nafeilery 181
                              ++fei+ ++
  PHY93_18375|PHY93_18375 151 ECFEIETQL 159
                              *****9876 PP

>> Malic_M  Malic enzyme, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.9   0.2   1.9e-22   8.3e-19       3     232 ..     174     370 ..     172     375 .. 0.88

  Alignments for each domain:
  == domain 1  score: 67.9 bits;  conditional E-value: 1.9e-22
                              HHHHHHHHHHHHHHHHH-S-GGG--EEEEC-SHHHHHHHHHHHHHHHTTTS-HHHHHTTEEEEETTEE-BTT-.S---TTTGGGSB CS
                  Malic_M   3 gTaavalagllaalkitgkklseqkivvlGaGsagiGiaeqivealvkeGlseeeakkkiylvDrkGLltedr.ekleeekkpfak 87 
                              gTa++  a+ l+al++tg+ ++++k+ + GaG+a+i  a++      + Gl +    +++ + D++G + ++r e ++++k +fa 
  PHY93_18375|PHY93_18375 174 GTAIICSAAFLNALEVTGRDIKKTKVAFSGAGAAAISCAKLFF----ELGLPR----ENLIMCDSNGAIYKGRkEGMNKYKDEFAV 251
                              9***********************************9888765....558765....589************94559999999998 PP

                              S--SS--S....SHHHHHHHH--SEEEE-SSSSS-S-HHHHHHHHHHSSS-EEEE--SSGGGSSS-HHHHHHHTTT-SEEEESS-- CS
                  Malic_M  88 kkeelkeakdkltLeevvkkvkptvliGlsgvagafteeivremaksterPiilplSNPtskaEataedvlkwtdgkalvasGsPf 173
                              +++         tL+++ k   +++ +G+s+ +g+ t+++v++mak    Pii+++ NP+   E  +++v+++ d +al+a+G   
  PHY93_18375|PHY93_18375 252 DTKAR-------TLADAFKG--ADAFVGCSA-RGLVTQDMVKSMAK---DPIIFAMANPDP--EIYPSEVHAVRD-DALMATG--- 318
                              77654.......69999997..57899**97.6899********86...7*********86..889***998866.6899998... PP

                              --EEETSEEE--EE--GGGTHHHHHHHHHHTT-SS--HHHHHHHHHHHHTT--HHHHHT CS
                  Malic_M 174 kpvelngktyeigQaNNayifPglglgvivarakritdemllaaaealaelvseeelke 232
                                     +   ++Q NN++ fP +  g++ +ra++i+ +m laa  ala+l++ee ++e
  PHY93_18375|PHY93_18375 319 -------RSDFPNQVNNVLCFPFIFRGALDTRATKINIQMKLAAVYALADLAKEEVTEE 370
                              .......456689***************************************9998776 PP

>> ELFV_dehydrog  Glutamate/Leucine/Phenylalanine/Valine dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.9   0.0   7.5e-06     0.033      14      75 ..     179     244 ..     168     291 .. 0.76
   2 ?   -2.9   0.0         1   4.5e+03     138     162 ..     456     481 ..     414     488 .. 0.62

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 7.5e-06
                              HHHHHHHHHHHTTTS-STTEEEEEE--SHHHHHHHHHHHHCT..-EEEEEEESSEEEE..ETTEE.- CS
            ELFV_dehydrog  14 vvyyveemlkklkldslegkrvaisGsGnvgsyaallltelg..akvvavsDssGviy..dpeGl.d 75 
                              + ++  ++l+   ++++++++va sG G  +  +a+l+ elg   + + + Ds+G+iy   +eG+ +
  PHY93_18375|PHY93_18375 179 CSAAFLNALEV-TGRDIKKTKVAFSGAGAAAISCAKLFFELGlpRENLIMCDSNGAIYkgRKEGMnK 244
                              45555566666.4556************************98545778899*******666788843 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 1
                              T-S.EEE-SSSS-B-HHHHHHHHHTT CS
            ELFV_dehydrog 138 gvk.lvvEgANlpttqeAkeileeag 162
                              ++k +++Eg N  +  + k+++ee++
  PHY93_18375|PHY93_18375 456 KIKmIFAEGTNTRILLAVKQLIEEEK 481
                              33303456666666666666666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (771 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       525  (0.0292822); expected 358.6 (0.02)
Passed bias filter:                      468  (0.026103); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.75u 0.37s 00:00:01.12 Elapsed: 00:00:00.48
# Mc/sec: 4835.80
//
Query:       PHY93_16490|PHY93_16490  [L=497]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    7.9e-30  103.5   1.4    2.6e-16   59.7   0.1    2.3  2  PLDc_2       PLD-like domain
    3.6e-06   26.9   0.3      0.065   13.4   0.0    2.6  2  PLDc         Phospholipase D Active site motif
     0.0097   14.9   0.6     0.0097   14.9   0.6    1.8  2  5_nucleotid  5' nucleotidase family


Domain annotation for each model (and alignments):
>> PLDc_2  PLD-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.7   0.1   4.3e-20   2.6e-16       3     133 .]      71     211 ..      70     211 .. 0.85
   2 !   42.7   0.1   7.7e-15   4.6e-11       7     128 ..     312     450 ..     309     455 .. 0.75

  Alignments for each domain:
  == domain 1  score: 59.7 bits;  conditional E-value: 4.3e-20
                   PLDc_2   3 qliksAkksidiatyyfvsdre...ildallkaakrgvkvrilldskkddagavdeaslkelkellleagvevrvfet........ 77 
                              ++i++Ak+s+ + +++f++d++   i+ +l+ka krgv vr+l+d++++            ++++ + + +++r +++        
  PHY93_16490|PHY93_16490  71 DMIRRAKRSLELEYFIFNPDSAgriIVTELIKAVKRGVAVRVLVDKSAAV-----FVLDESYAKIFRDNSIQLRYYNPasifriss 151
                              78***************888875557*******************94332.....234566666668899*****99434544444 PP

                   PLDc_2  78 .llgslHaKlylidgktvivGSsNltkrgldlnlElnvviedk....elakeleeeFerlw 133
                               +  ++H+Kl++ d++ +i+G+ N+ +++++l + +n+   d     +++  ++e Fer+w
  PHY93_16490|PHY93_16490 152 vQ-FRNHRKLIIRDNEEAITGGRNIADEYFNLSTTFNFLDRDVwvkgDIVPAMHETFERYW 211
                              22.799***********************************999999************99 PP

  == domain 2  score: 42.7 bits;  conditional E-value: 7.7e-15
                   PLDc_2   7 sAkksidiatyyfvsdreildallkaakrgvkvrilldskkd...................dagavdeaslkelkellleagvevr 73 
                              + +++i + t+yf  d++  d l k+ ++++kv il++s ++                   ++++ +++ +++++     +  evr
  PHY93_16490|PHY93_16490 312 NVQHEIVVDTPYFLIDPNSEDVLTKLLSQNKKVTILTNSLAStdaayvstvfnssvtkytkNPNFSAYTYKGKFSDESELYSDEVR 397
                              6799*********9999999*******************77798888888886665544442222222222222222222222222 PP

                   PLDc_2  74 vfetllgslHaKlylidgktvivGSsNltkrgldlnlElnvviedk.elakeleee 128
                               +  +    H+K++++ ++  ++G++N+++r+  +n+E++++++++ el++ ++++
  PHY93_16490|PHY93_16490 398 RS--D-WGTHSKTIVFNDDSFMIGTFNIDNRSSFYNTEMAIFCSGSpELTQDIRSN 450
                              21..2.478***********************************766999988876 PP

>> PLDc  Phospholipase D Active site motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.4   0.0   1.1e-05     0.065       2      28 .]     153     179 ..     152     179 .. 0.94
   2 !   10.7   0.6   8.2e-05      0.49       6      28 .]     404     426 ..     399     426 .. 0.91

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 1.1e-05
                              TBEE---EEEETTTEEEEE---SSHHH CS
                     PLDc   2 mgthHqKivivDdrvafvGgaNLcdgr 28 
                              ++++H+K +i D++ a+ Gg N+ d++
  PHY93_16490|PHY93_16490 153 QFRNHRKLIIRDNEEAITGGRNIADEY 179
                              689********************9987 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 8.2e-05
                              ---EEEETTTEEEEE---SSHHH CS
                     PLDc   6 HqKivivDdrvafvGgaNLcdgr 28 
                              H+K++++ d+ + +G++N+++++
  PHY93_16490|PHY93_16490 404 HSKTIVFNDDSFMIGTFNIDNRS 426
                              *********************97 PP

>> 5_nucleotid  5' nucleotidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.1      0.17     1e+03     424     450 ..     125     151 ..     122     157 .. 0.89
   2 !   14.9   0.6   1.6e-06    0.0097     151     228 ..     289     364 ..     213     379 .. 0.68

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.17
                              HHH-SEEESSHHHHHTS-TT-EE---T CS
              5_nucleotid 424 eryAdlYtssvsnLlkysleklfrarr 450
                              e yA ++  +  +L +y++ ++fr ++
  PHY93_16490|PHY93_16490 125 ESYAKIFRDNSIQLRYYNPASIFRISS 151
                              57*********************9765 PP

  == domain 2  score: 14.9 bits;  conditional E-value: 1.6e-06
                              TSS--HHHHHHHHHHHHHHHHHHSHHHHHHHTTHHHHEE--HHHHHHHHHHHHTT-EEEEE-SS-HHHHHHHHHHHHG CS
              5_nucleotid 151 elelsyeslykdvreavdlvHrdgslkkevledlekyiekdpelvelLerlreagkklfllTNSefdytnkvmkyllg 228
                                + +y++ y+ +r+ + +  + +++++e++ d + y   dp+  ++L++l +++kk+ +lTNS  +   + ++ +++
  PHY93_16490|PHY93_16490 289 IHSKDYKANYRLLRKEIAKWIE-NNVQHEIVVDTP-YFLIDPNSEDVLTKLLSQNKKVTILTNSLASTDAAYVSTVFN 364
                              4567899999999999998875.555666666654.6677899*********************86644444444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (497 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       832  (0.0464053); expected 358.6 (0.02)
Passed bias filter:                      518  (0.0288917); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.68u 0.29s 00:00:00.97 Elapsed: 00:00:00.47
# Mc/sec: 3163.40
//
Query:       PHY93_18380|PHY93_18380  [L=294]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.6e-06   25.0   4.1      0.012   14.4   0.1    2.6  2  BBP2_2    Putative beta-barrel porin 2
    0.00041   20.0   1.0       0.15   11.6   0.1    2.4  2  DUF4960   Domain of unknown function (DUF4960)


Domain annotation for each model (and alignments):
>> BBP2_2  Putative beta-barrel porin 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.1   1.4e-06     0.012     282     359 ..     115     189 ..      80     200 .. 0.77
   2 !   11.5   0.4   1.1e-05     0.098     326     372 ..     243     289 ..     215     294 .] 0.77

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 1.4e-06
                   BBP2_2 282 eettlagssGvlsstatlevdHeLrrnLilsarlsyeqrdyqgidrddkeysaeagltYklnRnlalkasyryekldS 359
                              ++tt+++s G ls+t++ e d e    Lil+++++  ++    i+r+dk++ a++gl+++++ +l ++ ++  ++ +S
  PHY93_18380|PHY93_18380 115 TDTTSDNSGGRLSTTLSKEFDKETSGYLILNGTYKKYSK---IINRNDKIIGASLGLEHYFKSELLINPELLAASNSS 189
                              589999************************998743333...589*****************9998888777764444 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 1.1e-05
                   BBP2_2 326 drddkeysaeagltYklnRnlalkasyryekldSnvsgadyeanvvg 372
                              d+  +  sae+g++Y l   + ++++y+++k +Sn+s++ y+a+ + 
  PHY93_18380|PHY93_18380 243 DEYQELKSAEIGAIYTLANLFPIQVKYSTNKNTSNNSNSAYKAEILS 289
                              33367889*********************************998765 PP

>> DUF4960  Domain of unknown function (DUF4960)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.7   0.1   0.00054       4.8     217     251 ..      10      44 ..       8      46 .. 0.87
   2 !   11.6   0.1   1.7e-05      0.15     105     163 ..     189     247 ..     181     283 .. 0.85

  Alignments for each domain:
  == domain 1  score: 6.7 bits;  conditional E-value: 0.00054
                  DUF4960 217 viCiGsgaYDWyseeedasanqYkenvekltknal 251
                               +C  s+aY W ++ +   +++Y  nv+   +n +
  PHY93_18380|PHY93_18380  10 LLCFTSQAYAWDYSLKADVQQAYTDNVNLTSTNPI 44 
                              68*********9888999999******98888865 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 1.7e-05
                  DUF4960 105 aldgkepnnvwGesedseevtdepWsllikgkedHplfkglttkkgeksaiylldkGye 163
                              ++d ++ n  +G s   +++ +++W+++i+g+ +H  ++g ++++  +++ ++ d+ +e
  PHY93_18380|PHY93_18380 189 STDPYYKNTFYGPSLLISFTPNDKWEIFIDGSYSHTTYSGRSVTTVVRRKNVTADEYQE 247
                              56778889999999999***********************9999998888888877555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (294 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       759  (0.0423336); expected 358.6 (0.02)
Passed bias filter:                      332  (0.0185175); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.29s 00:00:00.83 Elapsed: 00:00:00.44
# Mc/sec: 1994.62
//
Query:       PHY93_18385|PHY93_18385  [L=73]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      0.004   17.7   1.3      0.097   13.3   0.1    2.1  2  FlgT_N    Flagellar assembly protein T, N-terminal domain


Domain annotation for each model (and alignments):
>> FlgT_N  Flagellar assembly protein T, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.2   0.2    0.0037        66      18      32 ..      13      27 ..       5      31 .. 0.72
   2 !   13.3   0.1   5.4e-06     0.097      21      46 ..      32      57 ..      27      66 .. 0.84

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.0037
                   FlgT_N 18 AreqAredAlkqAll 32
                             A   A++dA+k+A+ 
  PHY93_18385|PHY93_18385 13 AMIVAMKDAMKDAMI 27
                             555688888888885 PP

  == domain 2  score: 13.3 bits;  conditional E-value: 5.4e-06
                   FlgT_N 21 qAredAlkqAllyagaqvgsisslqq 46
                              A++dA+k+A+++a+++  ++ +++ 
  PHY93_18385|PHY93_18385 32 VAMKDAMKDAMKDATLNTTRFRNEKV 57
                             599*************9999998876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (73 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1046  (0.0583412); expected 358.6 (0.02)
Passed bias filter:                      510  (0.0284455); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.39s 00:00:00.87 Elapsed: 00:00:00.47
# Mc/sec: 470.11
//
Query:       PHY93_08055|PHY93_08055  [L=226]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.8e-13   48.5   0.2    1.1e-06   28.4   0.1    3.0  3  Abhydrolase_1  alpha/beta hydrolase fold
    1.2e-10   42.4   0.0    1.5e-10   42.0   0.0    1.1  1  Abhydrolase_6  Alpha/beta hydrolase family
      1e-07   31.5   0.0      1e-06   28.2   0.0    2.2  3  Hydrolase_4    Serine aminopeptidase, S33
    0.00021   21.2   0.0      0.085   12.6   0.0    3.0  3  Abhydrolase_2  Phospholipase/Carboxylesterase
    0.00098   18.2   0.1     0.0062   15.6   0.1    2.0  1  DUF1057        Alpha/beta hydrolase of unknown function (DUF1
     0.0021   16.8   0.0     0.0032   16.2   0.0    1.2  1  Ndr            Ndr family
     0.0033   17.6   0.0     0.0035   17.5   0.0    1.2  1  Thioesterase   Thioesterase domain
     0.0037   16.9   0.2        1.8    8.1   0.0    2.2  2  LIDHydrolase   Lipid-droplet associated hydrolase
     0.0088   15.8   0.0      0.042   13.6   0.0    1.8  2  Abhydrolase_5  Alpha/beta hydrolase family
  ------ inclusion threshold ------
      0.028   14.3   0.0      0.046   13.6   0.0    1.3  1  Ser_hydrolase  Serine hydrolase
      0.033   13.6   0.0      0.058   12.8   0.0    1.4  2  DUF3530        Protein of unknown function (DUF3530)
      0.066   12.8   0.0       0.11   12.0   0.0    1.3  1  DUF2974        Protein of unknown function (DUF2974)
        0.1   12.5   0.0       0.15   11.9   0.0    1.3  1  Abhydrolase_3  alpha/beta hydrolase fold
       0.16   11.5   0.0         18    4.8   0.0    2.1  2  DLH            Dienelactone hydrolase family


Domain annotation for each model (and alignments):
>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.3   0.0      0.01        13       1      37 [.       3      36 ..       3      42 .. 0.80
   2 !   28.4   0.1   8.9e-10   1.1e-06      73     116 ..      60     100 ..      45     120 .. 0.84
   3 !   11.6   0.0   0.00012      0.16     188     256 ..     138     213 ..     126     214 .. 0.75

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.01
                             SEEEEE-STTTCGGGGTTGHHHHHHHHTTSEEEEEEE CS
            Abhydrolase_1  1 pvlvilhGlpgssdvwaerglapaLakdgfdvillDl 37
                             p++++lhG+pg  d+     +++ L + +f++i +D+
  PHY93_08055|PHY93_08055  3 PTIIFLHGGPGFQDYLKP--FFEELKD-DFECIFYDQ 36
                             789********7776555..6667766.999999986 PP

  == domain 2  score: 28.4 bits;  conditional E-value: 8.9e-10
                              SSEEEEEETHHHHHHHHHHHHHGGGEEEEEEESECSSCCHHHHH CS
            Abhydrolase_1  73 dkltlvGhSmGGmialayaaeyperVkalvllgaidpaasliea 116
                              +k++l+GhS+G  +a++ya +++++ ++lvl+++     s+ ++
  PHY93_08055|PHY93_08055  60 GKIILLGHSWGAVLATEYAGRNQSKLSGLVLMST---GLSHKHW 100
                              699*******************************...3333333 PP

  == domain 3  score: 11.6 bits;  conditional E-value: 0.00012
                              HHHHHHHCCHHHHHHHHHC.......THHHHSEEEEEEETTCSSSCHHHHHHHHHCHTSEEEEEEETCSSSHHHHS CS
            Abhydrolase_1 188 sieqwpttdsaklllrlre.......lknvlaptlvisgtsDplvppkaledlaqllpkkrlvvisdagHlafleg 256
                              s+ +++++ + +   ++ e       ++  ++p+l+i+g++D  +p ++   ++   ++   ++is+ gH+ fl++
  PHY93_08055|PHY93_08055 138 SWLTFSEETFISINKSYLEkydvtplITLLKIPVLNIYGEKDVRFPARVAKTFNLFKSDMIDFQISNVGHFPFLQN 213
                              44444444444444445556666666666677***************9999998666669*************987 PP

>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.0   0.0   1.2e-13   1.5e-10       1     213 [.       5     212 ..       5     216 .. 0.73

  Alignments for each domain:
  == domain 1  score: 42.0 bits;  conditional E-value: 1.2e-13
                              EEEE--GC.....G..CHHHHHHHHCCTCEEEEE--TTSTS-GGCS--HHHCHHHHHHHCCTT..TTSEEEEEETCHHHHHHHHHH CS
            Abhydrolase_6   1 vlllHGagssassW..lvapLaallaagvhvlapDlpGhGrsdpppldledladlaalldelaagggpvvlvGHSlGGalalaaap 84 
                              +++lHG+++    +  +  p+ + l ++++++ +D    G ++ +  +   l +l++++ ++    g+++l+GHS+G++la++   
  PHY93_08055|PHY93_08055   5 IIFLHGGPG----FqdYLKPFFEELKDDFECIFYDQ-VRG-PEIRIENM--LSQLDEIVCSI---SGKIILLGHSWGAVLATE--- 76 
                              79****998....85447799*******999*****.789.88888888..9999*******...8*****************... PP

                              CC.......EE.EEES-..----TTTS----TTHHHHHHTT-C.....CCCHCCH..S-HS..CCCCHHHCCCCHCHCCCGHH... CS
            Abhydrolase_6  85 la.....lvvg.vlldppptalpagllaaalelllallallrl.....lawlsre..plpr..lfladedadaawrarlarla... 152
                              +a      ++g vl+++     +++  ++  e+++ + +l  +       +l+ e     +  +fl+      +w +   +     
  PHY93_08055|PHY93_08055  77 YAgrnqsKLSGlVLMST-----GLSHKHWKDEYHKEVEDLGLTdagpeQIFLTPEemE--QgsSFLD-----NSWLTFSEETFisi 150
                              777779988999*****.....788888888888877774444233334444444332..2347777.....78888877777433 PP

                              ..HHCCHHCHTTCCHHTT-TTGCEEECTT-CHHHHCHHCCCH...STTEEETCE...SSS-HHHHS CS
            Abhydrolase_6 153 ..allaglgllpaaawadlpvpllvlggeDplvprllerlla...qagarlpvvlpgaGHlphlee 213
                                 +l + +  p+  +  +pv+  + g++D   p  ++ + +     + +++  + + GH+p+l +
  PHY93_08055|PHY93_08055 151 nkSYLEKYDVTPLITLLKIPVLN-IYGEKDVRFP--ARVAKTfnlFKSDMIDFQISNVGHFPFL-Q 212
                              33555566666666666666666.4268888777..4444444477777777889999999999.4 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       2.1   2.7e+03       6      39 ..       4      36 ..       2      40 .. 0.72
   2 !   28.2   0.0   7.9e-10     1e-06      77     114 ..      61      98 ..      42     122 .. 0.88
   3 ?    0.6   0.0      0.22   2.9e+02     188     204 ..     165     181 ..     132     199 .. 0.82

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 2.1
              Hydrolase_4  6 vvvlvHGlaehsgryaelaeaLaaqGfavyalDh 39
                             +++++HG     +  + ++e+L   +f+++ +D+
  PHY93_08055|PHY93_08055  4 TIIFLHGGPGFQDYLKPFFEELK-DDFECIFYDQ 36
                             78888888777777777777775.4677777776 PP

  == domain 2  score: 28.2 bits;  conditional E-value: 7.9e-10
              Hydrolase_4  77 plfllGhSmGGliallyllrypdkvaglilsaPalkik 114
                              +++llGhS+G+++a++y+ r+++k++gl+l+++ l+ k
  PHY93_08055|PHY93_08055  61 KIILLGHSWGAVLATEYAGRNQSKLSGLVLMSTGLSHK 98 
                              89*******************************99876 PP

  == domain 3  score: 0.6 bits;  conditional E-value: 0.22
              Hydrolase_4 188 akitlPllllhGeaDkv 204
                              + +++P+l ++Ge+D  
  PHY93_08055|PHY93_08055 165 TLLKIPVLNIYGEKDVR 181
                              5678999*****99965 PP

>> Abhydrolase_2  Phospholipase/Carboxylesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.0      0.24     3e+02      14      22 ..       2      10 ..       1      16 [. 0.90
   2 !   12.6   0.0   6.6e-05     0.085     104     141 ..      59      96 ..      38     110 .. 0.85
   3 ?    3.8   0.0     0.035        44     155     185 ..     167     197 ..     148     221 .. 0.85

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.24
                             -EEEEEE-- CS
            Abhydrolase_2 14 qavviflHG 22
                             ++++iflHG
  PHY93_08055|PHY93_08055  2 KPTIIFLHG 10
                             689*****9 PP

  == domain 2  score: 12.6 bits;  conditional E-value: 6.6e-05
                              GGGEEEEEETHHHHHHHHHHHT-SS--SEEEEES---T CS
            Abhydrolase_2 104 ssriiigGFSqGaalalylaltlpkklggivafsgalp 141
                              s +ii+ G S Ga+la++ a   + kl+g v +s  l+
  PHY93_08055|PHY93_08055  59 SGKIILLGHSWGAVLATEYAGRNQSKLSGLVLMSTGLS 96 
                              679****************************9997665 PP

  == domain 3  score: 3.8 bits;  conditional E-value: 0.035
                              GG-EEEEEEETT-SSS-HHHHHHHHHHHHTT CS
            Abhydrolase_2 155 kklpilqiHgeeDpvvplalgkaakevlkkl 185
                               k+p+l i+ge+D   p +++k+++ + +++
  PHY93_08055|PHY93_08055 167 LKIPVLNIYGEKDVRFPARVAKTFNLFKSDM 197
                              48******************99998776665 PP

>> DUF1057  Alpha/beta hydrolase of unknown function (DUF1057)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.1   4.9e-06    0.0062      37     140 ..       4      97 ..       1     111 [. 0.68

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 4.9e-06
                  DUF1057  37 tvvalhGsPGshnDfkYirskleelkiRligvnyPGfefvtgylgqkytnaeRnsyskalleel..elkgklillghsRGcenaLq 120
                              t++ lhG PG  +   Y++ ++eelk  + ++ y     v g ++       R + + + l+e+   ++gk+illghs G+  a  
  PHY93_08055|PHY93_08055   4 TIIFLHGGPGFQD---YLKPFFEELKDDFECIFYDQ---VRG-PEI------RIENMLSQLDEIvcSISGKIILLGHSWGAVLATE 76 
                              7777777777543...77777777777777777743...322.222......33334444555422577************99999 PP

                  DUF1057 121 lavtl..eahGlvlinptGlrv 140
                               a     ++ Glvl+ +tGl +
  PHY93_08055|PHY93_08055  77 YAGRNqsKLSGLVLM-STGLSH 97 
                              9987666999***98.788864 PP

>> Ndr  Ndr family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0   2.5e-06    0.0032      89     148 ..      51     109 ..      39     126 .. 0.80

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 2.5e-06
                              HHHHHHHHT---EEEEEETHHHHHHHHHHHHSGGGEEEEEEES---S---HHHHHHHHHH CS
                      Ndr  89 llavldhfklksviglGvgaGAyilarfalkhperveglvLinitskaagwvewakeKls 148
                              l +++  ++  ++i lG   GA + + +a +++++++glvL+++  + + w +   + + 
  PHY93_08055|PHY93_08055  51 LDEIVCSIS-GKIILLGHSWGAVLATEYAGRNQSKLSGLVLMSTGLSHKHWKDEYHKEVE 109
                              555555554.57899************************************998766655 PP

>> Thioesterase  Thioesterase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.0   2.7e-06    0.0035       2     217 ..       4     212 ..       3     226 .] 0.63

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 2.7e-06
                              EEEEE--TTCCSGGGHHHHHHCTTCEEEEEEECSTTSTSHHHCTTCHHHHHHHHHHHHHHH-SSSSEEEEEETHHHHHHHHHHHHH CS
             Thioesterase   2 pLflfppagGsasvfrslasklsdpvvevlavqlpgrerdepplesieelaaeyaealrqiqpegPyalfGhSlGgllAfevArqL 87 
                              +++ ++++ G   + + + ++l+d+   + ++ + +      p   ie + +++ e++ +i  +    l GhS G+ lA e A + 
  PHY93_08055|PHY93_08055   4 TIIFLHGGPGFQDYLKPFFEELKDD---FECIFYDQV---RGPEIRIENMLSQLDEIVCSISGK--IILLGHSWGAVLATEYAGRN 81 
                              5677888888888888899999998...333333333...135689999999999999999988..9******************* PP

                              HHC..T-SEEEEEEESCCCCCCHHCHHCCCHTTHHT.HHHHHCCTTHHHCCTTTHCCHHHHHHHHHHHHHHH.HHTCCS-TTSCSE CS
             Thioesterase  88 esq..Glavkslflidssapseteaqeasrraedee.fveeltdlggtepeelledeellsellpalradyr.aleqyslrpeaaq 169
                              +s+  Gl + s +l+  + + e  ++e ++    ++   + + + +++e  ++  d ++l+ +++++ +  +  le+y   p+ + 
  PHY93_08055|PHY93_08055  82 QSKlsGLVLMSTGLSHKHWKDE-YHKEVEDLGLTDAgPEQIFLTPEEMEQGSSFLDNSWLTFSEETFISINKsYLEKYDVTPLITL 166
                              **98888888878877777766.666666666555544444444444455555556666666666655543313455555555555 PP

                              HHCEEEEEEGSS-CTCCCCCCCHCHCHCTCESCEEEEEESSHCCHHHS CS
             Thioesterase 170 klratlfngsddklkdldtlelaerweqktsgevsvhvlegdhfylle 217
                               l++ ++n+  +k  ++   + a++     s  +++++   +hf  l+
  PHY93_08055|PHY93_08055 167 -LKIPVLNIYGEKDVRFP-ARVAKTFNLFKSDMIDFQISNVGHFPFLQ 212
                              .55555555555555555.34555555555555555555555555555 PP

>> LIDHydrolase  Lipid-droplet associated hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.0   0.0    0.0029       3.8       2      30 ..       2      30 ..       1      39 [. 0.89
   2 !    8.1   0.0    0.0014       1.8      70     116 ..      49      90 ..      33      99 .. 0.69

  Alignments for each domain:
  == domain 1  score: 7.0 bits;  conditional E-value: 0.0029
             LIDHydrolase  2 kilivlipGNPGlveFYetFlsllsekln 30
                             k++i+++ G PG+ ++ ++F + l++ ++
  PHY93_08055|PHY93_08055  2 KPTIIFLHGGPGFQDYLKPFFEELKDDFE 30
                             679*********************99865 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.0014
             LIDHydrolase  70 dflkellekaksekdvklilvGHSvGaYialevlkrlsersikkvvl 116
                              + l+e++     +   k+il+GHS Ga +a e + r +++  +++vl
  PHY93_08055|PHY93_08055  49 SQLDEIV----CSISGKIILLGHSWGAVLATEYAGRNQSK-LSGLVL 90 
                              3333333....345789*************9999887776.555554 PP

>> Abhydrolase_5  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.6   0.0   3.3e-05     0.042      58      90 ..      61      94 ..      47     139 .. 0.74
   2 ?   -0.3   0.0      0.61   7.8e+02      96     112 ..     164     180 ..     144     196 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 3.3e-05
            Abhydrolase_5 58 kfvvgGhslGGvvasrfaaeee.kiegvvflasY 90
                             k ++ Ghs G v+a+++a +++ k+ g+v++++ 
  PHY93_08055|PHY93_08055 61 KIILLGHSWGAVLATEYAGRNQsKLSGLVLMSTG 94
                             67889**************9966******99853 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.61
            Abhydrolase_5  96 lselskkvlsivgteDg 112
                              ++ l+++vl i+g++D 
  PHY93_08055|PHY93_08055 164 ITLLKIPVLNIYGEKDV 180
                              4567889*******996 PP

>> Ser_hydrolase  Serine hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   3.6e-05     0.046      40      89 ..      45      93 ..      33     119 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 3.6e-05
                             HHHHHHHHHHHHC-STTEEEEEETCHHHHHHHHHHHTTSSSEEEEEEET- CS
            Ser_hydrolase 40 edWvaaleaaveaaeekvvlvAHSlgclavlhaaelqlakkvagalLVap 89
                             e+ +++l++ v  +++k++l+ HS g++++ ++a  + ++k+ g +L + 
  PHY93_08055|PHY93_08055 45 ENMLSQLDEIVCSISGKIILLGHSWGAVLATEYA-GRNQSKLSGLVLMST 93
                             666889999*************************.9********999876 PP

>> DUF3530  Protein of unknown function (DUF3530)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   4.5e-05     0.058     185     238 ..      45     100 ..      41     114 .. 0.72
   2 ?   -3.9   0.0       5.6   7.2e+03     240     258 ..     158     176 ..     149     180 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 4.5e-05
                  DUF3530 185 qaaiaflnqrgae...nivllghgtgAywaarylaekksakvdaLvlvdarepaeaa 238
                              +  +++l++       +i+llgh +gA +a++y  + ++ k + Lvl +   + ++ 
  PHY93_08055|PHY93_08055  45 ENMLSQLDEIVCSisgKIILLGHSWGAVLATEYAGR-NQSKLSGLVLMSTGLSHKHW 100
                              55555666655555569*****************99.88889999988776666555 PP

  == domain 2  score: -3.9 bits;  conditional E-value: 5.6
                  DUF3530 240 kqLaeqlaklelpilDlys 258
                              ++++  ++ l++p+l +y 
  PHY93_08055|PHY93_08055 158 YDVTPLITLLKIPVLNIYG 176
                              5566677889999999994 PP

>> DUF2974  Protein of unknown function (DUF2974)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   8.7e-05      0.11      54     110 ..      26      86 ..      23     111 .. 0.64

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 8.7e-05
                  DUF2974  54 kedfnmafrsevpaq....esAlkYlnkileesegkiylgGhSkGGnlAvyaamnaeddlq 110
                              k+df+  f ++v       e+ l+ l++i+  ++gki+l GhS G+ lA+  a + +++l+
  PHY93_08055|PHY93_08055  26 KDDFECIFYDQVRGPeiriENMLSQLDEIVCSISGKIILLGHSWGAVLATEYAGRNQSKLS 86 
                              56666666666654311113556778999999*****************855555444444 PP

>> Abhydrolase_3  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   0.00012      0.15      71     133 ..      60     114 ..      44     147 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00012
                              CEEEEEEETHHHHHHHHHHHHHHHTT---EEEEEEESE-SSTSSTTSHHHHHCHHTTTSSSSC CS
            Abhydrolase_3  71 srivlaGdSaGGnlaaavalrardegepkvagqvliyPvtdlertesesikkaeeladgpllt 133
                               +i+l+G S G+ la+  a r +++    ++g+vl++ ++   ++ +++++   ++ ++  lt
  PHY93_08055|PHY93_08055  60 GKIILLGHSWGAVLATEYAGRNQSK----LSGLVLMSTGLSH-KHWKDEYH---KEVEDLGLT 114
                              589****************888885....9*******96544.33333332...222223333 PP

>> DLH  Dienelactone hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.0     0.014        18      95     122 ..      57      85 ..      35     102 .. 0.83
   2 ?    4.8   0.0     0.014        18     142     179 ..     166     202 ..     160     217 .. 0.80

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.014
                      DLH  95 vstkkvgvvGfCmGGalalllaaev.pev 122
                                ++k+ + G  +G+ la ++a ++  ++
  PHY93_08055|PHY93_08055  57 SISGKIILLGHSWGAVLATEYAGRNqSKL 85 
                              4679*******************995555 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.014
                      DLH 142 kikapilalfgeeDefipadevekleealkaanvdlel 179
                               +k p+l ++ge+D  +pa  v k+ + +k   +d+++
  PHY93_08055|PHY93_08055 166 LLKIPVLNIYGEKDVRFPAR-VAKTFNLFKSDMIDFQI 202
                              6799**************99.56666666666666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (226 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       361  (0.020135); expected 358.6 (0.02)
Passed bias filter:                      334  (0.018629); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.56u 0.33s 00:00:00.89 Elapsed: 00:00:00.46
# Mc/sec: 1461.45
//
Query:       PHY93_08060|PHY93_08060  [L=170]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    5.7e-29  100.1   0.1      1e-28   99.3   0.1    1.4  1  ORF6N       ORF6N domain
  ------ inclusion threshold ------
      0.049   14.2   0.1      0.087   13.4   0.1    1.6  1  Phage_pRha  Phage regulatory protein Rha (Phage_pRha)


Domain annotation for each model (and alignments):
>> ORF6N  ORF6N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   99.3   0.1   1.2e-32     1e-28       2      84 .]      12      96 ..      11      96 .. 0.91

  Alignments for each domain:
  == domain 1  score: 99.3 bits;  conditional E-value: 1.2e-32
                    ORF6N  2 kiyeirgqrVmldkdlAelYevetkrlnqavkrnkeRFpedfmfqLtkeelersqiatl....krgskskylpylfTEqGvlmlakv 84
                             +iy +rgq+Vm d+dlA+lYevet+ +nqa++rn +RFp+dfmf+Lt+ee +  ++ t      ++++++++p++fTE+Gv+ml++v
  PHY93_08060|PHY93_08060 12 MIYIVRGQKVMQDSDLADLYEVETRIFNQAIRRNLDRFPSDFMFELTQEETD--ELYTYlgntGKHGGRRKKPLVFTENGVAMLSSV 96
                             79**************************************************..44443666677888****************986 PP

>> Phage_pRha  Phage regulatory protein Rha (Phage_pRha)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.1   9.7e-06     0.087      11      87 ..      32     117 ..       6     118 .. 0.71

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 9.7e-06
               Phage_pRha  11 gkrHknVlrdIrkliedleefgkelnfe............eseykdsngretkvylltrdgftllvmgftgkkavefkaayidrFn 84 
                              + + +   ++Ir+ +++   f +++ fe              ++ +  gr+ k   +t++g+ +l   ++ k+av++ + + + F 
  PHY93_08060|PHY93_08060  32 EVETRIFNQAIRRNLDR---FPSDFMFEltqeetdelytyLGNTGKHGGRRKKPLVFTENGVAMLSSVLNSKRAVQVNISIMRTFT 114
                              55555555677777444...444423334445666744433333344468999999*****************************9 PP

               Phage_pRha  85 ele 87 
                              +l+
  PHY93_08060|PHY93_08060 115 KLR 117
                              987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (170 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       546  (0.0304535); expected 358.6 (0.02)
Passed bias filter:                      375  (0.0209158); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.31s 00:00:00.79 Elapsed: 00:00:00.43
# Mc/sec: 1174.66
//
Query:       PHY93_08065|PHY93_08065  [L=70]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (70 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       530  (0.029561); expected 358.6 (0.02)
Passed bias filter:                      394  (0.0219756); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.31s 00:00:00.79 Elapsed: 00:00:00.45
# Mc/sec: 466.60
//
Query:       PHY93_08070|PHY93_08070  [L=84]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (84 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       267  (0.0148921); expected 358.6 (0.02)
Passed bias filter:                      199  (0.0110993); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.28s 00:00:00.71 Elapsed: 00:00:00.43
# Mc/sec: 584.90
//
Query:       PHY93_08075|PHY93_08075  [L=113]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
     0.0047   16.9   2.0      0.006   16.5   2.0    1.1  1  DinB          DinB family
     0.0055   15.0   3.3     0.0059   14.8   3.3    1.1  1  EzrA          Septation ring formation regulator, EzrA
     0.0071   16.4   0.5     0.0084   16.1   0.5    1.1  1  LOH1CR12      Tumour suppressor protein
  ------ inclusion threshold ------
      0.012   15.8   0.0      0.019   15.1   0.0    1.3  1  XhlA          Haemolysin XhlA
      0.012   15.6   0.2      0.015   15.4   0.2    1.1  1  Dynamin_N     Dynamin family
      0.015   15.1   0.8      0.021   14.7   0.4    1.4  1  CdvA          CdvA-like coiled-coil domain
      0.018   15.1   0.1      0.021   14.9   0.1    1.2  1  MCU           Mitochondrial calcium uniporter
      0.039   14.6   0.1      0.049   14.3   0.1    1.3  1  PMC2NT        PMC2NT (NUC016) domain
      0.051   13.1   0.8      0.068   12.7   0.8    1.1  1  Allexi_40kDa  Allexivirus 40kDa protein
      0.065   12.6   4.1      0.074   12.5   4.1    1.1  1  DUF3552       Domain of unknown function (DUF3552)
      0.082   12.2   0.1       0.09   12.1   0.1    1.0  1  DUF3810       Protein of unknown function (DUF3810)
      0.096   12.7   3.4       0.12   12.4   3.4    1.0  1  Rootletin     Ciliary rootlet component, centrosome cohesion
       0.15   12.9   4.7       0.22   12.3   4.7    1.4  1  CHIP_TPR_N    CHIP N-terminal tetratricopeptide repeat domain


Domain annotation for each model (and alignments):
>> DinB  DinB family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   2.0   4.3e-06     0.006      16      94 ..      10      87 ..       4      92 .. 0.87

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 4.3e-06
                             HHHHHHHHHHCT--CCCTT--SSTTS--HHHHHHHHHHHHHHHHHHHHH..SSSGGGT---------HHHHHHHHHHHH CS
                     DinB 16 wardrtldaiaaLpdeelkaengegfqsvkqtlnHvldveelwlsrlegeegapavddqterkeleeldalrealderl 94
                             w +++ l+ + +  +e+ + e++    s+k + nH  +++++++++++  e++ ++ +++ +k++e++d+  e++d+r+
  PHY93_08075|PHY93_08075 10 WLNQKSLEILGKVEKEKISTEDML-ILSLKAQTNHFHHMDQEFRGEFKKIEQNFEHIEEKFEKRFEQVDQRFEQVDKRF 87
                             556777777777778888877765.559***********************************************9987 PP

>> EzrA  Septation ring formation regulator, EzrA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   3.3   4.3e-06    0.0059     127     184 ..      37      94 ..      13      98 .. 0.70

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 4.3e-06
                              HHHTTTTTHHHHHHHHHHHHHHHHT--TTTTHHHHHHHHHHHHHHHH----------- CS
                     EzrA 127 lteseeknreeieklkekYrelrkkllanrfsygealeelekqleniekefsefeelt 184
                              l+ + +  ++  ++ + +++++++++++ ++++++  e++++++e+++k+f+ +++++
  PHY93_08075|PHY93_08075  37 LKAQTNHFHHMDQEFRGEFKKIEQNFEHIEEKFEKRFEQVDQRFEQVDKRFDRMTTIM 94 
                              4445555555556667777777777777777777777777777777777777777766 PP

>> LOH1CR12  Tumour suppressor protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.5   6.1e-06    0.0084      21      87 ..      24      91 ..      12     101 .. 0.89

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 6.1e-06
                 LOH1CR12 21 leklssrhllrlctRlqe.HlavcAkavAadqaklverikevdakiitllaelrekqkqyasyaeals 87
                              ek+s++++l l+++ q+ H++   ++   + +k+ ++  ++++k ++ ++++ ++ +q ++  + ++
  PHY93_08075|PHY93_08075 24 KEKISTEDMLILSLKAQTnHFHHMDQEFRGEFKKIEQNFEHIEEKFEKRFEQVDQRFEQVDKRFDRMT 91
                             79**************955************************************9999887666555 PP

>> XhlA  Haemolysin XhlA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.1   0.0   1.4e-05     0.019       7      62 ..      56     107 ..      50     112 .. 0.88

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.4e-05
                     XhlA   7 erietkldnleervdkleekaaeaeekiknleedlkklesnqkWlirtiiGalisa 62 
                              ++ie++ + +ee   k e++ + ++++ +++ ++ ++++  + W+ +++++ lis+
  PHY93_08075|PHY93_08075  56 KKIEQNFEHIEE---KFEKRFEQVDQRFEQVDKRFDRMTTIMMWQGGILAT-LISG 107
                              689999999999...59*********************************9.6665 PP

>> Dynamin_N  Dynamin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.4   0.2   1.1e-05     0.015      27      92 ..      24      89 ..      17     105 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 1.1e-05
                             -SSS---S-EEEEECCT---CCS...SS.EEEET-EB--CHHHHHHHHHHHHHHHTSSSS--SS-EE CS
                Dynamin_N 27 gpnptTrrplelqlgeeeeaseravkee.lkekekkledfsevreeieketekiagankgiskkvil 92
                             ++ + T  +l+l+l+ + +   ++ ++e  +e++k +++f++++e++ek++e+++++ ++++k+   
  PHY93_08075|PHY93_08075 24 KEKISTEDMLILSLKAQTNHF-HHMDQEfRGEFKKIEQNFEHIEEKFEKRFEQVDQRFEQVDKRFDR 89
                             6789999********999944.44555515566999********************99999987544 PP

>> CdvA  CdvA-like coiled-coil domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.4   1.5e-05     0.021      16      62 ..      40      86 ..      31      95 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1.5e-05
                     CdvA 16 pkstyeeikekleealkklkekakelkeklkkrlkeledqiksleka 62
                             +   ++++ ++++ ++kk++++ + + ek +kr +++++  ++++k 
  PHY93_08075|PHY93_08075 40 QTNHFHHMDQEFRGEFKKIEQNFEHIEEKFEKRFEQVDQRFEQVDKR 86
                             5667899************************************9986 PP

>> MCU  Mitochondrial calcium uniporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.1   1.5e-05     0.021      37     109 ..      39     112 ..       7     113 .] 0.70

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 1.5e-05
                              XXXXXXX-SS.SSSSTSSSSSHHHHHHHHHHHHH-SHHHHHHHHTCCCGGGCHHHHGGGHHHHHHHHTHHHHHH CS
                      MCU  37 qlvkalesal.nveeeqlkkereleekleelreelepleekkeeidekAerrtrrllwagLallavqlgilarL 109
                              + +++ +++  +++ e +k e++ e+ +e++++++e++ +  e++d++ +r+t+ ++w g +l+++  gi ++L
  PHY93_08075|PHY93_08075  39 AQTNHFHHMDqEFRGEFKKIEQNFEHIEEKFEKRFEQVDQRFEQVDKRFDRMTTIMMWQGGILATLISGIYFKL 112
                              333332222234455566667777788888999999999999****************9988888887776665 PP

>> PMC2NT  PMC2NT (NUC016) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.1   3.5e-05     0.049      52      91 ..      52      91 ..      16      92 .. 0.74

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 3.5e-05
                   PMC2NT 52 eisas..sklededdveekfksvvdvvDsllEkadtcLDelt 91
                             +   +  + +++ +++eekf++  + vD+ +E++d  +D +t
  PHY93_08075|PHY93_08075 52 RG--EfkKIEQNFEHIEEKFEKRFEQVDQRFEQVDKRFDRMT 91
                             22..13367788899999*********************987 PP

>> Allexi_40kDa  Allexivirus 40kDa protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.8     5e-05     0.068      60     139 ..      14      92 ..       4      98 .. 0.63

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 5e-05
             Allexi_40kDa  60 dvdsiinklnpvsllsqttlLselrdalrtltklldklksvekklelsaetasdskllkklesietsleelhakldelss 139
                                 +i+ k+++ ++ ++ +l+  l+++ ++++++ ++ +   kk+e++ e++++ k  k++e +++++e++ +++d++++
  PHY93_08075|PHY93_08075  14 KSLEILGKVEKEKISTEDMLILSLKAQTNHFHHMDQEFRGEFKKIEQNFEHIEE-KFEKRFEQVDQRFEQVDKRFDRMTT 92 
                              333455555555555566666667777777777777777777777666666544.4567788888888888888877765 PP

>> DUF3552  Domain of unknown function (DUF3552)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   4.1   5.3e-05     0.074      60     107 ..      42      89 ..      12      94 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 5.3e-05
                  DUF3552  60 eeihklreelekelkerrnelqrlekRllqkeetLdrkeeslekkees 107
                              ++ h++ +e+  e+k+ +++++++e++ +++ e++d++ e+++k+ ++
  PHY93_08075|PHY93_08075  42 NHFHHMDQEFRGEFKKIEQNFEHIEEKFEKRFEQVDQRFEQVDKRFDR 89 
                              45788999***********************************99665 PP

>> DUF3810  Protein of unknown function (DUF3810)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.1   6.5e-05      0.09     106     174 ..      36     112 ..      11     113 .] 0.66

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 6.5e-05
                  DUF3810 106 laeklveklnelreqverde..............eevrkeakkaykklgeeypllsgfypk.pKpllfsellsylgitGyyfpf 174
                               ++  +++ +++       +              e+++++ +k +++++++++++ +++ + +  ++++  +  + i+G+yf  
  PHY93_08075|PHY93_08075  36 SLKAQTNHFHHM-------DqefrgefkkieqnfEHIEEKFEKRFEQVDQRFEQVDKRFDRmTTIMMWQGGILATLISGIYFKL 112
                              222222222222.......11223334445567778*******************999777355699**************976 PP

>> Rootletin  Ciliary rootlet component, centrosome cohesion
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   3.4   8.5e-05      0.12      68     144 ..      15      88 ..       6      97 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 8.5e-05
                Rootletin  68 dleealakLeeErqrseklaqvnslLreqleearqaneaLtedlqkltkdwerlreeleqkekewreeeeafneyls 144
                              +l e+l k e E+  +e+++     L+ q ++ ++  ++++ +++k+++++e+++e+ e++ ++  ++ e++ + ++
  PHY93_08075|PHY93_08075  15 SL-EILGKVEKEKISTEDML--ILSLKAQTNHFHHMDQEFRGEFKKIEQNFEHIEEKFEKRFEQVDQRFEQVDKRFD 88 
                              45.88999999999999955..557******************************9999887777777666666555 PP

>> CHIP_TPR_N  CHIP N-terminal tetratricopeptide repeat domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   4.7   0.00016      0.22      41      79 ..      48      86 ..      13      89 .. 0.70

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00016
                             HGTTTSXCHHHCHHHHHHHHHHHHHHHHHHHHHHHCCHC CS
               CHIP_TPR_N 41 eeeekeedekleeeeeeieeeaderlaeLnelFaqvder 79
                              +e   e +k+e++ e+iee+ ++r +++++ F+qvd r
  PHY93_08075|PHY93_08075 48 DQEFRGEFKKIEQNFEHIEEKFEKRFEQVDQRFEQVDKR 86
                             344444555688888888888888888888888888876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (113 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1721  (0.0959897); expected 358.6 (0.02)
Passed bias filter:                      790  (0.0440627); expected 358.6 (0.02)
Passed Vit filter:                       142  (0.00792013); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.55u 0.35s 00:00:00.90 Elapsed: 00:00:00.47
# Mc/sec: 728.28
//
Query:       PHY93_08080|PHY93_08080  [L=239]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    3.6e-17   62.9   0.0    4.4e-14   52.8   0.0    2.1  2  Pan_kinase  Type III pantothenate kinase


Domain annotation for each model (and alignments):
>> Pan_kinase  Type III pantothenate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.4   0.0   9.8e-05       1.8       1      24 [.       3      26 ..       3      49 .. 0.81
   2 !   52.8   0.0   2.5e-18   4.4e-14      86     190 ..      65     169 ..      50     187 .. 0.72

  Alignments for each domain:
  == domain 1  score: 8.4 bits;  conditional E-value: 9.8e-05
                             EEEEEE-SSEEEEEEEETTCCEET CS
               Pan_kinase  1 lLliDiGNtrikwalfegeellas 24
                             ++++D GNt+ ++++f++e+l++ 
  PHY93_08080|PHY93_08080  3 IITVDNGNTNPHVGIFQDEKLVSI 26
                             5789**************999874 PP

  == domain 2  score: 52.8 bits;  conditional E-value: 2.5e-18
                              S.CSSECTCEE-SSSGGGS-HHHHHHHHHHHHHC.TTSEEEEEEESSEEEEEEEETTSEEEEEEEEE-HHHHHHH..HHHCSSS-- CS
               Pan_kinase  86 rssaaklgltngydnpkelGaDRwvaavaarell.pgkpllvvdfGTAttfdavsadgeylGGlIaPGlalmlea..LaektakLp 168
                              ++++  ++++++y   ++lG DR++ a+  +++   ++++l +d+GT +t+d+vs++g +lGG+I PG+++ l++  L+ + + L+
  PHY93_08080|PHY93_08080  65 NNQNLFFDMPVHY--AETLGDDRLISAYFLFKQIkATETILLIDAGTFMTMDLVSEKG-FLGGYIFPGINTFLSSykLGANLSVLE 147
                              3333444556666..699**************999999*******************9.***********8887611444444444 PP

                              --HHCCHHSC.SSSBSSHHHHH CS
               Pan_kinase 169 rvelakpaeaesvigknTveai 190
                                +  k++ + ++++++T+eai
  PHY93_08080|PHY93_08080 148 PKKEPKKDFKITDLPHSTEEAI 169
                              2223333334456688999888 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (239 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       344  (0.0191868); expected 358.6 (0.02)
Passed bias filter:                      292  (0.0162865); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.31s 00:00:00.81 Elapsed: 00:00:00.44
# Mc/sec: 1617.05
//
Query:       PHY93_08085|PHY93_08085  [L=259]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.3e-87  292.7   0.0    2.5e-87  292.5   0.0    1.0  1  Pantoate_transf  Ketopantoate hydroxymethyltransferase


Domain annotation for each model (and alignments):
>> Pantoate_transf  Ketopantoate hydroxymethyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  292.5   0.0   1.4e-91   2.5e-87       5     247 ..      15     259 .]      11     259 .] 0.95

  Alignments for each domain:
  == domain 1  score: 292.5 bits;  conditional E-value: 1.4e-91
          Pantoate_transf   5 kdlrkmkeeg..ekiamlTaydattAklvdeagvdviLVGDslgmvvlgyestlpvtleemiyhtkaVargakralvvadlPfgsy 88 
                              +++r+ k++   + + mlT+yd++tA++++e+ +d+iL+GDslg+v+lgy+ t++v+ e+mi + kaV++ga++++++adlPfgsy
  PHY93_08085|PHY93_08085  15 RQIRSFKKSTanRTLHMLTCYDFQTAQVLNETSLDLILIGDSLGNVILGYDYTIEVSTETMILFSKAVKKGAPNKFIIADLPFGSY 100
                              55555554432299************************************************************************ PP

          Pantoate_transf  89 easkeqalenAarllkeggadavKleggae.vaetvkalveagipVmgHiGltPqsvnalggykvqgkteeeaeklledakaleea 173
                               as e  l+n+++l++++g++a+Kleg+    ++++++l++ gipVmgHiGltPqsv++ ggy ++gk+e+++ekl+++a+ale+a
  PHY93_08085|PHY93_08085 101 -ASMELGLANSIKLFQQSGVEALKLEGAYPhELQLIERLTQIGIPVMGHIGLTPQSVHEQGGYYTHGKDEHSQEKLMKEALALEAA 185
                              .***************************8569****************************************************** PP

          Pantoate_transf 174 GafalvlEavpaelakeiteklsiptIGIGAGaacdGqvlvlhDllgltekfkpkfvkkyaelaesieeavkaY 247
                              G+f++vlE v+++lak+itekl+iptIGIG+G ++dGqvlv++Dll l ++  pkf+k  a+l ++ ++ +++Y
  PHY93_08085|PHY93_08085 186 GCFSIVLEFVEENLAKKITEKLKIPTIGIGSGIGTDGQVLVINDLLHLGKNDPPKFCKPIANLYATKKQLLEEY 259
                              ***************************************************************99988888777 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (259 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       492  (0.0274416); expected 358.6 (0.02)
Passed bias filter:                      453  (0.0252663); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.37s 00:00:00.89 Elapsed: 00:00:00.47
# Mc/sec: 1670.11
//
Query:       PHY93_08090|PHY93_08090  [L=305]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.1e-22   78.9   0.0      5e-22   78.2   0.0    1.3  1  IlvN      Acetohydroxy acid isomeroreductase, NADPH-binding d
    1.8e-19   70.4   0.0    3.3e-19   69.6   0.0    1.4  1  IlvC      Acetohydroxy acid isomeroreductase, catalytic domai
  ------ inclusion threshold ------
      0.048   14.0   0.2        0.1   12.9   0.2    1.5  1  COMMD1_N  COMMD1 N-terminal domain


Domain annotation for each model (and alignments):
>> IlvN  Acetohydroxy acid isomeroreductase, NADPH-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.2   0.0   8.3e-26     5e-22       4     134 ..       4     135 ..       1     159 [. 0.86

  Alignments for each domain:
  == domain 1  score: 78.2 bits;  conditional E-value: 8.3e-26
                              TS-EEEES-SHHHHHHHHHHHHTT--EEEEE-TT-HHHHHHHHTT-EEEEHHH.HHHT-SEEEE-S-HHHHHHHHHHHTGGG--TT CS
                     IlvN   4 gkkiaviGyGsqGhaqalnlrdsgldvvvglregsksvkkAkeegfevltvae.avkkadvvmiliPDelqkevyeeeiepnlkeg 88 
                              +  +++iG+Gsq++a+alnlrds++   ++l+ +s+s +kA++ gf+ +++++ + ++    ++liPD  + + +e + ++ lk++
  PHY93_08090|PHY93_08090   4 QSPVVLIGFGSQAKAWALNLRDSKVSFKIALKPNSASRAKATSMGFDCIELENqILENFSTFLMLIPDDKHVSFFE-KNHQFLKAD 88 
                              56799********************************************99861567789999************5.5699***** PP

                              -EEEESSSHHHHTTSS---.TTSEEEEEEESS-SHHHHHHHHTT--- CS
                     IlvN  89 kalafahGfnihfglikpp.kdvdvvlvAPkgpGhlvreeyeegkGv 134
                              +   +ahGf++  + ++ + ++    l+APk+  + vr +ye+ + +
  PHY93_08090|PHY93_08090  89 SHFIYAHGFSLSKERLHEKySQFSHSLLAPKAIASDVRFQYETKGKI 135
                              ***********99998766378999****************865544 PP

>> IlvC  Acetohydroxy acid isomeroreductase, catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.6   0.0   5.6e-23   3.3e-19       1     133 [.     167     300 ..     167     305 .] 0.93

  Alignments for each domain:
  == domain 1  score: 69.6 bits;  conditional E-value: 5.6e-23
                              HHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHTT--HHHHHHHHTHHHHHHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHS-H CS
                     IlvC   1 FkeEtetDlfgEqavLcGgvselveagFetlveaGyspelAyfeclhelklivdliyegGiakmresiSdtaeygdltagprvite 86 
                              F eE+  Dlf Eq +Lc  +     + ++ l+++G+s e+A++ec+ elk+i+  + + G ++  + iS +a +g ++ ++ ++ +
  PHY93_08090|PHY93_08090 167 FDEECIADLFSEQSILCSLIPYGSLKSYNLLRKNGVSAEVAFMECFLELKSITHAFVTLGPQAFFNLISPNALIGSQKGRELLMGK 252
                              89************************************************************************************ PP

                              HHHHHHHHHHHHHHTTHHHHHHHHHHHT.TSHHHHHHHHHHHTSHHHH CS
                     IlvC  87 evkeemkeileeiqsGefakevieenka.grpelkklrkeeaeheiek 133
                              +  ++m++il +i++ +f kev  + +   ++ l ++++ee ++ + k
  PHY93_08090|PHY93_08090 253 SFDQAMEQILVDIKNKQFYKEVEIDADLlRQKVLMEWDQEELSQTFIK 300
                              **********************88866668899999998877766655 PP

>> COMMD1_N  COMMD1 N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.2   1.7e-05       0.1       5      50 ..     256     301 ..     252     303 .. 0.92

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 1.7e-05
                 COMMD1_N   5 kslsgllngiakrkyygeeeiteellkeelypdvsedefaalvekm 50 
                              ++++++l  i  +++y+e ei  +ll++++  +  ++e+++++ k+
  PHY93_08090|PHY93_08090 256 QAMEQILVDIKNKQFYKEVEIDADLLRQKVLMEWDQEELSQTFIKL 301
                              678999**********************************998776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (305 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       506  (0.0282224); expected 358.6 (0.02)
Passed bias filter:                      370  (0.020637); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.54u 0.27s 00:00:00.81 Elapsed: 00:00:00.44
# Mc/sec: 2079.24
//
Query:       PHY93_16495|PHY93_16495  [L=285]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    9.6e-42  143.4   0.0    1.2e-41  143.1   0.0    1.0  1  Cofac_haem_bdg  Haem-binding uptake, Tiki superfamily, ChaN


Domain annotation for each model (and alignments):
>> Cofac_haem_bdg  Haem-binding uptake, Tiki superfamily, ChaN
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  143.1   0.0   6.7e-46   1.2e-41       2     212 ..      38     237 ..      37     238 .. 0.91

  Alignments for each domain:
  == domain 1  score: 143.1 bits;  conditional E-value: 6.7e-46
                              HHHHTT-SEEEEEE-TT-HHHHHHHHHHHHHH.HTT--EEEEEEEEEGGGHHHHHHHHHT.HHH......TT--TTS-..GGGTHH CS
           Cofac_haem_bdg   2 lkelaqadvvllGEkHdnpdhhalqlellkaLaaagarlalglEmferdqqpaLdrylagkideeellealewekrWgydwalYrp 87 
                              +k++ +  vv+lGE+H n  +++ ql++l++L+a+g+++ +g+E+++ +qq+a+d+y +g+++e ++l+++ w    + ++++Yr+
  PHY93_16495|PHY93_16495  38 IKSIPKGAVVFLGEQHGNGLIQKGQLAVLNELRANGHKINVGMEFLDYTQQSAVDEYRSGTLSEPDFLKKMAWG---SVNFDFYRD 120
                              56777889************************867889*********************************775...3679***** PP

                              HHHHHH.TSS--EEEEE--HHHHHHHHTT......------SSSS........-HHHHHHHHHHHHHHHT-TTTHHHHHHHHHHHH CS
           Cofac_haem_bdg  88 llefar.eaglplvalnlprelvrkvareGleslseeeereraslpaeseileseeyraaleevlaehhcgeakeealerfveaQv 172
                               + f + e g + +aln pr l  +++++Gl++lse   ++ ++lp++++ l+ e+y+++++e++a+h +   ++ea++r++eaQ+
  PHY93_16495|PHY93_16495 121 QILFPKaELGEKTFALNSPRWLSGEISKNGLSNLSE---EALKLLPPQLH-LGRESYKKRFTEMMAGHVT---SPEAMQRYFEAQS 199
                              ******889*************************97...55556775554.999***********99986...99999******** PP

                              HHHHHHHHHHHH-SS.E.....EEEEEEHHHH-TTTSHHH CS
           Cofac_haem_bdg 173 lwDetMAesiaaalkarnpgklvvviaGsgHveyglGipa 212
                              +wDetM+++ia+a  a  ++ ++vv++G++H+eyg G+p 
  PHY93_16495|PHY93_16495 200 VWDETMSWNIAEAPVA--ADDTIVVVVGQFHIEYGGGLPY 237
                              ***********86663..488****************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (285 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       330  (0.0184059); expected 358.6 (0.02)
Passed bias filter:                      322  (0.0179597); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.32s 00:00:00.83 Elapsed: 00:00:00.44
# Mc/sec: 1943.90
//
Query:       PHY93_08095|PHY93_08095  [L=263]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      1e-37  130.2   0.0    1.8e-37  129.4   0.0    1.4  1  Aminotran_4  Amino-transferase class IV


Domain annotation for each model (and alignments):
>> Aminotran_4  Amino-transferase class IV
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  129.4   0.0     1e-41   1.8e-37       2     221 ..      23     237 ..      22     239 .. 0.87

  Alignments for each domain:
  == domain 1  score: 129.4 bits;  conditional E-value: 1e-41
              Aminotran_4   2 lfEtmrvyngeiffldeHleRLrksaell..glelpfdeeelrkileelleannsen.......grlrllvsrgggglgaatseps 78 
                              +f+ +  yng+i+fld HleRL k+a+ l  +++++ + e +++ +e ++++  ++         ++rl+++ +            
  PHY93_08095|PHY93_08095  23 IFTSFISYNGKILFLDSHLERLVKGADFLfpDIGWSQNFEKIKQYVEGVFKNTMDRSgdqsmnnNYFRLTIFDDC----------- 97 
                              6888889*******************6665********************9999999888888777999998888........... PP

              Aminotran_4  79 vavyvsalppgpesekelplvtssdvrrdapsplpgaKtlnyldnvlarreakergadevllvdedgnvtEgstsNvfivk.ggel 163
                              ++++ +a++ +++s k      s+    +a    p +K  nyl++ l  ++ak +++d+vl++d + n+tE+stsN+fiv  gg++
  PHY93_08095|PHY93_08095  98 LHLQQKAFETHNDSLKL----MSALKVKTAGLIPPFVKLSNYLESDLELARAKFKSYDDVLFFDYAQNITEASTSNIFIVTtGGAI 179
                              44555555555555555....3333555777777779****************************************66555**** PP

              Aminotran_4 164 itPplssgiLpGitrrallelakalgleveereitlkdleeadeafltntlrgvlpvr 221
                              itP +ss iL+G+tr++lle ++ lg++++e++++  dl +a e++ltn+++gv+ v 
  PHY93_08095|PHY93_08095 180 ITPTPSSIILDGVTRKKLLEKLQYLGFNIKEAPVSKSDLLKAREIWLTNSVKGVRFVE 237
                              ******************************************************9886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (263 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       663  (0.0369792); expected 358.6 (0.02)
Passed bias filter:                      508  (0.028334); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.33s 00:00:00.89 Elapsed: 00:00:00.45
# Mc/sec: 1740.22
//
Query:       PHY93_08100|PHY93_08100  [L=86]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      3e-20   71.7   3.9    4.4e-20   71.1   3.9    1.4  1  YacG            DNA gyrase inhibitor YacG
     0.0027   18.3   5.4     0.0038   17.9   5.4    1.2  1  FYDLN_acid      Protein of unknown function (FYDLN_acid)
  ------ inclusion threshold ------
        0.1   12.4   1.9       0.15   11.8   1.9    1.2  1  Ribosomal_S27e  Ribosomal protein S27
        1.9    8.7   7.6        0.7   10.1   2.0    2.0  2  DUF2387         Probable metal-binding protein (DUF2387)


Domain annotation for each model (and alignments):
>> YacG  DNA gyrase inhibitor YacG
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   71.1   3.9   9.9e-24   4.4e-20       1      49 [.       7      54 ..       7      73 .. 0.93

  Alignments for each domain:
  == domain 1  score: 71.1 bits;  conditional E-value: 9.9e-24
                     YacG  1 vkCPtCkkevewseenpfrPFCSeRCkliDLGeWaseeyripaeeaeed 49
                             vkCP+C+k + + e +++rPFC+eRCk+iDLG+W++e+yr+p++e+ + 
  PHY93_08100|PHY93_08100  7 VKCPQCDKVFYYYE-SEYRPFCCERCKMIDLGHWFEESYRVPGKETIQT 54
                             89*****9999988.***************************9987654 PP

>> FYDLN_acid  Protein of unknown function (FYDLN_acid)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   5.4   8.4e-07    0.0038       9      88 ..       6      84 ..       5      86 .] 0.53

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 8.4e-07
               FYDLN_acid  9 KriCpscgakFYDLnk..dPivcpkcgeefepeevlksraaaaeaeeakkkkeeeedeedeeeeedvsdedadeeeeedddd 88
                             K  Cp+c++ FY  +   +P  c  c+   ++ +  ++   ++ +e+ ++++++e++++++  ++++++++  +++++ +dd
  PHY93_08100|PHY93_08100  6 KVKCPQCDKVFYYYESeyRPFCCERCKMI-DLGHWFEESYRVPGKETIQTDHNNENKQNES--QNEDHEQELYSDQDQFEDD 84
                             678*******998876669*******865.4444434444444444443333333333222..3333334444444443444 PP

>> Ribosomal_S27e  Ribosomal protein S27
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   1.9   3.3e-05      0.15       4      32 ..       3      31 ..       1      34 [. 0.88

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 3.3e-05
                             -EEEEE-TTTS-EEEEESS-SS-EEESSS CS
           Ribosomal_S27e  4 kFldvkCpdCenetvvFshaatvvkCisC 32
                             k l+vkCp+C +    +++  +   C+ C
  PHY93_08100|PHY93_08100  3 KLLKVKCPQCDKVFYYYESEYRPFCCERC 31
                             579*********99999999999999999 PP

>> DUF2387  Probable metal-binding protein (DUF2387)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.3     0.045     2e+02      10      21 ..       8      16 ..       6      26 .. 0.64
   2 ?   10.1   2.0   0.00016       0.7      10      58 ..      27      75 ..      25      86 .] 0.76

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.045
                  DUF2387 10 vCPrCsemDkir 21
                              CP+C   Dk+ 
  PHY93_08100|PHY93_08100  8 KCPQC---DKVF 16
                             47777...5554 PP

  == domain 2  score: 10.1 bits;  conditional E-value: 0.00016
                  DUF2387 10 vCPrCsemDkirmweede.veyrECvsCgftdelsekgqsvakelktrvn 58
                              C rC+  D  +++ee   v+ +E ++ ++ +e +++ +s+  + ++ + 
  PHY93_08100|PHY93_08100 27 CCERCKMIDLGHWFEESYrVPGKETIQTDHNNENKQN-ESQNEDHEQELY 75
                             599******99999999889**********9998877.455555554444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (86 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1717  (0.0957666); expected 358.6 (0.02)
Passed bias filter:                      471  (0.0262703); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.46u 0.28s 00:00:00.74 Elapsed: 00:00:00.42
# Mc/sec: 617.28
//
Query:       PHY93_08105|PHY93_08105  [L=315]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    7.5e-50  169.9   0.0    8.8e-50  169.7   0.0    1.1  1  Inositol_P  Inositol monophosphatase family


Domain annotation for each model (and alignments):
>> Inositol_P  Inositol monophosphatase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  169.7   0.0   4.9e-54   8.8e-50       4     264 ..      36     310 ..      33     315 .] 0.86

  Alignments for each domain:
  == domain 1  score: 169.7 bits;  conditional E-value: 4.9e-54
                              HHHHHHHHHHH.HHHHHHHHHTTTSEEEESTTTCCHHHHHHHHHHHHHHHHHHHHHHHHSTTSEEEHHCHHHHCC.......CT.S CS
               Inositol_P   4 evtkaavelaa.kagevlreefsenelvieekskegeedlvtaadeaveelilealaekfpshkilgeetlakge.......ksel 81 
                               v+k + +la+     ++++ ++  +l+i  k+   ++ ++++ad ++e++i++ +++ +p+h il ee+  k+        +  +
  PHY93_08105|PHY93_08105  36 DVLKLSLKLAKiSGEHLIKKQLRISSLKITVKE---AQGIASNADTESEKIIMDGIKKIYPDHFILAEESAFKEFkgemsryEFLK 118
                              678888899994455578888988899999888...999******************************88777779999866666 PP

                              SSSSEEEEEEEEETHHHHHHT-SG-EEEEEEEETTEEEEEEEEETTTTEEECEETTTEEEETC..........EEEEECTTS.... CS
               Inositol_P  82 tedgltwivDPiDGTknFvrgipqvaVsigllvegkpvlGviaqPllgqlysaakgkGaflng..........eklplsrap.... 153
                              +++ ++wi+DP+DGT nF++g ++++V+i l++ g+pv+Gv+  P +g+ + a kgkG+ + +          +       +    
  PHY93_08105|PHY93_08105 119 NKE-WVWIIDPLDGTNNFLNGLDYFCVCISLAHFGEPVVGVVLRPSTGECFYAIKGKGTKTLNllakksekksK-------Ttslk 196
                              666.******************************************************9988866665554442.......14444 PP

                              ......EGGGTEEEEEESSSSSSHHHHCHHHHHHHCCCCCHEEEBESSHHHHHHHHHHTSTSEEEEEC.EBHHHHHHHHHHHHHTT CS
               Inositol_P 154 ......piseallvtlfavssrkdtseasllekvesavsaegvrsvgssalklaavaeGkadaylefgrekkWDhAAGeaileeaG 233
                                    +++++llvt f +++ + ++e+ +l k +   s+  +r++gs+al+l++v  G +d ++e g +  WD+ A+ +i++e G
  PHY93_08105|PHY93_08105 197 ksvnkkSLKNSLLVTGFTTEKGPIFEEEFTLFKNMIGRSRG-IRRMGSAALDLCYVSKGIFDCFWERG-LAAWDVSAAGLICTESG 280
                              555778899999*********99999988888887777777.9*************************.***************** PP

                              EEEEESSSCSSSTTSSEEEEESCHHHHHHHH CS
               Inositol_P 234 Gvvtdakgegrlllargiiaanqkelaella 264
                               vvtd++g+++ + + +i+aa+   l++ ++
  PHY93_08105|PHY93_08105 281 VVVTDYAGQKFHPFQETILAAR-APLHGEIL 310
                              *********9999999999998.55555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (315 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       903  (0.0503653); expected 358.6 (0.02)
Passed bias filter:                      510  (0.0284455); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.59u 0.33s 00:00:00.92 Elapsed: 00:00:00.48
# Mc/sec: 1992.09
//
Query:       PHY93_08110|PHY93_08110  [L=302]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
     0.0049   16.8   2.7     0.0049   16.8   2.7    2.5  2  FlxA            FlxA-like protein
     0.0053   15.2   5.7     0.0075   14.7   5.7    1.2  1  MAD             Mitotic checkpoint protein
     0.0061   16.7   2.9        4.5    7.4   0.0    3.4  3  Uds1            Up-regulated During Septation
  ------ inclusion threshold ------
      0.011   14.7   2.8      0.016   14.2   2.8    1.2  1  Kre28           Spindle pole body component
      0.027   14.3   4.4      0.027   14.3   4.4    2.6  2  Takusan         Takusan
      0.036   14.3   1.9      0.055   13.7   1.9    1.3  1  MutS_III        MutS domain III
      0.076   13.0   0.7        1.2    9.2   0.0    2.6  2  Adhesin_P1_N    Adhesin P1 N-terminal domain
       0.12   12.9  10.0        0.2   12.1  10.0    1.5  1  Fez1            Fez1
       0.15   12.4   0.1        4.9    7.5   0.0    2.3  2  Ly49            Ly49-like protein, N-terminal region
       0.24   12.3  17.6       0.25   12.2  13.1    2.7  2  PRKG1_interact  cGMP-dependent protein kinase interacting dom
       0.25   11.6   5.1       0.55   10.6   0.1    2.7  2  BLOC1_2         Biogenesis of lysosome-related organelles com
       0.38   11.0  16.5      0.043   14.0   4.1    2.5  2  ATG16           Autophagy protein 16 (ATG16)
       0.63   10.3  11.9        0.5   10.6   3.9    3.5  3  HALZ            Homeobox associated leucine zipper
       0.69    9.7  18.2        2.6    7.9   1.1    3.8  3  DivIC           Septum formation initiator
       0.83    9.4  14.8        4.4    7.1   2.9    3.0  2  Phage_GP20      Phage minor structural protein GP20
       0.95    9.6   4.7       0.75    9.9   0.4    2.6  2  PilO            Pilus assembly protein, PilO
          1    8.6  11.5       0.28   10.5   7.5    2.2  2  DUF4407         Domain of unknown function (DUF4407)
        1.4    8.2   6.0        2.3    7.5   6.0    1.3  1  CASP_C          CASP C terminal
        1.7    7.1   8.3         11    4.4   8.6    1.7  1  Macoilin        Macoilin family
        2.4    7.5  14.4        1.3    8.4   7.8    2.6  2  GAS             Growth-arrest specific micro-tubule binding
        2.9    8.4   6.8        2.4    8.6   0.1    3.0  3  DASH_Dad2       DASH complex subunit Dad2
        3.9    7.8   7.1        6.8    7.1   1.0    3.2  2  TSC22           TSC-22/dip/bun family
          4    7.8  10.2         14    6.0   0.6    2.7  2  DUF641          Plant protein of unknown function (DUF641)
        6.7    6.9  19.7       0.32   11.2   6.6    2.7  3  Jnk-SapK_ap_N   JNK_SAPK-associated protein-1


Domain annotation for each model (and alignments):
>> FlxA  FlxA-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   2.7   6.6e-06    0.0049      23      68 ..     128     168 ..     100     181 .. 0.78
   2 ?    1.0   3.0      0.57   4.2e+02      44      67 ..     202     225 ..     176     240 .. 0.44

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 6.6e-06
                     FlxA  23 qkQiknlqkqLkelsesdeltkeekkkqqqliqaQIqqlqaQIaql 68 
                              +kQi++l+k ++el++ +  ++e     ++l++++++ lq+Q+a  
  PHY93_08110|PHY93_08110 128 TKQISDLEKRMQELGAGKGGSPE-----AELLKKELTTLQSQLAEA 168
                              69********************9.....***************976 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.57
                     FlxA  44 keekkkqqqliqaQIqqlqaQIaq 67 
                               ee  +  + +q++ +ql+a++a 
  PHY93_08110|PHY93_08110 202 IEEDLANLKRLQQENDQLKAELAA 225
                              333333344444444444444443 PP

>> MAD  Mitotic checkpoint protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   5.7     1e-05    0.0075     151     263 ..     110     225 ..     105     276 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1e-05
                      MAD 151 leqliqqlekkqkelaeaeqrikeLefeiqsqeddslivknskselaripelekelerlreenkklnelkenkelLkEevedlkkk 236
                              ++q++++  + + +l+++ ++i +Le ++q+    +    +++     + +l+++l++ r+      +lk++  +++ e +dl+++
  PHY93_08110|PHY93_08110 110 VNQKNAEIASLTLKLNDRTKQISDLEKRMQELGAGKGGSPEAELLKKELTTLQSQLAEARAASGGDPNLKQDLTIVTNERNDLRER 195
                              68888888888999999999999999999985555544444333335678999***********99******************** PP

                      MAD 237 LereEkareelvkL...elekekleqeLks 263
                              L+ +E + e+l++L   + e+++l++eL +
  PHY93_08110|PHY93_08110 196 LKEYEIIEEDLANLkrlQQENDQLKAELAA 225
                              *********999753227899999999976 PP

>> Uds1  Up-regulated During Septation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.4   0.0    0.0061       4.5      77     115 ..     103     141 ..      64     143 .. 0.90
   2 ?    3.3   0.1      0.11        86      22      42 ..     150     170 ..     148     172 .. 0.87
   3 ?    4.0   0.8     0.073        54      13      54 ..     197     239 ..     176     273 .. 0.63

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.0061
                     Uds1  77 skssreslakaeeelaeserkvdelaselekleeraaev 115
                              s s++e+ +++++e+a+++ k ++ ++++  le+r +e+
  PHY93_08110|PHY93_08110 103 SGSDSEAVNQKNAEIASLTLKLNDRTKQISDLEKRMQEL 141
                              4567889****************************9986 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.11
                     Uds1  22 eVeelkkelkaLeerlealrk 42 
                              e e lkkel++L+++l  +r+
  PHY93_08110|PHY93_08110 150 EAELLKKELTTLQSQLAEARA 170
                              6789***********999886 PP

  == domain 3  score: 4.0 bits;  conditional E-value: 0.073
                     Uds1  13 qefeiLs..leeVeelkkelkaLeerlealrkkLaletklrdaa 54 
                              +e+ei +  l  ++ l++e  +L+  l alrk  a + k+ da 
  PHY93_08110|PHY93_08110 197 KEYEIIEedLANLKRLQQENDQLKAELAALRKG-APQAKIPDAV 239
                              344444311334444555555666666666655.5555555555 PP

>> Kre28  Spindle pole body component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   2.8   2.1e-05     0.016     135     249 ..     108     230 ..     103     241 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 2.1e-05
                    Kre28 135 etltekeseieqikgeIkekgkelaekqdqinelyLettneideCwelLnEleelrdrrnkvekqtseekdt.........eddlv 211
                              e +++k+ ei +++ ++++ +k++++ + +++el  + +++ +    l  El++l+++  +       + +          e + +
  PHY93_08110|PHY93_08110 108 EAVNQKNAEIASLTLKLNDRTKQISDLEKRMQELGAGKGGSPE-AELLKKELTTLQSQLAEARAASGGDPNLkqdltivtnERNDL 192
                              7789*****************************9888877765.4555579999997544443333333332444455888999** PP

                    Kre28 212 eetYeeWkslqkslqekeelkeeldrLkkekkeleevk 249
                               e  +e++ +++ l +++ l++e+d+Lk+e++ l +  
  PHY93_08110|PHY93_08110 193 RERLKEYEIIEEDLANLKRLQQENDQLKAELAALRKGA 230
                              ******************************99988765 PP

>> Takusan  Takusan
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.1       2.4   1.8e+03      14      40 ..     112     138 ..     104     144 .. 0.68
   2 ?   14.3   4.4   3.7e-05     0.027      21      65 ..     177     221 ..     159     226 .. 0.87

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 2.4
                  Takusan  14 qakkklEeLkleLrkitreRdELrdiL 40 
                              q++ ++  L+l+L   t++  +L +++
  PHY93_08110|PHY93_08110 112 QKNAEIASLTLKLNDRTKQISDLEKRM 138
                              556666677777777777766666665 PP

  == domain 2  score: 14.3 bits;  conditional E-value: 3.7e-05
                  Takusan  21 eLkleLrkitreRdELrdiLaly..tegslndrpsvrlnpeyekLkl 65 
                              +Lk +L  +t+eR++Lr++L  y  +e++l +    rl++e  +Lk 
  PHY93_08110|PHY93_08110 177 NLKQDLTIVTNERNDLRERLKEYeiIEEDLAN--LKRLQQENDQLKA 221
                              799*****************987447999999..9999999999986 PP

>> MutS_III  MutS domain III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   1.9   7.4e-05     0.055      66     152 ..     120     284 ..     107     302 .] 0.58

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 7.4e-05
                              .HHHHHHHHTT---HHHHHHHHHTT--.-HHH..HHHHHHHHHHHHTTTTT---SSTHHHHH..............HHHH.HHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxx..............xxxx.xxxxx RF
                 MutS_III  66 lreelrellrrlpDleRllsrislgka.kard..lkallealkaleelvallekeklaesee..............esla.ellee 133
                              l  +l + +++++Dle+ ++++ +gk+ +++   lk+ l++l++  + +++++        +              ++l+ +l e 
  PHY93_08110|PHY93_08110 120 LTLKLNDRTKQISDLEKRMQELGAGKGgSPEAelLKKELTTLQSQLAEARAASGG------DpnlkqdltivtnerNDLReRLKEY 199
                              3445567899999************984654333333233333211111111111......1233345666666554455334444 PP

                              HB-SS--SSGGGS--B-T..................................................................H CS
                              xxxxxxxxxxxxxxxxxx..................................................................x RF
                 MutS_III 134 aideeplalekegedlra..................................................................i 152
                               i+ee+la+ k+ +++++                                                                   
  PHY93_08110|PHY93_08110 200 EIIEEDLANLKRLQQENDqlkaelaalrkgapqakipdavvsvapvlapvfeeeidleaemaraieeskpaakalvvevpeeapV 284
                              5777777777777777776666777777788878877777777777777777777766666665544444444444444444443 PP

>> Adhesin_P1_N  Adhesin P1 N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   0.0    0.0016       1.2      28      60 ..     102     140 ..      97     145 .. 0.83
   2 ?    1.1   0.1      0.54   4.1e+02       6      36 ..     265     295 ..     261     298 .. 0.86

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.0016
             Adhesin_P1_N  28 GtaktaeeadaKkaeIk......aDYnkQakeikaatde 60 
                              G+ + +e++++K aeI+      +D +kQ++++++ ++e
  PHY93_08110|PHY93_08110 102 GSGSDSEAVNQKNAEIAsltlklNDRTKQISDLEKRMQE 140
                              777889**********85555556***********9998 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.54
             Adhesin_P1_N   6 DqAvkeAkeaGveVekdatvDkGtaktaeea 36 
                              +++  +Ak+  veV  +a v +G  k+aee+
  PHY93_08110|PHY93_08110 265 EESKPAAKALVVEVPEEAPVVEGEQKSAEEL 295
                              66677899999****************9996 PP

>> Fez1  Fez1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1  10.0   0.00027       0.2      46     150 ..     109     229 ..     105     301 .. 0.74

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00027
                     Fez1  46 kleekeeeikeleesleektlelevcenelqrk......kseaellrekvekleeelkelreelselsleeeeaa..........l 115
                              ++++k++ei +l  +l+++t+++  +e+++q+       + eaell++++++l+++l+e r +     + +++ +          +
  PHY93_08110|PHY93_08110 109 AVNQKNAEIASLTLKLNDRTKQISDLEKRMQELgagkggSPEAELLKKELTTLQSQLAEARAASGGDPNLKQDLTivtnerndlrE 194
                              56677777777777777777777777777777777777766777777777777777777766444322222222223322222114 PP

                     Fez1 116 esdeakaqrqeaeeleelkreverlraeLkeerqk 150
                              + +e +  +++  +l++l++e ++l+aeL+  r+ 
  PHY93_08110|PHY93_08110 195 RLKEYEIIEEDLANLKRLQQENDQLKAELAALRKG 229
                              44444444455889999999999999999988875 PP

>> Ly49  Ly49-like protein, N-terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   0.0    0.0065       4.9      10      66 ..      16      76 ..       9      86 .. 0.79
   2 ?    2.2   0.1       0.3   2.3e+02      44      86 ..     177     215 ..     158     231 .. 0.59

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0065
                             XXXXXXXXXXXXXXXXXXXXXXXXXXXXX..XXXX.XXXXXX..XXXXXXXXXXXXXXXXX CS
                     Ly49 10 algILclllLvtvavLvtkifqysqekhel.eetl.nlsqny..simqndinlkeelLrnk 66
                             ++ ++ +llLvt+a ++   f  +++ ++l +e+  ++ +ny  si+qn + lk  l+r  
  PHY93_08110|PHY93_08110 16 TITVFSTLLLVTMAGIIAYWFYNRKKFQQLtHEIPaSVVKNYldSIIQNSTALKSSLFRGG 76
                             5678999******988888776666666653666688889987789********9998865 PP

  == domain 2  score: 2.2 bits;  conditional E-value: 0.3
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXX..HHHHHHHHHHHHH CS
                     Ly49  44 nlsqnysimqndinlkeelLrnkslecsilkdlleslkreqkr 86 
                              nl+q  +i+ n+ n     Lr++  e++i++++l +lkr q++
  PHY93_08110|PHY93_08110 177 NLKQDLTIVTNERN----DLRERLKEYEIIEEDLANLKRLQQE 215
                              56666666655533....2444445555555555555554433 PP

>> PRKG1_interact  cGMP-dependent protein kinase interacting domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2  13.1   0.00034      0.25      12      93 ..     150     226 ..     108     228 .. 0.79
   2 ?   -1.9   0.1       8.3   6.2e+03      70      79 ..     286     295 ..     250     302 .] 0.43

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 0.00034
           PRKG1_interact  12 enerLkreLeelekelselkseleklkqqrqesvskrssllelekrerrslerkiseleeelkeleeLraenqrLkdEngAL 93 
                              e e Lk+eL++l+ +l+e+++           ++++  +++  e+++ r+  +++  +ee+l +l++L++en++Lk+E  AL
  PHY93_08110|PHY93_08110 150 EAELLKKELTTLQSQLAEARAASGG-----DPNLKQDLTIVTNERNDLRERLKEYEIIEEDLANLKRLQQENDQLKAELAAL 226
                              5566677777777777666663333.....2345556666666666666666666677********************9998 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 8.3
           PRKG1_interact  70 eeelkeleeL 79 
                              e e+k  eeL
  PHY93_08110|PHY93_08110 286 EGEQKSAEEL 295
                              3333333333 PP

>> BLOC1_2  Biogenesis of lysosome-related organelles complex-1 subunit 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.1   0.00074      0.55      48      84 ..     105     141 ..     100     143 .. 0.92
   2 ?    1.2   1.8      0.64   4.8e+02      52      79 ..     195     221 ..     177     228 .. 0.48

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00074
                  BLOC1_2  48 kkleklnekyeelqpylqqidqiekqvteLeeavseL 84 
                              +++e++n+k++e++++  ++++  kq+++Le+  +eL
  PHY93_08110|PHY93_08110 105 SDSEAVNQKNAEIASLTLKLNDRTKQISDLEKRMQEL 141
                              57899***************************99887 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.64
                  BLOC1_2  52 klnekyeelqpylqqidqiekqvteLee 79 
                              +l+e ye +++ l ++++++++ ++L++
  PHY93_08110|PHY93_08110 195 RLKE-YEIIEEDLANLKRLQQENDQLKA 221
                              3333.55555555555555555444443 PP

>> ATG16  Autophagy protein 16 (ATG16)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   4.1   5.8e-05     0.043     120     170 ..     105     168 ..     102     181 .. 0.93
   2 ?    2.8   8.2      0.16   1.2e+02      78     151 ..     153     228 ..     143     234 .. 0.68

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 5.8e-05
                    ATG16 120 edeerlaeleaeraaletklkdreeelrekeklvq.............dlqDElsaLqlqlnqa 170
                              +d+e++++ +ae+a+l+ kl+dr++++ ++ek +q              l+ El++Lq ql  a
  PHY93_08110|PHY93_08110 105 SDSEAVNQKNAEIASLTLKLNDRTKQISDLEKRMQelgagkggspeaeLLKKELTTLQSQLAEA 168
                              7999*******************************************9************9866 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.16
                    ATG16  78 sleqklaqlreelaelyksrg...elaqrllelneelqkleeklkedeerlaeleaeraaletklkdreeelrekek 151
                               l+++l++l+++lae+  + g    l+q l+ +++e  +l+e+lke e  ++e  a+ ++l+++ +++++el+ ++k
  PHY93_08110|PHY93_08110 153 LLKKELTTLQSQLAEARAASGgdpNLKQDLTIVTNERNDLRERLKEYEI-IEEDLANLKRLQQENDQLKAELAALRK 228
                              5677888888888888888774445888888888888888888876543.444445555666666666666666655 PP

>> HALZ  Homeobox associated leucine zipper
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.3      0.17   1.2e+02      22      37 ..     152     167 ..     149     171 .. 0.74
   2 ?   -1.2   0.0       3.3   2.5e+03      16      36 ..     177     197 ..     177     198 .. 0.71
   3 ?   10.6   3.9   0.00067       0.5       6      40 ..     198     228 ..     197     230 .. 0.82

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.17
                     HALZ  22 dsLkkenekLkaelqe 37 
                              + Lkke  +L+++l+e
  PHY93_08110|PHY93_08110 152 ELLKKELTTLQSQLAE 167
                              6678888888888765 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 3.3
                     HALZ  16 aLksdydsLkkenekLkaelq 36 
                              +Lk d   + +e++ L+  l+
  PHY93_08110|PHY93_08110 177 NLKQDLTIVTNERNDLRERLK 197
                              577777788888888877665 PP

  == domain 3  score: 10.6 bits;  conditional E-value: 0.00067
                     HALZ   6 DYdvLKasYdaLksdydsLkkenekLkaelqeLke 40 
                              +Y++   +  +Lk     L++en++Lkael+ L++
  PHY93_08110|PHY93_08110 198 EYEIIEEDLANLK----RLQQENDQLKAELAALRK 228
                              6666666667777....9**************985 PP

>> DivIC  Septum formation initiator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9   1.1    0.0034       2.6      18      50 ..     109     141 ..     104     151 .. 0.91
   2 ?    1.3   0.1      0.39   2.9e+02      12      38 ..     144     170 ..     141     172 .. 0.80
   3 ?    7.7   5.1    0.0039       2.9      31      53 ..     207     229 ..     178     234 .. 0.83

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.0034
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC- CS
                    DivIC  18 aykqlkqeiaalqaelaklkaeneeLeaevkdL 50 
                              a+ q+++eia l+ +l+  ++++ +Le++ ++L
  PHY93_08110|PHY93_08110 109 AVNQKNAEIASLTLKLNDRTKQISDLEKRMQEL 141
                              6789************************99988 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.39
                              XXXXXXHHHHHHHHHHHHHHHHHHHHH CS
                    DivIC  12 gkkgllaykqlkqeiaalqaelaklka 38 
                              gk+g      lk+e+++lq +la+ +a
  PHY93_08110|PHY93_08110 144 GKGGSPEAELLKKELTTLQSQLAEARA 170
                              5666666677999********999886 PP

  == domain 3  score: 7.7 bits;  conditional E-value: 0.0039
                              HHHHHHHHHHHHHHHHHCC-XXX CS
                    DivIC  31 aelaklkaeneeLeaevkdLksd 53 
                              a+l++l++en++L+ae++ L+++
  PHY93_08110|PHY93_08110 207 ANLKRLQQENDQLKAELAALRKG 229
                              6788999*********9999875 PP

>> Phage_GP20  Phage minor structural protein GP20
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.1   2.9    0.0058       4.4      19      69 ..     109     169 ..      99     175 .. 0.65
   2 ?    6.9   3.9    0.0066       4.9      16      68 ..     177     233 ..     168     238 .. 0.83

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.0058
               Phage_GP20  19 kldeveeerdtlkeqlkdrdkqLedLkkkak..........dneeLqkqieelqaknkkak 69 
                              ++++ ++e  +l+ +l+dr kq++dL+k  +          ++e L+k++++lq ++++a 
  PHY93_08110|PHY93_08110 109 AVNQKNAEIASLTLKLNDRTKQISDLEKRMQelgagkggspEAELLKKELTTLQSQLAEAR 169
                              5666777778888888888888888887654111111111145667777777777777765 PP

  == domain 2  score: 6.9 bits;  conditional E-value: 0.0066
               Phage_GP20  16 t.kakldeveeerdtlkeqlkdr...dkqLedLkkkakdneeLqkqieelqaknkka 68 
                              + k++l+ v++er++l e+lk+    +++L +Lk  +++n++L+++++ l + + +a
  PHY93_08110|PHY93_08110 177 NlKQDLTIVTNERNDLRERLKEYeiiEEDLANLKRLQQENDQLKAELAALRKGAPQA 233
                              45899999************997333699*****************99998876655 PP

>> PilO  Pilus assembly protein, PilO
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   0.1      0.93     7e+02      13      42 ..     112     141 ..     105     146 .. 0.60
   2 ?    9.9   0.4     0.001      0.75       5      50 ..     189     234 ..     182     245 .. 0.80

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 0.93
                     PilO  13 kefeekkekaanLeklkkqleeleeeleel 42 
                              ++ +e ++ + +L+   kq+ +le++++el
  PHY93_08110|PHY93_08110 112 QKNAEIASLTLKLNDRTKQISDLEKRMQEL 141
                              444455555556666666666666666554 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 0.001
                     PilO   5 eakekeLkkefeekkekaanLeklkkqleeleeeleellkqLPskk 50 
                              +++ +e  ke+e  +e  anL++l+++ ++l++el++l k  P+ k
  PHY93_08110|PHY93_08110 189 RNDLRERLKEYEIIEEDLANLKRLQQENDQLKAELAALRKGAPQAK 234
                              444555567889999***********************99999765 PP

>> DUF4407  Domain of unknown function (DUF4407)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.1       1.2   9.3e+02      12      39 ..      11      38 ..       9      54 .. 0.84
   2 ?   10.5   7.5   0.00038      0.28     132     228 ..     107     225 ..      42     273 .. 0.73

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 1.2
                  DUF4407 12 kyagiGavvlltallAalsgayAlytvl 39
                             k++    +v++t ll +++g  A +++ 
  PHY93_08110|PHY93_08110 11 KFTDETITVFSTLLLVTMAGIIAYWFYN 38
                             677777899******9999999999875 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 0.00038
                  DUF4407 132 taelaeleaqiaalqaeidaaearldalraeaqkeldgtkgtgttgvaGkgpaakekkaqldaaqaelaelkakld.......... 207
                              ++ +++ +a+ia+l  +++   +++++l++ +q+      g+g    +G  p+a+  k++l+++q +lae++a +           
  PHY93_08110|PHY93_08110 107 SEAVNQKNAEIASLTLKLNDRTKQISDLEKRMQEL-----GAG----KGGSPEAELLKKELTTLQSQLAEARAASGgdpnlkqdlt 183
                              56677777777777777777777777777777744.....334....45689999***************9999779999999999 PP

                  DUF4407 208 .....................atarlaalraelaeleaerak 228
                                                     a+l++l++e ++l+ae+a+
  PHY93_08110|PHY93_08110 184 ivtnerndlrerlkeyeiieeDLANLKRLQQENDQLKAELAA 225
                              999955555555554444444444444444444444444443 PP

>> CASP_C  CASP C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   6.0    0.0031       2.3       6     126 ..     116     228 ..     105     230 .. 0.51

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0031
                   CASP_C   6 elseleaeleeqkeLnekLEndllkvqseasnaskasdassagsevsrkaese....grksptssiisgaeesesaesssessiLp 87 
                              e+++l+ +l++ ++ ++ LE+ ++++ + +            gs  ++  ++e    +++ +++  +sg +++        ++ L+
  PHY93_08110|PHY93_08110 116 EIASLTLKLNDRTKQISDLEKRMQELGAGKG-----------GSPEAELLKKElttlQSQLAEARAASGGDPN-------LKQDLT 183
                              3333333333333333333333333333333...........2222222211110001112222223333332.......45559* PP

                   CASP_C  88 ivtsQRDRFrkrnaeLE......eelrkqeetvsslraeiaslqk 126
                              ivt+ R   r+r +e E      ++l++ +++ ++l+ae+a+l+k
  PHY93_08110|PHY93_08110 184 IVTNERNDLRERLKEYEiieedlANLKRLQQENDQLKAELAALRK 228
                              ***************875544444678888999999999999986 PP

>> Macoilin  Macoilin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.4   8.6     0.015        11     341     455 ..     112     224 ..      95     273 .. 0.52

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.015
                 Macoilin 341 ssnssskkhsessksvtsssssknskkqklpaGkssaalkdaaenslpnnqlskkdalvrLeadikkLkaeLqasrqteqelrski 426
                              + n+  +++  + + +t+  s+ +++ q+l+aGk ++ + +  ++ l+  q    +a     +d   Lk +L+   +  ++lr+++
  PHY93_08110|PHY93_08110 112 QKNAEIASLTLKLNDRTKQISDLEKRMQELGAGKGGSPEAELLKKELTTLQSQLAEARAASGGD-PNLKQDLTIVTNERNDLRERL 196
                              2222222222222222222233333333555555555555555554444443333333333333.344555555555555555555 PP

                 Macoilin 427 ssltseerslkselqqlkkendllqtklh 455
                              +     e  l  +l+ l++end+l++ l 
  PHY93_08110|PHY93_08110 197 KEYEIIEEDLA-NLKRLQQENDQLKAELA 224
                              55555444442.34555555555554444 PP

>> GAS  Growth-arrest specific micro-tubule binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   6.4      0.02        15      49     130 ..     110     197 ..     105     199 .. 0.79
   2 ?    8.4   7.8    0.0017       1.3      38     101 ..     154     220 ..     148     233 .. 0.63

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.02
                      GAS  49 lseisqenkrlkepLkkaeeeveeLrkqlknyekdkq...slknlkarlkelekelkdlkweh...evleqrfekvekerdelykk 128
                              +++ ++e  +l+ +L+  ++++  L+k++++    k    + + lk++l++l+++l + +  +    +l+q ++ v +er++l+++
  PHY93_08110|PHY93_08110 110 VNQKNAEIASLTLKLNDRTKQISDLEKRMQELGAGKGgspEAELLKKELTTLQSQLAEARAASggdPNLKQDLTIVTNERNDLRER 195
                              56777899999999999999999999999999887753336778899999999999888877522279999999999999999998 PP

                      GAS 129 fe 130
                               +
  PHY93_08110|PHY93_08110 196 LK 197
                              76 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.0017
                      GAS  38 lkkkeernekelseisq...enkrlkepLkkaeeeveeLrkqlknyekdkqslknlkarlkelekel 101
                              lkk+ +  + +l+e+ +      +lk+ L+ +++e++ Lr++lk+ye   ++l+nlk+  +e ++  
  PHY93_08110|PHY93_08110 154 LKKELTTLQSQLAEARAasgGDPNLKQDLTIVTNERNDLRERLKEYEIIEEDLANLKRLQQENDQLK 220
                              4444444444444444300045689999999999999999999999887777777775444443332 PP

>> DASH_Dad2  DASH complex subunit Dad2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.0   0.8      0.38   2.8e+02       3      31 ..     109     141 ..     107     149 .. 0.68
   2 ?   -1.2   0.2       3.9   2.9e+03      21      37 ..     151     167 ..     131     172 .. 0.73
   3 ?    8.6   0.1    0.0032       2.4       9      49 ..     204     246 ..     198     276 .. 0.83

  Alignments for each domain:
  == domain 1  score: 2.0 bits;  conditional E-value: 0.38
                DASH_Dad2   3 riaeKraELeaLk.qlrdlsds...lakqleeL 31 
                               +++K aE ++L  +l+d +++   l+k+++eL
  PHY93_08110|PHY93_08110 109 AVNQKNAEIASLTlKLNDRTKQisdLEKRMQEL 141
                              689999999999658999887611134444444 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 3.9
                DASH_Dad2  21 sdslakqleeLeeklst 37 
                              ++ l+k+l++L+ +l++
  PHY93_08110|PHY93_08110 151 AELLKKELTTLQSQLAE 167
                              45678888888888765 PP

  == domain 3  score: 8.6 bits;  conditional E-value: 0.0032
                DASH_Dad2   9 aELeaLkqlrdlsdslakqleeLeekl..stladgteavasVl 49 
                              ++L++Lk+l++  d+l+ +l +L +    +++ d   +va Vl
  PHY93_08110|PHY93_08110 204 EDLANLKRLQQENDQLKAELAALRKGApqAKIPDAVVSVAPVL 246
                              68*********************98651145556666666666 PP

>> TSC22  TSC-22/dip/bun family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.6      0.27     2e+02      21      34 ..     129     142 ..     127     171 .. 0.68
   2 ?    7.1   1.0    0.0091       6.8      22      44 ..     201     223 ..     178     232 .. 0.73

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.27
                    TSC22  21 ekIkeLeernsele 34 
                              ++I +Le+r++el 
  PHY93_08110|PHY93_08110 129 KQISDLEKRMQELG 142
                              58999999998884 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0091
                    TSC22  22 kIkeLeernseleeENslLkala 44 
                               I e +++ ++l++EN +Lka +
  PHY93_08110|PHY93_08110 201 IIEEDLANLKRLQQENDQLKAEL 223
                              47777889999********9865 PP

>> DUF641  Plant protein of unknown function (DUF641)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.6     0.019        14     100     128 .]     109     137 ..     105     137 .. 0.93
   2 ?    5.1   3.2     0.035        26      70     120 ..     179     228 ..     152     234 .. 0.75

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.019
                   DUF641 100 elkakdseieeLkekLeeaeksnkklekr 128
                               +++k++ei +L  kL++ +k+ + lekr
  PHY93_08110|PHY93_08110 109 AVNQKNAEIASLTLKLNDRTKQISDLEKR 137
                              6899***********************98 PP

  == domain 2  score: 5.1 bits;  conditional E-value: 0.035
                   DUF641  70 eaeeseleaeiqeqrsllktyeitvkkleaelkakdseieeLkekLeeaek 120
                              +++ + + +e +++r+ lk yei  ++l  +lk+ ++e ++Lk++L++++k
  PHY93_08110|PHY93_08110 179 KQDLTIVTNERNDLRERLKEYEIIEEDLA-NLKRLQQENDQLKAELAALRK 228
                              3666788899999**********999995.678888899999999998765 PP

>> Jnk-SapK_ap_N  JNK_SAPK-associated protein-1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   0.7     0.032        24      96     129 ..     108     141 ..     105     148 .. 0.90
   2 ?   11.2   6.6   0.00043      0.32      50     138 ..     149     228 ..     144     240 .. 0.89
   3 ?   -2.0   0.2       4.9   3.6e+03       3      14 ..     290     301 ..     252     302 .] 0.66

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.032
            Jnk-SapK_ap_N  96 ekveqleeenrelelkaknaadqlsrleekeael 129
                              e+v+q + e+  l lk+++ ++q+s+le++ +el
  PHY93_08110|PHY93_08110 108 EAVNQKNAEIASLTLKLNDRTKQISDLEKRMQEL 141
                              679999999********************99987 PP

  == domain 2  score: 11.2 bits;  conditional E-value: 0.00043
            Jnk-SapK_ap_N  50 aeleelreeleqLeteyerekelrkraeeeleeiedqweeerkelqekveqleeenrelelkaknaadqlsrleekeaelkkeysk 135
                               e+e+l++el++L++++ + + +    + +l +  + + +er++l+e++++ e  ++ l          l+rl++++++lk e ++
  PHY93_08110|PHY93_08110 149 PEAELLKKELTTLQSQLAEAR-AASGGDPNLKQDLTIVTNERNDLRERLKEYEIIEEDLA--------NLKRLQQENDQLKAELAA 225
                              699************887766.55667789******************************........9999**999999999988 PP

            Jnk-SapK_ap_N 136 lhe 138
                              l +
  PHY93_08110|PHY93_08110 226 LRK 228
                              765 PP

  == domain 3  score: -2.0 bits;  conditional E-value: 4.9
            Jnk-SapK_ap_N   3 diAssigkEfEr 14 
                              + A+++ +EfE+
  PHY93_08110|PHY93_08110 290 KSAEELLSEFEK 301
                              344555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (302 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1452  (0.0809861); expected 358.6 (0.02)
Passed bias filter:                      880  (0.0490825); expected 358.6 (0.02)
Passed Vit filter:                       138  (0.00769703); expected 17.9 (0.001)
Passed Fwd filter:                        41  (0.0022868); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              24  [number of targets reported over threshold]
# CPU time: 0.84u 0.35s 00:00:01.19 Elapsed: 00:00:00.48
# Mc/sec: 1909.44
//
Query:       PHY93_08115|PHY93_08115  [L=259]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.1e-06   29.0   0.0    4.4e-06   27.0   0.0    2.0  2  HEAT_2        HEAT repeats
      0.001   19.1   0.0       0.82   10.1   0.0    3.3  3  HEAT          HEAT repeat
  ------ inclusion threshold ------
       0.06   12.8   0.1      0.091   12.2   0.1    1.3  1  Autoind_bind  Autoinducer binding domain


Domain annotation for each model (and alignments):
>> HEAT_2  HEAT repeats
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.0   0.0   7.3e-10   4.4e-06       1      87 [.      66     152 ..      66     163 .. 0.91
   2 ?   -1.1   0.0      0.44   2.6e+03      44      76 ..     188     220 ..     183     231 .. 0.63

  Alignments for each domain:
  == domain 1  score: 27.0 bits;  conditional E-value: 7.3e-10
                   HEAT_2   1 ldaLlqalendpdpe.vrraairaLgrignpealpaLvellededpavRraaaeaLgaigdpealpaLkellddddddvvReaAae 85 
                              ++aL+++++n + p+  r+ a   Lg+i  +++ p L ++l+++++  R+a  +++ a++ ++   + ++ll+ dd+ +vR +A+e
  PHY93_08115|PHY93_08115  66 VEALIEVMKNGKYPDkNRWVATFLLGQIMGEKSAPFLAKFLKHPSWVMRMASLKTMLALRQKDYGTHYAMLLA-DDSFIVRSQALE 150
                              5899999999777752799*********999*******************************99999999886.578999****99 PP

                   HEAT_2  86 aL 87 
                              ++
  PHY93_08115|PHY93_08115 151 NI 152
                              87 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.44
                   HEAT_2  44 dpavRraaaeaLgaigdpealpaLkellddddd 76 
                               +++ + ++ + g+++ ++a   L ++ + d+ 
  PHY93_08115|PHY93_08115 188 RSNIIKSVIVTVGELKFEQAKLPLIKMIQKDKY 220
                              555666677777888866665556666666655 PP

>> HEAT  HEAT repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.0      0.65   3.9e+03      17      28 ..      83      94 ..      67      94 .. 0.75
   2 !   10.1   0.0   0.00014      0.82       3      25 ..     100     122 ..      99     124 .. 0.90
   3 !    4.7   0.0    0.0072        43       8      27 ..     136     155 ..     133     155 .. 0.84

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 0.65
                             HHHHHHHHHHHH CS
                     HEAT 17 ReaAakaLgala 28
                             R  A   Lg+++
  PHY93_08115|PHY93_08115 83 RWVATFLLGQIM 94
                             888999999985 PP

  == domain 2  score: 10.1 bits;  conditional E-value: 0.00014
                              HHHHHHHT-SSHHHHHHHHHHHH CS
                     HEAT   3 PlllkllsDpspeVReaAakaLg 25 
                              P+l k l++ps+  R+a++k++ 
  PHY93_08115|PHY93_08115 100 PFLAKFLKHPSWVMRMASLKTML 122
                              89*****************9875 PP

  == domain 3  score: 4.7 bits;  conditional E-value: 0.0072
                              HHT-SSHHHHHHHHHHHHHH CS
                     HEAT   8 llsDpspeVReaAakaLgal 27 
                              ll D+s  VR+ A++++ +l
  PHY93_08115|PHY93_08115 136 LLADDSFIVRSQALENIRTL 155
                              46899999*******99875 PP

>> Autoind_bind  Autoinducer binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.1   1.5e-05     0.091       4      57 ..     117     176 ..     114     177 .. 0.91

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 1.5e-05
                              HHHHHHHHHHHHTTCSEEEEE......EEETTSCESCEEEEEESS-HHHHHHHHHTTGGG CS
             Autoind_bind   4 elfdlltrlaaalGfdrfayg......arapskdsaedvlllsnyPaeWlerYveegyla 57 
                              +l+ +l+   +++G  +++++      +r +  ++ +++ + ++ P+ W   Y++++y++
  PHY93_08115|PHY93_08115 117 SLKTMLALRQKDYGTHYAMLLaddsfiVRSQALENIRTLKITNTAPQVWAMLYDKKNYYQ 176
                              67777888889999999999999999999*****************************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (259 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       844  (0.0470746); expected 358.6 (0.02)
Passed bias filter:                      489  (0.0272742); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.56u 0.32s 00:00:00.88 Elapsed: 00:00:00.46
# Mc/sec: 1692.06
//
Query:       PHY93_08120|PHY93_08120  [L=163]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    0.00093   19.0   0.1     0.0022   17.8   0.1    1.7  1  SH3_13          ATP-dependent RecD-like DNA helicase SH3 doma
     0.0073   15.4   0.2     0.0084   15.2   0.2    1.2  1  Lipoprotein_18  NlpB/DapX lipoprotein


Domain annotation for each model (and alignments):
>> SH3_13  ATP-dependent RecD-like DNA helicase SH3 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.1   2.5e-07    0.0022      30      54 ..      39      63 ..      17      73 .. 0.83

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 2.5e-07
                   SH3_13 30 DkVmqlkNnydkgvfNGDiGiikei 54
                               Vm + N+yd++v+N + G+ik+ 
  PHY93_08120|PHY93_08120 39 QEVMKITNKYDREVYNQEAGVIKTR 63
                             57********************975 PP

>> Lipoprotein_18  NlpB/DapX lipoprotein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.2   9.4e-07    0.0084      79     142 ..      34      96 ..       5     136 .. 0.74

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 9.4e-07
                              .TSHHHHHHHHHHHTT--EEEEETTTTEEEEEEEE..........EE-TTGSSEEEEEEE..EEEEE CS
           Lipoprotein_18  79 kdelweqvasvlaeknipiakeddaqgvleTdwvenqevves...wsraDedvelrqrYrfrievkp 142
                               +++w++v ++ ++ + ++ +++  +gv++T w++n+ +++    + + D+ +  + ++++ ++v +
  PHY93_08120|PHY93_08120  34 YNKVWQEVMKITNKYDREVYNQE--AGVIKTRWMDNTLELNFadsFGSNDAVK--SAQFKLILNVVK 96 
                              579*********99999888877..569*******887766566677777777..455665555544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (163 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       894  (0.0498633); expected 358.6 (0.02)
Passed bias filter:                      370  (0.020637); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.28s 00:00:00.80 Elapsed: 00:00:00.46
# Mc/sec: 1073.37
//
Query:       PHY93_08125|PHY93_08125  [L=328]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.4e-17   62.5   0.0    5.1e-17   61.9   0.0    1.2  1  SIS       SIS domain
    3.7e-15   56.1   0.3    3.2e-06   27.5   0.1    2.7  3  CBS       CBS domain
    0.00037   20.5   0.1     0.0025   17.9   0.1    2.1  1  SIS_2     SIS domain
  ------ inclusion threshold ------
      0.038   14.1   0.0      0.085   13.0   0.0    1.5  1  KKLCAg1   Kita-kyushu lung cancer antigen 1


Domain annotation for each model (and alignments):
>> SIS  SIS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.9   0.0   1.1e-20   5.1e-17       4     130 ..      46     174 ..      43     175 .. 0.96

  Alignments for each domain:
  == domain 1  score: 61.9 bits;  conditional E-value: 1.1e-20
                              TSSEEEEEESHHHHHHHHHHHHHHHHHHTSEEEEEEHHHHHHTGGGG-STTCEEEEEESSSHHHHHHHHHHHHHHTTSEEEEEESS CS
                      SIS   4 kakriyvlGaGtsyaiakelalkleeiggivvevedaselkhgvlalideddlvilisfsgetkdlvaaaelakergakiiaITds 89 
                               +  +++ G G+s+ +a++ a+++ ++g + +  +++++l+ + l+ +++ d ++l+s sg t +++++++ +  ++ + i++ + 
  PHY93_08125|PHY93_08125  46 TESALIFCGVGKSGIVAQKCAATFTSLGLPSFYLHPTEALHGD-LGRVRKSDAIVLLSKSGTTEEVLKLLPFLITKKENRIGLIGA 130
                              566789*********************************9999.****************************************** PP

                              TTSHHHHHSSEEEEEEEECHC...SSSHCHHHHHHHHHHHHHHH CS
                      SIS  90 kgsplareadlalyinaepet...lvastksltaqlaaldalav 130
                              ++sp+   + ++++  +e+e+   ++a+t s t+ la++da+av
  PHY93_08125|PHY93_08125 131 ASSPIGDLCGIVFDCSVEKEAcinNQAPTTSSTVALAMGDAMAV 174
                              *****************************************987 PP

>> CBS  CBS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0       2.7   1.2e+04      10      25 ..      99     114 ..      95     125 .. 0.74
   2 !   27.5   0.1   7.1e-10   3.2e-06       1      53 [.     204     257 ..     204     259 .. 0.90
   3 !   25.8   0.0   2.4e-09   1.1e-05       1      53 [.     270     323 ..     270     325 .. 0.89

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 2.7
                              EEEETTSBHHHHHHHH CS
                      CBS  10 vtvppdttleealelm 25 
                              v ++ + t ee+l+l+
  PHY93_08125|PHY93_08125  99 VLLSKSGTTEEVLKLL 114
                              5566777788888876 PP

  == domain 2  score: 27.5 bits;  conditional E-value: 7.1e-10
                              HHHHSBS..SCEEEETTSBHHHHHHHHHHHTSSEEEEEETTTBEEEEEEHHHHHH CS
                      CBS   1 Vgdimtr..dvvtvppdttleealelmrekgvsrlPVVdedgklvGivtlrDllr 53 
                              V+d+m +    ++++pd++l e++ lm+++ vs+  +V +dgk++Giv + D+ r
  PHY93_08125|PHY93_08125 204 VRDLMIKasSCPVLTPDQNLQEVILLMTKYPVSGCAIV-DDGKFLGIVVEGDIRR 257
                              788887777889***************888899999**.6*************87 PP

  == domain 3  score: 25.8 bits;  conditional E-value: 2.4e-09
                              HHHHSBSSCEEEETTSBHHHHHHHHHHHT..SSEE.EEEETTTBEEEEEEHHHHHH CS
                      CBS   1 Vgdimtrdvvtvppdttleealelmrekg..vsrl.PVVdedgklvGivtlrDllr 53 
                              V+dim+  +  + pd    ealelm++k   + +l PV+ ed+k++G + l+ ll+
  PHY93_08125|PHY93_08125 270 VRDIMNNHPTIIGPDHLAFEALELMENKTrsL-QLlPVI-EDEKFLGFIRLHELLK 323
                              89***********************8666555.777***.7888*********997 PP

>> SIS_2  SIS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.1   5.5e-07    0.0025      14      85 ..      26      98 ..      15     116 .. 0.86

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 5.5e-07
                             HHHSHHHHHHHHHHHHHHHHTT--EEEEESGGGHHHHHHTSSSTT-BTTEEEE--GGGSSSSST...THHHHH CS
                    SIS_2 14 vetqaeaiekaaeliadslenggkvlvfGsGhSaalaeelaaragglaeferialpalalhtda.eatkssal 85
                             +++ ++++ek+a ++ + l+++  ++ +G G S + a++ aa + +l     +++p  alh d   ++ks a+
  PHY93_08125|PHY93_08125 26 EKSGSAQVEKLAIIFQELLNTESALIFCGVGKSGIVAQKCAATFTSLGLPSFYLHPTEALHGDLgRVRKSDAI 98
                             5568899***************************************999999999999999996566666654 PP

>> KKLCAg1  Kita-kyushu lung cancer antigen 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   1.9e-05     0.085      28      77 ..     259     308 ..     252     312 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 1.9e-05
                  KKLCAg1  28 ntdknLsvnslsrdiLinfPhsiamqkriLvnLriveyklaeLehfLvtk 77 
                               t +nL ++ l rdi++n P  i         L+++e+k   L  + v++
  PHY93_08125|PHY93_08125 259 FTRENLGLKTLVRDIMNNHPTIIGPDHLAFEALELMENKTRSLQLLPVIE 308
                              5899**********************99999*******999988877766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (328 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       425  (0.0237046); expected 358.6 (0.02)
Passed bias filter:                      395  (0.0220313); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.57u 0.31s 00:00:00.87 Elapsed: 00:00:00.45
# Mc/sec: 2170.83
//
Query:       PHY93_08130|PHY93_08130  [L=500]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.5e-22   79.5   0.0    3.2e-22   79.1   0.0    1.2  1  CN_hydrolase  Carbon-nitrogen hydrolase


Domain annotation for each model (and alignments):
>> CN_hydrolase  Carbon-nitrogen hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.1   0.0   1.8e-26   3.2e-22       3     261 .]     205     477 ..     203     477 .. 0.83

  Alignments for each domain:
  == domain 1  score: 79.1 bits;  conditional E-value: 1.8e-26
                              EEEEBB-...........STTHHHHHHHHHHHHHHHHHHTTESEEEEETTTTTBS.....SSHHHHHHHHBHSSSHHHHHHHHHHH CS
             CN_hydrolase   3 AvvQlpq...........kaadleanlqklleliaeAarkgadLivlPElfitgy.....keeahfleaAeaglgetlallaalar 72 
                               vvQ+++              +l   +++  el++++  ++ dLiv+PE++ +              +     + ++   l+++ +
  PHY93_08130|PHY93_08130 205 RVVQPNIgnflkidseqgGLNSLRSVFDNYYELSTAPSLRPLDLIVWPETSFPTLiaseiM------KK--NNDLQIPGTLSQIIQ 282
                              5666666666655555554556666777777788888888************988444331......21..334456667899999 PP

                              HHTEEEEEEEEEEEC...CTTEEEEEEEEEEEETTSEEEEEEE-SS--E.ECTTSCECCGHHTSCS.........-SSS-EEEETT CS
             CN_hydrolase  73 kngiavviglierel...tngklqayntavlldldgklvgkyrKlhLfp.geprpptaverelfep.........gdgipvfdtpv 145
                              k +  + ig    +    t++   +yn+a+l+  d kl   yrK+hL+p ge  p + +++ l +          g+ +  f+t+ 
  PHY93_08130|PHY93_08130 283 KTQAELFIGGYDLKPsigTGDYQSQYNSAFLFGTDMKLKEVYRKIHLIPfGEGLPFGPFNKILSQYitnvsyfaeGENFSLFKTKN 368
                              9999999998888778**999999************************888877777775555555777999986777******** PP

                              E.EEEEEEGGGGGSHHHHHH.HHHTT-..SEEEEBH.GCCCTCHHHHHHHHHHHHHHHHHHTSEEEEEEBEEEHCETTEEEE--EE CS
             CN_hydrolase 146 g.kiGaaiCyeigfpellra.lalkga..eilvnlserapvpksmgppqwellgraralengcfviaanqvggyeqlilwpvghSa 227
                              g  +   iCye  f  ++r  l+++ +  ++l+nl++++++++   p q++ l++ rale  ++vi+++++g+           + 
  PHY93_08130|PHY93_08130 369 GiPFISVICYEVLFSDFVREfLNKQATtpQFLINLTNDSWYGDTAEPLQHLFLAKWRALEFNIPVIRSTNTGI-----------TT 443
                              *977888************977777665579999***************************************...........** PP

                              EE-TTS-EEEECCSSSTEEEEEEEEHHHHHHHHH CS
             CN_hydrolase 228 iidpdGrilaglgeeeegvliaeidladvratrr 261
                              ii pd +   +l+ +e++vl +e++l++ ++t++
  PHY93_08130|PHY93_08130 444 IIMPDASESPRLTYQEKKVLDVELKLNTRESTIY 477
                              ***************************9999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (500 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       514  (0.0286686); expected 358.6 (0.02)
Passed bias filter:                      324  (0.0180713); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.61u 0.34s 00:00:00.95 Elapsed: 00:00:00.47
# Mc/sec: 3215.12
//
Query:       PHY93_08135|PHY93_08135  [L=173]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (173 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       440  (0.0245412); expected 358.6 (0.02)
Passed bias filter:                      301  (0.0167884); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 1147.45
//
Query:       PHY93_08140|PHY93_08140  [L=376]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.1e-42  145.4   1.1    4.6e-42  144.3   1.1    1.5  1  Peptidase_S8  Subtilase family


Domain annotation for each model (and alignments):
>> Peptidase_S8  Subtilase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  144.3   1.1   2.6e-46   4.6e-42       2     286 ..      80     323 ..      79     332 .. 0.85

  Alignments for each domain:
  == domain 1  score: 144.3 bits;  conditional E-value: 2.6e-46
                              TT-EEEEECS-B-TT-TTTGGGEEE..EEEE---TTSG.GGEETT-SS-TT-SC-SSS.......HHHHHHHHHH-B..SSSSSB- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8   2 kgvlvavlDtGvdpshpdlsvttdgerklvdvideegagfngadsettstnwarddngnsie...HGthvAGiaaanapeegekng 84 
                              ++++vav+DtG+d +hp+l++++  e+  vd ++              +++++++++g  ++   HGthv Gi+          + 
  PHY93_08140|PHY93_08140  80 REIVVAVVDTGIDREHPFLENNIFVENGKVDPSNF-----------GVDFSKDKKGKGTPTDnhgHGTHVSGII----------KS 144
                              789*****************886666665544444...........3333333333333333333********8..........56 PP

                              SSTTSEEEEEE-SSTTSB-HH..HHHHHHHHHHHHCT-SEEEE-EESCETTCHHCHHHHHHHHHHHH.CCT-EEEEE--SS-T-HH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8  85 vapgakilsvkvldtsggsmetgteliraieeaaedkvdvinmslgestslpktgrsiealainravnkkgvlvviSaGNngktgs 170
                              + p++kil++k ++++ +        ++a+++a+ ++vdvin+s g++   ++  r     ++++a+ +kg+lvv++aGN++   s
  PHY93_08140|PHY93_08140 145 IYPDVKILALKYYNPNASGVDNLNSTVEALRYAVDHNVDVINYSGGGPEAASEELR-----VLKEAE-RKGILVVAAAGNEE---S 221
                              7************9999887666***********************7766666666.....899***.9*************...5 PP

                              EEE-TTCEECTTTST..TCEEEEEESTTSSB-TT--B-TT.......-EEEE-S-CCCCCCCCCHHHTTTHHEEEE-SHHHCHHHH CS
                              xxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8 171 slqagspvgtpstsk..nvitvgayttegkiapfSsrGpssdgklkpdivapGgnivstwsrqsnnsaglssyqsmsGTSmAsPna 254
                              ++ + ++ ++p+++   n+itv ay+++ ki   S++G +s     +di apG  i s+ ++          + + +GTS+A++++
  PHY93_08140|PHY93_08140 222 NIDDKKKAYFPASYGlkNIITVTAYDEDLKILNSSNYGHAS-----VDIFAPGYRIKSSLQNGR--------TGYLTGTSQATAFV 294
                              568*********99666**********************99.....7********999999999........999*********** PP

                              HHHHHHHHHHHTT--HHHHHHHHHCCS-EE.. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8 255 agaaAlllsalpkltpetvraallntAqdlgk 286
                              +g+aAl++ ++p+l+ e++++++  +A+   k
  PHY93_08140|PHY93_08140 295 TGVAALIKAEFPQLSTEKIKEIIKASAK---K 323
                              **************************94...3 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (376 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       626  (0.0349155); expected 358.6 (0.02)
Passed bias filter:                      499  (0.027832); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.58u 0.32s 00:00:00.89 Elapsed: 00:00:00.45
# Mc/sec: 2536.61
//
Query:       PHY93_16335|PHY93_16335  [L=186]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (186 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       504  (0.0281109); expected 358.6 (0.02)
Passed bias filter:                      299  (0.0166769); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.27s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 1234.95
//
Query:       PHY93_16500|PHY93_16500  [L=332]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.027   14.2   0.6      0.054   13.2   0.1    1.7  2  MethyltransfD12  D12 class N6 adenine-specific DNA methyltran
       0.13   12.7   0.0       0.38   11.3   0.0    1.7  2  Reprolysin_3     Metallo-peptidase family M12B Reprolysin-lik


Domain annotation for each model (and alignments):
>> MethyltransfD12  D12 class N6 adenine-specific DNA methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.1      0.25   2.2e+03      49      74 ..     139     163 ..     132     173 .. 0.58
   2 ?   13.2   0.1     6e-06     0.054      51     143 ..     182     284 ..     181     311 .. 0.85

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.25
                              ES-HHHHHHHHHHCCHSHHHHHHHHH CS
          MethyltransfD12  49 Dinedlinlykaliknnveelikele 74 
                              D+n++ +   k ++++ ++++ +e+ 
  PHY93_16500|PHY93_16500 139 DYNQETYRTIK-ALEELKQDVQNEIS 163
                              55555555555.44444555555444 PP

  == domain 2  score: 13.2 bits;  conditional E-value: 6e-06
                              -HHHHHHHHHHCCHSHHHHHHHHH.T..........CTTGGC.TSHHHHHHHHHHHH...HHH-HHHHHHHHHHHHCCBGGG---B CS
          MethyltransfD12  51 nedlinlykaliknnveelikelekl..........lekeelenereyfyelreefnkkidaireaeeaidflylnrllfsglerv 126
                              n dl+nly+a++ n+  + ++e+++           ++k++   ++++f + ++++n ++++i e+    + l  ++ + ++l r+
  PHY93_16500|PHY93_16500 182 NVDLMNLYQAMLGNELNQALEEMMANscqgikvkipDFKTQS-IDKPFFSFFNQSKNDYFKKIGEVLADGRPLAISYDVGKVLRRS 266
                              889***********7777777777667777777777888776.89***************************************** PP

                              -TTS-B---B-S-SS-.. CS
          MethyltransfD12 127 nkkgnfnvpygaykkp.k 143
                              ++ g  +++ +a++ + +
  PHY93_16500|PHY93_16500 267 DSGGGHASVIMARQWRnN 284
                              ********9999987733 PP

>> Reprolysin_3  Metallo-peptidase family M12B Reprolysin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0      0.79   7.1e+03      38      75 ..      27      63 ..       8      89 .. 0.61
   2 ?   11.3   0.0   4.3e-05      0.38       9      90 ..     195     284 ..     189     312 .. 0.78

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 0.79
             Reprolysin_3 38 ytkkdatealdelaevtaeaergqagyDlvhlftarde 75
                              tk+d +++  +l++++++  r+q+++   ++f a d 
  PHY93_16500|PHY93_16500 27 CTKQDVRDKNPQLKDFFSTP-RDQDSIGWCYAFAAADL 63
                             44444466666666666665.56666655555555554 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 4.3e-05
             Reprolysin_3   9 nranqiyerdlg.....irlqlv..aiiitdkasdpytkkdatealdelaevtaeaergqagyDlvhlftardesgvgGlAyv... 84 
                              n+ nq++e+ +      i++++   +++ +dk+  +++++++++ +++  ev a       +yD++ +++++d+  +gG A v   
  PHY93_16500|PHY93_16500 195 NELNQALEEMMAnscqgIKVKIPdfKTQSIDKPFFSFFNQSKNDYFKKIGEVLADGRPLAISYDVGKVLRRSDS--GGGHASVima 278
                              66788888444467788999999888888888889999999***********999767788**********986..99*9999666 PP

             Reprolysin_3  85 ....gsvcns 90 
                                  +    +
  PHY93_16500|PHY93_16500 279 rqwrN----N 284
                              33332....2 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (332 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       821  (0.0457917); expected 358.6 (0.02)
Passed bias filter:                      617  (0.0344135); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.59u 0.36s 00:00:00.95 Elapsed: 00:00:00.47
# Mc/sec: 2138.41
//
Query:       PHY93_08145|PHY93_08145  [L=120]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (120 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       350  (0.0195214); expected 358.6 (0.02)
Passed bias filter:                      330  (0.0184059); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.30s 00:00:00.75 Elapsed: 00:00:00.43
# Mc/sec: 831.53
//
Query:       PHY93_08150|PHY93_08150  [L=121]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      5e-10   39.2   0.5    8.5e-10   38.4   0.5    1.4  1  zf-dskA_traR  Prokaryotic dksA/traR C4-type zinc finger
  ------ inclusion threshold ------
      0.091   12.3   0.0        0.1   12.1   0.0    1.2  1  CPSF73-100_C  Pre-mRNA 3'-end-processing endonuclease polyade


Domain annotation for each model (and alignments):
>> zf-dskA_traR  Prokaryotic dksA/traR C4-type zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.4   0.5   9.5e-14   8.5e-10       2      35 ..      80     113 ..      79     114 .. 0.89

  Alignments for each domain:
  == domain 1  score: 38.4 bits;  conditional E-value: 9.5e-14
             zf-dskA_traR   2 iygsCeeCGEpIpeaRlralPgarlCveCqekae 35 
                               yg+CeeC EpI+ +Rl+ +P+++lC+  +e+ e
  PHY93_08150|PHY93_08150  80 AYGHCEECDEPIGVKRLENQPWTTLCITHAEELE 113
                              69*************************8777666 PP

>> CPSF73-100_C  Pre-mRNA 3'-end-processing endonuclease polyadenylation factor C-term
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   1.1e-05       0.1      17      49 ..      34      67 ..      20     100 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 1.1e-05
             CPSF73-100_C 17 lapeDLreytgLstttitqkqrlpls.asiellk 49
                             ++p+DL + ++L+t++i q+ +++++  ++  lk
  PHY93_08150|PHY93_08150 34 VSPDDLADEADLATSVINQQVTFNMRqRELGKLK 67
                             79********************999645554444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (121 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       572  (0.0319036); expected 358.6 (0.02)
Passed bias filter:                      415  (0.0231469); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.30s 00:00:00.76 Elapsed: 00:00:00.44
# Mc/sec: 828.52
//
Query:       PHY93_08155|PHY93_08155  [L=96]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00015   22.0   0.0    0.00042   20.5   0.0    1.8  1  LRV       Leucine rich repeat variant
  ------ inclusion threshold ------
       0.02   14.6   0.1      0.054   13.2   0.1    1.8  1  RTP1_C2   Required for nuclear transport of RNA pol II C-term


Domain annotation for each model (and alignments):
>> LRV  Leucine rich repeat variant
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.5   0.0   4.7e-08   0.00042       2      26 .]      55      79 ..      54      79 .. 0.95

  Alignments for each domain:
  == domain 1  score: 20.5 bits;  conditional E-value: 4.7e-08
                      LRV  2 eVRaaVArrPdlPpeaLerLahDPd 26
                             +VR  VA +P +P+ +L rL++D d
  PHY93_08155|PHY93_08155 55 TVRHEVAKNPLTPVQTLKRLSDDKD 79
                             8**********************87 PP

>> RTP1_C2  Required for nuclear transport of RNA pol II C-terminus 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.1   6.1e-06     0.054      14      34 .]      75      95 ..      73      96 .] 0.91

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 6.1e-06
                  RTP1_C2 14 dtDtDdlVReHArdvLEeLea 34
                             + D+D lVR +Ar  L + e+
  PHY93_08155|PHY93_08155 75 SDDKDMLVRDYARRTLKSVEE 95
                             57***************9985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (96 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       506  (0.0282224); expected 358.6 (0.02)
Passed bias filter:                      369  (0.0205812); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.29s 00:00:00.73 Elapsed: 00:00:00.43
# Mc/sec: 677.75
//
Query:       PHY93_08160|PHY93_08160  [L=342]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.5e-80  269.5   0.2      4e-80  269.3   0.2    1.0  1  YceG      YceG-like family
  ------ inclusion threshold ------
      0.097   12.5   0.0       0.39   10.6   0.0    2.0  2  Cbl_N3    CBL proto-oncogene N-terminus, SH2-like domain


Domain annotation for each model (and alignments):
>> YceG  YceG-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  269.3   0.2   4.5e-84     4e-80       2     274 ..      41     323 ..      40     324 .. 0.90

  Alignments for each domain:
  == domain 1  score: 269.3 bits;  conditional E-value: 4.5e-84
                              EE-TT--HHHHHHHHHHTTSSS-HHHHHHHHHHHT.------EEEEE-TT--HHHHHHHHHCTSBS..SEEE-TT--HHHHHHHHH CS
                     YceG   2 tipegsslseiaekLeeagviksaeafkllaklkk.kkalkaGeyelkkgmsleeilekLtkgkqekrkvtipegltleqiaekle 86 
                               i +++s+s+i ++L ++++i+sa++f+ + +lk+  +++++G+y ++++ +l ++++ + ++k+++  +t+peg+++++i + le
  PHY93_08160|PHY93_08160  41 VIAPNESFSSINTRLTKEHLISSARLFHRYSQLKGvLNKFRTGHYIIRHNSNLLDVFNIFINEKSQVVLFTVPEGKNMYEIGRMLE 126
                              7999*****************************998889*********************999663347***************** PP

                              HSTTS-HHHHH.S-GGGG-TT-.....STTTT-S-SCEE--SSS--HHHHHHHHHHHHHHHTHHH....HCT--HHHHHHHHHHHH CS
                     YceG  87 kkaelskeell.kaskeeklkv.....ekleGylfPdtYefkkgtsaeeilkrmlaefekvlkraekakasgltpyevltlASive 166
                              +++ ++ +++   a+++++l+      +++eGyl+P++Y+f ++  a++++k+m+++f+k+++  +  ++s +tp++vl+lAS+ve
  PHY93_08160|PHY93_08160 127 ASSITNYKDFIqLARDKKFLEElgidaDSVEGYLYPESYDFVPNLPARTVIKTMVKQFQKKIATVD-FSNSRMTPRQVLILASMVE 211
                              776666666665333333333134444888******************************773333.688999************* PP

                              HH--SSS-HHHHHHHHHHHHHTT-----HHHHHHH.T...-S---CCHHC---TT-TTTSSSS-SS-SS---HHHHHHHHS----- CS
                     YceG 167 kEaakaeerpkvAsVflnRLkkgmrLqsDpTviYg.g...kgrltkkdletdspYNTYkikGLPpgPIanPgkaaieAalnpaktd 248
                              kE+++++erp +A+Vf+nRLk +mrLqsDpT+iYg     +g+l++kdl t + YNTY+i+ LP gPI+nPg ++i+A+lnp+ ++
  PHY93_08160|PHY93_08160 212 KETGDKKERPIIAGVFYNRLKLKMRLQSDPTTIYGkFevyNGNLSRKDLLTPTAYNTYTIPALPVGPISNPGIESIKAVLNPTLHK 297
                              ***********************************63799999****************************************99* PP

                              --EEEE-...-EEEESSHHHHHCT-X CS
                     YceG 249 ylYFvakkdgthaFaktleeHnknva 274
                              ylYFv+++dg+h F++++e+H+++v 
  PHY93_08160|PHY93_08160 298 YLYFVSQNDGSHIFSESYEKHEEAVT 323
                              *****9999**************996 PP

>> Cbl_N3  CBL proto-oncogene N-terminus, SH2-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   4.4e-05      0.39       8      63 ..      67     120 ..      63     135 .. 0.89
   2 ?   -2.0   0.0      0.37   3.3e+03      53      81 ..     138     166 ..     128     171 .. 0.60

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 4.4e-05
                              E--HHHHHHHHHTTTTSTTEEEEEE-TTSTT-EEEEEE-TTS-EEEE--TT--HHH CS
                   Cbl_N3   8 fltYdevkarLekfkkkpGsyvfrlsctrlGqWaigyvaedkkilqtipqnkslvq 63 
                              f  Y ++k +L+kf++  G y+ r  +  l  + i   ++++ +l t+p+ k +++
  PHY93_08160|PHY93_08160  67 FHRYSQLKGVLNKFRT--GHYIIRHNSNLLDVFNIFINEKSQVVLFTVPEGKNMYE 120
                              788***********98..*****************76677777889***9999875 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.37
                              EE--TT--HHHHHHHHHHTTS--EETT-S CS
                   Cbl_N3  53 qtipqnkslvqalidGereglylyPdGke 81 
                              q   ++k l +  id    + ylyP+  +
  PHY93_08160|PHY93_08160 138 QLARDKKFLEELGIDADSVEGYLYPESYD 166
                              44444444444446777777899998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (342 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       461  (0.0257125); expected 358.6 (0.02)
Passed bias filter:                      352  (0.019633); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.59u 0.25s 00:00:00.84 Elapsed: 00:00:00.46
# Mc/sec: 2214.19
//
Query:       PHY93_08165|PHY93_08165  [L=199]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
      0.049   13.9   0.0       0.08   13.2   0.0    1.3  1  Acetyltransf_1  Acetyltransferase (GNAT) family


Domain annotation for each model (and alignments):
>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   4.5e-06      0.08      25     104 ..      62     154 ..      32     160 .. 0.72

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 4.5e-06
                              HHHHHSTTCEEEEEEETTEEEEEEEEEEEET.............TSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHTTESEE CS
           Acetyltransf_1  25 eesfsleaegllvaeedgeliGfisllkipd.............ekggvayieslaVspeyrgkGlGsaLlealeerareegikki 97 
                               ++   +   +++a+ dge+ +++s+ +  d              ++  a i  + V+p++rg+    + l+al ++  e+g ++i
  PHY93_08165|PHY93_08165  62 IDRVKSNFHVGVIAYLDGEPCAWVSVGPLIDffwawkrvaqigeDAKSIAGIMCFTVAPKFRGQKMQVKVLTALKKYGSEKGWTAI 147
                              22222244466679999999999966666666666666667777899999999***************************999999 PP

                              EEEEETT CS
           Acetyltransf_1  98 vlaveed 104
                              +++ ++d
  PHY93_08165|PHY93_08165 148 EAYPFSD 154
                              9876555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (199 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       483  (0.0269396); expected 358.6 (0.02)
Passed bias filter:                      411  (0.0229238); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.32s 00:00:00.79 Elapsed: 00:00:00.44
# Mc/sec: 1373.84
//
Query:       PHY93_08170|PHY93_08170  [L=150]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.7e-05   24.8   3.1      2e-05   24.6   3.1    1.1  1  Apolipoprotein  Apolipoprotein A1/A4/E domain
     0.0021   18.2   0.6      0.013   15.7   0.6    2.1  1  XhlA            Haemolysin XhlA
     0.0031   17.7   5.2     0.0031   17.7   5.2    2.0  2  DUF2951         Protein of unknown function (DUF2951)
     0.0048   16.2   0.9      0.006   15.9   0.9    1.1  1  TMPIT           TMPIT-like protein
     0.0055   16.2  10.7     0.0078   15.7  10.7    1.3  1  DUF3552         Domain of unknown function (DUF3552)
     0.0074   16.3   5.5      0.013   15.6   2.7    2.1  2  Phasin          Poly(hydroxyalcanoate) granule associated pro
     0.0081   16.2   2.4      0.011   15.8   0.4    2.0  2  TolA_bind_tri   TolA binding protein trimerisation
      0.009   16.7   1.3        1.2    9.9   0.2    2.2  2  PMC2NT          PMC2NT (NUC016) domain
     0.0092   16.0   0.0      0.012   15.6   0.0    1.3  1  Baculo_PEP_C    Baculovirus polyhedron envelope protein, PEP,
     0.0096   15.7   4.4          1    9.2   0.4    2.3  2  CdvA            CdvA-like coiled-coil domain
  ------ inclusion threshold ------
      0.019   13.1  13.0        0.5    8.5   6.7    2.1  2  EzrA            Septation ring formation regulator, EzrA
      0.028   14.0   1.5      0.031   13.8   1.5    1.1  1  Exonuc_VII_L    Exonuclease VII, large subunit
      0.035   14.0   0.4        3.9    7.4   0.1    2.7  2  DUF4041         Domain of unknown function (DUF4041)
      0.036   13.6   0.8      0.058   12.9   0.8    1.3  1  Allexi_40kDa    Allexivirus 40kDa protein
       0.05   11.1   6.7      0.057   10.9   6.7    1.0  1  DUF3584         Protein of unknown function (DUF3584)
      0.054   12.8  11.4      0.092   12.1  11.4    1.4  1  GAS             Growth-arrest specific micro-tubule binding
      0.068   12.7  11.9        6.2    6.5   0.2    4.4  4  Fur_reg_FbpB    Fur-regulated basic protein B
       0.14   12.2   2.0        3.3    7.8   0.5    2.2  2  DUF1664         Protein of unknown function (DUF1664)
       0.16   11.2   0.8       0.19   11.0   0.8    1.1  1  ISG65-75        Invariant surface glycoprotein
       0.19   11.5   8.4       0.28   11.0   7.9    1.5  1  Mt_ATP-synt_D   ATP synthase D chain, mitochondrial (ATP5H)
       0.21   11.8  12.7       0.13   12.4   7.8    2.0  1  Jnk-SapK_ap_N   JNK_SAPK-associated protein-1
       0.21   12.1   4.0    2.6e+02    2.8   0.1    4.8  4  SRR             Seven Residue Repeat
       0.25   11.7   4.0        2.3    8.6   3.7    2.5  2  CLZ             C-terminal leucine zipper domain of cyclic nu
       0.34   10.4  10.8       0.13   11.8   6.8    2.0  1  DUF2884         Protein of unknown function (DUF2884)
       0.37   11.2   8.1       0.12   12.7   4.9    1.7  2  YlqD            YlqD protein
       0.38   10.1   5.8        2.4    7.5   1.3    2.1  2  FliD_C          Flagellar hook-associated protein 2 C-terminu
       0.39    9.3  13.5       0.47    9.0  13.5    1.0  1  DHC_N1          Dynein heavy chain, N-terminal region 1
       0.56   10.5   8.7        0.8   10.0   8.4    1.3  1  OmpH            Outer membrane protein (OmpH-like)
       0.75    9.4   5.4       0.91    9.1   5.4    1.1  1  Phage_GPO       Phage capsid scaffolding protein (GPO) serine
        1.1    9.2  11.1        1.7    8.6   8.6    1.9  2  Sds3            Sds3-like
        1.5    8.8   4.6       0.52   10.2   1.7    1.8  2  Remorin_C       Remorin, C-terminal region
        1.6    8.3   9.2        2.1    7.9   9.2    1.2  1  DUF4795         Domain of unknown function (DUF4795)
          2    8.8   8.0        2.1    8.7   3.8    2.6  2  KxDL            Uncharacterized conserved protein
        2.5    8.7   4.2        4.9    7.8   4.2    1.7  1  YtxH            YtxH-like protein
        8.4    6.7  11.7      4e+03   -1.9  11.7    3.1  1  DUF1283         Protein of unknown function (DUF1283)


Domain annotation for each model (and alignments):
>> Apolipoprotein  Apolipoprotein A1/A4/E domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.6   3.1   3.8e-08     2e-05     120     188 ..      49     127 ..      15     129 .. 0.63

  Alignments for each domain:
  == domain 1  score: 24.6 bits;  conditional E-value: 3.8e-08
                              CHHHHHHH..........HHHHHHHHHHHH-----..-----SSSHHHHHHHTS-TTSHHHHHS--XXXXXXXXXXXXX CS
           Apolipoprotein 120 apyveelr..........qklaerleelkeslaphaeeveerlssrveelrekleeqaeelrerleanleelkaqleal 188
                              +   +e+r          + ++ r e   e+++++ e++e+++++r e+++ek+++  e+++e+ ++  e++ ++++++
  PHY93_08170|PHY93_08170  49 HHMDQEFRgefkkiehnfELIETRFEKRFEQVDQRFEQLETKFDKRFEQVEEKFDKRFEQVEEKFDKRFEQVDKKFDRM 127
                              5555555555555555445566666666666666666666777777777777777777777777776666666666665 PP

>> XhlA  Haemolysin XhlA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.6   2.5e-05     0.013       4      62 ..      82     144 ..      61     149 .. 0.79

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 2.5e-05
                     XhlA   4 erlerietkldnlee......rvdkleekaaeaeekiknleedlkklesnqkWlirtiiGalisa 62 
                              +r e++etk d+  e      + ++ e+ +++++++ +++ ++ ++++  + W+ +++++ lis+
  PHY93_08170|PHY93_08170  82 QRFEQLETKFDKRFEqveekfD-KRFEQVEEKFDKRFEQVDKKFDRMTTVMMWQGGILAT-LISG 144
                              5556666666554441222332.3689*******************************99.6665 PP

>> DUF2951  Protein of unknown function (DUF2951)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.1      0.93   4.8e+02      15      48 ..      22      55 ..      11      58 .. 0.79
   2 !   17.7   5.2   6.1e-06    0.0031       2      88 ..      57     146 ..      56     150 .] 0.78

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 0.93
                  DUF2951 15 rleendktmlekldeikdslktqekvyikldktl 48
                              l + +k  +++ d + +slk+q + + ++d+++
  PHY93_08170|PHY93_08170 22 ILGKVEKEKISTEDMLILSLKAQTNHFHHMDQEF 55
                             5566678888899999999999999999999877 PP

  == domain 2  score: 17.7 bits;  conditional E-value: 6.1e-06
                  DUF2951   2 gftkkheqewrl..rrleendktmlekldeikds.lktqekvyikldktleelrkekeideknkkkndknirdikmwvlglvgtil 84 
                              g +kk e+++ l  +r+e+    + +++++++    k  e+v++k+dk +e+++ + ++   + +k+   +  + mw  g++ t++
  PHY93_08170|PHY93_08170  57 GEFKKIEHNFELieTRFEKRFEQVDQRFEQLETKfDKRFEQVEEKFDKRFEQVEEKFDKRFEQVDKKFDRMTTVMMWQGGILATLI 142
                              568999999887567999999999999999998725788************998765555444445555678899*******9999 PP

                  DUF2951  85 sslv 88 
                              s + 
  PHY93_08170|PHY93_08170 143 SGIY 146
                              8765 PP

>> TMPIT  TMPIT-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.9   1.2e-05     0.006       5     100 ..      53     150 .]      46     150 .] 0.86

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 1.2e-05
                    TMPIT   5 eelekefkeleetakeykqkleelsklqskcskei.kkqkkrlkelksslkklkksvkeeeeeeveelkeelkerkkvlkevesll 89 
                              +e++ efk++e++++ ++++ e+ +++ ++  +++ +k  kr ++++++++k  ++v+e+ ++++e+++++++++++v+     +l
  PHY93_08170|PHY93_08170  53 QEFRGEFKKIEHNFELIETRFEKRFEQVDQRFEQLeTKFDKRFEQVEEKFDKRFEQVEEKFDKRFEQVDKKFDRMTTVMMWQGGIL 138
                              578899**************999998888766665156799*********99999999999*************999999888888 PP

                    TMPIT  90 pkk.nglylklv 100
                                  +g+y kl+
  PHY93_08170|PHY93_08170 139 ATLiSGIYFKLF 150
                              777788888875 PP

>> DUF3552  Domain of unknown function (DUF3552)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7  10.7   1.5e-05    0.0078      60     140 ..      46     127 ..      16     132 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 1.5e-05
                  DUF3552  60 eeihklreelekelkerrnelqrlekRllqkeetLdrkeeslekk.eesleekekelkqkeqsleekeeeleelveeqrqeL 140
                              ++ h++ +e+  e+k+ +++++ +e+R +++ e++d++ e+le k ++++e+ e++ +++ +++eek ++  e v ++ +++
  PHY93_08170|PHY93_08170  46 NHFHHMDQEFRGEFKKIEHNFELIETRFEKRFEQVDQRFEQLETKfDKRFEQVEEKFDKRFEQVEEKFDKRFEQVDKKFDRM 127
                              45789999***********************************987999*******99999999999887777777666665 PP

>> Phasin  Poly(hydroxyalcanoate) granule associated protein (phasin)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   0.3      0.11        59      55      88 ..      51      84 ..      14      88 .. 0.50
   2 !   15.6   2.7   2.4e-05     0.013      51      95 ..      76     120 ..      69     137 .. 0.72

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.11
                   Phasin 55 aeekleevresvkskveevkekaeeqwdklekaf 88
                             ++++ +   +++++++e ++++ e++ +++++ f
  PHY93_08170|PHY93_08170 51 MDQEFRGEFKKIEHNFELIETRFEKRFEQVDQRF 84
                             3333333333444444444444444444444444 PP

  == domain 2  score: 15.6 bits;  conditional E-value: 2.4e-05
                   Phasin  51 tkkvaeekleevresvkskveevkekaeeqwdklekafdervaka 95 
                              + ++++++ e+++++ ++++e+v+ek +++ +++e+ fd+r +++
  PHY93_08170|PHY93_08170  76 RFEQVDQRFEQLETKFDKRFEQVEEKFDKRFEQVEEKFDKRFEQV 120
                              456777788888888888888888888888888888888876654 PP

>> TolA_bind_tri  TolA binding protein trimerisation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.4   2.1e-05     0.011      16      72 ..      34      90 ..      25      94 .. 0.89
   2 ?   -0.3   0.1       2.2   1.2e+03      43      68 ..     101     126 ..      96     130 .. 0.66

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 2.1e-05
            TolA_bind_tri 16 rsqlllelqqqlealqqelreLRGqiEelqyqleqleerQrdlYldlDerlrkleag 72
                             ++ l+l l  q +   +  +e RG+  + +++ e +e+r  + ++++D+r ++le++
  PHY93_08170|PHY93_08170 34 EDMLILSLKAQTNHFHHMDQEFRGEFKKIEHNFELIETRFEKRFEQVDQRFEQLETK 90
                             4677889999999999999***********************************985 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 2.2
            TolA_bind_tri  43 elqyqleqleerQrdlYldlDerlrk 68 
                              ++  + eq+ee+  + ++++D+   +
  PHY93_08170|PHY93_08170 101 KFDKRFEQVEEKFDKRFEQVDKKFDR 126
                              45566677777777777777776655 PP

>> PMC2NT  PMC2NT (NUC016) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.1     0.039        20      57      89 ..      61      93 ..      27      94 .. 0.70
   2 !    9.9   0.2    0.0023       1.2      62      91 ..      99     128 ..      93     129 .. 0.84

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.039
                   PMC2NT 57 sklededdveekfksvvdvvDsllEkadtcLDe 89
                             + +++ + +e++f++  + vD+ +E+ +t +D+
  PHY93_08170|PHY93_08170 61 KIEHNFELIETRFEKRFEQVDQRFEQLETKFDK 93
                             44555566899****************999996 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 0.0023
                   PMC2NT  62 eddveekfksvvdvvDsllEkadtcLDelt 91 
                              e++ +++f++v +  D+ +E++d  +D +t
  PHY93_08170|PHY93_08170  99 EEKFDKRFEQVEEKFDKRFEQVDKKFDRMT 128
                              455667*********************987 PP

>> Baculo_PEP_C  Baculovirus polyhedron envelope protein, PEP, C terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   2.4e-05     0.012      37      94 ..      67     124 ..      39     144 .. 0.73

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 2.4e-05
             Baculo_PEP_C  37 atlldaietqLnalsedlksllaeldtrldtlltnLtdalnalqdtlrneLtnlnsil 94 
                              + + +  e++++++++++++l +++d+r++++ ++ ++   +++++++++ + ++++ 
  PHY93_08170|PHY93_08170  67 ELIETRFEKRFEQVDQRFEQLETKFDKRFEQVEEKFDKRFEQVEEKFDKRFEQVDKKF 124
                              4444556677777777777777777777777777777777777777777777777665 PP

>> CdvA  CdvA-like coiled-coil domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.4   0.2    0.0034       1.8      16      61 ..      44      89 ..      35      91 .. 0.89
   2 !    9.2   0.4     0.002         1      22      63 ..      90     131 ..      89     133 .. 0.90

  Alignments for each domain:
  == domain 1  score: 8.4 bits;  conditional E-value: 0.0034
                     CdvA 16 pkstyeeikekleealkklkekakelkeklkkrlkeledqikslek 61
                             +   ++++ ++++ ++kk++ + + +  + +kr +++++  ++le+
  PHY93_08170|PHY93_08170 44 QTNHFHHMDQEFRGEFKKIEHNFELIETRFEKRFEQVDQRFEQLET 89
                             56678899**********************************9986 PP

  == domain 2  score: 9.2 bits;  conditional E-value: 0.002
                     CdvA  22 eikekleealkklkekakelkeklkkrlkeledqikslekal 63 
                              ++ +++e+  +k +++ +++ ek +kr ++++++ +++++++
  PHY93_08170|PHY93_08170  90 KFDKRFEQVEEKFDKRFEQVEEKFDKRFEQVDKKFDRMTTVM 131
                              5789999999***********************999998876 PP

>> EzrA  Septation ring formation regulator, EzrA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.5   6.7   0.00098       0.5     143     184 ..      50      91 ..      28     104 .. 0.75
   2 ?    8.1   2.9    0.0013      0.66     145     184 ..      91     131 ..      87     135 .. 0.73

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.00098
                              HHHHHHHHT--TTTTHHHHHHHHHHHHHHHH----------- CS
                     EzrA 143 ekYrelrkkllanrfsygealeelekqleniekefsefeelt 184
                              +  +e+r ++++ +++++ +++ +ek++e+++++f+++e+  
  PHY93_08170|PHY93_08170  50 HMDQEFRGEFKKIEHNFELIETRFEKRFEQVDQRFEQLETKF 91 
                              444677888888889999999999999999999999988754 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.0013
                              HHHHHHT--TT.TTHHHHHHHHHHHHHHHH----------- CS
                     EzrA 145 Yrelrkkllan.rfsygealeelekqleniekefsefeelt 184
                              +++  ++++++  + +++++e+++k++e+++k+f+ +++++
  PHY93_08170|PHY93_08170  91 FDKRFEQVEEKfDKRFEQVEEKFDKRFEQVDKKFDRMTTVM 131
                              444444444332467999999*************9999988 PP

>> Exonuc_VII_L  Exonuclease VII, large subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   1.5   6.1e-05     0.031     159     233 ..      50     125 ..      11     141 .. 0.45

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 6.1e-05
             Exonuc_VII_L 159 aikrlleekkqrleklasrl...k.speellerkrqrldeleerleralkkqlkkkrerleelkerlkekleekkerlk 233
                              ++++     + +++k+++++   + + e+++e+  qr+++le++++++ ++  +k  +r+e+++e++ +++e+ +++++
  PHY93_08170|PHY93_08170  50 HMDQE---FRGEFKKIEHNFeliEtRFEKRFEQVDQRFEQLETKFDKRFEQVEEKFDKRFEQVEEKFDKRFEQVDKKFD 125
                              12222...22222222222211222344444444444444444444444444444444444444444333444333333 PP

>> DUF4041  Domain of unknown function (DUF4041)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.4   0.1    0.0076       3.9      21      51 ..      64      94 ..      60      98 .. 0.88
   2 ?    4.5   0.1     0.061        31      22      44 ..     105     127 ..      82     132 .. 0.76

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.0076
                  DUF4041 21 nnietlekRIeksfeainklgktmnirItpe 51
                             +n+e +e+R ek fe++ + ++ ++ ++++ 
  PHY93_08170|PHY93_08170 64 HNFELIETRFEKRFEQVDQRFEQLETKFDKR 94
                             799***************9999998887765 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.061
                  DUF4041  22 nietlekRIeksfeainklgktm 44 
                               +e++e++  k fe++ k + +m
  PHY93_08170|PHY93_08170 105 RFEQVEEKFDKRFEQVDKKFDRM 127
                              46777777777777777766665 PP

>> Allexi_40kDa  Allexivirus 40kDa protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.8   0.00011     0.058      44     135 ..      13     114 ..       5     134 .. 0.53

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 0.00011
             Allexi_40kDa  44 haLhqnsLeWLthishdvdsiinklnpvsllsqttlLs....elrdalrtltklldklksvekklelsaetas...dskllkkles 122
                              h L q sLe L  ++++  s  ++l  +sl +qt+++     e r + ++++++++ +++  +k  ++ ++ +   ++k  k++e 
  PHY93_08170|PHY93_08170  13 HWLNQKSLEILGKVEKEKISTEDMLI-LSLKAQTNHFHhmdqEFRGEFKKIEHNFELIETRFEKRFEQVDQRFeqlETKFDKRFEQ 97 
                              88999999999999887666555553.34666666654111144556667777777776665555555544430003344444444 PP

             Allexi_40kDa 123 ie....tsleelhakld 135
                              +e    +++e++ +k+d
  PHY93_08170|PHY93_08170  98 VEekfdKRFEQVEEKFD 114
                              43111123333444443 PP

>> DUF3584  Protein of unknown function (DUF3584)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   6.7   0.00011     0.057     366     452 ..      40     126 ..      15     132 .. 0.67

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00011
                  DUF3584 366 eldaltekhqdvqekydrrkqkikeeleeeleklkerleaireekdrlkaaieealealesqlrkqleaqkeelneeekelesrls 451
                              +l+a+t++ + +++++  + +ki++++e    + ++r e++ +  ++l +++++ +e++e+++ k+ e+ +e++ ++ +++ ++ +
  PHY93_08170|PHY93_08170  40 SLKAQTNHFHHMDQEFRGEFKKIEHNFELIETRFEKRFEQVDQRFEQLETKFDKRFEQVEEKFDKRFEQVEEKFDKRFEQVDKKFD 125
                              56777777777777777777777777777666777777777777777777777777777777777777777777777777666665 PP

                  DUF3584 452 e 452
                              +
  PHY93_08170|PHY93_08170 126 R 126
                              5 PP

>> GAS  Growth-arrest specific micro-tubule binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1  11.4   0.00018     0.092      96     169 ..      54     131 ..      16     135 .. 0.68

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00018
                      GAS  96 elekelkdlkwehev....leqrfekvekerdelykkfeaaiqevqqktglknllLekklkalqeelEkkeaqleevl 169
                              e   e+k+++++ e      e+rfe+v + +++l+ kf++ +++v +k + +   +e k ++  e+++kk  ++++v+
  PHY93_08170|PHY93_08170  54 EFRGEFKKIEHNFELietrFEKRFEQVDQRFEQLETKFDKRFEQVEEKFDKRFEQVEEKFDKRFEQVDKKFDRMTTVM 131
                              333344555555554111145677889999999999999999999999999999999999999999999988888776 PP

>> Fur_reg_FbpB  Fur-regulated basic protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.9   0.5     0.078        40      27      39 .]      67      79 ..      60      79 .. 0.88
   2 ?    5.9   0.1     0.018       9.4      27      39 .]      85      97 ..      81      97 .. 0.91
   3 ?    6.5   0.2     0.012       6.2      27      39 .]      96     108 ..      95     108 .. 0.92
   4 ?    6.4   0.6     0.013       6.6      27      39 .]     107     119 ..     104     119 .. 0.91

  Alignments for each domain:
  == domain 1  score: 3.9 bits;  conditional E-value: 0.078
             Fur_reg_FbpB 27 ekIEekldekheq 39
                             e IE ++++++eq
  PHY93_08170|PHY93_08170 67 ELIETRFEKRFEQ 79
                             669*******997 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.018
             Fur_reg_FbpB 27 ekIEekldekheq 39
                             e++E k+d+++eq
  PHY93_08170|PHY93_08170 85 EQLETKFDKRFEQ 97
                             99********997 PP

  == domain 3  score: 6.5 bits;  conditional E-value: 0.012
             Fur_reg_FbpB  27 ekIEekldekheq 39 
                              e+ Eek+d+++eq
  PHY93_08170|PHY93_08170  96 EQVEEKFDKRFEQ 108
                              899********97 PP

  == domain 4  score: 6.4 bits;  conditional E-value: 0.013
             Fur_reg_FbpB  27 ekIEekldekheq 39 
                              e+ Eek+d+++eq
  PHY93_08170|PHY93_08170 107 EQVEEKFDKRFEQ 119
                              899********97 PP

>> DUF1664  Protein of unknown function (DUF1664)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.5   0.4     0.016       8.1      70     118 ..      40      92 ..      18     101 .. 0.75
   2 ?    7.8   0.5    0.0064       3.3      49      99 ..      76     127 ..      73     134 .. 0.60

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.016
                  DUF1664  70 rvdkkldeqkeiskeikeevtevredlseig....edvesvkeavegleskle 118
                              ++ ++ ++  ++ +e + e ++++++ + i+    + +e+v++ +e+le+k +
  PHY93_08170|PHY93_08170  40 SLKAQTNHFHHMDQEFRGEFKKIEHNFELIEtrfeKRFEQVDQRFEQLETKFD 92 
                              56777788888888888899999998876651111566788888888888875 PP

  == domain 2  score: 7.8 bits;  conditional E-value: 0.0064
                  DUF1664  49 qleqvseslaatkrhLssridrvdkkldeqke.iskeikeevtevredlsei 99 
                              + eqv +  ++   ++ +r ++v++k d+  e + ++ ++  ++v ++ +++
  PHY93_08170|PHY93_08170  76 RFEQVDQRFEQLETKFDKRFEQVEEKFDKRFEqVEEKFDKRFEQVDKKFDRM 127
                              5666777777777777777777777777654414445555566666555554 PP

>> ISG65-75  Invariant surface glycoprotein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.8   0.00037      0.19      57     127 ..      53     128 ..      36     132 .. 0.63

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00037
                 ISG65-75  57 ketkdklayienakekvd....yyvekleslleeake.kgtltesdaeklkkaceeAkaknkkarekakkalekae 127
                              +e + + + ie+++e ++    ++ e++ ++ e+ ++   +  e+ +ek +k +e++++k +k+ e+++k+ + ++
  PHY93_08170|PHY93_08170  53 QEFRGEFKKIEHNFELIEtrfeKRFEQVDQRFEQLETkFDKRFEQVEEKFDKRFEQVEEKFDKRFEQVDKKFDRMT 128
                              5555666666666666541111344556666655555134445666677899999999999999999999877665 PP

>> Mt_ATP-synt_D  ATP synthase D chain, mitochondrial (ATP5H)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   7.9   0.00054      0.28      66     123 ..      71     130 ..      58     134 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00054
                              HHHHHHHHH-------..-TTTTHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHT-X CS
            Mt_ATP-synt_D  66 deFekkYealkipype..dkyteevdaeekevkkeikefkeeskkrieelekeleklksl 123
                              ++Fek++e+++  +++   k+ +  ++ e++  k+ +++ e+ +kr e++ k+ +++  +
  PHY93_08170|PHY93_08170  71 TRFEKRFEQVDQRFEQleTKFDKRFEQVEEKFDKRFEQVEEKFDKRFEQVDKKFDRMTTV 130
                              47********9999996455569*********************************9876 PP

>> Jnk-SapK_ap_N  JNK_SAPK-associated protein-1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   7.8   0.00026      0.13      49     103 ..      74     129 ..      70     132 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.00026
            Jnk-SapK_ap_N  49 eaeleelreeleqLeteyerekel.rkraeeeleeiedqweeerkelqekveqlee 103
                              e + e++ + +eqLet+ +++ e+ ++++++++e++e++++++ +++++k+ ++++
  PHY93_08170|PHY93_08170  74 EKRFEQVDQRFEQLETKFDKRFEQvEEKFDKRFEQVEEKFDKRFEQVDKKFDRMTT 129
                              568999*************9987638899********************9998765 PP

>> SRR  Seven Residue Repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.0         2     1e+03       3      14 .]      59      70 ..      58      70 .. 0.87
   2 ?    2.3   0.0      0.71   3.6e+02       3      14 .]      77      88 ..      75      88 .. 0.87
   3 ?    2.8   0.1      0.51   2.6e+02       3      11 ..      95     103 ..      93     104 .. 0.83
   4 ?    2.8   0.1      0.52   2.6e+02       3      11 ..     106     114 ..     104     115 .. 0.83

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 2
                      SRR  3 fekVknaYeqLs 14
                             f+k + ++e+++
  PHY93_08170|PHY93_08170 59 FKKIEHNFELIE 70
                             899999**9986 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.71
                      SRR  3 fekVknaYeqLs 14
                             fe+V+  +eqL+
  PHY93_08170|PHY93_08170 77 FEQVDQRFEQLE 88
                             99***99**997 PP

  == domain 3  score: 2.8 bits;  conditional E-value: 0.51
                      SRR   3 fekVknaYe 11 
                              fe+V+++++
  PHY93_08170|PHY93_08170  95 FEQVEEKFD 103
                              9*****997 PP

  == domain 4  score: 2.8 bits;  conditional E-value: 0.52
                      SRR   3 fekVknaYe 11 
                              fe+V+++++
  PHY93_08170|PHY93_08170 106 FEQVEEKFD 114
                              9*****997 PP

>> CLZ  C-terminal leucine zipper domain of cyclic nucleotide-gated channels
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   3.7    0.0046       2.3      27      70 ..      71     111 ..      34     123 .. 0.79
   2 ?    4.4   0.4     0.094        48      24      50 ..     101     127 ..      89     133 .. 0.52

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.0046
                      CLZ  27 keleekverLessLeaLqtrlarLlaeyessqrkLkqRitkLEk 70 
                                +e++ e+++++ e+L+t++ +    +e++++k  +R +++E+
  PHY93_08170|PHY93_08170  71 TRFEKRFEQVDQRFEQLETKFDK---RFEQVEEKFDKRFEQVEE 111
                              45677777777777777777775...566667788888888886 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.094
                      CLZ  24 aeqkeleekverLessLeaLqtrlarL 50 
                              +  k +e+  e+++++ e+ ++++ r+
  PHY93_08170|PHY93_08170 101 KFDKRFEQVEEKFDKRFEQVDKKFDRM 127
                              334445555555555555555555555 PP

>> DUF2884  Protein of unknown function (DUF2884)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   6.8   0.00025      0.13      92     145 ..      74     124 ..      56     146 .. 0.62

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00025
                  DUF2884  92 sevaeklktkldelkarvkekfykdgdklvlgaqslesldeafdkefeqeieel 145
                              ++ +e++++ +++l+ + +++f++ ++k+    + +e+++e+fdk+feq  +++
  PHY93_08170|PHY93_08170  74 EKRFEQVDQRFEQLETKFDKRFEQVEEKFD---KRFEQVEEKFDKRFEQVDKKF 124
                              345667777777777777777777777554...666667777777777654443 PP

>> YlqD  YlqD protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.1       3.2   1.6e+03      66      75 ..      42      51 ..      15      71 .. 0.43
   2 ?   12.7   4.9   0.00023      0.12      21      80 ..      69     128 ..      63     134 .. 0.88

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 3.2
                     YlqD 66 ekekserlek 75
                             +++ +++++ 
  PHY93_08170|PHY93_08170 42 KAQTNHFHHM 51
                             2222222222 PP

  == domain 2  score: 12.7 bits;  conditional E-value: 0.00023
                     YlqD  21 lqqqlqaqieqldkelqqLefqakrlikeikkqsaqqieeiqeqvekekserlekkkqll 80 
                              ++++++++ eq+d+ ++qLe++  +  ++++++  ++ e+++e+++k+ +++ +k ++++
  PHY93_08170|PHY93_08170  69 IETRFEKRFEQVDQRFEQLETKFDKRFEQVEEKFDKRFEQVEEKFDKRFEQVDKKFDRMT 128
                              67899**************************99999999999999999999888776655 PP

>> FliD_C  Flagellar hook-associated protein 2 C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3   1.1    0.0054       2.8     191     233 ..      58     100 ..      23     104 .. 0.74
   2 ?    7.5   1.3    0.0047       2.4     203     238 ..      92     127 ..      89     133 .. 0.62

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0054
                              HHHHHHHHXXXXHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHH CS
                   FliD_C 191 tlqtasknltkqikdldkkiedldkrletleerlkkqfaalek 233
                               +++ + n +   ++++k+ e++d+r e+le +  k+f++ e+
  PHY93_08170|PHY93_08170  58 EFKKIEHNFELIETRFEKRFEQVDQRFEQLETKFDKRFEQVEE 100
                              4555566666667788888888888888888888888887765 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0047
                              HHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHH CS
                   FliD_C 203 ikdldkkiedldkrletleerlkkqfaalekavskl 238
                              +k++++  e++dkr e+ ee+  k+f++ +k  +++
  PHY93_08170|PHY93_08170  92 DKRFEQVEEKFDKRFEQVEEKFDKRFEQVDKKFDRM 127
                              566666666666666666666666666666655444 PP

>> DHC_N1  Dynein heavy chain, N-terminal region 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0  13.5   0.00091      0.47     268     365 ..      29     127 ..       8     134 .. 0.72

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.00091
                   DHC_N1 268 eklksksydvLdvsaee..feadfkeFkerikdlerrlqaiinqafed.asslesalellr.kfesllerpkikaaleekytdllq 349
                              ek+++ ++ +L ++a++  f++  +eF+ + k++e++ + +i+++fe+ ++++++++e l+ kf+   + ++++++++++++++ +
  PHY93_08170|PHY93_08170  29 EKISTEDMLILSLKAQTnhFHHMDQEFRGEFKKIEHNFE-LIETRFEKrFEQVDQRFEQLEtKFD--KRFEQVEEKFDKRFEQVEE 111
                              3444445556665555555****************9975.4466664314444666665541444..66689999*********** PP

                   DHC_N1 350 mykeeleavkklfekq 365
                              ++++  e+v k+f+++
  PHY93_08170|PHY93_08170 112 KFDKRFEQVDKKFDRM 127
                              *************995 PP

>> OmpH  Outer membrane protein (OmpH-like)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   8.4    0.0016       0.8      13      98 ..      44     124 ..      38     139 .. 0.56

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.0016
                              HSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTS.-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     OmpH  13 espegkaaqeqlekkfkklqaeleakekelqklqeelqkkakklekeekeqelqkkeqelqqkqqqkaqelqkkqqellkpildki 98 
                              +++ +  +++++  +fkk++  +e  e+ ++k  e+ +++      e+ e +++k+ +++++k++++++++++k  + ++++ +k 
  PHY93_08170|PHY93_08170  44 QTNHFHHMDQEFRGEFKKIEHNFELIETRFEKRFEQVDQR-----FEQLETKFDKRFEQVEEKFDKRFEQVEEKFDKRFEQVDKKF 124
                              5666667777777777777777777777777777777633.....33444444444444444444444444444444444444443 PP

>> Phage_GPO  Phage capsid scaffolding protein (GPO) serine peptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   5.4    0.0018      0.91     175     245 ..      56     128 ..      16     135 .. 0.50

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.0018
                Phage_GPO 175 eslferikallskkkksddarfadveeavelvAeevkelsekveall..aleaelaalkkeveklkaeleaLk 245
                              +  f++i++ ++  +++ ++rf +v +  e++ +++ +  e+ve++   + e+  ++++k++e+ ++++++++
  PHY93_08170|PHY93_08170  56 RGEFKKIEHNFELIETRFEKRFEQVDQRFEQLETKFDKRFEQVEEKFdkRFEQVEEKFDKRFEQVDKKFDRMT 128
                              2224444444555555555666666666666655555555555533332333334444444555555555444 PP

>> Sds3  Sds3-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   1.9     0.061        31      54     109 ..      34      88 ..      16      89 .. 0.84
   2 ?    8.6   8.6    0.0034       1.7      40      91 ..      78     129 ..      51     132 .. 0.79

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.061
                     Sds3  54 DaeLkrlrlreeyqlkriekefkadiekakqeheklvkllkeklyeelekkikrLk 109
                              ++ L +  + +++ ++++++ef+ + +k++ ++e l+++  ek +e+++++  +L+
  PHY93_08170|PHY93_08170  34 EDMLILSLKAQTNHFHHMDQEFRGEFKKIEHNFE-LIETRFEKRFEQVDQRFEQLE 88 
                              556666677889999******************7.799999999****99999996 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0034
                     Sds3  40 pellrklrdleeerDaeLkrlrlreeyqlkriekefkadiekakqeheklvk 91 
                              ++  +++++le++ D++ ++++ +++++++++e++f+ + e++ ++++++++
  PHY93_08170|PHY93_08170  78 EQVDQRFEQLETKFDKRFEQVEEKFDKRFEQVEEKFDKRFEQVDKKFDRMTT 129
                              4556789999999999999999999999999999999999999999999876 PP

>> Remorin_C  Remorin, C-terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.1       3.7   1.9e+03      43      51 ..      25      33 ..      11      65 .. 0.56
   2 ?   10.2   1.7     0.001      0.52      18      75 ..      69     126 ..      49     132 .. 0.75

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 3.7
                Remorin_C 43 elrkleekl 51
                             +++k +   
  PHY93_08170|PHY93_08170 25 KVEKEKIST 33
                             333333333 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 0.001
                Remorin_C  18 ikkrykreeakIaaWenekkakaeaelrkleeklEkkrakaleklknklariekkAee 75 
                              i+ r+++  +++++  ++  +k  ++ +++eek +k+ ++ +ek+ ++ ++++kk + 
  PHY93_08170|PHY93_08170  69 IETRFEKRFEQVDQRFEQLETKFDKRFEQVEEKFDKRFEQVEEKFDKRFEQVDKKFDR 126
                              5667777777777666677777888888888888888888888888888888877655 PP

>> DUF4795  Domain of unknown function (DUF4795)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9   9.2    0.0041       2.1      77     158 ..      39     122 ..      15     132 .. 0.69

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.0041
                  DUF4795  77 LatkvsrdqfDeakkeLekmleellekleeqeealkkaldtLq...eelkekldrlelepLkeqleerlkelqkelqeamekedk 158
                              L  k+  ++f ++ +e++  ++++ + +e  e + +k  +++    e+l++k d+  +e++ e++++r+++++++ +++ e+ dk
  PHY93_08170|PHY93_08170  39 LSLKAQTNHFHHMDQEFRGEFKKIEHNFELIETRFEKRFEQVDqrfEQLETKFDK-RFEQVEEKFDKRFEQVEEKFDKRFEQVDK 122
                              4556666668888888888888888888888888888888888777777777774.46777777777777777777776666655 PP

>> KxDL  Uncharacterized conserved protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.2       1.1   5.9e+02      36      55 ..      41      60 ..      15      75 .. 0.60
   2 ?    8.7   3.8    0.0041       2.1      23      77 ..      75     130 ..      71     134 .. 0.86

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 1.1
                     KxDL 36 nalsqerlaklrarfkqgtk 55
                              +   ++++++ ++f+  +k
  PHY93_08170|PHY93_08170 41 LKAQTNHFHHMDQEFRGEFK 60
                             33334444444444444433 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 0.0041
                     KxDL  23 grlnkknreLlelnalsqerlaklrarfkqgt.kllkevkkdLesifkkirslkak 77 
                              +r+++  ++ ++l ++ ++r+++++++f + + ++  +  k  e++ kk +++++ 
  PHY93_08170|PHY93_08170  75 KRFEQVDQRFEQLETKFDKRFEQVEEKFDKRFeQVEEKFDKRFEQVDKKFDRMTTV 130
                              689999999********************999566667899999999999998865 PP

>> YtxH  YtxH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   4.2    0.0095       4.9      29      73 ..      79     123 ..      24     128 .. 0.78

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0095
                     YtxH  29 dlkekaddlkekakelleeakekakekaedlkekvkekadelkek 73 
                              ++ +++++l  k+++  e+++ek  +++e++ ek++++++++ +k
  PHY93_08170|PHY93_08170  79 QVDQRFEQLETKFDKRFEQVEEKFDKRFEQVEEKFDKRFEQVDKK 123
                              445556666666666666666666666777777777766666665 PP

>> DUF1283  Protein of unknown function (DUF1283)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9  11.7       7.8     4e+03      32      46 ..      96     110 ..      42     132 .. 0.62

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 7.8
                  DUF1283  32 nkvnkrvekefdkad 46 
                              ++v+++ +k+f++++
  PHY93_08170|PHY93_08170  96 EQVEEKFDKRFEQVE 110
                              223333333333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (150 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1849  (0.103129); expected 358.6 (0.02)
Passed bias filter:                      704  (0.039266); expected 358.6 (0.02)
Passed Vit filter:                       126  (0.00702772); expected 17.9 (0.001)
Passed Fwd filter:                        37  (0.0020637); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              35  [number of targets reported over threshold]
# CPU time: 0.75u 0.30s 00:00:01.05 Elapsed: 00:00:00.48
# Mc/sec: 931.53
//
Query:       PHY93_08175|PHY93_08175  [L=134]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.5e-22   79.7   0.0    2.9e-22   79.5   0.0    1.0  1  RuvX      Holliday junction resolvase


Domain annotation for each model (and alignments):
>> RuvX  Holliday junction resolvase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.5   0.0   1.6e-26   2.9e-22       3     132 ..       2     133 ..       1     134 [] 0.90

  Alignments for each domain:
  == domain 1  score: 79.5 bits;  conditional E-value: 1.6e-26
                              EEEEEESSSEEEEEEE-S--S.S---EEEEE---HHHHHHHHHHHHHHTT--EEEEE------SSS---SSTTHHHHHHHHHT..T CS
                     RuvX   3 ilglDvGtkriGvAvsdplgi.laspletierkskekdleelkelvkeeeveeiVvGlPlnldgsegesakkvrkfaeeLakrlkk 87 
                              i+++D+G k +G A   p +  ++   + i  ks+++++++l++++k+e ve +V+G+P+ ldg+e++++k +++f e L+  +++
  PHY93_08175|PHY93_08175   2 IMAIDFGLKVTGTAFFCPGRDpFPCMGQKIIYKSHTETIKALAQFIKDEGVEVLVLGVPYFLDGKESDTTKLIKHFGEVLSASFPA 87 
                              89************9777654155555666666689************************************************** PP

                              -EEEEE--S----XXX.XXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                     RuvX  88 lpvelvDErlttveae.rilresglsrkkrkkvvDklaAviiLqsy 132
                              l  +  DE ltt++ae r+l++++ + k + +++D +aA+iiL+++
  PHY93_08175|PHY93_08175  88 LDFFEQDETLTTKAAEeRMLNSAQFNFKIDVTMIDCVAATIILEDF 133
                              ****************7777889999999***************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (134 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       481  (0.026828); expected 358.6 (0.02)
Passed bias filter:                      416  (0.0232026); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.27s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 904.33
//
Query:       PHY93_08180|PHY93_08180  [L=413]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    8.7e-33  112.0   0.0    1.6e-32  111.2   0.0    1.5  1  Rho_RNA_bind  Rho termination factor, RNA-binding domain
    2.3e-22   79.7   0.0    3.4e-22   79.2   0.0    1.3  1  ATP-synt_ab   ATP synthase alpha/beta family, nucleotide-bind
    4.2e-13   49.0   4.4      1e-12   47.8   2.5    2.5  2  Rho_N         Rho termination factor, N-terminal domain
     0.0017   18.0   0.0     0.0044   16.6   0.0    1.6  1  AAA_25        AAA domain
     0.0029   17.6   0.0      0.006   16.5   0.0    1.5  1  NACHT         NACHT domain
     0.0059   16.3   0.0      0.014   15.1   0.0    1.7  1  OB_RNB        Ribonuclease B OB domain
  ------ inclusion threshold ------
      0.013   15.9   0.0      0.039   14.4   0.0    1.8  1  AAA           ATPase family associated with various cellular 
      0.039   14.2   0.0      0.092   13.0   0.0    1.5  1  AAA_22        AAA domain
       0.12   12.4   0.0       0.96    9.5   0.0    2.4  2  AAA_14        AAA domain


Domain annotation for each model (and alignments):
>> Rho_RNA_bind  Rho termination factor, RNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  111.2   0.0   8.1e-36   1.6e-32       2      73 .]      52     125 ..      51     125 .. 0.98

  Alignments for each domain:
  == domain 1  score: 111.2 bits;  conditional E-value: 8.1e-36
                              EEEEEE-TTS-EEEE-G..TT---TT-EEE-CCCCCCTT--TT-EEEEEEE---SSS-SEEECEECEETTEEXX CS
             Rho_RNA_bind   2 eGiLeilpdgygFlRts..nylpgpedvYVsasqirkfgLrtGDaveGkvrppkerekynaLlrvesvngeepe 73 
                              +G+Leilpdg+gFlR+   nylpg +d+YVs+sqirkfgLr+GD veG++rppke+e+y+aL++v+++n ++pe
  PHY93_08180|PHY93_08180  52 NGVLEILPDGFGFLRSPlyNYLPGADDIYVSPSQIRKFGLRKGDSVEGEIRPPKEGERYFALVKVNEINSQSPE 125
                              7**********************************************************************997 PP

>> ATP-synt_ab  ATP synthase alpha/beta family, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.2   0.0   1.7e-25   3.4e-22       3     211 ..     157     360 ..     155     362 .. 0.92

  Alignments for each domain:
  == domain 1  score: 79.2 bits;  conditional E-value: 1.7e-25
                              HHHHHHS-EBTT-EEEEEESTTSSHHHHHHHHHHHSSTS..S.EEEEEEESEEHHHHHHHHHHCHHSSGGGGEEEEEEETTS-HHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..x.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              ATP-synt_ab   3 rvlDalfpivqGqrtlipgafgvGktvisqslskqsnsd..d.aiiyvgiGergnevaevleefpegtimkrtvlvantsnepvaa 85 
                              r +D+++p + Gqr+li++  + Gktv++q +++  +++  + + i+ +i er +ev+++ ++++         +v +t +ep+  
  PHY93_08180|PHY93_08180 157 RLIDLFVPQGFGQRCLIVAPPKAGKTVLLQDIANAITTNhpEsVLIVLLIDERPEEVTDMRRNVR-------AEVVSSTFDEPASR 235
                              89********************************987777746***************9988875.......569*********** PP

                              HHHHHHHHHHHHHHHHHTTSEEEEEEETHHHHHHHHHHHHHHTTTSBEGGGSBTTHHHHHHHHHTTSEEETSSEEEEEEEEEEE-G CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              ATP-synt_ab  86 reasiytgitlAEyfrdqgknvlliadslsrwaeAlreislrlgempadqgypaylgaklaslyERagkapdrtGsvtivaavspa 171
                               ++++ + i  A  + + gk+v++++ds++r a+A++ +    g++ +  g  ++  +k  ++   a ++ +  Gs+ti+a+  ++
  PHY93_08180|PHY93_08180 236 HVQVAEMVIEKAKRLTEAGKDVIILLDSITRLARAYNTVVPPSGKILS-GGVDSNALHKPKRFFGSARNI-EGGGSLTIIATALID 319
                              ********************************************9975.7999*****************.568*******99998 PP

                              GCS.TTSHHHHHHHHHSSEEEEB-HHHHHTTBSSSBCTTTE CS
                              xxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              ATP-synt_ab 172 ggD.fsdpvttatlgitdgfivLdkklaqrkhfPainvlvS 211
                               g  +++ + ++  g  ++ i Ld+kl ++++fPa ++ +S
  PHY93_08180|PHY93_08180 320 TGSrMDEVIFEEFKGTGNSEIQLDRKLLEKRIFPALDINKS 360
                              77626777889999999*********************998 PP

>> Rho_N  Rho termination factor, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.8   2.5     5e-16     1e-12       1      40 [.       5      44 ..       5      47 .. 0.96
   2 ?   -0.4   0.0      0.58   1.2e+03      21      32 ..     358     369 ..     354     370 .. 0.79

  Alignments for each domain:
  == domain 1  score: 47.8 bits;  conditional E-value: 5e-16
                             HHHHS-HHHHHHHHHHTT-TTGGGS-HHHHHHHHHHGGGS CS
                    Rho_N  1 eLkektlseLraiAkelgienysrlRKqdLIfaIlkaqae 40
                             eL ek ++eL   A+el ien+s l+K +LIfaIlka a+
  PHY93_08180|PHY93_08180  5 ELREKDIAELTTQAEELQIENPSNLKKHELIFAILKATAK 44
                             89***********************************998 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 0.58
                              TGGGS-HHHHHH CS
                    Rho_N  21 nysrlRKqdLIf 32 
                              n s+ RK dL  
  PHY93_08180|PHY93_08180 358 NKSSTRKEDLLL 369
                              66899*****76 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   2.2e-06    0.0044      33      83 ..     168     211 ..     154     274 .. 0.63

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 2.2e-06
                   AAA_25  33 gelallaGapgtGKttlaldlalavatGkpwlgpvapeqgkVlyvsaEdse 83 
                              g  +l++++p++GKt+l+ d+a a++t +p           Vl+++ E +e
  PHY93_08180|PHY93_08180 168 GQRCLIVAPPKAGKTVLLQDIANAITTNHPE------SVLIVLLID-ERPE 211
                              5789***********************9974......223344444.5554 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0     3e-06     0.006      12      96 ..     180     270 ..     171     289 .. 0.81

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 3e-06
                              CHHHHHHHHHHHHCTS-SCCCC-SEEEEEETT..TTTTS-...-HCHHHCCCCTS--SSS-CCHHHHCCSCCCEE.......EEEE CS
                    NACHT  12 GKTtLlqklalawaegklpqgafklvFflslr..elsrsgnarsladllfsqlpepaapvsevwavllelperlL.......lilD 88 
                              GKT+Llq +a a+ +++++++    v+++  r  e+++  +    a+++ s ++epa+++ +v ++++e ++rl        ++lD
  PHY93_08180|PHY93_08180 180 GKTVLLQDIANAITTNHPESV--LIVLLIDERpeEVTDMRR-NVRAEVVSSTFDEPASRHVQVAEMVIEKAKRLTeagkdviILLD 262
                              *****************9994..444444333114444333.478999*************************9999999999999 PP

                              -STT-SS- CS
                    NACHT  89 glDelvtd 96 
                              ++ +l++ 
  PHY93_08180|PHY93_08180 263 SITRLARA 270
                              99888765 PP

>> OB_RNB  Ribonuclease B OB domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0   7.1e-06     0.014       1      44 [.      53     103 ..      53     116 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 7.1e-06
                              EEEEE-SSS-EEEEECT......TEEEEE-HHHHTTS..-TT-EEEEEEEE CS
                   OB_RNB   1 GtvrahkkGFGFlipde.....gkeDifippeqmkka..mhGDrVlvritk 44 
                              G++++ ++GFGFl+        g +Di+++p+q++k     GD V+ +i  
  PHY93_08180|PHY93_08180  53 GVLEILPDGFGFLRSPLynylpGADDIYVSPSQIRKFglRKGDSVEGEIRP 103
                              7889999******976679999************98422567777766655 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0     2e-05     0.039       2      74 ..     172     271 ..     171     280 .. 0.65

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 2e-05
                              EEESSTTSSHHHHHHHHHHHHTHE....................EEEEETTTCSSSSTTHHHHHHHHHHHHHHHTS.......TSE CS
                      AAA   2 llyGppGtGKTllakavakelgve....................fleisgsellskyvgesekkirelfkeakeka.......kps 60 
                              l++ pp  GKT l + +a+ + ++                    + +   +e++s+++ e +++  ++ + + eka       k +
  PHY93_08180|PHY93_08180 172 LIVAPPKAGKTVLLQDIANAITTNhpesvlivlliderpeevtdMRRNVRAEVVSSTFDEPASRHVQVAEMVIEKAkrlteagKDV 257
                              8899****************85444455555555555555555544444444445555555555544444433333344477557* PP

                              EEEEETGGGHHHHH CS
                      AAA  61 ilfiDEidalaksr 74 
                              i+++D i +la++ 
  PHY93_08180|PHY93_08180 258 IILLDSITRLARAY 271
                              ********999875 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   4.6e-05     0.092       8     103 ..     171     267 ..     168     277 .. 0.63

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 4.6e-05
                   AAA_22   8 lvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsst..sskdllrellralglelka....erlsseell.ealeqal 86 
                              +++++++ +GKT+ll+ +++  +     ++++ +v+ v l  +   + +d++r++  ++ +++ +    +  +  e++ e+  +  
  PHY93_08180|PHY93_08180 171 CLIVAPPKAGKTVLLQDIANAIT-----TNHPESVLIVLLIDERpeEVTDMRRNVRAEVVSSTFDepasRHVQVAEMViEKAKRLT 251
                              5899****************984.....3345555544443333446777777777777777777444345555555534444444 PP

                   AAA_22  87 raravielliiDEaqhl 103
                              +a ++ +++++D + +l
  PHY93_08180|PHY93_08180 252 EAGKD-VIILLDSITRL 267
                              44444.77777766655 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -4.0   0.0       7.3   1.5e+04      57      71 ..     120     134 ..     109     137 .. 0.56
   2 ?    9.5   0.0   0.00048      0.96      12      80 ..     178     271 ..     170     276 .. 0.62

  Alignments for each domain:
  == domain 1  score: -4.0 bits;  conditional E-value: 7.3
                   AAA_14  57 leklkeekktylflD 71 
                               ++  e++k+ +++D
  PHY93_08180|PHY93_08180 120 NSQSPEKHKKTVLFD 134
                              333222466667777 PP

  == domain 2  score: 9.5 bits;  conditional E-value: 0.00048
                   AAA_14  12 rvGKTtllkqlikell.vkkesilyinldderd................kkladpe.........kllelileklke....ekkty 67 
                              ++GKT+ll+++++     ++es+l + l der                 +     +         ++ e++ ek+k+     k+ +
  PHY93_08180|PHY93_08180 178 KAGKTVLLQDIANAITtNHPESVLIVLLIDERPeevtdmrrnvraevvsS-----TfdepasrhvQVAEMVIEKAKRlteaGKDVI 258
                              68*********977779899999999999998844544444433333221.....0223334444455555555322455555666 PP

                   AAA_14  68 lflDEiqevpewe 80 
                              ++lD i ++ +++
  PHY93_08180|PHY93_08180 259 ILLDSITRLARAY 271
                              7777777776665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (413 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       655  (0.036533); expected 358.6 (0.02)
Passed bias filter:                      581  (0.0324056); expected 358.6 (0.02)
Passed Vit filter:                        61  (0.00340231); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.65u 0.33s 00:00:00.98 Elapsed: 00:00:00.48
# Mc/sec: 2611.52
//
Query:       PHY93_08185|PHY93_08185  [L=380]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    7.7e-76  254.4   2.1    9.8e-76  254.0   2.1    1.1  1  DUF1385       Protein of unknown function (DUF1385)
  ------ inclusion threshold ------
       0.29   10.8   3.0       0.61    9.8   0.1    2.2  2  Orai-1        Mediator of CRAC channel activity


Domain annotation for each model (and alignments):
>> DUF1385  Protein of unknown function (DUF1385)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  254.0   2.1   1.1e-79   9.8e-76       2     226 ..      74     340 ..      73     342 .. 0.94

  Alignments for each domain:
  == domain 1  score: 254.0 bits;  conditional E-value: 1.1e-79
                  DUF1385   2 PliRGvvalveslvlGvkalnlsaelaeeeeee...................ekleklllalsvvlslllavllfvvlPallakll 68 
                              P++RGv++l+e++++Gv +ln+sa++a++ee++                   ++   +++++s+++s++++++lfv+lP++l+ ++
  PHY93_08185|PHY93_08185  74 PFLRGVLVLIETMANGVVSLNYSANIAMDEENKkvalqkgisesdyeknkksKEKVGFETFISIAFSFAFGIGLFVFLPHALTAII 159
                              9****************************977789************98754345556699********************99999 PP

                  DUF1385  69 ...........ellknliegvirlaifllYlllislmkdikrvfqYHGAEHktincyeageeltvenvrkssrlhprCGtsflllv 143
                                         ++ ++ i+g i+  ifl+Y++lis+++dik+vfqYHGAEHk+i+++eageel +en+rk+s++hprCGt+f++++
  PHY93_08185|PHY93_08185 160 ekysgakwdlqSFQFHAIDGTIKAFIFLTYIYLISFLPDIKKVFQYHGAEHKSISTFEAGEELIIENARKHSTFHPRCGTTFIFFL 245
                              9999**999966689999******************************************************************** PP

                  DUF1385 144 livsilvfslvgassll...........lrvllrllllpvvagisYelirlagks.dnllvkillapglllQklTtkePddsqiev 217
                              ++vsi++f+++ a   +           + +l++++l   +agisYeli+++gk  ++l  +i+++pg llQklTtkeP+d+q+e+
  PHY93_08185|PHY93_08185 246 MFVSIILFAIIFAIVPIgshspvllkhaYAMLFKVALTLPIAGISYELIKFVGKDpNSLAGRIMSYPGKLLQKLTTKEPEDAQLEI 331
                              *******8886666555788899****99**************************99999************************** PP

                  DUF1385 218 Aiaalkavl 226
                              A+a++kavl
  PHY93_08185|PHY93_08185 332 ALASIKAVL 340
                              ******997 PP

>> Orai-1  Mediator of CRAC channel activity
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.1   6.8e-05      0.61      98     125 ..     125     152 ..      79     163 .. 0.75
   2 ?    0.8   0.5     0.039   3.5e+02      77     132 ..     194     253 ..     172     286 .. 0.62

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 6.8e-05
                   Orai-1  98 esphekleeyiekaWlfatalGillFLv 125
                               + +  +e++i+ a  fa+++G+++FL 
  PHY93_08185|PHY93_08185 125 SKEKVGFETFISIAFSFAFGIGLFVFLP 152
                              444568********************96 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.039
                   Orai-1  77 liLpnieavskienledeeve..esphekleeyiekaWlfatal...G..illFLvevallsw 132
                              + Lp i++v + +  e+++++  e      e  ie+a +++t     G   ++FL+ v+++ +
  PHY93_08185|PHY93_08185 194 SFLPDIKKVFQYHGAEHKSIStfE---AGEELIIENARKHSTFHprcGttFIFFLMFVSIILF 253
                              467888888888888877775331...222333455555555444445324556666666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (380 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       955  (0.0532657); expected 358.6 (0.02)
Passed bias filter:                      502  (0.0279993); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.64u 0.29s 00:00:00.93 Elapsed: 00:00:00.46
# Mc/sec: 2489.26
//
Query:       PHY93_08190|PHY93_08190  [L=355]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    9.4e-66  221.4   0.3    9.4e-66  221.4   0.3    1.5  2  PCRF          PCRF domain
    9.5e-36  122.3   1.9    9.5e-36  122.3   1.9    2.3  2  RF-1          RF-1 domain
  ------ inclusion threshold ------
       0.01   16.0   3.0       0.13   12.5   0.1    2.7  2  ABC_tran_CTD  ABC transporter C-terminal domain
      0.085   13.0   0.5      0.085   13.0   0.5    2.2  2  K-box         K-box region


Domain annotation for each model (and alignments):
>> PCRF  PCRF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  221.4   0.3   2.1e-69   9.4e-66       4     193 .]      13     203 ..      10     203 .. 0.98
   2 ?   -2.5   0.0      0.85   3.8e+03      49      56 ..     268     275 ..     250     325 .. 0.57

  Alignments for each domain:
  == domain 1  score: 221.4 bits;  conditional E-value: 2.1e-69
                              HHTTTTTST.-GGGTTTGGGSSSTTHHHHHTHHHHHHHHHHHHHTTTHHH...HT......-S-..-GGGTHHHHHHHHHH..HHH CS
                     PCRF   4 eleelekklsdpevwedqekakklskelaeleeivealeeleealedleeakell.e.edeelaelaeeeleelekeleeleeelk 87 
                              ++e l++kl+dp++ + q+++k++s+e a++e++v +++e+++++++l+  ke+l + +de+l+++a+ el+e+e++l ++ee+lk
  PHY93_08190|PHY93_08190  13 RYEMLTDKLADPSIYDRQKEFKEISSERANIEDVVITYREYKKLKDNLDGSKEILrNeKDEDLRDMAKMELSEIEAALPAIEERLK 98 
                              8999***************************************************637**************************** PP

                              HHT-..SSSTTSEEEEEEEE-SSTHHHHHHHHHHHHHHHHHHHTTT-EEEEEEEEESSS.SEEEEEEEEESTTHHHHHGGG-EEEE CS
                     PCRF  88 klLlpkdendeknaileiraGaGGdeaalfaedLlrmYtryaerkgwkvevldaseeeagGikevtleiegegaYgkLkfEsGvHR 173
                               lLlpkd+ de+n+++e+raGaGGdea++f++d++rmY++y  + g+k+e+ ++se++  Gike++++++ge++Y+kLk+E+GvHR
  PHY93_08190|PHY93_08190  99 LLLLPKDPLDERNVVMEMRAGAGGDEASIFVADMFRMYQNYFRQLGYKIEIDSSSETDQ-GIKEIIFTVTGEKVYSKLKWEAGVHR 183
                              ***************************************************99999999.************************** PP

                              EEEE-TTSSS--EEEEEEEE CS
                     PCRF 174 vqRvpetesqgrihTStatV 193
                              vqRvp+te+ gr+hTSt+t+
  PHY93_08190|PHY93_08190 184 VQRVPKTETMGRVHTSTITI 203
                              *****************986 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 0.85
                              TTHHH... CS
                     PCRF  49 edleeake 56 
                              + l+ +++
  PHY93_08190|PHY93_08190 268 KALKILRT 275
                              22222111 PP

>> RF-1  RF-1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.1      0.33   1.5e+03      63      88 ..      15      43 ..      14      66 .. 0.59
   2 !  122.3   1.9   2.1e-39   9.5e-36       2     116 .]     211     320 ..     210     320 .. 0.95

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 0.33
                             HHHHHHHHH...HHHHHCCCCCHTTTTT- CS
                     RF-1 63 erLkaklke...keleeekeeekkrrvkk 88
                             e+L++kl++   +++++e +e +++r++ 
  PHY93_08190|PHY93_08190 15 EMLTDKLADpsiYDRQKEFKEISSERANI 43
                             68888887776666666666666665333 PP

  == domain 2  score: 122.3 bits;  conditional E-value: 2.1e-39
                              CCCCE--GGGEEEEEE---SSSSSSGCSSSCEEEEEETTTTEEEEEEECSSSHHHHHHHHHHHHHHHHHHHHHHHCCCCCHTTTTT CS
                     RF-1   2 eieieidekdleidtfrssGaGGQnVNktesaVrlthlptgvivvecqeeRsqekNrekAlerLkaklkekeleeekeeekkrrvk 87 
                              e+e+e+++++l+id++rs+GaGGQ+VN+t+saVr+thlptg + v++q+++sq kN+ekAl++L++++++  ++ +k+e +++r +
  PHY93_08190|PHY93_08190 211 EVEFELNPNELRIDVYRSGGAGGQSVNTTDSAVRVTHLPTG-MSVANQDQKSQLKNKEKALKILRTRIYDNMVQAQKNEIDTER-R 294
                              7899*************************************.7*************************9988899999888888.6 PP

                              -.S.-S---S.--ECEEEECGCTTEEEETT CS
                     RF-1  88 kekkkigtgs.sekiRtynkkpqsrvkdhr 116
                                  +ig g+ sek Rtyn+ pq+r+ dhr
  PHY93_08190|PHY93_08190 295 G---QIGEGDrSEKVRTYNY-PQNRISDHR 320
                              6...9***************.********9 PP

>> ABC_tran_CTD  ABC transporter C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.1   2.9e-05      0.13      18      55 ..       8      45 ..       3      57 .. 0.85
   2 ?    2.7   0.7     0.034   1.5e+02       7      25 ..      80      98 ..      74     100 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 2.9e-05
             ABC_tran_CTD 18 eaLEeeiaeleaeladpelysdpeklaelsaeleelea 55
                             ea   + + l+++ladp++y ++++++e+s e +++e+
  PHY93_08190|PHY93_08190  8 EAVIGRYEMLTDKLADPSIYDRQKEFKEISSERANIED 45
                             444456678999**********************9986 PP

  == domain 2  score: 2.7 bits;  conditional E-value: 0.034
             ABC_tran_CTD  7 qreleeleaeIeaLEeeia 25
                             + el e+ea + a+Ee+++
  PHY93_08190|PHY93_08190 80 KMELSEIEAALPAIEERLK 98
                             7899999999999999876 PP

>> K-box  K-box region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.5   1.9e-05     0.085      11      52 ..      49      90 ..      37      97 .. 0.93
   2 ?   -1.0   0.3      0.45     2e+03      69      82 ..     258     271 ..     255     292 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 1.9e-05
                    K-box 11 lkqEvskLkkeieklqrsqRkllGedleslslkeLqqLEqqL 52
                              ++E++kLk++++  ++ +R+   edl +++  eL ++E  L
  PHY93_08190|PHY93_08190 49 TYREYKKLKDNLDGSKEILRNEKDEDLRDMAKMELSEIEAAL 90
                             589************************************988 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.45
                    K-box  69 eeieelkkkekqle 82 
                              ++ ++lk+kek l+
  PHY93_08190|PHY93_08190 258 DQKSQLKNKEKALK 271
                              66778888888775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (355 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       817  (0.0455686); expected 358.6 (0.02)
Passed bias filter:                      394  (0.0219756); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.60u 0.26s 00:00:00.86 Elapsed: 00:00:00.45
# Mc/sec: 2364.08
//
Query:       PHY93_16505|PHY93_16505  [L=123]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0034   17.3   0.0     0.0053   16.7   0.0    1.3  1  Phage_sheath_1C  Phage tail sheath C-terminal domain


Domain annotation for each model (and alignments):
>> Phage_sheath_1C  Phage tail sheath C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.0     3e-07    0.0053      10      68 ..      57     113 ..      48     119 .. 0.88

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 3e-07
                              HHHHHHHHHHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHHH.HHHHHTTSB-S--STT CS
          Phage_sheath_1C  10 evirtldllrddirstfkkkylgkklnnddgralvksalnayl.kelqregaienfdnks 68 
                              + i t+  +++di+s+f++   g    n    +++ +a+ +yl ++ ++++ ++++++k+
  PHY93_16505|PHY93_16505  57 TSINTMTGIERDIASSFTT--MGARIPNG-CSKDFSTAMEQYLlENFEQNDSLKDYKVKT 113
                              5699***************..77776666.79**********99*************976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (123 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       538  (0.0300073); expected 358.6 (0.02)
Passed bias filter:                      387  (0.0215851); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.28s 00:00:00.71 Elapsed: 00:00:00.42
# Mc/sec: 884.53
//
Query:       PHY93_08195|PHY93_08195  [L=300]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.8e-12   46.3   0.0    5.8e-12   45.7   0.0    1.3  1  Methyltransf_31  Methyltransferase domain
    8.3e-12   45.0   0.0    1.3e-11   44.3   0.0    1.3  1  MTS              Methyltransferase small domain
    5.8e-09   35.8   0.0    8.5e-09   35.2   0.0    1.1  1  PrmA             Ribosomal protein L11 methyltransferase (Prm
    2.3e-06   28.2   0.0    5.7e-06   26.9   0.0    1.7  1  Methyltransf_25  Methyltransferase domain
    3.8e-05   23.5   0.0    5.8e-05   22.9   0.0    1.3  1  UPF0020          Putative RNA methylase family UPF0020
    9.4e-05   23.0   0.0    0.00027   21.5   0.0    1.9  1  Methyltransf_11  Methyltransferase domain
    0.00038   20.3   0.0      0.001   18.9   0.0    1.7  1  Methyltransf_23  Methyltransferase domain
    0.00053   20.7   0.0     0.0014   19.3   0.0    1.7  1  Methyltransf_12  Methyltransferase domain
    0.00073   19.5   0.0     0.0012   18.8   0.0    1.3  1  Methyltransf_18  Methyltransferase domain
     0.0036   17.0   0.0     0.0055   16.4   0.0    1.2  1  Cons_hypoth95    Conserved hypothetical protein 95
     0.0043   16.8   0.0     0.0069   16.1   0.0    1.3  1  Methyltransf_16  Lysine methyltransferase
     0.0051   16.2   0.0     0.0075   15.6   0.0    1.2  1  Methyltransf_10  RNA methyltransferase
  ------ inclusion threshold ------
      0.011   15.3   0.1      0.041   13.4   0.1    2.0  2  CheR             CheR methyltransferase, SAM binding domain
      0.011   15.0   0.1       0.02   14.2   0.1    1.3  1  Ubie_methyltran  ubiE/COQ5 methyltransferase family
      0.065   12.6   0.0       0.15   11.4   0.0    1.6  1  GidB             rRNA small subunit methyltransferase G
      0.076   13.0   0.0       0.11   12.5   0.0    1.2  1  Methyltransf_32  Methyltransferase domain
       0.12   11.6   0.0       0.15   11.2   0.0    1.1  1  TRM              N2,N2-dimethylguanosine tRNA methyltransfera
       0.14   11.6   0.1       0.32   10.4   0.0    1.5  1  AviRa            RRNA methyltransferase AviRa


Domain annotation for each model (and alignments):
>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.7   0.0   5.8e-15   5.8e-12       2     120 ..     126     274 ..     125     293 .. 0.82

  Alignments for each domain:
  == domain 1  score: 45.7 bits;  conditional E-value: 5.8e-15
          Methyltransf_31   2 dkglrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielArenaqklgld.....nveFeqgdiee.leklledekfDlilsn 81 
                              +k++r++D+G+G+G +++ l  e +   +vv  Dis +a++lA+en  +l ++     n++F + d  e  e      +fD+ilsn
  PHY93_08195|PHY93_08195 126 NKTCRLIDVGTGSGIIALTLMMEDFATLDVVATDISDKALTLAKENFFNLRYTvsakhNISFLKRDRLEeVE-----GNFDIILSN 206
                              6899*********************9**************************999999******99999555.....89******* PP

          Methyltransf_31  82 ...............evlnaladpdkile.............eiervlkpggilliedpr.llaelpa 120
                                             +vl + ++++ +l              +i++ l+p+gi lie +  +l++l++
  PHY93_08195|PHY93_08195 207 ppyikclgdlasvhhQVLSYEPAMALFLDddlydlwfedffrSIHEKLTPEGISLIEGHEsHLEDLAD 274
                              888888877777777555333333333336666688888888*************9999844444443 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.3   0.0   1.3e-14   1.3e-11      31     112 ..     127     214 ..     109     231 .. 0.80

  Alignments for each domain:
  == domain 1  score: 44.3 bits;  conditional E-value: 1.3e-14
                              TCSEEEEET-TTSHHHHHHHHH.TTC.EEEEEESBHHHHHHHHHHHHHTTGC......EEEEE-STTTTSTTS-EEEEEE---STT CS
                      MTS  31 lsgkvlDlGcGaGvlgaalake.speaevtlvdvdarAlesakenleankle......vevvasdvleeveekkfdlivsNPPfha 109
                              ++ +++D+G+G G+++++l  e   +++v+++d++ +Al++aken+ + +        ++++++d leeve ++fd+i+sNPP+ +
  PHY93_08195|PHY93_08195 127 KTCRLIDVGTGSGIIALTLMMEdFATLDVVATDISDKALTLAKENFFNLRYTvsakhnISFLKRDRLEEVE-GNFDIILSNPPYIK 211
                              55579***********998765157778*****************987766656677799***********.***********977 PP

                              TCH CS
                      MTS 110 gka 112
                                 
  PHY93_08195|PHY93_08195 212 CLG 214
                              665 PP

>> PrmA  Ribosomal protein L11 methyltransferase (PrmA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.2   0.0   8.5e-12   8.5e-09     151     233 ..     117     206 ..     114     215 .. 0.79

  Alignments for each domain:
  == domain 1  score: 35.2 bits;  conditional E-value: 8.5e-12
                     PrmA 151 clealeklvkegeevlDvGtGSGiLaiaaa..kLgakkvvavDiDevAvkvakeNaelN...kveaklev.alseellk..eekad 228
                              +le+  ++ +++ +++DvGtGSGi+a+  +   +++ +vva+Di + A++ akeN+  N    v+ak ++ +l+++ l+  e+++d
  PHY93_08195|PHY93_08195 117 SLEIQKNYRNKTCRLIDVGTGSGIIALTLMmeDFATLDVVATDISDKALTLAKENFF-NlryTVSAKHNIsFLKRDRLEevEGNFD 201
                              5677778888999***********9887651168999******************84.32346666555524667776556899** PP

                     PrmA 229 vivaN 233
                              +i++N
  PHY93_08195|PHY93_08195 202 IILSN 206
                              **999 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.9   0.0   5.8e-09   5.7e-06       2      71 ..     132     206 ..     131     225 .. 0.78

  Alignments for each domain:
  == domain 1  score: 26.9 bits;  conditional E-value: 5.8e-09
                              EEET-TTSHHHHHHHCTS.TSSEEEEEESSHHHHHHHHHHHHHTTT......TEEEEESBCCGBSSSTTTEEEEEEE CS
          Methyltransf_25   2 LdlGcGtGrltlalakrl.gkakvtgvDiseemleaareraeeegl......nvefvqgdaedlpfedgsfDlvvss 71 
                              +d+G+G+G ++l l  +     +v+++Dis+++l  a+e++ + ++      n++f++ d  +l++ +g fD+++s+
  PHY93_08195|PHY93_08195 132 IDVGTGSGIIALTLMMEDfATLDVVATDISDKALTLAKENFFNLRYtvsakhNISFLKRD--RLEEVEGNFDIILSN 206
                              69*******999887663368********************8844433444466666666..6888999*****995 PP

>> UPF0020  Putative RNA methylase family UPF0020
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.9   0.0   5.8e-08   5.8e-05      70     138 ..     146     216 ..     110     225 .. 0.74

  Alignments for each domain:
  == domain 1  score: 22.9 bits;  conditional E-value: 5.8e-08
                              HHHHHHH--EEEEES-HHHHHHHHHHHH..HTT-GGGEEEEE--GGG--STTS---EEEE----------H CS
                  UPF0020  70 eeearaelklygsDldrrvvqgareNae..kagvgdliefsqadaakLrlkegevdvivtnpPYGerlgsk 138
                                e  a+l +++ D+  ++++ a+eN    +++v+ + ++s ++   L++ eg++d+i++npPY + lg+ 
  PHY93_08195|PHY93_08195 146 MMEDFATLDVVATDISDKALTLAKENFFnlRYTVSAKHNISFLKRDRLEEVEGNFDIILSNPPYIKCLGDL 216
                              4444477889****************751168899999999999********************9998875 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.0   2.8e-07   0.00027       2      68 ..     133     206 ..     132     262 .. 0.79

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 2.8e-07
                              EET-TTSHHHHHHH.HTT..SEEEEEES-HHHHHHHHHHCCHHT-......EEEETTEECCCTSS-TT-EEEEEEE CS
          Methyltransf_11   2 dvGcGtGrlaeala.krg..arvvgvDlskemlklakekaseegl......kvefvvadaeklpfednsfDlvvss 68 
                              dvG+G+G++a  l+ + +   +vv++D+s+++l+lake+  + +       +++f++ d   l   ++ fD+++s+
  PHY93_08195|PHY93_08195 133 DVGTGSGIIALTLMmEDFatLDVVATDISDKALTLAKENFFNLRYtvsakhNISFLKRDR--LEEVEGNFDIILSN 206
                              9************98444599*******************99998776665555555443..33456788888886 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.0     1e-06     0.001      19      89 ..     124     206 ..     106     280 .. 0.66

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 1e-06
          Methyltransf_23  19 klraggrvLdiGcGtG.illevlrengf..svtgvDlspeaveiae..........kakkaqkdqfdeqeaaepqgkfdlIvlr 89 
                              ++++  r++d+G+G+G i l ++ e ++  +v++ D+s++a  +a+          +ak +++    ++  +e +g fd+I ++
  PHY93_08195|PHY93_08195 124 YRNKTCRLIDVGTGSGiIALTLMMEDFAtlDVVATDISDKALTLAKenffnlrytvSAKHNISFLK-RDRLEEVEGNFDIILSN 206
                              3666669*********54555555554458*********999999888886666653333333322.22335555677777665 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.3   0.0   1.4e-06    0.0014       2      88 ..     133     222 ..     132     226 .. 0.80

  Alignments for each domain:
  == domain 1  score: 19.3 bits;  conditional E-value: 1.4e-06
          Methyltransf_12   2 eiGcGtGsllrallekl.pdieytgvDispsaiedakeklakrennnnnnvelealdlldldgg.ssfDlvvas.nvlhhlkdire 84 
                              ++G+G+G ++  l  +   +++++++Dis +a++ ake +   +    ++ ++  l  + l++  + fD+++++   + +l d+++
  PHY93_08195|PHY93_08195 133 DVGTGSGIIALTLMMEDfATLDVVATDISDKALTLAKENFFNLRYTVSAKHNISFLKRDRLEEVeGNFDIILSNpPYIKCLGDLAS 218
                              9******99999887777***************999999988888777777776666555555567*****998777777777776 PP

          Methyltransf_12  85 vldn 88 
                              v ++
  PHY93_08195|PHY93_08195 219 VHHQ 222
                              6655 PP

>> Methyltransf_18  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.0   1.2e-06    0.0012      13      79 ..     126     197 ..     118     205 .. 0.74

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 1.2e-06
          Methyltransf_18  13 ekgsrvaDiGtDHgylpiylvkegkak.kviasDinegplekakeniekagl....edkievrlsdGleklk 79 
                              +k+ r++D+Gt  g++++ l+ e+ a+  v+a+Di++++l+ aken  + ++    +++i++   d le+++
  PHY93_08195|PHY93_08195 126 NKTCRLIDVGTGSGIIALTLMMEDFATlDVVATDISDKALTLAKENFFNLRYtvsaKHNISFLKRDRLEEVE 197
                              45569**************9988766538*****************98754422335577777777777775 PP

>> Cons_hypoth95  Conserved hypothetical protein 95
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.0   5.6e-06    0.0055      40     127 ..     126     213 ..     112     233 .. 0.76

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 5.6e-06
                              HCC-EEEETT-TTSHHHHHHHHTT-S..EEEEEES-HHHHHHHHHHHCCCT--TTTEEEEES-HHHHCTS--SS-EEEEEEE--SS CS
            Cons_hypoth95  40 iegarvLDlfaGsGalglEAlSRgak..kavlvekdkeavkilkenleelkleeetaelkedaleallklakkkeefdivflDPPy 123
                               + +r++D+  GsG ++l  +  + +   +v+ + +++a+++ ken  +l+ +   ++  + ++ + ++l + +++fdi+  +PPy
  PHY93_08195|PHY93_08195 126 NKTCRLIDVGTGSGIIALTLMMEDFAtlDVVATDISDKALTLAKENFFNLRYTV--SAKHNISFLKRDRLEEVEGNFDIILSNPPY 209
                              4667889999999988888888776522689999*****************774..44444445555566677889********** PP

                              STTC CS
            Cons_hypoth95 124 akel 127
                               k l
  PHY93_08195|PHY93_08195 210 IKCL 213
                              8865 PP

>> Methyltransf_16  Lysine methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   6.9e-06    0.0069      40     125 ..     121     204 ..     105     233 .. 0.77

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 6.9e-06
          Methyltransf_16  40 lganelsklsvlELGsGtGlvGlavaell.peakviltDlee.llellkknielnknalkskvkvevLdWgeeleedllekeevDl 123
                              +++ + ++++ +++G G+G++ l++       ++v+ tD+++ +l l k+n    + +++ k +++ L+  ++l e++  + ++D+
  PHY93_08195|PHY93_08195 121 QKNYRNKTCRLIDVGTGSGIIALTLMMEDfATLDVVATDISDkALTLAKENFFNLRYTVSAKHNISFLKR-DRL-EEV--EGNFDI 202
                              456678899***************999955**********987899999997655556777777777765.445.444..345677 PP

          Methyltransf_16 124 il 125
                              il
  PHY93_08195|PHY93_08195 203 IL 204
                              66 PP

>> Methyltransf_10  RNA methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   7.6e-06    0.0075      97     193 ..     122     215 ..      98     225 .. 0.71

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 7.6e-06
                              GSGTTS--EEEEES-TTTTHHHHHHHHH.H--EEEEEES-HHHHHHHHHHHHHT.T-TTTEEEEE--TT-SC.CHHSSTTSS-EEE CS
          Methyltransf_10  97 dsdisaqvraldiGvGanCiyPllGvte.yGWrfvgsevddvslasakaivesnsklsdaiklrkqkekkai.fdglieenerydv 180
                              ++  +++ r +d+G+G+  i   l +++      v+++++d++l+ ak +   n  l  +  +  +++ + +  d l e++ ++d+
  PHY93_08195|PHY93_08195 122 KNYRNKTCRLIDVGTGSGIIALTLMMEDfATLDVVATDISDKALTLAKENFF-N--LRYT--VSAKHNISFLkRDRLEEVEGNFDI 202
                              33344689**********9976555555157899************998764.2..3333..33333433331567777888**** PP

                              EEE-S---SS--- CS
          Methyltransf_10 181 tlCnPPfhaslae 193
                               l nPP+   l +
  PHY93_08195|PHY93_08195 203 ILSNPPYIKCLGD 215
                              ******9887665 PP

>> CheR  CheR methyltransferase, SAM binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.1   4.1e-05     0.041      23     101 ..     119     187 ..     107     203 .. 0.73
   2 ?   -3.0   0.0       4.2   4.2e+03     159     184 ..     248     274 ..     245     281 .. 0.70

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 4.1e-05
                              HHHHHHTSSSEEEEEES-TTTHHHHHHHHHHHCHSTTTSSS-EEEEEEESSCHHHHHHHHTEEECCHHTTS-HHHHHHH CS
                     CheR  23 llakaknekrvriwsagcssGeEpYslAmllketlpkaaklkvkilAtDidlkvlekAkagvykeeeleglseellery 101
                              +++k+ ++k+ r+  +g +sG     +A++l +  ++ a   ++++AtDi+ k+l+ Ak+ +++ +    +s+++   +
  PHY93_08195|PHY93_08195 119 EIQKNYRNKTCRLIDVGTGSGI----IALTLMM--EDFAT--LDVVATDISDKALTLAKENFFNLRYT--VSAKHNISF 187
                              4556666677888888888885....6666666..55555..99*****************9987655..555555555 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 4.2
                              HHHHCCEEEEEE.EEE-TTB--SSSCC CS
                     CheR 159 erfaeklkpggl.LllGhsEslkklkd 184
                              + ++ekl p+g+ L+ Gh  +l++l d
  PHY93_08195|PHY93_08195 248 RSIHEKLTPEGIsLIEGHESHLEDLAD 274
                              678999999997355577777776655 PP

>> Ubie_methyltran  ubiE/COQ5 methyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.1     2e-05      0.02      47     120 ..     127     203 ..     115     206 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 2e-05
                              -TTEEEEES-TT-HHHHHHHHHHHHHHEEEEEES-HHHHHHHHHHHHHHTSS.....TEEEEE--TTT-TTS-T-EEEE CS
          Ubie_methyltran  47 rgakvlDvagGtgDlafklsdsvgekgkvvvlDinenmLkvgekklkeegki.....nieflqanaeeLpfeddsfDvv 120
                              +  +++Dv +G+g +a++l+ +  ++ +vv  Di+++ L  +++   +  ++     ni fl+    +L++ ++ fD++
  PHY93_08195|PHY93_08195 127 KTCRLIDVGTGSGIIALTLMMEDFATLDVVATDISDKALTLAKENFFNLRYTvsakhNISFLKR--DRLEEVEGNFDII 203
                              45589*************************************9976654433334449999986..5788999999986 PP

>> GidB  rRNA small subunit methyltransferase G
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00015      0.15      36     120 ..     115     204 ..     102     207 .. 0.65

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00015
                              HHHHHHGGCS-CCC-.EEEETSTTTTTHHHHHHH-.TTSEEEEEES-HH.....HHHHHHHHHHHCT-SSEEEEE.S-CCCTTTTT CS
                     GidB  36 ldslsvlellkekrdkviDvGsGaGlPGipLaiar.pelkltLleslek.....kiaFLeevkeelklenveive.araeekqeee 114
                              l sl++ + + +k  ++iDvG+G G+ ++ L + + ++l ++  + + k     k +F +   +  + +n+ +++ +r+ee   e 
  PHY93_08195|PHY93_08195 115 LASLEIQKNYRNKTCRLIDVGTGSGIIALTLMMEDfATLDVVATDISDKaltlaKENFFNLRYTVSAKHNISFLKrDRLEE--VEG 198
                              4567777777777768*********97777666531344455555555533333666777777777777777775256777..777 PP

                              -EEEEE CS
                     GidB 115 kydvvt 120
                              ++d+++
  PHY93_08195|PHY93_08195 199 NFDIIL 204
                              777776 PP

>> Methyltransf_32  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   0.00011      0.11      13      74 ..     116     175 ..     106     199 .. 0.74

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 0.00011
          Methyltransf_32  13 vakllkelakesgaltvvDvGaGkgYLsfvlalkekeyklkvvgidakeelvekaekraekl 74 
                               +  +++ + +++ ++++DvG G g  + +l   e    l vv+ d++++  + a++   +l
  PHY93_08195|PHY93_08195 116 ASLEIQK-NYRNKTCRLIDVGTGSGIIALTLMM-EDFATLDVVATDISDKALTLAKENFFNL 175
                              4444444.467889****************999.44479********999887776655544 PP

>> TRM  N2,N2-dimethylguanosine tRNA methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   0.00015      0.15      41      96 ..     119     175 ..      96     207 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00015
                              HHHHHHH-S-EEEEESS-TTSHHHHHHHHH-S-EEEEEEE-S-HHHHHHHHHH.HHH CS
                      TRM  41 ellkkklgekikvldaLsasGlRaiRfalEvpgvkevlaNDisekAvelikeN.vkl 96 
                              e++k+  ++  +++d  ++sG+ a+   +E   +  v+a Dis+kA+ l keN ++l
  PHY93_08195|PHY93_08195 119 EIQKNYRNKTCRLIDVGTGSGIIALTLMMEDFATLDVVATDISDKALTLAKENfFNL 175
                              44444444557999999*************999********************4333 PP

>> AviRa  RRNA methyltransferase AviRa
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0   0.00032      0.32      44     101 ..     118     174 ..     105     188 .. 0.74

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00032
                    AviRa  44 ellekkeegapltlyDpCCGgayLltvlgllhgkkikkvlasDvdeevlelakkNLsL 101
                                ++k+ ++++++l D   G++ ++ +l +    +  +v+a+D+++++l+lak+N+  
  PHY93_08195|PHY93_08195 118 LEIQKNYRNKTCRLIDVGTGSGIIALTLMM-EDFATLDVVATDISDKALTLAKENFFN 174
                              3345566668999*********98777654.444555899***************755 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (300 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       460  (0.0256568); expected 358.6 (0.02)
Passed bias filter:                      424  (0.0236488); expected 358.6 (0.02)
Passed Vit filter:                        60  (0.00334653); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              18  [number of targets reported over threshold]
# CPU time: 0.60u 0.28s 00:00:00.88 Elapsed: 00:00:00.44
# Mc/sec: 2037.41
//
Query:       PHY93_08200|PHY93_08200  [L=414]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
   2.3e-102  342.8   2.8   2.6e-102  342.7   2.8    1.0  1  EPSP_synthase  EPSP synthase (3-phosphoshikimate 1-carboxyvin
  ------ inclusion threshold ------
        0.1   12.5   0.4         11    6.0   0.0    3.3  4  PTCB-BRCT      twin BRCT domain


Domain annotation for each model (and alignments):
>> EPSP_synthase  EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  342.7   2.8  2.9e-106  2.6e-102       2     416 ..       7     403 ..       6     404 .. 0.96

  Alignments for each domain:
  == domain 1  score: 342.7 bits;  conditional E-value: 2.9e-106
                              ECSS--EEEEE--B-HHHHHHHHHHHGGGBSS.EEEES---SHHHHHHHHHHHHTT.EEEEEECTSEEEEEGTT..--EE-HHHHT CS
            EPSP_synthase   2 ekgkrlegevkvpGsksisnralllAaLaege.stitnlLdseDvrsmlealreLgaeiikldeekevviveglggsfeapeelvl 86 
                              +++  l+g+v+++  ++++ +++l+A L++++   ++n++d++D+++m+++l +Lg+++ik    + ++ ++++ +s ea ++lv+
  PHY93_08200|PHY93_08200   7 TGPCTLSGSVRISR-AKNAYLPILAAVLLSDKpIHLKNIPDLQDIKTMIKLLSNLGVQVIKN--GNITTFDASTLNSHEATYDLVK 89 
                              567789********.*****************9***********************988777..6788888888************ PP

                              T-GGGGGGHHHHHHHHSEESSEEEEE-SBTTCGS--HHHHHHHHHTT-EEEEETTEEEEEESEETSS-BEEEEETSSTTHHHHHHH CS
            EPSP_synthase  87 dlgnsgtalrlLtallalasgevvLtGdesirkRPidrlldaLrqlGaeieveegenkaplkvkglklkgveikaevsSqqvtsll 172
                              ++++s+ +l++L+a+l++a  +v+L+G+++i++RPid +l+ L++lG ei ++ g+++a++k    k++ +++ + ++S+++t++l
  PHY93_08200|PHY93_08200  90 TMRASIFVLGPLLARLGKA--KVSLPGGCAIGTRPIDLHLTNLEKLGCEITLHAGYVEASVK----KMQPTSLTLAFPSVGATENL 169
                              *****************98..9***************************************9....******************** PP

                              HHHHTTSBSEEEEES-TTHHHHHHHHHHHHHTT-EEEETTSSEEEEEE--SSB--EEEE--B-HHHHHHHHHHHHHTT-EEEEES- CS
            EPSP_synthase 173 llaallaegtteleelasepsiddtlkmlkkfgikietsgteesitvkGkeklpgteyvvegDassAayflvaAaitggevtvenv 258
                              ++a++++eg t++ ++a ep+idd++++l+++g+ki++ gt++ + ++G+++ ++++y+ +gD+++Aa++l+aA+ tg+++t+e+v
  PHY93_08200|PHY93_08200 170 IMASVFTEGVTTIDNAALEPEIDDLAHFLNAMGAKITGIGTQK-VVIEGVKSFKEVTYEAIGDRIEAATYLMAALATGSNITIEGV 254
                              **************************************99998.********9999****************************** PP

                              -GGGGHHH..HHHHHHHHTTEEEEEESTSEEEEEETTS--BEEEEEBGSTTSBHGGGHHHHHHHHHTSBSEEEEEGSSSTTCCHHH CS
            EPSP_synthase 259 ginslqGdiealdeilekmgaeitqeedasivvgpsglklkdvdietlpdeaptlavlaafaegttviegiaelrvketdrlaama 344
                              +  +lq     ++++l+kmga+i+++e ++i v +   +lk +++ t+p ++++++++a+++++ t ++gi+ +++++++++++++
  PHY93_08200|PHY93_08200 255 KSRHLQ----YVIDVLKKMGAKIETTE-DTIMVYK--SELKGCQVDTAPFPGFPTDAQAQMIALCTQVKGISVITENIFENRFMHV 333
                              ******....7778*************.6666666..489999999**************************************** PP

                              HHHHTTT-EEEEETTEEEEEEEEE.EB-EEEE-TTSTTTTHHHHHHHHHSBSEEEEETTHHHHHHSSSHHHH CS
            EPSP_synthase 345 teLrklGaeveeeedgliiipaekqlkgaevesydDhRiamalalaglvaegeveiddiectdksfpefeek 416
                               eL +lGa+++ +    ii++++  l+ a ++++ D+R+++al++a+l+ +g++e ++++++d+++++ eek
  PHY93_08200|PHY93_08200 334 PELIRLGADITLKGKLAIIEGGAP-LSAAPIMCT-DLRASAALIIAALATKGDTELQRVYHLDRGYEKLEEK 403
                              *************99888888887.*********.*********************************9997 PP

>> PTCB-BRCT  twin BRCT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0      0.36   3.3e+03      13      30 ..      50      67 ..      41      72 .. 0.77
   2 ?    2.2   0.0     0.019   1.7e+02      13      33 ..     191     211 ..     179     214 .. 0.79
   3 ?    6.0   0.0    0.0012        11       3      30 ..     249     276 ..     247     279 .. 0.92
   4 ?   -1.6   0.0       0.3   2.7e+03      13      28 ..     397     412 ..     390     413 .. 0.80

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 0.36
                             HHHHHHHHHHTT-EEESS CS
                PTCB-BRCT 13 rkslqklieamGaeyskd 30
                              k++ kl++ +G ++ k+
  PHY93_08200|PHY93_08200 50 IKTMIKLLSNLGVQVIKN 67
                             678889999999999886 PP

  == domain 2  score: 2.2 bits;  conditional E-value: 0.019
                              HHHHHHHHHHTT-EEESSEET CS
                PTCB-BRCT  13 rkslqklieamGaeyskdltk 33 
                               ++l + ++amGa++++  t+
  PHY93_08200|PHY93_08200 191 IDDLAHFLNAMGAKITGIGTQ 211
                              67899999*******986555 PP

  == domain 3  score: 6.0 bits;  conditional E-value: 0.0012
                              EEEECB-TTCHHHHHHHHHHTT-EEESS CS
                PTCB-BRCT   3 icvtgysgddrkslqklieamGaeyskd 30 
                              i+++g+++  ++++ + +++mGa++ ++
  PHY93_08200|PHY93_08200 249 ITIEGVKSRHLQYVIDVLKKMGAKIETT 276
                              8999********************9875 PP

  == domain 4  score: -1.6 bits;  conditional E-value: 0.3
                              HHHHHHHHHHTT-EEE CS
                PTCB-BRCT  13 rkslqklieamGaeys 28 
                               ++l++  +++Ga+++
  PHY93_08200|PHY93_08200 397 YEKLEEKFSQLGAKIK 412
                              57899999*****996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (414 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       652  (0.0363657); expected 358.6 (0.02)
Passed bias filter:                      554  (0.0308997); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.60u 0.35s 00:00:00.95 Elapsed: 00:00:00.45
# Mc/sec: 2761.28
//
Query:       PHY93_08205|PHY93_08205  [L=112]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.5e-22   77.9   0.7    8.4e-22   77.7   0.7    1.0  1  HIT              HIT domain
    1.6e-13   51.2   0.2    1.8e-13   50.9   0.2    1.0  1  DcpS_C           Scavenger mRNA decapping enzyme C-term bindi
  ------ inclusion threshold ------
      0.059   13.3   0.0        0.1   12.5   0.0    1.4  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
      0.083   12.7   0.0        0.1   12.4   0.0    1.1  1  Ssl1             Ssl1-like


Domain annotation for each model (and alignments):
>> HIT  HIT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.7   0.7   1.9e-25   8.4e-22       1      96 [.      12     107 ..      12     109 .. 0.96

  Alignments for each domain:
  == domain 1  score: 77.7 bits;  conditional E-value: 1.9e-25
                              TGCC-CCEEEE-SSEEEEE-SS-SSSSEEEEEESSTGCSGGGCC..HHHHHHHHHHHHHHHHHHHTCTTCCCEEEEEEESGGGT-S CS
                      HIT   1 ekeipstvvyeddlvlafldidpkapghlLvipkkhlselhdlt..eeelakllsavkkvakalqkkfknkglrvvinngahagqs 84 
                              ++eip+++v+e+++v+ f+di p+a++hlL + kkh++++++++  +e++a+++  + +  k  +   +++g+r+v+n+g++agq+
  PHY93_08205|PHY93_08205  12 KGEIPAQKVFENEHVFGFVDIHPQAKIHLLFVHKKHTANINEMSgdPEAIAQMFHGIAQYTKGHEL--SKNGYRIVTNQGPDAGQT 95 
                              589******************************************9***********999999988..789*************** PP

                              SSS-EEEEEEC- CS
                      HIT  85 vahlHiHviprr 96 
                              v h H+H+++++
  PHY93_08205|PHY93_08205  96 VLHTHFHIVGGE 107
                              *********986 PP

>> DcpS_C  Scavenger mRNA decapping enzyme C-term binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.9   0.2   4.1e-17   1.8e-13       1     101 [.       4     105 ..       4     111 .. 0.92

  Alignments for each domain:
  == domain 1  score: 50.9 bits;  conditional E-value: 4.1e-17
                              T-HHHHHHTTSS-B-EEEE-SSEEEEE-SS-SSSEEEEEEESS---SGGG--TTTTTHHHHHHHHHHHHHHHTT-T..-EEEEE-- CS
                   DcpS_C   1 kwvfnilakgkepervvyedekfvvlkDikpkaklhllvipkrdikslrdLtkehlpllkemrekakkvieekyne..vdaeelrv 84 
                              +++f+++akg++p++ v+e+e++  + Di p+ak+hll + k++ +++++++  + + +++m++ + +  + +  +  +++   + 
  PHY93_08205|PHY93_08205   4 NCLFCKIAKGEIPAQKVFENEHVFGFVDIHPQAKIHLLFVHKKHTANINEMS-GDPEAIAQMFHGIAQYTKGHELSknGYRIVTNQ 88 
                              69*************************************************8.678999***********8876446688888999 PP

                              SCCCT--S-S--EEEEE CS
                   DcpS_C  85 gvhyqPsvyhlHlHvis 101
                              g  + ++v h H+H++ 
  PHY93_08205|PHY93_08205  89 GPDAGQTVLHTHFHIVG 105
                              999999*********96 PP

>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   2.3e-05       0.1      26      63 ..      10      47 ..       1      50 [. 0.86

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 2.3e-05
          Acetyltransf_10 26 ieegealllvaeeggkivGvielrdgshisllfVdpey 63
                             i++ge     ++e++ + G++ +  + +i+llfV++++
  PHY93_08205|PHY93_08205 10 IAKGEIPAQKVFENEHVFGFVDIHPQAKIHLLFVHKKH 47
                             567777788899***********9999*********98 PP

>> Ssl1  Ssl1-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   2.3e-05       0.1      27      85 ..      24      81 ..      15      90 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 2.3e-05
                             HHHHHHHHHSTT-EEEEEEEETTEEEEEEEEES-HHHHHHHHHHHTTS---S---HHHH CS
                     Ssl1 27 efveeffdqnPisqlgliavkdkkaekltelsGnprkhikaLkslreveakgepsLqna 85
                             e v  f d  P +++ l+ v++k+  ++ e+sG+p+   +  + +++ + kg+   +n+
  PHY93_08205|PHY93_08205 24 EHVFGFVDIHPQAKIHLLFVHKKHTANINEMSGDPEAIAQMFHGIAQYT-KGHELSKNG 81
                             5677899*********************************999999554.444444555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (112 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       394  (0.0219756); expected 358.6 (0.02)
Passed bias filter:                      339  (0.0189079); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.47u 0.29s 00:00:00.76 Elapsed: 00:00:00.43
# Mc/sec: 776.50
//
Query:       PHY93_08210|PHY93_08210  [L=361]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
       0.11   12.3   0.6       0.76    9.5   0.0    2.1  2  Collectrin  Renal amino acid transporter


Domain annotation for each model (and alignments):
>> Collectrin  Renal amino acid transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.0   4.2e-05      0.76      21      85 ..     153     217 ..     141     225 .. 0.86
   2 ?    0.4   0.2     0.028     5e+02      41      84 ..     283     327 ..     274     343 .. 0.74

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 4.2e-05
               Collectrin  21 eneeylfkasvayamrkylseeknqtvefevenvlvlnetqrvSfwfvvtspknesklvpkeeve 85 
                              +++ +lfk  + y ++   ++  ++ v+f+ +++ + +  +   f+f+ ++  + +  v+ ++ e
  PHY93_08210|PHY93_08210 153 DTDNFLFKDKIYYLLSASKTNLLENDVHFSQQKISLGDAFNEKMFTFFSNQILELEVNVEYSQKE 217
                              6899*****************99*******************99***999888777777666655 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.028
               Collectrin  41 eeknqtvefeve.nvlvlnetqrvSfwfvvtspknesklvpkeev 84 
                                k+q+ +f+v  n+  l +t+r S+ ++ ++++  sk+v++ e+
  PHY93_08210|PHY93_08210 283 PVKEQNGNFKVIlNLKKLIKTERASIQIYQNTQHPISKTVQAVEM 327
                              456677777754488889999999999999999999999887655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (361 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       638  (0.0355848); expected 358.6 (0.02)
Passed bias filter:                      365  (0.0203581); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.28s 00:00:00.84 Elapsed: 00:00:00.46
# Mc/sec: 2360.04
//
Query:       PHY93_08215|PHY93_08215  [L=247]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (247 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       710  (0.0396006); expected 358.6 (0.02)
Passed bias filter:                      424  (0.0236488); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.54u 0.27s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 1621.71
//
Query:       PHY93_08220|PHY93_08220  [L=197]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0017   18.9   0.1        1.2    9.8   0.1    2.8  3  VCBS      Repeat domain in Vibrio, Colwellia, Bradyrhizobium 
  ------ inclusion threshold ------
      0.063   13.0   0.0        1.3    8.8   0.0    2.3  2  PliI      Periplasmic lysozyme inhibitor of I-type lysozyme


Domain annotation for each model (and alignments):
>> VCBS  Repeat domain in Vibrio, Colwellia, Bradyrhizobium and Shewanella
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.9   0.0    0.0021        19      47      60 ..      37      50 ..       8      75 .. 0.82
   2 !    6.4   0.0    0.0015        13      25      61 .]     141     177 ..     114     177 .. 0.70
   3 !    9.8   0.1   0.00013       1.2       1      30 [.     166     195 ..     166     197 .] 0.96

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.0021
                     VCBS 47 avgDlDgDGdlDll 60
                             +++Dl++DG ++ +
  PHY93_08220|PHY93_08220 37 YAVDLNHDGNPEQI 50
                             58899999988755 PP

  == domain 2  score: 6.4 bits;  conditional E-value: 0.0015
                     VCBS  25 gdGtftdvtktslggsgggtgvavgDlDgDGdlDllv 61 
                              g   f++  + +++ + +++ v++ Dl++D   +l+v
  PHY93_08220|PHY93_08220 141 GPSFFEEHKSLKGHYHLRNYQVYLQDLNNDQVKELIV 177
                              444455555555555667778**********999987 PP

  == domain 3  score: 9.8 bits;  conditional E-value: 0.00013
                     VCBS   1 DldgDGrlDlvvandgglrvyrnngdGtft 30 
                              Dl++D   +l+v ++ + +v+++ gdG+++
  PHY93_08220|PHY93_08220 166 DLNNDQVKELIVKYRLTSQVFLYGGDGKWK 195
                              9***************************97 PP

>> PliI  Periplasmic lysozyme inhibitor of I-type lysozyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   0.0      0.02   1.8e+02      63      80 ..      37      54 ..       3      63 .. 0.80
   2 ?    8.8   0.0   0.00015       1.3      61      81 ..     161     181 ..     146     187 .. 0.87

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.02
                             EEE-SSSSSS-EEEEEEE CS
                     PliI 63 kladvngdkkkelvvlkr 80
                             + +d+n d+++e +v ++
  PHY93_08220|PHY93_08220 37 YAVDLNHDGNPEQIVFVK 54
                             678*********999875 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.00015
                              EEEEE-SSSSSS-EEEEEEE- CS
                     PliI  61 evkladvngdkkkelvvlkrs 81 
                              +v+l d+n+d+ kel+v  r 
  PHY93_08220|PHY93_08220 161 QVYLQDLNNDQVKELIVKYRL 181
                              689**************9875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (197 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       587  (0.0327403); expected 358.6 (0.02)
Passed bias filter:                      394  (0.0219756); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.25s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 1305.75
//
Query:       PHY93_08225|PHY93_08225  [L=152]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (152 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       559  (0.0311785); expected 358.6 (0.02)
Passed bias filter:                      431  (0.0240393); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.26s 00:00:00.72 Elapsed: 00:00:00.42
# Mc/sec: 1075.03
//
Query:       PHY93_08230|PHY93_08230  [L=629]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.9e-37  128.2   0.1    5.7e-17   62.5   0.1    3.7  3  ABC_tran      ABC transporter
    7.2e-10   39.2  24.8    0.00017   21.5   0.4    4.9  5  AAA_21        AAA domain, putative AbiEii toxin, Type IV TA s
    9.1e-08   31.8   4.9     0.0048   16.4   0.8    4.1  3  SMC_N         RecF/RecN/SMC N terminal domain
    2.7e-06   27.3   5.2    3.2e-05   23.9   0.4    2.8  2  ABC_tran_Xtn  ABC transporter
    7.7e-06   26.1  10.1    7.7e-06   26.1  10.1    2.3  1  ABC_tran_CTD  ABC transporter C-terminal domain
      5e-05   23.3   0.0       0.66   10.1   0.0    3.0  2  MMR_HSR1      50S ribosome-binding GTPase
    6.8e-05   22.5   0.7       0.28   10.9   0.0    2.6  2  AAA_29        P-loop containing region of AAA domain
      0.002   17.5   0.0      0.012   14.8   0.0    2.5  3  KAP_NTPase    KAP family P-loop domain
     0.0021   18.3   0.6       0.14   12.4   0.1    3.0  2  Roc           Ras of Complex, Roc, domain of DAPkinase
     0.0034   16.4   0.4        1.1    8.1   0.1    2.4  2  MeaB          Methylmalonyl Co-A mutase-associated GTPase Mea
     0.0047   17.5   0.8       0.27   11.8   0.0    3.1  2  AAA_18        AAA domain
     0.0076   16.2   0.1       0.51   10.2   0.0    2.6  2  NACHT         NACHT domain
  ------ inclusion threshold ------
      0.016   15.6   0.0       0.11   12.9   0.0    2.4  3  AAA_16        AAA ATPase domain
      0.024   15.1   0.0       0.35   11.3   0.0    2.6  2  AAA           ATPase family associated with various cellular 
      0.026   14.0   0.1        9.1    5.7   0.1    2.8  2  Arf           ADP-ribosylation factor family
      0.027   14.8   0.1        7.1    7.1   0.0    2.9  2  RNA_helicase  RNA helicase
      0.027   14.4   0.2        5.5    7.0   0.0    2.9  2  TIR-like      Predicted nucleotide-binding protein containing
      0.033   14.1   6.0       0.12   12.3   0.2    3.1  3  RsgA_GTPase   RsgA GTPase
       0.05   13.7   4.9       0.39   10.8   0.0    3.5  4  Dynamin_N     Dynamin family
      0.057   13.1   0.6       0.58    9.8   0.1    2.6  3  AAA_24        AAA domain
      0.069   13.2   0.2        3.9    7.5   0.2    2.6  2  TsaE          Threonylcarbamoyl adenosine biosynthesis protei
       0.13   11.8   1.4         17    4.9   0.1    3.3  3  FeoB_N        Ferrous iron transport protein B
       0.22   10.7   5.1       0.29   10.3   0.1    2.9  4  NB-ARC        NB-ARC domain
       0.24   11.5   1.6        4.8    7.3   0.7    2.7  2  Tantalus      Drosophila Tantalus-like
        5.2    6.9   5.9        1.4    8.8   0.3    2.7  3  NTPase_1      NTPase


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.8   0.0   2.6e-19   1.9e-16       3     137 .]      22     178 ..      20     178 .. 0.86
   2 !   62.5   0.1   7.9e-20   5.7e-17       2     137 .]     331     465 ..     330     465 .. 0.74
   3 ?   -0.7   0.1       2.7   1.9e+03      79     106 ..     541     586 ..     472     610 .. 0.65

  Alignments for each domain:
  == domain 1  score: 60.8 bits;  conditional E-value: 2.6e-19
                              EEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-T..TSBHHHH....... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxx....... RF
                 ABC_tran   3 nvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqepqlfp..eltvren....... 79 
                              + +++++ g +++++G nG GKStL+k+l+g   p+  +  ++ ++ + +  e  r ++ ++pqe  l     +t+++        
  PHY93_08230|PHY93_08230  22 KAHISVSVGDRIGLLGLNGKGKSTLFKILTGDIIPDHSSPPFEFNKARGDGDENKRFSLFYVPQELPLEGlgSITLKDYffvfype 107
                              6778999*********************************99988888889999***********55554004445555******* PP

                              ..................HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              ..................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ..................esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                                                ++ ++ e +l+ +gl++l+++v     + LSgG+++++ l   l + ++l+l+DEpt+
  PHY93_08230|PHY93_08230 108 lkivfeaslhqfeeqhgwDMVQNYESYLKYFGLEDLNKQV-----RDLSGGEQKKILLSLGLSSTANLILWDEPTN 178
                              ******99998887777555555999*******9966555.....8*****************************8 PP

  == domain 2  score: 62.5 bits;  conditional E-value: 7.9e-20
                              EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS.--S-TTSBHHHH....... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxx....... RF
                 ABC_tran   2 knvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqe.pqlfpeltvren....... 79 
                              +n+  ++++g+k++++G+nG GK+tLlkl+ ++l+p +G+++              + +i++++q+ +++ +e+t +         
  PHY93_08230|PHY93_08230 331 ENIVGEIHKGNKIGLLGNNGVGKTTLLKLIKHELSPVSGSMKT-----------ADNLQIQYFSQKrDEMESEMTPYLLlgdgsdf 405
                              577889***********************************44...........44555555555544444444433334555555 PP

                              .....HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              .....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 .....esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                                    s+++++ + +++  +    + +++  +++SgG+k+r++la  l k  ++l++DEpt+
  PHY93_08230|PHY93_08230 406 vilpdGSKKHVSSYFESFLFH---RDDIHRPLKTFSGGEKSRLQLALNLTKIGDILIFDEPTN 465
                              665555666666666555543...45555556******************************8 PP

  == domain 3  score: -0.7 bits;  conditional E-value: 2.7
                              H..................HHHTCHHHHHHHSTTGGTTCBGESTTS CS
                              x..................xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  79 n..................esdeeiekalsklglkelkdtvvkssp 106
                              n                  ++++++e++ + ++ +e k+++++++ 
  PHY93_08230|PHY93_08230 541 NplaqvelvvpktslklnnKEKKRLETIYEDIESTEGKTKIIEEKI 586
                              2444444444444444445666667777777776666666665554 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.8   0.4    0.0017       1.3       3      39 ..      34      64 ..      33      88 .. 0.72
   2 !   21.5   0.4   2.3e-07   0.00017     233     303 .]     146     210 ..     104     210 .. 0.83
   3 !   12.9   0.6    0.0001     0.074       3      21 ..     344     362 ..     343     416 .. 0.70
   4 !   11.8   1.0   0.00021      0.15     214     301 ..     415     495 ..     376     497 .. 0.73
   5 ?   -1.7   0.2       2.8     2e+03      80     135 ..     548     605 ..     526     615 .. 0.65

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.0017
                   AAA_21  3 vliGpNgsGKSnLLdaldllarldrdvegltdelsgg 39
                             +l G Ng GKS+L+++l       +d+++++++++  
  PHY93_08230|PHY93_08230 34 GLLGLNGKGKSTLFKIL------TGDIIPDHSSPPFE 64
                             689**************......67777777766333 PP

  == domain 2  score: 21.5 bits;  conditional E-value: 2.3e-07
                   AAA_21 233 parelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQviltTHSpllld 303
                              ++r+lS G ++ + l + l +++    l+l+DEp n+L+ + ++ + + l+++++    ++l TH+ +ll+
  PHY93_08230|PHY93_08230 146 QVRDLSGGEQKKILLSLGLSSTA---NLILWDEPTNHLDIESIKLFEDELNSTNK---AFMLITHDRFLLS 210
                              47899******************...89************999888888888877...********99985 PP

  == domain 3  score: 12.9 bits;  conditional E-value: 0.0001
                   AAA_21   3 vliGpNgsGKSnLLdaldl 21 
                              +l G Ng+GK++LL+++++
  PHY93_08230|PHY93_08230 344 GLLGNNGVGKTTLLKLIKH 362
                              699**************75 PP

  == domain 4  score: 11.8 bits;  conditional E-value: 0.00021
                   AAA_21 214 erlrergvvflengdgqelparelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQviltTHSp 299
                              +++ + +  fl + d+  +p+  +S G k+ l l++ l       ++l++DEp n L+ + +  l    ++l++  + vil +H+ 
  PHY93_08230|PHY93_08230 415 HVSSY-FESFLFHRDDIHRPLKTFSGGEKSRLQLALNLTKIG---DILIFDEPTNDLDLETIQILE---EKLTEFQGAVILISHDR 493
                              33333.78899999999**************99999999888...**************5555554...44444566999999985 PP

                   AAA_21 300 ll 301
                               +
  PHY93_08230|PHY93_08230 494 AF 495
                              55 PP

  == domain 5  score: -1.7 bits;  conditional E-value: 2.8
                   AAA_21  80 rsqv..eeklssvetllesgllldkrsleeedvfnpeargirggvsvfslkelsvsep 135
                                    + kl ++e++++ +++ d +s+e   + + e+  + +  +    k+ ++++ 
  PHY93_08230|PHY93_08230 548 LVVPktSLKLNNKEKKRLETIYEDIESTEGKTKIIEEKIANLDFTKLADPKNQELKIL 605
                              3333555577777888888888887777777777777777777666666666666655 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.9   0.1      0.35   2.5e+02      28      42 ..      34      48 ..      19      51 .. 0.81
   2 !    8.8   0.0    0.0014      0.97     134     205 ..     147     212 ..     104     225 .. 0.80
   3 !   16.4   0.8   6.6e-06    0.0048      19     207 ..     334     501 ..     326     512 .. 0.76

  Alignments for each domain:
  == domain 1  score: 0.9 bits;  conditional E-value: 0.35
                             EEEESTTSSHHHHHH CS
                             xxxxxxxxxxxxxxx RF
                    SMC_N 28 aivGpNGSGKsnlld 42
                              ++G NG GKs l+ 
  PHY93_08230|PHY93_08230 34 GLLGLNGKGKSTLFK 48
                             578********9975 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.0014
                              TTCS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTTSEEEEE-SSHHHCCC- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 134 kelLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkeksknaQfivislreemleka 205
                                 LSgGe++ + l+L ++    + a l l De   +LD + +k + + l++++    f+ i++++ +l+k 
  PHY93_08230|PHY93_08230 147 VRDLSGGEQKKILLSLGLS----STANLILWDEPTNHLDIESIKLFEDELNSTN--KAFMLITHDRFLLSKL 212
                              447******9887777765....6789***********************9887..6799999998887776 PP

  == domain 3  score: 16.4 bits;  conditional E-value: 6.6e-06
                              EEETTSSEE.EEEESTTSSHHHHHHHHHHHCTT.TTTTTTCHCCCCCC--BTTCSSTTEEEEEEEEEETTEESSSSSSCEEEEEEE CS
                              xxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N  19 ilpfsksft.aivGpNGSGKsnlldAilFvLGersakklrseklsdlihkskekasvkkaeveitfdnedkklkiekeevsisrrv 103
                              +++++k+ +  ++G+NG GK+ ll  i++ L+  s  +++ ++  ++ +  ++k+  ++ e++ ++   d +      +++i    
  PHY93_08230|PHY93_08230 334 VGEIHKGNKiGLLGNNGVGKTTLLKLIKHELSPVSG-SMKTADNLQIQY-FSQKRDEMESEMTPYLLLGDGS------DFVILPDG 411
                              555655543158899999999999999999997777.888777666544.4788888888888877666666......67777777 PP

                              ETTSEEEEEETTEEE-HHHHHHHHHCTT-STTCS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 104 krkgeseykingkevtkkevsellesagiskelLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkekskn 189
                              ++k  s+y ++    ++ ++++ l+       ++SgGek+ + laL       k   + ++De    LD + ++++ e l e +  
  PHY93_08230|PHY93_08230 412 SKKHVSSY-FESFLFHRDDIHRPLK-------TFSGGEKSRLQLALN----LTKIGDILIFDEPTNDLDLETIQILEEKLTEFQ-- 483
                              77777665.5788888899998887.......58*****97666665....56777899*********************9999.. PP

                              SEEEEE-SSHHHCCC-SC CS
                              xxxxxxxxxxxxxxxxxx RF
                    SMC_N 190 aQfivislreemlekadk 207
                                +i is+++ +l+ + +
  PHY93_08230|PHY93_08230 484 GAVILISHDRAFLSTVTN 501
                              889******999988754 PP

>> ABC_tran_Xtn  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.9   0.4   4.5e-08   3.2e-05       1      63 [.     217     281 ..     217     301 .. 0.78
   2 ?    4.8   0.5     0.041        29       3      75 ..     506     574 ..     504     586 .. 0.72

  Alignments for each domain:
  == domain 1  score: 23.9 bits;  conditional E-value: 4.5e-08
             ABC_tran_Xtn   1 velengklteYkGnYseyleekeerleqqqkayekqqkeikkleefIerfra.kakkak.qaqsr 63 
                              +++++g++++++G Y++yl   e+ ++ + +  +k ++ ++++++++++  + +++++k +++s 
  PHY93_08230|PHY93_08230 217 FHIQHGRIESFSGSYTDYLSFLEKSEQSKLRLLDKLKNNLEREQAWMRQGIKaRGTRSKkRVESF 281
                              69***********************************************9851554444244444 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.041
             ABC_tran_Xtn   3 lengklteYkGnYseyleekeerleqqqkayekqqkeikkleefIerfrakakkakqaqsrekaLekl.ekiek 75 
                              +en+kl+ ++G Y++     e  + + + a e +++ +++ e ++ + +      k  +  +k+Le + e+ie 
  PHY93_08230|PHY93_08230 506 IENKKLQNFEGGYEQVAPYLEVLELERELADESRENPLAQVELVVPKTSL-----KLNNKEKKRLETIyEDIES 574
                              89************988877777777777888888888888777777554.....4444555666666555555 PP

>> ABC_tran_CTD  ABC transporter C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.1  10.1   1.1e-08   7.7e-06       1      68 [.     556     627 ..     556     628 .. 0.96

  Alignments for each domain:
  == domain 1  score: 26.1 bits;  conditional E-value: 1.1e-08
             ABC_tran_CTD   1 klsykeqreleeleaeIeaLEeeiaeleaeladpely..sdp..eklaelsaeleeleaeLeelyerWeeLe 68 
                              kl +ke+++le++ ++Ie+ E + + +e+++a+ +++  +dp  ++l+ l+  +++le+ L  lye+ e Le
  PHY93_08230|PHY93_08230 556 KLNNKEKKRLETIYEDIESTEGKTKIIEEKIANLDFTklADPknQELKILTDAQTTLEERLLSLYEELEDLE 627
                              899*********************************9877889899************************98 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.8   0.0    0.0011      0.81       1      22 [.      32      53 ..      32      66 .. 0.86
   2 !   10.1   0.0   0.00092      0.66       1      39 [.     342     380 ..     342     410 .. 0.82

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.0011
                             EEEEEESTTSSHHHHHHHHHTS CS
                 MMR_HSR1  1 evaivGrpNvGKStLinaltge 22
                             +++++G    GKStL++ ltg+
  PHY93_08230|PHY93_08230 32 RIGLLGLNGKGKSTLFKILTGD 53
                             699*****************97 PP

  == domain 2  score: 10.1 bits;  conditional E-value: 0.00092
                              EEEEEESTTSSHHHHHHHHHTSTEEESSSTTSSSSEEEE CS
                 MMR_HSR1   1 evaivGrpNvGKStLinaltgekaivsdkpgtTrdineg 39 
                              +++++G+  vGK+tL++ +  e + vs    t  + +  
  PHY93_08230|PHY93_08230 342 KIGLLGNNGVGKTTLLKLIKHELSPVSGSMKTADNLQIQ 380
                              689**************9999988888777666655554 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.9   0.0   0.00039      0.28      12      50 ..      20      58 ..      18      72 .. 0.74
   2 !    9.4   0.1    0.0012      0.86      18      39 ..     336     357 ..     328     368 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00039
                   AAA_29 12 fdghtieidlkgatlltGpsGsGKSTllDAiqalLvpak 50
                             fd+  i++++ + + l G +G GKSTl+  ++  ++p++
  PHY93_08230|PHY93_08230 20 FDKAHISVSVGDRIGLLGLNGKGKSTLFKILTGDIIPDH 58
                             88878999988899999**********865555555555 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.0012
                   AAA_29  18 eidlkgatlltGpsGsGKSTll 39 
                              ei+  + + l G++G+GK+Tll
  PHY93_08230|PHY93_08230 336 EIHKGNKIGLLGNNGVGKTTLL 357
                              56644477899**********8 PP

>> KAP_NTPase  KAP family P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.0       1.7   1.2e+03      24      66 ..      34      73 ..      31      88 .. 0.78
   2 ?   -2.1   0.1       2.5   1.8e+03      57      57 ..     231     231 ..     182     313 .. 0.59
   3 !   14.8   0.0   1.7e-05     0.012      18      68 ..     338     429 ..     323     619 .. 0.79

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 1.7
               KAP_NTPase 24 gLygkWGsGKssllnkledelkefakpvrflfaefnawsfkgg 66
                             gL g  G GKs+l + l  ++       ++  +efn +  +g 
  PHY93_08230|PHY93_08230 34 GLLGLNGKGKSTLFKILTGDIIPD---HSSPPFEFNKARGDGD 73
                             56666689********99998887...6677777777777665 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 2.5
               KAP_NTPase  57 e 57 
                              +
  PHY93_08230|PHY93_08230 231 Y 231
                              1 PP

  == domain 3  score: 14.8 bits;  conditional E-value: 1.7e-05
               KAP_NTPase  18 atpivvgLygkWGsGKssllnkledelkefa..........................................kpvrflfaefnaw 61 
                              +++  +gL g+ G+GK++ll+++++el+  +                                           +++++  +f+++
  PHY93_08230|PHY93_08230 338 HKGNKIGLLGNNGVGKTTLLKLIKHELSPVSgsmktadnlqiqyfsqkrdemesemtpylllgdgsdfvilpdGSKKHVSSYFESF 423
                              677789**********************9987777777777777777777777777777777777777777775555555555555 PP

               KAP_NTPase  62 sfkggdd 68 
                              +f   dd
  PHY93_08230|PHY93_08230 424 LFHR-DD 429
                              5532.44 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.9   0.0      0.16   1.2e+02       2      27 ..      33      58 ..      32      72 .. 0.81
   2 !   12.4   0.1   0.00019      0.14       1      35 [.     342     375 ..     342     394 .. 0.67

  Alignments for each domain:
  == domain 1  score: 2.9 bits;  conditional E-value: 0.16
                             EEEESSTTSSHHHHHHCHCT-CCC-E CS
                      Roc  2 vvlvGdsgvGKtsllkrfvedkfsek 27
                             + l+G +g GK++l+k ++ d + ++
  PHY93_08230|PHY93_08230 33 IGLLGLNGKGKSTLFKILTGDIIPDH 58
                             779************99887766555 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 0.00019
                              EEEEESSTTSSHHHHHHCHCT-CCC-EEETTTTEE CS
                      Roc   1 KvvlvGdsgvGKtsllkrfvedkfsekekstigvd 35 
                              K+ l+G++gvGKt+llk +++++ s+ + s+  +d
  PHY93_08230|PHY93_08230 342 KIGLLGNNGVGKTTLLK-LIKHELSPVSGSMKTAD 375
                              899************97.45555555555544444 PP

>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.8   0.0    0.0084         6      29      51 ..      30      52 ..      16      57 .. 0.81
   2 !    8.1   0.1    0.0016       1.1      16      53 ..     327     364 ..     317     370 .. 0.88

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.0084
                             SEEEEEEE-TTSSHHHHHHHHHH CS
                     MeaB 29 aqvvGltGvPGaGkstlvealgl 51
                               ++Gl G+ G Gkstl + l+ 
  PHY93_08230|PHY93_08230 30 GDRIGLLGLNGKGKSTLFKILTG 52
                             579**************988875 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.0016
                              HHHHHHHGGG-S-SEEEEEEE-TTSSHHHHHHHHHHHH CS
                     MeaB  16 kellerllakaGraqvvGltGvPGaGkstlvealglel 53 
                               +l+e+++ +  + +++Gl G  G+Gk tl++ +  el
  PHY93_08230|PHY93_08230 327 STLFENIVGEIHKGNKIGLLGNNGVGKTTLLKLIKHEL 364
                              57889999999999****************99887776 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.0      0.26   1.9e+02       1      18 [.      33      50 ..      33      73 .. 0.92
   2 !   11.8   0.0   0.00037      0.27       1      44 [.     343     384 ..     343     398 .. 0.78

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.26
                   AAA_18  1 IlltGtpGvGKttlakeL 18
                             I+l G  G GK+tl k L
  PHY93_08230|PHY93_08230 33 IGLLGLNGKGKSTLFKIL 50
                             899***********9988 PP

  == domain 2  score: 11.8 bits;  conditional E-value: 0.00037
                   AAA_18   1 IlltGtpGvGKttlakeLskrlgfgvnlrdvakenglllevdpe 44 
                              I+l G  GvGKttl k ++ +l  + +++++ + ++l + ++ +
  PHY93_08230|PHY93_08230 343 IGLLGNNGVGKTTLLKLIKHEL--SPVSGSMKTADNLQIQYFSQ 384
                              8999**************9888..88888887777777777777 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   0.0      0.11        78       4      20 ..      34      50 ..      31      59 .. 0.83
   2 !   10.2   0.0   0.00071      0.51       5      24 ..     345     364 ..     342     399 .. 0.86

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.11
                             EEEC-TTTCHHHHHHHH CS
                    NACHT  4 ilqGeaGsGKTtLlqkl 20
                              l G +G+GK+tL + l
  PHY93_08230|PHY93_08230 34 GLLGLNGKGKSTLFKIL 50
                             58899********8755 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 0.00071
                              EEC-TTTCHHHHHHHHHHHH CS
                    NACHT   5 lqGeaGsGKTtLlqklalaw 24 
                              l G +G+GKTtLl+ + +++
  PHY93_08230|PHY93_08230 345 LLGNNGVGKTTLLKLIKHEL 364
                              78************998887 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0       5.5   3.9e+03      29      45 ..      35      51 ..      31      82 .. 0.76
   2 ?   12.9   0.0   0.00015      0.11      25      73 ..     341     400 ..     326     476 .. 0.69
   3 ?   -2.6   0.0       8.5   6.1e+03      98      98 ..     547     547 ..     494     618 .. 0.58

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 5.5
                   AAA_16 29 lsGesGvGKsslvrell 45
                             l G  G GKs+l + l 
  PHY93_08230|PHY93_08230 35 LLGLNGKGKSTLFKILT 51
                             6899999****976555 PP

  == domain 2  score: 12.9 bits;  conditional E-value: 0.00015
                   AAA_16  25 elvllsGesGvGKsslvrellralekd..........ggiflrgkcdqlesa.ipysala 73 
                              + + l G+ GvGK++l++ ++++l+             + ++++k d+ es+ +py+ l 
  PHY93_08230|PHY93_08230 341 NKIGLLGNNGVGKTTLLKLIKHELSPVsgsmktadnlQIQYFSQKRDEMESEmTPYLLLG 400
                              446689***************998876666666665555556666666644446665555 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 8.5
                   AAA_16  98 r 98 
                               
  PHY93_08230|PHY93_08230 547 E 547
                              1 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.0      0.98     7e+02       3      22 ..      35      54 ..      33      77 .. 0.79
   2 ?   11.3   0.0   0.00048      0.35       3      24 ..     345     366 ..     343     462 .. 0.73

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.98
                             EESSTTSSHHHHHHHHHHHH CS
                      AAA  3 lyGppGtGKTllakavakel 22
                             l G  G GK++l k +  ++
  PHY93_08230|PHY93_08230 35 LLGLNGKGKSTLFKILTGDI 54
                             7899**********998765 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 0.00048
                              EESSTTSSHHHHHHHHHHHHTH CS
                      AAA   3 lyGppGtGKTllakavakelgv 24 
                              l G+ G+GKT+l k + +el+ 
  PHY93_08230|PHY93_08230 345 LLGNNGVGKTTLLKLIKHELSP 366
                              88*****************842 PP

>> Arf  ADP-ribosylation factor family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   0.0      0.02        14      16      48 ..      32      65 ..      20      75 .. 0.80
   2 ?    5.7   0.1     0.013       9.1      11      37 ..     337     363 ..     326     379 .. 0.80

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.02
                             EEEEEESTTSSHHHHHHHHHHSSCEE.CSSSSSE CS
                      Arf 16 rilllGLDnaGKtTilkklkleelvt.tvPTigf 48
                             ri llGL + GK+T+ k l+ + + +  +P   f
  PHY93_08230|PHY93_08230 32 RIGLLGLNGKGKSTLFKILTGDIIPDhSSPPFEF 65
                             7889***********9999887664424565555 PP

  == domain 2  score: 5.7 bits;  conditional E-value: 0.013
                              .TTEEEEEEEESTTSSHHHHHHHHHHS CS
                      Arf  11 kkkelrilllGLDnaGKtTilkklkle 37 
                               +k  +i llG  + GKtT+lk +k+e
  PHY93_08230|PHY93_08230 337 IHKGNKIGLLGNNGVGKTTLLKLIKHE 363
                              478899***************987765 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6   0.0     0.059        42       3      23 ..      35      55 ..      33      78 .. 0.82
   2 ?    7.1   0.0    0.0099       7.1       3      24 ..     345     366 ..     343     394 .. 0.72

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.059
             RNA_helicase  3 lyGpsgeGKStlakeLakall 23
                             l G +g GKStl k L+ ++ 
  PHY93_08230|PHY93_08230 35 LLGLNGKGKSTLFKILTGDII 55
                             67999**********998887 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0099
             RNA_helicase   3 lyGpsgeGKStlakeLakallk 24 
                              l G++g+GK+tl k + ++l+ 
  PHY93_08230|PHY93_08230 345 LLGNNGVGKTTLLKLIKHELSP 366
                              78*************9888873 PP

>> TIR-like  Predicted nucleotide-binding protein containing TIR-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.1   0.0     0.058        42      23      61 ..     166     205 ..     151     220 .. 0.86
   2 ?    7.0   0.0    0.0077       5.5      12      61 ..     443     492 ..     437     513 .. 0.81

  Alignments for each domain:
  == domain 1  score: 4.1 bits;  conditional E-value: 0.058
                 TIR-like  23 lglepiileeqvnkg.ktiiekleealksvdfaivlltpd 61 
                                ++ i+++e +n++    i+ +e++l+s + a++l+t d
  PHY93_08230|PHY93_08230 166 STANLILWDEPTNHLdIESIKLFEDELNSTNKAFMLITHD 205
                              457899*********9999*******************99 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.0077
                 TIR-like  12 aaeevkelLeklg.lepiileeqvnkg.ktiiekleealksvdfaivlltpd 61 
                               + +++  L+  +  +++i++e +n++   +i+ lee+l++++ a++l++ d
  PHY93_08230|PHY93_08230 443 SRLQLALNLT--KiGDILIFDEPTNDLdLETIQILEEKLTEFQGAVILISHD 492
                              4555555555..33588999999999999********************998 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.1     0.085        61     103     122 ..      34      53 ..      22      62 .. 0.86
   2 ?   12.3   0.2   0.00016      0.12      87     124 ..     327     365 ..     288     387 .. 0.74
   3 ?   -1.9   0.1       3.7   2.6e+03      47      77 ..     544     574 ..     520     592 .. 0.57

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.085
                              EEECSTTSSHHHHHHHHCTT CS
              RsgA_GTPase 103 vlvGqSGvGKStLinallpe 122
                               l+G  G GKStL + l+++
  PHY93_08230|PHY93_08230  34 GLLGLNGKGKSTLFKILTGD 53 
                              5899**********999875 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 0.00016
                              HTTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT-- CS
              RsgA_GTPase  87 kegleelkellkd.ktsvlvGqSGvGKStLinallpele 124
                              ++ +e++  ++++ + + l+G+ GvGK+tL++ ++ el+
  PHY93_08230|PHY93_08230 327 STLFENIVGEIHKgNKIGLLGNNGVGKTTLLKLIKHELS 365
                              455666776666658888**************9998854 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 3.7
                              -EEEEEEE-GGG--HHHHHHHHHHHHHHTTS CS
              RsgA_GTPase  47 iepvivlnKiDlleeeeeleelkeelealgy 77 
                              +++ +v+ K+ l  +++e ++l++ +e+++ 
  PHY93_08230|PHY93_08230 544 AQVELVVPKTSLKLNNKEKKRLETIYEDIES 574
                              4666777777776666655666666655543 PP

>> Dynamin_N  Dynamin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.0   0.0       1.1   7.9e+02       1      22 [.      33      54 ..      33      62 .. 0.77
   2 ?    2.4   0.1       0.2   1.4e+02      31      81 ..     212     265 ..     205     314 .. 0.73
   3 ?   10.8   0.0   0.00055      0.39       1      47 [.     343     388 ..     343     452 .. 0.86
   4 ?   -2.8   0.1         8   5.8e+03      59      72 ..     559     572 ..     507     605 .. 0.59

  Alignments for each domain:
  == domain 1  score: -0.0 bits;  conditional E-value: 1.1
                             EEEEEBTTTTHHHHHHHHHTS- CS
                Dynamin_N  1 iavvGsqSsGKSSvlnaLlged 22
                             i ++G   +GKS++   L+g+ 
  PHY93_08230|PHY93_08230 33 IGLLGLNGKGKSTLFKILTGDI 54
                             567788899*****99999865 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.2
                              ---S-EEEEECCT---C...CS...SSEEEET-EB--CHHHHHHHHHHHHHHHT CS
                Dynamin_N  31 tTrrplelqlgeeeeas...eravkeelkekekkledfsevreeieketekiag 81 
                               Tr+++++q+g+ e+ s   ++  +   k++++kl+ ++++++++e+e++   +
  PHY93_08230|PHY93_08230 212 LTRKIFHIQHGRIESFSgsyTDYLSFLEKSEQSKLRLLDKLKNNLEREQAWMRQ 265
                              59**********999884443444444555588888889999999888876664 PP

  == domain 3  score: 10.8 bits;  conditional E-value: 0.00055
                              EEEEEBTTTTHHHHHHHHHTS--S---SSS---S-EEEEECCT---C CS
                Dynamin_N   1 iavvGsqSsGKSSvlnaLlgedilprgpnptTrrplelqlgeeeeas 47 
                              i ++G+   GK+++l  L+++++ p++  + T+  l++q+ ++++ +
  PHY93_08230|PHY93_08230 343 IGLLGNNGVGKTTLLK-LIKHELSPVSGSMKTADNLQIQYFSQKRDE 388
                              67899999*******5.889999*****************7766633 PP

  == domain 4  score: -2.8 bits;  conditional E-value: 8
                              T-EB--CHHHHHHH CS
                Dynamin_N  59 ekkledfsevreei 72 
                              +k+ + ++ + e i
  PHY93_08230|PHY93_08230 559 NKEKKRLETIYEDI 572
                              22222222222222 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.0      0.89   6.4e+02       4      22 ..      32      50 ..      30      65 .. 0.87
   2 ?    9.8   0.1   0.00081      0.58       2      22 ..     340     360 ..     339     382 .. 0.89
   3 ?   -2.3   0.0       4.4   3.2e+03     110     131 ..     470     492 ..     466     497 .. 0.80

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 0.89
                   AAA_24  4 kiliyGpsgiGKTtlakel 22
                             +i + G +g GK+tl k l
  PHY93_08230|PHY93_08230 32 RIGLLGLNGKGKSTLFKIL 50
                             78999*********99876 PP

  == domain 2  score: 9.8 bits;  conditional E-value: 0.00081
                   AAA_24   2 klkiliyGpsgiGKTtlakel 22 
                              ++ki + G +g+GKTtl+k +
  PHY93_08230|PHY93_08230 340 GNKIGLLGNNGVGKTTLLKLI 360
                              689**************9987 PP

  == domain 3  score: -2.3 bits;  conditional E-value: 4.4
                   AAA_24 110 efrrllkk.lqelrknvifiahe 131
                              e +++l+  l+e+++ vi+i+h 
  PHY93_08230|PHY93_08230 470 ETIQILEEkLTEFQGAVILISHD 492
                              55666666699**********96 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.0      0.18   1.3e+02      19      54 ..      30      64 ..      16      74 .. 0.80
   2 ?    7.5   0.2    0.0054       3.9      18      43 ..     337     364 ..     325     373 .. 0.76

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.18
                             TEEEEEEESTTSSHHHHHHHHHHHTT------TTTT CS
                     TsaE 19 gdvilLeGdLGaGKTtlvrglakalgveevkSPTFt 54
                             gd i L G  G GK+tl + l   + + + +SP F 
  PHY93_08230|PHY93_08230 30 GDRIGLLGLNGKGKSTLFKILTGDI-IPDHSSPPFE 64
                             6678899999*********998877.6688888886 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0054
                              H..TEEEEEEESTTSSHHHHHHHHHHHT CS
                     TsaE  18 l..gdvilLeGdLGaGKTtlvrglakal 43 
                              +  g+ i L G+ G+GKTtl + + ++l
  PHY93_08230|PHY93_08230 337 IhkGNKIGLLGNNGVGKTTLLKLIKHEL 364
                              23366799**************998776 PP

>> FeoB_N  Ferrous iron transport protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.1      0.14     1e+02       3      22 ..      33      52 ..      31      55 .. 0.89
   2 ?    1.4   0.0      0.29   2.1e+02      90     115 ..     294     319 ..     288     335 .. 0.88
   3 ?    4.9   0.1     0.023        17       2      21 ..     342     361 ..     341     378 .. 0.86

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.14
                             EEEEESTTSSHHHHHHHHHT CS
                   FeoB_N  3 valvGnpnvGkttlfnaltg 22
                             + l+G    Gk+tlf  ltg
  PHY93_08230|PHY93_08230 33 IGLLGLNGKGKSTLFKILTG 52
                             778999999**********9 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.29
                              GHHHHHHHHHHHHHTTSSEEEEEETH CS
                   FeoB_N  90 nlernLyLtlqllelgvpvvlalnmi 115
                              + +rnL Ltlq  + +++v++ +n +
  PHY93_08230|PHY93_08230 294 EAKRNLDLTLQKSNRQTKVLVSFNDL 319
                              568*****************999965 PP

  == domain 3  score: 4.9 bits;  conditional E-value: 0.023
                              EEEEEESTTSSHHHHHHHHH CS
                   FeoB_N   2 tvalvGnpnvGkttlfnalt 21 
                              ++ l+Gn  vGkttl+  + 
  PHY93_08230|PHY93_08230 342 KIGLLGNNGVGKTTLLKLIK 361
                              6889***********98765 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.5   0.2       0.2   1.4e+02      23      38 ..      33      48 ..      25      56 .. 0.86
   2 ?   -2.7   0.0       3.6   2.6e+03     158     196 ..     118     153 ..     112     199 .. 0.71
   3 ?   10.3   0.1   0.00041      0.29      23      49 ..     343     369 ..     326     387 .. 0.83
   4 ?   -3.1   0.0         5   3.6e+03     185     227 ..     529     575 ..     510     588 .. 0.57

  Alignments for each domain:
  == domain 1  score: 1.5 bits;  conditional E-value: 0.2
                             EEEEESTTSSHHHHHH CS
                   NB-ARC 23 valvGmgGvGKttlak 38
                             ++l G  G GK+tl+k
  PHY93_08230|PHY93_08230 33 IGLLGLNGKGKSTLFK 48
                             899***********97 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 3.6
                              S--HHHHHHHHHHCCTS-GGCHH..CHHHHHHHHHHCTT CS
                   NB-ARC 158 lLekdeawellenkvfekkleekesleevakeivekckG 196
                               +e++++w++++n+    k      le++ k++   ++G
  PHY93_08230|PHY93_08230 118 QFEEQHGWDMVQNYESYLKYF---GLEDLNKQVRDLSGG 153
                              578888999998875443333...256666666555555 PP

  == domain 3  score: 10.3 bits;  conditional E-value: 0.00041
                              EEEEESTTSSHHHHHHHHCCSHCCCCC CS
                   NB-ARC  23 valvGmgGvGKttlakqilnksdeveg 49 
                              ++l G  GvGKttl+k i ++++ v g
  PHY93_08230|PHY93_08230 343 IGLLGNNGVGKTTLLKLIKHELSPVSG 369
                              789***************999887766 PP

  == domain 4  score: -3.1 bits;  conditional E-value: 5
                              HHHHHHHHHCTT-HHH.HHHH...HHHHC-TCSCCHHHHHHHHHHCT CS
                   NB-ARC 185 evakeivekckGlPla.lkvl...ggllstkktveewkkvleklesk 227
                              e+ +e++ +++ +Pla + ++    +l+   k  ++++ ++e +es 
  PHY93_08230|PHY93_08230 529 ELERELADESRENPLAqVELVvpkTSLKLNNKEKKRLETIYEDIEST 575
                              56677777777777773333311122333334445555555555554 PP

>> Tantalus  Drosophila Tantalus-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.0      0.36   2.6e+02      33      57 ..     463     491 ..     460     493 .. 0.75
   2 ?    7.3   0.7    0.0068       4.8      35      51 ..     562     578 ..     555     588 .. 0.76

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.36
                 Tantalus  33 Ptkkr.LETI..FEeP.sdenaaivkvgs 57 
                              Pt+   LETI   Ee+  + ++a+ ++++
  PHY93_08230|PHY93_08230 463 PTNDLdLETIqiLEEKlTEFQGAVILISH 491
                              999999***64378887777888777776 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.0068
                 Tantalus  35 kkrLETIFEePsdenaa 51 
                              kkrLETI+E+ + ++++
  PHY93_08230|PHY93_08230 562 KKRLETIYEDIESTEGK 578
                              455******98777776 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.1       1.4     1e+03       2      18 ..      33      49 ..      32      54 .. 0.80
   2 ?   -2.2   0.1       4.9   3.5e+03      14      47 ..     247     281 ..     241     315 .. 0.65
   3 ?    8.8   0.3    0.0019       1.4       2      24 ..     343     365 ..     342     373 .. 0.84

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 1.4
                             EEEE--TTSSHHHHHHH CS
                 NTPase_1  2 vfiTGppGvGKtTlvkk 18
                             + + G  G GK+Tl+k 
  PHY93_08230|PHY93_08230 33 IGLLGLNGKGKSTLFKI 49
                             6677999*******975 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 4.9
                              HHHHHHHHHH...G.GGEEEEEEEEE-------EE CS
                 NTPase_1  14 Tlvkkvlellkssg.vkvgGfyteevreggrrigF 47 
                               l++k+ ++l++++ +  +G+ ++  r+++r   F
  PHY93_08230|PHY93_08230 247 RLLDKLKNNLEREQaWMRQGIKARGTRSKKRVESF 281
                              57777777777664155678888888877776666 PP

  == domain 3  score: 8.8 bits;  conditional E-value: 0.0019
                              EEEE--TTSSHHHHHHHHHHHH. CS
                 NTPase_1   2 vfiTGppGvGKtTlvkkvlellk 24 
                              + + G+ GvGKtTl+k + ++l+
  PHY93_08230|PHY93_08230 343 IGLLGNNGVGKTTLLKLIKHELS 365
                              6788*************999884 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (629 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       945  (0.0527079); expected 358.6 (0.02)
Passed bias filter:                      514  (0.0286686); expected 358.6 (0.02)
Passed Vit filter:                        69  (0.00384851); expected 17.9 (0.001)
Passed Fwd filter:                        27  (0.00150594); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              25  [number of targets reported over threshold]
# CPU time: 0.83u 0.33s 00:00:01.15 Elapsed: 00:00:00.49
# Mc/sec: 3844.28
//
Query:       PHY93_08235|PHY93_08235  [L=227]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.2e-08   33.8   3.9    9.2e-08   32.7   3.9    1.7  1  CxxCxxCC  Putative zinc- or iron-chelating domain


Domain annotation for each model (and alignments):
>> CxxCxxCC  Putative zinc- or iron-chelating domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.7   3.9   5.1e-12   9.2e-08       2      71 ..      67     151 ..      66     178 .. 0.72

  Alignments for each domain:
  == domain 1  score: 32.7 bits;  conditional E-value: 5.1e-12
                 CxxCxxCC   2 Cke.CgaCCkelkvklteedlerlkaaevaeeeeeskkiak................adgrCvfldeetklCkiYeeRpkicrlfp 70 
                              Ck+ C  CC+ ++v +te++ e l++   +  + +   ++k                ++ rC+fl  ++  C+ Y++Rp++cr+  
  PHY93_08235|PHY93_08235  67 CKSgCSGCCH-TQVGITEDEAELLAERVNDGLKIDYALLKKqikagnnpeeyytlsyENRRCIFLGADD-SCQAYNDRPSVCRTNA 150
                              9999******.6666666665555433332222222222223345778889999999***********6.*************765 PP

                 CxxCxxCC  71 a 71 
                               
  PHY93_08235|PHY93_08235 151 V 151
                              4 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (227 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       503  (0.0280551); expected 358.6 (0.02)
Passed bias filter:                      368  (0.0205254); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.29s 00:00:00.77 Elapsed: 00:00:00.43
# Mc/sec: 1596.14
//
Query:       PHY93_08240|PHY93_08240  [L=204]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-15   57.9   0.0    1.5e-15   57.4   0.0    1.2  1  Methyltransf_23  Methyltransferase domain
    5.6e-06   27.0   0.1    0.00077   20.2   0.0    2.3  2  Methyltransf_12  Methyltransferase domain
     0.0002   21.9   0.0      0.011   16.4   0.0    2.3  2  Methyltransf_11  Methyltransferase domain
  ------ inclusion threshold ------
      0.033   14.0   0.1        1.6    8.5   0.0    2.3  2  Methyltransf_31  Methyltransferase domain
      0.051   14.3   0.2         20    6.0   0.1    2.7  3  Methyltransf_25  Methyltransferase domain


Domain annotation for each model (and alignments):
>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.4   0.0   4.3e-19   1.5e-15      19     163 ..      69     193 ..      41     194 .. 0.84

  Alignments for each domain:
  == domain 1  score: 57.4 bits;  conditional E-value: 4.3e-19
          Methyltransf_23  19 klraggrvLdiGcGtGillevl.rengfsvtgvDlspeaveiaekakkaqkdqfdeqeaaepqgkfdlIvlrevlehvpdppellr 103
                               l+a+ + Ld+GcG G +l++l  ++g  v+++D+ +            +++++        ++++d ++++ev eh++d ++   
  PHY93_08240|PHY93_08240  69 FLPANFEALDFGCGPGPTLSILlTDKGGVVENYDPLF-----------LPNQNA-------LERTYDAVTASEVVEHFKDIERDWE 136
                              24566699********777777599999*******75...........444445.......779********************** PP

          Methyltransf_23 104 qiatllkpgGylllseplaslkedrllldwlylvpagrhisffsarslkelleeaGlevv 163
                               + +l++p+G l +++ l +  ++ +++ w+y ++  +h+ f+ +++++ l+ ++Gle++
  PHY93_08240|PHY93_08240 137 LLVSLVRPNGILAIMTLLIN--AKIDYKTWWYKNDP-THVAFYHEETFAYLASRFGLEII 193
                              *****************875..778899****9999.*********************97 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.1     0.014        50       1      17 [.      77      93 ..      77     102 .. 0.87
   2 !   20.2   0.0   2.1e-07   0.00077      54      99 .]     107     148 ..      97     148 .. 0.82

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.014
          Methyltransf_12  1 LeiGcGtGsllrallek 17
                             L++GcG G +l+ ll +
  PHY93_08240|PHY93_08240 77 LDFGCGPGPTLSILLTD 93
                             8*********9999876 PP

  == domain 2  score: 20.2 bits;  conditional E-value: 2.1e-07
          Methyltransf_12  54 ealdlldldggssfDlvvasnvlhhlkdirevldnirklLkpgGrl 99 
                               ++++l+     ++D+v+as+v++h+kdi++ ++ + +l++p+G+l
  PHY93_08240|PHY93_08240 107 PNQNALE----RTYDAVTASEVVEHFKDIERDWELLVSLVRPNGIL 148
                              3444444....49*******************************87 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.4   0.0     0.035   1.2e+02       1      18 [.      77      95 ..      77     105 .. 0.75
   2 !   16.4   0.0     3e-06     0.011      60      96 .]     114     150 ..     106     150 .. 0.93

  Alignments for each domain:
  == domain 1  score: 3.4 bits;  conditional E-value: 0.035
                             EEET-TTSHHHHHHH.HTT CS
          Methyltransf_11  1 LdvGcGtGrlaeala.krg 18
                             Ld+GcG G  +  l  ++g
  PHY93_08240|PHY93_08240 77 LDFGCGPGPTLSILLtDKG 95
                             8*******99988874444 PP

  == domain 2  score: 16.4 bits;  conditional E-value: 3e-06
                              T-EEEEEEES-CCC-CCHHHHHHHHHHHEEEEEEEEE CS
          Methyltransf_11  60 nsfDlvvssevlhhvedpekalkeiaRvLkpgGllvi 96 
                               ++D+v++sev++h++d e+ ++ ++ +++p+G+l+i
  PHY93_08240|PHY93_08240 114 RTYDAVTASEVVEHFKDIERDWELLVSLVRPNGILAI 150
                              589*******************************986 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.1     0.015        55       5      21 ..      74      90 ..      71     101 .. 0.78
   2 ?    8.5   0.0   0.00046       1.6      70     112 ..     112     153 ..      97     182 .. 0.85

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.015
          Methyltransf_31  5 lrvlDlGCGtGeltfel 21
                              + lD GCG G  +  l
  PHY93_08240|PHY93_08240 74 FEALDFGCGPGPTLSIL 90
                             578*******9766655 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.00046
          Methyltransf_31  70 ledekfDlilsnevlnaladpdkileeiervlkpggilliedp 112
                              le +++D +++ ev+ +++d +   e + ++++p+gil+i + 
  PHY93_08240|PHY93_08240 112 LE-RTYDAVTASEVVEHFKDIERDWELLVSLVRPNGILAIMTL 153
                              34.89*********************************98765 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.1    0.0056        20       2      17 ..      77      92 ..      76     104 .. 0.77
   2 ?    5.7   0.0    0.0067        24      61      97 .]     112     146 ..      98     146 .. 0.84
   3 ?   -2.0   0.0       1.8   6.3e+03      50      76 ..     165     192 ..     156     201 .. 0.65

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.0056
                             EEET-TTSHHHHHHHC CS
          Methyltransf_25  2 LdlGcGtGrltlalak 17
                             Ld+GcG+G ++  l++
  PHY93_08240|PHY93_08240 77 LDFGCGPGPTLSILLT 92
                             9*******88766654 PP

  == domain 2  score: 5.7 bits;  conditional E-value: 0.0067
                              STTTEEEEEEESTGGGSSHHHHHHHHHHHHHHEEEEE CS
          Methyltransf_25  61 edgsfDlvvssgalhhlsdedlekalkeiarvLkpgG 97 
                               ++++D+v++s +++h++  d+e+  + + ++++p+G
  PHY93_08240|PHY93_08240 112 LERTYDAVTASEVVEHFK--DIERDWELLVSLVRPNG 146
                              4679******988***98..78888999999999988 PP

  == domain 3  score: -2.0 bits;  conditional E-value: 1.8
                              EEESBCCGBSS.STTTEEEEEEESTGGG CS
          Methyltransf_25  50 fvqgdaedlpf.edgsfDlvvssgalhh 76 
                              +++ d +++ f ++++f +  s+++l++
  PHY93_08240|PHY93_08240 165 WYKNDPTHVAFyHEETFAYLASRFGLEI 192
                              5566666766546677877777777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (204 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       702  (0.0391544); expected 358.6 (0.02)
Passed bias filter:                      594  (0.0331307); expected 358.6 (0.02)
Passed Vit filter:                        66  (0.00368119); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.51u 0.27s 00:00:00.78 Elapsed: 00:00:00.44
# Mc/sec: 1408.52
//
Query:       PHY93_16510|PHY93_16510  [L=139]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
  ------ inclusion threshold ------
        0.2   12.3   5.6       0.33   11.6   5.6    1.4  1  Hemerythrin  Hemerythrin HHE cation binding domain


Domain annotation for each model (and alignments):
>> Hemerythrin  Hemerythrin HHE cation binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   5.6   1.9e-05      0.33       5     122 ..      15     123 ..      11     130 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 1.9e-05
                              HHHHHHHHHHHHHHHHHHHHHHHHHHCCCHCCHHHHHHHHHHHHHHHHHHHHHHC....HHHHH.CCC.HHHHHHHHHHHHHHHHH CS
              Hemerythrin   5 aldeeHralrallerlraladaaaevhgalrklaelldelvdeleaHhaaEEell....fPlledrpggravldvlereHdeirel 86 
                               + + Hr+ + +++++  ++++ + vh+  + ++++l+e++ +l++H+  EE+++     P++           ++e eH ++ ++
  PHY93_16510|PHY93_16510  15 DMNQVHREELIMVNDIYHYLTT-SAVHD-HQIIEKMLQEFAFHLRDHFLFEEDMMretnCPIYS----------CHESEHIRVQKI 88 
                              5667788888888888777777.45555.89999********************9888888888..........999999999988 PP

                              HHHHH.HHCHTCGGSTCHHHHHHHH.HHHHHHHHHHHH CS
              Hemerythrin  87 leelr.ellkgleepsaaafaelle.eladllreHiak 122
                              + ++  e++ + +   ++ ++  +e e+ +++++Hi  
  PHY93_16510|PHY93_16510  89 MFQIFkEYAVSKN---INLLKFYFEfEFKSWIENHILT 123
                              8888744444444...4444443332344777777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (139 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       662  (0.0369234); expected 358.6 (0.02)
Passed bias filter:                      303  (0.0169); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.28s 00:00:00.75 Elapsed: 00:00:00.46
# Mc/sec: 915.30
//
Query:       PHY93_08245|PHY93_08245  [L=111]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.4e-09   37.8   0.1    1.6e-09   37.6   0.1    1.3  1  ArsC          ArsC family
     0.0039   17.4   0.1      0.007   16.6   0.1    1.5  2  Glutaredoxin  Glutaredoxin
     0.0083   16.5   0.0       0.93    9.9   0.0    2.1  2  GST_N_3       Glutathione S-transferase, N-terminal domain
  ------ inclusion threshold ------
      0.038   14.3   0.2        2.9    8.3   0.0    2.1  2  GST_N         Glutathione S-transferase, N-terminal domain
      0.053   14.0   0.2      0.061   13.8   0.2    1.1  1  DUF1687       Protein of unknown function (DUF1687)


Domain annotation for each model (and alignments):
>> ArsC  ArsC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.6   0.1   4.5e-13   1.6e-09       8      62 ..      54     109 ..       6     111 .] 0.91

  Alignments for each domain:
  == domain 1  score: 37.6 bits;  conditional E-value: 4.5e-13
                              B-TTSHHHHHCTCCCTTSBHHHHHHHHHH-GGGB-S-EEEESSE.EEESSSCCGGG CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxx RF
                     ArsC   8 lskrgttyreLnldkedlsedellelilenpsLirRPivvdgkr.lqiGfneeeir 62 
                              ++k+g ty++   ++e l+ ++ +++++en s+i+RP++  + +   +Gf+ee ++
  PHY93_08245|PHY93_08245  54 VNKKGITYKKFKDEYEALTMAQKIKFLSENTSMIKRPVLEKNNKtIAMGFDEEFYK 109
                              59***************************************9998*******9876 PP

>> Glutaredoxin  Glutaredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.1   1.9e-06     0.007       7      44 ..       8      45 ..       1      54 [. 0.86
   2 ?   -2.0   0.0       1.2   4.4e+03      30      30 ..      69      69 ..      48      97 .. 0.62

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 1.9e-06
                             TSSHHHHHHHHHHHHTTGGEEEEEGCCSHHHHHHHHHH CS
             Glutaredoxin  7 ptCpyCkkakrlLkelgvkfeeidvdkdeeireelkel 44
                             p+C   kka+++L++++++++++d  k +   e++k+ 
  PHY93_08245|PHY93_08245  8 PNCDTVKKARAFLDKKKLEYQFVDFKKTPPTAEQVKRW 45
                             899999*********************99999988875 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 1.2
                             E CS
             Glutaredoxin 30 d 30
                             +
  PHY93_08245|PHY93_08245 69 E 69
                             2 PP

>> GST_N_3  Glutathione S-transferase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.9   0.0   0.00026      0.93       3      32 ..       6      35 ..       4      48 .. 0.84
   2 ?    4.8   0.0      0.01        37      18      57 ..      60      99 ..      57     102 .. 0.87

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00026
                             S-TTSHHHHHHHHHHHHHT--EEEE---TT CS
                  GST_N_3  3 gfpaSpyarrvrlaLnekglpvevvevtpg 32
                              +p +  ++++r +L+ k+l++++v+  ++
  PHY93_08245|PHY93_08245  6 AIPNCDTVKKARAFLDKKKLEYQFVDFKKT 35
                             5789999*****************997655 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.01
                             HHHT--EEEE---TTTTHHHHHHH-TT--SSEEETTS-EE CS
                  GST_N_3 18 nekglpvevvevtpgehdeellaknplgkvPvLeddgeal 57
                             ++k+ + e++ +t  ++   l++ +   k PvLe++++ +
  PHY93_08245|PHY93_08245 60 TYKKFKDEYEALTMAQKIKFLSENTSMIKRPVLEKNNKTI 99
                             7999999******999999899999*********997754 PP

>> GST_N  Glutathione S-transferase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   0.0   0.00081       2.9       4      35 ..       3      34 ..       1      54 [. 0.77
   2 ?    4.8   0.1      0.01        37      30      64 ..      68      99 ..      45     100 .. 0.71

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.00081
                             EEESSSTSHTHHHHHHHHHHTT-EEEEEEECS CS
                    GST_N  4 tlysirgsprahrirlllaakgveyevvpldf 35
                             t   i+++  + ++r++l+ k++ey++v+ + 
  PHY93_08245|PHY93_08245  3 TMHAIPNCDTVKKARAFLDKKKLEYQFVDFKK 34
                             666788888999***************98873 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.01
                             EEEECSTTTCGGCHHHHHHCTT.S-SSEEEETTEEE CS
                    GST_N 30 vvpldfeageekspellklnpl.gkvPaLedngkkl 64
                             +  l++     ++ ++l++n    k P+Le n+k++
  PHY93_08245|PHY93_08245 68 YEALTM----AQKIKFLSENTSmIKRPVLEKNNKTI 99
                             333333....234789999999999*******9988 PP

>> DUF1687  Protein of unknown function (DUF1687)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.2   1.7e-05     0.061      43     107 ..      21      87 ..       4     101 .. 0.72

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 1.7e-05
                  DUF1687  43 dqereefe.levtekfPTlDQlktilsyvgkska..ksvlksafpelseilkkfkkdeeskkklkelv 107
                              d+++ e++ ++ ++++PT++Q+k   +++g+ ++  k +  ++f ++ e+l   +k  ++ ++ ++++
  PHY93_08245|PHY93_08245  21 DKKKLEYQfVDFKKTPPTAEQVKRWGEFFGELPVnkKGITYKKFKDEYEALTMAQKI-KFLSENTSMI 87 
                              335666763688*****************9998887777778888777877777776.5555444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (111 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       581  (0.0324056); expected 358.6 (0.02)
Passed bias filter:                      375  (0.0209158); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.46u 0.28s 00:00:00.74 Elapsed: 00:00:00.44
# Mc/sec: 761.10
//
Query:       PHY93_08250|PHY93_08250  [L=258]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.2e-47  160.4   0.2    5.2e-47  160.1   0.2    1.1  1  DTW       DTW domain


Domain annotation for each model (and alignments):
>> DTW  DTW domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  160.1   0.2   2.9e-51   5.2e-47       2     197 ..      24     220 ..      23     221 .. 0.90

  Alignments for each domain:
  == domain 1  score: 160.1 bits;  conditional E-value: 2.9e-51
                      DTW   2 elCerCllpaevclcsslppleklpikvlilqhpkEkkkst.ntarllalslanlrvvvgsdveeeaklsallkdpkrksvllFPs 86 
                              e+C +C + +++clc+ ++p++++ +++l+l+hp E kk++ +t+r+  ++l+n+++++g d++e+++++++++dpk+ +v+l+P+
  PHY93_08250|PHY93_08250  24 EFCFKCFRLQKNCLCHLIKPFDTK-THFLLLMHPMEAKKEKmGTGRISIACLKNSSMIMGIDFTEDEAVNDIINDPKNYCVVLYPG 108
                              79******************8877.***********777777******************************************** PP

                      DTW  87 knaksledllaseaakasekkeefeekrlillDGTWsqAkkilrrnprledlpqvkLkkgesseyerlRkqpkkgclSTiEaiaya 172
                              +++ ++++   ++ a  ++ ++++ ++++ l+DGTW+ Akk+++ ++++++lp+v+++++++s++  +++qp++ clST+E+i+ +
  PHY93_08250|PHY93_08250 109 EKSLNISS---DDVAPLQNLQNKNLRLVVFLIDGTWPCAKKMMKLSRNINSLPRVSFTANHESLF-SIKEQPAEFCLSTLESIHFF 190
                              ***76642...22223333456667888889**********************************.******************** PP

                      DTW 173 Lkele.....eekealdnLldvfkamvekq 197
                              L+e e       +  ++n+ldvfk m+++q
  PHY93_08250|PHY93_08250 191 LSESErrgleTLAGSQENMLDVFKEMINFQ 220
                              *****99887444599***********987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (258 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       642  (0.0358079); expected 358.6 (0.02)
Passed bias filter:                      439  (0.0244855); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.28s 00:00:00.84 Elapsed: 00:00:00.47
# Mc/sec: 1646.68
//
Query:       PHY93_08255|PHY93_08255  [L=330]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.3e-13   49.5   0.0    4.8e-13   49.0   0.0    1.2  1  PAE       Pectinacetylesterase
  ------ inclusion threshold ------
        4.7    7.9   4.7        9.3    7.0   4.7    1.5  1  LPAM_1    Prokaryotic membrane lipoprotein lipid attachment s


Domain annotation for each model (and alignments):
>> PAE  Pectinacetylesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.0   0.0   5.4e-17   4.8e-13      20     190 ..      31     201 ..      26     225 .. 0.84

  Alignments for each domain:
  == domain 1  score: 49.0 bits;  conditional E-value: 5.4e-17
                      PAE  20 kgAvClDGsppgYylkrgfgsgaknwlihleGGgwcnnvesclsrkktrlgSskkmekqlkfsgilsnkqeenpdfynwNrvkvrY 105
                               gA C  Gs  + +++    ++ +  +i l GGg c ++++c+  +  + +   +  +++    +ls+++    ++ n+  ++ +Y
  PHY93_08255|PHY93_08255  31 PGAKCGNGSEYSIFIDL---KSPTALVIELMGGGACWSASTCYGPNLRTWM---YPIPEVPAFSVLSSESPLANKWKNYSYIYFPY 110
                              599*************9...99999*****************977665555...455667777777777777779*********** PP

                      PAE 106 CdgasfsGdve.evdkstklyFrGqrilqaviedLlekgl...kkakkvlLsGcSAGglaailhcdklrellp..keakvkclsda 185
                              C g++++G+ e ++ + ++ y+ G+r ++  +e L ++++   k+ ++vl  G SAG++++++h   l + ++     kv     a
  PHY93_08255|PHY93_08255 111 CTGDVYTGNHEaSYFPLNRTYHYGARNIKLALEFLTKNKIidfKNLNEVLFWGASAGAIGSLVHTKILDQYIKptGVHKVVIADSA 196
                              ***********888899999999*************776433388999********************999983223456666777 PP

                      PAE 186 GfFld 190
                              G+ + 
  PHY93_08255|PHY93_08255 197 GLHFG 201
                              87665 PP

>> LPAM_1  Prokaryotic membrane lipoprotein lipid attachment site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.0   4.7     0.001       9.3       1      15 [.       1      15 [.       1      16 [. 0.86

  Alignments for each domain:
  == domain 1  score: 7.0 bits;  conditional E-value: 0.001
                   LPAM_1  1 MKKillalgalllLs 15
                             MKKi+l++++lll +
  PHY93_08255|PHY93_08255  1 MKKIFLIFLFLLLIT 15
                             ****99999999866 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (330 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       540  (0.0301188); expected 358.6 (0.02)
Passed bias filter:                      478  (0.0266607); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.30s 00:00:00.83 Elapsed: 00:00:00.45
# Mc/sec: 2195.35
//
Query:       PHY93_08260|PHY93_08260  [L=703]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.034   14.7   0.2       0.11   13.1   0.2    1.9  1  MMR_HSR1_C  GTPase of unknown function C-terminal


Domain annotation for each model (and alignments):
>> MMR_HSR1_C  GTPase of unknown function C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.2   6.1e-06      0.11      45      98 ..     111     166 ..      75     172 .. 0.74

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 6.1e-06
               MMR_HSR1_C  45 glikYep..gdedfeikedklkeldekqkkaLekirdlvlkrygsTGVqealnaav 98 
                              + ik+++  +d+++ei++ +  ++d++q ++L+++++ +++  ++TG +++l+ a 
  PHY93_08260|PHY93_08260 111 SNIKFKKtiDDMSVEITKTNDGKMDQAQIDRLQDLKKSYVEAKKTTGTKKMLQLAA 166
                              55666551145567777777889*****************************9886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (703 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       911  (0.0508115); expected 358.6 (0.02)
Passed bias filter:                      545  (0.0303977); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.75u 0.29s 00:00:01.04 Elapsed: 00:00:00.49
# Mc/sec: 4338.76
//
Query:       PHY93_08265|PHY93_08265  [L=754]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        4.6    7.1   6.7        3.2    7.7   0.0    3.2  3  DUF3487   Protein of unknown function (DUF3487)


Domain annotation for each model (and alignments):
>> DUF3487  Protein of unknown function (DUF3487)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   0.0   0.00018       3.2      31      79 ..      51      98 ..      44     119 .. 0.89
   2 ?   -0.5   1.0     0.063   1.1e+03      27      73 ..     145     188 ..     124     195 .. 0.68
   3 ?    0.1   0.1     0.039     7e+02      14      63 ..     360     410 ..     355     420 .. 0.63

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.00018
                  DUF3487 31 lglvvglvlglllallvgslaliptialllvllvvlvggkllarlKRgk 79
                             +++++++v+gll+  l +   + p i+l++++ +++++g ++a +K +k
  PHY93_08265|PHY93_08265 51 MATLTMVVVGLLASKLWS-AKMTPDIMLAAAGGGIFIAGDIIAVFKNQK 98
                             567889999*99998888.99**********************999776 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.063
                  DUF3487  27 vlaglglvvglvlglllallvgslaliptialllvllvvlvggklla 73 
                              ++   ++++++++g+ +++++   + + +  ll++   v+ ++++la
  PHY93_08265|PHY93_08265 145 MA---AAAAFAAAGITAFMMAADETALAASCLLGINGAVAAASTVLA 188
                              44...445556677777766666666667777777777777777775 PP

  == domain 3  score: 0.1 bits;  conditional E-value: 0.039
                  DUF3487  14 PvVfrGltadEllvlaglglvvgl.vlglllallvgslaliptialllvll 63 
                                +  G+  + l +++ ++ + +l +lg++  ++++ +++++     ++ l
  PHY93_08265|PHY93_08265 360 TYIASGFFERALSMILPSARAGFLdPLGIISSIAISVVLMVFPTLATMLDL 410
                              556666666777776655544443378999988888887776555444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (754 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1376  (0.0767472); expected 358.6 (0.02)
Passed bias filter:                      478  (0.0266607); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.75u 0.31s 00:00:01.06 Elapsed: 00:00:00.51
# Mc/sec: 4423.02
//
Query:       PHY93_08270|PHY93_08270  [L=270]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.5e-21   76.3   0.2    5.6e-21   75.1   0.1    1.4  2  Phosphoesterase  Phosphoesterase family


Domain annotation for each model (and alignments):
>> Phosphoesterase  Phosphoesterase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0     0.085   1.5e+03       2      17 ..      22      37 ..      21      39 .. 0.86
   2 !   75.1   0.1   3.1e-25   5.6e-21     106     296 ..      39     218 ..      32     235 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.085
          Phosphoesterase  2 khvViivqENrsfdhl 17
                             ++v +iv EN+ ++++
  PHY93_08270|PHY93_08270 22 NKVLVIVFENTEYANA 37
                             6899*******99986 PP

  == domain 2  score: 75.1 bits;  conditional E-value: 3.1e-25
          Phosphoesterase 106 dipvlwelaqeftlcDryFssvlggtepNrlflisgtsdpsGteggpsladpkktvlkgftqktigerLsekgvswaiYqealdnl 191
                              + p++++l +e +l  ++  +++++++ N++++i+g +         ++ ++k+      + + +g+ L+e+  +w++Y e+  + 
  PHY93_08270|PHY93_08270  39 KQPFFFSLTKEGALLTNF-KAATHPSQGNYIAMIAGST--------FNIINDKP---IDLNDRHLGDLLEEAKKDWKVYAEDY-PG 111
                              67999**********997.8*****************9........55553333...4567889*******************.88 PP

          Phosphoesterase 192 akskvapfnyyvrklkklearrkalkqlglaakq..lekfkkdvkngkLPqvsfikpngandeHpgadvaagdklikevlealtss 275
                              + ++ ++  +y+rk+ +  ++ +  k+    ak+   ++f  d ++gkL   s ++pn +nd+H++  va gdk+ k+  + + +s
  PHY93_08270|PHY93_08270 112 NCFTGKTSGDYARKHVPFMSFVNVQKDPARCAKIveGKEFFTDFNAGKLKDFSMYIPNLKNDGHDT-GVAIGDKWFKQSFNSILHS 196
                              88888899***************999988888776889****************************.******************* PP

          Phosphoesterase 276 pq.waktllivtyDEngGfyDh 296
                              p+  ++ l++vt+DE  +   +
  PHY93_08270|PHY93_08270 197 PNfPKDLLVVVTFDEGTTLNNQ 218
                              **9999*********8776555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (270 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       334  (0.018629); expected 358.6 (0.02)
Passed bias filter:                      289  (0.0161191); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.30s 00:00:00.85 Elapsed: 00:00:00.50
# Mc/sec: 1626.57
//
Query:       PHY93_08275|PHY93_08275  [L=385]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.3e-13   48.4   0.1    3.5e-11   42.9   0.1    2.1  1  LCAT      Lecithin:cholesterol acyltransferase
  ------ inclusion threshold ------
      0.048   13.2   0.0       0.79    9.2   0.0    2.6  3  DUF900    Alpha/beta hydrolase of unknown function (DUF900)


Domain annotation for each model (and alignments):
>> LCAT  Lecithin:cholesterol acyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.9   0.1   3.9e-15   3.5e-11      67     211 ..      83     231 ..      36     361 .. 0.80

  Alignments for each domain:
  == domain 1  score: 42.9 bits;  conditional E-value: 3.9e-15
                     LCAT  67 eiwkklvknlvkiGyeknktvvaapYDWRlsleerdkYfskLk...elieealklsgkkvvliaHSmGnllvlyflkwveaea... 146
                                + k +  l+++  +++  v  apYDWR       ++ s Lk   ++i     +s ++  +++HS G+ll+ y+l+   ++    
  PHY93_08275|PHY93_08275  83 DSYGKTLSILEAFASQHQMVVETAPYDWRD------DFVSSLKlidNKIKSLDLQSTDELYVVSHSTGSLLMAYYLRYGAQDVdga 162
                              3478888999999999999999******95......55555551115676666688999*****************9865555899 PP

                     LCAT 147 ....Wvd.qhikafislgapllGsvkavkallsGenkgipvlseltlrvlsksfssslsllPkgeevlwk 211
                                  W   ++ik+ + ++ap+ G +  ++ +  G +kg    + +++r  s + ss ++l Pkge++ ++
  PHY93_08275|PHY93_08275 163 veenWEGlKYIKKAVLAAAPFHGLMVLLRDTEHGTTKGFNR-NLMSARDYSSFKSSYMFLPPKGEDMGYN 231
                              9999*8759******************************99.999*****99998888888899987444 PP

>> DUF900  Alpha/beta hydrolase of unknown function (DUF900)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.0     0.083   7.5e+02      15      29 ..       8      22 ..       3      24 .. 0.84
   2 ?    9.2   0.0   8.9e-05      0.79      79     136 ..     113     181 ..      92     200 .. 0.72
   3 ?   -0.7   0.0      0.09     8e+02      48      66 ..     294     312 ..     267     326 .. 0.70

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 0.083
                   DUF900 15 ksaakeilvfvhGyn 29
                             k ++++i++fv Gy 
  PHY93_08275|PHY93_08275  8 KTQKRRIILFVPGYY 22
                             67899********95 PP

  == domain 2  score: 9.2 bits;  conditional E-value: 8.9e-05
                   DUF900  79 alekllrylatk......ksakkihllaHSmGtwlvlealrqlaieade.....pavea...kikeviLaAP 136
                              ++ + l+ + +k      +s ++++++ HS G+ l++  lr  a+  d          +    ik+ +LaA+
  PHY93_08275|PHY93_08275 113 DFVSSLKLIDNKiksldlQSTDELYVVSHSTGSLLMAYYLRYGAQDVDGaveenW---EglkYIKKAVLAAA 181
                              444444444444444444599***************9999875554443443221...24557888888775 PP

  == domain 3  score: -0.7 bits;  conditional E-value: 0.09
                   DUF900  48 nqgaivvfsWPsagklldy 66 
                              ++  +++++W ++ k++ +
  PHY93_08275|PHY93_08275 294 YKKIPILYTWGAGHKTVQK 312
                              667899****999998865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (385 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       548  (0.030565); expected 358.6 (0.02)
Passed bias filter:                      444  (0.0247643); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.59u 0.30s 00:00:00.88 Elapsed: 00:00:00.47
# Mc/sec: 2471.23
//
Query:       PHY93_08280|PHY93_08280  [L=155]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    6.4e-08   32.4   0.1    1.5e-07   31.2   0.0    1.7  2  GreA_GreB  Transcription elongation factor, GreA/GreB, C-term


Domain annotation for each model (and alignments):
>> GreA_GreB  Transcription elongation factor, GreA/GreB, C-term
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0      0.29   5.3e+03      15      33 ..      20      38 ..      17      44 .. 0.65
   2 !   31.2   0.0   8.3e-12   1.5e-07       7      74 ..      84     155 .]      78     155 .] 0.77

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 0.29
                             E-.SS--EEEE----TTT- CS
                GreA_GreB 15 edldtgeeetytiVgpdea 33
                              ++++  + t  +V +d+ 
  PHY93_08280|PHY93_08280 20 VEVESAAKSTRDLVTADDL 38
                             4456677777777777765 PP

  == domain 2  score: 31.2 bits;  conditional E-value: 8.3e-12
                              -TT-EEEEE-.SS--EEEE----TTT-BS...-SS...B--TTSHHHHHHTT--TT-EE---BTTB---EEEEE CS
                GreA_GreB   7 tfGstVtledldtgeeetytiVgpdeadp...skg...kiSveSPlGkaLlgkkvGdevevkapsgkikveIlk 74 
                              ++Gs   +e+  +g+e+ y++ ++    +   +++   +iSv SPlG   lg + G+++e+++p++ ++++I++
  PHY93_08280|PHY93_08280  84 QMGSLALIEY--KGNERYYFLTSTSGGTMltvDENtilVISVFSPLGNGALGLQAGESFEIETPKEMRTYKIIN 155
                              5666666666..666666666666555544446667889*********************************85 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (155 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       781  (0.0435607); expected 358.6 (0.02)
Passed bias filter:                      489  (0.0272742); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.27s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1033.20
//
Query:       PHY93_08285|PHY93_08285  [L=60]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (60 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       556  (0.0310112); expected 358.6 (0.02)
Passed bias filter:                      245  (0.013665); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.29s 00:00:00.70 Elapsed: 00:00:00.44
# Mc/sec: 407.55
//
Query:       PHY93_08290|PHY93_08290  [L=92]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (92 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       318  (0.0177366); expected 358.6 (0.02)
Passed bias filter:                      250  (0.0139439); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.27s 00:00:00.69 Elapsed: 00:00:00.44
# Mc/sec: 634.58
//
Query:       PHY93_16515|PHY93_16515  [L=380]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.8e-37  127.6   0.5    7.7e-36  123.7   0.4    2.1  2  FIST      FIST N domain
    4.1e-28   98.0   0.0    5.6e-26   91.1   0.0    2.3  2  FIST_C    FIST C domain
  ------ inclusion threshold ------
       0.27   11.2   1.9       0.73    9.8   0.2    2.5  3  Defb50    Beta defensin 50


Domain annotation for each model (and alignments):
>> FIST  FIST N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  123.7   0.4   1.3e-39   7.7e-36       2     172 .]      28     218 ..      27     218 .. 0.89
   2 ?    1.9   0.0     0.034     2e+02      13      42 ..     331     361 ..     324     379 .. 0.77

  Alignments for each domain:
  == domain 1  score: 123.7 bits;  conditional E-value: 1.3e-39
                     FIST   2 lvlvfasaeasdleallealrealpgapliGcstageiasegleledgvvalalasa................da..ageelakal 69 
                              l++vf   +  +   +l++++e+l g+ +iGcstagei+  g+ +ed++v++a  ++                d+  ag++la+++
  PHY93_16515|PHY93_16515  28 LMFVFGGLNLFKEGTVLKTISEKLKGTIIIGCSTAGEISDKGM-SEDTLVLTACHFEktqefqtamvpvnginDSlnAGKALASKF 112
                              889998855547788***********************84466.**********88888888888888877764478888888877 PP

                     FIST  70 ....pkllllladglssneeellegldealaspdvpivGGlagdgtlaf.ktyvlfnggvledgvvvvllsgeslevgtavsqgyr 150
                                  + +l++l  g+++n++ +++gl+e++++ +v i+GGla+d+  +f +t++++ng++ +d +++++++g++l+v+ +++ g++
  PHY93_16515|PHY93_16515 113 skdnMTALFILGPGVNVNGSAIIDGLREVIGE-NVTITGGLAADA-GNFtQTFTILNGEIQSDKLIGLAVYGNNLKVAFGSMGGWQ 196
                              777766699999******************97.9**********9.8996699999****************************** PP

                     FIST 151 pigkpfvVTkaegnvileLdgk 172
                              p+g+ ++VTkaegn+++eLdg+
  PHY93_16515|PHY93_16515 197 PFGPIRQVTKAEGNILFELDGE 218
                              ********************96 PP

  == domain 2  score: 1.9 bits;  conditional E-value: 0.034
                     FIST  13 dleallealrealp.gapliGcstageiase 42 
                              d+++ l+a++++++ +  + G  ++gei+++
  PHY93_16515|PHY93_16515 331 DIDDELDAVKAVFGdNSSITGYYSNGEICPD 361
                              66677899*****88*************763 PP

>> FIST_C  FIST C domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.7   0.0    0.0046        27      99     129 ..      39      66 ..       5      67 .. 0.81
   2 !   91.1   0.0   9.3e-30   5.6e-26       1     130 []     220     360 ..     220     360 .. 0.91

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.0046
                   FIST_C  99 gedadeelqavrealgdgvplaGfftyGEig 129
                              +e++  +l++++e l++ + ++G+ t GEi 
  PHY93_16515|PHY93_16515  39 KEGT--VLKTISEKLKG-TIIIGCSTAGEIS 66 
                              4555..69999***765.***********95 PP

  == domain 2  score: 91.1 bits;  conditional E-value: 9.3e-30
                   FIST_C   1 Alevylellgeedeelaqsal.fplgleel..ggdflvrhllgvdpedgslaladdveeGqrlqlmlrdaealiedlerlleea.. 81 
                              Al+ y+++lg+++++l++s l +p+++ ++  ++  ++r++lgvd++ +sl+la+d++   +++lm++d++ l  +++ ++e+   
  PHY93_16515|PHY93_16515 220 ALDLYKKYLGDDANKLPASGLlYPFAILNNelDESGVIRTILGVDEAAKSLILAGDIPNKGSVRLMHADKAGLTLGAKGAAEKTfh 305
                              9******************88689999977997777***************************************99999777755 PP

                   FIST_C  82 ...ak..eg.allfsCigRglglgedadeelqavrealgdgvplaGfftyGEigp 130
                                 ak  +g ++l+sCigR+ ++g d+d+el+av+ ++gd+  ++G +++GEi+p
  PHY93_16515|PHY93_16515 306 tvsAKaaNGvGILVSCIGRKIVMGSDIDDELDAVKAVFGDNSSITGYYSNGEICP 360
                              55422445779******************************************97 PP

>> Defb50  Beta defensin 50
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0      0.61   3.6e+03      10      20 ..      23      33 ..      22      38 .. 0.83
   2 ?   -2.2   0.0      0.66   3.9e+03      17      31 ..     179     194 ..     178     195 .. 0.73
   3 ?    9.8   0.2   0.00012      0.73      15      41 ..     339     367 ..     336     371 .. 0.72

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 0.61
                   Defb50 10 kCiPkiaavfG 20
                             k  Pk+  vfG
  PHY93_16515|PHY93_16515 23 KINPKLMFVFG 33
                             5669******9 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 0.66
                   Defb50  17 avfGdnCsf.yssvdd 31 
                              av+G+n    ++s+++
  PHY93_16515|PHY93_16515 179 AVYGNNLKVaFGSMGG 194
                              8999997643777775 PP

  == domain 3  score: 9.8 bits;  conditional E-value: 0.00012
                   Defb50  15 iaavfGdnCsf..yssvddLCndkksvCC 41 
                              + avfGdn s   y s +++C d     C
  PHY93_16515|PHY93_16515 339 VKAVFGDNSSItgYYSNGEICPDSTFSAC 367
                              67******986445567999988653333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (380 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       404  (0.0225333); expected 358.6 (0.02)
Passed bias filter:                      357  (0.0199119); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.54u 0.27s 00:00:00.81 Elapsed: 00:00:00.45
# Mc/sec: 2524.68
//
Query:       PHY93_18390|PHY93_18390  [L=121]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.026   13.5   0.0      0.027   13.5   0.0    1.2  1  Stn1      Telomere regulation protein Stn1


Domain annotation for each model (and alignments):
>> Stn1  Telomere regulation protein Stn1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   1.5e-06     0.027      51     102 ..      70     121 .]      24     121 .] 0.87

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 1.5e-06
                              -------EEETTEEE-EEEEEEEEEEEEEE....TTEEEEEEE-SSS-EEEE CS
                     Stn1  51 aslirdilfylnrpirrikvvGlvvgvkwklikgedkavlkiDDcsdkllkc 102
                               +++ d ++ +n+pi ++   G ++g ++ + +  + + l  DD s   l+c
  PHY93_18390|PHY93_18390  70 RKSQLDFFLSMNFPIYHVEALGDIIGAGIFKNARREDLSLIADDRSKARLWC 121
                              5678889999******************99988888889999***9999999 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (121 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       360  (0.0200792); expected 358.6 (0.02)
Passed bias filter:                      332  (0.0185175); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.32s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 794.66
//
Query:       PHY93_18395|PHY93_18395  [L=83]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (83 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       344  (0.0191868); expected 358.6 (0.02)
Passed bias filter:                      243  (0.0135535); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.27s 00:00:00.68 Elapsed: 00:00:00.44
# Mc/sec: 569.86
//
Query:       PHY93_18400|PHY93_18400  [L=199]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      2e-07   31.7   0.4    4.3e-06   27.4   0.4    2.2  1  RNase_T   Exonuclease
    1.9e-05   24.7   0.0    2.5e-05   24.3   0.0    1.2  1  DUF5051   3' exoribonuclease, RNase T-like
  ------ inclusion threshold ------
       0.16   11.7   0.0        3.1    7.5   0.0    2.3  3  HupH_C    HupH hydrogenase expression protein, C-terminal con


Domain annotation for each model (and alignments):
>> RNase_T  Exonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.4   0.4   7.2e-10   4.3e-06       2     163 ..       5     186 ..       4     188 .. 0.62

  Alignments for each domain:
  == domain 1  score: 27.4 bits;  conditional E-value: 7.2e-10
                              EEEEEESSSTTCTTS-EEEEEEEEEETTCC....EEEEEEEEEEE....HSSHCSSSHHHHHHHHHCHHHHHTCEBHHHHHHHHHH CS
                  RNase_T   2 viDlEttgldakekdeiieiaaisidggen....eigetfhfyvk....ptelakltdecteftgitqemldeapsfkevleefke 79 
                               iDlE+tgl+   +d++ie++ i ++++++    +     +f++k       +++l +++++++    +++     f   ++ fk+
  PHY93_18400|PHY93_18400   5 SIDLEATGLNE--NDYMIEFGMIPFCTETRrveeS--LARNFFIKcpsfESLKPQLAPWVIDHNEKLIQKAHQ---FGMQIDSFKD 83 
                              59********6..9***************988541..334455541111455677778888887765555433...3333333333 PP

                              HHHHH.................TCCCETT.TCEEEESSHHHH.HHHHHHHHHHHHHCSEHCECHHHHHHHHHC..HHHHHHHHHTT CS
                  RNase_T  80 llrkl.................allvahn.aafdvgflraad.krilkkevpkrnqfldtlildkatlkelar..tsldklaeklg 144
                               l++                   +l ++   a+d+ fl++++ ++++ k++ +rn  l +  +    lk l+    s   l+++lg
  PHY93_18400|PHY93_18400  84 ELETYliskevkayfknenkekIILFGKSmSAIDLPFLNRDLgWEFMRKYFHHRNLDLSSTANTLIDLKHLPPecSSGSHLMRHLG 169
                              33311112355555555566655566666677777777777656666666664444444444444444444447778999999999 PP

                              CHSSSSTSSHHHHHHHHHH CS
                  RNase_T 145 leedgraHrAldDaeatak 163
                              + e +  H+Al+Da++ta 
  PHY93_18400|PHY93_18400 170 MGEVK--HTALEDAKNTAL 186
                              99998..**********96 PP

>> DUF5051  3' exoribonuclease, RNase T-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.3   0.0   4.2e-09   2.5e-05       2     160 ..       3     186 ..       2     192 .. 0.72

  Alignments for each domain:
  == domain 1  score: 24.3 bits;  conditional E-value: 4.2e-09
                  DUF5051   2 klmiDiEtlgneetaelvsIGaVff.petG....eFyaeidlesdeeag.idaetieWWlkqskearaellkdtqeakslkdalqa 81 
                              +l iD+E +g +e+  +++ G++ f  et     +  +++ + ++ + +  + +   W    +++  +++ + +    ++++ + +
  PHY93_18400|PHY93_18400   3 YLSIDLEATGLNENDYMIEFGMIPFcTETRrveeSLARNFFI-KCPSFEsLKPQLAPWVIDHNEKLIQKAHQFG---MQIDSFKDE 84 
                              689**********************76666787533333333.3333444677888999999999999998777...7799999** PP

                  DUF5051  82 leeFl.............ekslkvwang.asfDlviLraafel.....lipwkywn...drdvrtlvala...pelekgeekkrei 142
                              le++l             ++++ +++++ ++ Dl  L+  + +        +++ n       +tl++l+   pe ++g++  r++
  PHY93_18400|PHY93_18400  85 LETYLiskevkayfknenKEKIILFGKSmSAIDLPFLNRDLGWefmrkY--FHHRNldlSSTANTLIDLKhlpPECSSGSHLMRHL 168
                              ******8888888877654455566664145688888887777665430..22222111344578888889999999999999999 PP

                  DUF5051 143 pfegvkHnALaDAkhqak 160
                               + +vkH AL+DAk+ a 
  PHY93_18400|PHY93_18400 169 GMGEVKHTALEDAKNTAL 186
                              999***********9875 PP

>> HupH_C  HupH hydrogenase expression protein, C-terminal conserved region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0       1.3   7.6e+03      21      33 ..      14      26 ..       5      33 .. 0.52
   2 ?    1.3   0.0     0.046   2.7e+02      11      47 ..      90     126 ..      88     129 .. 0.86
   3 ?    7.5   0.0   0.00052       3.1      20      54 ..     142     176 ..     131     187 .. 0.84

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 1.3
                             H---EEEEGGGS- CS
                   HupH_C 21 geeahvinLtllP 33
                             +e+ ++i++  +P
  PHY93_18400|PHY93_18400 14 NENDYMIEFGMIP 26
                             3344455555555 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.046
                              HHHHHHHHHHH---EEEEGGGS---HHHHHHHHHHH- CS
                   HupH_C  11 iaealkalrpgeeahvinLtllPlseeDlelLdevLG 47 
                              i++++ka+ ++e++  i L    +s  Dl +L++ LG
  PHY93_18400|PHY93_18400  90 ISKEVKAYFKNENKEKIILFGKSMSAIDLPFLNRDLG 126
                              56778888788888899999999***********999 PP

  == domain 3  score: 7.5 bits;  conditional E-value: 0.00052
                              HH---EEEEGGGS---HHHHHHHHHHH---SEEEE CS
                   HupH_C  20 pgeeahvinLtllPlseeDlelLdevLGegevtil 54 
                              ++++++ i+L++lP      + L ++LG gev+ +
  PHY93_18400|PHY93_18400 142 SSTANTLIDLKHLPPECSSGSHLMRHLGMGEVKHT 176
                              5678899*************************865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (199 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       723  (0.0403257); expected 358.6 (0.02)
Passed bias filter:                      536  (0.0298957); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.28s 00:00:00.83 Elapsed: 00:00:00.47
# Mc/sec: 1270.65
//
Query:       PHY93_18405|PHY93_18405  [L=221]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.2e-31  107.9   3.0      4e-31  107.1   3.0    1.4  1  Peptidase_M23    Peptidase family M23
    0.00082   19.4   0.0     0.0021   18.1   0.0    1.7  1  LysM             LysM domain
  ------ inclusion threshold ------
      0.085   12.7   0.1       0.19   11.6   0.1    1.5  1  Biotin_lipoyl_2  Biotin-lipoyl like


Domain annotation for each model (and alignments):
>> Peptidase_M23  Peptidase family M23
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  107.1   3.0   6.7e-35     4e-31       2      96 .]     120     215 ..     119     215 .. 0.97

  Alignments for each domain:
  == domain 1  score: 107.1 bits;  conditional E-value: 6.7e-35
                              EESSEEEEETTT-EEEESSSEEEEEEEE.ETTTEEEEEEEECTCEEEEEEEESEESS-TTEEE-TTCEEEEEBSTSSCSSSEEEEE CS
            Peptidase_M23   2 fhkGidiaapkgtpVlAaadGtVvfagk.kegyGnvviidhgdgystlyahlskisvkegqkVkaGqvIGtvgstgrstgphLhfe 86 
                               h+Gidi+   g+ ++Aaa+G+Vv++g   +gyGn+++i h++g++++yah ++   ++gq+V +GqvI+++g tgr+tgphLhfe
  PHY93_18405|PHY93_18405 120 AHEGIDISSRIGSHIVAAAEGVVVYSGSeIGGYGNITVIAHKNGFFSVYAHAKSNFTHQGQRVYRGQVIAQIGMTGRTTGPHLHFE 205
                              69**************************76799*********************99****************************** PP

                              EEETTEEE-C CS
            Peptidase_M23  87 irkngkavdp 96 
                              irkng+a+dp
  PHY93_18405|PHY93_18405 206 IRKNGEAIDP 215
                              *********9 PP

>> LysM  LysM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.0   3.6e-07    0.0021       2      36 ..      34      71 ..      33      72 .. 0.86

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 3.6e-07
                             EE-TT--HHHHHHHCTCHHHHHHHHC..TCSSCG.G-- CS
                     LysM  2 tVkkGDTLwsIAkrygitveklleaN..nlsspd.kif 36
                              Vk+ DTL ++Ak ++i+ ek+ e N  ++  p+ ++f
  PHY93_18405|PHY93_18405 34 QVKPSDTLDTLAKEFNIPKEKISESNsgKVIAPGeWVF 71
                             6*************************887666665665 PP

>> Biotin_lipoyl_2  Biotin-lipoyl like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.1   3.2e-05      0.19      19      33 ..     177     191 ..     175     192 .. 0.93

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 3.2e-05
          Biotin_lipoyl_2  19 kdGqrVkaGdvLael 33 
                              ++GqrV  G+v+a++
  PHY93_18405|PHY93_18405 177 HQGQRVYRGQVIAQI 191
                              69***********98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (221 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       449  (0.0250432); expected 358.6 (0.02)
Passed bias filter:                      401  (0.022366); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.50u 0.28s 00:00:00.78 Elapsed: 00:00:00.46
# Mc/sec: 1456.81
//
Query:       PHY93_18410|PHY93_18410  [L=260]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.1e-56  190.8   0.0    2.4e-56  190.6   0.0    1.0  1  SurE      Survival protein SurE


Domain annotation for each model (and alignments):
>> SurE  Survival protein SurE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  190.6   0.0   1.3e-60   2.4e-56       1     194 [.       3     192 ..       3     193 .. 0.92

  Alignments for each domain:
  == domain 1  score: 190.6 bits;  conditional E-value: 1.3e-60
                              EEEE-SS-TT-HHHHHHHHHHTTTTSEEEEEEESSS-TTCTTS--SSSEEEEEEEECSTTTCEEEESS-HHHHHHHHHHTTTTTS. CS
                     SurE   1 iLltNDDGieapgiralvealaaaghevvvvaPdserSgigkaltleeplrveseeeeeeeeeyavsGtPadcvklaleellkek. 85 
                              iLltNDDG++apgir l e+l++  ++vv+vaP +erS +g+ ltl ++lr+ +     ee+ y ++G Padc  +++ +++k k 
  PHY93_18410|PHY93_18410   3 ILLTNDDGVHAPGIRILRETLST-IANVVIVAPMQERSTTGHTLTLDHTLRLVEI----EENVYGCDGFPADCSLMGIAHIFKTKg 83 
                              8*********************6.56************************97533....589********************9987 PP

                              ..SSEEEEEEEES---GGGGGG-HHHHHHHHHHHTTSEEEEEEEESSSSS-SSS---HHHHHHHHHHHHTTETTS-...SS-EEEE CS
                     SurE  86 .kpdlVvSGiNhGaNlgtdvlySGTvgAaleaalegipaiAvSlaskkeeekkeedtfeaaakvaaklveklieklllekvellnv 170
                               k dlV+SGiN+GaNlg+d++ySGTv+Aa+ea++++ipaiAvS +++ + ++k++  + +a++++++lv++ i++ + +  +++n+
  PHY93_18410|PHY93_18410  84 qKVDLVISGINRGANLGQDIFYSGTVAAAREAVFHKIPAIAVSSCMDFRITEKNDLFYYTASNFIKSLVQSNISEFI-PPMTVMNI 168
                              666******************************************98766666777789999999999999988887.99****** PP

                              EEESS.GCG-SEEEE-B--CCSCE CS
                     SurE 171 NvPeleeeeikgvkvtrlgrrrys 194
                              NvP  ee+ +kgvkvt++g r+ys
  PHY93_18410|PHY93_18410 169 NVPWIEEATVKGVKVTKVGFRNYS 192
                              *******************99987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (260 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       442  (0.0246528); expected 358.6 (0.02)
Passed bias filter:                      406  (0.0226449); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.28s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 1742.98
//
Query:       PHY93_18415|PHY93_18415  [L=223]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (223 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       451  (0.0251548); expected 358.6 (0.02)
Passed bias filter:                      224  (0.0124937); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.28s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1444.12
//
Query:       PHY93_18420|PHY93_18420  [L=188]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-20   74.0   0.0    3.7e-18   66.0   0.0    2.0  1  GATase    Glutamine amidotransferase class-I


Domain annotation for each model (and alignments):
>> GATase  Glutamine amidotransferase class-I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.0   0.0   2.1e-22   3.7e-18       2     185 ..      17     184 ..      16     187 .. 0.81

  Alignments for each domain:
  == domain 1  score: 66.0 bits;  conditional E-value: 2.1e-22
                              EEESSTSTHHHHHHHHHHTT-EEEEEETTSHHHHHHH......THHSTSEEEEEEESSCTT.TTTHHHHHHHHCT.STS-EEEETH CS
                   GATase   2 liDnydsvtenlvhalvelgvkvevvpidasaeeile......llknpdgilvsgGpgspg.vegkieaikeare.nkiPiLGICL 79 
                              +iD++ds+t n++ +l++++ ++ev+ +   ++++ +      + k p ++++ +Gpgsp+ + +   +ike+ +  +i ++GICL
  PHY93_18420|PHY93_18420  17 IIDFEDSFTFNIATELYAFEKQIEVLSHFDFFSNK-NfsiflqKIKAPIAVILGPGPGSPEeYREYFHNIKELKSnPHIYLMGICL 101
                              79***********************9976544444.33455435899***************99999*****9994578889**** PP

                              HHHHHHHHTTTEEEEEECEEEEEEEEEEEETTTCGGTTTTSEEEEEEEEEEEEESGCHHHTTEEEEEEEETTEEEEEEEEETT.TE CS
                   GATase  80 GmQllaiefgrkvvkekekehhggtmrlgddetallyglknevierhrHryevnpkelepaglevtakseddeelmeiiekkn.pf 164
                              G+Q++++  g +v + + k+ hgg+ +++        +    + + ++ +++v +    ++            +l ei+ ++  + 
  PHY93_18420|PHY93_18420 102 GHQIIGLMDGLTVKPSQ-KPIHGGQEKINF------DN--INILVQRYNSLAVFE---SNK------------SLKEIQIRQWtRG 163
                              ***************99.9*********98......44..478899999999987...222............3444444444238 PP

                              EEESSBTTSTTSTTHHHHHHH CS
                   GATase 165 vgvQFHPEststpegpellfn 185
                              v+ QFHPEs+ t+++p ++++
  PHY93_18420|PHY93_18420 164 VSYQFHPESIGTENRPLFFKD 184
                              9*************8876655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (188 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       499  (0.027832); expected 358.6 (0.02)
Passed bias filter:                      392  (0.021864); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.31s 00:00:00.80 Elapsed: 00:00:00.47
# Mc/sec: 1213.86
//
Query:       PHY93_18425|PHY93_18425  [L=766]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00068   19.3   0.2     0.0027   17.3   0.1    2.1  1  OstA_2    OstA-like protein
  ------ inclusion threshold ------
      0.016   14.8   0.2      0.088   12.4   0.1    2.0  1  LptC      Lipopolysaccharide-assembly, LptC-related
      0.019   15.1   0.2      0.076   13.2   0.2    2.0  1  OstA      OstA-like protein


Domain annotation for each model (and alignments):
>> OstA_2  OstA-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   0.1   4.5e-07    0.0027      36     107 ..      14      84 ..       9     147 .. 0.90

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 4.5e-07
                   OstA_2  36 avltcdsAvlyeeeNsleAFgnVrleQgDTlsltgdrleYdGntklaelrknvrledrektLtTdsldydrl 107
                              + + +d+A+   +eN +eA gnV +      s++g++++ +  t  ae+  nvr  + e tL+  +l+y+ l
  PHY93_18425|PHY93_18425  14 INVLSDKAFRKSSENEFEAIGNVVITHMKN-SIYGEKAKINFTTGNAEIVGNVRYISPEMTLYGTKLKYNFL 84 
                              56789******************9998765.9*************************************976 PP

>> LptC  Lipopolysaccharide-assembly, LptC-related
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   1.5e-05     0.088     118     172 ..      12      66 ..       7      69 .. 0.94

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 1.5e-05
                              SEEEEEEEEEEEETTT-EEEEEEEEEEEESS-EEEEEEEEEETTTTEEEEEEEEE CS
                     LptC 118 rlqtitTeeltvnlktkdittdqpVkitgpnfsttGvgmkanlktkkieLlskVr 172
                              +++ + +++++ + +++ ++    V it+ ++s+ G + k+n  t+++e+ ++Vr
  PHY93_18425|PHY93_18425  12 QKINVLSDKAFRKSSENEFEAIGNVVITHMKNSIYGEKAKINFTTGNAEIVGNVR 66 
                              6778899***********************************************8 PP

>> OstA  OstA-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.2   1.3e-05     0.076       2     108 ..      16     110 ..      15     113 .. 0.91

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.3e-05
                     OstA   2 IeAdkaelddkkkvavftGnVvvtqGnltlkAdkvtvtqdkkskkierleakgtatfrqkvdlvgeqirGkAerieydskkeiivL 87 
                              + +dka  + ++++    GnVv+t  +  + ++k++++   +     ++e  g      +v   + ++  ++ +++y+  +++i L
  PHY93_18425|PHY93_18425  16 VLSDKAFRKSSENEFEAIGNVVITHMKNSIYGEKAKINFTTG-----NAEIVG------NVRYISPEMTLYGTKLKYNFLTREIDL 90 
                              567888888889999999********************9999.....999999......888899999****************** PP

                     OstA  88 tgnatltqnsnsveGseityd 108
                                na++ +++ +v+G++i + 
  PHY93_18425|PHY93_18425  91 D-NARVLSENFVVTGKKILQT 110
                              *.****************875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (766 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       530  (0.029561); expected 358.6 (0.02)
Passed bias filter:                      331  (0.0184617); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.72u 0.28s 00:00:01.00 Elapsed: 00:00:00.49
# Mc/sec: 4731.99
//
Query:       PHY93_18430|PHY93_18430  [L=413]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
     0.0058   16.6   0.0      0.028   14.4   0.0    1.9  1  Mur_ligase_M  Mur ligase middle domain


Domain annotation for each model (and alignments):
>> Mur_ligase_M  Mur ligase middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.0   1.6e-06     0.028       1      91 [.      54     186 ..      54     203 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 1.6e-06
                              EESSS-HHHHHHHHHHHHHCTEEEEETTC..............................................SS-THHHHHHH CS
             Mur_ligase_M   1 vTGtnGKTTtteliaailekagkvigtvg..............................................ttnneiglpkt 40 
                              ++GtnGK  t++ +a  le++g  +g++                                                +   + l ++
  PHY93_18430|PHY93_18430  54 IAGTNGKGQTAHTLAFFLEQSGFRVGLWTsphilslrerfyfnngdvsyddlskeiylthdylkkeysgllisfyEFLFLVFLRLS 139
                              89*******************99999999999**********************************99999975544444444444 PP

                              HHHHHHTT-SEEEEE--HCHHHC.TTTCCHCBESEEEE---TSTTHHHHSSH CS
             Mur_ligase_M  41 laemekkeaeyavlEvsshglge.krlegllkpdvavitnispdHldfhgtl 91 
                              l    ++ +++++lEv+    g  + ++  ++ d   it+is+dH   +g++
  PHY93_18430|PHY93_18430 140 L--NSETPMNHLILEVGLG--GRlDAVNH-FDADCMCITSISRDHQMILGSR 186
                              4..455569*********9..44455555.99*************8777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (413 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       557  (0.031067); expected 358.6 (0.02)
Passed bias filter:                      451  (0.0251548); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.30s 00:00:00.84 Elapsed: 00:00:00.45
# Mc/sec: 2784.53
//
Query:       PHY93_18435|PHY93_18435  [L=501]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.17   10.7   3.9       0.22   10.3   3.9    1.2  1  EIF4E-T   Nucleocytoplasmic shuttling protein for mRNA cap-bi


Domain annotation for each model (and alignments):
>> EIF4E-T  Nucleocytoplasmic shuttling protein for mRNA cap-binding EIF4E
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   3.9   1.2e-05      0.22     460     586 ..     124     254 ..      88     310 .. 0.72

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 1.2e-05
                              ..XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                  EIF4E-T 460 rkdrdteaFnkLlqqlkeqgtqhhsvedsaktiaqvlagqlakqevklrikenkqeqqakslgvqtpnilvqkrveiqnliqeivr 545
                              + + d   F kLl++lk+++ ++++ + + + i + +   l +q   + + +   +++ ++++++ + +   k+  i+ ++  +++
  PHY93_18435|PHY93_18435 124 KTTLDYGKFDKLLNELKQSSSLKNTSDADKQFIINDNDVYLLRQLLTHAQDKICGMEKYNKQSKKIEKLENIKNAPINRMLYALQN 209
                              5588999*************994443333333333333334446666666666777777888888888899999************ PP

                              XXXXXXXXXXXXXX....XXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                  EIF4E-T 546 gdisleflekelsn....pstlahtkdviaavlrelsngrrnsls 586
                              g+is e   k ++      s +a++ ++ ++  ++l   ++n  +
  PHY93_18435|PHY93_18435 210 GNISAESDLKLVNTktvvESAVAKQMESLRKWAQDLNTKNPNCFK 254
                              ************943333333333444444444444444444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (501 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1050  (0.0585643); expected 358.6 (0.02)
Passed bias filter:                      449  (0.0250432); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.65u 0.30s 00:00:00.95 Elapsed: 00:00:00.49
# Mc/sec: 3067.20
//
Query:       PHY93_16520|PHY93_16520  [L=573]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    8.8e-17   61.6   0.9    1.7e-16   60.7   0.5    1.7  2  HATPase_c       Histidine kinase-, DNA gyrase B-, and HSP90-l
    0.00046   20.0   0.2     0.0013   18.5   0.2    1.8  1  HATPase_c_3     Histidine kinase-, DNA gyrase B-, and HSP90-l
  ------ inclusion threshold ------
      0.011   15.8   3.4      0.011   15.8   3.4    3.5  6  ARL2_Bind_BART  The ARF-like 2 binding protein BART
      0.041   13.9   1.2          1    9.4   0.1    2.6  2  IL34            Interleukin 34
      0.063   13.6   0.1       0.65   10.3   0.0    2.6  3  Hpt             Hpt domain
       0.24   11.1   1.0       0.41   10.4   0.1    1.7  2  DUF745          Protein of unknown function (DUF745)


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -4.0   0.0         6   1.8e+04      41      50 ..     260     269 ..     246     283 .. 0.76
   2 !   60.7   0.5   5.7e-20   1.7e-16       5     111 ..     426     568 ..     423     569 .. 0.85

  Alignments for each domain:
  == domain 1  score: -4.0 bits;  conditional E-value: 6
                              EEEESSSSST CS
                HATPase_c  41 sveDnGiGip 50 
                              +v+D+Gi i 
  PHY93_16520|PHY93_16520 260 EVTDDGIVII 269
                              6888888765 PP

  == domain 2  score: 60.7 bits;  conditional E-value: 5.7e-20
                              HHHHHHHHHHHHHHHH........HSTTTEEEEEEEEEE.......TEEEEEEEESSSSSTTHHHT.................... CS
                HATPase_c   5 rLrqiisnlvdNavkf........atkageieveikase.......ddlvisveDnGiGipkedlk.................... 55 
                               L +i+ n++d+ ++f        +    e+ ++ ++++       + l++ ++D+G Gi++e++                     
  PHY93_16520|PHY93_16520 426 ELVHIFTNIMDHGLEFegdritrkK--PVEGLIKTHTEKiivdngvESLKLVISDDGDGINPEKIRnkllqmekykdgidkfsdea 509
                              699*************666654321..223344444322333336789************************************** PP

                              ...GTCS.TTCHHCSTCHTSTSSSHHHHHHHHHHHHTTTEEEEEEETTTEEEEEEEEESS CS
                HATPase_c  56 ...klfe.kfsqddstkrggggtGlGlsivkklvelmgGeiwvesepgrGttftftlple 111
                                  +f+  fs+ + +k++ +g G+Gl   k+ ve+++G+i+ves+ ++Gttft+ +pl+
  PHY93_16520|PHY93_16520 510 linFIFGhGFST-AVKKTDISGQGVGLDALKAAVERLEGTIKVESKLHEGTTFTIVFPLK 568
                              ***99*99****.99****************************************99986 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.5   0.2   4.5e-07    0.0013      23     100 ..     462     562 ..     457     570 .. 0.73

  Alignments for each domain:
  == domain 1  score: 18.5 bits;  conditional E-value: 4.5e-07
              HATPase_c_3  23 kievnknrgktgeivieDdGkGmseeelknalrlatsskeakr....................kstslGkkGiG...lklAslslg 85 
                              ki v++   ++ ++vi DdG+G+++e+++n+l  +++ k+                       k+t+++  G+G   lk A+ +l 
  PHY93_16520|PHY93_16520 462 KIIVDNGV-ESLKLVISDDGDGINPEKIRNKLLQMEKYKDGIDkfsdealinfifghgfstavKKTDISGQGVGldaLKAAVERLE 546
                              67777764.6899*****************66555554443323666677777777777777778889999999444599999999 PP

              HATPase_c_3  86 kkltvitk.kegesst 100
                               +++v++k +eg++ t
  PHY93_16520|PHY93_16520 547 GTIKVESKlHEGTTFT 562
                              9999999846665555 PP

>> ARL2_Bind_BART  The ARF-like 2 binding protein BART
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.8   3.4   3.8e-06     0.011       5     105 ..       6     110 ..       3     114 .. 0.84
   2 ?   -1.2   0.1      0.71   2.1e+03     112     112 ..     209     209 ..     120     234 .. 0.63
   3 ?   -1.0   0.1       0.6   1.8e+03      43      60 ..     217     234 ..     202     260 .. 0.71
   4 ?   -1.2   0.2      0.69   2.1e+03      90      90 ..     372     372 ..     302     436 .. 0.59
   5 ?   -1.0   0.1      0.62   1.9e+03      32      63 ..     405     436 ..     360     464 .. 0.65
   6 ?   -3.4   0.0       3.4     1e+04      13      33 ..     493     513 ..     491     514 .. 0.76

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 3.8e-06
                              HHHHHHHHTS-HHHHHHHHHHHHHHHHTT--SS-SSTTHHHHHHHHHHHHHHHHHH...HHTT-SSS--THHHHH....SS-GGSS CS
           ARL2_Bind_BART   5 ivesleeflaspefkspvqeFidencivFddeeenkleytdihkeYkklveklles...lleeigismeeflealekslsekkeva 87 
                              ++ ++ + + ++e+ + + eFi+en   F d  ++kl     ++++ +++e+  ++   ll++ + + e+  e+l  +++++  ++
  PHY93_16520|PHY93_16520   6 LLRQVKKTFGEEEYYTILPEFINENLSKFSDAHQEKLGPLSNFEDFINVIEQSYNDdqiLLSRAQRNLETSSEEL-AQINKDLFKT 90 
                              567788899999****************************************99755588899999999999999.3444443558 PP

                              HHHHHHHHGGG-..HHHHHH CS
           ARL2_Bind_BART  88 kkvfeqllaadD..FeaFkk 105
                              +k++e++l+  D  F +F k
  PHY93_16520|PHY93_16520  91 NKIIEHMLNSLDqgFVIFDK 110
                              99999999999977777765 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 0.71
                              H CS
           ARL2_Bind_BART 112 k 112
                               
  PHY93_16520|PHY93_16520 209 T 209
                              1 PP

  == domain 3  score: -1.0 bits;  conditional E-value: 0.6
                              HHHHHHHHHHHHHHHHHH CS
           ARL2_Bind_BART  43 ytdihkeYkklveklles 60 
                               t+  +eY ++v k++++
  PHY93_16520|PHY93_16520 217 NTNKMQEYAQMVSKVISD 234
                              455556777777777655 PP

  == domain 4  score: -1.2 bits;  conditional E-value: 0.69
                              H CS
           ARL2_Bind_BART  90 v 90 
                              +
  PHY93_16520|PHY93_16520 372 L 372
                              2 PP

  == domain 5  score: -1.0 bits;  conditional E-value: 0.62
                              TT--SS-SSTTHHHHHHHHHHHHHHHHHHHHT CS
           ARL2_Bind_BART  32 vFddeeenkleytdihkeYkklveklleslle 63 
                               F+ + en  + ++ h ++ + +  +++++++
  PHY93_16520|PHY93_16520 405 RFEVTGENVRINYESHSDFLSELVHIFTNIMD 436
                              57777777777777777777666666666554 PP

  == domain 6  score: -3.4 bits;  conditional E-value: 3.4
                              TS-HHHHHHHHHHHHHHHHTT CS
           ARL2_Bind_BART  13 laspefkspvqeFidencivF 33 
                              l+ +++k+ +++F de  i F
  PHY93_16520|PHY93_16520 493 LQMEKYKDGIDKFSDEALINF 513
                              566788888889988887777 PP

>> IL34  Interleukin 34
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.5   0.1     0.046   1.4e+02      90     149 ..     125     188 ..     115     195 .. 0.68
   2 ?    9.4   0.1   0.00035         1      72     117 ..     222     267 ..     213     280 .. 0.83

  Alignments for each domain:
  == domain 1  score: 2.5 bits;  conditional E-value: 0.046
                              HHHHHHHHHHHHHHHTTTT----HHHHHHHHHHHST-SS...EEEE-HHHHHHHHH.HHHHHHH CS
                     IL34  90 kYlqelerllkdvqevlkdvevsekvedvldlltekgek...lklvrPkallDncl.rvmelLy 149
                               ++qe+e +l +    +++ve +e+  d  +l+  + ++   lk+  Pk l+D    ++++l +
  PHY93_16520|PHY93_16520 125 MFTQEVEGRLIQDVLPFEKVEKKESFVDWCELVYMDMHEfetLKMLAPKRLVDKKTgKTLDLDF 188
                              578899877766666666666666666655555444433445***********74326666655 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.00035
                              HHHHHHHHTT--TTSTTHHHHHHHHHHHHHHHHTTTT----HHHHH CS
                     IL34  72 lsavekvlevLlekHPsrkYlqelerllkdvqevlkdvevsekved 117
                              ++  + v +v+ +k  +++Y+++++rll +++e+l ++ev +    
  PHY93_16520|PHY93_16520 222 QEYAQMVSKVISDKKTTYDYVHQIQRLLIELREILSKEEVTDDGIV 267
                              55678899*****************************999875444 PP

>> Hpt  Hpt domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.1       1.6   4.9e+03       7      21 ..      73      87 ..      54     103 .. 0.73
   2 ?   10.3   0.0   0.00022      0.65       7      72 ..     242     309 ..     237     330 .. 0.74
   3 ?   -1.2   0.0      0.83   2.5e+03      43      57 ..     533     547 ..     529     558 .. 0.75

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 1.6
                             HHHHHHHHHHHHHHH CS
                      Hpt  7 leeaeelleqleqal 21
                             le++ e+l+q+++ l
  PHY93_16520|PHY93_16520 73 LETSSEELAQINKDL 87
                             677777788777766 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 0.00022
                              HHHHHHHHHHHHHHHSCCHHHH.....HHHHHHHHHHHHHHTTBHHHHHHHHHHHHHHHHCTSCHHHHHHH CS
                      Hpt   7 leeaeelleqleqaldqedlqe.....laraaHtLKGsagmlGltelaelahelEdlldragelelepell 72 
                              +++++ ll +l++ l+ e + +     ++r++Ht KG+  +  + +l+++  e+E  l   +++e+  ++ 
  PHY93_16520|PHY93_16520 242 VHQIQRLLIELREILSKEEVTDdgiviIKRLLHTTKGAGNTYFFGDLGRRINEIELKL---NGMEDKKDMW 309
                              555566666677777555444446777****************************955...5555554444 PP

  == domain 3  score: -1.2 bits;  conditional E-value: 0.83
                              TTBHHHHHHHHHHHH CS
                      Hpt  43 lGltelaelahelEd 57 
                              +Gl++l++++++lE 
  PHY93_16520|PHY93_16520 533 VGLDALKAAVERLEG 547
                              688888888888886 PP

>> DUF745  Protein of unknown function (DUF745)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.1   0.00014      0.41     104     167 ..      29      92 ..      25      96 .. 0.89
   2 ?   -3.0   0.1       1.7     5e+03     120     134 ..     218     232 ..     209     256 .. 0.49

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00014
                   DUF745 104 qqlealkallkaakenlenaeqvaagaqqelaektqlleaAkkRveeLkkqlkearkdlektkk 167
                              ++l+ ++++ ++    l+n e++ +  +q+ ++ + ll  A++ +e+ +++l++  kdl kt k
  PHY93_16520|PHY93_16520  29 ENLSKFSDAHQEKLGPLSNFEDFINVIEQSYNDDQILLSRAQRNLETSSEELAQINKDLFKTNK 92 
                              566677777777788899*****************************************99987 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 1.7
                   DUF745 120 lenaeqvaagaqqel 134
                               +++++ a+ +++ +
  PHY93_16520|PHY93_16520 218 TNKMQEYAQMVSKVI 232
                              222222222222222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (573 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1199  (0.0668749); expected 358.6 (0.02)
Passed bias filter:                      516  (0.0287802); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.71u 0.28s 00:00:00.99 Elapsed: 00:00:00.49
# Mc/sec: 3536.49
//
Query:       PHY93_18440|PHY93_18440  [L=282]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
        1.1    9.2   3.9       0.32   11.0   0.4    1.8  2  Mur_ligase_M  Mur ligase middle domain


Domain annotation for each model (and alignments):
>> Mur_ligase_M  Mur ligase middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.2      0.18   3.2e+03     175     190 ..      24      39 ..       9      40 .. 0.78
   2 ?   11.0   0.4   1.8e-05      0.32      79     120 ..     186     229 ..     173     267 .. 0.84

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 0.18
                              SSCSCHHHHHHHHHHH CS
             Mur_ligase_M 175 pllGkhnvyNalaaia 190
                              + +G  n++N+la+ a
  PHY93_18440|PHY93_18440  24 HQTGIANLKNILAVGA 39 
                              4578889999999765 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 1.8e-05
                              --TSTTHHHHSSHHHHHHHHHHHHHTSETTC...EEEEETTSC.. CS
             Mur_ligase_M  79 nispdHldfhgtlenyaeaKaelferlkeeg...iavinaddpya 120
                              n  + Hl+ h++l+++a   ++l ++++ +g    a+in d   +
  PHY93_18440|PHY93_18440 186 NYNEHHLEVHDDLDQIAMDEMNLERNVEINGhvyKAIINEDGS-T 229
                              66789**************************999999998877.3 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (282 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       413  (0.0230353); expected 358.6 (0.02)
Passed bias filter:                      313  (0.0174578); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.29s 00:00:00.80 Elapsed: 00:00:00.46
# Mc/sec: 1829.00
//
Query:       PHY93_18445|PHY93_18445  [L=378]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.5e-19   70.4   0.0      3e-19   69.5   0.0    1.4  1  Phage_integrase  Phage integrase family


Domain annotation for each model (and alignments):
>> Phage_integrase  Phage integrase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.5   0.0   1.7e-23     3e-19      26     168 ..     206     351 ..     183     354 .. 0.79

  Alignments for each domain:
  == domain 1  score: 69.5 bits;  conditional E-value: 1.7e-23
                              HHHHHHHHT--HHHHTT-BGGGEECTTTEEEEE.........EEECSSSSEEEEECTHHHHHHHHHHHHHHCHCCTTTSBSSBETT CS
          Phage_integrase  26 llellyetGlRisEllsLrvkdldlengvilvh.........eregKgskeravplseealellkellskaleeaeksellfaskr 102
                              + ++ + tG+R +El++L ++d+d++n++i v          ++ +K+++ r+v ++     +lk+ll +  +e+++++ ++++  
  PHY93_18445|PHY93_18445 206 IWAIPLLTGMRSGELMALGWEDVDMDNNIIQVSksfnkriksIKCTKNKTWRNVDVN----GQLKNLLIELRRERPNDNHVLPHF- 286
                              5667789*************************9555444444344444444555555....5555555555556699999***99. PP

                              SSB--HHHHHHHHHHHHHHCT-SSC--TTHHHHHHHHHHHHHCTSHHHHHHHHT-SSCCHHHHHHC CS
          Phage_integrase 103 gkplsrqtvrkafkraveeagiekpltpHtlRhsfataLleagvdlrvvqkllGHssisttqiYth 168
                               ++ ++  + ++++r  +  gi+k++ +HtlR  fat+Ll +gv + +v++++G+s+++t qiY +
  PHY93_18445|PHY93_18445 287 -SEWKNGYAGEVLRRFLQSIGINKKVVFHTLRACFATHLLSQGVEPLKVMRMGGWSDLKTFQIYLR 351
                              .888999999******************************************************87 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (378 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       750  (0.0418317); expected 358.6 (0.02)
Passed bias filter:                      544  (0.0303419); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.62u 0.27s 00:00:00.89 Elapsed: 00:00:00.47
# Mc/sec: 2396.07
//
Query:       PHY93_18450|PHY93_18450  [L=83]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    7.5e-10   38.8   0.0    1.1e-09   38.4   0.0    1.2  1  HTH_17     Helix-turn-helix domain
  ------ inclusion threshold ------
      0.063   13.4   0.0       0.12   12.5   0.0    1.6  1  Phage_Cox  Regulatory phage protein cox


Domain annotation for each model (and alignments):
>> HTH_17  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.4   0.0   1.2e-13   1.1e-09       1      48 [.      34      81 ..      34      83 .] 0.92

  Alignments for each domain:
  == domain 1  score: 38.4 bits;  conditional E-value: 1.2e-13
                   HTH_17  1 lltveEaAelLgvsrstvyrlirrgelpaak.iGrrwriprsdleewle 48
                             + t+eEa+e+L+ s + v++++ +g++ a k +Gr +++ + +l e ++
  PHY93_18450|PHY93_18450 34 WITTEEASEFLRKSTHAVRQMVYKGKIHARKfHGR-LYFNKLELNELID 81
                             89*************************77788877.*********9986 PP

>> Phage_Cox  Regulatory phage protein cox
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   1.3e-05      0.12      12      37 ..      35      60 ..      22      67 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 1.3e-05
                             EEHHHHHHHHT--HHHHHHHHHHT-S CS
                Phage_Cox 12 vteekFAeliGKtekAvrkmikdgKL 37
                             +t+e+  e++ K+++Avr+m+ +gK+
  PHY93_18450|PHY93_18450 35 ITTEEASEFLRKSTHAVRQMVYKGKI 60
                             7999999******************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (83 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       564  (0.0314574); expected 358.6 (0.02)
Passed bias filter:                      333  (0.0185733); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.45
# Mc/sec: 554.88
//
Query:       PHY93_18455|PHY93_18455  [L=98]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      3e-15   56.1   0.0    3.8e-15   55.8   0.0    1.1  1  SSB       Single-strand binding protein family


Domain annotation for each model (and alignments):
>> SSB  Single-strand binding protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.8   0.0   2.1e-19   3.8e-15       6      98 ..       8      92 ..       3      97 .. 0.93

  Alignments for each domain:
  == domain 1  score: 55.8 bits;  conditional E-value: 2.1e-19
                             EEEEESSS-EEEEETTSEEEEEEEEEEEEEEEETTCCEEEEEEEEEEEEEHHHHHHHHHH--TT-EEEEEEEEEEEEEECTTSCEEEE CS
                      SSB  6 lvGrlgkdpelrqtesGnavarftlatnrrfkdqegekdeetewhrvvvfgklaevvaeylkkGslvyveGrlqtrkyedqegqkrys 93
                             ++Grlg dp l +t++G++v+++++   +        +++ t w +vvvfgklae+++  l+kGs+v+v+G +  +k++ ++g ++  
  PHY93_18455|PHY93_18455  8 IFGRLGIDPFLAYTRKGEPVCELSVGLVN--------DQSDTIWRKVVVFGKLAELCKVHLRKGSQVFVQGPVFLKKFTSRDGIEKEY 87
                             69************************999........6999******************************************99988 PP

                             EEEEE CS
                      SSB 94 teiva 98
                              e+ a
  PHY93_18455|PHY93_18455 88 FEVKA 92
                             88876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (98 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       248  (0.0138323); expected 358.6 (0.02)
Passed bias filter:                      236  (0.013163); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.26s 00:00:00.69 Elapsed: 00:00:00.44
# Mc/sec: 672.62
//
Query:       PHY93_18460|PHY93_18460  [L=122]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
        5.7    7.3  14.3        1.7    9.0   6.1    2.1  2  Phage_Gp23  Protein gp23 (Bacteriophage A118)


Domain annotation for each model (and alignments):
>> Phage_Gp23  Protein gp23 (Bacteriophage A118)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0   6.1   9.5e-05       1.7      46      91 ..       8      53 ..       2      66 .. 0.74
   2 ?    3.3   1.2    0.0053        95      64      90 ..      81     107 ..      76     121 .. 0.73

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 9.5e-05
               Phage_Gp23 46 iemkeerekkeekrekkekeskeekdktissvdkskrlldkqndli 91
                              e kee+++  +++ek   e keek+k+   + +++++l    +l+
  PHY93_18460|PHY93_18460  8 REGKEEKKRGRKRKEKTGEERKEEKNKFFVDLGNDQEVLLLIKKLL 53
                             46689988888888999999********999987777654444444 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.0053
               Phage_Gp23  64 keskeekdktissvdkskrlldkqndl 90 
                              k+ ++ +d+ +  +++ krlld  n+ 
  PHY93_18460|PHY93_18460  81 KDIEKIQDQSLTEMERVKRLLDEHNEK 107
                              556667778888888888888888764 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (122 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1653  (0.092197); expected 358.6 (0.02)
Passed bias filter:                      615  (0.034302); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.30s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 792.33
//
Query:       PHY93_18465|PHY93_18465  [L=239]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (239 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       521  (0.0290591); expected 358.6 (0.02)
Passed bias filter:                      317  (0.0176809); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.27s 00:00:00.79 Elapsed: 00:00:00.46
# Mc/sec: 1553.62
//
Query:       PHY93_18470|PHY93_18470  [L=485]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.9e-09   35.4   0.0    1.7e-08   34.5   0.0    1.5  1  TraG-D_C       TraM recognition site of TraD and TraG
    1.9e-08   33.7   0.0     0.0031   16.5   0.0    2.3  2  TrwB_AAD_bind  Type IV secretion-system coupling protein DNA-
    1.8e-07   30.5   2.9    7.7e-07   28.4   2.9    1.9  1  AAA_10         AAA-like domain
    3.1e-06   27.4   0.1    8.3e-06   26.1   0.1    1.8  1  DUF87          Helicase HerA, central domain
    0.00061   19.2   0.0     0.0012   18.2   0.0    1.4  1  FtsK_SpoIIIE   FtsK/SpoIIIE family
    0.00073   19.3   0.0     0.0085   15.8   0.0    2.2  2  AAA_30         AAA domain
    0.00083   19.6   0.0     0.0016   18.7   0.0    1.5  1  AAA_22         AAA domain
     0.0011   17.6   0.0     0.0021   16.8   0.0    1.3  1  DUF853         Bacterial protein of unknown function (DUF853)
  ------ inclusion threshold ------
      0.015   15.0   0.0      0.026   14.3   0.0    1.3  1  ATP_bind_1     Conserved hypothetical ATP binding protein
      0.026   13.3   0.1       0.11   11.3   0.0    1.9  2  Adeno_IVa2     Adenovirus IVa2 protein
      0.027   15.0   0.0       0.18   12.4   0.0    2.2  2  AAA_18         AAA domain
      0.091   13.3   0.0       0.19   12.2   0.0    1.7  1  ABC_tran       ABC transporter
       0.12   11.7   0.0       0.29   10.5   0.0    1.5  1  SMC_N          RecF/RecN/SMC N terminal domain


Domain annotation for each model (and alignments):
>> TraG-D_C  TraM recognition site of TraD and TraG
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.5   0.0   1.2e-11   1.7e-08       1     124 [.     309     424 ..     309     426 .. 0.80

  Alignments for each domain:
  == domain 1  score: 34.5 bits;  conditional E-value: 1.2e-11
                 TraG-D_C   1 pvlfllDEfanlgkipdleellstgrsrgislvlilQsiaqleelYgkegaetilgncdvklflgvndeetaeelSkllGektves 86 
                              p+ ++ DEf+ ++  p + el +++r++g++l++++Qs ++++ + +++    +++n+++ ++++   +et  +l+k lG+   ++
  PHY93_18470|PHY93_18470 309 PLAIYFDEFGAIAT-PRFLELQNKCRGAGMQLFMAMQSPNDIKLI-DENLTGLLIENSANIFVFKQRFDETSNMLAKTLGTIIGKK 392
                              678899******88.789999*********************966.589999****************************998876 PP

                 TraG-D_C  87 estsssssgsggssessssssqseekrpLltpdeirrl 124
                              ++ +++ ++ +g+     + s++ +++ +  pd i++l
  PHY93_18470|PHY93_18470 393 QTYQTEDGS-QGN-----RGSERDVNEFICHPDIIKNL 424
                              555555444.332.....22334446666666666666 PP

>> TrwB_AAD_bind  Type IV secretion-system coupling protein DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   2.2e-06    0.0031       7      57 ..      80     130 ..      77     223 .. 0.84
   2 !   14.7   0.0   7.8e-06     0.011     215     378 ..     277     437 ..     239     445 .. 0.75

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 2.2e-06
            TrwB_AAD_bind   7 vplpkeretqhilivGttGsGKtqalekllrairargdraivlDltGafvs 57 
                              +pl++ + ++h+ ivG++GsGKt+ l+ l ++    +  +i lD++ ++ s
  PHY93_18470|PHY93_18470  80 LPLKEINFAAHTYIVGAAGSGKTNLLSVLQENHMMNNVPVIFLDPKADMES 130
                              6888888899*****************999999999999999999988765 PP

  == domain 2  score: 14.7 bits;  conditional E-value: 7.8e-06
            TrwB_AAD_bind 215 qrallrpllsawldlaikallslpe...srerrlWfflDElpaLgrleelksllaegRkfGgavvlglqsiaqlrevYGedaaqsi 297
                               +al++ ++  +l ++  +l +  +   s ++ l   +DE+ a+   + + +l+++ R  G+ + +++qs + ++ +  e+ +  +
  PHY93_18470|PHY93_18470 277 AKALAKIFVEEMLYVSYLQLGTTYDshySMNNPLAIYFDEFGAIAT-PRFLELQNKCRGAGMQLFMAMQSPNDIKLI-DENLTGLL 360
                              4678889999999999999988555344677889999*******76.778889*********************988.788***** PP

            TrwB_AAD_bind 298 lslvntklilrvsdaetAeelsellGeqeversteslsygannsrdgvslgrqrevrpvVlaselqnlpdlegylklpegl 378
                              +++ ++ ++++    et + l+++lG   +  +++++    ++  +g   +++   + +  ++ + nl++ +++l   +  
  PHY93_18470|PHY93_18470 361 IENSANIFVFKQRFDETSNMLAKTLGT--IIGKKQTYQ--TEDGSQGNRGSERDVNEFICHPDIIKNLKRGQCVLLQHDPT 437
                              **************************7..555555544..33333333334444444466667778888888888776665 PP

>> AAA_10  AAA-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.4   2.9   5.6e-10   7.7e-07      21     184 ..      88     251 ..      83     451 .. 0.73

  Alignments for each domain:
  == domain 1  score: 28.4 bits;  conditional E-value: 5.6e-10
                   AAA_10  21 asasliiGdlGnGKSvlakllvlyisllggkaliiDpkkerekfketlpeiakkinvvtLdse.eenegvLdPlvllkeekeaesl 105
                              a ++ i+G  G GK  l  +l  + ++ +  ++++Dpk+++e    +   ++k  +   + +e  +   vL+Pl         + +
  PHY93_18470|PHY93_18470  88 AAHTYIVGAAGSGKTNLLSVLQENHMMNNVPVIFLDPKADMESLLTFEHLCKKYNRTCYIFHEnYKDSIVLNPLKDG----TVNLI 169
                              7899************************************8886555444444444445544426777899997533....45556 PP

                   AAA_10 106 aedilelllgvk.kkesekkaalseaveavle.gkqrgllavieel.rkedekvareiarhlesvvkkslaklvfsdgsvee 184
                                 i++  +  k   +   ++a++++v + +e + ++ +  + e +  +++++    +  hle +vk ++a+l+ + + v+ 
  PHY93_18470|PHY93_18470 170 VDRIMNSFKFEKeFYKITSEQAIRATVTKLKEtRSEVTFDLIYEYMiVNHNNENTIGMIGHLERIVKSDFAHLLKERDGVNT 251
                              6666665443331344455568*******9994556777777777745889999999999*************988776654 PP

>> DUF87  Helicase HerA, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.1   0.1     6e-09   8.3e-06      23     151 ..      88     220 ..      69     270 .. 0.70

  Alignments for each domain:
  == domain 1  score: 26.1 bits;  conditional E-value: 6e-09
                    DUF87  23 trHlAilgsTGsGKSntvavLleellekkgatililDpHGEYgkal.....ekllsekvkvitpspsa..kdkelkinpwsldpee 101
                                H+ i+g +GsGK+n+ +vL e+ +  ++++++ lDp  +  ++l      k+++ +  ++    ++    ++lk    +l ++ 
  PHY93_18470|PHY93_18470  88 AAHTYIVGAAGSGKTNLLSVLQENHM-MNNVPVIFLDPKADMESLLtfehlCKKYNRTCYIFHENYKDsiVLNPLKDGTVNLIVDR 172
                              6799**********************.***************99998888755555555555543222333334555555666666 PP

                    DUF87 102 lldlleeddkpaaav.qrsvleealdqakakeekeklssdepveklleelk 151
                              +++ ++  +k+ +++ ++++++ +++++k  e + ++++d + e++  + +
  PHY93_18470|PHY93_18470 173 IMNSFKF-EKEFYKItSEQAIRATVTKLK--ETRSEVTFDLIYEYMIVNHN 220
                              6666666.555555556777777777776..77777777777777766655 PP

>> FtsK_SpoIIIE  FtsK/SpoIIIE family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.0   8.9e-07    0.0012      22      80 ..      70     125 ..      54     140 .. 0.81

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 8.9e-07
                              EEEET.TS-EEEEEGGGS-.SEEEE--TTSSHHHHHHHHHHHHHTT--TTTEEEEEE-TT CS
             FtsK_SpoIIIE  22 lgkei.sgnplvldlkkmashllvaGatgsGKStalntLilSlatthtPeeVqliliDyk 80 
                              lg+   + +pl l +++ a+h+ ++Ga gsGK++ l +L  + ++    ++V  i +D+k
  PHY93_18470|PHY93_18470  70 LGHSCnRKRPLPLKEINFAAHTYIVGAAGSGKTNLLSVLQENHMM----NNVPVIFLDPK 125
                              6777777889999999999*****************999888777....88888888887 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.0   6.2e-06    0.0085      21      60 ..      91     130 ..      86     155 .. 0.88
   2 ?    0.8   0.0      0.25   3.4e+02      88     121 ..     308     341 ..     237     342 .. 0.73

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 6.2e-06
                   AAA_30  21 avltGpAGtGKttalkalreaweaaggrviglAptgkaAk 60 
                              + ++G+AG+GKt +l++l+e +  ++ +vi l p++ +  
  PHY93_18470|PHY93_18470  91 TYIVGAAGSGKTNLLSVLQENHMMNNVPVIFLDPKADMES 130
                              679***************************9999887655 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.25
                   AAA_30  88 pgtllivDEagmvdtkqlaallkaaekagakvil 121
                              +   +  DE g ++t  + +l ++++ ag+++ +
  PHY93_18470|PHY93_18470 308 NPLAIYFDEFGAIATPRFLELQNKCRGAGMQLFM 341
                              4456678******************999999865 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   0.0   1.2e-06    0.0016       6      69 ..      89     146 ..      86     215 .. 0.89

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 1.2e-06
                   AAA_22   6 gilvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsstsskdllrellralglelk 69 
                               +++++G +G+GKT ll  l+e++       +++++v+f +++++++s   +++l++++++ + 
  PHY93_18470|PHY93_18470  89 AHTYIVGAAGSGKTNLLSVLQENHM------MNNVPVIFLDPKADMESLLTFEHLCKKYNRTCY 146
                              689*******************984......37*************999999*****9998775 PP

>> DUF853  Bacterial protein of unknown function (DUF853)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   1.5e-06    0.0021      17      64 ..      84     131 ..      69     145 .. 0.84

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 1.5e-06
                   DUF853  17 lklanrhGliaGatGtGktvtLqvlaeslseaGvpvfladvkGdLsgi 64 
                                    h  i Ga+G Gkt  L vl e+     vpv+  d k d+ ++
  PHY93_18470|PHY93_18470  84 EINFAAHTYIVGAAGSGKTNLLSVLQENHMMNNVPVIFLDPKADMESL 131
                              44455799************************************9776 PP

>> ATP_bind_1  Conserved hypothetical ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0   1.9e-05     0.026       1      37 [.      93     127 ..      93     142 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.9e-05
               ATP_bind_1   1 vvGpaGsGKttfvgalseilelrgrsvavvNLDPAae 37 
                              +vG aGsGKt + + l+e  + +  +v v+ LDP a+
  PHY93_18470|PHY93_18470  93 IVGAAGSGKTNLLSVLQENHMMN--NVPVIFLDPKAD 127
                              79***************988878..8********876 PP

>> Adeno_IVa2  Adenovirus IVa2 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0     8e-05      0.11      92     130 ..      93     129 ..      82     203 .. 0.88
   2 ?    0.0   0.1      0.21   2.9e+02     185     252 ..     153     228 ..     132     246 .. 0.67

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 8e-05
               Adeno_IVa2  92 iyGPtGsGksqllrnlissklisPiPetvifitPekdmi 130
                              i G +GsGk++ll  l  +++++ +P  vif+ P+ dm 
  PHY93_18470|PHY93_18470  93 IVGAAGSGKTNLLSVLQENHMMNNVP--VIFLDPKADME 129
                              89***********************9..9********95 PP

  == domain 2  score: 0.0 bits;  conditional E-value: 0.21
               Adeno_IVa2 185 pknifvkaakrGpvaiildecmeklidkksvskl.....fhalPsklsakfkkct...gfsvlvvlhnlnPrsdia 252
                              +++i  +  k G v +i+d  m+++  +k+  k+       a  +kl++  +++t    +  ++v hn + + ++ 
  PHY93_18470|PHY93_18470 153 KDSIVLNPLKDGTVNLIVDRIMNSFKFEKEFYKItseqaIRATVTKLKETRSEVTfdlIYEYMIVNHNNENTIGMI 228
                              5678888889999999999999998877765554111114455666666555555322356666777766666665 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   0.00013      0.18       3      89 ..      93     180 ..      92     209 .. 0.68
   2 ?   -0.7   0.0       1.4   1.9e+03      27      81 ..     300     354 ..     270     375 .. 0.49

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.00013
                   AAA_18   3 ltGtpGvGKttlakeLskrlgf.gvnlrdvakenglllevdpe.....aldeskrldedkldklldaleenssaleegknlvidgh 82 
                              + G++G+GKt l   L++ + +  v ++++ ++ +++   + e       + + ++ e++ d+++ +        +   nl++d +
  PHY93_18470|PHY93_18470  93 IVGAAGSGKTNLLSVLQENHMMnNVPVIFLDPKADMESLLTFEhlckkYNRTCYIFHENYKDSIVLNPL-----KDGTVNLIVDRI 173
                              78**************99973368888888888887766655543444444444444444333332222.....234466677777 PP

                   AAA_18  83 laelese 89 
                              ++ + +e
  PHY93_18470|PHY93_18470 174 MNSFKFE 180
                              7666655 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 1.4
                   AAA_18  27 nlrdvakenglllevdpe...aldeskrldedkldklldaleenssaleegknl.vidg 81 
                                +++  +n l +++d++   a++++++l+ + + + ++++++  s    ++++ +id 
  PHY93_18470|PHY93_18470 300 YDSHYSMNNPLAIYFDEFgaiATPRFLELQNKCRGAGMQLFMAMQS----PNDIkLIDE 354
                              2333333444444444445566666666666666666666655433....333335554 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   0.00014      0.19      12      38 ..      89     115 ..      83     229 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 0.00014
                              SEEEEEESTTSSHHHHHHHHTTSS--S CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  12 ekvaivGenGaGKStLlkllagllkpt 38 
                                + ivG  G+GK+ Ll++l +++  +
  PHY93_18470|PHY93_18470  89 AHTYIVGAAGSGKTNLLSVLQENHMMN 115
                              5789****************9887665 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   0.00021      0.29      23      42 ..      88     106 ..      82     112 .. 0.83

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00021
                              TSSEEEEEESTTSSHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxx RF
                    SMC_N  23 sksftaivGpNGSGKsnlld 42 
                              +  +t ivG+ GSGK+nll 
  PHY93_18470|PHY93_18470  88 AA-HTYIVGAAGSGKTNLLS 106
                              44.89************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (485 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       691  (0.0385409); expected 358.6 (0.02)
Passed bias filter:                      494  (0.0275531); expected 358.6 (0.02)
Passed Vit filter:                        80  (0.00446204); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.70u 0.33s 00:00:01.03 Elapsed: 00:00:00.50
# Mc/sec: 2934.16
//
Query:       PHY93_18475|PHY93_18475  [L=173]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
        2.1    8.3   7.3         18    5.3   6.3    2.1  2  Rick_17kDa_Anti  Glycine zipper 2TM domain


Domain annotation for each model (and alignments):
>> Rick_17kDa_Anti  Glycine zipper 2TM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   1.4    0.0014        26      23      40 ..      19      37 ..       9      39 .. 0.77
   2 ?    5.3   6.3     0.001        18       2      40 ..      27      70 ..      25      71 .. 0.72

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.0014
          Rick_17kDa_Anti 23 rvlGavv.GAaaGavaGna 40
                             +++G+++ G ++G+ +G++
  PHY93_18475|PHY93_18475 19 SLRGTLLtGSVLGGSLGAM 37
                             6789999999999999987 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.001
          Rick_17kDa_Anti  2 GaliGAaaGgvaGaaigg.........gggrvlGavvGAaaGavaGna 40
                             G ++G+ +G+  G              +g++++++++ A++Ga++G++
  PHY93_18475|PHY93_18475 27 GSVLGGSLGAMSG----IvfspnkeskPGNALVFGAIEAGLGALIGHY 70
                             3344444444444....3566679999*******************95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (173 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       351  (0.0195772); expected 358.6 (0.02)
Passed bias filter:                      317  (0.0176809); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.25s 00:00:00.72 Elapsed: 00:00:00.44
# Mc/sec: 1183.57
//
Query:       PHY93_18480|PHY93_18480  [L=249]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.5e-14   53.6   0.0    3.6e-14   53.0   0.0    1.3  1  TrbI      Bacterial conjugation TrbI-like protein
  ------ inclusion threshold ------
       0.11   12.4   1.7          9    6.2   0.0    2.9  2  Myosin_N  Myosin N-terminal SH3-like domain


Domain annotation for each model (and alignments):
>> TrbI  Bacterial conjugation TrbI-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.0   0.0   4.1e-18   3.6e-14       2     185 ..      79     248 ..      78     249 .] 0.79

  Alignments for each domain:
  == domain 1  score: 53.0 bits;  conditional E-value: 4.1e-18
                              E-TT--EEEEESS-EESSS-EEEEEEE-S-EE-SSSS-EEE-TT-EEEEEEEEEESSSSEEEEEEEEEEE-TT-.-EEESS----- CS
                     TrbI   2 lpaGtvipavLltginsdlpgqvtaqvtedvysatgrallIpkgsrligeydsavakgqeRvlvvwtrlilpdg.ksielggapga 86 
                              + +G++i++ Ll++++s+   +    +   vys      l p g++++     +v+k+ +Rvl v++r+i+p   +s+ +   ++ 
  PHY93_18480|PHY93_18480  79 IETGKIIKGLLLNSVVSTNLES---PLMVQVYSGY---GL-PDGTKFMC---KGVTKN-KRVLTVCDRMITPIKeVSVKV---QIL 150
                              6689999999999988876654...2334566544...55.******77...356666.************865455555...89* PP

                              -----HHHHHHHHHHHHHHHSSS-SEEEEES---EEEE------------HHHHHHHHT-TT-BHHHHHHHHHHHHTTS--EEEE- CS
                     TrbI  87 dadGraGlrGrvdnhfgkrfgaalllsllsgagellnaassssttsstgtqslaaavgegasqalsqvaqrilkraeniqptievp 172
                              ++dG++GlrG+ +    + +++a+++ ++ g+ ++ +++ ++     ++  + +++++eg++++++++++ +l+++ n  p + + 
  PHY93_18480|PHY93_18480 151 NPDGTSGLRGEYNDGKDSYIAGAVVSEFAKGVLSASKGTFQTPLGAINE-VNDKNKILEGLANSAQTTTDVLLDEYKNQEPKVFIE 235
                              ***********75554999999998888888888665544444333333.37789******************************* PP

                              TT-EEEEEESSEE CS
                     TrbI 173 qGtkvtvvvnrdl 185
                              +G++v +++++++
  PHY93_18480|PHY93_18480 236 AGKEVLIFFMEGM 248
                              **********998 PP

>> Myosin_N  Myosin N-terminal SH3-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   0.5     0.004        36      12      39 ..      13      40 ..      11      41 .. 0.83
   2 ?    6.2   0.0     0.001         9       8      21 ..     164     177 ..     162     183 .. 0.87

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.004
                             S-EEEEEEEEESSEEEEEETTSEEEEEE CS
                 Myosin_N 12 gyvkGeIkeeeGdkvtVetedGktvtVk 39
                             ++   ++ke +  +vtV  ++ +++ +k
  PHY93_18480|PHY93_18480 13 AFAQISVKEDKQQEVTVVKKKLEQRKLK 40
                             6666789**********99988888877 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.001
                              TSTTS-EEEEEEEE CS
                 Myosin_N   8 DpkegyvkGeIkee 21 
                              D k+ y++G +++e
  PHY93_18480|PHY93_18480 164 DGKDSYIAGAVVSE 177
                              99**********98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (249 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       921  (0.0513693); expected 358.6 (0.02)
Passed bias filter:                      598  (0.0333538); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.29s 00:00:00.85 Elapsed: 00:00:00.47
# Mc/sec: 1577.38
//
Query:       PHY93_18485|PHY93_18485  [L=155]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.5e-08   34.7   0.3    2.2e-08   34.1   0.2    1.3  1  CagX            Conjugal transfer protein
  ------ inclusion threshold ------
      0.019   15.2   0.5      0.032   14.5   0.5    1.3  1  DUF5390         Family of unknown function (DUF5390)
      0.081   12.2   0.1      0.094   12.0   0.1    1.2  1  Glyco_hydro_43  Glycosyl hydrolases family 43


Domain annotation for each model (and alignments):
>> CagX  Conjugal transfer protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.1   0.2   3.6e-12   2.2e-08      11      91 ..       8      88 ..       2     110 .. 0.76

  Alignments for each domain:
  == domain 1  score: 34.1 bits;  conditional E-value: 3.6e-12
                     CagX 11 gavvrvraapgyvtdielepgEkivevalGdtvr..WeveptkgnhlfvkPteaglktnlvvvTdkRtYsfeLrstekekkkl 91
                             ++++++  + + +t+i ++ gE    +  G ++    e+++ +++ l +k+++++++tnl+vvT++++Y+f++++ e++++++
  PHY93_18485|PHY93_18485  8 NQITTIFLSLHLLTTISFD-GEVRSYLFGGSKDDitLELAN-NNKTLAFKAKKKDIDTNLLVVTSRNKYYFHVKTSENNSHQF 88
                             7889999999999999996.554444444544441156666.9999****************************999444433 PP

>> DUF5390  Family of unknown function (DUF5390)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.5   5.4e-06     0.032      34      96 ..      76     139 ..      67     146 .. 0.88

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 5.4e-06
                  DUF5390  34 lkektre.allahlnyvDkqvkfneCnaekeldyarfksyfeqfvkthsdPkikiisaiqtked 96 
                              ++ kt e +  ++++ +D +++    ++++ +dy+ f+     f+ + s+ k++++ +  tk +
  PHY93_18485|PHY93_18485  76 FHVKTSEnNSHQFIEVYDGEINNSYSKIKETKDYDLFEGLSSIFIVNKSNEKMRVNEMEVTKGK 139
                              66677661567899******************************************99999876 PP

>> Glyco_hydro_43  Glycosyl hydrolases family 43
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.1   1.6e-05     0.094     116     175 ..      55     116 ..      31     142 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 1.6e-05
                              S.TSSECEEEEEEETTSEEEEEEEEEHCC..CSEEEEEEEEEETTTTEEEEEEEEEEECGCCT CS
           Glyco_hydro_43 116 s.gssgiDpslfedddGkkYlvwgqwdkr..eghseiylaeldddtlklkgektklikagtel 175
                              + +++ iD +l++    +kY+++ +  ++  +++ e+y  e+++ + k+k++k  ++++g  +
  PHY93_18485|PHY93_18485  55 KaKKKDIDTNLLVVTSRNKYYFHVKTSENnsHQFIEVYDGEINNSYSKIKETKDYDLFEGL-S 116
                              24899**********99999999887777789999*********************99998.2 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (155 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       944  (0.0526521); expected 358.6 (0.02)
Passed bias filter:                      395  (0.0220313); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.27s 00:00:00.78 Elapsed: 00:00:00.46
# Mc/sec: 1006.12
//
Query:       PHY93_16525|PHY93_16525  [L=129]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.6e-25   88.3   0.1    4.1e-25   88.1   0.1    1.0  1  Response_reg   Response regulator receiver domain
  ------ inclusion threshold ------
      0.078   12.6   0.0      0.087   12.5   0.0    1.2  1  Cons_hypoth95  Conserved hypothetical protein 95


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.1   0.1   4.6e-29   4.1e-25       1     111 [.       6     123 ..       6     124 .. 0.94

  Alignments for each domain:
  == domain 1  score: 88.1 bits;  conditional E-value: 4.6e-29
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHH.....HHHHESEEEEESSCSSSEHHHHHHHHHHCT..TTSEEEEEES CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealell.....keekvdlillDinmpgmdGlellkeireed..pelpviilta 79 
                              +l++dD ++ r  +++ l   g+++ + ae+g ea+++l      +  +dl+++D+nmp m+G+ellk+ r ++    +p i++ta
  PHY93_16525|PHY93_16525   6 ILVIDDFEMTRVMIKKNLATLGFSNFEDAENGLEAFKKLklaidMNAPFDLVFCDWNMPVMSGIELLKQCRSTPglILIPFIMVTA 91 
                              89*************************************666655566**************************7777******** PP

                              STSHHHHHHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  80 hseeedavealkagaddflsKpfdpeeLlkal 111
                              +se+e++++al +ga+d++ Kpf+pe L+k++
  PHY93_16525|PHY93_16525  92 ESESENVIKALMMGANDYIIKPFSPEVLTKKI 123
                              *****************************998 PP

>> Cons_hypoth95  Conserved hypothetical protein 95
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   9.7e-06     0.087      68     120 ..       7      60 ..       3     107 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 9.7e-06
                              EEEES-HHHHHHHHHHHCCCT--T.TTEEEEES-HHHHCTS--SS-EEEEEEE- CS
            Cons_hypoth95  68 vlvekdkeavkilkenleelklee.etaelkedaleallklakkkeefdivflD 120
                              ++++  + +  ++k+nl++l++++ e ae   +a+++l+     +++fd+vf D
  PHY93_16525|PHY93_16525   7 LVIDDFEMTRVMIKKNLATLGFSNfEDAENGLEAFKKLKLAIDMNAPFDLVFCD 60 
                              677777888899***********98777888899999999999*********99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (129 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       439  (0.0244855); expected 358.6 (0.02)
Passed bias filter:                      383  (0.021362); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.28s 00:00:00.72 Elapsed: 00:00:00.44
# Mc/sec: 888.36
//
Query:       PHY93_18490|PHY93_18490  [L=155]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (155 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1126  (0.0628033); expected 358.6 (0.02)
Passed bias filter:                      606  (0.0338); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.29s 00:00:00.80 Elapsed: 00:00:00.47
# Mc/sec: 1000.85
//
Query:       PHY93_18495|PHY93_18495  [L=461]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.049   12.8   4.1      0.087   12.0   4.1    1.3  1  TipE      Na+ channel auxiliary subunit TipE


Domain annotation for each model (and alignments):
>> TipE  Na+ channel auxiliary subunit TipE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   4.1   4.9e-06     0.087     329     421 ..     314     403 ..     302     421 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 4.9e-06
                     TipE 329 kngeeediede.laetdegndnkidavneseaavtanhinennvdtaGstiindasttattplqqllpnGtansstnisqtntntt 413
                              kng + +++++   +t+ gn+n +   + se ++  ++ + n + ++Gs+  n++s  ++ ++  ++p G+ nss ni+q  +n+ 
  PHY93_18495|PHY93_18495 314 KNGYQSSLKEKgGLNTERGNNNTV---KLSEMKMNQQNTKLNPSVSSGSNLANHESVKTNMTIS-KIPSGSFNSSQNINQKRSNSV 395
                              555555544431458999999988...7789999999999999*******99999988888886.57*************988888 PP

                     TipE 414 attntnGs 421
                               t n+n  
  PHY93_18495|PHY93_18495 396 RTVNPNAN 403
                              88777653 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (461 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       873  (0.0486921); expected 358.6 (0.02)
Passed bias filter:                      325  (0.0181271); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.64u 0.26s 00:00:00.90 Elapsed: 00:00:00.49
# Mc/sec: 2852.99
//
Query:       PHY93_18500|PHY93_18500  [L=148]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (148 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       557  (0.031067); expected 358.6 (0.02)
Passed bias filter:                      212  (0.0118244); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.46
# Mc/sec: 975.49
//
Query:       PHY93_18505|PHY93_18505  [L=265]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.046   13.9   0.0        0.1   12.8   0.0    1.7  1  HNH       HNH endonuclease
       0.07   13.0   0.0       0.19   11.6   0.0    1.7  1  HNH_5     HNH endonuclease


Domain annotation for each model (and alignments):
>> HNH  HNH endonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   1.2e-05       0.1      13      33 ..      81     101 ..      54     103 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 1.2e-05
                      HNH  13 alevdHiipisqggaddieNl 33 
                                e dH ip+  gg+ddieNl
  PHY93_18505|PHY93_18505  81 NYEFDHLIPLCAGGSDDIENL 101
                              5689****************9 PP

>> HNH_5  HNH endonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   2.1e-05      0.19      13      32 ..      82     101 ..      76     106 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 2.1e-05
                    HNH_5  13 lseeHIiPeslGGkltisnl 32 
                               + +H+iP   GG+ +i+nl
  PHY93_18505|PHY93_18505  82 YEFDHLIPLCAGGSDDIENL 101
                              678****************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (265 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       630  (0.0351386); expected 358.6 (0.02)
Passed bias filter:                      519  (0.0289475); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.28s 00:00:00.82 Elapsed: 00:00:00.47
# Mc/sec: 1694.03
//
Query:       PHY93_18510|PHY93_18510  [L=300]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.6e-11   44.9   0.0    2.3e-11   44.3   0.0    1.3  1  Radical_SAM  Radical SAM superfamily


Domain annotation for each model (and alignments):
>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.3   0.0   1.3e-15   2.3e-11       2     158 ..      26     188 ..      25     199 .. 0.76

  Alignments for each domain:
  == domain 1  score: 44.3 bits;  conditional E-value: 1.3e-15
                              EEESEESS-.-TTTSCCTTHHHHHHHHHHHHHHHHHHHHHHHHHTT..SEEEEEESSTGGGSTTHHHHHHHHHHTC...CCTEEEE CS
                              xxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxx RF
              Radical_SAM   2 vvtrgCnlr.CsfCarpetvrregrgrslsveeileevkelkaekg..vkevilgggepllypdfvellerlakla...vpgirit 81 
                               vt gC+++ C++C+ +++++ ++r+ s  + ++++++++++ + g   + ++l  g+ l  ++++ l e l+++     + +ri 
  PHY93_18510|PHY93_18510  26 QVTIGCSNNkCTYCDMYRSKKYRVRAISDILLDLKNLADYYR-STGriPDKIFLCDGDALG-APMEILEETLVHINflfPEIRRIG 109
                              68899*9999*******8766666666666777777777776.333358899999**9999.557777777777777994445555 PP

                              EEECSSCHG...HHHHHHHHHTT-SEEEEEEBSSSHHHHHHHHTCTSHHHHHHHHHHHHHHTTSETEEEEEEEBTTTSHH CS
                              xxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM  82 vetngtlpd...eeklerllelgvdrvslgleaaddekvlklmnrghtfeevlealeklreagikrvvdrivglpGende 158
                              + + +  +    ee+l++l+   ++  +lgle++d+  vl ++ +g+t +e lea  k+++ g+k +++ ++g+ G+  +
  PHY93_18510|PHY93_18510 110 IYATAENILrksEEQLKLLASKKLNIAYLGLESGDEN-VLHMIVKGNTASEMLEASLKIKNCGFKLSTIAMLGVGGQKYS 188
                              444444444456*********99**************.55555599*******************977888887777654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (300 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       521  (0.0290591); expected 358.6 (0.02)
Passed bias filter:                      467  (0.0260472); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.26s 00:00:00.83 Elapsed: 00:00:00.48
# Mc/sec: 1895.18
//
Query:       PHY93_18515|PHY93_18515  [L=184]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (184 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       581  (0.0324056); expected 358.6 (0.02)
Passed bias filter:                      325  (0.0181271); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.25s 00:00:00.72 Elapsed: 00:00:00.43
# Mc/sec: 1270.86
//
Query:       PHY93_18520|PHY93_18520  [L=445]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.4e-14   54.7   0.6    1.4e-14   54.7   0.6    1.9  2  Peptidase_C1     Papain family cysteine protease
  ------ inclusion threshold ------
          2    8.2  10.3        3.9    7.2  10.3    1.5  1  Selenoprotein_S  Selenoprotein S (SelS)
        5.4    6.2  14.9        1.8    7.7   1.8    2.2  2  NosD             Periplasmic copper-binding protein (NosD)


Domain annotation for each model (and alignments):
>> Peptidase_C1  Papain family cysteine protease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   1.2      0.36   2.1e+03      91     132 ..      88     149 ..      72     190 .. 0.48
   2 !   54.7   0.6   2.4e-18   1.4e-14      16     203 ..     220     427 ..     213     435 .. 0.80

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.36
                              -SSSCS................SS-CGCGGGSE....EBEESEEEEEESSBHHHHHHHHHHH CS
             Peptidase_C1  91 Ykakeg................gkCkkkkkkek....vakikgygkvkenseealkkalakn 132
                              Y+++++                ++ +++kk+e     ++k +++++ +++++  ++++l+++
  PHY93_18520|PHY93_18520  88 YQQQNEditpgndllktkqqeiTEWQRNKKQEIidnqIKKQQEIKDWQNEKQLIINQWLTEK 149
                              44444333333333332222222222222221121112222222222222333344444444 PP

  == domain 2  score: 54.7 bits;  conditional E-value: 2.4e-18
                              ---B-TSSBTHHHHHHHHHHHHHHHHHHSSS---B-HHHHH.....HHSTTTSTGGGBB-HHHHHHHHHH...TEBEBTTTS--SS CS
             Peptidase_C1  16 pvkdqgsCGsCWafsavgaledrlaiktkkklvslSeqelv.....dCskeenegCnGGlmenafeyikk...ggivtekdypYka 93 
                              ++kdqg+   C af  + a+e  +  +   k  +lSeq         C++ +    +G ++ na++   +    +i  ekd pY++
  PHY93_18520|PHY93_18520 220 EIKDQGQRPTCAAFTGIRAMEILMSQQG--KDEKLSEQYFFwasipKCQT-SPCQKEGSWVFNAYQSSLEaksPNIPLEKDCPYNQ 302
                              79*******************8877776..799*****765222226665.3445589********988765678**********8 PP

                              SCS.....SS-CGC.GGGSEEBEESEEEEEESSBHHHHHHHHHHHSSEEEEEECCSHHHHTEESSEESST......SCETSS-EEE CS
             Peptidase_C1  94 keg.....gkCkkk.kkkekvakikgygkvkenseealkkalakngPvsvaidaseedfqlYksGvyket......ecsktelnha 167
                              k+      +    + ++ +  akik++++v+ +  +++ +a+++  Pv   ++ +e+ f + ++ v+ ++      ++++++  ha
  PHY93_18520|PHY93_18520 303 KNLndnvtQ-IPLNnSCLTGHAKIKKFTSVQTS--AEIITAIKAGHPVIGGFKLTEN-FYKNEGYVFVQStkdggaKLDEHAGGHA 384
                              887655642.2222144444799*****99997..78*******************6.88888888888755555555568899** PP

                              EEEEEEEEET.......TEEEEEEE-SBTTTSTBTTEEEEESS CS
             Peptidase_C1 168 vlivGygven.......gkkyWivkNsWgtdwgekGYiriarg 203
                              vl+vG  +         gk + i +NsWg  wg+ G   ++++
  PHY93_18520|PHY93_18520 385 VLLVGIMKMPaelhqkeGKFCLISANSWGPGWGKGGHACLSEN 427
                              *****99887889999899999**************9877765 PP

>> Selenoprotein_S  Selenoprotein S (SelS)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2  10.3   0.00066       3.9      50     123 ..      74     146 ..      70     189 .. 0.76

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.00066
          Selenoprotein_S  50 liqklrkrlralrqresdksaaaldpd.vvvkrqealeaaRlrmqeeldakaekfkekkkqleeekRrqkiemWe 123
                              + ++lr+++++++q +++++ ++   d   +k+qe  e  R + qe+ d +++k +e k   ++ek +  i++W 
  PHY93_18520|PHY93_18520  74 VQEQLRQNREKVKQYQQQNEDITPGNDlLKTKQQEITEWQRNKKQEIIDNQIKKQQEIK-DWQNEK-QLIINQWL 146
                              5578999999888888877777755551578999999***************9977755.555555.45677775 PP

>> NosD  Periplasmic copper-binding protein (NosD)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   5.6    0.0062        37     130     190 ..      85     149 ..      71     156 .. 0.86
   2 ?    7.7   1.8   0.00031       1.8     157     189 ..     157     189 ..     154     198 .. 0.85

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.0062
                     NosD 130 iflensssntit.gNriesnqkiGilllsssegntiynNyFinnsenvkydgsn....nneWnttk 190
                              ++ ++++++ it gN + ++++  i  ++ +++++i +N+  + ++++k+ +++     n+W t+k
  PHY93_18520|PHY93_18520  85 VKQYQQQNEDITpGNDLLKTKQQEITEWQRNKKQEIIDNQI-KKQQEIKDWQNEkqliINQWLTEK 149
                              6678899999999****************************.999999998888899999997777 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.00031
                     NosD 157 sssegntiynNyFinnsenvkydgsnnneWntt 189
                               ++++n+i +N F++n++++++d +n ne ++t
  PHY93_18520|PHY93_18520 157 PKYKENLISENVFLENQIQATNDVKNSNESQKT 189
                              57899*******************997775555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (445 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1813  (0.101121); expected 358.6 (0.02)
Passed bias filter:                      405  (0.0225891); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.64u 0.28s 00:00:00.92 Elapsed: 00:00:00.47
# Mc/sec: 2875.35
//
Query:       PHY93_18525|PHY93_18525  [L=97]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
       0.12   12.6   1.1       0.12   12.6   1.1    1.9  2  Endonuc-dimeris  T4 recombination endonuclease VII, dimerisat


Domain annotation for each model (and alignments):
>> Endonuc-dimeris  T4 recombination endonuclease VII, dimerisation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   1.1   6.7e-06      0.12      17      40 ..      34      57 ..      32      61 .. 0.91
   2 ?   -1.7   1.4      0.19   3.5e+03      37      48 ..      77      88 ..      73      93 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 6.7e-06
                             -HHHHHHHHHHTT----TTS-HHH CS
          Endonuc-dimeris 17 kkeEqkeellslGikYnesdkKsd 40
                             k +Eq +e+ ++G++Y   dkK +
  PHY93_18525|PHY93_18525 34 KVQEQAKEIAQKGMEYIKGDKKDE 57
                             68*******************976 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 0.19
                             -HHHHHHHHHHH CS
          Endonuc-dimeris 37 kKsdLikiykKs 48
                             kK+   ki kKs
  PHY93_18525|PHY93_18525 77 KKTKHKKIAKKS 88
                             788888888887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (97 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1750  (0.0976072); expected 358.6 (0.02)
Passed bias filter:                      530  (0.029561); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.27s 00:00:00.76 Elapsed: 00:00:00.46
# Mc/sec: 631.37
//
Query:       PHY93_18530|PHY93_18530  [L=408]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    8.7e-47  160.0   0.0    1.2e-46  159.6   0.0    1.1  1  Oxidored_FMN  NADH:flavin oxidoreductase / NADH oxidase famil
     0.0006   19.0   0.0     0.0011   18.2   0.0    1.3  1  Dus           Dihydrouridine synthase (Dus)
     0.0073   15.8   0.0      0.012   15.0   0.0    1.3  1  His_biosynth  Histidine biosynthesis protein


Domain annotation for each model (and alignments):
>> Oxidored_FMN  NADH:flavin oxidoreductase / NADH oxidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  159.6   0.0     2e-50   1.2e-46      12     338 ..      17     341 ..      14     344 .. 0.88

  Alignments for each domain:
  == domain 1  score: 159.6 bits;  conditional E-value: 2e-50
                              EESSSEEE----S-TTTTTCS.HHHHHHHHHHHHHHTT-SEEEEEEEESSCCC-SCTTSEE-SSG.GGHHHHHHHHHHHHHTT-EE CS
             Oxidored_FMN  12 tLknRivmapmtrlraldkgnvledlaaeyysqraeipvtliiteaafvnpksggfdnapgiwde.eqieewrklteavhengskv 96 
                               LknRi+ ++m    a+++ + +++   + y+  a ++ +l+it+ +  ++   g +++  i +    i e++k ++    n+  +
  PHY93_18530|PHY93_18530  17 VLKNRIAKSAMSENMANQDYT-PNEKFQNLYHTWATGGAGLLITGNVMCDKRYLGEPKNVVIENGfLGIDELKKWAQSGIINQTHL 101
                              59*********8877777774.554555566669*************************999776268**********999***** PP

                              EEEEE--GGGS..SCSTCEC..SS.ESSSSSTTT-.S...CS-EE--HHHHHHHHHHHHHHHHHHHHTT-SEEEEEE-CTSHHHHH CS
             Oxidored_FMN  97 vvqlwhlGreakseyladqevdspsdpvaldaqeeesaeevykkeltkeeikqliqefveAAkraieAgfDgVeihganGYLlnqF 182
                              ++q+ h G+++++   +++   s+s  +al+ +  +  ++   ++l+++ei ++i+ f+ AA  a++Agf gV+ihga+GYL+nqF
  PHY93_18530|PHY93_18530 102 WMQINHPGKQSPKFLTKEPV--SAS-AIALKSPLDKMFNPP--RALDEKEIYDIIERFTFAAITAKKAGFTGVQIHGAHGYLINQF 182
                              ***********988888888..555.559999988888888..9****************************************** PP

                              H-TTT----STTSSSHHHHHHHHHHHHHHHHHHH-SSS.EEEEEECE--STTS--HHHHHHHHHHHCHCCEEEEEEETT-SS..SS CS
             Oxidored_FMN 183 lspksnkrtDeygGslenRarFllevvdaVkeavgeer.vgyRlSpedvvekgldfaetaqkivllkelekrlkdgkklalv..ha 265
                              lsp  n r D++gGsl nR+r +le+ ++ + a g ++ +g++l   d  + g ++ e  + +++l++ + +l++++ +++   ++
  PHY93_18530|PHY93_18530 183 LSPLHNSRQDQWGGSLTNRMRLVLEIYKSMRAALGGQFpIGIKLNSADFQKGGFTEEESLEVVKVLAAEKIDLIEISGGSYEapEM 268
                              ************************************************99999999999999************999988864344 PP

                              STTS-TTTTHHHCCTT.HHHHHHCCCHSSEEEE-SS--SHHHHHHHHHTTS-SEEEESTHHHH-TTHHHHHHCC CS
             Oxidored_FMN 266 aeprkrgagsvrteqe.kntefvkevwkkplitvgriadeekaaeivaegeadLvamgRefladpdlveklkkg 338
                                 +k +  + +  +  +  e++++ + +pl+ +g++ + e ++ +++ +  d+v+++R +  dp++++ + +g
  PHY93_18530|PHY93_18530 269 MGSKKESTIKREA-YFlEYCEKIRKEVTVPLMLTGGFRSREGMESALKSNACDVVGLARSVALDPNFPNEILRG 341
                              4433333333333.444888************************************************988665 PP

>> Dus  Dihydrouridine synthase (Dus)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.0   1.8e-07    0.0011      90     225 ..     185     337 ..     182     366 .. 0.86

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 1.8e-07
                              TTEEETTEEEGGGGGGSHHHHHHHHHHHHCCSS..S-EEEEEESESS....TTTC.HHHHHHHHHHCT-SEEEEESS......... CS
                      Dus  90 PskkvtrggaGaaLlrkpdlvaqivkavvkave..iPvtvkirigid....deeenalelakiveaaGaqaltvHgR......... 160
                              P +++ + + G +L +  +lv +i k ++ a++  +P+ +k           +ee++le++k + a+ ++ + + g          
  PHY93_18530|PHY93_18530 185 PLHNSRQDQWGGSLTNRMRLVLEIYKSMRAALGgqFPIGIKLNSADFqkggFTEEESLEVVKVLAAEKIDLIEISGGsyeapemmg 270
                              7788899999**********************9889999988765544556578899********************9***99998 PP

                              ECCCTT-C.G--C.HHHHHHHHH-SS-EEEESS--SHHHHHHHHHHH--SEEEESCHHCCSTTHHHH CS
                      Dus 161 traqnyeg.tadw.eaIkevkqavsipviaNGdIkdaedaqaileetGadgvmigrgalgnPwlfae 225
                              ++++   + +a++ e  ++++++v++p++  G+ +++e ++ +l+ + +d v  +r    +P++ +e
  PHY93_18530|PHY93_18530 271 SKKESTIKrEAYFlEYCEKIRKEVTVPLMLTGGFRSREGMESALKSNACDVVGLARSVALDPNFPNE 337
                              666665555666437799********************************************99884 PP

>> His_biosynth  Histidine biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   2.1e-06     0.012      61     117 ..     283     340 ..     273     364 .. 0.83

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 2.1e-06
                              HHHHHHHHHHH-SSEEEEESSSSSHHHHHHHHHCT.-SEEEESHHHHH-THHHHHHHH CS
             His_biosynth  61 nldlveeiaeevfipvqvGGGIrsledveelleag.adkviigtaavknpelikelae 117
                               l++ e+i++ev++p+++ GG rs e +e++l++  +d v ++ +++ +p++ +e+++
  PHY93_18530|PHY93_18530 283 FLEYCEKIRKEVTVPLMLTGGFRSREGMESALKSNaCDVVGLARSVALDPNFPNEILR 340
                              578899**************************98835666678778888888777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (408 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       417  (0.0232584); expected 358.6 (0.02)
Passed bias filter:                      403  (0.0224776); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.62u 0.28s 00:00:00.90 Elapsed: 00:00:00.48
# Mc/sec: 2560.59
//
Query:       PHY93_18535|PHY93_18535  [L=126]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (126 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       661  (0.0368676); expected 358.6 (0.02)
Passed bias filter:                      384  (0.0214178); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.28s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 864.42
//
Query:       PHY93_16530|PHY93_16530  [L=159]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.9e-15   55.8   0.3    6.4e-15   55.1   0.1    1.5  2  CheX      Chemotaxis phosphatase CheX
  ------ inclusion threshold ------
       0.03   14.3   2.2      0.044   13.7   2.2    1.4  1  DUF1951   Domain of unknown function (DUF1951)
       0.28   11.6   2.0       0.23   11.8   0.8    1.5  2  Nnf1      Nnf1


Domain annotation for each model (and alignments):
>> CheX  Chemotaxis phosphatase CheX
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0         1     6e+03      37      37 ..      20      20 ..       5      46 .. 0.59
   2 !   55.1   0.1   1.1e-18   6.4e-15       9      93 ..      56     144 ..      47     145 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 1
                     CheX 37 e 37
                             e
  PHY93_16530|PHY93_16530 20 E 20
                             1 PP

  == domain 2  score: 55.1 bits;  conditional E-value: 1.1e-18
                     CheX   9 GdisGliilsadeelalkiasa.lgedeeeieedvndavgEltNmiaGnakskl...geevklspPlvisgkeltisepkgakslt 90 
                               +++  +i+++d++++l ia++ +g  ++ei++ v++ + E+ Nmi G +k+kl   g+++k+s+P++i+g++   ++ k+ + + 
  PHY93_16530|PHY93_16530  56 ENLEAILIICLDKQTLLYIANKvFGSNKTEIDDAVKSCINEFSNMIFGVLKTKLtkyGYKFKMSIPSLITGTHEFSANIKNGETYQ 141
                              4558899*************99569999999********************66655599**********************99999 PP

                     CheX  91 ipf 93 
                              i+f
  PHY93_16530|PHY93_16530 142 IKF 144
                              998 PP

>> DUF1951  Domain of unknown function (DUF1951)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   2.2   7.4e-06     0.044      34     113 ..       5      87 ..       1     106 [. 0.70

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 7.4e-06
                  DUF1951  34 evPlaklkelielikneetkhyarnffi..ntellkltaieeikdvlslfkknkevlikfcl..syllykfsflfdeskkfklk 113
                              e+  + ++el e + +      a ++++  +t + kl +i ei   +slf++n e + + cl    lly  +  f  +k   + 
  PHY93_16530|PHY93_16530   5 EITEQIINELQESVNETFYAVLAEKMVVasKTRMDKLESISEITSQVSLFQENLEAILIICLdkQTLLYIANKVFGSNKT-EID 87 
                              55556666666655444444455565553369999**************************9444699999999987764.444 PP

>> Nnf1  Nnf1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.8   3.9e-05      0.23       6      42 ..       6      45 ..       4      61 .. 0.81
   2 ?   -3.5   0.0       2.3   1.4e+04      15      25 ..      90     100 ..      86     101 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 3.9e-05
                             HHHHHHHHHHHHHHHHHHHHHHHTTHHH...HHHHHHHHH CS
                     Nnf1  6 vhkqmvefleesiraefeeIleerdvve...kLneLDdli 42
                             + +q++ +l+es+++ f ++l e+ vv+   ++++L+ + 
  PHY93_16530|PHY93_16530  6 ITEQIINELQESVNETFYAVLAEKMVVAsktRMDKLESIS 45
                             679***********************97333566666655 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 2.3
                              HHHHHHHHHHH CS
                     Nnf1  15 eesiraefeeI 25 
                               +s+ +ef+ +
  PHY93_16530|PHY93_16530  90 VKSCINEFSNM 100
                              57899999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (159 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1133  (0.0631937); expected 358.6 (0.02)
Passed bias filter:                      610  (0.0340231); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.44
# Mc/sec: 1079.63
//
Query:       PHY93_18540|PHY93_18540  [L=70]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.07   12.4   0.1       0.07   12.4   0.1    1.0  1  PfkB      pfkB family carbohydrate kinase
       0.14   12.0   0.0       0.18   11.6   0.0    1.2  1  DUF5609   Domain of unknown function (DUF5609)


Domain annotation for each model (and alignments):
>> PfkB  pfkB family carbohydrate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   7.8e-06      0.07     107     160 ..       6      60 ..       2      70 .] 0.87

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 7.8e-06
                              EEEGGGGGHHHHHHHHHHHHHGCTSEEEEES.EECTTSHHHHHHHHHHHHHHTTE CS
                     PfkB 107 fnrgaaadltkeeleededlleeadllyisg.llsselpeavleelaeaaknggt 160
                              +n+  +++lt+e+l   +++ +e d+l+i+  +  +++p+++le++ + ++++ +
  PHY93_18540|PHY93_18540   6 TNLTSTNELTQEQLSVIKEWTSEEDVLRIGNiFNLDHSPVSLLELACTRKNAQEK 60 
                              6788899************************9999***********999999986 PP

>> DUF5609  Domain of unknown function (DUF5609)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0     2e-05      0.18      14      52 ..       5      42 ..       4      52 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 2e-05
                  DUF5609 14 kdkleqlqeklgealdivaaWkVgsYdVlllageltaql 52
                             +++l+  +e ++e+l++++ W+ ++ dVl++++ +  ++
  PHY93_18540|PHY93_18540  5 TTNLTSTNELTQEQLSVIKEWTSEE-DVLRIGNIFNLDH 42
                             5789999**************9665.******9887776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (70 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       454  (0.0253221); expected 358.6 (0.02)
Passed bias filter:                      272  (0.015171); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.25s 00:00:00.67 Elapsed: 00:00:00.43
# Mc/sec: 483.35
//
Query:       PHY93_18545|PHY93_18545  [L=116]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.3e-23   82.6   2.4    1.7e-23   82.3   2.4    1.1  1  PhnA            PhnA domain
    1.5e-12   47.2   4.4    2.5e-12   46.5   4.4    1.3  1  PhnA_Zn_Ribbon  PhnA Zinc-Ribbon
     0.0042   16.6   0.3     0.0081   15.7   0.3    1.5  1  TF_Zn_Ribbon    TFIIB zinc-binding
     0.0059   16.6   1.0      0.011   15.7   1.0    1.4  1  Zn_Tnp_IS1595   Transposase zinc-ribbon domain
      0.007   16.3   0.5      0.014   15.3   0.5    1.4  1  OrfB_Zn_ribbon  Putative transposase DNA-binding domain
  ------ inclusion threshold ------
      0.041   13.7   1.1       0.75    9.6   0.2    2.3  2  zf-RING_4       RING/Ubox like zinc-binding domain
      0.041   13.8   1.8         10    6.2   0.1    3.3  3  zinc_ribbon_4   zinc-ribbon domain
      0.064   13.3   1.7        2.4    8.3   0.3    2.5  2  zf-ACC          Acetyl-coA carboxylase zinc finger domain
      0.072   13.3   0.8       0.32   11.2   0.8    2.0  2  Auto_anti-p27   Sjogren's syndrome/scleroderma autoantigen 1 
      0.087   12.9   0.1       0.14   12.3   0.1    1.3  1  DUF2318         Predicted membrane protein (DUF2318)
      0.093   13.0   1.8          4    7.8   0.3    2.4  2  zinc_ribbon_9   zinc-ribbon
       0.11   12.9   1.6       0.11   12.9   1.6    2.2  2  DUF4379         Probable Zinc-ribbon domain
       0.19   12.4   0.5       0.36   11.5   0.4    1.5  1  FYDLN_acid      Protein of unknown function (FYDLN_acid)
        1.4    9.1   5.0        6.9    6.9   0.8    2.4  2  Zn-ribbon_8     Zinc ribbon domain
        2.3    8.4   6.9        2.3    8.4   0.3    2.4  2  UPF0547         Uncharacterised protein family UPF0547
        8.6    6.3   6.7         14    5.7   0.5    2.7  3  TFIIS_C         Transcription factor S-II (TFIIS)


Domain annotation for each model (and alignments):
>> PhnA  PhnA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   82.3   2.4   1.5e-26   1.7e-23       2      68 ..      50     116 .]      49     116 .] 0.94

  Alignments for each domain:
  == domain 1  score: 82.3 bits;  conditional E-value: 1.5e-26
                              B-SS--B--TTEEEEESS-EEETTTTEEE-TT-EEEEEEE--SS...E.EEEE-SS-EEEEEETTSEEE CS
                     PhnA   2 kDsnGnvLadGDsVtvikdLkVkGssstiKrGtkvknirLvddg..dhdidckvdgfgamvLksefvkK 68 
                               DsnG++L+ GD+V  ikdLkV G   tiK+Gtkvk+irL dd+  +hdi+ckvdg g+++Lk+++v+K
  PHY93_18545|PHY93_18545  50 LDSNGVQLQSGDTVRTIKDLKVGGE--TIKSGTKVKGIRLLDDPvdGHDISCKVDGHGSIYLKCSVVRK 116
                              6*********************986..6*************887777*********************9 PP

>> PhnA_Zn_Ribbon  PhnA Zinc-Ribbon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.5   4.4   2.2e-15   2.5e-12       5      30 .]       8      33 ..       5      33 .. 0.97

  Alignments for each domain:
  == domain 1  score: 46.5 bits;  conditional E-value: 2.2e-15
           PhnA_Zn_Ribbon  5 CplCaSeytYedgallvCpeCahEwe 30
                             Cp+C+S y Y+dg l++CpeCahEw+
  PHY93_18545|PHY93_18545  8 CPKCNSPYGYQDGNLWICPECAHEWT 33
                             *************************6 PP

>> TF_Zn_Ribbon  TFIIB zinc-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.3   7.2e-06    0.0081       2      27 ..       7      30 ..       6      42 .. 0.87

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 7.2e-06
                             EETTTTCEECHEETSTTCE.EESSSSB CS
             TF_Zn_Ribbon  2 kCPnCgstnlveDpergel.vCtdCGl 27
                             +CP+C+s++    +  g+l +C++C  
  PHY93_18545|PHY93_18545  7 VCPKCNSPY---GYQDGNLwICPECAH 30
                             8******95...7888*********65 PP

>> Zn_Tnp_IS1595  Transposase zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   1.0   9.4e-06     0.011      19      45 ..       6      30 ..       3      31 .. 0.92

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 9.4e-06
            Zn_Tnp_IS1595 19 fvCPhCgsrkayriktrglfqCkeCrk 45
                             +vCP+C   ++y +++  l+ C eC +
  PHY93_18545|PHY93_18545  6 QVCPKCN--SPYGYQDGNLWICPECAH 30
                             79*****..****************98 PP

>> OrfB_Zn_ribbon  Putative transposase DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.5   1.2e-05     0.014      28      56 ..       5      32 ..       2      34 .. 0.94

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 1.2e-05
           OrfB_Zn_ribbon 28 SktCseCgsknkealsgrtfkCpnCgfea 56
                             S+ C++C s   + ++g+++ Cp+C +e+
  PHY93_18545|PHY93_18545  5 SQVCPKCNSPYGY-QDGNLWICPECAHEW 32
                             9***********9.9**********9986 PP

>> zf-RING_4  RING/Ubox like zinc-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   0.2   0.00067      0.75      34      47 ..       2      15 ..       1      16 [. 0.87
   2 ?    2.5   0.0      0.11   1.2e+02      39      46 ..      24      31 ..      18      33 .. 0.77

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.00067
                zf-RING_4 34 eeeegrCPaCreeY 47
                             ++e+++CP+C ++Y
  PHY93_18545|PHY93_18545  2 SDESQVCPKCNSPY 15
                             57899********9 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.11
                zf-RING_4 39 rCPaCree 46
                             +CP+C +e
  PHY93_18545|PHY93_18545 24 ICPECAHE 31
                             69999776 PP

>> zinc_ribbon_4  zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.2   0.1     0.009        10       4      12 ..       7      15 ..       7      22 .. 0.83
   2 ?    4.9   0.0     0.022        25       5      18 ..      25      38 ..      23      45 .. 0.67
   3 ?   -0.2   0.0      0.86   9.7e+02      10      24 ..      62      76 ..      61      83 .. 0.79

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.009
            zinc_ribbon_4  4 tCpsCkaky 12
                             +Cp+C++ y
  PHY93_18545|PHY93_18545  7 VCPKCNSPY 15
                             5*****999 PP

  == domain 2  score: 4.9 bits;  conditional E-value: 0.022
            zinc_ribbon_4  5 CpsCkakyeiddek 18
                             Cp+C  + +++ + 
  PHY93_18545|PHY93_18545 25 CPECAHEWTLEKAE 38
                             77777777776665 PP

  == domain 3  score: -0.2 bits;  conditional E-value: 0.86
            zinc_ribbon_4 10 akyeiddeklpakgv 24
                             ++++i d k+ +++ 
  PHY93_18545|PHY93_18545 62 TVRTIKDLKVGGETI 76
                             788999999987765 PP

>> zf-ACC  Acetyl-coA carboxylase zinc finger domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   0.3    0.0021       2.4      18      26 .]       3      11 ..       1      11 [. 0.85
   2 ?    3.9   0.1     0.051        57      19      26 .]      21      28 ..      19      28 .. 0.82

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0021
                   zf-ACC 18 rnlyVCPkC 26
                             +  +VCPkC
  PHY93_18545|PHY93_18545  3 DESQVCPKC 11
                             5679***** PP

  == domain 2  score: 3.9 bits;  conditional E-value: 0.051
                   zf-ACC 19 nlyVCPkC 26
                             nl +CP+C
  PHY93_18545|PHY93_18545 21 NLWICPEC 28
                             77789999 PP

>> Auto_anti-p27  Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.8   0.00029      0.32      16      39 ..       6      28 ..       4      29 .. 0.90
   2 ?   -0.9   0.0       1.7   1.9e+03      10      29 ..      84      91 ..      82     101 .. 0.57

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00029
            Auto_anti-p27 16 etCpvCgvPLmrdrkggkvyCvaC 39
                             ++Cp+C++P   + +g+ ++C+ C
  PHY93_18545|PHY93_18545  6 QVCPKCNSPYGYQ-DGNLWICPEC 28
                             79*******9887.7899****** PP

  == domain 2  score: -0.9 bits;  conditional E-value: 1.7
            Auto_anti-p27 10 GwtMLaetCpvCgvPLmrdr 29
                             G ++L++            +
  PHY93_18545|PHY93_18545 84 GIRLLDD------------P 91
                             5666654............3 PP

>> DUF2318  Predicted membrane protein (DUF2318)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.1   0.00012      0.14      36      68 ..       7      39 ..       3      56 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00012
                  DUF2318 36 aCevC.ekkgYvqegeelvCknCgvrfaldsige 68
                             +C  C ++ gY q+g+  +C +C  +++l++ ++
  PHY93_18545|PHY93_18545  7 VCPKCnSPYGY-QDGNLWICPECAHEWTLEKAEA 39
                             79999555555.89**************998774 PP

>> zinc_ribbon_9  zinc-ribbon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   0.3    0.0036         4      18      29 ..       3      13 ..       1      15 [. 0.75
   2 ?    4.4   0.1     0.042        47      21      28 ..      21      29 ..      16      33 .. 0.73

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0036
            zinc_ribbon_9 18 edsdvlCPhCgg 29
                             ++s+v CP C++
  PHY93_18545|PHY93_18545  3 DESQV-CPKCNS 13
                             56667.*****8 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.042
            zinc_ribbon_9 21 dv.lCPhCg 28
                             +  +CP+C 
  PHY93_18545|PHY93_18545 21 NLwICPECA 29
                             5447****7 PP

>> DUF4379  Probable Zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.7       0.8     9e+02      50      56 .]       5      11 ..       1      11 [. 0.67
   2 ?   12.9   1.6   9.7e-05      0.11      29      40 ..      22      33 ..      12      42 .. 0.84

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.8
                  DUF4379 50 sskCpkC 56
                             s+ CpkC
  PHY93_18545|PHY93_18545  5 SQVCPKC 11
                             334***9 PP

  == domain 2  score: 12.9 bits;  conditional E-value: 9.7e-05
                  DUF4379 29 wWkCakCgheWe 40
                             +W+C++C heW 
  PHY93_18545|PHY93_18545 22 LWICPECAHEWT 33
                             8**********6 PP

>> FYDLN_acid  Protein of unknown function (FYDLN_acid)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.4   0.00033      0.36      10      50 ..       6      46 ..       4      78 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00033
               FYDLN_acid 10 riCpscgakFYDLnkdPivcpkcgeefepeevlksraaaae 50
                             ++Cp+c++ +   + +  +cp+c +e+++e++ +s++++a 
  PHY93_18545|PHY93_18545  6 QVCPKCNSPYGYQDGNLWICPECAHEWTLEKAEASKEVVAG 46
                             789999998766667889**************888887765 PP

>> Zn-ribbon_8  Zinc ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.9   0.8    0.0062       6.9      23      35 ..       3      14 ..       1      18 [. 0.71
   2 ?    4.1   0.2     0.046        52      28      34 ..      24      30 ..      15      37 .. 0.65

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.0062
              Zn-ribbon_8 23 daplta.CPeCgse 35
                             d  + + CP+C+s+
  PHY93_18545|PHY93_18545  3 D--ESQvCPKCNSP 14
                             3..4455****985 PP

  == domain 2  score: 4.1 bits;  conditional E-value: 0.046
              Zn-ribbon_8 28 aCPeCgs 34
                              CPeC +
  PHY93_18545|PHY93_18545 24 ICPECAH 30
                             4888865 PP

>> UPF0547  Uncharacterised protein family UPF0547
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   1.8      0.14   1.5e+02       1       7 [.       6      12 ..       6      14 .. 0.77
   2 ?    8.4   0.3    0.0021       2.3      16      24 ..      24      32 ..      21      33 .. 0.71

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.14
                  UPF0547  1 KvCPeCe 7 
                             +vCP C 
  PHY93_18545|PHY93_18545  6 QVCPKCN 12
                             5899996 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.0021
                  UPF0547 16 fCphCGyvF 24
                             +Cp+C +++
  PHY93_18545|PHY93_18545 24 ICPECAHEW 32
                             577777776 PP

>> TFIIS_C  Transcription factor S-II (TFIIS)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.3     0.059        66       2       8 ..       7      13 ..       6      17 .. 0.78
   2 ?    5.7   0.5     0.012        14      30      39 .]      24      33 ..      22      33 .. 0.85
   3 ?   -3.0   0.0       6.2   6.9e+03      16      24 ..      55      63 ..      55      66 .. 0.69

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.059
                  TFIIS_C  2 kCpkCgs 8 
                              CpkC+s
  PHY93_18545|PHY93_18545  7 VCPKCNS 13
                             5999987 PP

  == domain 2  score: 5.7 bits;  conditional E-value: 0.012
                  TFIIS_C 30 kCtkCghrWr 39
                              C +C h+W+
  PHY93_18545|PHY93_18545 24 ICPECAHEWT 33
                             5999999996 PP

  == domain 3  score: -3.0 bits;  conditional E-value: 6.2
                  TFIIS_C 16 lQtRsaDEp 24
                             +Q+ s+D+ 
  PHY93_18545|PHY93_18545 55 VQLQSGDTV 63
                             588888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (116 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       551  (0.0307323); expected 358.6 (0.02)
Passed bias filter:                      442  (0.0246528); expected 358.6 (0.02)
Passed Vit filter:                        83  (0.00462937); expected 17.9 (0.001)
Passed Fwd filter:                        16  (0.000892409); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              16  [number of targets reported over threshold]
# CPU time: 0.45u 0.25s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 809.64
//
Query:       PHY93_18555|PHY93_18555  [L=69]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (69 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       127  (0.0070835); expected 358.6 (0.02)
Passed bias filter:                       79  (0.00440627); expected 358.6 (0.02)
Passed Vit filter:                         1  (5.57756e-05); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.25s 00:00:00.65 Elapsed: 00:00:00.43
# Mc/sec: 480.70
//
Query:       PHY93_21730|PHY93_21730  [L=201]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (201 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       229  (0.0127726); expected 358.6 (0.02)
Passed bias filter:                      130  (0.00725082); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.22s 00:00:00.73 Elapsed: 00:00:00.46
# Mc/sec: 1324.39
//
Query:       PHY93_21735|PHY93_21735  [L=118]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.9e-40  137.4   0.6    2.1e-40  137.3   0.6    1.0  1  23S_rRNA_IVP  23S rRNA-intervening sequence protein


Domain annotation for each model (and alignments):
>> 23S_rRNA_IVP  23S rRNA-intervening sequence protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  137.3   0.6   1.2e-44   2.1e-40       2     106 .]       7     111 ..       6     111 .. 0.99

  Alignments for each domain:
  == domain 1  score: 137.3 bits;  conditional E-value: 1.2e-44
                              HHHHHHHHHHHHHHHHHHHCCCHHCGTTTHHHHHHHHHHHHHHHHHHHHTSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSS-H CS
             23S_rRNA_IVP   2 dlevwqkamdlaleiykltkkfpkeekygltsQirraavSipanIaeGsgrrskkefirflniargslaEletqlelakdlgylse 87 
                              +l+v+qka+++ l+iykl +kfpkeek++l +Qi r+a S+panI eG++r++++efi+fl+ a+gsl+E++++l lakdl+++++
  PHY93_21735|PHY93_21735   7 ELKVFQKAHSFNLKIYKLIQKFPKEEKFRLIDQICRSASSVPANIVEGNSRKTSNEFIQFLYQAKGSLSETQYHLMLAKDLKIIED 92 
                              89************************************************************************************ PP

                              HHHHHHHHHHHHHHHHHHH CS
             23S_rRNA_IVP  88 eefeelleeleeiskmlng 106
                              ++f+el++e +ei+km++g
  PHY93_21735|PHY93_21735  93 KDFDELISESDEIGKMISG 111
                              ****************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (118 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       693  (0.0386525); expected 358.6 (0.02)
Passed bias filter:                      447  (0.0249317); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.25s 00:00:00.69 Elapsed: 00:00:00.42
# Mc/sec: 836.50
//
Query:       PHY93_21740|PHY93_21740  [L=483]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   1.5e-101  340.4   1.9   1.8e-101  340.1   1.9    1.1  1  Topoisom_bac     DNA topoisomerase
    1.1e-26   92.3  14.9    4.8e-15   55.0   3.6    2.5  2  zf-C4_Topoisom   Topoisomerase DNA binding C4 zinc finger
  ------ inclusion threshold ------
      0.032   14.0   0.2      0.066   13.0   0.2    1.4  1  CK_II_beta       Casein kinase II regulatory subunit
      0.095   12.2   1.1        2.2    7.8   0.1    2.6  2  TF_Zn_Ribbon     TFIIB zinc-binding
       0.13   12.3   8.1      0.069   13.1   1.8    2.7  2  Zn_Tnp_IS1595    Transposase zinc-ribbon domain
       0.18   11.9   2.2        1.6    8.8   2.2    2.2  1  HypA             Hydrogenase/urease nickel incorporation, met
       0.19   11.5   6.2        2.5    7.9   1.0    2.5  2  Zn_Tnp_IS1       InsA N-terminal domain
       0.23   11.4   3.8          1    9.4   0.3    2.6  2  Anti-TRAP        Tryptophan RNA-binding attenuator protein in
       0.26   11.4   1.6         14    5.9   0.3    2.5  2  Zn-ribbon_8      Zinc ribbon domain
       0.38   11.0   3.2         15    5.9   0.0    3.5  3  DUF3970          Protein of unknown function (DUF3970)
       0.42   11.0   7.2        8.3    6.9   1.6    2.7  2  Lar_restr_allev  Restriction alleviation protein Lar
       0.46   11.0   2.6        1.3    9.5   2.6    1.8  1  Zn_ribbon_recom  Recombinase zinc beta ribbon domain


Domain annotation for each model (and alignments):
>> Topoisom_bac  DNA topoisomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  340.1   1.9  1.2e-104  1.8e-101      53     413 .]       1     378 [.       1     378 [. 0.92

  Alignments for each domain:
  == domain 1  score: 340.1 bits;  conditional E-value: 1.2e-104
             Topoisom_bac  53 eRereienFvpeeyweveatlkkekkeke....................kkkkkkkerikdkeeaeaileklkkkeakvesvekke 118
                              eRe+e e+F++e+y+ v a++k +k++ +                     + + +++ +k+k++a+++++ l+k+ + v++v +ke
  PHY93_21740|PHY93_21740   1 EREKEVEAFKKEKYYFVLAEIKGKKNFVAdlvkvdgknifsvnkiklfdGEYSYSSSIFKNKDKADKFISGLDKE-FLVDKVIEKE 85 
                              8*******************9555544448******************877777888899************775.********** PP

             Topoisom_bac 119 kkk.ppplpfdtttLqkeasrklglsakktlsiaqkLYekaglitYpRTdstrlseeaelkailealakkygkeylefaekllkkt 203
                              +++ p p pf+t++Lq++a+r+ g+s k+t++ aq+LYek glitY+RTds +ls++a +++++++++k+yg++y + + +++k+t
  PHY93_21740|PHY93_21740  86 TSRsPLP-PFTTSKLQQAAARRMGWSGKRTMQSAQRLYEK-GLITYHRTDSVYLSDKA-ITEFRKFIEKEYGANYVSEKVRVFKNT 168
                              *994555.*******************************8.*****************.9*****************888888744 PP

             Topoisom_bac 204 kkksvvknkkveaHeAIrPteelp.klkelsddekklYelIvrrflaslmkdakyeettvklev.......eeeefkasgktilek 281
                                    kn++ eaHeAIrPt+    + +e ++ e+klYe+I++r +a++ + a++++ttv+l +       ++  f+++g ++l++
  PHY93_21740|PHY93_21740 169 -----SKNAQ-EAHEAIRPTKVSIkDIEEADSRERKLYEMIWKRAVATQGAVARMKNTTVDLVNpssggagKNGIFRSKGVRMLFD 248
                              .....35889.*********6655555888899*****************************7777888888899*********** PP

             Topoisom_bac 282 GfkkvykeekkeeeeeelpelkegeevkvkeveleekkTkppkryteasLikamekagiGtpaTraeiieklvergYverkkkslv 367
                              Gf+k+  e+ ++ +   lpelkeg++++ k+v  ee++T+pp+ryt+asL++ +ek giG+p+T+a ii++++ r+Yver++++++
  PHY93_21740|PHY93_21740 249 GFLKISGEKHED-Q--ILPELKEGDKLPNKKVWSEEGETNPPPRYTDASLVSSLEKQGIGRPSTYAPIISTIILRQYVERDEGKFK 331
                              *****9865554.3..6***************************************************************999*** PP

             Topoisom_bac 368 ptelGkalvell.ekfkdlvspelTaeleekLdeIaegkadakevld 413
                              pt+lG+a +e+l ++f d+ s  +Tae+ee+LdeIa+gk ++ke+++
  PHY93_21740|PHY93_21740 332 PTSLGIAANEFLvKNFGDILSLPFTAEMEEDLDEIARGKWEWKEMMK 378
                              ************999*****************************985 PP

>> zf-C4_Topoisom  Topoisomerase DNA binding C4 zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.0   3.6   3.2e-18   4.8e-15       1      37 [.     406     443 ..     406     445 .. 0.95
   2 !   42.7   3.6   2.4e-14   3.6e-11       3      33 ..     449     480 ..     447     483 .] 0.93

  Alignments for each domain:
  == domain 1  score: 55.0 bits;  conditional E-value: 3.2e-18
                              -EE-SSS-.-EEEEEE-SSSEEEEESST.T----EEB- CS
           zf-C4_Topoisom   1 vekCPkCg.gdLvlkrgkkGkFvGCsnYPeCkftkklk 37 
                              +ekCP C+ gdLv++ g++GkFv+Cs++P+Ck+t++ k
  PHY93_21740|PHY93_21740 406 GEKCPDCKeGDLVIRLGRFGKFVSCSRFPDCKYTRPYK 443
                              68*********************************987 PP

  == domain 2  score: 42.7 bits;  conditional E-value: 2.4e-14
                              E-SSS--EEEEEE-SSS.EEEEESST.T---- CS
           zf-C4_Topoisom   3 kCPkCggdLvlkrgkkG.kFvGCsnYPeCkft 33 
                              kCP Cg+d v++r+k G kF GCsnYP+Ck +
  PHY93_21740|PHY93_21740 449 KCPDCGADGVVRRTKTGrKFFGCSNYPKCKWA 480
                              8****************************965 PP

>> CK_II_beta  Casein kinase II regulatory subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.2   4.4e-05     0.066      21      90 ..     147     219 ..     140     223 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 4.4e-05
               CK_II_beta  21 dfiedkfnltgLseevpnykealelildv...eeeeeleeseksevessaelLYgliHaryiltkkglakmle 90 
                              +fie ++    +se+v+ +k++ +   ++    + ++ + ++ +e++s++++LY +i +r + t+ ++a+m++
  PHY93_21740|PHY93_21740 147 KFIEKEYGANYVSEKVRVFKNTSKNAQEAheaIRPTKVSIKDIEEADSRERKLYEMIWKRAVATQGAVARMKN 219
                              7999999999999999999988888877733333566788889999999********************9986 PP

>> TF_Zn_Ribbon  TFIIB zinc-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.1     0.073   1.1e+02       2      10 ..     408     416 ..     407     423 .. 0.80
   2 ?    7.8   0.1    0.0015       2.2       1      18 [.     448     465 ..     448     468 .. 0.89

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.073
                              EETTTTCEE CS
             TF_Zn_Ribbon   2 kCPnCgstn 10 
                              kCP+C+  +
  PHY93_21740|PHY93_21740 408 KCPDCKEGD 416
                              8****9755 PP

  == domain 2  score: 7.8 bits;  conditional E-value: 0.0015
                              EEETTTTCEECHEETSTT CS
             TF_Zn_Ribbon   1 ykCPnCgstnlveDperg 18 
                              +kCP+Cg + +v+ +++g
  PHY93_21740|PHY93_21740 448 FKCPDCGADGVVRRTKTG 465
                              79*****98899999987 PP

>> Zn_Tnp_IS1595  Transposase zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   0.5      0.15   2.3e+02      20      45 ..     408     438 ..     404     439 .. 0.74
   2 ?   13.1   1.8   4.6e-05     0.069      17      44 ..     446     478 ..     445     479 .. 0.88

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.15
            Zn_Tnp_IS1595  20 vCPhCgsr.kayriktrglf.qCke...Crk 45 
                               CP C+    ++r+ + g+f  C++   C++
  PHY93_21740|PHY93_21740 408 KCPDCKEGdLVIRLGRFGKFvSCSRfpdCKY 438
                              7****98888888888555537888888876 PP

  == domain 2  score: 13.1 bits;  conditional E-value: 4.6e-05
            Zn_Tnp_IS1595  17 ngfvCPhCgsr.kayrikt.rglfqCke...Cr 44 
                              +gf CP Cg +  ++r+kt r+ f C+    C+
  PHY93_21740|PHY93_21740 446 AGFKCPDCGADgVVRRTKTgRKFFGCSNypkCK 478
                              589********999999999******9877775 PP

>> HypA  Hydrogenase/urease nickel incorporation, metallochaperone, hypA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   2.2     0.001       1.6      42      97 ..     375     458 ..     373     469 .. 0.77

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.001
                              HHHHHHHHHHHCC.T.TT..T-EEEEEEE--EEEETTTS-EEECHHHHH...........................S-TTTSSS-E CS
                     HypA  42 eaLefafellaegtv.le..gaeLeieevpvkvrCreCgkefeleekal...........................rCpkCgsadv 97 
                              e+++  ++ ++++ v +e  g +++ie +++  +C +C+ e++l  + l                           +Cp+Cg+ +v
  PHY93_21740|PHY93_21740 375 EMMKSFWKKFEKEVVsAEknGERVKIEAEKLGEKCPDCK-EGDLVIR-LgrfgkfvscsrfpdckytrpykedagfKCPDCGADGV 458
                              678888888888877544446889999999999*****9.5554433.2334778999999999999999999999******9876 PP

>> Zn_Tnp_IS1  InsA N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.9   0.4    0.0072        11       8      21 ..     409     423 ..     407     437 .. 0.87
   2 ?    7.9   1.0    0.0016       2.5       7      21 ..     449     463 ..     447     477 .. 0.81

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.0072
               Zn_Tnp_IS1   8 CPrCsstd.VyRhGk 21 
                              CP C+  d V+R G+
  PHY93_21740|PHY93_21740 409 CPDCKEGDlVIRLGR 423
                              ************998 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.0016
               Zn_Tnp_IS1   7 hCPrCsstdVyRhGk 21 
                               CP C ++ V+R  k
  PHY93_21740|PHY93_21740 449 KCPDCGADGVVRRTK 463
                              6***********766 PP

>> Anti-TRAP  Tryptophan RNA-binding attenuator protein inhibitory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.5   0.1     0.094   1.4e+02       4      17 ..     400     413 ..     385     420 .. 0.69
   2 ?    9.4   0.3   0.00069         1      25      50 ..     442     468 ..     428     471 .. 0.79

  Alignments for each domain:
  == domain 1  score: 2.5 bits;  conditional E-value: 0.094
                              S-HHHCEEE-TTTT CS
                Anti-TRAP   4 ialpeLEtkCdaCn 17 
                              i  + L +kC+ C+
  PHY93_21740|PHY93_21740 400 IEAEKLGEKCPDCK 413
                              44455555555554 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.00069
                              E......E-TTTTTSSEE.E-HHHHHH CS
                Anti-TRAP  25 eeprasleCPkCsGkgli.pTaqGqkL 50 
                               ++ a+++CP+C+  g++  T+ G+k 
  PHY93_21740|PHY93_21740 442 YKEDAGFKCPDCGADGVVrRTKTGRKF 468
                              45679***********98358888875 PP

>> Zn-ribbon_8  Zinc ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.1   0.0     0.035        53      19      35 ..     398     416 ..     384     420 .. 0.72
   2 ?    5.9   0.3    0.0093        14      27      38 ..     448     460 ..     435     462 .. 0.75

  Alignments for each domain:
  == domain 1  score: 4.1 bits;  conditional E-value: 0.035
              Zn-ribbon_8  19 qsisdaplta.CPeCgs.e 35 
                              ++i  ++l + CP+C++ +
  PHY93_21740|PHY93_21740 398 VKIEAEKLGEkCPDCKEgD 416
                              55664444455****8765 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.0093
              Zn-ribbon_8  27 taCPeCgs.evrr 38 
                               +CP+Cg+  v r
  PHY93_21740|PHY93_21740 448 FKCPDCGAdGVVR 460
                              5699999987766 PP

>> DUF3970  Protein of unknown function (DUF3970)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.1      0.32   4.8e+02      14      45 ..      66      98 ..      60     101 .. 0.87
   2 ?    2.0   0.1      0.17   2.5e+02      11      31 ..     140     160 ..     137     172 .. 0.81
   3 ?    5.9   0.0    0.0099        15      12      33 ..     372     393 ..     367     399 .. 0.84

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 0.32
                  DUF3970 14 eeflksleknyevtytS.keytrtnNPKYkysK 45
                             ++f+  l+k++ v  +  ke  r+  P + +sK
  PHY93_21740|PHY93_21740 66 DKFISGLDKEFLVDKVIeKETSRSPLPPFTTSK 98
                             78999********99988*****9999999888 PP

  == domain 2  score: 2.0 bits;  conditional E-value: 0.17
                  DUF3970  11 eEieeflksleknyevtytSk 31 
                              + i ef k +ek+y  +y+S 
  PHY93_21740|PHY93_21740 140 KAITEFRKFIEKEYGANYVSE 160
                              67899999999********93 PP

  == domain 3  score: 5.9 bits;  conditional E-value: 0.0099
                  DUF3970  12 EieeflksleknyevtytSkey 33 
                              E +e++ks+ k++e++ +S e 
  PHY93_21740|PHY93_21740 372 EWKEMMKSFWKKFEKEVVSAEK 393
                              7899**************9553 PP

>> Lar_restr_allev  Restriction alleviation protein Lar
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.6   0.4    0.0069        10       5      39 ..     408     440 ..     406     449 .. 0.79
   2 ?    6.9   1.6    0.0056       8.3       6      35 ..     450     478 ..     448     482 .. 0.86

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.0069
          Lar_restr_allev   5 pCPfCggravlersqrvvaeigqcvyCad...Cgastp 39 
                               CP C++ + ++r +r  +    +v+C     C++ t 
  PHY93_21740|PHY93_21740 408 KCPDCKEGDLVIRLGRFGK----FVSCSRfpdCKY-TR 440
                              6*****************9....9***55555*99.33 PP

  == domain 2  score: 6.9 bits;  conditional E-value: 0.0056
          Lar_restr_allev   6 CPfCggravlersqrvvaeigqcvyCad...Cg 35 
                              CP Cg ++v+ r++ +++    ++ C +   C+
  PHY93_21740|PHY93_21740 450 CPDCGADGVVRRTKTGRK----FFGCSNypkCK 478
                              *****************9....88887766675 PP

>> Zn_ribbon_recom  Recombinase zinc beta ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   2.6    0.0009       1.3       7      33 ..     449     475 ..     448     479 .. 0.90

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.0009
          Zn_ribbon_recom   7 rCgeCGspmtrrkrkgkrhyYrCstyr 33 
                              +C +CG+  ++r++k +r  + Cs+y 
  PHY93_21740|PHY93_21740 449 KCPDCGADGVVRRTKTGRKFFGCSNYP 475
                              7*************9**********94 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (483 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       877  (0.0489152); expected 358.6 (0.02)
Passed bias filter:                      569  (0.0317363); expected 358.6 (0.02)
Passed Vit filter:                        69  (0.00384851); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.62u 0.30s 00:00:00.92 Elapsed: 00:00:00.46
# Mc/sec: 3164.37
//
Query:       PHY93_21745|PHY93_21745  [L=216]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.9e-06   27.1   2.4    4.4e-06   26.9   0.8    1.8  2  HTH_31    Helix-turn-helix domain
    5.4e-06   26.4   0.2    1.1e-05   25.3   0.2    1.6  1  HTH_3     Helix-turn-helix
      0.001   18.9   0.5     0.0022   17.8   0.5    1.6  1  HTH_25    Helix-turn-helix domain
     0.0064   16.5   0.1      0.013   15.5   0.1    1.5  1  HTH_19    Helix-turn-helix domain
      0.009   16.4   0.0      0.018   15.5   0.0    1.5  1  HTH_26    Cro/C1-type HTH DNA-binding domain


Domain annotation for each model (and alignments):
>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.9   0.8   1.2e-09   4.4e-06       4      59 ..      14      67 ..      12      72 .. 0.92
   2 ?   -1.5   0.0      0.91   3.3e+03      12      28 ..     129     146 ..     126     150 .. 0.73

  Alignments for each domain:
  == domain 1  score: 26.9 bits;  conditional E-value: 1.2e-09
                   HTH_31  4 alLralReraGLsqeevAerlgvsestlsrlEqGrrgrpspavlealaralgldpa 59
                              l+ra Re++G++q ++Ae + +se t+ r E    g  s ++l ala  l+ld +
  PHY93_21745|PHY93_21745 14 NLVRAEREKRGWTQLHLAEIASLSERTVQRFEKDGVG--SKETLLALASSLDLDIE 67
                             589*********************************8..*************9954 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.91
                   HTH_31  12 raGLsqe.evAerlgvse 28 
                              +aGLs++ e  +r+ + e
  PHY93_21745|PHY93_21745 129 AAGLSRDvEISDRVEWAE 146
                              789998877777777665 PP

>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.3   0.2   3.1e-09   1.1e-05       1      55 []      16      69 ..      16      69 .. 0.93

  Alignments for each domain:
  == domain 1  score: 25.3 bits;  conditional E-value: 3.1e-09
                             HHHHHHHTTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHHHH CS
                    HTH_3  1 lkelRkqlglsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvsldel 55
                             +++ R+++g++q  LAe + +s +t++r E++    s etl++la  L+++++ l
  PHY93_21745|PHY93_21745 16 VRAEREKRGWTQLHLAEIASLSERTVQRFEKD-GVGSKETLLALASSLDLDIEKL 69
                             5899****************************.447*************999865 PP

>> HTH_25  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.5   6.2e-07    0.0022       3      33 ..      17      47 ..      15      69 .. 0.93

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 6.2e-07
                             HHHHHTTT--HHHHHHHSS--HHHHHHHHCT CS
                   HTH_25  3 raaRearglsleevaketkIrkdylealEed 33
                             ra+Re+rg++   +a+   +++++++++E+d
  PHY93_21745|PHY93_21745 17 RAEREKRGWTQLHLAEIASLSERTVQRFEKD 47
                             89***************************98 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.1   3.6e-06     0.013       4      59 ..      16      69 ..      13      73 .. 0.90

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 3.6e-06
                   HTH_19  4 LkeaReelgltqeelaerlgisrskisaiEngkkdvpsaelllkiaealgidleyl 59
                             +++ Re++g+tq  lae ++ s +    +E++   v s e+ll++a  l++d+e l
  PHY93_21745|PHY93_21745 16 VRAEREKRGWTQLHLAEIASLSERTVQRFEKD--GVGSKETLLALASSLDLDIEKL 69
                             7888**************************77..56779999*******9999876 PP

>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0     5e-06     0.018       8      61 ..      22      73 ..      16      75 .. 0.90

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 5e-06
                   HTH_26  8 drgitkseLargtgisaatlsrlvkgkpervsldtLdkiCdaLgctpgDLleye 61
                             +rg t+  La+ + +s+ t++r+ k+     s +tL +++  L+ +++ L e e
  PHY93_21745|PHY93_21745 22 KRGWTQLHLAEIASLSERTVQRFEKDG--VGSKETLLALASSLDLDIEKLTEEE 73
                             79999999******************7..5788***************998755 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (216 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       304  (0.0169558); expected 358.6 (0.02)
Passed bias filter:                      290  (0.0161749); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.52u 0.26s 00:00:00.78 Elapsed: 00:00:00.47
# Mc/sec: 1396.01
//
Query:       PHY93_21750|PHY93_21750  [L=404]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (404 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       378  (0.0210832); expected 358.6 (0.02)
Passed bias filter:                      280  (0.0156172); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.58u 0.26s 00:00:00.84 Elapsed: 00:00:00.47
# Mc/sec: 2558.54
//
Query:       PHY93_08295|PHY93_08295  [L=368]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.047   14.2   0.7        1.8    9.1   0.4    2.5  2  Phage_connect_1  Phage gp6-like head-tail connector protein
       0.31   11.3   4.1        6.8    6.9   0.1    3.0  3  PI_PP_I          Phosphoinositide phosphatase insertion domai


Domain annotation for each model (and alignments):
>> Phage_connect_1  Phage gp6-like head-tail connector protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   0.4    0.0002       1.8      24      99 .]     204     279 ..     200     279 .. 0.86
   2 ?    2.9   0.0     0.017   1.6e+02      45      66 ..     285     306 ..     280     341 .. 0.84

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.0002
          Phage_connect_1  24 sliqaAeeyikdylgrkleadedgielpedlktavlelaahryenregtssdssegkslse.dnlpkglekiinqlR 99 
                              +  q+ +++++++++++le++  + +  +d+  a+le +++  ++   +++++ e  + s   n+ +++e +i  ++
  PHY93_08295|PHY93_08295 204 ESHQMLKDTLENNINQRLENICVALQTRADVISATLEYIVKNNNRC-FSKEEYDEYSTPSRdHNISFDIENLIYGWK 279
                              5567889999********99999999**************998888.77777888888888899999*999998886 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.017
          Phage_connect_1  45 edgielpedlktavlelaahry 66 
                              ++++elpe++ +a+++la+++ 
  PHY93_08295|PHY93_08295 285 QKQSELPENIQQALEYLAGKDL 306
                              5778999999999999999865 PP

>> PI_PP_I  Phosphoinositide phosphatase insertion domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.0      0.35   3.2e+03      39      70 ..      21      52 ..       7      58 .. 0.80
   2 ?    3.9   0.7    0.0066        59       6      61 ..     189     246 ..     184     252 .. 0.70
   3 ?    6.9   0.1   0.00076       6.8      25      56 ..     263     296 ..     255     328 .. 0.76

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 0.35
                             HHHHHHHH-SSHHHHHHHHHCT-SS--HHHHT CS
                  PI_PP_I 39 kWeeikktslsLeedLnkiannktplPsWfne 70
                             ++  ik+   + +  L+ i + +++lP +f++
  PHY93_08295|PHY93_08295 21 NYYGIKTDCADAAIALRVIYAFEQQLPVYFKD 52
                             56678888888888899999999999999975 PP

  == domain 2  score: 3.9 bits;  conditional E-value: 0.0066
                              HCS-HHHHHHHHC--TT--SH.HHHHHHHHHHHHHH.HHHHHH-SSHHHHHHHHHCT- CS
                  PI_PP_I   6 rkLeeyqqaYflnleskeasl.kklkqdlnqfllkW.eeikktslsLeedLnkiannk 61 
                                L++ q+ Yf++++ +++ l  +l+ ++nq l +    +++++  +++ L+ i +n+
  PHY93_08295|PHY93_08295 189 EYLKQGQKYYFSKIKESHQMLkDTLENNINQRLENIcVALQTRADVISATLEYIVKNN 246
                              5688899999999766655551679999999776541455666667777777777665 PP

  == domain 3  score: 6.9 bits;  conditional E-value: 0.00076
                              SHHHHHHHHHHHHHHHHHHH..HH-SSHHHHHHH CS
                  PI_PP_I  25 slkklkqdlnqfllkWeeik..ktslsLeedLnk 56 
                                +++ +d+ +++  W+ ik  +++++L e++++
  PHY93_08295|PHY93_08295 263 RDHNISFDIENLIYGWKIIKqrQKQSELPENIQQ 296
                              56799***************43344456555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (368 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       886  (0.0494171); expected 358.6 (0.02)
Passed bias filter:                      544  (0.0303419); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.60u 0.29s 00:00:00.88 Elapsed: 00:00:00.48
# Mc/sec: 2287.59
//
Query:       PHY93_16535|PHY93_16535  [L=358]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.6e-10   39.7   0.2    4.3e-05   23.7   0.0    2.2  2  Peptidase_C1     Papain family cysteine protease
    5.1e-05   23.9   0.0    0.00041   20.9   0.0    2.3  2  Peptidase_C39_2  Peptidase_C39 like family
    0.00058   20.1   0.0        1.8    8.9   0.0    2.6  2  BtrH_N           Butirosin biosynthesis protein H, N-terminal


Domain annotation for each model (and alignments):
>> Peptidase_C1  Papain family cysteine protease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.7   0.0   7.2e-09   4.3e-05      14      97 ..      59     145 ..      48     179 .. 0.83
   2 !   13.9   0.1   7.3e-06     0.044     158     191 ..     274     324 ..     250     332 .. 0.80

  Alignments for each domain:
  == domain 1  score: 23.7 bits;  conditional E-value: 7.2e-09
                              SG---B-TSSBTHHHHHHHHHHHHHHHHHHSSS---B-HHHHHHHSTTTSTGGGBB-HHHHHHHHHHTEBEBTTTS--SSSCS... CS
             Peptidase_C1  14 vtpvkdqgsCGsCWafsavgaledrlaiktkkklvslSeqelvdCskeenegCnGGlmenafeyikkggivtekdypYkakeg... 96 
                               ++v+ q+  G C  fsa++ le+ l+ k  + +++lSe+ l      +n+  +G   ++ f  i + g+ +e++ pY +++    
  PHY93_16535|PHY93_16535  59 QSAVRSQAARGTCSIFSATAYLEGLLIKKGLNASLDLSEEWLQYTAV-RNKSSDGSSGWDNFAAIRDFGMPSEESLPYIGEDWaea 143
                              5789*********************999998*******999887776.899***************************98875444 PP

                              .S CS
             Peptidase_C1  97 .g 97 
                               +
  PHY93_16535|PHY93_16535 144 fN 145
                              41 PP

  == domain 2  score: 13.9 bits;  conditional E-value: 7.3e-06
                              SCETSS-EEEEEEEEEEEET.................TEEEEEEE-SBTTT CS
             Peptidase_C1 158 ecsktelnhavlivGygven.................gkkyWivkNsWgtd 191
                              e +k+   h++l+vGy+ ++                  k  + +kNsWgt+
  PHY93_16535|PHY93_16535 274 ESRKHPAGHSILVVGYDDNKivektvkmadgatkkftYKGVYYFKNSWGTS 324
                              44556789**************************9997777889*****86 PP

>> Peptidase_C39_2  Peptidase_C39 like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.0      0.24   1.4e+03       7      45 ..      64     104 ..      57     151 .. 0.69
   2 !   20.9   0.0   6.9e-08   0.00041      85     140 ..     212     301 ..     175     305 .. 0.86

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.24
          Peptidase_C39_2   7 nQldelpngCeptslamvlsyl....gkkvtqnelakelktns 45 
                              +Q  +++ +C++ s++  l+ l    g + + +   ++l++++
  PHY93_16535|PHY93_16535  64 SQ--AARGTCSIFSATAYLEGLlikkGLNASLDLSEEWLQYTA 104
                              56..778889999999999887664444555555555555555 PP

  == domain 2  score: 20.9 bits;  conditional E-value: 6.9e-08
          Peptidase_C39_2  85 rgssieevkkeidagkPvvvsvtt.fkpl..............................ndgeikftssgHlvvitGYdekg...k 136
                                ss++evk  +++g+Pvv+ v++  + +                              ++ e    ++gH+++++GYd+++   k
  PHY93_16535|PHY93_16535 212 YVSSVSEVKALLQSGIPVVLEVDFfYGAWnhreaddfgigrnldhwskgivtfpegdslDEVESRKHPAGHSILVVGYDDNKiveK 297
                              45789******************988888****************************997778899**************995555 PP

          Peptidase_C39_2 137 rvyv 140
                              +v +
  PHY93_16535|PHY93_16535 298 TVKM 301
                              5555 PP

>> BtrH_N  Butirosin biosynthesis protein H, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.9   0.0   0.00029       1.8      69     100 ..     206     237 ..     177     246 .. 0.78
   2 !    8.5   0.0   0.00038       2.3     107     126 ..     274     293 ..     272     296 .. 0.87

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.00029
                   BtrH_N  69 vketkdpeeawkalkeeLdaGrpvivqvdvyy 100
                              +++ +      +++k+ L++G+pv++ vd +y
  PHY93_16535|PHY93_16535 206 FSSSNFYVSSVSEVKALLQSGIPVVLEVDFFY 237
                              4455555567789****************998 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.00038
                   BtrH_N 107 esrlhfnaHnvvvyGyddee 126
                              esr h ++H ++v+Gydd++
  PHY93_16535|PHY93_16535 274 ESRKHPAGHSILVVGYDDNK 293
                              589999***********875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (358 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       396  (0.0220871); expected 358.6 (0.02)
Passed bias filter:                      334  (0.018629); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.57u 0.27s 00:00:00.84 Elapsed: 00:00:00.48
# Mc/sec: 2264.34
//
Query:       PHY93_08300|PHY93_08300  [L=190]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.088   12.0   0.0       0.12   11.5   0.0    1.1  1  StbA      StbA protein
      0.094   12.4   0.9       0.35   10.5   0.9    2.0  1  Fels1     Fels-1 Prophage Protein-like


Domain annotation for each model (and alignments):
>> StbA  StbA protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   1.4e-05      0.12     186     307 ..      58     174 ..      50     179 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 1.4e-05
                     StbA 186 giskvkgdskiGvslitdavkealetaktrtssfladeliknrkdeeyLkrrindedkresvlevine.kvkkLkerviravsefs 270
                              +i +v + + iG+s+++ ++ e + t+   ts+      i+  +  ++Lk+ ++ +   +s+ +  ++    +Lke+  +   e +
  PHY93_08300|PHY93_08300  58 EINQVVCRDCIGTSILMTNIFEGMGTSYRSTSEN-----ISTYEFVDFLKQGMYVTFSSKSIYNQTDSyDSATLKEKFLSLCPENT 138
                              589*****************99888766666554.....55666678999999999999999988887245789999999999999 PP

                     StbA 271 gythvmvvGGGaeliaeaikkatevsdekvikvdnpq 307
                              + + v+   G a+ + + +k  t    + + ++dnp 
  PHY93_08300|PHY93_08300 139 DNALVFFSLGHASNVLDEVKYVTC-DSNIFRMNDNPD 174
                              999999999999999999998755.677777888885 PP

>> Fels1  Fels-1 Prophage Protein-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.9   3.9e-05      0.35      10      29 ..      31      54 ..      23      93 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 3.9e-05
                    Fels1 10 ifspanGVfCDvkerlCrd....S 29
                              +sp+  ++CD+ e lC +     
  PHY93_08300|PHY93_08300 31 SYSPKLKIICDKDESLCNQlcniE 54
                             6899999**********8755551 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (190 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       614  (0.0342462); expected 358.6 (0.02)
Passed bias filter:                      352  (0.019633); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.26s 00:00:00.76 Elapsed: 00:00:00.46
# Mc/sec: 1247.69
//
Query:       PHY93_08305|PHY93_08305  [L=898]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (898 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       514  (0.0286686); expected 358.6 (0.02)
Passed bias filter:                      331  (0.0184617); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.73u 0.28s 00:00:01.01 Elapsed: 00:00:00.48
# Mc/sec: 5666.94
//
Query:       PHY93_08310|PHY93_08310  [L=181]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (181 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       565  (0.0315132); expected 358.6 (0.02)
Passed bias filter:                      342  (0.0190752); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.27s 00:00:00.76 Elapsed: 00:00:00.46
# Mc/sec: 1187.22
//
Query:       PHY93_08315|PHY93_08315  [L=511]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (511 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       645  (0.0359752); expected 358.6 (0.02)
Passed bias filter:                      478  (0.0266607); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.59u 0.28s 00:00:00.87 Elapsed: 00:00:00.45
# Mc/sec: 3405.67
//
Query:       PHY93_08320|PHY93_08320  [L=314]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (314 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       546  (0.0304535); expected 358.6 (0.02)
Passed bias filter:                      314  (0.0175135); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.44
# Mc/sec: 2125.05
//
Query:       PHY93_08325|PHY93_08325  [L=417]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.8e-25   87.1   0.0    3.6e-12   45.3   0.0    2.2  2  HSP70     Hsp70 protein
      7e-10   38.2   0.0    0.00027   19.8   0.0    2.9  2  MreB_Mbl  MreB/Mbl protein
  ------ inclusion threshold ------
      0.041   12.9   0.0        1.2    8.0   0.0    2.1  2  PilM_2    Type IV pilus assembly protein PilM;
       0.11   11.7   0.0       0.85    8.8   0.0    2.0  2  StbA      StbA protein


Domain annotation for each model (and alignments):
>> HSP70  Hsp70 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.3   0.0     8e-16   3.6e-12     102     207 ..      85     195 ..      69     234 .. 0.87
   2 !   39.6   0.0   4.4e-14     2e-10     257     369 ..     304     411 ..     298     415 .. 0.86

  Alignments for each domain:
  == domain 1  score: 45.3 bits;  conditional E-value: 8e-16
                              EETTEEEEHHHHHHHHHHHHHHHHHHHHTSBEEEEEEEEXTTX....XHHH..HHHHHHHHHHTTXEEEEEEEHHHHHHHHHHTCC CS
                    HSP70 102 eaagekftpeqisamvLkklketaeaylgkkvtdavitvPaYf....ndaq..RqatkdAgkiAGLnvlRivNepTAaalaYGldk 181
                              ++ +++++ ++i a +L+ ++e+a++ ++++v+ +v+  Pa +    +d q     ++ A ++AG++ +    ep Aa+l Y    
  PHY93_08325|PHY93_08325  85 TVFNKTMSISEIVAVFLSTMRERANKITNENVERIVLGRPALYslnkEDDQlaQDRMQKACELAGFKEVVFCPEPIAAGLDYNAST 170
                              455789************************************96643244422345788************************998 PP

                              SSSCEEEEEEEEXSSXEEEEEEEEET CS
                    HSP70 182 kdkernvlvyDlGggtfdvSilelek 207
                              +  e++vl+ D+Gggt d  +++++k
  PHY93_08325|PHY93_08325 171 ST-EKIVLIADFGGGTSDFTLMKIHK 195
                              87.********************987 PP

  == domain 2  score: 39.6 bits;  conditional E-value: 4.4e-14
                              HHHHHHHHHHTTTSSCSEEEEEEEEEETTTEEEEEEEEHHHHHHHHHHHHHHTHHHHHHHHHHCTEEGGGCSEEEEESGGGGSHHH CS
                    HSP70 257 keaaekaKkeLSsskqteinleietvdedgkdlseklsRakfeelvedllertlepvekalkdaklkkeeidevvlvGGstRiPkv 342
                               ++ ek K+ L s+ +t     ++     g d++e++s++ ++  +++ +e+++  + +++k+++l+ +++d+v l GG++ +Pk+
  PHY93_08325|PHY93_08325 304 FDEIEKSKIRLGSNDRT--I--FDYHYP-GIDINEEISKNSYQLSITPAVEEIIATMMEVFKQSGLSISDVDQVCLTGGTSQLPKI 384
                              67899999999994333..2..344455.899****************************************************** PP

                              HHHHHHHTTCHHBSSSHTTTHHHHHHH CS
                    HSP70 343 qelvkelfgkepsktvnpDeavaiGAA 369
                              +e + ++fg +   + n  + v  G A
  PHY93_08325|PHY93_08325 385 REFLGNIFGSDKLIEYNVYQSVVNGLA 411
                              *********998887777777777765 PP

>> MreB_Mbl  MreB/Mbl protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.8   0.0   6.1e-08   0.00027      77     184 ..     100     220 ..       2     230 .. 0.72
   2 !   14.4   0.0   2.7e-06     0.012     230     320 ..     328     415 ..     323     417 .] 0.88

  Alignments for each domain:
  == domain 1  score: 19.8 bits;  conditional E-value: 6.1e-08
                              HHHHHHHHHHTSS-SS--EEEEEE-......SS--HHHHHHHHHHHHHTT-SEEEEEEHHHHHHHHTT--TTSSS-EEEEEE-SS- CS
                 MreB_Mbl  77 llkyfikkvkkkkslskprvvicvP......sgiteverrAvkeaakkaGarevllieeplaAAiGaglpveepsgnmvvdiGggt 156
                              +l ++ ++++k ++ + +r+v++ P      ++ +++ +  +++a++ aG +ev+   ep+aA +  +   +  +  ++ d Gggt
  PHY93_08325|PHY93_08325 100 FLSTMRERANKITNENVERIVLGRPalyslnKEDDQLAQDRMQKACELAGFKEVVFCPEPIAAGLDYNASTSTEKIVLIADFGGGT 185
                              33333333444444455678888883322223557899999********************************************* PP

                              EEEEEE.......ETTEEEEEEEES-SHHHHHHHH CS
                 MreB_Mbl 157 tevavi.......slggivtsksvrvaGdeldeai 184
                              ++ +++       s  +i   + + +aGd+ld  +
  PHY93_08325|PHY93_08325 186 SDFTLMkihknaySQDDILGLSGIFMAGDALDGIM 220
                              **998744444446678888888999999998655 PP

  == domain 2  score: 14.4 bits;  conditional E-value: 2.7e-06
                              TCEEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHTS-HHHHHHHHHH-EEEESGGGGSBTHHHHHHHHHSS-EEE-SSTTTHHHHHH CS
                 MreB_Mbl 230 glpkevevsseevrealkepvsaiveavkevLektppeLaadivdrgivltGGgallkgldkllseetglpvkvaedpltcvakGt 315
                              g+  + e+s+++ + +++ +v++i+ ++ ev ++    + +d+    ++ltGG+++l  ++++l + +g    +  +  ++v++G 
  PHY93_08325|PHY93_08325 328 GIDINEEISKNSYQLSITPAVEEIIATMMEVFKQSGLSI-SDVD--QVCLTGGTSQLPKIREFLGNIFGSDKLIEYNVYQSVVNGL 410
                              5566778999999999****************9987554.5663..599************************************9 PP

                              HHTTC CS
                 MreB_Mbl 316 gkvle 320
                              +++++
  PHY93_08325|PHY93_08325 411 AQYAK 415
                              99876 PP

>> PilM_2  Type IV pilus assembly protein PilM;
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.0     0.013        57     173     211 ..     167     205 ..     138     210 .. 0.86
   2 ?    8.0   0.0   0.00028       1.2     246     295 ..     338     389 ..     329     401 .. 0.75

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.013
                   PilM_2 173 lpdkgkekvvaivdigasrttlsvlrdgkivYtreqafG 211
                                + ++ek+v i+d g  ++ +++++ +k  Y+++  +G
  PHY93_08325|PHY93_08325 167 NASTSTEKIVLIADFGGGTSDFTLMKIHKNAYSQDDILG 205
                              56778899**************************99887 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.00028
                   PilM_2 246 evlepflealaqei.sralqffltssqqn.kvdkilLaGGtaslpgleelle 295
                              + +++ ++  ++ei +  +++f  s  +   vd++ L+GGt++lp ++e l 
  PHY93_08325|PHY93_08325 338 NSYQLSITPAVEEIiATMMEVFKQSGLSIsDVDQVCLTGGTSQLPKIREFLG 389
                              5556666655555415667899988876559**************9998775 PP

>> StbA  StbA protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   0.0   0.00019      0.85     139     181 ..     150     192 ..     127     213 .. 0.84
   2 ?    0.3   0.0     0.071   3.2e+02     239     284 ..     336     381 ..     329     412 .. 0.72

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.00019
                     StbA 139 ikkvkvlPeslPagfealkeldeleslLiiDlGGttLDvakvr 181
                               k+v   Pe + ag + +++ ++   +Li D+GG t D + ++
  PHY93_08325|PHY93_08325 150 FKEVVFCPEPIAAGLDYNASTSTEKIVLIADFGGGTSDFTLMK 192
                              6899999*****************************9987665 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.071
                     StbA 239 ndedkresvlevinekvkkLkerviravsefsgythvmvvGGGael 284
                              +++  + s++ +++e   ++ e  +++  ++s++ +v ++GG ++l
  PHY93_08325|PHY93_08325 336 SKNSYQLSITPAVEEIIATMMEVFKQSGLSISDVDQVCLTGGTSQL 381
                              5555556777788888888888888888888888888888888887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (417 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       620  (0.0345808); expected 358.6 (0.02)
Passed bias filter:                      567  (0.0316247); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.58u 0.29s 00:00:00.86 Elapsed: 00:00:00.44
# Mc/sec: 2822.16
//
Query:       PHY93_08330|PHY93_08330  [L=154]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.7e-11   43.8   0.0    3.6e-11   43.4   0.0    1.2  1  Glyoxalase    Glyoxalase/Bleomycin resistance protein/Dioxyge
    6.8e-05   23.6   0.0    0.00013   22.7   0.0    1.4  1  Glyoxalase_6  Glyoxalase-like domain
    0.00011   22.4   0.1    0.00035   20.8   0.0    1.8  2  Glyoxalase_4  Glyoxalase/Bleomycin resistance protein/Dioxyge
     0.0036   17.2   0.0     0.0062   16.5   0.0    1.4  1  Glyoxalase_2  Glyoxalase-like domain


Domain annotation for each model (and alignments):
>> Glyoxalase  Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.4   0.0   7.9e-15   3.6e-11       7     127 ..      19     131 ..      11     132 .. 0.84

  Alignments for each domain:
  == domain 1  score: 43.4 bits;  conditional E-value: 7.9e-15
                              EEESHHHHHHHHHHHHHTSEEEEEEEEEESTEEEEEEEEETTTSEEEEEEEECCTTSCTHHCCBSCTSEEEEEEEEEHCHHHHHHH CS
               Glyoxalase   7 llvgdleksldFYtkvLGfklvkktdnteeteglriaffhaggghielvlneapsgaakhvkkieetvhhvafialdvedvgkald 92 
                              +lv d++k+l+FY+ ++G++ + k +   +++g+ +++    g+++++++  +p+ ++++   i  + + v f++  v+dv++  +
  PHY93_08330|PHY93_08330  19 ILVHDVSKALEFYKSAFGAEEIHKLE---MKPGQIAHAEFKIGNSVMMISGITPDMKLPPN--IG-NSRRVCFMV-YVNDVDAVAK 97 
                              89************************...67777777777777888888888888888888..33.456666666.6999****** PP

                              HHHHTTGEEEEEEECHHCTEEEEEEEEETTSEEEE CS
               Glyoxalase  93 rlkeagvkvvaepgrhyfgalysfyfrDpdGille 127
                               +  ag+kvv+ +++++fg++ +  f+Dp+G+ + 
  PHY93_08330|PHY93_08330  98 NAVLAGMKVVKAVQDQFFGDRSGT-FEDPFGHIWS 131
                              ***********************9.******9986 PP

>> Glyoxalase_6  Glyoxalase-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.7   0.0   2.9e-08   0.00013       7     104 ..      22     130 ..      18     132 .. 0.74

  Alignments for each domain:
  == domain 1  score: 22.7 bits;  conditional E-value: 2.9e-08
             Glyoxalase_6   7 adpaalaaFwaaalgweveree.......aaledpegvgpaaedaatllfqrvpe.......paknrvHldlavedldaevarlva 78 
                               d+ ++ +F++ a+g e  ++        a +e +       ++++ +  + +p+        + +rv + + v+d+da ++ +v 
  PHY93_08330|PHY93_08330  22 HDVSKALEFYKSAFGAEEIHKLemkpgqiAHAEFK------IGNSVMMISGITPDmklppniGNSRRVCFMVYVNDVDAVAKNAVL 101
                              6888999********99998885554433111111......12233333333333677765744569******************* PP

             Glyoxalase_6  79 lGArvlreprdgthgr...vlaDPeGneF 104
                              +G +v+++ +d+  g+   +++DP G+ +
  PHY93_08330|PHY93_08330 102 AGMKVVKAVQDQFFGDrsgTFEDPFGHIW 130
                              ************99999*********965 PP

>> Glyoxalase_4  Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.8   0.0   7.8e-08   0.00035       5      97 ..      19     110 ..      18     122 .. 0.83
   2 ?   -1.5   0.0      0.66   2.9e+03      63      87 ..     123     149 ..     116     151 .. 0.67

  Alignments for each domain:
  == domain 1  score: 20.8 bits;  conditional E-value: 7.8e-08
                              EE-S-HHHHHHHHHH.TT-EESS--E.EETTTTEEEEEEEETTEEEEEEEESSTT-THHHTS-EEEEEEEEE..S-HHHHHHHHCT CS
             Glyoxalase_4   5 ivVeDleaavarfsallGvgpwqryrdepqevdlafallgsgsvqieLieplegpeflaehgeglhhlaywv..ddldaavarlee 88 
                              i V+D+ +a+++++ ++G +++ + + +p ++  a ++ g++ ++i  i p+ +   l  + +    +++ v  +d+da+ +++  
  PHY93_08330|PHY93_08330  19 ILVHDVSKALEFYKSAFGAEEIHKLEMKPGQIAHAEFKIGNSVMMISGITPDMK---LPPNIGNSRRVCFMVyvNDVDAVAKNAVL 101
                              78******************************99999**996566666666666...777899999999985448*********** PP

                              TTEEEEEEE CS
             Glyoxalase_4  89 qGfevvqkg 97 
                              +G++vv + 
  PHY93_08330|PHY93_08330 102 AGMKVVKAV 110
                              ****99754 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.66
                              HHTS-EEEEEEEEES-..HHHHHHHHC CS
             Glyoxalase_4  63 aehgeglhhlaywvdd..ldaavarle 87 
                              ++  + ++ ++ +++d  +++a +r++
  PHY93_08330|PHY93_08330 123 EDPFGHIWSIGTHIEDvtTEEATKRMQ 149
                              555567888899998844466666666 PP

>> Glyoxalase_2  Glyoxalase-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   1.4e-06    0.0062       4     117 ..      17     136 ..      14     137 .. 0.69

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 1.4e-06
                              ---EES-HHHHHHHHHHTT-....--EEEE-SS..EEEETTS-EEE..EHHHHHH-------S--SS-EEEEEES-HHHHHHHH.. CS
             Glyoxalase_2   4 illvvkdieeskkFYedvle....lkikldfGe..nvsfetgfalk..edlkelinldesiaeqsnnfeLyFevedvdaflqklke 81 
                              + ++v+d++++ +FY+  +      k+++  G+  + +f+ g ++   +++   ++l+ +i  +s+ +     v+dvda+ ++   
  PHY93_08330|PHY93_08330  17 PYILVHDVSKALEFYKSAFGaeeiHKLEMKPGQiaHAEFKIGNSVMmiSGITPDMKLPPNI-GNSRRVCFMVYVNDVDAVAKNAVL 101
                              6789***********9999722223455555652244555555443113333333344444.4666667777799****9999855 PP

                              GGGS-EEEEEEE-TTS-EEEEEE-TT--EEEEEE-- CS
             Glyoxalase_2  82 aeniellhelkekpWgqrvirfyDpDkhiiEigesl 117
                              a+ +++++ ++ + +g r   f Dp +hi  ig  +
  PHY93_08330|PHY93_08330 102 AG-MKVVKAVQDQFFGDRSGTFEDPFGHIWSIGTHI 136
                              55.**************************9999765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (154 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       437  (0.0243739); expected 358.6 (0.02)
Passed bias filter:                      395  (0.0220313); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.45u 0.26s 00:00:00.71 Elapsed: 00:00:00.42
# Mc/sec: 1091.15
//
Query:       PHY93_08335|PHY93_08335  [L=149]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.9e-24   85.2   2.5    2.9e-12   46.9   0.2    2.1  2  CBS       CBS domain


Domain annotation for each model (and alignments):
>> CBS  CBS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.6   0.2   6.1e-14   1.1e-09       1      52 [.       4      57 ..       4      57 .. 0.93
   2 !   46.9   0.2   1.6e-16   2.9e-12       2      54 ..      73     125 ..      72     128 .. 0.92

  Alignments for each domain:
  == domain 1  score: 38.6 bits;  conditional E-value: 6.1e-14
                             HHHHSBSSCEEEETTSBHHHHHHHHHHHTSSEEEEE...ETTTBEEEEEEHHHHH CS
                      CBS  1 VgdimtrdvvtvppdttleealelmrekgvsrlPVV...dedgklvGivtlrDll 52
                             V+d+mt d+v++ p+t+l+ +++lm +++++ +PVV   + + k+vG++t+rD++
  PHY93_08335|PHY93_08335  4 VKDFMTVDPVCCLPSTNLKIVAKLMLQYDCGEIPVVysiE-QPKIVGVITDRDIV 57
                             89**********************************9854.668*********95 PP

  == domain 2  score: 46.9 bits;  conditional E-value: 1.6e-16
                              HHHSBSSCEEEETTSBHHHHHHHHHHHTSSEEEEEETTTBEEEEEEHHHHHHH CS
                      CBS   2 gdimtrdvvtvppdttleealelmrekgvsrlPVVdedgklvGivtlrDllra 54 
                              ++ mt + ++v+ d+++ ++  +m+e+ ++r+PVVde+++++G+vtl D++r+
  PHY93_08335|PHY93_08335  73 EEAMTIPAIVVKKDMSIDDCCIIMKEEQIRRVPVVDEEENCCGMVTLADIARK 125
                              6789********************7777**********************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (149 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       382  (0.0213063); expected 358.6 (0.02)
Passed bias filter:                      261  (0.0145574); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.26s 00:00:00.69 Elapsed: 00:00:00.43
# Mc/sec: 1034.34
//
Query:       PHY93_08340|PHY93_08340  [L=492]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.5e-19   70.6   0.3    4.4e-19   69.0   0.1    1.9  2  HATPase_c      Histidine kinase-, DNA gyrase B-, and HSP90-li
     0.0003   20.7   0.1    0.00061   19.7   0.1    1.5  1  CHASE5         Periplasmic sensor domain found in signal tran
    0.00037   20.3   0.7    0.00086   19.1   0.1    1.9  2  HATPase_c_3    Histidine kinase-, DNA gyrase B-, and HSP90-li
     0.0039   17.1   1.3      0.018   15.0   0.0    2.7  3  HATPase_c_5    GHKL domain
     0.0082   16.2   0.1      0.021   14.8   0.1    1.8  1  HisKA          His Kinase A (phospho-acceptor) domain
  ------ inclusion threshold ------
      0.039   13.8   0.0      0.094   12.5   0.0    1.6  1  HPTransfase    Histidine phosphotransferase C-terminal domain
      0.073   11.9   0.0       0.13   11.0   0.0    1.4  1  GD_AH_C        D-galactarate dehydratase / Altronate hydrolas
        0.4   10.9   7.0       0.75   10.0   7.0    1.5  1  Jnk-SapK_ap_N  JNK_SAPK-associated protein-1


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0       4.8   1.1e+04      21      34 ..     242     255 ..     227     271 .. 0.62
   2 !   69.0   0.1     2e-22   4.4e-19       5     110 ..     379     484 ..     376     486 .. 0.90

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 4.8
                              HSTTTEEEEEEEEE CS
                HATPase_c  21 atkageieveikas 34 
                              ++++++ievei+ +
  PHY93_08340|PHY93_08340 242 KSEEERIEVEIQLE 255
                              34666777777653 PP

  == domain 2  score: 69.0 bits;  conditional E-value: 2e-22
                              HHHHHHHHHHHHHHHHHSTTTEEEEEEEE....EETEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHHHH CS
                HATPase_c   5 rLrqiisnlvdNavkfatkageieveika....seddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkklve 86 
                               ++ +i+nl+ Na ++ + +gei + ik+    +++ ++isveDnG Gip++++ k+f++f +   tk+ g+gtGlGls v+ +v+
  PHY93_08340|PHY93_08340 379 SFENVIINLCINARDAMPGGGEINIVIKSlkknNQEFVSISVEDNGSGIPEDIQLKIFDPFFT---TKDAGKGTGLGLSQVQDFVK 461
                              6789************99**********876543389**************************...9999*************999 PP

                              HTTTEEEEEEETTTEEEEEEEEES CS
                HATPase_c  87 lmgGeiwvesepgrGttftftlpl 110
                               +gG + ++s +  Gt+ft++lp 
  PHY93_08340|PHY93_08340 462 DVGGFMVLKSGK-NGTCFTLYLPS 484
                              9***99995555.8*******996 PP

>> CHASE5  Periplasmic sensor domain found in signal transduction proteins
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.7   0.1   2.7e-07   0.00061      13      98 ..      55     141 ..      45     151 .. 0.81

  Alignments for each domain:
  == domain 1  score: 19.7 bits;  conditional E-value: 2.7e-07
                   CHASE5  13 ldeiekatlevLaeslWnlDerllklqLeGlvrLPdidyieike.dsdvrvaaGep.ktssilnkefpLeykspddnvarniGtLe 96 
                                 +e a  + L  s+W +D++ ++  L+ l   P++  + i++ d d +++  ++  t   l  +fpL y++  ++  +++GtL+
  PHY93_08340|PHY93_08340  55 VTTLEAAMKHQLEISMWGVDKESVQNILHVLAGNPNVAGVWITDtDMDFKYNEVKSgLTADWLVLNFPLAYSKTLND-KKKLGTLK 139
                              4567788889999******************************966677776444316888999*******998855.599****9 PP

                   CHASE5  97 ve 98 
                              + 
  PHY93_08340|PHY93_08340 140 IS 141
                              86 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.1       1.7   3.9e+03     100     106 ..     221     227 ..     185     260 .. 0.55
   2 !   19.1   0.1   3.9e-07   0.00086       2      62 ..     379     444 ..     378     464 .. 0.74

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 1.7
              HATPase_c_3 100 tltldvd 106
                              tl+ d++
  PHY93_08340|PHY93_08340 221 TLFKDIH 227
                              3333333 PP

  == domain 2  score: 19.1 bits;  conditional E-value: 3.9e-07
              HATPase_c_3   2 slekAlaelvdNsldAdaen..vkievn...knrgktgeivieDdGkGmseeelknalrlatsske 62 
                              s+e +++ l+ N+ dA      ++i+++   kn+++  +i++eD+G+G++e+   + + +  ++k+
  PHY93_08340|PHY93_08340 379 SFENVIINLCINARDAMPGGgeINIVIKslkKNNQEFVSISVEDNGSGIPEDIQLKIFDPFFTTKD 444
                              56999**********976543377777733233344489***********9966667776666666 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0       1.2   2.8e+03      41      53 ..      32      50 ..      18      83 .. 0.70
   2 ?   -1.2   0.3      0.84   1.9e+03      26      43 ..     242     262 ..     195     299 .. 0.71
   3 !   15.0   0.0   7.9e-06     0.018      17      92 ..     388     474 ..     376     483 .. 0.66

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 1.2
              HATPase_c_5 41 sliisieNsyeg......e 53
                             sl++++ Nsy++      e
  PHY93_08340|PHY93_08340 32 SLLFTVLNSYNHfkdgqvE 50
                             5888999999985444331 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 0.84
              HATPase_c_5  26 e.ekrfIrltvr..ekkksli 43 
                              + e++ I+++++  ++ ++l+
  PHY93_08340|PHY93_08340 242 KsEEERIEVEIQleKERQKLV 262
                              223444444444103334444 PP

  == domain 3  score: 15.0 bits;  conditional E-value: 7.9e-06
              HATPase_c_5  17 Aieacskiee.ekrfIrltvrekk..ksliisieNsyeg.......ek.kklesskskkeehGiGlksireivkkykgnlsieaed 91 
                              +i+a ++++   +  I ++  +k+  +++ is+e + +g       ++ + ++++k  ++  G+Gl++++  vk  +g++ ++  +
  PHY93_08340|PHY93_08340 388 CINARDAMPGgGEINIVIKSLKKNnqEFVSISVEDNGSGipediqlKIfDPFFTTKDAGKGTGLGLSQVQDFVKDVGGFMVLKSGK 473
                              56666666654444555555454412558899998877766655332256677*************************99887655 PP

              HATPase_c_5  92 g 92 
                              +
  PHY93_08340|PHY93_08340 474 N 474
                              4 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.1   9.5e-06     0.021       3      65 ..     271     332 ..     269     334 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 9.5e-06
                              HHHHHHHHHHHHHHHHHHHHHHHHHHC..T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHH CS
                    HisKA   3 grflagvaHELrtPLsailgnaeaLkregklteelkeyletiesearrldhlvedlLdlsrie 65 
                              g+ +a vaH++ + +  i g ++ L ++  ++++  ++ e i++ + r  +l+  +L ++r++
  PHY93_08340|PHY93_08340 271 GQITAQVAHDFGNLIMIINGKTKKLDDR-LTDPDDLKQTEAIRKATTRAHSLIRKILSMTRMQ 332
                              7899*********************886.555666668**********************997 PP

>> HPTransfase  Histidine phosphotransferase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   4.2e-05     0.094      36      59 ..     384     411 ..     380     432 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 4.2e-05
                              HHHHHHHHHHC-TT--EEEEEEE....E CS
              HPTransfase  36 llnllliaedalprGGtitvsae....g 59 
                              ++nl++ a+da+p GG+i++ ++    +
  PHY93_08340|PHY93_08340 384 IINLCINARDAMPGGGEINIVIKslkkN 411
                              89******************99965322 PP

>> GD_AH_C  D-galactarate dehydratase / Altronate hydrolase, C terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0     6e-05      0.13      52      92 ..      60     100 ..      25     116 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 6e-05
                  GD_AH_C  52 valthqygcgqlgedaelllrtLaglakhPNvagvlvlglg 92 
                               a++hq   ++ g d+e ++++L+ la +PNvagv + +  
  PHY93_08340|PHY93_08340  60 AAMKHQLEISMWGVDKESVQNILHVLAGNPNVAGVWITDTD 100
                              57899******************************987765 PP

>> Jnk-SapK_ap_N  JNK_SAPK-associated protein-1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   7.0   0.00033      0.75      44      98 ..     211     265 ..     207     333 .. 0.86

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.00033
            Jnk-SapK_ap_N  44 rneeeeaeleelreeleqLeteyerekelrkraeeeleeiedqweeerkelqekv 98 
                                +++e+e+e l +++  L+++ +   + +k++eee +e+e q+e+er++l  ++
  PHY93_08340|PHY93_08340 211 TTKSNESEIETLFKDIHLLQENFKTAFAMQKKSEEERIEVEIQLEKERQKLVLAL 265
                              5567899******************************************997655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (492 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1132  (0.0631379); expected 358.6 (0.02)
Passed bias filter:                      541  (0.0301746); expected 358.6 (0.02)
Passed Vit filter:                        64  (0.00356964); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.65u 0.30s 00:00:00.95 Elapsed: 00:00:00.47
# Mc/sec: 3163.02
//
Query:       PHY93_08345|PHY93_08345  [L=250]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.048   14.3   0.0      0.099   13.3   0.0    1.6  1  Acp26Ab   Drosophila accessory gland-specific peptide 26Ab (A


Domain annotation for each model (and alignments):
>> Acp26Ab  Drosophila accessory gland-specific peptide 26Ab (Acp26Ab)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   5.5e-06     0.099       3      44 ..       9      50 ..       7      95 .. 0.92

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 5.5e-06
                  Acp26Ab  3 yfavlcifsciclwqfsdaapfisvqsssqsrsqkvmngmlr 44
                              fav++ fs  cl q    +p+  v++ +q + + +mn  l 
  PHY93_08345|PHY93_08345  9 LFAVVAAFSSSCLKQTESITPLAEVRTLAQLQRESMMNTALL 50
                             59***********************************98764 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (250 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       580  (0.0323498); expected 358.6 (0.02)
Passed bias filter:                      400  (0.0223102); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.44
# Mc/sec: 1694.94
//
Query:       PHY93_16540|PHY93_16540  [L=116]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.4e-20   73.2   0.0    1.6e-20   73.0   0.0    1.1  1  Thioredoxin    Thioredoxin
    3.3e-08   33.7   0.1    0.00021   21.6   0.0    2.2  2  Thioredoxin_8  Thioredoxin-like
      7e-05   23.2   0.2     0.0029   18.0   0.2    2.1  1  Thioredoxin_2  Thioredoxin-like domain
    0.00012   21.9   0.1    0.00014   21.6   0.1    1.2  1  Thioredoxin_9  Thioredoxin
    0.00085   18.8   0.0     0.0009   18.7   0.0    1.2  1  OST3_OST6      OST3 / OST6 family, transporter family
     0.0011   19.1   0.1     0.0024   18.0   0.1    1.7  1  Thioredoxin_7  Thioredoxin-like
  ------ inclusion threshold ------
      0.028   14.8   0.0      0.037   14.4   0.0    1.2  1  GST_N          Glutathione S-transferase, N-terminal domain
      0.091   12.7   0.1        0.2   11.6   0.0    1.6  2  AhpC-TSA       AhpC/TSA family
       0.11   12.5   0.0        0.2   11.7   0.0    1.5  2  HyaE           Hydrogenase-1 expression protein HyaE
       0.12   12.4   0.9        3.3    7.7   0.1    2.1  2  DUF2714        Protein of unknown function (DUF2714)


Domain annotation for each model (and alignments):
>> Thioredoxin  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.0   0.0   9.1e-24   1.6e-20       2      99 ..       3      98 ..       2     102 .. 0.92

  Alignments for each domain:
  == domain 1  score: 73.0 bits;  conditional E-value: 9.1e-24
                             EEESSHHHHHHHHTTTSSEEEEEEE-TTSHHHHCHHHHHHHHHHHCTTTSEEEEEETTTSHHHHHHTT-SSSSEEEEEETTEEEEEEE CS
              Thioredoxin  2 vlvltkenFeeevakekklvlveFyApwCghCkalaPeleklaeelkdkvklakvdvdenedlakkyevegiPtlklfkngkevkkye 89
                             v+++t++n ee ++k ++ ++++F+A+wC +Ck +aP +++++e++  ++ + kv++++++ l +++++++iPtl+++k+g  + + +
  PHY93_16540|PHY93_16540  3 VKIVTDKNMEEVLEK-NQIIFLDFWASWCEPCKVFAPIYDRVSEAHP-ELFFGKVNTETEQLLSEDFQIKSIPTLVILKEGTIIFSES 88
                             788999999999999.*******************************.9*********************************999988 PP

                             SS-HHHHHHH CS
              Thioredoxin 90 garekeklaa 99
                             g  ++  l +
  PHY93_16540|PHY93_16540 89 GVIPEYVLNN 98
                             8887666655 PP

>> Thioredoxin_8  Thioredoxin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.6   0.0   1.2e-07   0.00021       1      31 [.      18      48 ..      18      57 .. 0.88
   2 !   10.6   0.0   0.00031      0.55      66      90 ..      55      79 ..      47      83 .. 0.83

  Alignments for each domain:
  == domain 1  score: 21.6 bits;  conditional E-value: 1.2e-07
                             .SEEEEEE--SSSHHHHHHHHHHHHHHHHHH CS
            Thioredoxin_8  1 gkvvlLyfgaswcppckaftpklkelyeklk 31
                             +++++L f+aswc+pck f p  ++++e + 
  PHY93_16540|PHY93_16540 18 NQIIFLDFWASWCEPCKVFAPIYDRVSEAHP 48
                             6899******************999998876 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 0.00031
                             E-TT-HHHHTT-S--TT-SEEEEE- CS
            Thioredoxin_8 66 fddkkrnklkkkynvkaiPtlvvld 90
                             ++ +  + l + +++k+iPtlv+l+
  PHY93_16540|PHY93_16540 55 VNTETEQLLSEDFQIKSIPTLVILK 79
                             5666788999*************97 PP

>> Thioredoxin_2  Thioredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.2   1.6e-06    0.0029       3     106 ..      16      97 ..      14     100 .. 0.76

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 1.6e-06
            Thioredoxin_2   3 gngkpvlvvftdpdCpyCkklkkelkelddvtvrvllfplkpsfepkavaiwcakekkkafkdieenvelarkygvrgtPtivfld 88 
                              ++++ ++++f++++C  Ck +    + +               +e++ + + ++ +        e+++ l++ +++++ Pt+v+l 
  PHY93_16540|PHY93_16540  16 EKNQIIFLDFWASWCEPCKVFAPIYDRV---------------SEAHPELFFGKVNT-------ETEQLLSEDFQIKSIPTLVILK 79 
                              6788999************977754444...............67777778887776.......466778888********88555 PP

            Thioredoxin_2  89 gkeivarlpGyvpaeele 106
                              + +i++   G +p+  l+
  PHY93_16540|PHY93_16540  80 EGTIIFSESGVIPEYVLN 97 
                              554998989999887665 PP

>> Thioredoxin_9  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.6   0.1     8e-08   0.00014      35     121 ..      12      95 ..       2     109 .. 0.82

  Alignments for each domain:
  == domain 1  score: 21.6 bits;  conditional E-value: 8e-08
                              HHHT--S-EEEEEE--TT-HHHHHHHHHHHHHHHH-TTEEEEEE-HHHHHHHTTTTTT-SS--SSEEEEE-TT--EEEEEESS-HH CS
            Thioredoxin_9  35 kiksiekklkilvltedwCgDaavnvPvlakiaelnpnievkillrdenlelmdqyltngaraiPtliildeegeelgvwgerPae 120
                              ++   ++++ +l + + wC  + v+ P+ ++++e+ p++ +  +  + ++ l ++++    ++iPtl+il+e++  + + g  P++
  PHY93_16540|PHY93_16540  12 EEVLEKNQIIFLDFWASWCEPCKVFAPIYDRVSEAHPELFFGKVNTETEQLLSEDFQI---KSIPTLVILKEGTIIFSESGVIPEY 94 
                              4445566677888899****************************************77...9********9987777666666666 PP

                              H CS
            Thioredoxin_9 121 v 121
                              v
  PHY93_16540|PHY93_16540  95 V 95 
                              6 PP

>> OST3_OST6  OST3 / OST6 family, transporter family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   0.0     5e-07    0.0009      45     104 ..      29      80 ..       6     105 .. 0.89

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 5e-07
                OST3_OST6  45 kCelCrefepefelvakswrkdekskskklfFakvdfdegkdvFqklglnsaPhlllfpp 104
                               Ce+C+ f+p ++ v++++         +lfF+kv+ +  + + ++++++s+P l++ + 
  PHY93_16540|PHY93_16540  29 WCEPCKVFAPIYDRVSEAH--------PELFFGKVNTETEQLLSEDFQIKSIPTLVILKE 80 
                              5**************9864........368*************************99876 PP

>> Thioredoxin_7  Thioredoxin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.1   1.3e-06    0.0024       7      36 ..       8      37 ..       6      79 .. 0.92

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 1.3e-06
                             HHHHHHHHHHT--EEEEE--TT-HHHHHHH CS
            Thioredoxin_7  7 dealakaaergkpvlvffgaswcftCqale 36
                             d  +++  e+++ ++++f aswc++C++++
  PHY93_16540|PHY93_16540  8 DKNMEEVLEKNQIIFLDFWASWCEPCKVFA 37
                             56789999********************95 PP

>> GST_N  Glutathione S-transferase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0   2.1e-05     0.037      40      75 ..      57      96 ..      34      97 .. 0.77

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 2.1e-05
                             GGCHHHHHHCTT.S-SSEEEET..TEEEE.SHHHHHHHHH CS
                    GST_N 40 ekspellklnpl.gkvPaLedn..gkklt.ESraIleYia 75
                             ++ ++ll++ +  + +P+L++   g +++ ES++I eY+ 
  PHY93_16540|PHY93_16540 57 TETEQLLSEDFQiKSIPTLVILkeGTIIFsESGVIPEYVL 96
                             3336666666656*******9888777767********97 PP

>> AhpC-TSA  AhpC/TSA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00011       0.2      20      46 ..      11      38 ..       4      50 .. 0.77
   2 ?   -2.2   0.0       2.1   3.7e+03     112     121 ..      74      83 ..      54      86 .. 0.59

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00011
                             CHHH..TTSEEEEEEESTST-CCHHHHHH CS
                 AhpC-TSA 20 lsdy..kgkpvvlffypkdwcpvCttelp 46
                             ++++  k++++ l f+++ wc++C+  +p
  PHY93_16540|PHY93_16540 11 MEEVleKNQIIFLDFWAS-WCEPCKVFAP 38
                             5566656799********.*****96555 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 2.1
                              EEEE-TTSBE CS
                 AhpC-TSA 112 tfvidkegki 121
                              t vi keg+i
  PHY93_16540|PHY93_16540  74 TLVILKEGTI 83 
                              4556666666 PP

>> HyaE  Hydrogenase-1 expression protein HyaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.6   0.0         6   1.1e+04      65      77 ..       5      17 ..       3      21 .. 0.61
   2 ?   11.7   0.0   0.00011       0.2      68      96 ..      56      84 ..      37      92 .. 0.82

  Alignments for each domain:
  == domain 1  score: -3.6 bits;  conditional E-value: 6
                             EEETHHHHHHHHH CS
                     HyaE 65 vvadreqeealae 77
                             +v d++ ee+l++
  PHY93_16540|PHY93_16540  5 IVTDKNMEEVLEK 17
                             5556666666654 PP

  == domain 2  score: 11.7 bits;  conditional E-value: 0.00011
                             THHHHHHHHHCCT-TSSSEEEEEETTEEE CS
                     HyaE 68 dreqeealaerfgvlktPsllflrdgeyl 96
                             ++e e+ l e f+++  P+l++l++g ++
  PHY93_16540|PHY93_16540 56 NTETEQLLSEDFQIKSIPTLVILKEGTII 84
                             3699********************99865 PP

>> DUF2714  Protein of unknown function (DUF2714)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   0.1     0.031        56      40      62 ..       9      31 ..       2      39 .. 0.78
   2 ?    7.7   0.1    0.0019       3.3      94     140 ..      46      87 ..      34      90 .. 0.84

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.031
                  DUF2714 40 kleeaikkkldlvfksFvisfnk 62
                             k  e + +k +++f +F  s+  
  PHY93_16540|PHY93_16540  9 KNMEEVLEKNQIIFLDFWASWCE 31
                             4455667899***********65 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.0019
                  DUF2714  94 eklnkflkslNklikkllekkklveilpniilfvsketksLkllFse 140
                               + + f+ + N + ++ll+++  ++ +p +++ ++       ++Fse
  PHY93_16540|PHY93_16540  46 AHPELFFGKVNTETEQLLSEDFQIKSIPTLVILKEGT-----IIFSE 87 
                              566889************************9988765.....55655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (116 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       371  (0.0206927); expected 358.6 (0.02)
Passed bias filter:                      335  (0.0186848); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.46u 0.27s 00:00:00.73 Elapsed: 00:00:00.43
# Mc/sec: 803.44
//
Query:       PHY93_08350|PHY93_08350  [L=230]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.8e-26   91.2   0.2    6.5e-26   90.7   0.2    1.2  1  Pribosyltran  Phosphoribosyl transferase domain
    4.6e-09   36.0   1.1    1.1e-07   31.5   1.3    2.1  2  UPRTase       Uracil phosphoribosyltransferase
    0.00095   18.7   0.0     0.0023   17.5   0.0    1.7  2  PRTase_2      Phosphoribosyl transferase
     0.0083   16.4   0.9      0.015   15.5   0.9    1.4  1  PTSIIB_sorb   PTS system sorbose subfamily IIB component
  ------ inclusion threshold ------
      0.038   13.6   0.2       0.11   12.1   0.2    1.7  2  DUF2711       Protein of unknown function (DUF2711)
       0.11   12.3   0.4       0.28   10.9   0.1    1.8  2  DnaB_2        Replication initiation and membrane attachment


Domain annotation for each model (and alignments):
>> Pribosyltran  Phosphoribosyl transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   90.7   0.2   2.2e-29   6.5e-26      14     152 ..       8     190 ..       2     197 .. 0.91

  Alignments for each domain:
  == domain 1  score: 90.7 bits;  conditional E-value: 2.2e-29
                              EEEETTEEEEEE..--GGGEEEEEEETTTHHHHHHHHHHSTT-EE-EEEEEE-TTT--EE.......................... CS
             Pribosyltran  14 avarlaaeilee..yngkpdvvvgiargGvpfakiladeLevplayvrkvkyrpdgseeaargssdes.................. 79 
                              ++ +l+a ++ +   + k+++v++ +rgGvp+a+++a++L +pl++++++k  +++ +e a+gs+ e                   
  PHY93_08350|PHY93_08350   8 HAGKLLAHKFADipLDKKNTIVIALPRGGVPVAHEIAKALQLPLDIILVKKIGAPSYPELAIGSVSEEdeefynndlivelgykhs 93 
                              44556666666666669**************************************************9****************** PP

                              .......................EE----TTSEEEEE-SEESSSHHHHHHHHHHHCC-BSEEEEEEEEE-HHHHHHHHHH-TTS.. CS
             Pribosyltran  80 .......................rlledpagkkVliVDDildtGgTllaalelLkekgpeevriavlvdkpateeevdknakrvfs 142
                                                     +++  + +k +++VDD+++tG T++ +++ Lk++++++++ia++v+  +  ++ +k ++ v+ 
  PHY93_08350|PHY93_08350  94 didpikeraliklqeiaialrqgHAPMPLSNKNIIVVDDGIATGATMESVIKVLKKRNVKKIIIATPVASAEALLNLEKIVDQVVV 179
                              *******************************************************************************9999998 PP

                              ....EEEEEEE CS
             Pribosyltran 143 ls.pdnfvavv 152
                              ++ p  ++ v 
  PHY93_08350|PHY93_08350 180 IMtPNPIYSVG 190
                              88666666655 PP

>> UPRTase  Uracil phosphoribosyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.3   0.0     0.032        96      63      92 ..      21      50 ..       6      82 .. 0.84
   2 !   31.5   1.3   3.7e-11   1.1e-07     116     180 ..     119     181 ..     101     183 .. 0.90

  Alignments for each domain:
  == domain 1  score: 2.3 bits;  conditional E-value: 0.032
                  UPRTase 63 lldeekialVpilRaGegmeealrellpea 92
                              ld+++++++++ R+G + ++++ ++l+ +
  PHY93_08350|PHY93_08350 21 PLDKKNTIVIALPRGGVPVAHEIAKALQLP 50
                             567899***************999998765 PP

  == domain 2  score: 31.5 bits;  conditional E-value: 3.7e-11
                  UPRTase 116 PkkiaertvlllDpviaTGgsaaaaiqlLkergvgeekIlvlsvlaseegvkrlaeefpkvkvvt 180
                              P  +++++++++D  iaTG+++ ++i++Lk+r+v  +kI++++ +as+e++ +l + + +v v++
  PHY93_08350|PHY93_08350 119 PMPLSNKNIIVVDDGIATGATMESVIKVLKKRNV--KKIIIATPVASAEALLNLEKIVDQVVVIM 181
                              55568999***********************776..7*****************99999988875 PP

>> PRTase_2  Phosphoribosyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0      0.85   2.5e+03      34      75 ..       8      47 ..       5      54 .. 0.71
   2 !   17.5   0.0   7.6e-07    0.0023     120     155 ..     123     157 ..     100     176 .. 0.85

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 0.85
                 PRTase_2 34 eagaaLaellaeakkeelpepvlvigfAEtAtaLghgvadal 75
                             +ag+ La+++a+      +++++vi++    + ++h +a+al
  PHY93_08350|PHY93_08350  8 HAGKLLAHKFADI--PLDKKNTIVIALPRGGVPVAHEIAKAL 47
                             5677888888843..345677888888888888888887776 PP

  == domain 2  score: 17.5 bits;  conditional E-value: 7.6e-07
                 PRTase_2 120 aakelvLvDDEistGktalnliralqeklprkryvv 155
                              ++k++++vDD i+tG t+  +i+ l++++ +k + +
  PHY93_08350|PHY93_08350 123 SNKNIIVVDDGIATGATMESVIKVLKKRNVKKII-I 157
                              6789********************9998776544.3 PP

>> PTSIIB_sorb  PTS system sorbose subfamily IIB component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.9     5e-06     0.015      24      85 ..     123     186 ..     120     210 .. 0.79

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 5e-06
                              TTSEEEEE-HHHHC-HHHHHHHHCCS-TTSEEEEE..-HHHHHHHHHCB-.TTEEEEEEESSHH CS
              PTSIIB_sorb  24 kanriivvdDevakdelqkellkmaapsgvkvsil..svekaievlkkakvekekvlllvknpe 85 
                              + ++iivvdD +a+  ++++++k  + ++vk  i+  +v++a ++l+ +k+ ++ v +++ np 
  PHY93_08350|PHY93_08350 123 SNKNIIVVDDGIATGATMESVIKVLKKRNVKKIIIatPVASAEALLNLEKIVDQVVVIMTPNPI 186
                              5689**********************99999777622567777777778888888888887764 PP

>> DUF2711  Protein of unknown function (DUF2711)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0      0.51   1.5e+03      41      78 ..      77     114 ..      56     119 .. 0.74
   2 ?   12.1   0.2   3.5e-05      0.11     117     164 ..     139     186 ..     122     208 .. 0.87

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.51
                  DUF2711  41 hiypsdeeiiekGkavsWkkvlkssgleslaelalalk 78 
                              + + +++ i+e G   s  + +k+  l +l+e+a+al+
  PHY93_08350|PHY93_08350  77 EEFYNNDLIVELGYKHSDIDPIKERALIKLQEIAIALR 114
                              44566777777777777777777888888888888875 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 3.5e-05
                  DUF2711 117 llpsllkvlgskgaeklyysePildteGelevkeatlldildlsnael 164
                               ++s++kvl+ ++++k+  + P+  +e  l+++++  + +  ++++ +
  PHY93_08350|PHY93_08350 139 TMESVIKVLKKRNVKKIIIATPVASAEALLNLEKIVDQVVVIMTPNPI 186
                              5789*******************************9999998888766 PP

>> DnaB_2  Replication initiation and membrane attachment
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0       1.4   4.3e+03      51      65 ..     139     153 ..     129     155 .. 0.70
   2 ?   10.9   0.1   9.4e-05      0.28      12      47 ..     181     219 ..     172     224 .. 0.83

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 1.4
                              HHHHHHHHHHHHT-- CS
                   DnaB_2  51 YiekilknWaekgik 65 
                               +e+++k  +++++k
  PHY93_08350|PHY93_08350 139 TMESVIKVLKKRNVK 153
                              577777777777776 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 9.4e-05
                              --HHHHHHHHHHHHHH..HHHHHHHHHHHHHHH.HHT-- CS
                   DnaB_2  12 lspseletilywlddl..glspevilllleyav.ekgkr 47 
                              ++p+ + ++ +w++d+    ++evi++l ey + +++k+
  PHY93_08350|PHY93_08350 181 MTPNPIYSVGEWYEDFiqIETEEVIKILSEYYLgKNKKY 219
                              7899999999******97667************555444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (230 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       572  (0.0319036); expected 358.6 (0.02)
Passed bias filter:                      379  (0.0211389); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 1525.38
//
Query:       PHY93_08355|PHY93_08355  [L=440]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   3.4e-103  346.1   0.0   4.5e-103  345.7   0.0    1.1  1  Erythro_esteras  Erythromycin esterase
  ------ inclusion threshold ------
      0.095   13.2   0.2       0.18   12.3   0.2    1.4  1  Harakiri         Activator of apoptosis harakiri


Domain annotation for each model (and alignments):
>> Erythro_esteras  Erythromycin esterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  345.7   0.0  5.1e-107  4.5e-103       3     344 .]      65     417 ..      64     417 .. 0.95

  Alignments for each domain:
  == domain 1  score: 345.7 bits;  conditional E-value: 5.1e-107
                              HC---EEEEEEEHHHHHHHHHHHHHS-S-GGGT........S-CCC-CHHHHHHHHHHHHHHHSTT-SS--EEEEEE-S---HHHH CS
          Erythro_esteras   3 ehGfrtvalEadwpdalrvdryvrggtgdaeea.....krfptwmWrneevlelveWlReyNagrpkkervrfyGlDlqslresld 83 
                              +h+f+++a+E+dwp ++++++++++++ d+++      +r+ptwmW+neev+el+ Wl++ N g++  ++ +fyGlD++sl+es+d
  PHY93_08355|PHY93_08355  65 NHDFNFIAVEGDWPPCQAINKFIQTKSADPAKGvlsrfSRWPTWMWANEEVAELLIWLKARNTGKK--NPFGFYGLDVYSLYESID 148
                              69*************************9999999****************************7444..469*************** PP

                              HHHHHHHHCHCCCCHHHHHHHCCHGGCS.......TSSCCCCCHHHHHHHHHHHHCCHGGG.....GG.TSHHHHHHHHHHHHHHH CS
          Erythro_esteras  84 avldyLakvdpelagaareryaclapla.dpraarsaeaaelrscedevvallkellakreeyaaedg.eaeeffsaeqnarlvkn 167
                              +v++ L+k+dp+la +a++ y+c++ ++ d++++++   +  + c+++v  +l+e+l+ + e ++++  ++e+ f+a qnar+v n
  PHY93_08355|PHY93_08355 149 QVTKLLDKIDPQLAMKAKSYYSCFDSYRhDEKSYARSLFNVPEGCKKNVLSALNETLQYKLENKENNIdQQETIFDAIQNARIVCN 234
                              ***************************5477666666788***************8888887777666899*************** PP

                              HHHHC.....CSSSSSCHHHHHHHHHHHHHHHHHHHH...HHSSEEEEEEHHHHSSS-STTTT-S..S-HHHHHHHHHGGG.EEEE CS
          Erythro_esteras 168 aeryyra...gdeeswnlrllalRDrhMaenleallehe.argkivvwAHNsHigdaratdmgkerglnaGqllrerlgde.yvai 248
                              ae+yyra    +e+swn      RD+hM+++l+ l++h  +++k +vwAHN+Higd ratdm +  ++n+G l re++g+e + ++
  PHY93_08355|PHY93_08355 235 AENYYRAmifAEEDSWNV-----RDTHMMDTLNMLMNHYgPEAKGIVWAHNTHIGDYRATDMLTHGQVNIGGLTREKYGKEnVSLV 315
                              **********99******.....**************99*99*********************7755******************* PP

                              EEEEEEEEEEEC-.......EEEE----TTSHHHHHHC....SS-SEEEEEG-.CHHHHHHEE............EEE---SB-BT CS
          Erythro_esteras 249 GftfgtgtvaaasewgepmevmtvrppppgslEallha....agppdflldlrneelrewleeprleraiGv..rpeterqshyve 328
                              Gf+++tg+v+a ++w++p++vm+v+++ ++s+Ea +h+    +++pdf++ ++ne+  + l+e+r++raiGv  +p +e++++yv+
  PHY93_08355|PHY93_08355 316 GFSTYTGSVIASHSWDGPIQVMPVPKAIEKSVEAEFHNaipkVASPDFYVLFENEPKFSPLAETRGQRAIGVvyHPPSEHRGNYVP 401
                              **************************************777777999***9999999***************************** PP

                              TSHHHH-SEEEEEEEE CS
          Erythro_esteras 329 aslaeqfDalifvdet 344
                              + l++++Da++f+det
  PHY93_08355|PHY93_08355 402 TILSDRYDAFVFIDET 417
                              **************98 PP

>> Harakiri  Activator of apoptosis harakiri
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.2     2e-05      0.18      53      90 ..      89     126 ..      80     128 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 2e-05
                 Harakiri  53 arsrdplpallpalrarwp.wlcaaaqvaalaawllgrr 90 
                              ++s dp+ ++l  + +rwp w+ a  +va l  wl  r 
  PHY93_08355|PHY93_08355  89 TKSADPAKGVLSRF-SRWPtWMWANEEVAELLIWLKARN 126
                              67899********9.9**99***************9885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (440 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       591  (0.0329634); expected 358.6 (0.02)
Passed bias filter:                      436  (0.0243181); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.60u 0.28s 00:00:00.88 Elapsed: 00:00:00.46
# Mc/sec: 2854.95
//
Query:       PHY93_08360|PHY93_08360  [L=212]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    7.5e-13   48.9   0.3    9.6e-13   48.6   0.3    1.2  1  Chalcone_3  Chalcone isomerase-like


Domain annotation for each model (and alignments):
>> Chalcone_3  Chalcone isomerase-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.6   0.3   5.4e-17   9.6e-13       4     159 ..      31     203 ..      28     211 .. 0.70

  Alignments for each domain:
  == domain 1  score: 48.6 bits;  conditional E-value: 5.4e-17
               Chalcone_3   4 vagvklpdtvtv....ggkeLkLnGaGlRskff....fkvYvagLYlpe.......kssdaeailaaeekairleilsrdvssekl 74 
                              ++gv++ +++++    + ++L   GaGlR+k +    +kvYva  +l +       ++ + +++ + + +ai l++l+  v+++++
  PHY93_08360|PHY93_08360  31 IEGVNVGKSADLvtinETQKLDFIGAGLRTKKVlvanVKVYVAQIFLDNagkfvrtNAGAVKSLADMKAGAIHLTFLR-GVDAATV 115
                              56666655544422224699*********9865333379***988887522111003444555556666788888885.5****** PP

               Chalcone_3  75 kkaleegfekntaeelaelkariekfkalfak..evkkgdvitldylpgkg...vvvvvngkq.lgtieged.fakAllkiwLGek 153
                              + ++++++++n  +     ++ i +f +++++  ++k+g  ++++ +++++   +vv+ n+   ++ti+g+d ++k +l+iwLGe 
  PHY93_08360|PHY93_08360 116 QVSFRDALDANDIDL---HNKGIVAFLSAVKEgaDAKDGKSMNISLQKDSKgvvTVVYENTAGvEKTITGDDvLFKGILSIWLGE- 197
                              ********9988543...456777888888743389*********9987654523355554442569**997479*********9. PP

               Chalcone_3 154 PadkkL 159
                              Pad+ L
  PHY93_08360|PHY93_08360 198 PADSGL 203
                              999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (212 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       564  (0.0314574); expected 358.6 (0.02)
Passed bias filter:                      392  (0.021864); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 1409.83
//
Query:       PHY93_08365|PHY93_08365  [L=304]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (304 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       796  (0.0443973); expected 358.6 (0.02)
Passed bias filter:                      463  (0.0258241); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.58u 0.26s 00:00:00.84 Elapsed: 00:00:00.46
# Mc/sec: 1995.10
//
Query:       PHY93_08370|PHY93_08370  [L=114]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0027   17.3   0.4     0.0029   17.2   0.4    1.1  1  DUF1624   Protein of unknown function (DUF1624)


Domain annotation for each model (and alignments):
>> DUF1624  Protein of unknown function (DUF1624)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.4   1.6e-07    0.0029      80     128 ..      28      76 ..      11     110 .. 0.75

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 1.6e-07
                  DUF1624  80 ilaaallitaatylllpdsfi.vFGiLhlialalllallflrlpkallll 128
                              + +a++l+ +a ++l+  ++i +FGiL +++l+ ++   f  +  ++lll
  PHY93_08370|PHY93_08370  28 L-VAGILVVLAIRILFIPDWIpYFGILDILFLMGVVLDYFFGVIDQNLLL 76 
                              4.56777777777777778888***********99988888777777766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (114 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       448  (0.0249875); expected 358.6 (0.02)
Passed bias filter:                      299  (0.0166769); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.29s 00:00:00.74 Elapsed: 00:00:00.44
# Mc/sec: 771.30
//
Query:       PHY93_08375|PHY93_08375  [L=123]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      0.004   17.3   0.4     0.0052   17.0   0.4    1.1  1  zf-4CXXC_R1  Zinc-finger domain of monoamine-oxidase A repres
     0.0066   16.4   0.1      0.016   15.2   0.0    1.6  2  Mob_synth_C  Molybdenum Cofactor Synthesis C
  ------ inclusion threshold ------
      0.042   14.1   1.1      0.095   13.0   1.0    1.6  1  zf-AD        Zinc-finger associated domain (zf-AD)
        0.1   12.2   0.2        0.1   12.2   0.2    1.8  2  PHD_2        PHD-finger


Domain annotation for each model (and alignments):
>> zf-4CXXC_R1  Zinc-finger domain of monoamine-oxidase A repressor R1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.4   1.2e-06    0.0052      21      83 ..      28      93 ..      16     104 .. 0.72

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 1.2e-06
              zf-4CXXC_R1 21 tsCkakeCksaklkfCekClknRygeeveev...aakkeWvCPkCrgiCncslcrkkkglaptgql 83
                             ++ +++  ++ + +fCe+C ++R   e+ +    +++ eW+C +C +      + +k+ ++ t + 
  PHY93_08375|PHY93_08375 28 KKVTEDVVHQEQRNFCEACDQVRPDVELYKHrnpTTEAEWICVRCADQLQIPDTFRKTAQSDTSIR 93
                             4445567788999**********9987765511156789********8887777777666666554 PP

>> Mob_synth_C  Molybdenum Cofactor Synthesis C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0   3.5e-06     0.016      43      79 ..      14      50 ..       1      54 [. 0.82
   2 ?   -1.6   0.0      0.53   2.4e+03      89     117 ..      69      98 ..      64     103 .. 0.67

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 3.5e-06
                             -SST-SSEEEEETTT--EEEEE-TTTS--GGG--EEE CS
              Mob_synth_C 43 ketkgpakrykikdgkgeiglIapvsepFCasCnRlR 79
                             +++ +p +r ki+++k++  ++++ +++FC+ C+++R
  PHY93_08375|PHY93_08375 14 TKPVAPNERSKIAKKKVTEDVVHQEQRNFCEACDQVR 50
                             4457899999999999999****************99 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 0.53
                              SSS-SS-EEHHHHHHTT-.-HHHHHHHHHH CS
              Mob_synth_C  89 CLfaeeeidlrdllrega.seeeLkelike 117
                              C    +++++ d  r++a s+ ++++++++
  PHY93_08375|PHY93_08375  69 CVRCADQLQIPDTFRKTAqSDTSIRKMFRR 98 
                              555566667777777777555667776665 PP

>> zf-AD  Zinc-finger associated domain (zf-AD)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   1.0   2.1e-05     0.095      40      68 ..      60      88 ..      43      95 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 2.1e-05
                    zf-AD 40 pddslpekiCesCleklqefyeFrekcve 68
                             ++ +  e iC +C  +lq   +Fr++++ 
  PHY93_08375|PHY93_08375 60 NPTTEAEWICVRCADQLQIPDTFRKTAQS 88
                             44555668*****************9986 PP

>> PHD_2  PHD-finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.2       0.5   2.3e+03      32      35 ..      43      46 ..      34      47 .. 0.62
   2 ?   12.2   0.2   2.2e-05       0.1      19      36 .]      56      73 ..      56      73 .. 0.88

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.5
                    PHD_2 32 CrrC 35
                             C+ C
  PHY93_08375|PHY93_08375 43 CEAC 46
                             5555 PP

  == domain 2  score: 12.2 bits;  conditional E-value: 2.2e-05
                    PHD_2 19 YGvskesdgeeWlCrrCe 36
                             Y+ +++ +++eW+C rC+
  PHY93_08375|PHY93_08375 56 YKHRNPTTEAEWICVRCA 73
                             7788899999*******6 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (123 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       883  (0.0492498); expected 358.6 (0.02)
Passed bias filter:                      598  (0.0333538); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.50u 0.27s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 809.47
//
Query:       PHY93_08380|PHY93_08380  [L=47]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.061   11.9   0.2      0.061   11.9   0.2    1.1  1  DUF5357   Family of unknown function (DUF5357)


Domain annotation for each model (and alignments):
>> DUF5357  Family of unknown function (DUF5357)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.2   3.4e-06     0.061      18      43 ..       1      25 [.       1      40 [. 0.73

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 3.4e-06
                  DUF5357 18 lvPkkayswqtliyLsvfswllslla 43
                             + P+k  sw tl++ s+f  ++   a
  PHY93_08380|PHY93_08380  1 MEPNKFISWTTLLVFSIFAIIIFA-A 25
                             569***************987643.3 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (47 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       719  (0.0401026); expected 358.6 (0.02)
Passed bias filter:                      471  (0.0262703); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.26s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 328.28
//
Query:       PHY93_08385|PHY93_08385  [L=277]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
  ------ inclusion threshold ------
        1.6    8.6   6.9        2.9    7.8   0.3    3.0  2  TFIIE_alpha  TFIIE alpha subunit


Domain annotation for each model (and alignments):
>> TFIIE_alpha  TFIIE alpha subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   1.4    0.0091   1.6e+02      17      51 ..      65      99 ..      49     108 .. 0.67
   2 ?    7.8   0.3   0.00016       2.9      41     102 ..     213     274 ..     177     277 .] 0.88

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.0091
                             HHHHHHHCTTSEBHHHHHHHHTS-HHHHHHHHHHH CS
              TFIIE_alpha 17 lvldvLlekgevteedlakelkidlnelrklLnrL 51
                              v   L+ + ++ ++d+a +++++++++ +l  +L
  PHY93_08385|PHY93_08385 65 IVFPQLAVELKIIDDDVAGLTNLNKQKIMSLKVEL 99
                             45556777777778888888888888777765555 PP

  == domain 2  score: 7.8 bits;  conditional E-value: 0.00016
                              HHHHHHHHHHHHHCTSEEEEEEEETTTEEEEEEEEEECCCHCCCHHHHHHHHHHHHHHHHCC CS
              TFIIE_alpha  41 lnelrklLnrLyearlvkykrrrdeekswykyywrinyeklvdvvkrkleevvkkLeeklek 102
                              ++ + +l ++  ++r  +y ++ de+++ y     ++ +k+  v k+ l+e++k+  e+l+k
  PHY93_08385|PHY93_08385 213 KKFIHELFYNYDSIRDPSYAKAIDEDQQKYFELISVTLNKMNSVQKKHLSETLKDRAEQLRK 274
                              56678889999999999*************************************98888887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (277 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1154  (0.064365); expected 358.6 (0.02)
Passed bias filter:                      414  (0.0230911); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.44
# Mc/sec: 1877.12
//
Query:       PHY93_08390|PHY93_08390  [L=93]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.033   14.2   0.1      0.044   13.7   0.1    1.3  1  DUF485    Protein of unknown function, DUF485


Domain annotation for each model (and alignments):
>> DUF485  Protein of unknown function, DUF485
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.1   2.5e-06     0.044      31      79 ..      37      83 ..      31      90 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 2.5e-06
                   DUF485 31 fvllvafapdllatkvgegnitvglllgllqivltflltglYvrrAnre 79
                             f++++a a + l+  ++  n    +++ ++q + ++ll g+Y ++An++
  PHY93_08390|PHY93_08390 37 FLAMAAGA-AALSIGLA-MNRKRSWAIVVGQWIPSILLLGIYNKVANTQ 83
                             66666666.77888887.66778899999******************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (93 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       712  (0.0397122); expected 358.6 (0.02)
Passed bias filter:                      429  (0.0239277); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.26s 00:00:00.74 Elapsed: 00:00:00.45
# Mc/sec: 625.34
//
Query:       PHY93_08395|PHY93_08395  [L=604]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    7.3e-36  122.4   0.0    1.6e-35  121.3   0.0    1.6  1  RQC           RQC domain
    1.7e-20   73.5   0.0    3.5e-20   72.5   0.0    1.5  1  DEAD          DEAD/DEAH box helicase
    3.6e-20   72.4   0.0    1.5e-18   67.1   0.0    2.6  2  Helicase_C    Helicase conserved C-terminal domain
    3.7e-18   65.3   0.0    7.3e-18   64.3   0.0    1.5  1  HRDC          HRDC domain
    1.3e-17   64.2   3.8    1.3e-17   64.2   3.8    2.0  2  RecQ_Zn_bind  RecQ zinc-binding
     0.0037   17.3   0.0      0.013   15.5   0.0    2.0  1  ResIII        Type III restriction enzyme, res subunit


Domain annotation for each model (and alignments):
>> RQC  RQC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  121.3   0.0   5.3e-39   1.6e-35       1     110 [.     401     510 ..     401     514 .. 0.97

  Alignments for each domain:
  == domain 1  score: 121.3 bits;  conditional E-value: 5.3e-39
                              ---EEE-HHHHHHHHHHHHHTTS-SBHHHHHHHHHT---CCCCCTTGGGSTTTTTTTTS-HHHHHHHHHHHHHTTSEEEE..SSSB CS
                      RQC   1 ppetvDvteeaqkilscvyrtgqrfgaghivdvLrGsktkkirqlghdklstfGigkdlskkewrrlirqLiaegyLeedveeygv 86 
                              pp+ +D+t +aqkils++ rt+q fgaghi++vLrGsk++k+++++h+ ls++Gigkd +k+ w++++rqL++ +y++ +  ey+ 
  PHY93_08395|PHY93_08395 401 PPQLWDATIDAQKILSTIFRTNQTFGAGHIIEVLRGSKNAKVTDRNHHALSVYGIGKDQPKEHWNSILRQLLNLNYIAIKNWEYRS 486
                              6899****************************************************************************99**** PP

                              EEE-CCGHHHHTSSS--EEESHHH CS
                      RQC  87 lkltekarevlkgeekvklreekk 110
                              l lt+k++e+l g  k+ lr++k 
  PHY93_08395|PHY93_08395 487 LGLTSKSQEILTGAIKLNLRKQKF 510
                              ********************9986 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.5   0.0   1.2e-23   3.5e-20       4     171 ..      23     180 ..      21     185 .. 0.83

  Alignments for each domain:
  == domain 1  score: 72.5 bits;  conditional E-value: 1.2e-23
                              HHHHHHHHHTTCEEEEEESTTSSHHHHHHHHHHHHHHHSTTSTS-EEEEEESSHHHHHHHHHHHHHHTTT.STSEEEEEETTSSHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxx RF
                     DEAD   4 QaeaiplilgggdvlvaaeTGsGKTlaflipvlqivyetkgktgpkalivePtreLaeqtlnnlkkfkky.idlrvlliiggvaar 88 
                              Q ++i+ il+g+d l+ ++TG GK+l+++ip+l  +          +l+++P+ +L+++++ nlk+++ + + l+ +l ++ ++++
  PHY93_08395|PHY93_08395  23 QLNIINSILDGRDTLAIMPTGGGKSLCYQIPAL--F------LPGVTLVISPLISLMQDQVMNLKEYGVHsVFLNSSLSYK-ESQK 99 
                              8899*****************************..3......34589**********************844456655555.4444 PP

                              HHHHHHHTT.CSEEEEEHHHHHHHHHCTSSHCTTEEEEEEETHHHHHHT..TTHHHHHHHHHHSHHHCTTSTTTSEEEEEESSBS. CS
                              xxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx. RF
                     DEAD  89 dqlskldng.vdivvgtpgrlddllstgklnlsqvrflVlDEadrlldq..gfsdfinrilnqlpqitcdgklqrqvivlSATlp. 170
                               +   l +g v+iv+  p+ +++   ++ ++  q++++ +DEa++++++  +f++++ r l +l+++  +      v++l+AT+  
  PHY93_08395|PHY93_08395 100 AKALIL-EGlVKIVYVSPEGILSPALSEFFSQIQISLIAIDEAHCVSQWghEFRKDYTR-LGELKSMFPEVT----VVALTATADa 179
                              555555.556*************766688889999**************9899999999.888866655544....*******985 PP

                              H CS
                              x RF
                     DEAD 171 k 171
                              k
  PHY93_08395|PHY93_08395 180 K 180
                              5 PP

>> Helicase_C  Helicase conserved C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.0     0.077   2.3e+02      18      68 ..      60     110 ..      51     118 .. 0.73
   2 !   67.1   0.0   5.1e-22   1.5e-18       3     110 ..     217     324 ..     215     325 .. 0.95

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.077
                              EEEEEESSHHHHHHHHHHHHHT.TSTEEEESTTSTHHHHHHHHHHHHTTSSS CS
               Helicase_C  18 kilifvntidrlekvklllekk.gikvavlhgelpqnereeileqfnkgesd 68 
                               +l++++ i+ +++ ++++ k+ g++++ l+++l+ +e +++ +   +g ++
  PHY93_08395|PHY93_08395  60 VTLVISPLISLMQD-QVMNLKEyGVHSVFLNSSLSYKESQKAKALILEGLVK 110
                              57888899995543.344334459*************999876666666555 PP

  == domain 2  score: 67.1 bits;  conditional E-value: 5.1e-22
                              HHHHHHHHHHTTTTSEEEEEESSHHHHHHHHHHHHHTTSTEEEESTTSTHHHHHHHHHHHHTTSSSEEEESGGGTSSSTSTTESEE CS
               Helicase_C   3 leallellkleeeggkilifvntidrlekvklllekkgikvavlhgelpqnereeileqfnkgesdvLiatdvaerGidipkvnlV 88 
                              +++l e++k ++++++ ++++ ++d++++v l l+k +++++++h+ l+++er      fn +e  +++at + ++Gid p+v++V
  PHY93_08395|PHY93_08395 217 MKQLDEFIKANHQNDTGIVYCLSRDKVDRVALALKKLKYNAIAYHAGLTKEERTTNQGLFNTEEKVIVVATIAFGMGIDRPDVRFV 302
                              67889999999****************9999999999***********************999999******************** PP

                              EESSSSSSHHHHHHHHTTSSST CS
               Helicase_C  89 infdlprnvtsyiqriGRtgRa 110
                               ++dlp++++sy q  GR+gR 
  PHY93_08395|PHY93_08395 303 AHLDLPKSIESYYQETGRAGRD 324
                              *********************6 PP

>> HRDC  HRDC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.3   0.0   2.4e-21   7.3e-18       3      68 .]     538     603 ..     536     603 .. 0.98

  Alignments for each domain:
  == domain 1  score: 64.3 bits;  conditional E-value: 2.4e-21
                              HHHHHHHHHHHHHHHHHTS-HHHHS-HHHHHHHHHH---SHHHHHTSTTT-HHHHHHHHHHHHHHH CS
                     HRDC   3 allkaLrewReelAreedvppyvvfpdktLleiAeklPttleeLlqiegvgkrklekygeeileai 68 
                              +l++aL+ +R ++A+e+ +p y+vf+dk L ++   +P++ +e+l + gvg+ kle yg+++le++
  PHY93_08395|PHY93_08395 538 DLFDALKVLRNKIAKEKSIPSYIVFNDKSLHDMCSIMPRNDSEFLLVYGVGQSKLENYGKDFLEVV 603
                              79**************************************************************96 PP

>> RecQ_Zn_bind  RecQ zinc-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.2   3.8   4.4e-21   1.3e-17       2      65 ..     337     398 ..     336     399 .. 0.95
   2 ?   -4.0   0.1         6   1.8e+04       6      24 ..     507     525 ..     506     533 .. 0.49

  Alignments for each domain:
  == domain 1  score: 64.2 bits;  conditional E-value: 4.4e-21
             RecQ_Zn_bind   2 qDvsrlrrlieqseesekekeaelekleamlaycentteCrrkllleyFgeeaaeeeCgnCDnC 65 
                              qDv++l++++e +e++e+ k++++ kl+ mla+ce+ + Crr++ll+yFgee+ ++ CgnCD C
  PHY93_08395|PHY93_08395 337 QDVVKLSQMLETTEADESYKKVARFKLDCMLALCEAGS-CRRRYLLSYFGEESNST-CGNCDTC 398
                              9*********************************9999.************87766.******* PP

  == domain 2  score: -4.0 bits;  conditional E-value: 6
             RecQ_Zn_bind   6 rlrrlieqs..eesekekeae 24 
                              ++++ i ++  +    +ke++
  PHY93_08395|PHY93_08395 507 KQKFAIAKEgsN--GDKKEKK 525
                              567777666432..2222222 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   4.4e-06     0.013      23     169 ..      32     177 ..      16     179 .. 0.71

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 4.4e-06
                              TTSEEEEEESTTSTHHHHHHHHHHHH-S.....-EEEEESSHHHHHHHHHHGGGGTGG....GEEEESSS-B--.........-SE CS
                   ResIII  23 rdkrglikmaTGtGKTlvaaklierllkkgkeekflflvprkslleqtleefkkflseaykeigkkvsgdkkka..kekdstnkki 106
                              + +  l  m+TG GK+l++ ++ + +l       +l++ p +sl++    ++k++    +   + ++s ++ ++    + +   ki
  PHY93_08395|PHY93_08395  32 DGRDTLAIMPTGGGKSLCY-QIPALFLPG----VTLVISPLISLMQDQVMNLKEYGVHSVF-LNSSLSYKESQKakALILEGLVKI 111
                              45668999*******9986.555555553....69*****************999988874.333333333333113445555666 PP

                              EEEEHHHHHHTH........HHHTTT-SEEEEETGGGTTS......TTTHHH...HHT---SEEEEEESS- CS
                   ResIII 107 lvttiqsldadseeeeeeseellrdrfdviiiDEaHrlgak.....kswrei...lekfkeavllglTATp 169
                              + ++ + + ++       se +++ ++ +i iDEaH +++      k ++++   + +f+e ++++lTAT 
  PHY93_08395|PHY93_08395 112 VYVSPEGILSPA-----LSEFFSQIQISLIAIDEAHCVSQWghefrKDYTRLgelKSMFPEVTVVALTATA 177
                              666666666666.....78888888888********99998776665677666659999***********6 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (604 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       653  (0.0364214); expected 358.6 (0.02)
Passed bias filter:                      510  (0.0284455); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.69u 0.28s 00:00:00.97 Elapsed: 00:00:00.45
# Mc/sec: 4016.94
//
Query:       PHY93_16545|PHY93_16545  [L=140]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.7e-24   86.1   1.1    2.3e-24   85.7   1.1    1.2  1  Response_reg  Response regulator receiver domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.7   1.1   1.3e-28   2.3e-24       1     110 [.      22     135 ..      22     137 .. 0.92

  Alignments for each domain:
  == domain 1  score: 85.7 bits;  conditional E-value: 1.3e-28
                              EEEESSSHHHHHHHHHHHHHTTE..EEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCT..TTSEEEEEESSTS CS
             Response_reg   1 vlivdDdplvrellrqlleeegy..eevaeaedgkealellkeekvdlillDinmpgmdGlellkeireed..pelpviiltahse 82 
                              ++++dD+  + +l++++l ++++  +++  a+dgkeal ++++++++li++D+ mp+m+Gl+l+kei+ +   +++pv+i++++ e
  PHY93_16545|PHY93_16545  22 IMLIDDEDEIKSLMSNYLVKSHIegNKIVLASDGKEALVKIQNQDFGLIIVDVIMPKMNGLQLIKEIKLRTkyKNIPVLIISGTIE 107
                              799****************76665569****************************************6555559************ PP

                              HHHHHHHHHCTESEEEESSG-HHHHHHH CS
             Response_reg  83 eedavealkagaddflsKpfdpeeLlka 110
                               e+++ a+++g++ +l+Kpf+ +  +++
  PHY93_16545|PHY93_16545 108 AENVKTAISLGINNILVKPFTYNLFIEK 135
                              ********************98877776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (140 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       552  (0.0307881); expected 358.6 (0.02)
Passed bias filter:                      370  (0.020637); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.26s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 960.36
//
Query:       PHY93_08400|PHY93_08400  [L=392]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      2e-22   79.6   0.0    4.7e-22   78.4   0.0    1.6  1  AAA_14          AAA domain
    2.2e-19   69.8   0.5    3.9e-19   69.0   0.3    1.5  1  DUF4143         Domain of unknown function (DUF4143)
    5.2e-05   23.5   0.3      0.023   15.0   0.2    2.5  2  AAA_22          AAA domain
    0.00038   20.5   0.1        1.5    8.7   0.0    2.9  3  ATPase_2        ATPase domain predominantly from Archaea
  ------ inclusion threshold ------
      0.018   15.5   0.0      0.067   13.6   0.0    1.9  1  AAA             ATPase family associated with various cellula
       0.14   12.6   0.1        7.3    6.9   0.0    2.7  3  AAA_16          AAA ATPase domain
       0.14   11.6   0.6          5    6.5   0.4    2.4  2  TniB            Bacterial TniB protein
       0.14   12.4   0.7       0.34   11.1   0.7    1.7  1  Tn7_Tnp_TnsA_N  TnsA endonuclease N terminal


Domain annotation for each model (and alignments):
>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.4   0.0   2.1e-25   4.7e-22       2     130 ..      16     139 ..      15     140 .. 0.84

  Alignments for each domain:
  == domain 1  score: 78.4 bits;  conditional E-value: 2.1e-25
                   AAA_14   2 rkilvitGaRrvGKTtllkqlikellvkkesilyinldderdkkla..dpekllelilek.lkeekktylflDEiqevpewekalk 84 
                              rk l++ G+R++GK+ llk  +        + +y++l  ++++++   +p +ll+   e+ +k++k +++++DEiq++p++ + + 
  PHY93_08400|PHY93_08400  16 RKSLFLFGPRQTGKSSLLKLHYP-------DAFYVDLLLNDNYASLlkNP-ELLRKRVELfMKTHKSNIIIIDEIQKIPHLLDEVH 93 
                              68899************977764.......45688887777766441145.45555555533447999****************** PP

                   AAA_14  85 slvdegknldvivtGSnskllskeiatslagrvaeielyplsfaEf 130
                               l++++k l++i+tGS++  l+ +  + l gr++  el+pl+faE+
  PHY93_08400|PHY93_08400  94 ALIEKHKMLRFILTGSSARKLKAQGVNLLGGRASRAELFPLTFAEI 139
                              *********************************************7 PP

>> DUF4143  Domain of unknown function (DUF4143)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.0   0.3   1.7e-22   3.9e-19      20     122 .]     237     337 ..     168     337 .. 0.82

  Alignments for each domain:
  == domain 1  score: 69.0 bits;  conditional E-value: 1.7e-22
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxx RF
                  DUF4143  20 lverlppwsespnskkrlrkspKlyfvDtGLlvallgldkeelledsenkGallEnlVaqeLlky..sekegaklyyyrdkngaEv 103
                              + ++++++     +k++  +s K+yf D G+++ l+  +++el e+ + +Ga +E+l++qeL++y  + +++ kl y+r++++ Ev
  PHY93_08400|PHY93_08400 237 IGNQINSF--RHTEKRKAMSSCKFYFFDIGVVNGLI--RRKELTEGTAEFGAAFEQLIFQELRAYisYYRKDFKLEYWRTTDKTEV 318
                              55666666..77889999****************88..555777999********************7777*************** PP

                              xxxxxxxxxxxxxxxxxxx RF
                  DUF4143 104 DfvielkggkivpiEvKss 122
                              Dfvi ++ +++++iE+Kss
  PHY93_08400|PHY93_08400 319 DFVIYENLKTLYAIEIKSS 337
                              ****999**********96 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.0   0.0     0.006        13       5      23 ..      16      34 ..      13      37 .. 0.90
   2 !   15.0   0.2     1e-05     0.023      73     130 ..      56     109 ..      40     114 .. 0.84

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.006
                   AAA_22  5 agilvvtGesGtGKTtllr 23
                             +++l+++G+  tGK+ ll+
  PHY93_08400|PHY93_08400 16 RKSLFLFGPRQTGKSSLLK 34
                             7899************997 PP

  == domain 2  score: 15.0 bits;  conditional E-value: 1e-05
                   AAA_22  73 lsseellealeqalraravielliiDEaqhlrseealeeLrsllnlsrkgvqliLvGt 130
                              ++ e l++++e  +++++   ++iiDE+q++  + +l e++ l + ++k +++iL G 
  PHY93_08400|PHY93_08400  56 KNPELLRKRVELFMKTHKS-NIIIIDEIQKI--PHLLDEVHALIE-KHKMLRFILTGS 109
                              45666779***********.***********..999999988888.8999*****996 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.7   0.0   0.00065       1.5      11      38 ..      10      34 ..       6      39 .. 0.82
   2 !    8.5   0.0   0.00076       1.7     111     143 ..      66      97 ..      44     139 .. 0.74
   3 ?   -1.5   0.0      0.89     2e+03     157     172 ..     358     373 ..     287     384 .. 0.73

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 0.00065
                 ATPase_2 11 leeilerepneiyfiYGpegsGKtaLlk 38
                             le+il+r   + +f++Gp++ GK++Llk
  PHY93_08400|PHY93_08400 10 LESILKR---KSLFLFGPRQTGKSSLLK 34
                             6666666...779*************98 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.00076
                 ATPase_2 111 ekikkkgkkiiiiiDelqklidlglngaellvk 143
                              e   k+ k  iiiiDe+qk+    l++   l++
  PHY93_08400|PHY93_08400  66 ELFMKTHKSNIIIIDEIQKIP-HLLDEVHALIE 97 
                              44456667799*********9.44555555554 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 0.89
                 ATPase_2 157 hlcvviclsSeglfie 172
                              ++ +v+cl+  +++ e
  PHY93_08400|PHY93_08400 358 KKKIVVCLTPHSMVEE 373
                              4556777777777776 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0     3e-05     0.067       2      70 ..      20      85 ..      19     125 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 3e-05
                             EEESSTTSSHHHHHHHHHHHH.THEE.EEEETTTCSSSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGH CS
                      AAA  2 llyGppGtGKTllakavakel.gvef.leisgsellskyvgesekkirelfkeakekakpsilfiDEidal 70
                              l+Gp  tGK++l k    ++  v++ l+ + ++ll     ++++ +r+ ++   +  k  i++iDEi ++
  PHY93_08400|PHY93_08400 20 FLFGPRQTGKSSLLKLHYPDAfYVDLlLNDNYASLL-----KNPELLRKRVELFMKTHKSNIIIIDEIQKI 85
                             699*************99996445543677777777.....67777777777744443469*******998 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.9   0.0    0.0033       7.3      25      42 ..      17      34 ..       9      43 .. 0.86
   2 ?    2.3   0.0     0.085   1.9e+02     121     149 ..      59      87 ..      48     122 .. 0.72
   3 ?   -2.8   0.0       3.1     7e+03      80     105 ..     288     318 ..     267     344 .. 0.60

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.0033
                   AAA_16 25 elvllsGesGvGKsslvr 42
                              +++l G++ +GKssl++
  PHY93_08400|PHY93_08400 17 KSLFLFGPRQTGKSSLLK 34
                             689*************96 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.085
                   AAA_16 121 ellkrllallsrderplvlvlDdlqwade 149
                              ell++ ++l  ++++  ++++D++q++  
  PHY93_08400|PHY93_08400  59 ELLRKRVELFMKTHKSNIIIIDEIQKIPH 87 
                              67888887777767779********5543 PP

  == domain 3  score: -2.8 bits;  conditional E-value: 3.1
                   AAA_16  80 ellrqllde.....aesaeleawrekleeal 105
                              +l+ q+l++      ++ +le+wr++ ++++
  PHY93_08400|PHY93_08400 288 QLIFQELRAyisyyRKDFKLEYWRTTDKTEV 318
                              2222222223333344457777777666665 PP

>> TniB  Bacterial TniB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.9   0.0     0.029        64      32      53 ..      13      34 ..       5      44 .. 0.82
   2 ?    6.5   0.4    0.0022         5     102     131 ..      56      85 ..      37     105 .. 0.77

  Alignments for each domain:
  == domain 1  score: 2.9 bits;  conditional E-value: 0.029
                     TniB 32 rkrmpnlllvGdsnnGKtmive 53
                               + ++l l+G+ ++GK+++++
  PHY93_08400|PHY93_08400 13 ILKRKSLFLFGPRQTGKSSLLK 34
                             556689************9987 PP

  == domain 2  score: 6.5 bits;  conditional E-value: 0.0022
                     TniB 102 arvskleqqvlrllrelkvrvLiiDEihnl 131
                              ++ + l+++v  ++++ k  ++iiDEi+++
  PHY93_08400|PHY93_08400  56 KNPELLRKRVELFMKTHKSNIIIIDEIQKI 85 
                              445567777878899************987 PP

>> Tn7_Tnp_TnsA_N  TnsA endonuclease N terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.7   0.00015      0.34      36      81 ..     319     361 ..     302     366 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00015
           Tn7_Tnp_TnsA_N  36 DfLvtlkdstgeellavevKyseeleeertrekleiereyweekgi 81 
                              Df++  + +    l+a+e+K+s++l+ + +   +++e+e+  +k+i
  PHY93_08400|PHY93_08400 319 DFVIYENLK---TLYAIEIKSSKKLKPKDYSGLIKLEEEFPLKKKI 361
                              888888886...9**********************99999887776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (392 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       733  (0.0408835); expected 358.6 (0.02)
Passed bias filter:                      503  (0.0280551); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.63u 0.30s 00:00:00.93 Elapsed: 00:00:00.46
# Mc/sec: 2557.24
//
Query:       PHY93_08405|PHY93_08405  [L=275]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.3e-35  121.7   0.4    5.9e-35  120.9   0.2    1.5  2  NYN       NYN domain
    1.2e-05   25.8   0.0    0.00027   21.5   0.0    2.4  2  PIN7      PIN domain
    7.3e-05   22.5   0.0    0.00014   21.6   0.0    1.5  1  OST-HTH   OST-HTH/LOTUS domain


Domain annotation for each model (and alignments):
>> NYN  NYN domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  120.9   0.2   9.9e-39   5.9e-35       2     146 ..      10     153 ..       9     154 .. 0.92
   2 ?   -3.9   0.0       2.8   1.7e+04     107     120 ..     242     255 ..     237     260 .. 0.71

  Alignments for each domain:
  == domain 1  score: 120.9 bits;  conditional E-value: 9.9e-39
                      NYN   2 vavfiDgenlpvpak..gke.vdyrklleeirskgelvraraygnwedeeqnkfqdalsstgikvkhkplkkrggsgkkavDvela 84 
                              +a+f+D+en+++  +  ++  +d++k+le++  kg +v+++ay++w  ++ ++f++ ++++ +++  +p ++  +sgk+++D++++
  PHY93_08405|PHY93_08405  10 IALFCDFENIALGVRdaKYAtFDINKVLERLLLKGSIVVKKAYCDW--DRYKDFKRPMHEANFELIEIPHVR--QSGKNSADIRMV 91 
                              8***********999865558************************8..6789***********887777765..49********** PP

                      NYN  85 vdalelaydnky.dtivLvsgDgDFaplveklrergkrVevllaeeastsseLisaadefisl 146
                              vdal+l+y++++ dt+v++sgD+DF+plv+klre++k+V++++++ +sts+ L + +defi++
  PHY93_08405|PHY93_08405  92 VDALDLCYTKSHvDTFVIISGDSDFSPLVSKLRENNKTVIGIGVK-ESTSNLLSANCDEFIFY 153
                              **********99*******************************66.8**************97 PP

  == domain 2  score: -3.9 bits;  conditional E-value: 2.8
                      NYN 107 DFaplveklrergk 120
                               F  lve+++++g 
  PHY93_08405|PHY93_08405 242 SFRELVEDAQSLGL 255
                              57778888777775 PP

>> PIN7  PIN domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.0   4.5e-08   0.00027      49     101 ..      72     125 ..      53     127 .. 0.80
   2 ?    1.6   0.0     0.071   4.3e+02      40      72 ..     177     206 ..     167     218 .. 0.60

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 4.5e-08
                     PIN7  49 kielikikkkgknalDFhlas.ylGyliaeekeaefviiskDkGfdplieflke 101
                               ie+ +++++gkn+ D  ++   l  + ++++  +fviis D++f+pl++ l+e
  PHY93_08405|PHY93_08405  72 LIEIPHVRQSGKNSADIRMVVdALDLCYTKSHVDTFVIISGDSDFSPLVSKLRE 125
                              466778899********9986256666677799****************87765 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.071
                     PIN7  40 vkklaelgkkielikikkkgknalDFhlasylG 72 
                              vk+l+e+    +  k  +k ++alDF + +  G
  PHY93_08405|PHY93_08405 177 VKDLKEA---TKDTKAIDKRQEALDFIVETLEG 206
                              4444444...444444455779****8876555 PP

>> OST-HTH  OST-HTH/LOTUS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.6   0.0   2.4e-08   0.00014      16      56 ..     206     251 ..     193     267 .. 0.75

  Alignments for each domain:
  == domain 1  score: 21.6 bits;  conditional E-value: 2.4e-08
                              H......TTTTSBEHHHHHHHHHHHHSST-STCCCTSSSHHHHHH.TS CS
                  OST-HTH  16 s......dpdgwvslsrlgslykkkygksfdprkyGfskLseLlk.al 56 
                                     +++  ++ s +++ +k++ +  f+   yG+++++eL++ a 
  PHY93_08405|PHY93_08405 206 GlaeergEEEK-MWGSMVKQTMKRRRP-GFNESYYGYRSFRELVEdAQ 251
                              45555544554.88899**********.***************99444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (275 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       618  (0.0344693); expected 358.6 (0.02)
Passed bias filter:                      455  (0.0253779); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.56u 0.27s 00:00:00.83 Elapsed: 00:00:00.45
# Mc/sec: 1827.90
//
Query:       PHY93_08410|PHY93_08410  [L=397]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.1e-12   47.0   0.1    3.3e-11   43.1   0.1    2.6  1  GSDH      Glucose / Sorbosone dehydrogenase
    4.5e-06   26.4   0.2     0.0058   16.6   0.1    3.6  3  NHL       NHL repeat


Domain annotation for each model (and alignments):
>> GSDH  Glucose / Sorbosone dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.1   0.1   3.7e-15   3.3e-11     107     276 ..     154     322 ..      64     393 .. 0.77

  Alignments for each domain:
  == domain 1  score: 43.1 bits;  conditional E-value: 3.7e-15
                              ---TT-------EEE-TTS.-EEEE---TT-.GGGGG-TT-SSSEEEEE-TTSSB-TT-TTTT-TTS-TTEEEE--SCE---EE-T CS
                     GSDH 107 pkvesgahfGsrlafgpdg.tLfvtvGdrsk.reeaqdlsselGkilrlnkdGsvpadnpfvgkagakpeiwsyGhRnpqGlaldp 190
                              p+  +g+h    ++ ++ g ++++++G  s+ +e+  + +++   i+ ln+dG+              ++i+++G Rnp Gl l p
  PHY93_08410|PHY93_08410 154 PS--GGNHWTRNIIASKKGnKIYISIGSFSNiAEDGIQKEDHRANIIELNPDGTG-------------ARIFASGLRNPVGLGLAP 224
                              33..6899999988888777***********98889999999***********95.............68**************** PP

                              TT--EEEE..EE--SSS....EEEEEE-TT-B--TTT-S......S-......-S-TTS---SEEETT---EEEEEEE........ CS
                     GSDH 191 dtgeLwes..EhGprgg....DelnlieaGknYGWplvsygeeYsgkkiges.etreglekpvlvwtpsiapsglafytgda.... 265
                              + ++Lw+s  E  + g+    D l  +++ + YGWp   +g++ + +  g++ +  ++  +p ++    +ap glafy+ ++    
  PHY93_08410|PHY93_08410 225 EGHALWTSvnERDNLGEdlvpDFLTEVSENGFYGWPYFYWGKNPDPRLKGPHpDLTKKSLEPSVSLGAHVAPLGLAFYHHTKasnl 310
                              ******853366666666777889999******************995555547777788899999999*********99761112 PP

                              .....TTEEEEE CS
                     GSDH 266 fp.ewkgdllvg 276
                              fp ++++ ++vg
  PHY93_08410|PHY93_08410 311 FPiKYQNGAFVG 322
                              443466666665 PP

>> NHL  NHL repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.3   0.0    0.0025        23       9      28 .]      72      91 ..      70      91 .. 0.85
   2 ?   -0.9   0.0      0.23   2.1e+03       1      14 [.     214     227 ..     214     229 .. 0.87
   3 !   16.6   0.1   6.5e-07    0.0058       3      20 ..     370     388 ..     368     390 .. 0.87

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.0025
                             EETTTEEEEEECCCTEEEEE CS
                      NHL  9 vdsnGdiyVaDsenhrvqvF 28
                             + ++G+i+Va+s   r+  F
  PHY93_08410|PHY93_08410 72 AAPDGNIFVAESQAGRITRF 91
                             459********999999887 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.23
                              BSSEEEEEEETTTE CS
                      NHL   1 fnyPhGvavdsnGd 14 
                              +++P G+ + + G+
  PHY93_08410|PHY93_08410 214 LRNPVGLGLAPEGH 227
                              689****9999998 PP

  == domain 3  score: 16.6 bits;  conditional E-value: 6.5e-07
                              SEEEEEEETTTEEEEEE.C CS
                      NHL   3 yPhGvavdsnGdiyVaD.s 20 
                              +P+Gvav+s+G ++VaD  
  PHY93_08410|PHY93_08410 370 RPAGVAVLSDGSLLVADdA 388
                              8****************63 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (397 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       297  (0.0165653); expected 358.6 (0.02)
Passed bias filter:                      276  (0.0153941); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.27s 00:00:00.83 Elapsed: 00:00:00.45
# Mc/sec: 2664.87
//
Query:       PHY93_08415|PHY93_08415  [L=190]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.7e-53  181.5   0.3    1.9e-53  181.3   0.3    1.0  1  DUF924    Bacterial protein of unknown function (DUF924)


Domain annotation for each model (and alignments):
>> DUF924  Bacterial protein of unknown function (DUF924)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  181.3   0.3   1.1e-57   1.9e-53       1     179 [.       6     174 ..       6     176 .. 0.98

  Alignments for each domain:
  == domain 1  score: 181.3 bits;  conditional E-value: 1.1e-57
                   DUF924   1 vldfWfeeeakekakrwfkkkeefDaeirerfeslleaaaageldewakepegaLaliillDQfpRniyRgtakafatDalAlala 86 
                              +ld+Wfe+    +++ wfk +e +D ++ e+f  ++++a+agel +w++ep g+La+iil+DQf+RniyR+++ka++ D++Al la
  PHY93_08415|PHY93_08415   6 ILDYWFEQ---LSSDDWFKDDEMIDLKMVEKFIVIHSEACAGELFRWRDEPLGRLAEIILIDQFSRNIYRDDSKAYSSDSMALVLA 88 
                              799*****...899************************************************************************ PP

                   DUF924  87 kealekgldeeleeaerlffylplmHsEdladqeravelfeelaeeveeeeeeeslkfakkhrdiierFgRyPhRNaaLgRestee 172
                              +ea++++++e+le+ +++f+y+p+mHsE+   +e av++f+e          e+sl+++ +h+ ii+rFgR+P RN++LgR +t+e
  PHY93_08415|PHY93_08415  89 EEAIRNNIQENLETRHKQFLYMPFMHSESKFIHEIAVKIFSEPGL-------EKSLSYELTHKSIIDRFGRFPERNKILGRLNTPE 167
                              ******************************************998.......899******************************* PP

                   DUF924 173 EkefLee 179
                              E+ +L +
  PHY93_08415|PHY93_08415 168 EEIYLMS 174
                              ****976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (190 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       481  (0.026828); expected 358.6 (0.02)
Passed bias filter:                      385  (0.0214736); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.26s 00:00:00.75 Elapsed: 00:00:00.43
# Mc/sec: 1316.27
//
Query:       PHY93_08420|PHY93_08420  [L=76]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      0.002   18.2   2.7      0.013   15.6   0.1    2.3  2  YHS              YHS domain
  ------ inclusion threshold ------
      0.015   14.5   0.3      0.015   14.5   0.3    1.0  1  UPF0565          Uncharacterised protein family UPF0565
      0.027   14.7   2.9      0.027   14.7   2.9    1.8  2  Metallothio_Pro  Prokaryotic metallothionein
       0.19   11.7   7.0        7.7    6.6   4.3    2.3  2  DUF2116          Uncharacterized protein containing a Zn-ribb
       0.22   11.6   4.2        4.6    7.3   0.1    2.4  3  zf-BED           BED zinc finger
       0.25   11.2   4.3        2.8    7.8   1.6    2.7  2  HscB_4_cys       Co-chaperone HscB tetracysteine metal bindin
        3.4    7.7  14.7         12    5.9   1.2    3.3  2  zf-FCS           MYM-type Zinc finger with FCS sequence motif


Domain annotation for each model (and alignments):
>> YHS  YHS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.1     5e-06     0.013       6      39 ..      10      40 ..       9      42 .. 0.82
   2 ?    2.3   0.4      0.07   1.8e+02      28      34 ..      62      68 ..      61      70 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 5e-06
                      YHS  6 cgmkvdkekaeekseYkGkeYyFcSegCkdkFed 39
                             cg+ +   ++++ +  +G+eY+F+S +C   F +
  PHY93_08420|PHY93_08420 10 CGFNI---EKDYILFINGTEYTFDSFECAVNFVA 40
                             77888...456777779************99965 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.07
                      YHS 28 FcSegCk 34
                             FcS+ C 
  PHY93_08420|PHY93_08420 62 FCSQICS 68
                             ****995 PP

>> UPF0565  Uncharacterised protein family UPF0565
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.3     6e-06     0.015      76     125 ..      16      64 ..       4      74 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 6e-06
                  UPF0565  76 rshiivirpsrmelkkFscfdNFvesnnagvpdhtidakalkHLekllln 125
                              +++i++i      +++F c  NFv +  a   +  i+ +++kH  +++ +
  PHY93_08420|PHY93_08420  16 KDYILFINGTEYTFDSFECAVNFVAPRCAHC-NSIIMGHGIKHADEMFCS 64 
                              79***********************987765.678999*****9888764 PP

>> Metallothio_Pro  Prokaryotic metallothionein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   2.8       1.4   3.6e+03      31      36 ..      31      36 ..       2      47 .. 0.52
   2 ?   14.7   2.9     1e-05     0.027       8      38 ..      42      71 ..      28      75 .. 0.86

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 1.4
                             SHHHHH CS
          Metallothio_Pro 31 seaCAe 36
                             s +CA 
  PHY93_08420|PHY93_08420 31 SFECAV 36
                             444544 PP

  == domain 2  score: 14.7 bits;  conditional E-value: 1e-05
                             SSTT----B-TTTSEESSS-EESSHHHHHTS CS
          Metallothio_Pro  8 acekClCvvdleeaikkdgkaYCseaCAeGh 38
                              c++C  ++   ++ik+ + ++Cs+ C+++ 
  PHY93_08420|PHY93_08420 42 RCAHCNSIIM-GHGIKHADEMFCSQICSTEE 71
                             4999**9998.99**************9974 PP

>> DUF2116  Uncharacterized protein containing a Zn-ribbon (DUF2116)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   0.0    0.0053        13       6      16 ..       7      17 ..       4      22 .. 0.88
   2 ?    6.6   4.3     0.003       7.7       5      26 ..      45      69 ..      41      74 .. 0.78

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.0053
                  DUF2116  6 CivCGkaIpld 16
                             C++CG  I++d
  PHY93_08420|PHY93_08420  7 CVNCGFNIEKD 17
                             ********998 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.003
                  DUF2116  5 HC..ivCGkaIp.ldesfCsekCqe 26
                             HC  i+ G  I   de+fCs+ C  
  PHY93_08420|PHY93_08420 45 HCnsIIMGHGIKhADEMFCSQICST 69
                             665578899996369********86 PP

>> zf-BED  BED zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   0.1    0.0053        14      15      32 ..       3      25 ..       2      27 .. 0.78
   2 ?    7.3   0.1    0.0018       4.6      18      34 ..      42      57 ..      40      59 .. 0.89
   3 ?   -2.8   0.1       2.7   6.9e+03      21      27 ..      62      68 ..      61      73 .. 0.64

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.0053
                             S--EETTTTEE----.....SST CS
                   zf-BED 15 qkavCryCgkilsrg.....ggt 32
                             q a+C  Cg+++  +     +gt
  PHY93_08420|PHY93_08420  3 QEARCVNCGFNIEKDyilfiNGT 25
                             679********988766666655 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.0018
                             EETTTTEE----SSTHH CS
                   zf-BED 18 vCryCgkilsrgggttn 34
                             +C +C+ i+ ++ g+++
  PHY93_08420|PHY93_08420 42 RCAHCNSIIMGH-GIKH 57
                             7*********98.9886 PP

  == domain 3  score: -2.8 bits;  conditional E-value: 2.7
                             TTTEE-- CS
                   zf-BED 21 yCgkils 27
                             +C  i s
  PHY93_08420|PHY93_08420 62 FCSQICS 68
                             6777665 PP

>> HscB_4_cys  Co-chaperone HscB tetracysteine metal binding motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.1      0.03        76       2       8 ..       6      12 ..       5      17 .. 0.82
   2 ?    7.8   1.6    0.0011       2.8       1      22 [.      41      65 ..      41      67 .. 0.75

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.03
                             B-SSS-- CS
               HscB_4_cys  2 rCWnCGg 8 
                             rC nCG 
  PHY93_08420|PHY93_08420  6 RCVNCGF 12
                             89****6 PP

  == domain 2  score: 7.8 bits;  conditional E-value: 0.0011
                             -B-SSS--.B--SS..-S---B-TT CS
               HscB_4_cys  1 PrCWnCGg.pgapg..rgdefFCpq 22
                             PrC  C +  +++g   +de FC+q
  PHY93_08420|PHY93_08420 41 PRCAHCNSiIMGHGikHADEMFCSQ 65
                             888888887565553379******8 PP

>> zf-FCS  MYM-type Zinc finger with FCS sequence motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.9   1.2    0.0046        12       4      38 ..       5      35 ..       4      38 .. 0.82
   2 ?    3.8   6.6     0.022        55       6      39 ..      43      69 ..      38      70 .. 0.66

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.0046
                   zf-FCS  4 krCwfCkkyikgkpeftyvlendgvvgqFCStsCl 38
                             +rC +C+ +i+   +   +l+++g ++ F S++C+
  PHY93_08420|PHY93_08420  5 ARCVNCGFNIEK-DY---ILFINGTEYTFDSFECA 35
                             69****999884.44...69999999999999996 PP

  == domain 2  score: 3.8 bits;  conditional E-value: 0.022
                   zf-FCS  6 CwfCkkyikgkpeftyvlendgvvgqFCStsCld 39
                             C +C+  i g          ++  + FCS++C +
  PHY93_08420|PHY93_08420 43 CAHCNSIIMGHGI-------KHADEMFCSQICST 69
                             5555555544443.......566677******76 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (76 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       661  (0.0368676); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.43u 0.24s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 552.98
//
Query:       PHY93_08425|PHY93_08425  [L=182]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
     0.0085   16.2   0.1      0.013   15.7   0.1    1.4  1  OMP_b-brl  Outer membrane protein beta-barrel domain
  ------ inclusion threshold ------
      0.041   13.7   0.1      0.053   13.4   0.1    1.1  1  MspA       MspA


Domain annotation for each model (and alignments):
>> OMP_b-brl  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.1   1.4e-06     0.013      14     147 ..      36     169 ..       6     177 .. 0.75

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 1.4e-06
                OMP_b-brl  14 aaassfggfyvggglglskvkvdgvgsdsgfgfgvgagyefndnvgvegglsysgdkdysgsgktdikinllsvpvnagyafnlsd 99 
                              aa+s++ ++ +g+  g+s+ k+d++   s++ fgv  g  f+++v v++g+ ++ ++ ++       + ++++v ++  y+f+ +d
  PHY93_08425|PHY93_08425  36 AAESNEQKWSAGVASGISSPKGDAT---SSTEFGVIIG--FQPIVPVSAGIEANTTRLNTD-----NDVRQTNVLIRSAYNFG-GD 110
                              56777899*************4433...5788888887..9**999999999999988666.....35667777777777777.66 PP

                OMP_b-brl 100 s...vlpyggaGlg..ytkvevdvsgng........asdsdtdfglglgaGveyaladnws 147
                                   + +gg Glg  +++++  v++ g          +++t+  l+lg+ ++y +  n++
  PHY93_08425|PHY93_08425 111 IpvlRSSFGGMGLGpvFVSNR--VRWAGapligfdiPLSNKTRDYLSLGLEAKYLFMTNTD 169
                              684335899999997744333..33444446777777888888888888888888777665 PP

>> MspA  MspA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.1   5.9e-06     0.053      11      98 ..      25     109 ..      22     134 .. 0.73

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 5.9e-06
                     MspA  11 desanvvpplatsplsreafvsgkatvkvdgpgaakvtggtlevGYqvGCqvdvggaagvelggsagvtpsvga...gagvgsgls 93 
                              ++++ ++p l ++ ++ + +  g+a++  +++g+ + ++   e+G  +G+q  v  +ag+e+++   +  ++++   + +v  +  
  PHY93_08425|PHY93_08425  25 GKTTGIFPELRAAESNEQKWSAGVASGISSPKGD-ATSS--TEFGVIIGFQPIVPVSAGIEANT---TRLNTDNdvrQTNVLIRSA 104
                              66778999************99999998887777.4444..59********9998899999999...2222222334444444444 PP

                     MspA  94 gslgg 98 
                               + gg
  PHY93_08425|PHY93_08425 105 YNFGG 109
                              44444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (182 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       242  (0.0134977); expected 358.6 (0.02)
Passed bias filter:                      219  (0.0122148); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.27s 00:00:00.74 Elapsed: 00:00:00.44
# Mc/sec: 1242.05
//
Query:       PHY93_08430|PHY93_08430  [L=440]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.7e-43  147.7   2.9    7.2e-27   93.9   0.3    2.2  2  PLDc_2          PLD-like domain
    1.4e-07   31.4   0.2     0.0033   17.6   0.0    2.8  2  PLDc            Phospholipase D Active site motif
      7e-07   28.7   0.0     0.0043   16.3   0.0    2.2  2  Regulator_TrmB  Archaeal transcriptional regulator TrmB
    0.00016   21.6   4.8    0.00045   20.2   4.8    1.7  1  DUF454          Protein of unknown function (DUF454)
  ------ inclusion threshold ------
      0.036   13.5   0.1          4    6.9   0.0    2.6  2  PP_kinase_C     Polyphosphate kinase C-terminal domain 2
       0.19   11.0   0.4       0.31   10.4   0.4    1.2  1  ThrE            Putative threonine/serine exporter


Domain annotation for each model (and alignments):
>> PLDc_2  PLD-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.4   0.2   3.8e-18   1.1e-14       2     102 ..      28     133 ..      27     169 .. 0.70
   2 !   93.9   0.3   2.4e-30   7.2e-27       2     132 ..     211     337 ..     210     338 .. 0.93

  Alignments for each domain:
  == domain 1  score: 54.4 bits;  conditional E-value: 3.8e-18
                   PLDc_2   2 iqliksAkksidiatyyf...vsdreildallkaakrgvkvrilldskkddagavdeaslkelkellleagvevrvfet...ll.. 79 
                              ++li++Akk+i+++ty+f    + + + ++l+kaa+rgv+v +l+ds      + +   +k  ++l l++gv++  f+    ++  
  PHY93_08430|PHY93_08430  28 LNLIRNAKKTIHLQTYIFmmdSFGSLVHAELMKAAQRGVQVYVLVDS-----VGSRLLDQKSEMAL-LNSGVRYVRFNEmqiKWly 107
                              579***************5433333358999***************9.....33333445555556.6888887777732332255 PP

                   PLDc_2  80 ...gslHaKlylidgktvivGSsNlt 102
                                 ++lH+K++l+d+++ ++G+ N  
  PHY93_08430|PHY93_08430 108 swgRRLHHKILLVDEEVSMIGGINVM 133
                              6799********************63 PP

  == domain 2  score: 93.9 bits;  conditional E-value: 2.4e-30
                   PLDc_2   2 iqliksAkksidiatyyfvsdreildallkaakrgvkvrilldskkddagavdeaslkelkellleagvevrvfetllgslHaKly 87 
                              ++l k+Ak++i i++ yf + ++++++l++a+krgv+vr++l++  +d +    as   ++ + l++gve+++ +   ++lH Kl+
  PHY93_08430|PHY93_08430 211 VHLTKKAKHEITIINSYFFPRKTFMKQLVDASKRGVRVRLILPK-FSDWPNYILASEFLYAYF-LRNGVEIYLWKN--SILHGKLA 292
                              67789*************999999*******************8.778888888888888888.********9855..799***** PP

                   PLDc_2  88 lidgktvivGSsNltkrgldlnlElnvviedkelakeleeeFerl 132
                              +id++++++GS+Nl++ + ++nlE+nv i+++ ++++l+ee e++
  PHY93_08430|PHY93_08430 293 TIDESWATIGSFNLNYTSYQQNLEMNVNIYSENFTNHLKEEIEEI 337
                              *****************************************9985 PP

>> PLDc  Phospholipase D Active site motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.0   1.1e-06    0.0033       4      24 ..     112     132 ..     110     135 .. 0.90
   2 !   11.0   0.0   0.00013      0.39       5      27 ..     287     309 ..     285     310 .. 0.92

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 1.1e-06
                              EE---EEEETTTEEEEE---S CS
                     PLDc   4 thHqKivivDdrvafvGgaNL 24 
                              ++H Ki+ vD++v+ +Gg N 
  PHY93_08430|PHY93_08430 112 RLHHKILLVDEEVSMIGGINV 132
                              89*****************96 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.00013
                              E---EEEETTTEEEEE---SSHH CS
                     PLDc   5 hHqKivivDdrvafvGgaNLcdg 27 
                              +H K   +D+ +a +G++NL++ 
  PHY93_08430|PHY93_08430 287 LHGKLATIDESWATIGSFNLNYT 309
                              799*****************986 PP

>> Regulator_TrmB  Archaeal transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0   1.4e-06    0.0043      16      84 ..      28     106 ..      21     174 .. 0.78
   2 !   10.2   0.0    0.0001      0.31       6      57 ..     201     253 ..     198     266 .. 0.81

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 1.4e-06
                              HHHHHH-SSEEEEEE-GGGHHHH....HHHHHHHHHTT-EEEEEESS......----GGGSSSSEEEEEE-S---S.EE CS
           Regulator_TrmB  16 eelIesAenelivslpselLeel....reeliaaaergvtVllliyp......dedleeldleevatevrvrrsgapll 84 
                                lI++A++ + +++   ++  +    + el++aa+rgv+V++l+ +      d+++e   l + +  vr+++ +  +l
  PHY93_08430|PHY93_08430  28 LNLIRNAKKTIHLQTYIFMMDSFgslvHAELMKAAQRGVQVYVLVDSvgsrllDQKSEMALLNSGVRYVRFNEMQIKWL 106
                              679***********9988877653333789*****************99877766666666777777777766655555 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 0.0001
                              SSHHHHHHHHHHHHHH-SSEEEEEE-GGGH..HHHHHHHHHHHHTT-EEEEEES CS
           Regulator_TrmB   6 ksretvierieelIesAenelivslpselL..eelreeliaaaergvtVllliy 57 
                               +r ++ ++  +l ++A++e+++ ++s ++  +++ ++l +a +rgv+V l++ 
  PHY93_08430|PHY93_08430 201 YRRWQITRQYVHLTKKAKHEITI-INSYFFprKTFMKQLVDASKRGVRVRLILP 253
                              56668899999999*******99.556666224699**************9875 PP

>> DUF454  Protein of unknown function (DUF454)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.2   4.8   1.5e-07   0.00045       5      36 ..     397     428 ..     393     432 .. 0.81

  Alignments for each domain:
  == domain 1  score: 20.2 bits;  conditional E-value: 1.5e-07
                   DUF454   5 lllGllslalGviGivlPlLPTtpFlLlAafc 36 
                              ++  l+++ lG++Gi+lP++P +pF++++  +
  PHY93_08430|PHY93_08430 397 IVGSLFFFFLGILGIILPIIPGIPFFIISFLL 428
                              444567899******************98765 PP

>> PP_kinase_C  Polyphosphate kinase C-terminal domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.0   0.0      0.01        31      45      64 ..      56      75 ..      29      87 .. 0.85
   2 ?    6.9   0.0    0.0013         4      40      61 ..     231     252 ..     204     345 .. 0.81

  Alignments for each domain:
  == domain 1  score: 4.0 bits;  conditional E-value: 0.01
              PP_kinase_C 45 dkLyeAsqaGVkiklivrgi 64
                             ++L++A+q GV++ ++v ++
  PHY93_08430|PHY93_08430 56 AELMKAAQRGVQVYVLVDSV 75
                             689************99876 PP

  == domain 2  score: 6.9 bits;  conditional E-value: 0.0013
              PP_kinase_C  40 dkeiidkLyeAsqaGVkikliv 61 
                               k+ +++L++As+ GV+++li 
  PHY93_08430|PHY93_08430 231 RKTFMKQLVDASKRGVRVRLIL 252
                              577899**************97 PP

>> ThrE  Putative threonine/serine exporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.4    0.0001      0.31     150     201 ..     355     421 ..     349     432 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.0001
                     ThrE 150 lakrglnsfvleavaaflasllallavs............lglgln......pdaiiigsillLvPGlpl 201
                                k+++ +f+  ++ +++a + + l+++            l           +  +i+g il+++PG+p+
  PHY93_08430|PHY93_08430 355 SLKIKFLRFFYYVILSIVANFSIGLIYQednnkenkfydlLR---IvgslffFFLGILGIILPIIPGIPF 421
                              5688999*********************77766666544422...03335556***************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (440 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       686  (0.038262); expected 358.6 (0.02)
Passed bias filter:                      399  (0.0222544); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.63u 0.25s 00:00:00.88 Elapsed: 00:00:00.46
# Mc/sec: 2891.59
//
Query:       PHY93_08435|PHY93_08435  [L=260]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.2e-13   51.2   0.1    1.8e-13   50.6   0.1    1.3  1  Exo_endo_phos  Endonuclease/Exonuclease/phosphatase family


Domain annotation for each model (and alignments):
>> Exo_endo_phos  Endonuclease/Exonuclease/phosphatase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.6   0.1     1e-17   1.8e-13       1     233 []       6     250 ..       6     250 .. 0.75

  Alignments for each domain:
  == domain 1  score: 50.6 bits;  conditional E-value: 1e-17
                              EEEEESTGCHHHHTHHHHHHHHHHHHHHCTTSEEEEEEEBSCTCHHHHHHHHH..............TTCEEEEECCHECSSSTTS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..............xxxxxxxxxxxxxxxxxxx RF
            Exo_endo_phos   1 ltwNvngqaspalgssrrsdrladlltaydaDvlgLQEvdddelsriplllal..............ggflgasstsptggggggg 72 
                              l++N+  + ++  ++++     +d ++++ aD+++LQEv +     ++++  +                  ++++      + +g+
  PHY93_08435|PHY93_08435   6 LSYNIHKG-FDWNNKNYFLQEMKDFIKHSGADIVFLQEVVGKNSKYQAQGMVDsqfefladqlwphfS---YGHN----AVYDHGH 83 
                              68999998.555778889999*****************888887777777777*******99985442...3333....35679** PP

                              SEEEEEECSTEEEEEEEEEEETSSSSGCEEEEEEEEEEEEEEE..............CCCHHGHHHHHHHHHHHHHHHHHHHHHTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..............xxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Exo_endo_phos  73 nggavlsrfpltslfrrtfiefndlvaalrreplaakleqlni..............ashrdhdlvrdlqllalllqvealnadrg 144
                              +g  +ls+fp+ s++  +++ +n++   l  +  + +  ++                 +    + +r lq ++ +  ++ +n +++
  PHY93_08435|PHY93_08435  84 HGNLILSKFPIESFENINLSTNNWEQRGLLVCKIILPTIKNLEasqgpkekffyaacSHLNLLHAGRLLQYQQIKKHILLKNGNHD 169
                              **************888888888888888887777777777779999*********99999999999999999999999******* PP

                              SEEEEEEE-SSSTSGGGBSCGHHHHHHCTTTHHSSCESCETTTTTTTTTTTEB-B............................... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx............................... RF
            Exo_endo_phos 145 apvivaGDfNarpsdddsrvlrtrglalapapvglyllgggptptyvtraggsrl............................... 199
                               p+i+aGDfN          +++  ++                           +                               
  PHY93_08435|PHY93_08435 170 IPFILAGDFND---------WNKKSAH---------------------------Ifevdlgmqevhktvhgafaktfpaiypifcl 219
                              ***********.........3333333...........................12223333333444444444444444444444 PP

                              EEEEEEC.HHHCCEEEEEEECCHHEECTSSCSSSB CS
                              xxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Exo_endo_phos 200 Drilasp.alalfrsgvlppplalvrrealtlSDH 233
                              Dri++++ + ++   ++   +++l  +    lSDH
  PHY93_08435|PHY93_08435 220 DRIYVKNlKIKTSIILETKNKHNLISH----LSDH 250
                              888888877777777777777777665....7777 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (260 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       540  (0.0301188); expected 358.6 (0.02)
Passed bias filter:                      403  (0.0224776); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.27s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 1750.82
//
Query:       PHY93_08440|PHY93_08440  [L=267]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.5e-42  145.3   0.1    2.3e-42  144.6   0.1    1.3  1  adh_short      short chain dehydrogenase
    3.4e-27   95.5   0.3    7.8e-27   94.3   0.1    1.6  2  adh_short_C2   Enoyl-(Acyl carrier protein) reductase
    1.1e-14   54.7   0.2    1.7e-14   54.1   0.2    1.2  1  KR             KR domain
     0.0051   16.0   0.0      0.011   14.9   0.0    1.6  1  RmlD_sub_bind  RmlD substrate binding domain
     0.0091   15.5   0.1      0.015   14.7   0.1    1.5  1  Epimerase      NAD dependent epimerase/dehydratase family
  ------ inclusion threshold ------
      0.035   13.5   0.0      0.056   12.8   0.0    1.2  1  DUF1776        Fungal family of unknown function (DUF1776)


Domain annotation for each model (and alignments):
>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  144.6   0.1   7.8e-46   2.3e-42       3     187 ..      12     196 ..      10     200 .. 0.94

  Alignments for each domain:
  == domain 1  score: 144.6 bits;  conditional E-value: 7.8e-46
                              EEEESTTSHHHHHHHHHHHHTT-EEEEEESCHHHHHHHHHHHHHTTSEEEEEE-TTTSHHHHHHHHHHHHHHHSSESEEEE---SS CS
                adh_short   3 vlvtGassGIGraiakelakeGakvvvvdrseekleevakelkeegakalaiqvDvtdreevealvekavkklgkldvLvnNAGit 88 
                              ++vtGassGIG+++ak++a+ G+++v+v+++++ + e+a+ ++++ga++  + +D+++ e v++l+ek+    ++++++  NAG+ 
  PHY93_08440|PHY93_08440  12 AVVTGASSGIGYELAKQFAQHGFDLVIVSENPA-IVEAAQICERLGANVASFIIDLANFEGVDELIEKITTIGKPIEAIAINAGVG 96 
                              89***************************9987.559999999999***************************************6 PP

                              --SSG.GGCSHHHHHHHHHHHTHHHHHHHHHHHHHHHHCTTEEEEEEEEGGGTSB-TTBHHHHHHHHHHHHHHHHHHHHHGGGTEE CS
                adh_short  89 gsgpf.selseeewervievNltgvflltravlpamlkqssGrIvnvsSvagkvpvagvaaYsAsKaavagltrslakelaptgir 173
                                g+f  e++ ++  ++i++N+++ ++l++++++ m+++++GrI ++sS+ag +p + +a+Y+As a++++++++l+ el++tg++
  PHY93_08440|PHY93_08440  97 VAGDFtRETNLDDELNLINLNVVSSVHLAKHIVKDMVNRQKGRILFTSSIAGVMPAPFQAVYGASEAFIQSFSEALRSELKDTGVT 182
                              666651677888899*********************************************************************** PP

                              EEEEEESSBSSHHH CS
                adh_short 174 vnavaPGlvdTdma 187
                              v+a++PG++dT++ 
  PHY93_08440|PHY93_08440 183 VTALMPGPTDTNFF 196
                              ***********875 PP

>> adh_short_C2  Enoyl-(Acyl carrier protein) reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   94.3   0.1   2.6e-30   7.8e-27       1     187 [.      16     204 ..      16     214 .. 0.93
   2 ?   -1.2   0.0      0.41   1.2e+03     113     135 ..     222     244 ..     202     257 .. 0.74

  Alignments for each domain:
  == domain 1  score: 94.3 bits;  conditional E-value: 2.6e-30
                              TTTTSHHHHHHHHHHHTT-EEEEEESSGGHHHHHHHHHHHTTSEE..EE--TTSHHHHHHHHHHHHHHHSSEEEEEE-----EGCS CS
             adh_short_C2   1 GaasgIGraiAkalaeeGaevvltdlneeakkrveelaeelgaev..lecDVtdeeqvealveevvekfgklDilvnnagiapklk 84 
                              Ga sgIG+++Ak++a++G ++v++  n +   +++++ e+lga+v  + +D ++ e v++l+e+++   + +  +  nag+  +  
  PHY93_08440|PHY93_08440  16 GASSGIGYELAKQFAQHGFDLVIVSENPAI-VEAAQICERLGANVasFIIDLANFEGVDELIEKITTIGKPIEAIAINAGVGVA-- 98 
                              899**************************9.78999********769*************************************.. PP

                              S-GGG.H-HHHHHHHHHHHTHHHHHHHHHHHH.HCTSC.CEEEEEEEGGGTSBSTTTTHHHHHHHHHHHHHHHHHHHHGGGTEEEE CS
             adh_short_C2  85 gpfle.tsreefdraldvnlyslfllakaalp.lmkeg.gsivnlssvgaervvpnynaygaaKaalealtrylAvelgpkgiRvN 167
                              g+f+  t+ ++  + ++ n+ s ++lak++++ +++++ g+i+ +ss+++ +  p +++yga+ a +++++ +l  el + g++v 
  PHY93_08440|PHY93_08440  99 GDFTReTNLDDELNLINLNVVSSVHLAKHIVKdMVNRQkGRILFTSSIAGVMPAPFQAVYGASEAFIQSFSEALRSELKDTGVTVT 184
                              77765499************************8887778*********************************************** PP

                              EEEE--BHCTGGGGSTTHHH CS
             adh_short_C2 168 avspgpikTlaasgikgfde 187
                              a  pgp++T+  +g   +d 
  PHY93_08440|PHY93_08440 185 ALMPGPTDTNFFNGPGLEDT 204
                              *********99877665554 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 0.41
                              HHHHCTSCCEEEEEEEGGGTSBS CS
             adh_short_C2 113 alplmkeggsivnlssvgaervv 135
                              ++ +m+ +g +++ s++    vv
  PHY93_08440|PHY93_08440 222 FEAMMAGKGHVITGSFMNKVEVV 244
                              33477888999998888766554 PP

>> KR  KR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.1   0.2   5.8e-18   1.7e-14       4     166 ..      13     175 ..      11     187 .. 0.85

  Alignments for each domain:
  == domain 1  score: 54.1 bits;  conditional E-value: 5.8e-18
                              EEETTTSHHHHHHHHHHHHHHS-EEEEE-SS..--HHHHHHHHHHHHTT-EEEE----TT-HHHHHHHHHHHHHHSS---EEEE-- CS
                       KR   4 litGGlGgLGlelarwlaekgarhlvllsRsaaadedskaliaelealgaevevvaaDvsdkdavealleeikaeeppikGvihaA 89 
                              ++tG+  g+G ela++ a++g   lv++s ++    +  +  + +e+lga+v  + +D+++ + v +l+e+i++ ++pi+ +   A
  PHY93_08440|PHY93_08440  13 VVTGASSGIGYELAKQFAQHGF-DLVIVSENP----AIVEAAQICERLGANVASFIIDLANFEGVDELIEKITTIGKPIEAIAINA 93 
                              79*******************7.699999993....334445567899************************************** PP

                              -------TTT.--HHHHHHHHTTTTHHHHHHHHHTTT....S--SEEEEEEEHHHHH--TT-HHHHHHHHHHHHHHHHHHHH CS
                       KR  90 gvlrdkllee.mtaedleqvlapKvkGawnLhelled....esldffvlfSSiagllgsagqanYaaaNaflDalaeyrrsq 166
                              gv   + +++ ++ +d  ++++  v  + +L + + +    ++   ++++SSiag++ ++ qa Y a  af+ ++ e  rs+
  PHY93_08440|PHY93_08440  94 GVGVAGDFTReTNLDDELNLINLNVVSSVHLAKHIVKdmvnRQKGRILFTSSIAGVMPAPFQAVYGASEAFIQSFSEALRSE 175
                              *9888877651556888899999999999998877665777888899****************************9987764 PP

>> RmlD_sub_bind  RmlD substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.0   3.7e-06     0.011       4      66 ..      13      74 ..      11      98 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 3.7e-06
                             EEESTTSHHHHHHHHHCTTTSEEEEEE-TTT--TTSHHHHHHHHHHH--SEEEE------HHH CS
            RmlD_sub_bind  4 lvtGanGqlGseLakqlaeeglevlaltreeldltdaeavaellkeakpdvvvnaAAytavDk 66
                             +vtGa+  +G+eLakq+a++g++++ ++ e+  + +a+++ e l ++  ++++++A +  vD+
  PHY93_08440|PHY93_08440 13 VVTGASSGIGYELAKQFAQHGFDLVIVS-ENPAIVEAAQICERLGANVASFIIDLANFEGVDE 74
                             79***********************995.555667777777777777888*********9997 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.1   5.2e-06     0.015       2     118 ..      13     146 ..      12     188 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 5.2e-06
                              EEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHC.............EEEE--..TT-HHHHHHHHHHHT-SEEEE-- CS
                Epimerase   2 lVtGatGfiGsalvkallekgyevigldrlssasntarledl.............elveld..ltdrsalerlfkeeqpdavihlA 72 
                              +VtGa+  iG  l+k+++++g +++ ++ ++   + a++ +              ++  +d  + + + + + ++  +++a + +A
  PHY93_08440|PHY93_08440  13 VVTGASSGIGYELAKQFAQHGFDLVIVSENPAIVEAAQICERlganvasfiidlaNFEGVDelIEKITTIGKPIEAIAINAGVGVA 98 
                              8**********************888888866666555555579999777666664444442233344556666666667777777 PP

                              S---HHHHHHSHHHHHHHHTHHHHHHHHHHHHHTCT....EEEEEEEGGG CS
                Epimerase  73 avggvaassedpadfieknlqgtlnlleaarkagvk....rllflsSsev 118
                              +  + +++ +d   +i+ n++ +++l++ + k  v+    r+lf sS  +
  PHY93_08440|PHY93_08440  99 GDFTRETNLDDELNLINLNVVSSVHLAKHIVKDMVNrqkgRILFTSS--I 146
                              77778889999999999999999999999998766556679999999..3 PP

>> DUF1776  Fungal family of unknown function (DUF1776)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   1.9e-05     0.056     118     195 ..     112     186 ..     104     201 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 1.9e-05
                  DUF1776 118 selnerllspiltlqallplltsrakqkakiivvnpsissslnlpfhapEalvssalsalfevLkrelrphnidvtqi 195
                              +++n +++s++ + + +++ + +   ++   i+++ si   + +pf+a+       ++++ e+L+ el++ ++ vt +
  PHY93_08440|PHY93_08440 112 NLINLNVVSSVHLAKHIVKDMVN---RQKGRILFTSSIAGVMPAPFQAVYGASEAFIQSFSEALRSELKDTGVTVTAL 186
                              45677777777777777777776...444557899***********************************99999976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (267 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       684  (0.0381505); expected 358.6 (0.02)
Passed bias filter:                      607  (0.0338558); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.56u 0.29s 00:00:00.85 Elapsed: 00:00:00.45
# Mc/sec: 1767.16
//
Query:       PHY93_08445|PHY93_08445  [L=388]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (388 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       430  (0.0239835); expected 358.6 (0.02)
Passed bias filter:                      336  (0.0187406); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.25s 00:00:00.78 Elapsed: 00:00:00.43
# Mc/sec: 2704.95
//
Query:       PHY93_16340|PHY93_16340  [L=272]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.9e-28   98.4   0.1    4.7e-28   98.1   0.1    1.1  1  Lactamase_B_2  Beta-lactamase superfamily domain
    5.6e-09   36.3   0.1    7.5e-09   35.9   0.1    1.2  1  Lactamase_B    Metallo-beta-lactamase superfamily
    7.1e-05   22.8   0.0    0.00011   22.2   0.0    1.3  1  Lactamase_B_3  Beta-lactamase superfamily domain


Domain annotation for each model (and alignments):
>> Lactamase_B_2  Beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   98.1   0.1   7.8e-32   4.7e-28       2     200 ..      53     241 ..      52     242 .. 0.92

  Alignments for each domain:
  == domain 1  score: 98.1 bits;  conditional E-value: 7.8e-32
                              EEEES--TTHHHHHTCGGS--SSS--..SEEEEE-SS--HHHHGGGGCCCC...C--EE..EEEEEEHHHHHHCCTTCGHHHCHTT CS
            Lactamase_B_2   2 riLiDagpdlrqqalralqPvelrdelppidaVllthaHyDHlaglltlre...lrpkk..lplyapkgvlavleanfvylaleee 82 
                               iL+D+ pdlr q+l           ++++d+V++th+H+DHl+g+++lr+   + p    ++ly++k + + ++++f y++++++
  PHY93_16340|PHY93_16340  53 KILVDTTPDLRTQFLNNK--------ISDVDFVIMTHDHADHLHGIDDLRPltfGPP-IreINLYCNKNTCESIDKRFEYIFMKRD 129
                              59***********55554........779**********************875333.246************************* PP

                              ...........TTEEEEEE-TTSEEEECSTTEEEEEEEE-EE--CTCCE-TTTSEEEEEECTTEEEEEESS-S---HHHHHHHCT. CS
            Lactamase_B_2  83 ...........pavnvheldwgesfelgdggleitatparhksgrrldrnagdtlGlriegggkrvyyigDtgyipeeigerlgg. 156
                                         p+++++e+++ + ++++++  ++ ++  +h+ g+        t+G++ +     ++yi D+ +ip+++ + l++ 
  PHY93_16340|PHY93_16340 130 pikhpiigggiPRLKLNEVELLKDITIEGE--KFFFFNYPHGLGE--------TMGFIHQ----GLAYIVDCMEIPDDLLAILKQk 201
                              ***************************844..7***********9........*******....9*************99999888 PP

                              .-SEEEEE-S-SSTTHHHHHHT---STSHHHHCTTSSSSEEEEES CS
            Lactamase_B_2 157 .adllllditayeddemirhmgHltpeeaveaaadlgakrlvliH 200
                               + ll+ld+    +     h +Hlt+e     +++++++r+ liH
  PHY93_16340|PHY93_16340 202 kIHLLILDCLQRGP-----HFTHLTVERSFHYIKEINPERTGLIH 241
                              8*******999999.....99************************ PP

>> Lactamase_B  Metallo-beta-lactamase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.9   0.1   1.3e-12   7.5e-09       5     141 ..      40     180 ..      36     185 .. 0.85

  Alignments for each domain:
  == domain 1  score: 35.9 bits;  conditional E-value: 1.3e-12
                              SSEEEEEE.ETTCEEEES--SCHHHHHHHHHHHHHTSGGGGEEEEE-SBSSHHHHTTGGGCTTHHCCEETCCEHHHHCCHCHHHHH CS
              Lactamase_B   5 pvnsylie.gdggviLiDtGtsteaaraalelaalglkpkdvdavilTHlHlDHiGglgglveatdvpvgavaeeapalfmeeadd 89 
                                +s++ie   g+ iL+Dt  + +++ +         k+ dvd vi TH H+DH  g ++l+  t  p++ +   +++ ++ e  d
  PHY93_16340|PHY93_16340  40 LRTSIFIEtASGSKILVDTTPDLRTQFL-------NNKISDVDFVIMTHDHADHLHGIDDLRPLTFGPPIREINLYCNKNTCESID 118
                              568999**666****************5.......99*******************************************999977 PP

                              HHHHCCHH..........TTCHCGCCEEEEETTTEECCCTEEEEEHECTTSTSCCEEEEEET CS
              Lactamase_B  90 aasrkgll..........lagvsadkpdvdeeeldgnaggrralyvtggpghghghgvveyg 141
                               +                + g ++ k  ++e+  d++  g +++ + + +g g + g ++ g
  PHY93_16340|PHY93_16340 119 KRFEYIFMkrdpikhpiiGGGIPRLKLNEVELLKDITIEGEKFFFFNYPHGLGETMGFIHQG 180
                              65554444888999999888888888888888888888888888888888888888777766 PP

>> Lactamase_B_3  Beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.2   0.0   1.8e-08   0.00011       8      51 ..      42      88 ..      41     152 .. 0.79

  Alignments for each domain:
  == domain 1  score: 22.2 bits;  conditional E-value: 1.8e-08
            Lactamase_B_3  8 nsflleta.garilvDPfka..nlgyeppaeeaDlvlisqaledHah 51
                             +s+ +eta g +ilvD +    ++ ++++  ++D v+++++++dH h
  PHY93_16340|PHY93_16340 42 TSIFIETAsGSKILVDTTPDlrTQFLNNKISDVDFVIMTHDHADHLH 88
                             6899***55*******887663444444559**************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (272 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       356  (0.0198561); expected 358.6 (0.02)
Passed bias filter:                      293  (0.0163422); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 1973.87
//
Query:       PHY93_16550|PHY93_16550  [L=283]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.1e-09   37.0  24.1    3.5e-09   36.3  24.1    1.4  1  Collagen  Collagen triple helix repeat (20 copies)


Domain annotation for each model (and alignments):
>> Collagen  Collagen triple helix repeat (20 copies)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.3  24.1     2e-13   3.5e-09       1      58 [.     224     281 ..     223     283 .] 0.64

  Alignments for each domain:
  == domain 1  score: 36.3 bits;  conditional E-value: 2e-13
                              XXXXXXXXXXXXXXXXXX-----XXXXEEEE-TTSS-----------------BB--X CS
                 Collagen   1 GppGepGepGppGppGkrGepGeaGekGekGpaGekGppGaaGkpGapGekGeaGapg 58 
                              G +G++G++Gp+G +G++G++G +G++G++G++G +Gp+G +G++Ga G +G +G++g
  PHY93_16550|PHY93_16550 224 GTAGAQGPQGPTGLTGSQGPQGLTGATGATGAQGLSGPQGLTGATGATGAQGLSGPQG 281
                              5666666666666666666666666666666666666666666666666666666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (283 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       381  (0.0212505); expected 358.6 (0.02)
Passed bias filter:                      297  (0.0165653); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 2116.60
//
Query:       PHY93_08450|PHY93_08450  [L=252]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (252 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       423  (0.0235931); expected 358.6 (0.02)
Passed bias filter:                      349  (0.0194657); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 1868.73
//
Query:       PHY93_08455|PHY93_08455  [L=1018]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   8.7e-268  891.1  15.9   9.8e-268  890.9  15.9    1.0  1  ACR_tran  AcrB/AcrD/AcrF family
    2.2e-10   40.0  19.4    4.4e-07   29.1   4.4    2.4  2  MMPL      MMPL family
  ------ inclusion threshold ------
       0.01   16.3   1.1       0.62   10.6   0.3    3.4  3  HMA       Heavy-metal-associated domain


Domain annotation for each model (and alignments):
>> ACR_tran  AcrB/AcrD/AcrF family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  890.9  15.9  1.6e-271  9.8e-268       2    1020 ..       4    1010 ..       3    1011 .. 0.98

  Alignments for each domain:
  == domain 1  score: 890.9 bits;  conditional E-value: 1.6e-271
                               HHHHHTSHHHHHHHHHHHHHHHHHHHCTSSBESSSS-S--EEEEEEE-TTC-HHHHHHHTHHHHHCTCTS-TTEEEEEEEETTS CS
                 ACR_tran    2 ikffikrpifalvlaliilllGilsilslPvdalPeiapptvqvstsypGaspevvesevtqplEqalngldglkyvsSqSseg 85  
                               i+++i+rp+fa+vl+++++++G++s++++ +++lP++++p ++vs +y Ga+pevvese  +p+E+ l +++g+k ++Sq ++g
  PHY93_08455|PHY93_08455    4 IDLSIRRPVFAWVLMFALIVFGAISMNRMGISQLPDVDFPIINVSFNYDGAAPEVVESELIDPIEERLLAIEGIKDMRSQAKQG 87  
                               789********************************************************************************* PP

                               EEEEEEEESTTS-HHHHHHHHHHHHHHHGGGS-HHHHHH-EEEEEEECCECEEEEEEESSSSS-HHHHHHHHHHHTHHHHHTST CS
                 ACR_tran   86 lssitltFedgtdidiArqqvqnrlqeaknkLPeevqepgiskiktssseilvlavtskdgsltktelrdlaetnikdqLsrve 169 
                               + s+tl+F+ ++++d+A q+vq +l++    LP ++ +p i+k+++++++i+++ ++ +    + +++    ++ + dqL+ ++
  PHY93_08455|PHY93_08455   88 SGSVTLEFDINRNVDVALQEVQSALSQL--RLPAGIDPPIIKKQNPEEDPIVIISISGN---AELKDMLAWSDRYLLDQLRFLP 166 
                               *************************986..5*************************999...888888999999********** PP

                               TEEEEEESS.-SEEEEEEE-HHHHHCTT--HHHHHHHHHHHSSB-EEEEETT-SB-EEEEESB---SHHHHHTSEEE.....ET CS
                 ACR_tran  170 GVgdvqliGgsekavriwldpqklaklgltltdvvsalkeqnvnvaaGqlegqeeelliraqgqlqsaediekiivk.....nq 248 
                               GVg+v + G+s++++riw+d +kl+ ++lt++dv++alk+q v++aaGq  ++ +el +r  g+  +++++++i +        
  PHY93_08455|PHY93_08455  167 GVGEVSVGGFSDRNLRIWIDTKKLNLYELTISDVITALKAQHVESAAGQFTEKLRELRVRWLGEASTIDEVKNIRILkrgneRV 250 
                               **************************************************************************7765876666 PP

                               TSCEEEHHHCEEEEEEESSSSSEEEETTEEEEEEEEEEETTSBHHHHHHHHHHHHHCCGGGSSTTEEEEEEEESHHHHHHHHHH CS
                 ACR_tran  249 dgskvrlrDvAkVelgaeeerlaatfngkpavllevkklpganaievakavkekleeLkeslPegveivvvydrtefvrasiee 332 
                                g+++ +rDvA Ve+g  + r +a++ngk+a++++++k+ g n++evak++++kl e+k ++P+g +++vv d t+ ++a+++ 
  PHY93_08455|PHY93_08455  251 FGKQLFIRDVASVEDGLSDIRRIARVNGKEAIGIQIRKQRGTNEVEVAKKIRQKLSEIKGNFPKGFDYQVVVDYTKSTEATVDL 334 
                               7*********************************************************************************** PP

                               HHHHHHHHHHHHHHHHHHHHSSHHHHHHHHHHHHHHHHHHHHHHHHTT--BCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                 ACR_tran  333 VvktLleaivLvvlvvflFLqnlratlipaiavPlsllgtfavlkalgfslNlltLfgLvlAiGlvvDdAiVvvEnierkleee 416 
                               + ++L +a+v+ +++ flFL++++a+l ++ ++P s++gtf+++++ gf+lNl+tL +L+l i +vvDdAi  +Eni+r+ ++ 
  PHY93_08455|PHY93_08455  335 TIEKLWVAAVITIIICFLFLGSFQAALNILFSIPTSIVGTFTIIYFAGFTLNLFTLLALTLSISIVVDDAIMLLENIVRHYRM- 417 
                               ***********************************************************************************. PP

                               TS-HHHHHHHHHHHHHHHHHHHHHHHHHHCTGGGGSBHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHS---STT-CTS CS
                 ACR_tran  417 gekpleaalksmkeiqgalvaialvllavflPilflgGveGklfrqfaltivlaillsvlvaltltPalcallLkerkeekekk 500 
                               g++   aa  ++ke+  a +a++l ++avflP++f+ G++Gk+f qf++t+  ++lls+l a+t+tP+ +a lL+ + +  +  
  PHY93_08455|PHY93_08455  418 GKDSISAASDGAKEVLPAAIASTLAVVAVFLPVVFMDGIIGKFFFQFGVTMCACVLLSLLEAITITPMRAAALLSSEPKVSS-- 499 
                               ***************************************************************************9999775.. PP

                               HHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHHHHHHHHHHHHHHCS-BESS----TSEEEEEEE-STTB-HHHHHHHHHHHH CS
                 ACR_tran  501 ffrefnrlfealeraYakllekvlrhravvllvalvllvlsvllfvripkeflPeedegvlvtsvqlppgvsleqtqkvlkqve 584 
                               f +  +++fe++  +Y++ll++ l+ +  v+l+ + +++ls++l++++ +ef+P +d+  +v+s+q++pg+sl++t++   ++e
  PHY93_08455|PHY93_08455  500 FEHYLDEMFEKVGDRYRRLLSITLKWKYSVVLSSIAFFILSLFLVAKVRQEFVPLQDQNLIVMSAQAKPGTSLNATSDEALKIE 583 
                               88999******************************************************************************* PP

                               HHHHTTTTEEEEEEEECECSSE..ECCCEEEEEEEES-GCGS-SGGGSHHHHHHHHHHHCTTSTSSEEEEEETTSSCCCSSSSC CS
                 ACR_tran  585 kilkekpevesvfavtGfaesgdtagpnsakvfisLkpekerkeeeksvealierlrkelkkipganvellapiqlreletlsg 668 
                               +ilk++p+v+s  +  G    g  + +n+  v i L+p++ r      + a++++lr+e+k+++g++v l +  +    + +sg
  PHY93_08455|PHY93_08455  584 SILKKNPNVMSYLISIGA--GGGASTVNQMFVPIILQPRERR---ALGHIAIMDQLRTEFKQLKGIKVTLRDNSAR---NLASG 659 
                               *****************8..4556999*************88...889*******************877665544...46999 PP

                               EEEEEEE.SSSSHHHHHHHHHHHHHHHHCCSTTEEEEEESS-S-EEEEEEEE-HHHHHHCTCSHHHHHHHHHHHHTTEEEEEEE CS
                 ACR_tran  669 vrselqvklfgddleaLseaaeqllaalkelpelsdvrseqqedqpqlqveidrekaarlGvsisdindtletalggsyvndfi 752 
                               ++  +   l g dl+ L++ +++l++ l++ + + d+ s+  ++ p+l ++++re++a+ Gv++++++++l++ +g+   + f 
  PHY93_08455|PHY93_08455  660 RQNPIGINLRGADLDILDAKSKELIHRLENEKLAVDMDSDFRKGIPELILKPNREAMAERGVTVEQVGEVLSSGIGSVRQGRFT 743 
                               9999*999**************************************************************************** PP

                               ETTEEEEEEEEE-GGGSSSGGGGCCSEEEETTSCEEEGGGTEEEEEEEE-SEEEEETTCEEEEEEEEESTTS-HHHHHHHHHHH CS
                 ACR_tran  753 eegrrvkvvvrleedlrsspedlkklkvrnkkgkmvplsavakieeekgpnsierengsrsvvisgnvaegdslseaeeaveki 836 
                                +g+r+++  + +++l +s +d k+l+vrn+ g++vp+s++++i+e+++ + i r n++r++ + gn+a+g+s+s++ +  ++i
  PHY93_08455|PHY93_08455  744 MDGKRYDIRFKIKDELIQSADDFKRLYVRNNVGNLVPMSEIVTISEGRAIQGIARVNRQRAISVYGNLAPGQSQSKVLDRAKAI 827 
                               ************************************************************************************ PP

                               CTT..SSTTEEEEEEHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHTSSSTCHHHHTTHHHHHHHHHHHHHHTT--BSHHHHH CS
                 ACR_tran  837 akkvklpegvtiewtgqaeqeqeasnsllilvalalllvflvLaalyeslsepllilltvPlalvGallalllrglelsviaqv 920 
                               ak+  lp+g+t+   g+++ + ++ +sl   + + +l+ fl+La++++s+++p+++l+ +P+++ Gal++l+l+g+++++++ +
  PHY93_08455|PHY93_08455  828 AKE-ILPTGYTFALEGASAGFASSFSSLTSALSIGILVAFLILAVQFNSFVHPFAVLIALPFSVSGALVSLWLFGASVNLFSFI 910 
                               ***.8******************************************************************************* PP

                               HHHHHHHHHHHHHHHHHHHHHHHHHTTTTCHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHCT-STTHHHHHHHHHHHHHHHHH CS
                 ACR_tran  921 GlilliGlavkNaillvefakelrekegksleeaileaakeRLrPiLMTalaailGvlPLalstgaGselqqplgivvlgGlvt 1004
                               Gli+l+G+++kN i+lvef +++re+ +k + ea lea+  RLrPiLMT+ a++  + PL++++g G+e + p+g  ++gG ++
  PHY93_08455|PHY93_08455  911 GLIVLMGISKKNSIMLVEFSNQVRERTKKPVTEALLEACPVRLRPILMTSAATVAAATPLIFGHGMGAETRLPMGLSIIGGTIV 994 
                               ************************************************************************************ PP

                               HHHHHHHHHHHHHHHH CS
                 ACR_tran 1005 stvLtLllvPvlYvlv 1020
                               stvLtL++vP+lY+++
  PHY93_08455|PHY93_08455  995 STVLTLFVVPALYLIM 1010
                               *************986 PP

>> MMPL  MMPL family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.1   4.4   7.4e-11   4.4e-07     150     297 ..     340     485 ..     277     514 .. 0.85
   2 !   16.3   7.0   6.2e-07    0.0037      94     304 ..     809    1012 ..     799    1018 .] 0.77

  Alignments for each domain:
  == domain 1  score: 29.1 bits;  conditional E-value: 7.4e-11
                     MMPL 150 vvtlvvilviLlivyrSlvaallplltvvvsllaalglvlilalllglelstfvlgllvvlliavGtDYallLvsRyreelaaged 235
                               v++v+ ++i ++ ++S+ aal +l ++ +s++ ++++     +++g++l+ f+l l+  l i++ +D a++L+  +    + g+d
  PHY93_08455|PHY93_08455 340 WVAAVITIIICFLFLGSFQAALNILFSIPTSIVGTFTI----IYFAGFTLNLFTL-LALTLSISIVVDDAIMLLENIVRHYRMGKD 420
                              345556667778889***********************....5688999999987.8999************************** PP

                     MMPL 236 reeaviravastgkvvtaaGltvaiamlgLvvar...lpvlaqvGvaialGvlvdvlivlTllPA 297
                              + +a+ +  + + ++ +a++l v++ +l  v+++    +++ q+Gv++   vl+++l ++T++P 
  PHY93_08455|PHY93_08455 421 SISAASDGAKEVLPAAIASTLAVVAVFLPVVFMDgiiGKFFFQFGVTMCACVLLSLLEAITITPM 485
                              *****************************9999843347999********************994 PP

  == domain 2  score: 16.3 bits;  conditional E-value: 6.2e-07
                     MMPL   94 legdpgsteadesvaairaaveearpleglkvevtGpaatladlrdasdrdlklievvtlvvilviLlivyrSlvaallplltv 177 
                                ++ pg++++ + +++ +a+++e   ++g +  + G +a +a     s ++l+ +  ++++v+++iL++ + S+v ++ +l+  
  PHY93_08455|PHY93_08455  809 GNLAPGQSQS-KVLDRAKAIAKEIL-PTGYTFALEGASAGFAS----SFSSLTSALSIGILVAFLILAVQFNSFVHPFAVLIAL 886 
                               3333444443.56788888899998.***************99....8899999***************************988 PP

                     MMPL  178 vvsllaalglvlilalllglelstfvlgllvvlliavGtDYallLvs...Ryreelaagedreeaviravastg.kvvtaaGlt 257 
                                +s+  a  lv+++ + + ++l +f+     ++l++++    ++Lv      re+ ++  ++  a+ +a      +  + +++t
  PHY93_08455|PHY93_08455  887 PFSVSGA--LVSLWLFGASVNLFSFI---GLIVLMGISKKNSIMLVEfsnQVRERTKKPVTE--ALLEACPVRLrPILMTSAAT 963 
                               8887555..56699988888877765...567888999999999985222444444444444..88888765440556789999 PP

                     MMPL  258 vaiamlgLvvarlpvlaq..vGvaialGvlvdvlivlTllPAllvllGr 304 
                               va+a+       +++ +   +G+ i  G +v++ ++l ++PAl  +++ 
  PHY93_08455|PHY93_08455  964 VAAATPLIFGHGMGAETRlpMGLSIIGGTIVSTVLTLFVVPALYLIMSP 1012
                               9999999888888888777799999999999999999999***998875 PP

>> HMA  Heavy-metal-associated domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.0     0.055   3.3e+02      16      46 ..      67      99 ..      66     115 .. 0.70
   2 ?   10.6   0.3    0.0001      0.62      13      47 ..     298     339 ..     295     348 .. 0.89
   3 ?   -1.1   0.0      0.45   2.7e+03      13      32 ..     579     598 ..     577     603 .. 0.82

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.055
                      HMA 16 vekvLselpgVesvkvdlatktvtVeg..daes 46
                             +e+ L++++g+++   + + ++  V++  d+  
  PHY93_08455|PHY93_08455 67 IEERLLAIEGIKDMRSQAKQGSGSVTLefDINR 99
                             899********9999999997777777224443 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 0.0001
                      HMA  13 aakvekvLselpgV......esvkvdlat.ktvtVegdaest 47 
                              a+k+++ Lse++g+      ++v+vd+ +  ++tV++++e++
  PHY93_08455|PHY93_08455 298 AKKIRQKLSEIKGNfpkgfdYQVVVDYTKsTEATVDLTIEKL 339
                              89***************************888******9985 PP

  == domain 3  score: -1.1 bits;  conditional E-value: 0.45
                      HMA  13 aakvekvLselpgVesvkvd 32 
                              a k+e+ L++ p V s+ ++
  PHY93_08455|PHY93_08455 579 ALKIESILKKNPNVMSYLIS 598
                              679***********888665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1018 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       974  (0.0543254); expected 358.6 (0.02)
Passed bias filter:                      542  (0.0302304); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.89u 0.33s 00:00:01.22 Elapsed: 00:00:00.47
# Mc/sec: 6445.28
//
Query:       PHY93_08460|PHY93_08460  [L=436]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.2e-37  129.6  28.2    2.7e-26   92.5  11.6    2.1  2  OEP       Outer membrane efflux protein
  ------ inclusion threshold ------
      0.031   14.0   2.2      0.044   13.4   0.0    2.3  3  DUF2713   Protein of unknown function (DUF2713)
        4.5    7.4   9.1       0.85    9.7   0.1    3.9  5  Tsi6      Tsi6


Domain annotation for each model (and alignments):
>> OEP  Outer membrane efflux protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   92.5  11.6   4.5e-30   2.7e-26       1     188 []      26     215 ..      26     215 .. 0.98
   2 !   43.2   8.6     6e-15   3.6e-11      34     187 ..     270     421 ..     246     422 .. 0.91

  Alignments for each domain:
  == domain 1  score: 92.5 bits;  conditional E-value: 4.5e-30
                      OEP   1 ldellalalennpdlkaaeaeieaaeanlkaakaeflPtlslsgsygyegngsegggddggtgtt...svgltlsqplfdggkrra 83 
                              l e++++a ennp lkaa+ ++++  a++k++ +  +P+l+ ++++ y  +  ++g+++ + +     s  l+l qpl++    +a
  PHY93_08460|PHY93_08460  26 LKEVIRIARENNPTLKAAQEKLNQFDAQKKLSTSPIYPNLTWNLGGTYLKDAVYTGNPKFNGDAYntySSDLKLVQPLYS-KGLFA 110
                              6799*********************************************999999999998888899*************.***** PP

                      OEP  84 rvkaakaqleaaeaqleqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislldvlqaqvrllqarael 169
                              ++  a+++++++ a+ + +++ l++++ +a++++ l++++le + ++++  +k l    +ry++G+ +lld+lq++ +l+  + + 
  PHY93_08460|PHY93_08460 111 AIDVAEYDKKIQVANIDLTERALIQNIIEAFYRFILNQQSLENLLKTQDIIQKSLVTSNQRYQKGRGQLLDILQVKTQLALIQPQV 196
                              ************************************************************************************** PP

                      OEP 170 aeaeqqlqlaraqLeyllg 188
                              ++a++q+++a  qL  ++g
  PHY93_08460|PHY93_08460 197 EAAKNQFEIAAQQLINFMG 215
                              **************99987 PP

  == domain 2  score: 43.2 bits;  conditional E-value: 6e-15
                      OEP  34 aeflPtlslsgsygyegngsegggddggtgttsvgltlsqplfdggkrrarvkaakaqleaaeaqleqarqqlrlevaqaylqlll 119
                              ++ +Ptl+l g y y++++ ++ + d  + + ++ l+ls+plf+g + +++ ++  +q  + +  +++ +++l l+  +++ +l++
  PHY93_08460|PHY93_08460 270 KD-YPTLRLIGDYLYNNYKKSDLFSDYSHAW-AIQLQLSIPLFSGFSSNQEKAILASQNSQLKIARRDLENTLSLKQVTSLKNLET 353
                              45.9***************999998888777.9***************************************************** PP

                      OEP 120 akeqlelaeealklaekalelaearykaGlislldvlqaqvrllqaraelaeaeqqlqlaraqLeyll 187
                              ++++l +a  a+klae+    a + yk+  i+ l  l++q+  lqa+++    + q ++a++++  ++
  PHY93_08460|PHY93_08460 354 SETSLVTAASAVKLAEESQLEAGRIYKLSQIDFLQFLSVQQAALQAKSSFDLLKFQSIIAYSNYFVAT 421
                              ***********************************************999888888888887776555 PP

>> DUF2713  Protein of unknown function (DUF2713)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   7.4e-06     0.044     108     156 ..       9      57 ..       5      62 .. 0.87
   2 ?   -2.1   0.1       0.4   2.4e+03     132     155 ..     217     240 ..     202     246 .. 0.76
   3 ?   -2.7   0.1      0.61   3.6e+03     131     156 ..     365     391 ..     335     404 .. 0.66

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 7.4e-06
                  DUF2713 108 lfasllislsyssayadlsetvyinennesylkaqfeklsqrdmkkylg 156
                              lf     s+s  s   dl e + i  +n+  lka  ekl q d +k l 
  PHY93_08460|PHY93_08460   9 LFIMTSASMSADSPILDLKEVIRIARENNPTLKAAQEKLNQFDAQKKLS 57 
                              555566788889999****************************999875 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 0.4
                  DUF2713 132 nennesylkaqfeklsqrdmkkyl 155
                              +e  +  lk q+  l  +d++ky+
  PHY93_08460|PHY93_08460 217 KEHSDFKLKGQLRTLLLKDVQKYI 240
                              455566789999999999999997 PP

  == domain 3  score: -2.7 bits;  conditional E-value: 0.61
                  DUF2713 131 inennesylka.qfeklsqrdmkkylg 156
                              ++  +es l+a ++ klsq d+ ++l 
  PHY93_08460|PHY93_08460 365 VKLAEESQLEAgRIYKLSQIDFLQFLS 391
                              344567777764678999999888875 PP

>> Tsi6  Tsi6
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0      0.79   4.7e+03      10      38 ..      40      76 ..      37      83 .. 0.61
   2 ?   -3.0   0.0       1.4   8.1e+03      62      79 ..     125     142 ..     122     145 .. 0.80
   3 ?   -0.1   0.4      0.16   9.8e+02       4      41 ..     159     197 ..     156     211 .. 0.70
   4 ?    9.7   0.1   0.00014      0.85      12      50 ..     239     277 ..     230     281 .. 0.83
   5 ?   -0.6   0.1      0.23   1.4e+03      21      45 ..     317     341 ..     311     360 .. 0.79

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 0.79
                             HHHHHHHH......HHSTT-HHHHHHHHHH..HHHHH CS
                     Tsi6 10 lalvqkre......kalpgfplYasieqqL..eylkd 38
                             l+++q++       k+l+ +p+Y  +   L  +ylkd
  PHY93_08460|PHY93_08460 40 LKAAQEKLnqfdaqKKLSTSPIYPNLTWNLggTYLKD 76
                             5555666544455567777778877776664456665 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 1.4
                              HHTTT-HHHHHHHHHHHH CS
                     Tsi6  62 eFeetdpelaeaLsdafy 79 
                              + + t+  l +++ +afy
  PHY93_08460|PHY93_08460 125 NIDLTERALIQNIIEAFY 142
                              567788899999999998 PP

  == domain 3  score: -0.1 bits;  conditional E-value: 0.16
                              HHHHHHHHHHHHHHHHSTT-H.HHHHHHHHHHHHHHHHH CS
                     Tsi6   4 dyvdralalvqkrekalpgfp.lYasieqqLeylkdvle 41 
                              d++++ l   ++r+++  g      ++++qL  ++  +e
  PHY93_08460|PHY93_08460 159 DIIQKSLVTSNQRYQKGRGQLlDILQVKTQLALIQPQVE 197
                              789999999999998877543212356677777766555 PP

  == domain 4  score: 9.7 bits;  conditional E-value: 0.00014
                              HHHHHHHHSTT-HHHHHHHHHHHHHHHHHH-TTS-SCGG CS
                     Tsi6  12 lvqkrekalpgfplYasieqqLeylkdvlegeekdkskL 50 
                               +   +++lp++++ +   +qL+y++dv  g+  ++ +L
  PHY93_08460|PHY93_08460 239 YIDLENYHLPEYEVNQLQLTQLDYIRDVTLGKDYPTLRL 277
                              55666799*********************9998777665 PP

  == domain 5  score: -0.6 bits;  conditional E-value: 0.23
                              TT-HHHHHHHHHHHHHHHHHH-TTS CS
                     Tsi6  21 pgfplYasieqqLeylkdvlegeek 45 
                              ++ +++as   qL+  ++ le++ +
  PHY93_08460|PHY93_08460 317 QEKAILASQNSQLKIARRDLENTLS 341
                              4556899999999999999998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (436 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       734  (0.0409393); expected 358.6 (0.02)
Passed bias filter:                      275  (0.0153383); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.56u 0.19s 00:00:00.75 Elapsed: 00:00:00.42
# Mc/sec: 3152.87
//
Query:       PHY93_08465|PHY93_08465  [L=238]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.025   14.5   0.4       0.06   13.3   0.0    1.8  2  DUF1427   Protein of unknown function (DUF1427)


Domain annotation for each model (and alignments):
>> DUF1427  Protein of unknown function (DUF1427)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.6   0.1      0.64   1.2e+04      35      41 ..      95     101 ..      93     104 .. 0.53
   2 ?   13.3   0.0   3.4e-06      0.06      33      61 ..     188     216 ..     178     224 .. 0.91

  Alignments for each domain:
  == domain 1  score: -3.6 bits;  conditional E-value: 0.64
                  DUF1427  35 LlGiLvG 41 
                              L+G+++G
  PHY93_08465|PHY93_08465  95 LVGLIIG 101
                              4455555 PP

  == domain 2  score: 13.3 bits;  conditional E-value: 3.4e-06
                  DUF1427  33 vGLlGiLvGeqvvPvakrllageevataw 61 
                              +G +G+L G+ v+P+ kr++++ e+++a+
  PHY93_08465|PHY93_08465 188 LGYMGMLKGNIVIPLNKRIMKNYEMDIAL 216
                              699******************99998876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (238 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       601  (0.0335211); expected 358.6 (0.02)
Passed bias filter:                      415  (0.0231469); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 1778.71
//
Query:       PHY93_08470|PHY93_08470  [L=152]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.2e-10   39.4   0.0    6.7e-10   38.7   0.0    1.4  1  MarR            MarR family
    2.5e-08   33.7   0.0    4.4e-08   32.9   0.0    1.4  1  MarR_2          MarR family
    5.9e-06   25.8   0.6    1.3e-05   24.6   0.0    2.0  2  HTH_24          Winged helix-turn-helix DNA-binding
    8.6e-05   23.0   0.0    0.00013   22.4   0.0    1.3  1  HTH_27          Winged helix DNA-binding domain
    0.00027   21.1   0.0    0.00052   20.1   0.0    1.6  1  HTH_34          Winged helix DNA-binding domain
     0.0003   20.7   0.1    0.00058   19.8   0.1    1.7  1  HTH_Crp_2       Crp-like helix-turn-helix domain
    0.00043   20.0   0.0    0.00097   18.9   0.0    1.6  1  HTH_IclR        IclR helix-turn-helix domain
  ------ inclusion threshold ------
      0.014   15.5   0.0      0.027   14.7   0.0    1.4  1  Fe_dep_repress  Iron dependent repressor, N-terminal DNA bind
      0.018   15.7   0.2       0.28   11.9   0.1    2.4  2  RPA_C           Replication protein A C terminal
      0.024   14.6   0.0      0.064   13.2   0.0    1.7  1  HTH_11          HTH domain
       0.03   14.2   0.0      0.047   13.6   0.0    1.4  1  TrmB            Sugar-specific transcriptional regulator TrmB
      0.032   14.2   0.4       0.37   10.8   0.0    2.5  2  HTH_45          Winged helix-turn-helix
      0.047   13.5   0.3       0.18   11.7   0.0    2.1  2  HTH_AsnC-type   AsnC-type helix-turn-helix domain
      0.066   13.1   0.3       0.16   11.8   0.0    1.8  2  HTH_5           Bacterial regulatory protein, arsR family
      0.082   12.6   0.2       0.55    9.9   0.0    2.1  2  DUF4423         Domain of unknown function (DUF4423)
        0.1   12.4   0.1        1.9    8.3   0.0    2.2  2  EKR             Domain of unknown function


Domain annotation for each model (and alignments):
>> MarR  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.7   0.0     6e-13   6.7e-10       1      57 [.      37      92 ..      37      94 .. 0.93

  Alignments for each domain:
  == domain 1  score: 38.7 bits;  conditional E-value: 6e-13
                             --HHHHHHHHHHHHSTTEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEEETTSTT CS
                     MarR  1 ltltqfviLrilyeqgplsvseLakklgvskstvtrvldrLekkGlieRskspeDrR 57
                             lt +qf++L+ + + g + ++eL+++lgvs ++++r++d L+++Gli++  ++ DrR
  PHY93_08470|PHY93_08470 37 LTVPQFRVLAAINR-GICHNKELGDQLGVSEAAISRMVDSLVQEGLIKKGINKIDRR 92
                             899*********65.66677************************************9 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.9   0.0   3.9e-11   4.4e-08       3      61 ..      37      92 ..      35      93 .. 0.93

  Alignments for each domain:
  == domain 1  score: 32.9 bits;  conditional E-value: 3.9e-11
                             --HHHHHHHHHHHCTTTSEEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEEEESSSSSS CS
                   MarR_2  3 ltpaqarvLaaLgrrpgrdltvgelarrlglsksavsrilkrLvaaGLverrpgpeDkR 61
                             lt+ q+rvLaa+ r+    +  +el + lg+s +a+sr+++ Lv+ GL+ +  +  D+R
  PHY93_08470|PHY93_08470 37 LTVPQFRVLAAINRGI---CHNKELGDQLGVSEAAISRMVDSLVQEGLIKKGINKIDRR 92
                             899************9...9*****************************9887766766 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.6   0.0   1.2e-08   1.3e-05       8      48 .]      44      83 ..      41      83 .. 0.85
   2 ?   -2.7   0.1         4   4.5e+03       9      15 ..     136     142 ..     136     142 .. 0.83

  Alignments for each domain:
  == domain 1  score: 24.6 bits;  conditional E-value: 1.2e-08
                   HTH_24  8 ILelLqknprisqreLAerlglSpstvnrrlkrLeeeGlIk 48
                             +L ++ + + + ++eL ++lg+S ++++r ++ L++eGlIk
  PHY93_08470|PHY93_08470 44 VLAAINR-GICHNKELGDQLGVSEAAISRMVDSLVQEGLIK 83
                             5555555.5689****************************8 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 4
                   HTH_24   9 LelLqkn 15 
                              L++Lqkn
  PHY93_08470|PHY93_08470 136 LKILQKN 142
                              7899998 PP

>> HTH_27  Winged helix DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.4   0.0   1.2e-07   0.00013       1      68 []      37     102 ..      37     102 .. 0.93

  Alignments for each domain:
  == domain 1  score: 22.4 bits;  conditional E-value: 1.2e-07
                   HTH_27   1 ltrqqalvLhlirhrrrrkkladlcgrlnvedshisyslkkLtekGLvertgdeadrrekrvrlTdkG 68 
                              lt +q  vL  i+  r+  + ++l + l v+ ++is +++ L+  GL+++   + drr + ++lT +G
  PHY93_08470|PHY93_08470  37 LTVPQFRVLAAIN--RGICHNKELGDQLGVSEAAISRMVDSLVQEGLIKKGINKIDRRLTVLTLTSEG 102
                              5678888999999..999999***************************999999***********888 PP

>> HTH_34  Winged helix DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.1   0.0   4.7e-07   0.00052      17      69 ..      55     106 ..      41     117 .. 0.88

  Alignments for each domain:
  == domain 1  score: 20.1 bits;  conditional E-value: 4.7e-07
                   HTH_34  17 fvelkealeatdgnLsvhlkkLekagYievdkefkgkkprtllriTpeGreaf 69 
                               +el ++l+++++++s  ++ L + g i+  +++ ++ + t+l++T+eG+  +
  PHY93_08470|PHY93_08470  55 NKELGDQLGVSEAAISRMVDSLVQEGLIKKGINKIDR-RLTVLTLTSEGQRLY 106
                              47899*******************************9.***********9876 PP

>> HTH_Crp_2  Crp-like helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.8   0.1   5.1e-07   0.00058      24      55 ..      55      87 ..      10      99 .. 0.88

  Alignments for each domain:
  == domain 1  score: 19.8 bits;  conditional E-value: 5.1e-07
                             HHHHHHHTTSSHHHHHHHHHHHHHTTSEEET.E CS
                HTH_Crp_2 24 qeelAsmlGltretvsrilseLkreglisrg.r 55
                             ++el++ lG++   +sr+   L +egli++g +
  PHY93_08470|PHY93_08470 55 NKELGDQLGVSEAAISRMVDSLVQEGLIKKGiN 87
                             78***************************6422 PP

>> HTH_IclR  IclR helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.0   8.7e-07   0.00097      12      50 ..      45      84 ..      42      85 .. 0.81

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 8.7e-07
                             -CTTBSS-.BHHHHHHHHTS-HHHHHHHHHHHHHTTSEE. CS
                 HTH_IclR 12 laeapqel.tlselArrtglpkStvhRlLqtLvelGyveq 50
                             la+ +++   ++el +++g++ ++ +R++ +Lv++G++++
  PHY93_08470|PHY93_08470 45 LAAINRGIcHNKELGDQLGVSEAAISRMVDSLVQEGLIKK 84
                             444444433799*************************985 PP

>> Fe_dep_repress  Iron dependent repressor, N-terminal DNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.0   2.4e-05     0.027      20      53 ..      50      83 ..      44      86 .. 0.91

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 2.4e-05
                             HSSB-HHHHHHHHTS-HHHHHHHHHHHHHTTSEE CS
           Fe_dep_repress 20 kkvvktkdlaerLnvspssVsemlkkLekdGyve 53
                             +++  +k+l   L+vs + +s m+  L ++G+++
  PHY93_08470|PHY93_08470 50 RGICHNKELGDQLGVSEAAISRMVDSLVQEGLIK 83
                             678899*************************986 PP

>> RPA_C  Replication protein A C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.1   0.00025      0.28      69      97 ..      54      82 ..      14      87 .. 0.87
   2 ?    1.8   0.0      0.34   3.8e+02      46      66 ..      97     117 ..      83     137 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00025
                             EHHHHHHHSTSXHHHHHHHHHHHHHTTSE CS
                    RPA_C 69 hvdeiaqklrlsvndvkqavdeLsneGii 97
                             h +e+  +l++s++ + + vd+L++eG+i
  PHY93_08470|PHY93_08470 54 HNKELGDQLGVSEAAISRMVDSLVQEGLI 82
                             778999*********************98 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.34
                              XSXHHHHHHHHHHHH.SXSTT CS
                    RPA_C  46 gltalaqqvlnlikqspesee 66 
                              +lt   q+++n+ik+ ++s  
  PHY93_08470|PHY93_08470  97 TLTSEGQRLYNFIKTDARSRL 117
                              6888899999**999877665 PP

>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   5.7e-05     0.064      19      43 ..      56      80 ..      54      92 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 5.7e-05
                   HTH_11 19 eeLAeeLnvSrrtvrrdIkaLeelg 43
                             +eL ++L+vS++++ r +++L   g
  PHY93_08470|PHY93_08470 56 KELGDQLGVSEAAISRMVDSLVQEG 80
                             79****************9996666 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   4.2e-05     0.047      25      54 ..      55      84 ..      41     110 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 4.2e-05
                             HCHHCCCTTSSCHCHHHHHHHHHHCTSEEE CS
                     TrmB 25 adeiaeelgvprskvYevLrsLedkGlVer 54
                              +e+  +lgv+++ + +++ sL++ Gl+++
  PHY93_08470|PHY93_08470 55 NKELGDQLGVSEAAISRMVDSLVQEGLIKK 84
                             579999**********************87 PP

>> HTH_45  Winged helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   0.00033      0.37      11      69 ..      44     109 ..      41     112 .. 0.75
   2 ?    0.8   0.1      0.42   4.8e+02       2      14 ..     114     126 ..     113     149 .. 0.85

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00033
                   HTH_45  11 ILeaisegeakkTkimykanLsykllnkYLdmLvekgli.......kkskekYvlTekGlellekl 69 
                              +L ai++g  +  ++  +   s   +++++d Lv++gli       + + +  +lT +G++l++ +
  PHY93_08470|PHY93_08470  44 VLAAINRGICHNKELGDQLGVSEAAISRMVDSLVQEGLIkkginkiDRRLTVLTLTSEGQRLYNFI 109
                              566666666666677777788889999***********9666655455666788999999998765 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.42
                   HTH_45   2 RskleIiadILea 14 
                              Rs+l+I +++L++
  PHY93_08470|PHY93_08470 114 RSRLQIKLEVLSS 126
                              9999999999985 PP

>> HTH_AsnC-type  AsnC-type helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00016      0.18      19      36 ..      54      71 ..      47      76 .. 0.87
   2 ?   -2.4   0.2         4   4.4e+03       3       8 ..      88      93 ..      86      93 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00016
            HTH_AsnC-type 19 syaeLAervGlSestvlr 36
                              ++eL++++G+Se+++ r
  PHY93_08470|PHY93_08470 54 HNKELGDQLGVSEAAISR 71
                             589************987 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 4
            HTH_AsnC-type  3 eiDrkI 8 
                             +iDr++
  PHY93_08470|PHY93_08470 88 KIDRRL 93
                             799997 PP

>> HTH_5  Bacterial regulatory protein, arsR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   0.00015      0.16       7      47 .]      44      84 ..      41      84 .. 0.88
   2 ?   -2.7   0.0         5   5.6e+03      32      41 ..     132     141 ..     131     144 .. 0.63

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00015
                             HHHHHTTSSEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEE CS
                    HTH_5  7 ILklLaegelcvcelaeelglsqstvShHLkkLreaGLVek 47
                             +L + ++g +   el ++lg+s++++S+    L ++GL++k
  PHY93_08470|PHY93_08470 44 VLAAINRGICHNKELGDQLGVSEAAISRMVDSLVQEGLIKK 84
                             6667777788889999**********************986 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 5
                              HHHHHHHHHH CS
                    HTH_5  32 vShHLkkLre 41 
                              v h Lk+L +
  PHY93_08470|PHY93_08470 132 VIHGLKILQK 141
                              5566777754 PP

>> DUF4423  Domain of unknown function (DUF4423)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.9   0.0      0.29   3.2e+02     122     142 ..      13      33 ..       4      41 .. 0.80
   2 ?    9.9   0.0   0.00049      0.55      27      87 ..      43     100 ..      35     131 .. 0.84

  Alignments for each domain:
  == domain 1  score: 0.9 bits;  conditional E-value: 0.29
                  DUF4423 122 ltlaiskedyekikkeirefr 142
                              l++ +  ++++ i++e+r+ r
  PHY93_08470|PHY93_08470  13 LMMEVMPKAMQSIREEMRKGR 33 
                              788888899999999998866 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 0.00049
                  DUF4423  27 rellplkdfkadpeelakrlrpkisaeevekalefLlklgllkkdedgkyrqtekslttss 87 
                              r l++++ +    +el ++l+  +s++ +++ ++ L++ gl+kk  + k+ +  + lt +s
  PHY93_08470|PHY93_08470  43 RVLAAINRGICHNKELGDQLG--VSEAAISRMVDSLVQEGLIKKGIN-KIDRRLTVLTLTS 100
                              667777777777899******..*********************987.6666666666555 PP

>> EKR  Domain of unknown function
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   0.0    0.0017       1.9      11      37 ..      17      43 ..      11      51 .. 0.89
   2 ?    1.9   0.0      0.18     2e+02      24      35 ..      55      66 ..      44      75 .. 0.83

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0017
                             ---HHHHHTHHHHHTT-GGGS-GGGS- CS
                      EKR 11 dapefVkevlapinaqeGDeLpVSafp 37
                               p+ ++ + +++ +++G++L V +f 
  PHY93_08470|PHY93_08470 17 VMPKAMQSIREEMRKGRGERLTVPQFR 43
                             569999*****************9996 PP

  == domain 2  score: 1.9 bits;  conditional E-value: 0.18
                             HTT-GGGS-GGG CS
                      EKR 24 naqeGDeLpVSa 35
                             n+  GD+L VS+
  PHY93_08470|PHY93_08470 55 NKELGDQLGVSE 66
                             6778******96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (152 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       744  (0.041497); expected 358.6 (0.02)
Passed bias filter:                      542  (0.0302304); expected 358.6 (0.02)
Passed Vit filter:                        81  (0.00451782); expected 17.9 (0.001)
Passed Fwd filter:                        16  (0.000892409); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              16  [number of targets reported over threshold]
# CPU time: 0.48u 0.25s 00:00:00.73 Elapsed: 00:00:00.42
# Mc/sec: 1090.36
//
Query:       PHY93_08475|PHY93_08475  [L=130]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (130 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       548  (0.030565); expected 358.6 (0.02)
Passed bias filter:                      415  (0.0231469); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 965.70
//
Query:       PHY93_08480|PHY93_08480  [L=302]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (302 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       397  (0.0221429); expected 358.6 (0.02)
Passed bias filter:                      336  (0.0187406); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.26s 00:00:00.73 Elapsed: 00:00:00.40
# Mc/sec: 2249.85
//
Query:       PHY93_08485|PHY93_08485  [L=439]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.7e-10   39.6  14.3    2.4e-05   24.2   3.2    2.2  2  OEP       Outer membrane efflux protein


Domain annotation for each model (and alignments):
>> OEP  Outer membrane efflux protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.1   3.5   1.2e-08   0.00022       7     188 .]      37     208 ..      34     208 .. 0.92
   2 !   24.2   3.2   1.3e-09   2.4e-05      79     186 ..     297     404 ..     246     405 .. 0.95

  Alignments for each domain:
  == domain 1  score: 21.1 bits;  conditional E-value: 1.2e-08
                      OEP   7 lalennpdlkaaeaeieaaeanlkaakaeflPtlslsgsygyegngsegggddggtgttsvgltlsqplfdggkrrarvkaakaql 92 
                              + l++n +l++a  +++ ++ n+  a+a+ lP+l+l++      n +              ++t+ +p++  +++   +k+ k   
  PHY93_08485|PHY93_08485  37 QLLSKNISLLQALNNVQNSKLNVSMARAKLLPSLNLGVLLPALANPTFLL----------SSVTFLFPFLV-PSNWLVLKQDKDLF 111
                              67899*****************************************9887..........9*******998.************** PP

                      OEP  93 eaaeaqleqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearyk.aGlislldvlqaqvrllqaraelaeaeqqlq 177
                              e  +a +++ ++++ ++  ++y+ +++ +++  +  e+ + +  ++ + +++ +  G +++ d++   ++ ++++++  + +  l 
  PHY93_08485|PHY93_08485 112 ESDKASFKALQLNILSNSLSLYYTFVNDQKIQNVFAEQSEILGNIYLNLKKQSDvIGNVTIEDLDMSSAQWQESKIRVSKLQELLV 197
                              ********************************7777777777777777666666269999977***************99999999 PP

                      OEP 178 laraqLeyllg 188
                              + ra L+ llg
  PHY93_08485|PHY93_08485 198 AERASLRTLLG 208
                              99999999987 PP

  == domain 2  score: 24.2 bits;  conditional E-value: 1.3e-09
                      OEP  79 gkrrarvkaakaqleaaeaqleqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislldvlqaqvrllq 164
                                +  ++++a +++e+ +++ eq +q+ +  ++ +  q+   k q el  +al+   +++e+ +++y++Gl+sl  +lq+qv l +
  PHY93_08485|PHY93_08485 297 ADNLVNIQIANNNIENIKLRAEQLKQENEKTAEILVGQIIEVKDQQELSAKALTDRLSVYEGQKRQYALGLVSLQTLLQTQVLLTD 382
                              667789********************************************************************55********** PP

                      OEP 165 araelaeaeqqlqlaraqLeyl 186
                              +    +++  +l+++r+ L++l
  PHY93_08485|PHY93_08485 383 SYVLNIKSDLDLKMQRLTLMRL 404
                              ******************9997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (439 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       733  (0.0408835); expected 358.6 (0.02)
Passed bias filter:                      382  (0.0213063); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.43
# Mc/sec: 3058.29
//
Query:       PHY93_08490|PHY93_08490  [L=83]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (83 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       275  (0.0153383); expected 358.6 (0.02)
Passed bias filter:                      216  (0.0120475); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.24s 00:00:00.64 Elapsed: 00:00:00.41
# Mc/sec: 607.38
//
Query:       PHY93_08495|PHY93_08495  [L=247]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (247 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       713  (0.039768); expected 358.6 (0.02)
Passed bias filter:                      499  (0.027832); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.42
# Mc/sec: 1755.49
//
Query:       PHY93_16555|PHY93_16555  [L=193]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      3e-06   27.6   0.0    5.6e-06   26.7   0.0    1.4  1  HTH_26         Cro/C1-type HTH DNA-binding domain
    0.00017   21.6   0.0    0.00032   20.7   0.0    1.5  1  HTH_3          Helix-turn-helix
     0.0056   16.5   0.0      0.014   15.2   0.0    1.7  1  LacI           Bacterial regulatory proteins, lacI family
     0.0067   16.5   0.0       0.01   15.9   0.0    1.4  1  Phage_CI_repr  Bacteriophage CI repressor helix-turn-helix do
     0.0082   16.5   0.0      0.015   15.6   0.0    1.4  1  HTH_31         Helix-turn-helix domain
     0.0095   15.9   0.0      0.028   14.5   0.0    1.9  1  HTH_19         Helix-turn-helix domain
     0.0098   15.3   0.1      0.012   15.0   0.1    1.1  1  UvrD_C         UvrD-like helicase C-terminal domain
  ------ inclusion threshold ------
      0.016   14.9   0.1        5.8    6.7   0.1    2.3  2  Sigma70_r4_2   Sigma-70, region 4
       0.14   12.0   0.0       0.24   11.2   0.0    1.4  1  HTH_IclR       IclR helix-turn-helix domain
        1.1    9.5   4.0          2    8.6   0.2    2.3  2  DAG_kinase_N   Diacylglycerol kinase N-terminus


Domain annotation for each model (and alignments):
>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.7   0.0   3.1e-09   5.6e-06       3      62 ..      17      77 ..      17      78 .. 0.95

  Alignments for each domain:
  == domain 1  score: 26.7 bits;  conditional E-value: 3.1e-09
                   HTH_26  3 relmadrgi.tkseLargtgisaatlsrlvkgkpervsldtLdkiCdaLgctpgDLleyep 62
                             r+ m+ rg  ++++La++t++  +t+sr++++k + ++ + ++ki + L++ + + ++++ 
  PHY93_16555|PHY93_16555 17 RKYMQVRGAmSQKDLAEQTDVGVSTMSRFLSQKSTELNPQLIAKITAKLNIPLHEMIDFVE 77
                             6889999999*********************************************999985 PP

>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.7   0.0   1.8e-07   0.00032       9      54 ..      25      71 ..      17      72 .. 0.91

  Alignments for each domain:
  == domain 1  score: 20.7 bits;  conditional E-value: 1.8e-07
                             THHHHHHHHHHTSSHHHHHHHHTT.SSCSBHHHHHHHHHHHTSEHHH CS
                    HTH_3  9 glsqeeLAeklGvsrstisriEnG.ernPsletlkklakaLgvslde 54
                              +sq++LAe ++v +st sr  +   ++ +++ + k+   L+++l e
  PHY93_16555|PHY93_16555 25 AMSQKDLAEQTDVGVSTMSRFLSQkSTELNPQLIAKITAKLNIPLHE 71
                             69*****************************************9976 PP

>> LacI  Bacterial regulatory proteins, lacI family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0   7.7e-06     0.014       3      24 ..      29      51 ..      27      65 .. 0.83

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 7.7e-06
                             HHHHHHCTS-HHHHHHHCTTS.S CS
                     LacI  3 kDVArlAGVSkaTVSrvLnnk.e 24
                             kD+A++  V ++T Sr+L++k  
  PHY93_16555|PHY93_16555 29 KDLAEQTDVGVSTMSRFLSQKsT 51
                             8******************9944 PP

>> Phage_CI_repr  Bacteriophage CI repressor helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.0   5.6e-06      0.01       1      31 [.      14      70 ..      14     135 .. 0.72

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 5.6e-06
                             HHHHHHHHHHT-SSCHHHHCCTT--HHHHH..........................H CS
            Phage_CI_repr  1 gvleRlmsaygvkmqkeLAdlLgiakssvs..........................t 31
                             gv+++ m+  g  +qk+LA+  +++ s++s                           
  PHY93_16555|PHY93_16555 14 GVTRKYMQVRGAMSQKDLAEQTDVGVSTMSrflsqkstelnpqliakitaklniplH 70
                             7999**************************444444444444444444444433330 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   8.6e-06     0.015      14      59 ..      24      70 ..       5      72 .. 0.83

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 8.6e-06
                   HTH_31 14 G.LsqeevAerlgvsestlsrlEqGrrgrpspavlealaralgldpa 59
                             G +sq+++Ae++ v +st+sr  + + ++  p+ ++++   l+ + +
  PHY93_16555|PHY93_16555 24 GaMSQKDLAEQTDVGVSTMSRFLSQKSTELNPQLIAKITAKLNIPLH 70
                             449******************************99999888877765 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.5   0.0   1.5e-05     0.028      12      64 ..      25      77 ..      18      78 .. 0.91

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 1.5e-05
                   HTH_19 12 gltqeelaerlgisrskisaiEngkkdvpsaelllkiaealgidleyllqged 64
                              ++q++lae++++  s +s + + k+ ++++ l+ ki  +l+i+l + +++++
  PHY93_16555|PHY93_16555 25 AMSQKDLAEQTDVGVSTMSRFLSQKSTELNPQLIAKITAKLNIPLHEMIDFVE 77
                             59**********************888*****************999888776 PP

>> UvrD_C  UvrD-like helicase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.1   6.7e-06     0.012     131     209 ..      41     165 ..      32     185 .. 0.79

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 6.7e-06
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx........................... RF
                   UvrD_C 131 alkrilkrlvlgigkatveriseelkklglsltDfikedtleygeeFieliraleeknl........................... 189
                              +++r l+++ ++++++++++i   + kl + l+++i+  + ++ ++Fi+l++ ++++ +                           
  PHY93_16555|PHY93_16555  41 TMSRFLSQKSTELNPQLIAKI---TAKLNIPLHEMIDFVEEDFADRFIRLVKFYKDELKdvefdpnnlgassettrsvavekenap 123
                              799******************...9999999999999999999***********99988888898888888888888888887777 PP

                              .....................xxxxxx.xxxxxxxxxxxxxx RF
                   UvrD_C 190 .....................elllkk.iektaeerqalvsk 209
                                                   el +++ +e+ + +++a++++
  PHY93_16555|PHY93_16555 124 adpvdnrtanqrkedkvksnaELSIREkLESLTPRQRAFMTE 165
                              777777766666666666666333444455555555555554 PP

>> Sigma70_r4_2  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.9   0.0    0.0055       9.8      27      48 ..      26      47 ..      20      48 .. 0.87
   2 ?    6.7   0.1    0.0032       5.8       3      17 ..     147     161 ..     145     166 .. 0.89

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.0055
                             --HHHHHHHHT--HHHHHHHHH CS
             Sigma70_r4_2 27 lsykEIAellgisegtVksrls 48
                             +s+k+ Ae++++ ++t+ + ls
  PHY93_16555|PHY93_16555 26 MSQKDLAEQTDVGVSTMSRFLS 47
                             9***************987665 PP

  == domain 2  score: 6.7 bits;  conditional E-value: 0.0032
                              HHHHHHTTS-HHHHH CS
             Sigma70_r4_2   3 alrealaeLperqre 17 
                               +re l++L++rqr+
  PHY93_16555|PHY93_16555 147 SIREKLESLTPRQRA 161
                              79************7 PP

>> HTH_IclR  IclR helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   0.00013      0.24      16      40 ..      23      47 ..      20      48 .. 0.92

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00013
                             BSS-BHHHHHHHHTS-HHHHHHHHH CS
                 HTH_IclR 16 pqeltlselArrtglpkStvhRlLq 40
                             +++++ ++lA++t++  St +R+L+
  PHY93_16555|PHY93_16555 23 RGAMSQKDLAEQTDVGVSTMSRFLS 47
                             6789******************996 PP

>> DAG_kinase_N  Diacylglycerol kinase N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.4     0.093   1.7e+02      57     129 ..      74     142 ..      69     165 .. 0.37
   2 ?    8.6   0.2    0.0011         2      53      78 ..     165     191 ..     156     193 .] 0.83

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.093
             DAG_kinase_N  57 tYLevdlpeelcqrLFlsFqkkesqeespesqkkeasksssseenvlkkseesllkskkkkkekkekkkksek 129
                               + e+d+ + +  rL   ++ +  ++ + + ++ +as++++++ +v+k+++   +++ ++++++++k+ k+++
  PHY93_16555|PHY93_16555  74 DFVEEDFADRFI-RLVKFYKDE-LKDVEFDPNNLGASSETTRSVAVEKENAP--ADPVDNRTANQRKEDKVKS 142
                              566667776665.344433333.33344344444443333333333211111..1111111111111111111 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0011
             DAG_kinase_N  53 lFlktYLev.dlpeelcqrLFlsFqkk 78 
                               Fl+  Le+ dl  +l + LF++F+ k
  PHY93_16555|PHY93_16555 165 EFLNLKLEErDLIVDLGNNLFQYFKMK 191
                              5777778999**************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (193 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       862  (0.0480785); expected 358.6 (0.02)
Passed bias filter:                      496  (0.0276647); expected 358.6 (0.02)
Passed Vit filter:                        60  (0.00334653); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.43
# Mc/sec: 1356.02
//
Query:       PHY93_08500|PHY93_08500  [L=238]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.1e-41  142.1   0.1    2.8e-41  141.7   0.1    1.2  1  Abhydrolase_3    alpha/beta hydrolase fold
    1.9e-16   60.1   0.1    5.1e-16   58.6   0.1    1.6  1  COesterase       Carboxylesterase family
    2.1e-06   26.9   0.0    2.9e-06   26.4   0.0    1.3  1  Say1_Mug180      Steryl acetyl hydrolase
    0.00019   20.2   0.0      0.021   13.5   0.0    2.1  2  AXE1             Acetyl xylan esterase (AXE1)
    0.00027   19.9   0.0    0.00039   19.4   0.0    1.1  1  Chlorophyllase2  Chlorophyllase enzyme
     0.0022   17.7   0.2      0.055   13.1   0.2    2.1  1  Esterase         Putative esterase
  ------ inclusion threshold ------
      0.013   15.1   0.0        2.4    7.7   0.0    2.2  2  Peptidase_S15    X-Pro dipeptidyl-peptidase (S15 family)
      0.013   15.0   0.1       0.17   11.4   0.1    2.1  1  Esterase_phd     Esterase PHB depolymerase
      0.033   13.7   0.0      0.049   13.1   0.0    1.2  1  Peptidase_S9     Prolyl oligopeptidase family
      0.065   12.8   0.0      0.097   12.2   0.0    1.2  1  DUF2974          Protein of unknown function (DUF2974)
       0.12   11.9   0.0       0.19   11.3   0.0    1.3  1  DNA_pol3_alpha   Bacterial DNA polymerase III alpha NTPase do


Domain annotation for each model (and alignments):
>> Abhydrolase_3  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  141.7   0.1   1.7e-44   2.8e-41       1     126 [.     112     233 ..     112     238 .] 0.93

  Alignments for each domain:
  == domain 1  score: 141.7 bits;  conditional E-value: 1.7e-44
                              EEEE--STTTS--TTTTHHHHHHHHHHHTSEEEEEE---TTTS-TTHHHHHHHHHHHHHHHTHHHHTETTCEEEEEEETHHHHHHH CS
            Abhydrolase_3   1 lvyfHGGGfvlgsldthdalcrelakelgavvvsvdYrlAPehpfPaavedalaalrwlaeqawelgadpsrivlaGdSaGGnlaa 86 
                              +vyfHGGGfv+ + d +da+ r la++++a+ vsv+Yr APe++fPaa+eda+aa++w++++a +lg dp+r+++aG+S GGnla+
  PHY93_08500|PHY93_08500 112 VVYFHGGGFVIADNDIYDATPRALANKTKAIFVSVEYRKAPEAKFPAAHEDAYAAYKWVVNNAPSLGGDPKRVAVAGESSGGNLAL 197
                              79************************************************************99********************** PP

                              HHHHHHHHTT---EEEEEEESE-SSTSSTTSHHHHHCHHT CS
            Abhydrolase_3  87 avalrardegepkvagqvliyPvtdlertesesikkaeel 126
                              +va++arde+   + + +liyPv    + e++s+k   ++
  PHY93_08500|PHY93_08500 198 NVAIKARDEKFQLPIHELLIYPVAGS-NMETASYK---KY 233
                              *********8778*********8766.77788883...44 PP

>> COesterase  Carboxylesterase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.6   0.1   3.1e-19   5.1e-16      92     199 ..      98     196 ..      96     212 .. 0.88

  Alignments for each domain:
  == domain 1  score: 58.6 bits;  conditional E-value: 3.1e-19
                              EEEESSSSSTTSSEEEEEEE--STTTS-BGCG..S-THHHHHHHTSEEEEE----HHHHH-B-SSTTSBS-HHHHHHHHHHHHHHH CS
               COesterase  92 vytPkekkeakkklPVlVwihGggfqtgsase..ydgsaLaaegnvivVtinYRlGvlGFlstgdeeapGNvGllDqvlALrWVke 175
                              +y P +  + kk lP++V++hGggf++ ++    + ++aLa++ + i V+++YR            ea+  ++  D  +A +WV +
  PHY93_08500|PHY93_08500  98 IYRPYS--KDKKPLPIVVYFHGGGFVIADNDIydATPRALANKTKAIFVSVEYRKA---------PEAKFPAAHEDAYAAYKWVVN 172
                              899985..578888***************9884456789***************55.........577778899************ PP

                              HGGGGTEEEEEEEEEEETHHHHHH CS
               COesterase 176 nIasFGGdpervtlfGesAGaasv 199
                              n  s GGdp+rv ++Ges+G+ ++
  PHY93_08500|PHY93_08500 173 NAPSLGGDPKRVAVAGESSGGNLA 196
                              ********************9875 PP

>> Say1_Mug180  Steryl acetyl hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.4   0.0   1.8e-09   2.9e-06     115     235 ..     102     221 ..      60     236 .. 0.80

  Alignments for each domain:
  == domain 1  score: 26.4 bits;  conditional E-value: 1.8e-09
              Say1_Mug180 115 etfdPkvDpvllylHGGgfalklipvtlvfLsnlrklfpdmailvsDYtvtaakdqskkYplqvleslavydylvksk...g..fk 195
                                 d k  p+++y+HGGgf++    +       l ++  + ai vs   v   k    k+p    ++ a y+++v+     g   k
  PHY93_08500|PHY93_08500 102 YSKDKKPLPIVVYFHGGGFVIADNDIYDATPRALANK--TKAIFVS---VEYRKAPEAKFPAAHEDAYAAYKWVVNNApslGgdPK 182
                              555666669***********99888766665555555..4477774...444455699****************986422232359 PP

              Say1_Mug180 196 nvvvlGdSaGGnlvLslllklsklnkvvlPkkaiaiSPWl 235
                               v v G+S+GGnl L++ +k ++ +k  lP +  +i P +
  PHY93_08500|PHY93_08500 183 RVAVAGESSGGNLALNVAIKARD-EKFQLPIHELLIYPVA 221
                              ********************999.9999999988888865 PP

>> AXE1  Acetyl xylan esterase (AXE1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.8   0.0    0.0057       9.4      54      91 ..      80     117 ..      60     136 .. 0.74
   2 !   13.5   0.0   1.3e-05     0.021     164     193 ..     170     201 ..     153     218 .. 0.74

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.0057
                              EEEEEEEEEEGGGEEEEEEEEEES.S.SSSEEEEEEEE- CS
                     AXE1  54 vkvydltfegvrgarikaklvlPkek.eeklPavvefhG 91 
                              ++v ++t +g     i a++ +P +k +++lP+vv fhG
  PHY93_08500|PHY93_08500  80 AEVKEITVDGGA-GLIPARIYRPYSKdKKPLPIVVYFHG 117
                              555666666643.468999999975416779*******8 PP

  == domain 2  score: 13.5 bits;  conditional E-value: 1.3e-05
                              HHHTSTTE..EEEEEEEEEETHHHHHHHHHHH CS
                     AXE1 164 ivaslpev..DeeRvavlGasqGGalalavaa 193
                              +v + p    D++Rvav+G+s GG lal va 
  PHY93_08500|PHY93_08500 170 VVNNAPSLggDPKRVAVAGESSGGNLALNVAI 201
                              44555553449****************99975 PP

>> Chlorophyllase2  Chlorophyllase enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.4   0.0   2.4e-07   0.00039       8     132 ..      98     225 ..      94     233 .. 0.77

  Alignments for each domain:
  == domain 1  score: 19.4 bits;  conditional E-value: 2.4e-07
          Chlorophyllase2   8 vvaPteage..YpvllflhGyl...llnslYsqlLkhiash.gfivvapqlykvaeada.keiksaakvlnWlakgLesvlpeeve 86 
                              ++ P ++++   p+++++hG       n++Y    +++a   + i v+++  k  ea+  +  + a +  +W+ ++       ++ 
  PHY93_08500|PHY93_08500  98 IYRPYSKDKkpLPIVVYFHGGGfviADNDIYDATPRALANKtKAIFVSVEYRKAPEAKFpAAHEDAYAAYKWVVNNAP-----SLG 178
                              5666555442278999999754445789********999752789999998888788777888999999****99865.....899 PP

          Chlorophyllase2  87 pdlsklalsgHSrGgktafalalgkaktsl..kfsaligvdPvagask 132
                               d +++a++g S+Gg+ a+++a++ ++ +    +   + + Pvag ++
  PHY93_08500|PHY93_08500 179 GDPKRVAVAGESSGGNLALNVAIKARDEKFqlPI-HELLIYPVAGSNM 225
                              9***********************9996663233.4567899999664 PP

>> Esterase  Putative esterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.1   0.2   3.4e-05     0.055      11     138 ..      97     205 ..      92     210 .. 0.58

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 3.4e-05
                              EEEE.CC.GGTTTEEEEEEE--TTHHCC..HHHHHCHHCCCCHCCT.EEEEEECCCSS-TTTTTSBTTSBB.TTEEETTCCCCCCH CS
                 Esterase  11 qvyLPedyspgrkypvvylldGltgwdq..nfrakelleslaregeiaeviivvvprggessfysdwdlgarfyenategpgaeay 94 
                              ++y P++ ++++++p v++++G  g+ +  n   +++  +la +    ++i v v++  +          a+f ++++  + a+++
  PHY93_08500|PHY93_08500  97 RIYRPYS-KDKKPLPIVVYFHG-GGFVIadNDIYDATPRALANK---TKAIFVSVEYRKAP--------EAKFPAAHEDAYAAYKW 169
                              6676666.77777777777777.666541123333333333444...46666666665555........13333455555555555 PP

                              CHHHHTHHHHHHHHHCSEECCCEEEEEETHHHHHHHHHHHCSTT CS
                 Esterase  95 etfltqeLlplldanfrtapdgravaGqSmGGlgALilalkhpd 138
                              +   +         ++  +p++ avaG S GG  AL++a+k+ d
  PHY93_08500|PHY93_08500 170 VVNNA--------PSLGGDPKRVAVAGESSGGNLALNVAIKARD 205
                              32211........2234455559*****************9765 PP

>> Peptidase_S15  X-Pro dipeptidyl-peptidase (S15 family)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.3   0.0    0.0077        13       4      24 ..      93     113 ..      88     116 .. 0.87
   2 ?    7.7   0.0    0.0014       2.4      79     121 ..     156     202 ..     151     215 .. 0.81

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.0077
                              EEEEEEEEE..TTSSSEEEEE CS
            Peptidase_S15   4 rLavdiyrPetkskeklPvll 24 
                              ++ ++iyrP +k+k++lP+++
  PHY93_08500|PHY93_08500  93 LIPARIYRPYSKDKKPLPIVV 113
                              6899*****9999*****997 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.0014
                              TTTHHHHHHHHHHHHHHC.TTEEE...EEEEEEECHHHHHHHHHCTT CS
            Peptidase_S15  79 dsdeaedgadvidWlakq.pwsnG...kVgmtGiSYlGttqllaaat 121
                              ++   ed++++ +W++++ p   G   +V++ G S +G ++l +a +
  PHY93_08500|PHY93_08500 156 FPAAHEDAYAAYKWVVNNaPSLGGdpkRVAVAGESSGGNLALNVAIK 202
                              567789***********86665444449*************999875 PP

>> Esterase_phd  Esterase PHB depolymerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1    0.0001      0.17      92     141 ..     177     226 ..      94     237 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.0001
             Esterase_phd  92 hrvdaarvyvaGlsaGaaladllalhypdvfaavalhsGlalGeaadvis 141
                               + d+ rv vaG s+G+ la  +a +  d    + +h  l +  a + + 
  PHY93_08500|PHY93_08500 177 LGGDPKRVAVAGESSGGNLALNVAIKARDEKFQLPIHELLIYPVAGSNME 226
                              4679********************99999988899999888888877665 PP

>> Peptidase_S9  Prolyl oligopeptidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0     3e-05     0.049      46      94 ..     161     213 ..     156     237 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 3e-05
                              HHHHHHHHHHHHTT...S--GGGEEEEEETHHHHHHHHHHH.H-GGG-SEEEE CS
             Peptidase_S9  46 dDfiaaaealakeg...yvdserlaitGgSyGGyltgaaln.qrpdlFkaava 94 
                              +D  aa ++++++      d++r+a+ G S GG l++ ++   r+++F+  + 
  PHY93_08500|PHY93_08500 161 EDAYAAYKWVVNNApslGGDPKRVAVAGESSGGNLALNVAIkARDEKFQLPIH 213
                              67778888887776644579*************99876555489999987655 PP

>> DUF2974  Protein of unknown function (DUF2974)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0     6e-05     0.097      71     108 ..     166     206 ..     151     236 .. 0.72

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 6e-05
                  DUF2974  71 AlkYlnkileeseg...kiylgGhSkGGnlAvyaamnaedd 108
                              A+k++ + +    g   ++ ++G S GGnlA+ +a++a d+
  PHY93_08500|PHY93_08500 166 AYKWVVNNAPSLGGdpkRVAVAGESSGGNLALNVAIKARDE 206
                              455554444443334437******************97654 PP

>> DNA_pol3_alpha  Bacterial DNA polymerase III alpha NTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00011      0.19     212     247 ..     115     150 ..      98     156 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00011
                              EEEEEEEE-SS-GGGTS-EEE-TTT--EEESS-HHH CS
           DNA_pol3_alpha 212 qHaaGvvispkeltdlvPlqkaekeeevvtqfdmed 247
                               H +G+vi++++++d +P   a+k++++++  ++++
  PHY93_08500|PHY93_08500 115 FHGGGFVIADNDIYDATPRALANKTKAIFVSVEYRK 150
                              6********************999999877766655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (238 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       445  (0.0248201); expected 358.6 (0.02)
Passed bias filter:                      426  (0.0237604); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.43
# Mc/sec: 1654.91
//
Query:       PHY93_18560|PHY93_18560  [L=92]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
      1e-12   47.9   0.0    1.4e-12   47.5   0.0    1.2  1  HTH_3      Helix-turn-helix
    2.2e-07   31.2   0.0      3e-07   30.8   0.0    1.2  1  HTH_26     Cro/C1-type HTH DNA-binding domain
    7.3e-07   29.4   0.0    9.1e-07   29.1   0.0    1.1  1  HTH_31     Helix-turn-helix domain
    2.3e-05   24.3   0.0      5e-05   23.2   0.0    1.5  1  HTH_19     Helix-turn-helix domain
      0.004   17.2   0.0      0.004   17.2   0.0    1.1  1  BetR       BetR domain
  ------ inclusion threshold ------
       0.01   15.7   0.0      0.023   14.5   0.0    1.6  2  TrmB       Sugar-specific transcriptional regulator TrmB
      0.014   15.8   0.2      0.014   15.8   0.2    1.6  2  RICH       RICH domain
      0.041   14.4   0.3       0.28   11.7   0.3    1.9  1  HTH_40     Helix-turn-helix domain
      0.058   13.4   0.0        0.1   12.5   0.0    1.5  1  HTH_37     Helix-turn-helix domain
      0.067   13.1   0.1       0.18   11.7   0.1    1.7  2  HTH_5      Bacterial regulatory protein, arsR family
      0.067   13.1   0.0       0.24   11.3   0.0    1.9  2  MarR       MarR family
      0.068   13.4   0.0      0.082   13.1   0.0    1.2  1  Phage_CII  Bacteriophage CII protein
      0.078   13.1   0.9       0.14   12.3   0.1    1.8  3  FBA_2      F-box associated
      0.079   12.6   0.0       0.15   11.7   0.0    1.5  1  CENP-B_N   CENP-B N-terminal DNA-binding domain
       0.13   12.1   0.0       0.34   10.7   0.0    1.7  2  HTH_IclR   IclR helix-turn-helix domain


Domain annotation for each model (and alignments):
>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.5   0.0   1.2e-15   1.4e-12       3      55 .]       9      60 ..       7      60 .. 0.96

  Alignments for each domain:
  == domain 1  score: 47.5 bits;  conditional E-value: 1.2e-15
                             HHHHHTTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHHHH CS
                    HTH_3  3 elRkqlglsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvsldel 55
                             +l+++++ls++++A+ +Gv++s i++++nG +nP+l+ l k+a+++++s de+
  PHY93_18560|PHY93_18560  9 KLMEEKNLSIAQIAKGSGVPKSNITKWMNG-ANPNLSQLAKVAEYFQLSVDEI 60
                             799***************************.99*****************996 PP

>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.8   0.0   2.5e-10     3e-07       1      57 [.       6      60 ..       6      66 .. 0.96

  Alignments for each domain:
  == domain 1  score: 30.8 bits;  conditional E-value: 2.5e-10
                   HTH_26  1 kLrelmadrgitkseLargtgisaatlsrlvkgkpervsldtLdkiCdaLgctpgDL 57
                             +L +lm ++++++++ a+g+g+ +++++++ +g   +++l+ L+k++++++ +++++
  PHY93_18560|PHY93_18560  6 NLLKLMEEKNLSIAQIAKGSGVPKSNITKWMNGA--NPNLSQLAKVAEYFQLSVDEI 60
                             799******************************8..******************998 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.1   0.0   7.6e-10   9.1e-07       9      62 ..      10      61 ..       6      62 .. 0.95

  Alignments for each domain:
  == domain 1  score: 29.1 bits;  conditional E-value: 7.6e-10
                   HTH_31  9 lReraGLsqeevAerlgvsestlsrlEqGrrgrpspavlealaralgldpaera 62
                             l e+ +Ls ++ A+ +gv +s ++++++G++  p +++l+++a++++l+++e a
  PHY93_18560|PHY93_18560 10 LMEEKNLSIAQIAKGSGVPKSNITKWMNGAN--PNLSQLAKVAEYFQLSVDEIA 61
                             78999**************************..89****************976 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.2   0.0   4.2e-08     5e-05       3      59 ..       6      60 ..       5      62 .. 0.93

  Alignments for each domain:
  == domain 1  score: 23.2 bits;  conditional E-value: 4.2e-08
                   HTH_19  3 rLkeaReelgltqeelaerlgisrskisaiEngkkdvpsaelllkiaealgidleyl 59
                             +L ++ ee++l+++++a+  g+ +s i+++ ng   +p+ + l k+ae++ ++++++
  PHY93_18560|PHY93_18560  6 NLLKLMEEKNLSIAQIAKGSGVPKSNITKWMNGA--NPNLSQLAKVAEYFQLSVDEI 60
                             677888***************************4..8***************99986 PP

>> BetR  BetR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.0   3.4e-06     0.004      28      72 ..      21      65 ..       3      90 .. 0.80

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 3.4e-06
                     BetR 28 ladiLglslSqanRKlkGsipwnlaqlekvAktfgvpaaiLl.dlt 72
                             +a+  g+  S+ ++ ++G  p nl+ql+kvA++f+++ + +  d+ 
  PHY93_18560|PHY93_18560 21 IAKGSGVPKSNITKWMNGANP-NLSQLAKVAEYFQLSVDEIAfDKK 65
                             4444578889999******99.9**************987643544 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0     2e-05     0.023      14      43 ..       7      36 ..       4      38 .. 0.89
   2 ?   -2.2   0.0       3.3   3.9e+03      23      29 ..      55      61 ..      46      79 .. 0.62

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 2e-05
                             CHHHHHHCCCHHCHHCCCTTSSCHCHHHHH CS
                     TrmB 14 YlaLlklgpatadeiaeelgvprskvYevL 43
                              l+L++++++++ +ia+ +gvp+s++ + +
  PHY93_18560|PHY93_18560  7 LLKLMEEKNLSIAQIAKGSGVPKSNITKWM 36
                             689**********************98866 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 3.3
                             CHHCHHC CS
                     TrmB 23 atadeia 29
                             +++deia
  PHY93_18560|PHY93_18560 55 LSVDEIA 61
                             5555555 PP

>> RICH  RICH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.1       6.3   7.6e+03      66      66 ..      10      10 ..       2      23 .. 0.46
   2 ?   15.8   0.2   1.1e-05     0.014       9      42 ..      47      78 ..      42      86 .. 0.93

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 6.3
                     RICH 66 l 66
                             l
  PHY93_18560|PHY93_18560 10 L 10
                             1 PP

  == domain 2  score: 15.8 bits;  conditional E-value: 1.1e-05
                     RICH  9 deVkeylekiLseikkqldKrkhtqnvaLikkLs 42
                             ++V+ey +  ++ei    dK+k+t++ +L++kL+
  PHY93_18560|PHY93_18560 47 AKVAEYFQLSVDEI--AFDKKKDTEIENLFQKLE 78
                             469***********..****************96 PP

>> HTH_40  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.3   0.00023      0.28       7      67 ..       9      80 ..       4      91 .. 0.68

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00023
                   HTH_40  7 ell.eeglsieeIAkerglkesTIegHLaeliee.......g..eeidlerlv.seeeekeIeeaiekvgse 67
                             +l+ e++lsi++IAk  g+ +s I + +  +  +           +++++++  ++++  eIe+ ++k++ +
  PHY93_18560|PHY93_18560  9 KLMeEKNLSIAQIAKGSGVPKSNITKWMNGANPNlsqlakvAeyFQLSVDEIAfDKKKDTEIENLFQKLEIH 80
                             5666999*****************876544444322222221223477777743778888999999987754 PP

>> HTH_37  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   8.8e-05       0.1      23      60 ..       7      44 ..       1      58 [. 0.79

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 8.8e-05
                             HHHHHHHCT--HHHHHHHHT--HHHHHHHHTT--TT-- CS
                   HTH_37 23 iaeliekrelsqseaaqllgiaqPkvsrllrgklsrfs 60
                             + +l+e+++ls +++a+  g++++++++ ++g + ++s
  PHY93_18560|PHY93_18560  7 LLKLMEEKNLSIAQIAKGSGVPKSNITKWMNGANPNLS 44
                             66889999999999999999999999999987766654 PP

>> HTH_5  Bacterial regulatory protein, arsR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.1   0.00015      0.18       6      32 ..       6      32 ..       2      34 .. 0.92
   2 ?   -2.0   0.0       2.8   3.3e+03      15      18 ..      54      57 ..      43      63 .. 0.47

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00015
                             HHHHHHTTSSEEHHHHHHHHTS-HHHH CS
                    HTH_5  6 kILklLaegelcvcelaeelglsqstv 32
                              +Lkl++e++l++ ++a+  g+++s++
  PHY93_18560|PHY93_18560  6 NLLKLMEEKNLSIAQIAKGSGVPKSNI 32
                             689**********************98 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 2.8
                             SEEH CS
                    HTH_5 15 elcv 18
                             +l+v
  PHY93_18560|PHY93_18560 54 QLSV 57
                             3444 PP

>> MarR  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0    0.0002      0.24       9      37 ..       7      35 ..       5      38 .. 0.92
   2 ?   -1.0   0.0       1.5   1.8e+03      18      26 ..      41      49 ..      39      61 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.0002
                             HHHHHHSTTEEHHHHHHHHTS-HHHHHHH CS
                     MarR  9 LrilyeqgplsvseLakklgvskstvtrv 37
                             L +l e+ +ls++++ak +gv ks++t++
  PHY93_18560|PHY93_18560  7 LLKLMEEKNLSIAQIAKGSGVPKSNITKW 35
                             7789999********************97 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 1.5
                             EEHHHHHHH CS
                     MarR 18 lsvseLakk 26
                             +++s+Lak 
  PHY93_18560|PHY93_18560 41 PNLSQLAKV 49
                             677777775 PP

>> Phage_CII  Bacteriophage CII protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   6.9e-05     0.082      26      72 ..      18      65 ..       4      76 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 6.9e-05
                             HHHHHHHHTSSTTTHHHHHHHHHHHHHHHHHHTTT.THHHHHHHHHHH CS
                Phage_CII 26 qrkvaeaiGvdeskisrwktDwipkasvLlavlef.Gvaddelarlak 72
                               ++a+  Gv +s+i +w +   p +s L  v e+  +  de+a   k
  PHY93_18560|PHY93_18560 18 IAQIAKGSGVPKSNITKWMNGANPNLSQLAKVAEYfQLSVDEIAFDKK 65
                             5679999*************************9962566678875555 PP

>> FBA_2  F-box associated
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0       5.8   6.9e+03      26      34 ..       8      16 ..       2      24 .. 0.54
   2 ?   12.3   0.1   0.00012      0.14      50      64 ..      32      46 ..      30      47 .. 0.89
   3 ?   -2.8   0.0         6   7.2e+03       9      14 ..      72      78 ..      58      83 .. 0.63

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 5.8
                    FBA_2 26 LLiiNsksl 34
                             L+++  k+l
  PHY93_18560|PHY93_18560  8 LKLMEEKNL 16
                             444444444 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 0.00012
                    FBA_2 50 LKhWikgsnprLeyl 64
                             +++W++g+np+L  l
  PHY93_18560|PHY93_18560 32 ITKWMNGANPNLSQL 46
                             689*********876 PP

  == domain 3  score: -2.8 bits;  conditional E-value: 6
                    FBA_2  9 n.fdelt 14
                             n f++l+
  PHY93_18560|PHY93_18560 72 NlFQKLE 78
                             3344444 PP

>> CENP-B_N  CENP-B N-terminal DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00013      0.15      16      44 ..       8      37 ..       2      40 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00013
                             HHHHHCTT.-HHHHHHHHT--CCHHHHHHH CS
                 CENP-B_N 16 Iqrleege.Skaelarrfnvpestlsdilk 44
                              +++ee + S a +a+  +vp+s + ++++
  PHY93_18560|PHY93_18560  8 LKLMEEKNlSIAQIAKGSGVPKSNITKWMN 37
                             688999999******************987 PP

>> HTH_IclR  IclR helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   0.00029      0.34      18      34 ..      15      31 ..       7      37 .. 0.83
   2 ?   -1.6   0.0         2   2.4e+03      20      26 ..      42      48 ..      34      56 .. 0.58

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00029
                             S-BHHHHHHHHTS-HHH CS
                 HTH_IclR 18 eltlselArrtglpkSt 34
                              l+++++A+ +g+pkS+
  PHY93_18560|PHY93_18560 15 NLSIAQIAKGSGVPKSN 31
                             389*************7 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 2
                             BHHHHHH CS
                 HTH_IclR 20 tlselAr 26
                             +ls+lA+
  PHY93_18560|PHY93_18560 42 NLSQLAK 48
                             3555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (92 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       843  (0.0470188); expected 358.6 (0.02)
Passed bias filter:                      502  (0.0279993); expected 358.6 (0.02)
Passed Vit filter:                        57  (0.00317921); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.44u 0.24s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 682.07
//
Query:       PHY93_18565|PHY93_18565  [L=53]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (53 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       235  (0.0131073); expected 358.6 (0.02)
Passed bias filter:                      196  (0.010932); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.42
# Mc/sec: 376.60
//
Query:       PHY93_18570|PHY93_18570  [L=517]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.8e-13   48.8   0.0    4.6e-12   46.7   0.0    2.2  2  Fic       Fic/DOC family


Domain annotation for each model (and alignments):
>> Fic  Fic/DOC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0      0.49   8.9e+03      46      81 ..     199     238 ..     167     240 .. 0.58
   2 !   46.7   0.0   2.6e-16   4.6e-12       5      97 .]     368     465 ..     364     465 .. 0.85

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 0.49
                              HHHHHHHHHHHC....HHT-S-HHHHHHHHHHHHHHH--S CS
                      Fic  46 paeleelleyln....elekeeplekaaalhyefekiHPF 81 
                              pa  e+++  ++    +++++++++ + a+ ++++   PF
  PHY93_18570|PHY93_18570 199 PASAERIIGAYKhlneATKAKQIYDDLIAADFKLNEVNPF 238
                              3333333333333334445666666666666666666666 PP

  == domain 2  score: 46.7 bits;  conditional E-value: 2.6e-16
                              HHHHHHHCHS-S----.......--TS--SS-ST..EEEE---SCCCHHHHHHHHHHHHCHHT-S-HHHHHHHHHHHHHHH--SSS CS
                      Fic   5 edllelhrlllqdige.......eagefrdeevsegklesalappeevpaeleelleylnelekeeplekaaalhyefekiHPFaD 83 
                              +dl++++r+l+    +       +   +r++ v++++ +++++p   +   +e l++ l+  ++ ++  +a   h+ f++iHP++D
  PHY93_18570|PHY93_18570 368 ADLQKWYRELFTPSLKanlvppeRLAGYRNSFVYITNSRHVPPPRTAILDCMETLFDLLK--NEPNAGVRAVLGHFVFVYIHPYMD 451
                              67888888887777766666433225668888899*************************..888889999999************ PP

                              -HHHHHHHHHHHHH CS
                      Fic  84 GNgRtarlllnllL 97 
                              GNgR++r++lnl+L
  PHY93_18570|PHY93_18570 452 GNGRMGRFILNLML 465
                              ***********997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (517 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       641  (0.0357521); expected 358.6 (0.02)
Passed bias filter:                      582  (0.0324614); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.62u 0.28s 00:00:00.90 Elapsed: 00:00:00.46
# Mc/sec: 3367.58
//
Query:       PHY93_18575|PHY93_18575  [L=366]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
     0.0054   16.2   0.0       0.01   15.3   0.0    1.4  1  Peptidase_Mx   Putative zinc-binding metallo-peptidase
  ------ inclusion threshold ------
      0.013   14.9   0.9       0.03   13.7   0.9    1.6  1  Peptidase_Mx1  Putative zinc-binding metallo-peptidase


Domain annotation for each model (and alignments):
>> Peptidase_Mx  Putative zinc-binding metallo-peptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   1.1e-06      0.01     140     173 ..     295     327 ..     288     361 .. 0.77

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 1.1e-06
             Peptidase_Mx 140 eeefvsaYAtaHpwEDwAEtwahylhivdtleta 173
                              +++fvs+Y ++  w+D+AE++a++  i + l + 
  PHY93_18575|PHY93_18575 295 KTDFVSTYSATQIWDDFAESLAYF-TIDQKLASR 327
                              679******************965.555555554 PP

>> Peptidase_Mx1  Putative zinc-binding metallo-peptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.9   3.4e-06      0.03     166     232 ..     292     360 ..     190     363 .. 0.71

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 3.4e-06
            Peptidase_Mx1 166 eankrGfvtayassspeeDfaEvislylteskeevekllakagee..eeeaaegkkklrkKeeivkeYl 232
                              +  k  fv+ y+ ++  +DfaE ++++ + +k     +l++ + +  ++ ++ ++  + +K + +k++l
  PHY93_18575|PHY93_18575 292 SLLKTDFVSTYSATQIWDDFAESLAYFTIDQKLASRYMLNTKQGKyyDSISKLSSPIFATKSQYLKNFL 360
                              377888**************************9999999996433234455555666666666666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (366 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       488  (0.0272185); expected 358.6 (0.02)
Passed bias filter:                      387  (0.0215851); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.55u 0.22s 00:00:00.77 Elapsed: 00:00:00.40
# Mc/sec: 2750.06
//
Query:       PHY93_18580|PHY93_18580  [L=159]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
       0.07   13.0   0.0       0.11   12.3   0.0    1.3  1  Phi-29_GP16_7  Bacteriophage phi-29 early protein GP16.7


Domain annotation for each model (and alignments):
>> Phi-29_GP16_7  Bacteriophage phi-29 early protein GP16.7
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   6.1e-06      0.11      12      63 ..       4      55 ..       1      63 [. 0.93

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 6.1e-06
                             XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXS CS
            Phi-29_GP16_7 12 lcvifllsgrnnkkkqeareledyledlnkrvvqrtqilselnevisnrsid 63
                             l ++f+l g   + k   +++++y +dln    +++ i s++ ++ + r+i+
  PHY93_18580|PHY93_18580  4 LILLFVLVGCAHHEKASDKDIDQYCQDLNVLYQKKAAIESNIANLHTTRTIE 55
                             7789**************************************9999999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (159 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       763  (0.0425568); expected 358.6 (0.02)
Passed bias filter:                      469  (0.0261587); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1175.59
//
Query:       PHY93_18585|PHY93_18585  [L=353]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.1e-06   27.4   0.2       0.05   13.7   0.1    3.2  3  TPR_2          Tetratricopeptide repeat
    2.3e-06   27.2   1.3     0.0096   15.7   0.2    3.3  3  TPR_1          Tetratricopeptide repeat
    5.9e-06   26.1   1.5      0.043   14.0   0.1    3.7  3  TPR_8          Tetratricopeptide repeat
      7e-06   26.2   0.2    0.00039   20.7   0.1    1.9  2  TPR_12         Tetratricopeptide repeat
    0.00013   21.9   0.6    0.00028   20.8   0.6    1.6  1  Peptidase_M10  Matrixin
    0.00042   20.9   0.0        0.5   11.3   0.0    3.1  3  TPR_14         Tetratricopeptide repeat
     0.0011   18.6   0.1       0.52   10.1   0.1    3.0  3  TPR_11         TPR repeat
     0.0029   18.1   0.1      0.042   14.4   0.1    2.6  2  TPR_19         Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.015   15.3   0.0      0.035   14.1   0.0    1.6  1  Peptidase_M54  Peptidase family M54
      0.025   13.5   0.3      0.045   12.7   0.3    1.3  1  Peptidase_M66  Peptidase M66
      0.071   12.7   0.4       0.14   11.7   0.4    1.4  1  Peptidase_M57  Dual-action HEIGH metallo-peptidase
      0.084   13.4   0.4      0.084   13.4   0.4    1.7  1  Reprolysin_3   Metallo-peptidase family M12B Reprolysin-like
       0.11   11.7   2.0       0.58    9.3   2.6    1.9  2  DUF4953        Met-zincin
       0.14   12.3   0.0        2.5    8.2   0.0    2.1  2  Peptidase_M7   Streptomyces extracellular neutral proteinase 
       0.34   11.4   2.4        2.8    8.5   0.1    3.3  3  TPR_17         Tetratricopeptide repeat
        7.2    6.2   6.0        6.9    6.2   3.3    2.2  3  Astacin        Astacin (Peptidase family M12A)


Domain annotation for each model (and alignments):
>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.0       2.1   2.4e+03       3      31 ..     238     266 ..     236     268 .. 0.84
   2 !   13.7   0.1   4.4e-05      0.05       1      30 [.     275     304 ..     275     308 .. 0.92
   3 !    9.9   0.0   0.00077      0.87       5      33 ..     313     342 ..     310     343 .. 0.85

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 2.1
                    TPR_2   3 alynlGlayyklgdyeeAleafekAleld 31 
                              +ly + ++ + +++++  l+  + A+el 
  PHY93_18585|PHY93_18585 238 LLYLISRLERSKNELDNSLKTIDMAIELS 266
                              68889999999999999999999999985 PP

  == domain 2  score: 13.7 bits;  conditional E-value: 4.4e-05
                    TPR_2   1 aealynlGlayyklgdyeeAleafekAlel 30 
                              a++l+  +++y++++d + A + fe++l+l
  PHY93_18585|PHY93_18585 275 AYLLNHKADLYFRKNDIKSATKNFEESLKL 304
                              678999**********************98 PP

  == domain 3  score: 9.9 bits;  conditional E-value: 0.00077
                    TPR_2   5 ynlGlayyklgdy.eeAleafekAleldPn 33 
                               +l+++ + +g+  +eAl+++++Al++ P+
  PHY93_18585|PHY93_18585 313 TYLAQIKILMGESnKEALALLKQALKIKPT 342
                              578888888888889*************98 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0       1.3   1.5e+03      13      31 ..     248     266 ..     246     268 .. 0.84
   2 !   15.7   0.2   8.6e-06    0.0096       1      34 []     275     308 ..     275     308 .. 0.95
   3 !    8.3   0.1    0.0019       2.2      18      34 .]     327     343 ..     324     343 .. 0.93

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 1.3
                              HTT-HHHHHHHHHHHHHHS CS
                    TPR_1  13 klgkydeAleyyekALeln 31 
                              +++++d  l+  + A+el 
  PHY93_18585|PHY93_18585 248 SKNELDNSLKTIDMAIELS 266
                              57899999999999**995 PP

  == domain 2  score: 15.7 bits;  conditional E-value: 8.6e-06
                              HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTH CS
                    TPR_1   1 akalynlGnayfklgkydeAleyyekALelnPnn 34 
                              a+ l+ ++ +yf++++ + A + +e+ L+l P n
  PHY93_18585|PHY93_18585 275 AYLLNHKADLYFRKNDIKSATKNFEESLKLWPGN 308
                              6789**************************9986 PP

  == domain 3  score: 8.3 bits;  conditional E-value: 0.0019
                              HHHHHHHHHHHHHSTTH CS
                    TPR_1  18 deAleyyekALelnPnn 34 
                              +eAl+  ++AL++ P++
  PHY93_18585|PHY93_18585 327 KEALALLKQALKIKPTF 343
                              69*************96 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.0     0.093     1e+02       3      31 ..     238     266 ..     236     268 .. 0.90
   2 !   14.0   0.1   3.9e-05     0.043       3      30 ..     277     304 ..     275     308 .. 0.91
   3 ?    5.7   0.1     0.019        21      17      33 ..     326     342 ..     315     343 .. 0.87

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.093
                              HHHHHHHHHHHTT-HHHHHHHHHHHHHHH CS
                    TPR_8   3 ayynlgsiylklgdyeeAkeyyekaleld 31 
                              ++y+++++ +++++++++ +++  a+el+
  PHY93_18585|PHY93_18585 238 LLYLISRLERSKNELDNSLKTIDMAIELS 266
                              79******************999999987 PP

  == domain 2  score: 14.0 bits;  conditional E-value: 3.9e-05
                              HHHHHHHHHHHTT-HHHHHHHHHHHHHH CS
                    TPR_8   3 ayynlgsiylklgdyeeAkeyyekalel 30 
                              ++++++++y+ ++d+++A + +e+ l+l
  PHY93_18585|PHY93_18585 277 LLNHKADLYFRKNDIKSATKNFEESLKL 304
                              6899**********************98 PP

  == domain 3  score: 5.7 bits;  conditional E-value: 0.019
                              HHHHHHHHHHHHHHHHH CS
                    TPR_8  17 yeeAkeyyekaleldpd 33 
                               +eA + +++al+++p+
  PHY93_18585|PHY93_18585 326 NKEALALLKQALKIKPT 342
                              579************96 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.2   0.0   0.00031      0.34       8      74 ..     241     304 ..     236     306 .. 0.82
   2 !   20.7   0.1   3.4e-07   0.00039       5      75 ..     277     340 ..     273     342 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00031
                   TPR_12   8 nlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleealai 74 
                               +  ++r   ++d +l+  + a+e+ +    + +   a  l+  ++ly++ ++ + A + +ee+l++
  PHY93_18585|PHY93_18585 241 LISRLERSKNELDNSLKTIDMAIELSSH---KSNIIKAYLLNHKADLYFRKNDIKSATKNFEESLKL 304
                              6666777778899999999999999944...457999999999999999999*********999987 PP

  == domain 2  score: 20.7 bits;  conditional E-value: 3.4e-07
                   TPR_12   5 alnnlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleealaia 75 
                              +ln+ a++++r  +   A +++e++l ++     p ++lt+t+l  + +l  ++   +eAl+ll++al+i+
  PHY93_18585|PHY93_18585 277 LLNHKADLYFRKNDIKSATKNFEESLKLW-----PGNYLTLTYLAQIKILMGES--NKEALALLKQALKIK 340
                              6778*************************.....77889999999999996555..99**********997 PP

>> Peptidase_M10  Matrixin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.8   0.6   2.5e-07   0.00028      85     157 ..     125     198 ..      87     199 .. 0.76

  Alignments for each domain:
  == domain 1  score: 20.8 bits;  conditional E-value: 2.5e-07
                              TTEEEEETTS-EESSTS-.SSSEEHHHHHHHHHHHHTTBESXS.STTSTTSSS.CT.XTTTXSSXHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxx.xx.xxxxxxxxxxxxxxxxxxx RF
            Peptidase_M10  85 ggdihfdddeqWtlgeekveqgvslflVaaHEiGHalGLeHss.dkdalmypl.yk.eekkvrlskdDvkgiqelY 157
                              g+di +++  +W+  ++    +v+   V +HE+GH+lGL+H   + +++m  l y+  + ++++s  D + +++lY
  PHY93_18585|PHY93_18585 125 GADIFLNSGFKWKHPAS--VGEVDPGKVILHELGHVLGLQHHFfHLNSIMNYLpYEaGDVDLEISIFDKEILEWLY 198
                              55666666666766544..47788899************9975266899965426666667777888888888887 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.0       3.1   3.5e+03       3      30 ..     238     265 ..     236     269 .. 0.79
   2 !   11.3   0.0   0.00044       0.5       8      44 .]     282     318 ..     277     318 .. 0.95
   3 ?    5.5   0.0     0.032        36      18      39 ..     327     348 ..     322     353 .] 0.83

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 3.1
                   TPR_14   3 allalaeallalGdpdeAiallrralal 30 
                              +l+++ ++++   ++d +++  + a++l
  PHY93_18585|PHY93_18585 238 LLYLISRLERSKNELDNSLKTIDMAIEL 265
                              6677777777788999999999999886 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 0.00044
                   TPR_14   8 aeallalGdpdeAiallrralalaPddaeawlllaql 44 
                              a+++++  d + A + +++ l+l+P++  ++++laq+
  PHY93_18585|PHY93_18585 282 ADLYFRKNDIKSATKNFEESLKLWPGNYLTLTYLAQI 318
                              789********************************96 PP

  == domain 3  score: 5.5 bits;  conditional E-value: 0.032
                   TPR_14  18 deAiallrralalaPddaeawl 39 
                              +eA+all++al+  P++  a  
  PHY93_18585|PHY93_18585 327 KEALALLKQALKIKPTFKLAKE 348
                              79*************9887765 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.0       1.6   1.8e+03       4      24 ..     246     266 ..     244     268 .. 0.79
   2 ?    4.9   0.0     0.019        21       2      27 ..     283     308 ..     282     323 .. 0.85
   3 !   10.1   0.1   0.00046      0.52      10      26 ..     326     342 ..     323     345 .. 0.90

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 1.6
                   TPR_11   4 yyeqGkyeeAieaYkkAlkld 24 
                               +++++++++++    A++l+
  PHY93_18585|PHY93_18585 246 ERSKNELDNSLKTIDMAIELS 266
                              68999**99999877777775 PP

  == domain 2  score: 4.9 bits;  conditional E-value: 0.019
                   TPR_11   2 dayyeqGkyeeAieaYkkAlkldPdn 27 
                              d+y+ +++++ A +++++ lkl P n
  PHY93_18585|PHY93_18585 283 DLYFRKNDIKSATKNFEESLKLWPGN 308
                              89*******************97765 PP

  == domain 3  score: 10.1 bits;  conditional E-value: 0.00046
                   TPR_11  10 yeeAieaYkkAlkldPd 26 
                              ++eA++ +k+Alk++P+
  PHY93_18585|PHY93_18585 326 NKEALALLKQALKIKPT 342
                              68**************7 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.0       2.1   2.4e+03      12      51 ..     221     262 ..     211     268 .. 0.77
   2 !   14.4   0.1   3.8e-05     0.042       5      57 ..     289     342 ..     285     350 .. 0.88

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 2.1
                   TPR_19  12 alleqalqedpk..naearllLAeallalgqldeAealLdal 51 
                              +ll++ +++  k  + ++++l  ++  + ++ld   +++d +
  PHY93_18585|PHY93_18585 221 ELLKKKYTDFSKitDVNLLYLISRLERSKNELDNSLKTIDMA 262
                              678888888888667777777799999999999888888876 PP

  == domain 2  score: 14.4 bits;  conditional E-value: 3.8e-05
                   TPR_19   5 gdyaeAlalleqalqedpknaearllLAeallalgq.ldeAealLdalpeedpd 57 
                              +d  +A + +e+ l+  p+n   + +LA++ + +g+  +eA alL+++++ +p 
  PHY93_18585|PHY93_18585 289 NDIKSATKNFEESLKLWPGNYLTLTYLAQIKILMGEsNKEALALLKQALKIKPT 342
                              68999*****************************883579********998875 PP

>> Peptidase_M54  Peptidase family M54
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   3.2e-05     0.035     147     187 ..     149     192 ..     148     198 .. 0.78

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 3.2e-05
                              HHHHHHHHHHTT----S-..TSTTS-.-SSHHHHHHS-SS--HH CS
            Peptidase_M54 147 kevlhelGhlyGLshCke..dCvmnf.sndlkdvDrkapkyCks 187
                              k +lhelGh++GL h     + +mn+ + +  dvD+  + + k+
  PHY93_18585|PHY93_18585 149 KVILHELGHVLGLQHHFFhlNSIMNYlPYEAGDVDLEISIFDKE 192
                              679**********99643359***96588899999887777666 PP

>> Peptidase_M66  Peptidase M66
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.3     4e-05     0.045     186     226 ..     141     181 ..     137     188 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 4e-05
            Peptidase_M66 186 vtgdatltgefiHEqGHalGLpHylageaaskgsypyaegs 226
                              ++g+   +++ +HE+GH lGL H+    +    + py+ g+
  PHY93_18585|PHY93_18585 141 SVGEVDPGKVILHELGHVLGLQHHFFHLNSIMNYLPYEAGD 181
                              68888999999************776656665677887775 PP

>> Peptidase_M57  Dual-action HEIGH metallo-peptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.4   0.00013      0.14     135     156 ..     149     170 ..     140     173 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00013
            Peptidase_M57 135 hvithelGhtvGlRhsDyynrs 156
                               vi helGh++Gl h  ++ +s
  PHY93_18585|PHY93_18585 149 KVILHELGHVLGLQHHFFHLNS 170
                              59*************8776555 PP

>> Reprolysin_3  Metallo-peptidase family M12B Reprolysin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.4   7.5e-05     0.084     108     124 .]     144     164 ..     112     164 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 7.5e-05
             Reprolysin_3 108 a....dtvaHEiGHnfganHt 124
                                   +++ HE+GH +g++H+
  PHY93_18585|PHY93_18585 144 EvdpgKVILHELGHVLGLQHH 164
                              2344799*************6 PP

>> DUF4953  Met-zincin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -4.0   0.0       5.8   6.5e+03     220     251 ..      93     124 ..      87     135 .. 0.76
   2 ?    9.3   2.6   0.00052      0.58      16      31 ..     150     165 ..     148     166 .. 0.91

  Alignments for each domain:
  == domain 1  score: -4.0 bits;  conditional E-value: 5.8
                  DUF4953 220 yepvpkekQkeAldfllkevfepdalatpewl 251
                              + +++k  +  Al+ + ++++++++++ + w+
  PHY93_18585|PHY93_18585  93 CVVLEKHSKYLALSGVEDYALTKQDFKHDYWV 124
                              55667777777899999999999999888887 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.00052
                  DUF4953  16 vvaHEvGhtLGLrhNf 31 
                              v+ HE Gh+LGL+h f
  PHY93_18585|PHY93_18585 150 VILHELGHVLGLQHHF 165
                              899***********87 PP

>> Peptidase_M7  Streptomyces extracellular neutral proteinase (M7) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   0.0       0.2   2.3e+02       4      30 ..      47      73 ..      44      93 .. 0.80
   2 ?    8.2   0.0    0.0022       2.5      75      96 ..     144     165 ..     108     173 .. 0.85

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.2
             Peptidase_M7  4 vtydasaapsfrsqiarsasiwnsavs 30
                             ++ +as  p f+  + +  + wns+  
  PHY93_18585|PHY93_18585 47 IYASASLPPRFKVLLNEEIQKWNSSFK 73
                             68899999****************974 PP

  == domain 2  score: 8.2 bits;  conditional E-value: 0.0022
             Peptidase_M7  75 qydstrvtahetghvlglpdty 96 
                              + d  +v  he ghvlgl  ++
  PHY93_18585|PHY93_18585 144 EVDPGKVILHELGHVLGLQHHF 165
                              678899************9987 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.0      0.72     8e+02      13      32 ..     275     294 ..     261     296 .. 0.76
   2 ?    8.5   0.1    0.0025       2.8       2      28 ..     298     324 ..     297     331 .. 0.85
   3 ?   -2.6   0.0       8.6   9.6e+03       1      11 [.     332     342 ..     332     343 .. 0.84

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.72
                   TPR_17  13 adaynnLAelllknGdlmtA 32 
                              a+++n +A l+ +++d + A
  PHY93_18585|PHY93_18585 275 AYLLNHKADLYFRKNDIKSA 294
                              889999*****999987655 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.0025
                   TPR_17   2 ylkaleldPnnadaynnLAelllknGd 28 
                              ++++l+l P n   +++LA++    G+
  PHY93_18585|PHY93_18585 298 FEESLKLWPGNYLTLTYLAQIKILMGE 324
                              89******************9766665 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 8.6
                   TPR_17   1 lylkaleldPn 11 
                              l+++al++ P+
  PHY93_18585|PHY93_18585 332 LLKQALKIKPT 342
                              5789***9998 PP

>> Astacin  Astacin (Peptidase family M12A)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.0       1.3   1.4e+03       2      34 ..      39      71 ..      38      95 .. 0.83
   2 ?    6.2   3.3    0.0061       6.9      82      96 ..     150     164 ..     144     170 .. 0.89
   3 ?   -2.4   0.1       2.7     3e+03     136     149 ..     166     179 ..     164     186 .. 0.81

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 1.3
                             S-GCCEEEEEE-TTS-HHHHHHHHHHHHHHHHH CS
                  Astacin  2 kwpeakipYeldesleekeraaikkaleeyekk 34
                             kw++ +ip + + sl  + + ++++ +++++++
  PHY93_18585|PHY93_18585 39 KWKNLPIPIYASASLPPRFKVLLNEEIQKWNSS 71
                             799999999999999999999999999999876 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.0061
                              HHHHHHHHHHTB--G CS
                  Astacin  82 iivHElmHalGffHe 96 
                              +i HEl+H+lG+ H 
  PHY93_18585|PHY93_18585 150 VILHELGHVLGLQHH 164
                              89**********996 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 2.7
                              --TT-TTS--TTTT CS
                  Astacin 136 YdygSimhYakkaf 149
                              + ++Sim Y ++++
  PHY93_18585|PHY93_18585 166 FHLNSIMNYLPYEA 179
                              6789*****98876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (353 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       598  (0.0333538); expected 358.6 (0.02)
Passed bias filter:                      391  (0.0218082); expected 358.6 (0.02)
Passed Vit filter:                        72  (0.00401584); expected 17.9 (0.001)
Passed Fwd filter:                        16  (0.000892409); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              16  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.40
# Mc/sec: 2680.63
//
Query:       PHY93_18590|PHY93_18590  [L=277]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      3e-33  115.3   0.0    4.8e-33  114.7   0.0    1.3  1  LCM       Leucine carboxyl methyltransferase
  ------ inclusion threshold ------
      0.023   15.3   0.0      0.042   14.4   0.0    1.4  1  SAS-6_N   Centriolar protein SAS N-terminal


Domain annotation for each model (and alignments):
>> LCM  Leucine carboxyl methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  114.7   0.0   5.3e-37   4.8e-33       4     183 ..      14     174 ..      11     178 .. 0.90

  Alignments for each domain:
  == domain 1  score: 114.7 bits;  conditional E-value: 5.3e-37
                              HHHHHHHHHHHHHHTSSHTCCCCCCCHHHHHHHHCHCCCHCHHCHGCHCCCCT--HHHHHHHHHHHHHHHHHHHHHHHCTTESEEE CS
                      LCM   4 vaaaralesrraadglidDplaeslvsaaglellerkadkelekekeeekkekkapelnrgiavRtrffddllkaalsaagirqvV 89 
                              v   ra es+r+ d l++Dp+a+ l  ++g+++                ++ + ++ ++ ++++Rtr++d++++++l ++g++ ++
  PHY93_18590|PHY93_18590  14 VGIFRAQESNRK-DALFKDPFAALLTAEKGQDI----V-----------DHVSGSRYVSWTVVIRTRVIDEMINSFL-SEGVDTII 82 
                              566899****99.****************9986....1...........223468999999****************.6******* PP

                              EET-TT--HHHHHHHTTTEEEEEEE-HHHHHHHHHHHHHSHHHHHEECSEEE--TTSHHHHHHHHHHTT-TTSEEEEEEESSGGGS CS
                      LCM  90 iLGAGlDtrayRlpwlaglkvfEvDqpevlefKretlkelgaepkaelryvpvDlrdddwpeaLaaagfdpekptawvaeGvlvYL 175
                              +LGAGlDtr+yRl+ +a+l+++EvD+p ++efK+e+lk  +++p+++l+ v++Dl +++ ++   ++  +++k+ +++ eGv++YL
  PHY93_18590|PHY93_18590  83 NLGAGLDTRPYRLELPASLRWIEVDYPHLIEFKEEKLK--KEKPNCHLERVSLDLANQEERQIFFSKVNSQAKKVLILTEGVIPYL 166
                              *************************************8..56789***********88888888888777899999999******* PP

                              -HHHHHHH CS
                      LCM 176 tpeasdal 183
                              ++e++++l
  PHY93_18590|PHY93_18590 167 SEEQVSSL 174
                              *****998 PP

>> SAS-6_N  Centriolar protein SAS N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0   4.7e-06     0.042       2      60 ..     175     235 ..     174     259 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 4.7e-06
                              EEEEEETTEEEEEEEEEEEHHHHHHHHHHCTB.-S-CCCHHHHHHHHHHHHHHS....SSE CS
                  SAS-6_N   2 rieltdenDlfflytleiseedFeelkeeqnL.lvdFaeFpsklikllnscqkp.ekkkyl 60 
                               i l  +n++ f  t   s+e +++l++++++ +  F+ Fp++   ++n+c+ +  + +yl
  PHY93_18590|PHY93_18590 175 AIDLHTQNNFSFWITEYHSHEMYRNLRKSKEMgNAPFQFFPEHWLAFFNECSWKaREIHYL 235
                              689999************************99567****************6654454554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (277 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       454  (0.0253221); expected 358.6 (0.02)
Passed bias filter:                      345  (0.0192426); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.21s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 2065.90
//
Query:       PHY93_18595|PHY93_18595  [L=219]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.3e-70  234.7   0.0    7.2e-70  234.5   0.0    1.0  1  DUF2239          Uncharacterized protein conserved in bacteri
  ------ inclusion threshold ------
       0.13   11.9   0.0       0.22   11.1   0.0    1.3  1  PGP_phosphatase  Mitochondrial PGP phosphatase


Domain annotation for each model (and alignments):
>> DUF2239  Uncharacterized protein conserved in bacteria (DUF2239)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  234.5   0.0   8.1e-74   7.2e-70       1     184 []      34     214 ..      34     214 .. 0.98

  Alignments for each domain:
  == domain 1  score: 234.5 bits;  conditional E-value: 8.1e-74
                  DUF2239   1 sytaFegerrlasgelaevalavkaaleeaaeaavlvfddatgrsvdldlrgseeevlarlaaaaaeeeeeeaeekrgrGRPkLGv 86 
                              +ytaFeg++++ +g+l++v+l++k++l +++++++l+f +++g+++d++++g+e++v++rl+      +ee+++e+ g+GRPkLGv
  PHY93_18595|PHY93_18595  34 TYTAFEGNKQIFQGPLSDVVLKIKKRLGKEENSSILIFSNSSGKTIDFNFHGHERDVQRRLE---VYVTEEAPTENTGPGRPKLGV 116
                              69**********************************************************96...56778889999********** PP

                  DUF2239  87 vaREvtLLprhWeWLaaqpgGaSvaLRkLvdearraeaekdraraaqeaayrfmsalaGdlpgfEeasRaLfakdaarleeliaaW 172
                              ++RE++LLprhWeWLa+q gG+S++LR+Lv+ea++++a+ ++ ++aqe++y+fmsa+aGd +g+Eea RaL+ kd++++ ++i++W
  PHY93_18595|PHY93_18595 117 ISREISLLPRHWEWLATQTGGTSATLRNLVEEAKKKSANGNQIKQAQERTYKFMSAIAGDFEGYEEALRALYKKDKKNFLAQIQSW 202
                              ************************************************************************************** PP

                  DUF2239 173 padvrahalkla 184
                              p dv++ha ++a
  PHY93_18595|PHY93_18595 203 PCDVKDHAIEMA 214
                              ********9887 PP

>> PGP_phosphatase  Mitochondrial PGP phosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   2.4e-05      0.22      75     110 ..      63      99 ..      32     108 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 2.4e-05
          PGP_phosphatase  75 ypeksilivSNsaGssddkdaekae.alekktgipVl 110
                                ++sili+SNs+G + d +++  e  +++++++ V 
  PHY93_18595|PHY93_18595  63 EENSSILIFSNSSGKTIDFNFHGHErDVQRRLEVYVT 99 
                              34569************99988665168888888775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (219 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       730  (0.0407162); expected 358.6 (0.02)
Passed bias filter:                      536  (0.0298957); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.39
# Mc/sec: 1695.83
//
Query:       PHY93_18600|PHY93_18600  [L=59]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (59 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       380  (0.0211947); expected 358.6 (0.02)
Passed bias filter:                      309  (0.0172346); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.21s 00:00:00.60 Elapsed: 00:00:00.38
# Mc/sec: 462.31
//
Query:       PHY93_16560|PHY93_16560  [L=140]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.2e-08   35.0  12.2    2.4e-08   34.0  12.3    1.6  1  Pentapeptide_4  Pentapeptide repeats (9 copies)
    1.2e-07   31.7  20.4    2.5e-06   27.5  12.9    2.2  2  Pentapeptide_3  Pentapeptide repeats (9 copies)
      1e-05   25.0   7.9    0.00023   20.7   8.9    2.2  2  Pentapeptide    Pentapeptide repeats (8 copies)


Domain annotation for each model (and alignments):
>> Pentapeptide_4  Pentapeptide repeats (9 copies)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.0  12.3   4.1e-12   2.4e-08       3      67 ..      49     113 ..      42     130 .. 0.87

  Alignments for each domain:
  == domain 1  score: 34.0 bits;  conditional E-value: 4.1e-12
           Pentapeptide_4   3 ftrcsfnncklsnvnFsearlrdcnFtecrlsnvnFdecnlsdvdfaevdlkrasFsgcnlknvn 67 
                              f+++ f+nc++ ++++ ++ +++c F +c+++  +F++cn+++++++++ +  ++++ +++ ++ 
  PHY93_16560|PHY93_16560  49 FQDVIFENCTFFGTSLDNCLFINCLFLNCKFQFSRFSDCNFESTSWENCMWGLTALKDSEIMQSD 113
                              89999999999999999999999999999999999999999999999999999999998887664 PP

>> Pentapeptide_3  Pentapeptide repeats (9 copies)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.8   2.9e-06     0.017      23      47 ..      44      67 ..      38      67 .. 0.79
   2 !   27.5  12.9   4.2e-10   2.5e-06       1      47 [.      54      97 ..      54      98 .. 0.96

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 2.9e-06
           Pentapeptide_3 23 FsnadFgsadFsgarFtgdvdFsga 47
                              ++ +F+++ F++++F  +++++++
  PHY93_16560|PHY93_16560 44 LKEVVFQDVIFENCTFF-GTSLDNC 67
                             57788999999999999.9999887 PP

  == domain 2  score: 27.5 bits;  conditional E-value: 4.2e-10
           Pentapeptide_3  1 FsganFsgaadFrgatFsgaasFsnadFgsadFsgarFtgdvdFsga 47
                             F++++F g+ +++++ F+++  F n+ F+ ++Fs+++F+  ++ +++
  PHY93_16560|PHY93_16560 54 FENCTFFGT-SLDNCLFINCL-FLNCKFQFSRFSDCNFE-STSWENC 97
                             9********.**********7.****************9.9999998 PP

>> Pentapeptide  Pentapeptide repeats (8 copies)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.7   0.0   0.00022       1.3      18      39 ..      39      60 ..      36      61 .. 0.74
   2 !   20.7   8.9   3.9e-08   0.00023       2      39 ..      53      90 ..      53      91 .. 0.97

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 0.00022
                             CESEEECT-B-TT-EECCEEEC CS
             Pentapeptide 18 lsgAnLtgAnlsgAdLsganLs 39
                             lsg+ L ++ +++  ++++ + 
  PHY93_16560|PHY93_16560 39 LSGSLLKEVVFQDVIFENCTFF 60
                             7777888888888888888775 PP

  == domain 2  score: 20.7 bits;  conditional E-value: 3.9e-08
                             B-TT-B-CCSCCEECCCESEEECT-B-TT-EECCEEEC CS
             Pentapeptide  2 nLsgAnLsganLsganlsgAnLtgAnlsgAdLsganLs 39
                             +++++ + g++L+++ + ++ + ++ ++++++s++n++
  PHY93_16560|PHY93_16560 53 IFENCTFFGTSLDNCLFINCLFLNCKFQFSRFSDCNFE 90
                             599**********************************6 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (140 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       369  (0.0205812); expected 358.6 (0.02)
Passed bias filter:                      220  (0.0122706); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 1085.66
//
Query:       PHY93_18605|PHY93_18605  [L=139]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.12   12.0   0.1       0.22   11.2   0.1    1.4  1  KRAB      KRAB box


Domain annotation for each model (and alignments):
>> KRAB  KRAB box
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.1   1.2e-05      0.22       7      39 ..      60      92 ..      55      94 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 1.2e-05
                     KRAB  7 VaVdFtqeEWelLdpaQreLYrdVMlEnyrnlv 39
                              a+ F +eE ++L+ + r + +d M E  + ++
  PHY93_18605|PHY93_18605 60 LAIQFKEEEAQYLNLDPRLFNHDNMSEESKAVL 92
                             69***********************99877665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (139 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       360  (0.0200792); expected 358.6 (0.02)
Passed bias filter:                      301  (0.0167884); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1043.41
//
Query:       PHY93_18610|PHY93_18610  [L=199]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (199 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       387  (0.0215851); expected 358.6 (0.02)
Passed bias filter:                      341  (0.0190195); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.42
# Mc/sec: 1437.77
//
Query:       PHY93_18615|PHY93_18615  [L=222]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.4e-13   48.4   0.0      1e-12   48.0   0.0    1.2  1  DUF2064   Uncharacterized protein conserved in bacteria (DUF2


Domain annotation for each model (and alignments):
>> DUF2064  Uncharacterized protein conserved in bacteria (DUF2064)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.0   0.0   5.6e-17     1e-12      13     123 .]      55     164 ..      41     164 .. 0.85

  Alignments for each domain:
  == domain 1  score: 48.0 bits;  conditional E-value: 5.6e-17
                              EEEEE----TTHHHHHHHH-TTSEEEE--SSSHHHHHHHHHHHHHHTT-SEEEEE-SS-TT--HHHHHHHHHHTTT-...SEEEEE CS
                  DUF2064  13 vvlaldgaldkalaeqlalakglevlpQqggdlgeRlarafdrafeageepvlliGsDcpqltaalleqAfeaLeea...daVlgp 95 
                              ++++++ a  + l++  +l +++e +pQ++g lgeRl+ + d++  + + +v+ iG+D+p+l+   +++ +++L+++   ++ lg 
  PHY93_18615|PHY93_18615  55 LKIYWAVAEVEGLEK--DLWNDFETIPQGDGTLGERLSFVYDQI-LNIHHSVCFIGADSPHLDYLEISNYISTLRKSspqKFLLGE 137
                              555555555555555..67789**********************.77778**************************988888**** PP

                              BTTSSEEEEEEEG-G...GGGTT--TTT CS
                  DUF2064  96 aeDGGYyllGlkkrlapaelFegvpwst 123
                              ++DGG+y +G + +  p+e+ + v +st
  PHY93_18615|PHY93_18615 138 TSDGGFYFFGGS-QSIPKEIWTAVHYST 164
                              ************.566779999999997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (222 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       386  (0.0215294); expected 358.6 (0.02)
Passed bias filter:                      345  (0.0192426); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.42
# Mc/sec: 1604.80
//
Query:       PHY93_18620|PHY93_18620  [L=344]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-30  106.5   0.0    1.9e-30  105.6   0.0    1.4  1  Methyltransf_31  Methyltransferase domain
    2.7e-18   66.4   0.0    7.1e-18   65.1   0.0    1.7  1  Methyltransf_25  Methyltransferase domain
    5.5e-18   65.4   0.0    1.4e-17   64.1   0.0    1.7  1  Methyltransf_11  Methyltransferase domain
    7.7e-13   48.3   0.0    1.4e-12   47.4   0.0    1.3  1  Ubie_methyltran  ubiE/COQ5 methyltransferase family
    3.3e-12   46.6   0.0    5.3e-12   45.9   0.0    1.3  1  Methyltransf_23  Methyltransferase domain
    7.2e-09   36.3   0.0    1.8e-08   35.0   0.0    1.7  1  Methyltransf_12  Methyltransferase domain
    8.1e-08   32.3   0.1    2.2e-07   30.9   0.1    1.7  1  PCMT             Protein-L-isoaspartate(D-aspartate) O-methyl
    2.8e-05   23.8   0.0    7.5e-05   22.4   0.0    1.7  1  DOT1             Histone methylation protein DOT1
    0.00051   19.5   0.0    0.00083   18.8   0.0    1.2  1  PrmA             Ribosomal protein L11 methyltransferase (Prm
     0.0026   17.9   0.0     0.0069   16.5   0.0    1.7  1  FtsJ             FtsJ-like methyltransferase
      0.008   16.0   0.1      0.018   14.9   0.0    1.7  2  Methyltransf_8   Hypothetical methyltransferase
  ------ inclusion threshold ------
       0.02   14.2   0.0      0.032   13.5   0.0    1.3  1  CMAS             Mycolic acid cyclopropane synthetase
      0.032   14.2   0.0      0.055   13.5   0.0    1.4  1  Methyltransf_32  Methyltransferase domain
      0.048   13.2   0.0      0.071   12.6   0.0    1.3  1  Methyltransf_5   MraW methylase family


Domain annotation for each model (and alignments):
>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  105.6   0.0   1.5e-33   1.9e-30       3     137 ..      63     213 ..      61     240 .. 0.90

  Alignments for each domain:
  == domain 1  score: 105.6 bits;  conditional E-value: 1.5e-33
          Methyltransf_31   3 kglrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielAre....naqklgld..nveFeqgdieelekl.ledekfDlilsn 81 
                              kg++vlDlG+G+G++++ l +++g+ ++v+G+D++ e ie+A++    +++k g++  nv+F +g ie+le+  ++ +++D+++sn
  PHY93_18620|PHY93_18620  63 KGMTVLDLGSGSGRDCYILSKLVGESGRVIGVDMTDEQIEVAKKytdyHSEKFGYSksNVQFIKGYIEDLEEIgIASNSIDVVISN 148
                              79************************************************************************************ PP

          Methyltransf_31  82 evlnaladpdkileeiervlkpggilliedprllaelpakveeeskay.evvegak........i 137
                              +v+n+ +++d ++ ei+rvlkpgg+l  +d+   ++ p+k+ ++s +  e+++ga         +
  PHY93_18620|PHY93_18620 149 CVINLSPAKDRVFSEIFRVLKPGGELFFSDVFSSRRIPQKLVQDSVLMgECLSGALysedfrrlM 213
                              ********************************999999888888886678887777444444441 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.1   0.0   5.6e-21   7.1e-18       1      97 []      67     172 ..      67     172 .. 0.84

  Alignments for each domain:
  == domain 1  score: 65.1 bits;  conditional E-value: 5.6e-21
                              EEEET-TTSHHHHHHHCTST.SSEEEEEESSHHHHHHHHHHHHH..TTT.....TEEEEESBCCGBS...SSTTTEEEEEEEST.G CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrlg.kakvtgvDiseemleaareraee..egl.....nvefvqgdaedlp...fedgsfDlvvssga.l 74 
                              vLdlG G+Gr++  l+k +g +++v+gvD+++e++e a++  +   e++     nv+f++g +edl+    +++s+D+v+s ++ +
  PHY93_18620|PHY93_18620  67 VLDLGSGSGRDCYILSKLVGeSGRVIGVDMTDEQIEVAKKYTDYhsEKFgysksNVQFIKGYIEDLEeigIASNSIDVVIS-NCvI 151
                              9******************779*****************766554433355667******99999884436**********.5736 PP

                              GGSSHHHHHHHHHHHHHHEEEEE CS
          Methyltransf_25  75 hhlsdedlekalkeiarvLkpgG 97 
                              ++ +    +++++ei+rvLkpgG
  PHY93_18620|PHY93_18620 152 NLSP--AKDRVFSEIFRVLKPGG 172
                              6544..5579************9 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.1   0.0   1.1e-20   1.4e-17       1      96 []      68     176 ..      68     176 .. 0.90

  Alignments for each domain:
  == domain 1  score: 64.1 bits;  conditional E-value: 1.1e-20
                              EEET-TTSHHHHHHHHTT...SEEEEEES-HHHHHHHHHHCCHHT-.......EEEETTEECCC...TSS-TT-EEEEEEES-CCC CS
          Methyltransf_11   1 LdvGcGtGrlaealakrg...arvvgvDlskemlklakekaseegl.......kvefvvadaek...lpfednsfDlvvssevlhh 73 
                              Ld+G+G+Gr +  l k +   +rv+gvD+++e++++ak+ +    +       +v+f+++ +e+   + +++ns+D+v+s+ v++ 
  PHY93_18620|PHY93_18620  68 LDLGSGSGRDCYILSKLVgesGRVIGVDMTDEQIEVAKKYTDYHSEkfgysksNVQFIKGYIEDleeIGIASNSIDVVISNCVINL 153
                              8**************8878999***************98887777778999999999887777622267***************** PP

                              -CCHHHHHHHHHHHEEEEEEEEE CS
          Methyltransf_11  74 vedpekalkeiaRvLkpgGllvi 96 
                               +  +++++ei RvLkpgG l++
  PHY93_18620|PHY93_18620 154 SPAKDRVFSEIFRVLKPGGELFF 176
                              *******************9987 PP

>> Ubie_methyltran  ubiE/COQ5 methyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.4   0.0   1.1e-15   1.4e-12      45     151 ..      61     176 ..      55     192 .. 0.82

  Alignments for each domain:
  == domain 1  score: 47.4 bits;  conditional E-value: 1.1e-15
                              S--TTEEEEES-TT-HHHHHHHHHHHHHHEEEEEES-HHHHHHHHHHHHHHTSS......TEEEEE--TTT-TTS-...T-EEEEE CS
          Ubie_methyltran  45 vkrgakvlDvagGtgDlafklsdsvgekgkvvvlDinenmLkvgekklkeegki......nieflqanaeeLpfed...dsfDvvt 121
                              +++g +vlD+ +G+g   + ls+ vge+g+v+++D+ ++ ++v++k    ++ +      n++f+++  e+L++     +s Dvv 
  PHY93_18620|PHY93_18620  61 ELKGMTVLDLGSGSGRDCYILSKLVGESGRVIGVDMTDEQIEVAKKYTDYHSEKfgysksNVQFIKGYIEDLEEIGiasNSIDVV- 145
                              57899***************************************9977554433344488**********999875444888877. PP

                              EES-GGG-.S-HHHHHHHHHHHEEEEEEEEE CS
          Ubie_methyltran 122 vsfGlrnv.tDklkaLkeayrvlkpGGrlvv 151
                              +s  + n+ + k++++ e++rvlkpGG+l+ 
  PHY93_18620|PHY93_18620 146 ISNCVINLsPAKDRVFSEIFRVLKPGGELFF 176
                              5666666526899**************9975 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.9   0.0   4.2e-15   5.3e-12      21     161 ..      62     219 ..      33     223 .. 0.76

  Alignments for each domain:
  == domain 1  score: 45.9 bits;  conditional E-value: 4.2e-15
          Methyltransf_23  21 raggrvLdiGcGtGillevlren.gf..svtgvDlspeaveiae............kakkaqkdqfdeqeaae...pqgkfdlIvl 88 
                               +g+ vLd+G G+G+ + +l++  g    v+gvD+ +e++e a+            ++++ q+ + + ++ +e    ++++d++++
  PHY93_18620|PHY93_18620  62 LKGMTVLDLGSGSGRDCYILSKLvGEsgRVIGVDMTDEQIEVAKkytdyhsekfgySKSNVQFIKGYIEDLEEigiASNSIDVVIS 147
                              56789***************665266789**************988555555555533333333333333333555777******* PP

          Methyltransf_23  89 revlehvpdppellrqiatllkpgGylllseplaslkedrllldwlylvpagrhi..sffsarslkelleeaGle 161
                              + v++  p   ++++ i++ lkpgG l++s++ +s    ++l +      +g+ +   ++s +++++l+ + +++
  PHY93_18620|PHY93_18620 148 NCVINLSPAKDRVFSEIFRVLKPGGELFFSDVFSSRRIPQKLVQDSV--LMGECLsgALYS-EDFRRLMGQMNCQ 219
                              ********************************888666666555444..444444457888.8888888777765 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.0   0.0   1.4e-11   1.8e-08       1      99 []      68     174 ..      68     174 .. 0.85

  Alignments for each domain:
  == domain 1  score: 35.0 bits;  conditional E-value: 1.4e-11
          Methyltransf_12   1 LeiGcGtGsllrallekl.pdieytgvDispsaiedakek...lakrennnnnnvelealdlldldgg....ssfDlvvasnvlhh 78 
                              L++G+G+G+    l +   +  +++gvD   ++ie ak+    ++++ +++ +nv++ +  ++dl++     +s D+v++++v++ 
  PHY93_18620|PHY93_18620  68 LDLGSGSGRDCYILSKLVgESGRVIGVDMTDEQIEVAKKYtdyHSEKFGYSKSNVQFIKGYIEDLEEIgiasNSIDVVISNCVINL 153
                              8*********99998888999*************55554411144555667889999999988888889***************** PP

          Methyltransf_12  79 lkdirevldnirklLkpgGrl 99 
                               + +++v+++i ++LkpgG l
  PHY93_18620|PHY93_18620 154 SPAKDRVFSEIFRVLKPGGEL 174
                              *******************76 PP

>> PCMT  Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.9   0.1   1.7e-10   2.2e-07      73     131 ..      63     127 ..      59     177 .. 0.80

  Alignments for each domain:
  == domain 1  score: 30.9 bits;  conditional E-value: 1.7e-10
                              TT-EEEEES-TTSHHHHHHHHHHCTTCEEEEEESBHHHHHHHHHHHHHCTTC......SEEEEES CS
                     PCMT  73 kgarvLevGsGsGyltavlarlvgekgrvvsierikelveeakrnlkkldle......nvivvvg 131
                              kg+ vL++GsGsG    +l++lvge+grv++++ + e +e ak+    +  +      nv+++ g
  PHY93_18620|PHY93_18620  63 KGMTVLDLGSGSGRDCYILSKLVGESGRVIGVDMTDEQIEVAKKYTDYHSEKfgysksNVQFIKG 127
                              69***********************************9999999876666556666666666655 PP

>> DOT1  Histone methylation protein DOT1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.4   0.0   5.8e-08   7.5e-05      44     157 ..      65     177 ..      37     194 .. 0.84

  Alignments for each domain:
  == domain 1  score: 22.4 bits;  conditional E-value: 5.8e-08
                              -EEEEES-TTSH.HHHHHHHHH--SEEEEEE--HHHHHHHHHHHHHHHHHHHHTTB----EEEESS-STT-HHHHHHGGG-SEEEE CS
                     DOT1  44 dvFvDLGSGvGn.vvlqaalevgcklsvGvEimdnaselaekqkeelkkrlklfGkklakiefirksFvenekveeiieeadvilv 128
                               + +DLGSG G+ + ++  l  +    +Gv+++d+  e+a+k +++     + fG  +++++fi++   + e++  + ++ dv++ 
  PHY93_18620|PHY93_18620  65 MTVLDLGSGSGRdCYILSKLVGESGRVIGVDMTDEQIEVAKKYTDYH---SEKFGYSKSNVQFIKGYIEDLEEIGIASNSIDVVIS 147
                              5679*******7366666677778899************99887775...568*************99999999999999****** PP

                              --TT--HHHHHHH.HHHHTT--TT-EEEES CS
                     DOT1 129 NNfaFdaelnkql.kellqdlkegtkiisl 157
                              N ++  +  ++++ +e++  lk g+ +  +
  PHY93_18620|PHY93_18620 148 NCVINLSPAKDRVfSEIFRVLKPGGELFFS 177
                              *999888888888799******99876655 PP

>> PrmA  Ribosomal protein L11 methyltransferase (PrmA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.0   6.5e-07   0.00083     160     265 ..      62     183 ..      44     194 .. 0.72

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 6.5e-07
                     PrmA 160 kegeevlDvGtGSGiLa.iaaakLg.akkvvavDiDevAvkvakeNaelN.......kveakleva..lseellk....eekadvi 230
                               +g +vlD+G GSG    i ++++g   +v++vD+ +  ++vak+  ++        k  ++++ +    e+l +    ++++dv+
  PHY93_18620|PHY93_18620  62 LKGMTVLDLGSGSGRDCyILSKLVGeSGRVIGVDMTDEQIEVAKKYTDYHsekfgysK--SNVQFIkgYIEDLEEigiaSNSIDVV 145
                              57889*********755255555552458***************99888755443221..1333211222333324445899**** PP

                     PrmA 231 vaNI...LaevlielaedikklvkeggllilSGilkek 265
                              ++N    L+ +  +  ++i +++k+gg l +S + +++
  PHY93_18620|PHY93_18620 146 ISNCvinLSPAKDRVFSEIFRVLKPGGELFFSDVFSSR 183
                              ***82234456789******************998876 PP

>> FtsJ  FtsJ-like methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   5.4e-06    0.0069      21     101 ..      63     155 ..      45     196 .. 0.82

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 5.4e-06
                              TT-EEEECT-TTSHHHHHHCCT.T.-SEEEEEESSSS.................HHHTTEEEECS-CCCSSHHHHHCHCHHHSSEE CS
                     FtsJ  21 pgktvvDlgaaPGgwsqvllqrlgakgkvvavDlqpm.................aplpgvttiqgditdpetiekikealserkvd 89 
                              +g+tv+Dlg++ G  + +l++ +g++g+v++vD+                       ++v++i+g i d e i   ++      +d
  PHY93_18620|PHY93_18620  63 KGMTVLDLGSGSGRDCYILSKLVGESGRVIGVDMTDEqievakkytdyhsekfgYSKSNVQFIKGYIEDLEEIGIASN-----SID 143
                              789*********************9*********66657888888777764433333899999999999999997775.....689 PP

                              EEEE--S-SS-C CS
                     FtsJ  90 lvvsDgapdvsg 101
                              +v+s  + + s 
  PHY93_18620|PHY93_18620 144 VVISNCVINLSP 155
                              999988866654 PP

>> Methyltransf_8  Hypothetical methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0       3.5   4.4e+03      75     103 ..      66      98 ..      63     107 .. 0.64
   2 !   14.9   0.0   1.4e-05     0.018     112     162 ..     131     182 ..     117     233 .. 0.86

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 3.5
                              -EEEES-TT-H...HH.HH--S-..EEEEESS- CS
           Methyltransf_8  75 vvadlGcGeak...ia.eavrekekvrsfdlva 103
                              +v dlG G  +   i  + v+e+ +v+ +d++ 
  PHY93_18620|PHY93_18620  66 TVLDLGSGSGRdcyILsKLVGESGRVIGVDMTD 98 
                              688999886552224335677777787777765 PP

  == domain 2  score: 14.9 bits;  conditional E-value: 1.4e-05
                              -TTS-S--TT-EEEEEE.ES---SS-HHHHHHHHHHHEEEEEEEEEEEEGGG CS
           Methyltransf_8 112 dlakvPledesvdvavf.clslmgtnladflkeanrvlkvGGllkvaevksr 162
                              dl ++ ++ +s+dv++  c+  ++        e+ rvlk+GG l+ ++v s 
  PHY93_18620|PHY93_18620 131 DLEEIGIASNSIDVVISnCVINLSPAKDRVFSEIFRVLKPGGELFFSDVFSS 182
                              889999*********95477777777788899***************99663 PP

>> CMAS  Mycolic acid cyclopropane synthetase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   2.5e-05     0.032      62     164 ..      63     176 ..      58     199 .. 0.68

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 2.5e-05
                              TT-EEEEES-TTSH...HHHHHHHHH--EEEEEES-HHHHHHHHHHHH....TS-SSS-EEEE.ES-G.GG---......--SEEE CS
                     CMAS  62 pGmtlLdiGcGWGs...lvrraverydvkvvglTlSkeqaklakkrvd....eldlerkvevk.lldy.edlde......kvdrvv 132
                              +Gmt+Ld+G G G    ++ + v +   +v+g+ + +eq ++akk  d    + + + k +v+ +++y edl+e       +d v+
  PHY93_18620|PHY93_18620  63 KGMTVLDLGSGSGRdcyILSKLVGE-SGRVIGVDMTDEQIEVAKKYTDyhseKFGYS-KSNVQfIKGYiEDLEEigiasnSIDVVI 146
                              6************722255666777.789***************9876211133433.3344414566467777766555566666 PP

                              EES-GGGTSGGGHHHHHHHHHHHS-TT-EEEE CS
                     CMAS 133 svgafehvgkenydtffkklkkllkedGllll 164
                              s  +++       d+ f++++++lk++G l  
  PHY93_18620|PHY93_18620 147 SNCVINLSP--AKDRVFSEIFRVLKPGGELFF 176
                              655555433..335677777777777777665 PP

>> Methyltransf_32  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   4.3e-05     0.055      25      80 ..      63     116 ..      38     157 .. 0.80

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 4.3e-05
          Methyltransf_32  25 galtvvDvGaGkgYLsfvlalkekeyklkvvgidakeelvekaekraeklgkkfnk 80 
                              + +tv+D+G+G g    +l+   +  + +v+g+d+ +e +e a+k  +   +kf  
  PHY93_18620|PHY93_18620  63 KGMTVLDLGSGSGRDCYILSK-LVGESGRVIGVDMTDEQIEVAKKYTDYHSEKF-G 116
                              5689*********99999988.55679*****************9988777666.3 PP

>> Methyltransf_5  MraW methylase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   5.5e-05     0.071      27      93 ..      70     137 ..      39     162 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 5.5e-05
                              S--TTSHHHHHHHTT--TT..EEEEEES-HHHHHHHTT.....---EEEEES-GGGHHHHHHHTTTT-E CS
           Methyltransf_5  27 aTlGaggHsealLeqlsel..rligidrDksalarakerLkefekrltlvkgnfkelkealaeanvtkv 93 
                                 G+ g   ++L++l  +  r+ig+d+ ++ +++ak+    + +++ + k+n +++k ++++ +   +
  PHY93_18620|PHY93_18620  70 LGSGS-GRDCYILSKLVGEsgRVIGVDMTDEQIEVAKKYTDYHSEKFGYSKSNVQFIKGYIEDLEEIGI 137
                              44443.455678888765557*****************98888999**************999873333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (344 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       469  (0.0261587); expected 358.6 (0.02)
Passed bias filter:                      398  (0.0221987); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.43
# Mc/sec: 2393.31
//
Query:       PHY93_18625|PHY93_18625  [L=319]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      4e-56  188.8   0.2      4e-56  188.8   0.2    1.6  2  DUF3641      Protein of unknown function (DUF3641)
    1.1e-08   35.6   0.1    4.1e-08   33.8   0.1    1.8  2  Radical_SAM  Radical SAM superfamily
    1.7e-05   25.1   0.1    4.1e-05   23.9   0.1    1.6  1  Fer4_12      4Fe-4S single cluster domain
  ------ inclusion threshold ------
      0.032   14.4   0.0       0.08   13.1   0.0    1.7  1  Fer4_14      4Fe-4S single cluster domain
       0.08   12.7   1.8        2.3    8.0   0.3    3.1  3  S_100        S-100/ICaBP type calcium binding domain
       0.15   12.3   0.0       0.25   11.5   0.0    1.4  1  DUF1779      TATA-box binding


Domain annotation for each model (and alignments):
>> DUF3641  Protein of unknown function (DUF3641)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.1       3.4     1e+04     104     121 ..      16      33 ..      12      40 .. 0.72
   2 !  188.8   0.2   1.3e-59     4e-56       1     135 []     184     319 .]     184     319 .] 0.98

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 3.4
                  DUF3641 104 dlleeelekreiavaehC 121
                              +l +++l++ +i++ ++C
  PHY93_18625|PHY93_18625  16 KLIRKKLSTLQINIGKFC 33 
                              566677888888888888 PP

  == domain 2  score: 188.8 bits;  conditional E-value: 1.3e-59
                  DUF3641   1 lppeqealekeykeelkeefgieFneLftitnlpikrfkevLeskgkleeYlellkeafneetveklmCrsllsvdwdGklydCdf 86 
                              lpp+qe+le++yk+elke f+ieFn+L+titn+pikrf + L ++g++e+Y+ell+++fn+++v+++mCrsl+sv++dG+l+dCdf
  PHY93_18625|PHY93_18625 184 LPPNQEKLEQDYKKELKELFNIEFNNLYTITNMPIKRFLDDLLRQGSFEDYMELLVNNFNAQSVDEVMCRSLISVSHDGELFDCDF 269
                              8************************************************************************************* PP

                  DUF3641  87 nqmlelklkkkekltikdlleee..lekreiavaehCygCtaGaGssCgGa 135
                              nqml+l+l  ++k+ti+d+++ +   e++++++a+hCy+CtaGaGssCgG+
  PHY93_18625|PHY93_18625 270 NQMLNLPL-GNKKRTIWDIETFDsfSEGEKVKTANHCYACTAGAGSSCGGS 319
                              ********.77888*****999878899*********************96 PP

>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.8   0.1   1.4e-11   4.1e-08       1     143 [.      27     165 ..      27     181 .. 0.78
   2 ?   -0.7   0.0      0.53   1.6e+03      77     119 ..     207     249 ..     179     255 .. 0.54

  Alignments for each domain:
  == domain 1  score: 33.8 bits;  conditional E-value: 1.4e-11
                              EEEESEESS--TTTSCCTTHHHHHHHHHHHHHHHHHHHHHHH.HHTTSEEEEEESSTGGGSTTHHHHHHHHHHTCCCTEEEEEEEC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM   1 vvvtrgCnlrCsfCarpetvrregrgrslsveeileevkelk.aekgvkevilgggepllypdfvellerlaklavpgiritvetn 85 
                              ++++++Cnl+C++C++      ++   ++  e+ ++ + +l   +k++ ++ l+gg p l+p+f   + ++++      ++ v +n
  PHY93_18625|PHY93_18625  27 INIGKFCNLACHHCHVEA----GPLRTERMNEKTAKRLIQLIvSSKDITTIDLTGGAPELNPHFRSVVVAAREA---SKEVIVRCN 105
                              68999************6....4555555555555555444435555*****************8888888887...566666666 PP

                              SSCHG...HHHHHHHHHTT-SEEEEEEBSSSHHHHHHHHTCTSHHHHHHHHHHHHHHTTSE CS
                              xxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM  86 gtlpd...eeklerllelgvdrvslgleaaddekvlklmnrghtfeevlealeklreagik 143
                               t++     e  + + + +   v  +l  ++++ + +   +++ f++ +e+l++l+++g  
  PHY93_18625|PHY93_18625 106 ITVLFesgQEDTAYFFKVHNVKVVASLPCYSKKNIEQQR-GRGVFDKSIEGLKILNQLGYG 165
                              55555568999999999999*************999999.77**************99976 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.53
                              TEEEEEEECSSCHGHHHHHHHHHTT..-SEEEEEEBSSSHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxx RF
              Radical_SAM  77 giritvetngtlpdeeklerllelg..vdrvslgleaaddekvlk 119
                                ++  +tn +   +++l+ ll+ g   d+++l ++ ++   v +
  PHY93_18625|PHY93_18625 207 FNNLYTITNMPI--KRFLDDLLRQGsfEDYMELLVNNFNAQSVDE 249
                              333334444444..6777777777766666666666665555555 PP

>> Fer4_12  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.9   0.1   1.4e-08   4.1e-05      15     118 ..      33     131 ..      28     150 .. 0.80

  Alignments for each domain:
  == domain 1  score: 23.9 bits;  conditional E-value: 1.4e-08
                  Fer4_12  15 CnlsCkgCfnketwsfksgkeftkelleeiiedlkk.esiegltllGGEPllpenaeallelvkevkeekpekdiwlytgytleel 99 
                              Cnl+C  C+  e+  + + + +++++++++i+ +   + i+ + l+GG P l   ++ + ++v   +e+  e +i+  + + l+e 
  PHY93_18625|PHY93_18625  33 CNLACHHCH-VEA-GPLRTERMNEKTAKRLIQLIVSsKDITTIDLTGGAPEL---NPHFRSVVVAAREASKE-VIVRCNITVLFES 112
                              *********.444.455667788899999999887625569***********...99******999999985.9*********999 PP

                  Fer4_12 100 skkekeellkeidvlvdGk 118
                               ++++  + k ++v v   
  PHY93_18625|PHY93_18625 113 GQEDTAYFFKVHNVKVVAS 131
                              9999999999998866444 PP

>> Fer4_14  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   2.7e-05      0.08       8      92 ..      33     111 ..      28     133 .. 0.64

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 2.7e-05
                  Fer4_14   8 CnlsCkgCd.nketwkselgkpqteelleqilkdlkkseikiqglvltGGePLhyenkkellklvkrlkeeypekkiwletngtle 92 
                              Cnl+C  C  +    + e  +++t + l q +  ++ ++i    + ltGG P     ++++  +v   +e  +e+ ++++   ++e
  PHY93_18625|PHY93_18625  33 CNLACHHCHvEAGPLRTERMNEKTAKRLIQLI--VSSKDI--TTIDLTGGAPE---LNPHFRSVVVAAREASKEVIVRCNITVLFE 111
                              *********53333444444444444444555..566666..6689******5...357899999999998877777766555555 PP

>> S_100  S-100/ICaBP type calcium binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   0.3   0.00078       2.3      26      41 ..     195     210 ..     195     212 .. 0.91
   2 ?    2.3   0.0     0.046   1.4e+02       2      20 ..     232     250 ..     231     255 .. 0.80
   3 ?   -1.2   0.0      0.58   1.7e+03       9      21 ..     287     299 ..     287     302 .. 0.82

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.00078
                              EHHHHHHHHHHHSTTT CS
                    S_100  26 sKkELkeLlekElpnf 41 
                              +KkELkeL + E+ n+
  PHY93_18625|PHY93_18625 195 YKKELKELFNIEFNNL 210
                              59***********997 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.046
                              HHHHHHHHHHHHHHHTSSS CS
                    S_100   2 EraietiIdvFhkYagkeG 20 
                              E  +e ++++F+  +++e 
  PHY93_18625|PHY93_18625 232 EDYMELLVNNFNAQSVDEV 250
                              778*********9999885 PP

  == domain 3  score: -1.2 bits;  conditional E-value: 0.58
                              HHHHHHHHTSSSS CS
                    S_100   9 IdvFhkYagkeGd 21 
                              I++F+ ++  e+ 
  PHY93_18625|PHY93_18625 287 IETFDSFSEGEKV 299
                              89******98875 PP

>> DUF1779  TATA-box binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   8.3e-05      0.25      92     158 ..     188     259 ..     121     260 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 8.3e-05
                              ...HHHHHHHHHHHHHSS---EEEEEEE.....EE---HHHH.HHHHHHHHHHHH---------BTTEEEEE CS
                  DUF1779  92 leelkekvektlkklfsekpeifsclkG.....efegklseeelekkaekilkeldAkkvEslkeenfvSvs 158
                              +e+l++  +k+lk+lf+ +    + ++       +++ l++  +e+ +e ++++++A++v+++  ++++Svs
  PHY93_18625|PHY93_18625 188 QEKLEQDYKKELKELFNIEFNNLYTITNmpikrFLDDLLRQGSFEDYMELLVNNFNAQSVDEVMCRSLISVS 259
                              4455555555555555555555444444444449************************************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (319 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       790  (0.0440627); expected 358.6 (0.02)
Passed bias filter:                      561  (0.0312901); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.59u 0.24s 00:00:00.83 Elapsed: 00:00:00.45
# Mc/sec: 2144.17
//
Query:       PHY93_18630|PHY93_18630  [L=376]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.1e-59  200.7  24.1    3.6e-59  200.5  24.1    1.0  1  PHO4           Phosphate transporter family
    0.00043   20.0   0.1       0.04   13.7   0.0    2.3  2  HTH_IclR       IclR helix-turn-helix domain
  ------ inclusion threshold ------
       0.15   11.9   0.0         11    5.8   0.0    2.4  2  DUF742         Protein of unknown function (DUF742)
        9.8    6.0  10.1        1.4    8.7   0.2    3.2  3  DUF2427        Domain of unknown function (DUF2427)


Domain annotation for each model (and alignments):
>> PHO4  Phosphate transporter family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  200.5  24.1   8.1e-63   3.6e-59       1     336 [.      17     366 ..      17     367 .. 0.81

  Alignments for each domain:
  == domain 1  score: 200.5 bits;  conditional E-value: 8.1e-63
                     PHO4   1 iGanDvanafatsvgskaltlrqAvilaaifeflGa....vllGaeVaetirkgivdvelfdpselmlgmlaallgaavwlllatv 82 
                              +GanD  + +at  gsk+  +++A+++a++  ++G+    +l+ + +a++ +kg++  +++    l++  ++++l+a + ++lat 
  PHY93_18630|PHY93_18630  17 NGANDNFKGVATLLGSKTTGYKTALMWATVTTLSGSivafFLAEKLMANFSGKGLIPDNII---SLTAFPISIALAASITVFLATR 99 
                              8***********************************6553334456788889999933222...35589999************** PP

                     PHO4  83 lglPvStthslvGaliGaalaaeggeavkwkklvk.ivlswvlsPllggiiaallfllvkrlilvkeklknalralpvlvlvtiai 167
                              +g P+Stth+l+G+l+G++l+a + ++++ +kl +  ++ +++sPl+++++a+ l+ l+k++ + k +++++  ++    ++ ia 
  PHY93_18630|PHY93_18630 100 FGFPISTTHALTGSLVGIGLVA-SENGINFSKLYTsFFAPLMISPLISIVLAVGLYPLFKFARV-KLNVRRESCLCIGNQIIAIAP 183
                              *********************6.4599*9987766489************************55.333333333333333333333 PP

                     PHO4 168 lalsilfkge.......................sk..kddeeteklfkflqvvsaalvsfahGanDvanaiGpllaalisiykask 228
                              + + i  + +                        +  + + ++++++  l+ +s+++vsfa G nD+ ++ ++l++  i       
  PHY93_18630|PHY93_18630 184 ANFPIGANAAtlsvssaccpevsigtdvtceerYNgqVLGIKAKNILDSLHFLSSGAVSFARGLNDTPKIAAILMIGKI------- 262
                              3333333322233333334444444444443331155788889999**************************9966443....... PP

                     PHO4 229 evplwvlllgglaialGlllgGkrviktvGekitkkltpsrGfaaelaaaltvllasklglPvStThvlvgavvGvGlakkresav 314
                               +pl  ++l+++ +++G ll+ k+v ++++ +it+ ++  +Gf+a+l+++l+v++asklg+PvStThv  ga +G+G + +   + 
  PHY93_18630|PHY93_18630 263 VSPLLSIALIAVFMLIGGLLYSKKVAEKMSFDITE-MNDGQGFTANLVTSLIVIFASKLGMPVSTTHVSCGALFGIGSITG---NA 344
                              35********************************5.********************************************5...8* PP

                     PHO4 315 nwklvrnivlaWvlTlpvsall 336
                              +wk + +ivl+W++Tlpv+++l
  PHY93_18630|PHY93_18630 345 HWKSIFKIVLSWIITLPVAIIL 366
                              *******************986 PP

>> HTH_IclR  IclR helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.7   0.0   8.8e-06      0.04      24      49 ..      96     121 ..      95     123 .. 0.94
   2 ?    3.7   0.0     0.012        54      25      39 ..     317     331 ..     317     339 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 8.8e-06
                              HHHHHTS-HHHHHHHHHHHHHTTSEE CS
                 HTH_IclR  24 lArrtglpkStvhRlLqtLvelGyve 49 
                              lA r+g p St+h l+ +Lv  G+v 
  PHY93_18630|PHY93_18630  96 LATRFGFPISTTHALTGSLVGIGLVA 121
                              899*********************96 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.012
                              HHHHTS-HHHHHHHH CS
                 HTH_IclR  25 ArrtglpkStvhRlL 39 
                              A ++g+p St+h  +
  PHY93_18630|PHY93_18630 317 ASKLGMPVSTTHVSC 331
                              6789********655 PP

>> DUF742  Protein of unknown function (DUF742)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   0.0    0.0025        11      61      89 ..      96     124 ..      75     131 .. 0.87
   2 ?    3.4   0.0     0.014        63      61      87 ..     316     342 ..     305     348 .. 0.86

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.0025
                   DUF742  61 laAelklPvgvvrvLlsdLldaglltvra 89 
                              la +  +P+++++ L ++L+  gl+++++
  PHY93_18630|PHY93_18630  96 LATRFGFPISTTHALTGSLVGIGLVASEN 124
                              89999********************9876 PP

  == domain 2  score: 3.4 bits;  conditional E-value: 0.014
                   DUF742  61 laAelklPvgvvrvLlsdLldaglltv 87 
                               a +l +Pv++++v  + L   g++t 
  PHY93_18630|PHY93_18630 316 FASKLGMPVSTTHVSCGALFGIGSITG 342
                              6899***************99999985 PP

>> DUF2427  Domain of unknown function (DUF2427)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   2.5       0.1   4.6e+02      31     101 ..      80     152 ..      75     154 .. 0.77
   2 ?   -2.5   0.0      0.98   4.4e+03      62      80 ..     269     287 ..     255     295 .. 0.48
   3 ?    8.7   0.2   0.00031       1.4      17      41 ..     344     368 ..     335     372 .. 0.87

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.1
                  DUF2427  31 vvyPvalvLslaksrwylpvqi...vnlvlavlglllghiykgstPelypnniyaklswillillavqvvlavl 101
                                +P++++L+++   ++l++ +   ++++ a++g l+g+   +s        +y+++   l+i+ ++ +vlav 
  PHY93_18630|PHY93_18630  80 TAFPISIALAAS-ITVFLATRFgfpISTTHALTGSLVGIGLVASENGINFSKLYTSFFAPLMISPLISIVLAVG 152
                              578999998754.4455666554447788889999999988888855777999999999999999999999985 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 0.98
                  DUF2427  62 lllghiykgstPelypnni 80 
                              ++l ++++     ly++ +
  PHY93_18630|PHY93_18630 269 IALIAVFMLIGGLLYSKKV 287
                              2222333222222444444 PP

  == domain 3  score: 8.7 bits;  conditional E-value: 0.00031
                  DUF2427  17 alwvHiilmtlalvvvyPvalvLsl 41 
                              a w  i+ ++l++++ +Pva++L+ 
  PHY93_18630|PHY93_18630 344 AHWKSIFKIVLSWIITLPVAIILGF 368
                              56777999***************85 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (376 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       724  (0.0403815); expected 358.6 (0.02)
Passed bias filter:                      314  (0.0175135); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.55u 0.22s 00:00:00.77 Elapsed: 00:00:00.40
# Mc/sec: 2788.21
//
Query:       PHY93_18635|PHY93_18635  [L=133]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.17   12.5   5.4       0.18   12.4   3.9    1.7  2  DoxX      DoxX
        1.5    8.7   5.6        2.5    7.9   5.6    1.5  1  DUF4668   Domain of unknown function (DUF4668)


Domain annotation for each model (and alignments):
>> DoxX  DoxX
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   3.9     2e-05      0.18       1      78 [.      12      89 ..      12      96 .. 0.78
   2 ?    3.5   0.0     0.012   1.1e+02       6      48 ..      77     117 ..      76     124 .. 0.71

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 2e-05
                     DoxX  1 lllllRlllgvlfiahGlqkltgfglegtaasla...alglpppellaylaalvElvgglllllGlltRlaAlalavtllv 78
                             +ll+lR+ + +++++  ++k+   + + +a+ ++   ++ l +   l  + +++El++  ++++G+  R++  +++++  +
  PHY93_18635|PHY93_18635 12 GLLFLRISIFLVMFMWTIDKIL--RGSHAAGVFKnfyNIEL-SNGTLMTVLGFLELLLLACFIVGFKKRISYGLVLIFHFI 89
                             69******************99..55555555554449999.6777788889*****************986666665544 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.012
                     DoxX   6 RlllgvlfiahGlqkltgfglegtaaslaalglpppellayla 48 
                              R+  g+++i h ++ +    +++  + ++  gl+  + + +la
  PHY93_18635|PHY93_18635  77 RISYGLVLIFHFISTIS--SFKQYLNPFEGPGLLFFTAWPMLA 117
                              89999*******99999..666666666666666555555555 PP

>> DUF4668  Domain of unknown function (DUF4668)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9   5.6   0.00028       2.5      92     118 ..       8      36 ..       6      99 .. 0.76

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.00028
                  DUF4668  92 klkywLlflllyvslvyslviiqlff..k 118
                              klk  Llfl ++++lv++++ i+ ++   
  PHY93_18635|PHY93_18635   8 KLKLGLLFLRISIFLVMFMWTIDKILrgS 36 
                              899**********************9541 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (133 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       521  (0.0290591); expected 358.6 (0.02)
Passed bias filter:                      224  (0.0124937); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.20s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 994.49
//
Query:       PHY93_18640|PHY93_18640  [L=711]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      1e-57  195.6   0.6    1.5e-57  195.1   0.6    1.2  1  Pyr_redox_2     Pyridine nucleotide-disulphide oxidoreductase
    1.7e-31  108.7   0.0    3.5e-31  107.7   0.0    1.6  1  Pyr_redox_dim   Pyridine nucleotide-disulphide oxidoreductase
    3.8e-24   85.5   8.6    3.8e-24   85.5   8.6    2.4  2  SNARE_assoc     SNARE associated Golgi protein
    1.9e-20   73.2   2.1    1.1e-17   64.3   0.0    2.9  2  Pyr_redox       Pyridine nucleotide-disulphide oxidoreductase
    6.9e-17   61.7   0.7    5.9e-16   58.6   0.7    2.2  1  Pyr_redox_3     Pyridine nucleotide-disulphide oxidoreductase
    2.8e-08   33.3   9.2    0.00026   20.2   4.8    4.0  3  GIDA            Glucose inhibited division protein A
    1.6e-05   25.1   1.4      0.011   16.0   0.5    2.5  2  NAD_binding_8   NAD(P)-binding Rossmann-like domain
    6.9e-05   22.1   0.0    6.9e-05   22.1   0.0    1.8  1  K_oxygenase     L-lysine 6-monooxygenase (NADPH-requiring)
     0.0001   21.2   7.6     0.0012   17.7   0.7    3.6  4  HI0933_like     HI0933-like protein
    0.00015   21.2   0.2       0.28   10.5   0.0    2.3  2  AlaDh_PNT_C     Alanine dehydrogenase/PNT, C-terminal domain
    0.00021   21.2   1.0     0.0013   18.7   0.1    2.2  2  3HCDH_N         3-hydroxyacyl-CoA dehydrogenase, NAD binding 
    0.00029   20.1   0.3    0.00088   18.6   0.1    1.8  2  Thi4            Thi4 family
     0.0024   17.5   1.6       0.46   10.0   0.3    3.5  4  DAO             FAD dependent oxidoreductase
      0.003   17.0   3.9       0.03   13.7   0.3    2.5  3  FAD_oxidored    FAD dependent oxidoreductase
     0.0065   16.9   0.3       0.32   11.5   0.0    2.4  2  NAD_binding_7   Putative NAD(P)-binding
     0.0095   15.1   2.5     0.0096   15.0   0.9    1.8  2  FAD_binding_2   FAD binding domain
  ------ inclusion threshold ------
      0.015   14.7   0.0        0.4   10.0   0.0    2.3  2  2-Hacid_dh_C    D-isomer specific 2-hydroxyacid dehydrogenase
      0.032   13.3   0.5       0.89    8.5   0.0    2.3  2  Lycopene_cycl   Lycopene cyclase protein
      0.043   14.1   1.8       0.17   12.2   0.4    2.7  2  SpoVAB          Stage V sporulation protein AB
       0.11   11.7   2.1        6.7    5.8   0.3    2.2  2  FAD_binding_3   FAD binding domain
       0.13   12.7   0.1        0.5   10.9   0.0    1.9  2  XdhC_C          XdhC Rossmann domain
       0.42    9.4   1.6          2    7.2   0.3    2.1  2  Trp_halogenase  Tryptophan halogenase
       0.65    8.0   8.5       0.92    7.6   8.5    1.1  1  UPF0182         Uncharacterised protein family (UPF0182)
        3.7    7.5  14.3        2.2    8.2   5.6    2.7  2  Colicin_V       Colicin V production protein


Domain annotation for each model (and alignments):
>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  195.1   0.6   2.1e-60   1.5e-57       2     294 .]     242     557 ..     241     557 .. 0.90

  Alignments for each domain:
  == domain 1  score: 195.1 bits;  conditional E-value: 2.1e-60
                              SEEEE--SHHHHHHHHHHHHHTS-EEEEE...TTHCHHHCSHHHHCHHHHHHHHHHHHH........................HHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxx........................xxx RF
              Pyr_redox_2   2 dvvviGgGpAGlaaaltlaqagakvtlve...legtclnggcllskallgvaedaeias........................evv 60 
                              +++viGgG AGl  +  +a+ +akv+lve    +g cln gc++ska+ ++a+ a+i++                        +v+
  PHY93_18640|PHY93_18640 242 NMIVIGGGSAGLVSSYIAAAVKAKVLLVEkhkMGGDCLNTGCVPSKAIIKSAKVANILKhsnefgidakdikidfkkvmervqDVI 327
                              789*************************9999***************************************999986666666444 PP

                              HCHHHH..CCCCHCCTCEEEEESCEEEEETEEECTCEEEEEESEEEE---EEE-BCTCTTC.TTBEECCSECHHHHHHCCSS-TSE CS
                              xxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2  61 kklnqg..ielllgeevvkidpgkkkvklekkkegdeekiaydklvlAtGssprdlgipGvaenvgklvrtldsaealklkllpkr 144
                              +k++ +  +e++ g  +v+  +g + +k   ++e d++ ++ +++v+AtG+ p  ++ipG+       +++l+s + ++l +lp+r
  PHY93_18640|PHY93_18640 328 RKVEPHdsVERFSG-LGVECLKGTAFIKSPYEVEVDGKMFTTKNIVVATGAGPLVPPIPGL-----SEIDYLTSNNVWSLRELPQR 407
                              44444333555555.5666667777777777777999************************.....44589*************** PP

                              EEEES-SHHHHHHHHHHHHHT-EEEEEESSSSSSTTS-HHHHHHHHHHHHHTTEEEEESCEEEEEEETTEEEEEEETTSCE..EEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxx RF
              Pyr_redox_2 145 ivvvGgGyiGvElAaalaklgkevtlveardrllraldkelsaaleealekeGvevklgtsvkeidgngeklevvledgee..ida 228
                              ++v GgG+iG+ElA+ +a+lg++vt ve +++++   d e+s+ ++e++ ++G++v + +++ +id++++ + v + +g+e  i+ 
  PHY93_18640|PHY93_18640 408 LIVLGGGPIGSELAQSFARLGAKVTQVEMAPQIMGREDAEVSKLVTEQFSRDGITVLTSHKALRIDSKNK-ILVCEFQGQEisIEF 492
                              **********************************99******************************9998.666666666666*** PP

                              SEEEE-S-EEES-HHCS.HCCT-EEEETTEEE--TTSBES.STTEEE-GGGCTECCSS--HHHHHHHH CS
                              xxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 229 dlvvvavGvrpstelle.eklglelderggivvdeflrtn.vpgiyaiGDvaggkggpelaqaAvqqG 294
                              d ++va G++++ ++++ e+l++e+ +rg +v de+lrt+  p+iy++GDv+   g ++ +++A  q+
  PHY93_18640|PHY93_18640 493 DKILVALGRKANVKGFGlENLNIEISNRGTVVADEYLRTTnYPNIYVCGDVT---GPYQFTHTAAHQA 557
                              *************************************9866***********...8899999998886 PP

>> Pyr_redox_dim  Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  107.7   0.0   4.7e-34   3.5e-31       1     106 [.     579     684 ..     579     688 .. 0.98

  Alignments for each domain:
  == domain 1  score: 107.7 bits;  conditional E-value: 4.7e-34
                              BEEEEESSSEEEEEES-HHHHHHHHSGEEEEEEEEECGHHHCHTTHTEEEEEEEEETTTTBEEEEEEECTTHHHHHHHHHHHHHTT CS
            Pyr_redox_dim   1 iptvvftdpevasvGlteeeAkaagieikvgkfpfkangralayaetkgfvKlvadaktgkvlGahivGpgageliqelavaikag 86 
                              ip  +f dpeva vGl+e+eAk++gi++++ kf++++++ra+a+ e++gf+K+++++ t+k+lG++ivG++ag++i e+ +a+k+g
  PHY93_18640|PHY93_18640 579 IPWSTFVDPEVARVGLNEKEAKKQGIDYQISKFDIEELDRAIADSEDHGFIKVLTKRGTDKILGVTIVGDHAGDIIGEYVQAMKYG 664
                              7999********************************************************************************** PP

                              SBHHHHHTSBSSSSSTGGGG CS
            Pyr_redox_dim  87 ltvedladtihihPtlseal 106
                              l ++++  tihi+Ptl+e+ 
  PHY93_18640|PHY93_18640 665 LGMNKILGTIHIYPTLAESN 684
                              *****************975 PP

>> SNARE_assoc  SNARE associated Golgi protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.1         3   2.2e+03      36      80 ..      20      64 ..       8      69 .. 0.52
   2 !   85.5   8.6   5.1e-27   3.8e-24       2     118 ..      71     186 ..      70     188 .. 0.93

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 3
              SNARE_assoc 36 llgrylgrkalrrkllsekrvka....lerlverygflallllrllpiv 80
                             +l +y+g       +ls +++k     ++++ +++ +l++l + l+ iv
  PHY93_18640|PHY93_18640 20 FLYQYFGL----NHYLSLEYLKNhqneFNEYYNQNLVLVILYFSLIYIV 64
                             44444442....2333333333322227777766666666666666666 PP

  == domain 2  score: 85.5 bits;  conditional E-value: 5.1e-27
              SNARE_assoc   2 P.sevllvaaGvlfglllgtlvtslgallGaslayllgrylgrkalrrkllsekrvkalerlverygflallllrllpivPrdlvn 86 
                              P  ++l++aaG++fg+ +gtl++sl +++Ga+la++++ry++++ ++ k+  + +++ +++ +e+ g+++l+ lrllp++P+ lvn
  PHY93_18640|PHY93_18640  71 PgASILTLAAGAIFGFRVGTLIVSLSSTIGATLAFWASRYFFKDFVEGKF--KSKFDSINSGIEKEGIFYLFSLRLLPVFPFFLVN 154
                              6456788***********************************77777777..667889**************************** PP

              SNARE_assoc  87 yvaGltrvsfkrFflatfiGsipwalvyaylG 118
                              +++Glt ++  ++f+++++G++p ++vy+ +G
  PHY93_18640|PHY93_18640 155 LLMGLTTLPTVTYFWVSLLGMLPGTMVYINAG 186
                              *****************************998 PP

>> Pyr_redox  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.1   0.5     0.011       7.9       2      31 ..     243     272 ..     242     279 .. 0.92
   2 !   64.3   0.0   1.5e-20   1.1e-17       1      71 [.     407     477 ..     407     486 .. 0.95

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.011
                              EEEECSSHHHHHHHHHHHHTTSEEEEEESS CS
                Pyr_redox   2 vvvvGgGyiglElAgalaelgkkVtvvers 31 
                              ++v+GgG  gl    ++a+ ++kV +ve +
  PHY93_18640|PHY93_18640 243 MIVIGGGSAGLVSSYIAAAVKAKVLLVEKH 272
                              79*************************986 PP

  == domain 2  score: 64.3 bits;  conditional E-value: 1.5e-20
                              EEEEECSSHHHHHHHHHHHHTTSEEEEEESSSSSSTTSSHHHHHHHHHHHHHTTEEEECSEEEEEEEEETT CS
                Pyr_redox   1 kvvvvGgGyiglElAgalaelgkkVtvversdkllrllDeeaskilqeklekngievllntkveeiegsed 71 
                              +++v+GgG ig ElA+ +a+lg+kVt ve++++++  +D+e+sk+++e++++ gi+vl+++k+ +i+ +++
  PHY93_18640|PHY93_18640 407 RLIVLGGGPIGSELAQSFARLGAKVTQVEMAPQIMGREDAEVSKLVTEQFSRDGITVLTSHKALRIDSKNK 477
                              689***************************************************************97776 PP

>> Pyr_redox_3  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.6   0.7   7.9e-19   5.9e-16       1     305 []     244     541 ..     244     541 .. 0.78

  Alignments for each domain:
  == domain 1  score: 58.6 bits;  conditional E-value: 7.9e-19
              Pyr_redox_3   1 iIiGaGPaGlaaaielkkagledylilEkgnignsiyr.ypkemtfisps.ftsekleipdlnaiseetspafslkeeklsrkeal 84 
                              i+iG+G aGl + + +  ++  ++l +Ek+++g    +      + i +s +  + l+    n +  +++  ++++ +k+  + + 
  PHY93_18640|PHY93_18640 244 IVIGGGSAGLVSSYIAAAVKA-KVLLVEKHKMGGDCLNtGCVPSKAIIKSaKVANILKHS--NEFGIDAKD-IKIDFKKV-MERVQ 324
                              89******************9.7*******887655441455555555550444444443..444444553.45554544.34567 PP

              Pyr_redox_3  85 eYlrevaksfelpiklfeeVesvkke...degfevetsketyeAkkviiAtGefdkPnklnipGeeklvkhyskvkefhkya..gq 165
                              +  r+v  +  ++      Ve +k +   ++ +eve + + +++k++++AtG    P ++ ipG ++    +s+ + +  ++   q
  PHY93_18640|PHY93_18640 325 DVIRKVEPHDSVERFSGLGVECLKGTafiKSPYEVEVDGKMFTTKNIVVATGA--GPLVPPIPGLSEIDYLTSN-NVW-SLRelPQ 406
                              78899999999999999999999885233788********************9..**********963333332.233.3332479 PP

              Pyr_redox_3 166 kvvViGgknSavDaAlelvrkgaeVtvvtrgseiekeesdpsyslkpdienrleelvkeekikvlfnaevkeikekeeeykvkted 251
                              +++V Gg+  + + A  ++r ga+Vt v    +i  +e   +++++  + +++ +    + i+vl+ +++ +i+ k++    +++ 
  PHY93_18640|PHY93_18640 407 RLIVLGGGPIGSELAQSFARLGAKVTQVEMAPQIMGRE---DAEVSKLVTEQFSR----DGITVLTSHKALRIDSKNKILVCEFQG 485
                              *******************************9998876...67788888888876....45*************998887777776 PP

              Pyr_redox_3 252 gkkvevk.ddvvlatGykpdlsf..lkkslfeldedgrpvlteeteetnvpglflaG 305
                               ++++++ d++++a+G k +++   l++  +e+++ g++v +e    tn+p+++++G
  PHY93_18640|PHY93_18640 486 -QEISIEfDKILVALGRKANVKGfgLENLNIEISNRGTVVADEYLRTTNYPNIYVCG 541
                              .6666650555566******9865788899**************************9 PP

>> GIDA  Glucose inhibited division protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.2   4.8   3.5e-07   0.00026       2      52 ..     243     295 ..     242     396 .. 0.80
   2 !    7.5   0.0    0.0025       1.8       2      28 ..     408     434 ..     407     454 .. 0.88
   3 ?    4.0   0.0     0.029        22     348     385 ..     526     565 ..     509     571 .. 0.85

  Alignments for each domain:
  == domain 1  score: 20.2 bits;  conditional E-value: 3.5e-07
                              EEEE-SSHHHHHHHHHHHHTT--EEEE..ES-GGGTT--SSSSEEE-TTHHHH CS
                     GIDA   2 viViGgGhAGceAAlaaarlGakvlLi..thkldtiaelsCnpsiggiakgll 52 
                              +iViGgG AG+  ++ aa   akvlL+   +  +++++ +C ps   i ++++
  PHY93_18640|PHY93_18640 243 MIVIGGGSAGLVSSYIAAAVKAKVLLVekHKMGGDCLNTGCVPSKAIIKSAKV 295
                              69*************************85555689*********987755544 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0025
                              EEEE-SSHHHHHHHHHHHHTT--EEEE CS
                     GIDA   2 viViGgGhAGceAAlaaarlGakvlLi 28 
                              +iV+GgG  G+e A   arlGakv+ +
  PHY93_18640|PHY93_18640 408 LIVLGGGPIGSELAQSFARLGAKVTQV 434
                              69*********************9865 PP

  == domain 3  score: 4.0 bits;  conditional E-value: 0.029
                              T.TSBBSSSBTEEE-CGGGTB-SHHHHHH.HHHHHHHHHH CS
                     GIDA 348 n.tLetkkvkgLflAGqinGteGYeEaaa.qGllAGinaa 385
                              +  L+t + ++++++G+++G   ++  aa q +  ++na 
  PHY93_18640|PHY93_18640 526 DeYLRTTNYPNIYVCGDVTGPYQFTHTAAhQAWFVAVNAL 565
                              44799***************98888888878999999986 PP

>> NAD_binding_8  NAD(P)-binding Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.5   1.4e-05     0.011       1      36 [.     245     279 ..     245     286 .. 0.93
   2 !    7.3   0.0    0.0073       5.5       1      34 [.     410     443 ..     410     450 .. 0.94

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 1.4e-05
                              EE--SHHHHHHHHHHHCCTEEEEEE-SSSSSSGGG- CS
            NAD_binding_8   1 IvGaGlsGlvaAylLakagfdvlllekrdrlGGraa 36 
                              ++G+G +Glv  y +a  +++vll+ek+ + GG++ 
  PHY93_18640|PHY93_18640 245 VIGGGSAGLVSSYIAAAVKAKVLLVEKH-KMGGDCL 279
                              8**************************8.8999885 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.0073
                              EE--SHHHHHHHHHHHCCTEEEEEE-SSSSSSGG CS
            NAD_binding_8   1 IvGaGlsGlvaAylLakagfdvlllekrdrlGGr 34 
                              ++G+G  G+ +A+  a+ g++v+ +e+++++ Gr
  PHY93_18640|PHY93_18640 410 VLGGGPIGSELAQSFARLGAKVTQVEMAPQIMGR 443
                              89**************************998776 PP

>> K_oxygenase  L-lysine 6-monooxygenase (NADPH-requiring)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.1   0.0   9.2e-08   6.9e-05     135     250 ..     359     465 ..     345     487 .. 0.85

  Alignments for each domain:
  == domain 1  score: 22.1 bits;  conditional E-value: 9.2e-08
              K_oxygenase 135 veskdaegeeeelearnlvlgvGtepkiPevleklegkervvHsseylerkeellakkriaVvGsGqSaaeifedllrr.qkkvel 219
                              ve+     + ++++++n+v+++G  p +P++   l+ + + + s+++ + +   + ++r++V G+G  ++e+++  +r  +k +++
  PHY93_18640|PHY93_18640 359 VEV-----DGKMFTTKNIVVATGAGPLVPPIPG-LS-EIDYLTSNNVWSLR---ELPQRLIVLGGGPIGSELAQSFARLgAKVTQV 434
                              444.....5789*****************9876.55.37888888888776...57899*******************945559** PP

              K_oxygenase 220 klvtrsealeplddspfvneifsPeyvdyfy 250
                              ++  +  + e ++ s++v e fs + ++   
  PHY93_18640|PHY93_18640 435 EMAPQIMGREDAEVSKLVTEQFSRDGITVLT 465
                              **********************998776655 PP

>> HI0933_like  HI0933-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   0.7   1.6e-06    0.0012       2      36 ..     242     276 ..     241     283 .. 0.88
   2 ?   -2.3   0.0       1.8   1.3e+03     143     164 ..     357     377 ..     352     380 .. 0.77
   3 ?    3.6   0.1      0.03        23       2      35 ..     407     440 ..     406     444 .. 0.90
   4 ?    1.7   0.1      0.11        80     110     166 ..     447     503 ..     441     509 .. 0.80

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 1.6e-06
                              SEEEE--SHHHHHHHHHHHHTT--EEEE-SSSSS- CS
              HI0933_like   2 dviviGgGaAGlmaAisaakrgkrVlllekakklg 36 
                              ++iviGgG AGl  +  aa+ +++Vll+ek k  g
  PHY93_18640|PHY93_18640 242 NMIVIGGGSAGLVSSYIAAAVKAKVLLVEKHKMGG 276
                              68****************************97544 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 1.8
                              EEEEE.TTEEEEESEEEE---- CS
              HI0933_like 143 frvktkseeeleadklvlAtGG 164
                              ++v++ +++ ++++++v+AtG 
  PHY93_18640|PHY93_18640 357 YEVEV-DGKMFTTKNIVVATGA 377
                              56777.7888889999999885 PP

  == domain 3  score: 3.6 bits;  conditional E-value: 0.03
                              SEEEE--SHHHHHHHHHHHHTT--EEEE-SSSSS CS
              HI0933_like   2 dviviGgGaAGlmaAisaakrgkrVlllekakkl 35 
                              ++iv+GgG+ G   A s a+ g++V+ +e a+++
  PHY93_18640|PHY93_18640 407 RLIVLGGGPIGSELAQSFARLGAKVTQVEMAPQI 440
                              579***********************99988775 PP

  == domain 4  score: 1.7 bits;  conditional E-value: 0.11
                              HHHHHHHHHHHHHT-EEE-S--EEEEECETTE.EEEEE..TTEEEEESEEEE----SS CS
              HI0933_like 110 divdallkelkeagvklrletevksvekeedgkfrvkt.kseeeleadklvlAtGGlS 166
                              ++ ++ +++ ++ g+++ ++++  ++++ +++++  +   +e ++e dk+++A+G ++
  PHY93_18640|PHY93_18640 447 EVSKLVTEQFSRDGITVLTSHKALRIDS-KNKILVCEFqGQEISIEFDKILVALGRKA 503
                              566777889999**************66.55557777733666899********9765 PP

>> AlaDh_PNT_C  Alanine dehydrogenase/PNT, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.3   0.1    0.0017       1.2      31      60 ..     243     272 ..     238     305 .. 0.88
   2 !   10.5   0.0   0.00037      0.28      28      64 ..     405     441 ..     402     476 .. 0.85

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0017
                              EEEESTSHHHHHHHHHHHHTT-EEEEEESS CS
              AlaDh_PNT_C  31 vlviGgGvaGlqAiatakglgakVtvlDvr 60 
                              ++viGgG aGl +  +a++++akV ++++ 
  PHY93_18640|PHY93_18640 243 MIVIGGGSAGLVSSYIAAAVKAKVLLVEKH 272
                              78**********************998876 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 0.00037
                              --EEEEESTSHHHHHHHHHHHHTT-EEEEEESSHHHH CS
              AlaDh_PNT_C  28 pakvlviGgGvaGlqAiatakglgakVtvlDvrparl 64 
                              p + +v+GgG  G + ++  ++lgakVt +++ p+ +
  PHY93_18640|PHY93_18640 405 PQRLIVLGGGPIGSELAQSFARLGAKVTQVEMAPQIM 441
                              56889*************************9998765 PP

>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.2      0.46   3.5e+02       3      32 ..     244     273 ..     242     330 .. 0.81
   2 !   18.7   0.1   1.7e-06    0.0013       3      56 ..     409     462 ..     407     480 .. 0.86

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.46
                              EEE--SCCHHHHHHHHHHTT-EEEEE-S-H CS
                  3HCDH_N   3 aviGaGtmGagiaavfasagleVvlvdise 32 
                               viG G  G    +++a+ + +V lv+ ++
  PHY93_18640|PHY93_18640 244 IVIGGGSAGLVSSYIAAAVKAKVLLVEKHK 273
                              59**********************999864 PP

  == domain 2  score: 18.7 bits;  conditional E-value: 1.7e-06
                              EEE--SCCHHHHHHHHHHTT-EEEEE-S-HHHHHHHHHHHHHHHHCCTTTTSS- CS
                  3HCDH_N   3 aviGaGtmGagiaavfasagleVvlvdiseealekalekieksleklvekgklk 56 
                               v+G G +G+++a+ fa+ g +V+ v+++++++ +  ++++k + ++ ++  ++
  PHY93_18640|PHY93_18640 409 IVLGGGPIGSELAQSFARLGAKVTQVEMAPQIMGREDAEVSKLVTEQFSRDGIT 462
                              59***************************************9888887777666 PP

>> Thi4  Thi4 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.1   1.2e-06   0.00088      18      88 ..     241     313 ..     230     348 .. 0.71
   2 ?   -2.3   0.0       2.9   2.1e+03      20      48 ..     408     435 ..     405     442 .. 0.84

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 1.2e-06
                              EEEEEE--SHHHHHHHHHHHHCTTS-EEEEESSSS--TTTTTTSTTBSEEEE.ETTTHHHH...HHTT---EEES CS
                     Thi4  18 sDvvivGaGssGLtaayylakkpdlkvailersvspGGGawlGGqlfsaivv.rkpakelL...delgikyedeg 88 
                               +++++G+Gs+GL ++y+ a   + kv+++e++  +GG     G + s+ ++   +  ++L   +e+gi  +d +
  PHY93_18640|PHY93_18640 241 YNMIVIGGGSAGLVSSYIAAAV-KAKVLLVEKHK-MGGDCLNTGCVPSKAIIkSAKVANILkhsNEFGIDAKDIK 313
                              5789**********99987777.9*******996.6666666666665555505567778734458888877754 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 2.9
                              EEEE--SHHHHHHHHHHHHCTTS-EEEEE CS
                     Thi4  20 vvivGaGssGLtaayylakkpdlkvaile 48 
                              +++ G+G+ G   a+ +a+  + kv+ +e
  PHY93_18640|PHY93_18640 408 LIVLGGGPIGSELAQSFARL-GAKVTQVE 435
                              6899******9999999998.88887766 PP

>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.0   0.3   0.00061      0.46       3      32 ..     244     274 ..     242     286 .. 0.85
   2 ?    0.5   0.0      0.47   3.5e+02     155     203 ..     338     378 ..     334     393 .. 0.70
   3 ?    2.8   0.1     0.099        74       2      31 ..     408     439 ..     407     453 .. 0.90
   4 ?   -1.4   0.0       1.8   1.3e+03     152     205 ..     452     504 ..     443     538 .. 0.66

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.00061
                              EEECTSHHHHHHHHHHHHTT..EEEEESSSST CS
                      DAO   3 viiGGGiiGlstAyeLarrg..Vtllekgdia 32 
                              ++iGGG +Gl   y +a+ +  V+l+ek+   
  PHY93_18640|PHY93_18640 244 IVIGGGSAGLVSSYIAAAVKakVLLVEKH-KM 274
                              8***************876567******9.43 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.47
                              HHHHTT-EEEESECEEEEEEEETCEEEEEEECTEEEEEEEEEEE--GGG CS
                      DAO 155 aaealGveilegtevtgleeedgkvwgverttpgendaadavVnaaGaw 203
                              ++  lGve+l+gt   +        ++ve   +g  ++ + +V+a+Ga+
  PHY93_18640|PHY93_18640 338 RFSGLGVECLKGTAFIKS------PYEVE--VDGKMFTTKNIVVATGAG 378
                              577789999999777765......45562..2254444477******97 PP

  == domain 3  score: 2.8 bits;  conditional E-value: 0.099
                              EEEECTSHHHHHHHHHHHHTT..EEEEESSSS CS
                      DAO   2 vviiGGGiiGlstAyeLarrg..Vtllekgdi 31 
                              +++ GGG iG+  A   ar g  Vt +e++++
  PHY93_18640|PHY93_18640 408 LIVLGGGPIGSELAQSFARLGakVTQVEMAPQ 439
                              68***************99999****999865 PP

  == domain 4  score: -1.4 bits;  conditional E-value: 1.8
                              HHHHHHHTT-EEEESECEEEEEEEETCEEEEE.EECTEEE..EEEEEEEE--GGGHH CS
                      DAO 152 laraaealGveilegtevtgleeedgkvwgve.rttpgen..daadavVnaaGawsd 205
                              + +++ + G+++l+ +++ +++ ++ k+   e +   g++   ++d++ +a G  ++
  PHY93_18640|PHY93_18640 452 VTEQFSRDGITVLTSHKALRIDSKN-KILVCEfQ---GQEisIEFDKILVALGRKAN 504
                              56789999***********996543.43333354...33322357999999997765 PP

>> FAD_oxidored  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.7   0.3   4.1e-05      0.03       3      35 ..     244     276 ..     242     302 .. 0.86
   2 ?    3.5   0.2     0.048        36       2      31 ..     408     437 ..     408     444 .. 0.89
   3 ?   -2.1   0.0       2.5   1.9e+03      85     125 ..     445     483 ..     443     491 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 4.1e-05
             FAD_oxidored   3 vVvGGgpaGvaAAiaAaraGakvlLveergvlG 35 
                              +V+GGg+aG++  + Aa   akvlLve++++ G
  PHY93_18640|PHY93_18640 244 IVIGGGSAGLVSSYIAAAVKAKVLLVEKHKMGG 276
                              8**************************988644 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.048
             FAD_oxidored   2 vvVvGGgpaGvaAAiaAaraGakvlLveer 31 
                              ++V GGgp G   A + ar Gakv  ve  
  PHY93_18640|PHY93_18640 408 LIVLGGGPIGSELAQSFARLGAKVTQVEMA 437
                              58**********************988865 PP

  == domain 3  score: -2.1 bits;  conditional E-value: 2.5
             FAD_oxidored  85 epevakavleemlaeagvtvllntrlvevekegkriesvtv 125
                              + ev k v e++ ++ g+tvl+ +++ +++ ++ +i   ++
  PHY93_18640|PHY93_18640 445 DAEVSKLVTEQFSRD-GITVLTSHKALRIDSKN-KILVCEF 483
                              568889999999988.**********9999886.6655555 PP

>> NAD_binding_7  Putative NAD(P)-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   0.1      0.17   1.2e+02       9      40 ..     242     273 ..     237     337 .. 0.79
   2 !   11.5   0.0   0.00043      0.32       8      57 ..     406     458 ..     399     504 .. 0.74

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.17
            NAD_binding_7   9 kvlvvGgGevAarkvrklleagakvtvvapev 40 
                              +++v+GgG+ ++   +  ++ +akv +v +  
  PHY93_18640|PHY93_18640 242 NMIVIGGGSAGLVSSYIAAAVKAKVLLVEKHK 273
                              789*********99999999999999998874 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 0.00043
            NAD_binding_7   8 kkvlvvGgGevAarkvrklleagakvtv..vapevkeele.elvklaeeelek 57 
                              ++ +v GgG+++ + ++++++ gakvt   +ap++    + e  kl  e++++
  PHY93_18640|PHY93_18640 406 QRLIVLGGGPIGSELAQSFARLGAKVTQveMAPQIMGREDaEVSKLVTEQFSR 458
                              5789**********************984557777333332444455555544 PP

>> FAD_binding_2  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.9   1.3e-05    0.0096       2      32 ..     243     273 ..     242     281 .. 0.91
   2 ?   -2.4   0.0       2.5   1.9e+03       3      34 ..     409     440 ..     408     478 .. 0.69

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 1.3e-05
                              EEEE--SHHHHHHHHHHHHTTT-EEEEESSS CS
            FAD_binding_2   2 viViGsGlAGLaAAleaaeaGlkvavvekeq 32 
                               iViG+G AGL++++ aa   +kv++vek +
  PHY93_18640|PHY93_18640 243 MIVIGGGSAGLVSSYIAAAVKAKVLLVEKHK 273
                              69*************9999999******976 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 2.5
                              EEE--SHHHHHHHHHHHHTTT-EEEEESSSGG CS
            FAD_binding_2   3 iViGsGlAGLaAAleaaeaGlkvavvekeqef 34 
                              iV G+G  G   A + a+ G+kv+ ve +++ 
  PHY93_18640|PHY93_18640 409 IVLGGGPIGSELAQSFARLGAKVTQVEMAPQI 440
                              67777777777777777777777766665554 PP

>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.0   0.0      0.15   1.1e+02      28      73 ..     232     277 ..     218     304 .. 0.75
   2 ?   10.0   0.0   0.00054       0.4      37      72 ..     406     441 ..     391     471 .. 0.82

  Alignments for each domain:
  == domain 1  score: 2.0 bits;  conditional E-value: 0.15
                              CGSBS-GTTSEEEEES-SHHHHHHHHHHHHTT-EEEEESSSHHHHH CS
             2-Hacid_dh_C  28 allgkelsgktvGiiGlGrIGqavakrlkafgmkviaydrskkkee 73 
                              +++  + ++  + +iG G+ G     +++a+++kv+ ++++k   +
  PHY93_18640|PHY93_18640 232 KFKKPKSYDYNMIVIGGGSAGLVSSYIAAAVKAKVLLVEKHKMGGD 277
                              5555667778899*************************99977554 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00054
                              SEEEEES-SHHHHHHHHHHHHTT-EEEEESSSHHHH CS
             2-Hacid_dh_C  37 ktvGiiGlGrIGqavakrlkafgmkviaydrskkke 72 
                              +++ ++G G IG+++a+ ++ +g+kv+ ++  ++  
  PHY93_18640|PHY93_18640 406 QRLIVLGGGPIGSELAQSFARLGAKVTQVEMAPQIM 441
                              57889**********************999887743 PP

>> Lycopene_cycl  Lycopene cyclase protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.9   0.2      0.06        45       2      31 ..     243     270 ..     242     303 .. 0.84
   2 ?    8.5   0.0    0.0012      0.89       2      37 ..     408     441 ..     407     479 .. 0.92

  Alignments for each domain:
  == domain 1  score: 2.9 bits;  conditional E-value: 0.06
            Lycopene_cycl   2 vvviGaGpAglslAarlteakpglkvvlie 31 
                              ++viG+G Agl       +a+ + kv+l+e
  PHY93_18640|PHY93_18640 243 MIVIGGGSAGLVSSYI--AAAVKAKVLLVE 270
                              69********964443..477777888886 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.0012
            Lycopene_cycl   2 vvviGaGpAglslAarlteakpglkvvlieaspsll 37 
                              ++v G+Gp g  lA+    a+ g kv+ +e +p+++
  PHY93_18640|PHY93_18640 408 LIVLGGGPIGSELAQSF--ARLGAKVTQVEMAPQIM 441
                              79***************..************99986 PP

>> SpoVAB  Stage V sporulation protein AB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.4   0.00023      0.17      15      74 ..      39     100 ..      35     114 .. 0.85
   2 ?   -2.1   0.0       6.2   4.6e+03      19      56 ..     530     568 ..     515     570 .. 0.58

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 0.00023
                   SpoVAB  15 ktakkillyeeavilGavlgnllsvfeiklplg..aillallglfaGiFvGclalaLaEvln 74 
                              ++++   +y++ ++l +++  l+++++++++++  +il++ +g ++G  vG+l+++L+ ++ 
  PHY93_18640|PHY93_18640  39 HQNEFNEYYNQNLVLVILYFSLIYIVSVAFSFPgaSILTLAAGAIFGFRVGTLIVSLSSTIG 100
                              5666677899999999*********9888888765799999****************98875 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 6.2
                   SpoVAB  19 killyeeavilGavlgnllsvfeiklplg.aillallgl 56 
                              +++ y ++ ++G v+g + +  + + +++ +++ al+g+
  PHY93_18640|PHY93_18640 530 RTTNYPNIYVCGDVTGPYQFTHTAAHQAWfVAVNALFGI 568
                              556678888888888877655544444332233334444 PP

>> FAD_binding_3  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   0.3     0.009       6.7       3      34 ..     242     273 ..     240     277 .. 0.90
   2 ?    5.4   0.1     0.012         9       5      32 ..     409     436 ..     406     453 .. 0.89

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.009
                              EEEEE--SHHHHHHHHHHHHTTHHEEEEESSS CS
            FAD_binding_3   3 dVlIVGaGpaGlmlallLseaGvrvvlvekrs 34 
                              + +++G+G aGl+++ + +    +v+lvek++
  PHY93_18640|PHY93_18640 242 NMIVIGGGSAGLVSSYIAAAVKAKVLLVEKHK 273
                              678*************99999999******96 PP

  == domain 2  score: 5.4 bits;  conditional E-value: 0.012
                              EEE--SHHHHHHHHHHHHTTHHEEEEES CS
            FAD_binding_3   5 lIVGaGpaGlmlallLseaGvrvvlvek 32 
                              ++ G+Gp G  la+  ++ G +v+ ve 
  PHY93_18640|PHY93_18640 409 IVLGGGPIGSELAQSFARLGAKVTQVEM 436
                              588********************99985 PP

>> XdhC_C  XdhC Rossmann domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.0         4     3e+03       1      31 [.     243     273 ..     243     309 .. 0.81
   2 ?   10.9   0.0   0.00067       0.5       1      52 [.     408     466 ..     408     484 .. 0.76

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 4
                              EEEE--STTHHHHHHHHHHHTEEEEEEES-G CS
                   XdhC_C   1 lvifGaghvaqalarlaaalgfrvtvvdpre 31 
                              ++++G+g  +     +aaa+  +v +v++ +
  PHY93_18640|PHY93_18640 243 MIVIGGGSAGLVSSYIAAAVKAKVLLVEKHK 273
                              6899999999999999999999999998876 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.00067
                              EEEE--STTHHHHHHHHHHHTEEEEEEES-GGGG-GGG-TT-SE........-EEEE--S CS
                   XdhC_C   1 lvifGaghvaqalarlaaalgfrvtvvdpreefatkerfpeade........tavvvlth 52 
                              l+++G+g+++ +la+  a+lg +vt v+  +++  +e+++   +        + + vlt 
  PHY93_18640|PHY93_18640 408 LIVLGGGPIGSELAQSFARLGAKVTQVEMAPQIMGREDAEVS-KlvteqfsrDGITVLTS 466
                              79***************************9998855555522.23445555555555554 PP

>> Trp_halogenase  Tryptophan halogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2   0.3    0.0027         2       2      37 ..     243     275 ..     242     292 .. 0.82
   2 ?    1.2   0.1      0.17   1.3e+02       2      33 ..     408     436 ..     407     444 .. 0.88

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.0027
                              EEEE--SHHHHHHHHHHHHHTTTSSEEEEEE-SSS- CS
           Trp_halogenase   2 ivivGGGtaGwlaAaalakalkgklevtlveseeig 37 
                              ++++GGG+aG ++ +++a a+  k++v+lve+ ++g
  PHY93_18640|PHY93_18640 243 MIVIGGGSAGLVS-SYIAAAV--KAKVLLVEKHKMG 275
                              689*******776.5666676..489******9987 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.17
                              EEEE--SHHHHHHHHHHHHHTTTSSEEEEEE- CS
           Trp_halogenase   2 ivivGGGtaGwlaAaalakalkgklevtlves 33 
                              ++++GGG+ G+  A  +a+ +   ++vt+ve 
  PHY93_18640|PHY93_18640 408 LIVLGGGPIGSELAQSFARLG---AKVTQVEM 436
                              789****************99...78999885 PP

>> UPF0182  Uncharacterised protein family (UPF0182)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.6   8.5    0.0012      0.92       5     168 ..      15     171 ..      10     229 .. 0.83

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.0012
                  UPF0182   5 lavlavlllllellarlytellwfkelgylsvfltrlltrlllfvvvflllalllllnlllaerlelleklerlrealekklklll 90 
                              l+++++l   + l   l  e+l  ++ ++++++ ++l++ +l f ++ ++++++ +  + +   +        + +++  ++ +l+
  PHY93_18640|PHY93_18640  15 LLLALFLYQYFGLNHYLSLEYLKNHQNEFNEYYNQNLVLVILYFSLIYIVSVAFSFPGASILTLA--------AGAIFGFRVGTLI 92 
                              3344444445666677888999999999***********99999999999999999888887766........4678889999999 PP

                  UPF0182  91 laialvlsllvglvassq.wekvllflnstsfgvkDpifgkDisFYvFklPflelllslllalvllaliavllvyllsg 168
                              + ++  +++ +++ as+  ++++++   +++f++ +   +k+  FY+F+l +l +  ++l+ l++ ++ + +++y+ + 
  PHY93_18640|PHY93_18640  93 VSLSSTIGATLAFWASRYfFKDFVEGKFKSKFDSINSGIEKEGIFYLFSLRLLPVFPFFLVNLLMGLTTLPTVTYFWVS 171
                              99***************999********************************999999999999988888888887655 PP

>> Colicin_V  Colicin V production protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.1  10.2    0.0065       4.9      24     121 ..       4     103 ..       2     111 .. 0.81
   2 ?    8.2   5.6     0.003       2.2       5      78 ..      74     156 ..      70     192 .. 0.63

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.0065
                Colicin_V  24 evlsllgwvvafvvasllypslaellae.....lilspalaaiiaf.lllfllvllivsllgallsklvsktglglldrllGaifG 103
                               +l + g+++++++a +ly++++ +         ++++ + +     l+l++l + +++++++ +s     +g++ l  ++GaifG
  PHY93_18640|PHY93_18640   4 KWLKISGVLGVLLLALFLYQYFGLNHYLsleylKNHQNEFNEYYNQnLVLVILYFSLIYIVSVAFSF----PGASILTLAAGAIFG 85 
                              5788999**************9977777789997788999999988444444445556777776666....*************** PP

                Colicin_V 104 llkglllvvllllllalv 121
                              +  g l+v+l   + a+ 
  PHY93_18640|PHY93_18640  86 FRVGTLIVSLSSTIGATL 103
                              *********998887775 PP

  == domain 2  score: 8.2 bits;  conditional E-value: 0.003
                Colicin_V   5 illilllsallGlrrG.fvrevlsllgwvvafvvasllypslae.llae.......lilspalaaiiaflllfllvllivsll 78 
                               +l l+ +a++G+r G ++ ++ s +g  +af++ +++ ++++e ++++        i+++ + ++++  ll ++ +++v ll
  PHY93_18640|PHY93_18640  74 SILTLAAGAIFGFRVGtLIVSLSSTIGATLAFWASRYFFKDFVEgKFKSkfdsinsGIEKEGIFYLFSLRLLPVFPFFLVNLL 156
                              58999***********6689****************99998876255558886665223333333333333333333333222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (711 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       804  (0.0448435); expected 358.6 (0.02)
Passed bias filter:                      496  (0.0276647); expected 358.6 (0.02)
Passed Vit filter:                        63  (0.00351386); expected 17.9 (0.001)
Passed Fwd filter:                        24  (0.00133861); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              24  [number of targets reported over threshold]
# CPU time: 0.75u 0.29s 00:00:01.04 Elapsed: 00:00:00.42
# Mc/sec: 5034.79
//
Query:       PHY93_18645|PHY93_18645  [L=255]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.9e-23   81.8   0.8    7.1e-23   81.0   0.8    1.4  1  DUF547    Protein of unknown function, DUF547


Domain annotation for each model (and alignments):
>> DUF547  Protein of unknown function, DUF547
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   81.0   0.8     4e-27   7.1e-23       3     123 .]      76     185 ..      74     185 .. 0.88

  Alignments for each domain:
  == domain 1  score: 81.0 bits;  conditional E-value: 4e-27
                   DUF547   3 elsreeklAfwiNlYNalvlhaileyg.pesn...........vkrlslfkkaayniggqslslddIehgiLrknlsrlkkkarde 76 
                              ++++ +klAf+iN+YNa+++++i+++    ++           +      kk+++++ ++++sld+Ieh+ +r++           
  PHY93_18645|PHY93_18645  76 TFNESQKLAFLINTYNAFTIKLIIDHYpV-KSikdigsvfsspW------KKKFFKLFNEEISLDQIEHNKIRNH----------- 143
                              67899*******************77742.33456665544334......************************9........... PP

                   DUF547  77 rrkyaleqpdprihfaLvcgsascpplr..iytaerleeqLeaaaeeFl 123
                                     ++++rihfaLvc+s++cp+l   +y a +l++qLe++++ Fl
  PHY93_18645|PHY93_18645 144 -------FKEARIHFALVCASKGCPALLneAYIATKLHQQLENSSKLFL 185
                              .......**************************************9996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (255 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       874  (0.0487478); expected 358.6 (0.02)
Passed bias filter:                      457  (0.0254894); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 1916.10
//
Query:       PHY93_18650|PHY93_18650  [L=50]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (50 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       327  (0.0182386); expected 358.6 (0.02)
Passed bias filter:                      251  (0.0139997); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.40
# Mc/sec: 372.52
//
Query:       PHY93_16565|PHY93_16565  [L=144]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-09   39.0   0.0    1.1e-09   38.9   0.0    1.1  1  Usp       Universal stress protein family


Domain annotation for each model (and alignments):
>> Usp  Universal stress protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.9   0.0   6.4e-14   1.1e-09       4     141 .]       3     143 ..       1     143 [. 0.87

  Alignments for each domain:
  == domain 1  score: 38.9 bits;  conditional E-value: 6.4e-14
                              EEEEEE-SSHHHHHHHHHHHHHHHHCTSEEEEEEEEESSHCCCCCCCHHHHHHHHHHHHHHHHHHHH...HHHHHHCTTCEEEEEE CS
                      Usp   4 rIlVavDgseeskkAlewAlelakargaelillhvidprasgavsdadeeaeeeeleleeaeleada...akaaaeaggvkvevvv 86 
                               I++++   ++  + l+        +g +++l+hv + r  +++  +      +++   e+   ++    ak+++ ++  +v+  +
  PHY93_16565|PHY93_16565   3 SIVICTGLDQHGLNTLKTLPSKIDLQGVQIHLIHVFEIRFASPEFVPVIYPVPDQYPAIEKDVLQTLtglAKDLKLPENMVVKKCI 88 
                              56666655555556666666666678999************999999999999999999999998889999999999999999999 PP

                              EESSHHHHHHHHHHHTTSSEEEEESCCSSTTTTCSSBHHHHHHHHHTSSEEEEEE CS
                      Usp  87 eegdpaeeilevaeeedadliVvGsrgrsglsrlllGSvseyvlrhapcpVlvVr 141
                               + + +e++ ++ +e +a+l+Vv++rg++g+++++  S ++ + + +pc+Vlv r
  PHY93_16565|PHY93_16565  89 FSQSRDEVLKDYLNEVKAELVVVATRGKHGIEGFFASSLADFLCKFSPCDVLVMR 143
                              99999************************************************76 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (144 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       410  (0.022868); expected 358.6 (0.02)
Passed bias filter:                      397  (0.0221429); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.20s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1087.82
//
Query:       PHY93_18655|PHY93_18655  [L=317]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.2e-06   25.2   0.5    1.4e-05   24.4   0.5    1.4  1  N_methyl  Prokaryotic N-terminal methylation motif


Domain annotation for each model (and alignments):
>> N_methyl  Prokaryotic N-terminal methylation motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.4   0.5   7.8e-10   1.4e-05       2      25 ..       5      28 ..       4      30 .. 0.91

  Alignments for each domain:
  == domain 1  score: 24.4 bits;  conditional E-value: 7.8e-10
                 N_methyl  2 rkqrGFTLiElLvalaIlaillaa 25
                             ++++GF+LiE+L+a+ +++ l+a 
  PHY93_18655|PHY93_18655  5 KNKSGFSLIEILIAIGLMGALSAW 28
                             89*****************99986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (317 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       671  (0.0374254); expected 358.6 (0.02)
Passed bias filter:                      553  (0.0308439); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.41
# Mc/sec: 2338.41
//
Query:       PHY93_18660|PHY93_18660  [L=419]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.6e-06   24.6   0.0    1.7e-05   23.6   0.0    1.5  1  AMP-binding      AMP-binding enzyme
    0.00028   21.1   0.1     0.0006   20.1   0.1    1.6  1  AMP-binding_C_2  AMP-binding enzyme C-terminal domain


Domain annotation for each model (and alignments):
>> AMP-binding  AMP-binding enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.6   0.0   1.9e-09   1.7e-05     240     368 ..     141     266 ..      17     271 .. 0.67

  Alignments for each domain:
  == domain 1  score: 23.6 bits;  conditional E-value: 1.9e-09
                              CHHHHHHHHHHHHT-SEEEEEHHHHHHHHH.CCCHHCHHHHCCGTT-SEEEEESS-EBHHHHHHHHHHHTC..EEEEEEEEGGGSS CS
              AMP-binding 240 ldpklllelieklkvtviagvPrvlealle.sgalkaakkakdlsslrlvllggeplspellrffralfge..evlegYGlTEttg 322
                              + p+++l+++e+++++v++gvP+++  lle  +  k   k++   +++ +l+gge+l p+   +++++f++    + gY     ++
  PHY93_18660|PHY93_18660 141 TGPDHILKTLEEFSINVMVGVPSAILTLLEyYDGQK---KKYPGVKIEKLLFGGEALYPDQYLALKKIFPDikISSIGYASVDGGA 223
                              3378899***********************665444...222333477899*******************9843445676666666 PP

                              ECEECHCTTTCTSTTS-BEE-T.TEEEEEE-TTTSCBEE.TTSEEEEE CS
              AMP-binding 323 vvtvlpleedkkklgsvGkplp.gvevkivDeetgepvp.dgeeGell 368
                                +  +  e+  + g   +++   + ++ivD++t+e +  ++ +G++l
  PHY93_18660|PHY93_18660 224 LGY-SD-CEC--TDG-EHRVFDgSNIIEIVDPDTNEVITeQNRVGKVL 266
                              665.23.222..122.23455546778899999888775244447765 PP

>> AMP-binding_C_2  AMP-binding enzyme C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.1   0.1   6.7e-08    0.0006       9      96 .]     325     418 ..     323     418 .. 0.73

  Alignments for each domain:
  == domain 1  score: 20.1 bits;  conditional E-value: 6.7e-08
                              HHHHHHT-TTEEEEEEEEEEEETTEEEEEEEEEE-T.....T----HHHHHHHHHHHHHHHHHHHSS-.-EEEEE-TT-S--..-- CS
          AMP-binding_C_2   9 ieevlkeieevepeYqivvtregelDelevkvEvke.....gfsdelkelealekkiakklksklgvs.vkvelvepgtlpr..se 86 
                              + ++lkei++++  +q+++++  ++Del +k+  +      ++ d+l e  + ek + + + sk  ++ +k+e+ve+++l+    +
  PHY93_18660|PHY93_18660 325 VMTALKEINGLQ--FQMILNHFAHKDELILKIAGHGlkadlKIIDRLIEAFKKEKPVYHDILSKGLIHpLKIEIVEMNQLEAnaRT 408
                              556777777775..******************86653101234444455555667777777777777636**********993345 PP

                              -----EEE-S CS
          AMP-binding_C_2  87 gKakrviDkR 96 
                              gK+krviD+R
  PHY93_18660|PHY93_18660 409 GKLKRVIDNR 418
                              7********9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (419 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       447  (0.0249317); expected 358.6 (0.02)
Passed bias filter:                      423  (0.0235931); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.41
# Mc/sec: 3099.45
//
Query:       PHY93_18665|PHY93_18665  [L=839]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    5.5e-80  269.4   0.0    7.7e-80  268.9   0.0    1.1  1  LuxC         Acyl-CoA reductase (LuxC)
    6.8e-06   24.9   0.0    1.1e-05   24.3   0.0    1.2  1  AMP-binding  AMP-binding enzyme
     0.0046   15.5   0.0      0.011   14.2   0.0    1.5  1  Aldedh       Aldehyde dehydrogenase family


Domain annotation for each model (and alignments):
>> LuxC  Acyl-CoA reductase (LuxC)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  268.9   0.0   1.3e-83   7.7e-80      29     402 ..      63     434 ..      39     437 .. 0.93

  Alignments for each domain:
  == domain 1  score: 268.9 bits;  conditional E-value: 1.3e-83
                     LuxC  29 aierlakitgyeeallei.lkalaallkreeLkkvleseLgq..peiLdeflktkeksyekaqprglvlhvlsgNvpllpvmsilq 111
                                 +l++    + + +e  ++al+++l+ ++L+++l +eLg+  p+ L +   +++  +e ++p g+ +hv++ N+pll+v  +++
  PHY93_18665|PHY93_18665  63 LLGDLKARPDVRDEEVELsMQALVDFLSVDNLRQKLARELGSefPFELKRINFREN-HFESWFPLGVLVHVTPNNSPLLGVLGVIE 147
                              55677777788888888889********************6622567777777777.9**************************** PP

                     LuxC 112 glLvknvnllkvSssdpflaaallksladvdenhtladslsvvyfksgdtkleeeivqnaDvvvawGgeeaikaiseklkpgkqli 197
                              glL++nvn+lk    d+ +aa ++k+l+ +d + t +d++ +   +s+d++  + ++ +aDvv+awG ee+ik+++  ++  ++++
  PHY93_18665|PHY93_18665 148 GLLSGNVNVLKLARKDSSFAAIFYKELCAIDTSNTFKDYIYIGKVSSSDKSYLRDFLSVADVVSAWGNEESIKSLRDMAPSRARIV 233
                              ******************************************999999999999999***************************** PP

                     LuxC 198 kfGakvSfavvdkealeeealdkaaeraAkDiivfdQqAClspqvvfvekddkieidefaeaLaaaLekrarilpkakldedeaak 283
                              ++G+k+Sfa+v ++       +++++++A  i+  +Q AC+spq+vf+e +   ++  f++ La+aL+     + ++ + ++e a+
  PHY93_18665|PHY93_18665 234 EWGHKISFAYVTESS---ASNAEMLKKLAFEICNNEQMACSSPQCVFLEDASFEDLINFSKNLAKALDLVSPTIARVLPGIQETAE 316
                              ***********8887...5778999************************999999******************************* PP

                     LuxC 284 isskraelklkylladekkvvsskdqkwtvllseeqeelnePlnrtvnvkavdsledvvryvtenrt.lQtvglavnesrleelar 368
                                  r+++ l+ +l + ++++ s +++w++ +++      +Pl+rt+ vk++++  ++++ +++ +  lQtvg+++n++++eel r
  PHY93_18665|PHY93_18665 317 LTVSREQVRLNSMLGNSEAII-SANKDWRIYIEDTASLNASPLFRTIWVKPMPKN-KIIQNLRPLKVyLQTVGVSANKNEIEELTR 400
                              *****************9888.9************99999*************99.9***************************** PP

                     LuxC 369 klalaGvsrivklGemnlaksGephDGvyaLkrl 402
                               l +aGv+r+  +G m+++++GephDGvyaL+r 
  PHY93_18665|PHY93_18665 401 ALFQAGVQRVRAIGDMTDSYIGEPHDGVYALERY 434
                              *******************************995 PP

>> AMP-binding  AMP-binding enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.3   0.0   1.8e-09   1.1e-05     164     368 ..     488     687 ..     436     692 .. 0.78

  Alignments for each domain:
  == domain 1  score: 24.3 bits;  conditional E-value: 1.8e-09
                              EEEE--SSSS-EEEEEEHHHHHHHHHHHH..HHHC.SCCTT.T-EEEESS-TTSCHHHHHHHHHHHHTT-EEEE-TTCGCCHHHHH CS
              AMP-binding 164 iiYTSGTTGkPKGVmlshrnlvanvaslk..letr.fklke.ddvvlsilplahifglilelllallsGatvvllpkdaaldpkll 245
                               +Y++G+ G+PK  + + + ++ ++  ++  l  +  +l++ +d+++        +g  ++ +++l +  +v+++ + ++ d +l+
  PHY93_18665|PHY93_18665 488 YFYSGGSSGEPKLSIFTYADYHRQMEVAAegL--YaAGLDPkTDRCMNLFYAGSLYGGFVSFFTILEKLNAVHFPMGAST-DFELV 570
                              57**********************88876433..3344555689999888888888876888888888888888776655.77899 PP

                              HHHHHHHT-SEEEEEHHHHHHHHHCCCHHCHHHHCCGTT-SEEEEESS-EBHHHHHHHHHHHTC..EEEEEEEEGGGSSECEECHC CS
              AMP-binding 246 lelieklkvtviagvPrvleallesgalkaakkakdlsslrlvllggeplspellrffralfge..evlegYGlTEttgvvtvlpl 329
                               ++i k kv ++ g P+ + +l++++++    k  +  +++ ++ gge  s++   f+++ +g     + +YG   +++  +  ++
  PHY93_18665|PHY93_18665 571 GKTIVKNKVDTLLGMPSYYIQLFAANSEL--FK--QYRGIKKIFYGGEHFSETQRNFLKSEYGVeiIRSASYGSVDAGPLGF--QC 650
                              9*********************8854333..22..5668***********************996544678**999999987..32 PP

                              TTTCTSTTS-BEE-T.TEEEEEE-TTTSCBEETTSEEEEE CS
              AMP-binding 330 eedkkklgsvGkplp.gvevkivDeetgepvpdgeeGell 368
                               e    +g +        e+++v+ e  +pv++ge+G  l
  PHY93_18665|PHY93_18665 651 -EF--AVGGIHHLNErLHELEVVELEADRPVEKGEVGRFL 687
                              .22..23434333333667888888888888888888755 PP

>> Aldedh  Aldehyde dehydrogenase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.2   0.0   1.9e-06     0.011     118     184 ..     117     182 ..      94     308 .. 0.63

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 1.9e-06
                              EEEEEEEEE-SEEEEEE-SSSCCHHHHHHHHHHHHTT-EEEEEE-TTSHHHHHHHHHHHHHTTS-TT CS
                   Aldedh 118 klalvrrePlGvvgaItPWNfPlllaawklapalaaGNtvvlKPaeetplsalllaelfeeaglPkg 184
                              ++ +  + PlGv + +tP N Pll +++ ++  l+ GN+ vlK a + +  a+++ + + +++  + 
  PHY93_18665|PHY93_18665 117 ENHFESWFPLGVLVHVTPNNSPLLGVLG-VIEGLLSGNVNVLKLARKDSSFAAIFYKELCAIDTSNT 182
                              55667788**************987665.6679999********99999999888776665555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (839 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       559  (0.0311785); expected 358.6 (0.02)
Passed bias filter:                      488  (0.0272185); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.73u 0.26s 00:00:00.99 Elapsed: 00:00:00.43
# Mc/sec: 5866.40
//
Query:       PHY93_18670|PHY93_18670  [L=387]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.8e-33  113.8   0.0    2.1e-32  112.6   0.0    1.5  1  LuxE      Acyl-protein synthetase, LuxE


Domain annotation for each model (and alignments):
>> LuxE  Acyl-protein synthetase, LuxE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  112.6   0.0   1.2e-36   2.1e-32      16     373 ..      25     383 ..      14     385 .. 0.81

  Alignments for each domain:
  == domain 1  score: 112.6 bits;  conditional E-value: 1.2e-36
                     LuxE  16 Plelseeekeklrkkflldelvnhykhneeyrkycqknkvddlvtegevd..diPviPvsvfkaigtkllsvsedeikaklqssat 99 
                              P+e+  ++  k+ ++ + +    h + ++ y+k    + +    ++  vd   iP +  + fka  + +lsv e++i  +l+ss+t
  PHY93_18670|PHY93_18670  25 PYEVLADNDAKFIEA-MKEITSWHIEQCDFYKKLSDSQNFSLESVKTLVDclKIPHLWAHFFKA--HEVLSVPEKDIFLHLTSSGT 107
                              666666666665544.344456799*********99998886666655553379**********..******************** PP

                     LuxE 100 sGlkstvlldklsierllravarvmkevl.spkdrqielvdldPdrfnatnlgakivavkvellyastskytvdeerpsaplefl. 183
                              +G ks++  d  +i+   r v    ++      +++   + +  +   +  lg  ++        +    ++  +   +   ef  
  PHY93_18670|PHY93_18670 108 TGQKSQIFFDEWTIRSAQRMVDSIFEKYNwITPEQKCNYILFSYETESSSKLGTAYTDNFLCKYAPVNEVFYALKLTGNGGHEFDc 193
                              ************99987777766554433022233344445555666677888888766554444444455555555566667731 PP

                     LuxE 184 ekklvellrikasekdliliGfiyllyqtvyktlkdknis.fqldknlqvitiGGWkklekekldkidfnrdladvlnlsiddvvd 268
                                ++  +++   ++ ++ l+Gf   +y    + +k  +i+  ++  ++ v  +GGWk      + k+df  ++ ++l++  + ++d
  PHY93_18670|PHY93_18670 194 FGTIEAFQKFAKQGLPVRLFGFPAFFYF-ALERMKKLGIApIKMHPDSMVFLGGGWKGNADKAIAKDDFYSLVEEMLGIPNERLRD 278
                              5789999999***********9877777.4668*****984678899*************************************** PP

                     LuxE 269 iygfteqvelntpdfkdelkrkrvysdviirdeetlkvvgdGkvGlleyvdalstsyPafvvltddlGviee.slcegqkaGklvk 353
                               +g +e   + + ++k+   ++ v s v+ird +tlk+ g    G+l++v++  ts Pa+ v+  d+  +++   c ++ +   +k
  PHY93_18670|PHY93_18670 279 GFGSVEHC-VPYVECKNHEFHVPVWSRVFIRDVDTLKPLGFEEKGFLHFVSPYITSMPAHSVIMGDMASLHDgKTCGCGLPTPYFK 363
                              **988875.7899999999999999**********************************9999888887765268*********** PP

                     LuxE 354 vlrrvkkaevkGcadvlsek 373
                              + +r+   + k ca++ se 
  PHY93_18670|PHY93_18670 364 IHGRAGVSKNKSCALAASEL 383
                              ***************98875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (387 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       468  (0.026103); expected 358.6 (0.02)
Passed bias filter:                      406  (0.0226449); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.41
# Mc/sec: 2866.76
//
Query:       PHY93_18675|PHY93_18675  [L=387]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.1e-05   24.2   0.0    0.00018   21.8   0.0    2.0  2  Acetyltransf_1   Acetyltransferase (GNAT) family
    0.00013   22.4   0.0    0.00027   21.3   0.0    1.5  1  Acetyltransf_7   Acetyltransferase (GNAT) domain
    0.00095   19.1   0.0     0.0017   18.3   0.0    1.4  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
  ------ inclusion threshold ------
       0.12   12.5   0.0       0.35   11.0   0.0    1.7  1  Acetyltransf_9   Acetyltransferase (GNAT) domain


Domain annotation for each model (and alignments):
>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.8   0.0   3.9e-08   0.00018       8      93 ..      28     115 ..      19     126 .. 0.71
   2 ?   -0.5   0.0      0.31   1.4e+03      12      44 ..     229     258 ..     207     301 .. 0.76

  Alignments for each domain:
  == domain 1  score: 21.8 bits;  conditional E-value: 3.9e-08
                              HHHHTHHHHHHHHHHHHHHHHHSTTC.EEEEEEETTEEEEEEEEEEEETTSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHT CS
           Acetyltransf_1   8 lvesffppnedaseeefeesfsleae.gllvaeedgeliGfisllkipdekggvayieslaVspeyrgkGlGsaLlealeeraree 92 
                              ++  +++ +++++    + +  +e+  +l++    +++i+ + +  i+   ++ + + +l+V+p+y+++ +G  L+  + e++++ 
  PHY93_18675|PHY93_18675  28 YGQKYPISYGTDPDLLKRAIEDKETHkCLVARDVVNRVIAGALIVEIDA-FNKIGKMVGLVVHPTYQRHKIGNSLVAFVSEFFLKT 112
                              5566777788888888444433344425555444478777777777777.6899***********************999988877 PP

                              ..T CS
           Acetyltransf_1  93 ..g 93 
                                 
  PHY93_18675|PHY93_18675 113 dtR 115
                              444 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.31
                              THHHHHHHHHHHHHHHHHSTTCEEEEEEETTEE CS
           Acetyltransf_1  12 ffppnedaseeefeesfsleaegllvaeedgel 44 
                              +f+++  ++ ++f+++   + +  +va + g++
  PHY93_18675|PHY93_18675 229 KFIERFPDPNDRFFPF---HSPNMIVADKKGRI 258
                              4567777777888888...88888888877775 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.0     6e-08   0.00027       3      56 ..      53     111 ..      51     129 .. 0.63

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 6e-08
                              EEEEEEEET.TEEE.EEEEEEEES.TCTEE...EEE-GGGTTSSHHHHHHHH..TTSEEEEE CS
           Acetyltransf_7   3 gevfVaedd.gkiv.Gfialslld.aeitr...laVdpeyrgkGiGraLlea..aekgiile 56 
                              ++++Va+d  ++++ G +++++++   i++   l+V+p y+++ iG  L+++  +   + l+
  PHY93_18675|PHY93_18675  53 HKCLVARDVvNRVIaGALIVEIDAfNKIGKmvgLVVHPTYQRHKIGNSLVAFvsE---FFLK 111
                              67888866554444455555555474444466699***************98321...2222 PP

>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.0   3.9e-07    0.0017      19      86 ..      40     115 ..      24     128 .. 0.75

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 3.9e-07
          Acetyltransf_10  19 pealreri.eegealllvaeeg..gkivGvi..elrdgs...hisllfVdpeyrgqGigkaLleaveeeaekdgik 86 
                              p+ l++ i +++ +++lva +     i+G++  e++  +   ++  l+V+p y++ +ig++L+ +v e + k + +
  PHY93_18675|PHY93_18675  40 PDLLKRAIeDKETHKCLVARDVvnRVIAGALivEIDAFNkigKMVGLVVHPTYQRHKIGNSLVAFVSEFFLKTDTR 115
                              47788889568888899988644266668885555444456688889********************997666554 PP

>> Acetyltransf_9  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   7.8e-05      0.35       2     115 ..       9     122 ..       8     127 .. 0.70

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 7.8e-05
                              EEEE-GGGHHHHHHHHHHHTT----H.....HHHHHHHHHHT...TSEEEEEEE..TTEEEEEEEEEEEEEEETTEEEEEEEEEEE CS
           Acetyltransf_9   2 irelteedldevlellkyaFqdeespl...eeireyfrklle...esrvlgaed..ngelvgqlallplelnvpGktlkaagvtgV 79 
                              i  +  ed+de+++l + +++++ +     +     +++ +e    +++l+a+d  n  ++g   +l +e+   +k+ k+   +g 
  PHY93_18675|PHY93_18675   9 IQDAGIEDVDEIINLYRSVYGQKYPISygtD--PDLLKRAIEdkeTHKCLVARDvvNRVIAG---ALIVEIDAFNKIGKM---VGL 86 
                              566778999************9999875543..44444444411146888999884444444...455677666666555...667 PP

                              EE-CCGTTS-HHHHHHHHHHHHHHHTT--EEEE--S CS
           Acetyltransf_9  80 avapehrgrgvlskLlaraleemreegqplsllfPs 115
                               v+p+++++++ ++L+a + e   + + +l  l+++
  PHY93_18675|PHY93_18675  87 VVHPTYQRHKIGNSLVAFVSEFFLKTDTRLNSLYAT 122
                              8**************998888888878777777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (387 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       414  (0.0230911); expected 358.6 (0.02)
Passed bias filter:                      388  (0.0216409); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.56u 0.23s 00:00:00.79 Elapsed: 00:00:00.43
# Mc/sec: 2730.38
//
Query:       PHY93_18680|PHY93_18680  [L=411]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.5e-16   58.7  44.3    4.5e-16   58.7  44.3    1.7  2  MFS_1     Major Facilitator Superfamily
    1.5e-06   26.9  18.5      2e-06   26.5  18.5    1.1  1  MFS_3     Transmembrane secretion effector
  ------ inclusion threshold ------
      0.032   14.3   1.9      0.064   13.4   0.2    2.4  2  UL41A     Herpesvirus UL41A


Domain annotation for each model (and alignments):
>> MFS_1  Major Facilitator Superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.7  44.3   7.6e-20   4.5e-16       2     348 ..      18     366 ..      17     371 .. 0.83
   2 ?    1.9   1.4     0.015        88     245     302 ..     356     410 ..     351     410 .. 0.56

  Alignments for each domain:
  == domain 1  score: 58.7 bits;  conditional E-value: 7.6e-20
                    MFS_1   2 llaaflsalarsilgpalplalaedlgispseigllltlyalgaavaslplGrlsdrfGrrrvlllglllfalglllllfa..... 82 
                              ++++++sa+   + ++ l ++l+++  +s  ++ + l++ +l  + +++   ++++r+G+ ++++++ ++ +   l++lfa     
  PHY93_18680|PHY93_18680  18 FVSQLVSAICDKMMSIGLIWYLSKE--YSINVVPWFLAVSFLPHLMMAFYSTPIINRVGALKTVIASEFFRGGI-LFILFAcfylf 100
                              77888888888888888888*****..88*********************************888877777666.33333222334 PP

                    MFS_1  83 ....sslw.lllvlrvlqGlgagalfpagaaliadwfpkeergraigllsagfslGailgpllggllasslgWravfyilaivsll 163
                                  + l  +l+++ ++ Glg+++++pa+++l  +++++++    ++l+ +++s+++ilg+ ++ +++s +    + +i+a+ ++ 
  PHY93_18680|PHY93_18680 101 klegNALLsALFISGFFVGLGSSLFNPAILSLPPKLVSPDKVVGINALIDSSMSISTILGATFAIFILSFVDLKTLVLINALSFIW 186
                              4566677779*************************************************************************999 PP

                    MFS_1 164 afv.lfllllpeepperkrkspkeeekgtgpaplvpawkallkdpvlwillialllfffgfsglltllplylqevlglsglllagl 248
                              a+v  ++l  ++   ++  ++  e       a++ p    l+k p +  +l+++l+  ++f+ +l+++p y+q+ +  +   ++++
  PHY93_18680|PHY93_18680 187 AGVlQMGLKTLAQSADKISDNNLEN----STASIGP-MYVLKKYPDIARMLASFLFLNLVFTPILVMIPWYVQKIYFGD-SSSLAI 266
                              9995444444566666666666777....8999999.99999999998788888888888888********66666555.366666 PP

                    MFS_1 249 llallalvgailallagrlsdrlgrrrrlllallllllaalglallavtssavllllvlvliGfglgfvfpsllalasdlappeea 334
                              + +++++++++ +l +++ s  +++ +r  ++ l+ +l+ l+++++a +s ++ ++++l+ iG+ + f ++ +l++ +  + +ee 
  PHY93_18680|PHY93_18680 267 IEGAMGIGAFATGLYLSFSSFQVSSNKRVSMIALVSFLFGLFFLIFAYSSLTWHGAIILFSIGILSTFLNIQVLTYFQTALLEEEV 352
                              6666666666668888888888999999999999999999999999999666666667777************************* PP

                    MFS_1 335 gtasglfntagslg 348
                               +++ ++n++++++
  PHY93_18680|PHY93_18680 353 PAIMTAVNIISAAS 366
                              ********998876 PP

  == domain 2  score: 1.9 bits;  conditional E-value: 0.015
                    MFS_1 245 laglllallalvgailallagrls.drlgrrrrlllallllllaalglallavtssavl 302
                              +++  + ++++++++l+l+++ l+  +++   +++  l+++l+++++l++  + + +v+
  PHY93_18680|PHY93_18680 356 MTA--VNIISAASVPLSLVFSGLIfPHVSI--PNFAKLSGVLIIFIALLMPKFLQGPVW 410
                              344..5555666666644444444355444..777777777777777777776666655 PP

>> MFS_3  Transmembrane secretion effector
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.5  18.5   3.4e-10     2e-06      14     318 ..      16     329 ..       8     364 .. 0.81

  Alignments for each domain:
  == domain 1  score: 26.5 bits;  conditional E-value: 3.4e-10
                    MFS_3  14 viWiaslvsnlGtliqevaasWlmtdisasplmvAlvqaaatLPifllsilaGalaDnfdrRkvllavqlllalvsvllt....vl 95 
                               i++++lvs +   + +++  W +++ + s + v    a + LP ++++  +  + + +   k ++a   +      +l     ++
  PHY93_18680|PHY93_18680  16 LIFVSQLVSAICDKMMSIGLIWYLSK-EYSINVVPWFLAVSFLPHLMMAFYSTPIINRVGALKTVIASEFFRGGILFILFacfyLF 100
                              688999999***9*********9976.6788899999999******************9999999998766433333333000033 PP

                    MFS_3  96 aalgllspwlllaltlligiGaalndPaWqAsvgelvkrrdvpaAvaLnsvginiaRsvGPAlgGvlvaavGaalafavnalsyla 181
                               + g    ++l ++ +++g+G++l +Pa     + lv+ ++v    aL    + i+   G   +  ++++v   +   +nals++ 
  PHY93_18680|PHY93_18680 101 KLEGNALLSALFISGFFVGLGSSLFNPAILSLPPKLVSPDKVVGINALIDSSMSISTILGATFAIFILSFVDLKTLVLINALSFIW 186
                              3334444567888999********************************************************************97 PP

                    MFS_3 182 l.ivallrwkrevrksslprEklleal.raglRftaasreikavlvRaalF.glsasavlaLLPlvardqldgdalvyGillgalG 264
                                ++ +     + +++++  ++l ++  + g  ++    +  a ++ ++lF  l  + +l ++P  +++   gd++   i+ ga+G
  PHY93_18680|PHY93_18680 187 AgVLQMGLKTLAQSADKISDNNLENSTaSIGPMYVLKKYPDIARMLASFLFlNLVFTPILVMIPWYVQKIYFGDSSSLAIIEGAMG 272
                              5266666666677778888888876541457778765555445555566662688899**************************** PP

                    MFS_3 265 vGAilgalllsrLRerlsser...lvllaavalAlvllslalasslwvavlvlllgG 318
                              +GA++++l ls+   ++ss++   +++l ++ + l  l+ a +s +w  +++l   G
  PHY93_18680|PHY93_18680 273 IGAFATGLYLSFSSFQVSSNKrvsMIALVSFLFGLFFLIFAYSSLTWHGAIILFSIG 329
                              ***********9999999886333666777888999999999999999999997665 PP

>> UL41A  Herpesvirus UL41A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.1      0.49   2.9e+03      26      40 ..     158     172 ..     145     181 .. 0.71
   2 ?   13.4   0.2   1.1e-05     0.064      15      39 ..     289     313 ..     272     321 .. 0.88

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 0.49
                    UL41A  26 vvcfvfgvfilifcs 40 
                              ++   f +fil f+ 
  PHY93_18680|PHY93_18680 158 ILGATFAIFILSFVD 172
                              455679999999864 PP

  == domain 2  score: 13.4 bits;  conditional E-value: 1.1e-05
                    UL41A  15 vdmnvcigmigvvcfvfgvfilifc 39 
                              v  n  + mi +v f+fg+f lif 
  PHY93_18680|PHY93_18680 289 VSSNKRVSMIALVSFLFGLFFLIFA 313
                              6678889*****************7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (411 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       929  (0.0518155); expected 358.6 (0.02)
Passed bias filter:                      309  (0.0172346); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.59u 0.24s 00:00:00.83 Elapsed: 00:00:00.45
# Mc/sec: 2751.00
//
Query:       PHY93_18685|PHY93_18685  [L=108]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.062   13.5   0.1       0.13   12.4   0.1    1.6  1  Response_reg  Response regulator receiver domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   7.3e-06      0.13       3     111 ..       6     105 ..       4     106 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 7.3e-06
                              EESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHHHHH CS
             Response_reg   3 ivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseeedave 88 
                               ++    +r+ ++ +l+ +g  e+ ++++ ++ + ll+   +dli+ D++  g    + + ++ e +++   +++ ++++++ ++ 
  PHY93_18685|PHY93_18685   6 YIEKVDFLRSMMEFALKAKGA-EIYTVATLENNFYLLDDLLPDLIIFDVETAG----NHIAQLSEYSSKATLVAVGSEADKSRVEG 86 
                              56666788999999***99*9.***************************8665....34778888888889999998888666555 PP

                              HHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  89 alkagaddflsKpfdpeeLlkal 111
                              ++    + fl+Kp++ +++ +++
  PHY93_18685|PHY93_18685  87 VV----KSFLTKPLEARNIADRI 105
                              54....57999999998887765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (108 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       303  (0.0169); expected 358.6 (0.02)
Passed bias filter:                      271  (0.0151152); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.41
# Mc/sec: 797.42
//
Query:       PHY93_18690|PHY93_18690  [L=71]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.097   11.4   0.0      0.097   11.4   0.0    1.0  1  Glycolytic  Fructose-bisphosphate aldolase class-I


Domain annotation for each model (and alignments):
>> Glycolytic  Fructose-bisphosphate aldolase class-I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   5.4e-06     0.097      55      97 ..       6      45 ..       1      70 [. 0.74

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 5.4e-06
                             .GGGTEEEEEE-HHHHT-B-TTS-BHHHHHHHTT-EEEEE--- CS
               Glycolytic 55 eleeyisGvilfeetlyqkaddgkplvellkekgiipGiKvdk 97
                             ++ ++isG +lfe t  +k++++  ++ +l++ g+  +iK+d 
  PHY93_18690|PHY93_18690  6 RVIDNISGTVLFE-TSVEKMSEAYAFAAMLEDAGL--DIKIDA 45
                             56789*******6.77789999**********996..788885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (71 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       329  (0.0183502); expected 358.6 (0.02)
Passed bias filter:                      294  (0.016398); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 539.80
//
Query:       PHY93_08505|PHY93_08505  [L=200]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (200 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       129  (0.00719505); expected 358.6 (0.02)
Passed bias filter:                       58  (0.00323498); expected 358.6 (0.02)
Passed Vit filter:                         0  (0); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 1509.69
//
Query:       PHY93_08510|PHY93_08510  [L=254]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.079   13.1   0.0       0.17   12.0   0.0    1.5  1  SH3BGR    SH3-binding, glutamic acid-rich protein


Domain annotation for each model (and alignments):
>> SH3BGR  SH3-binding, glutamic acid-rich protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   9.6e-06      0.17       9      52 ..      19      62 ..      10      79 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 9.6e-06
                             SS-SSHHHHHHHHHHHHHHHHTT--EEEEETTT-HHHHHHHHHC CS
                   SH3BGR  9 sssgskeikkkqqevlriLdakkiefdevDitkdeeerelmren 52
                             s +g+ke  k  q+ + +L  +kie++    t++e+ r ++ + 
  PHY93_08510|PHY93_08510 19 SPTGEKEFLKEAQDLMIFLINEKIEYEFFKFTSEEDLRGVLAKA 62
                             6799*********************************9998744 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (254 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       619  (0.0345251); expected 358.6 (0.02)
Passed bias filter:                      369  (0.0205812); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.20s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1920.48
//
Query:       PHY93_16570|PHY93_16570  [L=285]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.4e-26   93.1   0.5    2.1e-26   92.5   0.5    1.2  1  HlyD_D23         Barrel-sandwich domain of CusB or HlyD membr
    4.3e-18   66.0   0.6    3.9e-15   56.5   0.1    2.4  2  HlyD_3           HlyD family secretion protein
    3.3e-17   62.0   0.1    4.5e-12   45.6   0.2    3.0  2  Biotin_lipoyl_2  Biotin-lipoyl like
    2.7e-08   33.6   0.0    3.5e-08   33.2   0.0    1.3  1  HlyD             HlyD membrane-fusion protein of T1SS
    1.7e-06   27.8   0.0     0.0012   18.6   0.0    2.6  2  Biotin_lipoyl    Biotin-requiring enzyme
    2.6e-05   23.2   0.0      0.015   14.1   0.0    2.3  2  HlyD_2           HlyD family secretion protein
     0.0009   19.0   0.1      0.012   15.3   0.0    2.7  4  PTS_EIIA_1       phosphoenolpyruvate-dependent sugar phosphot
     0.0027   17.9   0.0       0.36   11.1   0.0    2.8  2  Peptidase_M23    Peptidase family M23
  ------ inclusion threshold ------
       0.17   12.1   0.0       0.36   11.1   0.0    1.5  1  Ribosomal_L28    Ribosomal L28 family
        0.2   11.1   2.6        0.4   10.1   2.6    1.5  1  SKG6             Transmembrane alpha-helix domain


Domain annotation for each model (and alignments):
>> HlyD_D23  Barrel-sandwich domain of CusB or HlyD membrane-fusion
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   92.5   0.5   1.2e-29   2.1e-26      21     188 ..      48     234 ..      35     237 .. 0.87

  Alignments for each domain:
  == domain 1  score: 92.5 bits;  conditional E-value: 1.2e-29
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX........XXXXXXXX...................XXX CS
                 HlyD_D23  21 rvsarveGwveklyvnatgdkVkkGqpLaelyspelvaaqeeyllalk........akkklkkke..................lle 80 
                               +s+rv+G ++k++v+   +kVk+G+ La+++ ++  +a+++ l+  +        a       +                  +++
  PHY93_16570|PHY93_16570  48 MLSSRVNGTISKVFVE-DHQKVKAGDILAQIDTSDYSNAKTAALAQVAslearvneA-------RvnfkraeelirtqaiskeRFD 125
                              5789************.9*********************998888877455555550.......14555555566666666669** PP

                              XXXXXXXXXXXXXXXXXXXXXXXXXXX.XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                 HlyD_D23  81 aarerLrllgvseeqiaelektgkvqk.tvtvkapisGvVteknvreGqyvqpgdtlftiadlstVWveaevyeqqlalvkvgqkv 165
                              +a++ L+ l+ + ++ ++l+++   ++ ++ + ap +G++ +k+v  Gq+v +g++lf     ++ W+ a++ e++l+ v+ gqkv
  PHY93_16570|PHY93_16570 126 KASADLKDLDAKLKAAESLAEQAGLNEsYTRIIAPNDGIIARKAVEPGQFVPAGQPLFGFVAENKRWILANLKETELEDVRLGQKV 211
                              *******************9887776515679****************************************************** PP

                              XXXXXXXXXXXXXXXXXXXXXXX CS
                 HlyD_D23 166 evtvealpgktfeGkvdyiyptv 188
                              +++v+al+g++feGkv+ i+p+ 
  PHY93_16570|PHY93_16570 212 KIHVDALAGQKFEGKVISIAPST 234
                              ********************975 PP

>> HlyD_3  HlyD family secretion protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.9   0.1    0.0028       5.1       3      33 ..      50      80 ..      48     119 .. 0.76
   2 !   56.5   0.1   2.2e-18   3.9e-15       2      95 ..     157     265 ..     156     277 .. 0.78

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.0028
                   HlyD_3  3 rApvdGvvvelnveegevvqagdelleiipp 33
                              + v G+++++ ve  + v agd l++i   
  PHY93_16570|PHY93_16570 50 SSRVNGTISKVFVEDHQKVKAGDILAQIDTS 80
                             5789***********************9753 PP

  == domain 2  score: 56.5 bits;  conditional E-value: 2.2e-18
                   HlyD_3   2 lrApvdGvvvelnveegevvqagdelleiippdtllveakvpaadlgsikkkgqkvtlkldqgsdytlkgkierisptvd...... 81 
                              + Ap dG+++ + ve+g++v+ag++l+  + +++ ++ a + +++l  ++  gqkv++++d   +++ +gk+ +i+p+++      
  PHY93_16570|PHY93_16570 157 IIAPNDGIIARKAVEPGQFVPAGQPLFGFVAENKRWILANLKETELEDVR-LGQKVKIHVDALAGQKFEGKVISIAPSTGaafsll 241
                              88***********************************************8.**********99999***********665334444 PP

                   HlyD_3  82 ..........aktgaykvevslen 95 
                                        +  ++++v+++len
  PHY93_16570|PHY93_16570 242 ppdnatgnftKVVQRIPVKIELEN 265
                              433322222223335556666665 PP

>> Biotin_lipoyl_2  Biotin-lipoyl like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.6   0.2   2.5e-15   4.5e-12       5      49 ..      49      93 ..      47      94 .. 0.94
   2 !   12.8   0.0   4.3e-05     0.077       4      36 ..     156     188 ..     152     202 .. 0.79

  Alignments for each domain:
  == domain 1  score: 45.6 bits;  conditional E-value: 2.5e-15
          Biotin_lipoyl_2  5 IaapvsGrVaqlnVkdGqrVkaGdvLaelDsralqlalaqaeaql 49
                             ++++v+G++++++V+d q VkaGd+La++D++++ +a+  a aq+
  PHY93_16570|PHY93_16570 49 LSSRVNGTISKVFVEDHQKVKAGDILAQIDTSDYSNAKTAALAQV 93
                             589***********************************9998887 PP

  == domain 2  score: 12.8 bits;  conditional E-value: 4.3e-05
          Biotin_lipoyl_2   4 sIaapvsGrVaqlnVkdGqrVkaGdvLaelDsr 36 
                               I ap +G +a+ +V+ Gq V aG+ L+    +
  PHY93_16570|PHY93_16570 156 RIIAPNDGIIARKAVEPGQFVPAGQPLFGFVAE 188
                              567888*********************965555 PP

>> HlyD  HlyD membrane-fusion protein of T1SS
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.2   0.0     2e-11   3.5e-08      10      66 ..      24     271 ..      14     285 .] 0.82

  Alignments for each domain:
  == domain 1  score: 33.2 bits;  conditional E-value: 2e-11
                              EEE................................................................................... CS
                              xxx................................................................................... RF
                     HlyD  10 ala................................................................................... 12 
                              + +                                                                                   
  PHY93_16570|PHY93_16570  24 VAYfsydsylhvgtdnaqvsahflmlssrvngtiskvfvedhqkvkagdilaqidtsdysnaktaalaqvaslearvnearvnfkr 109
                              44455666666666666677777777777777777777777777777777777777777777777777888888888888888888 PP

                              ...................................................................................... CS
                              ...................................................................................... RF
                     HlyD  13 ...................................................................................... 12 
                                                                                                                    
  PHY93_16570|PHY93_16570 110 aeelirtqaiskerfdkasadlkdldaklkaaeslaeqaglnesytriiapndgiiarkavepgqfvpagqplfgfvaenkrwila 195
                              88888888888888888888888888888888888888999999999999999999999999999999999999999999999999 PP

                              ...EEEEEEEECEEEEEEEGCGEEECTTTSEEEEEEECTSB......................EEEEEEEEEEEETTEE CS
                              ...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......................xxxxxxxxxxxxxxxx RF
                     HlyD  13 ...etdldqvrvgqpvevrfdAfpqtktgkftgvVvgispd......................rvpvrvvvekaqgpyy 66 
                                 et l  vr gq+v++ +dA+ ++   kf+g+V +i+p                       r+pv++++e  ++++ 
  PHY93_16570|PHY93_16570 196 nlkETELEDVRLGQKVKIHVDALAGQ---KFEGKVISIAPStgaafsllppdnatgnftkvvqRIPVKIELENLSEKDI 271
                              999***********************...9******************************************9998876 PP

>> Biotin_lipoyl  Biotin-requiring enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.0   6.9e-07    0.0012      45      73 .]      49      77 ..      29      77 .. 0.90
   2 !    6.5   0.0    0.0042       7.5      44      71 ..     156     183 ..     153     185 .. 0.90

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 6.9e-07
                             EEBSSSEEEEEESSTTTEEE-TTCEEEEE CS
            Biotin_lipoyl 45 ieapkaGvvkeilvkeGdtvevgdllaki 73
                             ++++++G+++++ v++ ++v++gd+la+i
  PHY93_16570|PHY93_16570 49 LSSRVNGTISKVFVEDHQKVKAGDILAQI 77
                             7899**********************987 PP

  == domain 2  score: 6.5 bits;  conditional E-value: 0.0042
                              EEEBSSSEEEEEESSTTTEEE-TTCEEE CS
            Biotin_lipoyl  44 eieapkaGvvkeilvkeGdtvevgdlla 71 
                               i ap +G+++   v+ G+ v +g++l+
  PHY93_16570|PHY93_16570 156 RIIAPNDGIIARKAVEPGQFVPAGQPLF 183
                              578999*******************997 PP

>> HlyD_2  HlyD family secretion protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.8   0.2    0.0013       2.3      69     118 ..      51     104 ..      46     153 .. 0.70
   2 !   14.1   0.0   8.2e-06     0.015     251     307 ..     174     233 ..     163     256 .. 0.83

  Alignments for each domain:
  == domain 1  score: 6.8 bits;  conditional E-value: 0.0013
                   HlyD_2  69 snaegivky.fvkeGdkvkkgkkvaeiqkseadeklkeklet...lnerikeie 118
                              s  +g +++ fv++  kvk g+ +a+i +s  ++ + + l +   l+ r++e  
  PHY93_16570|PHY93_16570  51 SRVNGTISKvFVEDHQKVKAGDILAQIDTSDYSNAKTAALAQvasLEARVNEAR 104
                              5566777553789999*************9999988887766111444554443 PP

  == domain 2  score: 14.1 bits;  conditional E-value: 8.2e-06
                   HlyD_2 251 kkvnkGdpifkivnnqkwYlvtlvekeevkslkegkkvkvkvddee...inakvykiyke 307
                              + v  G+p+f  v ++k ++++ +++ e++ ++ g+kvk++vd      +++kv  i  +
  PHY93_16570|PHY93_16570 174 QFVPAGQPLFGFVAENKRWILANLKETELEDVRLGQKVKIHVDALAgqkFEGKVISIAPS 233
                              44889*************************************975444499999888765 PP

>> PTS_EIIA_1  phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   6.9e-06     0.012      69     115 ..      32      89 ..      18      99 .. 0.82
   2 ?   -1.8   0.0       1.4   2.5e+03      23      49 ..     140     166 ..     129     172 .. 0.69
   3 ?   -0.9   0.0      0.71   1.3e+03      86     103 ..     168     185 ..     161     189 .. 0.84
   4 ?   -2.2   0.0       1.8   3.3e+03      24      38 ..     221     235 ..     208     244 .. 0.62

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 6.9e-06
                              EEE-SSSTTTT...........TTTTEEES----SEE-SEEEEEEE-HHHHGGGSS-- CS
               PTS_EIIA_1  69 lihiGidtvkl...........kgegFellvkegdkVkagdklvevdleaikkagyst 115
                               +h+G d  ++           +g+  +++v++ +kVkagd l+++d    ++a+   
  PHY93_16570|PHY93_16570  32 YLHVGTDNAQVsahflmlssrvNGTISKVFVEDHQKVKAGDILAQIDTSDYSNAKTAA 89 
                              5677777777777777777777*************************99888877655 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 1.4
                              HT-TTSEEEEEEE-SSEEEES--EEEE CS
               PTS_EIIA_1  23 aekmlGdGvaiepsegkvvapvdGkve 49 
                              a + l + + ++ s  +++ap dG + 
  PHY93_16570|PHY93_16570 140 AAESLAEQAGLNESYTRIIAPNDGIIA 166
                              555566666666677789999999885 PP

  == domain 3  score: -0.9 bits;  conditional E-value: 0.71
                              ES----SEE-SEEEEEEE CS
               PTS_EIIA_1  86 llvkegdkVkagdklvev 103
                                v+ g+ V ag++l+ +
  PHY93_16570|PHY93_16570 168 KAVEPGQFVPAGQPLFGF 185
                              57999*********9876 PP

  == domain 4  score: -2.2 bits;  conditional E-value: 1.8
                              T-TTSEEEEEEE-SS CS
               PTS_EIIA_1  24 ekmlGdGvaiepseg 38 
                              +k  G+ + i ps+g
  PHY93_16570|PHY93_16570 221 QKFEGKVISIAPSTG 235
                              455555555555544 PP

>> Peptidase_M23  Peptidase family M23
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.1   0.0    0.0002      0.36      50      79 ..      55      84 ..      13     107 .. 0.79
   2 ?    3.4   0.0     0.051        91      53      69 ..     166     182 ..     151     202 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.0002
                             EEESEESS-TTEEE-TTCEEEEEBSTSSCS CS
            Peptidase_M23 50 ahlskisvkegqkVkaGqvIGtvgstgrst 79
                             + +sk+ v+  qkVkaG++++++ ++  s+
  PHY93_16570|PHY93_16570 55 GTISKVFVEDHQKVKAGDILAQIDTSDYSN 84
                             5688999****************9777655 PP

  == domain 2  score: 3.4 bits;  conditional E-value: 0.051
                              SEESS-TTEEE-TTCEE CS
            Peptidase_M23  53 skisvkegqkVkaGqvI 69 
                               + +v++gq+V aGq++
  PHY93_16570|PHY93_16570 166 ARKAVEPGQFVPAGQPL 182
                              34568999999999976 PP

>> Ribosomal_L28  Ribosomal L28 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0    0.0002      0.36      23      49 ..     189     215 ..     173     217 .. 0.94

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.0002
                              -SSS-BTTEEEEEEEE.TTTEEEEEEE CS
            Ribosomal_L28  23 TkRtwkPNlqkvrlwseelgrkvrikv 49 
                              +kR+ + Nl++  l    lg+kv+i+v
  PHY93_16570|PHY93_16570 189 NKRWILANLKETELEDVRLGQKVKIHV 215
                              79***********************98 PP

>> SKG6  Transmembrane alpha-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   2.6   0.00022       0.4      17      31 ..      13      27 ..      12      29 .. 0.93

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00022
                     SKG6 17 aVPVaViiivLlail 31
                             ++PVaVi+i+++a++
  PHY93_16570|PHY93_16570 13 GIPVAVILIAVVAYF 27
                             8***********987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (285 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       890  (0.0496402); expected 358.6 (0.02)
Passed bias filter:                      591  (0.0329634); expected 358.6 (0.02)
Passed Vit filter:                        59  (0.00329076); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.41
# Mc/sec: 2085.12
//
Query:       PHY93_08515|PHY93_08515  [L=810]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.5e-10   38.7   0.0    3.4e-09   36.9   0.0    2.0  1  ResIII    Type III restriction enzyme, res subunit
     0.0025   18.3   0.3      0.015   15.8   0.0    2.4  2  T5orf172  T5orf172 domain
  ------ inclusion threshold ------
       0.14   12.8   0.3       0.39   11.4   0.3    1.7  1  Ant_C     Anthrax receptor C-terminus region


Domain annotation for each model (and alignments):
>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.9   0.0   5.7e-13   3.4e-09       2     170 ..     108     290 ..     107     291 .. 0.76

  Alignments for each domain:
  == domain 1  score: 36.9 bits;  conditional E-value: 5.7e-13
                              -EE-HHHHHHHHHHT................TTSEEEEEESTTSTHHHHHHHHHHHH-S.....-EEEEESSHHHHHHHHHHGGGG CS
                   ResIII   2 lelreyQeeaienlleklks..........krdkrglikmaTGtGKTlvaaklierllkkgkeekflflvprkslleqtleefkkf 77 
                              ++lr+ Q e+ie+ ++ + +          ++ +r+l+++    GK +++++l+++l+ k    ++l++  + +++  +++++++ 
  PHY93_08515|PHY93_08515 108 YSLRQEQSEVIEKAKKWFLNgysediirasTHPERFLVNAKMRFGKCFTSIHLAKSLSAK----NILIVTYKPDVIGEWIDTVNNQ 189
                              6799999999999996666678889999999999*************************8....****************999777 PP

                              TGG......GEEEESSS-B--..............-SEEEEEHHHHHHTH........HH.HTTT-SEEEEETGGGTTS.TTTHHH CS
                   ResIII  78 lseayke..igkkvsgdkkka.......kekdstnkkilvttiqsldadseeeeeeseel.lrdrfdviiiDEaHrlgakkswrei 153
                              +  +        k++ d+ +           ++    +l ++ q l+ d + +++++ ++    + d++i+DE+H  ++ +  ++i
  PHY93_08515|PHY93_08515 190 IAFDGWTgiR-AKKKADRPNDpylndngDFPNTLGPIVLCVSLQDLSIDAKGKTKDRLQKiPLIEWDLVIFDEVHYGSRTERAKHI 274
                              7665433432.22222222223454432112334444555788999999987755555540556788************99***** PP

                              HHT---SEEEEEESS-S CS
                   ResIII 154 lekfkeavllglTATpe 170
                              l+++k +++l+l++Tp 
  PHY93_08515|PHY93_08515 275 LNYLK-SKRLDLSGTPF 290
                              ***99.9*********7 PP

>> T5orf172  T5orf172 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.0   2.5e-06     0.015       2     102 ..       7      98 ..       6     104 .. 0.76
   2 ?   -1.6   0.1      0.68   4.1e+03      61      94 ..     702     727 ..     682     733 .. 0.69

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 2.5e-06
                 T5orf172   2 yvYiltnessegetillKIGrtsn..vqrRlkelskyptkppselevvaekevrkvpnahrvErlihkeLadrryrvkcdcgkehr 85 
                              y+Y  +n+ ++g    +K+G ++    ++R+ke+    t++p++ +++      ++pn    ++ ih++L +  +++   +g   +
  PHY93_08515|PHY93_08515   7 YAYSTENYLKKGL---VKVGHCKIgrHHKRIKEQF--GTSNPEQPQYILL---GELPNG-ITDKSIHAQLIKNGCKQV--KGGPGK 81 
                              4555556666666...*******999*******99..6888888888665...556554.46**********666663..4447** PP

                 T5orf172  86 EwFevsleevdevvrri 102
                              EwF  + ++v+ +++++
  PHY93_08515|PHY93_08515  82 EWFHATFNDVRVAYNEV 98 
                              ****9988887766654 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 0.68
                 T5orf172  61 vErlihkeLadrryrvkcdcgkehrEwFevslee 94 
                              vE  i ke ++   r+      +++ wF+ + ++
  PHY93_08515|PHY93_08515 702 VEDFIEKEKDE--ERQ------SQKKWFSTQIKR 727
                              45555555544..333......589999987766 PP

>> Ant_C  Anthrax receptor C-terminus region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.3   6.5e-05      0.39      13      63 ..     682     732 ..     678     753 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 6.5e-05
                    Ant_C  13 aklekaknavvklpeeeeeplekkpkkkkarkkkkqkkWytPikgkldall 63 
                               kle +kn     pee+e+ +e   +k+k +++++qkkW++    +l   +
  PHY93_08515|PHY93_08515 682 EKLEATKNDPAIPPEEKEKAVEDFIEKEKDEERQSQKKWFSTQIKRLAICM 732
                              59******999889988888889999999999********87655664443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (810 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       937  (0.0522617); expected 358.6 (0.02)
Passed bias filter:                      528  (0.0294495); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.71u 0.29s 00:00:01.00 Elapsed: 00:00:00.45
# Mc/sec: 5429.88
//
Query:       PHY93_08520|PHY93_08520  [L=480]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.8e-21   76.0   0.0    1.2e-20   74.0   0.0    2.1  1  Eco57I         Eco57I restriction-modification methylase
  ------ inclusion threshold ------
      0.026   13.2   0.7      0.063   12.0   0.1    1.8  2  Pox_int_trans  Poxvirus intermediate transcription factor


Domain annotation for each model (and alignments):
>> Eco57I  Eco57I restriction-modification methylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.0   0.0   1.3e-24   1.2e-20       5     104 ..     166     261 ..     163     263 .. 0.88

  Alignments for each domain:
  == domain 1  score: 74.0 bits;  conditional E-value: 1.3e-24
                   Eco57I   5 viiGNPPYqeseakkelkaleekakdiyqkFvekalkle.dkylaliiparflasgkglkefrekllkdkklkklvefedskevFk 89 
                              + iGNPPYqes+   ++   + +a+++y+ F e  ++ +    ++l+ip+r++++gkg + fre+++k+k++k++ +fe+s++vF+
  PHY93_08520|PHY93_08520 166 IAIGNPPYQESD---GGF--GGSATAVYNFFTEALMDSAdISEVVLVIPSRWFTTGKGATAFRERVMKSKTIKTIQHFEHSQKVFP 246
                              569*********...444..6778999999998877776446778***************************************** PP

                   Eco57I  90 dveikggilvflkdk 104
                              +v+++gg+++f +++
  PHY93_08520|PHY93_08520 247 TVDVQGGVCFFHHKA 261
                              **********98765 PP

>> Pox_int_trans  Poxvirus intermediate transcription factor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.1   7.1e-06     0.063     112     136 ..     141     165 ..     114     171 .. 0.82
   2 ?   -1.9   0.1      0.11     1e+03     130     143 ..     342     355 ..     336     364 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 7.1e-06
            Pox_int_trans 112 taeiferdksslvsyikttnkkkki 136
                               ++ fe++ ss++ yik t+kkkki
  PHY93_08520|PHY93_08520 141 DRDKFEKEFSSMIEYIKSTSKKKKI 165
                              5788********************8 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 0.11
            Pox_int_trans 130 tnkkkkidyGeikk 143
                                k++ki+y +ik 
  PHY93_08520|PHY93_08520 342 FTKRRKIQYANIKD 355
                              579********985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (480 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       727  (0.0405488); expected 358.6 (0.02)
Passed bias filter:                      456  (0.0254337); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.41
# Mc/sec: 3517.80
//
Query:       PHY93_08525|PHY93_08525  [L=195]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (195 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       667  (0.0372023); expected 358.6 (0.02)
Passed bias filter:                      409  (0.0228122); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1473.06
//
Query:       PHY93_08530|PHY93_08530  [L=74]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
       0.11   11.6   0.0       0.11   11.5   0.0    1.1  1  Complex1_49kDa  Respiratory-chain NADH dehydrogenase, 49 Kd s
       0.13   12.3   0.2       0.24   11.4   0.2    1.5  1  BSD             BSD domain


Domain annotation for each model (and alignments):
>> Complex1_49kDa  Respiratory-chain NADH dehydrogenase, 49 Kd subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   1.3e-05      0.11      41      80 ..      19      58 ..       6      68 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 1.3e-05
                             SS---TTHHHHHHHHHHHHHHHHHHHHHHHHSSSSHHHHH CS
           Complex1_49kDa 41 arDlpegllekikeflkelekkldeleklltknrifkkRt 80
                             ++Dl+e+l ++i e+++ ++k++ + e l+ kn+i+++ +
  PHY93_08530|PHY93_08530 19 TADLKEQLNNMIDEVVDLYNKNVPDGEYLYRKNEIIIEAL 58
                             68*********************************99754 PP

>> BSD  BSD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.2   2.7e-05      0.24       5      34 ..      14      43 ..      12      57 .. 0.92

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 2.7e-05
                      BSD  5 fkldkteeiaqsllkedpeLrklynelVPs 34
                             f++ +t+++ + l +   e+  lyn++VP+
  PHY93_08530|PHY93_08530 14 FSFRITADLKEQLNNMIDEVVDLYNKNVPD 43
                             5555*************************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (74 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       857  (0.0477997); expected 358.6 (0.02)
Passed bias filter:                      627  (0.0349713); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 559.71
//
Query:       PHY93_08535|PHY93_08535  [L=486]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.6e-37  126.8   0.6    1.3e-36  125.8   0.2    1.8  2  DUF2779   Domain of unknown function(DUF2779)
     0.0062   16.7   0.4      0.026   14.7   0.4    2.1  1  Cas_Cas4  Domain of unknown function DUF83


Domain annotation for each model (and alignments):
>> DUF2779  Domain of unknown function(DUF2779)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.9   0.0         2   1.8e+04     103     111 ..     151     164 ..     128     167 .. 0.67
   2 !  125.8   0.2   1.5e-40   1.3e-36       1     126 []     292     417 ..     292     417 .. 0.98

  Alignments for each domain:
  == domain 1  score: -3.9 bits;  conditional E-value: 2
                  DUF2779 103 n.....lvDlldlf 111
                              +     ++Dl d+f
  PHY93_08535|PHY93_08535 151 QyvfdgTLDLNDFF 164
                              33334488888887 PP

  == domain 2  score: 125.8 bits;  conditional E-value: 1.5e-40
                  DUF2779   1 yflDFEtiqlalPpfdgtkpYqqipfqfSlhilqeegev.ehkeflaespntdpreelieeLikiiekegsvvvynksfEksrlke 85 
                              yflDFE++  a+P++ +t pYqqipfq S+h l+ +g + +h++fl+ + +tdpr +l + Lik++e+ gs+++y++s+Ek rl e
  PHY93_08535|PHY93_08535 292 YFLDFEAFIQAIPRYPKTTPYQQIPFQASIHRLKGQGLKlKHFSFLNID-DTDPRLALSKFLIKSLEEYGSIIAYHASYEKGRLYE 376
                              8*********************************998888******866.79********************************** PP

                  DUF2779  86 laqlfpeykeelkqiienlvDlldlfkkslyyhpelkGsyS 126
                              l++ +p+y++el ++i++++Dl ++f+k++y+hp+++Gs+S
  PHY93_08535|PHY93_08535 377 LIKSAPQYEKELLALIDRIWDLEEIFNKGMYVHPDFQGSTS 417
                              ***************************************98 PP

>> Cas_Cas4  Domain of unknown function DUF83
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.4   2.9e-06     0.026      54     161 ..      96     218 ..      53     219 .. 0.68

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 2.9e-06
                 Cas_Cas4  54 sikiDvvekekeklvvvEvKkskkkeeaaklQllyYlllLekkgveikeGvleypkekkree..............velteelree 125
                                + D+++   ++ ++vE+K+ ++ ++++ l + ++ +lLek gv+i++ ++  ++++   +               e+  ++  e
  PHY93_08535|PHY93_08535  96 ITRPDILN--FKDNELVEIKSTTEVKDDHILDIAFQKYLLEKCGVKINKVKIGHINKQYVFDgtldlndffiftdvTEIISHKILE 179
                              55678887..677889********************************88887777665555555555555554433444444444 PP

                 Cas_Cas4 126 lekaikeieeiissekppkvkkkkiC...kkCayaelCl 161
                              le+ +  i++ii++   p+    ++C   + C y++ C+
  PHY93_08535|PHY93_08535 180 LENDLLIINDIIKNGVLPERLIGSHCnseSGCPYKKDCW 218
                              555555566666666666666666663333466666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (486 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       640  (0.0356964); expected 358.6 (0.02)
Passed bias filter:                      426  (0.0237604); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.55u 0.21s 00:00:00.76 Elapsed: 00:00:00.38
# Mc/sec: 3814.65
//
Query:       PHY93_08540|PHY93_08540  [L=49]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (49 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       670  (0.0373696); expected 358.6 (0.02)
Passed bias filter:                      369  (0.0205812); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.23s 00:00:00.63 Elapsed: 00:00:00.40
# Mc/sec: 371.45
//
Query:       PHY93_08545|PHY93_08545  [L=495]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (495 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       620  (0.0345808); expected 358.6 (0.02)
Passed bias filter:                      463  (0.0258241); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.59u 0.23s 00:00:00.82 Elapsed: 00:00:00.42
# Mc/sec: 3569.40
//
Query:       PHY93_08550|PHY93_08550  [L=79]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.8e-08   33.1   0.0    6.6e-08   32.6   0.0    1.2  1  HTH_17        Helix-turn-helix domain
  ------ inclusion threshold ------
      0.025   14.7   0.2      0.045   13.8   0.1    1.5  2  MerR_1        MerR HTH family regulatory protein
      0.046   13.5   0.3       0.32   10.8   0.0    2.1  2  HTH_DeoR      DeoR-like helix-turn-helix domain
       0.07   13.2   0.8       0.11   12.6   0.1    1.7  2  Exonuc_VII_S  Exonuclease VII small subunit


Domain annotation for each model (and alignments):
>> HTH_17  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.6   0.0   1.5e-11   6.6e-08       3      50 ..      26      74 ..      24      75 .. 0.93

  Alignments for each domain:
  == domain 1  score: 32.6 bits;  conditional E-value: 1.5e-11
                   HTH_17  3 tveEaAelLgvsrstvyrli.rrgelpaakiGrrwriprsdleewlekr 50
                             + eEaA++L+    tv  +  r+++l ++++G+ + ++r+dlee++ek+
  PHY93_08550|PHY93_08550 26 SLEEAAAFLKTTTETVEYYSkRQKQLSHVNLGGTLVFRRKDLEEFMEKK 74
                             78******************6699**999******************85 PP

>> MerR_1  MerR HTH family regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.0     0.024   1.1e+02      44      66 ..      11      34 ..       4      36 .. 0.70
   2 ?   13.8   0.1     1e-05     0.045       1      46 [.      25      70 ..      25      77 .. 0.86

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.024
                             HHHHHHH.HHHHTT--GGG---XX CS
                   MerR_1 44 erLklik.yLlkrGltlkgikkll 66
                             +rL +i   L k+ ++l++++  l
  PHY93_08550|PHY93_08550 11 RRLGKIIdDLNKQTFSLEEAAAFL 34
                             555555505666******998876 PP

  == domain 2  score: 13.8 bits;  conditional E-value: 1e-05
                             EEHHHHHHHHTS-HHHHHHHHHHTT.-S-EE-TTS-EEEEHHHHHHH CS
                   MerR_1  1 ysigevakilgvtthtlrywekegl.lkpkrteggrryYtdedierL 46
                             +s+ e+a  l +tt t+ y+ k+ + l     +g+   ++++d+e++
  PHY93_08550|PHY93_08550 25 FSLEEAAAFLKTTTETVEYYSKRQKqLSHVNLGGT-LVFRRKDLEEF 70
                             5889*********************7777665555.99999999986 PP

>> HTH_DeoR  DeoR-like helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   7.2e-05      0.32       1      31 [.      12      41 ..      12      41 .. 0.91
   2 ?    0.4   0.1      0.12   5.6e+02      32      43 ..      64      75 ..      63      78 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 7.2e-05
                 HTH_DeoR  1 RieqilellkqqgklsveelvellgvSeaTi 31
                             R+ +i++ l++q + s+ee+++ l+++++T+
  PHY93_08550|PHY93_08550 12 RLGKIIDDLNKQ-TFSLEEAAAFLKTTTETV 41
                             889999999987.56***************8 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.12
                 HTH_DeoR 32 RRDLneLeeqgl 43
                             R+DL+e  e+ l
  PHY93_08550|PHY93_08550 64 RKDLEEFMEKKL 75
                             99**99988765 PP

>> Exonuc_VII_S  Exonuclease VII small subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.1   2.3e-05      0.11       4      36 ..       9      41 ..       8      54 .. 0.81
   2 ?   -2.0   0.1      0.86   3.9e+03      38      41 ..      70      73 ..      65      77 .. 0.47

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 2.3e-05
             Exonuc_VII_S  4 alaeLeeIvekLEsgelsLeeslklyeeGvkLl 36
                              l +L +I++ L+++  sLee+ +  +  ++ +
  PHY93_08550|PHY93_08550  9 ILRRLGKIIDDLNKQTFSLEEAAAFLKTTTETV 41
                             689*******************98776655555 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.86
             Exonuc_VII_S 38 eCek 41
                             + ek
  PHY93_08550|PHY93_08550 70 FMEK 73
                             3344 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (79 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1192  (0.0664845); expected 358.6 (0.02)
Passed bias filter:                      760  (0.0423894); expected 358.6 (0.02)
Passed Vit filter:                        84  (0.00468515); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.38
# Mc/sec: 627.38
//
Query:       PHY93_08555|PHY93_08555  [L=511]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0019   18.0   0.0     0.0052   16.6   0.0    1.8  2  Phage_integrase  Phage integrase family
  ------ inclusion threshold ------
      0.012   15.9   1.9      0.012   15.9   1.9    2.3  2  Phage_int_SAM_5  Phage integrase SAM-like domain
      0.091   12.4   0.1       0.15   11.7   0.1    1.3  1  DUF1989          Domain of unknown function (DUF1989)


Domain annotation for each model (and alignments):
>> Phage_integrase  Phage integrase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   8.7e-07    0.0052      26     167 ..     251     420 ..     228     425 .. 0.72
   2 ?   -2.7   0.1      0.73   4.4e+03      68     104 ..     435     472 ..     428     484 .. 0.64

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 8.7e-07
                              HHHHHHHHT--HHHHTT-BGGGEECTTTEEEEE.........EEECSSSSE.......EEEECT....HHHHHHHHHHHHHHCHCC CS
          Phage_integrase  26 llellyetGlRisEllsLrvkdldlengvilvh.........eregKgske.......ravpls....eealellkellskaleea 91 
                              +++l  e G R++E+ls    +++l++g  l                           r +pl+    + +l+ll++  +++   +
  PHY93_08555|PHY93_08555 251 IIRLWREIGPRTGEMLSFGECNVELKDGMPLNLnikelqtikF-------TpkteiskRPIPLTdsgsDYILSLLQKFEGVKRYGK 329
                              5666666677777777666666666666654311223333322.......023334458899987787889999999998884444 PP

                              TTTS.....BSSBET...TSSB--HHHHHHHHHHHHHHCT-S......SC--TTHHHHHHHHHHHH.HCTSHHHHHHHHT-SSCCH CS
          Phage_integrase  92 ekse.....llfask...rgkplsrqtvrkafkraveeagie......kpltpHtlRhsfataLle.agvdlrvvqkllGHssist 162
                               k+e     +lf+ k    ++  ++ +++k fk++ ++a  e      ++  p +lR+s+   L + +g+ ++  +++lGHs+   
  PHY93_08555|PHY93_08555 330 VKNEivefpFLFVFKdsnGNWVRNDAKFKKLFKKITQHAIQEfnlpytEKYIPYDLRRSCNLYLRKdRGMEISQAANFLGHSEETN 415
                              4444555666666666677788888999999999999977778888999***********99998637***************999 PP

                              HHHHH CS
          Phage_integrase 163 tqiYt 167
                               ++Yt
  PHY93_08555|PHY93_08555 416 KKHYT 420
                              99998 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 0.73
                              EEEECTHHHHHHHHHHHHHH.CHCCTTTSBSSBETTSS CS
          Phage_integrase  68 ravplseealellkellska.leeaeksellfaskrgk 104
                               a++ s+ + +  ++l+s++  +e +k++l++a ++ +
  PHY93_08555|PHY93_08555 435 NALMASMRVNPETEKLYSRHfQKETPKTSLVLATQKIQ 472
                              44555566777777777777777777777777766544 PP

>> Phage_int_SAM_5  Phage integrase SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.9   1.9     2e-06     0.012       2      87 ..     102     193 ..     101     197 .. 0.87
   2 ?   -0.1   0.1       0.2   1.2e+03      42      54 ..     360     372 ..     312     419 .. 0.69

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 2e-06
                              HHHHHHHHTHHHHTTS-HHHHHHHHHHHHHTTTS-...S---TTT--HHHHHHHHHHH......HHTS---HHHHHHHHHHHHHHH CS
          Phage_int_SAM_5   2 fldyfkeyiekkkkkgskgtlrnykstlkhlkkFl.kkkditfeeidkefleeFedYL......kkkkglsentiskyfkklkavl 80 
                              f +yf+ey++ +++k  + ++++ k++ + ++ +  +k+  ++ +i+ e l++ ++ L      ++++ l  +t ++y k+++a+l
  PHY93_08555|PHY93_08555 102 FKKYFNEYATGERSKL-DESKNTQKTVSRAVTAYFlNKNIDSVCQITNEHLKDWDTDLlirlnkRTGELLEGSTRNSYRKCFRAFL 186
                              779*******999999.7778888888888888773545578**************999***999999****************** PP

                              HHHHHTT CS
          Phage_int_SAM_5  81 nkAikeg 87 
                              n A ++ 
  PHY93_08555|PHY93_08555 187 NTAKDHS 193
                              ***9876 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.2
                              -TTT--HHHHHHH CS
          Phage_int_SAM_5  42 tfeeidkefleeF 54 
                               f++i++  ++eF
  PHY93_08555|PHY93_08555 360 LFKKITQHAIQEF 372
                              3444444444444 PP

>> DUF1989  Domain of unknown function (DUF1989)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.1   2.5e-05      0.15      35     138 ..     106     210 ..     102     222 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 2.5e-05
                  DUF1989  35 fnaddprerlsaadTrklqgsahlttgdrlysnlgrplltiveDtvgrHDt.lggacdaevnellygegkeyhrnCrdnllralak 119
                              fn+  + er +  ++ ++q+++   +   +++++   +++i++ +++  Dt l+ + ++++ ell g+ ++  r+C   +l+ +++
  PHY93_08555|PHY93_08555 106 FNEYATGERSKLDESKNTQKTVSRAVTAYFLNKNIDSVCQITNEHLKDWDTdLLIRLNKRTGELLEGSTRNSYRKCFRAFLNTAKD 191
                              6777788899999999999999999999999999************98888788999999999999988899************99 PP

                  DUF1989 120 yglterdvpdvlNlFmnvg 138
                              +    +  pd +N+F  ++
  PHY93_08555|PHY93_08555 192 HSYPLQCAPDKMNIFEYTK 210
                              ***************9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (511 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       814  (0.0454013); expected 358.6 (0.02)
Passed bias filter:                      461  (0.0257125); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.63u 0.20s 00:00:00.83 Elapsed: 00:00:00.41
# Mc/sec: 3722.00
//
Query:       PHY93_08560|PHY93_08560  [L=82]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (82 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       418  (0.0233142); expected 358.6 (0.02)
Passed bias filter:                      303  (0.0169); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.24s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 630.43
//
Query:       PHY93_16575|PHY93_16575  [L=437]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.8e-50  169.1  23.1    2.5e-25   89.4   9.6    2.1  2  OEP       Outer membrane efflux protein


Domain annotation for each model (and alignments):
>> OEP  Outer membrane efflux protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.9   5.5   1.7e-28     3e-24       1     188 []      30     222 ..      30     222 .. 0.93
   2 !   89.4   9.6   1.4e-29   2.5e-25      10     188 .]     257     436 ..     248     436 .. 0.97

  Alignments for each domain:
  == domain 1  score: 85.9 bits;  conditional E-value: 1.7e-28
                      OEP   1 ldellalalennpdlkaaeaeieaaeanlkaakaeflPtlslsgsygyegngsegggddggtgtt.....svgltlsqplfdggkr 81 
                              ld++++  l+nnp+l  + a++  a+  +k++ + +lP+++l ++  ++            + ++     s+g+++s++lfdg k+
  PHY93_16575|PHY93_16575  30 LDQAMSEGLKNNPQLETSSAALSEAQWKKKESFGGYLPKVDLVANHFFDLKYQQIQISPTSVFDStypatSYGAQASLNLFDGMKT 115
                              79***********************99999999999*********9998888776666655555589999**************** PP

                      OEP  82 rarvkaakaqleaaeaqleqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislldvlqaqvrllqara 167
                               ++  aa+a++eaa ++l+ ++  +++ ++  ++q l a+ ++e+ae ++k + ++l++a++++++G+ +++dvl +qv+l qa  
  PHY93_16575|PHY93_16575 116 TYANSAAQANVEAADLELNHTKMATENSIHLKFFQALGAQVLREVAETNVKTLSDHLKRAQDLLRQGEFTKVDVLKIQVQLEQAIP 201
                              ************************************************************************************99 PP

                      OEP 168 elaeaeqqlqlaraqLeyllg 188
                              e ++a  +  l+r  L++++g
  PHY93_16575|PHY93_16575 202 EKLAAADNAYLSRKSLSEIMG 222
                              988888888888888888776 PP

  == domain 2  score: 89.4 bits;  conditional E-value: 1.4e-29
                      OEP  10 ennpdlkaaeaeieaaeanlkaakaeflPtlslsgsygyegngsegggddggtgtt.svgltlsqplfdggkrrarvkaakaqlea 94 
                              + ++dlka+++++ea+   +ka+++ ++P+++l + y++++n + +++d+  + ++ ++g+++ ++lfdgg+ +ar +++ +q+ +
  PHY93_16575|PHY93_16575 257 KGRLDLKALQKRVEASDDLYKASRSIWMPKVNLIADYQHYNNRDFSFTDSQKFRNSyAIGMNFVWNLFDGGSSYARQEQSYYQKVQ 342
                              5699*****************************************99999999988****************************** PP

                      OEP  95 aeaqleqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislldvlqaqvrllqaraelaeaeqqlqlar 180
                               e++ +++ +  ++ev+    ++l++  ++ +  ++++++++ ++++++ +kaG+ + +d+l+a+ +l++++a  ++a+ +   a+
  PHY93_16575|PHY93_16575 343 LEQRARKMNLASANEVEFWKRRYLNSTILYSAKLRSVDASRESVRIYQTGLKAGTRTNSDLLDAELDLDRSEAGVVKAQVDAVEAL 428
                              ************************************************************************************** PP

                      OEP 181 aqLeyllg 188
                              ++Le+++g
  PHY93_16575|PHY93_16575 429 LNLELAMG 436
                              ******98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (437 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       604  (0.0336884); expected 358.6 (0.02)
Passed bias filter:                      295  (0.0164538); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.22s 00:00:00.77 Elapsed: 00:00:00.41
# Mc/sec: 3224.82
//
Query:       PHY93_08565|PHY93_08565  [L=91]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.4e-10   41.4   0.2      4e-10   40.0   0.1    1.7  2  HTH_26         Cro/C1-type HTH DNA-binding domain
    1.9e-08   34.2   0.2    2.8e-08   33.7   0.2    1.3  1  HTH_3          Helix-turn-helix
    1.2e-07   31.6   0.2    1.6e-07   31.2   0.2    1.3  1  HTH_19         Helix-turn-helix domain
    0.00023   20.8   0.0    0.00036   20.2   0.0    1.3  1  HTH_psq        helix-turn-helix, Psq domain
    0.00026   20.8   0.1     0.0014   18.4   0.0    1.9  2  HTH_5          Bacterial regulatory protein, arsR family
    0.00053   19.7   0.1     0.0046   16.7   0.0    2.2  3  HTH_IclR       IclR helix-turn-helix domain
     0.0099   15.9   0.0      0.018   15.1   0.0    1.5  1  Phage_CI_repr  Bacteriophage CI repressor helix-turn-helix do
  ------ inclusion threshold ------
      0.014   15.4   0.0      0.037   14.1   0.0    1.7  2  HTH_35         Winged helix-turn-helix DNA-binding
      0.016   15.4   0.0      0.029   14.5   0.0    1.4  1  HTH_Tnp_1_2    Helix-turn-helix of insertion element transpos
      0.016   15.3   0.0      0.093   12.8   0.0    2.1  2  MerR_1         MerR HTH family regulatory protein
      0.021   14.5   0.0      0.038   13.6   0.0    1.5  1  CENP-B_N       CENP-B N-terminal DNA-binding domain
      0.026   14.3   0.0      0.051   13.3   0.0    1.5  1  MerR           MerR family regulatory protein
      0.096   12.6   0.0       0.17   11.8   0.0    1.4  1  TrmB           Sugar-specific transcriptional regulator TrmB
       0.12   12.7   0.0       0.32   11.3   0.0    1.6  2  HTH_Tnp_1      Transposase


Domain annotation for each model (and alignments):
>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.0   0.1   3.1e-13     4e-10       1      57 [.       5      59 ..       5      60 .. 0.96
   2 ?   -1.3   0.0       2.4     3e+03      14      24 ..      70      80 ..      69      89 .. 0.74

  Alignments for each domain:
  == domain 1  score: 40.0 bits;  conditional E-value: 3.1e-13
                   HTH_26  1 kLrelmadrgitkseLargtgisaatlsrlvkgkpervsldtLdkiCdaLgctpgDL 57
                             +L++++ ++++++seL+r+t+i ++tl +++ g+  +++l  Ldk++++Lg +++ L
  PHY93_08565|PHY93_08565  5 NLKKILEEKEMSISELSRKTDIPKSTLMTWLAGR--TPDLLQLDKVAQYLGTNIESL 59
                             8********************************9..9**************999865 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 2.4
                   HTH_26 14 seLargtgisa 24
                             seL+++++i+ 
  PHY93_08565|PHY93_08565 70 SELMQKVEIHT 80
                             67888777764 PP

>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.7   0.2   2.1e-11   2.8e-08       1      53 [.       6      57 ..       6      59 .. 0.95

  Alignments for each domain:
  == domain 1  score: 33.7 bits;  conditional E-value: 2.1e-11
                             HHHHHHHTTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHH CS
                    HTH_3  1 lkelRkqlglsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvsld 53
                             lk++++++ +s+ eL++k+++++st+  +  G r P+l  l k+a++Lg+ ++
  PHY93_08565|PHY93_08565  6 LKKILEEKEMSISELSRKTDIPKSTLMTWLAG-RTPDLLQLDKVAQYLGTNIE 57
                             89******************************.66**************9987 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.2   0.2   1.3e-10   1.6e-07       2      59 ..       4      59 ..       4      77 .. 0.94

  Alignments for each domain:
  == domain 1  score: 31.2 bits;  conditional E-value: 1.3e-10
                   HTH_19  2 erLkeaReelgltqeelaerlgisrskisaiEngkkdvpsaelllkiaealgidleyl 59
                             ++Lk++ ee+ +++ el+++++i +s ++ +  g+  +p+   l k+a++lg ++e l
  PHY93_08565|PHY93_08565  4 KNLKKILEEKEMSISELSRKTDIPKSTLMTWLAGR--TPDLLQLDKVAQYLGTNIESL 59
                             69********************************8..6999999**********9977 PP

>> HTH_psq  helix-turn-helix, Psq domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.2   0.0   2.8e-07   0.00036       9      34 ..       6      32 ..       2      42 .. 0.85

  Alignments for each domain:
  == domain 1  score: 20.2 bits;  conditional E-value: 2.8e-07
                  HTH_psq  9 leavvnGk.mSirkAArkYgiPrsTLw 34
                             l+ ++++k mSi++++rk +iP+sTL 
  PHY93_08565|PHY93_08565  6 LKKILEEKeMSISELSRKTDIPKSTLM 32
                             567898888****************96 PP

>> HTH_5  Bacterial regulatory protein, arsR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0   1.1e-06    0.0014       9      33 ..       8      32 ..       6      36 .. 0.89
   2 ?   -0.2   0.0      0.71   9.1e+02      14      27 ..      65      78 ..      63      81 .. 0.79

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 1.1e-06
                             HHHTTSSEEHHHHHHHHTS-HHHHH CS
                    HTH_5  9 klLaegelcvcelaeelglsqstvS 33
                             k+L+e+e++++el++++++++st+ 
  PHY93_08565|PHY93_08565  8 KILEEKEMSISELSRKTDIPKSTLM 32
                             57999******************86 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.71
                             SSEEHHHHHHHHTS CS
                    HTH_5 14 gelcvcelaeelgl 27
                             +e  ++el+ ++++
  PHY93_08565|PHY93_08565 65 QEDIFSELMQKVEI 78
                             666789***99987 PP

>> HTH_IclR  IclR helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.0   3.6e-06    0.0046      17      34 ..      13      30 ..      10      33 .. 0.91
   2 ?    0.7   0.0      0.36   4.6e+02       8      29 ..      31      53 ..      30      55 .. 0.80
   3 ?   -2.6   0.0       3.9   4.9e+03      12      29 ..      61      77 ..      60      80 .. 0.62

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 3.6e-06
                             SS-BHHHHHHHHTS-HHH CS
                 HTH_IclR 17 qeltlselArrtglpkSt 34
                              e+++sel+r+t++pkSt
  PHY93_08565|PHY93_08565 13 KEMSISELSRKTDIPKST 30
                             68***************9 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.36
                             HHCT-CTTBSS-.BHHHHHHHHT CS
                 HTH_IclR  8 iLdalaeapqel.tlselArrtg 29
                             ++  la ++++l  l  +A+ +g
  PHY93_08565|PHY93_08565 31 LMTWLAGRTPDLlQLDKVAQYLG 53
                             56778999999669999999998 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 3.9
                             -CTTBSS-BHHHHHHHHT CS
                 HTH_IclR 12 laeapqeltlselArrtg 29
                             +++ +++  +sel ++  
  PHY93_08565|PHY93_08565 61 FGRKQEDI-FSELMQKVE 77
                             66666664.777777655 PP

>> Phage_CI_repr  Bacteriophage CI repressor helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0   1.4e-05     0.018      16      63 ..      18      65 ..       3      67 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.4e-05
                             HHHHCCTT--HHHHHHHHHSSS--.HHHHHHHHHHH---HHHHHC-SS- CS
            Phage_CI_repr 16 keLAdlLgiakssvstwvrRdffP.gdvvvtcaletdtsLewLatGkgq 63
                             +eL+   +i+ks++ tw   +++P   ++ ++a  ++t++e La+G +q
  PHY93_08565|PHY93_08565 18 SELSRKTDIPKSTLMTWLA-GRTPdLLQLDKVAQYLGTNIESLAFGRKQ 65
                             69999************98.566757778899**************987 PP

>> HTH_35  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   2.9e-05     0.037      10      54 ..       9      55 ..       3      63 .. 0.77
   2 ?   -1.4   0.0       1.9   2.4e+03       4      14 ..      65      75 ..      62      88 .. 0.71

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 2.9e-05
                   HTH_35 10 aLrkrgttLaalsreaglssstlsnaltrpwpkgEal..IAeaLgvp 54
                              L+++++++++lsr+ ++ +stl   l+ + p   +l  +A+ Lg++
  PHY93_08565|PHY93_08565  9 ILEEKEMSISELSRKTDIPKSTLMTWLAGRTPDLLQLdkVAQYLGTN 55
                             699********************999887766543332366666665 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 1.9
                   HTH_35  4 padIiAaLrkr 14
                             ++dI ++L ++
  PHY93_08565|PHY93_08565 65 QEDIFSELMQK 75
                             67888888776 PP

>> HTH_Tnp_1_2  Helix-turn-helix of insertion element transposase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0   2.2e-05     0.029      18      82 ..       9      79 ..       2      90 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 2.2e-05
                             HHHHHHH--S-HHHHHHHHTS-HHHHHHHH..H-HHHH......HHHHHHHHHH.HHTTHHHHHHHHHHHHHSS CS
              HTH_Tnp_1_2 18 llvendyekltldeiaeevgvsrsTlykWk..kkkeFi......eyvnelaeef.leeeraevykaLlrkilkg 82
                             +l e++   ++++e++++  + +sTl  W+  + ++        +y+   +e++ + ++++ ++++L++k+++ 
  PHY93_08565|PHY93_08565  9 ILEEKE---MSISELSRKTDIPKSTLMTWLagRTPDLLqldkvaQYLGTNIESLaFGRKQEDIFSELMQKVEIH 79
                             455555...5*******************9655555541111116777777776467899999*****999876 PP

>> MerR_1  MerR HTH family regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   7.3e-05     0.093       1      20 [.      15      34 ..      15      36 .. 0.95
   2 ?   -0.5   0.0       1.1   1.3e+03       4      17 ..      46      59 ..      43      68 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 7.3e-05
                             EEHHHHHHHHTS-HHHHHHH CS
                   MerR_1  1 ysigevakilgvtthtlryw 20
                             +si+e+++++ ++++tl  w
  PHY93_08565|PHY93_08565 15 MSISELSRKTDIPKSTLMTW 34
                             8****************999 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 1.1
                             HHHHHHHTS-HHHH CS
                   MerR_1  4 gevakilgvtthtl 17
                             ++va+ lg++   l
  PHY93_08565|PHY93_08565 46 DKVAQYLGTNIESL 59
                             67999999988776 PP

>> CENP-B_N  CENP-B N-terminal DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0     3e-05     0.038      19      44 ..      10      36 ..       6      44 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 3e-05
                             HHCTT.-HHHHHHHHT--CCHHHHHHH CS
                 CENP-B_N 19 leege.Skaelarrfnvpestlsdilk 44
                             lee e S  el r+  +p+stl ++l+
  PHY93_08565|PHY93_08565 10 LEEKEmSISELSRKTDIPKSTLMTWLA 36
                             677778*******************97 PP

>> MerR  MerR family regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0     4e-05     0.051       1      19 [.      16      34 ..      16      36 .. 0.91

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 4e-05
                             EHHHHHHHHTTTHHHHHHH CS
                     MerR  1 tIgevAeltGvsprtLRyY 19
                             +I+e++++t+++ +tL  +
  PHY93_08565|PHY93_08565 16 SISELSRKTDIPKSTLMTW 34
                             7**************9766 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   0.00013      0.17      14      39 ..       6      31 ..       3      36 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00013
                             CHHHHHHCCCHHCHHCCCTTSSCHCH CS
                     TrmB 14 YlaLlklgpatadeiaeelgvprskv 39
                              +++l++++++++e+++++++p+s+ 
  PHY93_08565|PHY93_08565  6 LKKILEEKEMSISELSRKTDIPKSTL 31
                             6789*******************985 PP

>> HTH_Tnp_1  Transposase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00025      0.32      21      43 ..      12      34 ..       6      46 .. 0.88
   2 ?   -1.3   0.0       2.2   2.9e+03      28      46 ..      47      65 ..      43      78 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00025
                HTH_Tnp_1 21 epgksvsevArrhgvspnqLykW 43
                             e   s+se+ r+ ++ +++L +W
  PHY93_08565|PHY93_08565 12 EKEMSISELSRKTDIPKSTLMTW 34
                             56789****************** PP

  == domain 2  score: -1.3 bits;  conditional E-value: 2.2
                HTH_Tnp_1 28 evArrhgvspnqLykWrrq 46
                              vA+ +g + ++L + r+q
  PHY93_08565|PHY93_08565 47 KVAQYLGTNIESLAFGRKQ 65
                             5777788777777777766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (91 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       703  (0.0392102); expected 358.6 (0.02)
Passed bias filter:                      509  (0.0283898); expected 358.6 (0.02)
Passed Vit filter:                        64  (0.00356964); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 677.96
//
Query:       PHY93_08570|PHY93_08570  [L=166]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (166 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       321  (0.017904); expected 358.6 (0.02)
Passed bias filter:                      301  (0.0167884); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 1260.15
//
Query:       PHY93_08575|PHY93_08575  [L=530]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.6e-06   28.3   0.7    1.6e-06   28.3   0.7    1.9  2  Resolvase    Resolvase, N terminal domain
      0.001   19.4   0.1      0.011   16.1   0.0    2.9  3  Recombinase  Recombinase
  ------ inclusion threshold ------
       0.16   12.2   0.3       0.16   12.2   0.3    3.0  4  DUF5082      Domain of unknown function (DUF5082)


Domain annotation for each model (and alignments):
>> Resolvase  Resolvase, N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.3   0.7   2.6e-10   1.6e-06       6     134 ..      31     169 ..      28     180 .. 0.75
   2 ?   -1.6   0.1      0.43   2.5e+03      66     101 ..     451     469 ..     411     493 .. 0.57

  Alignments for each domain:
  == domain 1  score: 28.3 bits;  conditional E-value: 2.6e-10
                              EES-----T..HHHHHHHHHHHH-S--..SE...EEEE.S-TT-TT.-HHHHHHHHHHTT-EE..E....EEESSCCCC-S...S- CS
                Resolvase   6 RvSteeqdd..slerQkealrayakenglkivkefeDkgvSGakle.Rpglkrllaalregkg.dv....lvvekldRLaRsvrdl 83 
                              RvSt+eq+d  s + Qk+   +y k+n+l++ ++f+    +++ +e R+ +++ ++++++ +  ++    lv  + +R +R+    
  PHY93_08575|PHY93_08575  31 RVSTKEQKDksSPKIQKRGGNEYTKKNKLDVMETFSMA-ETAYYAEcRKIFNEIIKKIKKSHKtKMkimhLVLSHASRASRNKLST 115
                              9*****77777****************99998999999.99***999*************7554224444************8888 PP

                              HHHHHHHHHTT-EEEESS..SS----HHHH...HHHHHHHHHHHHHHHHHCT-T CS
                Resolvase  84 ltlleelrekgvslvsldegidtstpmgrl...llqilaalaeferelirertk 134
                                l   + e gv l+  ++++   +++++      + l+a +e + + +r+++ 
  PHY93_08575|PHY93_08575 116 NLLRSLVLEYGVVLHYFRDNLVLHKASTQDvwdRWEKLHASSEEDNNERRRNSL 169
                              8888899********999985544444444012333344444444444444444 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 0.43
                              .EEEESSCCCC-S...S-HHHHHHHHHTT-EEEESS CS
                Resolvase  66 dvlvvekldRLaRsvrdlltlleelrekgvslvsld 101
                              d                  +l+ee+ e + +l+sl+
  PHY93_08575|PHY93_08575 451 DL-----------------ELVEEITELQEELKSLE 469
                              33.................34444444444444444 PP

>> Recombinase  Recombinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   1.9e-06     0.011       7     103 ..     211     293 ..     208     294 .. 0.71
   2 ?   -2.0   0.1      0.81   4.8e+03      66      75 ..     419     428 ..     359     457 .. 0.55
   3 ?   -3.2   0.0       1.8   1.1e+04       5      23 ..     453     471 ..     449     473 .. 0.84

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 1.9e-06
              Recombinase   7 vrrifelylegkslksiaryLneegiktprgkekWskstvkriLtnpvyiGilvynktkgkkkkkrkddsewivieathepiisee 92 
                              v+r+f+l+++g  l +   + + +gi   ++     k+ +  iL++p+y+G + ++                   +  h+p+is++
  PHY93_08575|PHY93_08575 211 VERAFNLAVTGDPLFKKKLDAEFKGIIDSNKIP--HKKRLMSILRDPFYYGDFNIKGVL------------FHGDPKRHPPLISKN 282
                              555555555555555555555556665556666..67888999*******999998888............2222448******** PP

              Recombinase  93 lfeavqerlse 103
                              l+++vq +l++
  PHY93_08575|PHY93_08575 283 LWKQVQGILEG 293
                              ******99986 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.81
              Recombinase  66 gkkkkkrkdd 75 
                               + + ++k+ 
  PHY93_08575|PHY93_08575 419 IQANITKKET 428
                              2333333334 PP

  == domain 3  score: -3.2 bits;  conditional E-value: 1.8
              Recombinase   5 eivrrifelylegkslksi 23 
                              e+v++i el  e ksl+++
  PHY93_08575|PHY93_08575 453 ELVEEITELQEELKSLEEV 471
                              8999999999999999886 PP

>> DUF5082  Domain of unknown function (DUF5082)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.1      0.89   5.3e+03      12      37 ..      73      98 ..      68     118 .. 0.65
   2 ?   -1.0   0.5      0.34     2e+03      35      82 ..     135     183 ..     129     185 .. 0.71
   3 ?   -1.9   0.1      0.62   3.7e+03      15      33 ..     412     430 ..     366     439 .. 0.66
   4 ?   12.2   0.3   2.7e-05      0.16      14      58 ..     453     497 ..     447     505 .. 0.91

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 0.89
                  DUF5082 12 iaelrseiaaleekIerLkeaktkls 37
                             +ae+r+  + + +kI++  ++k k++
  PHY93_08575|PHY93_08575 73 YAECRKIFNEIIKKIKKSHKTKMKIM 98
                             57777777777777776555555554 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.34
                  DUF5082  35 klsdekeslkqkkkklekplnssesWkGk.eennydgirsnlessyqty 82 
                               l+  k+s+++     ek  +sse+ +++ ++n+ +g ++++++ y +y
  PHY93_08575|PHY93_08575 135 NLVLHKASTQDVWDRWEKLHASSEEDNNErRRNSLEGMLEQYQDGYAQY 183
                              5555666666666677777778887777778888888888888888777 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 0.62
                  DUF5082  15 lrseiaaleekIerLkeak 33 
                              +++++a ++  I++ ++a+
  PHY93_08575|PHY93_08575 412 NKNKVAHIQANITKKETAR 430
                              4445555555555544444 PP

  == domain 4  score: 12.2 bits;  conditional E-value: 2.7e-05
                  DUF5082  14 elrseiaaleekIerLkeaktklsdekeslkqkkkklekplnsse 58 
                              el +ei  l+e ++ L+e+k++++  ++++ +k+++lek+ nss 
  PHY93_08575|PHY93_08575 453 ELVEEITELQEELKSLEEVKDHDDWIQAAILEKISNLEKTFNSSP 497
                              57789***********************************99986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (530 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1847  (0.103017); expected 358.6 (0.02)
Passed bias filter:                      762  (0.042501); expected 358.6 (0.02)
Passed Vit filter:                        67  (0.00373696); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.68u 0.26s 00:00:00.94 Elapsed: 00:00:00.43
# Mc/sec: 3740.33
//
Query:       PHY93_08580|PHY93_08580  [L=139]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
       0.02   15.4   0.9        7.3    7.2   0.1    2.3  2  Stc1           Stc1 domain
       0.19   11.5   2.5        1.8    8.5   0.5    2.3  2  ZZ             Zinc finger, ZZ type
       0.52   10.1   5.6        3.1    7.6   0.5    2.7  2  A2L_zn_ribbon  A2L zinc ribbon domain


Domain annotation for each model (and alignments):
>> Stc1  Stc1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2   0.1    0.0012       7.3      52      70 ..       4      22 ..       1      29 [. 0.80
   2 ?    6.8   0.1    0.0016       9.8       1      22 [.      37      58 ..      33      71 .. 0.71

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.0012
                             EEE-SSS--EEESTTS-HH CS
                     Stc1 52 eleCsaCqktkpldeFsks 70
                             e  Cs C++tk+l++F   
  PHY93_08580|PHY93_08580  4 EKICSGCGETKKLEDFPTR 22
                             667************9765 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.0016
                             E-SSS--EEETTTS-HHHHHTT CS
                     Stc1  1 kCkeckkkkplseFSkkqlkkl 22
                             kCk+c+++++++++ +++  + 
  PHY93_08580|PHY93_08580 37 KCKVCDSNRNTARYHANKALNS 58
                             7999999999999776654443 PP

>> ZZ  Zinc finger, ZZ type
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.1      0.02   1.2e+02       6      37 ..       6      13 ..       1      20 [. 0.61
   2 ?    8.5   0.5    0.0003       1.8       4      25 ..      35      55 ..      33      57 .. 0.87

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.02
                             E-TTT-S..EESSEEEESSSSS-EE-HHHHHH CS
                       ZZ  6 tCdgCseapligvRyhclrcsdYDLCqsCfst 37
                             +C gC+e                        t
  PHY93_08580|PHY93_08580  6 ICSGCGE------------------------T 13
                             5556655........................4 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.0003
                             -EE-TTT-S..EESSEEEESSS CS
                       ZZ  4 kytCdgCseapligvRyhclrc 25
                             k++C +C +   + +Ryh  ++
  PHY93_08580|PHY93_08580 35 KAKCKVCDS-NRNTARYHANKA 55
                             799******.9*******8776 PP

>> A2L_zn_ribbon  A2L zinc ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.6   0.5   0.00051       3.1       1      11 [.       2      12 ..       2      16 .. 0.88
   2 ?    4.2   0.5    0.0062        37       5      12 ..      37      44 ..      35      45 .. 0.89

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.00051
            A2L_zn_ribbon  1 snlkvCsvCgg 11
                             +n+k+Cs+Cg 
  PHY93_08580|PHY93_08580  2 MNEKICSGCGE 12
                             79*******95 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.0062
            A2L_zn_ribbon  5 vCsvCggn 12
                             +C+vC++n
  PHY93_08580|PHY93_08580 37 KCKVCDSN 44
                             8*****98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (139 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       570  (0.0317921); expected 358.6 (0.02)
Passed bias filter:                      365  (0.0203581); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 1017.64
//
Query:       PHY93_08585|PHY93_08585  [L=109]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.017   15.1   0.3      0.022   14.8   0.3    1.2  1  DUF1307       Protein of unknown function (DUF1307)
      0.052   13.6   0.1      0.092   12.8   0.1    1.3  1  Tnp_22_dsRBD  L1 transposable element dsRBD-like domain


Domain annotation for each model (and alignments):
>> DUF1307  Protein of unknown function (DUF1307)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   0.3   2.4e-06     0.022      39      89 ..      29      79 ..      14      98 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 2.4e-06
                             SS-SSHHHHHHHHHHHHTTTTTSSS-EEEEEE-SSEEEEEEEEETTS--HH CS
                  DUF1307 39 lgvetkeeakeklesleekYkgikGvsekltykddkliekvtidyekadld 89
                             + +etk+e+ e ++sl+  Y + kG +e +  k+d +ie ++i +++++ d
  PHY93_08585|PHY93_08585 29 VDTETKDELLEWVDSLYCHYLDRKGKDEYTVKKNDIIIEALKIGLQQIEHD 79
                             56899*********************9999999999**********99866 PP

>> Tnp_22_dsRBD  L1 transposable element dsRBD-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.1     1e-05     0.092      14      41 ..       8      34 ..       4      38 .. 0.94

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 1e-05
                             HHHHHHTT---EEETTTEEEEESSSSEE CS
             Tnp_22_dsRBD 14 iqiLkekkfqPrllYPakLsiiieGeik 41
                             iqi +e k +P  +YP kLs+ ++ e+k
  PHY93_08585|PHY93_08585  8 IQIKREMKKRPSNSYP-KLSFRVDTETK 34
                             899*************.9*********9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (109 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       570  (0.0317921); expected 358.6 (0.02)
Passed bias filter:                      347  (0.0193541); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 831.60
//
Query:       PHY93_08595|PHY93_08595  [L=451]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
   3.7e-145  484.3   4.9   4.2e-145  484.2   4.9    1.0  1  5_nucleotid  5' nucleotidase family
  ------ inclusion threshold ------
      0.026   14.7   0.0      0.067   13.4   0.0    1.7  1  XRN1_D2_D3   Exoribonuclease Xrn1 D2/D3 domain
       0.15   12.5   0.0         42    4.5   0.0    3.2  2  HAD          haloacid dehalogenase-like hydrolase


Domain annotation for each model (and alignments):
>> 5_nucleotid  5' nucleotidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  484.2   4.9  6.9e-149  4.2e-145       1     455 [.       3     451 .]       3     451 .] 0.98

  Alignments for each domain:
  == domain 1  score: 484.2 bits;  conditional E-value: 6.9e-149
                              EEESS-EETTT--EEEE-TBTTTBEE-HHHHHHHHHHHHHHHHHHHS---GGGGG----GGG--TT-EEETTTTEEEEEBTTSBEE CS
              5_nucleotid   1 vFvnrelnLkkIkvvGFDmDYTLaqYkseeleelaydlalekLveklgYpeeilkleydpefairGLvlDkkkGnllkvdrfknvk 86 
                              +F+nr+ln+kkIk++GFDmDYT+++Y++e++e+++++ +l+kLv++ +Ypeeil+le+d + +i+GLv+DkkkGnllkv+rf++vk
  PHY93_08595|PHY93_08595   3 IFINRTLNMKKIKAIGFDMDYTIVRYNTEAFERFTHQATLKKLVSEKKYPEEILSLEFDFQRVIQGLVIDKKKGNLLKVSRFGKVK 88 
                              8************************************************************************************* PP

                              EEEETTEEE-HHHHHHHHSSSB--TTST..TEE----TTHHHHHHHHHHHHHHHTT........TSS--HHHHHHHHHHHHHHHHH CS
              5_nucleotid  87 vayhGlrelskeevrelYgnklikldeaskrlallntlFslpeayLlaqlvdlfdkeeekakeeelelsyeslykdvreavdlvHr 172
                              + yhGl++++ +e++++Ygn +i+l+++  +++ l+t Fs+++ +L++ql+++++k            ++e+l +dv+ea+d +H+
  PHY93_08595|PHY93_08595  89 SSYHGLTPIDFKEQQKMYGNGVIDLSDI--HIQSLDTNFSVSNGVLYSQLIEMKKKG-------ANFPDFETLADDVKEALDICHS 165
                              ***************************9..7*************************9.......6799****************** PP

                              HSHHHHHHHTTHHHHEE--HHHHHHHHHHHHTT-EEEEE-SS-HHHHHHHHHHHHGGGS-TT--GGGGESEEEES--TTHHHHS-- CS
              5_nucleotid 173 dgslkkevledlekyiekdpelvelLerlreagkklfllTNSefdytnkvmkyllgkeeekkkswrdlFDvvivkarKPkFfeert 258
                              dg+lk++v ++++++i +dpe+v+lLer+++ gkkl+++TNS+f+yt+ +++y ++ + +++k+w++lF++ i+ ++KP+Ff+++t
  PHY93_08595|PHY93_08595 166 DGTLKNHVRNNISEFIIQDPEVVTLLERYKRYGKKLLVITNSDFNYTKLLLDYTINPFLKEHKDWSELFEITITLSSKPRFFTTKT 251
                              ************************************************************************************** PP

                              -EEEE-TTT-..-EEE--S--SE..EEEE--HHHHHHHTT--GGGEEEEESS--S-HHHHHHCH-SEEEEE-TTHHHHHHHHHHTH CS
              5_nucleotid 259 plrevdtetgklklekvkgklekgkvYqgGslkelekllgvkgkevLYvGDhiygDilkskkklgWrTalvvpELeeElevleekk 344
                               ++++d+ tg   +++++gk++k  +YqgG + +l+k lg++g+e+LY+GDhiygD+++ kk+++WrTalv+  L+eE+e ++++ 
  PHY93_08595|PHY93_08595 252 AFLKIDPATG--LMTNAEGKITK-GIYQGGFAGKLQKDLGLEGDEILYLGDHIYGDVVSIKKTFNWRTALVLDPLKEEIESIKSSA 334
                              **********..99****98877.5************************************************************* PP

                              HH.HHHHHHHHHHHHHHHHHHHHHHHT.T.....THHHHHHHHHHHHHHHHHHHHHHHHHHCCS-TTT--SSEETTEEBHHHHHHH CS
              5_nucleotid 345 ek.eeleelekleelledelkklksseee.....skekleeleedleelkkeirelreelkelfnkqfGslfrtgseksrFarqve 424
                                 +e+++ ++++e+le++l++++++++e     ske+l+ l +d++++++ i+el +++k+ fn+++G+++r+g e+srFa+qve
  PHY93_08595|PHY93_08595 335 FIqSEIDKQMAIKESLEHMLNDIDIRKTElhedvSKEELNGLFNDIDKVNSIISELLDQHKKFFNPYWGEMMRAGLEESRFADQVE 420
                              999**********************9433455689999999********************************************* PP

                              HH-SEEESSHHHHHTS-TT-EE---THHHTT CS
              5_nucleotid 425 ryAdlYtssvsnLlkysleklfrarrdllpH 455
                              +yA++Y+++v +L++ys++++fr+ r++lpH
  PHY93_08595|PHY93_08595 421 KYACIYMTKVADLISYSPRTYFRPFRRTLPH 451
                              ******************************9 PP

>> XRN1_D2_D3  Exoribonuclease Xrn1 D2/D3 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   1.1e-05     0.067       8      52 ..     290     333 ..     289     346 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 1.1e-05
                              TT-EEEE-SCTCTTEEEEEEEESSSEEEEEEEBS-SS---SHHHH CS
               XRN1_D2_D3   8 egskvffLGeyaYGrpaevtghsekklsvvlaklksekepefgkk 52 
                              eg ++++LG++ YG  ++++++ + ++ +vl  lk+e e +++ +
  PHY93_08595|PHY93_08595 290 EGDEILYLGDHIYGDVVSIKKTFNWRTALVLDPLKEEIE-SIKSS 333
                              57899**************************99998444.44443 PP

>> HAD  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.0      0.03   1.8e+02       2      36 ..      18      54 ..      17     100 .. 0.74
   2 ?    4.5   0.0     0.007        42      88     119 ..     185     216 ..     148     305 .. 0.56

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.03
                      HAD  2 lfDfDgTLldgdsle..lllrfllrrgaprlwralre 36
                              fD+D T+++ ++     ++++ + ++  ++ +  +e
  PHY93_08595|PHY93_08595 18 GFDMDYTIVRYNTEAfeRFTHQATLKKLVSEKKYPEE 54
                             6*******99966554566666666555555444444 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.007
                      HAD  88 pgalellaahraaGdrvvvvSgglrplvepll 119
                              p++++ll++ ++ G ++ v++++   +++ ll
  PHY93_08595|PHY93_08595 185 PEVVTLLERYKRYGKKLLVITNSDFNYTKLLL 216
                              56666666555666666666655433333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (451 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       732  (0.0408277); expected 358.6 (0.02)
Passed bias filter:                      436  (0.0243181); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.60u 0.23s 00:00:00.83 Elapsed: 00:00:00.41
# Mc/sec: 3313.00
//
Query:       PHY93_08600|PHY93_08600  [L=334]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.9e-34  117.9   0.0    7.9e-34  117.5   0.0    1.0  1  Hist_deacetyl  Histone deacetylase domain


Domain annotation for each model (and alignments):
>> Hist_deacetyl  Histone deacetylase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  117.5   0.0   4.4e-38   7.9e-34       6     295 ..      24     312 ..      20     320 .. 0.79

  Alignments for each domain:
  == domain 1  score: 117.5 bits;  conditional E-value: 4.4e-38
                              HHHHHHHHHHHHT.THHHHCCE.EE-----HHHHTTTS-HHHHHHHHCHHHHCHHT.TTHCCHHHCCTS.....TSSSSSTHCTTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....xxxxxxxxxxxx RF
            Hist_deacetyl   6 kRlsaileslaesvglldelelliqpseatkeellkvHskeYlelleslsnelkkkeeakekeleeias.....klldddtpvspk 86 
                              +R s++ e+l+     l  +++   ++++tke+ll +H+k++++++  + +el+++  ++  el + +      +  ++    +++
  PHY93_08600|PHY93_08600  24 DRASSVFEHLKTLDPSL-TYFDPALTPQITKEDLLLAHNKDFVDRIFGSYHELEREM-MSCFELVDAEGnyhryN-PKKAKKDFNH 106
                              68888888888854433.3344466799******************65555544443.22222222222233331.3344455999 PP

                              CCHHHHHHHHHHHHHHHHHHTTSSSEEEETT.SS--TT-BTTB-BTTBSS-HHHHHHHHHHHCC-SS-EEEEE-SSS--HHHHHHC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Hist_deacetyl  87 tlkaallavgavleavdavlsgsvkaafvlv.rPpgHHakaseasGFClvNnvaiaikylqakhelkrvailDvDvHhGnGteeaf 171
                               l+ +l ++g++  a ++ l+     ++     +++HHa++ +  GFClvN+++i+ ++lq+++ +k   ++DvD+H G+Gt+e+ 
  PHY93_08600|PHY93_08600 107 ALSIVLKQTGMTYYATKNALTT----GLSYFlGGGMHHAMSFAGRGFCLVNDIVITLRKLQKENLIKTAWVIDVDAHKGDGTSELT 188
                              9*******************55....4444449*******99999*****************88899******************* PP

                              TT-TTEEEEEEEE-CCTSTT.SS--TT---SGGGTTSEEEEEE-TT-B.HHHHHHHHHHCHHHHHCCH.--SEEEEEE-STTBTTS CS
                              xxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxx RF
            Hist_deacetyl 172 ysdpdvltlSiHryegifyP.gtgaledlgegkgkgfnlnvpleegtg.deeylkvfeeilrpvleef.kPdlilvsaGfDalkgd 254
                               +d++++tlSiH+ eg  +P  +g++ d          +n+++   +g +++yl+ ++++l ++ +++ +Pd+ +v  G+D +++d
  PHY93_08600|PHY93_08600 189 AKDASIVTLSIHMKEG--WPlDSGSVGDPW-----FIPCNIEMGIDVGeEDQYLDRLSTALNELDQNYpRPDVAIVVNGADPYEHD 267
                              *************777..**9999998774.....466777776654414589***********999989**************** PP

                              ...TT-S-BB-HHHHHHHHHHHCCCHGS-G..EEEEE-S---HHH CS
                              ...xxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxx RF
            Hist_deacetyl 255 ...plgelnlsvegykeltkklaeladkvk.kvvllleGGYnlea 295
                                    +l+l+ e++ +    + +++ + k +   ++ GGY +++
  PHY93_08600|PHY93_08600 268 elqSTDKLKLTREQMLSRDVLVYQFLLDRKiPQSYVMAGGYGKRS 312
                              444445678999999999999999999886699********8865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (334 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       550  (0.0306766); expected 358.6 (0.02)
Passed bias filter:                      500  (0.0278878); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.39
# Mc/sec: 2553.38
//
Query:       PHY93_08605|PHY93_08605  [L=100]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (100 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       542  (0.0302304); expected 358.6 (0.02)
Passed bias filter:                      331  (0.0184617); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 748.61
//
Query:       PHY93_08610|PHY93_08610  [L=312]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.1e-51  173.6   0.0    6.2e-51  173.3   0.0    1.0  1  Aldo_ket_red  Aldo/keto reductase family
  ------ inclusion threshold ------
      0.017   13.9   0.0      0.023   13.5   0.0    1.1  1  MCRA          MCRA family


Domain annotation for each model (and alignments):
>> Aldo_ket_red  Aldo/keto reductase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  173.3   0.0   6.9e-55   6.2e-51       1     286 [.      12     301 ..      12     307 .. 0.92

  Alignments for each domain:
  == domain 1  score: 173.3 bits;  conditional E-value: 6.9e-55
                              .EEEE-SSS-ST.......TS-HHHHHHHHHHHHHTT--EEE--TT-TTTHHHHHHHHHHHH-TTTGGG-EEEEEE...--SSSTT CS
             Aldo_ket_red   1 elglGtwqlgsk......eeiskeealellrraleaGinffDtAevYgkgqseellGealkksrkkreeviiatKv...dlrdaei 77 
                              +l +G+++++++      ++is+++++ell++a+  G + fDtA++Yg g se  +G a+ +   +re+v+ ++K    +++++  
  PHY93_08610|PHY93_08610  12 PLAFGGAAISGEgggygfGNISEADSIELLNMAFNLGLRIFDTAPIYGFGLSEVRMGLAFRQ---MREKVFFVSKSgvtWGDNKRV 94 
                              5889999999999999999*******************************************...***********9877777777 PP

                              SSSS-HHHHHHHHHHHHHHHT-S-EEEEEE-S--TTS-.HHHHHHHHHHHHHTTSEEEEEEES--HHHHHHHHHTTT--EEEEE-B CS
             Aldo_ket_red  78 ksglskeniresleeslkrLgtdyvDllllHrpdpslpsieevldaleelvkeGkiraiGvSnfsveqlekakkkkkvkivavqve 163
                              + +  ++  ++ le+sl+ L+ dy+Dl+ +H+pdp ++ i   l++l + +++Gki++iG++n+++  le a   +  +i +vq e
  PHY93_08610|PHY93_08610  95 DMSNDPAVTTRMLEQSLRDLQSDYIDLYMIHWPDPRVD-IRRPLEVLSKAKDQGKIKHIGLCNTNITDLELA--IEIDRIEVVQSE 177
                              778888899*****************************.*******************************88..99999******* PP

                              -BTT-HHHHTTHHHHHHHTT-EEEEBSTTGGGTTGTTTSS---SSSCCC-------......TS-HHHHHHHHHHHHHHHHTT--H CS
             Aldo_ket_red 164 ynllreleeegllelckkkgvpliaysplggGlltgkyqseedkedkeprkdlkrd......ertsknldaaeelselakehgvsl 243
                              +n+++++++e+l++++kk+++ ++ +++l +G+ltg++++++++e+ + r +          + ++ ++da +++ +l  +h+ s 
  PHY93_08610|PHY93_08610 178 FNFFQHDASEKLFPYLKKNDISFMSWGTLDKGILTGRVDEKRKFEESDCR-S---WapwwknSDNKPKFDAMKKIWSLLDKHNHSG 259
                              ***************************************99998754333.3...234467778888899999999999******* PP

                              HHHHHHHHTTSTT-SEEEE--SSHHHHHHHHGGGG----HHHH CS
             Aldo_ket_red 244 aqlalryalsqpavgivipgasnieqlednldalelklseeev 286
                               +lal y ls p  ++++ ga+n++ql   ++al  +l+++++
  PHY93_08610|PHY93_08610 260 LELALGYNLSFPELSMALCGAKNPAQLLSLFKAL-ENLPTKDF 301
                              **********************************.67777766 PP

>> MCRA  MCRA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   2.6e-06     0.023     226     317 ..     156     248 ..     153     281 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 2.6e-06
                              SEEEEEEEEEEE.T.TEEEEEEEEEEE.TT.EEEEEE--TTEEEEEE---SSTT-EE-BTTB------.---HHHHHHHHHHCC-G CS
                     MCRA 226 ntkVtdiefeeeee.dkktvteielekeeg.eeetieleedDlvfvtnGsitessslGdndtpakleekeadesweLWkklaaksp 309
                              nt++td+e++ e +  + + +e ++ +++  e+    l+++D+ f++ G + ++  +G  d++ k+ee++  +sw+ W k ++++p
  PHY93_08610|PHY93_08610 156 NTNITDLELAIEIDrIEVVQSEFNFFQHDAsEKLFPYLKKNDISFMSWGTLDKGILTGRVDEKRKFEESD-CRSWAPWWKNSDNKP 240
                              8999**9999664413455567888887773444568******************************966.89*****99999999 PP

                              GG--THHH CS
                     MCRA 310 kfGnPekF 317
                              kf   +k 
  PHY93_08610|PHY93_08610 241 KFDAMKKI 248
                              99876665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (312 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       433  (0.0241508); expected 358.6 (0.02)
Passed bias filter:                      388  (0.0216409); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.41
# Mc/sec: 2297.26
//
Query:       PHY93_16580|PHY93_16580  [L=514]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.9e-53  180.6  39.9    3.9e-53  180.6  39.9    1.9  2  MFS_1     Major Facilitator Superfamily
    4.9e-09   35.5  10.4    4.9e-09   35.5  10.4    2.9  3  Sugar_tr  Sugar (and other) transporter
  ------ inclusion threshold ------
      0.027   12.8  16.9      0.045   12.1   0.2    3.4  4  OATP      Organic Anion Transporter Polypeptide (OATP) family


Domain annotation for each model (and alignments):
>> MFS_1  Major Facilitator Superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  180.6  39.9   6.5e-57   3.9e-53       2     352 ..      13     407 ..      12     408 .. 0.92
   2 ?   -0.5   0.1     0.076   4.5e+02     212     236 ..     480     504 ..     443     508 .. 0.63

  Alignments for each domain:
  == domain 1  score: 180.6 bits;  conditional E-value: 6.5e-57
                    MFS_1   2 llaaflsalarsilgpalplalaedlgispseigllltlyalgaavaslplGrlsdrfGrrrvlllglllfalglllllfasslwl 87 
                              ++aa+l ++++si+++a+p +++ +lg++ +ei+++ t+y+++ ++  +++++l++r+Gr  ++ +++l+f ++++++ ++++l++
  PHY93_16580|PHY93_16580  13 AMAALLEIIDSSIVNVAIP-TMMGNLGVTLDEISWISTAYMIANSIVLPIAAWLGTRLGRQTYFTTAILVFTAASFACGISPNLPV 97 
                              68999**************.9*****************************************99999999999956666579999* PP

                    MFS_1  88 llvlrvlqGlgagalfpagaaliadwfpkeergraigllsagfslGailgpllggllasslgWravfyilaivsllafvlfllllp 173
                              l+++r++qGl++gal+p++++li + fp+e+ g+a++++++++ +G++lgp lgg+l++++gWr++f i+ +++l a+++ +l++ 
  PHY93_16580|PHY93_16580  98 LIFFRIIQGLAGGALLPTSQTLIQEQFPREKAGLATAVFGMTVMIGPALGPTLGGYLTDHFGWRSIFNINVPLGLGAAIMSFLYIE 183
                              *******************************************************************************9999999 PP

                    MFS_1 174 eepperkrkspkeee................................................kgtgpaplvpawkallkdpvlwi 211
                                p+ ++ +s+k ++                                                + +   p+ + +++++ + v   
  PHY93_16580|PHY93_16580 184 NGPKLEAHQSSKVDWtglallcigvgcfqfilergevegwwdsnlirilsffavsgitsfiwwELKISNPIMN-LRLFKDNAVRSG 268
                              999999999999999**********************999999999999999888888888888888888888.666666665545 PP

                    MFS_1 212 llialllfffgfsglltllplylqevlglsglllaglllallalvgailallagrlsdrlgrrrrlllallllllaalglallavt 297
                               l++l+l+  ++++l++ +p+++  v +l+ + ++g l+  ++l++++++llag  ++ +++++  l++++l+ +a++++  + + 
  PHY93_16580|PHY93_16580 269 TLLMLCLGV-MVYSLTFVIPIFVSNVVHLT-ATQTGELFIPGSLLTIFAMLLAGNAMRFINAKWLVLIGMGLGEAALMSMSHFTAQ 352
                              666666664.7778****************.8***************************999999999999999999999999999 PP

                    MFS_1 298 ssavllllvlvliGfglgfvfpsllalasdlappeeagtasglfntagslggalg 352
                              +  v ++ +l+  G++++f f++++ ++ + ++ e+ g++sg +n+++++gg++g
  PHY93_16580|PHY93_16580 353 TGEVNIYTPLIYRGLASAFLFIPINGMILSQYSGEALGQVSGMMNFFRQIGGSIG 407
                              888888889999*****************************************98 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.076
                    MFS_1 212 llialllfffgfsglltllplylqe 236
                              + ++ l++ +++++ l+l+ply+++
  PHY93_16580|PHY93_16580 480 MSFSQLCWVIMITFGLALIPLYMVK 504
                              4444555555555566666666555 PP

>> Sugar_tr  Sugar (and other) transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.5  10.4   8.3e-13   4.9e-09      48     188 ..      44     177 ..       8     187 .. 0.87
   2 ?   -2.4   1.4      0.27   1.6e+03      88      95 ..     307     314 ..     267     353 .. 0.49
   3 ?   -3.0   0.2      0.41   2.5e+03     363     375 ..     478     490 ..     463     509 .. 0.55

  Alignments for each domain:
  == domain 1  score: 35.5 bits;  conditional E-value: 8.3e-13
                              HHHHHHTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHH-TTTTSS-TGGGGGHHHHHHHHHHHHHHHHHHHHTTS-S CS
                 Sugar_tr  48 sglivsiflvGaiiGslfagllgdrfGRkkslliaavlfvigavlqaaakgknsvevlivgRvlvGigvGlasvlvPmyisEiApk 133
                              +++i  ++++   i   +a +lg+r+GR+  + +a+++f ++++ +++++   ++ vli+ R++ G++ G+   ++ ++i+E  p 
  PHY93_16580|PHY93_16580  44 ISWISTAYMIANSIVLPIAAWLGTRLGRQTYFTTAILVFTAASFACGISP---NLPVLIFFRIIQGLAGGALLPTSQTLIQEQFPR 126
                              789***********************************************...9******************************** PP

                              CCHHHHHHHHHHHHHHHHHHHHHHHHHHHTSS-TTHHHHHHHCCHHHHHHHHHHG CS
                 Sugar_tr 134 klRgalvslyqlaitfGilvaaifglglnktsnadgwrillglqlvpallllill 188
                              +++g  + ++ + + +G  ++ ++g  l +  +   wr  + +++ +  l ++++
  PHY93_16580|PHY93_16580 127 EKAGLATAVFGMTVMIGPALGPTLGGYLTDHFG---WRSIFNINVPLG-LGAAIM 177
                              ******************999998877755555...777777777666.333333 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 0.27
                              HHHHHHH- CS
                 Sugar_tr  88 igavlqaa 95 
                               g++l+++
  PHY93_16580|PHY93_16580 307 PGSLLTIF 314
                              22222222 PP

  == domain 3  score: -3.0 bits;  conditional E-value: 0.41
                              HHTTTTHHHHHHH CS
                 Sugar_tr 363 falgwgpvpwvlv 375
                              f +++  ++wv++
  PHY93_16580|PHY93_16580 478 FIMSFSQLCWVIM 490
                              3333333333332 PP

>> OATP  Organic Anion Transporter Polypeptide (OATP) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   2.9   4.1e-05      0.25       3      83 ..       9      89 ..       7      95 .. 0.92
   2 ?   12.1   0.2   7.5e-06     0.045     135     194 ..      98     157 ..      91     169 .. 0.89
   3 ?   -0.5   0.0     0.049   2.9e+02      61      85 ..     191     215 ..     190     217 .. 0.87
   4 ?   -3.0   0.4      0.28   1.7e+03     498     506 ..     273     281 ..     231     302 .. 0.46

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 4.1e-05
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     OATP  3 lvllsllglvqamvsgyfkstittiEkrFklpsstsgliassneignillilfvsYfggrghrPrwigigallmalgslll 83
                             ++   +++l++++ s++++++i t+  + + +  ++ +i++++ i+n +++ + +++g+r  r  +  +++l+++ +s+ +
  PHY93_16580|PHY93_16580  9 VITAAMAALLEIIDSSIVNVAIPTMMGNLGVTLDEISWISTAYMIANSIVLPIAAWLGTRLGRQTYFTTAILVFTAASFAC 89
                             67778999999**************************************************99999999999999999876 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 7.5e-06
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     OATP 135 fflaqlllGiGatpiytlGisYidDnvkkknsplylgilyalrilGpalGfllGslllkl 194
                              +++  +++G+++ ++ +  ++ i +   ++++ l  +++ ++ ++GpalG +lG++l+  
  PHY93_16580|PHY93_16580  98 LIFFRIIQGLAGGALLPTSQTLIQEQFPREKAGLATAVFGMTVMIGPALGPTLGGYLTDH 157
                              56667999999999****************************************998865 PP

  == domain 3  score: -0.5 bits;  conditional E-value: 0.049
                              xxxxxxxxxxxxxxxxxxxxxxxxx RF
                     OATP  61 grghrPrwigigallmalgslllal 85 
                              ++  +  w g+++l++++g++ ++l
  PHY93_16580|PHY93_16580 191 HQSSKVDWTGLALLCIGVGCFQFIL 215
                              5677899**************9876 PP

  == domain 4  score: -3.0 bits;  conditional E-value: 0.28
                              xxxxxxxxx RF
                     OATP 498 lGlqlllir 506
                              l l +++ +
  PHY93_16580|PHY93_16580 273 LCLGVMVYS 281
                              222222222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (514 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       708  (0.0394891); expected 358.6 (0.02)
Passed bias filter:                      292  (0.0162865); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.63u 0.21s 00:00:00.84 Elapsed: 00:00:00.41
# Mc/sec: 3805.77
//
Query:       PHY93_08615|PHY93_08615  [L=436]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.2e-23   82.1  13.2    4.1e-17   62.6   5.5    2.2  2  OEP       Outer membrane efflux protein


Domain annotation for each model (and alignments):
>> OEP  Outer membrane efflux protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.4   0.9   1.2e-09   2.1e-05       6     187 ..      32     215 ..      27     216 .. 0.78
   2 !   62.6   5.5   2.3e-21   4.1e-17      11     179 ..     260     427 ..     257     432 .. 0.93

  Alignments for each domain:
  == domain 1  score: 24.4 bits;  conditional E-value: 1.2e-09
                      OEP   6 alalennpdlkaaeaeieaaeanlkaakaeflPtlslsgsygyegngsegggddggtgtt.........svgltlsqplfdggkrr 82 
                              ++ ++ +pdlk+ +    +  a++  + ++flP+ sls+ + ++  + ++  ++     +         ++g+  ++ l++ g+++
  PHY93_08615|PHY93_08615  32 DKSVQLSPDLKIVRNFRFQKGAEAYTRFSDFLPQASLSVRREKDFFEERNA-PL-----RslglgpfssTWGIDYQWMLLNYGSIQ 111
                              555555666666644444444444444556788888888888777665543.22.....1334557788999999*****966666 PP

                      OEP  83 arvkaakaqleaaeaqleqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislldvlqaqvrllqarae 168
                              a+ ++  a++++ae++    + +  +  ++ +l++llak   ++ e++lk ae   + a+  +++G  ++ldvl+ ++++ ++ ++
  PHY93_08615|PHY93_08615 112 AS-RKTFAEKDKAELEVTSKEKEYPITFNTNLLNYLLAKYKKAAVENSLKKAETGKREAKLGFELGQKTKLDVLRSEANMVSLDSK 196
                              65.5677999***********************************************************************99999 PP

                      OEP 169 laeaeqqlqlaraqLeyll 187
                                ++  ++q++++++ +++
  PHY93_08615|PHY93_08615 197 STSYSDEVQNTKSKFIEYS 215
                              9999999999888776665 PP

  == domain 2  score: 62.6 bits;  conditional E-value: 2.3e-21
                      OEP  11 nnpdlkaaeaeieaa.eanlkaakaeflPtlslsgsygyegngsegggddggtgtt.svgltlsqplfdggkrrarvkaakaqlea 94 
                              ++p l ++++e +++  a + + +a+ +P+l ++gsy++ gn+  ++  +++  +t s+ l l++plf +g  +++  +    +++
  PHY93_08615|PHY93_08615 260 KSPVLESLRYEEKINtIALASLTQAQ-WPELKIQGSYNNAGNSFGDSIHNPY--RThSIALVLTIPLFGSGNFYSSNFEEYFAKKQ 342
                              68999999999999999999999***.****************987765554..335***************************** PP

                      OEP  95 aeaqleqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislldvlqaqvrllqaraelaeaeqqlqla 179
                               +++ ++ ++++++++++++ ++ ++++++  +  ++ ++e++++l+ ++y++G++sll++l++q +ll+++++la+ + q+   
  PHY93_08615|PHY93_08615 343 IQYTMAKRKLETQNQLSNTLIKITALETLVSSLTLNVSQYEELYRLTIKSYQLGKSSLLELLEVQDNLLDSKISLAQNKIQFYTL 427
                              *******************************************************************************998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (436 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       775  (0.0432261); expected 358.6 (0.02)
Passed bias filter:                      307  (0.0171231); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.19s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 3210.11
//
Query:       PHY93_08620|PHY93_08620  [L=333]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.9e-15   55.7   2.4    9.3e-15   54.4   2.4    1.6  1  HlyD_D23         Barrel-sandwich domain of CusB or HlyD membr
    4.2e-09   37.1   4.9    1.3e-08   35.5   1.1    2.5  3  HlyD_3           HlyD family secretion protein
     0.0002   21.1   0.0     0.0012   18.7   0.0    2.4  1  Biotin_lipoyl_2  Biotin-lipoyl like
  ------ inclusion threshold ------
      0.013   15.3   0.0       0.11   12.4   0.0    2.5  2  Biotin_lipoyl    Biotin-requiring enzyme
      0.027   14.3   0.0          1    9.3   0.0    2.7  1  HlyD             HlyD membrane-fusion protein of T1SS


Domain annotation for each model (and alignments):
>> HlyD_D23  Barrel-sandwich domain of CusB or HlyD membrane-fusion
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.4   2.4   2.6e-18   9.3e-15      13     208 ..      47     241 ..      35     244 .. 0.80

  Alignments for each domain:
  == domain 1  score: 54.4 bits;  conditional E-value: 2.6e-18
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.XXXXXXXXXXXXXXXXXXXXX CS
                 HlyD_D23  13 ayderrlarvsarveGwveklyvnatgdkVkkGqpLaelyspelvaaqeeyllalkakkklkkkelleaarerLrllgvseeqiae 98 
                              +++ +++a+++  + G++ k+yv+ +g+kV++G+ +ael+  +l a  +e l+ lk++++l k+ l++ a   L + +  ++++a+
  PHY93_08620|PHY93_08620  47 TVEAKNQAELAFGTVGRIAKIYVS-LGSKVNQGALIAELENADLKAVYDETLKELKRTDELFKNGLVSIA--SLDSAK-RAREVAR 128
                              455677888888999*********.*******************************99998544433332..344444.3344555 PP

                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.....XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                 HlyD_D23  99 lektgkvqktvtvkapisGvVteknvreGqyvqp.....gdtlftiadlstVWveaevyeqqlalvkvgqkvevtvealpgktfeG 179
                              l+      +++ +kap++G++t++++  G++ q      +++l++i dl++  ++ e+ e +l++v++g  ++v+++al+++ +++
  PHY93_08620|PHY93_08620 129 LNY-----EKTVMKAPFTGMITSMDLKVGEFYQStpalnKKPLVQIIDLKKRIIKGEIDEVDLQKVAIGHLARVKIPALKNQVLKA 209
                              544.....445678****************9985222226889******************************************* PP

                              XXXXXXX...XXXXXXXXXXXXXXXXXXXXXX CS
                 HlyD_D23 180 kvdyiyp...tvdpetRtvkvRieldNpdgkL 208
                              +v+ + p   tv+ + Rt ++ +e+ ++++ L
  PHY93_08620|PHY93_08620 210 RVTKVVPfvsTVKDQDRTSQIELEVIDAQDIL 241
                              *****994445678999999999988777666 PP

>> HlyD_3  HlyD family secretion protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.0       4.8   1.7e+04      70      85 ..      37      53 ..      29      57 .. 0.57
   2 ?    2.4   0.0     0.068   2.4e+02       8      32 ..      62      86 ..      60      99 .. 0.87
   3 !   35.5   1.1   3.5e-12   1.3e-08       2     100 ..     136     239 ..     135     245 .. 0.86

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 4.8
                   HlyD_3 70 kgkierisp.tvdaktg 85
                             + +++ i + tv+ak++
  PHY93_08620|PHY93_08620 37 ESTVTTINSgTVEAKNQ 53
                             44555564434455444 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.068
                   HlyD_3  8 Gvvvelnveegevvqagdelleiip 32
                             G+++++ v+ g+ v++g+ ++e+ +
  PHY93_08620|PHY93_08620 62 GRIAKIYVSLGSKVNQGALIAELEN 86
                             8999*****************9975 PP

  == domain 3  score: 35.5 bits;  conditional E-value: 3.5e-12
                   HlyD_3   2 lrApvdGvvvelnveegevvqagde.....lleiippdtllveakvpaadlgsikkkgqkvtlkldqgsdytlkgkierisp...t 79 
                               +Ap++G ++++++++ge+ q+  +     l++ii+ ++ +++ ++++ dl++++ +g  +++k+   ++++lk++++++ p   t
  PHY93_08620|PHY93_08620 136 MKAPFTGMITSMDLKVGEFYQSTPAlnkkpLVQIIDLKKRIIKGEIDEVDLQKVA-IGHLARVKIPALKNQVLKARVTKVVPfvsT 220
                              58*****************77654455556************************6.999999999999999***********9888 PP

                   HlyD_3  80 vdaktgaykvevslenpekks 100
                              v+ ++++ ++e+++ +   ++
  PHY93_08620|PHY93_08620 221 VKDQDRTSQIELEVIDA--QD 239
                              88999999999888876..44 PP

>> Biotin_lipoyl_2  Biotin-lipoyl like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   0.0   3.3e-07    0.0012      11      40 ..      62      91 ..      52      99 .. 0.88

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 3.3e-07
          Biotin_lipoyl_2 11 GrVaqlnVkdGqrVkaGdvLaelDsralql 40
                             Gr+a+++V  G  V++G ++ael+  +l++
  PHY93_08620|PHY93_08620 62 GRIAKIYVSLGSKVNQGALIAELENADLKA 91
                             9***********************999975 PP

>> Biotin_lipoyl  Biotin-requiring enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   2.9e-05      0.11      40      73 .]      51      84 ..      47      87 .. 0.72
   2 ?   -1.5   0.0      0.65   2.3e+03      44      61 ..     135     152 ..     126     156 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 2.9e-05
                             TEEEEEEBSSSEEEEEESSTTTEEE-TTCEEEEE CS
            Biotin_lipoyl 40 KmemeieapkaGvvkeilvkeGdtvevgdllaki 73
                             K + e+     G++++i+v+ G++v++g l+a++
  PHY93_08620|PHY93_08620 51 KNQAELAFGTVGRIAKIYVSLGSKVNQGALIAEL 84
                             5566666666788888888888888888888765 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.65
                              EEEBSSSEEEEEESSTTT CS
            Biotin_lipoyl  44 eieapkaGvvkeilvkeG 61 
                               ++ap +G +++   k+G
  PHY93_08620|PHY93_08620 135 VMKAPFTGMITSMDLKVG 152
                              568999999998877776 PP

>> HlyD  HlyD membrane-fusion protein of T1SS
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.3   0.0   0.00028         1      12      79 ..      62     313 ..      28     314 .. 0.75

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.00028
                              E..................................................................................... CS
                              x..................................................................................... RF
                     HlyD  12 a..................................................................................... 12 
                              +                                                                                     
  PHY93_08620|PHY93_08620  62 Griakiyvslgskvnqgaliaelenadlkavydetlkelkrtdelfknglvsiasldsakrarevarlnyektvmkapftgmitsm 147
                              05555555555555556666666666666666666666666666666666666677777777777777777777777777777788 PP

                              ...................................EEEEEEEECEEEEEEEGCGEEECTTTSEEEEEEECTSB............. CS
                              ...................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx............. RF
                     HlyD  13 ...................................etdldqvrvgqpvevrfdAfpqtktgkftgvVvgispd............. 50 
                                                                 e+dl++v++g  + v+  A+  +      + V+ + p+             
  PHY93_08620|PHY93_08620 148 dlkvgefyqstpalnkkplvqiidlkkriikgeidEVDLQKVAIGHLARVKIPALKNQ---VLKARVTKVVPFvstvkdqdrtsqi 230
                              8888888888888888888888888888888888899999999999999999999999...8999999999998889999888888 PP

                              ......................................................EEEEEEEEEEEETTEEEESSSS-TTEEEE CS
                              ......................................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     HlyD  51 ......................................................rvpvrvvvekaqgpyyplriglkagalvr 79 
                                                                                     v+++v+++  ++    + +gl++ +lv+
  PHY93_08620|PHY93_08620 231 elevidaqdilipvgasadveiisetkdgvkilpanvltgtgktrflykvidgkLVKKEVKLGLGNYERVEILEGLTPDELVA 313
                              88888888888888888888888888888888888888888888888888888888888888888888888888888888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (333 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       814  (0.0454013); expected 358.6 (0.02)
Passed bias filter:                      555  (0.0309554); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.56u 0.26s 00:00:00.82 Elapsed: 00:00:00.41
# Mc/sec: 2427.45
//
Query:       PHY93_08625|PHY93_08625  [L=231]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.8e-32  110.9   0.1    9.3e-32  110.4   0.1    1.2  1  ABC_tran      ABC transporter
      8e-09   35.7   1.6    0.00039   20.3   0.0    2.1  2  AAA_21        AAA domain, putative AbiEii toxin, Type IV TA s
    9.4e-09   35.0   2.8    4.2e-08   32.9   2.8    1.8  1  SMC_N         RecF/RecN/SMC N terminal domain
    3.4e-05   23.5   0.1    6.9e-05   22.5   0.1    1.5  1  AAA_29        P-loop containing region of AAA domain
    0.00036   20.5   0.2     0.0011   18.9   0.1    1.8  2  RsgA_GTPase   RsgA GTPase
    0.00075   19.3   5.0     0.0027   17.5   2.4    2.1  2  AAA_15        AAA ATPase domain
     0.0013   19.3   2.1     0.0013   19.3   2.1    1.6  2  AAA_23        AAA domain
     0.0051   16.1   0.0     0.0088   15.3   0.0    1.4  1  Rad51         Rad51
     0.0075   16.7   0.0      0.017   15.5   0.0    1.8  1  AAA_16        AAA ATPase domain
     0.0095   16.3   0.1       0.02   15.3   0.1    1.6  1  RNA_helicase  RNA helicase
  ------ inclusion threshold ------
      0.011   15.1   0.2        1.9    7.8   0.0    2.2  2  ATPase        KaiC
      0.014   15.6   1.9        0.4   10.8   1.9    2.2  1  AAA_33        AAA domain
      0.025   14.3   0.0        0.6    9.8   0.0    2.1  2  AAA_30        AAA domain
      0.052   13.8   1.8       0.51   10.6   1.8    2.2  1  AAA_22        AAA domain
      0.067   12.0   0.2        1.1    8.0   0.2    2.2  2  ABC_ATPase    Predicted ATPase of the ABC class
      0.079   12.5   0.0       0.72    9.4   0.0    2.0  2  AAA_25        AAA domain
       0.11   12.6   1.9        0.5   10.5   1.9    2.2  1  MMR_HSR1      50S ribosome-binding GTPase
       0.18   11.9   1.4       0.65   10.0   0.3    2.0  2  DUF87         Helicase HerA, central domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  110.4   0.1   9.3e-35   9.3e-32       1     136 [.      23     176 ..      23     177 .. 0.86

  Alignments for each domain:
  == domain 1  score: 110.4 bits;  conditional E-value: 9.3e-35
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG....B-HHHCCHCEEEE-SS--S-TTSBHHHH... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxx... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke....qeleslrkeigvlpqepqlfpeltvren... 79 
                              l+n++++++ege++ ivG +G+GKStL++++  l  p +Ge  ldg ++++    +  +  +++ig+++q  +l p++++ +n   
  PHY93_08625|PHY93_08625  23 LNNINISINEGELTSIVGTSGSGKSTLMNIIGLLDLPSSGEYFLDGVNTTTmsddELSKYRNQKIGFVFQSFNLLPKSSALKNvem 108
                              79******************************************98888877885556666789***************9999999 PP

                              ............HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              ............xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ............esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                                          +++   + al++l+ ++l  +v ++ p++LSgGq+qrva+aral+++pk+ll+DEpt
  PHY93_08625|PHY93_08625 109 pmqyastynknlTDSMIRKMALETLDKVGLLSRV-HHLPNELSGGQRQRVAIARALVNNPKILLADEPT 176
                              9999887666543444466677777777766555.5888*****************************9 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.3   0.6   2.7e-05     0.027       1      66 [.      35      83 ..      35     101 .. 0.64
   2 !   20.3   0.0   3.9e-07   0.00039     235     299 ..     147     208 ..     129     211 .. 0.88

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 2.7e-05
                   AAA_21  1 lnvliGpNgsGKSnLLdaldllarldrdvegltdelsggggirkipslldlydpeipfefeieefl 66
                             l+ ++G  gsGKS+L+ ++ ll   d               +++ +++ld+ +++  +  e+++  
  PHY93_08625|PHY93_08625 35 LTSIVGTSGSGKSTLMNIIGLL---D--------------LPSSGEYFLDGVNTTTMSDDELSKYR 83
                             688****************888...2..............44444444444444444444444444 PP

  == domain 2  score: 20.3 bits;  conditional E-value: 3.9e-07
                   AAA_21 235 relSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQviltTHSp 299
                              +elS G+++  a++ al   +   ++ll DEp   L+ k  +++l l+ el++ g+ vi++TH+ 
  PHY93_08625|PHY93_08625 147 NELSGGQRQRVAIARALVNNP---KILLADEPTGALDSKTSEEILNLFQELNSQGVTVIIVTHDS 208
                              679999999988888888877...9***********************888888*********96 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.9   2.8   4.2e-11   4.2e-08      24     212 ..      33     221 ..      18     226 .. 0.75

  Alignments for each domain:
  == domain 1  score: 32.9 bits;  conditional E-value: 4.2e-11
                              SSEEEEEESTTSSHHHHHHHHHHHCTT.TTTT..TTCHCCCCCC--.BTTCSSTTEEEEEEEEEETTEESSSSSSCEEEEE.EEET CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxx RF
                    SMC_N  24 ksftaivGpNGSGKsnlldAilFvLGersakk..lrseklsdlihk.skekasvkkaeveitfdnedkklkiekeevsisr.rvkr 105
                               ++t+ivG  GSGKs l++ i  +L   s+ +  l   +++ +     ++ +++k + v   f+   k++  ++ e+ ++  + ++
  PHY93_08625|PHY93_08625  33 GELTSIVGTSGSGKSTLMNII-GLLDLPSSGEyfLDGVNTTTMSDDeLSKYRNQKIGFVFQSFNLLPKSSALKNVEMPMQYaSTYN 117
                              4689***************99.4555444433004444444443334445555666666666666666667777777666514566 PP

                              TSEEEEEETTEEE-HHHHHHHHHCTT-STTCS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTT.S CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.x RF
                    SMC_N 106 kgeseykingkevtkkevsellesagiskelLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkekskn.a 190
                              k+ ++ +i +   +  +   ll++++  +++LSgG+++ va+a       v+   + l De   aLD k  +++ +l++e +++ +
  PHY93_08625|PHY93_08625 118 KNLTDSMIRKMALETLDKVGLLSRVHHLPNELSGGQRQRVAIARA----LVNNPKILLADEPTGALDSKTSEEILNLFQELNSQgV 199
                              66699*********************************9998755....3555668899********************9887769 PP

                              EEEEE-SSHHHCCC-SCEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 191 Qfivislreemlekadklvgvt 212
                               +i++++++++ +++++++ +t
  PHY93_08625|PHY93_08625 200 TVIIVTHDSKIAHRCRRVLSMT 221
                              9************999998876 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.5   0.1   6.9e-08   6.9e-05      10      40 ..      21      51 ..      18      65 .. 0.77

  Alignments for each domain:
  == domain 1  score: 22.5 bits;  conditional E-value: 6.9e-08
                   AAA_29 10 gtfdghtieidlkgatlltGpsGsGKSTllD 40
                             + +++  i+i++ + t ++G+sGsGKSTl+ 
  PHY93_08625|PHY93_08625 21 HALNNINISINEGELTSIVGTSGSGKSTLMN 51
                             55666678888666***************95 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.1   1.1e-06    0.0011      80     119 ..      13      53 ..       3      77 .. 0.82
   2 ?   -2.1   0.0       3.1   3.1e+03      62      84 ..     185     206 ..     173     219 .. 0.61

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 1.1e-06
                              EE--TTTHTTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHH CS
              RsgA_GTPase  80 llvsaktkegleelkellkd.ktsvlvGqSGvGKStLinal 119
                              +++ +++ ++l++++  +++ +++ +vG SG GKStL+n +
  PHY93_08625|PHY93_08625  13 FIMGEENIHALNNINISINEgELTSIVGTSGSGKSTLMNII 53 
                              455566678889999999888******************86 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 3.1
                              HHHHHHHHHHHHHTTSEEEE--T CS
              RsgA_GTPase  62 eeeleelkeelealgyevllvsa 84 
                              ee + +l +el++ g++v++v  
  PHY93_08625|PHY93_08625 185 EE-ILNLFQELNSQGVTVIIVTH 206
                              33.55555555666666665544 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   2.4   2.8e-06    0.0027      13      66 ..      22      80 ..      18     135 .. 0.70
   2 ?    2.3   0.1      0.11   1.1e+02     323     368 ..     166     210 ..     158     211 .. 0.85

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 2.8e-06
                   AAA_15 13 slkdveidlsee.ltvliGkNnsGKSsilealdlFlnnk.ekkn.....kkvikiekedle 66
                             +l ++ i+++e  lt ++G+ +sGKS++++++ l+   +    +     +++++  +++l+
  PHY93_08625|PHY93_08625 22 ALNNINISINEGeLTSIVGTSGSGKSTLMNIIGLLDLPSsG--EyfldgVNTTTMSDDELS 80
                             6788899999889*******************777554421..123455333333333333 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.11
                   AAA_15 323 knvilliEEPEahLHpqaqkvlikllkelandnktQviitTHSphi 368
                              +++ill +EP   L  +  +++ +l++el +++   vii TH + i
  PHY93_08625|PHY93_08625 166 NPKILLADEPTGALDSKTSEEILNLFQELNSQGV-TVIIVTHDSKI 210
                              6788888888888888999999999999999996.9******9988 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.3   2.1   1.3e-06    0.0013       3      40 ..       5      54 ..       4      56 .. 0.68
   2 ?   -1.9   0.1         4     4e+03     109     109 ..     133     133 ..      75     197 .. 0.55

  Alignments for each domain:
  == domain 1  score: 19.3 bits;  conditional E-value: 1.3e-06
                   AAA_23  3 kienfrsf...rdqeidF.........skgltlItGpNGaGKTTildAik 40
                             +++n++++   ++++i+          +  lt I+G  G+GK+T+++ i 
  PHY93_08625|PHY93_08625  5 ELKNIHKHfimGEENIHAlnninisinEGELTSIVGTSGSGKSTLMNIIG 54
                             566666666664444444344444556668****************9885 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 4
                   AAA_23 109 l 109
                              l
  PHY93_08625|PHY93_08625 133 L 133
                              1 PP

>> Rad51  Rad51
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   8.8e-06    0.0088      34     129 ..      30     129 ..      15     154 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 8.8e-06
                              EESSSEEEEEESTTSSHHHHHHHHHHHTTS-TT....TS--SSEEEEEESSS---GGGGHHHHHHT.T--HHHHGGGEEEEE--ST CS
                    Rad51  34 ietgsiteifGefrsGktqlchtlcvtvqlple....lgGgegkavyidtegtfrperlveiaery.kldkeevlenvayaRayti 114
                              i+ g +t i+G ++sGk+ l   + +   lp +    l+G +  ++  d  + +r +++  + + +  l k+++l+nv +   y +
  PHY93_08625|PHY93_08625  30 INEGELTSIVGTSGSGKSTLMNIIGL-LDLPSSgeyfLDGVNTTTMSDDELSKYRNQKIGFVFQSFnLLPKSSALKNVEMPMQYAS 114
                              78899**************9877766.689877445578***************************44567789999987666666 PP

                              THHHHHHHHTHHHHH CS
                    Rad51 115 ehqeellqqaaalla 129
                                 ++l +++  ++a
  PHY93_08625|PHY93_08625 115 TYNKNLTDSMIRKMA 129
                              666666555555554 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   1.7e-05     0.017       4      42 ..      15      51 ..      12     207 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.7e-05
                   AAA_16  4 GReeeleqLlsalervrsgrpelvllsGesGvGKsslvr 42
                               ee +++L+++  ++++g  el+ ++G sG+GKs+l++
  PHY93_08625|PHY93_08625 15 MGEENIHALNNINISINEG--ELTSIVGTSGSGKSTLMN 51
                             5678888888875555555..89**************96 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.1     2e-05      0.02       3      59 ..      38      94 ..      36     128 .. 0.76

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 2e-05
             RNA_helicase  3 lyGpsgeGKStlakeLakallkklklkkkdsvysrnpeddfwdgYtgqevvvidDfg 59
                             ++G sg GKStl++ +    l ++++   d v + +++dd +++Y++q++  ++   
  PHY93_08625|PHY93_08625 38 IVGTSGSGKSTLMNIIGLLDLPSSGEYFLDGVNTTTMSDDELSKYRNQKIGFVFQSF 94
                             78*************876666777899999******************997665444 PP

>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   0.0    0.0019       1.9      15      35 ..      29      49 ..      17      53 .. 0.83
   2 ?    5.3   0.0     0.011        11     140     166 ..     183     209 ..     174     226 .. 0.76

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0019
                   ATPase 15 GipegrvvlitGepGtGKtif 35
                              i eg+ + i+G++G+GK+++
  PHY93_08625|PHY93_08625 29 SINEGELTSIVGTSGSGKSTL 49
                             6889**************987 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.011
                   ATPase 140 aReilrqlvrvlkklgvTailvsekss 166
                              + e++ +l+++l+  gvT i+v+  s+
  PHY93_08625|PHY93_08625 183 TSEEILNLFQELNSQGVTVIIVTHDSK 209
                              568899****************98544 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   1.9    0.0004       0.4       3     116 ..      37     215 ..      35     216 .. 0.61

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.0004
                   AAA_33   3 llvGlpGsGKstlaerl..lkklg...........avllssdt........................................... 32 
                               +vG +GsGKstl   +  l  l+           ++     t                                           
  PHY93_08625|PHY93_08625  37 SIVGTSGSGKSTLMNIIglL-DLPssgeyfldgvnTT-----Tmsddelskyrnqkigfvfqsfnllpkssalknvempmqyasty 116
                              579*********99865532.3334556433333333.....25555577777777777777777777777666666666666666 PP

                   AAA_33  33 .......lrrrlfgtdqqskt.............dytrvldrlyqilnelarkalsagrn.vil..dat..nlsrrerarflklar 93 
                                     ++r          +             +  ++ ++l + +++++++a++  +n  il  d +   l+ ++ +++l+l++
  PHY93_08625|PHY93_08625 117 nknltdsMIR----------KmaletldkvgllsRVHHLPNELSGGQRQRVAIARALVNNpKILlaDEPtgALDSKTSEEILNLFQ 192
                              6665555333..........033333333333334445666666666666666666554443334555545888899999999999 PP

                   AAA_33  94 rlgvpvrivvvetdeetlkeRla 116
                              +l+++   v++ t ++++++R +
  PHY93_08625|PHY93_08625 193 ELNSQGVTVIIVTHDSKIAHRCR 215
                              99999999999999999999865 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.0    0.0006       0.6      17      38 ..      32      53 ..      24      84 .. 0.88
   2 ?    2.6   0.0     0.096        96       5      61 ..     154     213 ..     113     225 .. 0.66

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.0006
                   AAA_30 17 gdrvavltGpAGtGKttalkal 38
                             +  ++ ++G  G+GK+t+++ +
  PHY93_08625|PHY93_08625 32 EGELTSIVGTSGSGKSTLMNII 53
                             445899*************876 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.096
                   AAA_30   5 eQaaavealltsgdrvavltGpAGtGKttalkalreaweaa...ggrviglAptgkaAkv 61 
                               Q+ a++++l ++ ++ ++  p G+  + + +++ +++++    g +vi++++ +k A++
  PHY93_08625|PHY93_08625 154 RQRVAIARALVNNPKILLADEPTGALDSKTSEEILNLFQELnsqGVTVIIVTHDSKIAHR 213
                              344555555555555666666666655555444444443321114666666666666665 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   1.8   0.00051      0.51       6      26 ..      34      54 ..      30     214 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00051
                   AAA_22  6 gilvvtGesGtGKTtllrrll 26
                              ++ ++G sG+GK+tl++ + 
  PHY93_08625|PHY93_08625 34 ELTSIVGTSGSGKSTLMNIIG 54
                             5788************98665 PP

>> ABC_ATPase  Predicted ATPase of the ABC class
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   0.2    0.0011       1.1     241     264 ..      29      53 ..      24      55 .. 0.89
   2 ?    1.6   0.0     0.093        93     324     352 ..     150     178 ..     143     227 .. 0.86

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.0011
                              EE-SS.EEEEEE-TTSSHHHHHHHH CS
               ABC_ATPase 241 gipkG.vtlIvGggfhGKsTLLeAl 264
                               i +G +t IvG+   GKsTL++ +
  PHY93_08625|PHY93_08625  29 SINEGeLTSIVGTSGSGKSTLMNII 53 
                              688999***************9865 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.093
                              -HHHHHHHHHHHHHHTT-SEEEEEGGGS- CS
               ABC_ATPase 324 SGStsqAanimealeagakllLiDEDtsA 352
                              SG   q ++i++al ++ k+lL DE t A
  PHY93_08625|PHY93_08625 150 SGGQRQRVAIARALVNNPKILLADEPTGA 178
                              88899999999999999999999998887 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4   0.0   0.00072      0.72      30      50 ..      30      50 ..      20      56 .. 0.91
   2 ?    0.6   0.0      0.35   3.5e+02     166     191 ..     185     209 ..     173     212 .. 0.78

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.00072
                   AAA_25 30 lpagelallaGapgtGKttla 50
                             + +gel+ ++G +g+GK+tl 
  PHY93_08625|PHY93_08625 30 INEGELTSIVGTSGSGKSTLM 50
                             689****************95 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.35
                   AAA_25 166 galvealeriarrtgaavllvhHvgK 191
                              +++++ ++++    g++v++v H +K
  PHY93_08625|PHY93_08625 185 EEILNLFQEL-NSQGVTVIIVTHDSK 209
                              5566666777.6789********888 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   1.9    0.0005       0.5       3      19 ..      37      53 ..      36     225 .. 0.92

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.0005
                             EEEESTTSSHHHHHHHH CS
                 MMR_HSR1  3 aivGrpNvGKStLinal 19
                              ivG + +GKStL+n +
  PHY93_08625|PHY93_08625 37 SIVGTSGSGKSTLMNII 53
                             59*************76 PP

>> DUF87  Helicase HerA, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.3   0.00066      0.65      27      43 ..      37      53 ..      24      54 .. 0.89
   2 ?    0.6   0.0       0.5   4.9e+02     132     201 ..     131     198 ..      63     207 .. 0.53

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.00066
                    DUF87 27 AilgsTGsGKSntvavL 43
                              i+g++GsGKS+++ ++
  PHY93_08625|PHY93_08625 37 SIVGTSGSGKSTLMNII 53
                             79***********9876 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.5
                    DUF87 132 eekeklssdepveklleelkkekeelrklknqaiarlldkledllrkggsf...snsstdliallleklekeg 201
                              e   k+   + v +l +el     + ++++  ++++l +  + ll ++ +    s++s+++++l  ++l+++g
  PHY93_08625|PHY93_08625 131 ETLDKVGLLSRVHHLPNELS----GGQRQRVAIARALVNNPKILLADEPTGaldSKTSEEILNLF-QELNSQG 198
                              34444444444444444444....66666666666666666666665555555444444444444.4444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (231 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       680  (0.0379274); expected 358.6 (0.02)
Passed bias filter:                      590  (0.0329076); expected 358.6 (0.02)
Passed Vit filter:                       108  (0.00602376); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              18  [number of targets reported over threshold]
# CPU time: 0.57u 0.26s 00:00:00.83 Elapsed: 00:00:00.41
# Mc/sec: 1699.42
//
Query:       PHY93_08630|PHY93_08630  [L=400]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      4e-35  122.0   1.8      4e-35  122.0   1.8    2.1  2  MacB_PCD     MacB-like periplasmic core domain
    1.2e-11   44.9   9.5    3.4e-11   43.4   0.4    3.4  3  FtsX         FtsX-like permease family
     0.0029   18.0   0.2     0.0029   18.0   0.2    2.9  3  DUF4396      Domain of unknown function (DUF4396)
  ------ inclusion threshold ------
        0.2   11.7  12.4       0.14   12.3   9.0    2.1  2  ECF_trnsprt  ECF transporter, substrate-specific component


Domain annotation for each model (and alignments):
>> MacB_PCD  MacB-like periplasmic core domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  122.0   1.8   8.9e-39     4e-35       1     194 [.      21     244 ..      21     245 .. 0.79
   2 ?    1.8   4.5      0.06   2.7e+02       1      45 [.     270     312 ..     270     350 .. 0.71

  Alignments for each domain:
  == domain 1  score: 122.0 bits;  conditional E-value: 8.9e-39
                 MacB_PCD   1 slltvLGiaiGvaaviaivslgeglqasvlsqisdlgn.lvtvtpgk............gsgeslsdpdvealrrevp.veavapv 72 
                              s+lt+LG++iGv+avi++vs+g+g++++++s++++lg+ +++++pgk            +s + l+  dveal+++++  +av+ v
  PHY93_08630|PHY93_08630  21 SALTMLGMIIGVMAVILLVSVGTGAKRYITSEFESLGTnVIIIQPGKtdkknsmgppvsSSKGKLTIGDVEALQKNAQsLSAVSGV 106
                              89********************************9974155689987877775555554444448899999886655559999998 PP

                 MacB_PCD  73 v....tvrgggsg..eeevtvvgvdpdyfkvfglklaeGrffteadlrggpnvvvigeelaerlf....pvGdtirl..kpftVvG 146
                              +    +v++   +  + ++++ g + ++ ++f++++ eG +f+++d+++g++v+v+g+++ e+lf    ++G+ +++   + +V+G
  PHY93_08630|PHY93_08630 107 MfgagVVKN---ElaTNNINIFGSNDQFNRIFNMTIIEGNYFSKEDEDAGRRVAVLGYTIKENLFgstnALGKLVKIndSEHRVIG 189
                              766542222...12344599***8879999****99********************************99********999***** PP

                 MacB_PCD 147 vledppgsgsalg.ddavylp.......lttlqrrs......itvrlkdgadleaaaaelek 194
                              ++++ +g   +++ dd v++p       +      +      i +++k+   +++a ael++
  PHY93_08630|PHY93_08630 190 IIKP-TGDKLGFNvDDMVFIPtksslrlF------NtdrlfgIRASAKSRSGMDDAVAELTA 244
                              **54.3433333379******65553322......13445569999***9999****99987 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.06
                 MacB_PCD   1 slltvLGiaiGvaaviaivslgeglqasvlsqisdlgnlvtvtpg 45 
                              ++l++L+ a+G  a+i++++ g g+ + +l ++++  +   + + 
  PHY93_08630|PHY93_08630 270 TILNMLTYALGAIAFISMLVGGIGIMNIMLVSVTERTR--EIGIR 312
                              89****************99999988888888774443..44443 PP

>> FtsX  FtsX-like permease family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.0     0.059   2.6e+02      21      49 ..      23      51 ..      16      79 .. 0.59
   2 ?    2.8   1.4     0.038   1.7e+02      14      41 ..     268     294 ..     266     303 .. 0.76
   3 !   43.4   0.4   7.6e-15   3.4e-11       2      95 ..     307     394 ..     306     395 .. 0.83

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.059
                     FtsX 21 llteillitlvalviGlglgllaaqllsd 49
                             l++ +++i++ a ++ + +g+ a  ++ +
  PHY93_08630|PHY93_08630 23 LTMLGMIIGVMAVILLVSVGTGAKRYITS 51
                             44444444444444444445555444443 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.038
                     FtsX  14 kkqvlllllteillitlvalviGlglgl 41 
                              ++++l +l++ + +i+++++++G g+g+
  PHY93_08630|PHY93_08630 268 MNTILNMLTYALGAIAFISMLVG-GIGI 294
                              568999999999**********9.3333 PP

  == domain 3  score: 43.4 bits;  conditional E-value: 7.6e-15
                     FtsX   2 reigilralGmkkkqvlllllteillitlvalviGlglgllaaqllsdvllssvfsselkisidlitvliiivlllllallaglls 87 
                              reigi+ra+G+++ ++l+++++e+++i++ + ++G+ ++ +++  l  +l  +      ++  ++ ++  +++l++l+ +++g+++
  PHY93_08630|PHY93_08630 307 REIGIRRAVGARRSDILKQFMIEAVVISVSGGLVGIFISMAITHTLHLFLPGF------DMRPPFWILPPAFLLSFLTGVIFGVWP 386
                              9**********************************777777777777776444......5555556666778888999999999** PP

                     FtsX  88 iskilkke 95 
                              ++k+++++
  PHY93_08630|PHY93_08630 387 ARKAAHIQ 394
                              ***99987 PP

>> DUF4396  Domain of unknown function (DUF4396)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.1      0.43   1.9e+03      79      98 ..      20      39 ..       7      53 .. 0.66
   2 ?    2.0   1.2     0.056   2.5e+02      58     100 ..     261     303 ..     256     315 .. 0.64
   3 !   18.0   0.2   6.4e-07    0.0029       8      73 ..     330     399 ..     325     400 .] 0.88

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 0.43
                  DUF4396 79 adtlSmlamevgmnlvmlll 98
                              + l+ml m +g ++v+ll+
  PHY93_08630|PHY93_08630 20 RSALTMLGMIIGVMAVILLV 39
                             56677777777777776666 PP

  == domain 2  score: 2.0 bits;  conditional E-value: 0.056
                  DUF4396  58 talllrekglslaealktAlka.dtlSmlamevgmnlvmllllg 100
                              ++++l++ + ++ + l  Al+a  ++Sml+  +g + +ml+ ++
  PHY93_08630|PHY93_08630 261 QVTMLES-MNTILNMLTYALGAiAFISMLVGGIGIMNIMLVSVT 303
                              4455554.556666666666543788888888888887777654 PP

  == domain 3  score: 18.0 bits;  conditional E-value: 6.4e-07
                  DUF4396   8 atlhClaGcaiGdilgmviltslslal.glpm...aatmilsvvlalllgllletalllrekglslaeal 73 
                              a++ +++G+ +G+++ m+i+ +l+l+l g +m   +++++ +++l++l+g+++ +++ +++ ++++ +al
  PHY93_08630|PHY93_08630 330 AVVISVSGGLVGIFISMAITHTLHLFLpGFDMrppFWILPPAFLLSFLTGVIFGVWPARKAAHIQTIDAL 399
                              6778899******************9999888777899999******************99888777766 PP

>> ECF_trnsprt  ECF transporter, substrate-specific component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   0.1      0.15   6.6e+02       7      86 ..      27      37 ..       3     112 .. 0.70
   2 ?   12.3   9.0   3.1e-05      0.14       9      91 ..     279     385 ..     273     396 .. 0.79

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 0.15
                             HHHHHHHHHHHHHHEEE.STSEEESHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHCHT-SSTTHHHHHHHHHHHHCHHHH CS
              ECF_trnsprt  7 glliAisivlsllgyiplpnikitiihipvllggllfGpikGailgiitsvlkailtggtgalssfvpiaflsriligli 86
                             g+                                     i G+++                                 ++
  PHY93_08630|PHY93_08630 27 GM-------------------------------------IIGVMAV--------------------------------IL 37
                             11.....................................1111111................................11 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 3.1e-05
                              HHHHHHHHHHHHEEE.STS.......................EEESHHHHHHHHHHCTTCHHHHHHHHH.HHHHHHHC..HT-SST CS
              ECF_trnsprt   9 liAisivlsllgyiplpni.......................kitiihipvllggllfGpikGailgii.tsvlkail..tggtga 68 
                              l Ai+++++l g i ++ni                       +i   +++ +++  + G ++G+++++  t++l+++l  ++++++
  PHY93_08630|PHY93_08630 279 LGAIAFISMLVGGIGIMNImlvsvtertreigirravgarrsDILKQFMIEAVVISVSGGLVGIFISMAiTHTLHLFLpgFDMRPP 364
                              78*******559999**9999*******************876777777777889999999999999866*******933345667 PP

                              THHHHHHHHHHHHCHHHHHHHHH CS
              ECF_trnsprt  69 lssfvpiaflsriligliaglly 91 
                              ++++ p afl ++l+g+i+g ++
  PHY93_08630|PHY93_08630 365 FWIL-PPAFLLSFLTGVIFG-VW 385
                              7754.666666666666666.33 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (400 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       862  (0.0480785); expected 358.6 (0.02)
Passed bias filter:                      457  (0.0254894); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.41
# Mc/sec: 2957.37
//
Query:       PHY93_08635|PHY93_08635  [L=346]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    2.5e-08   33.5   0.0    0.00084   18.7   0.0    2.2  2  PNP_UDP_1  Phosphorylase superfamily


Domain annotation for each model (and alignments):
>> PNP_UDP_1  Phosphorylase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   0.0   4.7e-08   0.00084      32     104 ..      25      98 ..      10     130 .. 0.85
   2 !   12.6   0.0   3.3e-06     0.059     170     203 ..     135     168 ..     126     194 .. 0.75

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 4.7e-08
                              EEEEEEEETTEEEEEEE--SSHHHHHHHHHHHHHHHC..--SEEEEEEEEEESSTTT-TT-EEEEEEEEESSSCC CS
                PNP_UDP_1  32 fkfvtGtlkgkpvvivstGiGkpnaavvaeirllkef..gvkaiiriGtaGglnpdlkvGDvvipddainfdgrs 104
                               +f+ G lk +   ++ tG+G++ a+   +i++l+ f  ++  + + G+aG+ln+ lk  D++ ++ ++ +    
  PHY93_08635|PHY93_08635  25 DFFFDGLLKSDDYYLLITGEGPHVAS-EKTIAVLAKFseEITLVYNLGVAGSLNQKLKMHDLLWIRTSYAHHAEK 98 
                              5788899999****************.********9999999********************9998877765554 PP

  == domain 2  score: 12.6 bits;  conditional E-value: 3.3e-06
                              -CEEESSHHHHHHHHHHTT--EEEEEEEEETTTB CS
                PNP_UDP_1 170 adaveMEtaavaqlArelgipfaairvvsdlaag 203
                              a +v+ E  ava +A++++ p++a++++sd++++
  PHY93_08635|PHY93_08635 135 ANIVDRELWAVASAANLFKKPYLALKIISDEMKE 168
                              567899************************6554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (346 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       484  (0.0269954); expected 358.6 (0.02)
Passed bias filter:                      310  (0.0172904); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.41
# Mc/sec: 2511.39
//
Query:       PHY93_08640|PHY93_08640  [L=358]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      0.007   16.1   0.2      0.007   16.1   0.2    2.2  2  DUF1848      Domain of unknown function (DUF1848)
     0.0085   16.5   0.6      0.027   14.8   0.6    1.9  1  Radical_SAM  Radical SAM superfamily


Domain annotation for each model (and alignments):
>> DUF1848  Domain of unknown function (DUF1848)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -4.6   7.1       1.6   1.5e+04     255     264 ..      99     108 ..      95     109 .. 0.87
   2 !   16.1   0.2   7.8e-07     0.007      75     168 ..     203     301 ..     186     356 .. 0.68

  Alignments for each domain:
  == domain 1  score: -4.6 bits;  conditional E-value: 1.6
                  DUF1848 255 tClhgCvYCY 264
                               C  +C YCY
  PHY93_08640|PHY93_08640  99 NCIYECNYCY 108
                              5********* PP

  == domain 2  score: 16.1 bits;  conditional E-value: 7.8e-07
                  DUF1848  75 lyfqfTltdyeke..lepnvpsleerietfkelseklgkerviwRyDPilltekltvelhl...ekfeklaeelkgytekvviSfv 155
                              ++  f+l + ++    + ++psl++r+e+++el++k    ++ + +DPi+  +++ +++     + +e++ +e   y++  v+ f 
  PHY93_08640|PHY93_08640 203 IITSFSLSPAHRIknNDLKTPSLKSRLEAIRELNTKG--FSIGIHFDPIIYDDQFIESYEEladQLLENIPAEKIRYISLGVVRFT 286
                              45556666665542266788*************9875..68999**********66555432336678888777799999999999 PP

                  DUF1848 156 dl.ykkvkrnlkk.k 168
                              +  y+kv++n+ + +
  PHY93_08640|PHY93_08640 287 KEvYQKVQKNYPEsD 301
                              878*******95421 PP

>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.6     3e-06     0.027       2      93 ..      95     262 ..      94     313 .. 0.55

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 3e-06
                              EEESEESS--TTTSCCTTHHHHHHHHHHHHHHHHHHHHHHH..H.HTT.SEEEEEESSTGGGS....................... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..x.xxx.xxxxxxxxxxxxxx....................... RF
              Radical_SAM   2 vvtrgCnlrCsfCarpetvrregrgrslsveeileevkelk..a.ekg.vkevilgggeplly....................... 60 
                              v+   C + C++C+     ++ + + +l  eei++e+k+++  +  ++ +++v+++ ge ++                        
  PHY93_08640|PHY93_08640  95 VHAYNCIYECNYCYLQGYFHSPDIVLYLNHEEIAHEIKKVAadYhTQNpGHTVWFHAGEYSDSlaltslsgeinhyfklfknmpdc 180
                              5677899*******999867777777888888888887775432222249999999887777766666654444446666666555 PP

                              ..........................................TTHHHHHHHHHHTCCCTEEEEEEECSSCHG.......HHH CS
                              ..........................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.......xxx RF
              Radical_SAM  61 ..........................................pdfvellerlaklavpgiritvetngtlpd.......eek 93 
                                                                        p +   le++++l  +g++i +   ++  d       ee 
  PHY93_08640|PHY93_08640 181 nlelrtksvnikellkeepleniitsfslspahriknndlktPSLKSRLEAIRELNTKGFSIGIHFDPIIYDdqfiesyEEL 262
                              5555544443333333333333333333333333333333333333333333333333333333333333334444444333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (358 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       583  (0.0325172); expected 358.6 (0.02)
Passed bias filter:                      433  (0.0241508); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.40
# Mc/sec: 2663.74
//
Query:       PHY93_08645|PHY93_08645  [L=154]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.4e-05   25.9   0.0    1.8e-05   25.5   0.0    1.1  1  2OG-FeII_Oxy_3  2OG-Fe(II) oxygenase superfamily
      0.002   18.8   0.0     0.0027   18.3   0.0    1.2  1  2OG-FeII_Oxy_4  2OG-Fe(II) oxygenase superfamily


Domain annotation for each model (and alignments):
>> 2OG-FeII_Oxy_3  2OG-Fe(II) oxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.5   0.0     2e-09   1.8e-05      14      94 ..      79     154 .]      68     154 .] 0.82

  Alignments for each domain:
  == domain 1  score: 25.5 bits;  conditional E-value: 2e-09
                              EE-SS----TT.-.EEEEEEEEE.....ET-B--EEE...........--.-TT-EEEEE-..B-T.EEE--B.-SS-EEEEEEE CS
           2OG-FeII_Oxy_3  14 pHvDnfekeegsgqrrltvllyLne.keseeGGelelyekdk.eavkikp.kkgrlvlFesdellp.HevlpvtkggeRlsltgw 94 
                              +H+D        g+r l + l Ln  +e+  GGel++  k++ ++  +kp   g++++F s+     H v+ vt+g eR++++gw
  PHY93_08645|PHY93_08645  79 WHDD--------GSRFLGFSLSLNWkPENIIGGELRFKLKESnQEDVFKPrPYGKIIIFLSGLYGYeHMVSAVTSG-ERIVIAGW 154
                              6666........569********9877889*******6666677777788346********866448******886.******** PP

>> 2OG-FeII_Oxy_4  2OG-Fe(II) oxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.0     3e-07    0.0027      15      91 ..      80     154 .]      69     154 .] 0.74

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 3e-07
           2OG-FeII_Oxy_4  15 HdDvlegeRrvayilyleeeWked..dGGaLllsddegdvtksivPk.wnqlvlFevkeshsvaevasvaekeRlsisgW 91 
                              HdD    +R++ + l l  +Wk++   GG+L+++ +e++  + + P+ ++++++F +      + v +v++ eR+ i+gW
  PHY93_08645|PHY93_08645  80 HDDG---SRFLGFSLSL--NWKPEniIGGELRFKLKESNQEDVFKPRpYGKIIIFLSGLYGYEHMVSAVTSGERIVIAGW 154
                              5555...6776665555..67766337*******9998888999997699*****996544444444555689******* PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (154 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       253  (0.0141112); expected 358.6 (0.02)
Passed bias filter:                      245  (0.013665); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.20s 00:00:00.63 Elapsed: 00:00:00.38
# Mc/sec: 1213.45
//
Query:       PHY93_08650|PHY93_08650  [L=690]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.5e-28   99.7   0.8    2.1e-13   50.6   0.1    2.2  2  Phosphodiest   Type I phosphodiesterase / nucleotide pyrophos
    3.9e-09   36.3   0.0    1.2e-07   31.5   0.0    2.7  2  Sulfatase      Sulfatase
  ------ inclusion threshold ------
       0.05   13.8   0.1      0.094   12.9   0.1    1.4  1  baeRF_family7  Bacterial archaeo-eukaryotic release factor fa


Domain annotation for each model (and alignments):
>> Phosphodiest  Type I phosphodiesterase / nucleotide pyrophosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.6   0.1     3e-16   1.8e-12       6     118 ..      51     165 ..      48     231 .. 0.78
   2 !   50.6   0.1   3.4e-17   2.1e-13     196     346 ..     455     616 ..     390     634 .. 0.84

  Alignments for each domain:
  == domain 1  score: 47.6 bits;  conditional E-value: 3e-16
                              ETT-B.....TTHHHHHG.S.TSHHHHHHHHHSEEESEEE-SSS-SHHHHHHHHHHSS-HHHHS--SSSEEETTTTEEEEEETTTT CS
             Phosphodiest   6 lDGlr.....adlldrla.e.llpnlaaLakegvsapnlrpvfPtlTfpnhaslvTGlyPgeHGivgNtfydrktgeyvvfvtede 84 
                               DGlr     +++++ +a + +lpnl++L++eg+++   +pvfP +T++n a+l+TG++P+ HGi +  ++ +++   +v + +  
  PHY93_08650|PHY93_08650  51 PDGLRaepvtFKIFE-WAkNgELPNLKRLMDEGSYGY-SIPVFPGHTPTNFATLMTGTTPDVHGIADGPMRIEGYPLSMVSKGG-F 133
                              678885555455554.66567**************99.****************************977776666554333222.2 PP

                              GGGGGCTT...S-HHHHHHHTHTTCEEEESETTTTSE CS
             Phosphodiest  85 daprwwqg...epiwdtaakarglkaaalfwpgsevd 118
                              + ++       +piw t+++   + ++ l  pgs ++
  PHY93_08650|PHY93_08650 134 S-SQ---AkkvPPIWYTLEQN-KMLVSLLSIPGSTPP 165
                              2.22...13468888888888.555666666777666 PP

  == domain 2  score: 50.6 bits;  conditional E-value: 3.4e-17
                              HHHHHHHHHHHHHHHHHHHHHHTTGTTTEEEEEEES---EEEHTTSEEEGGGTSTGGHGEEEEECBHHS.SSE............. CS
             Phosphodiest 196 evedalrrvDkaigdLlealderglsaetniilvSDHGmadvsddkvielndlleekgllhlkdegkggakal............. 268
                              e+++ +++vD+ +g +l+ +de+     t i+ +SDHG+ ++   k ++ln+l+++kg+l+ k ++k g++ +             
  PHY93_08650|PHY93_08650 455 EILKMYKNVDQILGTILKNADEN-----TYIVFSSDHGAIPL--YKEVRLNNLFAKKGWLKFKYSKKTGEYEIdwaktkviflqmd 533
                              5999*******************.....88************..**************8888888888888888888889999995 PP

                              .EEEEESTEEE.CCCTTHHHHHHHHHHTCHHCCH...ST.HTT..TEEEEEGGGS-GGGCH..STTS-SEEEEE-TTEEEESSTTC CS
             Phosphodiest 269 .iainpkarelnrvaeaeaeevyaelkakleelr...kk.ege..alavylkeaipkrlhy..kkrapdlvlvadpgwsitskdkp 345
                               i+i+p+   l++v  +++  +y+ l++ +++++   k  +g     +v ++e   + l +   +r++dl++    ++  +++ ++
  PHY93_08650|PHY93_08650 534 nIYIHPN--GLDKVYHHASGPEYEALRSQVIDELeklKDvNGIkpLAQVLKRE--QASLLFlpPDRTGDLIIANSAHYNWVEDVSD 615
                              5666666..78999999999999999999999996554445557566666666..333333445********99988887777666 PP

                              S CS
             Phosphodiest 346 d 346
                              d
  PHY93_08650|PHY93_08650 616 D 616
                              5 PP

>> Sulfatase  Sulfatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0      0.25   1.5e+03      26      68 ..      72     114 ..      52     125 .. 0.77
   2 !   31.5   0.0     2e-11   1.2e-07     210     308 ..     452     675 ..     429     676 .. 0.90

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.25
                              SHHHHHHHHTSEEESSEE-SSSSHHHHHHHHHHSS-HHHHTHS CS
                Sulfatase  26 tpnldrlaeeglrftnfysaaplcspsraalltgryphnsgva 68 
                               pnl+rl++eg    +  +  +++    a+l+tg  p+ +g+a
  PHY93_08650|PHY93_08650  72 LPNLKRLMDEGSYGYSIPVFPGHTPTNFATLMTGTTPDVHGIA 114
                              7999999999988777777777888888889999888888876 PP

  == domain 2  score: 31.5 bits;  conditional E-value: 2e-11
                              HHHHHHHHHHHHHHHHHHHHHHHHHTTTGGGEEEEEEESSSSCCCG........................................ CS
                Sulfatase 210 lleaylnsveyvDdligrvlaaLeenglldntlvvftSDhgaslee........................................ 255
                              l ++ l + ++vD+ +g +l+ +     ++nt++vf SDhga                                            
  PHY93_08650|PHY93_08650 452 LWDEILKMYKNVDQILGTILKNA-----DENTYIVFSSDHGAIPLYkevrlnnlfakkgwlkfkyskktgeyeidwaktkviflqm 532
                              55677889999************.....**************76668*************************************** PP

                              ...................................................................................... CS
                Sulfatase 256 ...................................................................................... 255
                                                                                                                    
  PHY93_08650|PHY93_08650 533 dniyihpngldkvyhhasgpeyealrsqvideleklkdvngikplaqvlkreqasllflppdrtgdliiansahynwvedvsddlv 618
                              ************************************************************************************** PP

                              .......HHTTSSSCTTCSSSHHHHBEEEEEEETTTSHCEEECSEEEGGGHHHHHHHHTT CS
                Sulfatase 256 .......sngplrggkganayeggtrvPllvwwpgekaprvseelvshiDlfptildlag 308
                                     +++ +   +    +e+g+ +P+++ +pg k+  + e +++hiD ++t+l+l+ 
  PHY93_08650|PHY93_08650 619 lfkeslkGGYKQGVLP---GTEEGMWTPFVIKGPGVKKGYQIERPINHIDQYATLLKLLK 675
                              *998864333333333...5899**********************************985 PP

>> baeRF_family7  Bacterial archaeo-eukaryotic release factor family 7
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.1   1.6e-05     0.094      71     112 ..     453     496 ..     440     508 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 1.6e-05
            baeRF_family7  71 keellrYfrkvdngvekllkk..enspLvlAgvdylipiYrevn 112
                              ++e+l+ +++vd+ + ++lk+  en+++v++++   ip+Y+ev 
  PHY93_08650|PHY93_08650 453 WDEILKMYKNVDQILGTILKNadENTYIVFSSDHGAIPLYKEVR 496
                              49*****************8633799***************984 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (690 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       470  (0.0262145); expected 358.6 (0.02)
Passed bias filter:                      399  (0.0222544); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.70u 0.24s 00:00:00.94 Elapsed: 00:00:00.44
# Mc/sec: 4704.21
//
Query:       PHY93_08655|PHY93_08655  [L=300]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-17   64.1  14.2    2.9e-17   63.0  14.2    1.6  1  SBF       Sodium Bile acid symporter family


Domain annotation for each model (and alignments):
>> SBF  Sodium Bile acid symporter family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.0  14.2   1.6e-21   2.9e-17       2     187 ..      32     202 ..      31     212 .. 0.84

  Alignments for each domain:
  == domain 1  score: 63.0 bits;  conditional E-value: 1.6e-21
                      SBF   2 ilLilmmfpmglkveveklkellkrpkalllglvlqwvikPllmfilakillrdlklepelavGlilvglapggamsnvwtylakG 87 
                              i+L+lmm +  l ++++ l+++++++k +l+gl+  +++ Pll + lak     l +e++l  G +l +l+p++  +  +t++ kG
  PHY93_08655|PHY93_08655  32 IILFLMMTSSALDIKWSILNKIFSNKKEILVGLFFLFLFFPLLQWFLAK----ILIVEESLFYGTLLASLCPVAIVAPNFTKMHKG 113
                              89***********************************************....445689*************************** PP

                      SBF  88 dlelsvvlvalstllailltPlllyllaksleqttlkvpieeivksvlivviiPliaGillryillkhkGrewfeskllpavspis 173
                              d +ls  l ++    ++l++P+ +++ +++    +++     i++ ++i++++P+++G +++ i +k      f++k++ + + i+
  PHY93_08655|PHY93_08655 114 DEDLSFLLMIA----SMLFFPVAVFFALNLT---HNTLHLRPIIIDMFILILFPILLGEIIKWIDRK-----FFKQKIIMNWKRIA 187
                              *****999765....5788999888888888...999999*********************998888.....35555555555444 PP

                      SBF 174 l.igllltivvifal 187
                                + +l + +++f+ 
  PHY93_08655|PHY93_08655 188 TeFNMLAIAFLAFIY 202
                              324444444444443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (300 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       819  (0.0456802); expected 358.6 (0.02)
Passed bias filter:                      273  (0.0152267); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.43
# Mc/sec: 2094.11
//
Query:       PHY93_08660|PHY93_08660  [L=194]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.8e-25   89.4   0.0    3.8e-25   89.0   0.0    1.2  1  ABC_tran      ABC transporter
    5.6e-07   29.7   2.5      6e-05   23.0   0.3    2.1  2  AAA_21        AAA domain, putative AbiEii toxin, Type IV TA s
      3e-05   24.3   0.5    0.00013   22.2   0.5    1.8  1  AAA_22        AAA domain
     0.0001   22.7   0.2    0.00039   20.9   0.2    1.8  1  AAA           ATPase family associated with various cellular 
    0.00095   19.2   0.0     0.0059   16.6   0.0    2.0  2  AAA_5         AAA domain (dynein-related subfamily)
     0.0011   18.9   0.0     0.0023   17.8   0.0    1.5  1  RsgA_GTPase   RsgA GTPase
     0.0022   17.7   0.0     0.0038   16.9   0.0    1.4  1  AAA_29        P-loop containing region of AAA domain
     0.0078   16.0   0.5      0.014   15.1   0.1    1.8  2  AAA_24        AAA domain
     0.0079   16.6   0.1      0.024   15.0   0.0    1.9  1  RNA_helicase  RNA helicase
  ------ inclusion threshold ------
      0.012   15.4   0.2       0.17   11.6   0.0    2.1  2  IstB_IS21     IstB-like ATP binding protein
      0.012   15.2   0.0      0.017   14.7   0.0    1.5  1  AAA_25        AAA domain
      0.015   15.5   0.0      0.027   14.6   0.0    1.7  1  AAA_33        AAA domain
      0.029   14.8   0.0       0.07   13.5   0.0    1.7  1  AAA_16        AAA ATPase domain
      0.058   13.9   0.1       0.13   12.8   0.1    1.8  1  AAA_18        AAA domain
      0.059   13.8   0.5      0.059   13.8   0.5    1.6  1  PhoU          PhoU domain
      0.085   12.3   0.2        3.4    7.0   0.1    2.1  2  SMC_N         RecF/RecN/SMC N terminal domain
      0.092   12.8   0.0        0.7    9.9   0.0    2.1  2  AAA_14        AAA domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   89.0   0.0   3.6e-28   3.8e-25       2     137 .]      20     151 ..      19     151 .. 0.90

  Alignments for each domain:
  == domain 1  score: 89.0 bits;  conditional E-value: 3.6e-28
                              EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH.....HHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....xxx RF
                 ABC_tran   2 knvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren.....esd 82 
                              ++ sl+l+ g+++a++G++G GKSt++ l+ag+l p++Gei l +k++++       + i +++qe+ lfp ltvr++       +
  PHY93_08660|PHY93_08660  20 NQFSLELELGKMYALIGPSGVGKSTFAHLMAGHLIPDSGEIYLGSKKIEK-----PLRDIFIVHQEDDLFPWLTVRKQlefvgGTQ 100
                              789**************************************777666555.....999********************98887777 PP

                              TCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  83 eeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                              e ie +l+ ++l++ kd      p++LSgG+k+r+al ra l  +++l+lDE  +
  PHY93_08660|PHY93_08660 101 EMIESLLNIFKLQDSKDLY----PNELSGGMKKRLALIRAELVGARILILDETLN 151
                              7788888888888844444....6****************************865 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.9   0.3    0.0023       2.4       2      19 ..      32      49 ..      31      84 .. 0.70
   2 !   23.0   0.3   5.7e-08     6e-05     183     300 ..      70     184 ..      47     187 .. 0.71

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.0023
                   AAA_21  2 nvliGpNgsGKSnLLdal 19
                              +liGp g+GKS++  ++
  PHY93_08660|PHY93_08660 32 YALIGPSGVGKSTFAHLM 49
                             58***********97666 PP

  == domain 2  score: 23.0 bits;  conditional E-value: 5.7e-08
                   AAA_21 183 rllqrlvrslklveielsdlgegeeliasvderlrergvvflengdgqelparelSdGtkrllalltallralkkgsllliDEpEn 268
                              +l++ ++ +  ++ +++ + +++ e    ++e +    + +++  d ++l ++elS G+k+ lal+ a l  +   ++l++DE  n
  PHY93_08660|PHY93_08660  70 PLRDIFIVHQEDDLFPWLTVRKQLEFVGGTQEMIES-LLNIFKLQDSKDLYPNELSGGMKKRLALIRAELVGA---RILILDETLN 151
                              344444444444444444444444444444444444.99999999*****************66665555544...********** PP

                   AAA_21 269 gLHPkllrrllell....kelsrngaQviltTHSpl 300
                              +L+  ll+ +l  +    + +   ++ vi+ TH  +
  PHY93_08660|PHY93_08660 152 SLNKTLLKDILNEMvprwR-E--QKITVIFITHHLE 184
                              ***********55536532.2..459*******865 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.2   0.5   1.3e-07   0.00013       6     130 ..      30     181 ..      26     189 .. 0.72

  Alignments for each domain:
  == domain 1  score: 22.2 bits;  conditional E-value: 1.3e-07
                   AAA_22   6 gilvvtGesGtGKTtllrrlleqldeeakaee.....................erpevv...fvtlpsst..sskdllrellralg 65 
                              ++ +++G+sG+GK+t +  ++  l  +                          ++++++   +v  + +   + +++ + ll++++
  PHY93_08660|PHY93_08660  30 KMYALIGPSGVGKSTFAHLMAGHLIPD----SgeiylgskkiekplrdifivhQEDDLFpwlTVRKQLEFvgGTQEMIESLLNIFK 111
                              7899*****************999433....144679999***9988888887444444555443333335588888899999999 PP

                   AAA_22  66 lelka..erlsseellealeqalrarav.ielliiDEaqh.lr.s..eealeeLrsllnlsrkgvqliLvGt 130
                              l+ ++  ++++++  +++    +ra  v  ++li+DE  + l+ +  +++l+e + ++   ++++++i++ +
  PHY93_08660|PHY93_08660 112 LQDSKdlYPNELSGGMKKRLALIRAELVgARILILDETLNsLNkTllKDILNEMVPRWR--EQKITVIFITH 181
                              888886655555555555555555555599*******9999964377888888888888..99999998854 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.9   0.2   3.7e-07   0.00039       3     117 ..      34     188 ..      32     192 .. 0.65

  Alignments for each domain:
  == domain 1  score: 20.9 bits;  conditional E-value: 3.7e-07
                              EESSTTSSHHHHHHHHHHHH.........THE...........EEEEETTTCSSS............................... CS
                      AAA   3 lyGppGtGKTllakavakel.........gve...........fleisgsellsk............................... 37 
                              l+Gp G+GK+++a+ +a +l         g++           +          +                               
  PHY93_08660|PHY93_08660  34 LIGPSGVGKSTFAHLMAGHLipdsgeiylGSKkiekplrdifiV----------Hqeddlfpwltvrkqlefvggtqemiesllni 109
                              89*****************8665543333333333444444440..........14444444555555555555555555556666 PP

                              .........STTHHHHHHHHHHHHHHHTS.TSEEEEEETGGGHHHHHTTCCCHHHHHHHHHHHHHHHHTTTSSSTEEEEEEESSGG CS
                      AAA  38 .........yvgesekkirelfkeakeka.kpsilfiDEidalaksrsgseseeeervvnqLlteldgvkkkeskvivigatnrpd 113
                                       y  e +  +++ ++ ++++  +  il++DE  +  ++           +++ +l+e+    ++ +k++vi +t++ +
  PHY93_08660|PHY93_08660 110 fklqdskdlYPNELSGGMKKRLALIRAELvGARILILDETLNSLNKT----------LLKDILNEMVPRWRE-QKITVIFITHHLE 184
                              666666666999999999999999888888779******65444444..........466666666666553.4589999999999 PP

                              GSTH CS
                      AAA 114 kldp 117
                              ++++
  PHY93_08660|PHY93_08660 185 EIKD 188
                              8875 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   5.6e-06    0.0059       4      37 ..      34      68 ..      32      75 .. 0.92
   2 ?    0.2   0.0      0.66   6.9e+02      54      74 ..     133     149 ..      98     185 .. 0.62

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 5.6e-06
                             EE--SSSSHHHHHHHGGGGB.S--EEEEE--TT-- CS
                    AAA_5  4 LvGppGtgKselaerlaaal.nreveyvqltrdtt 37
                             L+Gp+G+gKs++a  +a  l  ++ e+++++++++
  PHY93_08660|PHY93_08660 34 LIGPSGVGKSTFAHLMAGHLiPDSGEIYLGSKKIE 68
                             9****************9999*******9999876 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.66
                              ...--------G-SEEEEESG CS
                    AAA_5  54 lvdsplvraaregeilvlDEv 74 
                              l   +lv     ++il+lDE 
  PHY93_08660|PHY93_08660 133 LIRAELV----GARILILDET 149
                              3333333....5666666663 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.0   2.2e-06    0.0023      99     126 ..      29      56 ..       5      67 .. 0.80

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 2.2e-06
                              TSEEEEECSTTSSHHHHHHHHCTT---- CS
              RsgA_GTPase  99 dktsvlvGqSGvGKStLinallpelelk 126
                              +k+ +l+G+SGvGKSt+   ++++l   
  PHY93_08660|PHY93_08660  29 GKMYALIGPSGVGKSTFAHLMAGHLIPD 56 
                              4899*************99998876555 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0   3.6e-06    0.0038      12      38 ..      19      45 ..      17      59 .. 0.84

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 3.6e-06
                   AAA_29 12 fdghtieidlkgatlltGpsGsGKSTl 38
                             f++ ++e++l  ++ l+GpsG+GKST+
  PHY93_08660|PHY93_08660 19 FNQFSLELELGKMYALIGPSGVGKSTF 45
                             677778888888**************8 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.1   1.3e-05     0.014       3      22 ..      30      49 ..      28     149 .. 0.91
   2 ?   -1.4   0.0       1.5   1.6e+03     112     134 ..     163     185 ..     154     191 .. 0.69

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.3e-05
                   AAA_24  3 lkiliyGpsgiGKTtlakel 22
                             ++++++Gpsg+GK+t+a  +
  PHY93_08660|PHY93_08660 30 KMYALIGPSGVGKSTFAHLM 49
                             7899*************988 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 1.5
                   AAA_24 112 rrllkklqelrknvifiahektr 134
                              ++++ + +e + +vifi h  ++
  PHY93_08660|PHY93_08660 163 NEMVPRWREQKITVIFITHHLEE 185
                              55666666666699999987665 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   2.3e-05     0.024       3      38 ..      34      64 ..      32      79 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 2.3e-05
             RNA_helicase  3 lyGpsgeGKStlakeLakallkklklkkkdsvysrn 38
                             l Gpsg+GKSt+a+ +a +l      + ++++y ++
  PHY93_08660|PHY93_08660 34 LIGPSGVGKSTFAHLMAGHLI-----PDSGEIYLGS 64
                             78*************777776.....6666666654 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00016      0.17      50      74 ..      32      56 ..      16      72 .. 0.85
   2 ?    1.9   0.1      0.16   1.7e+02      98     152 ..     130     184 ..     116     193 .. 0.66

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00016
                IstB_IS21 50 ivllGpsGvGKshlaialgveavra 74
                              +l+GpsGvGKs +a  ++ + + +
  PHY93_08660|PHY93_08660 32 YALIGPSGVGKSTFAHLMAGHLIPD 56
                             689************9998877765 PP

  == domain 2  score: 1.9 bits;  conditional E-value: 0.16
                IstB_IS21  98 klaralkrllkvdllilDdlgllpldqae.aellfeviekryerrsiiitsnlpfa 152
                              +la + ++l+ +++lilD+  l+ l++   +  l e++ +  e++ ++i    +++
  PHY93_08660|PHY93_08660 130 RLALIRAELVGARILILDET-LNSLNKTLlKDILNEMVPRWREQKITVIFITHHLE 184
                              5666667889999*****96.55555554044445666666666666665555555 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.0   1.6e-05     0.017      31      66 ..      27      66 ..      25     184 .. 0.83

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1.6e-05
                   AAA_25 31 pagelallaGapgtGKttlaldlalava..tGkpwlg..p 66
                              +g+  +l+G++g+GK+t+a  +a ++   +G+  lg  +
  PHY93_08660|PHY93_08660 27 ELGKMYALIGPSGVGKSTFAHLMAGHLIpdSGEIYLGskK 66
                             5688899*****************9998888877777653 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.0   2.6e-05     0.027       4      23 ..      34      53 ..      31     192 .. 0.65

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 2.6e-05
                   AAA_33  4 lvGlpGsGKstlaerllkkl 23
                             l+G++G+GKst+a+ ++ +l
  PHY93_08660|PHY93_08660 34 LIGPSGVGKSTFAHLMAGHL 53
                             89***********9887655 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   6.6e-05      0.07      26      53 ..      31      60 ..      26     179 .. 0.60

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 6.6e-05
                   AAA_16 26 lvllsGesGvGKsslvrellralekd..gg 53
                             +  l+G+sGvGKs+ +   + +l  d  ++
  PHY93_08660|PHY93_08660 31 MYALIGPSGVGKSTFAHLMAGHLIPDsgEI 60
                             5679************99998888875412 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.1   0.00012      0.13       3      22 ..      34      53 ..      33     189 .. 0.66

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 0.00012
                   AAA_18  3 ltGtpGvGKttlakeLskrl 22
                             l G++GvGK+t+a+  + +l
  PHY93_08660|PHY93_08660 34 LIGPSGVGKSTFAHLMAGHL 53
                             89***********9987775 PP

>> PhoU  PhoU domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.5   5.6e-05     0.059      25      83 ..     137     191 ..     131     194 .] 0.83

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 5.6e-05
                              HHH.HHHHHHHHHHHHHHHHHHHHHHHHHHHHGG-SHHHHHHHHHHHHHHHHHHHHHHHH CS
                     PhoU  25 ela.revierddeidrlekeiersllealakrqplaedlrellsllriardlERigDhav 83 
                              el+  +++ +d+ ++ l k + +++l+++     ++e   + ++++ i+++lE i D++ 
  PHY93_08660|PHY93_08660 137 ELVgARILILDETLNSLNKTLLKDILNEM--VPRWRE---QKITVIFITHHLEEIKDYID 191
                              5666788999*******************..455554...34779************985 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.0     0.038        40      25      41 ..      30      46 ..      16      53 .. 0.81
   2 ?    7.0   0.1    0.0033       3.4     123     201 ..     109     185 ..      90     194 .] 0.74

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.038
                             SEEEEEESTTSSHHHHH CS
                             xxxxxxxxxxxxxxxxx RF
                    SMC_N 25 sftaivGpNGSGKsnll 41
                             ++ a++Gp G GKs + 
  PHY93_08660|PHY93_08660 30 KMYALIGPSGVGKSTFA 46
                             4789**********875 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.0033
                              HHHHHHCTT-STTCS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHH.HHHHHCTT.SEEEEE-SSHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxx.xxxxxxxxxxxx RF
                    SMC_N 123 vsellesagiskelLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvae.llkekskn.aQfivislreem 201
                              + +l  s+++++++LSgG k+   laL+    +   a + +lDe    L ++  k + + ++ + +++   +i i+++ e 
  PHY93_08660|PHY93_08660 109 IFKLQDSKDLYPNELSGGMKK--RLALIR--AELVGARILILDETLNSLNKTLLKDILNeMVPRWREQkITVIFITHHLEE 185
                              556667889999********8..677884..577888999****9999999998876541565444332667777776554 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.0   0.00066       0.7       3      36 ..      30      62 ..      28      92 .. 0.80
   2 ?    0.6   0.0       0.5   5.3e+02      65      76 ..     141     152 ..      99     181 .. 0.58

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00066
                   AAA_14  3 kilvitGaRrvGKTtllkqlikellvkkesilyi 36
                             k++++ G+  vGK+t+++ ++ +l+ +++  +y+
  PHY93_08660|PHY93_08660 30 KMYALIGPSGVGKSTFAHLMAGHLI-PDSGEIYL 62
                             7899************988887776.66555555 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.5
                   AAA_14  65 ktylflDEiqev 76 
                               ++l+lDE  ++
  PHY93_08660|PHY93_08660 141 ARILILDETLNS 152
                              455666665444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (194 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       570  (0.0317921); expected 358.6 (0.02)
Passed bias filter:                      473  (0.0263818); expected 358.6 (0.02)
Passed Vit filter:                        82  (0.0045736); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              17  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1307.65
//
Query:       PHY93_16585|PHY93_16585  [L=139]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.4e-12   46.5   0.0    5.3e-12   45.4   0.0    1.6  1  MarR_2    MarR family
    2.2e-11   43.5   0.0    4.2e-11   42.6   0.0    1.5  1  MarR      MarR family
    3.6e-07   30.6   0.1    7.2e-07   29.6   0.1    1.5  1  HTH_27    Winged helix DNA-binding domain
    0.00048   20.0   0.0    0.00088   19.1   0.0    1.5  1  TrmB      Sugar-specific transcriptional regulator TrmB
    0.00076   19.2   2.5      0.018   14.9   0.3    2.4  2  HTH_IclR  IclR helix-turn-helix domain
      0.002   17.9   0.0      0.005   16.7   0.0    1.7  1  HTH_5     Bacterial regulatory protein, arsR family
     0.0052   17.1   0.1      0.015   15.7   0.0    1.8  2  Rrf2      Transcriptional regulator
  ------ inclusion threshold ------
      0.061   13.3   0.3       0.13   12.3   0.3    1.6  1  DUF768    Protein of unknown function (DUF768)
      0.081   12.8   0.1       0.16   11.9   0.1    1.5  1  HxlR      HxlR-like helix-turn-helix


Domain annotation for each model (and alignments):
>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.4   0.0   2.7e-15   5.3e-12       2      61 ..      29      85 ..      28      86 .. 0.96

  Alignments for each domain:
  == domain 1  score: 45.4 bits;  conditional E-value: 2.7e-15
                             T--HHHHHHHHHHHCTTTSEEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEEEESSSSSS CS
                   MarR_2  2 gltpaqarvLaaLgrrpgrdltvgelarrlglsksavsrilkrLvaaGLverrpgpeDkR 61
                             ++ p+q  +L+ L r+     t+gela++  ++k+a++r+++ L++ GLv r + ++D+R
  PHY93_16585|PHY93_16585 29 DFGPTQMLILFQLSRST---ATMGELAEYALVDKAAMTRVVASLEKSGLVKRFTHETDLR 85
                             5779************9...6*************************************99 PP

>> MarR  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.6   0.0   2.1e-14   4.2e-11       3      58 ..      32      86 ..      30      87 .. 0.94

  Alignments for each domain:
  == domain 1  score: 42.6 bits;  conditional E-value: 2.1e-14
                             HHHHHHHHHHHHSTTEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEEETTSTTS CS
                     MarR  3 ltqfviLrilyeqgplsvseLakklgvskstvtrvldrLekkGlieRskspeDrRe 58
                             +tq++iL++l+++  +++ eLa+   v+k+++trv+  Lek Gl++R  ++ D R+
  PHY93_16585|PHY93_16585 32 PTQMLILFQLSRS-TATMGELAEYALVDKAAMTRVVASLEKSGLVKRFTHETDLRI 86
                             699*******987.679*************************************97 PP

>> HTH_27  Winged helix DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.6   0.1   3.6e-10   7.2e-07       4      68 .]      33      95 ..      30      95 .. 0.96

  Alignments for each domain:
  == domain 1  score: 29.6 bits;  conditional E-value: 3.6e-10
                   HTH_27  4 qqalvLhlirhrrrrkkladlcgrlnvedshisyslkkLtekGLvertgdeadrrekrvrlTdkG 68
                              q l+L+++   r +++  +l+++  v+++++  ++  L++ GLv+r + e+d r + ++lT kG
  PHY93_16585|PHY93_16585 33 TQMLILFQLS--RSTATMGELAEYALVDKAAMTRVVASLEKSGLVKRFTHETDLRITVIELTTKG 95
                             68899*****..999999********************************************998 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   4.4e-07   0.00088       2      56 ..      26      79 ..      25      93 .. 0.82

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 4.4e-07
                             HHCHHHHHCCCHCHHHHHHCCCHHCHHCCCTTSSCHCHHHHHHHHHHCTSEEEES CS
                     TrmB  2 qklGLseyEakvYlaLlklgpatadeiaeelgvprskvYevLrsLedkGlVerek 56
                             +++++  + + + + L ++  at+ e+ae + v+++   +v+ sLe+ GlV+r  
  PHY93_16585|PHY93_16585 26 KAFDFGPTQMLILFQL-SRSTATMGELAEYALVDKAAMTRVVASLEKSGLVKRFT 79
                             5566666666666665.6999*******************************976 PP

>> HTH_IclR  IclR helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.1   0.1     0.021        41       7      26 ..       5      24 ..       3      26 .. 0.87
   2 !   14.9   0.3   8.8e-06     0.018       8      50 ..      37      77 ..      33      77 .. 0.82

  Alignments for each domain:
  == domain 1  score: 4.1 bits;  conditional E-value: 0.021
                             HHHCT-CTTBSS-BHHHHHH CS
                 HTH_IclR  7 aiLdalaeapqeltlselAr 26
                             +iLda+a  + el+l   A+
  PHY93_16585|PHY93_16585  5 EILDAFAMLRKELGLIRAAE 24
                             69**********99977765 PP

  == domain 2  score: 14.9 bits;  conditional E-value: 8.8e-06
                             HHCT-CTTBSS-BHHHHHHHHTS-HHHHHHHHHHHHHTTSEE. CS
                 HTH_IclR  8 iLdalaeapqeltlselArrtglpkStvhRlLqtLvelGyveq 50
                             iL +l++     t  elA+ + + k++  R +++L++ G+v++
  PHY93_16585|PHY93_16585 37 ILFQLSR--STATMGELAEYALVDKAAMTRVVASLEKSGLVKR 77
                             4444555..55568***************************96 PP

>> HTH_5  Bacterial regulatory protein, arsR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.0   2.5e-06     0.005       2      46 ..      32      76 ..      31      77 .. 0.96

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 2.5e-06
                             HHHHHHHHHHTTSSEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEE CS
                    HTH_5  2 ptRlkILklLaegelcvcelaeelglsqstvShHLkkLreaGLVe 46
                             pt+  IL++L+++ ++ +elae+  + +++  +  + L+++GLV+
  PHY93_16585|PHY93_16585 32 PTQMLILFQLSRSTATMGELAEYALVDKAAMTRVVASLEKSGLVK 76
                             8999***************************************96 PP

>> Rrf2  Transcriptional regulator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   7.3e-06     0.015       7      56 ..      28      76 ..      25      79 .. 0.87
   2 ?   -2.3   0.0         3     6e+03      50      67 ..     100     117 ..      88     123 .. 0.62

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 7.3e-06
                             HHHHHHHHHHHHHSSTCC-B-HHHHHHHHTS-HHHHHHHHHHHHHTTSEE CS
                     Rrf2  7 teyalhallyLakeeeeepvsseeiaerqnispsylekilakLrkaglvk 56
                             ++++ + +l+L + ++++ +++ e+ae   + +  + +++a L+k+glvk
  PHY93_16585|PHY93_16585 28 FDFGPTQMLILFQLSRST-ATMGELAEYALVDKAAMTRVVASLEKSGLVK 76
                             566667788888888876.9*****************************8 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 3
                              HHTTSEEEETTT-TCEEE CS
                     Rrf2  50 rkaglvksvrGkgGGyrL 67 
                              r+a++++   Gk+   +L
  PHY93_16585|PHY93_16585 100 REAEIIRENIGKKVNSTL 117
                              455566655565555555 PP

>> DUF768  Protein of unknown function (DUF768)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.3   6.4e-05      0.13      22      56 ..      81     116 ..      78     133 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 6.4e-05
                   DUF768  22 ksDv.vsiaeLteklfadAkaagikseeieeevesv 56 
                              + D  + ++eLt k +a A+ a i +e+i   v+s 
  PHY93_16585|PHY93_16585  81 ETDLrITVIELTTKGKAKAREAEIIRENIGKKVNST 116
                              678459***********************9988875 PP

>> HxlR  HxlR-like helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.1   7.9e-05      0.16       7      71 ..      34      97 ..      33     114 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 7.9e-05
                             HHHHHHHHTTS-EEHHHHHHHSTTS-HHHHHHHHHHHHHTTSEEEEEESSSS-EEEEEE-TCGGG CS
                     HxlR  7 kllilvellkgkkRfselkralpkisqkmLaqrLreLeqdglierevypevPpkveYsltekGrs 71
                             ++lil++l + +  ++el++    + +  +++    Le++gl++r + ++       +lt kG++
  PHY93_16585|PHY93_16585 34 QMLILFQLSRSTATMGELAEYA-LVDKAAMTRVVASLEKSGLVKRFTHETDLRITVIELTTKGKA 97
                             58****************9876.99********************88776666667889999985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (139 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       698  (0.0389313); expected 358.6 (0.02)
Passed bias filter:                      409  (0.0228122); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1019.62
//
Query:       PHY93_08665|PHY93_08665  [L=203]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.6e-11   42.5  13.6    7.1e-11   42.2  13.6    1.1  1  BPD_transp_1  Binding-protein-dependent transport system inne


Domain annotation for each model (and alignments):
>> BPD_transp_1  Binding-protein-dependent transport system inner membrane component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.2  13.6   3.9e-15   7.1e-11       3     183 ..      26     200 ..      24     202 .. 0.86

  Alignments for each domain:
  == domain 1  score: 42.2 bits;  conditional E-value: 3.9e-15
             BPD_transp_1   3 llGilaa....lnrnkkldkllrp.liivllslPsfvlaillvlvfvilsilghlilpviillllsaapyvrlirraalrslpkdl 83 
                              ++Gil +      + +  +++l + + +++   P+++++++++       + g +  ++ ++++++ +p v  ++++al+s+  + 
  PHY93_08665|PHY93_08665  26 FIGILFGlirfSLPDFLKRNFLFNlILDAPKFPPPIAWIPFVI------LAMGIGEKSAWAIVFIGVFPAVATNTYEALSSVKVEI 105
                              5666666555444444445554441557888999999999999......7888888888888888999999999************ PP

             BPD_transp_1  84 veaaralGasrwqifrkvvlPnalppiitglilafggllggavlleflgswpGlgtllleailgydyseisnggvlalviavllln 169
                               ++ar l +s + ++ kv lP++lp ++tgl++ +   +   +++e++ +++Glg+ +    l+  ++     ++++  +++ l+ 
  PHY93_08665|PHY93_08665 106 LKVARSLELSFRVLLLKVYLPAILPQVFTGLRVGLNMGWMSIIAAEMISGSSGLGYSIQLNRLNLRFD-----LMIVDMVLISLIG 186
                              ********************************************************************.....7889999999999 PP

             BPD_transp_1 170 lvadilqrlldprv 183
                              +++++ +   ++rv
  PHY93_08665|PHY93_08665 187 FFINWSVSKMERRV 200
                              99999999999987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (203 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       559  (0.0311785); expected 358.6 (0.02)
Passed bias filter:                      309  (0.0172346); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.21s 00:00:00.66 Elapsed: 00:00:00.39
# Mc/sec: 1576.14
//
Query:       PHY93_08670|PHY93_08670  [L=318]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.1e-08   32.5   0.4    2.4e-07   30.9   0.0    1.9  2  NMT1           NMT1/THI5 like
    1.2e-06   28.4   0.0    4.5e-06   26.5   0.0    1.8  1  NMT1_2         NMT1-like family
  ------ inclusion threshold ------
       0.13   12.1   0.0       0.48   10.4   0.0    1.8  2  PriA_3primeBD  3′ DNA-binding domain (3′BD)
       0.14   12.5   0.1        3.8    7.9   0.1    2.4  2  Ycf54          Protein of unknown function (DUF2488)


Domain annotation for each model (and alignments):
>> NMT1  NMT1/THI5 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.9   0.0   5.4e-11   2.4e-07      64     216 .]      94     245 ..      47     245 .. 0.70
   2 ?   -1.3   0.1      0.39   1.8e+03     117     145 ..     273     301 ..     263     311 .. 0.70

  Alignments for each domain:
  == domain 1  score: 30.9 bits;  conditional E-value: 5.4e-11
                              EEEEEEE-S--EEEEEECCC--SSGGGGTTSEEEE-S.-TTHHHHHHHHHHHTT--G.GG-EEEE-.TT-HHHHHHCTSSSEEECE CS
                     NMT1  64 vsvaallqeplsglivlkdsgikspkDLkGkrigyvg.spfekallkallakdggdp.sdvtlvnvggtslakalltgkvDaaigg 147
                              v v +l+  + ++  v  +s ik++++LkGk++g++  +  ++ +++ l++ +g+dp  dv+++n  + ++  +l+++    ++  
  PHY93_08670|PHY93_08670  94 VGVSRLMY-NRTATYVPPKSSIKNLTELKGKTVGVPFgAAAQRVIVDNLVS-KGLDPkTDVKFINLAMPEHG-PLIKK---SGL-E 172
                              56666664.444556677789*************98725556666666665.56765169******777775.77766...233.4 PP

                              ETTTHHHHHH.......HTT--EEEE-GGGTT-----SEEEEEEHHHHHH-HHHHHHHHHHHHHHHHHHHHSHHHH CS
                     NMT1 148 yenwegvele.......segkelrifaladlgvpdyyslvlitnekllkenpelvkkFlrAlkkGyeyalahPeea 216
                               ++w+++++        +  + + ++ + d g  +++slvl+ n+++l++n+  +k +  Alk +y+y  ah +ea
  PHY93_08670|PHY93_08670 173 ATTWDQFNALsgfdplpAIMEARGMVRIIDTG--KVCSLVLM-NKEFLEKNKGVAKNISLALKDAYAYYRAHKAEA 245
                              44566666443555543333456666666777..78988876.999**************************8887 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 0.39
                              --GGG-EEEE-.TT-HHHHHHCTSSSEEE CS
                     NMT1 117 gdpsdvtlvnvggtslakalltgkvDaai 145
                              ++ ++ + ++v++++   al+++ +D++ 
  PHY93_08670|PHY93_08670 273 MKVKKDKDIKVTFSDEDFALMQKGADFVA 301
                              55555555666666666699999999987 PP

>> NMT1_2  NMT1-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.5   0.0     1e-09   4.5e-06      81     243 ..      93     243 ..      18     248 .. 0.74

  Alignments for each domain:
  == domain 1  score: 26.5 bits;  conditional E-value: 1e-09
                   NMT1_2  81 mkvlaslnlnGqaitlsnklkdkkvsdakalkdlvakkkaskplkiavtfpgsthdlllrywLaaaGldpeadvklvvvpppqmva 166
                                ++ +l +n  a  ++ k      s+ k+l +l       k+ +++v+f   ++++++  ++ ++Gldp++dvk + + +p++ +
  PHY93_08670|PHY93_08670  93 WVGVSRLMYNRTATYVPPK------SSIKNLTEL-------KGKTVGVPFGAAAQRVIVDNLV-SKGLDPKTDVKFINLAMPEHGP 164
                              4555555555555555433......344444333.......788****************998.9********************* PP

                   NMT1_2 167 nlkagtidgfcv........gePwnaqavaegiGvtaltsqelwkdhPekvlgvredfveknpntaralvkalleAtkwldakke 243
                                k++ +++++         ++P +a ++a+g+ v +++++++     +  + ++++f+ekn+ +a+ +  al +A  +  a k+
  PHY93_08670|PHY93_08670 165 LIKKSGLEATTWdqfnalsgFDPLPAIMEARGM-VRIIDTGKV-----CSLVLMNKEFLEKNKGVAKNISLALKDAYAYYRAHKA 243
                              ****9999999889999999*************.*********.....999*************************999997433 PP

>> PriA_3primeBD  3′ DNA-binding domain (3′BD)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0   0.00011      0.48       8      78 ..     101     176 ..      94     181 .. 0.76
   2 ?   -1.9   0.0      0.72   3.2e+03      62      89 ..     279     306 ..     257     310 .. 0.66

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00011
            PriA_3primeBD   8 ldrtfdYrvpeel....evkiGsrVlVpfgkrklvGiVvalkeeseveeeklkpieevld.eepllteellelaew 78 
                               +rt +Y  p++      +  G++V Vpfg      iV +l ++   ++ ++k i+  +  + pl++++ le + w
  PHY93_08670|PHY93_08670 101 YNRTATYVPPKSSiknlTELKGKTVGVPFGAAAQRVIVDNLVSKGLDPKTDVKFINLAMPeHGPLIKKSGLEATTW 176
                              578889999998876444444***********99999999988855578899999755551467777777777666 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 0.72
            PriA_3primeBD  62 ldeepllteellelaewlaeyylaplge 89 
                               d +  +++e ++l++  a+  +a+ g+
  PHY93_08670|PHY93_08670 279 KDIKVTFSDEDFALMQKGADFVAANTGK 306
                              3456677777777777777777666665 PP

>> Ycf54  Protein of unknown function (DUF2488)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.0     0.048   2.1e+02      60      76 ..      79      95 ..      70     106 .. 0.84
   2 ?    7.9   0.1   0.00084       3.8       6      46 ..     210     254 ..     207     303 .. 0.86

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.048
                             S-SSEEEEEES-HHHHH CS
                    Ycf54 60 lpkpaaAivstdkkfit 76
                               +paaA+ s dk ++ 
  PHY93_08670|PHY93_08670 79 ADQPAAALFSKDKGWVG 95
                             579***********985 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.00084
                              EEEEHHHHHTT....SHHHHHHHHHHHHHHHTT----EEEEESBG CS
                    Ycf54   6 vvasakfllee....epleevLkerarnykeknkeidfwlvkePa 46 
                              v+ +++fl ++    ++++  Lk+   +y++++ e d+w+++e +
  PHY93_08670|PHY93_08670 210 VLMNKEFLEKNkgvaKNISLALKDAYAYYRAHKAEADVWFLEEAK 254
                              6789999999976666777889*****************988754 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (318 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       525  (0.0292822); expected 358.6 (0.02)
Passed bias filter:                      419  (0.02337); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.50u 0.26s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 2325.10
//
Query:       PHY93_08675|PHY93_08675  [L=75]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.3e-19   67.9   2.3    7.6e-19   67.7   2.3    1.1  1  Ribosomal_L28  Ribosomal L28 family
  ------ inclusion threshold ------
      0.015   14.5   0.2      0.018   14.3   0.2    1.0  1  DUF3150        Protein of unknown function (DUF3150)


Domain annotation for each model (and alignments):
>> Ribosomal_L28  Ribosomal L28 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.7   2.3   8.5e-23   7.6e-19       1      59 [.       3      61 ..       3      62 .. 0.98

  Alignments for each domain:
  == domain 1  score: 67.7 bits;  conditional E-value: 8.5e-23
                             ---TTT------------S-..-SSS-BTTEEEEEEEE.TTTEEEEEEEEHHHHHH--. CS
            Ribosomal_L28  1 rvCeltGkkpqfGnnvshsknkTkRtwkPNlqkvrlwseelgrkvrikvstkcLRtidk 59
                             r C+ltGkk  +Gn+vsh++nkTk++ ++Nl++++++ ++ ++ +++k+s++++R +dk
  PHY93_08675|PHY93_08675  3 RTCDLTGKKGLVGNKVSHANNKTKTKKLVNLHSKKVFDPATNSVIKLKLSAHAIRVLDK 61
                             78*******************************************************98 PP

>> DUF3150  Protein of unknown function (DUF3150)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.2     2e-06     0.018      15      69 ..       8      63 ..       4      71 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 2e-06
                  DUF3150 15 sgrkklraedlklaesklppeklaslGskkildpeaLkvfs.klKreaerlllkvG 69
                             +g+k l  +    a++k   +kl++l skk++dp++ +v++ kl + a r+l+kvG
  PHY93_08675|PHY93_08675  8 TGKKGLVGNKVSHANNKTKTKKLVNLHSKKVFDPATNSVIKlKLSAHAIRVLDKVG 63
                             788999899999999999****************998887547778899*****99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (75 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       606  (0.0338); expected 358.6 (0.02)
Passed bias filter:                      295  (0.0164538); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.39u 0.20s 00:00:00.59 Elapsed: 00:00:00.38
# Mc/sec: 596.21
//
Query:       PHY93_08680|PHY93_08680  [L=549]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.3e-49  167.8   7.3    5.8e-49  166.9   7.3    1.4  1  Peptidase_S8  Subtilase family
    1.7e-05   25.1   0.1    1.7e-05   25.1   0.1    2.2  3  CUB           CUB domain


Domain annotation for each model (and alignments):
>> Peptidase_S8  Subtilase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  166.9   7.3   6.5e-53   5.8e-49       3     284 ..     177     415 ..     175     432 .. 0.89

  Alignments for each domain:
  == domain 1  score: 166.9 bits;  conditional E-value: 6.5e-53
                              T-EEEEECS-B-TT-TTTGGGEEE..EEEE---TTSG.GGEETT-SS-TT-SC-SSS....HHHHHHHHHH-B..SSSSSB-SSTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8   3 gvlvavlDtGvdpshpdlsvttdgerklvdvideegagfngadsettstnwarddngnsieHGthvAGiaaanapeegekngvapg 88 
                               v +a++DtGvd++hpdl+ ++d+                ++ +   +t++a dd+g    HGth+AG+++a ++++ ++ gv  +
  PHY93_08680|PHY93_08680 177 AVRIAIIDTGVDYTHPDLKGNVDS---------------EHGFNFVNNTKDAMDDHG----HGTHCAGTIGAIHDNKVGVAGVMAE 243
                              588****************77665...............455567778899999999....************************* PP

                              SEEEEEE-SSTTSB-HH..HHHHHHHHHHHHCT-SEEEE-EESCETTCHHCHHHHHHHHHHHH.CCT-EEEEE--SS-T-HHEEE- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8  89 akilsvkvldtsggsmetgteliraieeaaedkvdvinmslgestslpktgrsiealainravnkkgvlvviSaGNngktgsslqa 174
                              ++i+ +k+ld  g+ +   +  ++ai++a e +vd++++s+g     ++++   e  ai+ra  +kg+++ ++aGN+    s  ++
  PHY93_08680|PHY93_08680 244 VTIIPIKFLDSTGSGSL--ESAVKAIDYATELNVDLMSNSWG---GGGRSEALFE--AIKRAS-DKGIIFTAAAGNST---S--NN 316
                              *********99998874..9**********************...4455555556..9*****.99************...3..66 PP

                              TTCEECTTTST..TCEEEEEESTTSSB-TT--B-TT.......-EEEE-S-CCCCCCCCCHHHTTTHHEEEE-SHHHCHHHHHHHH CS
                              xxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8 175 gspvgtpstsk..nvitvgayttegkiapfSsrGpssdgklkpdivapGgnivstwsrqsnnsaglssyqsmsGTSmAsPnaagaa 258
                                + ++p++++  nvi+v+a t ++++a+fSs+G +s     ++i+apG ni+st++  +        y+ msGTSmA+P+++g++
  PHY93_08680|PHY93_08680 317 DTTPSYPASYEspNVISVAALTAQNDLAYFSSYGRNS-----VHIAAPGHNILSTVKGGG--------YEIMSGTSMATPHVSGVL 389
                              6777778888788**********************99.....7*****************........****************** PP

                              HHHHHHHTT--HHHHHHHHHCCS-EE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8 259 AlllsalpkltpetvraallntAqdl 284
                               lll +   l  e ++a l +t  ++
  PHY93_08680|PHY93_08680 390 GLLLAKEGRLPHEVMKARLTMTGVPV 415
                              ********999999999999997665 PP

>> CUB  CUB domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0      0.55     5e+03      34      50 ..      59      75 ..      55      95 .. 0.68
   2 ?   -3.1   0.5       1.1   9.8e+03      12      23 ..     317     328 ..     310     330 .. 0.76
   3 !   25.1   0.1   1.9e-09   1.7e-05      19     108 ..     462     545 ..     451     546 .. 0.79

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 0.55
                             -TTEEEEEEEESEEB-- CS
                      CUB 34 ekgssvklkfedfelee 50
                              +++++kl+++++++ +
  PHY93_08680|PHY93_08680 59 APKREIKLTYQSLNVLS 75
                             56788999999998753 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 1.1
                              EESTTTTS---S CS
                      CUB  12 isspnypkeYee 23 
                               ++p+yp++Ye+
  PHY93_08680|PHY93_08680 317 DTTPSYPASYES 328
                              46899****985 PP

  == domain 3  score: 25.1 bits;  conditional E-value: 1.9e-09
                              S---SS-EEEEEEE--TTEEEEEEEESEEB--BSTSSSSEEEEEETTESSSSEEEEE-S.SSS-SEEE-SSSEEEEEEE--SS--S CS
                      CUB  19 keYeenkeCvweiraekgssvklkfedfeleeeeecayDyveirdgeeasskllgkfcG.sekpediksssnqllikfvsdesvsk 103
                              ++Y+en++ +   + + ++ v +k+e+f+le      yDyv i d   ++   l+k+ G  e+ ++  ++++++ ++fvsd+sv+k
  PHY93_08680|PHY93_08680 462 HPYKENSAVKTVYQFHGAKYVRVKVEKFDLE----SGYDYVRIADRAGNT---LEKVSGtGENYTTDFIEGDTVELNFVSDRSVNK 540
                              456666666666666777789999*******....99*******999955...77777743444555577**************** PP

                              SEEEE CS
                      CUB 104 kGFki 108
                               GFki
  PHY93_08680|PHY93_08680 541 WGFKI 545
                              ***98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (549 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       334  (0.018629); expected 358.6 (0.02)
Passed bias filter:                      278  (0.0155056); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.22s 00:00:00.80 Elapsed: 00:00:00.41
# Mc/sec: 3983.08
//
Query:       PHY93_08685|PHY93_08685  [L=254]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (254 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       515  (0.0287244); expected 358.6 (0.02)
Passed bias filter:                      441  (0.024597); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.21s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 1880.41
//
Query:       PHY93_08690|PHY93_08690  [L=336]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      6e-20   72.1   0.7      1e-19   71.3   0.1    1.7  2  DUF4340   Domain of unknown function (DUF4340)
  ------ inclusion threshold ------
       0.34   11.6   3.5       0.27   11.9   1.1    2.1  2  PglD_N    PglD N-terminal domain


Domain annotation for each model (and alignments):
>> DUF4340  Domain of unknown function (DUF4340)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   71.3   0.1   1.2e-23     1e-19       1     180 [.      79     259 ..      79     263 .. 0.93
   2 ?   -2.1   0.1      0.38   3.4e+03      73      93 ..     301     322 ..     267     329 .. 0.60

  Alignments for each domain:
  == domain 1  score: 71.3 bits;  conditional E-value: 1.2e-23
                  DUF4340   1 WrltedsnfpadqdkvdslldalaslkadslvsedaedlakygLddPeatvtvtdad..latlyvGketpndggsyYvrlegddav 84 
                              W + ++ ++ a++  +++l++al+++k+++  ++++ + + +  d+P+ t+ + d++  + ++++G  ++  ++s+Y +++g + +
  PHY93_08690|PHY93_08690  79 WHMVSPRDISANSLFIEKLFNALTTIKVKKIFPDEKINASNFSIDKPTSTLNLIDENgkEIVIVLGLMNT-IDNSTYLKISGRSGI 163
                              9****************************766666******************999999***********.789************ PP

                  DUF4340  85 ylvssalaeslkkklsdwrdkdllqldsedvtkiel....vskegrtlelekkedgettsakpegeeldtaklntllsalssLkis 166
                              ++v+    +  + ++ d+++ ++ +++ ++++++++    +++++ +le++k++ ++    + eg+ l  +k++++l+ lssLk s
  PHY93_08690|PHY93_08690 164 FHVEAPNVSLENATILDLIESQIISINLDTIVAFKIyrgnKKAGTPQLEIKKNGGDWY---DREGNLLSREKIDDYLQDLSSLKSS 246
                              ****99999889***********************99999999999999999999999...99**********************9 PP

                  DUF4340 167 afveykasdeaayg 180
                               ++ +k++d  + +
  PHY93_08690|PHY93_08690 247 FII-DKQTDSQKRQ 259
                              999.6888776655 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 0.38
                  DUF4340  73 syYvr.legddavylvssalae 93 
                              +y++  ++++++ y+v++++ e
  PHY93_08690|PHY93_08690 301 EYFIVtISNNSTSYVVKKEFYE 322
                              3333324444445555555555 PP

>> PglD_N  PglD N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.1      0.69   6.2e+03      44      66 ..     122     144 ..      94     152 .. 0.61
   2 ?   11.9   1.1     3e-05      0.27      17      70 ..     260     312 ..     257     322 .. 0.69

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 0.69
                   PglD_N  44 lgkaiellkslseeeyevviAIG 66 
                              + k+ + l+ + e+  e+vi +G
  PHY93_08690|PHY93_08690 122 IDKPTSTLNLIDENGKEIVIVLG 144
                              33445566666666666666555 PP

  == domain 2  score: 11.9 bits;  conditional E-value: 3e-05
                   PglD_N  17 iieangeyeiigflDdnkkteve.gypvlgkaiellkslseeeyevviAIGnnkv 70 
                              i++  ++ e i+ + dnk+++++ ++ ++  ++++++ l++eey +++ I nn++
  PHY93_08690|PHY93_08690 260 INNLAKNAEYIVSIEDNKANTIDyNISGITRDLSDID-LKNEEY-FIVTISNNST 312
                              6667778999*******97654323445544444444.556777.********85 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (336 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1214  (0.0677115); expected 358.6 (0.02)
Passed bias filter:                      569  (0.0317363); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.21s 00:00:00.74 Elapsed: 00:00:00.39
# Mc/sec: 2552.11
//
Query:       PHY93_08695|PHY93_08695  [L=481]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.4e-13   50.1   0.0    5.2e-13   49.0   0.0    1.5  1  HD_5          HD domain
    7.6e-11   42.3   0.0    1.7e-10   41.2   0.0    1.5  1  HD            HD domain
     0.0013   18.9   0.2     0.0038   17.4   0.2    1.9  1  Response_reg  Response regulator receiver domain
  ------ inclusion threshold ------
      0.028   14.6   0.0       0.05   13.7   0.0    1.4  1  HD_6          HD domain
      0.043   13.8   0.9       0.13   12.3   0.9    1.8  1  Rep-A_N       Replication factor-A protein 1, N-terminal doma
       0.11   12.6   0.7        3.1    8.0   0.0    3.4  3  PAH           Paired amphipathic helix repeat


Domain annotation for each model (and alignments):
>> HD_5  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.0   0.0   1.8e-16   5.2e-13       4      61 ..     352     409 ..     349     411 .. 0.94

  Alignments for each domain:
  == domain 1  score: 49.0 bits;  conditional E-value: 1.8e-16
                     HD_5   4 tpeerellqehpeaaarlLsklprlpkdvaeiigqhhErldGsGyPrglkgeeIplea 61 
                              +pe+ e+++ hp+ + ++++    ++  v++ii+qhhE +dG+G+P g+kg++I   a
  PHY93_08695|PHY93_08695 352 SPEQFEMFKNHPALGLQIIESSRAINNSVKQIILQHHEAYDGTGFPYGKKGNKILTLA 409
                              7999**************************************************8766 PP

>> HD  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.2   0.0   5.5e-14   1.7e-10       2     119 ..     297     418 ..     296     419 .. 0.91

  Alignments for each domain:
  == domain 1  score: 41.2 bits;  conditional E-value: 5.5e-14
                              HHHHHHHHHHHHHHHHHHHH..HHHHHHHHHHHHHTTTTHHHHTS..HHH......HHHCTCCHHHHHHHHHHHHHHHHHHHHHHH CS
                       HD   2 leHsleVaklarrlaedlge..eedrellllaaLlHDiGkgpfgdafekk......eeefekflaHekvgaeilrevekrlgldle 79 
                              + Hs+ V  ++  + ++ +    +  e++ +a+ +HDiGk + + +f +       +e fe f++H   g +i++ +   ++    
  PHY93_08695|PHY93_08695 297 FAHSFLVTLYSTAIIKQFEWqsKTTIETTAMACMFHDIGKTLLSKEFINLrpkdmsPEQFEMFKNHPALGLQIIESSRAINNS--- 379
                              6799999999999999988899999*****************99988887987776555******************999955... PP

                              HHHHHHHTTCCHHHHHHHHHHHHCCTSCHHHHHHHHHHHH CS
                       HD  80 dvaklirehheswegkkrprglaerqlslearivklaDrl 119
                               v ++i++hhe  +g+++p g+++  +  +a iv laD +
  PHY93_08695|PHY93_08695 380 -VKQIILQHHEAYDGTGFPYGKKGNKILTLANIVGLADDF 418
                              .*************************************75 PP

>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.2   1.3e-06    0.0038       1     109 [.       5     117 ..       5     120 .. 0.85

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 1.3e-06
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHH. CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseeed. 85 
                              +l+vd d++ ++  +++l  + y +v  +++g++a   l +ek+  ++++ ++++ +  ++lk i+ +  + +vi++  ++e  d 
  PHY93_08695|PHY93_08695   5 ILLVDPDEAWLSSAKKFLIAQMY-DVVIVNNGRDAQLSLYNEKFFAVIMNYDIQNHSCTQVLKFIKSNYTNQRVIVIIDNKELVDn 89 
                              89*****************9999.*********************************************99999999877774331 PP

                              ....HHHHHHCTESEEEESSG-HHHHHH CS
             Response_reg  86 ....avealkagaddflsKpfdpeeLlk 109
                                   ++  k+g+ ++ +Kpfd   L++
  PHY93_08695|PHY93_08695  90 givsEEKLQKLGVAEMAVKPFDLPYLKD 117
                              1111345568899999999998877766 PP

>> HD_6  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   1.7e-05      0.05      33     120 ..     305     388 ..     292     407 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1.7e-05
                              HTS-HHHHHC.TS-HHHHHHHHHHHHHCCCGGG..SSHHHHTTS----TTS-.....-GGGT----HHHHHHHHHH...HHHHHHH CS
                     HD_6  33 kwlsllarllrgleeealrrllaflaalHDlGK..aspaFqakvpelaekleeaglelekelekarHdslgaalle...evarsla 113
                               + + + +++ +++++++ +  a+ ++ HD+GK  +s++F +++p+ ++   ++++e        +H +lg+ + e   + ++s+ 
  PHY93_08695|PHY93_08695 305 LYSTAIIKQF-EWQSKTTIETTAMACMFHDIGKtlLSKEFINLRPKDMS---PEQFE-----MFKNHPALGLQIIEssrAINNSVK 381
                              4444466667.9999******************555999*999976554...44444.....4568999*9999778878889999 PP

                              HHHHTTT CS
                     HD_6 114 aavggHH 120
                              ++++ HH
  PHY93_08695|PHY93_08695 382 QIILQHH 388
                              9999999 PP

>> Rep-A_N  Replication factor-A protein 1, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.9   4.2e-05      0.13      42      99 ..      30      87 ..      23      89 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 4.2e-05
                             EEEESSSEEEEEEESGGGHHHHHTTSSSTT-EEEEEEEEEEESTTSSEEEEEEEEEEE CS
                  Rep-A_N 42 lllsDgknkakamlatqLnslvksgklqklsivrlteyvvneikegrkvlivlelevv 99
                             ++++ g +++ ++ + +    + +  +q+ s  ++ +++ ++  ++r ++i+ + e v
  PHY93_08695|PHY93_08695 30 VIVNNGRDAQLSLYNEKFFAVIMNYDIQNHSCTQVLKFIKSNYTNQRVIVIIDNKELV 87
                             46799999999*********************************77777777766655 PP

>> PAH  Paired amphipathic helix repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.0      0.19   5.6e+02      12      37 ..      71     125 ..      62     127 .. 0.77
   2 ?    8.0   0.0     0.001       3.1      21      43 ..     266     288 ..     176     292 .. 0.72
   3 ?   -3.0   0.0         3   8.8e+03      30      37 ..     358     365 ..     357     365 .. 0.85

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.19
                      PAH  12 dyqke....qidskeVyeq.........................VskLFhdhpdL 37 
                              +y+++     id ke++ +                         +++L+++h+ L
  PHY93_08695|PHY93_08695  71 NYTNQrvivIIDNKELVDNgivseeklqklgvaemavkpfdlpyLKDLLEGHQSL 125
                              6777744444888887777777777888888888888888888899999999877 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.001
                      PAH  21 keVyeqVskLFhdhpdLlreFnq 43 
                               eV+e+V +L++++p L+   ++
  PHY93_08695|PHY93_08695 266 REVCENVYNLIESQPNLFSVLKS 288
                              359999***********875554 PP

  == domain 3  score: -3.0 bits;  conditional E-value: 3
                      PAH  30 LFhdhpdL 37 
                               F++hp L
  PHY93_08695|PHY93_08695 358 MFKNHPAL 365
                              69****87 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (481 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       848  (0.0472977); expected 358.6 (0.02)
Passed bias filter:                      390  (0.0217525); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.41
# Mc/sec: 3495.15
//
Query:       PHY93_08700|PHY93_08700  [L=57]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.7e-21   76.4   3.6    1.9e-21   76.2   3.6    1.1  1  Ribosomal_L33  Ribosomal protein L33


Domain annotation for each model (and alignments):
>> Ribosomal_L33  Ribosomal protein L33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.2   3.6   1.1e-25   1.9e-21       1      45 [.       8      57 .]       8      57 .] 0.90

  Alignments for each domain:
  == domain 1  score: 76.2 bits;  conditional E-value: 1.1e-25
                             .EEEEEET...........EEEEETT..--S--EEEEEETTTTEEEEEEE CS
            Ribosomal_L33  1 ekvtLeCtecks.....rnYtttknkkntperLelkKYcprcrkhtlhkE 45
                             ++vtLeCte+++     ++Ytttknkk+tp+rLelkKY+p++r+ht+hkE
  PHY93_08700|PHY93_08700  8 VIVTLECTEARKegkspSRYTTTKNKKTTPDRLELKKYNPFLRRHTIHKE 57
                             68*******9995655533******************************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (57 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       443  (0.0247086); expected 358.6 (0.02)
Passed bias filter:                      274  (0.0152825); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.18s 00:00:00.61 Elapsed: 00:00:00.38
# Mc/sec: 444.85
//
Query:       PHY93_08705|PHY93_08705  [L=95]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (95 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       753  (0.041999); expected 358.6 (0.02)
Passed bias filter:                      577  (0.0321825); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.20s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 727.60
//
Query:       PHY93_18695|PHY93_18695  [L=80]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (80 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       426  (0.0237604); expected 358.6 (0.02)
Passed bias filter:                      330  (0.0184059); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.21s 00:00:00.60 Elapsed: 00:00:00.38
# Mc/sec: 631.11
//
Query:       PHY93_16590|PHY93_16590  [L=516]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.2e-81  273.2   0.4    5.2e-81  272.9   0.4    1.1  1  FAD_binding_2   FAD binding domain
    8.6e-08   31.8   1.2    4.4e-06   26.1   0.7    2.6  2  Pyr_redox_2     Pyridine nucleotide-disulphide oxidoreductase
    4.3e-07   29.8   0.6    1.1e-06   28.5   0.7    1.4  1  DAO             FAD dependent oxidoreductase
    6.1e-06   25.2   0.0      0.027   13.2   0.0    3.0  3  HI0933_like     HI0933-like protein
    3.3e-05   23.3   0.1    6.2e-05   22.4   0.1    1.4  1  FAD_binding_3   FAD binding domain
    3.4e-05   23.1   0.1    5.2e-05   22.5   0.1    1.2  1  Lycopene_cycl   Lycopene cyclase protein
     0.0003   20.1   2.2    0.00093   18.5   1.4    2.2  2  Thi4            Thi4 family
    0.00037   20.7   0.2    0.00095   19.3   0.2    1.7  1  NAD_binding_8   NAD(P)-binding Rossmann-like domain
    0.00053   19.2   0.4      0.003   16.7   0.1    2.1  2  GIDA            Glucose inhibited division protein A
  ------ inclusion threshold ------
      0.023   14.3   0.1      0.055   13.1   0.1    1.6  1  ApbA            Ketopantoate reductase PanE/ApbA
      0.024   14.2   0.0      0.053   13.1   0.0    1.5  1  UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family,
      0.025   13.9   0.1      0.051   12.9   0.1    1.4  1  AlaDh_PNT_C     Alanine dehydrogenase/PNT, C-terminal domain
      0.066   12.5   0.7       0.16   11.3   0.7    1.6  1  FAD_oxidored    FAD dependent oxidoreductase
      0.069   13.1   0.1       0.25   11.4   0.0    2.0  2  Succ_DH_flav_C  Fumarate reductase flavoprotein C-term
      0.079   13.2   0.2        3.9    7.8   0.1    2.7  2  TrkA_N          TrkA-N domain
      0.089   12.6   0.1       0.24   11.3   0.1    1.7  1  UvrD_C_2        UvrD-like helicase C-terminal domain
      0.089   13.4   0.1       0.29   11.7   0.1    1.9  1  Pyr_redox       Pyridine nucleotide-disulphide oxidoreductase
       0.14   12.0   0.1       0.29   11.0   0.1    1.5  1  3HCDH_N         3-hydroxyacyl-CoA dehydrogenase, NAD binding 


Domain annotation for each model (and alignments):
>> FAD_binding_2  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  272.9   0.4   5.2e-84   5.2e-81       1     417 []       6     392 ..       6     392 .. 0.94

  Alignments for each domain:
  == domain 1  score: 272.9 bits;  conditional E-value: 5.2e-84
                              SEEEE--SHHHHHHHHHHHHTTT-EEEEESSS.GGGSGGGG--S-EE-TT..SSGGSTC.CHHHHHHHHHHHHTTT-S-HHHHHHH CS
            FAD_binding_2   1 DviViGsGlAGLaAAleaaeaGlkvavvekeq.efggatawsqGgidavlspeqkkagikdspelhrtdtlkaldeladqplveaf 85 
                              Dv++iG+G+AGL+AA+++ae Glk+ +v+ e+ +++ +t+w+qGgi  +            s+e+ ++d lka+ + +  ++++++
  PHY93_16590|PHY93_16590   6 DVLIIGTGIAGLSAAARLAESGLKIGIVTREKdPTQTNTVWAQGGIIYSK----------GSEESLVEDILKASSGTSSLEAARLV 81 
                              9************************999887527888*********9998..........35899********************* PP

                              HHTHHHHHHHHHHT..T----BCCTSSB-EEE-TT-SSTEEEE-.STT-......HHHHHHHHHHHHHHTCT..EEEEESEEEEEE CS
            FAD_binding_2  86 veaapeavdeLeel..gvpfsrtedgpvdvrelGglsatartlhdaadarretlvtghallarlvesarkag..vdfqerteadeL 167
                              + ++ + ++ L  +  +  f ++e+g+++ ++  ++s   r+l+  +d       tg+++  +l+++++++   v f++++ a +L
  PHY93_16590|PHY93_16590  82 AYESSAILEDLLINkaHTGFEKSEEGELKFTKEAAHSVA-RILY-KGDF------TGKEIQITLLNYLKNNFpnVVFFTSHTAIDL 159
                              *******999988888888888999**************.****.***9......*************666699************ PP

                              EEC............TTEEEEEEEEETTTTCEEEEEESEEEE-----GG..........GSSSBSSGTT-S-HHHHHHHCTTSSEE CS
            FAD_binding_2 168 ive............dgrvtGavvenpesgrevrirakavvlatgGfgrallkellgaaaeaettnapavtGdglalalragaaln 241
                              ++             +++v Ga++  +e++  v++ ak ++latgG+g+           + + +n +++ Gdg+a+a raga l+
  PHY93_16590|PHY93_16590 160 LTAlhhgvkiqqryeENKVLGAYLFSQETKAVVKLLAKFTILATGGIGA----------LYLHHSNSEGARGDGHAMAHRAGAVLT 235
                              **555555555444444*******************************9..........*************************** PP

                              S..TT-EEEEEEEET....TTTBB--THHHHTT-EEE-TTSSBTH......GGGS-HHHHHHHHH.HHHHTTTSCCBEEEE-TT.S CS
            FAD_binding_2 242 ddrmeevqfhPtslvpirdgsgiLitealrgeGgilvdkdGrrFm......nelasrdvvsrailekeiaeggseanvyldashgl 321
                              d  me++qfhPt  ++ +++ + Li+ea+rgeGgil++++G+rFm       ela+rd+v+rai  +ei e++s ++vyld++h  
  PHY93_16590|PHY93_16590 236 D--MEFIQFHPTTFYGGATHRRFLISEAVRGEGGILINSEGERFMkkyhsdLELAPRDIVARAIA-EEIIETKS-DCVYLDITH-K 316
                              *..**************************************************************.99999**9.9********.* PP

                              SHHHHHHHSHHHHHHHHHCCT......S-TTTSEEE.......EEEEEEEES-EEEBETTSBESTTEEESSBTEEE-STCEESSSS CS
            FAD_binding_2 322 daegleatleaineeaangldkdfgrgidpadrpipgpfyavkvvpaqhytmgGvetdengrvldadgqpipGLYAaGevaaggvh 407
                              dae +++++++i++++ +  d      id +   ip       vvpa+hyt+gGv+td+ g +      ++++LYA+Geva++g+h
  PHY93_16590|PHY93_16590 317 DAEWIKNRFPTIYKHCLD-ND------IDMTCDRIP-------VVPAAHYTCGGVKTDLVGLT------TLQNLYAVGEVACTGLH 382
                              ***********9999988.66......8999888**.......********************......***************** PP

                              TTS--TTHHH CS
            FAD_binding_2 408 ganrlgGnsl 417
                              ganrl+++sl
  PHY93_16590|PHY93_16590 383 GANRLASTSL 392
                              ********98 PP

>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.1   0.7   4.4e-09   4.4e-06       1      58 [.       5      92 ..       5     241 .. 0.72
   2 ?    3.6   0.0     0.033        33     256     279 ..     355     382 ..     349     395 .. 0.78

  Alignments for each domain:
  == domain 1  score: 26.1 bits;  conditional E-value: 4.4e-09
                             CSEEEE--SHHHHHHHHHHHHHTS-EEEEE......TTHCHHHCSHHHHCHHHHHHHHHHHHH........................H CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxx........................x RF
              Pyr_redox_2  1 kdvvviGgGpAGlaaaltlaqagakvtlve......legtclnggcllskallgvaedaeias........................e 58
                             +dv++iG G+AGl+aa +la++g+k+ +v       +++t+  +g +++++  + +  ++i++                         
  PHY93_16590|PHY93_16590  5 YDVLIIGTGIAGLSAAARLAESGLKIGIVTrekdptQTNTVWAQGGIIYSKGSEESLVEDILKassgtssleaarlvayessailedL 92
                             69***************************76555653333333333333333333333334445555556655555555555555551 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.033
                              TEEE--TTSBESSTTEEE-GGGC....T CS
                              xxxxxxxxxxxxxxxxxxxxxxx....x RF
              Pyr_redox_2 256 ggivvdeflrtnvpgiyaiGDva....g 279
                              gg+++d  + t+ +++ya+G va    +
  PHY93_16590|PHY93_16590 355 GGVKTDLVGLTTLQNLYAVGEVActglH 382
                              7889999999*************66443 PP

>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.5   0.7   1.1e-09   1.1e-06       1      83 [.       6     103 ..       6     125 .. 0.71

  Alignments for each domain:
  == domain 1  score: 28.5 bits;  conditional E-value: 1.1e-09
                              EEEEECTSHHHHHHHHHHHHTT..EEEEESSSSTTS.SGGGSSEEEEESSSSTHHSTH...............HHHHHHH.HHHHH CS
                      DAO   1 dvviiGGGiiGlstAyeLarrg..Vtllekgdiags.gaSgrnsgllhsglrylpeas...............elarlsl.ealee 67 
                              dv+iiG Gi+Gls+A  La+ g  + ++ +++++ +  + ++ +g+++s  +  +  s               e arl++ e+ + 
  PHY93_16590|PHY93_16590   6 DVLIIGTGIAGLSAAARLAESGlkIGIVTREKDPTQtNTVWAQGGIIYSKGS-EE--SlvedilkassgtsslEAARLVAyESSAI 88 
                              8***********************9999999999986999999999998763.22..22345566666666665566666355566 PP

                              HHHHHHHHSSTTSEEE CS
                      DAO  68 lreleeelgididyrr 83 
                              l++l  +   ++++++
  PHY93_16590|PHY93_16590  89 LEDLLIN-KAHTGFEK 103
                              6444432.23455555 PP

>> HI0933_like  HI0933-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.2   0.0   2.7e-05     0.027       1      39 [.       5      43 ..       5     137 .. 0.68
   2 ?    1.2   0.0      0.12   1.2e+02     122     189 ..     165     236 ..     146     244 .. 0.67
   3 !    7.1   0.0    0.0019       1.9     349     384 ..     346     376 ..     276     383 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 2.7e-05
                             -SEEEE--SHHHHHHHHHHHHTT--EEEE-SSSSS-HHH CS
              HI0933_like  1 kdviviGgGaAGlmaAisaakrgkrVlllekakklgrKi 39
                             +dv++iG G AGl aA+++a+ g ++ ++ ++k + +  
  PHY93_16590|PHY93_16590  5 YDVLIIGTGIAGLSAAARLAESGLKIGIVTREKDPTQTN 43
                             59************************9999888776655 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.12
                              HT-EEE-S--EEEEECETTE.EEEEE.TTEEEEESEEEE----SS-......GGGT--SHHHHHHHHTT--EEE CS
              HI0933_like 122 agvklrletevksvekeedgkfrvktkseeeleadklvlAtGGlSi......PklGstgkgyklaeqfghtivp 189
                               gvk++ + e ++v       f+ +tk   +l a+ ++lAtGG  +       + G+ g+g+ +a+ +g  +++
  PHY93_16590|PHY93_16590 165 HGVKIQQRYEENKV--LGAYLFSQETKAVVKLLAKFTILATGGIGAlylhhsNSEGARGDGHAMAHRAGAVLTD 236
                              45555555555555..44555667777778899999******97652222225569999999999998877665 PP

  == domain 3  score: 7.1 bits;  conditional E-value: 0.0019
                              -TTT-SEEEEEE-GGGB-TTT-BBTTSTTEEE-GGG CS
              HI0933_like 349 glrkaevTaGGVdlkevssktmeskkvpgLffaGEv 384
                               +  a  T+GGV+++ v   t+     ++L+ +GEv
  PHY93_16590|PHY93_16590 346 VVPAAHYTCGGVKTDLVGLTTL-----QNLYAVGEV 376
                              5678999************999.....9*******9 PP

>> FAD_binding_3  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.4   0.1   6.3e-08   6.2e-05       1      39 [.       4      42 ..       4      56 .. 0.89

  Alignments for each domain:
  == domain 1  score: 22.4 bits;  conditional E-value: 6.3e-08
                             EEEEEEE--SHHHHHHHHHHHHTTHHEEEEESSSSSCCS CS
            FAD_binding_3  1 etdVlIVGaGpaGlmlallLseaGvrvvlvekrsttvvl 39
                             e+dVlI+G+G aGl++a  L+e G +  +v++ ++ +++
  PHY93_16590|PHY93_16590  4 EYDVLIIGTGIAGLSAAARLAESGLKIGIVTREKDPTQT 42
                             589****************************99998876 PP

>> Lycopene_cycl  Lycopene cyclase protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.5   0.1   5.2e-08   5.2e-05       1      45 [.       6      47 ..       6      56 .. 0.88

  Alignments for each domain:
  == domain 1  score: 22.5 bits;  conditional E-value: 5.2e-08
            Lycopene_cycl  1 DvvviGaGpAglslAarlteakpglkvvlieaspsllfpnnyvWs 45
                             Dv++iG G Agls Aarl  a+ glk++++   +++    n vW 
  PHY93_16590|PHY93_16590  6 DVLIIGTGIAGLSAAARL--AESGLKIGIVTREKDP-TQTNTVWA 47
                             9*****************..99********655555.77788997 PP

>> Thi4  Thi4 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.5   1.4   9.3e-07   0.00093      17      65 ..       4      54 ..       2      97 .. 0.81
   2 ?   -3.7   0.0       5.6   5.5e+03     212     233 ..     367     389 ..     365     390 .. 0.76

  Alignments for each domain:
  == domain 1  score: 18.5 bits;  conditional E-value: 9.3e-07
                             EEEEEEE--SHHHHHHHHHHHHCTTS-EEEEESSSS-..-TTTTT.TSTTBS CS
                     Thi4 17 esDvvivGaGssGLtaayylakkpdlkvailersvsp..GGGawl.GGqlfs 65
                             e Dv+i+G+G +GL+aa  la++ +lk+ i+ r+  p     +w  GG ++s
  PHY93_16590|PHY93_16590  4 EYDVLIIGTGIAGLSAAARLAES-GLKIGIVTREKDPtqTNTVWAqGGIIYS 54
                             78*********************.****999766544114455632555555 PP

  == domain 2  score: -3.7 bits;  conditional E-value: 5.6
                              ETTEEE-T.HHHHHHHT-EB--S CS
                     Thi4 212 vpnlyvaG.mevaevdganRmGp 233
                              ++nly+ G ++ + ++ganR+ +
  PHY93_16590|PHY93_16590 367 LQNLYAVGeVACTGLHGANRLAS 389
                              57899777468889999999865 PP

>> NAD_binding_8  NAD(P)-binding Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.3   0.2   9.6e-07   0.00095       1      24 [.       9      32 ..       9      53 .. 0.90

  Alignments for each domain:
  == domain 1  score: 19.3 bits;  conditional E-value: 9.6e-07
                             EE--SHHHHHHHHHHHCCTEEEEE CS
            NAD_binding_8  1 IvGaGlsGlvaAylLakagfdvll 24
                             I+G+G++Gl+aA++La+ g+++ +
  PHY93_16590|PHY93_16590  9 IIGTGIAGLSAAARLAESGLKIGI 32
                             9*****************999866 PP

>> GIDA  Glucose inhibited division protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.1     3e-06     0.003       1      33 [.       6      38 ..       6      65 .. 0.90
   2 ?   -0.2   0.0      0.42   4.1e+02     135     194 ..     190     251 ..     151     256 .. 0.56

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 3e-06
                             CEEEE-SSHHHHHHHHHHHHTT--EEEEES-GG CS
                     GIDA  1 dviViGgGhAGceAAlaaarlGakvlLithkld 33
                             dv +iG G AG+ AA+ +a++G+k+ ++t + d
  PHY93_16590|PHY93_16590  6 DVLIIGTGIAGLSAAARLAESGLKIGIVTREKD 38
                             799**********************99976655 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.42
                              TS-EEEECEEEE--TT-BT-EEEETTEEEESSC..TTC--B-THHHHHHHTT--EEEEEEEE CS
                     GIDA 135 dgetikakavviatGtflkgkihigekelsaGr..lgeltseglseslkelgfellrlktgt 194
                                 ++ ak +++atG   +   h  ++e ++G   +    + ++ ++++ ++f+   +++g+
  PHY93_16590|PHY93_16590 190 AVVKLLAKFTILATGGIGALYLHHSNSEGARGDghAMAHRAGAVLTDMEFIQFHPTTFYGGA 251
                              223456789******96666666666655555521333444445555555666666666665 PP

>> ApbA  Ketopantoate reductase PanE/ApbA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.1   5.5e-05     0.055       1      58 [.       7      68 ..       7      81 .. 0.73

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 5.5e-05
                             EEEES-SHHHHHHHHHHHHHTHCEEEE-SCH.HHHH..HHHHCEEEEETT.CEEEEEECEEE CS
                     ApbA  1 iailGaGaiGsllaakLakagadvtlilrsr.rlea..lkknGlrltseg.geeilrppeal 58
                             ++i+G+G  G   aa+La+ g ++ +++r++   ++  +  +G  ++s+g +e  +++  ++
  PHY93_16590|PHY93_16590  7 VLIIGTGIAGLSAAARLAESGLKIGIVTREKdPTQTntVWAQGGIIYSKGsEESLVEDILKA 68
                             68***************************987555445666666677777455555544444 PP

>> UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   5.4e-05     0.053       3     114 ..       7     126 ..       5     131 .. 0.68

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 5.4e-05
                              EEEE--STTHHHHHHHHHHCT..SEEEEE-S-HHHHHHHCTTS-SS--TTHHHHHHHHCHTTTEEEES-........HHHHHHC-S CS
           UDPG_MGDP_dh_N   3 isviGlGYvGlvtaavlaeig..hevigvDideekvdklnsgkipiyepgLeelvkkavesgrlsfttd........vekaveead 78 
                              + +iG+G  Gl  aa lae g  + ++   +d ++ +++ ++   iy +g ee + + +  + +s+t++        +e+++   d
  PHY93_16590|PHY93_16590   7 VLIIGTGIAGLSAAARLAESGlkIGIVTREKDPTQTNTVWAQGGIIYSKGSEESLVEDI-LKASSGTSSleaarlvaYESSAILED 91 
                              789******************44445666889999999888888899888776444444.23344443300000011333344456 PP

                              EEEE-----B-TTTTCB-THHHHHHHHHHHHHHHCE CS
           UDPG_MGDP_dh_N  79 vifiaVgTPskkkgkaaDlkyvesaarsiaealkkg 114
                              +++    T ++k  ++ +lk+ ++aa+s+a++l kg
  PHY93_16590|PHY93_16590  92 LLINKAHTGFEK-SEEGELKFTKEAAHSVARILYKG 126
                              777778899888.55559999999999999988765 PP

>> AlaDh_PNT_C  Alanine dehydrogenase/PNT, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.1   5.1e-05     0.051      30      89 ..       6      66 ..       4      71 .. 0.64

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 5.1e-05
                             EEEEESTSHHHHHHHHHHHHTT-EEEEEESS..HHHHHHHHHTTTCECEEHCHHHHHHHHHH CS
              AlaDh_PNT_C 30 kvlviGgGvaGlqAiatakglgakVtvlDvr..parleqleslgakfvevlksqeellaeav 89
                              vl+iG G+aGl+A+a  ++ g k+ ++  +  p++ + + + g+  +  + s+e+l+++ +
  PHY93_16590|PHY93_16590  6 DVLIIGTGIAGLSAAARLAESGLKIGIVTREkdPTQTNTVWAQGGI-IYSKGSEESLVEDIL 66
                             59************99888777777666444004444444444444.666666666666555 PP

>> FAD_oxidored  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.7   0.00016      0.16       1      31 [.       6      36 ..       6      38 .. 0.94

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00016
             FAD_oxidored  1 DvvVvGGgpaGvaAAiaAaraGakvlLveer 31
                             Dv+++G g+aG+ AA   a++G k  +v ++
  PHY93_16590|PHY93_16590  6 DVLIIGTGIAGLSAAARLAESGLKIGIVTRE 36
                             9***********************9999875 PP

>> Succ_DH_flav_C  Fumarate reductase flavoprotein C-term
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0         6     6e+03      49      69 ..     359     379 ..     356     381 .. 0.85
   2 ?   11.4   0.0   0.00025      0.25       2      38 ..     441     477 ..     440     516 .] 0.77

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 6
                              HHHHHHHHHHHHHHHHHHHHH CS
           Succ_DH_flav_C  49 qelvealelanllelAeaiak 69 
                              ++lv    l+nl  ++e+ ++
  PHY93_16590|PHY93_16590 359 TDLVGLTTLQNLYAVGEVACT 379
                              78899999********99886 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 0.00025
                              HHHHHHHHHHSSSSB-HHHHHHHHHHHHHHHHHHTTB CS
           Succ_DH_flav_C   2 keLgkimqkkvgvfRteegLkealkelkelrerlknv 38 
                              + L+++m+++vg  R+ ++L++a +  +el +++++ 
  PHY93_16590|PHY93_16590 441 QTLKQTMWNYVGLTRSRHRLARAEAMFSELTDEINRF 477
                              5799*********************999999987754 PP

>> TrkA_N  TrkA-N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   0.1    0.0039       3.9       1      55 [.       7      62 ..       7      69 .. 0.75
   2 ?    2.5   0.0      0.17   1.7e+02       9      48 ..     293     331 ..     291     337 .. 0.80

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0039
                             EEEES-SHHHHHHHHHHHHTT..EEEEEEESSHHHHHHHHHTTSEEEES-TTSHHHH CS
                   TrkA_N  1 iiiiGlGrvGrslaeeLsegg..kdvvvidkdeerveelreeglevvvgdatdeevL 55
                             ++iiG G  G s a +L e+g  + +v  +kd+ + +++ ++g  +++  +++e+++
  PHY93_16590|PHY93_16590  7 VLIIGTGIAGLSAAARLAESGlkIGIVTREKDPTQTNTVWAQGG-IIYSKGSEESLV 62
                             68*****************6655556666788888888877663.666666666655 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.17
                              HHHHHHHHHHHTTEEEEEEESSHHHHHHHHHTTSEEEES- CS
                   TrkA_N   9 vGrslaeeLseggkdvvvidkdeerveelreeglevvvgd 48 
                              v+r++aee+ e ++d+v  d  ++ +e +++++ ++++ +
  PHY93_16590|PHY93_16590 293 VARAIAEEIIETKSDCVYLDITHKDAEWIKNRFPTIYK-H 331
                              6899*******6668*************9987765544.4 PP

>> UvrD_C_2  UvrD-like helicase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.1   0.00024      0.24      34      49 ..     445     460 ..     427     461 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00024
                 UvrD_C_2  34 rrrlLYtavTRArekl 49 
                              +  + Y+++TR+r++l
  PHY93_16590|PHY93_16590 445 QTMWNYVGLTRSRHRL 460
                              456***********98 PP

>> Pyr_redox  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.1   0.00029      0.29       2      35 ..       7      40 ..       6      45 .. 0.92

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00029
                             EEEECSSHHHHHHHHHHHHTTSEEEEEESSSSSS CS
                Pyr_redox  2 vvvvGgGyiglElAgalaelgkkVtvversdkll 35
                             v+++G G  gl +A+ lae g k+ +v r++ + 
  PHY93_16590|PHY93_16590  7 VLIIGTGIAGLSAAARLAESGLKIGIVTREKDPT 40
                             89**************************998765 PP

>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.1   0.00029      0.29       2      90 ..       7      92 ..       6     100 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00029
                             EEEE--SCCHHHHHHHHHHTT-EEEEE-S-HHHHHHHHHHHHHHHHCCTTTTSS-HHHHCCCHHCEEEES-HHHHHC-SEEEE-S-SS CS
                  3HCDH_N  2 vaviGaGtmGagiaavfasagleVvlvdiseealekalekieksleklvekgklkeeeveaalarisfttdleeavdadlviEavvEn 89
                             v +iG+G+ G + aa +a++gl++ +v ++++  ++ +  ++  +    +kg+ +e+ ve++l+  s t++le+a+ + +   a+ E+
  PHY93_16590|PHY93_16590  7 VLIIGTGIAGLSAAARLAESGLKIGIVTREKDPTQTNTVWAQGGI--IYSKGS-EESLVEDILKASSGTSSLEAARLVAYESSAILED 91
                             779*************************99998877666666533..334444.6688889999999999988888777777777777 PP

                             H CS
                  3HCDH_N 90 l 90
                             l
  PHY93_16590|PHY93_16590 92 L 92
                             6 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (516 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       631  (0.0351944); expected 358.6 (0.02)
Passed bias filter:                      557  (0.031067); expected 358.6 (0.02)
Passed Vit filter:                        75  (0.00418317); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              18  [number of targets reported over threshold]
# CPU time: 0.69u 0.25s 00:00:00.94 Elapsed: 00:00:00.42
# Mc/sec: 3649.29
//
Query:       PHY93_18700|PHY93_18700  [L=59]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.046   13.9   0.0      0.047   13.8   0.0    1.1  1  HSP20     Hsp20/alpha crystallin family
       0.16   11.2   0.0       0.16   11.2   0.0    1.0  1  AmoC      Ammonia monooxygenase/methane monooxygenase, subuni


Domain annotation for each model (and alignments):
>> HSP20  Hsp20/alpha crystallin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   5.2e-06     0.047      47      85 ..      18      56 ..       4      59 .] 0.80

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 5.2e-06
                             ----SS---EEEEEE--STTB-TTT-EEEEETTEEEEEE CS
                    HSP20 47 glikerssrkFsrkftLPenvdadkvkaslkdGvLtvtv 85
                               +k+ ++ +F+r+f++P +vd+++ + + k G L ++ 
  PHY93_18700|PHY93_18700 18 TKSKKITKVHFERTFSIPAGVDQTDPDFENKAGELLIKF 56
                             445667789**************9999988989888875 PP

>> AmoC  Ammonia monooxygenase/methane monooxygenase, subunit C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   1.8e-05      0.16      32      58 ..      23      49 ..       7      57 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 1.8e-05
                     AmoC 32 vlvrlyervfayskGldsfspefqtyW 58
                             ++ + +er+f++ +G+d+++p+f++  
  PHY93_18700|PHY93_18700 23 ITKVHFERTFSIPAGVDQTDPDFENKA 49
                             566789*****************9865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (59 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       389  (0.0216967); expected 358.6 (0.02)
Passed bias filter:                      286  (0.0159518); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.38
# Mc/sec: 460.38
//
Query:       PHY93_18705|PHY93_18705  [L=110]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    7.2e-08   32.7   0.1    1.1e-07   32.1   0.1    1.3  1  HTH_31      Helix-turn-helix domain
    1.1e-07   31.8   0.0    2.2e-07   30.8   0.0    1.5  1  HTH_3       Helix-turn-helix
    3.3e-06   26.9   0.2    1.4e-05   24.9   0.1    2.0  2  HTH_25      Helix-turn-helix domain
    4.7e-05   23.8   0.7    8.6e-05   22.9   0.7    1.5  1  HTH_26      Cro/C1-type HTH DNA-binding domain
    9.1e-05   22.4   0.4    0.00017   21.5   0.1    1.7  2  HTH_19      Helix-turn-helix domain
    0.00016   21.5   0.6    0.00037   20.4   0.1    1.8  2  HTH_37      Helix-turn-helix domain
     0.0033   16.9   0.1      0.014   14.9   0.0    2.1  2  Sigma70_r4  Sigma-70, region 4
      0.004   16.7   0.1      0.034   13.7   0.0    2.5  2  HTH_24      Winged helix-turn-helix DNA-binding


Domain annotation for each model (and alignments):
>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.1   0.1   4.7e-11   1.1e-07       1      56 [.      25      78 ..      25      86 .. 0.84

  Alignments for each domain:
  == domain 1  score: 32.1 bits;  conditional E-value: 4.7e-11
                   HTH_31  1 aLGalLralReraGLsqeevAerlgvsestlsrlEq.Grrgrpspavlealaralgl 56
                             +LG +Lr+ R   +++q+e+A+r+g+ + t+  lE+ G++    + +l ++a al+ 
  PHY93_18705|PHY93_18705 25 ELGYRLRQQRMSKRWTQQELADRTGLDVGTIKNLENkGQCA---LLTLIRIAMALDC 78
                             699*********************************55554...5677777777775 PP

>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.8   0.0   9.9e-11   2.2e-07       1      50 [.      30      78 ..      30      81 .. 0.95

  Alignments for each domain:
  == domain 1  score: 30.8 bits;  conditional E-value: 9.9e-11
                             HHHHHHHTTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTS CS
                    HTH_3  1 lkelRkqlglsqeeLAeklGvsrstisriEnGernPsletlkklakaLgv 50
                             l++ R  + ++q+eLA+++G+ + ti ++En   +  l tl+++a aL++
  PHY93_18705|PHY93_18705 30 LRQQRMSKRWTQQELADRTGLDVGTIKNLENK-GQCALLTLIRIAMALDC 78
                             89******************************.779***********995 PP

>> HTH_25  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.9   0.1   6.2e-09   1.4e-05       1      32 [.      29      60 ..      29      68 .. 0.96
   2 ?   -0.1   0.0      0.39   8.7e+02      13      32 ..      79      98 ..      66     103 .. 0.74

  Alignments for each domain:
  == domain 1  score: 24.9 bits;  conditional E-value: 6.2e-09
                             HHHHHHHTTT--HHHHHHHSS--HHHHHHHHC CS
                   HTH_25  1 rLraaRearglsleevaketkIrkdylealEe 32
                             rLr++R++++++ +e+a++t + + +++ lE+
  PHY93_18705|PHY93_18705 29 RLRQQRMSKRWTQQELADRTGLDVGTIKNLEN 60
                             7******************************8 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.39
                             HHHHHHHSS--HHHHHHHHC CS
                   HTH_25 13 leevaketkIrkdylealEe 32
                             + ++ +  +++ + + a+E+
  PHY93_18705|PHY93_18705 79 VSDLTNLFQLKISSIAAMEK 98
                             45677777888888888886 PP

>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.9   0.7   3.8e-08   8.6e-05       1      52 [.      29      78 ..      29      86 .. 0.91

  Alignments for each domain:
  == domain 1  score: 22.9 bits;  conditional E-value: 3.8e-08
                   HTH_26  1 kLrelmadrgitkseLargtgisaatlsrlvkgkpervsldtLdkiCdaLgc 52
                             +Lr+    ++ t++eLa +tg++ +t+++l ++   ++ l tL +i+ aL+c
  PHY93_18705|PHY93_18705 29 RLRQQRMSKRWTQQELADRTGLDVGTIKNLENKG--QCALLTLIRIAMALDC 78
                             56777778999*********************97..9*************** PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.1   7.7e-08   0.00017       1      35 [.      27      61 ..      27      77 .. 0.94
   2 ?   -2.3   0.0       2.1   4.7e+03      26      33 ..      90      97 ..      80     108 .. 0.59

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 7.7e-08
                   HTH_19  1 GerLkeaReelgltqeelaerlgisrskisaiEng 35
                             G+rL++ R  + +tq+ela+r+g + + i ++En 
  PHY93_18705|PHY93_18705 27 GYRLRQQRMSKRWTQQELADRTGLDVGTIKNLENK 61
                             89*******************************85 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 2.1
                   HTH_19 26 rskisaiE 33
                             +s+i+a E
  PHY93_18705|PHY93_18705 90 ISSIAAME 97
                             34444443 PP

>> HTH_37  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.4   0.1   1.7e-07   0.00037      18      73 ..      25      78 ..      13      83 .. 0.92
   2 ?   -0.8   0.0      0.69   1.5e+03      22      38 ..      92     108 ..      83     110 .] 0.65

  Alignments for each domain:
  == domain 1  score: 20.4 bits;  conditional E-value: 1.7e-07
                             HHHHHHHHHHHHCT--HHHHHHHHT--HHHHHHHHTT--TT--HHHHHHHHHHTTE CS
                   HTH_37 18 qlalaiaeliekrelsqseaaqllgiaqPkvsrllrgklsrfsldkLlnlltalGq 73
                             +l +++++++ +++++q+e+a ++g +   + +l+  +  ++ l +L++++ al++
  PHY93_18705|PHY93_18705 25 ELGYRLRQQRMSKRWTQQELADRTGLDVGTIKNLE--NKGQCALLTLIRIAMALDC 78
                             6778999****************************..899*************997 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 0.69
                              HHHHHHHHCT--HHHHH CS
                   HTH_37  22 aiaeliekrelsqseaa 38 
                               ia++ + ++l+++++ 
  PHY93_18705|PHY93_18705  92 SIAAMEKVEHLRKAKIK 108
                              46666666677666655 PP

>> Sigma70_r4  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0      0.94   2.1e+03      23      31 ..      19      27 ..      16      28 .. 0.82
   2 !   14.9   0.0   6.5e-06     0.014      18      44 ..      36      62 ..      29      66 .. 0.88

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.94
                             HHHHHHHHT CS
               Sigma70_r4 23 leEIgerlg 31
                              eEIg +lg
  PHY93_18705|PHY93_18705 19 PEEIGLELG 27
                             589**9998 PP

  == domain 2  score: 14.9 bits;  conditional E-value: 6.5e-06
                             TTT--HHHHHHHHTS-HHHHHHHHHHH CS
               Sigma70_r4 18 geglTleEIgerlgiSrerVrqiekrA 44
                              + +T++E+++r g+  ++++ +e+++
  PHY93_18705|PHY93_18705 36 SKRWTQQELADRTGLDVGTIKNLENKG 62
                             5789********************986 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0      0.48   1.1e+03      25      32 ..       2       9 ..       1      10 [. 0.85
   2 !   13.7   0.0   1.5e-05     0.034      19      35 ..      40      56 ..      38      63 .. 0.91

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.48
                   HTH_24 25 erlglSps 32
                             e+l++S++
  PHY93_18705|PHY93_18705  2 EQLNISVG 9 
                             89****98 PP

  == domain 2  score: 13.7 bits;  conditional E-value: 1.5e-05
                   HTH_24 19 sqreLAerlglSpstvn 35
                             +q+eLA+r+gl ++t++
  PHY93_18705|PHY93_18705 40 TQQELADRTGLDVGTIK 56
                             9**************85 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (110 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       458  (0.0255452); expected 358.6 (0.02)
Passed bias filter:                      316  (0.0176251); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 847.07
//
Query:       PHY93_18710|PHY93_18710  [L=405]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.5e-37  129.4   0.0      2e-37  128.9   0.0    1.1  1  HipA_C       HipA-like C-terminal domain
    7.4e-15   55.4   0.0    1.6e-14   54.4   0.0    1.5  1  Couple_hipA  HipA N-terminal domain
  ------ inclusion threshold ------
      0.078   13.3   0.0       0.22   11.9   0.0    1.8  1  DUF3874      Domain of unknonw function from B. Theta Gene de


Domain annotation for each model (and alignments):
>> HipA_C  HipA-like C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  128.9   0.0   3.4e-41     2e-37       2     206 ..     157     373 ..     156     389 .. 0.85

  Alignments for each domain:
  == domain 1  score: 128.9 bits;  conditional E-value: 3.4e-41
                              CSTSSSSEEEEEEC.........ETT---SEEEEE...ECETTCHHHHHHHHHHHHHTT--B--EEEEEET..EEEEEEE-SSEEE CS
                   HipA_C   2 slgGaqpKllladd.........kgeapsthIlKf.s.ddlpdlvenEylcmrlakaaGldvaevelveve..ekallveRFDrrk 74 
                              s  Ga+pK+l++ d         +++ +  +++Kf s ++++++ + E l+ +lak++G+++  +++++++   +a+ +eRFDr k
  PHY93_18710|PHY93_18710 157 SPHGARPKALVRFDlktktistdDHALGAPWLIKFpSeHEHKEVCAIEDLYSELAKKCGIEMETTQYFDLGkkLSAFGTERFDRWK 242
                              678********877*******97558999******556668888999************************87557*******998 PP

                              .EE--EEEHHHHCT--GGGCSCC..--HHHHHHHHCCCTTHH..HHHHHHHHHHHHHHHCTBTT--GGGSEEEE.CCCEEEE--B- CS
                   HipA_C  75 .erlhqedacqllgldpeekYek..gsyeelakllrqlsataseedleelfrrmvfniligNtDdHlKNfsllr.gggrwrLaPaY 156
                               +++++++a+ +l+ +    ++   ++y +l++l+r +  t++++++e+ f ++vfn+  +N+DdH+KNfs+l  ++++w+L+PaY
  PHY93_18710|PHY93_18710 243 tHKVPLHTAAGALNSN----FRLpsVDYISLLRLTRLM--TKDQREVEKAFLQCVFNVTFNNRDDHAKNFSFLLdAKKNWKLTPAY 322
                              99************99....33333799******9999..4568***************************88856688******* PP

                              S--BSGCCTTT.ECCEECCSSSEEEE...HHHHHHHCT--HHHHHHHHHHHHH CS
                   HipA_C 157 Dlvstaayedeelalsiggekgrear...faelaeelglkekaaeeiieevve 206
                              Dl+ +    + e+++ i g +g+++    +  la ++g+++k+a   +++v++
  PHY93_18710|PHY93_18710 323 DLTFSSGP-GGEHQMDICG-EGKNPGrehLLLLALKTGVDKKKAIFYLDKVCD 373
                              *****444.4449****87.555555477555666888888888888888876 PP

>> Couple_hipA  HipA N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.4   0.0   2.6e-18   1.6e-14       7      98 ..      14     114 ..       9     115 .. 0.85

  Alignments for each domain:
  == domain 1  score: 54.4 bits;  conditional E-value: 2.6e-18
                              TEEEEEEEEETTTEEEEEE-HHHHHTCS--SC.TTC-TTSTEB.....-CHHHHHHHHTTSBSSH...HHHHHHHHHTSS..TTSH CS
              Couple_hipA   7 gervGalardeegvarFeydpafleakgpelS.lslplsaepy.....tskglpgffanlLPege...lrellarrrgis..skde 81 
                              + + G+la d+ + + Fey++++l+ kg+elS l+l l++e+y      + +lpg++a++LP+g+   l +++ ++ g+    ++ 
  PHY93_18710|PHY93_18710  14 HWHLGELADDGIN-LLFEYSSEALK-KGIELSpLNLSLRSEAYgnfptYQGRLPGLIADSLPDGWgllLMDRVFKKKGLVlsGISS 97 
                              5678999999999.***********.***************9998886779**************66555555444443355**** PP

                              HHHHHHHTTCESTTEEE CS
              Couple_hipA  82 lelLaaiGadlmGalef 98 
                              l++La++G + mGal+f
  PHY93_18710|PHY93_18710  98 LDRLAFLGDRAMGALTF 114
                              ***************98 PP

>> DUF3874  Domain of unknonw function from B. Theta Gene description (DUF3874)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   3.7e-05      0.22      15      60 ..     192     237 ..     190     242 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 3.7e-05
                  DUF3874  15 aeeeeegewlsaaeIfevLkkknpaalrgsninsfGriLkklGikr 60 
                              ++e+e  e     +++ +L kk+++ ++ ++   +G+ L++ G +r
  PHY93_18710|PHY93_18710 192 PSEHEHKEVCAIEDLYSELAKKCGIEMETTQYFDLGKKLSAFGTER 237
                              66777777777889*****************************887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (405 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       461  (0.0257125); expected 358.6 (0.02)
Passed bias filter:                      440  (0.0245412); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.56u 0.23s 00:00:00.79 Elapsed: 00:00:00.42
# Mc/sec: 2874.10
//
Query:       PHY93_18715|PHY93_18715  [L=73]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
     0.0017   17.9   3.5     0.0017   17.9   3.5    1.3  1  Topoisom_I_N  Eukaryotic DNA topoisomerase I, DNA binding fra
  ------ inclusion threshold ------
      0.043   12.6   0.2      0.043   12.6   0.2    1.0  1  XFP_N         XFP N-terminal domain


Domain annotation for each model (and alignments):
>> Topoisom_I_N  Eukaryotic DNA topoisomerase I, DNA binding fragment
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   3.5   1.9e-07    0.0017      99     135 ..       4      40 ..       1      48 [. 0.89

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 1.9e-07
                              HHTT-----HHHHHHHHHHHHHHHHEEEETTEEEEEE CS
             Topoisom_I_N  99 kkkaltkeekkklkeekekleekygyalldgrkekvg 135
                               k +ltk ekk+ k++ke++++ky++++++gr+ kv 
  PHY93_18715|PHY93_18715   4 VKSKLTKVEKKARKKAKEERQKKYMWVFMNGRQVKVK 40 
                              67899***************************99985 PP

>> XFP_N  XFP N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.2   4.8e-06     0.043     250     313 ..       3      68 ..       1      73 [] 0.74

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 4.8e-06
                    XFP_N 250 kaveeihdiqkearsneeasrPkwPmiilrtPkG..wtgPkyvdGkkvegsfrahqvPlalarent 313
                              k+ +++++++k+ar++++++r k  m ++   +      P +++G+++e++ r    P+ l ++++
  PHY93_18715|PHY93_18715   3 KVKSKLTKVEKKARKKAKEERQKKYMWVFMNGRQvkVKRPSMLEGMEIEEFIRHNADPIWLLQNEM 68 
                              66788999******88887777666666544433113579*************9999998877665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (73 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1741  (0.0971052); expected 358.6 (0.02)
Passed bias filter:                      761  (0.0424452); expected 358.6 (0.02)
Passed Vit filter:                        62  (0.00345808); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 542.11
//
Query:       PHY93_18720|PHY93_18720  [L=995]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    5.1e-50  170.2   0.0    8.5e-50  169.4   0.0    1.3  1  SNF2_N      SNF2 family N-terminal domain
      5e-16   59.0   0.0    2.3e-15   56.9   0.0    2.2  2  Helicase_C  Helicase conserved C-terminal domain
    2.1e-11   44.1   1.2    2.1e-11   44.1   1.2    2.2  3  ResIII      Type III restriction enzyme, res subunit
    2.8e-07   30.4   0.9    1.1e-06   28.5   0.1    2.3  2  SWI2_SNF2   SWI2/SNF2 ATPase
    8.1e-07   29.0   0.2    4.7e-06   26.5   0.0    2.2  2  DEAD        DEAD/DEAH box helicase
    0.00022   21.2   0.0    0.00065   19.7   0.0    1.8  1  Flavi_DEAD  Flavivirus DEAD domain
  ------ inclusion threshold ------
      0.013   14.8   0.2      0.024   13.9   0.2    1.3  1  DUF2075     Uncharacterized conserved protein (DUF2075)


Domain annotation for each model (and alignments):
>> SNF2_N  SNF2 family N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  169.4   0.0   3.3e-53   8.5e-50      54     349 ..     565     820 ..     551     821 .. 0.86

  Alignments for each domain:
  == domain 1  score: 169.4 bits;  conditional E-value: 3.3e-53
                              TT--EEE---TTS--HHHHHHHHH...HHTTTS---.......S-EEEE--HHHHHHHHHHHHHH-TTS-EEE--SSHHHH----- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   SNF2_N  54 svrGGiLaDemGLGKTvqvlalilaqrakeekdkekkrkdtlagptLivvPaslldqWeneierhvsssalrvlvyggqkkmkkkn 139
                              +  G +LaD+mGLGKTvqvla i    +   ++k +          Liv+P+sl+ +W +e +++++  +      ++++      
  PHY93_18720|PHY93_18720 565 HEIGAVLADDMGLGKTVQVLAAIS---K---IKKSQ---------SLIVAPKSLVFNWISEAKKFTPHLKF-----HDHT---GTD 627
                              56799*******************...3...33333.........6*********************9986.....3332...222 PP

                              ------------EEEE-HHHHHHHT......TTS-S-S-SEEEES-GGGT--TTSHHHHHHHH---S-EEEE-S--SSS-HHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   SNF2_N 140 tkvapklladydvvittYdvlsreaelqkkrsvlkqvewkrvvlDEghtlknstskaaeavskLstsnrwiltGTPiqnsledlyg 225
                              +    + +++++v ittY++ +++       + +k+++ ++ +lDE+h +kns+s+a++a++ +++++++ ltGTP+ nsl+dl++
  PHY93_18720|PHY93_18720 628 RMERLQNFEKANVAITTYQTFRQDI------EFFKEKKFEYFILDEAHYIKNSESQAYMACKLINARKKIALTGTPVENSLKDLFS 707
                              223457799*************888......9****************************************************** PP

                              HHHHH-TTTT--HHHHHHHTHHHHH.HHHHHHHHHHHTT-STTEE---GGGT--S---EEEEEEEEE--HHHHHHHH......... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   SNF2_N 226 LlkfLreepfgekqtfdkllqrpie.aqaekgrsrLlqllqrlmlrrakkdveknlPpkteeiiflklskverksYnrllevlrkk 310
                              +l+ ++++  +      + l ++++ + +++ +  L + l++++lrr+k++v k+lP+k+e++++ +ls+ erk Y +l+++  ++
  PHY93_18720|PHY93_18720 708 ILSIVNPGLIS------NALADKYAnEMDPEAIGLLSKSLRPFILRRTKDKVLKDLPKKIEQVLYSELSPSERKKYDELKNYYWNN 787
                              *********99......34444444256689999*******************************************888888877 PP

                              ...........HHHHHH-HH.H-HHHHHHHHHHHHH---X CS
                              xxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxx RF
                   SNF2_N 311 alakllkrseaalksssksk.ekilelllelrqacnhpql 349
                                 k+ ++        ++ +  +ile +l+lrqa +hp l
  PHY93_18720|PHY93_18720 788 LNDKIGEKG-------FQRSkIEILEAILRLRQASCHPGL 820
                              777766663.......33333889*************987 PP

>> Helicase_C  Helicase conserved C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.1       4.6   1.2e+04      17      47 ..     636     666 ..     624     676 .. 0.61
   2 !   56.9   0.0   8.9e-19   2.3e-15       9     111 .]     839     942 ..     831     942 .. 0.86

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 4.6
                              SEEEEEESSHHHHHH.HHHHHHHTTSTEEEES CS
               Helicase_C  17 gkilifvntidrlek.vklllekkgikvavlh 47 
                              +k+ + ++t +++ + +++++ekk +++ +l+
  PHY93_18720|PHY93_18720 636 EKANVAITTYQTFRQdIEFFKEKK-FEYFILD 666
                              444455555554444457775555.6666665 PP

  == domain 2  score: 56.9 bits;  conditional E-value: 8.9e-19
                              HH.HHTTTTSEEEEEESSHHHHHHHHHH...HHHTTSTEEEESTTSTHHHHHHHHHHHH.TTSSS.EEEESGGGTSSSTSTTESEE CS
               Helicase_C   9 ll.kleeeggkilifvntidrlekvkll...lekkgikvavlhgelpqnereeileqfn.kgesd.vLiatdvaerGidipkvnlV 88 
                               l +  ++g+k+lif+++++ l     +   l k++ik+ +l+g  ++n+r e +++f+ +++++ +Li+ ++++ G++++++++V
  PHY93_18720|PHY93_18720 839 QLeTVLNDGHKALIFSQFTSLLGL---FgkaLAKRKIKYEYLDG--KTNNRAERVRNFQeNEKIQlFLISLKAGGVGLNLTSADYV 919
                              33345589************9944...433366779********..89**********97788889******************** PP

                              EESSSSSSHHHHHHHHTTSSSTT CS
               Helicase_C  89 infdlprnvtsyiqriGRtgRag 111
                              +++d+++n++   q+i+R++R+g
  PHY93_18720|PHY93_18720 920 FILDPWWNPAAESQAIDRAHRYG 942
                              *********************86 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0       2.5   6.5e+03      67     117 ..     475     507 ..     451     526 .. 0.54
   2 !   44.1   1.2   8.4e-15   2.1e-11       3     169 ..     547     697 ..     545     699 .. 0.81
   3 ?   -3.5   0.0       3.5   8.9e+03     138     155 ..     935     955 ..     935     965 .. 0.64

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 2.5
                              HHHHHHHGGGGTGG....GEEEESSS-B--.......-SEEEEEHHHHHHT CS
                   ResIII  67 leqtleefkkflseaykeigkkvsgdkkkakekdstnkkilvttiqsldad 117
                               + ++++fk+++                  ++++++  +i +++iq+l  +
  PHY93_18720|PHY93_18720 475 PKEWIKKFKNII------------------QAGSIEGDSIRLSKIQTLFYA 507
                              333333333333..................455555566666666666554 PP

  == domain 2  score: 44.1 bits;  conditional E-value: 8.4e-15
                              EE-HHHHHHHHHHT......TTSEEEEEESTTSTHHHHHHHHHHHH-S.....-EEEEESSHHHHHHHHHHGGGGTGG......GE CS
                   ResIII   3 elreyQeeaienlleklkskrdkrglikmaTGtGKTlvaaklierllkkgkeekflflvprkslleqtleefkkflseayke..ig 86 
                              +lr+yQ+  +  l   ++ +++  ++++   G GKT+  +++i +++k+++    l+++p ksl+  +++e kkf++  +    +g
  PHY93_18720|PHY93_18720 547 KLRKYQKIGVSWLS-LMS-NHEIGAVLADDMGLGKTVQVLAAISKIKKSQS----LIVAP-KSLVFNWISEAKKFTPHLKFHdhTG 625
                              68899988887554.444.8999999**********************955....66666.7899999999999999875434555 PP

                              EEESSS-B--.......-SEEEEEHHHHHHTH........HHHTTT-SEEEEETGGGTTS.T..TTHHHHHT---SEEEEEESS- CS
                   ResIII  87 kkvsgdkkkakekdstnkkilvttiqsldadseeeeeeseellrdrfdviiiDEaHrlgakk..swreilekfkeavllglTATp 169
                              ++  ++ +++     +++++ +tt+q++ +d+       e +++++f+++i DEaH ++ ++  ++ +  + +++ ++++lT+Tp
  PHY93_18720|PHY93_18720 626 TDRMERLQNF-----EKANVAITTYQTFRQDI-------EFFKEKKFEYFILDEAHYIKNSEsqAYMA-CKLINARKKIALTGTP 697
                              5555555555.....9****************.......889999**************974324444.788999*********9 PP

  == domain 3  score: -3.5 bits;  conditional E-value: 3.5
                              EETGGGTTS.T...TTHHHHH CS
                   ResIII 138 iDEaHrlgakk...swreile 155
                              iD aHr+g+ k   +++ i++
  PHY93_18720|PHY93_18720 935 IDRAHRYGQTKkvfAYKVIAK 955
                              6999**999766766766633 PP

>> SWI2_SNF2  SWI2/SNF2 ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.1       0.6   1.5e+03     163     211 ..       8      58 ..       2      63 .. 0.71
   2 !   28.5   0.1   4.2e-10   1.1e-06      81     164 ..     623     704 ..     560     729 .. 0.77

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.6
                SWI2_SNF2 163 kktkevFgeyidkYtikeaveD..gavvpilYesrlaklelkeeekldeef 211
                              ++tk   ++y++kY+     +D  + ++p+l++++++k ++ e+e l +e+
  PHY93_18720|PHY93_18720   8 EDTKGSSENYLEKYNELLIPTDkkNITLPVLWKNQIQKFKVYENELLTTEL 58 
                              55777777888888755555551156899*********9999998776665 PP

  == domain 2  score: 28.5 bits;  conditional E-value: 4.2e-10
                SWI2_SNF2  81 esrkeLkell.ekesekiifttiqKfeeeekeklevlsereniivlvDEaHRsqygelakklrkalpna.afigFTGTPilkkdkk 164
                              +++++ +e+l + e++++ +tt q f++    ++e ++e++  +++ DEaH  + +e ++++   l na + i++TGTP++++ k+
  PHY93_18720|PHY93_18720 623 HTGTDRMERLqNFEKANVAITTYQTFRQ----DIEFFKEKKFEYFILDEAHYIKNSESQAYMACKLINArKKIALTGTPVENSLKD 704
                              4444555566245699**********75....37899999999********************999888358********987664 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0      0.41     1e+03      74     123 ..     294     348 ..     284     353 .. 0.54
   2 !   26.5   0.0   1.8e-09   4.7e-06      19     143 ..     571     681 ..     557     705 .. 0.74

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.41
                              STSEEEEEETTSSHHHHHHHHHTTCSEEEEEH.....HHHHHHHHCTSSHCTTEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....xxxxxxxxxxxxxxxxxx RF
                     DEAD  74 idlrvlliiggvaardqlskldngvdivvgtp.....grlddllstgklnlsqvr 123
                               ++r++  + ++++ ++ s+ ++gvd++vgt      grl+ l  +++++++++r
  PHY93_18720|PHY93_18720 294 SKVRLVIDVDDETQVEDSSQNSSGVDLIVGTGaksliGRLQFLYGEEYVDYKDLR 348
                              334444333444444444444577******9855555666555555555555555 PP

  == domain 2  score: 26.5 bits;  conditional E-value: 1.8e-09
                              EEESTTSSHHHHHHHHHHHHHHHSTTSTS-EEEEEESSHHHHHHHHHHHHHHTTTSTSEEEEEETTSSHHHHHHHHHTTCSEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  19 vaaeTGsGKTlaflipvlqivyetkgktgpkalivePtreLaeqtlnnlkkfkkyidlrvlliiggvaardqlskldngvdivvgt 104
                              +a + G GKT    +++++++      ++ + liv+P ++L+ + ++++kkf+ +  l+ +   +g+++ + l+++ +++++ ++t
  PHY93_18720|PHY93_18720 571 LADDMGLGKTVQV-LAAISKI------KKSQSLIVAP-KSLVFNWISEAKKFTPH--LKFHDH-TGTDRMERLQNF-EKANVAITT 644
                              5567799***885.5555455......56799*****.78**************8..555533.566777888888.88******* PP

                              HHHHHHHHHCTSSHCTTEEEEEEETHHHHHHTTTHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD 105 pgrlddllstgklnlsqvrflVlDEadrlldqgfsdfin 143
                               + + + ++   ++ +++++++lDEa+ + +++ +  + 
  PHY93_18720|PHY93_18720 645 YQTFRQDIE--FFKEKKFEYFILDEAHYIKNSESQAYMA 681
                              **9999775..455899************9985444333 PP

>> Flavi_DEAD  Flavivirus DEAD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.7   0.0   2.5e-07   0.00065      13     136 ..     575     697 ..     564     703 .. 0.73

  Alignments for each domain:
  == domain 1  score: 19.7 bits;  conditional E-value: 2.5e-07
                              TTS-TTTTHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHTTTS.-EEE-------.....------SEEEEEHHHHHHHHHHT-- CS
               Flavi_DEAD  13 PGaGktrkvlpelvkeaierrlrtlvLaPtrvvlaemeealkgl.evryktsavke.....ektgrelvdvmchatftkrllspvr 92 
                               G Gkt +vl+ + k    ++ ++l++aP   v + ++ea k + +++++ ++ ++     ++ +++ v +  + tf +  ++  +
  PHY93_18720|PHY93_18720 575 MGLGKTVQVLAAISK---IKKSQSLIVAPKSLVFNWISEAKKFTpHLKFHDHTGTDrmerlQNFEKANVAITTYQTFRQ-DIEFFK 656
                              699*******99866...467789****************986625899876654411112456778888999999865.58999* PP

                              ----SEEEEETTT--SHHHHHHHHHHHHHHHTTS-EEEEEESS- CS
               Flavi_DEAD  93 kknyeliimDeahflDPasiaarGyletkaeegeaalilltatP 136
                              +k++e +i+Deah++  +   ++ y++ k  +   + i lt tP
  PHY93_18720|PHY93_18720 657 EKKFEYFILDEAHYIKNSE--SQAYMACKLINA-RKKIALTGTP 697
                              **************97654..333555444333.3455566665 PP

>> DUF2075  Uncharacterized conserved protein (DUF2075)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.2   9.3e-06     0.024      11     106 ..     576     677 ..     574     694 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 9.3e-06
                  DUF2075  11 GtGKtvvllnllaeledde......eertavylsvNhplvlvlrealakkeekkkkkeafeklssfinnlsefkkaeekkeepked 90 
                              G GKtv  l+++ ++++++      +    + +s  +++  +l+ +    + ++++ ++fek +  i+++++f++ +e  +e+k++
  PHY93_18720|PHY93_18720 576 GLGKTVQVLAAISKIKKSQslivapKSLVFNWISEAKKFTPHLKFHDHTGTDRMERLQNFEKANVAITTYQTFRQDIEFFKEKKFE 661
                              679999999999999444455555567777777777777777774444444589999***************************** PP

                  DUF2075  91 vvivDEAhrlltksdq 106
                                i DEAh + ++++q
  PHY93_18720|PHY93_18720 662 YFILDEAHYIKNSESQ 677
                              ********99996555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (995 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       759  (0.0423336); expected 358.6 (0.02)
Passed bias filter:                      440  (0.0245412); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.80u 0.25s 00:00:01.05 Elapsed: 00:00:00.44
# Mc/sec: 6840.68
//
Query:       PHY93_18725|PHY93_18725  [L=265]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0083   16.7   0.0      0.026   15.1   0.0    1.9  1  VCBS      Repeat domain in Vibrio, Colwellia, Bradyrhizobium 
  ------ inclusion threshold ------
      0.079   13.1   0.2        5.8    7.1   0.0    2.4  2  FG-GAP    FG-GAP repeat


Domain annotation for each model (and alignments):
>> VCBS  Repeat domain in Vibrio, Colwellia, Bradyrhizobium and Shewanella
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0   2.9e-06     0.026       1      59 [.      84     143 ..      84     143 .. 0.79

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 2.9e-06
                     VCBS   1 DldgDGrlDlvvan.dgglrvyrnngdGtftdvtkt..slggsgggtgvavgDlDgDGdlDl 59 
                              Dl+g+  +Dl++++  gg + +++     f+   k    ++ sgg+ g  + DlDgD  +++
  PHY93_18725|PHY93_18725  84 DLNGNSIPDLIITQwTGGAHCCHYLT--VFELGHKFrkLITVSGGSSGFGISDLDGDKIPEI 143
                              9************9558888888873..4665555333677788888999*******99987 PP

>> FG-GAP  FG-GAP repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.1   0.0   0.00065       5.8       9      21 ..      84      96 ..      81     102 .. 0.87
   2 ?    3.7   0.1    0.0076        68       4      17 ..     129     142 ..     126     143 .. 0.79

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.00065
                             STSSSSS-EEEEE CS
                   FG-GAP  9 DvNGDGyaDLavG 21
                             D+NG   +DL+++
  PHY93_18725|PHY93_18725 84 DLNGNSIPDLIIT 96
                             ***********97 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.0076
                              SEEEESTSSSSS-E CS
                   FG-GAP   4 slavgDvNGDGyaD 17 
                              + +  D++GD  ++
  PHY93_18725|PHY93_18725 129 GFGISDLDGDKIPE 142
                              67889*****9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (265 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       782  (0.0436165); expected 358.6 (0.02)
Passed bias filter:                      599  (0.0334096); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.40
# Mc/sec: 2002.69
//
Query:       PHY93_18730|PHY93_18730  [L=339]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.7e-12   46.0   2.1      5e-12   46.0   0.1    2.0  2  NTP_transf_2  Nucleotidyltransferase domain
    7.4e-12   45.2   0.1    1.5e-11   44.2   0.1    1.6  1  Polbeta       Polymerase beta, Nucleotidyltransferase
    7.4e-07   28.8   0.0    1.3e-06   28.1   0.0    1.3  1  SLT           Transglycosylase SLT domain


Domain annotation for each model (and alignments):
>> NTP_transf_2  Nucleotidyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.0   0.1   8.3e-16     5e-12       8      91 ..      18      98 ..      11     101 .. 0.85
   2 ?   -1.1   0.2      0.41   2.5e+03      70      70 ..     277     277 ..     216     327 .. 0.61

  Alignments for each domain:
  == domain 1  score: 46.0 bits;  conditional E-value: 8.3e-16
                             HHHHTT...TSEEEEEHHHHCTTSCTTSSEEEEEEESTTCHHHHHHEHHHHHHHHCCCEEECTTEEEEEECEEECCCCTEEEEEECE CS
             NTP_transf_2  8 lkelep...vakvvlfGSyarGtalkgSDiDllvvlpeevsrekkeegleklaeiikfleellglevdlvtrekledpllvksilee 91
                             +++ ++   +ak++lfGS+a+G++++ SDiD+++ ++        + +++   ++++++++ l++++d+  ++ +++p+l+ +++e+
  PHY93_18730|PHY93_18730 18 FQKFFGdldDAKIYLFGSRATGKHKEFSDIDIAINSKTK------DITKRIALFNEEWEKSKLPYKADFTAWKDIYKPYLPQIRKEK 98
                             444444555******************************......38889999999999999*********9999999998888876 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.41
                              E CS
             NTP_transf_2  70 e 70 
                              +
  PHY93_18730|PHY93_18730 277 N 277
                              2 PP

>> Polbeta  Polymerase beta, Nucleotidyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.2   0.1   2.5e-15   1.5e-11       2      89 ..      13     103 ..      12     107 .. 0.85

  Alignments for each domain:
  == domain 1  score: 44.2 bits;  conditional E-value: 2.5e-15
                              STTTTHHHH...HHHHSTTEEEEEE-S------EEEEEEEESS---HHHHHHHHHHHHHH.SSSEEEEEETTTS-HHHHHHHHHS- CS
                  Polbeta   2 kikeileke...keielaylFGSrakgkareeSDiDlavllkekldleeelelaaelediklgkkvDlvdlneapplllyeilkeg 84 
                              +ik++++k     + + +ylFGSra+gk++e SDiD+a+  k+k+ +++ + + +e+e+ kl +k D+   ++  +  l +i ke+
  PHY93_18730|PHY93_18730  13 EIKNLFQKFfgdLDDAKIYLFGSRATGKHKEFSDIDIAINSKTKDITKRIALFNEEWEKSKLPYKADFTAWKDIYKPYLPQIRKEK 98 
                              677777777433366799**************************999999999****************99988788888888887 PP

                              EEEES CS
                  Polbeta  85 kllys 89 
                                l +
  PHY93_18730|PHY93_18730  99 VTLWQ 103
                              77766 PP

>> SLT  Transglycosylase SLT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.1   0.0   2.1e-10   1.3e-06      12      78 ..     208     287 ..     205     321 .. 0.87

  Alignments for each domain:
  == domain 1  score: 28.1 bits;  conditional E-value: 2.1e-10
                              S-HHHHHHHHHHHHTT-TT-B-TTS.....EBTTTTBETTTHHHHHHHHT........-SHHHHCSHHHHHHHHHHHHHH CS
                      SLT  12 vepsllaaiaqvESgfnpkAvsksg.....avGLmQimpstakrlglrvk........lsedelldPeknisagakyLks 78 
                              ++ +++++++  ES+f+p+   ++      a GL Qi++++ + l+ + +        l+++ell+P kni ag++ L +
  PHY93_18730|PHY93_18730 208 IDANFVKTLIYSESRFKPDSLAPNSkkigpARGLIQITEQNWRILKDKKGeikdhyviLEKEELLEPSKNICAGIRWLFR 287
                              678899***************96666799**************9998877899*********************998855 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (339 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       642  (0.0358079); expected 358.6 (0.02)
Passed bias filter:                      498  (0.0277762); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.57u 0.19s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 2485.25
//
Query:       PHY93_18735|PHY93_18735  [L=100]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      2e-27   95.6   0.1    2.2e-27   95.5   0.1    1.0  1  NTase_sub_bind  Nucleotidyltransferase substrate binding prot


Domain annotation for each model (and alignments):
>> NTase_sub_bind  Nucleotidyltransferase substrate binding protein like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   95.5   0.1   1.2e-31   2.2e-27      26     126 .]       2      99 ..       1      99 [. 0.96

  Alignments for each domain:
  == domain 1  score: 95.5 bits;  conditional E-value: 1.2e-31
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSSCCTTTHHHHHHHHHTTS-S-HHHHHHHHHHHGCGGGTTSHHHHHHHHHTHH. CS
           NTase_sub_bind  26 sdlerdgvIqrFEftyElawkllkryleeegisaeavsprdliReaaeagliedgevwlemledRnltshtYdeetaeevveaiae 111
                              +dlerdg+IqrFE+ +E++wk  k++le+++   ea  pr++i e a+ + i+++++w+++le+Rn+tsh Y ee+a e+++ ++ 
  PHY93_18735|PHY93_18735   2 NDLERDGIIQRFEYCVEISWKSAKKVLEYHEQ--EADTPRNIIGELAKINWIHNPDEWIDFLEARNKTSHLYHEEVAIELFKLVP- 84 
                              79***************************665..77789**********************************************. PP

                              HHHHHHHHHHHHHHT CS
           NTase_sub_bind 112 eylpelkalleklee 126
                              ++l+++++ll+klee
  PHY93_18735|PHY93_18735  85 SFLKSSHHLLAKLEE 99 
                              ************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (100 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       542  (0.0302304); expected 358.6 (0.02)
Passed bias filter:                      381  (0.0212505); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.43
# Mc/sec: 705.82
//
Query:       PHY93_18745|PHY93_18745  [L=134]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (134 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       550  (0.0306766); expected 358.6 (0.02)
Passed bias filter:                      382  (0.0213063); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.38
# Mc/sec: 1044.00
//
Query:       PHY93_16595|PHY93_16595  [L=288]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.2e-51  174.9   0.0    1.5e-51  174.6   0.0    1.1  1  QRPTase_C       Quinolinate phosphoribosyl transferase, C-ter
    1.7e-09   37.6   0.0    3.2e-09   36.7   0.0    1.5  1  QRPTase_N       Quinolinate phosphoribosyl transferase, N-ter
     0.0079   15.6   0.1      0.013   14.9   0.1    1.3  1  Ribul_P_3_epim  Ribulose-phosphate 3 epimerase family


Domain annotation for each model (and alignments):
>> QRPTase_C  Quinolinate phosphoribosyl transferase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  174.6   0.0   2.4e-55   1.5e-51       1     169 []     110     275 ..     110     275 .. 0.97

  Alignments for each domain:
  == domain 1  score: 174.6 bits;  conditional E-value: 2.4e-55
                              HHHHHHHHHHHHHCTSSEEEE-S---TTTHHHHHHHHHHTTSB--TSSTTTSEEE-HHHHHHHSSHHHHHHHHHHHHTTTSEEEEE CS
                QRPTase_C   1 iAtltarmveaaksakvrildTRkttPglrllekyAvliGGgdnhrlgLsdmvlikdnhiaaagsiveavksvreavdkevkieve 86 
                              +At t++++ +a+++++rildTRkttPglr lekyAv++GGg nhr++  d+ +ikdnh   +g+++ a++ +++   +   i ve
  PHY93_16595|PHY93_16595 110 VATFTSQFATKASPHNIRILDTRKTTPGLRSLEKYAVRVGGGFNHRFSQADVWMIKDNHKTFFGGLKPAWDFFQNMQTHYQGIVVE 195
                              8**********************************************************************99988888877**** PP

                              ESSHHHHHHHHHHT-SEEEEES--HHHHHHHHHHHHHHSTTSEEEEESS--TTTHHHHHCTT-SEEEECHHCHTB----EEEE CS
                QRPTase_C  87 vesleeleevleaeadiimLDnfsveelkkaveelkeknkrvlievSGgvtlenveeyaksgvdvisvgalthsvkalDislk 169
                              ++sl+el+ ++e +   +mLDnfs + +kka++    k+  + ie SGgv+l+n ++y  sgvd+is+galths++ +D+s+k
  PHY93_16595|PHY93_16595 196 IHSLDELKLAIELGIKHVMLDNFSLDGIKKAID---LKKAGMTIEISGGVKLDNCKQYFISGVDAISIGALTHSAPHVDLSMK 275
                              *********************************...5666699**************************************97 PP

>> QRPTase_N  Quinolinate phosphoribosyl transferase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.7   0.0   5.4e-13   3.2e-09      14      89 .]      32     108 ..      20     108 .. 0.90

  Alignments for each domain:
  == domain 1  score: 36.7 bits;  conditional E-value: 5.4e-13
                              TTSEEEEEEEESSSEEE-SHHHHHHHHHHH.TTTEEE.ESS-TT-EEETTEEEEEEEEEHHHHHHHHHHHHHHHHHHH CS
                QRPTase_N  14 eekkakaeiiakeegvvaGlevaeevfell.pgleve.llvkDGervekgdvlleieGnarallsaERvaLnllqrlS 89 
                              +e+ ++ +++ k+++ ++Gl+++ + f+ l  +l+ e +++ +G+++ kg++ + ++ + +  l++ER+aLnllqr S
  PHY93_16595|PHY93_16595  32 PETAVECQLKIKSDLLLCGLPYFVAAFNFLgANLNYEtFKKYEGKNFGKGEI-ISFSLPFSIALTGERIALNLLQRGS 108
                              6788999***********************888888878889********75.689*******************965 PP

>> Ribul_P_3_epim  Ribulose-phosphate 3 epimerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.1   2.2e-06     0.013     154     195 ..     221     262 ..     209     264 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 2.2e-06
                              HHHHHHHHHHT---EEEEESS--TTTCHHHHHHT--EEEESH CS
           Ribul_P_3_epim 154 kkvrklidekeldlkievDGGvkldnieqiaeagadvlVags 195
                                ++k+id k+  ++ie+ GGvkldn +q    g+d++ +g 
  PHY93_16595|PHY93_16595 221 DGIKKAIDLKKAGMTIEISGGVKLDNCKQYFISGVDAISIGA 262
                              5689999*999**************************99885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (288 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       330  (0.0184059); expected 358.6 (0.02)
Passed bias filter:                      315  (0.0175693); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 2087.96
//
Query:       PHY93_18750|PHY93_18750  [L=240]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.2e-15   56.0   0.0    7.3e-15   55.5   0.0    1.2  1  FtsJ             FtsJ-like methyltransferase
    3.1e-07   30.0   0.0    8.1e-07   28.7   0.0    1.8  1  S4               S4 domain
    0.00047   20.8   0.0     0.0011   19.6   0.0    1.7  1  Methyltransf_25  Methyltransferase domain
    0.00093   19.1   0.0      0.002   18.0   0.0    1.6  1  Methyltransf_23  Methyltransferase domain
     0.0072   17.0   0.1      0.013   16.1   0.1    1.5  1  Methyltransf_11  Methyltransferase domain
  ------ inclusion threshold ------
      0.016   15.9   0.1      0.043   14.6   0.1    1.7  1  Methyltransf_12  Methyltransferase domain
      0.026   14.5   0.0      0.058   13.3   0.0    1.5  2  Glyco_tran_WecB  Glycosyl transferase WecB/TagA/CpsF family
      0.072   14.1   0.0       0.23   12.5   0.0    1.9  2  Methyltransf_24  Methyltransferase domain
       0.13   12.1   0.0        1.1    9.0   0.0    2.4  3  TyrRSs_C         Tyrosyl-tRNA synthetase C-terminal domain


Domain annotation for each model (and alignments):
>> FtsJ  FtsJ-like methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.5   0.0   3.7e-18   7.3e-15       1     174 [.      58     236 ..      58     239 .. 0.83

  Alignments for each domain:
  == domain 1  score: 55.5 bits;  conditional E-value: 3.7e-18
                              CCCCHHHHHHHHHHHHT-S-.TT-EEEECT-TTSHHHHHHCCT.T.-SEEEEEESSSSHHH......TTEEEE.CS-CCCSSHHHH CS
                     FtsJ   1 yrsRsayKLleidekfklfk.pgktvvDlgaaPGgwsqvllqrlgakgkvvavDlqpmapl......pgvtti.qgditdpetiek 78 
                              y+sR+a+K+++++++fk ++  gk + D+ga++Gg+++++l+  +a +kv+ vD+++ ++        +v+ +   +i+ p    k
  PHY93_18750|PHY93_18750  58 YVSRGAHKIEKALSRFK-VDvAGKVIADVGASTGGFTDFVLRA-NA-KKVYCVDVGHDQLApsiredARVENHeGVNIKFPF---K 137
                              9****************.777**********************.66.9*********9665112222344444444444443...2 PP

                              HCHCHHHSSEEEEEE--S-SS-CHHHHHHHHH........CCCCHHHHCCHCCCCECCCEEEECCCHCCCHHHHHHHHH.CCEEEE CS
                     FtsJ  79 ikealserkvdlvvsDgapdvsgvhdldeylq........sqLllaalelalkllkpggtfvlkifrgeeteallkqlk.kfFekv 155
                              ++     + vd+ v D++ ++s++ +l+++ +        + L+++++e++ + l+ +g++ ++  r    ++l + +k k+ + +
  PHY93_18750|PHY93_18750 138 LS-----ELVDVAVVDLS-FISLKLVLENIFNlvkpdgviVALVKPQFEVGRDGLDGNGIVKSEGHRLVMLSDLKEWCKkKGMHVI 217
                              33.....369********.*****99999999999****98********************9999999999999999665999999 PP

                              EEEE-SS--CCG-EEEEEE CS
                     FtsJ 156 svvkPkssrsesseeflvc 174
                              + +++++ ++++++e++  
  PHY93_18750|PHY93_18750 218 DQCESPILGKNGNKEYFFY 236
                              9999999999999999875 PP

>> S4  S4 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.7   0.0   4.1e-10   8.1e-07       2      42 ..       5      45 ..       4      52 .. 0.94

  Alignments for each domain:
  == domain 1  score: 28.7 bits;  conditional E-value: 4.1e-10
                             EHHHHHHHTTSSSSHHHHHHHHHTTTEEETTEEE--TT-EE CS
                       S4  2 RLdkvlarlglassrreArqlIehGrVlVNGkvvkdpsyrV 42
                             R dk l+++gl+s+r++A  lI +G V  N++++ ++s++V
  PHY93_18750|PHY93_18750  5 RADKMLVEAGLVSTRSQALLLIDEGVVFYNNQKIEKASQQV 45
                             779***********************************998 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   0.0   5.7e-07    0.0011       1      97 []      82     169 ..      82     169 .. 0.84

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 5.7e-07
                              EEEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTTTEEEEESBCCGBSS.STTTEEEEEEESTGGGSSHHHHHHH CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeeglnvefvqgdaedlpf.edgsfDlvvssgalhhlsdedleka 85 
                              + d+G+ tG +t  ++++ +++kv++vD+ +++l+   ++     ++ve ++g   ++pf  ++ +D+ v+   l+++s   l+ +
  PHY93_18750|PHY93_18750  82 IADVGASTGGFTDFVLRA-NAKKVYCVDVGHDQLAPSIRED----ARVENHEGVNIKFPFkLSELVDVAVV--DLSFIS---LKLV 157
                              78***************9.69*********99998644443....48999999999999844568899998..477777...7789 PP

                              HHHHHHHEEEEE CS
          Methyltransf_25  86 lkeiarvLkpgG 97 
                              l++i++++kp+G
  PHY93_18750|PHY93_18750 158 LENIFNLVKPDG 169
                              **********99 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.0     1e-06     0.002       9     164 ..      66     218 ..      58     219 .. 0.72

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 1e-06
          Methyltransf_23   9 lsdklerllpklraggrvLdiGcGtGillevl.rengfsvtgvDlspeaveiae....kakkaqkdqfdeqeaaepqgkfdlIvlr 89 
                              + ++l r+ + + ag+ + d+G+ tG +++   r+n ++v+ vD      ++a+     a+  +++ +   ++++p +  +l+   
  PHY93_18750|PHY93_18750  66 IEKALSRF-KVDVAGKVIADVGASTGGFTDFVlRANAKKVYCVDVGHD--QLAPsireDARVENHEGV---NIKFPFKLSELVDVA 145
                              33333333.347788899999999999999887888889999999654..222233335555555555...455555566666666 PP

          Methyltransf_23  90 evlehvpdppellrqiatllkpgGylllseplaslkedrllldwlylvpagrhisffsarslkelleeaGlevve 164
                               v  ++ ++  +l +i++l+kp+G+++ ++     +  r+ ld   +v+ ++h+ +   ++lke++++ G  v+ 
  PHY93_18750|PHY93_18750 146 VVDLSFISLKLVLENIFNLVKPDGVIVALVKP-QFEVGRDGLDGNGIVKSEGHR-LVMLSDLKEWCKKKGMHVID 218
                              666677777789**************999963.4689***********996666.55569**********99875 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.1   6.6e-06     0.013       2      95 ..      84     172 ..      83     173 .. 0.81

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 6.6e-06
                              EET-TTSHHHHHHHHTT.SEEEEEES-HHHHHHHHHHCCHHT-EEEETTEECCCTSS-T.T-EEEEEEES-CCC-CCHHHHHHHHH CS
          Methyltransf_11   2 dvGcGtGrlaealakrg.arvvgvDlskemlklakekaseeglkvefvvadaeklpfed.nsfDlvvssevlhhvedpekalkeia 85 
                              dvG+ tG ++  + ++  ++v++vD+ + +l+ + ++  +    ve +++   k+pf+  + +D+ v+  ++  ++    +l++i 
  PHY93_18750|PHY93_18750  84 DVGASTGGFTDFVLRANaKKVYCVDVGHDQLAPSIREDAR----VENHEGVNIKFPFKLsELVDVAVVDLSFISLK---LVLENIF 162
                              9***********997777************9544333333....3336777778999975799*999999888885...9****** PP

                              HHEEEEEEEE CS
          Methyltransf_11  86 RvLkpgGllv 95 
                               ++kp+G++v
  PHY93_18750|PHY93_18750 163 NLVKPDGVIV 172
                              *******997 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.1   2.1e-05     0.043       2      99 .]      84     171 ..      83     171 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 2.1e-05
          Methyltransf_12   2 eiGcGtGsllralleklpdieytgvDispsaiedakeklakrennnnnnvelealdlldldggssfDlvvas.nvlhhlkdirevl 86 
                              ++G+ tG +++ +l++   +++++vD+  ++++   ++ a+ en+   n+++  + ++       +D+ v+  ++++     + vl
  PHY93_18750|PHY93_18750  84 DVGASTGGFTDFVLRA-NAKKVYCVDVGHDQLAPSIREDARVENHEGVNIKFPFKLSE------LVDVAVVDlSFISL----KLVL 158
                              8***************.889999*********77778888888888888887755543......79996655155555....899* PP

          Methyltransf_12  87 dnirklLkpgGrl 99 
                              +ni +l+kp+G++
  PHY93_18750|PHY93_18750 159 ENIFNLVKPDGVI 171
                              *********9985 PP

>> Glyco_tran_WecB  Glycosyl transferase WecB/TagA/CpsF family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   2.9e-05     0.058      76     138 ..      33      95 ..      18     102 .. 0.83
   2 ?   -3.1   0.0       3.4   6.8e+03       3     105 ..     164     175 ..     159     180 .. 0.58

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 2.9e-05
          Glyco_tran_WecB  76 thdgykeeeeeaiieainaskpdlllvglGapkqEkwiarlkeelkakviigvGaafdflagk 138
                              +++++ e+++++++++  + + d+l v+ Ga k Ek ++r k  +  kvi  vGa+   ++  
  PHY93_18750|PHY93_18750  33 YNNQKIEKASQQVMAEGLEVRKDVLYVSRGAHKIEKALSRFKVDVAGKVIADVGASTGGFTDF 95 
                              444432688999999999**************************9888******997555554 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 3.4
          Glyco_tran_WecB   3 lvlpDGigvvlaarlllgkplpervagidlieelleraeeeglrvfllGgkpevlekaaerlrekypglriagthdgykeeeeeai 88 
                              lv pDG++v                                                                             
  PHY93_18750|PHY93_18750 164 LVKPDGVIV----------------------------------------------------------------------------- 172
                              445555555............................................................................. PP

          Glyco_tran_WecB  89 ieainaskpdlllvglG 105
                                            +l 
  PHY93_18750|PHY93_18750 173 --------------ALV 175
                              ..............444 PP

>> Methyltransf_24  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       4.3   8.6e+03      54      64 ..      38      48 ..      11      74 .. 0.58
   2 ?   12.5   0.0   0.00012      0.23       4     102 ..      86     172 ..      83     173 .. 0.80

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 4.3
          Methyltransf_24 54 ikadseealas 64
                             i++ s++++a+
  PHY93_18750|PHY93_18750 38 IEKASQQVMAE 48
                             33333443333 PP

  == domain 2  score: 12.5 bits;  conditional E-value: 0.00012
          Methyltransf_24   4 GvysGvstlwllralrrngagrlvavdhdpgaeeaaalareaglddrvrlikadseealaslaagsiDllfiDgghaaeavledle 89 
                              G++ G  t ++l   r+n+  ++++vd  +   + a  +re   d+rv+ +++   +   +l+ + +D++++D +    + +  le
  PHY93_18750|PHY93_18750  86 GASTGGFTDFVL---RANA-KKVYCVDVGH--DQLAPSIRE---DARVENHEGVNIKFPFKLS-ELVDVAVVDLS--FISLKLVLE 159
                              444444444443...4455.59******88..477777777...999******9999999999.99*******87..8999999** PP

          Methyltransf_24  90 allprlapggvvl 102
                              ++ ++++p+gv++
  PHY93_18750|PHY93_18750 160 NIFNLVKPDGVIV 172
                              ***********98 PP

>> TyrRSs_C  Tyrosyl-tRNA synthetase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0   0.0   0.00057       1.1      21      53 ..       4      36 ..       1      55 [. 0.75
   2 ?   -2.4   0.0         2     4e+03      32      52 ..     114     134 ..     109     159 .. 0.72
   3 ?   -0.6   0.0      0.54   1.1e+03      36      44 ..     193     201 ..     188     206 .. 0.83

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.00057
                             -SHHHHHHHTTS-STHHHHHHHHHHT-EEEEE- CS
                 TyrRSs_C 21 ksiariLyaaGLasskseghrliakkgayvgsr 53
                                 ++L  aGL+s++s++  li +  ++   +
  PHY93_18750|PHY93_18750  4 DRADKMLVEAGLVSTRSQALLLIDEGVVFYNNQ 36
                             56789**************99998766654444 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 2
                              S-STHHHHHHHHHHT-EEEEE CS
                 TyrRSs_C  32 Lasskseghrliakkgayvgs 52 
                              La s  e +r+ +++g+ +  
  PHY93_18750|PHY93_18750 114 LAPSIREDARVENHEGVNIKF 134
                              677778888888888887754 PP

  == domain 3  score: -0.6 bits;  conditional E-value: 0.54
                              HHHHHHHHH CS
                 TyrRSs_C  36 kseghrlia 44 
                              kseghrl+ 
  PHY93_18750|PHY93_18750 193 KSEGHRLVM 201
                              79*****96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (240 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       542  (0.0302304); expected 358.6 (0.02)
Passed bias filter:                      465  (0.0259356); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.49u 0.20s 00:00:00.69 Elapsed: 00:00:00.39
# Mc/sec: 1831.33
//
Query:       PHY93_18755|PHY93_18755  [L=177]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.9e-38  129.2   0.0    1.3e-37  128.9   0.0    1.2  1  Lysine_decarbox  Possible lysine decarboxylase
    8.4e-17   61.2   0.1      1e-16   60.9   0.1    1.1  1  LDcluster4       SLOG cluster4 family
  ------ inclusion threshold ------
      0.012   14.9   0.1      0.014   14.7   0.1    1.1  1  LSDAT_prok       SLOG in TRPM, prokaryote


Domain annotation for each model (and alignments):
>> Lysine_decarbox  Possible lysine decarboxylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  128.9   0.0   2.1e-41   1.3e-37       1     128 [.      46     172 ..      46     176 .. 0.96

  Alignments for each domain:
  == domain 1  score: 128.9 bits;  conditional E-value: 2.1e-41
                              HHHHHHHHHHTTS-EEEEEECCHHHHHCCTTT-SEEEEESSHHHHHHHHHHHESEEEE-S-SHHHHHHHHHHHHHHHTTSS-S.EE CS
          Lysine_decarbox   1 meavakgaleaggrviGiipkillaeeapneevnelvivedmeeRkealveladafvilPGGiGTleElleiltliqlgkhqkvPi 86 
                              m+a+a+++l +gg viG+ipk+l+  e++++ ++el+iv+dm++Rk+ +++++daf  lPGG+GTl+E++eilt++ql++h k  +
  PHY93_18755|PHY93_18755  46 MGAIADSVLAHGGAVIGVIPKTLVDYEIAHKGLTELHIVDDMHQRKKLMYDKSDAFLSLPGGMGTLDEMFEILTWSQLKIHSK-RC 130
                              9********************************************************************************99.89 PP

                              EEEEGGGCCHHHHHHHHHHHHTTSS-GGGGGCEEEESSHHHH CS
          Lysine_decarbox  87 illnpkgyydkllefletlveegtisekareliivvddpeev 128
                               ++n  g+yd+ll++l+++ +eg+i++++++++  ++d + +
  PHY93_18755|PHY93_18755 131 FIYNFLGFYDSLLAYLDHSHKEGFIKAQHLSMLEEIKDEAGL 172
                              99*****************************98888877655 PP

>> LDcluster4  SLOG cluster4 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.9   0.1   1.7e-20     1e-16       3     113 ..       3     114 ..       1     124 [. 0.87

  Alignments for each domain:
  == domain 1  score: 60.9 bits;  conditional E-value: 1.7e-20
               LDcluster4   3 kigVm.GsaeteakeealelaeelGrliAkegavlltGgrt.GvmeaaskGakeagGltvGilpassekehsnk..yvdiiiyTGl 84 
                              k +V+ Gsa+ ++++  le+a  lG+++A++++ l+ Gg + Gvm a + ++  +gG ++G++p++  + + ++  ++++ i+ ++
  PHY93_18755|PHY93_18755   3 KLCVFcGSAD-GSSPAYLEMAMSLGKMMAQKEIALVYGGASiGVMGAIADSVLAHGGAVIGVIPKTLVDYEIAHkgLTELHIVDDM 87 
                              5677526777.589999***********************99***********************6544444444789******** PP

               LDcluster4  85 glagRnlilvlssdvviaiggrsGTlsEi 113
                                + R  ++   sd+ + ++g++GTl E+
  PHY93_18755|PHY93_18755  88 H-Q-RKKLMYDKSDAFLSLPGGMGTLDEM 114
                              9.5.9***********************8 PP

>> LSDAT_prok  SLOG in TRPM, prokaryote
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.1   2.3e-06     0.014       5      82 ..       6      76 ..       2     102 .. 0.74

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 2.3e-06
               LSDAT_prok  5 vlvGgasgldeeeaarlrkllravlaplaealgavvidgGtdtGvmkllgraraaveatfpLiGVApegtValpdepa 82
                             v+ G+a+g +++   ++       l +++ + +++ + gG+  Gvm ++ ++  a ++   +iGV p+  V +   ++
  PHY93_18755|PHY93_18755  6 VFCGSADGSSPAY-LEMAM----SLGKMMAQKEIALVYGGASIGVMGAIADSVLAHGG--AVIGVIPKTLVDYEIAHK 76
                             5566666666665.22222....3556666779*******************999665..58**********986544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (177 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       390  (0.0217525); expected 358.6 (0.02)
Passed bias filter:                      318  (0.0177366); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.41u 0.23s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 1358.39
//
Query:       PHY93_18760|PHY93_18760  [L=171]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.5e-09   37.3   1.2    5.2e-08   33.9   1.2    2.1  1  Cytochrom_C      Cytochrome c
    7.2e-08   32.7   0.1      1e-07   32.2   0.1    1.2  1  Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
  ------ inclusion threshold ------
      0.013   15.2   0.1        1.1    9.0   0.0    2.2  2  Cytochrom_C550   Cytochrome c-550 domain


Domain annotation for each model (and alignments):
>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.9   1.2   8.7e-12   5.2e-08       3      88 ..      82     153 ..      80     156 .. 0.83

  Alignments for each domain:
  == domain 1  score: 33.9 bits;  conditional E-value: 8.7e-12
                              -HHHHHHTTGGGTB-SSSBSSS....--HHHHHHHTTT-HHHHHHHHTTSS--SSSHHHHHHHGGGGGGG.TT--HHHHHHHHHHH CS
              Cytochrom_C   3 rGkelftanCaaCHgvegggakqgggptlsgaaerasaasigasvanpaavsaprddfekkkltaemparkerlteqeiadlaaYL 88 
                              +G ++f  +C aCHg +g+g++ +++p + g+++++ +++++ +++  +   a+   +             ++l++++++d+aaY+
  PHY93_18760|PHY93_18760  82 KGNKIFG-QCIACHGKGGEGKASQKAPHIGGQYDWYIEKQLTDMKSGARINVAMN--PIL-----------KGLSPEDMKDVAAYV 153
                              8*****6.8**********************************999994222222..222...........2599**********8 PP

>> Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.2   0.1   1.7e-11     1e-07       8      67 .]      85     153 ..      78     153 .. 0.76

  Alignments for each domain:
  == domain 1  score: 32.2 bits;  conditional E-value: 1.7e-11
          Cytochrome_CBB3   8 alykknCasCHgkggag......pslagr.dwepdalvdiiknGkg...aMpafggqlsdeelwalvaYl 67 
                              +++  +C +CHgkgg g      p++ g+ dw  ++  +  k G +   aM ++ + ls+e+ ++++aY+
  PHY93_18760|PHY93_18760  85 KIFG-QCIACHGKGGEGkasqkaPHIGGQyDWYIEKQLTDMKSGARinvAMNPILKGLSPEDMKDVAAYV 153
                              5544.9******99999888888888899888853333334555434569*******************7 PP

>> Cytochrom_C550  Cytochrome c-550 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0   0.0   0.00018       1.1      16      48 ..      70     102 ..      56     109 .. 0.73
   2 ?    4.3   0.0    0.0051        31     102     125 ..     136     159 ..     118     169 .. 0.81

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.00018
                              S-EEEEEHHHHHHHHHHHHHHTHHHHGGG.SBTT CS
           Cytochrom_C550  16 getvtlseeqlkkgkklFeaeCaqCHvgG.ktkt 48 
                              +  v l + ql kg+k+F  +C  CH +G + k+
  PHY93_18760|PHY93_18760  70 APVVDLNTPQLVKGNKIFG-QCIACHGKGgEGKA 102
                              556778999*********7.6*****76504555 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.0051
                              GGGTTS-HHHHHHHHHHHHHHHHH CS
           Cytochrom_C550 102 pelrnltdedlkaiagyilvaakv 125
                              p l+ l+ ed+k++a+y+ + + +
  PHY93_18760|PHY93_18760 136 PILKGLSPEDMKDVAAYVTLLPWS 159
                              67899************9876655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (171 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       499  (0.027832); expected 358.6 (0.02)
Passed bias filter:                      412  (0.0229795); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.45u 0.20s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1301.51
//
Query:       PHY93_18765|PHY93_18765  [L=173]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    3.6e-15   55.0  15.5    3.9e-10   39.1   4.5    3.9  4  Hexapep    Bacterial transferase hexapeptide (six repeats)
    7.7e-07   28.8  20.7      8e-06   25.5   8.2    3.2  4  Hexapep_2  Hexapeptide repeat of succinyl-transferase
  ------ inclusion threshold ------
      0.058   13.4   0.0       0.11   12.5   0.0    1.4  1  ArsC       ArsC family


Domain annotation for each model (and alignments):
>> Hexapep  Bacterial transferase hexapeptide (six repeats)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.0   0.2   9.7e-05      0.58       7      33 ..      16      42 ..      16      45 .. 0.92
   2 ?   -1.1   0.0      0.31   1.9e+03      18      28 ..      48      58 ..      47      62 .. 0.76
   3 !   28.3   3.3   1.6e-10   9.4e-07       2      34 ..      72     103 ..      71     103 .. 0.95
   4 !   39.1   4.5   6.4e-14   3.9e-10       1      34 [.      88     121 ..      88     123 .. 0.95

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 9.7e-05
                             TEEE-TTEEEETTEEE-TTEEEETTEE CS
                  Hexapep  7 nvlIgpfaviggnVkIGdnvkIgagvv 33
                             +v++ p a i g V++ +n+ I++ +v
  PHY93_18765|PHY93_18765 16 GVFVAPSADIIGKVILEENANIWHQCV 42
                             68999*******************998 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.31
                             TTEEE-TTEEE CS
                  Hexapep 18 gnVkIGdnvkI 28
                             + + +G+n+ +
  PHY93_18765|PHY93_18765 48 NWIRVGKNTNV 58
                             56788988876 PP

  == domain 3  score: 28.3 bits;  conditional E-value: 1.6e-10
                              EEEETTEEE-TTEEEETTEEE-TTEEEETTEEE CS
                  Hexapep   2 tvIGsnvlIgpfaviggnVkIGdnvkIgagvvi 34 
                              ++IGs v Ig+ +++ ++++IG+n+ Ig g+vi
  PHY93_18765|PHY93_18765  72 LTIGSEVSIGHSVTL-HGCTIGNNCLIGMGAVI 103
                              58********99999.****************9 PP

  == domain 4  score: 39.1 bits;  conditional E-value: 6.4e-14
                              TEEEETTEEE-TTEEEETTEEE-TTEEEETTEEE CS
                  Hexapep   1 stvIGsnvlIgpfaviggnVkIGdnvkIgagvvi 34 
                              +++IG+n+lIg++avi+++++IG n++++ag+ +
  PHY93_18765|PHY93_18765  88 GCTIGNNCLIGMGAVIMDGAVIGANSVVAAGSLV 121
                              699****************************987 PP

>> Hexapep_2  Hexapeptide repeat of succinyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.0      0.18   1.1e+03      16      24 ..      26      35 ..      21      42 .. 0.72
   2 ?   -0.9   0.0      0.24   1.4e+03       2       9 ..      50      57 ..      49      58 .. 0.80
   3 !   15.8   4.5   1.5e-06    0.0088       3      32 ..      73     103 ..      72     103 .. 0.93
   4 !   25.5   8.2   1.3e-09     8e-06       3      31 ..      90     120 ..      88     122 .. 0.94

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.18
                             ES.EEE-TT- CS
                Hexapep_2 16 iG.vslGdnc 24
                             iG v+l++n+
  PHY93_18765|PHY93_18765 26 IGkVILEENA 35
                             4666677666 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.24
                             EEE-TT-E CS
                Hexapep_2  2 viIGdnCl 9 
                             +++G+n++
  PHY93_18765|PHY93_18765 50 IRVGKNTN 57
                             68999987 PP

  == domain 3  score: 15.8 bits;  conditional E-value: 1.5e-06
                              EE-TT-EE-TT-EE.SEEE-TT-EE-TT-EE CS
                Hexapep_2   3 iIGdnCliGanagi.GvslGdncvvgaGvvi 32 
                              +IG  + iG + +  G ++G+nc +g+G vi
  PHY93_18765|PHY93_18765  73 TIGSEVSIGHSVTLhGCTIGNNCLIGMGAVI 103
                              89*********9988*************998 PP

  == domain 4  score: 25.5 bits;  conditional E-value: 1.3e-09
                              EE-TT-EE-TT-EE..SEEE-TT-EE-TT-E CS
                Hexapep_2   3 iIGdnCliGanagi..GvslGdncvvgaGvv 31 
                              +IG+nCliG  a+i  G  +G n+vv+aG+ 
  PHY93_18765|PHY93_18765  90 TIGNNCLIGMGAVImdGAVIGANSVVAAGSL 120
                              7************99**************85 PP

>> ArsC  ArsC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   1.8e-05      0.11      34      59 ..     133     165 ..     131     168 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 1.8e-05
                              HHH-GGGB-S-EEEE.......SSEEEESSSCC CS
                              xxxxxxxxxxxxxxx.......xxxxxxxxxxx RF
                     ArsC  34 ilenpsLirRPivvd.......gkrlqiGfnee 59 
                              i  np++++RP++ d       ++++ +G+++e
  PHY93_18765|PHY93_18765 133 IMGNPAIVKRPLTPDerklfgnHYKAYVGYKDE 165
                              7789***********9999999999*****998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (173 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       325  (0.0181271); expected 358.6 (0.02)
Passed bias filter:                      273  (0.0152267); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.44u 0.24s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1266.59
//
Query:       PHY93_18770|PHY93_18770  [L=511]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.6e-39  134.0  41.2    4.1e-37  127.6  25.1    4.4  3  MCPsignal       Methyl-accepting chemotaxis protein (MCP) sig
  ------ inclusion threshold ------
      0.071   13.3  11.1       0.42   10.8   3.7    3.7  3  DASH_Dad1       DASH complex subunit Dad1
       0.13   11.5   6.4       0.22   10.8   2.1    2.8  2  Chordopox_A33R  Chordopoxvirus A33R protein
        3.4    6.5  29.7      0.012   14.6   6.7    2.9  3  Vps53_N         Vps53-like, N-terminal
        9.1    6.6  31.1        2.9    8.2   0.7    6.0  6  DUF948          Bacterial protein of unknown function (DUF948


Domain annotation for each model (and alignments):
>> MCPsignal  Methyl-accepting chemotaxis protein (MCP) signalling domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.2      0.11   3.8e+02     114     146 ..      36      68 ..      28      95 .. 0.59
   2 !    9.4   2.9   0.00023      0.83     108     171 ..     199     262 ..     162     267 .. 0.84
   3 !  127.6  25.1   1.1e-40   4.1e-37       4     172 .]     277     474 ..     274     474 .. 0.87

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.11
                              HHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHH CS
                MCPsignal 114 qrveegselveetgealkeiveavaevadlvqe 146
                              q  +++ ++ +++ +++++i  ++ ++++ +++
  PHY93_18770|PHY93_18770  36 QDYANAENKLSQSMHQIQDIKFSTLQIQQFLTD 68 
                              333344444444444555555555555555555 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.00023
                              ..HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal 108 sleetrqrveegselveetgealkeiveavaevadlvqeiaaaseeqsasieevnqaveevakv 171
                              +l +++qr++  +++v+   ea  +i +a +e+a++  +++ as  q+as++e++ +vee++++
  PHY93_18770|PHY93_18770 199 ILVSVVQRTKPLATTVNLLSEASLQIKNASTEIAESSAQLSEASVIQAASLQETSASVEEISAM 262
                              4567778888888888888888889999999999999999999999**********99999865 PP

  == domain 3  score: 127.6 bits;  conditional E-value: 1.1e-40
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHH.....................HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCCCH CS
                MCPsignal   4 aeeaseeAeeggkevanvvkqmeeieks.....................skeisdiieVideiadQTNlLALNAaiEAARAGeqGr 68 
                              +e++ + Ae+g+++v+++  ++ +i++s                      +ei   ++Vi++i +QT lL  NA++EAARAGeqG+
  PHY93_18770|PHY93_18770 277 SEQSLSMAEKGKEVVSQMTLAIGNINSSnneimaqindtnkeienivkiINEIGAKTKVINDIVFQTKLLSFNASVEAARAGEQGK 362
                              5677777888888888888888888888888888888887777777665777777799**************************** PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHH.......H...............HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHH CS
                MCPsignal  69 GFaVVAdEVrkLAersaqaakeieal.......iieiqkeindsv.esleetrqrveegselveetgealkeiveavaevadlvqe 146
                              GF+VVA+EV +LAe s  aa ei+++       ++ei+k+++d + + +++++++v++g+  ++e +++l++iv +va+v+++++e
  PHY93_18770|PHY93_18770 363 GFSVVAEEVGNLAEMSGAAALEITKMldgsiktVEEIVKNSKDKIgKLISDSKEKVAVGTRVASECEMVLNDIVLSVASVSKMMTE 448
                              ***********************98633333336789998887762679************************************* PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal 147 iaaaseeqsasieevnqaveevakvt 172
                              i++as+eqs++++e+n+a++++++vt
  PHY93_18770|PHY93_18770 449 ISTASQEQSNGVNEINKALAQLDQVT 474
                              ***********************996 PP

>> DASH_Dad1  DASH complex subunit Dad1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0      0.85     3e+03      17      37 ..      35      55 ..      32      59 .. 0.77
   2 ?   10.8   3.7   0.00012      0.42       8      41 ..     296     329 ..     292     331 .. 0.91
   3 ?    4.5   0.4     0.011        39       8      39 ..     444     475 ..     442     478 .. 0.90

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.85
                DASH_Dad1 17 meevlnnlnaLNRsLEeviav 37
                             +++  n  n+L +s++++ ++
  PHY93_18770|PHY93_18770 35 IQDYANAENKLSQSMHQIQDI 55
                             666778889999999988765 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 0.00012
                DASH_Dad1   8 rliqeIaesmeevlnnlnaLNRsLEeviavgkeF 41 
                              + i +I++s +e++ ++n+ N+++E+++++ +e+
  PHY93_18770|PHY93_18770 296 LAIGNINSSNNEIMAQINDTNKEIENIVKIINEI 329
                              5699*************************99885 PP

  == domain 3  score: 4.5 bits;  conditional E-value: 0.011
                DASH_Dad1   8 rliqeIaesmeevlnnlnaLNRsLEeviavgk 39 
                              ++++eI++  +e  n +n +N+ L ++ +v++
  PHY93_18770|PHY93_18770 444 KMMTEISTASQEQSNGVNEINKALAQLDQVTH 475
                              5689*********************9999986 PP

>> Chordopox_A33R  Chordopoxvirus A33R protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.5   0.1     0.042   1.5e+02      49      96 ..      11      58 ..       4      97 .. 0.72
   2 ?   10.8   2.1   6.2e-05      0.22      12      77 ..     149     214 ..     139     281 .. 0.78

  Alignments for each domain:
  == domain 1  score: 1.5 bits;  conditional E-value: 0.042
           Chordopox_A33R 49 iitsilsllaiattlalqyskckavkesihneqslnsyelvtpdkldn 96
                             i+  i s+++++ ++++ y k k++++ ++ e+ l +      d + +
  PHY93_18770|PHY93_18770 11 ILGMITSFVGLSFIISFTYFKIKTIQDYANAENKLSQSMHQIQDIKFS 58
                             4567889999999**********9999887777666655444444444 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 6.2e-05
           Chordopox_A33R  12 skdeaasfvGstiyGnklkkktkkkkskclsillrvaiitsilsllaiattlalqyskckavkesi 77 
                              s++ +a +    +y + l kk ++    ++s +l ++ ++s+++ll i+++l   +++ k   +++
  PHY93_18770|PHY93_18770 149 STQLGANLDKINLYVEALLKKSQQDLNNYISTTLIILFVSSLITLLLICSILVSVVQRTKPLATTV 214
                              55556666667789999999********************************87666666555544 PP

>> Vps53_N  Vps53-like, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   1.2      0.51   1.8e+03      57     102 ..      36      83 ..      31      96 .. 0.60
   2 ?    4.8   6.6    0.0033        12      20     137 ..     249     368 ..     241     380 .. 0.73
   3 ?   14.6   6.7   3.3e-06     0.012      17     106 ..     390     480 ..     377     504 .. 0.87

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 0.51
                  Vps53_N  57 ealeeaqkaieelfqkikeikdkaekseemvke..itrdIkqLDiAKk 102
                              ++ ++a++ +++ +++i++ik  + + ++ + +  +t d   +  AKk
  PHY93_18770|PHY93_18770  36 QDYANAENKLSQSMHQIQDIKFSTLQIQQFLTDasLTFDQESISEAKK 83 
                              455666777777777777777766666666543224555555555555 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.0033
                  Vps53_N  20 lanidelikklqeeikklddei.ks..vvraqanvgekgkealeeaqkaieelfqkikeikdkaekseemvkeitrdIkqLDiAKk 102
                              l++    ++++   ++   ++  +s  v +++++++ekgke +++++ ai ++ ++ +ei  + + +++ +++i + I+++  AK 
  PHY93_18770|PHY93_18770 249 LQETSASVEEISAMVSANSENAmQSsiVSEQSLSMAEKGKEVVSQMTLAIGNINSSNNEIMAQINDTNKEIENIVKIINEIG-AKT 333
                              5555555555555555443332122225678899*****************************************9999885.777 PP

                  Vps53_N 103 nlttsiTtlkrLkmLvtavesleallskrsykeiv 137
                              ++   i    +L     +ve  +a  + + ++ ++
  PHY93_18770|PHY93_18770 334 KVINDIVFQTKLLSFNASVEAARAGEQGKGFSVVA 368
                              77777777777777777777777666666666655 PP

  == domain 3  score: 14.6 bits;  conditional E-value: 3.3e-06
                  Vps53_N  17 eqslanidelikklqeeikklddeiksvvraqanvgekgkealeeaqkaieelfqkikeikdkaekseemvkeitrdIkqLD.iAK 101
                              + s++ ++e++k+ + +i kl  + k+ v   + v+ + +  l+++  ++ ++++ ++ei + +++  + v+ei + + qLD +  
  PHY93_18770|PHY93_18770 390 DGSIKTVEEIVKNSKDKIGKLISDSKEKVAVGTRVASECEMVLNDIVLSVASVSKMMTEISTASQEQSNGVNEINKALAQLDqVTH 475
                              67999*****************************************************************************3356 PP

                  Vps53_N 102 knltt 106
                              kn+  
  PHY93_18770|PHY93_18770 476 KNVVS 480
                              66654 PP

>> DUF948  Bacterial protein of unknown function (DUF948)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.1       0.2   7.2e+02       9      45 ..      17      52 ..      15      72 .. 0.62
   2 ?    0.3   0.1      0.24   8.6e+02      30      63 ..     144     174 ..     135     182 .. 0.72
   3 ?    5.1   3.7    0.0073        26       8      86 ..     187     265 ..     178     268 .. 0.87
   4 ?    8.2   0.7    0.0008       2.9      21      62 ..     298     338 ..     282     358 .. 0.59
   5 ?    5.2   1.8    0.0071        26      28      83 ..     393     455 ..     365     458 .. 0.63
   6 ?    5.5   2.2    0.0058        21      25      76 ..     429     476 ..     417     487 .. 0.62

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.2
                   DUF948  9 AFvvLviflivvllklkktldeaaatieelekqvdpi 45
                             +Fv L +++  + +k+ kt++  a++ ++l + +++i
  PHY93_18770|PHY93_18770 17 SFVGLSFIISFTYFKI-KTIQDYANAENKLSQSMHQI 52
                             5777777777777777.44444444444444444443 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.24
                   DUF948  30 eaaatieelekqvdpilkevedllakvnelledv 63 
                               + +t ++l+ ++d+i   ve+ll+k+++   d+
  PHY93_18770|PHY93_18770 144 GFDQTSTQLGANLDKINLYVEALLKKSQQ---DL 174
                              55677778888888888888888888877...44 PP

  == domain 3  score: 5.1 bits;  conditional E-value: 0.0073
                   DUF948   8 iAFvvLviflivvllklkktldeaaatieelekqvdpilkevedllakvnelledvneklekvdplteavadlgesvse 86 
                              ++ ++  ++++ +l+++ +  + +a+t++ l +   +i + ++++ + + +l e    + +++++  ++v+++++ vs+
  PHY93_18770|PHY93_18770 187 VSSLITLLLICSILVSVVQRTKPLATTVNLLSEASLQIKNASTEIAESSAQLSEASVIQAASLQETSASVEEISAMVSA 265
                              5667778889999999999999999999999999999999999999999999999999999999999999999999975 PP

  == domain 4  score: 8.2 bits;  conditional E-value: 0.0008
                   DUF948  21 llklkktldeaaatieelekqvdpilkevedllakvnelled 62 
                              + ++++  +e+ a+i++++k++++i+k ++++ ak++++  d
  PHY93_18770|PHY93_18770 298 IGNINSSNNEIMAQINDTNKEIENIVKIINEIGAKTKVIN-D 338
                              3344445555666666666666666666666666666633.3 PP

  == domain 5  score: 5.2 bits;  conditional E-value: 0.0071
                   DUF948  28 ldeaaatieelekqvdpilkevedllakvne.......lledvneklekvdplteavadlges 83 
                              ++ +++ +++ ++++++++ ++++ +a   +       +l+d+   +++v ++++++ ++++ 
  PHY93_18770|PHY93_18770 393 IKTVEEIVKNSKDKIGKLISDSKEKVAVGTRvasecemVLNDIVLSVASVSKMMTEISTASQE 455
                              222223333333444444444444444333367777779999999999999999999999986 PP

  == domain 6  score: 5.5 bits;  conditional E-value: 0.0058
                   DUF948  25 kktldeaaatieelekqvdpilkevedllakvnelledvneklekvdpltea 76 
                              + +l+ +  +++++ k +++i++ +++  + vne    +n+ l+++d++t++
  PHY93_18770|PHY93_18770 429 EMVLNDIVLSVASVSKMMTEISTASQEQSNGVNE----INKALAQLDQVTHK 476
                              4455555555555555555565555555555555....99999999999974 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (511 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2478  (0.138212); expected 358.6 (0.02)
Passed bias filter:                      556  (0.0310112); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.72u 0.28s 00:00:01.00 Elapsed: 00:00:00.45
# Mc/sec: 3409.81
//
Query:       PHY93_18775|PHY93_18775  [L=264]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.8e-16   60.0   0.0    3.9e-16   59.5   0.0    1.2  1  CTP_transf_like  Cytidylyltransferase-like
     0.0071   16.3   0.0      0.013   15.4   0.0    1.4  1  FAD_syn          FAD synthetase
     0.0079   15.7   0.0      0.015   14.7   0.0    1.4  1  ATP-sulfurylase  ATP-sulfurylase


Domain annotation for each model (and alignments):
>> CTP_transf_like  Cytidylyltransferase-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.5   0.0   6.5e-20   3.9e-16       1     142 [.      41     206 ..      41     207 .. 0.82

  Alignments for each domain:
  == domain 1  score: 59.5 bits;  conditional E-value: 6.5e-20
                              EEEE--TT--HHHHHHHHHHHHHSSESEEEEEESSTHCSST-SCSSTHHHHHHHHHHH.TTCTTEEEEEEESEHH....HHHHHTT CS
          CTP_transf_like   1 lagGtFDpiHlGHlrlleqakklleedlivgvpsdeppkkkkkplasaeeRlemlela.kevdevisvdpweltr....evlkklk 81 
                              ++ GtFDpiH GH  ++eq +k +++d +  +p+   ++k  ++  +  +Rl+m++ + +++++++++d  e+ +    ++l+k +
  PHY93_18775|PHY93_18775  41 IYIGTFDPIHVGHSSVVEQSLKDGKLDYVLVIPN-SAAHK--PNALPFIHRLQMVKSLyEDSPNIVVPDGPEIGNdiaySFLDKVN 123
                              689***********************75544555.55554..48***********************************9999999 PP

                              TT.....EEEEEEEHHHHHHHHCHHHHHHHHHHH.HHEEEEEE.................HTTCEEEEEEECCTTTCSHHHHHH CS
          CTP_transf_like  82 pd.....klylvigadvledfsewkeleeilgnv.klvvvsrp.................ekqanvllkaekrtngiSstkire 142
                              ++      l+ + g+dv++++++ ++ +  ++   +++++ r+                 + + +++++++ ++ g Sstki++
  PHY93_18775|PHY93_18775 124 SQklpavRLIQIYGDDVVASVETQRKERAQYKGIsEWIIMARSdesigqideikkalvkeNPDLKIQVLKSTDP-GHSSTKIKA 206
                              9888889*************988884444444431344445557779999999999999888888888887666.9*****986 PP

>> FAD_syn  FAD synthetase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   2.1e-06     0.013       9      33 ..      40      64 ..      33      81 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 2.1e-06
                  FAD_syn  9 vvtlGnFDGvHlGHqallkkaveaa 33
                              + +G FD +H+GH +++++ ++  
  PHY93_18775|PHY93_18775 40 GIYIGTFDPIHVGHSSVVEQSLKDG 64
                             578****************988765 PP

>> ATP-sulfurylase  ATP-sulfurylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.0   2.6e-06     0.015      27      79 ..      45      98 ..      39     123 .. 0.93

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 2.6e-06
                             ESS---HHHHHHHHHHHHH.TSEEEEEEEB-SB-STTSTTHHHHHHHHHHHHHH CS
          ATP-sulfurylase 27 trnplHraHeellkralee.eadglllhplvgptkpgdvpaevrvrayealiee 79
                             t +p+H +H  ++++ l++ + d++l+ p   + kp+ +p   r++ ++ l e+
  PHY93_18775|PHY93_18775 45 TFDPIHVGHSSVVEQSLKDgKLDYVLVIPNSAAHKPNALPFIHRLQMVKSLYED 98
                             678********************************************9999987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (264 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       551  (0.0307323); expected 358.6 (0.02)
Passed bias filter:                      482  (0.0268838); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.23s 00:00:00.72 Elapsed: 00:00:00.42
# Mc/sec: 1906.06
//
Query:       PHY93_18780|PHY93_18780  [L=661]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0056   16.9   1.5     0.0056   16.9   1.5    3.5  4  DUF2959          Protein of unknown function (DUF2959)
  ------ inclusion threshold ------
      0.026   14.4   0.6       0.12   12.3   0.1    2.1  2  PSI_PsaF         Photosystem I reaction centre subunit III
       0.13   13.0   3.2        1.5    9.5   1.0    3.4  2  Vir_act_alpha_C  Virulence activator alpha C-term
       0.33   11.3   0.0       0.33   11.3   0.0    3.2  4  LPP20            LPP20 lipoprotein


Domain annotation for each model (and alignments):
>> DUF2959  Protein of unknown function (DUF2959)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   0.1      0.14   6.4e+02      32      76 ..      47      92 ..      25     100 .. 0.77
   2 ?   -1.9   0.0      0.72   3.2e+03     152     177 ..     127     153 ..     124     159 .. 0.83
   3 ?   -1.3   0.1      0.47   2.1e+03     105     130 ..     245     270 ..     228     289 .. 0.62
   4 !   16.9   1.5   1.2e-06    0.0056      28     124 ..     417     521 ..     403     528 .. 0.79

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 0.14
                  DUF2959 32 eqfksALerfkavvef.dggeLekeyeklnkeyeesekaaeevrer 76
                             ++f++ L + +a+ ++ ++  L++  +k+++ +++ ++ ++e+++r
  PHY93_18780|PHY93_18780 47 NKFADLLAKTEAIKNIfKSNCLQNDENKMTEVLNSVKDIQDELKKR 92
                             5677778888887774155568888888888888888888888777 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 0.72
                  DUF2959 152 aqaiaalkg.elselekdvsklikeme 177
                              a+a++al+g ++s+l ++++++ik+ +
  PHY93_18780|PHY93_18780 127 ASAVSALSGiKFSTLFSNITTMIKKNQ 153
                              89999999758999*******999865 PP

  == domain 3  score: -1.3 bits;  conditional E-value: 0.47
                  DUF2959 105 reSeqklketrkkykellkamkkaek 130
                              ++S++ lk+t+    ++  ++kk e+
  PHY93_18780|PHY93_18780 245 NSSSEDLKDTKDLIGKMNISLKKMEQ 270
                              56677777777766666555444443 PP

  == domain 4  score: 16.9 bits;  conditional E-value: 1.2e-06
                  DUF2959  28 eeakeqfksALerfkavvefdggeLekeyekln.....keyeesekaaeevrerieaveevaealfkeWeeeldqyssasl...rr 105
                              +e k+   s L++ +++++++ ++L+k  e+ln     key +s++ ++++   +e+ +++++ ++ eW e   +ys  +     +
  PHY93_18780|PHY93_18780 417 QEIKKFKVSNLQKQQEIYTAKLADLKKIEERLNrvvspKEYSASDDGSDNIVAMLENYKNISQQIYGEWGEKFLRYSTLKSyneTK 502
                              3444444589**********************95555559********************************99998644301144 PP

                  DUF2959 106 eSeqklketrkkykellka 124
                              + ++kl++ ++ky e lk+
  PHY93_18780|PHY93_18780 503 NFKDKLDRFNSKYGEQLKS 521
                              5678999999999876665 PP

>> PSI_PsaF  Photosystem I reaction centre subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.1      0.28   1.3e+03      27      68 ..     410     451 ..     395     462 .. 0.73
   2 ?   12.3   0.1   2.6e-05      0.12      22      78 ..     493     548 ..     486     564 .. 0.87

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 0.28
                 PSI_PsaF  27 CseskafakrlkkevkklekrlkkyeadsaPalalkakiekt 68 
                                 s+  ++ +k +v++l+k+ + y a+ a    +++++++ 
  PHY93_18780|PHY93_18780 410 GIASTENQEIKKFKVSNLQKQQEIYTAKLADLKKIEERLNRV 451
                              555666777778888888888888888888888888887765 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 2.6e-05
                 PSI_PsaF  22 agltpCseskafakrlkkevkklekrlkkyeadsaPalalkakiektkkrfekyska 78 
                              ++l+  +e+k f+++l++  +k+ ++lk++  d +P+ ++ + i++ +  + ky+++
  PHY93_18780|PHY93_18780 493 STLKSYNETKNFKDKLDRFNSKYGEQLKSFTIDKSPSPYICQDIQRMRISY-KYADS 548
                              789999****************************************99888.47775 PP

>> Vir_act_alpha_C  Virulence activator alpha C-term
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   1.0   0.00034       1.5      23      55 ..     426     495 ..     423     502 .. 0.75
   2 ?   -2.9   0.0       2.5   1.1e+04      24      46 ..     587     613 ..     585     623 .. 0.73

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00034
          Vir_act_alpha_C  23 eLerrreeheekLaeyeeieerl.....................................eeargqylvL 55 
                               L++++e +++kLa++++ieerl                                     +e++++y +L
  PHY93_18780|PHY93_18780 426 NLQKQQEIYTAKLADLKKIEERLnrvvspkeysasddgsdnivamlenyknisqqiygewGEKFLRYSTL 495
                              69********************988888877777766666666666666666666666655566666665 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 2.5
          Vir_act_alpha_C  24 LerrreeheekLaeyeeieerl....e 46 
                              Le+ +++++ ++  ++++++++    +
  PHY93_18780|PHY93_18780 587 LEKIQRHYKSTILALRKLKKEDvdpdD 613
                              788888888888888888888877542 PP

>> LPP20  LPP20 lipoprotein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   1.0       1.8   8.2e+03      29      81 ..      56     106 ..      53     119 .. 0.51
   2 ?   -1.0   0.2       0.5   2.2e+03      42      75 ..     276     313 ..     260     337 .. 0.66
   3 ?   -1.6   0.1      0.78   3.5e+03      54      69 ..     422     437 ..     408     457 .. 0.54
   4 ?   11.3   0.0   7.4e-05      0.33      25      71 ..     467     513 ..     448     527 .. 0.81

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 1.8
                    LPP20  29 qnAlrdiaeqiqvqvksssstqetsaavqnsettnesvsqvvesvlrgieive 81 
                               +A+++i  +   q + + +t++   +  ++++++ + +++ e+++ g  iv+
  PHY93_18780|PHY93_18780  56 TEAIKNIFKSNCLQNDENKMTEV--LNSVKDIQDELKKRNIIEKTVDGNTIVN 106
                              55555555543334444444433..2333333333333666666666666665 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.5
                    LPP20  42 qvksssstqets....aavqnsettnesvsqvvesvlr 75 
                              +++  s+ qet+    ++v++ +++  +v++++++ + 
  PHY93_18780|PHY93_18780 276 KKILESMDQETLvslvGDVTIFKKNLVRVKAYLSNGIV 313
                              33444444444566688888888888888888887774 PP

  == domain 3  score: -1.6 bits;  conditional E-value: 0.78
                    LPP20  54 aavqnsettnesvsqv 69 
                               +v+n ++++e ++++
  PHY93_18780|PHY93_18780 422 FKVSNLQKQQEIYTAK 437
                              3344444444444433 PP

  == domain 4  score: 11.3 bits;  conditional E-value: 7.4e-05
                    LPP20  25 raAkqnAlrdiaeqiqvqvksssstqetsaavqnsettnesvsqvve 71 
                               +A+ +++++i++qi+++   ++ ++ t++  ++ +++++++++  +
  PHY93_18780|PHY93_18780 467 IVAMLENYKNISQQIYGEWGEKFLRYSTLKSYNETKNFKDKLDRFNS 513
                              48***************************888888888888776555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (661 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1658  (0.0924759); expected 358.6 (0.02)
Passed bias filter:                      560  (0.0312343); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.71u 0.26s 00:00:00.97 Elapsed: 00:00:00.44
# Mc/sec: 4540.11
//
Query:       PHY93_18785|PHY93_18785  [L=201]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (201 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       285  (0.015896); expected 358.6 (0.02)
Passed bias filter:                      105  (0.00585643); expected 358.6 (0.02)
Passed Vit filter:                         3  (0.000167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.38
# Mc/sec: 1567.78
//
Query:       PHY93_18790|PHY93_18790  [L=426]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      0.006   16.2   0.0     0.0094   15.5   0.0    1.3  1  DUF2268   Predicted Zn-dependent protease (DUF2268)


Domain annotation for each model (and alignments):
>> DUF2268  Predicted Zn-dependent protease (DUF2268)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   5.2e-07    0.0094      59     113 ..     261     309 ..     215     346 .. 0.83

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 5.2e-07
                  DUF2268  59 eyskerlaallaHEyhHvvrlkqlekeeksiTllesivlEGlAesfatelvgeek 113
                                ++ ++ +++ HE+ H    ++l+      T+  + v+EG+A++fa  +  + k
  PHY93_18790|PHY93_18790 261 YIDTAMVPEIIYHEFAHIAMSDHLK------TVHSVPVIEGMADYFASVIANRRK 309
                              44566999****************9......9***************87776655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (426 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       637  (0.035529); expected 358.6 (0.02)
Passed bias filter:                      523  (0.0291706); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.43
# Mc/sec: 2965.40
//
Query:       PHY93_18795|PHY93_18795  [L=454]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    9.5e-27   93.4   0.1    2.2e-26   92.2   0.1    1.6  1  Response_reg  Response regulator receiver domain
    3.7e-13   49.5   0.3      8e-13   48.4   0.3    1.6  1  HD_5          HD domain
      1e-10   41.8   0.6    2.4e-10   40.7   0.2    1.9  2  HD            HD domain
     0.0052   16.3   1.2      0.041   13.3   0.7    2.5  2  HDOD          HDOD domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   92.2   0.1   4.8e-30   2.2e-26       1     111 [.       7     116 ..       7     117 .. 0.98

  Alignments for each domain:
  == domain 1  score: 92.2 bits;  conditional E-value: 4.8e-30
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseeeda 86 
                              +l++dD+ ++r++++  le++gy ++ +a dg+eal++l++ek  +i++D++mp+++G+ +lk ire+  ++pvi++t+ ++  ++
  PHY93_18795|PHY93_18795   7 ILLIDDNTDLRSVISVNLESQGY-NIIQAGDGAEALNKLDQEKWYCIVCDLMMPHITGMMFLKIIRERGLKIPVIFITGLNNIIEK 91 
                              89*********************.9999********************************************************** PP

                              HHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  87 vealkagaddflsKpfdpeeLlkal 111
                              +ea+k+ga+ f++Kpf+ +eL ++l
  PHY93_18795|PHY93_18795  92 EEAFKLGAQAFITKPFENNELYQKL 116
                              *********************9986 PP

>> HD_5  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.4   0.3   1.8e-16     8e-13       3      64 .]     338     399 ..     336     399 .. 0.96

  Alignments for each domain:
  == domain 1  score: 48.4 bits;  conditional E-value: 1.8e-16
                     HD_5   3 LtpeerellqehpeaaarlLsklprlpkdvaeiigqhhErldGsGyPrglkgeeIpleaRiL 64 
                               + ee +l+++hp+ +++l   ++++p+ ++++i++hhE+ dGsGyP g+ + +I   aRiL
  PHY93_18795|PHY93_18795 338 MSTEEIQLFKSHPQLGSQLMASIKKIPEVIPQAILHHHEHSDGSGYPFGIGRIKIHPIARIL 399
                              6789*********************************************************8 PP

>> HD  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0         2     9e+03      62      89 ..     214     240 ..     189     252 .. 0.58
   2 !   40.7   0.2   5.3e-14   2.4e-10       2     120 ..     284     406 ..     283     408 .. 0.91

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 2
                              HHHHHHHHHHHHHHHHHHHHHHHHHTTC CS
                       HD  62 vgaeilrevekrlgldledvaklirehh 89 
                               + + +++++kr+++ +++  +++++ +
  PHY93_18795|PHY93_18795 214 LSFREIKDEKKRDFF-ISISKNIVEYEF 240
                              444445555555533.555566666555 PP

  == domain 2  score: 40.7 bits;  conditional E-value: 5.3e-14
                              HHHHHHHHHHHHHHHHHHHH..HHHHHHHHHHHHHTTTTHHHHTS..HHH......HHHCTCCHHHHHHHHHHHHHHHHHHHHHHH CS
                       HD   2 leHsleVaklarrlaedlge..eedrellllaaLlHDiGkgpfgdafekk......eeefekflaHekvgaeilrevekrlgldle 79 
                               eHsl V  la  +a + +e  ++ +  + laaL+HD G    + +   k      +ee   f++H + g ++   ++k +    e
  PHY93_18795|PHY93_18795 284 VEHSLLVSLLASAIALQSEEfnNKTVLSVSLAALFHDFGLKELPKGLADKslnkmsTEEIQLFKSHPQLGSQLMASIKKIP----E 365
                              79****************9999999999***********88888555555888877555788999****************....7 PP

                              HHHHHHHTTCCHHHHHHHHHHHHCCTSCHHHHHHHHHHHHH CS
                       HD  80 dvaklirehheswegkkrprglaerqlslearivklaDrla 120
                               + ++i++hhe ++g+++p g +   +++ ari+++aD la
  PHY93_18795|PHY93_18795 366 VIPQAILHHHEHSDGSGYPFGIGRIKIHPIARILAVADHLA 406
                              7*************************************997 PP

>> HDOD  HDOD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.7   9.2e-06     0.041      71     195 ..     259     376 ..     236     377 .. 0.75
   2 ?   -0.2   0.0      0.13   6.1e+02     172     185 ..     401     414 ..     397     420 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 9.2e-06
                              HHHHHHHHHHHHHS--.-SS-HHHHHHHHHHHHHHHHHHHHHTT-S-H...HHHHHHHHTTTHHHHHHHHHSHHHHHHHHHHHHHH CS
                     HDOD  71 nlvlalslkrlfkgkeeegadlkklwehslavAlvarelaeelgledp...eeaflaGLLhdiGklvllsllpeeleellekvaee 153
                              +l+  ++ k++fk  +  +    +++ehsl v+l+a ++a + +  +      + la+L+hd G   l + l +           +
  PHY93_18795|PHY93_18795 259 TLIFVSAKKDFFKALQALHEFSATVVEHSLLVSLLASAIALQSEEFNNktvLSVSLAALFHDFGLKELPKGLAD-----------K 333
                              5777777788888888888888999***************8885544313378899********6544444433...........3 PP

                              ---HHHHHHHHHSS-HHHHHHHHHHH.TT--HHHHHHHHHTT- CS
                     HDOD 154 elslleaeeellgtdhaevGaallek.WnlPeelveaiayhhe 195
                              +l++ ++ee  l ++h ++G++l+ +  ++Pe + +ai +hhe
  PHY93_18795|PHY93_18795 334 SLNKMSTEEIQLFKSHPQLGSQLMASiKKIPEVIPQAILHHHE 376
                              4456678888888999999998877624689999999999986 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.13
                              HHHHHHHHTT--HH CS
                     HDOD 172 vGaallekWnlPee 185
                              v+ +l+++W+lPe+
  PHY93_18795|PHY93_18795 401 VADHLASTWSLPEN 414
                              7899********96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (454 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       661  (0.0368676); expected 358.6 (0.02)
Passed bias filter:                      405  (0.0225891); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.58u 0.22s 00:00:00.80 Elapsed: 00:00:00.42
# Mc/sec: 3249.69
//
Query:       PHY93_16345|PHY93_16345  [L=473]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.3e-23   82.3   0.4    7.2e-23   81.6   0.1    1.5  2  Peptidase_M16_C  Peptidase M16 inactive domain
    6.8e-23   81.3   0.0    2.2e-22   79.6   0.0    1.9  2  Peptidase_M16    Insulinase (Peptidase family M16)
  ------ inclusion threshold ------
          3    8.5   6.3       0.27   11.8   1.3    2.0  2  LPAM_1           Prokaryotic membrane lipoprotein lipid attac


Domain annotation for each model (and alignments):
>> Peptidase_M16_C  Peptidase M16 inactive domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.8   0.0       1.9   1.1e+04     114     133 ..     101     120 ..      72     128 .. 0.68
   2 !   81.6   0.1   1.2e-26   7.2e-23       2     182 ..     205     389 ..     204     390 .. 0.92

  Alignments for each domain:
  == domain 1  score: -3.8 bits;  conditional E-value: 1.9
                              HHHHHHTTTTSESEEEEEEE CS
          Peptidase_M16_C 114 Lytnlrekeglaysvsafnd 133
                               ++nl e+ g +++++  nd
  PHY93_16345|PHY93_16345 101 QFDNLIERNGGMTNAYTTND 120
                              47778878888887777776 PP

  == domain 2  score: 81.6 bits;  conditional E-value: 1.2e-26
                              H-HHHHHHHHHHHSSGGGEEEEEEESS-HHHHHHHHHHHHTTSTHHSH......CSGSCTSSSSSGGGSSEEEEEEEESSSSSEEE CS
          Peptidase_M16_C   2 ltredlkefykkfYrpenmvlaivGdvdheelvkliekyfgdlkaska......ppakptgepltpatlkkppvvlkkldeeqahl 81 
                              l+r+++ +f+k++Y p+n+ lai+Gdvd+++l+ +i++  g+++  ka      +  +pt++ l+ a ++++  +    +   +++
  PHY93_16345|PHY93_16345 205 LSRDQVMDFFKTYYAPNNAILAIAGDVDPDKLMPIIKEKYGSIPRAKAlnelkaKRDDPTNYELK-ANFNTEYSYYATNP--IPKF 287
                              79*******************************************99999999866777777777.66666666666666..**** PP

                              EEEEEEECTCTHTTHHHHHHHHHHHHSSTTSHHHHHHH.TTTTSESEEEEEEEEESSCEEEEEEEEEECT.THHHHHHHHHHHHHH CS
          Peptidase_M16_C  82 slafegpskendeddlalavlntlLgggmesrLytnlr.ekeglaysvsafndsyrdsglfgisatadpe.nveevvevilkelrk 165
                              ++af+g     +++ ++l+vl+++Lg+g +s L +++  ++  l  ++s++n + r+sg+f++s  + ++  +e++ + ++  +++
  PHY93_16345|PHY93_16345 288 TMAFKGEKA-GTRRAFVLDVLAYMLGNGGSSYLSQKYVrNQTPLLSDISLSNYNLRHSGVFYLSGELMQNeSIEKAKKQLKLDIKN 372
                              *********.***********************98865499999**********************98777*************** PP

                              HHHHTS-HHHHHHHHHH CS
          Peptidase_M16_C 166 lkkeglteeeleraknq 182
                              +++e l+ + l++ knq
  PHY93_16345|PHY93_16345 373 FCSEALDARTLQKTKNQ 389
                              ***************98 PP

>> Peptidase_M16  Insulinase (Peptidase family M16)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.6   0.0   3.7e-26   2.2e-22       9     147 ..      58     197 ..      50     199 .. 0.89
   2 ?   -1.7   0.1      0.42   2.5e+03      99     125 ..     353     380 ..     349     405 .. 0.63

  Alignments for each domain:
  == domain 1  score: 79.6 bits;  conditional E-value: 3.7e-26
                              SSSEEEEEEEES-SGGGSCTTTTTHHHHHHHHTTSBBSSSCHHHHHHHHHHTTCEEEEEEESSEEEEEEEEEGGGHHHHHHHHHHH CS
            Peptidase_M16   9 paktsavglvvdaGSryepkdlnGlAHllehmafkgTkkypsnklaeeleklGgslnAttsrentvYyvevlskdlekaldvladv 94 
                              + + ++    +d+G rye     G++H+lehm+fkg +ky   ++++ +e++Gg  nA+t+ + tvYy +++s+ +++++d+ ad 
  PHY93_16345|PHY93_16345  58 KLPIVSYYTLFDVGGRYEVHGTTGATHFLEHMMFKGAQKYGPGQFDNLIERNGGMTNAYTTNDATVYYQNIPSSFVNTMIDLEADR 143
                              566667777899************************************************************************** PP

                              HHSBTTSHHHHHHHHHHHHHHHHHHCCHH.HHHHHHHHHHHHTTTSGGGSHSS- CS
            Peptidase_M16  95 fkaplleesevererkvvekeveavdaep.ekvveenlhaaayrekalgrsllg 147
                              +++ lle+  +e er+v+ +e+++  ++  +  +  +++++ ++ +++g+s++g
  PHY93_16345|PHY93_16345 144 IQHLLLEPISFESERQVIFEERKMRYENSpDGFIYLMMMKKVFEGTPYGQSVIG 197
                              ****************99999987655554888888888888888888888765 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 0.42
                              TTSHHHHHHHHHHHHHHHHHHCCHH.HH CS
            Peptidase_M16  99 lleesevererkvvekeveavdaep.ek 125
                              l++++ +e+ +k+++ +++ + +e  ++
  PHY93_16345|PHY93_16345 353 LMQNESIEKAKKQLKLDIKNFCSEAlDA 380
                              5777888888888888888777776322 PP

>> LPAM_1  Prokaryotic membrane lipoprotein lipid attachment site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   1.3   4.4e-05      0.27       3      18 .]       9      24 ..       4      24 .. 0.88
   2 ?   -3.0   0.3       2.3   1.4e+04       1       5 [.     182     186 ..     182     186 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 4.4e-05
                   LPAM_1  3 KillalgalllLsGCs 18
                             +++++++++++LsGCs
  PHY93_16345|PHY93_16345  9 RLVSLALLAATLSGCS 24
                             5689***********9 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 2.3
                   LPAM_1   1 MKKil 5  
                              MKK +
  PHY93_16345|PHY93_16345 182 MKKVF 186
                              ***86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (473 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       642  (0.0358079); expected 358.6 (0.02)
Passed bias filter:                      411  (0.0229238); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.40
# Mc/sec: 3506.37
//
Query:       PHY93_16600|PHY93_16600  [L=331]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
     0.0011   18.3  27.6        0.3   10.3  24.0    2.9  2  Competence  Competence protein


Domain annotation for each model (and alignments):
>> Competence  Competence protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.1     0.048   8.6e+02     192     212 ..       5      25 ..       1      44 [. 0.56
   2 !   10.3  24.0   1.7e-05       0.3       2     266 ..      63     293 ..      62     299 .. 0.72

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.048
               Competence 192 Plvsllvlplallallllllp 212
                               ++++++l  a+l++l  ++ 
  PHY93_16600|PHY93_16600   5 RFFAFITLISAFLLFLSKPFD 25 
                              555555555555555554443 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 1.7e-05
               Competence   2 llGdrselseevweafqktGlaHllAiSGlHvglvagllllllrrlllrlplrkla.allallflllYallaGfspsvlRAllmll 86 
                              ++G++ ++s++ +++f+++ l   ++  G H++ ++ ll++l++ l   +  + +  + +++l+ +l++ +    +++ R ++  l
  PHY93_16600|PHY93_16600  63 MTGEKFGISPKAMQDFKDLELNFFFSPTGIHLAAILSLLFFLIKKL---KYKKTVNmIQWGILIWALFLPF----LAIKRIIFLRL 141
                              79********************************************...3333333233333333333322....46778888888 PP

               Competence  87 lvllalllkrkaspldalalaallvllvdPlallsaGfqLSflavagilllaprlekalkrlskkvrellllavslaaqlallpll 172
                              l++  +l+krk+    ++++++ + +l+  +    +G+ LSfl     + l+ + +                 + l ++   l + 
  PHY93_16600|PHY93_16600 142 LIMSQRLIKRKFYIEILFLITFGMAFLLGHFKESPLGYILSFLYIGTFISLSDKPKI---------I------LILGLFSSHLLIA 212
                              888899999998877777777777788888999999********9999887443322.........2......2344455555677 PP

               Competence 173 lylfgqislvsllaNllavPlvsllvlplallallllllpslaalllqladlllelllellellaslplaslvlgkpsllllllly 258
                              ++  +++sl+s+++ l ++ l+s++ lp+++l ++++ l     + +++++  ++l++ ++++ a+l + s+   ++ l+l+++  
  PHY93_16600|PHY93_16600 213 FFSGNEVSLLSIILGLPIIALFSFF-LPFVFLYFFTFKL-----IHFNWIEAAIRLFILIVHWGAKLTHGSFMSSTLFLILVIW-- 290
                              777789*******************.8888888887765.....3333345669999999999999555444443333333222.. PP

               Competence 259 llllllll 266
                                   +ll
  PHY93_16600|PHY93_16600 291 -----ILL 293
                              .....222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (331 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       984  (0.0548832); expected 358.6 (0.02)
Passed bias filter:                      317  (0.0176809); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.41
# Mc/sec: 2422.68
//
Query:       PHY93_18800|PHY93_18800  [L=176]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.084   12.3   0.2       0.15   11.5   0.2    1.4  1  DUF1919   Domain of unknown function (DUF1919)


Domain annotation for each model (and alignments):
>> DUF1919  Domain of unknown function (DUF1919)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.2   8.4e-06      0.15     120     179 ..       8      68 ..       3      82 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 8.4e-06
                              EEEEE--SS.-HHHHHHHHTSS-SS.EEEE-SS--S.STTEE--HHH.....HHHHHH-TT CS
                  DUF1919 120 fvkmtdrdglteedlkrfdkLpykn.KviftakeypelkSavyikgfeeetevgelleysk 179
                              +++ t + gl+ e+++ f+kL+ ++  vi++++e +  + a+y+ g e+e+ ++ ll+ ++
  PHY93_18800|PHY93_18800   8 LIISTLSFGLKAEEIRTFNKLNASQaEVIIQTEETDATQAAMYVDGKENEQFIKMLLQDKT 68 
                              56667788999**********9865389********************9999998887555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (176 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       675  (0.0376485); expected 358.6 (0.02)
Passed bias filter:                      472  (0.0263261); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1295.95
//
Query:       PHY93_18805|PHY93_18805  [L=147]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (147 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       505  (0.0281667); expected 358.6 (0.02)
Passed bias filter:                      465  (0.0259356); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 1142.06
//
Query:       PHY93_18810|PHY93_18810  [L=94]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (94 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       450  (0.025099); expected 358.6 (0.02)
Passed bias filter:                      316  (0.0176251); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.41
# Mc/sec: 687.01
//
Query:       PHY93_18815|PHY93_18815  [L=444]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.6e-14   53.2   0.0    5.5e-14   52.2   0.0    1.6  1  HD_5          HD domain
    1.4e-11   44.7   0.1    2.4e-11   43.9   0.1    1.4  1  HD            HD domain
    2.1e-09   37.5   0.1    1.4e-08   34.9   0.0    2.2  2  Response_reg  Response regulator receiver domain
    0.00082   18.9   0.2     0.0018   17.8   0.2    1.6  1  HDOD          HDOD domain


Domain annotation for each model (and alignments):
>> HD_5  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.2   0.0   1.2e-17   5.5e-14       2      63 ..     334     395 ..     333     396 .. 0.97

  Alignments for each domain:
  == domain 1  score: 52.2 bits;  conditional E-value: 1.2e-17
                     HD_5   2 tLtpeerellqehpeaaarlLsklprlpkdvaeiigqhhErldGsGyPrglkgeeIpleaRi 63 
                              t++++e+++++ h+  +a+lL +++ +pk+v +i++qhhE+ dGsG+P gl+   I   a+i
  PHY93_18815|PHY93_18815 334 TYSENELKIWENHTISGAELLTRIENIPKEVFQIAMQHHEYADGSGFPFGLTSVHIFPLAKI 395
                              899*****************************************************999998 PP

>> HD  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.9   0.1   5.4e-15   2.4e-11       2     120 ..     281     403 ..     280     405 .. 0.86

  Alignments for each domain:
  == domain 1  score: 43.9 bits;  conditional E-value: 5.4e-15
                              HHHHHHHHHHHHHHHHHHHH..HHHHHHHHHHHHHTTTTHHHHTS..HHH......HHH.CTCCHHHHHHHHHHHHHHHHHHHHHH CS
                       HD   2 leHsleVaklarrlaedlge..eedrellllaaLlHDiGkgpfgdafekk......eee.fekflaHekvgaeilrevekrlgldl 78 
                              ++H+l+V  ++  la++l+   +    +l +++LlHDiG   ++++  k       e +  ++ ++H++ gae+l ++e+ +    
  PHY93_18815|PHY93_18815 281 YTHCLAVSIYSVLLARRLDWstDRTTAILAMGGLLHDIGQRNIPEELRKRhhstysE-NeLKIWENHTISGAELLTRIENIP---- 361
                              89******************776666778899************7555558877753.25555566****************.... PP

                              HHHHHHHHTTCCHHHHHHHHHHHHCCTSCHHHHHHHHHHHHH CS
                       HD  79 edvaklirehheswegkkrprglaerqlslearivklaDrla 120
                              ++v +++ +hhe  +g+++p gl    + ++a+iv l+D +a
  PHY93_18815|PHY93_18815 362 KEVFQIAMQHHEYADGSGFPFGLTSVHIFPLAKIVGLIDCFA 403
                              46******************9**************9999876 PP

>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.9   0.0   3.1e-12   1.4e-08       1     108 [.       8     113 ..       8     117 .. 0.95
   2 ?   -0.5   0.0      0.31   1.4e+03      56      78 ..     348     370 ..     346     376 .. 0.79

  Alignments for each domain:
  == domain 1  score: 34.9 bits;  conditional E-value: 3.1e-12
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseeeda 86 
                              vlivd d+  ++ l+++l + ++ ++  a +g+ea +l+  +++ li+    ++++ G+ell   +e+ p+++ i++t+  +   +
  PHY93_18815|PHY93_18815   8 VLIVDPDKNGIDFLNTQLVRLQL-TILFAGSGSEAKKLIVLQRPELIISETYLSDCYGMELLCWAEENYPQTKAILVTSDVD-IIT 91 
                              89*********************.******************************************************8887.778 PP

                              HHHHHCTESEEEESSG-HHHHH CS
             Response_reg  87 vealkagaddflsKpfdpeeLl 108
                              ++ ++ +a+++l+Kpf ++eL 
  PHY93_18815|PHY93_18815  92 NKKISGDAYEILVKPFPIAELD 113
                              8899**************9996 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.31
                              SEHHHHHHHHHHCTTTSEEEEEE CS
             Response_reg  56 mdGlellkeireedpelpviilt 78 
                              ++G ell++i++ ++e+  i++ 
  PHY93_18815|PHY93_18815 348 ISGAELLTRIENIPKEVFQIAMQ 370
                              89*********999887766665 PP

>> HDOD  HDOD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.2     4e-07    0.0018      78     195 ..     263     373 ..     250     374 .. 0.64

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 4e-07
                              HHHHHHS--.-SS-HHHHHHHHHHHHHHHHHHHHHT..T-S-.HHHHHHHHHTTTHHHHHHHHHSHHHHHHHHHHHHHH---HHHH CS
                     HDOD  78 lkrlfkgkeeegadlkklwehslavAlvarelaeel..gled.peeaflaGLLhdiGklvllsllpeeleellekvaeeelsllea 160
                               k++f   e+ + + ++l +h+lav++++  la++l  + ++ ++ + ++GLLhdiG+  +     eel +       ++++  e 
  PHY93_18815|PHY93_18815 263 NKSIFDLLEMMKSNNNGLYTHCLAVSIYSVLLARRLdwSTDRtTAILAMGGLLHDIGQRNIP----EELRKR------HHSTYSEN 338
                              4555555566667889999*****************55333324888999*******86544....333333......22344455 PP

                              HHHHHSS-HHHHHHHHHHH.TT--HHHHHHHHHTT- CS
                     HDOD 161 eeellgtdhaevGaallek.WnlPeelveaiayhhe 195
                              e ++++ +h+  Ga+ll++  n+P+e+ +++ +hhe
  PHY93_18815|PHY93_18815 339 ELKIWE-NHTISGAELLTRiENIPKEVFQIAMQHHE 373
                              555554.45555555555424677777777777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (444 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       547  (0.0305092); expected 358.6 (0.02)
Passed bias filter:                      343  (0.019131); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.56u 0.22s 00:00:00.78 Elapsed: 00:00:00.42
# Mc/sec: 3161.62
//
Query:       PHY93_18820|PHY93_18820  [L=111]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (111 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       318  (0.0177366); expected 358.6 (0.02)
Passed bias filter:                      294  (0.016398); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.22s 00:00:00.60 Elapsed: 00:00:00.38
# Mc/sec: 881.53
//
Query:       PHY93_18825|PHY93_18825  [L=154]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.023   15.0   0.0       0.04   14.2   0.0    1.5  1  CBFD_NFYB_HMF  Histone-like transcription factor (CBF/NF-Y) a
      0.059   13.3   0.4       0.79    9.7   0.1    2.1  2  CYTL1          Cytokine-like protein 1
       0.15   12.5   4.3       0.25   11.7   4.3    1.3  1  Rhodanese_C    Rhodanase C-terminal
       0.75    9.3   5.1        4.5    6.8   5.1    2.1  1  zf-FLZ         zinc-finger of the FCS-type, C2-C2


Domain annotation for each model (and alignments):
>> CBFD_NFYB_HMF  Histone-like transcription factor (CBF/NF-Y) and archaeal histone
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0     9e-06      0.04      30      60 ..     124     154 .]     108     154 .] 0.87

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 9e-06
                              HHHHHHHHHHHHHHHHHHHCCTTSSCE-HHH CS
            CBFD_NFYB_HMF  30 aecveefieelaseAaeickkekrKtikaeh 60 
                               e+++  +++l+++A+e++  e+rKt++  +
  PHY93_18825|PHY93_18825 124 MEALSRDVRRLTDRAVEKARSEGRKTVMDRD 154
                              578888899******************9765 PP

>> CYTL1  Cytokine-like protein 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   0.1   0.00018      0.79      91     123 ..      21      53 ..       8      57 .. 0.85
   2 ?    2.0   0.0     0.042   1.9e+02      63      93 ..     102     134 ..      68     143 .. 0.71

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.00018
                    CYTL1  91 rklytiinkvcrrdlvfltddcealetpvsvat 123
                              +++y++ n    r lvf + dc  l++pv +++
  PHY93_18825|PHY93_18825  21 NSIYQMCNVSTCRKLVFCSVDCWNLHNPVMNHK 53 
                              579999999999**************9987765 PP

  == domain 2  score: 2.0 bits;  conditional E-value: 0.042
                    CYTL1  63 cvlaklrdflaspkcr..kvarvealkekvrkl 93 
                               v +kl++++ ++         +eal + vr+l
  PHY93_18825|PHY93_18825 102 IVASKLKQYIKDKYDMntAANVMEALSRDVRRL 134
                              466899999965543300344567788888877 PP

>> Rhodanese_C  Rhodanase C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   4.3   5.6e-05      0.25      18      53 ..       8      44 ..       2      53 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 5.6e-05
              Rhodanese_C 18 vgkCieCgkpvdelr.krnCanedCnelvlvCeeCae 53
                               kC  C+k+    + ++ C+ ++C++lv+++ +C +
  PHY93_18825|PHY93_18825  8 WRKCGSCKKEIGFNSiYQMCNVSTCRKLVFCSVDCWN 44
                             679*******995558*******************75 PP

>> zf-FLZ  zinc-finger of the FCS-type, C2-C2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.8   5.1     0.001       4.5       8      43 ..       3      42 ..       1      46 [. 0.71

  Alignments for each domain:
  == domain 1  score: 6.8 bits;  conditional E-value: 0.001
                   zf-FLZ  8 etahfLsaCflCkkkLgegkDiymYrGdka....FCSeeC 43
                             + +++ ++C+ Ckk++g +    m    +     FCS +C
  PHY93_18825|PHY93_18825  3 QVNNYWRKCGSCKKEIGFNSIYQMCNVSTCrklvFCSVDC 42
                             568999**********988644455544423333999999 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (154 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1263  (0.0704445); expected 358.6 (0.02)
Passed bias filter:                      570  (0.0317921); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.45u 0.21s 00:00:00.66 Elapsed: 00:00:00.39
# Mc/sec: 1175.33
//
Query:       PHY93_18830|PHY93_18830  [L=203]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.9e-10   40.5   0.4    3.7e-09   36.9   0.4    2.1  1  CTP_transf_like  Cytidylyltransferase-like
  ------ inclusion threshold ------
      0.066   13.0   0.0       0.15   11.9   0.0    1.6  1  ScsC_N           Copper resistance protein ScsC N-terminal do
       0.11   12.2   0.0       0.18   11.5   0.0    1.3  1  Nitr_red_bet_C   Respiratory nitrate reductase beta C-termina


Domain annotation for each model (and alignments):
>> CTP_transf_like  Cytidylyltransferase-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.9   0.4   6.3e-13   3.7e-09       1     140 [.      45     203 .]      45     203 .] 0.76

  Alignments for each domain:
  == domain 1  score: 36.9 bits;  conditional E-value: 6.3e-13
                              EEEE--TT--HHHHHHHHHHHHHSSESEEEEEESSTHCSST-SCSSTHHHHHHHHHHH.TTCTTEEEEEEESEHH.......HHHH CS
          CTP_transf_like   1 lagGtFDpiHlGHlrlleqakklleedlivgvpsdeppkkkkkplasaeeRlemlela.kevdevisvdpweltr.......evlk 78 
                              ++gG+F+p+HlGH + l+    l  e+ i +vp  +p k   ++ a+++     l +  k++++ + + +    +       ++l 
  PHY93_18830|PHY93_18830  45 FFGGSFNPFHLGHRACLD----LCPEKNILIVPDRNPFKAAMESSANVYSDFLALAHElKDTPYSLYPGFLG--QnlpnptaSWLP 124
                              69***********98775....66775555567666666665666666555544444426666644444444..345999995555 PP

                              HTTTTEEEEEEEHHHHHHHHCHHHHHHHHH.HHHHEEEEEE................HTTCEEEEEEECCTTTCSHHHH CS
          CTP_transf_like  79 klkpdklylvigadvledfsewkeleeilg.nvklvvvsrp................ekqanvllkaekrtngiSstki 140
                                k+++  l+ig+d+++++ +wk+ e il+   kl vv r                 + + +v+++a+ ++++iSst++
  PHY93_18830|PHY93_18830 125 LVKIKEKNLLIGDDSYMSLLTWKNPEVILKaLTKLYVVPRIykrddylkqereilklNPNLEVHYLADHPYKNISSTDL 203
                              55555558******************999725689999888***************99999****************85 PP

>> ScsC_N  Copper resistance protein ScsC N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   2.5e-05      0.15      15      27 ..     147     159 ..     146     160 .. 0.95

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 2.5e-05
                   ScsC_N  15 eNPEiLvEAlqaL 27 
                              +NPE++++Al++L
  PHY93_18830|PHY93_18830 147 KNPEVILKALTKL 159
                              7**********98 PP

>> Nitr_red_bet_C  Respiratory nitrate reductase beta C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   3.1e-05      0.18      36      69 ..     142     176 ..     139     183 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 3.1e-05
           Nitr_red_bet_C  36 nLltAGdeepvekaLkrllam.RaymRaknvegea 69 
                              +Llt  + e++ kaL++l ++ R+y+R++ +++e+
  PHY93_18830|PHY93_18830 142 SLLTWKNPEVILKALTKLYVVpRIYKRDDYLKQER 176
                              699999************9888******9998875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (203 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       354  (0.0197445); expected 358.6 (0.02)
Passed bias filter:                      334  (0.018629); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1476.49
//
Query:       PHY93_18835|PHY93_18835  [L=195]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.063   13.7   0.1       0.14   12.6   0.1    1.6  1  OmpA      OmpA family


Domain annotation for each model (and alignments):
>> OmpA  OmpA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.1   7.6e-06      0.14       2      65 ..      52     123 ..      51     147 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 7.6e-06
                              B-TTS--B-GGGHHHHHHHHHHHH..S-S--EEEEE---S....---HHH.....HHHHHHHHHHHHHHHHHH.TT CS
                     OmpA   2 FapgsseLtpkaksaldkiaellk..kpeqkitveGhtda....agseer.....nweLSqkRAeaVanylqn.eg 65 
                              Fa ++s+L++  +++++++++  k      ki+v   +d+    +            +L+ +RA+ +++ + +  g
  PHY93_18835|PHY93_18835  52 FAANQSRLSAIDQKKISDMVKMAKtmGRIAKIEVAVWSDKelalK----GdlpkaDRDLALERAKYIKEIINElTG 123
                              99***************9999999654456688888899855542....344446**************9998555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (195 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       854  (0.0476323); expected 358.6 (0.02)
Passed bias filter:                      538  (0.0300073); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1431.16
//
Query:       PHY93_18840|PHY93_18840  [L=57]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (57 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       181  (0.0100954); expected 358.6 (0.02)
Passed bias filter:                      166  (0.00925874); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.40
# Mc/sec: 431.26
//
Query:       PHY93_18845|PHY93_18845  [L=278]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.1e-10   39.4   0.5    4.3e-09   36.4   0.0    2.3  2  Phage_integrase  Phage integrase family
  ------ inclusion threshold ------
      0.077   13.3   0.1       0.15   12.3   0.1    1.6  1  Phage_int_SAM_3  Phage integrase, N-terminal SAM-like domain
      0.089   12.7   0.1       0.19   11.6   0.1    1.5  1  DUF951           Bacterial protein of unknown function (DUF95


Domain annotation for each model (and alignments):
>> Phage_integrase  Phage integrase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   0.2     0.046   2.7e+02     150     162 ..     115     127 ..       6     137 .. 0.82
   2 !   36.4   0.0   7.1e-13   4.3e-09       2     109 ..     167     277 ..     166     278 .] 0.91

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.046
                              HHHHHHT-SSCCH CS
          Phage_integrase 150 vvqkllGHssist 162
                               +qk ++H+s+s+
  PHY93_18845|PHY93_18845 115 LIQKQMAHRSVSH 127
                              5788888888886 PP

  == domain 2  score: 36.4 bits;  conditional E-value: 7.1e-13
                              HHHHHHHHHHHHCCGCHHHHHHHHHHHHHHHHT--HHHHTT-BGGGEECTTTEEEEE........EEECSSSSEEEEECTHHHHHH CS
          Phage_integrase   2 vltedeverllaaleeslkirdklllellyetGlRisEllsLrvkdldlengvilvh........eregKgskeravplseealel 79 
                              vlt+++++ ll+ ++   +++ + + ++++ tG+R +El +L+++ ++le+++ilv+         + +K++ +r v +  e+l  
  PHY93_18845|PHY93_18845 167 VLTQEQIKILLTQAKI-MDCEWYPIWATALYTGMRNGELYALTWDKVNLEQRRILVDsswnsddgFKDTKSGDDRLVEIAPELLFI 251
                              89**************.**********************************************999999***************99 PP

                              HHHHHHHHCHCCTTTSBSSBETTSSB--HH CS
          Phage_integrase  80 lkellskaleeaeksellfaskrgkplsrq 109
                              lkel  k      +s++++++ +++ +s+q
  PHY93_18845|PHY93_18845 252 LKELKLKG----HDSNFVLPRIDKWDKSEQ 277
                              99998877....777888877777776665 PP

>> Phage_int_SAM_3  Phage integrase, N-terminal SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.1   2.6e-05      0.15       3      57 ..      64     119 ..      62     120 .. 0.91

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 2.6e-05
                              HHHHHHHHHH.HHHHH-HHHHHHHHHHHTTTHHHHTTSSBGGG--HHHHHHHHHHH CS
          Phage_int_SAM_3   3 sefleeWlee.ykprvkesTyatyksiiknhIlPyFgniklkkItpadiqkfqnel 57 
                              +e++  ++++  + +v+ +T+++y+  ++ h l   g++ +++It+ +i++++++ 
  PHY93_18845|PHY93_18845  64 NELVRDYIADlSQRDVSRKTVDSYRLCLEAHTLKLWGEKLIDEITSFEIRELIQKQ 119
                              68888999996669*************************************99986 PP

>> DUF951  Bacterial protein of unknown function (DUF951)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.1   3.2e-05      0.19       6      43 ..      13      50 ..      11      59 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 3.2e-05
                   DUF951  6 ivemKKpHPCgsneweilRvGadiklkClgcgrevmlp 43
                             iv   K HP   +   i+R G++ k++  + +++++l+
  PHY93_18845|PHY93_18845 13 IVSYSKRHPVTRKPLSIIRKGIKTKIEAGRVEKQLVLE 50
                             68888**********************99999988875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (278 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       484  (0.0269954); expected 358.6 (0.02)
Passed bias filter:                      342  (0.0190752); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 2034.75
//
Query:       PHY93_16605|PHY93_16605  [L=450]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.14   12.4   0.1        0.5   10.6   0.1    1.9  1  HD        HD domain


Domain annotation for each model (and alignments):
>> HD  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.1   2.8e-05       0.5       2      94 ..     278     377 ..     277     392 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 2.8e-05
                              HHHHHHHHHHHHHHHHHHHH..HHHHHHHHHHHHHTTTTHHHHTS..HHH............HHHCTCCHHHHHHHHHHHHHHHHH CS
                       HD   2 leHsleVaklarrlaedlge..eedrellllaaLlHDiGkgpfgdafekk............eeefekflaHekvgaeilrevekr 73 
                              + Hs+    ++ +   + +      +++l ++a +HDi    +     ++             e++++ l+H+  +a i+ ++++ 
  PHY93_16605|PHY93_16605 278 YSHSYLCSLILHKVVTSFDWqtSQIKDKLTFIAFFHDISLKENCM---RYssdaevansnlsNEDKKIVLSHANLSAAIVDKFPNA 360
                              567777777777777777767756678888999999997655333...33333455567764444999****************** PP

                              HHHHHHHHHHHHHTTCCHHHH CS
                       HD  74 lgldledvaklirehhesweg 94 
                              ++     + ++ +ehh+s++g
  PHY93_16605|PHY93_16605 361 PQG----IGAILKEHHGSKNG 377
                              *55....**********9985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (450 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       619  (0.0345251); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.25s 00:00:00.79 Elapsed: 00:00:00.42
# Mc/sec: 3183.52
//
Query:       PHY93_18850|PHY93_18850  [L=79]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.4e-11   44.4   0.0    1.7e-11   44.1   0.0    1.1  1  HTH_17    Helix-turn-helix domain


Domain annotation for each model (and alignments):
>> HTH_17  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.1   0.0   9.2e-16   1.7e-11       1      50 [.      24      73 ..      24      74 .. 0.96

  Alignments for each domain:
  == domain 1  score: 44.1 bits;  conditional E-value: 9.2e-16
                   HTH_17  1 lltveEaAelLgvsrstvyrlirrgelpaakiGrrwriprsdleewlekr 50
                             +lt  EaA++L++s++ + +l ++g++p++k Gr+ r+  s+l e l+++
  PHY93_18850|PHY93_18850 24 MLTSIEAADYLRISVARLMNLTSNGKIPYYKFGRSNRYLISELKELLMSQ 73
                             69999******************************************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (79 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       523  (0.0291706); expected 358.6 (0.02)
Passed bias filter:                      419  (0.02337); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.40
# Mc/sec: 591.91
//
Query:       PHY93_18855|PHY93_18855  [L=195]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (195 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       846  (0.0471861); expected 358.6 (0.02)
Passed bias filter:                      413  (0.0230353); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1493.96
//
Query:       PHY93_18860|PHY93_18860  [L=216]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.16   11.9   0.3        2.7    7.9   0.3    2.2  1  DUF1348   Protein of unknown function (DUF1348)


Domain annotation for each model (and alignments):
>> DUF1348  Protein of unknown function (DUF1348)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9   0.3   0.00015       2.7      56      98 ..     152     194 ..      86     206 .. 0.82

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.00015
                  DUF1348  56 kkwekeldyrlikelfaftdnriavrfayeykdesgqwfrsyG 98 
                              ++w   l+  l+++lf+ftd+ i     +ey +++  ++   G
  PHY93_18860|PHY93_18860 152 TRWLYTLKESLQRNLFCFTDKTIKKAKDFEYLESERIFYEMIG 194
                              567788888999***********99999999998888877666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (216 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       628  (0.0350271); expected 358.6 (0.02)
Passed bias filter:                      358  (0.0199677); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1599.10
//
Query:       PHY93_18865|PHY93_18865  [L=104]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (104 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1002  (0.0558871); expected 358.6 (0.02)
Passed bias filter:                      477  (0.0266049); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 793.04
//
Query:       PHY93_18870|PHY93_18870  [L=296]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (296 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       590  (0.0329076); expected 358.6 (0.02)
Passed bias filter:                      434  (0.0242066); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.24s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 2298.33
//
Query:       PHY93_18875|PHY93_18875  [L=439]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      1e-14   54.9   0.0    2.8e-14   53.5   0.0    1.8  1  AlbA_2    Putative DNA-binding domain


Domain annotation for each model (and alignments):
>> AlbA_2  Putative DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.5   0.0   1.6e-18   2.8e-14       1     121 [.      27     146 ..      27     147 .. 0.86

  Alignments for each domain:
  == domain 1  score: 53.5 bits;  conditional E-value: 1.6e-18
                   AlbA_2   1 EdellEfKeslgnklkkrersiakticAfaNsegGtlliGVe.D.....dgkvvGvecsdqeedqlrlelksiikrfkpkvlp.di 79 
                              E  ++E+K+++ +++      +ak+i++faN+egG+++iGV  D      ++++G+  +  e + ++ +++si  +++p + + ++
  PHY93_18875|PHY93_18875  27 EGWFIEYKSQIPDSKA-----LAKSISSFANQEGGWVFIGVLsDnqtntAKEICGF--TMPENNIDDWIRNSIVGNISPCPFFeSL 105
                              6789********9999.....********************84555544444****..77777777788888********999667 PP

                   AlbA_2  80 ervelkgkkvlvvkvekskkkplyeneegvvyiRrggsskrl 121
                              +  +  g+ v +++vek+ + p y ++eg++++R+g+ s ++
  PHY93_18875|PHY93_18875 106 FVTNEAGVNVAIIRVEKGFNTP-YVHSEGKIFVRNGAGSMPI 146
                              77888899**************.*************998776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (439 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       424  (0.0236488); expected 358.6 (0.02)
Passed bias filter:                      292  (0.0162865); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.21s 00:00:00.76 Elapsed: 00:00:00.42
# Mc/sec: 3130.60
//
Query:       PHY93_18880|PHY93_18880  [L=414]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.7e-16   58.6   1.6    4.1e-15   56.0   1.6    2.1  1  DUF4238   Protein of unknown function (DUF4238)


Domain annotation for each model (and alignments):
>> DUF4238  Protein of unknown function (DUF4238)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.0   1.6   2.3e-19   4.1e-15       1     272 [.       8     291 ..       8     292 .. 0.79

  Alignments for each domain:
  == domain 1  score: 56.0 bits;  conditional E-value: 2.3e-19
                  DUF4238   1 khHyvPrfyLknFakd..................knklvnvydletkkieersvkricgekdmYtiknedsgedpnhiE.ktlakl 67 
                              ++HyvP++y ++F                     +n++     + +k+i+    ++ ++++d+Yt k++  ++  ++iE k+++++
  PHY93_18880|PHY93_18880   8 RNHYVPQWYQERFLPPnrerkffyldlrpdvilaENGKK----YPRKNIRRLGAASCFYQEDLYTTKFN--DWSSTEIEqKFFGNV 87 
                              68************4454555555554444333212221....12233446677888999999999999..5************** PP

                  DUF4238  68 EskaakiirkilkegkstrtltreerkqlrkflfllkyRtprfreeydtedkeelesymrekkkfekpldelldelkvildtkvdl 153
                              + k  +++  + +   +   + +++  +++  l ++k+Rtp+                 r+ +++ +++d  ++++   l++  +l
  PHY93_18880|PHY93_18880  88 DFKGLEAVSYLSE--FTYPNWRPSKHLDFLRYLSIQKLRTPKGL---------------RDFQRLINTTD--HNTILFRLQQLQQL 154
                              *************..9999999999999999**********999...............33334444444..22233333333333 PP

                  DUF4238 154 eetllqeafeddaewfikhleelywalleassded.FitsDnPvflrndestgeeglsaysey........hillPlspkllLvlr 230
                              +            ++f     e+ w++  a+s+e  Fi+sD+Pv+++n++     ++ +            h ++Pls + +L+l+
  PHY93_18880|PHY93_18880 155 Q------------AMFCATWSECVWQIGNANSSETkFIISDHPVTVYNRKCLPGSKECNGMLDpdvrmngtHTIFPLSHEKILILT 228
                              3............56888999**************************888776655554444468899999*************** PP

                  DUF4238 231 snsleeekedake......................iekisreyvkkiNaillqnAkkfiiardk 272
                              + s +++  +a++                       +  ++++v+++N i+ + A +fi+a  k
  PHY93_18880|PHY93_18880 229 NLSWARN-PSANPlklrpnpslfresvidvrtiqvDRDLDEQEVREMNFIIKKGASRFIAAAEK 291
                              *****95.566778********************9999*********************99876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (414 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       522  (0.0291148); expected 358.6 (0.02)
Passed bias filter:                      433  (0.0241508); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.23s 00:00:00.80 Elapsed: 00:00:00.42
# Mc/sec: 2956.72
//
Query:       PHY93_18885|PHY93_18885  [L=48]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (48 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       183  (0.0102069); expected 358.6 (0.02)
Passed bias filter:                      158  (0.00881254); expected 358.6 (0.02)
Passed Vit filter:                         3  (0.000167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.37u 0.22s 00:00:00.59 Elapsed: 00:00:00.39
# Mc/sec: 370.95
//
Query:       PHY93_18890|PHY93_18890  [L=92]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (92 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       513  (0.0286129); expected 358.6 (0.02)
Passed bias filter:                      313  (0.0174578); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.23s 00:00:00.61 Elapsed: 00:00:00.39
# Mc/sec: 705.68
//
Query:       PHY93_18895|PHY93_18895  [L=202]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.9e-20   72.7   0.6    1.9e-11   43.8   0.7    2.5  2  HTH_3           Helix-turn-helix
    2.4e-16   59.5   4.4    1.9e-08   34.2   2.3    2.4  2  HTH_19          Helix-turn-helix domain
    3.8e-16   59.2   0.0      7e-07   29.5   0.0    2.2  2  HTH_31          Helix-turn-helix domain
    1.6e-07   31.2   0.9     0.0052   16.7   0.0    2.3  2  HTH_37          Helix-turn-helix domain
    2.5e-07   31.1   1.3    0.00019   21.8   0.6    2.3  2  HTH_26          Cro/C1-type HTH DNA-binding domain
    2.7e-06   27.1   1.4     0.0022   17.8   0.4    2.8  2  HTH_25          Helix-turn-helix domain
      0.001   18.8   0.1          1    9.3   0.0    2.7  2  HTH_23          Homeodomain-like domain
     0.0011   18.8   0.0       0.02   14.8   0.0    2.3  2  YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitox
     0.0068   16.3   1.2       0.03   14.3   0.4    2.5  2  Pou             Pou domain - N-terminal to homeobox domain
  ------ inclusion threshold ------
      0.025   14.5   0.4       0.13   12.1   0.1    2.1  2  Sigma70_ECF     ECF sigma factor
       0.18   11.8   0.1       0.18   11.8   0.1    2.3  3  HTH_11          HTH domain


Domain annotation for each model (and alignments):
>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.8   0.7   1.2e-14   1.9e-11       1      54 [.      18      71 ..      18      72 .. 0.97
   2 !   26.5   0.0     3e-09   4.9e-06       1      54 [.     110     163 ..     110     164 .. 0.90

  Alignments for each domain:
  == domain 1  score: 43.8 bits;  conditional E-value: 1.2e-14
                             HHHHHHHTTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHHH CS
                    HTH_3  1 lkelRkqlglsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvslde 54
                             lk+ R  +gls+++LA+kl+v+  +i + En + + s ++l+k+++aL +s ++
  PHY93_18895|PHY93_18895 18 LKKVRILKGLSRKDLAKKLNVTDKAIEKFENARDKLSETRLLKILEALEISYED 71
                             89************************************************9876 PP

  == domain 2  score: 26.5 bits;  conditional E-value: 3e-09
                              HHHHHHHTTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHHH CS
                    HTH_3   1 lkelRkqlglsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvslde 54 
                              lk+lR  ++lsq +++ ++G sr ti +iEnG+ + + e++  +   Lg+++++
  PHY93_18895|PHY93_18895 110 LKALRILRKLSQDKASYLCGYSRPTIGHIENGRIAVDRERIHHIVGCLGLKIED 163
                              89*******************************999999998887777777765 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.2   2.3   1.1e-11   1.9e-08       3      60 ..      17      73 ..      15      77 .. 0.94
   2 !   25.0   0.0   8.8e-09   1.4e-05       2      57 ..     108     162 ..     108     170 .. 0.89

  Alignments for each domain:
  == domain 1  score: 34.2 bits;  conditional E-value: 1.1e-11
                   HTH_19  3 rLkeaReelgltqeelaerlgisrskisaiEngkkdvpsaelllkiaealgidleyll 60
                              Lk++R+ +gl+ ++la++l ++ + i ++En + d++s  +llki+eal+i+ e +l
  PHY93_18895|PHY93_18895 17 VLKKVRILKGLSRKDLAKKLNVTDKAIEKFENAR-DKLSETRLLKILEALEISYEDFL 73
                             69*****************************996.5*****************99988 PP

  == domain 2  score: 25.0 bits;  conditional E-value: 8.8e-09
                   HTH_19   2 erLkeaReelgltqeelaerlgisrskisaiEngkkdvpsaelllkiaealgidle 57 
                              + Lk++R+ ++l+q++ ++ +g sr  i +iEng++   ++e++ +i+  lg+ +e
  PHY93_18895|PHY93_18895 108 RALKALRILRKLSQDKASYLCGYSRPTIGHIENGRI-AVDRERIHHIVGCLGLKIE 162
                              579*********************************.9999999888877777766 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.6   0.0   1.6e-09   2.7e-06       5      57 ..      17      68 ..      15      73 .. 0.92
   2 !   29.5   0.0   4.3e-10     7e-07       5      55 ..     109     158 ..     107     166 .. 0.86

  Alignments for each domain:
  == domain 1  score: 27.6 bits;  conditional E-value: 1.6e-09
                   HTH_31  5 lLralReraGLsqeevAerlgvsestlsrlEqGrrgrpspavlealaralgld 57
                              L+  R   GLs++++A+ l+v+   + + E++r    s+  l ++++al  +
  PHY93_18895|PHY93_18895 17 VLKKVRILKGLSRKDLAKKLNVTDKAIEKFENARD-KLSETRLLKILEALEIS 68
                             688899999**************************.6************9875 PP

  == domain 2  score: 29.5 bits;  conditional E-value: 4.3e-10
                   HTH_31   5 lLralReraGLsqeevAerlgvsestlsrlEqGrrgrpspavlealaralg 55 
                               L+alR  + Lsq+ +  ++g+s+ t++++E+Gr+  + ++ +  ++  lg
  PHY93_18895|PHY93_18895 109 ALKALRILRKLSQDKASYLCGYSRPTIGHIENGRIA-VDRERIHHIVGCLG 158
                              69*********************************5.98888776665555 PP

>> HTH_37  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.6   0.6   6.2e-05       0.1      22      71 ..      17      65 ..       6      68 .. 0.89
   2 !   16.7   0.0   3.2e-06    0.0052      17      75 ..     104     161 ..      93     162 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 6.2e-05
                             HHHHHHHHCT--HHHHHHHHT--HHHHHHHHTT--TT--HHHHHHHHHHT CS
                   HTH_37 22 aiaeliekrelsqseaaqllgiaqPkvsrllrgklsrfsldkLlnlltal 71
                              +++++  ++ls +++a++l+++   + + ++   +++s+++Ll++l+al
  PHY93_18895|PHY93_18895 17 VLKKVRILKGLSRKDLAKKLNVTDKAIEKFEN-ARDKLSETRLLKILEAL 65
                             577777889**********************9.779************98 PP

  == domain 2  score: 16.7 bits;  conditional E-value: 3.2e-06
                              HHHHHHHHHHHHHCT--HHHHHHHHT--HHHHHHHHTT--TT--HHHHHHHHHHTTEEE CS
                   HTH_37  17 aqlalaiaeliekrelsqseaaqllgiaqPkvsrllrgklsrfsldkLlnlltalGqkv 75 
                              ++ ++a+++l+  r+lsq +a  l+g+++P + ++++g++  +  ++  +++  lG+k+
  PHY93_18895|PHY93_18895 104 TKEVRALKALRILRKLSQDKASYLCGYSRPTIGHIENGRIA-VDRERIHHIVGCLGLKI 161
                              678999********************************984.55556666666666665 PP

>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.8   0.6   1.2e-07   0.00019       2      60 ..      18      75 ..      17      77 .. 0.96
   2 !    7.8   0.0    0.0028       4.6       5      57 ..     113     164 ..     108     169 .. 0.85

  Alignments for each domain:
  == domain 1  score: 21.8 bits;  conditional E-value: 1.2e-07
                   HTH_26  2 LrelmadrgitkseLargtgisaatlsrlvkgkpervsldtLdkiCdaLgctpgDLley 60
                             L+++ + +g+++++La++++++   ++++ + + + +s ++L ki +aL+++ +D l++
  PHY93_18895|PHY93_18895 18 LKKVRILKGLSRKDLAKKLNVTDKAIEKFENAR-DKLSETRLLKILEALEISYEDFLKI 75
                             8899999*************************9.9********************9976 PP

  == domain 2  score: 7.8 bits;  conditional E-value: 0.0028
                   HTH_26   5 lmadrgitkseLargtgisaatlsrlvkgkpervsldtLdkiCdaLgctpgDL 57 
                              l + r++++ + +  +g s++t+  + +g++  v+ +++  i   Lg +++D 
  PHY93_18895|PHY93_18895 113 LRILRKLSQDKASYLCGYSRPTIGHIENGRI-AVDRERIHHIVGCLGLKIEDF 164
                              5556666667777899**************9.*******************96 PP

>> HTH_25  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.4   1.3e-06    0.0022       2      34 ..      18      50 ..      17      76 .. 0.91
   2 !    7.5   0.0    0.0022       3.6       2      36 ..     110     144 ..     109     149 .. 0.94

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 1.3e-06
                             HHHHHHTTT--HHHHHHHSS--HHHHHHHHCT- CS
                   HTH_25  2 LraaRearglsleevaketkIrkdylealEedd 34
                             L++ R  +gls++++ak++++  + +e++E+ +
  PHY93_18895|PHY93_18895 18 LKKVRILKGLSRKDLAKKLNVTDKAIEKFENAR 50
                             99****************************975 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0022
                              HHHHHHTTT--HHHHHHHSS--HHHHHHHHCT--T CS
                   HTH_25   2 LraaRearglsleevaketkIrkdylealEeddfd 36 
                              L+a R  r+ls ++++     +  ++ ++E+++++
  PHY93_18895|PHY93_18895 110 LKALRILRKLSQDKASYLCGYSRPTIGHIENGRIA 144
                              99*****************************9875 PP

>> HTH_23  Homeodomain-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.3   0.0   0.00061         1       8      32 ..      15      41 ..       6      49 .. 0.82
   2 !    6.5   0.0    0.0045       7.3       6      37 ..     107     138 ..     103     141 .. 0.75

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.00061
                   HTH_23  8 lrillllae..GlsvreIAreLgvsrr 32
                             +++l+ ++   Gls+++ A++L+v+  
  PHY93_18895|PHY93_18895 15 AKVLKKVRIlkGLSRKDLAKKLNVTDK 41
                             67999999778*************965 PP

  == domain 2  score: 6.5 bits;  conditional E-value: 0.0045
                   HTH_23   6 eRlrillllaeGlsvreIAreLgvsrrTvyrw 37 
                               R++ +l  +++ls+ +++ ++g sr T+ ++
  PHY93_18895|PHY93_18895 107 VRALKALRILRKLSQDKASYLCGYSRPTIGHI 138
                              455544444459****************9877 PP

>> YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.0   1.2e-05      0.02      10      51 ..      28      67 ..      21      73 .. 0.89
   2 ?    1.6   0.0      0.16   2.6e+02      17      44 ..     127     154 ..     120     176 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 1.2e-05
           YdaS_antitoxin 10 gqkaLAealgvsqqaVsqWlkgkkqvpaervpeIekatnGeV 51
                             ++k LA++l+v+ +a++++ + + +++  r ++I +a +  +
  PHY93_18895|PHY93_18895 28 SRKDLAKKLNVTDKAIEKFENARDKLSETRLLKILEALE--I 67
                             6899***************999999*********99876..5 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.16
           YdaS_antitoxin  17 algvsqqaVsqWlkgkkqvpaervpeIe 44 
                              ++g s++++    +g+  v+ er+  I+
  PHY93_18895|PHY93_18895 127 LCGYSRPTIGHIENGRIAVDRERIHHIV 154
                              69999****9999998889999999987 PP

>> Pou  Pou domain - N-terminal to homeobox domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.3   0.4   1.8e-05      0.03       2      61 ..       7      76 ..       6      84 .. 0.82
   2 ?   -1.6   0.0       1.6   2.6e+03      13      26 ..     110     123 ..     101     144 .. 0.62

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.8e-05
                      Pou  2 elkeleefakefkqkRiklgltQadvglaLgklygk..ef.......Sqt.tIcrFEkLdlslknmlklk 61
                             e+k +e  ak +k+ Ri  gl+ +d++++L+ +     +f       S t  ++ +E+L++s++  lk+k
  PHY93_18895|PHY93_18895  7 EQKRIESNAKVLKKVRILKGLSRKDLAKKLNVTDKAieKFenardklSETrLLKILEALEISYEDFLKIK 76
                             68999*************************9876443366777788876625667899999999999987 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 1.6
                      Pou  13 fkqkRiklgltQad 26 
                              +k  Ri   l+Q +
  PHY93_18895|PHY93_18895 110 LKALRILRKLSQDK 123
                              55555555555543 PP

>> Sigma70_ECF  ECF sigma factor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.1     8e-05      0.13     145     180 ..      20      54 ..       7      58 .. 0.82
   2 ?   -0.2   0.0       0.5   8.1e+02      78      94 ..     168     184 ..     166     186 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 8e-05
              Sigma70_ECF 145 elrkleGlsveEiAeklgvskrtverrlalaRawle 180
                               +r l+Gls +++A+kl+v  +++e+ ++ aR +l+
  PHY93_18895|PHY93_18895  20 KVRILKGLSRKDLAKKLNVTDKAIEK-FENARDKLS 54 
                              5899********************97.777887775 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.5
              Sigma70_ECF  78 laaeamrrilidhaRrr 94 
                              l ae+mr  +id+ R +
  PHY93_18895|PHY93_18895 168 LNAEVMRHEVIDQCRNK 184
                              5689*********9975 PP

>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.1   0.00011      0.18       6      33 ..      18      44 ..      15      45 .. 0.80
   2 ?   -2.2   0.0       2.6   4.2e+03       1       9 [.      57      65 ..      57      72 .. 0.75
   3 ?   -2.4   0.1         3   4.8e+03       2      11 ..     109     118 ..     107     124 .. 0.58

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00011
                   HTH_11  6 lelLleargpisgeeLAeeLnvSrrtvr 33
                             l+ ++  +g +s ++LA++Lnv+ +++ 
  PHY93_18895|PHY93_18895 18 LKKVRILKG-LSRKDLAKKLNVTDKAIE 44
                             555555676.9**************996 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 2.6
                   HTH_11  1 RllqilelL 9 
                             Rll+ile L
  PHY93_18895|PHY93_18895 57 RLLKILEAL 65
                             778888877 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 3
                   HTH_11   2 llqilelLle 11 
                              +l+ l++L++
  PHY93_18895|PHY93_18895 109 ALKALRILRK 118
                              5555555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (202 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1152  (0.0642534); expected 358.6 (0.02)
Passed bias filter:                      640  (0.0356964); expected 358.6 (0.02)
Passed Vit filter:                        63  (0.00351386); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.42
# Mc/sec: 1459.21
//
Query:       PHY93_16610|PHY93_16610  [L=273]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.6e-16   58.8   0.0    8.1e-16   58.3   0.0    1.2  1  ATP_bind_3    PP-loop family
    1.9e-06   27.2   0.0      3e-06   26.6   0.0    1.2  1  NAD_synthase  NAD synthase
     0.0095   15.5   0.3      0.085   12.3   0.1    2.7  2  QueC          Queuosine biosynthesis protein QueC
  ------ inclusion threshold ------
      0.012   15.7   0.3      0.049   13.7   0.3    2.1  1  PAPS_reduct   Phosphoadenosine phosphosulfate reductase famil


Domain annotation for each model (and alignments):
>> ATP_bind_3  PP-loop family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.3   0.0   1.8e-19   8.1e-16       1     156 [.      33     192 ..      33     199 .. 0.84

  Alignments for each domain:
  == domain 1  score: 58.3 bits;  conditional E-value: 1.8e-19
                              EEEEE--SCHHHHHHHHHHHHHCTTTTT..EEEEEEEE-SSSTCHHHHHHHHHHHHHHTT-EEEEEE--H......HHCTTSTCCC CS
               ATP_bind_3   1 kvlvAvSgGlDSmaLllllaklkkklgi..klvaihvdhglreeskeeaelvkelckklnikleiekvdv......akkkgknlee 78 
                              +++v+vSgG DS++L+lll++ +kk  +  ++ a+++d   +++   + ++ k++ ++ +ikl+i + d+      ++  g +   
  PHY93_16610|PHY93_16610  33 HIMVGVSGGKDSTVLTLLLKEIQKKAPMnfSFEAVMLD---QKQPGFDVQAFKAFMAEQQIKLTILEEDTysivkeKTAVGGTYCS 115
                              589*********************99995566777776...45667889999**************99999988765555788888 PP

                              HHHHHHHHHHHHCHHCCT.CEEE---BHHHHHHHHHHHHCCT--CCHHH-S-SEEEETTCCEE-CCCT--HHHHHHHH CS
               ATP_bind_3  79 aARelRYevlkealkkegievlllAhhadDqaEtfllrlargsglaglagikeaseiasirlvRPlLkvskeeleeyl 156
                                 +lR  +l +++++++++ ++l+hh+dD + tf+l+++  sg+ g +  k +s+ +   ++RPl  v  +++ e++
  PHY93_16610|PHY93_16610 116 LCSRLRRGILYNYAHQNNFTKIALGHHRDDMIQTFMLNIFY-SGKLGSMPPKLYSKDHRNIVIRPLAFVAENDIIELA 192
                              9999************************************9.444344444445555668899*******99998876 PP

>> NAD_synthase  NAD synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.6   0.0   6.6e-10     3e-06       5     129 ..      18     141 ..      14     151 .. 0.78

  Alignments for each domain:
  == domain 1  score: 26.6 bits;  conditional E-value: 6.6e-10
                              HHHHHHHHHHHCTTSEEEEEE-SSHHHHHHHHHHHHHH....TCGEEEEEE--SSSTTHHHHHHHHHHHHHHTSEEEE---HHHHH CS
             NAD_synthase   5 lvdflkeyvkkagakgvvlGlSGGvDSslvaalavkal....gkenvlalllPssvsseedvedalalaenlgievktidikpivr 86 
                              ++  l ey   a+ + +++G+SGG DS++   l +++      +  + a++l +++++  dv++ +a++ + +i+ + ++ +++++
  PHY93_16610|PHY93_16610  18 ITRALSEYHMIAPDDHIMVGVSGGKDSTVLTLLLKEIQkkapMNFSFEAVML-DQKQPGFDVQAFKAFMAEQQIKLTILE-EDTYS 101
                              56667777777777899***************99998833223345678888.99999**********999888887776.78888 PP

                              HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHTEEEB---B CS
             NAD_synthase  87 afeqelkeakedlakgNlkaRiRmailyaianklnllvlgTgn 129
                              ++++++       +   l++R+R  ily++a++ n   ++ g+
  PHY93_16610|PHY93_16610 102 IVKEKTAVGG---TYCSLCSRLRRGILYNYAHQNNFTKIALGH 141
                              8888777666...6788**************998876655555 PP

>> QueC  Queuosine biosynthesis protein QueC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.0      0.13   5.9e+02     150     174 ..       2      26 ..       1      31 [. 0.83
   2 !   12.3   0.1   1.9e-05     0.085       3      70 ..      35     106 ..      33     205 .. 0.84

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.13
                              S--EEE-TTTT--HHHHHHHHHHTT CS
                     QueC 150 kkieieaPlidlsKaeivklgkelg 174
                              ++i+i +Pl    +++i ++  e+ 
  PHY93_16610|PHY93_16610   2 NEINIDTPLAIKVRKQITRALSEYH 26 
                              6899*****9999999999887765 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 1.9e-05
                              EEE--SSHHHHHHHHHHHHH-SEEEEEEEESS.....-T.TSHHHHHHHHHHHHT--.-EEEEE-GGGGGGSCG CS
                     QueC   3 vvllSGGlDSttvlalakkegkevealtfdYg.....qr.hkkeleaakkiakelgveehkildldllkelggs 70 
                              +v +SGG DSt++++l k+ +++ + ++f+++     q+    +++a+k++++e+++ + +il+ d+++ ++++
  PHY93_16610|PHY93_16610  35 MVGVSGGKDSTVLTLLLKE-IQKKAPMNFSFEavmldQKqPGFDVQAFKAFMAEQQI-KLTILEEDTYSIVKEK 106
                              6889******988777665.5555666666642222266456788899999999998.8888887777666655 PP

>> PAPS_reduct  Phosphoadenosine phosphosulfate reductase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.3   1.1e-05     0.049       2      48 ..      34      86 ..      33     204 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1.1e-05
                             EEEE--SSCTCHHHHHHHHHHCTTH......EEEEEE-STB-HHHHHHHHHHH CS
              PAPS_reduct  2 lvvsvsgGkdslVllhLalkafkpv......pvvfvdtghefpetiefvdele 48
                             ++v vsgGkds+Vl  L+ +++k++      + v +d+++   ++ +f   ++
  PHY93_16610|PHY93_16610 34 IMVGVSGGKDSTVLTLLLKEIQKKApmnfsfEAVMLDQKQPGFDVQAFKAFMA 86
                             7899*****************99975556656666666665555555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (273 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       521  (0.0290591); expected 358.6 (0.02)
Passed bias filter:                      457  (0.0254894); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.42
# Mc/sec: 1956.07
//
Query:       PHY93_18900|PHY93_18900  [L=72]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (72 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       223  (0.0124379); expected 358.6 (0.02)
Passed bias filter:                      165  (0.00920297); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.20s 00:00:00.61 Elapsed: 00:00:00.39
# Mc/sec: 547.66
//
Query:       PHY93_18905|PHY93_18905  [L=465]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (465 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1450  (0.0808746); expected 358.6 (0.02)
Passed bias filter:                      644  (0.0359195); expected 358.6 (0.02)
Passed Vit filter:                        59  (0.00329076); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.62u 0.24s 00:00:00.86 Elapsed: 00:00:00.41
# Mc/sec: 3392.75
//
Query:       PHY93_18910|PHY93_18910  [L=272]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.8e-08   33.5   6.2    7.7e-08   32.8   6.2    1.3  1  Abi_2           Abi-like protein
  ------ inclusion threshold ------
      0.046   13.6  12.2       0.11   12.4  12.2    1.7  1  HEPN_RiboL-PSP  RiboL-PSP-HEPN
       0.22   11.9   2.0       0.72   10.2   2.0    2.1  1  HEPN_Swt1       Swt1-like HEPN
        1.1    9.8   9.0         12    6.4   9.0    2.3  1  HEPN_Apea       Apea-like HEPN


Domain annotation for each model (and alignments):
>> Abi_2  Abi-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.8   6.2   1.7e-11   7.7e-08      25     178 ..      35     217 ..      15     218 .. 0.67

  Alignments for each domain:
  == domain 1  score: 32.8 bits;  conditional E-value: 1.7e-11
                    Abi_2  25 kf.k..gttfeeilalykfDrkLrslllkaieriEialrtaiayels.kedeeayldsdnfkkkkkkkkekkk....liekiekei 102
                               + +  ++t  + ++ y+++++L++ +++ i+ +Ei lr+ i+ + + + +e+  +  +nf+ ++  ++++k+    l ++  +++
  PHY93_18910|PHY93_18910  35 SYnHlgNHTTCQQIRKYQYNMRLSLEFFNLISFLEILLRNSISSAWAnHLKEDFPMIHSNFELNFGYETDSKTkvfkL-DRRGNKV 119
                              4533556677777888**************************999998667777777888888888777766666643.5555555 PP

                    Abi_2 103 ersk.esfikhykkky...........nkeiPlWvlvevlsfGtlsklykllk..........kkdkkeiakefgl.......... 156
                              + ++ e+++k yk              n+++    ++ ++ f    +++++ +          +           +          
  PHY93_18910|PHY93_18910 120 KTKQfENILKAYKAGSktantqsramiNGDVISNLMFGFWRFCFDAHFISINQtqiswifphhD-----------Mnkrkpeavak 194
                              4444566888888333334444555555566666666666666666666655533333333220...........12233333445 PP

                    Abi_2 157 .leswlkslkklRNicAHhsrlw 178
                               ++ +l+ +++lRN++AHh+ ++
  PHY93_18910|PHY93_18910 195 kVRIMLDEINDLRNRIAHHDKIF 217
                              5799****************998 PP

>> HEPN_RiboL-PSP  RiboL-PSP-HEPN
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4  12.2   2.5e-05      0.11      72     188 ..      96     237 ..      41     242 .. 0.55

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 2.5e-05
           HEPN_RiboL-PSP  72 likhllkssalklldwkkknpkkeiikelfklfgenisekinkafidtesnlkskvleeifk........................ 133
                                                          l++++  + ++k+ k +    + +k+k++e+i+k                        
  PHY93_18910|PHY93_18910  96 E---------------------------LNFGYETDSKTKVFK-LDRRGNKVKTKQFENILKaykagsktantqsramingdvisn 153
                              2...........................222222233333333.444444444444444444222222222222222222222222 PP

           HEPN_RiboL-PSP 134 ......rlglekskkeskk.........................kklnelvkrRNeIAHgndsdtdltkdelee.yidfikelvea 187
                                    r+ ++  + ++ +                           l+e++++RN+IAH +++     k e+ + ++ +i  l++ 
  PHY93_18910|PHY93_18910 154 lmfgfwRFCFDAHFISINQtqiswifphhdmnkrkpeavakkvrIMLDEINDLRNRIAHHDKI---FHKKEIRKvHLFYILTLIKW 236
                              222344555555555555577777788888888888899999*9****************999...77777776666666666666 PP

           HEPN_RiboL-PSP 188 l 188
                              +
  PHY93_18910|PHY93_18910 237 I 237
                              5 PP

>> HEPN_Swt1  Swt1-like HEPN
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   2.0   0.00016      0.72      76     103 ..     196     224 ..      63     237 .. 0.89

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00016
                HEPN_Swt1  76 erslaseLrevRNkwaH.qesfstddayr 103
                               r + +e++++RN++aH  + f ++++ +
  PHY93_18910|PHY93_18910 196 VRIMLDEINDLRNRIAHhDKIFHKKEIRK 224
                              477899***********445777777655 PP

>> HEPN_Apea  Apea-like HEPN
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.4   9.0    0.0027        12      10      97 ..     124     221 ..      41     227 .. 0.55

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.0027
                HEPN_Apea  10 lkralewfgeaireeddedaildlvialEaldllldkkeeitekislrsnaylkedkeerkel....................... 72 
                              ++++l+ ++   ++                                                +                       
  PHY93_18910|PHY93_18910 124 FENILKAYKAGSKT------------------------------------------------Antqsramingdvisnlmfgfwrf 161
                              33333333333333................................................023333333444444444444444 PP

                HEPN_Apea  73 ...............................kkki....kklYdlRSkivHggkikkkdl 97 
                                                              kk+     ++ dlR++i+H++ki++k+ 
  PHY93_18910|PHY93_18910 162 cfdahfisinqtqiswifphhdmnkrkpeavAKKVrimlDEINDLRNRIAHHDKIFHKKE 221
                              444444444444444444444444444444444434455***************997764 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (272 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       620  (0.0345808); expected 358.6 (0.02)
Passed bias filter:                      380  (0.0211947); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.42
# Mc/sec: 1963.40
//
Query:       PHY93_18915|PHY93_18915  [L=68]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (68 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       222  (0.0123822); expected 358.6 (0.02)
Passed bias filter:                      167  (0.00931452); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.37u 0.21s 00:00:00.57 Elapsed: 00:00:00.38
# Mc/sec: 536.26
//
Query:       PHY93_18920|PHY93_18920  [L=71]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (71 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1061  (0.0591779); expected 358.6 (0.02)
Passed bias filter:                      433  (0.0241508); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.23s 00:00:00.63 Elapsed: 00:00:00.40
# Mc/sec: 537.96
//
Query:       PHY93_18925|PHY93_18925  [L=757]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.21   11.9   0.1       0.37   11.1   0.1    1.3  1  DUF3135   Protein of unknown function (DUF3135)


Domain annotation for each model (and alignments):
>> DUF3135  Protein of unknown function (DUF3135)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.1     2e-05      0.37      23      62 ..      15      54 ..      10      68 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 2e-05
                  DUF3135 23 rqelieelIesapeemqrrLrglqfqiDmqlsraknPvaa 62
                             r+++  ++I+s p++m++ L  +qf+i   l++ +  +++
  PHY93_18925|PHY93_18925 15 RRQALLKIISSLPAAMKKELTPMQFKISEDLKKNSEENHT 54
                             8888999********************9999998877765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (757 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       663  (0.0369792); expected 358.6 (0.02)
Passed bias filter:                      455  (0.0253779); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.68u 0.22s 00:00:00.90 Elapsed: 00:00:00.42
# Mc/sec: 5468.31
//
Query:       PHY93_18930|PHY93_18930  [L=835]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (835 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       414  (0.0230911); expected 358.6 (0.02)
Passed bias filter:                      209  (0.0116571); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.66u 0.21s 00:00:00.87 Elapsed: 00:00:00.43
# Mc/sec: 5849.68
//
Query:       PHY93_18935|PHY93_18935  [L=178]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.6e-18   66.9   0.3    2.7e-18   66.2   0.3    1.3  1  Response_reg    Response regulator receiver domain
     0.0038   17.5   0.0     0.0058   16.9   0.0    1.3  1  Hpt             Hpt domain
  ------ inclusion threshold ------
      0.013   15.9   0.3      0.025   14.9   0.3    1.4  1  DUF1894         Domain of unknown function (DUF1894)
      0.067   12.4   1.0       0.11   11.7   0.4    1.6  2  Pox_RNA_pol_35  Poxvirus DNA-directed RNA polymerase, 35 kD s


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.2   0.3   5.9e-22   2.7e-18       1     111 [.       6     117 ..       6     118 .. 0.96

  Alignments for each domain:
  == domain 1  score: 66.2 bits;  conditional E-value: 5.9e-22
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHH..ESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeek..vdlillDinmpgmdGlellkeireedpelpviiltahseee 84 
                              +l+vdDd +++ + + +l++ +y e+ + ++  ea++++ke+   +  i+ D +m +m+Gle+ k+i++   ++p +++t+h + e
  PHY93_18935|PHY93_18935   6 ILCVDDDNDILPIYKLMLKNLDY-EIITYTSCLEAIDYIKENGneIIYIFSDYSMMEMNGLEFRKKINDLGIDIPFVLVTGHYNLE 90 
                              89*********************.9999***********9988668889************************************* PP

                              HHHHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  85 davealkagaddflsKpfdpeeLlkal 111
                              ++++++++ ++ f+ Kpf++ +L+k +
  PHY93_18935|PHY93_18935  91 MTKAGMDLRIQAFVEKPFHEVDLKKLI 117
                              ***********************9987 PP

>> Hpt  Hpt domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0   1.3e-06    0.0058       1      38 [.     133     178 .]     133     178 .] 0.92

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 1.3e-06
                              HHHHHHHHHHHHHHHHHHHHH........SCCHHHHHHHHHHHHHH CS
                      Hpt   1 ellelfleeaeelleqleqal........dqedlqelaraaHtLKG 38 
                              e++  f+ee+   l ++e+++        ++++l+  +r++Ht+KG
  PHY93_18935|PHY93_18935 133 EMVVSFVEESHPMLLEIEDLImslesnpdNANLLNTYFRLLHTIKG 178
                              67889************9999*****987777*************9 PP

>> DUF1894  Domain of unknown function (DUF1894)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.3   5.6e-06     0.025       4      45 ..      23      63 ..      21      73 .. 0.92

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 5.6e-06
                             -HHH--S-SS-EEESSHHHHHHHHTTSEEEEES--EEESSS- CS
                  DUF1894  4 leklkyeillkeasfkeceeyikkkakevyevepgykilgvr 45
                             l++l+yei++  +s  e+ +yik++ +e++++  +y++++++
  PHY93_18935|PHY93_18935 23 LKNLDYEIITY-TSCLEAIDYIKENGNEIIYIFSDYSMMEMN 63
                             6899*****98.9999*********************99875 PP

>> Pox_RNA_pol_35  Poxvirus DNA-directed RNA polymerase, 35 kD subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.4   2.5e-05      0.11      91     135 ..      22      66 ..      18      71 .. 0.91
   2 ?   -1.8   0.0      0.32   1.4e+03     218     224 ..     116     122 ..      93     172 .. 0.54

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 2.5e-05
           Pox_RNA_pol_35  91 slaDfdyyvikkdsklekvdkpkeLketLlhtfqeyrlknlqkie 135
                               l+++dy +i+  s le++d +ke  + ++++f++y + +++ +e
  PHY93_18935|PHY93_18935  22 MLKNLDYEIITYTSCLEAIDYIKENGNEIIYIFSDYSMMEMNGLE 66 
                              6899********************************998877665 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 0.32
           Pox_RNA_pol_35 218 lvadiks 224
                              l++d+ +
  PHY93_18935|PHY93_18935 116 LINDLGD 122
                              3333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (178 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       522  (0.0291148); expected 358.6 (0.02)
Passed bias filter:                      381  (0.0212505); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.54u 0.26s 00:00:00.80 Elapsed: 00:00:00.54
# Mc/sec: 992.42
//
Query:       PHY93_18940|PHY93_18940  [L=488]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    2.1e-18   66.6   0.1    4.2e-18   65.6   0.1    1.5  1  ABC1        ABC1 family
  ------ inclusion threshold ------
        0.1   12.5   0.1       0.23   11.4   0.1    1.5  1  Tudor-knot  RNA binding activity-knot of a chromodomain


Domain annotation for each model (and alignments):
>> ABC1  ABC1 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.6   0.1   4.7e-22   4.2e-18       3     100 ..      50     151 ..      48     167 .. 0.83

  Alignments for each domain:
  == domain 1  score: 65.6 bits;  conditional E-value: 4.7e-22
                     ABC1   3 lgkkleeiFaefdeePiAaASiaqVhrAklksge....eVavKvqrpgvkkriksDlellkllakllkkflkelr.ldleelvdef 83 
                              l+ k  ++F++++e Pi +ASi+qVh+A+lk+g     +Va+K+q+p+vkk+i+s ++ lkl+a ++k  + +    +++  + ++
  PHY93_18940|PHY93_18940  50 LKLKFYDHFTSISE-PIICASIGQVHKAELKTGPasyeAVAIKIQYPNVKKSINSQMQFLKLAAAAAKFGPISKWnISIKSHLLQI 134
                              55566677888876.****************9865666***********************99997766544333589******** PP

                     ABC1  84 skslleEldferEAkna 100
                              + +l eEld+++E kn 
  PHY93_18940|PHY93_18940 135 EARLNEELDYNHELKNL 151
                              *************9986 PP

>> Tudor-knot  RNA binding activity-knot of a chromodomain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1   2.6e-05      0.23       6      38 ..      26      59 ..      20      61 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 2.6e-05
                             EEEEEE.TTSCEEEEEEEEEEETSSCEEEEEEET CS
               Tudor-knot  6 kvlvrk.kdgelrkAeilsirekkgkyeYYVHYe 38
                             k+++++ ++ ++ kAei+si ek+ k ++Y H++
  PHY93_18940|PHY93_18940 26 KIPAMQnQHHSIDKAEIISIIEKELKLKFYDHFT 59
                             44444479999*******************9996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (488 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       620  (0.0345808); expected 358.6 (0.02)
Passed bias filter:                      345  (0.0192426); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.60u 0.24s 00:00:00.84 Elapsed: 00:00:00.46
# Mc/sec: 3220.75
//
Query:       PHY93_18945|PHY93_18945  [L=345]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (345 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       946  (0.0527637); expected 358.6 (0.02)
Passed bias filter:                      358  (0.0199677); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.21s 00:00:00.74 Elapsed: 00:00:00.42
# Mc/sec: 2464.34
//
Query:       PHY93_16615|PHY93_16615  [L=109]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        1.7    8.7   4.0        0.6   10.1   1.3    1.6  2  TraW_N    Sex factor F TraW protein N terminal


Domain annotation for each model (and alignments):
>> TraW_N  Sex factor F TraW protein N terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   1.3   3.3e-05       0.6       3      20 ..       4      21 ..       4      21 .. 0.95
   2 ?   -3.5   0.1      0.66   1.2e+04      12      16 ..      31      35 ..      30      36 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 3.3e-05
                   TraW_N  3 laLaallllapaAyAkdL 20
                             l++++ ++l+++A+A+dL
  PHY93_16615|PHY93_16615  4 LVILSIMALSLSAGAADL 21
                             689**************9 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 0.66
                   TraW_N 12 apaAy 16
                             +paAy
  PHY93_16615|PHY93_16615 31 SPAAY 35
                             89998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (109 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       584  (0.0325729); expected 358.6 (0.02)
Passed bias filter:                      424  (0.0236488); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.20s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 829.82
//
Query:       PHY93_18950|PHY93_18950  [L=355]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.1e-49  167.5   0.1    3.7e-49  166.7   0.1    1.4  1  CheB_methylest  CheB methylesterase
      8e-23   80.7   1.1    3.2e-22   78.8   1.1    2.0  3  Response_reg    Response regulator receiver domain
  ------ inclusion threshold ------
      0.099   12.2   0.1       0.18   11.4   0.1    1.4  1  PrpR_N          Propionate catabolism activator


Domain annotation for each model (and alignments):
>> CheB_methylest  CheB methylesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  166.7   0.1   6.2e-53   3.7e-49       1     169 [.     173     349 ..     173     350 .. 0.94

  Alignments for each domain:
  == domain 1  score: 166.7 bits;  conditional E-value: 6.2e-53
                              EEEEE-TTHHHHHTTTGGGS-TT-SS-EEEEE---TT-HHHHHHHHHHH-SSEEEE--TT-B--TTEEEE--TTSEEEEE...... CS
           CheB_methylest   1 vvigaStGGlealkellaalpedfpaavvvvqhmppsftsslaelLnresslkVkeaedgeelepgrvyvapgdkhllie....la 82 
                              +vig StGG++al ++++++ e++++++++vqhmpp ft++la +L++ s+++V+ea++g+ l++g ++vapgd+h++i+    ++
  PHY93_18950|PHY93_18950 173 IVIGLSTGGPDALAQVFRTIVEKVSVPMLIVQHMPPIFTEKLAAMLSKLSPVEVREAKHGDVLTAGVCFVAPGDYHMTITktgeIH 258
                              79******************888*********************************************************998877 PP

                              ....EE.-.-SS-HHHHHHHHHHHH.GGEEEEE-SBSS-TTHHHHHHHHHTT-EEEEE-GGG-SSBSHHHHHHHTT--S.EEE-GG CS
           CheB_methylest  83 ls..ak.kgerpsiDvlfesaaeaygeraigviLtGmgsDGaeGlkaikeaggltiaqdpesavvpgmPkaaieagavd.evlple 164
                              l+  +k +  rps+Dvl++s+ ++y+++++ +i+tGmg+DGa G k++  +g +t+ q++es++v+gmP a+ ++     + +ple
  PHY93_18950|PHY93_18950 259 LDqtEKvCFVRPSVDVLLNSIVQNYDKQVLNIIMTGMGEDGAIGSKKLSLKGSYTYIQSKESCIVWGMPGAVCKTIGDLaRSIPLE 344
                              7753356777***************************************************************9974447999**9 PP

                              GHHHH CS
           CheB_methylest 165 eiaee 169
                              ei + 
  PHY93_18950|PHY93_18950 345 EIGPL 349
                              99875 PP

>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.8   1.1   5.4e-26   3.2e-22       1     111 [.       3     117 ..       3     118 .. 0.93
   2 ?   -3.4   0.0       1.8   1.1e+04       9      35 ..     209     235 ..     207     244 .. 0.73
   3 ?   -2.4   0.0      0.91   5.4e+03      42      56 ..     281     295 ..     259     313 .. 0.61

  Alignments for each domain:
  == domain 1  score: 78.8 bits;  conditional E-value: 5.4e-26
                              EEEESSSHHHHHHHHHHHH.HTTEEEEEEESSHHHHHHHHHHHH.ESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEE..SSTS CS
             Response_reg   1 vlivdDdplvrellrqlle.eegyeevaeaedgkealellkeek.vdlillDinmpgmdGlellkeireedpelpviilt..ahse 82 
                              +l+vdD+ ++r++++q+l+   ++++ +++ +gk al++lk +  vdli+lD++mp mdGle++keir+ ++++ +i+++  + + 
  PHY93_18950|PHY93_18950   3 ILVVDDSIVFRSAITQALQtIPELNVFKSVVNGKLALDMLKLHPdVDLITLDMEMPIMDGLETIKEIRKFNKDITIIVFSslTVKG 88 
                              8******************889**8899************99988**********************************9533344 PP

                              HHHHHHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  83 eedavealkagaddflsKpfdpeeLlkal 111
                               e ++eal agaddf++K +   +L + l
  PHY93_18950|PHY93_18950  89 AEKTIEALGAGADDFVAKTIGTGQLEESL 117
                              999*******************9998876 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 1.8
                              HHHHHHHHHHHHTTEEEEEEESSHHHH CS
             Response_reg   9 lvrellrqlleeegyeevaeaedgkea 35 
                              ++ e l+ +l +    ev+ea++g+ +
  PHY93_18950|PHY93_18950 209 IFTEKLAAMLSKLSPVEVREAKHGDVL 235
                              566778888887777788888888765 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 0.91
                              HHESEEEEESSCSSS CS
             Response_reg  42 ekvdlillDinmpgm 56 
                              +++d  +l+i m gm
  PHY93_18950|PHY93_18950 281 QNYDKQVLNIIMTGM 295
                              344444444444444 PP

>> PrpR_N  Propionate catabolism activator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1     3e-05      0.18      39     116 ..      39     121 ..       9     128 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 3e-05
                   PrpR_N  39 aellrkhvsvPVv..eikvsgyDilralkqakklgekialvgfen.iikglktlselldldieiytinseee..aeaavkelk 116
                               ++l+ h +v ++  ++++ + D l+ +k+++k ++ i ++ f++ ++kg+++  e+l+   + +  ++  +  +e+ ++++k
  PHY93_18950|PHY93_18950  39 LDMLKLHPDVDLItlDMEMPIMDGLETIKEIRKFNKDITIIVFSSlTVKGAEKTIEALGAGADDFVAKTIGTgqLEESLEKIK 121
                              555665554444411678889************************999*****999999888777777665444666666666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (355 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       447  (0.0249317); expected 358.6 (0.02)
Passed bias filter:                      380  (0.0211947); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.22s 00:00:00.73 Elapsed: 00:00:00.40
# Mc/sec: 2681.84
//
Query:       PHY93_18955|PHY93_18955  [L=650]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.6e-35  122.4  29.2    1.6e-35  122.4  29.2    3.1  3  MCPsignal       Methyl-accepting chemotaxis protein (MCP) sig
    7.5e-19   67.9   0.0    5.8e-12   45.8   0.0    3.8  3  PAS_9           PAS domain
    7.8e-16   58.3   0.0      1e-10   41.8   0.0    3.4  3  PAS_4           PAS fold
    3.4e-08   33.5   0.0    4.4e-07   29.9   0.0    2.8  3  PAS             PAS fold
      1e-06   28.9   0.0      2e-06   28.0   0.0    1.6  1  PAS_3           PAS fold
     0.0004   19.8   0.0        0.2   10.9   0.0    2.4  2  CPSF_A          CPSF A subunit region
     0.0029   18.0   0.1     0.0029   18.0   0.1    4.3  4  Syntaxin_2      Syntaxin-like protein
  ------ inclusion threshold ------
      0.015   15.3   0.1         10    6.0   0.0    3.1  2  Thioredoxin_13  Thioredoxin-like domain
      0.026   14.2   0.0         10    5.8   0.0    2.8  2  DUF1987         Domain of unknown function (DUF1987)
      0.059   13.5   6.1        4.1    7.5   0.0    4.3  5  LPD38           Large polyvalent protein associated domain 38
       0.24   10.7  20.7       0.24   10.7   5.5    2.6  2  DUF3450         Protein of unknown function (DUF3450)
       0.31   11.2   6.2       0.51   10.5   0.3    3.1  3  CREPT           Cell-cycle alteration and expression-elevated
       0.57   10.4  14.1      0.031   14.4   2.2    3.4  2  GCN5L1          GCN5-like protein 1 (GCN5L1)
        0.6   10.2   5.4         12    5.9   0.8    4.2  5  Mis12           Mis12 protein
       0.61   10.7  14.4        1.3    9.6   1.5    3.5  4  Syntaxin-6_N    Syntaxin 6, N-terminal
        2.5    8.4  31.7       0.73   10.1   1.9    5.2  5  DUF948          Bacterial protein of unknown function (DUF948
        3.7    7.4  12.1          1    9.2   1.2    3.3  3  Dynactin_p22    Dynactin subunit p22
        4.3    7.2  12.8        3.6    7.4   3.4    2.9  2  Vip3A_N         Vegetative insecticide protein 3A N terminal
        5.1    7.4  12.2        4.2    7.6   0.2    2.9  2  zf-C4H2         Zinc finger-containing protein
        6.2    6.9  24.7        1.4    8.9   0.9    4.2  4  DUF1664         Protein of unknown function (DUF1664)
        6.7    6.8   6.9         11    6.0   0.9    2.7  2  UPF0242         Uncharacterised protein family (UPF0242) N-te


Domain annotation for each model (and alignments):
>> MCPsignal  Methyl-accepting chemotaxis protein (MCP) signalling domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.3       2.6   2.2e+03     108     125 ..      17      35 ..       3      45 .. 0.40
   2 ?    2.4  12.7      0.14   1.2e+02      87     160 ..     398     467 ..     383     478 .. 0.45
   3 !  122.4  29.2   1.9e-38   1.6e-35       3     167 ..     457     621 ..     455     627 .. 0.94

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 2.6
                              ..HHH.HHHHHHHHHHHHH CS
                MCPsignal 108 sleet.rqrveegselvee 125
                              s ++t +++v+++++++e+
  PHY93_18955|PHY93_18955  17 STKSTkTTQVDNSMHMIES 35 
                              2222102233333333333 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.14
                              HHHHHHHHH..............HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal  87 aakeiealiieiqkeindsvesleetrqrveegselveetgealkeiveavaevadlvqeiaaaseeqsasiee 160
                               a   ++++ +i     +  ++ eet  +++++s   ee +  +++++++++e+ +++++i+++++e s+ ++e
  PHY93_18955|PHY93_18955 398 LASSATNVL-AISS---SLSAAAEETSAQANTASVASEEVNAGVQTVASNMEEMVTSIKDITKTTNEASNMSNE 467
                              333333333.2222...222333444445555555555555555555555555555555555555555554444 PP

  == domain 3  score: 122.4 bits;  conditional E-value: 1.9e-38
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal   3 laeeaseeAeeggkevanvvkqmeeieksskeisdiieVideiadQTNlLALNAaiEAARAGeqGrGFaVVAdEVrkLAersaqaa 88 
                              +++eas+  +e  k  +n+ + ++++ +ss +i ++i+Vi +ia+QTNlLALNA+iEAARAGe+G+GFaVVA+EV++LA+++a+a+
  PHY93_18955|PHY93_18955 457 TTNEASNMSNEAMKLAKNANQIINQLGESSMDIGNVIKVISSIAQQTNLLALNATIEAARAGEAGKGFAVVANEVKELAKQTAKAT 542
                              567888888899999999999***************************************************************** PP

                              HHHHHHH..............HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal  89 keiealiieiqkeindsvesleetrqrveegselveetgealkeiveavaevadlvqeiaaaseeqsasieevnqavee 167
                              ++i++ i+ iq++++++v ++ e  + +e+    + + + +++e +++++ev+ +v+e a  ++++ + i++v+qa + 
  PHY93_18955|PHY93_18955 543 NDITKKIETIQADSKNAVGAIAEISSAIEKVNGYAGNIAASVEEQAATTNEVKRIVSESAEGVKQINENISQVSQAAAS 621
                              *************************************999999999999999999999999999999999999999875 PP

>> PAS_9  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.8   0.0   6.8e-15   5.8e-12       7     104 .]      45     143 ..      39     143 .. 0.86
   2 !    8.4   0.0    0.0029       2.5       4      50 ..     165     217 ..     162     253 .. 0.81
   3 !    9.3   0.0    0.0016       1.3       5      49 ..     286     336 ..     282     341 .. 0.76

  Alignments for each domain:
  == domain 1  score: 45.8 bits;  conditional E-value: 6.8e-15
                    PAS_9   7 dnpdgrilyaNeaalrllGyspeevlgksitdlf...vtdpeanerlraaleqgrkkerevevvlirkngetfwvlltaspvkddd 89 
                               +p+g+il+ N+ +++++Gy++++++gk+ + ++   + ++ + ++l++ l +g   +r  e++ ++k+g  ++  ++  pv +d+
  PHY93_18955|PHY93_18955  45 FDPSGTILDLNNLFAQVMGYTRDDLIGKHHRIFVspsEVASAEYKKLWNDLASGI--PRVAELTRVTKSGASVYLGASYNPVTNDK 128
                              46********************************555555555555555555555..***************************** PP

                    PAS_9  90 gelvgiivilrDite 104
                              g +v++  i +Dit+
  PHY93_18955|PHY93_18955 129 GDVVSVFKIAQDITD 143
                              *************96 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.0029
                    PAS_9   4 ilidnpdgrilyaNeaalrllGys.......peevlgksitdlfvtdpeanerl 50 
                              il+ +pdg ++y+Nea l+ l +        ++ + gksi+++  ++p +++r+
  PHY93_18955|PHY93_18955 165 ILFATPDGVMTYMNEASLKTLKTLeqylpdkAANLAGKSIDWFH-KNPAHQKRI 217
                              56677***677*********98333444444555**********.777777665 PP

  == domain 3  score: 9.3 bits;  conditional E-value: 0.0016
                    PAS_9   5 lidnpdgrilyaNeaalrllG....yspee...vlgksitdlfvtdpeaner 49 
                              ++ +pdg ++y+Nea l+ l     y pe    ++gksi+++  ++p ++++
  PHY93_18955|PHY93_18955 286 MLATPDGLMIYMNEASLKTLKtleqYLPEKaanLVGKSIDWFH-KNPAHQRK 336
                              45569**999*********98544433333556**********.77777765 PP

>> PAS_4  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.8   0.0   1.2e-13     1e-10       9     109 ..      43     145 ..      38     146 .. 0.94
   2 !    8.5   0.0    0.0028       2.4       2      28 ..     159     184 ..     158     212 .. 0.83
   3 ?    3.9   0.0     0.071        60       1      35 [.     278     311 ..     278     335 .. 0.76

  Alignments for each domain:
  == domain 1  score: 41.8 bits;  conditional E-value: 1.2e-13
                    PAS_4   9 avldpdgrvlyaNaaaaelfgappeellGktlaellpee..daarleralrrvlegeepiefleelllpgeerhyelrllPlrdes 92 
                              + +dp g++l++N+ +a+++g+++++l+Gk+ + +++++  + a++   ++ +++g  ++ +l+ ++ +g+ +++  +++P+ +++
  PHY93_18955|PHY93_18955  43 IEFDPSGTILDLNNLFAQVMGYTRDDLIGKHHRIFVSPSevASAEYKKLWNDLASGIPRVAELTRVTKSGASVYLGASYNPVTNDK 128
                              457******************************76666679***********************9999****************** PP

                    PAS_4  93 GevigvlvisrDiTerr 109
                              G+v+ v+ i++DiT+ +
  PHY93_18955|PHY93_18955 129 GDVVSVFKIAQDITDKK 145
                              **************976 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.0028
                    PAS_4   2 dslpdalavldpdgrvlyaNaaaaelf 28 
                              d++p ++++  pdg+++y+N+a+ +  
  PHY93_18955|PHY93_18955 159 DKSPINILFATPDGVMTYMNEASLK-T 184
                              799*******************776.3 PP

  == domain 3  score: 3.9 bits;  conditional E-value: 0.071
                    PAS_4   1 ldslpdalavldpdgrvlyaNaaaaelfgappeel 35 
                              +d++p ++    pdg ++y+N+a+ +    + e++
  PHY93_18955|PHY93_18955 278 VDKSPINTMLATPDGLMIYMNEASLK-TLKTLEQY 311
                              6899999****************766.44444444 PP

>> PAS  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.9   0.0   5.2e-10   4.4e-07      15     113 .]      43     141 ..      31     141 .. 0.93
   2 ?   -1.1   0.0       2.1   1.8e+03      12      29 ..     163     180 ..     153     190 .. 0.76
   3 ?   -2.6   0.0       6.1   5.2e+03       8      29 ..     279     300 ..     276     306 .. 0.74

  Alignments for each domain:
  == domain 1  score: 29.9 bits;  conditional E-value: 5.2e-10
                              EEEETTSBEEEECHHHHHHHSSTHHHCTTSBGGGGBSTTHHH.HHHHHHHHHHHHTT-ECCCCEEEECTTSSEEEEEEEEEEEEET CS
                      PAS  15 fvvDedgrilyvNaaaeellGlsreevlgkslldliheedda.elaelleqlleqgeesrageisfklrdgrpihlevraspvrda 99 
                              +  D +g il  N  +++  G++r++++gk+  +++++ + a   +++l++ l++g ++ a+ +++++  g  ++l    +pv++ 
  PHY93_18955|PHY93_18955  43 IEFDPSGTILDLNNLFAQVMGYTRDDLIGKHHRIFVSPSEVAsAEYKKLWNDLASGIPRVAELTRVTK-SGASVYLGASYNPVTND 127
                              55689********************************99888**********************9999.***************** PP

                              TEEEEEEEEEEEES CS
                      PAS 100 ggeilgflgvlrdi 113
                              +g +  ++ +++di
  PHY93_18955|PHY93_18955 128 KGDVVSVFKIAQDI 141
                              ****9999999997 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 2.1
                              SEEEEEETTSBEEEECHH CS
                      PAS  12 dpifvvDedgrilyvNaa 29 
                                i+    dg+++y+N+a
  PHY93_18955|PHY93_18955 163 INILFATPDGVMTYMNEA 180
                              55667779********98 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 6.1
                              HHSSSEEEEEETTSBEEEECHH CS
                      PAS   8 eslpdpifvvDedgrilyvNaa 29 
                              + +p  +++   dg ++y+N+a
  PHY93_18955|PHY93_18955 279 DKSPINTMLATPDGLMIYMNEA 300
                              5555556677799*******98 PP

>> PAS_3  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.0   0.0   2.4e-09     2e-06       3      86 ..      53     135 ..      51     138 .. 0.94

  Alignments for each domain:
  == domain 1  score: 28.0 bits;  conditional E-value: 2.4e-09
                    PAS_3   3 yvserveeilGyspeellgkveswldlvhpeD.rervrealqealkkgepyegeyRirrkdGeyrwveararvirdengkpvrvi 86 
                               +++ + +++Gy++++l+gk  +++ +v p +  +  +++l++ l++g p   e  +++k+G  +++ a+++++ +++g +v v 
  PHY93_18955|PHY93_18955  53 DLNNLFAQVMGYTRDDLIGK--HHRIFVSPSEvASAEYKKLWNDLASGIPRVAELTRVTKSGASVYLGASYNPVTNDKGDVVSVF 135
                              678899**************..**********99999*************************************99999999875 PP

>> CPSF_A  CPSF A subunit region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.9   0.0   0.00024       0.2     247     298 ..     152     208 ..     125     223 .. 0.75
   2 !    6.2   0.0    0.0064       5.4     233     297 ..     272     327 ..     259     343 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00024
                              S.........-EEEEEE-TTS-EEEEEE.--HHHHHHHHHHHHHHHHHS--SSS--HHHHS CS
                   CPSF_A 247 s.........spqllyatldGsigllvPliseeeyrrlqaLqqqLrkelkhlgGldhrafR 298
                                          ++l+at dG  +    +++e++ ++l++L+q L ++  +l+G ++  f 
  PHY93_18955|PHY93_18955 152 LqrksmsdksPINILFATPDGVMT----YMNEASLKTLKTLEQYLPDKAANLAGKSIDWFH 208
                              0444444444779********988....79************************9887665 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.0064
                              E...EEEE.SSS--S-EEEEEE-TTS-EEEEEE.--HHHHHHHHHHHHHHHHHS--SSS--HHHH CS
                   CPSF_A 233 lrkgslvpgeaesssspqllyatldGsigllvPliseeeyrrlqaLqqqLrkelkhlgGldhraf 297
                               r +++v + +      ++++at dG       +++e++ ++l++L+q L  +  +l+G ++  f
  PHY93_18955|PHY93_18955 272 QRATNMVDK-S----PINTMLATPDGLMI----YMNEASLKTLKTLEQYLPEKAANLVGKSIDWF 327
                              333333333.3....33699999999877....69************************987666 PP

>> Syntaxin_2  Syntaxin-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.5       9.3     8e+03      42      52 ..      14      25 ..       3      41 .. 0.39
   2 ?    5.7   3.4     0.023        19      13      60 ..     445     500 ..     401     516 .. 0.56
   3 ?    2.7   0.6      0.19   1.6e+02      12      60 ..     496     556 ..     486     563 .. 0.53
   4 !   18.0   0.1   3.4e-06    0.0029       5      86 ..     563     646 ..     561     648 .. 0.87

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 9.3
               Syntaxin_2 42 inelikkt.nel 52
                             i++  k t + +
  PHY93_18955|PHY93_18955 14 ITKSTKSTkTTQ 25
                             222222222222 PP

  == domain 2  score: 5.7 bits;  conditional E-value: 0.023
               Syntaxin_2  13 stleklvkqLgtkkd........teelreklhelieeinelikktnellkklsqld 60 
                               ++   +k++ + ++         ++l ++++++i+++ e + ++ + +k +s+++
  PHY93_18955|PHY93_18955 445 EEMVTSIKDITKTTNeasnmsneAMKLAKNANQIINQLGESSMDIGNVIKVISSIA 500
                              22222222222221111112222555555555555555555555555555555555 PP

  == domain 3  score: 2.7 bits;  conditional E-value: 0.19
               Syntaxin_2  12 vstleklvkqLgtkkdteelr............eklhelieeinelikktnellkklsqld 60 
                              +s++ ++++ L  +   e  r            ++++el +++ +  ++++++++ +++++
  PHY93_18955|PHY93_18955 496 ISSIAQQTNLLALNATIEAARageagkgfavvaNEVKELAKQTAKATNDITKKIETIQADS 556
                              5666666666555555444445555544444444455555555555555555555444443 PP

  == domain 4  score: 18.0 bits;  conditional E-value: 3.4e-06
               Syntaxin_2   5 lqkinsnvstleklvkqLgtk.kdteelreklhelieeinelikktnellkklsqldnsssds.qqklqkekLkkdfkealqeF 86 
                              + +i+s + + + +   +  +  ++  + ++++ +++e  e +k++ne+++++sq + s+ ++ ++  +++k + ++ eal+++
  PHY93_18955|PHY93_18955 563 IAEISSAIEKVNGYAGNIAASvEEQAATTNEVKRIVSESAEGVKQINENISQVSQAAASTGKDaSNSQAAAKVVGEIAEALKKY 646
                              667888888888888888888557888899***************************999777677779*************98 PP

>> Thioredoxin_13  Thioredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.5   0.0     0.017        15      28      54 ..     178     204 ..     157     228 .. 0.83
   2 ?    6.0   0.0     0.012        10      25      53 ..     295     323 ..     273     338 .. 0.88

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.017
                              HSSHHHHHHHHHHTGGGGSTTCS-SST CS
           Thioredoxin_13  28 sedpLkaLsdlsqnFPkyassLarvkv 54 
                              +e  Lk+L+ l q +P +a+ La  ++
  PHY93_18955|PHY93_18955 178 NEASLKTLKTLEQYLPDKAANLAGKSI 204
                              5669******************98744 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.012
                              HHHHSSHHHHHHHHHHTGGGGSTTCS-SS CS
           Thioredoxin_13  25 ImssedpLkaLsdlsqnFPkyassLarvk 53 
                              I+ +e  Lk+L+ l q +P +a+ L+  +
  PHY93_18955|PHY93_18955 295 IYMNEASLKTLKTLEQYLPEKAANLVGKS 323
                              6778889****************998764 PP

>> DUF1987  Domain of unknown function (DUF1987)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   0.0     0.012        10      59      95 ..     174     210 ..     168     218 .. 0.92
   2 ?    5.0   0.0     0.021        18      59      95 ..     294     330 ..     287     340 .. 0.90

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.012
                  DUF1987  59 LsYfntssskalldllelLeeaaekgkkvevnWyyde 95 
                              ++Y+n++s k+l  l + L + a++    +++W++++
  PHY93_18955|PHY93_18955 174 MTYMNEASLKTLKTLEQYLPDKAANLAGKSIDWFHKN 210
                              89***********************99999***9975 PP

  == domain 2  score: 5.0 bits;  conditional E-value: 0.021
                  DUF1987  59 LsYfntssskalldllelLeeaaekgkkvevnWyyde 95 
                              + Y+n++s k+l  l + L e a++    +++W++++
  PHY93_18955|PHY93_18955 294 MIYMNEASLKTLKTLEQYLPEKAANLVGKSIDWFHKN 330
                              79********************99999999***9986 PP

>> LPD38  Large polyvalent protein associated domain 38
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   0.0    0.0047       4.1     140     176 ..     228     268 ..     206     283 .. 0.80
   2 ?    2.9   0.0      0.13   1.1e+02     140     170 ..     348     382 ..     338     406 .. 0.81
   3 ?    0.5   0.2      0.68   5.8e+02     124     174 ..     408     463 ..     380     476 .. 0.71
   4 ?    1.9   0.9      0.25   2.1e+02      36     137 ..     439     554 ..     432     597 .. 0.63
   5 ?   -1.3   0.0       2.5   2.1e+03     110     137 ..     601     628 ..     581     646 .. 0.73

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0047
                    LPD38 140 gaidvsPekldyllrgytGglgrfvldltd....tadgeke 176
                               +i+v Pekld l++g++  +g+++ ++++    ta+ +  
  PHY93_18955|PHY93_18955 228 STINVGPEKLDLLVTGIFDDAGTYIGPMVTweiiTAKLDLM 268
                              5689*************************988884443333 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.13
                    LPD38 140 gaidvsPekldyllrgytGglgrfvldltd....t 170
                               +i+v Pekld l++g++   g+++ ++++    t
  PHY93_18955|PHY93_18955 348 SIIGVGPEKLDLLVTGIFDESGTYIGPMVTweivT 382
                              5789***********************99865551 PP

  == domain 3  score: 0.5 bits;  conditional E-value: 0.68
                    LPD38 124 lakaigealneatyekgaidvsPekldyllrgytGglgrfvldltd.....tadge 174
                              ++ +++ a +e+++++++++v  e +++ ++++ + +  +v+ + d       ++ 
  PHY93_18955|PHY93_18955 408 ISSSLSAAAEETSAQANTASVASEEVNAGVQTVASNMEEMVTSIKDitkttNEASN 463
                              44456666666678888899999999999999999999998888885533322222 PP

  == domain 4  score: 1.9 bits;  conditional E-value: 0.25
                    LPD38  36 rvfgtigerlleaar.dsdpkaaeslakslas.afnP...gssgsalqsliptvlkPlielat.nnkfftGgpIvpee.lenlppe 114
                               v+++++e++  + + ++ ++ a+++ +++++ a n     ++    ++ i +v+k +  +a+ +n     + I+  + +e+   +
  PHY93_18955|PHY93_18955 439 TVASNMEEMVTSIKDiTKTTNEASNMSNEAMKlAKNAnqiINQLGESSMDIGNVIKVISSIAQqTNLLALNATIEAARaGEAGKGF 524
                              45555555444444476666666666666664422223342222223455666777777777755666777888888448888888 PP

                    LPD38 115 eqykestselakaigealneat.......y 137
                                  +   elak+ ++a+n++t       +
  PHY93_18955|PHY93_18955 525 AVVANEVKELAKQTAKATNDITkkietiqA 554
                              888889999999999999999955444331 PP

  == domain 5  score: -1.3 bits;  conditional E-value: 2.5
                    LPD38 110 nlppeeqykestselakaigealneaty 137
                                +  +q +e+ s+++ a++++ ++a+ 
  PHY93_18955|PHY93_18955 601 SAEGVKQINENISQVSQAAASTGKDASN 628
                              5666778889999999999888877773 PP

>> DUF3450  Protein of unknown function (DUF3450)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.2   7.2     0.013        11       7      91 ..     405     489 ..     399     502 .. 0.88
   2 ?   10.7   5.5   0.00028      0.24      15      98 ..     525     608 ..     505     644 .. 0.86

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.013
                  DUF3450   7 lllasgalaatldqalkeaekavaaaaqsqkkidklddekqellaeyralkeeleslevyneqlerlvasqeqeiasleeqieei 91 
                              +l++s++l+a+++++ ++a+ a  a++++++ ++ ++ + +e++  ++++++ +++++   ++  +l ++++q i++l e+  +i
  PHY93_18955|PHY93_18955 405 VLAISSSLSAAAEETSAQANTASVASEEVNAGVQTVASNMEEMVTSIKDITKTTNEASNMSNEAMKLAKNANQIINQLGESSMDI 489
                              567777789999999999999999999**********************************************999998887766 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 0.00028
                  DUF3450  15 aatldqalkeaekavaaaaqsqkkidklddekqellaeyralkeeleslevyneqlerlvasqeqeiasleeqieeieeierel 98 
                              a  ++++++ a+++ +a  ++ kki+ ++ ++++ +  + ++++ +e+ + y  + +++v++q ++ +++++  +e  e  +++
  PHY93_18955|PHY93_18955 525 AVVANEVKELAKQTAKATNDITKKIETIQADSKNAVGAIAEISSAIEKVNGYAGNIAASVEEQAATTNEVKRIVSESAEGVKQI 608
                              777899***********************************************************9999987655544444444 PP

>> CREPT  Cell-cycle alteration and expression-elevated protein in tumour
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.0   0.7      0.26   2.2e+02      47     106 ..     417     476 ..     387     508 .. 0.53
   2 ?   10.5   0.3    0.0006      0.51      35     109 ..     547     622 ..     533     633 .. 0.91
   3 ?   -0.4   0.0       1.4   1.2e+03      41      67 ..     624     650 .]     611     650 .] 0.77

  Alignments for each domain:
  == domain 1  score: 2.0 bits;  conditional E-value: 0.26
                    CREPT  47 ekllkqveealellaeYnkrLeaeleeRkklakmledfleaqkellakaeekleelkekl 106
                              e+ + q ++a  + +e n+  +   ++ +++ + ++d+++  +e+ + ++e ++  k+  
  PHY93_18955|PHY93_18955 417 EETSAQANTASVASEEVNAGVQTVASNMEEMVTSIKDITKTTNEASNMSNEAMKLAKNAN 476
                              334444444444444444444444444444444444444444444444444333333333 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 0.0006
                    CREPT  35 sllekik.dkeeaekllkqveealellaeYnkrLeaeleeRkklakmledfleaqkellakaeekleelkeklekv 109
                              +++e i+ d+++a   + ++++a+e ++ Y + ++a +ee    ++ ++ +++   e +++ +e+++++ + ++ +
  PHY93_18955|PHY93_18955 547 KKIETIQaDSKNAVGAIAEISSAIEKVNGYAGNIAASVEEQAATTNEVKRIVSESAEGVKQINENISQVSQAAAST 622
                              678999889999*****************************************************99998877665 PP

  == domain 3  score: -0.4 bits;  conditional E-value: 1.4
                    CREPT  41 kdkeeaekllkqveealellaeYnkrL 67 
                              kd ++ ++ +k v e  e+l++Y++rL
  PHY93_18955|PHY93_18955 624 KDASNSQAAAKVVGEIAEALKKYVARL 650
                              68888999999999999*******998 PP

>> GCN5L1  GCN5-like protein 1 (GCN5L1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   2.2   3.6e-05     0.031      24      89 ..     419     484 ..     408     504 .. 0.88
   2 ?   -1.0   4.1       2.3     2e+03      39      77 ..     577     615 ..     532     645 .. 0.54

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 3.6e-05
                   GCN5L1  24 iesaaaltealvdklnsgvaeayanqkklekeakalqanvakfakqtdqWlalvesfnsalkeiGD 89 
                              +++ a+ +    +++n+gv+++ +n +++ + +k++++++++ ++ +++ ++l+++ n+ + ++G+
  PHY93_18955|PHY93_18955 419 TSAQANTASVASEEVNAGVQTVASNMEEMVTSIKDITKTTNEASNMSNEAMKLAKNANQIINQLGE 484
                              34445566677899**************************************************96 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 2.3
                   GCN5L1  39 nsgvaeayanqkklekeakalqanvakfakqtdqWlalv 77 
                                ++a++ ++q +  +e+k++ +++a+  kq ++ ++ v
  PHY93_18955|PHY93_18955 577 AGNIAASVEEQAATTNEVKRIVSESAEGVKQINENISQV 615
                              334444445555555555555555555444444444333 PP

>> Mis12  Mis12 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.0       1.5   1.3e+03      44      72 ..      13      41 ..       3      51 .. 0.74
   2 ?    2.1   0.0      0.22   1.9e+02      15      73 ..     171     246 ..     168     252 .. 0.72
   3 ?   -2.3   0.0         5   4.3e+03      20      37 ..     296     318 ..     291     367 .. 0.70
   4 ?    5.9   0.8     0.015        12      13      72 ..     387     448 ..     384     461 .. 0.85
   5 ?   -1.2   0.2       2.3     2e+03      16      34 ..     568     586 ..     525     620 .. 0.57

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 1.5
                             .TTSTHHHH-HHHHHHHHHHHHHHHHHHH CS
                    Mis12 44 eeeekaaeesteeieeGtakletlleasv 72
                             + ++++++ +t+++ ++++ +e+l ++  
  PHY93_18955|PHY93_18955 13 KITKSTKSTKTTQVDNSMHMIESLKKTYA 41
                             3466777889999*******999977665 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.22
                              HHHHHHHHHHHHHHHHHHHHHH.......................T..TSTHHHH-HHHHHHHHHHHHHHHHHHHH CS
                    Mis12  15 ddiinavndllyravdavekvL...............dkkleedee..eekaaeesteeieeGtakletlleasvD 73 
                              d ++  +n++  ++++ +e++L               +k+++++++  ++ ++  +++ i+ G +kl  l+   +D
  PHY93_18955|PHY93_18955 171 DGVMTYMNEASLKTLKTLEQYLpdkaanlagksidwfHKNPAHQKRiiSDPKNLPYRSTINVGPEKLDLLVTGIFD 246
                              6789999***************877777777776666333333333555566667888888888888777766666 PP

  == domain 3  score: -2.3 bits;  conditional E-value: 5
                              HHHHHHHHHHHHHHHHH...... CS
                    Mis12  20 avndllyravdavekvL.....d 37 
                               +n++  ++++ +e++L     +
  PHY93_18955|PHY93_18955 296 YMNEASLKTLKTLEQYLpekaaN 318
                              57888889999999999444430 PP

  == domain 4  score: 5.9 bits;  conditional E-value: 0.015
                              HHHHHHHHHHHHHHHHHH..HHHHHH........TTSTHHHH-HHHHHHHHHHHHHHHHHHH CS
                    Mis12  13 liddiinavndllyravd..avekvLdkkleedeeeekaaeesteeieeGtakletlleasv 72 
                              li d  ++ +dl+  a++  a+ + L++ +ee+++++++a+ ++ee+++G++ + + +e+ v
  PHY93_18955|PHY93_18955 387 LIADLTKSSEDLASSATNvlAISSSLSAAAEETSAQANTASVASEEVNAGVQTVASNMEEMV 448
                              7888888889999988863367788999999999999***************9999998765 PP

  == domain 5  score: -1.2 bits;  conditional E-value: 2.3
                              HHHHHHHHHHHHHHHHHHH CS
                    Mis12  16 diinavndllyravdavek 34 
                                i+ vn ++ ++ ++ve+
  PHY93_18955|PHY93_18955 568 SAIEKVNGYAGNIAASVEE 586
                              3344444444444444444 PP

>> Syntaxin-6_N  Syntaxin 6, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.1       6.1   5.2e+03      40      66 ..      16      42 ..       3      57 .. 0.48
   2 ?    6.0   1.5     0.021        18      37      81 ..     424     469 ..     381     485 .. 0.50
   3 ?    8.4   0.9    0.0037       3.2       5      71 ..     432     500 ..     427     516 .. 0.69
   4 ?    9.6   1.5    0.0015       1.3       3      96 ..     524     644 ..     523     646 .. 0.83

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 6.1
             Syntaxin-6_N 40 detrteLrkalrsiewdledLeetvri 66
                             ++t++   +++++    +e L++t + 
  PHY93_18955|PHY93_18955 16 KSTKSTKTTQVDNSMHMIESLKKTYAY 42
                             333333333334444444444444444 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.021
             Syntaxin-6_N  37 eeldetrteLrkalrsiewdledLeetvriveknpsk.fkidekel 81 
                              +  + +++e+++ ++++  ++e++  +++ + k  ++  +++++++
  PHY93_18955|PHY93_18955 424 NTASVASEEVNAGVQTVASNMEEMVTSIKDITKTTNEaSNMSNEAM 469
                              4444445555555555555555555555444333333244443333 PP

  == domain 3  score: 8.4 bits;  conditional E-value: 0.0037
             Syntaxin-6_N   5 evkeeVqkslnkaeslyrrwerlledtss..stseeldetrteLrkalrsiewdledLeetvriveknp 71 
                              ev++ Vq  ++++e+++++ +++ ++t++  + s+e  ++ ++ ++ ++++ +   d+ ++++++++  
  PHY93_18955|PHY93_18955 432 EVNAGVQTVASNMEEMVTSIKDITKTTNEasNMSNEAMKLAKNANQIINQLGESSMDIGNVIKVISSIA 500
                              567778888888888888888877777775446666666666666666666666667777777766644 PP

  == domain 4  score: 9.6 bits;  conditional E-value: 0.0015
             Syntaxin-6_N   3 FfevkeeVqkslnkaeslyrrw.erlledtsss..........................tseeldetrteLrkalrsiewdledLe 61 
                              F +v++eV++ ++++++  +   +++ + + +s                          + ee   t++e+++ +++  + +++++
  PHY93_18955|PHY93_18955 524 FAVVANEVKELAKQTAKATNDItKKIETIQADSknavgaiaeissaiekvngyagniaaSVEEQAATTNEVKRIVSESAEGVKQIN 609
                              78889999998888888888884244444333245689999999999999999999999999************************ PP

             Syntaxin-6_N  62 etvriveknpskfkidekelsrrrafveevreevk 96 
                              e ++ v++  +  + d++  +   ++v e+ e +k
  PHY93_18955|PHY93_18955 610 ENISQVSQAAASTGKDASNSQAAAKVVGEIAEALK 644
                              ******99999999999888888888888877765 PP

>> DUF948  Bacterial protein of unknown function (DUF948)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.3       4.5   3.8e+03      48      81 ..      10      37 ..       2      44 .. 0.50
   2 ?    4.0   3.5     0.068        58      37      86 ..     411     460 ..     380     463 .. 0.65
   3 ?    6.1   5.1     0.016        13      27      82 ..     443     501 ..     429     509 .. 0.58
   4 ?    9.8   2.0    0.0011       0.9      39      88 ..     521     574 ..     503     575 .. 0.74
   5 ?   10.1   1.9   0.00085      0.73      27      85 ..     562     620 ..     556     630 .. 0.83

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 4.5
                   DUF948 48 evedllakvnelledvneklekvdplteavadlg 81
                             +++++++ ++        k+ +vd+ ++ ++ l 
  PHY93_18955|PHY93_18955 10 KSTKITKSTKS------TKTTQVDNSMHMIESLK 37
                             33333333333......46666666666665555 PP

  == domain 2  score: 4.0 bits;  conditional E-value: 0.068
                   DUF948  37 elekqvdpilkevedllakvnelledvneklekvdplteavadlgesvse 86 
                              +l   +++++ +++++   ++e+ ++v+    ++++++++++d++++ +e
  PHY93_18955|PHY93_18955 411 SLSAAAEETSAQANTASVASEEVNAGVQTVASNMEEMVTSIKDITKTTNE 460
                              45555666666666666666666667777777777777777777777654 PP

  == domain 3  score: 6.1 bits;  conditional E-value: 0.016
                   DUF948  27 tldeaaatieele...kqvdpilkevedllakvnelledvneklekvdplteavadlge 82 
                               ++e+ ++i++++   +++ ++++e+ +l +++n++ +++ e + ++ ++++ +  +++
  PHY93_18955|PHY93_18955 443 NMEEMVTSIKDITkttNEASNMSNEAMKLAKNANQIINQLGESSMDIGNVIKVISSIAQ 501
                              33344444444332225555666666667777777777777666666666666666655 PP

  == domain 4  score: 9.8 bits;  conditional E-value: 0.0011
                   DUF948  39 ekqvdpilkevedllakvnelledvneklekvdp....lteavadlgesvseln 88 
                              +k    + +ev++l +++ + ++d+++k+e++++     + a+a+++ +++++n
  PHY93_18955|PHY93_18955 521 GKGFAVVANEVKELAKQTAKATNDITKKIETIQAdsknAVGAIAEISSAIEKVN 574
                              466677888999999999999999999999986433338889999999998887 PP

  == domain 5  score: 10.1 bits;  conditional E-value: 0.00085
                   DUF948  27 tldeaaatieelekqvdpilkevedllakvnelledvneklekvdplteavadlgesvs 85 
                               + e++++ie+++  +++i   ve+  a++ne+   v+e  e v+++ e++ +++++ +
  PHY93_18955|PHY93_18955 562 AIAEISSAIEKVNGYAGNIAASVEEQAATTNEVKRIVSESAEGVKQINENISQVSQAAA 620
                              57889999999999999999999999999999888888888888888888888887654 PP

>> Dynactin_p22  Dynactin subunit p22
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0       8.9   7.6e+03      51     101 ..     163     185 ..     146     196 .. 0.52
   2 ?    3.0   2.1     0.098        84     107     161 ..     428     485 ..     393     491 .. 0.65
   3 ?    9.2   1.2    0.0012         1      22     103 ..     537     617 ..     527     641 .. 0.86

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 8.9
             Dynactin_p22  51 ikellkkleelekyLdpeyedseelpdevKleliLaeedeLkktaalleql 101
                              i++l+   + +++y++ +                             l++l
  PHY93_18955|PHY93_18955 163 INILFATPDGVMTYMNEAS----------------------------LKTL 185
                              4444444444444444322............................2233 PP

  == domain 2  score: 3.0 bits;  conditional E-value: 0.098
             Dynactin_p22 107 vldseeikdvpelkekLekLsqi...hlkqqeeveelseevkkllekYnklvltlskq 161
                              v ++e    v+++++++e++  +    +k+++e++++s+e  kl ++ n+++++l ++
  PHY93_18955|PHY93_18955 428 VASEEVNAGVQTVASNMEEMVTSikdITKTTNEASNMSNEAMKLAKNANQIINQLGES 485
                              5555555555666666666544311135677888888999999999999999988765 PP

  == domain 3  score: 9.2 bits;  conditional E-value: 0.0012
             Dynactin_p22  22 ekekedesiidsLakvqkklssavskrekikellkkleelekyLdpeyedseelpdevKleliLaeedeLkktaalleqlqe 103
                              + +k ++ i+++++++q+  ++av    +i+++++k++ +   +  ++e++ + ++evK+ ++ ++++  k++ ++++q+++
  PHY93_18955|PHY93_18955 537 QTAKATNDITKKIETIQADSKNAVGAIAEISSAIEKVNGYAGNIAASVEEQAATTNEVKR-IVSESAEGVKQINENISQVSQ 617
                              33444489**************************************9****999999996.777788888888888888876 PP

>> Vip3A_N  Vegetative insecticide protein 3A N terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.4   3.4    0.0043       3.6      49     105 ..     439     495 ..     423     512 .. 0.85
   2 ?    3.8   2.0     0.054        46      46      99 ..     562     615 ..     521     622 .. 0.77

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.0043
                  Vip3A_N  49 disgkldgvngslndliaqgnlntelskeilkianeqnqvlndvnnkldaintmlrv 105
                               ++++++ +  s++d+    n  +++s+e +k+a++ nq++n++ +    i  +++v
  PHY93_18955|PHY93_18955 439 TVASNMEEMVTSIKDITKTTNEASNMSNEAMKLAKNANQIINQLGESSMDIGNVIKV 495
                              567778888999*******************************98776666666665 PP

  == domain 2  score: 3.8 bits;  conditional E-value: 0.054
                  Vip3A_N  46 llndisgkldgvngslndliaqgnlntelskeilkianeqnqvlndvnnkldai 99 
                               + +is+ ++ vng  +++ a  + ++  ++e+ +i  e  + ++++n+++  +
  PHY93_18955|PHY93_18955 562 AIAEISSAIEKVNGYAGNIAASVEEQAATTNEVKRIVSESAEGVKQINENISQV 615
                              578999999999999999999999999999999999999999999999887765 PP

>> zf-C4H2  Zinc finger-containing protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   2.9     0.077        66      62     108 ..     442     487 ..     386     508 .. 0.75
   2 ?    7.6   0.2    0.0049       4.2      11      96 ..     562     647 ..     554     650 .] 0.80

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.077
                  zf-C4H2  62 nalEsvikeaeeekekslekakklyeeykklkeevnelrselglekl 108
                              +++E+++ +  ++ +k++++a+++++e  kl ++ n++ ++lg +++
  PHY93_18955|PHY93_18955 442 SNMEEMVTSI-KDITKTTNEASNMSNEAMKLAKNANQIINQLGESSM 487
                              5677777654.567888889999999999999999999888887655 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0049
                  zf-C4H2  11 eleklknklakevealekeekcleeykkelelLeqEkmaHveeLrlIhaDinalEsvikeaeeekekslekakklyeeykklkeev 96 
                              ++ ++++ + k  +   +    +ee  ++ +++++   + +e +++I++ i+++ +   ++ ++ ++s ++ak + e  ++lk+ v
  PHY93_18955|PHY93_18955 562 AIAEISSAIEKVNGYAGNIAASVEEQAATTNEVKRIVSESAEGVKQINENISQVSQAAASTGKDASNSQAAAKVVGEIAEALKKYV 647
                              555666666666666667777788888888888888888999**************************999999999999998876 PP

>> DUF1664  Protein of unknown function (DUF1664)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.1       6.5   5.5e+03      92     114 ..      14      37 ..       2      45 .. 0.44
   2 ?    3.3   4.6     0.096        82      62     113 ..     431     482 ..     381     507 .. 0.54
   3 ?    7.3   0.9    0.0053       4.5      76     121 ..     529     574 ..     523     577 .. 0.85
   4 ?    8.9   0.9    0.0017       1.4      70     111 ..     579     620 ..     576     628 .. 0.90

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 6.5
                  DUF1664  92 vredlseig.edvesvkeavegle 114
                              + + +++++ ++v++  +++e+l+
  PHY93_18955|PHY93_18955  14 ITKSTKSTKtTQVDNSMHMIESLK 37 
                              333333332123444444444444 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.096
                  DUF1664  62 rhLssridrvdkkldeqkeiskeikeevtevredlseigedvesvkeavegl 113
                              ++ ++ +++v ++++e+   +k+i++  +e+++  +e  +  ++ ++++++l
  PHY93_18955|PHY93_18955 431 EEVNAGVQTVASNMEEMVTSIKDITKTTNEASNMSNEAMKLAKNANQIINQL 482
                              3333334444444444444444444444444333333333333333333333 PP

  == domain 3  score: 7.3 bits;  conditional E-value: 0.0053
                  DUF1664  76 deqkeiskeikeevtevredlseigedvesvkeaveglesklerie 121
                              +e+ke++k++++  +++ +++++i+ d+++   a+ ++ s +e+++
  PHY93_18955|PHY93_18955 529 NEVKELAKQTAKATNDITKKIETIQADSKNAVGAIAEISSAIEKVN 574
                              6789999999999999999999999999999999999888888775 PP

  == domain 4  score: 8.9 bits;  conditional E-value: 0.0017
                  DUF1664  70 rvdkkldeqkeiskeikeevtevredlseigedvesvkeave 111
                              ++ ++++eq+++++e+k+ v+e  e++++i+e++++v++a  
  PHY93_18955|PHY93_18955 579 NIAASVEEQAATTNEVKRIVSESAEGVKQINENISQVSQAAA 620
                              677899*******************************99865 PP

>> UPF0242  Uncharacterised protein family (UPF0242) N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.9     0.013        11      67     159 ..     418     513 ..     376     518 .. 0.63
   2 ?    2.6   1.5      0.15   1.3e+02      82     174 ..     522     614 ..     501     618 .. 0.79

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.013
                  UPF0242  67 kskleekeaklteld.....eglktkeealeelqeeeeeLkeeldakeeelerlkeenqqLqekleaiaedfeelkleleeqLaek 147
                              +   +++ a + +++     + ++ + e++  + ++  +  +e +++++e  +l ++ +q+  +l +++ d+ ++ + + + +a++
  PHY93_18955|PHY93_18955 418 ETSAQANTASVASEEvnagvQTVASNMEEMVTSIKDITKTTNEASNMSNEAMKLAKNANQIINQLGESSMDIGNVIKVI-SSIAQQ 502
                              2223333333333333433344444444444445555556667899999999999999999999999999999988876.457777 PP

                  UPF0242 148 qellqeyqetie 159
                              ++ll  +++tie
  PHY93_18955|PHY93_18955 503 TNLLA-LNATIE 513
                              77664.455555 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.15
                  UPF0242  82 eglktkeealeelqeeeeeLkeeldakeeelerlkeenqqLqekleaiaedfeelkleleeqLaekqellqeyqetieeqrsvlek 167
                              +g+++ +++++el +++ +  + + +k e+++   ++      + + + e ++ +  ++ + ++e+    +e ++ ++e  + +++
  PHY93_18955|PHY93_18955 522 KGFAVVANEVKELAKQTAKATNDITKKIETIQADSKNAVGAIAEISSAIEKVNGYAGNIAASVEEQAATTNEVKRIVSESAEGVKQ 607
                              67778888999999999999999999999999999988888888888888888888888888888888888888888887777777 PP

                  UPF0242 168 rqdqieq 174
                               +++i+q
  PHY93_18955|PHY93_18955 608 INENISQ 614
                              7776665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (650 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2348  (0.130961); expected 358.6 (0.02)
Passed bias filter:                      747  (0.0416643); expected 358.6 (0.02)
Passed Vit filter:                       103  (0.00574488); expected 17.9 (0.001)
Passed Fwd filter:                        56  (0.00312343); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              21  [number of targets reported over threshold]
# CPU time: 1.21u 0.29s 00:00:01.50 Elapsed: 00:00:00.48
# Mc/sec: 4037.98
//
Query:       PHY93_18960|PHY93_18960  [L=156]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.4e-30  105.7   0.2    1.6e-30  105.5   0.2    1.0  1  CheW      CheW-like domain


Domain annotation for each model (and alignments):
>> CheW  CheW-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  105.5   0.2   9.1e-35   1.6e-30       2     135 ..      23     155 ..      22     156 .] 0.97

  Alignments for each domain:
  == domain 1  score: 105.5 bits;  conditional E-value: 9.1e-35
                              EEEEEETTEEEEEEGGGEEEEEECCT.BTTTTSSTTEEEEEEETTEEEEEEEHHHHCTSSSSTTSTCEEEEEEEETTEEEEEEESE CS
                     CheW   2 lllfrlgeetyaiplakvreilevppitpipgapgavlgvinlrGevipvidLrellglgpeesrentrvivvelgnqvvGllVde 87 
                              l  f++g+  yai + +v+e+++++ +t++p ap++v+g++nlrG+++  i+Lr+l+gl+ +++  ++  i+v++g++ ++l+Vde
  PHY93_18960|PHY93_18960  23 LCGFKIGNGFYAISVLEVQEVIKPQLLTQVPSAPEYVRGLVNLRGQIVTAISLRSLFGLEDDHR-AEYMNIIVRSGESLYALMVDE 107
                              6679***********************************************************6.********************* PP

                              EEEEEEEECCGEETT.TSSTSSTCCCEEEEEECTTSEEEEEE-CCCHHH CS
                     CheW  88 vkgiqeivikqiepp.lglssdlagyisGatklgdgrlvliLDveallr 135
                              + ++++++ + +e+   +l+++ +++i G+ kl d +l+++L +e++l+
  PHY93_18960|PHY93_18960 108 ILDVIDVEDSTFEKTpETLDDKIRRFINGVYKL-DHKLLILLALEKILN 155
                              ***************999999************.*************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (156 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       441  (0.024597); expected 358.6 (0.02)
Passed bias filter:                      391  (0.0218082); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1160.97
//
Query:       PHY93_18965|PHY93_18965  [L=649]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (649 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       423  (0.0235931); expected 358.6 (0.02)
Passed bias filter:                      147  (0.00819901); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.58u 0.20s 00:00:00.78 Elapsed: 00:00:00.40
# Mc/sec: 4893.95
//
Query:       PHY93_18970|PHY93_18970  [L=338]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
       0.08   13.2   0.4       0.29   11.4   0.3    2.0  1  DUF5407         Family of unknown function (DUF5407)
       0.14   12.2   0.0       0.25   11.4   0.0    1.3  1  MPTase-PolyVal  Metallopeptidase superfamily domain
       0.26   11.3   1.5       0.68   10.0   1.5    1.7  1  PetL            Cytochrome B6-F complex subunit VI (PetL)


Domain annotation for each model (and alignments):
>> DUF5407  Family of unknown function (DUF5407)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.3   4.9e-05      0.29      39      59 ..      75      95 ..      43      98 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 4.9e-05
                  DUF5407 39 emqmlmnhLsqLsemstavvs 59
                             emq+l+n+Ls Lse+  a v 
  PHY93_18970|PHY93_18970 75 EMQILVNDLSALSELKGAQVN 95
                             9**************998875 PP

>> MPTase-PolyVal  Metallopeptidase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   4.2e-05      0.25      21      64 ..     142     185 ..     128     200 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 4.2e-05
           MPTase-PolyVal  21 AfYspskDeiqlPekeaFeeaesyyatllHelvHwtghesRldr 64 
                               +Ysp + +i+lP+    + + +  atl+He+ H+ g ++ l  
  PHY93_18970|PHY93_18970 142 GCYSPMEKKISLPPLFFIQGRLNRLATLIHEARHADGFSHVLGS 185
                              69**************99*****************998877665 PP

>> PetL  Cytochrome B6-F complex subunit VI (PetL)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   1.5   0.00011      0.68       5      21 ..      15      31 ..      14      31 .. 0.92

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.00011
                             HHHHHHHHHHHHHHHHH CS
                     PetL  5 isYfglLggalaiAlgL 21
                             +sYf++L+ +l+ A +L
  PHY93_18970|PHY93_18970 15 FSYFLFLFTFLTSAQVL 31
                             69***********9887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (338 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       853  (0.0475766); expected 358.6 (0.02)
Passed bias filter:                      620  (0.0345808); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.54u 0.21s 00:00:00.75 Elapsed: 00:00:00.39
# Mc/sec: 2621.71
//
Query:       PHY93_18975|PHY93_18975  [L=291]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
     0.0041   16.9   0.0      0.011   15.5   0.0    1.6  2  Peptidase_M48  Peptidase family M48
  ------ inclusion threshold ------
      0.023   14.3   0.0       0.31   10.6   0.0    2.1  2  Peptidase_M13  Peptidase family M13
       0.05   13.3   0.0       0.08   12.6   0.0    1.2  1  DUF3514        Protein of unknown function (DUF3514)


Domain annotation for each model (and alignments):
>> Peptidase_M48  Peptidase family M48
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   1.8e-06     0.011      33      78 ..      84     131 ..      57     144 .. 0.81
   2 ?   -1.5   0.0      0.31   1.8e+03     176     189 ..     225     248 ..     147     250 .. 0.61

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.8e-06
                              GGT-EEEEESSS-E.EEEEEHHHH-SS.B-HHHHHHHHHHHHHHHHTT CS
                              xxxxxxxxxxxxxx.xxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48  33 pkrNAFalgggknk.rivltdgLlkql.lseeelaaVlGHElGHikhr 78 
                               ++NA+a +++    +iv++ gL      +e+ +a V  HElGH+  +
  PHY93_18975|PHY93_18975  84 ATVNAYAHQNTTGVdTIVMFGGLARHPeTTEDGMALVACHELGHHLGG 131
                              456*******98878*********655156777888889*****9876 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.31
                              H..........HHS-SS--HHHHH CS
                              x..........xxxxxxxxxxxxx RF
            Peptidase_M48 176 s..........ellstHPplleRi 189
                              s          + + +HP  + R+
  PHY93_18975|PHY93_18975 225 SfttpdqsvvaKTFDAHPQAQCRL 248
                              022333344447777788777776 PP

>> Peptidase_M13  Peptidase family M13
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   5.1e-05      0.31      36      98 ..     117     179 ..     112     187 .. 0.91
   2 ?    1.2   0.0     0.038   2.3e+02     155     179 ..     228     252 ..     223     255 .. 0.83

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 5.1e-05
            Peptidase_M13  36 iGaviaHEltHgfddqgvqfdkegnlaswltdedaeefkekakclieqfsevtepektkavng 98 
                              +  v+ HEl+H +  +  + d      sw  +e ++ +  + kcl + f+  ++ +++k++n 
  PHY93_18975|PHY93_18975 117 MALVACHELGHHLGGAPRKSDPSTGALSWAANEGQADYWGTMKCLRHYFESDDNIAAVKSLNV 179
                              66899******************99************************99999999997775 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.038
            Peptidase_M13 155 sdeellrqllvdvHspaelRvngvl 179
                              +++++++ ++ d H++a++R    +
  PHY93_18975|PHY93_18975 228 TPDQSVVAKTFDAHPQAQCRLDTYF 252
                              56788889999*********98766 PP

>> DUF3514  Protein of unknown function (DUF3514)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   1.3e-05      0.08     188     221 ..     157     188 ..     149     202 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 1.3e-05
                  DUF3514 188 vrkalrhlYspsDkntvrtvsGLnvPkilikvcs 221
                                k+lrh +  +D+  + +v  LnvP  +++ c+
  PHY93_18975|PHY93_18975 157 TMKCLRHYFESDDN--IAAVKSLNVPTDVVNKCQ 188
                              579****9999999..**************9995 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (291 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       445  (0.0248201); expected 358.6 (0.02)
Passed bias filter:                      400  (0.0223102); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.60u 0.28s 00:00:00.88 Elapsed: 00:00:00.56
# Mc/sec: 1569.38
//
Query:       PHY93_18980|PHY93_18980  [L=149]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (149 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       481  (0.026828); expected 358.6 (0.02)
Passed bias filter:                      385  (0.0214736); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.24s 00:00:00.68 Elapsed: 00:00:00.43
# Mc/sec: 1051.46
//
Query:       PHY93_18985|PHY93_18985  [L=301]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.5e-16   60.9   0.0    3.6e-16   60.4   0.0    1.2  1  Trypsin_2      Trypsin-like peptidase domain
    5.7e-13   49.2   0.1    1.1e-11   44.9   0.1    2.1  1  Trypsin        Trypsin
     0.0008   18.2   1.1     0.0008   18.2   1.1    2.2  3  Peptidase_S46  Peptidase S46
  ------ inclusion threshold ------
      0.018   14.6   0.1      0.029   13.9   0.1    1.3  1  Peptidase_S31  Pestivirus NS3 polyprotein peptidase S31


Domain annotation for each model (and alignments):
>> Trypsin_2  Trypsin-like peptidase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.4   0.0   7.9e-20   3.6e-16       1     150 []      99     250 ..      99     250 .. 0.79

  Alignments for each domain:
  == domain 1  score: 60.4 bits;  conditional E-value: 7.9e-20
                Trypsin_2   1 GsGflvgsdglilTnaHvvdsadgaav.........kaikkkveeagadgrevpak.vvaadp....elDlAllkvssderaglpp 72 
                              ++Gflv+++  + T+ H++++ ++ +          k+ + + +   + +++++ k v+a +     ++D++l+++ ++e +g +p
  PHY93_18985|PHY93_18985  99 CTGFLVAPNV-VATAGHCMTKPEDCSNfywafdyklKSAQDSAYTKIPADNVYTCKrVLAQKFealeGIDFTLIQL-DREVKGRDP 182
                              79********.********66666666677666666333333333333333333331333333544477*******.********* PP

                Trypsin_2  73 lplgpsealkggepvyvvGyplggeksgsvssGivsgvvesesaasgegesflqtdaatspGsSGGplfd.sdGrvvGl 150
                              l l++s+++++g+ ++v+Gyp+  + +  + +G++s+  e          +++  + +t +G+SG+p+f  s+G+v G+
  PHY93_18985|PHY93_18985 183 LALDFSSESPVGTLLFVLGYPSSTPLK-YTDAGTISKSLE----------KVFYSNLDTFGGNSGSPVFEaSTGKVTGI 250
                              *******999999*******9999999.************..........9**99**************99*****998 PP

>> Trypsin  Trypsin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.9   0.1   2.5e-15   1.1e-11      19     201 ..      89     256 ..      75     271 .. 0.71

  Alignments for each domain:
  == domain 1  score: 44.9 bits;  conditional E-value: 2.5e-15
                              EETTC..EEEEEEEEEETTEEEEEGGGTTTGGGEEE..EESESBTTSCTTT.EEEEEEEEEEEETTEBTTTT....TTTEEEEEES CS
                  Trypsin  19 svksg..khlCgGslisenwvlTAaHCvsnasdvkv..vlgehnlkksegk.eqklkvekvivhpnynpstl....dnDiallklk 95 
                               ++++  +  C+G+l+ +n v TA+HC+++++d +   ++ +++lk+ +++ + k++ ++v+  +++ ++++      D+ l++l+
  PHY93_18985|PHY93_18985  89 RFGNEvlGPKCTGFLVAPNVVATAGHCMTKPEDCSNfyWAFDYKLKSAQDSaYTKIPADNVYTCKRVLAQKFealeGIDFTLIQLD 174
                              5555566667********************666666556666566555554466666666666666666665566699******** PP

                              SSSTSBSSBHCCBBCSTTHTTSTTTEEEEEESSBSSTSSBSSBEEEEEEEEEEHHHHHHHTTTTSTTTEEEEESTTSSSBCTTTTT CS
                  Trypsin  96 epvklgdtvrpiclpaassslpvgttclvsGwgrtkekgksdtlqevevpvvsretcksaykgkvtenmlcagakeggkdacqGDS 181
                              ++vk  d   p++l   ss++pvgt  +v G+++         l++++  ++s++  ++     v  + l          +  G+S
  PHY93_18985|PHY93_18985 175 REVKGRD---PLALDF-SSESPVGTLLFVLGYPSSTP------LKYTDAGTISKS-LEK-----VFYSNLD---------TFGGNS 235
                              **66655...555655.44669************744......556666666652.222.....2223344.........555*** PP

                              TSEEEETTT.EEEEEEEEESS CS
                  Trypsin 182 GGPlvcsdg.elvGivswgkg 201
                              G+P++  ++ +++Givs+g+g
  PHY93_18985|PHY93_18985 236 GSPVFEASTgKVTGIVSMGNG 256
                              ******9999********966 PP

>> Peptidase_S46  Peptidase S46
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.8       0.3   1.4e+03      45      68 ..      95     117 ..      84     118 .. 0.87
   2 ?   -1.1   0.0      0.12   5.3e+02     241     254 ..     194     207 ..     191     222 .. 0.81
   3 !   18.2   1.1   1.8e-07    0.0008     620     654 ..     219     254 ..     208     262 .. 0.79

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 0.3
                              ETTTEE-EE-STT-EEEE-HHHHH CS
            Peptidase_S46  45 flggCtasfVSpeGLvlTNHHCay 68 
                              +++ Ct+ +V+p+  v T  HC++
  PHY93_18985|PHY93_18985  95 LGPKCTGFLVAPN-VVATAGHCMT 117
                              4789********9.89******85 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.12
                              T-EEEEEE------ CS
            Peptidase_S46 241 gdlvfvlGyPGsts 254
                              g l fvlGyP st 
  PHY93_18985|PHY93_18985 194 GTLLFVLGYPSSTP 207
                              6789********96 PP

  == domain 3  score: 18.2 bits;  conditional E-value: 1.8e-07
                              B-EEEEEES----TT-TT-EEE-TT.S-EEEEEEEE CS
            Peptidase_S46 620 svpvnflstnDitGGNSGSPvlngk.gelvGlaFDg 654
                              s++  f s+ D+ GGNSGSPv++++ g++ G++  g
  PHY93_18985|PHY93_18985 219 SLEKVFYSNLDTFGGNSGSPVFEAStGKVTGIVSMG 254
                              556679****************97438888887555 PP

>> Peptidase_S31  Pestivirus NS3 polyprotein peptidase S31
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.1   6.5e-06     0.029     154     184 ..     226     256 ..     209     269 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 6.5e-06
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
            Peptidase_S31 154 fdlknlkgwsglpifeassgrvvgrvkvgkn 184
                               +l  + g sg p+feas+g+v g v +g+ 
  PHY93_18985|PHY93_18985 226 SNLDTFGGNSGSPVFEASTGKVTGIVSMGNG 256
                              3688899*******************99975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (301 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       354  (0.0197445); expected 358.6 (0.02)
Passed bias filter:                      302  (0.0168442); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.39
# Mc/sec: 2300.51
//
Query:       PHY93_18990|PHY93_18990  [L=294]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.3e-10   40.1   0.2    7.3e-08   32.9   0.0    2.6  2  TPR_16    Tetratricopeptide repeat
    1.1e-08   34.6   0.6    9.5e-08   31.6   0.0    2.7  3  TPR_11    TPR repeat
    3.1e-08   33.1   0.3     0.0021   18.0   0.0    3.5  3  TPR_2     Tetratricopeptide repeat
    2.1e-07   31.4   0.4      2e-06   28.2   0.1    2.6  2  TPR_19    Tetratricopeptide repeat
    6.3e-07   29.1   0.7     0.0027   17.8   0.0    2.8  2  TPR_8     Tetratricopeptide repeat
    6.4e-07   29.3   0.1    2.9e-06   27.2   0.0    2.3  1  TPR_17    Tetratricopeptide repeat
    1.7e-06   28.3   0.6     0.0016   19.1   0.0    3.2  3  TPR_14    Tetratricopeptide repeat
    2.2e-05   24.1   0.1     0.0049   16.6   0.0    2.6  2  TPR_1     Tetratricopeptide repeat
    0.00041   20.6   3.1       0.15   12.4   0.1    3.0  2  TPR_12    Tetratricopeptide repeat
    0.00099   18.6   0.3     0.0018   17.7   0.3    1.5  1  TPR_MalT  MalT-like TPR region
     0.0031   18.1   0.2         12    6.8   0.0    3.8  4  TPR_6     Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.014   15.7   0.2      0.049   14.0   0.1    2.0  2  TPR_20    Tetratricopeptide repeat
      0.029   15.0   0.0        9.2    7.2   0.0    3.3  3  TPR_4     Tetratricopeptide repeat
      0.036   13.9   0.1       0.08   12.8   0.1    1.6  1  Clathrin  Region in Clathrin and VPS
      0.099   12.7   0.2       0.78    9.9   0.0    2.6  3  TPR_7     Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.9   0.0   6.1e-11   7.3e-08       2      66 ..     197     259 ..     196     260 .. 0.87
   2 ?    4.5   0.0     0.046        55      36      59 ..     266     290 ..     262     293 .. 0.86

  Alignments for each domain:
  == domain 1  score: 32.9 bits;  conditional E-value: 6.1e-11
                   TPR_16   2 alaraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAa.alyraalraapd 66 
                              ++a+++ ++g+ ++A+  le+al+ d     + + ++ l+++  +qgr aeA+  +++ ++  ap+
  PHY93_18990|PHY93_18990 197 DQALELEKSGKLEEAVSTLERALRID---KNNSDIYFKLAEINMHQGRSAEAEqLALKGLVSTAPN 259
                              79************************...66777*******************6666655566665 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.046
                   TPR_16  36 AllllgdaalrqgrlaeAa.alyra 59 
                               +ll ++a+ rq++ ++A+ a+ +a
  PHY93_18990|PHY93_18990 266 LWLLVAEARIRQNNNPGAIeAQNNA 290
                              799****************887765 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0       2.2   2.7e+03       6      18 ..     150     162 ..     149     162 .. 0.87
   2 !   31.6   0.0     8e-11   9.5e-08       6      42 .]     204     240 ..     199     240 .. 0.94
   3 ?   -0.4   0.1      0.77   9.2e+02       4      20 ..     274     290 ..     271     293 .. 0.76

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 2.2
                   TPR_11   6 eqGkyeeAieaYk 18 
                              e+G+ +++++a++
  PHY93_18990|PHY93_18990 150 ERGNVDQSLTALQ 162
                              79******99986 PP

  == domain 2  score: 31.6 bits;  conditional E-value: 8e-11
                   TPR_11   6 eqGkyeeAieaYkkAlkldPdnaeayynLGlayykqG 42 
                              + Gk+eeA+  +++Al++d +n ++y++L+++ + qG
  PHY93_18990|PHY93_18990 204 KSGKLEEAVSTLERALRIDKNNSDIYFKLAEINMHQG 240
                              68*****************************999887 PP

  == domain 3  score: -0.4 bits;  conditional E-value: 0.77
                   TPR_11   4 yyeqGkyeeAieaYkkA 20 
                                 q+++++Aiea ++A
  PHY93_18990|PHY93_18990 274 RIRQNNNPGAIEAQNNA 290
                              567999*****986666 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.0   1.7e-06    0.0021       3      34 .]     194     225 ..     192     225 .. 0.94
   2 !    9.9   0.0   0.00071      0.85       2      27 ..     227     252 ..     226     254 .. 0.89
   3 ?    1.0   0.0      0.51   6.1e+02       4      28 ..     267     291 ..     265     293 .. 0.84

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 1.7e-06
                    TPR_2   3 alynlGlayyklgdyeeAleafekAleldPnn 34 
                              al+ ++l ++k+g++eeA+  +e+Al++d nn
  PHY93_18990|PHY93_18990 194 ALMDQALELEKSGKLEEAVSTLERALRIDKNN 225
                              7888999**********************998 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 0.00071
                    TPR_2   2 ealynlGlayyklgdyeeAleafekA 27 
                              ++++ l+++ +++g+ +eA+++  k 
  PHY93_18990|PHY93_18990 227 DIYFKLAEINMHQGRSAEAEQLALKG 252
                              689*****************988775 PP

  == domain 3  score: 1.0 bits;  conditional E-value: 0.51
                    TPR_2   4 lynlGlayyklgdyeeAleafekAl 28 
                              +   ++a +++++   A+ea + A 
  PHY93_18990|PHY93_18990 267 WLLVAEARIRQNNNPGAIEAQNNAF 291
                              77889999**********9987775 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.2   0.1   1.6e-09     2e-06       3      47 ..     204     248 ..     202     262 .. 0.93
   2 ?    0.0   0.0         1   1.3e+03      26      46 ..     265     285 ..     249     286 .. 0.75

  Alignments for each domain:
  == domain 1  score: 28.2 bits;  conditional E-value: 1.6e-09
                   TPR_19   3 aegdyaeAlalleqalqedpknaearllLAeallalgqldeAeal 47 
                              ++g+++eA++ le+al  d +n+++   LAe+ + +g+ +eAe+l
  PHY93_18990|PHY93_18990 204 KSGKLEEAVSTLERALRIDKNNSDIYFKLAEINMHQGRSAEAEQL 248
                              579****************************************97 PP

  == domain 2  score: 0.0 bits;  conditional E-value: 1
                   TPR_19  26 earllLAeallalgqldeAea 46 
                               ++ll Aea + +++   A++
  PHY93_18990|PHY93_18990 265 SLWLLVAEARIRQNNNPGAIE 285
                              577888*******99888876 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.0   2.3e-06    0.0027       5      34 .]     196     225 ..     193     225 .. 0.89
   2 !    8.9   0.1    0.0016         2       2      26 ..     227     251 ..     226     253 .. 0.89

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 2.3e-06
                              HHHHHHHHHTT-HHHHHHHHHHHHHHHHH. CS
                    TPR_8   5 ynlgsiylklgdyeeAkeyyekaleldpdn 34 
                              +  ++ ++k g++eeA++++e+al++d++n
  PHY93_18990|PHY93_18990 196 MDQALELEKSGKLEEAVSTLERALRIDKNN 225
                              56788899*******************996 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 0.0016
                              CHHHHHHHHHHHTT-HHHHHHHHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeAkeyyek 26 
                              ++y++l+ i + +g+  eA++   k
  PHY93_18990|PHY93_18990 227 DIYFKLAEINMHQGRSAEAEQLALK 251
                              79*****************997766 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.2   0.0   2.5e-09   2.9e-06       2      34 .]     215     247 ..     214     247 .. 0.96

  Alignments for each domain:
  == domain 1  score: 27.2 bits;  conditional E-value: 2.5e-09
                   TPR_17   2 ylkaleldPnnadaynnLAelllknGdlmtArq 34 
                              +++al++d+nn+d y+ LAe+  ++G++++A+q
  PHY93_18990|PHY93_18990 215 LERALRIDKNNSDIYFKLAEINMHQGRSAEAEQ 247
                              79*****************************98 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   1.4e-06    0.0016       3      44 .]     194     235 ..     192     235 .. 0.94
   2 !   11.4   0.1   0.00039      0.46       3      40 ..     228     269 ..     226     273 .. 0.75
   3 ?    0.0   0.0       1.8   2.1e+03       3      22 ..     266     285 ..     264     286 .. 0.85

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 1.4e-06
                   TPR_14   3 allalaeallalGdpdeAiallrralalaPddaeawlllaql 44 
                              al++ a  l+ +G+++eA+  l+ral+ + ++ ++++ la++
  PHY93_18990|PHY93_18990 194 ALMDQALELEKSGKLEEAVSTLERALRIDKNNSDIYFKLAEI 235
                              788899999******************************985 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 0.00039
                   TPR_14   3 allalaeallalGdpdeAiallrr.alalaPddae...awll 40 
                               + +lae+ +++G+ +eA++l+ + ++++aP++ e   +wll
  PHY93_18990|PHY93_18990 228 IYFKLAEINMHQGRSAEAEQLALKgLVSTAPNNMEkrsLWLL 269
                              5789****************6666257799999543336665 PP

  == domain 3  score: 0.0 bits;  conditional E-value: 1.8
                   TPR_14   3 allalaeallalGdpdeAia 22 
                              ++l+ aea  ++ +  +Ai+
  PHY93_18990|PHY93_18990 266 LWLLVAEARIRQNNNPGAIE 285
                              799999**999999988887 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   4.1e-06    0.0049       3      34 .]     194     225 ..     192     225 .. 0.92
   2 ?    4.9   0.1     0.021        26       2      22 ..     227     247 ..     226     253 .. 0.88

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 4.1e-06
                              HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTH CS
                    TPR_1   3 alynlGnayfklgkydeAleyyekALelnPnn 34 
                              al   ++ + k gk++eA+   e+AL+++ nn
  PHY93_18990|PHY93_18990 194 ALMDQALELEKSGKLEEAVSTLERALRIDKNN 225
                              77888999*********************998 PP

  == domain 2  score: 4.9 bits;  conditional E-value: 0.021
                              HHHHHHHHHHHHTT-HHHHHH CS
                    TPR_1   2 kalynlGnayfklgkydeAle 22 
                              ++++ l+ + +++g+  eA++
  PHY93_18990|PHY93_18990 227 DIYFKLAEINMHQGRSAEAEQ 247
                              789****************98 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.4   0.1   0.00012      0.15      47      76 ..     194     223 ..     191     224 .. 0.85
   2 !    6.8   0.6     0.007       8.3       5      28 ..     228     251 ..     225     293 .. 0.74

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.00012
                   TPR_12  47 tlrnLgrlyralgryeeAlelleealaiae 76 
                              +l + +  ++++g++eeA++ le+al+i++
  PHY93_18990|PHY93_18990 194 ALMDQALELEKSGKLEEAVSTLERALRIDK 223
                              56677888999****************987 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.007
                   TPR_12   5 alnnlaavlrrlgrydeAlellek 28 
                              ++ +la++ +++gr +eA++l  k
  PHY93_18990|PHY93_18990 228 IYFKLAEINMHQGRSAEAEQLALK 251
                              566899999999999999998766 PP

>> TPR_MalT  MalT-like TPR region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   0.3   1.5e-06    0.0018      70     172 ..     182     277 ..     151     290 .. 0.84

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 1.5e-06
                 TPR_MalT  70 arqadslhvallallqqaeilvaqGrLheAletyeqalqlateqglqqlplvgfllvlladllyEwndLeeAeqhlqeGielleql 155
                               +  +++  a++al++qa  l + G+L+eA+ t e+al+ + ++  +       ++ +la++   +++  eAeq +++G+  +   
  PHY93_18990|PHY93_18990 182 GKTKQAPIPAVVALMDQALELEKSGKLEEAVSTLERALR-I-DKNNS------DIYFKLAEINMHQGRSAEAEQLALKGLVSTAPN 259
                              45666777799****************************.3.33333......479999********************9888877 PP

                 TPR_MalT 156 .epeaaldayvllarial 172
                                ++++l  +v+ ari++
  PHY93_18990|PHY93_18990 260 nMEKRSLWLLVAEARIRQ 277
                              5779999999****9997 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.0       3.2   3.8e+03      12      24 ..     150     162 ..     148     163 .. 0.83
   2 ?    6.0   0.1     0.018        21       2      28 ..     194     220 ..     193     224 .. 0.84
   3 !    6.8   0.0      0.01        12       3      32 ..     229     259 ..     227     260 .. 0.91
   4 ?   -0.7   0.0       2.5     3e+03       4      22 ..     268     286 ..     266     286 .. 0.84

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 3.2
                              HHHHHHHHHHHHH CS
                    TPR_6  12 klgdtdkAleale 24 
                              + g+ d++l+al+
  PHY93_18990|PHY93_18990 150 ERGNVDQSLTALQ 162
                              66799******98 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.018
                              HHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   2 AlyklalsyrklgdtdkAlealerlik 28 
                              Al+ +al ++k g+ ++A+ +ler ++
  PHY93_18990|PHY93_18990 194 ALMDQALELEKSGKLEEAVSTLERALR 220
                              7777888888867***********986 PP

  == domain 3  score: 6.8 bits;  conditional E-value: 0.01
                              HHHHHHHHHHHHHHHHHHH.HHHHHHHH-TT CS
                    TPR_6   3 lyklalsyrklgdtdkAle.alerlikeYPd 32 
                              ++kla+    +g++++A + al+ l++  P+
  PHY93_18990|PHY93_18990 229 YFKLAEINMHQGRSAEAEQlALKGLVSTAPN 259
                              8******************999999999998 PP

  == domain 4  score: -0.7 bits;  conditional E-value: 2.5
                              HHHHHHHHHHHHHHHHHHH CS
                    TPR_6   4 yklalsyrklgdtdkAlea 22 
                              ++ a++++++++   A+ea
  PHY93_18990|PHY93_18990 268 LLVAEARIRQNNNPGAIEA 286
                              67899****9999999886 PP

>> TPR_20  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.1   4.1e-05     0.049       7      47 ..     211     251 ..     205     264 .. 0.87
   2 ?   -1.4   0.0       2.6   3.1e+03      17      43 ..     256     285 ..     247     287 .. 0.64

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 4.1e-05
                   TPR_20   7 elaeleaalaanpddldarldlAlallaagryeeAleqLle 47 
                               +++le+al  ++++ d+ ++lA+  +++gr +eA ++ l+
  PHY93_18990|PHY93_18990 211 AVSTLERALRIDKNNSDIYFKLAEINMHQGRSAEAEQLALK 251
                              6899******************************9777665 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 2.6
                   TPR_20  17 anpddldar...ldlAlallaagryeeAle 43 
                              ++p++++ r   l +A+a + ++++  A+e
  PHY93_18990|PHY93_18990 256 TAPNNMEKRslwLLVAEARIRQNNNPGAIE 285
                              555555544222667888888888888876 PP

>> TPR_4  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.0       3.3   3.9e+03      13      24 ..     150     161 ..     148     162 .. 0.83
   2 ?    3.7   0.0      0.11   1.3e+02       2      26 .]     193     217 ..     192     217 .. 0.84
   3 ?    7.2   0.0    0.0077       9.2      12      24 ..     237     249 ..     230     251 .. 0.83

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 3.3
                    TPR_4  13 alGdldeArall 24 
                              ++G+ d+ +++l
  PHY93_18990|PHY93_18990 150 ERGNVDQSLTAL 161
                              79*****99887 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.11
                    TPR_4   2 rallaLArallalGdldeAraller 26 
                              +al ++A  l   G l+eA  +ler
  PHY93_18990|PHY93_18990 193 VALMDQALELEKSGKLEEAVSTLER 217
                              5777788888889**********98 PP

  == domain 3  score: 7.2 bits;  conditional E-value: 0.0077
                    TPR_4  12 lalGdldeArall 24 
                               ++G+++eA++l+
  PHY93_18990|PHY93_18990 237 MHQGRSAEAEQLA 249
                              68********997 PP

>> Clathrin  Region in Clathrin and VPS
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.1   6.7e-05      0.08      17      57 ..     202     241 ..     184     249 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 6.7e-05
                              HHCTT-HHHHCHHHCCHHHCHTS--HHHHHHHHHHHHHTT- CS
                 Clathrin  17 feeaglleelleyLekvlkedskenpalqtallelyakydd 57 
                              +e+ g+lee+ + Le +l  d k+n++++ +l+e++   ++
  PHY93_18990|PHY93_18990 202 LEKSGKLEEAVSTLERALRID-KNNSDIYFKLAEINMHQGR 241
                              577***************776.788**********987765 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.0   0.00065      0.78      10      34 ..     203     227 ..     198     229 .. 0.85
   2 ?   -1.6   0.0         3   3.6e+03       4      21 ..     231     248 ..     228     257 .. 0.75
   3 ?   -3.0   0.0       8.8   1.1e+04       4      20 ..     269     285 ..     266     285 .. 0.74

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00065
                    TPR_7  10 srlGdyeeAielyeqsLaltkdped 34 
                              ++ G+ eeA++ +e++L+++k  +d
  PHY93_18990|PHY93_18990 203 EKSGKLEEAVSTLERALRIDKNNSD 227
                              5789***********9988887665 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 3
                    TPR_7   4 nLarlysrlGdyeeAiel 21 
                               La++   +G+ +eA++l
  PHY93_18990|PHY93_18990 231 KLAEINMHQGRSAEAEQL 248
                              577777789999999876 PP

  == domain 3  score: -3.0 bits;  conditional E-value: 8.8
                    TPR_7   4 nLarlysrlGdyeeAie 20 
                                a+++ r+++   Aie
  PHY93_18990|PHY93_18990 269 LVAEARIRQNNNPGAIE 285
                              56788889998888876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (294 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       767  (0.0427799); expected 358.6 (0.02)
Passed bias filter:                      482  (0.0268838); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.38
# Mc/sec: 2304.07
//
Query:       PHY93_18995|PHY93_18995  [L=214]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.7e-14   53.6   0.0    2.2e-14   53.2   0.0    1.2  1  Acyltransferase  Acyltransferase
     0.0022   17.5   0.0     0.0036   16.8   0.0    1.4  1  DUF374           Domain of unknown function (DUF374)


Domain annotation for each model (and alignments):
>> Acyltransferase  Acyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.2   0.0   2.5e-18   2.2e-14       6     134 ..      35     163 ..      30     164 .. 0.89

  Alignments for each domain:
  == domain 1  score: 53.2 bits;  conditional E-value: 2.5e-18
          Acyltransferase   6 glenlpekgpailvaNHqsylDvlllwlllyksngprnvviiakkellsi.pllgflmr.llgfifidRksnaraagslenisell 89 
                              + ++++  +++i+vaNH+s+lD +   +++  s++ ++v+ +a+ +++   +l++fl +  +++  i+R++ + + ++l+ + +ll
  PHY93_18995|PHY93_18995  35 NINHFKGLKQFIVVANHNSHLDTMSVLAAMPSSQL-TKVHPVAAGDYFGKnKLTQFLTEfFINTLLISRNKSGAKNNALDDMDQLL 119
                              44555557899**************9999988887.89999999999888688888888889************************ PP

          Acyltransferase  90 eegklvviFPEGtrsregellpfkkGlvrlaakakkgvpivPvai 134
                              + gk ++iFPEG r +++ +  fk G+  l+ k   ++p +P+ +
  PHY93_18995|PHY93_18995 120 KDGKSILIFPEGSRGEAEIMQDFKHGASILLKKN-PSIPFIPIFM 163
                              *****************999*******9998888.9******987 PP

>> DUF374  Domain of unknown function (DUF374)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0     4e-07    0.0036      21      67 ..      86     134 ..      84     136 .. 0.90

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 4e-07
                   DUF374  21 iarvlerlGiktirGSsskggae..alremlralkegesvaitpDgPrG 67 
                              ++++l+ + i+t   S +k ga+  al +m + lk+g+s+ i p g rG
  PHY93_18995|PHY93_18995  86 LTQFLTEFFINTLLISRNKSGAKnnALDDMDQLLKDGKSILIFPEGSRG 134
                              57889999999*******99985559**********************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (214 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       358  (0.0199677); expected 358.6 (0.02)
Passed bias filter:                      302  (0.0168442); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.37
# Mc/sec: 1745.82
//
Query:       PHY93_16620|PHY93_16620  [L=322]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.2e-19   70.3   0.3    1.9e-19   69.7   0.3    1.3  1  Peptidase_S74  Chaperone of endosialidase


Domain annotation for each model (and alignments):
>> Peptidase_S74  Chaperone of endosialidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.7   0.3   1.1e-23   1.9e-19       1      58 []     197     254 ..     197     254 .. 0.95

  Alignments for each domain:
  == domain 1  score: 69.7 bits;  conditional E-value: 1.1e-23
                              -TTTTBSS-EC-HHHHHHHCT---EEE-BCCHHHHHGGGGS-BEEE--HHHHHHHHHH CS
            Peptidase_S74   1 SDrRlKtnIrpledalakvlklrpvtYrykdesirkskdsgrrevGfIAQeveavlpe 58 
                              SD R+K+nIrp+++al+k+lkl++v+Y ++++   k++ ++ +++GfIAQeve+v+pe
  PHY93_16620|PHY93_16620 197 SDVRYKKNIRPIQNALEKILKLEGVSYEWRRDEFPKEQFKKGKDIGFIAQEVEKVIPE 254
                              9****************************9999888878999***************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (322 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       700  (0.0390429); expected 358.6 (0.02)
Passed bias filter:                      493  (0.0274974); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.36
# Mc/sec: 2668.94
//
Query:       PHY93_19000|PHY93_19000  [L=317]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.1e-57  195.8  14.3    1.1e-57  195.8  14.3    1.5  2  CTP_transf_1  Cytidylyltransferase family
  ------ inclusion threshold ------
       0.74    9.2   3.1        1.9    7.8   0.2    2.2  2  OSTMP1        Osteopetrosis-associated transmembrane protein 


Domain annotation for each model (and alignments):
>> CTP_transf_1  Cytidylyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.4      0.37   3.4e+03      18      33 ..      17      32 ..       7      41 .. 0.52
   2 !  195.8  14.3   1.2e-61   1.1e-57       3     265 ..      52     315 ..      50     316 .. 0.85

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 0.37
                             TTSH.HHHHHHHHHHH CS
             CTP_transf_1 18 lllgglvflllvavvv 33
                             l+lg ++fl++++ ++
  PHY93_19000|PHY93_19000 17 LVLGAIYFLIIILTLI 32
                             3333333333333333 PP

  == domain 2  score: 195.8 bits;  conditional E-value: 1.2e-61
                              HHHHHHHHHHHHHHTTTSH.HHHHHHHHHHHHHHHHHHHHTT--SHHHHHHHHH....HHHHHHHHHHTTTSSSHHHHHHHHHHHH CS
             CTP_transf_1   3 RvitalvlilivliilllgglvflllvavvvilalkElirlvrlkkrekrllll.llslvlllllllflylesliallklvlllvl 87 
                              R+ +++v+++i++i++++ + + ++ +a+++++a++El +  +l+++++r+ll+ ++ + + +++ +++y+  ++ ++ ++++l+l
  PHY93_19000|PHY93_19000  52 RTRSWWVMLIIFTIVVFVNREIATIGIALLSLIAFRELSSNLNLRDSDRRTLLWcYVAIPFQFMAAYTQYFDFFVIFIPIIMYLFL 137
                              999**********************************************9999945555555555555555444444444444444 PP

                              HHHHHH---...........HHHHHHHHHHHHHHHHHTHHHH.TTHHHHHHHHHH.HHHHHHHHHHHHHHHHHHHHHHCH---B-S CS
             CTP_transf_1  88 vllllvlkvl........kskskklervilallallyvvlllqslllienikegl.llvllllalvvaaDigaYffGklfGktkll 164
                               l+++    +        +s  + +++++l+++ +++++++l s+   e+   g   ++l+l++++ ++Di+++ +Gk+fGk+k++
  PHY93_19000|PHY93_19000 138 TLRTV----AkgdvenitRSIGAIHWSIMLTIFSFSHLAYVL-SFPPKEDFSAGNgGMILFLILITELNDIFQFTCGKFFGKNKII 218
                              44444....35566998778888899999999*999999999.666666666665267888889999******************* PP

                              -TTS---BHHHHHHHHHHHHHHHHHHHHHHHCTS---TTSHHHHHHHHHHHHHHHHHHHHHHHHHHT-SSS-S-SSSSS-HHHHHH CS
             CTP_transf_1 165 pkiSPkKTveGfigGlvaavvvglllalvlskalalsllhllllslllslvavfGDLveSglKRafgiKDsGkliPGhGGilDRlD 250
                              p++SP+KT eGfigG+++++  ++ll  +l+     ++ ++++l++ll++v++ GD++ S++KR+ +iKD+G +iPGhGG++DRlD
  PHY93_19000|PHY93_19000 219 PSVSPNKTTEGFIGGMILTTCTAYLLKFLLPV----NTEKTIILTILLCIVGFGGDITLSAVKREHKIKDMGASIPGHGGMMDRLD 300
                              ****************************9996....7999********************************************** PP

                              HHHHHHHHHHHHHHH CS
             CTP_transf_1 251 sllfaapvvylllel 265
                              sl f+ +++++l+++
  PHY93_19000|PHY93_19000 301 SLAFTSITFFYLIRY 315
                              *****9999999876 PP

>> OSTMP1  Osteopetrosis-associated transmembrane protein 1 precursor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   0.2   0.00021       1.9     193     223 ..      21      52 ..      10      56 .. 0.72
   2 ?    1.4   0.2     0.019   1.7e+02     196     216 ..     124     144 ..     118     153 .. 0.85

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.00021
                   OSTMP1 193 avssfvlllpviFYlssflhseqkk.rklilp 223
                              a+ +++++l++iFY + ++++e k  ++li  
  PHY93_19000|PHY93_19000  21 AIYFLIIILTLIFYSAKMVRGESKLiNELIDR 52 
                              56677****************99852445555 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.019
                   OSTMP1 196 sfvlllpviFYlssflhseqk 216
                              +fv+++p+i Yl  +l+   k
  PHY93_19000|PHY93_19000 124 FFVIFIPIIMYLFLTLRTVAK 144
                              68**********999887665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (317 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       991  (0.0552736); expected 358.6 (0.02)
Passed bias filter:                      349  (0.0194657); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.37
# Mc/sec: 2537.75
//
Query:       PHY93_19005|PHY93_19005  [L=477]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.099   12.4   1.9       0.24   11.2   0.0    2.3  3  Chalcone_2  Chalcone isomerase like


Domain annotation for each model (and alignments):
>> Chalcone_2  Chalcone isomerase like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   1.3e-05      0.24     110     171 ..      64     124 ..      54     134 .. 0.80
   2 ?   -0.7   0.2     0.058     1e+03      42      75 ..     266     300 ..     250     316 .. 0.63
   3 ?   -3.0   0.0      0.28     5e+03      96     116 ..     369     389 ..     362     437 .. 0.55

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 1.3e-05
               Chalcone_2 110 ar.akkkkeeeedeefgeslkefkslFnrkgsvpkgkeLlLerdangeLsvlyedkkkkklek 171
                              ++ ++++k+++++e+ ++ +++ ++ +++ g+++ g++Ll++ d++g Ls  y++++++++  
  PHY93_19005|PHY93_19005  64 NQfTTNNKNSFTEETWKHTIENYEAQLKS-GQLKEGDQLLVMIDTHGGLSRDYQNETTHPI-A 124
                              33223334899*****************9.*************************998754.4 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.058
               Chalcone_2  42 kllskkviat.tlvssekeelkkalldpekseelw 75 
                              ++l+ ++ a+    ++e e+l+k+++d eks++l 
  PHY93_19005|PHY93_19005 266 TYLEASTDANrCVRQNEYEKLQKKISDLEKSSNLT 300
                              33444443331455778999999999977776543 PP

  == domain 3  score: -3.0 bits;  conditional E-value: 0.28
               Chalcone_2  96 dfshLrDGfvraitarakkkk 116
                              df  L   +  ++++r ++++
  PHY93_19005|PHY93_19005 369 DFDSLIKNLYSSLNNRNTSST 389
                              555555555555554444442 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (477 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1206  (0.0672653); expected 358.6 (0.02)
Passed bias filter:                      521  (0.0290591); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.26s 00:00:00.83 Elapsed: 00:00:00.44
# Mc/sec: 3291.77
//
Query:       PHY93_19010|PHY93_19010  [L=117]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (117 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       244  (0.0136092); expected 358.6 (0.02)
Passed bias filter:                      229  (0.0127726); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.19s 00:00:00.57 Elapsed: 00:00:00.36
# Mc/sec: 983.83
//
Query:       PHY93_19015|PHY93_19015  [L=109]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.9e-29  102.2   0.1    2.2e-29  102.0   0.1    1.0  1  NTase_sub_bind  Nucleotidyltransferase substrate binding prot
  ------ inclusion threshold ------
       0.07   13.0   0.0       0.09   12.7   0.0    1.2  1  GatB_Yqey       GatB domain
      0.093   12.4   0.0       0.12   12.0   0.0    1.1  1  RP-C            Replication protein C N-terminal domain


Domain annotation for each model (and alignments):
>> NTase_sub_bind  Nucleotidyltransferase substrate binding protein like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  102.0   0.1   3.6e-33   2.2e-29       3     110 ..       6     108 ..       5     109 .] 0.95

  Alignments for each domain:
  == domain 1  score: 102.0 bits;  conditional E-value: 3.6e-33
                              HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSSCCTTTHHHHHHHHHTTS-S-HHHHHHHHH CS
           NTase_sub_bind   3 lsnlekAlasLeeavelsrddplsdlerdgvIqrFEftyElawkllkryleeegisaeavsprdliReaaeagliedgevwlemle 88 
                              l+n++kAl+ L+ a+++    p +dlerdg+IqrFE+ +E++wk  k++le+++   ea  pr++iRe a+ + i+++++w+++le
  PHY93_19015|PHY93_19015   6 LDNYKKALNTLDLAMSK---PPANDLERDGIIQRFEYCVEISWKSAKKVLEYHEQ--EADTPRNIIRELAKINWIHNPNEWIDFLE 86 
                              689*************9...9*******************************665..77789************************ PP

                              HHGCGGGTTSHHHHHHHHHTHH CS
           NTase_sub_bind  89 dRnltshtYdeetaeevveaia 110
                              +Rn+tsh Y ee+a e+++ ++
  PHY93_19015|PHY93_19015  87 ARNKTSHLYHEEVAIELFKLVP 108
                              ***************9998775 PP

>> GatB_Yqey  GatB domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   1.5e-05      0.09      20      83 ..       5      69 ..       2      88 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 1.5e-05
                             HHTCHHHHHHHHTXXTTCSSTTHHHHHHHHHHHHT.TSSGHHHHHHHHHHHHHHTXXHHHHHHHC CS
                GatB_Yqey 20 llnellgelnkegleieelkltpeqlaellkliae.gkIskkiakevleelleegkspeeiieek 83
                             ll++  + ln  +l++++ + ++ +   ++++++   +Is k+ak+vle   +e  +p++ii+e 
  PHY93_19015|PHY93_19015  5 LLDNYKKALNTLDLAMSKPPANDLERDGIIQRFEYcVEISWKSAKKVLEYHEQEADTPRNIIREL 69
                             56788899999999999988888888899999986369************9999********986 PP

>> RP-C  Replication protein C N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0     2e-05      0.12      44     102 ..      10      76 ..       2      79 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 2e-05
                     RP-C  44 dralavLdaLlsftpeddlseea........rlivfpsNaqLsralglsestlrrhlaaLveaGlii 102
                              ++al+ Ld  +s  p++dl++++          i ++s+++  +++  ++ t r+++++L++  +i+
  PHY93_19015|PHY93_19015  10 KKALNTLDLAMSKPPANDLERDGiiqrfeycVEISWKSAKKVLEYHEQEADTPRNIIRELAKINWIH 76 
                              6789999999999999999999999999888889*****************************9997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (109 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       425  (0.0237046); expected 358.6 (0.02)
Passed bias filter:                      323  (0.0180155); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 837.51
//
Query:       PHY93_19030|PHY93_19030  [L=432]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.8e-26   92.1   0.0    7.7e-26   91.4   0.0    1.3  1  Radical_SAM     Radical SAM superfamily
    9.9e-25   86.5   0.1    2.4e-24   85.2   0.1    1.7  1  UPF0004         Uncharacterized protein family UPF0004
  ------ inclusion threshold ------
      0.046   13.8   0.0       0.12   12.4   0.0    1.7  1  B12-binding     B12 binding domain
      0.099   11.9   0.0       0.26   10.5   0.0    1.6  2  Methyltransf_2  O-methyltransferase domain


Domain annotation for each model (and alignments):
>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   91.4   0.0   1.7e-29   7.7e-26       3     166 ..     152     319 ..     150     320 .. 0.91

  Alignments for each domain:
  == domain 1  score: 91.4 bits;  conditional E-value: 1.7e-29
                              EESEESS--TTTSCCTTHHHHHHHHHHHHHHHHHHHHHHHHHTTSEEEEEESSTGGGS........TTHHHHHHHHHHTCCCTEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx........xxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM   3 vtrgCnlrCsfCarpetvrregrgrslsveeileevkelkaekgvkevilgggeplly........pdfvellerlaklavpgiri 80 
                              ++ gCn+ C fC++p+    +gr+r +s+ + + e+k+l +++g ke++l+g +   y         d+v  l+++  l  + +r+
  PHY93_19030|PHY93_19030 152 IQDGCNYICAFCIIPF---ARGRSRAISIIDAVSEAKKL-VSNGFKEIVLTGVNIGEYehssgeklHDLVASLLAIEGL--ERFRL 231
                              789*************...8*******************.9**********8877777777776666777777777777..78888 PP

                              EEEECSSCHGHHHHHHHHHTT..-SEEEEEEBSSSHHHHHHHHTCTSHHHHHHHHHHHHHHTTSET...EEEEEEEBTTTSHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxx RF
              Radical_SAM  81 tvetngtlpdeeklerllelg..vdrvslgleaaddekvlklmnrghtfeevlealeklreagikr...vvdrivglpGendeele 161
                              + + + t   +e +e l+  +   d+++++l+++dde +lk m+r++t+ ++++ + kl +a +++     d+ivg+pGe++e++e
  PHY93_19030|PHY93_19030 232 SSVEPNTIT-DELIEVLKSSPkvQDHFHIPLQSGDDE-ILKEMRRKYTVADYKRIINKLMAA-FPNagiGADMIVGFPGETKEQFE 314
                              888888887.***************************.************************.*********************** PP

                              HHHHH CS
                              xxxxx RF
              Radical_SAM 162 ellel 166
                              ++++l
  PHY93_19030|PHY93_19030 315 NTFNL 319
                              *9987 PP

>> UPF0004  Uncharacterized protein family UPF0004
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.2   0.1   5.3e-28   2.4e-24       1      98 []      12     107 ..      12     107 .. 0.97

  Alignments for each domain:
  == domain 1  score: 85.2 bits;  conditional E-value: 5.3e-28
                              XEEEE--S-CCCCHHHHHHHHHTTTSSS----SSS--SEEEEEE--SSSSHHHHTHHHHHHHHTTST.--EEEEEEHHHHS-HHHH CS
                  UPF0004   1 kvaietlGCqmNevdseelaslLkkegyelvedeeeAdvvlvnTCavrekaekkviqalrelkalkkpekkvvvlGCmaqrekeel 86 
                              +va++tlGC+ N +++  +a+ +k++gye+v+  e Advv++nTC+v+++a++++++ +r+++  + pe k+vv+GC+aq e+e++
  PHY93_19030|PHY93_19030  12 RVALHTLGCRLNLSETGSIAQGFKDRGYEIVDFGEAADVVFINTCTVTDAADSTCRNLIRKAHGSS-PEGKIVVAGCYAQMEPEKI 96 
                              799*************************************************************99.9****************** PP

                              HHH-TTS-EEE- CS
                  UPF0004  87 lkeepevdlvlg 98 
                              +  +  vdlvlg
  PHY93_19030|PHY93_19030  97 AGMQG-VDLVLG 107
                              *9988.799998 PP

>> B12-binding  B12 binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   2.7e-05      0.12      50     114 ..      46     110 ..      29     112 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 2.7e-05
              B12-binding  50 ekpdvvgl.Sal.ltsqleavkelvellkrirprvkvvvGGahpsldpeetleaklgiddvvvgege 114
                              e++dvv + +++   +  + +++l++ +++ +p+ k+vv G  ++  pe +     g +d v+g  e
  PHY93_19030|PHY93_19030  46 EAADVVFInTCTvTDAADSTCRNLIRKAHGSSPEGKIVVAGCYAQMEPEKIAGM-QG-VDLVLGNSE 110
                              578998885444244556677*****************************8876.88.777988776 PP

>> Methyltransf_2  O-methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   5.8e-05      0.26     128     185 ..      48     105 ..      42     111 .. 0.86
   2 ?   -3.5   0.0       1.1   5.1e+03     121     160 ..     257     296 ..     254     304 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 5.8e-05
                              -SEEEEESS.GGGS-HHHHHHHHHHHHHH--TT-EEEEEE----TTS---HHHHHHHHH CS
           Methyltransf_2 128 aDaillkrv.lhDwsdekcvklLkrvkkalpagGkvivveavlgadpsgeletelvdli 185
                              aD+++++   + D +d +c++l+++ + +  ++Gk++v+ +  + +p++    ++vdl+
  PHY93_19030|PHY93_19030  48 ADVVFINTCtVTDAADSTCRNLIRKAHGSS-PEGKIVVAGCYAQMEPEKIAGMQGVDLV 105
                              788888764278***********9998776.579**************99999999886 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 1.1
                              TTS-----SEEEEESSGGGS-HHHHHHHHHHHHHH--TT- CS
           Methyltransf_2 121 fkdslPeaDaillkrvlhDwsdekcvklLkrvkkalpagG 160
                              f+ +l ++D  +lk +   ++ ++ +++++++  a p+ G
  PHY93_19030|PHY93_19030 257 FHIPLQSGDDEILKEMRRKYTVADYKRIINKLMAAFPNAG 296
                              5455557888888888888888888888888888888766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (432 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       443  (0.0247086); expected 358.6 (0.02)
Passed bias filter:                      378  (0.0210832); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.39
# Mc/sec: 3353.03
//
Query:       PHY93_19035|PHY93_19035  [L=487]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.9e-41  141.7   0.1    4.5e-41  140.4   0.1    1.6  1  FAD_binding_5  FAD binding domain in molybdopterin dehydrogen
    1.6e-27   95.3   1.9    3.6e-27   94.2   1.9    1.6  1  Fer2_2         [2Fe-2S] binding domain
    3.8e-25   88.0   0.0    8.6e-25   86.9   0.0    1.6  1  CO_deh_flav_C  CO dehydrogenase flavoprotein C-terminal domai
    0.00024   21.0   3.4     0.0028   17.5   0.1    2.4  2  Fer2           2Fe-2S iron-sulfur cluster binding domain


Domain annotation for each model (and alignments):
>> FAD_binding_5  FAD binding domain in molybdopterin dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  140.4   0.1     1e-44   4.5e-41       5     170 ..     210     373 ..     202     374 .. 0.98

  Alignments for each domain:
  == domain 1  score: 140.4 bits;  conditional E-value: 1e-44
                              EEE-SSHHHHHHHHHHCTTSEEESS-TTHHHHHHHTT---SEEEEGTTSGGGS-EEEESSEEEEETTSBHHHHHHHHHHHHHHHHS CS
            FAD_binding_5   5 ylrpasleealallaaepdaklvaGgtdlgvlmkekvarpehliditgipelkeieeteggleiGAavtlselaaealvrerypal 90 
                              ++ p s+e+a++++a++ d +l++G+td+gv +++++++ ++ + + +i+el+ i+++++++++GA++tlse   e+ ++  +p++
  PHY93_19035|PHY93_19035 210 IFLPVSVEQAVKAKAEDADLRLIGGSTDIGVVVNKGRLNTPKTMALYHIDELRIISHDQQHIRVGATATLSEF--EDYIEGFIPEM 293
                              678**********************************************************************..9********** PP

                              HHHHHTSS-HHHHHH-BHHHHHHHT-TT-SSHHHHHHTTEEEEEEESSEEEEEECHHHEEETTEESS-TT-EEEEEEEE- CS
            FAD_binding_5  91 sealekiAspqiRnvaTiGGNlataspisDlapaLlaldAevelrsaegerevpleeflkgpgktalepgelitaveiPa 170
                              ++ l+ +Aspqi+n+aT+ GN++++spi+D++p L++ d++v l+s +g rev ++ef+ g+++  + ++e++++v+iP+
  PHY93_19035|PHY93_19035 294 KKILHIFASPQIKNQATLVGNVVNGSPIADTIPYLMVSDSRVLLQSVNGVREVLMSEFYLGYKNLNMATNEIVVSVKIPR 373
                              *******************************************************************************7 PP

>> Fer2_2  [2Fe-2S] binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   94.2   1.9   7.9e-31   3.6e-27       1      75 [.      88     165 ..      88     166 .. 0.88

  Alignments for each domain:
  == domain 1  score: 94.2 bits;  conditional E-value: 7.9e-31
                   Fer2_2   1 TveglgeeleelhpvqeafveegasqCGyCtpGfvmsaaalleene...pkpteeeirealsgnlCRCtgYrpivdAv 75 
                              Tveg++ + +elhpvq+++v++++ qCGyCtpGf++++a++ e+ +   ++ te+++++ l+gnlCRCtgY+pi++A+
  PHY93_19035|PHY93_19035  88 TVEGIRISDTELHPVQQSMVDCQGAQCGYCTPGFICAMAGMAEKYKnenKEITEKKAKNFLTGNLCRCTGYKPILEAA 165
                              99***988669******************************6555433377777888899****************97 PP

>> CO_deh_flav_C  CO dehydrogenase flavoprotein C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.9   0.0   1.9e-28   8.6e-25       2     102 ..     382     482 ..     381     483 .. 0.98

  Alignments for each domain:
  == domain 1  score: 86.9 bits;  conditional E-value: 1.9e-28
                              EEEEESSSSSS-ESEEEEEEEEEETTCEECEEEEEEESSSSS-EE-HHHHHHHTTSBSSHHHHHHHHHHHHTTCHHHTCTTC-HHH CS
            CO_deh_flav_C   2 ayklsrrrendiaivnaAfrveleedgkiedariafggvaptpvraekaeaaLiGkplseelleeaakaleeelspasdprasaeY 87 
                               yk+s r++ di++v+ A  +el++++ki++a +++ggva+t++r + +e  +iG ++s+ ++e++ak+l + +sp sd+ras+eY
  PHY93_19035|PHY93_19035 382 LYKVSMRKDLDISAVTFAGIIELDQKNKIKKAHFCLGGVAATVIRLKDIELKMIGADFSKLTFEDIAKTLPQYISPLSDLRASKEY 467
                              69************************************************************************************ PP

                              HHHHHHHHHHHHHHH CS
            CO_deh_flav_C  88 Rrslavsllfrflle 102
                              R+++a++++ +f +e
  PHY93_19035|PHY93_19035 468 RMKVAQNFFLKFHNE 482
                              ************987 PP

>> Fer2  2Fe-2S iron-sulfur cluster binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.1   6.3e-07    0.0028       2      49 ..      10      58 ..       9      79 .. 0.76
   2 ?    3.8   0.6     0.012        56      33      44 ..     107     118 ..      94     153 .. 0.89

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 6.3e-07
                             ETTTEEEEEEEETTTHBHHHHHHH.TTTTTSTTSSSSSSSSTTEEEEEE CS
                     Fer2  2 tidgkevevevadgettlldaaee.nggidipysCggggCgtClvevle 49
                             ti+++++e+e ++   +l  ++++  + ++++  C +g Cg+C+v + +
  PHY93_19035|PHY93_19035 10 TINDQRYEIEGEKAFMSLGTFLRQeVNLTGTKIVCAEGDCGACTVLLAS 58
                             78999999999999999******87779****************97653 PP

  == domain 2  score: 3.8 bits;  conditional E-value: 0.012
                              TSSSSSSSSTTE CS
                     Fer2  33 ysCggggCgtCl 44 
                              ++C+g++Cg C+
  PHY93_19035|PHY93_19035 107 VDCQGAQCGYCT 118
                              69**999****7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (487 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       602  (0.0335769); expected 358.6 (0.02)
Passed bias filter:                      436  (0.0243181); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.56u 0.21s 00:00:00.77 Elapsed: 00:00:00.38
# Mc/sec: 3809.35
//
Query:       PHY93_19040|PHY93_19040  [L=773]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
   5.5e-187  622.6   0.1     7e-187  622.2   0.1    1.0  1  Ald_Xan_dh_C2  Molybdopterin-binding domain of aldehyde dehyd
    9.8e-13   48.4   0.0    2.1e-12   47.4   0.0    1.5  1  Ald_Xan_dh_C   Aldehyde oxidase and xanthine dehydrogenase, a


Domain annotation for each model (and alignments):
>> Ald_Xan_dh_C2  Molybdopterin-binding domain of aldehyde dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  622.2   0.1  7.8e-191    7e-187      14     550 .]     145     705 ..     134     705 .. 0.97

  Alignments for each domain:
  == domain 1  score: 622.2 bits;  conditional E-value: 7.8e-191
                              EEE-HHHHHHH-S.EEEEEEEEEEBE---SS--EEEEEEETCTTEEEEEES-SSHHHHHHHHHHHHT--GGGEEEE-SB-S--TTT CS
            Ald_Xan_dh_C2  14 ekGdveaafaeadhvvegefrtgrqehfylEtqaalavpddedgeltvysstqaphevrrlvaevlglpenkvrvivprvGGGFGg 99 
                               +G+ve+a+++++hv++g+f++g+qehfy+E qa++a+p  e+g+++++ss+q+p+e++++va++l l+ ++v+++v+r+GGGFGg
  PHY93_19040|PHY93_19040 145 IRGEVESALKNSPHVLKGHFECGGQEHFYMESQASIAYP-LENGQMEIHSSSQHPTETQHVVAHALHLDFSQVVCVVKRMGGGFGG 229
                              57*************************************.99******************************************** PP

                              T.SS--HHHHHHHHHHHHHTS-EEEE--HHHHHHHS-EEEEEEEEEEEEE-TTS-EEEEEEEEEEEESSTHHHCHCCHCCTTGGGT CS
            Ald_Xan_dh_C2 100 K.tqsvplevlaalaAkktgrpVklvldReedmlatgkrhpfkikykvgadkdGkitaldvdlladaGayadlspavleralshld 184
                              K +q+++ +++aal+A+k++rp +lvl++++dm++tgkrhp+k +y++g+d++Gki+a++ +++ ++Gay+dl+p++l+ra++h+d
  PHY93_19040|PHY93_19040 230 KeSQAAHFAAMAALVAYKLKRPARLVLTKDDDMMMTGKRHPCKNTYEIGFDDQGKILAFKTQIYVNGGAYTDLTPSILDRAMFHID 315
                              ************************************************************************************** PP

                              TTB--SEEEEEEEEEE-SSS-EE-SSTTTHHHHHHHHHHHHHHHHHHHT--HHHHHHHHBCECGCC...SEEETEESSS-HHHHHH CS
            Ald_Xan_dh_C2 185 gpYkipnvrvegrvvytNtppntafRGfGgpqamfalErlmdelAeelgldplelRrrNlikpgel..tpygqpvydsgdlpelld 268
                              g+Y ++++ +eg +++tN+++ntafRGfGgpq+++ +E++++++A+ l++d +++Rr Nl+ ++++  tpygq  +d++ lpe++d
  PHY93_19040|PHY93_19040 316 GCYYFEHCLIEGAALRTNQHSNTAFRGFGGPQGNMTIESIIEDMANYLHIDSYQIRRLNLYGTDSRnlTPYGQL-VDNNVLPEIFD 400
                              *************************************************************88766559****8.7********** PP

                              HHHHHHTHHHHHHSCCHHC.CT.ECEEEEEEEEEEEEBS--S.EETTEEEEEEEEE-TTS-EEEEESS--SSS-HHHHHHHHHHHH CS
            Ald_Xan_dh_C2 269 klkessdyeerraeqaefn.ag.wkkrGiglapvvegiglgftakflnqegalvrvntdGsvtvstggtemGqGletklaqiaaee 352
                              kl +ss+y++   e++ fn a+ +k rG++++ +++gi  +fta+flnq++alv+++ dG+v+vstg+temGqG +tk++qiaa +
  PHY93_19040|PHY93_19040 401 KLYKSSNYKQMASEIKLFNlAEsGKIRGLSMTGCKFGI--AFTARFLNQGNALVNIHLDGTVQVSTGATEMGQGVNTKMQQIAAGA 484
                              *******************8555777************..9999****************************************** PP

                              HT--GGGEEEE-SBTTSSS----S-TT-HHHHHHHHHHHHHHHHHHHHHHHHH.................HHCTS-CCCEEEETTE CS
            Ald_Xan_dh_C2 353 LgvpledvrvvegdtdkvpngsgtaaSrstdlngnAvkkAaeklrerllkiaa.................ellevspedleledgk 421
                              +g+p ++v +++++t+k  n+s+taaS+++d+ng+A++ A+ek+ +rl+ ia+                  l  v+++ + +e+++
  PHY93_19040|PHY93_19040 485 FGIPASSVVMMPTSTEKNHNTSPTAASSGADINGAATLLACEKILARLRWIAHlhfsgvtsndkdefppfVLGAVNTDHIVFENET 570
                              ******************************************************99999999999999987888999999999999 PP

                              EEET..EEEECHHHHHHHHHHTTSSEEEEEEE.......EEEETHCHCSBBEEEEEEEEEEEEETTT--EEEEEEEEEEE-BS-S- CS
            Ald_Xan_dh_C2 422 vvvk..eksvslaelaaaaylervslsatgfykt....ldeetgkgppfayfaygaavaeVevDtetgevkvlrvvivhDvGksiN 501
                              v++   +ks+++ e+ + ay++rvsl   +f+kt    +d++t +g++f+yf++gaa++ Ve+D  tge kvlr++i++D G+ iN
  PHY93_19040|PHY93_19040 571 VRHLltNKSMTWVEILKMAYFNRVSLGGYAFFKTeglgFDKKTLSGKAFNYFTNGAAMSMVEIDEYTGELKVLRTDILMDLGRPIN 656
                              9999999******************************************************************************* PP

                              HHHHHHHHHHHHHHHHHHHHT---EEETTTEESS-STTTS----GGGS- CS
            Ald_Xan_dh_C2 502 paivegQieGGfvqGiGlalmEelvydedGqlltasladYkiPtaadiP 550
                              p i++gQ+ G+fvqG+G++++E+l y ++G+ll++s+++YkiP ++d+P
  PHY93_19040|PHY93_19040 657 PGIDIGQVSGAFVQGMGWVTTENLFYHQSGKLLSHSPTTYKIPNIQDTP 705
                              ***********************************************98 PP

>> Ald_Xan_dh_C  Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.4   0.0   2.3e-16   2.1e-12       1     108 [.      17     121 ..      17     122 .. 0.93

  Alignments for each domain:
  == domain 1  score: 47.4 bits;  conditional E-value: 2.3e-16
                              TT-SCCGGGCC-TTTE.EEEEEE-SSSSEEEEEEE-HHHHCSTTEEEEEEHHHHCCGTECCTTSSS-EEEESS-SSEESSTT-EEE CS
             Ald_Xan_dh_C   1 tGeavYvdDipapgal.ylafvrStkahAkivsidvsaalalpGVvavitakdlpkenkaigsiledeedallaedkvrsvgqava 85 
                              tGe +++dD p+ +++  + ++  +++ +++++id+s+al+l+G++ ++takd p++  ++g+i ++++  +l++d + +  ++ +
  PHY93_19040|PHY93_19040  17 TGESIFIDDRPMLKNEvLVGVLGAPVSAGNVLKIDFSEALKLDGILGIYTAKDFPHN--KWGTIVAEQP--ILVDDIIGYIDEPLC 98 
                              8***************77788999*******************************99..6666777765..*************** PP

                              EEEESSHHHHHHHHHT-EEEEEE CS
             Ald_Xan_dh_C  86 avvAedeetArkAaklvkveYee 108
                              +++  +  + ++A kl+k+e ee
  PHY93_19040|PHY93_19040  99 LIAGLNDDVINRAKKLIKIEVEE 121
                              *******************9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (773 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       411  (0.0229238); expected 358.6 (0.02)
Passed bias filter:                      380  (0.0211947); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.70u 0.26s 00:00:00.96 Elapsed: 00:00:00.46
# Mc/sec: 5035.58
//
Query:       PHY93_19045|PHY93_19045  [L=259]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.2e-33  114.2   0.0    8.3e-33  113.6   0.0    1.3  1  XdhC_C           XdhC Rossmann domain
    4.5e-14   52.4   0.1    7.5e-14   51.7   0.1    1.3  1  XdhC_CoxI        XdhC and CoxI family
    0.00092   19.5   0.0     0.0023   18.2   0.0    1.9  1  TrkA_N           TrkA-N domain
     0.0048   17.2   0.0     0.0077   16.5   0.0    1.3  1  Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding doma
     0.0051   16.2   0.0     0.0079   15.6   0.0    1.5  1  2-Hacid_dh_C     D-isomer specific 2-hydroxyacid dehydrogenas
     0.0077   16.3   0.0      0.013   15.5   0.0    1.3  1  Shikimate_DH     Shikimate / quinate 5-dehydrogenase
     0.0097   16.3   0.0      0.019   15.4   0.0    1.5  1  NAD_binding_7    Putative NAD(P)-binding
  ------ inclusion threshold ------
      0.012   15.0   0.1      0.041   13.2   0.0    2.0  3  AlaDh_PNT_C      Alanine dehydrogenase/PNT, C-terminal domain
      0.015   15.8   0.0      0.052   14.1   0.0    1.9  2  Pyr_redox        Pyridine nucleotide-disulphide oxidoreductas
      0.039   14.6   0.0      0.085   13.5   0.0    1.6  1  F420_oxidored    NADP oxidoreductase coenzyme F420-dependent
      0.051   13.4   0.0      0.082   12.8   0.0    1.3  1  3HCDH_N          3-hydroxyacyl-CoA dehydrogenase, NAD binding
      0.064   12.5   0.0      0.097   11.9   0.0    1.3  1  Pyr_redox_2      Pyridine nucleotide-disulphide oxidoreductas
       0.13   12.4   0.0       0.22   11.6   0.0    1.4  1  Lipase_GDSL_3    GDSL-like Lipase/Acylhydrolase family


Domain annotation for each model (and alignments):
>> XdhC_C  XdhC Rossmann domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  113.6   0.0     6e-36   8.3e-33       2     125 .]     109     250 ..     108     250 .. 0.93

  Alignments for each domain:
  == domain 1  score: 113.6 bits;  conditional E-value: 6e-36
                              EEE--STTHHHHHHHHHHHTEEEEEEES-GGGG-GGG-TT-SE...................-EEEE--S-HHHHHHHHHHHSS.S CS
                   XdhC_C   2 vifGaghvaqalarlaaalgfrvtvvdpreefatkerfpeade...................tavvvlthdhklDaealeaalr.k 67 
                              ++fGaghv+q+l+rl+ +l++++t++dpr+e    e+fpe  +                   t++  +t +h++D ++l++a++  
  PHY93_19045|PHY93_19045 109 AVFGAGHVSQELVRLLVKLDCDITCIDPRPE--WLEKFPEHFRlkkiqtddmksvlktlhpkTFITSVTMGHAFDLPILKEAMTmF 192
                              79****************************8..467788555577788899999999**************************755 PP

                              --SEEEESS-HHHHHHHCTTS.--.......TTEESS-S--S---SHHHHHHHHHHHH CS
                   XdhC_C  68 kaayigllGSrkkaarrlerlraaglseeelarlhaPiGldigaktpeeIAvsilAei 125
                              +++y+g++GS +ka+ ++++l+++g++e+ +++lh+PiG + g ++p eIA+si+A++
  PHY93_19045|PHY93_19045 193 NFPYLGAIGSDSKARVLKADLKKSGVDEKLIEKLHCPIGEAFGNNSPVEIAISIVAQL 250
                              688*****************************************************97 PP

>> XdhC_CoxI  XdhC and CoxI family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.7   0.1   5.4e-17   7.5e-14       2      59 ..      13      70 ..      12      79 .. 0.92

  Alignments for each domain:
  == domain 1  score: 51.7 bits;  conditional E-value: 5.4e-17
                             HHCT..EEEEEEEEEECSSSSGTT-EEEEETTS-EEE-SSSSCHHHHHHHHHHHHHHC CS
                XdhC_CoxI  2 laagrpvalaTVvdteGsaprplGakmlvrpdgrviGsvgggclEaavideArallaa 59
                             ++a  +++++T v+++Gsap+++Ga+ +v   g ++G+vggg +Ea++i+ A +lla 
  PHY93_19045|PHY93_19045 13 REASTACVVVTMVSVRGSAPQEVGARIIVGNLGLLYGTVGGGKIEAKAIQSAKELLAL 70
                             688899***************************88********************985 PP

>> TrkA_N  TrkA-N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.0   1.6e-06    0.0023       1      57 [.     108     164 ..     108     220 .. 0.87

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 1.6e-06
                              EEEES-SHHHHHHHHHHHH.TTEEEEEEESSHHHHHHHHHTT.SEEEES-TTSHHHHHH CS
                   TrkA_N   1 iiiiGlGrvGrslaeeLse.ggkdvvvidkdeerveelreeg.levvvgdatdeevLee 57 
                              i++ G+G v ++l++ L + ++ d++ id ++e +e++ e++ l+ ++ d   ++vL+ 
  PHY93_19045|PHY93_19045 108 IAVFGAGHVSQELVRLLVKlDC-DITCIDPRPEWLEKFPEHFrLKKIQTDDM-KSVLKT 164
                              78*****************999.7**************99996666666643.555555 PP

>> Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   5.6e-06    0.0077       1      73 [.     108     171 ..     108     190 .. 0.75

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 5.6e-06
                              EEEE--SHHHHHHHHHHHCTCCT-GEEEEEESSHHHHHHHHCHHTTTCEEEEE--TTTHHHHHHHHHTTSSEE CS
          Sacchrp_dh_NADP   1 vliiGaGsvGqavaellarhfdvdaeitvadrskeklealaakalgvrfeaialdaenyeavLaallkegdlv 73 
                              + ++GaG v+q +++ll++  d   +it++d+  e le+  +      f  ++++ ++ ++vL+ l   ++++
  PHY93_19045|PHY93_19045 108 IAVFGAGHVSQELVRLLVKL-DC--DITCIDPRPEWLEKFPE-----HFRLKKIQTDDMKSVLKTL-HPKTFI 171
                              679****************7.56..7**********999986.....4666777777888877664.444444 PP

>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   5.8e-06    0.0079      33      73 ..     102     142 ..      49     171 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 5.8e-06
                              -GTTSEEEEES-SHHHHHHHHHHHHTT-EEEEESSSHHHHH CS
             2-Hacid_dh_C  33 elsgktvGiiGlGrIGqavakrlkafgmkviaydrskkkee 73 
                               ls+ +++++G+G++ q++ ++l +++++++++d++++  e
  PHY93_19045|PHY93_19045 102 PLSDWKIAVFGAGHVSQELVRLLVKLDCDITCIDPRPEWLE 142
                              68899*******************************98444 PP

>> Shikimate_DH  Shikimate / quinate 5-dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   9.6e-06     0.013       5      85 ..      99     177 ..      96     192 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 9.6e-06
                              HHHS..TT-EEEEES-SHHHHHHHHHHHCCT-CEEEEEESSHHHHHHHHHHHT.ET-EEEEGCGHHHHHHT-SEEEE-SSS CS
             Shikimate_DH   5 kkleslkekkvlliGaGemaelvakhLlakgvkkvvvaNRtlerakelaeelkgeeiealkleelkellaeadvvisatas 85 
                              k+l+ l++ k+ + GaG +++++++ L++  ++ ++ +    e  +++ e+++ ++i++ +++++ + l+    + s t+ 
  PHY93_19045|PHY93_19045  99 KILP-LSDWKIAVFGAGHVSQELVRLLVKLDCD-ITCIDPRPEWLEKFPEHFRLKKIQTDDMKSVLKTLHPKTFITSVTMG 177
                              5554.8999***********************9.9999999***********99999999999999999988888777765 PP

>> NAD_binding_7  Putative NAD(P)-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   1.4e-05     0.019       5      50 ..     103     150 ..     100     193 .. 0.73

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 1.4e-05
            NAD_binding_7   5 lkgkkvlvvGgGevAarkvrklleagakvtvvapev..keele..elvkl 50 
                              l++ k+ v+G+G v ++ vr l++ ++++t ++p+       +  e ++l
  PHY93_19045|PHY93_19045 103 LSDWKIAVFGAGHVSQELVRLLVKLDCDITCIDPRPewL--EKfpEHFRL 150
                              678899****************************96331..223333332 PP

>> AlaDh_PNT_C  Alanine dehydrogenase/PNT, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.0       3.8   5.3e+03      89     105 ..      15      31 ..      11      36 .. 0.75
   2 ?   -1.7   0.1       1.1   1.5e+03      34      52 ..      51      69 ..      49      73 .. 0.88
   3 ?   13.2   0.0     3e-05     0.041      29      78 ..     106     156 ..      84     216 .. 0.84

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 3.8
                              HHH-SEEEE---BTTSS CS
              AlaDh_PNT_C  89 vkeadvvigtvlipGkk 105
                              +++a vv++ v + G++
  PHY93_19045|PHY93_19045  15 ASTACVVVTMVSVRGSA 31 
                              55677899999988864 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 1.1
                             ESTSHHHHHHHHHHHHTT- CS
              AlaDh_PNT_C 34 iGgGvaGlqAiatakglga 52
                             +GgG    +Ai+ ak+l a
  PHY93_19045|PHY93_19045 51 VGGGKIEAKAIQSAKELLA 69
                             79999999*****999865 PP

  == domain 3  score: 13.2 bits;  conditional E-value: 3e-05
                              -EEEEESTSHHHHHHHHHHHHTT-EEEEEESSHHHHHHHHH.TTTCECEEH CS
              AlaDh_PNT_C  29 akvlviGgGvaGlqAiatakglgakVtvlDvrparleqles.lgakfvevl 78 
                               k+ v+G+G + ++ ++  ++l+ ++t +D rp+ le++ + +  k +++ 
  PHY93_19045|PHY93_19045 106 WKIAVFGAGHVSQELVRLLVKLDCDITCIDPRPEWLEKFPEhFRLKKIQTD 156
                              5899***********************************998888877762 PP

>> Pyr_redox  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0       5.9   8.2e+03       5      22 ..      51      71 ..      50      78 .. 0.59
   2 ?   14.1   0.0   3.8e-05     0.052       1      42 [.     107     148 ..     107     175 .. 0.90

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 5.9
                             ECSSHH...HHHHHHHHHHTT CS
                Pyr_redox  5 vGgGyi...glElAgalaelg 22
                             vGgG i   ++  A++l +l 
  PHY93_19045|PHY93_19045 51 VGGGKIeakAIQSAKELLALD 71
                             788877444555666665555 PP

  == domain 2  score: 14.1 bits;  conditional E-value: 3.8e-05
                              EEEEECSSHHHHHHHHHHHHTTSEEEEEESSSSSSTTSSHHH CS
                Pyr_redox   1 kvvvvGgGyiglElAgalaelgkkVtvversdkllrllDeea 42 
                              k++v G+G +  El   l +l +++t+++ +++ l +++e +
  PHY93_19045|PHY93_19045 107 KIAVFGAGHVSQELVRLLVKLDCDITCIDPRPEWLEKFPEHF 148
                              699********************************9998876 PP

>> F420_oxidored  NADP oxidoreductase coenzyme F420-dependent
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   6.1e-05     0.085       1      57 [.     107     160 ..     107     183 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 6.1e-05
                              EEEEETTSHHHHHHHHHHHHTTS-GGCEEEEEESSCCCHHHHHHHHC.-EEECECHHH CS
            F420_oxidored   1 kigiiGaGnmgealasgllaagaqpheivvansrnpekaeelaeelg.vkvtavdnee 57 
                              ki++ GaG++ + l++ l++ +    +i+ + ++ pe +e++ e++   k+++ d + 
  PHY93_19045|PHY93_19045 107 KIAVFGAGHVSQELVRLLVKLD---CDITCI-DPRPEWLEKFPEHFRlKKIQTDDMKS 160
                              79********************...****88.************99955555544444 PP

>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   5.9e-05     0.082       1      71 [.     107     169 ..     107     189 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 5.9e-05
                              EEEEE--SCCHHHHHHHHHHTT-EEEEE-S-HHHHHHHHHHHHHHHHCCTTTTSS-HHHHCCCHHCEEEES CS
                  3HCDH_N   1 kvaviGaGtmGagiaavfasagleVvlvdiseealekalekieksleklvekgklkeeeveaalarisftt 71 
                              k+av GaG + +++  ++++ +++++ +d ++e lek  e+ +         +k+++++++++l++++++t
  PHY93_19045|PHY93_19045 107 KIAVFGAGHVSQELVRLLVKLDCDITCIDPRPEWLEKFPEHFRL--------KKIQTDDMKSVLKTLHPKT 169
                              69***********************************9999885........3344444445555444444 PP

>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0     7e-05     0.097     143     186 ..     106     149 ..      70     160 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 7e-05
                              SEEEEES-SHHHHHHHHHHHHHT-EEEEEESSSSSSTTS-HHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 143 krivvvGgGyiGvElAaalaklgkevtlveardrllraldkels 186
                               +i+v G+G ++ El   l kl +++t ++ r++ l+++++ ++
  PHY93_19045|PHY93_19045 106 WKIAVFGAGHVSQELVRLLVKLDCDITCIDPRPEWLEKFPEHFR 149
                              689*********************************99999875 PP

>> Lipase_GDSL_3  GDSL-like Lipase/Acylhydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00016      0.22      37      97 ..     106     172 ..      89     187 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00016
            Lipase_GDSL_3  37 vnLgfsGnalleaeladvlaevdasvfvldllpN......asaeeire.rleyfvktlrkahPktpil 97 
                              + +++ G++ + +el+ +l ++d ++  +d  p         +  +++ +++ + + l+  hPkt i 
  PHY93_19045|PHY93_19045 106 WKIAVFGAGHVSQELVRLLVKLDCDITCIDPRPEwlekfpE-HFRLKKiQTDDMKSVLKTLHPKTFIT 172
                              789999****************************9996632.2223222578889999999***9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (259 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       559  (0.0311785); expected 358.6 (0.02)
Passed bias filter:                      517  (0.028836); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.47u 0.19s 00:00:00.65 Elapsed: 00:00:00.36
# Mc/sec: 2134.61
//
Query:       PHY93_21290|PHY93_21290  [L=365]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.4e-38  131.4   0.0    4.3e-38  131.0   0.0    1.0  1  AMP-binding    AMP-binding enzyme
    4.1e-14   53.3   0.0    7.5e-14   52.5   0.0    1.4  1  AMP-binding_C  AMP-binding enzyme C-terminal domain


Domain annotation for each model (and alignments):
>> AMP-binding  AMP-binding enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  131.0   0.0   4.7e-42   4.3e-38     165     421 ..      18     270 ..      14     272 .. 0.86

  Alignments for each domain:
  == domain 1  score: 131.0 bits;  conditional E-value: 4.7e-42
                              EEE--SSSS-EEEEEEHHHHHHHHHHHHHHHC.SCCTTT-EEEESS-TTSCHHHHHHHHHHHHTT-EEEE-TTCGCCHHHHHHHHH CS
              AMP-binding 165 iYTSGTTGkPKGVmlshrnlvanvaslkletr.fklkeddvvlsilplahifglilelllallsGatvvllpkdaaldpkllleli 249
                              +YTSGT G PK+++l  + l ++ +++ +++   +++++ +++ +lp +   gl   +l++++  +++v+ + ++  +   +++++
  PHY93_21290|PHY93_21290  18 LYTSGTIGLPKAIVLDGDRLWSSGHTF-VRQNgLNFESNFRIWNYLPQSYLGGLFNLCLIPMTIAGSIVVDEAFSGKTFLSFWQTV 102
                              7*******************9998887.56665778899***************9***************8888775545567*** PP

                              HHHT-SEEEEEHHHHHHHHH.CCCHHCHHHHCCGTT.-SEEEEESS-EBHHHHHHHHHHHTCEEEEEEEEGGGSSECEE.CHCTTT CS
              AMP-binding 250 eklkvtviagvPrvlealle.sgalkaakkakdlss.lrlvllggeplspellrffralfgeevlegYGlTEttgvvtv.lpleed 332
                              +++  t ++ vP++++ ll   +  +  ++ k+ +  +++++lg +p++ ++ ++f++lfg ++le YGl+Ett +++  l+ ++ 
  PHY93_21290|PHY93_21290 103 DRYDLTALWFVPTIVRGLLTiGE-QTHRYETKSYKEiIKIAFLGTAPIELATKEKFEELFGIKLLENYGLSETTFITSEkLN-DHI 186
                              ******************99554.333566777788899999***********************************87545.555 PP

                              CTSTTS-BEE-TTEEEEEE-TTTSCBEETTSEEEEEEEETTS-SEBTT-HHHHHHHEEETCCEEEEEEEEEEETTSEEEEEEECCC CS
              AMP-binding 333 kkklgsvGkplpgvevkivDeetgepvpdgeeGellvrgpgvmkgYlkkpeataeafdsegrwlrTGDlgrldedGyleivgRkkd 418
                              k++  svG  lp vevk     t +        e+lv+ p ++ gYl  + + +     e++++ TGDlg+++e+G+l i+gR kd
  PHY93_21290|PHY93_21290 187 KSSEASVGNLLPYVEVKFRPVGTDKDPTF---QEVLVKTPFLFDGYLDVENKISTNS--ENGFFPTGDLGFINEKGQLIITGRCKD 267
                              678899************98877766644...5**************7744444443..467************************ PP

                              EEE CS
              AMP-binding 419 lik 421
                              +ik
  PHY93_21290|PHY93_21290 268 IIK 270
                              **9 PP

>> AMP-binding_C  AMP-binding enzyme C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.5   0.0   8.4e-18   7.5e-14       1      76 []     280     356 ..     280     356 .. 0.93

  Alignments for each domain:
  == domain 1  score: 52.5 bits;  conditional E-value: 8.4e-18
                              HHHHHHHSSTTEEEEEEE-----TTS---EEEEEE---.---HHHHHHHHHHHHT-TTTS-SEEEE-S---B-TTS- CS
            AMP-binding_C   1 evEsalvshpaVaeaaVvGvpdevkGealvafVvlkdg.sealeeeLkahvrkelgpyavpkkvvfvdelpktrsGK 76 
                              e+E a+++hp V++aa+++ p++  Ge  + f  l ++ +++  +e+k+++ +++++y+ p+k+++v+e+p+t sGK
  PHY93_21290|PHY93_21290 280 EIEVAIIKHPLVENAAAIATPHPFYGESYKLFLKLVPDaPPSSIDEVKKYLYENIAKYKWPDKIELVNEFPQTGSGK 356
                              8*******************************998645234489********************************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (365 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       310  (0.0172904); expected 358.6 (0.02)
Passed bias filter:                      304  (0.0169558); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 2706.94
//
Query:       PHY93_19050|PHY93_19050  [L=295]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.064   13.2   0.1       0.14   12.1   0.1    1.7  1  Abhydrolase_9_N  Alpha/beta-hydrolase family N-terminus


Domain annotation for each model (and alignments):
>> Abhydrolase_9_N  Alpha/beta-hydrolase family N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.1     8e-06      0.14     102     170 ..     123     191 ..      98     209 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 8e-06
          Abhydrolase_9_N 102 vfalllllgrllralvrllarllgrvlprrvaavlgvlvvvvlvvllvdgvvvrgvlaaanrsfaaana 170
                              ++++lll+g+++ ++++++ +++++v+p+    ++ ++++++++ +l+  v+  +v+++ ++ f++ ++
  PHY93_19050|PHY93_19050 123 ILFILLLFGKTTIEVADYFIHEFEKVIPHTDKIIIWIVALLIIIKFLMTFVLSIVVIKMSDAKFENYQN 191
                              57899*********************************************************9998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (295 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1039  (0.0579508); expected 358.6 (0.02)
Passed bias filter:                      339  (0.0189079); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.36
# Mc/sec: 2423.80
//
Query:       PHY93_19055|PHY93_19055  [L=166]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      4e-12   46.8   0.0    5.1e-12   46.4   0.0    1.1  1  YkuD      L,D-transpeptidase catalytic domain


Domain annotation for each model (and alignments):
>> YkuD  L,D-transpeptidase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.4   0.0   2.8e-16   5.1e-12       5     143 ..      28     161 ..      25     166 .] 0.82

  Alignments for each domain:
  == domain 1  score: 46.4 bits;  conditional E-value: 2.8e-16
                              EEETTTTEEEEEEETTEEEEEEE-BEB......TTS.TTSE---EEEEECEEEEEEE..EEGGGGT--TTSTT.EEEEEEEECCCT CS
                     YkuD   5 vvdlaeqrllvlyengklvlsfpvsvG......gkkegdreTPlGtfrikskvrnptwnvppsiarkeiypklrkdpeyldkknsk 84 
                               v ++++r+  +   gk+v+s+ v +G      ++kegd  +P+G++ +++k++n    +++si+  ++ +++ +   ++      
  PHY93_19055|PHY93_19055  28 RVYKSNHRM-DMLVHGKVVKSYHVMLGrggkapKRKEGDNLVPEGQYILDYKNFNSL--FYKSIHVSYPNDEDLR--RAS------ 102
                              688999888.6669*******************99999************7777777..9999988777665553..333...... PP

                              TCECCCCEEE-STTS-EEEE.ETCSS...CT.............HHC.BSSSEEE-HHHHHHHHHHHHTTEE CS
                     YkuD  85 valgkvkfvfpngsgiyiHgtgapdlfergk.............garrShGCirlseedakelyelvlvgtp 143
                                     +  + g++i iHg++++      +               +++ GCi +++ +++e++++++v  p
  PHY93_19055|PHY93_19055 103 ------EAGVEPGGDIMIHGYPNNP-----TpffkflkrvglvrLVNWTAGCISVDDREMEEIFNNIEV--P 161
                              ......367899*******887764.....224567899*99997777******************987..4 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (166 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       513  (0.0286129); expected 358.6 (0.02)
Passed bias filter:                      455  (0.0253779); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.20s 00:00:00.59 Elapsed: 00:00:00.35
# Mc/sec: 1426.28
//
Query:       PHY93_19060|PHY93_19060  [L=151]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      7e-28   97.3   0.1    8.2e-28   97.1   0.1    1.1  1  AAA_14           AAA domain
    1.2e-06   29.0   0.0    1.5e-06   28.6   0.0    1.2  1  AAA              ATPase family associated with various cellul
     0.0014   18.9   0.0      0.019   15.2   0.0    2.0  2  AAA_22           AAA domain
     0.0075   16.0   0.2       0.14   11.8   0.0    2.0  2  AAA_24           AAA domain
  ------ inclusion threshold ------
      0.015   15.7   0.0       0.04   14.3   0.0    1.7  1  AAA_16           AAA ATPase domain
      0.016   14.7   0.1      0.018   14.5   0.1    1.1  1  AAA-ATPase_like  Predicted AAA-ATPase
      0.017   15.1   0.7      0.052   13.4   0.7    1.7  1  ATPase_2         ATPase domain predominantly from Archaea
      0.024   14.0   0.1       0.45    9.9   0.0    2.1  2  TniB             Bacterial TniB protein
      0.042   13.2   0.0      0.055   12.8   0.0    1.1  1  NAGidase         beta-N-acetylglucosaminidase
       0.11   12.0   0.0        3.9    6.9   0.0    2.0  2  PhoH             PhoH-like protein
       0.13   11.3   0.0       0.49    9.4   0.0    1.7  2  T2SSE            Type II/IV secretion system protein
       0.14   12.6   0.1       0.24   11.8   0.1    1.4  1  RNA_helicase     RNA helicase
        0.2   10.9   0.0       0.26   10.6   0.0    1.1  1  NHase_alpha      Nitrile hydratase, alpha chain


Domain annotation for each model (and alignments):
>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   97.1   0.1   5.9e-31   8.2e-28       2     130 ..      17     143 ..      16     144 .. 0.84

  Alignments for each domain:
  == domain 1  score: 97.1 bits;  conditional E-value: 5.9e-31
                   AAA_14   2 rkilvitGaRrvGKTtllkqlikellvkkesilyinldderdkkladpekllelilek..lke.ekktylflDEiqevpewekalk 84 
                              +k+ +i+G+R+vGKTtl+k + k ++   ++++y n+d+ +++kl  +   ++ i+e+  l + ++k+++++DEi+++++w++ lk
  PHY93_19060|PHY93_19060  17 HKMAFISGPRQVGKTTLAKSY-KIEF---DQFVYKNWDESTFRKLWVK--SPNSIQEEfsLAKiKDKKLIVFDEIHKSKGWKQKLK 96 
                              68899************8766.4555...9************885533..34444444322224689******************* PP

                   AAA_14  85 slvdeg.knldvivtGSnskllskeiatslagrvaeielyplsfaEf 130
                              +++de  +++++ivtGS+ +++ k+  +sl gr+ +++l+pls+ E+
  PHY93_19060|PHY93_19060  97 GIYDELgDEIKIIVTGSARLNIFKKGGDSLMGRYLNFRLHPLSYGEV 143
                              ****77799***********************************997 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.6   0.0   1.1e-09   1.5e-06       3      70 ..      22      88 ..      20     111 .. 0.86

  Alignments for each domain:
  == domain 1  score: 28.6 bits;  conditional E-value: 1.1e-09
                             EESSTTSSHHHHHHHHHHHHTHEE.EEEETTTCSSSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGH CS
                      AAA  3 lyGppGtGKTllakavakelgvef.leisgsellskyvgesekkirelfkeakekakpsilfiDEidal 70
                             ++Gp  +GKT+lak+   e+++ +  + + s+++ k++ +s+++i+e f+ ak k  ++ +++DEi++ 
  PHY93_19060|PHY93_19060 22 ISGPRQVGKTTLAKSYKIEFDQFVyKNWDESTFR-KLWVKSPNSIQEEFSLAKIKD-KKLIVFDEIHKS 88
                             78*****************975442667777777.******************998.9*********86 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0   1.4e-05     0.019       4      37 ..      16      49 ..      11     105 .. 0.68
   2 ?    2.9   0.0     0.087   1.2e+02      89     129 ..      75     112 ..      63     117 .. 0.60

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 1.4e-05
                   AAA_22  4 tagilvvtGesGtGKTtllrrlleqldeeakaee 37
                             ++++ ++ G+  +GKTtl++ ++ ++d+  + ++
  PHY93_19060|PHY93_19060 16 RHKMAFISGPRQVGKTTLAKSYKIEFDQFVYKNW 49
                             67899*****************999976555444 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.087
                   AAA_22  89 ravielliiDEaqhlrseealeeLrsllnlsrkgvqliLvG 129
                              ++ ++l++ DE+++   +   ++L+ +++   + +++i+ G
  PHY93_19060|PHY93_19060  75 KD-KKLIVFDEIHKS--KGWKQKLKGIYDELGDEIKIIVTG 112
                              33.599******987..344444444444334555555555 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.8   0.0    0.0001      0.14       3      36 ..      18      54 ..      16      87 .. 0.70
   2 ?    3.1   0.1     0.049        68      89     116 ..      83     111 ..      70     118 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.0001
                   AAA_24  3 lkiliyGpsgiGKTtlakel...gpkplfidtekGlk 36
                             ++ +i Gp  +GKTtlak++    +++++ + ++++ 
  PHY93_19060|PHY93_19060 18 KMAFISGPRQVGKTTLAKSYkieFDQFVYKNWDESTF 54
                             567899*************977666777767666654 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.049
                   AAA_24  89 nekaeskedkgdgkG.ygelaeefrrllk 116
                              +e+++sk  k+++kG y+el++e++ +++
  PHY93_19060|PHY93_19060  83 DEIHKSKGWKQKLKGiYDELGDEIKIIVT 111
                              4444555557779999*****99988876 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0   2.9e-05      0.04      24      63 ..      17      52 ..       5     117 .. 0.71

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 2.9e-05
                   AAA_16 24 pelvllsGesGvGKsslvrellralekdggiflrgkcdql 63
                               + ++sG++ vGK++l+++ + ++  +   f++ ++d++
  PHY93_19060|PHY93_19060 17 HKMAFISGPRQVGKTTLAKSYKIEFD-Q---FVYKNWDES 52
                             47899*************99994444.3...688888887 PP

>> AAA-ATPase_like  Predicted AAA-ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.1   1.3e-05     0.018      25     115 ..      10     104 ..       6     129 .. 0.74

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 1.3e-05
          AAA-ATPase_like  25 eelv.eegkyyflsRPRRFGKsLllstLeayfd......gkkelFkglaiekletkwkeknkypvlkldfsavkleseeeleeslk 103
                               el+ +++k+ f+s PR  GK+ l +  +  fd        ++ F++l++++ ++    ++++   k+  ++  + +e + ++  k
  PHY93_19060|PHY93_19060  10 VELAlKRHKMAFISGPRQVGKTTLAKSYKIEFDqfvyknWDESTFRKLWVKSPNS---IQEEFSLAKIKDKKLIVFDEIHKSKGWK 92 
                              44541456667*********************99998877799********9555...4789998888777766655555555566 PP

          AAA-ATPase_like 104 eklkelekefgk 115
                              +klk +++e+g 
  PHY93_19060|PHY93_19060  93 QKLKGIYDELGD 104
                              666666655555 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.7   3.8e-05     0.052      19      67 ..      16      59 ..       7     111 .. 0.50

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 3.8e-05
                 ATPase_2 19 pneiyfiYGpegsGKtaLlkeiienledkdkyviyyialreesisklde 67
                             + ++ fi Gp+++GKt+L k    + ++  +      +  e+   kl  
  PHY93_19060|PHY93_19060 16 RHKMAFISGPRQVGKTTLAKSYKIEFDQFVY-----KNWDESTFRKLWV 59
                             67899*************9987555544333.....3333333333333 PP

>> TniB  Bacterial TniB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.0   0.00032      0.45      33      82 ..      15      66 ..       6      77 .. 0.77
   2 ?    2.5   0.0     0.062        85     119     131 ..      76      88 ..      64     115 .. 0.79

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00032
                     TniB 33 krmpnlllvGdsnnGKtmivekFarlh..ppekdedaekvpvlvvqappkpd 82
                             kr + + + G+ ++GKt+++++++ +     +k+ d+++++ l v+ p++ +
  PHY93_19060|PHY93_19060 15 KRHKMAFISGPRQVGKTTLAKSYKIEFdqFVYKNWDESTFRKLWVKSPNSIQ 66
                             5667889****************95541134567788888888888877665 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.062
                     TniB 119 kvrvLiiDEihnl 131
                              + +++++DEih+ 
  PHY93_19060|PHY93_19060  76 DKKLIVFDEIHKS 88 
                              46899******85 PP

>> NAGidase  beta-N-acetylglucosaminidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0     4e-05     0.055     106     181 ..      35     114 ..      30     123 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 4e-05
                              -EEEEE-TTS-SS....SSHHHHHHHHHHHHHHHHHTTSSS.-EEEEE-SS-BS-TT-HHHHHHHHHS-TTSEEEE-BSS CS
                 NAGidase 106 rqfavllDDisye....eaaakaqaellnkvqeelkekkkdvkplivvpteYaksaeseylkelgkkldkevevlwTGea 181
                              +++++ +D + y+    ++ +k  ++  n++qee++ +k + k+liv  +   +++ +++lk + ++l +e++++ TG+a
  PHY93_19060|PHY93_19060  35 KSYKIEFDQFVYKnwdeSTFRKLWVKSPNSIQEEFSLAKIKDKKLIVFDEIHKSKGWKQKLKGIYDELGDEIKIIVTGSA 114
                              5788999999988676666777788999*******9999888999999999999999*********************86 PP

>> PhoH  PhoH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.9   0.0    0.0028       3.9      15      42 ..      13      40 ..       5      49 .. 0.88
   2 ?    3.2   0.0     0.039        54     120     155 ..      77     114 ..      73     127 .. 0.82

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.0028
                             HHHH-SEEEEE--TTSSTTHHHHHHHHH CS
                     PhoH 15 alkkndivfaiGpaGtGKtylavalave 42
                             alk++++ f+ Gp   GKt la ++ +e
  PHY93_19060|PHY93_19060 13 ALKRHKMAFISGPRQVGKTTLAKSYKIE 40
                             6889******************988765 PP

  == domain 2  score: 3.2 bits;  conditional E-value: 0.039
                              SEEEEE-SGGG--..HHHHHHHHTTB-TT-EEEEEE-- CS
                     PhoH 120 dafvilDEAQntt..keqmkmfltRlGenskvvvtGdv 155
                              ++++++DE    +  k+++k +   lG + k++vtG+ 
  PHY93_19060|PHY93_19060  77 KKLIVFDEIHKSKgwKQKLKGIYDELGDEIKIIVTGSA 114
                              567888888776544788999999************86 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4   0.0   0.00035      0.49     119     148 ..       7      36 ..       3      45 .. 0.87
   2 ?   -0.7   0.0      0.44     6e+02      86     137 ..      62     113 ..      51     114 .. 0.74

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.00035
                    T2SSE 119 aevlrkavrerglilvsGgTgsGKttllya 148
                              +++++ a++++++  +sG+   GKttl+ +
  PHY93_19060|PHY93_19060   7 NDIVELALKRHKMAFISGPRQVGKTTLAKS 36 
                              5788999*******************9865 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.44
                    T2SSE  86 PvvagealviR.kksakeltlddlgaeealkekiaevlrkavrerglilvsGg 137
                              P + +e++++   k++k + +d++ +++  k+k++ +  +    +  i+v+G 
  PHY93_19060|PHY93_19060  62 PNSIQEEFSLAkIKDKKLIVFDEIHKSKGWKQKLKGIYDEL-GDEIKIIVTGS 113
                              66667777777334445558888888888888888888877.88999999995 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.1   0.00018      0.24       2      62 ..      21      89 ..      20     107 .. 0.65

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00018
             RNA_helicase  2 wlyGpsgeGKStlakeLakallkkl......klkkkdsvys.rnpeddfw.dgYtgqevvvidDfgqvk 62
                             +++Gp+++GK+tlak+   ++ + +       + +k +v s ++ +++f   + ++++ +v+d++ ++k
  PHY93_19060|PHY93_19060 21 FISGPRQVGKTTLAKSYKIEFDQFVyknwdeSTFRKLWVKSpNSIQEEFSlAKIKDKKLIVFDEIHKSK 89
                             699*************44444433366666544445666663333444434556677777777776665 PP

>> NHase_alpha  Nitrile hydratase, alpha chain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   0.00019      0.26      31      84 ..      31      84 ..       5      90 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00019
              NHase_alpha 31 vleaevgpangarvvarAWtdpefkarlledataaieelglegaegeelvvven 84
                             ++ a+  + +  + v + W +++f+++ +++ ++  ee+ l++ + ++l+v ++
  PHY93_19060|PHY93_19060 31 TTLAKSYKIEFDQFVYKNWDESTFRKLWVKSPNSIQEEFSLAKIKDKKLIVFDE 84
                             5555556667789999***************99999999999999999998876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (151 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       572  (0.0319036); expected 358.6 (0.02)
Passed bias filter:                      424  (0.0236488); expected 358.6 (0.02)
Passed Vit filter:                        57  (0.00317921); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.36
# Mc/sec: 1241.03
//
Query:       PHY93_08710|PHY93_08710  [L=343]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    9.3e-41  140.2   0.9    9.3e-41  140.2   0.9    1.6  2  Tubulin         Tubulin/FtsZ family, GTPase domain
    2.3e-30  104.8   6.2    7.6e-30  103.1   6.2    2.0  1  FtsZ_C          FtsZ family, C-terminal domain
     0.0053   16.1   0.2      0.011   15.1   0.2    1.5  1  ThiF            ThiF family
     0.0094   15.9   0.0       0.03   14.2   0.0    1.9  1  NAD_binding_10  NAD(P)H-binding
  ------ inclusion threshold ------
        2.2    7.4   8.0       0.53    9.4   1.2    2.7  2  Tubulin_2       Tubulin like


Domain annotation for each model (and alignments):
>> Tubulin  Tubulin/FtsZ family, GTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  140.2   0.9   2.6e-44   9.3e-41       1     194 [.      16     174 ..      16     177 .. 0.98
   2 ?   -3.1   0.0         2   7.3e+03      97     122 ..     288     313 ..     283     321 .. 0.58

  Alignments for each domain:
  == domain 1  score: 140.2 bits;  conditional E-value: 2.6e-44
                              EEEEEEEHHHHHHHHHHHHH...HHHCH....HHHT.....TTEEEEE....EEESBHHHHHTS-GS......EEEE--CCCCTTC CS
                  Tubulin   1 eiivigvGqcGnqignelwellakehgiqsdgdslesfFsesgkveyiprsvaidtdpqvlneikagselfnpnklllgkegagnn 86 
                              +i+v+gvG++G++++n++++    + g+             sg veyi    +++td+q+l+ + a+      +k++lg + ++++
  PHY93_08710|PHY93_08710  16 RIKVVGVGGGGCNAVNTMIR----A-GL-------------SG-VEYI----VANTDAQALSISLAQ------TKIQLGGNVTKGL 72 
                              599*****************....5.99.............88.****....***************......************* PP

                              --TT-HHHHHHHHHHTHHHHHHHHTT-SE.SEEEEEEETTSSHHHHHHHHHHHHHHHTSTTSEEEEEEEE--GG.G-HHHHHHHHH CS
                  Tubulin  87 gaggypevgkeaaeeileeirkevekcdslqgffitaslgGGTGSGlgpvilevlkeeypkalvvtvvvlPsefsevvvepynail 172
                              gag++pe+gk+aa e  e+i + ++++d+   +fita++gGGTG+G++pvi++++ke   +al+v+vv+ P+ f e++ + ++a++
  PHY93_08710|PHY93_08710  73 GAGANPEIGKKAALEDYEKISEVLKGADM---VFITAGMGGGTGTGAAPVIAKLAKEL--GALTVGVVTKPFVF-EGKKRFKQAEE 152
                              *****************************...**************************..**************.*********** PP

                              HHHHHHHT-SEEEEEEHHHHHC CS
                  Tubulin 173 alkelieesdavividNdaLlk 194
                              ++++l e++d++i+i+N++Ll 
  PHY93_08710|PHY93_08710 153 GIRNLEESVDSLITIPNQRLLY 174
                              *******************975 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 2
                              HHHHHTHHHHHHHHTT-SE.SEEEEE CS
                  Tubulin  97 eaaeeileeirkevekcdslqgffit 122
                              eaa+e++e+i  +v + ++ +++++t
  PHY93_08710|PHY93_08710 288 EAADENAEIIFGTVIDNNCGDNVMVT 313
                              56777777777776655554444443 PP

>> FtsZ_C  FtsZ family, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  103.1   6.2   2.1e-33   7.6e-30       1      94 [.     225     319 ..     225     320 .. 0.99

  Alignments for each domain:
  == domain 1  score: 103.1 bits;  conditional E-value: 2.1e-33
                              EEEEEEEEEEESTTHHHHHHHHHHTSGGGT.--GGG-SEEEEEEEE-TT--HHHHHHHHHHHHHHS-TTSEEEEEEEE-TT--SEE CS
                   FtsZ_C   1 GvAmmgvGeasgedraeeaaeaaisspLLd.vdlsgAkgvlvnitggsdltlkEveevaetireevdeeanvivGavideeledei 85 
                              G A+mg+G a g +ra +aa +aisspLL+ ++++gA+g+++nitg+ +lt++E +e+++ i e++de+a++i+G+vid++  d++
  PHY93_08710|PHY93_08710 225 GLALMGTGLAAGAGRAIKAATEAISSPLLEdISINGATGIIINITGSDSLTMHETNEAVTLIMEAADENAEIIFGTVIDNNCGDNV 310
                              89************************************************************************************ PP

                              EEEEEEES- CS
                   FtsZ_C  86 rvtvvatgl 94 
                               vtv+atgl
  PHY93_08710|PHY93_08710 311 MVTVIATGL 319
                              ********8 PP

>> ThiF  ThiF family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.2   3.2e-06     0.011      14      45 ..      10      41 ..       3      48 .. 0.88

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 3.2e-06
                             HHHHTSEEEEE--SHHHHHHHHHHHHHTTTEE CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     ThiF 14 ekLrdskvllvGaGglGsellknLalsGvgkl 45
                              k++ +++ +vG+Gg G++++ +++++G++ +
  PHY93_08710|PHY93_08710 10 TKVNGARIKVVGVGGGGCNAVNTMIRAGLSGV 41
                             688899**********************9765 PP

>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.2   0.0   8.5e-06      0.03      46      90 ..      84     129 ..      72     160 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 8.5e-06
                              --TT-CCHHHHHHTT-SEEEES---TCCHHHHHHHHH.HHHHHCT- CS
           NAD_binding_10  46 gdvtdvedlaealkgadaVvsalggggkdeegakniv.daakeagv 90 
                              + ++d e++ e+lkgad V++++g gg++ +ga+ ++ + ake g 
  PHY93_08710|PHY93_08710  84 AALEDYEKISEVLKGADMVFITAGMGGGTGTGAAPVIaKLAKELGA 129
                              67899******************88888777755554145566555 PP

>> Tubulin_2  Tubulin like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.9     0.077   2.8e+02       2      18 ..      19      35 ..      19      64 .. 0.72
   2 ?    9.4   1.2   0.00015      0.53     116     182 ..      73     126 ..      58     157 .. 0.72

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.077
                Tubulin_2  2 viGLGGtGgkvlaelrr 18
                             v+G+GG G+++++ + r
  PHY93_08710|PHY93_08710 19 VVGVGGGGCNAVNTMIR 35
                             79*******99987644 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.00015
                Tubulin_2 116 GAGqiRtvGRlalfanleeirealrdaikrlrgsageeeglnvfVvgSLaGGTGSGiflDvayllrk 182
                              GAG ++ +G+ a ++ +e+i e l+ a               vf+  ++ GGTG G +  +a l ++
  PHY93_08710|PHY93_08710  73 GAGANPEIGKKAALEDYEKISEVLKGA-------------DMVFITAGMGGGTGTGAAPVIAKLAKE 126
                              788888888888888888777666544.............37**************88766555544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (343 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       510  (0.0284455); expected 358.6 (0.02)
Passed bias filter:                      332  (0.0185175); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 2558.48
//
Query:       PHY93_08715|PHY93_08715  [L=425]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.5e-36  124.2   1.3    5.2e-25   87.8   0.0    2.4  2  FtsA            Cell division protein FtsA
    2.9e-35  120.5   0.5    6.2e-35  119.4   0.5    1.6  1  SHS2_FTSA       SHS2 domain inserted in FTSA
    4.5e-16   58.6   1.1    4.5e-16   58.6   1.1    2.1  2  MreB_Mbl        MreB/Mbl protein
    5.5e-07   28.8   0.3    5.5e-07   28.8   0.3    2.1  3  EutA            Ethanolamine utilisation protein EutA
    1.3e-06   27.7   0.3    1.4e-05   24.3   0.0    2.5  3  PilM_2          Type IV pilus assembly protein PilM;
     0.0024   16.6   0.1      0.036   12.7   0.0    2.1  2  Actin           Actin
  ------ inclusion threshold ------
      0.011   15.0   0.4      0.055   12.7   0.1    2.2  2  Hydantoinase_A  Hydantoinase/oxoprolinase
      0.029   13.0   0.0      0.053   12.1   0.0    1.4  1  MutL            MutL protein
      0.076   12.4   0.4       0.11   11.9   0.4    1.1  1  ATS             acidic terminal segments, variant surface ant
       0.11   10.3   0.0       0.19    9.6   0.0    1.3  1  SrfB            Virulence factor SrfB


Domain annotation for each model (and alignments):
>> FtsA  Cell division protein FtsA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.1   0.4   7.9e-12   1.4e-08       1     100 [.       8     189 ..       8     196 .. 0.86
   2 !   87.8   0.0   2.9e-28   5.2e-25       1     103 []     204     371 ..     204     371 .. 0.84

  Alignments for each domain:
  == domain 1  score: 35.1 bits;  conditional E-value: 7.9e-12
                              EEEEE-SSSEEEEEEETTEEEEEEEES-...-HHHHHHH.......HHHHHT--HHHHHHHHHHH--S--................ CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxx.......xxxxxxxxxxxxxxxxxxxxxxxx................ RF
                     FtsA   1 alvDiGagktdvavaedgalvhlrvigv...ggngitkd.......iakalrtaveeAerikikyGsala................ 60 
                              +++D+G++k++ +v+ ++  + l++ig+   ++ g++k+       ++++++ ++eeA  ++   G+ +                 
  PHY93_08715|PHY93_08715   8 VGLDVGTTKVCTIVGLQHPNQELEIIGIgthPSYGLKKGsvvnidkTVRSIQASLEEARLMA---GVNITgatigiagshiysfns 90 
                              68***************99999*********9******************************...665556666677778888888 PP

                              .......EEEEEHHHHH.....................................................GGGGSTTHHHHHHHH. CS
                              .......xxxxxxxxxx.....................................................xxxxxxxxxxxxxxx. RF
                     FtsA  61 .......ekeigrkels.....................................................ggsalpnleelaera. 85 
                                      kei++++++                                                     +   ++nl++++e+  
  PHY93_08715|PHY93_08715  91 sgvvaikGKEITQDDVDrvleaaravvipsdrdilhvipqefrvdnttgiknpigmcgvrleahvhivtgSIPLIQNLVKCVEQTg 176
                              887777766666666669999999999******************************************9999***********97 PP

                              .......HT-..HHHT-GGGHH CS
                              .......xxxxxxxxxxxxxxx RF
                     FtsA  86 .......lspkleevsdpeyas 100
                                     l+p         +as
  PHY93_08715|PHY93_08715 177 ieaehitLQP---------LAS 189
                              6666655455.........444 PP

  == domain 2  score: 87.8 bits;  conditional E-value: 2.9e-28
                              EEEEE-SSSEEEEEEETTEEEEEEEES--HHHHHHHHHHHHT--HHHHHHHHHHH--S--.............EEEEEHHHHH... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.............xxxxxxxxxx... RF
                     FtsA   1 alvDiGagktdvavaedgalvhlrvigvggngitkdiakalrtaveeAerikikyGsala.............ekeigrkels... 70 
                              +lvDiG+g+td+av +dg+l+h+++i++ggn++t+d+a al+++ +eAeriki++Gs+la                      s   
  PHY93_08715|PHY93_08715 204 VLVDIGGGTTDIAVWKDGSLIHSQIIPIGGNHFTNDLAVALKIPHNEAERIKINHGSVLAeqlnqsahitvqgL--------Sgtk 281
                              79**********************************************************77777444444440........2666 PP

                              .............................................GGGGSTTHHHHHHHHH.........T-....HH.HT-GGGH CS
                              .............................................xxxxxxxxxxxxxxxx.........xxx..xxx.xxxxxxx RF
                     FtsA  71 .............................................ggsalpnleelaeral.........spk..lee.vsdpeya 99 
                                                                           gg+ +++l el e +l          p    ++ +++p+y+
  PHY93_08715|PHY93_08715 282 pcevqlsvvaevlgaraeelfdvvrymvedkklqdqvaggfvltgGGALIKGLPELGEYILmrsckigfpIPFggMTNiMQNPKYS 367
                              66666667778888888888888899999999999999**********************8655554444333887777******* PP

                              HHHH CS
                              xxxx RF
                     FtsA 100 salg 103
                              ++lg
  PHY93_08715|PHY93_08715 368 TVLG 371
                              *998 PP

>> SHS2_FTSA  SHS2 domain inserted in FTSA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  119.4   0.5   3.5e-38   6.2e-35       1      79 []      82     159 ..      82     159 .. 0.99

  Alignments for each domain:
  == domain 1  score: 119.4 bits;  conditional E-value: 3.5e-38
                              .....EEEEEEEEE-TTS-E--HHHHHHHHHHH....CHTTEEEEEEEEEEEEETTTEEESB-TT-EESEEEEEEEEEE CS
                SHS2_FTSA   1 GkhiksvnskgvvaisgedeiteedvervleaakavaipedreilhvipqeyivDgqegikdPvGmsGvrLevevhvit 79 
                              G+hi s+ns+gvvai+g+ eit++dv+rvleaa+av ip+dr+ilhvipqe++vD+ +gik+P+Gm GvrLe++vh++t
  PHY93_08715|PHY93_08715  82 GSHIYSFNSSGVVAIKGK-EITQDDVDRVLEAARAVVIPSDRDILHVIPQEFRVDNTTGIKNPIGMCGVRLEAHVHIVT 159
                              89****************.***********************************************************8 PP

>> MreB_Mbl  MreB/Mbl protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.1      0.39   6.9e+02      24      51 ..      43      70 ..      40      80 .. 0.86
   2 !   58.6   1.1   2.5e-19   4.5e-16     144     292 ..     200     337 ..     166     348 .. 0.87

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 0.39
                             EEEES-EEEETTT--EEEESHHHHTTTT CS
                 MreB_Mbl 24 lnepsvvAikkktkkvlavGeeAkkmlg 51
                             l++ svv i+k+ +++ a  eeA+ m g
  PHY93_08715|PHY93_08715 43 LKKGSVVNIDKTVRSIQASLEEARLMAG 70
                             5778999999999999999999999987 PP

  == domain 2  score: 58.6 bits;  conditional E-value: 2.5e-19
                              SS-EEEEEE-SS-EEEEEEETTEEEEEEEES-SHHHHHHHHHHHHHHHHSEE--HHHHHHHHHHH-BSS--HHHHEEEEEEEETTT CS
                 MreB_Mbl 144 psgnmvvdiGggttevavislggivtsksvrvaGdeldeaiikyirkkynlliGertaekikieigsavkeeeeekmeikGrdlvt 229
                                g ++vdiGggtt++av   g+++ s+ + ++G+++ +++         l i++++ae+iki+ gs+  e+ +++ +i+ + l  
  PHY93_08715|PHY93_08715 200 ELGVVLVDIGGGTTDIAVWKDGSLIHSQIIPIGGNHFTNDLAV------ALKIPHNEAERIKINHGSVLAEQLNQSAHITVQGLSG 279
                              568899*********************************9975......6779999***************999977777666655 PP

                              TCEEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHTS-HHHHHHHHHH-EEEESGGGGSBTHHHH CS
                 MreB_Mbl 230 glpkevevsseevrealkepvsaiveavkevLektppeLaadivdrgivltGGgallkgldkl 292
                                 k +ev+ + v+e+l    +++ + v+ + e+ +     d v  g vltGGgal+kgl +l
  PHY93_08715|PHY93_08715 280 T--KPCEVQLSVVAEVLGARAEELFDVVRYMVEDKK---LQDQVAGGFVLTGGGALIKGLPEL 337
                              5..556677789********************9976...4688999*************9875 PP

>> EutA  Ethanolamine utilisation protein EutA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.4      0.46   8.2e+02       5      19 ..       7      21 ..       3      23 .. 0.82
   2 ?   -3.4   0.1       1.8   3.2e+03     144     179 ..      67     102 ..      53     117 .. 0.52
   3 !   28.8   0.3   3.1e-10   5.5e-07     137     263 ..     194     328 ..     173     332 .. 0.67

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.46
                     EutA  5 svGiDiGtsttqlvf 19
                              vG+D+Gt+  + ++
  PHY93_08715|PHY93_08715  7 IVGLDVGTTKVCTIV 21
                             59*******988776 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 1.8
                     EutA 144 rvlniDiGGGtsnlalfkeGevidtacldvGGrlik 179
                               ++ ++i G t  +a  +  +  +++ + + G+ i 
  PHY93_08715|PHY93_08715  67 LMAGVNITGATIGIAGSHIYSFNSSGVVAIKGKEIT 102
                              444444444444444444444444444444444444 PP

  == domain 3  score: 28.8 bits;  conditional E-value: 3.1e-10
                     EutA 137 ls.kekstrvlniDiGGGtsnlalfkeGevidtacldvGGrlikidkdtkkityispklkkiiee....lglelevgeklekeel. 216
                              ls +ek+  v+ +DiGGGt+ +a++k+G++i++  + +GG+    d    +++  ++++++i  +    l+ +l++  +++++ l 
  PHY93_08715|PHY93_08715 194 LSyEEKELGVVLVDIGGGTTDIAVWKDGSLIHSQIIPIGGNHFTNDL-AVALKIPHNEAERIKINhgsvLAEQLNQSAHITVQGLs 278
                              451467789********************************988886.44444444444444222011123344455555666662 PP

                     EutA 217 .kkiveemaellvevvglkkes..elaelllttkslkekkeievvtlsGG 263
                               +k +e+  ++++ev+g ++e+  +++++++  k+l+++++   v   GG
  PHY93_08715|PHY93_08715 279 gTKPCEVQLSVVAEVLGARAEElfDVVRYMVEDKKLQDQVAGGFVLTGGG 328
                              23557777778888888775432256677777777777777666655555 PP

>> PilM_2  Type IV pilus assembly protein PilM;
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.1       0.3   5.4e+02       1      72 [.       9      83 ..       9     115 .. 0.72
   2 !   24.3   0.0   7.7e-09   1.4e-05     138     237 ..     165     258 ..     152     269 .. 0.84
   3 ?   -0.8   0.0      0.33     6e+02     278     293 ..     322     337 ..     313     354 .. 0.84

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 0.3
                   PilM_2  1 GiDissssv.klvelskkkgslrvealaiep...lekdavvdreikdieavsealkrvvkklktrvkevaiavpgs 72
                             G+D+++++v  +v l++ +++l++  + + p   l+k++vv+ + k +  ++++l+ +   ++ + + + i + gs
  PHY93_08715|PHY93_08715  9 GLDVGTTKVcTIVGLQHPNQELEIIGIGTHPsygLKKGSVVNID-KTVRSIQASLEEARLMAGVNITGATIGIAGS 83
                             89999999845788888888887766665543337777776544.3355566666666666666666666666665 PP

  == domain 2  score: 24.3 bits;  conditional E-value: 7.7e-09
                   PilM_2 138 vedrvalleaaglkakvvDvesyAleraleliasqlpdkgkekvvaivdigasrttlsvlrdgkivYtreqafGgeqltqeivrrY 223
                              +++ v+++e+ g++a+ +  +  A+++a       l+ ++ke  v +vdig  +t ++v +dg+ ++++    Gg+++t++++   
  PHY93_08715|PHY93_08715 165 IQNLVKCVEQTGIEAEHITLQPLASSEA------VLSYEEKELGVVLVDIGGGTTDIAVWKDGSLIHSQIIPIGGNHFTNDLAVAL 244
                              5666777777777775555555555554......6667778999****************************************** PP

                   PilM_2 224 glsleeaekkkrsg 237
                               + ++eae+ k+++
  PHY93_08715|PHY93_08715 245 KIPHNEAERIKINH 258
                              ***********997 PP

  == domain 3  score: -0.8 bits;  conditional E-value: 0.33
                   PilM_2 278 ilLaGGtaslpgleel 293
                               +L+GG a ++gl el
  PHY93_08715|PHY93_08715 322 FVLTGGGALIKGLPEL 337
                              58**********9875 PP

>> Actin  Actin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.7   0.0     2e-05     0.036     118     190 ..     177     247 ..     126     293 .. 0.82
   2 ?    1.7   0.0     0.044        79     317     342 ..     311     336 ..     296     340 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 2e-05
                    Actin 118 fEkfkvpalylaksavlsafasgkstglvvDsGasvtsvvpVldGyvLkkairrsdlgGkaLteqlkellssk 190
                              +E  ++    la+s+ + ++++     ++vD+G ++t ++   dG  ++ +i   ++gG++ t+ l+  l+  
  PHY93_08715|PHY93_08715 177 IEAEHITLQPLASSEAVLSYEEKELGVVLVDIGGGTTDIAVWKDGSLIHSQI--IPIGGNHFTNDLAVALKIP 247
                              566677777788888888999999999*************99*****99887..69**********9998873 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.044
                    Actin 317 dvdlrpeLlanivvtGGnsllpglte 342
                              d +l+ + +   v+tGG +l++gl e
  PHY93_08715|PHY93_08715 311 DKKLQDQVAGGFVLTGGGALIKGLPE 336
                              778999999999***********975 PP

>> Hydantoinase_A  Hydantoinase/oxoprolinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   3.1e-05     0.055      71     105 ..     195     227 ..     173     273 .. 0.77
   2 ?   -0.8   0.0      0.41   7.4e+02     212     255 ..     288     331 ..     250     335 .. 0.73

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 3.1e-05
           Hydantoinase_A  71 atsklagekkvItfDmGGTstDvslikdgevevsl 105
                              +   +++e  v+++D+GG +tD+++ kdg+  +s 
  PHY93_08715|PHY93_08715 195 S--YEEKELGVVLVDIGGGTTDIAVWKDGSLIHSQ 227
                              3..45666679******************986554 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 0.41
           Hydantoinase_A 212 evAegilsvavenmanavrklsvergldpkeltlvvfGGaGaqh 255
                               v +++l +  e++  +vr ++++++l+ + +  +v +G+Ga++
  PHY93_08715|PHY93_08715 288 SVVAEVLGARAEELFDVVRYMVEDKKLQDQVAGGFVLTGGGALI 331
                              44556788888999999999999999999999999999999876 PP

>> MutL  MutL protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0     3e-05     0.053     230     268 ..     188     222 ..     167     234 .. 0.73

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 3e-05
                     MutL 230 AvlkavellaeeeekglgdllvvDvGGaTTdvhsvaegs 268
                              A  +av   +e +e    ++++vD+GG TTd+    +gs
  PHY93_08715|PHY93_08715 188 ASSEAVLSYEE-KEL---GVVLVDIGGGTTDIAVWKDGS 222
                              44454444444.344...79************9876665 PP

>> ATS  acidic terminal segments, variant surface antigen of PfEMP1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.4   6.2e-05      0.11     104     163 ..     361     417 ..     358     423 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 6.2e-05
                      ATS 104 pksPkyktlievvlePsknnttaksdtqndipsddipsskkitdeeWntlkddfisnllq 163
                               + Pky t++ +++e sk++  ++  tqn+  +++  + +   d+e n+   d+is+l +
  PHY93_08715|PHY93_08715 361 MQNPKYSTVLGLLIEASKRKPYTP--TQNQSANNHRVMFN-TKDKESNQSNTDLISKLSE 417
                              589*****************9995..55555555555544.57*************8755 PP

>> SrfB  Virulence factor SrfB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   0.0    0.0001      0.19     556     576 ..     197     217 ..     176     230 .. 0.86

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.0001
                     SrfB 556 kekslrvasiDiGgGTTDLvi 576
                              +ek+l v  +DiGgGTTD+++
  PHY93_08715|PHY93_08715 197 EEKELGVVLVDIGGGTTDIAV 217
                              34889999***********98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (425 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       834  (0.0465168); expected 358.6 (0.02)
Passed bias filter:                      662  (0.0369234); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.62u 0.25s 00:00:00.87 Elapsed: 00:00:00.41
# Mc/sec: 3104.56
//
Query:       PHY93_08720|PHY93_08720  [L=261]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      4e-06   27.6   0.0    6.8e-06   26.9   0.0    1.3  1  FtsQ      Cell division protein FtsQ


Domain annotation for each model (and alignments):
>> FtsQ  Cell division protein FtsQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.9   0.0   3.8e-10   6.8e-06      10     116 ..     132     249 ..     122     249 .. 0.74

  Alignments for each domain:
  == domain 1  score: 26.9 bits;  conditional E-value: 3.8e-10
                              EEEETT--B-C..........CCBS....S-EEE......S.-....HHHHHCCS-HHHHH.S-SEE-SS-TTEEEE-T..TS..- CS
                     FtsQ  10 alidaeGevfea.....deeaedek....lPlltGpegsek.e....vlevlaelpeelkpleiseialserrrwqlvl.ddg..v 78 
                              a++ ++G++f++         +++k    lP l+ p g+ + +    v  +++e+ + l+  ++se+ l+e+++++++l  +g   
  PHY93_08720|PHY93_08720 132 AILVDNGQLFDPtyealL--RSEKKlthdLPYLALPVGEMEdKvqsdVTTLVKEMRPALRH-KLSEVILNENKELTIILsINGhpS 214
                              566679******995441..333113366888886444444234455*************7.***************773455569 PP

                              EEEEES....TTHHHHHHT-CCHHHC..........CCC CS
                     FtsQ  79 evklgreelaedleeklarlvkilpqlrlgre.ieyiDL 116
                               v +g +e++e    k+  l ki++ ++l+++ +++i+L
  PHY93_08720|PHY93_08720 215 SVFMGPDEWGE----KMVKLDKIVNYMELKEKiPAIINL 249
                              9*****99999....**9999999999665556777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (261 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       826  (0.0460706); expected 358.6 (0.02)
Passed bias filter:                      584  (0.0325729); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.20s 00:00:00.69 Elapsed: 00:00:00.38
# Mc/sec: 2054.07
//
Query:       PHY93_08725|PHY93_08725  [L=302]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.4e-20   71.6   0.0    1.1e-19   70.6   0.0    1.6  1  MurB_C         UDP-N-acetylenolpyruvoylglucosamine reductase,
    1.7e-10   40.7   0.0      3e-10   40.0   0.0    1.3  1  FAD_binding_4  FAD binding domain


Domain annotation for each model (and alignments):
>> MurB_C  UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.6   0.0   1.3e-23   1.1e-19       2     117 ..     201     302 .]     200     302 .] 0.95

  Alignments for each domain:
  == domain 1  score: 70.6 bits;  conditional E-value: 1.3e-23
                              HHHHHHHHHHHHSHCHSTTCTCEESESB---EESHHHHHHHHEEEETTSSEEE-HHHHHHHTT-TTSEETTEEEESSSTTEEEESS CS
                   MurB_C   2 ireavlelrakklmvkqpldtpsaGSfFknPivegeeaeelkeyeaeegevklsagwLIeqaglkGlrvggaqvsekhalflvNgg 87 
                              i+++++e+ + + +++qpl+ +++G++Fkn              +  + +v + ag  I+ +glkGl++++ q+s+kha+f+ N+g
  PHY93_08725|PHY93_08725 201 ISKKIREYLEMR-TRTQPLKEWTCGCVFKNY-------------QDPDLRVTCRAGLFIDIMGLKGLSIKNLQISPKHANFMENRG 272
                              8899********.8****************7.............34678999********************************99 PP

                              S--HHHHHHHHHHHHHHHHHHHS----BSS CS
                   MurB_C  88 gataadilalarevrkkVkekfgveLepEv 117
                              + + +d+++++   +k+ k ++gv+ e+Ev
  PHY93_08725|PHY93_08725 273 ESSYEDVMTMITVLQKELKLQTGVSFETEV 302
                              *****************************8 PP

>> FAD_binding_4  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.0   0.0   3.4e-14     3e-10       5     134 ..      39     162 ..      38     166 .. 0.91

  Alignments for each domain:
  == domain 1  score: 40.0 bits;  conditional E-value: 3.4e-14
                              EEESSHHHHHHHHHHHHHCTSCEEEESSSTTEESTTC.SCCEEEEEETTS--EEEEETTTTEEEEETTSBHHHHHHHHHHHTTECS CS
            FAD_binding_4   5 vrpeseeevaaalrlaneaglpvlvrGgGssllgqav.atggvvldlsrlnrileideeegtatveaGvtlgdlvealaakglllg 89 
                              ++ +s++ ++++l+  ++++++ +v+G G ++l  ++ +   + ld+  ++r   +++++   ++ a v l+ l  ++++ gl  +
  PHY93_08725|PHY93_08725  39 ITIRSVDGLKRTLKELTKNNIRYRVLGWGANILLPSTaRIPYLQLDF-DFDR-SVLEKAQSEYVLPASVSLATLTSHANKFGLKGW 122
                              67899****************************55554899999999.7999.55666789999**************99999999 PP

                              SGGGTTCGSBHHHTTTTT-EETTEEGG--HHGTEEEEEEEETTSE CS
            FAD_binding_4  90 lepgsgipgtvGGaiatnagGygsekyGlirdnvlglevvladGe 134
                               e  +gip+++GGai +nag +  e+      +++++ +v+ +Ge
  PHY93_08725|PHY93_08725 123 -EVFTGIPASLGGAIFMNAGTNLGEIG----TIIKEVNLVTKNGE 162
                              .********************999999....*************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (302 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       557  (0.031067); expected 358.6 (0.02)
Passed bias filter:                      478  (0.0266607); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.20s 00:00:00.69 Elapsed: 00:00:00.37
# Mc/sec: 2431.83
//
Query:       PHY93_08730|PHY93_08730  [L=466]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-17   64.7  17.4    1.1e-13   51.7   4.7    2.7  2  AAA_21           AAA domain, putative AbiEii toxin, Type IV T
    2.1e-11   44.5   1.5    9.1e-06   26.2   0.1    2.4  2  ABC_tran         ABC transporter
    9.4e-05   23.0  19.8    0.00066   20.2  19.8    2.3  1  AAA_23           AAA domain
    0.00078   18.9   5.7     0.0037   16.7   5.1    2.3  1  SMC_N            RecF/RecN/SMC N terminal domain
  ------ inclusion threshold ------
       0.12   12.1   0.4       0.27   11.0   0.0    1.7  2  AAA_29           P-loop containing region of AAA domain
       0.15   11.8   0.0       0.27   10.9   0.0    1.4  1  Sigma54_activat  Sigma-54 interaction domain


Domain annotation for each model (and alignments):
>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   5.3   7.9e-07    0.0023       3     160 ..      33     156 ..      32     193 .. 0.56
   2 !   51.7   4.7   3.6e-17   1.1e-13      95     303 .]     205     410 ..     182     410 .. 0.73

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 7.9e-07
                   AAA_21   3 vliGpNgsGKSnLLdaldllarldrdvegltdelsggggirkipslldlydpeipfefeieeflsqgvryryglrlersqveekls 88 
                              ++ G Ng+GK+++L++++ l++   ++  l +++ ++ ++r+i++++      ++ +  + e+ ++ +r   + +l ++++     
  PHY93_08730|PHY93_08730  33 LILGGNGAGKTSFLRLIKSLSS--FNFSELFSKSCSSTHEREIDFEYEVQLRQQSLKVFFQETSLKPSRKLLSNKLLQDAI----- 111
                              699**************87763..444444444444445555555544444444444444444444444444444444444..... PP

                   AAA_21  89 svetllesgllldkrsleeedvfnpeargirggvsvfslkelsvsepndlqfgkaltditsrawsllllldg 160
                                 t                           +++ v s +++ ++ + +++++++l+d++ + ++l+++l +
  PHY93_08730|PHY93_08730 112 -DST--------------------------AKDIAVVSKRNIKIETSGTNYNIRLLVDDKQFSFFLNEELIN 156
                              .444..........................444444444444444444444444444444444444444433 PP

  == domain 2  score: 51.7 bits;  conditional E-value: 3.6e-17
                   AAA_21  95 esgllldkrsleeedvfnpeargirggvsvfslkelsvsepndlqfgkaltditsrawsllllldglrkerigllnifadyfgfak 180
                              +++++ d+  +  ++ fn ++ ++  ++++ +l+++  s++  ++  +   +i+   +  ++  ++l+k     ln+ ++  ++  
  PHY93_08730|PHY93_08730 205 LIMFFNDDATESNHPIFNEDKNYFERLLKESQLIHKKNSNSPGWYYTSGPWFIDTIGAPENSKEHWLLK----KLNDCIEKDNPLL 286
                              678999999999999999999999999999999999999999999888777777777777777777444....4444444444444 PP

                   AAA_21 181 ekrllqrlvrslklveielsdlgegeeliasvderlrer.........gvvflengdgqelparelSdGtkrllalltallralkk 257
                              +++ ++  + ++   ++++sd+++ + l+++ +               ++++ ++   +e+++ +lS G+kr+l l  +l    + 
  PHY93_08730|PHY93_08730 287 IIQSADLPILKRIALDLNVSDIKFNIFLNNKQKKE---DgsidsnwalNSITIVDHENNEFDSENLSYGQKRYLSLMIYLSKNSSY 369
                              44444444444444444444443222222211111...1223445777*************************8888888877766 PP

                   AAA_21 258 gsllliDEpEngLHPkllrrllellkelsrngaQviltTHSpllld 303
                               + +liDEp ngLH+    r++e + +++++ +Q+++tT+Sp ll+
  PHY93_08730|PHY93_08730 370 -RPFLIDEPTNGLHH----RFIESFYYNTEKSSQLFMTTQSPWLLN 410
                              .**************....777777777778***********8875 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.2   0.1     3e-09   9.1e-06       8      80 ..      27     121 ..      21     169 .. 0.75
   2 !   17.4   0.2   1.6e-06    0.0048      84     137 .]     321     379 ..     193     379 .. 0.81

  Alignments for each domain:
  == domain 1  score: 26.2 bits;  conditional E-value: 3e-09
                              EETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG.......B-HHHCCHCEEEE-SS--S-TTSBHHHH....... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.......xxxxxxxxxxxxxxxxxxxxxxxxxxxx....... RF
                 ABC_tran   8 lkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke.......qeleslrkeigvlpqepqlfpeltvren....... 79 
                              +++ e + i+G nGaGK+++l+l+  l++ +  e+  ++ ++++        e +  +++++v++qe++l+p  ++ +n       
  PHY93_08730|PHY93_08730  27 FNQKE-ILILGGNGAGKTSFLRLIKSLSSFNFSELFSKSCSSTHereidfeYEVQLRQQSLKVFFQETSLKPSRKLLSNkllqdai 111
                              44444.6799********************999995555555556777777899999999*************9999997666655 PP

                              .........H CS
                              .........x RF
                 ABC_tran  80 .........e 80 
                                        
  PHY93_08730|PHY93_08730 112 dstakdiavV 121
                              4333333330 PP

  == domain 2  score: 17.4 bits;  conditional E-value: 1.6e-06
                              C.....HHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSE..EEEESTTT CS
                              x.....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxx RF
                 ABC_tran  84 e.....iekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkl..lllDEpta 137
                              e      + al+++ +++ +++    + ++LS+Gqk+ ++l+  l k+++   +l+DEpt+
  PHY93_08730|PHY93_08730 321 EdgsidSNWALNSITIVDHENNEF--DSENLSYGQKRYLSLMIYLSKNSSYrpFLIDEPTN 379
                              234444677889999999888888..459******************9976558******7 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.2  19.8   2.2e-07   0.00066       3     169 ..      11     238 ..       9     464 .. 0.75

  Alignments for each domain:
  == domain 1  score: 20.2 bits;  conditional E-value: 2.2e-07
                   AAA_23   3 kienfrsf..rdqeidFskgltlItGpNGaGKTTildAiklaLygetprlsrksgrgfeksdveiesegkvkay.veltfenkdgr 85 
                               i+  +++  +++ ++F+++  lI G NGaGKT++l+ ik      +++l +ks ++  ++++ +e e + +++ +++ f+ ++ +
  PHY93_08730|PHY93_08730  11 YIRKMQPIfkKEFRLNFNQKEILILGGNGAGKTSFLRLIKSLSSFNFSELFSKSCSSTHEREIDFEYEVQLRQQsLKVFFQETSLK 96 
                              56666666667788***************************99999999*999999999999999999777777799999665554 PP

                   AAA_23  86 y..................trsiererelskkkgkttkkaklelleideleqfisellgskki.............ilnlilflgq 140
                                                 +++   ++ ++k +++ t+ +++ l+++++   f++e+l ++ +                       
  PHY93_08730|PHY93_08730  97 PsrkllsnkllqdaidstaKDIAVVSKRNIKIETSGTNYNIRLLVDDKQFSFFLNEELINQSDlleinlsssnpapT--------- 173
                              36666666666666666653334444444444555555555555666555555555444444433222222222332......... PP

                   AAA_23 141 er......feefelkdkke...............................rleelekeleeledek 169
                                      ++ +++k++++                               + +++ + l ++++ +
  PHY93_08730|PHY93_08730 174 -ItdillhAWSQSRKNDESdnptagaignildlimffnddatesnhpifnEDKNYFERLLKESQLI 238
                              .03333332222222222234446666666666666666666666664444444444444444433 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   5.1   1.2e-06    0.0037       2     195 ..       7     402 ..       6     410 .. 0.77

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 1.2e-06
                              EEEEEEESETTEECEEEEEETTSSEEEEEESTTSSHHHHHHHHH....HHCTT.TTTTTTCHCCCCCC--BTTCSSTTEEEEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N   2 lkrleienFksyagktvilpfsksftaivGpNGSGKsnlldAil....FvLGersakklrseklsdlihkskekasvkkaeveitf 83 
                               k++ i++++ + +k+  l+f+++   i+G NG+GK+++l  i+    F ++e  +k+  s++ ++ i   + + ++ + +++++f
  PHY93_08730|PHY93_08730   7 FKTIYIRKMQPIFKKEFRLNFNQKEILILGGNGAGKTSFLRLIKslssFNFSELFSKSCSSTHERE-ID-FEYEVQLRQQSLKVFF 90 
                              57899999999999************************9998841112444444443333333333.33.3567777777788888 PP

                              EETTEE...............SSSSSSCEEEEEEEETTSEEEEEETTE.EE-HHHHHHHHHCTT-STT.................. CS
                              xxxxxx...............xxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxx.................. RF
                    SMC_N  84 dnedkk...............lkiekeevsisrrvkrkgeseykingk.evtkkevsellesagiske.................. 135
                              ++++ k                ++ k+  ++s+r ++ ++s    n +  v  k+ s +l+++ i+++                  
  PHY93_08730|PHY93_08730  91 QETSLKpsrkllsnkllqdaiDSTAKDIAVVSKRNIKIETSGTNYNIRlLVDDKQFSFFLNEELINQSdlleinlsssnpaptitd 176
                              555554445555555555443233333334444444444433333333144556777777777777779999999999******** PP

                              ...................................................................................... CS
                              ...................................................................................... RF
                    SMC_N 136 ...................................................................................... 135
                                                                                                                    
  PHY93_08730|PHY93_08730 177 illhawsqsrkndesdnptagaignildlimffnddatesnhpifnedknyferllkesqlihkknsnspgwyytsgpwfidtiga 262
                              ************************************************************************************** PP

                              .....................................................................................C CS
                              .....................................................................................x RF
                    SMC_N 136 .....................................................................................l 136
                                                                                                                   +
  PHY93_08730|PHY93_08730 263 penskehwllkklndciekdnplliiqsadlpilkrialdlnvsdikfniflnnkqkkedgsidsnwalnsitivdhennefdseN 348
                              ************************************************************************************** PP

                              S-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTTSEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 137 LSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkeksknaQfivi 195
                              LS G+k  ++l + ++ +  + +p +l+De    L ++ ++    +  +++k++Q++++
  PHY93_08730|PHY93_08730 349 LSYGQKRYLSLMIYLSKN-SSYRP-FLIDEPTNGLHHRFIES---FYYNTEKSSQLFMT 402
                              *******99998887743.33344.46788776665444433...33344444566655 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   8.9e-05      0.27      15      39 ..      23      46 ..      18      52 .. 0.80
   2 ?   -4.2   0.1       5.1   1.5e+04      51      57 ..     436     442 ..     434     446 .. 0.60

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 8.9e-05
                   AAA_29 15 htieidlkgatlltGpsGsGKSTll 39
                              ++++++k+ +l+ G +G+GK+++l
  PHY93_08730|PHY93_08730 23 FRLNFNQKE-ILILGGNGAGKTSFL 46
                             456777776.************987 PP

  == domain 2  score: -4.2 bits;  conditional E-value: 5.1
                   AAA_29  51 kvrfNka 57 
                              +++fNk+
  PHY93_08730|PHY93_08730 436 WRNFNKS 442
                              4566664 PP

>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   9.2e-05      0.27       8      63 ..      15      70 ..      10      76 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 9.2e-05
                             HHHHHHHHHHHCTSSS-EEEECSTTSSHHHHHHHHHHHSTTTTS-EEEEETTTS-T CS
          Sigma54_activat  8 lkelleqikkvaktdlsvlitGesGtGKellaraiheaskrkekpfvavncaaipe 63
                             ++ ++++  ++  ++ ++li+G +G+GK+ + r+i + s+ + +++ +  c+++ e
  PHY93_08730|PHY93_08730 15 MQPIFKKEFRLNFNQKEILILGGNGAGKTSFLRLIKSLSSFNFSELFSKSCSSTHE 70
                             66666666677778899********************9999988888888887655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (466 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       692  (0.0385967); expected 358.6 (0.02)
Passed bias filter:                      371  (0.0206927); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.58u 0.25s 00:00:00.83 Elapsed: 00:00:00.40
# Mc/sec: 3513.40
//
Query:       PHY93_08735|PHY93_08735  [L=237]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0057   16.6   0.0      0.011   15.7   0.0    1.4  1  DUF4227   Protein of unknown function (DUF4227)


Domain annotation for each model (and alignments):
>> DUF4227  Protein of unknown function (DUF4227)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0     6e-07     0.011      20      54 ..     143     177 ..     137     184 .. 0.89

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 6e-07
                  DUF4227  20 fyyallwlneeyepyhrYdePeGsAVkvfqkeege 54 
                              fy +  wl e ye +++ ++P+ +A+k f++++g+
  PHY93_08735|PHY93_08735 143 FYSIESWLYENYEIVRDSHKPHYEALKKFKEKHGD 177
                              888999***********************988876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (237 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       730  (0.0407162); expected 358.6 (0.02)
Passed bias filter:                      341  (0.0190195); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.36
# Mc/sec: 1991.26
//
Query:       PHY93_08740|PHY93_08740  [L=460]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.6e-29  103.3   0.0    2.7e-29  102.6   0.0    1.4  1  Mur_ligase_M   Mur ligase middle domain
    3.4e-29  101.0   0.2    6.2e-29  100.2   0.2    1.5  1  Mur_ligase     Mur ligase family, catalytic domain
    1.9e-17   63.3   0.0    8.4e-17   61.2   0.0    2.1  2  Mur_ligase_C   Mur ligase family, glutamate ligase domain
  ------ inclusion threshold ------
      0.017   15.7   0.9      0.051   14.2   0.1    2.1  2  F420_oxidored  NADP oxidoreductase coenzyme F420-dependent
       0.11   12.3   0.1       0.29   11.0   0.1    1.7  1  3HCDH_N        3-hydroxyacyl-CoA dehydrogenase, NAD binding d


Domain annotation for each model (and alignments):
>> Mur_ligase_M  Mur ligase middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  102.6   0.0   7.5e-33   2.7e-29       1     191 [.     117     295 ..     117     296 .. 0.86

  Alignments for each domain:
  == domain 1  score: 102.6 bits;  conditional E-value: 7.5e-33
                              EESSS-HHHHHHHHHHHHHCT.EEEEETTCSS-THHHHHHHHHHHHHTT-SEEEEE--HCHHHCTTTCCH.CBESEEEE---TSTT CS
             Mur_ligase_M   1 vTGtnGKTTtteliaaileka.gkvigtvgttnneiglpktlaemekkeaeyavlEvsshglgekrlegl.lkpdvavitnispdH 84 
                              v+Gt+GKTTtt+++a il++     + ++g   ++++ ++     +  + +++v E+ ++   ++    l l p + vitni+ dH
  PHY93_08740|PHY93_08740 117 VAGTHGKTTTTSFLATILQECdLDPTYIIGGIVKNLDGHA-----KVGKGDFLVAEADES---DGT--FLlLTPVMSVITNIDNDH 192
                              89******************97779999997444444444.....34689**********...333..33399************* PP

                              HHHHSSHHHHHHHHHHHHHTSETTCEEEEETTSC...CHHHHHCTCCTCEEEEESSSTSECEEEEEEEEETTEEEEEEEEETTEEE CS
             Mur_ligase_M  85 ldfhgtlenyaeaKaelferlkeegiavinaddpyakelikklkkakvkvvtfglekeaedlraknieeksegteiellevkggel 170
                              +d +gt en ++a+ e+ ++++  g++ +na d+   +l+   ++ k  +vtfg++  a d+ a+nie+ +++t+++l    + ++
  PHY93_08740|PHY93_08740 193 MDHYGTEENLFKAFVEFANKVPFYGVVALNAHDE---KLMLLKSEMKRPAVTFGIDIPA-DFTARNIEYGHFDTSFDLYYKGELQV 274
                              **********************************...666655566556*********9.7999**************94455566 PP

                              EEEESSCSCHHHHHHHHHHHH CS
             Mur_ligase_M 171 eieipllGkhnvyNalaaiaa 191
                               +ei+l+G+hnv N l a ++
  PHY93_08740|PHY93_08740 275 RFEINLPGRHNVLNCLGASVL 295
                              6***************99876 PP

>> Mur_ligase  Mur ligase family, catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  100.2   0.2   1.7e-32   6.2e-29       1      88 []      14     113 ..      14     113 .. 0.96

  Alignments for each domain:
  == domain 1  score: 100.2 bits;  conditional E-value: 1.7e-32
                              EEEEESTTSCCHHHHHHHHHHTTSEEEEEESSHC.....HHHTT-EEEES-HGGGG......EE-T.S-TTCHHHHHHHHTTEEEE CS
               Mur_ligase   1 eihfigidgrgmsagalflalkGykvdGsdfies.....lialGaaavvghdaani......vvss.iskdnpeleaakepgipve 74 
                              +ihfigi+g+gms++a++l   Gy+v+Gsd+ es     l++lGa++++gh+++n+      v+ss +++ npe+ +ak+ gipv+
  PHY93_08740|PHY93_08740  14 KIHFIGIGGIGMSGIAEVLIASGYNVSGSDVSESpnvkkLKKLGAEIYIGHKEENLnnvtvvVYSSaVNDLNPEVIRAKREGIPVI 99 
                              69***********************************************************9999966555*************** PP

                              EHHHHHHHHHHCCE CS
               Mur_ligase  75 sraeaLaelaarfy 88 
                              +rae+Lael++ +y
  PHY93_08740|PHY93_08740 100 RRAEMLAELMRLKY 113
                              **********9886 PP

>> Mur_ligase_C  Mur ligase family, glutamate ligase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.2   0.0   2.4e-20   8.4e-17       1      90 [.     316     402 ..     316     403 .. 0.96
   2 ?   -2.1   0.0       1.3   4.8e+03      59      77 ..     414     433 ..     408     447 .. 0.69

  Alignments for each domain:
  == domain 1  score: 61.2 bits;  conditional E-value: 2.4e-20
                              CTTSSEEEEETTTEEEEEET--SHHHHHHHHHHHHHHSSSSEEEEEEEESTT.CCSCHCTHHHHHHHHCCHSSEEEEEESS-TTST CS
             Mur_ligase_C   1 vkgRlevvgeadgvtvidDyahnpdslsaalkalreiapdkrlilvfgpggelgertrtfhdefgrlasaladslvvlgdypraed 86 
                              v +R++++ ++ g+ v+dDy+h+p+++  +lk ++++ pd ++i++f p  ++++rtr++ d+f  ++++ ad+l++l++y ++e 
  PHY93_08740|PHY93_08740 316 VGRRFQLLYKEAGFEVVDDYGHHPTEIASTLKIVKDTRPDYKKIVIFEP--HRFTRTRDCWDQFLHCFND-ADELYLLPVYAASEM 398
                              579**********************************************..******************9.*************99 PP

                              HHHH CS
             Mur_ligase_C  87 siaa 90 
                              +i++
  PHY93_08740|PHY93_08740 399 PIDG 402
                              8876 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 1.3
                              CTHHHHHHHHCCHSSE.EEE CS
             Mur_ligase_C  59 tfhdefgrlasalads.lvv 77 
                               +h++f+r  ++++d  lv+
  PHY93_08740|PHY93_08740 414 RLHPQFARKIESIDDLgLVI 433
                              56788888888877776655 PP

>> F420_oxidored  NADP oxidoreductase coenzyme F420-dependent
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.1   1.4e-05     0.051       1      71 [.      14      81 ..      14      95 .. 0.70
   2 ?   -1.6   0.0       1.2   4.3e+03       5      13 ..     446     454 ..     441     458 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 1.4e-05
                             EEEEETTSHHH.HHHHHHHHHTTS-GGCEEEEEESSCCCHHHHHHHHC-EEECECHHHHHHH-SEEEE-S-H CS
            F420_oxidored  1 kigiiGaGnmg.ealasgllaagaqpheivvansrnpekaeelaeelgvkvtavdneeaaeeadvvvlavkp 71
                             ki +iG G +g +++a+ l+a+g   +++  +++ +++   +  ++lg+++  +++ee +++ +vvv +   
  PHY93_08740|PHY93_08740 14 KIHFIGIGGIGmSGIAEVLIASG---YNVS-GSDVSESPNVKKLKKLGAEIYIGHKEENLNNVTVVVYSSAV 81
                             799********568*********...6666.44444444444445555555566777888888888877655 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 1.2
                              ETTSHHHHH CS
            F420_oxidored   5 iGaGnmgea 13 
                              +GaG++g+a
  PHY93_08740|PHY93_08740 446 LGAGSIGKA 454
                              7******98 PP

>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.1   8.1e-05      0.29       2      51 ..      15      65 ..      14      88 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 8.1e-05
                             EEEE--SCCH.HHHHHHHHHTT-EEEEE-S-HHHHHHHHHHHHHHHHCCTT CS
                  3HCDH_N  2 vaviGaGtmG.agiaavfasagleVvlvdiseealekalekieksleklve 51
                             +  iG G +G +gia+v++++g++V   d+se+   k l+k+ +++   ++
  PHY93_08740|PHY93_08740 15 IHFIGIGGIGmSGIAEVLIASGYNVSGSDVSESPNVKKLKKLGAEIYIGHK 65
                             6679***9*9679******************99998888888776655555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (460 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       449  (0.0250432); expected 358.6 (0.02)
Passed bias filter:                      422  (0.0235373); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.41
# Mc/sec: 3378.78
//
Query:       PHY93_21295|PHY93_21295  [L=404]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.2e-54  183.8   0.0    6.6e-54  183.4   0.0    1.0  1  Aminotran_1_2    Aminotransferase class I and II
    7.7e-06   24.7   0.0    0.00026   19.7   0.0    2.1  2  Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
     0.0023   17.0   0.0     0.0056   15.7   0.0    1.6  1  Aminotran_5      Aminotransferase class-V
  ------ inclusion threshold ------
      0.012   14.9   0.0       0.04   13.2   0.0    1.8  1  Beta_elim_lyase  Beta-eliminating lyase
      0.025   13.3   0.0        1.7    7.3   0.0    2.1  2  OKR_DC_1         Orn/Lys/Arg decarboxylase, major domain
       0.05   13.4   0.2        1.3    8.7   0.0    2.8  3  DUF2451          Protein of unknown function C-terminus (DUF2


Domain annotation for each model (and alignments):
>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  183.4   0.0   2.2e-57   6.6e-54      39     356 ..      62     368 ..      53     375 .. 0.90

  Alignments for each domain:
  == domain 1  score: 183.4 bits;  conditional E-value: 2.2e-57
                              ST-BTTHHHHHHHHHHHHHCTCTTCHTTGGEGEEEESHHHHHHHHHHHHHHHTTT-EEEEEESS-THHHHHHHHTTSEEEEEEBEE CS
            Aminotran_1_2  39 eygpidglpeleealakflgrseklklkreaavvvgsGagaliealifllklnpgdeilvpdptyasyknilrlsggevvryplys 124
                               y++++glpel+e++a f+++++  +++  ++++v+ G++a+i ++i  + +n+g+++l+++p + sy++ +rl ++    +p+  
  PHY93_21295|PHY93_21295  62 HYSDSQGLPELREKIAMFYKQQYDANVNGTDEILVTAGSKAAIYMAILGT-VNRGEQVLIHEPAWLSYQEQVRLVDAVPSFIPY-- 144
                              599***********************************************.9*******************************5.. PP

                              TTTTEE-HHHHHHHHTTHHCTTETEEEEEEESS-TTT--B--HHHHHHHHHHHHHTTEEEEEEETTTTCBSSSSHTHHHHGGSTTS CS
            Aminotran_1_2 125 eedfhldlealeealkeapegnkktkvilvesphNPtGtvatleeleklldlakkynlllfvDeaYagfvfgsldavatranveee 210
                                  ++ + ++e   +        t+++++++p+NP G ++t eel++l++l+kk +++l+vDeaY++f     ++ + +++++e+
  PHY93_21295|PHY93_21295 145 ----NVPVSEFESWFTP------TTRMLVINNPNNPAGRIYTSEELKELIKLCKKFKAWLLVDEAYSDFINP-GEFHS-ILKFDEA 218
                              ....5********9999......99*********************************************98.56888.5566555 PP

                              TT.EEEEEESSSTTSSGGG-EEEEEEEHHHHHHHHHHHHHHTS..SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
            Aminotran_1_2 211 pn.llivgslsKafGlaGeRvGyilgnaavvsqlrklsrpfls..ssllqaavaaalsdallkqseleemrqrlqkrrkelrdeLa 293
                               +  ++++slsK++G+ G+R+Gyi+g + +++ql kl ++++   +++lqa++a   ++   +   l ++r+ ++k rk++ +  +
  PHY93_21295|PHY93_21295 219 KEvAIVANSLSKNMGMSGWRIGYIVGAPSLIRQLVKLNQHLITcaPTILQAYLAHYFDKIISI--TLPQAREVVAK-RKRVEALVK 301
                              5556*******************************************************9988..89998887766.566777777 PP

                              HSTEEEECCSCSSEEEEEETHH..CHHHHHHHHHHTCTEEEEEGGGGTS..TTEEEEECTTS-HHHH CS
            Aminotran_1_2 294 elglkvlasqsgmflltdlsae..takelskkLleevgvyvtpgtsftv..pgrlRitvAglteeel 356
                              e gl++l+  ++++ ++ +     +  ++s  Ll ++++   pg  ++     ++R+++ + +ee +
  PHY93_21295|PHY93_21295 302 EVGLSCLEGSATFYFFVSMGDFpaNSLDFSMYLLLYHNISTAPGLAYGEstDRFIRVSIGTESEERI 368
                              77***********99988876666799****************9999999999******44455555 PP

>> Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.7   0.0   8.5e-08   0.00026      62     200 ..      86     232 ..      78     273 .. 0.76
   2 ?    3.0   0.0      0.01        30     355     374 ..     350     369 ..     297     374 .. 0.71

  Alignments for each domain:
  == domain 1  score: 19.7 bits;  conditional E-value: 8.5e-08
                              HHHHT-SEEEEESSHHHHHHHHHHTTS-TTEEEEEESTSSHHHHHHHHHTHHHTTCEEEEEST.TSHHHHHHHCCTTEEEEEEESS CS
          Cys_Met_Meta_PP  62 aaLeggeaalavssGmaAiaaailallkaGdeivvsddlYggtqrllkkvlkklgievkfvdt.sdleelekaikentklvylEtp 146
                              a+++g+++ l+++   aAi +ail  ++ G+++++++ ++ + q++++ v        +f+     ++e+e+ +++ t+++ +  p
  PHY93_21295|PHY93_21295  86 ANVNGTDEILVTAGSKAAIYMAILGTVNRGEQVLIHEPAWLSYQEQVRLVDAV----PSFIPYnVPVSEFESWFTPTTRMLVINNP 167
                              677888999999999***********************999988887766443....3444431345889999************* PP

                              -TTTT---...-HHHHHHHHHHTT-EEEEEGT...TTHT.TTS-GGGGT....-SEEEEETTTTT CS
          Cys_Met_Meta_PP 147 tnpllkvv...DiekiaklakkagvlvvvDnt...fasp.llqrplklg....aDivvhSaTKyl 200
                               np  ++     +++++kl+kk ++ ++vD +   f+ p  +   lk++    + iv +S +K +
  PHY93_21295|PHY93_21295 168 NNPAGRIYtseELKELIKLCKKFKAWLLVDEAysdFINPgEFHSILKFDeakeVAIVANSLSKNM 232
                              ***877753337999999************98223344435666666666555667777777765 PP

  == domain 2  score: 3.0 bits;  conditional E-value: 0.01
                              TS-TTEEEEE--SS-HHHHH CS
          Cys_Met_Meta_PP 355 gvtddliRlsvGiEdvdDli 374
                                td++iR+s+G E  + + 
  PHY93_21295|PHY93_21295 350 ESTDRFIRVSIGTESEERIA 369
                              4689**********988765 PP

>> Aminotran_5  Aminotransferase class-V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   1.9e-06    0.0056      47     177 ..      71     199 ..      60     255 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 1.9e-06
                              HHHHHHHHHH......T-STGGGEEEESSHHHHHHHHHHHCCCC-TTTSEEEEETTSHGGGTHHHHHHHHHHTEEEEEEEBETTSC CS
              Aminotran_5  47 earekvaeli......naeseeeiiftsGtteainlvalslarslkpgdeivvteaehhanlvpwqelakrtgakvkvipldeege 126
                              e rek+a ++      n++ ++ei++t G+  ai +++l+    +++g+++++ e    +     qe  +     v+ +p     +
  PHY93_21295|PHY93_21295  71 ELREKIAMFYkqqydaNVNGTDEILVTAGSKAAIYMAILGT---VNRGEQVLIHEPAWLS----YQEQVRL----VDAVPSFIPYN 145
                              55666666652222225556689999999999999999999...8999999997643333....3333333....44445555558 PP

                              BEGGGHHHH--TTEEEEEEESBETTTT...EB--HHHHHHHHHHTT-EEEEE-T CS
              Aminotran_5 127 ldldelekllnektklvaithvsnvtG...tiqpveeigklakkkgalvlvDaa 177
                              + ++e+e+  +++t+++ i+  +n  G   t ++++e++kl+kk +a++lvD a
  PHY93_21295|PHY93_21295 146 VPVSEFESWFTPTTRMLVINNPNNPAGriyTSEELKELIKLCKKFKAWLLVDEA 199
                              889************************33335899999**************88 PP

>> Beta_elim_lyase  Beta-eliminating lyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   1.3e-05      0.04     123     169 ..     153     199 ..      62     201 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.3e-05
                              T.TS-EEEEEEEESSBTTTTTB---HHHHHHHHHHHHHCT-EEEEEET CS
          Beta_elim_lyase 123 a.heekiklisltvTnntagGqvvsleelrevaaiakkygiplhlDgA 169
                              + + + ++++++ + nn  +G++++ eel+e+ +++kk +  l++D A
  PHY93_21295|PHY93_21295 153 SwFTPTTRMLVINNPNNP-AGRIYTSEELKELIKLCKKFKAWLLVDEA 199
                              3467899**********5.9*******************999999976 PP

>> OKR_DC_1  Orn/Lys/Arg decarboxylase, major domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3   0.0   0.00055       1.7      71     133 ..      81     142 ..      67     150 .. 0.91
   2 ?    3.9   0.0    0.0061        18     170     215 ..     160     209 ..     148     235 .. 0.65

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.00055
                              HHHHHHHHCT-SEEEEESSHHHHHHHHHHHHH--TTEEEEEESS--HHHHHHHHHS-EEEEEE CS
                 OKR_DC_1  71 aqkyaarvfgadksyfvvnGTsssnkvvlnavltpgdlvlvdRNcHKSiehalvlsgatPvyl 133
                               q+y a+v g+d+  +v+ G  +++ + +  ++++g++vl+   +  S ++ + l +a+P ++
  PHY93_21295|PHY93_21295  81 KQQYDANVNGTDEI-LVTAGSKAAIYMAILGTVNRGEQVLIHEPAWLSYQEQVRLVDAVPSFI 142
                              699*****999985.899******************************************987 PP

  == domain 2  score: 3.9 bits;  conditional E-value: 0.0061
                              SEEEEESS-T.TSEEE...-HHHHHHHHTTSESEEEEE-TT-TTGGGSGG CS
                 OKR_DC_1 170 rlavitnsTY.dGvly...nakeivdkleklsdrilfDeAwvgyeqfipl 215
                              r++vi n+    G +y   ++ke++++ +k++  +l+DeA+  +++  ++
  PHY93_21295|PHY93_21295 160 RMLVINNPNNpAGRIYtseELKELIKLCKKFKAWLLVDEAYSDFINPGEF 209
                              5678888764368888222455666677899999******9888765444 PP

>> DUF2451  Protein of unknown function C-terminus (DUF2451)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.0      0.19   5.6e+02     177     219 ..     134     189 ..     117     194 .. 0.71
   2 ?    8.7   0.0   0.00044       1.3      16      61 ..     247     293 ..     242     310 .. 0.88
   3 ?   -0.3   0.0      0.25   7.4e+02       8      30 ..     359     381 ..     357     388 .. 0.90

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 0.19
                  DUF2451 177 nleyveeYIkayylpekeleewikeh..............eeYskkqltgLvnclas 219
                               ++ v ++I  y +p +e+e+w + +              + Y++++l  L++++++
  PHY93_21295|PHY93_21295 134 LVDAVPSFI-PYNVPVSEFESWFTPTtrmlvinnpnnpagRIYTSEELKELIKLCKK 189
                              556666666.38899999999998886777777666666667888888888887755 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 0.00044
                  DUF2451  16 flaeqleslkpvlesllpekkrglleeFyeqtvsava.dlrepiyka 61 
                              +l++ql +l+++l ++ p+  ++ l +++++++s++  + re+++k 
  PHY93_21295|PHY93_21295 247 SLIRQLVKLNQHLITCAPTILQAYLAHYFDKIISITLpQAREVVAKR 293
                              5899******************************9988****99964 PP

  == domain 3  score: -0.3 bits;  conditional E-value: 0.25
                  DUF2451   8 ivavESliflaeqleslkpvles 30 
                               +++ES + +a++l  +k+vl+s
  PHY93_21295|PHY93_21295 359 SIGTESEERIADALAVIKNVLSS 381
                              599****************9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (404 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       527  (0.0293937); expected 358.6 (0.02)
Passed bias filter:                      511  (0.0285013); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.58u 0.23s 00:00:00.81 Elapsed: 00:00:00.40
# Mc/sec: 3024.85
//
Query:       PHY93_08745|PHY93_08745  [L=393]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.6e-93  313.6  30.2      2e-93  313.3  30.2    1.0  1  FTSW_RODA_SPOVE  Cell cycle protein
  ------ inclusion threshold ------
        0.4   10.5   0.7        0.7    9.7   0.7    1.3  1  ATG27            Autophagy-related protein 27


Domain annotation for each model (and alignments):
>> FTSW_RODA_SPOVE  Cell cycle protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  313.3  30.2   2.2e-97     2e-93       5     354 ..      16     361 ..      12     365 .. 0.96

  Alignments for each domain:
  == domain 1  score: 313.3 bits;  conditional E-value: 2.2e-97
          FTSW_RODA_SPOVE   5 llvllllvilGlvmiysaslveslvlfgdsfvlfirqlvylllglivfvlllriplkfleklakllliislllLvlvkvp.lgssa 89 
                              l +l++++++Gl+m++sas++ ++++fg+s + +irql+yl l++ +++ ++r ++ f+ k+  l+ i+  ++++l+ +  +gssa
  PHY93_08745|PHY93_08745  16 LSTLAIIITIGLIMVWSASFILAAEKFGSSLHYIIRQLIYLSLSVGLAFTVSRTKYTFWIKFGYLINIAASMIVALTIIKgVGSSA 101
                              556777778****************************************************99999999888888888888***** PP

          FTSW_RODA_SPOVE  90 nGAkrWirlggisiqPsEfvkialilflAavlskkkkevksrlrellillvivllilvlillqpdlgtavllliillvvlflsgls 175
                              +GA rW+ +gg+siqP E+vk  +il   +++++   + k   +e l+  + ++l+l+l++ qpd+g+  ++++++++v fls ++
  PHY93_08745|PHY93_08745 102 KGASRWLTFGGMSIQPGEIVKFTVILSALSFFEN---WNKMDTKERLKHGGSLFLPLALLIKQPDFGSFSICFMVIAFVCFLSSFP 184
                              ****************************9***99...88888899999999*********************************** PP

          FTSW_RODA_SPOVE 176 lklilaivlalilviaivllilledyqvkrvtslldpfkdplgsgYqviqsliAigsGGllGkGlgnsqqkleyLPeahtDfIfav 261
                               k++   ++   + i  +++++++ y+vkr+ ++ldp+k+p+gsg+q+iqs++A+++G  +G+Glgns+ kl+yLPeah+DfIf+v
  PHY93_08745|PHY93_08745 185 RKYFYYSLI--GGGIGGLMILFSQAYRVKRMLTYLDPWKNPQGSGFQIIQSYMAFANGSAFGQGLGNSNEKLFYLPEAHNDFIFSV 268
                              *****9999..6999999******************************************************************** PP

          FTSW_RODA_SPOVE 262 igEelGlvGvllllllffllivrglriarkakdrfgsllavgivllivvqsfinigmvlGllPvtGltlPflSyGGsSllallili 347
                              igEelG++Gv l+++lf+ +i+ g+++  + kdr g +l  ++++++ +q+++n+g+vlGllP++Gl+lPf+SyGGsSl+ + ++i
  PHY93_08745|PHY93_08745 269 IGEELGFIGVFLIICLFIAFIYFGFKLVLQVKDRIGIILGSAVIFVLGLQALLNMGVVLGLLPTKGLNLPFISYGGSSLICNFFGI 354
                              ************************************************************************************** PP

          FTSW_RODA_SPOVE 348 gillnis 354
                              g+ll++ 
  PHY93_08745|PHY93_08745 355 GLLLSVV 361
                              ***9985 PP

>> ATG27  Autophagy-related protein 27
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   0.7   7.8e-05       0.7     192     222 ..     261     300 ..     232     304 .. 0.80

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 7.8e-05
                    ATG27 192 k.........sgwGfFtwlfiilflataaYlifgswlNyn 222
                              +         + +Gf  +++ii ++ + +Y++f+ +l+++
  PHY93_08745|PHY93_08745 261 HndfifsvigEELGFIGVFLIICLFIAFIYFGFKLVLQVK 300
                              0456666666899**********************99987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (393 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       867  (0.0483574); expected 358.6 (0.02)
Passed bias filter:                      362  (0.0201908); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.60u 0.23s 00:00:00.83 Elapsed: 00:00:00.40
# Mc/sec: 2926.10
//
Query:       PHY93_08750|PHY93_08750  [L=460]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.4e-19   68.3   0.1    1.5e-18   67.5   0.1    1.4  1  Mur_ligase_M   Mur ligase middle domain
    5.6e-08   32.9   0.0    8.9e-07   29.1   0.0    3.0  3  Mur_ligase_C   Mur ligase family, glutamate ligase domain
     0.0069   16.8   0.0      0.029   14.8   0.0    2.1  2  NAD_binding_7  Putative NAD(P)-binding
  ------ inclusion threshold ------
      0.015   14.7   0.0      0.035   13.5   0.0    1.7  1  2-Hacid_dh_C   D-isomer specific 2-hydroxyacid dehydrogenase,


Domain annotation for each model (and alignments):
>> Mur_ligase_M  Mur ligase middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.5   0.1   3.4e-22   1.5e-18       1     191 [.     118     303 ..     118     304 .. 0.81

  Alignments for each domain:
  == domain 1  score: 67.5 bits;  conditional E-value: 3.4e-22
                              EESSS-HHHHHHHHHHHHHCTEEEEETTCSS-THHHHHHHHHHHHHTT-SEEEEE--HCHHHCTTTCCHCBESEEEE---TSTTHH CS
             Mur_ligase_M   1 vTGtnGKTTtteliaailekagkvigtvgttnneiglpktlaemekkeaeyavlEvsshglgekrlegllkpdvavitnispdHld 86 
                              v G+ G TT++ +i   l+  gk +++ gt   e+ + + ++   ++e++y+v+Evs+   + k l + + p+++v+ ni+++   
  PHY93_08750|PHY93_08750 118 VCGSFGRTTIAAMIGFTLKVDGKNAFVGGTS--ETPFIEYCLLPNMNEVDYVVVEVSAL--QMKSLPD-FHPKIVVLPNIGENFSK 198
                              78***************************94..444444444555557*********98..5588899.9*************998 PP

                              .HHSSHHHHHHHHHHHHHTSETTCEEEEETTSC...CHHHHHCTCCTCEEEEESSSTSECEEEEEEEEETTEEEEEEEEE..TTEE CS
             Mur_ligase_M  87 .fhgtlenyaeaKaelferlkeegiavinaddpyakelikklkkakvkvvtfglekeaedlraknieeksegteiellev..kgge 169
                               +++++ +y+e+K +++++l++e++++ n d     +  + +++a+++v+ ++ ++  +    ++i+ +++ ++ ++++    + e
  PHY93_08750|PHY93_08750 199 aNFSSVSEYMETKLSIIKKLSPEDTLIANYDTL---ANNASIRNANCQVYWYSRRSYVTLGVMNEIQGTHFHDR-RIHSNinYHSE 280
                              799******************************...888888899999********994333335555555444.33322333444 PP

                              EE.EEESSCSCHHHHHHHHHHHH CS
             Mur_ligase_M 170 le.ieipllGkhnvyNalaaiaa 191
                              ++  +++++G +n +N++aa+ a
  PHY93_08750|PHY93_08750 281 FKvSKMRIVGLYNRENLMAAVTA 303
                              556899**************987 PP

>> Mur_ligase_C  Mur ligase family, glutamate ligase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0       2.2   9.8e+03      40      55 ..       7      21 ..       4      31 .. 0.67
   2 ?   -2.2   0.0       1.1     5e+03      39      57 ..     111     126 ..     104     138 .. 0.77
   3 !   29.1   0.0     2e-10   8.9e-07       2      80 ..     325     395 ..     324     434 .. 0.85

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 2.2
                             SSEEEEEEEESTT.CC CS
             Mur_ligase_C 40 dkrlilvfgpggelge 55
                             +++++l++g g+  g 
  PHY93_08750|PHY93_08750  7 KGKKVLIVGIGKT-GF 21
                             4789999996544.54 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 1.1
                              SSSEEEEEEEESTT.CCSC CS
             Mur_ligase_C  39 pdkrlilvfgpggelgert 57 
                               +k +i+v+g++g     t
  PHY93_08750|PHY93_08750 111 CKKPVIAVCGSFGR---TT 126
                              47999*****9877...55 PP

  == domain 3  score: 29.1 bits;  conditional E-value: 2e-10
                              TTSSEEEEETTTEEEEEE.T--SHHHHHHHHHHHHHHSSSSEEEEEEEESTT.CCSCHCTHHHHHHHHCCHSSEEEEEES CS
             Mur_ligase_C   2 kgRlevvgeadgvtvidD.yahnpdslsaalkalreiapdkrlilvfgpggelgertrtfhdefgrlasaladslvvlgd 80 
                              + R+e + e++gv +++D +a ++ ++ a lk++     ++ +il++g g++  + + +f++  +++ +  a +lv++g+
  PHY93_08750|PHY93_08750 325 PNRMEFIMEKNGVCFYNDsKAETMPEMLASLKSF-----KEPVILIAG-GKD--NEDLNFDPFAKEMMAN-ARVLVLVGE 395
                              78********************************.....479******.899..5666666666666665.555666654 PP

>> NAD_binding_7  Putative NAD(P)-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.0   6.5e-06     0.029       4      66 ..       5      78 ..       3     106 .. 0.69
   2 ?   -2.6   0.0       1.7   7.7e+03      59      78 ..     218     237 ..     170     260 .. 0.50

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 6.5e-06
            NAD_binding_7  4 dlkgkkvlvvGgGevAarkvrklleagakvtvvapev....keeleelvkla...eeel....ekdlegadlvi 66
                             ++kgkkvl+vG G+ + + ++ + + ++++ v + +     ++ +++l k++   e  +    ++d+ +ad+v+
  PHY93_08750|PHY93_08750  5 RFKGKKVLIVGIGKTGFSLINFFNKLECEIRVTDIKPifdlNKSVKKLKKIEpapEMSFgehkDEDFLDADVVV 78
                             689*****************************877753344333333333331112223443345566666554 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 1.7
            NAD_binding_7  59 legadlviaatddrelneri 78 
                              l+  d++ia  d  + n+ i
  PHY93_08750|PHY93_08750 218 LSPEDTLIANYDTLANNASI 237
                              33334444444444444444 PP

>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   7.8e-06     0.035      32      70 ..       4      42 ..       1      86 [. 0.84

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 7.8e-06
                             S-GTTSEEEEES-SHHHHHHHHHHHHTT-EEEEESSSHH CS
             2-Hacid_dh_C 32 kelsgktvGiiGlGrIGqavakrlkafgmkviaydrskk 70
                             ++ +gk+v i+G+G+ G ++++ ++++++++ ++d ++ 
  PHY93_08750|PHY93_08750  4 ERFKGKKVLIVGIGKTGFSLINFFNKLECEIRVTDIKPI 42
                             5789******************************99865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (460 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       460  (0.0256568); expected 358.6 (0.02)
Passed bias filter:                      391  (0.0218082); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.55u 0.20s 00:00:00.75 Elapsed: 00:00:00.38
# Mc/sec: 3629.30
//
Query:       PHY93_08755|PHY93_08755  [L=356]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.2e-36  123.2  12.6    9.2e-36  123.2  12.6    2.3  3  Glycos_transf_4  Glycosyl transferase family 4
    0.00011   21.6   4.5    0.00011   21.6   4.5    2.9  3  MraY_sig1        Phospho-N-acetylmuramoyl-pentapeptide-transf
     0.0051   16.6   3.1     0.0051   16.6   3.1    3.5  3  CoxIIa           Cytochrome c oxidase subunit IIa family


Domain annotation for each model (and alignments):
>> Glycos_transf_4  Glycosyl transferase family 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.1      0.49     3e+03      42      42 ..      40      40 ..      13      92 .. 0.58
   2 !  123.2  12.6   1.5e-39   9.2e-36       4     159 ..     101     282 ..      98     283 .. 0.90
   3 ?   -1.3   0.5      0.31   1.9e+03      45      77 ..     309     345 ..     287     354 .. 0.44

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 0.49
          Glycos_transf_4 42 t 42
                             +
  PHY93_08755|PHY93_08755 40 W 40
                             1 PP

  == domain 2  score: 123.2 bits;  conditional E-value: 1.5e-39
          Glycos_transf_4   4 llltillilllGflDDv........lglkarlKlilqilaalililtld...lslttlglllt.qvlielglilavlltllvivgv 77 
                               l +++ ++llGf+DD+        +g++a+ Kl++q+ +a+i+++++    +  t+++l+++   +i+lg + ++l+  +vivg+
  PHY93_08755|PHY93_08755 101 TLGVTFSYFLLGFYDDYlkvlkkdtKGVSAKRKLVWQFGTAFIAMFIMVnghIINTEVYLPFIkSPIIDLG-YGYILFGAIVIVGF 185
                              57788999********9999999999*************99999888877775555555555546889999.8999********** PP

          Glycos_transf_4  78 tNavNliDGldGlaagvsiiialalvvla...............avdgrsellllalallgallGfllfNrypAkvFmGDsgslfl 148
                              +NavNl+DGldGla+g  ii+a++l++l+               +++g  e+ +l+ a++ga +Gfl++N ypA++FmGD+gsl+l
  PHY93_08755|PHY93_08755 186 SNAVNLTDGLDGLAIGPIIISAVTLGFLTyaaghkeisqylyipYIEGIGEITVLTSAIIGAGIGFLWYNSYPAQIFMGDVGSLSL 271
                              *****************************9999999999999999999999999999***************************** PP

          Glycos_transf_4 149 Glvlavlailg 159
                              G++l+++a+l+
  PHY93_08755|PHY93_08755 272 GGTLGTIAVLA 282
                              *******9975 PP

  == domain 3  score: -1.3 bits;  conditional E-value: 0.31
          Glycos_transf_4  45 lslttlglllt....qvlielglilavlltllvivgv 77 
                              ++   ++++++    +++ +lg+  + +++ ++i++v
  PHY93_08755|PHY93_08755 309 FKTRGVRVFKMapihHHFEKLGWPETKVTVRFWIISV 345
                              3333333333344433333444444444444444433 PP

>> MraY_sig1  Phospho-N-acetylmuramoyl-pentapeptide-transferase signature 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   2.1      0.73   4.4e+03       8      12 ..      41      45 ..      41      45 .. 0.94
   2 !   21.6   4.5   1.8e-08   0.00011       1      13 []      68      80 ..      68      80 .. 0.95
   3 ?   -3.7   0.5       1.8   1.1e+04       8      11 ..     292     295 ..     292     296 .. 0.87

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 0.73
                MraY_sig1  8 GGvlI 12
                             GG++I
  PHY93_08755|PHY93_08755 41 GGIFI 45
                             9***9 PP

  == domain 2  score: 21.6 bits;  conditional E-value: 1.8e-08
                MraY_sig1  1 KkGTPTMGGvlIi 13
                             KkGTPTMGGv+++
  PHY93_08755|PHY93_08755 68 KKGTPTMGGVFML 80
                             9**********86 PP

  == domain 3  score: -3.7 bits;  conditional E-value: 1.8
                MraY_sig1   8 GGvl 11 
                              GG++
  PHY93_08755|PHY93_08755 292 GGIF 295
                              9997 PP

>> CoxIIa  Cytochrome c oxidase subunit IIa family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   3.1   8.6e-07    0.0051      11      32 ..      28      50 ..      26      50 .. 0.94
   2 ?   -0.6   1.9       0.2   1.2e+03       6      15 ..     273     282 ..     272     297 .. 0.85
   3 ?   -2.2   0.2      0.63   3.7e+03       6      18 ..     292     304 ..     286     306 .. 0.77

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 8.6e-07
                             HHHHHHHHH.HHHHHHHHHHHHT CS
                   CoxIIa 11 ivvLtatIL.vFWfgvFyvFlsR 32
                             +++L atIL +FW+g+F  F+ R
  PHY93_08755|PHY93_08755 28 VAFLLATILsIFWGGIFIAFMKR 50
                             89*******99*********998 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.2
                              HHHHHHHHHH CS
                   CoxIIa   6 GaLavivvLt 15 
                              G+L+ i+vL 
  PHY93_08755|PHY93_08755 273 GTLGTIAVLA 282
                              99*****995 PP

  == domain 3  score: -2.2 bits;  conditional E-value: 0.63
                              HHHHHHHHHHHHH CS
                   CoxIIa   6 GaLavivvLtatI 18 
                              G ++vi  L + I
  PHY93_08755|PHY93_08755 292 GGIFVIEALSVII 304
                              6678888887766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (356 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       579  (0.032294); expected 358.6 (0.02)
Passed bias filter:                      234  (0.0130515); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.39
# Mc/sec: 2730.92
//
Query:       PHY93_08760|PHY93_08760  [L=461]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.3e-35  120.9   4.0    1.1e-34  120.1   4.0    1.4  1  Mur_ligase_M  Mur ligase middle domain
    1.9e-07   31.3   0.0    4.3e-07   30.2   0.0    1.5  1  Mur_ligase    Mur ligase family, catalytic domain
    9.2e-07   29.0   0.0    1.2e-05   25.4   0.0    2.5  2  Mur_ligase_C  Mur ligase family, glutamate ligase domain


Domain annotation for each model (and alignments):
>> Mur_ligase_M  Mur ligase middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  120.1   4.0   1.8e-38   1.1e-34       1     190 [.     122     305 ..     122     307 .. 0.87

  Alignments for each domain:
  == domain 1  score: 120.1 bits;  conditional E-value: 1.8e-38
                              EESSS-HHHHHHHHHHHHHCT..EEEEETTCSS-THHHHHHHHHHHHHTT-SEEEEE--HCHHHC.TTTCCHCBESEEEE---TST CS
             Mur_ligase_M   1 vTGtnGKTTtteliaaileka..gkvigtvgttnneiglpktlaemekkeaeyavlEvsshglge.krlegllkpdvavitnispd 83 
                              +TG+nGKTT +e+i ++l++    +v++t g++nn+ig+p+t+  +e+ ++e+av+E++++++ge ++l++++ p+ ++itni+++
  PHY93_08760|PHY93_08760 122 ITGSNGKTTHKEMIFSLLNSIfpDQVLATKGNLNNHIGVPLTIFGLED-HHEIAVIEMGMNHVGEiNELCAIAHPEHGMITNIGSA 206
                              8*****************9999999***********************.************************************* PP

                              THHHHSSHHHHHHHHHHHHHTSETTC....EEEEETTSC...CHHHHHCTCCTCEEEEESSSTSECEEEEEEEEETTEEEEEEEEE CS
             Mur_ligase_M  84 HldfhgtlenyaeaKaelferlkeeg....iavinaddpyakelikklkkakvkvvtfglekeaedlraknieeksegteiellev 165
                              H++f +++en++++K  l++ + +++    ++v+nadd+   +li+  k     + t+g+++ +  +   +i+ ++++ ++++   
  PHY93_08760|PHY93_08760 207 HIEFMQSMENILKEKTCLYQAVLKNSlgrgMFVVNADDE---YLIRLEKSP--GLTTYGEKNGD--I---RINITDHKITFNIN-- 280
                              *******************99999988899*********...666665555..49*******98..3...34444455555333.. PP

                              TTEEEEEEESSCSCHHHHHHHHHHH CS
             Mur_ligase_M 166 kggeleieipllGkhnvyNalaaia 190
                                +    + ++l +hn++N++  ++
  PHY93_08760|PHY93_08760 281 GLEAWITNNNILEHHNLKNLAGTAI 305
                              3344457779999999999887665 PP

>> Mur_ligase  Mur ligase family, catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.2   0.0   7.1e-11   4.3e-07       5      63 ..      27      87 ..      26     102 .. 0.88

  Alignments for each domain:
  == domain 1  score: 30.2 bits;  conditional E-value: 7.1e-11
                             ESTTSCCHHHHHHHHHHTTSEEEEEESSHCHHHTT-EEEES-HGGGG..EE-TS-TTCHHH CS
               Mur_ligase  5 igidgrgmsagalflalkGykvdGsdfieslialGaaavvghdaani..vvssiskdnpel 63
                             i +d+r+ ++g  f+al G ++dG +++e+ i lGa+a++ ++++    +++s+sk++p +
  PHY93_08760|PHY93_08760 27 INTDSRSFKSGETFVALHGDNFDGFSYVEQVITLGAKAIIYSRKDGRdlIIQSFSKKHPNI 87
                             789***************************************9986677888877776655 PP

>> Mur_ligase_C  Mur ligase family, glutamate ligase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   0.0      0.14   8.5e+02      39      64 ..     113     134 ..      94     156 .. 0.60
   2 !   25.4   0.0   2.1e-09   1.2e-05      16      81 ..     339     411 ..     330     416 .. 0.88

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 0.14
                              S..SSEEEEEEEESTT.CCSCHCTHHHH CS
             Mur_ligase_C  39 p..dkrlilvfgpggelgertrtfhdef 64 
                              +  d+++i + g+      +++t h+e+
  PHY93_08760|PHY93_08760 113 KkaDRKIIGITGS------NGKTTHKEM 134
                              2458999999997......344444444 PP

  == domain 2  score: 25.4 bits;  conditional E-value: 2.1e-09
                              EEEE.T--SHHHHHHHHHHHHHHSS.....SSEEEEEEEESTT.CCSCHCTHHHHHHHHCCHSSE.EEEEESS CS
             Mur_ligase_C  16 vidD.yahnpdslsaalkalreiap.....dkrlilvfgpggelgertrtfhdefgrlasalads.lvvlgdy 81 
                              ++ D y++np s++  ++++ ++ +        + +v+g++ elg  ++++h e+++ +++l ++ + ++g y
  PHY93_08760|PHY93_08760 339 IFLDaYNANPSSMRVSINSFVNVMKskgisLDDCYFVLGDMNELGVFAEELHREIAEHLKSLGIKnVSFIGRY 411
                              56788***************99999999996799**************************9999877777766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (461 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       534  (0.0297841); expected 358.6 (0.02)
Passed bias filter:                      428  (0.0238719); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.53u 0.21s 00:00:00.74 Elapsed: 00:00:00.36
# Mc/sec: 3802.14
//
Query:       PHY93_08765|PHY93_08765  [L=473]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.3e-29  103.6   0.1    2.7e-29  102.6   0.1    1.5  1  Mur_ligase_M  Mur ligase middle domain
    5.2e-22   77.9   0.0    2.9e-19   69.1   0.0    3.0  3  Mur_ligase_C  Mur ligase family, glutamate ligase domain


Domain annotation for each model (and alignments):
>> Mur_ligase_M  Mur ligase middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  102.6   0.1     3e-33   2.7e-29       1     185 [.     115     313 ..     115     315 .. 0.87

  Alignments for each domain:
  == domain 1  score: 102.6 bits;  conditional E-value: 3e-33
                              EESSS-HHHHHHHHHHHHHCTEEEEETTC.................SS-THHHHHHHHHHHHHTT-SEEEEE--HCHHHCTTTCCH CS
             Mur_ligase_M   1 vTGtnGKTTtteliaailekagkvigtvg.................ttnneiglpktlaemekkeaeyavlEvsshglgekrlegl 69 
                              vTGtnGKTTt  l  +i + ag+ + ++g                 tt++ ++l k+++++++ ++e++ +Evssh+l+++rl + 
  PHY93_08765|PHY93_08765 115 VTGTNGKTTTVNLAMQIASLAGHPAISIGtigvqdvngsliediesTTPSYVELRKLIHRFQD-KYEVCFMEVSSHALAQDRLFD- 198
                              9********************76666666666*******************************.*********************. PP

                              CBESEEEE---TSTTHHHHSSHHHHHHHHHHHHHTSETTC.EEEEE.TTSC...CHHHHHCTCCTC.EEEEESSSTSECEEEEEEE CS
             Mur_ligase_M  70 lkpdvavitnispdHldfhgtlenyaeaKaelferlkeeg.iavin.addpyakelikklkkakvk.vvtfglekeaedlraknie 152
                              +  d a++t++s+dHld+h t+e+y++aK    +r  +e+  +++  ++++ ++++ k++ +++vk + t ++++  ++l+++ + 
  PHY93_08765|PHY93_08765 199 VLLDGAAWTSFSQDHLDYHRTMEEYFDAKLLVERRYLKENqSLLLPaLEKELYETILKRAPNTRVKlAKTLDERGLGKTLEERPLF 284
                              9*****************************9996655444355544378889**************88899999988888888777 PP

                              EETTEEEEEEEEETTEEEEEEESSCSCHHHHHH CS
             Mur_ligase_M 153 eksegteiellevkggeleieipllGkhnvyNa 185
                              ++s+ +++      +  l+++ +l+G+  ++N+
  PHY93_08765|PHY93_08765 285 YHSTYNQS----NAELALQLNANLFGENEIKNI 313
                              76655554....2455788999******99997 PP

>> Mur_ligase_C  Mur ligase family, glutamate ligase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.0       1.3   1.1e+04      36      57 ..     102     123 ..      99     142 .. 0.60
   2 !   69.1   0.0   3.3e-23   2.9e-19       2      90 ..     322     407 ..     321     408 .. 0.97
   3 !    5.3   0.0    0.0026        23      29      55 ..     427     453 ..     424     471 .. 0.65

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 1.3
                              HHSSSSEEEEEEEESTT.CCSC CS
             Mur_ligase_C  36 eiapdkrlilvfgpggelgert 57 
                              e++p+k+ + ++g  g  g+ t
  PHY93_08765|PHY93_08765 102 ELFPNKNTLKIVGVTGTNGKTT 123
                              5677777777777755533333 PP

  == domain 2  score: 69.1 bits;  conditional E-value: 3.3e-23
                              TTSSEEEEETTTEEEEEET--SHHHHHHHHHHHHHHSSSSEEEEEEEESTT.CCSCHCTHHHHHHHHCCHSSEEEEEESS-TTSTH CS
             Mur_ligase_C   2 kgRlevvgeadgvtvidDyahnpdslsaalkalreiapdkrlilvfgpggelgertrtfhdefgrlasaladslvvlgdypraeds 87 
                              +gR+ ++  ++  + i+Dyah+pd+l +  +a+++ +++  l +vfg+gg    r++t+++++g++ s++ad+++v++d+pr e++
  PHY93_08765|PHY93_08765 322 PGRFSIIELGNENMAIIDYAHTPDALINIGAAIKNAFSTHSLTVVFGCGGN---RDKTKRPMMGKAVSEFADKIIVTSDNPRDESP 404
                              8***********************************************999...******************************99 PP

                              HHH CS
             Mur_ligase_C  88 iaa 90 
                              +++
  PHY93_08765|PHY93_08765 405 EDI 407
                              876 PP

  == domain 3  score: 5.3 bits;  conditional E-value: 0.0026
                              HHHHHHHHHSSSSEEEEEEEESTT.CC CS
             Mur_ligase_C  29 aalkalreiapdkrlilvfgpggelge 55 
                              +a++a+ e+  +k+++l++g g e ++
  PHY93_08765|PHY93_08765 427 KAIHAALESLGKKEIVLIAGKGHEEYQ 453
                              455555555599********8655443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (473 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       542  (0.0302304); expected 358.6 (0.02)
Passed bias filter:                      429  (0.0239277); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.23s 00:00:00.81 Elapsed: 00:00:00.43
# Mc/sec: 3301.99
//
Query:       PHY93_08770|PHY93_08770  [L=656]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.1e-62  211.1   0.2    3.1e-62  210.5   0.2    1.3  1  Transpeptidase  Penicillin binding protein transpeptidase dom
    4.4e-22   79.3   1.2    2.3e-20   73.7   0.1    3.1  2  PBP_dimer       Penicillin-binding Protein dimerisation domai
    4.6e-05   23.2   0.0    0.00021   21.1   0.0    2.3  1  PASTA           PASTA domain


Domain annotation for each model (and alignments):
>> Transpeptidase  Penicillin binding protein transpeptidase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  210.5   0.2   5.2e-66   3.1e-62       1     305 [.     240     550 ..     240     551 .. 0.92

  Alignments for each domain:
  == domain 1  score: 210.5 bits;  conditional E-value: 5.2e-66
                              EEEEEEETTT-BEEEEEEESE-TTTHHCC.TCGCCSTHHHH--BB-GGGGHHHHHHHHHHTTSSTTSEEEEETCCEETTSS..ECT CS
           Transpeptidase   1 gaavvldaktgevlamaskpsydpnakvg.kneplanravqsqyePGStfKvvtaaaaleagvikpdetlddsggkiqggqs.ikd 84 
                              g + v+da+tge+la+a+ p +dpn  ++ + e  ++  +++ +ePGS+fK +t+a a+e++v k d+++ +++g+ + +   i++
  PHY93_08770|PHY93_08770 240 GGVGVIDASTGEILAIANYPAFDPNDVKSsSPEHRKLSFATDPFEPGSAFKLFTVASAFEHKVAKIDSNYYCEQGHLKVDGHvINE 325
                              57889***********************999999999***************************************9999888999 PP

                              CCCC-SSSSEEEHHHHHHTT-HHHHHHHHHHH-HHHHHHHHHHTTTTS-SSSSSTT-B--B--SSH....HHHHHHHHTTTSBB-H CS
           Transpeptidase  85 weqdnkgsegitlrealekSsntyfvklaqklgadklrkylkkfglGnktgidlpgesaGvptrkw....legatisfgiGltvtp 166
                               e+++ ++e +++ ++++ Ssn+++ k+a +l   k++++lk +++G+ktg++ pges G+ t++     l+ + +sfg+G++vt 
  PHY93_08770|PHY93_08770 326 AESHE-RYEWLSVADIIKFSSNIGTTKIAFDLTFPKFKETLKTLNFGEKTGVEVPGESRGIFTEAEnvtpLSLSNMSFGQGIAVTG 410
                              99995.88899*************************************************8888777899666669********** PP

                              HHHHHHHHHHHTTTEEE--BSEEEEEECTT..EEEESS-.EEEEE-S-HHHHHHHHHHHHHHHHCTTTTGCGTCTTS--EEEEEEE CS
           Transpeptidase 167 lqlaqayaaiangGklvkPhlvkaivdpdg..vrkvkpk.elnklpisketaekvkeglkgvvsrgsgtataavegykvagKTGTA 249
                              +q++ ayaaiangG++++P l+k+ +++ +  +++ +++ +++ ++++++t+e+++++l g v++g+gta++ ++ +k+agKT TA
  PHY93_08770|PHY93_08770 411 VQMLAAYAAIANGGEYNRPTLIKKDQSQVAelEPENDHQlKKKMRVFTSKTSEDLTTALVGAVEKGTGTAAQ-IPHFKIAGKTATA 495
                              ************************9999999955555541566689********************999988.************* PP

                              EECSSSTTSEEEEEEEEEEEEEESTTS-SEEEEEEECTCS..SSSSCCHHHHHHHHHH CS
           Transpeptidase 250 evagkkgngkkegakiswfvgyapadnpkyavavlieqpk..eaaggkaaapiakkil 305
                              + ++ +g+   +  +i+ f+g+    +++++++v +++p    ++gg++aap++k++ 
  PHY93_08770|PHY93_08770 496 QRVDRNGGY--H-GYIAGFIGFPVNVDRRFVIYVYVDNPRtgGYYGGAVAAPVFKNLA 550
                              ***966554..4.369***************************************985 PP

>> PBP_dimer  Penicillin-binding Protein dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.7   0.1   3.8e-24   2.3e-20       3     177 ..      53     198 ..      51     200 .. 0.91
   2 ?   -0.4   0.1      0.21   1.2e+03      42      83 ..     546     584 ..     536     608 .. 0.62

  Alignments for each domain:
  == domain 1  score: 73.7 bits;  conditional E-value: 3.8e-24
                              EE----EE-TTS-EEEEEEEEEEEEEEESSS-HHHHHHHHHHHHHHC.HHHTTS-HHHHHHHHCCCCTSSTTSCECCCCCEECHHH CS
                PBP_dimer   3 papRGeIyDrngrlLAtnrpsytltitpsklkkkkalekikklakll.eseenldderleelalkknsykaykpvviaediseeev 87 
                               ++RG+IyDr+g +LA n+++y++  +p++++ +k+   +kkl+k++ e    ++   ++e +   n+ k+++++  + ++s+++v
  PHY93_08770|PHY93_08770  53 YPKRGNIYDREGSALALNVQTYSIFTIPKSTNGDKSV--YKKLSKIIpE----IS---YRETMSTINKRKRFTWIGRKLHLSKDQV 129
                              699******************************9998..9*******44....44...444455688899**************** PP

                              CCCHHHHHCSTT-EEEEEEEEEETTTSTTHHHH-EEEEC-HHHHHCCCCHTCCTTCEEEESHHHHHTHHHHHECCCEEEEEEECTS CS
                PBP_dimer  88 arikenakdlpGinievepkRyYpkgelaahvlGyvgkiteeelekykekgyssgdliGksGlEkqyEeeLrGkkGkrqvkvdarG 173
                              +++ke    l+Gi ie  p+R Yp++el+a++lG vg                   + G +GlE+ y++eLrG   + +++ d++G
  PHY93_08770|PHY93_08770 130 EQVKE----LKGIFIEGVPERTYPNHELLAQTLGFVGLD-----------------NSGLAGLEHLYDKELRGNPVTLKYTIDNKG 194
                              **996....56*************************987.................78**************************** PP

                              SCCE CS
                PBP_dimer 174 rile 177
                              r+++
  PHY93_08770|PHY93_08770 195 RPIK 198
                              *886 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 0.21
                              HHHHHHHC.HHHTTS-H.HHHHHHHCCCCTSSTTSCECCCCCEE CS
                PBP_dimer  42 ikklakll.eseenldd.erleelalkknsykaykpvviaedis 83 
                              +k+la+++  +++++++ ++ ee     n +k++   +i+++i+
  PHY93_08770|PHY93_08770 546 FKNLAQYIlYKNKDISKlADTEE-----NANKNFDLKKIKNNID 584
                              56777777666666665444444.....4444455555555443 PP

>> PASTA  PASTA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.1   0.0   3.5e-08   0.00021       3      62 ..     601     653 ..     599     654 .. 0.95

  Alignments for each domain:
  == domain 1  score: 21.1 bits;  conditional E-value: 3.5e-08
                              --TTTTSBHHHHHHHHHHTT--CCCEEEECTCCGTTBEEEECS-TTSEECTTS-EEEEEE CS
                    PASTA   3 vPdvtGmsvdeAkatLkalGlkiktveetsddvpeGtVisQsPeaGtevskgskvtltvs 62 
                              vP+++G+++ +  + +++l+l           ++ G V sQsP++Gt ++++  ++l +s
  PHY93_08770|PHY93_08770 601 VPNLVGLDKISTTNVATKLNL-------HLIHKGMGVVSSQSPAPGTPLNADLIIKLEYS 653
                              9********************.......*********************99989988877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (656 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       803  (0.0447878); expected 358.6 (0.02)
Passed bias filter:                      610  (0.0340231); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.66u 0.26s 00:00:00.92 Elapsed: 00:00:00.42
# Mc/sec: 4744.57
//
Query:       PHY93_08775|PHY93_08775  [L=103]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (103 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       955  (0.0532657); expected 358.6 (0.02)
Passed bias filter:                      525  (0.0292822); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.18s 00:00:00.59 Elapsed: 00:00:00.35
# Mc/sec: 885.22
//
Query:       PHY93_08780|PHY93_08780  [L=323]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-97  327.1   0.0    1.5e-97  326.8   0.0    1.1  1  Methyltransf_5   MraW methylase family
  ------ inclusion threshold ------
      0.041   13.2   0.0       0.58    9.5   0.0    2.1  2  Ubie_methyltran  ubiE/COQ5 methyltransferase family
      0.089   12.3   0.0       0.53    9.8   0.0    1.9  2  MTS              Methyltransferase small domain
       0.17   12.6   0.0       0.41   11.4   0.0    1.7  1  Methyltransf_25  Methyltransferase domain


Domain annotation for each model (and alignments):
>> Methyltransf_5  MraW methylase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  326.8   0.0  3.5e-101   1.5e-97       3     309 .]       5     311 ..       3     311 .. 0.94

  Alignments for each domain:
  == domain 1  score: 326.8 bits;  conditional E-value: 3.5e-101
                              XX--TTTHHHHHHT--....-TT-EEEES--TTSHHHHHHHTT--TTEEEEEES-HHHHHHHTT.....-..--EEEEES-GGGHH CS
           Methyltransf_5   3 eHvpVLlqevvellep....kedgvyiDaTlGaggHsealLeqlselrligidrDksalarakerLkefe..krltlvkgnfkelk 82 
                              +H++VL +e++++l++    +e  ++ D T+G+ggHs +lL + +  ++ ++d+D++al++ ++r++e +   r++l+++nf ++ 
  PHY93_08780|PHY93_08780   5 RHYSVLKKECIDNLTEnataNEVSYFADLTFGGGGHSFELLYKNPLFQVRSTDQDPDALKNGEARIAEENmsSRIKLFNTNFVRFP 90 
                              7**************97776777899**************************************9987553278************ PP

                              HHHHHTT.....TT-EEEEEEE-S--HHHHH-GGG---SSS--BS---S-TTSS-..-HHHHHHH--HHHHHHHHHHHH--TTHHH CS
           Methyltransf_5  83 ealaean.....vtkvdgillDLGvSslqldkaerGFsfaedapLDmRmdqsael..tAaevlnrlseeeLakilkeygeekfakr 161
                               + +e+      ++ ++gillDLGvSs ++d+a rGFsf+ ++pLDmRm+ +++   tA+e++n++s+ +L ki+ eygeekf+k+
  PHY93_08780|PHY93_08780  91 GIAKEECpevfeAGGFQGILLDLGVSSHHFDEAGRGFSFRFEGPLDMRMNYQSDAflTAEEIVNTYSQDQLIKIFTEYGEEKFSKK 176
                              999988666655669**********************************98876556***************************** PP

                              HHHHHHHHHHHS---BHHHHHHHHHHHS-------..-TTHHHHHHHHHHHHTHHHHHHHHHHHHHHHEEEEEEEEEEESSHHHHH CS
           Methyltransf_5 162 iakaivekrkkkpiettkelaevikkvvpakekrkkihpatrvFQAlRIavNdEleeleelleaalellakggrlavisFhSledr 247
                              ia +i+e+rk kpi+ttkel ++i + +p+  +  k++p trvFQAlR++vN+Ele l +++++ + ll+ ggrla+isFhSledr
  PHY93_08780|PHY93_08780 177 IAVKICEERKIKPISTTKELENIIFHCYPKEMRFGKTNPSTRVFQALRLEVNRELEVLTDTITHLIPLLKIGGRLAIISFHSLEDR 262
                              ************************************************************************************** PP

                              HHHHHHHHTT-------------------EEEEE.E.E---HHHHHH-GGGTT-EEEEEEE- CS
           Methyltransf_5 248 ivkkvfkeaskkeevPaglpvaseelkaklklitkkpilpseeeikeNprsrsakLrvieki 309
                              ivk++fkeas++ e P             ++++tkkpi+p+eeei +N rsrsakLrv+e+i
  PHY93_08780|PHY93_08780 263 IVKNLFKEASQSVEFP-------------VEILTKKPIVPGEEEIFDNSRSRSAKLRVLERI 311
                              ***********65444.............577***************************985 PP

>> Ubie_methyltran  ubiE/COQ5 methyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.0   0.00013      0.58      44     110 ..      23      89 ..       1      97 [. 0.76
   2 ?    1.5   0.0     0.034   1.5e+02     139     169 ..     241     271 ..     229     279 .. 0.79

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00013
                              -S--TTEEEEES-TT-HHHHHHHHHHHHHHEEEEEES-HHHHHHHHHHHHHHTSS.TEEEEE--TTT- CS
          Ubie_methyltran  44 avkrgakvlDvagGtgDlafklsdsvgekgkvvvlDinenmLkvgekklkeegki.nieflqanaeeL 110
                              +  + + + D++ G g  +f+l+ + +  ++v   D +++ Lk ge+++ ee ++ +i++ ++n  ++
  PHY93_08780|PHY93_08780  23 TANEVSYFADLTFGGGGHSFELLYK-NPLFQVRSTDQDPDALKNGEARIAEENMSsRIKLFNTNFVRF 89 
                              333444789*************976.789********************9999877999988886655 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.034
                              HHHHEEEEEEEEEEEE----SHHHHHHHHHH CS
          Ubie_methyltran 139 ayrvlkpGGrlvvlefskvelpllsqayely 169
                              +   lk GGrl ++ f   e  ++++ ++  
  PHY93_08780|PHY93_08780 241 LIPLLKIGGRLAIISFHSLEDRIVKNLFKEA 271
                              56689***********999988888877665 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.0   0.00012      0.53      31      88 ..      26      85 ..      13      90 .. 0.81
   2 ?   -0.5   0.0      0.17   7.6e+02     118     156 ..     234     271 ..     223     276 .. 0.69

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00012
                             TCSEEEEET-TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHTTGC..EEEEE-S CS
                      MTS 31 lsgkvlDlGcGaGvlgaalakespeaevtlvdvdarAlesakenleankle..vevvasd 88
                             +    +Dl  G G  + +l+ ++p  +v  +d+d  Al+  ++ +++++++  +++++++
  PHY93_08780|PHY93_08780 26 EVSYFADLTFGGGGHSFELLYKNPLFQVRSTDQDPDALKNGEARIAEENMSsrIKLFNTN 85
                             334489************************************999999988566666655 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.17
                              HHHHHHHHHHHEEEEEEEEEEEETTSCHHHHHHHHHS-- CS
                      MTS 118 aeeliaeAkeaLkegGeLliVanrklgyeslleelfgnv 156
                               ++ i++    Lk gG+L i+  + l+ ++++++lf++ 
  PHY93_08780|PHY93_08780 234 LTDTITHLIPLLKIGGRLAIISFHSLE-DRIVKNLFKEA 271
                              555566666679999999999887776.45567777665 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   9.1e-05      0.41       3      59 ..      32      90 ..      30     126 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 9.1e-05
                             EET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTT..TEEEEESBCCGBS CS
          Methyltransf_25  3 dlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeegl..nvefvqgdaedlp 59
                             dl  G G ++++l+ + +  +v  +D ++++l++ ++r++ee++  ++++ + ++ ++p
  PHY93_08780|PHY93_08780 32 DLTFGGGGHSFELLYKNPLFQVRSTDQDPDALKNGEARIAEENMssRIKLFNTNFVRFP 90
                             8899********9999779**********************999999999888887666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (323 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       566  (0.031569); expected 358.6 (0.02)
Passed bias filter:                      413  (0.0230353); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.48u 0.25s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 2390.24
//
Query:       PHY93_08785|PHY93_08785  [L=279]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    5.9e-42  143.5   0.0    6.8e-42  143.3   0.0    1.0  1  PNP_UDP_1  Phosphorylase superfamily
  ------ inclusion threshold ------
       0.12   12.7   0.2        1.5    9.1   0.0    2.3  2  Clr5       Clr5 domain


Domain annotation for each model (and alignments):
>> PNP_UDP_1  Phosphorylase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  143.3   0.0   7.5e-46   6.8e-42       1     233 [.       5     243 ..       5     244 .. 0.96

  Alignments for each domain:
  == domain 1  score: 143.3 bits;  conditional E-value: 7.5e-46
                              CEEEEESSH....HHHHHHHHHEEEEEEEEEE.TTEEEEEEEE.TTEEEEEEE--....SSHHHHHHHHHHHHHHHC--SEEEEEE CS
                PNP_UDP_1   1 kiaiivgsp....gevellaespleetpfgregrgfkfvtGtl.kgkpvvivstG....iGkpnaavvaeirllkefgvkaiiriG 77 
                              kiaii+gs+    +++e ++e+ l +tpfg++  + +++  +l +    ++ ++G      ++ ++++a+i +lke+gv+ ii+++
  PHY93_08785|PHY93_08785   5 KIAIIGGSGvykiEGIEVVKEH-LVSTPFGNP--SSEIIEARLsGVSFYFLPRHGkrhsFTPSDVNYRANIFALKELGVEYIISVS 87 
                              69********************.*********..*********4445569*******988888888******************** PP

                              EEEESSTTT-TT-EEEEEEEEE.SSSCCGCCTHHCCTCCCCTTSSEE--HHHHHHHHHCHHTTTTTEEE.EEEEEESESS-CHHHH CS
                PNP_UDP_1  78 taGglnpdlkvGDvvipddain.fdgrsplygpkeegqyfpdsydapadpelrallkeaaealgikvhr.Gvvatadgfyaeteae 161
                              ++G+l++++++  +vi d++i+ + g +  +++++++++++ ++++   ++l +++++++++ g+k+   G +++ +g++++t+ae
  PHY93_08785|PHY93_08785  88 AVGSLKEEFPPTSFVIVDQFIDwTKGKRERTFFNNGFVGHVSVAEP-IEKKLQEMIVAVCAEVGVKHGSgGSYLCIEGPQFSTKAE 172
                              **********************888888899999999*********.********************999**************** PP

                              HHHHHHTC-CEEESSHHHHHHHHHHTT--EEEEEEEEETTTBETTCTCH.HCCCHHHHHHHHHHHHHHHHHH CS
                PNP_UDP_1 162 lrllrrlgadaveMEtaavaqlArelgipfaairvvsdlaaggadaeatheeveefaqeaaknaaalllall 233
                              ++++r++ga++++M+ +++a+lA+e+g+ +a+i++v+d ++ + +++ t ee++++++ + ++++a+l++l+
  PHY93_08785|PHY93_08785 173 SNIYRSFGASVIGMTNVPEAYLAKEAGMAYATIAMVTD-YDCWKEEHCTLEEIMKVMATNNQQVHAVLKKLI 243
                              **************************************.999***************************998 PP

>> Clr5  Clr5 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.0     0.064   5.7e+02      32      45 ..      57      70 ..      54      72 .. 0.86
   2 ?    9.1   0.0   0.00016       1.5      15      34 ..     213     232 ..     209     255 .. 0.82

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.064
                     Clr5 32 eehgFkatkrqykt 45
                             ++h+F+++   y++
  PHY93_08785|PHY93_08785 57 KRHSFTPSDVNYRA 70
                             69******999986 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.00016
                     Clr5  15 LYleenrsLkdvmeiMeeeh 34 
                               + ee+ +L+++m++M ++ 
  PHY93_08785|PHY93_08785 213 CWKEEHCTLEEIMKVMATNN 232
                              567999**********8854 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (279 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       704  (0.039266); expected 358.6 (0.02)
Passed bias filter:                      498  (0.0277762); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.19s 00:00:00.65 Elapsed: 00:00:00.35
# Mc/sec: 2392.05
//
Query:       PHY93_08790|PHY93_08790  [L=394]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.013   15.4   0.1      0.093   12.7   0.0    2.1  2  HNH_4     HNH endonuclease
      0.064   13.1   0.0       0.16   11.8   0.0    1.7  1  BTG       BTG family


Domain annotation for each model (and alignments):
>> HNH_4  HNH endonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0     1e-05     0.093      10      47 ..     163     198 ..     160     200 .. 0.93
   2 ?   -0.5   0.0      0.13   1.2e+03      31      41 ..     247     257 ..     240     261 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 1e-05
                              GGGGGG...SEEEESSTTTT---BSGGGEEEES-GGGG CS
                    HNH_4  10 iedlsdtkeydiDHilPrsrskdDsvsNkVLvlrdaNq 47 
                              +e+l+d  ey+i Hi P   +k  s  N +L  ++ Nq
  PHY93_08790|PHY93_08790 163 AENLLD--EYNIKHIAPTVDGKKGSRENSILLKKQINQ 198
                              578885..9****************************8 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.13
                              --BSGGGEEEE CS
                    HNH_4  31 kdDsvsNkVLv 41 
                                D v+Nk+L 
  PHY93_08790|PHY93_08790 247 GSDHVNNKILK 257
                              4699*****95 PP

>> BTG  BTG family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   1.8e-05      0.16      20      49 ..     271     300 ..     251     308 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 1.8e-05
                              .TB-HHHHHHHHHHHHHHHHHHHHTT--TT CS
                      BTG  20 kklerekveaFaeeLeelLeerykehWype 49 
                              k +  +k++ Fa+eL+++L++ y+++W+++
  PHY93_08790|PHY93_08790 271 KIILGKKIDFFAKELQKSLSHSYRTSWFKK 300
                              3444679********************975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (394 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       714  (0.0398237); expected 358.6 (0.02)
Passed bias filter:                      433  (0.0241508); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.40
# Mc/sec: 2928.64
//
Query:       PHY93_21300|PHY93_21300  [L=370]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.8e-14   53.2   0.0      5e-14   52.4   0.0    1.4  1  Methyltransf_31  Methyltransferase domain
    5.9e-12   46.1   0.0      1e-11   45.3   0.0    1.4  1  Methyltransf_25  Methyltransferase domain
      3e-10   40.6   0.0    5.3e-10   39.8   0.0    1.4  1  Methyltransf_11  Methyltransferase domain
    3.5e-08   33.4   0.0    6.3e-08   32.6   0.0    1.4  1  Methyltransf_23  Methyltransferase domain
    2.5e-06   28.1   0.0    4.3e-06   27.4   0.0    1.4  1  Methyltransf_12  Methyltransferase domain
    8.5e-05   22.2   0.0     0.0042   16.6   0.0    2.5  2  MTS              Methyltransferase small domain
    0.00087   19.1   0.0     0.0013   18.6   0.0    1.2  1  PCMT             Protein-L-isoaspartate(D-aspartate) O-methyl
     0.0019   18.2   0.0      0.003   17.6   0.0    1.2  1  Methyltransf_32  Methyltransferase domain
     0.0034   16.3   0.0     0.0096   14.9   0.0    1.6  2  Methyltransf_9   Protein of unknown function (DUF1698)
  ------ inclusion threshold ------
      0.022   14.4   0.0      0.035   13.8   0.0    1.4  1  TPMT             Thiopurine S-methyltransferase (TPMT)
      0.036   15.1   0.0       0.41   11.7   0.0    2.3  2  Methyltransf_24  Methyltransferase domain
       0.23   10.8   0.0       0.65    9.3   0.0    1.7  1  Ubie_methyltran  ubiE/COQ5 methyltransferase family


Domain annotation for each model (and alignments):
>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.4   0.0   3.3e-17     5e-14       3     113 ..     190     308 ..     189     350 .. 0.77

  Alignments for each domain:
  == domain 1  score: 52.4 bits;  conditional E-value: 3.3e-17
          Methyltransf_31   3 kglrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielArenaqklgldnveFeq....gdieelekl.ledekfDlilsnev 83 
                              k+ rvlD GCG+ +++ ++ae++   ++v+GiD+s e +e A++n  +   +n+e+      +++ el  + +e+ +fDli  +++
  PHY93_21300|PHY93_21300 190 KNFRVLDFGCGNAYYAAKFAERA---GHVIGIDNSSELLEIAKTN--HGDKKNLELILtrsfEEVLELM-AsWEPGPFDLIYLQDT 269
                              6789****************885...68****************7..4444477777752334555533.46999*********** PP

          Methyltransf_31  84 l..naladpdkile.......eiervlkpggilliedpr 113
                              l   +++++dk  e       +  r+l+pgg l++ +p+
  PHY93_21300|PHY93_21300 270 LllLLQPEMDKPSEllpalfaGFRRLLRPGGSLCAMEPN 308
                              999555555555555556666*************99998 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.3   0.0     7e-15     1e-11       1      97 []     194     300 ..     194     300 .. 0.76

  Alignments for each domain:
  == domain 1  score: 45.3 bits;  conditional E-value: 7e-15
                              EEEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTTTEEE.EESBCCG.BS....SSTTTEEEEEEEST.GGGSSH CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeeglnvef.vqgdaed.lp....fedgsfDlvvssga.lhhlsd 79 
                              vLd+GcG+  +++++a+r   ++v+g+D s+e+le+a++++ +++ n+e+ ++ ++e+ l+     e g fDl++++ + l +l+ 
  PHY93_21300|PHY93_21300 194 VLDFGCGNAYYAAKFAERA--GHVIGIDNSSELLEIAKTNHGDKK-NLELiLTRSFEEvLElmasWEPGPFDLIYLQDTlLLLLQ- 275
                              9*****************7..9*******************8765.7777344555553332223599********988555454. PP

                              HHH.......HHHHHHHHHHEEEEE CS
          Methyltransf_25  80 edl.......ekalkeiarvLkpgG 97 
                              +++       +++++ ++r+L+pgG
  PHY93_21300|PHY93_21300 276 PEMdkpsellPALFAGFRRLLRPGG 300
                              333122223367************9 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.8   0.0   3.6e-13   5.3e-10       1      95 [.     195     303 ..     195     304 .. 0.85

  Alignments for each domain:
  == domain 1  score: 39.8 bits;  conditional E-value: 3.6e-13
                              EEET-TTSHHHHHHHHTTSEEEEEES-HHHHHHHHHHCCHHT-....EEEETTEECCCT.SS-TT-EEEEEEES-CCC-....... CS
          Methyltransf_11   1 LdvGcGtGrlaealakrgarvvgvDlskemlklakekaseegl....kvefvvadaekl.pfednsfDlvvssevlhhv....... 74 
                              Ld+GcG+ ++a+++a+r+++v+g+D s e+l++ak++  ++++      +  ++ +e +   e + fDl++++ +l  +       
  PHY93_21300|PHY93_21300 195 LDFGCGNAYYAAKFAERAGHVIGIDNSSELLEIAKTNHGDKKNleliLTRSFEEVLELMaSWEPGPFDLIYLQDTLLLLlqpemdk 280
                              8****************************************9876653333555555555799***********999999876655 PP

                              ..CCHHHHHHHHHHHEEEEEEEE CS
          Methyltransf_11  75 ..edpekalkeiaRvLkpgGllv 95 
                                e + ++++ ++R+L+pgG l+
  PHY93_21300|PHY93_21300 281 psELLPALFAGFRRLLRPGGSLC 303
                              555889999***********986 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.6   0.0   4.2e-11   6.3e-08      20     124 ..     188     311 ..     145     345 .. 0.78

  Alignments for each domain:
  == domain 1  score: 32.6 bits;  conditional E-value: 4.2e-11
          Methyltransf_23  20 lraggrvLdiGcGtGillevlrengfsvtgvDlspeaveiae..........kakkaqkdqfdeqeaae.............pqgk 82 
                              + ++ rvLd+GcG  + +  ++e+  +v+g+D s+e+ eia+           +                            + g 
  PHY93_21300|PHY93_21300 188 RIKNFRVLDFGCGNAYYAAKFAERAGHVIGIDNSSELLEIAKtnhgdkknleLIL-------------TrsfeevlelmaswEPGP 260
                              34455*******************99**************854444443333222.............12222233333444778* PP

          Methyltransf_23  83 fdlIvlrevlehvpdpp.........ellrqiatllkpgGylllseplasl 124
                              fdlI+l ++l  +  p+         +l++ +++ll+pgG l  +ep+ s 
  PHY93_21300|PHY93_21300 261 FDLIYLQDTLLLLLQPEmdkpsellpALFAGFRRLLRPGGSLCAMEPNPSF 311
                              **************999999999999*********************9875 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.4   0.0   2.9e-09   4.3e-06       1      99 []     195     302 ..     195     302 .. 0.81

  Alignments for each domain:
  == domain 1  score: 27.4 bits;  conditional E-value: 2.9e-09
          Methyltransf_12   1 LeiGcGtGsllralleklpdieytgvDispsaiedakeklakrennnnnnvelealdlldldgg.......ssfDlvvasnvlhhl 79 
                              L++GcG++ +++ ++e+    +++g+D s++ +e ak+ + +++n+     + +++ l     +       + fDl+++ ++l  l
  PHY93_21300|PHY93_21300 195 LDFGCGNAYYAAKFAER--AGHVIGIDNSSELLEIAKTNHGDKKNLELILTRSFEEVL-----ElmaswepGPFDLIYLQDTLLLL 273
                              8****************..**************9999888888876654444433332.....22333566*********999999 PP

          Methyltransf_12  80 .........kdirevldnirklLkpgGrl 99 
                                       + + ++++ +r+lL+pgG l
  PHY93_21300|PHY93_21300 274 lqpemdkpsELLPALFAGFRRLLRPGGSL 302
                              9****888666778889**********76 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.0     0.044        66     124     152 ..       8      36 ..       1      51 [. 0.61
   2 !   16.6   0.0   2.8e-06    0.0042      31      79 ..     190     236 ..     179     306 .. 0.78

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.044
                              HHHHHEEEEEEEEEEEETTSCHHHHHHHH CS
                      MTS 124 eAkeaLkegGeLliVanrklgyeslleel 152
                              +    L++ G+ +iV n  l+ +  l++ 
  PHY93_21300|PHY93_21300   8 NPDVLLRNIGQSWIVSNPRLRTHVELDAE 36 
                              55556666677777777766666655543 PP

  == domain 2  score: 16.6 bits;  conditional E-value: 2.8e-06
                              TCSEEEEET-TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHTT CS
                      MTS  31 lsgkvlDlGcGaGvlgaalakespeaevtlvdvdarAlesakenleank 79 
                              ++ +vlD+GcG+ + +a++a++  +  v  +d++ + le+ak+n  ++k
  PHY93_21300|PHY93_21300 190 KNFRVLDFGCGNAYYAAKFAERAGH--VIGIDNSSELLEIAKTNHGDKK 236
                              5567*****************9999..99**************986654 PP

>> PCMT  Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.0   8.4e-07    0.0013      74     121 ..     191     235 ..     182     266 .. 0.84

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 8.4e-07
                              T-EEEEES-TTSHHHHHHHHHHCTTCEEEEEESBHHHHHHHHHHHHHC CS
                     PCMT  74 garvLevGsGsGyltavlarlvgekgrvvsierikelveeakrnlkkl 121
                                rvL+ G+G  y +a +a+   + g+v++i+ + el e ak n   +
  PHY93_21300|PHY93_21300 191 NFRVLDFGCGNAYYAAKFAE---RAGHVIGIDNSSELLEIAKTNHGDK 235
                              579************99986...778899************9986544 PP

>> Methyltransf_32  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.0     2e-06     0.003      22      69 ..     187     230 ..     174     245 .. 0.84

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 2e-06
          Methyltransf_32  22 kesgaltvvDvGaGkgYLsfvlalkekeyklkvvgidakeelvekaek 69 
                              ++ ++++v+D+G+G++Y +   a        +v+gid ++el e a++
  PHY93_21300|PHY93_21300 187 DRIKNFRVLDFGCGNAYYAAKFAE----RAGHVIGIDNSSELLEIAKT 230
                              5667899*************9999....499**********9987765 PP

>> Methyltransf_9  Protein of unknown function (DUF1698)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.0   6.4e-06    0.0096     114     151 ..     189     225 ..     185     254 .. 0.84
   2 ?   -1.5   0.0      0.63   9.4e+02      69      89 ..     243     263 ..     227     267 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 6.4e-06
                              -TT-EEEEET-TTSHHHHHHHHCT-SEEEEE---HHHH CS
           Methyltransf_9 114 lkgrtildvGcgnGyhlwrmvgegaklvvGidPselfl 151
                              +k+ ++ld Gcgn y+  +  +e a  v+Gid s+  l
  PHY93_21300|PHY93_21300 189 IKNFRVLDFGCGNAYYAAKF-AERAGHVIGIDNSSELL 225
                              68889***********9885.78999******987655 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.63
                              HHHHHHHHHTT----CE-EEE CS
           Methyltransf_9  69 kkklekllralmPWrkGPfsl 89 
                              ++++e++l  +  W  GPf+l
  PHY93_21300|PHY93_21300 243 TRSFEEVLELMASWEPGPFDL 263
                              567889999999*******87 PP

>> TPMT  Thiopurine S-methyltransferase (TPMT)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   2.3e-05     0.035      26      84 ..     180     237 ..     170     306 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 2.3e-05
                              HHHHHHT.T-S--EEEEEET-TT-HHHHHH-BTTEEEEEE-S-HHHHHHHHHHHTTSGG CS
                     TPMT  26 lkkfldalkakaglrvlvPlCGkaldlvwlAeqgrevvGvelselAvekffeeanlepk 84 
                              +  ++++    ++ rvl  +CG+a+ ++ +Ae+  +v+G++ s   +e + ++++ + +
  PHY93_21300|PHY93_21300 180 FDSYFNK-DRIKNFRVLDFGCGNAYYAAKFAERAGHVIGIDNSSELLEIAKTNHGDKKN 237
                              5566666.45566699999***********************99988887776666554 PP

>> Methyltransf_24  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00028      0.41       8      75 ..     200     266 ..     195     269 .. 0.75
   2 ?    0.4   0.0      0.88   1.3e+03      21      81 ..     299     362 ..     284     367 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00028
          Methyltransf_24   8 Gvstlwllralrrngagrlvavdhdpgaeeaaalare.aglddrvrlikads....eealaslaagsiDllfi 75 
                              G+ + + ++ ++r+g  +++ +d+     e  ++a++ +g +++++li  +s     e++as++ g++Dl+++
  PHY93_21300|PHY93_21300 200 GN-AYYAAKFAERAG--HVIGIDNSS---ELLEIAKTnHGDKKNLELILTRSfeevLELMASWEPGPFDLIYL 266
                              54.445566666666..7********...999****9888899999999998433333444777******985 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.88
          Methyltransf_24  21 ngagrlvavdhdpgaeeaaalareaglddrvrlikadseealasla.....agsiDllfiDgghaa 81 
                                 g+l a++++p  + a ++ ++a+  ++v+  +   ++++++l+     +g+  l++ D +h a
  PHY93_21300|PHY93_21300 299 G--GSLCAMEPNPSFWLANRYGDSAKPYAIVTEYRNSVFNVAPTLDrllpvMGKAGLALKDLQHPA 362
                              3..468888888863335555666777778888888888888887777788888888888888865 PP

>> Ubie_methyltran  ubiE/COQ5 methyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.3   0.0   0.00043      0.65      49     103 ..     192     241 ..     179     310 .. 0.71

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.00043
                              TEEEEES-TT-HHHHHHHHHHHHHHEEEEEES-HHHHHHHHHHHHHHTSSTEEEE CS
          Ubie_methyltran  49 akvlDvagGtgDlafklsdsvgekgkvvvlDinenmLkvgekklkeegkiniefl 103
                               +vlD  +G + +a+k+++     g+v+++D ++++L++++    ++     e++
  PHY93_21300|PHY93_21300 192 FRVLDFGCGNAYYAAKFAER---AGHVIGIDNSSELLEIAKTNHGDKKNL--ELI 241
                              479**********9999765...578*************98766555444..433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (370 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       313  (0.0174578); expected 358.6 (0.02)
Passed bias filter:                      304  (0.0169558); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.37
# Mc/sec: 3000.21
//
Query:       PHY93_08795|PHY93_08795  [L=194]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    9.3e-08   31.7   0.0      3e-07   30.1   0.0    1.8  1  Arf        ADP-ribosylation factor family
    0.00022   20.7   0.0    0.00024   20.5   0.0    1.1  1  Gtr1_RagA  Gtr1/RagA G protein conserved region
      0.002   17.8   0.0     0.0026   17.4   0.0    1.3  1  Ras        Ras family
  ------ inclusion threshold ------
      0.016   15.4   0.0      0.025   14.8   0.0    1.4  1  Roc        Ras of Complex, Roc, domain of DAPkinase


Domain annotation for each model (and alignments):
>> Arf  ADP-ribosylation factor family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.1   0.0   6.7e-11     3e-07      56     171 ..      70     183 ..       2     187 .. 0.73

  Alignments for each domain:
  == domain 1  score: 30.1 bits;  conditional E-value: 6.7e-11
                              TTEEEEEEEE-SSGGGGGGGGGGCTTESEEEEEEETT-CTTHHHHHHHHHHH....CTS.GCCTTSEEEEEEE-TTSTTSS-HHHH CS
                      Arf  56 knlkftvwDvGGqeklRplWknYfektdavifvvDsadreRleeakeeLkal....lee.eelkevallvlaNKqDlpealseeel 136
                               + +f+++ v Gq       k  ++ +d++ifv Ds+  eR+++  e Lk+l    +e+  ++ +++l++  NK Dlp+a   ++l
  PHY93_08795|PHY93_08795  70 FKTRFHLYTVPGQVFYEASRKLILRGVDGIIFVADSQ-VERMDSNIESLKSLeknlIEQgYDIGKIPLVMQWNKRDLPNATAVKDL 154
                              45689999999999999999999************85.789998888887661111332135669********************* PP

                              HHHTTGGGSSSSSSEEEEEEBTTTTBTHHHHHHHH CS
                      Arf 137 rellgleelkgkrkleiqkcsavkgeglkeglewl 171
                              +e+l+  ++        +++ avkg+g+ ++l+ +
  PHY93_08795|PHY93_08795 155 HEALNKWNVPE------FEAMAVKGTGVFDTLKTI 183
                              ****9998883......455566666666666655 PP

>> Gtr1_RagA  Gtr1/RagA G protein conserved region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.5   0.0   5.4e-08   0.00024       1     109 [.      14     128 ..      14     179 .. 0.83

  Alignments for each domain:
  == domain 1  score: 20.5 bits;  conditional E-value: 5.4e-08
                Gtr1_RagA   1 kvLLmGksgsGKtsmrsiiFdnylardtlrlgatidveksevrflgnltlnlwDcgGqeafvee.......ylssqkeeifrnvgv 79 
                              k++  G++  GKt+  + ++++++     ++ ++ ++e+++  f+++l l+l ++ G ++ ++         ++ +++ i+r v+ 
  PHY93_08795|PHY93_08795  14 KIVYYGPGLGGKTTNIQYVYQKTSGDSKGNI-ISLNTENERTLFFDFLPLDLGEIRGFKTRFHLytvpgqvFYEASRKLILRGVDG 98 
                              67889*****************998777776.56777777777**************9998887444555445788999******* PP

                Gtr1_RagA  80 liyVfDvesreleedletlkeilealrqys 109
                              +i+V D++ + +++++e+lk++ ++l +  
  PHY93_08795|PHY93_08795  99 IIFVADSQVERMDSNIESLKSLEKNLIEQG 128
                              ********999********99988887765 PP

>> Ras  Ras family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.0   5.8e-07    0.0026      26     160 ..      49     187 ..      14     189 .. 0.76

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 5.8e-07
                              SSCTTTSSEEEEEEEE.EETTEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEE..TTBHHH.HHTHHHHHHHHHHHST..TTS CS
                      Ras  26 eeyesTigvdfytkei.evdgkevkleiwDTAGqeefkslrelyyrdaegillvyd..itsres.fenvkkwveeikrvae..env 105
                              +e e T+ +df+  ++ e++g + +++++   Gq  +++ r+l +r+++gi+ v d  +++ +s  e++k++ +++ ++     ++
  PHY93_08795|PHY93_08795  49 TENERTLFFDFLPLDLgEIRGFKTRFHLYTVPGQVFYEASRKLILRGVDGIIFVADsqVERMDSnIESLKSLEKNLIEQGYdiGKI 134
                              4556666666665554367799999*****************************98335554442455556666666665567679 PP

                              EEEEEEETTTGGGG-SS-HHHHHHHHHHHTSEEEEEBTTTTCTHHHHHHHHHHHH CS
                      Ras 106 pivLvGnKvDleekravsteegeelakelglkfletSAktnenveeafeellrei 160
                              p+v+  nK Dl +  av+    +e  ++++++ +e+ A + ++v ++++++ + +
  PHY93_08795|PHY93_08795 135 PLVMQWNKRDLPNATAVKDL--HEALNKWNVPEFEAMAVKGTGVFDTLKTISKLV 187
                              ************98888754..5678999***************99999988765 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   0.0   5.6e-06     0.025       1      99 [.      14     117 ..      14     145 .. 0.70

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 5.6e-06
                              EEEEESSTTSSHHHHHHCHCT-CCC-EEETTTTEEEEEEECGGSGGCT...TBTTTTCEEEEEEEE-SGGCTTTT-HHHHCTSCEE CS
                      Roc   1 KvvlvGdsgvGKtsllkrfvedkfsekekstigvdfltkevtkikgve...ndkkvkkvklniWDtaGqerfrslhplylreaala 83 
                              K+v  G +  GKt+ ++ + +++  +++ ++i++++ ++++  ++ +     + +  k +++++ + Gq  +++ ++l lr+ + +
  PHY93_08795|PHY93_08795  14 KIVYYGPGLGGKTTNIQYVYQKTSGDSKGNIISLNTENERTLFFDFLPldlGEIRGFKTRFHLYTVPGQVFYEASRKLILRGVDGI 99 
                              89999*******************99999*****99998876555333111223344689************************** PP

                              EEEEEGHHH...HCHHHHH CS
                      Roc  84 ilvydsrss...enlkeWl 99 
                              i+v ds+ +   +n++  l
  PHY93_08795|PHY93_08795 100 IFVADSQVErmdSNIE-SL 117
                              *****65431213332.22 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (194 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       583  (0.0325172); expected 358.6 (0.02)
Passed bias filter:                      545  (0.0303977); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.39
# Mc/sec: 1496.93
//
Query:       PHY93_08800|PHY93_08800  [L=172]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.046   13.2   0.0      0.064   12.7   0.0    1.1  1  Met_synt_B12  Vitamin B12 dependent methionine synthase, acti
       0.46   11.0   2.5        7.4    7.1   0.2    2.4  2  Pox_D5        Poxvirus D5 protein-like


Domain annotation for each model (and alignments):
>> Met_synt_B12  Vitamin B12 dependent methionine synthase, activation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   7.2e-06     0.064     104     178 ..      64     143 ..      57     159 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 7.2e-06
             Met_synt_B12 104 pnlcLaDfvapkesgi.......kdyiGlFavtagigieelaekfeaekddYssilvkaladrLaeAfaellhekvrkelWg 178
                              + ++LaDf+ +kes+        +   G+++v + ig+eel+  +   +d+ +  l+k     +a  f e l++++++++ g
  PHY93_08800|PHY93_08800  64 AARALADFIPKKESKEgyrlsfdTSSQGVYIVPITIGVEELYLGLIY-HDEVNPGLIKNKMREMATSFGEFLEQELKESF-G 143
                              5689*******9988766777667799***************98766.59*************************99854.3 PP

>> Pox_D5  Poxvirus D5 protein-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.1   0.2   0.00083       7.4       2      28 ..       3      29 ..       2      83 .. 0.75
   2 ?    3.9   0.1    0.0086        78      46      75 ..     127     154 ..     114     167 .. 0.73

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.00083
                   Pox_D5  2 dnDpvldFveelfeeekstrvpsdvlY 28
                              n++++++ve++f+ ++++   +++ +
  PHY93_08800|PHY93_08800  3 ANNNIPKYVETFFKSCEIDEKLNRYSF 29
                             69************9987777666544 PP

  == domain 2  score: 3.9 bits;  conditional E-value: 0.0086
                   Pox_D5  46 krtFqkrlkkileegfekkkkkkgqqpney 75 
                               ++F++ l++ l+e+f k++ +++ ++  +
  PHY93_08800|PHY93_08800 127 ATSFGEFLEQELKESFGKNQVRTKENN--D 154
                              577888888888889999999944333..3 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (172 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       450  (0.025099); expected 358.6 (0.02)
Passed bias filter:                      395  (0.0220313); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.39
# Mc/sec: 1311.26
//
Query:       PHY93_08805|PHY93_08805  [L=195]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.3e-17   64.0   0.0    2.3e-17   63.2   0.0    1.4  1  Toprim_4       Toprim domain
    9.6e-08   31.5   2.7    1.9e-07   30.5   2.7    1.5  1  RecR           RecR protein
    9.1e-05   22.6   0.0    0.00016   21.8   0.0    1.4  1  Toprim         Toprim domain
  ------ inclusion threshold ------
      0.011   15.5   0.0      0.024   14.4   0.0    1.5  1  DUF1242        Protein of unknown function (DUF1242)
       0.03   13.8   4.2      0.053   13.0   4.2    1.4  1  zn-ribbon_14   Zinc-ribbon
      0.043   13.7   0.0       0.14   12.1   0.0    1.9  1  HHH            Helix-hairpin-helix motif
      0.081   13.0   0.0       0.71    9.9   0.0    2.4  4  Radical_SAM_C  Radical_SAM C-terminal domain
      0.099   13.3   0.0       0.31   11.7   0.0    1.8  1  HHH_5          Helix-hairpin-helix domain


Domain annotation for each model (and alignments):
>> Toprim_4  Toprim domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.2   0.0     1e-20   2.3e-17       2      88 ..      81     169 ..      80     170 .. 0.96

  Alignments for each domain:
  == domain 1  score: 63.2 bits;  conditional E-value: 1e-20
                 Toprim_4   2 eiiiVEgyaDvlaleka.giknvvavlggalspldgirpeklktenlve..aekkvkevilaldgDaeGeataerlaellleegvk 84 
                              +i++VE+++D+la+e++  +++  ++l g l+pl gi+p++lk +nl++  + ++++e+ila+++++eG+at  +++++ l+ +++
  PHY93_08805|PHY93_08805  81 TICVVESVTDCLAIERSgNFRGKFHILFGVLNPLLGIGPDELKLDNLIQrvSSEEIEELILAVNPSVEGDATCAYIKQM-LPAHIR 165
                              8**************************************************99999**********************5.599999 PP

                 Toprim_4  85 vtrl 88 
                              v r+
  PHY93_08805|PHY93_08805 166 VDRI 169
                              9986 PP

>> RecR  RecR protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.5   2.7   8.5e-11   1.9e-07       4      39 ..      42      76 ..      39      76 .. 0.88

  Alignments for each domain:
  == domain 1  score: 30.5 bits;  conditional E-value: 8.5e-11
                             HHHHHHHHHHHH-EE-TTT--EESSSS-CCCCSTTS CS
                     RecR  4 eLaeaLqeakekvrhCsrCgnlteedlCaICsdprR 39
                             ++aea +++  ++ hC++Cg +++++lC IC d  R
  PHY93_08805|PHY93_08805 42 AFAEAVKNLS-ELNHCKKCGMFCDDELCKICLDYHR 76
                             6888888876.89********************887 PP

>> Toprim  Toprim domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.8   0.0   7.2e-08   0.00016       1      88 [.      81     161 ..      81     172 .. 0.69

  Alignments for each domain:
  == domain 1  score: 21.8 bits;  conditional E-value: 7.2e-08
                              EEEEESSHHHHHHHHHTHT.......STEEEEEEESSSSEEEHSTTEEEEEECTTTHHHHHHHHHHH.HHHSEEEEECSSSHHHHH CS
                   Toprim   1 elvivEgpsdaktiakalg.......sgfqavtaslGhildletefkpvyeeiedkkkvlkalkela.kradeiilatDpDreGea 78 
                              ++++vE+ +d  +i++  g         f++  ++lG  +d  +                + +++ + ++ +e+ila +p +eG a
  PHY93_08805|PHY93_08805  81 TICVVESVTDCLAIERS-GnfrgkfhILFGVLNPLLGIGPDELK--------------LDNLIQRVSsEEIEELILAVNPSVEGDA 151
                              58***************.52444555555555555555555555..............22334444457777************** PP

                              HHHHHHHHHT CS
                   Toprim  79 iawellevlk 88 
                              ++ ++ ++l 
  PHY93_08805|PHY93_08805 152 TCAYIKQMLP 161
                              ******7765 PP

>> DUF1242  Protein of unknown function (DUF1242)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0   1.1e-05     0.024      11      30 ..     152     171 ..     151     172 .. 0.88

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 1.1e-05
                  DUF1242  11 TCTYvravfPslldrnksgf 30 
                              TC+Y+++++P+ +  ++ gf
  PHY93_08805|PHY93_08805 152 TCAYIKQMLPAHIRVDRIGF 171
                              9*********9998887776 PP

>> zn-ribbon_14  Zinc-ribbon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   4.2   2.4e-05     0.053       2      19 ..      55      72 ..      54      72 .. 0.92

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 2.4e-05
             zn-ribbon_14  2 kCerCGylSSqkiCkACv 19
                              C++CG+ +  ++Ck C+
  PHY93_08805|PHY93_08805 55 HCKKCGMFCDDELCKICL 72
                             7**************995 PP

>> HHH  Helix-hairpin-helix motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   6.1e-05      0.14      12      24 ..      13      25 ..      11      27 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 6.1e-05
                             HHHTSTT-SHHHH CS
                      HHH 12 eLlalPGVGpktA 24
                             +   lPGVG+ktA
  PHY93_08805|PHY93_08805 13 QFSRLPGVGEKTA 25
                             6678********9 PP

>> Radical_SAM_C  Radical_SAM C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0       1.5   3.3e+03      59      75 ..      36      53 ..      29      67 .. 0.77
   2 ?   -1.0   0.0       0.8   1.8e+03      31      51 ..      64      84 ..      44     108 .. 0.71
   3 ?   -3.4   0.0       4.8   1.1e+04      51      65 ..     128     142 ..     125     146 .. 0.64
   4 ?    9.9   0.0   0.00032      0.71      37      61 ..     152     176 ..     148     186 .. 0.89

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 1.5
            Radical_SAM_C 59 pkelliagpwh.knlrel 75
                             +ke+lia  +  knl el
  PHY93_08805|PHY93_08805 36 NKEDLIAFAEAvKNLSEL 53
                             678888888888888887 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.8
            Radical_SAM_C 31 leeyvdlvadilellppdirv 51
                              +e+++++ d+ ++ ++ i v
  PHY93_08805|PHY93_08805 64 DDELCKICLDYHRFHSKTICV 84
                             567777777776666665544 PP

  == domain 3  score: -3.4 bits;  conditional E-value: 4.8
            Radical_SAM_C  51 vhRltgdipkellia 65 
                              ++R+ ++  +el++a
  PHY93_08805|PHY93_08805 128 IQRVSSEEIEELILA 142
                              667766666666555 PP

  == domain 4  score: 9.9 bits;  conditional E-value: 0.00032
            Radical_SAM_C  37 lvadilellppdirvhRltgdipke 61 
                              ++a i+++lp++irv R++  ip+ 
  PHY93_08805|PHY93_08805 152 TCAYIKQMLPAHIRVDRIGFGIPMG 176
                              689999*************999985 PP

>> HHH_5  Helix-hairpin-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00014      0.31      34      49 ..      11      26 ..       4      30 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00014
                             HHHHHTSTTS-HHHHH CS
                    HHH_5 34 veeLakipGiGkktAe 49
                             v++++++pG+G+ktA 
  PHY93_08805|PHY93_08805 11 VKQFSRLPGVGEKTAL 26
                             799***********95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (195 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       681  (0.0379832); expected 358.6 (0.02)
Passed bias filter:                      435  (0.0242624); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.43u 0.19s 00:00:00.62 Elapsed: 00:00:00.36
# Mc/sec: 1639.65
//
Query:       PHY93_08810|PHY93_08810  [L=101]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.4e-29  102.1   8.4    1.6e-29  102.0   8.4    1.0  1  YbaB_DNA_bd  YbaB/EbfC DNA-binding family
  ------ inclusion threshold ------
      0.041   14.1   0.1        0.1   12.9   0.0    1.8  1  DUF1921      Domain of unknown function (DUF1921)
       0.06   13.5   0.3      0.069   13.3   0.3    1.2  1  DUF2161      Putative PD-(D/E)XK phosphodiesterase (DUF2161)


Domain annotation for each model (and alignments):
>> YbaB_DNA_bd  YbaB/EbfC DNA-binding family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  102.0   8.4   2.6e-33   1.6e-29       1      91 []       8      98 ..       8      98 .. 0.99

  Alignments for each domain:
  == domain 1  score: 102.0 bits;  conditional E-value: 2.6e-33
                             HHHHHHHHHHHHHHHHHHTTSEEEEEETTTTEEEEEETT--EEEEEE-GGGG.GS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT- CS
              YbaB_DNA_bd  1 mkqaqkmqkkmeeaqeelaekevegssggglVkVtvngkgevksikIdpslldpedkemLedlivaAvndAlkkaeeeaeeemskltg 88
                             mkqaq+mq+km+ +q+el++ e e ssggg++k++++gk++++si+I+++ +dp+d+  Ledl+++Avn+A+k+++++++ +m+k+tg
  PHY93_08810|PHY93_08810  8 MKQAQQMQQKMATLQKELETRELETSSGGGMIKIKITGKQQILSISINKECVDPNDVASLEDLVKTAVNQAVKESQDMVSGAMAKITG 95
                             9*************************************************************************************** PP

                             -XX CS
              YbaB_DNA_bd 89 gln 91
                             g+n
  PHY93_08810|PHY93_08810 96 GIN 98
                             975 PP

>> DUF1921  Domain of unknown function (DUF1921)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   1.7e-05       0.1      10      34 ..      43      67 ..      35      87 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 1.7e-05
                  DUF1921 10 vsGsqqkLlvAldsnlssPgqvAsG 34
                             ++G qq L + ++    +P+ vAs 
  PHY93_08810|PHY93_08810 43 ITGKQQILSISINKECVDPNDVASL 67
                             8**********************94 PP

>> DUF2161  Putative PD-(D/E)XK phosphodiesterase (DUF2161)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.3   1.2e-05     0.069      20      82 ..      10      71 ..       5      94 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.2e-05
                  DUF2161 20 aprknkkkrsrllkEferregdpnvGGstrkkivTaYreqalriaalLaeegelspaelkkat 82
                             ++++ ++k ++l kE+e+re ++  GG   k  +T  ++q l+i    +  ++  +a+l++++
  PHY93_08810|PHY93_08810 10 QAQQMQQKMATLQKELETRELETSSGGGMIKIKITG-KQQILSISINKECVDPNDVASLEDLV 71
                             4566778999*****************999999998.88888887655555555555555544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (101 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1774  (0.0989458); expected 358.6 (0.02)
Passed bias filter:                      979  (0.0546043); expected 358.6 (0.02)
Passed Vit filter:                        86  (0.0047967); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 744.50
//
Query:       PHY93_08815|PHY93_08815  [L=563]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.4e-44  149.8   0.5    6.4e-42  143.1   0.0    2.7  2  DNA_pol3_delta2  DNA polymerase III, delta subunit
    1.3e-11   45.1   0.0      4e-11   43.4   0.0    1.9  1  AAA              ATPase family associated with various cellul
    4.2e-07   30.1   0.3    5.3e-05   23.2   0.1    3.7  3  AAA_5            AAA domain (dynein-related subfamily)
    3.3e-06   27.0   0.1    0.00052   19.8   0.0    2.7  2  RuvB_N           Holliday junction DNA helicase RuvB P-loop d
    7.7e-06   26.2   1.7    8.9e-05   22.8   0.1    3.2  3  AAA_22           AAA domain
    1.7e-05   24.6   0.0      4e-05   23.4   0.0    1.6  1  AAA_30           AAA domain
      3e-05   23.4   0.2      0.021   14.0   0.0    2.5  2  TIP49            TIP49 P-loop domain
    0.00019   21.2   0.0     0.0018   18.1   0.0    2.3  2  AAA_24           AAA domain
    0.00034   20.6   0.2     0.0037   17.3   0.0    2.7  2  AAA_14           AAA domain
    0.00036   21.0   0.0     0.0034   17.8   0.0    2.6  2  AAA_16           AAA ATPase domain
     0.0012   18.0   0.2     0.0028   16.9   0.0    1.5  2  PIF1             PIF1-like helicase
     0.0058   16.0   0.6      0.018   14.4   0.1    2.1  2  Mg_chelatase     Magnesium chelatase, subunit ChlI
     0.0059   16.1   0.0        1.1    8.8   0.0    2.5  2  AAA_7            P-loop containing dynein motor region
      0.006   16.0   0.8        5.6    6.3   0.0    3.3  3  TniB             Bacterial TniB protein
  ------ inclusion threshold ------
       0.01   16.4   0.1      0.044   14.3   0.0    2.1  2  AAA_18           AAA domain
      0.012   15.5   0.1        0.5   10.3   0.1    3.2  2  NTPase_1         NTPase
      0.015   14.4   0.1        0.2   10.8   0.1    2.4  2  DUF815           Protein of unknown function (DUF815)
      0.029   14.7   0.1       0.27   11.5   0.1    2.4  1  AAA_19           AAA domain
      0.072   13.6   0.2       0.33   11.5   0.0    2.3  2  ABC_tran         ABC transporter
       0.69    9.9   7.9        1.4    8.9   0.0    3.2  3  ResIII           Type III restriction enzyme, res subunit


Domain annotation for each model (and alignments):
>> DNA_pol3_delta2  DNA polymerase III, delta subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  143.1   0.0   7.2e-45   6.4e-42       2     162 ..      21     179 ..      20     180 .. 0.95
   2 ?    3.6   0.6     0.057        51      14     116 ..     357     551 ..     351     557 .. 0.59

  Alignments for each domain:
  == domain 1  score: 143.1 bits;  conditional E-value: 7.2e-45
          DNA_pol3_delta2   2 qeealkilskalksgrlahayLfeGdegigkkelalnlakallceeknetk.pcgecksckkieqgkhpDvivieteekersikld 86 
                              q ++ + l++a+ ++++ hay++ G++g+gk ++a  +aka+ ce+   +  +cgec++c  ++++   ++i i+  ++    ++d
  PHY93_08815|PHY93_08815  21 QGHVTRALQNAIVNKKIGHAYMLVGTRGVGKTSVARIFAKAIRCENLTADGnACGECRACLDFDTEISMNFIEIDGASN---NSVD 103
                              7788999**************************************9875544*******************99987766...69** PP

          DNA_pol3_delta2  87 qirelieelsrkpreskkkiiiiedaekmtksAaNalLktlEEPsenaifiLitsdtnklLktirSRcqelkfspl 162
                              +ireli +++  p+ +k+k+++i+++ +++++A NalLktlEEP+++++fi+ t++ +klL t+ SRcq ++f+++
  PHY93_08815|PHY93_08815 104 NIRELIGNVHYLPTSGKYKVYVIDEVHMLSTNAFNALLKTLEEPPAHVVFIFATTEAQKLLGTVLSRCQRFDFRNV 179
                              *************************************************************************986 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.057
          DNA_pol3_delta2  14 ksgrlahayLfeGdegigkkelalnlakallceeknetkpcgecksckkieqgkhpDvivieteeker.................. 81 
                              +++++a a+++e+ +++  k++a ++a+++    k+++ +  e   + + ++    + +++  +++ +                  
  PHY93_08815|PHY93_08815 357 QQEEIAPAIVIEAVKETIPKTVAETFAENFAELAKEKE-AEIENAVIPQSKTFVIEEPLIVPAKSTMQkemswegflsylnvkapa 441
                              56667777777777777777777777777666666655.43444444444444444444443333322345566666666666666 PP

          DNA_pol3_delta2  82 ..........................................................................sikldqirelie 93 
                                                                                                         i++ +i+e  +
  PHY93_08815|PHY93_08815 442 sasnleqgnitsplrlengelsvelgfgysglvfmdylsepevfqklinnlseyfeveknkiqlqllnvqssenFISTAEIKEQLA 527
                              66666666666666666666666666666666666666666666666666666666666666666666666666899999995555 PP

          DNA_pol3_delta2  94 elsrk.preskkkiiiiedaekmt 116
                              e+s +  +e+ k   i+++aekm 
  PHY93_08815|PHY93_08815 528 EMSMQeRVENFKNNPILKEAEKMF 551
                              555540455666678999999885 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.4   0.0   4.5e-14     4e-11       2     126 ..      42     173 ..      41     179 .. 0.74

  Alignments for each domain:
  == domain 1  score: 43.4 bits;  conditional E-value: 4.5e-14
                              EEESSTTSSHHHHHHHHHHHHTHE.........................EEEEETTTCSSSSTTHHHHHHHHHHHHHHHTS...TS CS
                      AAA   2 llyGppGtGKTllakavakelgve.........................fleisgsellskyvgesekkirelfkeakeka...kp 59 
                              +l+G+ G+GKT++a+  ak +  e                         f+ei+g++        s ++irel+ ++       k 
  PHY93_08815|PHY93_08815  42 MLVGTRGVGKTSVARIFAKAIRCEnltadgnacgecracldfdteismnFIEIDGASNN------SVDNIRELIGNVHYLPtsgKY 121
                              79******************643322222333333333333333333338888887777......999999999998666577556 PP

                              EEEEEETGGGHHHHHTTCCCHHHHHHHHHHHHHHHHTTTSSSTEEEEEEESSGGGSTHHHHSTTSSE CS
                      AAA  60 silfiDEidalaksrsgseseeeervvnqLlteldgvkkkeskvivigatnrpdkldpallrgRfdr 126
                              ++ +iDE++ l ++             n+Ll+ l++      +v++i at++ +kl   +l +R++r
  PHY93_08815|PHY93_08815 122 KVYVIDEVHMLSTNA-----------FNALLKTLEEPPA---HVVFIFATTEAQKLLGTVL-SRCQR 173
                              ***********9999...........***********99...5*********999999999.56654 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.2   0.1     6e-08   5.3e-05       3      95 ..      42     150 ..      40     163 .. 0.76
   2 ?   -1.6   0.0       2.8   2.5e+03      26      48 ..     225     247 ..     217     265 .. 0.78
   3 ?   -1.5   0.0       2.5   2.3e+03      33      57 ..     299     323 ..     296     328 .. 0.85

  Alignments for each domain:
  == domain 1  score: 23.2 bits;  conditional E-value: 6e-08
                              EEE--SSSSHHHHHHHGGGGBS--EEEEE--TT--HH.HHH--B--.........--------................G-SEEEE CS
                    AAA_5   3 lLvGppGtgKselaerlaaalnreveyvqltrdttee.dlkgrreikngttslvdsplvraar................egeilvl 71 
                              +LvG  G+gK+++a+ +a+a+++e ++  +++  + +  l   +ei+  +    d++  +++                 + +++v+
  PHY93_08815|PHY93_08815  42 MLVGTRGVGKTSVARIFAKAIRCENLTADGNACGECRaCLDFDTEIS-MNFIEIDGASNNSVDnirelignvhylptsgKYKVYVI 126
                              8********************88888888887655431455555553.3333333333333333336667888****9999***** PP

                              ESGGG--HHHHHHHHHHHHSSEEE CS
                    AAA_5  72 DEveraesevlnsLlslleerrll 95 
                              DEv++++++++n+Ll+ lee   +
  PHY93_08815|PHY93_08815 127 DEVHMLSTNAFNALLKTLEEPPAH 150
                              ******************997665 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 2.8
                              -EEEEE--TT--HHHHH--B--. CS
                    AAA_5  26 eveyvqltrdtteedlkgrreik 48 
                              +v++  l++++tee+l+ ++ ++
  PHY93_08815|PHY93_08815 225 QVLTTSLNDNITEENLTSSLGVA 247
                              67888999999999999887775 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 2.5
                              -TT--HHHHH--B--.........- CS
                    AAA_5  33 trdtteedlkgrreikngttslvds 57 
                              ++ ++e+++++ +e+  ++ts+  s
  PHY93_08815|PHY93_08815 299 NKEISEAEMIWIYETIARETSWIFS 323
                              68899*********99**9999766 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.8   0.0   5.7e-07   0.00052       2      63 ..      11      68 ..      10      88 .. 0.83
   2 ?    4.4   0.0     0.032        28      83     111 ..     119     147 ..      84     164 .. 0.73

  Alignments for each domain:
  == domain 1  score: 19.8 bits;  conditional E-value: 5.7e-07
                   RuvB_N  2 rPksleeyigqekvkeklkifieaakkreealdhvllyGpPGlGkttlakiiakelgvklki 63
                             rPk+++e igq +v+  l+ +i   k         +l+G  G+Gkt++a+i ak +  +  +
  PHY93_08815|PHY93_08815 11 RPKKFQEVIGQGHVTRALQNAIVNKKI----GHAYMLVGTRGVGKTSVARIFAKAIRCENLT 68
                             9***************99987765433....233589*****************99876555 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.032
                   RuvB_N  83 eekdvlfideihrlsraveevlysamedf 111
                               + +v  ide+h ls+++ + l +++e+ 
  PHY93_08815|PHY93_08815 119 GKYKVYVIDEVHMLSTNAFNALLKTLEEP 147
                              456899***********999999999875 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.8   0.1   9.9e-08   8.9e-05       8     137 .]      41     164 ..      37     164 .. 0.71
   2 ?    0.0   0.0       1.1   9.6e+02      18      70 ..     337     392 ..     337     448 .. 0.64
   3 ?   -2.3   0.1       5.5   4.9e+03      23      99 ..     486     562 ..     482     563 .] 0.60

  Alignments for each domain:
  == domain 1  score: 22.8 bits;  conditional E-value: 9.9e-08
                   AAA_22   8 lvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsst...sskdllrellralglelka...erlsseellealeqalr 87 
                               +++G  G+GKT ++r +++           r e ++ + ++ +      d+ +e+  ++ +   a   + ++ +el+  ++    
  PHY93_08815|PHY93_08815  41 YMLVGTRGVGKTSVARIFAKAI---------RCENLTADGNACGecrACLDFDTEISMNFIEIDGAsnnSVDNIRELIGNVHYLPT 117
                              689******************9.........6666655544444445566666666666665555511122345555554444444 PP

                   AAA_22  88 aravielliiDEaqhlrseealeeLrsllnlsrkgvqliLvGtp.elrkll 137
                              + +  ++ +iDE++ l s +a++ L + l+  + + +++++  + e++kll
  PHY93_08815|PHY93_08815 118 SGK-YKVYVIDEVHML-STNAFNALLKTLE--EPPAHVVFIFATtEAQKLL 164
                              444.5***********.********99999..9999999998887888876 PP

  == domain 2  score: 0.0 bits;  conditional E-value: 1.1
                   AAA_22  18 KTtllrrlleqldeeakaee.....erpevvfvtlpsstsskdllrellralglelka 70 
                              KTtl r +++ +   ++        e ++ + +++ ++t +k++++ +++++ + +k+
  PHY93_08815|PHY93_08815 337 KTTLRRSFFSMKMPTSE--PhfqqeEIAPAIVIEAVKETIPKTVAETFAENFAELAKE 392
                              66666666666533222..233445555666777777777777777777777765555 PP

  == domain 3  score: -2.3 bits;  conditional E-value: 5.5
                   AAA_22  23 rrlleqldeeakaeeerpevvfvtlpsst...sskdllrellralglelkaerlsseellealeqalraravielliiDE 99 
                              ++l ++l e+ + e+++ ++ + +++ss+   s +++ ++l++   +e+ + + ++  +l+  e+ ++a+ +   +iiD+
  PHY93_08815|PHY93_08815 486 QKLINNLSEYFEVEKNKIQLQLLNVQSSEnfiSTAEIKEQLAEMSMQERVE-NFKNNPILKEAEKMFNAKVD--KIIIDN 562
                              556666666666666555555666666666677777777777766666666.56666666666666666655..666665 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.4   0.0   4.5e-08     4e-05      20     122 ..      40     154 ..      25     155 .. 0.68

  Alignments for each domain:
  == domain 1  score: 23.4 bits;  conditional E-value: 4.5e-08
                   AAA_30  20 vavltGpAGtGKttalkalreaweaaggrviglAptgkaAkv.Laeelgi...........eastiakllkrlk..grarlepgtl 91 
                                +l+G  G GKt + +  ++a++ ++ +  g A  +  A     +e+ +             ++i +l+ +       +  + ++
  PHY93_08815|PHY93_08815  40 AYMLVGTRGVGKTSVARIFAKAIRCENLTADGNACGECRACLdFDTEISMnfieidgasnnSVDNIRELIGNVHylP--TSGKYKV 123
                              4689********************99966666666543332114433333333334433335555555554444441..34455** PP

                   AAA_30  92 livDEagmvdtkqlaallkaaekagakvilv 122
                              +++DE+ m++t+ ++allk +e+  a+v+++
  PHY93_08815|PHY93_08815 124 YVIDEVHMLSTNAFNALLKTLEEPPAHVVFI 154
                              ***********************99999985 PP

>> TIP49  TIP49 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.5   0.1    0.0045         4      26      74 ..      18      62 ..       8      69 .. 0.79
   2 !   14.0   0.0   2.3e-05     0.021     281     315 ..     123     158 ..     112     171 .. 0.83

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.0045
                             XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                    TIP49 26 lvGqkkareaagvivelikekklaGravLlaGpsgtGktalaiaiskel 74
                             ++Gq +  +a   + + i +kk++ +a +l+G +g Gkt++a   +k++
  PHY93_08815|PHY93_08815 18 VIGQGHVTRA---LQNAIVNKKIG-HAYMLVGTRGVGKTSVARIFAKAI 62
                             5666665555...45778889975.9****************9888877 PP

  == domain 2  score: 14.0 bits;  conditional E-value: 2.3e-05
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.XXXXX CS
                    TIP49 281 vlfiDevhmlDiecfsylnraleselaPiv.ilatn 315
                              v  iDevhml  ++f  l ++le++ a +v i+at 
  PHY93_08815|PHY93_08815 123 VYVIDEVHMLSTNAFNALLKTLEEPPAHVVfIFATT 158
                              678**********************99988355654 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.0     2e-06    0.0018       5      82 ..      41     137 ..      38     146 .. 0.81
   2 ?    1.6   0.0      0.22     2e+02     108     134 ..     134     160 ..     130     172 .. 0.86

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 2e-06
                   AAA_24   5 iliyGpsgiGKTtlakelgpkplfi...................dtekGlk..sldadkfpdieswedfldevvelaaeladyktl 69 
                              ++++G  g+GKT++a+ +  k++ +                   dte +++  ++d++  +++ ++ +++  v +l++  + yk++
  PHY93_08815|PHY93_08815  41 YMLVGTRGVGKTSVARIF-AKAIRCenltadgnacgecracldfDTEISMNfiEIDGASNNSVDNIRELIGNVHYLPTSGK-YKVY 124
                              689***************.88888889999999999999999888888887334445555555588888999999999998.**** PP

                   AAA_24  70 viDtideleelcl 82 
                              viD +  l   ++
  PHY93_08815|PHY93_08815 125 VIDEVHMLSTNAF 137
                              ****998876665 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.22
                   AAA_24 108 aeefrrllkklqelrknvifiahektr 134
                              ++ f+ llk+l+e + +v+fi  +++ 
  PHY93_08815|PHY93_08815 134 TNAFNALLKTLEEPPAHVVFIFATTEA 160
                              578999***************988775 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   0.0   4.1e-06    0.0037       4      98 ..      40     156 ..      38     173 .. 0.63
   2 ?   -0.8   0.1       1.6   1.4e+03     107     115 ..     520     528 ..     433     563 .] 0.62

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 4.1e-06
                   AAA_14   4 ilvitGaRrvGKTtllkqlikell.................vkkesilyinldderdkkladpekllelileklke.....ekkty 67 
                              +++++G R vGKT +++ ++k                     + +  + +n+ + + ++++  +++ eli +   +      k ++
  PHY93_08815|PHY93_08815  40 AYMLVGTRGVGKTSVARIFAKAIRcenltadgnacgecracLDFDTEISMNFIEIDGASNNSVDNIRELIGNV--HylptsGKYKV 123
                              7899***********9888876668889999996666555545555555555555554444343444444443..03446556677 PP

                   AAA_14  68 lflDEiqev.pewekalkslvdeg.knldvivt 98 
                               ++DE++++ +++++al + ++e   ++ +i++
  PHY93_08815|PHY93_08815 124 YVIDEVHMLsTNAFNALLKTLEEPpAHVVFIFA 156
                              9******98445777777777766344444444 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 1.6
                   AAA_14 107 keiatslag 115
                               ei+++la+
  PHY93_08815|PHY93_08815 520 AEIKEQLAE 528
                              233333332 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.0   3.8e-06    0.0034       3      51 ..      19      65 ..      17     154 .. 0.85
   2 ?   -1.7   0.0       3.7   3.3e+03      58      94 ..     270     305 ..     250     318 .. 0.71

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 3.8e-06
                   AAA_16  3 vGReeeleqLlsalervrsgrpelvllsGesGvGKsslvrellralekd 51
                             +G ++ +++L++a+ + + g  ++ +l+G +GvGK+s++r +++a++ +
  PHY93_08815|PHY93_08815 19 IGQGHVTRALQNAIVNKKIG--HAYMLVGTRGVGKTSVARIFAKAIRCE 65
                             67777788898988766666..89*******************998766 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 3.7
                   AAA_16  58 gkcdqlesaipysalaqalareellrqlldeaesael 94 
                                ++ le+++p   +a  l  +el+++l++++e +e+
  PHY93_08815|PHY93_08815 270 IYNKLLEENVPVKNIAGGL-LDELFKDLKSNKEISEA 305
                              4444557788888899999.55999999999777665 PP

>> PIF1  PIF1-like helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0   3.1e-06    0.0028       6     127 ..      21     145 ..      19     149 .. 0.77
   2 ?   -3.9   0.0       6.4   5.7e+03     245     274 ..     364     393 ..     355     404 .. 0.59

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 3.1e-06
                              HHHHHHHH.......HCTS-EEEEESTTSSCHHHHHHHHHHCHCTCCCEEEEESSHHHHHCC.TSEECHHHHT-TTSSS-HHHH.H CS
                     PIF1   6 Qkkvfdaiieavln.ekgklfFvtGsgGtgKtflwkallkklrsegkivlavAssGvAalllegGrtahsrfkiplekdeestc.k 89 
                              Q +v +a  +a++n + g+   + G  G gKt + +   k++r e+ ++   A     a+ l    t  s+  i+++ ++++++ +
  PHY93_08815|PHY93_08815  21 QGHVTRALQNAIVNkKIGHAYMLVGTRGVGKTSVARIFAKAIRCENLTADGNACGECRAC-L-DFDTEISMNFIEIDGASNNSVdN 104
                              66778888888877366999999**********************766666665555555.4.35677777778887777777756 PP

                              HHT...SCCCHHHHHC-SEEEEECGGGSBHHHHHHHHHHHH CS
                     PIF1  90 ikr...gsklaellkktsliiwDEapmverecfealdrtlr 127
                              i++   + +      k ++ ++DE+ m++ ++f+al +tl 
  PHY93_08815|PHY93_08815 105 IREligNVHYLPTSGKYKVYVIDEVHMLSTNAFNALLKTLE 145
                              66522255666667899*******************98875 PP

  == domain 2  score: -3.9 bits;  conditional E-value: 6.4
                              CHCCS---SS--...........EEEESSC CS
                     PIF1 245 eivsevygdllqeltdkeyleerailcptn 274
                              +iv e +++++ ++  +++ e+ a+l+ ++
  PHY93_08815|PHY93_08815 364 AIVIEAVKETIPKTVAETFAENFAELAKEK 393
                              455555566666666666666666666544 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.1     2e-05     0.018       2      43 ..      15      59 ..      14      69 .. 0.86
   2 ?   -2.0   0.0       2.2     2e+03     107     137 ..     471     503 ..     455     550 .. 0.64

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 2e-05
             Mg_chelatase  2 lkdvkGqeeakraleiaaaG...gHnlllvGppGsGKtmlakrlp 43
                             +++v+Gq +  ral+ a+     gH  +lvG+ G GKt +a+ ++
  PHY93_08815|PHY93_08815 15 FQEVIGQGHVTRALQNAIVNkkiGHAYMLVGTRGVGKTSVARIFA 59
                             799************998763337****************98765 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 2.2
             Mg_chelatase 107 nGvLfLDEl..pefkrkvlevLRePledgevti 137
                               G++f+D l  pe  +k ++ L e +e ++ +i
  PHY93_08815|PHY93_08815 471 SGLVFMDYLsePEVFQKLINNLSEYFEVEKNKI 503
                              677777766223444556666655544443333 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.8   0.0    0.0012       1.1      32      59 ..      37      64 ..      24      72 .. 0.80
   2 ?    4.5   0.0     0.024        22      93     119 ..     113     139 ..      98     143 .. 0.89

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.0012
                    AAA_7 32 nkkpvllvGptGtGKtviikdllkkldk 59
                              ++  +lvG+ G+GKt++++ + k++  
  PHY93_08815|PHY93_08815 37 IGHAYMLVGTRGVGKTSVARIFAKAIRC 64
                             56899*************9988777665 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.024
                    AAA_7  93 vygPpggkklvvFvDDlnmpakekyga 119
                               y P  gk  v+ +D+++m   + ++a
  PHY93_08815|PHY93_08815 113 HYLPTSGKYKVYVIDEVHMLSTNAFNA 139
                              699****************99998876 PP

>> TniB  Bacterial TniB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.3   0.0    0.0062       5.6      36      58 ..      39      61 ..      22      77 .. 0.80
   2 ?    3.6   0.0     0.042        38     110     151 ..     111     146 ..      89     180 .. 0.67
   3 ?    2.2   0.2      0.12     1e+02      48      82 ..     337     374 ..     335     407 .. 0.75

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.0062
                     TniB 36 pnlllvGdsnnGKtmivekFarl 58
                             + ++lvG   +GKt++++ Fa+ 
  PHY93_08815|PHY93_08815 39 HAYMLVGTRGVGKTSVARIFAKA 61
                             789*****************986 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.042
                     TniB 110 qvlrllrelkvrvLiiDEihnllagsarkqreflnalksLgn 151
                              +v+ l  + k +v +iDE+h l        ++f ++lk+L +
  PHY93_08815|PHY93_08815 111 NVHYLPTSGKYKVYVIDEVHMLS------TNAFNALLKTLEE 146
                              555555667899********887......4555556666655 PP

  == domain 3  score: 2.2 bits;  conditional E-value: 0.12
                     TniB  48 KtmivekFarlhppekd...edaekvpvlvvqappkpd 82 
                              Kt++ ++F +++ p+++   +++e+ p +v++a ++  
  PHY93_08815|PHY93_08815 337 KTTLRRSFFSMKMPTSEphfQQEEIAPAIVIEAVKETI 374
                              9*********9998876344556677******988765 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0   4.9e-05     0.044       2      83 ..      42     130 ..      42     162 .. 0.58
   2 ?   -1.8   0.0       4.8   4.3e+03      51      80 ..     525     561 ..     464     563 .] 0.61

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 4.9e-05
                   AAA_18   2 lltGtpGvGKttlakeLskrlgf..........gvnlrdvakenglllevdpe...aldeskrldedkldklldaleenss..ale 72 
                              +l Gt GvGKt++a+  +k   +          g        e + +l++d e    + e + +  + +d++ +++ +     +++
  PHY93_08815|PHY93_08815  42 MLVGTRGVGKTSVARIFAKAIRCenltadgnacG--------ECRACLDFDTEismNFIEIDGASNNSVDNIRELIGNVHYlpTSG 119
                              589**************99965566455544441........33333333333233233333333333333222222222255577 PP

                   AAA_18  73 egknlvidghl 83 
                              + k++vid ++
  PHY93_08815|PHY93_08815 120 KYKVYVIDEVH 130
                              77777777654 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 4.8
                   AAA_18  51 rldedkldklldaleenss.......aleegknlvid 80 
                              +l e+ +++ ++++++n+         +++ + ++id
  PHY93_08815|PHY93_08815 525 QLAEMSMQERVENFKNNPIlkeaekmFNAKVDKIIID 561
                              3334444455555555544555555555566666666 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.1   0.00055       0.5       3      52 ..      42      94 ..      40     186 .. 0.77
   2 ?   -0.0   0.0       0.8   7.2e+02      11      31 ..     262     282 ..     260     286 .. 0.90

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00055
                             EEE--TTSSHHHHHHHHHHHH...GGGEEEEEEEEE-...------EEEEEET CS
                 NTPase_1  3 fiTGppGvGKtTlvkkvlellkssgvkvgGfyteevr...eggrrigFkivdl 52
                             ++ G  GvGKt + +  +++++ ++++ +G  + e r   + ++ i  + +++
  PHY93_08815|PHY93_08815 42 MLVGTRGVGKTSVARIFAKAIRCENLTADGNACGECRaclDFDTEISMNFIEI 94
                             6889*******************************995554555555555555 PP

  == domain 2  score: -0.0 bits;  conditional E-value: 0.8
                              SHHHHHHHHHHHH...GGGEE CS
                 NTPase_1  11 GKtTlvkkvlellkssgvkvg 31 
                              G tT ++k++++l +++v+v+
  PHY93_08815|PHY93_08815 262 GDTTGLSKIYNKLLEENVPVK 282
                              789***************997 PP

>> DUF815  Protein of unknown function (DUF815)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.1   0.00022       0.2      46      82 ..      31      67 ..       8     172 .. 0.83
   2 ?    0.6   0.0       0.3   2.7e+02     139     173 ..     329     364 ..     323     383 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00022
                   DUF815 46 qfleglpannvLLwGarGtGKSslvkallneyaeegL 82
                             + ++++  +  +L+G+rG+GK s+ +   ++++ e+L
  PHY93_08815|PHY93_08815 31 AIVNKKIGHAYMLVGTRGVGKTSVARIFAKAIRCENL 67
                             46778888999***************99999888775 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.3
                   DUF815 139 kpenvliyaTsNrRhLlpeklsdnee.leeeeihas 173
                              k+ +vl+y T+ rR + + k+   e   ++eei + 
  PHY93_08815|PHY93_08815 329 KAFEVLLYKTTLRRSFFSMKMPTSEPhFQQEEIAPA 364
                              55689*************999988877788888875 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   0.00031      0.27       2     135 ..      30     154 ..      29     155 .. 0.56

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00031
                   AAA_19   2 reavealkekvllvtaGpGtGKTrvlkhivallvelggvkpeeillvaftgrAakelrerlaalgaeatTiHrlalldfddlltea 87 
                              +++v++   +  ++++  G GKT v +   +  ++ +         ++  g A+ e r  l     + +T  ++ ++++d+  ++ 
  PHY93_08815|PHY93_08815  30 NAIVNKKIGHAYMLVGTRGVGKTSVARIFAKA-IRCE--------NLTADGNACGECRACL-----DFDTEISMNFIEIDGASNNS 101
                              55666555556677788888888876544443.3333........3555555555555555.....22222222224444444444 PP

                   AAA_19  88 lelle.......eaeeekklqeee.llivDEfqdvd.elqyrLlkallgekkklllv 135
                              +  ++       +     +   ++ + ++DE+ +++    ++Llk+l ++ ++++++
  PHY93_08815|PHY93_08815 102 VDNIRelignvhY----LPTSGKYkVYVIDEVHMLStNAFNALLKTLEEPPAHVVFI 154
                              4444444332221....2333444589*********999********9887777765 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00037      0.33       6      39 ..      33      66 ..      28     172 .. 0.81
   2 ?   -2.4   0.1       6.8   6.1e+03      39      95 ..     500     532 ..     484     556 .. 0.42

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00037
                             EEEETTSEEEEEESTTSSHHHHHHHHTTSS--SE CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  6 lklkegekvaivGenGaGKStLlkllagllkpte 39
                             ++ k g+ + +vG  G GK+++++++a+  + ++
  PHY93_08815|PHY93_08815 33 VNKKIGHAYMLVGTRGVGKTSVARIFAKAIRCEN 66
                             55567999*******************9988654 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 6.8
                              EEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH...HHHTCHHHHHHHSTTG CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxx RF
                 ABC_tran  39 eGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren...esdeeiekalsklglk 95 
                              + +i+l+  ++++                           +    s++ei++ l++++++
  PHY93_08815|PHY93_08815 500 KNKIQLQLLNVQS---------------------------SenfISTAEIKEQLAEMSMQ 532
                              3333333222222...........................02222222222222222222 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   0.2     0.039        35       8      46 ..      21      60 ..      14      69 .. 0.72
   2 ?    8.9   0.0    0.0016       1.4     102     159 ..      85     146 ..      67     159 .. 0.75
   3 ?   -1.3   0.5       2.1   1.9e+03      98     122 ..     497     537 ..     475     562 .. 0.48

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.039
                             HHHHHHHHT.......TTSEEEEEESTTSTHHHHHHHHHH CS
                   ResIII  8 Qeeaienlleklks.krdkrglikmaTGtGKTlvaaklie 46
                             Q ++ ++l +++ + k  + ++++ + G+GKT va  +++
  PHY93_08815|PHY93_08815 21 QGHVTRALQNAIVNkKIGHAYMLVGTRGVGKTSVARIFAK 60
                             6666777777776413334888**********99965555 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 0.0016
                              ..-SEEEEEHHHHHHTH.............HHHTTT-SEEEEETGGGTTS.TTTHHHHHT--- CS
                   ResIII 102 tnkkilvttiqsldadseee.....eeeseellrdrfdviiiDEaHrlgakkswreilekfke 159
                              t++++ +++i+ ++++s  +      + +    +++++v++iDE+H l+  ++++++l+ ++e
  PHY93_08815|PHY93_08815  85 TEISMNFIEIDGASNNSVDNireliGNVHYLPTSGKYKVYVIDEVHMLST-NAFNALLKTLEE 146
                              56666777777777766444666666667777888999************.999998877654 PP

  == domain 3  score: -1.3 bits;  conditional E-value: 2.1
                              ......-SEEEEEHHHHHHTH.................... CS
                   ResIII  98 ekdstnkkilvttiqsldadseee................e 122
                              e +++++++ + ++qs  + ++++                +
  PHY93_08815|PHY93_08815 497 EVEKNKIQLQLLNVQSSENFISTAeikeqlaemsmqerveN 537
                              45566666666666666665544444444433333333330 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (563 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       906  (0.0505327); expected 358.6 (0.02)
Passed bias filter:                      553  (0.0308439); expected 358.6 (0.02)
Passed Vit filter:                        84  (0.00468515); expected 17.9 (0.001)
Passed Fwd filter:                        20  (0.00111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              20  [number of targets reported over threshold]
# CPU time: 0.69u 0.26s 00:00:00.95 Elapsed: 00:00:00.41
# Mc/sec: 4110.81
//
Query:       PHY93_08825|PHY93_08825  [L=85]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (85 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       470  (0.0262145); expected 358.6 (0.02)
Passed bias filter:                      291  (0.0162307); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.41
# Mc/sec: 627.88
//
Query:       PHY93_08830|PHY93_08830  [L=163]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (163 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       585  (0.0326287); expected 358.6 (0.02)
Passed bias filter:                      504  (0.0281109); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.19s 00:00:00.63 Elapsed: 00:00:00.37
# Mc/sec: 1318.42
//
Query:       PHY93_08835|PHY93_08835  [L=52]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (52 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       328  (0.0182944); expected 358.6 (0.02)
Passed bias filter:                      235  (0.0131073); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.34u 0.20s 00:00:00.54 Elapsed: 00:00:00.35
# Mc/sec: 446.02
//
Query:       PHY93_08840|PHY93_08840  [L=155]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.3e-30  104.2   0.1    5.2e-30  104.0   0.1    1.1  1  DUF296         Plants and Prokaryotes Conserved (PCC) domain
     0.0091   15.4   0.1      0.018   14.3   0.0    1.5  2  AAL_decarboxy  Alpha-acetolactate decarboxylase


Domain annotation for each model (and alignments):
>> DUF296  Plants and Prokaryotes Conserved (PCC) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  104.0   0.1   5.8e-34   5.2e-30       2     106 ..      31     137 ..      30     138 .. 0.96

  Alignments for each domain:
  == domain 1  score: 104.0 bits;  conditional E-value: 5.8e-34
                              EEEEEE-TTSBHHHHHHHHHHHHT-SSEEEEEEEEEEEEEE.EEECTTT..EE-S-EEEEEEEEEEEETTEEEEEEEEETTSEEEE CS
                   DUF296   2 phvlrlepGediveaieefarkrgiraacvlsaiGavsnvt.rladgee..kllgrfeilslsGtilpdglHlhvslagedgqvvg 84 
                               hvlrl+pGed+  a+e++a++++i+a+++++++G++ +++ r a++++   l+g++ei+sl+Gti+ +g+Hlh +++++dg+++g
  PHY93_08840|PHY93_08840  31 FHVLRLKPGEDLRLALENYAKDKKIKAGSIVTCVGSLLSINlRTANQNKemFLKGPMEIVSLTGTISMNGVHLHLAASDKDGKTIG 116
                              69****************************************999999998778******************************** PP

                              EEEEEE.EEEEEEEEEEEEE-C CS
                   DUF296  85 Ghlaegplvaattvevvvaefe 106
                              Ghl++g ++++tt+e+vvae+e
  PHY93_08840|PHY93_08840 117 GHLVKG-NKVYTTAEIVVAELE 137
                              ****99.999*********987 PP

>> AAL_decarboxy  Alpha-acetolactate decarboxylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0      0.23   2.1e+03     105     127 ..      57      79 ..      25      84 .. 0.60
   2 !   14.3   0.0     2e-06     0.018     160     209 ..      92     146 ..      87     154 .. 0.74

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 0.23
            AAL_decarboxy 105 lfyairidGtfksvkvRsvpkqe 127
                                 ++   G++ s+++R++++++
  PHY93_08840|PHY93_08840  57 AGSIVTCVGSLLSINLRTANQNK 79 
                              34455566777777777776655 PP

  == domain 2  score: 14.3 bits;  conditional E-value: 2e-06
            AAL_decarboxy 160 ylqginvaGlHlHFisddrk...fGGHvldfel..eeveveiakisklelelped 209
                              ++  i+++G+HlH   +d++   +GGH+++ +   + +e+ +a+++ le +  +d
  PHY93_08840|PHY93_08840  92 LTGTISMNGVHLHLAASDKDgktIGGHLVKGNKvyTTAEIVVAELEGLEFKRETD 146
                              56789*********9888643339****998742578888888888777766544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (155 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       509  (0.0283898); expected 358.6 (0.02)
Passed bias filter:                      398  (0.0221987); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.36u 0.22s 00:00:00.57 Elapsed: 00:00:00.35
# Mc/sec: 1327.23
//
Query:       PHY93_16625|PHY93_16625  [L=353]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (353 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       228  (0.0127168); expected 358.6 (0.02)
Passed bias filter:                      106  (0.00591221); expected 358.6 (0.02)
Passed Vit filter:                         6  (0.000334653); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 2604.64
//
Query:       PHY93_08850|PHY93_08850  [L=159]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-29  102.9   0.0    1.3e-29  102.7   0.0    1.0  1  MafB19-deam      MafB19-like deaminase
    5.4e-26   90.4   0.0    7.8e-26   89.9   0.0    1.2  1  dCMP_cyt_deam_1  Cytidine and deoxycytidylate deaminase zinc-
    0.00066   19.8   0.8     0.0011   19.1   0.1    1.6  2  APOBEC3          APOBEC3
    0.00082   19.5   0.1     0.0017   18.4   0.1    1.5  1  SNAD4            Secreted Novel AID/APOBEC-like Deaminase 4
     0.0022   18.0   1.2       0.51   10.4   1.2    2.2  1  Bd3614-deam      Bd3614-like deaminase
  ------ inclusion threshold ------
      0.017   15.2   0.0      0.024   14.7   0.0    1.2  1  APOBEC2          APOBEC2
      0.027   14.5   0.1      0.041   14.0   0.1    1.3  1  NAD1             Novel AID APOBEC clade 1
       0.14   12.3   0.0       0.24   11.6   0.0    1.3  1  Root_cap         Root cap


Domain annotation for each model (and alignments):
>> MafB19-deam  MafB19-like deaminase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  102.7   0.0   5.7e-33   1.3e-29       5     137 ..      11     154 ..       7     155 .. 0.93

  Alignments for each domain:
  == domain 1  score: 102.7 bits;  conditional E-value: 5.7e-33
              MafB19-deam   5 kafrkalaevekatkikedkigaviv.kdkkviargsnekelnakataHaEiaalqqAakklkskrlddatlyvtlepCdmCagai 89 
                                + +al e+eka+ ++e++igav+v   + ++ r +n ke n ++  HaEi a+  Aakkl ++rl ++ lyvtlepC+mC+ a+
  PHY93_08850|PHY93_08850  11 WLMDEALIEAEKAYRQDEVPIGAVVVdSSGTILSRSHNIKEKNYNPCGHAEILAITEAAKKLNNWRLLNCSLYVTLEPCPMCLSAM 96 
                              5689999******************978899******************************************************* PP

              MafB19-deam  90 vqaglkklvygagnpks......lnkLkvkekngrvelv....eddckeilkgffkkl 137
                              +qa++ +l +ga +pk+       n  k ++ n+ + ++    + +c+++l++ff++ 
  PHY93_08850|PHY93_08850  97 IQARIGTLYFGAYDPKGgslslnYNFYKDQKLNHAFPVIgglrHFECSKLLSSFFREK 154
                              *******************99666677778999999999999999**********986 PP

>> dCMP_cyt_deam_1  Cytidine and deoxycytidylate deaminase zinc-binding region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   89.9   0.0   3.5e-29   7.8e-26       6     100 ..      11     107 ..       7     108 .. 0.96

  Alignments for each domain:
  == domain 1  score: 89.9 bits;  conditional E-value: 3.5e-29
                              HHHHHHHHHHHHHHTTTSCSEEEEEEE.TTEEEEEEESBHHCCTGTTB-HHHHHHHHHHHH.TSSCETTEEEEEEE--BHHHHHHH CS
          dCMP_cyt_deam_1   6 kllelalkaakeaqkcsnfkVGavivk.ngeiistgyngepaggsktiHAEvnAilkaakn.ggsklegatlyvtlePCsmCakai 89 
                               l++ al +a++a+ ++++++Gav+v+ +g i+s+ +n ++++++++ HAE++Ai++aak+ ++++l ++ lyvtlePC+mC  a+
  PHY93_08850|PHY93_08850  11 WLMDEALIEAEKAYRQDEVPIGAVVVDsSGTILSRSHNIKEKNYNPCGHAEILAITEAAKKlNNWRLLNCSLYVTLEPCPMCLSAM 96 
                              689**********************************************************88*********************** PP

                              HHHT-SEEEEE CS
          dCMP_cyt_deam_1  90 iqsgikkvvvg 100
                              iq++i ++++g
  PHY93_08850|PHY93_08850  97 IQARIGTLYFG 107
                              ******99987 PP

>> APOBEC3  APOBEC3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.1   4.8e-07    0.0011      28      72 ..      55      98 ..      34     100 .. 0.83
   2 ?   -2.8   0.1       2.9   6.5e+03      65      78 ..     142     155 ..     141     157 .. 0.82

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 4.8e-07
                  APOBEC3 28 kekkHAEerfidkirslnldslkqykitcylswsPcpkCaeelve 72
                             +  +HAE+ +i + ++ +l++ +  +  +y++  Pcp C + +++
  PHY93_08850|PHY93_08850 55 NPCGHAEILAITEAAK-KLNNWRLLNCSLYVTLEPCPMCLSAMIQ 98
                             4568***********9.9*********************998886 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 2.9
                  APOBEC3  65 kCaeelveflkens 78 
                              +C++ l  f++e++
  PHY93_08850|PHY93_08850 142 ECSKLLSSFFREKR 155
                              69999999998875 PP

>> SNAD4  Secreted Novel AID/APOBEC-like Deaminase 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.1   7.7e-07    0.0017      17      62 ..      49      98 ..      35     100 .. 0.79

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 7.7e-07
                    SNAD4 17 lknkke....haEllflekikseldpsqeyrvtwylswsPCaeCaekiae 62
                             +k+k++    haE+l +++  ++l++ +  +  +y++  PC+ C +++++
  PHY93_08850|PHY93_08850 49 IKEKNYnpcgHAEILAITEAAKKLNNWRLLNCSLYVTLEPCPMCLSAMIQ 98
                             2222224568**********99***9999****************99976 PP

>> Bd3614-deam  Bd3614-like deaminase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.4   1.2   0.00023      0.51      77      95 ..      79      97 ..      22     103 .. 0.67

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00023
              Bd3614-deam 77 garllvtlqcCkmCAalvv 95
                             +  l+vtl++C mC + ++
  PHY93_08850|PHY93_08850 79 NCSLYVTLEPCPMCLSAMI 97
                             4679999999999965444 PP

>> APOBEC2  APOBEC2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.0   1.1e-05     0.024      44      90 ..      51      97 ..      20     101 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1.1e-05
                  APOBEC2 44 enkekkc.HaEllflskvkkkkleekkeykvtwyvswsPCaeCaeeva 90
                             e++ + c HaE+l +++  k kl++ +  +  +yv+  PC+ C + + 
  PHY93_08850|PHY93_08850 51 EKNYNPCgHAEILAITEAAK-KLNNWRLLNCSLYVTLEPCPMCLSAMI 97
                             33345558*********999.99999*****************98876 PP

>> NAD1  Novel AID APOBEC clade 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.1   1.8e-05     0.041      45      91 ..      53      98 ..      24     101 .. 0.77

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.8e-05
                     NAD1 45 neskc.HaEllflnkikslklldpsqkykvtwylswSPCseCasklae 91
                             n + c HaE+l + +    k l++ +  +  +y++  PC+ C s +++
  PHY93_08850|PHY93_08850 53 NYNPCgHAEILAITEA--AKKLNNWRLLNCSLYVTLEPCPMCLSAMIQ 98
                             333346****998888..444489999***************999876 PP

>> Root_cap  Root cap
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00011      0.24      22      50 ..     121     149 ..     118     153 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00011
                 Root_cap  22 dYvskvkvgvamPvmGGedkyatsslfst 50 
                              ++ +  k   a Pv+GG ++++ s+l+s+
  PHY93_08850|PHY93_08850 121 NFYKDQKLNHAFPVIGGLRHFECSKLLSS 149
                              56667788999***************985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (159 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       545  (0.0303977); expected 358.6 (0.02)
Passed bias filter:                      490  (0.02733); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1176.36
//
Query:       PHY93_08855|PHY93_08855  [L=237]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (237 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       758  (0.0422779); expected 358.6 (0.02)
Passed bias filter:                      322  (0.0179597); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.38
# Mc/sec: 1885.11
//
Query:       PHY93_08860|PHY93_08860  [L=383]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (383 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       855  (0.0476881); expected 358.6 (0.02)
Passed bias filter:                      384  (0.0214178); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.25s 00:00:00.75 Elapsed: 00:00:00.41
# Mc/sec: 2815.60
//
Query:       PHY93_08865|PHY93_08865  [L=328]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.6e-64  218.3   6.2      2e-64  218.0   6.2    1.0  1  PBP_like_2  PBP superfamily domain
    4.3e-15   56.5  10.3    6.8e-15   55.8  10.3    1.2  1  SBP_bac_1   Bacterial extracellular solute-binding protein
    2.5e-12   46.3   0.3    4.5e-12   45.5   0.3    1.5  1  PBP_like    PBP superfamily domain


Domain annotation for each model (and alignments):
>> PBP_like_2  PBP superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  218.0   6.2   3.3e-68     2e-64      10     281 ..      21     304 ..      17     305 .. 0.89

  Alignments for each domain:
  == domain 1  score: 218.0 bits;  conditional E-value: 3.3e-68
               PBP_like_2  10 geifgaGsttpapalrkladafekaapgakvnyastGSgagikalrngdvdfagsdrplteseia.agwaangaggliqvpvaiga 94 
                              ++i+gaG+t+p+p++ k+   ++k ++++++ny+s GSg+gik++++++vdf+++d+p+t++e+  a      ++++ ++p + ga
  PHY93_08865|PHY93_08865  21 QKINGAGATFPYPIYSKWFSEYQKTHNDVQFNYQSIGSGGGIKQVLAQTVDFGATDAPMTDEELKsA------KTPIRHIPTVLGA 100
                              459***********************************************************99444......699********** PP

               PBP_like_2  95 ialvvnkd...nplnlsreaLakIfsgkItnWnd........vlglpadgpIkvvhrsdgsgttflfstalaeq............ 157
                              +++++n +   ++l+l+ e+L+++f gkIt+Wnd         ++lp +++I vv+rsdgsgtt +fst lae+            
  PHY93_08865|PHY93_08865 101 VVVAFNAKgidTGLKLDGETLSNVFLGKITKWNDaaiaklnpKAKLP-ATDILVVRRSDGSGTTAVFSTFLAEVskewkdkvgagk 185
                              ******6669999****************************766666.***************************99999999999 PP

               PBP_like_2 158 ...gpwtasgigasgsegvasav.snngaigyvsvaywlavkgysladvtngagkfvlptaataasalkvakiasnplawslqpve 239
                                 +p   +giga+g+egv s + +++gaigyv++ay+ ++  +++a+++n+ g fv+++  ++ + ++ +k  s     + ++v 
  PHY93_08865|PHY93_08865 186 ninWP---AGIGAKGNEGVTSMIaQTDGAIGYVELAYAINS-KLATASIKNKKGEFVAASVDSISKSATSVKDVS---GDLRISVI 264
                              85555...479***********9899*************99.999999************777755444444333...33566788 PP

               PBP_like_2 240 eniadgayPlsrftyiivyqpyayhgnnaalakaFldyllsd 281
                              ++ ++g yP+s ft+i+ +++ a +    +++kaFl ++l d
  PHY93_08865|PHY93_08865 265 NADGKGVYPISSFTWILLPENAASA--PLKEVKAFLGWALKD 304
                              8889****************76543..4999*******9875 PP

>> SBP_bac_1  Bacterial extracellular solute-binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.8  10.3   1.1e-18   6.8e-15       7     314 ..      27     307 ..      22     308 .. 0.87

  Alignments for each domain:
  == domain 1  score: 55.8 bits;  conditional E-value: 1.1e-18
                              HHHHHHHHHHH....HHHHHTTEEEEEEEECHHHHHH...HHHHHHHTTSSSCSEEEECGGHHHHHHHT.....TSBECCHHHHHH CS
                SBP_bac_1   7 gaalqalvaka....fekehpgikVeiesvgsgslaq...kltlaiaaGdgpaDviavdndwiarlaka.....glllpldpyvka 80 
                              ga+++++++ +    ++k+h++++++++s+gsg+++    + t++++a+d+p   ++       +l++a       ++ l+++v+a
  PHY93_08865|PHY93_08865  27 GATFPYPIYSKwfseYQKTHNDVQFNYQSIGSGGGIKqvlAQTVDFGATDAP---MTD-----EELKSAktpirHIPTVLGAVVVA 104
                              7788888888877779*********************9************99...666.....34555555566999999999999 PP

                              TTECTTCCTEEEEHHHHTHHHHCEEEESEEEEEEEEEEEETTTHHCTTGGGSHBHHHHHHHHHHHHHHCTCT.HCCHCCEEHHHHH CS
                SBP_bac_1  81 ylapgvkdaadklsssvlpkildskvlyvPlyaargliYNkdlfekagldppwtWdelveaakklkekgkkp.iggarggsasgta 165
                               +a+g  d  +kl++++l +++             g+i+               W++ ++a  ++k+k +++ i ++r++++sgt+
  PHY93_08865|PHY93_08865 105 FNAKG-IDTGLKLDGETLSNVFL------------GKIT--------------KWNDAAIAKLNPKAKLPATdILVVRRSDGSGTT 163
                              88777.66799999*99999999............9999..............********************************* PP

                              HHHHHHHHHHHTGGGEECCCT.................HHCSHHHHS..HHHHHHHHHHHHHHHHHHHTTEEECSSHHHHHHHHHT CS
                SBP_bac_1 166 yyfalalakslggkvfdkdgg.................gldnpegvt..aatylvklyavanltkelkgkgaenkdgaaalalfea 232
                              ++f ++la ++   ++++++g                 g+++ +++t  a++y++ +ya++    +l+ ++  nk+g++++a +  
  PHY93_08865|PHY93_08865 164 AVFSTFLAEVSK--EWKDKVGagkninwpagigakgneGVTSMIAQTdgAIGYVELAYAINS---KLATASIKNKKGEFVAASVD- 243
                              ************..99999999****************999999999***********9999...***************99999. PP

                              TSCSEEEEEHHHHHHHHCEEEEECHHCHHHHTTSTEEEECEEBETTTTSEEEEEEEEEEBTTCST...HHHHHHHHHHHTSHHHH CS
                SBP_bac_1 233 GeaamaivglwaalaamkvapkvafaadkekpkeelgvaplPagkggkpgilgayglaipkgskn...peaAkkFldfllspeaq 314
                                     + +++a ++++v +     ++  + k+ +  ++            ++ +++++  ++     +++k+Fl ++l ++++
  PHY93_08865|PHY93_08865 244 -------SISKSATSVKDVSGDLRISVINADGKGVY--PI------------SSFTWILLPENAAsapLKEVKAFLGWALKDGQK 307
                              .......78888888999999998888888887733..33............9999665555444355666*********99986 PP

>> PBP_like  PBP superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.5   0.3   7.4e-16   4.5e-12       2     149 ..      40     214 ..      39     254 .. 0.75

  Alignments for each domain:
  == domain 1  score: 45.5 bits;  conditional E-value: 7.4e-16
                              HHHHHH-TTCEEEEEES-HHHHHHHHHTTS-SEEEESS---CCCHHCCCCCEEEEEEEEEEE..E-CC-HCHCCCCHCCHHH.... CS
                 PBP_like   2 eelaeknpgvrvavanvGsggGlkalrageadiagshlldketeeynapalrkaldgievvl..vnlarreqglvvakgnpk.... 81 
                              +e+++++++v+++++ +GsggG+k++ a+++d ++++ + +++e   ++ +++ + +i++vl  v +a  + g+ +  + +     
  PHY93_08865|PHY93_08865  40 SEYQKTHNDVQFNYQSIGSGGGIKQVLAQTVDFGATDAPMTDEE---LKSAKTPIRHIPTVLgaVVVAFNAKGIDTGLKLDGetls 122
                              589************************************99664...444445566666666336667777777666655555556 PP

                              .....S--BGGGC...........-S-B-EEEEE-TTSHHHHHHHHHHC-CEECT............E-SSTTSEEESSHHHHHCC CS
                 PBP_like  82 .....kitnwkdl...........adaplrlvnRetGSGtrdlfdellkkegisk............ssikgyaqearshlavaaa 139
                                   kit+w+d            +  ++ +v R  GSGt  +f + l++   sk            + + g    a+ +  v ++
  PHY93_08865|PHY93_08865 123 nvflgKITKWNDAaiaklnpkaklPATDILVVRRSDGSGTTAVFSTFLAEV--SKewkdkvgagkniNWPAG--IGAKGNEGVTSM 204
                              66666699999987777666655566**********************774..5556677777755444444..579999999*** PP

                              HCCETTCCEC CS
                 PBP_like 140 Vaagradvgv 149
                              +a++++++g+
  PHY93_08865|PHY93_08865 205 IAQTDGAIGY 214
                              ***9999995 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (328 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       486  (0.0271069); expected 358.6 (0.02)
Passed bias filter:                      409  (0.0228122); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.38
# Mc/sec: 2571.54
//
Query:       PHY93_08870|PHY93_08870  [L=242]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.5e-37  128.0  20.3    5.3e-37  127.7  20.3    1.0  1  TauE      Sulfite exporter TauE/SafE


Domain annotation for each model (and alignments):
>> TauE  Sulfite exporter TauE/SafE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  127.7  20.3   2.9e-41   5.3e-37       3     236 .]       8     241 ..       6     241 .. 0.88

  Alignments for each domain:
  == domain 1  score: 127.7 bits;  conditional E-value: 2.9e-41
                     TauE   3 lagllaGfvagllGiGggliavPlLll.llppavavatsllavvatslsgalahrrrgnvdwrlllllllgsliGallGallllll 87 
                              ++g+l+G+v++++G Gggli++P L + + p a+a++t+ ++  +++l++++ + ++g+++w+ +l ++l+ + G+++G+ l+  +
  PHY93_08870|PHY93_08870   8 FMGFLTGLVDSIVG-GGGLISLPTLSIaIAPGAHAIGTNKIVGSTGALIALIVYAKKGHLRWKEGLSFCLVCAGGSFFGSSLAPFV 92 
                              78************.************5578888**************************************************** PP

                     TauE  88 psellkllfgvlllllallmllrkkr.srakgrerrptaillvliggl.vGllsGllGiGgGfllvpllllllglplkkavatsll 171
                              p+++++ l+ v+   ++l++++++ r  ++++   +p +  ++++ ++  G+++G++G GgG+++   l l +g+pl  ++a s +
  PHY93_08870|PHY93_08870  93 PKDFFRYLLLVM-CPVILYIVWNRDRfFKEREDFVKPHYF-IFFLSAFsSGFYDGFFGPGGGTFMFLGLFLGTGYPLLPSIAISKM 176
                              ****88777655.566666666555543333334555555.45555677************************************* PP

                     TauE 172 lilvislagalgyalagavdwpllllllpgallGallGarlarrlsertlrrlfallllvlgvkl 236
                              ++++++ +++++y  +g+v+w+ ++++  g+++G+++Ga  a++  ++ +r ++ l++++l +kl
  PHY93_08870|PHY93_08870 177 ANTFSATTALMTYSHNGYVHWKEGFIMSTGMVVGSFIGATYATKNITKIIRPMLTLIVVLLMLKL 241
                              *************99*************************999988889*********9999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (242 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       630  (0.0351386); expected 358.6 (0.02)
Passed bias filter:                      314  (0.0175135); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.20s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1790.78
//
Query:       PHY93_08875|PHY93_08875  [L=422]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.7e-50  170.1   0.0    1.5e-49  168.2   0.0    1.9  2  DEAD           DEAD/DEAH box helicase
    5.3e-30  104.0   0.1    1.3e-28   99.6   0.2    2.3  2  Helicase_C     Helicase conserved C-terminal domain
    1.2e-07   31.9   0.0    2.2e-07   31.0   0.0    1.4  1  ResIII         Type III restriction enzyme, res subunit
    0.00013   20.9   0.0      0.025   13.4   0.0    3.0  3  UTP25          Utp25, U3 small nucleolar RNA-associated SSU p
     0.0016   18.2   0.0       0.01   15.6   0.0    2.0  2  AAA_30         AAA domain
     0.0018   18.6   0.1      0.018   15.4   0.0    2.1  2  AAA_19         AAA domain
     0.0034   17.7   0.7      0.023   14.9   0.1    2.5  2  AAA_22         AAA domain
  ------ inclusion threshold ------
      0.026   13.8   0.1      0.042   13.1   0.1    1.3  1  ERCC3_RAD25_C  ERCC3/RAD25/XPB C-terminal helicase
      0.036   13.4   0.1       0.18   11.1   0.0    2.0  2  CMS1           U3-containing 90S pre-ribosomal complex subuni


Domain annotation for each model (and alignments):
>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  168.2   0.0   7.4e-53   1.5e-49       1     176 []      32     203 ..      32     203 .. 0.96
   2 ?   -0.8   0.0      0.58   1.1e+03     153     170 ..     246     262 ..     219     309 .. 0.62

  Alignments for each domain:
  == domain 1  score: 168.2 bits;  conditional E-value: 7.4e-53
                              -HHHHHHHHHHHTTCEEEEEESTTSSHHHHHHHHHHHHHHHS...TTSTS-EEEEEESSHHHHHHHHHHHHHHTTTSTSEEEEEET CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD   1 tdiQaeaiplilgggdvlvaaeTGsGKTlaflipvlqivyet...kgktgpkalivePtreLaeqtlnnlkkfkkyidlrvlliig 83 
                              t+iQaeaip +l+g+d+l++a+TG+GKT+af++p+l++++e+      +++++l+++PtreLa q+++ + +++k+++l++ +++g
  PHY93_08875|PHY93_08875  32 TPIQAEAIPSLLEGKDLLGCAQTGTGKTAAFALPILHRLVESnkkALPKHTRVLLLTPTRELAIQVHESFATYGKNLHLKYAVVYG 117
                              89**************************************99876577889*********************************** PP

                              TSSHHHHHHHHHTTCSEEEEEHHHHHHHHHCTSSHCTTEEEEEEETHHHHHHTTTHHHHHHHHHHSHHHCTTSTTTSEEEEEESSB CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  84 gvaardqlskldngvdivvgtpgrlddllstgklnlsqvrflVlDEadrlldqgfsdfinrilnqlpqitcdgklqrqvivlSATl 169
                              gv ++ q+++l++gvd++v+tpgrl+dl+++g ++l  ++++VlDEadr+ld+gf  +i+++l+ l       + +r+ +++SAT+
  PHY93_08875|PHY93_08875 118 GVGQTPQVKALSHGVDVLVATPGRLMDLIEQGFIKLTGLEVFVLDEADRMLDMGFIHDIKKVLKLL-------PPKRHNLFFSATM 196
                              ***********999****************************************************.......556779******* PP

                              SHHHHHH CS
                              xxxxxxx RF
                     DEAD 170 pkdvkkl 176
                              p d++kl
  PHY93_08875|PHY93_08875 197 PPDIEKL 203
                              ***9986 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 0.58
                              CTTSTTTSEEEEEESSBS CS
                              xxxxxxxxxxxxxxxxxx RF
                     DEAD 153 tcdgklqrqvivlSATlp 170
                               +d kl+ +viv+S T +
  PHY93_08875|PHY93_08875 246 LQDPKLK-RVIVFSRTKH 262
                              3333322.3555554444 PP

>> Helicase_C  Helicase conserved C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   0.0      0.14   2.8e+02      15      73 ..      80     138 ..      64     146 .. 0.72
   2 !   99.6   0.2   6.5e-32   1.3e-28      10     111 .]     246     346 ..     237     346 .. 0.91

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.14
                              TTSEEEEEESSHH...HHHHHHHH...HHHTTSTEEEESTTSTHHHHHHHHHHHHTTSSSEEEES CS
               Helicase_C  15 eggkilifvntid...rlekvkll...lekkgikvavlhgelpqnereeileqfnkgesdvLiat 73 
                              ++ ++l+ ++t++   ++   + +    ++ ++k+av++g   q  + ++l+      +dvL+at
  PHY93_08875|PHY93_08875  80 KHTRVLLLTPTRElaiQV--HESFatyGKNLHLKYAVVYGGVGQTPQVKALSHG----VDVLVAT 138
                              667889999999974333..344422233449*********9999999988776....6777776 PP

  == domain 2  score: 99.6 bits;  conditional E-value: 6.5e-32
                              HHHTTTTSEEEEEESSHHHHHH.HHHHHHHTTSTEEEESTTSTHHHHHHHHHHHHTTSSSEEEESGGGTSSSTSTTESEEEESSSS CS
               Helicase_C  10 lkleeeggkilifvntidrlek.vklllekkgikvavlhgelpqnereeileqfnkgesdvLiatdvaerGidipkvnlVinfdlp 94 
                              l +  + +++++f++t+  ++k v++l  + gi + ++hg+ +q+ r+++le+f++g+++vLiatd+a+rGidi+++++Vin+dlp
  PHY93_08875|PHY93_08875 246 L-QDPKLKRVIVFSRTKHGANKiVDYL-GTAGIIAEAIHGNKSQSARQRALENFRSGQTRVLIATDIAARGIDIDEISHVINYDLP 329
                              4.5566799*********998878888.6779****************************************************** PP

                              SSHHHHHHHHTTSSSTT CS
               Helicase_C  95 rnvtsyiqriGRtgRag 111
                               + +sy++riGRt+Rag
  PHY93_08875|PHY93_08875 330 NESESYVHRIGRTARAG 346
                              ***************97 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.0   0.0   1.1e-10   2.2e-07      28     169 ..      49     196 ..      29     198 .. 0.80

  Alignments for each domain:
  == domain 1  score: 31.0 bits;  conditional E-value: 1.1e-10
                              EEEESTTSTHHHHH.HHHHHHH-S..........-EEEEESSHHHHHHHHHHGGGGTGG....GEEEESSS-B--........-SE CS
                   ResIII  28 likmaTGtGKTlva.aklierllkkgkee.....kflflvprkslleqtleefkkflseaykeigkkvsgdkkka.kekdstnkki 106
                              l  + TGtGKT    + +  rl +++k+      ++l+l p+++l  q  e f+ + ++ + +   ++ g ++++  +  s+  ++
  PHY93_08875|PHY93_08875  49 LGCAQTGTGKTAAFaLPILHRLVESNKKAlpkhtRVLLLTPTRELAIQVHESFATYGKNLHLKYAVVYGGVGQTPqVKALSHGVDV 134
                              44568*******99677888888887776*******************************9996666666666664456899**** PP

                              EEEEHHHHHHTH........HHHTTT-SEEEEETGGGTTS....TTTHHHHHT---.SEEEEEESS- CS
                   ResIII 107 lvttiqsldadseeeeeeseellrdrfdviiiDEaHrlgak...kswreilekfke.avllglTATp 169
                              lv+t  +l   +     e+   + +  +v++ DEa r+ ++   + ++++l+ +++    l ++AT+
  PHY93_08875|PHY93_08875 135 LVATPGRLMDLI-----EQGFIKLTGLEVFVLDEADRMLDMgfiHDIKKVLKLLPPkRHNLFFSATM 196
                              ************.....66666667777************966557777788875537889999997 PP

>> UTP25  Utp25, U3 small nucleolar RNA-associated SSU processome protein 25
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   0.0     0.086   1.7e+02      75      95 ..      81     101 ..      75     108 .. 0.86
   2 ?    2.3   0.0     0.028        56     163     231 ..     133     193 ..     126     208 .. 0.74
   3 !   13.4   0.0   1.2e-05     0.025     335     417 ..     256     336 ..     239     355 .. 0.84

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.086
                    UTP25  75 rpkvLillptreaalevvell 95 
                               ++vL+l ptre a++v e++
  PHY93_08875|PHY93_08875  81 HTRVLLLTPTRELAIQVHESF 101
                              579************997766 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.028
                    UTP25 163 diiiaSPlglrliieeedkkkrdtdfLsSiEvlivdqadvlemQnwehvetvlkhlnkipkeshdadfs 231
                              d+++a P  l+ +ie      + +  L  +Ev+++d+ad +   ++  ++ + k l ++p + h+  fs
  PHY93_08875|PHY93_08875 133 DVLVATPGRLMDLIE------QGFIKLTGLEVFVLDEADRML--DMGFIHDIKKVLKLLPPKRHNLFFS 193
                              778888888888777......45666899**********764..5566666666677777777776665 PP

  == domain 3  score: 13.4 bits;  conditional E-value: 1.2e-05
                    UTP25 335 iyipsyfdfvrvrnylkeekvsfaaiseysskkevsraRelFfkgkkkvlLyteRlhffrRykikgvkkvilYklPenpefys 417
                              ++  +     ++ +yl ++ +   ai+  +s++  +ra e F +g+++vl+ t+ +   r  +i ++++vi Y+lP+++e y 
  PHY93_08875|PHY93_08875 256 VFSRTKHGANKIVDYLGTAGIIAEAIHGNKSQSARQRALENFRSGQTRVLIATDIAA--RGIDIDEISHVINYDLPNESESYV 336
                              55555555567889999999999*******************************885..99****************999885 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   5.1e-06      0.01       6      97 ..      35     164 ..      31     188 .. 0.73
   2 ?   -0.2   0.0      0.36   7.1e+02      47      82 ..     252     300 ..     239     332 .. 0.63

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 5.1e-06
                   AAA_30   6 QaaavealltsgdrvavltGpAGtGKtta..lkalreaweaag......grviglAptgkaAkvLaeelgieastiakllkrlk.. 81 
                              Qa+a+ +ll+++d   +  +  GtGKt a  l  l +++e+++       rv++l+pt + A ++ e++ + +++++         
  PHY93_08875|PHY93_08875  35 QAEAIPSLLEGKD--LLGCAQTGTGKTAAfaLPILHRLVESNKkalpkhTRVLLLTPTRELAIQVHESFATYGKNLHLKYA-VVyg 117
                              99*********99..6777889*****7611556799999996699*********************99987777773332.2235 PP

                   AAA_30  82 ...............................grarlepgtllivDEa 97 
                                                             g  +l+  ++++ DEa
  PHY93_08875|PHY93_08875 118 gvgqtpqvkalshgvdvlvatpgrlmdlieqGFIKLTGLEVFVLDEA 164
                              56666655555555666666666777666665555666677777776 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.36
                   AAA_30  47 grviglAptgkaAkvLaeelgieastiakllkrlk..............g 82 
                              +rvi+++ t+  A+++ + lg +a  ia+ ++ +k              g
  PHY93_08875|PHY93_08875 252 KRVIVFSRTKHGANKIVDYLG-TAGIIAEAIHGNKsqsarqralenfrsG 300
                              789999999999999887776.4555555555555444466555444440 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   9.1e-06     0.018       1      69 [.      35     120 ..      35     194 .. 0.61
   2 ?    1.0   0.0      0.25   4.9e+02      41      92 ..     250     298 ..     216     337 .. 0.67

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 9.1e-06
                   AAA_19   1 qreave.alkekvllvtaGpGtGKTrvlkhivallvelggvkp....eeillvaftgrAakelrerlaalgae............a 69 
                              q ea+   l+ k ll  a  GtGKT      + + + + + k+     ++ll+++t+  a +++e+ a++g++             
  PHY93_08875|PHY93_08875  35 QAEAIPsLLEGKDLLGCAQTGTGKTAAFALPILHRLVESNKKAlpkhTRVLLLTPTRELAIQVHESFATYGKNlhlkyavvyggvG 120
                              6778855888888888999******98876665555554444456779******************97777765555544444441 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.25
                   AAA_19  41 kpeeillvaftgrAakelrerlaalgaeatTiHrlalldfddlltealelle 92 
                              k++++++ + t++ a+++ + l ++g  a+ iH+    + ++  + ale ++
  PHY93_08875|PHY93_08875 250 KLKRVIVFSRTKHGANKIVDYLGTAGIIAEAIHGN---KSQSARQRALENFR 298
                              34899999999999999999998888889999977...33333333344334 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.1   1.2e-05     0.023      11     135 ..      51     202 ..      48     204 .. 0.72
   2 ?   -0.9   0.0       0.9   1.8e+03      71      95 ..     282     305 ..     209     335 .. 0.57

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 1.2e-05
                   AAA_22  11 tGesGtGKTtllrr.lleqldeeakaee.erpevvfvtlpsst..sskdllrellralglelka....................er 72 
                              ++++GtGKT   +  +l++l+e +k +  ++ +v++ t++ +      + +    ++l+l+                         
  PHY93_08875|PHY93_08875  51 CAQTGTGKTAAFALpILHRLVESNKKALpKHTRVLLLTPTRELaiQVHESFATYGKNLHLKYAVvyggvgqtpqvkalshgvdvLV 136
                              78999999998765255555555444447777777666666665656666666666666543337777887777888888888877 PP

                   AAA_22  73 lsseellealeqalraravielliiDEaqh.lrseealeeLrsllnl...srkgvqliLvGtpelrk 135
                              ++  +l++++eq + +    e++++DEa++ l  +  + ++++ l+l   +r+++ +     p+++k
  PHY93_08875|PHY93_08875 137 ATPGRLMDLIEQGFIKLTGLEVFVLDEADRmL-DMGFIHDIKKVLKLlppKRHNLFFSATMPPDIEK 202
                              88888888888888887778**********77.8999999988888888888888888888888876 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.9
                   AAA_22  71 erlsseellealeqalraraviell 95 
                               +++s+  +++  +++r+ ++ ++l
  PHY93_08875|PHY93_08875 282 HGNKSQSARQRALENFRSGQT-RVL 305
                              334555555555555555555.333 PP

>> ERCC3_RAD25_C  ERCC3/RAD25/XPB C-terminal helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.1   2.1e-05     0.042      62     151 ..     253     345 ..     224     358 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 2.1e-05
            ERCC3_RAD25_C  62 kiivfsDnvfaLkeyakklk.....kpyiyGetseaerlkilqkfkknpkvntiflskvgDtsiDlPeanvliqisshfgsrrqea 142
                              ++ivfs   +  +++   l       + i+G+ s++ r++ l++f++  ++++++   ++   iD+ e + +i  +    s     
  PHY93_08875|PHY93_08875 253 RVIVFSRTKHGANKIVDYLGtagiiAEAIHGNKSQSARQRALENFRSG-QTRVLIATDIAARGIDIDEISHVINYDLPNESES-YV 336
                              677777777777766665551111146799***************987.67899999**************999888777754.56 PP

            ERCC3_RAD25_C 143 qrlGriLra 151
                               r+Gr  ra
  PHY93_08875|PHY93_08875 337 HRIGRTARA 345
                              788888777 PP

>> CMS1  U3-containing 90S pre-ribosomal complex subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   8.9e-05      0.18     178     210 ..     132     164 ..     123     183 .. 0.85
   2 ?   -0.9   0.0      0.42   8.5e+02      84     121 ..     222     259 ..     208     283 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 8.9e-05
                     CMS1 178 igiavGtpgRildLleeeslsvdeLkrivlDas 210
                              + + v tpgR++dL+e++ +++  L+  vlD +
  PHY93_08875|PHY93_08875 132 VDVLVATPGRLMDLIEQGFIKLTGLEVFVLDEA 164
                              567799************************976 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.42
                     CMS1  84 sasaikDttsftkPrtldnlpdyleelsefakklvksa 121
                               a  i  t++f +  +++ l +++ + +++++ +v s 
  PHY93_08875|PHY93_08875 222 TAELISQTVMFVDRENKRPLLKHILQDPKLKRVIVFSR 259
                              67778889999999999999888888888885444433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (422 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       481  (0.026828); expected 358.6 (0.02)
Passed bias filter:                      460  (0.0256568); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.41
# Mc/sec: 3088.78
//
Query:       PHY93_08880|PHY93_08880  [L=108]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.8e-23   82.2   0.0    2.2e-23   81.9   0.0    1.1  1  RRM_1       RNA recognition motif. (a.k.a. RRM, RBD, or RNP d
  ------ inclusion threshold ------
       0.13   12.3   0.1       0.29   11.2   0.1    1.5  1  Limkain-b1  Limkain b1


Domain annotation for each model (and alignments):
>> RRM_1  RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   81.9   0.0   2.4e-27   2.2e-23       1      69 [.       5      74 ..       5      75 .. 0.98

  Alignments for each domain:
  == domain 1  score: 81.9 bits;  conditional E-value: 2.4e-27
                             EEEESETTTSSHHHHHHHHHTTSCEEEEEEEEE.TTTSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEE CS
                    RRM_1  1 lfVgnLppdvteeeLkelFskfGpiksiklvrd.etgkskgfafVeFeskedAekAlealngkklggrel 69
                             l+VgnLp++++++ L++ Fs++G + s+k+++d  tg+skgf+f+e+ s+e+Ae+A++++ng+ ++gr +
  PHY93_08880|PHY93_08880  5 LYVGNLPYSANDQLLRDKFSEVGTVDSAKVITDrDTGRSKGFGFIEMSSEEEAEEAISKFNGTDYDGRAM 74
                             8******************************************************************986 PP

>> Limkain-b1  Limkain b1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.1   3.3e-05      0.29       5      81 ..       5      83 ..       3      89 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 3.3e-05
               Limkain-b1  5 lvvsnLPtnrdklkkaiknrLrrLsdncGGkvl.....sisgksavlrfanqeaaeralkrleneDvfGnritvsekprnke 81
                             l+v nLP + +   + ++++++ +      kv+     + s++   + ++++e ae a+ ++++ D  G  +tvse  ++  
  PHY93_08880|PHY93_08880  5 LYVGNLPYSAN--DQLLRDKFSEVGTVDSAKVItdrdtGRSKGFGFIEMSSEEEAEEAISKFNGTDYDGRAMTVSEA-KPMT 83
                             67888888777..6777777777777666676511111345556678899*************************97.5544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (108 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       356  (0.0198561); expected 358.6 (0.02)
Passed bias filter:                      285  (0.015896); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.39u 0.23s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 840.13
//
Query:       PHY93_08885|PHY93_08885  [L=428]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.6e-59  198.9   0.0    9.7e-59  198.1   0.0    1.4  1  Guanylate_cyc  Adenylate and Guanylate cyclase catalytic doma
      2e-09   37.6   0.0    3.5e-09   36.9   0.0    1.4  1  HAMP           HAMP domain
    0.00023   20.7   0.0    0.00051   19.6   0.0    1.5  1  HNOBA          Heme NO binding associated
  ------ inclusion threshold ------
      0.066   12.4   7.6       0.16   11.1   2.1    2.2  2  DUF2232        Predicted membrane protein (DUF2232)
        1.6    8.9   6.6         13    5.9   1.2    2.4  2  DHHC           DHHC palmitoyltransferase
        1.6    9.1   9.6        5.1    7.5   2.0    2.7  2  Sigma_reg_N    Sigma factor regulator N-terminal


Domain annotation for each model (and alignments):
>> Guanylate_cyc  Adenylate and Guanylate cyclase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  198.1   0.0   3.2e-62   9.7e-59       4     179 ..     253     427 ..     251     428 .] 0.98

  Alignments for each domain:
  == domain 1  score: 198.1 bits;  conditional E-value: 3.2e-62
            Guanylate_cyc   4 esydevtilFadIvgftalssahspievvklLnelyarfdelldekkvykvktiGdaymvvsglpeekaahaaklaelaLdmleal 89 
                               sy +v+ilFad+vgft+lss+ +++++v++Lne++++fd l+++++++k+ktiGd+ym++s+lp+++ + a +++++a +m+  l
  PHY93_08885|PHY93_08885 253 DSYPDVSILFADLVGFTELSSKLDAHQLVEVLNEIFTQFDLLCEKYNIEKIKTIGDCYMAASNLPNPDSNSALNIVKMAKEMIVIL 338
                              6899********************************************************************************** PP

            Guanylate_cyc  90 eevaveskeglkvrvGihtGpvvagviGakkprydvwGntvnlAsrmestgkagkiqvseetyellkeeqfeltergevevkGkgk 175
                              + ++++ + +l++r+Gi+tG+vvagviG++k+ yd+wG++vnlAsr+es+g +gkiq+se+t el k ++f +++rg ++vkGkg+
  PHY93_08885|PHY93_08885 339 SGIEEKYHFNLQIRIGINTGRVVAGVIGKSKFIYDLWGDAVNLASRLESHGMPGKIQISESTFELVK-NKFAFEDRGLIKVKGKGD 423
                              ******99***********************************************************.*****************9 PP

            Guanylate_cyc 176 lety 179
                              + +y
  PHY93_08885|PHY93_08885 424 QRAY 427
                              9988 PP

>> HAMP  HAMP domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.9   0.0   1.2e-12   3.5e-09       5      52 ..     175     222 ..     171     223 .. 0.94

  Alignments for each domain:
  == domain 1  score: 36.9 bits;  conditional E-value: 1.2e-12
                              TTHHHHHHHHHHHHHHTTTBTSSTCCTTSSSHHHHHHHHHHHHHHHHH CS
                     HAMP   5 rilrPLrrLaraarriaaGdldtrlpvsgrDEiGeLarafNaMldrLr 52 
                               ++rP+ +L   ++++a+Gd+++ +++sg+ Ei  La++f  M+d+++
  PHY93_08885|PHY93_08885 175 LLSRPIVKLQNIMNKVAEGDFNYNVEISGNKEISNLAHSFHFMMDEIQ 222
                              689******************************************997 PP

>> HNOBA  Heme NO binding associated
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   0.0   1.7e-07   0.00051     185     221 .]     208     244 ..     195     244 .. 0.84

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 1.7e-07
                    HNOBA 185 eeksaeLeesmkeleeekkrtdeLLysmiPkevAerL 221
                               + ++  + +m e+++e+k++++LL +++Pk +A+rL
  PHY93_08885|PHY93_08885 208 SNLAHSFHFMMDEIQSERKKSESLLLNILPKAIANRL 244
                              5556667779*************************98 PP

>> DUF2232  Predicted membrane protein (DUF2232)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   2.1   5.4e-05      0.16      78     151 ..       1      74 [.       1      79 [. 0.93
   2 ?    4.4   0.3    0.0059        18      79     138 ..     144     207 ..     138     241 .. 0.58

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 5.4e-05
                  DUF2232  78 lkkkksaertliagtlafllgillafallalllgvnllaqvekeikesveealklyeeaGmsedelkelqklle 151
                              lk++ s+ + + ++ ++f++ +++ f+++++ ++ ++++   ++ ++sv e++k+  e G++++  +++qk+++
  PHY93_08885|PHY93_08885   1 LKNRISIVHQIFIVFITFTALLTMSFYFYFTKTQKEIFENQFNQKNKSVLETVKIGLEIGLQNENFEAIQKIFD 74 
                              58888999999**************************************************8888899999886 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.0059
                  DUF2232  79 kkkksae..rtliagtlafllgillafallalllg..vnllaqvekeikesveealklyeeaGm 138
                              k+kk+++  +++i +   f+++il  +++++ll+   v+l + ++k ++  ++  +++  ++++
  PHY93_08885|PHY93_08885 144 KNKKEIFlkDVFISSLFLFVIVILGSVFISILLSRpiVKLQNIMNKVAEGDFNYNVEISGNKEI 207
                              5555554225677777777777777777777777777555555555555555555555555554 PP

>> DHHC  DHHC palmitoyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.9   1.2    0.0043        13      48      88 ..       9      49 ..       8      73 .. 0.75
   2 ?    5.4   0.4     0.006        18      68     122 ..     134     187 ..     114     196 .. 0.58

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.0043
                     DHHC 48 ykyFllfllylllllilalvlllialvklveeekkseflav 88
                             +++F++f+ +++ll++ + + +  +  +++e++ ++++  v
  PHY93_08885|PHY93_08885  9 HQIFIVFITFTALLTMSFYFYFTKTQKEIFENQFNQKNKSV 49
                             78999999999998887777776666666666666665544 PP

  == domain 2  score: 5.4 bits;  conditional E-value: 0.006
                     DHHC  68 lllialvklveeekkseflavtllkkllsilllvlsllfllllgllllf...hlylil 122
                              +++ + +k ++++k+ +   v++     s++l+v+ +l  +++++ll +   +l +i+
  PHY93_08885|PHY93_08885 134 IYINFSTKSYKNKKEIFLKDVFIS----SLFLFVIVILGSVFISILLSRpivKLQNIM 187
                              444444445555555555555444....466666666666666666554222555555 PP

>> Sigma_reg_N  Sigma factor regulator N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   2.0    0.0017       5.1      10      49 ..       2      42 ..       1      54 [. 0.72
   2 ?    5.3   1.0    0.0078        23       6      36 ..     144     175 ..     143     202 .. 0.72

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0017
              Sigma_reg_N 10 ksilrivlislivlllifvil.vvtllylaekegnkl.revl 49
                             k++++iv  ++iv+++++++l ++ + y+ +k ++++ ++++
  PHY93_08885|PHY93_08885  2 KNRISIVHQIFIVFITFTALLtMSFYFYF-TKTQKEIfENQF 42
                             7899*****************55555555.444444415544 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.0078
              Sigma_reg_N   6 kakrksilrivlislivlllifvil.vvtlly 36 
                              k k+ ++l+ v+is ++l++i+++  v++   
  PHY93_08885|PHY93_08885 144 KNKKEIFLKDVFISSLFLFVIVILGsVFISIL 175
                              789999***9*999999999999986544433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (428 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1412  (0.0787551); expected 358.6 (0.02)
Passed bias filter:                      694  (0.0387082); expected 358.6 (0.02)
Passed Vit filter:                        65  (0.00362541); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.62u 0.26s 00:00:00.88 Elapsed: 00:00:00.44
# Mc/sec: 2930.17
//
Query:       PHY93_08890|PHY93_08890  [L=136]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    0.00026   20.8   0.0    0.00033   20.4   0.0    1.0  1  PBP_like_2  PBP superfamily domain
  ------ inclusion threshold ------
        0.2   11.2   0.0       0.26   10.8   0.0    1.1  1  DUF1403     Protein of unknown function (DUF1403)


Domain annotation for each model (and alignments):
>> PBP_like_2  PBP superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.4   0.0   3.6e-08   0.00033      93     187 ..      17     121 ..      15     131 .. 0.80

  Alignments for each domain:
  == domain 1  score: 20.4 bits;  conditional E-value: 3.6e-08
               PBP_like_2  93 gaialvvnkdnpln.lsreaLakIfsgkItnWndvlglpadgpIkvvhrsdgsgttflfstalaeq..................gp 159
                              ++ +++vnk+n  + ls+  L++If g+   W d      + pI++v  + +s  +  f++ +  +                    
  PHY93_08890|PHY93_08890  17 SGYIIIVNKKNQTQsLSASHLKDIFLGENLRWED------NIPIHIVDYNSNSLLRKSFTEEVIGVsisrvyktwirlslagnsT- 95 
                              57899***9999999*******************......99************9999999999997777775555554443331. PP

               PBP_like_2 160 wtasgigasg.......segvasavsnngaigyvs 187
                                               +e v+ +++ + aigy++
  PHY93_08890|PHY93_08890  96 ---------PpkilrteEEVVDFVSNDPFAIGYID 121
                              .........033444436777777666******97 PP

>> DUF1403  Protein of unknown function (DUF1403)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   2.9e-05      0.26     163     202 ..      25      64 ..      12      76 .. 0.77

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 2.9e-05
                  DUF1403 163 alredaevlalwladlvLAqrLgWaravPllaaelakpal 202
                                ++++ + a  l d+ L ++L+W+  +P+ + +    +l
  PHY93_08890|PHY93_08890  25 KKNQTQSLSASHLKDIFLGENLRWEDNIPIHIVDYNSNSL 64 
                              4455788999********************9988766554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (136 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       392  (0.021864); expected 358.6 (0.02)
Passed bias filter:                      278  (0.0155056); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.27s 00:00:00.75 Elapsed: 00:00:00.47
# Mc/sec: 871.00
//
Query:       PHY93_16630|PHY93_16630  [L=283]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.5e-88  294.2   0.0    8.8e-88  294.0   0.0    1.0  1  Pantoate_ligase  Pantoate-beta-alanine ligase


Domain annotation for each model (and alignments):
>> Pantoate_ligase  Pantoate-beta-alanine ligase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  294.0   0.0   4.9e-92   8.8e-88       2     265 ..       4     280 ..       3     281 .. 0.91

  Alignments for each domain:
  == domain 1  score: 294.0 bits;  conditional E-value: 4.9e-92
                              EEESHHHHHHHHHHHHHTT-EEEEEEE-SS-GHHHHHHHHHHHHHSSEEEEEEEEEGGGSSTTSCTTTSEEEHHHHHHHHHHTT-S CS
          Pantoate_ligase   2 iiktvaelrellkelrkegkkvglVpTmGaLHeGHlsLvkaakeendvvvvSiFvNplqFgpkedlekYPrtleaDlelleeagvd 87 
                              +++t ++++++ ++l   ++++g+VpTmG+LHeGH+sL+k++ +en++ v++iFvNp qFgp+ed++kYPrtl+aDl++++++  +
  PHY93_16630|PHY93_16630   4 VFTTQNDFEKYRTDL--GHDSIGIVPTMGNLHEGHISLLKQSIAENTISVITIFVNPKQFGPTEDFDKYPRTLDADLAKISNLALH 87 
                              778888888885554..3457*************************************************************9999 PP

                              ..........EEE--.-HHHHST....EEEEECSGGCSTHHHHSTTHHHHHHHHHHHHHHHHT-SEEEEEGGGHHHHHHHHHHHHH CS
          Pantoate_ligase  88 ..........lvFaP.sveemyp....ttvevkelsevlegasrpghFrGVatvvtkLfnivqpdrayfGqKDaqqlavirrlvkd 158
                                        +vFaP s ee+yp    t ++vk+++++leg+ rp hF+GV+tvv +Lf+i+ +++ayfGqKD+qq++v++++v d
  PHY93_16630|PHY93_16630  88 lisandkkeiVVFAPkSNEEIYPkgfnTVISVKQVTQKLEGKIRPDHFDGVTTVVYRLFKIIGAKHAYFGQKDYQQCVVLKKMVYD 173
                              999************446789999*999999******************************************************* PP

                              TT-SSEEEEEEEEBETTSEBTTGGGGGS-HHHHHHTTHHHHHHHHHHBHHHHHHHHHHHHHTHTTE.EEEEEEEEETTTSS..BSS CS
          Pantoate_ligase 159 lnlpveivavpivReedgLAlSSRNkyLseeerkaAlvlykaLkaakeaealkeaakeeleeeele.kadyveivdaetleelele 243
                              l+l ++++++pi+R+++gLAlSSRN+ Ls+eer++Al+l k+Lk+++   + k++ k+ +++e ++ k dy+e+ dae+le  +++
  PHY93_16630|PHY93_16630 174 LSLGIKMKILPIIRNSEGLALSSRNQFLSTEERTTALHLPKTLKHIEMLIKNKADYKSLIATELTNdKWDYLEVLDAENLEG-PNT 258
                              ***********************************************4444445555655555544245***********88.767 PP

                              B.SEEEEEEEEEETTEEEEEEE CS
          Pantoate_ligase 244 eekkavllvaakvgkvrLiDni 265
                              ++ ++v++ a+++g++rL+Dni
  PHY93_16630|PHY93_16630 259 NTVEVVVIGAYRLGTTRLLDNI 280
                              7788*****************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (283 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       449  (0.0250432); expected 358.6 (0.02)
Passed bias filter:                      351  (0.0195772); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.46
# Mc/sec: 1847.03
//
Query:       PHY93_08895|PHY93_08895  [L=348]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.01   15.6   6.8      0.025   14.3   5.7    2.0  2  Porin_4   Gram-negative porin


Domain annotation for each model (and alignments):
>> Porin_4  Gram-negative porin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   5.7   1.4e-06     0.025     191     306 ..     168     292 ..     146     298 .. 0.76
   2 ?   -0.7   0.0     0.053   9.6e+02     211     245 ..     303     334 ..     290     347 .. 0.65

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.4e-06
                  Porin_4 191 gyafggvglavaaaysqgdneada.dldawglgasvslggf......klgas.yadaendaaaaaadadlygvgasytv..galtv 266
                              +y++  ++++v+ + s ++ +ad+   +  gl+ + sl+ +      + g+s y++++++a++++++ ++y+  + + +  + +++
  PHY93_08895|PHY93_08895 168 KYNWI-NQFSVGNGFSETNKGADGnHDK--GLSFKSSLKYLkeeniyETGGSiYTENDSSAFGGSSSKRFYTYALHFKFenNFFNI 250
                              78954.39********999999875444..5555555555556677777777799********99999999988888883244455 PP

                  Porin_4 267 gaaygnydd..agandadatsyglgatYnLskrtdlyaeyay 306
                              +  + + +   a  n  +a +y++ a Y Ls r++ y+ y+ 
  PHY93_08895|PHY93_08895 251 SSEVIYSRFnsAVFNTQEALAYYACAGYTLSERLTPYLLYTK 292
                              5444444446699**********************9998875 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.053
                  Porin_4 211 eadadldawglgasvsl.ggfklgasyadaendaaa 245
                               +    ++++lg++++l +++ l+  y+  e + ++
  PHY93_08895|PHY93_08895 303 YD----RELALGVNATLlQQVILKIEYTMSEREVTG 334
                              23....667888888888888888888876665543 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (348 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       318  (0.0177366); expected 358.6 (0.02)
Passed bias filter:                      208  (0.0116013); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.27s 00:00:00.81 Elapsed: 00:00:00.47
# Mc/sec: 2229.23
//
Query:       PHY93_08900|PHY93_08900  [L=166]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0012   18.9   0.1      0.003   17.7   0.1    1.7  1  DUF3493   Low psii accumulation1 / Rep27
  ------ inclusion threshold ------
       0.14   11.6   6.7       0.11   12.0   2.5    2.3  2  LysE      LysE type translocator
       0.19   11.9   0.3       0.19   11.9   0.3    2.7  3  SdpI      SdpI/YhfL protein family
        1.2    9.3   3.6         12    6.0   0.1    2.3  2  DHHC      DHHC palmitoyltransferase
        3.9    7.2  11.7         23    4.6  11.8    2.1  1  Yip1      Yip1 domain


Domain annotation for each model (and alignments):
>> DUF3493  Low psii accumulation1 / Rep27
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   0.1   8.3e-07     0.003       2      65 ..      53     109 ..      52     122 .. 0.74

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 8.3e-07
                  DUF3493   2 ekkarLraEakaPfRglRlflYlafaaSal.iGalifllrllaaragaesapeleealenlaiqv 65 
                              ek a++++E+++ +R + +f + a +++a+ +G l fl+rl a +         + ++ ++ i +
  PHY93_08900|PHY93_08900  53 EKAAKIKTETEKNWRYFQRFHFHATGIGAMmMGILLFLSRLKAPK--------QSVNIASFMIAI 109
                              6899*************************7258888888887766........344455555555 PP

>> LysE  LysE type translocator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.5   0.1     0.048   1.7e+02      52      71 ..       2      21 ..       1      69 [. 0.86
   2 ?   12.0   2.5     3e-05      0.11      25      71 ..     103     149 ..      79     161 .. 0.88

  Alignments for each domain:
  == domain 1  score: 1.5 bits;  conditional E-value: 0.048
                     LysE 52 lkaapivlsilrllGgayLl 71
                             +k+ p++l++l+++Gg++  
  PHY93_08900|PHY93_08900  2 IKRIPFFLALLSIVGGVFIS 21
                             67889999999999999864 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 3e-05
                     LysE  25 ggilvalgvligdavlillgllGlalLlkaapivlsilrllGgayLl 71 
                              +++++a+g ++   v++++g+ G ++  ++a  ++++l ++Gg++Ll
  PHY93_08900|PHY93_08900 103 ASFMIAIGGTLYPFVWLFAGIYGPEMGRNEAKEAFAFLGYMGGVFLL 149
                              5899******************************************8 PP

>> SdpI  SdpI/YhfL protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.3       0.4   1.5e+03      34      41 ..      13      20 ..       5      37 .. 0.53
   2 ?   11.9   0.3   5.2e-05      0.19      19      66 ..      63     118 ..      59     123 .. 0.77
   3 ?   -0.3   0.1      0.34   1.2e+03      29      44 ..     143     158 ..     133     164 .. 0.70

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 0.4
                     SdpI 34 iiaGlill 41
                              i+G +++
  PHY93_08900|PHY93_08900 13 SIVGGVFI 20
                             22222222 PP

  == domain 2  score: 11.9 bits;  conditional E-value: 5.2e-05
                     SdpI  19 eetWrkahr....fagklwiiaGlilllla....lgavvlvllvlvlllvivpiiy 66 
                              e++Wr+ +r      g   +++G++l+l       ++v+++++++++   + p+++
  PHY93_08900|PHY93_08900  63 EKNWRYFQRfhfhATGIGAMMMGILLFLSRlkapKQSVNIASFMIAIGGTLYPFVW 118
                              89*******5555344455777777666669***7778899999999999888875 PP

  == domain 3  score: -0.3 bits;  conditional E-value: 0.34
                     SdpI  29 agklwiiaGlilllla 44 
                               g +++++G+  + l+
  PHY93_08900|PHY93_08900 143 MGGVFLLGGIYSMYLS 158
                              4557888888766665 PP

>> DHHC  DHHC palmitoyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.1    0.0033        12      95     127 ..       5      37 ..       1      44 [. 0.89
   2 ?    4.2   0.5     0.012        42      45     100 ..      63     119 ..      62     163 .. 0.54

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.0033
                     DHHC  95 lsilllvlsllfllllgllllfhlylilrnlTt 127
                              + ++l++ls++ ++++++l+ ++  + l ++Tt
  PHY93_08900|PHY93_08900   5 IPFFLALLSIVGGVFISILFAVQEDMFLSHITT 37 
                              56899******************9999999997 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.012
                     DHHC  45 erNykyF..llfllylllllilalvlllialvklveeekkseflavtllkkllsilll 100
                              e+N +yF  + f  + + ++++ ++l+l  l    ++ +  +f ++    +l+ +++l
  PHY93_08900|PHY93_08900  63 EKNWRYFqrFHFHATGIGAMMMGILLFLSRLKAPKQSVNIASFMIAI-GGTLYPFVWL 119
                              68999994334444444444555555555555555555555555443.3333333333 PP

>> Yip1  Yip1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6  11.8    0.0065        23      51     124 ..      52     160 ..       4     164 .. 0.52

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.0065
                     Yip1  51 g.........................................eevqgltlssllgaiiggylglllgllllalllhliakllg... 92 
                                                                        ++  +  +++ ++++igg l+ +  ++l+a+++       g   
  PHY93_08900|PHY93_08900  52 TekaakikteteknwryfqrfhfhatgigammmgillflsrlKAPKQSVNIASFMIAIGGTLYPF--VWLFAGIY-------Gpem 128
                              04444444444444444333322222222222222222222211222223334444444444322..22333333.......4456 PP

                     Yip1  93 gkgsfkqtlsvvgyallPlilgaliailllll 124
                              g+   k++++++gy   +++lg++ +++l+l 
  PHY93_08900|PHY93_08900 129 GRNEAKEAFAFLGYMGGVFLLGGIYSMYLSLK 160
                              9999************************9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (166 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       919  (0.0512577); expected 358.6 (0.02)
Passed bias filter:                      611  (0.0340789); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.57u 0.26s 00:00:00.83 Elapsed: 00:00:00.49
# Mc/sec: 1014.08
//
Query:       PHY93_08905|PHY93_08905  [L=51]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (51 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       331  (0.0184617); expected 358.6 (0.02)
Passed bias filter:                      201  (0.0112109); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.34u 0.22s 00:00:00.56 Elapsed: 00:00:00.38
# Mc/sec: 405.00
//
Query:       PHY93_08910|PHY93_08910  [L=229]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (229 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       626  (0.0349155); expected 358.6 (0.02)
Passed bias filter:                      420  (0.0234257); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.24s 00:00:00.67 Elapsed: 00:00:00.38
# Mc/sec: 1784.00
//
Query:       PHY93_08915|PHY93_08915  [L=273]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.3e-05   24.7   7.6    5.9e-05   23.3   7.3    1.9  1  DUF4297   Domain of unknown function (DUF4297)


Domain annotation for each model (and alignments):
>> DUF4297  Domain of unknown function (DUF4297)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.3   7.3   3.3e-09   5.9e-05       3     134 ..      24     146 ..      22     210 .. 0.71

  Alignments for each domain:
  == domain 1  score: 23.3 bits;  conditional E-value: 3.3e-09
                  DUF4297   3 sgGsetkkrfryQyawAlvkvlkldde.....kddyavf....cEfheDivilddksspakfefyQVKtkesgkwtdeeLtkakkg 79 
                              +gG+  kk+ ry+++++l+k+ k  +e      +d +++      f +D vi   k+s++k+++yQ+K +++ +w++e L++   +
  PHY93_08915|PHY93_08915  24 QGGASQKKGQRYEDYFSLYKIAKSSAEifkgtLKDAEILdqaqYSFVDDLVI---KKSKNKLDYYQLKNTKDLSWNKELLADF--E 104
                              79999999999999999999998754422221233333222225689*****...999**********77777*****99999..3 PP

                  DUF4297  80 kkkkksSilgKllksekdfprriaklafVsnaplsltlkekkislslrsevalse 134
                              ++        Kl+++   ++ +++ + +Vsna++  +l++   ++s++    + +
  PHY93_08915|PHY93_08915 105 DQ-------DKLASH---AKANFSLVLVVSNAKVFNKLSNMPSNTSKKT---FIK 146
                              33.......589977...9999999*********888888777777555...333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (273 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       538  (0.0300073); expected 358.6 (0.02)
Passed bias filter:                      260  (0.0145016); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.20s 00:00:00.66 Elapsed: 00:00:00.37
# Mc/sec: 2207.29
//
Query:       PHY93_08920|PHY93_08920  [L=77]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
  ------ inclusion threshold ------
      0.013   15.5   0.0      0.016   15.2   0.0    1.2  1  WYL          WYL domain
       0.11   12.4   0.2       0.85    9.6   0.0    2.1  2  Nore1-SARAH  Novel Ras effector 1 C-terminal SARAH (Sav/Rassf


Domain annotation for each model (and alignments):
>> WYL  WYL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.2   0.0   1.8e-06     0.016      14      66 ..      16      74 ..      10      77 .] 0.83

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 1.8e-06
                      WYL 14 rrvefrYrspagegeertvePyglvl.....k.ngrwYLvaydekrdeirtfrldRise 66
                             + v+f+Y++++ge + r veP+ +++     + + +w L a+d++++  r f++  i++
  PHY93_08920|PHY93_08920 16 KSVKFKYTNYKGEISWRLVEPISIRFgstewHpELQWLLKAFDLEKKTEREFAMKDIQG 74
                             789******777777***********766542456789999999999999999998876 PP

>> Nore1-SARAH  Novel Ras effector 1 C-terminal SARAH (Sav/Rassf/Hpo) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   0.0   9.5e-05      0.85      21      40 .]      14      33 ..      13      33 .. 0.94
   2 ?    0.6   0.1     0.063   5.6e+02       5      17 ..      48      60 ..      47      66 .. 0.78

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 9.5e-05
              Nore1-SARAH 21 eiqqikrkYtalrqklqqaL 40
                             ei+ +k kYt+++ ++ ++L
  PHY93_08920|PHY93_08920 14 EIKSVKFKYTNYKGEISWRL 33
                             899*************9987 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.063
              Nore1-SARAH  5 PELqnFLriLeeE 17
                             PELq  L+  + E
  PHY93_08920|PHY93_08920 48 PELQWLLKAFDLE 60
                             99*9999887776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (77 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       445  (0.0248201); expected 358.6 (0.02)
Passed bias filter:                      351  (0.0195772); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.36u 0.20s 00:00:00.56 Elapsed: 00:00:00.35
# Mc/sec: 654.82
//
Query:       PHY93_19065|PHY93_19065  [L=80]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0011   19.5   2.6     0.0012   19.5   1.8    1.4  2  CxxCxxCC  Putative zinc- or iron-chelating domain


Domain annotation for each model (and alignments):
>> CxxCxxCC  Putative zinc- or iron-chelating domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0      0.57     1e+04      38      38 ..      23      23 ..       5      34 .. 0.54
   2 !   19.5   1.8   6.8e-08    0.0012       1      28 [.      51      78 ..      51      80 .] 0.92

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 0.57
                 CxxCxxCC 38 k 38
                             +
  PHY93_19065|PHY93_19065 23 R 23
                             1 PP

  == domain 2  score: 19.5 bits;  conditional E-value: 6.8e-08
                 CxxCxxCC  1 eCkeCgaCCkelkvklteedlerlkaae 28
                             +C eC+ CCk+l+++++++dler+++a 
  PHY93_19065|PHY93_19065 51 ACLECARCCKALGPRIEDKDLERMAKAL 78
                             5***********************9875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (80 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       895  (0.0499191); expected 358.6 (0.02)
Passed bias filter:                      558  (0.0311228); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.36u 0.19s 00:00:00.55 Elapsed: 00:00:00.34
# Mc/sec: 710.78
//
Query:       PHY93_19070|PHY93_19070  [L=266]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.1e-27   95.2   0.9    2.1e-27   95.2   0.9    2.3  2  Peptidase_M23  Peptidase family M23
    1.4e-14   53.9   2.1    3.1e-14   52.8   0.1    2.6  4  LysM           LysM domain
     0.0051   16.9   0.7        1.4    9.1   0.0    3.1  3  Ribosomal_S17  Ribosomal protein S17
  ------ inclusion threshold ------
       0.08   13.0   0.4       0.57   10.3   0.0    2.4  2  Fer2_4         2Fe-2S iron-sulfur cluster binding domain


Domain annotation for each model (and alignments):
>> Peptidase_M23  Peptidase family M23
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   95.2   0.9   4.7e-31   2.1e-27       2      96 .]      87     181 ..      86     181 .. 0.98
   2 ?    0.5   0.1      0.16   7.4e+02      56      63 ..     227     234 ..     189     265 .. 0.61

  Alignments for each domain:
  == domain 1  score: 95.2 bits;  conditional E-value: 4.7e-31
                              EESSEEEEETTT-EEEESSSEEEEEEEEETTTEEEEEEEECTCEEEEEEEESEESS-TTEEE-TTCEEEEEBSTSSCSSSEEEEEE CS
            Peptidase_M23   2 fhkGidiaapkgtpVlAaadGtVvfagkkegyGnvviidhgdgystlyahlskisvkegqkVkaGqvIGtvgstgrstgphLhfei 87 
                              +h+G di+ +kg++V+Aa  G+V++a  ++gyGn+vi++h+++++t+y hlsk  v++g++V aG+v+G  g tgr+t  hLhfe+
  PHY93_19070|PHY93_19070  87 KHTGADIKLQKGDTVRAAYCGKVTKACSYSGYGNLVILKHSNNIETYYSHLSKCLVQVGDTVVAGAVVGLGGRTGRATTDHLHFEV 172
                              7****************************9******************************************************** PP

                              EETTEEE-C CS
            Peptidase_M23  88 rkngkavdp 96 
                              r n+ a +p
  PHY93_19070|PHY93_19070 173 RFNSVAHNP 181
                              *99998887 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.16
                              SS-TTEEE CS
            Peptidase_M23  56 svkegqkV 63 
                              +vk+g++ 
  PHY93_19070|PHY93_19070 227 TVKKGDTL 234
                              34444432 PP

>> LysM  LysM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.9   0.0       3.4   1.5e+04      11      17 ..      16      22 ..      15      25 .. 0.82
   2 ?   -0.7   0.0      0.35   1.6e+03       3       9 ..      95     101 ..      93     103 .. 0.80
   3 ?   -2.7   0.1       1.5   6.7e+03       3       9 ..     142     148 ..     141     150 .. 0.79
   4 !   52.8   0.1   6.9e-18   3.1e-14       1      42 [.     226     266 .]     226     266 .] 0.98

  Alignments for each domain:
  == domain 1  score: -3.9 bits;  conditional E-value: 3.4
                             HHHHHCT CS
                     LysM 11 sIAkryg 17
                             sIA ++g
  PHY93_19070|PHY93_19070 16 SIATKHG 22
                             89*9997 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.35
                              E-TT--H CS
                     LysM   3 VkkGDTL 9  
                               +kGDT+
  PHY93_19070|PHY93_19070  95 LQKGDTV 101
                              69****7 PP

  == domain 3  score: -2.7 bits;  conditional E-value: 1.5
                              E-TT--H CS
                     LysM   3 VkkGDTL 9  
                              V+ GDT+
  PHY93_19070|PHY93_19070 142 VQVGDTV 148
                              7889997 PP

  == domain 4  score: 52.8 bits;  conditional E-value: 6.9e-18
                              EEE-TT--HHHHHHHCTCHHHHHHHHCTCSSCGG--TTEEEE CS
                     LysM   1 YtVkkGDTLwsIAkrygitveklleaNnlsspdkifpGqkLk 42 
                              +tVkkGDTL+++A+++g+tv++++e+Nnl ++  +++G+kLk
  PHY93_19070|PHY93_19070 226 VTVKKGDTLYALARQHGTTVKQIQELNNLGNTM-LKVGMKLK 266
                              59*******************************.******97 PP

>> Ribosomal_S17  Ribosomal protein S17
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.6   0.1    0.0079        35      39      63 ..      89     114 ..      53     116 .. 0.77
   2 !    9.1   0.0    0.0003       1.4      29      52 ..     127     150 ..     119     154 .. 0.83
   3 ?   -1.1   0.0      0.49   2.2e+03      34      49 ..     218     233 ..     193     235 .. 0.71

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.0079
                              -TTTS.--TT-EEEEEEECECSSSEE CS
            Ribosomal_S17  39 denns.vkvGDiVrieecrPlSktkr 63 
                                 ++ ++ GD+Vr + c ++ k  +
  PHY93_19070|PHY93_19070  89 TGADIkLQKGDTVRAAYCGKVTKACS 114
                              444455899*********99999766 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.0003
                              EEEEEEEEEE-TTTS--TT-EEEE CS
            Ribosomal_S17  29 vkrrkkylahdennsvkvGDiVri 52 
                               +  + y  h +++ v+vGD+V  
  PHY93_19070|PHY93_19070 127 SNNIETYYSHLSKCLVQVGDTVVA 150
                              566678999*************76 PP

  == domain 3  score: -1.1 bits;  conditional E-value: 0.49
                              EEEEE-TTTS--TT-E CS
            Ribosomal_S17  34 kylahdennsvkvGDi 49 
                               ++  d++  vk GD+
  PHY93_19070|PHY93_19070 218 TIHFSDHSVTVKKGDT 233
                              4455566666777775 PP

>> Fer2_4  2Fe-2S iron-sulfur cluster binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.1      0.21   9.6e+02      15      28 ..      95     108 ..      89     154 .. 0.52
   2 ?   10.3   0.0   0.00013      0.57       4      32 ..     217     245 ..     214     255 .. 0.88

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 0.21
                   Fer2_4  15 vpeGdtvasAllan 28 
                               ++Gdtv +A    
  PHY93_19070|PHY93_19070  95 LQKGDTVRAAYCGK 108
                              55666666554433 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 0.00013
                   Fer2_4   4 vtltfDGkevtvpeGdtvasAllangvdv 32 
                              +t++f +++vtv++Gdt+ + + ++g +v
  PHY93_19070|PHY93_19070 217 TTIHFSDHSVTVKKGDTLYALARQHGTTV 245
                              799****************9999999776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (266 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       867  (0.0483574); expected 358.6 (0.02)
Passed bias filter:                      661  (0.0368676); expected 358.6 (0.02)
Passed Vit filter:                        59  (0.00329076); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.36
# Mc/sec: 2194.61
//
Query:       PHY93_19075|PHY93_19075  [L=169]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.8e-33  115.9   0.0    2.2e-33  115.6   0.0    1.1  1  NT5C       5' nucleotidase, deoxy (Pyrimidine), cytosolic typ
     0.0038   17.3   0.5      0.017   15.2   0.0    1.9  2  HAD_2      Haloacid dehalogenase-like hydrolase
  ------ inclusion threshold ------
       0.18   12.1   0.0       0.22   11.8   0.0    1.1  1  Hydrolase  haloacid dehalogenase-like hydrolase


Domain annotation for each model (and alignments):
>> NT5C  5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  115.6   0.0   3.7e-37   2.2e-33       4     169 ..       5     166 ..       2     169 .] 0.89

  Alignments for each domain:
  == domain 1  score: 115.6 bits;  conditional E-value: 3.7e-37
                     NT5C   4 vlvDlDgvladlygkmlevankrfeatllpeevsswdleefvkPeqreslyrfltepglFadlepipgarevLeeladegrlvvit 89 
                              +lvD+Dgvlad+y + l     +f +t  +   + + l+  ++ e   +  +++  +++F+   ++pg+ e L+ l ++   v++ 
  PHY93_19075|PHY93_19075   5 LLVDMDGVLADVYSRILS---LEFSETGIQQT-M-ESLNGKTEAEAFVNYLKHVRSKDFFRKAPTMPGSIEGLQYLNEK-YKVLVV 84 
                              79***********99765...56777755443.3.4666667788889999***************************9.777888 PP

                     NT5C  90 aallqfydavkekveWldehlplipyrnlvlvkekdlvrgDvlidDapknleklrgrsilfdsptnrhie..delRaasWqe 169
                              +++  +++++ ek eWl+e +p+i ++++v+++ kd ++gD++idD pknl+ + g++i+f++p+n +i   d +R+++W++
  PHY93_19075|PHY93_19075  85 SSATEYPQSMIEKYEWLKEFYPFISWKQMVFCGVKDSIKGDIMIDDHPKNLDFFSGKKIIFTQPHNFYISksDYQRVDNWKQ 166
                              889999************************************************************998533899*****87 PP

>> HAD_2  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.1       0.1   6.1e+02       2      13 ..       6      17 ..       5      23 .. 0.79
   2 !   15.2   0.0   2.8e-06     0.017      41     126 ..      26     109 ..      16     117 .. 0.77

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.1
                    HAD_2  2 iFDlDgTlldte 13
                             + D+Dg+l+d  
  PHY93_19075|PHY93_19075  6 LVDMDGVLADVY 17
                             67*******965 PP

  == domain 2  score: 15.2 bits;  conditional E-value: 2.8e-06
                    HAD_2  41 iglslrellrklgeseeeeekieellrkyneekkkkevkpydgvkelLeeLkeagyklgivTsksreaveekleqlgiesyFdviv 126
                               +   +++++ l+ ++e e  +  +l++++++   ++   ++g +e L++L +++yk+ +v+s ++  + +  +   +++++ +i 
  PHY93_19075|PHY93_19075  26 SETGIQQTMESLNGKTEAE-AFVNYLKHVRSKDFFRKAPTMPGSIEGLQYL-NEKYKVLVVSSATEYPQSMIEKYEWLKEFYPFIS 109
                              5566677888888876644.66666788888887789**************.99*********99877766666666667776665 PP

>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   3.7e-05      0.22       4      80 ..       5     104 ..       3     129 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 3.7e-05
                              EEEESBTTTBCHHHHHHHHHHHHCHHHHHHHHHHHHCHHHHHHHHHHHHH............HHHHHHHHHETTTE.......... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx............xxxxxxxxxxxxxx.......... RF
                Hydrolase   4 vvfDkdGTLttgepsvedvivsaalalaaaletgsehpigkalvaaakar............sgaltgfatfigrg.......... 67 
                              ++ D+dG+L +  +++  +  s    +++ +e  + +  ++a+v++ k++            +g+                     
  PHY93_19075|PHY93_19075   5 LLVDMDGVLADVYSRILSLEFSE-TGIQQTMESLNGKTEAEAFVNYLKHVrskdffrkaptmPGS----------Ieglqylneky 79 
                              679*******9996665555555.45555566669999999999999999865555444444444..........44444555555 PP

                              ............HHHHTHHHHHHHH CS
                              ............xxxxxxxxxxxxx RF
                Hydrolase  68 ............ayaigkpewltal 80 
                                          + +i k ewl++ 
  PHY93_19075|PHY93_19075  80 kvlvvssateypQSMIEKYEWLKEF 104
                              9**********************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (169 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       403  (0.0224776); expected 358.6 (0.02)
Passed bias filter:                      296  (0.0165096); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 1270.24
//
Query:       PHY93_19080|PHY93_19080  [L=68]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.022   14.8   0.0      0.023   14.8   0.0    1.1  1  ANAPC5    Anaphase-promoting complex subunit 5
      0.081   13.2   0.0      0.091   13.1   0.0    1.2  1  FCH       Fes/CIP4, and EFC/F-BAR homology domain


Domain annotation for each model (and alignments):
>> ANAPC5  Anaphase-promoting complex subunit 5
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   0.0   2.5e-06     0.023      11      37 ..       9      42 ..       3      61 .. 0.79

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 2.5e-06
                   ANAPC5 11 akdYqqaldsLhryFDyvlsqnessq.......k 37
                             ++dY qald L + FD  ++++es +        
  PHY93_19080|PHY93_19080  9 EEDYLQALDRLAELFDAKIGTSESDEadvlallV 42
                             78****************9999998644444440 PP

>> FCH  Fes/CIP4, and EFC/F-BAR homology domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0     1e-05     0.091      28      69 ..       7      46 ..       4      58 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 1e-05
                             HHHHHHHHHHHHHCT----TT.-.....HHHHHHHHHHHHHHH CS
                      FCH 28 eiEkeYakkLqkLakkylkrr.kkkseestlvtawtvlleete 69
                             + E++Y ++L++La+ ++ +  +   +es   +++  l++e e
  PHY93_19080|PHY93_19080  7 KTEEDYLQALDRLAELFDAKIgT---SESDEADVLALLVDEYE 46
                             56****************97544...44555566666655555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (68 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       424  (0.0236488); expected 358.6 (0.02)
Passed bias filter:                      338  (0.0188521); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.37u 0.22s 00:00:00.59 Elapsed: 00:00:00.38
# Mc/sec: 538.93
//
Query:       PHY93_16350|PHY93_16350  [L=458]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.8e-17   63.9   0.0    3.8e-17   62.9   0.0    1.6  1  Peptidase_M16_C  Peptidase M16 inactive domain
     0.0093   15.9   0.0      0.024   14.6   0.0    1.7  2  Peptidase_M16    Insulinase (Peptidase family M16)


Domain annotation for each model (and alignments):
>> Peptidase_M16_C  Peptidase M16 inactive domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.9   0.0   4.3e-21   3.8e-17      59     180 ..     246     365 ..     160     367 .. 0.88

  Alignments for each domain:
  == domain 1  score: 62.9 bits;  conditional E-value: 4.3e-21
                              SSGGGSSEEEEEEEESSSSSEEEEEEEEEECTCTHTTHHHHHHHHHHHHSSTTSHHHHHHHTTTTSESEEEEEEEEESSCEEEEEE CS
          Peptidase_M16_C  59 ltpatlkkppvvlkkldeeqahlslafegpskendeddlalavlntlLgggmesrLytnlrekeglaysvsafndsyrdsglfgis 144
                              ++   +k+++++++  d +q +++++  ++      d     +  + Lggg +srL +++r k+gl+ys++++ +s++ +g  gis
  PHY93_16350|PHY93_16350 246 KQ-IRNKPEIIFVPVPDANQVQVQIGRFLNFD-EVGDRRLDTLATEFLGGGFTSRLMREVRVKRGLTYSIGSYISSQKQYGRAGIS 329
                              33.467888888888899*******9999888.888888888888999************************************** PP

                              EEEECTTHHHHHHHHHHHHHHHHHHTS-HHHHHHHH CS
          Peptidase_M16_C 145 atadpenveevvevilkelrklkkeglteeelerak 180
                              + +++e +++++evi ++++k++k+g+++e+ler++
  PHY93_16350|PHY93_16350 330 TFTKNETINKLIEVINDAVEKIRKDGISQEDLERSR 365
                              **********************************86 PP

>> Peptidase_M16  Insulinase (Peptidase family M16)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.6   0.0   2.7e-06     0.024       3     135 ..      38     165 ..      36     181 .. 0.85
   2 ?   -3.0   0.0      0.73   6.5e+03      81     109 ..     334     365 ..     330     369 .. 0.61

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 2.7e-06
                              EEEE-TSSSEEEEEEEES-SGGGSCTTTTTHHHHHHHHTTSBBSSSCHHHHHHHHHHTTCEEEEEEESSEEEEEEEEEGGGHHHHH CS
            Peptidase_M16   3 alesdppaktsavglvvdaGSryepkdlnGlAHllehmafkgTkkypsnklaeeleklGgslnAttsrentvYyvevlskdlekal 88 
                              ++++d++ +t  + ++++ G+ +++k + G +    +++  gT+k +++ +   +e  G ++   ++ e+ +  ++ lskdl + +
  PHY93_16350|PHY93_16350  38 VYIEDNRFPTYDLLVYFADGASSDQKGQMGSTKHAFNLLDAGTAKLSQKDILDQFEFFGTEFGVDITHEYSTLSMSGLSKDLLTSM 123
                              5555557777788999999999********999999************************************************** PP

                              HHHHHHHHSBTTSHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH CS
            Peptidase_M16  89 dvladvfkaplleesevererkvvekeveavdaepekvveenlhaaa 135
                              +  ++ ++++ +    +++e ++ + e++ + a p     ++l    
  PHY93_16350|PHY93_16350 124 NQACSLLREANFPTPIIKQELDKERSELQSLVASP-----QALADRV 165
                              **********9999999998888888888888877.....3333333 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 0.73
                              GGGHHHHHHHHHHHHHSB...TTSHHHHHHHH CS
            Peptidase_M16  81 skdlekaldvladvfkap...lleeseverer 109
                              ++ ++k+++v++d + +     ++++++er+r
  PHY93_16350|PHY93_16350 334 NETINKLIEVINDAVEKIrkdGISQEDLERSR 365
                              55677777777777766544446666666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (458 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       565  (0.0315132); expected 358.6 (0.02)
Passed bias filter:                      462  (0.0257683); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.36
# Mc/sec: 3786.12
//
Query:       PHY93_16635|PHY93_16635  [L=446]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      2e-27   95.6   3.6      2e-27   95.6   3.6    2.0  2  GTP-bdg_M     GTP-binding GTPase Middle Region
    2.3e-24   85.9   1.3    3.5e-24   85.3   0.3    1.9  2  GTP-bdg_N     GTP-binding GTPase N-terminal
    1.2e-18   67.2   0.0    2.8e-18   66.1   0.0    1.6  1  MMR_HSR1      50S ribosome-binding GTPase
    1.8e-05   24.7   0.2       0.24   11.3   0.1    2.5  2  RsgA_GTPase   RsgA GTPase
     0.0027   17.8   0.1      0.045   13.8   0.0    2.4  2  Dynamin_N     Dynamin family
     0.0028   16.9   2.6       0.15   11.2   0.4    2.6  3  G-alpha       G-protein alpha subunit
     0.0063   16.1   0.5      0.015   14.8   0.1    1.9  2  FeoB_N        Ferrous iron transport protein B
  ------ inclusion threshold ------
      0.078   13.2   0.0       0.45   10.7   0.0    2.1  2  Roc           Ras of Complex, Roc, domain of DAPkinase
      0.093   12.7   0.2       0.21   11.6   0.2    1.6  1  MMR_HSR1_Xtn  C-terminal region of MMR_HSR1 domain
       0.23   10.9   1.2        3.2    7.2   0.0    2.4  2  Arf           ADP-ribosylation factor family


Domain annotation for each model (and alignments):
>> GTP-bdg_M  GTP-binding GTPase Middle Region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.1       1.6   2.9e+03       4      44 ..      28      72 ..      27     103 .. 0.66
   2 !   95.6   3.6   1.1e-30     2e-27       1      79 []     124     203 ..     124     203 .. 0.98

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 1.6
                             SHHHHHHHHHHHHHHHHHHHCXXXXXXXXX..X.......XXXXXX CS
                GTP-bdg_M  4 tkeaklQVelAqlkyllprLeglgkelsrqgGg..ig...trGpGe 44
                             t ea  Q  + +l  ll  L gl++  s+ + +  i    + G+G+
  PHY93_16635|PHY93_16635 28 TTEAESQRSITELSELLRTL-GLKTGSSHIQNKkeIDpatILGSGK 72
                             78888888888888888888.3333333332221122333555554 PP

  == domain 2  score: 95.6 bits;  conditional E-value: 1.1e-30
                              H--SHHHHHHHHHHHHHHHHHHHCXXXXXXXXX..X...XXXXXXXXXHHHHHHHHHHHHHHHHHHHHHHHHHH.....T CS
                GTP-bdg_M   1 rArtkeaklQVelAqlkyllprLeglgkelsrqgGgig.trGpGetkleldrrlireriaklkkeLekvkkkrelqrkkR 79 
                              +Artkeak+Q+e+A+l+y+lprL+g +++l+rq+Gg+g + G+Ge+++eldrr ire+i+  k+eL  ++k+r +++k+R
  PHY93_16635|PHY93_16635 124 HARTKEAKIQIEIARLQYMLPRLAGFWTHLNRQRGGVGvLGGEGEKQIELDRRIIREKIEFYKEELVTLEKQRVVRKKRR 203
                              9*************************************9899**********************************9998 PP

>> GTP-bdg_N  GTP-binding GTPase N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.3   0.3     2e-27   3.5e-24       2      89 .]      35     122 ..      34     122 .. 0.98
   2 ?   -2.4   0.0       4.5   8.1e+03      50      71 ..     285     307 ..     277     325 .. 0.62

  Alignments for each domain:
  == domain 1  score: 85.3 bits;  conditional E-value: 2e-27
                GTP-bdg_N   2 esleEleeLaktaglevvgevvqkrekpdpatyiGkGkveeikelveeeeadlvifddeLspsqqrnLekelevkViDRtqLILdI 87 
                              +s++El+eL++t+gl++  + +q+++++dpat++G+Gk++ei+e++e+e  +l++fd eL+++q+ n+++ +++ V+DR ++IL+I
  PHY93_16635|PHY93_16635  35 RSITELSELLRTLGLKTGSSHIQNKKEIDPATILGSGKLKEIAEAAEAEGSKLLVFDFELTARQITNIRQLTGLSVVDRVHVILEI 120
                              689*********************************************************************************** PP

                GTP-bdg_N  88 FA 89 
                              FA
  PHY93_16635|PHY93_16635 121 FA 122
                              *8 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 4.5
                GTP-bdg_N  50 eeadlvifddeLs.psqqrnLek 71 
                               eadl+i+  ++s p  +++Le 
  PHY93_16635|PHY93_16635 285 LEADLLIIVCDISdPHYEKQLEV 307
                              56777777777764666777765 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.1   0.0   1.6e-21   2.8e-18       2     114 .]     210     328 ..     209     328 .. 0.86

  Alignments for each domain:
  == domain 1  score: 66.1 bits;  conditional E-value: 1.6e-21
                              EEEEESTTSSHHHHHHHHHTSTEEESSSTTSSSSEEEEEEEETT.EEEEEEECGGCSSHHHHHH..HHHHHHHHHHCTSEEEEEEE CS
                 MMR_HSR1   2 vaivGrpNvGKStLinaltgekaivsdkpgtTrdinegrvklkg.keielvDtpGliegaseek..glgkaflaleeadlillvvd 84 
                              +a+vG++N+GKS+++n+l++ ++  ++k ++T+d +++ ++ +  ++++++Dt+G+i++  +    g++ ++++  eadl+++v+d
  PHY93_16635|PHY93_16635 210 AALVGYTNAGKSSIMNRLCRVEVLEENKLFATLDSTYRMLNPDTkPPMIMIDTVGFISNLPNTLidGFKTTLESALEADLLIIVCD 295
                              69***************************************777799********9873333335699999999999********* PP

                              TTTTCSHHHHHHHHHHHHH...TTSEEEEEEES CS
                 MMR_HSR1  85 aseeklkpldeeleellee...akkplilvlnk 114
                              +s+ +++++ e  +++l+e    +k+ ++v+nk
  PHY93_16635|PHY93_16635 296 ISDPHYEKQLEVTNDVLKEldvGNKERLIVFNK 328
                              **5578888888888887777778888999998 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.9   0.0   0.00018      0.33      84     126 ..     192     234 ..     168     245 .. 0.74
   2 !   11.3   0.1   0.00014      0.24      15      96 ..     286     365 ..     273     371 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00018
                              TTTHTTHHHHHHHCTTSEEEEECSTTSSHHHHHHHHCTT---- CS
              RsgA_GTPase  84 aktkegleelkellkdktsvlvGqSGvGKStLinallpelelk 126
                               ++++ +++ +++ +  t++lvG + +GKS+++n+l   + l+
  PHY93_16635|PHY93_16635 192 LEKQRVVRKKRRENQAVTAALVGYTNAGKSSIMNRLCRVEVLE 234
                              4455666666667777899*****************8766555 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 0.00014
                              S--EEEEEEESTTTT--HHH..HHHHHHHHHHTT-EEEEEEE-GGG--HHHHHHHHHHHHHHTTSEEEE--TTTHTTHHHHHHH CS
              RsgA_GTPase  15 Nvdqllivvslkepelslnl..ldrfLvlaeekgiepvivlnKiDlleeeeeleelkeelealgyevllvsaktkegleelkel 96 
                                d l+iv+ +++p+++++l   + +L ++   + e +iv+nK Dll+++  l+++   l+++  + +lvs+ + e++++l+++
  PHY93_16635|PHY93_16635 286 EADLLIIVCDISDPHYEKQLevTNDVLKELDVGNKERLIVFNKKDLLHDDL-LKKIV--LRKY-PNSFLVSSYDPEDMKALRTH 365
                              67999*********998764327899***********************99.44433..2333.33455666667777777665 PP

>> Dynamin_N  Dynamin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.8   0.0   2.5e-05     0.045       2      28 ..     211     237 ..     210     246 .. 0.87
   2 ?    1.4   0.0      0.17     3e+02      99     145 ..     253     303 ..     243     330 .. 0.70

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 2.5e-05
                              EEEEBTTTTHHHHHHHHHTS--S---S CS
                Dynamin_N   2 avvGsqSsGKSSvlnaLlgedilprgp 28 
                              a+vG +++GKSS++n L++ ++l   +
  PHY93_16635|PHY93_16635 211 ALVGYTNAGKSSIMNRLCRVEVLEENK 237
                              68*******************997665 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.17
                              TS-SEEEEE---B-SSSGTTS....HHHHHHHSTTEEEEEEEETTS-CCC- CS
                Dynamin_N  99 lvkgltlvDlPGldsvnkrdq....elvkeyikkadiilavtsanhdlsns 145
                              +++ + ++D+ G++s+  +      + + e + +ad+++ v + +    ++
  PHY93_16635|PHY93_16635 253 TKPPMIMIDTVGFISNLPNTLidgfKTTLESALEADLLIIVCDISDPHYEK 303
                              6788899********888877999999999999999999999988765544 PP

>> G-alpha  G-protein alpha subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.0      0.44   7.9e+02      55     126 ..      98     175 ..      88     200 .. 0.68
   2 !    4.7   0.0     0.008        14      15      44 ..     199     228 ..     185     247 .. 0.78
   3 !   11.2   0.4   8.3e-05      0.15     256     324 ..     306     378 ..     284     412 .. 0.73

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.44
                              HHHCCHHHHHHHHHHHHHHHHHHHHHTT.......HHHC-SS-SCCCS-HCHHHH.....................HHCCHHC CS
                  G-alpha  55 elatwraviqlnivrsiktilealesleselsesfelqelkerldplkkveasliaklssateee...........qeiefnp 126
                              ++ ++r++  l +v+ ++ ile++ +         ++++++ ++++l+ + ++l+ + +  ++++           ++ie+ +
  PHY93_16635|PHY93_16635  98 QITNIRQLTGLSVVDRVHVILEIFAKHAR-----TKEAKIQIEIARLQYMLPRLAGFWTHLNRQRggvgvlggegeKQIELDR 175
                              55668999999999999999999999333.....3577777777777777777777777777776777777666664444444 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.008
                              XXXXXE..EEEEEEEESTTSSHHHHHHHHH CS
                  G-alpha  15 rkarkkkrevkllllGqseSGKsTilkqlk 44 
                              rk+r++++ v+  l+G    GKs+i++ l 
  PHY93_16635|PHY93_16635 199 RKKRRENQAVTAALVGYTNAGKSSIMNRLC 228
                              444455689****************99875 PP

  == domain 3  score: 11.2 bits;  conditional E-value: 8.3e-05
                              HHHHCCCC-GGGTTSEEEEEEE-HHHHHHHCCCS.-GGGCCTT--...H.CCHHHHHHHHHHHHHHCCCCCCE CS
                  G-alpha 256 klFkeicnnkllkntpiiLflnKlDileeKlkkg.klskyfpsye...grkndlesvlkylrnkFeeihkeks 324
                              ++ ++++++  + n++ ++++nK+D+l   l k+  l+ky  s+     +++d++   + +++ F++ ++ + 
  PHY93_16635|PHY93_16635 306 EVTNDVLKELDVGNKERLIVFNKKDLLHDDLLKKiVLRKYPNSFLvssYDPEDMKALRTHIIEYFLSKQQHYD 378
                              555667777778899999*************666699998544444444489999999999999998876665 PP

>> FeoB_N  Ferrous iron transport protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0       1.8   3.1e+03     115     134 ..     124     143 ..      88     144 .. 0.64
   2 !   14.8   0.1   8.6e-06     0.015       2     117 ..     209     331 ..     208     340 .. 0.72

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 1.8
                              HHHHHHTTEEE-HHHHHHHH CS
                   FeoB_N 115 ideaekkgieidlkkLsekL 134
                                  ++++i+i++++L+ +L
  PHY93_16635|PHY93_16635 124 HARTKEAKIQIEIARLQYML 143
                              34456677888888888776 PP

  == domain 2  score: 14.8 bits;  conditional E-value: 8.6e-06
                              EEEEEESTTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEETT.EEEEEEE----SSSSSSSHHHHHHHHHHHCTSSSEEEEEE CS
                   FeoB_N   2 tvalvGnpnvGkttlfnaltgakqkvgNwpGvtvekkegklklkg.keveivDlPGiYslsayseeekvardflleeepdvvvnvv 86 
                              t alvG  n+Gk++++n+l+ ++    N    t + +   l+ ++   + ++D  G  s  + +  +   +++    e+d+++ v 
  PHY93_16635|PHY93_16635 209 TAALVGYTNAGKSSIMNRLCRVEVLEENKLFATLDSTYRMLNPDTkPPMIMIDTVGFISNLPNTLIDGFKTTLESALEADLLIIVC 294
                              689******************99999998888998888888876645677788888888777777666666666666777777777 PP

                              EGG..GHHHHHHHHHHHH.HTT...SSEEEEEETHHH CS
                   FeoB_N  87 dat..nlernLyLtlqll.elg...vpvvlalnmide 117
                              d +  + e++L +t ++l el+   ++ ++++n+ d 
  PHY93_16635|PHY93_16635 295 DISdpHYEKQLEVTNDVLkELDvgnKERLIVFNKKDL 331
                              7652256788888877642332112556666666665 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   0.00025      0.45       3      32 ..     211     240 ..     209     258 .. 0.81
   2 ?   -0.8   0.0      0.93   1.7e+03      80     119 ..     287     330 ..     278     331 .. 0.61

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00025
                              EEESSTTSSHHHHHHCHCT-CCC-EEETTT CS
                      Roc   3 vlvGdsgvGKtsllkrfvedkfsekeksti 32 
                               lvG +++GK+s+++r+++ ++ e++k   
  PHY93_16635|PHY93_16635 211 ALVGYTNAGKSSIMNRLCRVEVLEENKLFA 240
                              59****************998877776554 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 0.93
                              SCEEEEEEE...GHHHHCHHHHHHHHHHH.CSSS-EEEEEE-TT CS
                      Roc  80 aalailvyd...srssenlkeWlkelkkv.agkspvilvgnkiD 119
                              a+l+i+v+d    + +++l+   + lk+  +g++  ++v nk D
  PHY93_16635|PHY93_16635 287 ADLLIIVCDisdPHYEKQLEVTNDVLKELdVGNKERLIVFNKKD 330
                              66777888742111233444333344443367888999999998 PP

>> MMR_HSR1_Xtn  C-terminal region of MMR_HSR1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.2   0.00012      0.21      55     103 ..     319     369 ..     285     371 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00012
             MMR_HSR1_Xtn  55 YipclyvlNKiDlisleeldelare..pnsvviSaekelnldeLkekiwee 103
                               ++ l+v+NK Dl++++ l+++  +  pns+ +S+ +  ++++L ++i e+
  PHY93_16635|PHY93_16635 319 NKERLIVFNKKDLLHDDLLKKIVLRkyPNSFLVSSYDPEDMKALRTHIIEY 369
                              56789**************998775458****************9999775 PP

>> Arf  ADP-ribosylation factor family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2   0.0    0.0018       3.2       4      39 ..     197     232 ..     194     250 .. 0.83
   2 ?    1.6   0.5      0.09   1.6e+02      83     129 ..     288     333 ..     283     344 .. 0.78

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.0018
                              HHHGGTT.TTEEEEEEEESTTSSHHHHHHHHHHSSC CS
                      Arf   4 ilaklklkkkelrilllGLDnaGKtTilkklkleel 39 
                              +++k + +++ +   l+G  naGK+ i+++l   e+
  PHY93_16635|PHY93_16635 197 VVRKKRRENQAVTAALVGYTNAGKSSIMNRLCRVEV 232
                              667777789999999***************987665 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.09
                              SEEEEEEETT-CTTHHHHHHHHHHHCTSGCCTTSEEEEEEE-TTSTT CS
                      Arf  83 davifvvDsadreRleeakeeLkalleeeelkevallvlaNKqDlpe 129
                              d +i v D +d +  e+  e  + +l+e ++ +   l++ NK+Dl +
  PHY93_16635|PHY93_16635 288 DLLIIVCDISDPH-YEKQLEVTNDVLKELDVGNKERLIVFNKKDLLH 333
                              6788888888875.4666666788899999999999********865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (446 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       628  (0.0350271); expected 358.6 (0.02)
Passed bias filter:                      456  (0.0254337); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.37
# Mc/sec: 3619.78
//
Query:       PHY93_19085|PHY93_19085  [L=147]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.7e-10   38.3   5.2    3.1e-08   33.4   1.8    2.1  2  DUF5362          Family of unknown function (DUF5362)
  ------ inclusion threshold ------
      0.069   13.2   0.2      0.069   13.2   0.2    2.2  2  Phage_holin_3_6  Putative Actinobacterial Holin-X, holin supe
        6.4    6.9  10.9        4.6    7.3   1.4    3.0  2  DUF5316          Family of unknown function (DUF5316)


Domain annotation for each model (and alignments):
>> DUF5362  Family of unknown function (DUF5362)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.3   0.1    0.0014       8.5      58      93 ..      14      50 ..       5      52 .. 0.79
   2 !   33.4   1.8   5.1e-12   3.1e-08      24      93 ..      68     137 ..      62     138 .. 0.95

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.0014
                  DUF5362 58 eeklkealeklakylkillilliiel.vlsilliivi 93
                             + ++ke+l + +k  k ++i   + l +l +l ++++
  PHY93_19085|PHY93_19085 14 TSEIKEYLLETSKWSKFMAIAGFVGLgILAVLGFLML 50
                             5689999999999999999988888767777777765 PP

  == domain 2  score: 33.4 bits;  conditional E-value: 5.1e-12
                  DUF5362  24 LsIigiiigvllIivglklfkaakaikealrskseeklkealeklakylkillilliielvlsilliivi 93 
                              +++i i+++v++ +    l+  a  ik+ l+s++e +l++++ +l+k++k +++l+i++l +++l+++++
  PHY93_19085|PHY93_19085  68 MGLIYIVMAVVYYFPNSYLYRFATMIKQGLQSEDEMSLTNGFLNLKKVFKFMGVLTIVILSIYALILLIA 137
                              678999***********************************************************99886 PP

>> Phage_holin_3_6  Putative Actinobacterial Holin-X, holin superfamily III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.2   1.2e-05     0.069      24      82 ..      15      78 ..       5      88 .. 0.75
   2 ?   -0.2   3.0      0.17     1e+03      37      55 ..     124     142 ..     110     145 .. 0.46

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.2e-05
          Phage_holin_3_6 24 aElkeeakragsgagllgaagvlallalllllvalalala.a....lwlaalivaavllvlagv 82
                              E+ke      +   ++++ag+++l  l++l ++++++l+ +    + +    ++++++v+a+v
  PHY93_19085|PHY93_19085 15 SEIKEYLLETSKWSKFMAIAGFVGLGILAVLGFLMLIGLSvFdnfyQGAPIGGMGLIYIVMAVV 78
                             5777777788888889999999999999999999999997557654333333356666666665 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.17
          Phage_holin_3_6  37 agllgaagvlallalllll 55 
                              +++l + ++++l+a++++l
  PHY93_19085|PHY93_19085 124 IVILSIYALILLIAIPAFL 142
                              2223333333444444443 PP

>> DUF5316  Family of unknown function (DUF5316)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3   1.4   0.00077       4.6       2      21 ..      27      46 ..      26      51 .. 0.86
   2 ?    3.0   2.5     0.018   1.1e+02      10      57 ..      66     111 ..      64     145 .. 0.80

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.00077
                  DUF5316  2 lsltykisGfvglvfiliag 21
                             +s+++ i+Gfvgl+ +++ g
  PHY93_19085|PHY93_19085 27 WSKFMAIAGFVGLGILAVLG 46
                             99************998755 PP

  == domain 2  score: 3.0 bits;  conditional E-value: 0.018
                  DUF5316  10 GfvglvfiliagllsGafvsgdriranytseskedrrkrfklsknlll 57 
                              G++gl+ i++a++    f + + +r+ ++  +    +  ++l++ +l+
  PHY93_19085|PHY93_19085  66 GGMGLIYIVMAVVY--YFPNSYLYRFATMIKQGLQSEDEMSLTNGFLN 111
                              88999999999994..78888888888888777777777777777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (147 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1037  (0.0578393); expected 358.6 (0.02)
Passed bias filter:                      441  (0.024597); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.36
# Mc/sec: 1230.95
//
Query:       PHY93_19090|PHY93_19090  [L=445]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      9e-13   48.1   0.1    2.2e-12   46.9   0.1    1.7  1  Thioredoxin     Thioredoxin
      1e-12   48.0   0.0    2.6e-12   46.7   0.0    1.7  1  Thioredoxin_7   Thioredoxin-like
    1.3e-11   45.0   0.1    1.1e-10   41.9   0.1    2.5  2  Thioredoxin_2   Thioredoxin-like domain
    2.8e-09   37.1   0.1    9.6e-09   35.4   0.0    1.9  2  Thioredox_DsbH  Protein of unknown function, DUF255
     0.0052   17.1   2.8       0.71   10.2   0.0    3.6  4  Thioredoxin_8   Thioredoxin-like
  ------ inclusion threshold ------
      0.028   14.5   0.3       0.11   12.6   0.3    2.0  1  ANAPC5          Anaphase-promoting complex subunit 5
      0.035   14.5   0.1       0.24   11.8   0.1    2.5  2  TPR_17          Tetratricopeptide repeat
      0.039   13.9   0.3       0.26   11.2   0.3    2.1  2  AhpC-TSA        AhpC/TSA family
      0.087   13.3   0.0       0.29   11.7   0.0    1.9  1  TPR_19          Tetratricopeptide repeat
      0.094   12.4   0.2       0.27   11.0   0.2    1.8  1  Redoxin         Redoxin
       0.12   12.4   0.0       0.26   11.3   0.0    1.5  1  HyaE            Hydrogenase-1 expression protein HyaE


Domain annotation for each model (and alignments):
>> Thioredoxin  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.9   0.1   1.4e-15   2.2e-12      10      98 ..      29     126 ..      22     131 .. 0.76

  Alignments for each domain:
  == domain 1  score: 46.9 bits;  conditional E-value: 1.4e-15
                              HHHHHTT...TSSEEEEEEE-TTSHHHHCHHHHH...HHHHHHCTTTSEEEEEETTTSH..HHHHHTT-SSSSEEEEEETTE.EEE CS
              Thioredoxin  10 Feeevak...ekklvlveFyApwCghCkalaPel...eklaeelkdkvklakvdvdene..dlakkyevegiPtlklfkngk.evk 86 
                              ++e ++k   ++k+++v+ y +wCg+Ck+++  +   +++ +e+++++  +++d+++ e  ++akkyev ++Pt +++k++    +
  PHY93_19090|PHY93_19090  29 WKEVLEKakqTNKPIFVDVYTSWCGPCKKMSKDIfplAEVGKEFNANFICYQIDAEKGEgiKVAKKYEVMSYPTYLFVKADGlLFS 114
                              5555555444899******************986222566667777*********98774479***************99884555 PP

                              EEESS-HHHHHH CS
              Thioredoxin  87 kyegarekekla 98 
                              +  g+ ++ek++
  PHY93_19090|PHY93_19090 115 RSGGSMNAEKFI 126
                              555666666665 PP

>> Thioredoxin_7  Thioredoxin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.7   0.0   1.6e-15   2.6e-12       6      82 ..      29     107 ..      26     108 .. 0.88

  Alignments for each domain:
  == domain 1  score: 46.7 bits;  conditional E-value: 1.6e-15
                              HHHHHHHHHHHT--EEEEE--TT-HHHHHHHHHHHH-HHHHH.HHHT-EEEEESS--S-GGG.-TT---....SSEEEEE- CS
            Thioredoxin_7   6 ldealakaaergkpvlvffgaswcftCqalerdflsdeevkaalaekfvllrvdvterdanileldeqg....vPvvafld 82 
                              + e l+ka++++kp++v++  swc++C+++ +d     ev + ++ +f++ ++d + +++ i ++ + +    +P+++f++
  PHY93_19090|PHY93_19090  29 WKEVLEKAKQTNKPIFVDVYTSWCGPCKKMSKDIFPLAEVGKEFNANFICYQIDAEKGEG-I-KVAKKYevmsYPTYLFVK 107
                              66789*************************9997776666666****************9.4.7778777889******97 PP

>> Thioredoxin_2  Thioredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.9   0.1   6.7e-14   1.1e-10       1     107 [.      36     127 ..      36     129 .. 0.95
   2 ?   -0.6   0.0       1.1   1.7e+03      35      65 ..     179     209 ..     167     269 .. 0.64

  Alignments for each domain:
  == domain 1  score: 41.9 bits;  conditional E-value: 6.7e-14
            Thioredoxin_2   1 akgngkpvlvvftdpdCpyCkklkkelkelddvtvrvllfplkpsfepkavaiwcakekkkafkdieenvelarkygvrgtPtivf 86 
                              ak+++kp++v++++++C+ Ckk+ k++++l +v +      ++++  ++  +i+ +k +           ++a+ky+v + Pt +f
  PHY93_19090|PHY93_19090  36 AKQTNKPIFVDVYTSWCGPCKKMSKDIFPLAEVGKE-----FNAN--FICYQIDAEKGEG---------IKVAKKYEVMSYPTYLF 105
                              789***************************999999.....8777..********99997.........9**************** PP

            Thioredoxin_2  87 ldgk.eivarlpGyvpaeelea 107
                                ++   + r  G ++ae++ a
  PHY93_19090|PHY93_19090 106 VKADgLLFSRSGGSMNAEKFIA 127
                              *******************987 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 1.1
            Thioredoxin_2  35 vrvllfplkpsfepkavaiwcakekkkafkd 65 
                              ++++l p ++ ++ k+++++++++++ +++ 
  PHY93_19090|PHY93_19090 179 EYLALLPSDQRASDKIIELYQKESRNIGINS 209
                              4555566777777777788877777744444 PP

>> Thioredox_DsbH  Protein of unknown function, DUF255
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.4   0.0   5.9e-12   9.6e-09      27      82 ..      30      85 ..      25     102 .. 0.92
   2 ?   -2.9   0.0       3.6   5.8e+03     135     155 ..     237     257 ..     221     262 .. 0.67

  Alignments for each domain:
  == domain 1  score: 35.4 bits;  conditional E-value: 5.9e-12
           Thioredox_DsbH 27 eealekakeedkpillsiGysachWChvmekesfedeevaallnesfvsvkvDree 82
                             +e lekak+++kpi++++  s+c  C+ m+k+ f   ev + +n++f++ ++D e+
  PHY93_19090|PHY93_19090 30 KEVLEKAKQTNKPIFVDVYTSWCGPCKKMSKDIFPLAEVGKEFNANFICYQIDAEK 85
                             689**************************************************986 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 3.6
           Thioredox_DsbH 135 evlekiaelweeereeleeea 155
                              ++ ++ +e++++++e+l ++ 
  PHY93_19090|PHY93_19090 237 AINNSFREAYKNKNEHLLQQV 257
                              455667777777777777664 PP

>> Thioredoxin_8  Thioredoxin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.0     0.026        42       1      21 [.      40      60 ..      40      68 .. 0.87
   2 !   10.2   0.0   0.00043      0.71      54      93 ..      72     110 ..      65     111 .. 0.77
   3 ?   -2.4   0.1       3.9   6.4e+03      25      55 ..     262     292 ..     236     307 .. 0.57
   4 ?   -0.7   0.0       1.2   1.9e+03      36      57 ..     416     439 ..     385     443 .. 0.64

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.026
                             .SEEEEEE--SSSHHHHHHHH CS
            Thioredoxin_8  1 gkvvlLyfgaswcppckaftp 21
                             +k +++ +++swc pck++ +
  PHY93_19090|PHY93_19090 40 NKPIFVDVYTSWCGPCKKMSK 60
                             68999************9765 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 0.00043
                              GGGS-TTSEE.EE-TT-HHHHTT-S--TT-SEEEEE-TT- CS
            Thioredoxin_8  54 lkknkkpwlsvpfddkkrnklkkkynvkaiPtlvvldkng 93 
                              ++ n + ++ ++ ++++  k++kky+v+++Pt + ++ +g
  PHY93_19090|PHY93_19090  72 FNAN-FICYQIDAEKGEGIKVAKKYEVMSYPTYLFVKADG 110
                              4555.45666666666799**************9998876 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 3.9
                              HHHHHHHH.TTSEEEEEEE-SS-HHHHHHHGG CS
            Thioredoxin_8  25 elyeklkk.kkkveivyvsldkkeeefekylk 55 
                              +l+ k  + ++k e+  + + k+ ++ +ky++
  PHY93_19090|PHY93_19090 262 DLMPKTPQsRPKEEFYMIYYIKT-NDLNKYIS 292
                              33333334545555555555554.55555555 PP

  == domain 4  score: -0.7 bits;  conditional E-value: 1.2
                              EEEEEEE-S..S-HHHHHHHGGGS CS
            Thioredoxin_8  36 veivyvsld..kkeeefekylkkn 57 
                               e v +     ++ +efe++lkk+
  PHY93_19090|PHY93_19090 416 TEAVNLARSkkSDTKEFEETLKKM 439
                              555555444114678899999988 PP

>> ANAPC5  Anaphase-promoting complex subunit 5
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.3   6.6e-05      0.11      44      77 ..     395     428 ..     341     437 .. 0.71

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 6.6e-05
                   ANAPC5  44 lLnlaslhadfghneeAvkaleeairlArenkDk 77 
                              +   a+l +++g++e+A+++ +ea++lAr +k++
  PHY93_19090|PHY93_19090 395 IDTYANLLYKLGQKENAIARETEAVNLARSKKSD 428
                              44578999*********************98865 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       4.5   7.3e+03      21      34 .]     111     124 ..     110     124 .. 0.83
   2 ?   11.8   0.1   0.00015      0.24       3      33 ..     382     412 ..     382     413 .. 0.94

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 4.5
                   TPR_17  21 elllknGdlmtArq 34 
                               l+++ G++m A++
  PHY93_19090|PHY93_19090 111 LLFSRSGGSMNAEK 124
                              678999****9985 PP

  == domain 2  score: 11.8 bits;  conditional E-value: 0.00015
                   TPR_17   3 lkaleldPnnadaynnLAelllknGdlmtAr 33 
                              +++l+++P+n  +   +A+ll+k+G+++ A+
  PHY93_19090|PHY93_19090 382 KRSLDIYPDNQMFIDTYANLLYKLGQKENAI 412
                              589************************9997 PP

>> AhpC-TSA  AhpC/TSA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.3   0.00016      0.26      21      71 ..      36      85 ..      21     106 .. 0.76
   2 ?    1.0   0.0      0.23   3.7e+02      93     120 ..      90     111 ..      79     114 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00016
                             HHHTTSEEEEEEESTST-CCHHHHHHHHHHCHHHCCCTTEEEEEEESSSCH CS
                 AhpC-TSA 21 sdykgkpvvlffypkdwcpvCttelpalaklyeefkergvevigvsvdspe 71
                             ++  +kp+ + +y++ wc +C++  +++  l+e  ke +++ i   +d ++
  PHY93_19090|PHY93_19090 36 AKQTNKPIFVDVYTS-WCGPCKKMSKDIFPLAEVGKEFNANFICYQIDAEK 85
                             455779*********.**********9999999999999988887777666 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.23
                              HHHHHTT-EETTTTECSCEEEEE-TTSB CS
                 AhpC-TSA  93 kvakaygvlkeekglalratfvidkegk 120
                              kvak+y+v+       +++  +++++g 
  PHY93_19090|PHY93_19090  90 KVAKKYEVM------SYPTYLFVKADGL 111
                              89*******......9999999999985 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00018      0.29       6      46 ..     373     413 ..     370     414 .. 0.93

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00018
                   TPR_19   6 dyaeAlalleqalqedpknaearllLAeallalgqldeAea 46 
                               +++Al+  ++ l+ +p+n+     +A++l++lgq + A+a
  PHY93_19090|PHY93_19090 373 SLENALRWSKRSLDIYPDNQMFIDTYANLLYKLGQKENAIA 413
                              578999999****************************9986 PP

>> Redoxin  Redoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.2   0.00016      0.27      24      67 ..      36      78 ..      30     132 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00016
                             HHHTTSEEEEEEESTTT-HHHHHTHHHHHTHHHHHHCSTTTEEE CS
                  Redoxin 24 sefkgkkvvvnfvpgafcPtCsaehpyleklaellkekgvdvva 67
                             +++++k+++v ++++ +c++C++   ++  lae  ke + +++ 
  PHY93_19090|PHY93_19090 36 AKQTNKPIFVDVYTS-WCGPCKKMSKDIFPLAEVGKEFNANFIC 78
                             45899**********.******9888887777776666666644 PP

>> HyaE  Hydrogenase-1 expression protein HyaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00016      0.26      50      93 ..      65     109 ..      60     115 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00016
                              HHHHHCT-TTS-EEEEEE.THHHHHHHHHCCT-TSSSEEEEEETT CS
                     HyaE  50 lpEllkaFpnalraavva.dreqeealaerfgvlktPsllflrdg 93 
                              l+E+ k+F++ + +  +  ++++  ++a++++v+ +P+ lf++ +
  PHY93_19090|PHY93_19090  65 LAEVGKEFNANFICYQIDaEKGEGIKVAKKYEVMSYPTYLFVKAD 109
                              799******99999888658999999***************9865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (445 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       690  (0.0384851); expected 358.6 (0.02)
Passed bias filter:                      387  (0.0215851); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.56u 0.22s 00:00:00.78 Elapsed: 00:00:00.40
# Mc/sec: 3302.37
//
Query:       PHY93_19095|PHY93_19095  [L=164]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.055   14.1   0.1       0.16   12.6   0.0    1.7  2  Vac14_Fab1_bd  Vacuolar 14 Fab1-binding region


Domain annotation for each model (and alignments):
>> Vac14_Fab1_bd  Vacuolar 14 Fab1-binding region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.0      0.18   3.3e+03      12      34 ..      29      52 ..      19      61 .. 0.61
   2 ?   12.6   0.0     9e-06      0.16      15      80 ..      91     158 ..      83     164 .] 0.85

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 0.18
            Vac14_Fab1_bd 12 avaialekk.ikeyleeivkpvlk 34
                             ++ai ++ +  +e +e++++p+++
  PHY93_19095|PHY93_19095 29 TIAIIIKVAqPNEKFEDFIDPLIS 52
                             445555544456667777777765 PP

  == domain 2  score: 12.6 bits;  conditional E-value: 9e-06
            Vac14_Fab1_bd  15 ialekkikeyleeivkpvlkcfsDkdsrvRyyacEslynia..kvakgevlkllneifdalvklvaDs 80 
                              i+ e++  e++  i++  l+  + k +++ yy +E +      k+    +l   ++i+d  +k++ D 
  PHY93_19095|PHY93_19095  91 IGFERDKPEFTGLILEQPLRLPQSKTEKIQYYRAENVLDRFknKIYYAVMLDACEDIYDEAFKVYKDI 158
                              677788889999999999******************9987611567788999*************996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (164 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       784  (0.043728); expected 358.6 (0.02)
Passed bias filter:                      475  (0.0264934); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.23s 00:00:00.63 Elapsed: 00:00:00.37
# Mc/sec: 1334.06
//
Query:       PHY93_19100|PHY93_19100  [L=120]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (120 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       579  (0.032294); expected 358.6 (0.02)
Passed bias filter:                      417  (0.0232584); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.38
# Mc/sec: 945.99
//
Query:       PHY93_19105|PHY93_19105  [L=169]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (169 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       333  (0.0185733); expected 358.6 (0.02)
Passed bias filter:                      307  (0.0171231); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 1260.17
//
Query:       PHY93_19110|PHY93_19110  [L=342]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
     0.0013   18.9   0.7     0.0029   17.7   0.7    1.6  1  SIR2_2        SIR2-like domain
  ------ inclusion threshold ------
      0.098   12.4   0.0       0.25   11.0   0.0    1.6  2  TPP_enzyme_M  Thiamine pyrophosphate enzyme, central domain


Domain annotation for each model (and alignments):
>> SIR2_2  SIR2-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   0.7   3.2e-07    0.0029       3     124 ..     152     310 ..     150     329 .. 0.61

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 3.2e-07
                   SIR2_2   3 iiTTNYDdllekaleesgkpvsdaavskedler...elseaesgrtllyklhGsl.srp...................esivltes 65 
                              ++T NYD  le a++++ ++   + +  +dl     ++s ++ +  +l   hG++ +                     +si +t+ 
  PHY93_19110|PHY93_19110 152 FVTWNYDLQLEYAFKSFCREELSWDYISQDLRFrisDKSTPNLEICHLNGYHGFYkT-DrgdyhildrtnsmeineilDSISFTST 236
                              89************5544443333344455544334456666666666666666652.2466667777777888888866666666 PP

                   SIR2_2  66 d.............Y...eellarktpiptllkallrskslLflGySfsDpnirell.eellkesgn.arrhyaflp 124
                              +             Y   +++l  +   +++++ + ++  ++++GySf  pn+++ + +el ++ ++ ++++y   p
  PHY93_19110|PHY93_19110 237 SlsqgtiditnhinYaweNNYL-AEASRNEAFRIFSETDIVIIIGYSF--PNFNKEIdKELFDRLKGrHTKVYYQDP 310
                              6555555544433333322222.255566666666678899*******..889999877888888884444444444 PP

>> TPP_enzyme_M  Thiamine pyrophosphate enzyme, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0      0.58   5.2e+03      11      26 ..       4      19 ..       2      24 .. 0.82
   2 ?   11.0   0.0   2.8e-05      0.25      40      92 ..     231     287 ..     224     309 .. 0.81

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 0.58
                             -SSEEEEE-CHHCHTT CS
             TPP_enzyme_M 11 akrpvilvGggvarsg 26
                              k++ +l+G g++r+ 
  PHY93_19110|PHY93_19110  4 QKKITFLLGAGASRNA 19
                             6899999999999765 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 2.8e-05
                              -EEEEEGGGTTSS-.TTSTTEEEESGGGSCHHHHHHH...HH-SEEEEES-SSSTCC CS
             TPP_enzyme_M  40 iPvvttlmgkgvip.edhplylgmlglhgskaaneal...eeaDlvlalGarfddir 92 
                              i +++t   +g+i+  +h +y+    +++ +++nea+    e+D+v+++G  f +++
  PHY93_19110|PHY93_19110 231 ISFTSTSLSQGTIDiTNHINYAWENNYLAEASRNEAFrifSETDIVIIIGYSFPNFN 287
                              778999********7788999998888887777777633378********9987754 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (342 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       485  (0.0270511); expected 358.6 (0.02)
Passed bias filter:                      321  (0.017904); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 2572.83
//
Query:       PHY93_19115|PHY93_19115  [L=256]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    8.9e-11   41.7   0.2    1.3e-10   41.2   0.2    1.1  1  Guanylate_cyc   Adenylate and Guanylate cyclase catalytic dom
     0.0082   16.8   0.7      0.026   15.2   0.7    1.8  1  putAbiC         Putative phage abortive infection protein
  ------ inclusion threshold ------
      0.015   16.1   1.1        1.1   10.0   0.1    2.4  2  MU117           Meiotically up-regulated gene family
      0.093   12.6   0.0       0.19   11.5   0.0    1.5  1  BH4             Bcl-2 homology region 4
        0.1   11.5   0.1        0.3    9.9   0.0    1.6  2  Phage_min_cap2  Phage minor capsid protein 2


Domain annotation for each model (and alignments):
>> Guanylate_cyc  Adenylate and Guanylate cyclase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.2   0.2   3.6e-14   1.3e-10      12     157 ..      53     207 ..      46     221 .. 0.84

  Alignments for each domain:
  == domain 1  score: 41.2 bits;  conditional E-value: 3.6e-14
            Guanylate_cyc  12 lFadIvgftalssahspievvklLnelyarfdelldekk.vykvktiGdaymvvsglp.eekaahaaklaelaLdmleal.eevav 94 
                              +F dI ++ +ls++ + + + k+   +++++  ll++ + +  v+++G++  ++ ++  +e+  h+  +a  a  ++ +l  + ++
  PHY93_19115|PHY93_19115  53 IFLDIMDSSKLSERYQKQTLAKIFRAYISEVVALLQSSNnCIDVNIVGNSVWAIYDSIkKEDVLHVFYAAYSANSLIRTLnYKLSQ 138
                              8**********************************98877**********999988775888999999999999999999667777 PP

            Guanylate_cyc  95 eskeglkvrvGihtGpvvagviG...akkprydvwGntvnlAsrmestgkagkiq...vseetyellke 157
                              +    +kv++Gi++G  ++ + G    +  +  + G  +n As + s + ++ i+   +s+++y+ l+ 
  PHY93_19115|PHY93_19115 139 KGIDPIKVGIGIDKGDALMMLAGnveSRINDVVYMGSVINDASHLCSKACKNAINeivISQAVYDDLSG 207
                              779************98877766442555667789*************99876654338***9999983 PP

>> putAbiC  Putative phage abortive infection protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.7   7.3e-06     0.026       7      44 ..      44      82 ..      39      95 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 7.3e-06
                  putAbiC  7 ghYFrnlyqilkfieesnkledee.kkkYakllraqLss 44
                             + Y+ n y i+  i++s kl+++  k++ ak++ra +s+
  PHY93_19115|PHY93_19115 44 NGYYLNCYSIFLDIMDSSKLSERYqKQTLAKIFRAYISE 82
                             77****************999875799********9997 PP

>> MU117  Meiotically up-regulated gene family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.1     0.013        48      44      77 ..      76     114 ..      18     135 .. 0.74
   2 ?   10.0   0.1   0.00032       1.1      10      43 ..     181     214 ..     173     252 .. 0.74

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.013
                    MU117  44 v...........egkakCtaiytcddyevtgkelkekaesirkkg 77 
                                          +++++C+      d+++ g+++++ ++si+k++
  PHY93_19115|PHY93_19115  76 FrayisevvallQSSNNCI------DVNIVGNSVWAIYDSIKKED 114
                              1334444444445578888......999**************995 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00032
                    MU117  10 stvkakaCdeAleklyeddtiydkytsrteesks 43 
                              s++ +kaC++A+++++ ++++yd+ + ++++ ++
  PHY93_19115|PHY93_19115 181 SHLCSKACKNAINEIVISQAVYDDLSGYKNKLDN 214
                              345678*****************99987755444 PP

>> BH4  Bcl-2 homology region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   5.4e-05      0.19      13      23 ..     132     142 ..     132     143 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 5.4e-05
                              HHHHHHHTT-- CS
                      BH4  13 vsYKLsQrGye 23 
                              ++YKLsQ+G +
  PHY93_19115|PHY93_19115 132 LNYKLSQKGID 142
                              69*******76 PP

>> Phage_min_cap2  Phage minor capsid protein 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.0   8.5e-05       0.3     106     179 ..      66     143 ..      55     150 .. 0.84
   2 ?   -1.4   0.0      0.23   8.4e+02      63     100 ..     177     212 ..     172     245 .. 0.65

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 8.5e-05
           Phage_min_cap2 106 lekseelqqlveaylkqtegelkNltnttal....tslekaYerildeavakvvsGafsyqqAirdtvkklaekGvrt 179
                                ++++l ++ +ay++++   l+  +n + +    +s+  +Y +i +e v+ v++ a s ++ ir    kl +kG+  
  PHY93_19115|PHY93_19115  66 RYQKQTLAKIFRAYISEVVALLQSSNNCIDVnivgNSVWAIYDSIKKEDVLHVFYAAYSANSLIRTLNYKLSQKGIDP 143
                              56789999999999999998887444444444478****************************************975 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.23
           Phage_min_cap2  63 iskltgksekelrkllkeagdkaiksddkelaiykeag 100
                              i++++    k+ +++++e+  ++   dd  l+ yk++ 
  PHY93_19115|PHY93_19115 177 INDASHLCSKACKNAINEIVISQAVYDD--LSGYKNKL 212
                              5555555555555555555555555555..55555443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (256 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       913  (0.0509231); expected 358.6 (0.02)
Passed bias filter:                      483  (0.0269396); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.39
# Mc/sec: 1958.89
//
Query:       PHY93_19120|PHY93_19120  [L=153]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (153 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       669  (0.0373138); expected 358.6 (0.02)
Passed bias filter:                      238  (0.0132746); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.18s 00:00:00.60 Elapsed: 00:00:00.37
# Mc/sec: 1246.40
//
Query:       PHY93_08925|PHY93_08925  [L=35]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-08   34.6   1.5    1.4e-08   34.5   1.5    1.0  1  GTP_EFTU  Elongation factor Tu GTP binding domain


Domain annotation for each model (and alignments):
>> GTP_EFTU  Elongation factor Tu GTP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.5   1.5   7.9e-13   1.4e-08       1      25 [.      10      34 ..      10      35 .] 0.93

  Alignments for each domain:
  == domain 1  score: 34.5 bits;  conditional E-value: 7.9e-13
                             TCEEEEEEEESTTSSHHHHHHHHHH CS
                 GTP_EFTU  1 krirnigiighvDhGKtTLtdrLly 25
                             k+++nig+ighvDhGKtTLt ++++
  PHY93_08925|PHY93_08925 10 KPHVNIGTIGHVDHGKTTLTAAITM 34
                             689******************9985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (35 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       220  (0.0122706); expected 358.6 (0.02)
Passed bias filter:                      177  (0.00987227); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.34u 0.18s 00:00:00.52 Elapsed: 00:00:00.34
# Mc/sec: 309.52
//
Query:       PHY93_16640|PHY93_16640  [L=644]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      7e-96  321.3   0.0    3.4e-61  207.1   0.0    2.1  2  tRNA-synt_1g  tRNA synthetases class I (M)
    1.3e-11   43.5   0.6    7.2e-06   24.5   0.0    2.7  3  tRNA-synt_1   tRNA synthetases class I (I, L, M and V)
    1.1e-07   31.5   0.0    0.00011   21.7   0.0    2.2  2  tRNA-synt_1e  tRNA synthetases class I (C) catalytic domain
    1.1e-06   28.7   0.1      2e-06   27.9   0.1    1.4  1  Anticodon_1   Anticodon-binding domain of tRNA
     0.0062   15.5   0.1        0.3   10.0   0.0    2.6  3  tRNA-synt_1f  tRNA synthetases class I (K)
  ------ inclusion threshold ------
       0.15   12.0   0.4        1.6    8.7   0.0    2.8  3  Slx4          Slx4 endonuclease


Domain annotation for each model (and alignments):
>> tRNA-synt_1g  tRNA synthetases class I (M)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  207.1   0.0   1.2e-64   3.4e-61       2     212 ..      25     244 ..      24     255 .. 0.94
   2 !  112.2   0.0   7.9e-36   2.4e-32     215     377 ..     307     485 ..     271     497 .. 0.87

  Alignments for each domain:
  == domain 1  score: 207.1 bits;  conditional E-value: 1.2e-64
                              EEEE--B--SS---HHHHH.HHHHHHHHHHHHHHT..T-EEEEEEEE---SHHHHHHHHHTTS-HHHHHHHHHHHHHHHHHHTT-- CS
             tRNA-synt_1g   2 lvttalpYangklHlGhll.evisaDifaRykrlr..geevlfvcgtDehGtpielkAekegvtpeelvekvheeikelfkklnis 84 
                              +vt ++pYang+lHlGhl+   ++ Di+aRy r+    e+vlfvcg+D hG ++e++A k+g t++e+++++h+++k++++++ is
  PHY93_16640|PHY93_16640  25 VVTGGMPYANGPLHLGHLAgALVPPDILARYMRMLigSENVLFVCGSDDHGSATEVAAIKNGQTVREFIDQIHDTQKSTLDRYAIS 110
                              79*****************99************9874456********************************************** PP

                              -SEEEETTSHH....HHHHHHHHHHHHHHTT-EEEEEEEEEEETTTTEEE-GGG-EE..........-TTS-EE-TTSSB-E.... CS
             tRNA-synt_1g  85 fdkygrttsee....hkelvqeifkklkekgliyekeieqlycpkderflpdryvegtCPk..ckseeargdqceecgkkleptel 164
                               + y+ t+s +    h+el+q++++kl+++g++++k+++q++++k +rfl+dr v+g+CP+  c +++a++d+ce cg++++p+el
  PHY93_16640|PHY93_16640 111 LNVYSGTSSPDcfpmHSELAQDFIRKLHKNGMLEKKTSKQWFDTKLNRFLQDRNVTGKCPNpnCTNDRAYSDECEVCGTQYDPSEL 196
                              ********9744444********************************************8777*********************** PP

                              ............EEE.EEEEEE-GGGGHHHHHHHH.HH-TTSHHHHHH CS
             tRNA-synt_1g 165 inpksaisgskpevketehlffklskfekklkewieeeekeleenvkk 212
                              +npksa+s+++p++k+t h++++l +++++l ewi++++ ++++ v +
  PHY93_16640|PHY93_16640 197 QNPKSALSDTAPILKDTVHWWLDLWSVSDQLLEWIQTKQGKWRTPVFN 244
                              ***********************************9998889887655 PP

  == domain 2  score: 112.2 bits;  conditional E-value: 7.9e-36
                              .HHHHT----EE-ESS-SSS-EET.....TECCEEE-HHHHHHHHHHHTTTTT-...TTSG.GGG.G--S......EEEEEGGGHH CS
             tRNA-synt_1g 215 kewlkegLkdlaisrdldwGipvP.....gaekkvlYVWldAligYisatkelakkkgeee.kwkeyWakdkevelvhfigkdiik 294
                                +l +g   ++i+rd++wGip+P     + e+k+lYVW d li  is++k   k++g++  +++++W kd+e+++ +f+g+d+++
  PHY93_16640|PHY93_16640 307 TCTLLDGWAHRSITRDISWGIPLPkdldpEMEGKTLYVWPDSLIAPISFSKVALKNQGRDIkEYEKFW-KDPEARIFQFLGQDNVY 391
                              3456678999*************98888899***********************999887659*****.99*************** PP

                              HHHTHHHHHHHH..........TT----S-EEEE--EEE--------------HHHHHHH..H-HHHHHHHHHHHS-TTS-EEE-H CS
             tRNA-synt_1g 295 FHtifwPaillg..........aelklpkkvvaheyltvegkKlSkSrgvvvkakealer..ldadllRYylaaeapekkDldfsw 368
                              F  ++  a+ lg          a+  +++ v+   +l+v+g+K+SkS g++ + +++l++  ++ad++RY+la  +  +k ++f +
  PHY93_16640|PHY93_16640 392 FYVLMQGAMWLGiqddphhlplAGELQLTDVFGCFHLMVDGEKMSKSTGNFFTGDQMLDEkgYEADQVRYFLALLSLPEKTSNFDF 477
                              ************88777655554555999*****************************9889************999999999999 PP

                              HHHHHHHHH CS
             tRNA-synt_1g 369 edfvervNs 377
                              ++f er N+
  PHY93_16640|PHY93_16640 478 NTFDER-NK 485
                              999877.44 PP

>> tRNA-synt_1  tRNA synthetases class I (I, L, M and V)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.5   0.0   2.4e-09   7.2e-06      19      81 ..      18      83 ..      10     168 .. 0.72
   2 ?   -4.2   0.1       1.2   3.6e+03     360     396 ..     196     232 ..     191     241 .. 0.77
   3 !   16.4   0.0   6.8e-07     0.002     559     594 ..     430     468 ..     422     476 .. 0.81

  Alignments for each domain:
  == domain 1  score: 24.5 bits;  conditional E-value: 2.4e-09
              tRNA-synt_1 19 ekekkefilvdgPPyvtGslHiGhalaktl.kdivirykrm..kGkevlyvpGwDhaGlaieakve 81
                              k+ k+ +++ g Py++G lH+Gh     +  di+ ry rm    ++vl+v G D +G a+e +  
  PHY93_16640|PHY93_16640 18 LKRPKKAVVTGGMPYANGPLHLGHLAGALVpPDILARYMRMliGSENVLFVCGSDDHGSATEVAAI 83
                             5556677888999***********88776646*******99433579**************97643 PP

  == domain 2  score: -4.2 bits;  conditional E-value: 1.2
              tRNA-synt_1 360 hsvpfcerskkpiiyrateqWfvrvkeladaalkave 396
                              ++ p +  s++  i + t  W+  + ++ d++l+ ++
  PHY93_16640|PHY93_16640 196 LQNPKSALSDTAPILKDTVHWWLDLWSVSDQLLEWIQ 232
                              5667777788888889999999999999999998776 PP

  == domain 3  score: 16.4 bits;  conditional E-value: 6.8e-07
              tRNA-synt_1 559 eeGrKmSKslgNvidpldvikkyg..adalRltli.lsd 594
                               +G KmSKs gN    +++++++g  ad +R++l+ ls 
  PHY93_16640|PHY93_16640 430 VDGEKMSKSTGNFFTGDQMLDEKGyeADQVRYFLAlLSL 468
                              58******************987755899*****95554 PP

>> tRNA-synt_1e  tRNA synthetases class I (C) catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.5   0.0   0.00078       2.3      22     133 ..      36     154 ..      18     167 .. 0.72
   2 !   21.7   0.0   3.7e-08   0.00011     246     282 ..     427     465 ..     418     480 .. 0.86

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.00078
                              --BHHH.HHHHHHHHHHHHHHHH.TT.-EEEEEEEBB--SHHHHHHHHHTTS-HHHHHHH....HHHHHHHHHHHTT----SB--B CS
             tRNA-synt_1e  22 ashlGh.aRslvafDilrrilqa.lg.YdvqfvqnvtDidDkiikrareeeksvkelaek....fieefkkdleaLnvlkptlepr 100
                                hlGh a +lv  Dil+r++++ +g  +v fv    D        a +++++v+e+ ++    + + + +   +Lnv   t +p 
  PHY93_16640|PHY93_16640  36 PLHLGHlAGALVPPDILARYMRMlIGsENVLFVCGSDDHGSATEVAAIKNGQTVREFIDQihdtQKSTLDRYAISLNVYSGTSSPD 121
                              57****56678899********98552689***99999777666666666666555555500005555555566899999999999 PP

                              GGGGHHHH.HHHHHHHHHTTSEEE-TTS-EEE-G CS
             tRNA-synt_1e 101 vsekvdei.ielvekliekgyaYavsdgdvyfdv 133
                                   +e+  +++ kl ++g+  + +  +  fd+
  PHY93_16640|PHY93_16640 122 CFPMHSELaQDFIRKLHKNGMLEKKT-SKQWFDT 154
                              88877776258999999999865555.5555555 PP

  == domain 2  score: 21.7 bits;  conditional E-value: 3.7e-08
                              -EEETTBE--TTTT---BHHHHH..TTS-HHHHHHHHHS CS
             tRNA-synt_1e 246 hlkiegekmsksLknfitikdvl..kkfdprqlRlllls 282
                              hl+++gekmsks +nf+t  ++l  k +++ q+R++l+ 
  PHY93_16640|PHY93_16640 427 HLMVDGEKMSKSTGNFFTGDQMLdeKGYEADQVRYFLAL 465
                              89*********************55569********975 PP

>> Anticodon_1  Anticodon-binding domain of tRNA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.9   0.1   6.6e-10     2e-06       6      91 ..     521     604 ..     517     632 .. 0.82

  Alignments for each domain:
  == domain 1  score: 27.9 bits;  conditional E-value: 6.6e-10
              Anticodon_1   6 selnklvkevteayeeyrfnkaasalyeffwndlcdwylelvkprlysesaedkra.aqevllevletllrllaPfmPfitEelwq 90 
                              +e+ ++v+++ +++e+ ++++ + a+ +     l + ++   kp+ + + +e++ra a + +++vl++l+++l+Pf+P +++++ q
  PHY93_16640|PHY93_16640 521 KETMQIVQRYLKSMEKAEYSTLLFAVENY--ARLINSFFVQYKPHDD-RAPEESRAdALYSCFYVLKNLMIMLYPFAPVTMDKVRQ 603
                              6788999******************9996..5566666666688874.455666788************************99874 PP

              Anticodon_1  91 r 91 
                              +
  PHY93_16640|PHY93_16640 604 S 604
                              4 PP

>> tRNA-synt_1f  tRNA synthetases class I (K)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.0      0.02        59      21      73 ..      20      76 ..       9     108 .. 0.73
   2 !   10.0   0.0   9.9e-05       0.3     278     322 ..     431     478 ..     422     486 .. 0.75
   3 ?   -2.5   0.0      0.61   1.8e+03     150     184 ..     519     553 ..     512     566 .. 0.75

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.02
             tRNA-synt_1f 21 ekdevvvesGis.pSGliHiGnlr.evltadlvaralrkr..geevrlilisDdmDg 73
                             + ++ vv  G+  + G++H+G l    + +d++ar +r +  +e+v +++ sDd+  
  PHY93_16640|PHY93_16640 20 RPKKAVVTGGMPyANGPLHLGHLAgALVPPDILARYMRMLigSENVLFVCGSDDHGS 76
                             356778888876357*******98356678999999999853444999999999765 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 9.9e-05
             tRNA-synt_1f 278 ggekmssSkGnvltledwle..vaepevlrfl.ilrrkPkkakkldld 322
                               gekms+S+Gn++t +++l+   +e + +r++  l + P+k  ++d++
  PHY93_16640|PHY93_16640 431 DGEKMSKSTGNFFTGDQMLDekGYEADQVRYFlALLSLPEKTSNFDFN 478
                              567***************963345566666651556789999999887 PP

  == domain 3  score: -2.5 bits;  conditional E-value: 0.61
             tRNA-synt_1f 150 nrekikeilekyrgeereetyspylpvcekcgrvd 184
                               +++ ++i+++y+++ ++++ys +l   e+  r+ 
  PHY93_16640|PHY93_16640 519 AEKETMQIVQRYLKSMEKAEYSTLLFAVENYARLI 553
                              46788999999999999999999888877777654 PP

>> Slx4  Slx4 endonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.1      0.42   1.3e+03      27      55 ..     131     155 ..     129     155 .. 0.87
   2 ?    8.7   0.0   0.00055       1.6      42      60 ..     291     309 ..     263     310 .. 0.82
   3 ?   -3.8   0.0       4.5   1.4e+04      21      34 ..     593     606 ..     588     607 .. 0.82

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.42
                              HHHHHHHHHH-GGGGGS-HHHHHHHHHHH CS
                     Slx4  27 edltawLnteglglkevdpaelrewcdsk 55 
                              +d+++ L ++g+    +++++ ++w d+k
  PHY93_16640|PHY93_16640 131 QDFIRKLHKNGM----LEKKTSKQWFDTK 155
                              589999999988....999999***9976 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 0.00055
                              GS-HHHHHHHHHHHT--EE CS
                     Slx4  42 evdpaelrewcdskgIcct 60 
                              + d++e ++++++kgI+ct
  PHY93_16640|PHY93_16640 291 KADMNEAKRMLEEKGITCT 309
                              8899**************8 PP

  == domain 3  score: -3.8 bits;  conditional E-value: 4.5
                              T--EEHHHHHHHHH CS
                     Slx4  21 YePIvLedltawLn 34 
                              + P++++++++ Ln
  PHY93_16640|PHY93_16640 593 FAPVTMDKVRQSLN 606
                              78999999999887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (644 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       825  (0.0460148); expected 358.6 (0.02)
Passed bias filter:                      732  (0.0408277); expected 358.6 (0.02)
Passed Vit filter:                        61  (0.00340231); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.68u 0.21s 00:00:00.89 Elapsed: 00:00:00.39
# Mc/sec: 4894.96
//
Query:       PHY93_08950|PHY93_08950  [L=252]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.2e-25   88.6   0.1    1.3e-24   87.0   0.1    1.7  2  SpoU_methylase  SpoU rRNA Methylase family
     0.0012   19.1   0.1     0.0036   17.6   0.1    2.0  2  SpoU_sub_bind   RNA 2'-O ribose methyltransferase substrate b
  ------ inclusion threshold ------
      0.086   12.8   0.0         31    4.6   0.1    3.2  3  YAcAr           YspA, cpYpsA-related SLOG family


Domain annotation for each model (and alignments):
>> SpoU_methylase  SpoU rRNA Methylase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0      0.44   2.6e+03      62      88 ..      10      36 ..       5      55 .. 0.73
   2 !   87.0   0.1   2.1e-28   1.3e-24       3     141 ..     109     247 ..     108     248 .. 0.93

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.44
                             SSHHHHHHHHCCCTEEEEEESTT-SEG CS
           SpoU_methylase 62 dsleealkelkeegfalvatslkgksl 88
                             +s++ealk+ +++ f++vat+++ ++l
  PHY93_08950|PHY93_08950 10 HSIAEALKNPERAIFEIVATEEGLDDL 36
                             578888888888888888887755544 PP

  == domain 2  score: 87.0 bits;  conditional E-value: 2.1e-28
                              EEEEES-SSHHHHHHHHHHHHHTT-SEEEEESGSSCTCGSHHHHHHCTTHHHHHHEEEESSHHHHHHHHCCCTEEEEEEST.T-SE CS
           SpoU_methylase   3 ivvlveiedpgNlGaiaRtakafgaselvlvkprsadllnpeakraaagalevlelkvvdsleealkelkeegfalvatsl.kgks 87 
                              i++l++++d++N  ai+Rta+ +g++ +++++ +++  l p + r+a+ga e++++++ + l ++++++ke g  ++++s+  + +
  PHY93_08950|PHY93_08950 109 ILALDQVTDAHNGAAIMRTAAFYGVDVILISA-KGNFGLGPGFSRIASGATEHVKIVKCSALPKTITKIKELGAICIGLSEhASGT 193
                              689**********************6666666.55559*******************************************66668 PP

                              GCCSHHHTTEEEEEEBTTTBS-HHHHCTSSEEEE----TTSSS--HHHHHHHHH CS
           SpoU_methylase  88 lseidlkekvalvfGnEdkGlsnelleladrlvkIpmsgeveSLNvavAvaill 141
                              l+ei  +++v+lv+G Ed G+s+ + + ++ ++  + +g+++SLNv+vA+ai++
  PHY93_08950|PHY93_08950 194 LEEIPKTKPVCLVLGAEDVGMSHAVSRVVETTIAFKPAGKIKSLNVSVAAAIAM 247
                              88**************************************************97 PP

>> SpoU_sub_bind  RNA 2'-O ribose methyltransferase substrate binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.1     6e-07    0.0036       2      31 ..       6      36 ..       5      85 .. 0.81
   2 ?   -3.1   0.0       1.7   9.9e+03      60      66 ..     116     122 ..     101     139 .. 0.57

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 6e-07
            SpoU_sub_bind  2 iyGlhaVleaLksgrr.iekllvtegradkr 31
                             i+G+h++ eaLk+++r i +++ te+  d+ 
  PHY93_08950|PHY93_08950  6 IIGIHSIAEALKNPERaIFEIVATEEGLDDL 36
                             89************999*****999933333 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 1.7
            SpoU_sub_bind  60 tanHQGv 66 
                              t+ H+G 
  PHY93_08950|PHY93_08950 116 TDAHNGA 122
                              3444443 PP

>> YAcAr  YspA, cpYpsA-related SLOG family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   0.0     0.016        95       8      33 ..      58      82 ..      52      87 .. 0.79
   2 ?    4.6   0.1    0.0051        31      20      45 ..     111     136 ..     109     139 .. 0.92
   3 ?    0.6   0.0     0.096   5.7e+02      41      61 ..     208     229 ..     191     231 .. 0.70

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.016
                    YAcAr  8 grdfadleliwatLdklhaeapidmv 33
                             ++  ++ ++i+++Ld   +++p++ v
  PHY93_08950|PHY93_08950 58 HALQEEAKMIYRELDYEFQRVPSQ-V 82
                             55567899**************64.3 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.0051
                    YAcAr  20 tLdklhaeapidmvlvhGga.kGaDrl 45 
                              +Ld++   +   ++++ ++a  G+D +
  PHY93_08950|PHY93_08950 111 ALDQVTDAHN-GAAIMRTAAfYGVDVI 136
                              7*********.7************987 PP

  == domain 3  score: 0.6 bits;  conditional E-value: 0.096
                    YAcAr  41 GaDrlAarWAaergvel.vrfp 61 
                              Ga++   ++A +r ve+ ++f+
  PHY93_08950|PHY93_08950 208 GAEDVGMSHAVSRVVETtIAFK 229
                              7788888888888877656666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (252 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       390  (0.0217525); expected 358.6 (0.02)
Passed bias filter:                      354  (0.0197445); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.42u 0.24s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1949.50
//
Query:       PHY93_08955|PHY93_08955  [L=570]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      2e-44  151.7   0.0      3e-44  151.1   0.0    1.3  1  tRNA-synt_2b    tRNA synthetase class II core domain (G, H, P
    1.6e-16   60.5   0.0    3.3e-16   59.5   0.0    1.5  1  tRNA_edit       Aminoacyl-tRNA editing domain
    3.3e-15   56.0   0.1    7.7e-15   54.8   0.1    1.6  1  HGTP_anticodon  Anticodon binding domain


Domain annotation for each model (and alignments):
>> tRNA-synt_2b  tRNA synthetase class II core domain (G, H, P, S and T)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  151.1   0.0     5e-48     3e-44       2     179 .]      95     461 ..      94     461 .. 0.98

  Alignments for each domain:
  == domain 1  score: 151.1 bits;  conditional E-value: 5e-48
                              EEEETTSEEEEE-SSSHHHHHHHHHHHEEEB.GGSSEEEEEEEEEEBTTTSTBC.TTTB-SEEEEEEEEEEES.GGGHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxx.xxxxxxxxxxxx RF
             tRNA-synt_2b   2 kledrndreyiLkPtneetfvelirdevlrs.krLPlklyqiqtkyRdEksdsr.GLlRvreFhqkdgyvfha.easlddslrdli 84 
                              +++d++d ++++ Ptnee+++ ++r+  ++s k+LP+ +yqi tk+RdE +  r GL+R+reF++kd+y fh  +asld  ++++ 
  PHY93_08955|PHY93_08955  95 RFKDKKDADLCISPTNEEAVTDIFRKT-VKSyKQLPVGFYQINTKFRDEIR-PRfGLMRGREFTMKDAYTFHMdKASLDAGYQEMY 178
                              799**********************99.***778*****************.888******************99*********** PP

                              HHHHHHHHHTT.SCEEEEEEGTTSCBTTSEEEEEEEEETT.............................................. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.............................................. RF
             tRNA-synt_2b  85 kaisriferlglefraiielmsaksadykdkkefeavses.............................................. 124
                               a+  if rlglef  ++ + +a+ a  +++ ef++v                                                 
  PHY93_08955|PHY93_08955 179 DAYTAIFTRLGLEFIPVEADPGAMAAADSKTHEFQVVADAgedliiysqeaqyaanaekaqtlrpkteydlnltgltevttpnktt 264
                              ********************888889999999*****9999********************************************* PP

                              ...................................................................................... CS
                              ...................................................................................... RF
             tRNA-synt_2b 125 ...................................................................................... 124
                                                                                                                    
  PHY93_08955|PHY93_08955 265 iedvcsffnkphhhslksliyvattgtesklilalllgddslneiklqaylkcdhliaatdeqmkaaklwkgfigpvgvssdlkiv 350
                              ************************************************************************************** PP

                              ........................................................TSEEEEEEEEEEEETHHHHHTTEEEECTTS CS
                              ........................................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             tRNA-synt_2b 125 ........................................................ltkgieigtiqklgtrlserlgatvldenn 154
                                                                                       ++gie+g++++lg+++ + ++a +ld+n+
  PHY93_08955|PHY93_08955 351 fdksinldasyivgankkdthaegfnpkrdakdiavadlrlaragdltldgkhtvvEKRGIEVGHVFQLGDKYTKDMRAGILDHNG 436
                              *******************************************************8899*************************** PP

                              SEEEEEEEEEEEEHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxx RF
             tRNA-synt_2b 155 reksvimicaaigveRllsaileqn 179
                              +  ++ m+c++igv+R+++a++eqn
  PHY93_08955|PHY93_08955 437 KLVTPLMGCYGIGVTRVVAAAIEQN 461
                              ***********************98 PP

>> tRNA_edit  Aminoacyl-tRNA editing domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.5   0.0   5.5e-20   3.3e-16       1     115 [.     259     374 ..     259     380 .. 0.95

  Alignments for each domain:
  == domain 1  score: 59.5 bits;  conditional E-value: 5.5e-20
                tRNA_edit   1 tpgtktieelaaalgvdpsaiaKtlvlkd...kkgelvlvllpgdreldlkklakllgakklrlaseeelrellgvepGgvgPlgl 83 
                              tp+ +tie+++++++ + +  +K+l++ +    +++l+l+ll gd +l++ kl++ l++  l  a++e+++++ ++ +G++gP+g+
  PHY93_08955|PHY93_08955 259 TPNKTTIEDVCSFFNKPHHHSLKSLIYVAttgTESKLILALLLGDDSLNEIKLQAYLKCDHLIAATDEQMKAA-KLWKGFIGPVGV 343
                              7999************************98877777************************************9.************ PP

                tRNA_edit  84 kaagvpvllDeslkeyptvvvgagengatlel 115
                                 ++++++D+s+      +vga++++++ e 
  PHY93_08955|PHY93_08955 344 -SSDLKIVFDKSINLDASYIVGANKKDTHAEG 374
                              .8**************************9876 PP

>> HGTP_anticodon  Anticodon binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.8   0.1   1.3e-18   7.7e-15       7      93 ..     483     569 ..     477     570 .] 0.93

  Alignments for each domain:
  == domain 1  score: 54.8 bits;  conditional E-value: 1.3e-18
                              SSSSHHHHHHHHHHHHHHHHTTTSEEEEESSSSTHHHHHHHHHHTT-SEEEEE-HHHHHH.TEEEEEETTTCEEEEEETTHHHHHH CS
           HGTP_anticodon   7 lnekaeeleeyakklaeeLraagirvelddsnesigkkireadllgipfavvvGekelek.gtvtvrdrdtreqervsldelvekl 91 
                              + + aee+ + a++l+ e+ +ag++v++dd+n  +g k++++dllg p++vv+Ge+++   g+++v dr+t    +v+ delv+ l
  PHY93_08955|PHY93_08955 483 IVK-AEEFVKIADDLYIEMMDAGLEVVYDDRNVGPGNKFKDSDLLGLPYRVVLGERDFGAsGELEVIDRKTAIVTKVKKDELVSTL 567
                              555.679***************************************************888***********99***********9 PP

                              HH CS
           HGTP_anticodon  92 ke 93 
                              k+
  PHY93_08955|PHY93_08955 568 KN 569
                              97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (570 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       398  (0.0221987); expected 358.6 (0.02)
Passed bias filter:                      355  (0.0198003); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.39
# Mc/sec: 4420.74
//
Query:       PHY93_08960|PHY93_08960  [L=304]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.1e-99  330.5   0.1    9.3e-99  330.3   0.1    1.0  1  LpxC      UDP-3-O-acyl N-acetylglycosamine deacetylase


Domain annotation for each model (and alignments):
>> LpxC  UDP-3-O-acyl N-acetylglycosamine deacetylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  330.3   0.1  5.2e-103   9.3e-99       1     269 [.       4     273 ..       4     274 .. 0.99

  Alignments for each domain:
  == domain 1  score: 330.3 bits;  conditional E-value: 5.2e-103
                              EEEESS-EEEEEE-TTT-SEEEEEEEE--TT-EEEEEETTSSETEE.ESSGGGEEEESSSEEEEETTEEEB--HHHHHHHHHTT-- CS
                     LpxC   1 qrTlkksvslsGvGLhsGekvevtlkPaeantGivfrrtdlpekei.pasienvsdtklsttlgkkgvkvstvEHllaAlaalgid 85 
                              qrT++k++s++G+G+hsG+kv++tl+Paea+ G+ f+r+d+p++++ +a++e+v +t+  tt+g+    v+tvEHll+A++++gid
  PHY93_08960|PHY93_08960   4 QRTIAKKISVTGIGIHSGKKVTLTLHPAEADFGVQFKRVDIPNAPVlKANAETVGATENNTTIGTGANAVHTVEHLLSAFYGFGID 89 
                              99****************************************99999*****************889******************* PP

                              SEEEEESSSB---TTSSSHHHHHHHHHHTEEEEEEE--EEEE-S-EEEEETTEEEEEEE-SSEEEEEEEEESSTTCCCCEEEEETT CS
                     LpxC  86 nalievdgeEvPilDGSaaefveaieeagikeqeaerkvlrvkkpveveegdkfvallPsdelklsveidfehpaigeqslslels 171
                              n++ e++g+EvPi+DGS a+fv +++e+gi++ ++++k+l v ++v+ve +dk+++++P+++l ++ +i f+hp+i++q+  +e+s
  PHY93_08960|PHY93_08960  90 NVFCEINGPEVPIMDGSGASFVFLLKETGIVTLNKSKKFLIVLEKVRVEVDDKWAEIEPASKLIIDSTIVFAHPTIKTQNKVFEFS 175
                              ************************************************************************************** PP

                              CCHHHHHTTT--EEEEHHHHHHHHHTTSSTT-STTTSEEEESSSBSSTT--SSTTHHHHHHHHHHHHHHGGGSSEEEEEEEEES-- CS
                     LpxC 172 eesfakeiapARTFgflkevealrkaglakGgsldnavvideekvlneeglrfedEfvrHKiLDliGDLallgapllghvvaykag 257
                               e++ +ei +ARTFg+lk+v+al+++gl+kGgsldna+v+d++kv+n+eglrf dEfvrHKiLD +GD++llg  + g+++ +k+g
  PHY93_08960|PHY93_08960 176 CENYINEIGRARTFGLLKDVDALKRKGLIKGGSLDNAIVLDDYKVVNPEGLRFIDEFVRHKILDTVGDISLLGFEIAGKITTHKSG 261
                              ************************************************************************************** PP

                              HHHHHHHHHHHH CS
                     LpxC 258 Halnnkllrall 269
                              H+l+n l+r+ll
  PHY93_08960|PHY93_08960 262 HNLHNLLCRKLL 273
                              **********97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (304 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       346  (0.0192983); expected 358.6 (0.02)
Passed bias filter:                      317  (0.0176809); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.19s 00:00:00.67 Elapsed: 00:00:00.38
# Mc/sec: 2402.04
//
Query:       PHY93_08965|PHY93_08965  [L=139]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.2e-14   51.7   0.0    1.2e-13   51.2   0.0    1.3  1  4HBT      Thioesterase superfamily


Domain annotation for each model (and alignments):
>> 4HBT  Thioesterase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.2   0.0   6.5e-18   1.2e-13       4      78 ..      54     128 ..      51     129 .. 0.96

  Alignments for each domain:
  == domain 1  score: 51.2 bits;  conditional E-value: 6.5e-18
                              B-HHHHHHHHHHHHHHHHHHTTST.TEEEEEEEEEEEESS-BBTTCEEEEEEEEEEEESSEEEEEEEEEETTSCEE CS
                     4HBT   4 vhgGvylallDeaagaalrslggr.gilvvvvelsidflrpvrlgdeltvearvlrlgrtsavvevevrdedgrlv 78 
                              +hgG+   l+++ +++a++ + ++ + ++v+ +++++++r+++ g  +t +ar ++lgr+s+ +++e+++edg+ +
  PHY93_08965|PHY93_08965  54 LHGGASCVLAESLGSIAANLCIDTkEFMAVGQHIEATHIRSATKG-IVTGKARAIHLGRSSQIWRIEICNEDGKMI 128
                              9********************************************.**************************9866 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (139 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       284  (0.0158403); expected 358.6 (0.02)
Passed bias filter:                      252  (0.0140554); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.22s 00:00:00.61 Elapsed: 00:00:00.39
# Mc/sec: 1075.78
//
Query:       PHY93_08970|PHY93_08970  [L=338]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.6e-73  245.0   0.1    4.2e-73  244.3   0.1    1.3  1  RuvB_N           Holliday junction DNA helicase RuvB P-loop d
    5.4e-26   90.3   0.1      1e-25   89.4   0.1    1.5  1  RuvB_C           RuvB C-terminal winged helix domain
    1.3e-22   79.3   0.6    4.3e-22   77.7   0.1    2.1  2  AAA_lid_4        RuvB AAA lid domain
    2.3e-17   63.7   0.1    6.4e-17   62.2   0.0    1.8  1  AAA              ATPase family associated with various cellul
      3e-09   37.0   0.1    3.2e-07   30.4   0.1    2.5  1  AAA_5            AAA domain (dynein-related subfamily)
    6.9e-09   35.4   0.1    5.1e-06   25.9   0.0    2.3  2  TIP49            TIP49 P-loop domain
    7.9e-05   21.9   0.3      0.089   11.9   0.0    2.5  3  DUF815           Protein of unknown function (DUF815)
    0.00015   22.2   0.0     0.0015   19.0   0.0    2.2  2  AAA_16           AAA ATPase domain
    0.00016   21.1   0.6       0.21   11.0   0.1    2.6  3  Mg_chelatase     Magnesium chelatase, subunit ChlI
    0.00026   20.7   0.6      0.091   12.5   0.0    2.5  3  Sigma54_activat  Sigma-54 interaction domain
     0.0008   19.3   0.0      0.052   13.4   0.0    2.4  1  AAA_3            ATPase family associated with various cellul
     0.0024   17.9   0.0        1.7    8.6   0.0    2.3  2  ResIII           Type III restriction enzyme, res subunit
  ------ inclusion threshold ------
      0.013   15.4   0.0      0.025   14.5   0.0    1.4  1  Rad17            Rad17 P-loop domain
      0.014   15.2   0.5       0.32   10.7   0.1    2.8  2  IstB_IS21        IstB-like ATP binding protein
      0.017   15.1   0.0      0.056   13.5   0.0    1.8  1  AAA_14           AAA domain
      0.025   14.9   1.1        7.4    6.8   0.0    2.7  3  AAA_22           AAA domain
      0.029   14.4   0.1       0.24   11.4   0.0    2.2  2  TsaE             Threonylcarbamoyl adenosine biosynthesis pro
      0.029   13.8   0.0        1.6    8.1   0.0    2.2  2  TniB             Bacterial TniB protein
       0.05   12.7   0.5       0.88    8.6   0.1    2.3  2  MCM              MCM P-loop domain
       0.06   13.2   0.3        2.8    7.8   0.0    2.4  2  NTPase_1         NTPase
      0.061   13.7   0.0        0.2   12.1   0.0    1.9  1  RNA_helicase     RNA helicase
       0.13   11.8   0.0       0.91    9.1   0.0    2.1  2  AAA_25           AAA domain
        0.2   11.1   0.2          6    6.4   0.0    2.4  2  AAA_7            P-loop containing dynein motor region


Domain annotation for each model (and alignments):
>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  244.3   0.1   5.4e-76   4.2e-73       1     157 [.      28     184 ..      28     186 .. 0.98

  Alignments for each domain:
  == domain 1  score: 244.3 bits;  conditional E-value: 5.4e-76
                   RuvB_N   1 lrPksleeyigqekvkeklkifieaakkreealdhvllyGpPGlGkttlakiiakelgvklkitsgPvlekagdlaalltnleekd 86 
                              lrP+ ++ey+gq+kv +++++++e+ak r++a+dh ll+GpPGlGkt+la+iiak +g++l++ sgP++ek+gdlaa+ltnl ++d
  PHY93_08970|PHY93_08970  28 LRPTDFSEYVGQKKVVQNVEVMVESAKIRNSAMDHALLSGPPGLGKTSLAMIIAKSIGSDLHVISGPAIEKKGDLAAILTNLGPRD 113
                              8************************************************************************************* PP

                   RuvB_N  87 vlfideihrlsraveevlysamedfrldivigkGpsarsikldlpkftlvgattragllssPlrdrfgiva 157
                              vlfideihr++ +vee+lysamed+rldivig+Gpsar++++++++ftl+gattr+glls+Plrdrf  + 
  PHY93_08970|PHY93_08970 114 VLFIDEIHRMNISVEEILYSAMEDYRLDIVIGQGPSARTMQIQIAPFTLIGATTRSGLLSNPLRDRFMAHL 184
                              *******************************************************************8765 PP

>> RuvB_C  RuvB C-terminal winged helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   89.4   0.1   1.3e-28     1e-25       2      71 ..     264     333 ..     263     334 .. 0.98

  Alignments for each domain:
  == domain 1  score: 89.4 bits;  conditional E-value: 1.3e-28
                              T---HHHHHHHHHHHHT.TT--B-HHHHHHHTT--HHHHHHTTHHHHHHTTSEEEETTEEEE-HHHHHHH CS
                   RuvB_C   2 lGLdeldikyLkllkekfkggpvglktlaailgeeketiedviEPyLlkeglIertsrGRilTkkglkyl 71 
                              lGLd++d+k+L+++ + +kggpvg++tl+a+l e+++tiedv+EPyLlkeg++ rt+rGR++++k+ ++l
  PHY93_08970|PHY93_08970 264 LGLDRMDRKILQVIEDYYKGGPVGIETLCATLAEDRTTIEDVYEPYLLKEGFLLRTPRGREISQKSRDHL 333
                              7*****************************************************************9998 PP

>> AAA_lid_4  RuvB AAA lid domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0       3.1   2.4e+03      43      63 ..      26      46 ..      22      57 .. 0.79
   2 !   77.7   0.1   5.5e-25   4.3e-22       1      74 []     189     262 ..     189     262 .. 0.99

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 3.1
                AAA_lid_4 43 LLrRvrDfaqvkgdgkitkev 63
                             +L R  Df++  g++k+ ++v
  PHY93_08970|PHY93_08970 26 VLLRPTDFSEYVGQKKVVQNV 46
                             566788999999998887765 PP

  == domain 2  score: 77.7 bits;  conditional E-value: 5.5e-25
                AAA_lid_4   1 YeeeeLeeivkrsakilgveieeegaaeiarRsRGTPRianrLLrRvrDfaqvkgdgkitkevakkaLellevd 74 
                              Y+++eL eiv   ak l++ +e+++ + +ar +RGTPRianr+LrRvrDf+ vkg++ i++e +kk+L+l+e+d
  PHY93_08970|PHY93_08970 189 YNHQELVEIVGNNAKKLKLILEKSALELMARCARGTPRIANRILRRVRDFSLVKGETLISEESVKKSLSLMEID 262
                              99**********************************************************************98 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.2   0.0   8.3e-20   6.4e-17       2     130 ..      64     186 ..      63     188 .. 0.93

  Alignments for each domain:
  == domain 1  score: 62.2 bits;  conditional E-value: 8.3e-20
                              EEESSTTSSHHHHHHHHHHHHTHEEEEEETTTCSSSSTTHHHHHHHHHHHHHHHTSTS.EEEEEETGGGHHHHHTTCCCHHHHHHH CS
                      AAA   2 llyGppGtGKTllakavakelgvefleisgsellskyvgesekkirelfkeakekakp.silfiDEidalaksrsgseseeeervv 86 
                              ll+GppG GKT+la  +ak++g+++  isg+ +       ++ +++++++++     p  +lfiDEi++++ s             
  PHY93_08970|PHY93_08970  64 LLSGPPGLGKTSLAMIIAKSIGSDLHVISGPAIE------KKGDLAAILTNLG----PrDVLFIDEIHRMNISV-----------E 128
                              8*********************************......99*******9974....448**********7777...........* PP

                              HHHHHHHHHTTTS...............SSTEEEEEEESSGGGSTHHHHSTTSSEEEET CS
                      AAA  87 nqLlteldgvkkk...............eskvivigatnrpdkldpallrgRfdrkiei 130
                              + L++++++++ +                +++++igat+r   l+++l+ +Rf  ++++
  PHY93_08970|PHY93_08970 129 EILYSAMEDYRLDivigqgpsartmqiqIAPFTLIGATTRSGLLSNPLR-DRFMAHLHF 186
                              ****************************777******************.***988876 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.4   0.1   4.2e-10   3.2e-07       2     138 .]      63     180 ..      62     180 .. 0.88

  Alignments for each domain:
  == domain 1  score: 30.4 bits;  conditional E-value: 4.2e-10
                              EEEE--SSSSHHHHHHHGGGGBS--EEEEE--TT--HHHHH--B--.........--------G-SEEEEESGGG--HHHHHHHHH CS
                    AAA_5   2 vlLvGppGtgKselaerlaaalnreveyvqltrdtteedlkgrreikngttslvdsplvraaregeilvlDEveraesevlnsLls 87 
                               lL GppG gK++la+ +a+ +++ ++++ +++  ++ dl                ++ ++    ++l++DE++r++ +v ++L s
  PHY93_08970|PHY93_08970  63 ALLSGPPGLGKTSLAMIIAKSIGSDLHVISGPAIEKKGDL---------------AAILTNLGPRDVLFIDEIHRMNISVEEILYS 133
                              69******************************94444444...............445558889********************** PP

                              HHHSSEEE..-SSSEEE---.......-EEEEEESS--.-TT-TTHHHHTT- CS
                    AAA_5  88 lleerrllleeggelvkakndd.llerfrviatanpldrslnelspalrsRf 138
                               +e+ rl++  g++       + ++ +f++i+++ +       ls +lr+Rf
  PHY93_08970|PHY93_08970 134 AMEDYRLDIVIGQGPSARTM-QiQIAPFTLIGATTRSG----LLSNPLRDRF 180
                              ************99997766.546666*******9999....8899999998 PP

>> TIP49  TIP49 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.9   0.0   6.5e-09   5.1e-06      25      80 ..      35      90 ..      11      97 .. 0.87
   2 !    7.0   0.0    0.0037       2.9     280     311 ..     113     144 ..     108     153 .. 0.89

  Alignments for each domain:
  == domain 1  score: 25.9 bits;  conditional E-value: 6.5e-09
                             XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                    TIP49 25 glvGqkkareaagvivelikekklaGravLlaGpsgtGktalaiaiskelgedvpf 80
                               vGqkk  + + v+ve  k ++ a    Ll+Gp+g Gkt+la+ i+k++g+d++ 
  PHY93_08970|PHY93_08970 35 EYVGQKKVVQNVEVMVESAKIRNSAMDHALLSGPPGLGKTSLAMIIAKSIGSDLHV 90
                             67****************999999999************************99875 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.0037
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                    TIP49 280 GvlfiDevhmlDiecfsylnraleselaPivi 311
                               vlfiDe+h ++i +   l  a+e+    ivi
  PHY93_08970|PHY93_08970 113 DVLFIDEIHRMNISVEEILYSAMEDYRLDIVI 144
                              59*********************997776666 PP

>> DUF815  Protein of unknown function (DUF815)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.9   0.0   0.00011     0.089      36     116 ..      39     120 ..       8     128 .. 0.73
   2 !    7.4   0.0    0.0029       2.2     182     224 ..     176     218 ..     172     236 .. 0.84
   3 ?   -2.2   0.0       2.4   1.9e+03      74     102 ..     248     277 ..     237     282 .. 0.65

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00011
                   DUF815  36 qkealventeqfleg.....lpannvLLwGarGtGKSslvkallneyaeegLrlievekedlkelpklvellrerperfilfvDDL 116
                              q +++v+n+e ++e       +  ++LL G  G GK sl   + +++  + L++i  +   +++  +l ++l +   r +lf+D +
  PHY93_08970|PHY93_08970  39 Q-KKVVQNVEVMVESakirnSAMDHALLSGPPGLGKTSLAMIIAKSIG-SDLHVI--SGPAIEKKGDLAAILTNLGPRDVLFIDEI 120
                              3.45677777766551111045678**************887777665.567775..67888999999999999999999999975 PP

  == domain 2  score: 7.4 bits;  conditional E-value: 0.0029
                   DUF815 182 LsdRFGlwlgFykldqeeYleiveklakklglelekeeleeeA 224
                              L dRF   l F   +++e +eiv + akkl+l lek++le  A
  PHY93_08970|PHY93_08970 176 LRDRFMAHLHFDFYNHQELVEIVGNNAKKLKLILEKSALELMA 218
                              78*****************************999986666544 PP

  == domain 3  score: -2.2 bits;  conditional E-value: 2.4
                   DUF815  74 lneyaeegLrlievekedlkelpk.lvell 102
                               +e  +++L l+e+++  l+ +++ +++++
  PHY93_08970|PHY93_08970 248 SEESVKKSLSLMEIDNLGLDRMDRkILQVI 277
                              455667778899988888888764144444 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.0   0.0   1.9e-06    0.0015       3      61 ..      37      96 ..      35     110 .. 0.77
   2 ?    0.8   0.0      0.71   5.5e+02     132     160 ..     108     136 ..      98     144 .. 0.74

  Alignments for each domain:
  == domain 1  score: 19.0 bits;  conditional E-value: 1.9e-06
                   AAA_16  3 vGReeeleqLlsalervrsgrp..elvllsGesGvGKsslvrellralekdggiflrgkcd 61
                             vG ++ ++ ++ ++e+++   +     llsG++G GK+sl+  +++++  d  ++++g + 
  PHY93_08970|PHY93_08970 37 VGQKKVVQNVEVMVESAKIRNSamDHALLSGPPGLGKTSLAMIIAKSIGSD-LHVISGPAI 96
                             566666677777777544444446899*********************999.888887655 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.71
                   AAA_16 132 rderplvlvlDdlqwadeaslqllaaLlr 160
                              + ++  vl++D++++   +  ++l++ ++
  PHY93_08970|PHY93_08970 108 NLGPRDVLFIDEIHRMNISVEEILYSAME 136
                              3334459*******999888888887765 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.0   0.1   0.00027      0.21      14      43 ..      52      81 ..      32      89 .. 0.65
   2 !    8.1   0.0     0.002       1.6     104     138 ..     109     143 ..      81     170 .. 0.75
   3 ?   -2.4   0.0       3.3   2.6e+03     185     198 ..     172     185 ..     165     193 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00027
             Mg_chelatase 14 aleiaaaGgHnlllvGppGsGKtmlakrlp 43
                               +i  +   + ll GppG GKt la  ++
  PHY93_08970|PHY93_08970 52 SAKIRNSAMDHALLSGPPGLGKTSLAMIIA 81
                             3344455667889***********998765 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.002
             Mg_chelatase 104 lahnGvLfLDElpefkrkvlevLRePledgevtis 138
                              l  + vLf+DE+  ++ +v e+L + +ed ++ i 
  PHY93_08970|PHY93_08970 109 LGPRDVLFIDEIHRMNISVEEILYSAMEDYRLDIV 143
                              45567***********************9988775 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 3.3
             Mg_chelatase 185 lsgplldRidlqve 198
                              ls+pl dR+  +++
  PHY93_08970|PHY93_08970 172 LSNPLRDRFMAHLH 185
                              89******976655 PP

>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.4   0.0    0.0084       6.6      10      44 ..      48      82 ..      36      99 .. 0.71
   2 !   12.5   0.0   0.00012     0.091      95     136 ..     113     156 ..      91     190 .. 0.70
   3 ?   -3.3   0.0       7.9   6.2e+03      96     119 ..     255     279 ..     249     282 .. 0.76

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.0084
                             HHHHHHHHHCTSSS-EEEECSTTSSHHHHHHHHHH CS
          Sigma54_activat 10 elleqikkvaktdlsvlitGesGtGKellaraihe 44
                              ++e++k   +   + l+ G  G GK+ la  i +
  PHY93_08970|PHY93_08970 48 VMVESAKIRNSAMDHALLSGPPGLGKTSLAMIIAK 82
                             3334444444444799**************98866 PP

  == domain 2  score: 12.5 bits;  conditional E-value: 0.00012
                              SEEEEETGGGS-HHHHHHHHHHHHHSEEESB.TSS.SEEE--EE CS
          Sigma54_activat  95 GtlfLDeigelplelQekLlrvlqegeverv.Gss.keikvdvr 136
                               +lf+Dei+++++++ e L  ++++ ++  v G+  + ++++++
  PHY93_08970|PHY93_08970 113 DVLFIDEIHRMNISVEEILYSAMEDYRLDIViGQGpSARTMQIQ 156
                              58**********************99988652532122333332 PP

  == domain 3  score: -3.3 bits;  conditional E-value: 7.9
                              EEEEETGGGS-HH.HHHHHHHHHHH CS
          Sigma54_activat  96 tlfLDeigelple.lQekLlrvlqe 119
                               l L ei +l l+ +  k+l+v+++
  PHY93_08970|PHY93_08970 255 SLSLMEIDNLGLDrMDRKILQVIED 279
                              5778899999875378899999885 PP

>> AAA_3  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.4   0.0   6.7e-05     0.052       1      30 [.      62      91 ..      62     180 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 6.7e-05
                    AAA_3  1 hvllegvPGlaktllvkalakaldlefkri 30
                             h ll g PGl+kt l+  +ak+++ +++ i
  PHY93_08970|PHY93_08970 62 HALLSGPPGLGKTSLAMIIAKSIGSDLHVI 91
                             99*********************9998765 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.6   0.0    0.0021       1.7       6      48 ..      37      84 ..      32      92 .. 0.77
   2 !    6.9   0.0    0.0071       5.6     133     157 ..     112     134 ..      93     144 .. 0.76

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.0021
                             HHHHHHHHHHT...........TTSEEEEEESTTSTHHHHHHHHHHHH CS
                   ResIII  6 eyQeeaienll.....eklkskrdkrglikmaTGtGKTlvaaklierl 48
                               Q+++++n++     +k+ +    ++l+  + G GKT +a+ +++++
  PHY93_08970|PHY93_08970 37 VGQKKVVQNVEvmvesAKIRNSAMDHALLSGPPGLGKTSLAMIIAKSI 84
                             5799999999955544344336666***************99988765 PP

  == domain 2  score: 6.9 bits;  conditional E-value: 0.0071
                              -SEEEEETGGGTTS.TTTHHHHHT- CS
                   ResIII 133 fdviiiDEaHrlgakkswreilekf 157
                               dv++iDE Hr++   s++eil + 
  PHY93_08970|PHY93_08970 112 RDVLFIDEIHRMNI--SVEEILYSA 134
                              68**********99..777775554 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0   3.2e-05     0.025      24      79 ..      39      94 ..      28     104 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 3.2e-05
                    Rad17 24 hkkkieevkewlkadvLesrkkriLLisGPsGCgkstvvkvLskelgiklrewlnp 79
                              kk +++v+ ++++  + +      L+sGP+G gk+    +++k  g +l+  + p
  PHY93_08970|PHY93_08970 39 QKKVVQNVEVMVESAKIRNSAMDHALLSGPPGLGKTSLAMIIAKSIGSDLHVISGP 94
                             5888999999999999999999999********************99988766555 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.1    0.0004      0.32      48      70 ..      61      83 ..      20     138 .. 0.77
   2 ?   -0.3   0.0         1   7.9e+02     109     141 ..     256     284 ..     235     297 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.0004
                IstB_IS21 48 enivllGpsGvGKshlaialgve 70
                             +  +l Gp+G GK+ la+ ++++
  PHY93_08970|PHY93_08970 61 DHALLSGPPGLGKTSLAMIIAKS 83
                             567899***********998864 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 1
                IstB_IS21 109 vdllilDdlgllpldqaeaellfeviekryerr 141
                               +l+ +D+lgl  +d+    ++++vie+ y+  
  PHY93_08970|PHY93_08970 256 LSLMEIDNLGLDRMDR----KILQVIEDYYKGG 284
                              4778899999988876....5789999888765 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   7.2e-05     0.056       6      97 ..      64     144 ..      61     162 .. 0.71

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 7.2e-05
                   AAA_14   6 vitGaRrvGKTtllkqlikellvkkesilyinldderdkkladpekllelileklkeekktylflDEiqevp.ewekalkslvdeg 90 
                              +++G+   GKT l+  ++k+     ++   i+    ++k   d      +il +l +  + +lf+DEi++++ ++e++l s ++++
  PHY93_08970|PHY93_08970  64 LLSGPPGLGKTSLAMIIAKSIG---SDLHVISGPAIEKKG--DL----AAILTNLGP--RDVLFIDEIHRMNiSVEEILYSAMEDY 138
                              68899999**999877776655...777777777766653..22....445555544..789********9626788888888888 PP

                   AAA_14  91 knldviv 97 
                               +ld+++
  PHY93_08970|PHY93_08970 139 -RLDIVI 144
                              .778775 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.8   0.0    0.0095       7.4       7      22 ..      62      77 ..      56      87 .. 0.86
   2 ?    6.0   0.1     0.017        13      90     112 ..     110     131 ..      94     166 .. 0.70
   3 ?   -2.5   0.0       7.2   5.6e+03      41      70 ..     193     222 ..     176     248 .. 0.59

  Alignments for each domain:
  == domain 1  score: 6.8 bits;  conditional E-value: 0.0095
                   AAA_22  7 ilvvtGesGtGKTtll 22
                             + ++ G++G GKT l+
  PHY93_08970|PHY93_08970 62 HALLSGPPGLGKTSLA 77
                             6899*********997 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.017
                   AAA_22  90 avielliiDEaqhlr.s.eealeeL 112
                              + + +l iDE+++++ s ee    L
  PHY93_08970|PHY93_08970 110 GPRDVLFIDEIHRMNiSvEE---IL 131
                              3478**********553333...33 PP

  == domain 3  score: -2.5 bits;  conditional E-value: 7.2
                   AAA_22  41 evvfvtlpsstsskdllrellralglelka 70 
                              e+v++  ++ +++k +l++ + +l  ++ +
  PHY93_08970|PHY93_08970 193 ELVEIVGNNAKKLKLILEKSALELMARCAR 222
                              344444444444444444444444444444 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00031      0.24      14      50 ..      55      92 ..      39      95 .. 0.77
   2 ?    0.1   0.0      0.97   7.5e+02      67      79 ..     184     196 ..     172     216 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00031
                             HHHCHTEEEEEEESTTSSHHHHHHHHHHHTT--.---- CS
                     TsaE 14 lakalgdvilLeGdLGaGKTtlvrglakalgve.evkS 50
                             + +++ d  lL+G+ G GKT l+  +ak++g + +v S
  PHY93_08970|PHY93_08970 55 IRNSAMDHALLSGPPGLGKTSLAMIIAKSIGSDlHVIS 92
                             333346679*********************99886655 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.97
                              EEEE-TT-SSTHH CS
                     TsaE  67 yHfDlYRledeee 79 
                              +HfD+Y  ++  e
  PHY93_08970|PHY93_08970 184 LHFDFYNHQELVE 196
                              7*****9765444 PP

>> TniB  Bacterial TniB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.1   0.0    0.0021       1.6       9      52 ..      32      77 ..      26      87 .. 0.84
   2 ?    3.3   0.0     0.061        47     108     132 ..      99     124 ..      89     130 .. 0.78

  Alignments for each domain:
  == domain 1  score: 8.1 bits;  conditional E-value: 0.0021
                     TniB  9 rwigyprakeilerLeeLleypk..rkrmpnlllvGdsnnGKtmiv 52
                             ++ +y   k+++++ e ++e +k  ++ m ++ll G++  GKt+++
  PHY93_08970|PHY93_08970 32 DFSEYVGQKKVVQNVEVMVESAKirNSAMDHALLSGPPGLGKTSLA 77
                             6778888999999999999987655889***************986 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.061
                     TniB 108 eqqvlrllrelkvr.vLiiDEihnll 132
                              + +  ++l +l++r vL iDEih++ 
  PHY93_08970|PHY93_08970  99 KGDLAAILTNLGPRdVLFIDEIHRMN 124
                              5556678888888779*******985 PP

>> MCM  MCM P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.0      0.14   1.1e+02      56      82 ..      59      85 ..      39     108 .. 0.68
   2 ?    8.6   0.1    0.0011      0.88     124     152 ..     114     142 ..     103     146 .. 0.89

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.14
                             SS-EEEEEESSTSTHHHHHHHHHHHSS CS
                      MCM 56 gdinvllvgdpgtaKsqlLkyveklap 82
                             +  + ll g pg++K+ l   ++k + 
  PHY93_08970|PHY93_08970 59 AMDHALLSGPPGLGKTSLAMIIAKSIG 85
                             34599************9887776554 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0011
                              EEEEESGGGSTCHHHHHHHHHHHHSEEEE CS
                      MCM 124 vcciDefdkmkeedrsalhEamEqqtisi 152
                              v+ iDe+ +m+ + ++ l+ amE+  + i
  PHY93_08970|PHY93_08970 114 VLFIDEIHRMNISVEEILYSAMEDYRLDI 142
                              899********************988876 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   0.0    0.0036       2.8       2      26 ..      63      87 ..      62     101 .. 0.81
   2 ?    3.3   0.1     0.088        68      91     113 ..     107     129 ..      94     137 .. 0.79

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0036
                             EEEE--TTSSHHHHHHHHHHHH... CS
                 NTPase_1  2 vfiTGppGvGKtTlvkkvlellkss 26
                              +++GppG GKt l   +++ + s+
  PHY93_08970|PHY93_08970 63 ALLSGPPGLGKTSLAMIIAKSIGSD 87
                             579************9999988554 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.088
                              HHHHHH-EEEE---STTGGG-HH CS
                 NTPase_1  91 kalseadviviDEiGkmElkskk 113
                              + l   dv+ iDEi +m  ++++
  PHY93_08970|PHY93_08970 107 TNLGPRDVLFIDEIHRMNISVEE 129
                              445678***********988876 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   0.00025       0.2       2      60 ..      64     122 ..      63     139 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00025
             RNA_helicase   2 wlyGpsgeGKStlakeLakallkklklkkkdsvysrnpeddfwdgYtgqevvvidDfgq 60 
                              +l+Gp+g GK++la  +ak++ ++l  ++ + +  ++    ++ +    +v+ id++ +
  PHY93_08970|PHY93_08970  64 LLSGPPGLGKTSLAMIIAKSIGSDLHVISGPAIEKKGDLAAILTNLGPRDVLFIDEIHR 122
                              589******************99997777666665666666666666666666666655 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   0.0    0.0012      0.91      35      57 ..      62      84 ..      56     124 .. 0.88
   2 ?    0.1   0.0      0.65     5e+02      85     148 ..     226     288 ..     216     308 .. 0.73

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.0012
                   AAA_25 35 lallaGapgtGKttlaldlalav 57
                              all G+pg GKt la+ +a ++
  PHY93_08970|PHY93_08970 62 HALLSGPPGLGKTSLAMIIAKSI 84
                             689*************9887665 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.65
                   AAA_25  85 elrrRlravgealrddarllvldlagv.eslpLfakdrggtlltadvdaleaaieevegvrlvvi 148
                              ++++R+ +  +++++ +++++++ ++v +sl L++ d+ g    +  +++ ++ie++++ + v i
  PHY93_08970|PHY93_08970 226 RIANRILRRVRDFSLVKGETLISEESVkKSLSLMEIDNLGLD--RMDRKILQVIEDYYKGGPVGI 288
                              688999999999999999999999999999999886665544..333556666666655555555 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.4   0.0    0.0076         6      32      57 ..      59      84 ..      38      93 .. 0.77
   2 ?    2.1   0.0      0.15   1.2e+02     143     174 ..     154     185 ..     149     192 .. 0.87

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.0076
                    AAA_7 32 nkkpvllvGptGtGKtviikdllkkl 57
                             +  + ll Gp G GKt++++ + k++
  PHY93_08970|PHY93_08970 59 AMDHALLSGPPGLGKTSLAMIIAKSI 84
                             55789************988776665 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.15
                    AAA_7 143 fkeikdvqlvaamgppgggrneitpRllrhfn 174
                               ++i   +l++a +  g   n++  R++ h +
  PHY93_08970|PHY93_08970 154 QIQIAPFTLIGATTRSGLLSNPLRDRFMAHLH 185
                              56889999*********************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (338 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       589  (0.0328518); expected 358.6 (0.02)
Passed bias filter:                      533  (0.0297284); expected 358.6 (0.02)
Passed Vit filter:                        70  (0.00390429); expected 17.9 (0.001)
Passed Fwd filter:                        23  (0.00128284); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              23  [number of targets reported over threshold]
# CPU time: 0.57u 0.26s 00:00:00.83 Elapsed: 00:00:00.39
# Mc/sec: 2604.66
//
Query:       PHY93_08975|PHY93_08975  [L=218]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.1e-11   44.2   2.1    6.9e-11   42.6   0.2    2.5  3  HHH_5           Helix-hairpin-helix domain
    2.9e-08   33.7   0.2    8.3e-08   32.2   0.2    1.8  2  RuvA_N          RuvA N terminal domain
    2.5e-05   23.9   0.2      0.077   12.9   0.0    2.6  2  HHH             Helix-hairpin-helix motif
     0.0018   18.8   1.1        1.6    9.4   0.1    2.4  2  5_3_exonuc      5'-3' exonuclease, C-terminal SAM fold
     0.0058   16.1   0.0     0.0091   15.5   0.0    1.2  1  ComA            (2R)-phospho-3-sulfolactate synthase (ComA)
     0.0058   16.9   0.1        3.9    7.9   0.0    2.7  2  Transposase_20  Transposase IS116/IS110/IS902 family
  ------ inclusion threshold ------
      0.021   15.0   0.1        4.5    7.6   0.0    2.6  2  HHH_3           Helix-hairpin-helix motif
       0.14   12.6   0.3         16    5.9   0.0    2.5  2  Ribosomal_S13   Ribosomal protein S13/S18


Domain annotation for each model (and alignments):
>> HHH_5  Helix-hairpin-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.9   0.0         8   1.8e+04      26      38 ..      45      57 ..      41      58 .. 0.74
   2 !   42.6   0.2   3.1e-14   6.9e-11       1      55 [.      68     124 ..      68     125 .. 0.87
   3 ?    0.1   0.0      0.56   1.3e+03      14      32 ..     196     215 ..     196     218 .] 0.84

  Alignments for each domain:
  == domain 1  score: -3.9 bits;  conditional E-value: 8
                             HHHHHHS-HHHHH CS
                    HHH_5 26 vedlaaadveeLa 38
                             ++ ++++d e+L 
  PHY93_08975|PHY93_08975 45 IAHIIKEDSETLY 57
                             5668888888885 PP

  == domain 2  score: 42.6 bits;  conditional E-value: 3.1e-14
                              -HHHHTSTT--HHHHHHHHTTT--SHHHHHHS....-HHHHHTSTTS-HHHHHHHHHHH CS
                    HHH_5   1 feeLlsvsGiGpktAlallsaGiesvedlaaa....dveeLakipGiGkktAeriilel 55 
                              fe+Ll+v+GiGpk A  l+ + i+ v ++++a    ++++L+k+pG+G k A +iil l
  PHY93_08975|PHY93_08975  68 FEMLLTVKGIGPKSAYGLIAN-IG-VNEIINAvnfdAKATLTKVPGLGTKGAAQIILDL 124
                              89*******************.55.777777766634579*****************98 PP

  == domain 3  score: 0.1 bits;  conditional E-value: 0.56
                              HHHHHHTT.T--SHHHHHHS CS
                    HHH_5  14 tAlallsa.Giesvedlaaa 32 
                              +A ++l a  i+ +e+l+++
  PHY93_08975|PHY93_08975 196 IAQKILGAnLITKPEQLIHL 215
                              5899999977999**99986 PP

>> RuvA_N  RuvA N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.2   0.2   3.7e-11   8.3e-08       1      59 [.       1      57 [.       1      58 [. 0.88
   2 ?   -3.5   0.0       5.3   1.2e+04      15      23 ..     118     126 ..     114     138 .. 0.64

  Alignments for each domain:
  == domain 1  score: 32.2 bits;  conditional E-value: 3.7e-11
                             -EEEEEEEEEEESSCEEEEEE.TTEEEEEEE-HHHHCC..-TTSEEEEEEEEEEETTEEEEE CS
                   RuvA_N  1 MIaylkGkvvekepdsivvev.ggvGYevfvplstlss..kegeevklythlivrEdalsLY 59
                             MI++l G+v+  + ++ v+++ +g+GY+vf       +   eg ++ +++ +i++Ed+ +LY
  PHY93_08975|PHY93_08975  1 MIGFLCGEVIFSDGNESVLQTsSGIGYQVFYN-----KvlVEGTQAAIFIAHIIKEDSETLY 57
                             ***********98888777654**********.....4454688899**************9 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 5.3
                              CEEEEEETT CS
                   RuvA_N  15 dsivvevgg 23 
                              ++i+++  g
  PHY93_08975|PHY93_08975 118 AQIILDLAG 126
                              567777655 PP

>> HHH  Helix-hairpin-helix motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.9   0.0   3.4e-05     0.077      10      24 ..      68      82 ..      65      84 .. 0.91
   2 !    8.4   0.0   0.00089         2       4      28 ..      97     121 ..      94     122 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 3.4e-05
                             HHHHHTSTT-SHHHH CS
                      HHH 10 reeLlalPGVGpktA 24
                             +e Ll+++G+Gpk A
  PHY93_08975|PHY93_08975 68 FEMLLTVKGIGPKSA 82
                             589**********99 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.00089
                              HHHTSSHHHHHTSTT-SHHHHHHHH CS
                      HHH   4 glipasreeLlalPGVGpktAeaIl 28 
                              +++ +  + L+++PG G k A +I+
  PHY93_08975|PHY93_08975  97 AVNFDAKATLTKVPGLGTKGAAQII 121
                              678888999********99888775 PP

>> 5_3_exonuc  5'-3' exonuclease, C-terminal SAM fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.4   0.1   0.00071       1.6      22      48 ..      73      98 ..      69     108 .. 0.76
   2 !    8.7   0.1    0.0012       2.7      19      85 ..     105     171 ..      96     184 .. 0.69

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.00071
               5_3_exonuc 22 GvpgiGektAakLlkeygsleeilenl 48
                              v+giG+k A  L++++g ++ei++++
  PHY93_08975|PHY93_08975 73 TVKGIGPKSAYGLIANIG-VNEIINAV 98
                             59*************998.45555544 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 0.0012
               5_3_exonuc  19 nipGvpgiGektAakLlke.ygsleeilenldelkekklkekLeenkeearlskkLatiktdvplele 85 
                               +  vpg G k Aa+++    g+++ +    d+ k+   +++L  + + ++++ ++a  +  + ++++
  PHY93_08975|PHY93_08975 105 TLTKVPGLGTKGAAQIILDlAGKIDRVKMYSDSSKT-LKNNSLLPKTNILEMFDEVAYTENSISMDIN 171
                              5678***********985515889888776665443.2335566666666777776666666666554 PP

>> ComA  (2R)-phospho-3-sulfolactate synthase (ComA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   4.1e-06    0.0091      10      97 ..     104     189 ..     100     195 .. 0.93

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 4.1e-06
                              SS-EEEEESS--HHHHHHHHHHHGGG-SEEEE-TTGGGGSTCHHHHHHHHHHHCTT-EEEE-HHHHHHHHHTT-HHHHHHHHHHCT CS
                     ComA  10 tGlTeviDkGlglreledlletageyiDglKlgggtsallpeeilrekielahehgvyvstGgtlfEaalaqgkvdeyleeckelg 95 
                                lT v   Glg++   +++  ++  iD +K++  +s  l+++ l  k+++++ ++   +t  ++   + +++ +++ l +ckelg
  PHY93_08975|PHY93_08975 104 ATLTKV--PGLGTKGAAQIILDLAGKIDRVKMYSDSSKTLKNNSLLPKTNILEMFDEVAYTENSISMDINQHEILNDALMACKELG 187
                              568999..9****9999999999999*************************************8888888999************* PP

                              -S CS
                     ComA  96 fd 97 
                              f+
  PHY93_08975|PHY93_08975 188 FK 189
                              *7 PP

>> Transposase_20  Transposase IS116/IS110/IS902 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.9   0.0    0.0017       3.9       2      23 ..      69      90 ..      68     100 .. 0.89
   2 !    6.2   0.0    0.0055        12       3      29 ..     105     132 ..     103     139 .. 0.88

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.0017
           Transposase_20  2 elLesipGiGpvtaaallaeig 23
                             e L +++GiGp  a  l+a ig
  PHY93_08975|PHY93_08975 69 EMLLTVKGIGPKSAYGLIANIG 90
                             5799****************97 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.0055
           Transposase_20   3 lLesipGiGpvtaaallaei.gdlrrfk 29 
                               L+ +pG G+  aa+++  + g+++r k
  PHY93_08975|PHY93_08975 105 TLTKVPGLGTKGAAQIILDLaGKIDRVK 132
                              699***************9989888876 PP

>> HHH_3  Helix-hairpin-helix motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6   0.0     0.017        38      44      56 ..      69      81 ..      66      89 .. 0.71
   2 ?    7.6   0.0     0.002       4.5      13      31 ..     103     121 ..      91     123 .. 0.82

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.017
                    HHH_3 44 eeLlkvkglgpkt 56
                             e Ll vkg+gpk 
  PHY93_08975|PHY93_08975 69 EMLLTVKGIGPKS 81
                             5677777777774 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.002
                    HHH_3  13 aeeLqklpGlgpklAknIv 31 
                              ++ L+k+pGlg k A +I+
  PHY93_08975|PHY93_08975 103 KATLTKVPGLGTKGAAQII 121
                              5789999999999999987 PP

>> Ribosomal_S13  Ribosomal protein S13/S18
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.9   0.0     0.007        16      11      42 ..      65      96 ..      59     103 .. 0.81
   2 ?    4.3   0.0     0.022        50      14      42 ..     103     133 ..      97     146 .. 0.73

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.007
            Ribosomal_S13 11 kkveialtaikGiGrrkakiilkkadvdedkr 42
                             kk+   l ++kGiG + a  ++++++v+e + 
  PHY93_08975|PHY93_08975 65 KKLFEMLLTVKGIGPKSAYGLIANIGVNEIIN 96
                             666677889*****************998655 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.022
            Ribosomal_S13  14 eialtaikGiGrrkakiilkka..dvdedkr 42 
                              + +lt++ G+G + a +i+ ++  ++d+ k 
  PHY93_08975|PHY93_08975 103 KATLTKVPGLGTKGAAQIILDLagKIDRVKM 133
                              578*********9988887654224666555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (218 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       349  (0.0194657); expected 358.6 (0.02)
Passed bias filter:                      269  (0.0150036); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.42
# Mc/sec: 1558.23
//
Query:       PHY93_08980|PHY93_08980  [L=172]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.9e-35  121.9   0.1    2.3e-35  121.7   0.1    1.0  1  RuvC      Crossover junction endodeoxyribonuclease RuvC
     0.0083   15.8   0.2      0.023   14.4   0.1    1.7  2  DUF460    Protein of unknown function (DUF460)


Domain annotation for each model (and alignments):
>> RuvC  Crossover junction endodeoxyribonuclease RuvC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  121.7   0.1   2.5e-39   2.3e-35       1     148 []       3     151 ..       3     151 .. 0.91

  Alignments for each domain:
  == domain 1  score: 121.7 bits;  conditional E-value: 2.5e-39
                              EEEEE--SSEEEEEEEEEETTEEEEEEEEEEE---S.-HHHHHHHHHHHHHHHHHHH--SEEEEEE-S----HHHHHHHHHHHHHH CS
                     RuvC   1 ilGiDPGsrktGygvieeagrklslltsgvirtksd.plserlkavfdaveelldayepdalaieqvffaknvdsvlklaqarGvv 85 
                              ilGiDPGsrk+Gy++ie +g+k+s+ltsg ++ +   +  +rl  ++++ ee+l++y+pd++++e + + k v++  klaqarG++
  PHY93_08980|PHY93_08980   3 ILGIDPGSRKAGYALIEVQGKKISYLTSGALKYDHVeEFIDRLGLIYRSCEEILKKYQPDEVSVEALIYVKSVEALSKLAQARGAM 88 
                              8*******************************986659************************************************ PP

                              HHHHHT.TT--EEEEEHHHHHHHHTSSTT--HHHHHHHHHHHTT----SS.S-THHHHHHHHHH CS
                     RuvC  86 ilaale.reisvaeytpsqvkkavtGigkaekeqvqalvkrlLklkakpkpadaaDalavaith 148
                              i a  + ++ +++ey+p+ vk +vtG g+a ke v      +   k + k ad +Dala+a++h
  PHY93_08980|PHY93_08980  89 IAAFSHtHHGKIFEYAPNLVKVSVTGHGHASKEAVDKTLGMMFG-KINFKTADESDALAIAVCH 151
                              99987526799************************987766554.3344557***********9 PP

>> DUF460  Protein of unknown function (DUF460)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.1   2.5e-06     0.023      32      75 ..       2      46 ..       1      48 [. 0.90
   2 ?   -2.0   0.0       0.3   2.7e+03     125     141 .]     131     148 ..     116     148 .. 0.68

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 2.5e-06
                   DUF460 32 livGiDPGi.ttgiavldldgevlalkssreldreevieliselG 75
                             +i+GiDPG  + g a+++++g+ +   +s  l+ ++v e+i +lG
  PHY93_08980|PHY93_08980  2 IILGIDPGSrKAGYALIEVQGKKISYLTSGALKYDHVEEFIDRLG 46
                             89******83689***********999999999999999999887 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.3
                   DUF460 125 e.kvkykddHeRDalaAA 141
                                k+++k+  e Dala A
  PHY93_08980|PHY93_08980 131 FgKINFKTADESDALAIA 148
                              256778899999999866 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (172 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       460  (0.0256568); expected 358.6 (0.02)
Passed bias filter:                      374  (0.0208601); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.19s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1309.60
//
Query:       PHY93_16645|PHY93_16645  [L=41]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (41 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       364  (0.0203023); expected 358.6 (0.02)
Passed bias filter:                      197  (0.0109878); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.33u 0.24s 00:00:00.57 Elapsed: 00:00:00.38
# Mc/sec: 324.92
//
Query:       PHY93_08985|PHY93_08985  [L=55]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.11   12.5   1.0       0.12   12.4   0.5    1.4  1  DUF5316   Family of unknown function (DUF5316)


Domain annotation for each model (and alignments):
>> DUF5316  Family of unknown function (DUF5316)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.5   6.9e-06      0.12       6      25 ..       9      28 ..       5      37 .. 0.91

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 6.9e-06
                  DUF5316  6 ykisGfvglvfiliagllsG 25
                             + ++Gf++++++l+agl+ G
  PHY93_08985|PHY93_08985  9 MQLTGFASVGLCLFAGLTKG 28
                             789***************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (55 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       215  (0.0119917); expected 358.6 (0.02)
Passed bias filter:                      151  (0.00842211); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.34u 0.20s 00:00:00.54 Elapsed: 00:00:00.35
# Mc/sec: 465.21
//
Query:       PHY93_08990|PHY93_08990  [L=286]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.5e-58  196.6   1.7    2.4e-58  196.0   1.7    1.3  1  THF_DHG_CYH_C  Tetrahydrofolate dehydrogenase/cyclohydrolase,
    1.7e-29  102.5   0.1    2.7e-29  101.8   0.1    1.3  1  THF_DHG_CYH    Tetrahydrofolate dehydrogenase/cyclohydrolase,
  ------ inclusion threshold ------
      0.013   16.0   1.0          2    8.9   0.2    2.3  2  KGK            KGK domain
       0.11   11.8   0.3       0.21   10.9   0.3    1.6  1  AlaDh_PNT_C    Alanine dehydrogenase/PNT, C-terminal domain


Domain annotation for each model (and alignments):
>> THF_DHG_CYH_C  Tetrahydrofolate dehydrogenase/cyclohydrolase, NAD(P)-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  196.0   1.7   5.2e-62   2.4e-58       3     158 ..     124     284 ..     122     286 .] 0.94

  Alignments for each domain:
  == domain 1  score: 196.0 bits;  conditional E-value: 5.2e-62
                              HHHHHHHTT...--SS--HHHHHHHHHHHHCT---TT-EEEEE---TTTHHHHHHHHHCTT-EEEEE-TTSCCHHHHHCCSSEEEE CS
            THF_DHG_CYH_C   3 lnlgrlvkg...eeallpctpkgvvellketgielegkkvvvvGrsnivgkplallLleknatVtvchsktkdlaeitreadivvv 85 
                               nl  ++++   ++++++ctpkg+++ll e+++e+++k+v+++Grs ivgkpla+l+++++atVt+chskt +++eit+e di+v+
  PHY93_08990|PHY93_08990 124 NNLYAVLSNqisTDHFVSCTPKGIITLLMEYNVEIANKRVAIIGRSMIVGKPLACLFTNHDATVTLCHSKTPNIREITKECDIIVS 209
                              555555555455779*********************************************************************** PP

                              -SS-TT-B-GGGS..-TT-EEEE---EEC-TTEEE-SB-HHHHCTTSSEE--TTTSCHHHHHHHHHHHHHHHHHC CS
            THF_DHG_CYH_C  86 avGkpelikaemv..kegavviDvGinrvekgklvGDvdfeevkevasaitPvpgGVGpmTvamllkntleaakr 158
                              avG ++li+++++  k+++vviDvG+n+ ++g+l+GDvdfe+vk+ + aitPvpgGVGpmT+++l +n+l+a k+
  PHY93_08990|PHY93_08990 210 AVGIAHLIDQSFIsnKKNQVVIDVGMNTDTNGQLCGDVDFEKVKDHVLAITPVPGGVGPMTIISLAQNLLQASKN 284
                              *************88889*****************************************************9987 PP

>> THF_DHG_CYH  Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  101.8   0.1   6.1e-33   2.7e-29       1     116 []       4     119 ..       4     119 .. 0.98

  Alignments for each domain:
  == domain 1  score: 101.8 bits;  conditional E-value: 6.1e-33
                              E--HHHHHHHHHHHHHHHHHHHHHHT---EEEEEEES--HHHHHHHHHHHHHHHHTT-EEEEEEE-TT--HHHHHHHHHHHHH-TT CS
              THF_DHG_CYH   1 lldGkalakeireelkeeveklkekgvkpkLavilvgddpasevYvrnkkkaceevGieseliklpedvseeellklieelnedds 86 
                              +l+ + ++k+i +elk e++ l e+g++p L vilvg++pas vY  +kkk ce++G ++++i+l e++ ++++l++i  +n+d++
  PHY93_08990|PHY93_08990   4 ILSSAPIKKKIIKELKTECKFLIENGIHPYLKVILVGNNPASLVYTASKKKFCEKIGAKCDIITLGENADQKTFLEIITGINQDPN 89 
                              678899***************9999************************************************************* PP

                              --EEEE-SS-STTS-HHHHHCCS-GGGBTT CS
              THF_DHG_CYH  87 vdGilvqlPlpkhidekaileaispeKDVD 116
                              v+G+++qlPlp+h++   + + +s eKDVD
  PHY93_08990|PHY93_08990  90 VHGCIIQLPLPAHLSHLDVGKLVSEEKDVD 119
                              *****************************9 PP

>> KGK  KGK domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   0.2   0.00044         2      39      89 ..      10      80 ..       1      89 [. 0.60
   2 ?    5.6   0.0    0.0048        22       9      63 ..     183     237 ..     176     250 .. 0.84

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.00044
                      KGK 39 lkkeleeelkeqksaeikie.....................tkseekwf.keGidceiLkigskgWqkGklki 89
                             +kk++++elk ++  ++ ie                     t s++k++ k G +c i+++g ++ qk  l i
  PHY93_08990|PHY93_08990 10 IKKKIIKELKTEC--KFLIEngihpylkvilvgnnpaslvyTASKKKFCeKIGAKCDIITLGENADQKTFLEI 80
                             5555555555554..2333333445555555555555555334444444599************999976665 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.0048
                      KGK   9 ndddVlsfkdktfkisklkealeklfknkklkkeleeelkeqksaeikietksee 63 
                              +d +V  ++ kt  i ++ ++++ +++  ++++ + +++ ++k++++ i+  +++
  PHY93_08990|PHY93_08990 183 HDATVTLCHSKTPNIREITKECDIIVSAVGIAHLIDQSFISNKKNQVVIDVGMNT 237
                              45667777999************************************99955444 PP

>> AlaDh_PNT_C  Alanine dehydrogenase/PNT, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.3   4.6e-05      0.21      74     130 ..     186     236 ..     148     266 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 4.6e-05
                              ECEEHCHHHHHHHHHHHH-SEEEE---BTTSS---SC-HHHHHTS-TTEEEEETTGG CS
              AlaDh_PNT_C  74 fvevlksqeellaeavkeadvvigtvlipGkkaPkLvteemvksMkpgsVivDvAid 130
                              +v++ +s+  +++e  ke+d+++++v i     ++L++++ +++ k++ V++Dv ++
  PHY93_08990|PHY93_08990 186 TVTLCHSKTPNIREITKECDIIVSAVGI-----AHLIDQSFISN-KKNQVVIDVGMN 236
                              37779999******************99.....58999999987.667799999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (286 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       436  (0.0243181); expected 358.6 (0.02)
Passed bias filter:                      371  (0.0206927); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.36
# Mc/sec: 2350.02
//
Query:       PHY93_08995|PHY93_08995  [L=356]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.5e-84  282.6   0.0    3.1e-84  282.4   0.0    1.1  1  GCV_T     Aminomethyltransferase folate-binding domain
      4e-12   45.9   0.0    7.4e-12   45.0   0.0    1.3  1  GCV_T_C   Glycine cleavage T-protein C-terminal barrel domain
    5.7e-05   23.3   0.0    0.00018   21.7   0.0    1.8  2  SoxG      Sarcosine oxidase, gamma subunit family


Domain annotation for each model (and alignments):
>> GCV_T  Aminomethyltransferase folate-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  282.4   0.0   5.2e-88   3.1e-84       1     257 []       8     255 ..       8     255 .. 0.98

  Alignments for each domain:
  == domain 1  score: 282.4 bits;  conditional E-value: 5.2e-88
                    GCV_T   1 lydrhkalgakfvefagwemPvqYasesikaehlavreaaglfDvShmgkievsGpdaaalLqrlltndisklkpgkatytlllne 86 
                              l++ h  l+ak+ +fag++mP+qY  +s+k+e++avr++ag+fDvShmg++ v+G da+ +++ ++tnd+++ +  ka y+ l+ +
  PHY93_08995|PHY93_08995   8 LHEEHLSLKAKMAPFAGFDMPLQY--TSVKEEVQAVRSHAGVFDVSHMGEFLVEGADAVNFVDFIVTNDFKNAENLKAVYSPLCRD 91 
                              7999********************..************************************************************ PP

                    GCV_T  87 dGgvidDlivarldedefllvvnaankekdlawlekaaekkdldvevedvteelallalqGPkarevlskllgadlselkffsfae 172
                              +G vidDli ++l++d++l++vna+n +kd++w+++++   ++++++++++++++lla+qGP++ ++l+++   +  +++++s+ e
  PHY93_08995|PHY93_08995  92 NGTVIDDLIAYKLADDRVLICVNASNIKKDWDWISSKIS--NFKCTIKNQSDDYSLLAIQGPESDKILKEIGLLKAVDFPYYSILE 175
                              ************************************888..*******************************9999999******* PP

                    GCV_T 173 velaggkkvlvsRtgytGedGfeiyipaeeaeelweaLleagkeegvkpaGlgArdtlRlEaglrlyghdldeettPleaglgwa 257
                              ++++ g+k++++RtgytGedGfei+   + a+ +w++Ll    + gvkp+Gl+Ard+lRlE  ++lygh+l++e+tPl+agl+w+
  PHY93_08995|PHY93_08995 176 TNFE-GEKLIIARTGYTGEDGFEIFSSHNFAKSFWKKLL----SLGVKPCGLAARDVLRLEVCYPLYGHELNDEVTPLDAGLAWT 255
                              ***9.*********************************6....5778************************************95 PP

>> GCV_T_C  Glycine cleavage T-protein C-terminal barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.0   0.0   1.2e-15   7.4e-12       2      78 ..     277     352 ..     277     353 .. 0.92

  Alignments for each domain:
  == domain 1  score: 45.0 bits;  conditional E-value: 1.2e-15
                  GCV_T_C   2 rlvglelddgapllrggepilr.dgevvGhvTSgaysptlgksialAyvkaelaklgtevevevrgkrvpaevvkkpf 78 
                              +lv l l++g  ++r+g+ +l+ + + +G+vTSg++s  +gk ia+A+++++ +  ++++ + +r++ ++a   +k f
  PHY93_08995|PHY93_08995 277 QLVKLSLERG--IPREGYDVLDtNLNLIGKVTSGTMSVVTGKGIAMALIEKDKNPKDKKYIINIRNNNYEANFHSKAF 352
                              79*****999..56*******636699***************************99***************9988877 PP

>> SoxG  Sarcosine oxidase, gamma subunit family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0      0.48   2.9e+03      51      86 ..      32      66 ..      27      82 .. 0.65
   2 !   21.7   0.0     3e-08   0.00018      51     142 ..     120     213 ..      82     216 .. 0.80

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.48
                     SoxG 51 aalaalaealaelasvvdlShgrvlisisGakaeav 86
                              ++++  +a+   a v d+Sh      ++Ga a + 
  PHY93_08995|PHY93_08995 32 TSVKEEVQAVRSHAGVFDVSHMGEF-LVEGADAVNF 66
                             5566667788877788899996433.3566666555 PP

  == domain 2  score: 21.7 bits;  conditional E-value: 3e-08
                     SoxG  51 aalaalaealae.lasvvdlShgrvlisisGakaeavlakltaiDlsadaFpvGaaaatilgkvevvilr...tgsdafevlvfrs 132
                              ++   + + + + + ++ ++S    l+ i+G+++ ++l++     l+a  Fp     +t ++  +  i r   tg+d fe+     
  PHY93_08995|PHY93_08995 120 KDWDWISSKISNfKCTIKNQSDDYSLLAIQGPESDKILKEIGL--LKAVDFPYYSILETNFEGEKLIIARtgyTGEDGFEIFSSHN 203
                              44455566677756799*********************98764..78999**999*************97222579********** PP

                     SoxG 133 FaeslwkaLl 142
                              Fa+s+wk Ll
  PHY93_08995|PHY93_08995 204 FAKSFWKKLL 213
                              *******996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (356 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       367  (0.0204696); expected 358.6 (0.02)
Passed bias filter:                      294  (0.016398); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 2623.82
//
Query:       PHY93_09000|PHY93_09000  [L=127]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.8e-46  155.6   0.1    5.3e-46  155.5   0.1    1.0  1  GCV_H          Glycine cleavage H-protein
     0.0042   16.9   0.1      0.024   14.5   0.0    2.0  2  Biotin_lipoyl  Biotin-requiring enzyme


Domain annotation for each model (and alignments):
>> GCV_H  Glycine cleavage H-protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  155.5   0.1   5.9e-50   5.3e-46       1     119 [.       9     126 ..       9     127 .] 0.98

  Alignments for each domain:
  == domain 1  score: 155.5 bits;  conditional E-value: 5.9e-50
                              -EE-TTSEEEEEETT.EEEEEE-HHHHHHH-SEEEEE---TT-EE-TT-EEEEEEESS-EEEEE-SSSEEEEEE-GGGTT-TTHHH CS
                    GCV_H   1 lyytkehewvkveedgvatvGitdfaqeelgdvvfvelpevgtkvkkgeslaavEsvKaasevyapvsGevvevNekleeepeliN 86 
                              l+ytk+hew kve+d  + +Gitdfaq++lgd+vfvelpevg+++++ +s+++vEs K++s++y+p+sG+vvevN+ l++ pel N
  PHY93_09000|PHY93_09000   9 LKYTKDHEWAKVEGD-NVIIGITDFAQSALGDIVFVELPEVGKTLNAHQSFGVVESIKSVSDLYSPISGTVVEVNSGLQDTPELCN 93 
                              79************9.999******************************************************************* PP

                              H-TTTTT--EEEEES-GGGGGGSEEHHHHHHHH CS
                    GCV_H  87 kdpyeegWliklklsnleeleeLlsaeeyekll 119
                               +py+ +W+ik+kls+++e+++Llsa +y+++l
  PHY93_09000|PHY93_09000  94 AEPYGAAWMIKVKLSDKQEVNSLLSASDYQNFL 126
                              *****************************9986 PP

>> Biotin_lipoyl  Biotin-requiring enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.4   0.0      0.12   1.1e+03      16      27 ..      14      25 ..       5      28 .. 0.76
   2 !   14.5   0.0   2.6e-06     0.024      22      57 ..      47      82 ..      32      88 .. 0.91

  Alignments for each domain:
  == domain 1  score: -0.4 bits;  conditional E-value: 0.12
                             ECSESSSTTCEE CS
            Biotin_lipoyl 16 vvevlvkvGdkV 27
                               e+ + +Gd V
  PHY93_09000|PHY93_09000 14 DHEWAKVEGDNV 25
                             468999999988 PP

  == domain 2  score: 14.5 bits;  conditional E-value: 2.6e-06
                             STTCEE-TTSEEEEEECTTEEEEEEBSSSEEEEEES CS
            Biotin_lipoyl 22 kvGdkVkagqvlaeveamKmemeieapkaGvvkeil 57
                             +vG + +a q+  +ve+ K + ++ +p +G+v+e+ 
  PHY93_09000|PHY93_09000 47 EVGKTLNAHQSFGVVESIKSVSDLYSPISGTVVEVN 82
                             79*******************************995 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (127 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       391  (0.0218082); expected 358.6 (0.02)
Passed bias filter:                      361  (0.020135); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.36u 0.20s 00:00:00.56 Elapsed: 00:00:00.34
# Mc/sec: 1123.20
//
Query:       PHY93_09005|PHY93_09005  [L=96]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.051   13.7   0.4      0.058   13.5   0.4    1.1  1  IFS       Immunity factor for SPN


Domain annotation for each model (and alignments):
>> IFS  Immunity factor for SPN
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.4   3.2e-06     0.058      80     149 ..       2      70 ..       1      84 [. 0.84

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 3.2e-06
                      IFS  80 lslSkdlvklyqvvsyinsqnllleeyeslpFiidteelvsniiesiskLsdekkrekmkealvgelasy 149
                              +s  +d+++l +     ++++++ ++ye+    i + +++  ++ ++++Lsde+k +k  +a v  +++ 
  PHY93_09005|PHY93_09005   2 MSDKQDAIQLLNTAVIKSKEKRINATYEERLAKICNSPVMDALLVAVDHLSDEEKMSK-DHAAVQLIETI 70 
                              89999*****99888888999999999999999999*******************998.55556555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (96 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       836  (0.0466284); expected 358.6 (0.02)
Passed bias filter:                      492  (0.0274416); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 711.51
//
Query:       PHY93_09010|PHY93_09010  [L=337]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    3.4e-10   40.0   0.1    1.5e-09   37.9   0.1    2.1  1  TonB_2     TonB C terminal
    7.1e-05   23.2   0.0    0.00038   20.8   0.0    2.1  2  TonB_C     Gram-negative bacterial TonB protein C-terminal
  ------ inclusion threshold ------
        2.1    9.0   5.1        2.6    8.7   0.6    2.9  2  OAD_gamma  Oxaloacetate decarboxylase, gamma chain


Domain annotation for each model (and alignments):
>> TonB_2  TonB C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.9   0.1   2.6e-13   1.5e-09       2      74 ..     248     321 ..     235     326 .. 0.83

  Alignments for each domain:
  == domain 1  score: 37.9 bits;  conditional E-value: 2.6e-13
                   TonB_2   2 deYaakvrarikenwafpsq....isgnleavveitidpdGeivsvrlvksSgneafDkavkrAiekasplPpppek 74 
                              + + + ++++ k+ +++  +     s+nl + +++t+d  G i++++++ +Sg +++D+a+ +  +ka p+P pp k
  PHY93_09010|PHY93_09010 248 QYWGSTIQSKAKNLYKS--GrrlpASENLITAITVTLDDRGNILDIKIDGTSGIRELDQAAIESFNKAGPFPNPP-K 321
                              34666677777776633..245789**************************************************.3 PP

>> TonB_C  Gram-negative bacterial TonB protein C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.0      0.44   2.7e+03      42      63 ..     101     124 ..      91     135 .. 0.67
   2 !   20.8   0.0   6.3e-08   0.00038      20      64 ..     278     322 ..     276     336 .. 0.86

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.44
                              SCSHHHHHHHHTT..-EE-TT--E CS
                   TonB_C  42 eiLdkaAleavrk..wkfkpapkn 63 
                              + +d+++++a++    k   + kn
  PHY93_09010|PHY93_09010 101 QAFDRQTIAAANGvfKKAGLGNKN 124
                              679999999998853333344444 PP

  == domain 2  score: 20.8 bits;  conditional E-value: 6.3e-08
                              EEEEE-TTSBEEEEEEEEESSSSCSHHHHHHHHTT-EE-TT--EE CS
                   TonB_C  20 veftidpdGnvtnvkvvkssgseiLdkaAleavrkwkfkpapkng 64 
                              + +t+d  Gn+ ++k+   sg ++Ld+aA+e ++k+  +p p +g
  PHY93_09010|PHY93_09010 278 ITVTLDDRGNILDIKIDGTSGIRELDQAAIESFNKAGPFPNPPKG 322
                              6799*******************************7777777665 PP

>> OAD_gamma  Oxaloacetate decarboxylase, gamma chain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.7   0.6   0.00044       2.6      15      58 ..      13      71 ..      13     111 .. 0.80
   2 ?    0.7   0.3      0.14   8.3e+02      35      65 ..     134     176 ..     115     182 .. 0.53

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 0.00044
                OAD_gamma 15 FvvLilLslvislfskiikkkakkkkkkakaaaaaaaaaaaaa...............e 58
                             F++++ L l + +f++i +  + ++ +k+ a++++++a+ +++               +
  PHY93_09010|PHY93_09010 13 FAFIFSLALHFFAFGYIYNNIQREQSSKNLASQKNSNAPRSVKfdsvkfitrkqlqeiK 71
                             899999****************************9999988767777666666665542 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.14
                OAD_gamma  35 kakkkkkkakaaaaaaaaaaaaa..................eldddeel 65 
                              +++  ++k+ a ++++      +                  +++d+e++
  PHY93_09010|PHY93_09010 134 QEPVTAPKKVAHNEKS------KnlapktlqlsdlgsihilKVEDEEKI 176
                              3333333333333333......123334466667777766655555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (337 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1088  (0.0606838); expected 358.6 (0.02)
Passed bias filter:                      577  (0.0321825); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.38
# Mc/sec: 2652.96
//
Query:       PHY93_09015|PHY93_09015  [L=893]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    8.4e-63  211.0   0.1    1.3e-62  210.4   0.1    1.3  1  Transgly        Transglycosylase
    1.2e-29  103.5   1.3    1.7e-26   93.1   1.3    3.2  1  Transpeptidase  Penicillin binding protein transpeptidase dom
    4.9e-08   33.7   0.0    2.3e-07   31.6   0.0    2.1  2  PCB_OB          Penicillin-binding protein OB-like domain


Domain annotation for each model (and alignments):
>> Transgly  Transglycosylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  210.4   0.1   2.2e-66   1.3e-62       4     177 ..      58     230 ..      55     231 .. 0.97

  Alignments for each domain:
  == domain 1  score: 210.4 bits;  conditional E-value: 2.2e-66
                 Transgly   4 llaeleeeenrelvkleeippalkkavvaiEDrrFyehkGvdlkgiarAvlknlksgkssqGgSTitqQlvknlflseertlerKl 89 
                              llael   e+re+v+++++p  +++a++++ED++F+eh+Gvd+ g+arA+++n+++gk+ qGgSTitqQ++k l+ls+er+++rK+
  PHY93_09015|PHY93_09015  58 LLAEL-GLEKREIVEMKDVPARVIDAFLSAEDDKFFEHSGVDYFGLARAMFANFRAGKVVQGGSTITQQVAKSLLLSSERSITRKV 142
                              67777.4799**************************************************************************** PP

                 Transgly  90 keavlAlklekklsKdeILeaYlNsvylgrevyGieaAarayFgkdakdLtlaeaalLagllkaPsrynplenpeeakkrrkvvle 175
                              k+++lA ++e+kl+K+eIL +YlN+vylg++ yGi+aAa+ y++k+ kd+t+aeaa+Lagll aP +y+p+ np++a+kr+++vle
  PHY93_09015|PHY93_09015 143 KDFILAQRIEEKLNKKEILYLYLNQVYLGGGYYGIKAAAHGYYNKELKDITVAEAAMLAGLLVAPGKYSPYVNPQAARKRQHYVLE 228
                              ************************************************************************************** PP

                 Transgly 176 rm 177
                              rm
  PHY93_09015|PHY93_09015 229 RM 230
                              *9 PP

>> Transpeptidase  Penicillin binding protein transpeptidase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   93.1   1.3   2.9e-30   1.7e-26       2     305 ..     517     821 ..     516     822 .. 0.83

  Alignments for each domain:
  == domain 1  score: 93.1 bits;  conditional E-value: 2.9e-30
                              EEEEEETTT-BEEEEEEESE-TTTHHCCTCGCCSTHHHH--BB-GGGGHHHHHHHHHHTTSSTTSEEEEETCCEETTSS.ECTCCC CS
           Transpeptidase   2 aavvldaktgevlamaskpsydpnakvgkneplanravqsqyePGStfKvvtaaaaleagvikpdetlddsggkiqggqsikdweq 87 
                              a   +d +tge++++++ ++++ +++        nr++q + +PGS fK+++ +aale+g ++p + ++d +  + g +s  +w+ 
  PHY93_09015|PHY93_09015 517 ALFSMDVRTGEIVSYVGGRDFKISKF--------NRVIQAKRQPGSSFKPILYSAALEHG-YNPTTIIMDTPEAMPGFDSASSWKP 593
                              55679****************98888........88************************.***********999999999****9 PP

                              C-...SSSSEEEHHHHHHTT-HHHHHHHHHHH-HHHHHHHHHHTTTTS-SSSSSTT-B--B--SSHHHHHHHHHTTT.SBB-HHHH CS
           Transpeptidase  88 dn...kgsegitlrealekSsntyfvklaqklgadklrkylkkfglGnktgidlpgesaGvptrkwlegatisfgiG.ltvtplql 169
                              +n   + ++++t+r+ale+S n+ + k+a+k+g  ++ k+++++g+ +k +  l+                   + G   v+p  l
  PHY93_09015|PHY93_09015 594 KNyegDYKGPVTMRTALEESRNIPTIKMADKVGVGTILKFAERIGFNAKLDNNLS------------------IALGtFGVSPRDL 661
                              999999999***************************************3333332..................3345588999999 PP

                              HHHHHHHHTTTEEE--BSEEEEEECTT..................................EEEESS-EEEEE-S-HHHHHHHHHH CS
           Transpeptidase 170 aqayaaiangGklvkPhlvkaivdpdg..................................vrkvkpkelnklpisketaekvkeg 221
                              ++ ya   ngGk v+P+ + ++vd dg                                  +    ++   k++ ++  a  ++++
  PHY93_09015|PHY93_09015 662 VTTYALYPNGGKFVTPKAILSVVDRDGkkyiinevekdmkipgesdkdkdsekkdrpiaeqTNPFLKTLGDKQVYDPRLAYIMTNL 747
                              99999999999999999999999999999999999999999999777777666665543222222334446777777778899999 PP

                              HHHHHHCTTTTGCGTCTTS--EEEEEEEEECSSSTTSEEEEEEEEEEEEEESTTS-SEEEEEEECTCS....SSSSCCHHHHHHHH CS
           Transpeptidase 222 lkgvvsrgsgtataavegykvagKTGTAevagkkgngkkegakiswfvgyapadnpkyavavlieqpk....eaaggkaaapiakk 303
                              +kgvv++g++  + ++ + ++agKTGT++ + +           +wfvg++   n + av   ++++k     ++g kaa p+ k+
  PHY93_09015|PHY93_09015 748 MKGVVTSGTAASA-RDLSPNIAGKTGTTNDFID-----------AWFVGFTS--NVVTAVWNGFDDNKtlghGETGAKAALPVWKE 819
                              9999999943333.69999***********972...........4******5..78888888899998887767777777777666 PP

                              HH CS
           Transpeptidase 304 il 305
                               +
  PHY93_09015|PHY93_09015 820 YM 821
                              55 PP

>> PCB_OB  Penicillin-binding protein OB-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0       1.3     8e+03       1      27 [.     316     342 ..     316     350 .. 0.82
   2 !   31.6   0.0   3.8e-11   2.3e-07      23     100 ..     393     473 ..     368     497 .. 0.83

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 1.3
                              B---SEE-TT-SHCT..HHHHHHHCCT CS
                   PCB_OB   1 yRGpeakldlealaeadeealeealkk 27 
                              y+Gp a++  e+ +++++e+ ++  kk
  PHY93_09015|PHY93_09015 316 YKGPFAHVGNEEFSKFEKENRRNIHKK 342
                              99********99999988887765555 PP

  == domain 2  score: 31.6 bits;  conditional E-value: 3.8e-11
                              HHCCTSSTCTTEEEEEEEEEETTEEEEEET.TS-EEEEEGGGGTTTGCC..TTTS-B---CCCHCCC--TTEEEEEEE-TT CS
                   PCB_OB  23 ealkklpdsgelrpAvVlsvseksarvglr.dgetgtipleglkwarkv..lsdkkqgkapksasdvlkpGdvvlvrkeed 100
                              ++l ++ + +  ++AvV++ ++ s  ++++  g+ g+ip+e  kwa k    +++++ +++ ++s +l++Gd+++v+ +++
  PHY93_09015|PHY93_09015 393 DTLPNVLETNTQYEAVVTKLDDVSRLIYISlAGSPGVIPFEYFKWAHKRsiSENTAYYQEVSKPSTILRVGDLIHVQMVKK 473
                              5566777788999**********9998887589*************997634455799*******************9887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (893 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       552  (0.0307881); expected 358.6 (0.02)
Passed bias filter:                      380  (0.0211947); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.69u 0.24s 00:00:00.93 Elapsed: 00:00:00.52
# Mc/sec: 5208.10
//
Query:       PHY93_09020|PHY93_09020  [L=345]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-07   32.3   0.0    1.7e-07   31.7   0.0    1.3  1  Patatin   Patatin-like phospholipase
  ------ inclusion threshold ------
       0.07   13.6   1.5       0.19   12.3   1.5    1.8  1  LPAM_1    Prokaryotic membrane lipoprotein lipid attachment s


Domain annotation for each model (and alignments):
>> Patatin  Patatin-like phospholipase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.7   0.0   1.8e-11   1.7e-07       3      71 ..      97     178 ..      95     281 .. 0.75

  Alignments for each domain:
  == domain 1  score: 31.7 bits;  conditional E-value: 1.8e-11
                  Patatin   3 lsGGGsrgafslgalkaLkkelgerfdiisGtSaGAiialllalgrdpaalvddlrnlllnkifdrdl..............l 71 
                              l+ G+ r + ++  lk L ++ +  +dii+Gt  GAi+a+++a+g++p+ ++ +++  +++k ++++                
  PHY93_09020|PHY93_09020  97 LGPGIYRTINYVSLLKIL-ERQNLAPDIITGTGFGAIVAAMYATGMTPEVIEWNFYKYFKEKKKNKPYekdwineidemfltK 178
                              566777888888889999.99*****************************************999995555555444444440 PP

>> LPAM_1  Prokaryotic membrane lipoprotein lipid attachment site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   1.5   2.1e-05      0.19       1      18 []       1      18 [.       1      18 [. 0.98

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 2.1e-05
                   LPAM_1  1 MKKillalgalllLsGCs 18
                             M K l +l+++l+Ls+Cs
  PHY93_09020|PHY93_09020  1 MNKALTLLSIILILSSCS 18
                             99***************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (345 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       691  (0.0385409); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.38
# Mc/sec: 2743.09
//
Query:       PHY93_09025|PHY93_09025  [L=66]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.9e-20   71.1   5.5    7.2e-20   70.8   5.5    1.1  1  Exonuc_VII_S  Exonuclease VII small subunit
    0.00045   20.4   1.0     0.0037   17.5   0.3    1.9  2  KxDL          Uncharacterized conserved protein
  ------ inclusion threshold ------
      0.054   13.3   1.0        2.4    7.9   0.0    2.0  2  SH3BP5        SH3 domain-binding protein 5 (SH3BP5)
      0.076   12.9   1.7        1.3    9.0   0.1    2.5  2  DUF1657       Protein of unknown function (DUF1657)
      0.096   12.8   2.5       0.11   12.7   0.5    2.0  2  HR1           Hr1 repeat
       0.12   12.6   2.4       0.13   12.5   2.4    1.0  1  DUF1319       Protein of unknown function (DUF1319)
       0.15   12.3   2.7       0.18   12.0   0.4    1.8  2  MapZ_EC1      MapZ extracellular domain 1


Domain annotation for each model (and alignments):
>> Exonuc_VII_S  Exonuclease VII small subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.8   5.5   2.8e-23   7.2e-20       1      51 [.       7      57 ..       7      58 .. 0.98

  Alignments for each domain:
  == domain 1  score: 70.8 bits;  conditional E-value: 2.8e-23
             Exonuc_VII_S  1 FEealaeLeeIvekLEsgelsLeeslklyeeGvkLlkeCekkLdeaeqkve 51
                             FEe+l+eLe Iv+kLEsg++ Le+sl+++e G+kL+keC+++L  ae+k+ 
  PHY93_09025|PHY93_09025  7 FEESLKELESIVSKLESGDIGLEQSLEQFEIGTKLYKECKEQLSVAEKKIA 57
                             9************************************************96 PP

>> KxDL  Uncharacterized conserved protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.9   0.1     0.051   1.3e+02      61      79 ..       4      22 ..       1      24 [. 0.72
   2 !   17.5   0.3   1.4e-06    0.0037      42      80 ..      27      65 ..       7      66 .] 0.86

  Alignments for each domain:
  == domain 1  score: 2.9 bits;  conditional E-value: 0.051
                     KxDL 61 kkdLesifkkirslkakla 79
                             kk+ e + k ++s+ +kl+
  PHY93_09025|PHY93_09025  4 KKNFEESLKELESIVSKLE 22
                             7777778888888877776 PP

  == domain 2  score: 17.5 bits;  conditional E-value: 1.4e-06
                     KxDL 42 rlaklrarfkqgtkllkevkkdLesifkkirslkaklak 80
                              l++  ++f+ gtkl ke k++L    kki  l++ l++
  PHY93_09025|PHY93_09025 27 GLEQSLEQFEIGTKLYKECKEQLSVAEKKIAVLTDSLKE 65
                             589999***************************999876 PP

>> SH3BP5  SH3 domain-binding protein 5 (SH3BP5)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.2    0.0082        21     200     216 ..       2      18 ..       1      24 [. 0.84
   2 ?    7.9   0.0   0.00095       2.4      78     106 ..      29      57 ..      22      65 .. 0.88

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.0082
                   SH3BP5 200 eaKaeYseaLrnLeqIS 216
                              ++K++++e+L++Le+I 
  PHY93_09025|PHY93_09025   2 TKKKNFEESLKELESIV 18 
                              57999*********995 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.00095
                   SH3BP5  78 qkaaekferansahaaAketvalaeqsll 106
                               ++ e+fe  ++++++ ke++++ae++++
  PHY93_09025|PHY93_09025  29 EQSLEQFEIGTKLYKECKEQLSVAEKKIA 57 
                              57789********************9986 PP

>> DUF1657  Protein of unknown function (DUF1657)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0   0.1    0.0005       1.3      28      47 ..       4      23 ..       1      23 [. 0.91
   2 ?    3.0   0.1     0.037        94      29      39 ..      40      50 ..      28      57 .. 0.81

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.0005
                  DUF1657 28 KqmYeqaaeqleeviqdLep 47
                             K+ +e+  ++le+++ +Le+
  PHY93_09025|PHY93_09025  4 KKNFEESLKELESIVSKLES 23
                             999***************96 PP

  == domain 2  score: 3.0 bits;  conditional E-value: 0.037
                  DUF1657 29 qmYeqaaeqle 39
                             ++Y+++ eql 
  PHY93_09025|PHY93_09025 40 KLYKECKEQLS 50
                             68999999986 PP

>> HR1  Hr1 repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.1      0.39     1e+03      55      65 ..       8      18 ..       2      23 .. 0.66
   2 ?   12.7   0.5   4.2e-05      0.11      35      60 ..      40      65 ..      26      66 .] 0.85

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 0.39
                      HR1 55 reqLeelqasv 65
                             +e+L+el++ v
  PHY93_09025|PHY93_09025  8 EESLKELESIV 18
                             66777776644 PP

  == domain 2  score: 12.7 bits;  conditional E-value: 4.2e-05
                      HR1 35 kvrqeaeselsesnskielLreqLee 60
                             k+  e++ +ls +++ki+ L+++L+e
  PHY93_09025|PHY93_09025 40 KLYKECKEQLSVAEKKIAVLTDSLKE 65
                             67789*******************87 PP

>> DUF1319  Protein of unknown function (DUF1319)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   2.4   4.9e-05      0.13      44     104 ..       3      65 ..       1      66 [] 0.89

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 4.9e-05
                  DUF1319  44 krrslekqlkklkselkklre.lylerrPlskqev.eelvveiskqPklieeealrlteelkl 104
                              k++++e+ lk+l+s + kl++ +   ++ l + e+  +l  e  +q  + e++   lt++lk 
  PHY93_09025|PHY93_09025   3 KKKNFEESLKELESIVSKLESgDIGLEQSLEQFEIgTKLYKECKEQLSVAEKKIAVLTDSLKE 65 
                              789****************8736667999*****9568999*******************985 PP

>> MapZ_EC1  MapZ extracellular domain 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   0.1      0.15     4e+02      38      56 ..       3      22 ..       1      27 [. 0.74
   2 ?   12.0   0.4   7.2e-05      0.18      48      79 ..      28      60 ..      16      62 .. 0.92

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.15
                 MapZ_EC1 38 knsef.aklseLekkLeklk 56
                             k  +f ++l+eLe+ + kl+
  PHY93_09025|PHY93_09025  3 KKKNFeESLKELESIVSKLE 22
                             56677788888888888876 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 7.2e-05
                 MapZ_EC1 48 LekkLeklk.gskeYkklkkkldslkkqisaie 79
                             Le++Le+++ g+k Yk+ k++l  ++k+i++++
  PHY93_09025|PHY93_09025 28 LEQSLEQFEiGTKLYKECKEQLSVAEKKIAVLT 60
                             89***************************9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (66 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       902  (0.0503096); expected 358.6 (0.02)
Passed bias filter:                      449  (0.0250432); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.39u 0.22s 00:00:00.61 Elapsed: 00:00:00.38
# Mc/sec: 526.34
//
Query:       PHY93_09030|PHY93_09030  [L=275]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    4.4e-17   62.0   0.3      1e-16   60.8   0.3    1.6  1  Flg_bbr_C   Flagellar basal body rod FlgEFG protein C-termina
      1e-12   47.7   1.4    1.8e-12   46.9   0.2    2.1  2  Flg_bb_rod  Flagella basal body rod protein


Domain annotation for each model (and alignments):
>> Flg_bbr_C  Flagellar basal body rod FlgEFG protein C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.8   0.3   1.1e-20     1e-16       2      73 ..     201     272 ..     200     273 .. 0.87

  Alignments for each domain:
  == domain 1  score: 60.8 bits;  conditional E-value: 1.1e-20
                Flg_bbr_C   2 glekggdnlyretsgapi.lgadadgkvaqgflegSNVnlveemtnlieaqraYeanakvittademlqtaln 73 
                              +l+k+g+ l+ + + + i +g   +  v qgf+e+SNVn+v em+ li a+r++e  ++v++t+d+m  +a+n
  PHY93_09030|PHY93_09030 201 ALKKEGGSLFINPDQQNIkIGESKT-AVHQGFVEQSNVNAVGEMSALINANRNFESIQRVLKTYDTMSGKAVN 272
                              589*******888866532554444.59*****************************************9987 PP

>> Flg_bb_rod  Flagella basal body rod protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.9   0.2     2e-16   1.8e-12       1      31 []       4      34 ..       4      34 .. 0.94
   2 ?   -2.8   0.1      0.73   6.5e+03       5      13 ..     243     251 ..     243     253 .. 0.74

  Alignments for each domain:
  == domain 1  score: 46.9 bits;  conditional E-value: 2e-16
               Flg_bb_rod  1 LrtavsALnaqqialdvianNiANanTtGyK 31
                             L++  s+ +aqq+++++ianN+ANanT+G+K
  PHY93_09030|PHY93_09030  4 LWVPLSGAIAQQRNVETIANNVANANTPGFK 34
                             67778*************************9 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 0.73
               Flg_bb_rod   5 vsALnaqqi 13 
                              +sAL+++ +
  PHY93_09030|PHY93_09030 243 MSALINANR 251
                              789988765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (275 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       360  (0.0200792); expected 358.6 (0.02)
Passed bias filter:                      305  (0.0170115); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1999.56
//
Query:       PHY93_16650|PHY93_16650  [L=98]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.3e-11   43.0   0.1    5.1e-11   42.4   0.1    1.3  1  HTH_37          Helix-turn-helix domain
      0.001   19.1   0.1     0.0062   16.6   0.0    2.0  2  HTH_3           Helix-turn-helix
     0.0036   16.8   0.2     0.0087   15.6   0.2    1.7  1  HTH_24          Winged helix-turn-helix DNA-binding
     0.0097   16.3   0.6       0.03   14.8   0.1    1.7  2  Staphylokinase  Staphylokinase/Streptokinase family
  ------ inclusion threshold ------
      0.037   14.0   1.5       0.11   12.5   0.1    2.1  2  HTH_19          Helix-turn-helix domain
      0.054   13.5   0.1       0.11   12.4   0.1    1.5  1  DUF3924         Protein of unknown function (DUF3924)
      0.058   13.8   0.0       0.11   13.0   0.0    1.4  1  HTH_26          Cro/C1-type HTH DNA-binding domain


Domain annotation for each model (and alignments):
>> HTH_37  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.4   0.1     2e-14   5.1e-11       6      78 ..      25      98 .]      23      98 .] 0.92

  Alignments for each domain:
  == domain 1  score: 42.4 bits;  conditional E-value: 2e-14
                             X--HHHHHH.HHHHHHHHHHHHHHHCT--HHHHHHHHT--HHHHHHHHTT--TT--HHHHHHHHHHTTEEEEEE CS
                   HTH_37  6 geedaeelk.aKaqlalaiaeliekrelsqseaaqllgiaqPkvsrllrgklsrfsldkLlnlltalGqkveiv 78
                              +e+a ++  +K +l ++    i++ ++sq+++a+ l+++ ++++++ ++k++ f++dkL++++++l+ ++ei+
  PHY93_16650|PHY93_16650 25 LPENATKIDiLKYALCQKFVVHIQESKISQADLAKQLNMDTARLNEIVKYKINLFTVDKLIEFAQRLDPNLEIK 98
                             5677777777888889998899**************************************************96 PP

>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.0       0.3   7.8e+02       1      11 [.       9      19 ..       4      24 .. 0.58
   2 !   16.6   0.0   2.4e-06    0.0062       7      48 ..      49      91 ..      47      93 .. 0.87

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.3
                             HHHHHHHTTHH CS
                    HTH_3  1 lkelRkqlgls 11
                             lk++R+ l+ +
  PHY93_16650|PHY93_16650  9 LKKIRESLDKT 19
                             45555555444 PP

  == domain 2  score: 16.6 bits;  conditional E-value: 2.4e-06
                             HTTHHHHHHHHHHTSSHHHHHHHHTT.SSCSBHHHHHHHHHHH CS
                    HTH_3  7 qlglsqeeLAeklGvsrstisriEnG.ernPsletlkklakaL 48
                             + ++sq++LA+ l++  + ++ i +  +   ++++l++ a+ L
  PHY93_16650|PHY93_16650 49 ESKISQADLAKQLNMDTARLNEIVKYkINLFTVDKLIEFAQRL 91
                             779**********************988888888888887766 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.2   3.4e-06    0.0087      14      39 ..      48      73 ..      27      73 .. 0.88

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 3.4e-06
                   HTH_24 14 knprisqreLAerlglSpstvnrrlk 39
                             ++++isq++LA++l++  + +n+ +k
  PHY93_16650|PHY93_16650 48 QESKISQADLAKQLNMDTARLNEIVK 73
                             4789******************9987 PP

>> Staphylokinase  Staphylokinase/Streptokinase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.1   1.2e-05      0.03      46      90 ..       9      51 ..       4      64 .. 0.86
   2 ?   -0.6   0.0      0.66   1.7e+03       5      15 ..      72      82 ..      65      94 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 1.2e-05
           Staphylokinase 46 lkaieeqLdardpaytiyqnddsfeivdfdsdakieftyhdknrk 90
                             lk i+e Ld+++p y++ +n   ++i ++++  k     h+++ k
  PHY93_16650|PHY93_16650  9 LKKIRESLDKTEPSYLLPENATKIDILKYALCQKFV--VHIQESK 51
                             67899**************************99977..6777766 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.66
           Staphylokinase  5 ieftvnfvdvd 15
                             +++++n + vd
  PHY93_16650|PHY93_16650 72 VKYKINLFTVD 82
                             46888888888 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.1      0.23   5.8e+02      44      53 ..       8      17 ..       2      30 .. 0.61
   2 ?   12.5   0.1   4.4e-05      0.11       9      53 ..      48      92 ..      46      96 .. 0.90

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.23
                   HTH_19 44 lllkiaealg 53
                             +l+ki e l+
  PHY93_16650|PHY93_16650  8 KLKKIRESLD 17
                             5555555554 PP

  == domain 2  score: 12.5 bits;  conditional E-value: 4.4e-05
                   HTH_19  9 eelgltqeelaerlgisrskisaiEngkkdvpsaelllkiaealg 53
                              e +++q++la++l ++ +++++i + k++ ++ ++l  +a+ l+
  PHY93_16650|PHY93_16650 48 QESKISQADLAKQLNMDTARLNEIVKYKINLFTVDKLIEFAQRLD 92
                             5679*********************99999999999999999875 PP

>> DUF3924  Protein of unknown function (DUF3924)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   4.4e-05      0.11      11      44 ..      27      60 ..      22      66 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 4.4e-05
                  DUF3924 11 etaekldllkqayekktGasisestlvqtliske 44
                             e a k+d+lk a  +k    i es + q+ ++k+
  PHY93_16650|PHY93_16650 27 ENATKIDILKYALCQKFVVHIQESKISQADLAKQ 60
                             889***********************99988775 PP

>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   4.1e-05      0.11       7      48 ..      48      89 ..      45      95 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 4.1e-05
                   HTH_26  7 adrgitkseLargtgisaatlsrlvkgkpervsldtLdkiCd 48
                             ++ +i++++La++++++ a l+ +vk k++  + d L  +++
  PHY93_16650|PHY93_16650 48 QESKISQADLAKQLNMDTARLNEIVKYKINLFTVDKLIEFAQ 89
                             6889***********************988888888776665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (98 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       920  (0.0513135); expected 358.6 (0.02)
Passed bias filter:                      524  (0.0292264); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 759.06
//
Query:       PHY93_09035|PHY93_09035  [L=278]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.4e-23   82.9   5.9    4.6e-23   81.1   5.9    1.9  1  Flg_bbr_C   Flagellar basal body rod FlgEFG protein C-termina
      8e-12   44.8   2.2      2e-11   43.6   2.2    1.8  1  Flg_bb_rod  Flagella basal body rod protein


Domain annotation for each model (and alignments):
>> Flg_bbr_C  Flagellar basal body rod FlgEFG protein C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   81.1   5.9   5.1e-27   4.6e-23       2      73 ..     202     278 .]     201     278 .] 0.87

  Alignments for each domain:
  == domain 1  score: 81.1 bits;  conditional E-value: 5.1e-27
                Flg_bbr_C   2 glekggdnlyrets..gapilga...dadgkvaqgflegSNVnlveemtnlieaqraYeanakvittademlqtaln 73 
                              gl+++g nly+ +   g+p++     +++g ++qg+le+SNV++++emt+li aqraYe+n+kv+  ad+m+qt++n
  PHY93_09035|PHY93_09035 202 GLKSQGANLYQVSLssGQPVQSIageNNAGAIMQGALEASNVSPMTEMTDLIRAQRAYEMNSKVMGVADQMMQTINN 278
                              899*******666678999443243355559********************************************97 PP

>> Flg_bb_rod  Flagella basal body rod protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.6   2.2   2.2e-15     2e-11       1      31 []      24      54 ..      24      54 .. 0.98

  Alignments for each domain:
  == domain 1  score: 43.6 bits;  conditional E-value: 2.2e-15
               Flg_bb_rod  1 LrtavsALnaqqialdvianNiANanTtGyK 31
                             L ta+s+++aq + + +i+nNiAN+nT+G+K
  PHY93_09035|PHY93_09035 24 LSTAASGMSAQETYVSTISNNIANVNTVGFK 54
                             78****************************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (278 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       387  (0.0215851); expected 358.6 (0.02)
Passed bias filter:                      262  (0.0146132); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.43
# Mc/sec: 1940.69
//
Query:       PHY93_09040|PHY93_09040  [L=306]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.2e-11   43.3   0.3    1.2e-10   41.5   0.1    1.9  2  ChapFlgA  Chaperone for flagella basal body P-ring formation


Domain annotation for each model (and alignments):
>> ChapFlgA  Chaperone for flagella basal body P-ring formation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.0      0.11     2e+03       9      25 ..      40      56 ..      33      79 .. 0.78
   2 !   41.5   0.1   6.5e-15   1.2e-10       2     121 ..     184     305 ..     183     306 .] 0.91

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 0.11
                 ChapFlgA  9 pLkrgevitasdlalkk 25
                             +L+ ++++++sd+ lk+
  PHY93_09040|PHY93_09040 40 RLESNQTLSSSDIILKT 56
                             68888889999888776 PP

  == domain 2  score: 41.5 bits;  conditional E-value: 6.5e-15
                 ChapFlgA   2 evvvaarpLk.rgevitasdlalkkrdlsrlrggvlt..deaigkkvkrsiragqpirqnmlekpplVkkgqkVtiiarggglsit 84 
                              +v+ a+r+L+ +++ ++ +d+  +++ + + ++++lt  d+++  k++++i +g+++ + +l+++ lV+ g  V+++ +++++++ 
  PHY93_09040|PHY93_09040 184 KVFKAKRSLSfQQKHLEVEDFYSEEVFVGN-PDNILTtlDNIQFYKANKNILQGAVVSNLDLQAVNLVSFGTPVNVTLKNQNINLH 268
                              577888888845667999999999999988.666664499********************************************** PP

                 ChapFlgA  85 teGkAlenGaegdqIrVknlqSgrivkarVtgsgtVe 121
                               ++    ++  gd+I+ +n + ++++ ++V++ ++V 
  PHY93_09040|PHY93_09040 269 RTAMPTRSALFGDVIELRNPNNNKTIAGKVVDFNKVV 305
                              ********************************99985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (306 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       642  (0.0358079); expected 358.6 (0.02)
Passed bias filter:                      377  (0.0210274); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.20s 00:00:00.67 Elapsed: 00:00:00.38
# Mc/sec: 2421.76
//
Query:       PHY93_09045|PHY93_09045  [L=259]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.4e-15   55.7   1.0    7.9e-15   54.9   1.0    1.4  1  FlgH      Flagellar L-ring protein


Domain annotation for each model (and alignments):
>> FlgH  Flagellar L-ring protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.9   1.0   4.4e-19   7.9e-15       3     142 ..     104     257 ..     102     259 .] 0.81

  Alignments for each domain:
  == domain 1  score: 54.9 bits;  conditional E-value: 4.4e-19
                     FlgH   3 angSlfqeassarslfedrrarrvGDiltvvieestsasksastktsrsssas......kaskslga..............sssss 68 
                              ++gSl+  ++ +  lf++++ ++ GDi+ +++  + + + + + k    ++        +      +               ++++
  PHY93_09045|PHY93_09045 104 SDGSLWAGSDPNAFLFSNNKSKNSGDIIQINVLPRLKNEITMELKKAFPDNPYdtktgaE------TaksgdpkapvadkpATDKK 183
                              689******9999*******************9988888777766666552222222230......13333444444555567777 PP

                     FlgH  69 fkgkgstsrsnsltgtitvtVvevlpnGnLvieGekevrvnqekevirlsGiVrpedIsadNtvsstriAdarI 142
                               + +++t+  +s + +i+ +Vve ++  +L+i+G+k+v + + k++++++ +V ++dI +++tvss+ i + ++
  PHY93_09045|PHY93_09045 184 EATTADTAGGDSAQDKISGVVVEEINREHLLIKGRKNVLFKNRKRMVEVQALVSRKDIGENDTVSSDAILESNV 257
                              788888999999999******************************************************98776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (259 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       855  (0.0476881); expected 358.6 (0.02)
Passed bias filter:                      477  (0.0266049); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.27s 00:00:00.81 Elapsed: 00:00:00.47
# Mc/sec: 1654.34
//
Query:       PHY93_09050|PHY93_09050  [L=332]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   6.4e-111  370.6   7.8   5.3e-109  364.3   7.8    2.0  1  FlgI      Flagellar P-ring protein


Domain annotation for each model (and alignments):
>> FlgI  Flagellar P-ring protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  364.3   7.8    3e-113  5.3e-109       1     342 [.      22     332 .]      22     332 .] 0.94

  Alignments for each domain:
  == domain 1  score: 364.3 bits;  conditional E-value: 3e-113
                     FlgI   1 rikdiasiegvrenqLvGyGLVvGLngtGDkkkqtkfteqslknmlerlgvkveekekklknvAaVmvtAelppfakkGqkidvtV 86 
                              r+kd++s++gvren ++GyGLV+GLngtGD     ++t+ slk+m+e+lg++ + +e+++knvAaV+vtA+lp+fa+ Gqkid ++
  PHY93_09050|PHY93_09050  22 RLKDLVSVKGVRENPILGYGLVIGLNGTGDA--GGEITNTSLKKMFEKLGLNPK-TEITSKNVAAVVVTAKLPAFARVGQKIDLVI 104
                              89****************************9..5679***************88.557**************************** PP

                     FlgI  87 ssigdAksLeGGtLlltpLkgadgevyAvAqGslvvgglsaeeakgssvtknvptagripnGaiverevptelkkkkeltlslkep 172
                              ssigdA+sL+GGtLl+tpLkg dg++yAvA G++++ggl++          + +t+g+ip Ga+ve+ev te++kk++l+lsl++p
  PHY93_09050|PHY93_09050 105 SSIGDASSLAGGTLLVTPLKGGDGNIYAVAAGPMSIGGLKKG--------AKFATTGTIPGGATVEKEVVTEFEKKNSLRLSLNNP 182
                              ***************************************943........5789******************************** PP

                     FlgI 173 dfttakriadainkelgekvAkavdartvevklpedleeerveflaevenlevepdakarvvinertgtvVigenvrisevavshg 258
                              dftta+ri+++in+elg k A+a+d++t+++ +p ++e++ v+++a ven +v+pd++a++vinertgt+V+g++v++ +va+shg
  PHY93_09050|PHY93_09050 183 DFTTAARIEKVINEELGGKFASAKDSTTIDLVVPVQYERNIVQLMAIVENFKVNPDSAAKIVINERTGTIVAGGDVTVAPVAISHG 268
                              ************************************************************************************** PP

                     FlgI 259 nltvkikeepevsqpaplsegetvvvpeteieveeekaklvvleegatlsdlvkaLnalgvtprdliaiLqalkaaGaLqAele 342
                              +lt+++k +          +g++              ++++ +e+g+tl++lvk+Lna gv+p+dli+i+q+lk+ GaL +++e
  PHY93_09050|PHY93_09050 269 DLTIEVKGD----------GGDKGGK----------PNTIYFMEKGTTLNELVKSLNAFGVAPEDLISIFQTLKKDGALVGDIE 332
                              ******963..........3333332..........334566789**********************************99885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (332 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       604  (0.0336884); expected 358.6 (0.02)
Passed bias filter:                      514  (0.0286686); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.60u 0.28s 00:00:00.88 Elapsed: 00:00:00.48
# Mc/sec: 2065.48
//
Query:       PHY93_09055|PHY93_09055  [L=162]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    5.7e-05   23.6   4.1    5.7e-05   23.6   4.1    2.4  2  Rod-binding  Rod binding protein


Domain annotation for each model (and alignments):
>> Rod-binding  Rod binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.0   0.1     0.078   1.4e+03      28      37 ..      37      46 ..      34      53 .. 0.79
   2 !   23.6   4.1   3.2e-09   5.7e-05       1      51 []      54     100 ..      54     100 .. 0.90

  Alignments for each domain:
  == domain 1  score: -0.0 bits;  conditional E-value: 0.078
              Rod-binding 28 dqqlAksmak 37
                             +q+ A+sm  
  PHY93_09055|PHY93_09055 37 YQEVAESMET 46
                             7999999874 PP

  == domain 2  score: 23.6 bits;  conditional E-value: 3.2e-09
              Rod-binding   1 KsMrkavpkedglfggsaaedmfrdmldqqlAksmakngggiGLAdmlyrQ 51 
                              K+M +++++     g+ +++d+++++   + Ak mak++  +GL   +++Q
  PHY93_09055|PHY93_09055  54 KQMNQTIDE---TAGEDSGMDYYKSLQTTERAKMMAKQN-NLGLQNVILDQ 100
                              9*****855...44889999****************995.9*******998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (162 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1578  (0.0880138); expected 358.6 (0.02)
Passed bias filter:                      475  (0.0264934); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.38
# Mc/sec: 1264.19
//
Query:       PHY93_09060|PHY93_09060  [L=106]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    4.6e-13   49.3   1.6    6.9e-13   48.7   1.6    1.3  1  FlgM        Anti-sigma-28 factor, FlgM
  ------ inclusion threshold ------
          1    7.6   2.6        1.2    7.3   2.6    1.0  1  Atrophin-1  Atrophin-1 family


Domain annotation for each model (and alignments):
>> FlgM  Anti-sigma-28 factor, FlgM
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.7   1.6   7.8e-17   6.9e-13       2      55 .]      51     105 ..      50     105 .. 0.95

  Alignments for each domain:
  == domain 1  score: 48.7 bits;  conditional E-value: 7.8e-17
                     FlgM   2 sVeiSeaakalqkakqaaaaape.vreekVaelKeaIasGtYqvdaekiAdklld 55 
                              +V i +a k+++++k+ a aap+  +++k+a+lK++Ia+G+Y++d + + dk+l+
  PHY93_09060|PHY93_09060  51 KVDIADAIKDFARIKKVADAAPDiDNTDKIARLKAQIADGSYKIDLDGLSDKILE 105
                              689999****************977899*************************95 PP

>> Atrophin-1  Atrophin-1 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3   2.6   0.00013       1.2      32     103 ..      13      86 ..       3      93 .. 0.82

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.00013
               Atrophin-1  32 asptnedlrssgrtspsaastsstdskadsvkksskkikeevtsplksakrqre..kaasdteeperatakksk 103
                                p +++ r sg+  p+ ++ +s   k++    s+   k++++  +k   r ++   aa+d +++++ +  k++
  PHY93_09060|PHY93_09060  13 FMPGKKETRESGKVGPAGLKRNSETRKNELEAFSKSDSKVDIADAIKDFARIKKvaDAAPDIDNTDKIARLKAQ 86 
                              5689999*****************9999988888888999999****999987622579999999998876654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (106 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       430  (0.0239835); expected 358.6 (0.02)
Passed bias filter:                      282  (0.0157287); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 822.53
//
Query:       PHY93_09065|PHY93_09065  [L=161]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.1e-11   44.5   6.1    2.5e-11   44.3   6.1    1.0  1  FlgN      FlgN protein
  ------ inclusion threshold ------
      0.032   14.5   0.5      0.059   13.6   0.5    1.4  1  FliG_M    FliG middle domain


Domain annotation for each model (and alignments):
>> FlgN  FlgN protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.3   6.1   2.8e-15   2.5e-11       6     144 ..      11     158 ..       8     160 .. 0.92

  Alignments for each domain:
  == domain 1  score: 44.3 bits;  conditional E-value: 2.8e-15
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--...SCHHHHHHHHCT..... CS
                     FlgN   6 eLielleeelelleeLlelleeEteaLkagdieaLeelleekqellekleqleqkrakllaelgls...aeeatlsellak..... 83 
                              e+++l +++ e ++eL  ++  E  +L +++++ Lee l ek+ ++ +++ le  r++l++el+     +e +++s+ll+      
  PHY93_09065|PHY93_09065  11 EVTDLWKRLCEEHNELFNITCDEYSLLLSSELSLLEEKLVEKNNIILRISSLETIRRELIKELNSIfpeKEIDSVSKLLEImktye 96 
                              5677888999999******************************************************9999999999999877777 PP

                              ..TCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCHXXXX.XXXXXXXXX CS
                     FlgN  84 ..eedeelkelwqelkelleelkelnelNgrlieqslefnqrllnllqgaanksntYgadGkt 144
                                ++++ l    + l +++e+++++n++N+ +i+++l +++++    +g++n  +tY+++G++
  PHY93_09065|PHY93_09065  97 veNKQKHLFRFNALLIDIIEKIQAQNKRNQLFINKALLSLKQIRIEATGKKNY-STYSSKGSA 158
                              77777777777777***************************************.*******86 PP

>> FliG_M  FliG middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.5   6.6e-06     0.059      32      66 ..      42      78 ..      39      87 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 6.6e-06
                             HHTS-HH..HHHHHHHHHHTCCTCSHHHHHHHHHHHH CS
                   FliG_M 32 LseLpee..lraevirriatlekvspevlkeveevLe 66
                             Ls L+e+  +++++i+ri +le++  e +ke++++  
  PHY93_09065|PHY93_09065 42 LSLLEEKlvEKNNIILRISSLETIRRELIKELNSIFP 78
                             778888644799********************99874 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (161 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1331  (0.0742373); expected 358.6 (0.02)
Passed bias filter:                      467  (0.0260472); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.18s 00:00:00.61 Elapsed: 00:00:00.36
# Mc/sec: 1356.11
//
Query:       PHY93_09070|PHY93_09070  [L=485]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.9e-12   47.1   0.4    5.8e-12   45.6   0.4    1.9  1  Flg_bbr_C   Flagellar basal body rod FlgEFG protein C-termina
    1.5e-05   24.8   0.0    0.00011   22.0   0.0    2.5  2  Flg_bb_rod  Flagella basal body rod protein
  ------ inclusion threshold ------
       0.23   11.9   3.0          2    9.0   0.7    3.5  3  NPV_P10     Nucleopolyhedrovirus P10 protein


Domain annotation for each model (and alignments):
>> Flg_bbr_C  Flagellar basal body rod FlgEFG protein C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.6   0.4   9.8e-16   5.8e-12      34      74 .]     445     485 .]     408     485 .] 0.80

  Alignments for each domain:
  == domain 1  score: 45.6 bits;  conditional E-value: 9.8e-16
                Flg_bbr_C  34 egSNVnlveemtnlieaqraYeanakvittademlqtalnl 74 
                                S+V+++ee +n++ +q aYea+ak++++adem++t+l l
  PHY93_09070|PHY93_09070 445 RLSGVSIDEETANMVRFQHAYEASAKMMQAADEMFKTVLEL 485
                              569**********************************9865 PP

>> Flg_bb_rod  Flagella basal body rod protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.0   0.0   1.9e-08   0.00011       3      30 ..       7      34 ..       5      34 .. 0.95
   2 ?   -1.8   0.1      0.53   3.2e+03      13      25 ..     241     253 ..     241     254 .. 0.85

  Alignments for each domain:
  == domain 1  score: 22.0 bits;  conditional E-value: 1.9e-08
               Flg_bb_rod  3 tavsALnaqqialdvianNiANanTtGy 30
                             +++s+L a  +al+v++ N++N+nT+Gy
  PHY93_09070|PHY93_09070  7 IGKSGLFASKKALEVTGHNLSNVNTEGY 34
                             689************************9 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 0.53
               Flg_bb_rod  13 ialdvianNiANa 25 
                              ++l+v++ N AN+
  PHY93_09070|PHY93_09070 241 QELAVVSKNKANS 253
                              5799***999997 PP

>> NPV_P10  Nucleopolyhedrovirus P10 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0   0.7   0.00033         2      31      66 ..     139     175 ..      56     189 .. 0.92
   2 ?   -1.4   0.0      0.58   3.5e+03      35      48 ..     291     304 ..     257     315 .. 0.65
   3 ?   -2.7   0.0       1.4   8.6e+03      53      66 ..     365     378 ..     356     382 .. 0.65

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.00033
                  NPV_P10  31 qenlpdvtelnekLdaqsaqLa.eletkvenIqdiLn 66 
                              +  ++d+  + e Ld q+ +++ ++ t+v++I++iL+
  PHY93_09070|PHY93_09070 139 SLAVKDFRRIRETLDLQAGNIDrKIGTTVSDINQILS 175
                              5568999************99747************9 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.58
                  NPV_P10  35 pdvtelnekLdaqs 48 
                              +d+++l+e +d+++
  PHY93_09070|PHY93_09070 291 EDLKKLQEDMDGIA 304
                              33444555555544 PP

  == domain 3  score: -2.7 bits;  conditional E-value: 1.4
                  NPV_P10  53 eletkvenIqdiLn 66 
                              ++++ ++nI+  L+
  PHY93_09070|PHY93_09070 365 AVKSDLSNISAALS 378
                              44556677777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (485 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       728  (0.0406046); expected 358.6 (0.02)
Passed bias filter:                      495  (0.0276089); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.54u 0.21s 00:00:00.75 Elapsed: 00:00:00.38
# Mc/sec: 3855.03
//
Query:       PHY93_09075|PHY93_09075  [L=338]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.5e-11   43.4   9.8    3.5e-11   43.4   9.8    3.1  2  Flagellin_N      Bacterial flagellin N-terminal helical regio
    0.00088   19.6   2.5    0.00088   19.6   2.5    3.2  4  Flagellin_C      Bacterial flagellin C-terminal helical regio
  ------ inclusion threshold ------
      0.035   13.9   0.6      0.035   13.9   0.6    2.2  2  CdiI             CDI immunity protein
        9.3    6.7   8.4       0.73   10.3   0.1    3.2  4  Snapin_Pallidin  Snapin/Pallidin


Domain annotation for each model (and alignments):
>> Flagellin_N  Bacterial flagellin N-terminal helical region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.4   9.8   7.8e-15   3.5e-11       1     139 []       4     141 ..       4     141 .. 0.98
   2 ?   -0.2   4.0      0.22   9.7e+02      67     120 ..     261     313 ..     200     323 .. 0.62

  Alignments for each domain:
  == domain 1  score: 43.4 bits;  conditional E-value: 7.8e-15
                              --SS-STTHHHHHHHHHHHHHHHHHHHHTTSBTTSSTTS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
              Flagellin_N   1 istnalalaarsnlnknqaelqkaqeelstGlridsalddaaglaisvslrsqiaglsqlvrnnslgisrlqtaqgalselsdilq 86 
                              +s n+++ ++++ ln+++a++++ q + st + i++++d++ +   +  l+s +++  q+ +n+ ++   l ++++ l+el+d l+
  PHY93_09075|PHY93_09075   4 VSENSSTASLKYALNRTKAKMEDLQLKGSTLKTISKPSDNPVSNVEAMALTSSTNDNIQYLKNSDFALLNLNVTEKSLEELTDLLT 89 
                              799*********************************************************************************** PP

                              HHHHHHHHHT-TTTS-SHHHHHHHHHHHHHHHHHHHHHH-EETTEE-SSGGG- CS
              Flagellin_N  87 rlkelavaasndsnsdedrqslqaelqqLtdelnrianttsfNGekLlagtnt 139
                              + ke a+a+s+d  + ++r+ +++e+qqL ++   i+n+ ++  +++++gtnt
  PHY93_09075|PHY93_09075  90 KAKEIAIAQSSDFFNADVRKNVANEVQQLYNQSLAISNK-KVGLKNIFSGTNT 141
                              ********************************9999987.89999*****997 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.22
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-TTTS-SHHHHHHHHHHHHHHHHH CS
              Flagellin_N  67 gisrlqtaqgalselsdilqrlkelavaasndsnsdedrqslqaelqqLtdeln 120
                               isrl t ++++ ++++ +++ k+ +  ++ d + + +++ l+a++++L + +n
  PHY93_09075|PHY93_09075 261 SISRLITLRTRIGSITNSVETSKTTLESENIDHT-SRKSSLLDADVAELFSDIN 313
                              4555556666666666666554443333333333.3336666677777777666 PP

>> Flagellin_C  Bacterial flagellin C-terminal helical region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.4   0.2      0.33   1.5e+03      35      59 ..      53      77 ..      18      94 .. 0.71
   2 ?    0.4   0.3      0.19   8.7e+02      25      57 ..      81     113 ..      73     132 .. 0.57
   3 ?   -2.3   0.0       1.4   6.1e+03      63      63 ..     232     232 ..     186     251 .. 0.61
   4 !   19.6   2.5     2e-07   0.00088       2      85 ..     256     337 ..     255     338 .] 0.88

  Alignments for each domain:
  == domain 1  score: -0.4 bits;  conditional E-value: 0.33
                             HHCHHHHHHCHHCCHHHHHHHHHHH CS
              Flagellin_C 35 qsenlkaaesrledvDpaeestrvt 59
                              ++ ++ +++ l++ D+a    +vt
  PHY93_09075|PHY93_09075 53 LTSSTNDNIQYLKNSDFALLNLNVT 77
                             4567777888888888876666665 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.19
                              HHHHHHHHHHHHCHHHHHHCHHCCHHHHHHHHH CS
              Flagellin_C  25 lesaitnlkaqsenlkaaesrledvDpaeestr 57 
                              le+ ++ l++++e+  a+ s+  ++D+ + +++
  PHY93_09075|PHY93_09075  81 LEELTDLLTKAKEIAIAQSSDFFNADVRKNVAN 113
                              455555566666666666666666666555443 PP

  == domain 3  score: -2.3 bits;  conditional E-value: 1.4
                              H CS
              Flagellin_C  63 i 63 
                              i
  PHY93_09075|PHY93_09075 232 I 232
                              1 PP

  == domain 4  score: 19.6 bits;  conditional E-value: 2e-07
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHCHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHCTCCHHHHHHH CS
              Flagellin_C   2 divdeaitdldkvrselGavqnRlesaitnlkaqsenlkaaesrledvDpaeestrvtklqiliqasyallaqanqlpqsllnl 85 
                              ++ d+ i+ l + r+ +G++ n +e + t l+      ++++s+l d+D+ae  + ++k q  + + y+ +  + ++  +l+++
  PHY93_09075|PHY93_09075 256 EKFDTSISRLITLRTRIGSITNSVETSKTTLESENIDHTSRKSSLLDADVAELFSDINKQQAVLKTTYQSTQGVMNQ--TLMDF 337
                              5678999*********************************************************9999877554333..66666 PP

>> CdiI  CDI immunity protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.6   7.7e-06     0.035      28      97 ..      66     134 ..      46     152 .. 0.81
   2 ?   -0.2   0.1      0.17   7.8e+02      51      96 ..     285     331 ..     230     335 .. 0.70

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 7.7e-06
                              TS--EEE-TT--HHHHHHHHHHHHHT--B-SHHHH.HHH-HHHHHHHHHHHHHHHHHHHT-S-HHHHHTT CS
                     CdiI  28 kqslklLspdvsdselGkairkaLsksreiepedsddifdkekvkerykeeekkimeeygYkskkalfkk 97 
                              + +  lL+ +v++++l +++ + L k +ei   +s d+f+ ++ k+ ++e ++   +++   +kk  +k+
  PHY93_09075|PHY93_09075  66 NSDFALLNLNVTEKSL-EELTDLLTKAKEIAIAQSSDFFNADVRKNVANEVQQLYNQSLAISNKKVGLKN 134
                              456789**********.79************99999****888888888877777888888888765555 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.17
                              HHT--B-.SHHHH.HHH-HHHHHHHHHHHHHHHHHHHT-S-HHHHHT CS
                     CdiI  51 Lsksrei.epedsddifdkekvkerykeeekkimeeygYkskkalfk 96 
                                +s++i +   +  ++d ++ + +   ++++ + +  Y+s + ++ 
  PHY93_09075|PHY93_09075 285 TLESENIdHTSRKSSLLDADVAELFSDINKQQAVLKTTYQSTQGVMN 331
                              44677775333444788888888888888888888888888776665 PP

>> Snapin_Pallidin  Snapin/Pallidin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0       1.1   5.1e+03      15      26 ..      17      28 ..      10      36 .. 0.50
   2 ?   -0.3   0.2      0.33   1.5e+03      35      79 ..      80     122 ..      59     131 .. 0.68
   3 ?   10.3   0.1   0.00016      0.73      34      84 ..     234     284 ..     227     288 .. 0.88
   4 ?   -2.0   0.1       1.1   5.1e+03      23      37 ..     310     324 ..     295     334 .. 0.57

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 1.1
          Snapin_Pallidin 15 ldeldeklkelr 26
                             l+++++k ++l+
  PHY93_09075|PHY93_09075 17 LNRTKAKMEDLQ 28
                             444444444443 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.33
          Snapin_Pallidin  35 qldrlnekLkeleeaqeaevlpdlkeyakKLvnikkrmsslnerl 79 
                              +l++l++ L++++e++ a++  +++  ++K  n+ +++++l +++
  PHY93_09075|PHY93_09075  80 SLEELTDLLTKAKEIAIAQSSDFFNADVRK--NVANEVQQLYNQS 122
                              566666666666666664445555555554..6666666666665 PP

  == domain 3  score: 10.3 bits;  conditional E-value: 0.00016
          Snapin_Pallidin  34 eqldrlnekLkeleeaqe.aevlpdlkeyakKLvnikkrmsslnerlqklkk 84 
                              +ql+ l+++L+ +++ q  + +l+++++ + +L++++ r+ s+ +++++ k 
  PHY93_09075|PHY93_09075 234 SQLQALTSALE-NNDPQMiQGLLEKFDTSISRLITLRTRIGSITNSVETSKT 284
                              7999******7.888888899************************9998875 PP

  == domain 4  score: -2.0 bits;  conditional E-value: 1.1
          Snapin_Pallidin  23 kelrqsQeeLleqld 37 
                              +++ ++Q  L+ + +
  PHY93_09075|PHY93_09075 310 SDINKQQAVLKTTYQ 324
                              344444444444433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (338 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1279  (0.0713369); expected 358.6 (0.02)
Passed bias filter:                      577  (0.0321825); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.55u 0.20s 00:00:00.75 Elapsed: 00:00:00.38
# Mc/sec: 2689.51
//
Query:       PHY93_09080|PHY93_09080  [L=74]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.9e-25   88.6   1.7    2.2e-25   88.3   1.7    1.1  1  CsrA      Global regulator protein family


Domain annotation for each model (and alignments):
>> CsrA  Global regulator protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.3   1.7   1.2e-29   2.2e-25       1      53 []       1      53 [.       1      53 [. 0.99

  Alignments for each domain:
  == domain 1  score: 88.3 bits;  conditional E-value: 1.2e-29
                             -EEEEEETT-EEEETTTEEEEEEEEETTEEEEEEE--TTS-EEEHHHHHHHTT CS
                     CsrA  1 MLvLtRkkgEsIvIgddIeitvlevegnqvrlgIeAPkevkIlReEiyeeiqe 53
                             MLvLtRk gEsI I+d I+i+v++++g+qvrlgI+AP e+kI+ReE+y++iq+
  PHY93_09080|PHY93_09080  1 MLVLTRKLGESIAIDDHIKIVVVQIKGKQVRLGIKAPPETKIHREEVYKAIQD 53
                             **************************************************985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (74 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       722  (0.04027); expected 358.6 (0.02)
Passed bias filter:                      395  (0.0220313); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.37u 0.23s 00:00:00.60 Elapsed: 00:00:00.37
# Mc/sec: 594.66
//
Query:       PHY93_16655|PHY93_16655  [L=615]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0085   16.6   0.1     0.0085   16.6   0.1    2.0  2  Imm42     Immunity protein 42
  ------ inclusion threshold ------
      0.029   13.6   0.0      0.062   12.4   0.0    1.5  1  LCAT      Lecithin:cholesterol acyltransferase


Domain annotation for each model (and alignments):
>> Imm42  Immunity protein 42
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.1   9.5e-07    0.0085      21      98 ..      20     101 ..      11     123 .. 0.77
   2 ?   -2.0   0.5       0.5   4.5e+03      54     122 ..     364     433 ..     321     440 .. 0.59

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 9.5e-07
                    Imm42  21 dsawknGlfvfcIdgeiypd...ykltttLrsevnslkdnksalinkkidkelfnldakeafkllvda..egaekgddeddle 98 
                               s+ +nGl v++I+g  +p+    k+++t   ++n+l +  s + nk++d el+   +  + + ++++  + a +++++++le
  PHY93_16655|PHY93_16655  20 LSCSANGLNVLYINGIYVPKmedAKKSATTIKNINDLIH-ASLDQNKVFDVELVHNASRSFLNDMEETsaQLAADHSGKSRLE 101
                              67889***************988666777777*******.****************999999999988544444555554444 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.5
                    Imm42  54 lkdnksalinkkidkelfnldakeafkllvdaegaekgddeddleedeeesyrydls.peeifDdgfyiF 122
                              l+d+++++ +   +k   n d+ ++  ++ +a ++  +++  d+++ ++ +  + ++  ++   d+++iF
  PHY93_16655|PHY93_16655 364 LVDHFKDNMREIASKLQDNCDSPDIDITVPGALRNAITPTTFDYQSATNYYNNISITaKDKNDPDNSTIF 433
                              5555555555555555555566666666666655556666666666555555555553344444556666 PP

>> LCAT  Lecithin:cholesterol acyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0     7e-06     0.062     106     142 ..     184     220 ..     181     227 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 7e-06
                     LCAT 106 skLkelieealklsgkkvvliaHSmGnllvlyflkwv 142
                              ++Lk +i ea++ +++k +++aHS Gn+++   +k +
  PHY93_16655|PHY93_16655 184 EQLKIKIKEAYHGGANKLIVVAHSQGNEVLNSAIKDL 220
                              69**************************998777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (615 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       664  (0.037035); expected 358.6 (0.02)
Passed bias filter:                      493  (0.0274974); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.59u 0.23s 00:00:00.82 Elapsed: 00:00:00.39
# Mc/sec: 4743.18
//
Query:       PHY93_09085|PHY93_09085  [L=187]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.5e-35  121.0   0.8    4.1e-35  120.3   0.8    1.3  1  FliW      FliW protein


Domain annotation for each model (and alignments):
>> FliW  FliW protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  120.3   0.8   2.3e-39   4.1e-35       1     119 [.      19     137 ..      19     138 .. 0.98

  Alignments for each domain:
  == domain 1  score: 120.3 bits;  conditional E-value: 2.3e-39
                              EE-TT-BTTBTT--EEEEES.STTS-EEEEEESS-TT-EEEEE-GGGT-TT------HHHHHHTT--SGGGEEEEEEEE-.-SSGG CS
                     FliW   1 itfpkgilGFeelkrfvlleeeeespflwLqsleeeelafvvidPflffpdYelelsdeelelleleseedvlvlvivtvpeddek 86 
                              i+f +g+lGFe+lk+f +++  +++ +lwLqs++++ +af++i+P+ f p+Y ++l   el++l+le+ ++++v++++t+p++ ++
  PHY93_09085|PHY93_09085  19 IEFTEGLLGFENLKKFFIVDPGDQTLILWLQSIDDAGTAFPIIEPKIFQPNYMVKLLPVELNSLSLENLQNASVYTVLTIPQNVTE 104
                              79*****************98999************************************************************** PP

                              -EE-SSS-EEEETTTTEEEE---SS----TTEE CS
                     FliW  87 mtvNlkAPivinvkkrlgvQviledekyelkhp 119
                              m++NlkAPi+in+k++ ++Q++l+d+k e++++
  PHY93_09085|PHY93_09085 105 MSANLKAPIIINNKTKNARQIVLQDSKLEVRYK 137
                              ******************************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (187 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       673  (0.037537); expected 358.6 (0.02)
Passed bias filter:                      345  (0.0192426); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.25s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 1440.03
//
Query:       PHY93_09090|PHY93_09090  [L=244]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.3e-20   70.1  10.5     0.0001   22.1   0.0    6.1  6  TPR_2            Tetratricopeptide repeat
    4.9e-18   65.4   0.8    1.3e-05   25.6   0.0    4.4  4  TPR_19           Tetratricopeptide repeat
    3.8e-16   57.9   8.4     0.0001   22.2   0.0    6.4  7  TPR_8            Tetratricopeptide repeat
    3.9e-15   54.9   9.6    1.1e-06   28.1   0.0    5.3  6  TPR_1            Tetratricopeptide repeat
      6e-14   52.4   0.1      0.015   15.9   0.0    4.3  4  TPR_16           Tetratricopeptide repeat
    8.6e-14   50.9  10.7    4.2e-06   26.3   2.1    4.9  5  TPR_11           TPR repeat
      4e-13   48.7   3.6     0.0083   16.4   0.0    6.0  6  TPR_17           Tetratricopeptide repeat
    1.5e-11   44.1   0.2       0.02   15.7   0.0    4.9  5  TPR_14           Tetratricopeptide repeat
    4.4e-10   39.6   2.8    6.4e-05   23.1   0.1    2.6  2  ANAPC3           Anaphase-promoting complex, cyclosome, subun
    1.5e-09   38.0   2.8     0.0072   16.6   0.0    5.1  5  TPR_12           Tetratricopeptide repeat
    1.2e-08   35.0   0.6        4.5    8.1   0.0    6.0  6  TPR_6            Tetratricopeptide repeat
    1.4e-08   35.0   0.8       0.22   11.9   0.0    4.3  4  TPR_20           Tetratricopeptide repeat
    0.00038   19.8   0.0     0.0012   18.2   0.0    1.8  2  TPR_15           Tetratricopeptide repeat
     0.0013   19.2   0.4      0.049   14.1   0.0    2.7  3  Alkyl_sulf_dimr  Alkyl sulfatase dimerisation
     0.0015   18.3   2.0     0.0094   15.7   1.4    2.2  2  TPR_21           Tetratricopeptide repeat-like domain
     0.0026   16.5   0.0       0.76    8.4   0.0    2.1  2  PknG_TPR         Protein kinase G tetratricopeptide repeat
     0.0027   16.7   4.7        0.8    8.5   0.0    2.1  2  NARP1            NMDA receptor-regulated protein 1
     0.0034   17.3   0.8        8.7    6.6   0.0    4.3  4  TPR_7            Tetratricopeptide repeat
     0.0035   17.5   0.0        6.3    7.0   0.0    2.9  3  TPR_9            Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.048   13.8   0.1       0.12   12.5   0.1    1.7  1  V-ATPase_H_C     V-ATPase subunit H
      0.051   13.6   0.0        1.1    9.3   0.0    2.2  2  ASRT             Anabaena sensory rhodopsin transducer
      0.092   12.4   0.0        2.9    7.6   0.0    2.3  2  HrpB1_HrpK       Bacterial type III secretion protein (HrpB1_
       0.95    9.4   3.8        4.1    7.4   0.0    3.5  4  TPR_10           Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   0.1      0.66   5.1e+02      18      26 ..      11      19 ..       6      21 .. 0.85
   2 !   22.1   0.0   1.3e-07    0.0001       2      34 .]      41      73 ..      40      73 .. 0.95
   3 !    7.7   0.0    0.0055       4.3      14      27 ..      87     100 ..      75     104 .. 0.85
   4 !   20.4   1.0   4.7e-07   0.00036       4      34 .]     127     157 ..     124     157 .. 0.93
   5 ?    6.0   0.2     0.019        14       3      29 ..     160     186 ..     158     191 .. 0.82
   6 !   13.9   0.0   5.8e-05     0.045       4      32 ..     195     223 ..     192     225 .. 0.91

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.66
                    TPR_2 18 eeAleafek 26
                             + A+e+fek
  PHY93_09090|PHY93_09090 11 KSARECFEK 19
                             67******9 PP

  == domain 2  score: 22.1 bits;  conditional E-value: 1.3e-07
                    TPR_2  2 ealynlGlayyklgdyeeAleafekAleldPnn 34
                             +a + l+++   +g+  +A++af+k+l l+P++
  PHY93_09090|PHY93_09090 41 DAFFLLANIFHINGEIGKAIKAFNKVLTLNPEH 73
                             689****************************86 PP

  == domain 3  score: 7.7 bits;  conditional E-value: 0.0055
                    TPR_2  14 lgdyeeAleafekA 27 
                               g+ye+A++ fe A
  PHY93_09090|PHY93_09090  87 IGQYEDARKVFETA 100
                              59**********98 PP

  == domain 4  score: 20.4 bits;  conditional E-value: 4.7e-07
                    TPR_2   4 lynlGlayyklgdyeeAleafekAleldPnn 34 
                              +y+++++y+  ++y+eAl  ++k+++ld +n
  PHY93_09090|PHY93_09090 127 HYEIADLYLSYNRYDEALFEYNKVIALDSEN 157
                              9**************************9876 PP

  == domain 5  score: 6.0 bits;  conditional E-value: 0.019
                    TPR_2   3 alynlGlayyklgdyeeAleafekAle 29 
                              a   ++++y+k+g  ++A+e ++    
  PHY93_09090|PHY93_09090 160 AKIKIAKVYAKKGFIAKAIEELRTLKN 186
                              566799**************9987655 PP

  == domain 6  score: 13.9 bits;  conditional E-value: 5.8e-05
                    TPR_2   4 lynlGlayyklgdyeeAleafekAleldP 32 
                                +lG ++y +g+  eA   +ek+l  dP
  PHY93_09090|PHY93_09090 195 RIALGVLHYGNGNILEAQTEWEKVLLKDP 223
                              578***********************999 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.3   0.0      0.15   1.2e+02      10      34 ..      25      49 ..      17      51 .. 0.86
   2 !   25.6   0.0   1.6e-08   1.3e-05       4      53 ..      53     102 ..      50     108 .. 0.93
   3 !   25.1   0.7   2.3e-08   1.8e-05       5      57 ..     138     190 ..     134     194 .. 0.94
   4 !    9.4   0.0    0.0019       1.5      20      61 ..     187     228 ..     185     232 .. 0.92

  Alignments for each domain:
  == domain 1  score: 3.3 bits;  conditional E-value: 0.15
                   TPR_19 10 AlalleqalqedpknaearllLAea 34
                              + +l ++++ d +n +a  lLA++
  PHY93_09090|PHY93_09090 25 TQVILNEIIESDDHNVDAFFLLANI 49
                             56789999999***********986 PP

  == domain 2  score: 25.6 bits;  conditional E-value: 1.6e-08
                   TPR_19   4 egdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpe 53 
                              +g    A++++ ++l+ +p++ +a++ L  ++   gq+++A+++ +++ e
  PHY93_09090|PHY93_09090  53 NGEIGKAIKAFNKVLTLNPEHTDAAISLSVLYNDIGQYEDARKVFETANE 102
                              78999***************************************998866 PP

  == domain 3  score: 25.1 bits;  conditional E-value: 2.3e-08
                   TPR_19   5 gdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeedpd 57 
                              ++y+eAl  + ++++ d +n+ea++  A+++ + g +++A++ L +l +e+p 
  PHY93_09090|PHY93_09090 138 NRYDEALFEYNKVIALDSENLEAKIKIAKVYAKKGFIAKAIEELRTLKNEEPA 190
                              79************************************************997 PP

  == domain 4  score: 9.4 bits;  conditional E-value: 0.0019
                   TPR_19  20 edpknaearllLAeallalgqldeAealLdalpeedpddary 61 
                              e+p +a ar++L  +++ +g++ eA+   ++++++dp +a++
  PHY93_09090|PHY93_09090 187 EEPAYAPARIALGVLHYGNGNILEAQTEWEKVLLKDPFHAEA 228
                              68*********************************9988776 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.9   0.0      0.88   6.9e+02      17      26 ..      10      19 ..       3      21 .. 0.83
   2 !   22.2   0.0   1.3e-07    0.0001       2      34 .]      41      73 ..      40      73 .. 0.95
   3 !   11.5   0.0   0.00035      0.27       6      28 ..      79     101 ..      74     103 .. 0.87
   4 !   14.8   0.8   3.1e-05     0.024       5      34 .]     128     157 ..     127     157 .. 0.93
   5 ?    4.6   0.3     0.059        46       2      26 ..     159     183 ..     158     191 .. 0.84
   6 ?    1.9   0.0      0.44   3.5e+02       1      28 [.     192     219 ..     192     225 .. 0.84
   7 ?   -1.9   0.0       7.2   5.6e+03       1      11 [.     228     238 ..     228     242 .. 0.73

  Alignments for each domain:
  == domain 1  score: 0.9 bits;  conditional E-value: 0.88
                             HHHHHHHHHH CS
                    TPR_8 17 yeeAkeyyek 26
                             +++A e++ek
  PHY93_09090|PHY93_09090 10 LKSARECFEK 19
                             689******9 PP

  == domain 2  score: 22.2 bits;  conditional E-value: 1.3e-07
                             CHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH. CS
                    TPR_8  2 eayynlgsiylklgdyeeAkeyyekaleldpdn 34
                             +a ++l++i +  g++ +A+++++k+l+l+p++
  PHY93_09090|PHY93_09090 41 DAFFLLANIFHINGEIGKAIKAFNKVLTLNPEH 73
                             789****************************86 PP

  == domain 3  score: 11.5 bits;  conditional E-value: 0.00035
                              HHHHHHHHTT-HHHHHHHHHHHH CS
                    TPR_8   6 nlgsiylklgdyeeAkeyyekal 28 
                               l+ +y + g+ye A +++e a 
  PHY93_09090|PHY93_09090  79 SLSVLYNDIGQYEDARKVFETAN 101
                              6899****************985 PP

  == domain 4  score: 14.8 bits;  conditional E-value: 3.1e-05
                              HHHHHHHHHTT-HHHHHHHHHHHHHHHHH. CS
                    TPR_8   5 ynlgsiylklgdyeeAkeyyekaleldpdn 34 
                              y ++++yl+ ++y+eA   y+k++ ld +n
  PHY93_09090|PHY93_09090 128 YEIADLYLSYNRYDEALFEYNKVIALDSEN 157
                              89************************9875 PP

  == domain 5  score: 4.6 bits;  conditional E-value: 0.059
                              CHHHHHHHHHHHTT-HHHHHHHHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeAkeyyek 26 
                              ea  +++++y k+g + +A+e ++ 
  PHY93_09090|PHY93_09090 159 EAKIKIAKVYAKKGFIAKAIEELRT 183
                              677899**************99886 PP

  == domain 6  score: 1.9 bits;  conditional E-value: 0.44
                              CCHHHHHHHHHHHTT-HHHHHHHHHHHH CS
                    TPR_8   1 aeayynlgsiylklgdyeeAkeyyekal 28 
                              a+a   lg ++   g++ eA+   ek+l
  PHY93_09090|PHY93_09090 192 APARIALGVLHYGNGNILEAQTEWEKVL 219
                              578889*************998777776 PP

  == domain 7  score: -1.9 bits;  conditional E-value: 7.2
                              CCHHHHHHHHH CS
                    TPR_8   1 aeayynlgsiy 11 
                              a++y+nl+++ 
  PHY93_09090|PHY93_09090 228 ASMYLNLSRTA 238
                              57899998876 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0       3.5   2.7e+03      19      26 ..      12      19 ..       9      19 .. 0.84
   2 !   28.1   0.0   1.5e-09   1.1e-06       2      34 .]      41      73 ..      40      73 .. 0.96
   3 ?    5.6   0.0      0.02        15      10      27 ..      83     100 ..      82     100 .. 0.90
   4 !   19.5   1.3   7.9e-07   0.00061       4      34 .]     127     157 ..     124     157 .. 0.94
   5 ?   -1.9   0.1       4.5   3.5e+03       7      21 ..     164     178 ..     159     179 .. 0.66
   6 ?    2.9   0.0      0.14   1.1e+02       3      32 ..     194     223 ..     192     225 .. 0.83

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 3.5
                             HHHHHHHH CS
                    TPR_1 19 eAleyyek 26
                              A e++ek
  PHY93_09090|PHY93_09090 12 SARECFEK 19
                             699***98 PP

  == domain 2  score: 28.1 bits;  conditional E-value: 1.5e-09
                             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTH CS
                    TPR_1  2 kalynlGnayfklgkydeAleyyekALelnPnn 34
                             +a++ l+n+++ +g+  +A+++++k+L+lnP++
  PHY93_09090|PHY93_09090 41 DAFFLLANIFHINGEIGKAIKAFNKVLTLNPEH 73
                             899****************************86 PP

  == domain 3  score: 5.6 bits;  conditional E-value: 0.02
                              HHHHTT-HHHHHHHHHHH CS
                    TPR_1  10 ayfklgkydeAleyyekA 27 
                              +y   g+y++A + +e A
  PHY93_09090|PHY93_09090  83 LYNDIGQYEDARKVFETA 100
                              79999********99987 PP

  == domain 4  score: 19.5 bits;  conditional E-value: 7.9e-07
                              HHHHHHHHHHTT-HHHHHHHHHHHHHHSTTH CS
                    TPR_1   4 lynlGnayfklgkydeAleyyekALelnPnn 34 
                              +y ++ +y++ ++ydeAl  y+k++ l+ +n
  PHY93_09090|PHY93_09090 127 HYEIADLYLSYNRYDEALFEYNKVIALDSEN 157
                              899*************************876 PP

  == domain 5  score: -1.9 bits;  conditional E-value: 4.5
                              HHHHHHHTT-HHHHH CS
                    TPR_1   7 lGnayfklgkydeAl 21 
                              ++ +y k+g   +A+
  PHY93_09090|PHY93_09090 164 IAKVYAKKGFIAKAI 178
                              677788877555665 PP

  == domain 6  score: 2.9 bits;  conditional E-value: 0.14
                              HHHHHHHHHHHTT-HHHHHHHHHHHHHHST CS
                    TPR_1   3 alynlGnayfklgkydeAleyyekALelnP 32 
                              a   lG++++ +g+  eA    ek+L  +P
  PHY93_09090|PHY93_09090 194 ARIALGVLHYGNGNILEAQTEWEKVLLKDP 223
                              66679*********9999988888888877 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.3   0.0   0.00027      0.21      25      65 ..      34      71 ..      29      76 .. 0.86
   2 ?    5.6   0.0     0.032        25      11      23 ..      88     100 ..      83     106 .. 0.87
   3 !   12.2   0.2   0.00029      0.23       1      60 [.     128     184 ..     128     194 .. 0.90
   4 !   15.9   0.0     2e-05     0.015       2      45 ..     197     237 ..     196     241 .. 0.92

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00027
                   TPR_16 25 krdpssPdaaeAllllgdaalrqgrlaeAaalyraalraap 65
                             ++d     +++A +ll++++  +g+  +A+ ++++ l+  p
  PHY93_09090|PHY93_09090 34 ESD---DHNVDAFFLLANIFHINGEIGKAIKAFNKVLTLNP 71
                             555...7799**********************999998777 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.032
                   TPR_16  11 gdyddAaaaleaa 23 
                              g+y+dA++++e+a
  PHY93_09090|PHY93_09090  88 GQYEDARKVFETA 100
                              9**********98 PP

  == domain 3  score: 12.2 bits;  conditional E-value: 0.00029
                   TPR_16   1 lalaraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraa 60 
                              ++ a+++l  ++yd+A+  ++ ++++d   +++ eA    + +++++g  a+A++ +r +
  PHY93_09090|PHY93_09090 128 YEIADLYLSYNRYDEALFEYNKVIALD---SENLEAKIKIAKVYAKKGFIAKAIEELRTL 184
                              678999*********************...************************888876 PP

  == domain 4  score: 15.9 bits;  conditional E-value: 2e-05
                   TPR_16   2 alaraalragdyddAaaaleaalkrdpssPdaaeAllllgdaal 45 
                              al+ +++ +g+  +A+  +e +l +d   P++aeA+++l++++ 
  PHY93_09090|PHY93_09090 197 ALGVLHYGNGNILEAQTEWEKVLLKD---PFHAEASMYLNLSRT 237
                              78999*********************...**********98865 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.0      0.14   1.1e+02      25      42 .]      37      54 ..      33      54 .. 0.82
   2 !   14.9   0.0     2e-05     0.015       2      26 ..      48      72 ..      47      77 .. 0.92
   3 ?    5.8   0.1     0.014        11       4      20 ..      84     100 ..      83     102 .. 0.90
   4 !   26.3   2.1   5.4e-09   4.2e-06       2      42 .]     132     172 ..     131     172 .. 0.97
   5 !   11.2   0.7   0.00028      0.22       2      42 .]     166     206 ..     165     206 .. 0.96

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.14
                   TPR_11 25 PdnaeayynLGlayykqG 42
                               n++a++ L+++++ +G
  PHY93_09090|PHY93_09090 37 DHNVDAFFLLANIFHING 54
                             569**********99665 PP

  == domain 2  score: 14.9 bits;  conditional E-value: 2e-05
                   TPR_11  2 dayyeqGkyeeAieaYkkAlkldPd 26
                             ++++  G++ +Ai+a++k l l+P+
  PHY93_09090|PHY93_09090 48 NIFHINGEIGKAIKAFNKVLTLNPE 72
                             99**********************7 PP

  == domain 3  score: 5.8 bits;  conditional E-value: 0.014
                   TPR_11   4 yyeqGkyeeAieaYkkA 20 
                              y + G+ye+A +++++A
  PHY93_09090|PHY93_09090  84 YNDIGQYEDARKVFETA 100
                              8899*********9998 PP

  == domain 4  score: 26.3 bits;  conditional E-value: 5.4e-09
                   TPR_11   2 dayyeqGkyeeAieaYkkAlkldPdnaeayynLGlayykqG 42 
                              d+y + ++y+eA+ +Y+k ++ld++n ea  +++++y+k+G
  PHY93_09090|PHY93_09090 132 DLYLSYNRYDEALFEYNKVIALDSENLEAKIKIAKVYAKKG 172
                              889999*********************************98 PP

  == domain 5  score: 11.2 bits;  conditional E-value: 0.00028
                   TPR_11   2 dayyeqGkyeeAieaYkkAlkldPdnaeayynLGlayykqG 42 
                              ++y ++G + +Aie++++  +  P +a a  +LG+++y +G
  PHY93_09090|PHY93_09090 166 KVYAKKGFIAKAIEELRTLKNEEPAYAPARIALGVLHYGNG 206
                              689***********************************998 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.0    0.0001     0.082       4      34 .]      31      61 ..      28      61 .. 0.89
   2 !   16.4   0.0   1.1e-05    0.0083       2      34 .]      63      95 ..      62      95 .. 0.96
   3 ?    2.2   0.1      0.36   2.8e+02      16      33 ..     127     144 ..     119     145 .. 0.88
   4 ?    5.5   0.0     0.033        26       2      27 ..     147     172 ..     146     179 .. 0.89
   5 ?    5.6   0.0      0.03        23       6      33 ..     184     212 ..     181     213 .. 0.84
   6 ?    0.6   0.0       1.2   9.5e+02       3      15 ..     216     228 ..     214     237 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 0.0001
                   TPR_17  4 kaleldPnnadaynnLAelllknGdlmtArq 34
                             + +e d  n+da+++LA++++ nG+ ++A++
  PHY93_09090|PHY93_09090 31 EIIESDDHNVDAFFLLANIFHINGEIGKAIK 61
                             67899999******************99985 PP

  == domain 2  score: 16.4 bits;  conditional E-value: 1.1e-05
                   TPR_17  2 ylkaleldPnnadaynnLAelllknGdlmtArq 34
                             + k+l l+P + da   L +l+  +G++++Ar+
  PHY93_09090|PHY93_09090 63 FNKVLTLNPEHTDAAISLSVLYNDIGQYEDARK 95
                             899****************************96 PP

  == domain 3  score: 2.2 bits;  conditional E-value: 0.36
                   TPR_17  16 ynnLAelllknGdlmtAr 33 
                              +++ A l+l+ +++++A+
  PHY93_09090|PHY93_09090 127 HYEIADLYLSYNRYDEAL 144
                              7999************96 PP

  == domain 4  score: 5.5 bits;  conditional E-value: 0.033
                   TPR_17   2 ylkaleldPnnadaynnLAelllknG 27 
                              y k+++ld  n +a    A++++k+G
  PHY93_09090|PHY93_09090 147 YNKVIALDSENLEAKIKIAKVYAKKG 172
                              99*******************99988 PP

  == domain 5  score: 5.6 bits;  conditional E-value: 0.03
                   TPR_17   6 lel.dPnnadaynnLAelllknGdlmtAr 33 
                              l++ +P +a+a   L++l++ nG+  +A+
  PHY93_09090|PHY93_09090 184 LKNeEPAYAPARIALGVLHYGNGNILEAQ 212
                              6663699****************988886 PP

  == domain 6  score: 0.6 bits;  conditional E-value: 1.2
                   TPR_17   3 lkaleldPnnada 15 
                              +k+l +dP +a+a
  PHY93_09090|PHY93_09090 216 EKVLLKDPFHAEA 228
                              899*****99887 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   2.6e-05      0.02       2      41 ..      41      80 ..      40      83 .. 0.89
   2 ?    4.5   0.0     0.097        75      11      27 ..      84     100 ..      79     106 .. 0.81
   3 !   11.2   0.0   0.00068      0.53       5      43 ..     128     166 ..     126     167 .. 0.91
   4 !    9.3   0.1    0.0028       2.2       2      43 ..     159     200 ..     158     201 .. 0.90
   5 ?    2.0   0.0      0.63   4.9e+02       3      39 ..     194     230 ..     192     236 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 2.6e-05
                   TPR_14  2 eallalaeallalGdpdeAiallrralalaPddaeawlll 41
                             +a  +la ++  +G+  +Ai++++++l l+P++ +a + l
  PHY93_09090|PHY93_09090 41 DAFFLLANIFHINGEIGKAIKAFNKVLTLNPEHTDAAISL 80
                             68899***************************99887655 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.097
                   TPR_14  11 llalGdpdeAiallrra 27 
                              +   G++++A+++++ a
  PHY93_09090|PHY93_09090  84 YNDIGQYEDARKVFETA 100
                              5667**********988 PP

  == domain 3  score: 11.2 bits;  conditional E-value: 0.00068
                   TPR_14   5 lalaeallalGdpdeAiallrralalaPddaeawlllaq 43 
                              +++a+++l   ++deA+  +++++al+ +++ea +  a+
  PHY93_09090|PHY93_09090 128 YEIADLYLSYNRYDEALFEYNKVIALDSENLEAKIKIAK 166
                              7899****************************9987765 PP

  == domain 4  score: 9.3 bits;  conditional E-value: 0.0028
                   TPR_14   2 eallalaeallalGdpdeAiallrralalaPddaeawlllaq 43 
                              ea  ++a++++  G  ++Ai+ lr +    P+ a a+++l+ 
  PHY93_09090|PHY93_09090 159 EAKIKIAKVYAKKGFIAKAIEELRTLKNEEPAYAPARIALGV 200
                              567789********************8889*******99986 PP

  == domain 5  score: 2.0 bits;  conditional E-value: 0.63
                   TPR_14   3 allalaeallalGdpdeAiallrralalaPddaeawl 39 
                              a+ al+ +++ +G+  eA +  +++l ++P +aea +
  PHY93_09090|PHY93_09090 194 ARIALGVLHYGNGNILEAQTEWEKVLLKDPFHAEASM 230
                              67899999999***************99998887754 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.1   0.1   8.3e-08   6.4e-05       3      81 ..      20      99 ..       7     100 .. 0.90
   2 !   16.4   0.4     1e-05    0.0078       2      59 ..     137     190 ..     136     218 .. 0.83

  Alignments for each domain:
  == domain 1  score: 23.1 bits;  conditional E-value: 8.3e-08
                             T-HHHHHHHHHHHH.HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-HHHHHHHHHHHHHTT-HHHHHHHH-S CS
                   ANAPC3  3 nnyknAiflaerllaaetespedayllAlclylngqykrAyellrka.klnskslgcrylfAqcllkLkkyeeAiaaLek 81
                               yk+   +++ + +++ ++ ++ +llA  +  ng+  +A++ ++k   ln+++  +++ +   + ++++ye+A++++e 
  PHY93_09090|PHY93_09090 20 LEYKKTQVILNEIIESDDHNVDAFFLLANIFHINGEIGKAIKAFNKVlTLNPEHTDAAISLSVLYNDIGQYEDARKVFET 99
                             456666777777779999999********************************************************985 PP

  == domain 2  score: 16.4 bits;  conditional E-value: 1e-05
                              TT-HHHHHHHHHHHH.HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-HHHH CS
                   ANAPC3   2 qnnyknAiflaerllaaetespedayllAlclylngqykrAyellrka.klnskslgcr 59 
                               n+y++A+f ++++ a ++e++e+    A+++ + g   +A+e lr++ ++++     +
  PHY93_09090|PHY93_09090 137 YNRYDEALFEYNKVIALDSENLEAKIKIAKVYAKKGFIAKAIEELRTLkNEEP-----A 190
                              689********************************************944433.....3 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.6   0.0     0.006       4.7      39      74 ..      36      69 ..      28      72 .. 0.81
   2 !   16.6   0.0   9.3e-06    0.0072       8      71 ..      45     100 ..      40     106 .. 0.90
   3 !    9.3   0.2    0.0017       1.3      50      75 ..     129     154 ..     127     156 .. 0.90
   4 ?    5.0   0.1     0.039        30      21      65 ..     176     212 ..     158     219 .. 0.65
   5 ?    5.3   0.1     0.031        24       8      57 ..     197     240 ..     191     243 .. 0.81

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.006
                   TPR_12 39 pdhpltattlrnLgrlyralgryeeAlelleealai 74
                             +dh   + + + L+ +++  g+  +A+++++++l +
  PHY93_09090|PHY93_09090 36 DDH--NVDAFFLLANIFHINGEIGKAIKAFNKVLTL 69
                             566..6788899999999999999999999999976 PP

  == domain 2  score: 16.6 bits;  conditional E-value: 9.3e-06
                   TPR_12   8 nlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleea 71 
                               la++ +  g+  +A++ ++k+l +      p+h +   + + L+ ly   g+ye+A++ +e a
  PHY93_09090|PHY93_09090  45 LLANIFHINGEIGKAIKAFNKVLTLN-----PEHTD---AAISLSVLYNDIGQYEDARKVFETA 100
                              69********************9999.....99966...78899999*************9987 PP

  == domain 3  score: 9.3 bits;  conditional E-value: 0.0017
                   TPR_12  50 nLgrlyralgryeeAlelleealaia 75 
                               +++ly+  +ry+eAl  +++++a++
  PHY93_09090|PHY93_09090 129 EIADLYLSYNRYDEALFEYNKVIALD 154
                              689******************99986 PP

  == domain 4  score: 5.0 bits;  conditional E-value: 0.039
                   TPR_12  21 eAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAl 65 
                              +A+e l++           + p++a ++++Lg l++  g+  eA+
  PHY93_09090|PHY93_09090 176 KAIEELRTL-------K-NEEPAYAPARIALGVLHYGNGNILEAQ 212
                              444444443.......2.345778888888888888888877776 PP

  == domain 5  score: 5.3 bits;  conditional E-value: 0.031
                   TPR_12   8 nlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyra 57 
                               l+++++  g+  eA++  ek+l        p h ++a+ + nL+r+  +
  PHY93_09090|PHY93_09090 197 ALGVLHYGNGNILEAQTEWEKVLLKD-----PFH-AEASMYLNLSRTATE 240
                              59999999***********9997766.....888.888888888888765 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.0       0.6   4.7e+02       3      28 ..       9      34 ..       9      37 .. 0.80
   2 !    8.1   0.0    0.0058       4.5       1      32 [.      41      72 ..      41      73 .. 0.83
   3 ?    4.0   0.0      0.12        94       9      25 ..      83      99 ..      76     103 .. 0.80
   4 !    7.6   0.1    0.0086       6.7       4      28 ..     128     152 ..     127     155 .. 0.91
   5 ?    4.0   0.1      0.12        92       5      31 ..     163     189 ..     159     191 .. 0.86
   6 ?    1.3   0.0      0.83   6.5e+02       6      31 ..     198     223 ..     194     225 .. 0.86

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.6
                             HHHHH.HHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6  3 lykla.lsyrklgdtdkAlealerlik 28
                             l+k a ++++kl ++ k   +l+++i+
  PHY93_09090|PHY93_09090  9 LLKSArECFEKL-EYKKTQVILNEIIE 34
                             567776788889.99999999999887 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.0058
                             HHHHHHHHHHH.HHHHHHHHHHHHHHHHHH-TT CS
                    TPR_6  1 dAlyklalsyr.klgdtdkAlealerlikeYPd 32
                             dA+++la  +  ++ +  kA++a++++++  P+
  PHY93_09090|PHY93_09090 41 DAFFLLANIFHiNG-EIGKAIKAFNKVLTLNPE 72
                             68889997777466.99************9997 PP

  == domain 3  score: 4.0 bits;  conditional E-value: 0.12
                             HHHHHHHHHHHHHHHHH CS
                    TPR_6  9 syrklgdtdkAlealer 25
                             +y   g++++A++ +e 
  PHY93_09090|PHY93_09090 83 LYNDIGQYEDARKVFET 99
                             455578*********96 PP

  == domain 4  score: 7.6 bits;  conditional E-value: 0.0086
                              HHHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   4 yklalsyrklgdtdkAlealerlik 28 
                              y +a +y++ +++d+Al  ++++i 
  PHY93_09090|PHY93_09090 128 YEIADLYLSYNRYDEALFEYNKVIA 152
                              99*******77**********9995 PP

  == domain 5  score: 4.0 bits;  conditional E-value: 0.12
                              HHHHHHHHHHHHHHHHHHHHHHHHH-T CS
                    TPR_6   5 klalsyrklgdtdkAlealerlikeYP 31 
                              k+a+ y k g  +kA+e l+ l +e P
  PHY93_09090|PHY93_09090 163 KIAKVYAKKGFIAKAIEELRTLKNEEP 189
                              8999999988999*********99988 PP

  == domain 6  score: 1.3 bits;  conditional E-value: 0.83
                              HHHHHHHHHHHHHHHHHHHHHHHH-T CS
                    TPR_6   6 lalsyrklgdtdkAlealerlikeYP 31 
                              l+ +++  g+  +A + +e+++ + P
  PHY93_09090|PHY93_09090 198 LGVLHYGNGNILEAQTEWEKVLLKDP 223
                              789999988999********998777 PP

>> TPR_20  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.1   0.0    0.0089       6.9      12      49 ..      30      67 ..      23      70 .. 0.88
   2 !   11.9   0.0   0.00028      0.22       8      43 ..      60      95 ..      58     112 .. 0.84
   3 ?    2.8   0.1      0.19   1.4e+02      24      42 ..     126     144 ..     115     154 .. 0.86
   4 !   11.2   0.0   0.00045      0.35      15      48 ..     151     184 ..     145     199 .. 0.86

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.0089
                   TPR_20 12 eaalaanpddldarldlAlallaagryeeAleqLleil 49
                              + ++++  ++da + lA+  + +g+  +A++++ ++l
  PHY93_09090|PHY93_09090 30 NEIIESDDHNVDAFFLLANIFHINGEIGKAIKAFNKVL 67
                             5668999************************9887766 PP

  == domain 2  score: 11.9 bits;  conditional E-value: 0.00028
                   TPR_20  8 laeleaalaanpddldarldlAlallaagryeeAle 43
                             ++++ + l+ np+  da++ l+ +++  g+ye+A +
  PHY93_09090|PHY93_09090 60 IKAFNKVLTLNPEHTDAAISLSVLYNDIGQYEDARK 95
                             6778888999***********************965 PP

  == domain 3  score: 2.8 bits;  conditional E-value: 0.19
                   TPR_20  24 arldlAlallaagryeeAl 42 
                               +++ A+++l+ +ry+eAl
  PHY93_09090|PHY93_09090 126 KHYEIADLYLSYNRYDEAL 144
                              689***************8 PP

  == domain 4  score: 11.2 bits;  conditional E-value: 0.00045
                   TPR_20  15 laanpddldarldlAlallaagryeeAleqLlei 48 
                              +a + ++l+a+++ A++++++g  ++A+e+L ++
  PHY93_09090|PHY93_09090 151 IALDSENLEAKIKIAKVYAKKGFIAKAIEELRTL 184
                              677899************************9765 PP

>> TPR_15  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.0   1.5e-06    0.0012     109     211 ..       6     114 ..       3     182 .. 0.79
   2 ?    0.1   0.1      0.49   3.8e+02     156     186 ..     134     164 ..     111     201 .. 0.55

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 1.5e-06
                   TPR_15 109 sprlLssalellerakdydriaellksleeeeaaeqsaafllaraelyrqegqtdaAlrdyreAlalapdsselraallWlliDlg 194
                              + +lL+sa e  e++ +y++++ +l+++ e ++ + +a+flla  ++   +g+  +A++++ ++l+l+p+ +++   l  l++D g
  PHY93_09090|PHY93_09090   6 NEQLLKSARECFEKL-EYKKTQVILNEIIESDDHNVDAFFLLA--NIFHINGEIGKAIKAFNKVLTLNPEHTDAAISLSVLYNDIG 88 
                              567888888888887.5999******************99986..567789*********************************** PP

                   TPR_15 195 rraeLrellkawkara.........e 211
                              +++ +r++ ++ ++r           
  PHY93_09090|PHY93_09090  89 QYEDARKVFETANERVkgknkgsglL 114
                              *******9887666655555555554 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.49
                   TPR_15 156 yrqegqtdaAlrdyreAlalapdsselraal 186
                              y+  ++ d+Al  y +++al+ ++ e++ ++
  PHY93_09090|PHY93_09090 134 YLSYNRYDEALFEYNKVIALDSENLEAKIKI 164
                              4444444444444444444444444333333 PP

>> Alkyl_sulf_dimr  Alkyl sulfatase dimerisation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.1   0.0   6.3e-05     0.049      66     124 ..       3      61 ..       1      74 [. 0.87
   2 ?   -1.1   0.0       3.1   2.4e+03      84     119 ..      55      90 ..      52     105 .. 0.71
   3 ?    2.5   0.1      0.24   1.9e+02      76     119 ..     131     174 ..     116     184 .. 0.79

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 6.3e-05
                              TTSHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHHHHH-SSHH CS
          Alkyl_sulf_dimr  66 mGgaekvlekakealkegdyrwaaellnhlvfadpenaeakelkadaleqlgyqaesat 124
                               +++e++l+ a+e +++ +y+  + +ln ++++d++n +a  l+a+++   g+  ++  
  PHY93_09090|PHY93_09090   3 TSNNEQLLKSARECFEKLEYKKTQVILNEIIESDDHNVDAFFLLANIFHINGEIGKAIK 61 
                              67899******************************************998877666555 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 3.1
                              -HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHHHHH CS
          Alkyl_sulf_dimr  84 dyrwaaellnhlvfadpenaeakelkadaleqlgyq 119
                              ++  a++  n++++ +pe+++a   +   ++ +g+ 
  PHY93_09090|PHY93_09090  55 EIGKAIKAFNKVLTLNPEHTDAAISLSVLYNDIGQY 90 
                              556678888999999999887776666666666654 PP

  == domain 3  score: 2.5 bits;  conditional E-value: 0.24
                              HHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHHHHH CS
          Alkyl_sulf_dimr  76 akealkegdyrwaaellnhlvfadpenaeakelkadaleqlgyq 119
                              a  +l+ + y  a+   n++++ d+en eak   a+++ + g  
  PHY93_09090|PHY93_09090 131 ADLYLSYNRYDEALFEYNKVIALDSENLEAKIKIAKVYAKKGFI 174
                              55556666778888888999999********9999999987765 PP

>> TPR_21  Tetratricopeptide repeat-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   0.0     0.057        45      81     179 ..      11     107 ..       5     117 .. 0.56
   2 !   15.7   1.4   1.2e-05    0.0094      33     176 ..      87     222 ..      82     236 .. 0.82

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.057
                   TPR_21  81 llAkaaveagdlaaAkaqLewvlekakdeelkalarlRLarvllaekkydeAlktLeakkeeafaalvaelrGDilv.aqgkldeA 165
                               +A++ +e+ ++++ +  L++++e+  d++++a     La++   ++++ +A+k+ +++ + + +   a +   +l+   g+ ++A
  PHY93_09090|PHY93_09090  11 KSARECFEKLEYKKTQVILNEIIESD-DHNVDAF--FLLANIFHINGEIGKAIKAFNKVLTLNPEHTDAAISLSVLYnDIGQYEDA 93 
                              56666667777777777776666655.4445443..34566666666666666666555544444444444444433034666666 PP

                   TPR_21 166 raaYqaAlaaleek 179
                              r+ ++ A ++ + k
  PHY93_09090|PHY93_09090  94 RKVFETANERVKGK 107
                              66666666665555 PP

  == domain 2  score: 15.7 bits;  conditional E-value: 1.2e-05
                   TPR_21  33 eeqaeeAsalYqqlqeaveakdaakakeaaeeladeyggtaYaalaaLllAkaaveagdlaaAkaqLewvlekakdeelkalarlR 118
                                q e A +++++ +e v+ k++ +   + +++++++++++Y        A+   + + +++A  ++++v++  +++ l+  a+++
  PHY93_09090|PHY93_09090  87 IGQYEDARKVFETANERVKGKNKGSGLLEDKHINKKFASKHYE------IADLYLSYNRYDEALFEYNKVIALDSEN-LE--AKIK 163
                              568899******************9999999999999999985......577778889999**********998655.65..899* PP

                   TPR_21 119 LarvllaekkydeAlktLeakkee..afaalvaelrGDilvaqgkldeAraaYqaAlaal 176
                              +a+v+++++ +++A+++L + k+e  a+a ++    G +++ +g++ eA++++++ l + 
  PHY93_09090|PHY93_09090 164 IAKVYAKKGFIAKAIEELRTLKNEepAYAPARI-ALGVLHYGNGNILEAQTEWEKVLLKD 222
                              ******************765554114444443.35999999999999999999987665 PP

>> PknG_TPR  Protein kinase G tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.4   0.0   0.00098      0.76     185     261 ..      30     105 ..      10     111 .. 0.79
   2 !    6.1   0.0    0.0049       3.8     183     234 ..     145     197 ..     125     216 .. 0.84

  Alignments for each domain:
  == domain 1  score: 8.4 bits;  conditional E-value: 0.00098
                              HHHHHH-TT-HHHHHHHHHHHHHTT-HHHHHHHHHTS-TTSTTHHHHHHHHHHHCH---------HHHHHHHHHHHH CS
                 PknG_TPR 185 rtVwrtdrgvvsAaFGlaRqlaaagdraaAvaaLdeVpatSrhyttArltavllllsgrpvaeldeadlreaarrve 261
                              + +   d+  v A F la     +g+  +A++a ++V +    +t A ++ + +l ++    e  ++ +++a +rv+
  PHY93_09090|PHY93_09090  30 NEIIESDDHNVDAFFLLANIFHINGEIGKAIKAFNKVLTLNPEHTDAAIS-LSVLYNDIGQYEDARKVFETANERVK 105
                              55667788899************************************975.44566666566666667777777775 PP

  == domain 2  score: 6.1 bits;  conditional E-value: 0.0049
                              H.HHHHHHH-TT-HHHHHHHHHHHHHTT-HHHHHHHHHTS-TTSTTHHHHHHH CS
                 PknG_TPR 183 y.YrtVwrtdrgvvsAaFGlaRqlaaagdraaAvaaLdeVpatSrhyttArlt 234
                              + Y+ V   d   + A   +a+  a++g  a+A++ L +  ++   y+ Ar++
  PHY93_09090|PHY93_09090 145 FeYNKVIALDSENLEAKIKIAKVYAKKGFIAKAIEELRTLKNEEPAYAPARIA 197
                              2499999********************************************87 PP

>> NARP1  NMDA receptor-regulated protein 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.5   0.0     0.001       0.8     207     252 ..      21      66 ..      12      75 .. 0.89
   2 !    7.8   2.4    0.0017       1.3     146     250 ..      81     182 ..      77     190 .. 0.75

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.001
                              -SHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHH CS
                    NARP1 207 srekAleyidkaiehtptlvelyltKarilkhaGdlkkAaevmeea 252
                              +++k   ++++ ie+++  v+ +   a+i+   G++ kA+++ ++ 
  PHY93_09090|PHY93_09090  21 EYKKTQVILNEIIESDDHNVDAFFLLANIFHINGEIGKAIKAFNKV 66 
                              677888899********************************99886 PP

  == domain 2  score: 7.8 bits;  conditional E-value: 0.0017
                              GGGGGGSCHHHHHHHHHHHHHTTTTTSSSSTTGG.GS.S----SSHHHHHHHHHHHHHHHHT-SHHHHHHHHHHHHH-TT-HHHHH CS
                    NARP1 146 ksLYedkeKvkileelvegyvkslktsgklsesdned.sekepesallwvlyflAqhydklgsrekAleyidkaiehtptlvelyl 230
                              + LY+d    +  ++++e   ++ k ++k s   +++  +k+++      +y +A  y  ++++++Al   +k i+ + + +e  +
  PHY93_09090|PHY93_09090  81 SVLYNDIGQYEDARKVFETANERVKGKNKGSGLLEDKhINKKFA----SKHYEIADLYLSYNRYDEALFEYNKVIALDSENLEAKI 162
                              56777766666666666666666555555554443220233333....368999999999************************** PP

                              HHHHHHHHTT-HHHHHHHHH CS
                    NARP1 231 tKarilkhaGdlkkAaevme 250
                                a+++ ++G + kA+e + 
  PHY93_09090|PHY93_09090 163 KIAKVYAKKGFIAKAIEELR 182
                              ***************99875 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.0      0.41   3.2e+02       2      33 ..      43      72 ..      42      75 .. 0.82
   2 ?    6.6   0.0     0.011       8.7       5      27 ..      80     100 ..      76     108 .. 0.87
   3 ?    3.6   0.3       0.1        80       4      31 ..     129     156 ..     127     161 .. 0.76
   4 ?   -1.9   0.0         6   4.7e+03       7      17 ..     207     217 ..     206     227 .. 0.60

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.41
                    TPR_7  2 LlnLarlysrlGdyeeAielyeqsLaltkdpe 33
                             ++ La++++  G+  +Ai+ + +  +lt  pe
  PHY93_09090|PHY93_09090 43 FFLLANIFHINGEIGKAIKAFNK--VLTLNPE 72
                             678999988889999****9999..7776665 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.011
                    TPR_7   5 LarlysrlGdyeeAielyeqsLa 27 
                              L +ly + G+ye+A +++e   a
  PHY93_09090|PHY93_09090  80 LSVLYNDIGQYEDARKVFET--A 100
                              778999************98..5 PP

  == domain 3  score: 3.6 bits;  conditional E-value: 0.1
                    TPR_7   4 nLarlysrlGdyeeAielyeqsLaltkd 31 
                               +a+ly + ++y+eA+  y +++al+++
  PHY93_09090|PHY93_09090 129 EIADLYLSYNRYDEALFEYNKVIALDSE 156
                              689************9777776666655 PP

  == domain 4  score: -1.9 bits;  conditional E-value: 6
                    TPR_7   7 rlysrlGdyee 17 
                              ++ +++ ++e+
  PHY93_09090|PHY93_09090 207 NILEAQTEWEK 217
                              56666666665 PP

>> TPR_9  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.7   0.0      0.01       7.9      11      55 ..      56     100 ..      46     104 .. 0.89
   2 !    7.0   0.0    0.0081       6.3       4      60 ..     133     189 ..     130     202 .. 0.87
   3 ?    0.3   0.0         1   7.8e+02      31      60 ..     194     223 ..     188     232 .. 0.78

  Alignments for each domain:
  == domain 1  score: 6.7 bits;  conditional E-value: 0.01
                    TPR_9  11 weralavverllllaPddpeerrdRGlllaqlGclsaAladLeay 55 
                                +a+++ + +l l+P++ +      +l+   G+++ A++ +e++
  PHY93_09090|PHY93_09090  56 IGKAIKAFNKVLTLNPEHTDAAISLSVLYNDIGQYEDARKVFETA 100
                              56899**********************************999875 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.0081
                    TPR_9   4 iaireedweralavverllllaPddpeerrdRGlllaqlGclsaAladLeaylalap 60 
                              ++++ +++++al  ++ +++l+++  e     + ++a+ G +++A+++L +    +p
  PHY93_09090|PHY93_09090 133 LYLSYNRYDEALFEYNKVIALDSENLEAKIKIAKVYAKKGFIAKAIEELRTLKNEEP 189
                              79999********************************************98766666 PP

  == domain 3  score: 0.3 bits;  conditional E-value: 1
                    TPR_9  31 errdRGlllaqlGclsaAladLeaylalap 60 
                               r   G+l++  G++ +A  + e  l ++p
  PHY93_09090|PHY93_09090 194 ARIALGVLHYGNGNILEAQTEWEKVLLKDP 223
                              6778899*********99999998888888 PP

>> V-ATPase_H_C  V-ATPase subunit H
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.1   0.00015      0.12      17      95 ..      32     115 ..      20     126 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 0.00015
             V-ATPase_H_C  17 LewspvHksekFW.kenaekleeknfkllkkLikll....eeskdktvlavalnDigelvkllpegkkvleklkaKekimelle 95 
                              +  s  H+ + F+   n+ +++ +  k +k+  k+l    e+++   +l+v+ nDig++ +  +  ++  e++k+K+k   lle
  PHY93_09090|PHY93_09090  32 IIESDDHNVDAFFlLANIFHINGEIGKAIKAFNKVLtlnpEHTDAAISLSVLYNDIGQYEDARKVFETANERVKGKNKGSGLLE 115
                              556777888877735899******9***********877543344689**********99988888888888888887666665 PP

>> ASRT  Anabaena sensory rhodopsin transducer
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.3   0.0    0.0014       1.1      22      60 ..      58      96 ..      49     112 .. 0.83
   2 ?    2.1   0.0      0.25     2e+02       4      51 ..     126     171 ..     123     186 .. 0.78

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.0014
                             .TCC-CCEEEEEE-SSS-EEEEEEEEESSS--EEEEEEE CS
                     ASRT 22 pelvshesvcilNtgdedakveltvyfedrepvgpyevv 60
                             +++++ ++v  lN +++da ++l+v ++d  + +  + v
  PHY93_09090|PHY93_09090 58 KAIKAFNKVLTLNPEHTDAAISLSVLYNDIGQYEDARKV 96
                             467889999********************9888777655 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.25
                              EEEEECEEB----CCTT..TCC-CCEEEEEE-SSS-EEEEEEEEESSS CS
                     ASRT   4 rrWvipdgyiPsessgeepelvshesvcilNtgdedakveltvyfedr 51 
                              +++ i+d y+  +  +  ++l  +++v  l  ++ +ak+++   ++ +
  PHY93_09090|PHY93_09090 126 KHYEIADLYLSYNRYD--EALFEYNKVIALDSENLEAKIKIAKVYAKK 171
                              5667777777655544..489999*****************8777765 PP

>> HrpB1_HrpK  Bacterial type III secretion protein (HrpB1_HrpK)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.6   0.0    0.0037       2.9      10      84 ..      39     113 ..      26     115 .. 0.77
   2 ?    2.7   0.0      0.12        92       9      72 ..     156     219 ..     148     235 .. 0.65

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.0037
               HrpB1_HrpK  10 lvggLievlslalasedtedaellLdalrvLrPevaeldllegvlliergrweeAlrlLreveaeasgtpyakaL 84 
                               v++   +++ +  ++++  a +  + +  L Pe +++++   vl+   g++e+A++++++ +++ +g + ++ L
  PHY93_09090|PHY93_09090  39 NVDAFFLLANIFHINGEIGKAIKAFNKVLTLNPEHTDAAISLSVLYNDIGQYEDARKVFETANERVKGKNKGSGL 113
                              5555555555555556666666666777889*******************************9998887766665 PP

  == domain 2  score: 2.7 bits;  conditional E-value: 0.12
               HrpB1_HrpK   9 elvggLievlslalasedtedaellLdalrvLrPevaeldllegvlliergrweeAlrlLreve 72 
                              e +++ i+++ + ++++ ++ a + L+ l+   P  a +++  gvl+  +g++ eA    ++v 
  PHY93_09090|PHY93_09090 156 ENLEAKIKIAKVYAKKGFIAKAIEELRTLKNEEPAYAPARIALGVLHYGNGNILEAQTEWEKVL 219
                              5555555566555566665555555666666667788888888888888888888876666665 PP

>> TPR_10  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.4   0.0    0.0052       4.1       6      28 ..      78     100 ..      74     100 .. 0.88
   2 ?   -1.4   0.0       3.1   2.4e+03      16      22 ..     138     144 ..     130     153 .. 0.76
   3 ?    0.5   0.1      0.81   6.3e+02       7      29 ..     197     219 ..     194     220 .. 0.87
   4 ?   -2.3   0.2       6.1   4.7e+03       2      14 ..     228     240 ..     228     242 .. 0.78

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.0052
                   TPR_10   6 nNLanalrqrgrydeAealleea 28 
                                L++++ + g+y++A++ +e a
  PHY93_09090|PHY93_09090  78 ISLSVLYNDIGQYEDARKVFETA 100
                              6799**************99986 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 3.1
                   TPR_10  16 grydeAe 22 
                              +rydeA+
  PHY93_09090|PHY93_09090 138 NRYDEAL 144
                              7999997 PP

  == domain 3  score: 0.5 bits;  conditional E-value: 0.81
                   TPR_10   7 NLanalrqrgrydeAealleeal 29 
                               L+++++  g+  eA    e++l
  PHY93_09090|PHY93_09090 197 ALGVLHYGNGNILEAQTEWEKVL 219
                              69*********999999988886 PP

  == domain 4  score: -2.3 bits;  conditional E-value: 6.1
                   TPR_10   2 AsslnNLanalrq 14 
                              As + NL+++ ++
  PHY93_09090|PHY93_09090 228 ASMYLNLSRTATE 240
                              7889999998766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (244 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       752  (0.0419432); expected 358.6 (0.02)
Passed bias filter:                      436  (0.0243181); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                        23  (0.00128284); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              23  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 1580.88
//
Query:       PHY93_09095|PHY93_09095  [L=210]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    7.5e-32  110.7  13.7    9.4e-32  110.4  13.7    1.0  1  YfiO          Outer membrane lipoprotein
      1e-13   51.7   9.8    1.4e-13   51.2   5.1    2.6  2  TPR_18        Tetratricopeptide repeat
    4.9e-08   33.1   7.0     0.0032   18.0   0.1    4.4  4  TPR_6         Tetratricopeptide repeat
    9.9e-06   25.3   6.9        1.8    8.9   0.4    4.4  4  TPR_2         Tetratricopeptide repeat
    0.00013   21.7   6.5     0.0025   17.5   0.3    2.9  2  TPR_21        Tetratricopeptide repeat-like domain
    0.00025   21.6   1.8       0.26   12.0   0.1    3.3  3  TPR_16        Tetratricopeptide repeat
     0.0046   17.1   6.6        1.3    9.5   0.3    3.9  3  TPR_8         Tetratricopeptide repeat
      0.005   17.6   0.4         42    5.3   0.0    3.5  3  TPR_14        Tetratricopeptide repeat
     0.0095   16.4   4.2        1.3    9.6   0.2    3.4  2  TPR_19        Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.015   15.0   0.2      0.027   14.2   0.2    1.3  1  Flavodoxin_3  Flavodoxin domain
      0.054   13.8   5.3          3    8.2   0.1    3.5  4  TPR_12        Tetratricopeptide repeat
      0.062   13.2   0.5        0.1   12.5   0.5    1.4  1  Sec8_exocyst  Sec8 exocyst complex component specific domain
       0.23   11.7   4.0        3.6    7.9   0.5    3.5  3  Gemini_V2     Geminivirus V2 protein
       0.24   11.5   4.0         10    6.4   0.1    3.1  3  TPR_7         Tetratricopeptide repeat
        1.4    9.0   9.6        1.3    9.2   2.4    3.3  4  DUF4363       Domain of unknown function (DUF4363)
        2.1    8.3  11.2         16    5.5   0.3    3.8  4  TPR_1         Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> YfiO  Outer membrane lipoprotein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  110.4  13.7   8.4e-35   9.4e-32       4     175 ..      25     194 ..      23     208 .. 0.95

  Alignments for each domain:
  == domain 1  score: 110.4 bits;  conditional E-value: 8.4e-35
                              -HHHHHHHHHHHHHHT-HHHHHHHHHHHHHHSTTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-SSSTTHHHHHHHHHHHH CS
                     YfiO   4 taselYekgqealqkgdyaeAikklealdsryPfspyaeqaqldliyAyykdadyaealasaerFlrlyPthknvdyvlYlrglsa 89 
                              +a+ l++++++ ++k+ y +A +kl+++ s+yP s ya++a+l  ++  +++++yaea+ ++  F   +P+ ++  yv++ +  s+
  PHY93_09095|PHY93_09095  25 EAEVLFKEAKDLISKSRYIQATEKLNSIRSQYPYSFYATHAELLQADILFSQENYAEAASAYILFRDFHPKYNELGYVIFRISESF 110
                              57889********************************************************************************* PP

                              HHHHSHSCTTTS-THHHHHHHHHHHHHHHHSTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHSTTSH CS
                     YfiO  90 laqarellrskrdpesarqafedfkklvekyPdseYaadakkrltelrerLArhElevaefylkreayvaainRvkevlknypdte 175
                              + q  +   ++rd +   +a+++ ++l+++yPd+eY +da+ r+ ++ e++ ++E+++a+fy+k++ y+aa  R++ +lk+ ++ +
  PHY93_09095|PHY93_09095 111 YRQLPST--YDRDLSAGIEAIKYYNELIQNYPDTEYVKDAQVRINQIEEMIEKKEIYIADFYFKTKDYQAAKARYEDILKTLKNKN 194
                              *******..**********************************************************************9876655 PP

>> TPR_18  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.2   5.1   1.2e-16   1.4e-13      10     145 .]      26     152 ..      17     152 .. 0.90
   2 ?    1.5   0.1      0.25   2.9e+02      57      75 ..     170     188 ..     160     199 .. 0.78

  Alignments for each domain:
  == domain 1  score: 51.2 bits;  conditional E-value: 1.2e-16
                   TPR_18  10 eaelyqeaqkaldegnyltaieqLealdtryPfGaYaeqaqLDLiYakykskdyelavasidrfirlnPahpkiDyvlYlrglanm 95 
                               + l++ea++ + + +y++a+e+L++++++yP+  Ya  a+L      + +++y+ a+++   f   +P+ +++ yv++       
  PHY93_09095|PHY93_09095  26 AEVLFKEAKDLISKSRYIQATEKLNSIRSQYPYSFYATHAELLQADILFSQENYAEAASAYILFRDFHPKYNELGYVIF------- 104
                              34589***********************************99888888999**************************97....... PP

                   TPR_18  96 aldksslqslvsldrsdrdteaakaafrdfkrLlsryPnseYaaDaakrl 145
                               + +s+ ++l      drd +a  +a + +++L+++yP+ eY +Da+ r+
  PHY93_09095|PHY93_09095 105 RISESFYRQLP--STYDRDLSAGIEAIKYYNELIQNYPDTEYVKDAQVRI 152
                              56677777777..578*******************************995 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.25
                   TPR_18  57 kykskdyelavasidrfir 75 
                              ++k+kdy++a+a  +  ++
  PHY93_09095|PHY93_09095 170 YFKTKDYQAAKARYEDILK 188
                              89******99998877665 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.0      0.44   4.9e+02       2      31 ..      28      57 ..      27      57 .. 0.81
   2 ?    5.0   0.1     0.041        46       2      31 ..      65      94 ..      64      96 .. 0.82
   3 !   18.0   0.1   2.9e-06    0.0032       2      33 .]     102     142 ..     101     142 .. 0.83
   4 !    9.4   0.2    0.0016       1.8       5      28 ..     165     188 ..     164     189 .. 0.91

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.44
                             HHHHHHHHHHHHHHHHHHHHHHHHHHHH-T CS
                    TPR_6  2 AlyklalsyrklgdtdkAlealerlikeYP 31
                             +l+k a+ +++  ++ +A e l++++++YP
  PHY93_09095|PHY93_09095 28 VLFKEAKDLISKSRYIQATEKLNSIRSQYP 57
                             6777777777756899999**********9 PP

  == domain 2  score: 5.0 bits;  conditional E-value: 0.041
                             HHHHHHHHHHHHHHHHHHHHHHHHHHHH-T CS
                    TPR_6  2 AlyklalsyrklgdtdkAlealerlikeYP 31
                             A +++a  ++++ ++++A  a+  +++ +P
  PHY93_09095|PHY93_09095 65 AELLQADILFSQENYAEAASAYILFRDFHP 94
                             67899******89*******9966666555 PP

  == domain 3  score: 18.0 bits;  conditional E-value: 2.9e-06
                              HHHHHHHHHHHH......HHHH...HHHHHHHHHHHH-TT- CS
                    TPR_6   2 Alyklalsyrkl......gdtd...kAlealerlikeYPdS 33 
                              + +++ +s++++       d +   +A++++++li++YPd+
  PHY93_09095|PHY93_09095 102 VIFRISESFYRQlpstydRDLSagiEAIKYYNELIQNYPDT 142
                              67999999999779988745556779*************96 PP

  == domain 4  score: 9.4 bits;  conditional E-value: 0.0016
                              HHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   5 klalsyrklgdtdkAlealerlik 28 
                              ++a  y+k++d+++A++ +e+++k
  PHY93_09095|PHY93_09095 165 YIADFYFKTKDYQAAKARYEDILK 188
                              68999***99**********9987 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.0       0.7   7.9e+02       1      24 [.      26      49 ..      25      57 .. 0.76
   2 !    8.2   0.2    0.0027         3       7      24 ..      69      86 ..      67      87 .. 0.92
   3 !    7.8   0.0    0.0036       4.1      19      33 ..     127     141 ..     126     142 .. 0.94
   4 !    8.9   0.4    0.0016       1.8       6      29 ..     165     188 ..     164     192 .. 0.88

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.7
                    TPR_2  1 aealynlGlayyklgdyeeAleaf 24
                             ae+l+  ++ ++ + +y +A e +
  PHY93_09095|PHY93_09095 26 AEVLFKEAKDLISKSRYIQATEKL 49
                             678888888888888888887665 PP

  == domain 2  score: 8.2 bits;  conditional E-value: 0.0027
                    TPR_2  7 lGlayyklgdyeeAleaf 24
                             ++++++ + +y+eA+ a+
  PHY93_09095|PHY93_09095 69 QADILFSQENYAEAASAY 86
                             699***********9998 PP

  == domain 3  score: 7.8 bits;  conditional E-value: 0.0036
                    TPR_2  19 eAleafekAleldPn 33 
                              eA++++++ ++ +P+
  PHY93_09095|PHY93_09095 127 EAIKYYNELIQNYPD 141
                              9************97 PP

  == domain 4  score: 8.9 bits;  conditional E-value: 0.0016
                    TPR_2   6 nlGlayyklgdyeeAleafekAle 29 
                              ++++ y+k +dy+ A++ +e  l+
  PHY93_09095|PHY93_09095 165 YIADFYFKTKDYQAAKARYEDILK 188
                              68999************9998776 PP

>> TPR_21  Tetratricopeptide repeat-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.3   2.2e-06    0.0025      36      98 ..      23      85 ..      18      98 .. 0.93
   2 ?    4.8   1.3     0.018        20      80     108 ..     164     192 ..     107     203 .. 0.59

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 2.2e-06
                   TPR_21 36 aeeAsalYqqlqeaveakdaakakeaaeeladeyggtaYaalaaLllAkaaveagdlaaAkaq 98
                             ++eA  l+++ ++  +++   +a+e+ +++ ++y+ + Ya  a+Ll+A+  ++++++a+A+++
  PHY93_09095|PHY93_09095 23 STEAEVLFKEAKDLISKSRYIQATEKLNSIRSQYPYSFYATHAELLQADILFSQENYAEAASA 85
                             5789999999999999999999*************************************9976 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.018
                   TPR_21  80 LllAkaaveagdlaaAkaqLewvlekakd 108
                              +  A+  ++++d++aAka++e +l+  k+
  PHY93_09095|PHY93_09095 164 IYIADFYFKTKDYQAAKARYEDILKTLKN 192
                              45555555555555555555555554333 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.0   0.1   0.00023      0.26       1      23 [.      67      88 ..      30     104 .. 0.74
   2 ?    1.9   0.0      0.31   3.5e+02      52      66 ..     127     141 ..     127     143 .. 0.82
   3 ?    5.5   0.1     0.025        28       7      25 ..     170     188 ..     166     190 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00023
                   TPR_16  1 lalaraalragdyddAaaaleaa 23
                             l +a++++ + +y++Aa a+ ++
  PHY93_09095|PHY93_09095 67 LLQADILFSQENYAEAASAY-IL 88
                             45666666666666666666.55 PP

  == domain 2  score: 1.9 bits;  conditional E-value: 0.31
                   TPR_16  52 eAaalyraalraapd 66 
                              eA+ +y+++++++pd
  PHY93_09095|PHY93_09095 127 EAIKYYNELIQNYPD 141
                              688999999999997 PP

  == domain 3  score: 5.5 bits;  conditional E-value: 0.025
                   TPR_16   7 alragdyddAaaaleaalk 25 
                              +++ +dy++A a++e  lk
  PHY93_09095|PHY93_09095 170 YFKTKDYQAAKARYEDILK 188
                              8999***********9997 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.3     0.045        51       7      24 ..      69      86 ..      67      88 .. 0.89
   2 ?    4.4   0.0     0.047        53      19      33 ..     127     141 ..     126     142 .. 0.88
   3 !    9.5   0.3    0.0011       1.3       7      28 ..     166     187 ..     166     194 .. 0.89

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.045
                             HHHHHHHTT-HHHHHHHH CS
                    TPR_8  7 lgsiylklgdyeeAkeyy 24
                              ++i++++++y eA ++y
  PHY93_09095|PHY93_09095 69 QADILFSQENYAEAASAY 86
                             699***********9998 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.047
                              HHHHHHHHHHHHHHH CS
                    TPR_8  19 eAkeyyekaleldpd 33 
                              eA++yy++ ++  pd
  PHY93_09095|PHY93_09095 127 EAIKYYNELIQNYPD 141
                              8********998886 PP

  == domain 3  score: 9.5 bits;  conditional E-value: 0.0011
                              HHHHHHHTT-HHHHHHHHHHHH CS
                    TPR_8   7 lgsiylklgdyeeAkeyyekal 28 
                              +++ y+k++dy++Ak+ ye  l
  PHY93_09095|PHY93_09095 166 IADFYFKTKDYQAAKARYEDIL 187
                              7999***********9888766 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.1       0.2   2.3e+02       3      24 ..      65      86 ..      63      99 .. 0.82
   2 ?    5.3   0.0     0.038        42      19      35 ..     127     143 ..     119     152 .. 0.87
   3 ?    5.1   0.0     0.044        50       7      31 ..     166     190 ..     164     200 .. 0.83

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.2
                   TPR_14  3 allalaeallalGdpdeAiall 24
                             a l+ a++l+ +++++eA+ ++
  PHY93_09095|PHY93_09095 65 AELLQADILFSQENYAEAASAY 86
                             56788999*********99877 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.038
                   TPR_14  19 eAiallrralalaPdda 35 
                              eAi++++++++ +Pd +
  PHY93_09095|PHY93_09095 127 EAIKYYNELIQNYPDTE 143
                              8*************975 PP

  == domain 3  score: 5.1 bits;  conditional E-value: 0.044
                   TPR_14   7 laeallalGdpdeAiallrralala 31 
                              +a++++   d+++A a ++++l++ 
  PHY93_09095|PHY93_09095 166 IADFYFKTKDYQAAKARYEDILKTL 190
                              6899******************975 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.3   0.3     0.025        28       6      45 ..      41      83 ..      36      86 .. 0.71
   2 !    9.6   0.2    0.0011       1.3      28      57 ..     165     192 ..     127     200 .. 0.80

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.025
                   TPR_19  6 dyaeAlalleqalqedpk.....naearllLAeallalgqldeAe 45
                             +y +A + l ++ +++p      +ae++   A++l+++ +++eA 
  PHY93_09095|PHY93_09095 41 RYIQATEKLNSIRSQYPYsfyatHAELLQ--ADILFSQENYAEAA 83
                             56677777888877766664433555555..************95 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 0.0011
                   TPR_19  28 rllLAeallalgqldeAealLdalpeedpd 57 
                               +  A+ +++++++++A+a  +++++  ++
  PHY93_09095|PHY93_09095 165 YI--ADFYFKTKDYQAAKARYEDILKTLKN 192
                              34..99999999999999999988887666 PP

>> Flavodoxin_3  Flavodoxin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.2   2.4e-05     0.027      80     147 ..     139     209 ..     135     209 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 2.4e-05
             Flavodoxin_3  80 gkdseyakki...lekvkalleknnevlgeflcqGkisekvrekyeklaksdeehkkldalianfdeAasH 147
                              ++d+ey+k+    ++++++++ek++ +++ f  + k  ++ +++ye + k+ +++++  + + ++deAa+H
  PHY93_09095|PHY93_09095 139 YPDTEYVKDAqvrINQIEEMIEKKEIYIADFYFKTKDYQAAKARYEDILKTLKNKNEKLRILTRIDEAATH 209
                              678888877533368999******************************99999999999999********9 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0       3.5   3.9e+03      21      34 ..      25      38 ..      24      56 .. 0.64
   2 ?    4.3   0.3     0.043        49       7      26 ..      67      86 ..      60      88 .. 0.74
   3 ?    1.3   0.0      0.39   4.3e+02      21      33 ..     127     139 ..     118     153 .. 0.69
   4 ?    8.2   0.1    0.0027         3       9      34 ..     166     191 ..     160     209 .. 0.71

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 3.5
                   TPR_12 21 eAlellekaleiar 34
                             eA+ l+++a ++++
  PHY93_09095|PHY93_09095 25 EAEVLFKEAKDLIS 38
                             45555555555544 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.043
                   TPR_12  7 nnlaavlrrlgrydeAlell 26
                                a++l+ +++y+eA + +
  PHY93_09095|PHY93_09095 67 LLQADILFSQENYAEAASAY 86
                             35788999999999986655 PP

  == domain 3  score: 1.3 bits;  conditional E-value: 0.39
                   TPR_12  21 eAlellekaleia 33 
                              eA++++++ ++ +
  PHY93_09095|PHY93_09095 127 EAIKYYNELIQNY 139
                              6777777665554 PP

  == domain 4  score: 8.2 bits;  conditional E-value: 0.0027
                   TPR_12   9 laavlrrlgrydeAlellekaleiar 34 
                              +a+++++ ++y+ A + +e  l   +
  PHY93_09095|PHY93_09095 166 IADFYFKTKDYQAAKARYEDILKTLK 191
                              67788888888888888887777664 PP

>> Sec8_exocyst  Sec8 exocyst complex component specific domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.5   9.1e-05       0.1      65     141 ..     130     205 ..     108     206 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 9.1e-05
             Sec8_exocyst  65 qaFnssiasYskilssiqesqekvselKesleeakkklstkkkeLkelnarsakykevieiLdaieelkkvpdkieq 141
                              + +n+ i++Y  + ++++++q +++++ e++e+ +  + +   + k+ +a  a+y++++++L++ +e  ++  +i++
  PHY93_09095|PHY93_09095 130 KYYNELIQNYPDT-EYVKDAQVRINQIEEMIEKKEIYIADFYFKTKDYQAAKARYEDILKTLKNKNEKLRILTRIDE 205
                              5689999999986.789***********************************************9999999999886 PP

>> Gemini_V2  Geminivirus V2 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.0       1.1   1.2e+03      43      67 ..      34      55 ..      23      69 .. 0.70
   2 ?    1.2   0.2      0.38   4.3e+02      48      65 ..      73      90 ..      40      98 .. 0.62
   3 ?    7.9   0.5    0.0032       3.6      49      73 ..     171     195 ..     110     198 .. 0.89

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 1.1
                Gemini_V2 43 rdLisvlRarnyveatrRyshfhsr 67
                             +dLis     +y +at++ + ++s+
  PHY93_09095|PHY93_09095 34 KDLISK---SRYIQATEKLNSIRSQ 55
                             455544...5678888887777765 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.38
                Gemini_V2 48 vlRarnyveatrRyshfh 65
                             ++  +ny+ea + y  f+
  PHY93_09095|PHY93_09095 73 LFSQENYAEAASAYILFR 90
                             456789999998887664 PP

  == domain 3  score: 7.9 bits;  conditional E-value: 0.0032
                Gemini_V2  49 lRarnyveatrRyshfhsrlegtse 73 
                              +++++y+ a+ Ry+++ ++l++++e
  PHY93_09095|PHY93_09095 171 FKTKDYQAAKARYEDILKTLKNKNE 195
                              689*************999988765 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.3   0.1     0.021        24       6      22 ..      70      86 ..      67      88 .. 0.90
   2 ?   -2.1   0.1       4.7   5.3e+03      17      23 ..     127     133 ..     127     137 .. 0.81
   3 ?    6.4   0.1    0.0089        10       4      30 ..     165     191 ..     164     197 .. 0.81

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.021
                    TPR_7  6 arlysrlGdyeeAiely 22
                             a++ +++ +y+eA++ y
  PHY93_09095|PHY93_09095 70 ADILFSQENYAEAASAY 86
                             89************988 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 4.7
                    TPR_7  17 eAielye 23 
                              eAi++y 
  PHY93_09095|PHY93_09095 127 EAIKYYN 133
                              79***95 PP

  == domain 3  score: 6.4 bits;  conditional E-value: 0.0089
                    TPR_7   4 nLarlysrlGdyeeAielyeqsLaltk 30 
                              ++a+ y++  dy+ A   ye  L + k
  PHY93_09095|PHY93_09095 165 YIADFYFKTKDYQAAKARYEDILKTLK 191
                              689*****************9884444 PP

>> DUF4363  Domain of unknown function (DUF4363)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.1      0.25   2.8e+02      63      92 ..      26      55 ..      23      58 .. 0.70
   2 ?   -0.9   0.0       1.5   1.7e+03      15      36 ..      64      85 ..      58     103 .. 0.65
   3 ?    3.3   0.3     0.078        87      20      51 ..     135     166 ..     121     170 .. 0.70
   4 ?    9.2   2.4    0.0011       1.3      11      59 ..     152     205 ..     144     208 .. 0.88

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.25
                  DUF4363 63 ietslaklkayietedkeealaelaelkfl 92
                              e+ ++++k++i++  + +a ++l++++++
  PHY93_09095|PHY93_09095 26 AEVLFKEAKDLISKSRYIQATEKLNSIRSQ 55
                             556677777777777777777777777765 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 1.5
                  DUF4363 15 sekleeleeaienedweeakek 36
                              ++l +++   ++e+++ea+++
  PHY93_09095|PHY93_09095 64 HAELLQADILFSQENYAEAASA 85
                             4455555555677777777765 PP

  == domain 3  score: 3.3 bits;  conditional E-value: 0.078
                  DUF4363  20 eleeaienedweeakekleelekeWekkkkkl 51 
                               ++++ + e  ++a+  ++++e++ ekk+ + 
  PHY93_09095|PHY93_09095 135 LIQNYPDTEYVKDAQVRINQIEEMIEKKEIYI 166
                              34444477777888888888888888887765 PP

  == domain 4  score: 9.2 bits;  conditional E-value: 0.0011
                  DUF4363  11 tdelsekleeleeai.....enedweeakekleelekeWekkkkklsifiehde 59 
                              +++++e++e+ e +i     + +d+++ak   e++ k+ ++k++kl i+++ de
  PHY93_09095|PHY93_09095 152 INQIEEMIEKKEIYIadfyfKTKDYQAAKARYEDILKTLKNKNEKLRILTRIDE 205
                              56777888888888899999****************************998777 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0         3   3.4e+03      19      29 ..      25      35 ..      24      39 .. 0.79
   2 ?    5.5   0.3     0.014        16       8      24 ..      70      86 ..      65      87 .. 0.88
   3 ?    4.8   0.1     0.023        26      19      33 ..     127     141 ..     127     142 .. 0.91
   4 ?    3.5   0.3     0.063        70       7      21 ..     166     180 ..     164     188 .. 0.83

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 3
                             HHHHHHHHHHH CS
                    TPR_1 19 eAleyyekALe 29
                             eA+  +++A  
  PHY93_09095|PHY93_09095 25 EAEVLFKEAKD 35
                             79999999965 PP

  == domain 2  score: 5.5 bits;  conditional E-value: 0.014
                             HHHHHHTT-HHHHHHHH CS
                    TPR_1  8 GnayfklgkydeAleyy 24
                             + ++f++++y eA  +y
  PHY93_09095|PHY93_09095 70 ADILFSQENYAEAASAY 86
                             6799*********9888 PP

  == domain 3  score: 4.8 bits;  conditional E-value: 0.023
                              HHHHHHHHHHHHSTT CS
                    TPR_1  19 eAleyyekALelnPn 33 
                              eA++yy++ ++ +P+
  PHY93_09095|PHY93_09095 127 EAIKYYNELIQNYPD 141
                              8*******9999886 PP

  == domain 4  score: 3.5 bits;  conditional E-value: 0.063
                              HHHHHHHTT-HHHHH CS
                    TPR_1   7 lGnayfklgkydeAl 21 
                              ++  yfk ++y+ A 
  PHY93_09095|PHY93_09095 166 IADFYFKTKDYQAAK 180
                              5667*********96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (210 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1517  (0.0846115); expected 358.6 (0.02)
Passed bias filter:                      641  (0.0357521); expected 358.6 (0.02)
Passed Vit filter:                        67  (0.00373696); expected 17.9 (0.001)
Passed Fwd filter:                        16  (0.000892409); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              16  [number of targets reported over threshold]
# CPU time: 0.50u 0.24s 00:00:00.74 Elapsed: 00:00:00.42
# Mc/sec: 1503.96
//
Query:       PHY93_09100|PHY93_09100  [L=348]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.2e-43  148.7  46.4    2.6e-43  148.4  46.4    1.0  1  AI-2E_transport  AI-2E family transporter
  ------ inclusion threshold ------
      0.043   13.1   1.0          5    6.3   0.1    2.2  2  Attachment_P66   Borrelia burgdorferi attachment protein P66


Domain annotation for each model (and alignments):
>> AI-2E_transport  AI-2E family transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  148.4  46.4   2.9e-47   2.6e-43       2     326 ..      14     340 ..      12     341 .. 0.92

  Alignments for each domain:
  == domain 1  score: 148.4 bits;  conditional E-value: 2.9e-47
          AI-2E_transport   2 llilvllllllalypfis.elllplliAlvlayllnpvvkfLkkrgvkrvlavllvlllllvllvllvlllvplliaqltqlvksl 86 
                              l+++vl+++l++ + ++   +++pl +A +l+++l+p+v  L   ++++++a+ +++++l++l+ ++++ ++p+l + ++++ + +
  PHY93_09100|PHY93_09100  14 LIFFVLIIVLFCTLVLALpRISIPLSLAYILSLALTPIVSSLMALRLSKTMATVFIFISLAILIGWPMVKIIPILSSETQNIQNII 99 
                              56666666666655555569****************************************************************** PP

          AI-2E_transport  87 payidslqnilnelpslleelenliqalkqslskilsnilssilnsllsllasllglilslvlvllllffllldgeklrqgilkll 172
                              p++ + + ++++ + + ++ ++  ++  +  + + l++++s+ + +++++ ++l++l+  ++lv++++ff+ +d + +++ +l++ 
  PHY93_09100|PHY93_09100 100 PKIEQYVIQQFQFVREFVKLKT-GHEIGDAYVYQGLQELQSWSTAFVVRIPNYLANLMEWIFLVPFFTFFIIRDSDSFKKTLLSFT 184
                              **99999999999987776664.344555557799*************************************************** PP

          AI-2E_transport 173 pervrervkailrelektlsgylrgqvlvaliigvlvfigllilgvpyalllailvglanliPyiGavivlipiaiialltgg... 255
                              p+ + er+  ++   +++l++y+ ++++ a+i+g +   gll++ ++ya +l++++gl+n++Py+G+++++ip ai++ +++    
  PHY93_09100|PHY93_09100 185 PNMIFERFYYVMHVFNRQLGNYFFAKFVEAVIVGGIITTGLLMMDIKYAVILGFIAGLTNIVPYVGPFLGIIP-AIVLGMLEYgmt 269
                              *************************************************************************.666666666577 PP

          AI-2E_transport 256 ikevlivlivvllvqliegnilePklmgkrlglhplvillsllaggklfGlvGlilavpltavikaileay 326
                               +++  +l+++++ ++++  ++ P l++k ++lhp+++ +s+++g +  G+ G+ +++p++a+ik i++++
  PHY93_09100|PHY93_09100 270 STTMGAILMLYAIANVVDIFFVFPFLVSKIVNLHPMIVAVSVIVGSHYMGITGMVISIPVVAAIKLIITEI 340
                              7888999999999999*************************************************999875 PP

>> Attachment_P66  Borrelia burgdorferi attachment protein P66
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   0.1   0.00086       7.7     186     225 ..      84     125 ..      49     130 .. 0.78
   2 ?    6.3   0.1   0.00056         5     181     206 ..     228     253 ..     158     279 .. 0.84

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.00086
           Attachment_P66 186 aipvesispe..tyiipyvgayilgklksdkkkiylkaglel 225
                               ip+ s  ++    iip +  y++ ++++  + + lk+g e+
  PHY93_09100|PHY93_09100  84 IIPILSSETQniQNIIPKIEQYVIQQFQFVREFVKLKTGHEI 125
                              58887776652247*************************987 PP

  == domain 2  score: 6.3 bits;  conditional E-value: 0.00056
           Attachment_P66 181 lyldyaipvesispetyiipyvgayi 206
                              + + ya+ +  i+  t i+pyvg ++
  PHY93_09100|PHY93_09100 228 MDIKYAVILGFIAGLTNIVPYVGPFL 253
                              4578*******************874 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (348 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1048  (0.0584528); expected 358.6 (0.02)
Passed bias filter:                      289  (0.0161191); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.22s 00:00:00.78 Elapsed: 00:00:00.42
# Mc/sec: 2510.76
//
Query:       PHY93_09105|PHY93_09105  [L=200]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.6e-14   53.7   0.0    2.7e-14   53.0   0.0    1.4  1  cNMP_binding  Cyclic nucleotide-binding domain


Domain annotation for each model (and alignments):
>> cNMP_binding  Cyclic nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.0   0.0   1.5e-18   2.7e-14       2      88 ..      73     162 ..      72     163 .. 0.88

  Alignments for each domain:
  == domain 1  score: 53.0 bits;  conditional E-value: 1.5e-18
                              EEE-TT-EEE-TTSB-SEEEEEEES-EEEEEEETTS...EEEEEEE-TTEEESHHHHH.HTS--SSEEEESSTEEEEEEEHHHHHH CS
             cNMP_binding   2 rsfkagevifrqGdpadslyivlsGevrvyrlsedg..kevvlavlgpGdlfGelall.tgeprtatvvAltdsellalprddfle 84 
                              r+f+ gev+fr+G+ + ++y++ sG++++++ + d   ++  + vl + ++fGelall +g++rtat+ A+  +el+ + + d+++
  PHY93_09105|PHY93_09105  73 RKFAEGEVVFRAGEIGIGFYFIFSGTIELSHDDLDSdiNNEKFLVLEEFSYFGELALLqEGNQRTATALARNKCELVGIFKPDLDN 158
                              79***************************85555544455578899************88888**********************9 PP

                              HHHH CS
             cNMP_binding  85 llqq 88 
                              l+ +
  PHY93_09105|PHY93_09105 159 LIVR 162
                              9865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (200 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       479  (0.0267165); expected 358.6 (0.02)
Passed bias filter:                      399  (0.0222544); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.39
# Mc/sec: 1537.94
//
Query:       PHY93_09110|PHY93_09110  [L=235]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.1e-06   27.3   1.3    4.2e-06   26.3   0.0    2.3  3  TPR_1         Tetratricopeptide repeat
    2.7e-06   27.1   0.5    2.8e-05   23.9   0.0    2.7  3  TPR_2         Tetratricopeptide repeat
     0.0004   20.4   0.0     0.0018   18.3   0.0    2.2  1  TPR_8         Tetratricopeptide repeat
    0.00064   20.0   0.0     0.0013   18.9   0.0    1.6  1  TPR_12        Tetratricopeptide repeat
     0.0034   17.6   1.0      0.032   14.6   0.0    2.8  3  TPR_17        Tetratricopeptide repeat
     0.0091   15.1   0.3      0.012   14.6   0.3    1.1  1  Trp_Tyr_perm  Tryptophan/tyrosine permease family
  ------ inclusion threshold ------
       0.02   14.8   0.0       0.13   12.1   0.0    2.2  2  TPR_10        Tetratricopeptide repeat
      0.027   14.7   0.1      0.082   13.2   0.1    1.8  2  SH3_3         Bacterial SH3 domain
      0.088   13.0   0.9        0.4   11.0   0.4    2.2  2  ANAPC3        Anaphase-promoting complex, cyclosome, subunit 
       0.58    9.9   3.5        2.2    8.0   0.1    3.0  3  TPR_11        TPR repeat


Domain annotation for each model (and alignments):
>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.2       5.5   9.9e+03      11      20 ..      32      41 ..      31      43 .. 0.73
   2 !   26.3   0.0   2.4e-09   4.2e-06       4      29 ..      58      83 ..      55      84 .. 0.95
   3 ?   -2.5   0.0       3.1   5.6e+03       4      16 ..     136     148 ..     134     149 .. 0.80

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 5.5
                             HHHTT-HHHH CS
                    TPR_1 11 yfklgkydeA 20
                             ++ +++y+ A
  PHY93_09110|PHY93_09110 32 LYLKKDYKGA 41
                             5778888766 PP

  == domain 2  score: 26.3 bits;  conditional E-value: 2.4e-09
                             HHHHHHHHHHTT-HHHHHHHHHHHHH CS
                    TPR_1  4 lynlGnayfklgkydeAleyyekALe 29
                             +ynlG +y k+g+y  A  + ekA++
  PHY93_09110|PHY93_09110 58 HYNLGTVYSKMGDYPAARFHLEKAIK 83
                             9***********************97 PP

  == domain 3  score: -2.5 bits;  conditional E-value: 3.1
                              HHHHHHHHHHTT- CS
                    TPR_1   4 lynlGnayfklgk 16 
                              l  lG +++k +k
  PHY93_09110|PHY93_09110 136 LLLLGITLLKSKK 148
                              6679999999887 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.3      0.99   1.8e+03      11      23 ..      32      44 ..      30      47 .. 0.80
   2 !   23.9   0.0   1.6e-08   2.8e-05       3      29 ..      57      83 ..      55      84 .. 0.94
   3 ?   -2.2   0.0       3.6   6.5e+03       4      17 ..     136     149 ..     134     151 .. 0.80

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.99
                    TPR_2 11 yyklgdyeeAlea 23
                             +y ++dy+ A++ 
  PHY93_09110|PHY93_09110 32 LYLKKDYKGAANN 44
                             78999**999875 PP

  == domain 2  score: 23.9 bits;  conditional E-value: 1.6e-08
                    TPR_2  3 alynlGlayyklgdyeeAleafekAle 29
                              +ynlG +y k+gdy  A+ ++ekA++
  PHY93_09110|PHY93_09110 57 FHYNLGTVYSKMGDYPAARFHLEKAIK 83
                             79***********************98 PP

  == domain 3  score: -2.2 bits;  conditional E-value: 3.6
                    TPR_2   4 lynlGlayyklgdy 17 
                              l  lG  ++k++++
  PHY93_09110|PHY93_09110 136 LLLLGITLLKSKKL 149
                              67899999999875 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.0     1e-06    0.0018       4      29 ..      58      83 ..      55      84 .. 0.95

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 1e-06
                             HHHHHHHHHHTT-HHHHHHHHHHHHH CS
                    TPR_8  4 yynlgsiylklgdyeeAkeyyekale 29
                             +ynlg +y+k+gdy +A   +eka++
  PHY93_09110|PHY93_09110 58 HYNLGTVYSKMGDYPAARFHLEKAIK 83
                             79**********************97 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.0   7.5e-07    0.0013      37      72 ..      47      82 ..      36      83 .. 0.87

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 7.5e-07
                   TPR_12 37 lGpdhpltattlrnLgrlyralgryeeAlelleeal 72
                             ++++ ++ ++  +nLg++y+++g+y +A+ +le+a+
  PHY93_09110|PHY93_09110 47 QNKQQLNSSIFHYNLGTVYSKMGDYPAARFHLEKAI 82
                             567778888899**********************97 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.6   0.0   1.8e-05     0.032      11      33 ..      53      75 ..      47      76 .. 0.93
   2 ?   -3.0   0.1       7.4   1.3e+04      12      19 ..      88      95 ..      87      98 .. 0.84
   3 ?   -0.0   0.0      0.85   1.5e+03      13      29 ..     133     149 ..     128     152 .. 0.79

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 1.8e-05
                   TPR_17 11 nnadaynnLAelllknGdlmtAr 33
                             n++ +++nL+++++k Gd+  Ar
  PHY93_09110|PHY93_09110 53 NSSIFHYNLGTVYSKMGDYPAAR 75
                             7899***************9998 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 7.4
                   TPR_17 12 nadaynnL 19
                             n+ ++nnL
  PHY93_09110|PHY93_09110 88 NSSSLNNL 95
                             78999998 PP

  == domain 3  score: -0.0 bits;  conditional E-value: 0.85
                   TPR_17  13 adaynnLAelllknGdl 29 
                              +  + +L+ +llk ++l
  PHY93_09110|PHY93_09110 133 SLILLLLGITLLKSKKL 149
                              678899*****998876 PP

>> Trp_Tyr_perm  Tryptophan/tyrosine permease family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.6   0.3   6.9e-06     0.012      92     175 ..     100     183 ..      82     194 .. 0.88

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 6.9e-06
             Trp_Tyr_perm  92 yiLlvAyisggGsilselleeasgialsarlavliftlvlgalvvlstkavdrinrvllflklvafvlllalllskvksdvLls 175
                                L v  is + ++  +l+++a +i+  a  ++ ++ l+lg++++ s k++ +++ v+++++++a vl+  + l k++++v ++
  PHY93_09110|PHY93_09110 100 SQLQVDDISTSTNLPDQLMNTALTIPPAAYSSFSLILLLLGITLLKSKKLIKKTSIVFFVALILAPVLFSQGYLNKINYAVAFN 183
                              45788889***************99999*************************************************9988766 PP

>> TPR_10  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   7.5e-05      0.13       7      29 ..      60      82 ..      59      83 .. 0.94
   2 ?   -0.7   0.1      0.81   1.5e+03       3      14 ..      90     101 ..      89     103 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 7.5e-05
                   TPR_10  7 NLanalrqrgrydeAealleeal 29
                             NL+ +++++g+y +A+ +le+a+
  PHY93_09110|PHY93_09110 60 NLGTVYSKMGDYPAARFHLEKAI 82
                             9***************9999998 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.81
                   TPR_10   3 sslnNLanalrq 14 
                              sslnNL  + +q
  PHY93_09110|PHY93_09110  90 SSLNNLTYVKSQ 101
                              79****776655 PP

>> SH3_3  Bacterial SH3 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0       2.1   3.7e+03      45      54 ..      83      92 ..      78      93 .. 0.75
   2 ?   13.2   0.1   4.6e-05     0.082       3      54 ..     185     234 ..     183     235 .] 0.86

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 2.1
                    SH3_3 45 teGwvssgyl 54
                             +eG+++s+ l
  PHY93_09110|PHY93_09110 83 KEGYINSSSL 92
                             48***98765 PP

  == domain 2  score: 13.2 bits;  conditional E-value: 4.6e-05
                    SH3_3   3 lnvRsgPstssevigtlpyGekVevleetgggeWykvrtddgteGwvssgyl 54 
                              + +++gPs+     g++++G+k+++ e  +g  W+ ++ +    Gw+s++ l
  PHY93_09110|PHY93_09110 185 VPIYEGPSKIFSEKGKVKAGSKIILGEYKEG--WFYIKFPISLAGWISKDQL 234
                              56899******************99999999..****5555557***99876 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.4   0.00022       0.4      33      82 .]      32      81 ..      30      81 .. 0.94
   2 ?   -1.1   0.0       1.3   2.4e+03      61      75 ..     201     215 ..     198     220 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00022
                             HHHTT-HHHHHHHHHCTSHHHC-HHHHHHHHHHHHHTT-HHHHHHHH-SS CS
                   ANAPC3 33 lylngqykrAyellrkaklnskslgcrylfAqcllkLkkyeeAiaaLekl 82
                             lyl ++yk A + l ++k++ +s   +y ++ ++ k++ y  A+ +Lek+
  PHY93_09110|PHY93_09110 32 LYLKKDYKGAANNLLQNKQQLNSSIFHYNLGTVYSKMGDYPAARFHLEKA 81
                             89**********9999989999999**********************985 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 1.3
                              HHHHHHHHTT-HHHH CS
                   ANAPC3  61 lfAqcllkLkkyeeA 75 
                              ++A + + L++y+e+
  PHY93_09110|PHY93_09110 201 VKAGSKIILGEYKEG 215
                              67889999*****98 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   0.4      0.32   5.7e+02       3      19 ..      31      47 ..      30      47 .. 0.86
   2 ?    8.0   0.1    0.0012       2.2      30      42 .]      57      69 ..      52      69 .. 0.92
   3 ?    5.0   0.0     0.011        20       1      22 [.      62      83 ..      62      83 .. 0.90

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 0.32
                   TPR_11  3 ayyeqGkyeeAieaYkk 19
                             ++y + +y++A +++ +
  PHY93_09110|PHY93_09110 31 ELYLKKDYKGAANNLLQ 47
                             589999******99876 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.0012
                   TPR_11 30 ayynLGlayykqG 42
                             ++ynLG +y k+G
  PHY93_09110|PHY93_09110 57 FHYNLGTVYSKMG 69
                             7**********99 PP

  == domain 3  score: 5.0 bits;  conditional E-value: 0.011
                   TPR_11  1 GdayyeqGkyeeAieaYkkAlk 22
                             G +y + G+y++A  +++kA+k
  PHY93_09110|PHY93_09110 62 GTVYSKMGDYPAARFHLEKAIK 83
                             5678899*************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (235 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       772  (0.0430587); expected 358.6 (0.02)
Passed bias filter:                      493  (0.0274974); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.44u 0.20s 00:00:00.64 Elapsed: 00:00:00.36
# Mc/sec: 1975.19
//
Query:       PHY93_09115|PHY93_09115  [L=452]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.4e-50  172.2   0.0    1.8e-50  171.8   0.0    1.1  1  Aminotran_3    Aminotransferase class-III
      4e-06   26.3   0.0      1e-05   24.9   0.0    1.7  1  Aminotran_1_2  Aminotransferase class I and II
      0.006   16.7   0.1      0.013   15.6   0.1    1.5  1  KN17_SH3       KN17 SH3-like C-terminal domain


Domain annotation for each model (and alignments):
>> Aminotran_3  Aminotransferase class-III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  171.8   0.0     3e-54   1.8e-50      11     406 .]      62     450 ..      52     450 .. 0.89

  Alignments for each domain:
  == domain 1  score: 171.8 bits;  conditional E-value: 3e-54
                              EEEEEEEBTEEEETTS-EEEESSHHHHTTTT-BT-HHHHHHHHHHHTT-S---TTTCEEHHHHHHHHHHHHHCT-..S.EEEEESS CS
              Aminotran_3  11 lvitkaeGvyltdvdgkrylDlvssiavvnlGhahPkvvkavkeqaaklshvsfgaltnepalklaekllklapkgld.kvflans 95 
                              ++  +++G +++  dg+  +Dl+ +i v++lGh+hP  +ka  e+a + +++  ++l++++  +l++ l++++ k++  ++ +  s
  PHY93_09115|PHY93_09115  62 MASGRGHGPFVEMIDGSIKYDLINGIGVNLLGHSHPIYIKANLEAATSDTMMTGNLLSYQEPYELSKLLIDAVKKSHLrHFWFSCS 147
                              5667999*****************************999987777777777777***************9999987653788899* PP

                              HHHHHHHHHHHHHHHHHHTSHCTT-EEEEETTT---SSHHHHHHSS--TTTTTTCTTB..-TSEEEE-TTBGGGTB-HHHHHHHHH CS
              Aminotran_3  96 GseAvetAlKlarkyarekkatektkiiafkgafHGrtlgalsvtgskkkyktlfgpf..lpevvrlkypdeevlkeneeeeaall 179
                              Gs A+ tAlK+  +     k+    ++iaf+++f Gr  +   vt + + y+++++++  + +v++ +y+d+e++  n      +l
  PHY93_09115|PHY93_09115 148 GSFANDTALKILWQ-----KKAPNYRLIAFQKSFAGRSIAMQDVTYN-SSYREGMPNSiqVDHVPHYNYKDPENALAN------TL 221
                              ************99.....5666789*************99999999.*********988899999999997776444......59 PP

                              HHHHHHHCHTCCCEEEEEE-SCETTTTSEB--CCHHHHHHHHHHHHT-EEEEE-TTTTTTTTSSSSGGGGC..TS--SEEEE-GGG CS
              Aminotran_3 180 eelealekkkkdevaAvivEpiqgegGvvvaspeflaklrelckkhdvllivDEvqtGfGrTGklfAleha..gvspDlmtlaKal 263
                              e+l +l++k  ++ +A+ +E iqge+G+++ ++e+ +++ +++k +++ + +DEvq+ f+rT +lfA++ +  +   D++t++K+l
  PHY93_09115|PHY93_09115 222 EALDKLIEKNGNTYCALSIELIQGEAGFIFGTKEYYEGIFKWAKAKGIYIWIDEVQS-FARTHQLFAYQMFglDEYVDIVTVGKVL 306
                              99******************************************************8.*************555578********8 PP

                              GTTSS-EEEEEEHHHHTTS-TTSB--TTTT-HHHHHHHHHHHHHHHHTTHHH...HHHHHHHHHHHHHHHHCTT-..TTEEEEEEE CS
              Aminotran_3 264 tgGlplsavlataevmqalapgshgsTfgGnplacavalavleiieeeklle...naqelgaalkegLeelqkky..evikevRgk 344
                               +      ++ t+e++   +pg  ++Tf G    + +  a+++ + e ++     +++e++++++++ ++l++ +    i  + g+
  PHY93_09115|PHY93_09115 307 QA----CGTFYTEELNP--KPGLIAGTFNGSVASMNAGKAIVRYLTEGNFYGengRIKEIEEKFNAQFKKLSEGSckGKIPYYGGV 386
                              65....34444555543..447788**********************8886422268999***********998865678888899 PP

                              TTEEEEEEBCCCETTCHHHHHHHHHCTEE-EEETT..TEEEE---TT--HHHHHHHHHHHHHHH CS
              Aminotran_3 345 GlmiaielkeeaevkekeilkkakekGvlilsaGd..nvirllppliitdeeidelleilkkal 406
                              G+m+++e+ ++++ ++++++kk+ e+G+++ saG+  + +r+l pl   de+i+e+++il+k++
  PHY93_09115|PHY93_09115 387 GTMLSFEVGNASNDTTNKFMKKLFENGIITFSAGKepTRVRFLLPLSLLDEHIQEIFSILEKTI 450
                              ************99999*****************98888*********************9986 PP

>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.9   0.0   1.7e-09     1e-05      84     346 ..     169     428 ..      86     442 .. 0.74

  Alignments for each domain:
  == domain 1  score: 24.9 bits;  conditional E-value: 1.7e-09
                              HHHHHHHTTT-EEEEEESS-TH.....HHHHHHHTTSEEEEEEBEETTTTEE-HHHHHHHHTTHHCTTETEEEEEEESS-TTT--B CS
            Aminotran_1_2  84 lifllklnpgdeilvpdptyas.....yknilrlsggevvryplyseedfhldlealeealkeapegnkktkvilvesphNPtGtv 164
                              li++ k ++g+ i + d ty s     + n ++  +++ + y+ ++e+   ++leal++++++   gn   + + +e ++   G +
  PHY93_09115|PHY93_09115 169 LIAFQKSFAGRSIAMQDVTYNSsyregMPNSIQVDHVPHYNYK-DPENALANTLEALDKLIEK--NGNT-YCALSIELIQGEAGFI 250
                              33444499************76333335556666666666666.5668899999999999999..3444.79************** PP

                              -.-HHHHHHHHHHHHHTTEEEEEEETTTTCBSSSSHTHHHHGGSTTSTTEEEEEESSSTTSSGGG-EEEEEEEHHHHHHHHHHHHH CS
            Aminotran_1_2 165 a.tleeleklldlakkynlllfvDeaYagfvfgsldavatranveeepnllivgslsKafGlaGeRvGyilgnaavvsqlrklsrp 249
                              + t+e +e + + ak++++++ +De+ + f+ +++ ++ + ++++e+++     +++K + + G     +++++++      ++ +
  PHY93_09115|PHY93_09115 251 FgTKEYYEGIFKWAKAKGIYIWIDEV-QSFARTHQLFAYQMFGLDEYVD---IVTVGKVLQACG-----TFYTEELNPKPGLIAGT 327
                              955666799****************9.8888887766666*********...66889*******.....88999999999999999 PP

                              HTS...SHHHHHHHHHHHHHHHHHHH..HHHHHHHHHHHHHHHHHHHHHHSTEEEECCSCSSEEEEEETHH..CHHHHHHHHHHTC CS
            Aminotran_1_2 250 fls...ssllqaavaaalsdallkqs..eleemrqrlqkrrkelrdeLaelglkvlasqsgmflltdlsae..takelskkLleev 328
                              f+    s  + +a++  l   +++ +  +++e  ++++++ k+l ++  +  +++++  ++m+++ +++a+  t +++ kkL e+ 
  PHY93_09115|PHY93_09115 328 FNGsvaSMNAGKAIVRYLTEGNFYGEngRIKEIEEKFNAQFKKLSEGSCKGKIPYYGGVGTMLSFEVGNASndTTNKFMKKLFENG 413
                              999666666666777777777777666666666666666666666665444********************999***********6 PP

                              TEEEEEGGGGTSTTEEEE CS
            Aminotran_1_2 329 gvyvtpgtsftvpgrlRi 346
                               +  ++g+++t   r+R+
  PHY93_09115|PHY93_09115 414 IITFSAGKEPT---RVRF 428
                              66667766666...5555 PP

>> KN17_SH3  KN17 SH3-like C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.1   2.2e-06     0.013      15      48 ..     341     374 ..     338     376 .. 0.89

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 2.2e-06
                 KN17_SH3  15 iskklgdGkyykkKgvvekvedeyvAevklldsg 48 
                              i + l +G++y + g+++++e+++ A+ k l++g
  PHY93_09115|PHY93_09115 341 IVRYLTEGNFYGENGRIKEIEEKFNAQFKKLSEG 374
                              566799*********************9999887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (452 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       506  (0.0282224); expected 358.6 (0.02)
Passed bias filter:                      433  (0.0241508); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.37
# Mc/sec: 3623.33
//
Query:       PHY93_09120|PHY93_09120  [L=341]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.3e-96  320.3   0.0    1.1e-95  320.0   0.0    1.0  1  AstA      Arginine N-succinyltransferase beta subunit


Domain annotation for each model (and alignments):
>> AstA  Arginine N-succinyltransferase beta subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  320.0   0.0  6.3e-100   1.1e-95       1     330 [.       1     335 [.       1     339 [. 0.96

  Alignments for each domain:
  == domain 1  score: 320.0 bits;  conditional E-value: 6.3e-100
                     AstA   1 MlviRparesDldallelaeesgvgltsLpadeeaLekkiarsersfakeveepgeesYlfvledtetgevvGtsaieaavGlee. 85 
                              M+++R+a  +Dld+l+el++     +++Lp+d++++e+ki++s ++f+k  ++  e+ Ylfvled++ ++++G s+i+a++G+e+ 
  PHY93_09120|PHY93_09120   1 MYTLRSASLADLDDLYELSQLM--LFINLPPDRHIIETKIESSIKTFTKPSKHLWENYYLFVLEDVKAKRIIGASMIHAQHGTEDe 84 
                              99******************97..9**********************************************************988 PP

                     AstA  86 pfysyrvstlvhaSrelgvknrievLtlsndltgaselctlfldpeyrkgg..lgrllsrsRflfiaehrerFaekviaelrGvld 169
                              p+y++ vs++++ Sr+l++ + + +L+l  d++g++e+++l+l+pe+rk+g  lg++ls++Rfl++ ++++rF+e++++el++++d
  PHY93_09120|PHY93_09120  85 PHYYFSVSQENKFSRTLNTGFIHGTLKLGLDTNGPTEIGGLILNPEFRKSGkkLGKQLSYVRFLYMGMNKKRFKENIHSELMPPFD 170
                              ************************************************99888********************************* PP

                     AstA 170 edGrspFWealgrhFfsmdFaeadrlsgigskefiaeLmPkypiyvslLseeAqaviGkvhektrpalklLekeGfryegyvDiFD 255
                              ++G++p+Wea+gr+F++m++++ad ls +++kefi +L+P  +iy++lL+ eA++++Gkv e+t+p+ k+Le+ Gf+y++ vD+FD
  PHY93_09120|PHY93_09120 171 SEGHAPLWEAIGRRFLNMEYHDADILS-RSNKEFILNLFPADTIYLTLLPIEARNAVGKVGEETTPVKKMLESIGFKYTNEVDPFD 255
                              ***************************.********************************************************** PP

                     AstA 256 aGPtleaeldeirsvresrrlkvk.keeeeeeegekllvantkle.dFravlaeleleeee...lvlsaeaaeaLevseg 330
                              +GP+++a++++i+ ++e+ +++v  +++  ++++ ++l +  +++  F+a+l++ +l++++   +++++e+a+ L+++e+
  PHY93_09120|PHY93_09120 256 GGPHYRANMKDIKPIKEMFECEVLiRDSIIKSDKISILASLPTVDgGFKAALISGNLNKGSnsrFIIDPEEAKILGLKED 335
                              ************************66666666666666666555569********999988889************9975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (341 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       266  (0.0148363); expected 358.6 (0.02)
Passed bias filter:                      253  (0.0141112); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.18s 00:00:00.63 Elapsed: 00:00:00.35
# Mc/sec: 2891.22
//
Query:       PHY93_09125|PHY93_09125  [L=504]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     6e-117  391.0   0.0   7.7e-117  390.6   0.0    1.0  1  Aldedh    Aldehyde dehydrogenase family


Domain annotation for each model (and alignments):
>> Aldedh  Aldehyde dehydrogenase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  390.6   0.0  4.3e-121  7.7e-117       9     447 ..      29     472 ..      22     485 .. 0.93

  Alignments for each domain:
  == domain 1  score: 390.6 bits;  conditional E-value: 4.3e-121
                              EEEEETTTCEEEEEEE-B-HHHHHHHHHHHHHHHHHHTTS-HHHHHHHHHHHHHHHHHTHHHHHHHHHHHH---HHHHHHHHHHHH CS
                   Aldedh   9 ievinPatgeviakvpaataedvdaavaaAkeafkawaklpaeeRaeiLrkaadlleerkeelaeletletGkplaearaeveeai 94 
                              i+  +Pa+ +++   +  +  dvd++v++A+  fk+w+kl+ ++R + L+k ++ +++rk+e+a +++ etGkpl+ea++e +++i
  PHY93_09125|PHY93_09125  29 IKRSCPADLSILLWETPVDYRDVDRVVESANTGFKTWKKLTQKDRNDFLKKYQEEVAKRKDEIALAIAYETGKPLWEAKTEAASVI 114
                              67778888888888888999****************************************************************** PP

                              HHHHHHHHH.HHHHSEEEEEE.CTTEEEEEEEEE-SEEEEEE-SSSCCHHHHHHHHHHHHTT-EEEEEE-TTSHHHHHHHHHHHHH CS
                   Aldedh  95 dvlryyael.aeklegevlps.segklalvrrePlGvvgaItPWNfPlllaawklapalaaGNtvvlKPaeetplsalllaelfee 178
                                ++ ++e  + +++ + +++  +++   ++++P+G  ++I P+NfP++la ++++ alaaGN++v+KP+e+t  sa ll+e+f++
  PHY93_09125|PHY93_09125 115 GKVNVTIEDsLPRIANKEIENiMPKTSGHIYYKPIGPALIIGPFNFPCHLANGQILSALAAGNSIVFKPSEKTCYSAQLLIECFHA 200
                              ****99987477799977777689************************************************************** PP

                              TTS-TTSEEE--SSTCCHHHHHHH-TTESEEEEES-HHHHHHHHHHHH.CTTSEEEEEE---EEEEE-TTSHHHHHHHHHHHHHHG CS
                   Aldedh 179 aglPkgvlnvvtgsgsevgealvehpevdkvsftGstevgrkiakaaa.knlkrvtlElGGknplivledaDldkaveaivkgafg 263
                              ag+P+gv+n+++g+g ev++ l++++++++v ftGs evg+ki++  + +  k v+lElGGkn++i ++da+ d+a+++++k++f+
  PHY93_09125|PHY93_09125 201 AGFPNGVVNLLQGDG-EVARRLLKEKSLKAVFFTGSKEVGKKILEITHhDLSKLVSLELGGKNTTILHDDANPDHALQELLKACFL 285
                              *************77.79****************************662666889******************************* PP

                              GGGTSTTSEEEEEEEHHHHHHHHHHHHHHHHT--BS-TTS..TT-SB---SSHHHHHHHHHHHHHHHHTTSEEEE-TTE.SB-SSS CS
                   Aldedh 264 naGQvCiaasrllvqesiydefveklveaakklkvgdpld..edtdvGPliseaqlekvekyveeakeegaklllGgereeaglek 347
                              ++GQ+C+++s + +q++i+++f++++ e  kk+ + +p +  ++  +GPli++ +++++  ++  ak eg++ ++ g+ + ++ +k
  PHY93_09125|PHY93_09125 286 TTGQRCTSTSIVAIQRNIHEKFIARFHEMSKKIIIDHPVEyaREPFMGPLIDQGAVDSYLLFMGMAKREGIQEIMRGK-HIEKAKK 370
                              *************************************95533899******************************884.468899* PP

                              TTEE--EE..EES-TTTSHHHHS---SSEEEEEEESSHHHHHHHHHSSSEESEEEEE-SBHHHHHHHHHHS-SSEEEESSSST--T CS
                   Aldedh 348 gyfvePtv..lanvtpdmriaqeEiFGPVlsvikfkdeeeaieiaNdteyGLaagvftkdleraervaerleaGnvyiNdsttgaa 431
                              g++v+P +   ++ ++d+  +++EiFGP ++ i++++++eai+iaN+teyGLaa++ftkd + ++ ++e+++ G v++N+st+ga 
  PHY93_09125|PHY93_09125 371 GHYVSPSIhlAEKWNNDSMFLHSEIFGPNVTFIPYDTIDEAIKIANATEYGLAASIFTKDASIYKLCVEEIDSGLVNFNRSTVGAS 456
                              ******993346799******************************************************************99999 PP

                              TTSEB--CGGGEES-B CS
                   Aldedh 432 ealpfgGvkqSglGre 447
                                lpfgGvk+Sg+ r 
  PHY93_09125|PHY93_09125 457 AKLPFGGVKNSGNYRP 472
                              99**********8765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (504 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       687  (0.0383178); expected 358.6 (0.02)
Passed bias filter:                      629  (0.0350828); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.65u 0.22s 00:00:00.87 Elapsed: 00:00:00.41
# Mc/sec: 3722.00
//
Query:       PHY93_09130|PHY93_09130  [L=65]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (65 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       302  (0.0168442); expected 358.6 (0.02)
Passed bias filter:                      259  (0.0144459); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.22s 00:00:00.60 Elapsed: 00:00:00.39
# Mc/sec: 497.68
//
Query:       PHY93_16660|PHY93_16660  [L=202]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
  ------ inclusion threshold ------
      0.043   14.2   0.1         10    6.5   0.0    2.4  2  Uteroglobin  Uteroglobin family


Domain annotation for each model (and alignments):
>> Uteroglobin  Uteroglobin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.5   0.0   0.00058        10       1      20 [.       1      20 [.       1      58 [. 0.77
   2 ?    5.4   0.0    0.0013        23      33      83 ..      77     124 ..      69     127 .. 0.76

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.00058
                             XXXXXXXXXXXXXXXXXXXX CS
              Uteroglobin  1 MklavvllLvalaLccyags 20
                             Mkl+  l+L+ l++c ++ +
  PHY93_16660|PHY93_16660  1 MKLSKLLCLAFLVVCFSSCN 20
                             9**************99877 PP

  == domain 2  score: 5.4 bits;  conditional E-value: 0.0013
                              HHHHS-HHHHHHHHHTT---HHHHHHHHHHHHHHTTS-HHHHHHHHHHHHH CS
              Uteroglobin  33 kflegseeeYkeeLqkynpdpeaeealaelKqcvdklsnetkenvakllek 83 
                                ++ +  +Y+e ++     + a++  +el+ c ++l+ne  + v++ ++ 
  PHY93_16660|PHY93_16660  77 IWINRTALDYNERMA---MRQYARAEQDELRVCSLDLKNEASKVVTESMNS 124
                              555555556666665...5677888899**************999999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (202 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       584  (0.0325729); expected 358.6 (0.02)
Passed bias filter:                      444  (0.0247643); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.18s 00:00:00.64 Elapsed: 00:00:00.37
# Mc/sec: 1646.49
//
Query:       PHY93_09135|PHY93_09135  [L=183]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0046   16.8   3.6     0.0056   16.5   3.6    1.2  1  SpoIIIAH  SpoIIIAH-like protein
  ------ inclusion threshold ------
      0.041   13.7   0.4       0.15   11.9   0.2    1.9  2  DUF5399   Family of unknown function (DUF5399)
       0.17   12.5   2.2       0.24   12.0   2.2    1.2  1  DUF3800   Protein of unknown function (DUF3800)


Domain annotation for each model (and alignments):
>> SpoIIIAH  SpoIIIAH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   3.6   9.3e-07    0.0056      56     145 ..      84     173 ..      33     177 .. 0.76

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 9.3e-07
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXX...XXXXXXXXXXX--HHHHHHHHHHHHHHHHHHHHHHHHT-TTS-HHHHHHHHHH CS
                 SpoIIIAH  56 aasaeaesssetesesseksdiassdedeadeltsetasaaasasdyfaeakleReqkrsknketLqeiinnenlseeekqeAqqq 141
                              +   ++e+ s+ ++ + +  +++s+++++++e+ + + ++++s+  ++++a+l+R q+  k+ke +    +n+ ++ e+ ++  ++
  PHY93_09135|PHY93_09135  84 EVLGASEEVSSLSTMAFAGLEAKSESKKPQEEVVGHKDNENMSSFILIEKARLKRSQQILKQKEIIDLYQKNSHIDVEQVKSSNNN 169
                              44444444444444445555666666777777889999999999**************************************9999 PP

                              HHHH CS
                 SpoIIIAH 142 llel 145
                              l + 
  PHY93_09135|PHY93_09135 170 LAQA 173
                              9886 PP

>> DUF5399  Family of unknown function (DUF5399)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.0      0.18   1.1e+03      29      57 ..      59      87 ..      41      96 .. 0.61
   2 ?   11.9   0.2   2.5e-05      0.15      26      54 ..     132     160 ..     119     172 .. 0.87

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 0.18
                  DUF5399 29 rleeAasIakqtqiidvtpklseldlllg 57
                             ++++A + + q++i+   +++ e + +lg
  PHY93_09135|PHY93_09135 59 EIHDAHNQSTQAKILPFKKPMVESEEVLG 87
                             23456667777777777777766666665 PP

  == domain 2  score: 11.9 bits;  conditional E-value: 2.5e-05
                  DUF5399  26 kelrleeAasIakqtqiidvtpklseldl 54 
                              ++ rl+   +I kq +iid+++k s++d+
  PHY93_09135|PHY93_09135 132 EKARLKRSQQILKQKEIIDLYQKNSHIDV 160
                              67899999******************995 PP

>> DUF3800  Protein of unknown function (DUF3800)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   2.2     4e-05      0.24      30     111 ..      65     175 ..      17     178 .. 0.50

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 4e-05
                  DUF3800  30 ikkleekikelkkky.................krlleriakflkkndlik........sdeesdesilivldk..kkkkekakkel 88 
                               +++++ki  +kk +                 ++ +  ++ + +++   k        +d+e+ +s++++ +   k  +++++ + 
  PHY93_09135|PHY93_09135  65 NQSTQAKILPFKKPMveseevlgaseevsslsTMAFAGLEAKSESK---KpqeevvghKDNENMSSFILIEKArlK--RSQQILKQ 145
                              4444444444444446666666666665333322222222222222...144556664444444444444444341..33222222 PP

                  DUF3800  89 .eilld.......esvkfvdSkesrglQlAD 111
                               ei+ d       ++v++v+S ++++ Q+ D
  PHY93_09135|PHY93_09135 146 kEII-DlyqknshIDVEQVKSSNNNLAQALD 175
                              3222.12234566****************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (183 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       852  (0.0475208); expected 358.6 (0.02)
Passed bias filter:                      327  (0.0182386); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.38u 0.20s 00:00:00.58 Elapsed: 00:00:00.34
# Mc/sec: 1625.06
//
Query:       PHY93_09145|PHY93_09145  [L=174]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
       0.13   12.4   0.3        4.4    7.5   0.0    2.5  2  Phage_head_chap  Head assembly gene product


Domain annotation for each model (and alignments):
>> Phage_head_chap  Head assembly gene product
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   0.0   0.00024       4.4      10      38 ..      83     111 ..      78     133 .. 0.89
   2 ?    2.5   0.1    0.0089   1.6e+02      11      32 ..     145     166 ..     140     169 .. 0.83

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.00024
          Phage_head_chap  10 edGekhlvYiheleyddgklkvdfstpse 38 
                              +d+ +hlv i  ++ +dg   ++++  se
  PHY93_09145|PHY93_09145  83 DDDDSHLVPIVTIQNKDGSPGYEYALGSE 111
                              5999**************99999876665 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.0089
          Phage_head_chap  11 dGekhlvYiheleyddgklkvd 32 
                              + ++ l Yi ++++++g +k++
  PHY93_09145|PHY93_09145 145 QNNNSLWYIDQIKTQNGYWKME 166
                              5566689***********9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (174 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       518  (0.0288917); expected 358.6 (0.02)
Passed bias filter:                      306  (0.0170673); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.19s 00:00:00.58 Elapsed: 00:00:00.35
# Mc/sec: 1494.90
//
Query:       PHY93_09150|PHY93_09150  [L=241]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.5e-10   40.0   0.0    3.8e-10   39.4   0.0    1.2  1  SLT              Transglycosylase SLT domain
  ------ inclusion threshold ------
      0.058   13.4   0.0      0.077   13.0   0.0    1.3  1  Phage_lysozyme2  Phage tail lysozyme


Domain annotation for each model (and alignments):
>> SLT  Transglycosylase SLT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.4   0.0   4.3e-14   3.8e-10      12      94 ..     109     209 ..     103     225 .. 0.88

  Alignments for each domain:
  == domain 1  score: 39.4 bits;  conditional E-value: 4.3e-14
                              S-HHHHHHHHHHHHTT-TT-B-....TTSEBTTTTBETTTHHHHHHHHT........-SHHHHCSHHHHHHHHHHHHHHHHHTTTT CS
                      SLT  12 vepsllaaiaqvESgfnpkAvs....ksgavGLmQimpstakrlglrvk........lsedelldPeknisagakyLkslykqyng 85 
                              ++p+l++a+++ ESgfnp        ++ a GL Q+++ t k lg + +        l++++l dP+ ni ag++ L +  k  +g
  PHY93_09150|PHY93_09150 109 LDPNLIKALIASESGFNPLELAdkknSNSARGLTQVTNDTRKILGNEKGelkdhyltLTKKNLNDPNINIAAGVRWLFQKKKLAEG 194
                              79****************98876554555****************9888999****9********************999888888 PP

                              ......HHHHHHHHH CS
                      SLT  86 ......slllalaAY 94 
                                    s+++a+a Y
  PHY93_09150|PHY93_09150 195 qlgrsvSWIEAVAKY 209
                              888888888888877 PP

>> Phage_lysozyme2  Phage tail lysozyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   8.5e-06     0.077      26      61 ..     117     158 ..     114     227 .. 0.72

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 8.5e-06
          Phage_lysozyme2  26 niqqEsgfnpgavesalskggggyGlvQWtgsrrt.......a 61 
                               i +Esgfnp     ++++++++ Gl Q t+++r+       +
  PHY93_09150|PHY93_09150 117 LIASESGFNPLELA-DKKNSNSARGLTQVTNDTRKilgnekgE 158
                              5889******9998.899************9999844444443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (241 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       383  (0.021362); expected 358.6 (0.02)
Passed bias filter:                      344  (0.0191868); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.19s 00:00:00.63 Elapsed: 00:00:00.37
# Mc/sec: 1950.39
//
Query:       PHY93_09155|PHY93_09155  [L=104]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (104 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1211  (0.0675442); expected 358.6 (0.02)
Passed bias filter:                      560  (0.0312343); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 797.61
//
Query:       PHY93_09160|PHY93_09160  [L=145]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.5e-09   36.6   0.1    8.6e-09   36.0   0.1    1.2  1  Bro-N     BRO family, N-terminal domain
  ------ inclusion threshold ------
      0.056   13.6   1.0      0.099   12.8   1.0    1.4  1  ArnB_C    Archaellum regulatory network B, C-terminal domain


Domain annotation for each model (and alignments):
>> Bro-N  BRO family, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.0   0.1   9.6e-13   8.6e-09       5      86 ..      20     110 ..      16     116 .. 0.77

  Alignments for each domain:
  == domain 1  score: 36.0 bits;  conditional E-value: 9.6e-13
                    Bro-N   5 vtdengepwfvakdvakiLgysnpskaikkhvdkdnkkkleelvstek.........esgksgqqkt..vfinesglyeLilrsrk 79 
                               ++ n ++w++ +d++ +Lgy+++ k++ ++++k+  ++ +  v+ ++         ++g++ ++++  ++++++++y +++++++
  PHY93_09160|PHY93_09160  20 MEESNTNYWYA-RDLMTLLGYEQW-KNFINVIEKAITSCNNAGVDSQNhfadvskmvDIGSGSKREVadIMLTRYACYLIAQNGDS 103
                              44556666666.************.88889999999988877665555677677787666666666577***************** PP

                    Bro-N  80 pkakefk 86 
                              +k + + 
  PHY93_09160|PHY93_09160 104 RKNEIAF 110
                              *998765 PP

>> ArnB_C  Archaellum regulatory network B, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   1.0   1.1e-05     0.099      38      67 ..     115     141 ..     102     145 .] 0.83

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 1.1e-05
                              HHHHHT-HHHHHHHTT--S-HHH....... CS
                   ArnB_C  38 iAeqTrrieliEaTrrLsrdlesteklske 67 
                               A qTr++e iE+  +L++ l++    +k 
  PHY93_09160|PHY93_09160 115 FAVQTRKQEIIEEHIELQERLKA---RQKL 141
                              689*******************9...3333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (145 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       901  (0.0502538); expected 358.6 (0.02)
Passed bias filter:                      373  (0.0208043); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.37u 0.22s 00:00:00.59 Elapsed: 00:00:00.35
# Mc/sec: 1238.73
//
Query:       PHY93_09165|PHY93_09165  [L=333]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (333 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       962  (0.0536561); expected 358.6 (0.02)
Passed bias filter:                      639  (0.0356406); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.55u 0.20s 00:00:00.75 Elapsed: 00:00:00.39
# Mc/sec: 2568.69
//
Query:       PHY93_09170|PHY93_09170  [L=201]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.1e-08   34.2   1.4    3.7e-08   32.5   1.4    2.0  1  TGase_elicitor  Transglutaminase elicitor


Domain annotation for each model (and alignments):
>> TGase_elicitor  Transglutaminase elicitor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.5   1.4   2.1e-12   3.7e-08      19     140 ..      70     196 ..      60     201 .] 0.67

  Alignments for each domain:
  == domain 1  score: 32.5 bits;  conditional E-value: 2.1e-12
           TGase_elicitor  19 klkt....savaeelPWpgsyWptykdsinvkwkkgepsaaekyatafgl.dvkelmdkvsksnGvd.skssrkkCssdadCeslk 98 
                              ++++    + +++++PW+ syWp y+ ++  ++++ ++   + +  a++  +++  ++ + k+n  + s s++ +       e+l+
  PHY93_09170|PHY93_09170  70 EMEErqllTKNVSKAPWSDSYWPLYEGTLGNRYNDSNMRFGD-WKDAYDYiKAHPAKELIRKKNFNHlSPSEKYDLLLGLGAENLT 154
                              444333334456789*******************99876554.5666665144445555555554332555566666666777777 PP

           TGase_elicitor  99 dgsvCakregessGyCiptWfgichawapaalleeePrCave 140
                              ++s        ++   + tW+g+ch w++aa++ ++P+  v+
  PHY93_09170|PHY93_09170 155 KSSWAEGEVYYKEYGKVETWMGLCHGWSAAAMMMPNPEKRVD 196
                              766654444444444699*******************98876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (201 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       552  (0.0307881); expected 358.6 (0.02)
Passed bias filter:                      461  (0.0257125); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 1491.85
//
Query:       PHY93_09175|PHY93_09175  [L=94]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.4e-23   82.8   3.2    1.9e-23   82.4   3.2    1.2  1  DUF2905   Protein of unknown function (DUF2905)


Domain annotation for each model (and alignments):
>> DUF2905  Protein of unknown function (DUF2905)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   82.4   3.2   1.1e-27   1.9e-23       1      63 []      31      94 .]      31      94 .] 0.95

  Alignments for each domain:
  == domain 1  score: 82.4 bits;  conditional E-value: 1.1e-27
                  DUF2905  1 gklLivlglvlvvlgllllllakl.glGrLPGDirierenftfyfPlttsillSlllslllnll 63
                             +k+Li +g +l+++gl++++ +   +lGrLPGDirie en++fyfP+tts+++S++lsll++l+
  PHY93_09175|PHY93_09175 31 AKFLIGFGSLLIICGLIWYVTGGKiPLGRLPGDIRIESENTKFYFPITTSLIVSAILSLLAYLF 94
                             599*****************976668************************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (94 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       542  (0.0302304); expected 358.6 (0.02)
Passed bias filter:                      307  (0.0171231); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.38u 0.20s 00:00:00.58 Elapsed: 00:00:00.36
# Mc/sec: 778.94
//
Query:       PHY93_09180|PHY93_09180  [L=233]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.7e-31  108.5   0.0      5e-31  108.0   0.0    1.2  1  ABC_tran      ABC transporter
    1.8e-06   28.0   0.0    3.2e-06   27.1   0.0    1.4  1  RsgA_GTPase   RsgA GTPase
    1.2e-05   24.8   0.0      0.049   13.1   0.0    2.2  2  SMC_N         RecF/RecN/SMC N terminal domain
    0.00063   19.4   0.1     0.0012   18.6   0.1    1.4  1  AAA_29        P-loop containing region of AAA domain
    0.00087   19.2   1.3     0.0033   17.3   0.8    2.0  2  AAA_21        AAA domain, putative AbiEii toxin, Type IV TA s
     0.0017   18.9   0.0     0.0031   18.0   0.0    1.3  1  AAA_23        AAA domain
     0.0028   18.1   0.3     0.0056   17.1   0.3    1.7  1  AAA_16        AAA ATPase domain
     0.0081   15.9   0.0      0.046   13.4   0.0    2.0  2  IstB_IS21     IstB-like ATP binding protein
     0.0083   16.1   0.0      0.058   13.3   0.0    2.0  2  Rad17         Rad17 P-loop domain
  ------ inclusion threshold ------
      0.015   15.2   0.0      0.024   14.5   0.0    1.4  1  ATPase_2      ATPase domain predominantly from Archaea
      0.017   15.4   0.0      0.057   13.7   0.0    1.8  2  AAA_28        AAA domain
      0.022   14.8   0.5      0.063   13.4   0.5    2.0  1  MMR_HSR1      50S ribosome-binding GTPase
      0.025   15.1   0.0      0.041   14.4   0.0    1.4  1  AAA_18        AAA domain
      0.032   14.5   0.1      0.053   13.8   0.1    1.7  1  AAA_22        AAA domain
      0.042   14.0   0.0      0.076   13.2   0.0    1.6  2  AAA_33        AAA domain
      0.042   12.9   0.0      0.078   12.0   0.0    1.4  1  T2SSE         Type II/IV secretion system protein
      0.047   13.4   0.0      0.085   12.6   0.0    1.7  1  AAA_30        AAA domain
       0.05   13.7   0.2      0.076   13.1   0.2    1.5  1  Dynamin_N     Dynamin family
      0.083   12.6   0.0       0.12   12.1   0.0    1.3  1  AAA_15        AAA ATPase domain
      0.096   12.6   0.3       0.21   11.5   0.1    1.6  2  NACHT         NACHT domain
        0.1   12.2   0.2       0.54    9.8   0.0    2.0  2  AAA_25        AAA domain
       0.16   11.1   0.0       0.16   11.1   0.0    1.2  1  G-alpha       G-protein alpha subunit
       0.16   11.7   0.0       0.26   11.0   0.0    1.3  1  VirE          Virulence-associated protein E
       0.18   12.2   0.0       0.33   11.3   0.0    1.6  1  RNA_helicase  RNA helicase


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  108.0   0.0   6.7e-34     5e-31       1     136 [.      25     168 ..      25     169 .. 0.87

  Alignments for each domain:
  == domain 1  score: 108.0 bits;  conditional E-value: 6.7e-34
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG....B-HHHCCHCEEEE-SS--S-TTSBHHHH... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxx... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke....qeleslrkeigvlpqepqlfpeltvren... 79 
                              l+ ++l+l  +e+v+++G++G+GKStLl++l gl +p +Ge+ +++++l +    + +++ r ++g+++q  +l + lt++en   
  PHY93_09180|PHY93_09180  25 LRGLDLELFDNEVVVLLGPSGSGKSTLLNILGGLDNPSSGEVFYKDHNLVTstakELTQFRRDHVGFVFQFYNLISSLTAEENvql 110
                              567899***************************************999988899777788899*********************** PP

                              ..HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              ..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ..esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                                + ++++ + ++ l+l++l  +   + ps+LSgG++qr+a+ara++k+p++ll+DEpt
  PHY93_09180|PHY93_09180 111 itDISKNPFTPMEALELVGLSPRAT-HFPSQLSGGEQQRIAIARAVAKRPDILLCDEPT 168
                              9955566555555555555444443.557*****************************9 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.1   0.0   4.3e-09   3.2e-06      87     150 ..      22      85 ..       4      92 .. 0.73

  Alignments for each domain:
  == domain 1  score: 27.1 bits;  conditional E-value: 4.3e-09
                              HTTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT-----S--------------SEEEEEET CS
              RsgA_GTPase  87 kegleelkellkd.ktsvlvGqSGvGKStLinallpelelktgevseklgrGkhTTtavellela 150
                               ++l+ l  +l d +++vl+G+SG GKStL+n l + ++ + gev  k+++   T+ta el ++ 
  PHY93_09180|PHY93_09180  22 VQALRGLDLELFDnEVVVLLGPSGSGKSTLLNILGGLDNPSSGEVFYKDHN-LVTSTAKELTQFR 85 
                              34555565555444*********************9999999999876544.5677777777665 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.0   0.0   0.00055      0.41      20      42 ..      31      53 ..      16      58 .. 0.81
   2 !   13.1   0.0   6.6e-05     0.049     133     211 ..     137     213 ..      67     219 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.00055
                             EETTSSEEEEEESTTSSHHHHHH CS
                             xxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 20 lpfsksftaivGpNGSGKsnlld 42
                               f++++ +++Gp GSGKs ll+
  PHY93_09180|PHY93_09180 31 ELFDNEVVVLLGPSGSGKSTLLN 53
                             568999*************9975 PP

  == domain 2  score: 13.1 bits;  conditional E-value: 6.6e-05
                              STTCS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHH.HHHHHHHCTT.SEEEEE-SSHHHCCC-SCEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 133 skelLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkv.aellkekskn.aQfivislreemlekadklvgv 211
                               +++LSgGe++ +a+a  +A    k+  + l De   aLD +  k+v a +l+ +++  + + vi++++ +   ad+++ +
  PHY93_09180|PHY93_09180 137 FPSQLSGGEQQRIAIARAVA----KRPDILLCDEPTGALDVQTGKQVlAAILRVNQELgTLVCVITHNAAIAGLADRVIHL 213
                              4569*******999886644....45558899********99877761555564443347888999999999999998875 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.1   1.6e-06    0.0012      21      39 ..      34      52 ..      23      58 .. 0.82

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 1.6e-06
                   AAA_29 21 lkgatlltGpsGsGKSTll 39
                              +++++l GpsGsGKSTll
  PHY93_09180|PHY93_09180 34 DNEVVVLLGPSGSGKSTLL 52
                             355899************8 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   0.8   4.4e-06    0.0033       1      36 [.      37      61 ..      37      82 .. 0.77
   2 ?   -0.5   0.0       1.1   8.3e+02     236     278 ..     140     183 ..     109     203 .. 0.71

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 4.4e-06
                   AAA_21  1 lnvliGpNgsGKSnLLdaldllarldrdvegltdel 36
                             + vl Gp gsGKS+LL +l +l           d++
  PHY93_09180|PHY93_09180 37 VVVLLGPSGSGKSTLLNILGGL-----------DNP 61
                             579****************888...........344 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 1.1
                   AAA_21 236 elSdGtkrllalltallralkkgsllliDEpEngLHP....kllrrl 278
                              +lS G ++ +a++ a++ ++   ++ll DEp   L+     ++l+ +
  PHY93_09180|PHY93_09180 140 QLSGGEQQRIAIARAVAKRP---DILLCDEPTGALDVqtgkQVLAAI 183
                              67778777767777777666...999999998888874444333444 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.0   4.2e-06    0.0031      11      39 ..      26      55 ..      13      58 .. 0.85

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 4.2e-06
                   AAA_23 11 rdqeidF.skgltlItGpNGaGKTTildAi 39
                             r+ ++++ ++ ++++ Gp G+GK+T+l+ +
  PHY93_09180|PHY93_09180 26 RGLDLELfDNEVVVLLGPSGSGKSTLLNIL 55
                             5566666699*****************865 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.3   7.5e-06    0.0056      22      45 ..      35      56 ..      19     201 .. 0.65

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 7.5e-06
                   AAA_16 22 grpelvllsGesGvGKsslvrell 45
                             +  e+v+l G+sG+GKs+l++ l 
  PHY93_09180|PHY93_09180 35 N--EVVVLLGPSGSGKSTLLNILG 56
                             3..79***************7654 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.4   0.0   6.2e-05     0.046      33      69 ..      20      57 ..       6      89 .. 0.78
   2 ?   -0.0   0.0      0.86   6.4e+02     132     170 ..     182     209 ..     141     216 .. 0.49

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 6.2e-05
                IstB_IS21 33 rkvkeLatlsf.iekkenivllGpsGvGKshlaialgv 69
                              +v++L++l+  + ++e +vllGpsG GKs l   lg 
  PHY93_09180|PHY93_09180 20 LEVQALRGLDLeLFDNEVVVLLGPSGSGKSTLLNILGG 57
                             568888888865678999************99887775 PP

  == domain 2  score: -0.0 bits;  conditional E-value: 0.86
                IstB_IS21 132 eviekryerrsiiitsnlpfaewdevlgdatlatAilDR 170
                                          i+  n+++++   v++ ++    + DR
  PHY93_09180|PHY93_09180 182 A-----------ILRVNQELGTLVCVITHNAAIAGLADR 209
                              2...........333344444444444433333344444 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.0   7.8e-05     0.058      33      67 ..      23      57 ..       9     104 .. 0.79
   2 ?    0.5   0.0      0.65   4.9e+02     147     174 ..     171     199 ..     146     207 .. 0.80

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 7.8e-05
                    Rad17 33 ewlkadvLesrkkriLLisGPsGCgkstvvkvLsk 67
                             ++l+   Le   ++++++ GPsG gkst +++L  
  PHY93_09180|PHY93_09180 23 QALRGLDLELFDNEVVVLLGPSGSGKSTLLNILGG 57
                             5677777888888899****************975 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.65
                    Rad17 147 rdsdalrevirkylrsseal.plilvite 174
                               d+++ ++v+   lr+++ l +l+ vit 
  PHY93_09180|PHY93_09180 171 LDVQTGKQVLAAILRVNQELgTLVCVITH 199
                              57788899999999999999899999995 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0   3.3e-05     0.024      18      68 ..      33      84 ..      19     128 .. 0.64

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 3.3e-05
                 ATPase_2 18 epneiyfiYGpegsGKtaLlkeiienledkdkyviyyi..alreesiskldef 68
                               ne++++ Gp gsGK++Ll+  +  l++ +   ++y   +l ++  ++l++f
  PHY93_09180|PHY93_09180 33 FDNEVVVLLGPSGSGKSTLLNI-LGGLDNPSSGEVFYKdhNLVTSTAKELTQF 84
                             5689***************985.555555566666665123555555555555 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   7.6e-05     0.057       2      22 ..      38      58 ..      37     120 .. 0.74
   2 ?   -0.8   0.0       2.1   1.6e+03      60      80 ..     145     166 ..     123     175 .. 0.71

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 7.6e-05
                   AAA_28  2 ivitGgestGKTtlleaLaar 22
                             +v++G++++GK+tll+ L   
  PHY93_09180|PHY93_09180 38 VVLLGPSGSGKSTLLNILGGL 58
                             8***************99843 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 2.1
                   AAA_28  60 leeqleeeaaa.aankvlfcDr 80 
                              ++++++ ++a  + +++l+cD 
  PHY93_09180|PHY93_09180 145 EQQRIAIARAVaKRPDILLCDE 166
                              3444444444357899999994 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.5   8.4e-05     0.063       2      21 ..      38      57 ..      37     227 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 8.4e-05
                             EEEEESTTSSHHHHHHHHHT CS
                 MMR_HSR1  2 vaivGrpNvGKStLinaltg 21
                             v+++G + +GKStL+n l g
  PHY93_09180|PHY93_09180 38 VVLLGPSGSGKSTLLNILGG 57
                             899*************9976 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0   5.4e-05     0.041       1      44 [.      38      79 ..      38     126 .. 0.66

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 5.4e-05
                   AAA_18  1 IlltGtpGvGKttlakeLskrlgfgvnlrdvakenglllevdpe 44
                             ++l G++G+GK+tl + L  +      +++v+++++ l + +++
  PHY93_09180|PHY93_09180 38 VVLLGPSGSGKSTLLNILGGLD--NPSSGEVFYKDHNLVTSTAK 79
                             789***************6554..44555566555555555555 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.1   7.2e-05     0.053       6      29 ..      36      59 ..      31     202 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 7.2e-05
                   AAA_22  6 gilvvtGesGtGKTtllrrlleql 29
                              ++v+ G+sG+GK+tll+ l   +
  PHY93_09180|PHY93_09180 36 EVVVLLGPSGSGKSTLLNILGGLD 59
                             57899***********99876655 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0    0.0001     0.076       1      17 [.      37      53 ..      37     110 .. 0.92
   2 ?   -2.6   0.0       7.6   5.7e+03      86      98 ..     181     193 ..     145     212 .. 0.56

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 0.0001
                   AAA_33  1 lvllvGlpGsGKstlae 17
                             +v+l G++GsGKstl+ 
  PHY93_09180|PHY93_09180 37 VVVLLGPSGSGKSTLLN 53
                             899***********975 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 7.6
                   AAA_33  86 arflklarrlgvp 98 
                              a++l++ ++lg  
  PHY93_09180|PHY93_09180 181 AAILRVNQELGTL 193
                              3333333333333 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0    0.0001     0.078     106     149 ..      12      55 ..       5      75 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.0001
                    T2SSE 106 ddlgaeealkekiaevlrkavrerglilvsGgTgsGKttllyal 149
                              +++ + ++l+ +  + l   +  + ++++ G+ gsGK+tll++l
  PHY93_09180|PHY93_09180  12 KKIYKVGELEVQALRGLDLELFDNEVVVLLGPSGSGKSTLLNIL 55 
                              5555556666666677777777888999**************86 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   0.00011     0.085      18      45 ..      35      62 ..      31     197 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 0.00011
                   AAA_30 18 drvavltGpAGtGKttalkalreaweaa 45
                             + v+vl Gp G+GK+t+l+ l  + + +
  PHY93_09180|PHY93_09180 35 NEVVVLLGPSGSGKSTLLNILGGLDNPS 62
                             4599**************9887766655 PP

>> Dynamin_N  Dynamin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.2    0.0001     0.076       1      28 [.      38      64 ..      38     205 .. 0.72

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 0.0001
                             EEEEEBTTTTHHHHHHHHHTS--S---S CS
                Dynamin_N  1 iavvGsqSsGKSSvlnaLlgedilprgp 28
                             ++++G   sGKS++ln L g d +p++ 
  PHY93_09180|PHY93_09180 38 VVLLGPSGSGKSTLLNILGGLD-NPSSG 64
                             7899**************9987.55432 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   0.00015      0.12      21      50 ..      33      62 ..      16     118 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00015
                   AAA_15 21 lseeltvliGkNnsGKSsilealdlFlnnk 50
                             +++e+ vl G+ +sGKS++l++l  + n +
  PHY93_09180|PHY93_09180 33 FDNEVVVLLGPSGSGKSTLLNILGGLDNPS 62
                             5777******************98777766 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   0.00028      0.21       2      18 ..      37      53 ..      36      56 .. 0.90
   2 ?   -3.1   0.0       8.6   6.4e+03      30      50 ..      87     107 ..      71     117 .. 0.44

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00028
                             CEEEEC-TTTCHHHHHH CS
                    NACHT  2 lvilqGeaGsGKTtLlq 18
                             +v+l G++GsGK+tLl 
  PHY93_09180|PHY93_09180 37 VVVLLGPSGSGKSTLLN 53
                             89*************96 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 8.6
                              CCCC-SEEEEEETTTTTTS-. CS
                    NACHT  30 pqgafklvFflslrelsrsgn 50 
                              +++ f + F+   ++l+ ++n
  PHY93_09180|PHY93_09180  87 DHVGFVFQFYNLISSLTAEEN 107
                              333344444444444444433 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.0   0.00073      0.54      32      50 ..      34      52 ..      23      56 .. 0.88
   2 ?   -0.4   0.1      0.94     7e+02     166     188 ..     177     199 ..     168     201 .. 0.87

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00073
                   AAA_25 32 agelallaGapgtGKttla 50
                              +e+++l G++g+GK+tl+
  PHY93_09180|PHY93_09180 34 DNEVVVLLGPSGSGKSTLL 52
                             5899*************97 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 0.94
                   AAA_25 166 galvealeriarrtgaavllvhH 188
                              +++++a+ r+ +++g  v+++ H
  PHY93_09180|PHY93_09180 177 KQVLAAILRVNQELGTLVCVITH 199
                              79999***************999 PP

>> G-alpha  G-protein alpha subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   0.00021      0.16      26      51 ..      38      68 ..      21     222 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00021
                             EEEEESTTSSHHHHHHHHHHHCS--.....- CS
                  G-alpha 26 llllGqseSGKsTilkqlkllykkg.....f 51
                             ++llG s+SGKsT+l+ l  l +++     +
  PHY93_09180|PHY93_09180 38 VVLLGPSGSGKSTLLNILGGLDNPSsgevfY 68
                             78*************9887777666444441 PP

>> VirE  Virulence-associated protein E
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   0.00035      0.26      53      74 ..      36      57 ..      30      90 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00035
                     VirE 53 fvlvLvGkqgsgKstfleklge 74
                             +v+vL G+ gsgKst+l++lg+
  PHY93_09180|PHY93_09180 36 EVVVLLGPSGSGKSTLLNILGG 57
                             799*****************75 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00045      0.33       1      19 [.      38      56 ..      38     139 .. 0.65

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00045
             RNA_helicase  1 iwlyGpsgeGKStlakeLa 19
                             ++l Gpsg GKStl + L 
  PHY93_09180|PHY93_09180 38 VVLLGPSGSGKSTLLNILG 56
                             6899***********9953 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (233 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       469  (0.0261587); expected 358.6 (0.02)
Passed bias filter:                      450  (0.025099); expected 358.6 (0.02)
Passed Vit filter:                        96  (0.00535445); expected 17.9 (0.001)
Passed Fwd filter:                        24  (0.00133861); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              24  [number of targets reported over threshold]
# CPU time: 0.51u 0.22s 00:00:00.73 Elapsed: 00:00:00.37
# Mc/sec: 1898.85
//
Query:       PHY93_16665|PHY93_16665  [L=158]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.016   15.0   0.0      0.016   15.0   0.0    1.2  1  Sortase   Sortase domain
      0.045   13.3   0.0      0.096   12.2   0.0    1.5  1  DUF900    Alpha/beta hydrolase of unknown function (DUF900)
       0.19   11.2   0.0       0.25   10.8   0.0    1.2  1  DUF676    Putative serine esterase (DUF676)


Domain annotation for each model (and alignments):
>> Sortase  Sortase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   0.0   2.7e-06     0.016      24      69 ..      38      83 ..       8     143 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 2.7e-06
                             SEEECSTT-BTTSSSEEEEEEEBSSTTSTTGGGGGGHTT-EEEEEE CS
                  Sortase 24 gagfldesakpgeagnfvlaGHrvgkgavFsdLkklekgdaivvet 69
                             ga + d++a +g a++ ++++H+ g++  Fs++k+l+++++++ + 
  PHY93_16665|PHY93_16665 38 GALTGDKEAYAGGANKLIVVAHSQGNEVLFSAIKDLRNDPTFLATP 83
                             6666677888999************************999887765 PP

>> DUF900  Alpha/beta hydrolase of unknown function (DUF900)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   1.6e-05     0.096      93     120 ..      51      78 ..      45     100 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 1.6e-05
                   DUF900  93 akkihllaHSmGtwlvlealrqlaiead 120
                              a+k+ ++aHS G+ ++ +a++ l++ + 
  PHY93_16665|PHY93_16665  51 ANKLIVVAHSQGNEVLFSAIKDLRNDPT 78 
                              67899******************99875 PP

>> DUF676  Putative serine esterase (DUF676)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   4.1e-05      0.25      78     114 ..      51      89 ..      32     111 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 4.1e-05
                   DUF676  78 nkkiSfvghSlGgliaraaiaklkekem..tlkeaikgl 114
                               +k+ +v+hS+G+ +  +ai  l++ ++  + +e +k++
  PHY93_16665|PHY93_16665  51 ANKLIVVAHSQGNEVLFSAIKDLRNDPTflATPEDVKKI 89 
                              56999****************999877654244455555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (158 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       343  (0.019131); expected 358.6 (0.02)
Passed bias filter:                      333  (0.0185733); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.46u 0.20s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 1182.70
//
Query:       PHY93_09185|PHY93_09185  [L=785]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.3e-22   77.3  32.6    4.9e-12   46.2   1.8    5.5  6  FtsX      FtsX-like permease family
  ------ inclusion threshold ------
      0.066   13.3   0.3       0.58   10.3   0.0    2.8  2  COX6C     Cytochrome c oxidase subunit VIc


Domain annotation for each model (and alignments):
>> FtsX  FtsX-like permease family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    3.8   0.3    0.0086        77      64      94 ..      17      45 ..       4      61 .. 0.60
   2 ?   -1.7   0.1      0.46   4.2e+03      63      78 ..     268     283 ..     239     292 .. 0.53
   3 !   46.2   1.8   5.4e-16   4.9e-12       2      94 ..     295     387 ..     294     389 .. 0.96
   4 ?   -0.2   0.1      0.15   1.4e+03      26      65 ..     435     476 ..     432     481 .. 0.51
   5 ?    1.0   0.3     0.065   5.8e+02      24      37 ..     658     671 ..     632     681 .. 0.43
   6 !   43.6   4.0   3.5e-15   3.1e-11       2      91 ..     687     774 ..     686     779 .. 0.94

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.0086
                     FtsX 64 idlitvliiivlllllallagllsiskilkk 94
                             +++i+++ii++ ++ ++l +  +s+++ lkk
  PHY93_09185|PHY93_09185 17 VQTISIAIIVIGGIAILLSS--WSSYQSLKK 45
                             34444444444444444444..555555443 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 0.46
                     FtsX  63 sidlitvliiivllll 78 
                               + ++++l ++++l+ 
  PHY93_09185|PHY93_09185 268 IVTPLIFLSVAAFLIH 283
                              3333333333333332 PP

  == domain 3  score: 46.2 bits;  conditional E-value: 5.4e-16
                     FtsX   2 reigilralGmkkkqvlllllteillitlvalviGlglgllaaqllsdvllssvfsselkisidlitvliiivlllllallaglls 87 
                               +i++l+a+G+++++v++ +l  ++l +lv+++ G+++g+++ ++ s+ +l ++  +el +s++++++ i+i+ +++  +l ++ s
  PHY93_09185|PHY93_09185 295 AQIATLKAIGFSNWEVAQHYLKLVILMSLVGTLPGIAIGVWIGKVYSKIYLDFYHFPELNFSLSYLALGIGILSGVCPGVLGAWQS 380
                              69***************************************************999****************************** PP

                     FtsX  88 iskilkk 94 
                              i+++ + 
  PHY93_09185|PHY93_09185 381 IRNAFRL 387
                              **99875 PP

  == domain 4  score: -0.2 bits;  conditional E-value: 0.15
                     FtsX  26 llitlvalviGlglgllaaql.lsdvllssvfs.selkisid 65 
                              ++i+  a+++G+++ +l ++  + ++l+++++  ++ +isi+
  PHY93_09185|PHY93_09185 435 MIIVGMATALGIIVTSLSWNDmITQLLETQFQRiQREDISIN 476
                              445555566665555555443244444444433666666665 PP

  == domain 5  score: 1.0 bits;  conditional E-value: 0.065
                     FtsX  24 eillitlvalviGl 37 
                               +++++ +al+i++
  PHY93_09185|PHY93_09185 658 STIILVTFALAIAI 671
                              12222222222221 PP

  == domain 6  score: 43.6 bits;  conditional E-value: 3.5e-15
                     FtsX   2 reigilralGmkkkqvlllllteillitlvalviGlglgllaaqllsdvllssvfsselkisidlitvliiivlllllallaglls 87 
                              +e++ lr++G++k++v+ ++++ei++ ++++++ G+ +g++++ l+ ++++++   ++l++ i + t++ + +++l+ + ++++l 
  PHY93_09185|PHY93_09185 687 WEMASLRVIGFEKWDVFTIIFVEIAVQVVLCIIPGCFFGYWFTRLSLQGIHTET--FALPVIIHPQTYIKASLFVLFSLAASSWLV 770
                              69***************************************************7..6********************999999988 PP

                     FtsX  88 iski 91 
                               + i
  PHY93_09185|PHY93_09185 771 YRMI 774
                              7766 PP

>> COX6C  Cytochrome c oxidase subunit VIc
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0   6.5e-05      0.58       2      64 ..       4      66 ..       3      68 .. 0.86
   2 ?   -1.9   0.2      0.43   3.8e+03      17      34 ..     659     676 ..     650     681 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 6.5e-05
                    COX6C  2 laKPqmrgllakrlkrhlvvafvlslgvaaaykfavaepRKkayadFYknYDaekefeemrka 64
                             l K  +r+l++ +++   +  +v+  ++ ++      +  Kka +dFY nY   + f e ++a
  PHY93_09185|PHY93_09185  4 LNKKLLRDLWLLKVQTISIAIIVIGGIAILLSSWSSYQSLKKARDDFYINYTFANIFAEFKRA 66
                             567779999999999888888888888888888999999************999999998876 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 0.43
                    COX6C  17 rhlvvafvlslgvaaayk 34 
                                ++v f+l+++++++y+
  PHY93_09185|PHY93_09185 659 TIILVTFALAIAIGVIYN 676
                              567788889988888886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (785 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       838  (0.0467399); expected 358.6 (0.02)
Passed bias filter:                      497  (0.0277205); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.69u 0.22s 00:00:00.90 Elapsed: 00:00:00.40
# Mc/sec: 5955.83
//
Query:       PHY93_09190|PHY93_09190  [L=291]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.1e-07   30.3   0.2      3e-06   27.9   0.1    2.1  2  HlyD_3         HlyD family secretion protein
    3.9e-05   23.4   0.2     0.0002   21.2   0.0    2.3  3  Biotin_lipoyl  Biotin-requiring enzyme
    0.00019   20.8   0.1     0.0042   16.3   0.0    2.2  2  HlyD_D23       Barrel-sandwich domain of CusB or HlyD membran


Domain annotation for each model (and alignments):
>> HlyD_3  HlyD family secretion protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.0      0.29   1.7e+03       2      30 ..      60      88 ..      59      94 .. 0.81
   2 !   27.9   0.1     5e-10     3e-06       2      78 ..      97     171 ..      96     204 .. 0.89

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.29
                   HlyD_3  2 lrApvdGvvvelnveegevvqagdellei 30
                             ++A   G ++ +++++g+++ +++++ ++
  PHY93_09190|PHY93_09190 60 VTAFGEGDIKRVDLKVGDILKKNQTITQL 88
                             55666789999999999999999998876 PP

  == domain 2  score: 27.9 bits;  conditional E-value: 5e-10
                   HlyD_3   2 lrApvdGvvvelnveegevvqagdelleiippdtllveakvpaadlgsikkkgqkvtlkldqgsdytlkgkierisp 78 
                              +r+p++Gv++++  e   ++ +g+++ e+++ ++l++  ++  +d++++k +g  +  +   g  +++++ +++is 
  PHY93_09190|PHY93_09190  97 VRSPIAGVITKVFRESAGPIHRGEPIIEVVDSSDLEIVSELLTTDAAKVK-VGNLAFATGW-GDSKPIQAHVTKISK 171
                              89***********999999******************************5.9*99988886.55579*******997 PP

>> Biotin_lipoyl  Biotin-requiring enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.2   0.0   3.3e-08    0.0002      14      72 ..      65     124 ..      59     125 .. 0.93
   2 ?   -2.0   0.0      0.57   3.4e+03      53      68 ..     134     149 ..     133     152 .. 0.80
   3 ?   -3.6   0.0       1.8   1.1e+04      23      32 ..     278     287 ..     274     288 .. 0.71

  Alignments for each domain:
  == domain 1  score: 21.2 bits;  conditional E-value: 3.3e-08
                              E..ECSESSSTTCEE-TTSEEEEEECTTEEEEEEBSSSEEEEEESSTTTEEE-TTCEEEE CS
            Biotin_lipoyl  14 eg.vvevlvkvGdkVkagqvlaeveamKmemeieapkaGvvkeilvkeGdtvevgdllak 72 
                              eg + +v  kvGd  k++q++  +  +   +++ +p aGv++++  ++   ++ g+++++
  PHY93_09190|PHY93_09190  65 EGdIKRVDLKVGDILKKNQTITQLYWDVKYVPVRSPIAGVITKVFRESAGPIHRGEPIIE 124
                              57788999**************************************************97 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.57
                              EEEESSTTTEEE-TTC CS
            Biotin_lipoyl  53 vkeilvkeGdtvevgd 68 
                              v+e+l  + ++v+vg 
  PHY93_09190|PHY93_09190 134 VSELLTTDAAKVKVGN 149
                              7888888899999986 PP

  == domain 3  score: -3.6 bits;  conditional E-value: 1.8
                              TTCEE-TTSE CS
            Biotin_lipoyl  23 vGdkVkagqv 32 
                              +Gd +k g +
  PHY93_09190|PHY93_09190 278 PGDLIKNGTS 287
                              6888888765 PP

>> HlyD_D23  Barrel-sandwich domain of CusB or HlyD membrane-fusion
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.3   0.0     0.013        80      20      52 ..      58      89 ..      46      92 .. 0.80
   2 !   16.3   0.0   7.1e-07    0.0042     107     165 ..      93     151 ..      90     171 .. 0.91

  Alignments for each domain:
  == domain 1  score: 2.3 bits;  conditional E-value: 0.013
                             XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                 HlyD_D23 20 arvsarveGwveklyvnatgdkVkkGqpLaely 52
                             ++v+a  eG +++++ + +gd  kk+q++ +ly
  PHY93_09190|PHY93_09190 58 YTVTAFGEGDIKRVDLK-VGDILKKNQTITQLY 89
                             56777778888888888.888888888888887 PP

  == domain 2  score: 16.3 bits;  conditional E-value: 7.1e-07
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                 HlyD_D23 107 ktvtvkapisGvVteknvreGqyvqpgdtlftiadlstVWveaevyeqqlalvkvgqkv 165
                              k+v+v++pi+Gv+t+        ++ g++++++ d s++ ++ e+  +++a+vkvg+ +
  PHY93_09190|PHY93_09190  93 KYVPVRSPIAGVITKVFRESAGPIHRGEPIIEVVDSSDLEIVSELLTTDAAKVKVGNLA 151
                              579*****************************************************866 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (291 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       474  (0.0264376); expected 358.6 (0.02)
Passed bias filter:                      398  (0.0221987); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.35
# Mc/sec: 2466.96
//
Query:       PHY93_09195|PHY93_09195  [L=180]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.3e-44  149.7   0.0    7.3e-44  149.5   0.0    1.0  1  DUF1415   Protein of unknown function (DUF1415)


Domain annotation for each model (and alignments):
>> DUF1415  Protein of unknown function (DUF1415)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  149.5   0.0   4.1e-48   7.3e-44       8     169 ..      13     174 ..       8     176 .. 0.98

  Alignments for each domain:
  == domain 1  score: 149.5 bits;  conditional E-value: 4.1e-48
                  DUF1415   8 kWleevviglnlCPFAkkvvekkqiryvvseaekeeklleelleelelleeekeeeieTtLlilpevledfedyldlldlaealle 93 
                               WleevviglnlCPFAk+++ ++ +r+  +e++ e + l+ +l+ele+l++ +++e++TtL+ + +  +df d++d++ l+e++l 
  PHY93_09195|PHY93_09195  13 YWLEEVVIGLNLCPFAKTPYLNGLVRLIENESTLESDQLSFFLDELEHLQQIPSSELSTTLIAFVNDDNDFADFNDFVGLCEDMLI 98 
                              5************************************************************************************* PP

                  DUF1415  94 elelegvlqvasfHpdyqFegeeaddaenytnRspypilhllReesvekaveaypdaesiperNielleklgkeel 169
                              e +le+++q+++fHp+++ ++ ++   +++  Rspyp++h++R++++e a+++y d+  ip rN+ +l +l+++e+
  PHY93_09195|PHY93_09195  99 ESGLEEHFQLVAFHPQFMLADIDPLHRSHWVGRSPYPTIHIIRNAEIEIALASYTDMIGIPARNEGKLLSLSEQEF 174
                              *******************************************************************999999887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (180 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       281  (0.0156729); expected 358.6 (0.02)
Passed bias filter:                      255  (0.0142228); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 1336.61
//
Query:       PHY93_09200|PHY93_09200  [L=121]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      5e-21   74.6   0.2      5e-21   74.6   0.2    1.5  2  DUF167    Uncharacterised ACR, YggU family COG1872


Domain annotation for each model (and alignments):
>> DUF167  Uncharacterised ACR, YggU family COG1872
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.2      0.32   5.7e+03      69      75 ..       6      12 ..       3      26 .. 0.60
   2 !   74.6   0.2   2.8e-25     5e-21       3      77 .]      38     108 ..      36     108 .. 0.96

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 0.32
                             GSEEEEE CS
                   DUF167 69 sreKvvr 75
                             s++Kvv+
  PHY93_09200|PHY93_09200  6 SSTKVVE 12
                             4455543 PP

  == domain 2  score: 74.6 bits;  conditional E-value: 2.8e-25
                              EEEEES---SSS----...--TTTT-------TTIIIIIHHHHHHHHHHHHHS...SEEEE-S-GGGSEEEEEEE CS
                   DUF167   3 ilavrvkPgakkdaigleedaegrealkvrvaappvdGkANkalikfLakalgvpksdveivsGeksreKvvrie 77 
                              ++++  +P ak+daig    ++++++lk++v+++p++GkA++++++fLak+++vp sd+e+v G  s +K+vri+
  PHY93_09200|PHY93_09200  38 VFNILGTPSAKQDAIG----KVKGNQLKISVTEAPKRGKATDHMVRFLAKIFEVPVSDIEVVFGRMSIHKQVRIK 108
                              78999***********....788899***********************************************95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (121 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       735  (0.040995); expected 358.6 (0.02)
Passed bias filter:                      562  (0.0313459); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.21s 00:00:00.60 Elapsed: 00:00:00.35
# Mc/sec: 1035.07
//
Query:       PHY93_09205|PHY93_09205  [L=842]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.1e-44  150.7   4.9    3.8e-42  143.8   0.1    3.4  4  E1-E2_ATPase     E1-E2 ATPase
    1.6e-21   77.6   0.0    3.9e-21   76.3   0.0    1.7  1  Hydrolase        haloacid dehalogenase-like hydrolase
    1.7e-13   50.7  10.7    1.7e-13   50.7  10.7    2.1  2  Cation_ATPase_C  Cation transporting ATPase, C-terminus
    0.00016   21.3   1.5      0.002   17.8   1.5    2.7  1  Cation_ATPase_N  Cation transporter/ATPase, N-terminus
    0.00023   21.0   6.7    0.00088   19.1   1.1    2.6  3  Hydrolase_3      haloacid dehalogenase-like hydrolase
    0.00025   21.1   0.0    0.00069   19.7   0.0    1.9  1  Cation_ATPase    Cation transport ATPase (P-type)
      0.007   16.5   0.4      0.049   13.7   0.1    2.2  2  HAD_2            Haloacid dehalogenase-like hydrolase
  ------ inclusion threshold ------
       0.01   16.3   0.0       0.02   15.3   0.0    1.4  1  HAD              haloacid dehalogenase-like hydrolase


Domain annotation for each model (and alignments):
>> E1-E2_ATPase  E1-E2 ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.1   0.0    0.0015       3.5      90     152 ..      29      91 ..      25      98 .. 0.78
   2 !  143.8   0.1   1.7e-45   3.8e-42       6     181 .]     120     306 ..     115     306 .. 0.97
   3 ?   -1.2   0.0      0.56   1.3e+03      64      88 ..     480     505 ..     468     525 .. 0.80
   4 ?   -3.5   0.5       2.7   6.1e+03     115     146 ..     715     751 ..     713     763 .. 0.71

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.0015
                              TTSTTTTTSTTS--------HHHHHHHHHHHH.HHHHHHHHHHHHHHS-STTTSSTTHHHHHHH CS
             E1-E2_ATPase  90 edtelgkiarlveeakskktplqkkldklgkv.lvpvvlliallvflialllgkslaeallral 152
                              +++e++k+ +l  e + +k++l k l  ++k+  +p++ll++ +vfl a +lg+++  +++  +
  PHY93_09205|PHY93_09205  29 NQSEVDKVHKLSPELRGNKSQLRKDLILFFKQyKSPLMLLLIGAVFLSA-FLGDPTDGTIILLI 91 
                              799****************************945777777777777776.66666655554444 PP

  == domain 2  score: 143.8 bits;  conditional E-value: 1.7e-45
                              EEEEE-TTS-EEEEGGG--TTSEEEEETT-B--SEEEEEEE-S.EEE-TTTS---S-EE-............G-TTEE-TT-EEEE CS
             E1-E2_ATPase   6 takvirdgteeeidakelvpGDivllkagdrvpaDgrivegsa.evdesaLTGEslpvek............ekgdmvfsGtvvvs 78 
                              ++ virdg+ +ei ++ + pGD++l++agd +paD+ i+e+++   +e++LTGEs pv+k            ++++ +  G++++s
  PHY93_09205|PHY93_09205 120 KSMVIRDGRPREIFSNLIAPGDVLLFQAGDMIPADCLILESNElHANEASLTGESFPVRKktgvleentelaKRTNCLWEGSSIIS 205
                              6789*******************************************************************99************* PP

                              -EEEEEEEE-TTTSTTTTTSTTS--------HHHHHHHHHHHHHHHHHHHHHHHHHHS-STTTSSTTHHHHHHHHHHHHHS-TTHH CS
             E1-E2_ATPase  79 geakavVtatgedtelgkiarlveeakskktplqkkldklgkvlvpvvlliallvflialllgkslaeallralallvaaiPcaLp 164
                              g+ ka V+a+ edt +g ia++++ +  ++t+++k+++ +g +l+ + l+++l++++++lll k+++e+ l+alal+v++ P+ Lp
  PHY93_09205|PHY93_09205 206 GSGKALVIAIDEDTIFGNIAESASVS--TETEFEKNINDFGFFLMRITLVLSLFILIVNLLLHKGVIESALFALALAVGMAPELLP 289
                              *********************99986..9********************************************************* PP

                              HHHHHHHHHHHHHHHHT CS
             E1-E2_ATPase 165 lavplalalgarrlakk 181
                              +++++a+++ga rl kk
  PHY93_09205|PHY93_09205 290 AITTIAMSAGADRLLKK 306
                              *************9986 PP

  == domain 3  score: -1.2 bits;  conditional E-value: 0.56
                              -.G-TTEE-TT-EEEE-EEEEEEEE- CS
             E1-E2_ATPase  64 k.ekgdmvfsGtvvvsgeakavVtat 88 
                              k ++++mvf+G + +++++k  +t+ 
  PHY93_09205|PHY93_09205 480 KeQETQMVFAGFILLNDPVKPGITEA 505
                              336899*******9999988666655 PP

  == domain 4  score: -3.5 bits;  conditional E-value: 2.7
                              HHHHHHHHHHHHHHHHHHHHHS-STTTSSTT.....H CS
             E1-E2_ATPase 115 ldklgkvlvpvvlliallvflialllgksla.....e 146
                              +++++ ++ + + l+ l++fl++l+++k +       
  PHY93_09205|PHY93_09205 715 IRNYMIIFGIHSSLFDLITFLVLLYIFKAPEtrfqtA 751
                              5667777888888888999999999888887555444 PP

>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.3   0.0   1.8e-24   3.9e-21       1     210 []     322     603 ..     322     603 .. 0.71

  Alignments for each domain:
  == domain 1  score: 76.3 bits;  conditional E-value: 1.8e-24
                              SSEEEEESBTTTBCHHHHHHHHHHHHCHHHHHHHHHHHHCHHHHHH.HHHHHHHHHHHHHHHHETTTEHHHHTHHHHHHHH..... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..... RF
                Hydrolase   1 iktvvfDkdGTLttgepsvedvivsaalalaaaletgsehpigkal.vaaakarsgaltgfatfigrgayaigkpewltal..... 80 
                              +++++ Dk+GT+t+g+ sv  v++s+                   +  ++ k++ +  ++f+t      y       l++      
  PHY93_09205|PHY93_09205 322 VNLLCTDKTGTITEGTISVSIVVDSL------------------GVeSEYVKKLAFWNAQFET-----GYVNPIDVALRKIkiesa 384
                              6899**********************..................3334444444333344444.....222222222222222222 PP

                              HCHHHHHHHHHHHHHHCHHHHHH............................................................... CS
                              xxxxxxxxxxxxxxxxxxxxxxx............................................................... RF
                Hydrolase  81 dippdlgaaigsaqsqgrtvall............................................................... 103
                              + p++lg+  ++  ++  +  ++                                                               
  PHY93_09205|PHY93_09205 385 PLPEKLGEIPYDFIRKRLSILVNtgvntgkenllitkgafkeiistcskvrlsdssiqpvelyrkfleqqflkygengfrtlavce 470
                              34455555555555555555555555555555555555555555666666666666666777777888888888888888888899 PP

                              ..............TTHHHHHHHHHHTHHBHTTHHHHHHHHHHTTEEEEEEESSEHHHHHHHHHHTT............GGGE.SE CS
                              ..............xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx............xxxx.xx RF
                Hydrolase 104 ..............qaralavftiadplkvkpeaaeavasLkaagievvlltgdnpetaeraanqlG............ddyf.da 162
                                            q    + + + dp  vkp++ ea+++Lk+  +++ ++tgdn++ a+++a+++G                 +a
  PHY93_09205|PHY93_09205 471 kivttnniskeqetQMVFAGFILLNDP--VKPGITEAINELKKLEVQLKIITGDNQNIARSIAKNIGinapniligrdlLSMStEA 554
                              9999999999988888888899999**..**************************************9999777774442222344 PP

                              EEEHHCES......STTTSHHHHHHHHHHHTSTGGGEEEEESSHHHHHHHHHTT CS
                              xxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 163 viasdiet......vakpspegkvaaireLqgkpeevamVGDgvnDaaalaaAg 210
                               +            +a+ +p++k+++i+ L  k   va  GDg+nD++a+ aA+
  PHY93_09205|PHY93_09205 555 LVM----RarethiFAEIEPQQKEQIIQAL-RKSYTVAYLGDGINDVSAINAAD 603
                              444....255559*****************.66668****************98 PP

>> Cation_ATPase_C  Cation transporting ATPase, C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.1       1.2   2.6e+03     164     177 ..     250     263 ..     225     284 .. 0.64
   2 !   50.7  10.7   7.6e-17   1.7e-13       1     181 [.     672     834 ..     672     835 .. 0.91

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 1.2
          Cation_ATPase_C 164 ialllalvvllvde 177
                              i+l+l+l++l+v+ 
  PHY93_09205|PHY93_09205 250 ITLVLSLFILIVNL 263
                              22333333333322 PP

  == domain 2  score: 50.7 bits;  conditional E-value: 7.6e-17
          Cation_ATPase_C   1 plplsaiqiLwinLvtDllpalaLaleppekdimkrpPrkkkepliskkmlrri.liqgllqalvtllvffltlllfgisekenkl 85 
                              +lp+ + qiL+ n++tD+   l++a ++ +++ +  p +      ++ k++r+  +i g+ ++l+ l++f++ l++f++ e +   
  PHY93_09205|PHY93_09205 672 FLPMLPKQILLTNFITDFP-YLSIASDNVDEEQIVMPGK------WDLKLIRNYmIIFGIHSSLFDLITFLVLLYIFKAPETR--- 747
                              58***************76.*********9999999888......********************************999987... PP

          Cation_ATPase_C  86 ssnyaqtmaFitlvlsqifnalnlrsrreslfkfsglfsnkllllaillslllqvlivyvpglnavfgtaplsleewlialllalv 171
                                  +qt++F+  vl+++f ++ +r+ r+++fk    +  k+l+l  l+ ++l++ + y p  ++ +g++pl++ + +++l ++ +
  PHY93_09205|PHY93_09205 748 ----FQTAWFVESVLTELFILFIIRT-RKNFFK---SKPGKYLILLSLAGTILTLSLPYLP-WARELGLVPLPMINIAVMLTIVTL 824
                              ....**********************.444555...4445778888888888********9.9999******************** PP

          Cation_ATPase_C 172 vllvdelvKl 181
                              ++l + ++K+
  PHY93_09205|PHY93_09205 825 YILSADILKV 834
                              **99999986 PP

>> Cation_ATPase_N  Cation transporter/ATPase, N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   1.5   8.8e-07     0.002       3      69 .]      11      76 ..       9      76 .. 0.82

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 8.8e-07
          Cation_ATPase_N  3 alsleevlekLetdlenGLtq...aeaaerlkkyGpNelkekkkkslwvkllkqftnplvilLlvaalvs 69
                             + + e  ++kL+ ++enGL+q   + + ++  +   N+      +  + +++kq+++pl++lL+ a+ +s
  PHY93_09205|PHY93_09205 11 KFDKEYWYQKLQ-SSENGLNQsevDKVHKLSPELRGNKS---QLRKDLILFFKQYKSPLMLLLIGAVFLS 76
                             556677799**9.9*******555555566678888988...77888999****************9987 PP

>> Hydrolase_3  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -4.0   0.0       4.5     1e+04      58      85 ..     457     484 ..     442     487 .. 0.68
   2 !    4.7   0.2    0.0097        22      16      59 ..     498     541 ..     493     584 .. 0.82
   3 !   19.1   1.1   3.9e-07   0.00088     205     246 ..     585     626 ..     572     629 .. 0.89

  Alignments for each domain:
  == domain 1  score: -4.0 bits;  conditional E-value: 4.5
                              EEEGGGTEEECTTTEEEEE--B-HHHHH CS
              Hydrolase_3  58 vialNGaliddekgkilykstiskedvk 85 
                                + NG  +    +ki+ +++iske+  
  PHY93_09205|PHY93_09205 457 KYGENGFRTLAVCEKIVTTNNISKEQET 484
                              4557777777777888888888888755 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.0097
                              --HHHHHHHHHHHHTTSEEEEE-SS-HHHHHHHHHHCCCCSEEE CS
              Hydrolase_3  16 isektkeaikklkekgikvviATGRslravlpvleelgldlpvi 59 
                              +++ + eai++lk+ ++++ i TG +   ++++++++g++ p i
  PHY93_09205|PHY93_09205 498 VKPGITEAINELKKLEVQLKIITGDNQNIARSIAKNIGINAPNI 541
                              567789*********************************96544 PP

  == domain 3  score: 19.1 bits;  conditional E-value: 3.9e-07
                              GEEEEESSGGGHHHHHHSSEEEEETTS-HHHHHHSSEEE--G CS
              Hydrolase_3 205 eviafGDgeNDieMLeaaglgvAmgnaseevkkaAdyvtksn 246
                               v+  GDg ND++ ++aa++g+ ++na + + +aAd v   +
  PHY93_09205|PHY93_09205 585 TVAYLGDGINDVSAINAADVGISVENAVDIARSAADIVLLEK 626
                              57789*******************************998765 PP

>> Cation_ATPase  Cation transport ATPase (P-type)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.7   0.0   3.1e-07   0.00069      47      91 .]     388     434 ..     270     434 .. 0.88

  Alignments for each domain:
  == domain 1  score: 19.7 bits;  conditional E-value: 3.1e-07
            Cation_ATPase  47 kkvqeipFnssrKrmsvvlkle..pekkvrlyvKGApeiilkrCthv 91 
                              +k+ eip++  rKr s+++++   + k+++l++KGA   i++ C++v
  PHY93_09205|PHY93_09205 388 EKLGEIPYDFIRKRLSILVNTGvnTGKENLLITKGAFKEIISTCSKV 434
                              7899****************989999******************985 PP

>> HAD_2  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.7   0.1   2.2e-05     0.049      81     119 ..     499     537 ..     467     548 .. 0.94
   2 ?    0.0   0.0      0.35   7.8e+02     151     173 ..     582     604 ..     564     608 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 2.2e-05
                    HAD_2  81 ydgvkelLeeLkeagyklgivTsksreaveekleqlgie 119
                               +g+ e+++eLk+ +++l i+T  +++ +++  +++gi+
  PHY93_09205|PHY93_09205 499 KPGITEAINELKKLEVQLKIITGDNQNIARSIAKNIGIN 537
                              68*********************************9996 PP

  == domain 2  score: 0.0 bits;  conditional E-value: 0.35
                    HAD_2 151 kkeeviyvGDsptDieaakkagi 173
                              k+  v y GD ++D+ a  +a +
  PHY93_09205|PHY93_09205 582 KSYTVAYLGDGINDVSAINAADV 604
                              456799*********99887765 PP

>> HAD  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.3   0.0   8.9e-06      0.02      86     186 ..     498     598 ..     438     599 .. 0.71

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 8.9e-06
                      HAD  86 ldpgalellaahraaGdrvvvvSgglrplvepllaelg...adevlatelevdd..rltgelglegkpvrgegkvaalrewlaaeg 166
                               +pg+ e++++ ++  +++ +++g ++ +++ ++++ g   +  +++ +l +     l ++   +++ ++ e  ++  ++ ++a  
  PHY93_09205|PHY93_09205 498 VKPGITEAINELKKLEVQLKIITGDNQNIARSIAKNIGinaPNILIGRDLLSMSteALVMR--ARETHIFAEIEPQQKEQIIQALR 581
                              357***********************************88444446664444445544444..55666666555555555222222 PP

                      HAD 167 egidleevvay.GDspsDlpl 186
                                 ++  +vay GD+++D+ +
  PHY93_09205|PHY93_09205 582 --KSY--TVAYlGDGINDVSA 598
                              ..222..99999******976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (842 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       869  (0.048469); expected 358.6 (0.02)
Passed bias filter:                      533  (0.0297284); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.68u 0.26s 00:00:00.94 Elapsed: 00:00:00.38
# Mc/sec: 6574.39
//
Query:       PHY93_09210|PHY93_09210  [L=57]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.074   13.6   0.7        4.2    8.0   0.0    2.1  2  OAD_gamma        Oxaloacetate decarboxylase, gamma chain
      0.095   12.9  13.3       0.11   12.7  13.3    1.1  1  DUF1328          Protein of unknown function (DUF1328)
        0.2   11.7   4.2        0.2   11.7   4.2    1.0  1  Phage_holin_3_6  Putative Actinobacterial Holin-X, holin supe
       0.59   10.6   8.0        3.3    8.2   8.0    1.9  1  DUF202           Domain of unknown function (DUF202)
        1.3    7.7   3.3        1.3    7.7   3.3    1.0  1  DUF2207          Predicted membrane protein (DUF2207)
        3.6    7.6   5.2        3.9    7.5   5.2    1.1  1  DUF1676          Protein of unknown function (DUF1676)


Domain annotation for each model (and alignments):
>> OAD_gamma  Oxaloacetate decarboxylase, gamma chain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   0.5     0.022        65       3      16 ..       5      18 ..       3      24 .. 0.66
   2 ?    8.0   0.0    0.0014       4.2      11      28 ..      34      51 ..      31      56 .. 0.88

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.022
                OAD_gamma  3 gllltllGmgvVFv 16
                             +l+  +l++++VF+
  PHY93_09210|PHY93_09210  5 ALIFFILAFLTVFL 18
                             55666666666665 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.0014
                OAD_gamma 11 mgvVFvvLilLslvislf 28
                             +++VF++L +Ls++ sl+
  PHY93_09210|PHY93_09210 34 LAIVFLALGVLSYAGSLV 51
                             68***********98886 PP

>> DUF1328  Protein of unknown function (DUF1328)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7  13.3   3.8e-05      0.11       1      38 [.       6      43 ..       6      44 .. 0.96

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 3.8e-05
                  DUF1328  1 liFLviAliAgvLGFgGiagaaagiAkiLFfiFlvlfv 38
                             liF+++A    +LG+   ag ++g  k L ++Fl+l v
  PHY93_09210|PHY93_09210  6 LIFFILAFLTVFLGAYETAGISIGAYKALAIVFLALGV 43
                             7*********************************9976 PP

>> Phage_holin_3_6  Putative Actinobacterial Holin-X, holin superfamily III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   4.2   6.7e-05       0.2      42      86 ..       4      48 ..       1      57 [] 0.56

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 6.7e-05
          Phage_holin_3_6 42 aagvlallalllllval..alalaalwlaalivaavllvlagvlalv 86
                             aa+++ +la+l++++++   +++  +  a+  +a+v+l+l+++  + 
  PHY93_09210|PHY93_09210  4 AALIFFILAFLTVFLGAyeTAGI--SIGAYKALAIVFLALGVLSYAG 48
                             56666666666666666443666..5555555666666666655444 PP

>> DUF202  Domain of unknown function (DUF202)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.2   8.0    0.0011       3.3      18      64 ..       4      55 ..       2      57 .] 0.75

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.0011
                   DUF202 18 lalialglallrffl....tgepsalg.kilglilivlgiltllvglvrylr 64
                              ali++ la+l +fl    t + s ++ k+l++++++lg+l+ + +lv+ ++
  PHY93_09210|PHY93_09210  4 AALIFFILAFLTVFLgayeTAGISIGAyKALAIVFLALGVLSYAGSLVNQRK 55
                             6889999999998886665555554446899999999999999999988665 PP

>> DUF2207  Predicted membrane protein (DUF2207)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   3.3   0.00044       1.3     385     438 ..       3      55 ..       1      57 [] 0.83

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.00044
                  DUF2207 385 alglgliilglilillallllvlllvfllilllillliaiivlllfsrllgrrt 438
                               ++l+++il+++ ++l+++  ++ +++ ++ +l+++++a++vl ++ +l+ +r+
  PHY93_09210|PHY93_09210   3 SAALIFFILAFLTVFLGAYETAG-ISIGAYKALAIVFLALGVLSYAGSLVNQRK 55 
                              67788888888888888888887.999999999999999999999988887775 PP

>> DUF1676  Protein of unknown function (DUF1676)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   5.2    0.0013       3.9     128     163 ..       6      42 ..       1      50 [. 0.82

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0013
                  DUF1676 128 lllalk.lklklLlplalgllallagKALllgklaLl 163
                              l+ ++  + + +L++   +++ + a KAL + +laL 
  PHY93_09210|PHY93_09210   6 LIFFILaFLTVFLGAYETAGISIGAYKALAIVFLALG 42 
                              555555599**************************94 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (57 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       726  (0.0404931); expected 358.6 (0.02)
Passed bias filter:                      337  (0.0187964); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.34u 0.22s 00:00:00.56 Elapsed: 00:00:00.36
# Mc/sec: 479.62
//
Query:       PHY93_09215|PHY93_09215  [L=106]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
       0.14   11.9   0.4        1.5    8.6   0.0    2.1  2  TMEM208_SND2  SRP-independent targeting protein 2/TMEM208


Domain annotation for each model (and alignments):
>> TMEM208_SND2  SRP-independent targeting protein 2/TMEM208
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   0.0   8.3e-05       1.5      45      81 ..       7      43 ..       1      49 [. 0.85
   2 ?    1.9   0.1    0.0093   1.7e+02      59      84 ..      76     101 ..      52     105 .. 0.82

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 8.3e-05
             TMEM208_SND2 45 rslllylllslpalllyyvlekmgrpkydedgelvds 81
                             + ++l+++++++a++++++ +km++p+ +++++++ s
  PHY93_09215|PHY93_09215  7 TLIILIAFANTAAFGVEKTKNKMAEPTTEQRQSMAAS 43
                             4578999**********************99988766 PP

  == domain 2  score: 1.9 bits;  conditional E-value: 0.0093
             TMEM208_SND2  59 llyyvlekmgrpkydedgelvdsGeD 84 
                              ++  ++++mg+ + + +g + d+ +D
  PHY93_09215|PHY93_09215  76 GCAMMMNHMGKMHAKGKGMMHDQEKD 101
                              57788999999888888888877666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (106 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1015  (0.0566122); expected 358.6 (0.02)
Passed bias filter:                      415  (0.0231469); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.38u 0.21s 00:00:00.59 Elapsed: 00:00:00.35
# Mc/sec: 910.73
//
Query:       PHY93_09220|PHY93_09220  [L=177]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.5e-23   83.0   7.1    6.4e-13   48.9   0.8    2.2  2  CBS       CBS domain


Domain annotation for each model (and alignments):
>> CBS  CBS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.5   0.8   1.4e-13   2.4e-09       3      54 ..      56     106 ..      54     108 .. 0.93
   2 !   48.9   0.8   3.6e-17   6.4e-13       1      56 [.     117     172 ..     117     173 .. 0.95

  Alignments for each domain:
  == domain 1  score: 37.5 bits;  conditional E-value: 1.4e-13
                              HHSBSSCEEEETTSBHHHHHHHHHHHTSSEEEEEETTTBEEEEEEHHHHHHH CS
                      CBS   3 dimtrdvvtvppdttleealelmrekgvsrlPVVdedgklvGivtlrDllra 54 
                              d+m+++v++ + d+ l e+ ++m++++++++P V +d+ ++G++++rDll++
  PHY93_09220|PHY93_09220  56 DVMNKPVLSKSVDSHLVEIRDQMKKYNIRHIPLV-KDHMIIGMISDRDLLKV 106
                              89*********************9999*******.6777***********86 PP

  == domain 2  score: 48.9 bits;  conditional E-value: 3.6e-17
                              HHHHSBSSCEEEETTSBHHHHHHHHHHHTSSEEEEEETTTBEEEEEEHHHHHHHHH CS
                      CBS   1 VgdimtrdvvtvppdttleealelmrekgvsrlPVVdedgklvGivtlrDllrall 56 
                              ++dimt+ +v++ ++t+l+ +++ + e+++s+lP++d+++klvG+++++D+l+a++
  PHY93_09220|PHY93_09220 117 AEDIMTTVLVVAEEETPLAHIARVLLEEKISALPIIDKSHKLVGMISRTDILKAVV 172
                              579*********************98999************************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (177 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       411  (0.0229238); expected 358.6 (0.02)
Passed bias filter:                      305  (0.0170115); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.38u 0.19s 00:00:00.57 Elapsed: 00:00:00.34
# Mc/sec: 1549.38
//
Query:       PHY93_09225|PHY93_09225  [L=187]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.7e-10   40.6   0.2    4.9e-08   33.3   0.2    2.3  1  HAD_2           Haloacid dehalogenase-like hydrolase
  ------ inclusion threshold ------
      0.034   14.4   0.0      0.056   13.7   0.0    1.4  1  Hydrolase       haloacid dehalogenase-like hydrolase
       0.15   12.1   0.0       0.27   11.3   0.0    1.4  1  Hydrolase_like  HAD-hyrolase-like
       0.16   12.1   0.0       0.38   10.9   0.0    1.6  2  Hydrolase_6     Haloacid dehalogenase-like hydrolase


Domain annotation for each model (and alignments):
>> HAD_2  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.3   0.2   1.1e-11   4.9e-08      68     174 ..      34     154 ..      15     158 .. 0.74

  Alignments for each domain:
  == domain 1  score: 33.3 bits;  conditional E-value: 1.1e-11
                    HAD_2  68 kyneekkkkevkpydgvkelLeeLkeagyklgivTsksreaveekleqlgies................yFdvivtsedvekkKPd 137
                              ++++ k+ k++k ++g++e+++eLk++g+k+gi+++  ++  ++  e+l+  +                +F+ ++   + ++ KP+
  PHY93_09225|PHY93_09225  34 TVVNTKDMKHLKYMKGAREYMDELKREGIKIGIISNIPENWGMDYDEKLQSLKkviqdgwdedrpfdwsVFEEVILPLKNSEMKPA 119
                              455555558***************************87766554444443211111112222222222279999999999999*** PP

                    HAD_2 138 peviekaleklklkkeeviyvGDsptDieaakkagik 174
                              p++++ka+ k++  +   +y+G sp+ i aa+ +g+ 
  PHY93_09225|PHY93_09225 120 PTLFLKAISKTESCP--SVYIGESPKEIAAARDVGMA 154
                              *********988777..59****************97 PP

>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   1.2e-05     0.056     117     210 .]      44     152 ..      17     152 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1.2e-05
                              HHBHTTHHHHHHHHHHTTEEEEEEESSEH.......HHHHHHHHHTT.....GGGE.SEEEEHHCES....STTTSHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxx.......xxxxxxxxxxx.....xxxx.xxxxxxxxxx....xxxxxxxxxxxxxxx RF
                Hydrolase 117 lkvkpeaaeavasLkaagievvlltgdnp.......etaeraanqlG.....ddyf.daviasdiet....vakpspegkvaaire 185
                              lk +++a+e + +Lk+ gi+++++++  +       e  +++ + +      d+ f + v++  i        kp p  +++ai +
  PHY93_09225|PHY93_09225  44 LKYMKGAREYMDELKREGIKIGIISNIPEnwgmdydEKLQSLKKVIQdgwdeDRPFdWSVFEEVILPlknsEMKPAPTLFLKAISK 129
                              56789********************87776666666555544444334587877776666666666688889999*********** PP

                              HTSTGGGEEEEESSHHHHHHHHHTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 186 LqgkpeevamVGDgvnDaaalaaAg 210
                                  p   + +G ++  +aa++ +g
  PHY93_09225|PHY93_09225 130 TESCP--SVYIGESPKEIAAARDVG 152
                              97668..999999999999998776 PP

>> Hydrolase_like  HAD-hyrolase-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0     6e-05      0.27       4      45 ..     117     155 ..     115     161 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 6e-05
                              TTSSHHHHHHHHHH---GGGEEEEES-TTTHHHHHHHCT-EE CS
           Hydrolase_like   4 KPepemydfalevlgsdpeevlmiGDrlatDiagAnnaGwks 45 
                              KP+p+++  a  +++s p  +++iG +    ia+A+++G+  
  PHY93_09225|PHY93_09225 117 KPAPTLFLKAISKTESCP--SVYIGES-PKEIAAARDVGMAA 155
                              9************99987..9******.899********986 PP

>> Hydrolase_6  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   8.4e-05      0.38      14      55 ..      45      86 ..      27      94 .. 0.84
   2 ?   -2.3   0.0       1.1   4.9e+03      58      77 ..     160     179 ..     140     183 .. 0.70

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 8.4e-05
                             EE-TTHHHHHHHHHHTT-EEEEEE---SS-HHHHHHHHHHTT CS
              Hydrolase_6 14 kaipgaaealnalraagkpvvllTNnsskseeeyakkleklg 55
                             k ++ga e ++ l+++g+++ +++N   +   +y +kl++l 
  PHY93_09225|PHY93_09225 45 KYMKGAREYMDELKREGIKIGIISNIPENWGMDYDEKLQSLK 86
                             6789*********************99999999999999875 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 1.1
                              --GGGEEEHHHHHHHHHHHH CS
              Hydrolase_6  58 iteeqvvtsataaaeylkkr 77 
                               ++e+++ + t ++++++++
  PHY93_09225|PHY93_09225 160 ESDEEIYIPVTQVKAFIADN 179
                              46677888888887777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (187 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       522  (0.0291148); expected 358.6 (0.02)
Passed bias filter:                      425  (0.0237046); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1452.99
//
Query:       PHY93_09230|PHY93_09230  [L=120]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    5.4e-18   64.7   7.3    9.2e-18   64.0   7.2    1.5  1  Ion_trans_2  Ion channel
    1.2e-10   41.1   6.2    1.3e-10   40.9   6.2    1.1  1  Ion_trans    Ion transport protein
    0.00029   20.7   1.8    0.00037   20.3   1.8    1.3  1  Lig_chan     Ligand-gated ion channel
  ------ inclusion threshold ------
        8.6    6.3  14.8       0.93    9.4   1.6    2.1  2  Trep_Strep   Hypothetical bacterial integral membrane protein


Domain annotation for each model (and alignments):
>> Ion_trans_2  Ion channel
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.0   7.2   2.1e-21   9.2e-18       6      77 ..      40     113 ..      17     115 .. 0.92

  Alignments for each domain:
  == domain 1  score: 64.0 bits;  conditional E-value: 2.1e-21
                              TCHHHHHHHHT......T---HHHHHHHHHHHHTTS----SSTT-----HHHHHHHHHHHHHHHHHHHHHHHHH CS
              Ion_trans_2   6 vlifgaviysl..eegwekwsfldalYfsfvtltTiGYGdivpetdagrlftivyillGlalfalflavlgkvl 77 
                              + +f+ ++y++  e + + +sf+dal++ f t tT GYGdi+p++ +g+++ i+++l+G+alfa+f+a++++ +
  PHY93_09230|PHY93_09230  40 IGLFCLIFYMIesEVNPKIHSFIDALWWGFSTATTTGYGDITPVSIQGKILGILLMLTGMALFAMFTALFAEKI 113
                              6678999999986555889**************************************************99876 PP

>> Ion_trans  Ion transport protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.9   6.2     3e-14   1.3e-10     137     237 ..      28     113 ..       5     120 .] 0.75

  Alignments for each domain:
  == domain 1  score: 40.9 bits;  conditional E-value: 3e-14
                              HHHHHHHHHHHHHHHHTTSCCCCCCSCCSTSSSTTTSSSSSSHHHHHHHHHHHHTTSSHHHHHHHHHHHSHHHHHHHHHHHHHHHH CS
                Ion_trans 137 llvvlfifaligvqlfkgklreknecaktwenpnngntnFdnfftallwlfrlmttegwgdilyatldekskvaliyfvifiilgs 222
                              +++vl if+   + lf   ++         e++   n++ ++f++al+w f ++tt g+gdi+++ +++k      +++i+++l +
  PHY93_09230|PHY93_09230  28 VFIVLTIFGNSLIGLFCLIFY-------MIESE--VNPKIHSFIDALWWGFSTATTTGYGDITPVSIQGK------ILGILLMLTG 98 
                              445555555555556633444.......33333..334677*****************************......********** PP

                              HHHHHHHHHHHHHHH CS
                Ion_trans 223 flllNlliaviadnf 237
                              + l++++ a+ a+ +
  PHY93_09230|PHY93_09230  99 MALFAMFTALFAEKI 113
                              *********998765 PP

>> Lig_chan  Ligand-gated ion channel
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.3   1.8   8.3e-08   0.00037      41      94 ..      56     110 ..      15     119 .. 0.83

  Alignments for each domain:
  == domain 1  score: 20.3 bits;  conditional E-value: 8.3e-08
                              XXHHHHHHHHHHHHHHHHHHH.HXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 Lig_chan  41 eneftlsnslwfslgalvqqG.cdesprsvsgRivvavWwffvlillssYtAnLa 94 
                               + ++++++lw  +++ +  G +d++p s+ g+i+ ++ ++  + l++ +tA +a
  PHY93_09230|PHY93_09230  56 PKIHSFIDALWWGFSTATTTGyGDITPVSIQGKILGILLMLTGMALFAMFTALFA 110
                              4678999*********************************************887 PP

>> Trep_Strep  Hypothetical bacterial integral membrane protein (Trep_Strep)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.7   5.6     0.024   1.1e+02      11      49 ..      12      50 ..       7      65 .. 0.75
   2 ?    9.4   1.6   0.00021      0.93      59      99 ..      82     118 ..      77     120 .] 0.82

  Alignments for each domain:
  == domain 1  score: 2.7 bits;  conditional E-value: 0.024
               Trep_Strep 11 talyfvvvfvvgm.lglispvlmlllpaivallagivyml 49
                              + yfv+ +++ +   ++  vl+++   +++l++ i+ym+
  PHY93_09230|PHY93_09230 12 ILKYFVLEMLILIkSPVF-IVLTIFGNSLIGLFCLIFYMI 50
                             445777777777754444.788888889999999999997 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.00021
               Trep_Strep  59 ailimglllgllllltGhgwlvlllaiiggliaeliaksgg 99 
                               + i g +lg+ll+ltG+    +l+a++ +l ae i++s +
  PHY93_09230|PHY93_09230  82 PVSIQGKILGILLMLTGM----ALFAMFTALFAEKILTSSK 118
                              57899************9....7777778888888887765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (120 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       779  (0.0434492); expected 358.6 (0.02)
Passed bias filter:                      282  (0.0157287); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 895.36
//
Query:       PHY93_16670|PHY93_16670  [L=205]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (205 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       998  (0.055664); expected 358.6 (0.02)
Passed bias filter:                      592  (0.0330191); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.35
# Mc/sec: 1741.80
//
Query:       PHY93_09235|PHY93_09235  [L=179]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.9e-17   64.3   0.1    2.2e-17   64.0   0.1    1.1  1  Acetyltransf_3  Acetyltransferase (GNAT) domain
      2e-06   28.0   0.0    2.6e-06   27.6   0.0    1.2  1  Acetyltransf_1  Acetyltransferase (GNAT) family


Domain annotation for each model (and alignments):
>> Acetyltransf_3  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.0   0.1   2.5e-21   2.2e-17       1     137 [.      16     155 ..      16     156 .. 0.85

  Alignments for each domain:
  == domain 1  score: 64.0 bits;  conditional E-value: 2.5e-21
           Acetyltransf_3   1 RLlLrplteeDlealfelrsdpevmrylpe.pltleeaeewlerawaeeseeeg...ygwaivlkdtgviGsvglrdleeedeeae 82 
                              RL+L p+ e++ ++l+el+sd e+++++p  p + e+ +e+++r+ +++s ee+   ++w+ ++k+t+   ++ ++   +ed+ a 
  PHY93_09235|PHY93_09235  16 RLILEPIDESHTPKLYELYSDTELHHFVPFePISIEQWRERCARWATRKSFEENelwLNWLGRDKETN-RAMAHFQVGIKEDGVAT 100
                              9************************9988778888888888887533444444456667999888885.555556655666777** PP

           Acetyltransf_3  83 lgymlapsfwgkGyateavralleyafeelglerlvavidkeNeaSirvleklGf 137
                              +gy++ + f+gkG+a e +  +  y+ + lg++++ a  d +N+ S ++++klG+
  PHY93_09235|PHY93_09235 101 IGYLVSRTFQGKGLAYEGLLEVFAYLRDVLGVREVKAWSDSRNTSSHKLAKKLGM 155
                              ******************************************************8 PP

>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.6   0.0   2.9e-10   2.6e-06      16     117 .]      54     155 ..      28     155 .. 0.72

  Alignments for each domain:
  == domain 1  score: 27.6 bits;  conditional E-value: 2.9e-10
                              HHHHHHHHHHHHHHSTTCEEEE.....EEETTEEEEEEEEEEEETTSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHT.TES CS
           Acetyltransf_1  16 nedaseeefeesfsleaegllv.....aeedgeliGfisllkipdekggvayieslaVspeyrgkGlGsaLlealeeraree.gik 95 
                              +e++  ++ ++sf++  ++l++      +e ++  ++ ++ ++ d     ++++++ Vs++++gkGl+ + l ++  ++r+  g++
  PHY93_09235|PHY93_09235  54 RERCARWATRKSFEE--NELWLnwlgrDKETNRAMAHFQVGIKED----GVATIGYLVSRTFQGKGLAYEGLLEVFAYLRDVlGVR 133
                              344444444444333..3555555444444477999999999999....56666******************************** PP

                              EEEEEEETTEHHHHHHHHHTTE CS
           Acetyltransf_1  96 kivlaveedndaairlYeklGF 117
                              ++ ++ ++ n+ +++l +klG+
  PHY93_09235|PHY93_09235 134 EVKAWSDSRNTSSHKLAKKLGM 155
                              *98888888********88995 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (179 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       322  (0.0179597); expected 358.6 (0.02)
Passed bias filter:                      273  (0.0152267); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 1348.36
//
Query:       PHY93_09240|PHY93_09240  [L=421]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.1e-36  123.1   0.0    1.6e-35  122.3   0.0    1.4  1  IMS       impB/mucB/samB family
    8.6e-17   61.0   0.0    1.7e-16   60.0   0.0    1.5  1  DUF4113   Domain of unknown function (DUF4113)
    1.2e-12   48.6   0.0    3.1e-12   47.2   0.0    1.7  1  IMS_C     impB/mucB/samB family C-terminal domain
  ------ inclusion threshold ------
      0.024   15.0   0.1      0.092   13.1   0.1    2.0  2  IMS_HHH   IMS family HHH motif
      0.047   13.5   0.0         16    5.4   0.0    2.6  2  DUF1126   DUF1126 PH-like domain


Domain annotation for each model (and alignments):
>> IMS  impB/mucB/samB family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  122.3   0.0   4.5e-39   1.6e-35       1     149 [.       9     153 ..       9     154 .. 0.95

  Alignments for each domain:
  == domain 1  score: 122.3 bits;  conditional E-value: 4.5e-39
                              EEETTHHHHHHHHHT.T-TTS-EEEEET....TEEEEE-HHHHTTT--TTSBHHHHHTTHT.T.-EEEEEE-HHHHHHHHHHHHHH CS
                      IMS   1 iDmdaFyasverardpeLkgkPvvvaqgsekrgiviavsyeArayGvkrgmrikeakklcp.d.livvkvdlekyrraskkileil 84 
                              +D+++Fy+s+er+ +p+L ++Pv v ++++  g+ ++ ++e ++ Gv  g + +++k++c  + + v+++++++y ++s++++++l
  PHY93_09240|PHY93_09240   9 VDCNSFYCSCERLFRPDLANRPVGVLSNND--GCFVSRTNELKKLGVAMGVPYFQVKEICDkNnVAVFSANFSLYTNISDRVMNTL 92 
                              7***************************77..****************************7556********************** PP

                              HHH-S..EEEEETTEEEEE-HHHHHHHH-SHHHHHHHHHHHHHHHH---EEEEEESSHHHHHHHH CS
                      IMS  85 krfispkvekasiDEayldltgleelaesegaalakelrkaikeelgltvsiGiasnkllAKlas 149
                               +f +p++e +s+DEa+ldltgl e+     +++++ ++++++ ++g++v iGia++k+lAKla+
  PHY93_09240|PHY93_09240  93 FEF-APNIEVYSVDEAFLDLTGLDEKTI---EDYCRHIKDTVERNTGIPVGIGIARTKVLAKLAN 153
                              ***.77****************766444...79******************************96 PP

>> DUF4113  Domain of unknown function (DUF4113)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.0   0.0   4.7e-20   1.7e-16       3      49 ..     374     421 .]     373     421 .] 0.94

  Alignments for each domain:
  == domain 1  score: 60.0 bits;  conditional E-value: 4.7e-20
                  DUF4113   3 LmkalDaiNrrfGrgtvklaaqglkas.WkmkrehlSprYTTrwdelp 49 
                              Lmk++D+iN r G +tvk+aa+g++++ W mk+ h+S+rY T w+el+
  PHY93_09240|PHY93_09240 374 LMKVMDRINYREGHETVKIAACGVNKEsWYMKQVHKSKRYLTGWNELL 421
                              9**********************76656******************96 PP

>> IMS_C  impB/mucB/samB family C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.2   0.0   8.7e-16   3.1e-12       6     116 ..     245     361 ..     241     363 .. 0.89

  Alignments for each domain:
  == domain 1  score: 47.2 bits;  conditional E-value: 8.7e-16
                    IMS_C   6 pepksissektfpe.pydesklkkelreLaeelarrLrdkglvartitlklrysdfh......asrsatLprptsdtreileaalk 84 
                              p++k i +++tf+   +d + l++ +  +a+ ++++Lr+++ v++ i + +r+++f+      +  sa L  pt dtr+i+ +a k
  PHY93_09240|PHY93_09240 245 PKKKEIVCSRTFGNpVFDLATLRESVASYASLACEKLRKQQSVCQVIEIYIRTNPFKevpqyaRADSALLISPTCDTRKIISEAWK 330
                              7899**********6667445777888***************************888888887777777788************** PP

                    IMS_C  85 Llrrlidepglpirligvsasnlvekaesqas 116
                              +l+ +   +g+++++  v +s++++++e+q+s
  PHY93_09240|PHY93_09240 331 ILDGIFI-NGFEYKKALVKLSRIQDSNEHQNS 361
                              *******.****************99998865 PP

>> IMS_HHH  IMS family HHH motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.1   2.6e-05     0.092       8      32 .]     178     202 ..     172     202 .. 0.86
   2 ?   -3.9   0.0         5   1.8e+04      19      28 ..     224     233 ..     224     234 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 2.6e-05
                  IMS_HHH   8 LwplpitkipGiGgklgekLeklGi 32 
                              L+ ++i++i+GiG+    k++++Gi
  PHY93_09240|PHY93_09240 178 LARVEIGDIWGIGRQSTIKFKMIGI 202
                              8899**********98888888877 PP

  == domain 2  score: -3.9 bits;  conditional E-value: 5
                  IMS_HHH  19 iGgklgekLe 28 
                              iG+  +++L+
  PHY93_09240|PHY93_09240 224 IGRMIQDELN 233
                              8999999997 PP

>> DUF1126  DUF1126 PH-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   0.0    0.0053        19      57     100 ..      38      82 ..      29      85 .. 0.79
   2 ?    5.4   0.0    0.0044        16      44      69 ..     125     150 ..     119     174 .. 0.78

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.0053
                  DUF1126  57 ggkflkRqklpk.peeeakgeyytpkdlnvgatvnvfgrkfllld 100
                               g+f++R+   k  + ++   y++ k++  +++v vf+ +f l+ 
  PHY93_09240|PHY93_09240  38 DGCFVSRTNELKkLGVAMGVPYFQVKEICDKNNVAVFSANFSLYT 82 
                              578999976655244333778********************9985 PP

  == domain 2  score: 5.4 bits;  conditional E-value: 0.0044
                  DUF1126  44 eikEprqrNsGikggkflkRqklpkp 69 
                              +ik   +rN+Gi+ g  ++R+k+  +
  PHY93_09240|PHY93_09240 125 HIKDTVERNTGIPVGIGIARTKVLAK 150
                              799999******9*********9663 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (421 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       705  (0.0393218); expected 358.6 (0.02)
Passed bias filter:                      531  (0.0296168); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.40
# Mc/sec: 3152.53
//
Query:       PHY93_09245|PHY93_09245  [L=148]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.3e-13   49.4   0.1      5e-13   48.8   0.1    1.3  1  Peptidase_S24   Peptidase S24-like
  ------ inclusion threshold ------
       0.39   10.7   0.3       0.39   10.7   0.3    1.7  2  Amb_V_allergen  Amb V Allergen


Domain annotation for each model (and alignments):
>> Peptidase_S24  Peptidase S24-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.8   0.1   5.6e-17     5e-13       3      69 ..      68     132 ..      66     133 .. 0.94

  Alignments for each domain:
  == domain 1  score: 48.8 bits;  conditional E-value: 5.6e-17
                              XSSTTCCTXXTTXEEEEECTS---TTSEEEEEETTCE-EEEEEEEEETTEEEEE.SSTTSTEEEECT CS
            Peptidase_S24   3 pGdSMeptlldGdlilVdkfsepkrGdivvfrlpgeeeayiKrviglpgdrvllasnneypplying 69 
                               GdSMept+ +G +++Vd++++  +G ++v+  +++   ++Krv ++ + ++l++ n++y+++ i +
  PHY93_09245|PHY93_09245  68 AGDSMEPTIFQGQILIVDRSRKDFHGRVCVICFEDK--MICKRVLQKSNAVILKSDNSKYKDIVIEN 132
                              69**********************************..8**************888878****9976 PP

>> Amb_V_allergen  Amb V Allergen
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.3   4.4e-05      0.39      23      40 ..      93     107 ..      90     110 .. 0.91
   2 ?   -2.8   0.1      0.69   6.2e+03      23      31 ..     135     142 ..     133     143 .. 0.66

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 4.4e-05
           Amb_V_allergen  23 GrYCPWqvVCYeSkkiCa 40 
                              Gr C   v+C+e k iC 
  PHY93_09245|PHY93_09245  93 GRVC---VICFEDKMICK 107
                              999*...**********7 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 0.69
           Amb_V_allergen  23 GrYCPWqvV 31 
                              G  C W vV
  PHY93_09245|PHY93_09245 135 GLIC-WGVV 142
                              4557.8777 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (148 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       485  (0.0270511); expected 358.6 (0.02)
Passed bias filter:                      381  (0.0212505); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.40u 0.19s 00:00:00.59 Elapsed: 00:00:00.36
# Mc/sec: 1233.19
//
Query:       PHY93_09250|PHY93_09250  [L=197]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.4e-18   65.7   0.0    9.2e-18   64.7   0.0    1.5  1  Methyltransf_11  Methyltransferase domain
    1.3e-17   64.2   0.0    2.6e-17   63.3   0.0    1.5  1  Methyltransf_25  Methyltransferase domain
    3.1e-17   63.1   0.0    5.1e-17   62.4   0.0    1.4  1  Methyltransf_12  Methyltransferase domain
    9.6e-16   57.9   0.0    1.2e-15   57.6   0.0    1.2  1  Methyltransf_31  Methyltransferase domain
    1.9e-15   57.1   0.0    2.5e-15   56.7   0.0    1.1  1  Methyltransf_23  Methyltransferase domain
    1.7e-07   31.0   0.0    2.5e-07   30.4   0.0    1.2  1  MTS              Methyltransferase small domain
    2.1e-07   30.5   0.0    2.9e-07   30.1   0.0    1.1  1  Ubie_methyltran  ubiE/COQ5 methyltransferase family
    2.1e-07   30.2   0.0    2.4e-07   30.0   0.0    1.1  1  Methyltransf_9   Protein of unknown function (DUF1698)
    3.5e-05   23.5   0.0    4.8e-05   23.1   0.0    1.1  1  NodS             Nodulation protein S (NodS)
    0.00014   21.4   0.0    0.00019   20.9   0.0    1.1  1  PrmA             Ribosomal protein L11 methyltransferase (Prm
    0.00025   20.4   0.0    0.00051   19.4   0.0    1.4  1  CMAS             Mycolic acid cyclopropane synthetase
    0.00059   19.0   0.0      0.001   18.2   0.0    1.4  1  RrnaAD           Ribosomal RNA adenine dimethylase
    0.00085   19.1   0.0     0.0012   18.6   0.0    1.2  1  Methyltransf_16  Lysine methyltransferase
     0.0014   18.0   0.0     0.0016   17.9   0.0    1.1  1  TehB             Tellurite resistance protein TehB
     0.0019   17.1   0.0     0.0024   16.8   0.0    1.2  1  LEF-4            Late expression factor 4 (LEF-4)
  ------ inclusion threshold ------
      0.012   15.6   0.0      0.017   15.1   0.0    1.3  1  Methyltransf_32  Methyltransferase domain
      0.019   14.5   0.0       0.03   13.9   0.0    1.3  1  MetW             Methionine biosynthesis protein MetW
      0.036   13.6   0.0        3.4    7.1   0.0    2.6  2  CheR             CheR methyltransferase, SAM binding domain


Domain annotation for each model (and alignments):
>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.7   0.0   9.3e-21   9.2e-18       1      96 []      40     134 ..      40     134 .. 0.95

  Alignments for each domain:
  == domain 1  score: 64.7 bits;  conditional E-value: 9.3e-21
                              EEET-TTSHHHHHHHHTTSEEEEEES-HHHHHHHHHHCCHHT-EEEETTEECCCTSS-TT-EEEEEEES-CCC-CCHHHHHHHHHH CS
          Methyltransf_11   1 LdvGcGtGrlaealakrgarvvgvDlskemlklakekaseeglkvefvvadaeklpfednsfDlvvssevlhhvedpekalkeiaR 86 
                              L+vGcGtG+l  ++ + +++++gvD+s+ ml++ ++k  ++++ v  +  ++e+  f ++ fDl++ss+++hh+++p+k + ++++
  PHY93_09250|PHY93_09250  40 LEVGCGTGLLGSQFVHGASQLTGVDTSPGMLEVFNQKFYDNKN-VHSRLLNLEEQEFDEDGFDLIISSMAFHHLKEPAKMILKLKK 124
                              89*************666********************99996.88999************************************* PP

                              HEEEEEEEEE CS
          Methyltransf_11  87 vLkpgGllvi 96 
                              +L p+G+l+i
  PHY93_09250|PHY93_09250 125 LLSPDGILAI 134
                              *******986 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.3   0.0   2.7e-20   2.6e-17       1      97 []      39     130 ..      39     130 .. 0.93

  Alignments for each domain:
  == domain 1  score: 63.3 bits;  conditional E-value: 2.7e-20
                              EEEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTTTEEEEESBCCGBSSSTTTEEEEEEESTGGGSSHHHHHHHH CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeeglnvefvqgdaedlpfedgsfDlvvssgalhhlsdedlekal 86 
                              +L++GcGtG l  ++ +   ++++tgvD s++mle  ++++ ++  nv+ +  ++e+ +f+++ fDl++ss+a+hhl+++  +k++
  PHY93_09250|PHY93_09250  39 ILEVGCGTGLLGSQFVHG--ASQLTGVDTSPGMLEVFNQKFYDN-KNVHSRLLNLEEQEFDEDGFDLIISSMAFHHLKEP--AKMI 119
                              8**************966..5********************655.5*************************99***9965..59** PP

                              HHHHHHEEEEE CS
          Methyltransf_25  87 keiarvLkpgG 97 
                               +++++L p+G
  PHY93_09250|PHY93_09250 120 LKLKKLLSPDG 130
                              *********99 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.4   0.0   5.1e-20   5.1e-17       1      99 []      40     132 ..      40     132 .. 0.93

  Alignments for each domain:
  == domain 1  score: 62.4 bits;  conditional E-value: 5.1e-20
          Methyltransf_12   1 LeiGcGtGsllralleklpdieytgvDispsaiedakeklakrennnnnnvelealdlldldggssfDlvvasnvlhhlkdirevl 86 
                              Le+GcGtG l + +      +++tgvD sp ++e   +k+ +++n +   ++le+++ +++     fDl+++s ++hhlk++++++
  PHY93_09250|PHY93_09250  40 LEVGCGTGLLGSQFVHG--ASQLTGVDTSPGMLEVFNQKFYDNKNVHSRLLNLEEQEFDED----GFDLIISSMAFHHLKEPAKMI 119
                              8****************..**************9999999999999999999888885443....8******************** PP

          Methyltransf_12  87 dnirklLkpgGrl 99 
                               +++klL+p+G+l
  PHY93_09250|PHY93_09250 120 LKLKKLLSPDGIL 132
                              ***********87 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.6   0.0   1.2e-18   1.2e-15       2     114 ..      34     146 ..      33     192 .. 0.76

  Alignments for each domain:
  == domain 1  score: 57.6 bits;  conditional E-value: 1.2e-18
          Methyltransf_31   2 dkglrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielArenaqklgldnveFeqgdieelekl.ledekfDlilsnevlna 86 
                              ++++++l++GCGtG l+ ++ +     ++++G+D s+ ++e+ ++    +++dn +++     +le++ + ++ fDli+s  ++++
  PHY93_09250|PHY93_09250  34 KDAIKILEVGCGTGLLGSQFVH---GASQLTGVDTSPGMLEVFNQ----KFYDNKNVHS-RLLNLEEQeFDEDGFDLIISSMAFHH 111
                              6899*****************4...3689*************999....5777555443.333444444999************** PP

          Methyltransf_31  87 ladpdkileeiervlkpggilliedpr.......l 114
                              l++p+k + +++++l+p+gil+i d +        
  PHY93_09250|PHY93_09250 112 LKEPAKMILKLKKLLSPDGILAIIDLDaedgsfhP 146
                              *************************9944444440 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.7   0.0   2.5e-18   2.5e-15      13     136 ..      27     169 ..      15     185 .. 0.72

  Alignments for each domain:
  == domain 1  score: 56.7 bits;  conditional E-value: 2.5e-18
          Methyltransf_23  13 lerllpklraggrvLdiGcGtGillevlrengfsvtgvDlspeaveiae....kakkaqkdqfdeq.....eaaepqgkfdlIvlr 89 
                              +++ l+ ++   ++L++GcGtG l + +     ++tgvD sp + e         k+ ++           e +++++ fdlI+++
  PHY93_09250|PHY93_09250  27 IKKHLT-KKDAIKILEVGCGTGLLGSQFVHGASQLTGVDTSPGMLEVFNqkfyDNKNVHS-----RllnleEQEFDEDGFDLIISS 106
                              444443.667779*********66665544444*********988876444443333333.....2555448888999******** PP

          Methyltransf_23  90 evlehvpdppellrqiatllkpgGylllseplasl................kedrllldwlyl 136
                              + ++h++ p++ + ++++ll+p+G l + + +a++                 +++ +++w  +
  PHY93_09250|PHY93_09250 107 MAFHHLKEPAKMILKLKKLLSPDGILAIIDLDAEDgsfhpdpkqmgvhhfgFAKETIQSWSSA 169
                              *******************************99887777765555555544344444445444 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.4   0.0   2.5e-10   2.5e-07      25     138 ..      29     135 ..      24     141 .. 0.88

  Alignments for each domain:
  == domain 1  score: 30.4 bits;  conditional E-value: 2.5e-10
                              HHCHCCTCSEEEEET-TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHTTGCEEEEE-STT.TTSTTS-EEEEEE---STT CS
                      MTS  25 etlpkelsgkvlDlGcGaGvlgaalakespeaevtlvdvdarAlesakenleanklevevvasdvl.eeveekkfdlivsNPPfha 109
                              ++l+k+ + k+l +GcG+G+lg ++ +  ++  +t vd +   le+ ++ + +nk  v+ +  ++  +e++e+ fdli+s   fh+
  PHY93_09250|PHY93_09250  29 KHLTKKDAIKILEVGCGTGLLGSQFVHGASQ--LTGVDTSPGMLEVFNQKFYDNKN-VHSRLLNLEeQEFDEDGFDLIISSMAFHH 111
                              6899999999***************997777..9*******************995.66666666515677999************ PP

                              TCHCHHHHHHHHHHHHHHHEEEEEEEEEE CS
                      MTS 110 gkatelavaeeliaeAkeaLkegGeLliV 138
                               k+       ++i + k+ L+++G L i+
  PHY93_09250|PHY93_09250 112 LKE-----PAKMILKLKKLLSPDGILAII 135
                              999.....78899999********99997 PP

>> Ubie_methyltran  ubiE/COQ5 methyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.1   0.0   2.9e-10   2.9e-07      13     154 ..       4     137 ..       2     145 .. 0.87

  Alignments for each domain:
  == domain 1  score: 30.1 bits;  conditional E-value: 2.9e-10
                              XX-HHHHHHHHHHHHHTTTHHHHHHHHHHH--S--TTEEEEES-TT-HHHHHHHHHHHHHHEEEEEES-HHHHHHHHHHHHHHTSS CS
          Ubie_methyltran  13 fesvaskyDlmndvlslgihrlWkkfveklvavkrgakvlDvagGtgDlafklsdsvgekgkvvvlDinenmLkvgekklkeegki 98 
                              f+++a+ +D+  ++   +  + + + ++k  ++k + k+l+v +Gtg l  ++ +      +++++D ++ mL+v ++k  ++  +
  PHY93_09250|PHY93_09250   4 FNQIANTWDTPEKI---KLNQQYAEGIKKHLTKKDAIKILEVGCGTGLLGSQFVH---GASQLTGVDTSPGMLEVFNQKFYDNKNV 83 
                              77777777777664...56667888999999****************99987755...556899****************998766 PP

                              TEEEEE--TTT-TTS-T-EEEEEEES-GGG-S-HHHHHHHHHHHEEEEEEEEEEEE CS
          Ubie_methyltran  99 nieflqanaeeLpfeddsfDvvtvsfGlrnvtDklkaLkeayrvlkpGGrlvvlef 154
                              + ++l  n ee +f++d fD++  s  +  + +  k + ++ + l p G+l ++++
  PHY93_09250|PHY93_09250  84 HSRLL--NLEEQEFDEDGFDLIISSMAFHHLKEPAKMILKLKKLLSPDGILAIIDL 137
                              66666..88999***************************************99975 PP

>> Methyltransf_9  Protein of unknown function (DUF1698)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.0   0.0   2.5e-10   2.4e-07     107     217 ..      27     134 ..      18     180 .. 0.86

  Alignments for each domain:
  == domain 1  score: 30.0 bits;  conditional E-value: 2.5e-10
                              HGGGS.--TT-EEEEET-TTSHHHHHHHHCT-SEEEEE---HHHHHHHHHHHCCTTTTSSEEEE---GGGS-T.---EEEEEEES- CS
           Methyltransf_9 107 vlphlsdlkgrtildvGcgnGyhlwrmvgegaklvvGidPselfliqfeavrkllgedqrahllplgieqlpe.leafdtvfsmGv 191
                              +++hl++    +il+vGcg+G    + v +ga++  G+d s   l  f+  +k+ ++++    l l +e+ +   ++fd + s   
  PHY93_09250|PHY93_09250  27 IKKHLTKKDAIKILEVGCGTGLLGSQFV-HGASQLTGVDTSPGMLEVFN--QKFYDNKNVHSRL-LNLEEQEFdEDGFDLIISSMA 108
                              899****99************9887776.799999**********9998..6888777766666.99998876589*******99* PP

                              GGG-S-HHHHHHHHHCTEEEEEEEEE CS
           Methyltransf_9 192 lyhrrsPldhllqlkdqlvkgGelvl 217
                              ++h + P   +l+lk+ l  +G l +
  PHY93_09250|PHY93_09250 109 FHHLKEPAKMILKLKKLLSPDGILAI 134
                              **********************8865 PP

>> NodS  Nodulation protein S (NodS)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.1   0.0   4.8e-08   4.8e-05      29     142 ..      21     132 ..       7     140 .. 0.82

  Alignments for each domain:
  == domain 1  score: 23.1 bits;  conditional E-value: 4.8e-08
                     NodS  29 erlaqilrlslaqgsiadalevGcaaGalterlapyckrltvvdvveeaiararervkesshiswivsdvqqfstd.ekfdlivva 113
                              +++a+ ++  l+++++ ++levGc +G l  ++   + +lt vd  +  ++  +++  +  ++     ++++ + d + fdli+ +
  PHY93_09250|PHY93_09250  21 QQYAEGIKKHLTKKDAIKILEVGCGTGLLGSQFVHGASQLTGVDTSPGMLEVFNQKFYDNKNVHSRLLNLEEQEFDeDGFDLIISS 106
                              45666677788999999**********************************9999998877777766666555544147******* PP

                     NodS 114 evlyyiedvaelraavrnlvsllapdgql 142
                                ++++++ a++      l +ll+pdg l
  PHY93_09250|PHY93_09250 107 MAFHHLKEPAKMI---LKLKKLLSPDGIL 132
                              ********99995...5566778888766 PP

>> PrmA  Ribosomal protein L11 methyltransferase (PrmA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.9   0.0   1.9e-07   0.00019     160     256 ..      33     132 ..      21     135 .. 0.78

  Alignments for each domain:
  == domain 1  score: 20.9 bits;  conditional E-value: 1.9e-07
                     PrmA 160 kege.evlDvGtGSGiLaiaaakLgakkvvavDiDevAvkvakeNaelN.kveaklevalseellkeekadvivaNILaevlie.. 241
                              k+++ ++l vG+G+G+L       ga++ ++vD+ +  ++v ++ +  N +v+++l ++l+e+ ++e  +d+i++ +  + l e  
  PHY93_09250|PHY93_09250  33 KKDAiKILEVGCGTGLLG-SQFVHGASQLTGVDTSPGMLEVFNQKFYDNkNVHSRL-LNLEEQEFDEDGFDLIISSMAFHHLKEpa 116
                              3343599**********9.45667******************99999994566677.889988888899******99888886522 PP

                     PrmA 242 .laedikklvkeggll 256
                               ++ ++kkl+ ++g+l
  PHY93_09250|PHY93_09250 117 kMILKLKKLLSPDGIL 132
                              2555666677777765 PP

>> CMAS  Mycolic acid cyclopropane synthetase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.4   0.0   5.1e-07   0.00051      56     164 ..      29     134 ..       4     147 .. 0.85

  Alignments for each domain:
  == domain 1  score: 19.4 bits;  conditional E-value: 5.1e-07
                              TTTT--TT-EEEEES-TTSHHHHHHHHHH--EEEEEES-HHHHHHHHHHHHTS-SSS-EEEEES-GGG---.--SEEEEES-GGGT CS
                     CMAS  56 eklelkpGmtlLdiGcGWGslvrraverydvkvvglTlSkeqaklakkrvdeldlerkvevklldyedlde.kvdrvvsvgafehv 140
                              + l+ k+  ++L++GcG G l  + v+    +  g+  S    ++ ++++ +  + +++ ++l + +++de  +d ++s  af h+
  PHY93_09250|PHY93_09250  29 KHLTKKDAIKILEVGCGTGLLGSQFVHG-ASQLTGVDTSPGMLEVFNQKFYDNKNVHSRLLNLEE-QEFDEdGFDLIISSMAFHHL 112
                              5566778889****************99.999*****************9999877776666655.7888879************9 PP

                              SGGGHHHHHHHHHHHS-TT-EEEE CS
                     CMAS 141 gkenydtffkklkkllkedGllll 164
                              ++   ++ + klkkll +dG+l++
  PHY93_09250|PHY93_09250 113 KEP--AKMILKLKKLLSPDGILAI 134
                              765..6788899999999999876 PP

>> RrnaAD  Ribosomal RNA adenine dimethylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.0     1e-06     0.001      14      79 ..      19      84 ..      11     105 .. 0.92

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 1e-06
                             --HHHHHHHHHHH-GGTTSEEEEES-TTTCCHHHHHCC-SEEEEE-S-HHHHHHHHCHTTTCCCEE CS
                   RrnaAD 14 knkkvineIldklnleekltvleigpGkGilTeeLakrakqvvvlElderLakllqkklskdeklk 79
                              n++ +++I ++l  ++  ++le+g G+G+l  +++  a q++ +   + ++++ ++k+ +++++ 
  PHY93_09250|PHY93_09250 19 LNQQYAEGIKKHLTKKDAIKILEVGCGTGLLGSQFVHGASQLTGVDTSPGMLEVFNQKFYDNKNVH 84
                             6899999999999999*******************************************9999885 PP

>> Methyltransf_16  Lysine methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.0   1.3e-06    0.0012      39     150 ..      26     129 ..       7     139 .. 0.78

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 1.3e-06
          Methyltransf_16  39 e..lganelsklsvlELGsGtGlvGlavaellpeakviltDlee.llellkknielnknalkskvkvevLdWgeeleedllekeev 121
                              +  ++ ++   +++lE+G GtGl G  + +     +++  D++  +le+ ++    nk     +v+ + L+ +e    + +++  +
  PHY93_09250|PHY93_09250  26 GikKHLTKKDAIKILEVGCGTGLLGSQFVHG--ASQLTGVDTSPgMLEVFNQKFYDNK-----NVHSRLLNLEE----QEFDEDGF 100
                              344566788999*************998877..7788888887669999999888866.....99999998755....55788899 PP

          Methyltransf_16 122 DlilaaDcvYledslelLvkvLkellkke 150
                              Dli+ +      +   +++  Lk+ll+++
  PHY93_09250|PHY93_09250 101 DLIISSMAFHHLKEPAKMILKLKKLLSPD 129
                              ***99988888888888888888888776 PP

>> TehB  Tellurite resistance protein TehB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.0   1.6e-06    0.0016      31     133 ..      36     135 ..      13     187 .. 0.76

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 1.6e-06
                              S-EEEEES-TTSHHHHHHHHTT-EEEEEES-HHHHHHHHHHHHHTT-TTEEEEE--GGG----S-.EEEEEEESSGGGS-GGGHHH CS
                     TehB  31 pgkvldlgcgqgrnslylsllgydvtawdknensiafleeikekenlknistalydineaklder.ydfilstvvlmfleaerips 115
                                k+l++gcg g     +     ++t +d     ++ +++    +n kn++++l++++e ++de+ +d+i+s++ +  l++   ++
  PHY93_09250|PHY93_09250  36 AIKILEVGCGTGLLGSQFVHGASQLTGVDTSPGMLEVFNQKF-YDN-KNVHSRLLNLEEQEFDEDgFDLIISSMAFHHLKEP--AK 117
                              5799********876666667789999999888777766543.344.4599***********98659******999998764..57 PP

                              HHHHHHHTEEEEEEEEEE CS
                     TehB 116 iienmqectkvggynliv 133
                              +i  +++   + g   i+
  PHY93_09250|PHY93_09250 118 MILKLKKLLSPDGILAII 135
                              777777777777765554 PP

>> LEF-4  Late expression factor 4 (LEF-4)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   2.4e-06    0.0024     353     415 ..      53     115 ..      21     125 .. 0.88

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 2.4e-06
                    LEF-4 353 llnkntladlvtdsgtlyelriqefvkeklaesnvanyeadrvplDGlvvvtregelvKlKte 415
                              +++   +   v+ s+ ++e+  q+f+++k  +s + n e ++   DG+  + +++ ++ lK  
  PHY93_09250|PHY93_09250  53 FVHGASQLTGVDTSPGMLEVFNQKFYDNKNVHSRLLNLEEQEFDEDGFDLIISSMAFHHLKEP 115
                              56666777889****************************************9**999999975 PP

>> Methyltransf_32  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.1   0.0   1.7e-05     0.017       8      70 ..      22      76 ..      15     120 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.7e-05
          Methyltransf_32  8 rlaelvakllkelakesgaltvvDvGaGkgYLsfvlalkekeyklkvvgidakeelvekaekr 70
                             ++ae ++k l++    ++a+++++vG+G g L++   +       +++g+d++  + e  ++ 
  PHY93_09250|PHY93_09250 22 QYAEGIKKHLTK----KDAIKILEVGCGTGLLGSQFVH---G-ASQLTGVDTSPGMLEVFNQK 76
                             566666665555....99****************9999...4.8999*****99988887765 PP

>> MetW  Methionine biosynthesis protein MetW
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0     3e-05      0.03      13      96 ..      35     120 ..      25     133 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 3e-05
                     MetW  13 pgsrvldlGcGdGellellkeekqvdgrGleldeegvaecvak...Glsviqgdldkdlenfedksfdyvvlsqtlqatrnpkevl 95 
                              +  ++l++GcG G l + + +    +  G++++   +    +k     +v+   l+ + ++f+++ fd+++ s ++  +++p++++
  PHY93_09250|PHY93_09250  35 DAIKILEVGCGTGLLGSQFVH-GASQLTGVDTSPGMLEVFNQKfydNKNVHSRLLNLEEQEFDEDGFDLIISSMAFHHLKEPAKMI 119
                              5679*********99766644.3445567777754443333331115689999999999**********************99875 PP

                     MetW  96 d 96 
                               
  PHY93_09250|PHY93_09250 120 L 120
                              4 PP

>> CheR  CheR methyltransferase, SAM binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.1   0.0    0.0034       3.4      14      90 ..      18      83 ..       5      87 .. 0.67
   2 ?    4.6   0.0     0.021        21     118     173 ..      81     134 ..      78     138 .. 0.82

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.0034
                             HHHHCCH.HHHHHHHTSSSEEEEEES-TTTHHHHHHHHHHHCHSTTTSSS-EEEEEEESSCHHHHHHHHTEEECCHH CS
                     CheR 14 elekevlepllakaknekrvriwsagcssGeEpYslAmllketlpkaaklkvkilAtDidlkvlekAkagvykeeel 90
                             +l+++  e   ++ +++  ++i+++gc++G        ll +++ + a+   +++++D +  +le  ++ +y+++++
  PHY93_09250|PHY93_09250 18 KLNQQYAEGIKKHLTKKDAIKILEVGCGTG--------LLGSQFVHGAS---QLTGVDTSPGMLEVFNQKFYDNKNV 83
                             5666666566667777789**********9........34443433444...6777777777777777777777665 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.021
                              TTEEEEE--TTT-SGGG--EEEEEE-SSGGGC-CHHHHHHHHHHHCCEEEEEEEEE CS
                     CheR 118 elvkFeklnllekksvlgklDvifcrnvliYfdeetqekvlerfaeklkpgglLll 173
                              ++v+ + lnl e++  ++ +D+i++   +  ++e   +k++ ++ + l+p+g+L +
  PHY93_09250|PHY93_09250  81 KNVHSRLLNLEEQEFDEDGFDLIISSMAFHHLKE--PAKMILKLKKLLSPDGILAI 134
                              6788899999998888999*****9755555555..5678999*********9976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (197 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       637  (0.035529); expected 358.6 (0.02)
Passed bias filter:                      528  (0.0294495); expected 358.6 (0.02)
Passed Vit filter:                        55  (0.00306766); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              18  [number of targets reported over threshold]
# CPU time: 0.47u 0.20s 00:00:00.67 Elapsed: 00:00:00.36
# Mc/sec: 1629.80
//
Query:       PHY93_09255|PHY93_09255  [L=212]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.2e-13   48.9   2.3    8.4e-13   48.4   2.3    1.2  1  BON       BON domain
  ------ inclusion threshold ------
       0.16   11.1   0.1       0.23   10.6   0.1    1.2  1  Plavaka   Plavaka transposase


Domain annotation for each model (and alignments):
>> BON  BON domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.4   2.3   9.4e-17   8.4e-13       1      68 [.     138     205 ..     138     206 .. 0.98

  Alignments for each domain:
  == domain 1  score: 48.4 bits;  conditional E-value: 9.4e-17
                              EHHCCHHHHHHHHHHHCHTTGCCCEEEEETTCEEEECEEECHHHHHHHHHHHHCCTTEEEEEEEEEEE CS
                      BON   1 dDaeiaakvkaalakdggldaadinVevenGvVtLsGtVdseaekekAveiarnvaGVkkVvnelkvr 68 
                              +D+ i+++v + l kd+++da++i Vev++G V LsG+V +++++  A+ ++ ++ GV+++ n+++v+
  PHY93_09255|PHY93_09255 138 SDERIEEDVCELLTKDKNIDASEIVVEVKDGLVKLSGNVEDREDRVEAEMLVHSILGVEDIQNDISVK 205
                              79****************************************************************98 PP

>> Plavaka  Plavaka transposase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.1   2.6e-05      0.23      38     103 ..      24      92 ..       6     103 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 2.6e-05
                  Plavaka  38 kwmkeeyelwfrdplevikellgnpdfad.eldyaPereytde..kkgervysemmtgdwaweqqieek 103
                              k + ++  l  r+ l+  ++l+++pdf++ e +y+++ ey+++   +++r +++  +gd  +e q++++
  PHY93_09255|PHY93_09255  24 KRKATPERLESRERLRHDHDLISEPDFHGrESSYRARAEYDNSfiIDDDREWKNAPSGDLSFEEQYKTD 92 
                              55555666777888888899********9899*********9887677*****************6643 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (212 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       678  (0.0378158); expected 358.6 (0.02)
Passed bias filter:                      407  (0.0227007); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.41u 0.23s 00:00:00.64 Elapsed: 00:00:00.37
# Mc/sec: 1726.75
//
Query:       PHY93_09260|PHY93_09260  [L=164]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.7e-20   71.8   0.1    6.7e-20   71.6   0.1    1.1  1  AHSA1     Activator of Hsp90 ATPase homolog 1-like protein


Domain annotation for each model (and alignments):
>> AHSA1  Activator of Hsp90 ATPase homolog 1-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   71.6   0.1   3.7e-24   6.7e-20       1     125 []      14     162 ..      14     162 .. 0.91

  Alignments for each domain:
  == domain 1  score: 71.6 bits;  conditional E-value: 3.7e-24
                              SS-HHHHHHHHH-HHHHHHH.....EEEEEEEE--STTEEEEE.EETTTSEEEEEEEEEEEEETTTEEEEEEEEETSET....... CS
                    AHSA1   1 dapperVfraltdpellkrW.....ftlteaemdlrpGgkfrl.rdspdgkefgnegeylevvpperlvytwrledepe....... 73 
                              +a+++++f++ tdp  +++W     +++++ ++dl pGg +++  + p+g++++++ +y+e+v +e++v+  ++ d+++       
  PHY93_09260|PHY93_09260  14 NASRKLLFKVHTDPRDMANWfgpkrLKTEVYKFDLSPGGLVHYsLTAPEGHQVWGRFVYREIVLNEKIVFVSSFSDKDAaisrhpm 99 
                              5899****************99999999***********99999788************************999999999****** PP

                              ....EEEEEEEEEEEEETTEEEEEEEE.....EEEEHCHHHHHH...HHHHHHHHHHHHHHHHH CS
                    AHSA1  74 ....eeestvtieleeegggTrltlth.....tglprkqkeeeg...veeGweqsldqLkalle 125
                                  + e  +t+ +++++ +T+ltl++     ++++rk  ee g    ++Gw++++d L+++l+
  PHY93_09260|PHY93_09260 100 iatwPLEVLCTVIFTKQKAQTTLTLKAipinaNEIERKTFEE-GhreIQKGWTATFDHLEDYLD 162
                              ****99*********************999974444433333.44669*************985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (164 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       428  (0.0238719); expected 358.6 (0.02)
Passed bias filter:                      382  (0.0213063); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.23s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 1253.81
//
Query:       PHY93_09265|PHY93_09265  [L=216]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.4e-09   36.0   0.0    6.8e-09   35.4   0.0    1.2  1  SLT       Transglycosylase SLT domain
  ------ inclusion threshold ------
      0.026   13.8   0.0      0.047   12.9   0.0    1.3  1  SLT_2     Transglycosylase SLT domain


Domain annotation for each model (and alignments):
>> SLT  Transglycosylase SLT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.4   0.0   7.6e-13   6.8e-09       8     103 ..      97     196 ..      91     204 .. 0.88

  Alignments for each domain:
  == domain 1  score: 35.4 bits;  conditional E-value: 7.6e-13
                              HHHTS-HHHHHHHHHHHHTT-TT-B-TTSEBTTTTBETTTHHHHHHHHT....-SHHHHCSHHHHHHHHHHHHHHHHHTTTTHHHH CS
                      SLT   8 kkygvepsllaaiaqvESgfnpkAvsksgavGLmQimpstakrlglrvk....lsedelldPeknisagakyLkslykqyngslll 89 
                              +ky++ep++++ai+ +ES+fn + vs+sg++ + Q++ +  ++  +r++    +  +   d + ++++ a++L+ l ++y+++ ++
  PHY93_09265|PHY93_09265  97 SKYKIEPQIIVAIIDTESKFNHELVSSSGDLSMAQVNVEVWNKEFMRMNldliEPSKLKVDQVYSLEVMAQILQILKTRYEKKDRR 182
                              69***********************************999999888888899444455568999******************9999 PP

                              HHHHHHH-HHHHHH CS
                      SLT  90 alaAYNaGegtvkk 103
                               +a Y++ + ++k+
  PHY93_09265|PHY93_09265 183 WYARYHSKTKKHKR 196
                              99999987777776 PP

>> SLT_2  Transglycosylase SLT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   5.2e-06     0.047      70     105 ..      85     120 ..      79     150 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 5.2e-06
                    SLT_2  70 lkehaallariekeyGVpaeiivAiwgvEtryGknt 105
                              l++ a  ++++ ++y ++++iivAi+  E+++ ++ 
  PHY93_09265|PHY93_09265  85 LNDVAGKIHQVFSKYKIEPQIIVAIIDTESKFNHEL 120
                              5666777889999******************97665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (216 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       867  (0.0483574); expected 358.6 (0.02)
Passed bias filter:                      381  (0.0212505); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.38
# Mc/sec: 1715.75
//
Query:       PHY93_09270|PHY93_09270  [L=121]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.9e-17   61.3   1.0    1.1e-16   60.9   1.0    1.2  1  BON       BON domain


Domain annotation for each model (and alignments):
>> BON  BON domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.9   1.0   6.1e-21   1.1e-16       1      68 [.      45     112 ..      45     113 .. 0.98

  Alignments for each domain:
  == domain 1  score: 60.9 bits;  conditional E-value: 6.1e-21
                              EHHCCHHHHHHHHHHHCHTTGCCCEEEEETTCEEEECEEECHHHHHHHHHHHHCCTTEEEEEEEEEEE CS
                      BON   1 dDaeiaakvkaalakdggldaadinVevenGvVtLsGtVdseaekekAveiarnvaGVkkVvnelkvr 68 
                              +D+ i+++v + l kd+++da+di+V+v+nG V+LsGtV+s+++k  A+ +++++ G++++ n++k+r
  PHY93_09270|PHY93_09270  45 SDERIQEEVCDTLMKDRDIDASDIEVKVKNGTVVLSGTVASRSDKFDAEMAIEKIVGIEDIQNNIKLR 112
                              79***************************************************************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (121 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       617  (0.0344135); expected 358.6 (0.02)
Passed bias filter:                      354  (0.0197445); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.37u 0.21s 00:00:00.57 Elapsed: 00:00:00.35
# Mc/sec: 1027.74
//
Query:       PHY93_09275|PHY93_09275  [L=156]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.036   12.7   0.2      0.043   12.4   0.2    1.0  1  ATG22     Vacuole effluxer Atg22 like


Domain annotation for each model (and alignments):
>> ATG22  Vacuole effluxer Atg22 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.2   2.4e-06     0.043     323     384 ..      58     124 ..      27     125 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 2.4e-06
                    ATG22 323 lsivaviaavlGaflwplvsrrlnlktkktllaiivlfeliplyGllGii.....lgkiGlkqpwEf 384
                              + i  v++a ++ +++  +s+ +  k +++l   ++ + ++ ly+ +G       + k+Gl++++E+
  PHY93_09275|PHY93_09275  58 WDIDRVMMAYISGVTMAQLSTAMTKKNSNWLWGSLIQAPFLLLYATFGWSpsvlvFRKLGLRTRFEI 124
                              66777899999999999********************************99999**********996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (156 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       556  (0.0310112); expected 358.6 (0.02)
Passed bias filter:                      411  (0.0229238); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 1177.75
//
Query:       PHY93_09280|PHY93_09280  [L=482]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    6.5e-38  129.6   0.0    3.8e-24   85.1   0.0    2.4  2  PLDc_2          PLD-like domain
    1.7e-12   47.0   0.2    1.6e-05   24.9   0.0    3.0  3  PLDc            Phospholipase D Active site motif
    6.5e-07   29.2   7.0    1.4e-06   28.2   7.0    1.6  1  PLDc_N          Phospholipase_D-nuclease N-terminal
     0.0047   16.1   0.0       0.33   10.1   0.0    2.2  2  Regulator_TrmB  Archaeal transcriptional regulator TrmB


Domain annotation for each model (and alignments):
>> PLDc_2  PLD-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.3   0.0   1.4e-14   6.1e-11       5     114 ..     136     254 ..     132     278 .. 0.68
   2 !   85.1   0.0   8.6e-28   3.8e-24       1     127 [.     324     446 ..     324     451 .. 0.95

  Alignments for each domain:
  == domain 1  score: 42.3 bits;  conditional E-value: 1.4e-14
                   PLDc_2   5 iksAkksidiatyyfvsdrei....ldallkaakrgvkvrilldskkddagavdeaslkelkellleagvevrvfet......ll. 79 
                              i+++  s+d++ y+  +d  +     +al++a krgvk+r+lld+ + +a++ d +++k+lk+    ag+ ++  ++      ++ 
  PHY93_09280|PHY93_09280 136 IDQSIISCDMVFYIW-NDGGLaddfGEALIRAVKRGVKCRVLLDQ-IGSADFLDGPNAKKLKK----AGIIIQSAMPsglirsFFa 215
                              555556777777777.44443344499*****************8.77666666555555444....4666555542233334224 PP

                   PLDc_2  80 ...gslHaKlylidgktvivGSsNltkr.gldlnlElnv 114
                                  ++H+K+++idg + ++GS Nl +  ++++n  +++
  PHY93_09280|PHY93_09280 216 rpdLRIHRKILIIDGAIGYTGSLNLADPlYFKQNEGVGF 254
                              56689*******************965415566655555 PP

  == domain 2  score: 85.1 bits;  conditional E-value: 8.6e-28
                   PLDc_2   1 liqliksAkksidiatyyfvsdreildallkaakrgvkvrilldskkddagavdeaslkelkellleagvevrvfetllgslHaKl 86 
                              li +i sA++++ + t+yf++++++l al+ aakrgvkv +++++ k d+ + ++as+++lkel   agv+v +f+   g+lH+K 
  PHY93_09280|PHY93_09280 324 LIMAIYSARYRLVVTTPYFIPSESVLYALMTAAKRGVKVILITPE-KVDSILTQYASRSYLKEL-VMAGVQVALFKD--GMLHTKS 405
                              577899**************************************9.67889999**********.99*******966..899**** PP

                   PLDc_2  87 ylidgktvivGSsNltkrgldlnlElnvviedkelakelee 127
                              + +dg+++++G+ Nl++r+l+ n+E+ + i+dk +a+el+e
  PHY93_09280|PHY93_09280 406 VAVDGEYCLFGTLNLDPRSLRINFEFTLAIYDKSFATELNE 446
                              *************************************9987 PP

>> PLDc  Phospholipase D Active site motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.1      0.93   4.2e+03      19      27 ..     180     188 ..     180     188 .. 0.84
   2 !   24.9   0.0   3.5e-09   1.6e-05       4      26 ..     220     242 ..     218     243 .. 0.92
   3 !   18.9   0.0   2.7e-07    0.0012       2      28 .]     398     424 ..     397     424 .. 0.94

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 0.93
                              EE---SSHH CS
                     PLDc  19 vGgaNLcdg 27 
                              +G+a++ dg
  PHY93_09280|PHY93_09280 180 IGSADFLDG 188
                              8****9775 PP

  == domain 2  score: 24.9 bits;  conditional E-value: 3.5e-09
                              EE---EEEETTTEEEEE---SSH CS
                     PLDc   4 thHqKivivDdrvafvGgaNLcd 26 
                              + H+Ki+i+D+++ + G++NL d
  PHY93_09280|PHY93_09280 220 RIHRKILIIDGAIGYTGSLNLAD 242
                              67*******************98 PP

  == domain 3  score: 18.9 bits;  conditional E-value: 2.7e-07
                              TBEE---EEEETTTEEEEE---SSHHH CS
                     PLDc   2 mgthHqKivivDdrvafvGgaNLcdgr 28 
                              +g +H+K v vD+++++ G++NL+ ++
  PHY93_09280|PHY93_09280 398 DGMLHTKSVAVDGEYCLFGTLNLDPRS 424
                              6889********************996 PP

>> PLDc_N  Phospholipase_D-nuclease N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.2   7.0     3e-10   1.4e-06       9      41 ..      22      58 ..      10      59 .. 0.81

  Alignments for each domain:
  == domain 1  score: 28.2 bits;  conditional E-value: 3e-10
                   PLDc_N  9 diir..d.rnpss.klaWllvilflPvlGailYllfG 41
                             ++ r  + r ps+ ++aWl vi+flP++G ilYl +G
  PHY93_09280|PHY93_09280 22 YCTRilErRLPSGvTWAWLSVIFFLPIFGTILYLYLG 58
                             55554234555559********************999 PP

>> Regulator_TrmB  Archaeal transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    3.7   0.0    0.0064        29       8      64 ..     129     188 ..     124     210 .. 0.73
   2 !   10.1   0.0   7.3e-05      0.33       9      95 ..     318     416 ..     315     430 .. 0.69

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.0064
                              HHHHHHHHHHHHHH-SSEEEEEE-GGGHHHHHHHHHHHHHTT-EEEEEESS...----GG CS
           Regulator_TrmB   8 retvierieelIesAenelivslpselLeelreeliaaaergvtVllliyp...dedlee 64 
                              ++++i+ i+++I s +   ++  +  l  ++ e li+a++rgv+  +l+ +   +++l+ 
  PHY93_09280|PHY93_09280 129 FSSMINDIDQSIISCDMVFYIWNDGGLADDFGEALIRAVKRGVKCRVLLDQigsADFLDG 188
                              56677777777777777777777888888999*************999999444333333 PP

  == domain 2  score: 10.1 bits;  conditional E-value: 7.3e-05
                              HHHHHHHHHHHHH-SSEEEEEE-GGGH.HHHHHHHHHHHHTT-EEEEEESS.......----GGGSSSSEEEEEE-S---S.EE.. CS
           Regulator_TrmB   9 etvierieelIesAenelivslpselL.eelreeliaaaergvtVllliyp.......dedleeldleevatevrvrrsgapll.. 84 
                              +++ e +   I+sA++ l+v +p+ +  e +   l+ aa+rgv+V+l+  +       + +++    e v++ v+v+  ++ +l  
  PHY93_09280|PHY93_09280 318 SNIEEVLIMAIYSARYRLVVTTPYFIPsESVLYALMTAAKRGVKVILITPEkvdsiltQYASRSYLKELVMAGVQVALFKDGMLht 403
                              6788889999**********99987642578999***********99877766555542333333333344445555444444455 PP

                              ..EEETTTEEEEE CS
           Regulator_TrmB  85 ..vivDrkrgvva 95 
                                v+vD++++++ 
  PHY93_09280|PHY93_09280 404 ksVAVDGEYCLFG 416
                              6677777777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (482 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       577  (0.0321825); expected 358.6 (0.02)
Passed bias filter:                      477  (0.0266049); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.56u 0.23s 00:00:00.79 Elapsed: 00:00:00.40
# Mc/sec: 3631.64
//
Query:       PHY93_16675|PHY93_16675  [L=202]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (202 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       667  (0.0372023); expected 358.6 (0.02)
Passed bias filter:                      471  (0.0262703); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1484.40
//
Query:       PHY93_09285|PHY93_09285  [L=564]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.9e-22   79.9   0.0    3.6e-22   79.0   0.0    1.5  1  AidB_N          Adaptive response protein AidB N-terminal dom
    1.1e-21   77.6   0.0    1.3e-20   74.2   0.0    2.8  3  Acyl-CoA_dh_1   Acyl-CoA dehydrogenase, C-terminal domain
    7.9e-15   54.8   0.1    1.4e-14   54.1   0.1    1.4  1  Acyl-CoA_dh_M   Acyl-CoA dehydrogenase, middle domain
    0.00013   22.3   0.0    0.00086   19.6   0.0    2.4  2  Acyl-CoA_dh_2   Acyl-CoA dehydrogenase, C-terminal domain
  ------ inclusion threshold ------
      0.069   12.5   0.0        7.5    5.8   0.0    2.2  2  Cellulase-like  Sugar-binding cellulase-like


Domain annotation for each model (and alignments):
>> AidB_N  Adaptive response protein AidB N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.0   0.0     1e-25   3.6e-22       9     155 ..      12     164 ..       6     165 .. 0.91

  Alignments for each domain:
  == domain 1  score: 79.0 bits;  conditional E-value: 1e-25
                   AidB_N   9 vnlfasdpaLqeavaregaaea....aeelaalGellgsaevlelarlanrnpPrlrthDrfGrRiDevefhpayhalmaaaveag 90 
                              +n+f++d++L+++++   ++e      ++l+a+G+ +++ ++  +a++a++npP+l ++D +G+RiD ++++ ++++l + ++e++
  PHY93_09285|PHY93_09285  12 INQFDDDKLLKSFLTIKIPEEYqkeiFANLSAFGQRVIE-DISLMAKDAEENPPQLIQFDCWGNRIDDIKTSRGWKDLHRVSAEEE 96 
                              79************988886664455889**********.9********************************************* PP

                   AidB_N  91 lhasawe.earegahvaraallyllaqveaGhlCPltmThAavpaLk..aepalaeewlpkllsrdYd 155
                              +  + ++ + ++++++ ++ +lyl++   a ++CPl+mT++a+ +++  ++++l+ +   +l+s+d++
  PHY93_09285|PHY93_09285  97 IVRIGYDkNFAQYSRMIQFSKLYLFHPSSAFYSCPLAMTDGAAKLIElyGNEQLKLKAFLHLTSNDPE 164
                              *******9999*********************************994358999999999999888876 PP

>> Acyl-CoA_dh_1  Acyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.0      0.76   2.7e+03      98     148 ..     133     191 ..     124     192 .. 0.77
   2 !   74.2   0.0   3.6e-24   1.3e-20       1     148 [.     283     447 ..     283     449 .. 0.92
   3 ?   -2.1   0.0       1.1     4e+03      64     100 ..     516     548 ..     500     550 .. 0.59

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 0.76
                              HHHHHHHHHHHHHGGGTT.......SGGGHHHHHHHHTHHHHHSSS-HHH.HHHHHHHH CS
            Acyl-CoA_dh_1  98 laqevadlamqllGgaGy.......leeypverlyrdarvlrigeGtsei.qrniiarr 148
                              ++++ a++ ++l+G + +       l+++  e+++  a+ ++   G s++   +++ar 
  PHY93_09285|PHY93_09285 133 AMTDGAAKLIELYGNEQLklkaflhLTSNDPEKFWTSAQWMTEKSGGSDVsATETVARK 191
                              56677888888888888888888866888899999999999998888887567777765 PP

  == domain 2  score: 74.2 bits;  conditional E-value: 3.6e-24
                              TBHHHHHTTTT--S-----..-SHHHHHHHHHHHHHHHTSB-CC-BGGGSHHHHHHHHHHHHHHHHHHHHHHHHHH--------.. CS
            Acyl-CoA_dh_1   1 gkGfrvametlnheRlavaaaalglarraleealeyarrrkafgkplidhqlvreklaemaaeleaarllvyraaealdagkpd.. 84 
                              g+G++++ + +n +Rl +a++a+g++rr+l  a +y+ +rkaf+k + +h+l  + la+ +++ +a   l++ + e +  ++    
  PHY93_09285|PHY93_09285 283 GEGVKLISSMFNITRLYNAVTAIGAFRRVLTLAKDYSGKRKAFKKLINQHPLNIRILAKAQVDFHACFHLTFLISEIIGSEEVFtk 368
                              68*****************************************************************9999999995555554455 PP

                              ...............HHHHHHHHHHHHHHHHHHHHHHHHHHGGGTTSGGGHHHHHHHHTHHHHHSSS-HHHHHHHHHHH CS
            Acyl-CoA_dh_1  85 ...............raeasmaKlfaselaqevadlamqllGgaGyleeypverlyrdarvlrigeGtseiqrniiarr 148
                                             r  + ++Kl++++ ++  +++ ++++ g Gy e  +++rlyrd +v++i+eGt++++ +++ r+
  PHY93_09285|PHY93_09285 369 dnslnlnqeelskilRLLTPIVKLYTAKKVVIWTSELLEVFAGVGYIENSGISRLYRDNQVFSIWEGTTNVLSLDLLRA 447
                              556667777788***********************************************************99988876 PP

  == domain 3  score: -2.1 bits;  conditional E-value: 1.1
                              HHHHHHHHHHHHH--------HHHHHHHHHHHHHHHH CS
            Acyl-CoA_dh_1  64 leaarllvyraaealdagkpdraeasmaKlfaselaq 100
                              ++aa  ++++aa+    ++ ++ ++ ++K+f  + ++
  PHY93_09285|PHY93_09285 516 ITAATGMLEHAAH----ENSSKNAITVVKIFSERNLC 548
                              5555555555554....33336778888888776655 PP

>> Acyl-CoA_dh_M  Acyl-CoA dehydrogenase, middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.1   0.1   3.8e-18   1.4e-14       2      95 ..     171     272 ..     170     274 .. 0.85

  Alignments for each domain:
  == domain 1  score: 54.1 bits;  conditional E-value: 3.8e-18
                              EE---SS-SS-GGG---EEEEETT.EEEEEEEEEEEETTTT-SEEEEEEE...TS---.....----EEEEEEE...GG....GEE CS
            Acyl-CoA_dh_M   2 falTEpqaGsdvasvkttaaerdggeyvlnGeKiwitnaaiatlalvlar...tekpd.....rarglslflvp.rdap....gvs 74 
                               ++TE+++Gsdv + +t +a++ +g++ l G+K++++   +a++al lar   +   +     +++glslf+++ r+++     ++
  PHY93_09285|PHY93_09285 171 QWMTEKSGGSDVSATET-VARKIDGKWKLFGTKWFCSAI-TAHMALALARtedE---AgqtiaGSKGLSLFYIElRKDTgelnHFE 251
                              68***************.66666669**********998.9*********6542...2346899**********7444468889** PP

                              E-----BSS-TTS-EEEEEEE CS
            Acyl-CoA_dh_M  75 vrrieeklGlrglptgelvfe 95 
                              + r++eklG++ lpt+e+ ++
  PHY93_09285|PHY93_09285 252 IIRLKEKLGTNALPTAEIKLN 272
                              *****************9887 PP

>> Acyl-CoA_dh_2  Acyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   0.0   2.4e-07   0.00086       4     131 ..     301     435 ..     298     438 .. 0.80
   2 ?   -1.8   0.0         1   3.6e+03      43      64 ..     508     529 ..     483     541 .. 0.69

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 2.4e-07
                              HHHHHHHHHHHHHHHHHHHHHHHCTTT-------HHHHHHHHHHHHHHHHHHHHH..HHHHHHHHHH.......HHTT----HHHH CS
            Acyl-CoA_dh_2   4 aavalGaAraalaefvelarervrassgekladdpatqlalaeaaarldAArall..eraaaraeal.......aaagkevtvedr 80 
                              a  a+Ga r++l  + ++ ++r+   +++ ++++p     la+a+ + +A   l+   + +   e++         +++e++  +r
  PHY93_09285|PHY93_09285 301 AVTAIGAFRRVLTLAKDYSGKRKA--FKKLINQHPLNIRILAKAQVDFHACFHLTflISEIIGSEEVftkdnslNLNQEELSKILR 384
                              6789********************..99999999999999*********9876541144444445554433333555555566666 PP

                              HHHHHHHHHHHHHHHHHHHHHHHHCGGGGGBTT-HHHHHHHHHHHHCTSGG CS
            Acyl-CoA_dh_2  81 aearraaalavelaiaavdalfeaaGgsalrkesplqRlwRDahaaaaHaa 131
                              +   + ++++++  +  +++l e+++g ++ ++s + Rl+RD ++ +++++
  PHY93_09285|PHY93_09285 385 LLTPIVKLYTAKKVVIWTSELLEVFAGVGYIENSGISRLYRDNQVFSIWEG 435
                              666677************************************999888776 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 1
                              HHHHHHHHHHHHHHHHHHHHHH CS
            Acyl-CoA_dh_2  43 alaeaaarldAAralleraaar 64 
                               la +  ++ AA  +le+aa +
  PHY93_09285|PHY93_09285 508 DLAFSIGNITAATGMLEHAAHE 529
                              5666666778888888888776 PP

>> Cellulase-like  Sugar-binding cellulase-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.0    0.0052        19     261     317 ..      42      95 ..      21     119 .. 0.80
   2 ?    5.8   0.0    0.0021       7.5      32      69 ..     146     182 ..     124     195 .. 0.80

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.0052
                              HHHHHHHHHHHHHHHHHHHHCT--EEE-SECS-SS--S-TT--SHHHHHHHHHHHHH CS
           Cellulase-like 261 eywkrlledelerllafarlrrkplvttegwavvdykdlplLpwgWvkdlielgvet 317
                              + + +++ +++  +++ a  +  +l+  ++w+  +  d  +  +gW  dl++++ e+
  PHY93_09285|PHY93_09285  42 SAFGQRVIEDISLMAKDAEENPPQLIQFDCWG--NRIDDIKTSRGWK-DLHRVSAEE 95 
                              5678899999*********************4..5556667789997.999987654 PP

  == domain 2  score: 5.8 bits;  conditional E-value: 0.0021
                              T--EEEEE--HHHHHH-TT-EEEE--S-SSSSSS-SS- CS
           Cellulase-like  32 GydavRiDafPHLlaadaerewllkpvwnqqdwgspak 69 
                              G + +++ af HL ++d+e+ w+  + w +++ g +++
  PHY93_09285|PHY93_09285 146 GNEQLKLKAFLHLTSNDPEKFWTSAQ-WMTEKSGGSDV 182
                              77889*******************99.66665555543 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (564 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       538  (0.0300073); expected 358.6 (0.02)
Passed bias filter:                      355  (0.0198003); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.63u 0.23s 00:00:00.86 Elapsed: 00:00:00.44
# Mc/sec: 3855.82
//
Query:       PHY93_09290|PHY93_09290  [L=174]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.4e-44  152.2   1.6    1.6e-44  152.0   1.6    1.0  1  YceI      YceI-like domain


Domain annotation for each model (and alignments):
>> YceI  YceI-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  152.0   1.6   8.7e-49   1.6e-44       1     146 []       5     168 ..       5     168 .. 0.93

  Alignments for each domain:
  == domain 1  score: 152.0 bits;  conditional E-value: 8.7e-49
                              EEE-CCC-EEEE........-EEEEECTECCEEEE..TTT..EEEEEEEEGGGEESS.HCHHHHHHCTCTT-TTT--EEEECCCCE CS
                     YceI   1 YtldpahssvtftvkhlgvskvtGrfkkvsgelsvdeddp.essvevtidvasidtgnakrdehlksadffdvakyPtatFvstsv 85 
                              ++ldp+hs+v+f++khl+++kv G f+k++g+l +d +++ +ssv+++i+++s++t+n++rd+h++s dffd++k+P +tF+stsv
  PHY93_09290|PHY93_09290   5 WNLDPSHSNVSFSIKHLMIAKVYGCFEKFTGTLVLDSEELtKSSVKASIETNSVNTRNEERDTHVRSVDFFDTEKFPLITFKSTSV 90 
                              9**********************************9999989*******************************************9 PP

                              E...EEEEEEETTEEEEEEEEEEEEEEE.........CCEECEEEEEGGGGTC.........TTTC-SEEEEEEEEEE CS
                     YceI  86 e.akvtGdLtikGvtkpvtlpvtvngaa.........agfsatgtidrtdFGlkr.......galvgdeveleielea 146
                              + +k+ Gd+ti+G+tkp++l+ +v++++         ++ sat++i+++dFGl++       g lvgdev + +++++
  PHY93_09290|PHY93_09290  91 SdKKIVGDITIHGITKPIELETEVTNEEikdlskntkIRYSATTKIQLKDFGLTWntalgggGLLVGDEVSVMLDIQF 168
                              9988********************97533455555444466********************999**********9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (174 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       569  (0.0317363); expected 358.6 (0.02)
Passed bias filter:                      331  (0.0184617); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 1316.81
//
Query:       PHY93_09295|PHY93_09295  [L=770]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.4e-17   62.9   0.2    9.6e-16   57.6   0.0    2.2  2  MMPL      MMPL family
  ------ inclusion threshold ------
      0.014   15.0   0.3      0.042   13.4   0.0    1.9  3  Gag_p30   Gag P30 core shell protein
       0.14   12.0   0.0       0.42   10.5   0.0    1.7  2  ETF       Electron transfer flavoprotein domain


Domain annotation for each model (and alignments):
>> MMPL  MMPL family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.6   0.0   1.6e-19   9.6e-16      53     305 ..     141     396 ..     121     416 .. 0.84
   2 !    2.7   0.5    0.0084        50     187     291 ..     657     754 ..     574     768 .. 0.67

  Alignments for each domain:
  == domain 1  score: 57.6 bits;  conditional E-value: 1.6e-19
                     MMPL  53 lvdelkkdtkhvgevsdflsdpd....vaaafvSkDgkaaralvtlegdpgs.teadesvaairaaveear...pleglkvevtGp 130
                              lvde  +++++++e+  f+++ +     + +fvS+D+k a +lv+ + d+ +  +++e +++i a +e++      +    +++G 
  PHY93_09295|PHY93_09295 141 LVDES-DREDQLKEANKFFNKLKkatsSERYFVSADKKYAMLLVRPTFDSTNlAKSKELAEKINAGIESLFgqnQETKFPFSLSGR 225
                              56666.667778888888776556667899**************8776554414445556777777777766555788889***** PP

                     MMPL 131 aatladlrdasdrdlklievvtlvvilviLlivyrSlvaallplltvvvsllaalglvlilalllglelstfvlgllvvlliavGt 216
                               +  a+    +++d+ ++++++ + i ++L+  ++ +  al  +++v+  + ++ gl    a++++ ++ +  +g+l ++l + G+
  PHY93_09295|PHY93_09295 226 YVEKAEEVRQFENDIYKTGIISNIAITILLVWGLGTFRGALTTVIVVASAMCVTGGL----AYFAVGQI-NILTGFLLAILSGLGS 306
                              ****************************************99999999888888888....55555555.45678889999***** PP

                     MMPL 217 DYallLvsRyreelaagedreeaviravas.tgkvvtaaGltvaiamlgLvvarlpvlaqvGvaialGvlvdvlivlTllPAllvl 301
                               + + L+ Ry +e+++g d+e+a   ++   + +  + ++lt   +++ L+ ++++ ++++G+ +++G++v  l+ +   P ++ +
  PHY93_09295|PHY93_09295 307 KFGIHLIRRYYQERHKGADKETATRNTYFHlSRRGLFSSALTSSCSFFILAYSNFRGFSELGIIAGIGIIVIYLVFVLSFPMIAKF 392
                              *************************9987615678999************************************877666988888 PP

                     MMPL 302 lGra 305
                              l ++
  PHY93_09295|PHY93_09295 393 LPER 396
                              7666 PP

  == domain 2  score: 2.7 bits;  conditional E-value: 0.0084
                     MMPL 187 lvlilalllglelstfvlgllvvl.liavGtDYallLvsRyreelaagedreeaviravastgkvvtaaGltvaiamlgLvvarlp 271
                              ++l++a++ +  +  ++l+ +++  ++a+G+D  +    R+re  ++g+++        + + ++v   ++t ++ + +L++++ +
  PHY93_09295|PHY93_09295 657 VILLIAFMGIAHVPFTILNVAMIPeVLAAGIDMGVH--IRHRE--KEGHTS----LASAKLISHAVQLGAFTSILGFGSLLFTSSK 734
                              444555555555566666665553377888888876..35555..566766....44556678999******************** PP

                     MMPL 272 vlaqvGvaialGvlvdvliv 291
                              +l++++    lG + + ++ 
  PHY93_09295|PHY93_09295 735 MLQGIAWISILGQVSAYFVC 754
                              ***99988777776666655 PP

>> Gag_p30  Gag P30 core shell protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.1      0.89   5.3e+03     197     208 .]     149     160 ..     145     160 .. 0.88
   2 ?   -3.4   0.0      0.94   5.6e+03       3      42 ..     218     257 ..     217     258 .. 0.79
   3 ?   13.4   0.0     7e-06     0.042     126     204 ..     453     532 ..     440     535 .. 0.82

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 0.89
                  Gag_p30 197 dllkeaekiynk 208
                              d lkea+k +nk
  PHY93_09295|PHY93_09295 149 DQLKEANKFFNK 160
                              889*******98 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 0.94
                  Gag_p30   3 wpfsasdlynwklnnpsfsedpvkltaliesvlvthqptw 42 
                              +pfs s  y  k ++    e+    t +i  + +t    w
  PHY93_09295|PHY93_09295 218 FPFSLSGRYVEKAEEVRQFENDIYKTGIISNIAITILLVW 257
                              7999999999999887766666777999999999876655 PP

  == domain 3  score: 13.4 bits;  conditional E-value: 7e-06
                  Gag_p30 126 lakvkqvvqgkeespaaflerlkeayrrytpydpedpgqeasvilsfiyq.sapdirrklerledlksktlsdllkeaek 204
                              + ++ + + g+  sp+a+l r ke     t +   d   ++   +  iy+   pd++++ +rl+ l+s+      ke ek
  PHY93_09295|PHY93_09295 453 INQLTDTIFGRAISPSAILARDKEQVIALTDWLRSDENAATVDQVVSIYDlVPPDMKKRSKRLKMLRSYVYKVDAKELEK 532
                              33444456799**********************999999998888888872568**************998877888776 PP

>> ETF  Electron transfer flavoprotein domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0         1   6.1e+03      71      95 ..     604     628 ..     603     628 .. 0.88
   2 ?   10.5   0.0     7e-05      0.42      49      94 ..     679     723 ..     673     750 .. 0.77

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 1
                              S--CCHHHHHHHHHHHHC--SEEEE CS
                      ETF  71 gydaeatakalaalikkedpdlvla 95 
                              g+d++  a++l  +i++ +  lv++
  PHY93_09295|PHY93_09295 604 GSDTLVFAEILNHIIEDGKLVLVFF 628
                              57999************99888886 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 7e-05
                              CHHHHHHCT-SEEEEEE-GGGSS--CCHHHHHHHHHHHHC--SEEE CS
                      ETF  49 lrealaamGadkvilvddpalagydaeatakalaalikkedpdlvl 94 
                              + e la  G+d  +++ +++ +g +++a ak+++ +++   ++ +l
  PHY93_09295|PHY93_09295 679 IPEVLA-AGIDMGVHIRHREKEGHTSLASAKLISHAVQLGAFTSIL 723
                              678999.******************************998777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (770 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       985  (0.0549389); expected 358.6 (0.02)
Passed bias filter:                      518  (0.0288917); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.68u 0.23s 00:00:00.91 Elapsed: 00:00:00.39
# Mc/sec: 5890.94
//
Query:       PHY93_09300|PHY93_09300  [L=192]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.4e-18   66.0   1.8    4.2e-18   65.7   1.8    1.1  1  MlaC      MlaC protein
  ------ inclusion threshold ------
      0.028   14.1   0.4       0.07   12.8   0.3    1.6  2  RE_ApaLI  ApaLI-like restriction endonuclease
      0.031   14.6   0.6      0.049   14.0   0.6    1.6  1  DUF3828   Protein of unknown function (DUF3828)


Domain annotation for each model (and alignments):
>> MlaC  MlaC protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.7   1.8   6.9e-22   4.2e-18      25     165 ..      45     182 ..      29     183 .. 0.90

  Alignments for each domain:
  == domain 1  score: 65.7 bits;  conditional E-value: 6.9e-22
                              HHHHHHHHTGGGB-HHHHHHHHHCCHHTTS-HHHHHHHHHHHHHHHHHH.HHHHHHT-SS-EEEE----S-TTTSSEEEEEEEEEE CS
                     MlaC  25 lrekveellepyfdfermarlvlGkywrkatpeqrqrfveaFrellvrt.YasalaeysgqkievkperpspkgkkdvvVkteiiq 109
                              l++k +e++e ++df++m++ +lG++++k ++ + + f +  +e ++r+ Y sa +  ++ ki++k++r++ +   d++V + + +
  PHY93_09300|PHY93_09300  45 LNNKTKEEVELHVDFNEMTKVILGQEVSKRSAGELKWFEATIKEIITRSvYPSAPKFLENVKITYKKTRQNTD---DAKVFSSVSK 127
                              5678899***************************************998355666666689999999998864...699******* PP

                              TTSEEEEEEEEEEEETTEEEEEEEEETTEEHHHHHHHHHHHHHHHHCHHHHHHHHH CS
                     MlaC 110 aggkpikvdYrlrkkggewkiyDviieGvslvatyrsqfasilrqkgidglikkLe 165
                              +g + ++vdY l+k g +wk++Dv i+  s v+t  +  ++++++kg +gl + L+
  PHY93_09300|PHY93_09300 128 KG-ESTDVDYLLKKIGTDWKVVDVSIDDESWVKTINEKVQKTIKEKGWNGLKDLLN 182
                              96.9********999********************************999988887 PP

>> RE_ApaLI  ApaLI-like restriction endonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0      0.33     2e+03     108     121 ..      73      86 ..      50      91 .. 0.83
   2 ?   12.8   0.3   1.2e-05      0.07      59     142 ..      91     175 ..      86     189 .. 0.83

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.33
                 RE_ApaLI 108 ddnayeikwrdatt 121
                              ++ a e+kw +at 
  PHY93_09300|PHY93_09300  73 KRSAGELKWFEATI 86 
                              56788999999986 PP

  == domain 2  score: 12.8 bits;  conditional E-value: 1.2e-05
                 RE_ApaLI  59 grflykyagsfleeatilcfkekfpeakkvkvkntlgqrpktfeidclvddnayeikwrdattdgdhiikeht.rv.kvikdagyk 142
                              +r +y  a  fle++ i   k +  ++  +kv  +++++  + ++d l+++   + k  d + d++  +k    +v k+ik++g+ 
  PHY93_09300|PHY93_09300  91 TRSVYPSAPKFLENVKITYKKTR-QNTDDAKVFSSVSKKGESTDVDYLLKKIGTDWKVVDVSIDDESWVKTINeKVqKTIKEKGWN 175
                              5788999********98755555.566789**********************************9998886431332788888876 PP

>> DUF3828  Protein of unknown function (DUF3828)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.6   8.3e-06     0.049      66     120 ..      98     153 ..       3     155 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 8.3e-06
                  DUF3828  66 eddwvasvkvrpak..adsgkavvdvslgqqeeeaveltVllkkengkWkIddvrdl 120
                              +++++++vk++  k  +++++a+v  s+  +++e ++   llkk+++ Wk+ dv+ +
  PHY93_09300|PHY93_09300  98 APKFLENVKITYKKtrQNTDDAKVFSSV-SKKGESTDVDYLLKKIGTDWKVVDVSID 153
                              5667777777754400456666666666.999999*******************876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (192 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1171  (0.0653132); expected 358.6 (0.02)
Passed bias filter:                      512  (0.0285571); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.43u 0.24s 00:00:00.67 Elapsed: 00:00:00.39
# Mc/sec: 1490.51
//
Query:       PHY93_09305|PHY93_09305  [L=447]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.9e-36  124.3  13.3    9.1e-22   77.8   3.5    2.1  2  OEP       Outer membrane efflux protein
  ------ inclusion threshold ------
       0.58   10.3   5.3       0.36   11.0   2.5    2.1  2  Med9      RNA polymerase II transcription mediator complex su
        4.1    5.5   6.7        1.5    6.9   1.8    2.2  3  YfhO      Bacterial membrane protein YfhO


Domain annotation for each model (and alignments):
>> OEP  Outer membrane efflux protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.8   3.5   1.5e-25   9.1e-22       1     186 [.      34     219 ..      34     221 .. 0.90
   2 !   52.3   2.3   9.9e-18   5.9e-14       6     188 .]     254     441 ..     251     441 .. 0.94

  Alignments for each domain:
  == domain 1  score: 77.8 bits;  conditional E-value: 1.5e-25
                      OEP   1 ldellalalennpdlkaaeaeieaaeanlkaakaeflPtlslsgsygyegngsegggddggtgtt.....svgltlsqplfdggkr 81 
                              l e+++lal+nn+++k + ++ ++a+ +l + ++e lP++s  ++ g  +++  + + + ++++t       ++++ +plf +g+ 
  PHY93_09305|PHY93_09305  34 LKEAIQLALKNNLEIKTESYKSAIAATDLTLIRGELLPKISTIVGVGPINGKKGN-YAFYQDQNTwgaeyIGSIEAKIPLFVWGRG 118
                              689***************************************9999997666433.344444444559*99*************** PP

                      OEP  82 rarvkaakaqleaaeaqleqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislldvlqaqvrllqara 167
                              ++   aa++++e  +++ ++ +++++l++++ay+++++a  +l++  e++k +e+a+++ e++ ++ +    d+l+ +v  +q++ 
  PHY93_09305|PHY93_09305 119 ENLKHAAQLNTELNKLDVNKKQNEIILKLKEAYYGWQYALSLLDFVSETQKDLEDAVKALEKKNEKKE----DLLRLEVFKYQVQE 200
                              ******************************************************************55....89999999999999 PP

                      OEP 168 elaeaeqqlqlaraqLeyl 186
                              +++e   +++la+++   +
  PHY93_09305|PHY93_09305 201 KRIEILKSVNLAQMGVVFY 219
                              9999999999998876555 PP

  == domain 2  score: 52.3 bits;  conditional E-value: 9.9e-18
                      OEP   6 alalennpdlkaaeaeieaaeanlkaakaeflPtlslsgsygyegngsegggddggtgtt......svgltlsqplfdggkrrarv 85 
                              +l+ + +pdl +  + i+a    l a k+++ P +++ + y+y + + ++ ++++   ++      ++g++l++ +   g  +++ 
  PHY93_09305|PHY93_09305 254 DLMNQASPDLIKVNLGIQAKSDVLIAEKKSTRPVFGALLKYDYAQTNQRTAQNNPFIYDPynhsslAAGVGLTWDIDF-GVGQSKQ 338
                              567788**************55555555556******************99999998888****************75.******* PP

                      OEP  86 kaakaqleaaeaqleqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislldvlqaqvrllqaraelae 171
                               +  +++   + +   a++ l+  +++ay+++  a+e+ e++++a+k+a+k l+++e++  +Gl+ + d+++a    + + +++ e
  PHY93_09305|PHY93_09305 339 DKLVLEIAELKSKQLYAKEGLKVLLSKAYMEVGEAQERAETLKKAYKSAKKWLTNIETSVGLGLTPAKDIIDAYTTRALVFKDYYE 424
                              *******************************************************************99***************** PP

                      OEP 172 aeqqlqlaraqLeyllg 188
                              + + +q+++a+L++++g
  PHY93_09305|PHY93_09305 425 SLYRYQMSWARLSEATG 441
                              **************998 PP

>> Med9  RNA polymerase II transcription mediator complex subunit 9
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   2.5   5.9e-05      0.36      22      74 ..     134     190 ..     120     191 .. 0.80
   2 ?   -3.3   0.0       1.7     1e+04      29      44 ..     378     393 ..     369     396 .. 0.49

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 5.9e-05
                     Med9  22 kdletktgelrhkLkka...relirelpg.idrsveeqeaeieeleeqlakKrelLk 74 
                               d+ +k +e+ +kLk+a   +++  +l + +++++++ e+ +++le++++kK++lL+
  PHY93_09305|PHY93_09305 134 LDVNKKQNEIILKLKEAyygWQYALSLLDfVSETQKDLEDAVKALEKKNEKKEDLLR 190
                              577888888888888886665555555555*************************96 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 1.7
                     Med9  29 gelrhkLkkarelire 44 
                                l++ +k+a++ + +
  PHY93_09305|PHY93_09305 378 ETLKKAYKSAKKWLTN 393
                              3444444444444443 PP

>> YfhO  Bacterial membrane protein YfhO
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.9   1.8   0.00026       1.5     705     764 ..     126     187 ..     107     208 .. 0.78
   2 ?   -1.2   0.1     0.072   4.3e+02     567     616 ..     191     239 ..     181     241 .. 0.84
   3 ?    0.2   0.1     0.027   1.6e+02     499     557 ..     247     308 ..     244     322 .. 0.79

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.00026
                     YfhO 705 dkktqllnlgssakgqtlkltl.klpkg.qlslkdlklvrlnqkalkkavkqlkeqslkvvk 764
                              + +t l++l  ++k++++ l+l +   g q+ l+ l +v+++qk l++avk+l++++ k + 
  PHY93_09305|PHY93_09305 126 QLNTELNKLDVNKKQNEIILKLkEAYYGwQYALSLLDFVSETQKDLEDAVKALEKKNEKKED 187
                              46899999999999999999994345568************************996655544 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 0.072
                     YfhO 567 lkkyglikenkqytlyenknalplafltntqlnkeklkkenplenqqall 616
                              l+ ++ + ++k+++++++ n  +++++     ++ kl+++++++n+  ++
  PHY93_09305|PHY93_09305 191 LEVFKYQVQEKRIEILKSVNLAQMGVVFYLG-EELKLDSNSAVQNERLWI 239
                              556777789******************9998.8************98776 PP

  == domain 3  score: 0.2 bits;  conditional E-value: 0.027
                     YfhO 499 ngissfsSilnkaissfld.alg.qresn.sriryangtllldsLlgvkyyiankaeeqalp 557
                              +++++++  +n+a++++ + +lg q +s+    ++   +++  +Ll++ y  +n+++ q+ p
  PHY93_09305|PHY93_09305 247 KSANYYFDLMNQASPDLIKvNLGiQAKSDvLIAEKKSTRPVFGALLKYDYAQTNQRTAQNNP 308
                              57899**************9****665550555666778999****9999999887777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (447 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1048  (0.0584528); expected 358.6 (0.02)
Passed bias filter:                      481  (0.026828); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.63u 0.20s 00:00:00.83 Elapsed: 00:00:00.44
# Mc/sec: 3051.55
//
Query:       PHY93_09310|PHY93_09310  [L=190]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.6e-43  148.4   0.0    1.8e-43  148.2   0.0    1.0  1  DJ-1_PfpI   DJ-1/PfpI family
    9.6e-11   41.5   0.0    1.4e-10   41.0   0.0    1.4  1  Catalase_C  C-terminal domain found in long catalases
    2.3e-05   24.2   0.0     0.0038   16.9   0.0    2.1  2  ThiJ_like   ThiJ/PfpI family-like
    0.00033   19.8   0.0      0.001   18.2   0.0    1.7  1  GATase_5    CobB/CobQ-like glutamine amidotransferase domain
     0.0042   16.9   0.0     0.0057   16.5   0.0    1.4  1  GATase      Glutamine amidotransferase class-I
     0.0071   16.0   0.0       0.01   15.4   0.0    1.2  1  GATase_3    CobB/CobQ-like glutamine amidotransferase domain
  ------ inclusion threshold ------
      0.012   15.5   0.0      0.015   15.2   0.0    1.2  1  SNO         SNO glutamine amidotransferase family
      0.069   12.9   0.0      0.084   12.6   0.0    1.2  1  MctB        Copper transport outer membrane protein, MctB


Domain annotation for each model (and alignments):
>> DJ-1_PfpI  DJ-1/PfpI family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  148.2   0.0   8.1e-47   1.8e-43       1     164 [.      11     178 ..      11     179 .. 0.96

  Alignments for each domain:
  == domain 1  score: 148.2 bits;  conditional E-value: 8.1e-47
                              EEEEEEEETTBEHHHHHHHHHHHHHTTEEEEEEESSTSEEEETTS....EEEE-SEEGGGCTCCG-SEEEE--BHHHHHHHHTSHH CS
                DJ-1_PfpI   1 kkvlvlladgvedvElivpvdvlkragikvdvvsvdkeevkgsrG....lkvtvdaslddvkaaeyDalvlpGGragperlrenek 82 
                              +k+++l adg+++  l++p ++l+ ag +v++vs++++e+k         ++ vda++++ +++e+Dalv+pGG+ +p++l  ++k
  PHY93_09310|PHY93_09310  11 RKIAILAADGFDESQLFAPKKALEDAGAEVVIVSLKEGEIKAWTEdhwgRSIGVDATVNNSSSEEFDALVIPGGEMNPDTLLHDKK 96 
                              69**********************************88887654434559************************************ PP

                              HHHHHHHHHHTT-EEEEETTTHHHHHHTTTTTTSEE--SGGGHHHHHHTTSEE-SSSEEEETTEEEESSGGGHHHHHHHHHH CS
                DJ-1_PfpI  83 vvelvkefaekgklvaaICagpqlLaaagvlkgrrvTsypavkdklekagakyvdkrvvvdgnlvTsrgpgaaiefalelle 164
                              ++++vk+f+++gk++a+IC+g+ +L++ g+ +gr++T++p++k++l ++gak+ d++vv+ + +++sr p+++ +f+++++e
  PHY93_09310|PHY93_09310  97 AIDFVKDFFNEGKTIASICHGTRVLIESGMARGRTLTTWPSLKKALLNSGAKWKDDEVVSYKGIISSRCPKESSAFNKKMIE 178
                              *******************************************************************************997 PP

>> Catalase_C  C-terminal domain found in long catalases
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.0   0.0   6.1e-14   1.4e-10       3     118 ..      11     127 ..       9     163 .. 0.86

  Alignments for each domain:
  == domain 1  score: 41.0 bits;  conditional E-value: 6.1e-14
               Catalase_C   3 lkVgiLasndseaslaqakalaaalaaegvdvtvva...........eklgsaegvnrTYstadaveFDaivvadgaeslfsakat 77 
                              +k++iLa   +  + +q+ a ++al+++g++v++v             + g + gv++T   +++ eFDa+v+ +g        ++
  PHY93_09310|PHY93_09310  11 RKIAILAA--DGFDESQLFAPKKALEDAGAEVVIVSlkegeikawteDHWGRSIGVDATVNNSSSEEFDALVIPGG--------EM 86 
                              79*****7..678999*******************63333333333333447778*********************........34 PP

               Catalase_C  78 aasslfpagrplqllldayrhgKpigalGsgaealkaagis 118
                              ++++l  +++++ +++d ++ gK+i+ + +g+++l ++g+ 
  PHY93_09310|PHY93_09310  87 NPDTLLHDKKAIDFVKDFFNEGKTIASICHGTRVLIESGMA 127
                              6889*****************************99887765 PP

>> ThiJ_like  ThiJ/PfpI family-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.6   0.0    0.0051        11       1      32 [.      16      47 ..      16      60 .. 0.87
   2 !   16.9   0.0   1.7e-06    0.0038      81     154 ..      72     137 ..      49     171 .. 0.82

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.0051
                ThiJ_like  1 ladeGydvtevaipwkvlkdagfsveFvtekg 32
                             la  G+d  ++  p k l+dag +v  v+ k 
  PHY93_09310|PHY93_09310 16 LAADGFDESQLFAPKKALEDAGAEVVIVSLKE 47
                             6889*********************9998764 PP

  == domain 2  score: 16.9 bits;  conditional E-value: 1.7e-06
                ThiJ_like  81 sleeydlvllpGGsdkavrelleserlhsllveylklvkrekepskvlgaicqgvlalafakpeldlktttlPl 154
                              s ee+d++ +pGG+ ++   ll++++  + +++++       ++ k +++ic+g+ +l ++ ++     tt P 
  PHY93_09310|PHY93_09310  72 SSEEFDALVIPGGEMNPD-TLLHDKKAIDFVKDFF-------NEGKTIASICHGTRVLIESGMARGRTLTTWPS 137
                              5589*********98886.8999999999999999.......568**************999987777777775 PP

>> GATase_5  CobB/CobQ-like glutamine amidotransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.0   4.6e-07     0.001       3     125 ..      12     140 ..      10     152 .. 0.72

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 4.6e-07
                 GATase_5   3 kvailreeGvngey..emaaafekaGfeavdvhmsd....llegrv..................slddfqilalpGGfsygDelgs 64 
                              k+ail++ G    +    ++a+e+aG+e+v v +++                            s ++f  l++pGG  + D+l  
  PHY93_09310|PHY93_09310  12 KIAILAADGFDESQlfAPKKALEDAGAEVVIVSLKEgeikA----WtedhwgrsigvdatvnnsSSEEFDALVIPGGEMNPDTL-- 91 
                              67888888887665224468999999999999866532220....123333444444444455478888888888888777765.. PP

                 GATase_5  65 gkgwakslllneklrealekflnredtlaLGiCnGfqlLvklglvpggeieeaeksptltr 125
                                      l+ +k+ + +++f+n+ ++ +  iC G ++L++ g+  g   ++ +++p+l++
  PHY93_09310|PHY93_09310  92 --------LHDKKAIDFVKDFFNE-GKTIASICHGTRVLIESGMARG---RTLTTWPSLKK 140
                              ........56677778889*****.99999*************9988...66778888765 PP

>> GATase  Glutamine amidotransferase class-I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   2.5e-06    0.0057      32      87 ..      67     124 ..      30     175 .. 0.84

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 2.5e-06
                              HHHHHHHTHHSTSEEEEEEESSCTT....TTTHHHHHHHHCTSTS-EEEETHHHHHHHHH CS
                   GATase  32 saeeilellknpdgilvsgGpgspg....vegkieaikearenkiPiLGICLGmQllaie 87 
                              + +++    +++d+++++gG  +p      +++i+++k ++++++ i  IC G  +l+++
  PHY93_09310|PHY93_09310  67 TVNNS--SSEEFDALVIPGGEMNPDtllhDKKAIDFVKDFFNEGKTIASICHGTRVLIES 124
                              33333..36789***************99999**********************999875 PP

>> GATase_3  CobB/CobQ-like glutamine amidotransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   4.6e-06      0.01      30      90 ..      66     123 ..      56     136 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 4.6e-06
                 GATase_3  30 vplkdeslgedadlvilpGgkdtiqdlallresgldeaikeaaeaggpvlgiCGGlqmLGe 90 
                              ++++++s  e+ d++++pGg+   +   ll++++  + +k++ ++g+++  iC G  +L e
  PHY93_09310|PHY93_09310  66 ATVNNSSS-EEFDALVIPGGEMNPDT--LLHDKKAIDFVKDFFNEGKTIASICHGTRVLIE 123
                              55667777.56*********877665..556666999*****************9988865 PP

>> SNO  SNO glutamine amidotransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.2   0.0   6.5e-06     0.015      29      80 ..      71     120 ..      34     135 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 6.5e-06
                              GGGCC-SEEEE-SS-HHHHHHHHHHTT-HHHHHHHHHTT.--EEEETHHHHH CS
                      SNO  29 edlaevdaliiPGGestamskliertglyedllefvknsekvvlGtCaGlil 80 
                                 +e dal+iPGGe    ++l ++   ++ +++f +++ k++   C G  +
  PHY93_09310|PHY93_09310  71 SSSEEFDALVIPGGEMNPDTLLHDKKA-IDFVKDFFNEG-KTIASICHGTRV 120
                              345899***********9999999988.89999999988.999999999633 PP

>> MctB  Copper transport outer membrane protein, MctB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   3.8e-05     0.084      79     114 ..       6      41 ..       4      75 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 3.8e-05
                     MctB  79 grLtgrsVavvttpdadeedvdavtelleqAGAtvt 114
                              + L +r++a++++++ de++  a +++le AGA+v+
  PHY93_09310|PHY93_09310   6 NMLHDRKIAILAADGFDESQLFAPKKALEDAGAEVV 41 
                              679*******************************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (190 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       362  (0.0201908); expected 358.6 (0.02)
Passed bias filter:                      341  (0.0190195); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.45u 0.25s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1379.92
//
Query:       PHY93_09315|PHY93_09315  [L=2853]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   6.2e-159  527.0   0.5    7.6e-79  264.7   0.1    2.3  2  Glyco_transf_36  Glycosyltransferase family 36
   1.5e-123  412.7   0.5   2.1e-123  412.2   0.5    1.2  1  Glyco_hydro_36   Glycosyl hydrolase 36 superfamily, catalytic
    1.7e-17   63.8   0.0      4e-17   62.5   0.0    1.7  1  Glycoamylase     Putative glucoamylase
  ------ inclusion threshold ------
       0.18   12.1   1.3       0.42   11.0   0.1    2.3  2  DUF2649          Protein of unknown function (DUF2649)
        5.6    6.8  13.2       0.23   11.4   0.6    3.4  3  Glyco_trans_2_3  Glycosyl transferase family group 2


Domain annotation for each model (and alignments):
>> Glyco_transf_36  Glycosyltransferase family 36
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  264.7   0.1   2.1e-82   7.6e-79       2     248 ..    1562    1807 ..    1562    1809 .. 0.97
   2 !  260.5   0.0   3.9e-81   1.4e-77       1     251 []    2069    2310 ..    2069    2310 .. 0.97

  Alignments for each domain:
  == domain 1  score: 264.7 bits;  conditional E-value: 2.1e-82
          Glyco_transf_36    2 apwinvlsngdygvlisetGgGyswyknsrenrltrwsndvvrdppGeyiYirDedsgevwsatwqpv.kkeldeykyecrhgl 84  
                               +p +++lsng+y+v+i+ +G+Gys++++     ltrw++dv+rd++G+yiY+rD  s++vwsa++qp+  ++l   kye+ + +
  PHY93_09315|PHY93_09315 1562 VPRTHLLSNGHYSVMITTAGSGYSRFRELS---LTRWREDVTRDNWGSYIYLRDIHSHDVWSAGFQPTcVEPL---KYEVIFTE 1639
                               589***************************...***********************************99999...******** PP

          Glyco_transf_36   85 gytefesekngietelevfVpkedpveirrlkLtNtsererelsvtsyaefvlgnaeadaanpafsrlfseteietelgegila 168 
                               +++++++e+n i ++levf+++ed++eirrl+L N+++++r ++vt+y e+vl+++ ad a+p fs+lf++te+ +e++  +la
  PHY93_09315|PHY93_09315 1640 DRAKISREDNSIVSQLEVFISPEDNAEIRRLSLSNNGTEARVIEVTTYSEVVLNTQGADIAHPTFSNLFVQTEYLPEITS-LLA 1722
                               ******************************************************************************98.*** PP

          Glyco_transf_36  169 arnpyseeekkrvafltlsaev......tsfetdreeFiGrngslsnPaalergklsnsegagldpcaalqtkitLepgeekev 246 
                               +r+p+s +e+  ++++ +s+ +       ++etdr+ FiGr++s++nP  +e +klsn++g++ldp+++l++++++epg ++++
  PHY93_09315|PHY93_09315 1723 TRRPRSLTEAPVWMAHVIST-DpnalgeIEYETDRALFIGRGRSITNPISVEAKKLSNTVGSVLDPVVSLRSRVRIEPGSTATI 1805
                               ****************8774.3478999*******************************************************9 PP

          Glyco_transf_36  247 vf 248 
                               ++
  PHY93_09315|PHY93_09315 1806 TY 1807
                               87 PP

  == domain 2  score: 260.5 bits;  conditional E-value: 3.9e-81
          Glyco_transf_36    1 PapwinvlsngdygvlisetGgGyswyknsrenrltrwsndvvrdppGeyiYirDedsgevwsatwqpvkkeldeykyecrhgl 84  
                               Papwinv++n+++g+++se+G+G +w  nsren+lt+w nd+v+dp Ge +Yi D+ds+e+ws+t +p++   d+++y +rhg+
  PHY93_09315|PHY93_09315 2069 PAPWINVIANPQFGFHVSESGAGSTWSMNSRENQLTPWTNDPVSDPAGECFYIFDQDSHELWSPTISPIR--VDKAEYLIRHGQ 2150
                               9********************************************************************6..36789******* PP

          Glyco_transf_36   85 gytefesekngietelevfVpkedpveirrlkLtNtsererelsvtsyaefvlgnaeadaanpafsrlfseteietel.ge.gi 166 
                               gy++fe +++gi+++l+ fV+++ pv+i+++ L+N+ +++r+l++tsy+e+vlg          fsr  s+t+  +e+ ++ + 
  PHY93_09315|PHY93_09315 2151 GYSQFELRHHGIKSTLTQFVHENLPVKISKIVLKNELNTKRNLTITSYIEWVLG----------FSRTVSSTYLISEYdKKsRS 2224
                               ******************************************************..........***********99955566* PP

          Glyco_transf_36  167 laarnpyseeekkrvafltlsaevtsfetdreeFiGrngslsnPaalergk.lsnsegagldpcaalqtkitLepgeekevvfl 249 
                               l+  np+++e+++r+ f+t+ ++++s++++r+eFiGrng++++P+al +++ +s+++gag d+caalq +it+ ++ee++++fl
  PHY93_09315|PHY93_09315 2225 LLGYNPWNQEFGSRISFATFVGGNDSWTGNRTEFIGRNGNMTHPEALLSNDpFSGNVGAGMDACAALQKSITVGANEEVTIIFL 2308
                               *******************999*************************77777******************************** PP

          Glyco_transf_36  250 lG 251 
                               lG
  PHY93_09315|PHY93_09315 2309 LG 2310
                               *8 PP

>> Glyco_hydro_36  Glycosyl hydrolase 36 superfamily, catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  412.2   0.5  5.8e-127  2.1e-123       2     422 ..    2341    2766 ..    2340    2767 .. 0.92

  Alignments for each domain:
  == domain 1  score: 412.2 bits;  conditional E-value: 5.8e-127
           Glyco_hydro_36    2 WddilekvqvktpdesldrminiWnlYqalitfvlsRsasfiesGgrrGlGfRDtaqDilgvvhvnPektrkrildllsgqvee 85  
                               W++il k+qv+tpd s+++m+n W lYq+ ++++++Rsa f+++Gg+  +GfRD++qD ++v++++Pe+ + +il   s+q+ee
  PHY93_09315|PHY93_09315 2341 WNNILGKIQVETPDPSMNIMLNRWLLYQTTVCRLWARSA-FYQAGGA--FGFRDQLQDSMAVIWTKPEMIKGQILRASSRQFEE 2421
                               ***************************************.*******..*********************************** PP

           Glyco_hydro_36   86 GsalhlfdPlv...ikpsksdd.ldtpkdedk.ikGiedlssdDelWivltieayvke.tGdlsildevipysddkkatvyehl 163 
                               G+++h+++  +   +++++sdd l++p+ + + ++ ++d s+ De  +++ ++  +   + ++s++    p   + +++vyeh+
  PHY93_09315|PHY93_09315 2422 GDVQHWWHMPTgrgVRTHFSDDlLWLPYVVSYyLTITQDFSVLDE--VIPFLKGPLLTiEQEDSYYT---PEVSSMTGSVYEHC 2500
                               *******977779*********9*****666516667788999**..77777765543155566665...44455789****** PP

           Glyco_hydro_36  164 kkaldfsleklGkhglpligraDWnDclnl....gkgesvfvsfllylalkeflelakkkgeeeeaekaekaadklreaiekya 243 
                                +++d+sl   G hglpl+g +DWnD++n     gkgesv+++++l++ l+ef ++a+ +g++ +a + + + +kl+ aie +a
  PHY93_09315|PHY93_09315 2501 ARTIDHSLAV-GVHGLPLMGGGDWNDGMNRvgheGKGESVWLAWFLMSNLNEFSKIAESRGDNVRAANWKLHQEKLKTAIEDQA 2583
                               ********87.******************9888889************************************************ PP

           Glyco_hydro_36  244 WdGewflRaytkdgekiGskeneegkiflesqslavlsGigkderakvaldsvekyLdte.yGlv.lqqPafsklklelgeiss 325 
                               WdG+w++Ra+ +dg+ +Gs +n+e++i++ +q++ v+s +g+++r+++a++sve +L+++   ++ l +P+f+k+  ++g+i+ 
  PHY93_09315|PHY93_09315 2584 WDGDWYRRAFYDDGSSLGSSKNTECRIDSLAQTWGVISKAGNRGRSELAMKSVESNLVKNqDKMIlLFTPPFDKTPKDPGYIKG 2667
                               *********************************************************99843444589**************** PP

           Glyco_hydro_36  326 yvpGvkenagifchanpWvivaetklGrGdrafklyrkinPanledki...eirkaePYvyaqfvagkdakrhGraknsWltGt 406 
                               y pGv+en+g+++ha+ W i a t l +G+raf+l+++inP+n+  +      +k+ePYv a++v++  a+++Gr+ ++W+tG 
  PHY93_09315|PHY93_09315 2668 YIPGVRENGGQYTHAAIWCIFAYTGLDNGRRAFELFSMINPINHGLTHleaLRYKVEPYVIAADVYSE-APHVGRGGWTWYTGS 2750
                               *******************************************97654433679************85.66************* PP

           Glyco_hydro_36  407 agwayvaiteyiLGlr 422 
                               agw+y+a +e iLG +
  PHY93_09315|PHY93_09315 2751 AGWMYTAGIEAILGFK 2766
                               **************98 PP

>> Glycoamylase  Putative glucoamylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.5   0.0   1.1e-20     4e-17       2     220 ..    1299    1511 ..    1298    1512 .. 0.90

  Alignments for each domain:
  == domain 1  score: 62.5 bits;  conditional E-value: 1.1e-20
             Glycoamylase    2 yewegynEalilyvlalgspthpveaevyeawatierdwenyegeevlksesgpLFvhqyshawldfrgiqdkygvdYfensrr 85  
                               y+   ++Ea++l+++a++  + pv+     +w+ + r+ +++++ + l s+sg++F ++++ ++++         + + ++ r 
  PHY93_09315|PHY93_09315 1299 YYDLLASEARLLSLIAIAKGDVPVA-----HWFRLGRSLTSIHKGTALISWSGSMFEYLMPSLVMNTPA-----SSLLEQTCRL 1372
                               677789***********99999996.....499999****************************99877.....4466688899 PP

             Glycoamylase   86 atlaqreYaeenpkkfkgygedlWGltasdspeeekke..gYaargaplee......ddGtisPtaalsslpfapeealaalre 161 
                                ++ q +Yae         +   WG+++s++++++ +   +Y+ +g+p         +d +i+P+a + +  f+p  a+++l+ 
  PHY93_09315|PHY93_09315 1373 IVKKQIQYAEG--------KFIPWGMSESAYNSRDLHLtyQYSNFGVPDLAfkrgigKDLVIAPYATMLAGMFDPASAVKNLKR 1448
                               99*******99........4457*******999776668899999998877999999*************************** PP

             Glycoamylase  162 lykelkdqllgrygfydafnpte......kegwvakrylgidqGpillmieNy.rsgllwklfmks 220 
                               l      ++ g +gfy++++ t+      +e +++k+y++++qG++l++i+N+  +g++ k+f++ 
  PHY93_09315|PHY93_09315 1449 LS---ALNAEGVFGFYESIDFTKsripegQELAIVKTYMAHHQGMSLVSISNIiHDGIMLKRFHRE 1511
                               **...6688899*********9999***99**********************98899999999876 PP

>> DUF2649  Protein of unknown function (DUF2649)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.6   0.1         4   1.4e+04      48      60 ..     418     430 ..     416     432 .. 0.81
   2 ?   11.0   0.1   0.00012      0.42      31      58 ..     933     960 ..     922     964 .. 0.89

  Alignments for each domain:
  == domain 1  score: -3.6 bits;  conditional E-value: 4
                  DUF2649  48 ilfltwfllwmvf 60 
                              ilflt++++ + +
  PHY93_09315|PHY93_09315 418 ILFLTFLFVSLCL 430
                              89***99987765 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.00012
                  DUF2649  31 nltqneyltlmvgvwvvilfltwfllwm 58 
                               l+ n ++  m+g+ vv++fl++f++w+
  PHY93_09315|PHY93_09315 933 SLSINSFIKRMIGMEVVLVFLAFFIFWL 960
                              678899*********************7 PP

>> Glyco_trans_2_3  Glycosyl transferase family group 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   0.0     0.052   1.9e+02       1      26 [.     627     652 ..     627     692 .. 0.75
   2 ?   11.4   0.6   6.3e-05      0.23     113     189 ..     755     845 ..     744     854 .. 0.63
   3 ?   -4.6   5.9       4.9   1.8e+04      96     195 ..     875     976 ..     870     978 .. 0.54

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.052
          Glyco_trans_2_3   1 iilllDaDtvlppdclreiaaelasp 26 
                              +++ lDaDt lp+  +++++  +a+p
  PHY93_09315|PHY93_09315 627 YVITLDADTKLPRGAVAQLVGTCAHP 652
                              7999**************99888887 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 6.3e-05
          Glyco_trans_2_3 113 rvrfvpeslvkekspltlraalrQrkRwayGc.el........eklillvrllgyl....gsllwsalplhl.allllfsllalal 184
                              r+ + +++ ++e +p+ +   +++  Rw++G  +l        ++ i  + ++++l    +sl++  ++++l al+++ +++++ +
  PHY93_09315|PHY93_09315 755 RCGLLSDVEFFEDFPSHFEVSVARNHRWTRGDwQLlpwilgreGRSISVIGRWKMLdnlrRSLVTPMIFFLLlALFFIPGIIIHPW 840
                              5667788899*********************6411333355444444466666555222255566555444415556666666555 PP

          Glyco_trans_2_3 185 vllll 189
                              ++l+l
  PHY93_09315|PHY93_09315 841 MILIL 845
                              54433 PP

  == domain 3  score: -4.6 bits;  conditional E-value: 4.9
          Glyco_trans_2_3  96 svsEDfdmglrlqrkGyrvrfvpes.lvkekspltlraalrQrkRwayGceleklillvrll.........gylgsllwsalplhl 171
                              s++ED+ +gl+ ++  ++++fvp++  ++    ++   +l   kR+++       + +  ++          ++ + + + ++l +
  PHY93_09315|PHY93_09315 875 SLAEDLILGLSRFT--LNIIFVPYHaWIQLDAIFRTFWRLGLTKRHLLE------WTASAQSrssaslsinSFIKRMIGMEVVLVF 952
                              66666666555444..477788888434444444222244467777766......3222222112221222444444555566888 PP

          Glyco_trans_2_3 172 allllfsllalalvlllllllaal 195
                              +++++f+l++  ++++++++ ++l
  PHY93_09315|PHY93_09315 953 LAFFIFWLNPSHWAIFIPFFILWL 976
                              899999999877777777666554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (2853 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       476  (0.0265492); expected 358.6 (0.02)
Passed bias filter:                      381  (0.0212505); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 1.34u 0.28s 00:00:01.62 Elapsed: 00:00:00.55
# Mc/sec: 15731.55
//
Query:       PHY93_09320|PHY93_09320  [L=78]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (78 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       921  (0.0513693); expected 358.6 (0.02)
Passed bias filter:                      600  (0.0334653); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.25s 00:00:00.68 Elapsed: 00:00:00.42
# Mc/sec: 553.95
//
Query:       PHY93_09325|PHY93_09325  [L=236]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.9e-29  103.1   0.1    2.4e-29  102.8   0.1    1.1  1  YceI      YceI-like domain
  ------ inclusion threshold ------
      0.074   13.3   0.1       0.24   11.7   0.1    1.9  1  DUF3127   Domain of unknown function (DUF3127)


Domain annotation for each model (and alignments):
>> YceI  YceI-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  102.8   0.1   2.7e-33   2.4e-29       3     146 .]      25     191 ..      24     191 .. 0.90

  Alignments for each domain:
  == domain 1  score: 102.8 bits;  conditional E-value: 2.7e-33
                              E-CCC-EEEE........-EEEEECTECCEEEE..TTT..EEEEEEEEGGGEESS.HCHHHHHHCTCTT-TTT--EEEECCCC.EE CS
                     YceI   3 ldpahssvtftvkhlgvskvtGrfkkvsgelsvdeddpe.ssvevtidvasidtgnakrdehlksadffdvakyPtatFvsts.ve 86 
                              + ++hs++ f ++ + ++kv+G+fk+++g+l+++ed+ e  +++v   ++sidt++ krd hlk+ +ff++ +yP++ F+s + ++
  PHY93_09325|PHY93_09325  25 IIKEHSKIAFDIDYMLMTKVQGQFKDYHGTLNINEDKGEiYNIKVIALANSIDTNDGKRDFHLKGMEFFQATNYPEVLFESRGpFK 110
                              5689**********9999***************76655658899989999*********************************999 PP

                              ........EEEEEEETTEEEEEEEEEEEEEEE......CC..EECEEEEEGGGGTC.........TTTC-SEEEEEEEEEE CS
                     YceI  87 ......akvtGdLtikGvtkpvtlpvtvngaa......ag..fsatgtidrtdFGlkr.......galvgdeveleielea 146
                                    ++vtG+Lti+G+++p+ l+  ++g+        +  f+ +g++dr+ + + +       g+l+gd+v ++i+++a
  PHY93_09325|PHY93_09325 111 fspqkkFSVTGNLTIRGIKRPIILETVFKGKLkdpwnkENyfFELEGVLDRKSYSMVWnkkmdngGVLIGDQVHINITVQA 191
                              ******88********************9863455655224589***********99999999999***********9985 PP

>> DUF3127  Domain of unknown function (DUF3127)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.1   2.7e-05      0.24      16      69 ..     139     192 ..     125     198 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 2.7e-05
                  DUF3127  16 ssk.nGefkkrefvleteeqYpkkiclevvgdkideldklqvgdevkvsfnlegr 69 
                              ++k + +++k ++ +e e+  ++k    v++ k+d+   + +gd+v++ + ++++
  PHY93_09325|PHY93_09325 139 KGKlKDPWNKENYFFELEGVLDRKSYSMVWNKKMDNGG-VLIGDQVHINITVQAQ 192
                              4554569*****************************99.************9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (236 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       461  (0.0257125); expected 358.6 (0.02)
Passed bias filter:                      365  (0.0203581); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.39
# Mc/sec: 1793.41
//
Query:       PHY93_09330|PHY93_09330  [L=253]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      1e-09   38.3   0.2      2e-09   37.4   0.2    1.4  1  PAP2      PAP2 superfamily
    0.00073   19.3   0.5     0.0011   18.8   0.5    1.3  1  PAP2_3    PAP2 superfamily
     0.0064   17.0   0.1      0.013   16.1   0.1    1.5  1  PAP2_C    PAP2 superfamily C-terminal


Domain annotation for each model (and alignments):
>> PAP2  PAP2 superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.4   0.2   3.3e-13     2e-09       5     127 ..      99     216 ..      97     224 .. 0.87

  Alignments for each domain:
  == domain 1  score: 37.4 bits;  conditional E-value: 3.3e-13
                     PAP2   5 lllalalaalltsvlKdlvgrpRPfflaeetkldtqvstletses..keakesfPSgHsafafalalllalllrrkrkkiglvlla 88 
                              ll +l+ ++++t++lK   gr  P+++++  + +   ++++   +   +a++ fPSgH a+ +++++++a+ + +  + +      
  PHY93_09330|PHY93_09330  99 LLSGLLQTGIVTQILKRSTGRESPVAATQPRGKWHPFPSWSRF-QghISAYDAFPSGHLATLVMGVTVIAENYSEYSFIR------ 177
                              67789999********************999999885555444.35899*********************9999888885...... PP

                     PAP2  89 lillllavlvalsRlylgvHflsDvlaGlliGialaala 127
                               + ++la   a+  + ++vH+ sD   G++iG++++  a
  PHY93_09330|PHY93_09330 178 PVGYTLASILAFQMVNNDVHWASDYPLGIAIGYMIGKTA 216
                              88889999999999*******************998655 PP

>> PAP2_3  PAP2 superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.5   1.8e-07    0.0011     105     186 ..     126     211 ..      60     214 .. 0.74

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 1.8e-07
                   PAP2_3 105 alrdgasravllrgtienglaa...fPSlHvawall.valalwrlrrkrllrvlalllnvlmivatvatgnHYlvDviaGvalalv 186
                              ++  g+ + ++ ++ ++++++a   fPS H a  ++ v++++  +++  ++r+++  l+ ++++ +v    H + D   G+a++++
  PHY93_09330|PHY93_09330 126 TQPRGKWHPFPSWSRFQGHISAydaFPSGHLATLVMgVTVIAENYSEYSFIRPVGYTLASILAFQMVNNDVHWASDYPLGIAIGYM 211
                              5566666778888888888888888*****8865551555555677777*******************************999876 PP

>> PAP2_C  PAP2 superfamily C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.1   2.1e-06     0.013       4      68 ..     149     212 ..     148     217 .. 0.86

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 2.1e-06
                   PAP2_C   4 DlifSGHtvvltlavlfileyspkklailkvillllallglfliiasrkHYtvDVllglyittlv 68 
                              D + SGH ++l++ v +i e+ ++   +++ +  +la +  f ++ +  H+  D  lg+ i  ++
  PHY93_09330|PHY93_09330 149 DAFPSGHLATLVMGVTVIAENYSEYS-FIRPVGYTLASILAFQMVNNDVHWASDYPLGIAIGYMI 212
                              6677********99888887666554.6**************************99999998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (253 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       454  (0.0253221); expected 358.6 (0.02)
Passed bias filter:                      402  (0.0224218); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1913.53
//
Query:       PHY93_16680|PHY93_16680  [L=929]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
       0.12   12.2   1.4       0.42   10.5   1.4    1.9  1  Matrilin_ccoil  Trimeric coiled-coil oligomerisation domain o


Domain annotation for each model (and alignments):
>> Matrilin_ccoil  Trimeric coiled-coil oligomerisation domain of matrilin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   1.4   2.3e-05      0.42      13      41 ..     843     872 ..     842     873 .. 0.93

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 2.3e-05
                              HHHHHHHHHHHHHHHHH.HHHHHHHHHHHH CS
           Matrilin_ccoil  13 lvkFQtkVeseiqaLtq.kLeavtkRleal 41 
                              ++kF+  +++++ +L++ kL+ + +Rl+ l
  PHY93_16680|PHY93_16680 843 IIKFRSLTTQTLXKLSTqKLKKIKSRLASL 872
                              89*************8879********976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (929 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       552  (0.0307881); expected 358.6 (0.02)
Passed bias filter:                      122  (0.00680462); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.66u 0.24s 00:00:00.90 Elapsed: 00:00:00.43
# Mc/sec: 6553.42
//
Query:       PHY93_19125|PHY93_19125  [L=187]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.2e-45  152.4   0.2    7.6e-45  151.8   0.2    1.2  1  DapB_C    Dihydrodipicolinate reductase, C-terminus
    1.6e-11   44.4   0.6      2e-10   40.9   0.0    2.4  2  DapB_N    Dihydrodipicolinate reductase, N-terminus


Domain annotation for each model (and alignments):
>> DapB_C  Dihydrodipicolinate reductase, C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  151.8   0.2   8.5e-49   7.6e-45       1     121 []      47     183 ..      47     183 .. 0.93

  Alignments for each domain:
  == domain 1  score: 151.8 bits;  conditional E-value: 8.5e-49
                              HHHHHHHHHHHHCCCSTTT-EEEEEEEESTT--SSS-HHHHHHHHHHH......................-S-ETTCCCEEEETTT CS
                   DapB_C   1 GvnlllklveeaakllkeaydveiiEkHhnkKaDaPSGTAlalaeaia...............egke...arkkkeigihsvRggg 68 
                              Gvnl lkl+e+ ak++ +  d+eiiE+Hh++K+DaPSGTAl+++e +a               e      +r++k+ig++++R+g+
  PHY93_19125|PHY93_19125  47 GVNLSLKLLEMTAKVMGDYTDIEIIEAHHRHKVDAPSGTALRMGEVVAqalgrdlkdcaiygrE--GntgERDRKTIGFSTIRAGD 130
                              9*****************899***************************8877777666665553..05589999************ PP

                              --CCCCEEEECTTEEEEEEEEEESCHHHHHHHHHHHHHH.HCTSSEESHHHHH CS
                   DapB_C  69 vvgehevlfagegevieikhealsreiFaeGallaaewlakkkkglysmedvL 121
                              +vgeh+v+fa ege++ei+h+a+sr +Fa+Ga++aa wla+k++gly+m+dvL
  PHY93_19125|PHY93_19125 131 IVGEHTVMFADEGERVEITHKATSRMTFANGAVRAAVWLATKENGLYDMQDVL 183
                              ****************************************************8 PP

>> DapB_N  Dihydrodipicolinate reductase, N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.9   0.0   2.2e-14     2e-10      82     124 .]       2      44 ..       1      44 [. 0.97
   2 ?    1.4   0.1     0.035   3.2e+02      11      33 ..      88     111 ..      83     151 .. 0.72

  Alignments for each domain:
  == domain 1  score: 40.9 bits;  conditional E-value: 2.2e-14
                              HHHHHHHHTT-EEEE--SS--HHHHHHHHHHTTTSEEEE-S-- CS
                   DapB_N  82 enlklalekgvklViGTTGlseeelaeleelakkigvviapNf 124
                              ++++l+ ++++k+ViGTTG++e ++++++e+ak+i++v+apNf
  PHY93_19125|PHY93_19125   2 AYIELCRKHHKKIVIGTTGYNELQKQQIAEAAKDIAIVLAPNF 44 
                              7899**************************************9 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.035
                              HHHHHHHHHHHHS.TTEEEEEEEE CS
                   DapB_N  11 rmGkevvkaveea.edlelvaavd 33 
                              rmG+ v++a+ ++ +d+ + +   
  PHY93_19125|PHY93_19125  88 RMGEVVAQALGRDlKDCAIYGREG 111
                              9*****999987436666655544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (187 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       473  (0.0263818); expected 358.6 (0.02)
Passed bias filter:                      403  (0.0224776); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.19s 00:00:00.64 Elapsed: 00:00:00.38
# Mc/sec: 1485.34
//
Query:       PHY93_19130|PHY93_19130  [L=371]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.1e-51  171.2   0.0    1.4e-50  170.4   0.0    1.4  1  CPSase_sm_chain  Carbamoyl-phosphate synthase small chain, CP
    1.1e-46  159.1   0.0    1.7e-46  158.4   0.0    1.2  1  GATase           Glutamine amidotransferase class-I
    4.1e-06   26.7   0.1    1.5e-05   24.8   0.0    2.0  2  Peptidase_C26    Peptidase C26
  ------ inclusion threshold ------
       0.01   15.6   0.0      0.032   14.0   0.0    1.9  1  DJ-1_PfpI        DJ-1/PfpI family
       0.13   11.8   0.4       0.74    9.4   0.0    2.0  2  GATase_3         CobB/CobQ-like glutamine amidotransferase do


Domain annotation for each model (and alignments):
>> CPSase_sm_chain  Carbamoyl-phosphate synthase small chain, CPSase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  170.4   0.0     4e-54   1.4e-50       2     128 .]       5     132 ..       4     132 .. 0.98

  Alignments for each domain:
  == domain 1  score: 170.4 bits;  conditional E-value: 4e-54
          CPSase_sm_chain   2 avLvLedGtvfeGksfg.akeavGEvvfnTgmtGYqeiltDpsYagqilvltypliGnyGvneedvesekikvaglvvrelseeps 86 
                              a+LvLedGtvf+G s+g ++ ++GEvvfnT+mtGYqeil+DpsYa+qi++ltyp+iGn+G+n+ed+es  + ++glv+r+l   +s
  PHY93_19130|PHY93_19130   5 ALLVLEDGTVFNGVSIGaDGCCAGEVVFNTAMTGYQEILSDPSYARQIVTLTYPHIGNTGTNHEDNESVGVFASGLVIRDLPLLAS 90 
                              68***************66999**************************************************************** PP

          CPSase_sm_chain  87 nwraeesLsewlkeekipgisgvDTRaLtkklrekgamkgvi 128
                              nwr+e++L+++l ++++++i+++DTR+Lt+ lr+kga++g+i
  PHY93_19130|PHY93_19130  91 NWRSEKTLQQYLIDNNVVAIADIDTRQLTRLLRDKGAQRGCI 132
                              ****************************************97 PP

>> GATase  Glutamine amidotransferase class-I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  158.4   0.0   4.6e-50   1.7e-46       3     189 ..     194     369 ..     192     370 .. 0.97

  Alignments for each domain:
  == domain 1  score: 158.4 bits;  conditional E-value: 4.6e-50
                              EESSTSTHHHHHHHHHHTT-EEEEEETTSHHHHHHHTHHSTSEEEEEEESSCTT.TTTHHHHHHHHCTSTS-EEEETHHHHHHHHH CS
                   GATase   3 iDnydsvtenlvhalvelgvkvevvpidasaeeilellknpdgilvsgGpgspg.vegkieaikearenkiPiLGICLGmQllaie 87 
                               D++  +++n+++ lv++g++v+vvp +++a +   l++npdg+++s+Gpg+p+ ++ +ieaik ++e k+P++GICLG+Qlla++
  PHY93_19130|PHY93_19130 194 YDFG--IKRNILRLLVNRGCRVTVVPAQTPAATV--LAMNPDGVFLSNGPGDPEpCDYAIEAIKAILETKTPVFGICLGHQLLALA 275
                              6888..************************9999..58************************************************ PP

                              TTTEEEEEECEEEEEEEEEEEETTTCGGTTTTSEEEEEEEEEEEEESGCHHHTTEEEEEEEETTEEEEEEEEETTTEEEESSBTTS CS
                   GATase  88 fgrkvvkekekehhggtmrlgddetallyglknevierhrHryevnpkelepaglevtakseddeelmeiiekknpfvgvQFHPEs 173
                              +g+k+ k+k ++hhg+++++++      + +++++i +++H+++v++ +++p++l+ t +s  d++l ++ + + p++++Q HPE+
  PHY93_19130|PHY93_19130 276 SGAKTLKMK-FGHHGANHPVQE------KATGKVMISSQNHGFAVDE-ATLPDNLIATYHSLFDGSLQGLKRTDCPAFSFQGHPEA 353
                              *********.************......88999*************9.************************************** PP

                              TTSTTHHHHHHHHHHH CS
                   GATase 174 tstpegpellfnflik 189
                              +++p++ e lf+++++
  PHY93_19130|PHY93_19130 354 SPGPHDVEALFDEFMA 369
                              *************985 PP

>> Peptidase_C26  Peptidase C26
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.0      0.16   5.7e+02      25      78 ..     198     250 ..     185     254 .. 0.74
   2 !   24.8   0.0   4.3e-09   1.5e-05      92     131 ..     246     285 ..     235     352 .. 0.71

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 0.16
            Peptidase_C26  25 laasyveavekagglpvllpieedeedvkaildkldgllltGgq.dvePslygee 78 
                              ++++ +++  + g+++ ++p++++   ++ +  + dg+ l+ g+ d eP  y+ e
  PHY93_19130|PHY93_19130 198 IKRNILRLLVNRGCRVTVVPAQTPA--ATVLAMNPDGVFLSNGPgDPEPCDYAIE 250
                              5566677788889999999999443..3445557899999999989888888765 PP

  == domain 2  score: 24.8 bits;  conditional E-value: 4.3e-09
            Peptidase_C26  92 alelaLiraalergvPilgiCrGlqllnvalGGtlyqdie 131
                               + +  i+a+le ++P++giC+G+qll+ a G ++ +   
  PHY93_19130|PHY93_19130 246 DYAIEAIKAILETKTPVFGICLGHQLLALASGAKTLKMKF 285
                              5678889***********************9987544332 PP

>> DJ-1_PfpI  DJ-1/PfpI family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   8.9e-06     0.032      69     118 ..     237     283 ..     202     302 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 8.9e-06
                              -BHHHHHHHHTSHHHHHHHHHHHHTT-EEEEETTTHHHHHHTTTTTTSEE CS
                DJ-1_PfpI  69 GGragperlrenekvvelvkefaekgklvaaICagpqlLaaagvlkgrrv 118
                               G   p + + ++ ++e +k  +e +++v+ IC g qlLa a+  k  ++
  PHY93_19130|PHY93_19130 237 NG---PGDPEPCDYAIEAIKAILETKTPVFGICLGHQLLALASGAKTLKM 283
                              44...5577778899*************************9988776665 PP

>> GATase_3  CobB/CobQ-like glutamine amidotransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4   0.0   0.00021      0.74      66      89 ..     250     273 ..     246     280 .. 0.92
   2 ?   -0.1   0.1      0.17     6e+02     145     192 ..     287     331 ..     286     334 .. 0.61

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.00021
                 GATase_3  66 eaikeaaeaggpvlgiCGGlqmLG 89 
                              eaik+ +e+++pv+giC G q+L 
  PHY93_19130|PHY93_19130 250 EAIKAILETKTPVFGICLGHQLLA 273
                              799*******************95 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.17
                 GATase_3 145 HsGrtilkekakpllkvkv.ggnng..ekdGavkksedgnvlGtYlHglfd 192
                              H+G  +   ++k  +kv   ++n g   ++  + +    n+++tY H lfd
  PHY93_19130|PHY93_19130 287 HHGANH-PVQEKATGKVMIsSQNHGfaVDEATLPD----NLIATY-HSLFD 331
                              777444.4556777777554444445555555544....*****9.77776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (371 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       356  (0.0198561); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.39
# Mc/sec: 2835.71
//
Query:       PHY93_19135|PHY93_19135  [L=156]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.1e-12   46.4   0.0    3.4e-12   46.2   0.0    1.1  1  Uma2      Putative restriction endonuclease


Domain annotation for each model (and alignments):
>> Uma2  Putative restriction endonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.2   0.0   1.9e-16   3.4e-12      13     141 ..      17     139 ..       3     155 .. 0.80

  Alignments for each domain:
  == domain 1  score: 46.2 bits;  conditional E-value: 1.9e-16
                              EEEEE.TTS-EEE.EETSHHHHHHHHHHHHHHHHHHHHH-SEEEEETT--EE-TTS-EE--SEEEEEHH.HHTS-HHHHSS-SS-- CS
                     Uma2  13 vryel.vdGeliemsplggeheriaalLaallgnwlrerklgrvfaselgvrlpeeserePDvavvrge.weresrriweelpaaP 96 
                               ++el   G++ +m p++  h+  ++++  ll++ l++   g ++ +e+ +++ +++ ++ Dva+ + e + ++  +      +aP
  PHY93_19135|PHY93_19135  17 FKIELdETGKI-IMCPVKLYHSIFQGEIEFLLRSLLKG---GKAL-PECAIKT-TKGTKVADVAWASLElLSKIKGE--TDASIAP 94 
                              78888555666.569999*****************999...5444.4999999.899999*******9954444444..5679*** PP

                              SEEEEE--TTS-.HHHHHHHHHHHHTT-SEEEEEETTTTEEEEE-T CS
                     Uma2  97 dlvvEVlspsts.kdleeKlelYaalgvpeywlvdpkertvevfrl 141
                              ++ vEV s+s++ k++ eK++lY ++g +e+wl   ++ + + f  
  PHY93_19135|PHY93_19135  95 EICVEVMSESNTeKEMTEKRALYFEAGAKEVWL-CSENGQMRFFNS 139
                              ************9********************.556666555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (156 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       452  (0.0252106); expected 358.6 (0.02)
Passed bias filter:                      380  (0.0211947); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.38u 0.20s 00:00:00.58 Elapsed: 00:00:00.34
# Mc/sec: 1381.27
//
Query:       PHY93_19140|PHY93_19140  [L=129]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (129 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       778  (0.0433934); expected 358.6 (0.02)
Passed bias filter:                      435  (0.0242624); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.20s 00:00:00.65 Elapsed: 00:00:00.41
# Mc/sec: 952.90
//
Query:       PHY93_19145|PHY93_19145  [L=310]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (310 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2168  (0.120921); expected 358.6 (0.02)
Passed bias filter:                      630  (0.0351386); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.22s 00:00:00.73 Elapsed: 00:00:00.37
# Mc/sec: 2521.57
//
Query:       PHY93_19150|PHY93_19150  [L=129]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.9e-48  165.1   3.6    2.3e-48  164.9   3.6    1.0  1  DUF2887   Protein of unknown function (DUF2887)


Domain annotation for each model (and alignments):
>> DUF2887  Protein of unknown function (DUF2887)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  164.9   3.6   1.3e-52   2.3e-48       1     126 [.       3     127 ..       3     128 .. 0.97

  Alignments for each domain:
  == domain 1  score: 164.9 bits;  conditional E-value: 1.3e-52
                  DUF2887   1 tDsifYrlfqefpellfeLigespeeaeeYeFssvevKelafriDGvflPkeeeeekpiyfvEvQfqkdeklYerlfaeiflYleq 86 
                              tD +fY+lf++ p l+fe+ +      ++Y+F+s+e+K+ afr+DGvf P++ e + pi+fvEvQfq+d+++Y r+f+eiflYl+q
  PHY93_19150|PHY93_19150   3 TDALFYHLFKTIPGLFFEIAK-LGYPPKAYQFNSIEIKQIAFRLDGVFKPTDIELDLPIIFVEVQFQADKQFYARFFSEIFLYLKQ 87 
                              8*****************999.6667889********************************************************* PP

                  DUF2887  87 ykperdwravviypsrslepeeeeayrelleservkriYL 126
                              y+p++dw+avvi+p+rs++++++++y+ ll+s +v+riY 
  PHY93_19150|PHY93_19150  88 YQPKEDWKAVVIFPKRSVDNSDTRHYKMLLDSPNVSRIYF 127
                              ***************************************5 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (129 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       411  (0.0229238); expected 358.6 (0.02)
Passed bias filter:                      315  (0.0175693); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.37u 0.21s 00:00:00.57 Elapsed: 00:00:00.35
# Mc/sec: 1117.61
//
Query:       PHY93_19155|PHY93_19155  [L=141]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.9e-29  101.6   0.0    3.5e-29  101.4   0.0    1.1  1  Y1_Tnp    Transposase IS200 like


Domain annotation for each model (and alignments):
>> Y1_Tnp  Transposase IS200 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  101.4   0.0   1.9e-33   3.5e-29       1     101 [.      10     109 ..      10     119 .. 0.91

  Alignments for each domain:
  == domain 1  score: 101.4 bits;  conditional E-value: 1.9e-33
                   Y1_Tnp   1 vsnlkyhivlvtkyRrkvltgeveerlkeiikeiaekkevkilelelmpDHvHllvelppklsiskivkalkgassrlinkefpel 86 
                              v++++yh+v+vtkyR++vl+g+v+ r++e++k+++e++e+kil   + +DHvH+lv++pp++++s+i++++kg+s+ ++++efp l
  PHY93_19155|PHY93_19155  10 VFKIEYHFVWVTKYRYQVLRGDVALRVRELVKQTCESFEIKILRGVVSKDHVHILVSAPPSIAPSEIMRRIKGRSACKLFEEFPLL 95 
                              5789****************************************************************************999998 PP

                   Y1_Tnp  87 kkkklkkeslWqrgY 101
                              kk+ +++ ++  ++ 
  PHY93_19155|PHY93_19155  96 KKH-YWGATFLGERL 109
                              855.67677766655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (141 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       286  (0.0159518); expected 358.6 (0.02)
Passed bias filter:                      265  (0.0147805); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 1088.08
//
Query:       PHY93_19160|PHY93_19160  [L=504]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.2e-18   65.2   0.1    9.2e-18   65.2   0.1    3.2  2  DUF262    Protein of unknown function DUF262
  ------ inclusion threshold ------
      0.072   13.0   0.0       0.29   11.1   0.0    2.0  2  DUF1748   Fungal protein of unknown function (DUF1748)


Domain annotation for each model (and alignments):
>> DUF262  Protein of unknown function DUF262
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.2   0.1     1e-21   9.2e-18      21     210 ..       2     188 ..       1     192 [. 0.78
   2 ?   -8.1  11.8         2   1.8e+04     173     173 ..     300     300 ..     193     501 .. 0.61

  Alignments for each domain:
  == domain 1  score: 65.2 bits;  conditional E-value: 1e-21
                   DUF262  21 yvWeeeqveeLiedllalkgyplGsivlw.................skaadsageleviDGQQRltTltlllaatkeesekriknl 89 
                              ++W++++  +L+++l  + gyp+Gsi++w                 s+  ++++ ++++DG QRl+T+   l +            
  PHY93_19160|PHY93_19160   2 FSWTNKNKLDLLDSL--KCGYPIGSILFWqpdtnkkhiaaekigpfSVPPKKDNFFYILDGFQRLSTILGCLIN------------ 73 
                              89*************..***************************99878888**********************............ PP

                   DUF262  90 eaeiekekeeededrlkrr.eresdkellqkllrseklsleekeelaelnsltkkdl..akeekrneeknlikayevieeilksal 172
                                  +k ++ +de+++k +   ++d e+ + +l  +++ ++++++ ++l + +   l   +  k+++++n i++y   ++      
  PHY93_19160|PHY93_19160  74 ---PQKSSLPYDEKKWKKEfLIYYDLEMEEFFLPRSENVESHQIPVYQLLDTRAAFLfeRELAKKEYKENDIEKYIDRYT------ 150
                              ...44456667777776664555555555555555555555577777777666666655333345666666666666666...... PP

                   DUF262 173 lsalktklslieielese....ddedqayeiFerlNsrGvpL 210
                                  +  + li ++l s+     +++++ ++F r+Ns+G   
  PHY93_19160|PHY93_19160 151 ----ELGTTLIDYSLPSIdmigGEIEEVVDVFSRVNSKGSDI 188
                              ....45789999999999999999**************9765 PP

  == domain 2  score: -8.1 bits;  conditional E-value: 2
                   DUF262 173 l 173
                               
  PHY93_19160|PHY93_19160 300 T 300
                              0 PP

>> DUF1748  Fungal protein of unknown function (DUF1748)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   3.2e-05      0.29      29      58 ..     132     161 ..      66     166 .. 0.86
   2 ?   -2.2   0.0      0.45   4.1e+03       2      30 ..     287     315 ..     287     347 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 3.2e-05
                  DUF1748  29 lnsdkitdkdikkwvdkYLgvGEwvmDqsv 58 
                              l+ ++ +++di+k++d+Y ++G +++D+s+
  PHY93_19160|PHY93_19160 132 LAKKEYKENDIEKYIDRYTELGTTLIDYSL 161
                              67788899********************96 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 0.45
                  DUF1748   2 grlthyafDavLvSvvlAgvkrttgltln 30 
                              g+l+ y++ ++ +  +   +k+ t ++l+
  PHY93_19160|PHY93_19160 287 GKLLPYGIQLIFITDFFNQIKKPTEIQLK 315
                              67788888888888777777777776665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (504 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       892  (0.0497518); expected 358.6 (0.02)
Passed bias filter:                      421  (0.0234815); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.60u 0.23s 00:00:00.83 Elapsed: 00:00:00.41
# Mc/sec: 3724.62
//
Query:       PHY93_19165|PHY93_19165  [L=141]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      6e-10   39.7   0.0    8.5e-10   39.2   0.0    1.2  1  PIN       PIN domain
  ------ inclusion threshold ------
      0.017   15.0   0.0       0.14   12.1   0.0    2.0  1  DUF4411   Domain of unknown function (DUF4411)
      0.035   13.9   0.0       0.22   11.3   0.0    2.0  2  DUF5615   Domain of unknown function (DUF5615)


Domain annotation for each model (and alignments):
>> PIN  PIN domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.2   0.0   1.4e-13   8.5e-10       2     113 ..       4     123 ..       3     132 .. 0.81

  Alignments for each domain:
  == domain 1  score: 39.2 bits;  conditional E-value: 1.4e-13
                              EE-HHHHHHHH...TTSHHHHHHHHHHHTS..SEEEEEHHHHHHHHHHHHSSCHCHHHHHHHHHHHHH.....HHTSEEEEBCHHH CS
                      PIN   2 vlDTsvliall...rgeekaeaarklleel..eelvtsalvlaEllyvlarrkskrekaaelvellll.....lsalkilpidaei 77 
                              +lDT+v+ +l     g+ +  +++++ +++  ++l++sa++l El +++   +++  ++a+l++++l      + + +il +d+++
  PHY93_19165|PHY93_19165   4 LLDTNVVSELRkakTGKINP-NIKAWAQSVspSDLFLSAITLLELEMGIGLIERRDPAQAALLRTWLNhhvlpAFEGRILAVDSAV 88 
                              79*********995555555.899999999*********************666666666666666551000345566777***** PP

                              HHHHHHHHHHHHSBHHHHHHHHHHHHHT-EEE.ESS CS
                      PIN  78 aeeaaeialkygllpnDaliaAtAkehgikliatfD 113
                              a+  ++++    +   Dali AtA+ h++ ++ t++
  PHY93_19165|PHY93_19165  89 ALCCGKLHVPDPRAERDALIGATALVHNMVVV-TRN 123
                              ***********9*****************777.986 PP

>> DUF4411  Domain of unknown function (DUF4411)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   2.3e-05      0.14     103     131 ..     102     128 ..       3     138 .. 0.60

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 2.3e-05
                  DUF4411 103 svaDpfliAaAlaknatvVTkEvkkpnkk 131
                               + D+ + A+Al++n++vVT +v+  +++
  PHY93_19165|PHY93_19165 102 AERDALIGATALVHNMVVVTRNVE--DFE 128
                              678*******************98..444 PP

>> DUF5615  Domain of unknown function (DUF5615)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.0   0.0      0.12   7.3e+02       1      13 [.       1      13 [.       1      31 [. 0.77
   2 ?   11.3   0.0   3.7e-05      0.22      36      61 ..     104     130 ..      92     137 .. 0.82

  Alignments for each domain:
  == domain 1  score: 0.0 bits;  conditional E-value: 0.12
                  DUF5615  1 mklllDenlsprl 13
                             m lllD n+  +l
  PHY93_19165|PHY93_19165  1 MTLLLDTNVVSEL 13
                             8899999986555 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 3.7e-05
                  DUF5615  36 sDeeileyAkeedriivTkD.kDFgel 61 
                               D  i + A  +++++vT++ +DF  l
  PHY93_19165|PHY93_19165 104 RDALIGATALVHNMVVVTRNvEDFEPL 130
                              78999999****************988 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (141 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       252  (0.0140554); expected 358.6 (0.02)
Passed bias filter:                      243  (0.0135535); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.41
# Mc/sec: 1039.54
//
Query:       PHY93_19170|PHY93_19170  [L=71]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.8e-09   36.3   0.7    4.9e-09   35.9   0.7    1.3  1  VapB_antitoxin  Bacterial antitoxin of type II TA system, Vap


Domain annotation for each model (and alignments):
>> VapB_antitoxin  Bacterial antitoxin of type II TA system, VapB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.9   0.7   2.8e-13   4.9e-09       3      47 .]       2      47 ..       1      57 [. 0.94

  Alignments for each domain:
  == domain 1  score: 35.9 bits;  conditional E-value: 2.8e-13
                             XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX-------H.H.... CS
           VapB_antitoxin  3 tnIeiDDeLlaeAirltglktKrEaVnlALreLiqrrkre.eldeL 47
                             t+I++DD+L++e+i ++++  + EaV + L e++q +k++ ++ eL
  PHY93_19170|PHY93_19170  2 TTITLDDQLIEEVISVSHYQNAQEAVVKILAEYLQQQKARsNIVEL 47
                             9*************************************88777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (71 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1149  (0.0640861); expected 358.6 (0.02)
Passed bias filter:                      774  (0.0431703); expected 358.6 (0.02)
Passed Vit filter:                        63  (0.00351386); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.23s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 552.69
//
Query:       PHY93_16355|PHY93_16355  [L=108]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    9.5e-17   61.1   0.1    1.1e-16   60.9   0.1    1.0  1  Bactofilin  Polymer-forming cytoskeletal


Domain annotation for each model (and alignments):
>> Bactofilin  Polymer-forming cytoskeletal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.9   0.1     6e-21   1.1e-16       1      94 [.       8     103 ..       8     107 .. 0.97

  Alignments for each domain:
  == domain 1  score: 60.9 bits;  conditional E-value: 6e-21
               Bactofilin   1 tligegtkikGelevegdlridGkveGdi..eakgklvvgeggkvegnikaeevvvaGtvkGnveaeekvelkktakveGdikaks 84 
                              t+ig+ t+++G+++++g  +++G+++Gdi  e+++k+v++ g+  eg+++++++++ G++ G v+++++v++ +ta  eG+i ++s
  PHY93_16355|PHY93_16355   8 TYIGKATSLSGTFKFSGPTHLQGHLHGDIivENSAKIVLEIGSYTEGSLQCNDLDIYGEFVGVVQSSGRVTIYPTAIFEGKIISRS 93 
                              689**************************998899*************************************************** PP

               Bactofilin  85 leieegavfe 94 
                              lei +ga ++
  PHY93_16355|PHY93_16355  94 LEILPGAIVN 103
                              *******987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (108 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       181  (0.0100954); expected 358.6 (0.02)
Passed bias filter:                      171  (0.00953762); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.41
# Mc/sec: 799.82
//
Query:       PHY93_21305|PHY93_21305  [L=767]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.2e-23   84.0   0.0    1.8e-13   51.0   0.0    2.4  2  GAF_2          GAF domain
      2e-15   57.6   0.0    2.2e-08   34.8   0.0    2.4  2  GAF            GAF domain
    1.2e-08   35.3   0.0    5.8e-06   26.7   0.0    2.6  2  GAF_3          GAF domain
     0.0032   16.3   0.1     0.0076   15.1   0.1    1.5  1  HCO3_cotransp  HCO3- transporter family
  ------ inclusion threshold ------
      0.012   15.8   0.1        7.8    6.7   0.0    2.8  2  DUF3369        Domain of unknown function (DUF3369)


Domain annotation for each model (and alignments):
>> GAF_2  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.0   0.0   4.9e-17   1.8e-13       3     136 ..      22     175 ..      20     176 .. 0.87
   2 !   30.5   0.0     1e-10   3.7e-07       4     137 ..     200     354 ..     199     355 .. 0.72

  Alignments for each domain:
  == domain 1  score: 51.0 bits;  conditional E-value: 4.9e-17
                              HHHHHHHHHHHHHHHS.S..EEEEEEE-.TTS-EEEEEEEES-TTSTT-S-B---TTHHHHHHHHTS-EEES-GGG.......... CS
                    GAF_2   3 dleelldlvldelvel.gaalgyillvd.ddgglrlaawgeaeeefgaaldrplgeglvgealrtgrpvilndlee.......... 76 
                               l+ + +lv+d + el ga+ g + +vd  +++l+  a ++a +e  + + r +ge++vg+a++++r  ++ ++++          
  PHY93_21305|PHY93_21305  22 PLDKFSELVVDVAKELvGADNGRLRFVDyTEKRLVPGAIRGALAEKPEMAVREIGECIVGQAAAQKRTQFVLNVQDneyfklfktk 107
                              588999*********88***********44444444444455555544444466*******************9999********* PP

                              .......-S-HHHHH.HHHHTT--EEEEEE-TTS---EEEEES......--HHHHHHHHHHHHHHHHH CS
                    GAF_2  77 .......dpdkkglp.aghaglrsflavPlisegrvvGvlnlyankppafdeedlelLeelaeqiaia 136
                                     d+d+k+++    ++l+s++avP++++  ++Gvl++ a k++af   d  +L+++a+ ia+a
  PHY93_21305|PHY93_21305 108 vskmgekDEDWKNYHdKTLENLGSEIAVPVMAGSTLLGVLSVNALKKNAFQKNDEKILSAFASEIAVA 175
                              *******99999999999**************999*******************************98 PP

  == domain 2  score: 30.5 bits;  conditional E-value: 1e-10
                              HHHHHHHHHHHHHHS..S...EEEEEE..E-TTS-.........EEEEEEEES-TTSTT-S-B.--...-TTHHHHHHHH.....T CS
                    GAF_2   4 leelldlvldelvel..g.aalgyill..vdddgg.........lrlaawgeaeeefgaaldr.pl...geglvgealrt.....g 66 
                              l+e+++++ d ++++  g +   +++     d++          l  + ++eae+e+g+ ++r ++   geg   ea+++      
  PHY93_21305|PHY93_21305 200 LKEVAQNIADGIQKMvkGsIPNIFLYDelF-DENCkenenpfqfLASSGASEAEKELGSFTPRwSPnshGEGRGMEAIQKykageD 284
                              778899999999885577555555544331.2211233345333334477777777788887774456766654577777666422 PP

                              S-EEES-GGG-S-HHHHH.HHHHTT--EEEEEE-TTS---EEEEES......--HHHHHHHHHHHHHHHHHH CS
                    GAF_2  67 rpvilndleedpdkkglp.aghaglrsflavPlisegrvvGvlnlyankppafdeedlelLeelaeqiaiai 137
                                ++++d+++  d+ g+p a++ ++ ++ ++Pl+ +g +vGvl l +++ ++f+ e+ ++L+++a  +aiai
  PHY93_21305|PHY93_21305 285 SFIVVEDVQQ--DSLGSPtAREKKIMTTCCLPLVFRGFIVGVLYLHFKEMHFFTIEEKRILKMFAIPVAIAI 354
                              3566999999..67777778*************9999********9999999*******************9 PP

>> GAF  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.8   0.0   6.2e-12   2.2e-08       2     132 ..      23     175 ..      22     176 .. 0.76
   2 !   20.6   0.0   1.5e-07   0.00053      41     133 .]     261     354 ..     200     354 .. 0.79

  Alignments for each domain:
  == domain 1  score: 34.8 bits;  conditional E-value: 6.2e-12
                              HHHHHHHHHHHHHHHHTESEEEE.EEEEETTEEECEEEEECC.....EEEET...TSHHHHHHHH...HSSSEEESTGG....... CS
                      GAF   2 leelldtvveelrellgadrval.ylpdydGlhydipqasrw.....lfmkn...grgicgqvla...tgqplvipdst....... 68 
                              l++ ++ vv+ ++el+gad++ l +  dy   +  +p a r      ++m +   g++i+gq++a   t+ +l+++d         
  PHY93_21305|PHY93_21305  23 LDKFSELVVDVAKELVGADNGRLrFV-DYTEKRL-VPGAIRGalaekPEMAVreiGECIVGQAAAqkrTQFVLNVQDNEyfklfkt 106
                              677889999**************666.7777666.66666666545633333555999***8887222455566665335677777 PP

                              .......TSTTHHTTHHHHHHHHTTESEEEEEEEEETTEEEEEEEEEE.SSSCSHHHHHHHHHHHHHHHHHH CS
                      GAF  69 .......pdprfaqynrrdllenmgirsslvvPlvndgelwGllvlhn.psppftreelellqvladqvava 132
                                     +d+++ + ++ ++len g+   ++vP++++  l+G+l++   +++ f+++++ +l ++a+ +ava
  PHY93_21305|PHY93_21305 107 kvskmgeKDEDWKN-YHDKTLENLGSE--IAVPVMAGSTLLGVLSVNAlKKNAFQKNDEKILSAFASEIAVA 175
                              77777777777777.667899999998..*******************64448*****************98 PP

  == domain 2  score: 20.6 bits;  conditional E-value: 1.5e-07
                              CCEEEETTSHHHH......HHHHHSSSEEESTGGTSTTHHTTHHHHHHHHTTESEEEEEEEEETTEEEEEEEEEESSSCS.HHHHH CS
                      GAF  41 rwlfmkngrgicg......qvlatgqplvipdstpdprfaqynrrdllenmgirsslvvPlvndgelwGllvlhnpsppf.treel 119
                              rw++ + g+g  g      + + ++  +v++d+++d+  ++     ++++  i + +++Plv +g ++G+l+lh +  +f t ee 
  PHY93_21305|PHY93_21305 261 RWSPNSHGEG-RGmeaiqkYKAGEDSFIVVEDVQQDSLGSP-----TAREKKIMTTCCLPLVFRGFIVGVLYLHFKEMHFfTIEEK 340
                              5544444333.112234345555667778888777777555.....77899999*********************666555***** PP

                              HHHHHHHHHHHHHH CS
                      GAF 120 ellqvladqvaval 133
                              ++l+++a  va+a+
  PHY93_21305|PHY93_21305 341 RILKMFAIPVAIAI 354
                              ************97 PP

>> GAF_3  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.7   0.0   1.6e-09   5.8e-06       3     126 ..      24     175 ..      23     178 .. 0.85
   2 !    5.9   0.0    0.0044        16      83     129 .]     310     356 ..     264     356 .. 0.81

  Alignments for each domain:
  == domain 1  score: 26.7 bits;  conditional E-value: 1.6e-09
                    GAF_3   3 dellekllkllvkllgaevgalllldedgnklqvaagw.dgkpalsesld.edsalarralssgevvse................. 69 
                              d++ e +++ + +l+ga+ g l  +d  +++l++ a     +++++++++ ++++    a++++  +++                 
  PHY93_21305|PHY93_21305  24 DKFSELVVDVAKELVGADNGRLRFVDYTEKRLVPGAIRgALAEKPEMAVReIGECIVGQAAAQKRTQFVlnvqdneyfklfktkvs 109
                              56667788999999999999999999999999999877678888899998899999999999999999977888777777777776 PP

                    GAF_3  70 .........psfaeedglpdraalavPLvagrqviGvlalastkprafdaedlelleslArqiata 126
                                       + +++++  ++++ +avP++ag++++Gvl ++  k+ af+  d+  l+++A+ ia a
  PHY93_21305|PHY93_21305 110 kmgekdedwKNYHDKTLENLGSEIAVPVMAGSTLLGVLSVNALKKNAFQKNDEKILSAFASEIAVA 175
                              66666655555577778999*******************************************987 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.0044
                    GAF_3  83 alavPLvagr.qviGvlalastkprafdaedlelleslArqiataier 129
                                ++PLv  r   +Gvl+l+ ++   f+ e+++ l+ +A  +a+ai +
  PHY93_21305|PHY93_21305 310 TCCLPLVF-RgFIVGVLYLHFKEMHFFTIEEKRILKMFAIPVAIAIKN 356
                              46799999.5499*******9886669*******************87 PP

>> HCO3_cotransp  HCO3- transporter family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.1   2.1e-06    0.0076     133     291 ..     195     355 ..     160     368 .. 0.53

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 2.1e-06
            HCO3_cotransp 133 lvatdasalvkyitrfteeifallIslifiyealkkllkifkkyplnlklk...ellkkkcecsepekeeltesalekseeks... 212
                              ++++++  + + i    + ++   I  if+y+ l +     +++p++   +   ++ +k+    +p  + + +         s   
  PHY93_21305|PHY93_21305 195 ISVFELKEVAQNIADGIQKMVKGSIPNIFLYDELFDENCKENENPFQFLASsgaSEAEKELGSFTP--RWSPN---------Shge 269
                              455555555555555555555555666666655555544455555544333111111111111111..11111.........1222 PP

            HCO3_cotransp 213 ......elswsslltkkecteelkgelvgkecelvpd.vallsliLflgtfllalfLkkfkksrflptkvRelisDfavliailvm 291
                                     +++++ + +  + e++++   g+ +  ++  ++  +l L++  f++++   +fk+ +f++ + ++++  fa+++ai++ 
  PHY93_21305|PHY93_21305 270 grgmeaIQKYKAGEDSFIVVEDVQQDSLGSPTAREKKiMTTCCLPLVFRGFIVGVLYLHFKEMHFFTIEEKRILKMFAIPVAIAIK 355
                              22222122333222222344455555555444334440445566699************************************985 PP

>> DUF3369  Domain of unknown function (DUF3369)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.0    0.0035        13     137     162 ..     154     179 ..     118     183 .. 0.87
   2 ?    6.7   0.0    0.0022       7.8      99     163 ..     294     358 ..     192     361 .. 0.85

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.0035
                  DUF3369 137 trplseldrkLlevFannvavafeNv 162
                              +++ +++d+k+l  Fa+ +avaf N 
  PHY93_21305|PHY93_21305 154 KNAFQKNDEKILSAFASEIAVAFLNR 179
                              567899*****************996 PP

  == domain 2  score: 6.7 bits;  conditional E-value: 0.0022
                  DUF3369  99 relleraleskkslfeddfvvlyfktkegsegvlylettrplseldrkLlevFannvavafeNvl 163
                              ++ l +  +++k++++++++ l f+       +l+++  +  + +++++l++Fa  va+a++N+ 
  PHY93_21305|PHY93_21305 294 QDSLGSPTAREKKIMTTCCLPLVFRGFIVGVLYLHFKEMHFFTIEEKRILKMFAIPVAIAIKNAT 358
                              6667777778888888888888888887777777777888999********************86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (767 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       734  (0.0409393); expected 358.6 (0.02)
Passed bias filter:                      527  (0.0293937); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.70u 0.21s 00:00:00.90 Elapsed: 00:00:00.38
# Mc/sec: 6084.23
//
Query:       PHY93_09335|PHY93_09335  [L=334]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (334 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       627  (0.0349713); expected 358.6 (0.02)
Passed bias filter:                      233  (0.0129957); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 2526.66
//
Query:       PHY93_09340|PHY93_09340  [L=119]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.8e-17   61.3   0.0    3.6e-07   30.5   0.0    2.1  2  CBS       CBS domain


Domain annotation for each model (and alignments):
>> CBS  CBS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.5   0.0     2e-11   3.6e-07       1      53 [.       4      58 ..       4      62 .. 0.90
   2 !   29.2   0.0   5.4e-11   9.6e-07       5      46 ..      76     117 ..      68     119 .] 0.89

  Alignments for each domain:
  == domain 1  score: 30.5 bits;  conditional E-value: 2e-11
                             HHHHSBSSCEEEETTSBHHHHHHHHHHHTSSEEEEE..ETTTBEEEEEEHHHHHH CS
                      CBS  1 VgdimtrdvvtvppdttleealelmrekgvsrlPVV..dedgklvGivtlrDllr 53
                             V++im  ++v+++p t +ee+ +lm+e +   +P+V    ++k++G++t++ + +
  PHY93_09340|PHY93_09340  4 VSEIMKANPVCCTPFTRIEEIERLMKEQNSKEIPIVnsLYEKKFLGLITEEEITK 58
                             89***********************999999*****8744568*******99977 PP

  == domain 2  score: 29.2 bits;  conditional E-value: 5.4e-11
                              SBSSCEEEETTSBHHHHHHHHHHHTSSEEEEEETTTBEEEEE CS
                      CBS   5 mtrdvvtvppdttleealelmrekgvsrlPVVdedgklvGiv 46 
                              mt +++t++ ++++ e+++lm +++++r+PV+d  g+++Giv
  PHY93_09340|PHY93_09340  76 MTLNPLTIYAESSIDECFRLMDSSHLDRIPVIDAGGHFCGIV 117
                              8889*****************77779******9888*****9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (119 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       708  (0.0394891); expected 358.6 (0.02)
Passed bias filter:                      496  (0.0276647); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.37
# Mc/sec: 952.45
//
Query:       PHY93_09345|PHY93_09345  [L=104]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (104 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       917  (0.0511462); expected 358.6 (0.02)
Passed bias filter:                      413  (0.0230353); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.20s 00:00:00.59 Elapsed: 00:00:00.37
# Mc/sec: 840.09
//
Query:       PHY93_09350|PHY93_09350  [L=491]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.2e-19   69.1   1.7    6.7e-19   68.5   0.0    2.2  2  HATPase_c        Histidine kinase-, DNA gyrase B-, and HSP90-
    3.7e-09   36.4   0.0    3.7e-09   36.4   0.0    3.4  3  HATPase_c_5      GHKL domain
    7.2e-09   35.6   1.4    4.4e-08   33.0   0.0    2.7  3  HisKA            His Kinase A (phospho-acceptor) domain
    2.1e-07   30.8   1.7      7e-07   29.2   1.7    1.9  1  CHASE5           Periplasmic sensor domain found in signal tr
  ------ inclusion threshold ------
      0.077   13.1   1.3       0.83    9.8   0.8    2.7  2  DASH_Dad3        DASH complex subunit Dad3
      0.082   13.3   0.0       0.21   12.0   0.0    1.7  1  HAMP             HAMP domain
       0.13   12.3   2.7       0.25   11.3   0.2    2.4  2  Borrelia_P13     Borrelia membrane protein P13
       0.33   10.4   6.0       0.38   10.2   4.4    1.9  1  Allexi_40kDa     Allexivirus 40kDa protein
       0.58   10.5  15.0        0.9    9.9   3.6    3.1  3  Sigma_reg_N      Sigma factor regulator N-terminal
        2.6    8.0   5.7       0.26   11.2   0.3    2.1  2  ODV-E18          Occlusion-derived virus envelope protein ODV
        9.8    5.2  10.8        5.6    6.0   5.7    2.8  2  AI-2E_transport  AI-2E family transporter


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.1       2.1   3.4e+03      35      58 ..     238     263 ..     191     319 .. 0.67
   2 !   68.5   0.0   4.1e-22   6.7e-19       4     110 ..     387     491 .]     385     491 .] 0.86

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 2.1
                              E..TEEEEEEEESSSSSTTHHHTGTC CS
                HATPase_c  35 e..ddlvisveDnGiGipkedlkklf 58 
                                 ++++ +++D  + i ++++  + 
  PHY93_09350|PHY93_09350 238 RlnNEKEQKISDQEKKIEMQQMAAIT 263
                              13356666677777777776666443 PP

  == domain 2  score: 68.5 bits;  conditional E-value: 4.1e-22
                              HHHHHHHHHHHHHHHHH..HSTTTEEEEEEEE..EETEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHHH CS
                HATPase_c   4 krLrqiisnlvdNavkf..atkageieveika..seddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkklv 85 
                               +L q++ nl  Na ++  +  +++ +++ika  +e+++ i   D+G+Gip++ ++k+f++f +   tk  g+gtGlGls+v +++
  PHY93_09350|PHY93_09350 387 VQLSQVLLNLFNNAFDAivQ--SETKWIKIKAnkTENWFIIHFIDSGPGIPRDLHEKIFQPFFT---TKEIGKGTGLGLSLVYSII 467
                              5799************9444..555566666532559***************************...888899***********99 PP

                              HHTTTEEEEEEETTTEEEEEEEEES CS
                HATPase_c  86 elmgGeiwvesepgrGttftftlpl 110
                              + ++G i ++ +  + t+ft++lpl
  PHY93_09350|PHY93_09350 468 KNHNGVIFYDHQF-ENTCFTIKLPL 491
                              99*******5444.7*******996 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.1       2.8   4.6e+03      28      55 ..      89     117 ..      81     129 .. 0.56
   2 ?   -2.6   2.1       3.1   5.1e+03      62      62 ..     217     217 ..     170     256 .. 0.55
   3 !   36.4   0.0   2.3e-12   3.7e-09       4      98 ..     387     489 ..     385     491 .] 0.85

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 2.8
              HATPase_c_5  28 krfIrltvrekkkslii.sieNsyegekk 55 
                              k  ++++++  k+++++ + +N+ +++ +
  PHY93_09350|PHY93_09350  89 KDLVKVSIKDPKGQVMVeKYHNNSDNNLD 117
                              45667777766666554134555555443 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 3.1
              HATPase_c_5  62 s 62 
                              s
  PHY93_09350|PHY93_09350 217 S 217
                              0 PP

  == domain 3  score: 36.4 bits;  conditional E-value: 2.3e-12
              HATPase_c_5   4 ldlcvilgnlLdNAieacskieeekrfIrltvrekkksliisieNsyeg......ek..kklesskskkeehGiGlksireivkky 81 
                              + l+ +l nl++NA +a  + e  ++ I+++++++++ +ii++  s  g      ek  + ++++k+ ++  G+Gl+ + +i+k++
  PHY93_09350|PHY93_09350 387 VQLSQVLLNLFNNAFDAIVQSE--TKWIKIKANKTENWFIIHFIDSGPGiprdlhEKifQPFFTTKEIGKGTGLGLSLVYSIIKNH 470
                              67999*************9988..8*********************88866655422466677*********************** PP

              HATPase_c_5  82 kg..nlsieaedglFtlsv 98 
                              +g  +++ + e+++Ft ++
  PHY93_09350|PHY93_09350 471 NGviFYDHQFENTCFTIKL 489
                              **44445778999999876 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0         4   6.5e+03      50      61 ..     189     200 ..     187     203 .. 0.85
   2 ?    0.0   0.1      0.55   8.9e+02      35      58 ..     216     239 ..     204     244 .. 0.78
   3 !   33.0   0.0   2.7e-11   4.4e-08       1      64 [.     269     336 ..     269     339 .. 0.92

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 4
                              HHHHHHHHHHHH CS
                    HisKA  50 rldhlvedlLdl 61 
                               +d++++ l+d+
  PHY93_09350|PHY93_09350 189 NIDQIIDYLRDF 200
                              689999999998 PP

  == domain 2  score: 0.0 bits;  conditional E-value: 0.55
                              SSCHHHHHHHHHHHHHHHHHHHHH CS
                    HisKA  35 eelkeyletiesearrldhlvedl 58 
                               + ++ +++++s ++ + +++++l
  PHY93_09350|PHY93_09350 216 SSTRDEIDILQSAINKMIEQINRL 239
                              566777888899999888888887 PP

  == domain 3  score: 33.0 bits;  conditional E-value: 2.7e-11
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHC......T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCH CS
                    HisKA   1 slgrflagvaHELrtPLsailgnaeaLkre....gklteelkeyletiesearrldhlvedlLdlsri 64 
                              +lg+++ g+aHE+++PL+ i  n++++++     + ++e   +  + i++ ++r+  +++ l  +sr 
  PHY93_09350|PHY93_09350 269 ALGEMAGGIAHEINNPLTIIHTNTKIMEKMidkgIINNELFLKSTKNIIKTIERIGTIISGLKNISRD 336
                              589************************8878999666899999*****************99999985 PP

>> CHASE5  Periplasmic sensor domain found in signal transduction proteins
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.2   1.7   4.3e-10     7e-07       1     106 [.      43     154 ..      43     158 .. 0.74

  Alignments for each domain:
  == domain 1  score: 29.2 bits;  conditional E-value: 4.3e-10
                   CHASE5   1 DydrevsriearldeiekatlevLaeslWnlDerllklqLeGlvrLPdidyieike......dsdvrvaaGe...pktssilnkef 77 
                              +y+r++  ++ r  +i+++t+ ++a  +WnlD   l+ q e + ++ d+  ++ik+       ++++ +  +   +  s   n ++
  PHY93_09350|PHY93_09350  43 EYNRNLRYLDERIHQIKESTIPSIARIVWNLDIPYLEVQAESIAKIKDLVKVSIKDpkgqvmVEKYHNNSDNnldSDQSDLRNYNY 128
                              5*******************************************************533333122222222211134444555566 PP

                   CHASE5  78 pLeykspddnvarniGtLeveadldeiyq 106
                              pL +      + + iGt+e+ a+ ++i +
  PHY93_09350|PHY93_09350 129 PLYHDYT---ANEFIGTVEIVATTKNIRN 154
                              6643333...55679***99999988866 PP

>> DASH_Dad3  DASH complex subunit Dad3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.0       0.7   1.1e+03      16      37 ..      45      66 ..      42      88 .. 0.77
   2 ?    9.8   0.8   0.00051      0.83      14      53 ..     224     263 ..     217     269 .. 0.88

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.7
                DASH_Dad3 16 aenlktLaselkeLasnsteei 37
                             ++nl+ L+++++++ +++  +i
  PHY93_09350|PHY93_09350 45 NRNLRYLDERIHQIKESTIPSI 66
                             6799999999999998854443 PP

  == domain 2  score: 9.8 bits;  conditional E-value: 0.00051
                DASH_Dad3  14 rLaenlktLaselkeLasnsteeildgLReLErkiglvyT 53 
                               L++ ++++ +++++L+++++++i d+ +++E++   ++T
  PHY93_09350|PHY93_09350 224 ILQSAINKMIEQINRLNNEKEQKISDQEKKIEMQQMAAIT 263
                              588999***************************9888777 PP

>> HAMP  HAMP domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   0.00013      0.21      32      52 ..     217     237 ..     213     238 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00013
                              TSSSHHHHHHHHHHHHHHHHH CS
                     HAMP  32 sgrDEiGeLarafNaMldrLr 52 
                              s+rDEi+ L  a+N M+++++
  PHY93_09350|PHY93_09350 217 STRDEIDILQSAINKMIEQIN 237
                              478***************997 PP

>> Borrelia_P13  Borrelia membrane protein P13
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.2   0.00016      0.25      58     106 ..       4      49 ..       1      60 [. 0.77
   2 ?    0.2   0.2      0.41   6.7e+02      65     119 ..     151     203 ..     139     217 .. 0.62

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00016
             Borrelia_P13  58 ldgivkkaeaavisgkvlllaGvltlaasylteiilPfkfanrynkdlk 106
                              ++++ +++ +  i +k ++   v+t+ +s +t ii+ f+f+  yn++l+
  PHY93_09350|PHY93_09350   4 DTTKENEKRFRPIKAKLIMA--VITV-SSIITLIIIIFNFNTEYNRNLR 49 
                              55566677777777776664..4554.689999**************96 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.41
             Borrelia_P13  65 aeaavisgk.vlllaGvltlaasylteiilPfkfanrynkdlknrlnvalaGlePn 119
                              +  + i  + ++l+aG + +  + l + i+ ++  n y ++  +++++ l  ++Pn
  PHY93_09350|PHY93_09350 151 NIRNEIYDRqIILVAGEI-I-KTLLLSFII-ILIINYYINKNIDQIIDYLRDFNPN 203
                              444444444044444443.2.344444444.3455778777788999999999997 PP

>> Allexi_40kDa  Allexivirus 40kDa protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   4.4   0.00023      0.38      56     126 ..     185     262 ..     182     303 .. 0.61

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00023
             Allexi_40kDa  56 hishdvdsiinklnpvslls......qttlLselrdalrtltklldklksvekklelsaetasd.skllkklesiets 126
                              +i++++d+ii+ l  ++  s      + +  s  rd++  l++ ++k+ ++ ++l++++e++ + ++   +++ +   
  PHY93_09350|PHY93_09350 185 YINKNIDQIIDYLRDFNPNSfetnylKINRKSSTRDEIDILQSAINKMIEQINRLNNEKEQKISdQEKKIEMQQMAAI 262
                              69********99888887775444444444567788888888888777777666666655544403333333333333 PP

>> Sigma_reg_N  Sigma factor regulator N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.5   1.8     0.006       9.9       8      67 ..      17      85 ..      11      88 .. 0.64
   2 ?   -1.8   0.0       2.5   4.1e+03      34      70 ..     105     138 ..     102     157 .. 0.67
   3 ?    9.9   3.6   0.00055       0.9      15      52 ..     163     200 ..     149     205 .. 0.82

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.006
              Sigma_reg_N  8 krksilrivlislivlllifvil.vvtllyl..........aekegnklrevlelaveitsPNvyvdsgsv 67
                             k k+i+  ++i++++++++++i+  ++++y           ++ +++ + + ++ ++++  P+ +v+ +s+
  PHY93_09350|PHY93_09350 17 KAKLIM--AVITVSSIITLIIIIfNFNTEYNrnlrylderiHQIKESTIPSIARIVWNLDIPYLEVQAESI 85
                             444444..555555555555555467777776666667777777777777777777777777777766665 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 2.5
              Sigma_reg_N  34 llylaekegnklrevlelaveitsPNvyvdsgsvsqs 70 
                               ++++++++n+l++  +++ ++ +P  +   ++++++
  PHY93_09350|PHY93_09350 105 VEKYHNNSDNNLDSDQSDLRNYNYPLYH---DYTANE 138
                              5778888888888888888777777444...344555 PP

  == domain 3  score: 9.9 bits;  conditional E-value: 0.00055
              Sigma_reg_N  15 ivlislivlllifvilvvtllylaekegnklrevlela 52 
                               v   +i +ll+++i++++++y+++k+ ++++++l++ 
  PHY93_09350|PHY93_09350 163 LVAGEIIKTLLLSFIIILIINYYINKNIDQIIDYLRDF 200
                              445558999************************99986 PP

>> ODV-E18  Occlusion-derived virus envelope protein ODV-E18
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.3   0.00016      0.26      11      47 ..       5      41 ..       1      47 [. 0.80
   2 ?   -2.2   1.0       2.3   3.8e+03      27      41 ..     169     182 ..     158     189 .. 0.58

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00016
                  ODV-E18 11 tdagstrrlarlePsllltilvvlviiillvllvqss 47
                             t     +r+  ++ +l++++++v  ii l++++++  
  PHY93_09350|PHY93_09350  5 TTKENEKRFRPIKAKLIMAVITVSSIITLIIIIFNFN 41
                             344456678889999*******************975 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 2.3
                  ODV-E18  27 lltilvvlviiillv 41 
                              + t+l   +ii l++
  PHY93_09350|PHY93_09350 169 IKTLLLSFIII-LII 182
                              44555554444.444 PP

>> AI-2E_transport  AI-2E family transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   5.7    0.0034       5.6     120     188 ..     147     217 ..      11     229 .. 0.87
   2 ?   -0.5   0.3      0.34   5.5e+02      77     125 ..     227     262 ..     220     295 .. 0.47

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.0034
          AI-2E_transport 120 kilsnilssi..lnsllsllasllglilslvlvllllffllldgeklrqgilkllpervrervkailrele 188
                              ++ +ni+++i   +++l +   + +l+ls++++l++ +++ ++ +++ ++++ + p++ ++++ +i r+++
  PHY93_09350|PHY93_09350 147 ATTKNIRNEIydRQIILVAGEIIKTLLLSFIIILIINYYINKNIDQIIDYLRDFNPNSFETNYLKINRKSS 217
                              5566777777433334444444556789**********************************999988765 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.34
          AI-2E_transport  77 aqltqlvkslpayidslqnilnelpslleelenliqalkqslskilsni 125
                              + ++++++++ +++++ ++ +++ +++ e  +             ++ i
  PHY93_09350|PHY93_09350 227 SAINKMIEQINRLNNEKEQKISDQEKKIEMQQ-------------MAAI 262
                              33344444444444444444444333333332.............2222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (491 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2296  (0.128061); expected 358.6 (0.02)
Passed bias filter:                      768  (0.0428356); expected 358.6 (0.02)
Passed Vit filter:                        75  (0.00418317); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.72u 0.25s 00:00:00.97 Elapsed: 00:00:00.43
# Mc/sec: 3459.52
//
Query:       PHY93_09355|PHY93_09355  [L=122]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.7e-22   79.7   1.2      2e-22   79.5   1.2    1.0  1  Response_reg  Response regulator receiver domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.5   1.2   1.1e-26     2e-22       1     111 [.       5     115 ..       5     116 .. 0.93

  Alignments for each domain:
  == domain 1  score: 79.5 bits;  conditional E-value: 1.1e-26
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHH.ESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeek.vdlillDinmpgmdGlellkeireedpelpviiltahseeed 85 
                              vlivdD+p vre+++++le e+++++ ea+ g eale++k++k +  i+ D++mp+ dG+ l++e+r+ d  lp iil + +++ +
  PHY93_09355|PHY93_09355   5 VLIVDDEPGVREAIATYLEIEDLMSI-EARCGLEALEIIKNNKdIKFIISDVRMPNGDGIFLINELRKLDTVLPFIILVTGQADIT 89 
                              8**********************555.69**********88777**************************999988888888889* PP

                              HHHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  86 avealkagaddflsKpfdpeeLlkal 111
                              ++ea++ ga d+  Kp d++++++ +
  PHY93_09355|PHY93_09355  90 REEAIQKGALDMFIKPPDMDKIIALI 115
                              **********************9887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (122 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       413  (0.0230353); expected 358.6 (0.02)
Passed bias filter:                      333  (0.0185733); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 937.08
//
Query:       PHY93_09360|PHY93_09360  [L=168]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (168 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       936  (0.0522059); expected 358.6 (0.02)
Passed bias filter:                      627  (0.0349713); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.23s 00:00:00.64 Elapsed: 00:00:00.36
# Mc/sec: 1384.61
//
Query:       PHY93_09365|PHY93_09365  [L=65]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (65 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1259  (0.0702214); expected 358.6 (0.02)
Passed bias filter:                      452  (0.0252106); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.23s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 502.06
//
Query:       PHY93_09370|PHY93_09370  [L=84]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (84 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1550  (0.0864521); expected 358.6 (0.02)
Passed bias filter:                      377  (0.0210274); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.23s 00:00:00.62 Elapsed: 00:00:00.40
# Mc/sec: 632.62
//
Query:       PHY93_09375|PHY93_09375  [L=571]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-21   77.6   0.0    2.5e-21   76.4   0.0    1.7  1  ResIII           Type III restriction enzyme, res subunit
    4.6e-15   55.9   0.1    7.4e-14   52.0   0.0    2.7  4  Helicase_C       Helicase conserved C-terminal domain
      6e-07   29.4   0.1    2.7e-06   27.3   0.1    2.1  1  DEAD             DEAD/DEAH box helicase
    6.3e-06   26.0   0.0      1e-05   25.3   0.0    1.3  1  SWI2_SNF2        SWI2/SNF2 ATPase
    0.00088   18.6   3.4       0.06   12.8   0.5    2.7  2  zf-ribbon_3      zinc-ribbon domain
     0.0026   17.3   3.3      0.043   13.4   0.5    2.4  2  zf-tcix          Putative treble-clef, zinc-finger, Zn-bindin
  ------ inclusion threshold ------
      0.013   15.2   0.0      0.022   14.5   0.0    1.3  1  AAA_30           AAA domain
       0.02   14.9   3.4       0.16   12.0   2.0    2.3  2  DZR              Double zinc ribbon
       0.02   14.6   0.0        9.9    5.8   0.0    3.0  3  Sigma54_activat  Sigma-54 interaction domain
      0.021   15.1   0.1       0.11   12.8   0.1    2.2  2  AAA_22           AAA domain


Domain annotation for each model (and alignments):
>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.4   0.0   1.4e-24   2.5e-21       2     171 .]       2     154 ..       1     154 [. 0.88

  Alignments for each domain:
  == domain 1  score: 76.4 bits;  conditional E-value: 1.4e-24
                              -EE-HHHHHHHHHHT......TTSEEEEEESTTSTHHHHHHHHHHHH-S.....-EEEEESSHHHHHHHHHHGGGGTGG....GEE CS
                   ResIII   2 lelreyQeeaienlleklkskrdkrglikmaTGtGKTlvaaklierllkkgkeekflflvprkslleqtleefkkflseaykeigk 87 
                              ++lr+yQ+  ++++++++  +++  ++i+++TG+GK+lv+a+l++  +      ++l+l++ k+l+eq  e++ +f  +a    g 
  PHY93_09375|PHY93_09375   2 YKLRPYQQVSVDATIAHFR-QEKSPVVIVLPTGAGKSLVIAELARVAKG-----RVLVLAHVKELVEQNHEKYISFGLQA----GI 77 
                              689***************9.8999*******************998887.....9**********************986....66 PP

                              EESSS-B--.......-SEEEEEHHHHHHTH........HHHTTT-SEEEEETGGGTTS...TTTHHHHHT---....SEEEEEES CS
                   ResIII  88 kvsgdkkkakekdstnkkilvttiqsldadseeeeeeseellrdrfdviiiDEaHrlgak..kswreilekfke....avllglTA 167
                              +  g ++k       + k+++ +iqs+ ++         e   ++f ++i+DE+Hr++ +  +++ +++ k+++     ++lglTA
  PHY93_09375|PHY93_09375  78 FSAGLNRKD-----FSEKVIFGSIQSIARAP--------EEFFQSFSLLIVDECHRISLEgeTQYFQVITKLRRsnidLCILGLTA 150
                              666666665.....6899*************........8889999***********9975558888877775556669******* PP

                              S-S- CS
                   ResIII 168 Tper 171
                              Tp+r
  PHY93_09375|PHY93_09375 151 TPYR 154
                              **86 PP

>> Helicase_C  Helicase conserved C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       4.4   7.8e+03      52      71 ..       9      28 ..       7      33 .. 0.79
   2 ?    0.1   0.0      0.57     1e+03       7      53 ..      40      85 ..      35      92 .. 0.79
   3 !   52.0   0.0   4.1e-17   7.4e-14       6     109 ..     241     342 ..     237     344 .. 0.92
   4 ?   -4.1   0.0        10   1.8e+04      36      53 ..     517     534 ..     501     535 .. 0.65

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 4.4
                             HHHHHHHHHHHHTTSSSEEE CS
               Helicase_C 52 qnereeileqfnkgesdvLi 71
                             q + +++++ f++++s v+i
  PHY93_09375|PHY93_09375  9 QVSVDATIAHFRQEKSPVVI 28
                             55678899999999999776 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.57
                             HHHHHHTTTTSEEEEEESSHHHHHH..HHHHHHHTTSTEEEESTTSTHH CS
               Helicase_C  7 lellkleeeggkilifvntidrlek..vklllekkgikvavlhgelpqn 53
                             +++l  ++ +g++l+ ++ ++ +e+   k++  ++g+++ ++ + l+ +
  PHY93_09375|PHY93_09375 40 IAEL-ARVAKGRVLVLAHVKELVEQnhEKYI--SFGLQAGIFSAGLNRK 85
                             4445.689999*********98887888999..8899888888777665 PP

  == domain 3  score: 52.0 bits;  conditional E-value: 4.1e-17
                              HHHHHHHTTTTSEEEEEESSHHHHHHHHHHHHHTTSTEEEESTTSTHHHHHHHHHHHHTTSSSEEEESGGGTSSSTSTTESEEEES CS
               Helicase_C   6 llellkleeeggkilifvntidrlekvklllekkgikvavlhgelpqnereeileqfnkgesdvLiatdvaerGidipkvnlVinf 91 
                              +++++++ +e+  ++if+ +++++e  ++l++   + +a++ g+++++er+ei+e+f+ ++ ++L+  +v+ +G d p v+l+ ++
  PHY93_09375|PHY93_09375 241 VKNIIDMAQERLGVMIFTSSVKHAE--EILRSLPPFVSAMIVGDTESSERDEIIEAFKIQKLKFLVNVSVLTTGFDAPHVDLIAIL 324
                              55666778888999**********8..99966669***********************99************************** PP

                              SSSSSHHHHHHHHTTSSS CS
               Helicase_C  92 dlprnvtsyiqriGRtgR 109
                               + ++v+ y+q +GR  R
  PHY93_09375|PHY93_09375 325 RPTESVSLYQQIVGRGLR 342
                              ***************988 PP

  == domain 4  score: -4.1 bits;  conditional E-value: 10
                              HHHTTSTEEEESTTSTHH CS
               Helicase_C  36 lekkgikvavlhgelpqn 53 
                              l+ + ++++++h ++p +
  PHY93_09375|PHY93_09375 517 LQAFYFNFTRMHNRIPEK 534
                              345578888888888876 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.3   0.1   1.5e-09   2.7e-06       3     169 ..       7     152 ..       5     155 .. 0.73

  Alignments for each domain:
  == domain 1  score: 27.3 bits;  conditional E-value: 1.5e-09
                              HHHHHHHHHH.....TTCEEEEEESTTSSHHHHHHHHHHHHHHHSTTSTS-EEEEEESSHHHHHHHHHHHHHHTTTSTSEEEEEET CS
                              xxxxxxxxxx.....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD   3 iQaeaiplil.....gggdvlvaaeTGsGKTlaflipvlqivyetkgktgpkalivePtreLaeqtlnnlkkfkkyidlrvlliig 83 
                              +Q+ ++++++     ++  v++  +TG+GK+l+  i+ l++v       + ++l+++  +eL+eq ++++ +f+ +++     +  
  PHY93_09375|PHY93_09375   7 YQQVSVDATIahfrqEKSPVVIVLPTGAGKSLV--IAELARV------AKGRVLVLAHVKELVEQNHEKYISFGLQAG----IFSA 80 
                              5666666666555556679*************9..5555445......6679******************99999755....3334 PP

                              TSSHHHHHHHHHTTCSEEEEEHHHHHHHHHCTSSHCTTEEEEEEETHHHHHHTTTHHHHHHHHHHSHHHCTTSTTTSEEEEEESSB CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  84 gvaardqlskldngvdivvgtpgrlddllstgklnlsqvrflVlDEadrlldqgfsdfinrilnqlpqitcdgklqrqvivlSATl 169
                              g +++d  +k+      ++g  + +++   ++   ++++++l++DE++r++ +  + ++ +++++l++ + d      ++ l+AT+
  PHY93_09375|PHY93_09375  81 GLNRKDFSEKV------IFGSIQSIARAP-EEF--FQSFSLLIVDECHRISLE-GETQYFQVITKLRRSNIDLC----ILGLTATP 152
                              55555555555......555555555522.233..78999***********99.67778888999977666655....99999997 PP

>> SWI2_SNF2  SWI2/SNF2 ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.3   0.0   5.8e-09     1e-05       1     158 [.       7     153 ..       7     181 .. 0.82

  Alignments for each domain:
  == domain 1  score: 25.3 bits;  conditional E-value: 5.8e-09
                SWI2_SNF2   1 qQyravekavervkegdrkgGviWHtqGSGKsltmvflakklleeelknpkvvvvtDRkdLdkQlsktfakageekpkqaesrkeL 86 
                              +Q ++v +++++ +++ ++  vi   +G+GKsl  + la+  +       +v+v+   k+L +Q ++++ ++g ++   + s    
  PHY93_09375|PHY93_09375   7 YQQVSVDATIAHFRQE-KSPVVIVLPTGAGKSLVIAELARVAKG------RVLVLAHVKELVEQNHEKYISFGLQAG--IFSAGLN 83 
                              5888999999999985.7778888999******99888876666......9********************999873..4444333 PP

                SWI2_SNF2  87 kellekesekiifttiqKfeeeekeklevlsereniivlvDEaHRsqyg......elakklrkalpnaafigFTGTPi 158
                              ++ +   sek+if  iq ++++ +   e +++    +++vDE+HR   +      ++ +klr+   + +++g+T TP 
  PHY93_09375|PHY93_09375  84 RKDF---SEKVIFGSIQSIARAPE---EFFQSF--SLLIVDECHRISLEgetqyfQVITKLRRSNIDLCILGLTATPY 153
                              3334...89**********76433...334443..599*******7655566666999*******************6 PP

>> zf-ribbon_3  zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.8   0.1    0.0054       9.7       2       9 ..     380     387 ..     379     390 .. 0.80
   2 !   12.8   0.5   3.3e-05      0.06       3      25 ..     432     454 ..     430     455 .. 0.91

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.0054
              zf-ribbon_3   2 tvrCPnCG 9  
                              +v+CP+CG
  PHY93_09375|PHY93_09375 380 EVTCPACG 387
                              67888888 PP

  == domain 2  score: 12.8 bits;  conditional E-value: 3.3e-05
              zf-ribbon_3   3 vrCPnCGa.plssddnvCpyCGtk 25 
                              +rC  CG+ + +  ++ C++C++ 
  PHY93_09375|PHY93_09375 432 KRCDLCGHeN-DIAARSCKSCQHL 454
                              89********.**********986 PP

>> zf-tcix  Putative treble-clef, zinc-finger, Zn-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.0   0.1     0.022        39      13      20 ..     383     390 ..     381     394 .. 0.91
   2 !   13.4   0.5   2.4e-05     0.043      10      40 ..     431     459 ..     428     461 .. 0.84

  Alignments for each domain:
  == domain 1  score: 4.0 bits;  conditional E-value: 0.022
                  zf-tcix  13 CpkCGtyN 20 
                              Cp CG +N
  PHY93_09375|PHY93_09375 383 CPACGLIN 390
                              ******99 PP

  == domain 2  score: 13.4 bits;  conditional E-value: 2.4e-05
                  zf-tcix  10 vrkCpkCGtyNGtRglsCkNkaCdqvfkkkd 40 
                               ++C  CG +N ++++sCk  +C++ + + d
  PHY93_09375|PHY93_09375 431 FKRCDLCGHENDIAARSCK--SCQHLLVDND 459
                              699***************7..8888776665 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0   1.2e-05     0.022      10     118 ..      16     142 ..       7     149 .. 0.77

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 1.2e-05
                   AAA_30  10 vealltsgdrvavltGpAGtGKttalkalreaweaaggrviglAptgkaAkvLae...elgieastiakllkrlk........... 81 
                              ++++ +++   +v++ p G+GK+ ++++l+++++   grv++lA+ ++  ++  e   ++g++a      l+r +           
  PHY93_09375|PHY93_09375  16 IAHFRQEKS-PVVIVLPTGAGKSLVIAELARVAK---GRVLVLAHVKELVEQNHEkyiSFGLQAGIFSAGLNRKDfsekvifgsiq 97 
                              555555554.788889************999988...79**********9998876777788999999999888899999****** PP

                   AAA_30  82 .....grarlepg.tllivDEagmv...dtkqlaallkaaekagak 118
                                     +++ ++ +llivDE   +   + +q  +++++++++++ 
  PHY93_09375|PHY93_09375  98 siaraP-EEFFQSfSLLIVDECHRIsleGETQYFQVITKLRRSNID 142
                              **9974.4455555*******8777333555666666666665555 PP

>> DZR  Double zinc ribbon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.0      0.18   3.2e+02      28      35 ..     380     387 ..     359     392 .. 0.75
   2 ?   12.0   2.0     9e-05      0.16      17      48 ..     424     451 ..     422     457 .. 0.83

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.18
                      DZR  28 edrCpsCg 35 
                              e +Cp+Cg
  PHY93_09375|PHY93_09375 380 EVTCPACG 387
                              56777776 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 9e-05
                      DZR  17 eCgtklkavaaedrCpsCgekvdpearfCpeC 48 
                              eCg + +     +rC+ Cg+++d  ar C++C
  PHY93_09375|PHY93_09375 424 ECGYRFR----FKRCDLCGHENDIAARSCKSC 451
                              6888887....788999999999999999988 PP

>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   0.0     0.017        30      14      47 ..      15      48 ..       6      91 .. 0.68
   2 ?    0.0   0.0      0.33     6e+02      96     119 ..     112     135 ..     106     141 .. 0.88
   3 ?    5.8   0.0    0.0055       9.9      16      61 ..     341     386 ..     328     414 .. 0.88

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.017
                             HHHHHCTSSS-EEEECSTTSSHHHHHHHHHHHST CS
          Sigma54_activat 14 qikkvaktdlsvlitGesGtGKellaraiheask 47
                             +i+++ + +++v+i+  +G+GK+l+   + +  k
  PHY93_09375|PHY93_09375 15 TIAHFRQEKSPVVIVLPTGAGKSLVIAELARVAK 48
                             5677778899*************99877766444 PP

  == domain 2  score: 0.0 bits;  conditional E-value: 0.33
                              EEEEETGGGS-HHHHHHHHHHHHH CS
          Sigma54_activat  96 tlfLDeigelplelQekLlrvlqe 119
                               l +De ++++le+ ++ ++v+ +
  PHY93_09375|PHY93_09375 112 LLIVDECHRISLEGETQYFQVITK 135
                              6899*************9999976 PP

  == domain 3  score: 5.8 bits;  conditional E-value: 0.0055
                              HHHCTSSS-EEEECSTTSSHHHHHHHHHHHSTTTTS-EEEEETTTS CS
          Sigma54_activat  16 kkvaktdlsvlitGesGtGKellaraiheaskrkekpfvavncaai 61 
                               ++ + ++++li+  +G G ++++  i ++++ +++ +v+v c a+
  PHY93_09375|PHY93_09375 341 LRLSPGKSNCLILDYTGQGHNIFSPEIDDNKPTSDSVMVEVTCPAC 386
                              566777899**********************************875 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.1   6.2e-05      0.11       4     112 ..      22     136 ..      19     153 .. 0.67
   2 ?   -3.3   0.0       5.6     1e+04      45      96 ..     509     557 ..     500     558 .. 0.62

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 6.2e-05
                   AAA_22   4 tagilvvtGesGtGKTtllrrlleqldeeakaeeerpevv...fvtlpsst...sskdl.lrellralglelkaerlsseelleal 82 
                              +++ +v++ ++G+GK++++++l++ ++          +v+   +v+  ++    +  ++ l+  + ++  +l+++  s++ ++  +
  PHY93_09375|PHY93_09375  22 EKSPVVIVLPTGAGKSLVIAELARVAK---------GRVLvlaHVKELVEQnheKYISFgLQ--AGIFSAGLNRKDFSEKVIFGSI 96 
                              5677888889**************994.........44444575554444442244444433..3444444444457999999999 PP

                   AAA_22  83 eqalrarav....ielliiDEaqhlrs.......eealeeL 112
                              +  +ra        +lli+DE +++ s        +++++L
  PHY93_09375|PHY93_09375  97 QSIARAPEEffqsFSLLIVDECHRI-SlegetqyFQVITKL 136
                              99999999999999**********9.543433333333333 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 5.6
                   AAA_22  45 vtlpsstsskdllrellralglelkaerlsseellealeqalrarav..ielli 96 
                              ++l+s+++++ ++ ++ r  ++       ++e +++ +++ ++++ +  i+++i
  PHY93_09375|PHY93_09375 509 YYLNSLEGLQAFYFNFTRMHNRIP-----EKEICISNIADVIKNQERfrIPMFI 557
                              555666666666655555555433.....4588888888888888776666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (571 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       612  (0.0341346); expected 358.6 (0.02)
Passed bias filter:                      469  (0.0261587); expected 358.6 (0.02)
Passed Vit filter:                        61  (0.00340231); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.66u 0.23s 00:00:00.89 Elapsed: 00:00:00.44
# Mc/sec: 3909.34
//
Query:       PHY93_09380|PHY93_09380  [L=124]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    4.8e-17   62.1   0.8    5.6e-11   42.7   0.1    2.1  2  CBS         CBS domain
  ------ inclusion threshold ------
      0.016   14.8   0.1       0.11   12.1   0.0    2.2  3  SET_assoc   Histone lysine methyltransferase SET associated
      0.028   14.2   0.0      0.031   14.1   0.0    1.1  1  AAA_lid_11  Dynein heavy chain AAA lid domain


Domain annotation for each model (and alignments):
>> CBS  CBS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.1   4.6e-07    0.0028       1      46 [.       4      49 ..       4      50 .. 0.90
   2 !   42.7   0.1   9.3e-15   5.6e-11       2      55 ..      71     124 .]      70     124 .] 0.92

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 4.6e-07
                             HHHHSBSSCEEEETTSBHHHHHHHHHHHTSSEEEEE.ETTTBEEEEE CS
                      CBS  1 VgdimtrdvvtvppdttleealelmrekgvsrlPVV.dedgklvGiv 46
                             V+++m + + +++p+t + ++  ++++++++ + V+ d+d +++Giv
  PHY93_09380|PHY93_09380  4 VSEVMKTHLEFCNPETRVPDLKYIIKKYDYDEV-VIeDSDRHPLGIV 49
                             89***********************8888****.*9555557****9 PP

  == domain 2  score: 42.7 bits;  conditional E-value: 9.3e-15
                              HHHSBSSCEEEETTSBHHHHHHHHHHHT.SSEEEEEETTTBEEEEEEHHHHHHHH CS
                      CBS   2 gdimtrdvvtvppdttleealelmrekg.vsrlPVVdedgklvGivtlrDllral 55 
                              g +mtr  v v+ d+++ee+l+lm +++ ++ +PVVde+g+++G+v ++Dl++ l
  PHY93_09380|PHY93_09380  71 GNLMTRISVNVRKDASIEECLKLM-DSNqITVMPVVDEQGHCLGVVKKKDLISEL 124
                              789***99****************.7777*888*******************875 PP

>> SET_assoc  Histone lysine methyltransferase SET associated
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   1.9e-05      0.11      11      33 ..      18      40 ..       8      42 .. 0.89
   2 ?   -3.1   0.0         1   6.2e+03      12      25 ..      54      67 ..      49      69 .. 0.66
   3 ?   -0.6   0.0      0.18     1e+03      45      58 ..      86      99 ..      81     104 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 1.9e-05
                SET_assoc 11 kvtvedlkkrLkkyeweriledk 33
                             +++v+dlk+  kky+++++++++
  PHY93_09380|PHY93_09380 18 ETRVPDLKYIIKKYDYDEVVIED 40
                             689****************9876 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 1
                SET_assoc 12 vtvedlkkrLkkye 25
                             v+ e lk++L  ++
  PHY93_09380|PHY93_09380 54 VSDEALKNKLHPFD 67
                             55667888887776 PP

  == domain 3  score: -0.6 bits;  conditional E-value: 0.18
                SET_assoc 45 eAerCfraedgtkl 58
                               e+C + +d +++
  PHY93_09380|PHY93_09380 86 SIEECLKLMDSNQI 99
                             67899999998876 PP

>> AAA_lid_11  Dynein heavy chain AAA lid domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   5.1e-06     0.031      68     148 ..       6      96 ..       1     109 [. 0.70

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 5.1e-06
                              HHHHHHHHHCSSGGS-HHHHHHHHHHTTTSTT--SHHHHHHHHHHHHHHSSGGGGSTT.......-.......T...E---SSHHH CS
               AAA_lid_11  68 evlkmyldeyeekevpwealkyligeinYGGrvtDdwDrrllktyleeffseevleee.....yks.......geykipeekslee 141
                              ev+k++l+  +  e+   +lky+i+++ Y   v++d Dr+ l  +  e +s+e+l+++     + +        ++++ ++ s+ee
  PHY93_09380|PHY93_09380   6 EVMKTHLEFCN-PETRVPDLKYIIKKYDYDEVVIEDSDRHPLGIVNGEAVSDEALKNKlhpfdV-RagnlmtrISVNVRKDASIEE 89 
                              45566664444.788999*************************************888544431.133333233444455566666 PP

                              HHHHHCT CS
               AAA_lid_11 142 yleyies 148
                              +l+ ++s
  PHY93_09380|PHY93_09380  90 CLKLMDS 96 
                              6666554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (124 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       532  (0.0296726); expected 358.6 (0.02)
Passed bias filter:                      429  (0.0239277); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 923.43
//
Query:       PHY93_21310|PHY93_21310  [L=53]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (53 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       207  (0.0115455); expected 358.6 (0.02)
Passed bias filter:                      180  (0.0100396); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.33u 0.21s 00:00:00.54 Elapsed: 00:00:00.35
# Mc/sec: 447.73
//
Query:       PHY93_09385|PHY93_09385  [L=318]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      2e-29  102.8   0.0    2.8e-29  102.4   0.0    1.2  1  Band_7    SPFH domain / Band 7 family
     0.0052   16.5   0.1     0.0097   15.6   0.1    1.5  1  Band_7_1  SPFH domain-Band 7 family


Domain annotation for each model (and alignments):
>> Band_7  SPFH domain / Band 7 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  102.4   0.0   3.2e-33   2.8e-29       2     172 ..      64     229 ..      63     235 .. 0.97

  Alignments for each domain:
  == domain 1  score: 102.4 bits;  conditional E-value: 3.2e-33
                   Band_7   2 iieegevgvvvrfGklsrvlepGlhfilPfgrsvt.vvsvrvqtldvsvsltvptkDglpvtidvtviyrvpddapklvaaveres 86 
                              i+++ e +vv r Gk ++ ++pGl fi+P++++v    ++rv t +++   +++tkD++pv++d+++ ++v  d   ++++v    
  PHY93_09385|PHY93_09385  64 IANQWEKAVVLRLGKFNALKGPGLFFIIPIIDTVPlWLDTRVLTSTFTA-EKTLTKDTVPVNVDAVLFWKV-MDSEMAALNV---- 143
                              5688999**********************99999879************.*********************.**********.... PP

                   Band_7  87 anldnlirrvlesalrevisemtleellsnreelaeelknelneqlrkyGvevldvritdidpppevaqalaakqaaeaeaqaeia 172
                              a++++ i  +++ alr vi++  l ++l++re++ +el++ + e+ + +G+ +++v i+d+ +p+++++a+ + ++ae+e+qa++ 
  PHY93_09385|PHY93_09385 144 ADYESAIGWAAKTALRDVIGRTMLSDMLEGREKIGKELQKTIDERSESWGIKIISVEIKDVLIPAALENAMSMQAQAERERQARVI 229
                              ***********************************************************************************985 PP

>> Band_7_1  SPFH domain-Band 7 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.1   1.1e-06    0.0097     148     209 ..     161     220 ..     129     222 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 1.1e-06
                 Band_7_1 148 vlaeskipvldlaakseelaeklkealkeelaeyGlelekleienislpeevekaldkrasm 209
                              v++ +   + d+    e+++++l+++++e+ ++ G+++ ++ei+++ +p  +e+a++ +a++
  PHY93_09385|PHY93_09385 161 VIGRTM--LSDMLEGREKIGKELQKTIDERSESWGIKIISVEIKDVLIPAALENAMSMQAQA 220
                              555444..3477778899**************************************999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (318 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       942  (0.0525406); expected 358.6 (0.02)
Passed bias filter:                      520  (0.0290033); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.39
# Mc/sec: 2425.26
//
Query:       PHY93_09390|PHY93_09390  [L=308]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    7.5e-29   99.6   0.0    9.6e-15   54.4   0.1    2.2  2  CMD            Carboxymuconolactone decarboxylase family
     0.0037   17.7   0.5        1.1    9.7   0.3    2.5  2  Thioredoxin_2  Thioredoxin-like domain


Domain annotation for each model (and alignments):
>> CMD  Carboxymuconolactone decarboxylase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.4   0.1   1.1e-18   9.6e-15       5      80 ..      59     134 ..      56     139 .. 0.92
   2 !   43.1   0.0   3.6e-15   3.2e-11      18      81 ..     217     280 ..     205     283 .. 0.90

  Alignments for each domain:
  == domain 1  score: 54.4 bits;  conditional E-value: 1.1e-18
                              HHHHHHHHHHCCGSSTS-HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHSHHHHHHHH CS
                      CMD   5 raltalreallareggLdpkereLialavsaangceyCvdaHtraAleaGvteeeiaevlaqaaayagwpaaraAl 80 
                              +a++++    l +e +L+ ke+eLi l+v+a   c yCv +Ht+aA+ +G+t+ ei+e++a+aa +  w   ++  
  PHY93_09390|PHY93_09390  59 AAWEEFKSVQLNTETQLTGKEKELIGLGVAAQIPCKYCVYFHTEAAKLNGATDKEIKETIAIAANTRHWSTYLNGI 134
                              6899999999998899***************************************************999887765 PP

  == domain 2  score: 43.1 bits;  conditional E-value: 3.6e-15
                              SSTS-HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHSHHHHHHHHH CS
                      CMD  18 eggLdpkereLialavsaangceyCvdaHtraAleaGvteeeiaevlaqaaayagwpaaraAla 81 
                              + +L+ k +eLi l+vsa   c +C  +Ht+ A+ +G++ +ei+e+la+a    +w  +++  +
  PHY93_09390|PHY93_09390 217 NTELSGKVKELIGLGVSAQVPCKFCTYFHTETAKLNGASSQEIREALAMASLSRFWSTVLNGSQ 280
                              678*****************************************************99988765 PP

>> Thioredoxin_2  Thioredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.7   0.3   0.00013       1.1      14      64 ..      90     142 ..      78     210 .. 0.75
   2 !    5.8   0.0     0.002        18      14      31 ..     235     257 ..     230     301 .. 0.78

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.00013
            Thioredoxin_2  14 dpdCpyCkklkkelkel.....ddvtvrvllfplkpsfepkavaiwcakekkkafk 64 
                              +  C yC  +++e  +l     +++++++++ + +++++++   i++++     f+
  PHY93_09390|PHY93_09390  90 QIPCKYCVYFHTEAAKLngatdKEIKETIAIAANTRHWSTYLNGIQYNEAD---FQ 142
                              567**************7777777777755555777777777777776654...33 PP

  == domain 2  score: 5.8 bits;  conditional E-value: 0.002
            Thioredoxin_2  14 dpdCpyCkklkkelkel.....d 31 
                              ++ C +C  +++e+ +l     +
  PHY93_09390|PHY93_09390 235 QVPCKFCTYFHTETAKLngassQ 257
                              567*************9443333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (308 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       674  (0.0375927); expected 358.6 (0.02)
Passed bias filter:                      465  (0.0259356); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.37
# Mc/sec: 2468.14
//
Query:       PHY93_09395|PHY93_09395  [L=56]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (56 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       513  (0.0286129); expected 358.6 (0.02)
Passed bias filter:                      268  (0.0149478); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.36u 0.21s 00:00:00.56 Elapsed: 00:00:00.37
# Mc/sec: 456.41
//
Query:       PHY93_09400|PHY93_09400  [L=46]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (46 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1595  (0.088962); expected 358.6 (0.02)
Passed bias filter:                      460  (0.0256568); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.22s 00:00:00.60 Elapsed: 00:00:00.38
# Mc/sec: 361.70
//
Query:       PHY93_09405|PHY93_09405  [L=278]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.11   12.6   0.0       0.22   11.6   0.0    1.4  1  Nkap_C    NF-kappa-B-activating protein C-terminal domain


Domain annotation for each model (and alignments):
>> Nkap_C  NF-kappa-B-activating protein C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   1.3e-05      0.22      21      35 ..     247     261 ..     234     269 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 1.3e-05
                   Nkap_C  21 qegkRiPrRGevGlt 35 
                              + g+RiPr+GevG+ 
  PHY93_09405|PHY93_09405 247 KGGMRIPRKGEVGWY 261
                              4589*********85 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (278 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       429  (0.0239277); expected 358.6 (0.02)
Passed bias filter:                      387  (0.0215851); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.19s 00:00:00.65 Elapsed: 00:00:00.36
# Mc/sec: 2286.86
//
Query:       PHY93_09410|PHY93_09410  [L=86]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.085   12.9   0.3       0.13   12.4   0.3    1.2  1  ETRAMP    Malarial early transcribed membrane protein (ETRAMP


Domain annotation for each model (and alignments):
>> ETRAMP  Malarial early transcribed membrane protein (ETRAMP)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.3     7e-06      0.13      14      63 ..       7      53 ..       2      61 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 7e-06
                   ETRAMP 14 lavnlltpeslcdevnkkkekakkaikkiddkiekkkkkkKliiistiat 63
                             +a+++l+  +++ e+    e + ka+ + d+++++  k  ++++i +++ 
  PHY93_09410|PHY93_09410  7 IALCFLSLNVFSSESLS--EMKTKATSSADQQMRAI-KEARACVITATSE 53
                             46677777777777776..888899999*****999.99999**999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (86 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       858  (0.0478554); expected 358.6 (0.02)
Passed bias filter:                      426  (0.0237604); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.38u 0.17s 00:00:00.55 Elapsed: 00:00:00.34
# Mc/sec: 762.40
//
Query:       PHY93_09415|PHY93_09415  [L=105]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.4e-05   23.1   0.2    0.00011   23.0   0.2    1.1  1  Ribosomal_S30AE  Sigma 54 modulation protein / S30EA ribosoma
  ------ inclusion threshold ------
      0.086   12.9   0.0       0.25   11.4   0.0    1.7  1  DNA_pol3_tau_5   DNA polymerase III tau subunit V interacting
      0.095   12.6   0.0       0.11   12.4   0.0    1.1  1  CHASE3           CHASE3 domain


Domain annotation for each model (and alignments):
>> Ribosomal_S30AE  Sigma 54 modulation protein / S30EA ribosomal protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.0   0.2   1.8e-08   0.00011       7      84 ..      17     103 ..       9     105 .] 0.76

  Alignments for each domain:
  == domain 1  score: 23.0 bits;  conditional E-value: 1.8e-08
                              TS---HHHHHHHHHHHCCGGGG.-EEEEEEE..........EE.EEEEEEEEECTTEEEEEEEEESSHHHHHHHHHHHHHHHHHHC CS
          Ribosomal_S30AE   7 nievtdalkeyvekkleklekyfieadVtls..........kk.kkvevtirlakgkviraeeesedlyaaidlavdklerqlrky 81 
                               ++ +++++e v++ ++  +++++++ ++++           k   +e++i+ a +++i  ++++++l  a++ a++kl+  l + 
  PHY93_09415|PHY93_09415  17 SFTESEKFEEIVKDAIGHYQQHITRVVIHFTdenagktgfeDKrCLIEARISSA-NPMIA-SHHANTLVLALEGAAEKLKHSLNHT 100
                              378899*************************98887655542145566666444.55555.4578***************999887 PP

                              HHT CS
          Ribosomal_S30AE  82 kek 84 
                                k
  PHY93_09415|PHY93_09415 101 FGK 103
                              665 PP

>> DNA_pol3_tau_5  DNA polymerase III tau subunit V interacting with alpha
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   4.3e-05      0.25      66     120 ..      20      74 ..       9      84 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 4.3e-05
                              --HHHHHHHHHHHHHHHSS--EEEEEE---TSS--HHHHHHHHHHHHHHHHHHHH CS
           DNA_pol3_tau_5  66 nsdsaqkeLaeaLsellgkeveleitldddeeqkTPlelrqaiyeekleqAkqsl 120
                              +s++ ++ +++a+ +++++  ++ i+++d+++ kT +e ++ + e++ ++A+  +
  PHY93_09415|PHY93_09415  20 ESEKFEEIVKDAIGHYQQHITRVVIHFTDENAGKTGFEDKRCLIEARISSANPMI 74 
                              57788999*********************************99999999887666 PP

>> CHASE3  CHASE3 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   1.8e-05      0.11      35     103 ..      19      87 ..      17     101 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 1.8e-05
                   CHASE3  35 tgdeefLepyeqaraeiqealeelreltadnpeqqerldrlealieqklaeleetialrreggleaala 103
                              t +e+f e  ++a   +q++++++  +  d+ + +  +++ + lie++++ ++++ia+ ++++l  al+
  PHY93_09415|PHY93_09415  19 TESEKFEEIVKDAIGHYQQHITRVVIHFTDENAGKTGFEDKRCLIEARISSANPMIASHHANTLVLALE 87 
                              678888899999***********************************************9977765544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (105 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       438  (0.0244297); expected 358.6 (0.02)
Passed bias filter:                      321  (0.017904); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.38u 0.20s 00:00:00.58 Elapsed: 00:00:00.36
# Mc/sec: 882.04
//
Query:       PHY93_09420|PHY93_09420  [L=416]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.2e-47  161.9   0.2    1.5e-45  155.1   0.1    2.1  2  DEAD           DEAD/DEAH box helicase
    1.6e-31  108.9   0.1    4.1e-31  107.6   0.0    1.7  2  Helicase_C     Helicase conserved C-terminal domain
      7e-06   26.1   0.0    1.8e-05   24.8   0.0    1.7  2  ResIII         Type III restriction enzyme, res subunit
    0.00042   20.7   0.0       0.88    9.9   0.0    2.5  2  AAA_19         AAA domain
     0.0034   17.7   0.0      0.016   15.5   0.0    2.0  1  AAA_22         AAA domain
     0.0052   16.2   0.1      0.011   15.1   0.1    1.5  1  CMS1           U3-containing 90S pre-ribosomal complex subuni
      0.007   16.3   3.0       0.11   12.4   3.0    2.2  1  NACHT          NACHT domain
     0.0075   15.5   0.0      0.011   14.9   0.0    1.2  1  ERCC3_RAD25_C  ERCC3/RAD25/XPB C-terminal helicase
  ------ inclusion threshold ------
      0.011   15.3   0.0      0.029   13.9   0.0    1.6  2  UvrD-helicase  UvrD/REP helicase N-terminal domain


Domain annotation for each model (and alignments):
>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  155.1   0.1   7.5e-49   1.5e-45       1     173 [.      29     198 ..      29     201 .. 0.94
   2 !    5.0   0.0    0.0092        18      42     105 ..     238     307 ..     217     322 .. 0.76

  Alignments for each domain:
  == domain 1  score: 155.1 bits;  conditional E-value: 7.5e-49
                              -HHHHHHHHHHHTTCEEEEEESTTSSHHHHHHHHHHHHHHHS..TTSTS-EEEEEESSHHHHHHHHHHHHHHTTTST..SEEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxx RF
                     DEAD   1 tdiQaeaiplilgggdvlvaaeTGsGKTlaflipvlqivyet..kgktgpkalivePtreLaeqtlnnlkkfkkyid..lrvllii 82 
                              t+iQ+++ip+i  g+d+l++a+TGsGKT++f+ p+lq+++ +  ++++  +ali++PtreLa q+   l +f+++++  ++vl +i
  PHY93_09420|PHY93_09420  29 TPIQEKTIPQIFLGHDLLIEAQTGSGKTACFAWPILQQLSANkqEDNNSIQALILTPTRELALQVSGALYRFGEFLTskVSVLTVI 114
                              89*************************************9888889999*************************85545888899* PP

                              TTSSHHHHHHHHHTTCSEEEEEHHHHHHHHHCTSSHCTTEEEEEEETHHHHHHTTTHHHHHHHHHHSHHHCTTSTTTSEEEEEESS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  83 ggvaardqlskldngvdivvgtpgrlddllstgklnlsqvrflVlDEadrlldqgfsdfinrilnqlpqitcdgklqrqvivlSAT 168
                              gg++  +q  +l +gvdivv+tpgrl+dl+ ++ l+ls ++flVlDEad++ld gf  +++ +l+++       +  rq +++SAT
  PHY93_09420|PHY93_09420 115 GGESIAQQTLTLASGVDIVVATPGRLLDLIGQNLLSLSALKFLVLDEADKILDLGFAAELDLVLKEI-------SGVRQNLFFSAT 193
                              ************9*****************99***********************************.......334679****** PP

                              BSHHH CS
                              xxxxx RF
                     DEAD 169 lpkdv 173
                               p++v
  PHY93_09420|PHY93_09420 194 YPDKV 198
                              *9776 PP

  == domain 2  score: 5.0 bits;  conditional E-value: 0.0092
                              S......TTSTS-EEEEEESSHHHHHHHHHHHHHHTTTSTSEEEEEETTSSHHHHHHHHHTT.CSEEEEEH CS
                              x......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxx RF
                     DEAD  42 t......kgktgpkalivePtreLaeqtlnnlkkfkkyidlrvlliiggvaardqlskldng.vdivvgtp 105
                              +      k+++   al+ + ++  a++ +++lkk++ +++ +++  +++ ++++ ls+++++ +d++v+t 
  PHY93_09420|PHY93_09420 238 MllrhliKEEKWRNALVFVSSKVAAHNLCEKLKKSGVNAG-TIHGDLSQPERNKALSDFKERrIDFLVATD 307
                              04444556777789***********************887.6666788899999999997546*****996 PP

>> Helicase_C  Helicase conserved C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0         3     6e+03      15      28 ..      76      92 ..      63     136 .. 0.50
   2 !  107.6   0.0   2.1e-34   4.1e-31       6     111 .]     239     344 ..     234     344 .. 0.92

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 3
                             TTSEEEEEESSHH...H CS
               Helicase_C 15 eggkilifvntid...r 28
                             +  ++li ++t++   +
  PHY93_09420|PHY93_09420 76 NSIQALILTPTRElalQ 92
                             44566677766664221 PP

  == domain 2  score: 107.6 bits;  conditional E-value: 2.1e-34
                              HHHHHHHTTTTSEEEEEESSHHHHHH.HHHHHHHTTSTEEEESTTSTHHHHHHHHHHHHTTSSSEEEESGGGTSSSTSTTESEEEE CS
               Helicase_C   6 llellkleeeggkilifvntidrlek.vklllekkgikvavlhgelpqnereeileqfnkgesdvLiatdvaerGidipkvnlVin 90 
                              ll+ l +ee+ +++l+fv ++  +++ ++ l +k+g+++ ++hg+l+q er+++l++f++ ++d+L+atdva+rGidi+k++lVin
  PHY93_09420|PHY93_09420 239 LLRHLIKEEKWRNALVFVSSKVAAHNlCEKL-KKSGVNAGTIHGDLSQPERNKALSDFKERRIDFLVATDVAARGIDINKLSLVIN 323
                              5556668999************887666777.5779************************************************** PP

                              SSSSSSHHHHHHHHTTSSSTT CS
               Helicase_C  91 fdlprnvtsyiqriGRtgRag 111
                              fdlpr++++yi+riGRtgRag
  PHY93_09420|PHY93_09420 324 FDLPRSPADYIHRIGRTGRAG 344
                              *******************97 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.8   0.0   9.2e-09   1.8e-05      26     146 ..      44     167 ..      26     196 .. 0.73
   2 ?   -2.3   0.0       1.9   3.8e+03      47      83 ..     242     278 ..     238     307 .. 0.56

  Alignments for each domain:
  == domain 1  score: 24.8 bits;  conditional E-value: 9.2e-09
                              EEEEEESTTSTHHHHH.HHHHHHH-S.........-EEEEESSHHHHHHHHHHGGGGTGG...........GEEEESSS-B--... CS
                   ResIII  26 rglikmaTGtGKTlva.aklierllkkgkee....kflflvprkslleqtleefkkflseayke.......igkkvsgdkkkakek 99 
                               +li++ TG+GKT +    + ++l+ +++e+    ++l+l p+++l  q   ++ +f +  +++        g+++ +++ +    
  PHY93_09420|PHY93_09420  44 DLLIEAQTGSGKTACFaWPILQQLSANKQEDnnsiQALILTPTRELALQVSGALYRFGEFLTSKvsvltviGGESIAQQTLTL--- 126
                              689*************4455555555555559*****************9977777766666555546665455566666655... PP

                              ....-SEEEEEHHHHHHTH........HHHTTT-SEEEEETGGGTTS CS
                   ResIII 100 dstnkkilvttiqsldadseeeeeeseellrdrfdviiiDEaHrlga 146
                               ++  +i+v+t  +l   +      ++ l+ ++ ++++ DEa ++ +
  PHY93_09420|PHY93_09420 127 -ASGVDIVVATPGRLLDLI-----GQNLLSLSALKFLVLDEADKILD 167
                              .999999999999999999.....88888888889999999877666 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 1.9
                              HH-S.....-EEEEESSHHHHHHHHHHGGGGTGG... CS
                   ResIII  47 rllkkgkeekflflvprkslleqtleefkkflseayk 83 
                              +l k++k +++l++v +k     + e++kk   +a +
  PHY93_09420|PHY93_09420 242 HLIKEEKWRNALVFVSSKVAAHNLCEKLKKSGVNAGT 278
                              5555555567777777775555555555555555544 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.9   0.0   0.00044      0.88      11      62 ..      43      97 ..      32     189 .. 0.73
   2 !    8.4   0.0    0.0012       2.5      31      78 ..     240     293 ..     236     378 .. 0.76

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00044
                   AAA_19 11 kvllvtaGpGtGKTrvlkh.ivallvelggvkp..eeillvaftgrAakelrerl 62
                             + ll+ a  G+GKT +    i++ l ++++++    + l++++t+  a +++ +l
  PHY93_09420|PHY93_09420 43 HDLLIEAQTGSGKTACFAWpILQQLSANKQEDNnsIQALILTPTRELALQVSGAL 97
                             567999*********98752778888888777622567899***99888887776 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.0012
                   AAA_19  31 vallvelggvkpeeillvaftgrAakelrerlaalgaeatTiH.rlal.......l 78 
                              +++l++++++  ++ l+    + Aa++l e+l++ g++a TiH  l+         
  PHY93_09420|PHY93_09420 240 LRHLIKEEKW--RNALVFVSSKVAAHNLCEKLKKSGVNAGTIHgDLSQpernkalS 293
                              5677777766..88889999999********************4454344444440 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0     8e-06     0.016       9     104 ..      46     167 ..      44     190 .. 0.68

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 8e-06
                   AAA_22   9 vvtGesGtGKTtllrrlleqldeeakaee........................erpevvfvtlpsstsskdllrellralglelka 70 
                              ++ +++G+GKT + ++   q   ++k+e+                        +                     + ++l+++ + 
  PHY93_09420|PHY93_09420  46 LIEAQTGSGKTACFAWPILQQLSANKQEDnnsiqaliltptrelalqvsgalyR---------------------FGEFLTSKVSV 110
                              78899***********99999999999995555555555555444444444441.....................44444433333 PP

                   AAA_22  71 ......................erlsseellealeqalraravielliiDEaqh.lr 104
                                                      ++  +ll+++ q+l + ++ ++l++DEa++ l+
  PHY93_09420|PHY93_09420 111 ltviggesiaqqtltlasgvdiVVATPGRLLDLIGQNLLSLSALKFLVLDEADKiLD 167
                              5555555555555555555555568999**************99**********663 PP

>> CMS1  U3-containing 90S pre-ribosomal complex subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.1   5.7e-06     0.011     175     209 ..     127     161 ..     118     165 .. 0.90

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 5.7e-06
                     CMS1 175 ksrigiavGtpgRildLleeeslsvdeLkrivlDa 209
                              +s + i v tpgR+ldL+ ++ ls++ Lk +vlD 
  PHY93_09420|PHY93_09420 127 ASGVDIVVATPGRLLDLIGQNLLSLSALKFLVLDE 161
                              5778999**************************96 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.4   3.0   5.4e-05      0.11       4     142 ..      46     208 ..      43     305 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 5.4e-05
                              EEEC-TTTCHHHHHHH.HHHHHCTS-SCCCC.-SEEEEEETTTTTTS-.....-HCHHHCCCCTS--SSS-C...........CHH CS
                    NACHT   4 ilqGeaGsGKTtLlqk.lalawaegklpqga.fklvFflslrelsrsgna..rsladllfsqlpepaapvse...........vwa 74 
                              +++ + GsGKT+  ++ + +++ ++k++ ++  + +++ + rel  +     +++ ++l+s+   +     e           ++ 
  PHY93_09420|PHY93_09420  46 LIEAQTGSGKTACFAWpILQQLSANKQEDNNsIQALILTPTRELALQVSGalYRFGEFLTSKVSVLTVIGGEsiaqqtltlasGVD 131
                              677799*****9666659999999998887789**********9887443568888888888777666665566677889999999 PP

                              HHCCSCCCEE...............EEEE-STT-SS-TCH.........HHHHHCTTTTT--EEEEEEECCCHHHHCTTSSCE CS
                    NACHT  75 vllelperlL...............lilDglDelvtdlgqkekqpvrtlLselirkkllpeasllltvrpralrdleeqleea 142
                              ++++ p rlL               l+lD +D++ + lg+  +++++ +L + i++  ++++ ++ ++ p+++ d+ + ++ a
  PHY93_09420|PHY93_09420 132 IVVATPGRLLdligqnllslsalkfLVLDEADKILD-LGF--AAELDLVL-KEISG--VRQNLFFSATYPDKVLDIVKRISAA 208
                              9999999999**************9********996.888..55555555.55666..7888888888888887776666655 PP

>> ERCC3_RAD25_C  ERCC3/RAD25/XPB C-terminal helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.0   5.7e-06     0.011      45     150 ..     236     342 ..     222     368 .. 0.74

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 5.7e-06
            ERCC3_RAD25_C  45 kfracefLikyhekrgDkiivfsDnvfaLkeyakklkkp.....yiyGetseaerlkilqkfkknpkvntiflskvgDtsiDlPea 125
                              + + + +Lik  + r    +vf  +  a +++ +klkk       i+G+ s+ er k l++fk++ +++ ++   v+   iD+ + 
  PHY93_09420|PHY93_09420 236 RGMLLRHLIKEEKWR--NALVFVSSKVAAHNLCEKLKKSgvnagTIHGDLSQPERNKALSDFKER-RIDFLVATDVAARGIDINKL 318
                              555566666655555..467888888899999999988633334799***************986.8999***************9 PP

            ERCC3_RAD25_C 126 nvliqisshfgsrrqeaqrlGriLr 150
                              + +i  +    s      r+Gr  r
  PHY93_09420|PHY93_09420 319 SLVINFDLPR-SPADYIHRIGRTGR 342
                              9999876543.34444555555555 PP

>> UvrD-helicase  UvrD/REP helicase N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   1.5e-05     0.029       4      55 ..      31      87 ..      29     102 .. 0.79
   2 ?   -2.5   0.0       1.4   2.7e+03      44      68 ..     248     278 ..     213     307 .. 0.57

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 1.5e-05
                             HHHHHHHS..-SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGG...EEEEESSH CS
            UvrD-helicase  4 eqreaias..lggpilveAsAGsGKTfvlaerilrlikeeeiepdr...ilvvTFTn 55
                             +q++ i +  lg ++l+eA  GsGKT+  a  il+ + +++ e ++    l++T T+
  PHY93_09420|PHY93_09420 31 IQEKTIPQifLGHDLLIEAQTGSGKTACFAWPILQQLSANKQEDNNsiqALILTPTR 87
                             6666666666999************************99975444445557777665 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 1.4
                              TGGGEEEEESSHHHHHHHHHHHHH......H CS
            UvrD-helicase  44 epdrilvvTFTnkAaeElkeRiee......a 68 
                              + ++ lv+   + Aa+ l e++++      +
  PHY93_09420|PHY93_09420 248 KWRNALVFVSSKVAAHNLCEKLKKsgvnagT 278
                              3333344444445555555554443333330 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (416 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       538  (0.0300073); expected 358.6 (0.02)
Passed bias filter:                      479  (0.0267165); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.40
# Mc/sec: 3154.23
//
Query:       PHY93_09425|PHY93_09425  [L=94]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (94 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       714  (0.0398237); expected 358.6 (0.02)
Passed bias filter:                      428  (0.0238719); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.37u 0.22s 00:00:00.59 Elapsed: 00:00:00.36
# Mc/sec: 772.09
//
Query:       PHY93_09430|PHY93_09430  [L=176]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    9.4e-09   35.6   6.0    1.1e-08   35.5   6.0    1.1  1  OMP_b-brl      Outer membrane protein beta-barrel domain
     0.0014   18.1   0.2     0.0022   17.5   0.2    1.2  1  Surface_Ag_2   Surface antigen
  ------ inclusion threshold ------
      0.018   14.8   0.0      0.036   13.8   0.0    1.5  1  OmpA_membrane  OmpA-like transmembrane domain
      0.023   14.8   0.9        1.3    9.1   0.1    2.8  2  Opacity        Opacity family porin protein


Domain annotation for each model (and alignments):
>> OMP_b-brl  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.5   6.0   2.4e-12   1.1e-08       2     156 ..       7     152 ..       6     173 .. 0.79

  Alignments for each domain:
  == domain 1  score: 35.5 bits;  conditional E-value: 2.4e-12
                OMP_b-brl   2 allllaalsaaaaaassfggfyvggglgls..kvkvdgvgsd.sgfgfgvgagyefndnvgvegglsysgdkdysgsgktdikinl 84 
                              +l++++++s +a a +   ++++g+ ++++   +  d + +  ++fg+g+   y+ ++ +gve++ls s+  d++         ++
  PHY93_09430|PHY93_09430   7 TLFFVLVFSGSASAYDLSRKVGIGAIANYAipVFGHDLNSVGgADFGYGALIRYHRDPFFGVELDLSRSEFSDTNI--------YF 84 
                              677888888888888888889999555555414443333332267*************************886666........77 PP

                OMP_b-brl  85 lsvpvnagyafnlsdsvlpyggaGlgytkvevdvsgngasdsdtdfglglgaGveyaladnwsl..kaeYrytd 156
                              +++ +   ++f+ ++++ p +g+Glg t  ++ v  n       + +l + aGv ya+++ ++l   aeY+y+ 
  PHY93_09430|PHY93_09430  85 NNINLLGFWRFGGGNNFTPVVGFGLGVTTIKYWVPQN------AKLSLLGRAGVDYAISKSFTLaaLAEYQYVS 152
                              79999999***98888***********9999998877......9****************88885578998853 PP

>> Surface_Ag_2  Surface antigen
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.2   4.9e-07    0.0022     154     203 ..     100     149 ..      96     159 .. 0.90

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 4.9e-07
             Surface_Ag_2 154 pvvPYvcaGvGadfvsvveainpKfayrgklGlsYaitpeislfaGafyh 203
                               ++P v+ G+G   ++    +n+K++  g++G+ Yai+    l a a y 
  PHY93_09430|PHY93_09430 100 NFTPVVGFGLGVTTIKYWVPQNAKLSLLGRAGVDYAISKSFTLAALAEYQ 149
                              589***********************************998888877775 PP

>> OmpA_membrane  OmpA-like transmembrane domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   8.1e-06     0.036     123     154 ..     121     154 ..     113     172 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 8.1e-06
                              EEEEEEEEEEEEEEEEETT..EEEEEEEEEESSS CS
            OmpA_membrane 123 dtkvslllavGveyaitpe..lalrleYqylnnv 154
                              ++k sll  +Gv+yai++   la  +eYqy++n 
  PHY93_09430|PHY93_09430 121 NAKLSLLGRAGVDYAISKSftLAALAEYQYVSNF 154
                              6799*************972255568*****884 PP

>> Opacity  Opacity family porin protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.1     0.041   1.8e+02      75      91 ..      18      34 ..      14      46 .. 0.83
   2 ?    9.1   0.1   0.00029       1.3      24     114 ..      74     154 ..      58     166 .. 0.72

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.041
                  Opacity 75 keafasetrvGlGvlaG 91
                              +a+  +++vG+G++a 
  PHY93_09430|PHY93_09430 18 ASAYDLSRKVGIGAIAN 34
                             57888899*******95 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.00029
                  Opacity  24 rndnsaskvkgkllGlsviydfdtgskvkPyvGvrvasngakvsasaklpkkeafasetrvGlGvlaGvkykltpnltldtgvryn 109
                              r++ s++++  + + l +++ f  g ++ P vG  +     k+       +++a     ++ l   aGv+y++ + +tl +  +y+
  PHY93_09430|PHY93_09430  74 RSEFSDTNIYFNNINLLGFWRFGGGNNFTPVVGFGLGVTTIKYWV-----PQNA-----KLSLLGRAGVDYAISKSFTLAALAEYQ 149
                              556677777777777777777777777777777766655444332.....3333.....44455569*************999999 PP

                  Opacity 110 rlGrl 114
                              ++ ++
  PHY93_09430|PHY93_09430 150 YVSNF 154
                              98776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (176 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       251  (0.0139997); expected 358.6 (0.02)
Passed bias filter:                      207  (0.0115455); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 1358.40
//
Query:       PHY93_16685|PHY93_16685  [L=481]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-71  241.2  32.2    1.3e-71  241.2  32.2    1.8  2  Proton_antipo_M  Proton-conducting membrane transporter
  ------ inclusion threshold ------
      0.012   15.7  11.0      0.012   15.7  11.0    4.8  5  Oxidored_q5_N    NADH-ubiquinone oxidoreductase chain 4, amin


Domain annotation for each model (and alignments):
>> Proton_antipo_M  Proton-conducting membrane transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.4      0.43   3.9e+03     249     249 ..      71      71 ..      52     105 .. 0.51
   2 !  241.2  32.2   1.5e-75   1.3e-71       1     292 [.     106     413 ..     106     414 .. 0.93

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 0.43
          Proton_antipo_M 249 l 249
                              +
  PHY93_16685|PHY93_16685  71 F 71 
                              1 PP

  == domain 2  score: 241.2 bits;  conditional E-value: 1.5e-75
          Proton_antipo_M   1 andLlllylglElvllplylLiglwkkkpksleAslklflltllgsliLLlgilllynltg..tlefeelskal.........elg 75 
                              a d +l+y+ +E++llp+++Lig+w+ + ++ +A++k+fl+t++gsl++L+gi++ly +tg  +++f+ l++            +g
  PHY93_16685|PHY93_16685 106 ALDFFLFYVYWEVMLLPMFFLIGVWGGE-NREYAAVKFFLYTFFGSLLMLVGIVALYFATGqsENSFNILALSGghftnltltLFG 190
                              56899********************998.9999****************************8855555555544668888887888 PP

          Proton_antipo_M  76 lnslelllllllllvgllvKsaqvplhlWlpdayveaPtpvsallAatlvkagvlllirllllla.vssneisqlllilaiismll 160
                              +  +   l +++++vg+++K++++p+h+Wlp a+v+aPt++s++lA++l+k+g ++++r+ ++++  s++     +++l++i +++
  PHY93_16685|PHY93_16685 191 ATVSFSKLFFIFMFVGFAIKVPVFPFHTWLPHAHVQAPTAISVILAGVLLKMGTYGFLRIAFPIFpDSAKYFGEAIAWLGLINVVY 276
                              8888899999**************************************************9999978888899************* PP

          Proton_antipo_M 161 gslvalaqtdiKrllAySsishlGymlialavatqygveaaiihllthalfkallFllagsviyerektrdira......yggLak 240
                              g+l a+aqtd+K+l+AySs+sh+G+++++la +t++g+++a+++++ h+ ++a++F l+ ++iyer++ r+i +       ggL++
  PHY93_16685|PHY93_16685 277 GALCAMAQTDVKKLIAYSSVSHMGFVMLGLASMTVQGMNGAVLQMFNHGTSTAMMFFLI-GIIYERSHHRYIVRpdgslgFGGLYT 361
                              ***********************************************************.888*******9987444444799*** PP

          Proton_antipo_M 241 kmPilalvllvlllslaGlPptagFlskfliLeaavavslillvlavvasvl 292
                                P++ +v+++++++ +GlP+++gF+s++li+ ++++ ++ + vla+++ ++
  PHY93_16685|PHY93_16685 362 QLPVYTIVFIIGMFASMGLPGMSGFISEALIFLGMYEKYTTITVLALFGLLI 413
                              ****************************************999999888776 PP

>> Oxidored_q5_N  NADH-ubiquinone oxidoreductase chain 4, amino terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.7  11.0   1.4e-06     0.012      51     107 ..      48     100 ..       2     103 .. 0.81
   2 ?    1.9   0.3     0.026   2.3e+02       4      46 ..     119     162 ..     117     179 .. 0.73
   3 ?   -1.8   0.4      0.35   3.2e+03      29      40 ..     194     205 ..     171     235 .. 0.60
   4 ?   -1.5   0.4      0.29   2.6e+03      72      75 ..     309     312 ..     270     343 .. 0.48
   5 ?   -1.5   0.4       0.3   2.7e+03      12      46 ..     392     425 ..     383     440 .. 0.61

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 1.4e-06
            Oxidored_q5_N  51 snlsyllglDslSapLilLSlWllpLmilASqkhlkkepknrqrlFllllilLlllL 107
                               ++ y lg+D +S+p++lL+  l++L+il+S+  ++k      + +  ll+lL+++ 
  PHY93_16685|PHY93_16685  48 FHIYYALGVDGISLPMVLLTSLLFMLCILSSWTQITK----SIKGYFALLLLLQTTV 100
                              467899***************************9999....5666777778888765 PP

  == domain 2  score: 1.9 bits;  conditional E-value: 0.026
            Oxidored_q5_N   4 illptlmliplvllskkkllwststlvslllallsll.llnlss 46 
                              +llp+++li ++   ++++    ++l++++ +ll+l+ ++ l+ 
  PHY93_16685|PHY93_16685 119 MLLPMFFLIGVWGGENREYAAVKFFLYTFFGSLLMLVgIVALYF 162
                              67899999999888888899888999999888888886544433 PP

  == domain 3  score: -1.8 bits;  conditional E-value: 0.35
            Oxidored_q5_N  29 lvslllallsll 40 
                              ++s l+++++++
  PHY93_16685|PHY93_16685 194 SFSKLFFIFMFV 205
                              222222222222 PP

  == domain 4  score: -1.5 bits;  conditional E-value: 0.29
            Oxidored_q5_N  72 Wllp 75 
                                + 
  PHY93_16685|PHY93_16685 309 MTVQ 312
                              2222 PP

  == domain 5  score: -1.5 bits;  conditional E-value: 0.3
            Oxidored_q5_N  12 iplvllskkkllwststlvslllallsllllnlss 46 
                              i+l ++ k  ++++++ l+ ll+ +  ll+++  +
  PHY93_16685|PHY93_16685 392 IFLGMYEKY-TTITVLALFGLLIGAAYLLWMFKRM 425
                              444444333.4445666666666666666555443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (481 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       954  (0.0532099); expected 358.6 (0.02)
Passed bias filter:                      297  (0.0165653); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.59u 0.24s 00:00:00.83 Elapsed: 00:00:00.41
# Mc/sec: 3538.14
//
Query:       PHY93_09435|PHY93_09435  [L=137]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.4e-12   46.3   0.1    5.4e-12   46.0   0.1    1.1  1  Glyoxalase    Glyoxalase/Bleomycin resistance protein/Dioxyge
    1.5e-10   41.3   0.0    1.5e-09   38.1   0.0    1.9  2  Glyoxalase_4  Glyoxalase/Bleomycin resistance protein/Dioxyge
      0.001   19.8   0.0     0.0013   19.5   0.0    1.2  1  Glyoxalase_6  Glyoxalase-like domain
     0.0037   17.4   0.0      0.066   13.3   0.0    2.1  1  Glyoxalase_3  Glyoxalase-like domain


Domain annotation for each model (and alignments):
>> Glyoxalase  Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.0   0.1   1.2e-15   5.4e-12       2     122 ..       3     111 ..       2     117 .. 0.86

  Alignments for each domain:
  == domain 1  score: 46.0 bits;  conditional E-value: 1.2e-15
                              EEEEEEEESHHHHHHHHHHHHHTSEEEEEEEEEESTEEEEEEEEETTTSEEEEEEEECCTTSCTHHCCBSCTSEEEEEEEEEHCHH CS
               Glyoxalase   2 idhvallvgdleksldFYtkvLGfklvkktdnteeteglriaffhaggghielvlneapsgaakhvkkieetvhhvafialdvedv 87 
                              + h++l+v++le++ldF+ + LG+  + + d   ++ +l + +   g   +el++n+ ++ + +         + ++++a+ v+++
  PHY93_09435|PHY93_09435   3 FLHTMLRVKELERALDFFVNKLGLIETHRQDHPAGKFTLVFLATETGAPEVELTYNWDTHEEYTYG-------RNFGHLAFGVDNI 81 
                              57*****************************444448889999999999**********9999987.......99*********** PP

                              HHHHHHHHHTTGEEEEEEECHHCTEEEEEEEEETT CS
               Glyoxalase  88 gkaldrlkeagvkvvaepgrhyfgalysfyfrDpd 122
                              +++++rl +agv + ++p +   g++ +  ++ pd
  PHY93_09435|PHY93_09435  82 YETCERLMKAGVTINRPPRD---GHMAF--VKSPD 111
                              *****************954...45553..55555 PP

>> Glyoxalase_4  Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.1   0.0   3.4e-13   1.5e-09       2     101 ..       5     102 ..       4     107 .. 0.90
   2 ?    4.0   0.0     0.013        59      30      64 ..      96     132 ..      94     136 .. 0.80

  Alignments for each domain:
  == domain 1  score: 38.1 bits;  conditional E-value: 3.4e-13
                              EEEEE-S-HHHHHHHHHH.TT-EESS--E.EETTTTEEEEEEEETTEEEEEEEESSTT-THHHTS-EEEEEEEEES-HHHHHHHHC CS
             Glyoxalase_4   2 QigivVeDleaavarfsallGvgpwqryrdepqevdlafallgsgsvqieLieplegpeflaehgeglhhlaywvddldaavarle 87 
                              ++ + V++le+a+++f + lG+ ++ r+  +  +++l f+ + +g +++eL  ++++ e +   g  + hla+ vd++ ++++rl 
  PHY93_09435|PHY93_09435   5 HTMLRVKELERALDFFVNKLGLIETHRQDHPAGKFTLVFLATETGAPEVELTYNWDTHEEY-TYGRNFGHLAFGVDNIYETCERLM 89 
                              667789**************************************************98774.47889******************* PP

                              TTTEEEEEEEE-GG CS
             Glyoxalase_4  88 eqGfevvqkgvrag 101
                              ++G++ +++ +r+g
  PHY93_09435|PHY93_09435  90 KAGVT-INRPPRDG 102
                              ****9.77777776 PP

  == domain 2  score: 4.0 bits;  conditional E-value: 0.013
                              E.EETTTTEEEEEEEETTEEEEEEE...ESSTT-THHH CS
             Glyoxalase_4  30 rdepqevdlafallgsgsvqieLie...plegpeflae 64 
                              + +p++ ++af+++ ++   ieL +   pl+ +++++e
  PHY93_09435|PHY93_09435  96 NRPPRDGHMAFVKSPDN-QSIELLQigsPLDPQSPWNE 132
                              567888899******96.68888877779999999987 PP

>> Glyoxalase_6  Glyoxalase-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.5   0.0     3e-07    0.0013       4     101 ..       8     112 ..       5     118 .. 0.74

  Alignments for each domain:
  == domain 1  score: 19.5 bits;  conditional E-value: 3e-07
             Glyoxalase_6   4 ldaadpaalaaFwaaalgwevereeaaledpegvgpaaedaatllfqrvpe..................paknrvHldlavedlda 71 
                              l +++ +++ +F+   lg+  ++++   ++p       +++ tl+f  +++                   ++n  Hl + v+++ +
  PHY93_09435|PHY93_09435   8 LRVKELERALDFFVNKLGLIETHRQ---DHP-------AGKFTLVFLATETgapeveltynwdtheeytYGRNFGHLAFGVDNIYE 83 
                              5666777777788777877666666...222.......2334677777777777777777777766677667779*********** PP

             Glyoxalase_6  72 evarlvalGArvlreprdgthgrvlaDPeG 101
                              +++rl ++G +  r+prdg+ +  ++ P+ 
  PHY93_09435|PHY93_09435  84 TCERLMKAGVTINRPPRDGHMA-FVKSPDN 112
                              ******************9865.7777765 PP

>> Glyoxalase_3  Glyoxalase-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.0   1.5e-05     0.066       3     108 ..       5      99 ..       3     131 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.5e-05
             Glyoxalase_3   3 HvvlavpdleeaaarfarrlGftvtpggehpglgtaNalvmfgdgYlEllavdpeapaperprlfgldrlakgeglhtlalrtddi 88 
                              H++l v++le+a + f ++lG+  t +  hp          f   +l   + +pe +     ++   +++++g  + +la+ +d+i
  PHY93_09435|PHY93_09435   5 HTMLRVKELERALDFFVNKLGLIETHRQDHPA-------GKFTLVFLATETGAPEVEL--TYNWDTHEEYTYGRNFGHLAFGVDNI 81 
                              88999999999999999999999999999998.......4566666666666666665..456766779999************** PP

             Glyoxalase_3  89 dataarlraaGvdeagrrvr 108
                               +t +rl +aGv+  ++r  
  PHY93_09435|PHY93_09435  82 YETCERLMKAGVT--INRPP 99 
                              ***********85..33222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (137 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       241  (0.0134419); expected 358.6 (0.02)
Passed bias filter:                      233  (0.0129957); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.41u 0.18s 00:00:00.59 Elapsed: 00:00:00.35
# Mc/sec: 1178.79
//
Query:       PHY93_09440|PHY93_09440  [L=105]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (105 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       226  (0.0126053); expected 358.6 (0.02)
Passed bias filter:                      202  (0.0112667); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.34u 0.20s 00:00:00.54 Elapsed: 00:00:00.34
# Mc/sec: 917.69
//
Query:       PHY93_09445|PHY93_09445  [L=185]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    9.1e-09   35.7   0.0    0.00018   21.8   0.0    2.4  2  Flavodoxin_5  Flavodoxin domain
    2.7e-07   30.4   0.0      0.014   15.0   0.1    2.2  2  Flavodoxin_3  Flavodoxin domain
    5.4e-07   29.4   0.1    3.4e-06   26.9   0.1    1.9  1  Flavodoxin_4  Flavodoxin
    7.7e-05   22.5   0.0    0.00011   21.9   0.0    1.2  1  FMN_red       NADPH-dependent FMN reductase
  ------ inclusion threshold ------
      0.024   14.9   0.0       0.25   11.5   0.0    2.1  2  Flavodoxin_1  Flavodoxin


Domain annotation for each model (and alignments):
>> Flavodoxin_5  Flavodoxin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.6   0.0   6.7e-05      0.24       1      26 [.       7      32 ..       7      42 .. 0.86
   2 !   21.8   0.0     5e-08   0.00018      34      90 ..      62     116 ..      53     153 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 6.7e-05
             Flavodoxin_5  1 lilYsSrdGqTkkiaeriaeelreeg 26
                             l++Y S+ G Tkk a++i  +l   +
  PHY93_09445|PHY93_09445  7 LVIYYSNSGYTKKLAKEISRNLNCDI 32
                             79*****************9998544 PP

  == domain 2  score: 21.8 bits;  conditional E-value: 5e-08
             Flavodoxin_5  34 vekesedlesydavvigasvyygkllpelakFvekhreaLstkpvalfsvsltarkp 90 
                              ++k +++ ++yd v++g++v  g +++ +++F+ ++r++L++  va+f++   + ++
  PHY93_09445|PHY93_09445  62 IKKLKHNPADYDLVIVGGPVWGGAVSGPIRSFLAEYRDNLKD--VAFFLTQGGQYGR 116
                              455678999*******************************76..6666665554444 PP

>> Flavodoxin_3  Flavodoxin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.1     4e-06     0.014       1      34 [.       7      38 ..       7      47 .. 0.86
   2 !   13.9   0.0   8.9e-06     0.032      13      81 ..      50     114 ..      38     174 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 4e-06
             Flavodoxin_3  1 lilysSltGNTkkvAeaikealeeekeivsikea 34
                             l++y S++G Tkk+A++i+ +l++  +i +ik+ 
  PHY93_09445|PHY93_09445  7 LVIYYSNSGYTKKLAKEISRNLNC--DIEEIKTP 38
                             599********************9..77777665 PP

  == domain 2  score: 13.9 bits;  conditional E-value: 8.9e-06
             Flavodoxin_3  13 kvAeaikealeeekeivsikeakekveeadvvfvGfwvdkgtadeealkfletlkn..kkillfgTlGagk 81 
                              ++ +ai++++++      ik+ k++ +++d+v+vG  v  g  +  +++fl++ ++  k++++f T G + 
  PHY93_09445|PHY93_09445  50 ALLQAIFKRVPK------IKKLKHNPADYDLVIVGGPVWGGAVSGPIRSFLAEYRDnlKDVAFFLTQGGQY 114
                              555566666666......778888888**************************987679*******98643 PP

>> Flavodoxin_4  Flavodoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.9   0.1   9.4e-10   3.4e-06       1     118 [.       5     117 ..       5     147 .. 0.83

  Alignments for each domain:
  == domain 1  score: 26.9 bits;  conditional E-value: 9.4e-10
                              -EEEEE--SSSHHHHHHHHHHHHHT-EEEE--BSS---TGGG-TT-TTSHHHHHHT-TT--.--BS---S-GGG-SEEEEEEE-BT CS
             Flavodoxin_4   1 kilvayfscsgvtkavaeklaaitgadlyeikpevpyteadldwndkksrssvemrdalsr.paisgtlfhpekyevlfvgfpvww 85 
                              k lv y+s sg tk +a++++    +d+ eik  v y+   + + ++       ++  + r p i      p  y++++vg pvw 
  PHY93_09445|PHY93_09445   5 KRLVIYYSNSGYTKKLAKEISRNLNCDIEEIKTPVSYAGF-FGY-QRAL-----LQAIFKRvPKIKKLKHNPADYDLVIVGGPVWG 83 
                              569********************************99754.233.2222.....22333332999999999*************** PP

                              TB--HHHHHHHHTS--TT-EEEEEEE-SS-.-SH CS
             Flavodoxin_4  86 yiaptiintflesydfagkivvpfatsggs.gig 118
                                    i +fl  y    k v  f t gg  g g
  PHY93_09445|PHY93_09445  84 GAVSGPIRSFLAEYRDNLKDVAFFLTQGGQyGRG 117
                              **************************99853555 PP

>> FMN_red  NADPH-dependent FMN reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.9   0.0   3.1e-08   0.00011       8     136 ..      11     128 ..       5     140 .. 0.75

  Alignments for each domain:
  == domain 1  score: 21.9 bits;  conditional E-value: 3.1e-08
                              S--STT-HHHHHHHHHHCCT-T.T-CEEEEE.TTTS.--......---HCHGHTCGGSHHHHHHHHHHHH-SCEEEEEEECTTCE- CS
                  FMN_red   8 GSlrkgsntrklaewaaealkeagaevelid.ladlilpc....alcdkdlesegqtsddvaellekiaaadaliivtPeYngsys 88 
                               S++  ++t+kla+++ + l   ++++e i    +++       al+ +      +  +++++l+   a+ d +i++ P++ g +s
  PHY93_09445|PHY93_09445  11 YSNS--GYTKKLAKEISRNL---NCDIEEIKtPVSYAGFFgyqrALLQAI----FKRVPKIKKLKHNPADYDLVIVGGPVWGGAVS 87 
                              5554..99999999999999...799999964333322212344444433....4689**************************** PP

                              HHHHHHHHCHT-.SSCHCCTT-EEEEEEE-SSTTTTHHHHHHHHHHHH CS
                  FMN_red  89 gllKnalDrlsrtrgkkelrgKpvalvavgggrrgglraeeqlrqvla 136
                              g++ ++l        ++ l++  va++ + gg+ g  ++ eq+ qv  
  PHY93_09445|PHY93_09445  88 GPIRSFLAEY-----RDNLKD--VAFFLTQGGQYGRGKVFEQMEQVSG 128
                              *******999.....577765..5555578889999999888888766 PP

>> Flavodoxin_1  Flavodoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0     7e-05      0.25       1      22 [.       8      29 ..       8      38 .. 0.89
   2 ?    1.3   0.0       0.1   3.7e+02      36      76 ..      65      97 ..      49     148 .. 0.68

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 7e-05
                             EEEETSSSHHHHHHHHHHHHHH CS
             Flavodoxin_1  1 ilYgSetGnteklAkqlaeelg 22
                             ++Y+S+ G t+klAk++ + l+
  PHY93_09445|PHY93_09445  8 VIYYSNSGYTKKLAKEISRNLN 29
                             89****************9987 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.1
                             TTSCGGGGGTHSEEEEEEEEETTTBEEGGGHHHHHHHHHHH CS
             Flavodoxin_1 36 ydeslseieeealllvvtsTfgnGdppengesffqdllelk 76
                             ++    +  +++l++v+ + +g G ++   +    ++l+++
  PHY93_09445|PHY93_09445 65 LK---HNPADYDLVIVGGPVWG-GAVSGPIR----SFLAEY 97
                             44...36678999999999999.77774444....444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (185 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       487  (0.0271627); expected 358.6 (0.02)
Passed bias filter:                      439  (0.0244855); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.37
# Mc/sec: 1487.42
//
Query:       PHY93_09450|PHY93_09450  [L=277]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.6e-15   56.6   0.1    1.1e-11   44.8   0.0    3.0  3  DJ-1_PfpI        DJ-1/PfpI family
    3.8e-12   46.3   0.0    5.6e-12   45.8   0.0    1.3  1  ThiJ_like        ThiJ/PfpI family-like
     0.0038   17.5   0.1        2.7    8.3   0.0    2.5  2  TrkA_N           TrkA-N domain
     0.0076   16.3   0.0       0.72    9.8   0.0    2.6  2  Glyco_transf_4   Glycosyltransferase Family 4
  ------ inclusion threshold ------
      0.014   15.4   0.0       0.55   10.3   0.0    2.8  2  Glyco_trans_4_2  Glycosyl transferase 4-like


Domain annotation for each model (and alignments):
>> DJ-1_PfpI  DJ-1/PfpI family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.8   0.0   3.1e-15   1.1e-11      15     108 ..      30     150 ..      23     160 .. 0.80
   2 ?    0.5   0.0      0.13   4.8e+02      34      71 ..     188     217 ..     158     223 .. 0.63
   3 !    7.8   0.0   0.00073       2.6     138     164 ..     221     252 ..     196     253 .. 0.79

  Alignments for each domain:
  == domain 1  score: 44.8 bits;  conditional E-value: 3.1e-15
                              HHHHHHHHHHHTTEEEEEEESS.................TSEEEETTSEEEE-SEEGG.......GCTCC..G-SEEEE--BHHHH CS
                DJ-1_PfpI  15 Elivpvdvlkragikvdvvsvd.................keevkgsrGlkvtvdasld.......dvkaa..eyDalvlpGGragp 74 
                              El vp++++ +ag++v+v++++                 ++e + +  +k++v++          +++++  +y a+ +pGG+a  
  PHY93_09450|PHY93_09450  30 ELAVPAQYFINAGYAVVVATPNgkkpvldeksnnialfdNDEARLKAATKFVVTHPSMqkpqtlkEAAKNskDYVAVFVPGGHAPM 115
                              899********************8888888877777777555555555555555433367777774443335999*********99 PP

                              HHHHTSHHHHHHHHHHHHTT-EEEEETTTH.HHHH CS
                DJ-1_PfpI  75 erlrenekvvelvkefaekgklvaaICagp.qlLa 108
                              ++l +++ +++l+++f++++k+ a +C+gp   La
  PHY93_09450|PHY93_09450 116 NDLMQDPDLGKLLRDFHKEKKITAFLCHGPvAALA 150
                              ******************************55555 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.13
                              ESSTSEEEETTSEEEE-SEEGGGCTCCG-SEEEE--BH CS
                DJ-1_PfpI  34 svdkeevkgsrGlkvtvdaslddvkaaeyDalvlpGGr 71 
                              s d         +k++  +  ++v+    Dal l GG 
  PHY93_09450|PHY93_09450 188 SDD--------EEKISEKEMQGEVQFYVADALTLAGGF 217
                              333........344444455556666667777777775 PP

  == domain 3  score: 7.8 bits;  conditional E-value: 0.00073
                              S.....SEEEETTEEEESSGGGHHHHHHHHHH CS
                DJ-1_PfpI 138 k.....rvvvdgnlvTsrgpgaaiefalelle 164
                                     vv+d +l+T ++p + +e+a+++++
  PHY93_09450|PHY93_09450 221 AsvfkpFVVRDRELITGQNPASDLELAKAVVK 252
                              24444489*********************998 PP

>> ThiJ_like  ThiJ/PfpI family-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.8   0.0   1.6e-15   5.6e-12       4     143 ..      24     153 ..      23     201 .. 0.86

  Alignments for each domain:
  == domain 1  score: 45.8 bits;  conditional E-value: 1.6e-15
                ThiJ_like   4 eGydvtevaipwkvlkdagfsveFvtekgkvpkadekllsgikakllgaskeakdiYkelstleeFkeplslssesFsleeydlvl 89 
                              +Gy  +e+a+p +++ +ag+ v  +t++gk p  dek  +   a +   ++  k++ k ++t    ++p++l++   + ++y +v+
  PHY93_09450|PHY93_09450  24 TGYYLDELAVPAQYFINAGYAVVVATPNGKKPVLDEKSNN--IALFDNDEARLKAATKFVVTHPSMQKPQTLKEAAKNSKDYVAVF 107
                              69**********************************9644..44555555666667777888999********************* PP

                ThiJ_like  90 lpGGsdkavrelleserlhsllveylklvkrekepskvlgaicqgvlalafakp 143
                              +pGG+ ++  +l++++ l +ll+++        +++k+ +  c+g +a  +a p
  PHY93_09450|PHY93_09450 108 VPGGHAPMN-DLMQDPDLGKLLRDFH-------KEKKITAFLCHGPVAALAALP 153
                              *****9986.***************9.......56899999****887666655 PP

>> TrkA_N  TrkA-N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.3   0.0   0.00074       2.7      18      71 ..      58     109 ..      44     140 .. 0.84
   2 !    6.8   0.0    0.0021       7.5       9      50 ..     169     211 ..     161     222 .. 0.85

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.00074
                              HHTTEEEEEEESSHHHHHHHHHTTSEEEES-TTSHHHHHHTTGGGESEEEE-SS CS
                   TrkA_N  18 seggkdvvvidkdeerveelreeglevvvgdatdeevLeeagiekadaviaatg 71 
                               e+++++ + d+de+r++ ++  ++ v + +  ++++L+ea  ++ d+v + ++
  PHY93_09450|PHY93_09450  58 DEKSNNIALFDNDEARLKAAT--KFVVTHPSMQKPQTLKEAAKNSKDYVAVFVP 109
                              554457***********9976..667999*************999999999876 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.0021
                              HHHHHHHHHHH.TTEEEEEEESSHHHHHHHHHTT.SEEEES-TT CS
                   TrkA_N   9 vGrslaeeLse.ggkdvvvidkdeerveelreeg.levvvgdat 50 
                               +r++a++ +  g+ +++v  +dee++ e + +g ++++v+da 
  PHY93_09450|PHY93_09450 169 AAREVAKNWQYaGY-NMTVFSDDEEKISEKEMQGeVQFYVADAL 211
                              56788888888666.5**************99999******995 PP

>> Glyco_transf_4  Glycosyltransferase Family 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.8   0.0    0.0002      0.72      12      96 ..      35     159 ..      34     165 .. 0.74
   2 ?    3.5   0.0     0.017        62       6      37 ..     168     199 ..     163     240 .. 0.79

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.0002
           Glyco_transf_4  12 araLarrGheVtvvtpgddgpleeev.........................................elvvrvprvplpllkrllr 56 
                              a+++  +G+ V+v tp++++p  +e                                          ++v  ++   + + ++l +
  PHY93_09450|PHY93_09450  35 AQYFINAGYAVVVATPNGKKPVLDEKsnnialfdndearlkaatkfvvthpsmqkpqtlkeaaknskDYVAVFVPGGHAPMNDLMQ 120
                              788999******************99999999999999999999999999999999999999966543333333333344444444 PP

           Glyco_transf_4  57 slaflrrlrrllkrekpDvvHahspaalgaallalrrrlg 96 
                              ++   + lr   k+ k+    +h+p+a++aal ++   ++
  PHY93_09450|PHY93_09450 121 DPDLGKLLRDFHKEKKITAFLCHGPVAALAALPRAQE-YR 159
                              4555555555555559999999999999998887775.55 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.017
           Glyco_transf_4   6 rhvleLaraLarrGheVtvvtpgddgpleeev 37 
                              + ++e+a++++ +G++ tv++++ ++ +e+e 
  PHY93_09450|PHY93_09450 168 TAAREVAKNWQYAGYNMTVFSDDEEKISEKEM 199
                              67899****************99988887773 PP

>> Glyco_trans_4_2  Glycosyl transferase 4-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0   0.00015      0.55      17      48 ..      35      67 ..       4     101 .. 0.85
   2 ?    2.1   0.0      0.05   1.8e+02       9      43 ..     166     201 ..     161     258 .. 0.77

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00015
          Glyco_trans_4_2 17 akeLakrgyeVhvitpkkga.kdeleaegihvh 48
                             a+++ ++gy V+v+tp++++   ++++++i++ 
  PHY93_09450|PHY93_09450 35 AQYFINAGYAVVVATPNGKKpVLDEKSNNIALF 67
                             899*************99977888888888664 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.05
          Glyco_trans_4_2   9 ssvhtlrlakeLakrgyeVhvitpkkga.kdeleae 43 
                              +++  +++ak  + +gy+ +v++ ++++ ++++ + 
  PHY93_09450|PHY93_09450 166 NRTAAREVAKNWQYAGYNMTVFSDDEEKiSEKEMQG 201
                              555667788888889999999999888743333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (277 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       517  (0.028836); expected 358.6 (0.02)
Passed bias filter:                      421  (0.0234815); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.39
# Mc/sec: 2136.06
//
Query:       PHY93_09455|PHY93_09455  [L=160]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.7e-22   78.8   0.7    6.7e-20   71.8   0.7    2.0  1  DUF305    Domain of unknown function (DUF305)
    2.3e-15   57.0   0.3    2.6e-15   56.9   0.3    1.1  1  DUF4142   Domain of unknown function (DUF4142)
  ------ inclusion threshold ------
       0.43    9.9   5.7       0.43    9.9   4.7    1.5  2  SLATT_5   SMODS and SLOG-associating 2TM effector domain fami


Domain annotation for each model (and alignments):
>> DUF305  Domain of unknown function (DUF305)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   71.8   0.7   1.1e-23   6.7e-20       2     150 ..      25     157 ..      24     159 .. 0.93

  Alignments for each domain:
  == domain 1  score: 71.8 bits;  conditional E-value: 1.1e-23
                              HHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHT---........-----HHHHHHTT---HHH CS
                   DUF305   2 vaFaqdMipHhqqAvemaelaleraedpevralAqdIaaaQqaeiaemqgwleawgqpassagegeaaeaseaeeaampgmaseae 87 
                              +++++++++ h+ ++em++lal++++++e++++A++ +++Q++e+++++++ ++ + +  +++                   + ++
  PHY93_09455|PHY93_09455  25 AGYLEKISQYHENGIEMSKLALNKSKNKEIEKIAKRNIKEQTKELKKIDKLRSTIYSDVIVTK----------------SGNNIQK 94 
                              689*****************************************************9996666................3345678 PP

                              HHHHHHS-HHHHHHHHHHHHHHHHHHHHHHHGGGG-----HHHHHHHHHHHHHHHHHHHHHHH CS
                   DUF305  88 laalraasgadfdrlFlelMirhHqgavemaeaalekgedpevrelaeaiieaQqaEieqmqe 150
                              l +l++ sg++fd+++le+M +hH++ + m ++ l + +++ev+++a +i++++ +Eie++++
  PHY93_09455|PHY93_09455  95 LGELQNRSGKEFDKMYLEMMAKHHRSEILMTSKILPELNRDEVHHIAVKIVKNKGNEIEKIEK 157
                              9999999****************************************************9986 PP

>> DUF4142  Domain of unknown function (DUF4142)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.9   0.3   4.3e-19   2.6e-15       2     126 ..      23     145 ..      22     158 .. 0.91

  Alignments for each domain:
  == domain 1  score: 56.9 bits;  conditional E-value: 4.3e-19
                  DUF4142   2 adaeflakaaaaglfeveaaklAlqkaknpevkaFAqqmvadhtkaneeLkalaskkgvtlpdsteldaeaqakldkLkalsgaaF 87 
                              ++a +l+k+++ +   +e++klAl+k+kn+e+ + A++ ++++tk  +++ +l s+   ++    + + ++ +kl +L++ sg++F
  PHY93_09455|PHY93_09455  23 TEAGYLEKISQYHENGIEMSKLALNKSKNKEIEKIAKRNIKEQTKELKKIDKLRSTIYSDVI--VTKSGNNIQKLGELQNRSGKEF 106
                              56789999***********************************************9888888..466889999************* PP

                  DUF4142  88 DkaYleaqvaahqkavellekaaasgkdaelkafaektl 126
                              Dk+Yle++ + h+  + +  k  ++ +  e+ ++a k  
  PHY93_09455|PHY93_09455 107 DKMYLEMMAKHHRSEILMTSKILPELNRDEVHHIAVKIV 145
                              *********************999999999999998766 PP

>> SLATT_5  SMODS and SLOG-associating 2TM effector domain family 5
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   4.7   7.3e-05      0.43      67     123 ..       4      67 ..       1      95 [. 0.73
   2 ?   -2.4   0.0      0.41   2.5e+03     104     108 ..      98     102 ..      77     127 .. 0.55

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 7.3e-05
                  SLATT_5  67 lsiilSilvlvislles...sknykerAekfhkcaleLselynelrllli....seedlkekyk 123
                              + +++Si++  +sl+++   +++y e+  ++h++++e+s+l  + +++++     +++ ke++k
  PHY93_09455|PHY93_09455   4 ILLLISIILTSTSLYANrmtEAGYLEKISQYHENGIEMSKLALNKSKNKEiekiAKRNIKEQTK 67 
                              56778899888888886333799******************99888877756553333333333 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 0.41
                  SLATT_5 104 lynel 108
                              l+n+ 
  PHY93_09455|PHY93_09455  98 LQNRS 102
                              22222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (160 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2308  (0.12873); expected 358.6 (0.02)
Passed bias filter:                      612  (0.0341346); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.36
# Mc/sec: 1321.16
//
Query:       PHY93_09460|PHY93_09460  [L=255]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.2e-17   63.4   0.0    3.1e-17   62.9   0.0    1.2  1  GATase         Glutamine amidotransferase class-I
    1.7e-08   34.5   0.1    3.2e-08   33.6   0.1    1.5  1  Peptidase_C26  Peptidase C26
    3.8e-05   23.4   0.0    5.2e-05   22.9   0.0    1.2  1  GATase_3       CobB/CobQ-like glutamine amidotransferase doma
     0.0023   16.9   0.0     0.0033   16.4   0.0    1.2  1  HTS            Homoserine O-succinyltransferase
  ------ inclusion threshold ------
      0.062   13.1   0.0      0.097   12.5   0.0    1.3  1  DJ-1_PfpI      DJ-1/PfpI family
       0.15   12.1   0.0        0.5   10.4   0.0    1.9  2  HTH_29         Winged helix-turn helix


Domain annotation for each model (and alignments):
>> GATase  Glutamine amidotransferase class-I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.9   0.0   1.1e-20   3.1e-17      18     175 ..      23     182 ..      13     193 .. 0.81

  Alignments for each domain:
  == domain 1  score: 62.9 bits;  conditional E-value: 1.1e-20
                              HHTT-EEEEEETTSHHHHHHHTHHSTSEEEEEEESSCTT.......TTTHHHHHHHHCTSTS-EEEETHHHHHHHHHTTTEEEEEE CS
                   GATase  18 velgvkvevvpidasaeeilellknpdgilvsgGpgspg.......vegkieaikearenkiPiLGICLGmQllaiefgrkvvkek 96 
                               e g+++  v+++ + +e    l++++g++v gG   ++       ++ ++++i+ea++++iPiLGICLG Q+la+ +g++v +  
  PHY93_09460|PHY93_09460  23 KEHGLRIRYVNFERNPDEAP-SLEKYHGLIVLGGHMGVYeaeiykhIKIEMQLIEEALKKNIPILGICLGAQMLAHVLGADVRQSA 107
                              55555555566555444442.4899*********9999999999999************************************999 PP

                              CEEEEEEEEEEEETTT..CGGTTTTSEEEEEEEEEEEEESGCHHHTTEEEEEEEETTEEEEEEEEETTTEEEESSBTTSTT CS
                   GATase  97 ekehhggtmrlgddet..allyglknevierhrHryevnpkelepaglevtakseddeelmeiiekknpfvgvQFHPEsts 175
                              +ke      +l+d++    +l++ +++ ++ + H+++++     p+  + +a se       +++  ++++g+Q+H E+ +
  PHY93_09460|PHY93_09460 108 KKEIGWYDLNLTDQGLndPVLSHFQKTEKVFQLHGDTFE----IPKSAIHLASSELF--PGQAFRYGEKVYGLQCHLEVDQ 182
                              77777778888886669999999999*************....58888887877554..3444444446*********865 PP

>> Peptidase_C26  Peptidase C26
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.6   0.1   1.1e-11   3.2e-08      93     140 ..      70     117 ..      39     153 .. 0.85

  Alignments for each domain:
  == domain 1  score: 33.6 bits;  conditional E-value: 1.1e-11
            Peptidase_C26  93 lelaLiraalergvPilgiCrGlqllnvalGGtlyqdieeqsgltdhr 140
                              +e++Li++al++++PilgiC+G q+l+ +lG ++ q+++++ g  d  
  PHY93_09460|PHY93_09460  70 IEMQLIEEALKKNIPILGICLGAQMLAHVLGADVRQSAKKEIGWYDLN 117
                              799**********************************99877766655 PP

>> GATase_3  CobB/CobQ-like glutamine amidotransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.9   0.0   1.7e-08   5.2e-05      26      98 ..      28     106 ..      16     154 .. 0.75

  Alignments for each domain:
  == domain 1  score: 22.9 bits;  conditional E-value: 1.7e-08
                 GATase_3  26 rvrfvplkdeslg.....edadlvilpGgkdtiqdlallresgldeaikeaaeaggpvlgiCGGlqmLGeei.edpegv 98 
                              r+r+v+++++  +     +   l++l+G   + ++  +++ +   + i+ea+++++p+lgiC G qmL + + +d  + 
  PHY93_09460|PHY93_09460  28 RIRYVNFERNPDEapsleKYHGLIVLGGHMGVYEAEIYKHIKIEMQLIEEALKKNIPILGICLGAQMLAHVLgADVRQS 106
                              55555543332223345354567778888888888888888888888999*******************9995555443 PP

>> HTS  Homoserine O-succinyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.0   1.1e-06    0.0033      95     183 ..      43     132 ..      17     156 .. 0.82

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 1.1e-06
                              TT--EEEEEE---S-TTS-GGGSTTHHHHHHHHHHHHHHEEEEEEETHHHHHHHHHHH----EEEEEEEEEEEEEEES.S..--GG CS
                      HTS  95 kdekfDgliiTGApveqlefeevkYWeelteildwakenvtstlfiCwaaqaalyylygvekkklpeKlfGvfehkvlke..kspl 178
                              + ek+ gli+ G  +   e e  k+ +  +++++ a ++    l iC++aq  l+++ g + ++  +K +G ++ +++++  ++p+
  PHY93_09460|PHY93_09460  43 SLEKYHGLIVLGGHMGVYEAEIYKHIKIEMQLIEEALKKNIPILGICLGAQM-LAHVLGADVRQSAKKEIGWYDLNLTDQglNDPV 127
                              4589***********999999999999888999999999999*********7.*********************998876223556 PP

                              GTT-- CS
                      HTS 179 lrgfd 183
                              l+ f+
  PHY93_09460|PHY93_09460 128 LSHFQ 132
                              65555 PP

>> DJ-1_PfpI  DJ-1/PfpI family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   3.2e-05     0.097      60     109 ..      45      97 ..      21     107 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 3.2e-05
                              CG-SEEEE--BHHH...HHHHHTSHHHHHHHHHHHHTT-EEEEETTTHHHHHH CS
                DJ-1_PfpI  60 aeyDalvlpGGrag...perlrenekvvelvkefaekgklvaaICagpqlLaa 109
                              ++y  l++ GG+ g   +e  +  +  ++l+ e+++k+ ++  IC g+q+La 
  PHY93_09460|PHY93_09460  45 EKYHGLIVLGGHMGvyeAEIYKHIKIEMQLIEEALKKNIPILGICLGAQMLAH 97 
                              689999999999862224444444566899*********************96 PP

>> HTH_29  Winged helix-turn helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0       2.5   7.5e+03      17      28 ..      94     105 ..      91     108 .. 0.65
   2 ?   10.4   0.0   0.00017       0.5      18      37 ..     218     237 ..     211     253 .. 0.91

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 2.5
                   HTH_29  17 qiAkllglsrrt 28 
                              ++A++lg + r+
  PHY93_09460|PHY93_09460  94 MLAHVLGADVRQ 105
                              677777776665 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 0.00017
                   HTH_29  18 iAkllglsrrtvyrwlkrfe 37 
                              i + ++lsr+t+ r++++f 
  PHY93_09460|PHY93_09460 218 ISHSMDLSRQTFSRFIELFT 237
                              7899**************95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (255 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       614  (0.0342462); expected 358.6 (0.02)
Passed bias filter:                      540  (0.0301188); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.46u 0.20s 00:00:00.66 Elapsed: 00:00:00.35
# Mc/sec: 2181.88
//
Query:       PHY93_09465|PHY93_09465  [L=153]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (153 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2138  (0.119248); expected 358.6 (0.02)
Passed bias filter:                      531  (0.0296168); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.19s 00:00:00.61 Elapsed: 00:00:00.35
# Mc/sec: 1326.52
//
Query:       PHY93_09470|PHY93_09470  [L=139]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      6e-14   52.6   0.0      7e-14   52.4   0.0    1.1  1  3-dmu-9_3-mt  3-demethylubiquinone-9 3-methyltransferase
      3e-08   33.9   0.0    3.8e-08   33.6   0.0    1.1  1  Glyoxalase    Glyoxalase/Bleomycin resistance protein/Dioxyge


Domain annotation for each model (and alignments):
>> 3-dmu-9_3-mt  3-demethylubiquinone-9 3-methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.4   0.0   7.8e-18     7e-14       2     114 ..       3     129 ..       2     131 .. 0.83

  Alignments for each domain:
  == domain 1  score: 52.4 bits;  conditional E-value: 7.8e-18
             3-dmu-9_3-mt   2 kitpcLlfdgeaeeAaefYvsvfenseilsvarype...eeps.kegkvltveFtlagqefvalngg..pefkfneavSllveckd 81 
                              +i p L+f g+ eeA++fY  vf   ei+s  +y++   + p+  ++k+++++F ++g +++a ++   +e    + + l+v  ++
  PHY93_09470|PHY93_09470   3 SIQPYLMFPGNCEEAIKFYCDVFGG-EIKSSIKYKDgpmDVPEiWKEKIMHATFIIRGDQLMASDSFpgNEPVKGNNINLSVGFDT 87 
                              5889*******************75.56665555541114566889*******************983344455678999****** PP

             3-dmu-9_3-mt  82 qeevdrlwnalseegg.........eeskcgWvkDkfGvswQ 114
                              ++  d+ +n+l++ g            +++g + D++Gvsw 
  PHY93_09470|PHY93_09470  88 KSRPDEAFNKLAKGGRimmplentfWGARYGQLVDHYGVSWM 129
                              **************99*****99766679************5 PP

>> Glyoxalase  Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.6   0.0   4.2e-12   3.8e-08       2     128 .]       4     130 ..       3     130 .. 0.85

  Alignments for each domain:
  == domain 1  score: 33.6 bits;  conditional E-value: 4.2e-12
                              EEEEEEEESHHHHHHHHHHHHHTSEEEEEEEE........EESTEEEEEEEEETTTSEEEEEEEECCTTSCTHHCCBSCTSEEEEE CS
               Glyoxalase   2 idhvallvgdleksldFYtkvLGfklvkktdn........teeteglriaffhaggghielvlneapsgaakhvkkieetvhhvaf 79 
                              i+ + ++ g+ e++++FY++v+G ++   + +        ++ +e+ ++a f + g++++  +  + + + k+          + +
  PHY93_09470|PHY93_09470   4 IQPYLMFPGNCEEAIKFYCDVFGGEIKSSIKYkdgpmdvpEIWKEKIMHATFIIRGDQLMASDSFPGNEPVKGN------NINLSV 83 
                              5667788999***************************9999999999999999999999877666666666666......234666 PP

                              EEEEHCHHHHHHHHHHHTTGEEEEEEECHHCTEEEEEEEEETTSEEEEE CS
               Glyoxalase  80 ialdvedvgkaldrlkeagvkvvaepgrhyfgalysfyfrDpdGillei 128
                               ++++   ++a+++l++ g +++++++ +++ga+y++   D+ G+ + +
  PHY93_09470|PHY93_09470  84 GFDTKSRPDEAFNKLAKGG-RIMMPLENTFWGARYGQ-LVDHYGVSWMF 130
                              667777777*******999.****************9.99999999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (139 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       222  (0.0123822); expected 358.6 (0.02)
Passed bias filter:                      213  (0.0118802); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.34u 0.20s 00:00:00.54 Elapsed: 00:00:00.33
# Mc/sec: 1275.46
//
Query:       PHY93_09475|PHY93_09475  [L=134]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (134 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1229  (0.0685482); expected 358.6 (0.02)
Passed bias filter:                      416  (0.0232026); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.21s 00:00:00.60 Elapsed: 00:00:00.35
# Mc/sec: 1132.62
//
Query:       PHY93_09480|PHY93_09480  [L=66]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    0.00067   19.9   1.3    0.00076   19.7   1.3    1.1  1  Ntox28      Bacterial toxin 28
     0.0027   17.6   0.5     0.0031   17.3   0.5    1.1  1  DUF1465     Protein of unknown function (DUF1465)
     0.0033   17.6   2.1     0.0033   17.6   2.1    1.4  1  DUF1319     Protein of unknown function (DUF1319)
  ------ inclusion threshold ------
       0.01   15.7   1.6      0.015   15.2   1.6    1.3  1  Nas2_N      Nas2 N_terminal domain
       0.03   14.4   2.6      0.031   14.3   1.4    1.6  2  PspB        Phage shock protein B
      0.036   12.6   1.2      0.038   12.5   1.2    1.0  1  Herpes_UL6  Herpesvirus UL6 like
        0.6   10.0   4.8       0.45   10.4   3.3    1.6  1  NuA4        Histone acetyltransferase subunit NuA4
       0.99    9.5   6.2          1    9.5   5.6    1.4  1  IFP_35_N    Interferon-induced 35 kDa protein (IFP 35) N-term
        3.3    8.6   7.8        6.3    7.7   4.1    3.0  4  M           M protein repeat


Domain annotation for each model (and alignments):
>> Ntox28  Bacterial toxin 28
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.7   1.3   3.8e-07   0.00076      48      99 ..       2      53 ..       1      61 [. 0.94

  Alignments for each domain:
  == domain 1  score: 19.7 bits;  conditional E-value: 3.8e-07
                   Ntox28 48 dHvkeltdaqkGLenvrralekelenppdsdteRevLerklkeavleLdrve 99
                             d +k+l + ++ Le+++++le el++p ++d+e   +e+   e ++ L +ve
  PHY93_09480|PHY93_09480  2 DKLKDLIEQRQKLEERIKQLESELKKPLTADSEESAVEEDNREIIYGLYQVE 53
                             889****************************************999998887 PP

>> DUF1465  Protein of unknown function (DUF1465)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   0.5   1.6e-06    0.0031     107     146 ..       3      41 ..       1      47 [. 0.87

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 1.6e-06
                              HHHHHHHHHHHHHHHHHHHHHHHHT-SSXXXX.XXXXXXX CS
                  DUF1465 107 elqeLierserLyervrrLdrelreeaeaaeaaenpvaeq 146
                              +l++Lie+ ++L er+++L++el+++ +a+++ e++v+e 
  PHY93_09480|PHY93_09480   3 KLKDLIEQRQKLEERIKQLESELKKPLTADSE-ESAVEED 41 
                              799**********************9998865.8888875 PP

>> DUF1319  Protein of unknown function (DUF1319)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   2.1   1.6e-06    0.0033      37      65 ..       3      32 ..       1      51 [. 0.83

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 1.6e-06
                  DUF1319 37 slkivkekrrslekqlkklkselkk.lrel 65
                             +lk ++e+r+ le+++k+l+selkk l+++
  PHY93_09480|PHY93_09480  3 KLKDLIEQRQKLEERIKQLESELKKpLTAD 32
                             5899*******************9845554 PP

>> Nas2_N  Nas2 N_terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.2   1.6   7.7e-06     0.015       1      37 [.       4      41 ..       4      43 .. 0.88

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 7.7e-06
                   Nas2_N  1 lkeLekkkdeiekeieelsevLe.sqnvgmdgplvDee 37
                             lk+L ++++++e++i++l++ L+    ++ +++ v e+
  PHY93_09480|PHY93_09480  4 LKDLIEQRQKLEERIKQLESELKkPLTADSEESAVEED 41
                             699********************777778888888776 PP

>> PspB  Phage shock protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   1.4   1.6e-05     0.031      41      64 ..       2      25 ..       1      31 [. 0.90
   2 ?   -1.0   0.0      0.96   1.9e+03      40      48 ..      43      51 ..      25      62 .. 0.52

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.6e-05
                     PspB 41 krLeellekAekleeRietLEriL 64
                             ++L++l+e+ +kleeRi+ LE+ L
  PHY93_09480|PHY93_09480  2 DKLKDLIEQRQKLEERIKQLESEL 25
                             689******************865 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.96
                     PspB 40 ekrLeelle 48
                             ++ +  l++
  PHY93_09480|PHY93_09480 43 REIIYGLYQ 51
                             333333333 PP

>> Herpes_UL6  Herpesvirus UL6 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   1.2   1.9e-05     0.038     378     431 ..       1      51 [.       1      65 [. 0.67

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 1.9e-05
               Herpes_UL6 378 fdtiekLkkenelllkklkelekeLerlreeakkeakarevdlltsstdaslen 431
                              +d++++L +++++l++++k+le+eL++  + + +e++ +e    + + +  l++
  PHY93_09480|PHY93_09480   1 MDKLKDLIEQRQKLEERIKQLESELKKPLTADSEESAVEE---DNREIIYGLYQ 51 
                              68999*********************98665554333333...33333334444 PP

>> NuA4  Histone acetyltransferase subunit NuA4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   3.3   0.00023      0.45       1      23 [.       3      25 ..       3      43 .. 0.93

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00023
                     NuA4  1 eLkellkkkrelekelakleeqI 23
                             +Lk+l++++++le+++++le+++
  PHY93_09480|PHY93_09480  3 KLKDLIEQRQKLEERIKQLESEL 25
                             69******************987 PP

>> IFP_35_N  Interferon-induced 35 kDa protein (IFP 35) N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   5.6   0.00051         1       3      25 ..       5      27 ..       3      53 .. 0.83

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00051
                 IFP_35_N  3 aeitkeniqLkeeiqkLeaELQe 25
                             +++ ++ ++L+e+i++Le+EL +
  PHY93_09480|PHY93_09480  5 KDLIEQRQKLEERIKQLESELKK 27
                             6889999*************986 PP

>> M  M protein repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.6   0.3     0.072   1.4e+02       9      21 .]       3      15 ..       2      15 .. 0.82
   2 ?    7.7   4.1    0.0032       6.3       1      19 [.       9      27 ..       9      29 .. 0.90
   3 ?    7.2   0.6    0.0047       9.4       3      15 ..      18      30 ..      16      36 .. 0.84
   4 ?   -0.7   0.0       1.8   3.6e+03       6      10 ..      52      56 ..      51      60 .. 0.67

  Alignments for each domain:
  == domain 1  score: 3.6 bits;  conditional E-value: 0.072
                        M  9 elqeLeeelqaLe 21
                             +l++L e+ q+Le
  PHY93_09480|PHY93_09480  3 KLKDLIEQRQKLE 15
                             6788889999997 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.0032
                        M  1 eakkeLEaelqeLeeelqa 19
                             e+ ++LE + + Le+el++
  PHY93_09480|PHY93_09480  9 EQRQKLEERIKQLESELKK 27
                             6889************997 PP

  == domain 3  score: 7.2 bits;  conditional E-value: 0.0047
                        M  3 kkeLEaelqeLee 15
                              k+LE+el++  +
  PHY93_09480|PHY93_09480 18 IKQLESELKKPLT 30
                             69*******9765 PP

  == domain 4  score: -0.7 bits;  conditional E-value: 1.8
                        M  6 LEael 10
                             +E+e+
  PHY93_09480|PHY93_09480 52 VEKEN 56
                             66664 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (66 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1820  (0.101512); expected 358.6 (0.02)
Passed bias filter:                      903  (0.0503653); expected 358.6 (0.02)
Passed Vit filter:                       132  (0.00736237); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.43u 0.18s 00:00:00.61 Elapsed: 00:00:00.35
# Mc/sec: 559.17
//
Query:       PHY93_16690|PHY93_16690  [L=486]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-70  238.0  30.1    1.2e-70  238.0  30.1    2.2  2  Proton_antipo_M  Proton-conducting membrane transporter


Domain annotation for each model (and alignments):
>> Proton_antipo_M  Proton-conducting membrane transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   3.7     0.037   6.6e+02      80     156 ..      49     119 ..       8     127 .. 0.65
   2 !  238.0  30.1   6.8e-75   1.2e-70       1     292 [.     128     425 ..     128     426 .. 0.92

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.037
          Proton_antipo_M  80 elllllllllvgllvKsaqvplhlWlpdayveaPtpvsallAatlvkagvlllirlllllavssneisqlllilaii 156
                              +l++ ++ l++ l  Ks +v+ +  + d     +t++ +++  +l ++g++ l +++  +   s + + ++++++i+
  PHY93_16690|PHY93_16690  49 GLVVTFISLIINLSGKSEAVFSNSMIIDP---FSTVMKMIM--VLGTLGAYYLSTFSKDIY-ESLKTEFIIMAVGIL 119
                              55556666666666666666665555555...456666666..889999999999988877.555666666555543 PP

  == domain 2  score: 238.0 bits;  conditional E-value: 6.8e-75
          Proton_antipo_M   1 andLlllylglElvllplylLiglwkkkpksleAslklflltllgsliLLlgilllynltgtlefeelskal.elglnslelll.l 84 
                              an++l++y+g+E  ++ +y+++ l+k++++s+eA+lk++l++ l+s i+L+g++ ++++ gt++f  ++ ++ +l++ ++ ++l  
  PHY93_16690|PHY93_16690 128 ANNMLMMYIGIETLSIISYVMASLKKNDERSSEAGLKYALYGGLSSGIMLFGMSHMFGVLGTIQFSGMAANIaKLNQTQILIMLpS 213
                              89******************************************************************999875555555555526 PP

          Proton_antipo_M  85 lllllvgllvKsaqvplhlWlpdayveaPtpvsallAatlvkagvl.llirllllla....vssneisqlllilaiismllgslva 165
                              ++l+++g+  K+a+vp+h+W pd+y+++Ptpv++++ a+++k++++ +l+r++++++      s  +  l++++a+++m +g++ a
  PHY93_16690|PHY93_16690 214 FVLFFAGIGYKIAAVPFHMWSPDVYEGSPTPVTTFF-AIVPKLAGIsALVRITMIFFatksPLSVGWVGLMMVIAALTMTVGNVSA 298
                              7788899*****************************.88888766526777777666666667788999***************** PP

          Proton_antipo_M 166 laqtdiKrllAySsishlGymlialavatqygveaaiihllthalfkallFllagsviyerektrdirayggLakkmPilalvllv 251
                              + q+++Kr+lAySsish G+m+ +l + +++gv a++++ +++ +++++ F +  s+++++   + +++ +gL+ + P++a+++ +
  PHY93_16690|PHY93_16690 299 IGQRSVKRMLAYSSISHAGIMIAGLTMINEIGVRAIVFYAIIYLFMTLAAFYIT-SIVQDKYGNDHFERFQGLVYRYPFMAIAMSI 383
                              ****************************************************99.999**************************** PP

          Proton_antipo_M 252 lllslaGlPptagFlskfliLeaavavslillvla.vvasvl 292
                              +++sl+GlPp+agF++k+ i++a++++  ++l+++ v+ sv+
  PHY93_16690|PHY93_16690 384 VMFSLTGLPPLAGFVAKWNIINALLSARFYTLAIVlVLNSVV 425
                              ********************************9997877765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (486 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1084  (0.0604607); expected 358.6 (0.02)
Passed bias filter:                      325  (0.0181271); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.61u 0.23s 00:00:00.84 Elapsed: 00:00:00.37
# Mc/sec: 3894.27
//
Query:       PHY93_09485|PHY93_09485  [L=238]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.9e-68  230.7   0.0    2.2e-68  230.5   0.0    1.0  1  Glucosamine_iso  Glucosamine-6-phosphate isomerases/6-phospho


Domain annotation for each model (and alignments):
>> Glucosamine_iso  Glucosamine-6-phosphate isomerases/6-phosphogluconolactonase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  230.5   0.0   1.2e-72   2.2e-68       2     225 .]       7     228 ..       6     228 .. 0.94

  Alignments for each domain:
  == domain 1  score: 230.5 bits;  conditional E-value: 1.2e-72
                              SHHHHHHHHHHHHHHHHHHHHHHHS-EEEEE--SHCHHHHHHHHHCSG.GGGGS-GGGEEEEESEEESS-TTSTT-HHHHHHHHTG CS
          Glucosamine_iso   2 dkeelaealaarivealeealaergraslalsGGstpkalyealaeeeeaaaaldwskvhvflgDERfVpaddpdsNaklareall 87 
                              ++e+la a+a+ ++e+ ++a+++ gr+++ lsGG tp+++ye laee+ +  ++dws+v++f+gDER+V+++dp sN+ +++eall
  PHY93_09485|PHY93_09485   7 NEEALAIAAAKIFIEQFHKAINRSGRFNVLLSGGATPRRTYEYLAEEPFK-DQVDWSRVDFFWGDERCVDSNDPLSNYLMVNEALL 91 
                              7899*****************************************87744.49********************************* PP

                              GGS---GGGEE-S-TTSSTHHHHHHHHHHHHHHHHCCSSSSSESEEEE---TTS-BTTB-TTCHHHHCSSSSEEEESSBSTSSS-E CS
          Glucosamine_iso  88 skvkipeanvhpikesaaeapeaaaaayeeelkellakelpvfDlvlLGmGpDGHtaSLFPgspeleetdrlvvavedspkpppeR 173
                              s+++ip++++hpi  s+  +p++ a  ye++l+++++++ p+fDlv+LG+G DGH+aSLFP+  +l+e++r+++av+ ++++   R
  PHY93_09485|PHY93_09485  92 SHIAIPANQIHPILCSQ--NPHKSAILYENTLRKYFSHSKPSFDLVFLGLGVDGHIASLFPQASALKERERWFIAVQ-KETEDFAR 174
                              *************8644..49*******************************************************8.5566779* PP

                              EEE-HHHHTTCSEEEEEEESHHHHHHHHHHHTT..TT.TSGGGGH-.-SSEEEE CS
          Glucosamine_iso 174 itlTlpvlnsarevlflvaGeeKaealeevlsgedpe.elPaalve.gqgellw 225
                              it+Tlp+ln a+ ++flv+ eeK+++le+vls+e+p+ +lPa+l++  +g+l+w
  PHY93_09485|PHY93_09485 175 ITVTLPILNLAQLIVFLVTNEEKSKILEKVLSQEEPStTLPARLIQpINGKLFW 228
                              ********************************99887467*****989999999 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (238 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       445  (0.0248201); expected 358.6 (0.02)
Passed bias filter:                      402  (0.0224218); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.38
# Mc/sec: 1870.26
//
Query:       PHY93_09490|PHY93_09490  [L=490]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   4.3e-115  383.9   0.0   7.5e-115  383.1   0.0    1.4  1  G6PD_C    Glucose-6-phosphate dehydrogenase, C-terminal domai
    1.3e-57  195.3   0.2    3.1e-57  194.1   0.1    1.6  2  G6PD_N    Glucose-6-phosphate dehydrogenase, NAD binding doma


Domain annotation for each model (and alignments):
>> G6PD_C  Glucose-6-phosphate dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  383.1   0.0  8.4e-119  7.5e-115       1     289 [.     187     475 ..     187     476 .. 0.98

  Alignments for each domain:
  == domain 1  score: 383.1 bits;  conditional E-value: 8.4e-119
                              HHHHHS-STTSTTSSTTTEEEEEEEEEESS--TTTHHHHTTTHHHHHTTTTHHHHHHHHHH----SSSSHHHHHHHHHHHHTTB-- CS
                   G6PD_C   1 lvlRfaNalfeplwnrnyidhvqitvketlgvegrggYydeaGalrDvvqnHllqllalvamepPasldaedirdekvkvLkslrp 86 
                              l+lRfaN+lfeplwnrnyid+vqitv+e++gve+rg+Yyd++GalrD+v+nHllqll+l+amepP+++ +++ +++ ++vL+s+rp
  PHY93_09490|PHY93_09490 187 LALRFANSLFEPLWNRNYIDNVQITVAEEIGVENRGNYYDKSGALRDMVENHLLQLLCLIAMEPPIEFIKNEFQNKMIDVLHSIRP 272
                              68************************************************************************************ PP

                              --G...GG.EEEEEE.....E--TGS-STTSTTS-TT----SEEEEEEEB-STTTTT-EEEEEEESSBSS-EEEEEEEE---SS-S CS
                   G6PD_C  87 lkleevekkvvrGqYaagavkgkevkgYreeegvakdSkteTfvalkleidnerwagVPfylrtGKrLnekkteiriqfkkvpsdl 172
                              + +++v+k +vrGqY           gYree++++++SkteTfvalkl++dn+rw++VPfylr+GK+L+++++ei++qf++vp+++
  PHY93_09490|PHY93_09490 273 IAKDQVSKIAVRGQY----------IGYREEPRIDPNSKTETFVALKLYVDNWRWQDVPFYLRAGKKLPKQVAEISLQFRSVPHQT 348
                              ***************..........8************************************************************ PP

                              S..---....--EEEEEEESS-EEEEEEEEE-SSSE.....EEEEEEHHHHTT..---HHHHHHHHHHHT-GTTSB-HHHHHHHHH CS
                   G6PD_C 173 f..kkke...rneLviriqpdeaislklnakkpgleleleeveldlsykerfk..lpeaYerLlldvlkgdqtlFvrsdeveaaWk 251
                              f  k++e   +n+L+iriqp+e+i l++++k+pg++++l++v+++++y+e f    p+aYe+Llld+++gd +lF+rsd   aaW+
  PHY93_09490|PHY93_09490 349 FpgKTHEmsvPNNLIIRIQPEESIILRFQVKRPGTHFKLQPVDMRFCYNEFFPgkFPSAYETLLLDIINGDGMLFIRSDRETAAWS 434
                              *86443479******************************************9999******************************* PP

                              HHHHHHHHHHH...---EEEETTSSS-HHHHHHHHHHTX.X CS
                   G6PD_C 252 ivdpileawee...eklekYeagsrgPeeadellekdgrkw 289
                              i++ il++we+   +++++Y+ags+gP+++d+l+e+dgrkw
  PHY93_09490|PHY93_09490 435 ILTVILDEWEKktpSDFPNYPAGSWGPKASDDLIERDGRKW 475
                              *********9999978************************* PP

>> G6PD_N  Glucose-6-phosphate dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  194.1   0.1   3.5e-61   3.1e-57       1     177 []      10     185 ..      10     185 .. 0.96
   2 ?   -1.9   0.0      0.49   4.4e+03      63     116 ..     273     334 ..     234     354 .. 0.58

  Alignments for each domain:
  == domain 1  score: 194.1 bits;  conditional E-value: 3.5e-61
                   G6PD_N   1 vifGasGdLakrkllPaLyelaregllpeevrivgvarsklsdeefrekvkealkk.ekekeeldeekleeflkrleyvsgdleee 85 
                              vifGa GdL+krkl+PaLy+l+ +++lp++++i+g+ ++ +++++f++++ke++++ ++++++  +e++++f   l+y+++d+ ++
  PHY93_09490|PHY93_09490  10 VIFGAGGDLTKRKLIPALYDLFLDQKLPQHFSILGLDHQGWTQDDFNKHLKENINEfSHQRKSNGKESWRSFSIFLKYLNLDFLKA 95 
                              8*****************************************************9975666677889******************* PP

                   G6PD_N  86 eeyekLkekleeleanrlfYlavppslfeevaeklkkaglakeeewkrvvvEKPfGkdlesarelneelkkvfkeeqiyrIDhYLG 171
                              e+y++L+ +l++ + + +fYla++p l e+++++l++a+l   ++ +rvv+EKPfGkdles+++lne+l+++++e+qiyrIDhYLG
  PHY93_09490|PHY93_09490  96 ESYTRLQVELKN-SPKYIFYLATAPFLVENIINHLGEANLFL-NKESRVVIEKPFGKDLESSSKLNETLTRLLDESQIYRIDHYLG 179
                              ***********9.889**********************9997.566**************************************** PP

                   G6PD_N 172 ketvqN 177
                              ketvqN
  PHY93_09490|PHY93_09490 180 KETVQN 185
                              *****9 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 0.49
                   G6PD_N  63 ldeekleeflkrleyvsg.......dleeeeeyekLkekleele.anrlfYlavppslfeev 116
                              ++++++++++ r +y+          ++++e++ +Lk  +++++ + + fYl    +l ++v
  PHY93_09490|PHY93_09490 273 IAKDQVSKIAVRGQYIGYreepridPNSKTETFVALKLYVDNWRwQDVPFYLRAGKKLPKQV 334
                              34444444444444443322233322334445666666666655455556666555555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (490 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       493  (0.0274974); expected 358.6 (0.02)
Passed bias filter:                      424  (0.0236488); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.41
# Mc/sec: 3544.49
//
Query:       PHY93_09495|PHY93_09495  [L=467]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   6.1e-116  386.8   0.3   8.1e-116  386.4   0.3    1.2  1  6PGD             6-phosphogluconate dehydrogenase, C-terminal
      2e-43  148.3   0.0      3e-43  147.7   0.0    1.3  1  NAD_binding_2    NAD binding domain of 6-phosphogluconate deh
    1.5e-07   31.9   0.0      3e-07   30.9   0.0    1.5  1  F420_oxidored    NADP oxidoreductase coenzyme F420-dependent
    1.8e-05   24.7   0.0    3.4e-05   23.8   0.0    1.4  1  3HCDH_N          3-hydroxyacyl-CoA dehydrogenase, NAD binding
    8.5e-05   22.2   0.0    0.00017   21.2   0.0    1.6  1  UDPG_MGDP_dh_N   UDP-glucose/GDP-mannose dehydrogenase family
    9.8e-05   22.6   0.1    0.00023   21.4   0.0    1.7  2  TrkA_N           TrkA-N domain
    0.00081   18.8   0.1     0.0025   17.2   0.0    1.8  2  2-Hacid_dh_C     D-isomer specific 2-hydroxyacid dehydrogenas
    0.00085   18.9   0.0     0.0013   18.2   0.0    1.3  1  Epimerase        NAD dependent epimerase/dehydratase family
     0.0021   18.9   0.0     0.0064   17.3   0.0    1.8  2  GFO_IDH_MocA     Oxidoreductase family, NAD-binding Rossmann 
     0.0027   17.7   0.0      0.014   15.4   0.0    2.1  2  NAD_Gly3P_dh_N   NAD-dependent glycerol-3-phosphate dehydroge
     0.0055   16.4   0.0      0.011   15.4   0.0    1.5  1  ApbA             Ketopantoate reductase PanE/ApbA
  ------ inclusion threshold ------
      0.023   15.4   0.0        2.9    8.7   0.0    2.7  2  Methyltransf_25  Methyltransferase domain
      0.031   13.3   0.0      0.059   12.4   0.0    1.4  1  PDH              Prephenate dehydrogenase
      0.054   12.8   0.2        0.1   11.9   0.2    1.4  1  ThiF             ThiF family
      0.058   13.5   0.1       0.11   12.6   0.1    1.4  1  Shikimate_DH     Shikimate / quinate 5-dehydrogenase
       0.06   12.9   0.1       0.15   11.6   0.0    1.8  2  IlvN             Acetohydroxy acid isomeroreductase, NADPH-bi
       0.34   11.6   0.9        1.1   10.0   0.1    2.3  1  CoA_binding      CoA binding domain


Domain annotation for each model (and alignments):
>> 6PGD  6-phosphogluconate dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  386.4   0.3  7.7e-119  8.1e-116       1     289 []     179     466 ..     179     466 .. 0.99

  Alignments for each domain:
  == domain 1  score: 386.4 bits;  conditional E-value: 7.7e-119
                     6PGD   1 GhyVKmvHNGieygdmqliaEaydllkkvlglsneeiaevFeeWnkgelesyLieitakilrkkdeedgkplvdkilDkagqkGTg 86 
                              GhyVKmvHNGieyg mql+aE+y+l+kkvl+lsn+e++ev++eWnk+e +syL+eit+ki+ +kd+++++ l+d+ilD+a+qkGTg
  PHY93_09495|PHY93_09495 179 GHYVKMVHNGIEYGLMQLMAETYHLMKKVLKLSNDECHEVYKEWNKKEFNSYLLEITEKIFLEKDDKTNNRLIDVILDVAKQKGTG 264
                              9************************************************************************************* PP

                     6PGD  87 kwtvqealelgvpvptiaeavfaRllSslkeervkaskllkeeeekeeedkeefiedlrkAlyaskivsYaqglellkaaskeygw 172
                               w++q+a+el+vp+pti++av +R lS +keer+ a   l+++e k++ d++ f+++l +A+yas i+++aqg++ll++as +y++
  PHY93_09495|PHY93_09495 265 MWVCQDAMELQVPIPTIDAAVSMRDLSLHKEERKMAGLYLHGPEIKFKGDRKLFLQQLGNAYYASSIITFAQGMALLTKASVTYSY 350
                              ************************************999999989***************************************** PP

                     6PGD 173 nlnlaeiariWrgGCiIrakfldkikeafeknpelenllldpefakelkealealrrvvalaveagipvpalsaalaYldslrser 258
                              ++++++iariWrgGCiIra++l+ i++af+++ +l++llld++++ e+++++++lr +v ++ + gip+pa++a+l+Y+d++rse 
  PHY93_09495|PHY93_09495 351 DFKVEDIARIWRGGCIIRAALLEAIMSAFHST-QLSHLLLDSHLHLEVRNKQADLRAIVEAGSRFGIPLPAFMASLSYYDGYRSEW 435
                              *******************************7.9**************************************************** PP

                     6PGD 259 lpanliqaqrDyFGahtyervdkegkfhteW 289
                              lpanliqaqrDyFGahtyer+d+ g+fh +W
  PHY93_09495|PHY93_09495 436 LPANLIQAQRDYFGAHTYERIDEVGVFHKNW 466
                              ******************************* PP

>> NAD_binding_2  NAD binding domain of 6-phosphogluconate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  147.7   0.0   2.9e-46     3e-43       1     154 [.       6     165 ..       6     174 .. 0.95

  Alignments for each domain:
  == domain 1  score: 147.7 bits;  conditional E-value: 2.9e-46
                              EEEEE--SHHHHHHHHHHHHTT-EEEEE-SSHHHHHHHHHTT.....EEE-SSHHHHHHHC...SEEEE-SSSHHHHHHHHHSHCC CS
            NAD_binding_2   1 kigfiGlGvMGsnmalnllkagykvavynrtkekveelvaeg.....akaaesieelvasl...dvvitmvkagkavdevieglle 78 
                              +ig++GlG+MGsn+ ln++++gy+v++ + +k+kve+l a       ++a++++ee+++++   ++++++v++ + vd+vi ++ +
  PHY93_09495|PHY93_09495   6 EIGIVGLGTMGSNLLLNIADHGYRVIGLDKDKDKVEALRAMAtknsnIEATNNLEEFLKNIhqpRAILLLVPS-PVVDAVIAEMSS 90 
                              59***********************************9988778899****************9999999997.89********** PP

                              C--TT-EEEE-S---HHHHHHHHHHHHHTT-EEEEEEEESHHHHHHHT-EEEEEEE-HHHHHHHHHHHHHHEEEEE CS
            NAD_binding_2  79 alkkgdilidgstsspedtrelakelkekglkfldaPVSGGeegAekGtLsimvGGseeafervkpvleaigakvt 154
                               +++gd+lid ++s+++dt+ ++k lkekg+ f+++++SGGeegA+ G+ sim+GG+ ea+e+++p+leai+akv 
  PHY93_09495|PHY93_09495  91 LMSPGDMLIDAGNSHFKDTNHREKSLKEKGIYFFGMGISGGEEGARFGP-SIMPGGNPEAYEHIRPILEAIAAKVN 165
                              *************************************************.***********************654 PP

>> F420_oxidored  NADP oxidoreductase coenzyme F420-dependent
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.9   0.0   2.9e-10     3e-07       2      96 ..       7     103 ..       6     104 .. 0.89

  Alignments for each domain:
  == domain 1  score: 30.9 bits;  conditional E-value: 2.9e-10
                              EEEETTSHHHHHHHHHHHHTTS-GGCEEEEEESSCCCHHHHHHHHC....-EEECECHHHHHH...H-SEEEE-S-HHHHHHHHHH CS
            F420_oxidored   2 igiiGaGnmgealasgllaagaqpheivvansrnpekaeelaeelg....vkvtavdneeaae...eadvvvlavkpedveevlse 80 
                              igi+G G mg+ l+++++ +g   + ++ + +++++k+e+l++ +     +++t  + ee ++   +   ++l v+  +v++v++e
  PHY93_09495|PHY93_09495   7 IGIVGLGTMGSNLLLNIADHG---YRVI-GLDKDKDKVEALRAMATknsnIEATN-NLEEFLKnihQPRAILLLVPSPVVDAVIAE 87 
                              9********************...****.99**********98777776666666.66777776667899**************** PP

                              CGHHHHTTSEEEEESS CS
            F420_oxidored  81 lakdalkgklvisvla 96 
                              + +  + g ++i++ +
  PHY93_09495|PHY93_09495  88 MSSLMSPGDMLIDAGN 103
                              *999999*****9876 PP

>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.8   0.0   3.2e-08   3.4e-05       2      47 ..       7      52 ..       6      73 .. 0.85

  Alignments for each domain:
  == domain 1  score: 23.8 bits;  conditional E-value: 3.2e-08
                             EEEE--SCCHHHHHHHHHHTT-EEEEE-S-HHHHHHHHHHHHHHHH CS
                  3HCDH_N  2 vaviGaGtmGagiaavfasagleVvlvdiseealekalekieksle 47
                             ++++G GtmG+ +   +a +g++V  +d +++++e+ +++++k+ +
  PHY93_09495|PHY93_09495  7 IGIVGLGTMGSNLLLNIADHGYRVIGLDKDKDKVEALRAMATKNSN 52
                             89**********************************9999998443 PP

>> UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.2   0.0   1.7e-07   0.00017       2      44 ..       6      48 ..       5      92 .. 0.83

  Alignments for each domain:
  == domain 1  score: 21.2 bits;  conditional E-value: 1.7e-07
                             EEEEE--STTHHHHHHHHHHCTSEEEEE-S-HHHHHHHCTTS- CS
           UDPG_MGDP_dh_N  2 kisviGlGYvGlvtaavlaeighevigvDideekvdklnsgki 44
                             +i ++GlG +G    + +a +g  vig+D+d+ kv++l++   
  PHY93_09495|PHY93_09495  6 EIGIVGLGTMGSNLLLNIADHGYRVIGLDKDKDKVEALRAMAT 48
                             699*********************************9986543 PP

>> TrkA_N  TrkA-N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.4   0.0   2.2e-07   0.00023       3      80 ..       9      86 ..       7     120 .. 0.77
   2 ?   -2.7   0.0       6.5   6.8e+03      32      57 ..     217     242 ..     193     286 .. 0.65

  Alignments for each domain:
  == domain 1  score: 21.4 bits;  conditional E-value: 2.2e-07
                             EES-SHHHHHHHHHHHH.TTEEEEEEESSHHHHHHHHHTTSE..EEES-TTSHHHHHHTTGGGESEEEE-SSSHHHHHHHH CS
                   TrkA_N  3 iiGlGrvGrslaeeLse.ggkdvvvidkdeerveelreegle..vvvgdatdeevLeeagiekadaviaatgddeanilav 80
                             i+GlG++G++l+ ++ + g+ +v++ dkd+++ve lr+  ++   + +    ee+L++++  +  a++ ++++  + ++++
  PHY93_09495|PHY93_09495  9 IVGLGTMGSNLLLNIADhGY-RVIGLDKDKDKVEALRAMATKnsNIEATNNLEEFLKNIHQPR--AILLLVPSPVVDAVIA 86
                             9****************777.6***************99988456666666688888766554..4555555555555555 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 6.5
                              HHHHHHHHTTSEEEES-TTSHHHHHH CS
                   TrkA_N  32 erveelreeglevvvgdatdeevLee 57 
                              e+ +e  +++++ +  + t++ +Le+
  PHY93_09495|PHY93_09495 217 EVYKEWNKKEFNSYLLEITEKIFLEK 242
                              55555566666666666666666654 PP

>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.0   2.4e-06    0.0025      38     150 ..       6     125 ..       2     135 .. 0.78
   2 ?   -2.9   0.0       3.4   3.6e+03     128     143 ..     362     377 ..     362     399 .. 0.65

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 2.4e-06
                              EEEEES-SHHHHHHHHHHHHTT-EEEEESSSHHHHH.....CHHHHTCEEC.SHHHHHHH-...SEEEE-S--STTTTTSBSHHHH CS
             2-Hacid_dh_C  38 tvGiiGlGrIGqavakrlkafgmkviaydrskkkee.....eeeelgvelv.sleellaes...Divslhlpltpetrhlinaeel 114
                              ++Gi+GlG +G+++   ++  g +vi+ d+ k+k e     ++++ ++e + +lee+l++      + l +p +p   + + ae+ 
  PHY93_09495|PHY93_09495   6 EIGIVGLGTMGSNLLLNIADHGYRVIGLDKDKDKVEalramATKNSNIEATnNLEEFLKNIhqpRAILLLVP-SPV-VDAVIAEMS 89 
                              79*****************************99888787776666777555599999986522157878777.344.445557777 PP

                              HCSTTTEEEEESS-GGGB-HHHHHHHHHTTSCCEEE CS
             2-Hacid_dh_C 115 akmkkgailiNtaRGglvdeeaLleaLksgkiagaa 150
                              ++m +g +li ++     d++   + Lk++ i  ++
  PHY93_09495|PHY93_09495  90 SLMSPGDMLIDAGNSHFKDTNHREKSLKEKGIYFFG 125
                              899999999999999999988888888888877665 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 3.4
                              -GGGB-HHHHHHHHHT CS
             2-Hacid_dh_C 128 RGglvdeeaLleaLks 143
                              RGg + ++aLlea+ s
  PHY93_09495|PHY93_09495 362 RGGCIIRAALLEAIMS 377
                              7777777777777644 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.0   1.3e-06    0.0013       8      71 ..      13      75 ..       7      91 .. 0.84

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 1.3e-06
                             SHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHCEEEE--TT-HHHHHHHHHHH.T-SEEEE- CS
                Epimerase  8 GfiGsalvkallekgyevigldrlssasntarledlelveldltdrsalerlfkee.qpdavihl 71
                             G +Gs+l+ +++++gy+vigld+++++ +    +     + ++   ++le+++k+  qp a+++l
  PHY93_09495|PHY93_09495 13 GTMGSNLLLNIADHGYRVIGLDKDKDKVEAL--RAMATKNSNIEATNNLEEFLKNIhQPRAILLL 75
                             99**********************6666555..55588899999999*******988***99988 PP

>> GFO_IDH_MocA  Oxidoreductase family, NAD-binding Rossmann fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   0.0     6e-06    0.0064       3      72 ..       7      78 ..       5     109 .. 0.85
   2 ?   -2.5   0.0       8.4   8.8e+03      55      86 ..     243     275 ..     208     278 .. 0.64

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 6e-06
                             EEEETTSHHHHHHHHHHHHTTTTEEEEEEECSSHHHHHHH....HHHTTHEEESSHHHHHTCT.TESEEEE-S-G CS
             GFO_IDH_MocA  3 vaiiGaGkigskhlrplnesqrleevvalldpdaeraeav....aesfgveaysdleelladp.eidavivatpn 72
                             ++i+G+G +gs+ l  ln ++++++v++l d+d+ + ea+     ++ ++ea ++lee l++  +++a++  +p+
  PHY93_09495|PHY93_09495  7 IGIVGLGTMGSNLL--LNIADHGYRVIGL-DKDKDKVEALramaTKNSNIEATNNLEEFLKNIhQPRAILLLVPS 78
                             8************9..888888*****96.899999999988988999999*******9998889*****99997 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 8.4
                              HHHHTCTTESEEE.E-S-GGGHHHHHHHHHHTT CS
             GFO_IDH_MocA  55 eelladpeidavi.vatpngtheelakaaleag 86 
                              ++  ++  id+++ va   gt++ ++++a+e +
  PHY93_09495|PHY93_09495 243 DDKTNNRLIDVILdVAKQKGTGMWVCQDAMELQ 275
                              444444456666536666677888887777766 PP

>> NAD_Gly3P_dh_N  NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   1.3e-05     0.014       2     101 ..       7     100 ..       6     114 .. 0.84
   2 ?   -1.4   0.0         2   2.1e+03      67     116 ..     150     199 ..     147     215 .. 0.75

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 1.3e-05
                              EEEE--SHHHHHHHHHHHTTT--EEEE-S-HHHHHHHHHHSSBTTTBTT----TTEEEES-HHHHHT...T--EEEE---HHHHHH CS
           NAD_Gly3P_dh_N   2 iavlGaGswGtalAkvlaenghevrlwvreeelieeineehenvkyLpgiklpenlvattdlaealk...gadiivlvvPsqalre 84 
                              i+++G G  G+ l   +a++g +v    ++++ +e++++  + +          n++at++l+e lk   + + i+l vPs ++  
  PHY93_09495|PHY93_09495   7 IGIVGLGTMGSNLLLNIADHGYRVIGLDKDKDKVEALRAMATKNS---------NIEATNNLEEFLKnihQPRAILLLVPSPVVDA 83 
                              89*****************************99999998877665.........56666666665551115689************ PP

                              HHHHHCCC--TT-EEEE CS
           NAD_Gly3P_dh_N  85 vlkklkgllkkkailvs 101
                              v+++++ l+++   l+ 
  PHY93_09495|PHY93_09495  84 VIAEMSSLMSPGDMLID 100
                              ********999888775 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 2
                              HTT--EEEE---HHHHHHHHHHHCCC--TT-EEEE---SEET.TTEEHHH CS
           NAD_Gly3P_dh_N  67 lkgadiivlvvPsqalrevlkklkgllkkkailvsliKGieegtlkllse 116
                               ++ + i+ ++  ++  ev+ +  g  ++ + + ++  Gie g ++l+ e
  PHY93_09495|PHY93_09495 150 YEHIRPILEAIAAKVNGEVCVSYLGPGSAGHYVKMVHNGIEYGLMQLMAE 199
                              55666677888888888888888888888888888888888877777766 PP

>> ApbA  Ketopantoate reductase PanE/ApbA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   1.1e-05     0.011       1      94 [.       7      94 ..       7     107 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 1.1e-05
                             EEEES-SHHHHHHHHHHHHHTHCEEEE-SCH.HHHHHHHHCEEEEETTCEEEEEECEEECCHSCCCCS-ESEEEE-SSGGGHHHHHHH CS
                     ApbA  1 iailGaGaiGsllaakLakagadvtlilrsr.rlealkknGlrltseggeeilrppealsaeekselepidlvivtvKayqteealee 87
                             i i+G+G +Gs l  ++a +g+ v+ +++++ ++eal+    + +  +       +++l++   +++++   +++ v++  ++++++e
  PHY93_09495|PHY93_09495  7 IGIVGLGTMGSNLLLNIADHGYRVIGLDKDKdKVEALRAMATKNSNIE------ATNNLEEF-LKNIHQPRAILLLVPSPVVDAVIAE 87
                             79*****************************99999887766544444......66666666.5677888888888888888888887 PP

                             HGGGECT CS
                     ApbA 88 ikplldp 94
                             + +l+ p
  PHY93_09495|PHY93_09495 88 MSSLMSP 94
                             7777666 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.7   0.0    0.0027       2.9       5      95 ..      13      94 ..       9      95 .. 0.60
   2 ?    3.7   0.0     0.096     1e+02      39      80 ..     260     296 ..     247     303 .. 0.74

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 0.0027
                             T-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTTTEEEEESBCCGBSSSTTTEEEEEEESTGGGSSHHHHHHHHHHHHHH CS
          Methyltransf_25  5 GcGtGrltlalakrlgkakvtgvDiseemleaareraeeeglnvefvqgdaedlpfedgsfDlvvssgalhhlsdedlekalkeiarv 92
                             G+   +l+l++a+++  ++v+g+D +++ +ea r+ a ++  n+e  + ++e++  + ++  ++++     +++ + ++++++e++++
  PHY93_09495|PHY93_09495 13 GTMGSNLLLNIADHG--YRVIGLDKDKDKVEALRAMATKN-SNIEATN-NLEEFLKNIHQPRAILL-----LVPSPVVDAVIAEMSSL 91
                             444457889999995..*****************999654.3555432.23332222223333333.....34555666666666666 PP

                             EEE CS
          Methyltransf_25 93 Lkp 95
                             + p
  PHY93_09495|PHY93_09495 92 MSP 94
                             665 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.096
                              HHHHHTTTTEEEEESBCCGBSSSTTTEEEEEEESTGGGSSHH CS
          Methyltransf_25  39 eraeeeglnvefvqgdaedlpfedgsfDlvvssgalhhlsde 80 
                              ++         +v++da +l+ +  ++D+ vs+  l++ ++e
  PHY93_09495|PHY93_09495 260 QKG-----TGMWVCQDAMELQVPIPTIDAAVSMRDLSLHKEE 296
                              333.....56799*******************8777764433 PP

>> PDH  Prephenate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   5.6e-05     0.059       9      97 ..      27     120 ..      21     137 .. 0.68

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 5.6e-05
                              T--SEEEEE-SSHHHHHHHHHT.....TSSSEEES-..GGGGCCGSEEEE-S-GGGHHHHHHHHHHHS-TT-EEEE--S--CHHHH CS
                      PDH   9 gfkvtvigydideekaeaalel.....glvdeatdd..ieavkeadivvlavPvevilevlkelaphlkedalitDvgsvKekvvr 87 
                              g   +vig d+d+ k ea +++     +++ +++ +  ++++++   ++l vP  v+  v++e+++ ++++ +++D g    k  +
  PHY93_09495|PHY93_09495  27 G--YRVIGLDKDKDKVEALRAMatknsNIEATNNLEefLKNIHQPRAILLLVPSPVVDAVIAEMSSLMSPGDMLIDAGNSHFKDTN 110
                              4..578888888776554433311111333333322347778888*******************************9987766666 PP

                              HHHHHCC..G CS
                      PDH  88 eleellkegk 97 
                              + e++lke+ 
  PHY93_09495|PHY93_09495 111 HREKSLKEKG 120
                              6666666555 PP

>> ThiF  ThiF family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.2   9.7e-05       0.1      20      54 ..       6      41 ..       3      43 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 9.7e-05
                             EEEEE--SHHHHHHHHHHHHHTTTEEEE.EESSB-- CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxx RF
                     ThiF 20 kvllvGaGglGsellknLalsGvgkltl.vDnDkie 54
                             ++ +vG+G+ Gs+ll n+a  G + + l  D Dk+e
  PHY93_09495|PHY93_09495  6 EIGIVGLGTMGSNLLLNIADHGYRVIGLdKDKDKVE 41
                             688***********************9956888888 PP

>> Shikimate_DH  Shikimate / quinate 5-dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.1    0.0001      0.11      12      76 ..       4      66 ..       1      72 [. 0.89

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 0.0001
                             T-EEEEES-SHHHHHHHHHHHCCT-CEEEEEESSHHHHHHHHHHHT.ET-EEEEGCGHHHHHHT- CS
             Shikimate_DH 12 ekkvlliGaGemaelvakhLlakgvkkvvvaNRtlerakelaeelkgeeiealkleelkellaea 76
                             + ++ ++G G m++ ++ +++++g++ v+ +  + +++++l+    ++++++ + ++l+e l+++
  PHY93_09495|PHY93_09495  4 KYEIGIVGLGTMGSNLLLNIADHGYR-VIGLDKDKDKVEALRAMA-TKNSNIEATNNLEEFLKNI 66
                             56899*********************.999***********9888.5558999999999998875 PP

>> IlvN  Acetohydroxy acid isomeroreductase, NADPH-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00014      0.15       6      92 ..       6      99 ..       1     114 [. 0.67
   2 ?   -3.3   0.0       5.3   5.6e+03     109     129 ..     167     187 ..     161     205 .. 0.69

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00014
                             -EEEES-SHHHHHHHHHHHHTT--EEEEE-TT-HHHHH....HHH.TT-EEE.EHHH...HHHT-SEEEE-S-HHHHHHHHHHHTGGG CS
                     IlvN  6 kiaviGyGsqGhaqalnlrdsgldvvvglregsksvkk....Ake.egfevl.tvae...avkkadvvmiliPDelqkevyeeeiepn 84
                             +i ++G G+ G +  ln+ d g  v +gl +++ +v+     A++ +++e + +++e    +++   +++l+P  + ++v+ +e++  
  PHY93_09495|PHY93_09495  6 EIGIVGLGTMGSNLLLNIADHGYRV-IGLDKDKDKVEAlramATKnSNIEATnNLEEflkNIHQPRAILLLVPSPVVDAVI-AEMSSL 91
                             799********************98.6888887544321111222022222212333111456677889999998888888.777888 PP

                             --TT-EEE CS
                     IlvN 85 lkegkala 92
                             ++ g++l 
  PHY93_09495|PHY93_09495 92 MSPGDMLI 99
                             88777775 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 5.3
                              TSEEEEEEESS-SHHHHHHHH CS
                     IlvN 109 dvdvvlvAPkgpGhlvreeye 129
                              +v v  + P + Gh v+  ++
  PHY93_09495|PHY93_09495 167 EVCVSYLGPGSAGHYVKMVHN 187
                              566677778888888877664 PP

>> CoA_binding  CoA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.1    0.0011       1.1       3      82 ..       4      88 ..       2      90 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.0011
                             TEEEEEETTTSHHHHHHHHHHHHHHECEEEEEEC-TTTTTCEET..........TEEEESCHHHHHHHC.TTTEEEEES-HHHHHHHH CS
              CoA_binding  3 dtkviviGagglgiaglyhfkeklkygikavfgvnprkvgtevl..........glpvyksvdeleekt.evdvavitvPaesaqeav 79
                             +++++++G g +g+ +l++++++       v+g + +   ++v+          ++++ ++++e  +++ ++ + +++vP++ + +++
  PHY93_09495|PHY93_09495  4 KYEIGIVGLGTMGSNLLLNIADHGY----RVIGLDKD--KDKVEalramatknsNIEATNNLEEFLKNIhQPRAILLLVPSPVVDAVI 85
                             6789999999999999988777732....46777777..344444466777777***************77****************9 PP

                             HHH CS
              CoA_binding 80 del 82
                              e+
  PHY93_09495|PHY93_09495 86 AEM 88
                             986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (467 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       695  (0.038764); expected 358.6 (0.02)
Passed bias filter:                      570  (0.0317921); expected 358.6 (0.02)
Passed Vit filter:                        64  (0.00356964); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              17  [number of targets reported over threshold]
# CPU time: 0.58u 0.27s 00:00:00.85 Elapsed: 00:00:00.42
# Mc/sec: 3363.37
//
Query:       PHY93_09500|PHY93_09500  [L=154]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    5.1e-46  156.1   0.0    5.8e-46  155.9   0.0    1.0  1  LacAB_rpiB  Ribose/Galactose Isomerase


Domain annotation for each model (and alignments):
>> LacAB_rpiB  Ribose/Galactose Isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  155.9   0.0   3.2e-50   5.8e-46       1     139 []       3     142 ..       3     142 .. 0.96

  Alignments for each domain:
  == domain 1  score: 155.9 bits;  conditional E-value: 3.2e-50
                              EEEEE-GCGHHHHHHHHHHHHHTTTEEEEECESS.SS---HHHHHHHHHHHHHTTSSSEEEEEESSSHHHHHHHHTSTT--EEE-S CS
               LacAB_rpiB   1 iaigsDhagfelkekikeyLkekghevidvgtes.eesvdYpdfakkvaeavasgeadlgiliCgtGiGmsiaaNkvkgiraalch 85 
                              + i++Dh+gfelk++++++++++g+e+id+g+++ ++++dYpd+   +a+av+sg++d+gi+iCg+G+G+siaaNk+k++raal+h
  PHY93_09500|PHY93_09500   3 VGIAADHRGFELKKELITAFQNDGIELIDFGASTnNSDDDYPDYVFPLARAVSSGAIDRGIAICGSGVGASIAANKIKNVRAALVH 88 
                              679*****************999********88877799*********************************************** PP

                              SHHHHHHHHHTT--SEEEEETTTS-HHHHHHHHHHHHHS---.HTHHHHHHHHH CS
               LacAB_rpiB  86 deesAklarehnnanvlalGarvigeelakeivkaFletefeeggrharrvdki 139
                              d +sA++ +eh+++n++++Ga++++   a e++++Fl+++f+ + rh rr++ki
  PHY93_09500|PHY93_09500  89 DLFSARQGVEHDDMNIICMGAQLVTFPFAIELIQTFLNAKFSGKLRHLRRLAKI 142
                              *****************************************7555******998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (154 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       397  (0.0221429); expected 358.6 (0.02)
Passed bias filter:                      344  (0.0191868); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 1168.40
//
Query:       PHY93_09505|PHY93_09505  [L=680]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   5.3e-142  472.7   0.0   6.9e-142  472.3   0.0    1.1  1  Transketolase_N  Transketolase, thiamine diphosphate binding 
    6.2e-38  130.2   0.0    1.1e-37  129.4   0.0    1.4  1  Transket_pyr     Transketolase, pyrimidine binding domain
      1e-06   28.6   0.0    3.9e-06   26.8   0.0    2.0  1  Transketolase_C  Transketolase, C-terminal domain
    2.7e-05   23.5   0.0    0.00099   18.4   0.0    2.1  2  DXP_synthase_N   1-deoxy-D-xylulose-5-phosphate synthase


Domain annotation for each model (and alignments):
>> Transketolase_N  Transketolase, thiamine diphosphate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  472.3   0.0  1.5e-145  6.9e-142       4     334 .]      12     342 ..       9     342 .. 0.99

  Alignments for each domain:
  == domain 1  score: 472.3 bits;  conditional E-value: 1.5e-145
                              HHHHHHHHHHHHHHHHHT-S--HHHHHHHHHHHHHHHHT--B-TTBTT-TTS-EEEESSGGGHHHHHHHHHHTTSS--HHHHTTTT CS
          Transketolase_N   4 kavnaiRvLavDavekaksGhPGaplgladiaevlfkkllkhnPndpkwidRDRfvLsnGhaslllYsllhLtGydlsledlksfr 89 
                               ++na+R+LavDavekaksGhPG plg+ ++a++l+ ++lk+nP dp+w+dRDRfvLs+Gh+s+llYsll+LtG++lsl++lk+fr
  PHY93_09505|PHY93_09505  12 LCINALRFLAVDAVEKAKSGHPGLPLGASPMAYTLWDRFLKYNPLDPEWTDRDRFVLSAGHGSALLYSLLYLTGFNLSLDELKKFR 97 
                              589*********************************************************************************** PP

                              STT-SS-SS--TTTSTT--S---STTHHHHHHHHHHHHHHHHHHHH-BTTB-S----EEEEEEHHHHHSHHHHHHHHHHHHTT-TT CS
          Transketolase_N  90 qlgsktpGhPelghtagvevttGPLGqGianavglalaektlaatynkpgfdivdhytyvilgDgclmeGvsseasslagtlkLgk 175
                              q++s tpGhPe+++t+gve+ttGPLGqG +navg+a+ae+ l a++n+pg++i++hytyvi++Dg++meGv+sea+s+ag+++Lgk
  PHY93_09505|PHY93_09505  98 QWNSLTPGHPEYRKTPGVEATTGPLGQGFSNAVGMAMAEQALGARFNRPGHEIINHYTYVIASDGDMMEGVTSEAASFAGHQRLGK 183
                              ************************************************************************************** PP

                              EEEEEEESSEETTEEGGGT--S-HHHHHHHTT-EEEEETTTT-HHHHHHHHHHHHH-TTS-EEEEEE--TTTTSTTTTTSGGGTSS CS
          Transketolase_N 176 LivlyDdnkisidGeteisftedvakrfeaygWhvievedgedveaikaaieeakaekdkPsliklrtviGygspakagtedvhGa 261
                              LivlyD+n+i+i+G+t  +ftedv krf+ay+Wh+++ edg+++++i +a+e+ak+ kd+Psli + t iG+gsp k+++e++hG 
  PHY93_09505|PHY93_09505 184 LIVLYDQNRITIEGSTTLAFTEDVGKRFSAYEWHTQHIEDGNKISSIIKALEAAKEIKDRPSLIVVSTHIGFGSPHKQDSEKAHGE 269
                              ************************************************************************************** PP

                              ---HHHHHHHHHHTTS-TT-TS---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHHHHHTT--- CS
          Transketolase_N 262 pLgedevaalkkklGfdpeksfevpeevydaykekvaegakaeeeWeekfaaykkkapeeaaelerrlsgelP 334
                              pLg dev  +k++lG+    sf vp+e  ++++    +g+k +++W+e+f++y+  +p +a eler  + +lP
  PHY93_09505|PHY93_09505 270 PLGSDEVILTKQNLGWPIGPSFFVPDEALKHFRMALSRGKKDQSDWNERFNSYSLDFPALALELERVQKSQLP 342
                              ********************************************************************99998 PP

>> Transket_pyr  Transketolase, pyrimidine binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  129.4   0.0   2.5e-41   1.1e-37       2     176 ..     356     527 ..     355     528 .. 0.97

  Alignments for each domain:
  == domain 1  score: 129.4 bits;  conditional E-value: 2.5e-41
                              EEEHHHHHHHHHHHHHCTTTTEEEEESSTHHHHTTCHCCHHEGGT...TEGEEE--S-HHHHHHHHHHHHHHCTTEEEEEEEEHHH CS
             Transket_pyr   2 kiawrkaeaealaellkedpevvligaDvaggtfsvrkgllhdqg...egrvidsgisEqavlgfavGaalagpllviveaqFgdF 84 
                              +++ r a++ al+ l+   pe++++ aD+a +t + +++  ++++    g +i++gi+E+a+ g+ +G+ l+++ +++++a+F+ F
  PHY93_09505|PHY93_09505 356 EMSSRSASEFALNNLAVHIPELIGGAADLAPSTKTYIQDGGDFSAatrTGLNIHFGIREHAMGGILNGITLHKG-FIVYGATFLIF 440
                              678899***************************************8888899*********************6.*********** PP

                              HGGGHHGGHHHHHCHHHHHT--EE.EEESBSGGGSTTGTTTSBSSHHHHHHTSTTEEEE--SSHHHHHHHHHHHHHSSS.SEEEEE CS
             Transket_pyr  85 angAqiyadqairsgeakgklkvg.vvtrlpigvgedGpehqsaeleaflrlipglkvvrPsdpaetkhllrrairredrkPvvlr 169
                              ++    y+++ ir ++a  +l+v+ ++t+++i +gedGp+hq++e++  lr+ipgl+v+rP+d++et ++++  i+ + + P++l+
  PHY93_09505|PHY93_09505 441 SD----YMRPPIR-LAAMNELPVIyIFTHDSIALGEDGPTHQPVEQLLGLRSIPGLTVLRPADANETLACWEFIIA-NRSAPIALI 520
                              **....*******.**************************************************************.6689***** PP

                              E-SSEEC CS
             Transket_pyr 170 lpksllr 176
                              l++++l+
  PHY93_09505|PHY93_09505 521 LTRQKLP 527
                              ****986 PP

>> Transketolase_C  Transketolase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.8   0.0   8.7e-10   3.9e-06      11     124 .]     558     668 ..     551     668 .. 0.76

  Alignments for each domain:
  == domain 1  score: 26.8 bits;  conditional E-value: 8.7e-10
                              SEEEEEETTHHHHHHHHHHHHHTTTTCEEEEE-SEEESHHHHHHH..HHHHHHSEEEEEEEEESTTSHHHHHHHHHHHCCCTTCSS CS
          Transketolase_C  11 dvtlvayGsmveealeAaeeLekegisaeVvdlrtvkplDketil..esvkktgrlvvveeavkrgGigsevaaalaeeafdglda 94 
                              +++l+a+Gs+v+ ale+  +Le+  i ++Vv++++v+ +  +  +  e v  ++   +v ea ++ G  s +++   +        
  PHY93_09505|PHY93_09505 558 NLILLATGSEVHLALEVQRRLENISIAVRVVSIPSVNIFADNPDEyqEEVLPHKVPKLVIEAGRSLGWNSYLSKKSKK------SN 637
                              789***********************************9655433135555555555555666666665555555555......77 PP

                              EEEEEEE-SS.SSSSGHHHHHHHTT-SHHHH CS
          Transketolase_C  95 pvkrvggpdv.iepgsaeelekafgldaeki 124
                              +   v+g d  + +++ e + k++g+++e+i
  PHY93_09505|PHY93_09505 638 KLIEVVGVDRyGASAPGEVVMKEYGFNVENI 668
                              7778888888899999999999999999987 PP

>> DXP_synthase_N  1-deoxy-D-xylulose-5-phosphate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0   2.2e-07   0.00099      14     176 ..       5     196 ..       1     209 [. 0.74
   2 ?    2.9   0.0     0.012        52     246     273 .]     223     251 ..     204     251 .. 0.84

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 2.2e-07
           DXP_synthase_N  14 skeeleela.eelrefliesvsk.tggHlasnLgvveLtlalhyvf...d......tpkDklvwDvgHqa...YvhKiltgRk... 82 
                              +++el+ l+ + lr   +++v+k ++gH +  Lg+  ++ +l+  f   +      t++D++v   gH +   Y    ltg +   
  PHY93_09505|PHY93_09505   5 DQSELDLLCiNALRFLAVDAVEKaKSGHPGLPLGASPMAYTLWDRFlkyNpldpewTDRDRFVLSAGHGSallYSLLYLTGFNlsl 90 
                              56666666634566677777754257777777777777777776653321222333578999999999865557788899987444 PP

           DXP_synthase_N  83 dkfktlrqkgGls.gfpkrsEseyDafeagHsstsisaalGlavardlkge..........kkkvvaviGDgaltgGmafealnni 157
                              d++k+ rq + l+ g+p+ +  +    ++g  +   s a+G+a+a++  g           ++ +  +  Dg +  G++ ea   +
  PHY93_09505|PHY93_09505  91 DELKKFRQWNSLTpGHPEYRKTPGVEATTGPLGQGFSNAVGMAMAEQALGArfnrpgheiiNHYTYVIASDGDMMEGVTSEAASFA 176
                              67788899999976899999999999*******************9999975666665554455556778**************** PP

           DXP_synthase_N 158 gelk.kkllvilNdNemsis 176
                              g+++  kl+v++  N+ +i+
  PHY93_09505|PHY93_09505 177 GHQRlGKLIVLYDQNRITIE 196
                              99972577787888888775 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.012
           DXP_synthase_N 246 dGhdleelikvleevkkl.kgpvllhvvt 273
                              dG++++++ik+le +k++ ++p l+ v t
  PHY93_09505|PHY93_09505 223 DGNKISSIIKALEAAKEIkDRPSLIVVST 251
                              9****************935699998876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (680 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       380  (0.0211947); expected 358.6 (0.02)
Passed bias filter:                      378  (0.0210832); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.65u 0.24s 00:00:00.89 Elapsed: 00:00:00.42
# Mc/sec: 4897.91
//
Query:       PHY93_09510|PHY93_09510  [L=424]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.5e-76  256.9   0.5      2e-76  256.4   0.5    1.2  1  Glycoamylase  Putative glucoamylase
  ------ inclusion threshold ------
       0.02   14.0   0.0      0.028   13.5   0.0    1.2  1  DUF3131       Protein of unknown function (DUF3131)
      0.051   12.8   0.1      0.086   12.0   0.1    1.3  1  DUF2950       Protein of unknown function (DUF2950)


Domain annotation for each model (and alignments):
>> Glycoamylase  Putative glucoamylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  256.4   0.5   3.3e-80     2e-76       1     221 []     181     410 ..     181     410 .. 0.99

  Alignments for each domain:
  == domain 1  score: 256.4 bits;  conditional E-value: 3.3e-80
             Glycoamylase   1 nyewegynEalilyvlalgspthpveaevyeawatierdwenyegeevlksesgpLFvhqyshawldfrgiqdky....gvdYfen 82 
                              +y wegynEal+ly l+lgspt+p+++++++ w t++++wen+++ ++l++  gpLF+h yshaw+dfrgi+dk+    ++dYfen
  PHY93_09510|PHY93_09510 181 HYAWEGYNEALLLYTLGLGSPTFPLAEKSFAVW-TSTYQWENIYDVDFLYA--GPLFIHMYSHAWIDFRGIRDKFmrekKIDYFEN 263
                              699******************************.99***************..**************************9****** PP

             Glycoamylase  83 srratlaqreYaeenpkkfkgygedlWGltasdspeeekke.........gYaargapleeddGtisPtaalsslpfapeealaal 159
                              srra ++q+ Y+++np++fkgy++++WG+ta  +p+++k++          Yaarg+p+++ddGti+P+a l+sl f+  + ++a+
  PHY93_09510|PHY93_09510 264 SRRALKVQQIYCDRNPNNFKGYEKNCWGITADLGPDYQKQIingkpitfySYAARGVPYGPDDGTIAPWATLASLCFDETIGISAI 349
                              ************************************99999********************************************* PP

             Glycoamylase 160 relykelkdqllgrygfydafnptekegwvakrylgidqGpillmieNyrsgllwklfmksp 221
                              ++l+   ++q+lg+ygf+++fn +    w+ +r++++d G+++lm+eN+++++ w+l++k+p
  PHY93_09510|PHY93_09510 350 NHLR-VNYPQILGKYGFKCSFNDSIVPPWFPERFYALDLGISILMLENAQNNFTWNLMKKCP 410
                              ****.888***************************************************997 PP

>> DUF3131  Protein of unknown function (DUF3131)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   4.7e-06     0.028       5     131 ..      19     144 ..      15     160 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 4.7e-06
                  DUF3131   5 aAWsYfernyqpeTGLvnsvddyp.svTlWdvGsyllAlvaAreLglidkkefderirklLktLaklplfkgelPnkvyntrtlem 89 
                                ++Yf++  +p+ GL+ ++d+ + s+++ ++G +l     A e + ++++e+ +ri  +L+  a  +  ++e  ++ y+    ++
  PHY93_09510|PHY93_09510  19 DSFQYFVDLANPNNGLIPDTDNKEsSASIAGMGFALSCYPIAIEKKFMSRSEVIDRILVVLNFFADSEQSDNEN-ATGYKGFYYHF 103
                              569***************9987763899**************************************99998886.78899999999 PP

                  DUF3131  90 vdygnnpkeegigwsAlDigRllaaLkvlktrypeyadavea 131
                              +d +    + g + s +D+g lla +  + + y + +d ve+
  PHY93_09510|PHY93_09510 104 LDMKTGLRAGGCELSFVDTGFLLAGILCV-ATYFQGTDPVEK 144
                              999999999999************99999.667777766665 PP

>> DUF2950  Protein of unknown function (DUF2950)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.1   1.4e-05     0.086     174     224 ..      82     133 ..      78     138 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 1.4e-05
                  DUF2950 174 vakaakegkakkepyhGYyfriLk.aqGpsapgGaldyvvkgklikGfalva 224
                              +a+ ++++++++++y+G+y++ L+ + G  a g +l++v  g l++G   va
  PHY93_09510|PHY93_09510  82 FADSEQSDNENATGYKGFYYHFLDmKTGLRAGGCELSFVDTGFLLAGILCVA 133
                              56677788888************95679999999***********9987777 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (424 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       460  (0.0256568); expected 358.6 (0.02)
Passed bias filter:                      423  (0.0235931); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.25s 00:00:00.77 Elapsed: 00:00:00.43
# Mc/sec: 2984.16
//
Query:       PHY93_09515|PHY93_09515  [L=512]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    7.1e-60  202.7   0.6    9.3e-60  202.3   0.6    1.1  1  Pyr_redox_2     Pyridine nucleotide-disulphide oxidoreductase
    2.6e-28   98.5   0.1    6.5e-28   97.2   0.1    1.7  1  Pyr_redox_dim   Pyridine nucleotide-disulphide oxidoreductase
    2.5e-22   79.2   1.9    2.2e-16   60.2   0.0    2.9  2  Pyr_redox       Pyridine nucleotide-disulphide oxidoreductase
    3.3e-12   46.3   3.4    6.9e-09   35.4   0.0    2.2  2  Pyr_redox_3     Pyridine nucleotide-disulphide oxidoreductase
    5.9e-12   45.4   5.1      2e-07   30.5   5.0    2.9  2  GIDA            Glucose inhibited division protein A
    4.3e-09   36.2   1.2    7.9e-06   25.5   0.4    3.1  3  FAD_oxidored    FAD dependent oxidoreductase
    3.5e-08   33.4   4.4     0.0013   18.4   1.7    4.1  4  DAO             FAD dependent oxidoreductase
    1.1e-07   32.0   1.2    0.00014   22.0   0.8    2.6  2  NAD_binding_8   NAD(P)-binding Rossmann-like domain
    1.4e-07   31.1   0.8    0.00015   21.1   0.6    2.4  2  AlaDh_PNT_C     Alanine dehydrogenase/PNT, C-terminal domain
    2.8e-07   30.0   6.5     0.0002   20.6   5.8    3.1  3  FAD_binding_2   FAD binding domain
    4.5e-07   29.9   0.6      0.013   15.4   0.0    2.4  2  3HCDH_N         3-hydroxyacyl-CoA dehydrogenase, NAD binding 
    2.9e-06   26.3   8.5      8e-05   21.5   2.0    3.3  3  HI0933_like     HI0933-like protein
      1e-05   25.9   0.1      0.017   15.5   0.0    2.6  2  NAD_binding_7   Putative NAD(P)-binding
    4.1e-05   22.8   1.9       0.14   11.2   0.0    2.2  2  Lycopene_cycl   Lycopene cyclase protein
    9.6e-05   21.8   3.1       0.13   11.5   1.1    2.5  2  FAD_binding_3   FAD binding domain
    0.00056   19.5   0.3      0.015   14.8   0.2    2.5  2  UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family,
     0.0014   18.8   1.1        0.3   11.3   0.0    3.3  4  TrkA_N          TrkA-N domain
     0.0023   17.3   0.0        1.4    8.3   0.0    2.5  2  2-Hacid_dh_C    D-isomer specific 2-hydroxyacid dehydrogenase
     0.0036   16.2   0.6      0.057   12.3   1.0    2.1  2  Trp_halogenase  Tryptophan halogenase
     0.0036   17.8   0.1       0.85   10.1   0.0    2.5  2  XdhC_C          XdhC Rossmann domain
      0.004   16.4   0.3      0.012   14.9   0.1    1.9  2  Thi4            Thi4 family
  ------ inclusion threshold ------
      0.012   15.4   0.2        5.1    6.9   0.3    2.4  2  DFP             DNA / pantothenate metabolism flavoprotein
       0.16   12.1   1.4        5.4    7.1   0.0    2.6  2  AdoHcyase_NAD   S-adenosyl-L-homocysteine hydrolase, NAD bind


Domain annotation for each model (and alignments):
>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  202.3   0.6   1.2e-62   9.3e-60       1     292 [.      37     355 ..      37     357 .. 0.91

  Alignments for each domain:
  == domain 1  score: 202.3 bits;  conditional E-value: 1.2e-62
                              CSEEEE--SHHHHHHHHHHHHHTS-EEEEE...TTHCHHHCSHHHHCHHHHHHHHHHHHH........................HH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxx........................xx RF
              Pyr_redox_2   1 kdvvviGgGpAGlaaaltlaqagakvtlve...legtclnggcllskallgvaedaeias........................ev 59 
                              +++vviG+G AGl +a  +a  gakv+lve    +g cln+gc++sk+l+++a+  + ++                        e 
  PHY93_09515|PHY93_09515  37 YNIVVIGAGTAGLVTAAAAASLGAKVALVEknlMGGDCLNVGCIPSKTLARAARICSDIRqaanygvrgniklenfevdfeyvmER 122
                              689***************************9**********************99998889*********9999999999888866 PP

                              HHCHHHHCCCCHC....CT.CEEEEESCEEEEETEEECTCEEEEEESEEEE---EEE-BCTCTTC.TTBEECCSECHHHHHHCCSS CS
                              xxxxxxxxxxxxx....xx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2  60 vkklnqgielllg....ee.vvkidpgkkkvklekkkegdeekiaydklvlAtGssprdlgipGvaenvgklvrtldsaealklkl 140
                              v+++++++ +       +e +v+i +gk+ + ++++++     + ++k v+AtGs+pr  +ipG+ e++     +l++   ++l +
  PHY93_09515|PHY93_09515 123 VRSIRAQVATHDSaerfSElGVDIFFGKAIFLDQETVSVGSSILRFKKAVIATGSHPRHQKIPGMDEKY-----YLTNETVFNLTK 203
                              677777766666688885569****************999999**********************5555.....68********** PP

                              -TSEEEEES-SHHHHHHHHHHHHHT-EEEEEESSSSSSTTS-HHHHHHHHHHHHHTTEEEEESCEEEEEEETTE.EEE..EEETTS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxx..xxxxxx RF
              Pyr_redox_2 141 lpkrivvvGgGyiGvElAaalaklgkevtlveardrllraldkelsaaleealekeGvevklgtsvkeidgnge.kle..vvledg 223
                              lp r++v+GgG+ G+ElA+a+ ++g++vt+v+  + +l+  ++++++ l + + k+ ++++l+++v+ +  nge k+      ++ 
  PHY93_09515|PHY93_09515 204 LPPRLMVIGGGPLGCELAQAFQRFGSKVTIVQKTPLFLPREERDAAQLLSDSFAKDEIQIRLNSVVTGFSTNGEeKIIqiNNQNET 289
                              **************************************************************************744444455555 PP

                              CEEEESEEEE-S-EEES-HHCS.HCCT-EEEETTEEE--TTSBESSTTEEE-GGGCTECCSS--HHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 224 eeidadlvvvavGvrpstelle.eklglelderggivvdeflrtnvpgiyaiGDvaggkggpelaqaAvq 292
                              ++i +d +++++G+ p+ e l+ e+++++  +  gi v++fl+t+ p++ya+GDv+   + ++ +++A +
  PHY93_09515|PHY93_09515 290 QTIHVDAIITGIGRVPNIEDLNlEAANIKY-NEKGITVNDFLQTSNPNVYAAGDVC---SEYQYTHVADA 355
                              55****************************.8899*********************...77777777755 PP

>> Pyr_redox_dim  Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   97.2   0.1   8.3e-31   6.5e-28       1     109 [.     377     485 ..     377     486 .. 0.99

  Alignments for each domain:
  == domain 1  score: 97.2 bits;  conditional E-value: 8.3e-31
                              BEEEEESSSEEEEEES-HHHHHHHHSGEEEEEEEEECGHHHCHTTHTEEEEEEEEETTTTBEEEEEEECTTHHHHHHHHHHHHHTT CS
            Pyr_redox_dim   1 iptvvftdpevasvGlteeeAkaagieikvgkfpfkangralayaetkgfvKlvadaktgkvlGahivGpgageliqelavaikag 86 
                              ip +++tdpe+a +G+   +A+a g++ik +++p+ +++ra+a++e++gfvK+ +++ t+k+lGa+iv+ +age+i+e+++a+ ag
  PHY93_09515|PHY93_09515 377 IPWCTYTDPEIAHIGIYVRDARALGLPIKSYTIPMHQVDRAVADGEEQGFVKIHVREGTDKILGATIVARHAGEMINEVSLAMVAG 462
                              79************************************************************************************ PP

                              SBHHHHHTSBSSSSSTGGGGHCH CS
            Pyr_redox_dim  87 ltvedladtihihPtlsealkea 109
                              l  +d+ + ih +Pt +e +k+a
  PHY93_09515|PHY93_09515 463 LGLRDIEKVIHSYPTQAEGIKKA 485
                              ********************998 PP

>> Pyr_redox  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   1.5   1.4e-05     0.011       1      30 [.      38      67 ..      38      70 .. 0.95
   2 !   60.2   0.0   2.8e-19   2.2e-16       1      74 [.     207     279 ..     207     288 .. 0.93

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 1.4e-05
                             EEEEECSSHHHHHHHHHHHHTTSEEEEEES CS
                Pyr_redox  1 kvvvvGgGyiglElAgalaelgkkVtvver 30
                             ++vv+G+G+ gl  A+a+a lg+kV +ve 
  PHY93_09515|PHY93_09515 38 NIVVIGAGTAGLVTAAAAASLGAKVALVEK 67
                             59**************************96 PP

  == domain 2  score: 60.2 bits;  conditional E-value: 2.8e-19
                              EEEEECSSHHHHHHHHHHHHTTSEEEEEESSSSSSTTSSHHHHHHHHHHHHHTTEEEECSEEEEEEEEETTSEE CS
                Pyr_redox   1 kvvvvGgGyiglElAgalaelgkkVtvversdkllrllDeeaskilqeklekngievllntkveeiegsedgve 74 
                              +++v+GgG +g+ElA+a++++g+kVt+v+  + +l+ ++++a+++l +++ k  i+++ln++v+ + +++++ +
  PHY93_09515|PHY93_09515 207 RLMVIGGGPLGCELAQAFQRFGSKVTIVQKTPLFLPREERDAAQLLSDSFAKDEIQIRLNSVVTGFSTNGEE-K 279
                              689****************************************************************99986.3 PP

>> Pyr_redox_3  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.0   1.3   0.00023      0.18       1      32 [.      40      70 ..      40      76 .. 0.90
   2 !   35.4   0.0   8.8e-12   6.9e-09     116     305 .]     159     341 ..     154     341 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00023
              Pyr_redox_3  1 iIiGaGPaGlaaaielkkagledylilEkgni 32
                             ++iGaG aGl +a ++  +g  ++  +Ek+ +
  PHY93_09515|PHY93_09515 40 VVIGAGTAGLVTAAAAASLGA-KVALVEKNLM 70
                             79*******************.799***9865 PP

  == domain 2  score: 35.4 bits;  conditional E-value: 8.8e-12
              Pyr_redox_3 116 vetsketyeAkkviiAtGefdkPnklnipGeek.lvkhyskvkefhkyagqkvvViGgknSavDaAlelvrkgaeVtvvtrgseie 200
                              v+  ++ ++ kk +iAtG   +P+ ++ipG ++ +   + +v +++k+   +++ViGg+  +++ A  + r g++Vt+v ++    
  PHY93_09515|PHY93_09515 159 VSVGSSILRFKKAVIATGS--HPRHQKIPGMDEkYYLTNETVFNLTKL-PPRLMVIGGGPLGCELAQAFQRFGSKVTIVQKTPLFL 241
                              5555666777899*****9..**********95356666667777444.679******************************9888 PP

              Pyr_redox_3 201 keesdpsyslkpdienrleelvkeekikvlfnaevkeikekeeey..kvktedgkkvevkddvvlatGykpdlsflkk..slfeld 282
                               +e       + d  + l +  ++++i++  n+ v+  +++ ee   +++ ++++++   d ++  +G  p+++ l+   + ++++
  PHY93_09515|PHY93_09515 242 PRE-------ERDAAQLLSDSFAKDEIQIRLNSVVTGFSTNGEEKiiQINNQNETQTIHVDAIITGIGRVPNIEDLNLeaANIKYN 320
                              887.......4566777888888889**********999876665115566666665556666666*******9977633666665 PP

              Pyr_redox_3 283 edgrpvlteeteetnvpglflaG 305
                              e+g+    ++  +t  p+++ aG
  PHY93_09515|PHY93_09515 321 EKGIT--VNDFLQTSNPNVYAAG 341
                              55544..4456677789999998 PP

>> GIDA  Glucose inhibited division protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.5   5.0   2.5e-10     2e-07       2      59 ..      39      98 ..      38     191 .. 0.83
   2 !   12.0   0.0    0.0001      0.08       2      35 ..     208     240 ..     207     305 .. 0.74

  Alignments for each domain:
  == domain 1  score: 30.5 bits;  conditional E-value: 2.5e-10
                             EEEE-SSHHHHHHHHHHHHTT--EEEE..ES-GGGTT--SSSSEEE-TTHHHHHHHHHHH CS
                     GIDA  2 viViGgGhAGceAAlaaarlGakvlLi..thkldtiaelsCnpsiggiakgllvrEidal 59
                             ++ViG+G AG+  A+aaa lGakv+L+      +++++++C ps     ++ +  +i++ 
  PHY93_09515|PHY93_09515 39 IVVIGAGTAGLVTAAAAASLGAKVALVekNLMGGDCLNVGCIPSKTLARAARICSDIRQA 98
                             89*************************55555689************9999999999875 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 0.0001
                              EEEE-SSHHHHHHHHHHHHTT--EEEEES-GGGT CS
                     GIDA   2 viViGgGhAGceAAlaaarlGakvlLithkldti 35 
                              ++ViGgG  Gce A a  r G kv+++ +k+  +
  PHY93_09515|PHY93_09515 208 LMVIGGGPLGCELAQAFQRFGSKVTIV-QKTPLF 240
                              58***********************99.555444 PP

>> FAD_oxidored  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.5   0.4     1e-08   7.9e-06       2      36 ..      39      72 ..      38     139 .. 0.87
   2 !    6.1   0.0    0.0078       6.1       3      32 ..     209     238 ..     208     240 .. 0.94
   3 ?    1.5   0.0      0.19   1.5e+02      86     140 ..     245     298 ..     241     305 .. 0.75

  Alignments for each domain:
  == domain 1  score: 25.5 bits;  conditional E-value: 1e-08
             FAD_oxidored  2 vvVvGGgpaGvaAAiaAaraGakvlLveergvlGG 36
                             +vV+G+g+aG++ A aAa  Gakv+Lve++  +GG
  PHY93_09515|PHY93_09515 39 IVVIGAGTAGLVTAAAAASLGAKVALVEKN-LMGG 72
                             8**************************986.4555 PP

  == domain 2  score: 6.1 bits;  conditional E-value: 0.0078
             FAD_oxidored   3 vVvGGgpaGvaAAiaAaraGakvlLveerg 32 
                              +V+GGgp G+  A a  r G kv +v++++
  PHY93_09515|PHY93_09515 209 MVIGGGPLGCELAQAFQRFGSKVTIVQKTP 238
                              8**************************997 PP

  == domain 3  score: 1.5 bits;  conditional E-value: 0.19
             FAD_oxidored  86 pevakavleemlaeagvtvllntrlvevekegkriesvtveskegrktirAkvfi 140
                               + a+++l +  a++++++ ln+++++  ++g + + ++++++++++ti+ + +i
  PHY93_09515|PHY93_09515 245 ERDAAQLLSDSFAKDEIQIRLNSVVTGFSTNG-EEKIIQINNQNETQTIHVDAII 298
                              566778888888899***************98.5566666544467776655554 PP

>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   1.7   1.7e-06    0.0013       2      32 ..      39      70 ..      38      92 .. 0.92
   2 ?    3.6   0.0     0.053        41     146     205 ..     129     180 ..     117     204 .. 0.74
   3 ?    4.9   0.0     0.021        16       3      29 ..     209     237 ..     207     241 .. 0.87
   4 ?    3.9   0.1     0.043        33     149     197 ..     249     298 ..     244     308 .. 0.72

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 1.7e-06
                             EEEECTSHHHHHHHHHHHHTT..EEEEESSSST CS
                      DAO  2 vviiGGGiiGlstAyeLarrg..Vtllekgdia 32
                             +v+iG+G +Gl tA ++a  g  V+l+ek+   
  PHY93_09515|PHY93_09515 39 IVVIGAGTAGLVTAAAAASLGakVALVEKN-LM 70
                             9****************99999*******9.44 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.053
                              HHHHHHHHHHHHHTT-EEEESECEEEEEEEETCEEEEEEECTEEE.EEEEEEEE--GGGHH CS
                      DAO 146 akltaalaraaealGveilegtevtgleeedgkvwgverttpgen.daadavVnaaGawsd 205
                              + +t+  a+++ +lGv+i++g ++  l++e    + v     g+   ++++ V+a+G + +
  PHY93_09515|PHY93_09515 129 QVATHDSAERFSELGVDIFFG-KAIFLDQE---TVSV-----GSSiLRFKKAVIATGSHPR 180
                              556788899************.77778543...4445.....554335689******8865 PP

  == domain 3  score: 4.9 bits;  conditional E-value: 0.021
                              EEECTSHHHHHHHHHHHHTT..EEEEESS CS
                      DAO   3 viiGGGiiGlstAyeLarrg..Vtllekg 29 
                               +iGGG  G+  A + +r g  Vt++ k 
  PHY93_09515|PHY93_09515 209 MVIGGGPLGCELAQAFQRFGskVTIVQKT 237
                              69**************66699****9886 PP

  == domain 4  score: 3.9 bits;  conditional E-value: 0.043
                              HHHHHHHHHHTT-EEEESECEEEEEEEE.TCEEEEEEECTEEE.EEEEEEE CS
                      DAO 149 taalaraaealGveilegtevtgleeed.gkvwgverttpgen.daadavV 197
                              ++ l + +++  ++i++++ vtg++ ++ +k+ ++ ++ ++++  ++da++
  PHY93_09515|PHY93_09515 249 AQLLSDSFAKDEIQIRLNSVVTGFSTNGeEKIIQI-NNQNETQtIHVDAII 298
                              566777799999***********966445677777.333244434678887 PP

>> NAD_binding_8  NAD(P)-binding Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.0   0.8   1.8e-07   0.00014       1      36 [.      41      75 ..      41      99 .. 0.89
   2 !    7.7   0.0    0.0051         4       1      28 [.     210     237 ..     210     239 .. 0.95

  Alignments for each domain:
  == domain 1  score: 22.0 bits;  conditional E-value: 1.8e-07
                             EE--SHHHHHHHHHHHCCTEEEEEE-SSSSSSGGG- CS
            NAD_binding_8  1 IvGaGlsGlvaAylLakagfdvlllekrdrlGGraa 36
                             ++GaG +Glv+A+++a  g++v l+ek+   GG++ 
  PHY93_09515|PHY93_09515 41 VIGAGTAGLVTAAAAASLGAKVALVEKN-LMGGDCL 75
                             8*************************95.7788775 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.0051
                              EE--SHHHHHHHHHHHCCTEEEEEE-SS CS
            NAD_binding_8   1 IvGaGlsGlvaAylLakagfdvlllekr 28 
                              ++G+G  G+ +A++ ++ g +v++++k 
  PHY93_09515|PHY93_09515 210 VIGGGPLGCELAQAFQRFGSKVTIVQKT 237
                              8***********************9985 PP

>> AlaDh_PNT_C  Alanine dehydrogenase/PNT, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.1   0.6   1.9e-07   0.00015      30      61 ..      38      69 ..      30      83 .. 0.91
   2 !    7.5   0.0    0.0029       2.3      28      62 ..     205     239 ..     197     303 .. 0.77

  Alignments for each domain:
  == domain 1  score: 21.1 bits;  conditional E-value: 1.9e-07
                             EEEEESTSHHHHHHHHHHHHTT-EEEEEESSH CS
              AlaDh_PNT_C 30 kvlviGgGvaGlqAiatakglgakVtvlDvrp 61
                             +++viG+G+aGl  +a+a++lgakV +++++ 
  PHY93_09515|PHY93_09515 38 NIVVIGAGTAGLVTAAAAASLGAKVALVEKNL 69
                             69************************999885 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0029
                              --EEEEESTSHHHHHHHHHHHHTT-EEEEEESSHH CS
              AlaDh_PNT_C  28 pakvlviGgGvaGlqAiatakglgakVtvlDvrpa 62 
                              p + +viGgG  G + +++ +++g kVt++ + p 
  PHY93_09515|PHY93_09515 205 PPRLMVIGGGPLGCELAQAFQRFGSKVTIVQKTPL 239
                              56899************************988764 PP

>> FAD_binding_2  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.6   5.8   2.5e-07    0.0002       2      30 ..      39      67 ..      38      73 .. 0.95
   2 ?    4.6   0.0     0.018        14       3      32 ..     209     238 ..     207     241 .. 0.93
   3 ?    1.6   0.0      0.14   1.1e+02     370     405 ..     318     346 ..     242     353 .. 0.74

  Alignments for each domain:
  == domain 1  score: 20.6 bits;  conditional E-value: 2.5e-07
                             EEEE--SHHHHHHHHHHHHTTT-EEEEES CS
            FAD_binding_2  2 viViGsGlAGLaAAleaaeaGlkvavvek 30
                             ++ViG+G AGL+ A++aa  G+kva+vek
  PHY93_09515|PHY93_09515 39 IVVIGAGTAGLVTAAAAASLGAKVALVEK 67
                             79**************************9 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.018
                              EEE--SHHHHHHHHHHHHTTT-EEEEESSS CS
            FAD_binding_2   3 iViGsGlAGLaAAleaaeaGlkvavvekeq 32 
                               ViG+G  G+  A + ++ G kv++v k++
  PHY93_09515|PHY93_09515 209 MVIGGGPLGCELAQAFQRFGSKVTIVQKTP 238
                              69**************************97 PP

  == domain 3  score: 1.6 bits;  conditional E-value: 0.14
                              EEES-EEEBETTSBESTTEEESSBTEEE-STCEESS CS
            FAD_binding_2 370 hytmgGvetdengrvldadgqpipGLYAaGevaagg 405
                               y+  G+++++ +++        p+ YAaG v  + 
  PHY93_09515|PHY93_09515 318 KYNEKGITVNDFLQT------SNPNVYAAGDVC-SE 346
                              68888999******9......99*******997.54 PP

>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.7   0.3   0.00011     0.089       2      31 ..      39      68 ..      38     128 .. 0.71
   2 !   15.4   0.0   1.7e-05     0.013       3      56 ..     209     262 ..     207     301 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 0.00011
                             EEEE--SCCHHHHHHHHHHTT-EEEEE-S- CS
                  3HCDH_N  2 vaviGaGtmGagiaavfasagleVvlvdis 31
                             + viGaGt G   aa++as g +V lv+ +
  PHY93_09515|PHY93_09515 39 IVVIGAGTAGLVTAAAAASLGAKVALVEKN 68
                             89*************************986 PP

  == domain 2  score: 15.4 bits;  conditional E-value: 1.7e-05
                              EEE--SCCHHHHHHHHHHTT-EEEEE-S-HHHHHHHHHHHHHHHHCCTTTTSS- CS
                  3HCDH_N   3 aviGaGtmGagiaavfasagleVvlvdiseealekalekieksleklvekgklk 56 
                               viG G +G ++a++f + g +V++v+ ++ +l + ++ +++ l+   +k +++
  PHY93_09515|PHY93_09515 209 MVIGGGPLGCELAQAFQRFGSKVTIVQKTPLFLPREERDAAQLLSDSFAKDEIQ 262
                              69***********************************99999999998888877 PP

>> HI0933_like  HI0933-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   2.0     1e-07     8e-05       2      32 ..      38      68 ..      37      77 .. 0.92
   2 !    5.2   0.0    0.0094       7.4       3      33 ..     208     238 ..     206     243 .. 0.91
   3 ?    2.0   0.1     0.089        69     112     162 ..     249     301 ..     239     306 .. 0.73

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 1e-07
                             SEEEE--SHHHHHHHHHHHHTT--EEEE-SS CS
              HI0933_like  2 dviviGgGaAGlmaAisaakrgkrVllleka 32
                             +++viG+G AGl +A++aa+ g++V+l+ek+
  PHY93_09515|PHY93_09515 38 NIVVIGAGTAGLVTAAAAASLGAKVALVEKN 68
                             79***************************98 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.0094
                              EEEE--SHHHHHHHHHHHHTT--EEEE-SSS CS
              HI0933_like   3 viviGgGaAGlmaAisaakrgkrVlllekak 33 
                              ++viGgG+ G   A + ++ g++V+++ k++
  PHY93_09515|PHY93_09515 208 LMVIGGGPLGCELAQAFQRFGSKVTIVQKTP 238
                              68************************99875 PP

  == domain 3  score: 2.0 bits;  conditional E-value: 0.089
                              HHHHHHHHHHHT-EEE-S--EEEEECETTE..EEEEE..TTEEEEESEEEE-- CS
              HI0933_like 112 vdallkelkeagvklrletevksvekeedg.kfrvkt.kseeeleadklvlAt 162
                               ++l     + ++++rl++ v++++++ ++ +++++  +++++++ d+++  +
  PHY93_09515|PHY93_09515 249 AQLLSDSFAKDEIQIRLNSVVTGFSTNGEEkIIQINNqNETQTIHVDAIITGI 301
                              56788889999*************87766504455554455677777777555 PP

>> NAD_binding_7  Putative NAD(P)-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.8   0.1    0.0056       4.4       9      40 ..      38      69 ..      34     141 .. 0.77
   2 !   15.5   0.0   2.2e-05     0.017       9      58 ..     207     259 ..     204     339 .. 0.72

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0056
            NAD_binding_7  9 kvlvvGgGevAarkvrklleagakvtvvapev 40
                             +++v+G+G+ ++  +   ++ gakv +v +++
  PHY93_09515|PHY93_09515 38 NIVVIGAGTAGLVTAAAAASLGAKVALVEKNL 69
                             689*************************9986 PP

  == domain 2  score: 15.5 bits;  conditional E-value: 2.2e-05
            NAD_binding_7   9 kvlvvGgGevAarkvrklleagakvtvvapev....keeleelvklaeeelekd 58 
                              + +v+GgG+++ + ++ + ++g kvt+v ++       e  +  +l ++ + kd
  PHY93_09515|PHY93_09515 207 RLMVIGGGPLGCELAQAFQRFGSKVTIVQKTPlflpR-EERDAAQLLSDSFAKD 259
                              579**************************99765531.2224444444444333 PP

>> Lycopene_cycl  Lycopene cyclase protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.0   2.4   0.00085      0.66       2      31 ..      39      66 ..      38      74 .. 0.92
   2 !   11.2   0.0   0.00018      0.14       2      36 ..     208     240 ..     207     247 .. 0.88

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.00085
            Lycopene_cycl  2 vvviGaGpAglslAarlteakpglkvvlie 31
                             +vviGaG Agl  Aa    a  g kv l+e
  PHY93_09515|PHY93_09515 39 IVVIGAGTAGLVTAAAA--ASLGAKVALVE 66
                             8**************99..9********97 PP

  == domain 2  score: 11.2 bits;  conditional E-value: 0.00018
            Lycopene_cycl   2 vvviGaGpAglslAarlteakpglkvvlieaspsl 36 
                              ++viG+Gp g+ lA+    ++ g kv++++  p  
  PHY93_09515|PHY93_09515 208 LMVIGGGPLGCELAQAF--QRFGSKVTIVQKTPLF 240
                              68***************..**********877654 PP

>> FAD_binding_3  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.5   1.1   0.00017      0.13       3      32 ..      38      67 ..      36      71 .. 0.94
   2 !    9.5   0.0   0.00067      0.52       5      33 ..     209     237 ..     207     244 .. 0.92

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00017
                             EEEEE--SHHHHHHHHHHHHTTHHEEEEES CS
            FAD_binding_3  3 dVlIVGaGpaGlmlallLseaGvrvvlvek 32
                             +++++GaG aGl++a   ++ G +v lvek
  PHY93_09515|PHY93_09515 38 NIVVIGAGTAGLVTAAAAASLGAKVALVEK 67
                             578**************************9 PP

  == domain 2  score: 9.5 bits;  conditional E-value: 0.00067
                              EEE--SHHHHHHHHHHHHTTHHEEEEESS CS
            FAD_binding_3   5 lIVGaGpaGlmlallLseaGvrvvlvekr 33 
                              +++G+Gp G  la+  ++ G +v++v k 
  PHY93_09515|PHY93_09515 209 MVIGGGPLGCELAQAFQRFGSKVTIVQKT 237
                              69************************996 PP

>> UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.2     2e-05     0.015       2      35 ..      38      71 ..      37      96 .. 0.87
   2 ?    1.8   0.0       0.2   1.5e+02       2      30 ..     207     235 ..     206     239 .. 0.92

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 2e-05
                             EEEEE--STTHHHHHHHHHHCTSEEEEE-S-HHH CS
           UDPG_MGDP_dh_N  2 kisviGlGYvGlvtaavlaeighevigvDideek 35
                             +i+viG+G  Glvtaa+ a++g +v +v ++   
  PHY93_09515|PHY93_09515 38 NIVVIGAGTAGLVTAAAAASLGAKVALVEKNLMG 71
                             79**************************998655 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.2
                              EEEEE--STTHHHHHHHHHHCTSEEEEE- CS
           UDPG_MGDP_dh_N   2 kisviGlGYvGlvtaavlaeighevigvD 30 
                              ++ viG G +G   a ++ + g +v++v 
  PHY93_09515|PHY93_09515 207 RLMVIGGGPLGCELAQAFQRFGSKVTIVQ 235
                              578***********************995 PP

>> TrkA_N  TrkA-N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.2     0.053        41       1      30 [.      39      68 ..      39      70 .. 0.91
   2 ?   -2.3   0.0       6.8   5.3e+03      91     112 ..     125     146 ..     120     148 .. 0.82
   3 !   11.3   0.0   0.00039       0.3       2      40 ..     209     247 ..     208     266 .. 0.81
   4 ?   -2.5   0.1       7.5   5.8e+03      43      51 ..     290     298 ..     268     361 .. 0.57

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.053
                             EEEES-SHHHHHHHHHHHH.TTEEEEEEESS CS
                   TrkA_N  1 iiiiGlGrvGrslaeeLse.ggkdvvvidkd 30
                             i++iG+G+ G   a    + g  +v +++k+
  PHY93_09515|PHY93_09515 39 IVVIGAGTAGLVTAAAAASlGA-KVALVEKN 68
                             89*****************777.6****997 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 6.8
                              EEEEEESSGGGHHHHHHHTTSE CS
                   TrkA_N  91 kiiaraqdpehaellkklgadv 112
                               i a++ + + ae +++lg+d 
  PHY93_09515|PHY93_09515 125 SIRAQVATHDSAERFSELGVDI 146
                              5779999999999999999985 PP

  == domain 3  score: 11.3 bits;  conditional E-value: 0.00039
                              EEES-SHHHHHHHHHHHH.TTEEEEEEESSHHHHHHHHHT CS
                   TrkA_N   2 iiiGlGrvGrslaeeLse.ggkdvvvidkdeerveelree 40 
                              ++iG G +G +la+ +++ g+ +v+++ k +  + + +++
  PHY93_09515|PHY93_09515 209 MVIGGGPLGCELAQAFQRfGS-KVTIVQKTPLFLPREERD 247
                              79****************777.6*****999776665555 PP

  == domain 4  score: -2.5 bits;  conditional E-value: 7.5
                              EEEES-TTS CS
                   TrkA_N  43 evvvgdatd 51 
                              ++++ da  
  PHY93_09515|PHY93_09515 290 QTIHVDAII 298
                              444444433 PP

>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.5   0.0    0.0062       4.8      38      68 ..      38      68 ..      17      92 .. 0.85
   2 !    8.3   0.0    0.0018       1.4      38      70 ..     207     239 ..     190     304 .. 0.89

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.0062
                             EEEEES-SHHHHHHHHHHHHTT-EEEEESSS CS
             2-Hacid_dh_C 38 tvGiiGlGrIGqavakrlkafgmkviaydrs 68
                              + +iG+G  G  +a  ++++g+kv  ++++
  PHY93_09515|PHY93_09515 38 NIVVIGAGTAGLVTAAAAASLGAKVALVEKN 68
                             689**********************998776 PP

  == domain 2  score: 8.3 bits;  conditional E-value: 0.0018
                              EEEEES-SHHHHHHHHHHHHTT-EEEEESSSHH CS
             2-Hacid_dh_C  38 tvGiiGlGrIGqavakrlkafgmkviaydrskk 70 
                              ++ +iG G +G ++a+ ++ fg kv+++++++ 
  PHY93_09515|PHY93_09515 207 RLMVIGGGPLGCELAQAFQRFGSKVTIVQKTPL 239
                              5789***********************998875 PP

>> Trp_halogenase  Tryptophan halogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.3   1.0   7.4e-05     0.057       1      37 [.      38      71 ..      38      84 .. 0.89
   2 ?    1.3   0.0      0.15   1.2e+02       2      34 ..     208     237 ..     207     243 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 7.4e-05
                             EEEEE--SHHHHHHHHHHHHHTTTSSEEEEEE-SSS- CS
           Trp_halogenase  1 kivivGGGtaGwlaAaalakalkgklevtlveseeig 37
                             +iv++G+GtaG ++Aaa a  +   ++v lve++ +g
  PHY93_09515|PHY93_09515 38 NIVVIGAGTAGLVTAAAAASLG---AKVALVEKNLMG 71
                             69***************99999...89*****98665 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.15
                              EEEE--SHHHHHHHHHHHHHTTTSSEEEEEE-S CS
           Trp_halogenase   2 ivivGGGtaGwlaAaalakalkgklevtlvese 34 
                              ++++GGG+ G   A a+++ +    +vt+v++ 
  PHY93_09515|PHY93_09515 208 LMVIGGGPLGCELAQAFQRFG---SKVTIVQKT 237
                              689****************99...678888875 PP

>> XdhC_C  XdhC Rossmann domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   0.1      0.04        31       2      29 ..      40      67 ..      39     101 .. 0.93
   2 !   10.1   0.0    0.0011      0.85       1      39 [.     208     246 ..     208     293 .. 0.81

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.04
                             EEE--STTHHHHHHHHHHHTEEEEEEES CS
                   XdhC_C  2 vifGaghvaqalarlaaalgfrvtvvdp 29
                             v++Gag  +   a+ aa+lg +v +v++
  PHY93_09515|PHY93_09515 40 VVIGAGTAGLVTAAAAASLGAKVALVEK 67
                             89**********************9986 PP

  == domain 2  score: 10.1 bits;  conditional E-value: 0.0011
                              EEEE--STTHHHHHHHHHHHTEEEEEEES-GGGG-GGG- CS
                   XdhC_C   1 lvifGaghvaqalarlaaalgfrvtvvdpreefatkerf 39 
                              l+++G+g+ + +la+  +++g +vt+v++ + f  +e+ 
  PHY93_09515|PHY93_09515 208 LMVIGGGPLGCELAQAFQRFGSKVTIVQKTPLFLPREER 246
                              78***************************9987633333 PP

>> Thi4  Thi4 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.1   1.5e-05     0.012      19      55 ..      38      73 ..      19      89 .. 0.84
   2 ?   -2.8   0.0       3.7   2.9e+03      21      48 ..     209     235 ..     207     237 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 1.5e-05
                             EEEEE--SHHHHHHHHHHHHCTTS-EEEEESSSS--T CS
                     Thi4 19 DvvivGaGssGLtaayylakkpdlkvailersvspGG 55
                             ++v++GaG++GL +a   a   + kva++e+++  G 
  PHY93_09515|PHY93_09515 38 NIVVIGAGTAGLVTAAAAASL-GAKVALVEKNLMGGD 73
                             79************9999998.*********996554 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 3.7
                              EEE--SHHHHHHHHHHHHCTTS-EEEEE CS
                     Thi4  21 vivGaGssGLtaayylakkpdlkvaile 48 
                              +++G+G+ G   a+ + +  + kv+i+ 
  PHY93_09515|PHY93_09515 209 MVIGGGPLGCELAQAFQRF-GSKVTIVQ 235
                              799******9999998887.88888875 PP

>> DFP  DNA / pantothenate metabolism flavoprotein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.9   0.3    0.0066       5.1      28      53 ..      44      69 ..      40     101 .. 0.82
   2 ?    6.1   0.0     0.011       8.8      29      52 ..     214     237 ..     212     298 .. 0.88

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.0066
                             --HHHHHHHHHHHHTT-EEEEEE-S- CS
                      DFP 28 SGkmGyalAeaaaarGaeVtlvsgpv 53
                              G+ G+  A+aaa+ Ga+V lv  + 
  PHY93_09515|PHY93_09515 44 AGTAGLVTAAAAASLGAKVALVEKNL 69
                             5999******************9884 PP

  == domain 2  score: 6.1 bits;  conditional E-value: 0.011
                              -HHHHHHHHHHHHTT-EEEEEE-S CS
                      DFP  29 GkmGyalAeaaaarGaeVtlvsgp 52 
                              G  G++lA+a+ + G +Vt+v+  
  PHY93_09515|PHY93_09515 214 GPLGCELAQAFQRFGSKVTIVQKT 237
                              778******************865 PP

>> AdoHcyase_NAD  S-adenosyl-L-homocysteine hydrolase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.7      0.17   1.3e+02      25      53 ..      38      66 ..      34      71 .. 0.91
   2 ?    7.1   0.0    0.0069       5.4      27     124 ..     209     315 ..     205     334 .. 0.69

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.17
                             EEEEE--SHHHHHHHHHHHHCT-EEEEE- CS
            AdoHcyase_NAD 25 vavvaGyGdvGkGcaaslkglGarvivte 53
                             ++vv+G G  G  +aa+  +lGa+v + e
  PHY93_09515|PHY93_09515 38 NIVVIGAGTAGLVTAAAAASLGAKVALVE 66
                             589**********************9887 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0069
                              EEE--SHHHHHHHHHHHHCT-EEEEE-S-HHH.......HHHHHCTT-EE--HHHCTTT-SEEEE-SSSSSSB-HH...HHCCS-T CS
            AdoHcyase_NAD  27 vvaGyGdvGkGcaaslkglGarvivtevdPic.......alqaameGfevvtleevvkkadivvtttGnkdiitle...hlkkmkd 102
                              +v+G G +G   a++++ +G++v++ +  P+        a q + + f   +++  ++++    +t G + ii+ +   + ++++ 
  PHY93_09515|PHY93_09515 209 MVIGGGPLGCELAQAFQRFGSKVTIVQKTPLFlpreerdAAQLLSDSFAKDEIQIRLNSVVTGFSTNGEEKIIQINnqnETQTIHV 294
                              6889999*******************999985222222366666666666655555555555556899999998651114567888 PP

                              TEEEEE-SSTTTTBTHHHHHTT CS
            AdoHcyase_NAD 103 daivcniGhfdseidvaalean 124
                              dai++ iG   +  d+ +lea 
  PHY93_09515|PHY93_09515 295 DAIITGIGRVPNIEDL-NLEAA 315
                              9999999998653333.34444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (512 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       646  (0.036031); expected 358.6 (0.02)
Passed bias filter:                      556  (0.0310112); expected 358.6 (0.02)
Passed Vit filter:                        68  (0.00379274); expected 17.9 (0.001)
Passed Fwd filter:                        23  (0.00128284); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              23  [number of targets reported over threshold]
# CPU time: 0.65u 0.24s 00:00:00.89 Elapsed: 00:00:00.40
# Mc/sec: 3795.83
//
Query:       PHY93_09520|PHY93_09520  [L=459]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.6e-15   55.8   0.0    1.2e-14   55.0   0.0    1.4  1  Peptidase_C1     Papain family cysteine protease
    5.6e-07   28.7   0.1     0.0051   15.6   0.1    2.2  2  Peptidase_C1_2   Peptidase C1-like family
  ------ inclusion threshold ------
      0.048   13.0   0.0        2.8    7.3   0.0    2.2  2  Guanylate_cyc_2  Guanylylate cyclase


Domain annotation for each model (and alignments):
>> Peptidase_C1  Papain family cysteine protease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.0   0.0     2e-18   1.2e-14       2     200 ..      56     280 ..      55     293 .. 0.75

  Alignments for each domain:
  == domain 1  score: 55.0 bits;  conditional E-value: 2e-18
                              TSCEETTTTTTGSG---B-TSSBTHHHHHHHHHHHHHHHHHHSSS---B-HHHHHHHSTTTST..GGGBB-HHHHHHHHHHTEBEB CS
             Peptidase_C1   2 pesvDwrekggavtpvkdqgsCGsCWafsavgaledrlaiktkkklvslSeqelvdCskeene..gCnGGlmenafeyikkggivt 85 
                              p+ vD ++    +tpvk+qg+ G C  f  ++ +e+ ++    + +++lSe+ l   +k+  +  + +G  + + + ++kk+gi  
  PHY93_09520|PHY93_09520  56 PRIVDLKN---DMTPVKNQGNRGTCTFFTVMAIVEASIKKDL-QLETNLSEEYLNYKTKSAGFfaDDEGSNVGYNLIVLKKNGILV 137
                              66777777...47***********************999999.799****9988665553333677888888889999999***** PP

                              TTTS--S.....SSCS..............SS-CGCGGGSE.....EBEESEEEE..EESSBHHHHHHHHHHHSSEEEEEECCSHH CS
             Peptidase_C1  86 ekdypYk.....akeg..............gkCkkkkkkek.....vakikgygk..vkenseealkkalakngPvsvaidaseed 145
                              e+d  Y+     +  +              ++C ++++ ++     v + +g++   v++n++e +k    +++P+s  + ++e+ 
  PHY93_09520|PHY93_09520 138 ESDWAYQpswfvK--SlpcsqfkstdaaapKNCFSHNRPTDnimkkVINADGFEVinVPSNTNEVIKFLAIEKRPLSFGLIVNENG 221
                              ****999666540..1455556666778886776663333335556555565554228888888899888899***********85 PP

                              HHTEESSEESST....SCET...SS-EEEEEEEEEEEETTEEEEEEE-SBTTTSTBTTEEEE CS
             Peptidase_C1 146 fqlYksGvyket....ecsk...telnhavlivGygvengkkyWivkNsWgtdwgekGYiri 200
                              +   ++ +++++    ec k   +   hav+i Gy+ +  kk + +kNsWg++wg++GY  +
  PHY93_09520|PHY93_09520 222 WPE-SGDIFYNDalreECLKtpeACGGHAVTITGYDMD--KKIFFFKNSWGEEWGHEGYGTL 280
                              433.33344443355555554446679*********99..78999**************776 PP

>> Peptidase_C1_2  Peptidase C1-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.8   0.0   2.5e-05      0.15      49     104 ..      59     111 ..      26     119 .. 0.81
   2 !   15.6   0.1   8.5e-07    0.0051     351     405 ..     238     288 ..     229     295 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 2.5e-05
                              -SEE-SS-S--B--BSSTHHHHHHHHHHHHHHHHHCT-SS--B-HHHHHHHHHHHH CS
           Peptidase_C1_2  49 FstevetdevtnqkqsGRCWlFaalnvlRlkllkklklkefelsqaylffwDklEk 104
                               + + +  +v nq + G C +F+ + ++  +++k+l+l++ +ls  yl++  k   
  PHY93_09520|PHY93_09520  59 VDLKNDMTPVKNQGNRGTCTFFTVMAIVEASIKKDLQLET-NLSEEYLNYKTK--S 111
                              444555569*****************************86.9*******9554..4 PP

  == domain 2  score: 15.6 bits;  conditional E-value: 8.5e-07
                              HHHTTS----EEEEEEEEEE-TTSSEEEEEEE-SBTTTSTBTTEEEEEHHHHHHH CS
           Peptidase_C1_2 351 rldygeslmtHamvltgvdvdddgkvtkwkvEnsWGedsGekGyfvmsdewfdey 405
                               l++ e+   Ha+++tg d+d  +k+  +   nsWGe+ G++Gy +++ + +d +
  PHY93_09520|PHY93_09520 238 CLKTPEACGGHAVTITGYDMD--KKI--FFFKNSWGEEWGHEGYGTLTFDTLDRF 288
                              5778888899**********4..444..4456************99887777766 PP

>> Guanylate_cyc_2  Guanylylate cyclase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3   0.0   0.00046       2.8     151     181 ..     236     266 ..     219     285 .. 0.89
   2 ?    3.3   0.0    0.0075        45     150     188 ..     331     370 ..     308     382 .. 0.71

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.00046
          Guanylate_cyc_2 151 rkllsrkseytGhyvvlcGydakekkllyrn 181
                              +++l++ +   Gh v ++Gyd+++k ++++n
  PHY93_09520|PHY93_09520 236 EECLKTPEACGGHAVTITGYDMDKKIFFFKN 266
                              57888888999****************9998 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.0075
          Guanylate_cyc_2 150 lrkllsrkseytGhyvvlcGydakekkllyrnPassd.kv 188
                                k +++ +  tGh++ ++ y  k+     ++P+ ++ ++
  PHY93_09520|PHY93_09520 331 SIKATGKVQGATGHFLFVSSYLVKQPGTSLEDPSDKNvEI 370
                              45777888899**********************8765333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (459 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       370  (0.020637); expected 358.6 (0.02)
Passed bias filter:                      310  (0.0172904); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.36
# Mc/sec: 3789.25
//
Query:       PHY93_09525|PHY93_09525  [L=151]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (151 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       327  (0.0182386); expected 358.6 (0.02)
Passed bias filter:                      205  (0.011434); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.34u 0.22s 00:00:00.56 Elapsed: 00:00:00.34
# Mc/sec: 1326.02
//
Query:       PHY93_09530|PHY93_09530  [L=161]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.3e-05   23.2  25.3    6.6e-05   22.6  25.3    1.3  1  Gly-zipper_OmpA  Glycine-zipper domain
     0.0026   17.5  27.6     0.0035   17.0  27.6    1.2  1  Gly-zipper_YMGG  YMGG-like Gly-zipper
  ------ inclusion threshold ------
       0.23   11.0   3.3       0.28   10.8   3.3    1.1  1  DUF533           Protein of unknown function (DUF533)
        1.1    8.9   8.2        1.5    8.5   8.2    1.1  1  TraT             Enterobacterial TraT complement resistance p


Domain annotation for each model (and alignments):
>> Gly-zipper_OmpA  Glycine-zipper domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.6  25.3   1.5e-08   6.6e-05       1      44 []      74     112 ..      74     112 .. 0.95

  Alignments for each domain:
  == domain 1  score: 22.6 bits;  conditional E-value: 1.5e-08
          Gly-zipper_OmpA   1 vegAavGAalGAaaGAavGaitGsaGtGAaiGAasGavaGllrg 44 
                              v +A++G+alG aaGA++G+ +     GA +GA++G+++G+++g
  PHY93_09530|PHY93_09530  74 VGTAVAGTALGTAAGALMGGRQ-----GASVGAGVGLIGGSMAG 112
                              578******************9.....*************9976 PP

>> Gly-zipper_YMGG  YMGG-like Gly-zipper
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0  27.6   7.8e-07    0.0035       2      45 ..      72     113 ..      71     114 .. 0.96

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 7.8e-07
                              ...XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX- CS
          Gly-zipper_YMGG   2 gavrGAaiGAaaGAvvGaliGsgggkGAaiGAaaGalaGgaiGa 45 
                              +av+ A++G+a+G ++Gal G  g++GA +GA++G ++G ++G 
  PHY93_09530|PHY93_09530  72 NAVGTAVAGTALGTAAGALMG--GRQGASVGAGVGLIGGSMAGS 113
                              89*******************..99*****************95 PP

>> DUF533  Protein of unknown function (DUF533)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   3.3   6.1e-05      0.28       4      54 ..      79     138 ..      76     161 .] 0.66

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 6.1e-05
                   DUF533   4 ggaaaggllglllGskkgrklgkkalklG.glAalGglAykayq.nwqanqq.......e 54 
                              +g+a+g ++g+l+G+++g ++g+++  +G ++A  G+  y+a   +w+ +++       +
  PHY93_09530|PHY93_09530  79 AGTALGTAAGALMGGRQGASVGAGVGLIGgSMAGSGQAGYEARDvQWSYDNAyaqcmyaK 138
                              7899999************999988766537999**999999776554444333344430 PP

>> TraT  Enterobacterial TraT complement resistance protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.5   8.2   0.00033       1.5      80     124 ..      65     111 ..      55     128 .. 0.79

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.00033
                     TraT  80 aaegalkaGfggalagaaagaaigaanggsagaalgggl..vGglvg 124
                              a+++a +++ g+a+ag a+g a+ga++gg +ga +g+g+  +Gg ++
  PHY93_09530|PHY93_09530  65 APKSASANAVGTAVAGTALGTAAGALMGGRQGASVGAGVglIGGSMA 111
                              56788889999******************999999887644665544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (161 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       587  (0.0327403); expected 358.6 (0.02)
Passed bias filter:                      373  (0.0208043); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.40u 0.17s 00:00:00.57 Elapsed: 00:00:00.33
# Mc/sec: 1442.63
//
Query:       PHY93_16695|PHY93_16695  [L=117]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    7.5e-29   99.8   2.0    7.5e-29   99.8   2.0    1.5  2  Oxidored_q4  NADH-ubiquinone/plastoquinone oxidoreductase, ch


Domain annotation for each model (and alignments):
>> Oxidored_q4  NADH-ubiquinone/plastoquinone oxidoreductase, chain 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.7      0.28   5.1e+03      75      83 ..       4      12 ..       1      16 [. 0.43
   2 !   99.8   2.0   4.2e-33   7.5e-29       2      99 .]      18     117 .]      17     117 .] 0.95

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 0.28
                             HHHHHHHHH CS
              Oxidored_q4 75 iemllFlli 83
                             +++++F++i
  PHY93_16695|PHY93_16695  4 ASFMVFFVI 12
                             333333333 PP

  == domain 2  score: 99.8 bits;  conditional E-value: 4.2e-33
                              HHHHHHHCHSS-----HHHHS-SSSS--SS---.--HHCHHHHHHHHHHHHHHHHHHHHHHHHSST....HHHHHHHHHHHHHHHH CS
              Oxidored_q4   2 llllllsallgpkkpnkeklspYEcGfepvgearlrfsvkfylvallFliFDvevvflfpwavslkel..glfgliemllFllill 85 
                              ++ll +s+llg+k++ +++++ YE+G++pvg+a  ++++kfyl+a+lFl+FDve+vfl+pwa+++k++  + f ++ +++F++i+l
  PHY93_16695|PHY93_16695  18 AVLLGISSLLGQKRKIAREMDIYESGVNPVGSATRQYDIKFYLTAILFLLFDVEIVFLLPWALAYKDSsnHDFMIVGFIFFMAIML 103
                              578999*****999***************************************************998555677899********* PP

                              HHHHHHHHH-S-XX CS
              Oxidored_q4  86 vglvYewkkgaLeW 99 
                              vg++++++++aL+W
  PHY93_16695|PHY93_16695 104 VGYIFVINSKALKW 117
                              ************** PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (117 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       884  (0.0493056); expected 358.6 (0.02)
Passed bias filter:                      374  (0.0208601); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.38u 0.20s 00:00:00.58 Elapsed: 00:00:00.35
# Mc/sec: 999.91
//
Query:       PHY93_09535|PHY93_09535  [L=280]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.3e-27   95.8   0.0    2.7e-27   95.6   0.0    1.1  1  AP_endonuc_2  Xylose isomerase-like TIM barrel
  ------ inclusion threshold ------
      0.056   13.5   0.2       0.12   12.5   0.2    1.5  1  APC_N_CC      Coiled-coil N-terminus of APC, dimerisation dom


Domain annotation for each model (and alignments):
>> AP_endonuc_2  Xylose isomerase-like TIM barrel
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   95.6   0.0     3e-31   2.7e-27       2     210 .]      19     239 ..      18     239 .. 0.91

  Alignments for each domain:
  == domain 1  score: 95.6 bits;  conditional E-value: 3e-31
                              HHHHHCT-SEEEEECCTCSHHHHC..HHHHHHHHHHHHHHTTSEEEEEEECCCHSTCTHCHTTCS...HHHHHHHHHHHHHHHHHH CS
             AP_endonuc_2   2 aaaaeaGfdgvElfgrdlvpvsel..sdeelrelrkaldelglriaslslftrfgypdederear...reesvdalkraielaaaL 82 
                              ++a ++G+ ++++fg+++++++ +  +++ ++ ++ a+++  ++    s + +  y++   +  +   +++s+++l +++++a+ +
  PHY93_09535|PHY93_09535  19 EKAVAIGAHTIQIFGSSPRQWTTRfpDQHSIDLYKDAIKKSKIT----SVYLHAPYLVNL-GTFKddhWNKSIKNLIDHLQIAKLI 99 
                              68999***************************************....444444444332.33333578888************** PP

                              TBSEEEEEBCCGBCTTTSGHHHHHHHHHHHHHHHHHHHHHHTSEEEEE--TTTTSSSTC..HHHHHHHHHHTTTTEEEEEEHHHHH CS
             AP_endonuc_2  83 GapllvlhpGtagagpkgseeeawerlaeslneladyaekegvklalEtlagsgvelgd..eelarlldavdspnvgvclDtgHll 166
                              +a  l++h+Gt  ++p++s+   +er+a +++e+++   k   +l++E+ ag  +  g+  e+la+++++v+s +v++clDt+H+l
  PHY93_09535|PHY93_09535 100 NANGLIFHVGT-ISPPEKSRTLSLERAALGMKEVLKQV-KGKTQLIMENSAGGSNKIGYsiEDLAAIFKKVKSSRVKICLDTAHAL 183
                              **********5.5************************5.45599****************************************** PP

                              HH.......TTTHHHHHHHHHGG.....EEEEEE.EESSTTTTSSTTEESTTSSSS CS
             AP_endonuc_2 167 ia.......eedvddalraladr.....ikhvHikDakgdlgagrdrhvpigeGei 210
                               a          + +++++++d+     ++ +Hi+D+k + ++++d h++ig+G+i
  PHY93_09535|PHY93_09535 184 EAgliesysPPLIKKLFDEFDDKiglehLSVLHINDSKTPYNSHHDLHENIGKGHI 239
                              *******99888999999999999999***************************97 PP

>> APC_N_CC  Coiled-coil N-terminus of APC, dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.2   1.3e-05      0.12      34      51 ..     122     139 ..     115     140 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 1.3e-05
                 APC_N_CC  34 LEtetsgmKevlkqlqgk 51 
                              LE  ++gmKevlkq++gk
  PHY93_09535|PHY93_09535 122 LERAALGMKEVLKQVKGK 139
                              9*************9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (280 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       389  (0.0216967); expected 358.6 (0.02)
Passed bias filter:                      355  (0.0198003); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.18s 00:00:00.63 Elapsed: 00:00:00.35
# Mc/sec: 2375.54
//
Query:       PHY93_09540|PHY93_09540  [L=364]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   8.9e-173  574.2   1.5     1e-172  574.1   1.5    1.0  1  tRNA_U5-meth_tr  tRNA (Uracil-5-)-methyltransferase
    3.7e-05   23.2   0.0    9.2e-05   22.0   0.0    1.6  2  Methyltransf_4   Putative methyltransferase
    0.00021   21.9   0.0    0.00046   20.8   0.0    1.6  1  Methyltransf_25  Methyltransferase domain
     0.0013   18.2   0.0     0.0018   17.7   0.0    1.2  1  PrmA             Ribosomal protein L11 methyltransferase (Prm
     0.0021   17.6   0.0      0.017   14.7   0.0    2.4  3  Methyltransf_15  RNA cap guanine-N2 methyltransferase
     0.0038   16.8   0.0     0.0071   15.9   0.0    1.4  1  MTS              Methyltransferase small domain
     0.0053   16.5   0.0     0.0089   15.8   0.0    1.4  1  Met_10           Met-10+ like-protein
  ------ inclusion threshold ------
      0.013   15.3   0.0      0.027   14.3   0.0    1.6  1  Methyltransf_31  Methyltransferase domain
      0.016   15.9   0.0      0.037   14.7   0.0    1.6  1  Methyltransf_11  Methyltransferase domain
      0.022   13.9   0.0      0.041   13.1   0.0    1.4  1  Methyltrans_SAM  S-adenosylmethionine-dependent methyltransfe
      0.028   13.5   0.0      0.046   12.8   0.0    1.3  1  DREV             DREV methyltransferase
      0.072   13.8   0.0       0.23   12.2   0.0    1.9  2  Methyltransf_12  Methyltransferase domain


Domain annotation for each model (and alignments):
>> tRNA_U5-meth_tr  tRNA (Uracil-5-)-methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  574.1   1.5  6.8e-176    1e-172       1     356 [.      10     364 .]      10     364 .] 0.99

  Alignments for each domain:
  == domain 1  score: 574.1 bits;  conditional E-value: 6.8e-176
          tRNA_U5-meth_tr   1 eyeaqleekksrlkkllaefeapelevfespeehyrlraefrlwheeddlyyimfdqktkkkirvdefdaaselinelmkallaal 86 
                              +y++qleek ++lk+l+a +  pe+evf+s+  hyr+r+efr+whe+ddlyy+mfd+++ ++ir ++f  as+line+m al+++l
  PHY93_09540|PHY93_09540  10 NYDSQLEEKLKKLKQLFAVYPIPEIEVFASEPTHYRMRTEFRVWHEGDDLYYYMFDKDKDQNIRTEQFLPASTLINEMMIALMDEL 95 
                              599*********************************************************************************** PP

          tRNA_U5-meth_tr  87 kqdeklreklfqvdflstlsgellvsllyhkklddewkeaaealkdkleaqeldvnligrarkkkivldkdyveeklevadrelvy 172
                              + +  lr+klfqvdflstlsge+lvsllyh++l+ +w + a++lk+kl  + ++vnligrark++i++d+++v e+l++a++ l+y
  PHY93_09540|PHY93_09540  96 RPNLVLRHKLFQVDFLSTLSGEILVSLLYHRQLNTDWIDVAHKLKEKLALK-FKVNLIGRARKQQIIIDQEFVLEQLPLAGKILTY 180
                              **********************************************99877.********************************** PP

          tRNA_U5-meth_tr 173 rqvensftqPnaavnekmleWalevtqeskgdllelycGnGnfslalarnfekvlateiakssveaaqyniaankidnvqiirlsa 258
                              +q+ensftqPn++v++kmleWa++vt++s+gdllelycGnGnfs+ala nf++vlate+ak+sveaaq+nia n+i+n+qiir+sa
  PHY93_09540|PHY93_09540 181 KQIENSFTQPNGRVAIKMLEWAIDVTKNSTGDLLELYCGNGNFSIALAPNFKNVLATELAKPSVEAAQFNIALNNIKNLQIIRMSA 266
                              ************************************************************************************** PP

          tRNA_U5-meth_tr 259 eeltealkkkrefrrlkgidlksyafetifvdPPraGldketvklvkkyerilyiscnPetlkenleelsethrverlalfdqfpy 344
                              e++++a+++kre++rlkgidlksy+f ti+vdPPraG+d++t+ lv++y+rilyiscnP+tl +nl++l+eth ++r+alfdqfpy
  PHY93_09540|PHY93_09540 267 EDFSDAMSGKREYTRLKGIDLKSYEFTTILVDPPRAGIDPNTLALVQDYKRILYISCNPNTLIDNLSTLTETHCIKRIALFDQFPY 352
                              ************************************************************************************** PP

          tRNA_U5-meth_tr 345 thhlesGvllek 356
                              t+h+e+Gv+le+
  PHY93_09540|PHY93_09540 353 TDHMECGVWLER 364
                              **********97 PP

>> Methyltransf_4  Putative methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.0       4.2   6.2e+03     115     133 ..     128     146 ..     123     158 .. 0.76
   2 !   22.0   0.0   6.1e-08   9.2e-05       5      66 ..     213     271 ..     209     283 .. 0.89

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 4.2
                              EEESHHHHHHHHHHHHHCS CS
           Methyltransf_4 115 laTDveeyaeemlkvleee 133
                              l TD+ ++a++  ++l+ +
  PHY93_09540|PHY93_09540 128 LNTDWIDVAHKLKEKLALK 146
                              6799999988887777665 PP

  == domain 2  score: 22.0 bits;  conditional E-value: 6.1e-08
                              EEEET-TTSHHHHHHHHHSTTSEEEEEES-HHHHHHHHHHHHHCTTSSEEEEES-CCCHHHH CS
           Methyltransf_4   5 vleiGcGkGeflvalAkknPdknflGiEirvkvvakvlkkiealelkNlrilrgdalkvlle 66 
                              +le+ cG+G+f +alA+++  kn+l+ E+ +++v+++  +i+ +++kNl+i+r  a + +++
  PHY93_09540|PHY93_09540 213 LLELYCGNGNFSIALAPNF--KNVLATELAKPSVEAAQFNIALNNIKNLQIIRMSA-EDFSD 271
                              68999************98..89*******************************99.44444 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.8   0.0   3.1e-07   0.00046       2      60 ..     214     271 ..     213     279 .. 0.93

  Alignments for each domain:
  == domain 1  score: 20.8 bits;  conditional E-value: 3.1e-07
                              EEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTT.TEEEEESBCCGBSS CS
          Methyltransf_25   2 LdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeegl.nvefvqgdaedlpf 60 
                              L+l cG+G++++ala ++  ++v+++++++  +eaa+ +++ +++ n+++++++aed++ 
  PHY93_09540|PHY93_09540 214 LELYCGNGNFSIALAPNF--KNVLATELAKPSVEAAQFNIALNNIkNLQIIRMSAEDFSD 271
                              8999*************9..9*******************999999*********99874 PP

>> PrmA  Ribosomal protein L11 methyltransferase (PrmA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   0.0   1.2e-06    0.0018     153     218 ..     197     265 ..     188     278 .. 0.76

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 1.2e-06
                     PrmA 153 ealekl....vkegeevlDvGtGSGiLaiaaakLgakkvvavDiDevAvkvakeNaelNkvea.klevals 218
                              ++le       +++  +l + +G G  +ia a  + k+v+a+ + + +v++a+ N++lN++++ ++ + +s
  PHY93_09540|PHY93_09540 197 KMLEWAidvtKNSTGDLLELYCGNGNFSIALA-PNFKNVLATELAKPSVEAAQFNIALNNIKNlQI-IRMS 265
                              55554422213344489999*********976.599**************************9655.4443 PP

>> Methyltransf_15  RNA cap guanine-N2 methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0       1.1   1.6e+03     107     131 ..      64      88 ..      21     115 .. 0.67
   2 ?   -1.0   0.0      0.77   1.2e+03      19      70 ..     107     160 ..     102     187 .. 0.69
   3 !   14.7   0.0   1.1e-05     0.017       4      85 ..     213     305 ..     210     340 .. 0.87

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 1.1
          Methyltransf_15 107 lkeslklskniilfLPrnsdlnqla 131
                              + ++     +   fLP ++ +n++ 
  PHY93_09540|PHY93_09540  64 FDKDKDQNIRTEQFLPASTLINEMM 88 
                              4333333344447899988888875 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.77
          Methyltransf_15  19 alvfekviaieinleklacaqhNaevYgvsdkitlvlgdvfe..llaklkleki 70 
                              +  f ++ + ei  + l+  q N+   +v++k++ +l+  f+  l+ + + ++i
  PHY93_09540|PHY93_09540 107 QVDFLSTLSGEILVSLLYHRQLNTDWIDVAHKLKEKLALKFKvnLIGRARKQQI 160
                              556778888888889999999999999999999887765555444444444444 PP

  == domain 3  score: 14.7 bits;  conditional E-value: 1.1e-05
          Methyltransf_15   4 ilDlfsGaGGnviqfalvfekviaieinleklacaqhNaevYgvsd.k.itlvlgdvfe.........llaklklekikvdlvflS 78 
                              +l l++G G  +i++a +f++v a e  +  ++ aq N  + ++++ + i +   d+ +          l+ + l++ ++  +++ 
  PHY93_09540|PHY93_09540 213 LLELYCGNGNFSIALAPNFKNVLATELAKPSVEAAQFNIALNNIKNlQiIRMSAEDFSDamsgkreytRLKGIDLKSYEFTTILVD 298
                              6899**************************************99652324445555555999999999899999999999999999 PP

          Methyltransf_15  79 pPwGGps 85 
                              pP  G++
  PHY93_09540|PHY93_09540 299 PPRAGID 305
                              9999976 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.0   4.8e-06    0.0071      29      91 ..     207     271 ..     195     279 .. 0.83

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 4.8e-06
                              CCTCSEEEEET-TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHTTGC....EEEEE-STTT CS
                      MTS  29 kelsgkvlDlGcGaGvlgaalakespeaevtlvdvdarAlesakenleankle....vevvasdvle 91 
                              k+ +g++l l cG+G  ++ala + ++  v +++  + ++e+a+ n++ n+++    +++ a+d  +
  PHY93_09540|PHY93_09540 207 KNSTGDLLELYCGNGNFSIALAPNFKN--VLATELAKPSVEAAQFNIALNNIKnlqiIRMSAEDFSD 271
                              4578899***************99988..99*********************995555555555555 PP

>> Met_10  Met-10+ like-protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.0     6e-06    0.0089     105     164 ..     214     270 ..     203     329 .. 0.88

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 6e-06
                              EETT-TTTCCHHHCCHHTTSSEEEEEES-HHHHHHHHHHHHHTT-TTCEEEEES-GGG-- CS
                   Met_10 105 vdvfAGiGpfaipiakyskakrvlaidlnPesvkylkeniklNkvekvvkpileDgrevi 164
                              ++++ G G f+i++a   + k vla +l   sv+  + ni+lN++++  + i + ++++ 
  PHY93_09540|PHY93_09540 214 LELYCGNGNFSIALAP--NFKNVLATELAKPSVEAAQFNIALNNIKNL-QIIRMSAEDFS 270
                              67899**********8..9999***********************974.35666666654 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0   1.8e-05     0.027       3      67 ..     209     270 ..     207     320 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.8e-05
          Methyltransf_31   3 kglrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielArenaqklgldnveFeqgdieele 67 
                              ++  +l+l CG+G+++++la +    ++v   +  + ++e A+ n + ++++n++  + ++e+++
  PHY93_09540|PHY93_09540 209 STGDLLELYCGNGNFSIALAPNF---KNVLATELAKPSVEAAQFNIALNNIKNLQIIRMSAEDFS 270
                              566789999***********554...45*************************999887777755 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.0   2.5e-05     0.037       1      59 [.     214     271 ..     214     274 .. 0.91

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 2.5e-05
                              EEET-TTSHHHHHHHHTTSEEEEEES-HHHHHHHHHHCCHHT-.EEEETTEECCCTSS-T CS
          Methyltransf_11   1 LdvGcGtGrlaealakrgarvvgvDlskemlklakekaseegl.kvefvvadaeklpfed 59 
                              L++ cG+G ++ ala ++++v++++l+k  +++a+ ++  +++ ++++++++ae+  f d
  PHY93_09540|PHY93_09540 214 LELYCGNGNFSIALAPNFKNVLATELAKPSVEAAQFNIALNNIkNLQIIRMSAED--FSD 271
                              5666*********************************9999999999******98..555 PP

>> Methyltrans_SAM  S-adenosylmethionine-dependent methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   2.7e-05     0.041     126     222 ..     212     320 ..     195     352 .. 0.71

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 2.7e-05
          Methyltrans_SAM 126 nvlnlfaytcgfsvaaiaggaskvvnvdmargslnkgrdnhrlng.hdlrrvsflgydif......kswgkik....ksgpydlvi 200
                              ++l+l++    fs+ a+a   ++v+  ++a+ s++  + n  ln+ ++l+ + +   d+       + + ++k    ks ++  ++
  PHY93_09540|PHY93_09540 212 DLLELYCGNGNFSI-ALAPNFKNVLATELAKPSVEAAQFNIALNNiKNLQIIRMSAEDFSdamsgkREYTRLKgidlKSYEFTTIL 296
                              56788888888987.589999********************99983455555544444432222222355565444466677789* PP

          Methyltrans_SAM 201 idpps..fqkgsfaltkdykkilr 222
                              +dpp   ++  ++al +dyk+il 
  PHY93_09540|PHY93_09540 297 VDPPRagIDPNTLALVQDYKRILY 320
                              ****63367899**********95 PP

>> DREV  DREV methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   3.1e-05     0.046      88     127 ..     200     242 ..     184     266 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 3.1e-05
                     DREV  88 spasdqe...dkklldlGaGdGeitkrvaptfeevyatelset 127
                              ++a d +   +  ll+l  G+G+ +  +ap f++v atel++ 
  PHY93_09540|PHY93_09540 200 EWAIDVTknsTGDLLELYCGNGNFSIALAPNFKNVLATELAKP 242
                              55554431115679*************************9864 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0       7.9   1.2e+04      16      40 ..     124     147 ..     115     160 .. 0.64
   2 ?   12.2   0.0   0.00016      0.23       1      61 [.     214     272 ..     214     296 .. 0.86

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 7.9
          Methyltransf_12  16 eklpdieytgvDispsaiedakekl 40 
                               + ++++  ++D+  +  e+ + k+
  PHY93_09540|PHY93_09540 124 YH-RQLNTDWIDVAHKLKEKLALKF 147
                              44.6777778887766655555554 PP

  == domain 2  score: 12.2 bits;  conditional E-value: 0.00016
          Methyltransf_12   1 LeiGcGtGsllralleklpdieytgvDispsaiedakeklakrennnnnnvelealdlldl 61 
                              Le+ cG+G+++ al+++  +++++++++ + ++e+a+  +a ++ +n + ++  a+d +d 
  PHY93_09540|PHY93_09540 214 LELYCGNGNFSIALAPN--FKNVLATELAKPSVEAAQFNIALNNIKNLQIIRMSAEDFSDA 272
                              7888*************..**************9999999999999998888888887765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (364 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       491  (0.0273858); expected 358.6 (0.02)
Passed bias filter:                      396  (0.0220871); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.36
# Mc/sec: 3039.30
//
Query:       PHY93_09545|PHY93_09545  [L=385]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.9e-56  189.5   0.1    8.8e-56  189.2   0.1    1.1  1  MltA      MltA specific insert domain
    1.9e-16   60.0   0.0    3.8e-16   59.0   0.0    1.6  1  3D        3D domain


Domain annotation for each model (and alignments):
>> MltA  MltA specific insert domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  189.2   0.1   9.8e-60   8.8e-56      39     225 .]      87     282 ..      36     282 .. 0.87

  Alignments for each domain:
  == domain 1  score: 189.2 bits;  conditional E-value: 9.8e-60
                              HHHHHHHHHHCCEEEEECCCG....EEEEEEEEE-EEEEESS--SSS-EEEEB--TTEEEEET......TT.GGTTTEEEEEEETT CS
                     MltA  39 saeaaraffeeeftpyrvegk....eglvTGYYepllegsrtrtaeyrvPlyrrPadlvtvdl......fp.elkgkrlrgrlegr 113
                              ++++ + ++ ++f++y+v g+    e + TGYYep+++gs++++ e++  ly++P+dlvt++l       p      +l+gr+e++
  PHY93_09545|PHY93_09545  87 HESDWTDWIGQNFDFYEVYGRstwgEVMSTGYYEPQVHGSHQKSLEFSRALYATPNDLVTINLkyfankIPkGEVPGTLQGRIENK 172
                              34578999***********997765559************************************987663334455679******* PP

                              EEEE---HHHHCTSTTTTTSS.ECEEES.HHHHHHHHHHTEEEEE-TTS-EEEEEEEEE-S-----CHHHHHCTT-S-TTT--HHH CS
                     MltA 114 klvpyptRaeieaegalkgkklelawlkdpvdafflqvQGSgrlrlpdgsvlrvgYagknghpYtsiGrlLiergelkkeeasmqa 199
                              ++vpy+tR+ei+++++lk+++lelawl+ p+daff+q+QGSg +++++g+++r+gY+++ngh Y ++G+ L  ++ +++e++smq+
  PHY93_09545|PHY93_09545 173 TIVPYFTRKEIDTDAKLKDQNLELAWLD-PIDAFFIQIQGSGVVEFENGEKIRLGYDNQNGHAYAALGKSL--KNIIPPEKMSMQK 255
                              ***************************7.*****************************************9..679********** PP

                              HHHHHHCTC.HHHHHHHTT----EEEE CS
                     MltA 200 irawlranp.eeldellnenpsyvFFr 225
                              i+a+l++ p +el+++ln npsyvFF+
  PHY93_09545|PHY93_09545 256 IKAYLKTLPaDELQKILNINPSYVFFK 282
                              *******994589*************7 PP

>> 3D  3D domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.0   0.0   4.2e-20   3.8e-16       1      74 [.     300     383 ..     300     384 .. 0.92

  Alignments for each domain:
  == domain 1  score: 59.0 bits;  conditional E-value: 4.2e-20
                              TEEEE-TTTS-TT-EEEEEEC.CEET..TT......CCEEEEEEEEE--TT--SS.EEEEEEEESHHHHHHHHTSEEEEEEEEE CS
                       3D   1 rsiAvDpsviplGtpvlvege.plla..gk......kpvyrlviaqDtGgaIkGn.riDlffgtgdeagelaGlvkkegkvyiL 74 
                              r+iA+D + +p G+++++++e p+ a  +        ++ r+v+++D GgaI+G  r+Dl+fg gd+a ++aG++k++g++y+L
  PHY93_09545|PHY93_09545 300 RTIATDLNFFPKGALAFLDIEePQFAtlSDiepttwLKLPRFVLDEDIGGAIRGGgRVDLYFGKGDTAAQKAGVMKQKGRLYYL 383
                              79******************99887766336777778899******************************************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (385 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       415  (0.0231469); expected 358.6 (0.02)
Passed bias filter:                      379  (0.0211389); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.35
# Mc/sec: 3284.93
//
Query:       PHY93_09550|PHY93_09550  [L=143]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-14   54.6   7.3    1.3e-14   54.6   7.3    2.0  2  DoxX      DoxX
    6.4e-06   26.2   7.2    2.3e-05   24.4   7.2    2.0  1  DoxX_2    DoxX-like family
  ------ inclusion threshold ------
       0.11   12.3   3.1       0.34   10.8   1.0    2.3  2  DoxD      TQO small subunit DoxD


Domain annotation for each model (and alignments):
>> DoxX  DoxX
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.6   7.3   2.1e-18   1.3e-14       1      82 [.      20      95 ..      20      98 .. 0.91
   2 ?    0.3   0.1      0.18   1.1e+03       7      22 ..     120     135 ..     115     139 .. 0.82

  Alignments for each domain:
  == domain 1  score: 54.6 bits;  conditional E-value: 2.1e-18
                     DoxX  1 lllllRlllgvlfiahGlqkltgfglegtaasla.alglpppellaylaalvElvgglllllGlltRlaAlalavtllvatlt 82
                             +ll+lRl++g+ f+ hG +k+       +  ++  ++++  p++l +laa+ E++gg +lllGllt+la+l++a+t+ +a+++
  PHY93_09550|PHY93_09550 20 ALLILRLIVGSAFFIHGSGKIH-----TPFSWMPpQVPI--PAFLQFLAAISEFGGGTALLLGLLTPLASLGIACTMSGAVYM 95
                             69********************.....456666657777..**************************************9865 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.18
                     DoxX   7 lllgvlfiahGlqklt 22 
                              l +++lf+a G +k+ 
  PHY93_09550|PHY93_09550 120 LGVAILFLAMGPGKFS 135
                              6789999999999985 PP

>> DoxX_2  DoxX-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.4   7.2   3.8e-09   2.3e-05      10      87 ..      26     103 ..      18     129 .. 0.71

  Alignments for each domain:
  == domain 1  score: 24.4 bits;  conditional E-value: 3.8e-09
                   DoxX_2  10 fllsGvakllraeevvakfaql..gfp.ssfvrllG.vvellgalgLllplvtaprltplAavglallmvgAiathl.rrgdp 87 
                              +++++++ +  + ++ + f ++  ++p   f+++l+ + e+ g+ +Lll+l     ltplA +g+a++m gA+++hl  r+dp
  PHY93_09550|PHY93_09550  26 LIVGSAFFIHGSGKIHTPFSWMppQVPiPAFLQFLAaISEFGGGTALLLGL-----LTPLASLGIACTMSGAVYMHLiIRHDP 103
                              3333333333445556667776444776777777651669999*******7.....9*******************8455555 PP

>> DoxD  TQO small subunit DoxD
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.9   0.0     0.065   3.9e+02       3      17 ..      22      36 ..      20      50 .. 0.82
   2 ?   10.8   1.0   5.7e-05      0.34      67     144 ..      59     140 ..      50     142 .. 0.72

  Alignments for each domain:
  == domain 1  score: 0.9 bits;  conditional E-value: 0.065
                     DoxD  3 lilRlalgliflsag 17
                             lilRl++g+ f+  g
  PHY93_09550|PHY93_09550 22 LILRLIVGSAFFIHG 36
                             789******999765 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 5.7e-05
                     DoxD  67 alvlftlvEiivGlllliGlltRlsslvaf.......alalgialsayWlgstcedEyqiglllvaaelvliltgsgklslDyll 144
                              +l  ++  E   G  ll+Gllt l+sl+++       ++ l+i     +++ t    y+ +l    +++++++ g gk+slD l+
  PHY93_09550|PHY93_09550  59 FLAAIS--EFGGGTALLLGLLTPLASLGIActmsgavYMHLIIR-HDPFVNLTGGMSYEPALGYLGVAILFLAMGPGKFSLDKLI 140
                              555566..77789999*********9986511111115566665.66788888877777766666777889999999****9997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (143 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       282  (0.0157287); expected 358.6 (0.02)
Passed bias filter:                      178  (0.00992805); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.41u 0.20s 00:00:00.61 Elapsed: 00:00:00.35
# Mc/sec: 1208.78
//
Query:       PHY93_09555|PHY93_09555  [L=192]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.2e-07   31.0   0.0    8.2e-05   22.7   0.0    2.2  2  LigT_PEase       LigT like Phosphoesterase
    6.9e-07   29.3   0.0    7.7e-07   29.1   0.0    1.1  1  2_5_RNA_ligase2  2'-5' RNA ligase superfamily
  ------ inclusion threshold ------
       0.04   13.4   0.1      0.048   13.1   0.1    1.2  1  HVSL             Uncharacterised conserved protein
      0.053   13.1   0.1        1.2    8.8   0.0    2.4  2  CSM2             Shu complex component Csm2, DNA-binding


Domain annotation for each model (and alignments):
>> LigT_PEase  LigT like Phosphoesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.7   0.0   1.8e-08   8.2e-05      17      87 .]      25      93 ..      14      93 .. 0.89
   2 !    6.5   0.0    0.0021       9.5      10      87 .]     101     174 ..      94     174 .. 0.84

  Alignments for each domain:
  == domain 1  score: 22.7 bits;  conditional E-value: 1.8e-08
                             HHHHHHCCTTEEETSGGGSEEEEEEEEEESHHHHHHHHHHHHHHHHTSBEEEEEEEEEEEEEECCSCCEEE CS
               LigT_PEase 17 eleralaklglkpvrpfnpHiTLaflgevdeekvpellealaeiasgaepfelkvdgvglfpsrlrprviy 87
                             +l    ++   ++v+++ +Hi L  lge d  k++el +++++i +    f+lk++gv+++p+++ +r ++
  PHY93_09555|PHY93_09555 25 NLN--KSEVTHQWVPAELFHINLLSLGEMDYNKISELDAKIKSIIQSHGIFDLKLRGVSVYPNQKEGRLLW 93
                             555..5667779****************************************************9999888 PP

  == domain 2  score: 6.5 bits;  conditional E-value: 0.0021
                              HHHHHHHHHHHHHCCTTEEET.SGGGSEEEEEEEEEESHHHHHHHHHHHHHHHHTSBEEEEEEEEEEEEEECC.SCCEEE CS
               LigT_PEase  10 elarlaaeleralaklglkpv.rpfnpHiTLaflgevdeekvpellealaeiasgaepfelkvdgvglfpsrl.rprviy 87 
                               l++l+++l+r l + ++ ++ + f+p + + +l++   ++v+++++ +++ ++g+    lkv++++l++       +iy
  PHY93_09555|PHY93_09555 101 PLRSLQDDLARNLISENIYQQdKLFRPILPIIRLKNF--QNVSDMISPYNGTDFGK----LKVEQLALYEMISgGAFPIY 174
                              6899999999999999999999999999999999997..59***********9996....*********97766666665 PP

>> 2_5_RNA_ligase2  2'-5' RNA ligase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.1   0.0   1.7e-10   7.7e-07      12     102 ..      22     120 ..      11     164 .. 0.84

  Alignments for each domain:
  == domain 1  score: 29.1 bits;  conditional E-value: 1.7e-10
          2_5_RNA_ligase2  12 lr.....rslydkayprwppHitLlypfvededl.adlaellsrlaketepfevrldgfgvFeh..kksvvylsvsdsealqalra 89 
                              l+     +++ ++ +p+   Hi+Ll +++ d    ++l++ ++ +++++  f++ l g++v++   +++ +++ v++s +l+ l++
  PHY93_09555|PHY93_09555  22 LKinlnkSEVTHQWVPAELFHINLLSLGEMDYNKiSELDAKIKSIIQSHGIFDLKLRGVSVYPNqkEGRLLWIGVQNSIPLRSLQD 107
                              44445546777788999999*********998888******************************5555***************** PP

          2_5_RNA_ligase2  90 allealpeagdke 102
                              +l+++l  +   +
  PHY93_09555|PHY93_09555 108 DLARNLISENIYQ 120
                              ***9986665444 PP

>> HVSL  Uncharacterised conserved protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.1   1.1e-05     0.048      77     141 ..      29      91 ..       3     124 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 1.1e-05
                     HVSL  77 slltsdlgaplplHiSLSrplvlrthqkdsfldslkkelkssakrrFevsfsglkwvsndektRs 141
                              s +t ++   + +Hi L     +++++++++ +++k+ ++s+++  F+++++g+ +++n+++ R 
  PHY93_09555|PHY93_09555  29 SEVTHQWVPAELFHINLLSLGEMDYNKISELDAKIKSIIQSHGI--FDLKLRGVSVYPNQKEGRL 91 
                              333445566669***************************88877..***************9996 PP

>> CSM2  Shu complex component Csm2, DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   0.0   0.00026       1.2      23      59 ..      85     121 ..      63     144 .. 0.89
   2 ?    2.3   0.0     0.025   1.1e+02      30      56 ..     163     189 ..     138     192 .] 0.82

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.00026
                     CSM2  23 eesekqlyfidatnsFPisqfqklvplkeenkkiYen 59 
                              +++e +l +i  +ns P++++q+ + ++   ++iY++
  PHY93_09555|PHY93_09555  85 NQKEGRLLWIGVQNSIPLRSLQDDLARNLISENIYQQ 121
                              5778899******************999999999986 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.025
                     CSM2  30 yfidatnsFPisqfqklvplkeenkki 56 
                              y + +   FPi ++ k  pl++++kki
  PHY93_09555|PHY93_09555 163 YEMISGGAFPIYKLLKSYPLNSNQKKI 189
                              55556678************9999988 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (192 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       477  (0.0266049); expected 358.6 (0.02)
Passed bias filter:                      360  (0.0200792); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.38
# Mc/sec: 1527.72
//
Query:       PHY93_09560|PHY93_09560  [L=114]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
      6e-11   42.2   0.0    6.9e-11   42.0   0.0    1.0  1  SBP_bac_3  Bacterial extracellular solute-binding proteins, f


Domain annotation for each model (and alignments):
>> SBP_bac_3  Bacterial extracellular solute-binding proteins, family 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.0   0.0   3.8e-15   6.9e-11     113     223 ..       1     111 [.       1     113 [. 0.93

  Alignments for each domain:
  == domain 1  score: 42.0 bits;  conditional E-value: 3.8e-15
                              EEEETTSHHHHHHHHHHHCTSEEEEESSHHHHHHHHHTTSSSEEEEEHHHHHHHHHHCCGCCEEEE..ECGGCECEEEEEEETTTH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxx RF
                SBP_bac_3 113 vgvqagstaeellkeelkkgaeivefdtleealqaLkngrvdavvadspvlaylvkknpdkkvvlv..eeplsseeyaiavrkgds 196
                              +gv +gs ae+llk++     ++ +  t+++++++Lk +r da+va  +    + +k + ++ +l   +  l   ey ++ +  ds
  PHY93_09560|PHY93_09560   1 IGVFRGSLAETLLKQWG--FKNVESCTTDAQCVKMLKFRRLDAWVAPLSFKSRYKEKGGLGDDELRagATLLILHEYLAGSKTLDS 84 
                              7999******9999865..4578889***************************************998888888999999999*** PP

                              HHHHHHHHHHHHHHHTTHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                SBP_bac_3 197 eLrkainkalaelkadgtlakisekWf 223
                              + + + +ka++++k+dg + +i++k++
  PHY93_09560|PHY93_09560  85 DTVHKWQKAFEAMKQDGSYVRIMKKYG 111
                              **************************7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (114 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       472  (0.0263261); expected 358.6 (0.02)
Passed bias filter:                      413  (0.0230353); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.22s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 882.22
//
Query:       PHY93_09565|PHY93_09565  [L=60]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (60 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       163  (0.00909142); expected 358.6 (0.02)
Passed bias filter:                      106  (0.00591221); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.37u 0.19s 00:00:00.56 Elapsed: 00:00:00.37
# Mc/sec: 490.74
//
Query:       PHY93_09570|PHY93_09570  [L=59]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (59 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1163  (0.064867); expected 358.6 (0.02)
Passed bias filter:                      404  (0.0225333); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.36u 0.20s 00:00:00.56 Elapsed: 00:00:00.35
# Mc/sec: 506.02
//
Query:       PHY93_09575|PHY93_09575  [L=241]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0013   19.2   0.0        1.8    9.1   0.1    2.3  2  PIN       PIN domain
  ------ inclusion threshold ------
      0.057   12.4   0.1       0.07   12.1   0.1    1.2  1  TROVE     TROVE domain
        0.1   12.2   0.1       0.13   11.9   0.1    1.1  1  Spt20     Spt20 family


Domain annotation for each model (and alignments):
>> PIN  PIN domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.1   0.1    0.0003       1.8       2      48 ..      23      93 ..      22     136 .. 0.66
   2 !    8.1   0.0   0.00059       3.5      77     115 ..     187     225 ..     160     230 .. 0.79

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.0003
                             EE-HHHHHHHH.TTSHHHHHHHHHHHTS....SEEEEEHHHHHHHHHHHHS...................S CS
                      PIN  2 vlDTsvliall.rgeekaeaarklleel....eelvtsalvlaEllyvlar...................r 48
                             ++DT++++a+    + ++e+a++ +  l      ++t+ +v +E++   +r                    
  PHY93_09575|PHY93_09575 23 IVDTNIVFAFSfPLDTFNEWAEEVVSTLhklnIPIYTNLNVRSEFIDLNRRvmipeglvdfydeidgsfdE 93
                             89********954455566666666666888*************987777766666666666666666662 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.00059
                              HHHHHHHHHHHHHSBHHHHHHHHHHHHHT-EEE.ESSTH CS
                      PIN  77 iaeeaaeialkygllpnDaliaAtAkehgikliatfDed 115
                               +e + +i    gl++ Da+i+ + +e++i+l +t+D  
  PHY93_09575|PHY93_09575 187 SWENMVKIVGLSGLGSSDAMIVNLFQESKIPLMITADVA 225
                              4555555555566***********************965 PP

>> TROVE  TROVE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.1   1.2e-05      0.07     251     323 ..     141     219 ..      95     233 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 1.2e-05
                    TROVE 251 snlqlfsrsrlpgpw.ds..sraGkRmKlerpetwerelslkgnkaeVWeeLidsgklPfm....AmlRnLanllrvgis 323
                              sn  lf r+ + +p+ d   +ra kRmK++   t+e e ++  +k   We++++   l+ +    Am+ nL + +++ ++
  PHY93_09575|PHY93_09575 141 SNWTLFCRDYF-APYiDDvwERAVKRMKINFLGTREIESKEFFEKHPSWENMVKIVGLSGLgssdAMIVNLFQESKIPLM 219
                              45567888877.666332338********************************987665333333888888766666555 PP

>> Spt20  Spt20 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.1   2.2e-05      0.13      24      92 ..      29     101 ..       8     129 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 2.2e-05
                    Spt20  24 hfrfslkln...lqsqekkkensseslrlpynsel.kelleyvdretiPealmelLrdanikfYeGclIvqvr 92 
                               f fs++l    ++ +e  ++ ++  + +  n ++  e++++ +r +iPe l++++   +  f eG +I++ +
  PHY93_09575|PHY93_09575  29 VFAFSFPLDtfnEWAEEVVSTLHKLNIPIYTNLNVrSEFIDLNRRVMIPEGLVDFYDEIDGSFDEGTVIAKLK 101
                              6889999989999999999999999999999999999********************************9875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (241 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       573  (0.0319594); expected 358.6 (0.02)
Passed bias filter:                      486  (0.0271069); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.34
# Mc/sec: 2114.35
//
Query:       PHY93_09580|PHY93_09580  [L=321]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.1e-14   53.1   0.3    7.6e-14   52.2   0.3    1.4  1  ASCH             ASCH domain
    1.6e-08   34.7   0.0      3e-08   33.9   0.0    1.4  1  Acetyltransf_1   Acetyltransferase (GNAT) family
      2e-08   34.2   0.0    3.6e-08   33.4   0.0    1.4  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
    1.4e-05   25.4   0.0    3.4e-05   24.2   0.0    1.6  1  Acetyltransf_7   Acetyltransferase (GNAT) domain
    1.6e-05   24.8   0.0    2.7e-05   24.0   0.0    1.4  1  FR47             FR47-like protein
    6.3e-05   23.0   0.0    0.00013   22.1   0.0    1.6  1  Acetyltransf_9   Acetyltransferase (GNAT) domain
  ------ inclusion threshold ------
      0.021   15.5   0.0      0.034   14.8   0.0    1.4  1  Acetyltransf_3   Acetyltransferase (GNAT) domain
      0.033   13.7   0.2      0.062   12.8   0.0    1.7  2  Acetyltransf_15  Putative acetyl-transferase
       0.07   13.3   0.1       0.11   12.6   0.1    1.4  1  Acetyltransf_4   Acetyltransferase (GNAT) domain
      0.072   13.0   0.2       0.34   10.8   0.0    2.2  2  DASH_Ask1        DASH complex subunit Ask1


Domain annotation for each model (and alignments):
>> ASCH  ASCH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.2   0.3   4.2e-17   7.6e-14       5     106 ..     209     321 .]     205     321 .] 0.93

  Alignments for each domain:
  == domain 1  score: 52.2 bits;  conditional E-value: 4.2e-17
                              TTHHHHHHTTS--EE......EESSTTTGGGT-CEEEEEECCCCTSEEEEEEEEEEEEEEHHHHHHHHHCHCC--...-HCHHHHH CS
                     ASCH   5 qelaslivsGkKtae......irvwdeelpkvrgdllilaalkptgralgivevtkvevkpfeevteehalkege...sleewrev 81 
                              +el +li++GkK a        ++ + +lp+v g ++i+  l+ ++++ +i ++++ e+ +f+++tee+ ++ege   ++ +w++v
  PHY93_09580|PHY93_09580 209 DELIQLIIEGKKFAGsslvqdFKTVGDPLPRV-GNFWIA--LDKNEEPKCILKTVRTEINKFNNITEEITKAEGEgdcTIRYWKQV 291
                              7899*****************9999******9.******..********************************************* PP

                              HHCCHHHHHCC.....EEEEEEEEEEEEEE CS
                     ASCH  82 heefyeeesee.....yedelvvveefelv 106
                              h+e+y+  +e+      ++ +v+ e fe+v
  PHY93_09580|PHY93_09580 292 HQEIYTPFLEQwgiedLNETEVITEFFEVV 321
                              *******99878888767777777778876 PP

>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.9   0.0   1.7e-11     3e-08      33     117 .]      76     158 ..      51     158 .. 0.89

  Alignments for each domain:
  == domain 1  score: 33.9 bits;  conditional E-value: 1.7e-11
                              CEEEEEEETTEEEEEEEEEEEETTSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHTTESEEEEEEETTEHHHHHHHHHTTE CS
           Acetyltransf_1  33 egllvaeedgeliGfisllkipdekggvayieslaVspeyrgkGlGsaLlealeerareegikkivlaveedndaairlYeklGF 117
                               + +va e+ ++i+ + ++ +    +    + + + +p+y +kGl + Ll+ +  ++++++++k +lav + n +a++ Y+++GF
  PHY93_09580|PHY93_09580  76 RSSFVAIENSKPIAAVLFTFYEK--ESMPLLAFTMTHPKYKNKGLCKDLLQVAFTQLEKNNYQKCFLAVNAANLPAVAAYKRVGF 158
                              3678999999******8888766..8899999******************************999***************88**9 PP

>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.4   0.0     2e-11   3.6e-08      33     109 ..      79     161 ..      62     173 .. 0.81

  Alignments for each domain:
  == domain 1  score: 33.4 bits;  conditional E-value: 2e-11
          Acetyltransf_10  33 llvaeeggkivGvi.elrdgs...hisllfVdpeyrgqGigkaLleaveeeaekdgikl.eltvnasp.yavpfYeklGFkav 109
                              +++ e+++ i+ v+ + ++++    ++  + +p+y+ +G+ k Ll+ + +++ek+++++  l vna++  av+ Y+++GF+  
  PHY93_09580|PHY93_09580  79 FVAIENSKPIAAVLfTFYEKEsmpLLAFTMTHPKYKNKGLCKDLLQVAFTQLEKNNYQKcFLAVNAANlPAVAAYKRVGFEIR 161
                              455555555556654335555355667779**************************************************865 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.2   0.0   1.9e-08   3.4e-05       6      75 ..      79     159 ..      74     160 .. 0.66

  Alignments for each domain:
  == domain 1  score: 24.2 bits;  conditional E-value: 1.9e-08
                              EEEEETTEEEEEEEEEEES.TCTEE...EE...E-GGGTTSSHHHHHHHH.....TT...SEEEEEEEEETHH.HHHHHHHHTTEE CS
           Acetyltransf_7   6 fVaeddgkivGfialslld.aeitr...la...VdpeyrgkGiGraLlea.....ae...kgiileqlelnae.kaikfYeklGFe 75 
                              fVa ++ k++  + ++ ++ +       la   ++p+y +kG+ + Ll++     ++   +++ l  ++ + + +a++ Y++ GFe
  PHY93_09580|PHY93_09580  79 FVAIENSKPIAAVLFTFYEkE---SmplLAftmTHPKYKNKGLCKDLLQVaftqlEKnnyQKCFLA-VNAA-NlPAVAAYKRVGFE 159
                              789999999998777777541...234433444****************53565421233334322.2223.2499*********8 PP

>> FR47  FR47-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.0   0.0   1.5e-08   2.7e-05      25      83 ..     105     164 ..      90     167 .. 0.88

  Alignments for each domain:
  == domain 1  score: 24.0 bits;  conditional E-value: 1.5e-08
                              EEEEE-GGG-SSSHHHHHHHHHHHHHHH.S-S-EEEEEETT-HHHHHHHHHHT-EEEEEE CS
                     FR47  25 galqvlpehrrrGlgsrlvkalakeiae.rgktvllvvvasNtpsirlyeklGfekieet 83 
                                  ++p+ +++Gl + l +    ++ + + ++ +l v+a+N p+ + y+++Gfe +e t
  PHY93_09580|PHY93_09580 105 AFTMTHPKYKNKGLCKDLLQVAFTQLEKnNYQKCFLAVNAANLPAVAAYKRVGFEIREST 164
                              55689***************99999999678899*********************99766 PP

>> Acetyltransf_9  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.1   0.0   7.1e-08   0.00013      73     127 ..     101     160 ..      74     161 .. 0.88

  Alignments for each domain:
  == domain 1  score: 22.1 bits;  conditional E-value: 7.1e-08
                              EEEEEEEEE-CCGTTS-HHHHHHHHHHHHHHHTT--EEEE--.....SSHHHHHTTT-EE CS
           Acetyltransf_9  73 aagvtgVavapehrgrgvlskLlaraleemreegqplsllfP.....ssipiYrrfGyei 127
                              +  ++ ++++p+++++g+ ++Ll+ a++++++++++  +l        +++ Y+r G+ei
  PHY93_09580|PHY93_09580 101 MPLLAFTMTHPKYKNKGLCKDLLQVAFTQLEKNNYQKCFLAVnaanlPAVAAYKRVGFEI 160
                              6678899**************************999888877444443469999999997 PP

>> Acetyltransf_3  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   0.0   1.9e-05     0.034      56     138 .]      79     159 ..      25     159 .. 0.77

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 1.9e-05
           Acetyltransf_3  56 waivlkdtgviGsvglrdleeedeeaelg.ymlapsfwgkGyateavralleyafeelglerlvavidkeNeaSirvleklGfe 138
                              ++ +++++  i  v ++ +e+e+  + l   m +p++ +kG+ ++ ++ + + + e+ ++++ +  +++ N   ++ ++++Gfe
  PHY93_09580|PHY93_09580  79 FVAIENSK-PIAAVLFTFYEKESM-PLLAfTMTHPKYKNKGLCKDLLQVAFTQL-EKNNYQKCFLAVNAANLPAVAAYKRVGFE 159
                              33333444.699999998888887.55551556688************999999.6667************************7 PP

>> Acetyltransf_15  Putative acetyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   3.5e-05     0.062      48     106 ..       8     136 ..       1     159 [. 0.64
   2 ?   -3.1   0.0       2.4   4.3e+03     146     168 ..     253     276 ..     249     292 .. 0.59

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 3.5e-05
          Acetyltransf_15  48 Lvasvfivkkkyyslvs..................................................................... 64 
                              ++ + f++k+ +  +++                                                                     
  PHY93_09580|PHY93_09580   8 FIMEKFLSKNNFPPKSHfrtinrndivalgdllyeadlgtvddeglpvedsineientlsgkygkflerssfvaienskpiaavlf 93 
                              55555555555555555555555555555555555555555555555555555555555555555555555666666666666665 PP

          Acetyltransf_15  65 silieknvleiYtlyvsekyrgkGlakklLeeslkel.kknYk 106
                              ++ +++ +  +   ++++ky++kGl k lL+ ++++l k+nY+
  PHY93_09580|PHY93_09580  94 TFYEKESMPLLAFTMTHPKYKNKGLCKDLLQVAFTQLeKNNYQ 136
                              55555555444455789****************9999345665 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 2.4
          Acetyltransf_15 146 Peelkkrl.ekiltfkdlvkvikk 168
                              P+++ k +  +i++f++  ++i k
  PHY93_09580|PHY93_09580 253 PKCILKTVrTEINKFNNITEEITK 276
                              555444442335555555555543 PP

>> Acetyltransf_4  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.1   6.1e-05      0.11      30     137 ..      55     161 ..      25     177 .. 0.73

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 6.1e-05
           Acetyltransf_4  30 evssveefekfleal.d.sekeyvflvaesdrivGyaylgqfkkrakdwkaelsvylaerdnnkeglgrelidaleqvlkeqnien 113
                              +++s+ e+e  l+   +  +++  f ++e+ + ++      f    k+   +l + + + + +++gl ++l+++    l ++n+++
  PHY93_09580|PHY93_09580  55 VEDSINEIENTLSGKyGkFLERSSFVAIENSKPIAAVLFT-FYE--KESMPLLAFTMTHPKYKNKGLCKDLLQVAFTQLEKNNYQK 137
                              4577777777777654346667788888888887766665.555..5666677777778899************************ PP

           Acetyltransf_4 114 llaeiaspnensiqfhkalGFelv 137
                               + ++ ++n ++++ +k++GFe+ 
  PHY93_09580|PHY93_09580 138 CFLAVNAANLPAVAAYKRVGFEIR 161
                              *********************985 PP

>> DASH_Ask1  DASH complex subunit Ask1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   0.00019      0.34      17      50 ..     133     166 ..     128     174 .. 0.94
   2 ?   -3.2   0.0       4.7   8.4e+03      34      44 ..     264     274 ..     256     277 .. 0.60

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00019
                DASH_Ask1  17 anlsrcfriitkkilPavkrYgeasekiwesakf 50 
                              +n ++cf  ++   lPav+ Y+++  +i+es++f
  PHY93_09580|PHY93_09580 133 NNYQKCFLAVNAANLPAVAAYKRVGFEIRESTNF 166
                              5899***************************998 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 4.7
                DASH_Ask1  34 vkrYgeaseki 44 
                              ++++++ +e+i
  PHY93_09580|PHY93_09580 264 INKFNNITEEI 274
                              55555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (321 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       548  (0.030565); expected 358.6 (0.02)
Passed bias filter:                      454  (0.0253221); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.45u 0.19s 00:00:00.64 Elapsed: 00:00:00.34
# Mc/sec: 2817.33
//
Query:       PHY93_16700|PHY93_16700  [L=347]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   7.8e-109  363.6  20.0   9.3e-109  363.3  20.0    1.0  1  NADHdh    NADH dehydrogenase


Domain annotation for each model (and alignments):
>> NADHdh  NADH dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  363.3  20.0  5.2e-113  9.3e-109       2     298 ..      11     340 ..      10     341 .. 0.93

  Alignments for each domain:
  == domain 1  score: 363.3 bits;  conditional E-value: 5.2e-113
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHTTS--S-SSTTTTTTHHHHHHHHHCCS-----TTS-HHHHHHHHHHHHHHHHCTTTTS- CS
                   NADHdh   2 klllllvvlllvvalltlleRkvlAriqdRlGPnrvGplGllqplaDalKlllKediipkkadkllfllapvlalilallafaviP 87 
                              k++++l + l ++ +++ +eR+ +A+iq+RlGPnrvGp+G+lqplaD+ K+++Ke++ p+++  +++++ap++al++a+l +a+iP
  PHY93_16700|PHY93_16700  11 KTVVILGIPLGALPIIIHVERRGAAFIQKRLGPNRVGPFGFLQPLADVAKFMFKEEVHPAHVRPFFYTAAPMIALVVAILPLACIP 96 
                              56667765666666************************************************************************ PP

                              SSS...........SSS--TTHHHHHHHHHHHCHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-SS-HHHH CS
                   NADHdh  88 fge...........vladlnvglllilalsslgvygillaGwasnskYallGalRsaaqmisyEvalglsllavvllagslslsei 162
                              +++            +   ++g+++++a s+lg ygillaGwasn+kY++lGalR+ aqm+syE++l +sl+a+++l+gs +++ +
  PHY93_16700|PHY93_16700  97 ITApfeafgrtifpEVFRSDMGIFFAFAASALGSYGILLAGWASNNKYSMLGALRACAQMVSYELSLSTSLVAMIFLYGSNDIHVM 182
                              994456677785555556699***************************************************************** PP

                              HHCCCTT-C.......CCCHHHHHHHHHHHHHHCCTCTTBTTTTSTTSSSSCCCTT-HCHHHHHHHHHHHHHHHHHHHHHHHHCT. CS
                   NADHdh 163 veaqeeiwf.......illqllafiifliallaetnraPFDlpeaesELvaGfhtEYsgmkfalfflaeyanmvlvsalavllFlg 241
                              v+aq++ wf       ++lq++a+++fl+ ++ae nr PFDl+e+esE+vaG+h EYs+mkfalff+aey++m+++sal+++lF+g
  PHY93_16700|PHY93_16700 183 VAAQTGYWFgflpkwgFFLQPVAAMLFLVGIFAESNRLPFDLAEGESEIVAGYHLEYSSMKFALFFMAEYIHMITLSALFIILFFG 268
                              *****998888888889********************************************************************* PP

                              SS-HCCS...............HHHHHHHHHHHHHHHHHHHHHC----TCHHHHHHHCCTCHHHHHHHHHHH CS
                   NADHdh 242 Gwllpfs...............gllwfllKvllllflfiwiratlpRlRydqlmklgwkvllplalanlllt 298
                              G++l  +               ++  +++K+++++++f+w+r+tlpR+Ryd+lm+lgw+ llpl +anl++t
  PHY93_16700|PHY93_16700 269 GYSLLPGmeffaerapillgvlQATSLIIKIAFMIWFFVWVRWTLPRFRYDKLMDLGWERLLPLGIANLIAT 340
                              *9764336788999999999999999*******************************************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (347 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       496  (0.0276647); expected 358.6 (0.02)
Passed bias filter:                      199  (0.0110993); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.20s 00:00:00.66 Elapsed: 00:00:00.37
# Mc/sec: 2830.00
//
Query:       PHY93_09585|PHY93_09585  [L=80]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
     0.0012   18.7   0.0     0.0022   17.9   0.0    1.5  1  MazE_antitoxin  Antidote-toxin recognition MazE, bacterial an


Domain annotation for each model (and alignments):
>> MazE_antitoxin  Antidote-toxin recognition MazE, bacterial antitoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.0   1.2e-07    0.0022       1      30 [.      10      43 ..      10      46 .. 0.85

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 1.2e-07
                             EEETTEEEEEE-CCCHHHC...CEEC.TCEEEEE CS
           MazE_antitoxin  1 fkvGnsgavriPkevrfel...gire.Gdevele 30
                             f +G+s+  riP+e+r  +    i++ G+ ++++
  PHY93_09585|PHY93_09585 10 FMNGRSQSLRIPHEMRLIGekaKIQKiGNMLIVT 43
                             78**************988888887788887775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (80 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       307  (0.0171231); expected 358.6 (0.02)
Passed bias filter:                      255  (0.0142228); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.36u 0.20s 00:00:00.56 Elapsed: 00:00:00.37
# Mc/sec: 656.74
//
Query:       PHY93_09590|PHY93_09590  [L=142]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.9e-14   54.2   0.0    2.1e-14   54.1   0.0    1.0  1  PIN       PIN domain
    1.6e-06   28.1   0.5    4.1e-05   23.5   0.1    2.0  2  DUF4411   Domain of unknown function (DUF4411)
     0.0026   17.4   0.0     0.0048   16.6   0.0    1.5  1  DUF5615   Domain of unknown function (DUF5615)
  ------ inclusion threshold ------
      0.028   15.2   0.0       0.05   14.4   0.0    1.4  1  PIN_3     PIN domain


Domain annotation for each model (and alignments):
>> PIN  PIN domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.1   0.0   4.6e-18   2.1e-14       1     113 [.       3     119 ..       3     129 .. 0.89

  Alignments for each domain:
  == domain 1  score: 54.1 bits;  conditional E-value: 4.6e-18
                              EEE-HHHHHHHHTTSHHHHHHHHHHHTSSEEEEEHHHHHHHHHHHHSSCHCHHHHHHHHHHHHHHHTSEEEEBCHHHHHHHHHHHH CS
                      PIN   1 ivlDTsvliallrgeekaeaarklleeleelvtsalvlaEllyvlarrkskrekaaelvelllllsalkilpidaeiaeeaaeial 86 
                              ++lDT+ lial+ ++e + ++++   ++e+l++s +++ E+ y++++ +s +  a+++v+++ ++ +++ + +d +i ee+++i++
  PHY93_09590|PHY93_09590   3 YLLDTNTLIALFHRREPTNTYLRTK-KPENLFLSGVTIGEIFYGIEK-SSFESIAKNRVAREAIMTQFQHVYTDQSISEEYGKIKA 86 
                              68**********5555565667755.56*******************.9999999999999999********************** PP

                              HHH.......SBHHHHHHHHHHHHHT-EEE.ESS CS
                      PIN  87 kyg.......llpnDaliaAtAkehgikliatfD 113
                              +++        + nD +iaA+A++   +l+ t +
  PHY93_09590|PHY93_09590  87 ELSasksyspNNENDIWIAAHARAKSYILV-TEN 119
                              ***************************999.876 PP

>> DUF4411  Domain of unknown function (DUF4411)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.0     0.016        73       1      12 [.       3      14 ..       3      26 .. 0.81
   2 !   23.5   0.1   9.2e-09   4.1e-05      62     126 ..      51     121 ..      40     137 .. 0.77

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.016
                  DUF4411  1 YllDtnvfieak 12
                             YllDtn +i   
  PHY93_09590|PHY93_09590  3 YLLDTNTLIALF 14
                             9*******9654 PP

  == domain 2  score: 23.5 bits;  conditional E-value: 9.2e-09
                  DUF4411  62 esieklesaedlavveevgkvakwvivesekyskaa....kkefl..svaDpfliAaAlaknatvVTkEvk 126
                              ++++  + +  +a+++++++v + +++++e+ + +a    +k++   ++ D ++ A+A ak++++VT++ k
  PHY93_09590|PHY93_09590  51 FESIAKNRVAREAIMTQFQHVYTDQSISEEYGKIKAelsaSKSYSpnNENDIWIAAHARAKSYILVTENLK 121
                              5555667777889999999999998444444444444777788888899*******************998 PP

>> DUF5615  Domain of unknown function (DUF5615)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   1.1e-06    0.0048      33      61 ..      97     126 ..      71     135 .. 0.83

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 1.1e-06
                  DUF5615  33 egasDeeileyAkeedriivTkD.kDFgel 61 
                              ++ +D  i + A+++ +i+vT++ kDF+ +
  PHY93_09590|PHY93_09590  97 NNENDIWIAAHARAKSYILVTENlKDFQSI 126
                              45789999*******************865 PP

>> PIN_3  PIN domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0   1.1e-05      0.05       3     115 ..       4     120 ..       2     121 .. 0.60

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 1.1e-05
                    PIN_3   3 vlDtnvlldallfdspaarkildaletgaitlvvsprlldElervlarelaypqfklraadkaallakvaler.........kava 79 
                              +lDtn+l++ + +++p ++ ++     ++  l++s  ++ E+ + +++ ++   +k+r a   a  ++++  +         +  +
  PHY93_09590|PHY93_09590   4 LLDTNTLIALFHRREPTNTYLRTK---KPENLFLSGVTIGEIFYGIEKSSFESIAKNRVARE-AIMTQFQ--HvytdqsiseEYGK 83 
                              79**********777666666554...55567788888888888887887777666666655.3333333..22334565553334 PP

                    PIN_3  80 pdaelrpllkcrDpdDqkvlelAla.aradvlVTkdr 115
                               +ael++  +++  + + ++ +A+a a+  +lVT++ 
  PHY93_09590|PHY93_09590  84 IKAELSASKSYSPNNENDIWIAAHArAKSYILVTENL 120
                              4444444444444555555555555245677899987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (142 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       508  (0.028334); expected 358.6 (0.02)
Passed bias filter:                      355  (0.0198003); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.41u 0.18s 00:00:00.59 Elapsed: 00:00:00.35
# Mc/sec: 1229.42
//
Query:       PHY93_09595|PHY93_09595  [L=299]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.016   15.3   0.1        3.6    7.6   0.1    2.2  2  Talin_middle  Talin, middle domain
       0.25   11.7   3.6        1.3    9.4   0.8    2.3  2  OmpH          Outer membrane protein (OmpH-like)


Domain annotation for each model (and alignments):
>> Talin_middle  Talin, middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.4   0.0    0.0019        17      66     113 ..      10      56 ..       4      63 .. 0.75
   2 ?    7.6   0.1    0.0004       3.6       6      34 ..     183     213 ..     179     232 .. 0.69

  Alignments for each domain:
  == domain 1  score: 5.4 bits;  conditional E-value: 0.0019
             Talin_middle  66 qlvsltqasseeeevdytavgaalttIssnlkelsknvrllaaLddde 113
                              q++  + + + + + dy +  + l+ I+ n +elsk +++   L   +
  PHY93_09595|PHY93_09595  10 QVIDNLGEVGIKIN-DYRKFKTELSEIGHNYQELSKMIQTSGRLSRTK 56 
                              55555544443333.9999*******************9998887755 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0004
             Talin_middle   6 lsridegleaiqeaeeeldkpaelpal..gd 34 
                               ++id+gl+a+qea++el+k+ ++  +  g+
  PHY93_09595|PHY93_09595 183 RNEIDKGLRALQEAHDELEKELKEVGIisGK 213
                              689*****************99885442333 PP

>> OmpH  Outer membrane protein (OmpH-like)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.1     0.018   1.6e+02      28      63 ..      25      58 ..       2     105 .. 0.73
   2 ?    9.4   0.8   0.00014       1.3      25      85 ..     176     239 ..     169     249 .. 0.74

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.018
                             HHHHHHHHHHHHHHHHHHHHHHHHHTTTS.-HHHHH CS
                     OmpH 28 fkklqaeleakekelqklqeelqkkakklekeekeq 63
                             ++k+++el + + ++q+l + +q++ +   +++k++
  PHY93_09595|PHY93_09595 25 YRKFKTELSEIGHNYQELSKMIQTSGRL--SRTKKN 58
                             5688999999999999999999844443..334433 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.00014
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTS..-HHHHHHHHHHHHHHHHHHHHHH..HHHHH CS
                     OmpH  25 ekkfkklqaeleakekelqklqeelqkkakkl.ekeekeqelqkkeqelqqkqqqka..qelqk 85 
                              ++k+k++++e+++  ++lq++ +el+k+ k+      k ++  kke++  ++++++   +el++
  PHY93_09595|PHY93_09595 176 DSKSKEIRNEIDKGLRALQEAHDELEKELKEVgIISGKTKDTTKKEKNPTREYEKAGgdKELEE 239
                              56889********************977766544666666666666666665555556666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (299 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1202  (0.0670422); expected 358.6 (0.02)
Passed bias filter:                      750  (0.0418317); expected 358.6 (0.02)
Passed Vit filter:                        70  (0.00390429); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.20s 00:00:00.74 Elapsed: 00:00:00.37
# Mc/sec: 2423.15
//
Query:       PHY93_09600|PHY93_09600  [L=161]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (161 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       495  (0.0276089); expected 358.6 (0.02)
Passed bias filter:                      368  (0.0205254); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 1215.68
//
Query:       PHY93_09605|PHY93_09605  [L=146]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      3e-11   43.4   0.0    3.3e-11   43.2   0.0    1.1  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
    2.4e-10   40.7   0.1    2.8e-10   40.5   0.1    1.1  1  Acetyltransf_1   Acetyltransferase (GNAT) family
    5.5e-09   36.3   0.1    8.2e-09   35.8   0.1    1.2  1  Acetyltransf_7   Acetyltransferase (GNAT) domain
    1.4e-06   28.2   0.0    1.8e-06   27.8   0.0    1.2  1  FR47             FR47-like protein
     0.0002   21.6   0.8    0.00024   21.3   0.8    1.2  1  Acetyltransf_4   Acetyltransferase (GNAT) domain
     0.0021   18.1   0.1      0.013   15.6   0.1    1.9  1  Acetyltransf_9   Acetyltransferase (GNAT) domain
     0.0089   16.7   0.1       0.01   16.5   0.1    1.1  1  Acetyltransf_3   Acetyltransferase (GNAT) domain
  ------ inclusion threshold ------
      0.064   12.9   0.1      0.098   12.3   0.1    1.4  1  MOZ_SAS          MOZ/SAS family
       0.09   12.9   0.0       0.21   11.8   0.0    1.6  2  Acetyltransf_CG  GCN5-related N-acetyl-transferase


Domain annotation for each model (and alignments):
>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.2   0.0   1.7e-14   3.3e-11      30     120 ..      52     145 ..      18     146 .] 0.79

  Alignments for each domain:
  == domain 1  score: 43.2 bits;  conditional E-value: 1.7e-14
          Acetyltransf_10  30 ealllvaeeggkivGviel.rdgs..hisllfVdpeyrgqGigkaLleaveeeaekdgikleltvnasp.yavpfYeklGFkavge 111
                              + ++++ + + + vG+i   +++   h+sl+++ pe ++  +g++++ ++ ++a++ g k++l+  +++ +a++fYe+lG+k +g+
  PHY93_09605|PHY93_09605  52 NWFYWIKT-DSQRVGYICFwQSDLeiHVSLIIIVPEKQRHSYGRQIMLHLHNQARESGRKITLSSFKKNeEAIRFYETLGYKIIGS 136
                              44555555.5599****995555489****************************9998888666555666**************99 PP

          Acetyltransf_10 112 eqeenGirf 120
                               +++  + f
  PHY93_09605|PHY93_09605 137 DENFVDMAF 145
                              888776666 PP

>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.5   0.1   1.4e-13   2.8e-10      16     117 .]      36     131 ..      10     131 .. 0.80

  Alignments for each domain:
  == domain 1  score: 40.5 bits;  conditional E-value: 1.4e-13
                              HHHHHHHHHHHHHHSTTCEEEE..EEETTEEEEEEEEEEEETTSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHTTESEEEE CS
           Acetyltransf_1  16 nedaseeefeesfsleaegllv..aeedgeliGfisllkipdekggvayieslaVspeyrgkGlGsaLlealeerareegikkivl 99 
                              +++++++ +   f+++    ++  ++ d + +G+i++++ +     ++++  + + pe +++ +G++ + +l  +are  ++ki l
  PHY93_09605|PHY93_09605  36 WNEEFQRSR---FFNQYQLNWFywIKTDSQRVGYICFWQSDL----EIHVSLIIIVPEKQRHSYGRQIMLHLHNQARES-GRKITL 113
                              444444442...2223333333368999**************....7*******************************9.6788** PP

                              EEETTEHHHHHHHHHTTE CS
           Acetyltransf_1 100 aveedndaairlYeklGF 117
                                ++ n+ air+Ye lG+
  PHY93_09605|PHY93_09605 114 SSFKKNEEAIRFYETLGY 131
                              999**********99*98 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.8   0.1   4.1e-12   8.2e-09       6      75 ..      55     132 ..      49     133 .. 0.74

  Alignments for each domain:
  == domain 1  score: 35.8 bits;  conditional E-value: 4.1e-12
                              EEEEETTEEEEEEEEEEESTCTEE..EEE-GGGTTSSHHHHHHHH...TT..SEEEEEEEEE....THHHHHHHHHHTTEE CS
           Acetyltransf_7   6 fVaeddgkivGfialslldaeitr..laVdpeyrgkGiGraLlea...ae..kgiileqlel....naekaikfYeklGFe 75 
                              + ++ d + vG+i+++ +d ei+   + + pe +++ +Gr+++ +   ++  +g + +  +l    ++e+ai+fYe lG++
  PHY93_09605|PHY93_09605  55 YWIKTDSQRVGYICFWQSDLEIHVslIIIVPEKQRHSYGRQIMLHlhnQAreSG-RKI--TLssfkKNEEAIRFYETLGYK 132
                              4489999***********9555557799***************86454114555.212..2322223349**********8 PP

>> FR47  FR47-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.8   0.0   8.9e-10   1.8e-06      25      80 ..      79     134 ..      61     141 .. 0.90

  Alignments for each domain:
  == domain 1  score: 27.8 bits;  conditional E-value: 8.9e-10
                              EEEEE-GGG-SSSHHHHHHHHHHHHHHHS-S-EEEEEETT-HHHHHHHHHHT-EEE CS
                     FR47  25 galqvlpehrrrGlgsrlvkalakeiaergktvllvvvasNtpsirlyeklGfeki 80 
                              + + + pe +r  +g+++   l ++ +e g +++l    +N+++ir+ye lG++ i
  PHY93_09605|PHY93_09605  79 SLIIIVPEKQRHSYGRQIMLHLHNQARESGRKITLSSFKKNEEAIRFYETLGYKII 134
                              678899***********************************************987 PP

>> Acetyltransf_4  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.8   1.2e-07   0.00024      39     143 ..      44     140 ..      11     144 .. 0.83

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 1.2e-07
           Acetyltransf_4  39 kflealdsekeyvflvaesdrivGyaylgqfkkrakdwkaelsvylaerdnnkeglgrelidaleqvlkeqnienllaeiaspnen 124
                              +f +++  + + ++ +  + + vGy    q +    + ++ l + +    ++  ++gr+++ +l + ++e + ++++ + +++ne+
  PHY93_09605|PHY93_09605  44 RFFNQY--QLNWFYWIKTDSQRVGYICFWQSDL---EIHVSLIIIVP--EKQRHSYGRQIMLHLHNQARESG-RKITLSSFKKNEE 121
                              677777..4456788888999999999998888...77888888885..48999**************9988.8999999****** PP

           Acetyltransf_4 125 siqfhkalGFelvgifkkc 143
                              +i f++ lG+++ g  +++
  PHY93_09605|PHY93_09605 122 AIRFYETLGYKIIGSDENF 140
                              **************98887 PP

>> Acetyltransf_9  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.1   6.3e-06     0.013      16     127 ..      29     133 ..      23     134 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 6.3e-06
                              HHHHHTT----H..HHHHHHHHHHTTSEEEEEEETTEEEEEEEEEEEEEEETTEEEEEEEEEEEEE-CCGTTS-HHHHHHHHHHHH CS
           Acetyltransf_9  16 llkyaFqdeespleeireyfrklleesrvlgaedngelvgqlallplelnvpGktlkaagvtgVavapehrgrgvlskLlaralee 101
                              + ++ F+++e+ +   r +f + ++ ++++ +  + + vg +++ + +l ++        v+ +   pe++++ + ++++ +++++
  PHY93_09605|PHY93_09605  29 VIAKTFGWNEEFQ---RSRFFNQYQLNWFYWIKTDSQRVGYICFWQSDLEIH--------VSLIIIVPEKQRHSYGRQIMLHLHNQ 103
                              5667777777773...577888888888888888888888888888888886........8889999******************* PP

                              HHHTT--EEEE--....SSHHHHHTTT-EE CS
           Acetyltransf_9 102 mreegqplsllfP....ssipiYrrfGyei 127
                              +re g +++l        +i++Y+ +Gy+i
  PHY93_09605|PHY93_09605 104 ARESGRKITLSSFkkneEAIRFYETLGYKI 133
                              ****9998776657766568********97 PP

>> Acetyltransf_3  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.1   5.1e-06      0.01       4     138 .]       7     132 ..       4     132 .. 0.71

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 5.1e-06
           Acetyltransf_3   4 LrplteeDlealfel..rsdpe.vmrylpepltleeaeewlerawaeeseeegygwaivlkdtgviGsvglrdleeedeeaelgym 86 
                              ++p+  +Dle+ f +  +s ++ + + +++  ++e +++++ + ++      ++ + i + d++ +G++ +++ + e   ++++++
  PHY93_09605|PHY93_09605   7 IVPMINSDLEEAFIFykVSLEDvIAKTFGW--NEEFQRSRFFNQYQL-----NWFYWI-KTDSQRVGYICFWQSDLE---IHVSLI 81 
                              677777777777522225555523333444..445555555544553.....566777.455546*******99988...999988 PP

           Acetyltransf_3  87 la.psfwgkGyateavralleyafeelglerlvavidkeNeaSirvleklGfe 138
                              +  p+ +++ y++  +  l + a e    +++     k+Ne  ir +e lG++
  PHY93_09605|PHY93_09605  82 IIvPEKQRHSYGRQIMLHLHNQARESG--RKITLSSFKKNEEAIRFYETLGYK 132
                              776888999**************5555..77********************86 PP

>> MOZ_SAS  MOZ/SAS family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.1   4.9e-05     0.098      51      99 ..      54      97 ..      17     110 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 4.9e-05
                  MOZ_SAS 51 fYvlteadeegahivGyFskekesaeeynlaCilvlPpyqrkgyGklli 99
                             fY +  +d   ++ vGy    + s+ e  ++ i+++P  qr+ yG+ ++
  PHY93_09605|PHY93_09605 54 FYWIK-TD---SQRVGYICFWQ-SDLEIHVSLIIIVPEKQRHSYGRQIM 97
                             34333.33...45688888777.788999****************9876 PP

>> Acetyltransf_CG  GCN5-related N-acetyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0       4.6   9.1e+03      11      24 ..      16      29 ..      11      32 .. 0.66
   2 ?   11.8   0.0    0.0001      0.21       2      63 ..      55     114 ..      54     128 .. 0.90

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 4.6
          Acetyltransf_CG 11 evafleYevrkegv 24
                             e+af+ Y+v+ e+v
  PHY93_09605|PHY93_09605 16 EEAFIFYKVSLEDV 29
                             46888888666555 PP

  == domain 2  score: 11.8 bits;  conditional E-value: 0.0001
          Acetyltransf_CG   2 feltldegeevafleYevrkegvldfthTeVpeelrGkGiAkkLvkaalddareeglkvvpt 63 
                              + +++d  ++v+++ +  + + ++++  +++ +e +++ ++++++ +  ++are g k+ ++
  PHY93_09605|PHY93_09605  55 YWIKTD-SQRVGYICFW-QSDLEIHVSLIIIVPEKQRHSYGRQIMLHLHNQARESGRKITLS 114
                              456666.7899***995.788899**********************************9875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (146 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       520  (0.0290033); expected 358.6 (0.02)
Passed bias filter:                      362  (0.0201908); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1128.51
//
Query:       PHY93_09615|PHY93_09615  [L=313]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (313 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       406  (0.0226449); expected 358.6 (0.02)
Passed bias filter:                      367  (0.0204696); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.19s 00:00:00.68 Elapsed: 00:00:00.38
# Mc/sec: 2440.52
//
Query:       PHY93_09620|PHY93_09620  [L=337]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    3.1e-12   47.2   0.0      7e-12   46.0   0.0    1.6  1  Radical_SAM  Radical SAM superfamily
    8.6e-07   29.3   0.0    1.7e-06   28.3   0.0    1.4  1  Fer4_12      4Fe-4S single cluster domain
      1e-06   28.9   0.0    1.9e-06   28.0   0.0    1.4  1  Fer4_14      4Fe-4S single cluster domain
     0.0023   18.1   0.0     0.0047   17.1   0.0    1.5  1  LAM_C        Lysine-2,3-aminomutase


Domain annotation for each model (and alignments):
>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.0   0.0   1.6e-15     7e-12       2     161 ..      94     247 ..      93     253 .. 0.82

  Alignments for each domain:
  == domain 1  score: 46.0 bits;  conditional E-value: 1.6e-15
                              EEESEESS--TTTSCCTTHHHHHHHHHHHHHHHHHHHHHHH.HHTTSEEEEEESSTGGGS.....TTHHHHHHHHHHTCCCTEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxx.....xxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM   2 vvtrgCnlrCsfCarpetvrregrgrslsveeileevkelk.aekgvkevilgggeplly.....pdfvellerlaklavpgirit 81 
                              ++t  C+  C++C r+    +e  +++    +  +e+k++  a++ ++evi++gg+pl       + f+++ +++  +  + ir++
  PHY93_09620|PHY93_09620  94 TPTTVCPVLCRYCFRK----NELAEKDEVFNQNFAEAKKYLkANPTINEVIFTGGDPLILsneklASFIQDFAEIESI--KYIRFH 173
                              68999***********....69999999999999999999966666*************9666665566666666666..8***** PP

                              EEECSSCHGHHHHHHHHHTT-SEEEEEEBSSSHH...HHHHHHTCTSHHHHHHHHHHHHHHTTSETEEEEEEEBTTTSHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM  82 vetngtlpdeeklerllelgvdrvslgleaadde...kvlklmnrghtfeevlealeklreagikrvvdrivglpGendeele 161
                                t+ +lp      r+++ g+  v  ++  +  +   +++  + + +   ev+ea+++l++agi+ v++ +v+l+G+nd++ e
  PHY93_09620|PHY93_09620 174 SRTPVILP-----GRIDD-GFLAVMTSASEIFMRsmlMIHINH-GDELDAEVVEAIKLLTDAGIE-VFSQTVLLKGVNDQT-E 247
                              ********.....99999.777777777777777655555555.667779***************.*************97.4 PP

>> Fer4_12  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.3   0.0   3.8e-10   1.7e-06      12      84 ..      96     166 ..      83     176 .. 0.76

  Alignments for each domain:
  == domain 1  score: 28.3 bits;  conditional E-value: 3.8e-10
                  Fer4_12  12 vsgCnlsCkgCfnketwsfksgkeftkelleeiiedlkkesiegltllGGEPllpenaeallelvkevkeekp 84 
                              ++ C++ C++Cf k+    ++ + f+++ +e      +++ i++++++GG+Pl    +e+l+++++ + e  +
  PHY93_09620|PHY93_09620  96 TTVCPVLCRYCFRKNEL-AEKDEVFNQNFAEAKKYLKANPTINEVIFTGGDPLI-LSNEKLASFIQDFAEIES 166
                              677*********65554.455566776666555444558***************.788999****99988655 PP

>> Fer4_14  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.0   0.0   4.2e-10   1.9e-06       2      83 ..      93     170 ..      92     180 .. 0.75

  Alignments for each domain:
  == domain 1  score: 28.0 bits;  conditional E-value: 4.2e-10
                  Fer4_14   2 fvrlsgCnlsCkgCdnketwkselgkpqteelleqilkdlkkseikiqglvltGGePLhyenkkellklvkrlkeeypekki 83 
                              f  +  C++ C+ C++k++ +++ +  +++  + +    lk++   i+++ +tGG+PL+  ++++l  +++   e    k i
  PHY93_09620|PHY93_09620  93 FTPTTVCPVLCRYCFRKNELAEKDEVFNQNFAEAKKY--LKANPT-INEVIFTGGDPLIL-SNEKLASFIQDFAEIESIKYI 170
                              677889************8887766666666665555..555555.799*********66.888999999987765544555 PP

>> LAM_C  Lysine-2,3-aminomutase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.0   1.1e-06    0.0047       9      31 ..     297     320 ..     290     327 .. 0.85

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 1.1e-06
                    LAM_C   9 sGyavPtfvvdaPgGGGkia.lqP 31 
                               G+a+P++v+d PgG Gk++ l+P
  PHY93_09620|PHY93_09620 297 PGWALPQYVIDIPGGEGKVPaLNP 320
                              59*****************73555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (337 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       610  (0.0340231); expected 358.6 (0.02)
Passed bias filter:                      583  (0.0325172); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.50u 0.19s 00:00:00.69 Elapsed: 00:00:00.36
# Mc/sec: 2802.55
//
Query:       PHY93_09625|PHY93_09625  [L=94]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
  ------ inclusion threshold ------
      0.078   12.2   2.0       0.08   12.1   2.0    1.1  1  Herpes_LMP1  Herpesvirus latent membrane protein 1 (LMP1)
       0.36   11.1   0.0       0.36   11.1   0.0    1.9  2  MLANA        Protein melan-A


Domain annotation for each model (and alignments):
>> Herpes_LMP1  Herpesvirus latent membrane protein 1 (LMP1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   2.0   8.9e-06      0.08      26      67 ..      16      58 ..       6      81 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 8.9e-06
                             XXXXXXXXXXXXXXXXXXXXXXXXXXX.XXXXXXXXXXXXXXX CS
              Herpes_LMP1 26 glallllllallfwlyivmsdwtggal.lvlysfallliiiil 67
                              l +l+l l ll+w+y v+s+    ++  v+y f  + i+  +
  PHY93_09625|PHY93_09625 16 QLVILVLHLILLYWMYYVLSNSGAFSMtEVIYHFIGMSIMGAV 58
                             5788999999999999999987665542589999888776444 PP

>> MLANA  Protein melan-A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   1.5       0.1     9e+02      30      51 ..      17      38 ..      14      49 .. 0.72
   2 ?   11.1   0.0     4e-05      0.36      33      70 ..      53      90 ..      36      94 .] 0.79

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.1
                    MLANA 30 llvvvLaillllgCwyykrrsG 51
                             l+++vL ++ll   +y+   sG
  PHY93_09625|PHY93_09625 17 LVILVLHLILLYWMYYVLSNSG 38
                             5677787777777777777776 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 4e-05
                    MLANA 33 vvLaillllgCwyykrrsGYkslrskslkvstlktlvg 70
                              +++++l+ gC y+ r +   +l+ k++  + + + ++
  PHY93_09625|PHY93_09625 53 SIMGAVLIRGCAYWARYHYLNELKAKHIADNEQVNQQT 90
                             589*************9999999999876555554444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (94 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1090  (0.0607954); expected 358.6 (0.02)
Passed bias filter:                      437  (0.0243739); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.37u 0.19s 00:00:00.56 Elapsed: 00:00:00.33
# Mc/sec: 843.35
//
Query:       PHY93_09630|PHY93_09630  [L=298]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.1e-30  107.3   0.4    2.2e-30  106.3   0.2    1.7  2  RNase_T         Exonuclease
    2.5e-06   27.6   0.0    4.7e-06   26.7   0.0    1.4  1  DUF5051         3' exoribonuclease, RNase T-like
    6.4e-05   22.7   0.2    0.00037   20.2   0.2    2.0  1  DNA_pol_A_exo1  3'-5' exonuclease


Domain annotation for each model (and alignments):
>> RNase_T  Exonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  106.3   0.2   3.8e-34   2.2e-30       1     165 []      20     174 ..      20     174 .. 0.96
   2 ?   -3.0   0.0       1.6   9.5e+03     136     154 ..     267     286 ..     262     292 .. 0.71

  Alignments for each domain:
  == domain 1  score: 106.3 bits;  conditional E-value: 3.8e-34
                              EEEEEEESSSTTCTTS-EEEEEEEEEETTCCEEEEEEEEEEEHSSHCSSSHHHHHHHHHCHHHHHTCEBHHHHHHHHHHHHHHHTC CS
                  RNase_T   1 vviDlEttgldakekdeiieiaaisidggeneigetfhfyvkptelakltdecteftgitqemldeapsfkevleefkellrklal 86 
                              ++iDlEttgl++   d+iieiaa+++ ++    ++ ++++++p+ l  +++  t+++ it++m+++ p+  evl+efke+l+ ++ 
  PHY93_09630|PHY93_09630  20 IAIDLETTGLSP-LVDRIIEIAAFKVTKEG---ISLYETLINPEIL--IPPHTTAIHNITDDMVQTSPKLIEVLQEFKEFLG-ETP 98 
                              68**********.8*************996...899**********..**********************************.99* PP

                              CCETTTCEEEESSHHHHHHHHHHHHHHHHHCSEHCECHHHHHHHHHCHHHHHHHHHTTCHSSSSTSSHHHHHHHHHHHH CS
                  RNase_T  87 lvahnaafdvgflraadkrilkkevpkrnqfldtlildkatlkelartsldklaeklgleedgraHrAldDaeataklf 165
                              +vahna fd+gf+++ + r  k++++    + ++ ++++ t+ke  +++l+ l ++l ++  ++ HrAldDa a++ +f
  PHY93_09630|PHY93_09630  99 IVAHNAKFDLGFIVMGLLRA-KIKLS-SALIYCSCKMARITHKEVINHKLATLVKELNIPLLNH-HRALDDAFASLMVF 174
                              *******************9.77777.88899*******************************7.*******9998776 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 1.6
                              HHHHHHHTTCHSSSS.TSSH CS
                  RNase_T 136 ldklaeklgleedgr.aHrA 154
                              l ++ ++++l +++   H +
  PHY93_09630|PHY93_09630 267 LSDMYKSFKLNKITAlRHPS 286
                              56777788888877777755 PP

>> DUF5051  3' exoribonuclease, RNase T-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.7   0.0   7.9e-10   4.7e-06       3     158 ..      20     170 ..      19     176 .. 0.66

  Alignments for each domain:
  == domain 1  score: 26.7 bits;  conditional E-value: 7.9e-10
                  DUF5051   3 lmiDiEtlgneeta.elvsIGaVffpetG..eFyaeidlesdeeagidaetieWWlkqskearaellkdt.qeakslkdalqalee 84 
                              ++iD+Et+g  + +  +++I+a  + ++G   +++ i++e   ++              + a +++++d  q  ++l ++lq+++e
  PHY93_09630|PHY93_09630  20 IAIDLETTGLSPLVdRIIEIAAFKVTKEGisLYETLINPEILIPPH-------------TTAIHNITDDMvQTSPKLIEVLQEFKE 92 
                              68*********66526*******999999*99*******9998655.............45666666444245688899******* PP

                  DUF5051  85 FlekslkvwangasfDlviLraafel.....lipwkywndrdvrtlvala.pelekgeekkreipfe...gvkHnALaDAkhq 158
                              Fl  ++ ++a++a+fDl  +   + +     +    y   +  r    +  +e ++++ ++   + +    ++H AL+DA + 
  PHY93_09630|PHY93_09630  93 FL-GETPIVAHNAKFDLGFIVMGLLRakiklSSALIYCSCKMAR----IThKEVINHKLATLVKELNiplLNHHRALDDAFAS 170
                              **.5899*********9765443323344432223333322222....222333333322222222244789********765 PP

>> DNA_pol_A_exo1  3'-5' exonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.2   0.2   6.2e-08   0.00037      21     129 ..      18     154 ..       3     166 .. 0.69

  Alignments for each domain:
  == domain 1  score: 20.2 bits;  conditional E-value: 6.2e-08
                              SEEEEEEEEE-SSSTTSSEEEEEEEEECS..SEEEEEECTTTTTT-........................HGHHHHHHHT-TTSEE CS
           DNA_pol_A_exo1  21 kvvavDtEttsldlisatlvliliqlgek..eeayiidplelgddv........................alealkrlledenitk 80 
                                +a+D Ett+l +    +++i i+ ++   e+  + ++l +++ +                        +l+ +k++l +   ++
  PHY93_09630|PHY93_09630  18 GLIAIDLETTGLSP--LVDRIIEIAAFKVtkEGISLYETLINPEILipphttaihnitddmvqtspklieVLQEFKEFLGET--PI 99 
                              57999999999999..5555555555444456666666666666447777788888888889999999************65..8* PP

                              EESSHHHHHHHHHHH...HTS--SSEEEHHHHHHHTTHSTT....SSHHHHHHHHH CS
           DNA_pol_A_exo1  81 vghnakfDlevlard...fgielenlfdtmlaayvldyers....hsLdsLaekyl 129
                              v hnakfDl ++       +i+l++    + + ++  ++ +    h+L++L+++++
  PHY93_09630|PHY93_09630 100 VAHNAKFDLGFIVMGllrAKIKLSSAL-IYCSCKMARITHKevinHKLATLVKELN 154
                              *********987664444555555544.34444444444446678*******9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (298 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       558  (0.0311228); expected 358.6 (0.02)
Passed bias filter:                      427  (0.0238162); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.22s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 2181.88
//
Query:       PHY93_16705|PHY93_16705  [L=175]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.4e-26   92.9  25.0    1.7e-26   92.6  25.0    1.1  1  Oxidored_q3   NADH-ubiquinone/plastoquinone oxidoreductase ch
  ------ inclusion threshold ------
       0.06   12.0  17.4      0.088   11.4  17.4    1.3  1  Herpes_LAMP2  Herpesvirus Latent membrane protein 2
       0.34   11.0   0.1       0.34   11.0   0.1    3.3  3  DUF3671       Protein of unknown function
       0.56    9.2  10.4        0.8    8.7  10.4    1.3  1  PHO4          Phosphate transporter family
          1    8.5  21.7        2.5    7.2  21.7    1.6  1  Bac_export_2  FlhB HrpN YscU SpaS Family
        1.4    9.0   0.0        1.4    9.0   0.0    3.6  4  FtsL          Cell division protein FtsL
          2    7.8  14.6        4.4    6.6  14.6    1.6  1  Ceramidase    Ceramidase
        3.3    6.9   7.4        7.6    5.7   0.1    2.1  2  MSP1a         Major surface protein 1a (MSP1a)
          4    6.5  17.4        4.5    6.4  17.4    1.1  1  Herpes_LMP1   Herpesvirus latent membrane protein 1 (LMP1)


Domain annotation for each model (and alignments):
>> Oxidored_q3  NADH-ubiquinone/plastoquinone oxidoreductase chain 6
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   92.6  25.0   8.7e-30   1.7e-26       2     144 .]      15     156 ..      14     156 .. 0.89

  Alignments for each domain:
  == domain 1  score: 92.6 bits;  conditional E-value: 8.7e-30
                              HHHHHH-SBHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHIIIIIHHHHHHHHHHHSSTTS----TTCHHHHHHHHHHHHHHHH CS
              Oxidored_q3   2 allvitsknpvysalfLilsfvgvaglfillgaeFlallqilvYvGAilvlflFvimllesaeeeepeslsrslalaalligllll 87 
                              al+v++sk+ v sa++L+++++++a++f+ lg  Fl+++q+l+ +GAi++lf+Fv+ml++ ++ ++++++s+ + +++ ++ l++l
  PHY93_16705|PHY93_16705  15 ALMVVFSKKTVVSAFALLMTLLSIAMIFFQLGTVFLSAVQVLINAGAIAILFVFVMMLINLEQFQNNREKSKVKLVISTFTILVVL 100
                              89*********************************************************888888888888888888788888888 PP

                              HHHTT--......--------TT-HHHHHHHHTTTTHHHHHHHHHHHHHHHHHHHHC CS
              Oxidored_q3  88 alllllllessssavdaqvadvsnieaigsllftkyllpfelasllLLvaligaivl 144
                               +++l++ + + ++ +  + + ++++a+   lf++y+lpfe+a++lLL+a+++ iv+
  PHY93_16705|PHY93_16705 101 GVFALVINN-NIETLSVVNLTDNSMKALFDKLFNTYFLPFEMATVLLLAAIVACIVI 156
                              887777765.4444466667788********************************97 PP

>> Herpes_LAMP2  Herpesvirus Latent membrane protein 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4  17.4   4.4e-05     0.088      78     184 ..      11     118 ..       4     158 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 4.4e-05
             Herpes_LAMP2  78 civlklwslsttsslstvcliiiallslvtailalikt.lrvvkltlesGllcivtvlvlitsmllqisntwtssqiflplstlll 162
                               +v++l  + +++++  +  ++++lls+   ++ l+   l +v++ ++ G + i  v v+++  l q++n+ ++s++ l +st   
  PHY93_16705|PHY93_16705  11 TVVFALMVVFSKKTVVSAFALLMTLLSIAMIFFQLGTVfLSAVQVLINAGAIAILFVFVMMLINLEQFQNNREKSKVKLVISTFTI 96 
                              5789999988999999999999*************985389******************9999999******************** PP

             Herpes_LAMP2 163 lfflyifatvktgnlklvasvs 184
                              l+ l +fa v   n+   + v 
  PHY93_16705|PHY93_16705  97 LVVLGVFALVINNNIETLSVVN 118
                              **************99988876 PP

>> DUF3671  Protein of unknown function
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -8.0  13.4         9   1.8e+04      55      95 ..      56      69 ..       4     108 .. 0.44
   2 ?    1.0   2.2      0.21   4.2e+02      31      64 ..      81     107 ..      65     122 .. 0.54
   3 ?   11.0   0.1   0.00017      0.34      29      77 ..     120     167 ..     108     175 .] 0.71

  Alignments for each domain:
  == domain 1  score: -8.0 bits;  conditional E-value: 9
                  DUF3671 55 pliglivpilfeakskkslkkkelevlatsieklytiffii 95
                              + +  ++ilf                             +
  PHY93_16705|PHY93_16705 56 LINAGAIAILFVF---------------------------V 69
                             2222222222221...........................1 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.21
                  DUF3671  31 ndkkkfkkkvlkkyglllilpvllpliglivpil 64 
                              n +k+  k       l++ ++ +l+++g+  +++
  PHY93_16705|PHY93_16705  81 NREKSKVK-------LVISTFTILVVLGVFALVI 107
                              33333334.......4444555555555333333 PP

  == domain 3  score: 11.0 bits;  conditional E-value: 0.00017
                  DUF3671  29 knndkkkfkkkvlkkyglllilpvllpliglivpilfeakskkslkkke 77 
                              + n+ k +  k++  y+l++ +  +l l +++ +i+ ++++k   + +e
  PHY93_16705|PHY93_16705 120 TDNSMKALFDKLFNTYFLPFEMATVLLLAAIVACIVITTHEK-HENEEE 167
                              45666777777*********9999999999888888776555.444444 PP

>> PHO4  Phosphate transporter family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.7  10.4    0.0004       0.8      71     192 ..       2     131 ..       1     167 [. 0.56

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 0.0004
                     PHO4  71 lgaavwlllatvlglPvStthslvGaliGaalaaeggeavkwkklvkivlswvlsPllggiiaallfllvkrlilvk...eklkna 153
                              ++ +++ ll++v+ l v  +  +v +  +  +++ +  ++   +l++++ls v   + +g+ia+l++++++ ++l +   ++ k++
  PHY93_16705|PHY93_16705   2 VADIFLTLLTVVFALMVVFSKKTVVSAFALLMTLLSIAMIF-FQLGTVFLSAVQVLINAGAIAILFVFVMMLINLEQfqnNREKSK 86 
                              55666666666666665555444444444444433334443.36*****************************9977766444444 PP

                     PHO4 154 lralpvlvlvtiailalsilfkgesk......kddeeteklfkfl 192
                              ++++   +++++++ +++++++++ +        d++++ lf +l
  PHY93_16705|PHY93_16705  87 VKLVISTFTILVVLGVFALVINNNIEtlsvvnLTDNSMKALFDKL 131
                              444444445555555555555543223333443344444443332 PP

>> Bac_export_2  FlhB HrpN YscU SpaS Family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2  21.7    0.0012       2.5      59     209 ..      14     174 ..       1     175 [] 0.64

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.0012
                              XXXXXXX.XXXXXXXXXXXXXXXXXXXXXXXXXX.XXXX.XXXXXXXXXXXXXXXXXXXXXXXXXXXX..XXXXXXXXXXXXXXXX CS
             Bac_export_2  59 lsalell.lelllallllllplllvlllaallan.llqv.gflfstkalkpklsklnplkglkrifsl..rslvellksllkvvlv 139
                              ++ + ++ ++++++++ ll++ll +++++  l++ +l   ++l+++ a+++ +  + +l +l+++ +   +s v+l+ s++ +++v
  PHY93_16705|PHY93_16705  14 FALMVVFsKKTVVSAFALLMTLLSIAMIFFQLGTvFLSAvQVLINAGAIAILFVFVMMLINLEQFQNNreKSKVKLVISTFTILVV 99 
                              33322222333333333333333333333222220222236777777777777777777777777444226779************ PP

                              XXXXXXXXXXXXXXXX..XXXXXXXXXXXXXXXXXX...XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
             Bac_export_2 140 gavaylvlkseleell..alaeldleaalelllsll...lkllllvllallviallDlllqrwefekklkMtkqE 209
                              + v++lv+++++e+l   +l++ +++a+++ l+++    +++++++lla +v  ++    +++e e++l M k+E
  PHY93_16705|PHY93_16705 100 LGVFALVINNNIETLSvvNLTDNSMKALFDKLFNTYflpFEMATVLLLAAIVACIVITTHEKHENEEELEMLKSE 174
                              **********99887644888889999999877765222578888888888888888899999999999999987 PP

>> FtsL  Cell division protein FtsL
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   2.7       1.2   2.4e+03      18      34 ..       6      22 ..       2      38 .. 0.70
   2 ?   -1.5   2.9       1.3   2.5e+03      30      33 ..      47      50 ..      20      82 .. 0.60
   3 ?   -0.8   0.3      0.79   1.6e+03      17      30 ..      89     102 ..      70     122 .. 0.56
   4 ?    9.0   0.0    0.0007       1.4       5      51 ..     127     175 .]     123     175 .] 0.75

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 1.2
                     FtsL 18 lllllvlvsavavvlit 34
                             +l+ll++v a++vv++ 
  PHY93_16705|PHY93_16705  6 FLTLLTVVFALMVVFSK 22
                             57777777777777765 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 1.3
                     FtsL 30 vvli 33
                             +v+ 
  PHY93_16705|PHY93_16705 47 TVFL 50
                             3322 PP

  == domain 3  score: -0.8 bits;  conditional E-value: 0.79
                     FtsL  17 llllllvlvsavav 30 
                              l++  ++++  ++v
  PHY93_16705|PHY93_16705  89 LVISTFTILVVLGV 102
                              33333322222222 PP

  == domain 4  score: 9.0 bits;  conditional E-value: 0.0007
                     FtsL   5 ilkdllsvgkvlllllllvlvsava..vvlithqtRqlvselekllser 51 
                               +++l++  ++ + ++ ++l++a+   +v++th+ ++   ele+l+se+
  PHY93_16705|PHY93_16705 127 LFDKLFNTYFLPFEMATVLLLAAIVacIVITTHEKHENEEELEMLKSEE 175
                              5666777777777777777777764348999************999985 PP

>> Ceramidase  Ceramidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.6  14.6    0.0022       4.4      90     193 ..      10     110 ..       2     172 .. 0.71

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.0022
               Ceramidase  90 yatalvlyavfsekksrstrvllgvlltalavvvtllylvlkepvlhqvafalltvlvllrsiyliekkvdksdeaakkevkklal 175
                              ++++ +l++vfs+k+  s  +ll +ll++ ++++ l +++l  + +  +a a+++++v +++++ +e +   +++++k++vk ++ 
  PHY93_16705|PHY93_16705  10 LTVVFALMVVFSKKTVVSAFALLMTLLSIAMIFFQLGTVFLSAVQVLINAGAIAILFVFVMMLINLE-QF--QNNREKSKVKLVIS 92 
                              4455556666665555555556666667777777777777666555555544444444444444443.33..46789999999999 PP

               Ceramidase 176 lgliifllgfliWnlDnl 193
                              + +i+++lg++  +++n 
  PHY93_16705|PHY93_16705  93 TFTILVVLGVFALVINNN 110
                              999999999998888775 PP

>> MSP1a  Major surface protein 1a (MSP1a)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.9   3.5     0.028        55      31     129 ..       8     103 ..       3     112 .. 0.78
   2 ?    5.7   0.1    0.0038       7.6     120     137 ..     141     158 ..     132     162 .. 0.87

  Alignments for each domain:
  == domain 1  score: 2.9 bits;  conditional E-value: 0.028
                    MSP1a  31 aLvaavfaiCaCLepalaGasgtLiWgCLalvvLLpLlgaaaviavadesedkaagdaarvvkeessrelsrelseDrsklkamaa 116
                               L+  vfa+   +  + + ++ +L  + L++ +++  lg++   av+  ++ +a++     v       +  + +++r+k+k+  +
  PHY93_16705|PHY93_16705   8 TLLTVVFALMVVFSKKTVVSAFALLMTLLSIAMIFFQLGTVFLSAVQVLINAGAIAILFVFVM---MLINLEQFQNNREKSKVKLV 90 
                              58889999999988888888889*************************999999998776666...34445566777777777777 PP

                    MSP1a 117 Laalsvlaliaai 129
                              ++++++l+++++ 
  PHY93_16705|PHY93_16705  91 ISTFTILVVLGVF 103
                              7777777766654 PP

  == domain 2  score: 5.7 bits;  conditional E-value: 0.0038
                    MSP1a 120 lsvlaliaaivaCicvda 137
                              ++ + l+aaivaCi++ +
  PHY93_16705|PHY93_16705 141 MATVLLLAAIVACIVITT 158
                              788899********9976 PP

>> Herpes_LMP1  Herpesvirus latent membrane protein 1 (LMP1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.4  17.4    0.0023       4.5      29     128 ..       5     108 ..       1     156 [. 0.66

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.0023
                              XXXXXXXXXXXXXXXXXXXXXXX....XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX..XXXXXXXX CS
              Herpes_LMP1  29 llllllallfwlyivmsdwtgga....llvlysfallliiiiliififrrdllcplgalcllllmitlllialwnl..hgqalylg 108
                              ++l ll+++f l +v+s  t  +    l+ l s+a+++   +  +f+   ++l   ga+++l++++  +li l ++    +   + 
  PHY93_16705|PHY93_16705   5 IFLTLLTVVFALMVVFSKKTVVSafalLMTLLSIAMIF-FQLGTVFLSAVQVLINAGAIAILFVFVM-MLINLEQFqnNREKSKVK 88 
                              5788999**********998643111123344444443.334578999999*********9987765.455554440044566788 PP

                              XXXXXXXXXXXXXXXXXXXX CS
              Herpes_LMP1 109 ivlfifgcllvlglwiylle 128
                              +v+  f  l+vlg++  +++
  PHY93_16705|PHY93_16705  89 LVISTFTILVVLGVFALVIN 108
                              89999********9977653 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (175 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1673  (0.0933125); expected 358.6 (0.02)
Passed bias filter:                      423  (0.0235931); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                        29  (0.00161749); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.65u 0.25s 00:00:00.90 Elapsed: 00:00:00.41
# Mc/sec: 1294.59
//
Query:       PHY93_09635|PHY93_09635  [L=459]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.8e-57  192.9   3.5    6.8e-57  192.9   3.5    1.4  2  Pyr_redox_2    Pyridine nucleotide-disulphide oxidoreductase
    4.3e-31  107.4   0.3    8.6e-31  106.5   0.3    1.6  1  Pyr_redox_dim  Pyridine nucleotide-disulphide oxidoreductase,
    1.4e-16   60.8   7.8    3.8e-13   49.8   0.1    3.9  3  Pyr_redox      Pyridine nucleotide-disulphide oxidoreductase
    7.5e-08   32.5   0.5      0.021   15.0   0.1    2.9  2  NAD_binding_8  NAD(P)-binding Rossmann-like domain
    1.3e-07   31.0   3.9    1.1e-05   24.7   2.6    2.9  3  GIDA           Glucose inhibited division protein A
    1.2e-06   28.2   0.2    1.8e-06   27.6   0.2    1.2  1  FAD_oxidored   FAD dependent oxidoreductase
    8.9e-06   25.2   8.9    5.1e-05   22.7   8.9    2.6  1  Pyr_redox_3    Pyridine nucleotide-disulphide oxidoreductase
      2e-05   23.8   1.8    7.8e-05   21.9   0.8    2.3  2  FAD_binding_2  FAD binding domain
     0.0012   18.2   2.3     0.0013   18.1   0.0    2.2  3  2-Hacid_dh_C   D-isomer specific 2-hydroxyacid dehydrogenase,
     0.0018   17.0   5.5     0.0022   16.8   0.5    2.9  4  HI0933_like    HI0933-like protein
     0.0098   15.2   1.2          1    8.6   0.2    2.8  3  AlaDh_PNT_C    Alanine dehydrogenase/PNT, C-terminal domain
  ------ inclusion threshold ------
      0.014   15.2   0.6      0.039   13.8   0.0    1.9  2  3HCDH_N        3-hydroxyacyl-CoA dehydrogenase, NAD binding d
      0.059   12.6   0.5          3    7.0   0.2    2.4  2  FAD_binding_3  FAD binding domain
       0.45   10.1   5.5         12    5.3   0.3    3.2  3  DAO            FAD dependent oxidoreductase


Domain annotation for each model (and alignments):
>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  192.9   3.5   5.3e-60   6.8e-57       1     294 []       4     323 ..       4     323 .. 0.94
   2 ?   -2.9   0.0       2.5   3.2e+03     189     214 ..     359     382 ..     352     396 .. 0.72

  Alignments for each domain:
  == domain 1  score: 192.9 bits;  conditional E-value: 5.3e-60
                              CSEEEE--SHHHHHHHHHHHHHTS-EEEEE...TTHCHHHCSHHHHCHHHHHHHHHHHHH........................HH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxx........................xx RF
              Pyr_redox_2   1 kdvvviGgGpAGlaaaltlaqagakvtlve...legtclnggcllskallgvaedaeias........................ev 59 
                              +d+vv+G+Gp+G+ aa++++q g kv++ve    +g cln+gc+++ka+l++a+  ++++                          
  PHY93_09635|PHY93_09635   4 FDLVVLGSGPGGYIAAIRASQLGKKVAIVEmdkMGGVCLNRGCIPTKAVLKSAHSVHELQdmkdlginitingldgaqavkratGI 89 
                              589**************************9999************************999************************99 PP

                              HHCHHHHCCCCHCCTCEEEEESCEEEEETEEEC....TCEEEEEESEEEE---EEE-BCTCTTC.TTBEECCSECHHHHHHCCSS- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2  60 vkklnqgielllgeevvkidpgkkkvklekkke....gdeekiaydklvlAtGssprdlgipGvaenvgklvrtldsaealklkll 141
                               +++++g+++l++++ ++++ g +k+k  +++e    +  e +++++l++AtG++ +++  pG+ e+   + r +   ea+k + l
  PHY93_09635|PHY93_09635  90 SDRISKGVTFLMKKNNIEVISGFGKIKSATTVEvksaSGVEIVTFKNLIVATGAHYKTF--PGL-EHD--GKRLIGAWEAVKMETL 170
                              99**************************999999999677899***************9..9*9.555..4579************ PP

                              TSEEEEES-SHHHHHHHHHHHHHT-EEEEEESSSSSSTTS-HHHHHHHHHHHHHTTEEEEESCEEEEEEETTEEEE...EEETTSC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxx RF
              Pyr_redox_2 142 pkrivvvGgGyiGvElAaalaklgkevtlveardrllraldkelsaaleealekeGvevklgtsvkeidgngekle...vvledge 224
                              pk+i ++G+G+iGvE+A +++ +g+ev++ e  ++ll+  d++ s ++e+a +k G+++ lg + +++ +ng++++    +++++ 
  PHY93_09635|PHY93_09635 171 PKSIGIIGAGAIGVEFAYFWNAFGVEVHIFELQSHLLPIEDDDSSIEVEKAYKKYGIKMSLGIEGVRAVNNGNDVSiyaKIEGKEV 256
                              ***************************************************************99999999996777445555555 PP

                              EEEESEEEE-S-EEES-HHCS.HCCT-EEEETTEEE--TTSBESSTTEEE-GGGCTECCSS--HHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 225 eidadlvvvavGvrpstelle.eklglelderggivvdeflrtnvpgiyaiGDvaggkggpelaqaAvqqG 294
                              e + ++ ++avG++ + + ++ e++g+++ erg+i v + ++tnvp+iyaiGDv    g p la+aA+ +G
  PHY93_09635|PHY93_09635 257 EHKFEMGLIAVGMTGNIDNIGlESVGIKT-ERGFISVTPMYQTNVPNIYAIGDVS---GPPLLAHAASHEG 323
                              599*************************9.*************************...9999999999887 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 2.5
                              HHHHHHHTTEEEEESCEEEEEEETTE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 189 leealekeGvevklgtsvkeidgnge 214
                               e++l+++G+e k+g+ +  + +ng+
  PHY93_09635|PHY93_09635 359 TERELKAQGIEYKVGKLP--FVANGK 382
                              578999999999998877..444444 PP

>> Pyr_redox_dim  Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  106.5   0.3   6.7e-34   8.6e-31       1     109 [.     343     450 ..     343     451 .. 0.96

  Alignments for each domain:
  == domain 1  score: 106.5 bits;  conditional E-value: 6.7e-34
                              BEEEEESSSEEEEEES-HHHHHHHHSGEEEEEEEEECGHHHCHTTHTEEEEEEEEETTTTBEEEEEEECTTHHHHHHHHHHHHHTT CS
            Pyr_redox_dim   1 iptvvftdpevasvGlteeeAkaagieikvgkfpfkangralayaetkgfvKlvadaktgkvlGahivGpgageliqelavaikag 86 
                              ip +++++p+vasvG+te e+ka+gie+kvgk+pf ang+a+a++e++gfvK ++ +  g++lGahivG +a+e+i+e+a+  +++
  PHY93_09635|PHY93_09635 343 IPGCTYCQPQVASVGYTERELKAQGIEYKVGKLPFVANGKAVASNEKDGFVKTLMGK-HGEMLGAHIVGTQATEMIHEYALFKTME 427
                              79***************************************************7765.9*************************** PP

                              SBHHHHHTSBSSSSSTGGGGHCH CS
            Pyr_redox_dim  87 ltvedladtihihPtlsealkea 109
                                 e++  t+h+hPtl e l ea
  PHY93_09635|PHY93_09635 428 GIDEEIFATVHPHPTLGEWLGEA 450
                              *****************988776 PP

>> Pyr_redox  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.9   0.3   0.00086       1.1       2      31 ..       6      35 ..       5      40 .. 0.93
   2 ?    3.6   0.1     0.078     1e+02      40      61 ..      91     112 ..      81     137 .. 0.64
   3 !   49.8   0.1     3e-16   3.8e-13       2      73 ..     174     245 ..     173     253 .. 0.93

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00086
                             EEEECSSHHHHHHHHHHHHTTSEEEEEESS CS
                Pyr_redox  2 vvvvGgGyiglElAgalaelgkkVtvvers 31
                             +vv+G+G  g  +A  +++lgkkV +ve+ 
  PHY93_09635|PHY93_09635  6 LVVLGSGPGGYIAAIRASQLGKKVAIVEMD 35
                             79**************************96 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.078
                              HHHHHHHHHHHHHTTEEEECSE CS
                Pyr_redox  40 eeaskilqeklekngievllnt 61 
                              + +sk ++  ++kn+iev+ + 
  PHY93_09635|PHY93_09635  91 DRISKGVTFLMKKNNIEVISGF 112
                              6789999999********9874 PP

  == domain 3  score: 49.8 bits;  conditional E-value: 3e-16
                              EEEECSSHHHHHHHHHHHHTTSEEEEEESSSSSSTTSSHHHHHHHHHHHHHTTEEEECSEEEEEEEEETTSE CS
                Pyr_redox   2 vvvvGgGyiglElAgalaelgkkVtvversdkllrllDeeaskilqeklekngievllntkveeiegsedgv 73 
                              + ++G+G ig+E+A +++++g +V+++e +++ll+ +D++ s ++++  +k gi++ l+ + ++ + +++ v
  PHY93_09635|PHY93_09635 174 IGIIGAGAIGVEFAYFWNAFGVEVHIFELQSHLLPIEDDDSSIEVEKAYKKYGIKMSLGIEGVRAVNNGNDV 245
                              78*********************************************************9999999888763 PP

>> NAD_binding_8  NAD(P)-binding Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.1   1.7e-05     0.021       1      36 [.       8      42 ..       8      68 .. 0.85
   2 !   14.8   0.1     2e-05     0.025       1      31 [.     176     206 ..     176     206 .. 0.97

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 1.7e-05
                             EE--SHHHHHHHHHHHCCTEEEEEE-SSSSSSGGG- CS
            NAD_binding_8  1 IvGaGlsGlvaAylLakagfdvlllekrdrlGGraa 36
                             ++G+G +G  aA ++++ g++v ++e+ d+ GG + 
  PHY93_09635|PHY93_09635  8 VLGSGPGGYIAAIRASQLGKKVAIVEM-DKMGGVCL 42
                             89************************9.57888775 PP

  == domain 2  score: 14.8 bits;  conditional E-value: 2e-05
                              EE--SHHHHHHHHHHHCCTEEEEEE-SSSSS CS
            NAD_binding_8   1 IvGaGlsGlvaAylLakagfdvlllekrdrl 31 
                              I+GaG+ G  +Ay+    g++v+++e +++l
  PHY93_09635|PHY93_09635 176 IIGAGAIGVEFAYFWNAFGVEVHIFELQSHL 206
                              9**************************9986 PP

>> GIDA  Glucose inhibited division protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.7   2.6   8.8e-09   1.1e-05       1     152 [.       5     145 ..       5     161 .. 0.77
   2 ?    3.9   0.0     0.018        23       2      30 ..     174     202 ..     173     220 .. 0.87
   3 ?   -0.8   0.0       0.5   6.4e+02     351     368 ..     297     313 ..     277     331 .. 0.74

  Alignments for each domain:
  == domain 1  score: 24.7 bits;  conditional E-value: 8.8e-09
                              CEEEE-SSHHHHHHHHHHHHTT--EEEE..ES-GGGTT--SSSSEEE-TTHHHHHHHHHHHT-SHHHHHHHHEEEEEEESTTS-.C CS
                     GIDA   1 dviViGgGhAGceAAlaaarlGakvlLi..thkldtiaelsCnpsiggiakgllvrEidalggliikaadkagiqfrilNrskG.p 83 
                              d++V+G G  G+ AA+ a++lG kv+++   +  + +++ +C p+   + +++ v+E++ ++ l i+++  +g+         G +
  PHY93_09635|PHY93_09635   5 DLVVLGSGPGGYIAAIRASQLGKKVAIVemDKMGGVCLNRGCIPTKAVLKSAHSVHELQDMKDLGINITI-NGL--------DGaQ 81 
                              689*************************7566677899**********************9977666553.333........2204 PP

                              CC-EEEEEE-HHHHHHHHHHHHHTSTTEEEEES-EEEEEECTTEEEEEEETTS.-EEEECEEEE--TT-B CS
                     GIDA  84 avralraqvdrelyskevteklenepnleiieeeveeliveekkvkgvvtedg.etikakavviatGtfl 152
                              av+   a    +++sk vt  +++ +n+e+i++  + ++    ++  v+ ++g e+++ k+ ++atG+  
  PHY93_09635|PHY93_09635  82 AVKR--ATGISDRISKGVTFLMKK-NNIEVISGFGK-IKS--ATTVEVKSASGvEIVTFKNLIVATGAHY 145
                              4444..466667788999888877.9*****99875.533..4566666666614556679******944 PP

  == domain 2  score: 3.9 bits;  conditional E-value: 0.018
                              EEEE-SSHHHHHHHHHHHHTT--EEEEES CS
                     GIDA   2 viViGgGhAGceAAlaaarlGakvlLith 30 
                              + +iG+G  G+e A+     G++v ++  
  PHY93_09635|PHY93_09635 174 IGIIGAGAIGVEFAYFWNAFGVEVHIFEL 202
                              569*********************99843 PP

  == domain 3  score: -0.8 bits;  conditional E-value: 0.5
                              BBSSSBTEEE-CGGGTB- CS
                     GIDA 351 etkkvkgLflAGqinGte 368
                              +t +v+++++ G+++G  
  PHY93_09635|PHY93_09635 297 QT-NVPNIYAIGDVSGPP 313
                              45.49**********976 PP

>> FAD_oxidored  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.6   0.2   1.4e-09   1.8e-06       1      36 [.       5      39 ..       5      63 .. 0.87

  Alignments for each domain:
  == domain 1  score: 27.6 bits;  conditional E-value: 1.4e-09
             FAD_oxidored  1 DvvVvGGgpaGvaAAiaAaraGakvlLveergvlGG 36
                             D+vV G+gp+G++AAi A + G+kv++ve +++ GG
  PHY93_09635|PHY93_09635  5 DLVVLGSGPGGYIAAIRASQLGKKVAIVEMDKM-GG 39
                             99**************************98764.55 PP

>> Pyr_redox_3  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.7   8.9     4e-08   5.1e-05       1     305 []       7     307 ..       7     307 .. 0.69

  Alignments for each domain:
  == domain 1  score: 22.7 bits;  conditional E-value: 4e-08
              Pyr_redox_3   1 iIiGaGPaGlaaaielkkagledylilEkgnignsiyr...ypkemtfispsftse..kleipdlnaiseetspafslkeeklsrk 81 
                              ++ G GP G  aai + ++g  ++ i+E +++g    +    p++  + s    +e  +++  ++n ++++   a ++k+     +
  PHY93_09635|PHY93_09635   7 VVLGSGPGGYIAAIRASQLGK-KVAIVEMDKMGGVCLNrgcIPTKAVLKSAHSVHElqDMKDLGINITINGLDGAQAVKRATGISD 91 
                              689*****************9.7*******99988765454777777777665555115555567888888888888999888889 PP

              Pyr_redox_3  82 ealeYlrevaksfelpikl.feeVesvkkedegfevetske..tyeAkkviiAtGefdkPnklnipGeeklvkhyskvkefhkya. 163
                               + + ++ ++k++++++   f +   +k+ +++ ev++ ++   ++ k++i+AtG     ++  +pG e+  k+     e+ k++ 
  PHY93_09635|PHY93_09635  92 RISKGVTFLMKKNNIEVISgFGK---IKS-ATTVEVKSASGveIVTFKNLIVATGA----HYKTFPGLEHDGKRLIGAWEAVKMEt 169
                              99999999999999976541444...443.45667777776547899********9....56677887753333322222223332 PP

              Pyr_redox_3 164 .gqkvvViGgknSavDaAlelvrkgaeVtvvtrgseiekeesdpsyslkpdienrleelvkeekikvlfnae.vkeikekeeeykv 247
                                + + +iG++  +v+ A+   + g eV+++  +s++   e+d s         ++e+++k+  ik+    e v+++++  + + +
  PHY93_09635|PHY93_09635 170 lPKSIGIIGAGAIGVEFAYFWNAFGVEVHIFELQSHLLPIEDDDS-------SIEVEKAYKKYGIKMSLGIEgVRAVNN-GNDVSI 247
                              267899**************************9999988764444.......234444444433555444321333333.333443 PP

              Pyr_redox_3 248 k.tedgkkvevkddv.vlatGykpdlsflkk..slfeldedgrpvlteeteetnvpglflaG 305
                                + +gk+ve k ++ ++a+G + +++ +     ++++ e g++ +t+   +tnvp+++ +G
  PHY93_09635|PHY93_09635 248 YaKIEGKEVEHKFEMgLIAVGMTGNIDNIGLesVGIKT-ERGFISVTPM-YQTNVPNIYAIG 307
                              3244667777766652677*******997664255554.9999999986.57*******999 PP

>> FAD_binding_2  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.9   0.8   6.1e-08   7.8e-05       1      32 [.       5      36 ..       5     106 .. 0.83
   2 ?   -0.5   0.0       0.4   5.1e+02     390     402 ..     298     310 ..     289     325 .. 0.81

  Alignments for each domain:
  == domain 1  score: 21.9 bits;  conditional E-value: 6.1e-08
                             SEEEE--SHHHHHHHHHHHHTTT-EEEEESSS CS
            FAD_binding_2  1 DviViGsGlAGLaAAleaaeaGlkvavvekeq 32
                             D++V GsG +G+ AA++a++ G+kva+ve  +
  PHY93_09635|PHY93_09635  5 DLVVLGSGPGGYIAAIRASQLGKKVAIVEMDK 36
                             89**************************9765 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.4
                              ESSBTEEE-STCE CS
            FAD_binding_2 390 qpipGLYAaGeva 402
                              +++p+ YA+G v 
  PHY93_09635|PHY93_09635 298 TNVPNIYAIGDVS 310
                              589*******997 PP

>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.3       2.9   3.7e+03      39      66 ..       6      33 ..       4      40 .. 0.84
   2 ?   -3.2   0.0       3.5   4.4e+03      41      65 ..     109     134 ..     103     141 .. 0.77
   3 !   18.1   0.0     1e-06    0.0013      33      68 ..     168     203 ..     153     224 .. 0.82

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 2.9
                             EEEES-SHHHHHHHHHHHHTT-EEEEES CS
             2-Hacid_dh_C 39 vGiiGlGrIGqavakrlkafgmkviayd 66
                             + ++G G  G  +a r++++g kv +++
  PHY93_09635|PHY93_09635  6 LVVLGSGPGGYIAAIRASQLGKKVAIVE 33
                             5689999999999999999999998775 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 3.5
                              EES-SHHHHHHHHHHH.HTT-EEEEE CS
             2-Hacid_dh_C  41 iiGlGrIGqavakrlk.afgmkviay 65 
                              i G+G+I +a+   +k a g++++ +
  PHY93_09635|PHY93_09635 109 ISGFGKIKSATTVEVKsASGVEIVTF 134
                              78999998888877776777777765 PP

  == domain 3  score: 18.1 bits;  conditional E-value: 1e-06
                              -GTTSEEEEES-SHHHHHHHHHHHHTT-EEEEESSS CS
             2-Hacid_dh_C  33 elsgktvGiiGlGrIGqavakrlkafgmkviaydrs 68 
                              e   k +GiiG+G+IG ++a   +afg++v +++ +
  PHY93_09635|PHY93_09635 168 ETLPKSIGIIGAGAIGVEFAYFWNAFGVEVHIFELQ 203
                              555689************************998766 PP

>> HI0933_like  HI0933-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.5   1.7e-06    0.0022       2      33 ..       5      36 ..       4      42 .. 0.91
   2 ?   -1.6   0.0      0.63     8e+02     138     164 ..     116     143 ..      92     156 .. 0.70
   3 ?    1.2   0.0     0.091   1.2e+02       3      33 ..     174     204 ..     172     207 .. 0.87
   4 ?   -3.5   0.0       2.4   3.1e+03     365     384 ..     290     309 ..     265     309 .. 0.83

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 1.7e-06
                             SEEEE--SHHHHHHHHHHHHTT--EEEE-SSS CS
              HI0933_like  2 dviviGgGaAGlmaAisaakrgkrVlllekak 33
                             d++v+G G+ G  aAi+a++ gk+V+++e  k
  PHY93_09635|PHY93_09635  5 DLVVLGSGPGGYIAAIRASQLGKKVAIVEMDK 36
                             89**************************9765 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 0.63
                              ETTE.EEEEE..TTEEEEESEEEE---- CS
              HI0933_like 138 eedgkfrvkt.kseeeleadklvlAtGG 164
                              ++  +++vk  ++ e ++ ++l++AtG 
  PHY93_09635|PHY93_09635 116 KSATTVEVKSaSGVEIVTFKNLIVATGA 143
                              334445666655778899999****997 PP

  == domain 3  score: 1.2 bits;  conditional E-value: 0.091
                              EEEE--SHHHHHHHHHHHHTT--EEEE-SSS CS
              HI0933_like   3 viviGgGaAGlmaAisaakrgkrVlllekak 33 
                              + +iG+Ga G+  A   ++ g +V ++e ++
  PHY93_09635|PHY93_09635 174 IGIIGAGAIGVEFAYFWNAFGVEVHIFELQS 204
                              569**********************999765 PP

  == domain 4  score: -3.5 bits;  conditional E-value: 2.4
                              B-TTT-BBTTSTTEEE-GGG CS
              HI0933_like 365 vssktmeskkvpgLffaGEv 384
                              +s   m   +vp+++ +G v
  PHY93_09635|PHY93_09635 290 ISVTPMYQTNVPNIYAIGDV 309
                              67778999999*****9987 PP

>> AlaDh_PNT_C  Alanine dehydrogenase/PNT, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.6   0.2   0.00078         1      31      61 ..       6      36 ..       2      93 .. 0.90
   2 ?    4.5   0.0     0.015        19      28      62 ..     171     205 ..     159     227 .. 0.87
   3 ?   -3.1   0.0         3   3.9e+03      34      46 ..     404     416 ..     401     421 .. 0.81

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.00078
                             EEEESTSHHHHHHHHHHHHTT-EEEEEESSH CS
              AlaDh_PNT_C 31 vlviGgGvaGlqAiatakglgakVtvlDvrp 61
                              +v+G G  G  A+  a++lg kV ++++++
  PHY93_09635|PHY93_09635  6 LVVLGSGPGGYIAAIRASQLGKKVAIVEMDK 36
                             69************************99876 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.015
                              --EEEEESTSHHHHHHHHHHHHTT-EEEEEESSHH CS
              AlaDh_PNT_C  28 pakvlviGgGvaGlqAiatakglgakVtvlDvrpa 62 
                              p  + +iG+G  G++ +   +++g +V +++++++
  PHY93_09635|PHY93_09635 171 PKSIGIIGAGAIGVEFAYFWNAFGVEVHIFELQSH 205
                              66788*************************99876 PP

  == domain 3  score: -3.1 bits;  conditional E-value: 3
                              ESTSHHHHHHHHH CS
              AlaDh_PNT_C  34 iGgGvaGlqAiat 46 
                              +G+ ++G+qA ++
  PHY93_09635|PHY93_09635 404 LGAHIVGTQATEM 416
                              7999999999877 PP

>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.2       1.4   1.8e+03       4      32 ..       8      36 ..       6      91 .. 0.75
   2 ?   13.8   0.0     3e-05     0.039       2      52 ..     174     224 ..     173     249 .. 0.83

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 1.4
                             EE--SCCHHHHHHHHHHTT-EEEEE-S-H CS
                  3HCDH_N  4 viGaGtmGagiaavfasagleVvlvdise 32
                             v+G+G  G   a  + + g +V +v++++
  PHY93_09635|PHY93_09635  8 VLGSGPGGYIAAIRASQLGKKVAIVEMDK 36
                             78888756555555555599999998865 PP

  == domain 2  score: 13.8 bits;  conditional E-value: 3e-05
                              EEEE--SCCHHHHHHHHHHTT-EEEEE-S-HHHHHHHHHHHHHHHHCCTTT CS
                  3HCDH_N   2 vaviGaGtmGagiaavfasagleVvlvdiseealekalekieksleklvek 52 
                              +++iGaG +G + a+   + g+eV++++ +++ l    +  + ++ek+ +k
  PHY93_09635|PHY93_09635 174 IGIIGAGAIGVEFAYFWNAFGVEVHIFELQSHLLPIEDDDSSIEVEKAYKK 224
                              89**************************99988877777666666666665 PP

>> FAD_binding_3  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.0   0.2    0.0024         3       3      32 ..       5      34 ..       3      56 .. 0.89
   2 ?    3.2   0.0     0.032        42       4      33 ..     174     203 ..     172     208 .. 0.88

  Alignments for each domain:
  == domain 1  score: 7.0 bits;  conditional E-value: 0.0024
                             EEEEE--SHHHHHHHHHHHHTTHHEEEEES CS
            FAD_binding_3  3 dVlIVGaGpaGlmlallLseaGvrvvlvek 32
                             d ++ G+Gp G ++a   s+ G +v +ve 
  PHY93_09635|PHY93_09635  5 DLVVLGSGPGGYIAAIRASQLGKKVAIVEM 34
                             66899***********************96 PP

  == domain 2  score: 3.2 bits;  conditional E-value: 0.032
                              EEEE--SHHHHHHHHHHHHTTHHEEEEESS CS
            FAD_binding_3   4 VlIVGaGpaGlmlallLseaGvrvvlvekr 33 
                              + I+GaG  G+  a +    Gv+v++ e +
  PHY93_09635|PHY93_09635 174 IGIIGAGAIGVEFAYFWNAFGVEVHIFELQ 203
                              56***********************98855 PP

>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.3   0.3    0.0097        12       1      31 [.       5      36 ..       5      43 .. 0.91
   2 ?    0.9   0.0      0.21   2.7e+02     177     205 ..     116     146 ..      78     160 .. 0.63
   3 ?    4.7   0.1     0.015        19       2      27 ..     174     201 ..     173     206 .. 0.84

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.0097
                             EEEEECTSHHHHHHHHHHHHTT..EEEEESSSS CS
                      DAO  1 dvviiGGGiiGlstAyeLarrg..Vtllekgdi 31
                             d+v+ G+G  G  +A  +++ g  V+++e++  
  PHY93_09635|PHY93_09635  5 DLVVLGSGPGGYIAAIRASQLGkkVAIVEMD-K 36
                             89******************999******99.4 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.21
                              TCEEEEEEECT.EEE.EEEEEEEE--GGGHH CS
                      DAO 177 gkvwgverttp.gen.daadavVnaaGawsd 205
                              + +++ve++++ g + ++++ +++a+Ga+ +
  PHY93_09635|PHY93_09635 116 KSATTVEVKSAsGVEiVTFKNLIVATGAHYK 146
                              335566533344665556688******9965 PP

  == domain 3  score: 4.7 bits;  conditional E-value: 0.015
                              EEEECTSHHHHHHHHHHHHTT..EEEEE CS
                      DAO   2 vviiGGGiiGlstAyeLarrg..Vtlle 27 
                              + iiG+G iG+  Ay+  + g  V ++e
  PHY93_09635|PHY93_09635 174 IGIIGAGAIGVEFAYFWNAFGveVHIFE 201
                              67*************9966688888877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (459 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       421  (0.0234815); expected 358.6 (0.02)
Passed bias filter:                      360  (0.0200792); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.56u 0.21s 00:00:00.77 Elapsed: 00:00:00.37
# Mc/sec: 3723.21
//
Query:       PHY93_09640|PHY93_09640  [L=430]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.5e-75  251.4   0.3    1.1e-74  250.8   0.3    1.3  1  2-oxoacid_dh     2-oxoacid dehydrogenases acyltransferase (ca
    3.5e-21   74.8   0.4      7e-21   73.9   0.4    1.5  1  Biotin_lipoyl    Biotin-requiring enzyme
    2.8e-08   34.0   0.1    1.5e-07   31.6   0.0    2.3  2  E3_binding       e3 binding domain
     0.0048   16.7   0.0      0.047   13.5   0.0    2.4  2  Biotin_lipoyl_2  Biotin-lipoyl like
  ------ inclusion threshold ------
       0.03   14.2   1.4      0.071   13.0   0.2    2.1  2  DNA_ligase_OB    NAD-dependent DNA ligase OB-fold domain


Domain annotation for each model (and alignments):
>> 2-oxoacid_dh  2-oxoacid dehydrogenases acyltransferase (catalytic domain)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  250.8   0.3   3.1e-78   1.1e-74       3     228 ..     201     426 ..     199     430 .] 0.98

  Alignments for each domain:
  == domain 1  score: 250.8 bits;  conditional E-value: 3.1e-78
                              XXXXXXXXXXXXXXXXXXXXXX.XXXEEEEEEEEE-HHHHHHHHHHHHHHHHTT-----HHHHHHHHHHHHHHH-GGGG-EE.EES CS
             2-oxoacid_dh   3 eeervplsgirkaiakrlteskqeiphftlsdevdvtallelrkelkekeakeekakltlldflikavalAlkefPelnasvdeee 88 
                              +++ vp+ ++rk+ia+++++sk + ph+   de+d+t+l+++r+ +k++++k+e + lt+++f+++a+++AlkefP++nas+d+++
  PHY93_09640|PHY93_09640 201 RTTIVPMDNMRKTIARNMQASKLTSPHVNSIDEIDMTNLVKFREGFKKEFEKQEGFSLTYTHFILYALVQALKEFPIVNASIDGDN 286
                              6789**********************************************99888******************************* PP

                              EEEE--SS--EEEE----.----EEEE--GGG--HHHHHHHHHHHHHHHTTT---GGGTSS-SEEEE---------------TT-S CS
             2-oxoacid_dh  89 keivvkkhvniGvAvatp.rGLlvPviknadkkslleiakelkelaekaregklkpedleggtftisNlGmlGvtsftPiinppqv 173
                                i++kk++n+G Ava+p  GL+vPvik ad++++  ia++l+ l++ka+ +kl+ +d++ggt t +N G++G+  +tP+i +pq+
  PHY93_09640|PHY93_09640 287 --IIMKKDINLGCAVAVPgSGLVVPVIKGADNLNIRGIARALDILVKKAKTKKLTMDDMTGGTYTFTNNGSFGILIATPVILQPQL 370
                              ..****************99****************************************************************** PP

                              EEEEE---.B--TT.STT-HT---EEEEEEEEETTT--HHHHHHHHHHHHHTT-HH CS
             2-oxoacid_dh 174 aIlgvgrikerpvv.kegelvvrkvmtlslsaDHRvidGaeaarFlntlkkllenp 228
                               I  vg+i +rp+v +++++++r++m+ + ++DHRvidG+ +++Fl+++ + l+ +
  PHY93_09640|PHY93_09640 371 GIFCVGTIAKRPIVtADDAIAIRQMMYATHTYDHRVIDGEIGSKFLRHVVNTLQTM 426
                              **************9***********************************999864 PP

>> Biotin_lipoyl  Biotin-requiring enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.9   0.4   1.9e-24     7e-21       1      73 []       3      76 ..       3      76 .. 0.98

  Alignments for each domain:
  == domain 1  score: 73.9 bits;  conditional E-value: 1.9e-24
                             TEEEESSSEEEEEE..ECSESSSTTCEE-TTSEEEEEECTTEEEEEEBSSSEEEEEESSTTTEEE-TTCEEEEE CS
            Biotin_lipoyl  1 keiksPmiGesveeg.vvevlvkvGdkVkagqvlaeveamKmemeieapkaGvvkeilvkeGdtvevgdllaki 73
                             +ei +P++Ges+++g ++++++++Gdk++ +++l+e++++K+e ei++p++G+++e+  keGdtv+  +l+a+i
  PHY93_09640|PHY93_09640  3 HEIVMPQMGESITTGtITKWHKAPGDKIALDEILLEISTDKVESEIPSPVEGRIEELFFKEGDTVDIQKLIAII 76
                             5899*******************************************************************987 PP

>> E3_binding  e3 binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.6   0.0   4.3e-11   1.5e-07       2      34 ..     129     164 ..     128     166 .. 0.95
   2 ?   -1.5   0.0      0.92   3.3e+03      29      35 ..     287     293 ..     283     305 .. 0.58

  Alignments for each domain:
  == domain 1  score: 31.6 bits;  conditional E-value: 4.3e-11
                              BE-HHHHHHHHHCT-...-TTTS---CTTTBE-HHH CS
               E3_binding   2 lAsPaaRklAkelGi...dLsdvkGtGpgGRItkeD 34 
                              +++P+++ +A e G+   +L++vkGtG  GR+ k+D
  PHY93_09640|PHY93_09640 129 FITPLVKAMASEAGVpltELAQVKGTGAAGRVNKAD 164
                              79*************99999999***********99 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.92
                              BE-HHHH CS
               E3_binding  29 RItkeDV 35 
                               I+k+D+
  PHY93_09640|PHY93_09640 287 IIMKKDI 293
                              4566655 PP

>> Biotin_lipoyl_2  Biotin-lipoyl like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   0.0      0.18   6.3e+02      10      38 ..      16      44 ..      12      48 .. 0.84
   2 !   13.5   0.0   1.3e-05     0.047       4      34 ..      47      77 ..      43      80 .. 0.84

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 0.18
          Biotin_lipoyl_2 10 sGrVaqlnVkdGqrVkaGdvLaelDsral 38
                              G++++++   G+ +    +L+e+ +++ 
  PHY93_09640|PHY93_09640 16 TGTITKWHKAPGDKIALDEILLEISTDKV 44
                             69999999999999999999999998776 PP

  == domain 2  score: 13.5 bits;  conditional E-value: 1.3e-05
          Biotin_lipoyl_2  4 sIaapvsGrVaqlnVkdGqrVkaGdvLaelD 34
                             +I +pv Gr+++l+ k+G+ V    ++a+++
  PHY93_09640|PHY93_09640 47 EIPSPVEGRIEELFFKEGDTVDIQKLIAIIE 77
                             6889*****************7766666665 PP

>> DNA_ligase_OB  NAD-dependent DNA ligase OB-fold domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.1      0.47   1.7e+03      43      61 ..      55      73 ..      52      78 .. 0.80
   2 ?   13.0   0.2     2e-05     0.071      32      71 ..     276     315 ..     269     319 .. 0.89

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.47
                             XXXXXXXXXXXXXXXXXXX CS
            DNA_ligase_OB 43 eierkdirigdtVvvekaG 61
                             +ie++  + gdtV ++k  
  PHY93_09640|PHY93_09640 55 RIEELFFKEGDTVDIQKLI 73
                             688888999*****99965 PP

  == domain 2  score: 13.0 bits;  conditional E-value: 2e-05
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
            DNA_ligase_OB  32 tVsratLhnedeierkdirigdtVvvekaGdvIPevvgvv 71 
                               + +a++   + i +kdi++g  V v  +G v+P + g++
  PHY93_09640|PHY93_09640 276 PIVNASIDGDNIIMKKDINLGCAVAVPGSGLVVPVIKGAD 315
                              57899*****************************998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (430 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       449  (0.0250432); expected 358.6 (0.02)
Passed bias filter:                      342  (0.0190752); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.52u 0.20s 00:00:00.72 Elapsed: 00:00:00.37
# Mc/sec: 3490.64
//
Query:       PHY93_09645|PHY93_09645  [L=97]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (97 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       461  (0.0257125); expected 358.6 (0.02)
Passed bias filter:                      356  (0.0198561); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.20s 00:00:00.58 Elapsed: 00:00:00.37
# Mc/sec: 783.06
//
Query:       PHY93_09650|PHY93_09650  [L=291]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.013   15.3   0.1      0.023   14.5   0.1    1.5  1  Glycos_transf_2  Glycosyl transferase family 2


Domain annotation for each model (and alignments):
>> Glycos_transf_2  Glycosyl transferase family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.1   1.3e-06     0.023      67     145 ..      82     164 ..      46     195 .. 0.79

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 1.3e-06
                              HHHHHHHHHHH--SSEEEEEESSEEE-TTHHHHHHHHHHH.....TTCEEEEEEEEEECCCCCCCHC-SSEEEECCHCCCCHC CS
          Glycos_transf_2  67 kagalnaglraatgdyilflDaDdepdpdwleklvealekd....gadvvlgqrprifgetdeiernkrvgenerlyfkerkr 145
                              ++   n +l a+tgdy  ++  D  +++d+l+ +++  e+     + d+ + + +++ g+ d+++ +++ +++e   ++  k+
  PHY93_09650|PHY93_09650  82 LSQQTNIALNACTGDYCQYIQGDECIHEDDLKYILAGVEEMekdpRIDGLIFNYMHFYGNVDTYKYTRNLYRREVRLIRNHKG 164
                              67888************************999986555443222566899999999999999999988764444443333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (291 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       551  (0.0307323); expected 358.6 (0.02)
Passed bias filter:                      388  (0.0216409); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.20s 00:00:00.62 Elapsed: 00:00:00.34
# Mc/sec: 2551.34
//
Query:       PHY93_09655|PHY93_09655  [L=239]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-20   74.1   0.1    1.7e-20   73.7   0.1    1.2  1  Methyltransf_21  Methyltransferase FkbM domain
  ------ inclusion threshold ------
      0.056   13.3   0.0        0.1   12.4   0.0    1.7  1  Methyltransf_23  Methyltransferase domain
      0.096   12.2   0.2       0.13   11.8   0.2    1.1  1  Prosystemin      Prosystemin


Domain annotation for each model (and alignments):
>> Methyltransf_21  Methyltransferase FkbM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.7   0.1   2.9e-24   1.7e-20       1     171 [.      25     187 ..      25     189 .. 0.87

  Alignments for each domain:
  == domain 1  score: 73.7 bits;  conditional E-value: 2.9e-24
          Methyltransf_21   1 dvGanigvwdsfanltarlcggggevlaiEPvpnslpkfeklranll....tlavgndvglyelivegksggkyfpfavgdtngfs 82 
                              dvGan+g + s ++  + ++g++g+   iEP+p      e+l+ + +    ++a++ ++g   +++   + ++  + ++ ++++ +
  PHY93_09655|PHY93_09655  25 DVGANDGMIGSMTYDLE-KNGWSGIL--IEPNPT---LVEHLKKIRTspvfPYAISSTEGDLPFYI-VEGPDNLHGLSRFNYTKEF 103
                              9*****99999999885.6*******..******...99999988889999*****9998888777.4445666666777777777 PP

          Methyltransf_21  83 tssvlg.gedaryievpvvtldsfleei.kksridllkiDvEGaElevLeGaqkglkrcqpnlivvEvhkfkefetelfdeirqfl 166
                              + ++ + g   + ++v+v+ ++s+++e  +   +d+lk+DvEG+E+evL  ++ +++++ p+liv E   fk    ++ + +r+fl
  PHY93_09655|PHY93_09655 104 EDHIKKcGGSVKKTIVQVKKISSIMKEAqNLDSVDFLKVDVEGHEFEVL--KSFDFEKFHPRLIVTED-NFK----DSDKSVRRFL 182
                              7766667788999************************************..99***********6665.566....999******* PP

          Methyltransf_21 167 recgy 171
                               + gy
  PHY93_09655|PHY93_09655 183 HSKGY 187
                              ****9 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   1.7e-05       0.1      14      71 ..      10      71 ..       1     216 [. 0.74

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 1.7e-05
          Methyltransf_23 14 erllpk.lraggrvLdiGcGtG.illevl..rengfsvtgvDlspeaveiaekakkaqkdqf 71
                             + +l+k + ++g+ +d+G+++G i +  +  ++ng+s ++++++p +ve ++k+++++  ++
  PHY93_09655|PHY93_09655 10 NYFLDKlNIPKGKFVDVGANDGmIGSMTYdlEKNGWSGILIEPNPTLVEHLKKIRTSPVFPY 71
                             444444478999**********65444446699****************9995555544443 PP

>> Prosystemin  Prosystemin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.2   2.1e-05      0.13      61     114 ..     101     154 ..      83     181 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 2.1e-05
              Prosystemin  61 qeipkveheeggdvkekiveketiskyiikiegddaqeklkveyeeeeyekeki 114
                              +e     ++ gg vk+ iv+ + is ++   +  d+ + lkv+ e  e+e  k 
  PHY93_09655|PHY93_09655 101 KEFEDHIKKCGGSVKKTIVQVKKISSIMKEAQNLDSVDFLKVDVEGHEFEVLKS 154
                              5555556678****************99999999***************97765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (239 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       606  (0.0338); expected 358.6 (0.02)
Passed bias filter:                      449  (0.0250432); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 1792.13
//
Query:       PHY93_09660|PHY93_09660  [L=328]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.1e-22   79.5   0.0    3.7e-22   78.7   0.0    1.4  1  Glycos_transf_1  Glycosyl transferases group 1
    3.5e-13   50.1   0.0    5.8e-13   49.4   0.0    1.4  1  Glyco_trans_1_4  Glycosyl transferases group 1
    3.7e-09   36.8   0.0      6e-09   36.1   0.0    1.3  1  Glyco_transf_4   Glycosyltransferase Family 4


Domain annotation for each model (and alignments):
>> Glycos_transf_1  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.7   0.0   6.2e-26   3.7e-22       8     134 ..     153     276 ..     148     313 .. 0.89

  Alignments for each domain:
  == domain 1  score: 78.7 bits;  conditional E-value: 6.2e-26
                              HTTTTTT-EEEEEESS-TTTTTHHHHHHHHHCCCCCHCSCEEEEEES...STTHHHHHHHHHHHCTTCGGGEEECCHSSSHHHHHH CS
          Glycos_transf_1   8 klgknekkkiilsvgrlekeKgvdllikafallkkqlnpnvklviaG..ngeeekelkklaeelelsdnviflgevsredleellk 91 
                              k ++    ++++svg + ++K++++li+ ++l+     p++k+v+aG    ++ +e++k++ + +l d+ +++g +++ ++  +++
  PHY93_09660|PHY93_09660 153 KPEIVPSGPFLFSVGTVLPKKNFHVLIDFLKLI-----PDYKMVLAGtlFHPYAHEIQKRINNEGLADRFFLIGTIDEPQKLWYYQ 233
                              566667789**********************75.....89********989**************************999****** PP

                              CESEEEEEESSBSS-HHHHHHHHTT--EEEETTTTHCHHCHTT CS
          Glycos_transf_1  92 nadifvlpsisEgfGivllEAmaaglpviasnaggpaevvkdg 134
                              na +f++psi EgfG+++ EAm++glp ++sn   ++e+  d 
  PHY93_09660|PHY93_09660 234 NACAFIFPSILEGFGLPVAEAMSLGLPLFISNKTSLPEIGGDD 276
                              **********************************999997665 PP

>> Glyco_trans_1_4  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.4   0.0   9.7e-17   5.8e-13       4     120 ..     163     284 ..     160     298 .. 0.83

  Alignments for each domain:
  == domain 1  score: 49.4 bits;  conditional E-value: 9.7e-17
                              EEEES---GG.GTHHHHHHHHHHHH.HHEEEEEES-..--..HHHHHHHT..T-T.TEEEE---..THHHHHHHH-SEEEE--..- CS
          Glyco_trans_1_4   4 ilfvGrleenvkgvdllleavpllrkkdvrlvivGd..gprpeeleelaa..gleerveftGfv..edlaellaaadvfvaPs..e 81 
                              +  vG +  ++k++++l++ ++l+   d+++v++G   +p ++e++++++  gl++r+ + G +  +++  ++++a  f++Ps  e
  PHY93_09660|PHY93_09660 163 LFSVGTVL-PKKNFHVLIDFLKLIP--DYKMVLAGTlfHPYAHEIQKRINneGLADRFFLIGTIdePQKLWYYQNACAFIFPSilE 245
                              56788884.56**************..78******53344447999999779************54447778************** PP

                              --SHHHHHHHHTT-EEEE-TGGGTTT--TTSSEE--TT- CS
          Glyco_trans_1_4  82 gfglkllEamaaglpvVatdvggiaevvgengllvppgd 120
                              gfgl + Eam++glp   ++   ++e+ g++++ +++ +
  PHY93_09660|PHY93_09660 246 GFGLPVAEAMSLGLPLFISNKTSLPEIGGDDAYYLENFE 284
                              ****************99999899**6698888777544 PP

>> Glyco_transf_4  Glycosyltransferase Family 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.1   0.0     1e-12     6e-09      54     168 ..      38     147 ..      20     149 .. 0.72

  Alignments for each domain:
  == domain 1  score: 36.1 bits;  conditional E-value: 1e-12
           Glyco_transf_4  54 llrslaflrrlrrllkre.....kpDvvHahspaalgaallalrrrlgiplVltvHglyekrllkarlkplsrllralerrllrra 134
                              +++++++   +++ +k+      k Dv Ha +  + +      +  ++ ++ lt+H+l +  + +   + ++++ ++l +++ +ra
  PHY93_09660|PHY93_09660  38 HYWIPSN---FQKYAKKIpfilpKSDVFHAVHQDSPYMP----W-SSKTKYLLTIHDLNA-LYEHTQFGTGNIYKKKLQQKI-DRA 113
                              3444444...44444444445889999998876665433....2.2699**********4.444445555666666666665.*** PP

           Glyco_transf_4 135 drviavSeatadelrerygvppekitVipnGvDl 168
                                ++ +S++t+ e+ + ++++ +ki Vi+nG+ l
  PHY93_09660|PHY93_09660 114 SVITFISKFTQSEVTRDFKLEGKKIQVIYNGISL 147
                              ********************************86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (328 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       490  (0.02733); expected 358.6 (0.02)
Passed bias filter:                      411  (0.0229238); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.47u 0.20s 00:00:00.67 Elapsed: 00:00:00.37
# Mc/sec: 2671.49
//
Query:       PHY93_09665|PHY93_09665  [L=254]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.7e-35  122.1   0.6    5.3e-35  121.2   0.6    1.4  1  Endonuclease_1  Endonuclease I


Domain annotation for each model (and alignments):
>> Endonuclease_1  Endonuclease I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  121.2   0.6     3e-39   5.3e-35       3     232 ..      39     247 ..      37     248 .. 0.90

  Alignments for each domain:
  == domain 1  score: 121.2 bits;  conditional E-value: 3e-39
           Endonuclease_1   3 ytlKteLakiiknd.sdksysglwtlyktsdldkyyendgsvldlysenptgadvsftygtnqcg.stkqegecynrEHivPasvf 86 
                              +tlK +L+++i+++ +  +y+g+ +++ +  + k  +n + + d+y ++       f  ++   g +t  +g  +n EH+ P+s f
  PHY93_09665|PHY93_09665  39 ETLKAALFDTISANqTVLGYDGARKIMFGKLFLKNDSNGNYISDVYCQKR------FGASAG-VGvNTIPNGMKINCEHTWPQSKF 117
                              79*********9986889*******9999999889999999******765......444333.55588889999************ PP

           Endonuclease_1  87 geqrq..pmesDahhvvptdgevNadRsnfpygevatatytskngskkpenlgssnvadykstvfEPidefkGdiARallYmatrY 170
                                + +    +sD+hh++p+d + N+ R+n  +  v+  t t  +   + +++gss+++  ++  fEP    kG++ARal+Y+ +rY
  PHY93_09665|PHY93_09665 118 TRAFDneMQKSDLHHLYPSDSRANSIRGNDDFIDVKDDTGTLAQDDCSISKYGSSSAS--SNDGFEPPLTHKGNVARALFYFSVRY 201
                              99987644479************************888888777777789******99..7889********************** PP

           Endonuclease_1 171 enkiakaqskvldgssdqvfektllnlllkWhkqdPvsakEiernnaiaavqgnrNPfidhp 232
                              + +i k++                 ++l +W+  dPv++ Ei+ n+ai++vqgnrNPfid p
  PHY93_09665|PHY93_09665 202 KISIPKTE----------------EDVLRRWNDLDPVDQEEIDHNDAIQQVQGNRNPFIDFP 247
                              ********................89**********************************87 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (254 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       415  (0.0231469); expected 358.6 (0.02)
Passed bias filter:                      363  (0.0202465); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.35
# Mc/sec: 2165.27
//
Query:       PHY93_09670|PHY93_09670  [L=270]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    6.2e-36  124.2   2.0    1.5e-35  123.0   2.0    1.7  1  Endonuclease_1  Endonuclease I


Domain annotation for each model (and alignments):
>> Endonuclease_1  Endonuclease I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  123.0   2.0   8.3e-40   1.5e-35      71     232 ..     120     263 ..      43     264 .. 0.87

  Alignments for each domain:
  == domain 1  score: 123.0 bits;  conditional E-value: 8.3e-40
           Endonuclease_1  71 egecynrEHivPasvfgeqrq..pmesDahhvvptdgevNadRsnfpygevatatytskngskkpenlgssnvadykstvfEPide 154
                              +++ +n EH+ P+s f+ + +    +sD+hh++ptd + N++R+nf ++ev +a+   kn  +  ++ g+s +a   st fEP +e
  PHY93_09670|PHY93_09670 120 NEKIINCEHTWPQSKFSRAFDkeLQKSDMHHLFPTDMKANSTRGNFDFAEV-VANQNLKNCDA--SKSGASVIA-GGSTFFEPPSE 201
                              34559************998766679************************9.77777777766..778999988.5789******* PP

           Endonuclease_1 155 fkGdiARallYmatrYenkiakaqskvldgssdqvfektllnlllkWhkqdPvsakEiernnaiaavqgnrNPfidhp 232
                               +G++ARal+Y+ +rY+  + + q                ++ + kW++qdPv+  E++rn+ai ++qgnrNPfid p
  PHY93_09670|PHY93_09670 202 HRGNVARALFYFSVRYKMPLGSDQ----------------QTFFRKWNEQDPVDDAEMARNDAIEKLQGNRNPFIDFP 263
                              *****************9999988................7889********************************87 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (270 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       364  (0.0203023); expected 358.6 (0.02)
Passed bias filter:                      311  (0.0173462); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.20s 00:00:00.66 Elapsed: 00:00:00.38
# Mc/sec: 2112.40
//
Query:       PHY93_09675|PHY93_09675  [L=425]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.9e-58  196.1   0.0    5.7e-58  195.5   0.0    1.2  1  MgsA_C           MgsA AAA+ ATPase C terminal
    2.1e-19   69.7   0.3    6.7e-19   68.0   0.0    2.0  2  AAA_assoc_2      AAA C-terminal domain
    5.1e-14   52.8   0.2      2e-13   50.9   0.1    2.0  2  AAA              ATPase family associated with various cellul
    2.8e-12   46.6   0.0    9.1e-11   41.7   0.0    2.2  2  RuvB_N           Holliday junction DNA helicase RuvB P-loop d
    3.1e-08   33.5   0.0    0.00055   19.7   0.0    2.3  2  Sigma54_activat  Sigma-54 interaction domain
    8.7e-08   32.3   0.6    4.1e-06   26.8   0.6    2.4  1  AAA_5            AAA domain (dynein-related subfamily)
    2.1e-06   27.9   0.0    5.9e-06   26.4   0.0    1.7  1  Sigma54_activ_2  Sigma-54 interaction domain
    4.8e-06   27.1   0.7    0.00082   19.8   0.0    2.8  3  AAA_16           AAA ATPase domain
      5e-05   23.6   2.5     0.0024   18.1   0.1    3.0  3  AAA_22           AAA domain
    8.3e-05   22.6   0.0    0.00025   21.1   0.0    1.8  2  AAA_14           AAA domain
    0.00026   21.2   0.0    0.00066   19.8   0.0    1.7  1  AAA_2            AAA domain (Cdc48 subfamily)
    0.00028   21.5   0.0    0.00061   20.3   0.0    1.6  1  AAA_18           AAA domain
     0.0018   18.3   0.2       0.71    9.9   0.0    2.5  2  ResIII           Type III restriction enzyme, res subunit
     0.0018   17.9   0.1      0.056   13.0   0.0    2.9  3  AAA_25           AAA domain
     0.0022   17.5   0.1      0.061   12.8   0.0    2.3  2  PhoH             PhoH-like protein
     0.0025   17.2   0.3       0.58    9.5   0.0    2.6  3  Mg_chelatase     Magnesium chelatase, subunit ChlI
     0.0038   17.0   0.0     0.0071   16.1   0.0    1.4  1  IstB_IS21        IstB-like ATP binding protein
     0.0044   16.8   0.3      0.031   14.0   0.1    2.3  1  DNA_pol3_delta2  DNA polymerase III, delta subunit
     0.0066   16.7   0.0      0.012   15.9   0.0    1.5  1  AAA_28           AAA domain
     0.0079   16.1   0.0      0.053   13.4   0.0    2.4  2  AAA_3            ATPase family associated with various cellul
  ------ inclusion threshold ------
      0.013   15.2   0.0      0.027   14.2   0.0    1.6  1  AAA_24           AAA domain
      0.015   15.4   0.0      0.028   14.6   0.0    1.4  1  AAA_33           AAA domain
       0.02   15.3   0.4        7.8    6.8   0.0    2.6  2  AAA_19           AAA domain
       0.02   14.0   0.0      0.031   13.4   0.0    1.3  1  DUF815           Protein of unknown function (DUF815)
      0.024   15.0   0.0      0.067   13.6   0.0    1.8  1  RNA_helicase     RNA helicase
      0.025   14.3   0.1        0.3   10.8   0.1    2.1  2  AAA_30           AAA domain
      0.035   14.6   0.0      0.085   13.4   0.0    1.6  1  ABC_tran         ABC transporter
       0.05   12.3   0.1       0.23   10.1   0.1    1.9  2  PEPCK_ATP        Phosphoenolpyruvate carboxykinase
      0.062   13.2   0.2        1.1    9.1   0.0    2.4  2  ATPase_2         ATPase domain predominantly from Archaea
      0.063   13.2   0.1       0.59   10.0   0.0    2.1  2  NACHT            NACHT domain
       0.15   10.7   0.0       0.21   10.2   0.0    1.2  1  AAA_13           AAA domain
       0.17   11.4   0.1       0.65    9.5   0.1    1.9  1  AAA_7            P-loop containing dynein motor region
       0.79   10.2   3.2        1.6    9.2   3.2    1.8  1  AAA_23           AAA domain


Domain annotation for each model (and alignments):
>> MgsA_C  MgsA AAA+ ATPase C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  195.5   0.0   1.1e-60   5.7e-58       1     167 []     263     421 ..     263     421 .. 0.97

  Alignments for each domain:
  == domain 1  score: 195.5 bits;  conditional E-value: 1.1e-60
                              TT-HHHHHHHHHHHHHTT--HHHHHHHHHHHHHHTTGGGSTTHHHHHHHHHHHHHHH-TTTTHHHHHHHHHHHHCS----GG.GHH CS
                   MgsA_C   1 GSdpdAAlyylarmleaGedprfiaRRlviiAseDiGlAdpqalqlavaaaeaveriGlpEariaLaqavvylalapKSnaaykAi 86 
                              GSdp+AA+++la m+++Gedp fiaRRlvi+AseD+G+Adp+al+la++a+++v++iG+pEari+Laqa++yla+  KSnaay Ai
  PHY93_09675|PHY93_09675 263 GSDPQAAIHWLAVMIDGGEDPVFIARRLVIFASEDVGNADPTALTLATSALHSVSNIGMPEARIILAQATTYLASTYKSNAAYLAI 348
                              9************************************************************************************* PP

                              HHHHHHH---------GGGST...........T-T---GGG--SS------S-CCG--..--------HHHHHHH-XXX.. CS
                   MgsA_C  87 kkaledvkekkslevPlhLrnaptklakklgygkgYkyphdypegvvkqqylpdelkkkkfYepterglekkikerleklk 167
                              ++ale v+++++ +vP+hL+n+p  +      +++Y yph+y++++vkq+y  + + +  fY pt +g+e  +++rlekl+
  PHY93_09675|PHY93_09675 349 DQALEYVRSQATIQVPDHLKNHPPMG------SQKYLYPHSYDNHFVKQNYTQNPIPN--FYIPTLEGKEDGLRKRLEKLW 421
                              *********************98655......479*********************99..*****************9985 PP

>> AAA_assoc_2  AAA C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.0   0.0   1.2e-21   6.7e-19       4      81 .]     192     262 ..     189     262 .. 0.93
   2 ?   -2.0   0.0       8.8   4.8e+03       6      44 ..     307     344 ..     304     369 .. 0.60

  Alignments for each domain:
  == domain 1  score: 68.0 bits;  conditional E-value: 1.2e-21
                              .XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.XXXXXXXXXXXXXXXXXXXXXXXXXXXXHHHHHHHHHHHHH CS
              AAA_assoc_2   4 klkleddalealaeladGDaRkaLnlLElaaeaaeakegkieitledleealqrkalryDkagdehYdliSAlhKSiR 81 
                              +l+++   l  +a++a+GDaR+aLn+LE+aa+ ++        t+e+++ ++ ++a+ +Dk g+ hYd+iSA++KS+R
  PHY93_09675|PHY93_09675 192 SLEIDAGLLIIIADFAGGDARVALNTLEAAAKLKNP-------TKEEIKLLIIENARAFDKGGNRHYDVISAFIKSMR 262
                              5789999999*********************99986.......889999999999**********************9 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 8.8
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.XXXX CS
              AAA_assoc_2   6 kleddalealaeladGDaRkaLnlLElaaeaaeakegki 44 
                              +l+ +al+ + ++    aR +L    + ++++ + ++ +
  PHY93_09675|PHY93_09675 307 TLATSALHSVSNIGMPEARIILAQATTYLASTYK-SNAA 344
                              6667777777777777777777766644444443.3333 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.9   0.1   3.7e-16     2e-13       1     129 [.      62     172 ..      62     175 .. 0.82
   2 ?   -1.0   0.0       4.1   2.2e+03      60     117 ..     233     303 ..     187     312 .. 0.60

  Alignments for each domain:
  == domain 1  score: 50.9 bits;  conditional E-value: 3.7e-16
                              EEEESSTTSSHHHHHHHHHHHHTHEEEEEETTTCSSSSTTHHHHHHHHHHHHHHHTS....TSEEEEEETGGGHHHHHTTCCCHHH CS
                      AAA   1 vllyGppGtGKTllakavakelgvefleisgsellskyvgesekkirelfkeakeka....kpsilfiDEidalaksrsgseseee 82 
                              ++l+Gp GtGKT+la+ +a ++g ef+++++            +++++l+ +a+e++    +  i+f+DEi++++k++        
  PHY93_09675|PHY93_09675  62 IILFGPSGTGKTTLARLLALHSGKEFYKFNAVLGG-------VADLKKLILAAQEMRerlgQEAIIFVDEIHRFNKAQ-------- 132
                              689*************************9986444.......455555555555555555677***************........ PP

                              HHHHHHHHHHHHHTTTSSSTEEEEEEESS..GGGSTHHHHSTTSSEEEE CS
                      AAA  83 ervvnqLlteldgvkkkeskvivigatnr..pdkldpallrgRfdrkie 129
                                 +++Ll+ +++       +++igat++    ++++all +R+ +++ 
  PHY93_09675|PHY93_09675 133 ---QDALLPYIEEGA-----FTLIGATTEnpRVSINKALL-SRMHIVQL 172
                              ...********9773.....79*****9987789******.9*998765 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 4.1
                              EEEEEETGGGHHHHHTTCCCHHHHHHHHHHHHHHHHTTTS..................SSTEEEEEEESSGGGSTH CS
                      AAA  60 silfiDEidalaksrsgseseeeervvnqLlteldgvkkk..................eskvivigatnrpdkldp 117
                              + l+i+++ a+ k       + + +v++++++ + g + +                   ++ +vi a+ ++ + dp
  PHY93_09675|PHY93_09675 233 KLLIIENARAFDKGG-----NRHYDVISAFIKSMRGSDPQaaihwlavmidggedpvfIARRLVIFASEDVGNADP 303
                              555555555543333.....44555666666666655554444444444444444466344566666666666665 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.7   0.0   1.7e-13   9.1e-11       2     110 ..      34     142 ..      33     147 .. 0.77
   2 ?    3.2   0.0      0.12        64     132     154 ..     144     168 ..     140     172 .. 0.67

  Alignments for each domain:
  == domain 1  score: 41.7 bits;  conditional E-value: 1.7e-13
                   RuvB_N   2 rPksleeyigqekvkeklkifieaakkreealdhvllyGpPGlGkttlakiiakelgvklkits...gPvle.kagdlaa..lltn 81 
                              rP+++ee+ig +++ ++ +        r+++   ++l+Gp G Gkttla+++a   g ++       g v + k+  laa  +  +
  PHY93_09675|PHY93_09675  34 RPQTFEEFIGHSEIFKTYS------FLRSKNFPSIILFGPSGTGKTTLARLLALHSGKEFYKFNavlGGVADlKKLILAAqeMRER 113
                              9*********998877665......5699999*********************999988754430114444413333444334567 PP

                   RuvB_N  82 leekdvlfideihrlsraveevlysamed 110
                              l ++ ++f+deihr+++a ++ l + +e+
  PHY93_09675|PHY93_09675 114 LGQEAIIFVDEIHRFNKAQQDALLPYIEE 142
                              8899******************9999886 PP

  == domain 2  score: 3.2 bits;  conditional E-value: 0.12
                   RuvB_N 132 kftlvgattraglls..sPlrdrfg 154
                               ftl+gatt +  +s  + l +r+ 
  PHY93_09675|PHY93_09675 144 AFTLIGATTENPRVSinKALLSRMH 168
                              7********9765431156666655 PP

>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.5   0.0   0.00033      0.18      24      55 ..      61      92 ..      44     109 .. 0.76
   2 !   19.7   0.0     1e-06   0.00055      93     131 ..     116     154 ..     111     184 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00033
                             -EEEECSTTSSHHHHHHHHHHHSTTTTS-EEE CS
          Sigma54_activat 24 svlitGesGtGKellaraiheaskrkekpfva 55
                             s+++ G sGtGK++lar++  +s ++  +f a
  PHY93_09675|PHY93_09675 61 SIILFGPSGTGKTTLARLLALHSGKEFYKFNA 92
                             68999************998877766555544 PP

  == domain 2  score: 19.7 bits;  conditional E-value: 1e-06
                              TTSEEEEETGGGS-HHHHHHHHHHHHHSEEESBTSSSEE CS
          Sigma54_activat  93 dgGtlfLDeigelplelQekLlrvlqegevervGsskei 131
                              ++ ++f+Dei++++ + Q  Ll  ++eg ++ +G+++e 
  PHY93_09675|PHY93_09675 116 QEAIIFVDEIHRFNKAQQDALLPYIEEGAFTLIGATTEN 154
                              6789******************************98764 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.8   0.6   7.5e-09   4.1e-06       2     102 ..      62     153 ..      61     182 .. 0.77

  Alignments for each domain:
  == domain 1  score: 26.8 bits;  conditional E-value: 7.5e-09
                              EEEE--SSSSHHHHHHHGGGGBS--EEEEE--TT--HHHHH--B--.........--------G-SEEEEESGGG--HHHHHHHHH CS
                    AAA_5   2 vlLvGppGtgKselaerlaaalnreveyvqltrdtteedlkgrreikngttslvdsplvraaregeilvlDEveraesevlnsLls 87 
                              ++L Gp+GtgK++la+ la   ++e +y+ +      +dlk  +           +++ +   + +i+++DE++r +++ +++Ll+
  PHY93_09675|PHY93_09675  62 IILFGPSGTGKTTLARLLALHSGKE-FYKFNAVLGGVADLKKLIL--------AAQEMRERLGQEAIIFVDEIHRFNKAQQDALLP 138
                              79*************9997665444.3444433345566666665........6899999999*********************** PP

                              HHHSSEEE..-SSSE CS
                    AAA_5  88 lleerrllleeggel 102
                              ++ee  + l   +++
  PHY93_09675|PHY93_09675 139 YIEEGAFTLIGATTE 153
                              *****9988765554 PP

>> Sigma54_activ_2  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.4   0.0   1.1e-08   5.9e-06       9     103 ..      46     147 ..      44     175 .. 0.74

  Alignments for each domain:
  == domain 1  score: 26.4 bits;  conditional E-value: 1.1e-08
                              HHHHHHHHHHT-SS-.EEEEEETT--HHHHHHCC--TTS-EE--SSTTHHH..H-H......HHHHHHT.TTSEEEEEE-TT--HH CS
          Sigma54_activ_2   9 elkerLeqaaqsklp.vfltGekGsgkelvArlLhknsgpwleifvverla..klp......ldlleqa.kggtLylkdiadlska 84 
                              e++++   ++++++p + l G+ G+gk++ ArlL+  sg+    f+   ++  +l       +++ e++ +++++++ +i+ ++ka
  PHY93_09675|PHY93_09675  46 EIFKTYSFLRSKNFPsIILFGPSGTGKTTLARLLALHSGKEFYKFNAVLGGvaDLKklilaaQEMRERLgQEAIIFVDEIHRFNKA 131
                              56666666777777757789***************999997766554322222211223333999999779*************** PP

                              HHHHHHHHHHHHTTTT-EE CS
          Sigma54_activ_2  85 eqkeLlellakaeksslrl 103
                              +q  Ll +++++      l
  PHY93_09675|PHY93_09675 132 QQDALLPYIEEG---AFTL 147
                              *********996...4444 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.8   0.0   1.5e-06   0.00082      13      50 ..      48      85 ..      44     100 .. 0.82
   2 ?    4.8   0.1     0.063        34     129     156 ..     113     138 ..      89     159 .. 0.76
   3 ?   -1.5   0.0       5.4   2.9e+03     114     131 ..     245     262 ..     165     322 .. 0.56

  Alignments for each domain:
  == domain 1  score: 19.8 bits;  conditional E-value: 1.5e-06
                   AAA_16 13 lsalervrsgrpelvllsGesGvGKsslvrellralek 50
                               +++ +rs   ++++l G+sG+GK++l+r l+ +  k
  PHY93_09675|PHY93_09675 48 FKTYSFLRSKNFPSIILFGPSGTGKTTLARLLALHSGK 85
                             556777889999******************99855554 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.063
                   AAA_16 129 llsrderplvlvlDdlqwadeaslql.la 156
                              +l   ++  ++++D+++++  a++++ l+
  PHY93_09675|PHY93_09675 113 RL---GQEAIIFVDEIHRFNKAQQDAlLP 138
                              33...3348***************99555 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 5.4
                   AAA_16 114 aeasrllellkrllalls 131
                              ++ +r +++++++++ ++
  PHY93_09675|PHY93_09675 245 KGGNRHYDVISAFIKSMR 262
                              222555555555553333 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.1   4.5e-06    0.0024       7      28 ..      61      82 ..      55      94 .. 0.86
   2 ?    4.0   0.1      0.11        57      81     105 ..     106     132 ..      90     151 .. 0.68
   3 ?   -1.2   0.0       4.2   2.3e+03      81     104 ..     217     244 ..     162     270 .. 0.68

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 4.5e-06
                   AAA_22  7 ilvvtGesGtGKTtllrrlleq 28
                             +++++G+sGtGKTtl+r l+  
  PHY93_09675|PHY93_09675 61 SIILFGPSGTGKTTLARLLALH 82
                             799**************99875 PP

  == domain 2  score: 4.0 bits;  conditional E-value: 0.11
                   AAA_22  81 aleqalraravielliiDEaqhlr..s 105
                              a ++  ++ +  +++ +DE+++++  +
  PHY93_09675|PHY93_09675 106 AAQEMRERLGQEAIIFVDEIHRFNkaQ 132
                              444444444447899********7442 PP

  == domain 3  score: -1.2 bits;  conditional E-value: 4.2
                   AAA_22  81 aleqalrarav....ielliiDEaqhlr 104
                              +le a++ +      i+llii++a  ++
  PHY93_09675|PHY93_09675 217 TLEAAAKLKNPtkeeIKLLIIENARAFD 244
                              4444444443355667788888887665 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.1   0.0   4.6e-07   0.00025       4     122 ..      61     172 ..      58     181 .. 0.71
   2 ?   -2.1   0.0       6.8   3.7e+03      28      47 ..     338     357 ..     326     379 .. 0.53

  Alignments for each domain:
  == domain 1  score: 21.1 bits;  conditional E-value: 4.6e-07
                   AAA_14   4 ilvitGaRrvGKTtllkqlikellvkkesilyinldderdkkladpekllelileklkeekktylflDEiqevpewek.alkslvd 88 
                               +++ G+  +GKTtl++ l+ ++    +++  +n      ++l++     ++++e+l + ++ ++f DEi++ +++++ al  +++
  PHY93_09675|PHY93_09675  61 SIILFGPSGTGKTTLARLLALHSG---KEFYKFNAVLGGVADLKKLILAAQEMRERL-G-QEAIIFVDEIHRFNKAQQdALLPYIE 141
                              6899***************98888...999999988766655554433446666654.4.7899*********9986515666666 PP

                   AAA_14  89 egknldvivtGSnskllskeiatslagrvaeiel 122
                              eg    + + G    +    i++ l  r+  ++l
  PHY93_09675|PHY93_09675 142 EG---AFTLIGATTENPRVSINKALLSRMHIVQL 172
                              55...66666666666666666666666666665 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 6.8
                   AAA_14  28 vkkesilyinldderdkkla 47 
                              + k++  y+++d+  ++ ++
  PHY93_09675|PHY93_09675 338 TYKSNAAYLAIDQALEYVRS 357
                              22455566666655554333 PP

>> AAA_2  AAA domain (Cdc48 subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.8   0.0   1.2e-06   0.00066       5     109 ..      61     146 ..      57     166 .. 0.81

  Alignments for each domain:
  == domain 1  score: 19.8 bits;  conditional E-value: 1.2e-06
                              -EEEE--TTSSHHHHHHHHHHHTT-....-EEEEEGGG-------THHHHHHHHHTTT-HHHHTTSEEEEETGGG----------- CS
                    AAA_2   5 silllgptgvGktelakalaellfvkkekkliradaselleeeevehlvsrligappgyvgaeegGivllDEidKihpkessgadv 90 
                              si+l gp+g+Gkt la+ la +      k++  ++a       ++++l+   + a+++  +  ++ i+++DEi +  +        
  PHY93_09675|PHY93_09675  61 SIILFGPSGTGKTTLARLLALHSG----KEFYKFNAVLGGV-ADLKKLI---LAAQEMRERLGQEAIIFVDEIHRFNK-------- 130
                              79999********99999998887....79*****998877.4555554...5678899999**************99........ PP

                              --HHHHHHHHHHHH--EE- CS
                    AAA_2  91 SregVqrdLLqileggtlt 109
                                   q++LL+ +e+g  t
  PHY93_09675|PHY93_09675 131 ---AQQDALLPYIEEGAFT 146
                              ...7788999999999876 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.3   0.0   1.1e-06   0.00061       1      60 [.      62     136 ..      62     154 .. 0.61

  Alignments for each domain:
  == domain 1  score: 20.3 bits;  conditional E-value: 1.1e-06
                   AAA_18   1 IlltGtpGvGKttlakeLskrlgf..............gvnlrdvakenglllevdpe.aldeskrldedkldkl 60 
                              I+l G++G+GKttla+ L+ + g                 +l+  a+e + +l++++   +de +r+++ ++d+l
  PHY93_09675|PHY93_09675  62 IILFGPSGTGKTTLARLLALHSGKefykfnavlggvadLKKLILAAQEMRERLGQEAIiFVDEIHRFNKAQQDAL 136
                              9*****************655311224445555553332233333333333333333366666666666666655 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.0      0.02        11      20      58 ..      55      93 ..      36     110 .. 0.76
   2 !    9.9   0.0    0.0013      0.71     125     168 ..     109     151 ..      98     154 .. 0.74

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.02
                             ...TTSEEEEEESTTSTHHHHHHHHHHHH-S.....-EE CS
                   ResIII 20 kskrdkrglikmaTGtGKTlvaaklierllkkgkeekfl 58
                              sk+   +++  + GtGKT +a  l+ +  k++++ +++
  PHY93_09675|PHY93_09675 55 RSKNFPSIILFGPSGTGKTTLARLLALHSGKEFYKFNAV 93
                             4467778889999*********88888877777766555 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 0.0013
                              ..HHHTTT-SEEEEETGGGTTS.TTTHHHHHT---..SEEEEEESS CS
                   ResIII 125 seellrdrfdviiiDEaHrlgakkswreilekfke..avllglTAT 168
                              + + + +++ +i++DE Hr+++ ++  ++l +++e  ++l+g  AT
  PHY93_09675|PHY93_09675 109 EMRERLGQEAIIFVDEIHRFNK-AQQDALLPYIEEgaFTLIG--AT 151
                              4556677888************.7777778888765455555..44 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.0   0.0    0.0001     0.056      36      56 ..      62      82 ..      60     118 .. 0.91
   2 ?    0.3   0.0      0.82   4.4e+02     132     173 ..     223     262 ..     197     277 .. 0.68
   3 ?   -0.5   0.0       1.4   7.9e+02      79      93 ..     406     420 ..     395     424 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 0.0001
                   AAA_25 36 allaGapgtGKttlaldlala 56
                             ++l+G++gtGKttla  lal+
  PHY93_09675|PHY93_09675 62 IILFGPSGTGKTTLARLLALH 82
                             79*************999987 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.82
                   AAA_25 132 aleaaieevegvrlvviDplsralggdensnsdv.galveale 173
                              +l +  +  e+++l++i +  ++  g+ n++ dv +a+++ ++
  PHY93_09675|PHY93_09675 223 KLKNPTK--EEIKLLIIENARAFDKGG-NRHYDViSAFIKSMR 262
                              3333333..459*****9987777665.556666699998876 PP

  == domain 3  score: -0.5 bits;  conditional E-value: 1.4
                   AAA_25  79 aEdsedelrrRlrav 93 
                              +E++ed+lr+Rl+++
  PHY93_09675|PHY93_09675 406 LEGKEDGLRKRLEKL 420
                              7***********985 PP

>> PhoH  PhoH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.8   0.0   0.00011     0.061      21      45 ..      61      85 ..      48      95 .. 0.79
   2 ?    2.0   0.0      0.22   1.2e+02     107     143 ..     104     140 ..      97     152 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 0.00011
                             EEEEE--TTSSTTHHHHHHHHHHHH CS
                     PhoH 21 ivfaiGpaGtGKtylavalavealk 45
                              ++ +Gp+GtGKt la  la++  k
  PHY93_09675|PHY93_09675 61 SIILFGPSGTGKTTLARLLALHSGK 85
                             47899**************998765 PP

  == domain 2  score: 2.0 bits;  conditional E-value: 0.22
                              EEEGGGGTT--B-SEEEEE-SGGG--HHHHHHHHTTB CS
                     PhoH 107 vaplaymRGrTlndafvilDEAQnttkeqmkmfltRl 143
                              ++  + mR r  ++a++++DE   ++k+q   +l  +
  PHY93_09675|PHY93_09675 104 ILAAQEMRERLGQEAIIFVDEIHRFNKAQQDALLPYI 140
                              5677899***99*********9999999988877655 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.5   0.0    0.0011      0.58      24      42 ..      61      79 ..      56      93 .. 0.90
   2 ?    5.1   0.0     0.024        13     106     138 ..     116     148 ..     109     164 .. 0.87
   3 ?   -2.8   0.0       6.1   3.3e+03      14      48 ..     305     338 ..     300     376 .. 0.66

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.0011
             Mg_chelatase 24 nlllvGppGsGKtmlakrl 42
                             +++l+Gp+G+GKt la+ l
  PHY93_09675|PHY93_09675 61 SIILFGPSGTGKTTLARLL 79
                             689*************876 PP

  == domain 2  score: 5.1 bits;  conditional E-value: 0.024
             Mg_chelatase 106 hnGvLfLDElpefkrkvlevLRePledgevtis 138
                              ++ ++f+DE+  f++   ++L   +e+g  t+ 
  PHY93_09675|PHY93_09675 116 QEAIIFVDEIHRFNKAQQDALLPYIEEGAFTLI 148
                              6789*****************999999988765 PP

  == domain 3  score: -2.8 bits;  conditional E-value: 6.1
             Mg_chelatase  14 aleiaaaGgHnlllvGppGsGKtmlakrlpsllpp 48 
                              al++a +  H++  +G p + + +la++ + l + 
  PHY93_09675|PHY93_09675 305 ALTLATSALHSVSNIGMPEA-RIILAQATTYLAST 338
                              77778888888888887754.55555555554443 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   1.3e-05    0.0071      40     117 ..      50     125 ..      37     144 .. 0.62

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 1.3e-05
                IstB_IS21  40 tlsfiekke..nivllGpsGvGKshlaialgveavraglsvlfvrvedLveelkrarrdgklaralkrllkvdllilDdl 117
                              t sf+++k+  +i+l+GpsG+GK+ la  l+ +  ++ ++      + L     +++    ++++ +rl + +++ +D++
  PHY93_09675|PHY93_09675  50 TYSFLRSKNfpSIILFGPSGTGKTTLARLLALHSGKEFYKF----NAVLGGVADLKKLILAAQEMRERLGQEAIIFVDEI 125
                              6677776654479**************99987665543321....11222222233334444445556666666666665 PP

>> DNA_pol3_delta2  DNA polymerase III, delta subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.0   0.1   5.8e-05     0.031      96     162 ..     109     175 ..      54     176 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 5.8e-05
          DNA_pol3_delta2  96 srkpreskkkiiiiedaekmtksAaNalLktlEEPsenaifiLitsdtn.klLktirSRcqelkfspl 162
                              + + r +++ ii ++++ + +k+ + alL  +EE     ++  +t+++  ++ k + SR+ ++++++l
  PHY93_09675|PHY93_09675 109 EMRERLGQEAIIFVDEIHRFNKAQQDALLPYIEEGAFT-LIGATTENPRvSINKALLSRMHIVQLKEL 175
                              344566999*************************9443.33344444432569************987 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.0   2.1e-05     0.012       2      23 ..      62      84 ..      61     123 .. 0.90

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 2.1e-05
                   AAA_28  2 ivitGgestGKTtlleaLaar.g 23
                             i+++G+++tGKTtl++ La + g
  PHY93_09675|PHY93_09675 62 IILFGPSGTGKTTLARLLALHsG 84
                             89****************96643 PP

>> AAA_3  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.4   0.0   9.8e-05     0.053       2     100 ..      62     154 ..      61     171 .. 0.78
   2 ?   -2.0   0.0       5.4     3e+03      22      60 ..     162     199 ..     149     207 .. 0.70

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 9.8e-05
                    AAA_3   2 vllegvPGlaktllvkalakaldlefkriqftpdllPsdilGtevfeekekefefkkGpvfanllladeinrappktqsalleame 87 
                              ++l g  G++kt+l++ la + + ef +      l  + +   + +  +++e++ + G     ++++dei r +   q all  +e
  PHY93_09675|PHY93_09675  62 IILFGPSGTGKTTLARLLALHSGKEFYKFNAV--L--GGVADLKKLILAAQEMRERLGQ--EAIIFVDEIHRFNKAQQDALLPYIE 141
                              56778889999999999999999999875433..3..3344444444455566666664..67999******************** PP

                    AAA_3  88 erqvtvegethkl 100
                              e   t+ g+t++ 
  PHY93_09675|PHY93_09675 142 EGAFTLIGATTEN 154
                              *****99998765 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 5.4
                    AAA_3  22 aldlefkriqftpdllPsdilGtevfeekekefefkkGp 60 
                              al  +++ +q+  +l P di  + + ++++ ++e+ +G 
  PHY93_09675|PHY93_09675 162 ALLSRMHIVQL-KELTPDDIYKILLQTKEKFSLEIDAGL 199
                              55555566665.578999998877777777777777775 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   4.9e-05     0.027       4      22 ..      61      79 ..      58     130 .. 0.88

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 4.9e-05
                   AAA_24  4 kiliyGpsgiGKTtlakel 22
                             +i+++Gpsg+GKTtla+ l
  PHY93_09675|PHY93_09675 61 SIILFGPSGTGKTTLARLL 79
                             799*************977 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.0   5.1e-05     0.028       2      24 ..      62      84 ..      62     135 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 5.1e-05
                   AAA_33  2 vllvGlpGsGKstlaerllkklg 24
                             ++l G++G+GK+tla+ l+ + g
  PHY93_09675|PHY93_09675 62 IILFGPSGTGKTTLARLLALHSG 84
                             6899************9986655 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   0.1     0.033        18      12      28 ..      61      77 ..      54      94 .. 0.81
   2 ?    6.8   0.0     0.014       7.8      91     136 ..     105     149 ..      92     158 .. 0.74

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.033
                   AAA_19 12 vllvtaGpGtGKTrvlk 28
                              +++ ++ GtGKT++ +
  PHY93_09675|PHY93_09675 61 SIILFGPSGTGKTTLAR 77
                             57899999*****9765 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.014
                   AAA_19  91 leeaeeekklqeeellivDEfqdvd.elqyrLlkallgekkklllvG 136
                              l  +e ++ l +e++++vDE+   +  +q +Ll  +  e++ ++l+G
  PHY93_09675|PHY93_09675 105 LAAQEMRERLGQEAIIFVDEIHRFNkAQQDALLPYIE-EGA-FTLIG 149
                              33456778886777***********888889998887.666.88888 PP

>> DUF815  Protein of unknown function (DUF815)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   5.7e-05     0.031      44     122 ..      50     132 ..      43     195 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 5.7e-05
                   DUF815  44 teqfleglpannvLLwGarGtGKSslvkallneyaeegLrliev..ekedlkelpklvellrer.perfilfvDDLs.Feeee 122
                              t  fl+ ++   ++L+G  GtGK +l + l  +  +e  ++  v     dlk+l    +++rer  ++ i+fvD +  F++ +
  PHY93_09675|PHY93_09675  50 TYSFLRSKNFPSIILFGPSGTGKTTLARLLALHSGKEFYKFNAVlgGVADLKKLILAAQEMRERlGQEAIIFVDEIHrFNKAQ 132
                              77899999999*****************99999999986665551156788888888888875427899*****985355544 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   0.00012     0.067       1      26 [.      62      87 ..      62     142 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 0.00012
             RNA_helicase  1 iwlyGpsgeGKStlakeLakallkkl 26
                             i+l+Gpsg+GK+tla+ La +  k++
  PHY93_09675|PHY93_09675 62 IILFGPSGTGKTTLARLLALHSGKEF 87
                             789**************998877666 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.1   0.00054       0.3      22      78 ..      63     130 ..      52     150 .. 0.64
   2 ?    2.9   0.0      0.14        76      92     180 ..     120     150 ..     105     162 .. 0.59

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00054
                   AAA_30  22 vltGpAGtGKttalkalreaweaag.......grviglAptgk...aAkvLaeelg....ieastiakllk 78 
                              +l Gp GtGKtt+ + l+ +  ++        g   g+A  +k   aA++++e lg    i  + i+++ k
  PHY93_09675|PHY93_09675  63 ILFGPSGTGKTTLARLLALHSGKEFykfnavlG---GVADLKKlilAAQEMRERLGqeaiIFVDEIHRFNK 130
                              788*********999988777766445654442...34443333336667776666222245555555554 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.14
                   AAA_30  92 livDEagmvdtkqlaallkaaekagakvilvGDerQlasVeaGgvlrdlveaagigtaeLtevvRqkeseeraaalalregdaeea 177
                              +                                                          ++e++R++++++ a+   ++eg ++  
  PHY93_09675|PHY93_09675 120 I---------------------------------------------------------FVDEIHRFNKAQQDALLPYIEEGAFT-L 147
                              3.........................................................45666666666666666666666665.4 PP

                   AAA_30 178 lea 180
                              + a
  PHY93_09675|PHY93_09675 148 IGA 150
                              444 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   0.00016     0.085      14      33 ..      62      81 ..      54      90 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 0.00016
                             EEEEESTTSSHHHHHHHHTT CS
                             xxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran 14 vaivGenGaGKStLlkllag 33
                             + ++G++G+GK+tL++lla 
  PHY93_09675|PHY93_09675 62 IILFGPSGTGKTTLARLLAL 81
                             6799************9975 PP

>> PEPCK_ATP  Phosphoenolpyruvate carboxykinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.0       0.9   4.9e+02     335     353 ..      24      42 ..      19      45 .. 0.86
   2 ?   10.1   0.1   0.00043      0.23     213     227 ..      62      76 ..      54      82 .. 0.88

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 0.9
                              S-S-SEEEE-HHHHHHHHH CS
                PEPCK_ATP 335 gvlPpvskLtkeqamyhFl 353
                               +lPp+++L++ q+   F+
  PHY93_09675|PHY93_09675  24 KILPPLAHLSRPQTFEEFI 42 
                              69***********998886 PP

  == domain 2  score: 10.1 bits;  conditional E-value: 0.00043
                              EEEEE-TTSSHHHHH CS
                PEPCK_ATP 213 alfFGLSGtGKTtLs 227
                               ++FG SGtGKTtL+
  PHY93_09675|PHY93_09675  62 IILFGPSGTGKTTLA 76 
                              59************7 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   0.0    0.0021       1.1       9      40 ..      48      79 ..      44      94 .. 0.78
   2 ?    1.3   0.1      0.51   2.8e+02     110     141 ..     107     137 ..      89     153 .. 0.71

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.0021
                 ATPase_2  9 keleeilerepneiyfiYGpegsGKtaLlkei 40
                              +  + l++++ + + ++Gp g GKt+L + +
  PHY93_09675|PHY93_09675 48 FKTYSFLRSKNFPSIILFGPSGTGKTTLARLL 79
                             5556778888889999************9865 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.51
                 ATPase_2 110 lekikkk.gkkiiiiiDelqklidlglngaell 141
                               ++++++ g++ ii++De+ +    + ++++ll
  PHY93_09675|PHY93_09675 107 AQEMRERlGQEAIIFVDEIHRFN--KAQQDALL 137
                              344444415559*******9998..66655555 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.0    0.0011      0.59       3      22 ..      62      81 ..      61      93 .. 0.87
   2 ?    0.5   0.0      0.89   4.9e+02     121     163 ..     146     188 ..     103     190 .. 0.68

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.0011
                             EEEEC-TTTCHHHHHHHHHH CS
                    NACHT  3 vilqGeaGsGKTtLlqklal 22
                             +il G++G GKTtL++ lal
  PHY93_09675|PHY93_09675 62 IILFGPSGTGKTTLARLLAL 81
                             7899***********99886 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.89
                              -EEEEEEECCCHHHHCTTSSCE..EEEE--TCCHHHHHHHHCT CS
                    NACHT 121 asllltvrpralrdleeqleeaivlevegfsesrrkqlvrkyf 163
                              + + +t+ + +++  + +l++ +++++++++ +++ +++ +++
  PHY93_09675|PHY93_09675 146 TLIGATTENPRVSINKALLSRMHIVQLKELTPDDIYKILLQTK 188
                              33334444445555677777779**********9999988776 PP

>> AAA_13  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0   0.00039      0.21      20      43 ..      63      85 ..      48     134 .. 0.85

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00039
                   AAA_13 20 liYGwNGaGKTtLSrllrslelge 43
                             +++G  G+GKTtL+rll+  + g+
  PHY93_09675|PHY93_09675 63 ILFGPSGTGKTTLARLLALHS-GK 85
                             589**************9864.33 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.1    0.0012      0.65      35      63 ..      61      89 ..      49     138 .. 0.79

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.0012
                    AAA_7 35 pvllvGptGtGKtviikdllkkldkekyl 63
                             +++l Gp+GtGKt++++ l  +  ke y+
  PHY93_09675|PHY93_09675 61 SIILFGPSGTGKTTLARLLALHSGKEFYK 89
                             6899**********999855555545554 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   3.2     0.003       1.6      18      41 ..      58      81 ..      37     242 .. 0.92

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.003
                   AAA_23 18 skgltlItGpNGaGKTTildAikl 41
                             + +  +++Gp G+GKTT+ + + l
  PHY93_09675|PHY93_09675 58 NFPSIILFGPSGTGKTTLARLLAL 81
                             557899************987765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (425 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       672  (0.0374812); expected 358.6 (0.02)
Passed bias filter:                      629  (0.0350828); expected 358.6 (0.02)
Passed Vit filter:                       108  (0.00602376); expected 17.9 (0.001)
Passed Fwd filter:                        33  (0.00184059); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              33  [number of targets reported over threshold]
# CPU time: 0.67u 0.25s 00:00:00.92 Elapsed: 00:00:00.40
# Mc/sec: 3196.66
//
Query:       PHY93_09680|PHY93_09680  [L=74]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.8e-12   45.1   9.6      7e-12   44.9   9.6    1.1  1  Ribosomal_S21  Ribosomal protein S21


Domain annotation for each model (and alignments):
>> Ribosomal_S21  Ribosomal protein S21
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.9   9.6   3.9e-16     7e-12       2      54 ..      11      63 ..      10      64 .. 0.94

  Alignments for each domain:
  == domain 1  score: 44.9 bits;  conditional E-value: 3.9e-16
            Ribosomal_S21  2 VvVkdgenierALkrfkrkveragvirevrrrryyekpsekrkrkkkearrrr 54
                             V++ +   +er Lk+fkr +e+ gv re+r+r+ y kps+k k+k ++a +rr
  PHY93_09680|PHY93_09680 11 VQIDERSGVERSLKKFKRMCESFGVVREYRKRQEYKKPSVKHKEKVEAAEKRR 63
                             77788888*******************************************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (74 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1405  (0.0783647); expected 358.6 (0.02)
Passed bias filter:                      417  (0.0232584); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.37u 0.21s 00:00:00.57 Elapsed: 00:00:00.36
# Mc/sec: 617.93
//
Query:       PHY93_16710|PHY93_16710  [L=95]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    8.7e-23   80.0   9.1    9.8e-23   79.8   9.1    1.0  1  Oxidored_q2  NADH-ubiquinone/plastoquinone oxidoreductase cha
  ------ inclusion threshold ------
      0.015   15.3   7.7      0.018   15.0   7.7    1.2  1  NAD4L        NADH dehydrogenase subunit 4L (NAD4L)
      0.065   13.4   7.2       0.52   10.5   7.0    2.0  1  DUF2107      Predicted membrane protein (DUF2107)
        1.2    8.7   5.6        2.8    7.5   5.6    1.6  1  Wzy_C        O-Antigen ligase
        7.5    5.6  10.0        8.3    5.5  10.0    1.0  1  Herpes_LMP1  Herpesvirus latent membrane protein 1 (LMP1)


Domain annotation for each model (and alignments):
>> Oxidored_q2  NADH-ubiquinone/plastoquinone oxidoreductase chain 4L
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.8   9.1   2.7e-26   9.8e-23       2     103 ..       4      92 ..       3      94 .. 0.97

  Alignments for each domain:
  == domain 1  score: 79.8 bits;  conditional E-value: 2.7e-26
                              HHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHHHHHHHC.............TTSCGGHHHHHHHHHHHHHHHHHHHH CS
              Oxidored_q2   2 lllliallfliGlygvllrrnllkvliglelisnavnlllvlagvftegtlvitnpatefadplpqalvLtaivigaaetavgLal 87 
                              +++l+a+lf++Gl+g +++++l+++l++lel++++v ll++l++++t             + + +q++v++ + i+a+e+a+gL+l
  PHY93_16710|PHY93_16710   4 YYYLAAFLFCLGLLGTIFKKDLISMLLCLELMMSGVALLFILFSKST-------------GFLDAQLMVIFTMIISACEVAIGLSL 76 
                              899********************************************.............9************************* PP

                              HHHHHHHSSS-BCCG- CS
              Oxidored_q2  88 lvrlyreygtddvqel 103
                              +++lyr+++t++++++
  PHY93_16710|PHY93_16710  77 IIALYRKKQTIYTDDI 92 
                              *************987 PP

>> NAD4L  NADH dehydrogenase subunit 4L (NAD4L)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   7.7   5.1e-06     0.018       4      77 ..       4      83 ..       1      91 [. 0.69

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 5.1e-06
                    NAD4L  4 llllfvllilisll..lsltrllNlLiilE....nfNvllLlvcllvsvedsriiFivlmvlfvvEvsvgLvvvtvviei 77
                              ++l  +l+ ++ll  +  + l+ +L+ lE     + +l++l++  +   d +++ i  m+++  Ev +gL ++  +++ 
  PHY93_16710|PHY93_16710  4 YYYLAAFLFCLGLLgtIFKKDLISMLLCLElmmsGVALLFILFSKSTGFLDAQLMVIFTMIISACEVAIGLSLIIALYRK 83
                             5566667777777633445568888888872211345666666666777899*******************888776655 PP

>> DUF2107  Predicted membrane protein (DUF2107)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   7.0   0.00015      0.52       2      52 ..       6      53 ..       5      84 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00015
                  DUF2107  2 yvGlilliiGtlaaaiGPrekdplvrllnlEvpavGvllilLaynetlALl 52
                             y+ ++l  +G l++++   +kd ++ ll lE+   Gv+l+++ + +    l
  PHY93_16710|PHY93_16710  6 YLAAFLFCLGLLGTIF---KKDLISMLLCLELMMSGVALLFILFSKSTGFL 53
                             77899***********...***********************998765544 PP

>> Wzy_C  O-Antigen ligase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   5.6   0.00079       2.8      20      63 ..       8      52 ..       5      89 .. 0.81

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.00079
                    Wzy_C 20 igllvalivlliifykrri.pfllllgilvgvilliilfvlstnl 63
                              ++l+ l++l  if+k +i   l l +++ gv+ll+ilf+ st +
  PHY93_16710|PHY93_16710  8 AAFLFCLGLLGTIFKKDLIsMLLCLELMMSGVALLFILFSKSTGF 52
                             57799**************54555555999*********977655 PP

>> Herpes_LMP1  Herpesvirus latent membrane protein 1 (LMP1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.5  10.0    0.0023       8.3      54     138 ..       3      88 ..       1      92 [. 0.71

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.0023
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX..XX.XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
              Herpes_LMP1  54 vlysfallliiiiliififrrdllcplgalcllllmitlllialwnlhg..qa.lylgivlfifgcllvlglwiyllellwrlgat 136
                              + y +a +l  + l+  if++dl+  l +l l++  ++ll+i + +  g  +a l++   ++i  c + +gl   l+  l+r   t
  PHY93_16710|PHY93_16710   3 IYYYLAAFLFCLGLLGTIFKKDLISMLLCLELMMSGVALLFILFSKSTGflDAqLMVIFTMIISACEVAIGLS--LIIALYRKKQT 86 
                              5688899999999************997666666667888887776666322313344445566787777765..56678888877 PP

                              XX CS
              Herpes_LMP1 137 iw 138
                              i+
  PHY93_16710|PHY93_16710  87 IY 88 
                              76 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (95 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       842  (0.046963); expected 358.6 (0.02)
Passed bias filter:                      314  (0.0175135); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.43u 0.24s 00:00:00.67 Elapsed: 00:00:00.42
# Mc/sec: 676.45
//
Query:       PHY93_09685|PHY93_09685  [L=84]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.6e-26   91.2   0.0    4.2e-26   90.9   0.0    1.0  1  Pterin_4a      Pterin 4 alpha carbinolamine dehydratase
  ------ inclusion threshold ------
      0.071   11.5   0.1      0.081   11.3   0.1    1.0  1  Hemagglutinin  Haemagglutinin


Domain annotation for each model (and alignments):
>> Pterin_4a  Pterin 4 alpha carbinolamine dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   90.9   0.0   4.7e-30   4.2e-26      10      89 ..       4      84 .]       2      84 .] 0.95

  Alignments for each domain:
  == domain 1  score: 90.9 bits;  conditional E-value: 4.7e-30
                Pterin_4a 10 kllaelpgWr.leeaeelerefkfkdfeeaiafvnrvaalaeeenHhpdilvsynkvtvrltThdaggltenDfklAakid 89
                             ++l++lpgW+ +++++ + +ef+fk++ ++i+fvn+va+la++enHhpd++vs  k+ vrltThd gg+ e+Df lA+ki+
  PHY93_09685|PHY93_09685  4 EKLKTLPGWSyDSNKNCIVKEFQFKSYLKTISFVNAVAWLANKENHHPDLEVSFSKCVVRLTTHDEGGVGEKDFSLAHKIE 84
                             678788****755899***************************************************************97 PP

>> Hemagglutinin  Haemagglutinin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.1   9.1e-06     0.081     110     164 ..       4      58 ..       2      64 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 9.1e-06
                              EEEESS-HCCHSSTSBTSSE-EEEEECTSSEE--SSEEEEBEBTTB-SEEEEEEE CS
            Hemagglutinin 110 ekirllpkessvinhetasGvsaacpnegkssffrnlvwliekdsakptvkvsyv 164
                              ek++ lp  s  +n+++        ++    sf ++++wl +k++ +p ++vs+ 
  PHY93_09685|PHY93_09685   4 EKLKTLPGWSYDSNKNCIVKEFQFKSYLKTISFVNAVAWLANKENHHPDLEVSFS 58 
                              5666777777777777776666667788899*********************985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (84 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       328  (0.0182944); expected 358.6 (0.02)
Passed bias filter:                      260  (0.0145016); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.39u 0.22s 00:00:00.61 Elapsed: 00:00:00.39
# Mc/sec: 645.89
//
Query:       PHY93_09690|PHY93_09690  [L=266]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.7e-47  162.1   0.0    2.1e-47  161.8   0.0    1.0  1  Biopterin_H  Biopterin-dependent aromatic amino acid hydroxyl


Domain annotation for each model (and alignments):
>> Biopterin_H  Biopterin-dependent aromatic amino acid hydroxylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  161.8   0.0   1.2e-51   2.1e-47      60     279 ..      19     234 ..       6     243 .. 0.96

  Alignments for each domain:
  == domain 1  score: 161.8 bits;  conditional E-value: 1.2e-51
              Biopterin_H  60 eyteeeiktWkevykklkklypthaCkeyleafkllekecgysedniPqledvskfLkektGfklRPvaGllsaRdfLaglafrvf 145
                              +y++ee++tW  + ++ k+l ++ a ke+ + +++l+      +d+iPq  d+++ L++ tG+ + Pv +l+    f + l+ + f
  PHY93_09690|PHY93_09690  19 HYSKEENETWAFLLHRQKELIKSRASKEFIKGVEILKF-----DDEIPQHGDITAILNSYTGWGVEPVPALIQPDIFFSLLSQKKF 99 
                              79********************************9984.....79***************************************** PP

              Biopterin_H 146 qstqYiRhsskplytpePdvvhellGhvplladkefaqfsqeiglaslGasdeeieklatlywftvefglckqngelkaygaGlls 231
                               + ++iR  ++  y  ePdv he++Gh+pll++  +a+f ++ g  +l a  ++  +l +l+wft+efgl+k+++++kayg G+ls
  PHY93_09690|PHY93_09690 100 PAANFIRTPADIDYIEEPDVFHEIFGHCPLLTNAPYAEFMHQYGKLALLADKKTQMRLFRLFWFTIEFGLIKEDNQYKAYGGGILS 185
                              ************************************************************************************** PP

              Biopterin_H 232 sygelkyalsd.kpevkpfdpektaeqeyqiteyqpvYfvaesfedake 279
                              s +e+ y++++  pe +p+dp  +  ++++i+  qpvYfv esfed  +
  PHY93_09690|PHY93_09690 186 SKSEIIYSVESdIPERRPLDPLDALRTPFRIDILQPVYFVIESFEDLFK 234
                              ********975269*******************************9755 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (266 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       394  (0.0219756); expected 358.6 (0.02)
Passed bias filter:                      360  (0.0200792); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.19s 00:00:00.65 Elapsed: 00:00:00.38
# Mc/sec: 2107.35
//
Query:       PHY93_09695|PHY93_09695  [L=184]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.015   14.9   0.3      0.022   14.3   0.3    1.4  1  4HB_MCP_1     Four helix bundle sensory module for signal tra
       0.14   11.4   0.9       0.58    9.4   0.9    1.9  1  Ribosomal_S2  Ribosomal protein S2


Domain annotation for each model (and alignments):
>> 4HB_MCP_1  Four helix bundle sensory module for signal transduction
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.3   2.4e-06     0.022      88     127 ..      37      76 ..      19      99 .. 0.90

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 2.4e-06
                4HB_MCP_1  88 eaeidkllekyektilteeEkelleefkeqlnaYrevrkk 127
                              e  +++ ++++ +++lt+eEk++l++ ++++ +Y+++ + 
  PHY93_09695|PHY93_09695  37 ESITNTMMASFGNLKLTAEEKKQLSRSHRKMLNYYRHLNP 76 
                              5668999***************************998876 PP

>> Ribosomal_S2  Ribosomal protein S2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4   0.9   6.4e-05      0.58     112     172 ..      44     107 ..       2     122 .. 0.79

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 6.4e-05
             Ribosomal_S2 112 leedgeldltkkealklkkekekleknlggikkm...kklPdlvvvldpkkekiavkEakklgi 172
                              +++ g+l+lt +e+ +l+++++k+ +++++++     ++  +lv+ +++ k++++v Ea+ +g 
  PHY93_09695|PHY93_09695  44 MASFGNLKLTAEEKKQLSRSHRKMLNYYRHLNPFslnMDAKKLVIEINQSKQTHVVIEANHYGA 107
                              344566677777888888888877777777665533378889******************9875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (184 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       739  (0.0412181); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.20s 00:00:00.65 Elapsed: 00:00:00.38
# Mc/sec: 1464.49
//
Query:       PHY93_09700|PHY93_09700  [L=80]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.012   15.2   5.8      0.012   15.1   5.8    1.0  1  TRAP-gamma  Translocon-associated protein, gamma subunit (TRA
      0.039   13.8   4.3      0.058   13.2   4.3    1.4  1  CagD        Pathogenicity island component CagD


Domain annotation for each model (and alignments):
>> TRAP-gamma  Translocon-associated protein, gamma subunit (TRAP-gamma)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.1   5.8   1.4e-06     0.012      53     116 ..       6      69 ..       1      77 [. 0.86

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.4e-06
               TRAP-gamma  53 ivtllstyllalayknvkfvlk.hkiavkReeavtrevnkkladdkKiskkekderilwkkneva 116
                               ++lls++++a   k+vk+  k +k+a  ++eav+++  k l++dkK + k   e  l+ ++++ 
  PHY93_09700|PHY93_09700   6 ALALLSSFAMANDAKEVKEAVKaEKVAEVKKEAVAADK-KDLKEDKKAAYKAAKEACLKENKDLK 69 
                              4578999**********9877648************96.999*************9999988875 PP

>> CagD  Pathogenicity island component CagD
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   4.3   6.5e-06     0.058      14      75 ..       2      56 ..       1      78 [. 0.60

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 6.5e-06
                     CagD 14 kvllslvvfssyglanddkeakkevlekekntpnglvytnldfdsfkatiknlk.dkkvtfke 75
                             k ll+l ++ss+ +and ke k+ v + ek +        +  +++ a  k+lk dkk ++k 
  PHY93_09700|PHY93_09700  2 KFLLALALLSSFAMANDAKEVKEAV-KAEKVAE-------VKKEAVAADKKDLKeDKKAAYKA 56
                             89******************98766.4444322.......22233333333333233333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (80 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2532  (0.141224); expected 358.6 (0.02)
Passed bias filter:                      745  (0.0415528); expected 358.6 (0.02)
Passed Vit filter:                        57  (0.00317921); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.39u 0.22s 00:00:00.61 Elapsed: 00:00:00.35
# Mc/sec: 679.80
//
Query:       PHY93_09705|PHY93_09705  [L=72]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (72 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1103  (0.0615204); expected 358.6 (0.02)
Passed bias filter:                      580  (0.0323498); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.19s 00:00:00.58 Elapsed: 00:00:00.36
# Mc/sec: 599.51
//
Query:       PHY93_09710|PHY93_09710  [L=221]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.6e-29  100.9   0.0    6.9e-29  100.3   0.0    1.3  1  Response_reg  Response regulator receiver domain
    4.2e-24   84.4   0.2    9.5e-24   83.3   0.0    1.7  2  Trans_reg_C   Transcriptional regulatory protein, C terminal


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  100.3   0.0   7.7e-33   6.9e-29       1     112 []       3     113 ..       3     113 .. 0.99

  Alignments for each domain:
  == domain 1  score: 100.3 bits;  conditional E-value: 7.7e-33
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseeeda 86 
                              +l+v+D+p++++ +++ l+ +gy  v++ e+g  a  l+ e+ +dli+lD+n+p+ +G++++++ir++ ++ p+++lta s+ +d+
  PHY93_09710|PHY93_09710   3 ILVVEDQPKMASFIKKGLNAQGY-IVDVSETGMGAESLVAENPYDLIVLDVNLPDQNGMDTARHIRQDGYKGPILMLTALSSTKDK 87 
                              8**********************.************************************************************** PP

                              HHHHHCTESEEEESSG-HHHHHHHHH CS
             Response_reg  87 vealkagaddflsKpfdpeeLlkale 112
                              +++l+agadd+l+Kpfd +eLl++++
  PHY93_09710|PHY93_09710  88 IHGLDAGADDYLTKPFDFDELLARIR 113
                              **********************9985 PP

>> Trans_reg_C  Transcriptional regulatory protein, C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.0       1.3   1.1e+04      50      60 ..     109     119 ..     106     124 .. 0.68
   2 !   83.3   0.0   1.1e-27   9.5e-24       3      77 .]     147     220 ..     145     220 .. 0.97

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 1.3
                              HHHHHHHHHTT CS
              Trans_reg_C  50 isrLRkkLedd 60 
                               +r+R  L+ +
  PHY93_09710|PHY93_09710 109 LARIRALLRRN 119
                              57888888775 PP

  == domain 2  score: 83.3 bits;  conditional E-value: 1.1e-27
                              EEE-SHHHHHHHHHHHHTTTSEEEHHHHHHHHTTTTSTSHTHHHHHHHHHHHHHHHTTTTSSSSEEEETTTEEEE CS
              Trans_reg_C   3 eveltpkefklLelLlenpgrvvsreeLleevwgededvddrtvdvhisrLRkkLeddekkprlIetvrgvGYrl 77 
                              e++lt+kef+lLe+++++p+r+++r e+ e+vw+ ++d++++++dv+i+ LRkk++  +++++lI+t  g GY+l
  PHY93_09710|PHY93_09710 147 ELNLTAKEFSLLEYFMRHPNRPLTRVEISEHVWDVNFDTNTNVIDVYINMLRKKIDS-PFEKKLIHTMVGYGYIL 220
                              689******************************************************.99*************87 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (221 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       368  (0.0205254); expected 358.6 (0.02)
Passed bias filter:                      314  (0.0175135); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.19s 00:00:00.61 Elapsed: 00:00:00.36
# Mc/sec: 1857.78
//
Query:       PHY93_09715|PHY93_09715  [L=478]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.5e-19   70.5   0.0    3.2e-19   69.5   0.0    1.6  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    2.5e-12   46.6   0.6    5.3e-12   45.6   0.2    1.8  2  HisKA        His Kinase A (phospho-acceptor) domain
    6.1e-05   23.3   0.0    0.00012   22.4   0.0    1.5  1  HAMP         HAMP domain
  ------ inclusion threshold ------
       0.03   14.3   0.0      0.057   13.4   0.0    1.4  1  HATPase_c_2  Histidine kinase-like ATPase domain
       0.14   12.4   0.1       0.31   11.3   0.1    1.5  1  RILP         Rab interacting lysosomal protein


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.5   0.0   8.8e-23   3.2e-19       2     108 ..     370     476 ..     369     478 .] 0.89

  Alignments for each domain:
  == domain 1  score: 69.5 bits;  conditional E-value: 8.8e-23
                              HHHHHHHHHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCH.HCSTCHTSTSSSHHHHHHHHHHH CS
                HATPase_c   2 dekrLrqiisnlvdNavkfatkageieveikaseddlvisveDnGiGipkedlkklfekfsq.ddstkrggggtGlGlsivkklve 86 
                              d++ L  ++ nl++Na+k+++++++i ++   ++d +++ v+D G Gi   ++ k+f++f + + +++ +  g+GlGl+i+k +++
  PHY93_09715|PHY93_09715 370 DPDLLGVLFYNLIENAIKYSPENSTIIISGINDNDSITVVVSDEGVGIKDVQIGKIFDRFFRiE-GSSKSAMGSGLGLAICKVVAD 454
                              667778899**********8899999888886669***************************54.4555567***********999 PP

                              HTTTEEEEEEETTTEEEEEEEE CS
                HATPase_c  87 lmgGeiwvesepgrGttftftl 108
                               +g ++w e++p++Gt+f+f++
  PHY93_09715|PHY93_09715 455 SLGAKLWAENNPEKGTSFYFKM 476
                              *******************975 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.7   0.0       3.5   1.3e+04      46      62 ..     229     243 ..     224     246 .. 0.55
   2 !   45.6   0.2   1.5e-15   5.3e-12       1      67 []     251     317 ..     251     317 .. 0.96

  Alignments for each domain:
  == domain 1  score: -3.7 bits;  conditional E-value: 3.5
                              HHHHHHHHHHHHHHHHC CS
                    HisKA  46 searrldhlvedlLdls 62 
                              +e+ +l + ++ l  ls
  PHY93_09715|PHY93_09715 229 DEIWQLADTINHL--LS 243
                              4555555556555..33 PP

  == domain 2  score: 45.6 bits;  conditional E-value: 1.5e-15
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHC..T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH CS
                    HisKA   1 slgrflagvaHELrtPLsailgnaeaLkregklteelkeyletiesearrldhlvedlLdlsrieag 67 
                              s++rf+++ +H+L+tPL+ i+g +e+ + e++   e ++++e++ +e++ l +l +dlL l+r ++g
  PHY93_09715|PHY93_09715 251 SQERFIQDASHQLKTPLAIIKGELELFRSEVRSEKETAQFIESMSQEINFLIKLTNDLLILARVDSG 317
                              689************************99988889****************************9987 PP

>> HAMP  HAMP domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.4   0.0   3.2e-08   0.00012       2      53 .]     195     247 ..     194     247 .. 0.93

  Alignments for each domain:
  == domain 1  score: 22.4 bits;  conditional E-value: 3.2e-08
                              HHHTTHHHHHHHHHHHHHHTTTBTSSTCCT.TSSSHHHHHHHHHHHHHHHHHH CS
                     HAMP   2 larrilrPLrrLaraarriaaGdldtrlpv.sgrDEiGeLarafNaMldrLre 53 
                              +++r l P+ ++   +++i   +l++r+pv + +DEi +La ++N++l rL+e
  PHY93_09715|PHY93_09715 195 FVGRALLPMLEIINKTKKIEVSNLEERVPVpEAKDEIWQLADTINHLLSRLHE 247
                              67889999999*********88****************************985 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   1.6e-05     0.057      41     112 ..     379     456 ..     377     470 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 1.6e-05
              HATPase_c_2  41 tNavehayleap.egpvevrlesdeealtvevaDsGpg.fdpetlpdpteeep......keslkegGrGlalikglvDev 112
                              +N +e a +  p + ++ ++   d++++tv+v+D+G g  d++ ++  +          + s+  +G+Gla+ k ++D++
  PHY93_09715|PHY93_09715 379 YNLIENAIKYSPeNSTIIISGINDNDSITVVVSDEGVGiKDVQIGKIFDR--FfriegsSKSAMGSGLGLAICKVVADSL 456
                              6666666666665678899988999*************999985443322..1345566999************999987 PP

>> RILP  Rab interacting lysosomal protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.1   8.6e-05      0.31      13      45 ..     261     292 ..     258     299 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 8.6e-05
                     RILP  13 NeLKaqlfllqEELayYkseeleeernsselre 45 
                              ++LK+ l +++ EL++++se  +e+++ + + e
  PHY93_09715|PHY93_09715 261 HQLKTPLAIIKGELELFRSEVRSEKETAQ-FIE 292
                              58*******************98555555.433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (478 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       782  (0.0436165); expected 358.6 (0.02)
Passed bias filter:                      502  (0.0279993); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.56u 0.23s 00:00:00.79 Elapsed: 00:00:00.38
# Mc/sec: 3741.71
//
Query:       PHY93_09720|PHY93_09720  [L=182]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    4.4e-08   33.5   3.6    5.1e-08   33.3   3.6    1.1  1  OMP_b-brl    Outer membrane protein beta-barrel domain
  ------ inclusion threshold ------
      0.015   15.3   2.5       0.13   12.3   0.2    2.3  2  OMP_b-brl_2  Outer membrane protein beta-barrel domain


Domain annotation for each model (and alignments):
>> OMP_b-brl  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.3   3.6   5.7e-12   5.1e-08      27     172 ..      26     164 ..       4     170 .. 0.77

  Alignments for each domain:
  == domain 1  score: 33.3 bits;  conditional E-value: 5.7e-12
                OMP_b-brl  27 glglskvkvdgvgsds...gfgfgvgagyefndnvgvegglsy.sgdkdysgsgktdikinllsvpvnagyafnlsdsvlpyggaG 108
                              g++  + + + +++d    ++++ +ga   + ++++++ +++  + + ++++    + k n+l+++ ++ y f   +    yg++G
  PHY93_09720|PHY93_09720  26 GYS--SSTDSKTTTDIsdvSNHIYIGASLGVKQKFFIGQNITLfTHQLKAAT----TNKVNTLELGPRLTYFFSE-E-NVFYGTLG 103
                              333..3332333333344489****************999985477777777....88999**********9974.3.37****** PP

                OMP_b-brl 109 lg.ytkvevdvsgngasdsdtdfglglgaGveyaladnwslkaeYrytdlksdadndlknntfqv 172
                               + y+k + +vs +  +d+ +  gl +g+G+e++++ n+ ++++ +y  l++  ++ ++++++  
  PHY93_09720|PHY93_09720 104 WNpYAKGKRTVSSV--TDDISGYGLLVGLGAEVKINRNFHIGGSLNYHRLSI--SKAISASNVAT 164
                              ***999******99..*******************************98866..34455555544 PP

>> OMP_b-brl_2  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.2      0.01        91     126     168 ..      25      60 ..      15      72 .. 0.52
   2 ?   12.3   0.2   1.4e-05      0.13      33     102 ..     116     181 ..      73     182 .] 0.80

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.01
              OMP_b-brl_2 126 sgstsdvddgkakdasydsdklkkfdygltigagyeffkklgl 168
                              sg++s++d+    +    + ++  ++ ++ iga++ +++k+++
  PHY93_09720|PHY93_09720  25 SGYSSSTDSK---T----TTDISDVSNHIYIGASLGVKQKFFI 60 
                              4444333333...2....4444444445555555555544443 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 1.4e-05
              OMP_b-brl_2  33 ensqsnprlgfsvgvvveyrleegwglqpglgyssrgmefefegetnnedkktkitstylelPllakyki 102
                              +++++ + +g+ vg+++e+ +++++ ++ +l+y++ + +   +    +++  t+++ ty +l++++ +++
  PHY93_09720|PHY93_09720 116 SVTDDISGYGLLVGLGAEVKINRNFHIGGSLNYHRLSISKAIS----ASNVATSVSDTYSSLMPMINLSF 181
                              4556667789999999999999999999999999988887665....68999999999999999988776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (182 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       384  (0.0214178); expected 358.6 (0.02)
Passed bias filter:                      261  (0.0145574); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.39u 0.21s 00:00:00.60 Elapsed: 00:00:00.35
# Mc/sec: 1566.17
//
Query:       PHY93_09725|PHY93_09725  [L=422]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.4e-77  260.1   0.2    2.9e-77  259.9   0.2    1.1  1  tRNA-synt_1b     tRNA synthetases class I (W and Y)
  ------ inclusion threshold ------
      0.033   14.0   0.2        3.4    7.5   0.0    3.0  3  TyrRSs_C         Tyrosyl-tRNA synthetase C-terminal domain
      0.044   13.9   0.0      0.099   12.8   0.0    1.5  1  Trp_repressor    Trp repressor protein
       0.15   12.3   0.0        6.3    7.1   0.0    2.6  2  Antimicrobial_7  Scorpion antimicrobial peptide


Domain annotation for each model (and alignments):
>> tRNA-synt_1b  tRNA synthetases class I (W and Y)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  259.9   0.2   6.5e-81   2.9e-77       2     292 ..      26     324 ..      25     325 .. 0.98

  Alignments for each domain:
  == domain 1  score: 259.9 bits;  conditional E-value: 6.5e-81
                              HHS--EEEEEEETSSS.-BGGGHHHHHHHHHHHHTTSEEEEEEEHHHHHTTTTT.-SSHHHHHHHHHHHHHH..HHHHHHHTCHTT CS
             tRNA-synt_1b   2 kerplrvysGidPTgk.lHlGylvplkklvelqkaghevffliaDlhAiigdps.kaeerklrkreevlena..ikaqlakgldpe 83 
                              +++++++y G dPT+k l +G+l +l ++ ++q agh+++++i++++++igdps k++er l+++e  ++n+   k+q +k+ld+ 
  PHY93_09725|PHY93_09725  26 NNKKISFYIGYDPTAKsLQIGNLFALITMKRFQIAGHKPYVVIGGATGMIGDPSgKNSERILLTDEIIQVNIeaQKKQFQKILDFG 111
                              5799********************************************************************99999999999999 PP

                              T....EEEEETHHHHTTHHHHHHHHHHHTTCBHHHHHHHHHCCHHCSSSC--BHHHHHHHHHHHHHHHHTCHS....EEEEEGGGH CS
             tRNA-synt_1b  84 k....aevvlqsewlehlelaellrdlgklgslnrmlqfksvkkrleegegislgeftYplLqaaDilllkad....lvpgGsDQk 161
                                   a +v++ +w+ +   +e+lrd+gk +++ +ml+++svk+r++++ gis++eftY++Lqa+D+ +l ++    l++gG DQ+
  PHY93_09725|PHY93_09725 112 AgpssAVMVNNHDWMGKFTFIEFLRDVGKRFRVTEMLAKESVKNRINSEVGISFTEFTYQMLQAYDFKYLAKEhdvlLQMGGGDQW 197
                              9998899*****************************************77********************9999************ PP

                              HHHHHHHHHHHHHHHHSTTSS-EEEEET-BBSTTSSSBTTCETTCGC-BTTCCHHHHHHHHHHCHCSTTCSHHHHHHHHHTHHHCH CS
             tRNA-synt_1b 162 qnielgrdlarrfnkkevfkkpegltvplltgldGekKmSKSagnsaIfLddekesvkkkiqkavtdsdeevekllklktelsnel 247
                              +ni++g+dlar++  k    +++g++ pl+t+++G  K++KS+g++aI+Ld+e +s+++++q+ ++++d+ v k+lk++t+ls + 
  PHY93_09725|PHY93_09725 198 GNITAGIDLARKMDGK----QVYGIVIPLVTDANGN-KFGKSEGGTAIYLDPEMTSPYQMYQYLINSDDSSVIKYLKYFTFLSLDQ 278
                              ***************9....****************.************************************************* PP

                              HHHHHHHCCSEE.ESSHHHHHHHHHCCCCHHHHHHHHHHHHHHHHH CS
             tRNA-synt_1b 248 ierleavsgkkp.kreaeellaeevtklvhggdlkkalaealnell 292
                              i  le+ ++ +p  rea+++la+ev+k vh ++  + ++ a++ ++
  PHY93_09725|PHY93_09725 279 IAVLEQKTKDEPhLREAQKVLASEVVKIVHAEEGLESAMTATKIFF 324
                              *****************************************99988 PP

>> TyrRSs_C  Tyrosyl-tRNA synthetase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0       1.6   7.2e+03      38      67 ..     294     324 ..     293     333 .. 0.61
   2 ?    7.5   0.0   0.00077       3.4      16      51 ..     352     387 ..     340     396 .. 0.79
   3 ?    3.2   0.0     0.016        73      79     100 ..     400     421 ..     391     422 .] 0.85

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 1.6
                              HHHHHHHHT-EEEEE--S.---SSS-SSS-- CS
                 TyrRSs_C  38 eghrliakkgayvgsrpg.kkkgekedelsf 67 
                              e+++++a++ ++++ +++  +++++ +++ f
  PHY93_09725|PHY93_09725 294 EAQKVLASEVVKIVHAEEgLESAMTATKIFF 324
                              6667777777766655543555565555555 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.00077
                              GGGGS-SHHHHHHHTTS-STHHHHHHHHHHT-EEEE CS
                 TyrRSs_C  16 sLvlnksiariLyaaGLasskseghrliakkgayvg 51 
                              sL  + ++  +L  + L ssk e++r +++kg+y  
  PHY93_09725|PHY93_09725 352 SLKAGIPFLDLLALTPLFSSKGEAKRSVEQKGVYLN 387
                              666666777778888899****************75 PP

  == domain 3  score: 3.2 bits;  conditional E-value: 0.016
                              HHHTT-SS-EEEEESSS-EEEE CS
                 TyrRSs_C  79 kkflidgklLiLrkGkwkvrii 100
                              +k l ++++L++rkGk +  ++
  PHY93_09725|PHY93_09725 400 EKNLASETCLVIRKGKKNYCVV 421
                              67788999*********98877 PP

>> Trp_repressor  Trp repressor protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   2.2e-05     0.099      32      67 ..     135     169 ..     129     177 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 2.2e-05
            Trp_repressor  32 realaqRlqvvkeLLkeelsqreIaeelgvSiAtIt 67 
                              + ++++R++v + +L +e   + I++e+g+S +  t
  PHY93_09725|PHY93_09725 135 LRDVGKRFRVTE-MLAKESVKNRINSEVGISFTEFT 169
                              57899*******.******************98765 PP

>> Antimicrobial_7  Scorpion antimicrobial peptide
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.0     0.051   2.3e+02      11      21 ..     295     305 ..     293     311 .. 0.90
   2 ?    7.1   0.0    0.0014       6.3      10      30 ..     318     338 ..     315     340 .. 0.94

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.051
          Antimicrobial_7  11 AkkvwnSepvk 21 
                              A+kv+ Se+vk
  PHY93_09725|PHY93_09725 295 AQKVLASEVVK 305
                              99********8 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0014
          Antimicrobial_7  10 tAkkvwnSepvkqLKnkalNA 30 
                              tA k++  e++++LK + lNA
  PHY93_09725|PHY93_09725 318 TATKIFFGEVISNLKDRDLNA 338
                              89******************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (422 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       606  (0.0338); expected 358.6 (0.02)
Passed bias filter:                      500  (0.0278878); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.36
# Mc/sec: 3495.37
//
Query:       PHY93_09730|PHY93_09730  [L=113]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.19   12.1   8.5       0.25   11.8   8.5    1.1  1  GlpM      GlpM protein
       0.87    9.5   6.6       0.42   10.5   0.5    2.2  2  PspC      PspC domain


Domain annotation for each model (and alignments):
>> GlpM  GlpM protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   8.5   2.7e-05      0.25       1     100 [.       5     105 ..       5     111 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 2.7e-05
                     GlpM   1 lkallGaavvlliallsksknyyiaGlvplfptfaliahyiv.gserslealrttilfglwsiipyavylaal.yyfserlklela 84 
                              lk+l+ a+vv+ i+ l k     + Gl+  +p  +l+a + +    + ++++ +     +w +ip + +++ l +++    ++  +
  PHY93_09730|PHY93_09730   5 LKTLITALVVVGISSLGKK-FSLVGGLLASLPLTSLLAFVWLyQDTKDVTKIMELSYVIFWMVIPSLFFFLCLpWFLRLGWRFYPS 89 
                              6999*****9999999874.446899***********98765155678899999889999*****876655553888888999888 PP

                     GlpM  85 lalavvvwvlaaalli 100
                              la+++v+ + + +l i
  PHY93_09730|PHY93_09730  90 LATSAVLMAGVYSLYI 105
                              8876665544444444 PP

>> PspC  PspC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.5   4.6e-05      0.42      42      51 ..      32      68 ..       2      69 .. 0.62
   2 ?    2.1   0.9     0.019   1.7e+02      27      50 ..      77     108 ..      72     110 .. 0.51

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 4.6e-05
                     PspC 42 l...........................YiilwiilP 51
                             +                           Y+i w+++P
  PHY93_09730|PHY93_09730 32 AslpltsllafvwlyqdtkdvtkimelsYVIFWMVIP 68
                             2444444445566677777777777778********* PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.019
                     PspC  27 ptlvRlif.........vlll..glllYiilwiil 50 
                              p+ +Rl +         ++l+  +  lYii+   +
  PHY93_09730|PHY93_09730  77 PWFLRLGWrfypslatsAVLMagVYSLYIIV---M 108
                              7788888744444333323332222336654...4 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (113 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       631  (0.0351944); expected 358.6 (0.02)
Passed bias filter:                      233  (0.0129957); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.36u 0.20s 00:00:00.56 Elapsed: 00:00:00.34
# Mc/sec: 982.35
//
Query:       PHY93_16715|PHY93_16715  [L=655]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.7e-83  279.1  25.7    3.7e-83  279.1  25.7    2.6  3  Proton_antipo_M  Proton-conducting membrane transporter
      3e-16   59.2   3.3      3e-16   59.2   3.3    3.6  3  Proton_antipo_N  NADH-Ubiquinone oxidoreductase (complex I), 
    0.00025   20.8   0.1    0.00074   19.2   0.1    1.8  1  Proton_antipo_C  NADH-dehyrogenase subunit F, TMs, (complex I
  ------ inclusion threshold ------
        1.6    8.7   8.5       0.57   10.1   0.1    3.9  5  DUF3377          Domain of unknown function (DUF3377)


Domain annotation for each model (and alignments):
>> Proton_antipo_M  Proton-conducting membrane transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.0   2.2      0.09     4e+02      19      72 ..      18      70 ..       6     109 .. 0.64
   2 !  279.1  25.7   8.3e-87   3.7e-83       3     291 ..     136     425 ..     134     427 .. 0.94
   3 ?   -4.3   0.0       1.8     8e+03     240     262 ..     473     495 ..     467     500 .. 0.81

  Alignments for each domain:
  == domain 1  score: -0.0 bits;  conditional E-value: 0.09
          Proton_antipo_M 19 ylLiglwkkkpksleAslklflltllgsliLLlgilllynltgtlefeelskal 72
                             ++   l k+k ++++A+l++f ++l+ s+iL++ ++l  +  g ++++    ++
  PHY93_16715|PHY93_16715 18 LINSLLIKNKLNNVQAGLITF-VGLFTSFILVIMLALHVQEFGPVHVKLWDWMT 70
                             333445678899999999877.58999999999888777777766655544443 PP

  == domain 2  score: 279.1 bits;  conditional E-value: 8.3e-87
          Proton_antipo_M   3 dLlllylglElvllplylLiglwkkkpksleAslklflltllgsliLLlgilllynltgtlefeelskal..elglnslellllll 86 
                              + l l++g+E+v+l++ylLig+w+++ k+ +A+ k+fl +++g++  +lg++    + +t++f+el       l++n++ l + +l
  PHY93_16715|PHY93_16715 136 NFLILFMGWEGVGLSSYLLIGFWYEHTKNGNAAKKAFLANRVGDFGVVLGMIGYALVFNTVSFRELQHPDmaILMANKSVLIASSL 221
                              7899**************************************************************98776688999999999*** PP

          Proton_antipo_M  87 lllvgllvKsaqvplhlWlpdayveaPtpvsall.Aatlvkagvlllirlllllavssneisqlllilaiismllgslvalaqtdi 171
                              ll++g+  Ksaq+pl  Wlpda + +Ptpvsal+ Aat+v+ag++ll+r++ ++      ++ +++++++++ ll++l+al+qtdi
  PHY93_16715|PHY93_16715 222 LLVLGVTGKSAQIPLFIWLPDA-MLGPTPVSALMhAATMVTAGIFLLCRVSNIIV-HFSVVMDVIAWIGALTSLLAALIALTQTDI 305
                              **********************.*******************************9.566778899********************* PP

          Proton_antipo_M 172 KrllAySsishlGymlialavatqygveaaiihllthalfkallFllagsviyerektrdirayggLakkmPilalvllvlllsla 257
                              K++lAyS++s+lGym++a+++    +++  ++h++tha+fkallFl+a sviy ++++++i+++ggL +kmPi++++++v++l+++
  PHY93_16715|PHY93_16715 306 KKILAYSTVSQLGYMVMACGL---GAFSTGMFHVFTHAFFKALLFLCAASVIYGCHHEQNIFKMGGLKNKMPITFWTFVVGFLAIS 388
                              *********************...7789********************************************************** PP

          Proton_antipo_M 258 GlPptagFlskfliLeaavavsl..illvla.vvasv 291
                              G+P+++gF+sk++iL++a+  +   i+l  + +++++
  PHY93_16715|PHY93_16715 389 GIPGFSGFFSKDEILSMAFTNQGngIFLYSIgLISAL 425
                              ******************9776511555555555555 PP

  == domain 3  score: -4.3 bits;  conditional E-value: 1.8
          Proton_antipo_M 240 kkmPilalvllvlllslaGlPpt 262
                              +++P++ l+l  +  ++ GlP +
  PHY93_16715|PHY93_16715 473 MTIPLILLALCSFGAGYIGLPHL 495
                              67888888888888999999976 PP

>> Proton_antipo_N  NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.8   0.0       3.1   1.4e+04      24      34 ..      31      41 ..      25      43 .. 0.73
   2 !   59.2   3.3   6.8e-20     3e-16       1      57 [.      65     121 ..      65     122 .. 0.98
   3 ?   -0.9   0.5      0.41   1.8e+03      23      32 ..     528     537 ..     521     543 .. 0.65

  Alignments for each domain:
  == domain 1  score: -3.8 bits;  conditional E-value: 3.1
          Proton_antipo_N 24 lmllvvtfvsl 34
                             + + ++tfv+l
  PHY93_16715|PHY93_16715 31 VQAGLITFVGL 41
                             55668999998 PP

  == domain 2  score: 59.2 bits;  conditional E-value: 6.8e-20
          Proton_antipo_N   1 lftWlsvgglsieigfllDklsalmllvvtfvsllvhlYSigYMaddegyqRFfayl 57 
                              l++W++ +++ ++i f +D+ls++ +l+vt+v++ + ++SigYM+++e+  R+fa++
  PHY93_16715|PHY93_16715  65 LWDWMTYKKIVFDIHFVMDQLSVVLCLMVTGVGSAIAFFSIGYMDQEEKVGRYFAFF 121
                              69*****************************************************96 PP

  == domain 3  score: -0.9 bits;  conditional E-value: 0.41
          Proton_antipo_N  23 almllvvtfv 32 
                              ++m++v t++
  PHY93_16715|PHY93_16715 528 IIMMVVTTIL 537
                              5666666654 PP

>> Proton_antipo_C  NADH-dehyrogenase subunit F, TMs, (complex I) C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.2   0.1   1.6e-07   0.00074      84     179 ..     457     551 ..     441     598 .. 0.70

  Alignments for each domain:
  == domain 1  score: 19.2 bits;  conditional E-value: 1.6e-07
          Proton_antipo_C  84 fenkktlsyPhEsdntmlfpllvLvlftlfvGliGipfnqegid.ldilskwLtpsinllhknsnesvdwyefltnaifSvsialf 168
                               +n ++++  +Es++ m++pl++L+l ++  G iG p   +g + + +++++L   +    + +++  + +e++++ ++ + i l+
  PHY93_16715|PHY93_16715 457 EDNAHNSHEIQESPSVMTIPLILLALCSFGAGYIGLPHLFGGHEySRLIQNFLEKFVAAP-TGHTHLSEETEIIMMVVTTILI-LC 540
                              34445667779**************************55555441455566666555533.3333345677888888887766.56 PP

          Proton_antipo_C 169 GifiAsllYkp 179
                              ++ +A+ +Y +
  PHY93_16715|PHY93_16715 541 SMGLAYYIYVK 551
                              67788888876 PP

>> DUF3377  Domain of unknown function (DUF3377)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.8   0.2       2.8   1.3e+04      37      49 ..      88     100 ..      84     103 .. 0.51
   2 ?   -3.6   0.1       2.5   1.1e+04      39      56 ..     129     146 ..     127     147 .. 0.80
   3 ?   -1.2   0.0      0.45     2e+03      31      40 ..     472     481 ..     452     489 .. 0.76
   4 ?   10.1   0.1   0.00013      0.57      26      49 ..     525     548 ..     519     556 .. 0.88
   5 ?    1.1   0.2     0.082   3.7e+02      26      44 ..     633     651 ..     623     655 .] 0.79

  Alignments for each domain:
  == domain 1  score: -3.8 bits;  conditional E-value: 2.8
                  DUF3377  37 vLllciLvliyai 49 
                              vL l++ ++  ai
  PHY93_16715|PHY93_16715  88 VLCLMVTGVGSAI 100
                              4445554455555 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 2.5
                  DUF3377  39 llciLvliyailqfrrkg 56 
                              ll++L+  + il++ + g
  PHY93_16715|PHY93_16715 129 LLLVLGENFLILFMGWEG 146
                              788999999999997766 PP

  == domain 3  score: -1.2 bits;  conditional E-value: 0.45
                  DUF3377  31 aVvvPlvLll 40 
                              ++++Pl+Ll+
  PHY93_16715|PHY93_16715 472 VMTIPLILLA 481
                              4679998874 PP

  == domain 4  score: 10.1 bits;  conditional E-value: 0.00013
                  DUF3377  26 tvnaiaVvvPlvLllciLvliyai 49 
                               +++i++vv  +L+lc ++l y i
  PHY93_16715|PHY93_16715 525 ETEIIMMVVTTILILCSMGLAYYI 548
                              4689*****************988 PP

  == domain 5  score: 1.1 bits;  conditional E-value: 0.082
                  DUF3377  26 tvnaiaVvvPlvLllciLv 44 
                               ++++ +v+ l+ +l++++
  PHY93_16715|PHY93_16715 633 EMGILHIVIGLFVILIVIF 651
                              389999********99986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (655 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1147  (0.0639746); expected 358.6 (0.02)
Passed bias filter:                      413  (0.0230353); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.71u 0.26s 00:00:00.97 Elapsed: 00:00:00.49
# Mc/sec: 4008.93
//
Query:       PHY93_09735|PHY93_09735  [L=118]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.5e-20   74.6   0.1    1.7e-20   74.5   0.1    1.0  1  DUF393    Protein of unknown function, DUF393


Domain annotation for each model (and alignments):
>> DUF393  Protein of unknown function, DUF393
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.5   0.1   9.2e-25   1.7e-20       1     111 [.       4     108 ..       4     110 .. 0.90

  Alignments for each domain:
  == domain 1  score: 74.5 bits;  conditional E-value: 9.2e-25
                   DUF393   1 vlyDgeCplCnravqflerrdrkgrirfadlqsasgkallkelgidaeqldslllvieagrvysgsdAaleiaralpglwrllall 86 
                              v+yDg+C lC+r+++fl + d+k++i fa+l++ + k++    g +++ l ++ l + +++ +++s A+l+++  l+gl+++++l+
  PHY93_09735|PHY93_09735   4 VFYDGDCGLCQRSIRFLYKADKKNKILFAPLNGMTYKQIY---GDEPSLLTTVKL-YHNKKTFEKSSAVLQLCLILGGLYKIFYLF 85 
                              8******************************777777754...766677777766.78999************************* PP

                   DUF393  87 lvlprlkklrdalYrliarnRyrlf 111
                              +++p++  +rda+Y++ia +R  ++
  PHY93_09735|PHY93_09735  86 IIVPSF--IRDAFYDQIASRRKTFS 108
                              ******..*************8765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (118 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       501  (0.0279436); expected 358.6 (0.02)
Passed bias filter:                      378  (0.0210832); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.25s 00:00:00.72 Elapsed: 00:00:00.46
# Mc/sec: 778.81
//
Query:       PHY93_09740|PHY93_09740  [L=117]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (117 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       547  (0.0305092); expected 358.6 (0.02)
Passed bias filter:                      462  (0.0257683); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.41
# Mc/sec: 866.07
//
Query:       PHY93_09745|PHY93_09745  [L=74]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-11   44.7   0.2    1.6e-11   44.4   0.2    1.1  1  HMA       Heavy-metal-associated domain
  ------ inclusion threshold ------
      0.032   14.4   0.9       0.04   14.1   0.9    1.3  1  DUF211    Uncharacterized ArCR, COG1888
      0.067   13.3   0.6       0.13   12.4   0.6    1.5  1  Tox-PL-2  Papain fold toxin 2


Domain annotation for each model (and alignments):
>> HMA  Heavy-metal-associated domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.4   0.2   2.8e-15   1.6e-11       2      61 ..       9      68 ..       8      69 .. 0.97

  Alignments for each domain:
  == domain 1  score: 44.4 bits;  conditional E-value: 2.8e-15
                      HMA  2 vrvsgmhCagCaakvekvLselpgVesvkvdlatktvtVegdaestklrkiieaiekagy 61
                             ++v g+hC gCa+k++k L +l+  ++ +v+ +t+ v + +d +++ l++i+ +i +ag+
  PHY93_09745|PHY93_09745  9 LKVNGIHCNGCASKIQKGLDSLNIEHTTNVNIETGDVKIIFDSDKAGLSDIKSKITEAGF 68
                             5799******************999**********************************9 PP

>> DUF211  Uncharacterized ArCR, COG1888
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.9   6.7e-06      0.04      24      75 ..      23      73 ..       7      74 .] 0.84

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 6.7e-06
                             HHTSTTEEEEEEE.EEEE-SSEEEEEEEEEESSE-HHHHHHHHHCTT-EEEEE CS
                   DUF211 24 laelegvdgvnit.vkevDketenlkitieGenidyeeieeaieelggvihSi 75
                             ++  +g d+ ni   ++v  et  +ki+  +++  +++i+++i+e g  + S+
  PHY93_09745|PHY93_09745 23 IQ--KGLDSLNIEhTTNVNIETGDVKIIFDSDKAGLSDIKSKITEAGFQVESV 73
                             44..4788888852689**********************************99 PP

>> Tox-PL-2  Papain fold toxin 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.6   2.1e-05      0.13       9      54 ..       7      49 ..       2      71 .. 0.68

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 2.1e-05
                 Tox-PL-2  9 ivkrfklleCveCAaalekyLkeqgisG.krlklktksaedaasfil 54
                             +  +++ ++C+ CA++++k L + +i+   +++++t+  +     i+
  PHY93_09745|PHY93_09745  7 VNLKVNGIHCNGCASKIQKGLDSLNIEHtTNVNIETGDVKI----IF 49
                             55578899*****************9751567788876663....33 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (74 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       691  (0.0385409); expected 358.6 (0.02)
Passed bias filter:                      482  (0.0268838); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.39u 0.21s 00:00:00.60 Elapsed: 00:00:00.37
# Mc/sec: 603.64
//
Query:       PHY93_09750|PHY93_09750  [L=722]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.1e-47  161.0   3.6    2.8e-47  160.6   0.8    2.3  2  E1-E2_ATPase  E1-E2 ATPase
    9.6e-42  143.6   0.0    1.4e-41  143.1   0.0    1.3  1  Hydrolase     haloacid dehalogenase-like hydrolase
    8.3e-10   39.0   0.1    1.9e-09   37.8   0.1    1.7  1  HMA           Heavy-metal-associated domain
    1.2e-07   31.8   2.3      4e-05   23.5   0.5    2.9  3  Hydrolase_3   haloacid dehalogenase-like hydrolase
    4.3e-05   24.0   0.0    0.00013   22.5   0.0    1.8  1  HAD           haloacid dehalogenase-like hydrolase
  ------ inclusion threshold ------
       0.04   14.0   0.0       0.16   12.1   0.0    2.0  1  Hydrolase_6   Haloacid dehalogenase-like hydrolase
       0.87    9.6   2.9        1.5    8.9   0.2    2.7  3  HAD_2         Haloacid dehalogenase-like hydrolase
        4.6    7.3   7.7       0.23   11.6   0.6    2.3  3  DUF5392       Family of unknown function (DUF5392)


Domain annotation for each model (and alignments):
>> E1-E2_ATPase  E1-E2 ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.1      0.21   4.8e+02      98     156 ..      75     133 ..      63     136 .. 0.79
   2 !  160.6   0.8   1.3e-50   2.8e-47       6     180 ..     223     399 ..     218     400 .. 0.96

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.21
                              STTS--------HHHHHHHHHHHHHHHHHHHHHHHHHHS-STTTSSTTHHHHHHHHHHH CS
             E1-E2_ATPase  98 arlveeakskktplqkkldklgkvlvpvvlliallvflialllgkslaeallralallv 156
                              ++ ve+a ++k+ +  +  + +  l + ++ +al++  +  +  +++++++ ++l++l+
  PHY93_09750|PHY93_09750  75 VKEVERAFADKSFFNIQFFQSALSLLVGIFSMALAMGPFSKYADHQTNNSIQFVLSTLI 133
                              66777777888888888888888888888889999999998999999999999888887 PP

  == domain 2  score: 160.6 bits;  conditional E-value: 1.3e-50
                              EEEEE-TTS-EEEEGGG--TTSEEEEETT-B--SEEEEEEE-SEEE-TTTS---S-EE-G-TTEE-TT-EEEE-EEEEEEEE-TTT CS
             E1-E2_ATPase   6 takvirdgteeeidakelvpGDivllkagdrvpaDgrivegsaevdesaLTGEslpvekekgdmvfsGtvvvsgeakavVtatged 91 
                               a ++ +g e++ ++ +l++G  + l++gd++p+Dg++ egs+  des++TGEs +v+k+ gd vf+G+ +++g++ ++V +   +
  PHY93_09750|PHY93_09750 223 FASKVVEGVEVNTPVIDLKVGNTIRLRPGDKIPLDGIVSEGSSHTDESMITGESSAVSKKIGDNVFAGSLNLEGSLLIKVQKEIHQ 308
                              567788999***************************************************************************** PP

                              STTTTTSTTS--------HHHHHHHHHHHHHHHHHHHHHHHHHHS-STTTSSTT..HHHHHHHHHHHHHS-TTHHHHHHHHHHHHH CS
             E1-E2_ATPase  92 telgkiarlveeakskktplqkkldklgkvlvpvvlliallvflialllgksla..eallralallvaaiPcaLplavplalalga 175
                               +++ +++ ve+a+ +k+p+qk +dk+++++vp++++i+l++fli+++ + +    +a+ +++a+l++a+PcaL+lavp+a+++ +
  PHY93_09750|PHY93_09750 309 GFISDVVAYVEKAQLRKAPIQKYADKIVQYFVPTIIIISLFTFLIWMIFNPNEKtyQAFSHMIAVLLIACPCALGLAVPMAVMITT 394
                              **********************************************9999888899***************************999 PP

                              HHHHH CS
             E1-E2_ATPase 176 rrlak 180
                              ++++k
  PHY93_09750|PHY93_09750 395 AEASK 399
                              99887 PP

>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  143.1   0.0   6.3e-45   1.4e-41       1     210 []     416     625 ..     416     625 .. 0.94

  Alignments for each domain:
  == domain 1  score: 143.1 bits;  conditional E-value: 6.3e-45
                              SSEEEEESBTTTBCHHHHHHHHHHHHCHHHHHHHHHH......HHCHHHHHHHHHHHHHHHHH...HHHHHETTTE........HH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxx...xxxxxxxxxx........xx RF
                Hydrolase   1 iktvvfDkdGTLttgepsvedvivsaalalaaaletg......sehpigkalvaaakarsgal...tgfatfigrg........ay 69 
                              i+ +vfDk+GTLt+g+p v d   s  +++++ ++++      s hp+   ++ + +ar+++l   ++f  ++g g        ++
  PHY93_09750|PHY93_09750 416 IDIIVFDKTGTLTEGHPNVIDYESSPSIDESEFFRVVgsitrySSHPLSHSITQFIEARKIKLgdpDKFKNIPGYGvesffegkRV 501
                              789******************999999********************************6666666******************** PP

                              HHTHHHHHHHHHCHHHHHHHHHHHHHHCHHHHHH...TTHHHHHHHHHHTHHBHTTHHHHHHHHHHTTEEEEEEESSEHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase  70 aigkpewltaldippdlgaaigsaqsqgrtvall...qaralavftiadplkvkpeaaeavasLkaagievvlltgdnpetaeraa 152
                              ++g+ e+l+++        +i+ ++s+   + +    ++   +vf iadp  +k+ea+e++asLk++giev++ltgdn++ a+++a
  PHY93_09750|PHY93_09750 502 LVGNAEFLKRE--------KIEICESEKVGSLVYisiDQSFAGVFVIADP--LKKEAKETIASLKRQGIEVWMLTGDNQKIARKIA 577
                              ***********........77777777777777777999***********..********************************** PP

                              HHTTGGGESEEEEHHCES.STTTSHHHHHHHHHHHTSTGGGEEEEESSHHHHHHHHHTT CS
                              xxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 153 nqlGddyfdaviasdiet.vakpspegkvaaireLqgkpeevamVGDgvnDaaalaaAg 210
                               +lG           i+     ++p  k   i  Lq+++++vam+GDg+nDa+al  A+
  PHY93_09750|PHY93_09750 578 TELG-----------IVNfKDSVLPVEKADFILALQENGKKVAMIGDGINDAPALSSAN 625
                              ****...........8887999*********************************9986 PP

>> HMA  Heavy-metal-associated domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.8   0.1   8.6e-13   1.9e-09       1      46 [.       8      54 ..       8      68 .. 0.81

  Alignments for each domain:
  == domain 1  score: 37.8 bits;  conditional E-value: 8.6e-13
                      HMA  1 tvrvsgmhCagCaakvekvLselpgVesvkvdlatktvtVeg.daes 46
                             t++++gm+Ca+C++ +e+ + +l+gV+sv v+++t +++  + d  +
  PHY93_09750|PHY93_09750  8 TYKIEGMTCASCSQIIEENVRKLSGVDSVQVNFVTEKAELAVgDSFQ 54
                             689**********************************9986555544 PP

>> Hydrolase_3  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       1.6   3.5e+03     179     213 ..      20      53 ..      16      79 .. 0.74
   2 !    6.7   0.0    0.0024       5.4      17      55 ..     545     583 ..     541     589 .. 0.92
   3 !   23.5   0.5   1.8e-08     4e-05     199     252 ..     601     654 ..     593     657 .. 0.85

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 1.6
                              EEEEETT-SHHHHHHHHHHHCT--GGGEEEEESSG CS
              Hydrolase_3 179 leimpkgvsKgtalkklakelnisleeviafGDge 213
                               +i++++v K +++  ++ ++  +++e +a+GD+ 
  PHY93_09750|PHY93_09750  20 SQIIEENVRKLSGVDSVQVNFVTEKAE-LAVGDSF 53 
                              579999999999999998776665555.5778875 PP

  == domain 2  score: 6.7 bits;  conditional E-value: 0.0024
                              -HHHHHHHHHHHHTTSEEEEE-SS-HHHHHHHHHHCCCC CS
              Hydrolase_3  17 sektkeaikklkekgikvviATGRslravlpvleelgld 55 
                              ++++ke+i+ lk +gi+v   TG + + +++++ elg+ 
  PHY93_09750|PHY93_09750 545 KKEAKETIASLKRQGIEVWMLTGDNQKIARKIATELGIV 583
                              6899********************************985 PP

  == domain 3  score: 23.5 bits;  conditional E-value: 1.8e-08
                              CT--GGGEEEEESSGGGHHHHHHSSEEEEETTS-HHHHHHSSEEE--GGGTHHH CS
              Hydrolase_3 199 lnisleeviafGDgeNDieMLeaaglgvAmgnaseevkkaAdyvtksnnedGVa 252
                              l+ + ++v+ +GDg ND + L+ a+l++Am ++s+ +++a+d  +   +   Va
  PHY93_09750|PHY93_09750 601 LQENGKKVAMIGDGINDAPALSSANLSMAMSSGSDVAIEASDVSILEGKIACVA 654
                              677889**********************************99877665555555 PP

>> HAD  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.5   0.0   5.6e-08   0.00013      86     187 ..     541     621 ..     523     622 .. 0.83

  Alignments for each domain:
  == domain 1  score: 22.5 bits;  conditional E-value: 5.6e-08
                      HAD  86 ldp...galellaahraaGdrvvvvSgglrplvepllaelgadevlatelevddrltgelglegkpvrgegkvaalrewlaaegeg 168
                               dp   +a+e +a  +++G++v++++g ++ +++ ++ elg    + +       ++  + + +k  +      al+e        
  PHY93_09750|PHY93_09750 541 ADPlkkEAKETIASLKRQGIEVWMLTGDNQKIARKIATELG----IVN-------FKDSVLPVEKADFI----LALQE-------- 603
                              445555***********************************....999.......88887777777777....88888........ PP

                      HAD 169 idleevvayGDspsDlpll 187
                                 ++v  +GD+++D p+l
  PHY93_09750|PHY93_09750 604 -NGKKVAMIGDGINDAPAL 621
                              .23449999******9998 PP

>> Hydrolase_6  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0     7e-05      0.16       7      88 ..     536     613 ..     533     626 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 7e-05
                              TTSEETTEE-TTHHHHHHHHHHTT-EEEEEE---SS-HHHHHHHHHHTT----GGGEEEHHHHHHHHHHHHSXXXEEEEESX CS
              Hydrolase_6   7 GvLwrgdkaipgaaealnalraagkpvvllTNnsskseeeyakkleklgvditeeqvvtsataaaeylkkrkadkkvlvige 88 
                              Gv++  d + ++a+e++  l+++g++v++lT  ++k  +++a++l  +++    ++ v + + a  +l+ ++++kkv +ig 
  PHY93_09750|PHY93_09750 536 GVFVIADPLKKEAKETIASLKRQGIEVWMLTGDNQKIARKIATELGIVNF----KDSVLPVEKADFILALQENGKKVAMIGD 613
                              89999999999*********************998886666655544333....4556677777777777777777777775 PP

>> HAD_2  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0       3.4   7.7e+03      18      37 ..      56      75 ..      21      90 .. 0.68
   2 ?   -3.9   0.1       5.6   1.3e+04      94     126 ..     304     336 ..     298     337 .. 0.69
   3 ?    8.9   0.2   0.00065       1.5      82     173 ..     546     626 ..     542     631 .. 0.76

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 3.4
                    HAD_2 18 qafnelleeyglselseeel 37
                             ++f e+l++ g+  ls e++
  PHY93_09750|PHY93_09750 56 EIFSEMLNKLGYRALSSEKV 75
                             44555555555555555555 PP

  == domain 2  score: -3.9 bits;  conditional E-value: 5.6
                    HAD_2  94 agyklgivTsksreaveekleqlgiesyFdviv 126
                              ++++ g +++  + + + +l++  i++y d+iv
  PHY93_09750|PHY93_09750 304 KEIHQGFISDVVAYVEKAQLRKAPIQKYADKIV 336
                              556666666666677777888888888888886 PP

  == domain 3  score: 8.9 bits;  conditional E-value: 0.00065
                    HAD_2  82 dgvkelLeeLkeagyklgivTsksreaveekleqlgiesyFdvivtsedvekkKPdpeviekaleklklkkeeviyvGDsptDiea 167
                              +++ke++ +Lk++g+++   T  +++ +++  ++lgi ++ d ++  e++         i      l+ + ++v ++GD ++D  a
  PHY93_09750|PHY93_09750 546 KEAKETIASLKRQGIEVWMLTGDNQKIARKIATELGIVNFKDSVLPVEKAD-------FI-L---ALQENGKKVAMIGDGINDAPA 620
                              689**********************************99988888666532.......22.2...333445667777777777766 PP

                    HAD_2 168 akkagi 173
                                 a++
  PHY93_09750|PHY93_09750 621 LSSANL 626
                              666665 PP

>> DUF5392  Family of unknown function (DUF5392)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.5       1.5   3.4e+03      27      70 ..     124     167 ..     110     183 .. 0.75
   2 ?   -2.3   0.3       1.9   4.2e+03      35      67 ..     162     196 ..     142     210 .. 0.59
   3 ?   11.6   0.6    0.0001      0.23      19      90 ..     327     401 ..     312     419 .. 0.69

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 1.5
                  DUF5392  27 sskysfislPLllvslinlillllkaeleedsliaiilyallgA 70 
                              s ++ + +l Lll++ +++ +++  ++++  ++ ++i   +l+A
  PHY93_09750|PHY93_09750 124 SIQFVLSTLILLLFGKVYVKSVYHFFTTRYSNMNTLIGLGVLAA 167
                              56788888888899888888877777777666666665566555 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 1.9
                  DUF5392  35 lPLllvslinlillllkaele..edsliaiilyal 67 
                              l +l++ +  lil++++++++   +++  ii ++l
  PHY93_09750|PHY93_09750 162 LGVLAAYFYSLILMFFSVHAHvyFETIPFIIGFTL 196
                              55555555556666665555422334444444444 PP

  == domain 3  score: 11.6 bits;  conditional E-value: 0.0001
                  DUF5392  19 viaPllkKsskysfislPLllvslin.lillllkaele....edsliaiilyallgAlGlAlfkEsrlkkkeiqkss 90 
                               i+ +  K+++y + ++   ++sl+  li ++++ + +      ++ia++l+a   AlGlA+   +++++ e +ks+
  PHY93_09750|PHY93_09750 327 PIQKYADKIVQYFVPTII--IISLFTfLIWMIFNPNEKtyqaFSHMIAVLLIACPCALGLAVPMAVMITTAEASKSG 401
                              356666677888776654..455553144555543333122246799**************9999988888877765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (722 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       952  (0.0530983); expected 358.6 (0.02)
Passed bias filter:                      511  (0.0285013); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.73u 0.24s 00:00:00.97 Elapsed: 00:00:00.45
# Mc/sec: 4827.88
//
Query:       PHY93_09755|PHY93_09755  [L=333]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.1e-42  143.6  16.7    7.5e-42  143.3  16.7    1.1  1  Cation_efflux  Cation efflux family
    1.5e-11   44.3   0.8    2.4e-11   43.6   0.8    1.3  1  ZT_dimer       Dimerisation domain of Zinc Transporter
  ------ inclusion threshold ------
       0.05   13.4   1.2      0.077   12.7   0.6    1.7  2  Claudin_2      PMP-22/EMP/MP20/Claudin tight junction
          1    8.8  10.9        2.5    7.6   4.1    2.2  2  DUF1129        Protein of unknown function (DUF1129)
        1.4    9.2  23.9       0.35   11.1   0.8    3.5  3  TrbC           TrbC/VIRB2 family


Domain annotation for each model (and alignments):
>> Cation_efflux  Cation efflux family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  143.3  16.7   2.1e-45   7.5e-42       2     198 ..      21     213 ..      20     214 .. 0.98

  Alignments for each domain:
  == domain 1  score: 143.3 bits;  conditional E-value: 2.1e-45
            Cation_efflux   2 ilsllanlilalvelivglltnSlalladafhslsdlvsllllllalklsrkppderfpfGygrlevlgalvsgllllglavflll 87 
                              +lsl++ +il+++++ ++ ltnS+++++da+ s++++v+ +++++++ ++ +p+de++p+G+g++e++++ + g  +l++++ +++
  PHY93_09755|PHY93_09755  21 YLSLVFGIILLCFKFYAYHLTNSQSIFSDALESIVNVVAAVITVIVIIVAARPADEDHPYGHGKIESMASTFEGGAILLAGILIMI 106
                              68999********************************************************************************* PP

            Cation_efflux  88 eaiqklikegereihaglalvvalvslvvnlalllilrragrklrsaalkaaalhvlgDaltslgvlvsalvillfnlksg.plaD 172
                              +aiq ++ +g ++ +++  lv+++++ +vn +l ++l + g+kl+s+alk+  lh l+D+lts+gvl+++l ++++    g +++D
  PHY93_09755|PHY93_09755 107 QAIQFFF-HGAKVSEIESGLVIVVGAGIVNGLLGWFLFFRGKKLHSEALKSGGLHLLTDTLTSVGVLIGLLMVKYT----GlNWID 187
                              *******.***************************************************************99998....669*** PP

            Cation_efflux 173 pvaslligliilysalkllkeslseL 198
                              pv++ ++g+i++ ++ k+l  s  +L
  PHY93_09755|PHY93_09755 188 PVVAAVFGAILVFTGGKILIRSGNIL 213
                              *******************9999888 PP

>> ZT_dimer  Dimerisation domain of Zinc Transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.6   0.8   6.7e-15   2.4e-11       6      79 .]     222     297 ..     217     297 .. 0.89

  Alignments for each domain:
  == domain 1  score: 43.6 bits;  conditional E-value: 6.7e-15
                              HHHHHHHHTT..-SS-EEEEEEEEE-S----EEEEEEEE-TTS-HHHHHHHHHHHHHHHHHH-TT--EEEEEEEE. CS
                 ZT_dimer   6 eeeireiiks..vpgvkgvhdlrtrksGskifvdlhievdgdlsvkeaHeiadevekrikeefpgvadvliHvePe 79 
                              ++ i  + k+   pgv+++h  r+ +sG++ ++d+h+++++ ++v eaH+ ++  ek++ + +    +  iH +P+
  PHY93_09755|PHY93_09755 222 LKLIATLFKKhyRPGVIQIHFTRVIRSGNYHHIDCHMVIPEFWTVLEAHDFSETFEKSVIKDYLVDGELHIHHDPC 297
                              55566666555689********************************************99999787889*****97 PP

>> Claudin_2  PMP-22/EMP/MP20/Claudin tight junction
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.6   2.1e-05     0.077      97     153 ..      54     121 ..      36     143 .. 0.83
   2 ?   -2.6   0.0       1.1   3.9e+03     121     145 ..     153     176 ..     124     185 .. 0.54

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 2.1e-05
                Claudin_2  97 iLslvlivlavvlgllallkqsv...........lllkaagilfllagvlgllavvvfiesvkkvfee 153
                              i  +v++v+ v+++++a+                ++ ++ g+ +llag+l++++ + f++ ++kv e+
  PHY93_09755|PHY93_09755  54 IVNVVAAVITVIVIIVAARPADEdhpyghgkiesMASTFEGGAILLAGILIMIQAIQFFFHGAKVSEI 121
                              5567888888888876654444459***********************************99988765 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 1.1
                Claudin_2 121 llkaagilfllagvlgllavvvfie 145
                              +lk  g+l ll+  l+ ++v++   
  PHY93_09755|PHY93_09755 153 ALKS-GGLHLLTDTLTSVGVLIGLL 176
                              3333.45555555555555544433 PP

>> DUF1129  Protein of unknown function (DUF1129)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.3   0.6    0.0033        12     143     195 ..      14      68 ..       2      73 .. 0.64
   2 ?    7.6   4.1   0.00069       2.5      85     188 ..      96     204 ..      84     210 .. 0.70

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.0033
                  DUF1129 143 rpplwkrllilllllvvwlvlftlval..lpaviNpvLpplvliiigviafvvry 195
                              ++  + + l l++ ++++ + f++  l   ++ +   L+++v+++ +vi+++v +
  PHY93_09755|PHY93_09755  14 KERKFASYLSLVFGIILLCFKFYAYHLtnSQSIFSDALESIVNVVAAVITVIVII 68 
                              3333344444445555555555554443377889999999999999999987755 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.00069
                  DUF1129  85 sLlllalfallfgilalfskkkqtas.iGlitlllvalvgG...lamvlvyrlltrekkkkkrpplwk.rllilllllvvwlvlft 165
                              + ll +++ ++ +i  +f+ +k ++  +Gl+ ++  ++v G   +++++  + l  e+ k+    l+  +l+ + +l+ +++v +t
  PHY93_09755|PHY93_09755  96 AILLAGILIMIQAIQFFFHGAKVSEIeSGLVIVVGAGIVNGllgWFLFFRGKKLHSEALKSGGLHLLTdTLTSVGVLIGLLMVKYT 181
                              678889999999***999997777768*********99987211455566666666544444444444044444555567788888 PP

                  DUF1129 166 lvallpaviNpvLpplvliiigv 188
                               ++ + +v+  v  ++  +  g 
  PHY93_09755|PHY93_09755 182 GLNWIDPVVAAVFGAILVFTGGK 204
                              88888888888777777666665 PP

>> TrbC  TrbC/VIRB2 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.8   9.9e-05      0.35       6      61 ..      13      69 ..       1      72 [. 0.68
   2 ?    7.9   4.3   0.00099       3.5      42      89 ..      85     134 ..      83     136 .. 0.90
   3 ?    0.5   4.2       0.2   7.2e+02      47      95 ..     164     205 ..     156     207 .. 0.67

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 9.9e-05
                     TrbC  6 skarrlllalalalvllllaspalAqaagg..dpvetvlqnivdfltgplakviatia 61
                             +k r+++  l l++ ++ll + ++A   ++  + ++++l++iv+ + + +++vi++i+
  PHY93_09755|PHY93_09755 13 NKERKFASYLSLVFGIILLCFKFYAYHLTNsqSIFSDALESIVNVVAA-VITVIVIIV 69
                             566677777788888889999999987754557777777777777777.555544443 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.00099
                     TrbC  42 lqnivdfltgplakviatiaiivaGimlafgrls...wrtlvmvviGivii 89 
                              ++++ ++++g  a+++a i i++ +i+++f+++    +++ + +v+G++i+
  PHY93_09755|PHY93_09755  85 IESMASTFEG-GAILLAGILIMIQAIQFFFHGAKvseIESGLVIVVGAGIV 134
                              5678888999.9999*****************999999999******9998 PP

  == domain 3  score: 0.5 bits;  conditional E-value: 0.2
                     TrbC  47 dfltgplakviatiaiivaGimlafgrlswrtlvmvviGiviifgAssi 95 
                              d+lt  ++ +i+++++  +G+ +      ++ +v+ v+G++++f +++i
  PHY93_09755|PHY93_09755 164 DTLTS-VGVLIGLLMVKYTGLNW------IDPVVAAVFGAILVFTGGKI 205
                              55555.55555555555555555......57788999999999988877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (333 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1222  (0.0681577); expected 358.6 (0.02)
Passed bias filter:                      665  (0.0370907); expected 358.6 (0.02)
Passed Vit filter:                        64  (0.00356964); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.60u 0.24s 00:00:00.84 Elapsed: 00:00:00.41
# Mc/sec: 2442.28
//
Query:       PHY93_09760|PHY93_09760  [L=67]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
       0.21   11.5   3.4        2.7    7.9   3.4    2.1  1  zf-C4_ClpX  ClpX C4-type zinc finger


Domain annotation for each model (and alignments):
>> zf-C4_ClpX  ClpX C4-type zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9   3.4   0.00015       2.7       2      28 ..       3      34 ..       2      34 .. 0.74

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.00015
               zf-C4_ClpX  2 rCSFCgks.....esevkklIagpngvyICde 28
                             rC FC+k+     e   ++ I g +g++ Cde
  PHY93_09760|PHY93_09760  3 RCKFCNKEitwmkEGGRNRPIDGDGGAHMCDE 34
                             8******7222225567888999999999997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (67 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       458  (0.0255452); expected 358.6 (0.02)
Passed bias filter:                      311  (0.0173462); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.36u 0.20s 00:00:00.56 Elapsed: 00:00:00.35
# Mc/sec: 568.95
//
Query:       PHY93_09765|PHY93_09765  [L=421]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.5e-25   90.2   0.0    2.5e-25   89.5   0.0    1.3  1  tRNA-synt_2b  tRNA synthetase class II core domain (G, H, P, 
    1.9e-18   66.6   7.0    3.1e-18   66.0   7.0    1.3  1  Seryl_tRNA_N  Seryl-tRNA synthetase N-terminal domain


Domain annotation for each model (and alignments):
>> tRNA-synt_2b  tRNA synthetase class II core domain (G, H, P, S and T)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   89.5   0.0   2.7e-29   2.5e-25       8     178 ..     219     396 ..     216     397 .. 0.93

  Alignments for each domain:
  == domain 1  score: 89.5 bits;  conditional E-value: 2.7e-29
                              SEEEEE-SSSHHHHHHHHHHHEEEBGGSSEEEEEEEEEEBTTTS....TBCTTTB-SEEEEEEEEEEESGGGHHHHH..HHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxx RF
             tRNA-synt_2b   8 dreyiLkPtneetfvelirdevlrskrLPlklyqiqtkyRdEks....dsrGLlRvreFhqkdgyvfhaeaslddsl..rdlikai 87 
                              +++++L  t+e  + +l+  e+l++ +LP+ ++ +++++R E+     d rGL+Rv++F + +++v+++++ +++ +  + l+++ 
  PHY93_09765|PHY93_09765 219 EHNLYLTGTAEVQINSLHAGEILKESELPILYAGYSPCFRSEAGsygrDVRGLVRVHQFMKVEQFVICKNDPVESAIwhQRLLETS 304
                              5899*****************99*999****************66999*********************8888887533789**** PP

                              HHHHHHTT.SCEEEEEEGTTSCBTTSEEEEEEEEETTTSEEEEEEEEEEEETHHHHHTTEEEECTTSSEEEEEEEEEE.EEHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxx RF
             tRNA-synt_2b  88 sriferlglefraiielmsaksadykdkkefeavsesltkgieigtiqklgtrlserlgatvldennreksvimicaa.igveRll 172
                              ++i ++l l++r ++ +++++       +++ea+++s +k++e+ +++ l + +++r ++++ d +n++++v++++ + i++ R+l
  PHY93_09765|PHY93_09765 305 EEIVQDLELPYRIVECCTGDMGTGKVRMYDVEAWVPSEQKYRETHSCSSLHDWQARRTQTRYRDTDNKVQFVHTLNNTaIATPRIL 390
                              **********997777799988999999************************************************999******* PP

                              HHHHHH CS
                              xxxxxx RF
             tRNA-synt_2b 173 saileq 178
                                 le+
  PHY93_09765|PHY93_09765 391 VPFLEN 396
                              988887 PP

>> Seryl_tRNA_N  Seryl-tRNA synthetase N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.0   7.0   3.4e-22   3.1e-18       1     108 []       1     105 [.       1     105 [. 0.98

  Alignments for each domain:
  == domain 1  score: 66.0 bits;  conditional E-value: 3.4e-22
                              ---HHHHHH-HHHHHHHHCCCTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCTTS-TCCCCCCCHHHHHHHHHH CS
             Seryl_tRNA_N   1 MLDiklirenpeavkeklkkRgedkadvdelleldekrrelqveleelqaerNelskeIgkakkkkedaeeliaevkelkeelkal 86 
                              MLDik+iren + vk++++ + + ++d+++ll+ d++  ++++e ++l +++N+++++I ka+++  ++ +liae+k+l e  k+ 
  PHY93_09765|PHY93_09765   1 MLDIKFIRENSDIVKKACQLK-NISLDIEQLLSFDRELVTHKTEEQNLLTQKNAITAKIPKASAE--ERPKLIAESKALDESAKNH 83 
                              *********************.599**************************************95..8****************** PP

                              HHHHHHHHHHHHHHHCTS---- CS
             Seryl_tRNA_N  87 eaelkeleaeleklllaiPNip 108
                              ++  +e+e++l++ll  +P ip
  PHY93_09765|PHY93_09765  84 KTIADEVEEKLKALLYLVPQIP 105
                              *******************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (421 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       977  (0.0544927); expected 358.6 (0.02)
Passed bias filter:                      657  (0.0366445); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.22s 00:00:00.78 Elapsed: 00:00:00.38
# Mc/sec: 3362.45
//
Query:       PHY93_09770|PHY93_09770  [L=236]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.4e-14   52.9   0.0    6.5e-14   52.4   0.0    1.3  1  Methyltransf_25  Methyltransferase domain
    3.6e-09   36.7   0.0    4.5e-09   36.4   0.0    1.1  1  Methyltransf_23  Methyltransferase domain
    4.6e-08   33.6   0.0    6.7e-08   33.1   0.0    1.3  1  Methyltransf_11  Methyltransferase domain
    1.3e-07   31.5   0.0    1.7e-07   31.2   0.0    1.2  1  Methyltransf_31  Methyltransferase domain
    0.00098   19.8   0.0     0.0016   19.1   0.0    1.4  1  Methyltransf_12  Methyltransferase domain
     0.0027   17.1   0.0     0.0043   16.5   0.0    1.3  1  TehB             Tellurite resistance protein TehB
     0.0052   16.9   0.0      0.012   15.7   0.0    1.6  1  FtsJ             FtsJ-like methyltransferase
  ------ inclusion threshold ------
       0.16   11.4   0.0       0.31   10.5   0.0    1.5  1  Methyltransf_4   Putative methyltransferase


Domain annotation for each model (and alignments):
>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.4   0.0   2.9e-17   6.5e-14       2      97 .]      42     133 ..      41     133 .. 0.96

  Alignments for each domain:
  == domain 1  score: 52.4 bits;  conditional E-value: 2.9e-17
                              EEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTTTEEEEESBCCGBSSSTTTEEEEEEEST.GGGSSHHHHHHHH CS
          Methyltransf_25   2 LdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeeglnvefvqgdaedlpfedgsfDlvvssga.lhhlsdedlekal 86 
                              Ldl+cGtGr+++ l++  g +k++g+D + ++l++are +    +nv+++q d+ +l++e++s ++v+++ + + + ++++  ++l
  PHY93_09770|PHY93_09770  42 LDLCCGTGRHIQGLSQC-G-YKILGIDSNGTALDKARELN---LPNVTYEQNDIFNLSLESESLNAVICMWQsFGYGDESQNSNLL 122
                              9**************98.5.******************99...46************************9999************* PP

                              HHHHHHEEEEE CS
          Methyltransf_25  87 keiarvLkpgG 97 
                              k ++  Lk++G
  PHY93_09770|PHY93_09770 123 KALWHGLKQDG 133
                              ********998 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.4   0.0     2e-12   4.5e-09      25     163 ..      40     209 ..      14     211 .. 0.85

  Alignments for each domain:
  == domain 1  score: 36.4 bits;  conditional E-value: 2e-12
          Methyltransf_23  25 rvLdiGcGtGillevlrengfsvtgvDlspeaveiae.....kakkaqkdqfdeqeaaepqgkfdlIvlrevlehvp..dppellr 103
                               +Ld+ cGtG+  + l+++g+++ g+D +  a ++a+     +    q+d f  +   e++    +I+++++++  +      ll+
  PHY93_09770|PHY93_09770  40 YLLDLCCGTGRHIQGLSQCGYKILGIDSNGTALDKARelnlpNVTYEQNDIF--NLSLESESLNAVICMWQSFGYGDesQNSNLLK 123
                              68*********************************97775544444444444..334446678899********999533679*** PP

          Methyltransf_23 104 qiatllkpgGylllseplasl.......................kedrllldwlylvpagrhi...sffsarslkelleeaGlevv 163
                               ++  lk +G++ll  ++++                         +drl    +y+++ ++ i   + fs  ++   ++e+G+e++
  PHY93_09770|PHY93_09770 124 ALWHGLKQDGVFLLDIYNKDFferflgerifeisgvkvtelkeiFNDRLKVTLTYENTSDKDIfnwKIFSPITIQSHMREFGFELI 209
                              *******************999999999999999999999988778888888*****99954458899****************86 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.1   0.0     3e-11   6.7e-08       1      95 [.      42     136 ..      42     137 .. 0.90

  Alignments for each domain:
  == domain 1  score: 33.1 bits;  conditional E-value: 3e-11
                              EEET-TTSHHHHHHHHTTSEEEEEES-HHHHHHHHHHCCHHT-EEEETTEECCCTSS-TT-EEEEEEES-CCC-...CCHHHHHHH CS
          Methyltransf_11   1 LdvGcGtGrlaealakrgarvvgvDlskemlklakekaseeglkvefvvadaeklpfednsfDlvvssevlhhv...edpekalke 83 
                              Ld+ cGtGr+ + l + g++++g+D + ++l+ a+e + ++   v++ + d+ +l +e++s  +v++ +  +      + + +lk 
  PHY93_09770|PHY93_09770  42 LDLCCGTGRHIQGLSQCGYKILGIDSNGTALDKARELNLPN---VTYEQNDIFNLSLESESLNAVICMWQSFGYgdeSQNSNLLKA 124
                              89*************999*************9998777665...99**********************966666677788899999 PP

                              HHHHEEEEEEEE CS
          Methyltransf_11  84 iaRvLkpgGllv 95 
                              ++  Lk++G+++
  PHY93_09770|PHY93_09770 125 LWHGLKQDGVFL 136
                              999999999986 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.2   0.0   7.6e-11   1.7e-07       6     110 ..      40     138 ..      37     190 .. 0.81

  Alignments for each domain:
  == domain 1  score: 31.2 bits;  conditional E-value: 7.6e-11
          Methyltransf_31   6 rvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielArenaqklgldnveFeqgdieeleklledekfDlilsn.evl...nal 87 
                              ++lDl CGtG+ +  l +    + ++ GiD + +a+ +Are    l+l nv+ eq di++l+  le e+ + +++  +      + 
  PHY93_09770|PHY93_09770  40 YLLDLCCGTGRHIQGLSQ-C--GYKILGIDSNGTALDKARE----LNLPNVTYEQNDIFNLS--LESESLNAVICMwQ-SfgyGDE 115
                              58***************4.3..468****************....7999*************..999*****999642.2465555 PP

          Methyltransf_31  88 adpdkileeiervlkpggillie 110
                              + + + l+ +   lk++g++l++
  PHY93_09770|PHY93_09770 116 SQNSNLLKALWHGLKQDGVFLLD 138
                              66666666777777777777765 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   7.2e-07    0.0016       1      98 [.      42     134 ..      42     135 .. 0.73

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 7.2e-07
          Methyltransf_12   1 LeiGcGtGsllralleklpdieytgvDispsaiedakeklakrennnnnnvelealdlldldgg.ssfDlvvas.nvlhhl..kdi 82 
                              L++ cGtG+ ++ l +   + +++g+D +  a+        k +++n  nv++e++d+++l+ + +s  +v++  + + +    + 
  PHY93_09770|PHY93_09770  42 LDLCCGTGRHIQGLSQC--GYKILGIDSNGTAL-------DKARELNLPNVTYEQNDIFNLSLEsESLNAVICMwQSFGYGdeSQN 118
                              899**************..**************.......3333334445555555555555555588888876688888864444 PP

          Methyltransf_12  83 revldnirklLkpgGr 98 
                                +l+ + + Lk++G+
  PHY93_09770|PHY93_09770 119 SNLLKALWHGLKQDGV 134
                              4888888888888886 PP

>> TehB  Tellurite resistance protein TehB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   1.9e-06    0.0043      25      93 ..      32      96 ..       8     110 .. 0.76

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 1.9e-06
                             HCCCS-S-EEEEES-TTSHHHHHHHHTT-EEEEEES-HHHHHHHHHHHHHTT-TTEEEEE--GGG---- CS
                     TehB 25 avkivkpgkvldlgcgqgrnslylsllgydvtawdknensiafleeikekenlknistalydineakld 93
                              + +++    ldl cg gr    ls  gy++  +d n +++   +e     nl n++ +  di +++l+
  PHY93_09770|PHY93_09770 32 IIPTISYPYLLDLCCGTGRHIQGLSQCGYKILGIDSNGTALDKARE----LNLPNVTYEQNDIFNLSLE 96
                             4456667789***************************998765544....3666777777777777665 PP

>> FtsJ  FtsJ-like methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   5.5e-06     0.012      25      81 ..      41     101 ..      20     162 .. 0.79

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 5.5e-06
                              EEECT-TTSHHHHHHCCT.T.-SEEEEEESSSS.......HHHTTEEEECS-CCCSSHHHHHCH CS
                     FtsJ  25 vvDlgaaPGgwsqvllqrlgakgkvvavDlqpm.......aplpgvttiqgditdpetiekike 81 
                               +Dl++++G  +q l+q  g   k++++D +          +lp+vt  q di++ + + + ++
  PHY93_09770|PHY93_09770  41 LLDLCCGTGRHIQGLSQC-G--YKILGIDSNGTaldkareLNLPNVTYEQNDIFNLSLESESLN 101
                              79****************.5..6899999866657755323449*********99988776655 PP

>> Methyltransf_4  Putative methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   0.00014      0.31       3      74 ..      39     101 ..      37     107 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00014
                              EEEEEET-TTSHHHHHHHHHSTTSEEEEEES-HHHHHHHHHHHHHCTTSSEEEEES-CCCHHHHCS-TTSEE CS
           Methyltransf_4   3 pvvleiGcGkGeflvalAkknPdknflGiEirvkvvakvlkkiealelkNlrilrgdalkvllelledgsle 74 
                              p +l+++cG G+++  l++     ++lGi+ +     ++l+k+++l+l N+ + ++d    ++ +le +sl+
  PHY93_09770|PHY93_09770  39 PYLLDLCCGTGRHIQGLSQ--CGYKILGIDSN----GTALDKARELNLPNVTYEQNDI---FNLSLESESLN 101
                              7799**********88876..67899**9866....6788899999999999999997...44455555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (236 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       493  (0.0274974); expected 358.6 (0.02)
Passed bias filter:                      415  (0.0231469); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.45u 0.20s 00:00:00.65 Elapsed: 00:00:00.36
# Mc/sec: 1941.55
//
Query:       PHY93_09775|PHY93_09775  [L=173]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    8.4e-34  115.6   0.0    1.3e-33  115.1   0.0    1.3  1  ORF6N         ORF6N domain
  ------ inclusion threshold ------
      0.018   15.6   0.0       0.03   14.9   0.0    1.4  1  Phage_pRha    Phage regulatory protein Rha (Phage_pRha)
       0.12   12.4   0.4       0.85    9.7   0.2    2.1  2  Baculo_PEP_C  Baculovirus polyhedron envelope protein, PEP, C


Domain annotation for each model (and alignments):
>> ORF6N  ORF6N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  115.1   0.0   2.1e-37   1.3e-33       2      83 ..      11      95 ..      10      96 .. 0.94

  Alignments for each domain:
  == domain 1  score: 115.1 bits;  conditional E-value: 2.1e-37
                    ORF6N  2 kiyeirgqrVmldkdlAelYevetkrlnqavkrnkeRFpedfmfqLtkeele..rsqiatl.krgskskylpylfTEqGvlmlak 83
                             +iy++rgqrVmld+dlA+lY+vetkrln++v+rn +RFp dfmf+Lt ee+e  +sqiat+ + +++++++p++fTE+Gv+ml+ 
  PHY93_09775|PHY93_09775 11 MIYTVRGQRVMLDSDLAKLYGVETKRLNEQVRRNLDRFPLDFMFKLTSEEFEvlKSQIATSkTGSGGKQKQPLVFTENGVAMLSG 95
                             69***********************************************************64456799**************97 PP

>> Phage_pRha  Phage regulatory protein Rha (Phage_pRha)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.0   5.1e-06      0.03       5      87 ..      25     117 ..      21     118 .. 0.74

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 5.1e-06
               Phage_pRha   5 eiAelfgkrHknVlrdIrkliedleefgke.......lnfe........eseykdsngretkvylltrdgftllvmgftgkkavef 75 
                              + A+l g + k + +++r+ ++++     +       +  e         ++ + s g++ +   +t++g+ +l   ++ k+a+++
  PHY93_09775|PHY93_09775  25 DLAKLYGVETKRLNEQVRRNLDRF---PLDfmfkltsE--EfevlksqiATSKTGSGGKQKQPLVFTENGVAMLSGILNSKQAIQV 105
                              579999999999999999995554...44433344452..04477666433333444588888999******************** PP

               Phage_pRha  76 kaayidrFnele 87 
                               +a+ + F +l+
  PHY93_09775|PHY93_09775 106 NIAIMRTFTKLR 117
                              ********9997 PP

>> Baculo_PEP_C  Baculovirus polyhedron envelope protein, PEP, C terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.0     0.087   5.2e+02      36      69 ..       8      41 ..       2      70 .. 0.62
   2 ?    9.7   0.2   0.00014      0.85      35      95 ..     108     156 ..      84     162 .. 0.57

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.087
             Baculo_PEP_C 36 latlldaietqLnalsedlksllaeldtrldtll 69
                             +++++ ++ +q   l++dl +l    ++rl++++
  PHY93_09775|PHY93_09775  8 IEAMIYTVRGQRVMLDSDLAKLYGVETKRLNEQV 41
                             5555555555555555555555544444555443 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.00014
             Baculo_PEP_C  35 qlatlldaietqLnalsedlksllaeldtrldtlltnLtdalnalqdtlrneLtnlnsilt 95 
                              ++ +++++           l+s la +++ l++ + +L+d  n+l + + ++L+nl+ ++t
  PHY93_09775|PHY93_09775 108 AIMRTFTK-----------LRSFLA-MESTLKEEVGKLKDGTNQLFKIVFERLDNLEDQVT 156
                              33333333...........333333.55677777777777777777777777777777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (173 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       517  (0.028836); expected 358.6 (0.02)
Passed bias filter:                      395  (0.0220313); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.37u 0.20s 00:00:00.57 Elapsed: 00:00:00.34
# Mc/sec: 1543.54
//
Query:       PHY93_09780|PHY93_09780  [L=101]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.8e-17   62.4   0.0    4.5e-17   62.1   0.0    1.1  1  DUF2442   Protein of unknown function (DUF2442)


Domain annotation for each model (and alignments):
>> DUF2442  Protein of unknown function (DUF2442)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.1   0.0   2.5e-21   4.5e-17       1      76 [.       6      77 ..       6      80 .. 0.95

  Alignments for each domain:
  == domain 1  score: 62.1 bits;  conditional E-value: 2.5e-21
                             EEEEEEETTTEEEEEETT--EEEE-TTTS.STTTT--TTTT......TS-EE-TTSSSEEETTTTEEE-HHHHHHT CS
                  DUF2442  1 vveVkptddyklyvyfddGrellvdlswllprlenatfeqlkdkelFaqvevspgggglhWpdldlDlspegLyeg 76
                             vve+ ++++  ly++f++G+++ + +++++    ++ f++lk+k+lF++v+v+ + g+++Wp  +lDlspe+Ly+ 
  PHY93_09780|PHY93_09780  6 VVEALALPEKILYLRFSNGKDGMFCFEDYF--PYEGIFKKLKNKSLFNKVSVN-QFGTIEWPG-NLDLSPEVLYAI 77
                             67888999999*******************..********************8.9********.**********86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (101 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       384  (0.0214178); expected 358.6 (0.02)
Passed bias filter:                      338  (0.0188521); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.24s 00:00:00.63 Elapsed: 00:00:00.40
# Mc/sec: 753.87
//
Query:       PHY93_16720|PHY93_16720  [L=491]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.5e-71  241.0  23.8    1.5e-71  241.0  23.8    2.1  2  Proton_antipo_M  Proton-conducting membrane transporter
  ------ inclusion threshold ------
      0.017   15.0   2.7       0.03   14.2   0.4    2.6  2  DUF4006          Family of unknown function (DUF4006)


Domain annotation for each model (and alignments):
>> Proton_antipo_M  Proton-conducting membrane transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   2.7      0.32   2.9e+03      10      73 ..       5      71 ..       4     108 .. 0.61
   2 !  241.0  23.8   1.7e-75   1.5e-71       1     292 [.     128     425 ..     128     426 .. 0.92

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 0.32
          Proton_antipo_M 10 glElvllplylLiglwkkkpksleAslklflltllgsliLLlgilllynltgtlefeelskal.....e 73
                             +l  +l+pl+  ig++++ +++ +A   ++l+++l  +++ +++ + + l     ++el+k+      +
  PHY93_16720|PHY93_16720  5 FLVKFLIPLLWAIGFMFAPKQNERAIKLYALIGAL--VVFAYSVKMYFDLPDPGVLTELFKFQmplffN 71
                             55567888888888888888888887777777766..56667777777777777777777776665541 PP

  == domain 2  score: 241.0 bits;  conditional E-value: 1.7e-75
          Proton_antipo_M   1 andLlllylglElvllplylLiglwkkkpksleAslklflltllgsliLLlgilll....ynltgtlefe..elskal.elglnsl 79 
                              +++L  +y+++E++l+pl++L+g+++ + ++ +As+k++++t++gs+++L ++ ++    y+ltg+ +++   +++    +   ++
  PHY93_16720|PHY93_16720 128 STSLYGFYVFWEAMLIPLFVLMGIFGGD-NRRYASFKFLMMTAAGSILMLASMCYMsalaYKLTGSYDLNydVIKSLNlGFYGFWS 212
                              68999********************999.8999********************999666678889655541045444455566677 PP

          Proton_antipo_M  80 elllllllllvgllvKsaqvplhlWlpdayveaPtpvsallAatlvkagvlllirllllla.vssneisqlllilaiismllgslv 164
                               ++l++  + +++ +K++++p+h Wlpda+veaPt++s+llA++l+k+g+++++r++ ++  ++  +++ ++l l++i++++g+l 
  PHY93_16720|PHY93_16720 213 PQSLIFWSFSLAFFLKVPVFPFHSWLPDAHVEAPTAGSILLAGILLKLGIYGFLRFVIPFYpQAVDAYRDIILYLGAIGVIYGALT 298
                              899*****************************************************99999899999******************* PP

          Proton_antipo_M 165 alaqtdiKrllAySsishlGymlialavatqygveaaiihllthalfkallFllagsviyerektrdirayggLakkmPilalvll 250
                              a +qtdiK+l+A+Ssish+Gy++++++ +++ +v++ai+++++h++++ ++F+ +    y r +t+++++ ggLak mP +a++++
  PHY93_16720|PHY93_16720 299 AWVQTDIKKLVAFSSISHMGYIVMGVFSQNAFAVKGAIFQMVAHGISTPGMFIGV-HYLYTRRHTKKLDQFGGLAKIMPRFAVLFF 383
                              *******************************************************.6669999*********************** PP

          Proton_antipo_M 251 vlllslaGlPptagFlskfliLeaavavslillvlavvasvl 292
                              +++ + +++P+t gF+++f+i +++++++  ++ la ++++l
  PHY93_16720|PHY93_16720 384 IITAGSMAIPMTCGFVGEFMITAGVYEINKTVAFLAATGIIL 425
                              ******************************999999776665 PP

>> DUF4006  Family of unknown function (DUF4006)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.4   3.4e-06      0.03       9      40 ..      76     107 ..      73     112 .. 0.90
   2 ?   -2.7   0.1      0.64   5.8e+03       8      31 ..     408     431 ..     406     438 .. 0.74

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 3.4e-06
                  DUF4006   9 FglnGitGmliavvLLLsilavLtvlaikvqq 40 
                              F+++G++G+l +    L +l+v t++ ik+++
  PHY93_16720|PHY93_16720  76 FAMDGLSGLLLILNAFLLVLVVVTTWEIKTDK 107
                              99*******9999888889999*******987 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 0.64
                  DUF4006   8 lFglnGitGmliavvLLLsilavL 31 
                              ++ +n  + +l a+ + Ls +  L
  PHY93_16720|PHY93_16720 408 VYEINKTVAFLAATGIILSPIYLL 431
                              677777788888888888866655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (491 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       758  (0.0422779); expected 358.6 (0.02)
Passed bias filter:                      281  (0.0156729); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.41
# Mc/sec: 3606.27
//
Query:       PHY93_09785|PHY93_09785  [L=84]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.6e-19   68.2   0.1    6.8e-19   68.0   0.1    1.1  1  DUF4160   Domain of unknown function (DUF4160)


Domain annotation for each model (and alignments):
>> DUF4160  Domain of unknown function (DUF4160)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.0   0.1   3.8e-23   6.8e-19       1      65 [.       9      70 ..       9      71 .. 0.97

  Alignments for each domain:
  == domain 1  score: 68.0 bits;  conditional E-value: 3.8e-23
                  DUF4160  1 GiriyfysnekdheppHvHvkyggdeakiwledvellegsglpkkelklieewveehqeellekW 65
                             Gi+i  y +e  h+ppH+Hv+y+g +a+++++++e+l+g +lp k+  l eew  +hq+ell++W
  PHY93_09785|PHY93_09785  9 GIYILLYPRE--HNPPHFHVRYSGFKASVNIRNGEILAG-KLPIKARSLTEEWRLIHQKELLQAW 70
                             999****877..***************************.************************* PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (84 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       280  (0.0156172); expected 358.6 (0.02)
Passed bias filter:                      255  (0.0142228); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.35u 0.20s 00:00:00.55 Elapsed: 00:00:00.35
# Mc/sec: 721.60
//
Query:       PHY93_09790|PHY93_09790  [L=253]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.9e-09   36.8   0.5    6.7e-05   22.5   0.2    3.0  2  Epimerase       NAD dependent epimerase/dehydratase family
    2.6e-07   30.7   0.0    2.6e-06   27.5   0.0    2.0  1  NAD_binding_10  NAD(P)H-binding
    8.8e-06   26.2   0.0    1.4e-05   25.5   0.0    1.4  1  F420_oxidored   NADP oxidoreductase coenzyme F420-dependent
    5.7e-05   23.3   0.0    7.6e-05   22.9   0.0    1.3  1  NAD_binding_2   NAD binding domain of 6-phosphogluconate dehy
    0.00087   18.5   0.0     0.0032   16.6   0.0    1.8  2  RmlD_sub_bind   RmlD substrate binding domain
     0.0016   18.0   0.0     0.0031   17.1   0.0    1.4  1  UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family,
     0.0061   16.2   0.0      0.012   15.3   0.0    1.4  1  ApbA            Ketopantoate reductase PanE/ApbA
  ------ inclusion threshold ------
      0.015   15.2   0.0      0.027   14.3   0.0    1.4  1  3HCDH_N         3-hydroxyacyl-CoA dehydrogenase, NAD binding 
      0.043   13.2   0.0       0.07   12.5   0.0    1.3  1  2-Hacid_dh_C    D-isomer specific 2-hydroxyacid dehydrogenase
      0.051   13.0   0.1        2.7    7.3   0.0    2.6  3  GDP_Man_Dehyd   GDP-mannose 4,6 dehydratase
      0.067   14.0   0.0       0.15   12.9   0.0    1.6  1  GFO_IDH_MocA    Oxidoreductase family, NAD-binding Rossmann f
      0.074   13.3   0.0       0.16   12.2   0.0    1.6  2  TrkA_N          TrkA-N domain
       0.16   12.4   0.0        0.3   11.6   0.0    1.7  1  NAD_binding_7   Putative NAD(P)-binding


Domain annotation for each model (and alignments):
>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.4   0.0   0.00024      0.33       1      50 [.       8      55 ..       8      93 .. 0.67
   2 !   22.5   0.2   4.8e-08   6.7e-05     109     239 ..      94     199 ..      82     201 .. 0.77

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00024
                             EEEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHCEEEE--T CS
                Epimerase  1 ilVtGatGfiGsalvkallekgyevigldrlssasntarledlelveldl 50
                             i V+G  G +G  l+++l ++g++v++ +  ++++++ +++ l+++  d+
  PHY93_09790|PHY93_09790  8 ITVIGC-GWLGLPLCERLIAAGHKVVATTTTPEKKAHHLKK-LDVHLFDV 55
                             567777.9****************99999996666654433.33333332 PP

  == domain 2  score: 22.5 bits;  conditional E-value: 4.8e-08
                              EEEEEEEGGGGTSCSSSSBSTCSTTS----SSHHHHHHHHHHHHHHHHHHHHT-EEEEEEESEEESTTS-TTSTTSHHHHHHHHHH CS
                Epimerase 109 rllflsSsevYGkdaeqpkeettltgplkpnspYaaaKlageklveayaaqyglnaiilrlfnlyGprngegevsrvipalirkil 194
                              ++lf+sS++vYGk++   ++e+++ +p   n  Y     a+e++++    ++  n +i+r+  lyG++      ++ +     + l
  PHY93_09790|PHY93_09790  94 KILFISSTSVYGKSEGA-TNEESELTPQTKNGKYL---KASESYLR----AHFKNLTIVRPGGLYGEN------RHPL-----NSL 160
                              99*************95.77777778889999998...34555555....554588************......3333.....345 PP

                              TTSSSEEEETTST-EEEEEEHHHHHHHHHHHHHHHTT-STTEEEE CS
                Epimerase 195 egkqevtllgdgtalRdflyveDvaeaillvlehvdagdkgeiyn 239
                              +gk   t l +g++l  +++ +D+++ai+ ++e+   +   e++n
  PHY93_09790|PHY93_09790 161 QGK---TDLTTGQELLHLVHRDDCIDAIVKIIEN---QSWSEDFN 199
                              566...6677899999****************99...33456666 PP

>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.5   0.0   1.9e-09   2.6e-06       4     183 ..      14     191 ..      12     192 .. 0.77

  Alignments for each domain:
  == domain 1  score: 27.5 bits;  conditional E-value: 1.9e-09
                              SHHHHHHHHHHHHC-T-EEEEEETTHHHCHHHHCTTTCEEEE--TT-CCHHHHHHTT-SEEEES---TCCHHHHHHHHHHHHHHCT CS
           NAD_binding_10   4 GkvGrllvkellargghevtalvRnpeklaeleaeeglevvegdvtdvedlaealkgadaVvsalggggkdeegaknivdaakeag 89 
                              G+ G  l+++l+a+ gh+v+a + +pek a+    ++l+v   dv ++    + l  +d+++ ++ + g     +++   a++   
  PHY93_09790|PHY93_09790  14 GWLGLPLCERLIAA-GHKVVATTTTPEKKAHH--LKKLDVHLFDVISQ-VPDQNLLACDIIIYTIPPLGL--GEVERFFHAVDPD- 92 
                              899***********.5**********998853..36788888887643.34688999********66554..3478888888765. PP

                              --EEEEEEETTTTSGCGCHHHHHHHHCCHHHH..HHHHHHHHHHHHSSSEEEEEEE-CEE-ST--SEEEEETTSS----E.....E CS
           NAD_binding_10  90 vkRfvlvsaigvgdevpgefgewnkellkayl..aakraaeellrasgldwTivrpggLtdepttkyrvvekgepfkggs.....i 168
                               ++++++s+  v+ +++g+++e  + l  ++   +  +a+e +lra   + TivrpggL  e+++  + +++++++++g+     +
  PHY93_09790|PHY93_09790  93 -SKILFISSTSVYGKSEGATNEESE-LTPQTKngKYLKASESYLRAHFKNLTIVRPGGLYGENRHPLNSLQGKTDLTTGQellhlV 176
                              .789*********887777766433.3333331234557999*********************99999999888887653344449 PP

                              EHHHHHHHHHHHCTX CS
           NAD_binding_10 169 sradVAdvlvavldd 183
                               r+d  d++v+++++
  PHY93_09790|PHY93_09790 177 HRDDCIDAIVKIIEN 191
                              999999999999987 PP

>> F420_oxidored  NADP oxidoreductase coenzyme F420-dependent
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.5   0.0     1e-08   1.4e-05       1      77 [.       7      82 ..       7     101 .. 0.80

  Alignments for each domain:
  == domain 1  score: 25.5 bits;  conditional E-value: 1e-08
                             EEEEETTSHHHHHHHHHHHHTTS-GGCEEEEEESSCCCHHHHHHHHC....-EEECECHHHHHHH-SEEEE-S-HHHHHHH CS
            F420_oxidored  1 kigiiGaGnmgealasgllaagaqpheivvansrnpekaeelaeelg....vkvtavdneeaaeeadvvvlavkpedveev 77
                             ki +iG+G +g  l ++l+aag   h++v a++ +pek ++  ++l       +++v+ + +++ +d+++ +++p  + ev
  PHY93_09790|PHY93_09790  7 KITVIGCGWLGLPLCERLIAAG---HKVV-ATTTTPEKKAHHLKKLDvhlfDVISQVPDQNLLA-CDIIIYTIPPLGLGEV 82
                             799*******************...****.8899999888888888867753344446666665.99*****999766655 PP

>> NAD_binding_2  NAD binding domain of 6-phosphogluconate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.9   0.0   5.5e-08   7.6e-05       1      64 [.       7      75 ..       7     114 .. 0.82

  Alignments for each domain:
  == domain 1  score: 22.9 bits;  conditional E-value: 5.5e-08
                             EEEEE--SHHHHHHHHHHHHTT-EEEEE-SSHHHHHHHHHTT.EEE-SSHHHHHHHC....SEEEE-SS CS
            NAD_binding_2  1 kigfiGlGvMGsnmalnllkagykvavynrtkekveelvaeg.akaaesieelvasl....dvvitmvk 64
                             ki +iG G +G +++++l++ag+kv++   t+ek  + +++  +++++ i+++ ++     d++i  ++
  PHY93_09790|PHY93_09790  7 KITVIGCGWLGLPLCERLIAAGHKVVATTTTPEKKAHHLKKLdVHLFDVISQVPDQNllacDIIIYTIP 75
                             699****************************98877777664466666666665544455588877765 PP

>> RmlD_sub_bind  RmlD substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.0      0.57   7.9e+02       9      33 ..      13      37 ..       7      62 .. 0.75
   2 !   16.6   0.0   2.3e-06    0.0032      94     157 ..      93     155 ..      87     181 .. 0.83

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.57
                             TSHHHHHHHHHCTTTSEEEEEE-TT CS
            RmlD_sub_bind  9 nGqlGseLakqlaeeglevlaltre 33
                              G lG  L ++l ++g++v+a+t +
  PHY93_09790|PHY93_09790 13 CGWLGLPLCERLIAAGHKVVATTTT 37
                             4889999999999999999999665 PP

  == domain 2  score: 16.6 bits;  conditional E-value: 2.3e-06
                              -EEEEEEEGGGS-S-TTS-B-TTS----SSHHHHHHHHHHHHHHHH-SSEEEEEE-SEESSSSS CS
            RmlD_sub_bind  94 alLihvStDyVFdGekkrpYeeddetsPlnvYGrtKlaGEqavlaagkkalivRtswvygekgk 157
                              ++++++S+  V+ G+ + + +e++e  P++  G+   a E   +a+ k+ +ivR + +yge+++
  PHY93_09790|PHY93_09790  93 SKILFISSTSVY-GKSEGATNEESELTPQTKNGKYLKASESYLRAHFKNLTIVRPGGLYGENRH 155
                              678899999998.67788899***************************************9654 PP

>> UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.0   2.2e-06    0.0031       2      42 ..       7      48 ..       6      57 .. 0.79

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 2.2e-06
                             EEEEE--STTHHHHHHHHHHCTSEEEEE-S-.HHHHHHHCTT CS
           UDPG_MGDP_dh_N  2 kisviGlGYvGlvtaavlaeighevigvDid.eekvdklnsg 42
                             ki+viG G++Gl+ +  l ++gh+v+      e+k ++l++ 
  PHY93_09790|PHY93_09790  7 KITVIGCGWLGLPLCERLIAAGHKVVATTTTpEKKAHHLKKL 48
                             8************************98765414555566655 PP

>> ApbA  Ketopantoate reductase PanE/ApbA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   8.4e-06     0.012       1     101 [.       8      98 ..       8     103 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 8.4e-06
                              EEEES-SHHHHHHHHHHHHHTHCEEEE-SCHHHHHHHHHCEEEEETTCEEEEEECEEECCHSCCCCS-ESEEEE-SSGGGHHHHHH CS
                     ApbA   1 iailGaGaiGsllaakLakagadvtlilrsrrlealkknGlrltseggeeilrppealsaeekselepidlvivtvKayqteeale 86 
                              i+++G+G +G  l+ +L +ag++v+  + +++ +a + + l+++  +      +  +++++   +l  +d++i t++ + + e +e
  PHY93_09790|PHY93_09790   8 ITVIGCGWLGLPLCERLIAAGHKVVATTTTPEKKAHHLKKLDVHLFD------VISQVPDQ---NLLACDIIIYTIPPLGLGE-VE 83 
                              89*****************************4444444444444444......33444444...78889*************9.99 PP

                              HHGGGECTCEEEEEE CS
                     ApbA  87 eikplldpntvvlll 101
                              ++ +++dp++++l++
  PHY93_09790|PHY93_09790  84 RFFHAVDPDSKILFI 98 
                              9***********998 PP

>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0     2e-05     0.027       1      44 [.       7      50 ..       7      62 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 2e-05
                             EEEEE--SCCHHHHHHHHHHTT-EEEEE-S-HHHHHHHHHHHHH CS
                  3HCDH_N  1 kvaviGaGtmGagiaavfasagleVvlvdiseealekalekiek 44
                             k++viG+G +G  + + +++ag++Vv + +++e+ ++ l+k+  
  PHY93_09790|PHY93_09790  7 KITVIGCGWLGLPLCERLIAAGHKVVATTTTPEKKAHHLKKLDV 50
                             69****************************99999988888765 PP

>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   5.1e-05      0.07      33      81 ..       2      51 ..       1      77 [. 0.73

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 5.1e-05
                             -GTTSEEEEES-SHHHHHHHHHHHHTT-EEEEESSSHHHHH.CHHHHTCE CS
             2-Hacid_dh_C 33 elsgktvGiiGlGrIGqavakrlkafgmkviaydrskkkee.eeeelgve 81
                             +l++ ++ +iG+G +G  + +rl a g kv+a+ ++++k++ + ++l v+
  PHY93_09790|PHY93_09790  2 DLNKLKITVIGCGWLGLPLCERLIAAGHKVVATTTTPEKKAhHLKKLDVH 51
                             678899******************************99776544444443 PP

>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.0     0.069        95       5      41 ..      12      47 ..      10      69 .. 0.76
   2 ?    7.3   0.0    0.0019       2.7     117     150 ..      88     120 ..      77     138 .. 0.77
   3 ?   -0.8   0.0      0.55   7.6e+02     225     272 ..     177     225 ..     158     251 .. 0.72

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.069
                             TTSHHHHHHHHHHHHCT-CCEEEEEEESS-TTHHHHH CS
            GDP_Man_Dehyd  5 iaGfiGsylaelLlekgyevhgivrrsssfntgrieh 41
                             + G  G  l+e+L++ g++v+ ++   ++ +++++++
  PHY93_09790|PHY93_09790 12 GCGWLGLPLCERLIAAGHKVVATTTTPEK-KAHHLKK 47
                             5799999*************997654443.4444444 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.0019
                              T..TTSEEEEEEEGGGG-S-SSSSB-TTS----- CS
            GDP_Man_Dehyd 117 glekkvrfyqaStsEvYGkvqevpqtEttpfyPr 150
                               ++++ +++++S+  vYGk +    +E+  ++P+
  PHY93_09790|PHY93_09790  88 AVDPDSKILFISSTSVYGKSE-GATNEESELTPQ 120
                              4567899************97.445555555554 PP

  == domain 3  score: -0.8 bits;  conditional E-value: 0.55
                              EHHHHHHHHHHHHHCSS.---EEE-TT-EEECHHCHHCCHHCCCHHHHH CS
            GDP_Man_Dehyd 225 hvkDyveamwlmlqqdk.pedyviatgethsvrefvelaflelgktiew 272
                              h +D ++a+++++++++ +ed+++ +    s ++  + ++++lg t   
  PHY93_09790|PHY93_09790 177 HRDDCIDAIVKIIENQSwSEDFNLVNDLRISKEDYYTEEAKKLGLTPPS 225
                              6689999999999875536899998888888888888888888776554 PP

>> GFO_IDH_MocA  Oxidoreductase family, NAD-binding Rossmann fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   0.00011      0.15       1      73 [.       6      78 ..       6      89 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 0.00011
                             EEEEEETTSHHHHHHHHHHHHTTTTEEEEEEECSSHHHHHHHHHHTTHEEESSHHHHHTCT..TESEEEE-S-G.G CS
             GFO_IDH_MocA  1 lrvaiiGaGkigskhlrplnesqrleevvalldpdaeraeavaesfgveaysdleelladp..eidavivatpn.g 73
                             l++ +iG+G++g +  + l ++  +++vva   + +++a+++ ++++v+ ++ +++++++   ++d++i ++p+ g
  PHY93_09790|PHY93_09790  6 LKITVIGCGWLGLPLCERLIAA--GHKVVATTTTPEKKAHHL-KKLDVHLFDVISQVPDQNllACDIIIYTIPPlG 78
                             5899************999999..999**9999999999998.****************99999****99999853 PP

>> TrkA_N  TrkA-N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   0.00012      0.16       1      43 [.       8      51 ..       8      66 .. 0.78
   2 ?   -3.3   0.0       7.7   1.1e+04       9      29 ..     168     191 ..     167     193 .. 0.67

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 0.00012
                             EEEES-SHHHHHHHHHHHH.TTEEEEEEESSHHH.HHHHHHTTSE CS
                   TrkA_N  1 iiiiGlGrvGrslaeeLse.ggkdvvvidkdeer.veelreegle 43
                             i +iG+G +G  l+e+L + g+ +vv+  + +e+ +++l++  ++
  PHY93_09790|PHY93_09790  8 ITVIGCGWLGLPLCERLIAaGH-KVVATTTTPEKkAHHLKKLDVH 51
                             679****************666.6999999997735555544444 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 7.7
                              HHHHHHHHHHH.TT...EEEEEEES CS
                   TrkA_N   9 vGrslaeeLse.gg...kdvvvidk 29 
                              +G++l++ +++ ++   + v +i++
  PHY93_09790|PHY93_09790 168 TGQELLHLVHRdDCidaI-VKIIEN 191
                              688888888885557644.777776 PP

>> NAD_binding_7  Putative NAD(P)-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00022       0.3       4      45 ..       2      43 ..       1     145 [. 0.81

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00022
            NAD_binding_7  4 dlkgkkvlvvGgGevAarkvrklleagakvtvvapevkeele 45
                             dl++ k+ v+G G +++  +++l++ag kv+  + + +++++
  PHY93_09790|PHY93_09790  2 DLNKLKITVIGCGWLGLPLCERLIAAGHKVVATTTTPEKKAH 43
                             89999************************9877666322222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (253 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       529  (0.0295053); expected 358.6 (0.02)
Passed bias filter:                      436  (0.0243181); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.36
# Mc/sec: 2104.55
//
Query:       PHY93_09795|PHY93_09795  [L=139]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (139 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       174  (0.00970495); expected 358.6 (0.02)
Passed bias filter:                      168  (0.00937029); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.34u 0.20s 00:00:00.54 Elapsed: 00:00:00.33
# Mc/sec: 1250.36
//
Query:       PHY93_09800|PHY93_09800  [L=208]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.059   13.9   0.1       0.17   12.4   0.1    1.7  2  IZUMO     Izumo sperm-egg fusion, Ig domain-associated


Domain annotation for each model (and alignments):
>> IZUMO  Izumo sperm-egg fusion, Ig domain-associated
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.0       0.2   3.5e+03      54      82 ..      14      42 ..       7      53 .. 0.74
   2 ?   12.4   0.1   9.6e-06      0.17      20      99 ..     106     186 ..      94     200 .. 0.74

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 0.2
                             SEEEHHHHHHHHHHHHHHHHHHHHS---H CS
                    IZUMO 54 gvvdeetlekvasslkkelkrltdsdlkg 82
                             g  de+  +k++ +lkk++++lt +++++
  PHY93_09800|PHY93_09800 14 GTADEAMDNKLSIALKKSITNLTFDSITE 42
                             55666777788889999988888776655 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 9.6e-06
                              HHHHHS.GGHHHHHHHHHHHHHTTT---SGGGGGGSEEEHHHHHHHHHHHHHHHHHHHHS---HHHHHHHHHHHHHHHHHH CS
                    IZUMO  20 llpsel.ehreklleraealledlsekelaenkflgvvdeetlekvasslkkelkrltdsdlkgelllkeLlwllqkqkkk 99 
                              ++ +el ++++  ++ + +   +l++ +  +  + g+++++t++  ++ + k++k + +++ k el+ + L+w l+  k+ 
  PHY93_09800|PHY93_09800 106 IVLRELnSSKKYRYKNQIDFSINLQNPTERNPFVRGELKRSTIDLSTKIIFKDFKSFLNEEAKVELFTEPLFWALKGGKQV 186
                              5555552333333444444444454444444455689*************************************9976654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (208 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       586  (0.0326845); expected 358.6 (0.02)
Passed bias filter:                      372  (0.0207485); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.17s 00:00:00.57 Elapsed: 00:00:00.33
# Mc/sec: 1900.32
//
Query:       PHY93_19175|PHY93_19175  [L=82]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (82 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       648  (0.0361426); expected 358.6 (0.02)
Passed bias filter:                      480  (0.0267723); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 618.36
//
Query:       PHY93_19180|PHY93_19180  [L=515]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.9e-95  318.9   2.3    3.5e-56  190.6   0.2    2.1  2  tRNA-synt_1g  tRNA synthetases class I (M)
      2e-31  108.9   3.0      3e-20   72.0   0.2    3.8  3  tRNA-synt_1   tRNA synthetases class I (I, L, M and V)
    3.2e-16   59.6   0.1    4.5e-08   32.8   0.0    2.2  2  tRNA-synt_1e  tRNA synthetases class I (C) catalytic domain
    6.4e-07   29.5   0.0    1.8e-06   28.0   0.0    1.7  1  Anticodon_1   Anticodon-binding domain of tRNA
    4.2e-06   25.9   0.0    2.8e-05   23.2   0.0    2.1  2  tRNA-synt_1f  tRNA synthetases class I (K)
  ------ inclusion threshold ------
      0.019   13.9   0.2        0.8    8.6   0.0    2.6  3  tRNA-synt_1d  tRNA synthetases class I (R)


Domain annotation for each model (and alignments):
>> tRNA-synt_1g  tRNA synthetases class I (M)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  129.9   0.1   3.3e-41   9.9e-38       2     141 ..       6     146 ..       5     151 .. 0.96
   2 !  190.6   0.2   1.2e-59   3.5e-56     169     391 .]     144     357 ..     140     357 .. 0.90

  Alignments for each domain:
  == domain 1  score: 129.9 bits;  conditional E-value: 3.3e-41
                              EEEE--B--SS---HHHHHHHHHHHHHHHHHHHTT-EEEEEEEE---SHHHHHHHHHTTS-HHHHHHHHHHHHHHHHHHTT---SE CS
             tRNA-synt_1g   2 lvttalpYangklHlGhllevisaDifaRykrlrgeevlfvcgtDehGtpielkAekegvtpeelvekvheeikelfkklnisfdk 87 
                              ++tta+ Y+ng +H+Gh+le i++D++aR+ +  g+e++f++gtDe G++   +A+++g+  +e+v+++++++++l k+ln+s+d+
  PHY93_19180|PHY93_19180   6 YITTAIDYPNGLPHMGHALEKIASDAYARWYKFLGYETYFMTGTDENGQKLIESAKASGIPIQEYVDSNSARFRKLSKDLNVSNDD 91 
                              8************************************************************************************* PP

                              EEETTSHHHHHHHHHHHHHHHHTT-EEEEEEEEEEETTTTEEE-GGG-.EE.... CS
             tRNA-synt_1g  88 ygrttseehkelvqeifkklkekgliyekeieqlycpkderflpdryv.egtCPk 141
                              ++rtt+++h ++++e+++kl++kg +y + +++ yc ++e+f+++ +  +  CP 
  PHY93_19180|PHY93_19180  92 FIRTTEQRHIDVCNELWTKLEKKGDVYFGVYSGQYCLACESFYTETQApDNICPA 146
                              *********************************************9852567886 PP

  == domain 2  score: 190.6 bits;  conditional E-value: 1.2e-59
                              ........EEE.EEEEEE-GGGGHHHHHHHH.HH-TT...SHHHHHHHH.HHHHT----EE-ES.S-SSS-EETTECCEEE-HHHH CS
             tRNA-synt_1g 169 saisgskpevketehlffklskfekklkewieeeeke...leenvkkivkewlkegLkdlaisr.dldwGipvPgaekkvlYVWld 250
                              +   +++ + ke+e +ffk+s++++ + ++i +++++    +++ +++++ +  + L+dl isr + +wGipvPg++k v+Y W+d
  PHY93_19180|PHY93_19180 144 CPAHNTQLVKKEEEGYFFKMSSYQDWIISYI-KTHPTfivPHSSYNEMLSRLEGDKLRDLPISRpNENWGIPVPGNPKFVMYTWFD 228
                              56666777889999*****************.666666977788888888888899*******73668****************** PP

                              HHHHHHHTTTTT-...TTSGGGG.G--S......EEEEEGGGHHHHHTHHHHHHHHTT----S-EEEE--EEE-.----------- CS
             tRNA-synt_1g 251 AligYisatkelakkkgeeekwkeyWakdkevelvhfigkdiikFHtifwPaillgaelklpkkvvaheyltve.gkKlSkSrgvv 335
                              Ali+Y sa+ ++          +++W +      +h+igkdi  FHt++wP++l++a++ +pk+v++h+++  e gkK+SkS g+v
  PHY93_19180|PHY93_19180 229 ALINYYSAVAHTD--------KEKFWPA-----SMHVIGKDIAWFHTVVWPIMLHAADIAIPKQVYVHGMILAEdGKKMSKSVGNV 301
                              *********9975........3579*44.....79***********************************88753799******** PP

                              --HHHHHHHH-HHHHHHHHHHHS-TTS-EEE-HHHHHHHHHHHCCCHHHHHHHHH. CS
             tRNA-synt_1g 336 vkakealerldadllRYylaaeapekkDldfswedfvervNseLadklgnlvnRvl 391
                              v+++++l ++++d +RYyl+++ p+++D  fs+++++e+ N+eL +++gnl+ Rvl
  PHY93_19180|PHY93_19180 302 VDPNDMLAKYPVDSFRYYLLRAIPAQNDGRFSEKELIEKHNAELGNSYGNLIMRVL 357
                              ******************************************************85 PP

>> tRNA-synt_1  tRNA synthetases class I (I, L, M and V)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.3   0.2   8.6e-11   2.6e-07      23      95 ..       3      85 ..       1     142 [. 0.71
   2 !    4.8   0.0    0.0023       6.8     364     432 ..     143     216 ..     134     221 .. 0.85
   3 !   72.0   0.2     1e-23     3e-20     486     596 ..     222     327 ..     218     333 .. 0.85

  Alignments for each domain:
  == domain 1  score: 29.3 bits;  conditional E-value: 8.6e-11
              tRNA-synt_1 23 kefilvdgPPyvtGslHiGhalaktlkdivirykrmkGkevlyvpGwDha...........Glaieakvekklgakekkerkkl 95
                             ++f ++    y +G +H+Ghal+k+  d   r++++ G+e+ +++G+D             G++i+  v+ + ++ + k  k+l
  PHY93_19180|PHY93_19180  3 EKFYITTAIDYPNGLPHMGHALEKIASDAYARWYKFLGYETYFMTGTDENgqkliesakasGIPIQEYVDSNSARFR-KLSKDL 85
                             68999999999*************************************76111111222225777777776654433.333333 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.0023
              tRNA-synt_1 364 fcerskkpiiyrateqWfvrvkeladaalkave..kvqfvpkskekryaswle..niqdWciSR.qrwWGhrip 432
                              +c  ++++++ +  e +f ++++ +d +++ ++   + +vp+s+ +++ s le    +d  iSR +  WG ++p
  PHY93_19180|PHY93_19180 143 ICPAHNTQLVKKEEEGYFFKMSSYQDWIISYIKthPTFIVPHSSYNEMLSRLEgdKLRDLPISRpNENWGIPVP 216
                              57778999999999****************9998677789999888888888633579******6679**9998 PP

  == domain 3  score: 72.0 bits;  conditional E-value: 1e-23
              tRNA-synt_1 486 vlDvWFsSgswpfstlgypeedteelkkffpadmlleGlDiirgWvarlil.lslaltgsePfkevlvhglvrdeeGrKmSKslgN 570
                              v+ +WF+     +s +      +++ +kf+pa+m + G Di   W+++++  + l+  + +  k+v+vhg++++e+G+KmSKs+gN
  PHY93_19180|PHY93_19180 222 VMYTWFDALINYYSAVA-----HTDKEKFWPASMHVIGKDIA--WFHTVVWpIMLHAADIAIPKQVYVHGMILAEDGKKMSKSVGN 300
                              7889***9999999998.....45668899**********96..8888775356677777777*********************** PP

              tRNA-synt_1 571 vidpldvikkygadalRltli.lsdvg 596
                              v+dp+d++ ky +d+ R++l+   +  
  PHY93_19180|PHY93_19180 301 VVDPNDMLAKYPVDSFRYYLLrAIPAQ 327
                              ********************9444444 PP

>> tRNA-synt_1e  tRNA synthetases class I (C) catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.8   0.0   1.5e-11   4.5e-08      22     124 ..      17     120 ..       4     163 .. 0.86
   2 !   24.6   0.0   4.8e-09   1.4e-05     211     283 ..     251     323 ..     246     342 .. 0.78

  Alignments for each domain:
  == domain 1  score: 32.8 bits;  conditional E-value: 1.5e-11
                              --BHHHHHHHHHHHHHHHHHHHTT-EEEEEEEBB--SHHHHHHHHHTTS-HHHHHHHHHHHHHHHHHHTT----SB.--BGGGGHH CS
             tRNA-synt_1e  22 ashlGhaRslvafDilrrilqalgYdvqfvqnvtDidDkiikrareeeksvkelaekfieefkkdleaLnvlkptl.eprvsekvd 106
                                h+Gha + +a D  +r+ + lgY+  f+    +   k+i+ a++++  ++e ++   + f k  ++Lnv + ++ ++  + ++d
  PHY93_19180|PHY93_19180  17 LPHMGHALEKIASDAYARWYKFLGYETYFMTGTDENGQKLIESAKASGIPIQEYVDSNSARFRKLSKDLNVSNDDFiRTTEQRHID 102
                              57****************************9999999**********************************9987614556679** PP

                              HHHHHHHHHHHTTSEEE- CS
             tRNA-synt_1e 107 eiielvekliekgyaYav 124
                                 el  kl +kg  Y  
  PHY93_19180|PHY93_19180 103 VCNELWTKLEKKGDVYFG 120
                              *************99965 PP

  == domain 2  score: 24.6 bits;  conditional E-value: 4.8e-09
                              EEEEGGGTTTHHHHHHHHHHHHSSS--EEEEEEE--EEETTBE--TTTT---BHHHHHTTS-HHHHHHHHHSS CS
             tRNA-synt_1e 211 hsGGiDLafPhhenelaqseaafdkqlvkyflhnghlkiegekmsksLknfitikdvlkkfdprqlRllllsa 283
                              h+ G+D+a+ h      + +aa      + ++h  +l  +g+kmsks++n++  +d+l k+    +R++ll a
  PHY93_19180|PHY93_19180 251 HVIGKDIAWFHTVVWPIMLHAADIAIPKQVYVHGMILAEDGKKMSKSVGNVVDPNDMLAKYPVDSFRYYLLRA 323
                              6666777766666555555555556677899**9999********************************9975 PP

>> Anticodon_1  Anticodon-binding domain of tRNA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.0   0.0     6e-10   1.8e-06      12      85 ..     383     454 ..     378     464 .. 0.87

  Alignments for each domain:
  == domain 1  score: 28.0 bits;  conditional E-value: 6e-10
              Anticodon_1  12 vkevteayeeyrfnkaasalyeffwndlcdwylelvkprlysesaedk.raaqevllevletllrllaPfmPfit 85 
                               +++++++e+ + n+a+ al+e  +n++ + y+++ +p+  +e++  + +++ +++ + +++l+ ll+Pf+P ++
  PHY93_19180|PHY93_19180 383 YQKMKDHMEKREHNRALEALWEG-VNSM-NQYVNIKEPWKLKEDKV-AlKQVVYNCVYSIHALTTLLSPFLPETA 454
                              6799******************7.8888.**********9986653.345588*******************876 PP

>> tRNA-synt_1f  tRNA synthetases class I (K)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.4   0.0      0.14   4.1e+02      33      67 ..      14      48 ..       3      53 .. 0.83
   2 !   23.2   0.0   9.3e-09   2.8e-05     262     316 ..     273     328 ..     249     342 .. 0.80

  Alignments for each domain:
  == domain 1  score: -0.4 bits;  conditional E-value: 0.14
             tRNA-synt_1f 33 pSGliHiGnlrevltadlvaralrkrgeevrlili 67
                             p Gl+H+G + e +  d+ ar ++ +g e+ +++ 
  PHY93_19180|PHY93_19180 14 PNGLPHMGHALEKIASDAYARWYKFLGYETYFMTG 48
                             78***********9999999988888877776665 PP

  == domain 2  score: 23.2 bits;  conditional E-value: 9.3e-09
             tRNA-synt_1f 262 ggeaPekv.vYelillkggekmssSkGnvltledwlevaepevlrflilrrkPkka 316
                              ++  P++v v  +il + g+kms+S Gnv+ ++d+l  ++ ++ r+++lr+ P ++
  PHY93_19180|PHY93_19180 273 DIAIPKQVyVHGMILAEDGKKMSKSVGNVVDPNDMLAKYPVDSFRYYLLRAIPAQN 328
                              5555665425679999**********************************988765 PP

>> tRNA-synt_1d  tRNA synthetases class I (R)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.0     0.025        76      36      60 ..      19      43 ..      15      55 .. 0.91
   2 ?    8.6   0.0   0.00027       0.8     268     296 ..     281     309 ..     253     315 .. 0.87
   3 ?   -2.4   0.1      0.57   1.7e+03      90     118 ..     373     398 ..     341     437 .. 0.56

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.025
                             BHHHHHHHHHHHHHHHHHHHCT-EE CS
             tRNA-synt_1d 36 hvGhLrstiiGdavsrlleflGydv 60
                             h+Gh    i  da +r + flGy+ 
  PHY93_19180|PHY93_19180 19 HMGHALEKIASDAYARWYKFLGYET 43
                             99*********************86 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.00027
                              EEE--EE-TTSSBSBCSSSTC-BHHHHHH CS
             tRNA-synt_1d 268 anfGmvlgkdkkkfktrkGetvkLadlLd 296
                                 Gm+l +d+kk++   G++v  +d+L 
  PHY93_19180|PHY93_19180 281 YVHGMILAEDGKKMSKSVGNVVDPNDMLA 309
                              567*******************9999985 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 0.57
                              S-----SCCCHHHHHHHHCCCSHCCCHHH CS
             tRNA-synt_1d  90 qeqelqdLeafykeakkdydeeeifaera 118
                              + qe+ ++++ y+++k ++++ e   +ra
  PHY93_19180|PHY93_19180 373 VTQEV-NFDDCYQKMKDHMEKREH--NRA 398
                              33443.577889999999888875..233 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (515 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       763  (0.0425568); expected 358.6 (0.02)
Passed bias filter:                      606  (0.0338); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.68u 0.23s 00:00:00.91 Elapsed: 00:00:00.46
# Mc/sec: 3376.21
//
Query:       PHY93_19185|PHY93_19185  [L=815]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.5e-68  230.0   0.2    2.5e-68  229.3   0.2    1.4  1  tRNA-synt_1_2  Leucyl-tRNA synthetase, Domain 2
    2.6e-68  230.8  10.6    1.3e-44  152.5   9.7    3.8  2  tRNA-synt_1    tRNA synthetases class I (I, L, M and V)
    4.6e-26   91.5   6.0    1.2e-16   60.4   0.0    4.9  5  tRNA-synt_1g   tRNA synthetases class I (M)
    1.6e-18   67.1   0.5    6.3e-18   65.2   0.5    1.9  1  Anticodon_1    Anticodon-binding domain of tRNA
     0.0011   18.4   0.0       0.26   10.6   0.0    2.4  2  tRNA-synt_1e   tRNA synthetases class I (C) catalytic domain
     0.0075   15.2   0.4      0.094   11.6   0.0    2.7  3  tRNA-synt_1f   tRNA synthetases class I (K)
  ------ inclusion threshold ------
       0.19   11.5   0.0       0.78    9.5   0.0    2.0  2  S4             S4 domain


Domain annotation for each model (and alignments):
>> tRNA-synt_1_2  Leucyl-tRNA synthetase, Domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  229.3   0.2   9.7e-72   2.5e-68       1     185 []     236     416 ..     236     416 .. 0.96

  Alignments for each domain:
  == domain 1  score: 229.3 bits;  conditional E-value: 9.7e-72
            tRNA-synt_1_2   1 rnWIGrseGleiefkveeseeklevfttrpdtlfGvtfvalapehplvekl..aekkkelaafieevkkksesereletkekeGvf 84 
                              rnWIG+seG++i+f+v++s++++evfttrpdtlfG+t++++apeh lv k+  a+kk+e++++ie +k k++ er+  +k+k+Gvf
  PHY93_19185|PHY93_19185 236 RNWIGKSEGATITFQVDGSTSTIEVFTTRPDTLFGATYMVIAPEHALVAKIttADKKDEINKYIEICKLKNDLERTELNKDKSGVF 321
                              8**************************************************9999******************************* PP

            tRNA-synt_1_2  85 tglkaihPitgekipiwvanyvlmeygtgavmavPahdqrDfeFakkynlpikqvikpedeekkleeseeayteegilvnsgefdg 170
                              tg++ai+P +g+kip+w+a+yvl++ygtga+m+vPahd+rDfeFa+kynlpi qv++  +    +e  e a t+eg  +ns++++g
  PHY93_19185|PHY93_19185 322 TGAYAINPANGKKIPVWIADYVLATYGTGAIMSVPAHDERDFEFAQKYNLPIVQVLEGGN----IE--ECAHTGEGAHINSDFLNG 401
                              ********************************************************9655....33..678899************ PP

            tRNA-synt_1_2 171 lkskeakekiakkle 185
                              ++  + ++k++++le
  PHY93_19185|PHY93_19185 402 TSKIDGTKKMIEWLE 416
                              *********999985 PP

>> tRNA-synt_1  tRNA synthetases class I (I, L, M and V)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  152.5   9.7     5e-48   1.3e-44       1     351 [.      24     420 ..      24     429 .. 0.86
   2 !   73.3   0.0   4.9e-24   1.2e-20     416     589 ..     429     619 ..     422     629 .. 0.76

  Alignments for each domain:
  == domain 1  score: 152.5 bits;  conditional E-value: 5e-48
              tRNA-synt_1   1 klyekWeeedvfkkelekeke..kkefilvdgPPyvtGs.lHiGhalaktlkdivirykrmkGkevlyvpGwDhaGlaieakvekk 83 
                              k+++ Wee+++fk+   ++    k+++   d  P+  G  lH+Gh    t  di+ rykrm G++vl+ +GwD  Gl+ e    k+
  PHY93_19185|PHY93_19185  24 KWQKYWEENKTFKTDNPSKMGtqKPKYYALDMFPFPSGDgLHVGHPEGYTATDIMSRYKRMLGFNVLHPMGWDSFGLPAENYAMKT 109
                              58999********9865554335999**********99669*************************************99876555 PP

              tRNA-synt_1  84 lgakekkerkklgreefrekvrewkaeyaeeirkqvkrlGvsvDfdreylTldkeleeavkevfvrladkgliyrgkklvnwstkl 169
                               g     +  +++++           + +++ ++q+k lG s+D+dre  T + ++ + ++++fv+l++kgl y+ +  vnw+++l
  PHY93_19185|PHY93_19185 110 -G-----THPDITTK-----------KNIATFTRQLKSLGFSYDWDREIATSNVDYYKWTQWIFVQLYNKGLAYEDHINVNWCPNL 178
                              .2.....23345544...........3456788999************************************************** PP

              tRNA-synt_1 170 ktalselEveykdkk................................................dalihvafpladkeevklviaTT 207
                              kt+l++ Ev    ++                                                +   +++f+++++++ ++++ TT
  PHY93_19185|PHY93_19185 179 KTVLANEEVVDGKSEvgghpviqkkmnqwmlriteyaerllvdiddvdwpesikemqrnwigkSEGATITFQVDGSTS-TIEVFTT 263
                              *********66666667********************************************998899*********99.******* PP

              tRNA-synt_1 208 tPeTllgdtavavnpeldyv.....itkeklilaeallkslvkkesekkiledergkeLegkevelplvnrkipiiaddyvdkeaG 288
                              +P Tl+g t ++++pe   v     ++k+  i     + +l +  + ++++ + +   ++g ++++p +++kip+   dyv +  G
  PHY93_19185|PHY93_19185 264 RPDTLFGATYMVIAPEHALVakittADKKDEINKYIEICKLKNDLERTELN-KDKSGVFTGAYAINPANGKKIPVWIADYVLATYG 348
                              ****************88888886434444443333333433333444555.5566689*************************** PP

              tRNA-synt_1 289 tGvVkiaPahdedDyevgkkynlevinildedgtlteea.........aef.eglkvfdarkkvveelkekgl 351
                              tG++   Pahde D+e ++kynl+++++l e g+++e a         ++f +g +  d  kk++e l++k l
  PHY93_19185|PHY93_19185 349 TGAIMSVPAHDERDFEFAQKYNLPIVQVL-EGGNIEECAhtgegahinSDFlNGTSKIDGTKKMIEWLEQKKL 420
                              ***********************999887.5799999888999999995554899999999999999998854 PP

  == domain 2  score: 73.3 bits;  conditional E-value: 4.9e-24
              tRNA-synt_1 416 iqdWciSRqrwWGhriplfvsketeevvvre..el.kel.vagreeeeaekkalekeakdkl....kkekgelekdedvlDvWFsS 493
                               +dW +SRqr+WG++ pl   ++   + + +  el  el + +++e ++  +    +a d l     k  ++ +++++++  W  S
  PHY93_19185|PHY93_19185 429 LRDWIFSRQRYWGEPFPLLKYEDGT-IRCLDadELpVELpELEKFEPSGIGESPLANAADWLwiidPKTGKKAKRETNTMPNWAGS 513
                              68****************9988865.555432222112213345677777777788888888999855556789**********99 PP

              tRNA-synt_1 494 gswpfstlgypeedte....elkkf.fpadmlleGlDi.......irgWvarlillslaltgsePfkevlvhglvrdeeGrKmSKs 567
                                      + p++++e    +++k+  p d+++ G           r+W + l  l+     +ePf++++ +gl+++++G KmSKs
  PHY93_19185|PHY93_19185 514 CWYYLRFCD-PKNEKEpwnaDIEKYwMPVDLYVGGAEHavlhllyARFWHKVLFDLGFV-STKEPFQKLVNQGLILADDGEKMSKS 597
                              887777777.77765422226666526********986333332258998888777764.5578********************** PP

              tRNA-synt_1 568 lgNvidpldvikkygadalRlt 589
                               gNv++p++v+++yg d+lRl+
  PHY93_19185|PHY93_19185 598 RGNVVNPDSVVSEYGGDSLRLY 619
                              ********************98 PP

>> tRNA-synt_1g  tRNA synthetases class I (M)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   1.0      0.12   3.1e+02     266     281 ..      19      34 ..      10      43 .. 0.76
   2 !   60.4   0.0   4.8e-20   1.2e-16      13     135 ..      63     187 ..      55     192 .. 0.92
   3 !    8.1   0.0   0.00037      0.95     159     220 ..     182     241 ..     179     252 .. 0.88
   4 ?    2.3   0.0     0.022        57     156     206 ..     391     440 ..     373     453 .. 0.68
   5 !   21.6   0.1   2.9e-08   7.5e-05     264     361 ..     526     627 ..     486     642 .. 0.67

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 0.12
                              .TTSGGGG.G--S... CS
             tRNA-synt_1g 266 kgeeekwkeyWakdke 281
                              k+ e+kw++yW+++k 
  PHY93_19185|PHY93_19185  19 KDIEKKWQKYWEENKT 34 
                              45689******77665 PP

  == domain 2  score: 60.4 bits;  conditional E-value: 4.8e-20
                              ---HHHHHHHHHHHHHHHHHHHTT-EEEEEEEE---SHHHHHHHHHTTS-HHHHHHHHHHHHHHHHHHTT---S..EEEETTSHHH CS
             tRNA-synt_1g  13 klHlGhllevisaDifaRykrlrgeevlfvcgtDehGtpielkAekegvtpeelvekvheeikelfkklnisfd..kygrttseeh 96 
                               lH+Gh   + ++Di++Rykr+ g +vl+  g D++G p e  A k g++p+  ++k+ +++++++k+l+ s+d    + t++ + 
  PHY93_19185|PHY93_19185  63 GLHVGHPEGYTATDIMSRYKRMLGFNVLHPMGWDSFGLPAENYAMKTGTHPDITTKKNIATFTRQLKSLGFSYDwdREIATSNVDY 148
                              48******************************************************************999986226678999999 PP

                              HHHHHHHHHHHHHTT-EEEEEEEEEEETTTTEEE-GGG- CS
             tRNA-synt_1g  97 kelvqeifkklkekgliyekeieqlycpkderflpdryv 135
                              ++ +q if +l++kgl ye +i++ +cp+ ++ l++++v
  PHY93_19185|PHY93_19185 149 YKWTQWIFVQLYNKGLAYEDHINVNWCPNLKTVLANEEV 187
                              **********************************98875 PP

  == domain 3  score: 8.1 bits;  conditional E-value: 0.00037
                              -E................EEE.EEEEEE-GGGGHHHHHHHH.HH-TTSHHHHHHHH.HHHHT CS
             tRNA-synt_1g 159 leptelinpksaisgskpevketehlffklskfekklkewieeeekeleenvkkivkewlke 220
                              l  +e+++ ks + g+  + k+ +++++++ +++++l   i  ++ +++e++k++ ++w+ +
  PHY93_19185|PHY93_19185 182 LANEEVVDGKSEVGGHPVIQKKMNQWMLRITEYAERLLVDI--DDVDWPESIKEMQRNWIGK 241
                              677899*******************************9888..6667************965 PP

  == domain 4  score: 2.3 bits;  conditional E-value: 0.022
                              SSB-E................EEE.EEEEEE-GGGGHHHHHHHH.HH-TTS CS
             tRNA-synt_1g 156 gkkleptelinpksaisgskpevketehlffklskfekklkewieeeekel 206
                              g++++ +++ n +s+i g+k +++  e+  +  +k++ kl++wi ++++ +
  PHY93_19185|PHY93_19185 391 GAHIN-SDFLNGTSKIDGTKKMIEWLEQKKLGTKKINYKLRDWIFSRQRYW 440
                              34444.677788888888888888888888888888888888875555434 PP

  == domain 5  score: 21.6 bits;  conditional E-value: 2.9e-08
                              ...TTSGGGG.G--S......EEEEEGGGHHHHHT...HHHHHHHH....TT----S-EEEE--.EEE--------------HHHH CS
             tRNA-synt_1g 264 kkkgeeekwkeyWakdkevelvhfigkdiikFHti...fwPaillg....aelklpkkvvahey.ltvegkKlSkSrgvvvkakea 341
                              +k++ + + ++yW     v+l ++ g +    H +   fw  +l +    +  +  +k+v ++  l  +g+K+SkSrg+vv ++ +
  PHY93_19185|PHY93_19185 526 EKEPWNADIEKYWM---PVDL-YVGGAEHAVLHLLyarFWHKVLFDlgfvSTKEPFQKLVNQGLiLADDGEKMSKSRGNVVNPDSV 607
                              55555555566661...2222.3344555555544222566666665553333344556666651455799*************** PP

                              HHHH-HHHHHHHHHHHS-TT CS
             tRNA-synt_1g 342 lerldadllRYylaaeapek 361
                              + ++  d lR y +  +p +
  PHY93_19185|PHY93_19185 608 VSEYGGDSLRLYEMFMGPLE 627
                              ***********988877766 PP

>> Anticodon_1  Anticodon-binding domain of tRNA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.2   0.5   2.5e-21   6.3e-18       5     147 ..     667     778 ..     664     784 .. 0.84

  Alignments for each domain:
  == domain 1  score: 65.2 bits;  conditional E-value: 2.5e-21
              Anticodon_1   5 lselnklvkevteayeeyrfnkaasalyeffwndlcdwylelvkprlysesaedkraaqevllevletllrllaPfmPfitEelwq 90 
                              l+ l+k++k+vt +++++rfn+a+s l+ f+ +              y+        a +v +e +e ++ llaP++P+ +Ee+w 
  PHY93_19185|PHY93_19185 667 LKILHKTIKKVTHDFDNMRFNTAISTLMIFTNH-------------CYK--------AGTVTKETAEIFTLLLAPMAPHAAEEVW- 730
                              7789*************************9444.............344........449*************************. PP

              Anticodon_1  91 reeeelgkkesimlaewpe.kaeelekeleeeevellkeivkairklrselkikpsse 147
                                 e lg+k+++ +  wp  ++ +l  ++ +  +++   +v++++klr++l++ p  +
  PHY93_19185|PHY93_19185 731 ---EILGHKTTLAYHTWPIfNE-DL--AR-DDTITV---AVQVNGKLRATLEVEPGIT 778
                              ...9**************8444.33..22.335666...9*************99766 PP

>> tRNA-synt_1e  tRNA synthetases class I (C) catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.1   0.0    0.0046        12      21      50 ..      62      91 ..      59     172 .. 0.79
   2 !   10.6   0.0    0.0001      0.26     242     279 ..     581     619 ..     541     625 .. 0.85

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.0046
                             S--BHHHHHHHHHHHHHHHHHHHTT-EEEE CS
             tRNA-synt_1e 21 dashlGhaRslvafDilrrilqalgYdvqf 50
                             d  h+Gh   + a+Di+ r+ ++lg++v +
  PHY93_19185|PHY93_19185 62 DGLHVGHPEGYTATDIMSRYKRMLGFNVLH 91
                             668************************965 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 0.0001
                              EEE--EEE.TTBE--TTTT---BHHHHHTTS-HHHHHHH CS
             tRNA-synt_1e 242 lhnghlki.egekmsksLknfitikdvlkkfdprqlRll 279
                              + +g +   +gekmsks +n++    v+ ++ +  lRl+
  PHY93_19185|PHY93_19185 581 VNQGLILAdDGEKMSKSRGNVVNPDSVVSEYGGDSLRLY 619
                              55565544279**************************97 PP

>> tRNA-synt_1f  tRNA synthetases class I (K)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -4.1   0.5       2.2   5.6e+03     312     346 ..       9      42 ..       7      51 .. 0.73
   2 ?    0.2   0.0       0.1   2.7e+02      75     125 ..     333     383 ..     331     394 .. 0.87
   3 !   11.6   0.0   3.7e-05     0.094     273     315 ..     585     627 ..     571     709 .. 0.87

  Alignments for each domain:
  == domain 1  score: -4.1 bits;  conditional E-value: 2.2
             tRNA-synt_1f 312 kPkkakkldldleilrlvdeYdklerkyfaeqeee 346
                               P+++++ +++ +i +    Y++ ++ + ++++++
  PHY93_19185|PHY93_19185   9 SPENKIEYNFK-DIEKKWQKYWEENKTFKTDNPSK 42 
                              78999999999.99999999999777776554444 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.1
             tRNA-synt_1f  75 RkvpenlpekllekylgkpltsiPdpkgkhesyaehfnaelvesLdelgie 125
                              +k+p  + + +l++y + ++ s+P+ +++  ++a+++n ++v++L+  +ie
  PHY93_19185|PHY93_19185 333 KKIPVWIADYVLATYGTGAIMSVPAHDERDFEFAQKYNLPIVQVLEGGNIE 383
                              5777777777889999999*************************9976665 PP

  == domain 3  score: 11.6 bits;  conditional E-value: 3.7e-05
             tRNA-synt_1f 273 lillkggekmssSkGnvltledwlevaepevlrflilrrkPkk 315
                              lil + gekms+S+Gnv+ ++ +++ +  ++lr++ +   P +
  PHY93_19185|PHY93_19185 585 LILADDGEKMSKSRGNVVNPDSVVSEYGGDSLRLYEMFMGPLE 627
                              78899999*****************999999998855445544 PP

>> S4  S4 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.0   0.00031      0.78       5      29 ..     563     587 ..     562     590 .. 0.94
   2 ?   -1.9   0.0       1.1   2.9e+03      28      34 ..     761     767 ..     760     769 .. 0.84

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00031
                              HHHHHTTSSSSHHHHHHHHHTTTEE CS
                       S4   5 kvlarlglassrreArqlIehGrVl 29 
                              kvl+ lg++s++   ++l+++G +l
  PHY93_19185|PHY93_19185 563 KVLFDLGFVSTKEPFQKLVNQGLIL 587
                              89********************996 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 1.1
                              EEETTEE CS
                       S4  28 VlVNGkv 34 
                              V+VNGk 
  PHY93_19185|PHY93_19185 761 VQVNGKL 767
                              9****96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (815 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       714  (0.0398237); expected 358.6 (0.02)
Passed bias filter:                      566  (0.031569); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.79u 0.28s 00:00:01.07 Elapsed: 00:00:00.51
# Mc/sec: 4836.51
//
Query:       PHY93_19190|PHY93_19190  [L=166]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-11   45.1   0.0    1.5e-11   44.7   0.0    1.1  1  CTP_transf_like  Cytidylyltransferase-like
      0.009   15.5   0.0          3    7.2   0.0    2.1  2  ATP-sulfurylase  ATP-sulfurylase
  ------ inclusion threshold ------
      0.029   14.4   0.0      0.078   13.0   0.0    1.7  1  KIX_2            KIX domain
       0.18   11.7   0.0        0.4   10.6   0.0    1.5  1  DUF3072          Protein of unknown function (DUF3072)


Domain annotation for each model (and alignments):
>> CTP_transf_like  Cytidylyltransferase-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.7   0.0   3.4e-15   1.5e-11       6     142 ..      12     137 ..       8     138 .. 0.83

  Alignments for each domain:
  == domain 1  score: 44.7 bits;  conditional E-value: 3.4e-15
                              -TT--HHHHHHHHHHHHHSSESEEEEEESSTHCSST-SCSSTHHHHHHHHHHHTTCTTEEEEEEESEHH......HHHHHTTTTEE CS
          CTP_transf_like   6 FDpiHlGHlrlleqakklleedlivgvpsdeppkkkkkplasaeeRlemlelakevdevisvdpweltr......evlkklkpdkl 85 
                               +p+  GH++++ +a+ ++e+ +i  v+  +p k++   ++++eeRlem++++ +  +    +  e+        ++ +++++   
  PHY93_19190|PHY93_19190  12 ANPPSWGHADIMMRAATHFEK-II-WVAATNPQKSY---MFTLEERLEMMRAYVDYYK---LKNVEICShagtiaRFAEEKGAT-- 87 
                              69******************9.55.58888888877...9*************44444...344444444447779********.. PP

                              EEEEEHHHHHHHHCHHHHHHHHHHHHHEEEEEEHTTCEEEEEEECCTTTCSHHHHHH CS
          CTP_transf_like  86 ylvigadvledfsewkeleeilgnvklvvvsrpekqanvllkaekrtngiSstkire 142
                              +l++g ++ +d     ele  +gn+++  + ++     + l a+++   iSst ire
  PHY93_19190|PHY93_19190  88 FLLRGLRNSSDY--QMELELSVGNRGINKELET-----ICLFAKPHFATISSTLIRE 137
                              ********9998..779999*******999888.....77777788888*******8 PP

>> ATP-sulfurylase  ATP-sulfurylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.7   0.0   0.00099       4.4      28     102 ..      12      85 ..       3      96 .. 0.81
   2 !    7.2   0.0   0.00068         3     172     210 ..     120     159 ..      99     161 .. 0.82

  Alignments for each domain:
  == domain 1  score: 6.7 bits;  conditional E-value: 0.00099
                              SS---HHHHHHHHHHHHHTSEEEEEEEB-SB-STTSTTHHHHHHHHHHHHHHHS-GGGEEE-BB-SB---SCHHH CS
          ATP-sulfurylase  28 rnplHraHeellkraleeeadglllhplvgptkpgdvpaevrvrayealieeylpkdrvvlallplamryaGprE 102
                               np+  +H+ ++ ra++ + + ++  +   p+k+  +  e r++ ++a +++y  k++ + +   +  r+a  ++
  PHY93_19190|PHY93_19190  12 ANPPSWGHADIMMRAAT-HFEKIIWVAATNPQKSYMFTLEERLEMMRAYVDYYKLKNVEICSHAGTIARFAEEKG 85 
                              79***************.5777888889************************76666666666666666665555 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.00068
                              C.GCCGGEEE--HHHHHCCHHTT----TTTS-HHHHHHHH CS
          ATP-sulfurylase 172 c.hkkeevesisgtelrkllregeeipewfsrpevlkvLr 210
                              c   k ++ +is+t +r+l++ +e+i++ ++   + k+L+
  PHY93_19190|PHY93_19190 120 ClFAKPHFATISSTLIRELAQLNERIDQYVMPSIAKKILH 159
                              565677999*****************99999877767765 PP

>> KIX_2  KIX domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   1.7e-05     0.078      39      73 ..      23      58 ..      12      62 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 1.7e-05
                    KIX_2 39 lkkiAvrFEekiFskAts.kedYlrkislKmlqmet 73
                             +++ A  FE+ i+ +At+ +++Y+ +++++++ m+ 
  PHY93_19190|PHY93_19190 23 MMRAATHFEKIIWVAATNpQKSYMFTLEERLEMMRA 58
                             7899***********999799**********99986 PP

>> DUF3072  Protein of unknown function (DUF3072)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   8.9e-05       0.4      15      33 ..      38      56 ..      37      64 .. 0.83

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 8.9e-05
                  DUF3072 15 mTgaQaSYLktLaeeAgee 33
                             +T++Q+SY+ tL+e+ +  
  PHY93_19190|PHY93_19190 38 ATNPQKSYMFTLEERLEMM 56
                             79***********997665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (166 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       645  (0.0359752); expected 358.6 (0.02)
Passed bias filter:                      532  (0.0296726); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1243.29
//
Query:       PHY93_19195|PHY93_19195  [L=188]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      4e-35  121.3   0.0    4.7e-35  121.1   0.0    1.0  1  Flavodoxin_2  Flavodoxin-like fold
    1.8e-15   57.0   0.0    2.1e-15   56.8   0.0    1.2  1  FMN_red       NADPH-dependent FMN reductase


Domain annotation for each model (and alignments):
>> Flavodoxin_2  Flavodoxin-like fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  121.1   0.0   5.2e-39   4.7e-35       1     187 [.       1     175 [.       1     185 [. 0.84

  Alignments for each domain:
  == domain 1  score: 121.1 bits;  conditional E-value: 5.2e-39
                              -EEEEEE--TTGGCCHHHCHHHHHHHHHCCCTTTEEEEEEHHCC.T-----CCCCHCCHHHHTT.CHHHHHHHHHHHHCSSEEEEE CS
             Flavodoxin_2   1 mkiLiinahprpeksfssalaqafvealekagphevtvrdLyad.flpvlttrdlaaklayeek.padveseqiekllaadaivlq 84 
                              m++Lii +hp++ +sf+s+la+++  +++++g  +v  ++L ++ f+p l+        + ++  ++d  + q   +++a ++v++
  PHY93_19195|PHY93_19195   1 MRTLIILGHPDK-SSFCSRLADSYEHGAKEKG-GDVMRINLIDLkFDPILKS------VNRPQSlEPDLMEAQ-RLIKWANHLVFV 77 
                              99**********.6******************.99***************98......466676559999999.9*********** PP

                              EE-BTTB--HHHHHHHHHHS-TTTSC.EETTCSSCCCCTTTTSEEEEEEEESS-GGGSSTTSSS-S-HHHHHHHHHHHHHHTT-EE CS
             Flavodoxin_2  85 fPlwwfgvPailKgwiDrvltagfaf.yteeggegrgggLkgkkalvivttGgpeesyqerglegaamdellpplrgilgfiGikd 169
                              fP+ww   Pa+lKg+iDr++ ++faf   e++ +  +++L+g++a+ i+t+ +p    +    + ++   ++   +++l+++G+ +
  PHY93_19195|PHY93_19195  78 FPVWWSAPPALLKGFIDRIFLPNFAFkLRENS-SMWDKLLTGRSARMIMTSDAPVVWLHL--AYFHPAVNMM--KKATLEYCGVGP 158
                              **************************666666.67899****************555442..2333444444..8*********** PP

                              EEEEEEESCTCCCHHHHH CS
             Flavodoxin_2 170 vepvlvegvagaedeeal 187
                              v ++ +  ++ a+ e+++
  PHY93_19195|PHY93_19195 159 VSVTNFGSMKRAD-EKKR 175
                              ******8875444.3333 PP

>> FMN_red  NADPH-dependent FMN reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.8   0.0   2.4e-19   2.1e-15       1     101 [.       1     106 [.       1     146 [. 0.87

  Alignments for each domain:
  == domain 1  score: 56.8 bits;  conditional E-value: 2.4e-19
                              -EEEEEES--STT-HHHHHHHHHHCCT-T.T-CEEEEETTTS..--..---HCHGHTCGGSHHHHHHHHHHHH-SCEEEEEEECTT CS
                  FMN_red   1 mkilvisGSlrkgsntrklaewaaealkeagaevelidladl.ilpcalcdkdlesegqtsddvaellekiaaadaliivtPeYng 85 
                              m+ l+i G + k s++ +la+  +  +ke+g +v  i+l dl   p  +++   + +++  +d+ e+ + i++a  l++v P+++ 
  PHY93_19195|PHY93_19195   1 MRTLIILGHPDKSSFCSRLADSYEHGAKEKGGDVMRINLIDLkFDP--ILK-SVNRPQSLEPDLMEAQRLIKWANHLVFVFPVWWS 83 
                              999***************************9999999999997777..444.7766799*************************** PP

                              CE-HHHHHHHHCHT-........ CS
                  FMN_red  86 sysgllKnalDrlsr.......t 101
                               +++llK ++Dr+         +
  PHY93_19195|PHY93_19195  84 APPALLKGFIDRIFLpnfafklR 106
                              ************98766666653 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (188 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       264  (0.0147247); expected 358.6 (0.02)
Passed bias filter:                      256  (0.0142785); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.37
# Mc/sec: 1515.93
//
Query:       PHY93_19200|PHY93_19200  [L=262]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      5e-29  100.9   0.6    1.9e-28   99.0   0.6    1.7  1  YkuD_2    L,D-transpeptidase catalytic domain
  ------ inclusion threshold ------
      0.059   13.5   0.0       0.12   12.6   0.0    1.4  1  Sod_Fe_C  Iron/manganese superoxide dismutases, C-terminal do
      0.075   13.5   0.0       0.13   12.7   0.0    1.3  1  YkuD      L,D-transpeptidase catalytic domain


Domain annotation for each model (and alignments):
>> YkuD_2  L,D-transpeptidase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   99.0   0.6   3.2e-32   1.9e-28      27     163 ..      81     225 ..      62     227 .. 0.87

  Alignments for each domain:
  == domain 1  score: 99.0 bits;  conditional E-value: 3.2e-32
                   YkuD_2  27 kkkltiiDfskpStekRlfviDlkkkkllletlvahGkn.........sgen....latkFsneegSkksslGfyktget.ykgkh 98 
                              ++ ++iiD+  +S ++R+f+iD k++++  +  vahG+          ++++      + +sn  +S +ss Gf+  g+    +++
  PHY93_19200|PHY93_19200  81 TRYFAIIDYLVNSDQERMFLIDRKTGEI-SKMAVAHGRYkagffntklEDKKnsikEIKYYSNVINSMASSSGFFIAGQDfEASDF 165
                              33499**********************9.7888****98766766655333367667789*****************99857899* PP

                   YkuD_2  99 GlslrLeGlekgiNdnAreRaivlHgadyvseefikklgrlgrSlGCpavseelakkiiellkeg 163
                              G+sl ++Gle+giNdnA eR++v+H    ++++ ++ l     S GC +vs++l++++i+llk++
  PHY93_19200|PHY93_19200 166 GRSLVIHGLEEGINDNACERDVVIHKHFLMTKSKAHML-----SSGCLMVSPKLIDNVIDLLKGT 225
                              ***************************99999887754.....*******************975 PP

>> Sod_Fe_C  Iron/manganese superoxide dismutases, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   1.9e-05      0.12       7      79 ..      15      89 ..      12      97 .. 0.74

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 1.9e-05
                             HHHHHHHSSHHHHHHHHHHHHHHSSSSEEEEEEEETTT..EEEEEEEETTTBGGGGTTCEEEEEE-SGGGTHHHH CS
                 Sod_Fe_C  7 eaieedfgslekfkkefkaaalavfgsGwawLvldkkk..kLeivttknqdnplvkeakplLalDvwehAYyldy 79
                             + +++d+ s ++++++f++ + + ++ G++   ++k++  k+++ + + ++      akp+++lD   +  ++dy
  PHY93_19200|PHY93_19200 15 STVKADYLSWDELQNQFNKVSKNPKAMGHVKCFFEKHEkdKFQLKNPTSEEVLNRCYAKPIIGLDSTRYFAIIDY 89
                             57899************************999998874334544444444433333467*****97666555555 PP

>> YkuD  L,D-transpeptidase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   2.2e-05      0.13       5     139 ..      90     223 ..      87     241 .. 0.69

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 2.2e-05
                              EEETTTTEEEEEEETTEEEEEEE-BEBTTS.TTSE---EEEEEC.......EEEEEEE..EEGGGGT--TTSTT.EEEEEEEECCC CS
                     YkuD   5 vvdlaeqrllvlyengklvlsfpvsvGgkkegdreTPlGtfrik.......skvrnptwnvppsiarkeiypklrkdpeyldkkns 83 
                              +v+ +++r++++ ++ +++ ++ v+ G +         G f  k        k+ + ++nv +s a  + ++ +++d e++d+ +s
  PHY93_19200|PHY93_19200  90 LVNSDQERMFLIDRKTGEISKMAVAHG-R------YKAGFFNTKledkknsIKEIKYYSNVINSMASSSGFFIAGQDFEASDFGRS 168
                              5888887997778888899********.3......3333333333333333678888999***************99999998777 PP

                              TT..CECCCCEEE-STTS-EEEE.ETCSS...CT......HHC....BSSSEEE-HHHHHHHHHHHH CS
                     YkuD  84 kv..algkvkfvfpngsgiyiHgtgapdlfergk......garr...ShGCirlseedakelyelvl 139
                               v   l +        +++ iH           +      +  +   S+GC  +s++ +  + +l++
  PHY93_19200|PHY93_19200 169 LVihGLEEGINDNACERDVVIHK----------HflmtksK--AhmlSSGCLMVSPKLIDNVIDLLK 223
                              77554444445555567788882..........13444331..2346*****999988877777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (262 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       752  (0.0419432); expected 358.6 (0.02)
Passed bias filter:                      573  (0.0319594); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.19s 00:00:00.67 Elapsed: 00:00:00.37
# Mc/sec: 2106.17
//
Query:       PHY93_16360|PHY93_16360  [L=287]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.068   13.5   3.4       0.15   12.4   3.4    1.5  1  Endotoxin_C2  Delta endotoxin
       0.21   11.7   3.9        0.9    9.6   0.0    3.0  3  DUF916        Bacterial protein of unknown function (DUF916)


Domain annotation for each model (and alignments):
>> Endotoxin_C2  Delta endotoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   3.4   1.7e-05      0.15      26      63 .]      82     120 ..      77     120 .. 0.91

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 1.7e-05
             Endotoxin_C2  26 ttqaaIdaAqalVdkvtd.stkKaeLqadidkAqelLda 63 
                              +  +aI +   l ++v++ +++Ka+L +++++A+++L++
  PHY93_16360|PHY93_16360  82 MAREAIAKTTSLMNQVQNsEEEKAALIKKLAEAENQLKT 120
                              5678999***********999****************85 PP

>> DUF916  Bacterial protein of unknown function (DUF916)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.2     0.036   3.2e+02       9      22 ..      26      39 ..       4      43 .. 0.85
   2 ?   -0.3   0.3      0.12   1.1e+03      27      54 ..      89     116 ..      82     144 .. 0.71
   3 ?    9.6   0.0    0.0001       0.9      15      65 ..     190     240 ..     186     256 .. 0.90

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.036
                   DUF916  9 enqidkkksYFdLk 22
                              nq++++ +YF+Lk
  PHY93_16360|PHY93_16360 26 YNQKNDSPKYFELK 39
                             58999999999998 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.12
                   DUF916  27 qeqelevkikNssdkeitveitvntAvT 54 
                              ++++l  +++Ns++++  +  ++ +A +
  PHY93_16360|PHY93_16360  89 KTTSLMNQVQNSEEEKAALIKKLAEAEN 116
                              5566777788888877776666666654 PP

  == domain 3  score: 9.6 bits;  conditional E-value: 0.0001
                   DUF916  15 kksYFdLkvkpgqeqelevkikNssdkeitveitvntAvTndnGvidYsks 65 
                              +++ F++++ pg e++l  +i    ++e+t+++  ++A + ++ +i+Ys+ 
  PHY93_16360|PHY93_16360 190 DTTNFQFNIIPGGENKLAGHIIVLMKNELTIQVYPQQALSGSDTQINYSSG 240
                              56789*******************************************965 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (287 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1390  (0.077528); expected 358.6 (0.02)
Passed bias filter:                      852  (0.0475208); expected 358.6 (0.02)
Passed Vit filter:                       100  (0.00557756); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.39
# Mc/sec: 2234.20
//
Query:       PHY93_16725|PHY93_16725  [L=458]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.8e-38  131.4  21.5    3.8e-38  131.4  21.5    1.7  2  Proton_antipo_M  Proton-conducting membrane transporter


Domain annotation for each model (and alignments):
>> Proton_antipo_M  Proton-conducting membrane transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.6   0.6      0.28     5e+03      14      49 ..      74     109 ..      67     110 .. 0.48
   2 !  131.4  21.5   2.1e-42   3.8e-38       1     290 [.     112     402 ..     112     405 .. 0.85

  Alignments for each domain:
  == domain 1  score: -3.6 bits;  conditional E-value: 0.28
          Proton_antipo_M  14 vllplylLiglwkkkpksleAslklflltllgsliL 49 
                              v++  +l+i +++++  +   s  l+ + +lg ++L
  PHY93_16725|PHY93_16725  74 VSILNILMILINGYQSIEKVKSTLLVSYMFLGGVFL 109
                              444445555555555444444444444555555554 PP

  == domain 2  score: 131.4 bits;  conditional E-value: 2.1e-42
          Proton_antipo_M   1 andLlllylglElvllplylLiglwkkkpksleAslklflltllgsliLLlgilllynltgtlefeelskalelglnslellllll 86 
                              an+L+++y++lE + l+ y L++   + + s eA++k+++ +++ s i+L+g +  +++tg l +     +     n+    ++l 
  PHY93_16725|PHY93_16725 112 ANELITFYVALETIALVGYALVATS-DLEYSREAAVKYLIQGSVVSAIFLVGAAFYLGATGGLTLVGATVN-----NQELYAVALG 191
                              79********************998.56699******************************5555444333.....5555556666 PP

          Proton_antipo_M  87 lllvgllvKsaqvplhlWlpday...veaPtpvsallAatlvkagvlllirllllla..vssneisqlllilaiismllgslvala 167
                              ++++++ +K++++p+h W++d+y     + ++   ++A ++     + li++ll     +++ ++  ++ ++a++s+++g+++a++
  PHY93_16725|PHY93_16725 192 IFILTACFKLGAFPFHAWIADVYsnvTDGNLATNFFIAKIIIGFKFITLIQVLLQSCdpHFADILIRIIQVIAVMSAFYGNIMAIV 277
                              677899****************93323467777888899999999999998877766788999999999***************** PP

          Proton_antipo_M 168 qtdiKrllAySsishlGymlialavatqygve.aaiihllthalfkallFllagsviyerektrdirayggLakkmPilalvllvl 252
                              q + Kr++AySs++h Gyml+ + ++  +++e  +i +l++++l+  ++ ++ +++ + +++ ++ + + + + ++  lal+l+v+
  PHY93_16725|PHY93_16725 278 QGQFKRIIAYSSVAHTGYMLMMMCLNPDEAYEkQLISYLVMYSLTATGVIMILNQFARLNKNKDNHEILVSGFYRNKGLALLLVVC 363
                              ************************97777775167789***************99988888888888887777889999******* PP

          Proton_antipo_M 253 llslaGlPptagFlskfliLeaavavslillvla.vvas 290
                              +lsl+G+P+t+gF  k +++++ ++ +  + ++  +++s
  PHY93_16725|PHY93_16725 364 VLSLGGIPLTSGFSMKYMLFTNYFKEGFTIEATSiFISS 402
                              **********************99877665544435555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (458 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       816  (0.0455129); expected 358.6 (0.02)
Passed bias filter:                      262  (0.0146132); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.18s 00:00:00.69 Elapsed: 00:00:00.35
# Mc/sec: 3949.87
//
Query:       PHY93_19205|PHY93_19205  [L=267]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.8e-36  125.7   0.1    2.1e-36  125.6   0.1    1.1  1  ThiF             ThiF family
     0.0012   19.2   0.1     0.0024   18.3   0.1    1.4  1  NAD_binding_7    Putative NAD(P)-binding
  ------ inclusion threshold ------
      0.015   15.6   1.0      0.032   14.5   1.0    1.5  1  Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding doma
      0.016   14.7   0.2      0.027   13.9   0.2    1.4  1  Spermine_synth   Spermine/spermidine synthase domain
      0.018   14.3   0.0      0.021   14.1   0.0    1.1  1  FAD_binding_3    FAD binding domain
      0.022   14.4   1.5      0.031   13.9   1.5    1.2  1  DAO              FAD dependent oxidoreductase
      0.043   13.4   0.2      0.059   12.9   0.2    1.3  1  UDPG_MGDP_dh_N   UDP-glucose/GDP-mannose dehydrogenase family
      0.044   13.0   0.1      0.059   12.6   0.1    1.2  1  Pyr_redox_2      Pyridine nucleotide-disulphide oxidoreductas


Domain annotation for each model (and alignments):
>> ThiF  ThiF family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  125.6   0.1   9.2e-40   2.1e-36       9     171 ..      21     185 ..      10     266 .. 0.77

  Alignments for each domain:
  == domain 1  score: 125.6 bits;  conditional E-value: 9.2e-40
                              HH.HHHHHHHTSEEEEE--SHHHHHHHHHHHHHTTTEEEEEESSB--GGGGGTBTTS-GGGTTSBHHHHHHHHHHHT-TTSEEEEE CS
                              xx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     ThiF   9 ge.dgqekLrdskvllvGaGglGsellknLalsGvgkltlvDnDkielsNlnRqflfreediGkpKaevaaealqeinpdveveav 93 
                              +  +g++kL +s+vl+vG+Gg+G +++++La+sGvg +tlvD D i ++N+nRq+ + +  iG  K++++ +++ +inp+++v+++
  PHY93_19205|PHY93_19205  21 YGlEGLKKLLHSHVLVVGLGGVGTWAAEALARSGVGAITLVDLDDICITNTNRQIHAHDGMIGVMKVKAISDRILAINPQCKVSTI 106
                              44499********************************************************************************* PP

                              ES-CCGCCS-HHHHTT-SEEEEESSSHHHHHHHHHHHHHHT-EEEEEEEETTEEEEEEE.EECCS-ECTSS-T..GGS.EE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxx..xxxxxx RF
                     ThiF  94 teritdetvleellesvDlVvdalDniearrlvnracvkkgiplieagtlgfegqvvvi.ipgktgcyeCldp..sstedp 171
                              ++ +t++t++  l +++D+V+da+D+++ +  ++++c++k  pli +g ++ + +  +i i  ++  + C+d   +s +++
  PHY93_19205|PHY93_19205 107 EDFFTASTAEMILDQKYDYVIDAIDSLQNKCVLASKCREKNFPLIVTGGAAGKRNPSMIkI--DDLGLACNDSllFSLRKR 185
                              ******87444455778*****************************************954..455566666333333333 PP

>> NAD_binding_7  Putative NAD(P)-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.1   1.1e-06    0.0024       7      92 ..      31     153 ..      27     158 .. 0.66

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 1.1e-06
            NAD_binding_7   7 gkkvlvvGgGevAarkvrklleag.akvtvvapev..keele.....................elvklaeee.............. 54 
                                +vlvvG G v++  ++ l+++g   +t+v+ +      ++                     +                      
  PHY93_19205|PHY93_19205  31 HSHVLVVGLGGVGTWAAEALARSGvGAITLVDLDDicI--TNtnrqihahdgmigvmkvkaisD-------Rilainpqckvstie 107
                              579*********************778****9996441..333333444555554444433331.......133333333433333 PP

            NAD_binding_7  55 ..lekd.......leg.adlviaatddrelneriaeaakarrilvnva 92 
                                +          l++ +d vi a+d  + +  +a ++++++ ++ v+
  PHY93_19205|PHY93_19205 108 dfF--TastaemiLDQkYDYVIDAIDSLQNKCVLASKCREKNFPLIVT 153
                              332..03344444443499*******9999999********9998765 PP

>> Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   1.0   1.4e-05     0.032       1     101 [.      34     130 ..      34     153 .. 0.72

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 1.4e-05
                              EEEE--SHHHHHHHHHHHCTCCT-GEEEEEESSHHHHHHHHCHHTTTCEEEEE--TTTHHHHHHHHHTTS.SEEEE-SSGGGHHHH CS
          Sacchrp_dh_NADP   1 vliiGaGsvGqavaellarhfdvdaeitvadrskeklealaakalgvrfeaialdaenyeavLaallkeg.dlvvnlsppissldv 85 
                              vl++G G+vG  +ae lar++     it++d ++    ++    +++ ++   + +++++a+ +++l+ + +  v+ + ++++++ 
  PHY93_19205|PHY93_19205  34 VLVVGLGGVGTWAAEALARSGVG--AITLVDLDDICITNTN---RQIHAHDGMIGVMKVKAISDRILAINpQCKVSTIEDFFTAST 114
                              89******************976..9**********77776...566666666666666666666666666777777777777777 PP

                              HHHHHHHT-EEEESS- CS
          Sacchrp_dh_NADP  86 lkaCietgvhyvdtsi 101
                              +++ ++++ +yv  +i
  PHY93_19205|PHY93_19205 115 AEMILDQKYDYVIDAI 130
                              7777777777765444 PP

>> Spermine_synth  Spermine/spermidine synthase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.2   1.2e-05     0.027      20      98 ..      32     128 ..      20     149 .. 0.74

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 1.2e-05
                              -EEEEES.STTSHHHHHHTTSTT-SEEEEEES-HHHHHHHHHHSHHHHTT.............CGGCTTEEE.EESTCHHHHCTCS CS
           Spermine_synth  20 kevLiiG.GgDGgvlrevvkhntvekitlvdiDqkvidfskkflpslais.............afndarvkl.vlgdgfkflkaye 90 
                               +vL++G Gg G  + e +  + v  itlvd+D   i    + +  + +                 ++++k+  ++d f+  +a  
  PHY93_19205|PHY93_19205  32 SHVLVVGlGGVGTWAAEALARSGVGAITLVDLDDICITNTNRQIHAHDGMigvmkvkaisdriLAINPQCKVsTIEDFFTASTAEM 117
                              59*****9999******999999**********988765444444433333344444666666344599***99***999877755 PP

                              S...-EEEEEE CS
           Spermine_synth  91 k...kfdvviv 98 
                                  k+d+vi 
  PHY93_19205|PHY93_19205 118 IldqKYDYVID 128
                              56689***983 PP

>> FAD_binding_3  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   9.4e-06     0.021       3      66 ..      33      98 ..      31     143 .. 0.79

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 9.4e-06
                             EEEEE--SHHHHHHHHHHHHTTHH.EEEEESSSSSCCSS.S--EEEHHHHHHHHHTT-HHHHHHHS CS
            FAD_binding_3  3 dVlIVGaGpaGlmlallLseaGvr.vvlvekrsttvvlp.radglnqrtmellrqlGledrilaeg 66
                              Vl+VG G +G  +a  L++ Gv   +lv+  +  + ++ r    ++ ++ +++   + drila  
  PHY93_19205|PHY93_19205 33 HVLVVGLGGVGTWAAEALARSGVGaITLVDLDDICITNTnRQIHAHDGMIGVMKVKAISDRILAIN 98
                             7**********************9566777776666555688888899999999888888888755 PP

>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   1.5   1.4e-05     0.031       1      32 [.      33      67 ..      33      80 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 1.4e-05
                             EEEEECTSHHHHHHHHHHHHTT...EEEEESSSST CS
                      DAO  1 dvviiGGGiiGlstAyeLarrg...Vtllekgdia 32
                             +v+++G G +G ++A +Lar g   +tl++ +di+
  PHY93_19205|PHY93_19205 33 HVLVVGLGGVGTWAAEALARSGvgaITLVDLDDIC 67
                             79*****************99888******98554 PP

>> UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.2   2.6e-05     0.059       3      42 ..      34      74 ..      32     135 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 2.6e-05
                             EEEE--STTHHHHHHHHHHCT.SEEEEE-S-HHHHHHHCTT CS
           UDPG_MGDP_dh_N  3 isviGlGYvGlvtaavlaeig.hevigvDideekvdklnsg 42
                             + v+GlG vG   a +la+ g   +++vD d+  + + n++
  PHY93_19205|PHY93_19205 34 VLVVGLGGVGTWAAEALARSGvGAITLVDLDDICITNTNRQ 74
                             78*******************66899******999998875 PP

>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.1   2.6e-05     0.059       2      58 ..      33     101 ..      32     159 .. 0.67

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 2.6e-05
                              SEEEE--SHHHHHHHHHHHHH.TS-EEEEETTHCHHHCSHHH...HCHHHHHHHHHHHHH........H CS
                              xxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxx........x RF
              Pyr_redox_2   2 dvvviGgGpAGlaaaltlaqa.gakvtlvelegtclnggcll...skallgvaedaeias........e 58 
                              +v+v+G G  G++aa+ la++  + +tlv+l++ c +++      +  + gv++ + i           
  PHY93_19205|PHY93_19205  33 HVLVVGLGGVGTWAAEALARSgVGAITLVDLDDICITNTNRQihaHDGMIGVMKVKAISDrilainpqC 101
                              799*****************73679****9888887654333222556666666665554555555440 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (267 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       565  (0.0315132); expected 358.6 (0.02)
Passed bias filter:                      493  (0.0274974); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.48u 0.19s 00:00:00.67 Elapsed: 00:00:00.36
# Mc/sec: 2212.12
//
Query:       PHY93_19210|PHY93_19210  [L=236]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.7e-31  109.0  15.0    3.1e-31  108.8  15.0    1.0  1  DUF1275       Protein of unknown function (DUF1275)


Domain annotation for each model (and alignments):
>> DUF1275  Protein of unknown function (DUF1275)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  108.8  15.0   1.7e-35   3.1e-31       3     191 ..      18     230 ..      16     231 .. 0.84

  Alignments for each domain:
  == domain 1  score: 108.8 bits;  conditional E-value: 1.7e-35
                  DUF1275   3 lllafvaGllDavaflaaggvfvsaqTGNtvllglalaegnakaalaalvsllaFvlGaalagllarrg...grrrrlvllle..a 83 
                              +llaf +G+l++ ++l +++ fvs++TG  +l g++ a+++ ++++  l+  ++Fv+Ga+l+++  +r     +  r+  +++  +
  PHY93_19210|PHY93_19210  18 FLLAFQGGALNSGGYL-SVHRFVSHVTGFATLAGVDGARQHSSEMFGMLLVPVFFVFGAMLSAWSIERQrirEKSPRYSFVFSiiI 102
                              79*************7.*******************9888888888888889***********88866446633446666666446 PP

                  DUF1275  84 llllaaallvpagsvsp...........lalallafamGlqnalfsrlsgaeitttvlTgnltdlgidlarll.kkrk......la 151
                              + ll +a+ +++g   +           ++l+ll+f +Glqna++s  sga i+tt+lTg++td+gi+l+r++ +++k      +a
  PHY93_19210|PHY93_19210 103 INLLFIAIYGSTGYFGEfgepfnfgrdyFLLFLLSFTCGLQNAVISSASGAVIRTTHLTGLTTDFGIGLVRIWtTRKKlhkpevFA 188
                              66666666666555444899999999999********************************************6333355677755 PP

                  DUF1275 152 rnrrlaiilafllGavvGallvks..aaalwlaaallllval 191
                               + rl+i+++f+lG++vGa+++ +  +  ++l++ + l+va+
  PHY93_19210|PHY93_19210 189 TWCRLGIFISFFLGSLVGAVAYFQlqFLGFFLPVFISLFVAI 230
                              889*******************99998899999988888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (236 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       702  (0.0391544); expected 358.6 (0.02)
Passed bias filter:                      304  (0.0169558); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.19s 00:00:00.63 Elapsed: 00:00:00.36
# Mc/sec: 1984.96
//
Query:       PHY93_09805|PHY93_09805  [L=80]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (80 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1364  (0.0760779); expected 358.6 (0.02)
Passed bias filter:                      533  (0.0297284); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.37u 0.19s 00:00:00.56 Elapsed: 00:00:00.34
# Mc/sec: 697.61
//
Query:       PHY93_09810|PHY93_09810  [L=95]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.3e-19   67.5   0.4    8.5e-19   67.3   0.4    1.1  1  Fer2      2Fe-2S iron-sulfur cluster binding domain


Domain annotation for each model (and alignments):
>> Fer2  2Fe-2S iron-sulfur cluster binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.3   0.4   4.7e-23   8.5e-19       3      77 ..      11      83 ..       9      84 .. 0.93

  Alignments for each domain:
  == domain 1  score: 67.3 bits;  conditional E-value: 4.7e-23
                             TTTEEEEEEEETTTHBHHHHHHHTTTTTSTTSSSSSSSSTTEEEEEESCE.CTTSSSSTHHHHHTTEEEEGGGSEE CS
                     Fer2  3 idgkevevevadgettlldaaeenggidipysCggggCgtClvevlegev.qsdetelegeeldegklrlaCqtiv 77
                             + g+e  +e+ad+++ +ld ae++ g+d+p sC++g C+tC+ ++leg+v  s++t+l++++ ++g++ l C++++
  PHY93_09810|PHY93_09810 11 PSGTEKIIECADNQY-ILDTAESA-GLDLPSSCRAGVCSTCAGKILEGKVnNSEQTYLDEDQIKQGFV-LICVAYP 83
                             57999**********.******99.*************************7777********988888.****998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (95 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       495  (0.0276089); expected 358.6 (0.02)
Passed bias filter:                      347  (0.0193541); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.34u 0.21s 00:00:00.55 Elapsed: 00:00:00.34
# Mc/sec: 839.13
//
Query:       PHY93_09815|PHY93_09815  [L=297]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    9.8e-14   52.5   0.0    1.4e-13   52.0   0.0    1.2  1  Trypsin_2      Trypsin-like peptidase domain
    1.8e-11   44.3   2.3    1.3e-10   41.5   2.3    2.0  1  Trypsin        Trypsin
     0.0016   17.2   3.4     0.0038   15.9   0.2    2.1  2  Peptidase_S46  Peptidase S46


Domain annotation for each model (and alignments):
>> Trypsin_2  Trypsin-like peptidase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.0   0.0   2.4e-17   1.4e-13       1     147 [.     103     251 ..     103     254 .. 0.80

  Alignments for each domain:
  == domain 1  score: 52.0 bits;  conditional E-value: 2.4e-17
                Trypsin_2   1 GsGflvgsdglilTnaHvv...dsadgaav........kaikkkveeagadgrevpak.vvaadpel....DlAllkvssderagl 70 
                              +sGfl++sd  i+T+ H++   +   + +         +++++k  + +++++ +  + ++a++ +     D+A++k+ +++ +g 
  PHY93_09815|PHY93_09815 103 CSGFLISSDV-IVTAGHCIysvN---DCTNnswvfdytNTTEEKAAFSFNQNQIYHCTkIIAREKNNetmnDYAVIKL-DRPVTGR 183
                              79********.********6653...444433367788555555556666666665554666666446789*******.******* PP

                Trypsin_2  71 pplplgpsealkggepvyvvGyplggeksgsvssGivsgvvesesaasgegesflqtdaatspGsSGGplfd.sdGrv 147
                               pl+++   +++ +  ++v+G+p+g +   +++sG   + ++        ++ f++t+a+t++ +SG+++++ ++G v
  PHY93_09815|PHY93_09815 184 LPLKIRHAGKIEDDAVLTVIGNPSGLPI--KITSGAELRDNS--------NPIFFTTNADTYGRNSGSAVINsRTGIV 251
                              ***************************9..899998888888........89999*****************777766 PP

>> Trypsin  Trypsin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.5   2.3   2.2e-14   1.3e-10      23     101 ..      98     183 ..      76     276 .. 0.67

  Alignments for each domain:
  == domain 1  score: 41.5 bits;  conditional E-value: 2.2e-14
                              C.EEEEEEEEEETTEEEEEGGGTTT.........GGGEEEEESESBTTSCTTTEEEEEEEEEEEETTEBTTTTTTTEEEEEESSSS CS
                  Trypsin  23 g.khlCgGslisenwvlTAaHCvsn.........asdvkvvlgehnlkksegkeqklkvekvivhpnynpstldnDiallklkepv 98 
                              +   +C+G+lis++ ++TA+HC+++           d++  + e+++ + ++ +q ++  k+i  ++ n+ t  nD+a++kl++pv
  PHY93_09815|PHY93_09815  98 StAATCSGFLISSDVIVTAGHCIYSvndctnnswVFDYTNTTEEKAAFSFNQ-NQIYHCTKIIAREKNNE-T-MNDYAVIKLDRPV 180
                              24689********************766654444333333444444444444.69999999766555555.4.5***********6 PP

                              TSB CS
                  Trypsin  99 klg 101
                              +  
  PHY93_09815|PHY93_09815 181 TGR 183
                              543 PP

>> Peptidase_S46  Peptidase S46
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   0.4     0.012        70      46      69 ..     100     122 ..      78     130 .. 0.87
   2 !   15.9   0.2   6.4e-07    0.0038     618     648 ..     221     251 ..     210     261 .. 0.88

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.012
                              TTTEE-EE-STT-EEEE-HHHHHH CS
            Peptidase_S46  46 lggCtasfVSpeGLvlTNHHCayg 69 
                              +  C++ ++S++  ++T  HC+y+
  PHY93_09815|PHY93_09815 100 AATCSGFLISSD-VIVTAGHCIYS 122
                              468*******99.899******97 PP

  == domain 2  score: 15.9 bits;  conditional E-value: 6.4e-07
                              TTB-EEEEEES----TT-TT-EEE-TTS-EE CS
            Peptidase_S46 618 lgsvpvnflstnDitGGNSGSPvlngkgelv 648
                              ++s p+ f +++D+ G NSGS+v+n++  +v
  PHY93_09815|PHY93_09815 221 DNSNPIFFTTNADTYGRNSGSAVINSRTGIV 251
                              67889********************998776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (297 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       578  (0.0322383); expected 358.6 (0.02)
Passed bias filter:                      372  (0.0207485); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.39
# Mc/sec: 2297.06
//
Query:       PHY93_09820|PHY93_09820  [L=574]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.7e-19   69.9   8.2    6.5e-18   64.9   0.2    3.2  3  HHH_8            Helix-hairpin-helix domain
    5.7e-18   64.8   0.0    1.3e-17   63.7   0.0    1.7  1  DNA_pol_B_thumb  DNA polymerase beta thumb
      3e-09   37.4   3.5    3.1e-09   37.3   0.4    2.4  2  PHP              PHP domain
    4.3e-09   36.6   0.1    1.4e-08   34.9   0.1    2.0  1  DNA_pol_B_palm   DNA polymerase beta palm
    3.8e-08   33.8   3.8    3.8e-08   33.8   3.8    3.2  4  HHH_5            Helix-hairpin-helix domain
    0.00032   20.5   1.1     0.0047   16.7   0.1    2.4  2  ELFV_dehydrog    Glutamate/Leucine/Phenylalanine/Valine dehyd
     0.0044   17.2   0.6         13    6.2   0.0    3.8  3  HHH_3            Helix-hairpin-helix motif
     0.0057   16.9   0.7       0.92   10.0   0.4    3.0  2  IMS_HHH          IMS family HHH motif
     0.0085   15.6   1.4       0.04   13.4   0.1    2.4  2  RNase_P_p30      RNase P subunit p30
  ------ inclusion threshold ------
      0.031   14.3   1.8       0.12   12.4   0.1    2.7  3  Polbeta          Polymerase beta, Nucleotidyltransferase
      0.037   14.6   0.2       0.21   12.2   0.2    2.3  1  5_3_exonuc       5'-3' exonuclease, C-terminal SAM fold
      0.048   13.8   0.2       0.13   12.4   0.2    1.7  1  TfoX_C           TfoX C-terminal domain
      0.049   13.9   0.8       0.26   11.6   0.1    2.6  2  NTP_transf_2     Nucleotidyltransferase domain
       0.14   11.9   2.5        0.8    9.5   1.6    2.6  2  RNA_pol_A_CTD    Bacterial RNA polymerase, alpha chain C term


Domain annotation for each model (and alignments):
>> HHH_8  Helix-hairpin-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.9   0.2   5.1e-21   6.5e-18       1      67 [.       5      74 ..       5      75 .. 0.94
   2 !    8.6   0.7    0.0019       2.4      32      64 ..     116     146 ..     113     150 .. 0.77
   3 ?   -2.6   0.1       5.9   7.6e+03      35      55 ..     392     409 ..     388     418 .. 0.48

  Alignments for each domain:
  == domain 1  score: 64.9 bits;  conditional E-value: 5.1e-21
                             HHHHHHHHHHHHHHHHHCT--CCCHHHHHHHHCCCCC-SS-HHHH..TT.HCTTSTT--HHHHHHHHHHH CS
                    HHH_8  1 NkeiadaLeeladllelkgedpfrvraYrrAaraiealpeeitsl..ee.eltklpgiGkkiaakieeil 67
                             N+e+a+a+e++a llel++++pfr+raY++Aar+i  l++++t+l  ++ +l++ +giGk++ +ki  ++
  PHY93_09820|PHY93_09820  5 NAEVAQAFEDIAILLELENANPFRIRAYQNAARVINGLSQPVTDLlaKAvDLSEYRGIGKDLSKKIMGYV 74
                             99*******************************************854499***************8776 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0019
                              HCCCCC-SS-HHHHTTHCTTSTT--HHHHHHHH CS
                    HHH_8  32 araiealpeeitsleeeltklpgiGkkiaakie 64 
                              ++++++l+   +   ++++k++g+G+k+ +ki 
  PHY93_09820|PHY93_09820 116 ITSLKDLKSSAEK--GQIKKVKGFGEKTEKKIL 146
                              5666777666666..359*************96 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 5.9
                              CCC-SS-HHHHTTHCTTSTT- CS
                    HHH_8  35 iealpeeitsleeeltklpgi 55 
                              ++++ ++i+ +    +k+ gi
  PHY93_09820|PHY93_09820 392 LKKHIKDIDRIN---EKISGI 409
                              333333333332...334444 PP

>> DNA_pol_B_thumb  DNA polymerase beta thumb
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.7   0.0     1e-20   1.3e-17       2      70 .]     259     318 ..     258     318 .. 0.96

  Alignments for each domain:
  == domain 1  score: 63.7 bits;  conditional E-value: 1e-20
                              HHHHHS-HHHHHHHHHHHHCTTEEEETTEEE.......ETCCCEEEC-SSHHHHHHHCTS----GGGTT CS
          DNA_pol_B_thumb   2 llyfTGsktFnrdlRrlakkkglkLnssglrdekgkaeddddgelvevetErdvfelLglpyipPeeRe 70 
                              l yfTGsk++n++ R++akk+glk+n++g++         +  +++++ +E++vf+++ l+yipPe+Re
  PHY93_09820|PHY93_09820 259 LYYFTGSKAHNIEVRKIAKKMGLKINEYGVF---------KGSKKIAGVNEEEVFKAIHLDYIPPELRE 318
                              78*****************************.........78889***********************7 PP

>> PHP  PHP domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.2      0.89   1.1e+03      80     128 ..     204     264 ..      59     289 .. 0.58
   2 !   37.3   0.4   2.5e-12   3.1e-09       1      78 [.     343     429 ..     343     506 .. 0.72

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.89
                              ....E....E.......HHHHHHHHHHHHH.............HHHHHH..S......... CS
                              xxxxxxxxxx.......xxxxxxxxxxxxxxxx...xxxxxxxxxxxxx..xxxxxxxxxx RF
                      PHP  80 ltllaknqeG.......yknllkllskaylegf...yrkpridkellek..hsegLivlsg 128
                              +++ ++n +        y+n+ + +sk  ++     ++  ++d  +l++  +  gL   +g
  PHY93_09820|PHY93_09820 204 ILVTCNNSKNiidhfvaYENVKNIISKGSTRSSvvlRDGLHVDLRVLKEesFGSGLYYFTG 264
                              2233323333555555555556666666665445555555666666655554445555555 PP

  == domain 2  score: 37.3 bits;  conditional E-value: 2.5e-12
                              EEEE--CCC--.S-H..HHHHHHHHHCT-SEEEEEEEEBTT............HHHHHHHHHHHHTTTTSEEEEEEE......... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx............xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                      PHP   1 dlHvHteyslldgalsieelvkkakelglkaiaiTDhgnlf............gyvefykaakkkykagikpiiGleayvaddsek 74 
                              dlH+Ht+  ++dg ++i e+++ka+elg+  +aiTDh++              + ++++ ++++k  +gik++ G+e+++ +d+  
  PHY93_09820|PHY93_09820 343 DLHAHTT--ATDGKNTILEMAEKARELGHNYLAITDHSQHVhvangldverlkKHIKDIDRINEKI-SGIKILKGIEVDILEDGSL 425
                              7899976..56777788*********************9888********9988888999995444.9************999973 PP

                              .... CS
                              xxxx RF
                      PHP  75 erps 78 
                              + p+
  PHY93_09820|PHY93_09820 426 DLPN 429
                              3333 PP

>> DNA_pol_B_palm  DNA polymerase beta palm
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.9   0.1   1.1e-11   1.4e-08       1      56 [.     160     215 ..     160     279 .. 0.78

  Alignments for each domain:
  == domain 1  score: 34.9 bits;  conditional E-value: 1.1e-11
                              -EEHHHHHHHHHHHHHHHHHH-TT-EEEE-HHHHTT-SEESSEEEEEEBTTBSTTS CS
           DNA_pol_B_palm   1 riPreEvealealvkkaakeldpevevivcGSYRRgaessGDvDvlitkkdakses 56 
                              r+P + v+++++++   +k+ ++  +v v+GSYRR +e+ GD+D+l+t++++k+  
  PHY93_09820|PHY93_09820 160 RVPLHLVDQIARQLVLYLKKSKEVRQVEVAGSYRRRKETVGDLDILVTCNNSKNII 215
                              788888999999999999999999**************************999853 PP

>> HHH_5  Helix-hairpin-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.0      0.98   1.3e+03      36      51 ..      55      70 ..      36      72 .. 0.80
   2 !   33.8   3.8     3e-11   3.8e-08       3      57 .]      95     151 ..      93     151 .. 0.92
   3 ?   -2.4   0.0       5.8   7.5e+03       6      35 ..     271     301 ..     270     306 .. 0.63
   4 ?   -2.9   0.0       8.8   1.1e+04      33      44 ..     388     400 ..     386     409 .. 0.61

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 0.98
                             HHHTSTTS-HHHHHHH CS
                    HHH_5 36 eLakipGiGkktAeri 51
                             +L++  GiGk++ ++i
  PHY93_09820|PHY93_09820 55 DLSEYRGIGKDLSKKI 70
                             5888899999999888 PP

  == domain 2  score: 33.8 bits;  conditional E-value: 3e-11
                              HHHTSTT--HHHHHHHHTT.T--SHHHHHHS-HH.HHHTSTTS-HHHHHHHHHHHHH CS
                    HHH_5   3 eLlsvsGiGpktAlallsa.Giesvedlaaadve.eLakipGiGkktAeriilelkd 57 
                              eL +++ +Gpk++  l+++ Gi+s+ dl++ +++ ++ k++G+G+kt ++i+ ++k+
  PHY93_09820|PHY93_09820  95 ELARIENLGPKRIQILHDKlGITSLKDLKSSAEKgQIKKVKGFGEKTEKKILKAIKE 151
                              7999***************99*******9876654*****************99986 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 5.8
                              TSTT--HHHHHHHHTTT.--SHHHHHHS-HH CS
                    HHH_5   6 svsGiGpktAlallsaG.iesvedlaaadve 35 
                              +v +i +k+ l++ + G ++   ++a  ++e
  PHY93_09820|PHY93_09820 271 EVRKIAKKMGLKINEYGvFKGSKKIAGVNEE 301
                              5777778888888888833334556655555 PP

  == domain 4  score: -2.9 bits;  conditional E-value: 8.8
                              -HHHHHT.STTS- CS
                    HHH_5  33 dveeLak.ipGiG 44 
                              dve+L k i++i 
  PHY93_09820|PHY93_09820 388 DVERLKKhIKDID 400
                              6666666555554 PP

>> ELFV_dehydrog  Glutamate/Leucine/Phenylalanine/Valine dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.1       0.1   1.3e+02      68     138 ..     131     227 ..     111     232 .. 0.61
   2 !   16.7   0.1   3.7e-06    0.0047      46      89 ..     359     402 ..     335     457 .. 0.79

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.1
                              EEETTEE..........-HHHHHHHHHCSSS....STTHSHHSTSTSEEESHHSHH.............HHS..S-SEEEE-.SST CS
            ELFV_dehydrog  68 iydpeGl..........dieellelkeerks....vkeykkssekkaeyieneeel.............lel..kvdilvPc.Atq 123
                              i + +G+           i+el+++++e +     v++++    + + y+++++e+               +  + dilv c   +
  PHY93_09820|PHY93_09820 131 IKKVKGFgektekkilkAIKELTAIRKESRVplhlVDQIA---RQLVLYLKKSKEVrqvevagsyrrrkE-TvgDLDILVTCnNSK 212
                              4444555444444444556777777666666533333333...222235555555544444555555432.24799******8889 PP

                              TSB-HHHHTHTHHTT CS
            ELFV_dehydrog 124 neideenakalikng 138
                              n id   a +++kn 
  PHY93_09820|PHY93_09820 213 NIIDHFVAYENVKNI 227
                              999998888888864 PP

  == domain 2  score: 16.7 bits;  conditional E-value: 3.7e-06
                              HHHHHHHHCT-EEEEEEESSEEEEETTEE-HHHHHHHHHCSSSS CS
            ELFV_dehydrog  46 yaallltelgakvvavsDssGviydpeGldieellelkeerksv 89 
                               +a+++ elg++++a+ D+s  ++  +Gld+e l+++ ++   +
  PHY93_09820|PHY93_09820 359 EMAEKARELGHNYLAITDHSQHVHVANGLDVERLKKHIKDIDRI 402
                              57899****************************99985554443 PP

>> HHH_3  Helix-hairpin-helix motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.2   0.0    0.0099        13      11      45 ..      51      84 ..      50      89 .. 0.80
   2 ?    1.8   0.0      0.23     3e+02      45      64 ..      95     114 ..      91     115 .. 0.84
   3 ?    5.0   0.1     0.023        29      45      62 ..     130     147 ..     124     185 .. 0.74

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.0099
                    HHH_3 11 AsaeeLqklpGlgpklAknIvayReknGpfksree 45
                             A+a +L+   G+g+ l+k+I+ y  k G++  ++e
  PHY93_09820|PHY93_09820 51 AKAVDLSEYRGIGKDLSKKIMGYV-KTGHIPLLDE 84
                             77889****************998.5566555555 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.23
                    HHH_3  45 eLlkvkglgpktfeqlagfl 64 
                              eL ++++lgpk ++ l ++l
  PHY93_09820|PHY93_09820  95 ELARIENLGPKRIQILHDKL 114
                              8999*******999888775 PP

  == domain 3  score: 5.0 bits;  conditional E-value: 0.023
                    HHH_3  45 eLlkvkglgpktfeqlag 62 
                              + +kvkg+g+kt  ++ +
  PHY93_09820|PHY93_09820 130 QIKKVKGFGEKTEKKILK 147
                              556666666666555543 PP

>> IMS_HHH  IMS family HHH motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   0.0     0.064        82      10      26 ..      53      69 ..      46      71 .. 0.78
   2 !   10.0   0.4   0.00072      0.92      13      30 ..     131     149 ..     130     150 .. 0.91

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.064
                  IMS_HHH 10 plpitkipGiGgklgek 26
                              +++++ +GiG+ l +k
  PHY93_09820|PHY93_09820 53 AVDLSEYRGIGKDLSKK 69
                             459********988877 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00072
                  IMS_HHH  13 itkipGiGgklgek.Lekl 30 
                              i+k+ G+G k+++k L+++
  PHY93_09820|PHY93_09820 131 IKKVKGFGEKTEKKiLKAI 149
                              99************99975 PP

>> RNase_P_p30  RNase P subunit p30
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.1         4   5.1e+03      40      77 ..     128     168 ..     117     182 .. 0.64
   2 !   13.4   0.1   3.1e-05      0.04       8     145 ..     349     504 ..     342     507 .. 0.69

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 4
                              S---HHHHH..........HHHHHHHH..HHSSEEEEEEES CS
              RNase_P_p30  40 kekkpnase...pikeelkelkkelsglkllsRvtlvvsdp 77 
                              k+++++ +    ++++++ +  kel+ ++  sRv l + d+
  PHY93_09820|PHY93_09820 128 KGQIKKVKGfgeKTEKKILKAIKELTAIRKESRVPLHLVDQ 168
                              44444444455544455555566666688888888888776 PP

  == domain 2  score: 13.4 bits;  conditional E-value: 3.1e-05
                              H..........HHHHHHHHH-SEEEEEEEEEESS---HHHHH..........HHHHHHHH..HHSSEEEEEEES-H.HHHHHHHHH CS
              RNase_P_p30   8 psddskkks.rtiktlaelgytgvainftveaekekkpnase...pikeelkelkkelsglkllsRvtlvvsdpsklqrlskvrqk 89 
                              +  d k++  +++++++elg +  ai+ + ++  ++   + e   +  +++++ ++++sg+k+l+++++ + +  +l   + +  +
  PHY93_09820|PHY93_09820 349 TATDGKNTIlEMAEKARELGHNYLAITDHSQHVHVANGLDVErlkKHIKDIDRINEKISGIKILKGIEVDILEDGSLDLPNSILAE 434
                              44443333358***************999997777777766678788889999****************99999988888888888 PP

                              --..EEEEE........--SHHHHHHHHHT.T-SEEE-TTTT....SSS-S--.HHHHHHHHHHT-EEEEE CS
              RNase_P_p30  90 fd..llavr........PttekalraacenldvDiisidlts....rlpfglk.hktiraAvergvafEin 145
                               d  + +++         +te+++r a  n+ + i+ +++      r p+ ++  k ++aAverg +fEin
  PHY93_09820|PHY93_09820 435 LDirICSIHyklkmnkkDMTERIIR-AMDNPYFNILGHPTGRlifkRAPYEFDlEKVVKAAVERGKFFEIN 504
                              8833333321111111123444443.446777888888887666667777776356778888888888887 PP

>> Polbeta  Polymerase beta, Nucleotidyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0       3.9   4.9e+03      34      70 ..      14      60 ..      13      72 .. 0.49
   2 ?   12.4   0.1   9.7e-05      0.12       5      62 ..     175     232 ..     171     255 .. 0.77
   3 ?   -0.7   0.1       1.2   1.6e+03      43      82 ..     394     433 ..     386     437 .. 0.79

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 3.9
                             EEEEEESS-.......--HHHHHHHHHHHHHH....SSSEEEEEETT CS
                  Polbeta 34 Dlavllkek.......ldleeelelaaeledi...klgkkvDlvdln 70
                             D+a+ll+ +       + +++ +++ + l++     l k vDl +++
  PHY93_09820|PHY93_09820 14 DIAILLELEnanpfriRAYQNAARVINGLSQPvtdLLAKAVDLSEYR 60
                             67777766644554443333333333333332333366666666665 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 9.7e-05
                              TTHHHHHHHHSTTEEEEEE-S------EEEEEEEESS---HHHHHHHHHHHHHH..SSS CS
                  Polbeta   5 eilekekeielaylFGSrakgkareeSDiDlavllkekldleeelelaaeledi.klgk 62 
                               +l+k ke++ + + GS+ + k +   D+D+ v +++++++ + +  ++++++i ++g 
  PHY93_09820|PHY93_09820 175 LYLKKSKEVRQVEVAGSYRRRKETV-GDLDILVTCNNSKNIIDHFVAYENVKNIiSKGS 232
                              5899***************999995.9***********888888888888888853333 PP

  == domain 3  score: -0.7 bits;  conditional E-value: 1.2
                              --HHHHHHHHHHHHHH.SSSEEEEEETTTS-HHHHHHHHH CS
                  Polbeta  43 ldleeelelaaelediklgkkvDlvdlneapplllyeilk 82 
                              +++++  ++ ++++ ik+ k +++ +l++ +++l  +il+
  PHY93_09820|PHY93_09820 394 KHIKDIDRINEKISGIKILKGIEVDILEDGSLDLPNSILA 433
                              5677788899999999888999999998888888777765 PP

>> 5_3_exonuc  5'-3' exonuclease, C-terminal SAM fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.2   0.00016      0.21      19      49 ..     130     160 ..     126     189 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 0.00016
               5_3_exonuc  19 nipGvpgiGektAakLlkeygsleeilenld 49 
                              +i+ v+g Gekt +k+lk +++l +i ++  
  PHY93_09820|PHY93_09820 130 QIKKVKGFGEKTEKKILKAIKELTAIRKESR 160
                              799***********************99653 PP

>> TfoX_C  TfoX C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.2   9.8e-05      0.13       4      54 ..      95     146 ..      94     157 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 9.8e-05
                   TfoX_C   4 rLkdLpNlglklerlLk.kaGIktveeLrelGaveaylkiketgtsvslelL 54 
                              +L+++ Nlg+k  ++L+ k GI+++++L++   +   +k+k  g + ++++L
  PHY93_09820|PHY93_09820  95 ELARIENLGPKRIQILHdKLGITSLKDLKSSAEKGQIKKVKGFGEKTEKKIL 146
                              5899************7689***************99999999988888877 PP

>> NTP_transf_2  Nucleotidyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.1    0.0002      0.26       8      74 ..     177     248 ..     170     282 .. 0.66
   2 ?   -1.5   0.1       2.5   3.1e+03      55      77 ..     401     423 ..     385     456 .. 0.68

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.0002
                              HHHHTTTSEEEEEHHHHCTTSCTT.SSEEEEEEESTTCHHH.......HHHEHHHHHHHHCCCEEECTTEEEEEE CS
             NTP_transf_2   8 lkelepvakvvlfGSyarGtalkg.SDiDllvvlpeevsre.......kkeegleklaeiikfleellglevdlv 74 
                              lk+   v +v + GSy+r +   +  D+D+lv+ +++++         +++++  k +   +++ +  gl+vdl+
  PHY93_09820|PHY93_09820 177 LKKSKEVRQVEVAGSYRRRKE--TvGDLDILVTCNNSKNIIdhfvayeNVKNIISKGSTRSSVVLR-DGLHVDLR 248
                              55555599**********995..448***********76556665443222222222222222222.55555555 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 2.5
                              HHHHHCCCEEECTTEEEEEECEE CS
             NTP_transf_2  55 klaeiikfleellglevdlvtre 77 
                              ++ e i+ ++ l+g+evd+++  
  PHY93_09820|PHY93_09820 401 RINEKISGIKILKGIEVDILEDG 423
                              44555566666677777777444 PP

>> RNA_pol_A_CTD  Bacterial RNA polymerase, alpha chain C terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.0      0.39   4.9e+02      46      65 ..      95     114 ..      75     115 .. 0.82
   2 ?    9.5   1.6   0.00063       0.8      30      67 .]     113     151 ..     112     151 .. 0.83

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.39
                              HHTTSSS-SSHHHHHHHHHH CS
            RNA_pol_A_CTD  46 eLlkikNlGkKSleEIkekL 65 
                              eL  i+NlG K ++ +++kL
  PHY93_09820|PHY93_09820  95 ELARIENLGPKRIQILHDKL 114
                              8999******9888777776 PP

  == domain 2  score: 9.5 bits;  conditional E-value: 0.00063
                              HTT--BHHHHHHS-H.HHHTTSSS-SSHHHHHHHHHHHH CS
            RNA_pol_A_CTD  30 ragiktvgeLvklse.eeLlkikNlGkKSleEIkekLee 67 
                              + gi+++++L +  e  +++k+k +G+K+ + I ++++e
  PHY93_09820|PHY93_09820 113 KLGITSLKDLKSSAEkGQIKKVKGFGEKTEKKILKAIKE 151
                              679999999987655169***************998875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (574 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       702  (0.0391544); expected 358.6 (0.02)
Passed bias filter:                      484  (0.0269954); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.64u 0.25s 00:00:00.89 Elapsed: 00:00:00.41
# Mc/sec: 4210.31
//
Query:       PHY93_09825|PHY93_09825  [L=345]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.3e-26   93.1   0.2    3.8e-26   92.4   0.2    1.3  1  NMT1            NMT1/THI5 like
    4.4e-08   33.1   0.3    5.8e-06   26.2   0.3    2.4  1  NMT1_2          NMT1-like family
    8.9e-08   32.0   0.0    1.2e-07   31.6   0.0    1.2  1  Phosphonate-bd  ABC transporter, phosphonate, periplasmic sub
    1.2e-06   28.2   0.1    2.4e-06   27.2   0.1    1.4  1  SBP_bac_3       Bacterial extracellular solute-binding protei
    3.7e-06   26.6   0.1    6.1e-06   25.9   0.1    1.3  1  NMT1_3          NMT1-like family
  ------ inclusion threshold ------
      0.025   14.2   0.2      0.075   12.6   0.2    1.8  1  OpuAC           Substrate binding domain of ABC-type glycine 


Domain annotation for each model (and alignments):
>> NMT1  NMT1/THI5 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   92.4   0.2   1.3e-29   3.8e-26       7     215 ..      41     254 ..      38     255 .. 0.88

  Alignments for each domain:
  == domain 1  score: 92.4 bits;  conditional E-value: 1.3e-29
                              HHHHHHTTHHHHTTEEEEEE--SSTTHHHHHHHCTS...-SEEEE-HHHHH...HHHHTT--EEEEEEEE-S--EEEEEECCC--S CS
                     NMT1   7 lyvAkekGYFkeeGldVeivepadpsdatelvasgk...adfgvsyqesll...aarakglpvvsvaallqeplsglivlkdsgik 86 
                              +++A+ekGYFk++G++++++  +++++ + +va+++   +d+g s+ + l+   ++    lpv  +   l+   ++l++ k+s+ik
  PHY93_09825|PHY93_09825  41 VLLANEKGYFKKQGIEINFKGIKGRANILMAVANNQeshCDMGASNIDGLYreeLDLNLILPVHFFFYGLDYD-THLVTSKKSNIK 125
                              689*****************************99875558***********5444455678999999999766.567777888*** PP

                              SGGGGTTSEEEE-S-TTHHHHHHHHHHHTT--GGG-EEEE-..TT-HHHHHHCTSSSEEECEETTTHHHHHHHTT--EEEE-GGGT CS
                     NMT1  87 spkDLkGkrigyvgspfekallkallakdggdpsdvtlvnvg.gtslakalltgkvDaaiggyenwegvelesegkelrifaladl 171
                              +++DLkGk++ + +   +++ +k++la++g++ sdv++v  +   + a++l +gk Da+i+++  + ++ +e     ++   +  +
  PHY93_09825|PHY93_09825 126 TIADLKGKTVRLGQ-APGQIAFKHMLAEAGLKQSDVKIVLHQkAVQIADQLENGKMDAGIAWVPVMPVLIAEGNINIIEKNVMGRY 210
                              **********9988.5799*******************96651566677***********99999999998877777777788899 PP

                              T-----SEEEEEEHHHHHH-HHHHHHHHHHHHHHHHHHHHSHHH CS
                     NMT1 172 gvpdyyslvlitnekllkenpelvkkFlrAlkkGyeyalahPee 215
                               +p +     ++n ++ k+npe+vkkF  A+k++++++ a+P e
  PHY93_09825|PHY93_09825 211 VMPILPHSFSFVNYEFSKNNPEIVKKFKNAIKEATDFTKANPSE 254
                              9999**************************************87 PP

>> NMT1_2  NMT1-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.2   0.3   1.9e-09   5.8e-06      20     241 ..      40     251 ..      18     258 .. 0.72

  Alignments for each domain:
  == domain 1  score: 26.2 bits;  conditional E-value: 1.9e-09
                   NMT1_2  20 plvvakekglfakeGltvelekqaswaelrdkllage...lDaahvltpapllidlGiggakadmkvlaslnlnGqaitlsnklkd 102
                              +++ a+ekg+f+k+G++++ +  ++ a+++ ++++++    D+++        i  G+  ++ d++ +++++    ++ +  +l +
  PHY93_09825|PHY93_09825  40 EVLLANEKGYFKKQGIEINFKGIKGRANILMAVANNQeshCDMGAS------NI-DGLYREELDLNLILPVHFFFYGLDYDTHLVT 118
                              5677888888888888888888888888888888765111344443......22.2222334444555444444333444433333 PP

                   NMT1_2 103 kkvsdakalkdlvakkkaskplkiavtfpgsthdlllrywLaaaGldpeadvklvvvpp.pqmvanlkagtidgfcvgePwnaqav 187
                                 s+ +++k +++  k  k +++++       ++++++ La+aGl+  +dvk+v  +   q++ +l+ g++d+ ++  P   +++
  PHY93_09825|PHY93_09825 119 ---SKKSNIKTIADL-KG-KTVRLGQ----APGQIAFKHMLAEAGLKQ-SDVKIVLHQKaVQIADQLENGKMDAGIAWVPVMPVLI 194
                              ...444555444333.44.5888999....4568*************9.9***99888879************************* PP

                   NMT1_2 188 aegiGvtaltsqel.....wkdhPekvlgvredfveknpntaralvkalleAtkwldak 241
                              aeg   + + ++++      +  P  + +v+ +f ++np+ ++++ +a+ eAt++ +a+
  PHY93_09825|PHY93_09825 195 AEGN--INIIEKNVmgryvMPILPHSFSFVNYEFSKNNPEIVKKFKNAIKEATDFTKAN 251
                              9987..44444444333338888********************************9974 PP

>> Phosphonate-bd  ABC transporter, phosphonate, periplasmic substrate-binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.6   0.0   3.9e-11   1.2e-07      85     217 ..     112     244 ..      68     267 .. 0.86

  Alignments for each domain:
  == domain 1  score: 31.6 bits;  conditional E-value: 3.9e-11
                              EEEEEEEETTSS--SHHHHGG-EEEE--TT-TTTTHHHHHHTCCCCT--HHHHSSEEEE--HHHHHHHHHTTSSSEEEEEHHHHHH CS
           Phosphonate-bd  85 yrsviivradsdiqsledLkgktiafvspsStsGylvpaalLvkeagldpeddfsevfsgshdaavlavlsgdadaaavsadaled 170
                              y + +++ + s+i++++dLkgkt+ ++++    G ++ +++L +eagl+   d + v +++  + ++++ +g+ da+  +  ++  
  PHY93_09825|PHY93_09825 112 YDTHLVTSKKSNIKTIADLKGKTVRLGQAP---GQIAFKHML-AEAGLKQ-SDVKIVLHQKAVQIADQLENGKMDAGIAWVPVMPV 192
                              8899**********************9966...9********.8*****6.578******************************** PP

                              HHHH-HHHHTTEEEE..EEEEEEE--EEEEETT...S-HHHHHHHHHHHHH- CS
           Phosphonate-bd 171 lvaegpedkdelrvi..assppipndpvvvrke...lseelkekiqdallsl 217
                              l+aeg ++  e +v+   + p +p ++ +v+ e     +e+++k ++a+ ++
  PHY93_09825|PHY93_09825 193 LIAEGNINIIEKNVMgrYVMPILPHSFSFVNYEfskNNPEIVKKFKNAIKEA 244
                              ****988887777773347888899999999884444478888888877665 PP

>> SBP_bac_3  Bacterial extracellular solute-binding proteins, family 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.2   0.1     8e-10   2.4e-06      86     209 ..     113     244 ..      49     248 .. 0.77

  Alignments for each domain:
  == domain 1  score: 27.2 bits;  conditional E-value: 8e-10
                              EEEEEEEETTSHGTCCHSSCGCGTTSEEEEETTSHHHHH...HHHHHHC..TSEEEEESSHHHHHHHHHTTSSSEEEEEHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                SBP_bac_3  86 gqvllvrkkdaskissiksladLkgkkvgvqagstaeel...lkeelkk..gaeivefdtleealqaLkngrvdavvadspvlayl 166
                               + l++ kk     s+ik++adLkgk+v   ++  + ++   l+e+  k  +++iv  +   +   +L+ng+ da +a  pv+  l
  PHY93_09825|PHY93_09825 113 DTHLVTSKK-----SNIKTIADLKGKTVRLGQAPGQIAFkhmLAEAGLKqsDVKIVLHQKAVQIADQLENGKMDAGIAWVPVMPVL 193
                              455666644.....3577777*****77666665555333343333333568888888888999999******************* PP

                              HHHCCGCCEEEE........ECGGCECEEEEEEETTTHHHHHHHHHHHHHH CS
                              xxxxxxxxxxxx........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                SBP_bac_3 167 vkknpdkkvvlv........eeplsseeyaiavrkgdseLrkainkalael 209
                              +++ + + +++           p s + + + + k+++e +k++  a++e 
  PHY93_09825|PHY93_09825 194 IAEGNINIIEKNvmgryvmpILPHSFSFVNYEFSKNNPEIVKKFKNAIKEA 244
                              *****9999999999999999999999999999**************9986 PP

>> NMT1_3  NMT1-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.9   0.1     2e-09   6.1e-06      94     165 ..     115     184 ..     106     204 .. 0.87

  Alignments for each domain:
  == domain 1  score: 25.9 bits;  conditional E-value: 2e-09
                   NMT1_3  94 qlvvskdsgigsiadlkgkrvsvGpegsGtegsarailealglsekdlklleelgygesadalkdgqldgaa 165
                              +lv+sk+s+i++iadlkgk+v +G+ + G+  ++   l+++gl+++d+k++   ++ + ad+l +g++d+  
  PHY93_09825|PHY93_09825 115 HLVTSKKSNIKTIADLKGKTVRLGQ-APGQI-AFKHMLAEAGLKQSDVKIVLHQKAVQIADQLENGKMDAGI 184
                              8999********************9.55555.89***************99999**************9865 PP

>> OpuAC  Substrate binding domain of ABC-type glycine betaine transport system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.2   2.5e-05     0.075      97     222 ..     119     237 ..     111     265 .. 0.66

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 2.5e-05
                              HHHHTTTBHHHHCTHHGGTEEEEEHHCCHSTTSHHCCHHHHHHHHHHT-.T.TCEEEGSCEEEEHH.HHHHHHHTTCSSEEEEETT CS
                    OpuAC  97 aekygiksisDLkkpaedlelgakgeflgrpdgwgcekvtegllkaYgl.d.kvelvegseaamda.elyaaykrgepvvvyawtP 179
                               +k++ik+i+DLk + +          lg ++g     + +++l + gl + +v+ v     +  a +++  +++g+++++ aw P
  PHY93_09825|PHY93_09825 119 SKKSNIKTIADLKGKTV---------RLGQAPGQI---AFKHMLAEAGLkQsDVKIV---LHQK-AvQIADQLENGKMDAGIAWVP 188
                              5679********66666.........444444444...56699999**955666665...3333.359*****************9 PP

                              ST..HHHHTTEEE-B-TTSTS-SS.....EEEEEEEEHHHHHHSCT.HHHH CS
                    OpuAC 180 dw..aikkydlvvLedpkglfppa.....ynvvpvvrkefaekaPe.vaaf 222
                                  +i++ ++  +e  k++++        +    v+ ef + +Pe v++f
  PHY93_09825|PHY93_09825 189 VMpvLIAEGNINIIE--KNVMGRYvmpilPHSFSFVNYEFSKNNPEiVKKF 237
                              742245555677777..6666654444455566667777777777744444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (345 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       506  (0.0282224); expected 358.6 (0.02)
Passed bias filter:                      396  (0.0220871); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.37
# Mc/sec: 2818.28
//
Query:       PHY93_09830|PHY93_09830  [L=327]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.6e-15   55.3   0.0    1.2e-14   54.8   0.0    1.1  1  NMT1             NMT1/THI5 like
    6.2e-11   42.5   0.0    1.7e-10   41.0   0.0    1.6  1  NMT1_2           NMT1-like family
      2e-05   24.3   0.0      4e-05   23.3   0.0    1.5  1  Phosphonate-bd   ABC transporter, phosphonate, periplasmic su
      0.006   16.0   0.0      0.012   15.1   0.0    1.4  1  NMT1_3           NMT1-like family
  ------ inclusion threshold ------
      0.024   14.1   0.0      0.046   13.1   0.0    1.6  1  SBP_bac_3        Bacterial extracellular solute-binding prote
      0.031   14.2   0.1      0.077   13.0   0.1    1.7  1  Vps23_core       Vps23 core domain
      0.095   11.2   0.0       0.13   10.8   0.0    1.1  1  Herpes_glycop_H  Herpesvirus glycoprotein H main domain


Domain annotation for each model (and alignments):
>> NMT1  NMT1/THI5 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.8   0.0   4.7e-18   1.2e-14       6     216 .]      31     240 ..      29     240 .. 0.88

  Alignments for each domain:
  == domain 1  score: 54.8 bits;  conditional E-value: 4.7e-18
                              HHHHHHHTTHHHHTTEEEEEE--SSTTHHHHHHHCTS-SEEEE-HHHHH...HHHHTT--EEEEEEEE-S.--EEEEEECCC--SS CS
                     NMT1   6 glyvAkekGYFkeeGldVeivepadpsdatelvasgkadfgvsyqesll...aarakglpvvsvaallqe.plsglivlkdsgiks 87 
                              + ++A ++  +++ G++V  + +a  ++   ++ +++ d+++     ++    + +k  p+v va +    +   l++  +sgi +
  PHY93_09830|PHY93_09830  31 PAMIASSHDLYQKYGIKVHTLVKAQGQEIGSMLLKNEIDLAILGDHWTIeamSRSSKADPLVIVACIGGGgQRWRLMASNKSGILK 116
                              5678999***********88777888****************9887777442455589999999999865156789999999**** PP

                              GGGGTTSEEEE-S-TTHHHHHHHHHHHTT--GGG-EEEE-.TT-HHHHHHCTSSSEEECEETTTHHHH..HHHTT--EEEE-GGGT CS
                     NMT1  88 pkDLkGkrigyvgspfekallkallakdggdpsdvtlvnvggtslakalltgkvDaaiggyenwegve..lesegkelrifaladl 171
                              ++DL+ k++g +  + + +ll+ +  k+g+ p+ +++ +++  s+++++ +++ Da++    +we +   le ++   +if+l+ +
  PHY93_09830|PHY93_09830 117 IEDLNNKKLGSWRRSYGHHLLENIFLKNGIRPKIIKV-SMDSNSAVDEFKNQSLDAIF----AWEPIPsiLEDQKLAHEIFNLEGH 197
                              ******************************9987776.999999999**********9....55555434889999********** PP

                              T-----SEEEEEEHHHHHH-HHHHHHHHHHHHHHHHHHHHSHHHH CS
                     NMT1 172 gvpdyyslvlitnekllkenpelvkkFlrAlkkGyeyalahPeea 216
                              g  d     ++t ++++k+n   + ++lrAl+ +++ a ++ +ea
  PHY93_09830|PHY93_09830 198 G--DGVPVYIVTRKSIVKNNLIELVAILRALNDAIHLAKENGDEA 240
                              *..8999999*****************************999987 PP

>> NMT1_2  NMT1-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.0   0.0   6.6e-14   1.7e-10       3     251 ..      14     243 ..      12     247 .. 0.83

  Alignments for each domain:
  == domain 1  score: 41.0 bits;  conditional E-value: 6.6e-14
                   NMT1_2   3 pekeqlklGfialtdaaplvvakekglfakeGltvelekqaswaelrdkllagelDaahv.ltpapllidlGiggakadmkvlasl 87 
                              ++k+++++G  + +  +p ++a+  +l++k+G++v +  +a ++e+   ll++e+D+a+      + ++++    +++++ ++a +
  PHY93_09830|PHY93_09830  14 SNKTKMRFGIRQFLSDVPAMIASSHDLYQKYGIKVHTLVKAQGQEIGSMLLKNEIDLAILgDHWTIEAMSRSS--KADPLVIVACI 97 
                              6899********************************************************5555555666665..9********** PP

                   NMT1_2  88 nlnGqaitlsnklkdkkvsdakalkdlvakkkaskplkiavtfpgsthdlllrywLaaaGldpeadvklvvvpppqmvanlkagti 173
                                 Gq   l      +++s   +++dl       ++ k++    +  h ll + +L ++G+ p   +  v + + ++v ++k + +
  PHY93_09830|PHY93_09830  98 GGGGQRWRLMA----SNKSGILKIEDL-------NNKKLGSWRRSYGHHLLENIFL-KNGIRP--KIIKVSMDSNSAVDEFKNQSL 169
                              *****977754....223555555555.......5678999888888887766666.99****..777888899************ PP

                   NMT1_2 174 dgfcvgePwnaqavaegiGvtaltsqelwkdhPekvlgvredfveknpntaralvkalleAtkwldakkenraeaakl 251
                              d+ ++ eP ++ ++ +++ + ++  +   ++ P+ ++++r+++v++n   + a+++al +A ++ ++   n +eaak+
  PHY93_09830|PHY93_09830 170 DAIFAWEPIPSILEDQKLAHEIFNLEGHGDGVPV-YIVTRKSIVKNNLIELVAILRALNDAIHLAKE---NGDEAAKI 243
                              ******************9988854444344454.5899************************9995...55555555 PP

>> Phosphonate-bd  ABC transporter, phosphonate, periplasmic substrate-binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.3   0.0   1.6e-08     4e-05      23     135 ..      40     149 ..      37     187 .. 0.84

  Alignments for each domain:
  == domain 1  score: 23.3 bits;  conditional E-value: 1.6e-08
                              HHHHHSSEEEEE--SSHHHHHHHHHTTS-SEEE--HHHHHHHHHHS.-EEEEEEEEETT--SEEEEEEEEETTSS--SHHHHGG-E CS
           Phosphonate-bd  23 LseelGvevelvvatdyaavvealragqvDiaflgplayvqardqa.gveplatrvrsdGsasyrsviivradsdiqsledLkgkt 107
                              L ++ G++v++ v ++ +++   l  +++D+a lg + +++a  ++ +++pl++     G  + r  + + + s+i ++edL++k+
  PHY93_09830|PHY93_09830  40 LYQKYGIKVHTLVKAQGQEIGSMLLKNEIDLAILGDHWTIEAMSRSsKADPLVIVAC-IGGGGQRWRLMASNKSGILKIEDLNNKK 124
                              56788*************************************999559*******97.999999999999999************* PP

                              EEE--TT-TTTTHHHHHHTCCCCT--HH CS
           Phosphonate-bd 108 iafvspsStsGylvpaalLvkeagldpe 135
                              ++   +s    +l+    L  ++g++p+
  PHY93_09830|PHY93_09830 125 LGSWRRSYGH-HLLENIFL--KNGIRPK 149
                              ***9988755.77777766..7999987 PP

>> NMT1_3  NMT1-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0   4.5e-06     0.012      27     171 ..      42     179 ..      32     189 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 4.5e-06
                   NMT1_3  27 kdqkvkasaqssaGsveNiqllkkgeadlailqsdvayeAyeGegefegkkplknlraitmlyaevfqlvvskdsgigsiadlkgk 112
                              ++ ++k+ +   a   e  ++l k+e+dlail   +  eA++ +++ +    l  +  i+    +   l++s++sgi +i+dl++k
  PHY93_09830|PHY93_09830  42 QKYGIKVHTLVKAQGQEIGSMLLKNEIDLAILGDHWTIEAMSRSSKADP---LVIVACIGG-GGQRWRLMASNKSGILKIEDLNNK 123
                              5566666666667777778899999999999999999999987777664...544444443.446788999*************** PP

                   NMT1_3 113 rvsvGpegsGtegsarailealglsekdlklleelgygesadalkdgqldgaalvaGvP 171
                              +++  +++ G +   ++i+   g+  k +k+  +++ + ++d +k++ ld+++    +P
  PHY93_09830|PHY93_09830 124 KLGSWRRSYGHH-LLENIFLKNGIRPKIIKV--SMDSNSAVDEFKNQSLDAIFAWEPIP 179
                              **********99.78889999***9988885..889***************99775555 PP

>> SBP_bac_3  Bacterial extracellular solute-binding proteins, family 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   1.8e-05     0.046      92     193 ..     109     209 ..      39     241 .. 0.80

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 1.8e-05
                              EETTSHGTCCHSSCGCGTTSEEEEETTSHHHHHHHHHHHC...TSEEEEE.SSHHHHHHHHHTTSSSEEEEEHHHHHHHHHHCCGC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                SBP_bac_3  92 rkkdaskissiksladLkgkkvgvqagstaeellkeelkk...gaeivef.dtleealqaLkngrvdavvadspvlaylvkknpdk 173
                                    + s+i +++dL++kk+g  + s+ + ll++ + k     +i+ +  + ++a+ + kn + da++a +p+   l +++ ++
  PHY93_09830|PHY93_09830 109 S-----NKSGILKIEDLNNKKLGSWRRSYGHHLLENIFLKngiRPKIIKVsMDSNSAVDEFKNQSLDAIFAWEPIPSILEDQKLAH 189
                              3.....334566667****************9*999888898844555432788888999***********999988887777777 PP

                              CEEEEECGGCECEEEEEEET CS
                              xxxxxxxxxxxxxxxxxxxx RF
                SBP_bac_3 174 kvvlveeplsseeyaiavrk 193
                              +++  e+  ++ +++i+ rk
  PHY93_09830|PHY93_09830 190 EIFNLEGHGDGVPVYIVTRK 209
                              77776666666666666665 PP

>> Vps23_core  Vps23 core domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.1     3e-05     0.077       2      31 ..     205     234 ..     204     244 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 3e-05
               Vps23_core   2 lvvaetplsnqllelvaedkAieDtiylLd 31 
                              +v+ ++++ n l+elva  +A++D+i+l  
  PHY93_09830|PHY93_09830 205 IVTRKSIVKNNLIELVAILRALNDAIHLAK 234
                              68899*********************9855 PP

>> Herpes_glycop_H  Herpesvirus glycoprotein H main domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0     5e-05      0.13     367     420 ..     236     289 ..     197     295 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 5e-05
                              HTT-GGG--HHHHHHHHHHHHHHHHHS.TTS---HHHHHHHH.....HHHHHHH CS
          Herpes_glycop_H 367 lseesknvsekalsqiaelllklYeryvltiaLttsaRetLldafvvlldrlpn 420
                               ++e +++ ++ ++  a++l+k+ er+ ++i Lt  +Re L+d+  + +++  n
  PHY93_09830|PHY93_09830 236 NGDEAAKIASSNIHVPAKILKKALERHEFKIGLTCRQRESLYDVVRIFREKNMN 289
                              4566778899999999**************************998887776655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (327 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       635  (0.0354175); expected 358.6 (0.02)
Passed bias filter:                      514  (0.0286686); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.38
# Mc/sec: 2558.25
//
Query:       PHY93_09835|PHY93_09835  [L=352]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.5e-12   47.9   0.0      4e-11   43.3   0.0    2.1  2  NMT1            NMT1/THI5 like
    1.6e-05   24.6   0.0    2.3e-05   24.1   0.0    1.2  1  Phosphonate-bd  ABC transporter, phosphonate, periplasmic sub
    0.00034   20.4   0.0     0.0015   18.2   0.0    2.0  2  NMT1_2          NMT1-like family
  ------ inclusion threshold ------
       0.13   12.3   0.2       0.41   10.7   0.0    1.8  2  UPF0154         Uncharacterised protein family (UPF0154)


Domain annotation for each model (and alignments):
>> NMT1  NMT1/THI5 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.3   0.0      0.03   1.4e+02       6      29 ..      13      36 ..      10      49 .. 0.86
   2 !   43.3   0.0   8.9e-15     4e-11      35     211 ..      67     247 ..      59     251 .. 0.83

  Alignments for each domain:
  == domain 1  score: 2.3 bits;  conditional E-value: 0.03
                             HHHHHHHTTHHHHTTEEEEEE--S CS
                     NMT1  6 glyvAkekGYFkeeGldVeivepa 29
                             +ly A+ +G + +e ++Ve++ ++
  PHY93_09835|PHY93_09835 13 MLYRAQLNGEYDKEEIKVELITKN 36
                             79*****************99875 PP

  == domain 2  score: 43.3 bits;  conditional E-value: 8.9e-15
                              HHHHHCTS-SEEEE-HHHHHHHHHTT--EEEEEEE....E-S--EEEEEECCC--SSGGGGTTSEEEE-S.-TTHHHHHHHHHHHT CS
                     NMT1  35 telvasgkadfgvsyqesllaarakglpvvsvaal....lqeplsglivlkdsgikspkDLkGkrigyvg.spfekallkallakd 115
                              ++l+ +gk d +   +  ++ a  ++  + +va+l    l++p  g++ + + +i++pkDLkG   g    s+ + ++l+++l ++
  PHY93_09835|PHY93_09835  67 VNLLIEGKLDGATIGEVAFIKAVLEKKSIIAVAQLgfdtLEHPGHGIVIRSGIKINTPKDLKGLIFGSRRsSGGDLIFLREFLLSE 152
                              678888888888888888888888999999999865555899*************************9886788999********* PP

                              T--GG.G-EEEE-..TT-HHHHHHCTSSSEEECEETTTHHHHHHHTT--EEEE-GGGTT-----SEEEEEEHHHHHH-HHHHHHHH CS
                     NMT1 116 ggdps.dvtlvnv.ggtslakalltgkvDaaiggyenwegvelesegkelrifaladlgvpdyyslvlitnekllkenpelvkkFl 199
                              g+dp+ dv+++++   ++  k++++g+++a++  +  + ++      k++ i  + ++  p++ + vl+ +ek+l+e+p+ v+k++
  PHY93_09835|PHY93_09835 153 GLDPDkDVEIIENiPEDKYLKYIADGTIQAGFSHLLSLRKLV---NRKKAYIYRPMNWINPELSQGVLVFSEKYLREHPDNVEKMI 235
                              **99637999976155666789*******9996665544444...5567888888999999************************* PP

                              HHHHHHHHHHHH CS
                     NMT1 200 rAlkkGyeyala 211
                              r + k + y + 
  PHY93_09835|PHY93_09835 236 RTYMKRISYEIS 247
                              *99887777665 PP

>> Phosphonate-bd  ABC transporter, phosphonate, periplasmic substrate-binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.1   0.0   5.1e-09   2.3e-05      41     174 ..      65     196 ..      59     265 .. 0.85

  Alignments for each domain:
  == domain 1  score: 24.1 bits;  conditional E-value: 5.1e-09
                              HHHHHHHTTS-SEEE--HHHHHHHHHHS-E.EEEEEEEETT--SEEEEEEEEETTSS--SHHHHGG-EEEE--TT-TTTTHHHHHH CS
           Phosphonate-bd  41 avvealragqvDiaflgplayvqardqagv.eplatrvrsdGsasyrsviivradsdiqsledLkgktiafvspsStsGylvpaal 125
                              ++v  l +g++D a +g  a+++a+ +++   ++a+    d  +     i+ r + +i++ +dLkg  ++f+s+ S +G l+ + +
  PHY93_09835|PHY93_09835  65 ELVNLLIEGKLDGATIGEVAFIKAVLEKKSiIAVAQLG-FDTLEHPGHGIVIRSGIKINTPKDLKG--LIFGSRRSSGGDLIFLRE 147
                              789999*******************8876615555555.6888999999999************98..578899999*****9999 PP

                              TCCCCT--HHHHSSEEEE--HHHHHHHHHTTSSSEEEEEHHHHHHHHHH CS
           Phosphonate-bd 126 Lvkeagldpeddfsevfsgshdaavlavlsgdadaaavsadaledlvae 174
                              ++   gldp++d +       d+ ++ +++g+++a++     l++lv++
  PHY93_09835|PHY93_09835 148 FLLSEGLDPDKDVEIIENIPEDKYLKYIADGTIQAGFSHLLSLRKLVNR 196
                              999*************999******************988888888855 PP

>> NMT1_2  NMT1-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0      0.79   3.6e+03       9      41 ..       2      34 ..       1      36 [. 0.86
   2 !   18.2   0.0   3.4e-07    0.0015      44     231 ..      62     238 ..      54     244 .. 0.77

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 0.79
                   NMT1_2  9 klGfialtdaaplvvakekglfakeGltvelek 41
                             ++G++       l  a+ +g ++ke ++vel++
  PHY93_09835|PHY93_09835  2 RIGYFHGGRTLMLYRAQLNGEYDKEEIKVELIT 34
                             799999999999999999999999999999986 PP

  == domain 2  score: 18.2 bits;  conditional E-value: 3.4e-07
                   NMT1_2  44 swaelrdkllagelDaahvltpapllidlGiggakadmkvlasl.....nlnGqaitlsnklkdkkvsdakalkdlvakkkaskpl 124
                               + el++ l++g+lD+a +  + +  i+  +  +k+ ++++a+l     ++ G +i+++ +      ++ +  kdl       k+l
  PHY93_09835|PHY93_09835  62 TGDELVNLLIEGKLDGATI--GEVAFIKAVL--EKKSIIAVAQLgfdtlEHPGHGIVIRSG------IKINTPKDL-------KGL 130
                              5678889999*********..6666677777..5677777777511111567999999988......999999999.......89* PP

                   NMT1_2 125 kiavtfpgsthdlllrywLaaaGldpeadvklvvvpp.pqmvanlkagtidgfcvgePwnaqavaegiGvtaltsqelwkdhPekv 209
                               ++    ++   + lr +L ++Gldp++dv+++   p  +  +  + gti++ ++      ++v+++  ++    + +    Pe  
  PHY93_09835|PHY93_09835 131 IFGSRRSSGGDLIFLREFLLSEGLDPDKDVEIIENIPeDKYLKYIADGTIQAGFSHLLSLRKLVNRKKAYIYRPMNWIN---PELS 213
                              ********************************97555499999999999998777655556777777767777777773...4443 PP

                   NMT1_2 210 ...lgvredfveknpntaralvkal 231
                                 l+++e+++ ++p+ +++++++ 
  PHY93_09835|PHY93_09835 214 qgvLVFSEKYLREHPDNVEKMIRTY 238
                              3337777777777777777777765 PP

>> UPF0154  Uncharacterised protein family (UPF0154)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   9.1e-05      0.41      20      40 ..     220     240 ..     216     245 .. 0.90
   2 ?   -2.8   0.0       1.5   6.9e+03      16      32 ..     334     350 ..     332     351 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 9.1e-05
                  UPF0154  20 mkkqlkenPpinekmirammk 40 
                               +k+l+e+P   ekmir+ mk
  PHY93_09835|PHY93_09835 220 SEKYLREHPDNVEKMIRTYMK 240
                              59***************9887 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 1.5
                  UPF0154  16 arkymkkqlkenPpine 32 
                              +r  ++k+ k  P+ +e
  PHY93_09835|PHY93_09835 334 SRETFSKKVKADPQDKE 350
                              78999999999998655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (352 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       399  (0.0222544); expected 358.6 (0.02)
Passed bias filter:                      327  (0.0182386); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.51u 0.22s 00:00:00.73 Elapsed: 00:00:00.40
# Mc/sec: 2621.88
//
Query:       PHY93_09840|PHY93_09840  [L=641]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      1e-42  146.1   0.0    1.6e-42  145.4   0.0    1.3  1  Peptidase_S9   Prolyl oligopeptidase family
    5.1e-07   29.5   0.0    1.7e-06   27.7   0.0    1.9  1  DLH            Dienelactone hydrolase family
    8.9e-07   28.8   0.1     0.0099   15.5   0.1    2.3  2  Abhydrolase_1  alpha/beta hydrolase fold
    2.7e-05   23.9   0.0      0.033   13.8   0.1    2.5  2  Peptidase_S15  X-Pro dipeptidyl-peptidase (S15 family)
  ------ inclusion threshold ------
      0.038   14.1   0.0      0.084   13.0   0.0    1.5  1  Abhydrolase_4  TAP-like protein
      0.082   12.8   0.1        1.2    9.0   0.1    2.3  1  BAAT_C         BAAT / Acyl-CoA thioester hydrolase C terminal


Domain annotation for each model (and alignments):
>> Peptidase_S9  Prolyl oligopeptidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  145.4   0.0   5.4e-46   1.6e-42       2     208 ..     437     641 .]     436     641 .] 0.94

  Alignments for each domain:
  == domain 1  score: 145.4 bits;  conditional E-value: 5.4e-46
                              ---.HHHHHHHCCT-EEEEE--TTSSTTHCHHHHTTSGGGGHHHHHHHHHHHHHHHHTTS--GGGEEEEEETHHHHHHHHHHHH-G CS
             Peptidase_S9   2 sfs.selqlladrGyvvvvanirGsggyGeafhdagkrklgqnefdDfiaaaealakegyvdserlaitGgSyGGyltgaalnqrp 86 
                               fs ++ ++l  +G++++ +nirGs+gyG+++ da ++ +  n ++D+ +a  +l k++y  +++++++GgSyGGy t+ a+++  
  PHY93_09840|PHY93_09840 437 GFSpHKENFL-REGFIYAEPNIRGSSGYGKKWLDADNGAKRLNVITDIEDAGIFL-KQKYG-AKKIGVMGGSYGGYSTLYAMTRFA 519
                              6887888899.9************************************9999888.55555.79********************** PP

                              GG-SEEEEESE---CCCHHCSTTSTHH..HCCCC--TTTCHHHHHHHHHH-CGGG-----EEEEEEETT-SSS-THHHHHHHHHHH CS
             Peptidase_S9  87 dlFkaavaevpvvdvlrydsdtdllte..eymewgnpeeneegykelspyspldnvkaypplLlihGlaDdrvppaealklvaaLq 170
                               +F+a+va+v+++ ++++  +t  + +  +  e+g+p+++ e  kelsp+++ d+   + pl++++G +D rvp+ ea+++ +  +
  PHY93_09840|PHY93_09840 520 GTFDAGVANVGMSSLVTFLMNTAPYRRplRISEYGDPKKDLEALKELSPITHIDK--LKSPLMIVQGVNDPRVPVGEAVQFKKFAD 603
                              ********************986655559**************************..99*************************** PP

                              --S-SEEEEEETTS-SSTTSSHHHHHHHHHHHHHHHHH CS
             Peptidase_S9 171 kkgknvlllifpdegHgvgkprakveelarllaFlkea 208
                              +kg +v+l+ f degHg++k ++++ el ++ +F++++
  PHY93_09840|PHY93_09840 604 QKGIPVELVLFADEGHGASKRNNQAMELTKTIEFFNKY 641
                              ***********************************985 PP

>> DLH  Dienelactone hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.7   0.0   5.8e-10   1.7e-06      77     195 ..     478     627 ..     465     640 .. 0.90

  Alignments for each domain:
  == domain 1  score: 27.7 bits;  conditional E-value: 5.8e-10
                      DLH  77 kvlddlkaavaylksvpevstkkvgvvGfCmGGalalllaaev.pevdaavafYG............................... 130
                              +v  d+++a  +lk++     kk+gv+G   GG  +l+  ++   ++da va  G                               
  PHY93_09840|PHY93_09840 478 NVITDIEDAGIFLKQKY--GAKKIGVMGGSYGGYSTLYAMTRFaGTFDAGVANVGmsslvtflmntapyrrplriseygdpkkdle 561
                              56667767766777665..889********************999****************************************9 PP

                      DLH 131 .lspekeleeaakikapilalfgeeDefipadevekleealkaanvdlelkvYpgagHaFandsre 195
                               l+  +++++++k+k p++++ g +D+ +p +e+ ++++   ++++++el+++++ gH+  +++++
  PHY93_09840|PHY93_09840 562 aLKELSPITHIDKLKSPLMIVQGVNDPRVPVGEAVQFKKFADQKGIPVELVLFADEGHGASKRNNQ 627
                              999999****************************************************97776665 PP

>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.1   3.3e-06    0.0099       1     100 [.     421     524 ..     421     558 .. 0.76
   2 !   11.3   0.0   6.5e-05      0.19     188     251 ..     559     620 ..     537     623 .. 0.72

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 3.3e-06
                              SEEEEE-STTTCGGG..GTTGHHHHHHHHTTSEEEEEEETTS.TTSSSTTTGB...CHHSHHHHHHHHH.HHHHHCTTSSEEEEEE CS
            Abhydrolase_1   1 pvlvilhGlpgssdv..waerglapaLakdgfdvillDlrGv.gySspapacin..ddygtasvaddld.rildalgddkltlvGh 80 
                              pv+v +hG+p++     +      +++ ++gf +  ++ rG+ gy++++++  n  ++ + ++  +d   ++++++g +k+ ++G+
  PHY93_09840|PHY93_09840 421 PVIVHFHGGPEGQTQpgFSP--HKENFLREGFIYAEPNIRGSsGYGKKWLDADNgaKRLNVITDIEDAGiFLKQKYGAKKIGVMGG 504
                              68899999999444333333..44677777999999*****5499999999877888888888888888788************** PP

                              THHHHHHHHHHHHHGGGEEE CS
            Abhydrolase_1  81 SmGGmialayaaeyperVka 100
                              S+GG   l++  ++    +a
  PHY93_09840|PHY93_09840 505 SYGGYSTLYAMTRFAGTFDA 524
                              ****9988888777554544 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 6.5e-05
                              HHHHHHHCCHHHHHHHHHCTHHHHSEEEEEEETTCSSSCHHHHHHHHHCHTS....EEEEEEETCSSS CS
            Abhydrolase_1 188 sieqwpttdsaklllrlrelknvlaptlvisgtsDplvppkaledlaqllpk....krlvvisdagHl 251
                              ++e  +++           +++ ++p ++++g +Dp vp ++ +++++   +    ++lv ++d+gH 
  PHY93_09840|PHY93_09840 559 DLEALKELSPITH------IDKLKSPLMIVQGVNDPRVPVGEAVQFKKFADQkgipVELVLFADEGHG 620
                              3344444444444......444555**********************9955555777**********6 PP

>> Peptidase_S15  X-Pro dipeptidyl-peptidase (S15 family)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.8   0.1   1.1e-05     0.033       1     140 [.     401     536 ..     401     542 .. 0.71
   2 !    7.4   0.0   0.00098       2.9     209     258 ..     557     606 ..     538     615 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 1.1e-05
                              TS-EEEEEEEEE..TTSSSEEEEEEEESS-CCT.CCCCHTTCHHCCHGGGHHHHHTT-EEEEEE-TTSTTS-S---TTTTTHHHHH CS
            Peptidase_S15   1 DGvrLavdiyrPetkskeklPvlltrtPYgkndelasdkalaleelelqdkvfvarGYavVvqdvrGtggSeGeftvgdsdeaedg 86 
                              DG+++   + +P++ +k  +Pv+++               +++++ + ++++f+++G++    ++rG+ g  G+    d d  +  
  PHY93_09840|PHY93_09840 401 DGTKIPYFVRIPKACEKISCPVIVHFHGGP--------EGQTQPGFSPHKENFLREGFIYAEPNIRGSSGY-GKKWL-DADNGAKR 476
                              566666666666555666666666533222........122223333333458999999998888886543.44333.67777778 PP

                              HHHHHHHHH......CTTEEEEEEEEEECHHHHHHHHHCTT--TTEEEEEEECE-S-TCC CS
            Peptidase_S15  87 advidWlak......qpwsnGkVgmtGiSYlGttqllaaatgvpalkaivpeaaisdlyd 140
                               +vi  +        q++   k+g++G SY+G+  l+a ++     +a v+ +++s+l++
  PHY93_09840|PHY93_09840 477 LNVITDIEDagiflkQKYGAKKIGVMGGSYGGYSTLYAMTRFAGTFDAGVANVGMSSLVT 536
                              8888888778888877999*************************************9987 PP

  == domain 2  score: 7.4 bits;  conditional E-value: 0.00098
                              -SSSHHHHTT-HHHHHCT--S-EEEEEECCSSTTCCHHHHHHHHHCCTT- CS
            Peptidase_S15 209 gdydafWkdrnlsedadkvkapvllvgGwnDwnvkngaiklyealkapgv 258
                              ++  ++ k+ ++ +++dk+k p+++v+G nD  v  g    +++  +++ 
  PHY93_09840|PHY93_09840 557 KKDLEALKELSPITHIDKLKSPLMIVQGVNDPRVPVGEAVQFKKFADQKG 606
                              55667788899999*****************7777777777877777665 PP

>> Abhydrolase_4  TAP-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   2.8e-05     0.084      34      84 ..     576     630 ..     562     639 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 2.8e-05
            Abhydrolase_4  34 aapvLllqnerDpaTPyegakklakalgg.a...vlvtvegeGHgalaagntCvd 84 
                              ++p +++q+ +Dp +P   a +++k   + +   +lv   +eGHga++++n++++
  PHY93_09840|PHY93_09840 576 KSPLMIVQGVNDPRVPVGEAVQFKKFADQkGipvELVLFADEGHGASKRNNQAME 630
                              5899***************999888777655777999**********99999875 PP

>> BAAT_C  BAAT / Acyl-CoA thioester hydrolase C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0   0.1   0.00041       1.2       8      60 ..     485     536 ..     483     621 .. 0.79

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.00041
                              HHHHHHHCSTTB--SSEEEEEETHHHHHHHHHHHHSS.SEEEEEEES--SB--S CS
                   BAAT_C   8 eainyllrhpkvkkdkigllGiSkGgelalllasflk.kisavvlingsavvve 60 
                              +a  +l+++     +kig++G S Gg  +l+  +++    +a v+++g +  v 
  PHY93_09840|PHY93_09840 485 DAGIFLKQKYGA--KKIGVMGGSYGGYSTLYAMTRFAgTFDAGVANVGMSSLVT 536
                              555677777555..5**************9988888879999999999766554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (641 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       479  (0.0267165); expected 358.6 (0.02)
Passed bias filter:                      417  (0.0232584); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.62u 0.26s 00:00:00.88 Elapsed: 00:00:00.40
# Mc/sec: 4838.62
//
Query:       PHY93_16730|PHY93_16730  [L=1078]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.1e-32  109.5  32.9     0.0007   19.5   0.0   14.3 13  TPR_2        Tetratricopeptide repeat
    4.4e-32  110.4  26.0    4.8e-05   23.8   0.1   10.3 10  TPR_19       Tetratricopeptide repeat
    1.7e-26   90.6  17.9      0.044   14.6   0.1   13.5 13  TPR_14       Tetratricopeptide repeat
    4.9e-24   84.7   9.9    0.00029   21.4   0.0   10.3 10  TPR_16       Tetratricopeptide repeat
    1.6e-18   65.3  38.9      0.041   14.1   0.0   13.9 14  TPR_8        Tetratricopeptide repeat
    2.1e-18   65.7  16.5    3.1e-05   23.5   0.2    9.2 10  TPR_11       TPR repeat
    4.5e-17   61.1  26.2      0.011   15.5   0.0   12.6 13  TPR_1        Tetratricopeptide repeat
    5.7e-16   57.7  24.0       0.13   12.7   0.1   12.9 13  TPR_17       Tetratricopeptide repeat
    1.3e-09   38.2  23.1       0.62   10.4   0.0    9.1 10  TPR_12       Tetratricopeptide repeat
    1.4e-09   38.1  19.3       0.21   11.9   0.1    8.3  8  ANAPC3       Anaphase-promoting complex, cyclosome, subunit 3
    2.2e-09   36.7  10.8        1.5    9.0   0.1   10.0 11  TPR_7        Tetratricopeptide repeat
    3.5e-09   36.7   7.9     0.0025   17.9   0.6    5.9  6  TPR_9        Tetratricopeptide repeat
    1.4e-06   28.6  26.1        1.7    9.4   0.4   10.7 10  TPR_6        Tetratricopeptide repeat
    1.6e-06   27.7   2.3     0.0045   16.4   0.2    4.2  5  TPR_MalT     MalT-like TPR region
    7.4e-06   25.4  18.2       0.13   11.5   0.1    5.2  4  TPR_15       Tetratricopeptide repeat
    0.00074   20.0   0.5       0.23   11.9   0.3    4.3  5  BTAD         Bacterial transcriptional activator domain
    0.00086   19.1   7.1        2.9    7.6   0.2    5.7  5  TOM20_plant  Plant specific mitochondrial import receptor sub
    0.00091   19.0   6.1        9.8    6.2   0.0    7.1  7  TPR_10       Tetratricopeptide repeat
     0.0011   18.7   0.4         29    4.3   0.0    4.4  4  HrpB1_HrpK   Bacterial type III secretion protein (HrpB1_HrpK
     0.0027   17.4  11.0     0.0042   16.8   0.1    5.2  6  TPR_21       Tetratricopeptide repeat-like domain
     0.0028   17.4   0.0     0.0073   16.1   0.0    1.8  1  GYF_2        GYF domain 2
  ------ inclusion threshold ------
      0.014   15.4   0.2      0.014   15.4   0.2    2.6  1  Suf          Suppressor of forked protein (Suf)
        0.3   11.5   6.5       0.14   12.5   0.7    2.6  2  PBP1_TM      Transmembrane domain of transglycosylase PBP1 at
        0.7    9.7  12.3       0.32   10.9  10.0    1.4  1  Myc_N        Myc amino-terminal region
        2.9    8.3  15.9         18    5.7   0.0    5.8  6  TPR_20       Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.5   0.0      0.59   4.3e+02      10      26 ..     467     483 ..     466     484 .. 0.88
   2 ?    6.3   0.1     0.017        12       2      34 .]     493     525 ..     492     525 .. 0.96
   3 !   11.2   0.1   0.00044      0.31       1      32 [.     565     596 ..     565     598 .. 0.92
   4 ?    5.8   0.0     0.025        18      12      34 .]     669     691 ..     666     691 .. 0.90
   5 !    9.3   0.1    0.0018       1.3       6      32 ..     732     758 ..     727     760 .. 0.91
   6 !   10.5   0.1   0.00074      0.53       5      34 .]     765     794 ..     762     794 .. 0.94
   7 ?    4.4   0.0     0.068        49       1      29 [.     795     823 ..     795     827 .. 0.93
   8 ?    3.1   0.1      0.18   1.3e+02       2      19 ..     830     847 ..     829     858 .. 0.81
   9 ?    6.4   0.0     0.016        12       6      27 ..     902     923 ..     898     926 .. 0.89
  10 !   15.4   0.0   2.1e-05     0.015       1      33 [.     931     963 ..     931     964 .. 0.95
  11 !   19.5   0.0   9.8e-07    0.0007       3      33 ..     967     997 ..     966     998 .. 0.94
  12 !   13.7   0.2     7e-05      0.05       2      34 .]    1000    1032 ..     999    1032 .. 0.95
  13 !   13.4   0.3   8.9e-05     0.064       1      33 [.    1033    1065 ..    1033    1066 .. 0.95

  Alignments for each domain:
  == domain 1  score: 1.5 bits;  conditional E-value: 0.59
                    TPR_2  10 ayyklgdyeeAleafek 26 
                              +++++gd+ eA++ + k
  PHY93_16730|PHY93_16730 467 LLINAGDLVEARKTYTK 483
                              57899*********998 PP

  == domain 2  score: 6.3 bits;  conditional E-value: 0.017
                    TPR_2   2 ealynlGlayyklgdyeeAleafekAleldPnn 34 
                              ea+y l+   + ++++++A+   ++ l+++Pnn
  PHY93_16730|PHY93_16730 493 EAYYSLAHFSEVADQPADARSIIDEGLKYYPNN 525
                              89******************************8 PP

  == domain 3  score: 11.2 bits;  conditional E-value: 0.00044
                    TPR_2   1 aealynlGlayyklgdyeeAleafekAleldP 32 
                              a+ +y +Gl+ + +++y+eA  +f+++l++ +
  PHY93_16730|PHY93_16730 565 ARFYYHMGLLSALKNKYKEATIFFKRSLAIKE 596
                              679*************************9865 PP

  == domain 4  score: 5.8 bits;  conditional E-value: 0.025
                    TPR_2  12 yklgdyeeAleafekAleldPnn 34 
                              +++g ++ A++ ++kA+ l+P+n
  PHY93_16730|PHY93_16730 669 LRRGLFDSAINTLQKAIGLNPGN 691
                              78899****************87 PP

  == domain 5  score: 9.3 bits;  conditional E-value: 0.0018
                    TPR_2   6 nlGlayyklgdyeeAleafekAleldP 32 
                               +G+ y+++++   A +++++Al+ dP
  PHY93_16730|PHY93_16730 732 LMGDFYLARNNIPLAMRWYNEALSRDP 758
                              68999********************99 PP

  == domain 6  score: 10.5 bits;  conditional E-value: 0.00074
                    TPR_2   5 ynlGlayyklgdyeeAleafekAleldPnn 34 
                              ++++++ ++ ++++eA+  + +Al ldP+n
  PHY93_16730|PHY93_16730 765 FQMAKIFLRIKKFNEAKSRLARALLLDPKN 794
                              8899************************97 PP

  == domain 7  score: 4.4 bits;  conditional E-value: 0.068
                    TPR_2   1 aealynlGlayyklgdyeeAleafekAle 29 
                              ae+l   +++ +++++ + A+ +++ A++
  PHY93_16730|PHY93_16730 795 AEYLSTNAEIFFEQDNTDTAIGYLRDAIS 823
                              7899999******************9986 PP

  == domain 8  score: 3.1 bits;  conditional E-value: 0.18
                    TPR_2   2 ealynlGlayyklgdyee 19 
                              ++l +++ +yyk+g+ +e
  PHY93_16730|PHY93_16730 830 KLLSAIAILYYKSGQIKE 847
                              78999**********988 PP

  == domain 9  score: 6.4 bits;  conditional E-value: 0.016
                    TPR_2   6 nlGlayyklgdyeeAleafekA 27 
                               lG+ +++l++y +A++ +e++
  PHY93_16730|PHY93_16730 902 DLGEFLFNLKRYPDAIAELEEV 923
                              59999*************9986 PP

  == domain 10  score: 15.4 bits;  conditional E-value: 2.1e-05
                    TPR_2   1 aealynlGlayyklgdyeeAleafekAleldPn 33 
                              +++++ l+++y++ +d ++A+e   k lel+P 
  PHY93_16730|PHY93_16730 931 PKVHFLLARIYLATNDVKKAKEMALKELELNPS 963
                              589*****************************6 PP

  == domain 11  score: 19.5 bits;  conditional E-value: 9.8e-07
                    TPR_2   3 alynlGlayyklgdyeeAleafekAleldPn 33 
                              a++  G++++  +dy eA+  +ekA++l+P+
  PHY93_16730|PHY93_16730 967 AHFIVGEVARIEKDYREAILKYEKAISLNPK 997
                              78999*************************7 PP

  == domain 12  score: 13.7 bits;  conditional E-value: 7e-05
                    TPR_2    2 ealynlGlayyklgdyeeAleafekAleldPnn 34  
                               eal+++G++ ++++  +e +e++++Al+ d +n
  PHY93_16730|PHY93_16730 1000 EALMAMGWIRLAQNYANESIELYNRALREDKTN 1032
                               89***************************9987 PP

  == domain 13  score: 13.4 bits;  conditional E-value: 8.9e-05
                    TPR_2    1 aealynlGlayyklgdyeeAleafekAleldPn 33  
                               +e++ ++Glay ++g+ + A+e fe  l+l P+
  PHY93_16730|PHY93_16730 1033 PEIHKQMGLAYKAAGQRALAKEKFEDYLKLSPG 1065
                               68999**************************96 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.8   0.0    0.0033       2.3      19      62 ..     452     496 ..     437     500 .. 0.74
   2 ?    3.6   0.1      0.14        99       5      36 ..     506     537 ..     504     541 .. 0.86
   3 !   13.2   0.0   0.00013     0.095       2      57 ..     635     690 ..     634     696 .. 0.89
   4 !   13.9   0.0   8.4e-05      0.06       2      66 ..     669     734 ..     668     736 .. 0.93
   5 !   15.9   0.2     2e-05     0.014       2      63 ..     738     799 ..     737     804 .. 0.89
   6 !   20.8   0.0   5.9e-07   0.00042       2      59 ..     806     863 ..     805     869 .. 0.91
   7 !   19.7   0.0   1.2e-06   0.00089      16      54 ..     888     926 ..     883     934 .. 0.88
   8 !   12.0   0.0   0.00033      0.24      24      48 ..     930     954 ..     926     967 .. 0.85
   9 !   23.8   0.1   6.7e-08   4.8e-05       3      62 ..     977    1036 ..     975    1039 .. 0.95
  10 !   11.4   1.8   0.00051      0.36       8      57 ..    1016    1065 ..    1009    1076 .. 0.84

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.0033
                   TPR_19  19 qedpknaearllLAeallalgqldeAealLdalpeedpdd.arya 62 
                              ++ p ++ +++++ ++l+++g+l eA+++  +l    ++  ++y 
  PHY93_16730|PHY93_16730 452 AKGPASSKLLAYYLDLLINAGDLVEARKTYTKLKGTPKKPfEAYY 496
                              5679999999*******************9988776666444444 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.14
                   TPR_19   5 gdyaeAlalleqalqedpknaearllLAeall 36 
                               ++a+A ++  + l+++p+n  ++l  A+ ll
  PHY93_16730|PHY93_16730 506 DQPADARSIIDEGLKYYPNNVLLLLKSADYLL 537
                              58999999****9******9999998887666 PP

  == domain 3  score: 13.2 bits;  conditional E-value: 0.00013
                   TPR_19   2 laegdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeedpd 57 
                              l+++++++A ++  +a++ +p++  a ll  +++l  g +d A+++L+++   +p 
  PHY93_16730|PHY93_16730 635 LKNNNLEAAFSYSIEAIDTSPDYVPAILLQTQLQLRRGLFDSAINTLQKAIGLNPG 690
                              678899999999999*************99******************98776665 PP

  == domain 4  score: 13.9 bits;  conditional E-value: 8.4e-05
                   TPR_19   2 laegdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeedpdd.aryasLlA 66 
                              l +g +++A++ l++a+  +p+n  ++ +L+ a++++  +++ + +L +l +++     +yasL++
  PHY93_16730|PHY93_16730 669 LRRGLFDSAINTLQKAIGLNPGNNVLKKNLVLAYMKAYKFEDSQLVLVELSQSKFAFgNAYASLMG 734
                              568889*****************************************9999999997799999985 PP

  == domain 5  score: 15.9 bits;  conditional E-value: 2e-05
                   TPR_19   2 laegdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeedpddaryas 63 
                              la+++   A++ + +al+ dp +++   ++A++ l  + ++eA+  L+++++ dp++a+y s
  PHY93_16730|PHY93_16730 738 LARNNIPLAMRWYNEALSRDPLSDYDMFQMAKIFLRIKKFNEAKSRLARALLLDPKNAEYLS 799
                              566777779999**********7777777****************************99965 PP

  == domain 6  score: 20.8 bits;  conditional E-value: 5.9e-07
                   TPR_19   2 laegdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeedpdda 59 
                              +++ + + A+ +l+ a++e  +++ ++ + A++++++gq++e ++  ++++e  + d+
  PHY93_16730|PHY93_16730 806 FEQDNTDTAIGYLRDAISEIGEDPKLLSAIAILYYKSGQIKEFQNYYKRIQELPKRDE 863
                              7999*********************************************999776665 PP

  == domain 7  score: 19.7 bits;  conditional E-value: 1.2e-06
                   TPR_19  16 qalqedpknaearllLAeallalgqldeAealLdalpee 54 
                              ++l+ +p+n+ +rl+L e l++l+++ +A+a L+++ ++
  PHY93_16730|PHY93_16730 888 ELLKLNPGNLKIRLDLGEFLFNLKRYPDAIAELEEVRAK 926
                              67999*****************************98876 PP

  == domain 8  score: 12.0 bits;  conditional E-value: 0.00033
                   TPR_19  24 naearllLAeallalgqldeAealL 48 
                              ++ +  lLA+++la++++++A+++ 
  PHY93_16730|PHY93_16730 930 YPKVHFLLARIYLATNDVKKAKEMA 954
                              678899****************985 PP

  == domain 9  score: 23.8 bits;  conditional E-value: 6.7e-08
                   TPR_19    3 aegdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeedpddarya 62  
                                e+dy eA+  +e+a++ +pk+ ea++++  + la++  +e ++l +++++ed+ +++++
  PHY93_16730|PHY93_16730  977 IEKDYREAILKYEKAISLNPKSVEALMAMGWIRLAQNYANESIELYNRALREDKTNPEIH 1036
                               689***************************************************999987 PP

  == domain 10  score: 11.4 bits;  conditional E-value: 0.00051
                   TPR_19    8 aeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeedpd 57  
                                e ++l+ +al ed  n+e+  ++  a+ a+gq + A++  +++++  p 
  PHY93_16730|PHY93_16730 1016 NESIELYNRALREDKTNPEIHKQMGLAYKAAGQRALAKEKFEDYLKLSPG 1065
                               56799********************************9977777776665 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.0      0.59   4.2e+02       3      25 ..     460     482 ..     458     485 .. 0.87
   2 !    8.1   0.0    0.0074       5.3       2      40 ..     493     531 ..     492     534 .. 0.92
   3 ?    1.7   0.0      0.83     6e+02       7      40 ..     630     663 ..     626     667 .. 0.85
   4 !   10.3   0.0    0.0015         1       7      39 ..     664     696 ..     658     703 .. 0.82
   5 !    9.7   0.0    0.0024       1.7       6      42 ..     732     768 ..     727     770 .. 0.82
   6 ?    4.8   0.1     0.088        63       6      37 ..     766     797 ..     763     799 .. 0.93
   7 !    9.0   0.0    0.0038       2.8       8      34 ..     802     828 ..     802     832 .. 0.83
   8 ?    5.0   0.0     0.073        53       1      41 [.     829     869 ..     829     874 .. 0.81
   9 !   14.6   0.1   6.2e-05     0.044       3      44 .]     899     940 ..     897     940 .. 0.95
  10 ?    6.7   0.0     0.021        15       2      38 ..     932     968 ..     931     974 .. 0.88
  11 !   10.7   0.0    0.0011      0.79       8      42 ..     972    1006 ..     966    1008 .. 0.89
  12 !   14.6   0.1   6.2e-05     0.045       1      42 [.     999    1040 ..     999    1042 .. 0.95
  13 !    9.6   0.1    0.0025       1.8       1      35 [.    1033    1067 ..    1033    1076 .. 0.91

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.59
                   TPR_14   3 allalaeallalGdpdeAiallr 25 
                              +l+ ++++l ++Gd+ eA++ + 
  PHY93_16730|PHY93_16730 460 LLAYYLDLLINAGDLVEARKTYT 482
                              678899*************9885 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.0074
                   TPR_14   2 eallalaeallalGdpdeAiallrralalaPddaeawll 40 
                              ea++ la++ + +++p++A+ + ++ l+ +P++  ++l 
  PHY93_16730|PHY93_16730 493 EAYYSLAHFSEVADQPADARSIIDEGLKYYPNNVLLLLK 531
                              89*******************************998876 PP

  == domain 3  score: 1.7 bits;  conditional E-value: 0.83
                   TPR_14   7 laeallalGdpdeAiallrralalaPddaeawll 40 
                               a+a+l + ++++A  +  +a+++ Pd   a ll
  PHY93_16730|PHY93_16730 630 KAQAELKNNNLEAAFSYSIEAIDTSPDYVPAILL 663
                              589999*********************9877665 PP

  == domain 4  score: 10.3 bits;  conditional E-value: 0.0015
                   TPR_14   7 laeallalGdpdeAiallrralalaPddaeawl 39 
                                ++ l++G +d Ai+ l++a+ l+P++ ++  
  PHY93_16730|PHY93_16730 664 QTQLQLRRGLFDSAINTLQKAIGLNPGNNVLKK 696
                              557889********************9877664 PP

  == domain 5  score: 9.7 bits;  conditional E-value: 0.0024
                   TPR_14   6 alaeallalGdpdeAiallrralalaPddaeawllla 42 
                              ++++++la+ +   A++ +++al+++P ++   +++a
  PHY93_16730|PHY93_16730 732 LMGDFYLARNNIPLAMRWYNEALSRDPLSDYDMFQMA 768
                              6799***********************8776666665 PP

  == domain 6  score: 4.8 bits;  conditional E-value: 0.088
                   TPR_14   6 alaeallalGdpdeAiallrralalaPddaea 37 
                              ++a+++l+  ++ eA   l ral l+P++ae+
  PHY93_16730|PHY93_16730 766 QMAKIFLRIKKFNEAKSRLARALLLDPKNAEY 797
                              78999************************986 PP

  == domain 7  score: 9.0 bits;  conditional E-value: 0.0038
                   TPR_14   8 aeallalGdpdeAiallrralalaPdd 34 
                              ae++++++++d+Ai +lr+a++   +d
  PHY93_16730|PHY93_16730 802 AEIFFEQDNTDTAIGYLRDAISEIGED 828
                              78999***************9964444 PP

  == domain 8  score: 5.0 bits;  conditional E-value: 0.073
                   TPR_14   1 peallalaeallalGdpdeAiallrralalaPddaeawlll 41 
                              p++l a+a +++ +G+ +e  ++++r+ +l   d++++ +l
  PHY93_16730|PHY93_16730 829 PKLLSAIAILYYKSGQIKEFQNYYKRIQELPKRDEAFYEFL 869
                              578899*********************76555666666555 PP

  == domain 9  score: 14.6 bits;  conditional E-value: 6.2e-05
                   TPR_14   3 allalaeallalGdpdeAiallrralalaPddaeawlllaql 44 
                               +l+l+e+l++l ++ +Aia l+++ a+  + + +++lla++
  PHY93_16730|PHY93_16730 899 IRLDLGEFLFNLKRYPDAIAELEEVRAKLVSYPKVHFLLARI 940
                              589*************************************96 PP

  == domain 10  score: 6.7 bits;  conditional E-value: 0.021
                   TPR_14   2 eallalaeallalGdpdeAiallrralalaPddaeaw 38 
                              +++ +la+++la  d ++A +++ + l+l+P+ + a+
  PHY93_16730|PHY93_16730 932 KVHFLLARIYLATNDVKKAKEMALKELELNPSLDSAH 968
                              56789******************9999****987776 PP

  == domain 11  score: 10.7 bits;  conditional E-value: 0.0011
                   TPR_14    8 aeallalGdpdeAiallrralalaPddaeawllla 42  
                               +e+ +   d++eAi  +++a++l+P++ ea+++++
  PHY93_16730|PHY93_16730  972 GEVARIEKDYREAILKYEKAISLNPKSVEALMAMG 1006
                               67888899***********************9987 PP

  == domain 12  score: 14.6 bits;  conditional E-value: 6.2e-05
                   TPR_14    1 peallalaeallalGdpdeAiallrralalaPddaeawllla 42  
                               +eal+a++++ la+    e+i+l++ral+ + +++e++ +++
  PHY93_16730|PHY93_16730  999 VEALMAMGWIRLAQNYANESIELYNRALREDKTNPEIHKQMG 1040
                               589***********************************9987 PP

  == domain 13  score: 9.6 bits;  conditional E-value: 0.0025
                   TPR_14    1 peallalaeallalGdpdeAiallrralalaPdda 35  
                               pe +++++ a+ a+G+ + A + ++++l+l P+ a
  PHY93_16730|PHY93_16730 1033 PEIHKQMGLAYKAAGQRALAKEKFEDYLKLSPGAA 1067
                               67899**************************9765 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.9   0.0      0.12        84      10      61 ..     436     485 ..     433     494 .. 0.81
   2 ?   -0.9   0.0       3.7   2.7e+03      12      46 ..     507     538 ..     496     544 .. 0.86
   3 ?    2.5   0.0      0.32   2.3e+02      29      64 ..     560     595 ..     557     599 .. 0.84
   4 ?    5.3   0.0     0.044        31       3      67 ..     630     691 ..     628     692 .. 0.79
   5 ?    4.4   0.0     0.086        62      41      65 ..     734     758 ..     699     761 .. 0.89
   6 !   13.9   0.0   8.7e-05     0.063       2      61 ..     766     822 ..     765     830 .. 0.91
   7 !   14.9   0.0   4.4e-05     0.031      13      60 ..     879     923 ..     871     931 .. 0.87
   8 !   21.4   0.0     4e-07   0.00029       2      65 ..     936     996 ..     935     998 .. 0.94
   9 !   19.2   0.1     2e-06    0.0014      11      68 .]     979    1033 ..     978    1033 .. 0.93
  10 ?    4.1   0.9       0.1        75       3      35 ..    1039    1068 ..    1037    1071 .. 0.88

  Alignments for each domain:
  == domain 1  score: 3.9 bits;  conditional E-value: 0.12
                   TPR_16  10 agdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraal 61 
                               g+y+  +++ + + ++ +  P+    l ++ d++  +g+l eA+  y ++ 
  PHY93_16730|PHY93_16730 436 IGKYQTGINVIKNYFRAKG--PASSKLLAYYLDLLINAGDLVEARKTYTKLK 485
                              5899999999966666665..99999999999*************9888864 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 3.7
                   TPR_16  12 dyddAaaaleaalkrdpssPdaaeAllllgdaalr 46 
                              +++dA+   ++ lk++   P ++  ll ++d +l+
  PHY93_16730|PHY93_16730 507 QPADARSIIDEGLKYY---PNNVLLLLKSADYLLK 538
                              789999999999****...9999999999999886 PP

  == domain 3  score: 2.5 bits;  conditional E-value: 0.32
                   TPR_16  29 ssPdaaeAllllgdaalrqgrlaeAaalyraalraa 64 
                              s+ ++a+++++ g++ + ++ ++eA  ++++ l+  
  PHY93_16730|PHY93_16730 560 SPAFTARFYYHMGLLSALKNKYKEATIFFKRSLAIK 595
                              55679********************99999988655 PP

  == domain 4  score: 5.3 bits;  conditional E-value: 0.044
                   TPR_16   3 laraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraalraapda 67 
                              +a+a l++++ ++A  +  +a++     Pd + A ll  ++ lr+g ++ A+  +++a++  p++
  PHY93_16730|PHY93_16730 630 KAQAELKNNNLEAAFSYSIEAIDTS---PDYVPAILLQTQLQLRRGLFDSAINTLQKAIGLNPGN 691
                              6788888888888887778888888...9999999999999999999999997777878888875 PP

  == domain 5  score: 4.4 bits;  conditional E-value: 0.086
                   TPR_16  41 gdaalrqgrlaeAaalyraalraap 65 
                              gd +l++++ ++A  +y++al  +p
  PHY93_16730|PHY93_16730 734 GDFYLARNNIPLAMRWYNEALSRDP 758
                              8999****************98888 PP

  == domain 6  score: 13.9 bits;  conditional E-value: 8.7e-05
                   TPR_16   2 alaraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraal 61 
                              ++a+++lr +++ +A  +l +al +d   P +ae l   ++++++q + + A+ ++r a+
  PHY93_16730|PHY93_16730 766 QMAKIFLRIKKFNEAKSRLARALLLD---PKNAEYLSTNAEIFFEQDNTDTAIGYLRDAI 822
                              67999*********************...****************************998 PP

  == domain 7  score: 14.9 bits;  conditional E-value: 4.4e-05
                   TPR_16  13 yddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraa 60 
                               dd +++ +++lk++   P +   +l lg+ ++ ++r+++A+a +++ 
  PHY93_16730|PHY93_16730 879 NDDYINYSHELLKLN---PGNLKIRLDLGEFLFNLKRYPDAIAELEEV 923
                              6777777799*****...************************877775 PP

  == domain 8  score: 21.4 bits;  conditional E-value: 4e-07
                   TPR_16   2 alaraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraalraap 65 
                               lar++l+ +d  +A +++   l+++   P    A++  g++a   +++ eA+  y++a+   p
  PHY93_16730|PHY93_16730 936 LLARIYLATNDVKKAKEMALKELELN---PSLDSAHFIVGEVARIEKDYREAILKYEKAISLNP 996
                              69************************...************************99999987766 PP

  == domain 9  score: 19.2 bits;  conditional E-value: 2e-06
                   TPR_16   11 gdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraalraapdap 68  
                               +dy++A+  +e a+ ++   P  +eAl++ g+++l+q+   e ++ly++alr++  +p
  PHY93_16730|PHY93_16730  979 KDYREAILKYEKAISLN---PKSVEALMAMGWIRLAQNYANESIELYNRALREDKTNP 1033
                               69***************...*****************9999999*******9987665 PP

  == domain 10  score: 4.1 bits;  conditional E-value: 0.1
                   TPR_16    3 laraalragdyddAaaaleaalkrdpssPdaae 35  
                               +++a+ +ag+ + A + +e +lk+    P aa+
  PHY93_16730|PHY93_16730 1039 MGLAYKAAGQRALAKEKFEDYLKLS---PGAAD 1068
                               689999*******************...76664 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.0       4.8   3.4e+03       9      26 ..     466     483 ..     464     485 .. 0.88
   2 ?   -1.2   0.1       4.6   3.3e+03       2      34 .]     493     525 ..     492     525 .. 0.78
   3 !   11.0   0.3   0.00055       0.4       1      33 [.     565     597 ..     565     598 .. 0.94
   4 ?    4.4   0.2     0.075        54       6      33 ..     629     656 ..     627     657 .. 0.91
   5 !    7.7   0.0    0.0067       4.8      13      33 ..     670     690 ..     666     691 .. 0.85
   6 ?    3.9   0.0      0.11        78       7      32 ..     733     758 ..     729     758 .. 0.92
   7 !    7.1   0.1    0.0099       7.1       5      34 .]     765     794 ..     764     794 .. 0.95
   8 ?   -1.2   0.0       4.7   3.3e+03       9      29 ..     803     823 ..     802     824 .. 0.88
   9 ?    5.3   0.2     0.038        27       5      30 ..     833     858 ..     829     862 .. 0.85
  10 ?    1.7   0.0      0.56     4e+02       3      26 ..     899     922 ..     897     923 .. 0.87
  11 !   14.1   0.0   5.8e-05     0.041       2      33 ..     932     963 ..     931     964 .. 0.94
  12 !   11.3   0.0   0.00044      0.31       4      33 ..     968     997 ..     966     998 .. 0.88
  13 !    8.4   0.1    0.0038       2.7       2      33 ..    1000    1031 ..     999    1032 .. 0.92
  14 ?    6.7   0.3     0.014       9.9       6      32 ..    1038    1064 ..    1034    1065 .. 0.95

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 4.8
                              HHHHHTT-HHHHHHHHHH CS
                    TPR_8   9 siylklgdyeeAkeyyek 26 
                              +++++ gd+ eA ++y k
  PHY93_16730|PHY93_16730 466 DLLINAGDLVEARKTYTK 483
                              689999**********98 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 4.6
                              CHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH. CS
                    TPR_8   2 eayynlgsiylklgdyeeAkeyyekaleldpdn 34 
                              eayy l++  +   +   A + + + l++ p+n
  PHY93_16730|PHY93_16730 493 EAYYSLAHFSEVADQPADARSIIDEGLKYYPNN 525
                              799999998887778888888888888888875 PP

  == domain 3  score: 11.0 bits;  conditional E-value: 0.00055
                              CCHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH CS
                    TPR_8   1 aeayynlgsiylklgdyeeAkeyyekaleldpd 33 
                              a+ yy++g++   +++y+eA  ++++ l ++++
  PHY93_16730|PHY93_16730 565 ARFYYHMGLLSALKNKYKEATIFFKRSLAIKES 597
                              799*************************99986 PP

  == domain 4  score: 4.4 bits;  conditional E-value: 0.075
                              HHHHHHHHTT-HHHHHHHHHHHHHHHHH CS
                    TPR_8   6 nlgsiylklgdyeeAkeyyekaleldpd 33 
                              +++++ lk +++e+A +y  +a++ +pd
  PHY93_16730|PHY93_16730 629 KKAQAELKNNNLEAAFSYSIEAIDTSPD 656
                              789999*****************99998 PP

  == domain 5  score: 7.7 bits;  conditional E-value: 0.0067
                              HTT-HHHHHHHHHHHHHHHHH CS
                    TPR_8  13 klgdyeeAkeyyekaleldpd 33 
                                g +++A+ +++ka+ l+p 
  PHY93_16730|PHY93_16730 670 RRGLFDSAINTLQKAIGLNPG 690
                              56889**************96 PP

  == domain 6  score: 3.9 bits;  conditional E-value: 0.11
                              HHHHHHHTT-HHHHHHHHHHHHHHHH CS
                    TPR_8   7 lgsiylklgdyeeAkeyyekaleldp 32 
                              +g+ yl  +++  A+ +y++al+ dp
  PHY93_16730|PHY93_16730 733 MGDFYLARNNIPLAMRWYNEALSRDP 758
                              799999999999************98 PP

  == domain 7  score: 7.1 bits;  conditional E-value: 0.0099
                              HHHHHHHHHTT-HHHHHHHHHHHHHHHHH. CS
                    TPR_8   5 ynlgsiylklgdyeeAkeyyekaleldpdn 34 
                              +++++i l  ++++eAk+ + +al ldp+n
  PHY93_16730|PHY93_16730 765 FQMAKIFLRIKKFNEAKSRLARALLLDPKN 794
                              789*************************97 PP

  == domain 8  score: -1.2 bits;  conditional E-value: 4.7
                              HHHHHTT-HHHHHHHHHHHHH CS
                    TPR_8   9 siylklgdyeeAkeyyekale 29 
                               i +++ + + A+ y++ a++
  PHY93_16730|PHY93_16730 803 EIFFEQDNTDTAIGYLRDAIS 823
                              6889999**********9996 PP

  == domain 9  score: 5.3 bits;  conditional E-value: 0.038
                              HHHHHHHHHTT-HHHHHHHHHHHHHH CS
                    TPR_8   5 ynlgsiylklgdyeeAkeyyekalel 30 
                                ++ +y k g+++e + yy++  el
  PHY93_16730|PHY93_16730 833 SAIAILYYKSGQIKEFQNYYKRIQEL 858
                              57899****************98887 PP

  == domain 10  score: 1.7 bits;  conditional E-value: 0.56
                              HHHHHHHHHHHTT-HHHHHHHHHH CS
                    TPR_8   3 ayynlgsiylklgdyeeAkeyyek 26 
                              + + lg  +++l++y  A++ +e+
  PHY93_16730|PHY93_16730 899 IRLDLGEFLFNLKRYPDAIAELEE 922
                              56789*************999997 PP

  == domain 11  score: 14.1 bits;  conditional E-value: 5.8e-05
                              CHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeAkeyyekaleldpd 33 
                              +++++l++iyl ++d ++Ake   k lel+p+
  PHY93_16730|PHY93_16730 932 KVHFLLARIYLATNDVKKAKEMALKELELNPS 963
                              689**************************995 PP

  == domain 12  score: 11.3 bits;  conditional E-value: 0.00044
                              HHHHHHHHHHTT-HHHHHHHHHHHHHHHHH CS
                    TPR_8   4 yynlgsiylklgdyeeAkeyyekaleldpd 33 
                              ++  g + +  +dy eA+  yeka++l+p+
  PHY93_16730|PHY93_16730 968 HFIVGEVARIEKDYREAILKYEKAISLNPK 997
                              56678888999******************8 PP

  == domain 13  score: 8.4 bits;  conditional E-value: 0.0038
                               CHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH CS
                    TPR_8    2 eayynlgsiylklgdyeeAkeyyekaleldpd 33  
                               ea++ +g+i l ++  +e++e y++al+ d++
  PHY93_16730|PHY93_16730 1000 EALMAMGWIRLAQNYANESIELYNRALREDKT 1031
                               89999**********************98876 PP

  == domain 14  score: 6.7 bits;  conditional E-value: 0.014
                               HHHHHHHHTT-HHHHHHHHHHHHHHHH CS
                    TPR_8    6 nlgsiylklgdyeeAkeyyekaleldp 32  
                               ++g++y+  g+   Ake +e +l+l+p
  PHY93_16730|PHY93_16730 1038 QMGLAYKAAGQRALAKEKFEDYLKLSP 1064
                               579**********************99 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       7.5   5.3e+03      28      36 ..     565     573 ..     564     575 .. 0.85
   2 !    6.7   0.0     0.008       5.7       7      25 ..     671     689 ..     669     692 .. 0.88
   3 !    7.7   0.0    0.0038       2.7       1      25 [.     734     758 ..     734     761 .. 0.93
   4 ?    6.1   0.1     0.012       8.8       5      41 ..     772     808 ..     768     809 .. 0.79
   5 ?    1.0   0.0      0.47   3.4e+02       3      42 .]     804     843 ..     802     843 .. 0.85
   6 ?   -1.5   0.0       2.9   2.1e+03      21      39 ..     890     908 ..     888     911 .. 0.85
   7 ?    4.0   0.0     0.058        41       4      40 ..     907     943 ..     904     945 .. 0.88
   8 ?   -1.9   0.0         4   2.8e+03      21      35 ..     958     972 ..     958     975 .. 0.83
   9 !   20.3   0.0   4.5e-07   0.00032       7      35 ..     978    1006 ..     972    1013 .. 0.86
  10 !   23.5   0.2   4.4e-08   3.1e-05       6      42 .]    1011    1047 ..    1006    1047 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 7.5
                   TPR_11  28 aeayynLGl 36 
                              a++yy++Gl
  PHY93_16730|PHY93_16730 565 ARFYYHMGL 573
                              789*****8 PP

  == domain 2  score: 6.7 bits;  conditional E-value: 0.008
                   TPR_11   7 qGkyeeAieaYkkAlkldP 25 
                              +G ++ Ai+ ++kA+ l+P
  PHY93_16730|PHY93_16730 671 RGLFDSAINTLQKAIGLNP 689
                              677899************9 PP

  == domain 3  score: 7.7 bits;  conditional E-value: 0.0038
                   TPR_11   1 GdayyeqGkyeeAieaYkkAlkldP 25 
                              Gd y ++++++ A+ +Y++Al  dP
  PHY93_16730|PHY93_16730 734 GDFYLARNNIPLAMRWYNEALSRDP 758
                              889******************8887 PP

  == domain 4  score: 6.1 bits;  conditional E-value: 0.012
                   TPR_11   5 yeqGkyeeAieaYkkAlkldPdnaeayynLGlayykq 41 
                                  k++eA  ++ +Al ldP+nae ++  ++++++q
  PHY93_16730|PHY93_16730 772 LRIKKFNEAKSRLARALLLDPKNAEYLSTNAEIFFEQ 808
                              55668999999999***********987766666665 PP

  == domain 5  score: 1.0 bits;  conditional E-value: 0.47
                   TPR_11   3 ayyeqGkyeeAieaYkkAlkldPdnaeayynLGlayykqG 42 
                              +++eq + + Ai  ++ A+    +++ ++++++ +yyk G
  PHY93_16730|PHY93_16730 804 IFFEQDNTDTAIGYLRDAISEIGEDPKLLSAIAILYYKSG 843
                              7888888888888888888888899999999999999987 PP

  == domain 6  score: -1.5 bits;  conditional E-value: 2.9
                   TPR_11  21 lkldPdnaeayynLGlayy 39 
                              lkl+P n  + + LG+ ++
  PHY93_16730|PHY93_16730 890 LKLNPGNLKIRLDLGEFLF 908
                              89*************8766 PP

  == domain 7  score: 4.0 bits;  conditional E-value: 0.058
                   TPR_11   4 yyeqGkyeeAieaYkkAlkldPdnaeayynLGlayyk 40 
                              ++ + +y++Ai+++++  +   +++ +++ L+ +y++
  PHY93_16730|PHY93_16730 907 LFNLKRYPDAIAELEEVRAKLVSYPKVHFLLARIYLA 943
                              577889***********99999*********999975 PP

  == domain 8  score: -1.9 bits;  conditional E-value: 4
                   TPR_11  21 lkldPdnaeayynLG 35 
                              l+l+P+  +a++  G
  PHY93_16730|PHY93_16730 958 LELNPSLDSAHFIVG 972
                              79*********8555 PP

  == domain 9  score: 20.3 bits;  conditional E-value: 4.5e-07
                   TPR_11    7 qGkyeeAieaYkkAlkldPdnaeayynLG 35  
                                 +y eAi +Y+kA+ l+P+++ea+ ++G
  PHY93_16730|PHY93_16730  978 EKDYREAILKYEKAISLNPKSVEALMAMG 1006
                               679*********************99998 PP

  == domain 10  score: 23.5 bits;  conditional E-value: 4.4e-08
                   TPR_11    6 eqGkyeeAieaYkkAlkldPdnaeayynLGlayykqG 42  
                               +q+  +e+ie Y++Al+ d +n+e++  +Glay + G
  PHY93_16730|PHY93_16730 1011 AQNYANESIELYNRALREDKTNPEIHKQMGLAYKAAG 1047
                               566668***************************9766 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.1       4.7   3.4e+03       2      34 .]     493     525 ..     492     525 .. 0.71
   2 !   12.1   0.1   0.00019      0.14       1      33 [.     565     597 ..     565     598 .. 0.94
   3 ?   -2.3   0.1       6.4   4.6e+03       7      23 ..     630     646 ..     627     657 .. 0.74
   4 !    8.7   0.0    0.0023       1.6      11      34 .]     668     691 ..     666     691 .. 0.89
   5 !    8.2   0.0    0.0031       2.3       7      32 ..     733     758 ..     731     758 .. 0.93
   6 ?    3.1   0.1      0.13        90       6      34 .]     766     794 ..     764     794 .. 0.91
   7 ?    0.8   0.0       0.7     5e+02       8      28 ..     802     822 ..     795     824 .. 0.85
   8 ?    0.7   0.2      0.76   5.4e+02       2      19 ..     830     847 ..     829     858 .. 0.83
   9 ?    3.1   0.0      0.13        95       6      22 ..     902     918 ..     898     923 .. 0.86
  10 ?    5.6   0.0     0.021        15       1      33 [.     931     963 ..     931     964 .. 0.92
  11 !   15.5   0.0   1.6e-05     0.011       7      33 ..     971     997 ..     966     998 .. 0.86
  12 ?    3.8   0.1     0.079        57       7      34 .]    1005    1032 ..     999    1032 .. 0.71
  13 ?    5.8   0.2     0.018        13       2      32 ..    1034    1064 ..    1033    1065 .. 0.91

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 4.7
                              HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTH CS
                    TPR_1   2 kalynlGnayfklgkydeAleyyekALelnPnn 34 
                              +a+y l++      ++ +A    ++ L+ +Pnn
  PHY93_16730|PHY93_16730 493 EAYYSLAHFSEVADQPADARSIIDEGLKYYPNN 525
                              689999987777777777776667777777776 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 0.00019
                              HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT CS
                    TPR_1   1 akalynlGnayfklgkydeAleyyekALelnPn 33 
                              a+ +y +G++   ++ky+eA  ++++ L + ++
  PHY93_16730|PHY93_16730 565 ARFYYHMGLLSALKNKYKEATIFFKRSLAIKES 597
                              788**************************9876 PP

  == domain 3  score: -2.3 bits;  conditional E-value: 6.4
                              HHHHHHHTT-HHHHHHH CS
                    TPR_1   7 lGnayfklgkydeAley 23 
                              +++a +k+++++ A  y
  PHY93_16730|PHY93_16730 630 KAQAELKNNNLEAAFSY 646
                              78899999999999665 PP

  == domain 4  score: 8.7 bits;  conditional E-value: 0.0023
                              HHHTT-HHHHHHHHHHHHHHSTTH CS
                    TPR_1  11 yfklgkydeAleyyekALelnPnn 34 
                               ++ g +d A+   +kA+ lnP n
  PHY93_16730|PHY93_16730 668 QLRRGLFDSAINTLQKAIGLNPGN 691
                              577899****************87 PP

  == domain 5  score: 8.2 bits;  conditional E-value: 0.0031
                              HHHHHHHTT-HHHHHHHHHHHHHHST CS
                    TPR_1   7 lGnayfklgkydeAleyyekALelnP 32 
                              +G  y+  ++   A   y++AL+ +P
  PHY93_16730|PHY93_16730 733 MGDFYLARNNIPLAMRWYNEALSRDP 758
                              6888*********************9 PP

  == domain 6  score: 3.1 bits;  conditional E-value: 0.13
                              HHHHHHHHTT-HHHHHHHHHHHHHHSTTH CS
                    TPR_1   6 nlGnayfklgkydeAleyyekALelnPnn 34 
                              +++ ++++ +k++eA     +AL l+P+n
  PHY93_16730|PHY93_16730 766 QMAKIFLRIKKFNEAKSRLARALLLDPKN 794
                              68999999*******99999*******97 PP

  == domain 7  score: 0.8 bits;  conditional E-value: 0.7
                              HHHHHHTT-HHHHHHHHHHHH CS
                    TPR_1   8 GnayfklgkydeAleyyekAL 28 
                              + ++f++ + d A+ y + A+
  PHY93_16730|PHY93_16730 802 AEIFFEQDNTDTAIGYLRDAI 822
                              7899***********999988 PP

  == domain 8  score: 0.7 bits;  conditional E-value: 0.76
                              HHHHHHHHHHHHTT-HHH CS
                    TPR_1   2 kalynlGnayfklgkyde 19 
                              k l  ++ +y+k g+ +e
  PHY93_16730|PHY93_16730 830 KLLSAIAILYYKSGQIKE 847
                              6778899*******9887 PP

  == domain 9  score: 3.1 bits;  conditional E-value: 0.13
                              HHHHHHHHTT-HHHHHH CS
                    TPR_1   6 nlGnayfklgkydeAle 22 
                               lG  +f+l++y +A++
  PHY93_16730|PHY93_16730 902 DLGEFLFNLKRYPDAIA 918
                              58999**********96 PP

  == domain 10  score: 5.6 bits;  conditional E-value: 0.021
                              HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT CS
                    TPR_1   1 akalynlGnayfklgkydeAleyyekALelnPn 33 
                              +k+++ l+ +y+  ++ ++A e   k LelnP+
  PHY93_16730|PHY93_16730 931 PKVHFLLARIYLATNDVKKAKEMALKELELNPS 963
                              5899******************99999999996 PP

  == domain 11  score: 15.5 bits;  conditional E-value: 1.6e-05
                              HHHHHHHTT-HHHHHHHHHHHHHHSTT CS
                    TPR_1   7 lGnayfklgkydeAleyyekALelnPn 33 
                               G + +  ++y eA+  yekA++lnP+
  PHY93_16730|PHY93_16730 971 VGEVARIEKDYREAILKYEKAISLNPK 997
                              57778889******************7 PP

  == domain 12  score: 3.8 bits;  conditional E-value: 0.079
                               HHHHHHHTT-HHHHHHHHHHHHHHSTTH CS
                    TPR_1    7 lGnayfklgkydeAleyyekALelnPnn 34  
                               +G + + ++  +e +e y++AL+ + +n
  PHY93_16730|PHY93_16730 1005 MGWIRLAQNYANESIELYNRALREDKTN 1032
                               55555555555799********998776 PP

  == domain 13  score: 5.8 bits;  conditional E-value: 0.018
                               HHHHHHHHHHHHTT-HHHHHHHHHHHHHHST CS
                    TPR_1    2 kalynlGnayfklgkydeAleyyekALelnP 32  
                               ++++++G+ay   g+   A e +e  L+l P
  PHY93_16730|PHY93_16730 1034 EIHKQMGLAYKAAGQRALAKEKFEDYLKLSP 1064
                               789******************9999999988 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.9   0.0       1.1   7.8e+02      14      34 .]     459     479 ..     453     479 .. 0.72
   2 ?    2.9   0.0      0.24   1.7e+02      11      33 ..     489     512 ..     484     513 .. 0.83
   3 ?    1.9   0.1      0.49   3.5e+02       4      25 ..     517     538 ..     514     549 .. 0.79
   4 ?   -1.3   0.1       5.2   3.8e+03      13      32 ..     565     584 ..     551     584 .. 0.87
   5 ?   -2.1   0.1       9.8     7e+03      18      32 ..     629     643 ..     627     644 .. 0.85
   6 !    7.4   0.0    0.0092       6.6       2      33 ..     750     781 ..     749     782 .. 0.94
   7 !    8.1   0.1    0.0053       3.8       4      33 ..     786     815 ..     784     816 .. 0.95
   8 ?   -1.4   0.0       5.8   4.2e+03      12      30 ..     828     846 ..     826     847 .. 0.80
   9 ?    6.9   0.0     0.013       9.2       5      33 ..     889     917 ..     888     918 .. 0.93
  10 ?    7.0   0.0     0.012       8.6      12      34 .]     930     952 ..     929     952 .. 0.91
  11 ?   -0.3   0.0       2.6   1.9e+03       2      32 ..     954     984 ..     953     985 .. 0.83
  12 !   12.7   0.1   0.00019      0.13       2      26 ..     988    1012 ..     987    1017 .. 0.91
  13 !   12.2   0.2   0.00026      0.18       1      33 [.    1021    1053 ..    1021    1054 .. 0.92

  Alignments for each domain:
  == domain 1  score: 0.9 bits;  conditional E-value: 1.1
                   TPR_17  14 daynnLAelllknGdlmtArq 34 
                              +++ ++  ll ++Gdl +Ar+
  PHY93_16730|PHY93_16730 459 KLLAYYLDLLINAGDLVEARK 479
                              55555556666********96 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.24
                   TPR_17  11 nn.adaynnLAelllknGdlmtAr 33 
                              +  ++ay+ LA + + + ++++Ar
  PHY93_16730|PHY93_16730 489 KKpFEAYYSLAHFSEVADQPADAR 512
                              54489***************9998 PP

  == domain 3  score: 1.9 bits;  conditional E-value: 0.49
                   TPR_17   4 kaleldPnnadaynnLAelllk 25 
                              + l+++Pnn+ ++   A +llk
  PHY93_16730|PHY93_16730 517 EGLKYYPNNVLLLLKSADYLLK 538
                              6799********9999988774 PP

  == domain 4  score: -1.3 bits;  conditional E-value: 5.2
                   TPR_17  13 adaynnLAelllknGdlmtA 32 
                              a +y+ ++ l + ++++++A
  PHY93_16730|PHY93_16730 565 ARFYYHMGLLSALKNKYKEA 584
                              66899999999999999988 PP

  == domain 5  score: -2.1 bits;  conditional E-value: 9.8
                   TPR_17  18 nLAelllknGdlmtA 32 
                               +A++ lkn++l+ A
  PHY93_16730|PHY93_16730 629 KKAQAELKNNNLEAA 643
                              579999****99887 PP

  == domain 6  score: 7.4 bits;  conditional E-value: 0.0092
                   TPR_17   2 ylkaleldPnnadaynnLAelllknGdlmtAr 33 
                              y +al +dP + + ++++A+++l+++++ +A+
  PHY93_16730|PHY93_16730 750 YNEALSRDPLSDYDMFQMAKIFLRIKKFNEAK 781
                              99***********************9999986 PP

  == domain 7  score: 8.1 bits;  conditional E-value: 0.0053
                   TPR_17   4 kaleldPnnadaynnLAelllknGdlmtAr 33 
                              +al ldP+na+ +   Ae++ ++ +++tA+
  PHY93_16730|PHY93_16730 786 RALLLDPKNAEYLSTNAEIFFEQDNTDTAI 815
                              89**************************97 PP

  == domain 8  score: -1.4 bits;  conditional E-value: 5.8
                   TPR_17  12 nadaynnLAelllknGdlm 30 
                              +++++   A l++k G+ +
  PHY93_16730|PHY93_16730 828 DPKLLSAIAILYYKSGQIK 846
                              567777889*******965 PP

  == domain 9  score: 6.9 bits;  conditional E-value: 0.013
                   TPR_17   5 aleldPnnadaynnLAelllknGdlmtAr 33 
                               l+l+P n +    L+e+l +++++ +A+
  PHY93_16730|PHY93_16730 889 LLKLNPGNLKIRLDLGEFLFNLKRYPDAI 917
                              699**********************9997 PP

  == domain 10  score: 7.0 bits;  conditional E-value: 0.012
                   TPR_17  12 nadaynnLAelllknGdlmtArq 34 
                              +++++++LA+++l  +d ++A++
  PHY93_16730|PHY93_16730 930 YPKVHFLLARIYLATNDVKKAKE 952
                              689****************9986 PP

  == domain 11  score: -0.3 bits;  conditional E-value: 2.6
                   TPR_17   2 ylkaleldPnnadaynnLAelllknGdlmtA 32 
                               lk lel+P+   a++  +e+ +  +d+++A
  PHY93_16730|PHY93_16730 954 ALKELELNPSLDSAHFIVGEVARIEKDYREA 984
                              6899******999999888888888888887 PP

  == domain 12  score: 12.7 bits;  conditional E-value: 0.00019
                   TPR_17    2 ylkaleldPnnadaynnLAelllkn 26  
                               y+ka+ l+P++++a+  ++++ l +
  PHY93_16730|PHY93_16730  988 YEKAISLNPKSVEALMAMGWIRLAQ 1012
                               9*******************98765 PP

  == domain 13  score: 12.2 bits;  conditional E-value: 0.00026
                   TPR_17    1 lylkaleldPnnadaynnLAelllknGdlmtAr 33  
                               ly +al+ d++n++ + +++ +++ +G+ + A+
  PHY93_16730|PHY93_16730 1021 LYNRALREDKTNPEIHKQMGLAYKAAGQRALAK 1053
                               7**************************977665 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.1       8.7   6.2e+03      26      61 ..     366     401 ..     363     404 .. 0.71
   2 !   10.4   0.0   0.00087      0.62      43      77 .]     563     597 ..     529     597 .. 0.88
   3 ?    1.7   0.1      0.44   3.1e+02      10      72 ..     631     685 ..     624     688 .. 0.67
   4 ?    5.8   0.0     0.024        17      15      72 ..     732     788 ..     723     793 .. 0.73
   5 ?    4.0   0.0     0.084        60       9      72 ..     767     822 ..     763     823 .. 0.75
   6 ?    4.0   0.1     0.086        62       8      70 ..     800     854 ..     795     860 .. 0.77
   7 !    9.9   0.1    0.0012      0.89       7      74 ..     901     960 ..     897     963 .. 0.79
   8 ?    6.6   0.2     0.013       9.3      15      74 ..     936     994 ..     932     997 .. 0.72
   9 !   10.3   0.6   0.00091      0.65       9      73 ..     971    1027 ..     963    1027 .. 0.87
  10 !    8.8   1.6    0.0028         2      13      74 ..    1002    1062 ..     998    1064 .. 0.86

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 8.7
                   TPR_12  26 lekaleia.rrllGpdhpltattlrnLgrlyralgry 61 
                                +a+ +  ++ + ++++++ + l ++++l++ ++++
  PHY93_16730|PHY93_16730 366 ASQAYIVSlQKQF-GNNEALGELLLTYAELLDDTKEP 401
                              5667777745555.57889999999999999877665 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 0.00087
                   TPR_12  43 ltattlrnLgrlyralgryeeAlelleealaiaek 77 
                               ta+ ++ +g l  + ++y+eA  +++++lai+e+
  PHY93_16730|PHY93_16730 563 FTARFYYHMGLLSALKNKYKEATIFFKRSLAIKES 597
                              6999********9999****************985 PP

  == domain 3  score: 1.7 bits;  conditional E-value: 0.44
                   TPR_12  10 aavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleeal 72 
                              a+++++  +++ A+++  +a++       pd   ++ +     +l++++g ++ A++ l++a+
  PHY93_16730|PHY93_16730 631 AQAELKNNNLEAAFSYSIEAIDTS-----PD---YVPAILLQTQLQLRRGLFDSAINTLQKAI 685
                              566666666666666666665444.....44...45566666677778888999999998886 PP

  == domain 4  score: 5.8 bits;  conditional E-value: 0.024
                   TPR_12  15 rlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleeal 72 
                               +g++  A+ +   a++ ++++l    pl    ++ ++ ++++ +++ eA ++l +al
  PHY93_16730|PHY93_16730 732 LMGDFYLARNNIPLAMRWYNEAL-SRDPLSDYDMFQMAKIFLRIKKFNEAKSRLARAL 788
                              37777777777777777775555.4567777788888999888899999988888887 PP

  == domain 5  score: 4.0 bits;  conditional E-value: 0.084
                   TPR_12   9 laavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleeal 72 
                              +a + +r +++ eA + l +al +      p++   a++l + +++++++++++ A+ +l++a+
  PHY93_16730|PHY93_16730 767 MAKIFLRIKKFNEAKSRLARALLLD-----PKN---AEYLSTNAEIFFEQDNTDTAIGYLRDAI 822
                              6666777777777777777777777.....665...8888888999999999999999998885 PP

  == domain 6  score: 4.0 bits;  conditional E-value: 0.086
                   TPR_12   8 nlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlellee 70 
                                a++ +++ + d A+ +l+ a   ++++  ++ p     l ++++ly+++g+ +e ++++++
  PHY93_16730|PHY93_16730 800 TNAEIFFEQDNTDTAIGYLRDA---ISEI--GEDPK---LLSAIAILYYKSGQIKEFQNYYKR 854
                              5688899999999999999999...5555..66666...589999999999998887777776 PP

  == domain 7  score: 9.9 bits;  conditional E-value: 0.0012
                   TPR_12   7 nnlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleealai 74 
                                l+++l+ l+ry +A++ le++++   ++          + + L+r+y+a+++ ++A e+  + l++
  PHY93_16730|PHY93_16730 901 LDLGEFLFNLKRYPDAIAELEEVRAKLVSY--------PKVHFLLARIYLATNDVKKAKEMALKELEL 960
                              469********************5555333........336899999999999999999988776665 PP

  == domain 8  score: 6.6 bits;  conditional E-value: 0.013
                   TPR_12  15 rlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleealai 74 
                               l r   A    +ka e+a + l + +p + ++ +  g++ r  ++y+eA+  +e+a+ +
  PHY93_16730|PHY93_16730 936 LLARIYLATNDVKKAKEMALKEL-ELNPSLDSAHFIVGEVARIEKDYREAILKYEKAISL 994
                              55555666666677777774444.457788888999999999999999999999999876 PP

  == domain 9  score: 10.3 bits;  conditional E-value: 0.00091
                   TPR_12    9 laavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleeala 73  
                               +++v r  ++y eA+  +eka+ +      p+    +++l ++g++ +a++   e +el+++al+
  PHY93_16730|PHY93_16730  971 VGEVARIEKDYREAILKYEKAISLN-----PK---SVEALMAMGWIRLAQNYANESIELYNRALR 1027
                               6889999999999999999996666.....76...599*************************96 PP

  == domain 10  score: 8.8 bits;  conditional E-value: 0.0028
                   TPR_12   13 lrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleealai 74  
                               l+++g    A+ + ++++e+++r+l +d+    ++   +g +y a+g+ + A e +e+ l++
  PHY93_16730|PHY93_16730 1002 LMAMGWIRLAQNYANESIELYNRALREDKT-NPEIHKQMGLAYKAAGQRALAKEKFEDYLKL 1062
                               55666666899**********888888885.58************************99987 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.6   0.0      0.11        79      29      82 .]     391     449 ..     364     484 .. 0.64
   2 ?   -1.2   0.2       3.4   2.5e+03      34      75 ..     576     584 ..     520     602 .. 0.53
   3 ?    4.0   0.1     0.084        60      25      55 ..     660     691 ..     625     711 .. 0.77
   4 !   11.9   0.1   0.00029      0.21       3      80 ..     741     819 ..     739     821 .. 0.92
   5 ?    6.9   0.2      0.01       7.5       1      60 [.     807     866 ..     807     880 .. 0.83
   6 !   10.4   0.1   0.00083       0.6      13      81 ..     853     922 ..     843     923 .. 0.75
   7 !   10.1   0.1   0.00099      0.71      27      76 ..     935     985 ..     929     990 .. 0.92
   8 ?    6.7   0.1     0.011       8.1       3      64 ..     979    1041 ..     977    1048 .. 0.89

  Alignments for each domain:
  == domain 1  score: 3.6 bits;  conditional E-value: 0.11
                              HHHHHHHTT-HHHHHHHHHCT.SHHHC-H..HHHHHHHHHHH..HTT-HHHHHHHH-SS CS
                   ANAPC3  29 lAlclylngqykrAyellrka.klnsksl..gcrylfAqcll..kLkkyeeAiaaLekl 82 
                              +A+ l  +++ k A +++ k+ +l ++ +     ++++ +l+  k++ky+ +i++++++
  PHY93_16730|PHY93_16730 391 YAELLDDTKEPKIAGNIIYKLiQLSENKMlsDLNIVTGTALFygKIGKYQTGINVIKNY 449
                              56666666666666666666655555555443334444444334666666666666553 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 3.4
                              HHTT-HHHHHHHHHCTSHHHC-HHHHHHHHHHHHHT.T-HHHH CS
                   ANAPC3  34 ylngqykrAyellrkaklnskslgcrylfAqcllkL.kkyeeA 75 
                                                                 L +ky+eA
  PHY93_16730|PHY93_16730 576 A----------------------------------LkNKYKEA 584
                              2..................................22344444 PP

  == domain 3  score: 4.0 bits;  conditional E-value: 0.084
                              HHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC- CS
                   ANAPC3  25 dayllAlclylngqykrAyellrka.klnsks 55 
                              +++l  +  +++g +++A++ l+ka +ln+ +
  PHY93_16730|PHY93_16730 660 AILLQTQLQLRRGLFDSAINTLQKAiGLNPGN 691
                              36666889999999999999999998888765 PP

  == domain 4  score: 11.9 bits;  conditional E-value: 0.00029
                              T-HHHHHHHHHHHH.HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-HHHHHHHHHHHHHTT-HHHHHHHH- CS
                   ANAPC3   3 nnyknAiflaerllaaetespedayllAlclylngqykrAyellrka.klnskslgcrylfAqcllkLkkyeeAiaaLe 80 
                              nn+  A+ +++ +l++++ s++d +  A+ +++ +++++A   l +a  l++k+ +++ + A+  +++++ + Ai  L 
  PHY93_16730|PHY93_16730 741 NNIPLAMRWYNEALSRDPLSDYDMFQMAKIFLRIKKFNEAKSRLARAlLLDPKNAEYLSTNAEIFFEQDNTDTAIGYLR 819
                              5666688889999999**********************************************************99886 PP

  == domain 5  score: 6.9 bits;  conditional E-value: 0.01
                              HTT-HHHHHHHHHHHH.HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCTSHHHC-HHHHH CS
                   ANAPC3   1 dqnnyknAiflaerllaaetespedayllAlclylngqykrAyellrkaklnskslgcry 60 
                              +q n+++Ai ++  + +   e+p+ + + A  +y++gq k+ ++++++ ++ +k  ++ y
  PHY93_16730|PHY93_16730 807 EQDNTDTAIGYLRDAISEIGEDPKLLSAIAILYYKSGQIKEFQNYYKRIQELPKRDEAFY 866
                              68999***********88899***************************966666666655 PP

  == domain 6  score: 10.4 bits;  conditional E-value: 0.00083
                              HHHH.HHH--HHHHHH.HHHHHHHTT-HHHHHHHHHCT.SHHHC-HHHHHHHHHHHHHTT-HHHHHHHH-S CS
                   ANAPC3  13 erllaaetespedayl.lAlclylngqykrAyellrka.klnskslgcrylfAqcllkLkkyeeAiaaLek 81 
                               r++   ++++e+ y  l ++  l ++ +  +++ +++ kln+ +l++r+ +++ l+ Lk+y +Aia Le+
  PHY93_16730|PHY93_16730 853 KRIQ-ELPKRDEAFYEfLIYAAKLEEKNDDYINYSHELlKLNPGNLKIRLDLGEFLFNLKRYPDAIAELEE 922
                              5555.556666666553366666666666667788888899**************************9997 PP

  == domain 7  score: 10.1 bits;  conditional E-value: 0.00099
                              HHHHHHHHHTT-HHHHHHHHHCT.SHHHC-HHHHHHHHHHHHHTT-HHHHH CS
                   ANAPC3  27 yllAlclylngqykrAyellrka.klnskslgcrylfAqcllkLkkyeeAi 76 
                              +llA  ++ +++ k+A e + k  +ln++   ++++ ++++   k y eAi
  PHY93_16730|PHY93_16730 935 FLLARIYLATNDVKKAKEMALKElELNPSLDSAHFIVGEVARIEKDYREAI 985
                              899*******************99***************999999999998 PP

  == domain 8  score: 6.7 bits;  conditional E-value: 0.011
                               T-HHHHHHHHHHHH.HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-HHHHHHHHH CS
                   ANAPC3    3 nnyknAiflaerllaaetespedayllAlclylngqykrAyellrka.klnskslgcrylfAq 64  
                               ++y++Ai+ +e++ + +++s e++++ +   + ++  ++ +el+++a ++++++++++  ++ 
  PHY93_16730|PHY93_16730  979 KDYREAILKYEKAISLNPKSVEALMAMGWIRLAQNYANESIELYNRAlREDKTNPEIHKQMGL 1041
                               689********************************99**999999999999999888877665 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.0     0.046        33       7      33 ..     573     599 ..     568     602 .. 0.80
   2 ?    2.4   0.0      0.28     2e+02       6      30 ..     665     687 ..     660     693 .. 0.78
   3 ?   -0.5   0.0       2.3   1.6e+03       3      33 ..     731     759 ..     728     761 .. 0.88
   4 ?    0.5   0.0       1.1   8.1e+02       4      35 ..     766     795 ..     764     796 .. 0.87
   5 ?    5.6   0.0     0.026        19       6      31 ..     802     828 ..     802     830 .. 0.81
   6 ?   -1.5   0.0       4.7   3.4e+03       2      24 ..     832     854 ..     831     862 .. 0.84
   7 ?   -2.1   0.0       7.2   5.2e+03       5      24 ..     903     922 ..     901     923 .. 0.84
   8 ?    5.6   0.0     0.026        18       3      28 ..     935     960 ..     933     967 .. 0.79
   9 ?    3.0   0.0      0.18   1.3e+02      14      31 ..     980     995 ..     978    1000 .. 0.80
  10 !    9.0   0.1    0.0021       1.5       1      35 [.    1001    1033 ..    1001    1034 .. 0.93
  11 ?   -2.2   0.0       8.1   5.8e+03       4      24 ..    1038    1058 ..    1036    1065 .. 0.80

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.046
                    TPR_7   7 rlysrlGdyeeAielyeqsLaltkdpe 33 
                               l    ++y+eA  ++++sLa+ +++e
  PHY93_16730|PHY93_16730 573 LLSALKNKYKEATIFFKRSLAIKESDE 599
                              55555799**************99986 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.28
                    TPR_7   6 arlysrlGdyeeAielyeqsLaltk 30 
                               +l+ r+G ++ Ai  +++  a+  
  PHY93_16730|PHY93_16730 665 TQLQLRRGLFDSAINTLQK--AIGL 687
                              688999*************..5544 PP

  == domain 3  score: -0.5 bits;  conditional E-value: 2.3
                    TPR_7   3 lnLarlysrlGdyeeAielyeqsLaltkdpe 33 
                              + +++ y ++++   A + y +  al +dp+
  PHY93_16730|PHY93_16730 731 SLMGDFYLARNNIPLAMRWYNE--ALSRDPL 759
                              57999*****************..9999986 PP

  == domain 4  score: 0.5 bits;  conditional E-value: 1.1
                    TPR_7   4 nLarlysrlGdyeeAielyeqsLaltkdpeda 35 
                              ++a ++ r  ++ eA + + +  al  dp +a
  PHY93_16730|PHY93_16730 766 QMAKIFLRIKKFNEAKSRLAR--ALLLDPKNA 795
                              799******************..888888765 PP

  == domain 5  score: 5.6 bits;  conditional E-value: 0.026
                    TPR_7   6 arlysrlGdyeeAielyeqsL.altkd 31 
                              a++++++ ++++Ai++++ ++ ++ +d
  PHY93_16730|PHY93_16730 802 AEIFFEQDNTDTAIGYLRDAIsEIGED 828
                              789***************966555555 PP

  == domain 6  score: -1.5 bits;  conditional E-value: 4.7
                    TPR_7   2 LlnLarlysrlGdyeeAielyeq 24 
                              L+++a ly + G+ +e   +y++
  PHY93_16730|PHY93_16730 832 LSAIAILYYKSGQIKEFQNYYKR 854
                              78999999999998888888877 PP

  == domain 7  score: -2.1 bits;  conditional E-value: 7.2
                    TPR_7   5 LarlysrlGdyeeAielyeq 24 
                              L++  ++l +y +Ai  +e+
  PHY93_16730|PHY93_16730 903 LGEFLFNLKRYPDAIAELEE 922
                              8999999*******987765 PP

  == domain 8  score: 5.6 bits;  conditional E-value: 0.026
                    TPR_7   3 lnLarlysrlGdyeeAielyeqsLal 28 
                              + Lar+y + +d ++A e   + L+l
  PHY93_16730|PHY93_16730 935 FLLARIYLATNDVKKAKEMALKELEL 960
                              78**************9998884444 PP

  == domain 9  score: 3.0 bits;  conditional E-value: 0.18
                    TPR_7  14 dyeeAielyeqsLaltkd 31 
                              dy+eAi  ye+  a+   
  PHY93_16730|PHY93_16730 980 DYREAILKYEK--AISLN 995
                              9**********..76655 PP

  == domain 10  score: 9.0 bits;  conditional E-value: 0.0021
                    TPR_7    1 aLlnLarlysrlGdyeeAielyeqsLaltkdpeda 35  
                               aL +++ ++ ++++  e iely +  al++d +++
  PHY93_16730|PHY93_16730 1001 ALMAMGWIRLAQNYANESIELYNR--ALREDKTNP 1033
                               7899********************..**9999876 PP

  == domain 11  score: -2.2 bits;  conditional E-value: 8.1
                    TPR_7    4 nLarlysrlGdyeeAielyeq 24  
                               +++ +y + G+++ A e +e 
  PHY93_16730|PHY93_16730 1038 QMGLAYKAAGQRALAKEKFED 1058
                               689999999999999998886 PP

>> TPR_9  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.1       3.2   2.3e+03      48      68 ..     494     514 ..     492     515 .. 0.88
   2 ?    0.1   0.0       1.3   9.4e+02      31      60 ..     660     689 ..     632     695 .. 0.75
   3 ?    6.4   0.0     0.013       9.6      10      63 ..     776     829 ..     737     845 .. 0.83
   4 !    9.5   0.0    0.0015       1.1       8      53 ..     876     921 ..     870     934 .. 0.93
   5 ?    1.9   0.0      0.35   2.5e+02       8      63 ..     978    1033 ..     973    1037 .. 0.85
   6 !   17.9   0.6   3.5e-06    0.0025      16      73 .]    1020    1077 ..    1008    1077 .. 0.89

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 3.2
                    TPR_9  48 AladLeaylalapdapdaeai 68 
                              A   L ++ ++a++++da+ i
  PHY93_16730|PHY93_16730 494 AYYSLAHFSEVADQPADARSI 514
                              66789*************976 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 1.3
                    TPR_9  31 errdRGlllaqlGclsaAladLeaylalap 60 
                               ++   +l+ ++G +  A++ L+ ++ l+p
  PHY93_16730|PHY93_16730 660 AILLQTQLQLRRGLFDSAINTLQKAIGLNP 689
                              55555679999*************999888 PP

  == domain 3  score: 6.4 bits;  conditional E-value: 0.013
                    TPR_9  10 dweralavverllllaPddpeerrdRGlllaqlGclsaAladLeaylalapdap 63 
                              ++ +a   + r lll+P+ +e +   + + ++++++ +A+  L  +++  +++p
  PHY93_16730|PHY93_16730 776 KFNEAKSRLARALLLDPKNAEYLSTNAEIFFEQDNTDTAIGYLRDAISEIGEDP 829
                              555555566799999999999999999999999999999999999986555554 PP

  == domain 4  score: 9.5 bits;  conditional E-value: 0.0015
                    TPR_9   8 eedweralavverllllaPddpeerrdRGlllaqlGclsaAladLe 53 
                              ee+++  + ++  ll l+P     r+d G  l+ l ++  A+a+Le
  PHY93_16730|PHY93_16730 876 EEKNDDYINYSHELLKLNPGNLKIRLDLGEFLFNLKRYPDAIAELE 921
                              788999999************************************9 PP

  == domain 5  score: 1.9 bits;  conditional E-value: 0.35
                    TPR_9    8 eedweralavverllllaPddpeerrdRGlllaqlGclsaAladLeaylalapdap 63  
                               e+d+ +a+  +e  + l+P+++e ++  G ++  ++  ++ ++  +++l+ +  +p
  PHY93_16730|PHY93_16730  978 EKDYREAILKYEKAISLNPKSVEALMAMGWIRLAQNYANESIELYNRALREDKTNP 1033
                               7899999999999******************9999999999999888888776655 PP

  == domain 6  score: 17.9 bits;  conditional E-value: 3.5e-06
                    TPR_9   16 avverllllaPddpeerrdRGlllaqlGclsaAladLeaylalapdapdaeairaqLn 73  
                               + ++r l  +   pe +   Gl++   G+ + A + +e yl l+p a+d+++i+aq++
  PHY93_16730|PHY93_16730 1020 ELYNRALREDKTNPEIHKQMGLAYKAAGQRALAKEKFEDYLKLSPGAADRDQIEAQIR 1077
                               5677888888889999999************************************985 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.0       1.1   7.7e+02      10      26 ..     468     484 ..     461     487 .. 0.79
   2 ?   -0.7   0.1         4   2.9e+03       2      32 ..     494     524 ..     493     525 .. 0.71
   3 ?    2.2   0.0      0.49   3.5e+02       4      32 ..     662     690 ..     659     691 .. 0.80
   4 ?    2.7   0.1      0.34   2.5e+02       3      31 ..     764     792 ..     764     794 .. 0.87
   5 ?    5.3   0.0     0.049        35       7      28 ..     802     823 ..     802     824 .. 0.91
   6 ?    0.8   0.0       1.4   9.8e+02       6      28 ..     903     925 ..     900     926 .. 0.84
   7 ?    5.2   0.0     0.052        37       3      23 ..     934     955 ..     932     961 .. 0.85
   8 ?    5.0   0.0     0.063        45       9      33 .]     975     998 ..     966     998 .. 0.80
   9 ?    5.0   0.4     0.063        45       1      29 [.    1000    1028 ..    1000    1030 .. 0.92
  10 !    9.4   0.4    0.0024       1.7       5      31 ..    1038    1064 ..    1038    1066 .. 0.92

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 1.1
                              HHHHHHHHHHHHHHHHH CS
                    TPR_6  10 yrklgdtdkAlealerl 26 
                              ++++gd  +A++++ +l
  PHY93_16730|PHY93_16730 468 LINAGDLVEARKTYTKL 484
                              34559*********998 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 4
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHH-TT CS
                    TPR_6   2 AlyklalsyrklgdtdkAlealerlikeYPd 32 
                              A+y la   + ++++++A+ + ++ +k YP+
  PHY93_16730|PHY93_16730 494 AYYSLAHFSEVADQPADARSIIDEGLKYYPN 524
                              5555554333357999999999999999998 PP

  == domain 3  score: 2.2 bits;  conditional E-value: 0.49
                              HHHHHHHHHHHHHHHHHHHHHHHHHH-TT CS
                    TPR_6   4 yklalsyrklgdtdkAlealerlikeYPd 32 
                              +++ +++++ g  d A+ +l++ i   P+
  PHY93_16730|PHY93_16730 662 LLQTQLQLRRGLFDSAINTLQKAIGLNPG 690
                              556677888789**********9987775 PP

  == domain 4  score: 2.7 bits;  conditional E-value: 0.34
                              HHHHHHHHHHHHHHHHHHHHHHHHHHH-T CS
                    TPR_6   3 lyklalsyrklgdtdkAlealerlikeYP 31 
                              ++++a+ +++ ++  +A+  l r +   P
  PHY93_16730|PHY93_16730 764 MFQMAKIFLRIKKFNEAKSRLARALLLDP 792
                              89********88*******9999886666 PP

  == domain 5  score: 5.3 bits;  conditional E-value: 0.049
                              HHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   7 alsyrklgdtdkAlealerlik 28 
                              a+ ++++++td+A+ +l++ i+
  PHY93_16730|PHY93_16730 802 AEIFFEQDNTDTAIGYLRDAIS 823
                              7889**************9987 PP

  == domain 6  score: 0.8 bits;  conditional E-value: 1.4
                              HHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   6 lalsyrklgdtdkAlealerlik 28 
                              l++ +++l+++ +A++ le+++ 
  PHY93_16730|PHY93_16730 903 LGEFLFNLKRYPDAIAELEEVRA 925
                              7888999999*****99999875 PP

  == domain 7  score: 5.2 bits;  conditional E-value: 0.052
                              HHHHHHHHHHHHHHHHHHH.HH CS
                    TPR_6   3 lyklalsyrklgdtdkAle.al 23 
                               ++la+ y++++d  kA+e al
  PHY93_16730|PHY93_16730 934 HFLLARIYLATNDVKKAKEmAL 955
                              699*******99******9555 PP

  == domain 8  score: 5.0 bits;  conditional E-value: 0.063
                              HHHHHHHHHHHHHHHHHHHHH-TT- CS
                    TPR_6   9 syrklgdtdkAlealerlikeYPdS 33 
                              ++++  d+++A+  +e+ i+  P+S
  PHY93_16730|PHY93_16730 975 ARIEK-DYREAILKYEKAISLNPKS 998
                              44466.*****************98 PP

  == domain 9  score: 5.0 bits;  conditional E-value: 0.063
                               HHHHHHHHHHHHHHHHH.HHHHHHHHHHHH CS
                    TPR_6    1 dAlyklalsyrklgdtd.kAlealerlike 29  
                               +Al+ +++ ++++ +++ +++e+++r ++e
  PHY93_16730|PHY93_16730 1000 EALMAMGWIRLAQ-NYAnESIELYNRALRE 1028
                               799**********.9999********9986 PP

  == domain 10  score: 9.4 bits;  conditional E-value: 0.0024
                               HHHHHHHHHHHHHHHHHHHHHHHHH-T CS
                    TPR_6    5 klalsyrklgdtdkAlealerlikeYP 31  
                               +++l+y+++g+ + A+e +e+ +k  P
  PHY93_16730|PHY93_16730 1038 QMGLAYKAAGQRALAKEKFEDYLKLSP 1064
                               69******99************99888 PP

>> TPR_MalT  MalT-like TPR region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.0       6.3   4.5e+03     179     225 ..     343     388 ..     338     404 .. 0.57
   2 ?   -3.8   0.0       8.5   6.1e+03      87     104 ..     465     482 ..     440     484 .. 0.78
   3 ?    4.8   0.0     0.022        16      70     109 ..     648     687 ..     630     699 .. 0.85
   4 ?    3.0   0.0     0.073        53      25      99 ..     712     787 ..     707     858 .. 0.83
   5 !   16.4   0.2   6.3e-06    0.0045       5     112 ..     935    1031 ..     932    1051 .. 0.83

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 6.3
                 TPR_MalT 179 eAetllekaeelaresnfhvdwlanaeevrvrlwlaqgdlaaaerwl 225
                              +A+++l +  +l++++ +   +  +++++ v l  + g+++a+ ++l
  PHY93_16730|PHY93_16730 343 GATAALVQGRNLYAKNTYL-KRAMASQAYIVSLQKQFGNNEALGELL 388
                              5666777777777766663.222233344444445555666655544 PP

  == domain 2  score: -3.8 bits;  conditional E-value: 8.5
                 TPR_MalT  87 aeilvaqGrLheAletye 104
                               ++l+  G+L eA +ty+
  PHY93_16730|PHY93_16730 465 LDLLINAGDLVEARKTYT 482
                              577888888888888886 PP

  == domain 3  score: 4.8 bits;  conditional E-value: 0.022
                 TPR_MalT  70 arqadslhvallallqqaeilvaqGrLheAletyeqalql 109
                              + ++d ++  ++a+l q++++  +G ++ A++t ++a+ l
  PHY93_16730|PHY93_16730 648 IEAIDTSPDYVPAILLQTQLQLRRGLFDSAINTLQKAIGL 687
                              566788888999*************************976 PP

  == domain 4  score: 3.0 bits;  conditional E-value: 0.073
                 TPR_MalT  25 rqALallpeddllariaatavlGeasllqGdleaAlqalqeaekl.arqadslhvallallqqaeilvaqGrLheA 99 
                              +  L  l+++++ +  a+ +++G  +l +++ + A ++++ea +   ++   + +++  +l++ +   a+ rL  A
  PHY93_16730|PHY93_16730 712 QLVLVELSQSKFAFGNAYASLMGDFYLARNNIPLAMRWYNEALSRdPLSDYDMFQMAKIFLRIKKFNEAKSRLARA 787
                              6678889999999999999999999999999999999999987531455555555555556666666666666655 PP

  == domain 5  score: 16.4 bits;  conditional E-value: 6.3e-06
                 TPR_MalT    5 alrAllaiasgdaeralelArqALallpeddllariaatavlGeasllqGdleaAlqalqeaeklarqadslhvallallqqae 88  
                                l A +++a++d+++a+e+A + L+l p+ d      a++++Ge++ ++ d  +A   +++a++l    +    ++ al+  + 
  PHY93_16730|PHY93_16730  935 FLLARIYLATNDVKKAKEMALKELELNPSLD-----SAHFIVGEVARIEKDYREAILKYEKAISLN--PK----SVEALMAMGW 1007
                               5889***************************.....99*************999999888888876..44....4556666679 PP

                 TPR_MalT   89 ilvaqGrLheAletyeqalqlate 112 
                               i+ aq++  e++e+y++al+  ++
  PHY93_16730|PHY93_16730 1008 IRLAQNYANESIELYNRALREDKT 1031
                               *******************95444 PP

>> TPR_15  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   1.2     0.011       7.9      47     183 ..     388     529 ..     344     604 .. 0.58
   2 !    8.9   0.3    0.0011       0.8     150     258 ..     662     771 ..     623     788 .. 0.75
   3 !   11.5   0.1   0.00018      0.13     143     252 ..     788     901 ..     762     916 .. 0.85
   4 !    7.6   1.7    0.0027       1.9     144     237 ..     965    1056 ..     929    1065 .. 0.70

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.011
                   TPR_15  47 WrtladLAwalqqedearkAyrqLlasgka.raedyerliel.l.ydaepk.eaarlaekgwrrfr...sprlLssalellerakd 125
                              + t+a+L +++++ + a ++  +L++  +   ++d++ ++   l y +  k + +   +k + r +   s++lL ++l+ll +a+d
  PHY93_16730|PHY93_16730 388 LLTYAELLDDTKEPKIAGNIIYKLIQLSENkMLSDLNIVTGTaLfYGKIGKyQTGINVIKNYFRAKgpaSSKLLAYYLDLLINAGD 473
                              44555555555555555555555555333224455544433221122222202222223444444412234566666666666666 PP

                   TPR_15 126 ydriaellksleeeeaaeqsaafllaraelyrqegqtdaAlrdyreAlalapdsselr 183
                              + + ++  ++l+ +++   +a  ++ +a + + ++q+++A  ++ e+l++ p++  l 
  PHY93_16730|PHY93_16730 474 LVEARKTYTKLKGTPKKPFEA--YYSLAHFSEVADQPADARSIIDEGLKYYPNNVLLL 529
                              666666666655554444333..34556667777777777777777777777765543 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 0.0011
                   TPR_15 150 laraelyrqegqtdaAlrdyreAlalapdsselraallWlliDlgrraeLrellkawkara....esdasLwgplaaAlllLgrpk 231
                              l+  +l++++g  d A++ +++A+ l+p+++ l+++l+ ++  + + +  + +l ++ + +    ++ asL+g +   +l+ ++  
  PHY93_16730|PHY93_16730 662 LLQTQLQLRRGLFDSAINTLQKAIGLNPGNNVLKKNLVLAYMKAYKFEDSQLVLVELSQSKfafgNAYASLMGDF---YLARNNIP 744
                              56789999*******************************999988888878888888877554444444444333...33344556 PP

                   TPR_15 232 kALeylrkqakenrkdplwllaYADal 258
                               A+++++  ++  + +  ++++ A + 
  PHY93_16730|PHY93_16730 745 LAMRWYNEALSRDPLSDYDMFQMAKIF 771
                              777777777776665555666666555 PP

  == domain 3  score: 11.5 bits;  conditional E-value: 0.00018
                   TPR_15 143 e....qsaafllaraelyrqegqtdaAlrdyreAlalapdsselraallWlliDlgrraeLrellkawkaraesdasLwgplaaAl 224
                                   ++a +l+  ae+  ++++td A+  +r A++  +++ +l +a+  l+  +g+ +e +++ k+ ++  ++d++ ++ l  A 
  PHY93_16730|PHY93_16730 788 LlldpKNAEYLSTNAEIFFEQDNTDTAIGYLRDAISEIGEDPKLLSAIAILYYKSGQIKEFQNYYKRIQELPKRDEAFYEFLIYAA 873
                              234568899************************************************************999***********999 PP

                   TPR_15 225 llLgrpkkALeylrkqakenrkdplwll 252
                               l ++++   +y++  +k n+ +  ++l
  PHY93_16730|PHY93_16730 874 KLEEKNDDYINYSHELLKLNPGNLKIRL 901
                              9999999999999999999988877776 PP

  == domain 4  score: 7.6 bits;  conditional E-value: 0.0027
                   TPR_15  144 qsaafllaraelyrqegqtdaAlrdyreAlalapdsselraallWlliDlgrraeLrellkawkara...esdasLwgplaaAl 224 
                               +sa   ++++e++r e +  +A+  y++A++l+p+s e+  a+ W+ +  + ++e    ++ ++++    ++++++++ ++ A+
  PHY93_16730|PHY93_16730  965 DSAH--FIVGEVARIEKDYREAILKYEKAISLNPKSVEALMAMGWIRLAQNYANE---SIELYNRALredKTNPEIHKQMGLAY 1043
                               4444..468999999999****************************995555554...55545443345599999999999999 PP

                   TPR_15  225 llLgrpkkALeyl 237 
                                + g+ + A e +
  PHY93_16730|PHY93_16730 1044 KAAGQRALAKEKF 1056
                               9988887775555 PP

>> BTAD  Bacterial transcriptional activator domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0       7.7   5.5e+03       6      46 ..     492     532 ..     491     546 .. 0.81
   2 ?    1.3   0.0      0.58   4.1e+02      69     107 ..     665     703 ..     655     707 .. 0.86
   3 ?   -1.1   0.0       3.1   2.2e+03      64     123 ..     797     856 ..     774     863 .. 0.64
   4 ?   -1.7   0.0         5   3.6e+03      73     106 ..     840     873 ..     830     892 .. 0.80
   5 !   11.9   0.3   0.00033      0.23      59     124 ..     996    1061 ..     982    1068 .. 0.91

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 7.7
                              HHHHHHHHHHHHHTT-HHHHHHHHHHHHTT--SSTTGGGTT CS
                     BTAD   6 fealvaagraalaagdpeeaaelleaAlalwrGpaladlea 46 
                              fea+++ +  +  a++p+ a+  ++++l+ +   +l  l++
  PHY93_16730|PHY93_16730 492 FEAYYSLAHFSEVADQPADARSIIDEGLKYYPNNVLLLLKS 532
                              6777777777888999*************999998876665 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.58
                              HHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHH CS
                     BTAD  69 aeaelrlGraeealaelealvaehPlrErlhrqlmrAla 107
                              ++++lr G  + a+ +l++++ ++P +  l + l +A++
  PHY93_16730|PHY93_16730 665 TQLQLRRGLFDSAINTLQKAIGLNPGNNVLKKNLVLAYM 703
                              567889999999999999999999999999999999986 PP

  == domain 3  score: -1.1 bits;  conditional E-value: 3.1
                              HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHH CS
                     BTAD  64 alealaeaelrlGraeealaelealvaehPlrErlhrqlmrAlarsGrqaeALevYerlr 123
                               l + ae  ++    + a+++l+++++e   + +l  ++   +++sG+  e  ++Y+r++
  PHY93_16730|PHY93_16730 797 YLSTNAEIFFEQDNTDTAIGYLRDAISEIGEDPKLLSAIAILYYKSGQIKEFQNYYKRIQ 856
                              444455555556666677777777777777777777777777777777777777777765 PP

  == domain 4  score: -1.7 bits;  conditional E-value: 5
                              HHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHH CS
                     BTAD  73 lrlGraeealaelealvaehPlrErlhrqlmrAl 106
                               + G+++e++ +++++ ++   +E++++ l+ A 
  PHY93_16730|PHY93_16730 840 YKSGQIKEFQNYYKRIQELPKRDEAFYEFLIYAA 873
                              5678999999999999999999999999999885 PP

  == domain 5  score: 11.9 bits;  conditional E-value: 0.00033
                               HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH CS
                     BTAD   59 elrlealealaeaelrlGraeealaelealvaehPlrErlhrqlmrAlarsGrqaeALevYerlrr 124 
                                + +eal a+   +l+ + a+e ++ ++++++e+ ++ + h+q+ +A+ + G++a A e++e++ +
  PHY93_16730|PHY93_16730  996 PKSVEALMAMGWIRLAQNYANESIELYNRALREDKTNPEIHKQMGLAYKAAGQRALAKEKFEDYLK 1061
                               567889999999999**********************************************99866 PP

>> TOM20_plant  Plant specific mitochondrial import receptor subunit TOM20
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.6         3   2.1e+03     135     166 ..     146     177 ..     111     197 .. 0.54
   2 ?    3.2   0.0     0.091        66      94     123 ..     672     701 ..     657     706 .. 0.86
   3 ?    4.1   0.0     0.049        35      57     114 ..     707     761 ..     702     768 .. 0.86
   4 ?    2.3   0.0      0.17   1.2e+02      44      78 ..     770     802 ..     762     816 .. 0.72
   5 !    7.6   0.2     0.004       2.9      51      81 ..     981    1011 ..     972    1061 .. 0.72

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 3
                              HSSS-XXXXXXXXXXXXXXXXXXXXXXXXXXX CS
              TOM20_plant 135 kqgllsqllgaeaasasvsaksvkkkkssdlk 166
                              k+g+l+     +++  ++s+ sv k+ s++++
  PHY93_16730|PHY93_16730 146 KKGMLKAPQEMDKTVVIPSKASVPKRDSTETR 177
                              44444444444444444444444444444432 PP

  == domain 2  score: 3.2 bits;  conditional E-value: 0.091
                              HHHHHHHHHHHHHHHH-TT-HHHHHHHHHH CS
              TOM20_plant  94 enfekatqffqqavdedPdndlyrkslela 123
                                f+ a + +q+a+  +P+n++ +k l la
  PHY93_16730|PHY93_16730 672 GLFDSAINTLQKAIGLNPGNNVLKKNLVLA 701
                              579**********************99776 PP

  == domain 3  score: 4.1 bits;  conditional E-value: 0.049
                              HHHHHHHH-TT-HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH-TT-H CS
              TOM20_plant  57 kleeallidPkkhdalWcignaytsfafltpdeeeakenfekatqffqqavdedPdnd 114
                              k+e++ l+  +  ++ +  gnay s   l  d   a++n  +a++++++a  +dP +d
  PHY93_16730|PHY93_16730 707 KFEDSQLVLVELSQSKFAFGNAYAS---LMGDFYLARNNIPLAMRWYNEALSRDPLSD 761
                              7888888888888888999999865...889************************776 PP

  == domain 4  score: 2.3 bits;  conditional E-value: 0.17
                              HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHH CS
              TOM20_plant  44 vaeakqmiqdaiskleeallidPkkhdalWcigna 78 
                              +    +  ++a s+l  all+dPk  +   + +na
  PHY93_16730|PHY93_16730 770 IFLRIKKFNEAKSRLARALLLDPKNAEY--LSTNA 802
                              555567789**************97654..44555 PP

  == domain 5  score: 7.6 bits;  conditional E-value: 0.004
                               HHHHHHHHHHHHHH-TT-HHHHHHHHHHHHH CS
              TOM20_plant   51 iqdaiskleeallidPkkhdalWcignayts 81  
                                ++ai k+e+a+ ++Pk  +al  +g   ++
  PHY93_16730|PHY93_16730  981 YREAILKYEKAISLNPKSVEALMAMGWIRLA 1011
                               579*******************998865443 PP

>> TPR_10  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.0      0.45   3.2e+02       1      33 [.     564     596 ..     564     597 .. 0.86
   2 ?   -0.1   0.0       1.3   9.4e+02       9      30 ..     734     755 ..     730     756 .. 0.88
   3 ?    2.4   0.0      0.21   1.5e+02       5      27 ..     832     854 ..     831     855 .. 0.90
   4 ?    6.2   0.0     0.014       9.8       6      28 ..     901     923 ..     897     926 .. 0.89
   5 ?   -1.6   0.0       3.8   2.8e+03       8      25 ..     937     954 ..     937     956 .. 0.89
   6 ?    3.3   0.0      0.11        80      12      35 ..     968     991 ..     966     996 .. 0.86
   7 ?   -1.7   0.1       4.3   3.1e+03      21      36 ..    1011    1026 ..    1003    1029 .. 0.85

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.45
                   TPR_10   1 tAsslnNLanalrqrgrydeAealleealairr 33 
                              tA+ + +++ +    ++y+eA  +++++lai +
  PHY93_16730|PHY93_16730 564 TARFYYHMGLLSALKNKYKEATIFFKRSLAIKE 596
                              6777788888888899**************976 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 1.3
                   TPR_10   9 analrqrgrydeAealleeala 30 
                              +  + +r++   A++++ eal+
  PHY93_16730|PHY93_16730 734 GDFYLARNNIPLAMRWYNEALS 755
                              667999**************97 PP

  == domain 3  score: 2.4 bits;  conditional E-value: 0.21
                   TPR_10   5 lnNLanalrqrgrydeAeallee 27 
                              l+ +a+++++ g+ +e  +++++
  PHY93_16730|PHY93_16730 832 LSAIAILYYKSGQIKEFQNYYKR 854
                              6789***************9986 PP

  == domain 4  score: 6.2 bits;  conditional E-value: 0.014
                   TPR_10   6 nNLanalrqrgrydeAealleea 28 
                               +L+  l++++ry +A a lee+
  PHY93_16730|PHY93_16730 901 LDLGEFLFNLKRYPDAIAELEEV 923
                              589******************98 PP

  == domain 5  score: -1.6 bits;  conditional E-value: 3.8
                   TPR_10   8 LanalrqrgrydeAeall 25 
                              La+++ ++++ ++A +++
  PHY93_16730|PHY93_16730 937 LARIYLATNDVKKAKEMA 954
                              8***********998875 PP

  == domain 6  score: 3.3 bits;  conditional E-value: 0.11
                   TPR_10  12 lrqrgrydeAealleealairrrl 35 
                              ++ +g+ ++ e++++ea+  ++++
  PHY93_16730|PHY93_16730 968 HFIVGEVARIEKDYREAILKYEKA 991
                              667899999************998 PP

  == domain 7  score: -1.7 bits;  conditional E-value: 4.3
                   TPR_10   21 Aealleealairrrll 36  
                               A +++ e+++++ r+l
  PHY93_16730|PHY93_16730 1011 AQNYANESIELYNRAL 1026
                               7788889999999987 PP

>> HrpB1_HrpK  Bacterial type III secretion protein (HrpB1_HrpK)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.0      0.59   4.2e+02      46      80 ..     659     693 ..     648     733 .. 0.55
   2 ?    4.3   0.0      0.04        29      18      72 ..     768     822 ..     764     841 .. 0.85
   3 ?    3.4   0.0     0.079        56      36      94 ..     888     946 ..     864     967 .. 0.84
   4 ?    4.1   0.0     0.048        35      39      73 ..     993    1027 ..     976    1050 .. 0.82

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.59
               HrpB1_HrpK  46 eldllegvlliergrweeAlrlLreveaeasgtpy 80 
                               + ll+ +l+++rg ++ A+ +L++  + ++g ++
  PHY93_16730|PHY93_16730 659 PAILLQTQLQLRRGLFDSAINTLQKAIGLNPGNNV 693
                              44455556666666666666666555544443333 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.04
               HrpB1_HrpK  18 lslalasedtedaellLdalrvLrPevaeldllegvlliergrweeAlrlLreve 72 
                              +  +l+ +++++a+  L+   +L P++ae    ++ +  e+ + + A+ +Lr+  
  PHY93_16730|PHY93_16730 768 AKIFLRIKKFNEAKSRLARALLLDPKNAEYLSTNAEIFFEQDNTDTAIGYLRDAI 822
                              556778889999999999999*******************************976 PP

  == domain 3  score: 3.4 bits;  conditional E-value: 0.079
               HrpB1_HrpK  36 alrvLrPevaeldllegvlliergrweeAlrlLreveaeasgtpyakaLlAlcLaalrD 94 
                              +l  L P + +++l  g  l + +r+ +A+  L+ev a+  + p +  LlA    a +D
  PHY93_16730|PHY93_16730 888 ELLKLNPGNLKIRLDLGEFLFNLKRYPDAIAELEEVRAKLVSYPKVHFLLARIYLATND 946
                              666789999999999999999*******************9999999999988777666 PP

  == domain 4  score: 4.1 bits;  conditional E-value: 0.048
               HrpB1_HrpK   39 vLrPevaeldllegvlliergrweeAlrlLrevea 73  
                                L P+ +e+ +  g++++++++ +e + l +    
  PHY93_16730|PHY93_16730  993 SLNPKSVEALMAMGWIRLAQNYANESIELYNRALR 1027
                               589**********************9988766553 PP

>> TPR_21  Tetratricopeptide repeat-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.1         2   1.4e+03      19      53 ..     346     380 ..     342     401 .. 0.71
   2 ?   -2.0   0.0       3.4   2.4e+03     154     171 ..     466     483 ..     466     487 .. 0.91
   3 ?   -0.3   0.0       1.1   7.5e+02     126     184 ..     542     604 ..     539     607 .. 0.83
   4 !   16.8   0.1   5.8e-06    0.0042      56     185 ..     638     766 ..     622     775 .. 0.78
   5 ?   -0.1   0.0      0.92   6.6e+02     118     174 ..     766     823 ..     756     834 .. 0.63
   6 ?    2.6   0.3      0.13        96     116     180 ..     934     999 ..     839    1012 .. 0.75

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 2
                   TPR_21  19 lvglaGwqgwqdyqeeqaeeAsalYqqlqeaveak 53 
                              ++ + G + + +++  + + As++Y   +++   +
  PHY93_16730|PHY93_16730 346 AALVQGRNLYAKNTYLKRAMASQAYIVSLQKQFGN 380
                              56677899999999999999999998655543333 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 3.4
                   TPR_21 154 DilvaqgkldeAraaYqa 171
                              D+l++ g+l eAr+ Y++
  PHY93_16730|PHY93_16730 466 DLLINAGDLVEARKTYTK 483
                              89999**********986 PP

  == domain 3  score: -0.3 bits;  conditional E-value: 1.1
                   TPR_21 126 ekkydeAlktL...eakkeeafaalvaelrGDilvaqgkldeAraaYqaAlaaleeka.rell 184
                              +kky+e l ++   +++++ af+a++    G + + ++k +eA   ++++la +e+++ r +l
  PHY93_16730|PHY93_16730 542 QKKYEEVLIKVnlnNSESSPAFTARFYYHMGLLSALKNKYKEATIFFKRSLAIKESDElRTML 604
                              788888888875555677889**********************99999999988888766665 PP

  == domain 4  score: 16.8 bits;  conditional E-value: 5.8e-06
                   TPR_21  56 akakeaaeeladeyggtaYaalaaLllAkaaveagdlaaAkaqLewvlekakdeelkalarlRLarvllaekkydeAlktL..eak 139
                              +++++a++  +++ + ++    a Ll+++ +  +g +++A ++L++++  ++ +   ++ +  L   ++++ k+++    L   ++
  PHY93_16730|PHY93_16730 638 NNLEAAFSYSIEAIDTSPDYVPAILLQTQLQLRRGLFDSAINTLQKAIGLNPGN---NVLKKNLVLAYMKAYKFEDSQLVLveLSQ 720
                              45555555556666666666678899**********************999776...78888888888888888888777732244 PP

                   TPR_21 140 keeafaalvaelrGDilvaqgkldeAraaYqaAlaaleekarellq 185
                              ++ af  ++a l GD ++a++++  A   Y++Al++   ++ ++ q
  PHY93_16730|PHY93_16730 721 SKFAFGNAYASLMGDFYLARNNIPLAMRWYNEALSRDPLSDYDMFQ 766
                              5557889***************************998877755555 PP

  == domain 5  score: -0.1 bits;  conditional E-value: 0.92
                   TPR_21 118 RLarvllaekkydeAlktLeakk.eeafaalvaelrGDilvaqgkldeAraaYqaAla 174
                              ++a++ l  kk++eA ++L+++   +  +a++     +i+++q+++d+A    ++A++
  PHY93_16730|PHY93_16730 766 QMAKIFLRIKKFNEAKSRLARALlLDPKNAEYLSTNAEIFFEQDNTDTAIGYLRDAIS 823
                              6677777777777777777554313445566666666666666666666555555555 PP

  == domain 6  score: 2.6 bits;  conditional E-value: 0.13
                   TPR_21 116 rlRLarvllaekkydeAlkt.LeakkeeafaalvaelrGDilvaqgkldeAraaYqaAlaaleeka 180
                              +  Lar++la++++++A ++ L++ + +    ++  + G+++  +++  eA  +Y++A++ + ++ 
  PHY93_16730|PHY93_16730 934 HFLLARIYLATNDVKKAKEMaLKELELNPSLDSAHFIVGEVARIEKDYREAILKYEKAISLNPKSV 999
                              445888888888777765432455555555566677899999999999999999999998777665 PP

>> GYF_2  GYF domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0     1e-05    0.0073       6      50 .]      11      55 ..       5      55 .. 0.93

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 1e-05
                    GYF_2  6 ngqqqGPfsleeLkelaasgeitpdtlVWreGmddWkpasevpeL 50
                             n+   GPf++ee+ el+ +++i+ d  + +    dW+ +++ p+L
  PHY93_16730|PHY93_16730 11 NDRVIGPFTTEEVGELYLKNHINGDEVCQQFPIGDWRNIATFPDL 55
                             66899************************************9998 PP

>> Suf  Suppressor of forked protein (Suf)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.4   0.2     2e-05     0.014      18      86 ..     475     542 ..     451     588 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 2e-05
                      Suf  18 kgaRkvFkkARkkprltyevyvasAllEyyiskdkkvAtkIFelGlKkFpedeefvlkYldyLislndd 86 
                               +aRk ++k + +p+  +e y  +A    + ++ ++ A+ I + GlK +p++   +lk  dyL++   +
  PHY93_16730|PHY93_16730 475 VEARKTYTKLKGTPKKPFEAYYSLAHFSEV-ADQPADARSIIDEGLKYYPNNVLLLLKSADYLLKDQSQ 542
                              589***********************9988.666666**************************875444 PP

>> PBP1_TM  Transmembrane domain of transglycosylase PBP1 at N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.7       0.9   6.5e+02      34      64 ..     112     153 ..      97     161 .. 0.59
   2 ?   12.5   0.7    0.0002      0.14      22      80 ..     239     306 ..     233     313 .. 0.61

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.9
                  PBP1_TM  34 dydd...........eyddeedDdddddeeeevprkgkkkkp 64 
                              dy++           + +d++  dd+  e+  v +kg+ k+p
  PHY93_16730|PHY93_16730 112 DYEElekkykvhksvDSSDNNSNDDEGVEKTRVIKKGMLKAP 153
                              555555544444333334444444455566667777776664 PP

  == domain 2  score: 12.5 bits;  conditional E-value: 0.0002
                  PBP1_TM  22 rkkasrrrrrdddyddeyddeedDdddddeeeevprk........gkkkkpprkkrrw.lwlliklfl 80 
                              r + + ++ r  + ++++++ee+Dd+d++ eeev            k +k+p+kkr+  +++++ +  
  PHY93_16730|PHY93_16730 239 RVEENNEKIRLKELQEQVEQEENDDEDEEFEEEVQAEaflgtttdPKLAKKPKKKRKKgMSIIVAITF 306
                              44445555565566666666777766666566664444787777766666677777654777776654 PP

>> Myc_N  Myc amino-terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9  10.0   0.00044      0.32     147     254 ..     163     272 ..     137     276 .. 0.61

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00044
                    Myc_N 147 sasrersgsaaaarlsaallqdlktsasecvdpsvvfpfplnkkekakkaaaesaalaldppas...ssssasaassssssdskal 229
                              +++ + +++ + ++++++  ++ k++as+++ + vv p p +++  ++k++  + a++l   ++   +s  +  ++++ +++++++
  PHY93_16730|PHY93_16730 163 PSKASVPKRDS-TETRKNKISEKKKKASDAISAIVVAPVPTQEELMNEKTEFFNLAQILPSINAqlsVSEVELDQQARVEENNEKI 247
                              23333333333.34444556778889****************99999888777666666544444444444555555555666666 PP

                    Myc_N 230 ssseedvlsesdeeeeeeeeeeeei 254
                                +e +++ e++e+++e+ee eee+
  PHY93_16730|PHY93_16730 248 RLKELQEQVEQEENDDEDEEFEEEV 272
                              6666666666666677777777776 PP

>> TPR_20  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.4       6.5   4.7e+03       5      23 ..     246     264 ..     242     268 .. 0.79
   2 ?    4.7   0.0     0.054        39       7      60 ..     677     728 ..     675     756 .. 0.82
   3 ?   -1.6   0.0       4.9   3.5e+03      24      52 ..     763     791 ..     745     825 .. 0.62
   4 ?    5.7   0.0     0.026        18      15      48 ..     890     923 ..     877     932 .. 0.88
   5 ?   -0.0   0.1       1.6   1.1e+03       7      47 ..     919     956 ..     918     966 .. 0.77
   6 ?    4.1   0.9     0.081        58       3      52 ..    1014    1063 ..    1012    1075 .. 0.85

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 6.5
                   TPR_20   5 apelaeleaalaanpddld 23 
                              +  l+el+++++++ +d +
  PHY93_16730|PHY93_16730 246 KIRLKELQEQVEQEENDDE 264
                              56789999**999998865 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.054
                   TPR_20   7 elaeleaalaanpddldarldlAlallaagryeeAleqLleilkrdrkweddaa 60 
                               + +l++a+  np ++ ++ +l la+++a + e++   L+e+ +++ ++  + a
  PHY93_16730|PHY93_16730 677 AINTLQKAIGLNPGNNVLKKNLVLAYMKAYKFEDSQLVLVELSQSKFAF--GNA 728
                              5789******************************999999998877766..444 PP

  == domain 3  score: -1.6 bits;  conditional E-value: 4.9
                   TPR_20  24 arldlAlallaagryeeAleqLleilkrd 52 
                               ++++A+  l  ++  eA ++L + l  d
  PHY93_16730|PHY93_16730 763 DMFQMAKIFLRIKKFNEAKSRLARALLLD 791
                              56666666666666666666666555433 PP

  == domain 4  score: 5.7 bits;  conditional E-value: 0.026
                   TPR_20  15 laanpddldarldlAlallaagryeeAleqLlei 48 
                              l+ np +l++rldl + l+  +ry +A+++L e+
  PHY93_16730|PHY93_16730 890 LKLNPGNLKIRLDLGEFLFNLKRYPDAIAELEEV 923
                              6789*************************99775 PP

  == domain 5  score: -0.0 bits;  conditional E-value: 1.6
                   TPR_20   7 elaeleaalaanpddldarldlAlallaagryeeAleqLle 47 
                              el+e++a+l + p+    ++ lA+ +la +++++A e  l+
  PHY93_16730|PHY93_16730 919 ELEEVRAKLVSYPKV---HFLLARIYLATNDVKKAKEMALK 956
                              677777777777764...79999999999999999877665 PP

  == domain 6  score: 4.1 bits;  conditional E-value: 0.081
                   TPR_20    3 adapelaeleaalaanpddldarldlAlallaagryeeAleqLleilkrd 52  
                                ++++++   +al +++++ +++ ++ la+ aag+++ A e++ + lk  
  PHY93_16730|PHY93_16730 1014 YANESIELYNRALREDKTNPEIHKQMGLAYKAAGQRALAKEKFEDYLKLS 1063
                               57788888999****************************99988888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1078 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1810  (0.100954); expected 358.6 (0.02)
Passed bias filter:                      661  (0.0368676); expected 358.6 (0.02)
Passed Vit filter:                        90  (0.0050198); expected 17.9 (0.001)
Passed Fwd filter:                        29  (0.00161749); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              25  [number of targets reported over threshold]
# CPU time: 1.07u 0.26s 00:00:01.33 Elapsed: 00:00:00.53
# Mc/sec: 6114.76
//
Query:       PHY93_09845|PHY93_09845  [L=437]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      0.008   15.7   0.2       0.02   14.4   0.2    1.6  2  Flp_C     Recombinase Flp protein
  ------ inclusion threshold ------
       0.13   12.2   0.0        5.1    7.1   0.0    2.7  2  UBA_6     UBA-like domain


Domain annotation for each model (and alignments):
>> Flp_C  Recombinase Flp protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.2   2.3e-06      0.02      73     149 ..     221     299 ..     191     318 .. 0.82
   2 ?   -3.2   0.0      0.55   4.9e+03     133     181 ..     354     402 ..     344     406 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 2.3e-06
                    Flp_C  73 kylgviiqclvtetktsvsrhiyffsa.rgridplvyldeflrnsepvlkrvnrtgnsssnkqeyq.llkdnlvrsynk 149
                               y+g iiq    +t+   s + yf+    g  d +vy   f ++ e  lkr++   +    kqe + ll     rs  +
  PHY93_09845|PHY93_09845 221 SYMGGIIQTNANDTQLVKSLKSYFIGRlIGVTDVVVYDPMFNKEREVALKRIEELKKDPNYKQEVDkLLVSYKERSLYR 299
                              69**********************975269999999*99******************9999999741444444444433 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 0.55
                    Flp_C 133 kqeyqllkdnlvrsynkalkknapysifaikngpkshigrhlmtsflsm 181
                               q y+  k + + + +  l + a  +if   + p+s i  ++   +l m
  PHY93_09845|PHY93_09845 354 AQVYEQTKGEWIDTSDAGLDRYAFNTIFYGVQIPRSMIQSYITYQMLCM 402
                              5777777888888888888888888888888888888888777777766 PP

>> UBA_6  UBA-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.1   0.0   0.00057       5.1      11      30 ..      65      84 ..      62      88 .. 0.88
   2 ?    1.8   0.0     0.025   2.3e+02       6      14 ..     205     213 ..     203     215 .. 0.88

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.00057
                    UBA_6 11 LGYseeqvqavLekLGpead 30
                             LG+s+e++  v+e+L++  d
  PHY93_09845|PHY93_09845 65 LGFSNEDLTIVIERLNLKKD 84
                             9**************98655 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.025
                    UBA_6   6 dfflKLGYs 14 
                              + f KLGY+
  PHY93_09845|PHY93_09845 205 EWFKKLGYD 213
                              689*****7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (437 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       865  (0.0482459); expected 358.6 (0.02)
Passed bias filter:                      432  (0.024095); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.38
# Mc/sec: 3454.34
//
Query:       PHY93_09850|PHY93_09850  [L=306]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.1e-09   35.7   0.0      3e-08   33.9   0.0    1.9  2  Acetyltransf_1   Acetyltransferase (GNAT) family
    7.2e-06   26.0   0.0    1.6e-05   24.8   0.0    1.6  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
    0.00027   21.3   0.0    0.00071   19.9   0.0    1.7  1  Acetyltransf_7   Acetyltransferase (GNAT) domain
      0.002   18.2   0.0     0.0093   16.0   0.0    2.1  1  Acetyltransf_9   Acetyltransferase (GNAT) domain
  ------ inclusion threshold ------
       0.02   15.0   0.0      0.049   13.8   0.0    1.6  1  Acetyltransf_CG  GCN5-related N-acetyl-transferase
       0.03   15.1   2.7       0.29   12.0   0.1    2.9  3  Rho_Binding      Rho Binding


Domain annotation for each model (and alignments):
>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.1      0.72   2.2e+03      66      66 ..      86      86 ..      30     135 .. 0.59
   2 !   33.9   0.0     1e-11     3e-08      21      96 ..     204     278 ..     182     291 .. 0.78

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.72
                             E CS
           Acetyltransf_1 66 l 66
                             +
  PHY93_09850|PHY93_09850 86 C 86
                             1 PP

  == domain 2  score: 33.9 bits;  conditional E-value: 1e-11
                              HHH..HHHHHHSTTCEEEEEEETTEEEEEEEEEEEETTSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHTTESE CS
           Acetyltransf_1  21 eee..feesfsleaegllvaeedgeliGfisllkipdekggvayieslaVspeyrgkGlGsaLlealeerareegikk 96 
                               e+  f++ + + + +++v+++d++++G i+++ ++   ++++ i s++V+ e+ g Gl ++L+++l++++ ++ +  
  PHY93_09850|PHY93_09850 204 KEItvFYKNLLKRN-SCFVVKKDNKIAGSIGYFVDQK--NKRGLIASIFVANEFKGLGLSKLLYKKLLQEFSKKKLSH 278
                              22344666655555.56777**********9999988..9*****************************998886644 PP

>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.8   0.0   5.4e-09   1.6e-05      29      96 ..     215     287 ..     187     303 .. 0.79

  Alignments for each domain:
  == domain 1  score: 24.8 bits;  conditional E-value: 5.4e-09
          Acetyltransf_10  29 gealllvaeeggkivGviel.rdgs....hisllfVdpeyrgqGigkaLleaveeeaekdgikleltvnaspy 96 
                              +++ ++v+++++ki+G i++  d++     i+ +fV++e++g G++k L +++++e++k+++++ l +  ++ 
  PHY93_09850|PHY93_09850 215 KRNSCFVVKKDNKIAGSIGYfVDQKnkrgLIASIFVANEFKGLGLSKLLYKKLLQEFSKKKLSHYLGASTTTR 287
                              45668999999*******776555557889**************************99988775555555555 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.9   0.0   2.4e-07   0.00071       2      49 ..     216     269 ..     215     296 .. 0.75

  Alignments for each domain:
  == domain 1  score: 19.9 bits;  conditional E-value: 2.4e-07
                              TEEEEEEEETTEEEEEEEEEEES....TCTEEEEE-GGGTTSSHHHHHHHH..T CS
           Acetyltransf_7   2 kgevfVaeddgkivGfialslld....aeitrlaVdpeyrgkGiGraLlea..a 49 
                              ++++fV+++d+ki G i++ +++    + i  ++V+ e+ g G+ + L +   +
  PHY93_09850|PHY93_09850 216 RNSCFVVKKDNKIAGSIGYFVDQknkrGLIASIFVANEFKGLGLSKLLYKKllQ 269
                              5789************9999998776555555****************985231 PP

>> Acetyltransf_9  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.0   3.1e-06    0.0093      17     109 ..     193     278 ..     182     289 .. 0.86

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 3.1e-06
                              HHHHTT----H..HHHHHHHHHHTTSEEEEEEETTEEEEEEEEEEEEEEETTEEEEEEEEEEEEE-CCGTTS-HHHHHHHHHHHHH CS
           Acetyltransf_9  17 lkyaFqdeespleeireyfrklleesrvlgaedngelvgqlallplelnvpGktlkaagvtgVavapehrgrgvlskLlaraleem 102
                               + +F + es   ei+ ++++ll+++ ++++ ++++++g+++++       +++ k + ++++ va e +g g+ + L +++l+e 
  PHY93_09850|PHY93_09850 193 MRDVFSRPESLK-EITVFYKNLLKRNSCFVVKKDNKIAGSIGYF------VDQKNKRGLIASIFVANEFKGLGLSKLLYKKLLQEF 271
                              6889***99997.8999************************987......578888899999************999999999999 PP

                              HHTT--E CS
           Acetyltransf_9 103 reegqpl 109
                               +++ + 
  PHY93_09850|PHY93_09850 272 SKKKLSH 278
                              9877655 PP

>> Acetyltransf_CG  GCN5-related N-acetyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   1.7e-05     0.049       2      57 ..     220     275 ..     219     279 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 1.7e-05
          Acetyltransf_CG   2 feltldegeevafleY.evrkegvldfthTeVpeelrGkGiAkkLvkaalddareeg 57 
                              f ++ d ++ ++ + Y  ++k+++  +  ++V  e++G G+ k L k+ l++  +++
  PHY93_09850|PHY93_09850 220 FVVKKD-NKIAGSIGYfVDQKNKRGLIASIFVANEFKGLGLSKLLYKKLLQEFSKKK 275
                              566666.8899*****65677778899***********************9988876 PP

>> Rho_Binding  Rho Binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.1   9.7e-05      0.29      16      56 ..      14      54 ..       7      57 .. 0.87
   2 ?    2.1   0.1      0.12   3.5e+02      45      58 ..     151     164 ..     134     169 .. 0.88
   3 ?   -2.4   0.0         3   8.9e+03      20      31 ..     184     195 ..     174     216 .. 0.48

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 9.7e-05
              Rho_Binding 16 nkklkkleeelekakeeeeeieklkasyekqLktErlLKtq 56
                              k +++++e + k+k + +ei  l++s+ek+ k+Erl+ +q
  PHY93_09850|PHY93_09850 14 LKIVSDHHETIFKQKMSVSEILDLRVSFEKSFKEERLIYEQ 54
                             55678899999999999*******************97655 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.12
              Rho_Binding  45 kqLktErlLKtqAV 58 
                              k L++E++ Ktq +
  PHY93_09850|PHY93_09850 151 KILSKEKTAKTQSI 164
                              6899********76 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 3
              Rho_Binding  20 kkleeelekake 31 
                              ++l+++ +++++
  PHY93_09850|PHY93_09850 184 SHLQDKSSRMRD 195
                              344444444443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (306 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       718  (0.0400469); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.47u 0.20s 00:00:00.67 Elapsed: 00:00:00.36
# Mc/sec: 2539.09
//
Query:       PHY93_09855|PHY93_09855  [L=716]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    8.6e-59  199.2   3.8    1.1e-58  198.8   3.8    1.1  1  Glucodextran_N  Glucodextranase, domain N
    3.3e-21   75.6   0.0    9.7e-14   51.0   0.0    3.1  2  Glyco_hydro_15  Glycosyl hydrolases family 15


Domain annotation for each model (and alignments):
>> Glucodextran_N  Glucodextranase, domain N
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  198.8   3.8   1.3e-62   1.1e-58       1     262 [.      30     285 ..      30     286 .. 0.93

  Alignments for each domain:
  == domain 1  score: 198.8 bits;  conditional E-value: 1.3e-62
           Glucodextran_N   1 ApgaPgaaptWtsaaKdgvGtale....avSrVWFTlaeGiltEvyyPtidtaqlrdlqflvtdgetfvdeekrdteskvelldpe 82 
                              A gaPg++ +W+sa+K  vGt  e    a S +WFTlaeG+ltEvyyPtid+ q++d qflv+dg+tf+++ +rd+++kve+l+p 
  PHY93_09855|PHY93_09855  30 ASGAPGIQGSWSSAKKVQVGTYNEdgrsANSPLWFTLAEGTLTEVYYPTIDQGQVKDSQFLVSDGRTFFQQ-ERDLKHKVEVLSPS 114
                              78*******************99999999**************************************9976.789*********65 PP

           Glucodextran_N  83 slayrvvntdkegryriekeiftDpdrdvllvrvrfekakeeelrlyalldphldnsgagdsasvveakggkalvAsdgsvalAla 168
                                 ++++n+d +gry+i  ++ t  d+ +l+ +v++ +++ +++++y+l +p+l+n+ a+dsa v     ++ ++ s++ + l++ 
  PHY93_09855|PHY93_09855 115 --LVKITNQDFSGRYKISHTFYTLKDSATLVDEVEV-QTNINGIHIYLLTNPQLNNTAAKDSAAV----TNDGFLFSENRTQLSVS 193
                              ..589*******************************.9***************************....55556666778999*** PP

           Glucodextran_N 169 asvpferasvGyvGasDgltdLkadgtltweyesasdGnvaltgeldl...gtskeftlalGFgesaeeAaaeaaaslkegfeevl 251
                              +s +f++ svG+vG+sDg++d++++ ++++ +++a++Gnva tge++    + + +f ++ +Fg+  +      +a   +++++++
  PHY93_09855|PHY93_09855 194 TSAGFRQKSVGFVGSSDGYQDISRHYQMNNLFTTATNGNVASTGEIEIpqtAGTYHFYVTYSFGDLVK-----LKAKKLTDYNQAK 274
                              ***********************************************99888889999999***9765.....45555689***** PP

           Glucodextran_N 252 aaYaegWedyl 262
                              ++Y  +W +yl
  PHY93_09855|PHY93_09855 275 NDYVLSWTNYL 285
                              **********8 PP

>> Glyco_hydro_15  Glycosyl hydrolases family 15
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.0   0.0   1.1e-17   9.7e-14       3     326 ..     298     620 ..     296     627 .. 0.76
   2 !   21.4   0.0     1e-08   9.3e-05     352     447 ..     619     704 ..     608     705 .. 0.87

  Alignments for each domain:
  == domain 1  score: 51.0 bits;  conditional E-value: 1.1e-17
                              HHHHHHHCBCSTTSSBTTS-TT-B-S-S-BSSS............B--SEEHHHHHHHHHHHH........HHHHHTTT-HCCHHH CS
           Glyco_hydro_15   3 rldlylrnvktlilleqnpvtGlliASpstsdp............DYrytWvRDsvyvilavwglg.yrdedrakayeleqslvkl 75 
                              +l lylr++ tl ++e++ ++G++iAS s++++            +Y++ W RD   v  a+++ g y              l++ 
  PHY93_09855|PHY93_09855 298 QLLLYLRSLYTLRCHEDKLNPGAFIASLSIPWGesqkespnqeigGYHLIWPRDLFNVSVALLNSGdYP-----------AALRA- 371
                              5678***********************************************************666332...........33322. PP

                              HHHHHHHHHHHCTS-BTTB-TTSCGGGG--EE-TTS-B--S-..-S--BTTHHHHHHHHHHHH.....HCTTHCHCCCCHHHHTHH CS
           Glyco_hydro_15  76 mrglleamvrqagkvekfketqstkgLhakyftktgstvvGddewghlQlDatslyllalaqm.....tasglqiistldevafvq 156
                               r l +++++  +   +++ +  +    + +   +++ v+G   w ++QlD+t++++ +++ +     ta   ++i + +++    
  PHY93_09855|PHY93_09855 372 LRFLKKIQYKEGAGTWNLNPRIIP----KAGAWPQNTWVTGRTYWEGFQLDQTAFPIHLFYHIllktpTADRGALIAEFQPM--LT 451
                              444556888887777788878887....55555669999************************9998878889999999999..** PP

                              HHHHHHHHHTTS-EE-TTS--ECEEHH..HHHHHHHHHHHHHHHHHHCT-HH....HHCC.HHHHHHHHHHHHHSTTT..GGGEET CS
           Glyco_hydro_15 157 nlvdYieaayktpdfglWEenqgeselnassvgmakAlleaideadlfgakg....daql.vektkdeilnklqgkygckrgfwpl 237
                                + +i  +   + +++WEen g+s+   s  +  +Al  + ++  +    +     a+  + +  d+i ++      ++ g   +
  PHY93_09855|PHY93_09855 452 SALNFISTYGPWTHQERWEENFGISPS--SFSAATAALIIGSKIYPSTAYGQymldTANHwLYTPNDNIDTWT----FTTNGSYGD 531
                              ***************************..88888888888888877666333567634431333445555555....555677777 PP

                              TCCECECSCH....................HHHTTS--S-BCHHHHHHHHCS-TTS-TT-TT-TTTSHHHHHHHHHHHHHHHHHSG CS
           Glyco_hydro_15 238 fntylildgs...............faedkeqvqeyrealdasllllpelyfvpaddvdeeyqnpqsprllaqslyildsllsegf 308
                              + +yl++ g                  +++ q   + + ld+ +l l+ l+  p ++          p + a+   ++++++   +
  PHY93_09855|PHY93_09855 532 GRYYLRMAGGssydanwnpndnssiHIANSSQSIPQGKVLDQGFLQLVLLGLKPGNS----------PEVKASKAILDRQISYVSP 607
                              777777777766666666666666677777888888889999999999999999888..........5554444444444444444 PP

                              GGTT-STTS--SBTT--C CS
           Glyco_hydro_15 309 lavgeldplvrRysedvk 326
                                 g     ++Rys d +
  PHY93_09855|PHY93_09855 608 KGRG-----WYRYSFDAY 620
                              3333.....666666655 PP

  == domain 2  score: 21.4 bits;  conditional E-value: 1e-08
                              HHHHHHHTE-EEEECCCHHHHHHHTTTTTGGGSSEEETCHHHHHHHHHHHHHHHHHHHHHHS-TTS---SEE-TTT--.EESSTT- CS
           Glyco_hydro_15 352 lyekagkgrlwglvryalglleklveskqltvGlpperesvisaplpveeladliveaveednslgvLteevdvylge.liraqpl 436
                              +y  +gkgrlw+l++ + + +     s        +++ s++++ +  +++ d+++ +   +ns+ ++ e+v +++ge + +a+pl
  PHY93_09855|PHY93_09855 619 AYGEEGKGRLWPLLSGEHARFAIERFS--------ANDLSWNDVLKETNTIVDSFLGF---ANSGLMIPEQVFENSGEgTGSATPL 693
                              799999999***999999977554444........67999999999999888888765...9****************9999**** PP

                              HHHHHHHHHHH CS
           Glyco_hydro_15 437 lfsealllrig 447
                              ++s+a+++++ 
  PHY93_09855|PHY93_09855 694 AWSHAEYIKLL 704
                              ********986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (716 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       376  (0.0209716); expected 358.6 (0.02)
Passed bias filter:                      288  (0.0160634); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.25s 00:00:00.83 Elapsed: 00:00:00.39
# Mc/sec: 5516.31
//
Query:       PHY93_09860|PHY93_09860  [L=628]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.3e-68  230.6  30.6    3.8e-68  229.9  30.6    1.3  1  PTS_EIIC         Phosphotransferase system, EIIC
      5e-48  162.0   0.2    9.5e-48  161.1   0.2    1.5  1  PTS_EIIA_1       phosphoenolpyruvate-dependent sugar phosphot
    2.3e-15   55.8   0.1    4.2e-15   54.9   0.1    1.5  1  PTS_EIIB         phosphotransferase system, EIIB
  ------ inclusion threshold ------
      0.038   14.0   0.1       0.58   10.1   0.0    2.5  2  RnfC_N           RnfC Barrel sandwich hybrid domain
        1.8    8.5   5.9       0.48   10.4   2.0    2.0  3  Abhydrolase_9_N  Alpha/beta-hydrolase family N-terminus


Domain annotation for each model (and alignments):
>> PTS_EIIC  Phosphotransferase system, EIIC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  229.9  30.6   1.1e-71   3.8e-68       1     322 [.      16     309 ..      16     310 .. 0.90

  Alignments for each domain:
  == domain 1  score: 229.9 bits;  conditional E-value: 1.1e-71
                 PTS_EIIC   1 sdgfmlpiplliagGillglgnlpnssdlkglsslgvqtilsslaeilkqagnavfanLpllfaigiayglakggkgvaglaglig 86 
                              ++++m p+ +l+a+G+l+++g +            + + + +    ++ ++g a+f  Lp+ faig+a+g+  gg+gvagla ++g
  PHY93_09860|PHY93_09860  16 GKSLMTPVSVLPAAGLLVAFGRIF-----------DHFLLGK----LMFSGGIAIFEQLPVVFAIGVAIGFT-GGAGVAGLASAVG 85 
                              689*******************22...........2234445....9************************6.************* PP

                 PTS_EIIC  87 llafnllaaisvlllaagalasakasilgiktlstgvfgaiivgllaaylynkfeknitikLPeslpffvgkrfvpiittlvvllv 172
                              + ++     + v++++  +          +   +tgvfg+ii+gllaayly++f++    kL+ +l+ff gkrfvpi+t+  ++++
  PHY93_09860|PHY93_09860  86 YFTLIN--VLKVMKEYRVL----------TVDINTGVFGGIIIGLLAAYLYKRFYQ---TKLHPVLGFFAGKRFVPIVTAA-AAVF 155
                              ***555..66666555544..........45679**********************...**********************.8889 PP

                 PTS_EIIC 173 vglvllliwpaiqgglnalglllggsgsllgvlifgflerllipfGlHhafiapfwftsaggslaianqqlyg.agk......eaa 251
                              vg++l++iwp+iq+++na+g   +++gs  g +++++  rllip+GlHh+f++pf+++++  ++++ +q l+g ag+       a+
  PHY93_09860|PHY93_09860 156 VGVALGFIWPPIQHAINAFG--THIMGSDYGPAFYAAGKRLLIPVGLHHVFYPPFLYEFG-EYATATGQILRGeAGRyfagdpSAG 238
                              9*******************..777777789****************************7.77777799999983335555579** PP

                 PTS_EIIC 252 hiltgefvsvmfGgpgatlalyiaaflekkskqkkllgsaaltpflfGItepleFgfpfvlnlllfipall 322
                              +++++ef+ + fG+p+a  a+y+ a+++++++++++++ aalt++++GItep+eF+f+fv+++l+f+++++
  PHY93_09860|PHY93_09860 239 RFMASEFPLMLFGLPAACYAMYLRAPATRRKAVAGIMITAALTSIITGITEPIEFSFIFVAPVLYFFHVAA 309
                              ********************************************************************986 PP

>> PTS_EIIA_1  phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  161.1   0.2   2.7e-51   9.5e-48       3     125 ..     483     605 ..     481     607 .. 0.98

  Alignments for each domain:
  == domain 1  score: 161.1 bits;  conditional E-value: 2.7e-51
                              -----SEEEEEGGGSSSHHHHT-TTSEEEEEEE-SSEEEES--EEEEE--SSSSEEEEESSSS-EEEEE-SSSTTTTTTTTEEES- CS
               PTS_EIIA_1   3 ilspvsGevvpleevpDevfaekmlGdGvaiepsegkvvapvdGkvekvfptkHaigiktddgvevlihiGidtvklkgegFellv 88 
                              + sp++Ge+++l++vpD +fa+k+lGdG+a++p+eg v+apv+Gk+ ++f t+Haig+ t++g+e+lih+Gidtvk++g+gF+ +v
  PHY93_09860|PHY93_09860 483 FSSPLKGEILSLAQVPDATFADKILGDGFAVRPTEGVVYAPVAGKIAQLFRTNHAIGVLTEEGLEILIHVGIDTVKMNGDGFTPFV 568
                              579*********************************************************************************** PP

                              ---SEE-SEEEEEEE-HHHHGGGSS---EEEEESSGG CS
               PTS_EIIA_1  89 kegdkVkagdklvevdleaikkagystttpvvvtnse 125
                              k+gd+V +g+k++e+dl+ +++ ++s++tpv+vtn+ 
  PHY93_09860|PHY93_09860 569 KKGDTVVRGQKILEFDLDLVRAGAKSDITPVLVTNMG 605
                              **********************************985 PP

>> PTS_EIIB  phosphotransferase system, EIIB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.9   0.1   1.2e-18   4.2e-15       2      34 .]     397     429 ..     396     429 .. 0.98

  Alignments for each domain:
  == domain 1  score: 54.9 bits;  conditional E-value: 1.2e-18
                              HHHHHH-.GGGEEEEEE-SSEEEEEES-GGGS- CS
                 PTS_EIIB   2 eIldalGGkdNIesvthCaTRLRltlkDaskvd 34 
                              eIl+alGG +NI+++++C+TRLRl +kD+s v+
  PHY93_09860|PHY93_09860 397 EILAALGGSENIITLDACITRLRLSVKDPSRVN 429
                              9******************************98 PP

>> RnfC_N  RnfC Barrel sandwich hybrid domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.0      0.15   5.3e+02      67      85 ..     518     536 ..     496     551 .. 0.81
   2 ?   10.1   0.0   0.00016      0.58      39      62 ..     561     584 ..     552     614 .. 0.84

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.15
                   RnfC_N  67 apvhasvsGtVkaiekrlv 85 
                                v+a+v+G++ ++   ++
  PHY93_09860|PHY93_09860 518 GVVYAPVAGKIAQLFRTNH 536
                              569********98766555 PP

  == domain 2  score: 10.1 bits;  conditional E-value: 0.00016
                   RnfC_N  39 GapakplvkvgdkVlkGqkiaeae 62 
                              G   +p vk+gd+V +Gqki e +
  PHY93_09860|PHY93_09860 561 GDGFTPFVKKGDTVVRGQKILEFD 584
                              666789**************8765 PP

>> Abhydrolase_9_N  Alpha/beta-hydrolase family N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   2.0   0.00013      0.48      15     122 ..      61     176 ..      59     187 .. 0.85
   2 ?   -3.8   0.1       2.9     1e+04      98     110 ..     272     284 ..     260     316 .. 0.56
   3 ?   -3.7   0.0       2.8     1e+04      45      83 ..     430     468 ..     413     474 .. 0.62

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00013
          Abhydrolase_9_N  15 vvsGlsaaiGYglGvllawlvrrllr........lpepsrrvrrrlrlalavvalvvllvalvlaarwQrelralmgaeplgaaey 92 
                              vv ++ +aiG++ G+ +a l++++++          +  r  +  +++ ++  ++++ll+a+++    Q++l+ ++g  + +   +
  PHY93_09860|PHY93_09860  61 VVFAIGVAIGFTGGAGVAGLASAVGYftlinvlkVMKEYRVLTVDINTGVFGGIIIGLLAAYLYKRFYQTKLHPVLGFFAGKRFVP 146
                              56778888888888888888888888888887643344445556899999************************************ PP

          Abhydrolase_9_N  93 llvllvallvfalllllgrllralvrllar 122
                              ++++++a++v ++l  ++  ++++++++ +
  PHY93_09860|PHY93_09860 147 IVTAAAAVFVGVALGFIWPPIQHAINAFGT 176
                              ******************999999988765 PP

  == domain 2  score: -3.8 bits;  conditional E-value: 2.9
          Abhydrolase_9_N  98 vallvfalllllg 110
                              +++++ a+l+ ++
  PHY93_09860|PHY93_09860 272 AGIMITAALTSII 284
                              2222222222222 PP

  == domain 3  score: -3.7 bits;  conditional E-value: 2.8
          Abhydrolase_9_N  45 srrvrrrlrlalavvalvvllvalvlaarwQrelralmg 83 
                              ++r +r   + l+v++    +++ v + + ++e+++lm 
  PHY93_09860|PHY93_09860 430 QDRLKRLGAAGLMVTGNNFQVIFGVESDTLKEEIKSLMM 468
                              444455555555555556677777778888888888775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (628 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       641  (0.0357521); expected 358.6 (0.02)
Passed bias filter:                      351  (0.0195772); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.61u 0.26s 00:00:00.87 Elapsed: 00:00:00.41
# Mc/sec: 4552.47
//
Query:       PHY93_09865|PHY93_09865  [L=84]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.9e-27   94.3   0.2    4.2e-27   94.2   0.2    1.0  1  PTS-HPr   PTS HPr component phosphorylation site


Domain annotation for each model (and alignments):
>> PTS-HPr  PTS HPr component phosphorylation site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   94.2   0.2   2.3e-31   4.2e-27       2      81 ..       2      81 ..       1      82 [. 0.96

  Alignments for each domain:
  == domain 1  score: 94.2 bits;  conditional E-value: 2.3e-31
                             EEEEEEESTCCCSHHHHHHHHHHHTTSSSEEEEEE....EETTSHHHHHHCTCSTT-EEEEEEESTTHHHHHHHHHHHHC CS
                  PTS-HPr  2 ekkvtiknekGlhaRpAamlvqaasefksevtlekkdkpvnaksilglmsLgvkkGeevtvsaeGedeeealealaelle 81
                             +++v++ n++GlhaRpA+ lv++a++f+se++l+  ++++naksi+++m+Lg+ k++ vtvsa G+d+e+al+++++l++
  PHY93_09865|PHY93_09865  2 QITVKVLNDEGLHARPAGILVKLANNFSSEIELSVDGDSANAKSIMSIMGLGLTKDTVVTVSAVGDDAEAALKEISALFN 81
                             789*******************************9669***************************************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (84 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       313  (0.0174578); expected 358.6 (0.02)
Passed bias filter:                      254  (0.014167); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.35u 0.21s 00:00:00.55 Elapsed: 00:00:00.35
# Mc/sec: 717.22
//
Query:       PHY93_09870|PHY93_09870  [L=561]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   5.8e-107  357.2   0.0   9.3e-107  356.5   0.0    1.3  1  PEP-utilizers_C  PEP-utilising enzyme, TIM barrel domain
    9.4e-29   99.9   0.3    1.6e-28   99.2   0.3    1.4  1  PEP-utilisers_N  PEP-utilising enzyme, N-terminal
    4.8e-24   83.9   0.1      9e-24   83.0   0.1    1.5  1  PEP-utilizers    PEP-utilising enzyme, mobile domain
     0.0058   15.8   0.0      0.013   14.7   0.0    1.5  1  HpcH_HpaI        HpcH/HpaI aldolase/citrate lyase family


Domain annotation for each model (and alignments):
>> PEP-utilizers_C  PEP-utilising enzyme, TIM barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  356.5   0.0  2.1e-110  9.3e-107      10     292 ..     256     537 ..     247     539 .. 0.98

  Alignments for each domain:
  == domain 1  score: 356.5 bits;  conditional E-value: 2.1e-110
                              CCCCHCCCXBCEEEEEESSCHHHHHHHHCTXSSEEEEEHHHHCTTSCCHHHHHHHHHHHHHHHHHTTTSEEEEEXXXSSCCGGSGG CS
          PEP-utilizers_C  10 llavtkdgkkikvlaNidtpedaekalengaeGiGLlRtEflfmareelpteeeqaeaykkvleamngrpvvvRtlDiggdkelpe 95 
                              l++ t dg +i+++ Ni+tp+d ++  +n ae++GL+RtEflfm+r+++p+e+eq++ay +v++ ++g+  ++RtlDiggdk+l++
  PHY93_09870|PHY93_09870 256 LESKTLDGFHIELAGNIGTPRDLDALHRNDAEAVGLYRTEFLFMDRNSMPSEDEQYHAYSEVIKGLKGKNCIIRTLDIGGDKKLSY 341
                              677899******************************************************************************** PP

                              CHHHH.XSXGGGSSXTHHHHCCSHHHHHHHHHHHHHHCCCCEEEEEESSXXSHHHHHHHHHHHHHHHHHHHHCTCTXXTTXEEEEE CS
          PEP-utilizers_C  96 lkeepeevNPmlGfRgirlglsepelfetqlrAllrasaagkleimlPmvasveeleeakkiieevkeelekegvkkkkkvkvGiM 181
                              l ++ ee+NP+lG+R+ir++l+epelf+tqlrAllras++g l+im+Pm++s+ee+   k+i +evk+el+++ v ++ ++++GiM
  PHY93_09870|PHY93_09870 342 L-DIGEEANPFLGYRAIRICLREPELFKTQLRALLRASIHGPLSIMFPMISSLEEILAVKTIWNEVKAELNEKLVPFALDIQLGIM 426
                              *.************************************************************************************ PP

                              EXSHHHHHTHHHHCTTSSEEEEXHHHHHHHHHTXXCCCHCHHHHSXTTTCHHCCCHHHHHHHHHHCCXEEEEESCCCCSCCCHHHH CS
          PEP-utilizers_C 182 iEvpsaalladklakevdFfSiGtNDLtQytlavdRdneevaklydplepavlrlikevikaaeekglkvgiCGelagdpsavell 267
                              iE+psaa++ d la +vdFfSiGtNDLtQyt avdR+ne++ +ly+p++p +lrli+++ik a++k++ vgiCG +a ++  v+l+
  PHY93_09870|PHY93_09870 427 IEIPSAAIISDILADHVDFFSIGTNDLTQYTCAVDRMNEKIEYLYNPYNPGLLRLIHMTIKNARAKNKMVGICGSMAHQKDLVPLF 512
                              ************************************************************************************** PP

                              HHCTXSEEEEXGGGHHHHHHHHHCT CS
          PEP-utilizers_C 268 vglGldelSmsaasvpaaraalaqv 292
                              vg+G+ elSmsa +++ +r+ ++++
  PHY93_09870|PHY93_09870 513 VGMGVSELSMSAMHILSTRKIIRKL 537
                              ********************99975 PP

>> PEP-utilisers_N  PEP-utilising enzyme, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   99.2   0.3   3.6e-32   1.6e-28       1     116 []       3     123 ..       3     123 .. 0.90

  Alignments for each domain:
  == domain 1  score: 99.2 bits;  conditional E-value: 3.6e-32
                              E-EEEE-SEEEEEEE.....---.-----G.GGHHHHHHHHHHHHHHHHHHHHHHHHHH...T-HHHHHHHHHHHHHHT-HHHHHH CS
          PEP-utilisers_N   1 kGiaaspGiaiGkav.....eveveeeeveaedveaelerleeAlekvreelealaeka...lgeeeaaifeahlmlleDpellee 78 
                              kGi+a+pG++iG a+     e+         ++ + e +rl +A++ ++ el++l++k+   lg+++a+if+ah+m+leDpell++
  PHY93_09870|PHY93_09870   3 KGISAAPGVVIGIALtiteeELV--I-PKFISTFDLEEARLGQAIQSAKLELNSLRAKTletLGDDKAQIFDAHMMILEDPELLKQ 85 
                              7**************66543111..1.112345889*********************999**999********************* PP

                              HHHHHHHHT--HHHHHHHHHHHHHHHHHHTT-HHHHHH CS
          PEP-utilisers_N  79 veerIregglnaeaAveevveefaaqfealddeylreR 116
                              + ++I+++ +nae+A+++v+++f+a fe+l+d+yl+eR
  PHY93_09870|PHY93_09870  86 TLTKIKKESVNAEYALNAVANQFIAVFEGLEDAYLKER 123
                              *************************************9 PP

>> PEP-utilizers  PEP-utilising enzyme, mobile domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   83.0   0.1     2e-27     9e-24       2      73 .]     149     222 ..     148     222 .. 0.98

  Alignments for each domain:
  == domain 1  score: 83.0 bits;  conditional E-value: 2e-27
                              --S-EEEEES---HHHHTTS-..GEEEEEES--TTHHHHHHHHHHTT--EEE--SSHH.HH--TEEEEEETTTT CS
            PEP-utilizers   2 leegvILvaeetspsdiagld..kaaGivterGGmtSHaAivArelgiPaVvgvgeatielkegdlitvDgstG 73 
                              l+e+vIL++++++ps++a +d  ++ G++t+ GG+tSH+Ai+Ar+l+iPa+vg+g+ + ++k+gd+i  Dg+tG
  PHY93_09870|PHY93_09870 149 LSEPVILITRDLTPSQTASMDrkNVLGFLTDIGGKTSHTAIMARTLEIPAIVGLGNFSATVKDGDRIAFDGETG 222
                              6789*********************************************************************9 PP

>> HpcH_HpaI  HpcH/HpaI aldolase/citrate lyase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.0   2.8e-06     0.013      64     155 ..     357     454 ..     348     471 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 2.8e-06
                              EE-SSTTHHHHHHHGG....HHHTTSSEEEESS--SHHHHHHHHHHTSHTTTS---......HCCC-EEEEEE-SHHHHHTHHHHH CS
                HpcH_HpaI  64 VRvnsldselikqdle....vldlgaqvvlvPkvetaeealevvsalrepekgirg......anketrllaqiEsaegvknaeeIa 139
                              +R+   ++el+k +l+    +   g+ ++++P++ + ee+l+v+++ +e++++          + ++ +++ i sa+ ++++    
  PHY93_09870|PHY93_09870 357 IRICLREPELFKTQLRallrASIHGPLSIMFPMISSLEEILAVKTIWNEVKAELNEklvpfaLDIQLGIMIEIPSAAIISDIL--- 439
                              4555555556665555522266678899***********************99999999988788888899998998887764... PP

                              TSTTEEEEEE-HHHHH CS
                HpcH_HpaI 140 avegldgvflGaeDls 155
                               ++ +d   +G++Dl+
  PHY93_09870|PHY93_09870 440 -ADHVDFFSIGTNDLT 454
                              .488888899998886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (561 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       450  (0.025099); expected 358.6 (0.02)
Passed bias filter:                      366  (0.0204139); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.56u 0.20s 00:00:00.76 Elapsed: 00:00:00.37
# Mc/sec: 4546.71
//
Query:       PHY93_09875|PHY93_09875  [L=376]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.2e-62  211.7   0.0    1.7e-62  211.2   0.0    1.2  1  PGA_cap   Bacterial capsule synthesis protein PGA_cap
  ------ inclusion threshold ------
      0.032   12.6   0.0      0.044   12.1   0.0    1.1  1  DUF2152   Uncharacterized conserved protein (DUF2152)


Domain annotation for each model (and alignments):
>> PGA_cap  Bacterial capsule synthesis protein PGA_cap
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  211.2   0.0   1.9e-66   1.7e-62       2     257 .]      36     298 ..      35     298 .. 0.92

  Alignments for each domain:
  == domain 1  score: 211.2 bits;  conditional E-value: 1.9e-66
                  PGA_cap   2 lafvGDvmlgralkqalkekeydfdpifaevkpllraaDlaivNlEtpv................teegeplsgk.plfrappevl 70 
                              ++fvGD+++++al+q++  ++ +f++i++++  l+++aD++++NlE+p+                  +++ +sg  +lf+ +p+++
  PHY93_09875|PHY93_09875  36 ISFVGDILIHKALYQVVVAETKHFSQIWEKTNGLFQKADFSVGNLEGPAamgidsngrdrgdigfVYDDQVYSGTnFLFNYHPRIF 121
                              89****************999*********************************9998887777755566777767********** PP

                  PGA_cap  71 aalkeagfdvvslAnNHalDygeeGlletlealdeagikhaGagrseaearkp.ailevkgirvallaytegtnstaeakagepns 155
                               +lk+ gfd+++ AnNHalD+ + G+++t+ a +++g++++G+  s++ +  + +i  ++++rva+l++te+tn+ +++++++ ++
  PHY93_09875|PHY93_09875 122 SDLKNSGFDLLTSANNHALDRDSIGIDKTIMAAQSSGLPTVGTRLSNNNQGLFyKIALINNMRVAFLGCTEMTNGITDNDDQVLTC 207
                              ********************************************999999998567777**********************99999 PP

                  PGA_cap 156 eeakeeeagaskerpgvaskdleklladirear..keadlvivslHwgeeyqekpadeqrelaralidaGadvviGhhpHvlqgie 239
                              +++                   +++l  i+ +     +d ++v  Hwg+ey+++p +eq ++ar++idaGa +viG+hpHvlq++e
  PHY93_09875|PHY93_09875 208 YKNP------------------SRILGIIKDVSmrSDVDALVVLPHWGTEYTHTPGSEQIAFARKYIDAGAIAVIGSHPHVLQPWE 275
                              5544..................456666665554456************************************************* PP

                  PGA_cap 240 iy.....kgklifYSlGNfifdq 257
                               y     ++ li+YSlGNf+++q
  PHY93_09875|PHY93_09875 276 KYvskdgREALILYSLGNFVAGQ 298
                              **99999999**********876 PP

>> DUF2152  Uncharacterized conserved protein (DUF2152)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   4.9e-06     0.044     299     357 ..     111     170 ..     104     183 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 4.9e-06
                  DUF2152 299 kelkqeHidvWadlfatGfeikkskaehtlngdrinatlYallsqsra.peletalslee 357
                              + l++ H ++++dl ++Gf++ +s ++h+l++d+i + + ++ +qs   p++ t ls+++
  PHY93_09875|PHY93_09875 111 NFLFNYHPRIFSDLKNSGFDLLTSANNHALDRDSIGIDKTIMAAQSSGlPTVGTRLSNNN 170
                              567889************************************999864267777777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (376 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       358  (0.0199677); expected 358.6 (0.02)
Passed bias filter:                      326  (0.0181828); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.39
# Mc/sec: 2911.66
//
Query:       PHY93_09880|PHY93_09880  [L=270]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      0.002   18.3   0.0     0.0035   17.5   0.0    1.5  1  Patatin   Patatin-like phospholipase


Domain annotation for each model (and alignments):
>> Patatin  Patatin-like phospholipase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.0     2e-07    0.0035     164     203 ..      69     108 ..       1     109 [. 0.68

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 2e-07
                  Patatin 164 dladavraSsafPglfppvsldgelyvDGGilsNvPilaa 203
                                  +v+aS+a+P++fpp ++++ ++ DG ++   P+ +a
  PHY93_09880|PHY93_09880  69 LGKKHVMASTAIPIFFPPIHIGDSYFGDGCLRQISPLSPA 108
                              445689***********************99877776665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (270 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       297  (0.0165653); expected 358.6 (0.02)
Passed bias filter:                      273  (0.0152267); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.20s 00:00:00.64 Elapsed: 00:00:00.37
# Mc/sec: 2195.91
//
Query:       PHY93_09885|PHY93_09885  [L=97]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.9e-12   45.8   0.0    8.8e-12   45.6   0.0    1.0  1  Patatin   Patatin-like phospholipase


Domain annotation for each model (and alignments):
>> Patatin  Patatin-like phospholipase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.6   0.0   4.9e-16   8.8e-12       1      60 [.      13      75 ..      13      88 .. 0.91

  Alignments for each domain:
  == domain 1  score: 45.6 bits;  conditional E-value: 4.9e-16
                  Patatin  1 LvlsGGGsrgafslgalka....LkkelgerfdiisGtSaGAiialllalgrdpaalvddlrnl 60
                             Lvl G G+r a+++g++ka    L  ++   f +i+GtSaG+i+a+++++  d  +++ ++ + 
  PHY93_09885|PHY93_09885 13 LVLNGAGARTAYQVGVIKAlgeiL-PQKTCPFPVICGTSAGSINASFISSHADEWKISTEMLAE 75
                             8******************77777.999999********************9999999888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (97 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       339  (0.0189079); expected 358.6 (0.02)
Passed bias filter:                      321  (0.017904); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.36u 0.19s 00:00:00.55 Elapsed: 00:00:00.34
# Mc/sec: 852.85
//
Query:       PHY93_09890|PHY93_09890  [L=753]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
      1e-83  281.8   0.3    3.5e-71  240.4   0.1    2.4  2  PEPcase    Phosphoenolpyruvate carboxylase
     0.0032   16.0   0.0     0.0052   15.3   0.0    1.3  1  PEPcase_2  Phosphoenolpyruvate carboxylase
  ------ inclusion threshold ------
       0.01   15.8   0.1      0.075   13.1   0.0    2.3  2  DUF2487    Protein of unknown function (DUF2487)


Domain annotation for each model (and alignments):
>> PEPcase  Phosphoenolpyruvate carboxylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.0   0.0   4.7e-14   2.8e-10       4     166 ..     111     253 ..     108     279 .. 0.82
   2 !  240.4   0.1   5.9e-75   3.5e-71     363     760 ..     354     735 ..     313     742 .. 0.88

  Alignments for each domain:
  == domain 1  score: 39.0 bits;  conditional E-value: 4.7e-14
                              EEEEE---TT--SSS--HHHHHHHHHHHHHHT-SS--HHHHHHHHHHHHHHHHHHHH---B-SS---HHHHHHHHHHHHHHTHHHH CS
                  PEPcase   4 ielVlTAHPteivRrtilkkqrriaelleqldeaelteeereeleeqleeeiallwrtdelrqekptvldEvenglsyfeevlfea 89 
                              + +V+T HPte++    l  +++i++l+ +  +      e +e+e+++   ++l+ + d   ++kp+v dE+e+   +f++vl + 
  PHY93_09890|PHY93_09890 111 MVFVFTSHPTEARSTQFLFIMDKIEALILKALQ-----VEIKEVESEMFYLLTLALKIDLANNKKPDVRDEAEQ---IFHTVLSKN 188
                              679**********************99987655.....57788999*************************996...555677665 PP

                              HHHHHHHHHHHHHHHTS.----T---EEEEE-TTTB-TT-TT--HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---. CS
                  PEPcase  90 vPellreleealkesfpelelpaasflrfgsWiGgDRDGNpnVtaevtrevlllqrelalekylkeveeLieeLsls 166
                              +      l+e+lk +           + f +W GgD+DG p V +e++ + l+l+r+++l+ +l  ++e  ee+ + 
  PHY93_09890|PHY93_09890 189 I------LDEQLKLKAN------GINVYFKTWAGGDKDGHPLVGPETMIQSLTLSRNKLLDYILIYINEYEEEMKIL 253
                              5......5555544433......346799*********************************999999998888773 PP

  == domain 2  score: 240.4 bits;  conditional E-value: 5.9e-75
                              TTSEEEEEEET--SHHHHHHHHHHHHHTT-..-....S---EEEEE-SHHHHHHHHHHHHHHHHSHHHHHHTTT....EEEEEE-H CS
                  PEPcase 363 keiietyviSmaeeasdvLevllLakeaglldkaegaaelrvvPLfEtvedLknapevleellslplyrelvkk.sgelqevMlGY 447
                              +  ++++viSm+ + +d+L+ + L+ ++       g+ ++ +vPLfE+   L+++  +l+e +++  ++++ kk ++ l evMlGY
  PHY93_09890|PHY93_09890 354 RGYVNSFVISMCMSSNDMLAAAQLTNKIL------GNLDIPIVPLFENEVGLTSSLGILTEAFEKFPFEKIHKKkWNGLFEVMLGY 433
                              46799***************998876443......34579***********************987777766553789******** PP

                              HHHHHHH-HHHHHHHHHHHHHHHHHHHHHHT-EEEEEE-SSTGGGS-HHHHHHHHHTS-TTTTTT-EEEEE-GGGHHHHHSSHHHH CS
                  PEPcase 448 SDSnKdaGfltsnWelykaqealvkvaeeagvklrlFHGrGGsvgRGGgpayeailaqPpgtvngrikiTeQGEviaskyslpela 533
                              SDS+K++G+l     + k+ ++l + + ++g++  +FHG GGs+ RGGg+ +e +   P++++n   k T QGE+++ ++++p + 
  PHY93_09890|PHY93_09890 434 SDSTKESGVLPGRLMVEKTAHELEAHVLKRGLTPVFFHGSGGSINRGGGSVKEQLSWLPKSSLN-LYKATIQGEMVQRQFQQPLIM 518
                              **************************************************************98.57******************* PP

                              HHHHHHHHHHHHHHHHS------.HHHHHHHHHHHHHHHHHHHHHHTT-SSHHHHHHHHS-HHHHHHSS-SSS---------GGSS CS
                  PEPcase 534 lrnLelvtaavleaslleeaeekkeeweeimeelsevsreaYrklvyeepdfveyFreaTPieeiskLnigSRPakRkkkkglesL 619
                              +++++ ++a   + +ll+ ++++      ++++ s++ +++Y++lv  ++ f +  +eaTP e +  L+igSRP kR+   +l +L
  PHY93_09890|PHY93_09890 519 RSQINKIIAEFNNFKLLKFKHSS------ALSTFSKSIQSKYKSLV-MDDAFQKLVQEATPYEFLNLLKIGSRPIKRTGAGKL-TL 596
                              ******99988888877766655......999**************.6789***************************98888.6* PP

                              -HHHHHHHHHHTT--GGGTTTHHHHHHHH..HTTTTHHHHHHHHHH-HHHHHHHHHHHHHHHH--HHHHHHHHHHHS.-GG.GHHH CS
                  PEPcase 620 RAIPWvFsWtqsRlllpaWyGvgtalkevlekeeeklelLremykkwpffrtliskvemvlaKadleiakeYvqllv.dkelrerl 704
                              RAIPW   Wtq+Rlllp W+Gvg++ +e+   ++++ + L + y++ p+++t+i+++  +laK +l + k   ++++ +++++ + 
  PHY93_09890|PHY93_09890 597 RAIPWTLCWTQTRLLLPIWWGVGSSWSEL---SKQEKKDLIQDYEQSPLLQTYIKNLGFTLAKIELGVWKFHLEHTKlSPKEKIDW 679
                              ****************************8...334445666679999*********************997765544244546669 PP

                              HHHHHHHHHHHHHHHHHHHT-SSTTTT-HHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                  PEPcase 705 feeireelertvelvleitgqkelldknpvlqrsvelRnayidPlnllQvelLkrl 760
                               ++i++el +t+++  ++tg+ + l  +p+l++s+  R+++i+Pln++Q   L+r+
  PHY93_09890|PHY93_09890 680 NDKIEKELIETQHFFKALTGNLDYLWFRPWLEQSIYFRSSMIHPLNVIQKIALERK 735
                              9************************************************9888875 PP

>> PEPcase_2  Phosphoenolpyruvate carboxylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   8.7e-07    0.0052     169     280 ..     385     506 ..     354     567 .. 0.68

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 8.7e-07
                              TSSEEEEEE-SHHHHHTHHHHHHHHH.........HHT--SEEEEEEESHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHT-EEEEE CS
                PEPcase_2 169 esievIPLiEdkesllnideiveeyv.........kekklkelRvflarSDpAlnyGlisavllvkvAlselykleeelgvkiyPi 245
                                i ++PL+E++  l ++  i++e +         k+k    + v+l+ SD+  ++G++++ l+v    +el +   + g++ +  
  PHY93_09890|PHY93_09890 385 LDIPIVPLFENEVGLTSSLGILTEAFekfpfekihKKKWNGLFEVMLGYSDSTKESGVLPGRLMVEKTAHELEAHVLKRGLTPVFF 470
                              4699********************99888886553333455689***********************9999988887877777667 PP

                              EE-BSSGGGT---TTGHHHHH.HHTTT-SEEEE-HH CS
                PEPcase_2 246 lGvGslpfRGhlspenveevl.eeYagvkTfTvQSa 280
                               G G +  RG+ s ++  ++l +   +++ +T+Q  
  PHY93_09890|PHY93_09890 471 HGSGGSINRGGGSVKEQLSWLpKSSLNLYKATIQGE 506
                              787777777766555444444144456666666655 PP

>> DUF2487  Protein of unknown function (DUF2487)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.1      0.28   1.7e+03     101     139 ..     147     185 ..     133     187 .. 0.80
   2 ?   13.1   0.0   1.3e-05     0.075      71     134 ..     452     515 ..     446     522 .. 0.92

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.28
                  DUF2487 101 eelegkliwvpaiplesldesqkqkiveeqvkqvlellt 139
                              +e+e +++++ +++l+    ++k+  v+++++q+ +++ 
  PHY93_09890|PHY93_09890 147 KEVESEMFYLLTLALKIDLANNKKPDVRDEAEQIFHTVL 185
                              356678999999999999999999999999**9998765 PP

  == domain 2  score: 13.1 bits;  conditional E-value: 1.3e-05
                  DUF2487  71 rlkeweeelkeegfkhvvfitsdeewkeleeelegkliwvpaiplesldesqkqkiveeqvkqv 134
                              + +e+e+++ ++g+  v+f  s  + ++   +++++l w+p+ +l+  + + + ++v+ q +q 
  PHY93_09890|PHY93_09890 452 TAHELEAHVLKRGLTPVFFHGSGGSINRGGGSVKEQLSWLPKSSLNLYKATIQGEMVQRQFQQP 515
                              568999******************************************************9994 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (753 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       632  (0.0352502); expected 358.6 (0.02)
Passed bias filter:                      413  (0.0230353); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.70u 0.27s 00:00:00.97 Elapsed: 00:00:00.46
# Mc/sec: 4947.39
//
Query:       PHY93_09895|PHY93_09895  [L=386]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.2e-59  200.5   0.0    5.2e-59  199.8   0.0    1.3  1  PGA_cap   Bacterial capsule synthesis protein PGA_cap


Domain annotation for each model (and alignments):
>> PGA_cap  Bacterial capsule synthesis protein PGA_cap
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  199.8   0.0   2.9e-63   5.2e-59       2     256 ..      48     306 ..      47     307 .. 0.89

  Alignments for each domain:
  == domain 1  score: 199.8 bits;  conditional E-value: 2.9e-63
                  PGA_cap   2 lafvGDvmlgralkqalkekeydfdpifaevkpllraaDlaivNlEtpv................teegeplsgk.plfrappevl 70 
                              ++fvGD+++++al+qa+  ++ +f++i++++ +l+++aD++++NlE+p+                  ++e +sg  + f+ +p++l
  PHY93_09895|PHY93_09895  48 ISFVGDILIHKALYQAVISETKHFNQIWKKTDSLIQKADFSVANLEGPAalgidkngkdrgdigfVYDDEVYSGTnYIFNYHPRIL 133
                              89***************9999*********************************9998887777655556777767********** PP

                  PGA_cap  71 aalkeagfdvvslAnNHalDygeeGlletlealdeagikhaGagrseaearkp.ailevkgirvallaytegtnstaeakagepns 155
                               +lk+ gfd+++ AnNH++D+   G+++t+ a +  g++++G+ +s++ + ++ +i+ +k++rva++++te +n  +++++++  +
  PHY93_09895|PHY93_09895 134 SDLKDSGFDLITSANNHSTDRLGLGIDRTILAARTIGLPTVGTRKSDEPNGEYfKIVPIKNMRVAFVGCTEYIN-IPDNDNQVLFC 218
                              *********************************************999988777****************7773.33333334344 PP

                  PGA_cap 156 eeakeeeagaskerpgvaskdleklladirear..keadlvivslHwgeeyqekpadeqrelaralidaGadvviGhhpHvlqgie 239
                                                  ++ek+ + i+e+     +d ++v  Hwg ey++ p+d+qre+ar++++aGa +v+G+hpHvlq++e
  PHY93_09895|PHY93_09895 219 --------------------ENEKIFKIIKEVSarPDVDALVVLPHWGVEYSHLPRDYQREYARRYLEAGAIAVMGSHPHVLQPWE 284
                              ....................235566666655543359************************************************ PP

                  PGA_cap 240 iy.....kgklifYSlGNfifd 256
                               y     +++li+YSlGNf++ 
  PHY93_09895|PHY93_09895 285 KYttkngRETLILYSLGNFVAA 306
                              **9*999999*********986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (386 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       434  (0.0242066); expected 358.6 (0.02)
Passed bias filter:                      412  (0.0229795); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.27s 00:00:00.84 Elapsed: 00:00:00.47
# Mc/sec: 2478.40
//
Query:       PHY93_09900|PHY93_09900  [L=175]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.2e-13   49.2   0.0    6.6e-13   48.5   0.0    1.3  1  Hydrolase_like  HAD-hyrolase-like
      9e-10   38.5   0.0    1.1e-09   38.2   0.0    1.1  1  PNK3P           Polynucleotide kinase 3 phosphatase
    1.6e-07   31.6   0.0    9.3e-07   29.1   0.0    1.9  1  HAD_2           Haloacid dehalogenase-like hydrolase
    8.2e-07   29.5   0.0    1.4e-06   28.8   0.0    1.4  1  Hydrolase       haloacid dehalogenase-like hydrolase
    0.00092   19.7   0.0     0.0012   19.3   0.0    1.2  1  HAD             haloacid dehalogenase-like hydrolase
  ------ inclusion threshold ------
      0.017   15.2   0.0      0.026   14.7   0.0    1.4  1  Hydrolase_6     Haloacid dehalogenase-like hydrolase


Domain annotation for each model (and alignments):
>> Hydrolase_like  HAD-hyrolase-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.5   0.0   2.2e-16   6.6e-13       2      68 ..     102     162 ..     101     169 .. 0.87

  Alignments for each domain:
  == domain 1  score: 48.5 bits;  conditional E-value: 2.2e-16
                              .STTSSHHHHHHHHHH---GGGEEEEES-TTTHHHHHHHCT-EEEEESSSSS-TTTHHHHHHHHT-- CS
           Hydrolase_like   2 lgKPepemydfalevlgsdpeevlmiGDrlatDiagAnnaGwksvLVltGvtrpedleepehkptyv 68 
                              ++KP+p+m+ +a+ + +++ +e++miGDr + Dia++  aG++++LV  G t+ +  +     pty 
  PHY93_09900|PHY93_09900 102 CRKPAPGMLLEAALDWEINLKESFMIGDR-YGDIAAGVSAGCRTILVGPGDTQGSY-P----DPTYK 162
                              89***************************.*******************9988755.3....35554 PP

>> PNK3P  Polynucleotide kinase 3 phosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.2   0.0   3.7e-13   1.1e-09      11     130 ..      18     133 ..       6     153 .. 0.86

  Alignments for each domain:
  == domain 1  score: 38.2 bits;  conditional E-value: 3.7e-13
                    PNK3P  11 liktksgkefakdaddwkllsesvlekLkklkeegykivifsNqggvvek.ktkkslekfkekieallkeldvpllvyaatkkdky 95 
                              l++t+ +  ++   +d++l+   v e  +klk+ ++  ++++Nq +v++   ++ s+e + +ki++ll   d+++ +   +++   
  PHY93_09900|PHY93_09900  18 LVMTNGKGRAPYTLEDFDLFP-GVEEACRKLKDSNFLTIVVTNQPDVARGwVERASVELINNKIRELLPIDDIKICFHTNIDNCLC 102
                              555666556666788999885.7*************************99778999************999*************** PP

                    PNK3P  96 RKPetGmweelkkdleekleidkeksfyvGDaagr 130
                              RKP++Gm+ e + d     ei+ ++sf +GD  g 
  PHY93_09900|PHY93_09900 103 RKPAPGMLLEAALDW----EINLKESFMIGDRYGD 133
                              *******98766554....6799********8775 PP

>> HAD_2  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.1   0.0   3.1e-10   9.3e-07      77     178 .]      33     147 ..      15     147 .. 0.78

  Alignments for each domain:
  == domain 1  score: 29.1 bits;  conditional E-value: 3.1e-10
                    HAD_2  77 evkpydgvkelLeeLkeagyklgivTsksr......eaveekleqlgiesyFd....vivtsedvekk...KPdpeviekaleklk 149
                               + +++gv+e+  +Lk+ ++   +vT++ +      e +  +l +++i +++     +i+  +++ +    KP+p ++++a    +
  PHY93_09900|PHY93_09900  33 DFDLFPGVEEACRKLKDSNFLTIVVTNQPDvargwvERASVELINNKIRELLPiddiKICFHTNIDNClcrKPAPGMLLEAALDWE 118
                              56799***************999999985422222234445566667777653223335555555553666*************** PP

                    HAD_2 150 lkkeeviyvGDsptDieaakkagikviav 178
                              ++ +e +++GD   Di a+  ag+++i v
  PHY93_09900|PHY93_09900 119 INLKESFMIGDRYGDIAAGVSAGCRTILV 147
                              **************************986 PP

>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.8   0.0   4.6e-10   1.4e-06     104     210 .]      22     141 ..       4     141 .. 0.77

  Alignments for each domain:
  == domain 1  score: 28.8 bits;  conditional E-value: 4.6e-10
                              TTHHHHHHHHHHTHHBHTTHHHHHHHHHHTTEEEEEEESSEH...........HHHH.HHHHHTT....GGGESEEEEHHCES..S CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...........xxxx.xxxxxxx....xxxxxxxxxxxxxx..x RF
                Hydrolase 104 qaralavftiadplkvkpeaaeavasLkaagievvlltgdnp...........etae.raanqlG....ddyfdaviasdiet..v 171
                              +++ +a +t++d   ++p+++ea+++Lk+ ++ ++++t++             e  + +    +      d +++ + + i+   +
  PHY93_09900|PHY93_09900  22 NGKGRAPYTLEDF-DLFPGVEEACRKLKDSNFLTIVVTNQPDvargwverasvELINnK----IRellpIDDIKICFHTNIDNclC 102
                              5666777888888.89****************999999877777777755444333322....2244455555555555555578* PP

                              TTTSHHHHHHHHHHHTSTGGGEEEEESSHHHHHHHHHTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 172 akpspegkvaaireLqgkpeevamVGDgvnDaaalaaAg 210
                               kp p ++++a+    ++ +e  m+GD+  D+aa+  Ag
  PHY93_09900|PHY93_09900 103 RKPAPGMLLEAALDWEINLKESFMIGDRYGDIAAGVSAG 141
                              ***********************************9997 PP

>> HAD  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.3   0.0   3.9e-07    0.0012      85     186 ..      36     136 ..       4     137 .. 0.77

  Alignments for each domain:
  == domain 1  score: 19.3 bits;  conditional E-value: 3.9e-07
                      HAD  85 lldpgalellaahraaGdrvvvvSgglrplvepllaelgadevlat....elevdd...rltgelglegkpvrgegkvaalrewla 163
                              l+ pg+ e++++ ++ ++ ++vv++ ++  ++ + ++    e++++     l  dd   ++     +++ ++r+   +  l e  a
  PHY93_09900|PHY93_09900  36 LF-PGVEEACRKLKDSNFLTIVVTNQPDV-ARGWVERAS-VELINNkireLLPIDDikiCFHT--NIDNCLCRK-PAPGMLLE--A 113
                              67.***********************985.555554554.46666633313333449544444..599999999.77788888..8 PP

                      HAD 164 aegegidleevvayGDspsDlpl 186
                              a  ++i l+e++ +GD ++D+++
  PHY93_09900|PHY93_09900 114 ALDWEINLKESFMIGDRYGDIAA 136
                              999*****************986 PP

>> Hydrolase_6  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.0   8.6e-06     0.026       2      42 ..       8      63 ..       7      98 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 8.6e-06
                             EEESTTTSE...............ETTEE-TTHHHHHHHHHHTT-EEEEEE---SS CS
              Hydrolase_6  2 lfDidGvLw...............rgdkaipgaaealnalraagkpvvllTNnssk 42
                             ++D dGv+                ++ +++pg++ea + l++++  ++++TN+   
  PHY93_09900|PHY93_09900  8 FLDRDGVINklvmtngkgrapytlEDFDLFPGVEEACRKLKDSNFLTIVVTNQPDV 63
                             7899999998888888888888877999************************9765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (175 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       285  (0.015896); expected 358.6 (0.02)
Passed bias filter:                      271  (0.0151152); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.48u 0.24s 00:00:00.72 Elapsed: 00:00:00.43
# Mc/sec: 1224.13
//
Query:       PHY93_09905|PHY93_09905  [L=406]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.9e-22   80.1   0.0    5.2e-18   65.6   0.0    2.2  2  FGE-sulfatase  Sulfatase-modifying factor enzyme 1
    3.4e-07   30.8   1.1    1.1e-06   29.1   1.1    1.9  1  DinB_2         DinB superfamily


Domain annotation for each model (and alignments):
>> FGE-sulfatase  Sulfatase-modifying factor enzyme 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.6   0.0   5.8e-22   5.2e-18      11     128 ..     183     311 ..     179     333 .. 0.85
   2 !   13.0   0.2   6.3e-06     0.057     175     258 ..     321     403 ..     310     405 .. 0.73

  Alignments for each domain:
  == domain 1  score: 65.6 bits;  conditional E-value: 5.8e-22
                              EEEEES-..TSTTGGCCC-S-EEEEES-EEEESS--BHHHHHHHHHHH....H................SSETTEEEEETSCTTBC CS
            FGE-sulfatase  11 GsfemGs..eektandeeapahevtvraFaidkteVTnaqyaafveatgyete................aasqwwaeveganvrhp 78 
                              G +e+G+   ++   d+e p h+  v +F i+   VTn++y +f+++ gye                  +a+  w+ ++++  r  
  PHY93_09905|PHY93_09905 183 GIYEIGEniSDRFYFDNESPCHKFYVYPFGISDRLVTNGEYINFIKDGGYERPllwlskghdwvkknkiKAPLYWKGNQESG-RSE 267
                              6667777777778889***********************************88**********9999876777777665554.444 PP

                              CTTC-SSTT-TTSB--S--HHHHHHHHHHHCHHHTS-EE---HHHHHHHH CS
            FGE-sulfatase  79 egrksdikkradhPvvhVsweDavaYArwlgkktgegyrLPteaEweyAA 128
                                 + ++k + ++Pv h+s+++a aYArw g       rLPte+E+e+ +
  PHY93_09905|PHY93_09905 268 FTLYGEMKLNLNLPVSHISYFEADAYARWSGM------RLPTEQEFEISS 311
                              55688999************************......*********876 PP

  == domain 2  score: 13.0 bits;  conditional E-value: 6.3e-06
                              T-S-B-TTS-B-TTCSSEEEEEEE--.THCCH-SSCS---...-SS-SSEEEEC--TTS.TTGGCTSTT-E.EEE-TT--BTTEEE CS
            FGE-sulfatase 175 gsfppnalGlyDmaGNvwEWtsdwyk.kyalapaeelsqe...aekgelrvvkGgswlkaelssllraafrasaetpdtaasdvGf 256
                              ++f p + G y+     w Wt++ y+    ++p+e + +e   ++ +++ v++Gg+ ++   +  +r + r ++++p  +  + G+
  PHY93_09905|PHY93_09905 321 KAFHPKNTGTYNS--QLWCWTQSHYSpYPGFKPYEGKISEyngKFMCNQFVLRGGCVATP--QGHYRKTYR-NFYEPHQRWMFSGI 401
                              5666666666664..5899*******533455666555441115679999********96..89*******.99999999888887 PP

                              -- CS
            FGE-sulfatase 257 Rl 258
                               l
  PHY93_09905|PHY93_09905 402 CL 403
                              65 PP

>> DinB_2  DinB superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.1   1.1   1.3e-10   1.1e-06       5     126 ..      15     143 ..      11     145 .. 0.82

  Alignments for each domain:
  == domain 1  score: 29.1 bits;  conditional E-value: 1.3e-10
                   DinB_2   5 ararllalledlteeelnrqpspgkwsiawllaHlgnvee.lllerlr.....................geeaprpgldpltppsa 68 
                              +r+ + a  e l  e++  qp p  +++ w+laH++++ e ++l++++                     ge++  +++  l  p++
  PHY93_09905|PHY93_09905  15 MRNHSKAICESLEREDFVVQPLPEISPPKWHLAHTTWFLEeIILNKFLinykfynqgfrklfnsyynslGEHWIQSQRGNLSRPTV 100
                              6888899999***************************87779******99999988777666666666665555777888888*** PP

                   DinB_2  69 aealaylaevrarllallealtdadldrpltaphpglgkltlgdvllfvlqHeqhHle 126
                              +e+ ay+++  +++++ll++        +  +         l+  l+++++He++H e
  PHY93_09905|PHY93_09905 101 DEIMAYRESIENQTMHLLAKNR------H--NG-------ELYKSLELAINHEEQHQE 143
                              *******************922......2..22.......357788888888888887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (406 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       496  (0.0276647); expected 358.6 (0.02)
Passed bias filter:                      398  (0.0221987); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.38
# Mc/sec: 3180.13
//
Query:       PHY93_09910|PHY93_09910  [L=325]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-87  293.9   0.3    1.4e-87  293.7   0.3    1.0  1  Methyltransf_33  Histidine-specific methyltransferase, SAM-de
    3.1e-05   24.6   0.0    0.00014   22.5   0.0    2.0  2  Methyltransf_25  Methyltransferase domain
  ------ inclusion threshold ------
      0.041   14.6   0.0      0.086   13.6   0.0    1.7  1  Methyltransf_12  Methyltransferase domain
       0.06   13.1   0.1        0.1   12.3   0.1    1.5  1  DNA_pol_A_exo1   3'-5' exonuclease


Domain annotation for each model (and alignments):
>> Methyltransf_33  Histidine-specific methyltransferase, SAM-dependent
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  293.7   0.3   3.2e-91   1.4e-87       1     306 [.      21     324 ..      21     325 .] 0.97

  Alignments for each domain:
  == domain 1  score: 293.7 bits;  conditional E-value: 3.2e-91
          Methyltransf_33   1 laedvlagLsskpktlpskllYDarGselFeeitelpeYyptrtEiaiLqehaaeiaaaipaa..tlvelGsGsseKtrlLLeale 84 
                              +a+d+  gLss+pk+l+sk++YD+rGs++F+eit+l+eYy+tr+E +iL++ ++ + ++++++  ++velG G++ Kt+++++++ 
  PHY93_09910|PHY93_09910  21 FAKDINIGLSSTPKKLSSKYFYDTRGSQIFQEITKLDEYYLTRAELEILERIKNILPDLVGKNevDIVELGVGDGHKTKIIINSFL 106
                              5789999********************************************99999998855557********************9 PP

          Methyltransf_33  85 aaekeltYvplDvseeaLeealealaaeypsleveglvgdyedglewlaslpeaederrlvlflGssigNlepeeaaafLrklraa 170
                               ++ +++++p+D+s+ea++   + ++++ ++l+++++vg+y +g+++++++++   +r++vlflGs+igN+++++ +++L+k+++ 
  PHY93_09910|PHY93_09910 107 DKKIKVNFFPIDISAEAMHLLEDHISES-KNLNIHAVVGEYIEGMNFAREHSK---NRQIVLFLGSNIGNFNKTDGENILKKIKSI 188
                              8999*********************887.9****************9999985...9***************************** PP

          Methyltransf_33 171 lgpgdllLlGvDlvkdeekleaAYndsagvtaaFnlnllerinrelgadfdledfehvaewnaeegriemylrskrdqtvrveald 256
                              l+++d lL+G+Dl+kd e +++AY+d++g+ta+Fnln+lerin+el ++f+ e+feh a +n+e g +e+yl s +dq v++ +l+
  PHY93_09910|PHY93_09910 189 LKKDDFLLIGFDLKKDIEFMTRAYSDHEGITAKFNLNILERINTELRGNFEVENFEHLALYNPELGAMESYLISLKDQIVTISELK 274
                              *99*********************************************************************************** PP

          Methyltransf_33 257 ltvafkagekirteiSyKyteeevrelleaaglevlkvWtdeksdfalyl 306
                              ++++f+a e i++e+S K+ e+++++l  + g+++   ++d +++f   l
  PHY93_09910|PHY93_09910 275 KKFKFDAYEPIHLEYSFKFLEKDIQDLSIQGGFKCIGNFKDGNKYFIDSL 324
                              ********************************************998776 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.5   0.0   3.1e-08   0.00014       1      95 [.      87     191 ..      87     192 .. 0.86
   2 ?   -1.5   0.0      0.94   4.2e+03      46      61 ..     289     304 ..     268     313 .. 0.73

  Alignments for each domain:
  == domain 1  score: 22.5 bits;  conditional E-value: 3.1e-08
                              EEEET-TTSHHHHHHHCTS...T.SSEEEEEESSHHHHHHHHHHHHH.TTTTEEEEESBC.CGBSS...STTTEEEEEEEST.GGG CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrl...g.kakvtgvDiseemleaareraee.eglnvefvqgda.edlpf...edgsfDlvvssga.lhh 76 
                              +++lG G G+ t+ + + +   + k ++  +Dis+e++   + +++e ++ln++ v+g+  e ++f   +++   +v+  g+ +  
  PHY93_09910|PHY93_09910  87 IVELGVGDGHKTKIIINSFldkKiKVNFFPIDISAEAMHLLEDHISEsKNLNIHAVVGEYiEGMNFareHSKNRQIVLFLGSnIGN 172
                              799*********999999987437899999***************995566****9999876677643355577888888889999 PP

                              SSHHHHHHHHHHHHHHEEE CS
          Methyltransf_25  77 lsdedlekalkeiarvLkp 95 
                              +++ d e++lk+i+++Lk+
  PHY93_09910|PHY93_09910 173 FNKTDGENILKKIKSILKK 191
                              *****************97 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.94
                              TTEEEEESBCCGBSSS CS
          Methyltransf_25  46 lnvefvqgdaedlpfe 61 
                              ++++f+++d++dl+ +
  PHY93_09910|PHY93_09910 289 YSFKFLEKDIQDLSIQ 304
                              3789999999999865 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   1.9e-05     0.086       1      55 [.      88     146 ..      88     192 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 1.9e-05
          Methyltransf_12   1 LeiGcGtGsllrallekl....pdieytgvDispsaiedakeklakrennnnnnvelea 55 
                              +e+G G+G+ ++ + +++    + +++  +Dis++a++  + ++++ +n+n + v  e 
  PHY93_09910|PHY93_09910  88 VELGVGDGHKTKIIINSFldkkIKVNFFPIDISAEAMHLLEDHISESKNLNIHAVVGEY 146
                              59******************99***************999******9999999887665 PP

>> DNA_pol_A_exo1  3'-5' exonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.1   2.3e-05       0.1      60      96 ..     178     214 ..     122     280 .. 0.72

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 2.3e-05
                              TTTT-HGHHHHHHHT-TTSEEEESSHHHHHHHHHHH..H CS
           DNA_pol_A_exo1  60 lgddvalealkrlledenitkvghnakfDlevlard..f 96 
                               ++  +l+++k +l+++ +  +g+++k D+e++ r    
  PHY93_09910|PHY93_09910 178 GEN--ILKKIKSILKKDDFLLIGFDLKKDIEFMTRAysD 214
                              333..799*************************998541 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (325 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       701  (0.0390987); expected 358.6 (0.02)
Passed bias filter:                      438  (0.0244297); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.41
# Mc/sec: 2350.89
//
Query:       PHY93_09915|PHY93_09915  [L=236]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.012   15.4  22.7      0.014   15.2  21.7    1.5  1  UPF0259       Uncharacterised protein family (UPF0259)
      0.092   13.1   6.8       0.76   10.2   2.8    2.4  2  DUF2663       Protein of unknown function (DUF2663)


Domain annotation for each model (and alignments):
>> UPF0259  Uncharacterised protein family (UPF0259)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.2  21.7   1.5e-06     0.014     108     240 ..      76     205 ..      45     215 .. 0.69

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 1.5e-06
                  UPF0259 108 iqlvsekkrvsilnaiglsllllPklliLiflttlliqlGllllliPGiivaillslsPiillkekksildsikasvnitfknikl 193
                              i+ v+ +k++   n  + sl ++ k  +L +       +G++ll+iP i+ + ++ l+Pi+ + e+++ l s+k s ++  k i l
  PHY93_09915|PHY93_09915  76 ITKVALDKNIPKTNLFNSSLRFI-KGQVLYYS---AAAIGFVLLVIPAILAMFFFCLTPILEILEDHKRLGSLKRSYYLVKKDIAL 157
                              44455555554444444444442.33333333...3579************************9999******************9 PP

                  UPF0259 194 iaPavllWllvklllllliskfslls.kkiaflllnllsnlisailii 240
                              +    ++ l + ++l l+ s++       i+++++  ++ +is i+ +
  PHY93_09915|PHY93_09915 158 VLIFSMIILFLYIVLELIFSRLRSTGfGMIIYFISASITTFISIIVTL 205
                              998888888889999999999985541455666666566666665544 PP

>> DUF2663  Protein of unknown function (DUF2663)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   0.1    0.0057        51       3      54 ..      13      69 ..      11      89 .. 0.45
   2 ?   10.2   2.8   8.5e-05      0.76       9      75 ..     145     215 ..     139     218 .. 0.71

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.0057
                  DUF2663  3 qelikrKkkweklekrllllsllallvlll..fliyvlik...ssslssllsalles 54
                             ++l + Kk++++++k  l l ++ +l+ l    l y  ++   +ss+  +l+++l+ 
  PHY93_09915|PHY93_09915 13 ESLDETKKRFDHYKKIYLGLLIVNILIRLPssHLGYASSNilyHSSVGLILQVFLSV 69
                             555566777777777666666555544332001222211133333333333333332 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 8.5e-05
                  DUF2663   9 Kkkweklekrllllsllallvlllfliyvlik....ssslssllsallessvlllllllvallyv.avkllk 75 
                              K+ +  ++k + l+ ++++++l+l++++ li     s++   ++  ++++s+++++ ++v+l+yv  +++lk
  PHY93_09915|PHY93_09915 145 KRSYYLVKKDIALVLIFSMIILFLYIVLELIFsrlrSTG-FGMIIYFISASITTFISIIVTLSYVrLINYLK 215
                              777888899999999999999999999887777884444.55566666666666666666666651556665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (236 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1083  (0.0604049); expected 358.6 (0.02)
Passed bias filter:                      308  (0.0171789); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.39
# Mc/sec: 1816.76
//
Query:       PHY93_09920|PHY93_09920  [L=629]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     3e-205  682.8  26.0   3.5e-205  682.6  26.0    1.0  1  K_trans   K+ potassium transporter


Domain annotation for each model (and alignments):
>> K_trans  K+ potassium transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  682.6  26.0    2e-209  3.5e-205       2     534 .]      21     553 ..      20     553 .. 0.99

  Alignments for each domain:
  == domain 1  score: 682.6 bits;  conditional E-value: 2e-209
                  K_trans   2 lqalgvvygdigtSPLYvlksif.eakatepseedilGvlSlifwtLilivtvkYviivlradnkgeGGilaLlaliaslkkskkk 86 
                              l+algvvygdigtSPLY+lk+ f +a++  +s+++i+G+lSlifw+Li+++++kY+  vl+adn geGGilaL+al++  + + + 
  PHY93_09920|PHY93_09920  21 LSALGVVYGDIGTSPLYALKESFhHAHNILVSASNIYGILSLIFWSLIIVISIKYLKYVLHADNLGEGGILALTALVTPPSDKLTP 106
                              89*********************88889999***********************************************99999999 PP

                  K_trans  87 akwlllilaliGaalllgDgvltPaisvlsAveGlevaspsleklvvpislvilvlLFliQkfGtekigklfgpimliWflllavl 172
                              ++  l++++l+G+all+gDg++tPaisvlsAveGle+++p ++ +++pi+++ilv+LF+iQk+Gt  +gk+fgp++++Wfl+++ +
  PHY93_09920|PHY93_09920 107 TREKLILCGLFGTALLYGDGMITPAISVLSAVEGLELITPVFTPYIIPITIAILVVLFSIQKYGTGVVGKVFGPVTFFWFLVIGSI 192
                              99999********************************************************************************* PP

                  K_trans 173 GilnivkkpsvlkAlnPlyaiefllrnklagflvLgavlLavTGaEaLyaDlGhfgkkpirlawlllvlpaLllnYlGQgalllkn 258
                              G+++ivk p+vl A+nP+ya++f+++n+++gflvLg+v+L+vTG+EaLy+DlGhfg+ pi+ aw+l++lp+LllnY+GQga+l+ n
  PHY93_09920|PHY93_09920 193 GLHSIVKIPTVLLAINPYYAFHFFIENSWNGFLVLGSVFLVVTGGEALYSDLGHFGRLPIQRAWFLIALPCLLLNYFGQGAYLIGN 278
                              ************************************************************************************** PP

                  K_trans 259 peavsnpfyelipealllpllvlatlatiiASQalIsgvFslvsqaiklgllPrlkvvhtsekeegqiYiplvNwllliavilvvl 344
                              pea++npf+ ++p+++l pl++lat+at+iASQalIsgvFs++ +a++lg++Pr+ v+hts+ke gqi++ ++N++l++a+i +vl
  PHY93_09920|PHY93_09920 279 PEAIKNPFFLMAPSWMLTPLVILATIATVIASQALISGVFSITMHAVNLGYIPRVLVKHTSNKEYGQIFVKSMNTFLMFACIGLVL 364
                              ************************************************************************************** PP

                  K_trans 345 vFksssnlaaAYGlavtltmlittlllllvlvlvwklklilvllvlllfllidllflsanlkKipeGgwvplllavvlllimltWk 430
                              +F+sssnlaaAYG+avt+tm itt+l+++v++  w+++l+ + +++ +f++idl+f++anl+K++ Ggwvpl++a++++++m+tWk
  PHY93_09920|PHY93_09920 365 FFRSSSNLAAAYGIAVTMTMSITTILFFIVVRERWNWSLYKAGALCGFFMIIDLAFFGANLTKVIAGGWVPLIVALIIFITMTTWK 450
                              ************************************************************************************** PP

                  K_trans 431 ygrkkllekeaeeevpleellkllekkkvkrvpgtavflssaketvpavllhilkklkvlhervvllsvktlevpkvpkeerveve 516
                              +grk l  +++e+ +pl+++l++le+++++r +gta++++s  +++p +l++ ++++k++he++++l v+t+e+p+v+k++rv++ 
  PHY93_09920|PHY93_09920 451 RGRKLLEIRNREKVIPLTNFLEILEQRSPHRSAGTAIYFASGLTNTPYALINSFEHFKTVHEHLIFLRVTTEEIPHVEKKDRVRII 536
                              ************************************************************************************** PP

                  K_trans 517 klkseglvrvvvryGfme 534
                              +++  g++ ++++yGfm+
  PHY93_09920|PHY93_09920 537 DIG-YGCFTINIYYGFMD 553
                              ***.************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (629 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       897  (0.0500307); expected 358.6 (0.02)
Passed bias filter:                      349  (0.0194657); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.69u 0.24s 00:00:00.93 Elapsed: 00:00:00.44
# Mc/sec: 4284.88
//
Query:       PHY93_09925|PHY93_09925  [L=176]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.8e-15   55.3   0.0    9.3e-15   54.8   0.0    1.2  1  NUDIX     NUDIX domain


Domain annotation for each model (and alignments):
>> NUDIX  NUDIX domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.8   0.0   5.2e-19   9.3e-15       4     128 ..      13     160 ..      10     163 .. 0.76

  Alignments for each domain:
  == domain 1  score: 54.8 bits;  conditional E-value: 5.2e-19
                              EEEEEEEEETTSEEEEEEES..SSSTTT.EESSEEECBT...........TSHHHHHHHHHHHHHHSEEE.EEEEEEEEEEEEEEE CS
                    NUDIX   4 ravgvvllnekgevLlvrrs..kkpfpg.WelPgGkvep...........gEtpeeAArREleEEtGlea.ellellgrlhylapy 74 
                              ++v ++++n+ +evL++rrs     +p+ +++PgG+++             Etp+eAA+REl+EEt+++  +++el+ +  y+   
  PHY93_09925|PHY93_09925  13 PTVDLIIFNPFDEVLMIRRSrySEACPSmFAFPGGFIDSnalagemwergLETPKEAALRELAEETNFILeQEVELIPVGVYVGDN 98 
                              7899****************66555555678******************556***************8777*******88888888 PP

                              EEEEEE....EEEEEEEEE.....EEECSGCSSTSTTTEEEEEEEEHHHHHHHHTHCTHHHHH CS
                    NUDIX  75 dgpygd....eheilyvfl.....eevegelepndenevsevrwvpleellkeklaaesrkll 128
                              ++p ++      ++ ++f       e++ ++  +  ++ + ++w+ + el+k +la +++++l
  PHY93_09925|PHY93_09925  99 RDPRDNqlswSQSYAFTFKinreiFEAQKNNIKG-LDDADMAQWIGILELQKMELAFDHKRIL 160
                              8888887766555556666765542222222222.2334456799999998888888888776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (176 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       327  (0.0182386); expected 358.6 (0.02)
Passed bias filter:                      300  (0.0167327); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.22s 00:00:00.61 Elapsed: 00:00:00.37
# Mc/sec: 1417.35
//
Query:       PHY93_09930|PHY93_09930  [L=105]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.3e-17   63.7   0.0    2.6e-17   63.5   0.0    1.0  1  ADP_ribosyl_GH  ADP-ribosylglycohydrolase
  ------ inclusion threshold ------
       0.13   12.0   0.0       0.16   11.8   0.0    1.1  1  SurE            Survival protein SurE


Domain annotation for each model (and alignments):
>> ADP_ribosyl_GH  ADP-ribosylglycohydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.5   0.0   2.9e-21   2.6e-17     222     288 ..      16      81 ..       5      84 .. 0.93

  Alignments for each domain:
  == domain 1  score: 63.5 bits;  conditional E-value: 2.9e-21
                              ....HHHHH--SSBHHHHHHHHHHHHHH.-SSHHHHHHHHHTS-SSHHHHHHHHHHHHHHHH-GGGS CS
           ADP_ribosyl_GH 222 daeeavdelgsggyavealaaalyallhaaddfeeallaavnlGgDtdttgaiaGallGalyGleai 288
                              ++e++ ++++  g a  +l+aal+++++ +d+f++++l avnlG D+dttga++G+l+Ga+yG+e+i
  PHY93_09930|PHY93_09930  16 YKEKNRSDISAKGPATTCLEAALWSFYK-TDNFNDGVLLAVNLGEDSDTTGAVYGQLAGAFYGVESI 81 
                              5678888999999***************.************************************99 PP

>> SurE  Survival protein SurE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   1.8e-05      0.16      59     124 ..      19      81 ..       4      91 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 1.8e-05
                              TTTCEEEESS-HHHHHHHHHHTTTTTS..SSEEEEEEEES---GGGGGG-HHHHHHHHHHHTTSEEE CS
                     SurE  59 eeeeeyavsGtPadcvklaleellkek.kpdlVvSGiNhGaNlgtdvlySGTvgAaleaalegipai 124
                              +++  ++ +G  ++c + al +++k +  +d V+  +N G+       + G v + l++a+ g+++i
  PHY93_09930|PHY93_09930  19 KNRSDISAKGPATTCLEAALWSFYKTDnFNDGVLLAVNLGED----SDTTGAVYGQLAGAFYGVESI 81 
                              566777889***********9999765333777777666665....555678888888888888776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (105 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       201  (0.0112109); expected 358.6 (0.02)
Passed bias filter:                      191  (0.0106531); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.37u 0.19s 00:00:00.56 Elapsed: 00:00:00.35
# Mc/sec: 896.18
//
Query:       PHY93_09935|PHY93_09935  [L=57]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
     0.0009   19.1   0.0    0.00096   19.0   0.0    1.0  1  ADP_ribosyl_GH  ADP-ribosylglycohydrolase


Domain annotation for each model (and alignments):
>> ADP_ribosyl_GH  ADP-ribosylglycohydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.0   0.0   5.4e-08   0.00096      70     110 ..       1      43 [.       1      51 [. 0.91

  Alignments for each domain:
  == domain 1  score: 19.0 bits;  conditional E-value: 5.4e-08
                              E-HHHHHHHHHH.HHT.......T--SS--HHHHHHHHHTTTT- CS
           ADP_ribosyl_GH  70 ldpedlarrflaeWlee.p..gdteprgignttrealrnlksge 110
                              +d+ed+++rf + W++e +   ++++++igntt+++l ++++++
  PHY93_09935|PHY93_09935   1 FDAEDIIKRFHR-WFREgYmsCTGHCFDIGNTTKASLLRYEQND 43 
                              799******888.9999889*99*****************9976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (57 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       354  (0.0197445); expected 358.6 (0.02)
Passed bias filter:                      294  (0.016398); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.38u 0.24s 00:00:00.62 Elapsed: 00:00:00.40
# Mc/sec: 423.99
//
Query:       PHY93_09940|PHY93_09940  [L=109]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.6e-25   89.3   0.0      4e-25   89.1   0.0    1.0  1  ADP_ribosyl_GH  ADP-ribosylglycohydrolase


Domain annotation for each model (and alignments):
>> ADP_ribosyl_GH  ADP-ribosylglycohydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   89.1   0.0   2.2e-29     4e-25       1     106 [.       8     108 ..       8     109 .] 0.89

  Alignments for each domain:
  == domain 1  score: 89.1 bits;  conditional E-value: 2.2e-29
                              HHHHHHHHHHHHHGGGTT--HHHHHHHTSS--S-----STTTTTS-TT---HHHHHHHHHHHTEET.TEE-HHHHHHHHHH.HHT. CS
           ADP_ribosyl_GH   1 GallGaavGDAlGlpvefwsydeirrrygelgetpdktgfghfglkpgewtddtqmalllleslleaggldpedlarrflaeWlee 86 
                              G++lG+avGDAlG+p ef  +d     y+      +++++g+f+lk g+wtddt++al+++ sl+e++ +d+ed+++rf + W++e
  PHY93_09940|PHY93_09940   8 GSFLGLAVGDALGAPIEFEVRD----SYKVVT---EMREGGPFDLKTGQWTDDTSLALCIAMSLIEKKSFDAEDIIKRFHR-WFRE 85 
                              899**************97666....444333...667789*************************************888.9999 PP

                              ......T--SS--HHHHHHHHHT CS
           ADP_ribosyl_GH  87 .p..gdteprgignttrealrnl 106
                               +   ++++++igntt+++l ++
  PHY93_09940|PHY93_09940  86 gYmsCTGHCFDIGNTTKASLLRY 108
                              889*99************99876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (109 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       358  (0.0199677); expected 358.6 (0.02)
Passed bias filter:                      343  (0.019131); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.36u 0.21s 00:00:00.56 Elapsed: 00:00:00.35
# Mc/sec: 922.59
//
Query:       PHY93_09945|PHY93_09945  [L=1129]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.5e-31  109.0  35.9    4.1e-31  108.2  35.9    1.3  1  MASE1        MASE1
      5e-30  104.8   0.0    7.8e-30  104.2   0.0    1.3  1  CHASE        CHASE domain
    2.3e-21   75.9   0.0    4.6e-20   71.7   0.0    2.4  2  PAS_3        PAS fold
    1.9e-15   57.3   0.0    4.3e-15   56.2   0.0    1.7  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    5.4e-15   55.5   0.2    4.7e-12   46.1   0.1    2.5  2  PAS_9        PAS domain
    8.2e-14   51.6   0.0    5.6e-08   32.8   0.0    2.6  2  PAS          PAS fold
    2.1e-10   40.4   0.0    3.6e-07   30.0   0.0    2.6  2  PAS_8        PAS domain
    3.6e-09   36.5   0.7    7.1e-09   35.6   0.0    2.0  2  HisKA        His Kinase A (phospho-acceptor) domain
    5.5e-08   32.6   0.0    8.1e-07   28.9   0.0    2.5  2  HATPase_c_5  GHKL domain
     0.0021   17.9   0.0     0.0046   16.8   0.0    1.5  1  HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like


Domain annotation for each model (and alignments):
>> MASE1  MASE1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  108.2  35.9   2.3e-34   4.1e-31       2     293 ..      14     283 ..      13     287 .. 0.91

  Alignments for each domain:
  == domain 1  score: 108.2 bits;  conditional E-value: 2.3e-34
                    MASE1   2 lllllllyallialglslalalvssggvplWlPsGlalaalllfgrrgwpgillaavlasislfllfagnlllalaiaavntleal 87 
                              l+++ ++y+l ++lgl   la     ++p+W+++Gla+++l++ g+r+wp+i+l+a+ a+    +l  g l+ al+i+++ntl+al
  PHY93_09945|PHY93_09945  14 LIFFSVVYFLTARLGL--LLATINYSVSPVWPATGLAFGILFIYGYRYWPAIALGAFSAN----ILNPGALASALSITVGNTLQAL 93 
                              78999***********..999999999*********************************....9999****************** PP

                    MASE1  88 lgalllrrllpsrnrletlkdwllfvvaaaiiaalllaiiglalllllgliplaslssswltwwlgsatGvlvvaplllllrrylr 173
                              +g ++l ++  ++ ++++    +l +v a +++++l+a++g ++l+l+g++  + +  +w tw  g+++G+++++pl+l+++ +  
  PHY93_09945|PHY93_09945  94 IGTWILHYFFQRNEKFGSH-TRTLGIVVASFVGSCLSATVGTTALSLAGIVNWDLYRLVWFTWCTGDFLGGITILPLILAFFSNQY 178
                              *******************.556666667899****************************************************** PP

                    MASE1 174 qrhrlsafveqdlaplaakllllfalllllllvllllllllpfednsplayLllppvlwaAfrfgvrgaslallllavllilftaq 259
                                +++ +           k+++++al l +++  l  ++++++e + +++  l+p +lw +   g +g +++++l++++ i++++ 
  PHY93_09945|PHY93_09945 179 DVTKKIN----------VKFTSAMALILSGIF--LCWIVFIRLEGAVFIF-FLFPYLLWCVGVSGEQGVAISTVLISLFGIIAVQL 251
                              ***7766..........556666666666666..5456666666666666.89********************************* PP

                    MASE1 260 gqgpfvqdsgaessaaillqlflavlalvaLlvs 293
                              g g f + s+++ +  i lqlfl+   +++L++s
  PHY93_09945|PHY93_09945 252 GHGVFIHGSANINL--INLQLFLGSMGISSLIMS 283
                              **************..****************98 PP

>> CHASE  CHASE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  104.2   0.0   4.3e-33   7.8e-30       2     177 ..     358     543 ..     357     552 .. 0.85

  Alignments for each domain:
  == domain 1  score: 104.2 bits;  conditional E-value: 4.3e-33
                    CHASE   2 svdreeFrryaeslllerp.pgiqglgwaprvpaaeraafeaevrae..gfpdftirp.........agerdeyfpivyiePlagn 75 
                              +v+r e+++y +  +  ++ pg++glg+a rv +++ +a+++  +a+   f ++   p          ++ +e f+++yieP ++n
  PHY93_09945|PHY93_09945 358 QVTRLEWHKYFDYGDSINQlPGVEGLGVAFRVLKKNFPAYIKSNKADksIFFNYHLVPnlspedqqkTKDSSEAFIVTYIEPYEKN 443
                              79*****************************************54442266677666677766665333579*************9 PP

                    CHASE  76 naalGlDllseperrealerardtgrpvlsgpvrLvqededgqagfllylPvyrkeg.petveerraallGfvyavfriddllekl 160
                                 +GlDl+se++rr a+e ardtg+ ++s+ + L   d +++ +f++++P+y k+  p+t +err++llG+vy ++  +d++++l
  PHY93_09945|PHY93_09945 444 ITQMGLDLYSESKRRMAAEIARDTGKSTISSNIVLTD-DPKNRSAFIIFHPIYVKGAdPKTINERRSRLLGWVYTPVFSKDFFDSL 528
                              99*********************************98.99***************777********99****************66 PP

                    CHASE 161 llqlgaaeagldlaiyD 177
                              +  l +  ++l+++++ 
  PHY93_09945|PHY93_09945 529 FA-L-NYFKELSVSVSE 543
                              64.3.333455555555 PP

>> PAS_3  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   71.7   0.0   2.6e-23   4.6e-20       2      89 .]     664     752 ..     663     752 .. 0.97
   2 ?    1.5   0.0       0.2   3.6e+02       4      80 ..     795     875 ..     792     880 .. 0.59

  Alignments for each domain:
  == domain 1  score: 71.7 bits;  conditional E-value: 2.6e-23
                    PAS_3   2 iyvserveeilGyspeellgkveswldlvhpeDrervrealqealkkgepyegeyRirrkdGeyrwveararvi.rdengkpvrvi 86 
                              ++ s+r++eilGy ++el ++ +++ ++vhpeD++ +++ l+++ ++ + y g++R+r+kdG+y w+ +r+ v+ rd+   p+r++
  PHY93_09945|PHY93_09945 664 VHTSRRFKEILGYADNELSNDRDELTKFVHPEDLPVLEAGLKNISNDSSNYIGDFRVRCKDGTYKWILDRGMVVgRDQYDMPLRMV 749
                              6789*****************************************9999************************************* PP

                    PAS_3  87 gva 89 
                              g++
  PHY93_09945|PHY93_09945 750 GTI 752
                              *96 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.2
                    PAS_3   4 vserveeilGyspe.ellgk.veswldlvhpeDrervrealqealkkge..py.egeyRirrkdGeyrwveararvirdeng 80 
                              ++ +  +++G+ +  el++  + ++   +  +  + + ++++  ++kg+   + ++e+ ++rkdG+ + ve   +++ ++ +
  PHY93_09945|PHY93_09945 795 CNTQALKLFGLKSKeELMAInPAELFATMQADGSNLFTKTIE-NINKGHdiGInQFEWPCKRKDGKEFPVEVLFTAFTYDGN 875
                              555666666665542444434555555555555555555554.4455552444567888999*********99999944433 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.2   0.0   2.4e-18   4.3e-15       4     109 ..    1026    1129 .]    1023    1129 .] 0.81

  Alignments for each domain:
  == domain 1  score: 56.2 bits;  conditional E-value: 2.4e-18
                               HHHHHHHHHHHHHHHHHHSTTT.....EEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHH CS
                HATPase_c    4 krLrqiisnlvdNavkfatkag.....eieveikaseddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivk 82  
                                +L q++ nl+ Na ++  ++      +i+ve+    +  ++ ++D+G Gi +e+++k++ +f +   tk+   gtGlGlsi+k
  PHY93_09945|PHY93_09945 1026 AQLLQVLVNLLNNAFDA-VEELpikwvDIQVEVV--ANSCKLMITDSGEGIHPEIVEKIMSPFFT---TKSVARGTGLGLSISK 1103
                               6799************9.3233122223344444..57899************************...888889********** PP

                               HHHHHTTTEEEEEEETTTEEEEEEEEE CS
                HATPase_c   83 klvelmgGeiwvesepgrGttftftlp 109 
                                ++e ++G+++++++  + t+f+++lp
  PHY93_09945|PHY93_09945 1104 GIIEEHHGKLYYDTT-SKNTRFVIELP 1129
                               *9999*******444.589***99886 PP

>> PAS_9  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.2   0.0    0.0034         6       9     103 ..     660     756 ..     651     757 .. 0.79
   2 !   46.1   0.1   2.6e-15   4.7e-12       2     104 .]     781     887 ..     780     887 .. 0.91

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.0034
                    PAS_9   9 pdgrilyaNeaalrllGyspeevlgks..itdlfvtdpeanerlraaleqgrk..kerevevvlirkngetfwvlltaspv.kdd. 88 
                              p++  ++ ++ ++++lGy  +e+ + +  +t ++  +pe+   l+a l+++++  + + ++   + k+g++ w+l +   v +d+ 
  PHY93_09945|PHY93_09945 660 PNN-TVHTSRRFKEILGYADNELSNDRdeLTKFV--HPEDLPVLEAGLKNISNdsSNYIGDFRVRCKDGTYKWILDRGMVVgRDQy 742
                              555.88999*************999888899999..77777777777777777777*****************7766666678885 PP

                    PAS_9  89 dgelvgiivilrDit 103
                              d  l+ +++++ Di+
  PHY93_09945|PHY93_09945 743 DMPLR-MVGTISDIS 756
                              55555.799999998 PP

  == domain 2  score: 46.1 bits;  conditional E-value: 2.6e-15
                    PAS_9   2 dgilidnpdgrilyaNeaalrllG.yspeevlgksitdlf.vtdpeanerlraaleqgrk....kerevevvlirkngetfwvllt 81 
                              d+il+ n +g+i ++N++al+l+G  s+ee++  +  +lf    +++ + + + +e++ k       ++e  + rk+g++f+v++ 
  PHY93_09945|PHY93_09945 781 DSILLLNRNGNIFDCNTQALKLFGlKSKEELMAINPAELFaTMQADGSNLFTKTIENINKghdiGINQFEWPCKRKDGKEFPVEVL 866
                              7999999*****************767**************77788888888888888888***99******************** PP

                    PAS_9  82 aspvkdddgelvgiivilrDite 104
                              ++++  d++++    + lrDi+e
  PHY93_09945|PHY93_09945 867 FTAFTYDGNKVLQ--ARLRDISE 887
                              ****999999999..99***997 PP

>> PAS  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0   4.2e-06    0.0075       3      97 ..     643     738 ..     641     755 .. 0.84
   2 !   32.8   0.0   3.1e-11   5.6e-08       2     113 .]     771     885 ..     770     885 .. 0.91

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 4.2e-06
                              HHHHHHHSSSEEEEEETTSBEEEECHHHHHHHSSTHHHCTT.SBGGGGBSTTHHHHHHHHHHHHHHHTT-ECCCCEEEECTTSSEE CS
                      PAS   3 lraileslpdpifvvDedgrilyvNaaaeellGlsreevlg.kslldliheeddaelaelleqlleqgeesrageisfklrdgrpi 87 
                              l+  le + d+++ +D   + +++++ + e+lG++ +e+++ +  l  +++++d  + e+ ++++++ +++ +g+ +++ +dg+++
  PHY93_09945|PHY93_09945 643 LKFALEGSGDGVWDLDIPNNTVHTSRRFKEILGYADNELSNdRDELTKFVHPEDLPVLEAGLKNISNDSSNYIGDFRVRCKDGTYK 728
                              67789*******************************99997566666666677778999999999999999999999999****** PP

                              EEEEEEEEEE CS
                      PAS  88 hlevraspvr 97 
                              +++ r   v+
  PHY93_09945|PHY93_09945 729 WILDRGMVVG 738
                              **98877665 PP

  == domain 2  score: 32.8 bits;  conditional E-value: 3.1e-11
                              HHHHHHHHSSSEEEEEETTSBEEEECHHHHHHHSSTH.HHCTTSBGGGGBSTTHHHHHHHHHHHHHHHTT-ECCCCEEEEC..... CS
                      PAS   2 dlraileslpdpifvvDedgrilyvNaaaeellGlsr.eevlgkslldliheeddaelaelleqlleqgeesrageisfkl..... 81 
                              +l++i+e + d i++++++g+i+ +N+ a +l+Gl+  ee++  +  +l+ +  +a+   l+++ +e+ +++++  i+        
  PHY93_09945|PHY93_09945 771 KLQSIFEGTSDSILLLNRNGNIFDCNTQALKLFGLKSkEELMAINPAELFATM-QADGSNLFTKTIENINKGHDIGINQFEwpckr 855
                              6899*********************************9*********999764.579********************9998999** PP

                              TTSSEEEEEEEEEEEEETTEEEEEEEEEEEES CS
                      PAS  82 rdgrpihlevraspvrdaggeilgflgvlrdi 113
                              +dg+++++ev  + ++  g +   +  +lrdi
  PHY93_09945|PHY93_09945 856 KDGKEFPVEVLFTAFTYDGNK--VLQARLRDI 885
                              *************99999887..666666665 PP

>> PAS_8  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.5   0.0    0.0024       4.3       3      45 ..     643     686 ..     641     707 .. 0.73
   2 !   30.0   0.0     2e-10   3.6e-07       1      52 [.     770     819 ..     770     834 .. 0.84

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0024
                    PAS_8   3 lralfesspdgiavvd.lgdrivdvNqaalellGys.adlkgell 45 
                              l+ ++e s dg++ +d  ++  v+  +++ e+lGy  ++l+ +  
  PHY93_09945|PHY93_09945 643 LKFALEGSGDGVWDLDiPNN-TVHTSRRFKEILGYAdNELSNDRD 686
                              566799*******8896555.*************99765555433 PP

  == domain 2  score: 30.0 bits;  conditional E-value: 2e-10
                    PAS_8   1 erlralfesspdgiavvd.lgdrivdvNqaalellGysadlkgellgqllpvl 52 
                              ++l+++fe  +d+i++++ +g+ i d+N +al+l+G++  +k+el+ + + +l
  PHY93_09945|PHY93_09945 770 AKLQSIFEGTSDSILLLNrNGN-IFDCNTQALKLFGLK--SKEELMAINPAEL 819
                              589***************7777.***************..**99997555555 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.6   0.0     4e-12   7.1e-09       1      64 [.     910     976 ..     910     979 .. 0.91
   2 ?   -3.1   0.1       4.8   8.5e+03      54      64 ..     990    1000 ..     989    1001 .. 0.89

  Alignments for each domain:
  == domain 1  score: 35.6 bits;  conditional E-value: 4e-12
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHC.....T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCH CS
                    HisKA   1 slgrflagvaHELrtPLsailgnaeaLkre...gklteelkeyletiesearrldhlvedlLdlsri 64 
                              slg+++ g+aHE+++PL+ i g +  Lkr+   ++   +l e l +ie+ a+r+ ++++ l  +sr 
  PHY93_09945|PHY93_09945 910 SLGEMAGGIAHEINNPLAIIVGKITQLKRRlkvDADVIKLNEDLSVIENTAKRIGSIIKGLSAFSRN 976
                              799**************************9999555577999******************9999985 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 4.8
                               HHHHHHHHCCH CS
                    HisKA   54 lvedlLdlsri 64  
                               l++d L+lsr+
  PHY93_09945|PHY93_09945  990 LIQDTLELSRE 1000
                               89*******96 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.0       0.3   5.3e+02      69      95 ..     702     728 ..     665     731 .. 0.90
   2 !   28.9   0.0   4.5e-10   8.1e-07       5      95 ..    1027    1125 ..    1024    1129 .] 0.82

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.3
              HATPase_c_5  69 iGlksireivkkykgnlsieaedglFt 95 
                               Glk+i++  ++y g+++++ +dg+++
  PHY93_09945|PHY93_09945 702 AGLKNISNDSSNYIGDFRVRCKDGTYK 728
                              59**********************997 PP

  == domain 2  score: 28.9 bits;  conditional E-value: 4.5e-10
              HATPase_c_5    5 dlcvilgnlLdNAieacskieeekrfIrltvrekkksliisieNsyeg......ek..kklesskskkeehGiGlksireivkk 80  
                                l  +l nlL+NA +a+++++   + ++++v+   +s  ++i+ s eg      ek    ++++ks  +  G+Gl+  + i+++
  PHY93_09945|PHY93_09945 1027 QLLQVLVNLLNNAFDAVEELP--IKWVDIQVEVVANSCKLMITDSGEGihpeivEKimSPFFTTKSVARGTGLGLSISKGIIEE 1108
                               57899****************..8999****99999999999999998766554223455669********************* PP

              HATPase_c_5   81 ykgnls..ieaedglFt 95  
                               ++g+l   ++ ++++F 
  PHY93_09945|PHY93_09945 1109 HHGKLYydTTSKNTRFV 1125
                               ***98823555666665 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   2.5e-06    0.0046       5      62 ..    1030    1090 ..    1026    1105 .. 0.82

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 2.5e-06
              HATPase_c_3    5 kAlaelvdNsldAdaen....vkievnknrgktgeivieDdGkGmseeelknalrlatsske 62  
                               ++l+ l++N++dA  e     v+i+v+    ++ ++ i+D G+G+ +e +++ +++  ++k+
  PHY93_09945|PHY93_09945 1030 QVLVNLLNNAFDAVEELpikwVDIQVEVVA-NSCKLMITDSGEGIHPEIVEKIMSPFFTTKS 1090
                               689**********99989999666666543.468******************9998877776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1129 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       668  (0.0372581); expected 358.6 (0.02)
Passed bias filter:                      378  (0.0210832); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.82u 0.26s 00:00:01.08 Elapsed: 00:00:00.46
# Mc/sec: 7454.58
//
Query:       PHY93_09950|PHY93_09950  [L=163]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-18   67.1   0.0    1.6e-18   66.8   0.0    1.0  1  Redoxin   Redoxin
    1.7e-10   40.9   0.0    2.1e-10   40.6   0.0    1.1  1  AhpC-TSA  AhpC/TSA family


Domain annotation for each model (and alignments):
>> Redoxin  Redoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.8   0.0   1.8e-22   1.6e-18       3     144 ..      21     157 ..      16     160 .. 0.93

  Alignments for each domain:
  == domain 1  score: 66.8 bits;  conditional E-value: 1.8e-22
                              TSBB---ECCEETTCEEEEEHHHHTTSEEEEEEESTTT-HHHHHTHHHHHTHHHHHHCSTTTEEEEEESSSHH.HHHHHHHTT-TS CS
                  Redoxin   3 gdkaPdftlplaatdgnsvslsefkgkkvvvnfvpgafcPtCsaehpyleklaellkekgvdvvavvadndaf.vkefwgkeglkf 87 
                              gd a dft   ++ d ++v+l +fkg+k ++n++p+++++ C a++   +k+++++ + g++vv+  + + +f +k+f+++eg+++
  PHY93_09950|PHY93_09950  21 GDVASDFTM--VKPDLSEVNLYSFKGHK-ILNIFPSIDTGACAASV---RKFNKEATNLGNTVVINLSMDLPFaQKRFCSAEGINN 100
                              566778886..77***************.***************99...**************9999999999************* PP

                              EEEE-.TTSHHHHHTT-TTEEE.GGGEEE-EEEEEEETTEEEEEEESSSCHTSTTSHH CS
                  Redoxin  88 pvlsD.gsaaftkalGlrleedaseglrtpryavidedgkvvylevepepeteesnae 144
                              +v+ +   ++f+k++ +++     +gl++++ +v++e++ +++ e++ e  + e+n+e
  PHY93_09950|PHY93_09950 101 VVMGSlFRSDFFKSYPVDIIDGPLKGLCSRAIIVLNEKNEITHNEQVYEIAN-EPNYE 157
                              **999669*****************************************986.88887 PP

>> AhpC-TSA  AhpC/TSA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.6   0.0   2.3e-14   2.1e-10       1     123 [.      20     143 ..      20     144 .. 0.95

  Alignments for each domain:
  == domain 1  score: 40.6 bits;  conditional E-value: 2.3e-14
                              TTSB----EEESTTCEEEECHHHTTSEEEEEEESTST-CCHHHHHHHHHHCHHHCCCTTEEEEEEESSSCHHHHHHHHH-H.SSEE CS
                 AhpC-TSA   1 vgdkapdfelknadgetvslsdykgkpvvlffypkdwcpvCttelpalaklyeefkergvevigvsvdspeshkkfiekeslnfpl 86 
                              +gd a df++ + d  +v+l  +kg   +l+++p+ ++  C + +++++k++ ++   +  vi +s+d p+++k+f+ +e++n  +
  PHY93_09950|PHY93_09950  20 IGDVASDFTMVKPDLSEVNLYSFKG-HKILNIFPSIDTGACAASVRKFNKEATNLG--NTVVINLSMDLPFAQKRFCSAEGINNVV 102
                              89***********************.99****************************..99*********************98888 PP

                              EE-.TTSHHHHHTT-EETT...TTECSCEEEEE-TTSBEEE CS
                 AhpC-TSA  87 lsD.eegkvakaygvlkee...kglalratfvidkegkiry 123
                              +     ++++k+y v   +   kgl+ ra +v++++  i++
  PHY93_09950|PHY93_09950 103 MGSlFRSDFFKSYPVDIIDgplKGLCSRAIIVLNEKNEITH 143
                              8876899*******9999999***************99986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (163 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       372  (0.0207485); expected 358.6 (0.02)
Passed bias filter:                      347  (0.0193541); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.40u 0.24s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 1233.86
//
Query:       PHY93_09955|PHY93_09955  [L=160]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
     0.0088   16.1   0.9     0.0088   16.1   0.9    1.7  2  VGCC_beta4Aa_N  Voltage gated calcium channel subunit beta do


Domain annotation for each model (and alignments):
>> VGCC_beta4Aa_N  Voltage gated calcium channel subunit beta domain 4Aa N terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0      0.34   6.2e+03       8      14 ..      22      27 ..      21      38 .. 0.52
   2 !   16.1   0.9   4.9e-07    0.0088       2      16 ..      93     107 ..      93     110 .. 0.93

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 0.34
           VGCC_beta4Aa_N  8 SrpsSdl 14
                             S++s dl
  PHY93_09955|PHY93_09955 22 SQQS-DL 27
                             7776.65 PP

  == domain 2  score: 16.1 bits;  conditional E-value: 4.9e-07
           VGCC_beta4Aa_N   2 SadSntSrpsSdlsl 16 
                              Sa+S++S+  Sdlsl
  PHY93_09955|PHY93_09955  93 SAESYCSQIQSDLSL 107
                              9*************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (160 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       522  (0.0291148); expected 358.6 (0.02)
Passed bias filter:                      406  (0.0226449); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.38
# Mc/sec: 1266.39
//
Query:       PHY93_19215|PHY93_19215  [L=524]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      1e-41  143.1   0.1    1.3e-41  142.8   0.1    1.1  1  Pyr_redox_2     Pyridine nucleotide-disulphide oxidoreductase
    2.2e-23   83.0   9.9    2.2e-23   83.0   9.9    2.8  3  SNARE_assoc     SNARE associated Golgi protein
    9.2e-19   67.8   0.9    6.6e-16   58.7   0.0    2.6  2  Pyr_redox       Pyridine nucleotide-disulphide oxidoreductase
    1.1e-11   44.5   0.1    2.6e-08   33.5   0.0    2.1  2  Pyr_redox_3     Pyridine nucleotide-disulphide oxidoreductase
    9.3e-08   31.5   0.4    7.7e-05   21.9   0.9    2.3  2  GIDA            Glucose inhibited division protein A
    1.2e-07   31.9   0.2     0.0011   19.1   0.2    2.4  2  NAD_binding_8   NAD(P)-binding Rossmann-like domain
    1.1e-05   25.2   0.0       0.22   11.1   0.0    3.1  3  DAO             FAD dependent oxidoreductase
    1.7e-05   23.7   0.8     0.0024   16.7   0.7    2.9  3  HI0933_like     HI0933-like protein
     0.0002   20.6   0.0    0.00036   19.8   0.0    1.3  1  K_oxygenase     L-lysine 6-monooxygenase (NADPH-requiring)
    0.00037   20.4   0.0     0.0099   15.8   0.0    2.2  2  3HCDH_N         3-hydroxyacyl-CoA dehydrogenase, NAD binding 
    0.00054   19.4   0.0      0.012   15.0   0.0    2.2  2  2-Hacid_dh_C    D-isomer specific 2-hydroxyacid dehydrogenase
    0.00079   18.8   0.0       0.97    8.7   0.0    2.3  2  AlaDh_PNT_C     Alanine dehydrogenase/PNT, C-terminal domain
    0.00098   18.3   0.3      0.066   12.2   0.0    2.1  2  Lycopene_cycl   Lycopene cyclase protein
     0.0014   17.9   0.1      0.073   12.3   0.0    2.1  2  FAD_binding_3   FAD binding domain
     0.0022   17.6   0.1       0.83    9.2   0.0    2.2  2  UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family,
     0.0024   17.5   0.0     0.0057   16.3   0.0    1.7  1  ApbA            Ketopantoate reductase PanE/ApbA
     0.0064   16.9   0.1        1.8    9.0   0.0    2.3  2  NAD_binding_7   Putative NAD(P)-binding
  ------ inclusion threshold ------
      0.013   14.6   1.1      0.013   14.6   1.1    1.5  2  FAD_binding_2   FAD binding domain
      0.019   14.3   0.1       0.57    9.5   0.2    2.4  3  FAD_oxidored    FAD dependent oxidoreductase
      0.028   13.8   0.0      0.049   13.0   0.0    1.3  1  ThiF            ThiF family
      0.051   12.8   0.0       0.42    9.8   0.0    2.1  2  Thi4            Thi4 family
       0.13   12.5   0.0       0.53   10.6   0.0    2.1  2  TrkA_N          TrkA-N domain


Domain annotation for each model (and alignments):
>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  142.8   0.1   1.6e-44   1.3e-41       2     252 ..     245     522 ..     244     524 .] 0.88

  Alignments for each domain:
  == domain 1  score: 142.8 bits;  conditional E-value: 1.6e-44
                              SEEEE--SHHHHHHHHHHHHHTS-EEEEE...TTHCHHHCSHHHHCHHHHHHHHHHHHH........................HHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxx........................xxx RF
              Pyr_redox_2   2 dvvviGgGpAGlaaaltlaqagakvtlve...legtclnggcllskallgvaedaeias........................evv 60 
                              +++viGgG+AGl ++   a+ +akv+lve    +g cln gc++skal ++++  + a+                        +v+
  PHY93_19215|PHY93_19215 245 NMMVIGGGAAGLVTSYISAAVKAKVALVEkekMGGDCLNYGCVPSKALIKSSKIIHSAKkarlfglkniqidfdfaevmarvkRVI 330
                              789*************************9999************************999**********99999998887777333 PP

                              HCHHHH.CCCCHCCTCEEEEESCEEEEETEEECTCEEEEEESEEEE---EEE-BCTCTTC.TTBEECCSECHHHHHHCCSS-TSEE CS
                              xxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2  61 kklnqg.ielllgeevvkidpgkkkvklekkkegdeekiaydklvlAtGssprdlgipGvaenvgklvrtldsaealklkllpkri 145
                                ++ +  +++ +  +v+   g++k+    +++  e+ ++ +++ +AtGs+p  ++i G  en+     +++s   + lk lpk++
  PHY93_19215|PHY93_19215 331 ATVEPHdSTNRFTGLGVECFSGEAKIISPYEVKIGERIYTTQNITIATGSKPLVPKILGI-ENA----NYVTSETIWDLKILPKKF 411
                              33333334444443577777888888888888878899**********************.777....689*************** PP

                              EEES-SHHHHHHHHHHHHHT-EEEEEESSSSSSTTS-HHHHHHHHHHHHHTTEEEEESCEEEEEEETTEEEE..EEETTSCE..EE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxx..xx RF
              Pyr_redox_2 146 vvvGgGyiGvElAaalaklgkevtlveardrllraldkelsaaleealekeGvevklgtsvkeidgngekle..vvledgee..id 227
                              +++G G+iG+E+A+ +++lg+evt++e+ d+ll+  d e+s  lee+l+ eGv++  ++sv+e+ + ++ ++  +  +++ +  ++
  PHY93_19215|PHY93_19215 412 LIIGCGPIGCEFAQCFSRLGSEVTMIERSDHLLSREDLEVSTLLEEVLTSEGVRTLSNHSVQEFLEVDR-VKylLCGTSKGVvrYE 496
                              *********************************99******************************9998.66433333333368** PP

                              ESEEEE-S-EEES-HHCS.HCCT-EE CS
                              xxxxxxxxxxxxxxxxxx.xxxxxxx RF
              Pyr_redox_2 228 adlvvvavGvrpstelle.eklglel 252
                              +dlv++a G+ ++t++++ e+lg+++
  PHY93_19215|PHY93_19215 497 YDLVLIAMGRLANTKGFGlEELGVAI 522
                              ***********************987 PP

>> SNARE_assoc  SNARE associated Golgi protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.4       9.7   7.9e+03      11      41 ..      19      55 ..      12      64 .. 0.52
   2 !   83.0   9.9   2.7e-26   2.2e-23       2     119 ..      74     190 ..      73     191 .. 0.95
   3 ?   -0.4   0.1       1.9   1.5e+03      33      73 ..     219     258 ..     195     270 .. 0.56

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 9.7
              SNARE_assoc 11 Gvlf......glllgtlvtslgallGaslayllgryl 41
                             Gv++      g+l  +   +l   lG + a+++g++l
  PHY93_19215|PHY93_19215 19 GVILigtyqlGFLDYLNFDFLKNNLGRVQAFYAGHPL 55
                             3333322222333344444555666777777777665 PP

  == domain 2  score: 83.0 bits;  conditional E-value: 2.7e-26
              SNARE_assoc   2 P.sevllvaaGvlfglllgtlvtslgallGaslayllgrylgrkalrrkllsekrvkalerlverygflallllrllpivPrdlvn 86 
                              P   +l+++aG+++g+l+g++++s ++++Ga+++++++r+l+++++++k+  +  +  +++ +er g+++ll lrl+pi+P+ +vn
  PHY93_19215|PHY93_19215  74 PgAAILTMFAGAVLGTLYGVILVSFASSIGATFSFWIIRFLLKDYIGQKF--QTQFSTINKNIEREGAFYLLSLRLIPIFPFFVVN 157
                              6345677*****************************************99..778889**************************** PP

              SNARE_assoc  87 yvaGltrvsfkrFflatfiGsipwalvyaylGs 119
                              +++Glt++s  ++f+++ +G++p +++y+y+G+
  PHY93_19215|PHY93_19215 158 MAMGLTSISTLTYFVVSQVGMLPGTIIYVYAGK 190
                              *******************************96 PP

  == domain 3  score: -0.4 bits;  conditional E-value: 1.9
              SNARE_assoc  33 layllgrylgrkalrrkllsekrvkalerlverygflalll 73 
                              +a +l++ l +++l++k+ ++k+++ ++ +v   g+  l++
  PHY93_19215|PHY93_19215 219 MAKFLMNALRNYRLYKKFNKPKKFD-FNMMVIGGGAAGLVT 258
                              4445555566666777777777776.444444444444444 PP

>> Pyr_redox  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.6   0.7     0.015        12       2      31 ..     246     275 ..     245     280 .. 0.92
   2 !   58.7   0.0   8.1e-19   6.6e-16       2      70 ..     411     479 ..     410     485 .. 0.94

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.015
                              EEEECSSHHHHHHHHHHHHTTSEEEEEESS CS
                Pyr_redox   2 vvvvGgGyiglElAgalaelgkkVtvvers 31 
                              ++v+GgG  gl    + a+ ++kV +ve +
  PHY93_19215|PHY93_19215 246 MMVIGGGAAGLVTSYISAAVKAKVALVEKE 275
                              78*************************986 PP

  == domain 2  score: 58.7 bits;  conditional E-value: 8.1e-19
                              EEEECSSHHHHHHHHHHHHTTSEEEEEESSSSSSTTSSHHHHHHHHHHHHHTTEEEECSEEEEEEEEET CS
                Pyr_redox   2 vvvvGgGyiglElAgalaelgkkVtvversdkllrllDeeaskilqeklekngievllntkveeiegse 70 
                               +++G G ig+E+A+ +++lg++Vt++ersd+ll+ +D e+s++l+e l+ +g++ l n++v+e+ + +
  PHY93_19215|PHY93_19215 411 FLIIGCGPIGCEFAQCFSRLGSEVTMIERSDHLLSREDLEVSTLLEEVLTSEGVRTLSNHSVQEFLEVD 479
                              68*************************************************************987655 PP

>> Pyr_redox_3  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.7   0.3    0.0011      0.89       2      39 ..     248     284 ..     247     310 .. 0.91
   2 !   33.5   0.0   3.2e-11   2.6e-08     114     266 ..     360     505 ..     353     515 .. 0.74

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 0.0011
              Pyr_redox_3   2 IiGaGPaGlaaaielkkagledylilEkgnignsiyry 39 
                              +iG+G+aGl + +    ++  ++  +Ek+++g    +y
  PHY93_19215|PHY93_19215 248 VIGGGAAGLVTSYISAAVKA-KVALVEKEKMGGDCLNY 284
                              9*****************99.799******99887777 PP

  == domain 2  score: 33.5 bits;  conditional E-value: 3.2e-11
              Pyr_redox_3 114 fevetsketyeAkkviiAtGefdkPnklnipGeek.lvkhyskvkefhkyagqkvvViGgknSavDaAlelvrkgaeVtvvtrgse 198
                              +ev+  ++ y+++++ iAtG   kP +++i G e+ + + + ++ ++ k+  +k+++iG +  +++ A  + r g+eVt++ r+++
  PHY93_19215|PHY93_19215 360 YEVKIGERIYTTQNITIATGS--KPLVPKILGIENaNYVTSETIWDL-KILPKKFLIIGCGPIGCEFAQCFSRLGSEVTMIERSDH 442
                              88999999************9..**********97234444445566.7889********************************99 PP

              Pyr_redox_3 199 iekeesdpsyslkpdienrleelvkeekikvlfnaevkeikeke.eeykvk.tedgkkvevkddvvlatG 266
                              + ++e   + +++   e+ l +    e ++ l+n++v+e  e + ++y +  t++g    ++d v++a+G
  PHY93_19215|PHY93_19215 443 LLSRE---DLEVSTLLEEVLTS----EGVRTLSNHSVQEFLEVDrVKYLLCgTSKGVVRYEYDLVLIAMG 505
                              98886...56677776666654....45788888888887655413444332444433333444444455 PP

>> GIDA  Glucose inhibited division protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.9   0.9   9.5e-08   7.7e-05       2      53 ..     246     299 ..     245     311 .. 0.87
   2 !    6.9   0.0    0.0035       2.9       3      33 ..     412     441 ..     410     504 .. 0.88

  Alignments for each domain:
  == domain 1  score: 21.9 bits;  conditional E-value: 9.5e-08
                              EEEE-SSHHHHHHHHHHHHTT--EEEE..ES-GGGTT--SSSSEEE-TTHHHHH CS
                     GIDA   2 viViGgGhAGceAAlaaarlGakvlLi..thkldtiaelsCnpsiggiakgllv 53 
                              ++ViGgG AG+  ++ +a   akv+L+   +  +++++ +C ps   i ++++ 
  PHY93_19215|PHY93_19215 246 MMVIGGGAAGLVTSYISAAVKAKVALVekEKMGGDCLNYGCVPSKALIKSSKII 299
                              68*************************87777899*********9999666655 PP

  == domain 2  score: 6.9 bits;  conditional E-value: 0.0035
                              EEE-SSHHHHHHHHHHHHTT--EEEEES-GG CS
                     GIDA   3 iViGgGhAGceAAlaaarlGakvlLithkld 33 
                               +iG G  Gce A   +rlG +v++i ++ d
  PHY93_19215|PHY93_19215 412 LIIGCGPIGCEFAQCFSRLGSEVTMI-ERSD 441
                              69***********************9.3333 PP

>> NAD_binding_8  NAD(P)-binding Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.2   1.4e-06    0.0011       1      38 [.     248     284 ..     248     308 .. 0.90
   2 !   10.3   0.0   0.00076      0.62       1      31 [.     413     443 ..     413     447 .. 0.97

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 1.4e-06
                              EE--SHHHHHHHHHHHCCTEEEEEE-SSSSSSGGG-EE CS
            NAD_binding_8   1 IvGaGlsGlvaAylLakagfdvlllekrdrlGGraasy 38 
                              ++G+G++Glv+ y  a  +++v l+ek  + GG++  y
  PHY93_19215|PHY93_19215 248 VIGGGAAGLVTSYISAAVKAKVALVEKE-KMGGDCLNY 284
                              8**************************6.999999876 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 0.00076
                              EE--SHHHHHHHHHHHCCTEEEEEE-SSSSS CS
            NAD_binding_8   1 IvGaGlsGlvaAylLakagfdvlllekrdrl 31 
                              I+G G  G+ +A+  ++ g +v+ +e++d+l
  PHY93_19215|PHY93_19215 413 IIGCGPIGCEFAQCFSRLGSEVTMIERSDHL 443
                              9***************************996 PP

>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.1   0.0   0.00027      0.22       3      31 ..     247     277 ..     245     319 .. 0.80
   2 !    8.3   0.0    0.0019       1.5       2      30 ..     411     441 ..     410     445 .. 0.92
   3 ?    2.0   0.0      0.15   1.2e+02     153     201 ..     455     505 ..     449     518 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00027
                              EEECTSHHHHHHHHHHHHTT..EEEEESSSS CS
                      DAO   3 viiGGGiiGlstAyeLarrg..Vtllekgdi 31 
                               +iGGG +Gl t y  a+ +  V+l+ek++ 
  PHY93_19215|PHY93_19215 247 MVIGGGAAGLVTSYISAAVKakVALVEKEKM 277
                              59************99876567******954 PP

  == domain 2  score: 8.3 bits;  conditional E-value: 0.0019
                              EEEECTSHHHHHHHHHHHHTT..EEEEESSS CS
                      DAO   2 vviiGGGiiGlstAyeLarrg..Vtllekgd 30 
                               +iiG G iG+  A   +r g  Vt +e++d
  PHY93_19215|PHY93_19215 411 FLIIGCGPIGCEFAQCFSRLGseVTMIERSD 441
                              68****************9999*******85 PP

  == domain 3  score: 2.0 bits;  conditional E-value: 0.15
                              HHH.HHHTT-EEEESECEEEEEEEETCEEEEE.EECTEEE.EEEEEEEE--G CS
                      DAO 153 ara.aealGveilegtevtgleeedgkvwgve.rttpgen.daadavVnaaG 201
                              +++ + + Gv+ l ++ v+++ e  ++v+ +   t++g +  ++d v +a+G
  PHY93_19215|PHY93_19215 455 LEEvLTSEGVRTLSNHSVQEFLEV-DRVKYLLcGTSKGVVrYEYDLVLIAMG 505
                              44547899************8442.245555587666988567888*****9 PP

>> HI0933_like  HI0933-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.7   2.9e-06    0.0024       2      35 ..     245     278 ..     244     284 .. 0.90
   2 ?    3.5   0.0     0.028        23       2      36 ..     410     444 ..     409     449 .. 0.91
   3 ?   -1.0   0.0      0.69   5.6e+02     111     165 ..     451     507 ..     446     514 .. 0.73

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 2.9e-06
                              SEEEE--SHHHHHHHHHHHHTT--EEEE-SSSSS CS
              HI0933_like   2 dviviGgGaAGlmaAisaakrgkrVlllekakkl 35 
                              +++viGgGaAGl ++   a+ +++V+l+ek+k  
  PHY93_19215|PHY93_19215 245 NMMVIGGGAAGLVTSYISAAVKAKVALVEKEKMG 278
                              679***************************9765 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.028
                              SEEEE--SHHHHHHHHHHHHTT--EEEE-SSSSS- CS
              HI0933_like   2 dviviGgGaAGlmaAisaakrgkrVlllekakklg 36 
                              + ++iG G+ G   A   ++ g++V+++e+ ++l+
  PHY93_19215|PHY93_19215 410 KFLIIGCGPIGCEFAQCFSRLGSEVTMIERSDHLL 444
                              568**************************998765 PP

  == domain 3  score: -1.0 bits;  conditional E-value: 0.69
                              HHHHHHHHHHHHT-EEE-S--EEEEECETTE.EEE.EE..TTEEEEESEEEE----S CS
              HI0933_like 111 ivdallkelkeagvklrletevksvekeedgkfrv.kt.kseeeleadklvlAtGGl 165
                              + ++l++ l+++gv+   +++v+++ + +  k+ +  t k+  ++e d +++A+G l
  PHY93_19215|PHY93_19215 451 VSTLLEEVLTSEGVRTLSNHSVQEFLEVDRVKYLLcGTsKGVVRYEYDLVLIAMGRL 507
                              556777889999***********9966555544441444455577888899999965 PP

>> K_oxygenase  L-lysine 6-monooxygenase (NADPH-requiring)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.8   0.0   4.5e-07   0.00036     144     251 ..     366     469 ..     348     482 .. 0.81

  Alignments for each domain:
  == domain 1  score: 19.8 bits;  conditional E-value: 4.5e-07
              K_oxygenase 144 eeelearnlvlgvGtepkiPevleklegkervvHsseylerkeellakkriaVvGsGqSaaeifedllrrqkkvelklvtrseal. 228
                              e+ ++++n+ +++G++p +P++l  +e +++ v s+++   k     +k+++++G+G  + e   ++ +r   +e++++ rs++l 
  PHY93_19215|PHY93_19215 366 ERIYTTQNITIATGSKPLVPKILG-IE-NANYVTSETIWDLK---ILPKKFLIIGCGPIGCEF-AQCFSRLG-SEVTMIERSDHLl 444
                              67899*****************99.56.48888888887776...7899*************5.56777765.69*******9882 PP

              K_oxygenase 229 ..eplddspfvneifsPeyvdyfys 251
                                e l+ s +  e++++e v+   +
  PHY93_19215|PHY93_19215 445 srEDLEVSTLLEEVLTSEGVRTLSN 469
                              2245666899999999988877655 PP

>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.2      0.16   1.3e+02       3      32 ..     247     276 ..     245     335 .. 0.69
   2 !   15.8   0.0   1.2e-05    0.0099       4      56 ..     413     465 ..     410     482 .. 0.84

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.16
                              EEE--SCCHHHHHHHHHHTT-EEEEE-S-H CS
                  3HCDH_N   3 aviGaGtmGagiaavfasagleVvlvdise 32 
                               viG G  G    ++ a+ + +V lv+ ++
  PHY93_19215|PHY93_19215 247 MVIGGGAAGLVTSYISAAVKAKVALVEKEK 276
                              69************************9865 PP

  == domain 2  score: 15.8 bits;  conditional E-value: 1.2e-05
                              EE--SCCHHHHHHHHHHTT-EEEEE-S-HHHHHHHHHHHHHHHHCCTTTTSS- CS
                  3HCDH_N   4 viGaGtmGagiaavfasagleVvlvdiseealekalekieksleklvekgklk 56 
                              +iG+G +G + a+ f + g eV+++++s++ l +   ++++ le++  ++ + 
  PHY93_19215|PHY93_19215 413 IIGCGPIGCEFAQCFSRLGSEVTMIERSDHLLSREDLEVSTLLEEVLTSEGVR 465
                              8*********************************9999999998887766555 PP

>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   0.0      0.16   1.3e+02      38      95 ..     245     299 ..     220     305 .. 0.82
   2 !   15.0   0.0   1.5e-05     0.012      34      77 ..     406     448 ..     390     468 .. 0.75

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.16
                              EEEEES-SHHHHHHHHHHHHTT-EEEEESSSHHHHHCHHHHTCEECSHHHHHHH-SEE CS
             2-Hacid_dh_C  38 tvGiiGlGrIGqavakrlkafgmkviaydrskkkeeeeeelgvelvsleellaesDiv 95 
                               + +iG G+ G  +  + +a+++kv  +++ k   + + ++   +v  ++l+++s i+
  PHY93_19215|PHY93_19215 245 NMMVIGGGAAGLVTSYISAAVKAKVALVEKEKMGGD-CLNY--GCVPSKALIKSSKII 299
                              6789************************99988665.5554..558999999999988 PP

  == domain 2  score: 15.0 bits;  conditional E-value: 1.5e-05
                              GTTSEEEEES-SHHHHHHHHHHHHTT-EEEEESSSHHHHHCHHH CS
             2-Hacid_dh_C  34 lsgktvGiiGlGrIGqavakrlkafgmkviaydrskkkeeeeee 77 
                              +  k+  iiG+G IG ++a++++ +g +v++++rs +  +  e+
  PHY93_19215|PHY93_19215 406 ILPKKFLIIGCGPIGCEFAQCFSRLGSEVTMIERSDHLLS-RED 448
                              5568999**************************9976333.333 PP

>> AlaDh_PNT_C  Alanine dehydrogenase/PNT, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.6   0.2    0.0026       2.1      31      61 ..     246     276 ..     243     305 .. 0.90
   2 !    8.7   0.0    0.0012      0.97      27      64 ..     407     444 ..     399     474 .. 0.87

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.0026
                              EEEESTSHHHHHHHHHHHHTT-EEEEEESSH CS
              AlaDh_PNT_C  31 vlviGgGvaGlqAiatakglgakVtvlDvrp 61 
                              ++viGgG aGl    ++++++akV ++++++
  PHY93_19215|PHY93_19215 246 MMVIGGGAAGLVTSYISAAVKAKVALVEKEK 276
                              79**********************9998875 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 0.0012
                              ---EEEEESTSHHHHHHHHHHHHTT-EEEEEESSHHHH CS
              AlaDh_PNT_C  27 epakvlviGgGvaGlqAiatakglgakVtvlDvrparl 64 
                               p k l+iG G  G + ++  ++lg +Vt+++ + + l
  PHY93_19215|PHY93_19215 407 LPKKFLIIGCGPIGCEFAQCFSRLGSEVTMIERSDHLL 444
                              57899**************************9887655 PP

>> Lycopene_cycl  Lycopene cyclase protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   0.4     0.033        27       2      31 ..     246     273 ..     245     280 .. 0.82
   2 !   12.2   0.0   8.1e-05     0.066       3      37 ..     412     444 ..     411     457 .. 0.93

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.033
            Lycopene_cycl   2 vvviGaGpAglslAarlteakpglkvvlie 31 
                              ++viG+G+Agl     +  a+ + kv l+e
  PHY93_19215|PHY93_19215 246 MMVIGGGAAGLVTSYIS--AAVKAKVALVE 273
                              589********988877..78888888887 PP

  == domain 2  score: 12.2 bits;  conditional E-value: 8.1e-05
            Lycopene_cycl   3 vviGaGpAglslAarlteakpglkvvlieaspsll 37 
                              ++iG+Gp g+  A+    ++ g +v++ie s++ll
  PHY93_19215|PHY93_19215 412 LIIGCGPIGCEFAQCF--SRLGSEVTMIERSDHLL 444
                              69**************..*************9986 PP

>> FAD_binding_3  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.4   0.2     0.047        38       4      33 ..     246     275 ..     243     278 .. 0.81
   2 !   12.3   0.0     9e-05     0.073       5      34 ..     412     441 ..     409     447 .. 0.92

  Alignments for each domain:
  == domain 1  score: 3.4 bits;  conditional E-value: 0.047
                              EEEE--SHHHHHHHHHHHHTTHHEEEEESS CS
            FAD_binding_3   4 VlIVGaGpaGlmlallLseaGvrvvlvekr 33 
                               +++G+G aGl+++ + +    +v lvek 
  PHY93_19215|PHY93_19215 246 MMVIGGGAAGLVTSYISAAVKAKVALVEKE 275
                              689**********99877777778888875 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 9e-05
                              EEE--SHHHHHHHHHHHHTTHHEEEEESSS CS
            FAD_binding_3   5 lIVGaGpaGlmlallLseaGvrvvlvekrs 34 
                              lI+G Gp G   a+  s+ G +v+++e+ +
  PHY93_19215|PHY93_19215 412 LIIGCGPIGCEFAQCFSRLGSEVTMIERSD 441
                              8**************************986 PP

>> UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.3   0.1    0.0078       6.3       3      79 ..     246     322 ..     244     327 .. 0.75
   2 !    9.2   0.0     0.001      0.83       3      38 ..     411     446 ..     409     480 .. 0.82

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.0078
                              EEEE--STTHHHHHHHHHHCTSEEEEE-S-HHHHHHHCTTS-SS--TTHHHHHHHHCHTTTEEEES-HHHHHHC-SE CS
           UDPG_MGDP_dh_N   3 isviGlGYvGlvtaavlaeighevigvDideekvdklnsgkipiyepgLeelvkkavesgrlsfttdvekaveeadv 79 
                              + viG G  Glvt+ + a++  +v +v +++   d ln g +p      ++ + + +++ rl++  +++  ++ a+v
  PHY93_19215|PHY93_19215 246 MMVIGGGAAGLVTSYISAAVKAKVALVEKEKMGGDCLNYGCVPSKALIKSSKIIHSAKKARLFGLKNIQIDFDFAEV 322
                              689*************************9999888888888876654443333333346667776666666666665 PP

  == domain 2  score: 9.2 bits;  conditional E-value: 0.001
                              EEEE--STTHHHHHHHHHHCTSEEEEE-S-HHHHHH CS
           UDPG_MGDP_dh_N   3 isviGlGYvGlvtaavlaeighevigvDideekvdk 38 
                                +iG G +G   a +++++g ev+++  +++  + 
  PHY93_19215|PHY93_19215 411 FLIIGCGPIGCEFAQCFSRLGSEVTMIERSDHLLSR 446
                              569************************999886655 PP

>> ApbA  Ketopantoate reductase PanE/ApbA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0     7e-06    0.0057       2      45 ..     412     453 ..     411     487 .. 0.82

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 7e-06
                              EEES-SHHHHHHHHHHHHHTHCEEEE-SCHHHHHHHHHCEEEEE CS
                     ApbA   2 ailGaGaiGsllaakLakagadvtlilrsrrlealkknGlrlts 45 
                              +i+G+G iG+ +a + ++ g +vt+i rs++l  l++++l++++
  PHY93_19215|PHY93_19215 412 LIIGCGPIGCEFAQCFSRLGSEVTMIERSDHL--LSREDLEVST 453
                              7*****************************65..5666666655 PP

>> NAD_binding_7  Putative NAD(P)-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.5   0.1     0.028        22       8      41 ..     244     286 ..     241     343 .. 0.68
   2 !    9.0   0.0    0.0022       1.8       7      40 ..     408     441 ..     403     510 .. 0.71

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.028
            NAD_binding_7   8 kkvlvvGgGevAarkvrklleagakvtvvapev.........k 41 
                               +++v+GgG  ++   +  ++ +akv +v +e          +
  PHY93_19215|PHY93_19215 244 FNMMVIGGGAAGLVTSYISAAVKAKVALVEKEKmggdclnygC 286
                              689**********9999999999******99964444444332 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.0022
            NAD_binding_7   7 gkkvlvvGgGevAarkvrklleagakvtvvapev 40 
                               kk l++G G+++ + ++ + + g +vt++    
  PHY93_19215|PHY93_19215 408 PKKFLIIGCGPIGCEFAQCFSRLGSEVTMIERSD 441
                              689**************************98874 PP

>> FAD_binding_2  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   1.1   1.6e-05     0.013       3      32 ..     247     276 ..     245     283 .. 0.90
   2 ?   -3.2   0.0       4.1   3.3e+03     146     200 ..     453     505 ..     448     511 .. 0.77

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 1.6e-05
                              EEE--SHHHHHHHHHHHHTTT-EEEEESSS CS
            FAD_binding_2   3 iViGsGlAGLaAAleaaeaGlkvavvekeq 32 
                               ViG+G+AGL+ ++  a   +kva+veke+
  PHY93_19215|PHY93_19215 247 MVIGGGAAGLVTSYISAAVKAKVALVEKEK 276
                              69************9999999*******97 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 4.1
                              HHHHHHHTCT.EEEEESEEEEEEEECTTEEEEEEEEETTTTCEEEEEESEEEE--- CS
            FAD_binding_2 146 rlvesarkag.vdfqerteadeLivedgrvtGavvenpesgrevrirakavvlatg 200
                              +l+e+++  + v+ + +++++e+  e +rv    +   +s++ vr++ + v++a g
  PHY93_19215|PHY93_19215 453 TLLEEVLTSEgVRTLSNHSVQEF-LEVDRVKYLLCG--TSKGVVRYEYDLVLIAMG 505
                              67777777667999999999999.557888888888..888888888888888877 PP

>> FAD_oxidored  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.2   0.00069      0.57       3      35 ..     247     279 ..     245     303 .. 0.88
   2 ?    1.9   0.0      0.14   1.1e+02       3      34 ..     412     443 ..     411     443 .. 0.96
   3 ?   -2.8   0.0       3.8   3.1e+03      90     124 ..     452     485 ..     447     496 .. 0.77

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00069
             FAD_oxidored   3 vVvGGgpaGvaAAiaAaraGakvlLveergvlG 35 
                              +V+GGg+aG++  + +a   akv+Lve++++ G
  PHY93_19215|PHY93_19215 247 MVIGGGAAGLVTSYISAAVKAKVALVEKEKMGG 279
                              7**************************998644 PP

  == domain 2  score: 1.9 bits;  conditional E-value: 0.14
             FAD_oxidored   3 vVvGGgpaGvaAAiaAaraGakvlLveergvl 34 
                              +++G gp G+  A    r G +v ++e++++l
  PHY93_19215|PHY93_19215 412 LIIGCGPIGCEFAQCFSRLGSEVTMIERSDHL 443
                              79***************************997 PP

  == domain 3  score: -2.8 bits;  conditional E-value: 3.8
             FAD_oxidored  90 kavleemlaeagvtvllntrlvevekegkriesvt 124
                               ++lee+l+ +gv+ l n+ ++e    + r++ + 
  PHY93_19215|PHY93_19215 452 STLLEEVLTSEGVRTLSNHSVQEFLEVD-RVKYLL 485
                              56899999999*********99988775.766555 PP

>> ThiF  ThiF family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0     6e-05     0.049      15      42 ..     405     432 ..     396     442 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 6e-05
                              HHHTSEEEEE--SHHHHHHHHHHHHHTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     ThiF  15 kLrdskvllvGaGglGsellknLalsGv 42 
                              k+  +k+l++G+G +G+e+++ + ++G 
  PHY93_19215|PHY93_19215 405 KILPKKFLIIGCGPIGCEFAQCFSRLGS 432
                              566689*****************99994 PP

>> Thi4  Thi4 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.0   0.00051      0.42      19      57 ..     245     281 ..     232     323 .. 0.82
   2 ?    0.2   0.0      0.45   3.6e+02      18      50 ..     409     440 ..     396     443 .. 0.86

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00051
                              EEEEE--SHHHHHHHHHHHHCTTS-EEEEESSSS--TTT CS
                     Thi4  19 DvvivGaGssGLtaayylakkpdlkvailersvspGGGa 57 
                              +++++G+G++GL ++y+ a   + kva++e++  +GG  
  PHY93_19215|PHY93_19215 245 NMMVIGGGAAGLVTSYISAAV-KAKVALVEKEK-MGGDC 281
                              6799*********99988877.9*******974.55544 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.45
                              EEEEEE--SHHHHHHHHHHHHCTTS-EEEEESS CS
                     Thi4  18 sDvvivGaGssGLtaayylakkpdlkvailers 50 
                                 +i+G G+ G   a+ +++  + +v+++ers
  PHY93_19215|PHY93_19215 409 KKFLIIGCGPIGCEFAQCFSRL-GSEVTMIERS 440
                              56789***************99.9999999986 PP

>> TrkA_N  TrkA-N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0       4.8   3.9e+03      64      94 ..     327     358 ..     321     375 .. 0.72
   2 ?   10.6   0.0   0.00065      0.53       1      36 [.     411     446 ..     411     504 .. 0.86

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 4.8
                              SEEEE-SS.SHHHHHHHHHHHHHHTSSSEEEE CS
                   TrkA_N  64 daviaatg.ddeanilavllakelnpkkkiia 94 
                              + via+++ +d +n ++ l +  + +++kii+
  PHY93_19215|PHY93_19215 327 KRVIATVEpHDSTNRFTGLGVECFSGEAKIIS 358
                              55555554377888888888877777777776 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 0.00065
                              EEEES-SHHHHHHHHHHHH.TTEEEEEEESSHHHHHH CS
                   TrkA_N   1 iiiiGlGrvGrslaeeLse.ggkdvvvidkdeervee 36 
                              ++iiG+G +G + a+ +s+ g+ +v+ i++++  + +
  PHY93_19215|PHY93_19215 411 FLIIGCGPIGCEFAQCFSRlGS-EVTMIERSDHLLSR 446
                              68*****************777.6*****99866554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (524 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       869  (0.048469); expected 358.6 (0.02)
Passed bias filter:                      476  (0.0265492); expected 358.6 (0.02)
Passed Vit filter:                        67  (0.00373696); expected 17.9 (0.001)
Passed Fwd filter:                        25  (0.00139439); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              22  [number of targets reported over threshold]
# CPU time: 0.64u 0.25s 00:00:00.89 Elapsed: 00:00:00.40
# Mc/sec: 3975.61
//
Query:       PHY93_19220|PHY93_19220  [L=189]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.4e-50  170.7   0.3    3.5e-50  170.2   0.3    1.2  1  PMSR      Peptide methionine sulfoxide reductase
  ------ inclusion threshold ------
       0.19   11.6   0.1       0.33   10.8   0.1    1.3  1  DUF1072   Protein of unknown function (DUF1072)


Domain annotation for each model (and alignments):
>> PMSR  Peptide methionine sulfoxide reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  170.2   0.3   3.9e-54   3.5e-50       1     152 [.      25     170 ..      25     171 .. 0.95

  Alignments for each domain:
  == domain 1  score: 170.2 bits;  conditional E-value: 3.9e-54
                              EEEEE-S-HHHHHHHHCTST..TEEEEEEEEESSS-SS--HHHHHTTTT--EEEEEEEEETTTS-HHHHHHHHHHTS-TT-SSEET CS
                     PMSR   1 eavlagGCFWgveklfeklk..GvlstevGYagGktenptYeevcsgktghaEavevvydpekvsleellelffeihDptqlnrqg 84 
                              +a++agGCFW++++ f++lk  Gv s+ vGY+gG++enp+Y++++ g tgh Ea+ev+ydp+k+s+++ll++f+e++Dp+++ +q+
  PHY93_19220|PHY93_19220  25 TAIFAGGCFWCMQAPFDSLKgkGVNSVIVGYTGGTKENPSYKDTSAGGTGHREAIEVNYDPRKISYSQLLKIFWENIDPYDQSGQF 110
                              689***************99778*************************************************************** PP

                              TEESGGG--EEEESSCCHHHHHHHHHHHHHTTHTTSSS---EEEEG-SEEE--CCCTTHHHH-TTS-- CS
                     PMSR  85 nDvGtqYrsaiyytneeqkevaeevleelqkkkalkkkivteieplkefykaeeyHqqYleknpegyc 152
                              +D+G+ Y sa++y+ne++k ++e+++         k+k++t + p+k+fy+aeeyHq+Y+ knp +y+
  PHY93_19220|PHY93_19220 111 CDKGEPYTSAVFYNNEQEKLQFEKTK--------PKGKVATLLLPAKKFYPAEEYHQSYYIKNPIRYK 170
                              ****************9998877653........458899************************9996 PP

>> DUF1072  Protein of unknown function (DUF1072)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.1   3.7e-05      0.33       7      36 ..       8      42 ..       4      44 .. 0.85

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 3.7e-05
                  DUF1072  7 IAvCvLalTvlag....igavagcCvGCisat.pn 36
                             I v ++++  ++     +++ ag C +C++a+ ++
  PHY93_19220|PHY93_19220  8 IMVTIFSMSFFSVskadTAIFAGGCFWCMQAPfDS 42
                             567889999998888899*************9555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (189 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       465  (0.0259356); expected 358.6 (0.02)
Passed bias filter:                      385  (0.0214736); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.24s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 1393.87
//
Query:       PHY93_19225|PHY93_19225  [L=274]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.5e-34  117.7   0.0      6e-34  117.3   0.0    1.2  1  Glycos_transf_2  Glycosyl transferase family 2
    4.1e-21   75.9   0.0    5.7e-21   75.5   0.0    1.2  1  Glyco_tranf_2_3  Glycosyltransferase like family 2
    4.6e-20   72.2   0.5    8.7e-19   68.0   0.1    2.4  2  Glyco_tranf_2_2  Glycosyltransferase like family 2
    0.00024   21.1   0.0    0.00032   20.7   0.0    1.2  1  Glyco_trans_2_3  Glycosyl transferase family group 2
     0.0024   18.3   0.0     0.0058   17.1   0.0    1.6  1  Glyco_tranf_2_4  Glycosyl transferase family 2


Domain annotation for each model (and alignments):
>> Glycos_transf_2  Glycosyl transferase family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  117.3   0.0   1.7e-37     6e-34       1     115 [.       5     116 ..       5     161 .. 0.89

  Alignments for each domain:
  == domain 1  score: 117.3 bits;  conditional E-value: 1.7e-37
                              EEEEEESS-TTTHHHHHHHHHHHGGCCEEEEEEEEES-SSCHHHHHGGGCHC-TTEEEEEESSS-HHHHHHHHHHHH--SSEEEEE CS
          Glycos_transf_2   1 svviptyNeektlletlesllaqdpypdfeiivvDDgStDetveileelakedprvrvirreenvGkagalnaglraatgdyilfl 86 
                              sv+ipt+N+++ + ++++s+l+q + +dfe+ivvDDgStDet+ il  + + +++++++++  n+G ++a+n g+++a+g++++fl
  PHY93_19225|PHY93_19225   5 SVIIPTFNRSSVIIRAINSVLNQ-NNKDFELIVVDDGSTDETELILSPFIE-SGKIKYFKHH-NRGVSAARNLGVAKASGEWLAFL 87 
                              8**********************.*************************85.**********.77********************* PP

                              ESSEEE-TTHHHHHHHHHHH.TTCEEEEE CS
          Glycos_transf_2  87 DaDdepdpdwleklvealekdgadvvlgq 115
                              D+Dde+ p++l++ +++l+++ +  ++++
  PHY93_19225|PHY93_19225  88 DSDDEWLPNKLQEQIDYLHQNSTLNIIYG 116
                              *******************9876555554 PP

>> Glyco_tranf_2_3  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   75.5   0.0   1.6e-24   5.7e-21       1     195 [.       2     185 ..       2     192 .. 0.86

  Alignments for each domain:
  == domain 1  score: 75.5 bits;  conditional E-value: 1.6e-24
          Glyco_tranf_2_3   1 prdlavlVptfneedvlgevlesllaqeyprvevvvvvdesdaetlevaeelaaalpdvrvrvvvnarnlgstgksralnealrav 86 
                              p+ ++v++ptfn+++v+ + ++s+l+q + ++e++vv+d+s++et   +  +  + ++ ++++ ++ +n g+   s a n ++  +
  PHY93_19225|PHY93_19225   2 PF-VSVIIPTFNRSSVIIRAINSVLNQNNKDFELIVVDDGSTDETELILSPF--IESG-KIKY-FKHHNRGV---SAARNLGVAKA 79 
                              67.9*****************************************9777654..4445.8996.67777665...455599***** PP

          Glyco_tranf_2_3  87 ksdlvllvDdDtvvePdtlkrllqff.ltpkvgavgtpv.fllnrstlvsalgalefaerhlrflaarralgvltlnGsgslirre 170
                              ++++++++D+D+ + P+ l+ +  ++ + +   ++++++ +l+n++++ +++   +f+ + ++ +     + +  +++s + i ++
  PHY93_19225|PHY93_19225  80 SGEWLAFLDSDDEWLPNKLQEQIDYLhQNSTLNIIYGQEiWLRNGKRVNQRAIHQKFGGWIFEKC-----IQQCLIAPSSVIIKAS 160
                              **************************9999******99956678887765555559******555.....5554557799****** PP

          Glyco_tranf_2_3 171 vlkelegldplflltdDyelglrlr 195
                              ++ e +g+d  f++ +Dy+l+l + 
  PHY93_19225|PHY93_19225 161 LFHEMGGFDQEFIVCEDYDLWLKIS 185
                              *********************9875 PP

>> Glyco_tranf_2_2  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.0   0.1   2.4e-22   8.7e-19       1     203 [.       5     188 ..       5     201 .. 0.86
   2 ?    1.4   0.0     0.049   1.8e+02      30      67 ..     224     264 ..     209     268 .. 0.79

  Alignments for each domain:
  == domain 1  score: 68.0 bits;  conditional E-value: 2.4e-22
          Glyco_tranf_2_2   1 svviplraseerhyieervlqkakyydeeielivvddgSsekfleevssiidlnllvylkdeddkayslaaarNrGaskaesdlvl 86 
                              sv+ip  +      i   +    ++ ++++elivvddgS++++   +s +i+  +  y+k+      + +aarN+G+ ka ++ + 
  PHY93_19225|PHY93_19225   5 SVIIPTFNRSSV--IIRAINSVLNQNNKDFELIVVDDGSTDETELILSPFIESGKIKYFKHH---NRGVSAARNLGVAKASGEWLA 85 
                              688888777766..666666666666779***********************99999****9...66999**************** PP

          Glyco_tranf_2_2  87 FlDaDcfissDkfekilklitikklrenidaavvlpvvdlnkedsevlkdvedltassrvledllaakstlvkffapssssilinr 172
                              FlD+D+ + ++k++ ++       l++n    +++    + ++ + v ++       + + e+ +         +ap  ss++i+ 
  PHY93_19225|PHY93_19225  86 FLDSDDEWLPNKLQEQID-----YLHQNSTLNIIYGQEIWLRNGKRVNQRAIHQKFGGWIFEKCIQ-----QCLIAP--SSVIIKA 159
                              **************9999.....9***********9999988888887777777777778877776.....345666..5689*** PP

          Glyco_tranf_2_2 173 raflevGGyDErfrGhgaEDfdlllRlakai 203
                                f e+GG+D +f     ED+dl l++   +
  PHY93_19225|PHY93_19225 160 SLFHEMGGFDQEF--IVCEDYDLWLKISSLY 188
                              *************..789*******998766 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.049
          Glyco_tranf_2_2  30 ielivvddgSsekfleevssiidlnllv...ylkdeddkay 67 
                               +++++ + S+e+  +++++i+ +       ylk+e+ k +
  PHY93_19225|PHY93_19225 224 SRILMIRNLSAEDKENVIETIKRKGSILkqgYLKHENAKGF 264
                              58999********99******98653222359999988877 PP

>> Glyco_trans_2_3  Glycosyl transferase family group 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.7   0.0   8.8e-08   0.00032       1     121 [.      83     198 ..      83     233 .. 0.79

  Alignments for each domain:
  == domain 1  score: 20.7 bits;  conditional E-value: 8.8e-08
          Glyco_trans_2_3   1 iilllDaDtvlppdclreiaaelas.pevaivqgpvlv.mnvanwleelaalffaedhgkdilvrealgrvvpsvGsgaflrrsal 84 
                              + ++lD+D+   p+ l e ++ l++     i+ g+ +  +n++++ ++ +   f  ++   +++++       ++ s +++ +s++
  PHY93_19225|PHY93_19225  83 WLAFLDSDDEWLPNKLQEQIDYLHQnSTLNIIYGQEIWlRNGKRVNQRAIHQKFGGWIFEKCIQQCL------IAPSSVIIKASLF 162
                              67899*****999999999998886368889999988625777777777777776666666666655......56689******** PP

          Glyco_trans_2_3  85 qevggwdgdessvsEDfdmglrlqrkGyrvrfvpes.l 121
                               e+gg+d  e+ v ED+d++l++ ++ y v +++ + +
  PHY93_19225|PHY93_19225 163 HEMGGFD-QEFIVCEDYDLWLKISSL-YEVGYISNPiI 198
                              *******.99*************988.88888877733 PP

>> Glyco_tranf_2_4  Glycosyl transferase family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.0   1.6e-06    0.0058      21      82 ..      33      91 ..      14     105 .. 0.77

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 1.6e-06
          Glyco_tranf_2_4 21 rilvydndstDgtrailkel.pevkllhvdksyederrqvellkallaryaeadwvlvvDaDE 82
                             +++v+d++stD+t  il+   +  k+ +++++     r+v++ ++l    a ++w++++D+D 
  PHY93_19225|PHY93_19225 33 ELIVVDDGSTDETELILSPFiESGKIKYFKHHN----RGVSAARNLGVAKASGEWLAFLDSDD 91
                             59***************9975778888888865....5677666666666789********95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (274 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       459  (0.025601); expected 358.6 (0.02)
Passed bias filter:                      351  (0.0195772); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.39
# Mc/sec: 2127.10
//
Query:       PHY93_19230|PHY93_19230  [L=271]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.6e-21   74.5   0.1    1.2e-20   74.0   0.1    1.2  1  Peptidase_S51  Peptidase family S51
    0.00068   19.4   0.1      0.001   18.8   0.1    1.2  1  Peripla_BP_6   Periplasmic binding protein


Domain annotation for each model (and alignments):
>> Peptidase_S51  Peptidase family S51
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.0   0.1   1.4e-24   1.2e-20       1     201 [.      10     209 ..      10     214 .. 0.85

  Alignments for each domain:
  == domain 1  score: 74.0 bits;  conditional E-value: 1.4e-24
                              EEEES-........GGG-HHHHHHHS--TT-EEEEE-GGGGG-S--HHHHHHHHHHHHTT-.EEEE--TTTS-HHHHHH....HHH CS
            Peptidase_S51   1 llllssgelsdeerlehiekalldflgksekkvlFiPtAsvsgdddeyvekvrkaleklgl.evdeLelskdpeeeiee....kll 81 
                              l+++++   +d+ +  +i + l++ +g+   k++ +  A  s+d ++  e   k++++lg+  +++L+++++ ++ i++     ++
  PHY93_19230|PHY93_19230  10 LIIIGGR--EDRTQAREILNVLAEAVGG--GKLCIVTVA--SEDGEHMWEIYHKVFKDLGVkTLSHLDVVQR-TQSIDQkaykAVQ 88 
                              5667763..3666666677777777776..99*******..99******************88999999955.5556654555899 PP

                              HSSEEEE--S-HHHHHHHHHHTTHHHHHHHHHHTT-EEEEETHHHHTTSSB-GGGTTTS-GGG-S....---B----SSSEEETTT CS
            Peptidase_S51  82 eadviyvgGGntfrLlkllketgldkllreavqqglvyiGvSAGaivagesiettsysdspikap....esfeaLgLvkfqivPHy 163
                              +ad+++ +GG++ ++ +++ +t +++ + e +q+g +++G+SAGa+v+ge ++     +    +     ++  +Lg+    i++++
  PHY93_19230|PHY93_19230  89 DADAVFFTGGDQLKITSEIGGTIIQDRIMEIYQNGGIISGTSAGASVMGEIMMIAGAPEASF-RIgsdlQMAPGLGFATNMIIDQH 173
                              **************************************************998877322221.11335599999**********99 PP

                              ...T-TTSHHHHHHHHHH-----EEE--TTEEEEEETT CS
            Peptidase_S51 164 lghkeeereerlaefvesneekpvigldegtalliegd 201
                                + e+ r  rl  +v+ n++  +iglde+ta+ ++++
  PHY93_19230|PHY93_19230 174 --FAERGRVGRLIGAVAHNPKYLGIGLDENTAIILQDK 209
                              ..9*******************************9986 PP

>> Peripla_BP_6  Periplasmic binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.1   1.2e-07     0.001     118     199 ..      18      98 ..      12     103 .. 0.92

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 1.2e-07
                              HHHHHHHHHHHHHHHTTSCEEEEEEESSHHHHHHHHHHHHHHHCCTEEEEEEEEE-TTHHHHHHHHHHHHTTT-SEEEEESS CS
             Peripla_BP_6 118 ysaqasalveylakelggkkvalvyadyafgregiaalkaaakaaGgevvgeepvplgttdfsaqvlqikaagadavllagt 199
                              +++qa+ +++ la+ +gg k+++v++++  g  +++ + +++k +G++ + + +v + t++ +  + ++ +  adav+++g+
  PHY93_19230|PHY93_19230  18 DRTQAREILNVLAEAVGGGKLCIVTVASEDGEHMWEIYHKVFKDLGVKTLSHLDVVQRTQSIDQKAYKAVQ-DADAVFFTGG 98 
                              679*********************************************99999999999999998999998.9999999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (271 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       373  (0.0208043); expected 358.6 (0.02)
Passed bias filter:                      315  (0.0175693); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.20s 00:00:00.62 Elapsed: 00:00:00.35
# Mc/sec: 2343.60
//
Query:       PHY93_19235|PHY93_19235  [L=381]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      4e-12   46.1   0.1      6e-07   29.1   0.0    2.2  2  Amidohydro_1  Amidohydrolase family
    1.4e-11   44.5   0.0    0.00014   21.5   0.0    2.2  2  Amidohydro_3  Amidohydrolase family


Domain annotation for each model (and alignments):
>> Amidohydro_1  Amidohydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0   1.2e-06      0.01       1      70 [.      57     118 ..      57     170 .. 0.84
   2 !   29.1   0.0   6.7e-11     6e-07     242     342 ..     276     354 ..     229     358 .. 0.77

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.2e-06
                              EEEE-EEEEEEECETTECSSSGHHHHHSTTHHHHHHHHHHHHHHHHTTEEEEEEEEHSSTH..HHHHHHHHH CS
             Amidohydro_1   1 ivlPGlIDaHvHleqsllrgatledwlvppetaaealesgiktalksGtttvadmgattst..giealleaa 70 
                              +++PGlID H Hl ++ +             +++   e  i + +++G+ttv +++ +++   +++ ll +a
  PHY93_19235|PHY93_19235  57 FLFPGLIDPHEHLIGGSG----------ENGYCSRSPEMTIPEIVRGGITTVVGCIGVDTItrNMHSLLAQA 118
                              689**********88875..........45567778899999**********99988653356666666554 PP

  == domain 2  score: 29.1 bits;  conditional E-value: 6.7e-11
                              EEEEEECTTSSCCGGHHHH.HHHHHHHHHHCCTTTTHCHCHHHHHHHHHTHHHHHHTT-TTTSSSS-TTSB--EEEECCCTCGGGT CS
             Amidohydro_1 242 vglgtDgaasgnslnllee.lrlalklqrgllyedeegglslkealrmaTingAkalglddkvGsievGkdADlvvvdldilaafv 326
                               +l++D  as  s+ +l e ++ a+          +  ++sl+++l ++T+n+A++l+l +++G i+   dADlv+v         
  PHY93_19235|PHY93_19235 276 LTLSSD--ASFTSPGFLYEqIKEAM----------KVFNWSLEKILPLVTTNTARILKL-RNKGHIALEADADLVAV--------- 339
                              566666..66666644444477777..........6788********************.6****************......... PP

                              TTCTSEEEEEEEETTE CS
             Amidohydro_1 327 glkkdgnvkkvivkGk 342
                               + +  ++ +vi kGk
  PHY93_19235|PHY93_19235 340 -DRSTLEINHVIAKGK 354
                              .566677777777776 PP

>> Amidohydro_3  Amidohydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.0   1.5e-08   0.00014       2      36 ..      50      85 ..      49     135 .. 0.85
   2 !   21.1   0.0     2e-08   0.00018     409     454 ..     304     348 ..     301     364 .. 0.82

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 1.5e-08
             Amidohydro_3  2 viDakGrlvlPGFvDsHtHlaggg.vnlrllrlpda 36
                             + D++G++++PG++D+H Hl+gg   n    r+p++
  PHY93_19235|PHY93_19235 50 ILDLEGMFLFPGLIDPHEHLIGGSgENGYCSRSPEM 85
                             68*******************997455566666664 PP

  == domain 2  score: 21.1 bits;  conditional E-value: 2e-08
             Amidohydro_3 409 sleealalyTrgpAkalgledrkGtLevGadADlvvldadpldvdp 454
                              sle++l l+T+++A++l+l+ + G+++  adADlv  d+  l++ +
  PHY93_19235|PHY93_19235 304 SLEKILPLVTTNTARILKLRNK-GHIALEADADLVAVDRSTLEINH 348
                              899******************8.***************99888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (381 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       341  (0.0190195); expected 358.6 (0.02)
Passed bias filter:                      335  (0.0186848); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.35
# Mc/sec: 3283.12
//
Query:       PHY93_19240|PHY93_19240  [L=893]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-22   80.7   1.4    3.2e-22   79.5   1.4    1.7  1  Mur_ligase_M     Mur ligase middle domain
    1.4e-12   47.6   0.0    1.2e-05   25.0   0.0    2.7  2  RimK             RimK-like ATP-grasp domain
    1.3e-05   24.6   0.0     0.0044   16.3   0.0    2.3  2  ATPgrasp_ST      Sugar-transfer associated ATP-grasp
    1.4e-05   25.2   0.0     0.0054   16.8   0.0    2.5  2  ATP-grasp_3      ATP-grasp domain
    0.00032   20.9   0.0    0.00095   19.4   0.0    1.8  1  Mur_ligase_C     Mur ligase family, glutamate ligase domain
    0.00054   19.5   0.0     0.0011   18.5   0.0    1.5  1  CPSase_L_D2      Carbamoyl-phosphate synthase L chain, ATP bi
     0.0012   18.4   0.0     0.0042   16.6   0.0    1.9  2  Dala_Dala_lig_C  D-ala D-ala ligase C-terminus
  ------ inclusion threshold ------
       0.05   13.4   0.0       0.13   12.0   0.0    1.7  1  GARS_A           Phosphoribosylglycinamide synthetase, ATP-gr


Domain annotation for each model (and alignments):
>> Mur_ligase_M  Mur ligase middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.5   1.4   1.4e-25   3.2e-22       1     192 []     485     701 ..     485     701 .. 0.80

  Alignments for each domain:
  == domain 1  score: 79.5 bits;  conditional E-value: 1.4e-25
                              EESSS-HHHHHHHHHHHHHCTEEEEETTC...........SS-THHHHHHHHHHHHHTT-SEEEEE--HCHHHCTTTCCHCBESEE CS
             Mur_ligase_M   1 vTGtnGKTTtteliaailekagkvigtvg...........ttnneiglpktlaemekkeaeyavlEvsshglgekrlegllkpdva 75 
                              +TGtnGKTT+++l+ +i++++g  +gt                +++g  ++ + +++  +e+avlE++  g++++ l      dv+
  PHY93_19240|PHY93_19240 485 ITGTNGKTTVARLLSHIVAASGRCVGTTTtdgiyinniqvAEGDTTGPISARTVLTDPSVELAVLETARGGIVKRGLGY-DWSDVG 569
                              8********************77777777777********77888888888888999999**************77777.679*** PP

                              EE---TSTTHH..HHSSHHHHHHHHHHHHHTSETTCEEEEETTSC.....CHHHHHCTCCTCEEEEESSSTS............EC CS
             Mur_ligase_M  76 vitnispdHld..fhgtlenyaeaKaelferlkeegiavinaddpy..akelikklkkakvkvvtfglekea............ed 145
                              ++tn++ dH++   ++ +e++++ K+  +er+k +g +++nad +   + +l  ++  ++ k+  f+l++++            ++
  PHY93_19240|PHY93_19240 570 IFTNLKADHIGqdGIECIEDILKIKSLVIERVKTGGAVILNADSKEivGLTLDPRTDMHTKKLTYFSLDENNivikkhmanaghAY 655
                              **********75589****************************9963344455555555555899999999999987666666544 PP

                              EEEE.EEEEETTEEEEEEEEETTEEEEEEESSCSCHHHHHHHHHHHHH CS
             Mur_ligase_M 146 lrak.nieeksegteiellevkggeleieipllGkhnvyNalaaiaaa 192
                              ++++ +i e + + e++++    +e+ ++++ +  + ++N++aaiaaa
  PHY93_19240|PHY93_19240 656 FMRDgEIIEAQGQIESTVI--HINEIPLTLGGTAYFHAANVMAAIAAA 701
                              5554455555555554444..44666666677777***********96 PP

>> RimK  RimK-like ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.0   0.0   5.5e-09   1.2e-05       1     106 [.     212     316 ..     212     381 .. 0.84
   2 !   19.7   0.0   2.2e-07   0.00049     114     173 ..     385     453 ..     368     467 .. 0.80

  Alignments for each domain:
  == domain 1  score: 25.0 bits;  conditional E-value: 5.5e-09
                              HH-HHHHHHHHHHTT-----EEEESS-S-HHHHHHTT-.-SSEEEEE-TTTT--EEEEE.-SHHHHHHHHHH..GGG--.EEEEE- CS
                     RimK   1 ardKlkslklLakakikvpntalardeedaekliekiklrfPvvvKsvegsqGikvvla.kkeqklkqvlea..lkeai.lvqeyi 82 
                              a+dK ++ klL  a i vp+ + a + eda+++ e+i   +P+ vK + g+ G +v l   + ++++  ++   ++  i l+ e +
  PHY93_19240|PHY93_19240 212 AQDKNLTKKLLEEASIRVPRGRPAYSLEDAREIQEEI--PVPLAVKPLDGNHGRGVSLHiSTFEDMEAAFNLarIHSDIvLIEECL 295
                              78***********************************..6****************996233333443333223444442555544 PP

                              -SS-SEEEEEEEETTEEEEEEEEE CS
                     RimK  83 eeaenediRvlvvddevvaalrrv 106
                                 +++d R+l+v++++vaa +rv
  PHY93_19240|PHY93_19240 296 ---KGKDYRILIVGGKMVAASERV 316
                              ...569**************9997 PP

  == domain 2  score: 19.7 bits;  conditional E-value: 2.2e-07
                              --TTTT-EEEE-..---HHHHHHHHHHHHHCT-SEEEEEEEEET.......TEEEEEEEESS--SHHHH CS
                     RimK 114 snlhrGgvaekl..qlseeekelAikaakamelvvaGvDllrak.......rgllvlEvnsspglekie 173
                              +nl  Gg a  +  ++ +e + +  +aa++++l+++GvDl+ ++       ++  v+Evn+ pgl++ +
  PHY93_19240|PHY93_19240 385 ANLSTGGSAIDMtdEIHPEVQSMCERAARIVGLDICGVDLIAEDirlpmsvQSAGVIEVNAGPGLRMHQ 453
                              78888887765522699**********************9987744444446778**********9984 PP

>> ATPgrasp_ST  Sugar-transfer associated ATP-grasp
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0   1.9e-06    0.0044      16      95 ..     209     284 ..     199     297 .. 0.86
   2 !    5.7   0.0    0.0034       7.7     226     273 ..     402     454 ..     392     465 .. 0.86

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 1.9e-06
              ATPgrasp_ST  16 fplvddKlkfkelalraglkvpkllgvikeqaeiseleafvkeleegvviKpakgsgGkGilviteredqdylkssgksa 95 
                              + + +dK+++k+l+++a + vp+     +   ++++++++ +e++  +++Kp +g  G+G++   ++ +++  +++ +++
  PHY93_19240|PHY93_19240 209 VDIAQDKNLTKKLLEEASIRVPR----GRPAYSLEDAREIQEEIPVPLAVKPLDGNHGRGVSLHISTFEDMEAAFNLARI 284
                              56779******************....78889************999**************9988877777777666655 PP

  == domain 2  score: 5.7 bits;  conditional E-value: 0.0034
              ATPgrasp_ST 226 eevlelaakaaeklpglgylGwDivldeekgpl......llElNarpglaivqi 273
                              +ev  ++ +aa  ++gl + G+D+  ++ + p+      ++E+Na pgl + q 
  PHY93_19240|PHY93_19240 402 PEVQSMCERAAR-IVGLDICGVDLIAEDIRLPMsvqsagVIEVNAGPGLRMHQH 454
                              567789999999.999999999999999888887777779***********886 PP

>> ATP-grasp_3  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   2.4e-06    0.0054       1      83 [.     212     308 ..     212     337 .. 0.76
   2 !    5.7   0.1    0.0063        14     103     156 ..     387     445 ..     353     448 .. 0.74

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 2.4e-06
                              HTSHHHHHHHHTTT.S---..........-EESS--....SSSEEEEESS-------B-.-SS--TTE.............EEEE- CS
              ATP-grasp_3   1 asdKlktykkLkeagvkvP......tkleaeeleee....ekklvvKprdGaggesvrv.veekeeaeaaieeve......lvqef 69 
                              a+dK  t k L+ea+++vP      +    e ++e     + +l vKp dG  g +v++ +  +e+ eaa++         l+ e 
  PHY93_19240|PHY93_19240 212 AQDKNLTKKLLEEASIRVPrgrpayS---LEDAREIqeeiPVPLAVKPLDGNHGRGVSLhISTFEDMEAAFNLARihsdivLIEEC 294
                              68*****************9996542...333333333358999**********9997624555555555554447789999**** PP

                              --SEEEEEEEEE.S CS
              ATP-grasp_3  70 ieGkplSvsllsdg 83 
                              ++Gk++ + +++ +
  PHY93_19240|PHY93_19240 295 LKGKDYRILIVGGK 308
                              *******9999855 PP

  == domain 2  score: 5.7 bits;  conditional E-value: 0.0063
                              TEEEEEEES----HHHHHHHHHHHHHTTSTT--EEEEEEEEESS........SEEEEEEES CS
              ATP-grasp_3 103 fvyaGnvtpietelkeevvelaeevvekleglaGyvGvDlvlkd.......eepyviEvNP 156
                              ++  G+ +++  e + ev++++e++ + + gl  + GvDl+ +d       +   viEvN+
  PHY93_19240|PHY93_19240 387 LSTGGSAIDMTDEIHPEVQSMCERAARIV-GL-DICGVDLIAEDirlpmsvQSAGVIEVNA 445
                              44556667777777888888888888777.55.489*****66665555558899999996 PP

>> Mur_ligase_C  Mur ligase family, glutamate ligase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.4   0.0   4.3e-07   0.00095       3      79 ..     725     796 ..     724     808 .. 0.84

  Alignments for each domain:
  == domain 1  score: 19.4 bits;  conditional E-value: 4.3e-07
                              TSSEEEEETTTEEEEEET--SHHHHHHHHHHHHHHSSSSEEEEEEEESTT.CCSCHCTHHHHHHHHCCHSSEEEEEE CS
             Mur_ligase_C   3 gRlevvgeadgvtvidDyahnpdslsaalkalreiapdkrlilvfgpggelgertrtfhdefgrlasaladslvvlg 79 
                              gR ++++ ++g++ + Dy+hnpd+++   ++ + + +  +l  v  ++g+   r  +  +++g++ +++  ++++ +
  PHY93_19240|PHY93_19240 725 GRTNLYKIGRGYL-LLDYGHNPDAIQVIGEMGKRW-NVDKLTGVIAAPGD---RVDEIIKLVGEASAKAFNKVIIRE 796
                              6888888888877.667*********999999766.889********9**...***********9999777788744 PP

>> CPSase_L_D2  Carbamoyl-phosphate synthase L chain, ATP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.5   0.0   5.1e-07    0.0011       1      91 [.     214     297 ..     214     305 .. 0.91

  Alignments for each domain:
  == domain 1  score: 18.5 bits;  conditional E-value: 5.1e-07
                              SHHHHHHHHHHTT-BBSSEECSSBSSHHHHHHHHHHH-SSEEEEETTCCTTTTEEE.ESSHHHHHHHHHHHHHHHHHHHSTS-EEE CS
              CPSase_L_D2   1 DkesakealkkinvpvvpssaapvetleealaiakeigyPviikaafglGGkGmrv.arneeelaelvkkalaeakaafgnkqvlv 85 
                              Dk+  k++l+++ ++v ++ +a   +le+a +i +ei +P  +k+  g  G+G  + +++ e+++++++ a+ ++      + vl+
  PHY93_19240|PHY93_19240 214 DKNLTKKLLEEASIRVPRGRPA--YSLEDAREIQEEIPVPLAVKPLDGNHGRGVSLhISTFEDMEAAFNLARIHS------DIVLI 291
                              8999*****************9..*****************************9984567799999999999998......89999 PP

                              EE--SS CS
              CPSase_L_D2  86 ekslkg 91 
                              e+ lkg
  PHY93_19240|PHY93_19240 292 EECLKG 297
                              998876 PP

>> Dala_Dala_lig_C  D-ala D-ala ligase C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   1.9e-06    0.0042      28      99 ..     241     313 ..     229     357 .. 0.84
   2 ?   -2.3   0.0       1.2   2.7e+03     128     178 ..     394     449 ..     378     452 .. 0.65

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 1.9e-06
                              HHHHHHHC-SSEEEEESSSSTTTTEE.EESSGGGHHHHHHHHHTT-SCEEEEE--ESEEEEEEEEETSSCEEE CS
          Dala_Dala_lig_C  28 lekveeelgypvfVKpareGSSvGvs.kveseeelkeaieeafkydekvlvEeaiegreievavlgneklevs 99 
                               ++++ee+  p+ VKp       Gvs ++++ e++++a++ a  +   vl+Ee ++g++  + ++g   + +s
  PHY93_19240|PHY93_19240 241 AREIQEEIPVPLAVKPLDGNHGRGVSlHISTFEDMEAAFNLARIHSDIVLIEECLKGKDYRILIVGGKMVAAS 313
                              68999***********8777777776468999*********************************94333333 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 1.2
                              ----HHHHHHHHHHHHHHHHHTT--SEEEEEEEEE......TTTEEEEEEEESS--- CS
          Dala_Dala_lig_C 128 aklekeveekiqelalkaykaldlrGlaRvDfflt......eegeivlnEvNtlPGf 178
                              +++++e++ ++q +  +a ++++l +++ vD++ +      + ++  + EvN  PG+
  PHY93_19240|PHY93_19240 394 IDMTDEIHPEVQSMCERAARIVGL-DICGVDLIAEdirlpmSVQSAGVIEVNAGPGL 449
                              567788888888888888888776.45555554430111113344556677777775 PP

>> GARS_A  Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   5.9e-05      0.13       2     100 ..     214     305 ..     213     324 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 5.9e-05
                              BHHHHHHHHHHTT--B--EEEESSHHHHHHHHHHHSSSEEEEEESC-GGGT-EEEESSHHHHHHHHHHHCTS-TTCCCCSSEEEEE CS
                   GARS_A   2 sKsfakdllkkagiptaeyeaftdpeeakeyieeatakalVvKadglaagKgvivakseeealkavkeilekkkfGeagekvviEe 87 
                              +K+ +k+ll++a i+ ++ +   + e+a+e+ ee   +   vK+     g+gv++  s+ e ++a+ ++ +       ++ v+iEe
  PHY93_19240|PHY93_19240 214 DKNLTKKLLEEASIRVPRGRPAYSLEDAREIQEEIPVPL-AVKPLDGNHGRGVSLHISTFEDMEAAFNLAR-----IHSDIVLIEE 293
                              7999**********************************9.99999999********999999999998886.....3468899*** PP

                              ---SEEEEEEEEE CS
                   GARS_A  88 lleGeEvsllalv 100
                               l+G++  +l  v
  PHY93_19240|PHY93_19240 294 CLKGKDYRILI-V 305
                              ****9987763.4 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (893 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       393  (0.0219198); expected 358.6 (0.02)
Passed bias filter:                      354  (0.0197445); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.69u 0.27s 00:00:00.96 Elapsed: 00:00:00.42
# Mc/sec: 6445.11
//
Query:       PHY93_19245|PHY93_19245  [L=238]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    6.7e-10   39.6   0.0    9.6e-10   39.1   0.0    1.2  1  Radical_SAM  Radical SAM superfamily
    4.5e-05   23.6   0.0    7.7e-05   22.8   0.0    1.4  1  Fer4_14      4Fe-4S single cluster domain
  ------ inclusion threshold ------
      0.012   15.9   0.2      0.036   14.3   0.0    1.7  2  Fer4_12      4Fe-4S single cluster domain
       0.37   10.6   3.3       0.77    9.6   3.3    1.5  1  zf-C2H2_11   zinc-finger C2H2-type


Domain annotation for each model (and alignments):
>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.1   0.0   2.1e-13   9.6e-10       3     121 ..     105     228 ..     103     234 .. 0.95

  Alignments for each domain:
  == domain 1  score: 39.1 bits;  conditional E-value: 2.1e-13
                              EESEESS--TTTSCCTT......HHHHHHHHHHHHHHHHHHHHHHHHHTTSEEEEEESSTGGGSTTHHHHHHHHHHTC....CCTE CS
                              xxxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxx RF
              Radical_SAM   3 vtrgCnlrCsfCarpet......vrregrgrslsveeileevkelkaekgvkevilgggepllypdfvellerlakla....vpgi 78 
                               + gC+++CsfC+++++      +++e  g+++   + le v  lk  +  + v++g gepl ++d+v  + + + +        +
  PHY93_19245|PHY93_19245 105 SQVGCAMKCSFCYTGTMglsrhlKSSEIIGQYIVAAKYLENVLGLK-TMAPNIVFMGQGEPLHNADEVLNAIKVMMEPlglgMGPR 189
                              689************99****************************5.666************************************ PP

                              EEEEEECSSCHGHHHHHHHHHTT-SEEEEEEBSSSHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM  79 ritvetngtlpdeeklerllelgvdrvslgleaaddekvlklm 121
                               +t++t g+lp    +++l + +   ++l+l+++ ++ ++k +
  PHY93_19245|PHY93_19245 190 QMTLSTAGYLP---GIKKLNDFPKINIALSLHSPFND-IRKEL 228
                              ***********...9**********************.98865 PP

>> Fer4_14  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.8   0.0   1.7e-08   7.7e-05       7      77 ..     108     181 ..     104     223 .. 0.63

  Alignments for each domain:
  == domain 1  score: 22.8 bits;  conditional E-value: 1.7e-08
                  Fer4_14   7 gCnlsCkgCd.......nketwkselgkpqteelleqilk.dlkkseikiqglvltG.GePLhyenkkellklvkrlkee 77 
                              gC ++C +C+       + +   ++++ + ++ +  + l+  l  + ++++ +v++G GePL  +n +e+l+ +k + e 
  PHY93_19245|PHY93_19245 108 GCAMKCSFCYtgtmglsR-H--LKSSEIIGQYIVAAKYLEnVLGLKTMAPN-IVFMGqGEPL--HNADEVLNAIKVMMEP 181
                              9*********44443321.1..11222223333333333322344556666.**********..6899999988877665 PP

>> Fer4_12  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0      0.76   3.4e+03      25      53 ..      13      41 ..      10      53 .. 0.74
   2 ?   14.3   0.0     8e-06     0.036      13      77 ..     107     176 ..      96     186 .. 0.67

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 0.76
                  Fer4_12 25 ketwsfksgkeftkelleeiiedlkkesi 53
                             +e++ f sg++ +++l   i+++l k+++
  PHY93_19245|PHY93_19245 13 EELKFFLSGNDLSTDLSTTIFRNLYKNNK 41
                             56777778888888888888888766554 PP

  == domain 2  score: 14.3 bits;  conditional E-value: 8e-06
                  Fer4_12  13 sgCnlsCkgCfnketw...sfksgkeft.kelleeiiedlk..kesiegltllG.GEPllpenaeallelvk 77 
                               gC ++C++C+   +      ks++ +    ++++ +e++   k+  + ++++G GEPl+  na+++l+ +k
  PHY93_19245|PHY93_19245 107 VGCAMKCSFCYTGTMGlsrHLKSSEIIGqYIVAAKYLENVLglKTMAPNIVFMGqGEPLH--NADEVLNAIK 176
                              59*********655433334455555532233333344433124777*************..9999888776 PP

>> zf-C2H2_11  zinc-finger C2H2-type
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   3.3   0.00017      0.77       8      24 ..     111     127 ..     101     128 .. 0.91

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.00017
               zf-C2H2_11   8 leCGlcftSqlsLsRHl 24 
                              ++C  c+t  + LsRHl
  PHY93_19245|PHY93_19245 111 MKCSFCYTGTMGLSRHL 127
                              58**************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (238 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       445  (0.0248201); expected 358.6 (0.02)
Passed bias filter:                      399  (0.0222544); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.44u 0.19s 00:00:00.63 Elapsed: 00:00:00.36
# Mc/sec: 1963.65
//
Query:       PHY93_19250|PHY93_19250  [L=135]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.082   11.4   0.7      0.099   11.2   0.7    1.1  1  FUSC      Fusaric acid resistance protein family


Domain annotation for each model (and alignments):
>> FUSC  Fusaric acid resistance protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.7   5.5e-06     0.099     393     471 ..       5      85 ..       1      93 [. 0.84

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 5.5e-06
                     FUSC 393 apallqfligtllavlaallllfvvlPhvdg.fplLvlvl.applllgglllarprlagiglglavffalllapqnamtyd 471
                              +++++   + +l++ +a +++ f + Ph ++ f  L+++  +p+++l+++ll  prl + +   ++ ++ +++ +  ++ +
  PHY93_19250|PHY93_19250   5 KKLTWLNYFICLIGFVAEIVFAFKLDPHENSiFIFLIVWGtLPLITLLLFLLKTPRLLYSMSRSLIQTSAVVGFGIIYKIN 85 
                              56777778899********************9877777764788889999*********9999999999999888777666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (135 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       578  (0.0322383); expected 358.6 (0.02)
Passed bias filter:                      232  (0.0129399); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 1026.09
//
Query:       PHY93_19255|PHY93_19255  [L=186]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.15   12.4   0.0       0.29   11.6   0.0    1.4  1  Rimk_N    RimK PreATP-grasp domain


Domain annotation for each model (and alignments):
>> Rimk_N  RimK PreATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   1.6e-05      0.29      18      69 ..      49     100 ..      33     117 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 1.6e-05
                   Rimk_N  18 LveaaekrghevevldplrcylkieaekpevyykgekleefdavipRigasi 69 
                               v  +  +g +++v +  + ++ i++++ +v++k++k ++ d++i +i ++i
  PHY93_19255|PHY93_19255  49 YVGTMDLEGKSARVDNDADQDMVIQNQSGNVVIKNNKGQKADIIIGKITEEI 100
                              55666677888999999999****************************7766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (186 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       759  (0.0423336); expected 358.6 (0.02)
Passed bias filter:                      433  (0.0241508); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.38
# Mc/sec: 1464.65
//
Query:       PHY93_19260|PHY93_19260  [L=524]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.9e-39  133.4  38.2    2.6e-36  125.0  24.0    3.8  2  MCPsignal      Methyl-accepting chemotaxis protein (MCP) sign
      5e-08   32.3   6.9      5e-08   32.3   6.9    2.8  3  Vps53_N        Vps53-like, N-terminal
  ------ inclusion threshold ------
      0.017   14.5   0.3      0.032   13.7   0.3    1.4  1  EII-Sor        PTS system sorbose-specific iic component
      0.037   14.6   0.0       0.17   12.5   0.0    2.1  1  DUF5398        Family of unknown function (DUF5398)
      0.075   12.8  11.8        0.6    9.9   3.0    2.6  2  DUF3540        Protein of unknown function (DUF3540)
        3.5    7.3   8.7       0.14   11.9   0.6    2.7  3  TrbL           TrbL/VirB6 plasmid conjugal transfer protein


Domain annotation for each model (and alignments):
>> MCPsignal  Methyl-accepting chemotaxis protein (MCP) signalling domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.3   6.2   0.00031      0.92     131     171 ..     227     267 ..     169     271 .. 0.85
   2 !  125.0  24.0   8.6e-40   2.6e-36       6     172 .]     284     479 ..     279     479 .. 0.88

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.00031
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal 131 keiveavaevadlvqeiaaaseeqsasieevnqaveevakv 171
                               e+ +a +++a++ +e+++a++eq+as++e+++++ee++++
  PHY93_19260|PHY93_19260 227 GEVMSASQQIASSAEELSQATTEQAASLQETSSSIEEISSM 267
                              46778889999999999999999999999999999999875 PP

  == domain 2  score: 125.0 bits;  conditional E-value: 8.6e-40
                              HHHHHHHHHHHHHHHHHHHHHHHHHH.....................HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCCCHHH CS
                MCPsignal   6 easeeAeeggkevanvvkqmeeieks.....................skeisdiieVideiadQTNlLALNAaiEAARAGeqGrGF 70 
                              ++ ++Ae+g+ +v++++k++ +i++s                      +ei + ++Vi++i +QT lL  NA++EAARAGeqG+GF
  PHY93_19260|PHY93_19260 284 QSLSTAERGKIVVEHMIKAIGDINTSntgimnqinetnkeienivniINEIGNKTKVINDIVFQTKLLSFNASVEAARAGEQGKGF 369
                              6778899999999999999999999999999999999999888888789999999******************************* PP

                              HHHHHHHHHHHHHHHHHHHHHHHH.......H...............HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal  71 aVVAdEVrkLAersaqaakeieal.......iieiqkeindsv.esleetrqrveegselveetgealkeiveavaevadlvqeia 148
                              aVVA+EV +LA+ s  aa ei+++       +++i++++++ + + + + +++ve+g+  ++e +e+l+eiv++va+v+ l++ei+
  PHY93_19260|PHY93_19260 370 AVVAEEVGNLASMSGAAALEITNMldgsiitVEAIVRDSKEKIgKLILNGKEKVETGTRVAHECEEVLNEIVSSVASVSMLISEIS 455
                              *********************98644442223456666554441567899************************************ PP

                              HHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal 149 aaseeqsasieevnqaveevakvt 172
                              +aseeq++++ e+++a++++++vt
  PHY93_19260|PHY93_19260 456 TASEEQAQGVREITKAIAQLDQVT 479
                              *********************996 PP

>> Vps53_N  Vps53-like, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   1.6     0.036   1.1e+02      26      81 ..     214     269 ..     200     281 .. 0.61
   2 ?   -1.2   7.8      0.25   7.6e+02      18      96 ..     252     333 ..     241     374 .. 0.78
   3 !   32.3   6.9   1.7e-11     5e-08      17     129 ..     395     508 ..     385     512 .. 0.93

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.036
                  Vps53_N  26 likklqeeikklddeiksvvraqanvgekgkealeeaqkaieelfqkikeikdkae 81 
                               i k+ +++     e+ s+ ++ a+++e+  +a +e  ++++e +++i+ei +  +
  PHY93_19260|PHY93_19260 214 AISKVAGSLLGSAGEVMSASQQIASSAEELSQATTEQAASLQETSSSIEEISSMVN 269
                              55566666666666666667777777777777777777777777777777765432 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 0.25
                  Vps53_N  18 qslanidelikklqeeikklddeik..svvr.aqanvgekgkealeeaqkaieelfqkikeikdkaekseemvkeitrdIkq 96 
                              +sl++  + i+++   ++   ++ k  svv  ++++++e+gk  +e++ kai ++  + + i ++ +++++ +++i + I++
  PHY93_19260|PHY93_19260 252 ASLQETSSSIEEISSMVNANTENAKqsSVVSgQSLSTAERGKIVVEHMIKAIGDINTSNTGIMNQINETNKEIENIVNIINE 333
                              5777777777777777765444443114555145689999999999999999999999999999999999999998877765 PP

  == domain 3  score: 32.3 bits;  conditional E-value: 1.7e-11
                  Vps53_N  17 eqslanidelikklqeeikklddeiksvvraqanvgekgkealeeaqkaieelfqkikeikdkaekseemvkeitrdIkqLD.iAK 101
                              + s+  ++ +++  +e+i kl  + k+ v++ + v+++ +e l+e+ +++ +++  i+ei + +e+  + v+eit+ I qLD +  
  PHY93_19260|PHY93_19260 395 DGSIITVEAIVRDSKEKIGKLILNGKEKVETGTRVAHECEEVLNEIVSSVASVSMLISEISTASEEQAQGVREITKAIAQLDqVTM 480
                              568889999*************************************************************************4578 PP

                  Vps53_N 102 knlttsiTtlkrLkmLvtaveslealls 129
                              +n t s    +   mL t  e+l++l++
  PHY93_19260|PHY93_19260 481 QNSTNSAESANAAGMLSTQAEQLNVLVQ 508
                              *************************987 PP

>> EII-Sor  PTS system sorbose-specific iic component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.3   1.1e-05     0.032     121     187 ..     168     232 ..     157     233 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1.1e-05
                  EII-Sor 121 dkaaekgnlkkierlhlllplllglllrfipvflalyfgaeavqallnaipewllkgLsvaGglLpa 187
                               + a+k+  + ++ ++    +l+++++   +vfl l++g+ +++ + +ai +++ + L  aG+++ a
  PHY93_19260|PHY93_19260 168 SEQAAKKTQDSLNKMK--EQFLITIVFVLTIVFLSLFVGQYMISLITKAISKVAGSLLGSAGEVMSA 232
                              3444444444444333..4456777777899*********************************987 PP

>> DUF5398  Family of unknown function (DUF5398)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   5.7e-05      0.17      10      56 ..      33      79 ..      26      87 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 5.7e-05
                  DUF5398 10 gekseeflfelEkdlkdvkkakeikqkvesriqkikeaLReGenkee 56
                             + ++e+ l  lE dl+ v+k  +ik+    +iq+ k+++  G+n e 
  PHY93_19260|PHY93_19260 33 ESQAEKNLIYLETDLRAVQKIGNIKALFGLQIQEWKNIIIRGANVEA 79
                             5678888999*****************************99999876 PP

>> DUF3540  Protein of unknown function (DUF3540)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   3.0    0.0002       0.6      82     167 ..     231     315 ..     214     332 .. 0.85
   2 ?    7.6   1.6     0.001       3.1     107     172 ..     424     489 ..     398     513 .. 0.90

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.0002
                  DUF3540  82 eaakavalaaaeeldlaaerlkvsaekaevaveelsllgeeleakvekvrlvaksvesvvdrltqrakrsfRrveeveqvragrid 167
                              +a++++a ++aeel+ a+++ + s ++   ++ee+s + +  + +++++++v+ +  s+++r + +++++++ + ++++ + g ++
  PHY93_19260|PHY93_19260 231 SASQQIA-SSAEELSQATTEQAASLQETSSSIEEISSMVNANTENAKQSSVVSGQSLSTAERGKIVVEHMIKAIGDINTSNTGIMN 315
                              3333443.67899999999999999999**********************************************999998877655 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.001
                  DUF3540 107 ekaevaveelsllgeeleakvekvrlvaksvesvvdrltqrakrsfRrveeveqvragridyqaee 172
                              e+++ +++e++ + +e+ ++v++v++  +++ +  +  +q ++++ + +++++qv+ ++    ae 
  PHY93_19260|PHY93_19260 424 ETGTRVAHECEEVLNEIVSSVASVSMLISEISTASEEQAQGVREITKAIAQLDQVTMQNSTNSAES 489
                              56667788999999******************************************9998887775 PP

>> TrbL  TrbL/VirB6 plasmid conjugal transfer protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.6   4.5e-05      0.14      57     137 ..     143     220 ..     134     227 .. 0.76
   2 ?    0.2   6.2      0.18   5.3e+02      29     102 ..     188     264 ..     187     289 .. 0.65
   3 ?   -1.7   0.3      0.69   2.1e+03      53      65 ..     473     485 ..     434     519 .. 0.44

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 4.5e-05
                     TrbL  57 eaaggallssagsstsptldql...gldvadklleqasslsffsniggilagllawlgvlllflvaavvlllakialalllalg 137
                              ++a +a+ + + +     ld+l     ++  ++ +++++ +  ++++  +++ ++++++++++ + ++++++++i+ a+  ++g
  PHY93_19260|PHY93_19260 143 AEADNAVKGLDRK----VLDSLtmlDNKISEQAAKKTQDSL--NKMKEQFLITIVFVLTIVFLSLFVGQYMISLITKAISKVAG 220
                              5555555555433....344443337778888888888888..********************************999877666 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.18
                     TrbL  29 lklgliaalatnwggyativvdsfaglpeaaggallssagsstsp..tldqlgldvadklleqassls.ffsniggi 102
                              ++++++++++       ++++++++++ ++++g+ll+sag   s   ++++ + ++ ++  eqa+sl  ++s i+ i
  PHY93_19260|PHY93_19260 188 ITIVFVLTIVFLSLFVGQYMISLITKAISKVAGSLLGSAGEVMSAsqQIASSAEELSQATTEQAASLQeTSSSIEEI 264
                              45566666655544444467777777445555555554444443346888887777777788877777655555555 PP

  == domain 3  score: -1.7 bits;  conditional E-value: 0.69
                     TrbL  53 aglpeaaggalls 65 
                              a+l+    + +++
  PHY93_19260|PHY93_19260 473 AQLDQVTMQNSTN 485
                              2222222222222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (524 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2744  (0.153048); expected 358.6 (0.02)
Passed bias filter:                      886  (0.0494171); expected 358.6 (0.02)
Passed Vit filter:                       100  (0.00557756); expected 17.9 (0.001)
Passed Fwd filter:                        25  (0.00139439); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.87u 0.24s 00:00:01.10 Elapsed: 00:00:00.41
# Mc/sec: 3861.74
//
Query:       PHY93_19265|PHY93_19265  [L=125]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (125 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       548  (0.030565); expected 358.6 (0.02)
Passed bias filter:                      390  (0.0217525); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.37
# Mc/sec: 1024.17
//
Query:       PHY93_19270|PHY93_19270  [L=458]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    9.6e-20   71.0   0.1    5.7e-10   38.9   0.1    2.1  2  Aldo_ket_red   Aldo/keto reductase family
  ------ inclusion threshold ------
      0.084   13.1   0.2        4.2    7.6   0.2    2.5  2  Ribosomal_S30  Ribosomal protein S30
       0.68    9.8   3.5       0.75    9.6   0.9    2.3  2  Peptidase_M10  Matrixin


Domain annotation for each model (and alignments):
>> Aldo_ket_red  Aldo/keto reductase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.0   0.0   4.9e-11   2.9e-07       3      56 ..      54     113 ..      52     125 .. 0.80
   2 !   38.9   0.1   9.5e-14   5.7e-10      83     280 ..     207     447 ..     200     457 .. 0.77

  Alignments for each domain:
  == domain 1  score: 30.0 bits;  conditional E-value: 4.9e-11
                              EEE-SSS-ST........TS-HHHHHHHHHHHHHTT--EEE--TT-TTTHHHHHHHHHHHH CS
             Aldo_ket_red   3 glGtwqlgsk.......eeiskeealellrraleaGinffDtAevYgkgqseellGealkk 56 
                              ++Gt +l +         ++++ee +++l+ a++ Gin+fDt+++Y  g+ e+ lG++l  
  PHY93_19270|PHY93_19270  54 IMGTDHLLQSdwtkngqPAMPEEEFAKVLDEAVKLGINLFDTSPIY-VGSVENRLGKWLDT 113
                              56666555444555555789999***********************.9999999*****98 PP

  == domain 2  score: 38.9 bits;  conditional E-value: 9.5e-14
                              HHHHHHHHHHHHHHHT-S-EEEEEE-S--TTS-...........HHHHHHHHHHHHHTTSEEEEEEES--HHHHHHH....HHTTT CS
             Aldo_ket_red  83 keniresleeslkrLgtdyvDllllHrpdpslp..........sieevldaleelvkeGkiraiGvSnfsveqleka....kkkkk 154
                              k ++ e+++ s  +L+ + + ++l+Hr d ++            + ++++al     + k   +G Sn+  e++ +     k ++ 
  PHY93_19270|PHY93_19270 207 KGRVAEEINHSSNQLN-QDITIYLMHRDDGDYLkfekverdqtPVQDIMEALSAPEISSKYWMVGWSNWKTERINESlklsKMHSD 291
                              6789999*********.8999*********99999999997776777777777777799999********7777777698866666 PP

                              --.EEEEE-B-BTT...........-HHHHTTHHHHHHH........TT-EEEEBSTTGGGTTGTTTSS---SSSCCC-------. CS
             Aldo_ket_red 155 vk.ivavqveynll...........releeegllelckk........kgvpliaysplggGlltgkyqseedkedkeprkdlkrd. 219
                              ++ ++ +   ++l+                    ++ ++        kg++ + ysplgg ++  k ++  +  +k++++++ r  
  PHY93_19270|PHY93_19270 292 LTlPALNSSYFSLFemsertihaggV--------QVTHEemntpdfqKGIKQMSYSPLGGFSFFDKPEPRWENAKKDAKEKFDRGd 369
                              66577788888888999644444443........43333355566658***********977776666665555666666666558 PP

                              ............TS-HHHHHHHHHHHH.HHHHTT-..-HHHHHHHHHTTSTT-SEEEE--SSHHHHHHHHGGGG-..- CS
             Aldo_ket_red 220 ............ertsknldaaeelse.lakehgv..slaqlalryalsqpavgivipgasnieqlednldalel..k 280
                                          e+++ ++d++ e+ e + keh+   s+ q++ +yal+++++ ++ +g+ ++eql+ +++al+l   
  PHY93_19270|PHY93_19270 370 aywqnvynaiftETNKTRYDRVVEFTEkFNKEHNSnySIDQMVNAYALAHKRTDFLTVGPITVEQLRRTVGALKLssM 447
                              9**********97777777777666541444455446************************************66444 PP

>> Ribosomal_S30  Ribosomal protein S30
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.8   0.0     0.024   1.4e+02      12      20 ..      21      29 ..      15      34 .. 0.84
   2 ?    7.6   0.2    0.0007       4.2      20      47 ..     357     385 ..     352     396 .. 0.82

  Alignments for each domain:
  == domain 1  score: 2.8 bits;  conditional E-value: 0.024
                             HHHHS---- CS
            Ribosomal_S30 12 VrnqTPKve 20
                             V+nqT Kv 
  PHY93_19270|PHY93_19270 21 VKNQTRKVS 29
                             9******97 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0007
                              ----.------THHHHHHHHHHHTTSSS- CS
            Ribosomal_S30  20 eKqe.kkKkptGRakkRlqYnrRfvnvvv 47 
                              +K++ k+K  +G a+++  Yn  f ++ +
  PHY93_19270|PHY93_19270 357 AKKDaKEKFDRGDAYWQNVYNAIFTETNK 385
                              57766****************99988544 PP

>> Peptidase_M10  Matrixin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.1       0.3   1.8e+03      47      69 ..     220     242 ..     211     254 .. 0.77
   2 ?    9.6   0.9   0.00012      0.75      20      76 ..     358     419 ..     345     428 .. 0.83

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.3
                              SSCESEEEEEESSSSSSSSSXBS CS
                              xxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M10  47 kgeadikieFgrgehgdgypfdg 69 
                              + + di+i  +++++gd  +f+ 
  PHY93_19270|PHY93_19270 220 QLNQDITIYLMHRDDGDYLKFEK 242
                              55688999999999988888875 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 0.00012
                              HHHHHHHHHHHHHHHHTTSSSEEEEESSSCESEEEEEE...SSSSSSSSSXBSSSS..ESEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxx..xxxx RF
            Peptidase_M10  20 eeevrkairrAfkvwsevtplkFtevkkgeadikieFg...rgehgdgypfdgkgg..vlah 76 
                              +++ ++++ r  + w++v +  Fte++k++ d  +eF+   ++eh+ +y++d+  +   lah
  PHY93_19270|PHY93_19270 358 KKDAKEKFDRGDAYWQNVYNAIFTETNKTRYDRVVEFTekfNKEHNSNYSIDQMVNayALAH 419
                              56677888888899***********************9666789999*****9887334555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (458 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       661  (0.0368676); expected 358.6 (0.02)
Passed bias filter:                      454  (0.0253221); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.37
# Mc/sec: 3717.45
//
Query:       PHY93_19275|PHY93_19275  [L=684]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (684 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       166  (0.00925874); expected 358.6 (0.02)
Passed bias filter:                      101  (0.00563333); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.55u 0.20s 00:00:00.75 Elapsed: 00:00:00.39
# Mc/sec: 5318.62
//
Query:       PHY93_19280|PHY93_19280  [L=1520]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    3.8e-37  128.3   0.0    8.9e-37  127.1   0.0    1.7  1  AAA_16       AAA ATPase domain
    1.4e-33  116.4   0.1    3.1e-33  115.3   0.1    1.6  1  Pkinase      Protein kinase domain
    2.6e-22   79.3   0.0    5.2e-22   78.4   0.0    1.5  1  Pkinase_Tyr  Protein tyrosine kinase
    7.7e-11   42.5   0.0    1.8e-10   41.2   0.0    1.7  1  GAF_2        GAF domain
    2.3e-08   34.7   0.0    5.2e-08   33.6   0.0    1.6  1  GAF          GAF domain
    3.9e-06   26.8   4.3    4.5e-06   26.7   2.0    2.5  2  HisKA_2      Histidine kinase
      3e-05   24.4   0.3    8.2e-05   23.0   0.0    1.9  2  GAF_3        GAF domain
     0.0007   19.0   0.0     0.0014   18.1   0.0    1.4  1  Kinase-like  Kinase-like
      0.003   17.8   0.0      0.025   14.8   0.0    2.5  1  AAA_22       AAA domain
  ------ inclusion threshold ------
      0.023   15.4   0.3      0.089   13.5   0.3    2.1  1  HWE_HK       HWE histidine kinase
       0.12   12.4   0.4        0.4   10.7   0.4    1.9  1  MalF_P2      Maltose transport system permease protein MalF P


Domain annotation for each model (and alignments):
>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  127.1   0.0   5.4e-40   8.9e-37       2     170 .]     303     491 ..     302     491 .. 0.94

  Alignments for each domain:
  == domain 1  score: 127.1 bits;  conditional E-value: 5.4e-40
                   AAA_16   2 lvGReeeleqLlsalervrsgrpelvllsGesGvGKsslvrellralekdggiflrgkcdqlesaipysalaqalareellrqlld 87 
                               vGR++e + +ls++e+v+sg  +++++sG sG+GK++l++el++++ k++g+f++gk+d ++++ipys l+qa+ r  l+r  l+
  PHY93_19280|PHY93_19280 303 MVGRDHEAQNILSCYEQVASGHFRSMFISGFSGIGKTRLIQELQKPIIKRRGYFTSGKFDVYQKNIPYSSLLQAF-R-NLVRIFLT 386
                              69*************************************************************************.7.******** PP

                   AAA_16  88 eaesaeleawrekleeala.....................avpelagaea.srllellkrllallsrderplvlvlDdlqwadeas 151
                              e++   + +w+ek++ a++                       + l++ ea +r+++++ ++l+ +++de plvl++Ddlqw d as
  PHY93_19280|PHY93_19280 387 ESDI-RVVQWKEKILNAVGdqgqvlievipeleiligpqeHLDVLPPVEArNRFNRVFENFLKSIASDENPLVLFIDDLQWCDLAS 471
                              *888.9999*********************999999988877888888889***********777777****************** PP

                   AAA_16 152 lqllaaLlrllesk.pllvv 170
                               ++l + + +++ + +l+++
  PHY93_19280|PHY93_19280 472 FEFLTNVFNNSNENsYLFFI 491
                              *****999999886588776 PP

>> Pkinase  Protein kinase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  115.3   0.1   1.9e-36   3.1e-33       1     258 [.       7     263 ..       7     269 .. 0.89

  Alignments for each domain:
  == domain 1  score: 115.3 bits;  conditional E-value: 1.9e-36
                              EEEEEEEEEESSEEEEEEEETTT.TEEEEEEEEECHCHCHHHHHHHHHHHHHHHHHSCTTB--EEEEEEESSEEEEEEE--TTEBH CS
                  Pkinase   1 yekleklGeGsfGkVykaveket.gkivAvKkikkekakkkkekkvlrEikilkklkhpnivrlyevfeekdelylvleyveggel 85 
                              y+ le lGeG  +kV+k+++++  +ki ++K +k  +++k+++k +l+ i+ lk l+ pn +  +++ ++ d+ ++  ey +g +l
  PHY93_19280|PHY93_19280   7 YTILELLGEGPRSKVFKGYHNDMpNKILCIKSFKAFQITKSEQKYYLQKIEQLKILNDPNFLIPLNFKSSGDSWFITREYFDGITL 92 
                              678999*************98754899*********************************************************** PP

                              HHHHHHHSS--HHHHHHHHHHHHHHHHHHHHTTEE-SS-SGGGEEEE.TTTEEEE-SGTTSEESSSSCS....BCTTTSCGGGS-H CS
                  Pkinase  86 adllerkgslseeeakkiakqilegleylHskgiiHrDlKpeNiLid.ekgelKitDFGlakelesssk....ltsfvgtseYlAP 166
                              ++++er+++l+ ++  +ia  ++  ++ +H++giiH  +Kp+NiLi+ ++  +Ki+DF     +++ s+    ++ +  t  Y +P
  PHY93_19280|PHY93_19280  93 DQFIERQKKLEINKFLDIAIILCDLIDVIHQMGIIHGSIKPHNILINpSSLIIKIVDFVSPLDVRNISHfiydKDFVQSTLAYTSP 178
                              ***********************************************66666*******99999999999987777889******* PP

                              HHHTTSCB..SHHHHHHHHHHHHHHHHHSS-STTTSSHHHHHHHHHHTHHHHHHHCTSHH...HHHTTS-HHHHHHHHHHT-SSGC CS
                  Pkinase 167 Evlkeney..skkvDvWslGvilyelltgkppfsgekgkekvekeldqlekilkilgetkeklpeaseiseeakdllkkllkkdpk 250
                              E  ++ +y  + ++D++slG+++ye+l+gk p+++e+  e    +++   +++   ++ +   + +s++++ + d+++k+++k p+
  PHY93_19280|PHY93_19280 179 EQTGRINYrvDFTTDIYSLGIVFYEMLAGKLPYNSEDPLE----MIHY--HMA---KDATPIDQLNSKVPHIISDIISKMMSKRPE 255
                              ***877776799**********************555544....3333..222...3455677888999999************** PP

                              CSTTHHHH CS
                  Pkinase 251 kRltaeel 258
                              +R+  ++ 
  PHY93_19280|PHY93_19280 256 QRYQTANG 263
                              **987665 PP

>> Pkinase_Tyr  Protein tyrosine kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.4   0.0   3.2e-25   5.2e-22       3     250 ..       9     258 ..       7     264 .. 0.87

  Alignments for each domain:
  == domain 1  score: 78.4 bits;  conditional E-value: 3.2e-25
                              EEEEEEEESSEEEEEEEEETTTTSSEEEEEEEEEST.TSSHHHHHHHHHHHHHHHTS-BTTB--EEEEEESSSSEEEEEE--TTEB CS
              Pkinase_Tyr   3 lgkklGeGafGkVvegtlkgekekkevkVavKtlke.eateeekeelleeakimkklkhpnivkllgvctkeepllivteyvkgGd 87 
                              + + lGeG  +kV++g+ +   +  +    +K++k+ + t++e++  l+ ++ +k l+ pn +  l + +++++ +i  ey +g +
  PHY93_19280|PHY93_19280   9 ILELLGEGPRSKVFKGYHN---DMPNKILCIKSFKAfQITKSEQKYYLQKIEQLKILNDPNFLIPLNFKSSGDSWFITREYFDGIT 91 
                              5688*************99...77778899****874778888999**************************************** PP

                              HHHHHHHTCTTTSBHHHHHHHHHHHHHHHHHHHHTTEEEST-SGGGEEEEETT.EEEE-STTTHEETTTSSEE.EETTSSTSGGGG CS
              Pkinase_Tyr  88 LlkfLrkkekekltlkdllsfalqvAkGmeyLeskklvHrdlaarNvLlsenk.vvkisDfGLardiekddey.vkkeeaklpvkW 171
                              L++f++++  +kl++++ l++a+ +++ ++ ++++ ++H  +   N+L++ ++ ++ki Df    d+ + ++  ++k+  +  + +
  PHY93_19280|PHY93_19280  92 LDQFIERQ--KKLEINKFLDIAIILCDLIDVIHQMGIIHGSIKPHNILINPSSlIIKIVDFVSPLDVRNISHFiYDKDFVQSTLAY 175
                              *******8..9***************************************75549*******9999988888768888899***** PP

                              S-HHHHHHSE..EEHHHHHHHHHHHHHHHHTTSSGTTTTSHHHHHHHHH..HTTEES-B.BTTSBHHHHHHHHHHT-SSGGGS- CS
              Pkinase_Tyr 172 mapEslkekk..ftsksDvWsfGvllwEiftlgespypglkneevlekl..kegkrlek.pekcpeelyelmkkcweedpeeRp 250
                              ++pE   + +  +   +D++s G++ +E++  g+ py++ ++ e++++   k+ + +++ ++k+p+ + ++++k ++++pe+R 
  PHY93_19280|PHY93_19280 176 TSPEQTGRINyrVDFTTDIYSLGIVFYEMLA-GKLPYNSEDPLEMIHYHmaKDATPIDQlNSKVPHIISDIISKMMSKRPEQRY 258
                              *****98777225678**************9.********99999888722444444442456777788888888888888886 PP

>> GAF_2  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.2   0.0   1.1e-13   1.8e-10       3     138 .]    1329    1473 ..    1327    1473 .. 0.84

  Alignments for each domain:
  == domain 1  score: 41.2 bits;  conditional E-value: 1.1e-13
                               HHHHHHHHHHHHHHHS.S..EEEEEEE-TTS-EEEE.......EEEES-TTSTT-S-B---TTHHHHHHHHTS-EEES-.GGG- CS
                    GAF_2    3 dleelldlvldelvel.gaalgyillvdddgglrla.......awgeaeeefgaaldrplgeglvgealrtgrpvilnd.leed 77  
                               +++ l++ ++d ++e  ga+lg ++++  +++l+++       + ++  ++ + + d++++++++ +++r++++++l++  +e 
  PHY93_19280|PHY93_19280 1329 NVDNLVKKIVDIMIESsGAQLGLLVVPK-NEELVILakndlkkVDTFFVKNYSLEKDQDVSQAIIRYVYRSQQEIVLDNaNQEG 1411
                               68899**********669****998855.3445555677777766677777777777788999****************78888 PP

                               S-HHHHHHHHHTT--EEEEEE-TTS---EEEEES........--HHHHHHHHHHHHHHHHHHH CS
                    GAF_2   78 pdkkglpaghaglrsflavPlisegrvvGvlnlyankppa..fdeedlelLeelaeqiaiaie 138 
                               + ++ +  ++ +l+s+l++Pl+s+ ++vGv+ l  n+  +  f   ++ l ++l++q+aia++
  PHY93_19280|PHY93_19280 1412 AFSNDSDVQRLKLKSILCLPLLSQSKIVGVIYLE-NRLVSsvFQSNQIKLTKLLSSQAAIALD 1473
                               8888888****************99*******94.4444468*******************96 PP

>> GAF  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.6   0.0   3.2e-11   5.2e-08       3     133 .]    1331    1472 ..    1329    1472 .. 0.75

  Alignments for each domain:
  == domain 1  score: 33.6 bits;  conditional E-value: 3.2e-11
                               HHHHHHHHHHHHHHHTESEEEEEEEEETTEEE....CEEEEECC......EEEET..TSHHHHHHHHHSSSEEESTGGTSTTHH CS
                      GAF    3 eelldtvveelrellgadrvalylpdydGlhy....dipqasrw......lfmkn..grgicgqvlatgqplvipdstpdprfa 74  
                               + l++++v+ + e  ga+ ++l  p+ + l      d+   +++      l+  +   + i+ +v++++q +v++++ +++ f+
  PHY93_19280|PHY93_19280 1331 DNLVKKIVDIMIESSGAQLGLLVVPKNEELVIlaknDLKKVDTFfvknysLEKDQdvSQAIIRYVYRSQQEIVLDNANQEGAFS 1414
                               566677777777777777777766433332113444444444445555542222234777999************999999999 PP

                               TTHHHHHHHHTTESEEEEEEEEETTEEEEEEEEEE...SSSCSHHHHHHHHHHHHHHHHHHH CS
                      GAF   75 qynrrdllenmgirsslvvPlvndgelwGllvlhn...psppftreelellqvladqvaval 133 
                               +    + +++   +s l++Pl+++ +++G+++l n    s  f+++++ l + l++q+a+al
  PHY93_19280|PHY93_19280 1415 N---DSDVQRLKLKSILCLPLLSQSKIVGVIYLENrlvSS-VFQSNQIKLTKLLSSQAAIAL 1472
                               9...67899**************************87444.6******************97 PP

>> HisKA_2  Histidine kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0       3.2   5.2e+03      51      74 ..    1119    1142 ..    1112    1143 .. 0.86
   2 !   26.7   2.0   2.8e-09   4.5e-06       1      20 [.    1501    1520 .]    1501    1520 .] 0.97

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 3.2
                  HisKA_2   51 yksedletvdfseylekLvenlfk 74  
                               y++ ++  +++++yl+ +++n++k
  PHY93_19280|PHY93_19280 1119 YDQAKIYFLEVEKYLSGMTDNVLK 1142
                               677889999**********99875 PP

  == domain 2  score: 26.7 bits;  conditional E-value: 2.8e-09
                  HisKA_2    1 EihHRvkNnLqvisslLslq 20  
                               Ei+HRvkNnLq+issl ++q
  PHY93_19280|PHY93_19280 1501 EINHRVKNNLQIISSLFNIQ 1520
                               9****************998 PP

>> GAF_3  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0       4.2   6.9e+03       1      27 [.     636     662 ..     636     686 .. 0.74
   2 !   23.0   0.0     5e-08   8.2e-05       6     129 .]    1334    1474 ..    1329    1474 .. 0.60

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 4.2
                    GAF_3   1 sldellekllkllvkllgaevgallll 27 
                              +l +++e++l++l ++l+      l+ 
  PHY93_19280|PHY93_19280 636 DLAQIVEITLRELFEMLRPALNQSLII 662
                              68899*********9999876655444 PP

  == domain 2  score: 23.0 bits;  conditional E-value: 5e-08
                    GAF_3    6 lekllkllvkllgaevgalllldedgnklqvaagwdgkpalse.....sldedsalar....ralssge.vvse.........p 70  
                               + k+++ + +  ga+ g l++  ++  +l++ a+ d k++  +     sl++d+ +++    +++ s++ +v           +
  PHY93_19280|PHY93_19280 1334 VKKIVDIMIESSGAQLGLLVVPKNE--ELVILAKNDLKKVDTFfvknySLEKDQDVSQaiirYVYRSQQeIVLDnanqegafsN 1415
                               5555555555555556555555555..444444333333222244455555555555544446666664133222222211111 PP

                    GAF_3   71 sfaeedglpdraalavPLvagrqviGvlalastkpra.fdaedlelleslArqiataier 129 
                               +  + ++l + ++l++PL ++++ +Gv++l+ +  ++ f++ +  l + l++q+a+a+++
  PHY93_19280|PHY93_19280 1416 D-SDVQRLKLKSILCLPLLSQSKIVGVIYLENRLVSSvFQSNQIKLTKLLSSQAAIALDN 1474
                               1.23467999********************76655555********************98 PP

>> Kinase-like  Kinase-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.0   8.3e-07    0.0014     131     286 ..      92     255 ..      85     257 .. 0.74

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 8.3e-07
              Kinase-like 131 lqkrsethkkletiarlllTlqlirlaanLqakglvhgkftvdnllldekg..........glmlggftaLvragtkvvlsevekg 206
                              l++  e++kkle+   l + + l  l+  +++ g++hg ++++n+l ++            +l ++++++ + +++ v+      +
  PHY93_19280|PHY93_19280  92 LDQFIERQKKLEINKFLDIAIILCDLIDVIHQMGIIHGSIKPHNILINPSSliikivdfvsPLDVRNISHFIYDKDFVQ---STLA 174
                              566667788888888888888899999*******************999752111111111444555555555555555...3478 PP

              Kinase-like 207 faPpEllgsrggytrknktkmthkldaWqlGlviyriwclklPltlateeakeew........kfklckkipekvkaLlkkfLqls 284
                              +  pE +g+        + ++ + +d + lG+v y + + klP +   ++  + +        + +l  k+p  +  ++ k++   
  PHY93_19280|PHY93_19280 175 YTSPEQTGR-------INYRVDFTTDIYSLGIVFYEMLAGKLPYNSEDPLEMIHYhmakdatpIDQLNSKVPHIISDIISKMMSKR 253
                              999***999.......45577899*************************9999997887766544444577777777777777665 PP

              Kinase-like 285 qe 286
                               e
  PHY93_19280|PHY93_19280 254 PE 255
                              55 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.0   1.5e-05     0.025       6     130 ..     326     493 ..     322     498 .. 0.70

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 1.5e-05
                   AAA_22   6 gilvvtGesGtGKTtllrrlleqldeeakaee....erpevvfvtlpsstsskdllrellralglelka................. 70 
                              +++++ G sG+GKT+l+++l++     +k +      + +v+  ++p s+ ++ +++ +  +l+++  +                 
  PHY93_19280|PHY93_19280 326 RSMFISGFSGIGKTRLIQELQKPI---IKRRGyftsGKFDVYQKNIPYSSLLQAFRNLVRIFLTESDIRvvqwkekilnavgdqgq 408
                              5789******************97...23333666634444444444444333333333333333333366666666666666667 PP

                   AAA_22  71 ..........................erlsseellealeqalraravielliiDEaqhlrseealeeLrsllnlsrkgvqliLvGt 130
                                                        +r++  +++e + + + +   + +l iD+ q     + +e+L + +n+s  +  l+++G 
  PHY93_19280|PHY93_19280 409 vlievipeleiligpqehldvlppveARNRFNRVFENFLKSIASDENPLVLFIDDLQWC-DLASFEFLTNVFNNSNENSYLFFIGA 493
                              799999999999**********88888888888887777777777778**********9.89999999999998666666666665 PP

>> HWE_HK  HWE histidine kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.3   5.4e-05     0.089       1      18 [.    1501    1518 ..    1501    1520 .] 0.93

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 5.4e-05
                               HHHHHHHHHHHHHHHHHH CS
                   HWE_HK    1 ElnHRvKNlLavvqsiar 18  
                               E+nHRvKN L +++s+++
  PHY93_19280|PHY93_19280 1501 EINHRVKNNLQIISSLFN 1518
                               99*************987 PP

>> MalF_P2  Maltose transport system permease protein MalF P2 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.4   0.00025       0.4       4     102 ..     769     868 ..     767     877 .. 0.87

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00025
                  MalF_P2   4 eraqavllertyqegesydFkLyeegdkyrLvlekgesgqllvsepltlkkaeeqkle.leeaeeepegekaplreiiqnrqaLsa 88 
                              ++a + l e++++++ +++++L+ +  k +L++ + +++++l+++ l+ +k+   k+e l+e+++  ++    +++i    + L  
  PHY93_19280|PHY93_19280 769 NKALNLLSEQSWESNYQLTYQLHIKLAKTELMVGRYATSEKLLTDLLNNAKSDLDKVEaLAEQTTSLSSIGNFIKAIETANKGLAY 854
                              68889999*****************************************6666666651566667778888889***99******* PP

                  MalF_P2  89 lelvlpdgeelrms 102
                              +e+++p+++el+ s
  PHY93_19280|PHY93_19280 855 FEMNIPENAELAKS 868
                              *********99865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1520 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       782  (0.0436165); expected 358.6 (0.02)
Passed bias filter:                      435  (0.0242624); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.96u 0.25s 00:00:01.21 Elapsed: 00:00:00.44
# Mc/sec: 10359.60
//
Query:       PHY93_19285|PHY93_19285  [L=189]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.4e-13   50.7   0.3    2.7e-13   49.8   0.3    1.5  1  HTH_3          Helix-turn-helix
    1.4e-10   41.3   0.0    2.3e-10   40.7   0.0    1.3  1  HTH_31         Helix-turn-helix domain
    1.5e-09   37.7   0.0    2.8e-09   36.9   0.0    1.4  1  HTH_19         Helix-turn-helix domain
      1e-07   31.5   0.2    1.6e-07   30.9   0.2    1.3  1  Cupin_2        Cupin domain
    2.1e-06   28.1   0.1    3.4e-06   27.4   0.1    1.4  1  HTH_26         Cro/C1-type HTH DNA-binding domain
    0.00012   22.0   0.1    0.00018   21.4   0.1    1.3  1  HTH_37         Helix-turn-helix domain
     0.0003   20.5   0.3     0.0025   17.5   0.2    2.2  2  HTH_38         Helix-turn-helix domain
     0.0028   17.5   0.0     0.0051   16.6   0.0    1.4  1  HTH_25         Helix-turn-helix domain
     0.0091   15.7   0.0      0.015   15.0   0.0    1.3  1  Cupin_3        Protein of unknown function (DUF861)
  ------ inclusion threshold ------
       0.02   15.0   0.0      0.035   14.2   0.0    1.4  1  Phage_CI_repr  Bacteriophage CI repressor helix-turn-helix do
      0.036   13.7   0.1      0.057   13.0   0.1    1.3  1  Cupin_1        Cupin
      0.042   13.8   0.4      0.094   12.6   0.1    1.7  2  AraC_binding   AraC-like ligand binding domain
       0.11   12.3   0.0       0.24   11.2   0.0    1.6  1  CDC48_2        Cell division protein 48 (CDC48), domain 2


Domain annotation for each model (and alignments):
>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.8   0.3   1.9e-16   2.7e-13       1      53 [.      17      69 ..      17      71 .. 0.93

  Alignments for each domain:
  == domain 1  score: 49.8 bits;  conditional E-value: 1.9e-16
                             HHHHHHHTTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHH CS
                    HTH_3  1 lkelRkqlglsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvsld 53
                             ++ lR  +gl+q++LA+++ v+rsti+++E+G +nPsl +l k++ aL +s++
  PHY93_19285|PHY93_19285 17 IQDLRSRRGLTQADLAKLAKVPRSTIANLESGTSNPSLINLAKISSALSTSIE 69
                             5678889*****************************************99987 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.7   0.0   1.7e-13   2.3e-10       2      57 ..      13      67 ..      12      73 .. 0.92

  Alignments for each domain:
  == domain 1  score: 40.7 bits;  conditional E-value: 1.7e-13
                   HTH_31  2 LGalLralReraGLsqeevAerlgvsestlsrlEqGrrgrpspavlealaralgld 57
                             L+++ ++lR r+GL+q+++A+++ v +st+  lE+G+  +ps+  l+++  al ++
  PHY93_19285|PHY93_19285 13 LAERIQDLRSRRGLTQADLAKLAKVPRSTIANLESGTS-NPSLINLAKISSALSTS 67
                             899***********************************.6***9999999998766 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.9   0.0     2e-12   2.8e-09       2      62 ..      15      74 ..      14      76 .. 0.96

  Alignments for each domain:
  == domain 1  score: 36.9 bits;  conditional E-value: 2e-12
                   HTH_19  2 erLkeaReelgltqeelaerlgisrskisaiEngkkdvpsaelllkiaealgidleyllqg 62
                             er++ +R+ +gltq++la+ +++ rs i+++E+g + +ps  +l ki+ al  ++e+ll+ 
  PHY93_19285|PHY93_19285 15 ERIQDLRSRRGLTQADLAKLAKVPRSTIANLESGTS-NPSLINLAKISSALSTSIEMLLTS 74
                             9*********************************99.**********************96 PP

>> Cupin_2  Cupin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.9   0.2   1.2e-10   1.6e-07      16      70 ..     128     183 ..     115     184 .. 0.84

  Alignments for each domain:
  == domain 1  score: 30.9 bits;  conditional E-value: 1.2e-10
                              SSSEE.EEEEEEESEEEEEECTEEEEEETTEEEEE-TT-EEEEEE-SSS-EEEEEE CS
                  Cupin_2  16 Hpged.effyVleGegeltvdgeeveleaGdsvyfpagtpHrfrNtgdeparllvv 70 
                              H   + e++++++Ge+ + v ge +++ +Gd++ fp    H ++N g++ a  l+v
  PHY93_19285|PHY93_19285 128 HAAGTkEYLHCIQGEFNIVVAGENYHVCKGDVLAFPGEIHHSYENVGKGKAIGLSV 183
                              433334*****************************************999988877 PP

>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.4   0.1   2.5e-09   3.4e-06       1      59 [.      16      73 ..      16      77 .. 0.94

  Alignments for each domain:
  == domain 1  score: 27.4 bits;  conditional E-value: 2.5e-09
                   HTH_26  1 kLrelmadrgitkseLargtgisaatlsrlvkgkpervsldtLdkiCdaLgctpgDLle 59
                             +++ l   rg+t+++La+ + + ++t+++l +g+ +++sl  L+ki  aL  +++ Ll+
  PHY93_19285|PHY93_19285 16 RIQDLRSRRGLTQADLAKLAKVPRSTIANLESGT-SNPSLINLAKISSALSTSIEMLLT 73
                             67888999*************************9.7******************99886 PP

>> HTH_37  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.4   0.1   1.3e-07   0.00018      18      61 ..      12      54 ..       5      73 .. 0.80

  Alignments for each domain:
  == domain 1  score: 21.4 bits;  conditional E-value: 1.3e-07
                             HHHHHHHHHHHHCT--HHHHHHHHT--HHHHHHHHTT--TT--H CS
                   HTH_37 18 qlalaiaeliekrelsqseaaqllgiaqPkvsrllrgklsrfsl 61
                              la +i++l+ +r+l+q+++a+l +++++ + +l+ g  s+ sl
  PHY93_19285|PHY93_19285 12 NLAERIQDLRSRRGLTQADLAKLAKVPRSTIANLESG-TSNPSL 54
                             68889*****************************975.444455 PP

>> HTH_38  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.2   1.8e-06    0.0025       9      39 ..      15      44 ..      10      45 .. 0.88
   2 ?    0.1   0.0      0.49   6.8e+02      15      27 ..     175     187 ..     171     188 .. 0.85

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 1.8e-06
                   HTH_38  9 eReeIerll.aeGlslreIArrLgrspsTIsR 39
                             eR  I++l+  +Gl++++ A++ ++ +sTI++
  PHY93_19285|PHY93_19285 15 ER--IQDLRsRRGLTQADLAKLAKVPRSTIAN 44
                             55..****945*******************86 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.49
                   HTH_38  15 rllaeGlslreIA 27 
                              ++ a Gls+ +IA
  PHY93_19285|PHY93_19285 175 KGKAIGLSVVAIA 187
                              67789*******9 PP

>> HTH_25  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   3.7e-06    0.0051       3      35 ..      18      50 ..      16      53 .. 0.91

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 3.7e-06
                             HHHHHTTT--HHHHHHHSS--HHHHHHHHCT-- CS
                   HTH_25  3 raaRearglsleevaketkIrkdylealEeddf 35
                             +  R +rgl+  ++ak  k++ +++  lE++ +
  PHY93_19285|PHY93_19285 18 QDLRSRRGLTQADLAKLAKVPRSTIANLESGTS 50
                             678**************************9975 PP

>> Cupin_3  Protein of unknown function (DUF861)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   1.1e-05     0.015      24      57 ..     131     163 ..     125     173 .. 0.91

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 1.1e-05
                              SSEEEEEEEECEEEEEETTTEEEEEETTEEEEE- CS
                  Cupin_3  24 eedEfcyileGevkvtpeggetvelraGDlvvlp 57 
                              +++E+ + ++Ge  +++  ge +++ +GD++ +p
  PHY93_19285|PHY93_19285 131 GTKEYLHCIQGEFNIVV-AGENYHVCKGDVLAFP 163
                              679**************.***************9 PP

>> Phage_CI_repr  Bacteriophage CI repressor helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   2.5e-05     0.035      11      61 ..      25      75 ..      15      78 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 2.5e-05
                             T-SSCHHHHCCTT--HHHHHHHHHSSS--.HHHHHHHHHHH---HHHHHC-S CS
            Phage_CI_repr 11 gvkmqkeLAdlLgiakssvstwvrRdffP.gdvvvtcaletdtsLewLatGk 61
                             g   q +LA+l+ +++s+++++ +  ++P    + +++ ++ ts+e L+t+ 
  PHY93_19285|PHY93_19285 25 GLT-QADLAKLAKVPRSTIANLESGTSNPsLINLAKISSALSTSIEMLLTSP 75
                             554.55***********************7777999*************986 PP

>> Cupin_1  Cupin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.1   4.1e-05     0.057      48     110 ..     127     181 ..     120     188 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 4.1e-05
                              EEEESSS-EEEEEEESEEEEEEEETTSS.EEEEEEEETTEEEEE-TT-EEEEEEESSSSEEEE CS
                  Cupin_1  48 PhyhpnateiayvlqGegrvgfvvpgngnrdfhkklreGdvfvvPaglvhfqynsgdepavai 110
                              Ph    + e + ++qGe    +vv g+     +  +++Gdv+++P  + h   n g+ +a  +
  PHY93_19285|PHY93_19285 127 PHAA-GTKEYLHCIQGEFN--IVVAGE-----NYHVCKGDVLAFPGEIHHSYENVGKGKAIGL 181
                              5555.788999999**999..666664.....3569*******************98777655 PP

>> AraC_binding  AraC-like ligand binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       2.5   3.5e+03      85     127 ..      14      54 ..       6      58 .. 0.65
   2 ?   12.6   0.1   6.8e-05     0.094      18      65 ..     127     174 ..     122     187 .. 0.86

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 2.5
                              GG---EEETTEEE..E---TTTHHHHHHHHHHHHHHHT-SSTT CS
             AraC_binding  85 ledssilagapllpalledeelaqllralfrlleetrsgddll 127
                               e++++l+++ +l  + +   la+  r  ++ l e++ ++++l
  PHY93_19285|PHY93_19285  14 AERIQDLRSRRGLT-QADLAKLAKVPRSTIANL-ESGTSNPSL 54 
                              45555666655555.666777777777777777.666666665 PP

  == domain 2  score: 12.6 bits;  conditional E-value: 6.8e-05
                              EETT-SEEEEEEEEE-EEEEETTEEEEE-TT-EEEE-TTS-EEEEE-T CS
             AraC_binding  18 phvhdeyvihyvteGtgrlrlngrtydlgpGdlfLlppgepHdyesds 65 
                              ph  ++ +   +++G+  + ++g+ y++ +Gd++ +p +  H+ye  +
  PHY93_19285|PHY93_19285 127 PHAAGTKEYLHCIQGEFNIVVAGENYHVCKGDVLAFPGEIHHSYENVG 174
                              5666666667899*******************************9766 PP

>> CDC48_2  Cell division protein 48 (CDC48), domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   0.00017      0.24      16      44 ..     151     189 .]     149     189 .] 0.86

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00017
                              TEEE-TTEEEEECCT..........CCCEEEEEEEECCC CS
                  CDC48_2  16 grpvtkGdlvvfefk..........gqeiklvVvstePk 44 
                              +  v+kGd+++f+            g++i l Vv + P+
  PHY93_19285|PHY93_19285 151 NYHVCKGDVLAFPGEihhsyenvgkGKAIGLSVVAIAPV 189
                              7789********9966677788888***********996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (189 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       420  (0.0234257); expected 358.6 (0.02)
Passed bias filter:                      402  (0.0224218); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1470.23
//
Query:       PHY93_19290|PHY93_19290  [L=242]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.1e-21   77.5  10.6    1.1e-14   54.5   1.5    3.1  2  Urate_ox_N  Urate oxidase N-terminal


Domain annotation for each model (and alignments):
>> Urate_ox_N  Urate oxidase N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   2.3   4.5e-08   0.00081       7      96 ..      11      85 ..       6      95 .. 0.74
   2 !   54.5   1.5   6.2e-19   1.1e-14     173     262 ..     103     201 ..      90     237 .. 0.70

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 4.5e-08
               Urate_ox_N  7 lnlllrwlHviaaiaWiGasfyFvaLdnslkkp.eeekkkkgvkGelwavHgGGfYevqkylvaPkelpeeLhWfkweaYttwlsGfa 93
                              ++llr++H  a++ WiG  +yF +++ +  k+ ++++k k  +G                    + +p+ L Wf++ a  t+lsG+ 
  PHY93_19290|PHY93_19290 11 SEMLLRFIHYFAGVVWIGMLYYFNFIQGEWFKElDADEKMKPSRG----------------VAVRTLVPRALAWFRYGALGTFLSGVF 82
                             689***********************9887776343333333333................223345688888999999999999988 PP

               Urate_ox_N 94 Llv 96
                             L+ 
  PHY93_19290|PHY93_19290 83 LIG 85
                             875 PP

  == domain 2  score: 54.5 bits;  conditional E-value: 6.2e-19
               Urate_ox_N 173 aaflhvGallatimsanvffviiPgqrkvvaa...lkagekpdpklgk....rakqrsvhnnYltlPvlflm.lsnHypltyssea 250
                               a++ vG   +t+m  nv ++i Pgq+ v+a+   l ag + +p+ ++    +a   s hn+++++P+lflm  + H p  ++ ++
  PHY93_19290|PHY93_19290 103 WAYISVGGAFGTVMFLNVWLIIWPGQKIVIANakqLAAGGAANPAAAAaaaaKAGLASRHNTFFSIPLLFLMgAASHLPSQMNADY 188
                              59***************************9861115678888877655111144567***************5578*******999 PP

               Urate_ox_N 251 n.wlvlallllag 262
                              n w++ a ++++ 
  PHY93_19290|PHY93_19290 189 NgWILCAFIAVIL 201
                              8465555554432 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (242 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       691  (0.0385409); expected 358.6 (0.02)
Passed bias filter:                      309  (0.0172346); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.43
# Mc/sec: 1676.28
//
Query:       PHY93_19295|PHY93_19295  [L=105]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    0.00015   22.9   0.0    0.00029   21.9   0.0    1.6  1  Cytochrom_C      Cytochrome c
    0.00032   21.0   0.0    0.00037   20.8   0.0    1.2  1  Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
  ------ inclusion threshold ------
      0.017   14.6   0.1       0.12   11.8   0.0    2.0  2  FixO             Cytochrome C oxidase, mono-heme subunit/FixO


Domain annotation for each model (and alignments):
>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.9   0.0   4.9e-08   0.00029       3      40 ..      27      63 ..      25     104 .. 0.79

  Alignments for each domain:
  == domain 1  score: 21.9 bits;  conditional E-value: 4.9e-08
                             -HHHHHHTTGGGTB-SSSBSSS....--HHHHHHHTTT CS
              Cytochrom_C  3 rGkelftanCaaCHgvegggakqgggptlsgaaerasa 40
                             rGk ++ anC+aCH ++ + ++   gp+++g   +  +
  PHY93_19295|PHY93_19295 27 RGKSAYLANCTACHNPDPRLVGSI-GPDIAGSSLELIT 63
                             9*****88***********99877.8999988776554 PP

>> Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.8   0.0   6.2e-08   0.00037       4      42 ..      26      72 ..      23     101 .. 0.67

  Alignments for each domain:
  == domain 1  score: 20.8 bits;  conditional E-value: 6.2e-08
          Cytochrome_CBB3  4 aaGaalykknCasCHg.....kggagpslagrdwe...pdalvdiik 42
                              +G++ y +nC +CH       g  gp++ag+ +e   ++ l+++  
  PHY93_19295|PHY93_19295 26 SRGKSAYLANCTACHNpdprlVGSIGPDIAGSSLElitARVLHQSYP 72
                             68*************98877777889****99776443344444444 PP

>> FixO  Cytochrome C oxidase, mono-heme subunit/FixO
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   2.1e-05      0.12      29      67 ..       3      41 ..       1      50 [. 0.79
   2 ?    1.5   0.0     0.028   1.7e+02     126     143 ..      76      93 ..      43     104 .. 0.66

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 2.1e-05
                     FixO 29 Plllvkstve.kvesvkpytpleleGrdiyiregCyaCHs 67
                             P ll+++ +  + e+ kp ++le +G+  y+  +C+aCH 
  PHY93_19295|PHY93_19295  3 PVLLLTTIIGcQKEGSKPLSALESRGKSAYLA-NCTACHN 41
                             5555555554146889**************97.5*****6 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.028
                     FixO 126 rsvvpesimPaykwllek 143
                              +s  ++s mPa ++l ++
  PHY93_19295|PHY93_19295  76 KSKRKSSLMPALPFLERD 93 
                              445567778887777654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (105 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       269  (0.0150036); expected 358.6 (0.02)
Passed bias filter:                      231  (0.0128842); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.37u 0.20s 00:00:00.57 Elapsed: 00:00:00.35
# Mc/sec: 902.36
//
Query:       PHY93_21315|PHY93_21315  [L=628]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   1.7e-151  505.4   0.0   1.1e-149  499.4   0.0    2.0  1  Ribonuc_red_lgC  Ribonucleotide reductase, barrel domain
      2e-22   79.0   0.0    5.1e-22   77.7   0.0    1.7  1  Ribonuc_red_lgN  Ribonucleotide reductase, all-alpha domain
  ------ inclusion threshold ------
       0.11   12.5   1.0        5.7    6.9   0.1    2.5  2  Cauli_AT         Aphid transmission protein


Domain annotation for each model (and alignments):
>> Ribonuc_red_lgC  Ribonucleotide reductase, barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  499.4   0.0  1.8e-153  1.1e-149       1     524 []      93     611 ..      93     611 .. 0.92

  Alignments for each domain:
  == domain 1  score: 499.4 bits;  conditional E-value: 1.8e-153
                              EEE.....BSS-EEEE-X..............XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC   1 ssCfvlsvedslesIletvkeaallskaggGvGlnlsklRakgslvkgtegaasGpvsfmklidavadvvkqgGkRrGAamvylev 86 
                              s+Cfvl +eds+esIlet++++a+++k+ggG+G+++++lR+ g+++k+ +g++ Gpvsfm+ +++v+  vkqgG+RrGA+m++l++
  PHY93_21315|PHY93_21315  93 SACFVLPIEDSMESILETMSNMAMIHKSGGGTGFSFTRLRPYGDYIKSSGGTTVGPVSFMQAYNDVTAQVKQGGVRRGANMGMLSI 178
                              79************************************************************************************ PP

                              XXXXXXXXXXXXXXXXX..XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX..XXX........................XXX.... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxx........................xxxxxxx RF
          Ribonuc_red_lgC  87 wHpDiekfidaKekntgeeenrlsnlnisvgvpdlFmeavkedkdwtLfs..Prt........................vvklekl 146
                              +HpD++ f  +K       e +l+n+nis+ v+d Fm++++edk++   +  P++                        v+kl+  
  PHY93_21315|PHY93_21315 179 DHPDVLRFAVVKLD-----EWSLTNFNISLAVTDAFMQKLEEDKKFVENDeiPEEvveeirlaegirgmderlrqvevgVKKLY-- 257
                              ************66.....666***********************998888999866666555555555555555533322222.. PP

                              .........................XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.. CS
                              xx....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC 147 yg....eefeeeyeeleekakikkkevkakeLfeeiaesawetgePgvlfkDtiNrrnvlekakggkIratNlCgEiplleyesva 228
                                    +++ e y+ ++ +   ++ + +a ++f+ + + aw+ g+Pg++f+D++N+ + +    +g+I+atN+CgE+pll+y++  
  PHY93_21315|PHY93_21315 258 -EwaeaKQIGEGYDLINPRDGHSRMKLNAYKVFNLVTRLAWQFGDPGLVFIDRMNAPSSNPIPAVGRIEATNPCGEQPLLPYDA-- 340
                              .233335577777777766666689***********************************************************.. PP

                              .XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC 229 vCnLasinLakfvkkdeegkkefdwdelkkviqlvvraLdnvidvnkyplpeiekntkktRriGlGvmgladalaklgipydseea 314
                               CnL+s+nL+kfv       ++ +w+elk++i+l+v +Ldnv++vn++p+++i++  ++tRriGlG+mg+adal+klg++ydse++
  PHY93_21315|PHY93_21315 341 -CNLGSLNLSKFV-----VGNDLNWNELKETINLAVHFLDNVVEVNQFPVQKIREMVSNTRRIGLGIMGFADALFKLGVRYDSEQG 420
                              .************.....5679**************************************************************** PP

                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX......XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC 315 lkfarkitelltyyaykaSvelAkergpfplfekskyskgilpvdefeekekedweeLreeikkyGlrnamvtalaPTgsiSliag 400
                              +++a+ki++++t  a +a ++lA+ rg+fp ++ks y+                          y  rn  +t++aPTg+iS++a+
  PHY93_21315|PHY93_21315 421 IDWAKKIMKFVTESAKEATCKLAESRGVFPFWDKSVYAGTD-----------------------YKPRNMALTTIAPTGTISMVAD 483
                              *************************************9883.......................335******************* PP

                              XXXXXXXXXXXXXXXXXXXXX.XXXXXXXXXXXXXXXXXXXXXXXXXXXXX...XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC 401 tssgiePifalvykksvtvge.flevnpvfeeeLkklglwseellkkiles...vqgleeipeeikrvfktaldidqedhikaqaa 482
                              tssgieP+f+l y+k++++g+ ++ v pv++e+Lk++g++seel +ki ++    +g++eip+e+k+vf tal+id+e+hik+qaa
  PHY93_21315|PHY93_21315 484 TSSGIEPVFSLGYQKNTVEGKtLYAVSPVLVEKLKEKGIYSEELVEKIVKNggtLKGIDEIPDELKNVFITALEIDPEWHIKLQAA 569
                              *******************986899***********************555566******************************** PP

                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC 483 iqkwidqsiSktinlpneatvedvkelyllAwklGlKgvtyY 524
                               q++ d+++Sktinlp+ea v+dv ++yll++ lG Kg+t+Y
  PHY93_21315|PHY93_21315 570 FQEFTDNAVSKTINLPEEAMVDDVRKAYLLSYSLGTKGITIY 611
                              ****************************************99 PP

>> Ribonuc_red_lgN  Ribonucleotide reductase, all-alpha domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.7   0.0   8.5e-26   5.1e-22       3      83 .]       9      90 ..       8      90 .. 0.93

  Alignments for each domain:
  == domain 1  score: 77.7 bits;  conditional E-value: 8.5e-26
          Ribonuc_red_lgN  3 ltynalkvledrYllkdengeivEspqqmfmRvAlalaiaealyd.kleedkdlaeefydlmssqkflpasPtlmnaGtelg 83
                             l+ na  + e rY lkde+g+i+E + ++f+RvA+++a  ++++   +e+ + +ae fy+lm++qkflp++P+l naG++++
  PHY93_21315|PHY93_21315  9 LSDNAKYIAETRYSLKDEDGKILEKVGDIFWRVAINVAKGDQNFGgNEESINRMAENFYNLMAEQKFLPNTPCLVNAGKKYQ 90
                             567888999******************************9996666899*****************************9975 PP

>> Cauli_AT  Aphid transmission protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.9   0.1   0.00095       5.7     126     161 ..     221     256 ..     192     257 .. 0.79
   2 ?    3.6   0.1    0.0092        55     127     161 ..     514     551 ..     507     553 .. 0.89

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.00095
                 Cauli_AT 126 etkklaekivtekllkeevkdlderlseirdslkai 161
                              e+ +++e++v e  l e ++ +derl++++ ++k++
  PHY93_21315|PHY93_21315 221 ENDEIPEEVVEEIRLAEGIRGMDERLRQVEVGVKKL 256
                              4568999999999999*****************985 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.0092
                 Cauli_AT 127 tkklaek.ivtekllkeevkd..lderlseirdslkai 161
                              ++kl+ek i +e+l++++vk+  + + + ei d+lk++
  PHY93_21315|PHY93_21315 514 VEKLKEKgIYSEELVEKIVKNggTLKGIDEIPDELKNV 551
                              57899999************8556799*********98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (628 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       566  (0.031569); expected 358.6 (0.02)
Passed bias filter:                      511  (0.0285013); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.62u 0.27s 00:00:00.89 Elapsed: 00:00:00.40
# Mc/sec: 4748.85
//
Query:       PHY93_19300|PHY93_19300  [L=202]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.8e-72  242.3   0.0    3.2e-72  242.1   0.0    1.0  1  DHBP_synthase  3,4-dihydroxy-2-butanone 4-phosphate synthase


Domain annotation for each model (and alignments):
>> DHBP_synthase  3,4-dihydroxy-2-butanone 4-phosphate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  242.1   0.0   1.8e-76   3.2e-72       2     192 .]       6     196 ..       5     196 .. 0.99

  Alignments for each domain:
  == domain 1  score: 242.1 bits;  conditional E-value: 1.8e-76
                              HHHHHHHTT--EEEESSTTTT-BEEEEEEGGG--HHHHHHHHHHB-S--EEEEEHHHHHHTT--BSSSS-SSTT---BB--EEESS CS
            DHBP_synthase   2 eaiealkaGkfvivvDdedrenegdLiiaAekvtpekvafmirhasGlicvalteeradeLeLplmveenedkhktaftvsvdaae 87 
                              +++++lkaG++v+v+Dd drene+dL++a e++t+ek++f+ +ha+Gli  ++++++ ++L+Lplmv+en  +++taft+s+da  
  PHY93_19300|PHY93_19300   6 AVLKDLKAGHLVLVTDDYDRENEADLLLAGEFITTEKINFFFNHARGLITNPISSAVSKNLNLPLMVPENAGTMQTAFTISIDAVL 91 
                              5799********************************************************************************** PP

                              T-SSS-SHHHHHHHHHHHH-TT--GGGEEEEEEEEEEEE-TTGGGTS-SHHHHHHHHHHHTTS-SBEEEEEBB-TTSCB-BHHHHH CS
            DHBP_synthase  88 gttTGIsaaDRalTirkladpkakpedfrrPGhvfplrareggvleRrghTEaavdLarlaglkpaavicellnddgtmarrdele 173
                              gt+TGIs +DRa Ti+kl dp+a ++df+rPGhvfpl+a+++gvl R+ghTEaa+dL++lagl+++av+ce ln+dg+ ++ del+
  PHY93_19300|PHY93_19300  92 GTHTGISSTDRAVTIKKLSDPNALATDFERPGHVFPLIAHDKGVLGRSGHTEAAIDLMKLAGLNQVAVLCETLNSDGNTLKGDELT 177
                              ************************************************************************************** PP

                              HHHHHHT-EEEEHHHHHHH CS
            DHBP_synthase 174 efakkhglkiitiedliey 192
                              efak++++kii+i+++ +y
  PHY93_19300|PHY93_19300 178 EFAKRYKIKIISIDEIRNY 196
                              ***************9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (202 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       444  (0.0247643); expected 358.6 (0.02)
Passed bias filter:                      395  (0.0220313); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1572.60
//
Query:       PHY93_19305|PHY93_19305  [L=301]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.029   14.7   0.9       0.07   13.5   0.9    1.6  1  RPAP2_Rtr1  Rtr1/RPAP2 family


Domain annotation for each model (and alignments):
>> RPAP2_Rtr1  Rtr1/RPAP2 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.9   3.9e-06      0.07      22      69 ..     111     159 ..     105     161 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 3.9e-06
                              SSTT--S--SS--.---------.....--TTGGGGT-SSHHHHHHHHH CS
               RPAP2_Rtr1  22 GyplCnnsleedk.rqkekyrisrkakkvvereelekfCSkaCaersla 69 
                              G  lC++ + +   r+ + ++ +r++++   +   ++fCS++C  rs++
  PHY93_19305|PHY93_19305 111 GXXLCPKIQIKILkRNDSIFKYHRSTSHFRXYCIIRRFCSRRCTVRSQF 159
                              77788887765433677889999999999999**************998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (301 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       200  (0.0111551); expected 358.6 (0.02)
Passed bias filter:                      136  (0.00758548); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.37
# Mc/sec: 2421.91
//
Query:       PHY93_09960|PHY93_09960  [L=159]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (159 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       555  (0.0309554); expected 358.6 (0.02)
Passed bias filter:                      305  (0.0170115); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.24s 00:00:00.67 Elapsed: 00:00:00.42
# Mc/sec: 1140.32
//
Query:       PHY93_09965|PHY93_09965  [L=242]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (242 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       781  (0.0435607); expected 358.6 (0.02)
Passed bias filter:                      493  (0.0274974); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 1783.27
//
Query:       PHY93_09970|PHY93_09970  [L=368]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.3e-56  189.7  14.3    7.5e-56  189.5  14.3    1.0  1  LptF_LptG     Lipopolysaccharide export system permease LptF/


Domain annotation for each model (and alignments):
>> LptF_LptG  Lipopolysaccharide export system permease LptF/LptG
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  189.5  14.3   4.2e-60   7.5e-56       3     352 ..       8     363 ..       6     367 .. 0.92

  Alignments for each domain:
  == domain 1  score: 189.5 bits;  conditional E-value: 4.2e-60
                LptF_LptG   3 ilreflkpfllvllvllfllllqdllryldllvgkglpvgdllelilynlpyilelalPlavLlavlltfgrLaedsEltalrsaG 88 
                              +l+e +  fl+ +lvll++l l+ +l   ++l++  ++++++ e +++ +p +l  ++P+++L+a+l+ +++L++++Elta+ ++G
  PHY93_09970|PHY93_09970   8 VLKEWFRFFLGSVLVLLMVLSLGHVL---NSLLKDSADFKTIYESLVLEIPTFLIKIFPVSCLVASLFSINKLKNRNELTAIFASG 90 
                              78999999999999999999999665...56699**************************************************** PP

                LptF_LptG  89 islgrllrpililalllsvlsfllnnyvvPwankkaesllseirqkspsl...........likpgvfikdgdgyiiyvgsmddeg 163
                              +s+ r+++ i  ++ ++ vl+f++n y+vP+++++ + +++ + ++s s+           l   ++++k  d y++  +s+d ++
  PHY93_09970|PHY93_09970  91 FSRRRFILGIGTIGSFIGVLLFFINAYLVPYTKHRQDMMKKGQTRESTSSavikstvsinaLNSGKIWFKGQD-YFFSYSSFDRKT 175
                              ****************************************999999988885555555555555555555555.************ PP

                LptF_LptG 164 gelqdvtiydltegkgltsiitAksgvlvksadelqlrLfngeiyevgddekkysretferyridinldpadlsteeespdelsls 249
                              ++l + t+y +++++++t+ i+A+ +++++   ++ ++L+    y+  d+++  + + f+++ ++i ++ +d+++  ++ ++l+++
  PHY93_09970|PHY93_09970 176 NTLYNLTLYLYDKNFKFTEQISAAYADFQS---GNDWILHRSLHYTNLDNKTFPTVQYFDDKPLKIRETISDFKQINADIATLNIW 258
                              *****************************7...9****************99999******************************* PP

                LptF_LptG 250 elkekikalrseglevrryraelhkrlalplaclvfaliaaplglvkrrggrglr..lliaillfvlyyvllslgkalaengvlpp 333
                              +l+ +i  l+ +g ++++y++++  +++ +++clv+a++a    + ++r++  ++  +++++ ++++y+++ s + +l++   +p+
  PHY93_09970|PHY93_09970 259 KLYDYIGVLKTNGINYSEYYVTFLDKFSSAFTCLVLAILASIALFNPNRRNSSFGknIAFVLTFTFIYWFIYSYFLTLGQTSRIPA 344
                              *****************************************99999977777777789999999999******************* PP

                LptF_LptG 334 ilaawlpnilflllglfll 352
                              ++a+  ++ +f++   f +
  PHY93_09970|PHY93_09970 345 VVATFGVPSIFVVYLTFYF 363
                              *****99999998876644 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (368 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       918  (0.051202); expected 358.6 (0.02)
Passed bias filter:                      366  (0.0204139); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.39
# Mc/sec: 2809.84
//
Query:       PHY93_09975|PHY93_09975  [L=197]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.5e-45  154.0   0.0    3.2e-45  153.6   0.0    1.1  1  Pep_deformylase  Polypeptide deformylase


Domain annotation for each model (and alignments):
>> Pep_deformylase  Polypeptide deformylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  153.6   0.0   1.8e-49   3.2e-45       3     158 ..      21     184 ..      19     185 .. 0.90

  Alignments for each domain:
  == domain 1  score: 153.6 bits;  conditional E-value: 1.8e-49
                              G---TT-GGGCS--B---BSSHHHHHHHHHHHHHHHHHCT-SEEEGGGGT--BSEEEEECCSS-ETT....S..........EEEE CS
          Pep_deformylase   3 kivkvgdpvLrekakpvekfeskelekllekmletmkeakgvgLAApQigvnkrlfvielpseeeeeeenke..........ltvl 78 
                               i +++ pvL++ akpv++f+++ l++++++ml tm++a g+gLAApQ+gv+ r+fv+++  ++e+ +  +           ++v+
  PHY93_09975|PHY93_09975  21 SIHTYPAPVLKQIAKPVTEFNDE-LHNIVKNMLFTMYNAPGIGLAAPQVGVSLRFFVLDIWFDREKVTLADGseeyrlsefsPMVF 105
                              6899*****************88.*********************************8875555443333224578888899**** PP

                              EEEEEEECSCEEECCEE--TTSTT--CEEEEESCEEEEEE-TTS-EEEEEEEHHHHHHHHHHHHHCTT--GGGGC-TTXX CS
          Pep_deformylase  79 iNPkitskseetitdeEgClSvpgieakVeRskrikvkyldltgkeveleaegllArvlqHEiDhlnGklfidridksek 158
                              +NP   +++++ + +eEgClSvpgi+ +V+R + ++v+++d+ g+++e+ea++ll+++lqHE Dhl+G++fi+r++ ++k
  PHY93_09975|PHY93_09975 106 CNPIF-KNKSGEVIHEEGCLSVPGIYEDVKRFELVTVEFQDMFGDHHEIEADELLSVCLQHENDHLDGIVFIERLSFLKK 184
                              ***99.7777778889**********************************************************997775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (197 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       425  (0.0237046); expected 358.6 (0.02)
Passed bias filter:                      312  (0.017402); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.23s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 1516.65
//
Query:       PHY93_09980|PHY93_09980  [L=312]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.5e-32  112.8   0.0    2.1e-32  112.3   0.0    1.1  1  Formyl_trans_N  Formyl transferase
    5.9e-22   77.8   0.0    1.1e-21   76.9   0.0    1.5  1  Formyl_trans_C  Formyl transferase, C-terminal domain


Domain annotation for each model (and alignments):
>> Formyl_trans_N  Formyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  112.3   0.0   2.3e-36   2.1e-32       8     172 ..       9     176 ..       2     187 .. 0.88

  Alignments for each domain:
  == domain 1  score: 112.3 bits;  conditional E-value: 2.3e-36
                              SESSHHHHHHHHHHHHTTSECEEEEEEESCTTEHCHHHHHHCCHCCCECHHCC....SCCCCCCCHHHHHHHHCTT-SEEEEES-- CS
           Formyl_trans_N   8 sgtgsnlqalldalkkgsleadvvlvvsnkdkaaglekaeaasiptkvfeekk....leprsqfeeelaeelkelkadlivlagym 89 
                               gt+++    l+ l++   + ++v vv+ +d++ g+++  +  +++++++ +k      ++ ++ee++ eel++ k d+i++ ++ 
  PHY93_09980|PHY93_09980   9 CGTPDFSLPTLELLHHHP-HINIVGVVTMPDRPSGRGQELKSPPVAEYAKLNKlplyQVENINREEKILEELENKKIDFILVLAFA 93 
                              455555555555555444.479****************999999999999999999533447999********************* PP

                              S---HHHHHSSTTSEEEEESSSTTTTBSS-HHHHHHHTTSSEEEEEEEE--SSSSTS-EEEEEEEE--TT--HHHHHHHHHHH CS
           Formyl_trans_N  90 kllpkelvqavrlkilniHpSLLPrfkGaaaiqraleaGdketGvtihfvdeelDtGailaqkkveiiaedtkeeleqrvada 172
                              ++l++ ++++++l++ niH S+LP+++Gaa+iq al++Gd+ tGv+i+ +  e+D G++++ ++++i +++t ++l  r++ +
  PHY93_09980|PHY93_09980  94 QFLGSRILNMPKLGCFNIHTSILPKYRGAAPIQYALLNGDTSTGVSIQRMVKEMDAGDLVHFHELPISETETGGQLFVRLKFQ 176
                              ***************************************************************************99998876 PP

>> Formyl_trans_C  Formyl transferase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.9   0.0   1.2e-25   1.1e-21       2      99 ..     209     303 ..     208     304 .. 0.93

  Alignments for each domain:
  == domain 1  score: 76.9 bits;  conditional E-value: 1.2e-25
                              .-GGGGB--T.TSBHHHHHHHHHHT-TS--EEEEETTEEEEEEEEEEE-S--SS-.TTSEEETT..TEEEE-SBSEEEEEEEEETT CS
           Formyl_trans_C   2 ikkedgridw.nqsaeeihnlvrglspwPgayttlngkrvkllkaevvsesssaespGtivavdkggllvacgdgallilelqleg 86 
                              +kkedg++++  ++a +i+n++r+l+pwPg+y++ln++r+k++++e +++s +   pG+   ++ g+l+v++ dg++++ ++qleg
  PHY93_09980|PHY93_09980 209 LKKEDGLLNFkLSTAIKIQNQIRALDPWPGTYCFLNNQRLKVFEVEKLQRSLN---PGETS-TEFGQLAVGTLDGVIRLSSVQLEG 290
                              89********99************************************77666...**665.56688******************* PP

                              S--EEHHHHHHH. CS
           Formyl_trans_C  87 kkamsaedflngl 99 
                              kk++s +++lngl
  PHY93_09980|PHY93_09980 291 KKICSDTELLNGL 303
                              ***********96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (312 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       465  (0.0259356); expected 358.6 (0.02)
Passed bias filter:                      437  (0.0243739); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.29s 00:00:00.83 Elapsed: 00:00:00.48
# Mc/sec: 1974.12
//
Query:       PHY93_09985|PHY93_09985  [L=215]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.9e-58  196.1   0.0    4.4e-58  195.9   0.0    1.0  1  Ribul_P_3_epim  Ribulose-phosphate 3 epimerase family
    0.00027   20.5   0.0    0.00077   19.0   0.0    1.7  2  His_biosynth    Histidine biosynthesis protein
  ------ inclusion threshold ------
       0.03   14.1   0.0      0.043   13.6   0.0    1.2  1  QRPTase_C       Quinolinate phosphoribosyl transferase, C-ter
      0.068   12.6   0.3       0.11   12.0   0.0    1.4  2  PcrB            PcrB family


Domain annotation for each model (and alignments):
>> Ribul_P_3_epim  Ribulose-phosphate 3 epimerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  195.9   0.0   9.9e-62   4.4e-58       2     198 .]       4     201 ..       3     201 .. 0.98

  Alignments for each domain:
  == domain 1  score: 195.9 bits;  conditional E-value: 9.9e-62
                              EEEBGGGS-GGGHHHHHHHHHHTT-SEEEEEEEBSSSSS-B-B-HHHHHHHGGGE-S-EEEEEESSSHHHCHHHHHHCT-SEEEEE CS
           Ribul_P_3_epim   2 iapSllsadfarlgeevkaveeagadllHvDvmDghfvpNltigplvvealrkltelpldvHLmveevdrivpefaeagasiisvH 87 
                              i+pSll+ df + + e++a++ +   ++H+D+mDghfvpNlt+g  ++e ++k +  + d H+mv++++  ++++ + g  ++++H
  PHY93_09985|PHY93_09985   4 ISPSLLACDFLNIEPELNAFNGQSDLWFHLDIMDGHFVPNLTFGHPIIELITKKSLQKCDAHFMVTNPEFHAETMKSFGLYNFTFH 89 
                              89*******************99999*****************************9****************************** PP

                              -ST-TTHHHHHHHHHHTTSEEEEEE-TT--GGGG.TTTCCC-SEEEEESS-TT-SS----CCHHHHHHHHHHHHHHHT---EEEEE CS
           Ribul_P_3_epim  88 aEalehlkrtiqeikeaGakaglvlnpatpleal.eyllekldlvllmsvePgfgGQkFipevlekikkvrklidekeldlkievD 172
                               Ea+     +i+e+k++   +g++++patp + l +++l+++dlvl+msvePgfgGQ+F pe ++ki++++++ d+ + + ki+vD
  PHY93_09985|PHY93_09985  90 LEATIDSLGLIKELKNNYPSVGISIKPATPTHKLsDDILKAVDLVLVMSVEPGFGGQSFQPEAFDKIRELKARRDRLKAHFKIQVD 175
                              ******************************9876368************************************************* PP

                              SS--TTTCHHHHHHT--EEEESHHHH CS
           Ribul_P_3_epim 173 GGvkldnieqiaeagadvlVagsavf 198
                              GGv+++n+++++eagad lVags++f
  PHY93_09985|PHY93_09985 176 GGVSDKNAKELIEAGADNLVAGSYIF 201
                              ************************98 PP

>> His_biosynth  Histidine biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0      0.53   2.4e+03     107     130 ..      69      92 ..      66     115 .. 0.57
   2 !   19.0   0.0   1.7e-07   0.00077      72     110 ..     168     205 ..     152     213 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 0.53
                              H-THHHHHHHHHHCGGGEEEEEEE CS
             His_biosynth 107 knpelikelaekfgsqkivvaiDa 130
                              +npe+  e ++ fg  + ++ ++a
  PHY93_09985|PHY93_09985  69 TNPEFHAETMKSFGLYNFTFHLEA 92 
                              566666666666665555444443 PP

  == domain 2  score: 19.0 bits;  conditional E-value: 1.7e-07
                              -SSEEEEESSSSSHHHHHHHHHCT-SEEEESHHHHH-TH CS
             His_biosynth  72 vfipvqvGGGIrsledveelleagadkviigtaavknpe 110
                               + ++qv+GG+++ + ++el+eagad+++ g+  +kn++
  PHY93_09985|PHY93_09985 168 AHFKIQVDGGVSDKN-AKELIEAGADNLVAGSYIFKNKK 205
                              4689*********99.*****************999975 PP

>> QRPTase_C  Quinolinate phosphoribosyl transferase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   9.6e-06     0.043     112     165 ..     154     207 ..     127     209 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 9.6e-06
                              HHHHHHHHHHHHHSTTSEEEEESS--TTTHHHHHCTT-SEEEECHHCHTB---- CS
                QRPTase_C 112 eelkkaveelkeknkrvlievSGgvtlenveeyaksgvdvisvgalthsvkalD 165
                              +++++   ++++ + +++i+v Ggv+++n +e+ + g d +  g+ + + k  D
  PHY93_09985|PHY93_09985 154 DKIRELKARRDRLKAHFKIQVDGGVSDKNAKELIEAGADNLVAGSYIFKNKKED 207
                              3444444445566666**************************999988877776 PP

>> PcrB  PcrB family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.8   0.1       1.6   7.1e+03      69      83 ..     125     139 ..     122     139 .. 0.82
   2 ?   12.0   0.0   2.4e-05      0.11     167     222 ..     155     211 ..     148     215 .] 0.74

  Alignments for each domain:
  == domain 1  score: -3.8 bits;  conditional E-value: 1.6
                              GG--TTSSEEEEEEE CS
                     PcrB  69 egvvryaDalFvmsl 83 
                              + + + +D++ vms+
  PHY93_09985|PHY93_09985 125 DDILKAVDLVLVMSV 139
                              567888999999997 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 2.4e-05
                              -HHHHHHHHHHHSS.SEEEEESS--SHHHHHHHHCC.SSEEEE-CHHHHHHHCHHHHH CS
                     PcrB 167 dveevialkkklek.arlivGGGirsaEkAkevvea.ADvivvGnvveekderkidai 222
                              ++ e++a + +l+   ++ v GG+ ++ +Ake +ea AD +v G  + +++++ +++ 
  PHY93_09985|PHY93_09985 155 KIRELKARRDRLKAhFKIQVDGGVSDK-NAKELIEAgADNLVAGSYIFKNKKEDYKKA 211
                              455555666666541578899999875.79****************999885555544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (215 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       371  (0.0206927); expected 358.6 (0.02)
Passed bias filter:                      335  (0.0186848); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.50u 0.24s 00:00:00.74 Elapsed: 00:00:00.44
# Mc/sec: 1467.12
//
Query:       PHY93_09990|PHY93_09990  [L=148]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.18   12.1   0.0       0.23   11.7   0.0    1.2  1  AAA_28    AAA domain


Domain annotation for each model (and alignments):
>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   1.3e-05      0.23      59     101 ..      92     136 ..      62     146 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 1.3e-05
                   AAA_28  59 vleeqleeeaaa..aankvlfcDrglldtlaYarayggeaeaele 101
                              +  +ql+++ +a  a++++l cD +    +a++r+y +++++el 
  PHY93_09990|PHY93_09990  92 LQMNQLQKLSEAidANPDILYCDYQRRSLIAWCRYYKNTRAQELI 136
                              3334555566666689***********************988875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (148 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       928  (0.0517597); expected 358.6 (0.02)
Passed bias filter:                      475  (0.0264934); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.24s 00:00:00.63 Elapsed: 00:00:00.38
# Mc/sec: 1167.16
//
Query:       PHY93_09995|PHY93_09995  [L=150]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (150 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       230  (0.0128284); expected 358.6 (0.02)
Passed bias filter:                      218  (0.0121591); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.38
# Mc/sec: 1174.75
//
Query:       PHY93_21320|PHY93_21320  [L=145]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.2e-13   51.4   0.6    1.5e-13   51.1   0.6    1.2  1  ATP-cone       ATP cone domain
     0.0025   17.7   1.4     0.0025   17.7   1.4    2.0  2  Zn_Tnp_IS1595  Transposase zinc-ribbon domain
     0.0084   15.2   0.2     0.0085   15.2   0.2    1.1  1  DUF4552        Domain of unknown function (DUF4552)
  ------ inclusion threshold ------
      0.099   12.1   1.2        1.8    8.0   0.2    2.4  2  zf-ribbon_3    zinc-ribbon domain
       0.28   12.1   2.2         16    6.7   0.3    2.5  2  zf-C2H2_4      C2H2-type zinc finger
        1.1    9.4   4.6        1.9    8.6   1.0    2.2  2  zf-C2H2_6      C2H2-type zinc finger
        3.5    8.3   5.0         13    6.4   0.7    2.5  2  zf-C2H2        Zinc finger, C2H2 type


Domain annotation for each model (and alignments):
>> ATP-cone  ATP cone domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.1   0.6     6e-17   1.5e-13       2      79 ..      50     128 ..      49     135 .. 0.95

  Alignments for each domain:
  == domain 1  score: 51.1 bits;  conditional E-value: 6e-17
                              EEE-TTS-EEE--HHHHHHHHHHHHHH.-HHHHHHHHHHHHHHHHHHHIIT-BHHHHHHHHHHHHHHSS-HHHHHHHHH CS
                 ATP-cone   2 kViKRdGtvepfdvekIkraiekAceg.seeeideiaeeveaevrkrlrdgisteeIqdlvektliehpdyavaaayil 79 
                              kV+K+ G++e++++ek+ r  ekAc + ++ee +++++e+e ++ + +  +i+++eI+++v+k+l++ + +a+++++ +
  PHY93_21320|PHY93_21320  50 KVVKKSGKKEDYNREKLDRCFEKACWKmNREERERLVDEIEMKLLNWKSVEIPSKEIGKMVMKKLRKVDPVAYIRFATV 128
                              8**************************************************************************9876 PP

>> Zn_Tnp_IS1595  Transposase zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   1.4   9.8e-07    0.0025      21      45 ..       3      36 ..       1      37 [. 0.94
   2 ?   -0.1   0.1      0.36   9.3e+02       8      17 ..      68      77 ..      64      80 .. 0.77

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 9.8e-07
            Zn_Tnp_IS1595 21 CPhCgsrkayrikt.........rglfqCkeCrk 45
                             CP+Cg +++  +++         r++ +C +C+k
  PHY93_21320|PHY93_21320  3 CPYCGESESNVLESrdagdgkmtRRRRECVKCKK 36
                             *******999999999****************98 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.36
            Zn_Tnp_IS1595  8 alLealrWpn 17
                             + +e+++W+ 
  PHY93_21320|PHY93_21320 68 RCFEKACWKM 77
                             67999***85 PP

>> DUF4552  Domain of unknown function (DUF4552)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.2   3.3e-06    0.0085     154     211 ..      59     116 ..      14     138 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 3.3e-06
                  DUF4552 154 nnnerndlstsfEkdcYpassekkgklendyqekilqkniqkypvnsmanipleeLhs 211
                              ++ +r++l + fEk c+ ++ e++++l +++  k l+ ++ + p ++++++ +++L +
  PHY93_21320|PHY93_21320  59 EDYNREKLDRCFEKACWKMNREERERLVDEIEMKLLNWKSVEIPSKEIGKMVMKKLRK 116
                              344577899*****************************************99999976 PP

>> zf-ribbon_3  zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   0.2   0.00072       1.8      18      24 ..       2       8 ..       1      10 [. 0.74
   2 ?    2.3   0.1     0.048   1.2e+02       4      10 ..      30      36 ..      28      40 .. 0.78

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.00072
              zf-ribbon_3 18 vCpyCGt 24
                              CpyCG+
  PHY93_21320|PHY93_21320  2 LCPYCGE 8 
                             5888884 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.048
              zf-ribbon_3  4 rCPnCGa 10
                             +C +C++
  PHY93_21320|PHY93_21320 30 ECVKCKK 36
                             8****98 PP

>> zf-C2H2_4  C2H2-type zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.1     0.025        63       3       9 ..       3       9 ..       2      15 .. 0.81
   2 ?    6.7   0.3    0.0061        16       2      15 ..      30      43 ..      29      46 .. 0.85

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.025
                zf-C2H2_4 3 CpiCgks 9
                            Cp+Cg+s
  PHY93_21320|PHY93_21320 3 CPYCGES 9
                            ****987 PP

  == domain 2  score: 6.7 bits;  conditional E-value: 0.0061
                zf-C2H2_4  2 kCpiCgksFsskka 15
                             +C  C+k+F+++++
  PHY93_21320|PHY93_21320 30 ECVKCKKRFTTYER 43
                             7********99875 PP

>> zf-C2H2_6  C2H2-type zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.1     0.079     2e+02       4      10 ..       3       9 ..       2       9 .. 0.89
   2 ?    8.6   1.0   0.00074       1.9       2      14 ..      29      41 ..      28      42 .. 0.90

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.079
                zf-C2H2_6  4 CsvCsks 10
                             C++C++s
  PHY93_21320|PHY93_21320  3 CPYCGES 9 
                             ****986 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.00074
                zf-C2H2_6  2 heCsvCsksFpsl 14
                              eC  C+k+F ++
  PHY93_21320|PHY93_21320 29 RECVKCKKRFTTY 41
                             59**********9 PP

>> zf-C2H2  Zinc finger, C2H2 type
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.3   0.3     0.053   1.4e+02       3       9 ..       3       9 ..       2       9 .. 0.89
   2 ?    6.4   0.7    0.0053        13       2      12 ..      30      40 ..      30      44 .. 0.88

  Alignments for each domain:
  == domain 1  score: 3.3 bits;  conditional E-value: 0.053
                            ETTTTEE CS
                  zf-C2H2 3 CpdCgks 9
                            Cp+Cg+s
  PHY93_21320|PHY93_21320 3 CPYCGES 9
                            *****86 PP

  == domain 2  score: 6.4 bits;  conditional E-value: 0.0053
                             EETTTTEEESS CS
                  zf-C2H2  2 kCpdCgksFkr 12
                             +C +C+k+F++
  PHY93_21320|PHY93_21320 30 ECVKCKKRFTT 40
                             5********98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (145 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1138  (0.0634726); expected 358.6 (0.02)
Passed bias filter:                      507  (0.0282782); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.38
# Mc/sec: 1139.26
//
Query:       PHY93_10000|PHY93_10000  [L=509]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
   1.1e-190  634.2   0.2   1.3e-190  634.0   0.2    1.0  1  Lyase_aromatic  Aromatic amino acid lyase


Domain annotation for each model (and alignments):
>> Lyase_aromatic  Aromatic amino acid lyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  634.0   0.2  7.1e-195  1.3e-190       1     463 [.      10     471 ..      10     472 .. 0.99

  Alignments for each domain:
  == domain 1  score: 634.0 bits;  conditional E-value: 7.1e-195
                              --HHHHHHHHTC...CCEEEE-HHHHHHHHHHHHHHHHHHHCTB--TTTSB-SGGGGGBB--HHHHHHHHHHHHHHC---EEEE-- CS
           Lyase_aromatic   1 Ltledvvavarg...kakvelspearerveasravleeilaegepvYGvntGfGaladvripkedleelqrnllrshaaGvgeplp 83 
                              Lt+++v++va     + +++++p+a+ +++asra++ +i+++gepvYG+ntGfGal++++i+++dl++lq nl+rsh++Gvg++++
  PHY93_10000|PHY93_10000  10 LTIDHVYQVAYAtkgALNLSIDPNALVKMKASRAFVFDIVKKGEPVYGINTGFGALSSKHIEEKDLAQLQLNLIRSHCTGVGRAFS 95 
                              899******98445679********************************************************************* PP

                              HHHHHHHHHHHHHHHTTS-S---HHHHHHHHHHHHCTEEE--EEES-------HHHHHHHHHHHTTSSTCCETTEEEEHHHHHHHT CS
           Lyase_aromatic  84 eevvRaamllrlnslakGysGvrpevverllellnagitPvvperGSvGaSGDLaplahlalvliGegevyykgerlpaaealaea 169
                              +e++Ra+mllr+n+l++G+sGv+p++v+ ll++ln++itPvvpe+GSvGaSGDLapl+h+al+liGeg+v+++g++++++ a+++ 
  PHY93_10000|PHY93_10000  96 KEITRAIMLLRANCLISGFSGVEPSTVQLLLDFLNEHITPVVPEKGSVGASGDLAPLSHIALALIGEGDVEVDGKIVNSKFAINHI 181
                              ************************************************************************************** PP

                              T------TTTHHHHCCSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-BCGGG-HHHHCCS--HHHHHHHHHHHHHTTT-S CS
           Lyase_aromatic 170 glepleleakEgLAlinGtalmtalaalaledaerllrladvaaAlslealrGsteafdprihalrphpgqievAarlrallegSe 255
                              g +p  l++k+gLAlinGta+m al+ala+++a++l++lad+a+ l+l++++G+ +a++p+i al+ph+gqi++ ++l +l+++S 
  PHY93_10000|PHY93_10000 182 GKTPAVLGPKDGLALINGTACMGALGALAVHEAKQLMKLADIASTLTLDGVKGTSAAYNPKITALKPHKGQIASVENLNKLIANSP 267
                              ************************************************************************************** PP

                              SS...-SB-SS-SS--HHHHTHHHHHHHHHHHHHHHHHHHHHHHTS--SSSEE.EGCCTCCE---TT--HHHHHHHHHHHHHHHHH CS
           Lyase_aromatic 256 lv.shekdeerlvQDayslRcaPqvhGavldalaaarevleiElnsatDNPlvddeeegavlsgGnFhgepvalalDklaialael 340
                              l  sh +++++ vQD+yslRc+PqvhGa++++l +a++v+++Eln++tDNPl+  +e+g+v+sgGnFhge++al +D+la+ +ae+
  PHY93_10000|PHY93_10000 268 LKeSH-PNCGK-VQDPYSLRCVPQVHGACRQTLIHADDVVSTELNAVTDNPLI-FVETGEVISGGNFHGEALALVMDYLAMGVAEI 350
                              **888.9****.*****************************************.999***************************** PP

                              HHHHHHHHHHHC-TTTTTT--GGG-SSTCTTB-TTHHHHHHHHHHHHHHHCHCS-SGGG--TCTTTTCSS---HHHHHHHHHHHHH CS
           Lyase_aromatic 341 aniserrierLvnpalsegLpafLaaeepglnsgfmiaqytaaalvsenktlahPasvdsiptsanqeDhvSmgliaarkllevve 426
                               niserrie+++np +s +LpafL+ +++glnsg+mia++taaalvsenk+l+hPasvds+pts ++eDhvSmg++a rkl+ev++
  PHY93_10000|PHY93_10000 351 CNISERRIEKMMNPVFS-ELPAFLT-KSSGLNSGLMIAHVTAAALVSENKYLCHPASVDSVPTSTDKEDHVSMGVTAGRKLHEVIS 434
                              ****************9.9******.99********************************************************** PP

                              HHHHHHHHHHHHHHHHHHHHHCTCC-HHHHHHHHHHH CS
           Lyase_aromatic 427 nlekvlAiellaaaqaldlrrklksspateavyeavr 463
                              n++ vlAie+l+ +qald++r lkssp++eav+ ++r
  PHY93_10000|PHY93_10000 435 NAKSVLAIEFLCNTQALDFQRPLKSSPPLEAVHTLIR 471
                              *******************887999*********998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (509 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       461  (0.0257125); expected 358.6 (0.02)
Passed bias filter:                      437  (0.0243739); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.41
# Mc/sec: 3767.90
//
Query:       PHY93_10005|PHY93_10005  [L=555]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.6e-90  301.8   0.0    2.3e-90  301.3   0.0    1.2  1  Urocanase_C  Urocanase C-terminal domain
    9.5e-82  273.7   0.0    1.3e-81  273.3   0.0    1.2  1  Urocanase    Urocanase Rossmann-like domain
    7.4e-53  177.6   0.0    1.3e-52  176.8   0.0    1.4  1  Urocanase_N  Urocanase N-terminal domain


Domain annotation for each model (and alignments):
>> Urocanase_C  Urocanase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  301.3   0.0   3.9e-94   2.3e-90       1     195 [.     350     544 ..     350     545 .. 0.99

  Alignments for each domain:
  == domain 1  score: 301.3 bits;  conditional E-value: 3.9e-94
                              HHHTTT---EEEEETT--HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHH----SS-EEE----TTHHHHHHHHHHHHHHHSSSSS- CS
              Urocanase_C   1 plFsegkGPFRwvalsgdpeDlaktdeavlellkekedlirWikeAeekvkvqGlpaRilyldaeeRekialafnelvregeikap 86 
                              plF++g+GPFRwvalsgdpeD+++td+a++el++e+++l++W+++A+e v++qGlpaRi++l+++eRek++l fn+lvreg++kap
  PHY93_10005|PHY93_10005 350 PLFCQGSGPFRWVALSGDPEDIRVTDNALKELFPENKKLHNWLNKAQEMVAFQGLPARICWLKYGEREKAGLLFNKLVREGKVKAP 435
                              79************************************************************************************ PP

                              EEEEE-S-STTSEE-TTTTTTT-TTS-TTB-HHHHHHHHHHHHHT-SEEEEEESTTT-TTS-EEEEEEEEE-SSHHHHHHHHHHHH CS
              Urocanase_C  87 vvlgRDhlDvgsvasPfretenikDGsdaiaDwavlnallnaargatwvslhnGGgvgiGesinagfvvvldGteeaeerlervlt 172
                              +v+gRDhlD+gsv+sP+rete + DGsdai+Dw++ln+++n+++ga+w s+h+GGgvgiG+s+++g+v++ dGt++ ++rl+rvl+
  PHY93_10005|PHY93_10005 436 IVIGRDHLDCGSVTSPNRETEGMLDGSDAISDWSLLNLMINTMNGASWTSFHHGGGVGIGYSQHSGMVICCDGTNDLDKRLSRVLN 521
                              ************************************************************************************** PP

                              HHHHHHHHHHHHHT-HHHHHHHH CS
              Urocanase_C 173 aDvalGvvRradagyeealevak 195
                              +D+++Gv+R+adagye a+++ak
  PHY93_10005|PHY93_10005 522 SDPGMGVARHADAGYELARTTAK 544
                              ******************99886 PP

>> Urocanase  Urocanase Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  273.3   0.0   2.1e-85   1.3e-81       1     210 []     137     347 ..     137     347 .. 0.99

  Alignments for each domain:
  == domain 1  score: 273.3 bits;  conditional E-value: 2.1e-85
                              TTHHHHHHHHHHHHHHHHHHS.T.T--TT-EEEEE--STTGGGHHHHHHHTT-EEEEEES-HHHHHHHHHTTS-SEEES-HHHHHH CS
                Urocanase   1 GpQGivqGTyetllnaarkkl.gkgdlkgklvvtaGlGgMsgaQplAatiagavalvvevdesriekrleqgyvdevaddldeala 85 
                              G+QGi+qGTyet+++aa+k++  + dl+gklv+taG+GgM+gaQplA+++a++v+l+ +vd +ri+krl+++y+d +++++dea++
  PHY93_10005|PHY93_10005 137 GTQGILQGTYETFMAAAEKHYgADRDLTGKLVLTAGIGGMGGAQPLAVKMANGVCLACDVDVERINKRLKTKYLDVLCNSYDEAID 222
                              9********************65789************************************************************ PP

                              HHHHHHHCT--EEEEEES-HHHHHHHHHCTT---SEE---S-TT-TTTS---TT--HHHHHHHHHH-HHHHHHHHHHHHHHHHHHH CS
                Urocanase  86 likeakkekealsigllgnvvdvleelveegvlvdlvsdqtsahdplnGYlPegltleeakelrkedpekfkeevkeslarhveai 171
                              l+ ++kke++a+sig++gn+vd ++++++ g+++dlv+dqtsahdplnGY+P+ +tle a +lrk+dp+k+++ +++++ +hv+ +
  PHY93_10005|PHY93_10005 223 LALKSKKENKAISIGVVGNAVDFFKYVLNLGIIPDLVTDQTSAHDPLNGYVPNAMTLEAAIALRKSDPKKYTDLSYHAMGEHVRVM 308
                              ************************************************************************************** PP

                              HHHHHTT-EE-B-SS-HHHHHHHTT-TTGGGS-BHHHHT CS
                Urocanase 172 lklqekGavvfdYGnnlrkeakeagvkeafkypsyvedi 210
                              l++q+kG++vfdYGnnlr+ ak  gvk+a+++p++v+++
  PHY93_10005|PHY93_10005 309 LDFQAKGSHVFDYGNNLREGAKISGVKDAYNFPGFVPAY 347
                              *************************************98 PP

>> Urocanase_N  Urocanase N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  176.8   0.0   2.3e-56   1.3e-52       5     127 .]      12     134 ..      10     134 .. 0.99

  Alignments for each domain:
  == domain 1  score: 176.8 bits;  conditional E-value: 2.3e-56
                              -SS--SSSSHHHHHHHHHHHHCT-TTT-SBGGGTEEETTTEESSSSHHHHHHHHHHHHH--TTEEEEEETTEEEEEEE--TTS-SE CS
              Urocanase_N   5 rgeelkaksweaeailrmleNnLdpevaekpeeLvvYggtgkaarnweqfelivktLkeleedetLlvqsGkpvglfksheeaPrv 90 
                              +g++l++k+w++ea+lr l NnL+p+vae+ ++L+vYgg+g+aarn ++ e i+++Lk++e++etLl+qsGkpv++f+she+ Prv
  PHY93_10005|PHY93_10005  12 TGNQLTCKGWHQEAALRCLLNNLHPDVAEDRDNLIVYGGNGQAARNHQALEDIIHALKTIENNETLLIQSGKPVAIFPSHEHGPRV 97 
                              689*********************************************************************************** PP

                              EEEES-B-GGG-SHHHHHHHHHTT---B-TTTTTTT- CS
              Urocanase_N  91 liansnlvpkyateeefeeleakgltmyGqmtAgswi 127
                              liansnlvp++at+e f++l+++gl+myGqmtAgswi
  PHY93_10005|PHY93_10005  98 LIANSNLVPHWATWEYFNKLKDEGLIMYGQMTAGSWI 134
                              ************************************7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (555 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       404  (0.0225333); expected 358.6 (0.02)
Passed bias filter:                      387  (0.0215851); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.58u 0.22s 00:00:00.80 Elapsed: 00:00:00.41
# Mc/sec: 4109.78
//
Query:       PHY93_10010|PHY93_10010  [L=403]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.6e-10   39.3   1.6    3.3e-08   33.2   1.6    2.9  1  Amidohydro_1  Amidohydrolase family
      6e-08   32.6   1.3    0.00087   18.9   0.1    3.2  2  Amidohydro_3  Amidohydrolase family
  ------ inclusion threshold ------
      0.087   13.0   0.2       0.18   11.9   0.2    1.4  1  DUF1959       Domain of unknown function (DUF1959)


Domain annotation for each model (and alignments):
>> Amidohydro_1  Amidohydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.2   1.6   5.5e-12   3.3e-08       4     328 ..      76     398 ..      73     402 .. 0.61

  Alignments for each domain:
  == domain 1  score: 33.2 bits;  conditional E-value: 5.5e-12
                              E-EEEEEEECETTECSSS........GHHHHH........................STTHHHHHHHHHHHHHHHHTTEEEEEEEEH CS
             Amidohydro_1   4 PGlIDaHvHleqsllrga........tledwl........................vppetaaealesgiktalksGtttvadmga 57 
                              P ++D+H+Hl ++             +    l                        ++  ++  a+ + +kt+ + G++t+   + 
  PHY93_10010|PHY93_10010  76 PEIVDSHTHLVFG----GdraheytmR----LngasyeeiaaagggilnsmkgtlnLTRAELLKAAHQKVKTMRSYGVGTIEVKSG 153
                              6677888887544....3223233330....0333333334666655555555555444444444555555555555555544333 PP

                              SSTH.........HHHHHHHHHHT..SSSEEEEEEESSEGGS....GCCCSHHHHHHHHHHHHHHHHHHCTTTCEEEEEEECGTCC CS
             Amidohydro_1  58 ttst.........giealleaaee..lplglrilggkvsldr....gsaetskasreklkagaaetikgkadgvvkvalapheapa 128
                                            i++l++ ++   +       + +++++     +s+++s + +++++    +++   ++++++     he   
  PHY93_10010|PHY93_10010 154 YGLSfekeyelshVIHDLKNIVRPeiQ-------IINTFMAAhavpKSFSSSYDYMKEVVLPLLDKLG--EEQILDCVDIFHEKNY 230
                              233344445333333333333333322.......2223333344445555555555555444423332..3344443334688888 PP

                              SHHHHHHHHHHHHHHHTTEEEEEETSSCHHHHHHHHHHTTTEEEETTTTSTCCHHTTTHCCEEEHCTCEEEHHHHHHHHHHHHHHC CS
             Amidohydro_1 129 fsdeelkealkeakkrdlpvaiHaletkgevedaeaafgetiehgthlevaeslglldeiklilahgvhltpteaellkerlkeag 214
                              fsd+ +  +++ ak+ +++v iHa e +  + +++aa     e  +        +ll +     ++g+   ++ +++++  l ++g
  PHY93_10010|PHY93_10010 231 FSDDDVVFLFERAKRWNINVKIHADEFNDNKGAVLAAKY---EALSAD------HLLQT----TEDGISALAN-SNTVATLLPGTG 302
                              99999999999*************555544444455555...332222......22333....6777777755.566666666777 PP

                              EEHHHHHHHHSEHHHHHHHHHHHHTSCEEEEEE.CTTSSCCGGHHHHHHHHHHHHHHCCTTTTHCHCHHHHHHHHHTHHHHHHTT- CS
             Amidohydro_1 215 vahcpfsnsilrsgrealrkaldeGvkvglgtD.gaasgnslnlleelrlalklqrgllyedeegglslkealrmaTingAkalgl 299
                              +         l++  +++r +ld+Gv+v++++D + +s+++ nl+    +a+          + ++l   e+  + T+n+A+algl
  PHY93_10010|PHY93_10010 303 LF--------LGKSQANARAMLDAGVRVAMASDfNPGSCHCDNLILIASIAA----------PLYKLNQTELWCAITLNAAHALGL 370
                              77........***********************7779999999987777777..........445599999999************ PP

                              TTTSSSS-TTSB--EEEECCCTCGGGTTT CS
             Amidohydro_1 300 ddkvGsievGkdADlvvvdldilaafvgl 328
                               ++ G++ +G ++ + v+++d++  ++++
  PHY93_10010|PHY93_10010 371 -KNQGALVKGLKPRFSVFNTDSIDRITYN 398
                              .5****************99776666665 PP

>> Amidohydro_3  Amidohydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.5   0.2     5e-05       0.3       2      25 ..      66      89 ..      65     120 .. 0.78
   2 !   18.9   0.1   1.5e-07   0.00087     150     448 ..     117     390 ..      90     396 .. 0.68

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 5e-05
             Amidohydro_3  2 viDakGrlvlPGFvDsHtHlaggg 25
                             +iD +G++ lP  vDsHtHl  gg
  PHY93_10010|PHY93_10010 66 EIDVTGKVCLPEIVDSHTHLVFGG 89
                             69******************9998 PP

  == domain 2  score: 18.9 bits;  conditional E-value: 1.5e-07
             Amidohydro_3 150 la....plareaeaaavaaalaalasyGitsv.eagggnvsslddleplfeltaeeklplrvi...................ikel 211
                              ++     l+r+++++a+ + ++ ++syG+ ++ ++ g++ s+++++e+   +++ +    +++                    +  
  PHY93_10010|PHY93_10010 117 SMkgtlNLTRAELLKAAHQKVKTMRSYGVGTIeVKSGYGLSFEKEYELSHVIHDLK----NIVrpeiqiintfmaahavpksFS-- 196
                              44555355999999999999999999999999999999999999999988888887....344554555444444333322111.. PP

             Amidohydro_3 212 ldaaerlglpls..........pgseeltigavklfadgvlgsrtalltepyftgwpdfedealaelvaaadergldvaihaigda 287
                                         s          p  ++l  +++   +d             +f     f+d+++  l+++a+   + v iha++  
  PHY93_10010|PHY93_10010 197 -----------SsydymkevvlPLLDKLGEEQILDCVD-------------IFHEKNYFSDDDVVFLFERAKRWNINVKIHADEFN 258
                              ...........112222222223335555555555555.............333445668888999***************99866 PP

             Amidohydro_3 288 avd..dvldafeaaaekngnqdrrrlehaegvtesqiervaalqvaagvqpvfnfedelldsrlgperargstpvkellnagvkva 371
                              +     +++ +ea  +++ +q   + +  ++   ++ + va l    g++                  ++  ++ +++l+agv+va
  PHY93_10010|PHY93_10010 259 DNKgaVLAAKYEALSADHLLQT--TEDGISA--LANSNTVATLLPGTGLF-----------------LGKSQANARAMLDAGVRVA 323
                              6664366666777766666663..2333333..34445555666666666.................23333789*********** PP

             Amidohydro_3 372 lgsDapvgpfdpwprigaavmrktrrggevlrpdeelsleealalyTrgpAkalgledrkGtLevGadADlvvldad 448
                              ++sD     f+p +   +++ + +     ++ p  +l  +e+ +++T ++A algl    G L +G +  + v+++d
  PHY93_10010|PHY93_10010 324 MASD-----FNPGSCHCDNLILIA----SIAAPLYKLNQTELWCAITLNAAHALGLKNQ-GALVKGLKPRFSVFNTD 390
                              ****.....999999999999999....6889**************************9.****9977666666654 PP

>> DUF1959  Domain of unknown function (DUF1959)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.2   3.1e-05      0.18       6      64 ..     197     255 ..     194     257 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 3.1e-05
                              TSHHHHHHTTTTTTTTGGGT.HHHHHHHHHHHS-HHHHHHHHHHHHTTHHHHHHHHHHHH CS
                  DUF1959   6 ksfryeedvivPlskelkis.veeledilvkklDmasleelhatvesakkeclkrkldiD 64 
                              +s+ y+++v++Pl  +l+ + + + +di+ +k  +++ +++   +e ak+  ++ k+++D
  PHY93_10010|PHY93_10010 197 SSYDYMKEVVLPLLDKLGEEqILDCVDIFHEKNYFSD-DDVVFLFERAKRWNINVKIHAD 255
                              5899*************8652689******9988877.667779**************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (403 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       494  (0.0275531); expected 358.6 (0.02)
Passed bias filter:                      454  (0.0253221); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.54u 0.21s 00:00:00.75 Elapsed: 00:00:00.37
# Mc/sec: 3225.67
//
Query:       PHY93_10015|PHY93_10015  [L=115]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00055   20.0   8.1      0.005   16.9   1.3    2.5  2  Kazal_2   Kazal-type serine protease inhibitor domain
  ------ inclusion threshold ------
       0.61   10.1   9.0          3    7.9   2.7    2.7  2  Kazal_1   Kazal-type serine protease inhibitor domain


Domain annotation for each model (and alignments):
>> Kazal_2  Kazal-type serine protease inhibitor domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   1.3   5.6e-07     0.005       3      33 ..      39      67 ..      37      77 .. 0.80
   2 !    5.5   2.5    0.0021        18       4      19 ..      77      90 ..      73      97 .. 0.72

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 5.6e-07
                             CCGCCT-----.EEETTTEEESSHHHHHHHCC CS
                  Kazal_2  3 eckCpeleydp.VCGsDgktYtseCkLqaagC 33
                             ++ C+ +++ p VCG Dgk+Y +     +a C
  PHY93_10015|PHY93_10015 39 NKECSFTSEGPlVCGMDGKEYVNKE---QAEC 67
                             689**9999999**********986...6666 PP

  == domain 2  score: 5.5 bits;  conditional E-value: 0.0021
                             CGCCT----.-EEETTT CS
                  Kazal_2  4 ckCpeleyd.pVCGsDg 19
                             c+C+    +  VCGsDg
  PHY93_10015|PHY93_10015 77 CQCS---QSiIVCGSDG 90
                             7777...4425*****9 PP

>> Kazal_1  Kazal-type serine protease inhibitor domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9   2.7   0.00033         3      16      27 ..      51      62 ..      34      82 .. 0.75
   2 ?    1.9   4.5     0.025   2.3e+02      14      28 ..      83      96 ..      67      98 .. 0.74

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.00033
                             EEETTSEEESSH CS
                  Kazal_1 16 vCGtDgkTYsne 27
                             vCG Dgk Y n+
  PHY93_10015|PHY93_10015 51 VCGMDGKEYVNK 62
                             9********997 PP

  == domain 2  score: 1.9 bits;  conditional E-value: 0.025
                             --EEETTSEEESSHH CS
                  Kazal_1 14 epvCGtDgkTYsneC 28
                               vCG+Dg+   neC
  PHY93_10015|PHY93_10015 83 IIVCGSDGFDH-NEC 96
                             459*****984.777 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (115 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       520  (0.0290033); expected 358.6 (0.02)
Passed bias filter:                      261  (0.0145574); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.39u 0.23s 00:00:00.62 Elapsed: 00:00:00.38
# Mc/sec: 897.85
//
Query:       PHY93_10020|PHY93_10020  [L=182]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.8e-16   58.8   0.4    6.5e-16   58.4   0.4    1.2  1  AhpC-TSA       AhpC/TSA family
    9.6e-15   54.6   0.1    1.2e-14   54.2   0.1    1.1  1  Redoxin        Redoxin
    4.7e-12   46.1   1.6    7.4e-12   45.4   1.6    1.3  1  Thioredoxin_8  Thioredoxin-like
    2.2e-09   37.3   1.0    2.5e-06   27.4   0.3    2.2  2  Thioredoxin    Thioredoxin
     0.0027   18.1   0.1     0.0043   17.5   0.1    1.3  1  Thioredoxin_2  Thioredoxin-like domain
  ------ inclusion threshold ------
      0.051   13.3   0.1      0.071   12.8   0.1    1.2  1  EDR1           Ethylene-responsive protein kinase Le-CTR1
       0.15   12.0   0.2        1.6    8.7   0.0    2.3  2  HyaE           Hydrogenase-1 expression protein HyaE


Domain annotation for each model (and alignments):
>> AhpC-TSA  AhpC/TSA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.4   0.4   2.5e-19   6.5e-16      12     121 ..      53     160 ..      43     163 .. 0.87

  Alignments for each domain:
  == domain 1  score: 58.4 bits;  conditional E-value: 2.5e-19
                              STTCEEEECHHHTTSEEEEEEESTST-CCHHHHHHHHHHCHHHCCCTTEEEEEEESSSCH...HHHHHHHH-H...SSEEEE-TTS CS
                 AhpC-TSA  12 nadgetvslsdykgkpvvlffypkdwcpvCttelpalaklyeefkergvevigvsvdspe...shkkfiekes..lnfpllsDeeg 92 
                              + +g++++ +++k  +v+ +f+++ wc +C +e+p+l  l ++fk+  v+v++ ++d+ e   +++k ++k +   +f++++D++ 
  PHY93_10020|PHY93_10020  53 TIEGKKIENTKLKSPVVIYNFWAS-WCNPCLEEMPSLISLKKQFKNDEVQVLAFNTDEDEqlkNINKIVKKLNikNEFNIIADKNT 137
                              567899999999997778889999.*********************************9966667777777778889********* PP

                              HHHHHTT-EETTTTECSCEEEEE-TTSBE CS
                 AhpC-TSA  93 kvakaygvlkeekglalratfvidkegki 121
                              k+a++++        a++ t+++++ +++
  PHY93_10020|PHY93_10020 138 KIAESFKFS------AIPVTIIFNRGKVV 160
                              *********......********985554 PP

>> Redoxin  Redoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.2   0.1   4.9e-18   1.2e-14      17     136 ..      55     168 ..      42     178 .. 0.87

  Alignments for each domain:
  == domain 1  score: 54.2 bits;  conditional E-value: 4.9e-18
                              CEEEEEHHHHTTSEEEEEEESTTT-HHHHHTHHHHHTHHHHHHCSTTTEEEEEESSSHH...HHHHHHH..TT-TSEEEE-TTSHH CS
                  Redoxin  17 dgnsvslsefkgkkvvvnfvpgafcPtCsaehpyleklaellkekgvdvvavvadndaf...vkefwgk..eglkfpvlsDgsaaf 97 
                              +g++++  ++k  +v+ nf+++ +c +C +e+p l  l++++k+  v+v+a ++d+d++    ++ ++k   ++ f +++D + ++
  PHY93_10020|PHY93_10020  55 EGKKIENTKLKSPVVIYNFWAS-WCNPCLEEMPSLISLKKQFKNDEVQVLAFNTDEDEQlknINKIVKKlnIKNEFNIIADKNTKI 139
                              68889999999999999*****.************************************9999999999663447788******** PP

                              HHHTT-TTEEE.GGGEEE-EEEEEEETTEEEEEEESSSC CS
                  Redoxin  98 tkalGlrleedaseglrtpryavidedgkvvylevepep 136
                              +++++           ++p +++++  gkvv+  ++p++
  PHY93_10020|PHY93_10020 140 AESFKFS---------AIPVTIIFN-RGKVVHFSNGPMD 168
                              *****44.........888777666.5999999999987 PP

>> Thioredoxin_8  Thioredoxin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.4   1.6   2.9e-15   7.4e-12       3      93 ..      68     158 ..      66     160 .. 0.83

  Alignments for each domain:
  == domain 1  score: 45.4 bits;  conditional E-value: 2.9e-15
                              EEEEEE--SSSHHHHHHHHHHHHHHHHHHHTTSEEEEEEE-SS-H..HHHHHHGGGS-TTSEE.EE-TT-HHHHTT-S--TT-SEE CS
            Thioredoxin_8   3 vvlLyfgaswcppckaftpklkelyeklkkkkkveivyvsldkke..eefekylkknkkpwlsvpfddkkrnklkkkynvkaiPtl 86 
                              vv+  f+aswc pc + +p+l+ l++++k ++ v++++ + d++e  ++ +k +kk +    ++    +k+ k+++ ++ +aiP +
  PHY93_10020|PHY93_10020  68 VVIYNFWASWCNPCLEEMPSLISLKKQFK-NDEVQVLAFNTDEDEqlKNINKIVKKLNI-KNEFNIIADKNTKIAESFKFSAIPVT 151
                              68999***********************9.9**********976433889999999933.333334445689************** PP

                              EEE-TT- CS
            Thioredoxin_8  87 vvldkng 93 
                              ++ ++ +
  PHY93_10020|PHY93_10020 152 IIFNRGK 158
                              **99755 PP

>> Thioredoxin  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.4   0.3   9.6e-10   2.5e-06      18      66 ..      66     115 ..      51     126 .. 0.84
   2 !    9.1   0.1   0.00048       1.2      55      92 ..     130     167 ..     114     180 .. 0.80

  Alignments for each domain:
  == domain 1  score: 27.4 bits;  conditional E-value: 9.6e-10
                              SSEEEEEEE-TTSHHHHCHHHHHHHHHHHCTT.TSEEEEEETTTSHHHHH CS
              Thioredoxin  18 kklvlveFyApwCghCkalaPeleklaeelkd.kvklakvdvdenedlak 66 
                              +  v+ +F+A+wC +C +  P l +l++++k+ +v+++  ++de e+l +
  PHY93_10020|PHY93_10020  66 SPVVIYNFWASWCNPCLEEMPSLISLKKQFKNdEVQVLAFNTDEDEQLKN 115
                              4566779************************9999999999999988765 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.00048
                              EEETTTSHHHHHHTT-SSSSEEEEEETTEEEEEEESS- CS
              Thioredoxin  55 kvdvdenedlakkyevegiPtlklfkngkevkkyegar 92 
                              ++ +d+n+++a+ ++ ++iP  ++f+ gk v+  +g  
  PHY93_10020|PHY93_10020 130 NIIADKNTKIAESFKFSAIPVTIIFNRGKVVHFSNGPM 167
                              56689************************998888875 PP

>> Thioredoxin_2  Thioredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.1   1.7e-06    0.0043       7      99 ..      68     166 ..      62     176 .. 0.67

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 1.7e-06
            Thioredoxin_2   7 pvlvvftdpdCpyCkklkkelkelddvtvrvllfplkpsfepkavaiwcakekk.kafkd..............ieenvelarkyg 77 
                               v++ f++++C  C     e+ +l ++++      +k++ e ++ a+ ++++++ k++++               ++n + a++++
  PHY93_10020|PHY93_10020  68 VVIYNFWASWCNPCLE---EMPSLISLKKQ-----FKND-EVQVLAFNTDEDEQlKNINKivkklniknefniiADKNTKIAESFK 144
                              5899********9988...66666555665.....5555.33333333333333244444666666677999999*********** PP

            Thioredoxin_2  78 vrgtPt.ivfldgkeivarlpGy 99 
                               ++ P  i+f  gk +v    G 
  PHY93_10020|PHY93_10020 145 FSAIPVtIIFNRGK-VVHFSNGP 166
                              ******44455555.66666665 PP

>> EDR1  Ethylene-responsive protein kinase Le-CTR1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.1   2.8e-05     0.071      40      85 ..      83     127 ..      68     144 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 2.8e-05
                     EDR1  40 gkipsleelqavepenssvevvlvdrekDseLkeleqtavklvsel 85 
                              +++psl +l++   +n++v+v+  ++ +D +Lk++++ + kl  + 
  PHY93_10020|PHY93_10020  83 EEMPSLISLKKQ-FKNDEVQVLAFNTDEDEQLKNINKIVKKLNIKN 127
                              68********77.77********************99998876554 PP

>> HyaE  Hydrogenase-1 expression protein HyaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.1      0.12   3.2e+02      52      81 ..      90     119 ..      82     124 .. 0.79
   2 ?    8.7   0.0   0.00064       1.6      54      96 ..     120     160 ..     116     170 .. 0.81

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.12
                              HHHCT-TTS-EEEEEETHHHHHHHHHCCT- CS
                     HyaE  52 EllkaFpnalraavvadreqeealaerfgv 81 
                               l k+F+n   ++ + +++++e+l++  ++
  PHY93_10020|PHY93_10020  90 SLKKQFKNDEVQVLAFNTDEDEQLKNINKI 119
                              588999999999888888888888876655 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 0.00064
                              HCT-TTS-EEEEEETHHHHHHHHHCCT-TSSSEEEEEETTEEE CS
                     HyaE  54 lkaFpnalraavvadreqeealaerfgvlktPsllflrdgeyl 96 
                              +k+ +   +  ++a  ++++++ae f+++  P ++++  g+++
  PHY93_10020|PHY93_10020 120 VKKLNIKNEFNIIA--DKNTKIAESFKFSAIPVTIIFNRGKVV 160
                              56666666777888..7899******************99987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (182 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1235  (0.0688828); expected 358.6 (0.02)
Passed bias filter:                      617  (0.0344135); expected 358.6 (0.02)
Passed Vit filter:                        60  (0.00334653); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.48u 0.19s 00:00:00.67 Elapsed: 00:00:00.38
# Mc/sec: 1429.10
//
Query:       PHY93_10025|PHY93_10025  [L=62]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.054   13.3   0.5       0.06   13.1   0.5    1.1  1  TadF      Putative tight adherence pilin protein F


Domain annotation for each model (and alignments):
>> TadF  Putative tight adherence pilin protein F
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.5   3.3e-06      0.06       3      29 ..       9      36 ..       7      45 .. 0.80

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 3.3e-06
                     TadF  3 lkkqrGsvtielalvllflsll.liflv 29
                             l++q+G   +e++++l++l+ + ++f+ 
  PHY93_10025|PHY93_10025  9 LRDQKGQTFVEFIFILVLLITIsFTFMR 36
                             689************9999877466765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (62 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       726  (0.0404931); expected 358.6 (0.02)
Passed bias filter:                      395  (0.0220313); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.34u 0.22s 00:00:00.56 Elapsed: 00:00:00.35
# Mc/sec: 523.62
//
Query:       PHY93_10030|PHY93_10030  [L=501]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    9.3e-67  225.1   0.1      2e-66  224.0   0.0    1.6  2  FGGY_N       FGGY family of carbohydrate kinases, N-terminal 
    5.9e-52  176.3   0.5    1.1e-51  175.4   0.1    1.6  2  FGGY_C       FGGY family of carbohydrate kinases, C-terminal 
  ------ inclusion threshold ------
      0.023   14.2   0.1          2    7.9   0.2    2.2  2  BcrAD_BadFG  BadF/BadG/BcrA/BcrD ATPase family


Domain annotation for each model (and alignments):
>> FGGY_N  FGGY family of carbohydrate kinases, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  224.0   0.0   3.4e-70     2e-66       2     245 .]       4     251 ..       3     251 .. 0.97
   2 ?   -3.1   0.0      0.79   4.7e+03      45      89 ..     375     419 ..     369     428 .. 0.72

  Alignments for each domain:
  == domain 1  score: 224.0 bits;  conditional E-value: 3.4e-70
                              EEEEEEESSEEEEEEEE.TTS-EEEEEEEE--EB-SSTT--EE-HHHHHHHHHHHHHHHHHHCT.-GCCEEEEEEEE-SS-EEEEE CS
                   FGGY_N   2 ilglDcGttstkaivld.ekgkvvasaqaelelsspkegwaeqdpeeiwqalaeairkvleqagisekqikaIgisgqreglvllD 86 
                              il++D+Gtt+t a ++d e+   +++ ++e+++++pk++w+e++++ iw ++  ++r+vl+ ++++ +qi+aIgi++qre++ +++
  PHY93_10030|PHY93_10030   4 ILSIDQGTTGTTACLIDaETFLFIGKINKEYPQIYPKPSWVEHNLNDIWSSVEFTVREVLRSHNVQGSQIAAIGITNQRETTCAFN 89 
                              799**************888899*************************************************************** PP

                              TTTEESSEEE-TT--TTHHHHHHHHH.TTCHCCHHHHHSS-SSTTSHHHHHHHHHHHSCCHHCCHC....EEEEHHHHHHHHHCT. CS
                   FGGY_N  87 kndkpLynailwkdrrtaeiveklke.egnekklyektglvlstgftlsklkWlkenepevfekie....kflliddyLiwrLtg. 166
                              + + pL nai+w+drrt+e +++lk+ +  ++k++  tgl+++++f++sk++Wl++n+  v  +++    +f++id++L ++Ltg 
  PHY93_10030|PHY93_10030  90 RAGAPLANAIVWQDRRTSEFCQELKAqKSLPEKIKILTGLPIEPYFSASKMNWLLKNNSAVKDAAHnndlLFGTIDTFLLYKLTGh 175
                              **************************88999**********************************9*******************9 PP

                              .--EEEHHHHCTTTSEETTTTEE-HHHHHHTT--GGGS-EEE-TCCEEEEEECCCCCCTT.S-EEEEEEEEEHHHHHHHH CS
                   FGGY_N 167 .qfvtdvtnasesmlfnikklewdeellailgipeelLPklvesseiigelkpelaaklGlkegvpvvggggDqqaaalG 245
                                + td +nas++ml+n+k+  wd+ell+++ +++e LP +  s +++g +k+          g+pv g++gDqq+a++G
  PHY93_10030|PHY93_10030 176 tDHKTDASNASRTMLMNLKTTSWDQELLDLFEVKKESLPSIEDSFQQFGVTKNLSFLPD----GIPVTGILGDQQSALFG 251
                              99************************************************998776666....6***************9 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 0.79
                              HHHHHHHHHHHHHHHHHHCT.-GCCEEEEEEEE-SS-EEEEETTT CS
                   FGGY_N  45 peeiwqalaeairkvleqagisekqikaIgisgqreglvllDknd 89 
                               + i  a+ e i+  ++ + +   +  +++is+ ++++ ++D+n 
  PHY93_10030|PHY93_10030 375 RAHIAYACLEGIALSINDLLVAMRKDTGLAISTLKVDGGAVDNNL 419
                              556666777777777777778888888999999999999999875 PP

>> FGGY_C  FGGY family of carbohydrate kinases, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0      0.59   3.5e+03      49      70 ..     138     156 ..     134     183 .. 0.71
   2 !  175.4   0.1   1.9e-55   1.1e-51       1     197 [.     260     452 ..     260     453 .. 0.94

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 0.59
                   FGGY_C  49 slvawlldnlglreeirdagev 70 
                              s ++wll+n  +   ++da+++
  PHY93_10030|PHY93_10030 138 SKMNWLLKNNSA---VKDAAHN 156
                              567899999644...6665555 PP

  == domain 2  score: 175.4 bits;  conditional E-value: 1.9e-55
                   FGGY_C   1 akvslGTssflll.vgtkpvisehglltpva.gedgkpeyalegsiavagslvawlldnlglreeirdageveeslaelaaaeava 84 
                              +k+++GT+ f+ll +g+k + s+ gllt+v+   +gk+ yalegs ++ag++v+wl+dnl++   i++++ev e la+ +  ++++
  PHY93_10030|PHY93_10030 260 MKCTYGTGAFVLLnTGDKLIYSKSGLLTTVEyRHKGKTCYALEGSSYIAGAAVQWLRDNLKI---ISKSSEV-EALAL-EVKNLDE 340
                              58***********7777777***********76679**************************...*******.99994.4445555 PP

                   FGGY_C  85 daggvvfvpafsglrapywdpdargtitglsssttlahiarAaleavalqlrailealekdsgkpldrlavdGGgskndllmqllA 170
                                ++++f p fsg  +pyw+++a+++i+gl+++++ ahia+A le++al++ + l a+ kd+g ++++l vdGG++ n+llmql+A
  PHY93_10030|PHY93_10030 341 L-KNILFFPFFSGIGSPYWNAEAKASIVGLTRDSNRAHIAYACLEGIALSINDLLVAMRKDTGLAISTLKVDGGAVDNNLLMQLQA 425
                              4.59********************************************************************************** PP

                   FGGY_C 171 dilgvpVerpktaeatalGaAilAava 197
                              +i  +++ +pk  e+ta+GaA++Aa+ 
  PHY93_10030|PHY93_10030 426 SISETKIIKPKIIETTAFGAALAAAIG 452
                              ************************985 PP

>> BcrAD_BadFG  BadF/BadG/BcrA/BcrD ATPase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.4   0.0    0.0038        23       3      30 ..       7      42 ..       5     189 .. 0.79
   2 ?    7.9   0.2   0.00033         2     191     267 .]     379     449 ..     369     449 .. 0.82

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.0038
                             EEE-SSEEEEEEEETTTE.EEEEEEE--.......T CS
              BcrAD_BadFG  3 iDgGsTttkavlmdekge.vlgrgitns.......a 30
                             iD G+T t a+l+d +   ++g+  +         +
  PHY93_10030|PHY93_10030  7 IDQGTTGTTACLIDAETFlFIGKINKEYpqiypkpS 42
                             9*************8876555555444433333332 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.00033
                              HHHHHHHHHHHHHHHHHHHHHTT---SS.EEEESGGGG-HHHHHHH.....HHHH-S-EE--GGGGGHHHHHHHHHH CS
              BcrAD_BadFG 191 aedIlaglhraialrvialisrsggvtdevtltGGvakneaavkelrklvkenygevkininpdsiytgalGAalfA 267
                              a + l+g++ +i +++ a+++  g    ++ + GG   n +++ +l    + ++ e k  i+p+ i t a GAal A
  PHY93_10030|PHY93_10030 379 AYACLEGIALSINDLLVAMRKDTGLAISTLKVDGGAVDN-NLLMQL----QASISETK-IIKPKIIETTAFGAALAA 449
                              556799999***************99999**********.777677....55555544.367999999******987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (501 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       535  (0.0298399); expected 358.6 (0.02)
Passed bias filter:                      436  (0.0243181); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.25s 00:00:00.80 Elapsed: 00:00:00.41
# Mc/sec: 3704.24
//
Query:       PHY93_10035|PHY93_10035  [L=187]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.1e-05   24.7   1.5    2.9e-05   24.2   0.9    1.5  1  ApoLp-III        Apolipophorin-III precursor (apoLp-III)
    9.4e-05   22.5   8.3     0.0046   17.0   1.3    2.2  3  Baculo_PEP_C     Baculovirus polyhedron envelope protein, PEP
    0.00018   21.6  18.7    0.00052   20.1   6.2    2.1  2  DUF1640          Protein of unknown function (DUF1640)
    0.00036   20.5   5.6      0.086   12.9   1.7    3.3  3  TolA_bind_tri    TolA binding protein trimerisation
    0.00083   19.3   4.6     0.0022   17.9   4.6    1.6  1  Apolipoprotein   Apolipoprotein A1/A4/E domain
    0.00093   18.6  11.0     0.0092   15.4   3.5    2.1  2  SF-assemblin     SF-assemblin/beta giardin
     0.0014   18.4   8.9      0.076   12.8   3.9    3.0  3  Lectin_N         Hepatic lectin, N-terminal domain
      0.002   18.0   9.0     0.0024   17.7   9.0    1.1  1  FAM184           Family with sequence similarity 184, A and B
     0.0021   18.3   2.3        6.9    7.1   0.1    3.4  3  kleA_kleC        Uncharacterized KorC regulated protein A
     0.0029   17.6   9.3      0.012   15.6   2.1    2.4  2  DUF1664          Protein of unknown function (DUF1664)
     0.0085   16.5   5.3        1.4    9.3   0.2    3.9  2  LPP              Lipoprotein leucine-zipper
  ------ inclusion threshold ------
      0.013   13.5   2.8      0.017   13.2   2.8    1.3  1  Prominin         Prominin
      0.027   14.6  11.7        0.2   11.8   4.1    3.0  3  Cnn_1N           Centrosomin N-terminal motif 1
      0.039   11.5  10.5      0.076   10.5  10.5    1.4  1  DUF3584          Protein of unknown function (DUF3584)
       0.04   13.8   5.3        5.3    6.9   1.3    2.7  3  CCDC24           Coiled-coil domain-containing protein 24 fam
       0.04   14.3   7.9      0.042   14.2   2.3    2.3  2  YlqD             YlqD protein
      0.041   14.2   4.3       0.14   12.5   3.6    2.1  1  OmpH             Outer membrane protein (OmpH-like)
      0.048   13.3   4.2        1.9    8.1   0.2    2.3  2  ThylakoidFormat  Thylakoid formation protein
      0.055   13.4   6.7       0.29   11.0   1.6    2.4  2  Phage_Mu_Gam     Bacteriophage Mu Gam like protein
      0.055   13.7   1.9         12    6.2   0.1    3.4  3  T3SS_needle_F    Type III secretion needle MxiH, YscF, SsaG, 
      0.056   13.0  11.0      0.087   12.4   7.5    1.9  2  Filament         Intermediate filament protein
      0.068   13.5   1.9       0.15   12.4   0.9    1.9  2  DUF2390          Protein of unknown function (DUF2390)
      0.069   11.7   6.2      0.099   11.2   6.2    1.2  1  Zw10             Centromere/kinetochore Zw10
      0.074   12.7   2.6       0.62    9.7   0.3    2.6  3  PhaC_N           Poly-beta-hydroxybutyrate polymerase (PhaC) 
      0.078   12.5   7.2        2.8    7.5   1.9    2.8  2  Fzo_mitofusin    fzo-like conserved region
       0.09   12.8   5.7       0.35   10.9   5.7    2.2  1  TPR_MLP1_2       TPR/MLP1/MLP2-like protein
        0.1   13.0   5.3        1.3    9.5   0.2    3.0  2  Eno-Rase_FAD_bd  Enoyl reductase FAD binding domain
       0.13   12.6   3.0         13    6.2   0.1    3.1  3  HalX             HalX domain
       0.15   12.0   0.1        1.9    8.4   0.1    2.2  1  ApoO             Apolipoprotein O
       0.17   12.5   5.2       0.75   10.4   2.1    2.4  2  DUF883           Bacterial protein of unknown function (DUF88
       0.17   11.2   3.7       0.36   10.2   3.8    1.5  1  DUF4407          Domain of unknown function (DUF4407)
       0.18   11.0   8.0        0.1   11.8   3.4    2.1  2  DLP_helical      Dynamin-like helical domain
       0.23   11.3   9.4        2.3    8.0   9.4    2.4  1  Bacillus_HBL     Bacillus haemolytic enterotoxin (HBL)
       0.25   12.2   9.3         43    5.0   9.3    2.8  1  FliT             Flagellar protein FliT
       0.42   10.8   6.6        4.2    7.6   6.6    2.3  1  DUF1319          Protein of unknown function (DUF1319)
       0.43   10.8  11.1       0.64   10.3   8.1    2.7  2  TMF_TATA_bd      TATA element modulatory factor 1 TATA bindin
       0.52   10.9  10.1        4.2    8.0   0.4    2.4  2  HIP1_clath_bdg   Clathrin-binding domain of Huntingtin-intera
       0.53   10.6  12.7        8.1    6.8   0.4    4.2  4  ATP-synt_E_2     ATP synthase epsilon subunit
       0.66   10.5   6.6        3.5    8.2   0.2    3.6  3  COMP             Cartilage oligomeric matrix protein
       0.86   10.2   9.5        6.5    7.4   3.3    2.8  2  BST2             Bone marrow stromal antigen 2
       0.89    8.9  14.0        1.4    8.2   1.5    2.0  2  FAM76            FAM76 protein
       0.93    9.7   9.7        3.3    7.9   4.9    2.6  3  DUF3958          Protein of unknown function (DUF3958)
          1    9.4   5.2        3.9    7.5   3.7    2.1  2  DUF1451          Zinc-ribbon containing domain
        1.1    9.8   5.9         33    5.1   5.9    2.6  1  YtxH             YtxH-like protein
        1.2    9.3  10.8        1.2    9.3   9.1    1.8  2  Fib_alpha        Fibrinogen alpha/beta chain family
        1.6    7.9   5.3        1.4    8.1   4.1    1.6  2  TMPIT            TMPIT-like protein
        1.8    8.7   9.3        8.7    6.5   1.8    3.2  3  IFP_35_N         Interferon-induced 35 kDa protein (IFP 35) N
        1.9    6.6   5.2       0.73    8.0   0.3    2.3  3  Fusion_gly       Fusion glycoprotein F0
        2.3    8.4   8.9         14    5.9   3.9    2.9  2  DUF1542          Domain of Unknown Function (DUF1542)
        2.9    8.2  12.2        1.4    9.2   7.6    2.5  3  DUF5082          Domain of unknown function (DUF5082)
        2.9    8.4  13.0         26    5.4   1.2    3.5  3  KELK             KELK-motif containing domain of MRCK Ser/Thr
          3    7.9   8.5         16    5.5   4.6    2.2  2  FlxA             FlxA-like protein
        8.8    6.2  14.9        2.6    7.9   2.6    3.1  4  CdvA             CdvA-like coiled-coil domain


Domain annotation for each model (and alignments):
>> ApoLp-III  Apolipophorin-III precursor (apoLp-III)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.2   0.9   8.6e-08   2.9e-05      62     145 ..      65     148 ..      45     149 .. 0.93

  Alignments for each domain:
  == domain 1  score: 24.2 bits;  conditional E-value: 8.6e-08
                ApoLp-III  62 evkkkieetadklseenPevkkkaqelqekvQsgvqslvkesqklaeslkensqeakeklakaikqayddaveaaqklakqLke 145
                              e+ + +   + +l++++ e+kk ++ l++ vQ+ ++ l +  q+  ++lk ++++   +++k i+ +  d+ e+  +l++ +k+
  PHY93_10035|PHY93_10035  65 ELSNGVHALRSDLRSQKDELKKDINFLRSDVQKDIRDLCSGMQEQKAELKHDISTLRSDVQKDIRDLRSDMLEQKAELKNDIKT 148
                              566677778899999****************************************************************99986 PP

>> Baculo_PEP_C  Baculovirus polyhedron envelope protein, PEP, C terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.7   0.2     0.021       7.2      61     101 ..      55      95 ..      20     104 .. 0.55
   2 !   16.3   0.9   2.2e-05    0.0075      17      93 ..      65     134 ..      57     137 .. 0.87
   3 !   17.0   1.3   1.4e-05    0.0046      34      94 ..     104     164 ..      94     168 .. 0.74

  Alignments for each domain:
  == domain 1  score: 6.7 bits;  conditional E-value: 0.021
             Baculo_PEP_C  61 ldtrldtlltnLtdalnalqdtlrneLtnlnsiltnLlssv 101
                              ++++l  + ++L++ + al  +lr++ + l+++++ L s+v
  PHY93_10035|PHY93_10035  55 MKEDLLIQKNELSNGVHALRSDLRSQKDELKKDINFLRSDV 95 
                              44444444444444444444444444444444444444444 PP

  == domain 2  score: 16.3 bits;  conditional E-value: 2.2e-05
             Baculo_PEP_C  17 dLtnvLnairlqnvqilaqlatlldaietqLnalsedlksllaeldtrldtlltnLtdalnalqdtlrneLtnlnsi 93 
                              +L+n ++a+        ++l +++d++++ +n l +d+++ + +l + ++++ ++L++ + +l  ++++++  l s+
  PHY93_10035|PHY93_10035  65 ELSNGVHAL-------RSDLRSQKDELKKDINFLRSDVQKDIRDLCSGMQEQKAELKHDISTLRSDVQKDIRDLRSD 134
                              666666666.......68999999****************9999999****************99999999988886 PP

  == domain 3  score: 17.0 bits;  conditional E-value: 1.4e-05
             Baculo_PEP_C  34 aqlatlldaietqLnalsedlksllaeldtrldtlltnLtdalnalqdtlrneLtnlnsil 94 
                              + +++++++++  +++l +d+++ + +l++++ ++ ++L++ +++l +++++++  l+s++
  PHY93_10035|PHY93_10035 104 SGMQEQKAELKHDISTLRSDVQKDIRDLRSDMLEQKAELKNDIKTLRTEIKTDIHKLDSKM 164
                              4556777778888888888888888888888888888888888888888888888887765 PP

>> DUF1640  Protein of unknown function (DUF1640)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.3   6.0     0.027       9.3      30     111 ..      18     100 ..      13     110 .. 0.72
   2 !   20.1   6.2   1.5e-06   0.00052      88     148 ..     106     166 ..     100     184 .. 0.83

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.027
                  DUF1640  30 vlneslekvakslvskselekseyl.qkaalselrkevqisersefaalrseteklqreleklkqkLreeidklkadirldln 111
                              +  e l+kv+++ ++ +e+ + +++ q  ++ ++  +++     + ++l +   +l+++l   k +L+++i+ l++d++ d+ 
  PHY93_10035|PHY93_10035  18 MSDEILSKVNREKITTEEMIILILKaQTNHFHHMDVDMKEDLLIQKNELSNGVHALRSDLRSQKDELKKDINFLRSDVQKDIR 100
                              55666777777778888777766542566777777788777777778888888888888888888888888888888887764 PP

  == domain 2  score: 20.1 bits;  conditional E-value: 1.5e-06
                  DUF1640  88 leklkqkLreeidklkadirldlnleKgrireelakleakiqelnnkidrevsalrteiEs 148
                              +++ k +L+++i++l++d++ d+ + ++++ e+ a+l++ i+ l + i++++++l ++++s
  PHY93_10035|PHY93_10035 106 MQEQKAELKHDISTLRSDVQKDIRDLRSDMLEQKAELKNDIKTLRTEIKTDIHKLDSKMDS 166
                              5566789999999999999999999999999999999999999999999999999999986 PP

>> TolA_bind_tri  TolA binding protein trimerisation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.1     0.036        12      17      43 ..      71      97 ..      55     103 .. 0.82
   2 !   12.9   1.7   0.00025     0.086      22      71 ..     105     155 ..     100     156 .. 0.89
   3 ?    7.5   0.1     0.013       4.2      21      49 ..     133     161 ..     129     166 .. 0.87

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.036
            TolA_bind_tri 17 sqlllelqqqlealqqelreLRGqiEe 43
                               l  +l +q ++l+++++ LR ++++
  PHY93_10035|PHY93_10035 71 HALRSDLRSQKDELKKDINFLRSDVQK 97
                             4677899***************99986 PP

  == domain 2  score: 12.9 bits;  conditional E-value: 0.00025
            TolA_bind_tri  22 elqqqlealqqelreLRGqiEelqyqle.qleerQrdlYldlDerlrklea 71 
                               +q+q  +l++++++LR ++++   +l+ +++e+  +l +d+ ++ +++++
  PHY93_10035|PHY93_10035 105 GMQEQKAELKHDISTLRSDVQKDIRDLRsDMLEQKAELKNDIKTLRTEIKT 155
                              59********************99999537***********9999998875 PP

  == domain 3  score: 7.5 bits;  conditional E-value: 0.013
            TolA_bind_tri  21 lelqqqlealqqelreLRGqiEelqyqle 49 
                               ++++q  +l++++++LR +i    ++l+
  PHY93_10035|PHY93_10035 133 SDMLEQKAELKNDIKTLRTEIKTDIHKLD 161
                              79****************99988777775 PP

>> Apolipoprotein  Apolipoprotein A1/A4/E domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   4.6   6.6e-06    0.0022      31     120 ..      73     158 ..      62     168 .. 0.46

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 6.6e-06
                              HHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHCCCHHHHHHHHHCCHHHHHHHHHHHHCHHCCHHCHCCHCHHHHHHHHHHHHHHH CS
           Apolipoprotein  31 lskeleelrarlraeleevrarlepyrdevqeqlgqnleelrqrlapyteelrerlaadaeelqeqlavyaeelrerlerhvealk 116
                              l  +l + +++l+++++ +r+ ++ ++ ++   ++++  el+ +++++ +++    ++d+++l+  + + ++el++ +++   ++k
  PHY93_10035|PHY93_10035  73 LRSDLRSQKDELKKDINFLRSDVQKDIRDLCSGMQEQKAELKHDISTLRSDV----QKDIRDLRSDMLEQKAELKNDIKTLRTEIK 154
                              3334444444444444444444444444444444444444444444433333....335555555555555555555554444444 PP

                              HHHC CS
           Apolipoprotein 117 arla 120
                              + ++
  PHY93_10035|PHY93_10035 155 TDIH 158
                              4333 PP

>> SF-assemblin  SF-assemblin/beta giardin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   3.5   2.7e-05    0.0092      75     147 ..      40     116 ..      27     125 .. 0.82
   2 !    7.9   1.0     0.005       1.7      98     167 ..     125     165 ..     113     169 .. 0.46

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 2.7e-05
             SF-assemblin  75 lqekikeevddlalelkkav....eelnekinnveanvenekakrrdaieklakelvkelneleaaideEkaerkkk 147
                              + + + ++++ + +++k+ +    +el + +  + + ++ +k   +++i+ l+ ++ k++ +l ++++e kae k+ 
  PHY93_10035|PHY93_10035  40 ILKAQTNHFHHMDVDMKEDLliqkNELSNGVHALRSDLRSQKDELKKDINFLRSDVQKDIRDLCSGMQEQKAELKHD 116
                              4566889999999999998744445677777778899***********************************98876 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.005
             SF-assemblin  98 nekinnveanvenekakrrdaieklakelvkelneleaaideEkaerkkkedqlnkkveEdlkklsakid 167
                               + i ++ + + ++ka  +++i+ l++e+  ++ +l++                              +d
  PHY93_10035|PHY93_10035 125 QKDIRDLRSDMLEQKAELKNDIKTLRTEIKTDIHKLDSK-----------------------------MD 165
                              233444444444444444444444444444444444444.............................43 PP

>> Lectin_N  Hepatic lectin, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.3   0.8    0.0013      0.45      70     121 ..      50     102 ..      32     104 .. 0.77
   2 !   12.8   3.9   0.00023     0.076      50     123 ..      63     133 ..      62     136 .. 0.85
   3 ?    3.5   0.1      0.17        57      49      65 ..     138     154 ..     135     167 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.0013
                 Lectin_N  70 stlaei.qalssqggslsekvtsleaklekkqqdlkadhselllhvkqlvkdL 121
                              ++ +++ ++l  q ++ls+ v+ l++ l+ ++ +lk+d   l   v++   dL
  PHY93_10035|PHY93_10035  50 HMDVDMkEDLLIQKNELSNGVHALRSDLRSQKDELKKDINFLRSDVQKDIRDL 102
                              33333314688899************************999999888766665 PP

  == domain 2  score: 12.8 bits;  conditional E-value: 0.00023
                 Lectin_N  50 nsqLqreLetLketfsnfssstlaeiqalssqggslsekvtsleaklekkqqdlkadhselllhvkqlvkdLrt 123
                              + +L + +++L+ +++    + + +i+ l+s   ++++ ++ l + +++++++lk d s+l   v++   dLr+
  PHY93_10035|PHY93_10035  63 KNELSNGVHALRSDLRSQKDELKKDINFLRS---DVQKDIRDLCSGMQEQKAELKHDISTLRSDVQKDIRDLRS 133
                              5677777888888888888888888877765...78999***************************99999986 PP

  == domain 3  score: 3.5 bits;  conditional E-value: 0.17
                 Lectin_N  49 qnsqLqreLetLketfs 65 
                              q+++L+++++tL+++++
  PHY93_10035|PHY93_10035 138 QKAELKNDIKTLRTEIK 154
                              89999999999999875 PP

>> FAM184  Family with sequence similarity 184, A and B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   9.0   7.2e-06    0.0024      58     181 ..      41     164 ..      16     169 .. 0.87

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 7.2e-06
                   FAM184  58 leesleqhekekrqalaefeqykrrveerelkleaehsqkvvelsreveevkrkFeeklrqfaqlqeqleqekekaLeelrkkhre 143
                              l+ + ++++++   +  +   +k++  +   +l+++ + +  el+++++ ++ + ++ +r++ + +++ ++e ++ +++lr+  ++
  PHY93_10035|PHY93_10035  41 LKAQTNHFHHMDVDMKEDLLIQKNELSNGVHALRSDLRSQKDELKKDINFLRSDVQKDIRDLCSGMQEQKAELKHDISTLRSDVQK 126
                              55566666666677777888899999999999999999999********************************************* PP

                   FAM184 144 eveeLlkeqeaqsekllkeqekleekhkaeveklkeev 181
                              ++ +L+    +q+++l+++ ++l+ ++k++++kl  ++
  PHY93_10035|PHY93_10035 127 DIRDLRSDMLEQKAELKNDIKTLRTEIKTDIHKLDSKM 164
                              *********************************99776 PP

>> kleA_kleC  Uncharacterized KorC regulated protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.1      0.26        88      24      58 ..      64      88 ..      51     101 .. 0.47
   2 ?    7.1   0.1      0.02       6.9      23      50 ..     100     127 ..      92     133 .. 0.86
   3 ?    6.7   0.1     0.027       9.1      23      61 ..     129     167 ..     126     173 .. 0.77

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.26
                kleA_kleC 24 dkiAaklaeAeeLvrqaeeLRakvyeesaaLedra 58
                             +          eL   + +LR + + ++  L+ ++
  PHY93_10035|PHY93_10035 64 N----------ELSNGVHALRSDLRSQKDELKKDI 88
                             3..........344444444444443333333332 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.02
                kleA_kleC  23 RdkiAaklaeAeeLvrqaeeLRakvyee 50 
                              Rd    ++++ +eL++ +  LR +v ++
  PHY93_10035|PHY93_10035 100 RDLCSGMQEQKAELKHDISTLRSDVQKD 127
                              7888899****************99865 PP

  == domain 3  score: 6.7 bits;  conditional E-value: 0.027
                kleA_kleC  23 RdkiAaklaeAeeLvrqaeeLRakvyeesaaLedrakkr 61 
                              Rd   ++l++ +eL+  ++ LR++++++   L  ++  r
  PHY93_10035|PHY93_10035 129 RDLRSDMLEQKAELKNDIKTLRTEIKTDIHKLDSKMDSR 167
                              555568999999999999999999998888887766555 PP

>> DUF1664  Protein of unknown function (DUF1664)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   2.1   3.7e-05     0.012      44     104 ..      64     125 ..      51     128 .. 0.89
   2 !   13.6   5.6   0.00015     0.052      42     118 ..      91     165 ..      85     173 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 3.7e-05
                  DUF1664  44 esvskqleqvseslaatkrhLssridrvdkklde.qkeiskeikeevtevredlseigedve 104
                              +++s+ +  + ++l+++k++L+++i+ + + +++   ++ + ++e+ +e+++d+s++++dv+
  PHY93_10035|PHY93_10035  64 NELSNGVHALRSDLRSQKDELKKDINFLRSDVQKdIRDLCSGMQEQKAELKHDISTLRSDVQ 125
                              789999999*******************988776267899********************98 PP

  == domain 2  score: 13.6 bits;  conditional E-value: 0.00015
                  DUF1664  42 avesvskqleqvseslaatkrhLssridrvdkklde.qkeiskeikeevtevredlseigedvesvkeavegleskle 118
                                ++v k++ ++ + ++++k +L+++i ++ + +++   ++ +++ e+ +e+++d+++++++++   + +++l+sk++
  PHY93_10035|PHY93_10035  91 LRSDVQKDIRDLCSGMQEQKAELKHDISTLRSDVQKdIRDLRSDMLEQKAELKNDIKTLRTEIK---TDIHKLDSKMD 165
                              568899************************9887761568999999999999999999998875...44445555544 PP

>> LPP  Lipoprotein leucine-zipper
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.3   0.2    0.0042       1.4       3      32 ..      64      97 ..      62     101 .. 0.76
   2 ?    5.0   1.0     0.096        33      11      25 ..     112     126 ..     103     166 .. 0.65

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.0042
                      LPP  3 deLssqV....sqLkskvdqlssdvnsakaaaqa 32
                             +eLs+ V    s+L s+ d+l++d+n +++++q+
  PHY93_10035|PHY93_10035 64 NELSNGVhalrSDLRSQKDELKKDINFLRSDVQK 97
                             577887733334567888999999**99999986 PP

  == domain 2  score: 5.0 bits;  conditional E-value: 0.096
                      LPP  11 qLkskvdqlssdvns 25 
                              +Lk +++ l sdv++
  PHY93_10035|PHY93_10035 112 ELKHDISTLRSDVQK 126
                              333344444333332 PP

>> Prominin  Prominin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   2.8   4.9e-05     0.017     253     338 ..      64     160 ..      10     183 .. 0.69

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 4.9e-05
                 Prominin 253 eqLeq.vnklekeLrksgsqLrdglrgvkrdlnqalsnlCq..seeCskilssleiekldtskcl........dqlpnvdevleal 327
                              ++L++ v++l ++Lr+++++L++ ++  + d+++ + +lC+  +e+  +++++ ++ + d++k++        +q  ++++ +++l
  PHY93_10035|PHY93_10035  64 NELSNgVHALRSDLRSQKDELKKDINFLRSDVQKDIRDLCSgmQEQKAELKHDISTLRSDVQKDIrdlrsdmlEQKAELKNDIKTL 149
                              44433378888999999999999999999999999999998765666667777777777777777544431122223444444444 PP

                 Prominin 328 eevletnlssi 338
                              ++ ++t+++++
  PHY93_10035|PHY93_10035 150 RTEIKTDIHKL 160
                              44444444444 PP

>> Cnn_1N  Centrosomin N-terminal motif 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.4   0.7      0.06        20      30      68 ..      48      86 ..      30      89 .. 0.82
   2 ?    9.8   0.6    0.0026      0.88      19      67 ..      84     132 ..      82     135 .. 0.90
   3 ?   11.8   4.1   0.00059       0.2      18      66 ..     112     160 ..     104     165 .. 0.89

  Alignments for each domain:
  == domain 1  score: 5.4 bits;  conditional E-value: 0.06
                   Cnn_1N 30 leklseeqkeellkenielkveveslqkelkekkkllre 68
                             ++ ++ + ke+ll +  el   v+ l+ +l + k++l++
  PHY93_10035|PHY93_10035 48 FHHMDVDMKEDLLIQKNELSNGVHALRSDLRSQKDELKK 86
                             44455589999999*****************99999986 PP

  == domain 2  score: 9.8 bits;  conditional E-value: 0.0026
                   Cnn_1N  19 LKLriyfLeerleklseeqkeellkenielkveveslqkelkekkkllr 67 
                              LK  i+fL++ ++k   +    + ++  elk ++ +l+ ++++  + lr
  PHY93_10035|PHY93_10035  84 LKKDINFLRSDVQKDIRDLCSGMQEQKAELKHDISTLRSDVQKDIRDLR 132
                              8889*************9**********************998766665 PP

  == domain 3  score: 11.8 bits;  conditional E-value: 0.00059
                   Cnn_1N  18 dLKLriyfLeerleklseeqkeellkenielkveveslqkelkekkkll 66 
                               LK  i +L++ ++k   + + ++l++  elk ++++l+ e+k+   +l
  PHY93_10035|PHY93_10035 112 ELKHDISTLRSDVQKDIRDLRSDMLEQKAELKNDIKTLRTEIKTDIHKL 160
                              69999*************************************9866555 PP

>> DUF3584  Protein of unknown function (DUF3584)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5  10.5   0.00022     0.076     659     759 ..      65     165 ..       3     169 .. 0.53

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00022
                  DUF3584 659 rlqnekesekdklekaiaerkqqaeeqlqkldaqlkqleeqqkaaleelkedlseerlekkakwqevvgeldeqlaelkkaieaar 744
                               l+n   +++  l  +  e k+ ++  + ++++++  l  + ++ ++elk d+s+ r + ++ ++++ +++ eq aelk+ i+  r
  PHY93_10035|PHY93_10035  65 ELSNGVHALRSDLRSQKDELKKDINFLRSDVQKDIRDLCSGMQEQKAELKHDISTLRSDVQKDIRDLRSDMLEQKAELKNDIKTLR 150
                              23333344444444444444444444445555555555555566666666666666666666666666666666666666666666 PP

                  DUF3584 745 tqakarlkeleeayk 759
                              t+ k  +++l+ +++
  PHY93_10035|PHY93_10035 151 TEIKTDIHKLDSKMD 165
                              666666666665555 PP

>> CCDC24  Coiled-coil domain-containing protein 24 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.3   0.1     0.023       7.9     159     186 ..      70      97 ..      65     101 .. 0.89
   2 ?    6.7   0.5     0.017       5.9     142     186 ..      80     126 ..      75     130 .. 0.79
   3 ?    6.9   1.3     0.016       5.3     153     187 ..     122     156 ..     111     166 .. 0.87

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.023
                   CCDC24 159 aehLrelLeeEceaLerdieyLqeclee 186
                              +  Lr+ L++ ++ L++di++L++ +++
  PHY93_10035|PHY93_10035  70 VHALRSDLRSQKDELKKDINFLRSDVQK 97 
                              568*******************998876 PP

  == domain 2  score: 6.7 bits;  conditional E-value: 0.017
                   CCDC24 142 elealkdkLNv..sdiDeVaehLrelLeeEceaLerdieyLqeclee 186
                              + ++lk+ +N+  sd+ + ++ L + ++e ++ L++di+ L++ +++
  PHY93_10035|PHY93_10035  80 QKDELKKDINFlrSDVQKDIRDLCSGMQEQKAELKHDISTLRSDVQK 126
                              55678899998445777888889999***************988776 PP

  == domain 3  score: 6.9 bits;  conditional E-value: 0.016
                   CCDC24 153 sdiDeVaehLrelLeeEceaLerdieyLqecleee 187
                              sd+ + ++ Lr+ + e ++ L++di+ L++ ++ +
  PHY93_10035|PHY93_10035 122 SDVQKDIRDLRSDMLEQKAELKNDIKTLRTEIKTD 156
                              577788899*******************9998765 PP

>> YlqD  YlqD protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.5      0.32   1.1e+02      50      82 ..      62      94 ..      20     102 .. 0.58
   2 ?   14.2   2.3   0.00012     0.042      20      85 ..     101     166 ..      95     178 .. 0.91

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.32
                     YlqD 50 ikkqsaqqieeiqeqvekekserlekkkqllqq 82
                             +k++  + ++++++ ++ +k+e+++ ++ l+++
  PHY93_10035|PHY93_10035 62 QKNELSNGVHALRSDLRSQKDELKKDINFLRSD 94
                             333333355555555555555555555555444 PP

  == domain 2  score: 14.2 bits;  conditional E-value: 0.00012
                     YlqD  20 elqqqlqaqieqldkelqqLefqakrlikeikkqsaqqieeiqeqvekekserlekkkqllqqleq 85 
                              +l + +q+q+ +l+++++ L+ + ++ i+++++   +q++e+++ ++  + e++  +++l+++++ 
  PHY93_10035|PHY93_10035 101 DLCSGMQEQKAELKHDISTLRSDVQKDIRDLRSDMLEQKAELKNDIKTLRTEIKTDIHKLDSKMDS 166
                              567789******************************************************999875 PP

>> OmpH  Outer membrane protein (OmpH-like)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   3.6   0.00041      0.14      15      95 ..      68     147 ..      54     163 .. 0.74

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 0.00041
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTS.-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     OmpH  15 pegkaaqeqlekkfkklqaeleakekelqklqeelqkkakklekeekeqelqkkeqelqqkqqqkaqelqkkqqellkpil 95 
                              +   a +++l +++ +l+++++ ++ ++qk +++l   ++++ k+e + ++ +++ ++q++ +  + ++ ++++el + i 
  PHY93_10035|PHY93_10035  68 NGVHALRSDLRSQKDELKKDINFLRSDVQKDIRDLCSGMQEQ-KAELKHDISTLRSDVQKDIRDLRSDMLEQKAELKNDIK 147
                              556677888888999999999999999999999998666664.66666668888888888888888888888878766432 PP

>> ThylakoidFormat  Thylakoid formation protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.6   0.5     0.016       5.5     152     193 ..      56      97 ..      48     101 .. 0.89
   2 ?    8.1   0.2    0.0055       1.9      75     144 ..     102     174 ..      99     180 .. 0.71

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.016
                              BTHTTT...THHHHHHHHGGGS-S-HHHHHHHHHHHHHHHHH CS
          ThylakoidFormat 152 daelvkdeekreealeklaealglskekvekDldlYrsnlek 193
                              +++l  ++++ ++ +++l + l+ +k++++kD+++ rs ++k
  PHY93_10035|PHY93_10035  56 KEDLLIQKNELSNGVHALRSDLRSQKDELKKDINFLRSDVQK 97 
                              56777889999999***********************99887 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.0055
                              HHHHTT--HHHHHHHHHGGGGGTT-.BHHHHHH.HHHTS---TTGGG............TS-BS--HHH.HHHH CS
          ThylakoidFormat  75 lckaveedpeqyredaeeleelakeksaeells.llkqeeeeeeaed.lakslk.aiaenskfkYSrlf.aiGl 144
                              lc++++e++ ++++d ++l++ +++ ++++l s +l+q++e +++ + l +++k +i++ ++ + Sr++  iG+
  PHY93_10035|PHY93_10035 102 LCSGMQEQKAELKHDISTLRSDVQK-DIRDLRSdMLEQKAELKNDIKtLRTEIKtDIHKLDSKMDSRFMwTIGV 174
                              8********************9988.677776515666666666555665555415666666677887635665 PP

>> Phage_Mu_Gam  Bacteriophage Mu Gam like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.1      0.07        24      22      55 ..      63      96 ..      53     100 .. 0.85
   2 ?   11.0   1.6   0.00085      0.29      12      56 ..     111     155 ..     104     167 .. 0.89

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.07
                             HHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHH CS
             Phage_Mu_Gam 22 eaeaneeiaaikekleaeleplkkeieylesllk 55
                             ++e+ + + a++ +l ++ ++lkk+i++l s ++
  PHY93_10035|PHY93_10035 63 KNELSNGVHALRSDLRSQKDELKKDINFLRSDVQ 96
                             5666777889999****************99998 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.00085
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHH CS
             Phage_Mu_Gam  12 aelkreleeieaeaneeiaaikekleaeleplkkeieylesllkq 56 
                              aelk +++ + +++++ i  ++ +  ++ ++lk++i+ l  ++k+
  PHY93_10035|PHY93_10035 111 AELKHDISTLRSDVQKDIRDLRSDMLEQKAELKNDIKTLRTEIKT 155
                              899************************************999986 PP

>> T3SS_needle_F  Type III secretion needle MxiH, YscF, SsaG, EprI, PscF, EscF
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.2   0.1     0.035        12       6      31 ..      64      89 ..      62      90 .. 0.93
   2 ?    3.4   0.1      0.26        87       6      29 ..     111     134 ..      91     140 .. 0.82
   3 ?    1.4   0.0       1.1   3.7e+02       6      28 ..     140     162 ..     137     170 .. 0.80

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.035
                             HHHHCCTHHHHHHHHHHHHHHHHSTT CS
            T3SS_needle_F  6 salsqkvskaekelqdalealkadps 31
                             ++ls++v++++++l+++   lk+d++
  PHY93_10035|PHY93_10035 64 NELSNGVHALRSDLRSQKDELKKDIN 89
                             89*******************99986 PP

  == domain 2  score: 3.4 bits;  conditional E-value: 0.26
                              HHHHCCTHHHHHHHHHHHHHHHHS CS
            T3SS_needle_F   6 salsqkvskaekelqdalealkad 29 
                               +l++++s++++++q+ ++ l  d
  PHY93_10035|PHY93_10035 111 AELKHDISTLRSDVQKDIRDLRSD 134
                              578888999999999888888655 PP

  == domain 3  score: 1.4 bits;  conditional E-value: 1.1
                              HHHHCCTHHHHHHHHHHHHHHHH CS
            T3SS_needle_F   6 salsqkvskaekelqdalealka 28 
                               +l++++++++ e+++ + +l  
  PHY93_10035|PHY93_10035 140 AELKNDIKTLRTEIKTDIHKLDS 162
                              57999999999999999999844 PP

>> Filament  Intermediate filament protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   8.8   0.00047      0.16     115     187 ..      70     144 ..      15     148 .. 0.78
   2 ?   12.4   7.5   0.00026     0.087     119     189 ..      74     146 ..      70     176 .. 0.63

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00047
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.XXXXXXXXX.XXXXXXXXXXXXXXXXXXXXXXXXXX CS
                 Filament 115 atlarvdLekkvesLkeelaflkkvheeEvkelqkqvs.eqvlvevda.arkldLteilkeiraqyeelaeknre 187
                                  r+dL ++ ++Lk++++fl++  ++ +++l + ++ +++ +  d  + + d+++ ++++r++  e+ ++ ++
  PHY93_10035|PHY93_10035  70 VHALRSDLRSQKDELKKDINFLRSDVQKDIRDLCSGMQeQKAELKHDIsTLRSDVQKDIRDLRSDMLEQKAELKN 144
                              346799****************************99987778888885267899*********997666555555 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 0.00026
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.XXXXXXXXX.XXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                 Filament 119 rvdLekkvesLkeelaflkkvheeEvkelqkqvs.eqvlvevda.arkldLteilkeiraqyeelaeknreea 189
                              r+dL ++ ++Lk++++fl++  ++ +++l + ++ +++ +  d  + + d+++ ++++r++  e+ ++ ++++
  PHY93_10035|PHY93_10035  74 RSDLRSQKDELKKDINFLRSDVQKDIRDLCSGMQeQKAELKHDIsTLRSDVQKDIRDLRSDMLEQKAELKNDI 146
                              6777777777777777777777777777777776555566666424566777777777776555554444444 PP

>> DUF2390  Protein of unknown function (DUF2390)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.1       2.1   7.2e+02      52      67 ..      82      97 ..      36     113 .. 0.60
   2 ?   12.4   0.9   0.00045      0.15      48      94 ..     107     155 ..      81     156 .. 0.90

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 2.1
                  DUF2390 52 aaleaavaewreevvk 67
                             ++l++ ++ +r++v k
  PHY93_10035|PHY93_10035 82 DELKKDINFLRSDVQK 97
                             2333333333333333 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 0.00045
                  DUF2390  48 aeelaaleaavaewreevvkplRalRralkaaase.dea.ealreqlka 94 
                              +e+ a+l++ ++++r++v k +R+lR  + ++++e +++ ++lr+++k+
  PHY93_10035|PHY93_10035 107 QEQKAELKHDISTLRSDVQKDIRDLRSDMLEQKAElKNDiKTLRTEIKT 155
                              566789***********************99999987789*****9985 PP

>> Zw10  Centromere/kinetochore Zw10
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   6.2   0.00029     0.099       9      98 ..      63     153 ..      56     167 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00029
                     Zw10   9 kedlekkisklekkveeikeevskmivkkYsef.lelsssaeellerveslskeidalkkkveneieqdlkaaveelaelkqqlke 93 
                              k++l+  +  l + ++  k e+ k+i+   s+   ++ ++++ + e+  +l+++i+ l + v++ i+    +  e+ aelk+++k 
  PHY93_10035|PHY93_10035  63 KNELSNGVHALRSDLRSQKDELKKDINFLRSDVqKDIRDLCSGMQEQKAELKHDISTLRSDVQKDIRDLRSDMLEQKAELKNDIKT 148
                              66777778888888889999999999999999855788999999999999999999999999999999999999999999999987 PP

                     Zw10  94 kevvl 98 
                               +  +
  PHY93_10035|PHY93_10035 149 LRTEI 153
                              76543 PP

>> PhaC_N  Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   0.3    0.0018      0.62      22     103 ..       3      86 ..       1      90 [. 0.81
   2 ?    0.3   0.0       1.4   4.9e+02      73     103 ..      92     122 ..      88     140 .. 0.65
   3 ?    1.4   0.0      0.63   2.1e+02      79     122 ..     138     181 ..     124     185 .. 0.82

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.0018
                   PhaC_N  22 aylltsklleelveev..egldektrerveflvrqlldalaPsnflatnpevlkelleseGeslvkGlenlleDlergkgelki 103
                              ay+ ++++++++++++  e l++ +re+++     +l   a +n +      +ke l  + ++l +G++ l +Dl+++k+elk 
  PHY93_10035|PHY93_10035   3 AYVFNNQIFDSWLNRMsdEILSKVNREKITTEEMIILILKAQTNHFHHMDVDMKEDLLIQKNELSNGVHALRSDLRSQKDELKK 86 
                              5777788888887766224578888888888888888888999*999888888999999999******************9985 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 1.4
                   PhaC_N  73 kelleseGeslvkGlenlleDlergkgelki 103
                              ++ ++++ ++l++G+++  ++l++  ++l+ 
  PHY93_10035|PHY93_10035  92 RSDVQKDIRDLCSGMQEQKAELKHDISTLRS 122
                              5556666677777777777777666555544 PP

  == domain 3  score: 1.4 bits;  conditional E-value: 0.63
                   PhaC_N  79 eGeslvkGlenlleDlergkgelkisqtdesafevGknvattpG 122
                              + ++l + +++l +++++   +l  ++  +  +++G +++++ G
  PHY93_10035|PHY93_10035 138 QKAELKNDIKTLRTEIKTDIHKLDSKMDSRFMWTIGVTITMSLG 181
                              45678899999999999999999999999999999999998877 PP

>> Fzo_mitofusin  fzo-like conserved region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   1.9    0.0083       2.8      97     147 ..      64     119 ..      33     126 .. 0.54
   2 ?    7.2   2.7    0.0097       3.3     106     148 ..     102     142 ..      91     168 .. 0.44

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0083
            Fzo_mitofusin  97 qelsstfarlcqqvdetekeleeeikelekeiek....l.eevqkkakllrnkasl 147
                              +els+ ++ l+++ + +++el+++i+ l+++++k    l   +q++   l++  s+
  PHY93_10035|PHY93_10035  64 NELSNGVHALRSDLRSQKDELKKDINFLRSDVQKdirdLcSGMQEQKAELKHDIST 119
                              35555555555555555555555555444443321111312344444445554444 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.0097
            Fzo_mitofusin 106 lcqqvdetekeleeeikelekeiekleevqkkakllrnkasll 148
                              lc+  +e+++el+++i++l+++++k +    ++ +l +ka+ l
  PHY93_10035|PHY93_10035 102 LCSGMQEQKAELKHDISTLRSDVQK-DIRDLRSDMLEQKAE-L 142
                              4444444444444444444444433.222222222222221.1 PP

>> TPR_MLP1_2  TPR/MLP1/MLP2-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   5.7     0.001      0.35      10     113 ..      56     154 ..      50     166 .. 0.71

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.001
               TPR_MLP1_2  10 ikslkeekeeaeaklqklqedlekqaeiakeaqqkYerelvkhaedvkelqalreelnelkaeiaelkaeaesakaeleeseeswe 95 
                              +++l+ +k+e+ + + +l++dl++q++++k+  +   + ++k   d+   + + e+ +elk +i++l++++   ++++   ++ + 
  PHY93_10035|PHY93_10035  56 KEDLLIQKNELSNGVHALRSDLRSQKDELKKDINFLRSDVQKDIRDL--CSGMQEQKAELKHDISTLRSDV---QKDIRDLRSDML 136
                              57788899999999999999999999999999998888888776655..3455555566666666665544...445555566667 PP

               TPR_MLP1_2  96 eqkeelekelselekrie 113
                              eqk el+++++ l++ i+
  PHY93_10035|PHY93_10035 137 EQKAELKNDIKTLRTEIK 154
                              777777777766666554 PP

>> Eno-Rase_FAD_bd  Enoyl reductase FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.2    0.0037       1.3       7      46 ..      84     123 ..      78     126 .. 0.86
   2 ?    8.8   0.9    0.0065       2.2       4      46 ..     110     152 ..     107     155 .. 0.88

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.0037
                              EESTTTTTSHHHHHHHHHHHHTT-TTTHHHHS-HHHHHHH CS
          Eno-Rase_FAD_bd   7 irlDdwElredvQaevkelwekvttenlkeltDlegykee 46 
                              ++ D   lr+dvQ+++++l + +++++ +   D++  +++
  PHY93_10035|PHY93_10035  84 LKKDINFLRSDVQKDIRDLCSGMQEQKAELKHDISTLRSD 123
                              56666779********************999999999987 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.0065
                              TSEEESTTTTTSHHHHHHHHHHHHTT-TTTHHHHS-HHHHHHH CS
          Eno-Rase_FAD_bd   4 egrirlDdwElredvQaevkelwekvttenlkeltDlegykee 46 
                              +  ++ D   lr+dvQ+++++l + + +++ +   D++  ++e
  PHY93_10035|PHY93_10035 110 KAELKHDISTLRSDVQKDIRDLRSDMLEQKAELKNDIKTLRTE 152
                              5667888999******************999999999999887 PP

>> HalX  HalX domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.0       2.3   7.6e+02      36      51 ..      80      95 ..      62     104 .. 0.62
   2 ?    4.9   0.3     0.094        32      35      60 ..     108     133 ..     106     138 .. 0.84
   3 ?    6.2   0.1     0.039        13      35      60 ..     137     162 ..     132     168 .. 0.87

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 2.3
                     HalX 36 eYqeLearleelraql 51
                             +++eL+ +++ lr+++
  PHY93_10035|PHY93_10035 80 QKDELKKDINFLRSDV 95
                             4455555555555555 PP

  == domain 2  score: 4.9 bits;  conditional E-value: 0.094
                     HalX  35 eeYqeLearleelraqldetldeldd 60 
                              e+++eL+ ++ +lr+++   + +l +
  PHY93_10035|PHY93_10035 108 EQKAELKHDISTLRSDVQKDIRDLRS 133
                              8899************9999888665 PP

  == domain 3  score: 6.2 bits;  conditional E-value: 0.039
                     HalX  35 eeYqeLearleelraqldetldeldd 60 
                              e+++eL+ ++ +lr+++ + +  ld+
  PHY93_10035|PHY93_10035 137 EQKAELKNDIKTLRTEIKTDIHKLDS 162
                              789***************99999887 PP

>> ApoO  Apolipoprotein O
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.4   0.1    0.0057       1.9      11      61 ..     108     162 ..      61     180 .. 0.63

  Alignments for each domain:
  == domain 1  score: 8.4 bits;  conditional E-value: 0.0057
                     ApoO  11 eptdrLeegvrslRkslepytsavqdel....nkvkskvetaeqsvtdtiasLke 61 
                              e++ +L+  +++lR  +++ +  + + +     ++k+ ++t+ + +++ i+ L +
  PHY93_10035|PHY93_10035 108 EQKAELKHDISTLRSDVQKDIRDLRSDMleqkAELKNDIKTLRTEIKTDIHKLDS 162
                              4455566666666666666666655555333344444444444444444444444 PP

>> DUF883  Bacterial protein of unknown function (DUF883)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.3   0.2     0.087        29      23      61 ..      64     102 ..      49     109 .. 0.72
   2 ?   10.4   2.1    0.0022      0.75       5      59 ..      93     147 ..      82     160 .. 0.52

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.087
                   DUF883  23 deageeaeelRerleerlerarerlrdaeeavaerakea 61 
                              +e  + +++lR+ l+++ +++++ ++ ++ +v++ +++ 
  PHY93_10035|PHY93_10035  64 NELSNGVHALRSDLRSQKDELKKDINFLRSDVQKDIRDL 102
                              344567788888888888888888888888888777765 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 0.0022
                   DUF883   5 aeleslladleellkeaadeageeaeelRerleerlerarerlrdaeeavaerak 59 
                              +++++ + dl + ++e+++e ++++++lR+ +++ ++++r+ + +++ ++++ +k
  PHY93_10035|PHY93_10035  93 SDVQKDIRDLCSGMQEQKAELKHDISTLRSDVQKDIRDLRSDMLEQKAELKNDIK 147
                              3333333333334445555555566666666666666666665555555555554 PP

>> DUF4407  Domain of unknown function (DUF4407)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   3.8    0.0011      0.36     139     234 ..      71     161 ..      15     168 .. 0.59

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.0011
                  DUF4407 139 eaqiaalqaeidaaearldalraeaqkeldgtkgtgttgvaGkgpaake.kkaqldaaqaelaelkakldatarlaalraelaele 223
                               a +++l+++ d+++++++ lr ++qk +     + ++g++ + ++ k+   +   + q+++ +l+++    ++ a+l++ +++l+
  PHY93_10035|PHY93_10035  71 HALRSDLRSQKDELKKDINFLRSDVQKDIR----DLCSGMQEQKAELKHdISTLRSDVQKDIRDLRSD--MLEQKAELKNDIKTLR 150
                              233446666666666666666666666655....4555555555555552344445566666666666..6666666666666666 PP

                  DUF4407 224 aerakeraasq 234
                              +e+++++ + +
  PHY93_10035|PHY93_10035 151 TEIKTDIHKLD 161
                              66666665555 PP

>> DLP_helical  Dynamin-like helical domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.5   1.3       0.2        69     105     145 ..      60     100 ..      14     119 .. 0.50
   2 ?   11.8   3.4    0.0003       0.1      75     144 ..      98     168 ..      85     174 .. 0.76

  Alignments for each domain:
  == domain 1  score: 2.5 bits;  conditional E-value: 0.2
              DLP_helical 105 aelkkeieearielreelkayfsdLilqvkglsletieeFl 145
                                 k+e+++   +lr  l++  ++L ++++ l  +  +++ 
  PHY93_10035|PHY93_10035  60 LIQKNELSNGVHALRSDLRSQKDELKKDINFLRSDVQKDIR 100
                              33333333333333333333333333333333333333333 PP

  == domain 2  score: 11.8 bits;  conditional E-value: 0.0003
              DLP_helical  75 qlpeaeerleelekeveklees.akriekelaelkkeieearielreelkayfsdLilqvkglsletieeF 144
                               +    + ++e+++e+++  ++  ++ +k+++ l++++ e ++el++ +k +++++ ++++ l+ +  + F
  PHY93_10035|PHY93_10035  98 DIRDLCSGMQEQKAELKHDISTlRSDVQKDIRDLRSDMLEQKAELKNDIKTLRTEIKTDIHKLDSKMDSRF 168
                              55555555666666666555441467899********************************9987765555 PP

>> Bacillus_HBL  Bacillus haemolytic enterotoxin (HBL)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   9.4    0.0067       2.3      99     175 ..      80     154 ..       9     167 .. 0.66

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.0067
             Bacillus_HBL  99 dkaellellekLqeeiqqnqkevkqlikeLkklklklakdsknFktdvdeltsilagds.gvisqlqneiedlqgkik 175
                              +k+el+++++ L++++q   k +++l   +++ k +l++d +++ +dv++    l +d   + ++l+n+i++l+ +ik
  PHY93_10035|PHY93_10035  80 QKDELKKDINFLRSDVQ---KDIRDLCSGMQEQKAELKHDISTLRSDVQKDIRDLRSDMlEQKAELKNDIKTLRTEIK 154
                              55666666666666554...3344444444444444444444444444444444444443444444444444444444 PP

>> FliT  Flagellar protein FliT
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.0   9.3      0.13        43      27      74 ..     113     159 ..      57     165 .. 0.68

  Alignments for each domain:
  == domain 1  score: 5.0 bits;  conditional E-value: 0.13
                              HHCS--ST--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH CS
                     FliT  27 lreldaaplspaereekrellrrilandaeirallqprldelqkllga 74 
                              l+++  + l+++ ++++r+l + +l++ ae+++ +++ ++e++ ++++
  PHY93_10035|PHY93_10035 113 LKHD-ISTLRSDVQKDIRDLRSDMLEQKAELKNDIKTLRTEIKTDIHK 159
                              2222.2455555566666666666666666666666666666666665 PP

>> DUF1319  Protein of unknown function (DUF1319)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.6   6.6     0.013       4.2      39      85 ..     104     154 ..      21     165 .. 0.75

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.013
                  DUF1319  39 kivkekrrslekqlkkl....kselkklrelylerrPlskqeveelvveis 85 
                                ++e++ +l ++++ l    +++++ lr+++le++   k++++ l  ei 
  PHY93_10035|PHY93_10035 104 SGMQEQKAELKHDISTLrsdvQKDIRDLRSDMLEQKAELKNDIKTLRTEIK 154
                              45778888998888765111155667799********99****99999986 PP

>> TMF_TATA_bd  TATA element modulatory factor 1 TATA binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.3   0.9      0.57   1.9e+02      94     112 ..      70      88 ..      14     102 .. 0.53
   2 ?   10.3   8.1    0.0019      0.64      15     115 .]      64     160 ..      60     160 .. 0.80

  Alignments for each domain:
  == domain 1  score: 2.3 bits;  conditional E-value: 0.57
              TMF_TATA_bd  94 veELraDvaDlKemykeqv 112
                              v  Lr D+   K+ +k+ +
  PHY93_10035|PHY93_10035  70 VHALRSDLRSQKDELKKDI 88 
                              3333333333333333333 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 0.0019
              TMF_TATA_bd  15 erlsseirrlEgElaslkeeler.leaerdeareeivklmk.eneelkelkkeleelekeleelqeryetlLellGeksEeveELr 98 
                              ++ls  ++ l ++l+s k+el++ ++  r++++++i +l +   e+++elk+++++l++ +++       +  l     E+  EL+
  PHY93_10035|PHY93_10035  64 NELSNGVHALRSDLRSQKDELKKdINFLRSDVQKDIRDLCSgMQEQKAELKHDISTLRSDVQK------DIRDLRSDMLEQKAELK 143
                              5799999999999999999997548889999*****999861567788889999999998864......334444445578899** PP

              TMF_TATA_bd  99 aDvaDlKemykeqveql 115
                              +D++ l++ +k+ + +l
  PHY93_10035|PHY93_10035 144 NDIKTLRTEIKTDIHKL 160
                              *********99999875 PP

>> HIP1_clath_bdg  Clathrin-binding domain of Huntingtin-interacting protein 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   0.4     0.013       4.2      21      66 ..      55     100 ..      39     104 .. 0.80
   2 ?    7.3   3.9     0.021       7.1      30      81 ..     104     155 ..      93     175 .. 0.47

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.013
           HIP1_clath_bdg  21 aqeeverekkeleeelerlkeeaerkleeqkeelekLkreleakra 66 
                               +e++  +k+el++ +++l+++ +++ +e k+ ++ L++++++   
  PHY93_10035|PHY93_10035  55 MKEDLLIQKNELSNGVHALRSDLRSQKDELKKDINFLRSDVQKDIR 100
                              5788999999999999999999999999999999999988887655 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.021
           HIP1_clath_bdg  30 keleeelerlkeeaerkleeqkeelekLkreleakraelarlkssLesseqs 81 
                              + ++e+  +lk++ +   ++ ++ +  L++++ +++ael++  ++L+++ ++
  PHY93_10035|PHY93_10035 104 SGMQEQKAELKHDISTLRSDVQKDIRDLRSDMLEQKAELKNDIKTLRTEIKT 155
                              3333333333333333333444444445555555555555544444444333 PP

>> ATP-synt_E_2  ATP synthase epsilon subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.4   0.1     0.067        23      14      34 ..       9      29 ..       6      34 .. 0.90
   2 ?    6.8   0.4     0.024       8.1      12      32 ..      69      89 ..      60      91 .. 0.83
   3 ?    1.0   0.0       1.6   5.4e+02       7      31 ..      93     117 ..      91     120 .. 0.84
   4 ?    3.1   1.0      0.35   1.2e+02       6      31 ..     121     146 ..     116     162 .. 0.86

  Alignments for each domain:
  == domain 1  score: 5.4 bits;  conditional E-value: 0.067
             ATP-synt_E_2 14 niLkskLdeKKsElLkkiNmE 34
                             +i  s L+   +E+L+k+N E
  PHY93_10035|PHY93_10035  9 QIFDSWLNRMSDEILSKVNRE 29
                             7888999999*********87 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.024
             ATP-synt_E_2 12 YlniLkskLdeKKsElLkkiN 32
                              +  L+s L  +K+El k+iN
  PHY93_10035|PHY93_10035 69 GVHALRSDLRSQKDELKKDIN 89
                             5778****************9 PP

  == domain 3  score: 1.0 bits;  conditional E-value: 1.6
             ATP-synt_E_2   7 stiDKYlniLkskLdeKKsElLkki 31 
                              s + K ++ L s ++e+K El  +i
  PHY93_10035|PHY93_10035  93 SDVQKDIRDLCSGMQEQKAELKHDI 117
                              6788899999999*******98776 PP

  == domain 4  score: 3.1 bits;  conditional E-value: 0.35
             ATP-synt_E_2   6 kstiDKYlniLkskLdeKKsElLkki 31 
                              +s + K ++ L+s + e+K El ++i
  PHY93_10035|PHY93_10035 121 RSDVQKDIRDLRSDMLEQKAELKNDI 146
                              5778999999****999999998777 PP

>> COMP  Cartilage oligomeric matrix protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.2   0.2      0.01       3.5       1      36 [.      54      93 ..      54      97 .. 0.83
   2 ?    0.4   0.0       2.9   9.7e+02      10      27 ..      99     116 ..      94     126 .. 0.71
   3 ?    2.7   0.7      0.52   1.8e+02      18      31 ..     129     142 ..     117     154 .. 0.62

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.01
                     COMP  1 DvtkqLlrqLseltqllkeLreelrqQvkE....isfLRn 36
                             D+++ Ll q +el   +  Lr +lr Q  E    i+fLR+
  PHY93_10035|PHY93_10035 54 DMKEDLLIQKNELSNGVHALRSDLRSQKDElkkdINFLRS 93
                             7789999999*****************9885555678876 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 2.9
                     COMP  10 LseltqllkeLreelrqQ 27 
                              +++l + ++e + el++ 
  PHY93_10035|PHY93_10035  99 IRDLCSGMQEQKAELKHD 116
                              567777777777777764 PP

  == domain 3  score: 2.7 bits;  conditional E-value: 0.52
                     COMP  18 keLreelrqQvkEi 31 
                              ++Lr ++ +Q  E 
  PHY93_10035|PHY93_10035 129 RDLRSDMLEQKAEL 142
                              56666666665553 PP

>> BST2  Bone marrow stromal antigen 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.3   3.2     0.089        30      44      90 ..      67     114 ..      19     133 .. 0.71
   2 ?    7.4   3.3     0.019       6.5      37      86 ..     107     157 ..     103     163 .. 0.78

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.089
                              HHHHHHHHHHHHHHHHHHHHH.HHHHHHHHHHHHHHHHHHHHHHHHCC CS
                     BST2  44 nqtvvtLkasLekekaqsqkq.qakvqelqgeikkLnqkLqdaeaeve 90 
                              ++ v  L+++L  +k++ +k  +    + q++i++L   +q+++ae++
  PHY93_10035|PHY93_10035  67 SNGVHALRSDLRSQKDELKKDiNFLRSDVQKDIRDLCSGMQEQKAELK 114
                              445556666666666554443133445666666666666666666654 PP

  == domain 2  score: 7.4 bits;  conditional E-value: 0.019
                              HHHHHHHHHHHHHHHHHHHHH.HHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     BST2  37 eaqaatcnqtvvtLkasLeke.kaqsqkqqakvqelqgeikkLnqkLqdae 86 
                              + q a  ++ + tL+++ +k+ ++   +++++  el+++ik+L  +++   
  PHY93_10035|PHY93_10035 107 QEQKAELKHDISTLRSDVQKDiRDLRSDMLEQKAELKNDIKTLRTEIKTDI 157
                              56667778888899999888724557789999***********99998765 PP

>> FAM76  FAM76 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.7   6.3     0.012         4     200     287 ..      41     126 ..       8     129 .. 0.72
   2 ?    8.2   1.5    0.0041       1.4     246     286 ..     125     165 ..     122     169 .. 0.92

  Alignments for each domain:
  == domain 1  score: 6.7 bits;  conditional E-value: 0.012
                    FAM76 200 kesnetskksldsns.sdhlvavtqLkeeiaslkkqleqkdqellekdkkitelkaellekekelreklkelekeakekieklekk 284
                               ++++++ +++d+ +  d l++ ++L + ++ l+  l+++  e    +k i  l+++ ++  ++l + ++e+++e k+ i++l++ 
  PHY93_10035|PHY93_10035  41 LKAQTNHFHHMDVDMkEDLLIQKNELSNGVHALRSDLRSQKDE---LKKDINFLRSDVQKDIRDLCSGMQEQKAELKHDISTLRSD 123
                              2333344457777661577889999*********999765554...4788999***************************999998 PP

                    FAM76 285 ire 287
                              +++
  PHY93_10035|PHY93_10035 124 VQK 126
                              875 PP

  == domain 2  score: 8.2 bits;  conditional E-value: 0.0041
                    FAM76 246 dkkitelkaellekekelreklkelekeakekieklekkir 286
                              +k i +l++++le+++el++ +k+l+ e+k+ i+kl++k+ 
  PHY93_10035|PHY93_10035 125 QKDIRDLRSDMLEQKAELKNDIKTLRTEIKTDIHKLDSKMD 165
                              6899*********************************9975 PP

>> DUF3958  Protein of unknown function (DUF3958)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   1.3      0.94   3.2e+02      63      95 ..      43      75 ..      28      86 .. 0.68
   2 ?    2.8   1.4       0.4   1.3e+02      65      96 ..      63      94 ..      41     104 .. 0.65
   3 ?    7.9   4.9    0.0098       3.3      53      98 ..     109     154 ..      78     159 .. 0.81

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.94
                  DUF3958 63 klrdevqrlsrklredLEeeeeeLkrekrqLed 95
                             ++ + + +++ +++edL  +++eL +   +L++
  PHY93_10035|PHY93_10035 43 AQTNHFHHMDVDMKEDLLIQKNELSNGVHALRS 75
                             455566777788888888888888776655554 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.4
                  DUF3958 65 rdevqrlsrklredLEeeeeeLkrekrqLedq 96
                             ++e++   + lr dL  +++eLk+  ++L++ 
  PHY93_10035|PHY93_10035 63 KNELSNGVHALRSDLRSQKDELKKDINFLRSD 94
                             34444455566666777777777666666655 PP

  == domain 3  score: 7.9 bits;  conditional E-value: 0.0098
                  DUF3958  53 rkdeeshlfeklrdevqrlsrklredLEeeeeeLkrekrqLedqee 98 
                              +k e  h + +lr +vq+  r+lr d+ e++ eLk+  ++L+ ++ 
  PHY93_10035|PHY93_10035 109 QKAELKHDISTLRSDVQKDIRDLRSDMLEQKAELKNDIKTLRTEIK 154
                              556999999********************************98875 PP

>> DUF1451  Zinc-ribbon containing domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   3.7     0.011       3.9       6      83 ..      58     131 ..      53     148 .. 0.75
   2 ?    3.3   0.7      0.23        78      12      50 ..     122     160 ..     112     170 .. 0.49

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.011
                  DUF1451   6 aeekseeeleelvekakeklseaeeltkeelelvaeylkrDleeaarsleeskeeleewlsldlelieesllealasi 83 
                              +   +++el++ v+  +  l+ +++  k++++ +++ +++D++++ + ++e+k     +l+ d++++++ + + + ++
  PHY93_10035|PHY93_10035  58 DLLIQKNELSNGVHALRSDLRSQKDELKKDINFLRSDVQKDIRDLCSGMQEQKA----ELKHDISTLRSDVQKDIRDL 131
                              555678899999999999999999999999999999999999999999999999....56777777766666655555 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.23
                  DUF1451  12 eeleelvekakeklseaeeltkeelelvaeylkrDleea 50 
                              +++++ + + +  + e++   k++++ ++  +k D++++
  PHY93_10035|PHY93_10035 122 SDVQKDIRDLRSDMLEQKAELKNDIKTLRTEIKTDIHKL 160
                              334444444444444444444444444444455554444 PP

>> YtxH  YtxH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   5.9     0.097        33      25      72 ..      83     133 ..      15     166 .. 0.75

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.097
                     YtxH  25 etRkdlkekaddlkekakelleeakeka...kekaedlkekvkekadelke 72 
                              e++kd++   +d+++++ +l   ++e+    k+ ++ l+++v++++ +l++
  PHY93_10035|PHY93_10035  83 ELKKDINFLRSDVQKDIRDLCSGMQEQKaelKHDISTLRSDVQKDIRDLRS 133
                              555555555666666666666666555567744444444444444444433 PP

>> Fib_alpha  Fibrinogen alpha/beta chain family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   3.7     0.051        17      56     129 ..      46     121 ..       8     126 .. 0.70
   2 ?    9.3   9.1    0.0035       1.2      22     127 ..      55     166 ..      53     169 .. 0.82

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.051
                              HHHHHHHHHHHHHHHHHHHH.HHHHHHHHHHHHHCCCHHHHHHHCCHHHH.HHHHHHHHHHHHHHHHHHHHHHHHH CS
                Fib_alpha  56 elvkeikdslrekqkskkdn.dnvikksskeleeeilrlketidaqesni.rvLqnvlesneqkiqkLeqdidqke 129
                              ++ ++++  ++e+   +k++ +n ++ ++++l+++  +lk+ i+   s + + ++++ +  +++ ++L+ di++++
  PHY93_10035|PHY93_10035  46 NHFHHMDVDMKEDLLIQKNElSNGVHALRSDLRSQKDELKKDINFLRSDVqKDIRDLCSGMQEQKAELKHDISTLR 121
                              4556666666776666555457888888888888888888888765543313466666666666666666666654 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.0035
                              HHHCCCCCCCCCCHHHCCCCCCCCCCCCHHHH.H....HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHCCHH CS
                Fib_alpha  22 lqdlllkyekdvkkdlekleneleeisnstke.a....eelvkeikdslrekqkskkdndnvikksskeleeeilrlketidaqes 102
                              +++ ll +++++++ ++ l+++l++ +++ k+ +    +++ k+i+d     q++k++ ++ i+ ++++++++i +l+  + +q  
  PHY93_10035|PHY93_10035  55 MKEDLLIQKNELSNGVHALRSDLRSQKDELKKdInflrSDVQKDIRDLCSGMQEQKAELKHDISTLRSDVQKDIRDLRSDMLEQKA 140
                              67788899999************988876555232222577889999999*******99***********************9996 PP

                              HHH.HHHHHHHHHHHHHHHHHHHHHH CS
                Fib_alpha 103 nir.vLqnvlesneqkiqkLeqdidq 127
                              +++  ++++  + + +i+kL +++d+
  PHY93_10035|PHY93_10035 141 ELKnDIKTLRTEIKTDIHKLDSKMDS 166
                              66526888888899999999998875 PP

>> TMPIT  TMPIT-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.4   0.9      0.11        36      30      83 ..      61     114 ..      20     122 .. 0.51
   2 ?    8.1   4.1    0.0042       1.4      27      97 ..      94     169 ..      62     187 .] 0.42

  Alignments for each domain:
  == domain 1  score: 3.4 bits;  conditional E-value: 0.11
                    TMPIT  30 klqskcskeikkqkkrlkelksslkklkksvkeeeeeeveelkeelkerkkvlk 83 
                               +++++s+ ++  + +l++ k++lkk  + ++++ ++ +++l + ++e+k+ lk
  PHY93_10035|PHY93_10035  61 IQKNELSNGVHALRSDLRSQKDELKKDINFLRSDVQKDIRDLCSGMQEQKAELK 114
                              333333333333333333333333333333333444444444444444444433 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.0042
                    TMPIT  27 elsklqskcskeikkqkkrlk....elksslkklkksvkeeeeeeveelkeelkerkkvlk.evesllpkk.nglyl 97 
                              +++k + ++++ +++qk +lk     l+s+++k  ++++++  e+ +elk+++k+ ++ +k ++++l  +k  ++++
  PHY93_10035|PHY93_10035  94 DVQKDIRDLCSGMQEQKAELKhdisTLRSDVQKDIRDLRSDMLEQKAELKNDIKTLRTEIKtDIHKL-DSKmDSRFM 169
                              2222222222333333222220000222222222222334444555555555555555555333333.333355544 PP

>> IFP_35_N  Interferon-induced 35 kDa protein (IFP 35) N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.1      0.28        96       4      29 ..      76     101 ..      73     103 .. 0.87
   2 ?    6.5   1.8     0.026       8.7       4      42 ..     105     141 ..     102     144 .. 0.87
   3 ?    4.7   0.8     0.097        33       5      29 ..     135     159 ..     131     166 .. 0.78

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.28
                 IFP_35_N   4 eitkeniqLkeeiqkLeaELQettre 29 
                              ++ +++ +Lk++i  L ++ Q++ r+
  PHY93_10035|PHY93_10035  76 DLRSQKDELKKDINFLRSDVQKDIRD 101
                              6788999**************99886 PP

  == domain 2  score: 6.5 bits;  conditional E-value: 0.026
                 IFP_35_N   4 eitkeniqLkeeiqkLeaELQettrefqikediPetKik 42 
                               +++++ +Lk++i  L ++ Q++ r+  ++ d+ e+K  
  PHY93_10035|PHY93_10035 105 GMQEQKAELKHDISTLRSDVQKDIRD--LRSDMLEQKAE 141
                              6789999******************9..99999888865 PP

  == domain 3  score: 4.7 bits;  conditional E-value: 0.097
                 IFP_35_N   5 itkeniqLkeeiqkLeaELQettre 29 
                              + +++ +Lk++i+ L +E+  + ++
  PHY93_10035|PHY93_10035 135 MLEQKAELKNDIKTLRTEIKTDIHK 159
                              6678899*********999887655 PP

>> Fusion_gly  Fusion glycoprotein F0
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   0.3    0.0022      0.73     454     476 ..      18      40 ..      12      43 .. 0.91
   2 ?   -0.9   0.1       1.1   3.6e+02     416     460 ..      48      92 ..      41     104 .. 0.80
   3 ?   -0.0   0.1      0.58     2e+02      52      88 ..     132     168 ..      88     182 .. 0.60

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.0022
                              HHCCCCTCCCHHHHHTTXXXXXX CS
               Fusion_gly 454 esnkiLdsvnkkllstaivivli 476
                               s++iL++vn+++++t+ +i+li
  PHY93_10035|PHY93_10035  18 MSDEILSKVNREKITTEEMIILI 40 
                              69******************998 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 1.1
                              TTCCGS----B---SHHHHHHHHHHHHHHHHHHHHHHHHHCCCCT CS
               Fusion_gly 416 aknlsiklgppisveevdisaelskvnesleqskdlleesnkiLd 460
                              ++   ++++  + +++ ++s  + +  ++l + kd+l++  + L+
  PHY93_10035|PHY93_10035  48 FHHMDVDMKEDLLIQKNELSNGVHALRSDLRSQKDELKKDINFLR 92 
                              556678888899999999999999999999999999998777665 PP

  == domain 3  score: -0.0 bits;  conditional E-value: 0.58
                              HHHHHHHHHHHHHHHHHHHCCEEEGGG---SSSS-CC CS
               Fusion_gly  52 kkaltelltpiadalnkieaeitvknesisskrkkrf 88 
                              ++ + e +  +++ ++   +ei++  ++ +sk ++rf
  PHY93_10035|PHY93_10035 132 RSDMLEQKAELKNDIKTLRTEIKTDIHKLDSKMDSRF 168
                              3333444444555555555555555555555555555 PP

>> DUF1542  Domain of Unknown Function (DUF1542)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   0.2     0.045        15       2      51 ..      81     130 ..      80     135 .. 0.87
   2 ?    5.9   3.9     0.041        14       9      54 ..     117     162 ..     110     165 .. 0.74

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.045
                  DUF1542   2 KkkAkaaidkaaeekkaeInnnpnaTdeEKqaainkvnaalneaiknInq 51 
                              K++ k++i+    + +++I +     +e+K++++  + ++  +  k+I +
  PHY93_10035|PHY93_10035  81 KDELKKDINFLRSDVQKDIRDLCSGMQEQKAELKHDISTLRSDVQKDIRD 130
                              77888888888899999999999999*****************9999976 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.041
                  DUF1542   9 idkaaeekkaeInnnpnaTdeEKqaainkvnaalneaiknInqatt 54 
                              i +   + +++I +      e+K++++n ++++ +e++++I + ++
  PHY93_10035|PHY93_10035 117 ISTLRSDVQKDIRDLRSDMLEQKAELKNDIKTLRTEIKTDIHKLDS 162
                              555555555666666555679********************98665 PP

>> DUF5082  Domain of unknown function (DUF5082)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.1         6     2e+03     101     120 ..      28      47 ..       9      50 .. 0.61
   2 ?    4.4   5.2      0.13        44      61     116 ..      63     122 ..      20     126 .. 0.65
   3 ?    9.2   7.6     0.004       1.4       9     105 ..      71     165 ..      63     170 .. 0.81

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 6
                  DUF5082 101 enqiseaqgvldtlqsqlns 120
                              +++i++ ++++  l+ q n 
  PHY93_10035|PHY93_10035  28 REKITTEEMIILILKAQTNH 47 
                              46777777777777777665 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.13
                  DUF5082  61 kGkeennydgirsnlessyqtyvdkldelidaieeEIerL....enqiseaqgvldtlqs 116
                              k++ +n +   rs+l s+ ++ ++++  l + ++++I++L    ++q+ e++ +++tl s
  PHY93_10035|PHY93_10035  63 KNELSNGVHALRSDLRSQKDELKKDINFLRSDVQKDIRDLcsgmQEQKAELKHDISTLRS 122
                              455667777777788888888888888888888888887733334455555555555554 PP

  == domain 3  score: 9.2 bits;  conditional E-value: 0.004
                  DUF5082   9 qaqiaelrseiaaleekIerLk.eaktklsdekeslkqkkkklekplnssesWkGkeennydgirsnlessyqtyvdkldelidai 93 
                              +a  ++lrs+ + l ++I  L+  + + + d  + ++++k +l++ +    +++   +++  + rs++ ++  + + ++++l  +i
  PHY93_10035|PHY93_10035  71 HALRSDLRSQKDELKKDINFLRsDVQKDIRDLCSGMQEQKAELKHDIS---TLRSDVQKDIRDLRSDMLEQKAELKNDIKTLRTEI 153
                              667799999999999999999955666677777777777777666543...47889999999999999999999999999999999 PP

                  DUF5082  94 eeEIerLenqis 105
                              +++I +L +++ 
  PHY93_10035|PHY93_10035 154 KTDIHKLDSKMD 165
                              999999998875 PP

>> KELK  KELK-motif containing domain of MRCK Ser/Thr protein kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.4      0.14        49      15      40 ..      62      87 ..      48      90 .. 0.81
   2 ?    4.9   1.8      0.11        37      16      42 ..      92     118 ..      77     122 .. 0.81
   3 ?    5.4   1.2     0.077        26      16      43 ..     121     148 ..     117     166 .. 0.76

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.14
                     KELK 15 EkeelqkelaeaqErlksqkkeLkda 40
                              k+el++ +  ++  l+sqk eLk  
  PHY93_10035|PHY93_10035 62 QKNELSNGVHALRSDLRSQKDELKKD 87
                             58888888888889999999999865 PP

  == domain 2  score: 4.9 bits;  conditional E-value: 0.11
                     KELK  16 keelqkelaeaqErlksqkkeLkdais 42 
                              + ++qk++ ++   +++qk eLk  is
  PHY93_10035|PHY93_10035  92 RSDVQKDIRDLCSGMQEQKAELKHDIS 118
                              67899*****************98775 PP

  == domain 3  score: 5.4 bits;  conditional E-value: 0.077
                     KELK  16 keelqkelaeaqErlksqkkeLkdaisq 43 
                              + ++qk++ +++  + +qk eLk+ i+ 
  PHY93_10035|PHY93_10035 121 RSDVQKDIRDLRSDMLEQKAELKNDIKT 148
                              6789999999999999999999988764 PP

>> FlxA  FlxA-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.9   1.1     0.073        25      36      81 ..      66     111 ..      56     121 .. 0.48
   2 ?    5.5   4.6     0.048        16      22      66 ..     106     154 ..      98     165 .. 0.66

  Alignments for each domain:
  == domain 1  score: 4.9 bits;  conditional E-value: 0.073
                     FlxA  36 lses.deltkeekkkqqqliqaQIqqlqaQIaqlqqqqaekaqekqq 81 
                              ls+   +l  +  + q++++++ I+ l++ +++  ++  +  qe+++
  PHY93_10035|PHY93_10035  66 LSNGvHALRSD-LRSQKDELKKDINFLRSDVQKDIRDLCSGMQEQKA 111
                              44443333333.55556666666665555555443333333333333 PP

  == domain 2  score: 5.5 bits;  conditional E-value: 0.048
                     FlxA  22 LqkQiknlqkqLkelsesdeltkeekk....kqqqliqaQIqqlqaQIa 66 
                              +q+Q ++l+  ++ l ++ +++  + +    +q+ ++++ I+ l+ +I+
  PHY93_10035|PHY93_10035 106 MQEQKAELKHDISTLRSDVQKDIRDLRsdmlEQKAELKNDIKTLRTEIK 154
                              5666666666666666664444444444556788888888888887775 PP

>> CdvA  CdvA-like coiled-coil domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.1         6     2e+03      89     105 ..      21      37 ..      15      52 .. 0.57
   2 ?    4.4   1.7     0.092        31       8      57 ..      58     107 ..      54     114 .. 0.79
   3 ?    1.6   5.0      0.68   2.3e+02      20      57 ..      99     136 ..      75     144 .. 0.63
   4 ?    7.9   2.6    0.0077       2.6      17      58 ..     125     166 ..     115     176 .. 0.85

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 6
                     CdvA  89 ellesaleekeeikkll 105
                              e l ++++ek  +++++
  PHY93_10035|PHY93_10035  21 EILSKVNREKITTEEMI 37 
                              44445555555544444 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.092
                     CdvA   8 eLvsegdipkstyeeikekleealkklkekakelkeklkkrlkeledqik 57 
                              +L+ +++  +  ++ ++  l+++ ++lk++ + l++ ++k +++l + ++
  PHY93_10035|PHY93_10035  58 DLLIQKNELSNGVHALRSDLRSQKDELKKDINFLRSDVQKDIRDLCSGMQ 107
                              55556666667788899999999999999999999999999999876665 PP

  == domain 3  score: 1.6 bits;  conditional E-value: 0.68
                     CdvA  20 yeeikekleealkklkekakelkeklkkrlkeledqik 57 
                               +++   ++e+ ++lk + ++l++ ++k +++l++ + 
  PHY93_10035|PHY93_10035  99 IRDLCSGMQEQKAELKHDISTLRSDVQKDIRDLRSDML 136
                              34444445666667777777777777777777766665 PP

  == domain 4  score: 7.9 bits;  conditional E-value: 0.0077
                     CdvA  17 kstyeeikekleealkklkekakelkeklkkrlkeledqiks 58 
                              +++ ++++  + e+ ++lk++ k+l+ ++k  +++l+++++s
  PHY93_10035|PHY93_10035 125 QKDIRDLRSDMLEQKAELKNDIKTLRTEIKTDIHKLDSKMDS 166
                              667888999999999999999999999999999999999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (187 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1602  (0.0893524); expected 358.6 (0.02)
Passed bias filter:                      578  (0.0322383); expected 358.6 (0.02)
Passed Vit filter:                        93  (0.00518713); expected 17.9 (0.001)
Passed Fwd filter:                        53  (0.0029561); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              53  [number of targets reported over threshold]
# CPU time: 0.84u 0.26s 00:00:01.10 Elapsed: 00:00:00.44
# Mc/sec: 1285.32
//
Query:       PHY93_10040|PHY93_10040  [L=609]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
     0.0034   17.6   0.7      0.013   15.7   0.1    2.3  2  DUF4709     Domain of unknown function (DUF4709)
  ------ inclusion threshold ------
      0.056   13.3   2.0       0.26   11.1   0.1    2.9  3  betaPIX_CC  betaPIX coiled coil


Domain annotation for each model (and alignments):
>> DUF4709  Domain of unknown function (DUF4709)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.1   1.5e-06     0.013      38      87 ..     415     465 ..     404     474 .. 0.86
   2 ?   -2.3   0.0       0.6   5.4e+03      36      49 ..     571     584 ..     564     595 .. 0.48

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 1.5e-06
                  DUF4709  38 kLvkevkslkrdfeflkqllqakyeeklkeealelytr.lndklkelekly 87 
                              ++++++ +l rdf+++k+++ ++ye++lk+ a + y++ ++++++++ ++ 
  PHY93_10040|PHY93_10040 415 TFKNIIPNLARDFDLYKDAIILDYEKRLKNLAENGYMKdIQEHIESISEQN 465
                              56778899**************************99744999999987764 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 0.6
                  DUF4709  36 tqkLvkevkslkrd 49 
                              +++L+++ k+l++ 
  PHY93_10040|PHY93_10040 571 VKTLKNKNKKLRKC 584
                              33333333333332 PP

>> betaPIX_CC  betaPIX coiled coil
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.1      0.66   5.9e+03      38      56 ..     117     135 ..     116     136 .. 0.87
   2 ?   -0.2   0.0       0.1   9.2e+02      42      58 ..     165     181 ..     162     185 .. 0.83
   3 ?   11.1   0.1   2.9e-05      0.26      42      77 ..     569     605 ..     559     609 .] 0.87

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 0.66
               betaPIX_CC  38 YaLkdevqelkqenkklkk 56 
                              Y+ +dev+   ++n+ lkk
  PHY93_10040|PHY93_10040 117 YIRQDEVESHGEDNRDLKK 135
                              67789***99999999998 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.1
               betaPIX_CC  42 devqelkqenkklkksl 58 
                              + v+ lkqen k+  +l
  PHY93_10040|PHY93_10040 165 NAVARLKQENPKMLTTL 181
                              6799********98766 PP

  == domain 3  score: 11.1 bits;  conditional E-value: 2.9e-05
               betaPIX_CC  42 devqelkqenkklkkslee.EqkaRkdLEkvvrkllk 77 
                              + v++lk+ nkkl+k+le+ +qka  +L + +  l+k
  PHY93_10040|PHY93_10040 569 ESVKTLKNKNKKLRKCLENlDQKANPELLQKISNLIK 605
                              679***************8689999999888887777 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (609 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1058  (0.0590105); expected 358.6 (0.02)
Passed bias filter:                      586  (0.0326845); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.65u 0.27s 00:00:00.92 Elapsed: 00:00:00.43
# Mc/sec: 4265.44
//
Query:       PHY93_10045|PHY93_10045  [L=456]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.6e-17   61.3   0.9    2.5e-08   33.6   0.2    2.4  2  ATPase           KaiC
    8.3e-13   48.3   0.0    1.7e-12   47.3   0.0    1.5  1  AAA_25           AAA domain
    4.6e-12   45.4   8.0    6.9e-12   44.9   8.0    1.3  1  Rubredoxin_2     Rubredoxin metal binding domain
    2.5e-10   40.1   0.0    6.3e-10   38.8   0.0    1.6  1  DnaB_C           DnaB-like helicase C terminal domain
      7e-07   29.1   0.0    1.8e-06   27.8   0.0    1.7  1  ChlI             Subunit ChlI of Mg-chelatase
    2.2e-06   28.1   0.0    4.6e-06   27.1   0.0    1.5  1  AAA              ATPase family associated with various cellul
    2.7e-05   24.6   0.2    0.00022   21.7   0.1    2.2  3  AAA_16           AAA ATPase domain
    5.6e-05   23.4   0.0    0.00012   22.3   0.0    1.6  1  AAA_22           AAA domain
    0.00012   21.5   0.2    0.00045   19.6   0.1    1.9  2  Rad51            Rad51
    0.00015   21.8   0.0    0.00034   20.6   0.0    1.6  1  NACHT            NACHT domain
    0.00027   20.7   0.0     0.0014   18.4   0.0    2.2  1  AAA_24           AAA domain
     0.0007   19.9   0.0     0.0018   18.6   0.0    1.7  1  AAA_19           AAA domain
    0.00081   19.9   0.1     0.0016   19.0   0.1    1.5  1  ABC_tran         ABC transporter
    0.00094   19.1   0.0     0.0026   17.6   0.0    1.7  1  Bac_DnaA         Bacterial dnaA  protein
     0.0027   17.8   0.4     0.0047   17.0   0.4    1.4  1  zf-RING_10       zinc RING finger of MSL2
     0.0033   17.4   0.0      0.036   14.0   0.0    2.3  2  Glyco_tran_WecB  Glycosyl transferase WecB/TagA/CpsF family
     0.0063   16.6   0.0      0.021   14.9   0.0    1.9  1  AAA_14           AAA domain
     0.0068   16.8   0.2       0.29   11.6   0.0    2.6  2  RNA_helicase     RNA helicase
  ------ inclusion threshold ------
      0.017   14.4   0.0      0.028   13.7   0.0    1.4  1  DUF2075          Uncharacterized conserved protein (DUF2075)
      0.022   14.5   0.0      0.049   13.4   0.0    1.6  1  AAA_30           AAA domain
      0.023   14.6   0.3      0.093   12.6   0.3    2.0  2  NTPase_1         NTPase
      0.039   14.0   0.0      0.076   13.0   0.0    1.4  1  ResIII           Type III restriction enzyme, res subunit
      0.047   12.9   0.0      0.099   11.8   0.0    1.5  1  NB-ARC           NB-ARC domain
      0.077   13.0   0.1        5.2    7.1   0.0    2.3  2  PhnA_Zn_Ribbon   PhnA Zinc-Ribbon
      0.084   13.1   0.0        3.9    7.8   0.0    2.9  3  BEN              BEN domain
      0.098   12.0   0.0       0.15   11.3   0.0    1.4  1  FtsK_SpoIIIE     FtsK/SpoIIIE family
        0.1   12.0   0.1        1.4    8.3   0.0    2.4  2  TniB             Bacterial TniB protein
       0.12   11.4   0.1       0.22   10.6   0.1    1.4  1  T2SSE            Type II/IV secretion system protein
       0.12   11.6   0.2       0.36   10.1   0.1    1.8  1  Zeta_toxin       Zeta toxin
       0.12   11.9   0.9        1.3    8.6   0.1    2.3  2  TF_Zn_Ribbon     TFIIB zinc-binding
       0.15   12.0   1.2        1.1    9.1   0.4    2.7  3  RsgA_GTPase      RsgA GTPase
       0.15   12.1   1.0       0.48   10.5   1.0    1.9  1  HypA             Hydrogenase/urease nickel incorporation, met


Domain annotation for each model (and alignments):
>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.6   0.2   4.5e-11   2.5e-08       2      77 ..      73     149 ..      72     161 .. 0.86
   2 !   26.1   0.0   8.3e-09   4.7e-06     109     206 ..     158     258 ..     153     280 .. 0.77

  Alignments for each domain:
  == domain 1  score: 33.6 bits;  conditional E-value: 4.5e-11
                   ATPase   2 ktgIeglDeilkgGipegrvvlitGepGtGKtifalqFlikgaeky.gepgvfvtveepaedlrenakslGwdlekl 77 
                               tg  ++D+++ gG+  g+ +li GepG GK+++    + +  ++  ++ +++v+ ee+ +++ e+ak++G+++ ++
  PHY93_10045|PHY93_10045  73 VTGMGEFDRVVGGGVVPGSLILIGGEPGIGKSTLLTSVMGRLSQTHpEQVVLYVSGEESVNQVAERAKRVGVNTANF 149
                              6999****************************99888775544443166678********************98875 PP

  == domain 2  score: 26.1 bits;  conditional E-value: 8.3e-09
                   ATPase 109 eelaeaikeikakrvviDsitgl.ayee.....keavaReilrqlvrvlkklgvTailvsekssseeaaggygveefivdgvivLd 188
                              +++ e i++++ + +viDsi++  + e      +  ++Re   +l++ +k +g+T   +  +++ e+++ g+++ e++vd vi  +
  PHY93_10045|PHY93_10045 158 QKILEQINKLQPRFLVIDSIQTTsSSEIdsapgTVTQIREVTYELMNHVKANGITCFVIGHITK-EGSIAGPKILEHMVDTVIYFE 242
                              5677899*************999533321222245679******************99999765.599999999999*******99 PP

                   ATPase 189 lkeieeelvRtleivkmR 206
                               ++  +  +R l+ +k R
  PHY93_10045|PHY93_10045 243 GDQFGH--YRLLRAMKNR 258
                              877765..5555555655 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.3   0.0   3.1e-15   1.7e-12      26     193 ..      83     223 ..      78     224 .. 0.88

  Alignments for each domain:
  == domain 1  score: 47.3 bits;  conditional E-value: 3.1e-15
                   AAA_25  26 vkgllpagelallaGapgtGKttlaldlalavatGkpwlgpvapeqgkVlyvsaEdsedelrrRlravgealrddarllvldlagv 111
                              v+g ++ g+l+l+ G pg GK+tl+++++  +++ +p   +       Vlyvs+E+s +++++R+++vg +    a+ ++++    
  PHY93_10045|PHY93_10045  83 VGGGVVPGSLILIGGEPGIGKSTLLTSVMGRLSQTHPE--Q------VVLYVSGEESVNQVAERAKRVGVNT---ANFYIYNE--- 154
                              5544456**************************99974..3......4***********************8...99999984... PP

                   AAA_25 112 eslpLfakdrggtlltadvdaleaaieevegvrlvviDplsralggdensnsd....vgalvealeriarrtgaavllvhHvgKes 193
                                                ++++ ++i++  ++r++viD+++ + + + +s+      ++++   l +  ++ g++++++ H  Ke+
  PHY93_10045|PHY93_10045 155 ----------------TNWQKILEQINK-LQPRFLVIDSIQTTSSSEIDSAPGtvtqIREVTYELMNHVKANGITCFVIGHITKEG 223
                              ................567999******.57***************999998754445889999999999**************97 PP

>> Rubredoxin_2  Rubredoxin metal binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.9   8.0   1.2e-14   6.9e-12       1      28 []       8      35 ..       8      35 .. 0.97

  Alignments for each domain:
  == domain 1  score: 44.9 bits;  conditional E-value: 1.2e-14
             Rubredoxin_2  1 YvCsqCGfesakwfGrCpsCgsWntlke 28
                             ++C++C+++++kw+G+Cp+CgsWn+++e
  PHY93_10045|PHY93_10045  8 FICQSCSYQTSKWMGKCPECGSWNSFTE 35
                             89************************97 PP

>> DnaB_C  DnaB-like helicase C terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.8   0.0   1.1e-12   6.3e-10       3     120 ..      73     188 ..      72     219 .. 0.84

  Alignments for each domain:
  == domain 1  score: 38.8 bits;  conditional E-value: 1.1e-12
                              XSSTHHHHHHCT.SBXTTXEEEEEEXTTSSHHHHHHHHHHHHHHCSTSE.EEEEESSSXHHHHHHHHHHHHHTXXHHHHHHTTSXH CS
                              xxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   DnaB_C   3 stgfkdLDklts.GlqkgdliiiAarpsmGktalalniaenaavkeklp.vavfslemsaeqlvqRllsseaeidskklrtgklke 86 
                               tg+ ++D++++ G+ +g li+i++ p++Gk++l ++++ +  +++  + v+++s e s +q+++R   ++ ++++ +++    +e
  PHY93_10045|PHY93_10045  73 VTGMGEFDRVVGgGVVPGSLILIGGEPGIGKSTLLTSVMGRLSQTHPEQvVLYVSGEESVNQVAERA--KRVGVNTANFYI--YNE 154
                              689999**98862799***********************99887665444999*************5..667777777765..668 PP

                              HHHHHHHHHHHHHHHSEEEEEEXSSXCHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   DnaB_C  87 edweklteaieelseaklfiddtpaltvseirsk 120
                              ++w+k+ e+i++l+   l+id  ++++ sei s 
  PHY93_10045|PHY93_10045 155 TNWQKILEQINKLQPRFLVIDSIQTTSSSEIDSA 188
                              89********************999999888764 PP

>> ChlI  Subunit ChlI of Mg-chelatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.8   0.0   3.2e-09   1.8e-06      55     119 ..     365     429 ..     340     431 .. 0.88

  Alignments for each domain:
  == domain 1  score: 27.8 bits;  conditional E-value: 3.2e-09
                     ChlI  55 kkeGsafDLpiAigilaaleqieaeeetlflGeLsldGslrpvkgvlpialaakkegikkvivpk 119
                              k  +   DL+i  ++l+++ +++++++t+f+Ge++l+G++r++ ++   + ++++ ++k+v+ ++
  PHY93_10045|PHY93_10045 365 KLASRESDLAIIASLLSSYRSKPMDSSTIFVGEVGLTGEVRSIPQMEVRVKEMAQLNYKRVVTSE 429
                              5566677*****************************************************99765 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.1   0.0   8.3e-09   4.6e-06       1     130 [.      93     241 ..      93     242 .. 0.86

  Alignments for each domain:
  == domain 1  score: 27.1 bits;  conditional E-value: 8.3e-09
                              EEEESSTTSSHHHHHHHHHHHHTHE.....EEEEETTTCSSS..............STTHHHHHHHHHHHHHHHTSTSEEEEEETG CS
                      AAA   1 vllyGppGtGKTllakavakelgve.....fleisgsellsk..............yvgesekkirelfkeakekakpsilfiDEi 67 
                              +l+ G pG+GK++l  +v+  l+++     +l +sg e +++              +   +e + +++++++ + + p  l+iD i
  PHY93_10045|PHY93_10045  93 ILIGGEPGIGKSTLLTSVMGRLSQThpeqvVLYVSGEESVNQvaerakrvgvntanFYIYNETNWQKILEQINKLQ-PRFLVIDSI 177
                              5788*****************9733344549*********999*************99999*************98.********* PP

                              GGHHHHHTTCCCHHHHHHHHHHHHHHHHTTTSSSTEEEEEEESSGGGSTHHHHS.TTSSEEEET CS
                      AAA  68 dalaksrsgseseeeervvnqLlteldgvkkkeskvivigatnrpdkldpallr.gRfdrkiei 130
                                  +s+ +s+ +  +++ ++ ++ ++ vk +  +++vig  +++ ++  + ++ + +d +i++
  PHY93_10045|PHY93_10045 178 QTTSSSEIDSAPGTVTQIREVTYELMNHVKANGITCFVIGHITKEGSIAGPKILeHMVDTVIYF 241
                              ****999888888999999999999999999888899999888888777666555666666665 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.7   0.1   3.9e-07   0.00022      17      63 ..      80     133 ..      76     147 .. 0.74
   2 ?   -1.1   0.0       3.8   2.1e+03     124     146 ..     158     184 ..     153     203 .. 0.73
   3 ?   -2.0   0.0       7.5   4.2e+03       2      34 ..     366     399 ..     365     400 .. 0.76

  Alignments for each domain:
  == domain 1  score: 21.7 bits;  conditional E-value: 3.9e-07
                   AAA_16  17 ervrsgrp...elvllsGesGvGKsslvrellralekd....ggiflrgkcdql 63 
                              +rv  g+    +l+l+ Ge+G+GKs+l+++++ +l+++     +++++g+   +
  PHY93_10045|PHY93_10045  80 DRVVGGGVvpgSLILIGGEPGIGKSTLLTSVMGRLSQThpeqVVLYVSGEESVN 133
                              5666666666799*******************9999997752233366665555 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 3.8
                   AAA_16 124 krllallsrderplvlvlDdlq.....w 146
                              +++l+++ +  +p  lv+D +q      
  PHY93_10045|PHY93_10045 158 QKILEQINK-LQPRFLVIDSIQttsssE 184
                              677777777.45699****999444443 PP

  == domain 3  score: -2.0 bits;  conditional E-value: 7.5
                   AAA_16   2 lvGReeeleqLlsalervrsgrp..elvllsGesG 34 
                              l  Re +l+ ++s+l++ rs  p  ++++++Ge G
  PHY93_10045|PHY93_10045 366 LASRESDLAIIASLLSSYRSK-PmdSSTIFVGEVG 399
                              677999999999999977765.4478888888765 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.3   0.0   2.2e-07   0.00012       6     104 ..      91     181 ..      88     219 .. 0.76

  Alignments for each domain:
  == domain 1  score: 22.3 bits;  conditional E-value: 2.2e-07
                   AAA_22   6 gilvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsstsskdllrellralglelkaerlsseellealeqalrarav 91 
                              +++++ Ge+G+GK+tll  ++ +l +       +pe+v  ++++++s  +++++  r   + ++     +e  ++++ +++++ + 
  PHY93_10045|PHY93_10045  91 SLILIGGEPGIGKSTLLTSVMGRLSQT------HPEQVVLYVSGEESVNQVAERAKRVGVNTANF-YIYNETNWQKILEQINKLQP 169
                              689999******************887......99999999999999999987776655555555.67778888999999999999 PP

                   AAA_22  92 ielliiDEaqhlr 104
                               ++l+iD +q  +
  PHY93_10045|PHY93_10045 170 -RFLVIDSIQTTS 181
                              .******999874 PP

>> Rad51  Rad51
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   0.1   7.9e-07   0.00045      17     124 ..      70     164 ..      38     187 .. 0.72
   2 ?   -1.2   0.0       1.8   9.9e+02     127     159 ..     365     404 ..     358     438 .. 0.67

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 7.9e-07
                              -EE--S-HHHHHHHTSSEESSSEEEEEESTTSSHHHHHHHHHHHTTS-TTTS--SSEEEEEESSS---GGGGHHHHHHTT--HHHH CS
                    Rad51  17 lqlttGskklDelLgGGietgsiteifGefrsGktqlchtlcvtvqlplelgGgegkavyidtegtfrperlveiaerykldkeev 102
                               ++ tG  ++D+++gGG+  gs+  i Ge + Gk+ l    +v+  l   +   e+ ++y++ e +++  ++ e a+r +++    
  PHY93_10045|PHY93_10045  70 FRVVTGMGEFDRVVGGGVVPGSLILIGGEPGIGKSTLLT--SVMGRLS--QTHPEQVVLYVSGEESVN--QVAERAKRVGVN---- 145
                              4599*******************************8865..5777765..7779999*****997653..344444444444.... PP

                              GGGEEEEE--STTHHHHHHHHT CS
                    Rad51 103 lenvayaRaytiehqeellqqa 124
                                  a   +y+  + +++l+q+
  PHY93_10045|PHY93_10045 146 ---TANFYIYNETNWQKILEQI 164
                              ...4444455555555555554 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 1.8
                              HHHHS-EEEEEEETTTGGGCH-.......------THHHH CS
                    Rad51 127 llaedkfallivDsvtalyRtd.......fsgrgelakRq 159
                              +la+ +  l i+ s+ + yR+        f g   l+   
  PHY93_10045|PHY93_10045 365 KLASRESDLAIIASLLSSYRSKpmdsstiFVGEVGLTGEV 404
                              5677778899999999999988555665555555555444 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.6   0.0   6.1e-07   0.00034       2      46 ..      92     132 ..      91     191 .. 0.75

  Alignments for each domain:
  == domain 1  score: 20.6 bits;  conditional E-value: 6.1e-07
                              CEEEEC-TTTCHHHHHHHHHHHHCTS-SCCCC-SEEEEEETTTTT CS
                    NACHT   2 lvilqGeaGsGKTtLlqklalawaegklpqgafklvFflslrels 46 
                              l+++ Ge+G+GK+tLl +++  + + +++q    +v+++s  e  
  PHY93_10045|PHY93_10045  92 LILIGGEPGIGKSTLLTSVMGRLSQTHPEQ----VVLYVSGEESV 132
                              789************************888....66776665555 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0   2.5e-06    0.0014       5      78 ..      93     181 ..      90     260 .. 0.83

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 2.5e-06
                   AAA_24   5 iliyGpsgiGKTtlakel.........gpkplfidtekGlksldadkfpdie............swedfldevvelaaeladyktl 69 
                              ili G++giGK+tl+++          ++ +l++  e++++++  +  +++             +w+++l+++++l     + + l
  PHY93_10045|PHY93_10045  93 ILIGGEPGIGKSTLLTSVmgrlsqthpEQVVLYVSGEESVNQVAERA-KRVGvntanfyiynetNWQKILEQINKL-----QPRFL 172
                              7899*********************98889999*******9988766.445467899999*999999999999998.....23456 PP

                   AAA_24  70 viDtidele 78 
                              viD+i+ + 
  PHY93_10045|PHY93_10045 173 VIDSIQTTS 181
                              666666554 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.0   3.2e-06    0.0018       9     113 ..      89     179 ..      82     219 .. 0.78

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 3.2e-06
                   AAA_19   9 kekvllvtaGpGtGKTrvlkhivallvelggvkpeeillvaftgrAakelrerlaalgaeatTiHrlalldfddlltealelleea 94 
                              + +++l+ + pG GK+++l+ ++  l +++   pe+++l    + ++++++er + +g+++  +    + ++        ++le+ 
  PHY93_10045|PHY93_10045  89 PGSLILIGGEPGIGKSTLLTSVMGRLSQTH---PEQVVLYVSGEESVNQVAERAKRVGVNTANFYIYNETNW-------QKILEQ- 163
                              5677888888****************9999...799******************999988777765533333.......333333. PP

                   AAA_19  95 eeekklqeeellivDEfqd 113
                                 +kl +   l++D +q 
  PHY93_10045|PHY93_10045 164 --INKL-QPRFLVIDSIQT 179
                              ..2334.444666666655 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.0   0.1   2.9e-06    0.0016       8      80 ..      87     180 ..      82     222 .. 0.64

  Alignments for each domain:
  == domain 1  score: 19.0 bits;  conditional E-value: 2.9e-06
                              EETTSEEEEEESTTSSHHHHHHHHTTSS--.SEEEE..EETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH........... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx........... RF
                 ABC_tran   8 lkegekvaivGenGaGKStLlkllagllkp.teGei..lldgkdlkeqeleslrkeigvlpqepqlfpeltvren........... 79 
                              + +g+++ i Ge G GKStLl  ++g l++   +++   + g+++ + +  +  k++gv + +  + +e+ + ++           
  PHY93_10045|PHY93_10045  87 VVPGSLILIGGEPGIGKSTLLTSVMGRLSQtHPEQVvlYVSGEESVN-QVAERAKRVGVNTANFYIYNET-NWQKileqinklqpr 170
                              6799*****************99999887733444422333555555.6777777788777774444444.444345555555555 PP

                              .........H CS
                              .........x RF
                 ABC_tran  80 .........e 80 
                                       +
  PHY93_10045|PHY93_10045 171 flvidsiqtT 180
                              5555555552 PP

>> Bac_DnaA  Bacterial dnaA  protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.0   4.6e-06    0.0026      37      84 ..      93     140 ..      90     160 .. 0.90

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 4.6e-06
                              EEEE-SSSSSHHHHHHHHHHHHHHHSSSS-EEEEEHHHHHHHHHHHHH CS
                 Bac_DnaA  37 lfiygevGlGktHLlkaignevlenapelrvvYltaeeFlnelvkalr 84 
                              ++i ge G+Gk  Ll ++  ++ +++pe+ v+Y+++ee +n++++  +
  PHY93_10045|PHY93_10045  93 ILIGGEPGIGKSTLLTSVMGRLSQTHPEQVVLYVSGEESVNQVAERAK 140
                              578899**********************************99987655 PP

>> zf-RING_10  zinc RING finger of MSL2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.4   8.4e-06    0.0047      22      56 ..       6      40 ..       1      43 [. 0.90

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 8.4e-06
               zf-RING_10 22 qHyvCrlCvgkkkklkpsCsqCkdyekyeenkqlr 56
                               ++C++C  +  k + +C++C ++++++e+++l+
  PHY93_10045|PHY93_10045  6 TTFICQSCSYQTSKWMGKCPECGSWNSFTEETTLA 40
                             568****************************9986 PP

>> Glyco_tran_WecB  Glycosyl transferase WecB/TagA/CpsF family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.0   0.0   6.4e-05     0.036      30     102 ..     104     174 ..      83     176 .. 0.82
   2 ?    0.9   0.0      0.69   3.9e+02      24      52 ..     189     218 ..     172     238 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 6.4e-05
          Glyco_tran_WecB  30 idlieelleraeee.glrvfllGgkpevlekaaerlrekypglriagthdgykeeeeeaiieainaskpdlllv 102
                              + l+ +++ r+++    +v+l+ + +e+++++aer+++   g++ a ++  + e++ ++i+e+in+ +p++l++
  PHY93_10045|PHY93_10045 104 STLLTSVMGRLSQThPEQVVLYVSGEESVNQVAERAKRV--GVNTANFYIYN-ETNWQKILEQINKLQPRFLVI 174
                              467777788885555889999999999*********999..78888777774.79****************987 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.69
          Glyco_tran_WecB  24 pervagi.dlieelleraeeeglrvfllGg 52 
                              p  v+ i +++ el+++ +++g+++f++G 
  PHY93_10045|PHY93_10045 189 PGTVTQIrEVTYELMNHVKANGITCFVIGH 218
                              5556666688999*****999*******97 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.0   3.7e-05     0.021       5      76 ..      93     180 ..      90     213 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 3.7e-05
                   AAA_14   5 lvitGaRrvGKTtllkqlikell..vkkesilyinldderd..........kkladpe.........kllelileklkeekktylf 69 
                              ++i G   +GK+tll  ++ +l    +++ +ly++ ++  +                +         ++ + ile++++ + ++l+
  PHY93_10045|PHY93_10045  93 ILIGGEPGIGKSTLLTSVMGRLSqtHPEQVVLYVSGEESVNqvaerakrvgV-----NtanfyiyneTNWQKILEQINKLQPRFLV 173
                              67788889***********9988988888899***99988755554444441.....03334344445567777877678999*** PP

                   AAA_14  70 lDEiqev 76 
                              +D iq  
  PHY93_10045|PHY93_10045 174 IDSIQTT 180
                              *****87 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.0      0.32   1.8e+02      22      66 ..       9      53 ..       1      72 [. 0.73
   2 !   11.6   0.0   0.00051      0.29       1      27 [.      93     128 ..      93     189 .. 0.70

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.32
             RNA_helicase 22 llkklklkkkdsvysrnpeddfwdgYtgqevvvidDfgqvkdee.n 66
                             ++++  + ++++++ + pe   w+++t+++ +   D+++ ++++ +
  PHY93_10045|PHY93_10045  9 ICQSC-SYQTSKWMGKCPECGSWNSFTEETTLAAKDMNRAHKRTaQ 53
                             44444.34445566799999******************99987534 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 0.00051
             RNA_helicase   1 iwlyGpsgeGKStlakeLakallkkl.........k 27 
                              i++ G++g+GKStl ++++ +l+++          +
  PHY93_10045|PHY93_10045  93 ILIGGEPGIGKSTLLTSVMGRLSQTHpeqvvlyvsG 128
                              6788*************9999997764444444441 PP

>> DUF2075  Uncharacterized conserved protein (DUF2075)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   4.9e-05     0.028       3      48 ..      92     137 ..      90     176 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 4.9e-05
                  DUF2075   3 vvlVtGvaGtGKtvvllnllaeleddeeertavylsvNhplvlvlr 48 
                              ++l+ G++G GK+ +l +++ +l+++  e+ + y+s+ ++ ++v +
  PHY93_10045|PHY93_10045  92 LILIGGEPGIGKSTLLTSVMGRLSQTHPEQVVLYVSGEESVNQVAE 137
                              79*********************55555555556655555555444 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   8.7e-05     0.049      20     100 ..      92     180 ..      87     242 .. 0.73

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 8.7e-05
                   AAA_30  20 vavltGpAGtGKttalkalreaweaa.ggrviglAptgkaAkvLaeelgieastiakllkrlk........grarlepgtllivDE 96 
                              + ++ G +G GK+t+l+++   + +   ++v+++ + ++  +++ae +   + ++a++   ++        +  +  + + l++D 
  PHY93_10045|PHY93_10045  92 LILIGGEPGIGKSTLLTSVMGRLSQThPEQVVLYVSGEESVNQVAERAKRVGVNTANFYIYNEtnwqkileQ-INKLQPRFLVIDS 176
                              67899**************6666666599***9999999999999877765555555554444566667742.2223335666665 PP

                   AAA_30  97 agmv 100
                              +  +
  PHY93_10045|PHY93_10045 177 IQTT 180
                              5555 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.3   0.00017     0.093       2      25 ..      93     116 ..      92     145 .. 0.88
   2 ?   -1.5   0.0       3.6     2e+03      61     102 ..     136     175 ..     120     177 .. 0.56

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 0.00017
                              EEEE--TTSSHHHHHHHHHHHH.. CS
                 NTPase_1   2 vfiTGppGvGKtTlvkkvlellks 25 
                              ++i G+pG+GK+Tl+  v+  l++
  PHY93_10045|PHY93_10045  93 ILIGGEPGIGKSTLLTSVMGRLSQ 116
                              7899**************999965 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 3.6
                              EETT---SSEETTEEE-HHHHHHHHHHHHHHHHHHH-EEEE- CS
                 NTPase_1  61 arveakreprvgkyvvdvesfeelalealrkalseadviviD 102
                              a++ ++ +++  ++++  e  ++ +le+++k   ++  +viD
  PHY93_10045|PHY93_10045 136 AERAKRVGVNTANFYIYNETNWQKILEQINK--LQPRFLVID 175
                              3333445555666666666677777777766..355666666 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   0.00014     0.076      28     118 ..      94     184 ..      90     216 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 0.00014
                              EEEESTTSTHHHHHHHHHHHH-S.....-EEEEESSHHHHHHHHHHGGGGTGG.......GEEEESSS-B--.......-SEEEEE CS
                   ResIII  28 likmaTGtGKTlvaaklierllkkgkeekflflvprkslleqtleefkkflseayke...igkkvsgdkkkakekdstnkkilvtt 110
                              li  + G GK+ ++++++ rl++ ++e ++++ v +++ ++q  e+ k++  +++++   +++++++  +++  ++ + + +++ +
  PHY93_10045|PHY93_10045  94 LIGGEPGIGKSTLLTSVMGRLSQTHPE-QVVLYVSGEESVNQVAERAKRVGVNTANFyiyNETNWQKILEQI--NKLQPRFLVIDS 176
                              566678*****************9775.999999999999************99999966444444444444..555567777777 PP

                              HHHHHHTH CS
                   ResIII 111 iqsldads 118
                              iq+ ++++
  PHY93_10045|PHY93_10045 177 IQTTSSSE 184
                              77777665 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   0.00018     0.099      22      90 ..      92     156 ..      87     186 .. 0.70

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00018
                              EEEEEESTTSSHHHHHHHHCCSHCCCCCCBTEEEEEEEESXXHHHHHHHXXHHHHHCCCTTSSSS-STT CS
                   NB-ARC  22 vvalvGmgGvGKttlakqilnksdevegrFdsvawvvvsktdkseeiletilkeLslseddleekeeve 90 
                              ++ + G +G+GK+tl+++++     + ++ +  + + vs + + +++ e+ +k+++ + ++  + +e +
  PHY93_10045|PHY93_10045  92 LILIGGEPGIGKSTLLTSVMGR---LSQTHPEQVVLYVSGEESVNQVAER-AKRVGVNTANFYIYNETN 156
                              57799***************99...7777788888889988888888885.555556656666666555 PP

>> PhnA_Zn_Ribbon  PhnA Zinc-Ribbon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.6   0.0      0.11        64      18      28 ..       6      16 ..       3      18 .. 0.87
   2 ?    7.1   0.0    0.0092       5.2       2      10 ..      21      29 ..      20      41 .. 0.85

  Alignments for each domain:
  == domain 1  score: 3.6 bits;  conditional E-value: 0.11
           PhnA_Zn_Ribbon 18 allvCpeCahE 28
                             + ++C  C+++
  PHY93_10045|PHY93_10045  6 TTFICQSCSYQ 16
                             679******99 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0092
           PhnA_Zn_Ribbon  2 lpkCplCaS 10
                             ++kCp+C+S
  PHY93_10045|PHY93_10045 21 MGKCPECGS 29
                             78*****99 PP

>> BEN  BEN domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.0      0.72   4.1e+02      51      72 ..     148     166 ..     145     169 .. 0.77
   2 ?   -1.5   0.0       5.6   3.1e+03      42      59 ..     192     209 ..     189     212 .. 0.81
   3 ?    7.8   0.0     0.007       3.9      19      55 ..     320     349 ..     314     355 .. 0.84

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.72
                              HHH--..........-HHHHHH CS
                      BEN  51 erypsekededwwrecldqInk 72 
                              ++y     +e+ w+++l+qInk
  PHY93_10045|PHY93_10045 148 NFYIY---NETNWQKILEQINK 166
                              55555...6778888*****98 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 5.6
                              HHHHHHHHHHHH--.... CS
                      BEN  42 lsaIrnyveerypseked 59 
                              ++ Ir++++e ++++k +
  PHY93_10045|PHY93_10045 192 VTQIREVTYELMNHVKAN 209
                              889*******99997665 PP

  == domain 3  score: 7.8 bits;  conditional E-value: 0.007
                              EESS----GGGTT---EE--HHHHHHHHHHHHHHH-- CS
                      BEN  19 ssvtGkrsrafkrppkkaLDpnklsaIrnyveeryps 55 
                                ++G+        ++ +LD n+l  +  +ve++++ 
  PHY93_10045|PHY93_10045 320 KFGNGR-------RTTHGLDNNRLAMMVAVVEKYFGL 349
                              444454.......99*******************986 PP

>> FtsK_SpoIIIE  FtsK/SpoIIIE family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00028      0.15      41      78 ..      92     128 ..      49     206 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00028
                              SEEEE--TTSSHHHHHHHHHHHHHTT--TTTEEEEEE- CS
             FtsK_SpoIIIE  41 hllvaGatgsGKStalntLilSlatthtPeeVqliliD 78 
                               +l+ G +g GKSt l + + + ++ ++Pe+V l++ +
  PHY93_10045|PHY93_10045  92 LILIGGEPGIGKSTLLTSVM-GRLSQTHPEQVVLYVSG 128
                              58999***********9966.566779*******9765 PP

>> TniB  Bacterial TniB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   0.0    0.0025       1.4     105     153 ..     154     202 ..      89     212 .. 0.74
   2 ?   -2.9   0.0       6.6   3.7e+03     155     183 ..     390     418 ..     385     423 .. 0.81

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0025
                     TniB 105 skleqqvlrllrelkvrvLiiDEihnllagsarkqreflnalksLgnel 153
                              ++  q++l+ +++l++r L+iD i+   + + ++   ++ +++  + el
  PHY93_10045|PHY93_10045 154 ETNWQKILEQINKLQPRFLVIDSIQTTSSSEIDSAPGTVTQIREVTYEL 202
                              46679999******************99999999999999888877666 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 6.6
                     TniB 155 ipivlvGteealralrtDpqlasRFepia 183
                               + + vG+  ++  +r+ pq++ R +++a
  PHY93_10045|PHY93_10045 390 SSTIFVGEVGLTGEVRSIPQMEVRVKEMA 418
                              57889999999999999999999988765 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.1   0.00039      0.22     117     205 ..      78     174 ..      39     191 .. 0.77

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00039
                    T2SSE 117 kiaevlrkavrerglilvsGgTgsGKttllyallkeinks.derivtv...EDpvEiqleganqvqlnak....kakvtfadllra 194
                              ++++v+   v    lil+ G  g GK+tll +++  + ++  e++v+    E +v    e a++v +n++     ++ + ++ l++
  PHY93_10045|PHY93_10045  78 EFDRVVGGGVVPGSLILIGGEPGIGKSTLLTSVMGRLSQThPEQVVLYvsgEESVNQVAERAKRVGVNTAnfyiYNETNWQKILEQ 163
                              566666667777789*******************9998876455544225589999999999999999998888788888888888 PP

                    T2SSE 195 aLRlrPDrimv 205
                              +  l+P  +++
  PHY93_10045|PHY93_10045 164 INKLQPRFLVI 174
                              87777776666 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.1   0.00065      0.36      18      41 ..      92     115 ..      90     126 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00065
               Zeta_toxin  18 lillgGqpGAGKselaellkdele 41 
                              lil+gG pG GKs+l++ +  +l 
  PHY93_10045|PHY93_10045  92 LILIGGEPGIGKSTLLTSVMGRLS 115
                              79**************99988876 PP

>> TF_Zn_Ribbon  TFIIB zinc-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.1      0.41   2.3e+02      16      25 ..       4      13 ..       3      17 .. 0.88
   2 ?    8.6   0.1    0.0023       1.3       2      14 ..      23      36 ..      22      40 .. 0.75

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.41
                             STTCEEESSS CS
             TF_Zn_Ribbon 16 ergelvCtdC 25
                             ++++++C +C
  PHY93_10045|PHY93_10045  4 KTTTFICQSC 13
                             5899****** PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0023
                             EETTTTCEE.CHEE CS
             TF_Zn_Ribbon  2 kCPnCgstn.lveD 14
                             kCP+Cgs n ++e+
  PHY93_10045|PHY93_10045 23 KCPECGSWNsFTEE 36
                             9******5547665 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   0.4     0.002       1.1     100     125 ..      91     116 ..      86     148 .. 0.80
   2 ?   -1.3   0.0       3.1   1.8e+03      62      99 ..     129     166 ..     120     174 .. 0.79
   3 ?   -0.8   0.0       2.2   1.2e+03      64      89 ..     409     434 ..     366     438 .. 0.75

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.002
                              SEEEEECSTTSSHHHHHHHHCTT--- CS
              RsgA_GTPase 100 ktsvlvGqSGvGKStLinallpelel 125
                              +++++ G+ G+GKStL+ +++++l++
  PHY93_10045|PHY93_10045  91 SLILIGGEPGIGKSTLLTSVMGRLSQ 116
                              5677889************9998554 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 3.1
                              HHHHHHHHHHHHHTTSEEEE--TTTHTTHHHHHHHCTT CS
              RsgA_GTPase  62 eeeleelkeelealgyevllvsaktkegleelkellkd 99 
                              ee++++++e+ +++g+++      ++++++++ e++++
  PHY93_10045|PHY93_10045 129 EESVNQVAERAKRVGVNTANFYIYNETNWQKILEQINK 166
                              55699999999999999998888888888888887765 PP

  == domain 3  score: -0.8 bits;  conditional E-value: 2.2
                              HHHHHHHHHHHTTSEEEE--TTTHTT CS
              RsgA_GTPase  64 eleelkeelealgyevllvsaktkeg 89 
                              ++e   +e+++l+y+ +++s+kt ++
  PHY93_10045|PHY93_10045 409 QMEVRVKEMAQLNYKRVVTSEKTANE 434
                              57788899999999999999988765 PP

>> HypA  Hydrogenase/urease nickel incorporation, metallochaperone, hypA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   1.0   0.00085      0.48      68      96 ..       5      31 ..       1      43 [. 0.79

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00085
                             --EEEETTTS-EEECHHHHHS-TTTSSS- CS
                     HypA 68 pvkvrCreCgkefeleekalrCpkCgsad 96
                               ++ C++C++++++     +Cp+Cgs +
  PHY93_10045|PHY93_10045  5 TTTFICQSCSYQTSKW--MGKCPECGSWN 31
                             67899*****988855..458*****975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (456 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       821  (0.0457917); expected 358.6 (0.02)
Passed bias filter:                      696  (0.0388198); expected 358.6 (0.02)
Passed Vit filter:                       141  (0.00786435); expected 17.9 (0.001)
Passed Fwd filter:                        32  (0.00178482); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              32  [number of targets reported over threshold]
# CPU time: 0.71u 0.28s 00:00:00.99 Elapsed: 00:00:00.45
# Mc/sec: 3019.17
//
Query:       PHY93_21325|PHY93_21325  [L=196]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      6e-25   87.6   0.2    8.5e-25   87.1   0.2    1.2  1  NusG      Transcription termination factor nusG
      3e-08   33.3   0.2    6.1e-08   32.4   0.2    1.5  1  KOW       KOW motif
  ------ inclusion threshold ------
      0.042   13.5   0.3       0.14   11.7   0.3    1.8  1  EF_TS     Elongation factor TS


Domain annotation for each model (and alignments):
>> NusG  Transcription termination factor nusG
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   87.1   0.2   1.4e-28   8.5e-25       2      95 .]      27     130 ..      26     130 .. 0.92

  Alignments for each domain:
  == domain 1  score: 87.1 bits;  conditional E-value: 1.4e-28
                              EEEEEEE-TTTHHHHHHHH...HHHCT-.....EEE-SCEEEEEEETTEEE....CSSTTEEEEEE---CHHHHHHHCSTTEEEE- CS
                              xxxxxxxxxxxxxxxxxxx...xxxxxx.....xxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     NusG   2 kWYvlqvepgkekkvkenL...leeegl.....evivPaeekveirqgkkk....klfpgyifikadmndkllmairktpgVtgfv 75 
                               WYv+++++g+e kv e+L   ++  gl     ++i+P+++k++ir+g+k     k fpgy++i++ ++d+++ ++r+t+gVtgf+
  PHY93_21325|PHY93_21325  27 AWYVINTYSGHEYKVIEALktrIKTMGLedkifQAIIPIQSKMVIRRGQKVksqeKTFPGYVLIQMVLSDDSWITVRTTQGVTGFI 112
                              6*******************9977777788888*************7777679********************************* PP

                              EETTSSCC-EB-HHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxx RF
                     NusG  76 rvggeskpvplseeevqnil 95 
                               v  e+kp+++s+ ev++il
  PHY93_21325|PHY93_21325 113 GV--ENKPQAISQTEVDKIL 130
                              55..66***********996 PP

>> KOW  KOW motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.4   0.2     1e-11   6.1e-08       2      27 ..     147     176 ..     146     181 .. 0.87

  Alignments for each domain:
  == domain 1  score: 32.4 bits;  conditional E-value: 1e-11
                              TSEEEESSSTTTTCEEEEEEEETTT....T CS
                      KOW   2 GdhVkVvsGphkGktGkVvkvdqhk....v 27 
                              Gd+Vk++ Gp+++++G++ +vdq+k    v
  PHY93_21325|PHY93_21325 147 GDVVKITNGPFADFIGTIDSVDQEKgkirV 176
                              9************************55444 PP

>> EF_TS  Elongation factor TS
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.3   2.4e-05      0.14      38      85 ..      41      88 ..      24     155 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 2.4e-05
                    EF_TS 38 leellalkledetveealkekiakigEkielrrfakleaekevvasYi 85
                             + e+l++ ++ + +e+++ ++i  i  k+++rr +k++++++++ +Y+
  PHY93_21325|PHY93_21325 41 VIEALKTRIKTMGLEDKIFQAIIPIQSKMVIRRGQKVKSQEKTFPGYV 88
                             3455567789999**************************999999996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (196 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       584  (0.0325729); expected 358.6 (0.02)
Passed bias filter:                      467  (0.0260472); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1470.38
//
Query:       PHY93_10050|PHY93_10050  [L=623]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.4e-50  171.4   0.0    3.5e-50  170.9   0.0    1.3  1  DNA_ligase_aden  NAD-dependent DNA ligase adenylation domain
    5.2e-22   77.5   0.0    1.3e-21   76.2   0.0    1.7  1  DNA_ligase_OB    NAD-dependent DNA ligase OB-fold domain
    2.5e-13   50.2   1.2    3.5e-12   46.5   0.2    2.6  2  BRCT             BRCA1 C Terminus (BRCT) domain
    1.9e-05   24.5   0.0    4.7e-05   23.2   0.0    1.6  1  PTCB-BRCT        twin BRCT domain
    3.9e-05   24.0   0.2    7.5e-05   23.1   0.2    1.5  1  RNA_ligase       RNA ligase
    0.00027   21.0   0.5      0.035   14.2   0.0    2.8  2  HHH_2            Helix-hairpin-helix motif
    0.00071   20.1   3.2        1.1   10.0   0.0    2.6  2  HHH_5            Helix-hairpin-helix domain
     0.0035   17.1   2.5       0.74    9.6   0.1    2.7  2  RNA_pol_A_CTD    Bacterial RNA polymerase, alpha chain C term
     0.0079   16.2   2.9      0.016   15.2   2.9    1.5  1  DNA_ligase_ZBD   NAD-dependent DNA ligase C4 zinc finger doma


Domain annotation for each model (and alignments):
>> DNA_ligase_aden  NAD-dependent DNA ligase adenylation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  170.9   0.0   1.8e-53   3.5e-50       6     317 ..       3     286 ..       1     287 [. 0.91

  Alignments for each domain:
  == domain 1  score: 170.9 bits;  conditional E-value: 1.8e-53
                              HHHHHHHHHHHHHHHHHCTT-SSC-HCHHHHHHHHHHHHHHHSGGG--TTSCCG-SSSS--CTS-EEE-SS-----EEE-SHHHHH CS
          DNA_ligase_aden   6 eleelrellrkydyeYyvldePlvsDaeyDrllkelkelEekfPelitpdSPtqrvgaeleaefkkveHeapllSLdnafdedelk 91 
                              +++ l++l+ k++  Yy+   P++sD+e+D+l +el++l+        pd  + ++  +++++ +k++H +++lSL++++  ++l 
  PHY93_10050|PHY93_10050   3 RVAVLADLILKHKALYYQ-GRPEISDSEFDKLEEELTRLD--------PDNYALKIVGTTTSASDKIKHDKKMLSLEKTYVLEDLL 79 
                              56778999999*999996.79****************996........5666677766677779********************** PP

                              HHHHHHHHHSSS--S-EEEEEEEESSEEEEEEEETTEEEEEEE-TTSSEEEB-HHHHCT-TTS-SB-SSSS--SEEEEEEEEE--H CS
          DNA_ligase_aden  92 aflerieealgnkekvayvvelKiDGlavsllYengvlvraatRGdGttGedvtaNvktiksiPlklkvdnlpeelevRGEvylrk 177
                              a++         +e   ++  +K+DG+++sl+Ye+g lv+a tRGdGt+Ge++ a v  i+siP+ ++ +   +++evRGE + ++
  PHY93_10050|PHY93_10050  80 AWVGS-------EE---VISTMKLDGVSCSLVYEKGRLVQAKTRGDGTFGENIMAKVMWINSIPKLIRPK---NKIEVRGELFCDE 152
                              **976.......22...56778*********************************************998...9************ PP

                              HHHHHHHHHHHHCT----SSHHHHHHHHHT-SSHHHHHTS--EEEEEEEEEEESS---.SBHHHHHHHHHHCT--B-TT-EEECSH CS
          DNA_ligase_aden 178 edFeklNeerleegeklfaNpRNaAaGslRqldpkitakrkLkliayglglvekeelevktqsealkvlkklglkvseelklvksi 263
                              e+F +l +e +  g    +  RN  aG + ++d      r +k++a++        ++++ ++e ++ l+++g+++ +e+   k+ 
  PHY93_10050|PHY93_10050 153 ESFFHLSSEMVSIGLDRPTSQRNIVAGLMGRKDNL-EFCRYIKFMAFDYISD----EKITKEEEKFQKLESCGFTI-PEVGIHKDR 232
                              ******************************99965.556899****999954....45777899**********87.678999999 PP

                              HHHHHHHHHHHHHGGGSSS-EEEEEEEESBHHHHHHH-EETSCESSEEEEE--- CS
          DNA_ligase_aden 264 eevleyieelekkRdeleyeiDGvVvkvdelalqeeLGftakaPrwAiAyKfpa 317
                              + ++++ie+ ++  +e ey+iDG+V   ++++ +eeLG t+++Pr+ +A+Kf+ 
  PHY93_10050|PHY93_10050 233 KSIEHTIESAREFMSEGEYQIDGLVFTYNKMSHHEELGETSHHPRYKMAFKFQG 286
                              ****************************************************85 PP

>> DNA_ligase_OB  NAD-dependent DNA ligase OB-fold domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.2   0.0   6.7e-25   1.3e-21       1      74 [.     290     363 ..     290     367 .. 0.96

  Alignments for each domain:
  == domain 1  score: 76.2 bits;  conditional E-value: 6.7e-25
                              G--XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
            DNA_ligase_OB   1 etkledievqVGRtGaltpvAeLepvelaGttVsratLhnedeierkdirigdtVvvekaGdvIPevvgvvlek 74 
                              +tkl++ie++V R+G ltpv e+epvel+G ++sr+tLhn   + + +++ gd + + ++G+vIP+ ++vv+++
  PHY93_10050|PHY93_10050 290 TTKLKKIEWSVSRNGILTPVGEVEPVELSGAMISRVTLHNYGMVLQYNLKTGDEIEIIRSGEVIPKFLSVVKSS 363
                              59********************************************************************9986 PP

>> BRCT  BRCA1 C Terminus (BRCT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.0      0.17   3.4e+02       4      31 ..     214     241 ..     211     242 .. 0.89
   2 !   46.5   0.2   1.8e-15   3.5e-12       7      77 ..     553     622 ..     547     623 .] 0.95

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.17
                              TTTTTEEEEEEESTSSHHHHHHHHHHHH CS
                     BRCT   4 llfhgckfvitgvldnftrdeleelike 31 
                                ++ c f i+ v    +r+++e +i++
  PHY93_10050|PHY93_10050 214 QKLESCGFTIPEVGIHKDRKSIEHTIES 241
                              56899*******************9985 PP

  == domain 2  score: 46.5 bits;  conditional E-value: 1.8e-15
                              TTEEEEEEESTSSHHHHHHHHHHHHTTCEEESSCSTTSSEEEESSSHSHHHHHHHHHHTTSEEEETHHHHH CS
                     BRCT   7 hgckfvitgvldnftrdeleelikehGGkvttevskktthlvvgepesrslkylealklnipivheewlld 77 
                              +g+k++i ++  +++r+ +e+ i+e GG v+++vsk+t++lv+ e++  s+k+++al+l+i+i++ee+l++
  PHY93_10050|PHY93_10050 553 TGKKICI-TGALTEKRSVIEDSIREGGGIVVSSVSKNTDILVTNETDPSSSKFKKALELKIKIISEEELMK 622
                              799****.9999*********************************************************87 PP

>> PTCB-BRCT  twin BRCT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.2   0.0   2.4e-08   4.7e-05       2      60 ..     556     616 ..     556     618 .. 0.96

  Alignments for each domain:
  == domain 1  score: 23.2 bits;  conditional E-value: 2.4e-08
                              EEEEECB-TTCHHHHHHHHHHTT-EEESSEETT-SEEEE..CSS-CHHHHHHHHCT-EEE- CS
                PTCB-BRCT   2 vicvtgysgddrkslqklieamGaeyskdltksvTHLic..ksgeGekyekAkkwgipvVs 60 
                              +ic+tg  +++r+ +++ i + G+ ++  ++k++  L+   ++++++k++kA + +i+++s
  PHY93_10050|PHY93_10050 556 KICITGALTEKRSVIEDSIREGGGIVVSSVSKNTDILVTneTDPSSSKFKKALELKIKIIS 616
                              69*************************************77789***************98 PP

>> RNA_ligase  RNA ligase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.1   0.2   3.7e-08   7.5e-05       1     152 [.      85     268 ..      85     280 .. 0.68

  Alignments for each domain:
  == domain 1  score: 23.1 bits;  conditional E-value: 3.7e-08
                              SEEEEEEE-SSEEEEEEEETT..EEEEETTCEBCTTTHHHHHHTHHHHHHHHHHHHH...ECCEEEEEEEES..........SS.. CS
               RNA_ligase   1 eevvvtEKlDGtnfriylvke..vgvasRsqilpfgeekfkefkrwaaalrkklkekla.neelilyGElig.........hsiky 74 
                              eev+ t KlDG +++++++k+  v++ +R+    fge+ +      +++  + +++ ++  +++++ GEl+          +    
  PHY93_10050|PHY93_10050  85 EEVISTMKLDGVSCSLVYEKGrlVQAKTRGDGT-FGENIM-----AKVMWINSIPKLIRpKNKIEVRGELFCdeesffhlsS---- 160
                              58999*************988889999999988.555554.....677777789999999679*********8765555441.... PP

                              TTSS.................................EEEEEEEEEEECTTBECE--HHHHHHHHHCCT.B..EEEEE.SS..... CS
               RNA_ligase  75 gglpk................................efyvFdifdirdkeeqrylspdevealakglg.tvpvlyegkfl..... 122
                                  +                                +f++Fd +   d  e+   + +++++l+   g t+p + + +++     
  PHY93_10050|PHY93_10050 161 ----EmvsigldrptsqrnivaglmgrkdnlefcryiKFMAFDYIS--D--EKITKEEEKFQKLES-CGfTIPEV-GIHKDrksie 236
                              ....02233333344677889999999999*9**999******884..2..444445555588888.55666666.3333322113 PP

                              .HHHHHCCC......HHHHTC--EEEEEESSSSBE.T CS
               RNA_ligase 123 .aaeellel.....llskgnkrEGlVikpeselyk.n 152
                               +            +++ + +  GlV+ + +++++ +
  PHY93_10050|PHY93_10050 237 hTI-----EsarefMSEGEYQIDGLVFTYNKMSHHeE 268
                              322.....13454322466678888888777776644 PP

>> HHH_2  Helix-hairpin-helix motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.0   0.1     0.026        52      26      64 .]     431     469 ..     421     469 .. 0.83
   2 !   14.2   0.0   1.8e-05     0.035      21      54 ..     491     524 ..     470     529 .. 0.81

  Alignments for each domain:
  == domain 1  score: 4.0 bits;  conditional E-value: 0.026
                    HHH_2  26 ldaLkkasleeLlevddiGeeiAqsivefFeneknreli 64 
                              +  + + ++e+L ++d i ++ +++++e  ++ k+ +li
  PHY93_10050|PHY93_10050 431 IGDIYRLTAEDLMKIDKIKDKLSTKVIESIQKTKTVDLI 469
                              556677899*****************9998888776665 PP

  == domain 2  score: 14.2 bits;  conditional E-value: 1.8e-05
                    HHH_2  21 krFksldaLkkasleeLlevddiGeeiAqsivef 54 
                                F+s+d++k+ +le+L +++  +e+ A+++ + 
  PHY93_10050|PHY93_10050 491 AGFDSIDKIKNLTLEKLMSIESFAEKSATDFLSS 524
                              56**************************988765 PP

>> HHH_5  Helix-hairpin-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.6   1.1    0.0007       1.4       6      57 .]     410     462 ..     405     462 .. 0.86
   2 !   10.0   0.0   0.00053       1.1      17      56 ..     487     526 ..     484     527 .. 0.87

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.0007
                              TSTT--HHHHHHHHTT.T--SHHHHHHS-HHHHHTSTTS-HHHHHHHHHHHHH CS
                    HHH_5   6 svsGiGpktAlallsa.GiesvedlaaadveeLakipGiGkktAeriilelkd 57 
                              +++ +  k+   l +a  ++++ d+ ++++e+L ki  i  k+  ++i+++++
  PHY93_10050|PHY93_10050 410 GIEDLSGKRLEELMNAkLVSTIGDIYRLTAEDLMKIDKIKDKLSTKVIESIQK 462
                              5666666777888889679*****************************99875 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00053
                              HHHTTT--SHHHHHHS-HHHHHTSTTS-HHHHHHHHHHHH CS
                    HHH_5  17 allsaGiesvedlaaadveeLakipGiGkktAeriilelk 56 
                              ++++aG++s++++++++ e+L +i  + +k A   + +l+
  PHY93_10050|PHY93_10050 487 KVVRAGFDSIDKIKNLTLEKLMSIESFAEKSATDFLSSLR 526
                              7899*********************999999976666655 PP

>> RNA_pol_A_CTD  Bacterial RNA polymerase, alpha chain C terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.4   0.5    0.0037       7.3      33      63 ..     428     458 ..     407     462 .. 0.80
   2 !    9.6   0.1   0.00037      0.74      30      65 ..     490     525 ..     470     529 .. 0.89

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.0037
                              --BHHHHHHS-HHHHTTSSS-SSHHHHHHHH CS
            RNA_pol_A_CTD  33 iktvgeLvklseeeLlkikNlGkKSleEIke 63 
                              + t+g++ +l+ e+L+ki  +  K  + ++e
  PHY93_10050|PHY93_10050 428 VSTIGDIYRLTAEDLMKIDKIKDKLSTKVIE 458
                              78****************9887776666665 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 0.00037
                              HTT--BHHHHHHS-HHHHTTSSS-SSHHHHHHHHHH CS
            RNA_pol_A_CTD  30 ragiktvgeLvklseeeLlkikNlGkKSleEIkekL 65 
                              rag ++++ + +l+ e+L++i+ + +KS ++  + L
  PHY93_10050|PHY93_10050 490 RAGFDSIDKIKNLTLEKLMSIESFAEKSATDFLSSL 525
                              89**************************99866555 PP

>> DNA_ligase_ZBD  NAD-dependent DNA ligase C4 zinc finger domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   2.9   8.1e-06     0.016       1      26 [.     372     395 ..     372     395 .. 0.94

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 8.1e-06
           DNA_ligase_ZBD   1 hCPvCGsavvReegeaiyRCtnlsCp 26 
                              +CP+CG +v+   ++  ++C n +Cp
  PHY93_10050|PHY93_10050 372 RCPSCGEKVE--INDIRIYCRNDKCP 395
                              5********6..899**********9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (623 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       826  (0.0460706); expected 358.6 (0.02)
Passed bias filter:                      576  (0.0321267); expected 358.6 (0.02)
Passed Vit filter:                        65  (0.00362541); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.65u 0.21s 00:00:00.86 Elapsed: 00:00:00.40
# Mc/sec: 4631.18
//
Query:       PHY93_10055|PHY93_10055  [L=484]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (484 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       789  (0.0440069); expected 358.6 (0.02)
Passed bias filter:                      513  (0.0286129); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.59u 0.24s 00:00:00.83 Elapsed: 00:00:00.42
# Mc/sec: 3454.08
//
Query:       PHY93_10060|PHY93_10060  [L=104]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
       0.14   12.4   0.2       0.23   11.8   0.2    1.3  1  SSV1_ORF_D-335  ORF D-335-like protein


Domain annotation for each model (and alignments):
>> SSV1_ORF_D-335  ORF D-335-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.2   1.3e-05      0.23       3      26 ..      29      52 ..      27      62 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 1.3e-05
           SSV1_ORF_D-335  3 kyGdiiiRerkgkYYVYklEkenG 26
                             k+G ++ Re  gkY+++  E +n 
  PHY93_10060|PHY93_10060 29 KAGHVKFREENGKYFIWTKEIKND 52
                             89***************9998875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (104 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1401  (0.0781416); expected 358.6 (0.02)
Passed bias filter:                      671  (0.0374254); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.38u 0.22s 00:00:00.60 Elapsed: 00:00:00.36
# Mc/sec: 855.83
//
Query:       PHY93_10065|PHY93_10065  [L=392]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    8.4e-16   58.8   0.0    1.8e-15   57.7   0.0    1.5  1  Patatin         Patatin-like phospholipase
  ------ inclusion threshold ------
      0.085   13.3   1.2       0.17   12.3   0.4    1.8  2  Laterosporulin  Laterosporulin defensin-like peptide
       0.16   11.1   0.0       0.28   10.3   0.0    1.3  1  CABS1           Calcium-binding and spermatid-specific protei


Domain annotation for each model (and alignments):
>> Patatin  Patatin-like phospholipase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.7   0.0   3.1e-19   1.8e-15       1     198 [.      17     246 ..      17     252 .. 0.86

  Alignments for each domain:
  == domain 1  score: 57.7 bits;  conditional E-value: 3.1e-19
                  Patatin   1 LvlsGGGsr.gafslgalkaL............kkelgerfdiisGtSaGAiialllalgrdpaalvddlrnlllnkifdrdl... 70 
                              LvlsGG ++ ++++lg+  aL              ++ + +   +G+SaG++i l++a+g  p +  d+ +n   +++  + +   
  PHY93_10065|PHY93_10065  17 LVLSGGVVKaASWHLGVALALeefgfvlkhnksPIDPDYEISTYVGSSAGSLINLYFASGFRPIDVIDATINRKNAQTSLKAVays 102
                              8*******************8888889999999999999999************99999966666666666666666666665999 PP

                  Patatin  71 ...................lirelaanlaarlsgllgkgglfdaealrellr.kvladktlkrlsarlgklpllkslftanqavpa 136
                                                      ++ l +  + ll+ +glf++e l ++++  v+ ++ ++++ a+ + ++            + 
  PHY93_10065|PHY93_10065 103 dmlsrkmptrdafnfdfynPFEGFPTLLKQMAKPLLNVSGLFSTEGLNQYMQkHVILSQNFEEYMADMFVVA----------TQLD 178
                              99999999999999999987888889999999999999999999999999997779***************5..........4788 PP

                  Patatin 137 ittataatastanranglytedddddvdladavraSsafPglfppvsldge......lyvDGGilsNv 198
                              + + ++++    + +  ++t++  + vd+ +a+ aS+++P+++ p+ ++        +y+DG i++ +
  PHY93_10065|PHY93_10065 179 HSRKVIFSKYNYPSPIHDSTAEYYTGVDVTQAISASMSVPPFYAPFPVKNPrtsridYYIDGEIRETL 246
                              99999999999********************************77777444455566******99876 PP

>> Laterosporulin  Laterosporulin defensin-like peptide
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0       1.1   6.7e+03      19      29 ..     147     157 ..     144     159 .. 0.84
   2 ?   12.3   0.4   2.8e-05      0.17       3      35 ..     255     288 ..     253     295 .. 0.75

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 1.1
           Laterosporulin  19 hGlenkmyrhv 29 
                               Gl+  m +hv
  PHY93_10065|PHY93_10065 147 EGLNQYMQKHV 157
                              79999*****9 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 2.8e-05
           Laterosporulin   3 qcPdaisGwthtdyqchGlenk.myrhvyaicmn 35 
                              +c   is wtht y  h      +   + aicm 
  PHY93_10065|PHY93_10065 255 KCDFVISSWTHTPYHYHDEIGSlINYGLPAICMQ 288
                              58889***********975444044557788886 PP

>> CABS1  Calcium-binding and spermatid-specific protein 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0   4.6e-05      0.28      27      74 ..     291     338 ..     285     347 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 4.6e-05
                    CABS1  27 lfGadntipksettitseGdhitsvndytlesdfstttgnkltptkek 74 
                              ++  +  i  s  + t   d i +vndy+  ++fs  +  k+t+  e+
  PHY93_10065|PHY93_10065 291 YLMIQKKIVASRGQTTLAKDIIGTVNDYMASNNFSQNDRMKITSILER 338
                              5555666777777788889************************99887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (392 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       529  (0.0295053); expected 358.6 (0.02)
Passed bias filter:                      376  (0.0209716); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.54u 0.26s 00:00:00.80 Elapsed: 00:00:00.43
# Mc/sec: 2719.09
//
Query:       PHY93_10070|PHY93_10070  [L=134]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.013   15.1   0.1      0.015   14.9   0.1    1.2  1  NRBF2     Nuclear receptor-binding factor 2, autophagy regula
       0.14   12.0   0.4       0.22   11.3   0.4    1.3  1  DivIC     Septum formation initiator


Domain annotation for each model (and alignments):
>> NRBF2  Nuclear receptor-binding factor 2, autophagy regulator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.1   1.6e-06     0.015      85     142 ..      57     111 ..      45     131 .. 0.83

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 1.6e-06
                    NRBF2  85 atkiadLkrlvelLlaenerLrkenkqLkaekaRLqkeplekeldvdaDfvekseLWg 142
                                ki +L r   +L++ n+ L  +  +Lk ++aRL+ e+   + d   D    s LW 
  PHY93_10070|PHY93_10070  57 SSKIYQLSRENRVLIERNQSLIDQVGRLKVDNARLEMEA---HPDRVGDSTWPSRLWH 111
                              579********************************9988...3344555555666665 PP

>> DivIC  Septum formation initiator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.4   2.5e-05      0.22      25      62 ..      59      96 ..      54      98 .. 0.92

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 2.5e-05
                             HHHHHHHHHHHHHHHHHHHHHHHCC-XXXXXXXXXXXX CS
                    DivIC 25 eiaalqaelaklkaeneeLeaevkdLksdedyieerAR 62
                             +i +l +e+  l ++n++L ++v +Lk d +++e  A+
  PHY93_10070|PHY93_10070 59 KIYQLSRENRVLIERNQSLIDQVGRLKVDNARLEMEAH 96
                             78899*********************99*****98885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (134 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       444  (0.0247643); expected 358.6 (0.02)
Passed bias filter:                      340  (0.0189637); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.38
# Mc/sec: 1067.63
//
Query:       PHY93_10075|PHY93_10075  [L=696]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.057   12.7   0.6       0.16   11.3   0.6    1.7  1  Sarcoglycan_1  Sarcoglycan complex subunit protein
       0.36   11.0   7.6       0.64   10.2   0.1    3.4  3  STT3_PglB_C    STT3/PglB C-terminal beta-barrel domain


Domain annotation for each model (and alignments):
>> Sarcoglycan_1  Sarcoglycan complex subunit protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.6   1.8e-05      0.16      61     154 ..     261     346 ..     245     385 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 1.8e-05
            Sarcoglycan_1  61 aedleklvakkihgfkdkdlsiesdrnvvlsrkaarneegsvtsqltvgedgavlesvnsfevkdpkdgktlFsadreevtvgldk 146
                              + ++ + + ++i+  +++++ ++sd+n++ +     n+    +s+ t    +a +++ + f  +++++ +  F+ +++e++++++k
  PHY93_10075|PHY93_10075 261 QRVFSAATQENITKIDNQEIDLNSDNNITYD---YSNH----NSKTTQTDAKAAMAEADAFMTRTNTS-ESRFTLRAKEINLSTQK 338
                              44455556666********************...3444....44555555558999999999998888.999****9999999999 PP

            Sarcoglycan_1 147 gvkkLrvk 154
                              + + L+++
  PHY93_10075|PHY93_10075 339 RRQALAFE 346
                              88877765 PP

>> STT3_PglB_C  STT3/PglB C-terminal beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.6     0.011        95      27      65 ..     270     307 ..     263     309 .. 0.84
   2 ?   -3.2   0.1       1.1   9.5e+03      48      73 ..     472     497 ..     464     502 .. 0.76
   3 ?   10.2   0.1   7.2e-05      0.64      21      66 ..     616     662 ..     614     663 .. 0.93

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.011
                              TTEEEETTEEEEEEEEEEEEETTTTEEEE..EE--TT-- CS
              STT3_PglB_C  27 fkslkiggqkvpvktfveteydkngklkvketeidskaq 65 
                               +  ki++q++ +++  ++ yd ++  ++ +t+ d+ka 
  PHY93_10075|PHY93_10075 270 ENITKIDNQEIDLNSDNNITYDYSNHNSK-TTQTDAKAA 307
                              56779*****************9998887.888888875 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 1.1
                              TTTTEEEE..EE--TT--EEEEEETT CS
              STT3_PglB_C  48 dkngklkvketeidskaqlyvifmkd 73 
                               k+g++ ++    ++++   ++++ d
  PHY93_10075|PHY93_10075 472 VKSGNVMIRYLLSNKESAQKIVYVGD 497
                              57788888888899999999999877 PP

  == domain 3  score: 10.2 bits;  conditional E-value: 7.2e-05
                              EEEETTTTEEEETTEEEEEEEEEEEEE.TTTTEEEE..EE--TT--E CS
              STT3_PglB_C  21 ivlskdfkslkiggqkvpvktfvetey.dkngklkvketeidskaql 66 
                              i lskd++++k +g++ + + fvet+y dk+g+++    e+ +ka +
  PHY93_10075|PHY93_10075 616 INLSKDLREIKANGKNRSGEMFVETSYlDKDGNFSRDSFEMAEKAFI 662
                              789***********************9899******99999999976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (696 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       900  (0.050198); expected 358.6 (0.02)
Passed bias filter:                      302  (0.0168442); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.64u 0.24s 00:00:00.88 Elapsed: 00:00:00.43
# Mc/sec: 4843.30
//
Query:       PHY93_10080|PHY93_10080  [L=139]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.4e-15   56.9   0.1    2.1e-15   56.4   0.1    1.3  1  ATP-synt_DE_N  ATP synthase, Delta/Epsilon chain, beta-sandwi
    0.00092   19.4   1.4     0.0016   18.7   1.4    1.3  1  ATP-synt_DE    ATP synthase, Delta/Epsilon chain, long alpha-
  ------ inclusion threshold ------
      0.062   13.9   0.8      0.086   13.5   0.8    1.2  1  DUF4398        Domain of unknown function (DUF4398)
      0.078   13.4   0.3       0.11   13.0   0.3    1.2  1  DUF4208        Domain of unknown function (DUF4208)


Domain annotation for each model (and alignments):
>> ATP-synt_DE_N  ATP synthase, Delta/Epsilon chain, beta-sandwich domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.4   0.1   4.7e-19   2.1e-15       1      80 []       4      85 ..       4      85 .. 0.96

  Alignments for each domain:
  == domain 1  score: 56.4 bits;  conditional E-value: 4.7e-19
                             EEEEEEESSSEEEEEE.EEEEEEEESSSEEEE-TT--SEEEEEESEEEEEEE.GGGEEEEEEESSEEEEEETTEEEEEESSS CS
            ATP-synt_DE_N  1 lkleivtpervvfsge.veevvaptteGelgilpgHaplitaLkpgelrikt.edgeeesiavsgGflevqdnkvtiladta 80
                             ++++i+tp +++ +g  +e++ +pt  G++ +l+gH+ ++t+L+ g+l +    d  ++++a+s G+ ++ +nkv il +ta
  PHY93_10080|PHY93_10080  4 FTVDILTPSKIIAKGIpAESLLIPTVRGQINVLEGHTHIVTKLAAGVLSVFGgPDYADRHFALSSGVCKILENKVVILSNTA 85
                             79*************9**********************************96456899*********************997 PP

>> ATP-synt_DE  ATP synthase, Delta/Epsilon chain, long alpha-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   1.4   3.5e-07    0.0016       4      40 ..      92     131 ..      91     135 .. 0.79

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 3.5e-07
                              -HHHHHHHHHHHHHHHHH....HHHHSS-HHHHHHHHHHHH CS
              ATP-synt_DE   4 DverAeeAkerAeerLee....asddnidyarAqaaLrRAl 40 
                              DverA+ A++ Aee+L++    +  +++++++ +a+L++ +
  PHY93_10080|PHY93_10080  92 DVERAKLALKNAEEHLKHvenlS-REDVEKYQEKAELAKIR 131
                              9*****************88754.44488888888887644 PP

>> DUF4398  Domain of unknown function (DUF4398)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.8   1.9e-05     0.086      17      61 ..      90     134 ..      82     136 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 1.9e-05
                  DUF4398  17 ga.eeyApaeleeAreaLaqAeaamaekdyeeAdhlaylAerdael 61 
                              g   e A+++l+ A+e L+  e +  ++d e+  + a+lA+ ++++
  PHY93_10080|PHY93_10080  90 GVdVERAKLALKNAEEHLKHVENLS-REDVEKYQEKAELAKIRIQI 134
                              4446677777888888888888877.88999999999999998876 PP

>> DUF4208  Domain of unknown function (DUF4208)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.3   2.4e-05      0.11       7      55 ..      92     139 .]      86     139 .] 0.79

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 2.4e-05
                  DUF4208   7 deeeckellrpvkksLkrLkkltkekllskkerakilkkeLlkiGdfId 55 
                              d e+ k  l+  +++Lk++++l++e++ + +e+a+ l k  ++iG+fI+
  PHY93_10080|PHY93_10080  92 DVERAKLALKNAEEHLKHVENLSREDVEKYQEKAE-LAKIRIQIGEFIR 139
                              66778999**************9998877777766.5556679***995 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (139 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       873  (0.0486921); expected 358.6 (0.02)
Passed bias filter:                      520  (0.0290033); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.39
# Mc/sec: 1073.87
//
Query:       PHY93_10085|PHY93_10085  [L=470]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.7e-64  217.4   0.0    2.3e-64  216.9   0.0    1.2  1  ATP-synt_ab    ATP synthase alpha/beta family, nucleotide-bin
    8.6e-22   77.5   0.1    1.7e-21   76.5   0.1    1.6  1  ATP-synt_ab_N  ATP synthase alpha/beta family, beta-barrel do
    0.00073   19.5   0.1     0.0016   18.4   0.1    1.5  1  RsgA_GTPase    RsgA GTPase
     0.0048   16.1   0.6       0.01   15.0   0.1    1.8  2  NB-ARC         NB-ARC domain
     0.0086   16.5   0.1       0.12   12.8   0.0    2.4  2  AAA            ATPase family associated with various cellular
  ------ inclusion threshold ------
      0.018   15.5   0.2      0.062   13.7   0.2    1.9  1  AAA_16         AAA ATPase domain
      0.024   14.6   0.0      0.045   13.7   0.0    1.4  1  NACHT          NACHT domain
      0.036   14.4   0.3       0.15   12.3   0.3    2.2  1  AAA_19         AAA domain
      0.081   12.3   0.8       0.22   10.9   0.8    1.7  1  ATPase         KaiC
       0.11   12.4   0.0       0.23   11.3   0.0    1.5  1  ATPase_2       ATPase domain predominantly from Archaea
       0.12   12.3   0.1       0.47   10.3   0.0    2.0  2  T3SS_ATPase_C  T3SS EscN ATPase C-terminal domain
       0.14   12.7   0.0        0.5   10.9   0.0    1.9  2  ABC_tran       ABC transporter
       0.15   11.5   0.0       0.41   10.1   0.0    1.7  1  AAA_7          P-loop containing dynein motor region


Domain annotation for each model (and alignments):
>> ATP-synt_ab  ATP synthase alpha/beta family, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  216.9   0.0   1.7e-67   2.3e-64       1     213 []     137     350 ..     137     350 .. 0.98

  Alignments for each domain:
  == domain 1  score: 216.9 bits;  conditional E-value: 1.7e-67
                              SSHHHHHHS-EBTT-EEEEEESTTSSHHHHHHHHHHHSSTSS..EEEEEEESEEHHHHHHHHHHCHHSSGGGGEEEEEEETTS-HH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              ATP-synt_ab   1 GirvlDalfpivqGqrtlipgafgvGktvisqslskqsnsdd..aiiyvgiGergnevaevleefpegtimkrtvlvantsnepva 84 
                              Gi+v+D+l p+v+G++++++g++gvGktv++q+l+++  +++   ++++g+Ger++e +++++e++e++++++t lv+ ++nep+ 
  PHY93_10085|PHY93_10085 137 GIKVIDLLAPYVRGGKIGLFGGAGVGKTVLIQELINNIATEHggFSVFAGVGERTREGNDLFHEMTESGVIAKTALVFGQMNEPPG 222
                              99**********************************99887457****************************************** PP

                              HHHHHHHHHHHHHHHHHH.TTSEEEEEEETHHHHHHHHHHHHHHTTTSBEGGGSBTTHHHHHHHHHTTSEEETSSEEEEEEEEEEE CS
                              xxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              ATP-synt_ab  85 areasiytgitlAEyfrd.qgknvlliadslsrwaeAlreislrlgempadqgypaylgaklaslyERagkapdrtGsvtivaavs 169
                              ar ++++t++++AEyfrd ++++vl+++d+++r+++A  e+s++lg++p++ gy+++lg+++  ++ER++++   +Gs+t+++av+
  PHY93_10085|PHY93_10085 223 ARARVALTALSIAEYFRDeENQDVLFFVDNIFRFTQAGSEVSALLGRIPSAVGYQPTLGTEMGAMQERITST--LNGSITSIQAVY 306
                              ******************999***************************************************..88********** PP

                              -GGCSTTSHHHHHHHHHSSEEEEB-HHHHHTTBSSSBCTTTEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              ATP-synt_ab 170 paggDfsdpvttatlgitdgfivLdkklaqrkhfPainvlvSvS 213
                              ++++D++dp + +t++++d+++ L++++a+ +++Pa+++l S S
  PHY93_10085|PHY93_10085 307 VPADDYTDPAPATTFAHLDATTELSRQIAELGIYPAVDPLSSSS 350
                              *****************************************988 PP

>> ATP-synt_ab_N  ATP synthase alpha/beta family, beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.5   0.1   1.3e-24   1.7e-21       1      69 []       8      80 ..       8      80 .. 0.96

  Alignments for each domain:
  == domain 1  score: 76.5 bits;  conditional E-value: 1.3e-24
                             EEEEETTEEEEESSTSCETCTTEEEEECCET......CSTEEEEEEEEEETTEEEEEESS-STTBBTTSEEEEES CS
            ATP-synt_ab_N  1 ivqviGpvvdvefgigrlpgiynalevelve......fgtlllgvalnlgedkVrvivmgstdGlsrGteVkrTG 69
                             + qv+Gpv+dvef +g++p+i nal+    +      + +l+++v ++lg+++Vr+i+m+st+GlsrG +V +TG
  PHY93_10085|PHY93_10085  8 VKQVMGPVIDVEFSNGKIPAIFNALKLT--NktisnlENNLTVEVSQHLGNNVVRCIAMDSTEGLSRGLKVLDTG 80
                             679*************************..557***99************************************9 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.1   1.2e-06    0.0016      89     156 ..     140     208 ..     113     211 .. 0.86

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 1.2e-06
                              THHHHHHHCTTSEEEEECSTTSSHHHHHHHHCTT-----S--------------SEEEEE.ETTTEEEE CS
              RsgA_GTPase  89 gleelkellkdktsvlvGqSGvGKStLinallpelelktgevseklgrGkhTTtavelle.laegglli 156
                               ++ l++++++  + l G  GvGK+ Li +l+++  ++ g  s   g G  T     l++ + e+g+++
  PHY93_10085|PHY93_10085 140 VIDLLAPYVRGGKIGLFGGAGVGKTVLIQELINNIATEHGGFSVFAGVGERTREGNDLFHeMTESGVIA 208
                              56788999999999999***********************************99999886256677776 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.1   7.5e-06      0.01      23      57 ..     153     187 ..     139     219 .. 0.84
   2 ?   -2.3   0.0       1.5   2.1e+03       8      28 ..     369     388 ..     364     389 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 7.5e-06
                              EEEEESTTSSHHHHHHHHCCSHCCCCCCBTEEEEE CS
                   NB-ARC  23 valvGmgGvGKttlakqilnksdevegrFdsvawv 57 
                              ++l G +GvGKt+l+++ +n+ ++ +g F ++a v
  PHY93_10085|PHY93_10085 153 IGLFGGAGVGKTVLIQELINNIATEHGGFSVFAGV 187
                              799******************88888899988765 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 1.5
                              HHHHHHCTTTSCSEEEEEEES CS
                   NB-ARC   8 viekLlekdelqslvvalvGm 28 
                              v++ L + +elq +++a+ Gm
  PHY93_10085|PHY93_10085 369 VQKILQKYKELQ-DIIAILGM 388
                              788899999999.999**999 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.8   0.0   8.6e-05      0.12       3      74 ..     155     260 ..     153     273 .. 0.72
   2 ?    0.9   0.0      0.43   5.9e+02      42      71 ..     365     392 ..     346     413 .. 0.69

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 8.6e-05
                              EESSTTSSHHHHHHHHHHHHTHE....................EEEEETTTCSSS................STTHHHHHHHHHHHH CS
                      AAA   3 lyGppGtGKTllakavakelgve....................fleisgsellsk................yvgesekkirelfke 52 
                              l+G  G+GKT l++ +++++ +e                    f e+  s ++ k                 v  ++ +i+e+f++
  PHY93_10085|PHY93_10085 155 LFGGAGVGKTVLIQELINNIATEhggfsvfagvgertregndlFHEMTESGVIAKtalvfgqmneppgaraRVALTALSIAEYFRD 240
                              89*****************8544344445555555556666666666666666558888888888888888899999999999988 PP

                              HHHTSTSEEEEEETGGGHHHHH CS
                      AAA  53 akekakpsilfiDEidalaksr 74 
                               +e++  + +f+D+i +++++ 
  PHY93_10085|PHY93_10085 241 -EENQ-DVLFFVDNIFRFTQAG 260
                              .4444.4788888887776655 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.43
                              HHHHHHHHHHHHHHTSTS.EEEEEETGGGHH CS
                      AAA  42 sekkirelfkeakekakp.silfiDEidala 71 
                               ++ +++++++ ke ++   il +DE+    
  PHY93_10085|PHY93_10085 365 VARGVQKILQKYKELQDIiAILGMDEL---S 392
                              567789999999999832355555554...3 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.2   4.5e-05     0.062      29      62 ..     155     190 ..     140     278 .. 0.72

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 4.5e-05
                   AAA_16  29 lsGesGvGKsslvrellralekdggif..lrgkcdq 62 
                              l G +GvGK+ l++el + + +++g f  ++g  ++
  PHY93_10085|PHY93_10085 155 LFGGAGVGKTVLIQELINNIATEHGGFsvFAGVGER 190
                              7799*****************998877544444444 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   3.3e-05     0.045       6      49 ..     156     194 ..     153     268 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 3.3e-05
                              EC-TTTCHHHHHHHHHHHHCTS-SCCCC-SEEEEEETTTTTTS- CS
                    NACHT   6 qGeaGsGKTtLlqklalawaegklpqgafklvFflslrelsrsg 49 
                               G aG+GKT+L+q+l+  +a+++  +    ++ f  ++e++r+g
  PHY93_10085|PHY93_10085 156 FGGAGVGKTVLIQELINNIATEH--G---GFSVFAGVGERTREG 194
                              699*****************998..2...355555555555555 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.3   0.00011      0.15       9      39 ..     149     179 ..     143     408 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00011
                   AAA_19   9 kekvllvtaGpGtGKTrvlkhivallvelgg 39 
                              + + + + +G+G GKT ++++ ++ +  ++g
  PHY93_10085|PHY93_10085 149 RGGKIGLFGGAGVGKTVLIQELINNIATEHG 179
                              56778899**************999887775 PP

>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.8   0.00016      0.22       3      72 ..     136     206 ..     134     212 .. 0.89

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00016
                   ATPase   3 tgIeglDeilkgGipegrvvlitGepGtGKtifalqFlikgaekygepgvfvtveepa...edlrenakslGw 72 
                              tgI+ +D +    + +g  + + G++G GKt++ ++ + + a + g   vf  v e+    +dl +++++ G+
  PHY93_10085|PHY93_10085 136 TGIKVIDLLA--PYVRGGKIGLFGGAGVGKTVLIQELINNIATEHGGFSVFAGVGERTregNDLFHEMTESGV 206
                              8999999885..8999999***********************************9999777788888877775 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00017      0.23      25      82 ..     155     211 ..     151     276 .. 0.54

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00017
                 ATPase_2  25 iYGpegsGKtaLlkeiienledkdk.yviyyialreesiskldefieeeeekkklekal 82 
                              ++G  g+GKt L++e+i+n    +    ++   + e+  +  d f +e  e+  ++k++
  PHY93_10085|PHY93_10085 155 LFGGAGVGKTVLIQELINNIATEHGgFSVFA-GVGERTREGNDLF-HEMTESGVIAKTA 211
                              6999***************955443033333.3333333344444.5555555555554 PP

>> T3SS_ATPase_C  T3SS EscN ATPase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0   0.00034      0.47       2      28 ..     359     385 ..     358     388 .. 0.93
   2 ?   -2.3   0.0         3   4.1e+03      45      56 ..     401     412 ..     393     419 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00034
            T3SS_ATPase_C   2 spehlqaarklrellatyqenedLini 28 
                               ++h++ ar + ++l++y+e +d+i i
  PHY93_10085|PHY93_10085 359 GQDHYDVARGVQKILQKYKELQDIIAI 385
                              579**********************87 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 3
            T3SS_ATPase_C  45 krpainafLkQg 56 
                              +  ++++fL Q+
  PHY93_10085|PHY93_10085 401 RARKVQKFLSQP 412
                              567899999997 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0       6.4   8.8e+03      55      87 ..      19      52 ..      10      77 .. 0.54
   2 ?   10.9   0.0   0.00037       0.5      10      42 ..     149     181 ..     147     248 .. 0.83

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 6.4
                             HHCCHCEEEE-SS--S-TTSB.HHHHHHHTCHHH CS
                             xxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxx RF
                 ABC_tran 55 eslrkeigvlpqepqlfpelt.vrenesdeeiek 87
                             e+++ +i  ++   +l +++  + en+ ++e+++
  PHY93_10085|PHY93_10085 19 EFSNGKIPAIFNALKLTNKTIsNLENNLTVEVSQ 52
                             5555666666666444444432555544443333 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.00037
                              TTSEEEEEESTTSSHHHHHHHHTTSS--SEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  10 egekvaivGenGaGKStLlkllagllkpteGei 42 
                              +g k++++G  G GK+ L++ l+++   + G  
  PHY93_10085|PHY93_10085 149 RGGKIGLFGGAGVGKTVLIQELINNIATEHGGF 181
                              5889****************9999998888755 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.0    0.0003      0.41      36      60 ..     153     177 ..     143     187 .. 0.86

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.0003
                    AAA_7  36 vllvGptGtGKtviikdllkkldke 60 
                              + l G +G+GKtv+i++l++++ +e
  PHY93_10085|PHY93_10085 153 IGLFGGAGVGKTVLIQELINNIATE 177
                              55789**************999866 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (470 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       531  (0.0296168); expected 358.6 (0.02)
Passed bias filter:                      492  (0.0274416); expected 358.6 (0.02)
Passed Vit filter:                        73  (0.00407162); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.57u 0.23s 00:00:00.80 Elapsed: 00:00:00.39
# Mc/sec: 3634.73
//
Query:       PHY93_10090|PHY93_10090  [L=287]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    7.4e-82  275.2   4.5    8.3e-82  275.0   4.5    1.0  1  ATP-synt       ATP synthase
  ------ inclusion threshold ------
       0.18   11.7   2.5        0.4   10.6   0.5    2.2  2  HEPN_AbiA_CTD  HEPN like, Abia C-terminal domain


Domain annotation for each model (and alignments):
>> ATP-synt  ATP synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  275.0   4.5   9.3e-86   8.3e-82       1     279 []       3     287 .]       3     287 .] 0.92

  Alignments for each domain:
  == domain 1  score: 275.0 bits;  conditional E-value: 9.3e-86
                              THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTHHHHCEHHHHTTT..SSG.S...SSEEEEEEE--SSSS CS
                 ATP-synt   1 slkeikrRiksvkstkkItkAmkmVaaaklrkaqealeaarpyaekleevlealakreeeekhpllke.e.ekkvllivitSDrGL 84 
                              ++ke+k++iks+kst+kIt+Amk+V+aakl+kaq ++ ++rp+a++le++++ +++  ++ +h++l+e + ++k++l+vi+SD+GL
  PHY93_10090|PHY93_10090   3 NIKELKKKIKSTKSTSKITQAMKLVSAAKLAKAQHNIVNSRPFARELESTIKVVSALVQDYDHEFLHEkKdNNKAVLLVISSDKGL 88 
                              689*************************************************9988888999999888544679************ PP

                              STTHHHHHHHHHHHHHHHHHTTT.ETEEEEESHHHHHHHHHSS.EHHTTCE-TSS--HHHHHHHHHHHHSHHHTTSBSEEEEEEEE CS
                 ATP-synt  85 cGgfNsnvikkaeklieelkkeg.evklvvvGkkgreyfkrkvevqleftgvskkptfeeaseiaeeildlyeegeideveivynk 169
                              cG++Ns+++kk++k+ ee    + +vk++ +Gkk+r+ +++ ++  +++t v+++ptf e++++  e+ +l+++ge+ +v++ yn 
  PHY93_10090|PHY93_10090  89 CGSYNSQLAKKVRKFLEE---TKlDVKIYFIGKKVRDLLDSTYNKGKTYTFVKNEPTFIEMEHVGVELGELFTTGEVGKVYLAYNV 171
                              ************655544...45579***********88777787777898999******************************** PP

                              ECCTSEEEEEEEEESS....T...HC......S..SSTSEESS.HCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                 ATP-synt 170 fksaisqeptvekllp....lekeee......kkekseyefepdeeevleellpeylasliyrallesaasEqaaRmtaMdnAtkn 245
                              f+sa+ ++p+v+++lp    l    +      +k + +++++p+++e+l++l+p++  s++y+all++ a+E++ Rm aMd+A++n
  PHY93_10090|PHY93_10090 172 FHSALAFDPEVKQMLPmtmdL----TekeelaEKFPFDFKYDPNATEILNTLIPQTYISTLYTALLDAIAAEHGTRMSAMDSASSN 253
                              ****************77553....13344778889999****99***************************************** PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT- CS
                 ATP-synt 246 akelidkltleyNraRQaaITqELieIvsGaeAL 279
                              +k+ i++l++++N++RQaaIT+EL+e+vsGae+L
  PHY93_10090|PHY93_10090 254 CKKAIRTLSIKMNKKRQAAITTELSEVVSGAESL 287
                              *******************************997 PP

>> HEPN_AbiA_CTD  HEPN like, Abia C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.5   4.4e-05       0.4      77     128 ..      13      64 ..       2      68 .. 0.85
   2 ?    0.3   0.1     0.069   6.2e+02     105     130 ..     246     271 ..     235     273 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 4.4e-05
            HEPN_AbiA_CTD  77 iddseeiiekahklrnanPlshssselldkentskelkesikelsklideyi 128
                              +++s + i +a+kl  a  l+ +  +++++   ++el ++ik +s l+++y 
  PHY93_10090|PHY93_10090  13 STKSTSKITQAMKLVSAAKLAKAQHNIVNSRPFARELESTIKVVSALVQDYD 64 
                              345678899***************************************9995 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.069
            HEPN_AbiA_CTD 105 dkentskelkesikelsklideyiek 130
                                +++s + k++i+ ls  ++++++ 
  PHY93_10090|PHY93_10090 246 AMDSASSNCKKAIRTLSIKMNKKRQA 271
                              567789999*********99999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (287 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1158  (0.0645881); expected 358.6 (0.02)
Passed bias filter:                      551  (0.0307323); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.21s 00:00:00.71 Elapsed: 00:00:00.38
# Mc/sec: 2245.64
//
Query:       PHY93_10095|PHY93_10095  [L=498]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.2e-74  248.2   0.1    9.5e-74  247.6   0.1    1.3  1  ATP-synt_ab      ATP synthase alpha/beta family, nucleotide-b
    1.6e-47  161.0   0.2    2.8e-47  160.2   0.2    1.4  1  ATP-synt_ab_C    ATP synthase alpha/beta chain, C terminal do
    2.6e-17   63.1   3.1    7.3e-17   61.7   3.1    1.8  1  ATP-synt_ab_N    ATP synthase alpha/beta family, beta-barrel 
    4.3e-06   26.8   1.8    6.9e-06   26.1   0.6    2.0  2  HAS-barrel       HAS barrel domain
    0.00016   21.1   0.1    0.00053   19.4   0.1    1.9  2  ATPase           KaiC
     0.0012   18.2   0.3     0.0012   18.2   0.3    1.6  2  Arginosuc_synth  Arginosuccinate synthase


Domain annotation for each model (and alignments):
>> ATP-synt_ab  ATP synthase alpha/beta family, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  247.6   0.1   3.2e-77   9.5e-74       1     213 []     147     362 ..     147     362 .. 0.98

  Alignments for each domain:
  == domain 1  score: 247.6 bits;  conditional E-value: 3.2e-77
                              SSHHHHHHS-EBTT-EEEEEESTTSSHHHHH.HHHHHHSSTSSEEEEEEESEEHHHHHHHHHHCHHSSGGGGEEEEEEETTS-HHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              ATP-synt_ab   1 GirvlDalfpivqGqrtlipgafgvGktvis.qslskqsnsddaiiyvgiGergnevaevleefpegtimkrtvlvantsnepvaa 85 
                              G++++D+++pi++Gqr+li+g++++Gkt+i+ +++++q+ +d +++yv+iG+++++v++v +++++++++++t++v +t++ ++ +
  PHY93_10095|PHY93_10095 147 GLKAIDSMIPIGRGQRELIIGDRKTGKTAIAiDTIINQKGKDVVCVYVAIGQKQSTVRQVQQKLKDAGALEYTIIVSATASASAPM 232
                              899****************************9******87777******************************************* PP

                              HHHHHHHHHHHHHHHHHTTSEEEEEEETHHHHHHHHHHHHHHTTTSBEGGGSBTTHHHHHHHHHTTSEEETSS..EEEEEEEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxx RF
              ATP-synt_ab  86 reasiytgitlAEyfrdqgknvlliadslsrwaeAlreislrlgempadqgypaylgaklaslyERagkapdr..tGsvtivaavs 169
                              +++++ytg+t+AEy+rd ++++l+++d+l+++a+A+r++sl+l+++p+++++p++++  +++l+ERa+k++d    Gs+t++++++
  PHY93_10095|PHY93_10095 233 QFIAPYTGCTMAEYYRDSKRHALIVYDDLTKQAQAYRQMSLLLRRPPGREAFPGDVFFLHSRLLERACKVSDVlgAGSLTALPIIE 318
                              **********************************************************************665669********** PP

                              -GGCSTTSHHHHHHHHHSSEEEEB-HHHHHTTBSSSBCTTTEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              ATP-synt_ab 170 paggDfsdpvttatlgitdgfivLdkklaqrkhfPainvlvSvS 213
                              +++gD+s++++t++++itdg+i+L+++l++++++Pa+nv+ SvS
  PHY93_10095|PHY93_10095 319 TQEGDVSAYIPTNVISITDGQIFLESDLFNSGVRPAVNVGLSVS 362
                              ******************************************99 PP

>> ATP-synt_ab_C  ATP synthase alpha/beta chain, C terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  160.2   0.2   9.3e-51   2.8e-47       1     126 []     369     494 ..     369     494 .. 0.99

  Alignments for each domain:
  == domain 1  score: 160.2 bits;  conditional E-value: 9.3e-51
            ATP-synt_ab_C   1 QtkamkkvagsLklelaqYrEleaFaqFgsdLDeatkkqLerGerlvelLkQkqysplsveeqviilyaatngllddipvekvkef 86 
                              Q+kamkkvag+L+l+laqYrEl+aFa FgsdLDeatk+qL+rGerlvelLkQ+qy+p++v +q +++++at+g++d +p+ k++++
  PHY93_10095|PHY93_10095 369 QIKAMKKVAGTLRLDLAQYRELAAFAAFGSDLDEATKRQLNRGERLVELLKQDQYAPFDVVDQSVSILIATKGYFDGVPTPKIRNA 454
                              9************************************************************************************* PP

            ATP-synt_ab_C  87 ekelleyleeekkeileeieekkklsdeleeklkeaikef 126
                              ek++le+++++++++++ei++++++s ++e+k+ ea+k+f
  PHY93_10095|PHY93_10095 455 EKDVLEFFHSRHADLMAEIKTSREISGANEAKILEAVKAF 494
                              *************************************987 PP

>> ATP-synt_ab_N  ATP synthase alpha/beta family, beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.7   3.1   2.4e-20   7.3e-17       3      68 ..      24      89 ..      22      90 .. 0.97

  Alignments for each domain:
  == domain 1  score: 61.7 bits;  conditional E-value: 2.4e-20
                             EEETTEEEEESSTSCETCTTEEEEECCETCSTEEEEEEEEEETTEEEEEESS-STTBBTTSEEEEE CS
            ATP-synt_ab_N  3 qviGpvvdvefgigrlpgiynalevelvefgtlllgvalnlgedkVrvivmgstdGlsrGteVkrT 68
                              ++G+v+ v++gi+r+ g++n++++elvef++++ g++lnl+ ++V++ ++g+++ +++Gt VkrT
  PHY93_10095|PHY93_10095 24 DEVGTVLTVGDGIARVFGLKNVMAGELVEFPSGTTGMVLNLETNNVGIAILGEDQSIKEGTSVKRT 89
                             689**************************************************************9 PP

>> HAS-barrel  HAS barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.1   0.6   2.3e-09   6.9e-06       4      72 ..      25      98 ..      22     121 .. 0.84
   2 ?   -2.6   0.0       2.1   6.1e+03      58      80 ..     468     490 ..     463     493 .. 0.75

  Alignments for each domain:
  == domain 1  score: 26.1 bits;  conditional E-value: 2.3e-09
               HAS-barrel  4 vigests.sslifrvegskdvkvGeyVeielpdgeivlGmvtdirrgn........selsndlalvlsleeleeangd 72
                             ++g++   +++i+rv g+k+v+ Ge+Ve++    + ++Gmv+++++ n        ++  +  + v++ e++ ++  +
  PHY93_10095|PHY93_10095 25 EVGTVLTvGDGIARVFGLKNVMAGELVEFP----SGTTGMVLNLETNNvgiailgeDQSIKEGTSVKRTERIVSVPVG 98
                             79999999**********************....78**********77888888776666666666666666665555 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 2.1
               HAS-barrel  58 alvlsleeleeangddevalate 80 
                              +l+ ++++++e  g++e+++  +
  PHY93_10095|PHY93_10095 468 DLMAEIKTSREISGANEAKILEA 490
                              56678888999999999988765 PP

>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0      0.56   1.7e+03     103     141 ..       2      38 ..       1      49 [. 0.72
   2 !   19.4   0.1   1.8e-07   0.00053       2      70 ..     145     210 ..     144     262 .. 0.87

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 0.56
                   ATPase 103 dleelieelaeaikeikakrvviDsitglayeekeavaR 141
                              ++ee+++ ++e i++++ +r+ +D ++++  +  +  aR
  PHY93_10095|PHY93_10095   2 NPEEITSIIKERISNFQ-SRLQVDEVGTV-LTVGDGIAR 38 
                              56777778888888776.68999999999.777777777 PP

  == domain 2  score: 19.4 bits;  conditional E-value: 1.8e-07
                   ATPase   2 ktgIeglDeilkgGipegrvvlitGepGtGKtifalqFlikgaekygepgvfvtveepaedlrenaksl 70 
                              +tg + +D ++   i +g+  li G+  tGKt +a   +i++  k +  +v+v++ ++++ +r+  ++l
  PHY93_10095|PHY93_10095 145 QTGLKAIDSMI--PIGRGQRELIIGDRKTGKTAIAIDTIINQKGK-DVVCVYVAIGQKQSTVRQVQQKL 210
                              79999999999..67799999*********************888.***********998877755554 PP

>> Arginosuc_synth  Arginosuccinate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.2       0.8   2.4e+03     245     266 ..     113     134 ..      80     140 .. 0.71
   2 !   18.2   0.3   4.2e-07    0.0012      10      57 ..     174     221 ..     172     235 .. 0.93

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 0.8
          Arginosuc_synth 245 khGvGRiDivedRlvglksRei 266
                               +G+G i   e R+v +k+ +i
  PHY93_10095|PHY93_10095 113 IDGMGEIKSKETRVVEVKAPGI 134
                              3799999999999999998665 PP

  == domain 2  score: 18.2 bits;  conditional E-value: 4.2e-07
          Arginosuc_synth  10 tsviikllkeklgeeviavavdvGqeeedldevkekalklgavksvvv 57 
                              t+++i  + ++ g++v+ v v +Gq++  + +v++k +++ga++ +++
  PHY93_10095|PHY93_10095 174 TAIAIDTIINQKGKDVVCVYVAIGQKQSTVRQVQQKLKDAGALEYTII 221
                              899***************************************998776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (498 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       615  (0.034302); expected 358.6 (0.02)
Passed bias filter:                      504  (0.0281109); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.64u 0.27s 00:00:00.91 Elapsed: 00:00:00.49
# Mc/sec: 3086.98
//
Query:       PHY93_21330|PHY93_21330  [L=182]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      0.009   16.9   0.0      0.016   16.1   0.0    1.4  1  Fic       Fic/DOC family


Domain annotation for each model (and alignments):
>> Fic  Fic/DOC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   9.1e-07     0.016       2      57 ..     107     169 ..     106     182 .] 0.89

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 9.1e-07
                              -SHHHHHHHHCHS-S----.--TS--SS-S......T..EEEE---SCCCHHHHHHHHHHHHC CS
                      Fic   2 ltledllelhrlllqdige.eagefrdeev......segklesalappeevpaeleelleyln 57 
                              ++ e++++lh+  +q+  + +ag+f+++++      ++g+   +++p e+v++ l+++++++n
  PHY93_21330|PHY93_21330 107 INIETIKKLHEYCFQGEMSsDAGQFKESNKpireqlDSGEWIDRFNPVEDVESFLKHIIAKYN 169
                              6789***********9888999***9988899**9988************************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (182 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       512  (0.0285571); expected 358.6 (0.02)
Passed bias filter:                      416  (0.0232026); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1186.26
//
Query:       PHY93_10100|PHY93_10100  [L=177]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.3e-24   86.4   5.4    2.6e-24   86.3   5.4    1.0  1  OSCP           ATP synthase delta (OSCP) subunit
     0.0031   17.2   0.0     0.0041   16.8   0.0    1.1  1  Peptidase_M85  NFkB-p65-degrading zinc protease
     0.0039   16.9   0.3     0.0068   16.1   0.3    1.4  1  DUF3236        Protein of unknown function (DUF3236)


Domain annotation for each model (and alignments):
>> OSCP  ATP synthase delta (OSCP) subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.3   5.4   4.3e-28   2.6e-24       1     171 [.       6     175 ..       6     176 .. 0.96

  Alignments for each domain:
  == domain 1  score: 86.3 bits;  conditional E-value: 4.3e-28
                     OSCP   1 iarrYAkAlfelAkekgaleeveeelealeavlaedkklaellsnpavsaeekkdlleelfke.klseavknflkllaenkRlalL 85 
                              ia+ YA++++el++e + l+  ++e+++l+++++++++l++ll    ++ eek ++l++++++  ls+++knfl+ l+++kR++l+
  PHY93_10100|PHY93_10100   6 IAKAYAQSIVELSEELK-LD-LAQEITTLNEAINKSNDLETLLFLEVFTIEEKLSVLDTVMDKlGLSQITKNFLHFLIQEKRIGLM 89 
                              89***********9876.66.7899**************************************99********************* PP

                     OSCP  86 peiaeefeellaeargiveaeVt.savpLtdeqlekleaalakklgkkkvkleekvdpsliGGvvvkvgdkviDgSvkgkLeklke 170
                              p i+++   + ++++g ++ ++  s  ++ ++ +ekl++ l++klgk + +le+  ++++ +G +v v+d  +D++++++Lek+ke
  PHY93_10100|PHY93_10100  90 PMIFKNVIVIDDHKKGFLRGTIEgSEDQIPADVKEKLKNYLQQKLGK-ETVLEYIKNENVSAGYKVTVEDLQLDATLENQLEKFKE 174
                              **********************868889*******************.699*********************************98 PP

                     OSCP 171 q 171
                              +
  PHY93_10100|PHY93_10100 175 S 175
                              6 PP

>> Peptidase_M85  NFkB-p65-degrading zinc protease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   6.8e-07    0.0041       6      98 ..       8     104 ..       4     124 .. 0.88

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 6.8e-07
            Peptidase_M85   6 daYAdyVvtegkraels.eaqlseliievrravkssasslidrhta...aaiedtileAlleSqtFrkavafsireerenlgfiky 87 
                               aYA+ +v+  ++ +l+ +++++ l +++ ++ +      ++  t      + dt+++ l  Sq  ++ + f i+e+r  l  + +
  PHY93_10100|PHY93_10100   8 KAYAQSIVELSEELKLDlAQEITTLNEAINKSNDLETLLFLEVFTIeekLSVLDTVMDKLGLSQITKNFLHFLIQEKRIGLMPMIF 93 
                              58**************94456999*********99999999999962225799********************************* PP

            Peptidase_M85  88 rNeYelneese 98 
                              +N+ ++ ++++
  PHY93_10100|PHY93_10100  94 KNVIVIDDHKK 104
                              ***99998875 PP

>> DUF3236  Protein of unknown function (DUF3236)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.3   1.1e-06    0.0068       2      90 ..       3     101 ..       2     110 .. 0.80

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 1.1e-06
                              HHHHHHHHHHHHTT...---S--HHHHHHHHHHHHT-SEEEE.....S-SSHHHHHHHHHHHTTTT--EEEE..ESSTGGGGGGSS CS
                  DUF3236   2 eelikkaylesleg...aRkGDkeeeveaireyiknakkivv.....atknkkkvkvinkvlsklglkeiek..leietnsaDltr 77 
                              e++i kay +s+ +     k D ++e+++++e i++++ +       + + ++k++v+++v++klgl++i+k  l++  +   +  
  PHY93_10100|PHY93_10100   3 EQIIAKAYAQSIVElseELKLDLAQEITTLNEAINKSNDLETllfleVFTIEEKLSVLDTVMDKLGLSQITKnfLHFLIQEKRIGL 88 
                              789********876111457799*************99864312222446789*************9999643499999999999* PP

                              SHHHHHHHHHHHH CS
                  DUF3236  78 iPalskalialdi 90 
                              +P + k +i +d 
  PHY93_10100|PHY93_10100  89 MPMIFKNVIVIDD 101
                              *******999885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (177 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       965  (0.0538234); expected 358.6 (0.02)
Passed bias filter:                      460  (0.0256568); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.50u 0.25s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 1198.95
//
Query:       PHY93_10105|PHY93_10105  [L=179]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    6.2e-09   36.0   0.8    8.4e-09   35.6   0.8    1.1  1  ATP-synt_B      ATP synthase B/B' CF(0)
     0.0018   18.6   1.7     0.0033   17.8   0.2    2.1  2  CLZ             C-terminal leucine zipper domain of cyclic nu
     0.0033   16.3   2.3     0.0037   16.1   2.3    1.1  1  DUF3573         Protein of unknown function (DUF3573)
  ------ inclusion threshold ------
      0.016   14.5   7.4       0.02   14.2   7.4    1.1  1  ALIX_LYPXL_bnd  ALIX V-shaped domain binding to HIV
      0.025   14.8   4.8       0.04   14.1   4.5    1.6  1  TMF_TATA_bd     TATA element modulatory factor 1 TATA binding
      0.025   14.9   5.6      0.048   14.0   5.5    1.5  1  OmpH            Outer membrane protein (OmpH-like)
      0.036   14.5   3.4      0.093   13.2   1.8    2.2  2  GlutR_dimer     Glutamyl-tRNAGlu reductase, dimerisation doma
      0.058   13.7   0.3      0.058   13.7   0.3    2.6  3  DUF948          Bacterial protein of unknown function (DUF948
        0.1   12.6   4.1      0.046   13.7   1.7    1.7  1  FlxA            FlxA-like protein
       0.13   12.0   1.0       0.21   11.3   0.5    1.7  1  EMC3_TMCO1      Integral membrane protein EMC3/TMCO1-like
       0.13   12.9   1.0       0.16   12.6   1.0    1.3  1  Ctr             Ctr copper transporter family
       0.21   11.8   6.6       0.17   12.1   2.1    2.2  2  Cortex-I_coil   Cortexillin I, coiled coil
       0.22   10.7   5.5       0.33   10.1   5.5    1.4  1  TMPIT           TMPIT-like protein
        0.5   10.9   6.5       0.76   10.3   6.5    1.4  1  DUF2408         Protein of unknown function (DUF2408)
        1.4    8.3   9.0       0.46    9.8   0.8    2.1  2  IMD             IRSp53/MIM homology domain


Domain annotation for each model (and alignments):
>> ATP-synt_B  ATP synthase B/B' CF(0)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.6   0.8   7.1e-12   8.4e-09       6     131 ..      38     162 ..      34     163 .. 0.96

  Alignments for each domain:
  == domain 1  score: 35.6 bits;  conditional E-value: 7.1e-12
               ATP-synt_B   6 liallilvgllikfawkplkkvLdkReekIadeiaeAeerrkeaaallaeaeqqlkeAraeAaeiiknAkkeaeklkeeieaeaea 91 
                               i+++il+++l+k+ +kpl++  +k  + +++ +++A ++ k+a++ l++ +++ k+  +e  +i+ + +++a++  ++  +e+  
  PHY93_10105|PHY93_10105  38 FINFIILLAILSKV-VKPLREKFNKQADDVKSLMDSAAKSNKDAEERLNKFQTKIKNLDSELVKIVGEYESDAAQFGKNQSEETIT 122
                              69*********985.689******************************************************************** PP

               ATP-synt_B  92 eaerlkesAaaeIeqekdralaeLreqvvalavqiaekll 131
                               ++r+k + +++++ ek ++++eL  + v+  v+ +++++
  PHY93_10105|PHY93_10105 123 TIARMKRDLENKLDGEKTELIDELNHDLVNKVVSSTKTTI 162
                              *****************************99999998877 PP

>> CLZ  C-terminal leucine zipper domain of cyclic nucleotide-gated channels
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.2   2.8e-06    0.0033      21      59 ..      72     110 ..      64     115 .. 0.87
   2 ?   -0.4   0.1       1.2   1.5e+03      27      42 ..     118     133 ..     108     154 .. 0.58

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 2.8e-06
                      CLZ  21 kagaeqkeleekverLessLeaLqtrlarLlaeyessqr 59 
                              +a + +k++ee+++++++++++L+  l ++++eyes ++
  PHY93_10105|PHY93_10105  72 SAAKSNKDAEERLNKFQTKIKNLDSELVKIVGEYESDAA 110
                              456789*****************************9876 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 1.2
                      CLZ  27 keleekverLessLea 42 
                              +e+ + + r++  Le+
  PHY93_10105|PHY93_10105 118 EETITTIARMKRDLEN 133
                              4444455555555542 PP

>> DUF3573  Protein of unknown function (DUF3573)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   2.3   3.1e-06    0.0037       7     117 ..       4     158 ..       1     173 [. 0.71

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 3.1e-06
                  DUF3573   7 livssllvlsilayseds..........................................asyaesneqtsksnlidkelilklqk 50 
                              +i+ s+l  s l+ +  s                                          + ++++ + ++ksn   +e + k+q 
  PHY93_10105|PHY93_10105   4 IIYYSFLFSSFLSIAVASeeavhheasvwdlkypfinfiillailskvvkplrekfnkqaDDVKSLMDSAAKSNKDAEERLNKFQT 89 
                              6666666666665555555667777777777777777777777777777777777777778899999999**************** PP

                  DUF3573  51 qikelqaeinhlketknsnesaqfttysskvedsklprsl..ldnk.eskdlsqvqktsvdiltnidaes 117
                              +ik+l +e+ ++       ++aqf    s+   +   r +  l+nk +  +   +++++ d+++ + +++
  PHY93_10105|PHY93_10105  90 KIKNLDSELVKIVGEYE-SDAAQFGKNQSEETITTIARMKrdLENKlDGEKTELIDELNHDLVNKVVSST 158
                              **********9988877.6899999988875554444444004444133444556999999998875543 PP

>> ALIX_LYPXL_bnd  ALIX V-shaped domain binding to HIV
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   7.4   1.7e-05      0.02      73     188 ..      55     166 ..      49     178 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 1.7e-05
           ALIX_LYPXL_bnd  73 ltaelraelqkyreileeAsesDkivrqklqenkedlelLsgpeeeleaalpssssaaa..sesveeqirklrsllekl.delkae 155
                              l +++ +++++ ++++++A++s+k+ +++l++++ +++ L ++  ++     s +   +  ++++ee i ++ ++  +l ++l  e
  PHY93_10105|PHY93_10105  55 LREKFNKQADDVKSLMDSAAKSNKDAEERLNKFQTKIKNLDSELVKIVGEYESDAA--QfgKNQSEETITTIARMKRDLeNKLDGE 138
                              6789999*********************************6644444444443333..13456666666666666666526899** PP

           ALIX_LYPXL_bnd 156 reqllkdlkekaendDitpklltekkrdiaane 188
                              +++l+++l+      D  +k+++ +k +i+ n+
  PHY93_10105|PHY93_10105 139 KTELIDELN-----HDLVNKVVSSTKTTIKNNK 166
                              ********7.....5777777777777666555 PP

>> TMF_TATA_bd  TATA element modulatory factor 1 TATA binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   4.5   3.4e-05      0.04      31     102 ..      80     151 ..      63     164 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 3.4e-05
              TMF_TATA_bd  31 lkeelerleaerdeareeivklmkeneelkel..kkeleelekeleelqeryetlLellGeksEeveELraDva 102
                              ++e+l++++++ +++ +e+vk++ e e+ +++  k+++ee+ + ++ +++ +e+ L   Gek+E ++EL  D++
  PHY93_10105|PHY93_10105  80 AEERLNKFQTKIKNLDSELVKIVGEYESDAAQfgKNQSEETITTIARMKRDLENKLD--GEKTELIDELNHDLV 151
                              6789999999*************8877766651266666666677777777777665..*************86 PP

>> OmpH  Outer membrane protein (OmpH-like)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   5.5   4.1e-05     0.048      12     103 ..      68     163 ..      46     170 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 4.1e-05
                              HHSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTS.-HHHHHH...HHHHHHHHHHHHHHHH.HHHHHHHHHHHHH CS
                     OmpH  12 eespegkaaqeqlekkfkklqaeleakekelqklqeelqkkakklekeekeqe...lqkkeqelqqkqqqka.qelqkkqqellkp 93 
                              + ++ + + +++ e+  +k+q++++++  el k + e++ +a++  k++ e+    +++++++l++k++ ++ + + + + +l+++
  PHY93_10105|PHY93_10105  68 SLMDSAAKSNKDAEERLNKFQTKIKNLDSELVKIVGEYESDAAQFGKNQSEETittIARMKRDLENKLDGEKtELIDELNHDLVNK 153
                              45667777777788888999999999999999999999977766413333333778999999999999999955556666668888 PP

                              HHHHHHHHHH CS
                     OmpH  94 ildkinkaik 103
                              ++   +++ik
  PHY93_10105|PHY93_10105 154 VVSSTKTTIK 163
                              7777777776 PP

>> GlutR_dimer  Glutamyl-tRNAGlu reductase, dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.1      0.45   5.4e+02      25      61 ..      51      87 ..      45      94 .. 0.55
   2 ?   13.2   1.8   7.7e-05     0.093       8      83 ..      82     167 ..      80     179 .] 0.65

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 0.45
                             HHHHHHHHHHHHHHHHHHHHHS-S..-------.-TTH CS
              GlutR_dimer 25 tIkalrekaeeireeeleralkklaldgedree.lekl 61
                             ++k lrek+++ +++    + +  + +++d+ee l+k+
  PHY93_10105|PHY93_10105 51 VVKPLREKFNKQADDVKSLMDSAAK-SNKDAEErLNKF 87
                             5566666666655554444444444.555555556655 PP

  == domain 2  score: 13.2 bits;  conditional E-value: 7.7e-05
                              HHHHHHHHHHHHH..HHHHHHHHHHHHHHHHHHHHHHHHHS-S...........--------TTHHHHHHHHHHHHHHHHHHSS-T CS
              GlutR_dimer   8 eeveefeawlksl..evvptIkalrekaeeireeeleralkkla.........ldgedreelekltrslvnkllheptarLkeaed 82 
                              e +++f++++k+l  e+v+++ ++ + a +  +++ e+++  +a         ldge+ e +++l + lvnk++  + +++k+++ 
  PHY93_10105|PHY93_10105  82 ERLNKFQTKIKNLdsELVKIVGEYESDAAQFGKNQSEETITTIArmkrdlenkLDGEKTELIDELNHDLVNKVVSSTKTTIKNNK- 166
                              5566666666666444566666666666666555444333333333344449999999999****************99999982. PP

                              T CS
              GlutR_dimer  83 e 83 
                              +
  PHY93_10105|PHY93_10105 167 D 167
                              2 PP

>> DUF948  Bacterial protein of unknown function (DUF948)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.3   4.8e-05     0.058       9      67 ..      40      98 ..      39     118 .. 0.80
   2 ?    0.5   0.1      0.64   7.7e+02      47      68 ..     115     136 ..      97     141 .. 0.81
   3 ?    1.0   2.1      0.42     5e+02      47      65 ..     137     153 ..     114     178 .. 0.44

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 4.8e-05
                   DUF948  9 AFvvLviflivvllklkktldeaaatieelekqvdpilkevedllakvnelledvnekl 67
                              F++L ++l +v++ l++ +++ a+ +++l++ + +  k++e+ l+k ++  +++ ++l
  PHY93_10105|PHY93_10105 40 NFIILLAILSKVVKPLREKFNKQADDVKSLMDSAAKSNKDAEERLNKFQTKIKNLDSEL 98
                             59999999999999999999999999999999999999999999999999444444444 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.64
                   DUF948  47 kevedllakvnelledvnekle 68 
                              +++e++++++ ++  d+++kl+
  PHY93_10105|PHY93_10105 115 NQSEETITTIARMKRDLENKLD 136
                              5778888888888888888876 PP

  == domain 3  score: 1.0 bits;  conditional E-value: 0.42
                   DUF948  47 kevedllakvnelledvne 65 
                               e ++l+++ n   + vn+
  PHY93_10105|PHY93_10105 137 GEKTELIDELNH--DLVNK 153
                              344444444444..22222 PP

>> FlxA  FlxA-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   1.7   3.9e-05     0.046      19      89 ..      52     122 ..      48     138 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 3.9e-05
                     FlxA  19 iasLqkQiknlqkqLkelsesdeltkeekkkqqqliqaQIqqlqaQIaqlqqqqaekaqekqqsekeeksk 89 
                              ++ L++  ++  + +k+l +s ++++++ +++ +  q++I++l +++ ++  + +++a++  +++ ee+  
  PHY93_10105|PHY93_10105  52 VKPLREKFNKQADDVKSLMDSAAKSNKDAEERLNKFQTKIKNLDSELVKIVGEYESDAAQFGKNQSEETIT 122
                              677888888899999999999999999999********************999999999988777777654 PP

>> EMC3_TMCO1  Integral membrane protein EMC3/TMCO1-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.5   0.00018      0.21      13      73 ..      35      91 ..      25     138 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00018
               EMC3_TMCO1 13 llPivivillvgiltgllsellqkllidkkkmekeqkrekelqkrarelqkngdklklkkl 73
                              +P++ +i+l++il+ ++  l  k+    k+ + ++ ++    k  + ++++ +k++ k +
  PHY93_10105|PHY93_10105 35 KYPFINFIILLAILSKVVKPLREKF---NKQADDVKSLMDSAAKSNKDAEERLNKFQTK-I 91
                             48*******************9998...5669*****************9987766543.3 PP

>> Ctr  Ctr copper transporter family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   1.0   0.00013      0.16      30      84 ..      41     120 ..      10     177 .. 0.65

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 0.00013
                      Ctr  30 glfllaifyeflralrerlerewdrhla..rsre.krkaassplvdssssseeeaea............................k 84 
                              +++llai+ ++++ lre+++++ d + +  +s+  ++k a++ l++ +++                                   +
  PHY93_10105|PHY93_10105  41 FIILLAILSKVVKPLREKFNKQADDVKSlmDSAAkSNKDAEERLNKFQTK------IknldselvkivgeyesdaaqfgknqseeT 120
                              89*****************9988877733322220222222222222222......022334567777777655555544433330 PP

>> Cortex-I_coil  Cortexillin I, coiled coil
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   2.1   0.00015      0.17      31      75 ..      55      95 ..      45     117 .. 0.84
   2 ?    2.1   0.2      0.19   2.2e+02      13      31 ..     123     141 ..     108     175 .. 0.68

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00015
                             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
            Cortex-I_coil 31 sreelikqkdelesllasleseaaerekrlreleakldealknle 75
                              re++ kq d+++sl+ s  + +++ e+rl+++++k+++    l+
  PHY93_10105|PHY93_10105 55 LREKFNKQADDVKSLMDSAAKSNKDAEERLNKFQTKIKN----LD 95
                             5899******************************99864....44 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.19
                              XHHHHHHHHHHHHHHHHHH CS
            Cortex-I_coil  13 elanklaglenslesekvs 31 
                               +a     len l++ek+ 
  PHY93_10105|PHY93_10105 123 TIARMKRDLENKLDGEKTE 141
                              4555556677777777764 PP

>> TMPIT  TMPIT-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   5.5   0.00028      0.33      17      94 ..      55     137 ..      42     175 .. 0.61

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00028
                    TMPIT  17 takeykqkleelsklqskcskeikkqkkrlkelksslkklkksvk...............eeeeeeveelkeelkerkkvlkeves 87 
                                ++++++ +++++l ++ +k+ k  ++rl+++++++k+l++++                +           + +e+ +++++++ 
  PHY93_10105|PHY93_10105  55 LREKFNKQADDVKSLMDSAAKSNKDAEERLNKFQTKIKNLDSELVkivgeyesdaaqfgkN-----------QSEETITTIARMKR 129
                              4456789999999999999999999999999999999999998545665444434444333...........44444444444444 PP

                    TMPIT  88 llpkk.ng 94 
                               l +k  g
  PHY93_10105|PHY93_10105 130 DLENKlDG 137
                              44444333 PP

>> DUF2408  Protein of unknown function (DUF2408)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   6.5   0.00063      0.76       6      98 ..      53     150 ..      45     176 .. 0.64

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00063
                  DUF2408   6 pelepiyekLvsirrsLlslaakskaeeakeseevkeelkelkeeLkkieskrde.egkFkseegke....vvekgqavlngLldd 86 
                              + l + ++k  +  +sL+  aaks+++++++ +++++++k+l +eL ki  + ++   +F +++++e    ++  +  + n+L  +
  PHY93_10105|PHY93_10105  53 KPLREKFNKQADDVKSLMDSAAKSNKDAEERLNKFQTKIKNLDSELVKIVGEYESdAAQFGKNQSEEtittIARMKRDLENKLDGE 138
                              55555555555566899999999999988888889999999999999986544433455544444334445445555566666666 PP

                  DUF2408  87 cfdlvedlkaqd 98 
                                +l+++l+++ 
  PHY93_10105|PHY93_10105 139 KTELIDELNHDL 150
                              666666666654 PP

>> IMD  IRSp53/MIM homology domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   2.0     0.047        56      86     155 ..      52      96 ..      43     112 .. 0.50
   2 ?    9.8   0.8   0.00039      0.46      58     110 ..     119     171 ..      98     177 .. 0.87

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.047
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHCCCS-CHHHHHHHHHHHHHHHHH CS
                      IMD  86 lnpleekveedkkvlnqldkdyakEykkkraelkKkssellklqkKakkgkddlkvqldelledvndkyl 155
                              ++pl ek ++    ++ l    ak  k + + l+K ++ ++ l                           
  PHY93_10105|PHY93_10105  52 VKPLREKFNKQADDVKSLMDSAAKSNKDAEERLNKFQTKIKNL-------------------------DS 96 
                              4444444444444444444444444444444444444444443.........................33 PP

  == domain 2  score: 9.8 bits;  conditional E-value: 0.00039
                              HHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHH CS
                      IMD  58 svLvrmaerhRsieskLeelvkalhdsLlnpleekveedkkvlnqldkdyakE 110
                              + ++ +a  +R++e+kL    + l+d+L ++l +kv    k   + +kdy+  
  PHY93_10105|PHY93_10105 119 ETITTIARMKRDLENKLDGEKTELIDELNHDLVNKVVSSTKTTIKNNKDYQVK 171
                              67889999**********************************999*****975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (179 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2123  (0.118412); expected 358.6 (0.02)
Passed bias filter:                      666  (0.0371465); expected 358.6 (0.02)
Passed Vit filter:                        83  (0.00462937); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.60u 0.25s 00:00:00.85 Elapsed: 00:00:00.46
# Mc/sec: 1163.17
//
Query:       PHY93_10110|PHY93_10110  [L=145]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      5e-06   26.6   9.8    6.1e-06   26.4   9.8    1.0  1  ATP-synt_B      ATP synthase B/B' CF(0)
  ------ inclusion threshold ------
      0.071   12.9  11.0      0.079   12.7  11.0    1.1  1  AAA_11          AAA domain
       0.14   10.7   0.2       0.18   10.4   0.2    1.2  1  ATG22           Vacuole effluxer Atg22 like
       0.23   10.6   2.1       0.28   10.4   2.1    1.1  1  Zip             ZIP Zinc transporter
        1.3    9.8   8.6    1.1e+02    3.7   8.6    2.2  1  YMF19           Plant ATP synthase F0
        1.5    7.5   4.0        1.8    7.3   4.0    1.1  1  Presenilin      Presenilin


Domain annotation for each model (and alignments):
>> ATP-synt_B  ATP synthase B/B' CF(0)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.4   9.8     2e-09   6.1e-06       5     130 ..      17     145 .]      15     145 .] 0.92

  Alignments for each domain:
  == domain 1  score: 26.4 bits;  conditional E-value: 2e-09
               ATP-synt_B   5 nliallilvgllik...fawkplkkvLdkReekIadeiaeAeerrkeaaallaeaeqqlkeAraeAaeiiknAkkeaeklkeeiea 87 
                               li++ il+ l ++   ++ k++++vL+ Re k  +  ++A +  k+++ l+++++++ ++  ++++ + ++ k+++ +  +ei +
  PHY93_10110|PHY93_10110  17 ALIQFGILLVLFNTiapLLFKKIQEVLELRESKTTKLESNAHNVYKKSEDLAEQYKAKIEKTHQDSQSVTQKKKSDILNKEKEILK 102
                              57788777777776111568****************************************************************** PP

               ATP-synt_B  88 eaeaeaerlkesAaaeIeqekdralaeLreqvvalavqiaekl 130
                              + e ++ +  e+ + +I++e ++ ++ + +++ +la + +ekl
  PHY93_10110|PHY93_10110 103 SEEDKLSSEYEDRKSKIKKEMSEKRTIIMAEADKLAANLVEKL 145
                              **************************************99985 PP

>> AAA_11  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7  11.0   2.6e-05     0.079     121     201 ..      52     132 ..      30     145 .] 0.82

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 2.6e-05
                   AAA_11 121 ekaqlakeiskeleklakelrafeeeeekeklkkskekskskleqerrklkkerkelskeleeaeesleeevldeaeivlt 201
                              +  + a+++ k++e+la++ +a+ e+ +++++  +++k+++ l++e++ lk+e ++ls+e+e +++++++e+ ++  i+++
  PHY93_10110|PHY93_10110  52 KLESNAHNVYKKSEDLAEQYKAKIEKTHQDSQSVTQKKKSDILNKEKEILKSEEDKLSSEYEDRKSKIKKEMSEKRTIIMA 132
                              2556678999999999999999999999999999999999999************************************97 PP

>> ATG22  Vacuole effluxer Atg22 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.2   6.1e-05      0.18     138     173 ..      18      96 ..      11     135 .. 0.70

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 6.1e-05
                    ATG22 138 ntcfgaslvllnsfLPllvredpelqeaeeeeeee...........................................e 173
                              ++ fg+ lvl+n + Pll ++ +e+ e +e+++++                                           +
  PHY93_10110|PHY93_10110  18 LIQFGILLVLFNTIAPLLFKKIQEVLELRESKTTKlesnahnvykksedlaeqykakiekthqdsqsvtqkkksdilnK 96 
                              789**********************777777777766678888888877777777666666655555555555544440 PP

>> Zip  ZIP Zinc transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   2.1   9.2e-05      0.28      86     179 ..      23     119 ..      12     137 .. 0.63

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 9.2e-05
                      Zip  86 flllllveklltmivek.......ksshkektpkkasssssesaakksvsndkveeseekedhvaeadtdadskeelrngkqekse 164
                              +ll+ l++ ++ ++++k        +s+ +k +++a++ +++s++  + ++ k+e+++++ + v+++++++   +e+   k+e ++
  PHY93_10110|PHY93_10110  23 ILLV-LFNTIAPLLFKKiqevlelRESKTTKLESNAHNVYKKSEDLAEQYKAKIEKTHQDSQSVTQKKKSDILNKEKEILKSEEDK 107
                              3333.345555555556666776678888899999999999999999999999999999988888887777644444444444333 PP

                      Zip 165 sekeqaseeedkekl 179
                               ++e +   ++k+k+
  PHY93_10110|PHY93_10110 108 LSSEYE---DRKSKI 119
                              333333...233333 PP

>> YMF19  Plant ATP synthase F0
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   8.6     0.037   1.1e+02      29      75 ..      34      80 ..      16     144 .. 0.84

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.037
                    YMF19 29 nilpkiarilklrkkllsslssevsklkkeqknlivskdsalanvsl 75
                                 ki ++l lr+ + ++l+s+  ++ k++++l ++++ +++++  
  PHY93_10110|PHY93_10110 34 LLFKKIQEVLELRESKTTKLESNAHNVYKKSEDLAEQYKAKIEKTHQ 80
                             3456788899**********************999999999999855 PP

>> Presenilin  Presenilin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3   4.0   0.00059       1.8     233     314 ..      53     122 ..      23     139 .. 0.32

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.00059
               Presenilin 233 aeseeeeeaekkkeeasesskeeeseeesseksaqsseseeeseeesseaessaeesseekeseessessee.eeeeeeeeee 314
                               es+ ++  +k+++ a++++++ e++++ s++ +q+++         s+  +    +++e  ++e+++ s+e e+++++ ++e
  PHY93_10110|PHY93_10110  53 LESNAHNVYKKSEDLAEQYKAKIEKTHQDSQSVTQKKK---------SDILN----KEKEILKSEEDKLSSEyEDRKSKIKKE 122
                              11111111122222222222222222222222222221.........11111....111111111111111101111111111 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (145 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      3392  (0.189191); expected 358.6 (0.02)
Passed bias filter:                      658  (0.0367003); expected 358.6 (0.02)
Passed Vit filter:                        87  (0.00485247); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.52u 0.27s 00:00:00.79 Elapsed: 00:00:00.42
# Mc/sec: 1047.44
//
Query:       PHY93_10115|PHY93_10115  [L=114]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    9.2e-25   86.8   4.2    1.1e-24   86.6   4.2    1.0  1  Bactofilin  Polymer-forming cytoskeletal
  ------ inclusion threshold ------
       0.17   11.2   1.4          3    7.2   0.2    2.1  2  DUF5462     Family of unknown function (DUF5462)


Domain annotation for each model (and alignments):
>> Bactofilin  Polymer-forming cytoskeletal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.6   4.2   1.2e-28   1.1e-24       2      97 ..      11     106 ..      10     107 .. 0.98

  Alignments for each domain:
  == domain 1  score: 86.6 bits;  conditional E-value: 1.2e-28
               Bactofilin   2 ligegtkikGelevegdlridGkveGdieakgklvvgeggkvegnikaeevvvaGtvkGnveaeekvelkktakveGdikakslei 87 
                              +i+eg+k++G+l+++g+ ri+G v+G++ +++++v++eg+ ++++i+a+ +++aG+vkGn++a+++ve+ k a+ eG i+++sl +
  PHY93_10115|PHY93_10115  11 IIEEGCKFEGNLSFNGTARIAGIVNGSVFSNDTVVISEGAIINADINANIIIIAGSVKGNIKASSRVEILKPARFEGIITTPSLIV 96 
                              89**************************9999****************************************************** PP

               Bactofilin  88 eegavfeGkl 97 
                              eeg+ f+G+ 
  PHY93_10115|PHY93_10115  97 EEGVIFHGTT 106
                              ********85 PP

>> DUF5462  Family of unknown function (DUF5462)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2   0.2   0.00033         3      23      42 ..      28      47 ..      11      50 .. 0.81
   2 ?    3.3   0.1    0.0054        48      24      43 ..      62      81 ..      48      84 .. 0.79

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.00033
                  DUF5462 23 vqyLGvvNGqvqgnsvvkvt 42
                             +   G+vNG+v +n+ v ++
  PHY93_10115|PHY93_10115 28 ARIAGIVNGSVFSNDTVVIS 47
                             5567***********99886 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.0054
                  DUF5462 24 qyLGvvNGqvqgnsvvkvtr 43
                                G+v G+++++s+v++ +
  PHY93_10115|PHY93_10115 62 IIAGSVKGNIKASSRVEILK 81
                             45699***********9965 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (114 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       307  (0.0171231); expected 358.6 (0.02)
Passed bias filter:                      188  (0.0104858); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.37u 0.21s 00:00:00.57 Elapsed: 00:00:00.36
# Mc/sec: 959.93
//
Query:       PHY93_10120|PHY93_10120  [L=317]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      6e-27   93.8   1.3    1.1e-26   92.9   0.4    1.9  2  ParBc           ParB-like nuclease domain
      4e-11   42.6   1.8    1.4e-10   40.8   0.1    2.8  3  HTH_ParB        HTH domain found in ParB protein
    0.00014   21.8   0.4     0.0031   17.5   0.1    3.0  3  HTH_3           Helix-turn-helix
    0.00054   19.8   0.3     0.0019   18.0   0.1    1.9  2  TrmB            Sugar-specific transcriptional regulator TrmB
     0.0014   18.6   1.0     0.0054   16.7   0.0    2.4  3  KorB            KorB domain
     0.0027   17.5   0.0       0.24   11.3   0.0    2.6  2  HTH_23          Homeodomain-like domain
      0.004   17.3   0.0      0.009   16.2   0.0    1.6  1  DUF1016_N       DUF1016 N-terminal domain
     0.0078   16.2   0.9       0.43   10.6   0.0    3.2  4  HTH_19          Helix-turn-helix domain
  ------ inclusion threshold ------
      0.031   14.9   2.5       0.08   13.6   2.5    1.6  1  LAMTOR          Late endosomal/lysosomal adaptor and MAPK and
      0.039   13.7   0.3       0.13   12.1   0.0    2.1  2  HTH_38          Helix-turn-helix domain
      0.078   13.0   0.3       0.69    9.9   0.2    2.4  3  DNA_photolyase  DNA photolyase


Domain annotation for each model (and alignments):
>> ParBc  ParB-like nuclease domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   92.9   0.4   6.7e-30   1.1e-26       3      89 ..      64     151 ..      62     152 .. 0.98
   2 ?   -2.0   0.0       2.9   4.7e+03      22      44 ..     243     265 ..     221     282 .. 0.61

  Alignments for each domain:
  == domain 1  score: 92.9 bits;  conditional E-value: 6.7e-30
                    ParBc   3 vplseirpnplqprkd.spekieelvasIkkkGllqPiivrktrqgryeiiaGerRlrAakrlglkevpvivleiddeeamalsli 87 
                              v++ +i+ np+qprk  +++++eel++sIk++G++qP++v + ++g++e+iaGerRlrAak +gl++vpv+v+ ++d+e+m +s+i
  PHY93_10120|PHY93_10120  64 VDVGSIKTNPNQPRKIfKEKDLEELAESIKENGIIQPLVVAELENGQFELIAGERRLRAAKKAGLEQVPVVVKRATDREKMIMSII 149
                              89999********************************************************************************* PP

                    ParBc  88 en 89 
                              en
  PHY93_10120|PHY93_10120 150 EN 151
                              *9 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 2.9
                    ParBc  22 kieelvasIkkkGllqPiivrkt 44 
                              ++++l + Ik+k+ l+   vrk+
  PHY93_10120|PHY93_10120 243 SVRDLENGIKAKKPLKEKAVRKN 265
                              45555566665554444444444 PP

>> HTH_ParB  HTH domain found in ParB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.0       1.3   2.1e+03      27      40 ..      83      96 ..      80      97 .. 0.80
   2 ?   -1.7   0.0       1.6   2.6e+03      28      43 ..     176     191 ..     170     192 .. 0.81
   3 !   40.8   0.1   8.7e-14   1.4e-10       2      51 ..     203     252 ..     202     253 .. 0.95

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 1.3
                 HTH_ParB 27 elqlqlaekiieeg 40
                             ++ ++lae i e+g
  PHY93_10120|PHY93_10120 83 KDLEELAESIKENG 96
                             77899999999987 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 1.6
                 HTH_ParB  28 lqlqlaekiieegLsV 43 
                               q+ +a+k  +e+ +V
  PHY93_10120|PHY93_10120 176 TQEDVAKKLGKERSTV 191
                              6999999999998887 PP

  == domain 3  score: 40.8 bits;  conditional E-value: 8.7e-14
                 HTH_ParB   2 evqeavsegkiseGHARaLlslkdeelqlqlaekiieegLsVRetEklvr 51 
                              +v +++++  +s GHA+ L+++k+ e+ + la++++ +g+sVR++E+ ++
  PHY93_10120|PHY93_10120 203 PVIDLLQKEMLSFGHAKILAAVKEREEAIRLANEAVVNGWSVRDLENGIK 252
                              58899*****************************************9776 PP

>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.0      0.65   1.1e+03      12      34 ..      85     111 ..      81     113 .. 0.75
   2 !   17.5   0.1   1.9e-06    0.0031       3      29 ..     168     194 ..     167     197 .. 0.90
   3 ?   -0.8   0.0         1   1.7e+03      24      34 ..     242     252 ..     232     259 .. 0.71

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.65
                              HHHHHHHHT....SSHHHHHHHHTTSS CS
                    HTH_3  12 qeeLAeklG....vsrstisriEnGer 34 
                              +eeLAe +     + +  ++ +EnG+ 
  PHY93_10120|PHY93_10120  85 LEELAESIKengiIQPLVVAELENGQF 111
                              678888777777777888899999976 PP

  == domain 2  score: 17.5 bits;  conditional E-value: 1.9e-06
                              HHHHHTTHHHHHHHHHHTSSHHHHHHH CS
                    HTH_3   3 elRkqlglsqeeLAeklGvsrstisri 29 
                              +l+++ +l+qe++A+klG  rst+++ 
  PHY93_10120|PHY93_10120 168 QLMNEYKLTQEDVAKKLGKERSTVANF 194
                              68899*******************986 PP

  == domain 3  score: -0.8 bits;  conditional E-value: 1
                              HHHHHHHTTSS CS
                    HTH_3  24 stisriEnGer 34 
                              ++++++EnG+ 
  PHY93_10120|PHY93_10120 242 WSVRDLENGIK 252
                              679999**954 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0       1.7   2.8e+03      46      65 ..      63      83 ..      56      86 .. 0.75
   2 !   18.0   0.1   1.2e-06    0.0019      10      46 ..     162     198 ..     156     200 .. 0.93

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 1.7
                             HHHCTSEEEESSTTT.EEEE- CS
                     TrmB 46 LedkGlVerekgrpk.lYrav 65
                             L+d G +++++ +p+ +++  
  PHY93_10120|PHY93_10120 63 LVDVGSIKTNPNQPRkIFKEK 83
                             899999999998866366655 PP

  == domain 2  score: 18.0 bits;  conditional E-value: 1.2e-06
                              CCCHCHHHHHHCCCHHCHHCCCTTSSCHCHHHHHHHH CS
                     TrmB  10 EakvYlaLlklgpatadeiaeelgvprskvYevLrsL 46 
                              Ea +Y  L+++ ++t +++a++lg +rs+v + Lr L
  PHY93_10120|PHY93_10120 162 EALAYYQLMNEYKLTQEDVAKKLGKERSTVANFLRIL 198
                              999***************************9999866 PP

>> KorB  KorB domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.2       1.2   1.9e+03      54      84 ..      15      47 ..      13      52 .. 0.74
   2 ?   -3.2   0.0       5.3   8.7e+03      24      40 ..     126     142 ..     122     147 .. 0.78
   3 !   16.7   0.0   3.3e-06    0.0054       4      42 ..     175     213 ..     172     250 .. 0.89

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 1.2
                     KorB 54 aaekhpaev..rafvaengeagltrsavrrflk 84
                             ++e  p+ v  +++ +++g+++  r++ +++ +
  PHY93_10120|PHY93_10120 15 LQESTPQSVvnQTYNNKFGNQTEEREQAQEQEQ 47
                             567778887446677999999999999987654 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 5.3
                     KorB  24 lklldvpdylrelydse 40 
                              + l +vp  ++ + d+e
  PHY93_10120|PHY93_10120 126 AGLEQVPVVVKRATDRE 142
                              56788899999999886 PP

  == domain 3  score: 16.7 bits;  conditional E-value: 3.3e-06
                     KorB   4 vkqadIAkaLGksksfvslylklldvpdylrelydsevi 42 
                              ++q+d+Ak+LGk++s v+ +l +l++p  + +l+++e+ 
  PHY93_10120|PHY93_10120 175 LTQEDVAKKLGKERSTVANFLRILNLPRPVIDLLQKEML 213
                              68**************************99999998875 PP

>> HTH_23  Homeodomain-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.3   0.0   0.00015      0.24      16      39 ..     172     196 ..     163     200 .. 0.80
   2 ?    3.5   0.0     0.041        67       3      22 ..     223     246 ..     221     247 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00015
                   HTH_23  16 e.GlsvreIAreLgvsrrTvyrwlk 39 
                              e +l+++++A++Lg  r+Tv + l+
  PHY93_10120|PHY93_10120 172 EyKLTQEDVAKKLGKERSTVANFLR 196
                              2689****************98776 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.041
                   HTH_23   3 sereRlrillllae....Glsvre 22 
                               ++eR ++++l+ e    G+svr+
  PHY93_10120|PHY93_10120 223 AVKEREEAIRLANEavvnGWSVRD 246
                              5789*********99999****97 PP

>> DUF1016_N  DUF1016 N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0   5.5e-06     0.009      90     132 ..     190     253 ..     149     255 .. 0.71

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 5.5e-06
                DUF1016_N  90 q......................lsWshnllllekvkdeeerefYleeaieegWsrreLerqiks 132
                                                     ls +h ++l   vk++ee+   ++ea+ +gWs+r Le+ ik 
  PHY93_10120|PHY93_10120 190 TvanflrilnlprpvidllqkemLSFGHAKILA-AVKEREEAIRLANEAVVNGWSVRDLENGIKA 253
                              044444444444445555555679*****9999.***************************9987 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.0     0.086   1.4e+02      15      54 ..      85     128 ..      76     138 .. 0.72
   2 ?   -1.7   0.0       1.8     3e+03      26      41 ..     142     158 ..     118     173 .. 0.62
   3 !   10.6   0.0   0.00026      0.43      10      32 ..     172     194 ..     167     229 .. 0.89
   4 ?   -2.0   0.0       2.4   3.9e+03      32      43 ..     247     259 ..     233     283 .. 0.63

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.086
                   HTH_19  15 qeelaerlgis....rskisaiEngkkdvpsaelllkiaealgi 54 
                              +eelae ++ +    +   +++Eng+++ +  e+ l++a++ g+
  PHY93_10120|PHY93_10120  85 LEELAESIKENgiiqPLVVAELENGQFELIAGERRLRAAKKAGL 128
                              6677775555555456667899*****99987777777776665 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 1.8
                   HTH_19  26 rskisaiEng.kkdvps 41 
                               ++i+ i+ + ++ +++
  PHY93_10120|PHY93_10120 142 EKMIMSIIENvQRSDLN 158
                              56677777666555665 PP

  == domain 3  score: 10.6 bits;  conditional E-value: 0.00026
                   HTH_19  10 elgltqeelaerlgisrskisai 32 
                              e++ltqe++a++lg  rs  +++
  PHY93_10120|PHY93_10120 172 EYKLTQEDVAKKLGKERSTVANF 194
                              78***************998876 PP

  == domain 4  score: -2.0 bits;  conditional E-value: 2.4
                   HTH_19  32 iEng.kkdvpsae 43 
                              +Eng k ++p  e
  PHY93_10120|PHY93_10120 247 LENGiKAKKPLKE 259
                              5666655555544 PP

>> LAMTOR  Late endosomal/lysosomal adaptor and MAPK and MTOR activator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   2.5   4.9e-05      0.08       5      63 ..      13      72 ..      12      78 .. 0.71

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 4.9e-05
                   LAMTOR  5 rLLadpqnnsgnysrgydnslqqqeqespekltdeqeaLnk..IvqetsdnlIDISaidss 63
                             +LL+++ ++s   ++ y+n + +q++e ++++ +eqe+ ++  I  ets  l+D+++i ++
  PHY93_10120|PHY93_10120 13 SLLQESTPQSV-VNQTYNNKFGNQTEEREQAQEQEQEQEREieIRYETSPLLVDVGSIKTN 72
                             79999999999.7777777777777777777777777666511567899999999666554 PP

>> HTH_38  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.9   0.6       7.6   1.2e+04       8      18 ..      49      58 ..      48      59 .. 0.71
   2 ?   12.1   0.0   7.8e-05      0.13      20      42 ..     174     196 ..     167     196 .. 0.85

  Alignments for each domain:
  == domain 1  score: -3.9 bits;  conditional E-value: 7.6
                   HTH_38  8 eeReeIerlla 18
                             +eR eIe+ ++
  PHY93_10120|PHY93_10120 49 QER-EIEIRYE 58
                             566.8888775 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 7.8e-05
                   HTH_38  20 GlslreIArrLgrspsTIsRElk 42 
                              +l++ ++A++Lg+ +sT+++ l+
  PHY93_10120|PHY93_10120 174 KLTQEDVAKKLGKERSTVANFLR 196
                              58999*************99775 PP

>> DNA_photolyase  DNA photolyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.2   0.00043      0.69      98     148 ..      32      83 ..       8      93 .. 0.74
   2 ?   -0.8   0.0      0.85   1.4e+03      55      75 ..      85     107 ..      82     161 .. 0.73
   3 ?   -0.8   0.0      0.83   1.4e+03      44      90 ..     261     310 ..     234     313 .. 0.72

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00043
                              -SHHHHHHHHHHHHHHH.HCTSEEEEE--SSSS-HHHHHTTTSSSHSSHHHH CS
           DNA_photolyase  98 yepdererdeavkealr.kagievesfddhtlvepgevktkkgkpykvFtpf 148
                                 + +er++a ++  + +++ie++   + +lv++g++kt+ ++p k+F+++
  PHY93_10120|PHY93_10120  32 FGNQTEEREQAQEQEQEqEREIEIRYETSPLLVDVGSIKTNPNQPRKIFKEK 83 
                              444445555554444442579999999999*******************875 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 0.85
                              HHHHHHHHHHTT..--EEEEESS CS
           DNA_photolyase  55 LadLdeeLrelg..irLvvrrgd 75 
                              L++L+e+++e g   +Lvv + +
  PHY93_10120|PHY93_10120  85 LEELAESIKENGiiQPLVVAELE 107
                              78888888888855577776655 PP

  == domain 3  score: -0.8 bits;  conditional E-value: 0.83
                              CHHHHHHHHHHHHHHHHHH.HHTT--EEEEESS..HHHHHHHHHHHCTEC CS
           DNA_photolyase  44 gaarvdfllesLadLdeeL.relgirLvvrrgd..padvlpelakelgas 90 
                              + ++  f+ e L +++++L ++ g ++ + +g+  + +++ ++ +e++ +
  PHY93_10120|PHY93_10120 261 AVRKNPFFDEKLDQFRKTLeQKTGYHFGINSGKngTGQIVLKFSNEAEFN 310
                              44555599999999999995556777877777766777777776666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (317 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1798  (0.100284); expected 358.6 (0.02)
Passed bias filter:                      834  (0.0465168); expected 358.6 (0.02)
Passed Vit filter:                        66  (0.00368119); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.53u 0.22s 00:00:00.75 Elapsed: 00:00:00.36
# Mc/sec: 2666.50
//
Query:       PHY93_10125|PHY93_10125  [L=304]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.4e-63  214.0   0.2    3.2e-63  212.8   0.1    1.6  2  AAA_31       AAA domain
    5.2e-24   84.7   0.0    7.9e-24   84.2   0.0    1.3  1  CbiA         CobQ/CobB/MinD/ParA nucleotide binding domain
    8.7e-12   45.0   0.0      2e-11   43.8   0.0    1.5  1  CBP_BcsQ     Cellulose biosynthesis protein BcsQ
    4.1e-11   42.7   0.1    4.1e-05   23.0   0.0    2.1  2  MipZ         ATPase MipZ
    4.3e-10   39.5   0.2    4.8e-07   29.5   0.3    2.9  3  ParA         NUBPL iron-transfer P-loop NTPase
      1e-09   38.0   0.8    3.8e-07   29.6   0.2    2.6  2  ArsA_ATPase  Anion-transporting ATPase
    1.8e-06   27.6   0.1    0.00028   20.4   0.1    2.3  2  Fer4_NifH    4Fe-4S iron sulfur cluster binding proteins, Nif
     0.0023   17.6   0.2       0.13   11.8   0.1    2.4  2  SRP54        SRP54-type protein, GTPase domain
     0.0094   15.3   0.4      0.024   14.0   0.4    1.7  1  VirC1        VirC1 protein
  ------ inclusion threshold ------
       0.18   11.6   0.1       0.43   10.3   0.1    1.6  1  CLP1_P       mRNA cleavage and polyadenylation factor CLP1 P-


Domain annotation for each model (and alignments):
>> AAA_31  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  212.8   0.1   1.8e-66   3.2e-63       2     176 ..       3     178 ..       2     179 .. 0.98
   2 ?   -2.9   0.0         3   5.4e+03     102     123 ..     189     210 ..     183     222 .. 0.63

  Alignments for each domain:
  == domain 1  score: 212.8 bits;  conditional E-value: 1.8e-66
                   AAA_31   2 kvIaianqKGGvGKTTtsvnlaaalaklgkkvLlvDlDpQanattglgiekne.iektlyevlieeknikeaiiktkvenldlips 86 
                              k+Ia++nqKGGvGKTT+svnlaa+la ++kk+Ll+DlDpQ+n ++++g++k++ + +++y++li ++++keai++++    d+ ps
  PHY93_10125|PHY93_10125   3 KIIAMMNQKGGVGKTTSSVNLAACLAVAEKKTLLIDLDPQGNGSISIGLSKDKfAGRNIYHALIGQISLKEAIYESELPCFDICPS 88 
                              9************************************************98886789*****************9999999***** PP

                   AAA_31  87 sidLaeaeielvelekkeeilkellekvkdeYDyiiiDcpPsLglltenaLvasdsviipvqaeayaleGleqllktieevkkkln 172
                              + +L++aeielv+l  +e+ lk+++++++++YDyiiiDcpPsLgllt+naL a+ s+i+p+q+e++a+eGl+qll+t++ ++++ln
  PHY93_10125|PHY93_10125  89 DNNLSGAEIELVSLFARESKLKNAFKAIEKDYDYIIIDCPPSLGLLTVNALNAAHSYIVPMQTEFLAMEGLAQLLNTVKLIRSSLN 174
                              ************************************************************************************** PP

                   AAA_31 173 pkle 176
                              p+le
  PHY93_10125|PHY93_10125 175 PDLE 178
                              *998 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 3
                   AAA_31 102 kkeeilkellekvkdeYDyiii 123
                              ++   +k++++++k ++  +++
  PHY93_10125|PHY93_10125 189 SRSGLHKQVVNEIKTHFGDVVF 210
                              4555667778888877744444 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   84.2   0.0   4.4e-27   7.9e-24       1     128 []       5     230 ..       5     230 .. 0.96

  Alignments for each domain:
  == domain 1  score: 84.2 bits;  conditional E-value: 4.4e-27
                              EEEEESSTTSSHHHHHHHHHHHHHHTT--EEEEEEEESSCCCCHHTTEB-HHHH................................ CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx................................ RF
                     CbiA   1 iaiastkGGvGKTtlaanLaralarrglrVllvDaDpqannlaileglendiep................................ 54 
                              ia++++kGGvGKTt ++nLa++la +++++ll+D+Dpq+n + ++  ++ + +                                 
  PHY93_10125|PHY93_10125   5 IAMMNQKGGVGKTTSSVNLAACLAVAEKKTLLIDLDPQGNGSISIGLSKDKFAGrniyhaligqislkeaiyeselpcfdicpsdn 90 
                              7899************************************998766666666667789999************************* PP

                              ...................................................................CCHCCCHHHHHHCHCHHHH CS
                              ...................................................................xxxxxxxxxxxxxxxxxxx RF
                     CbiA  55 ...................................................................dlkrllellealgkkkall 73 
                                                                                                 +l +ll++++ ++ ++++ 
  PHY93_10125|PHY93_10125  91 nlsgaeielvslfaresklknafkaiekdydyiiidcppslglltvnalnaahsyivpmqteflameGLAQLLNTVKLIRSSLNPD 176
                              ****************************************************************9999999999999999999999 PP

                              ..EEEEEEEEESS...-TTCHHHHHHHHHHCTS-EEE.EEE--CCHCCCCHHTS-H CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxx RF
                     CbiA  74 lkiagvvlnrvdgeneetllkealeelkqrygvpvlg.viprdeavaeapargepv 128
                              l++ g++l+++d++  + l+k+ + e+k ++g+ v++ +ipr++++ae+p+ g+p+
  PHY93_10125|PHY93_10125 177 LELDGILLTMFDSR--SGLHKQVVNEIKTHFGDVVFNtIIPRNVKLAECPSFGKPI 230
                              **************..************999**********************997 PP

>> CBP_BcsQ  Cellulose biosynthesis protein BcsQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.8   0.0   1.1e-14     2e-11       2     231 ..       3     248 ..       2     251 .. 0.81

  Alignments for each domain:
  == domain 1  score: 43.8 bits;  conditional E-value: 1.1e-14
                 CBP_BcsQ   2 kvlalqGvRGGvGttsllaaLawalhelgesvlviDlspdnlLrlhFnvdieq..regwaraeldgapwrqaaley.apgldllPf 84 
                              k++a+   +GGvG+t+ ++ La  l   +++ l+iDl p+    ++  +  ++   +   +a++ +  +++a++e  +p +d+ P 
  PHY93_10125|PHY93_10125   3 KIIAMMNQKGGVGKTTSSVNLAACLAVAEKKTLLIDLDPQGNGSISIGLSKDKfaGRNIYHALIGQISLKEAIYESeLPCFDICPS 88 
                              57899999*******************************9877777666666511556789*************973699*****9 PP

                 CBP_BcsQ  85 GelnveekenlqqlaekaeallaalkelkeqyrwillDlpagasaltrellaladlvllvvepdanc.........hvrLhqqalp 161
                               +  +  + +l +l +++++l++a+k+++++y++i++D+p     lt ++l+ a + +  ++++  +          v+L + +l+
  PHY93_10125|PHY93_10125  89 DNNLSGAEIELVSLFARESKLKNAFKAIEKDYDYIIIDCPPSLGLLTVNALNAAHSYIVPMQTEFLAmeglaqllnTVKLIRSSLN 174
                              876666666688999999**********************************9999999898886541111111113555555554 PP

                 CBP_BcsQ 162 aa...ellLiNqfeaasqlqqDllqlWlqslrrll.PlvihrDealaEalaakqPlgeyrpdslaaeevktLan 231
                                   + +L+  f+  s l++ ++   ++++ +++   +i r   laE+    +P+  y  +s  +e+   La+
  PHY93_10125|PHY93_10125 175 PDlelDGILLTMFDSRSGLHKQVVNEIKTHFGDVVfNTIIPRNVKLAECPSFGKPIILYDIESKGSEAYLALAK 248
                              33222569***************999998886655166899**********************99999999986 PP

>> MipZ  ATPase MipZ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.1     1e-06    0.0018       2      39 ..       4      41 ..       3      48 .. 0.93
   2 !   23.0   0.0   2.3e-08   4.1e-05      86     153 ..     106     172 ..      78     179 .. 0.85

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 1e-06
                             EEEE--SSTTSSHHHHHHHHHHHHHTTT--EEEEE--T CS
                     MipZ  2 vivlgnekGGsGksttavhvavaLlkkGarvaaidldl 39
                             +i + n+kGG Gk+t +v +a +L+ + ++   idld 
  PHY93_10125|PHY93_10125  4 IIAMMNQKGGVGKTTSSVNLAACLAVAEKKTLLIDLDP 41
                             79999*******************************96 PP

  == domain 2  score: 23.0 bits;  conditional E-value: 2.3e-08
                              HHHHHHHHHHHHHH-SEEEEE--SS--HHHHHHHHT-SEEEEEEESSHHHHCCCEEE-SSS--EEEE- CS
                     MipZ  86 vaeleelvadleaeldfividtPGsdsalsrlahsladtlvtPlndsfvdfdllgkvdpetlkvkrps 153
                               ++l+++++++e+++d+i+id+P s   l+  a + a + + P+   f+ ++ l+++  +t+k+ r s
  PHY93_10125|PHY93_10125 106 ESKLKNAFKAIEKDYDYIIIDCPPSLGLLTVNALNAAHSYIVPMQTEFLAMEGLAQLL-NTVKLIRSS 172
                              3589***********************************************9999984.566666655 PP

>> ParA  NUBPL iron-transfer P-loop NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.5   0.3   2.7e-10   4.8e-07       3      45 ..       2      44 ..       1      62 [. 0.91
   2 !    5.9   0.0    0.0042       7.6     110     124 ..     118     132 ..     106     173 .. 0.81
   3 ?    0.3   0.0      0.22     4e+02     203     245 ..     208     250 ..     179     251 .. 0.81

  Alignments for each domain:
  == domain 1  score: 29.5 bits;  conditional E-value: 2.7e-10
                     ParA  3 kkviavlSgKGGVGKStvavnlAlaLakkglkvgllDaDiyGp 45
                              k+ia++  KGGVGK+t +vnlA+ La  ++k+ l+D+D  G 
  PHY93_10125|PHY93_10125  2 AKIIAMMNQKGGVGKTTSSVNLAACLAVAEKKTLLIDLDPQGN 44
                             589************************************8885 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.0042
                     ParA 110 gelDyLiiDlPPGtg 124
                              ++ Dy+iiD+PP  g
  PHY93_10125|PHY93_10125 118 KDYDYIIIDCPPSLG 132
                              578*********987 PP

  == domain 3  score: 0.3 bits;  conditional E-value: 0.22
                     ParA 203 vpllgeipldpeireasdegkplvlkepeseaakaleeiaekv 245
                              v + + ip + +++e+   gkp++l + es+ ++a+ ++a+++
  PHY93_10125|PHY93_10125 208 VVFNTIIPRNVKLAECPSFGKPIILYDIESKGSEAYLALAKEL 250
                              45556689999999**********************9999987 PP

>> ArsA_ATPase  Anion-transporting ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.6   0.2   2.1e-10   3.8e-07       5      42 ..       7      44 ..       2      61 .. 0.89
   2 !    6.2   0.0    0.0028       5.1     121     209 ..     114     205 ..      95     238 .. 0.58

  Alignments for each domain:
  == domain 1  score: 29.6 bits;  conditional E-value: 2.1e-10
                             EEEESTTSSHHHHHHHHHHHHHHTTS-EEEEE-STTTH CS
              ArsA_ATPase  5 lvgGKGGVGKttvsaatavklsekgkkvllistDPAhs 42
                             ++  KGGVGKtt+s  +a+ l+  +kk+lli +DP  +
  PHY93_10125|PHY93_10125  7 MMNQKGGVGKTTSSVNLAACLAVAEKKTLLIDLDPQGN 44
                             7889*******************************765 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.0028
                              H..CSSSSEEEEESBSCCHTCGGGGHHHHHHHHHHHHHHHHH...HHHHHHHHHCCCSHCHHHHHH...HHHHHHHHHHHHHHHHH CS
              ArsA_ATPase 121 k..eeeydvvvlDtaPTGhtlrllslpevleklleklvklke...klsplakqlvkllglggvsie...ealeeleetkeeikkve 198
                              k  e++yd++++D +P   +l+ll + + l++    +v ++    +++ la+ l + ++l+ +s++   e    l +++++   ++
  PHY93_10125|PHY93_10125 114 KaiEKDYDYIIIDCPP---SLGLLTV-NALNAAHSYIVPMQTeflAMEGLAQLL-NTVKLIRSSLNpdlELDGILLTMFDSRSGLH 194
                              255899*********9...5777654.344444444544444222333333333.4455555555534333334555555555555 PP

                              HHHTSTTTEEE CS
              ArsA_ATPase 199 eiltdpertsf 209
                              +++ ++ +t f
  PHY93_10125|PHY93_10125 195 KQVVNEIKTHF 205
                              66555555555 PP

>> Fer4_NifH  4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.4   0.1   1.6e-07   0.00028       6      41 ..       9      44 ..       3      66 .. 0.88
   2 !    5.0   0.0     0.008        14     141     246 ..     141     252 ..     108     258 .. 0.77

  Alignments for each domain:
  == domain 1  score: 20.4 bits;  conditional E-value: 1.6e-07
                Fer4_NifH  6 yGkGGiGksttsqnlsaalaemgkkvlivGCDPkaD 41
                               kGG+Gk+t+s nl+a la   kk l++  DP+ +
  PHY93_10125|PHY93_10125  9 NQKGGVGKTTSSVNLAACLAVAEKKTLLIDLDPQGN 44
                             469******************************865 PP

  == domain 2  score: 5.0 bits;  conditional E-value: 0.008
                Fer4_NifH 141 aqevyiv.tsgelmalyaanniakgiekyaksgg..vrlgGliinsrkvddereliekfaeelgtk....vl.evvPrdeivrkae 218
                              a + yiv +++e+ a+    ++ ++++  + s +  ++l G++      d++++l ++ ++e++t+    v+  ++Pr+ ++ +  
  PHY93_10125|PHY93_10125 141 AAHSYIVpMQTEFLAMEGLAQLLNTVKLIRSSLNpdLELDGILLT--MFDSRSGLHKQVVNEIKTHfgdvVFnTIIPRNVKLAECP 224
                              44444443788999999999999999887776544599****998..468888888888888877622213324679999999998 PP

                Fer4_NifH 219 lrkktvieyapeseqakeyrelarkile 246
                                 k +i y+ es+ ++ y +la++++ 
  PHY93_10125|PHY93_10125 225 SFGKPIILYDIESKGSEAYLALAKELIL 252
                              99999******************99765 PP

>> SRP54  SRP54-type protein, GTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.8   0.1   7.5e-05      0.13       5      38 ..       7      40 ..       3      48 .. 0.84
   2 ?    3.3   0.0      0.03        54      79     154 ..     115     191 ..     104     205 .. 0.63

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 7.5e-05
                             EEEESTTSSHHHHHHHHHHHHHHTTS-EEEEEES CS
                    SRP54  5 llvGlqGaGKTttlaKLaallkkegkkvllvaaD 38
                             ++    G+GKTt+   Laa l   +kk+ll+ +D
  PHY93_10125|PHY93_10125  7 MMNQKGGVGKTTSSVNLAACLAVAEKKTLLIDLD 40
                             5555569***********************9988 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.03
                              HHHTTSSEEEEEE--SSTTHHHHHHHHHHHHHHHSSSEE.EEEEETTBHT.HHHHHHH.HHHHHSSCSEEEEESTTSSS CS
                    SRP54  79 akeekidvvlvDTaGrlqndkelmeelkkikkvvkpdev.llvldattgq.eavkqak.aFkeavgitgviltklDgda 154
                              a e+++d++++D    l      ++ l++ ++ + p ++ +l ++++++  ++vk ++ + +  ++++g+ lt +D+++
  PHY93_10125|PHY93_10125 115 AIEKDYDYIIIDCPPSLGL--LTVNALNAAHSYIVPMQTeFLAMEGLAQLlNTVKLIRsSLNPDLELDGILLTMFDSRS 191
                              5566788888887655443..3455566666666554432666666665325556444145778899999999999865 PP

>> VirC1  VirC1 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.0   0.4   1.3e-05     0.024       2      40 ..       3      41 ..       2     170 .. 0.67

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.3e-05
                    VirC1  2 klitfcslkGGaGkttalmglcsalasdgkrvalfeade 40
                             k+i++   kGG Gktt+ + l + la  +k+  l + d 
  PHY93_10125|PHY93_10125  3 KIIAMMNQKGGVGKTTSSVNLAACLAVAEKKTLLIDLDP 41
                             67899999**********999999998888888887764 PP

>> CLP1_P  mRNA cleavage and polyadenylation factor CLP1 P-loop
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.1   0.00024      0.43       4      38 ..      13      48 ..      11      53 .. 0.86

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00024
                   CLP1_P  4 dsGKSTlarlLlNyalrkgrkpvyvDlDv.Gqseis 38
                              +GK+T + +L+  ++ +++k++++DlD+ G ++is
  PHY93_10125|PHY93_10125 13 GVGKTTSSVNLAACLAVAEKKTLLIDLDPqGNGSIS 48
                             59**************************83555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (304 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       428  (0.0238719); expected 358.6 (0.02)
Passed bias filter:                      409  (0.0228122); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.36
# Mc/sec: 2522.87
//
Query:       PHY93_10130|PHY93_10130  [L=210]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.4e-23   81.3   0.0    6.8e-23   80.9   0.0    1.1  1  GidB             rRNA small subunit methyltransferase G
    4.1e-06   26.4   0.0      7e-06   25.6   0.0    1.4  1  Methyltransf_4   Putative methyltransferase
    1.7e-05   24.7   0.0    4.8e-05   23.2   0.0    1.6  1  Methyltransf_31  Methyltransferase domain
  ------ inclusion threshold ------
      0.012   16.3   0.0      0.023   15.4   0.0    1.5  1  Methyltransf_25  Methyltransferase domain
      0.064   13.1   0.6       0.17   11.7   0.6    1.7  1  WIYLD            Ubiquitin-binding WIYLD domain
      0.073   13.0   0.0      0.085   12.8   0.0    1.2  1  Methyltransf_32  Methyltransferase domain
      0.091   13.5   0.0       0.17   12.6   0.0    1.4  1  Methyltransf_12  Methyltransferase domain
       0.16   12.3   1.9        1.2    9.5   0.2    2.5  2  Mnd1             Mnd1 HTH domain
       0.18   12.5   0.0        0.3   11.8   0.0    1.3  1  Methyltransf_11  Methyltransferase domain


Domain annotation for each model (and alignments):
>> GidB  rRNA small subunit methyltransferase G
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   80.9   0.0   3.4e-26   6.8e-23       6     171 ..       6     177 ..       2     188 .. 0.85

  Alignments for each domain:
  == domain 1  score: 80.9 bits;  conditional E-value: 3.4e-26
                              HHHHHHHHHHHHHS---S--SHHHHHHHCHHHHHHHGGCS-CCC-.......EEEETSTTTTTHHHHHHH-TTSEEEEEES-HHHH CS
                     GidB   6 kkYlelllkwNkkinLtsikepeellerhlldslsvlellkekrd.....k.viDvGsGaGlPGipLaiarpelkltLleslekki 85 
                              kkYl+ll    + inLt+i+ pee+++++++ds+      k  ++     k ++DvG G+G+P +pLa+++p++k++  +++ kk+
  PHY93_10130|PHY93_10130   6 KKYLDLLTGEFAGINLTKIQSPEEFYQKQIIDSILPQTESKVFNNalevtKlLVDVGFGGGFPILPLAFINPDKKFIGFDARAKKA 91 
                              689*******************************9988777776655564489********************************* PP

                              HHHHHHHHHCT-SSEEEEES-CCCTTTTT-EEE.EEEC-SSSHHHHHHHHCCCEEEEEEEEEEESS..--HHHHHCC.HCCCCCCC CS
                     GidB  86 aFLeevkeelklenveivearaeekqeeekydv.vtsRAlaslnelteillkllkegglilalKGk..saedeleek.ekalqlsk 167
                              +  +++ + l+l+n +  ++r+e      ++dv +t+ A+++++++  +l+   ++  +++++KG   ++++e+ee  ek+++l +
  PHY93_10130|PHY93_10130  92 QAVQKIANSLGLTNAKLKHQRLEV--IDFDMDVvITFKAVGKVSDYLPLLRT--NKTLYVFFYKGPnfYELEEIEELlEKDWELIE 173
                              ************************..88888862689********9998888..888999*****733467777764255555555 PP

                              EEEE CS
                     GidB 168 vevl 171
                               + +
  PHY93_10130|PHY93_10130 174 EKSY 177
                              5555 PP

>> Methyltransf_4  Putative methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.6   0.0   3.5e-09     7e-06       3      55 ..      56     108 ..      54     121 .. 0.91

  Alignments for each domain:
  == domain 1  score: 25.6 bits;  conditional E-value: 3.5e-09
                              EEEEEET-TTSHHHHHHHHHSTTSEEEEEES-HHHHHHHHHHHHHCTTSSEEE CS
           Methyltransf_4   3 pvvleiGcGkGeflvalAkknPdknflGiEirvkvvakvlkkiealelkNlri 55 
                              ++++++G+G G  ++ lA  nPdk+f+G + r k  ++v k ++ l+l+N ++
  PHY93_10130|PHY93_10130  56 KLLVDVGFGGGFPILPLAFINPDKKFIGFDARAKKAQAVQKIANSLGLTNAKL 108
                              679**************************************9999*****876 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.2   0.0   2.4e-08   4.8e-05       7      90 ..      58     135 ..      53     176 .. 0.80

  Alignments for each domain:
  == domain 1  score: 23.2 bits;  conditional E-value: 2.4e-08
          Methyltransf_31   7 vlDlGCGtGeltfelaeelgpkaevvGiDiseeaielArenaqklgldnveFeqgdieeleklledekfDlilsnevlnaladp 90 
                              ++D+G G G+ ++ la  ++p+++++G+D  ++  +  +++a +lgl+n++++++  e ++  +     D+++++ ++  ++d 
  PHY93_10130|PHY93_10130  58 LVDVGFGGGFPILPLA-FINPDKKFIGFDARAKKAQAVQKIANSLGLTNAKLKHQRLEVID--FD---MDVVITFKAVGKVSDY 135
                              68**************.9***************************************9999..66...999*999887444444 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.4   0.0   1.1e-05     0.023       2      73 ..      59     128 ..      58     142 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 1.1e-05
                              EEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTT.TEEEEESBCCGBSSSTTTEEEEEEEST CS
          Methyltransf_25   2 LdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeegl.nvefvqgdaedlpfedgsfDlvvssga 73 
                              +d+G G G  +l la   +++k++g+D  ++  +a+++ a++ gl n+++ ++ +e ++f+   +D+v+ + a
  PHY93_10130|PHY93_10130  59 VDVGFGGGFPILPLAFINPDKKFIGFDARAKKAQAVQKIANSLGLtNAKLKHQRLEVIDFD---MDVVITFKA 128
                              69*************76569********************999989999999999998887...588887554 PP

>> WIYLD  Ubiquitin-binding WIYLD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.6   8.6e-05      0.17      35      50 ..     164     179 ..     158     179 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 8.6e-05
                    WIYLD  35 vYgknWeliEednYrv 50 
                              + +k+WeliEe++Y v
  PHY93_10130|PHY93_10130 164 LLEKDWELIEEKSYDV 179
                              56799*********87 PP

>> Methyltransf_32  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   4.3e-05     0.085      24      92 ..      53     118 ..      30     170 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 4.3e-05
          Methyltransf_32  24 sgaltvvDvGaGkgYLsfvlalkekeyklkvvgidakeelvekaekraeklgkkfnkrlsfaelsieea 92 
                              +  + +vDvG G g+    la+   +   k++g+da+++ +++ +k+a+ lg   n++l+ + l++ + 
  PHY93_10130|PHY93_10130  53 EVTKLLVDVGFGGGFPILPLAF--INPDKKFIGFDARAKKAQAVQKIANSLG-LTNAKLKHQRLEVIDF 118
                              445779*********9999999..55678***********************.6678888887776655 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   8.5e-05      0.17       1      77 [.      59     130 ..      59     145 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 8.5e-05
          Methyltransf_12   1 LeiGcGtGsllralleklpdieytgvDispsaiedakeklakrennnnnnvelealdlldldggssfDlvvasnvlh 77 
                              +++G G G  + +l+  +pd++++g D  ++   +a +k+a   ++ n++++ + l+++d       D+v+ + ++ 
  PHY93_10130|PHY93_10130  59 VDVGFGGGFPILPLAFINPDKKFIGFDARAKKA-QAVQKIANSLGLTNAKLKHQRLEVIDF----DMDVVITFKAVG 130
                              589999999999999999***************.************************988....799999886655 PP

>> Mnd1  Mnd1 HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   0.1      0.18   3.5e+02       5      40 ..      24      59 ..      21      62 .. 0.71
   2 ?    9.5   0.2   0.00059       1.2       4      24 ..     148     168 ..     145     177 .. 0.84

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.18
                     Mnd1  5 fqeskefytlKeleklapk.ekgivsqsVkdvlqsLv 40
                             +q+ +efy+ + + +++p  e + v ++  +v + Lv
  PHY93_10130|PHY93_10130 24 IQSPEEFYQKQIIDSILPQtESK-VFNNALEVTKLLV 59
                             578899*****999999995555.4444556666666 PP

  == domain 2  score: 9.5 bits;  conditional E-value: 0.00059
                     Mnd1   4 ifqeskefytlKeleklapke 24 
                              +f++ ++fy+l e+e l++k 
  PHY93_10130|PHY93_10130 148 FFYKGPNFYELEEIEELLEKD 168
                              999***************994 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   0.00015       0.3       1      76 [.      59     134 ..      59     143 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00015
                              EEET-TTSHHHHHHH.HTT..SEEEEEES-HHHHHHHHHHCCHHT-.EEEETTEECCCTSS-TT-EEEEEEES-CCC-CC CS
          Methyltransf_11   1 LdvGcGtGrlaeala.krg..arvvgvDlskemlklakekaseegl.kvefvvadaeklpfednsfDlvvssevlhhved 76 
                              +dvG G+G    +la      ++ +g+D  ++  +++++ a+  gl +    +   ++l + d  +D+v+ + ++  v d
  PHY93_10130|PHY93_10130  59 VDVGFGGGFPILPLAfI-NpdKKFIGFDARAKKAQAVQKIANSLGLtN---AKLKHQRLEVIDFDMDVVITFKAVGKVSD 134
                              59*************51.356***********9999999888888544...66666677788888899999988877755 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (210 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       669  (0.0373138); expected 358.6 (0.02)
Passed bias filter:                      544  (0.0303419); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.42
# Mc/sec: 1516.72
//
Query:       PHY93_10135|PHY93_10135  [L=249]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
        5.9    7.8   7.2         45    5.0   0.2    3.5  3  Tnp_zf-ribbon_2  DDE_Tnp_1-like zinc-ribbon


Domain annotation for each model (and alignments):
>> Tnp_zf-ribbon_2  DDE_Tnp_1-like zinc-ribbon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.0   0.2    0.0025        45       8      20 ..      72      91 ..      68      92 .. 0.73
   2 ?    3.1   0.3    0.0096   1.7e+02      15      24 ..     170     179 ..     144     181 .. 0.85
   3 ?    1.8   0.1     0.024   4.3e+02       9      17 ..     233     241 ..     229     245 .. 0.88

  Alignments for each domain:
  == domain 1  score: 5.0 bits;  conditional E-value: 0.0025
          Tnp_zf-ribbon_2  8 k.......kkikkeTriiCq 20
                                      ki k Tr+iC+
  PHY93_10135|PHY93_10135 72 XrqyylahEKIXKGTRFICK 91
                             444455568999*******6 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.0096
          Tnp_zf-ribbon_2  15 TriiCqeCdv 24 
                              + ++C+ C v
  PHY93_10135|PHY93_10135 170 SSYSCNLCEV 179
                              679*****87 PP

  == domain 3  score: 1.8 bits;  conditional E-value: 0.024
          Tnp_zf-ribbon_2   9 kkikkeTri 17 
                              k+++++Tr+
  PHY93_10135|PHY93_10135 233 KNRRNKTRY 241
                              899*****8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (249 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       253  (0.0141112); expected 358.6 (0.02)
Passed bias filter:                      151  (0.00842211); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.20s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 1910.64
//
Query:       PHY93_10140|PHY93_10140  [L=377]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
     0.0094   16.0   0.2       0.02   14.9   0.2    1.6  1  HisKA      His Kinase A (phospho-acceptor) domain
  ------ inclusion threshold ------
      0.058   13.9   0.1       0.13   12.8   0.1    1.6  1  HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like A


Domain annotation for each model (and alignments):
>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.2   2.2e-06      0.02       2      59 ..     220     279 ..     219     286 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 2.2e-06
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHC..T-HSSCHHHHHHHHHHHHHHHHHHHHH..H CS
                    HisKA   2 lgrflagvaHELrtPLsailgnaeaLkregklteelkeyletiesearrldhlvedl..L 59 
                              ++++l  ++H++ +  s+i ++++   ++g+ t e +++l++++++++rl+++++++  L
  PHY93_10140|PHY93_10140 220 KSQLLRILSHDISNQASVIDFYLKKVLNKGEITTEDQRLLNIAKNSSNRLSDILKNVqnL 279
                              899*********************9877777889999******************99444 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.1   1.4e-05      0.13       9      47 ..     339     377 .]     331     377 .] 0.76

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 1.4e-05
                              HHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSS CS
                HATPase_c   9 iisnlvdNavkfatkageieveikaseddlvisveDnGi 47 
                              ++ nl++Na+kf+++++ i +e k  +d++ i++ D Gi
  PHY93_10140|PHY93_10140 339 VLGNLISNAIKFSKEGSLIILEAKMFKDKVLITIADQGI 377
                              899*********55555554455544489*******997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (377 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       761  (0.0424452); expected 358.6 (0.02)
Passed bias filter:                      400  (0.0223102); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.21s 00:00:00.71 Elapsed: 00:00:00.38
# Mc/sec: 2985.59
//
Query:       PHY93_10145|PHY93_10145  [L=327]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.2e-17   63.9   0.0    2.1e-17   63.0   0.0    1.5  1  ACP_syn_III_C  3-Oxoacyl-[acyl-carrier-protein (ACP)] synthas
    3.6e-05   23.5   0.0    8.4e-05   22.3   0.0    1.7  1  ACP_syn_III    3-Oxoacyl-[acyl-carrier-protein (ACP)] synthas
  ------ inclusion threshold ------
      0.099   12.7   0.0       0.19   11.9   0.0    1.4  1  RBD            Raf-like Ras-binding domain
       0.17   11.9   0.0        2.1    8.4   0.0    2.2  2  FERM_N         FERM N-terminal domain


Domain annotation for each model (and alignments):
>> ACP_syn_III_C  3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.0   0.0   4.8e-21   2.1e-17       2      80 ..     239     317 ..     238     327 .] 0.92

  Alignments for each domain:
  == domain 1  score: 63.0 bits;  conditional E-value: 4.8e-21
                              HHTT--GGG-SEEEE-SSSHHHHHHHHHHHT--GGGB--THHHH-B-GGGHHHHHHHHHHHTTSS-TT-EEEEEEEETT CS
            ACP_syn_III_C   2 ekagltpedidalvphqanlriidavakklglpeekvvvnldeyGntsaasiplaLdeaveegklkpgdlvllvgfGaG 80 
                              ++ +++ +did+l+ +q n ++++++++ + lp+ek ++++d+y+n++ a ip+ L++ ++++++k+gdl+ l+gf   
  PHY93_10145|PHY93_10145 239 DNINIKFSDIDYLITNQPNTNFLRNWREAISLPQEKQLQTFDKYANLFGAAIPVNLATFMKNNTIKRGDLICLAGFSHA 317
                              5668999********************************************************************9765 PP

>> ACP_syn_III  3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.3   0.0   1.9e-08   8.4e-05       1      77 [.     105     184 ..     105     187 .. 0.82

  Alignments for each domain:
  == domain 1  score: 22.3 bits;  conditional E-value: 1.9e-08
                              EEEE-.GGGHHHHHHHHHHHHHHTTS-SEEEEEEEEEGGG.CS-TTT...HHHHTTB-EEEEEEEEEEESSSSCEEEEEEEE CS
              ACP_syn_III   1 fDlna.aCsgfvyalsvAdaliesgaakrvLvigaetlsk.ilDwkd...rstavlfGDGAgAvvleaseeegarildselg 77 
                              fD+ + +C +f+y  ++++ ++ + +ak+++++ a+t    i+ ++d    ++a + GDG + + ++++ee+   +l++e++
  PHY93_10145|PHY93_10145 105 FDIHNtGCISFLYLTDLVHTYMVAKNAKHAIICIAQTAGGrIFGQEDtrqMAQAAIPGDGFAVAYVTNNEERP--FLTFEFE 184
                              6765549*****************************9987588777653366777*****9999999987555..8888776 PP

>> RBD  Raf-like Ras-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   4.2e-05      0.19       9      56 ..     217     266 ..     214     277 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 4.2e-05
                      RBD   9 gqrtvvevkpgetvrdaLekalkkRglnpsacaVylkgs..ekepldwdt 56 
                              ++++++ ++ ++tv  +++k++   ++++s+++    ++  ++    w++
  PHY93_10145|PHY93_10145 217 NRSAMIIARGNKTVPKMIKKVCDNINIKFSDIDYLITNQpnTNFLRNWRE 266
                              67889999**********************99866665564443444444 PP

>> FERM_N  FERM N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.0      0.11   4.9e+02      30      39 ..      14      23 ..      11      35 .. 0.89
   2 ?    8.4   0.0   0.00046       2.1      15      34 ..     226     245 ..     217     265 .. 0.84

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.11
                             HT-S-GGGEE CS
                   FERM_N 30 igltehdyFg 39
                             +++ ++dyFg
  PHY93_10145|PHY93_10145 14 LNIINNDYFG 23
                             79*******9 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.00046
                              TTSSHHHHHHHHHHHHT-S- CS
                   FERM_N  15 dsktvtdlLdtVcariglte 34 
                               +ktv  ++ +Vc +i+++ 
  PHY93_10145|PHY93_10145 226 GNKTVPKMIKKVCDNINIKF 245
                              589***************85 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (327 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       586  (0.0326845); expected 358.6 (0.02)
Passed bias filter:                      517  (0.028836); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.55u 0.21s 00:00:00.76 Elapsed: 00:00:00.42
# Mc/sec: 2356.37
//
Query:       PHY93_21335|PHY93_21335  [L=202]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      5e-12   46.6   0.0    2.9e-11   44.1   0.0    2.0  2  Fic       Fic/DOC family
    0.00016   21.9   0.5     0.0026   18.0   0.3    2.3  2  DsrD      Dissimilatory sulfite reductase D (DsrD)
  ------ inclusion threshold ------
      0.049   13.2   0.0      0.071   12.7   0.0    1.2  1  AA_synth  Amino acid synthesis


Domain annotation for each model (and alignments):
>> Fic  Fic/DOC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.1   0.0   4.9e-15   2.9e-11      34      97 .]       5      71 ..       2      71 .. 0.93
   2 ?   -0.3   0.0      0.36   2.1e+03       7      52 ..     124     164 ..     115     181 .. 0.59

  Alignments for each domain:
  == domain 1  score: 44.1 bits;  conditional E-value: 4.9e-15
                             EEEE---SCCCHHHHHHHHHHHHC...HHT-S-HHHHHHHHHHHHHHH--SSS-HHHHHHHHHHHHH CS
                      Fic 34 klesalappeevpaeleelleyln...elekeeplekaaalhyefekiHPFaDGNgRtarlllnllL 97
                             k+++   +pe +p+++++l+ +++   +  k++ l+ ++ +++ f + HPF DGNgR++rll++llL
  PHY93_21335|PHY93_21335  5 KIRFKSVSPELTPKYIKNLCISYEeyiRDIKIPQLIVISSFIFDFLCVHPFLDGNGRVSRLLTHLLL 71
                             67888899****************988888899*******************************997 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.36
                              HHHHHCHS-S------TS--SS-ST..EEEE---SCCCHHHHHHHH CS
                      Fic   7 llelhrlllqdigeeagefrdeevsegklesalappeevpaeleel 52 
                              ++e + +l+++i++   ++r++++   ++  ++ + ++++++l+e+
  PHY93_21335|PHY93_21335 124 IREAYTELFKKIEN--SDIRSSKT---EIVKSVISTKKTEFTLAEI 164
                              66666777777763..45555333...3444444444444444443 PP

>> DsrD  Dissimilatory sulfite reductase D (DsrD)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.0     0.064   3.8e+02      23      39 ..       8      24 ..       6      27 .. 0.89
   2 !   18.0   0.3   4.4e-07    0.0026       2      49 ..     144     190 ..     143     197 .. 0.90

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.064
                             HHHH-TTS-HHHHHHHH CS
                     DsrD 23 lekalPdakpreiKkvv 39
                             ++++ P+  p+ iK+++
  PHY93_21335|PHY93_21335  8 FKSVSPELTPKYIKNLC 24
                             67889**********98 PP

  == domain 2  score: 18.0 bits;  conditional E-value: 4.4e-07
                              HHHHHHHHSSCCCSS-EEHHHHHHH-TTS-HHHHHHHHHHHHHTTSEE CS
                     DsrD   2 kkaiveflekkkkKskfYfkDlekalPdakpreiKkvvneLVnegkLe 49 
                              k +iv+ + + k K+ f + ++++ lP++++  i+kv+++L ++ k++
  PHY93_21335|PHY93_21335 144 KTEIVKSVISTK-KTEFTLAEIQRELPSVSNVMIRKVLTQLKKDYKVV 190
                              789999999999.****************************9887766 PP

>> AA_synth  Amino acid synthesis
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   1.2e-05     0.071       8      78 ..     124     195 ..     119     198 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 1.2e-05
                 AA_synth   8 veeilheggkaadkplrkvavaavlknpfagr.yvedlsplmeaaeelgeelaerllealgvaerieaYGKa 78 
                              ++e ++e+ k++++   +   + ++k  +  +  +  l+++ ++++++++ + +++l++l++  ++ +YGK+
  PHY93_21335|PHY93_21335 124 IREAYTELFKKIENSDIRSSKTEIVKSVISTKkTEFTLAEIQRELPSVSNVMIRKVLTQLKKDYKVVSYGKG 195
                              66777777777776666666666667666666577899*********************************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (202 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1071  (0.0597356); expected 358.6 (0.02)
Passed bias filter:                      568  (0.0316805); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.38
# Mc/sec: 1574.04
//
Query:       PHY93_10150|PHY93_10150  [L=207]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.023   15.0   0.0      0.038   14.3   0.0    1.3  1  Polyketide_cyc2  Polyketide cyclase / dehydrase and lipid tra


Domain annotation for each model (and alignments):
>> Polyketide_cyc2  Polyketide cyclase / dehydrase and lipid transport
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0   2.1e-06     0.038       8      43 ..      49      84 ..      46      99 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 2.1e-06
                             EEESS-HHHHHHHHTTTTGGGGT-TTEEEEECSEST CS
          Polyketide_cyc2  8 vviaappekVwalvsdfenwprWhpevarveleggg 43
                             ++i++ppekV+++ s++ ++ +W  ++++ e ++++
  PHY93_10150|PHY93_10150 49 AHINCPPEKVFEYMSNPYSLLEWTYSMRKFEKTQNE 84
                             79*********************9999988877744 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (207 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       418  (0.0233142); expected 358.6 (0.02)
Passed bias filter:                      380  (0.0211947); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.20s 00:00:00.60 Elapsed: 00:00:00.35
# Mc/sec: 1770.39
//
Query:       PHY93_10155|PHY93_10155  [L=543]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.1e-39  133.9   0.0    8.9e-39  132.8   0.0    1.6  1  TPP_enzyme_N  Thiamine pyrophosphate enzyme, N-terminal TPP b
    3.3e-22   78.9   1.1    7.3e-20   71.3   0.0    3.1  4  TPP_enzyme_C  Thiamine pyrophosphate enzyme, C-terminal TPP b
    3.5e-17   62.4   0.0    8.2e-17   61.2   0.0    1.6  1  TPP_enzyme_M  Thiamine pyrophosphate enzyme, central domain
    3.1e-06   27.1   0.1    1.1e-05   25.3   0.0    1.9  2  POR_N         Pyruvate flavodoxin/ferredoxin oxidoreductase, 
  ------ inclusion threshold ------
      0.099   10.9   0.0        9.2    4.4   0.1    2.2  2  Gp58          gp58-like protein


Domain annotation for each model (and alignments):
>> TPP_enzyme_N  Thiamine pyrophosphate enzyme, N-terminal TPP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  132.8   0.0   2.5e-42   8.9e-39       2     169 ..       2     174 ..       1     176 [. 0.96

  Alignments for each domain:
  == domain 1  score: 132.8 bits;  conditional E-value: 2.5e-42
                              EHHHHHHHHHHHCT--EEEE---CCCHHHHCCHHCT.TSEEEE-SSHHHHHHHHHHHHHHHTS-EEEEE-CHHHHHHCHHHHHHHH CS
             TPP_enzyme_N   2 tvaealvraLkalgvehvfgvpGsrilplldalseeqgirvvlarhEqgaafaAdgyaratgkpgvvlvtsgpGatnaltalaeAk 87 
                              +v++++ ++L+     hvfg  G +i +l+ ++ + +   ++la +E +a+ +A g + at+k+ vv++tsgpG++n+++ laeA+
  PHY93_10155|PHY93_10155   2 KVSDYISEYLAYKELSHVFGMSGANIEDLYTSIYKKNTTSIILAKNEYNATTMAIGCYLATRKISVVMTTSGPGVLNTIPVLAEAY 87 
                              799*********************************************************************************** PP

                              HHT--EEEEEEE--CCCHHS..TC--T......-CCHHHCCCSSEEEE-SSGGGHHHHHHHHHHHHHSSS--EEEEEEEHHHCC-E CS
             TPP_enzyme_N  88 vdriPllvlsgdrptslrgqgvlqqel......dqlalfrpvtkyaervtspeelpealrrAirtalsgrpgPvylelpkdvllee 167
                              +++iPl+++sg +p++++g g++q++       + l++++++t y+ ++++ +++peal++A++ a  + + P+++ +pk+++++e
  PHY93_10155|PHY93_10155  88 TSKIPLVLISGIVPEAMEGLGAFQDTSglggtlNVLEMLKQCTCYQKKIQDEKSIPEALDKAFELA-IKHKKPAVILIPKNIFNKE 172
                              *******************7777765577777799999****************************.9999**************9 PP

                              EE CS
             TPP_enzyme_N 168 vd 169
                              ++
  PHY93_10155|PHY93_10155 173 IE 174
                              97 PP

>> TPP_enzyme_C  Thiamine pyrophosphate enzyme, C-terminal TPP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.1      0.55     2e+03      61      88 ..      26      53 ..      21      88 .. 0.72
   2 ?   -0.9   0.0      0.36   1.3e+03      34      78 ..      52      96 ..      50      98 .. 0.75
   3 !    4.5   0.0    0.0076        27     128     151 ..     139     162 ..     101     164 .. 0.63
   4 !   71.3   0.0     2e-23   7.3e-20       1     152 [.     381     528 ..     381     529 .. 0.86

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.55
                             TGGGHHHHHHTT-SEEEEEEE-SBCCCH CS
             TPP_enzyme_C 61 ilqelatavrrnlpitvvvlnNegygmt 88
                             ++++l t+++++    +++  Ne+ + t
  PHY93_10155|PHY93_10155 26 NIEDLYTSIYKKNTTSIILAKNEYNATT 53
                             5677777777777777777777765544 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.36
                             HHHHHHHHHHSTTSEEEEEEEHHHHHHTGGGHHHHHHTT-SEEEE CS
             TPP_enzyme_C 34 lpaAiGaklakpdrevvaivGDGgflmilqelatavrrnlpitvv 78
                               +AiG  la ++  vv ++   g l +++ la a   ++p++++
  PHY93_10155|PHY93_10155 52 TTMAIGCYLATRKISVVMTTSGPGVLNTIPVLAEAYTSKIPLVLI 96
                             568999999976666666665556677799999999999998876 PP

  == domain 3  score: 4.5 bits;  conditional E-value: 0.0076
                              SSH.HHHHHHHHHHHHCSSSEEEE CS
             TPP_enzyme_C 128 ekadveeleealkealekkgpali 151
                              ek+ +e l++a++ a+++k+pa+i
  PHY93_10155|PHY93_10155 139 EKSIPEALDKAFELAIKHKKPAVI 162
                              2333455566666666*******9 PP

  == domain 4  score: 71.3 bits;  conditional E-value: 2e-23
                              ESSHHHHHHHHHHTTSSSSEEECETTTS-TTTHHHHHHHHHHHSTTSEEEEEEEHHHHHHTGGGHHHHHHTT-SEEEEEEE-SBCC CS
             TPP_enzyme_C   1 diGcltlwaarllkvkrprsyltsgglgtmGyglpaAiGaklakpdrevvaivGDGgflmilqelatavrrnlpitvvvlnNegyg 86 
                              d+G++   + + l+ +  ++++ s g+g mG++++a+iG ++   +++ +++ GDG+flm + e+ ta ++nlpi+++++nN++ g
  PHY93_10155|PHY93_10155 381 DAGNTGAFVLHNLETRGNGTCYVSLGMGGMGNSIGAGIGGSVS-SNKKSYVFLGDGSFLMYGLEIHTALEYNLPIVFFIFNNNSHG 465
                              67888887777789999999**********************6.577*************************************** PP

                              CHHHHHHHHTCCTTTTSBB.BS----HHHHHHHTTSE..EE.EESSH.HHHHHHHHHHHHCSSSEEEEE CS
             TPP_enzyme_C  87 mtggqqepfggkrksgpagkdlkpvdfaklaealGak..ga.rvekadveeleealkealekkgpalie 152
                              m+   ++ f ++ +        ++++  ++ae++G    g+ + e++d+e l++ l + + +k p+++ 
  PHY93_10155|PHY93_10155 466 MCTTRENVFLDGETG------INNFRESRYAEGIGKIfpGIiSHEVNDLENLKQSLNDIVGRKSPCVVT 528
                              *********986643......5566666666666533235567788899*************9***996 PP

>> TPP_enzyme_M  Thiamine pyrophosphate enzyme, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.2   0.0   2.3e-20   8.2e-17       8     104 ..     205     301 ..     204     334 .. 0.87

  Alignments for each domain:
  == domain 1  score: 61.2 bits;  conditional E-value: 2.3e-20
                              HHH-SSEEEEE-CHHCHTTGHHHHHHHHHHHT-EEEEEGGGTTSS-TTSTTEEEESGGGSCHHHHHHHHH-SEEEEES-SSSTCCC CS
             TPP_enzyme_M   8 lkaakrpvilvGggvarsgaseelrelaeklgiPvvttlmgkgvipedhplylgmlglhgskaanealeeaDlvlalGarfddirt 93 
                              ++++  p+i++G + +  + ++ ++e++ k+ + v+ t++ kg++++++p++lg +g++g++++n  l+ +D+v+++G++fd  + 
  PHY93_10155|PHY93_10155 205 IAEKTPPLIILGEELIHLNNTAFIQEFISKTAASVAVTPNSKGLFDHRNPQFLGLIGIMGHNEVNNYLNLTDFVILIGVNFDLLNR 290
                              6777889****************************************************************************999 PP

                              TTTTTTTTTT- CS
             TPP_enzyme_M  94 tgsepefapea 104
                              +g ++ + +++
  PHY93_10155|PHY93_10155 291 YGIQELMTSKK 301
                              99666555553 PP

>> POR_N  Pyruvate flavodoxin/ferredoxin oxidoreductase, thiamine diP-bdg
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.3   0.0   3.1e-09   1.1e-05      31     164 ..      32     175 ..      21     196 .. 0.76
   2 ?   -2.2   0.1      0.78   2.8e+03      48      94 ..     408     459 ..     407     469 .. 0.68

  Alignments for each domain:
  == domain 1  score: 25.3 bits;  conditional E-value: 3.1e-09
                              CCCTT.EE.EEEE-SSHHHHHHHHHHHHCTT-E..EEEEEECCHHHHCCCCHHHHHHTT--EEEEEEEEE-STTBEEEEE--TTCH CS
                    POR_N  31 akgev.gdvevvqmesEigaisaviGAaaaGar..aaTaTSgqGllLmienlglaageelPvvivvvaRalpstglsirtdqsDlm 113
                               + ++ +++ ++ +++E+ a  ++iG+ +a  +  ++ +TSg+G+l  i+ l  a ++++P+v++      +++gl  ++d s l 
  PHY93_10155|PHY93_10155  32 TSIYKkNTTSIILAKNEYNATTMAIGCYLATRKisVVMTTSGPGVLNTIPVLAEAYTSKIPLVLISGIVPEAMEGLGAFQDTSGLG 117
                              4444447789********************998334457***************************99999999999999998876 PP

                              HHH....S---EEEE-SSHHH...HHHHHHHHHHHHHHCTSEEEEEEEHHHH.HEEEE CS
                    POR_N 114 aar....dtglivlasenvqe...afdlalvAfnlAekvrvPvivlfDgfllshevek 164
                                +      + +  + +++q+   + +   +Af lA+k + P+++l+ + +   e+e 
  PHY93_10155|PHY93_10155 118 GTLnvleMLKQCTCYQKKIQDeksIPEALDKAFELAIKHKKPAVILIPKNIFNKEIEA 175
                              6666666444455555555542215566668888888888888888877777666665 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 0.78
                              HHHHHHHHHHCTT-EEEEEEE....CCHHHHCCC.CHHHHHHTT--EEEEEE CS
                    POR_N  48 gaisaviGAaaaGaraaTaTS....gqGllLmie.nlglaageelPvvivvv 94 
                              g ++  iGA ++G+ +    S    g G  Lm+  +++ a    lP+v+++ 
  PHY93_10155|PHY93_10155 408 GGMGNSIGAGIGGSVSSNKKSyvflGDGSFLMYGlEIHTALEYNLPIVFFIF 459
                              6677777777777766666555555777777775356677777778777765 PP

>> Gp58  gp58-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   0.0    0.0029        11     500     563 ..     218     282 ..     194     302 .. 0.79
   2 ?    4.4   0.1    0.0026       9.2     371     428 ..     459     512 ..     453     523 .. 0.80

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.0029
                     Gp58 500 afvkfsnataksyegsalaasivitsssdgidsaesgrfaGirifr.iasgyestaavdqaelvG 563
                              + ++++n++++++  s  aas+++t +s g   + + +f G+      ++  +     d + l+G
  PHY93_10155|PHY93_10155 218 ELIHLNNTAFIQEFISKTAASVAVTPNSKGLFDHRNPQFLGLIGIMgHNEVNNYLNLTDFVILIG 282
                              579************************************99754330333333444455555555 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.0026
                     Gp58 371 inLngyGvrisGeriaLdGnttvngafgaklgefiklkadqiigGtidankinvinln 428
                               n n++G+  + e++ LdG t +n+  +++ +e      ++i  G i  +    +nl+
  PHY93_10155|PHY93_10155 459 FNNNSHGMCTTRENVFLDGETGINNFRESRYAEG----IGKIFPGIISHEVNDLENLK 512
                              5889*********************99**99994....46777777766555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (543 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       442  (0.0246528); expected 358.6 (0.02)
Passed bias filter:                      359  (0.0200234); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.56u 0.20s 00:00:00.76 Elapsed: 00:00:00.38
# Mc/sec: 4334.17
//
Query:       PHY93_10160|PHY93_10160  [L=371]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.1e-34  120.2   0.0    1.5e-34  119.8   0.0    1.1  1  Aminotran_1_2  Aminotransferase class I and II
  ------ inclusion threshold ------
       0.11   11.3   0.1       0.24   10.3   0.1    1.5  1  Alliinase_C    Allinase


Domain annotation for each model (and alignments):
>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  119.8   0.0   1.6e-38   1.5e-34       5     349 ..      27     347 ..      24     357 .. 0.86

  Alignments for each domain:
  == domain 1  score: 119.8 bits;  conditional E-value: 1.6e-38
                              ESSSSSTTSTTSSHHHHHHHHHHHHHHHHHTSTTST-BTTHHHHHHHHHHHHHCTCTTCHTTGGEGEEEESHHHHHHHHHHHHHHH CS
            Aminotran_1_2   5 nLgsneylgdsgkptlpevakaekegalaggtlneygpidglpeleealakflgrseklklkreaavvvgsGagaliealifllkl 90 
                              +L ++e++     p ++ev ++     + ++++n y p++g  el+e +++ +      ++   +++  + G+  +++ ++++  l
  PHY93_10160|PHY93_10160  27 DLRIGEPKIS---PFPTEVFEEL----SHKKNINCYYPSHGDLELREMIIDKFY-----EERLIDNIAITHGTMGALDFIFRAN-L 99 
                              5666666666...4444444444....56999******************9999.....788999*******************.* PP

                              TTT-EEEEEESS-THHHHHHHHTTSEEEEEEBEET..TTTEE-HHHHHHHHTTHHCTTETEEEEEEESS-TTT--B--HHHHHHHH CS
            Aminotran_1_2  91 npgdeilvpdptyasyknilrlsggevvryplyse..edfhldlealeealkeapegnkktkvilvesphNPtGtvatleelekll 174
                              n ++eil+pdp +++y++ ++ s ++v +y+l+ +  ++  ++++++e ++++      ++ ++l++sphNPtG+++t  +l+   
  PHY93_10160|PHY93_10160 100 NSDSEILLPDPGFPPYTKLAEFSEAKVKKYSLNLSidAESFINWDQVESLITK------RPTLLLLNSPHNPTGKILTDMDLVRFE 179
                              *******************************9999888889************......99************************* PP

                              HHHHHT.TEEEEEEETTTTCBSSSSHTHHHHGGSTTSTT.EEEEEESSSTTSSGGG-EEEEEEEHHHHHHHHHHHHHHTS..SHHH CS
            Aminotran_1_2 175 dlakky.nlllfvDeaYagfvfgsldavatranveeepn.llivgslsKafGlaGeRvGyilgnaavvsqlrklsrpfls..ssll 256
                              ++  ky  l  + De+Y  + +g++    t+ n++  +n   ivgs+sK + l G R+G++l + +  + l    ++     ss +
  PHY93_10160|PHY93_10160 180 EMLFKYpQLSFVMDEVYRSLIYGQK----THYNFSSFINrGYIVGSFSKMYPLQGARIGWVLTSTDNMKKLSPYFNNAAGamSSFG 261
                              ******9999999**********65....5888999898889*********************6643333333333333357**** PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSTEEEECCSCSSEEEEEETHHCHHHHHHHHHHTCTEEEEEGGGGTS.. CS
            Aminotran_1_2 257 qaavaaalsdallkqseleemrqrlqkrrkelrdeLaelglkvlasqsgmflltdlsaetakelskkLleevgvyvtpgtsftv.. 340
                              q++v  +l+++l     +++    + +  +  ++ L+   ++++ +++++fl+  ++   + ++ ++L+   gv v+pg+ f+   
  PHY93_10160|PHY93_10160 262 QEIVKSILKKKLS----FKK---NYYEAFTIAKEILDLYRVDYVNPDGAFFLFIKYEIP-DLAVVDELAAL-GVEVVPGSAFGSng 338
                              **********994....444...45555666666664449****************999.9999999**99.************99 PP

                              TTEEEEECT CS
            Aminotran_1_2 341 pgrlRitvA 349
                               + +R ++A
  PHY93_10160|PHY93_10160 339 ANYIRASFA 347
                              999999995 PP

>> Alliinase_C  Allinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.1   2.6e-05      0.24     124     244 ..     134     273 ..      83     290 .. 0.63

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 2.6e-05
                              EEESTT-.--S..S-EEE......EEESS-TTT-------..-.......-TT-EEEEEE-TT-STTTS---S-B.....--SEEE CS
              Alliinase_C 124 eGdaaayvkkknpeefie......lvtsPnnPdgllreav..v.......kgseakviyDlayYWPhytpitska.....dedimL 189
                              + da+++++ ++ e+ i       l  sP nP g++   +  v       k  +   + D +y    y + t+ +     +   ++
  PHY93_10160|PHY93_10160 134 SIDAESFINWDQVESLITkrptllLLNSPHNPTGKILTDMdlVrfeemlfKYPQLSFVMDEVYRSLIYGQKTHYNfssfiNRGYIV 219
                              45677777555544444222222278889999888754321122222224666667788888865555444433211111556678 PP

                              EEHHHHHS-GGG-EEEEEES-HHHHHHHHHHHHHHHSS--HHHHHHHHHHHHHHH CS
              Alliinase_C 190 ftlskltGhaGsrlGWalvkdkevakklveyieknsiGvskesqlrvlkilkvvl 244
                               ++sk+    G+r+GW l      +kkl  y ++++  +s   q  v  ilk+ l
  PHY93_10160|PHY93_10160 220 GSFSKMYPLQGARIGWVLTSTD-NMKKLSPYFNNAAGAMSSFGQEIVKSILKKKL 273
                              89**************998665.5799*****99999999999999999988755 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (371 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       390  (0.0217525); expected 358.6 (0.02)
Passed bias filter:                      341  (0.0190195); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.40
# Mc/sec: 2778.54
//
Query:       PHY93_10165|PHY93_10165  [L=226]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.8e-12   47.4   0.0    6.7e-12   46.2   0.0    1.5  1  YceI      YceI-like domain


Domain annotation for each model (and alignments):
>> YceI  YceI-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.2   0.0   3.7e-16   6.7e-12      20     143 ..      47     220 ..      33     222 .. 0.81

  Alignments for each domain:
  == domain 1  score: 46.2 bits;  conditional E-value: 3.7e-16
                              .-EEEEECTECCEEEE..TTT..EEEEEEEEGGGEESS.HCHHHHHHCTCTT-TTT-........................-EEEE CS
                     YceI  20 skvtGrfkkvsgelsvdeddp.essvevtidvasidtgnakrdehlksadffdvaky........................PtatF 80 
                              ++++G    +sg++++d++dp  +++e++++++si+t++a+rd h+++   ++ +                          P++ +
  PHY93_10165|PHY93_10165  47 GTHEGIAHIISGSIAIDKNDPsLATGEFRVPIESITTNKAERDCHMQESLGLNYQVSdfpaehvcdnqfhlaltgknsvvyPQIIL 132
                              4677877779***********88*************************87776555445666677777777777777777777777 PP

                              CCCCEE.................EEEEEEETTEEEEEEEEEEEEE..EECCEECEEEEEGGGGTC..........TTTC-SEEEEE CS
                     YceI  81 vstsve...............akvtGdLtikGvtkpvtlpvtvng..aaagfsatgtidrtdFGlkr........galvgdevele 141
                              ++ s++                +v G  ti+G++++v++p+++    ++++ s+++ i ++ +++k         +  v+d+v++ 
  PHY93_10165|PHY93_10165 133 KILSINsldmtkkillegetpIEVVGVWTIHGKSNQVKFPMKIIAegDKMRISGDVPILLSSYDIKVkparlaffTINVKDQVKVF 218
                              66666689999**********66********************9513345578***********86688888889899******98 PP

                              EE CS
                     YceI 142 ie 143
                              ++
  PHY93_10165|PHY93_10165 219 FD 220
                              87 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (226 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       288  (0.0160634); expected 358.6 (0.02)
Passed bias filter:                      256  (0.0142785); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.21s 00:00:00.60 Elapsed: 00:00:00.35
# Mc/sec: 1917.25
//
Query:       PHY93_10170|PHY93_10170  [L=218]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      3e-43  147.8   0.1    3.4e-43  147.7   0.1    1.0  1  DSBA           DSBA-like thioredoxin domain
    3.9e-08   33.6   0.1    4.8e-07   30.1   0.1    2.1  1  Thioredoxin_4  Thioredoxin
    4.4e-05   23.2   0.1    0.00017   21.3   0.0    1.8  3  Thioredoxin_5  Thioredoxin
    7.6e-05   22.7   0.1        1.3    9.1   0.0    3.2  3  Thioredoxin_3  Thioredoxin domain
    0.00017   22.0   0.0       0.16   12.5   0.0    2.3  2  Thioredoxin_2  Thioredoxin-like domain
  ------ inclusion threshold ------
       0.11   12.2   0.1        9.3    6.0   0.0    2.5  2  ScdA_N         Domain of Unknown function (DUF542)


Domain annotation for each model (and alignments):
>> DSBA  DSBA-like thioredoxin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  147.7   0.1   1.1e-46   3.4e-43       1     190 [.       3     205 ..       3     208 .. 0.96

  Alignments for each domain:
  == domain 1  score: 147.7 bits;  conditional E-value: 1.1e-46
                              EEEEEEBTTBHHHHHHHHHHHHHHHHC.....CTEEEEEEE-SSSCHHHHCT.S.GGG........SHHHHHHHHHHHHHHHHHHT CS
                     DSBA   1 tvdeffDvlCPyCylgkerleklaars.....pdvkvvlrpfelagakkasgnvgpse........lpeklkylledlkrlaeaeg 73 
                              ++++++Dv+CP+Cy+gk+ le ++++       +++v +++fel+++  + ++++  e          +  +++ ++++++a   g
  PHY93_10170|PHY93_10170   3 KIEVWSDVNCPFCYIGKRHLENALKKFlknklVKIEVEWKSFELDPNTNPPKGADNTErlalkygkDRAWAEQMNQNMTKMARSAG 88 
                              59************************9***9999*************88888888888****99988888999************* PP

                              ....GGSSHHHHHHHHHHHHHHHHHHHGHHHHHHHHHHHHHTSSS-TSSHHHHHHHHHHTTS.HHHHHHHHTSHHHHHHHHHHHHH CS
                     DSBA  74 iplrfpkdklknstraarlllaagaeglaekvvrelfealwsegqaitddqellevaekaGldaeeldealeseavkeavrentaa 159
                              ++++++k+ ++ns++a+rl+++a+ +gl+++++++l    + eg++i+ +++l+e+a + Gld +e++++les++++++vr ++++
  PHY93_10170|PHY93_10170  89 LDFHLDKVIPANSFNAHRLIHLAKLHGLQNQMKEKLLSFKFIEGKDISAPNVLREAAVSIGLDHQEVQTVLESDQFAQDVRHDEEQ 174
                              ************************************************************************************** PP

                              HHHTT-SSSSEEEETTCEEEESSSSHHHHHH CS
                     DSBA 160 aqslgvtGvPtvvvdgkrmvfGadrldtlad 190
                              a +lg++GvP++++++++ ++Ga++ + +  
  PHY93_10170|PHY93_10170 175 AGALGIRGVPFFIFNKEHSISGAQPEEVFLA 205
                              *************************999875 PP

>> Thioredoxin_4  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.1   0.1   1.6e-10   4.8e-07      16     165 ..       3     208 ..       1     209 [. 0.78

  Alignments for each domain:
  == domain 1  score: 30.1 bits;  conditional E-value: 1.6e-10
                              EEEEEE-TT-HHHHHHHHHHHHHHHHHHHTT..SEEEEEEE-..---S.TTTHHHHHHHTT--TTHHHHHHHHHHHHTHHHHTTS- CS
            Thioredoxin_4  16 tvieyedlrCphCakfeeeveklleeyidtG..kvkfiirdfpldkek.eslkaamaarcageespeaflaikallysqqeewaes 98 
                              ++++++d++Cp C   ++++e  l++++++   k+++  + f ld++    + a +  r a+++++ + +a ++ ++++ ++ a+s
  PHY93_10170|PHY93_10170   3 KIEVWSDVNCPFCYIGKRHLENALKKFLKNKlvKIEVEWKSFELDPNTnPPKGADNTERLALKYGKDRAWA-EQ-MNQNMTKMARS 86 
                              7999***************************999999*****99988856677777777788887333332.33.34444444444 PP

                              ............HHHHH....................................................HHHHHTS-------HHH CS
            Thioredoxin_4  99 ............lkelaae...............................................aldkdekfeacleeekldal 125
                                          +     +                                                + + +++++ le++++ ++
  PHY93_10170|PHY93_10170  87 agldfhldkvipA-----NsfnahrlihlaklhglqnqmkekllsfkfiegkdisapnvlreaavsIGLDHQEVQTVLESDQFAQD 167
                              3344554344431.....35555577777777888888999999999***************98866666899999********** PP

                              HHHHHHHHHHHT--SS-EEEETTEE.E-TT--HHHHHHHHT CS
            Thioredoxin_4 126 veaeskeakkagiestPtfiingek.veepqtyeelkalid 165
                              v  + ++a ++gi ++P fi n e  ++++q+ e + a+++
  PHY93_10170|PHY93_10170 168 VRHDEEQAGALGIRGVPFFIFNKEHsISGAQPEEVFLAMLE 208
                              *********************99887999999999888887 PP

>> Thioredoxin_5  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0       1.9   5.7e+03      15     125 ..      23      39 ..      12      54 .. 0.56
   2 ?   -1.4   0.0      0.53   1.6e+03      14      32 ..      76      94 ..      67     123 .. 0.66
   3 !   21.3   0.0   5.7e-08   0.00017     103     168 ..     128     192 ..     113     203 .. 0.86

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 1.9
            Thioredoxin_5  15 EpelkklkveygekiklrfilllnlktlnksskkkkkasasrtgmsidgdvlleellsssYlaslaiKAAelQgkkkgrkFLrklq 100
                              E++lkk+ ++                                                                            
  PHY93_10170|PHY93_10170  23 ENALKKFLKN---------------------------------------------------------------------------- 32 
                              4444444443............................................................................ PP

            Thioredoxin_5 101 ealflekkniskeellleiaekagl 125
                                                 + k+++
  PHY93_10170|PHY93_10170  33 ------------------KLVKIEV 39 
                              ..................3333333 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.53
            Thioredoxin_5 14 iEpelkklkveygekiklr 32
                             +++++ k+  ++g  ++l+
  PHY93_10170|PHY93_10170 76 MNQNMTKMARSAGLDFHLD 94
                             5556666666666666654 PP

  == domain 3  score: 21.3 bits;  conditional E-value: 5.7e-08
            Thioredoxin_5 103 lflekkniskeellleiaekaglDveefkeDlesklakkafqcDlklakemgvtevPtlvffnene 168
                               f+e k+is  ++l e+a ++glD +e ++ les+  ++  ++D + a  +g++ vP ++ fn+++
  PHY93_10170|PHY93_10170 128 KFIEGKDISAPNVLREAAVSIGLDHQEVQTVLESDQFAQDVRHDEEQAGALGIRGVPFFI-FNKEH 192
                              4899*****************************************************665.56433 PP

>> Thioredoxin_3  Thioredoxin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.1   0.0   0.00045       1.3       2      34 ..       3      40 ..       2      47 .. 0.89
   2 ?    0.7   0.0      0.18   5.4e+02      14      42 ..      74     102 ..      71     108 .. 0.82
   3 !    8.7   0.0   0.00061       1.8      35      72 ..     167     205 ..     139     208 .. 0.79

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.00045
                             EEEE.ESSSSTTCH....HHHHHHHHHCHCCTCECEEE CS
            Thioredoxin_3  2 eikv.lgpgCakCp....klekavkeaaaekgikaeve 34
                             +i+v  + +C+ C+    +le+a+k+ +++k +k+eve
  PHY93_10170|PHY93_10170  3 KIEVwSDVNCPFCYigkrHLENALKKFLKNKLVKIEVE 40
                             688866889**********************9999997 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.18
                              HHHHHHHHHHCHCCTCECEEECCTTHHHH CS
            Thioredoxin_3  14 pklekavkeaaaekgikaevekvtdfeei 42 
                              ++++++++++a + g++++++kv   + +
  PHY93_10170|PHY93_10170  74 EQMNQNMTKMARSAGLDFHLDKVIPANSF 102
                              58999*************99998666555 PP

  == domain 3  score: 8.7 bits;  conditional E-value: 0.00061
                              CC.TTHHHHHHCT-SSSSEEECTTCEEEESS---CCHHH CS
            Thioredoxin_3  35 kv.tdfeeiekygVmsvPalvidgkvvvsGkvpseeeir 72 
                              +v  d e+    g++ vP  + + +  +sG++p+e +++
  PHY93_10170|PHY93_10170 167 DVrHDEEQAGALGIRGVPFFIFNKEHSISGAQPEEVFLA 205
                              443455566789*********************998875 PP

>> Thioredoxin_2  Thioredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.7   0.0    0.0016       4.8      11      66 ..       6      66 ..       2      89 .. 0.67
   2 !   12.5   0.0   5.2e-05      0.16      49     109 .]     154     207 ..     109     207 .. 0.75

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.0016
            Thioredoxin_2 11 vftdpdCpyCkklkkelkelddvtvrvllfp.lkpsfepkavaiwcakekkkafkd.......i 66
                             v++d++Cp+C   k+ l++   ++++ l  + +k ++e k+++++ +++++k+ ++       +
  PHY93_10170|PHY93_10170  6 VWSDVNCPFCYIGKRHLENA--LKKF-LKNKlVKIEVEWKSFELDPNTNPPKGADNterlalkY 66
                             899*******8888888777..5555.2222466677788888888888886666655555553 PP

  == domain 2  score: 12.5 bits;  conditional E-value: 5.2e-05
            Thioredoxin_2  49 kavaiwcakekkkafkdieenvelarkygvrgtPtivfldgkeivarlpGyvpaeeleall 109
                              +++ +  +++ +   +d+   +e a ++g+rg+P ++f  +      + G+ p+e ++a+l
  PHY93_10170|PHY93_10170 154 EVQTVLESDQFA---QDVRHDEEQAGALGIRGVPFFIFNKEH----SISGAQPEEVFLAML 207
                              334444444444...4466667777778***********999....9**********9987 PP

>> ScdA_N  Domain of Unknown function (DUF542)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.0    0.0031       9.3      17      40 ..       5      28 ..       3      32 .. 0.86
   2 ?    3.6   0.0     0.018        53      34      54 ..     141     161 ..     138     163 .. 0.89

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.0031
                   ScdA_N 17 kvFrkygIDFCCgGkvsLaeAcke 40
                             +v ++++  FC  Gk+ L++A+k+
  PHY93_10170|PHY93_10170  5 EVWSDVNCPFCYIGKRHLENALKK 28
                             567777778************986 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.018
                   ScdA_N  34 LaeAckekgidleevlaeLea 54 
                              L+eA+   g+d +ev   Le+
  PHY93_10170|PHY93_10170 141 LREAAVSIGLDHQEVQTVLES 161
                              99*************999987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (218 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       522  (0.0291148); expected 358.6 (0.02)
Passed bias filter:                      419  (0.02337); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.34
# Mc/sec: 1940.29
//
Query:       PHY93_10175|PHY93_10175  [L=314]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (314 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       478  (0.0266607); expected 358.6 (0.02)
Passed bias filter:                      320  (0.0178482); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.19s 00:00:00.63 Elapsed: 00:00:00.37
# Mc/sec: 2559.29
//
Query:       PHY93_10180|PHY93_10180  [L=393]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (393 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       460  (0.0256568); expected 358.6 (0.02)
Passed bias filter:                      338  (0.0188521); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.22s 00:00:00.73 Elapsed: 00:00:00.40
# Mc/sec: 2984.54
//
Query:       PHY93_10185|PHY93_10185  [L=315]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (315 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       450  (0.025099); expected 358.6 (0.02)
Passed bias filter:                      332  (0.0185175); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 2330.38
//
Query:       PHY93_10190|PHY93_10190  [L=129]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
  ------ inclusion threshold ------
      0.083   13.5   0.0       0.12   13.0   0.0    1.2  1  GTP-bdg_M  GTP-binding GTPase Middle Region


Domain annotation for each model (and alignments):
>> GTP-bdg_M  GTP-binding GTPase Middle Region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   6.7e-06      0.12      39      72 ..      29      62 ..      11      66 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 6.7e-06
                             XXXXXXXXXHHHHHHHHHHHHHHHHHHHHHHHHH CS
                GTP-bdg_M 39 trGpGetkleldrrlireriaklkkeLekvkkkr 72
                             ++  G++k+el+r ++r+ i+ l +++++++ k 
  PHY93_10190|PHY93_10190 29 VSSTGKYKIELQRCRYRNHINLLTTKINNIEVKD 62
                             5678************************998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (129 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       500  (0.0278878); expected 358.6 (0.02)
Passed bias filter:                      454  (0.0253221); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.23s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 985.05
//
Query:       PHY93_10195|PHY93_10195  [L=239]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.3e-10   41.2   3.6    1.3e-10   41.2   3.6    2.0  2  PAP2           PAP2 superfamily
    6.5e-10   39.0   0.1      1e-09   38.4   0.1    1.3  1  PAP2_3         PAP2 superfamily
    0.00066   20.2   0.7     0.0016   18.9   0.7    1.6  1  PAP2_C         PAP2 superfamily C-terminal
  ------ inclusion threshold ------
      0.013   15.6   0.2       0.03   14.4   0.2    1.7  1  YrhC           YrhC-like protein
      0.081   12.3   0.0       0.16   11.3   0.0    1.5  1  ABC2_membrane  ABC-2 type transporter


Domain annotation for each model (and alignments):
>> PAP2  PAP2 superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.1       1.4   5.2e+03       8      22 ..      42      56 ..      38      62 .. 0.52
   2 !   41.2   3.6   3.5e-14   1.3e-10      51     126 ..     140     207 ..     119     214 .. 0.83

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 1.4
                     PAP2  8 alalaalltsvlKdl 22
                             + a+++l+ s++K++
  PHY93_10195|PHY93_10195 42 IGASTTLIASFFKNT 56
                             444444444555544 PP

  == domain 2  score: 41.2 bits;  conditional E-value: 3.5e-14
                     PAP2  51 eakesfPSgHsafafalalllalllrrkrkkiglvllalillllavlvalsRlylgvHflsDvlaGlliGialaal 126
                               +++sfPSgH++ afa+a ++a+  ++++         + +++la +v++ R+ ++ H+l Dv+aG+ iG + +++
  PHY93_10195|PHY93_10195 140 GGNSSFPSGHTTSAFAFASFVAS-EHPWYVG-------VPAYILASYVGFCRMHDNKHYLQDVMAGATIGMSYGVA 207
                              4689**************99876.4555555.......68******************************998775 PP

>> PAP2_3  PAP2 superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.4   0.1   2.8e-13     1e-09     121     185 ..     139     202 ..     103     206 .. 0.88

  Alignments for each domain:
  == domain 1  score: 38.4 bits;  conditional E-value: 2.8e-13
                   PAP2_3 121 englaafPSlHvawallvalalwrlrrkrllrvlalllnvlmivatvatgnHYlvDviaGvalal 185
                              ++g ++fPS H++ a+ +a ++++ +++  ++v a +l+  + ++ ++   HYl Dv+aG+++++
  PHY93_10195|PHY93_10195 139 GGGNSSFPSGHTTSAFAFASFVASEHPWY-VGVPAYILASYVGFCRMHDNKHYLQDVMAGATIGM 202
                              478999***************99999999.*******************************9975 PP

>> PAP2_C  PAP2 superfamily C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.7   4.4e-07    0.0016       8      66 ..     147     202 ..     144     208 .. 0.85

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 4.4e-07
                   PAP2_C   8 SGHtvvltlavlfileyspkklailkvillllallglfliiasrkHYtvDVllglyitt 66 
                              SGHt++ + ++ f+ + +p   + + v + +la +  f+ +   kHY  DV+ g++i +
  PHY93_10195|PHY93_10195 147 SGHTTSAFAFASFVASEHP---WYVGVPAYILASYVGFCRMHDNKHYLQDVMAGATIGM 202
                              9999888777777765544...348*****************************99875 PP

>> YrhC  YrhC-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.2   8.4e-06      0.03      10      71 ..       4      68 ..       1      69 [. 0.74

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 8.4e-06
                     YrhC 10 YkrFafvLLalsaF.Ly..iGl.viPseaketlkksillgaivvfLllaflflrrskkyqkkLeee 71
                             Y  F f LL + ++ Ly  iG  +i+    ++++k +l+ga+  +L+++f+ +  +kk+qk L+e+
  PHY93_10195|PHY93_10195  4 YLYFFFLLLTIPSYnLYatIGDdIISPVTNSEAQKVLLIGAS-TTLIASFFKNTLIKKMQKDLYED 68
                             556777777775554554477448888777777777777665.689******************95 PP

>> ABC2_membrane  ABC-2 type transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   4.6e-05      0.16      23     152 ..      82     209 ..      74     236 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 4.6e-05
            ABC2_membrane  23 lwrliqplllalvfgtvfgnlg.nsedglnrpgllffsvlflafsaltsvapvferergvlerelvsplyslsayvlakvlve.lp 106
                              +++++  +l++l +g+ f+ l+ n+++  + +g+   ++   +++ + + +++  r +g  ++ ++s+  ++sa+++a+++++  p
  PHY93_10195|PHY93_10195  82 YLQILPNILYSLSYGLNFY-LNdNEDSKRKAIGMAKATLYSGMMTEILKHSIYEKRPNGGGNSSFPSGH-TTSAFAFASFVASeHP 165
                              67999**************.77566666666777777777777799999977777888888********.99999999987777** PP

            ABC2_membrane 107 vsllqalifllivyflvgldlsrfflflllllltalaasslgllis 152
                              + + + + +l+ ++ +  ++ +    +l  +++ a +++s+g+++s
  PHY93_10195|PHY93_10195 166 WYVGVPAYILASYVGFCRMHDN--KHYLQDVMAGATIGMSYGVAMS 209
                              ******9999988888788777..3333445555555555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (239 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       531  (0.0296168); expected 358.6 (0.02)
Passed bias filter:                      454  (0.0253221); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 1622.84
//
Query:       PHY93_16365|PHY93_16365  [L=351]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.4e-13   49.2   0.3    3.2e-12   47.1   0.0    2.1  2  YkuD      L,D-transpeptidase catalytic domain


Domain annotation for each model (and alignments):
>> YkuD  L,D-transpeptidase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.1   0.0   1.8e-16   3.2e-12       4     146 .]      53     192 ..      49     192 .. 0.79
   2 ?   -0.7   0.1     0.093   1.7e+03      51      80 ..     226     255 ..     210     317 .. 0.66

  Alignments for each domain:
  == domain 1  score: 47.1 bits;  conditional E-value: 1.8e-16
                              EEEETTTTEEEEEEETTE....EEEEEE-BEB.....TTS.TTSE---EEEEECEEEEEEE..EEGGGGT--TTSTT.EEEEEEEE CS
                     YkuD   4 ivvdlaeqrllvlyengk....lvlsfpvsvG.....gkkegdreTPlGtfrikskvrnptwnvppsiarkeiypklrkdpeyldk 80 
                              +v  +++ +ll l++n +    lv+s+ v++G     + +egd++TP+G +  +++  n +  + +s a + iy  ++  ++y ++
  PHY93_16365|PHY93_16365  53 LVAEKST-HLLHLFKNIDgkpeLVKSYQVVTGkktgdKGNEGDFRTPEGIYNFTNFLTNKQ-LIEKSGAQGVIYGAGAFVTDYPNP 136
                              3444555.7888877655557799*************77789************8888888.466666666666666666666664 PP

                              CCCTTCECCCCEEE-STTS-EEEE.ETCSS...CTHHC.BSSSEEE-HHHHHHHHHHHHTT.EEEEE CS
                     YkuD  81 knskvalgkvkfvfpngsgiyiHgtgapdlfergkgarrShGCirlseedakelyelvlvg.tpvvi 146
                                          + ++gsgi++H t+  ++ ++     +S GC+   ++d+++l ++++   tp++i
  PHY93_16365|PHY93_16365 137 I--------DLRMGKTGSGIWLHSTNDETRIDK---GLDSRGCVVTANNDLLDLSKYLELYkTPIII 192
                              4........44699*********9999999888...789*******************988799998 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.093
                              EEEEE..EEGGGGT--TTSTT.EEEEEEEE CS
                     YkuD  51 vrnptwnvppsiarkeiypklrkdpeyldk 80 
                              + + + + +++i +k++  +++k + y++ 
  PHY93_16365|PHY93_16365 226 EIEGYMSHYSPIDFKDAKGNFAKYRAYKKA 255
                              556666677777777777777766666542 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (351 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       403  (0.0224776); expected 358.6 (0.02)
Passed bias filter:                      287  (0.0160076); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.39
# Mc/sec: 2705.21
//
Query:       PHY93_21340|PHY93_21340  [L=159]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.8e-11   42.0   0.0    3.1e-10   40.1   0.0    1.8  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
    4.8e-10   39.7   0.0    6.5e-10   39.3   0.0    1.2  1  Acetyltransf_1   Acetyltransferase (GNAT) family
    2.8e-09   37.3   0.0    4.3e-09   36.7   0.0    1.3  1  Acetyltransf_7   Acetyltransferase (GNAT) domain
    2.7e-06   27.2   0.0    6.5e-06   26.0   0.0    1.5  2  FR47             FR47-like protein
  ------ inclusion threshold ------
       0.07   13.3   0.0       0.13   12.4   0.0    1.4  1  Acetyltransf_CG  GCN5-related N-acetyl-transferase
      0.093   13.4   0.0       0.12   13.1   0.0    1.2  1  Acetyltransf_3   Acetyltransferase (GNAT) domain
       0.14   12.3   0.0       0.44   10.6   0.0    2.0  1  Acetyltransf_9   Acetyltransferase (GNAT) domain


Domain annotation for each model (and alignments):
>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.1   0.0   1.2e-13   3.1e-10      22     108 ..      32     145 ..      11     152 .. 0.79

  Alignments for each domain:
  == domain 1  score: 40.1 bits;  conditional E-value: 1.2e-13
          Acetyltransf_10  22 lreri.eegealllvaeeggkivGvielrdgs......................hisllfVdpeyrgqGigkaLleaveeeaekdg 84 
                              +++ + ++ ++ l++ + ++++vG+ +l+++s                       i++l+Vd++ +g+G+gk+Ll ++ ++a +  
  PHY93_21340|PHY93_21340  32 ISRDVeRKANVPLYAINANDEVVGFYTLSTSSiefnnfppnlknkiapypvsvaLIGRLAVDNSMKGKGLGKELLFHAVDRAIRIS 117
                              44444246778888888888888888886666688888888888888888888889*******************99999976655 PP

          Acetyltransf_10  85 ikl...eltvnasp.yavpfYeklGFka 108
                               ++   ++ v+a++  a++fY+k+GF+ 
  PHY93_21340|PHY93_21340 118 KEIgmrAIVVDAKNpSAEDFYKKYGFEL 145
                              554559********9***********85 PP

>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.3   0.0   2.5e-13   6.5e-10      28     117 .]      37     143 ..       6     143 .. 0.74

  Alignments for each domain:
  == domain 1  score: 39.3 bits;  conditional E-value: 2.5e-13
                              HHSTTCEEEEEEETTEEEEEE.....EEEEEET...............TSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHT. CS
           Acetyltransf_1  28 fsleaegllvaeedgeliGfi.....sllkipd...............ekggvayieslaVspeyrgkGlGsaLlealeeraree. 92 
                               ++ +  l+++  ++e++Gf      s                         va i +laV+ +  gkGlG++Ll ++++ra +  
  PHY93_21340|PHY93_21340  37 ERKANVPLYAINANDEVVGFYtlstsS-----IefnnfppnlknkiapYPVSVALIGRLAVDNSMKGKGLGKELLFHAVDRAIRIs 117
                              3444558999999********555551.....444555666667776644699*********************999998888885 PP

                              .TE.SEEEEEEETTEHHHHHHHHHTTE CS
           Acetyltransf_1  93 .gi.kkivlaveedndaairlYeklGF 117
                               +i  +  + v++ n  a  +Y+k GF
  PHY93_21340|PHY93_21340 118 kEIgMR-AIVVDAKNPSAEDFYKKYGF 143
                              544333.4467888********88**9 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.7   0.0   1.7e-12   4.3e-09       6      75 ..      45     144 ..      36     145 .. 0.74

  Alignments for each domain:
  == domain 1  score: 36.7 bits;  conditional E-value: 1.7e-12
                              EEEEETTEEEEEEEEEEES.....................TCTEEEEE-GGGTTSSHHHHHHHH......TT...SEEEEEEEEET CS
           Acetyltransf_7   6 fVaeddgkivGfialslld.....................aeitrlaVdpeyrgkGiGraLlea......ae...kgiileqleln 61 
                              + +  ++++vGf+ ls ++                     a i+rlaVd +  gkG+G++Ll +      ++    g++ +++  +
  PHY93_21340|PHY93_21340  45 YAINANDEVVGFYTLSTSSiefnnfppnlknkiapypvsvALIGRLAVDNSMKGKGLGKELLFHavdraiRIskeIGMRAIVVDAK 130
                              555667899999988888899999999999888888888888888*****************654665541132233222223334 PP

                              HHHHHHHHHHTTEE CS
           Acetyltransf_7  62 aekaikfYeklGFe 75 
                              ++ a++fY+k+GFe
  PHY93_21340|PHY93_21340 131 NPSAEDFYKKYGFE 144
                              459999*******8 PP

>> FR47  FR47-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       2.2   5.6e+03      47      68 ..      33      53 ..      27      58 .. 0.48
   2 !   26.0   0.0   2.5e-09   6.5e-06      22      80 ..      85     146 ..      80     152 .. 0.81

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 2.2
                             HHHHHHS-S-EEEEEETT-HHH CS
                     FR47 47 akeiaergktvllvvvasNtps 68
                             ++++ ++  +v l++  +N++ 
  PHY93_21340|PHY93_21340 33 SRDVERK-ANVPLYAINANDEV 53
                             4444444.44444444445444 PP

  == domain 2  score: 26.0 bits;  conditional E-value: 2.5e-09
                              SSEEEEEE-GGG-SSSHHHH.HHHHHHHHHHH.S-S-EE.EEEETT-HHHHHHHHHHT-EEE CS
                     FR47  22 gelgalqvlpehrrrGlgsr.lvkalakeiae.rgktvl.lvvvasNtpsirlyeklGfeki 80 
                                +g l v+++++++Glg+  l +a+ ++i+  +++ +  +vv a+N  ++ +y+k Gfe++
  PHY93_21340|PHY93_21340  85 ALIGRLAVDNSMKGKGLGKElLFHAVDRAIRIsKEIGMRaIVVDAKNPSAEDFYKKYGFELL 146
                              56999*************8625799*9999986776665156678999999********987 PP

>> Acetyltransf_CG  GCN5-related N-acetyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0     5e-05      0.13      30      57 ..      90     117 ..      75     130 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 5e-05
          Acetyltransf_CG  30 TeVpeelrGkGiAkkLvkaalddareeg 57 
                                V+ +++GkG++k+L  +a+d a +  
  PHY93_21340|PHY93_21340  90 LAVDNSMKGKGLGKELLFHAVDRAIRIS 117
                              579*******************997655 PP

>> Acetyltransf_3  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   4.7e-05      0.12      54     138 .]      42     144 ..       7     144 .. 0.73

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 4.7e-05
           Acetyltransf_3  54 yg.waivlkdtgviGsvglrdleeedee................aelg.ymlapsfwgkGyateavralleyafeel.glerlvav 120
                              +  +ai+ +d+ v+G+  l   + e +                 a +g + ++ s  gkG+++e +  +++ a +   ++ +  +v
  PHY93_21340|PHY93_21340  42 VPlYAINANDE-VVGFYTLSTSSIEFNNfppnlknkiapypvsvALIGrLAVDNSMKGKGLGKELLFHAVDRAIRISkEIGMRAIV 126
                              33688865666.78888777555555445677777888888776666645566779*************99997433357777999 PP

           Acetyltransf_3 121 idkeNeaSirvleklGfe 138
                              +d++N+     ++k Gfe
  PHY93_21340|PHY93_21340 127 VDAKNPSAEDFYKKYGFE 144
                              *****************7 PP

>> Acetyltransf_9  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   0.00017      0.44      71     127 ..      82     145 ..      41     146 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00017
                              EEEEEEEEEEE-CCGTTS-HHHHHHHHHHHH....HHHTT--EEEE--...SSHHHHHTTT-EE CS
           Acetyltransf_9  71 lkaagvtgVavapehrgrgvlskLlaralee....mreegqplsllfP...ssipiYrrfGyei 127
                              + +a ++  av+   +g+g+ ++Ll +a+++     +e g + ++  +   s++++Y+++G+e 
  PHY93_21340|PHY93_21340  82 VSVALIGRLAVDNSMKGKGLGKELLFHAVDRairiSKEIGMRAIVVDAknpSAEDFYKKYGFEL 145
                              568999**************9999876665411115666777777665555999********96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (159 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       439  (0.0244855); expected 358.6 (0.02)
Passed bias filter:                      408  (0.0227564); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.43u 0.25s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1162.94
//
Query:       PHY93_10200|PHY93_10200  [L=825]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    8.5e-44  147.8   0.0    2.1e-15   56.8   0.0    3.8  3  PAS_3        PAS fold
    8.6e-32  109.5   0.0    1.3e-11   44.7   0.0    4.1  4  PAS_9        PAS domain
    8.9e-26   90.1   0.0    7.4e-12   45.3   0.0    3.6  3  PAS          PAS fold
    7.6e-23   81.2   0.1    2.4e-22   79.6   0.1    1.9  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    4.1e-18   66.0   0.0    8.3e-18   65.0   0.0    1.5  1  GAF_2        GAF domain
    5.2e-16   58.9   0.0    5.7e-06   26.5   0.0    3.6  3  PAS_4        PAS fold
    6.6e-12   45.6   0.0    8.6e-09   35.5   0.0    3.0  3  PAS_11       PAS domain
    2.6e-10   40.1   0.0    3.9e-05   23.6   0.0    3.6  3  PAS_8        PAS domain
    2.7e-10   40.1   3.3    4.2e-10   39.5   1.8    2.2  2  HisKA        His Kinase A (phospho-acceptor) domain
    7.5e-10   39.6   0.0    1.7e-09   38.4   0.0    1.6  1  GAF          GAF domain
  ------ inclusion threshold ------
      0.018   15.4   0.0       0.05   13.9   0.0    1.8  1  GAF_3        GAF domain
       0.04   13.9   0.0      0.084   12.8   0.0    1.4  1  HATPase_c_2  Histidine kinase-like ATPase domain
      0.068   12.8   0.0         17    5.0   0.0    3.5  4  PAS_12       UPF0242 C-terminal PAS-like domain
      0.095   12.8   0.1       0.36   10.9   0.1    2.0  1  sCache_like  Single Cache-like
       0.18   11.9   0.0        9.6    6.3   0.0    2.9  3  sCache_3_2   Single cache domain 3


Domain annotation for each model (and alignments):
>> PAS_3  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.4   0.0   1.1e-13   1.3e-10       3      61 ..      53     111 ..      51     140 .. 0.82
   2 !   44.9   0.0   8.7e-15     1e-11       2      85 ..     367     449 ..     366     453 .. 0.90
   3 !   56.8   0.0   1.7e-18   2.1e-15       3      72 ..     495     563 ..     493     566 .. 0.92

  Alignments for each domain:
  == domain 1  score: 41.4 bits;  conditional E-value: 1.1e-13
                    PAS_3   3 yvserveeilGyspeellgkveswldlvhpeDrervrealqealkkgepyegeyRirrk 61 
                              y+++++++ilG+sp+e+ ++ + + +++hp+D+e v ++++e++k+ +++  e+R++  
  PHY93_10200|PHY93_10200  53 YCNDAIKDILGFSPQEIVKDASAMFSIIHPDDLEGVHKSIDESAKTLKDWRYEFRVFLS 111
                              9******************************************************9753 PP

  == domain 2  score: 44.9 bits;  conditional E-value: 8.7e-15
                    PAS_3   2 iyvserveeilGyspeellgkveswldlvhpeDrervrealqealkkge.pyegeyRirrkdGeyrwveararvirdengkpvrv 85 
                              i+++ ++++ilG +++el+    +w++l hp+D++   e  +++ ++   +++   R++r+dG+++wv+ +++++++ +g +++ 
  PHY93_10200|PHY93_10200 367 ISINSTFQKILGRTEDELKRL--DWMSLTHPDDLPINLEYRARLKARTIpSFKLLKRYIRPDGSIVWVDLSVVPFKNGEGVVQKN 449
                              889******************..**********9888888888877777889***********************9999998875 PP

  == domain 3  score: 56.8 bits;  conditional E-value: 1.7e-18
                    PAS_3   3 yvserveeilGyspeellgkveswldlvhpeDrervrealqealkkgepy.egeyRirrkdGeyrwveara 72 
                              + s++  +i Gy +eel g+  ++l+l+hpeD+++++ ++q++ ++ +++ + +yR+++kdG+y+w+e +a
  PHY93_10200|PHY93_10200 495 FNSASSLRIHGYNKEELAGR--NILELIHPEDQKQIMVEFQNLQNSPGKFlSAQYRYLNKDGSYTWMEVTA 563
                              5678899*************..**********************9988555****************9886 PP

>> PAS_9  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0   1.6e-06    0.0019      14     103 ..      51     146 ..      37     147 .. 0.74
   2 ?   -1.7   0.0       2.9   3.5e+03      27      59 ..     298     327 ..     291     348 .. 0.68
   3 !   41.2   0.0   1.3e-13   1.6e-10       3     104 .]     355     458 ..     353     458 .. 0.88
   4 !   44.7   0.0   1.1e-14   1.3e-11       1     102 [.     481     582 ..     481     584 .. 0.88

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 1.6e-06
                    PAS_9  14 l.yaNeaalrllGyspeevlgksitdlfvtdpeanerlraaleqgrk....kerevevvlirkng..etfwvlltaspvkdddgel 92 
                                y+N+a +++lG+sp+e++     ++   +p++ e +++ +++  k      +e+ v l  k++  e+ w l + +p k ddg +
  PHY93_10200|PHY93_10200  51 FpYCNDAIKDILGFSPQEIVKDASAMFSIIHPDDLEGVHKSIDESAKtlkdWRYEFRVFLSGKDEskEERWLLGHSRPEKCDDGSI 136
                              349***************9998755555447777777777777777778775555555555555555************9886555 PP

                    PAS_9  93 vgiivilrDit 103
                                + ++++Di+
  PHY93_10200|PHY93_10200 137 L-WSGLITDIS 146
                              4.67******8 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 2.9
                    PAS_9  27 speevlgksitdlfvtdpeanerlraaleqgrk 59 
                              s +++ +ks  dl+   ++ + +++ a++++++
  PHY93_10200|PHY93_10200 298 STKDFFNKSEVDLL---EKIAINISYAIDTIEN 327
                              57899999999999...6666666666666664 PP

  == domain 3  score: 41.2 bits;  conditional E-value: 1.3e-13
                    PAS_9   3 gil.idnpdgrilyaNeaalrllGyspeevlgksitdlfvtdpeanerlraaleqgrk..kerevevvlirkngetfwvlltaspv 85 
                              gi+ +d ++g+ +++N ++ ++lG +++e+   ++  l  ++++   +l+   + + +  + +     +ir++g+ +wv+l+++p+
  PHY93_10200|PHY93_10200 355 GIAsVDASNGKFISINSTFQKILGRTEDELKRLDWMSLT-HPDDLPINLEYRARLKARtiPSFKLLKRYIRPDGSIVWVDLSVVPF 439
                              66635999*******************************.6666666666666666666699************************ PP

                    PAS_9  86 kdddgelvgiivilrDite 104
                              k+++g ++  ++ ++Dit+
  PHY93_10200|PHY93_10200 440 KNGEGVVQKNLCMVEDITD 458
                              ******************6 PP

  == domain 4  score: 44.7 bits;  conditional E-value: 1.1e-14
                    PAS_9   1 pdgilidnpdgrilyaNeaalrllGyspeevlgksitdlfvtdpeanerlraaleqgrk...kerevevvlirkngetfwvlltas 83 
                              pd i+i ++dg+il+ + + lr+ Gy++ee+ g++i +l+  +pe+++ +   ++++++   k+ + ++ + +k+g++ w ++ta 
  PHY93_10200|PHY93_10200 481 PDLIVILDHDGKILFNSASSLRIHGYNKEELAGRNILELI--HPEDQKQIMVEFQNLQNspgKFLSAQYRYLNKDGSYTWMEVTA- 563
                              67899999********************************..999999999999999999********************66555. PP

                    PAS_9  84 pvkdddgelvg.iivilrDi 102
                               + +  + l+g ii+i+rDi
  PHY93_10200|PHY93_10200 564 -INQLLNPLIGgIIGISRDI 582
                              .5333556666699999999 PP

>> PAS  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.4   0.0    0.0018       2.1      23     101 ..      51     134 ..      45     145 .. 0.66
   2 !   32.4   0.0     6e-11   7.2e-08       3     113 .]     345     456 ..     343     456 .. 0.89
   3 !   45.3   0.0   6.2e-15   7.4e-12       1      95 [.     471     565 ..     471     582 .. 0.82

  Alignments for each domain:
  == domain 1  score: 8.4 bits;  conditional E-value: 0.0018
                              EEEECHHHHHHHSSTHHHCTTS.BGGGGBSTTHHH.HHHHHHHHHHHHTT-ECCCCEEEEC...TTSSEEEEEEEEEEEEETTE CS
                      PAS  23 ilyvNaaaeellGlsreevlgk.slldliheedda.elaelleqlleqgeesrageisfkl...rdgrpihlevraspvrdagg 101
                              + y+N+a+ ++lG+s++e++   s + +i+++dd   +++ + + +++ +++r + + f       +++++l+ + +p  + +g
  PHY93_10200|PHY93_10200  51 FPYCNDAIKDILGFSPQEIVKDaSAMFSIIHPDDLeGVHKSIDESAKTLKDWRYEFRVFLSgkdESKEERWLLGHSRPEKCDDG 134
                              569*************88776414455667777666888888888888877776555555566555566666655555555555 PP

  == domain 2  score: 32.4 bits;  conditional E-value: 6e-11
                              HHHHHHHSSSEEEEEE.TTSBEEEECHHHHHHHSSTHHHCTTSBGGGGBSTTHHHHHHHHHHHHHHHTT-ECCCCEEEEC...TTS CS
                      PAS   3 lraileslpdpifvvD.edgrilyvNaaaeellGlsreevlgkslldliheeddaelaelleqlleqgeesrageisfkl...rdg 84 
                              +r+i+e +p +i  vD  +g+++ +N++++++lG +++e+ +   + l h++d   l+  le +++ + +     + +k+   +dg
  PHY93_10200|PHY93_10200 345 YRTIFEEAPLGIASVDaSNGKFISINSTFQKILGRTEDELKRLDWMSLTHPDD---LPINLEYRARLKARTIPSFKLLKRyirPDG 427
                              89********************************************8888886...888888777777777765455555789*** PP

                              SEEEEEEEEEEEEETTEEEEEEEEEEEES CS
                      PAS  85 rpihlevraspvrdaggeilgflgvlrdi 113
                              +++++++ ++p+ +++g +   l+++ di
  PHY93_10200|PHY93_10200 428 SIVWVDLSVVPFKNGEGVVQKNLCMVEDI 456
                              *****************999999999997 PP

  == domain 3  score: 45.3 bits;  conditional E-value: 6.2e-15
                              HHHHHHHHHSSSEEEEEETTSBEEEECHHHHHHHSSTHHHCTTSBGGGGBSTTHHHHHHHHHHHHHHHTT-ECCCCEEEECTTSSE CS
                      PAS   1 edlraileslpdpifvvDedgrilyvNaaaeellGlsreevlgkslldliheeddaelaelleqlleqgeesrageisfklrdgrp 86 
                              e+++ai + +pd i+++D+dg+il+ +a+  ++ G++ ee+ g+++l+lih+ed+ +   ++++l ++  ++ + + +   +dg++
  PHY93_10200|PHY93_10200 471 EMFSAITNLSPDLIVILDHDGKILFNSASSLRIHGYNKEELAGRNILELIHPEDQKQIMVEFQNLQNSPGKFLSAQYRYLNKDGSY 556
                              5899999**********************************************98877777777777777777777777668**** PP

                              EEEEEEEEE CS
                      PAS  87 ihlevrasp 95 
                              +++ev+a  
  PHY93_10200|PHY93_10200 557 TWMEVTAIN 565
                              *****9864 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.6   0.1     2e-25   2.4e-22       2     111 ..     717     824 ..     716     825 .] 0.97

  Alignments for each domain:
  == domain 1  score: 79.6 bits;  conditional E-value: 2e-25
                              HHHHHHHHHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHHHHH CS
                HATPase_c   2 dekrLrqiisnlvdNavkfatkageieveikaseddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkklvel 87 
                              d +r++q++ n+ +N++k+ ++++ i++++ +s+d++++ v+D G Gi +e++ k+fe+f + + + r+ +g G+Gl i+k++ve 
  PHY93_10200|PHY93_10200 717 DRIRIEQVFVNIFSNSIKY-APGKPISISLIRSSDRVKFIVKDQGEGIAPEKQSKIFERFER-AISFRNISGLGIGLFISKQIVEA 800
                              7899***************.889********8889***************************.9999******************* PP

                              TTTEEEEEEETTTEEEEEEEEESS CS
                HATPase_c  88 mgGeiwvesepgrGttftftlple 111
                              ++G+i+ves+ g G  ft+ lpl+
  PHY93_10200|PHY93_10200 801 HRGNISVESKLGDGAAFTVDLPLT 824
                              *********************997 PP

>> GAF_2  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.0   0.0   6.9e-21   8.3e-18       5     138 .]     179     323 ..     178     323 .. 0.81

  Alignments for each domain:
  == domain 1  score: 65.0 bits;  conditional E-value: 6.9e-21
                              HHHHHHHHHHH.HHSS...EEEEEEE-TT.S-EEEE.....EEEES-TTSTT-S-B--..-TTHHHHHHHHTS-EEES-GGG-S-H CS
                    GAF_2   5 eelldlvldel.velg.aalgyillvddd.gglrla.....awgeaeeefgaaldrpl..geglvgealrtgrpvilndleedpdk 80 
                              +e++ ++++ + ve g + +++i+l ++d ++l+ +       g+ +  ++ + + +l  g+g++g ++r+g++++ ndl++d + 
  PHY93_10200|PHY93_10200 179 DEVFYEACRIVvVE-GkFLMAWIGLFEPDfQHLKPVtlygyEEGYLQNIVDISSRADLqeGRGPTGSSFREGKAFVSNDLDNDSSF 263
                              57777888888555.9999******99553445555533333333333333333333477999*********************** PP

                              HHHH..HHHHTT--EEEEEE-TTS---EEEEES......--HHHHHHHHHHHHHHHHHHH CS
                    GAF_2  81 kglp..aghaglrsflavPlisegrvvGvlnlyankppafdeedlelLeelaeqiaiaie 138
                              ++++  a ++g++s++a+P++ +g+v+G +n+y++ +++f+ ++++lLe +a  i+ ai+
  PHY93_10200|PHY93_10200 264 SSWRgeALKRGYASSIALPIFFKGKVIGTFNIYSSTKDFFNKSEVDLLEKIAINISYAID 323
                              ****99****************99*******************************99996 PP

>> PAS_4  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.5   0.0     0.002       2.4      19     109 ..      53     149 ..      43     150 .. 0.83
   2 !   19.7   0.0   6.2e-07   0.00074       1     109 [.     349     460 ..     349     460 .. 0.78
   3 !   26.5   0.0   4.8e-09   5.7e-06       3     109 ..     479     586 ..     477     587 .. 0.89

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.002
                    PAS_4  19 yaNaaaaelfgappeellGktla..ellpeedaarleralrrvlegeepiefleelll.....pgeerhyelrllPlrdesGevig 97 
                              y+N a+ +++g++p+e++    a  ++  ++d ++++  +++ +++ + ++ +  + l     ++eer+++ + +P + ++G  i 
  PHY93_10200|PHY93_10200  53 YCNDAIKDILGFSPQEIVKDASAmfSIIHPDDLEGVHKSIDESAKTLKDWRYEFRVFLsgkdeSKEERWLLGHSRPEKCDDGS-IL 137
                              9******************99998877777788888887777777777666555444457999**************999999.** PP

                    PAS_4  98 vlvisrDiTerr 109
                              + ++++Di+ r+
  PHY93_10200|PHY93_10200 138 WSGLITDISSRV 149
                              ********9986 PP

  == domain 2  score: 19.7 bits;  conditional E-value: 6.2e-07
                    PAS_4   1 ldslpdalavl.dpdgrvlyaNaaaaelfgappeellGktlaellpeedaarleralrrvlegeepiefleelll...pgeerhye 82 
                              ++  p ++a +  ++g+++ +N ++++++g++ +el    + +l  + d  ++   +r+ l+ ++  +f    +    +g+ ++++
  PHY93_10200|PHY93_10200 349 FEEAPLGIASVdASNGKFISINSTFQKILGRTEDELKRLDWMSLTHP-DDLPINLEYRARLKARTIPSFKLLKRYirpDGSIVWVD 433
                              678899999995579********************988888886555.444444444444444444444443333569******** PP

                    PAS_4  83 lrllPlrdesGevigvlvisrDiTerr 109
                              l+++P+++ +G v+  l+++ DiT+r+
  PHY93_10200|PHY93_10200 434 LSVVPFKNGEGVVQKNLCMVEDITDRK 460
                              *************************96 PP

  == domain 3  score: 26.5 bits;  conditional E-value: 4.8e-09
                    PAS_4   3 slpdalavldpdgrvlyaNaaaaelfgappeellGktlaellpeedaarleralrrvleg.eepiefleelll.pgeerhyelrl. 85 
                               +pd++++ld+dg++l+ +a++ ++ g+  eel G+   el  +ed+ +++   + +  + +++++ +  +l  +g+  ++e+++ 
  PHY93_10200|PHY93_10200 479 LSPDLIVILDHDGKILFNSASSLRIHGYNKEELAGRNILELIHPEDQKQIMVEFQNLQNSpGKFLSAQYRYLNkDGSYTWMEVTAi 564
                              59**************************************9999999999999999876637888988888889***********9 PP

                    PAS_4  86 lPlrdesGevigvlvisrDiTerr 109
                              + l+++     g+++isrDi +r+
  PHY93_10200|PHY93_10200 565 NQLLNPLI--GGIIGISRDIGQRK 586
                              77776554..5***********97 PP

>> PAS_11  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0       5.1   6.1e+03      39      55 ..      75      91 ..      61      96 .. 0.72
   2 !    6.4   0.0    0.0077       9.2      11      50 ..     363     399 ..     358     452 .. 0.79
   3 !   35.5   0.0   7.2e-12   8.6e-09       5      86 ..     484     562 ..     481     567 .. 0.93

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 5.1
                   PAS_11 39 siydLchpqdlstlksh 55
                              ++ ++hp+dl+ +++ 
  PHY93_10200|PHY93_10200 75 AMFSIIHPDDLEGVHKS 91
                             578899****9988875 PP

  == domain 2  score: 6.4 bits;  conditional E-value: 0.0077
                   PAS_11  11 dgkIisvDtsaLrasfslglekeelvgrsiydLchpqdls 50 
                              +gk+is+++     +  lg +++el ++ +  L hp+dl 
  PHY93_10200|PHY93_10200 363 NGKFISINS---TFQKILGRTEDELKRLDWMSLTHPDDLP 399
                              89*******...88889999999***************64 PP

  == domain 3  score: 35.5 bits;  conditional E-value: 7.2e-12
                   PAS_11   5 ttrldidgkIisvDtsaLrasfslglekeelvgrsiydLchpqdlstlkshlrevissngeatsslyRLrlsqdkfvkvktk 86 
                              +++ld dgkI+   +s+Lr+    g++keel gr i +L+hp+d ++++  +++ ++s+g++ s+ yR   +++ + ++  +
  PHY93_10200|PHY93_10200 484 IVILDHDGKILFNSASSLRI---HGYNKEELAGRNILELIHPEDQKQIMVEFQNLQNSPGKFLSAQYRYLNKDGSYTWMEVT 562
                              6899***********88886...69************************************************999998765 PP

>> PAS_8  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   0.0      0.25     3e+02      25      40 ..      53      69 ..      51      98 .. 0.80
   2 !   23.6   0.0   3.3e-08   3.9e-05       3      51 ..     345     397 ..     344     413 .. 0.76
   3 !   10.1   0.0   0.00055      0.65       2      57 ..     472     525 ..     471     536 .. 0.78

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.25
                    PAS_8 25 dvNqaalellGys.adl 40
                             ++N+a  ++lG+s +++
  PHY93_10200|PHY93_10200 53 YCNDAIKDILGFSpQEI 69
                             7**********886544 PP

  == domain 2  score: 23.6 bits;  conditional E-value: 3.3e-08
                    PAS_8   3 lralfesspdgiavvd..lgdrivdvNqaalellGys.adlkgellg..qllpv 51 
                              +r++fe +p gia vd  +g+ ++ +N +++++lG + ++lk+ +    + +++
  PHY93_10200|PHY93_10200 345 YRTIFEEAPLGIASVDasNGK-FISINSTFQKILGRTeDELKRLDWMslTHPDD 397
                              9***************96666.*************7778877766533344444 PP

  == domain 3  score: 10.1 bits;  conditional E-value: 0.00055
                    PAS_8   2 rlralfesspdgiavvd.lgdrivdvNqaalellGysadlkgellg.qllpvlrplle 57 
                               + a+ + spd i+++d +g+ i++   + l++ Gy+   k+el g ++l+ ++p+ +
  PHY93_10200|PHY93_10200 472 MFSAITNLSPDLIVILDhDGK-ILFNSASSLRIHGYN---KEELAGrNILELIHPEDQ 525
                              688999***********5555.*************99...556665588888888877 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.5   1.8   3.5e-13   4.2e-10       2      67 .]     599     671 ..     598     671 .. 0.85
   2 ?   -3.2   0.0       7.8   9.3e+03      44      57 ..     745     758 ..     744     758 .. 0.89

  Alignments for each domain:
  == domain 1  score: 39.5 bits;  conditional E-value: 3.5e-13
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHC...........T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH CS
                    HisKA   2 lgrflagvaHELrtPLsailgnaeaLkre.........gklteelkeyletiesearrldhlvedlLdlsrieag 67 
                              + +fl   +HEL+tP++++++ +++L+r+         +     l   l++ +++++r+++lve lLd +ri+ag
  PHY93_10200|PHY93_10200 599 RDEFLIIASHELKTPITSLKLQLQMLSRRvrssenilhE--AMILSNSLASSVKQVDRITELVEHLLDVARIQAG 671
                              56888899******************9987666666322..355666*************************997 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 7.8
                              HHHHHHHHHHHHHH CS
                    HisKA  44 iesearrldhlved 57 
                              ++++++r+  +v+d
  PHY93_10200|PHY93_10200 745 LIRSSDRVKFIVKD 758
                              6899*******998 PP

>> GAF  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.4   0.0   1.4e-12   1.7e-09      36     133 .]     226     322 ..     183     322 .. 0.80

  Alignments for each domain:
  == domain 1  score: 38.4 bits;  conditional E-value: 1.4e-12
                              EEEEECCEEEETTSHHHHHHHHHSSSEEESTGGTSTTHHTTHHHHHHHHTTESEEEEEEEEETTEEEEEEEEEE.SSSCSHHHHHH CS
                      GAF  36 ipqasrwlfmkngrgicgqvlatgqplvipdstpdprfaqynrrdllenmgirsslvvPlvndgelwGllvlhn.psppftreele 120
                              i + s+    ++grg  g  +++g++ v +d+++d+ f+   +r  +   g+ ss+++P++ +g+++G++ +++ +++ f+++e++
  PHY93_10200|PHY93_10200 226 IVDISSRADLQEGRGPTGSSFREGKAFVSNDLDNDSSFSS--WRGEALKRGYASSIALPIFFKGKVIGTFNIYSsTKDFFNKSEVD 309
                              333333445566777778**********************..99999***************************555567****** PP

                              HHHHHHHHHHHHH CS
                      GAF 121 llqvladqvaval 133
                              ll+ +a  ++ a+
  PHY93_10200|PHY93_10200 310 LLEKIAINISYAI 322
                              ********99886 PP

>> GAF_3  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   4.2e-05      0.05      71     128 ..     265     323 ..     248     324 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 4.2e-05
                    GAF_3  71 sfaeedglpd.raalavPLvagrqviGvlalastkprafdaedlelleslArqiataie 128
                              s+++e   ++ ++ +a+P+  + +viG+  ++s+ +  f+ ++++lle +A  i+ ai+
  PHY93_10200|PHY93_10200 265 SWRGEALKRGyASSIALPIFFKGKVIGTFNIYSSTKDFFNKSEVDLLEKIAINISYAID 323
                              5555544444134599*****88*********998777******************997 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0     7e-05     0.084      39     104 ..     724     791 ..     715     804 .. 0.71

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 7e-05
              HATPase_c_2  39 actNavehayleapegpvevrlesdeealtvevaDsGpgfdpetlpdpteeep..keslkegGrGlal 104
                              +++N++    + ap +p++++l ++++++++ v+D+G+g  pe++ +  e        + ++G+G+ l
  PHY93_10200|PHY93_10200 724 VFVNIFSNSIKYAPGKPISISLIRSSDRVKFIVKDQGEGIAPEKQSKIFERFEraISFRNISGLGIGL 791
                              566777777777788************************77776554433222445566666665543 PP

>> PAS_12  UPF0242 C-terminal PAS-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.0   0.0     0.014        17      71      93 ..      53      75 ..      36      95 .. 0.89
   2 ?    1.0   0.0      0.25   2.9e+02     115     151 ..     167     203 ..     147     205 .. 0.82
   3 ?   -2.9   0.0         4   4.7e+03      67      87 ..     364     384 ..     350     386 .. 0.83
   4 ?    1.4   0.0      0.18   2.2e+02      59      89 ..     483     513 ..     475     532 .. 0.84

  Alignments for each domain:
  == domain 1  score: 5.0 bits;  conditional E-value: 0.014
                   PAS_12 71 faNaqirallGwssdkflqdfse 93
                             + N+ i+++lG+s++++++d s 
  PHY93_10200|PHY93_10200 53 YCNDAIKDILGFSPQEIVKDASA 75
                             89****************99764 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.25
                   PAS_12 115 skirlvlKtKagqevllncllgiipsGiFrnhvigvl 151
                              +  ++v+ +K ++ev  +++  ++ +G F    ig++
  PHY93_10200|PHY93_10200 167 QINQMVIHSKYQDEVFYEACRIVVVEGKFLMAWIGLF 203
                              345799**************99999****99988876 PP

  == domain 3  score: -2.9 bits;  conditional E-value: 4
                   PAS_12  67 nkllfaNaqirallGwssdkf 87 
                               k + +N+ ++++lG  +d++
  PHY93_10200|PHY93_10200 364 GKFISINSTFQKILGRTEDEL 384
                              578889999*****9998876 PP

  == domain 4  score: 1.4 bits;  conditional E-value: 0.18
                   PAS_12  59 ilvysqkenkllfaNaqirallGwssdkflq 89 
                              ++v    + k+lf  a + ++ G++++++  
  PHY93_10200|PHY93_10200 483 LIVILDHDGKILFNSASSLRIHGYNKEELAG 513
                              566667899******************9864 PP

>> sCache_like  Single Cache-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.1    0.0003      0.36      23      63 ..     462     501 ..     456     535 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.0003
                              -GGG-SSHHHHHHHHHHHHHHT-EEEEEETTS-EEEETTS.. CS
              sCache_like  23 enenlkaaenkkvleeasekldaritivdadgkvlydtgq.e 63 
                              ++e+lk++e+  ++ ++ + ++  i+i+d+dgk+l++++  +
  PHY93_10200|PHY93_10200 462 NEEKLKKSEE--MFSAITNLSPDLIVILDHDGKILFNSASsL 501
                              5566666555..999999999999*************99852 PP

>> sCache_3_2  Single cache domain 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0       2.9   3.4e+03       7      49 ..       2      43 ..       1      55 [. 0.80
   2 ?    1.7   0.0      0.21   2.5e+02      92     121 ..     265     292 ..     261     296 .. 0.85
   3 ?    6.3   0.0     0.008       9.6      47      74 ..     473     502 ..     452     518 .. 0.76

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 2.9
               sCache_3_2  7 aealeeralalatsvagsrivrvaltdrapesglqalvddvrr 49
                             +e++ e+ + l ++v+g ++++ ++ d + +++ ++++ ++r 
  PHY93_10200|PHY93_10200  2 IENQNEKIIHLPQQVPGMIENQCSILD-HITQHFPGMIYQYRL 43
                             6899999999***********999999.777777777766665 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.21
               sCache_3_2  92 ayvgtvtgtlgpslrvklPvfdadgrviGi 121
                              +++g++ + +g +  ++lP+f   g+viG+
  PHY93_10200|PHY93_10200 265 SWRGEA-LKRGYASSIALPIFF-KGKVIGT 292
                              577777.67899999*******.9*****8 PP

  == domain 3  score: 6.3 bits;  conditional E-value: 0.008
               sCache_3_2  47 vrritgvd..yvvitDeegrvlahpdpaev 74 
                               ++it+++   +vi+D++g++l+++  +  
  PHY93_10200|PHY93_10200 473 FSAITNLSpdLIVILDHDGKILFNSASSLR 502
                              56677777779*************977644 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (825 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       739  (0.0412181); expected 358.6 (0.02)
Passed bias filter:                      622  (0.0346924); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.74u 0.30s 00:00:01.04 Elapsed: 00:00:00.44
# Mc/sec: 5585.51
//
Query:       PHY93_10205|PHY93_10205  [L=251]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.8e-74  250.2   1.3    2.1e-74  250.0   1.3    1.0  1  adh_short_C2     Enoyl-(Acyl carrier protein) reductase
    1.3e-59  200.9   3.6    1.6e-59  200.7   3.6    1.0  1  adh_short        short chain dehydrogenase
    7.7e-14   52.0   0.5    1.2e-13   51.3   0.4    1.3  1  KR               KR domain
  ------ inclusion threshold ------
      0.013   15.2   0.3      0.028   14.2   0.3    1.6  1  Eno-Rase_NADH_b  NAD(P)H binding domain of trans-2-enoyl-CoA 
      0.047   13.1   0.3      0.088   12.3   0.3    1.8  1  Epimerase        NAD dependent epimerase/dehydratase family


Domain annotation for each model (and alignments):
>> adh_short_C2  Enoyl-(Acyl carrier protein) reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  250.0   1.3   5.8e-78   2.1e-74       1     233 [.      14     250 ..      14     251 .] 0.97

  Alignments for each domain:
  == domain 1  score: 250.0 bits;  conditional E-value: 5.8e-78
                              TTTTSHHHHHHHHHHHTT-EEEEEESSGGH.HHHHHHHHHHTTSEE.EE--TTSHHHHHHHHHHHHHHHSSEEEEEE-----EGCS CS
             adh_short_C2   1 GaasgIGraiAkalaeeGaevvltdlneea.kkrveelaeelgaev.lecDVtdeeqvealveevvekfgklDilvnnagiapklk 84 
                              Ga sgIG+a A a+a+eGa+vv++d++ ++ ++ v ++++e g++v ++cDV+ e++v+++v+++vekfg+l++++nnag+  + +
  PHY93_10205|PHY93_10205  14 GASSGIGAASALAFAREGASVVVADVQIARgEELVSRIQAEDGKAVfIKCDVSLESDVKNMVAKTVEKFGHLNCAFNNAGVEGD-S 98 
                              899***************************9***********99966*************************************.9 PP

                              S-GGGH-HHHHHHHHHHHTHHHHHHHHHHHH.HCTSC.CEEEEEEEGGGTSBSTTTTHHHHHHHHHHHHHHHHHHHHGGGTEEEEE CS
             adh_short_C2  85 gpfletsreefdraldvnlyslfllakaalp.lmkeg.gsivnlssvgaervvpnynaygaaKaalealtrylAvelgpkgiRvNa 168
                              ++++ +s e++d+++++nl++++l++k+ +p ++k+g gsivn+ssv++ +++++  ay+a+K+++++lt+++A e++ k+iRvNa
  PHY93_10205|PHY93_10205  99 ANTMMCSNENWDKIMNINLKGVWLCMKYQIPeMLKNGgGSIVNCSSVAGIVGFSGSPAYTASKHGVIGLTQAAALEFAVKKIRVNA 184
                              *******************************9888888************************************************ PP

                              EEE--BHCTGGGGSTT.HHHHHHHHHHHSTTSS-B-HHHHHHHHHHHCSGGGTT--SEEEEESTTG CS
             adh_short_C2 169 vspgpikTlaasgikg.fdelleelearaplgrlgtpeevaeaalfLasdeasyitGqtlvvDgGl 233
                              ++pg+i+T++ +++++ + e+ + l +  p gr+g pee+a+aal+L+sd++s++tG+ lvvDgG+
  PHY93_10205|PHY93_10205 185 ICPGIIQTPMIERFTHgEAEVTKMLMEGEPAGRMGLPEEIAQAALWLCSDASSFVTGHPLVVDGGW 250
                              **********8877664889*********************************************6 PP

>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  200.7   3.6   4.4e-63   1.6e-59       1     192 [.       8     200 ..       8     203 .. 0.96

  Alignments for each domain:
  == domain 1  score: 200.7 bits;  conditional E-value: 4.4e-63
                              SEEEEESTTSHHHHHHHHHHHHTT-EEEEEESCHHHHHHHHHHHHHTTSEEEEEE-TTTSHHHHHHHHHHHHHHHSSESEEEE--- CS
                adh_short   1 kvvlvtGassGIGraiakelakeGakvvvvdrseekleevakelkeegakalaiqvDvtdreevealvekavkklgkldvLvnNAG 86 
                              kvv++tGassGIG a a ++a+eGa+vvv+d + ++ ee+++ +++e  ka++i++Dv+ +++v+++v+k v+k+g+l++  nNAG
  PHY93_10205|PHY93_10205   8 KVVIITGASSGIGAASALAFAREGASVVVADVQIARGEELVSRIQAEDGKAVFIKCDVSLESDVKNMVAKTVEKFGHLNCAFNNAG 93 
                              89************************************************************************************ PP

                              SS--SSGGGCSHHH.HHHHHHHHTHHHHHHHHHHHHHHHHCTTEEEEEEEEGGGTSB-TTBHHHHHHHHHHHHHHHHHHHHHGGGT CS
                adh_short  87 itgsgpfselseee.wervievNltgvflltravlpamlkqssGrIvnvsSvagkvpvagvaaYsAsKaavagltrslakelaptg 171
                              ++g+++   ++++e w++++++Nl+gv l+++  +p+mlk+ +G+Ivn sSvag v++ g +aY+AsK++v+glt+++a e+a ++
  PHY93_10205|PHY93_10205  94 VEGDSANTMMCSNEnWDKIMNINLKGVWLCMKYQIPEMLKNGGGSIVNCSSVAGIVGFSGSPAYTASKHGVIGLTQAAALEFAVKK 179
                              *88877777777777*********************************************************************** PP

                              EEEEEEEESSBSSHHHHHHCT CS
                adh_short 172 irvnavaPGlvdTdmakelre 192
                              irvna++PG+++T+m ++ ++
  PHY93_10205|PHY93_10205 180 IRVNAICPGIIQTPMIERFTH 200
                              ***************887665 PP

>> KR  KR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.3   0.4   3.4e-17   1.2e-13       3     152 ..      10     160 ..       8     171 .. 0.88

  Alignments for each domain:
  == domain 1  score: 51.3 bits;  conditional E-value: 3.4e-17
                              EEEETTTSHHHHHHHHHHHHHHS-EEEEE-SS..--HHHHHHHHHHHHTT-EEEE----TT-HHHHHHHHHHHHHHSS---EEEE- CS
                       KR   3 ylitGGlGgLGlelarwlaekgarhlvllsRsaaadedskaliaelealgaevevvaaDvsdkdavealleeikaeeppikGviha 88 
                              ++itG+  g+G + a   a++ga+ +v         ++ ++l+++++a + +  ++++Dvs +++v++++++  ++++ ++  ++ 
  PHY93_10205|PHY93_10205  10 VIITGASSGIGAASALAFAREGASVVVADVQI----ARGEELVSRIQAEDGKAVFIKCDVSLESDVKNMVAKTVEKFGHLNCAFNN 91 
                              79*********************988876655....456679******************************************** PP

                              --------.TTT--HHHHHHHHTTTTHHHHHHHHHTTTS--S....EEEEEEEHHHHH--TT-HHHHHH CS
                       KR  89 Agvlrdkl.leemtaedleqvlapKvkGawnLhelledesld....ffvlfSSiagllgsagqanYaaa 152
                              Agv  d++  + +++e+++++++  +kG+w   ++  +e l+     +v +SS+ag++g  g  +Y+a 
  PHY93_10205|PHY93_10205  92 AGVEGDSAnTMMCSNENWDKIMNINLKGVWLCMKYQIPEMLKngggSIVNCSSVAGIVGFSGSPAYTAS 160
                              ***998762567799***************999988775554222279******************996 PP

>> Eno-Rase_NADH_b  NAD(P)H binding domain of trans-2-enoyl-CoA reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.3   7.9e-06     0.028      39      65 ..       6      31 ..       1      41 [. 0.82

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 7.9e-06
                             .-SEEEEESTSSHHHHHHHHHHHHSS- CS
          Eno-Rase_NADH_b 39 gpkkvLviGaStGYGLAsriaaafgag 65
                             + k v++ GaS+G G As +a a++ g
  PHY93_10205|PHY93_10205  6 KNKVVIITGASSGIGAASALAFARE-G 31
                             469999************9998876.3 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.3   2.5e-05     0.088       1      73 [.      10      93 ..      10     246 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 2.5e-05
                             EEEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHC.......EEEE--TT-HHHHHHHHHHH.....T-SEEEE--S CS
                Epimerase  1 ilVtGatGfiGsalvkallekgyevigldrlssasntarledl.......elveldltdrsalerlfkee.....qpdavihlAa 73
                             +++tGa+  iG+a + a++++g  v++ d +  ++++   + +        ++++d+  +s+++++++++     + ++ ++ A+
  PHY93_10205|PHY93_10205 10 VIITGASSGIGAASALAFAREGASVVVADVQIARGEELVSR-IqaedgkaVFIKCDVSLESDVKNMVAKTvekfgHLNCAFNNAG 93
                             68*****************************5555544443.269999999******9999887777653300033334444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (251 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       594  (0.0331307); expected 358.6 (0.02)
Passed bias filter:                      468  (0.026103); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.38
# Mc/sec: 1994.67
//
Query:       PHY93_10210|PHY93_10210  [L=91]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.6e-08   34.8   0.0    1.8e-08   34.6   0.0    1.1  1  PP-binding     Phosphopantetheine attachment site
    2.1e-06   27.9   0.1    3.3e-06   27.2   0.1    1.5  1  Ribosomal_L50  Ribosomal subunit 39S


Domain annotation for each model (and alignments):
>> PP-binding  Phosphopantetheine attachment site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.6   0.0     2e-12   1.8e-08      17      67 .]      27      78 ..       6      78 .. 0.82

  Alignments for each domain:
  == domain 1  score: 34.6 bits;  conditional E-value: 2e-12
               PP-binding 17 eidpdtdlfd.lGlDSllavellaaleeefgveiplsdlfehptlaelaayl 67
                              i+++ +l+d   +DSl++  ++++l+++ g+ ip+s l e+++lael++y+
  PHY93_10210|PHY93_10210 27 KINLNLSLRDqIEIDSLDLYNIVVSLQKKTGIYIPDSKLAELSSLAELINYI 78
                             3799999**77***************************************98 PP

>> Ribosomal_L50  Ribosomal subunit 39S
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.2   0.1   3.7e-10   3.3e-06      42      81 ..      46      84 ..       2      90 .. 0.80

  Alignments for each domain:
  == domain 1  score: 27.2 bits;  conditional E-value: 3.7e-10
            Ribosomal_L50 42 FaflkrlqqllgheipDykltklhtvkdlveyleevvnpk 81
                             ++++ +lq+++g++ipD kl++l+++++l++y+  v n+k
  PHY93_10210|PHY93_10210 46 YNIVVSLQKKTGIYIPDSKLAELSSLAELINYI-LVENKK 84
                             577889***************************.555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (91 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       500  (0.0278878); expected 358.6 (0.02)
Passed bias filter:                      340  (0.0189637); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.37u 0.21s 00:00:00.57 Elapsed: 00:00:00.36
# Mc/sec: 767.32
//
Query:       PHY93_10215|PHY93_10215  [L=367]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.3e-60  203.1   0.0    6.6e-60  202.5   0.0    1.2  1  2-oxoacid_dh     2-oxoacid dehydrogenases acyltransferase (ca
    1.2e-18   66.7   3.6    8.2e-18   64.0   2.2    2.4  2  Biotin_lipoyl    Biotin-requiring enzyme
    1.2e-10   41.5   0.0    2.4e-10   40.6   0.0    1.5  1  E3_binding       e3 binding domain
     0.0071   16.5   0.1      0.026   14.7   0.1    2.0  1  Enolase_N        Enolase, N-terminal domain
     0.0088   15.9   0.4      0.022   14.6   0.4    1.7  1  GCV_H            Glycine cleavage H-protein
  ------ inclusion threshold ------
      0.016   15.1   0.5       0.08   12.9   0.2    2.1  2  RnfC_N           RnfC Barrel sandwich hybrid domain
      0.017   14.9   1.1        2.4    8.0   0.2    2.5  2  Biotin_lipoyl_2  Biotin-lipoyl like


Domain annotation for each model (and alignments):
>> 2-oxoacid_dh  2-oxoacid dehydrogenases acyltransferase (catalytic domain)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  202.5   0.0   2.6e-63   6.6e-60      11     228 ..     151     366 ..     142     367 .] 0.97

  Alignments for each domain:
  == domain 1  score: 202.5 bits;  conditional E-value: 2.6e-63
                              XXXXXXXXXXXXXX.XXXEEEEEEEEE-HHHHHHHHHHHHHHHHTT-----HHHHHHHHHHHHHHH-GGGG-EE.EESEEEE--SS CS
             2-oxoacid_dh  11 girkaiakrlteskqeiphftlsdevdvtallelrkelkekeakeekakltlldflikavalAlkefPelnasvdeeekeivvkkh 96 
                              ++r+aia+ +++sk+eiph++l + +++++l+++++e+++k++ ++  +l l ++l++av+ Alk+fPe+n +++e++  ++ +++
  PHY93_10215|PHY93_10215 151 NLRQAIAAVMSRSKKEIPHYYLKKRMNLDSLMNWLDETNKKLTPPD--RLLLPALLMRAVIVALKKFPEMNGYFKEDR--FEASSN 232
                              68****************************************9666..8*************************9999..****** PP

                              --EEEE----.----EEEE--GGG--HHHHHHHHHHHHHHHTTT---GGGTSS-SEEEE---------------TT-SEEEEE--- CS
             2-oxoacid_dh  97 vniGvAvatp.rGLlvPviknadkkslleiakelkelaekaregklkpedleggtftisNlGmlGvtsftPiinppqvaIlgvgri 181
                              +n+G+A +++  G++vP++ +adk+s++e+ k++++la +++eg lk  +l++gtfti+N+G lG++++  ii ppqvaI+g+g i
  PHY93_10215|PHY93_10215 233 INLGIAFSVKgGGVIVPAVLEADKMSTSEFNKAVQNLAMRTKEGGLKNRELSEGTFTITNVGDLGSDEVYGIIFPPQVAIVGIGHI 318
                              **********777************************************************************************* PP

                              .B--TT.STT-HT---EEEEEEEEETTT--HHHHHHHHHHHHHTT-HH CS
             2-oxoacid_dh 182 kerpvv.kegelvvrkvmtlslsaDHRvidGaeaarFlntlkkllenp 228
                              +++p++ ++++l+++ v+ ++lsaDHRv dG  +arFln+++k l++p
  PHY93_10215|PHY93_10215 319 RKEPIIdRQDQLRAGFVVDITLSADHRVSDGLLGARFLNEIEKKLNDP 366
                              ******9************************************99998 PP

>> Biotin_lipoyl  Biotin-requiring enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.0   2.2   3.2e-21   8.2e-18       3      73 .]       5      76 ..       4      76 .. 0.98
   2 ?    1.1   0.0      0.14   3.7e+02      34      43 ..     250     259 ..     240     260 .. 0.79

  Alignments for each domain:
  == domain 1  score: 64.0 bits;  conditional E-value: 3.2e-21
                             EEESSSEEEEEE..ECSESSSTTCEE-TTSEEEEEECTTEEEEEEBSSSEEEEEESSTTTEEE-TTCEEEEE CS
            Biotin_lipoyl  3 iksPmiGesveeg.vvevlvkvGdkVkagqvlaeveamKmemeieapkaGvvkeilvkeGdtvevgdllaki 73
                             + +P++G ++ eg  +e+++kvGdk+ ++qv+a ve+ K ++++e+  +G+v ei +keGd ++vg ++a++
  PHY93_10215|PHY93_10215  5 LPMPSLGADMDEGkLMEWKIKVGDKILKNQVIAAVETTKSVVDVESFREGTVMEIIAKEGDVIQVGRPIAIL 76
                             679******************************************************************986 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.14
                              EEEECTTEEE CS
            Biotin_lipoyl  34 aeveamKmem 43 
                              a++ea+Km++
  PHY93_10215|PHY93_10215 250 AVLEADKMST 259
                              69******86 PP

>> E3_binding  e3 binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.6   0.0   9.3e-14   2.4e-10       1      36 []     101     136 ..     101     136 .. 0.97

  Alignments for each domain:
  == domain 1  score: 40.6 bits;  conditional E-value: 9.3e-14
                              SBE-HHHHHHHHHCT--TTTS---CTTTBE-HHHHC CS
               E3_binding   1 vlAsPaaRklAkelGidLsdvkGtGpgGRItkeDVl 36 
                              +++sP a+k+A+e+ id s++kGtG  G It +D++
  PHY93_10215|PHY93_10215 101 IKISPVAKKMAEENHIDFSQIKGTGAEGEITLKDIE 136
                              689*******************************97 PP

>> Enolase_N  Enolase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.1     1e-05     0.026      45     100 ..     136     191 ..      75     194 .. 0.83

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1e-05
                              -B----SSTTSGGGT--HHHHHHHHHTHHHHHTTSBTT-HHHHHHHHHHHH-STT- CS
                Enolase_N  45 alelrDgdkkrylgkgvekavenvnekiapaligldvtdqeeiDkllielDgtenk 100
                                +lr + +k +lg  +++a+++v ++ ++++ ++  ++  ++D+l+  lD+t++k
  PHY93_10215|PHY93_10215 136 ETKLRTKTEKAFLGVNLRQAIAAVMSRSKKEIPHYYLKKRMNLDSLMNWLDETNKK 191
                              3456666799*******************************************987 PP

>> GCV_H  Glycine cleavage H-protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.6   0.4   8.7e-06     0.022      32      74 ..      18      59 ..       9      68 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 8.7e-06
                             SEEEEE---TT-EE-TT-EEEEEEESS-EEEEE-SSSEEEEEE CS
                    GCV_H 32 dvvfvelpevgtkvkkgeslaavEsvKaasevyapvsGevvev 74
                             +++  ++ +vg+k+ k++ +aavE+ K++ +v +  +G+v+e+
  PHY93_10215|PHY93_10215 18 KLMEWKI-KVGDKILKNQVIAAVETTKSVVDVESFREGTVMEI 59
                             5555565.49*******************************97 PP

>> RnfC_N  RnfC Barrel sandwich hybrid domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.2   3.1e-05      0.08      42      80 ..      20      59 ..      12      64 .. 0.83
   2 ?    1.5   0.0      0.11   2.8e+02      39      59 ..      54      74 ..      48      88 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 3.1e-05
                   RnfC_N 42 akplvkvgdkVlkGqkiaeaeg.fvsapvhasvsGtVkai 80
                              +  +kvgdk+lk+q+ia+ e+    + v +   GtV++i
  PHY93_10215|PHY93_10215 20 MEWKIKVGDKILKNQVIAAVETtKSVVDVESFREGTVMEI 59
                             56679**************998445678999999999998 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.11
                   RnfC_N 39 GapakplvkvgdkVlkGqkia 59
                             G+  +++ k+gd ++ G  ia
  PHY93_10215|PHY93_10215 54 GTVMEIIAKEGDVIQVGRPIA 74
                             67789999*********9998 PP

>> Biotin_lipoyl_2  Biotin-lipoyl like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.2   0.1    0.0072        18      10      36 ..      16      42 ..       9      46 .. 0.88
   2 ?    8.0   0.2   0.00095       2.4       7      34 ..      50      77 ..      44      80 .. 0.86

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.0072
          Biotin_lipoyl_2 10 sGrVaqlnVkdGqrVkaGdvLaelDsr 36
                              G++ ++ +k G+ + + +v+a  +++
  PHY93_10215|PHY93_10215 16 EGKLMEWKIKVGDKILKNQVIAAVETT 42
                             699*******************98876 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.00095
          Biotin_lipoyl_2  7 apvsGrVaqlnVkdGqrVkaGdvLaelD 34
                             +   G+V ++  k+G++++ G  +a+lD
  PHY93_10215|PHY93_10215 50 SFREGTVMEIIAKEGDVIQVGRPIAILD 77
                             55579**********************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (367 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       683  (0.0380947); expected 358.6 (0.02)
Passed bias filter:                      468  (0.026103); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.51u 0.20s 00:00:00.71 Elapsed: 00:00:00.36
# Mc/sec: 3018.83
//
Query:       PHY93_10220|PHY93_10220  [L=321]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.9e-37  127.3   0.0    5.2e-37  126.5   0.0    1.4  1  Transketolase_C  Transketolase, C-terminal domain
    1.5e-36  125.7   0.0    2.3e-36  125.1   0.0    1.2  1  Transket_pyr     Transketolase, pyrimidine binding domain
     0.0011   19.2   0.0     0.0022   18.3   0.0    1.5  1  PFOR_II          Pyruvate:ferredoxin oxidoreductase core doma


Domain annotation for each model (and alignments):
>> Transketolase_C  Transketolase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  126.5   0.0   8.6e-41   5.2e-37       2     124 .]     193     314 ..     192     314 .. 0.98

  Alignments for each domain:
  == domain 1  score: 126.5 bits;  conditional E-value: 8.6e-41
                              EEEEEETTSSEEEEEETTHHHHHHHHHHHHHTTTTCEEEEE-SEEESHHHHHHHHHHHHHSEEEEEEEEESTTSHHHHHHHHHHHC CS
          Transketolase_C   2 kaeilregkdvtlvayGsmveealeAaeeLekegisaeVvdlrtvkplDketilesvkktgrlvvveeavkrgGigsevaaalaee 87 
                              ka+i+++gkd+tl++yG m++++l+A +e ek+g ++eV+dlr+++plD eti  s++kt+r+++v+e++++g++++e++a+++e 
  PHY93_10220|PHY93_10220 193 KAQIKKPGKDLTLITYGGMLPRCLKASDEMEKKGREIEVIDLRSLRPLDDETIFTSLRKTHRVLIVDEGWRSGSLSAEISARIMES 278
                              89************************************************************************************ PP

                              CCTTCSSEEEEEEE-SSSSSSGHHHHHHHTT-SHHHH CS
          Transketolase_C  88 afdgldapvkrvggpdviepgsaeelekafgldaeki 124
                              +f +ldapv+r++ ++v+ p++  +le+a++++ ++i
  PHY93_10220|PHY93_10220 279 CFYDLDAPVQRLCRKEVPIPYA-RHLEEAIIPQIADI 314
                              **********************.77******998876 PP

>> Transket_pyr  Transketolase, pyrimidine binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  125.1   0.0   3.8e-40   2.3e-36       3     174 ..       3     175 ..       1     178 [. 0.97

  Alignments for each domain:
  == domain 1  score: 125.1 bits;  conditional E-value: 3.8e-40
                              EEHHHHHHHHHHHHHCTTTTEEEEESSTH..HHHTTCHCCHHEGGTTEGEEE--S-HHHHHHHHHHHHHHCTTEEEEEEEEHHHHG CS
             Transket_pyr   3 iawrkaeaealaellkedpevvligaDva..ggtfsvrkgllhdqgegrvidsgisEqavlgfavGaalagpllviveaqFgdFan 86 
                              +++r+a+++ l+e+l++ ++ +lig+Dv+  ggt+ v k+ l ++g++r+id ++sE +++g+ +Gaa+ g +++ive++ ++Fa 
  PHY93_10220|PHY93_10220   3 LTYREALRLGLKEVLATHKNSFLIGEDVGayGGTYAVSKDFLAEFGSERIIDAPLSEVGFTGIGIGAAMGG-MKPIVEIMTVNFAL 87 
                              789********************************************************************.8************* PP

                              GG..HHGGHHHHHCHHHHHT--EEEEESBSGGGSTTGTTTSBSSHHHHHHTSTTEEEE--SSHHHHHHHHHHHHHSSS.SEEEEEE CS
             Transket_pyr  87 gA..qiyadqairsgeakgklkvgvvtrlpigvgedGpehqsaeleaflrlipglkvvrPsdpaetkhllrrairredrkPvvlrl 170
                               A  qi++++ai++ +++g++  ++v+r+  g g + ++++s + e +l++ipglk+++P++ ++++ +l  ai+  ++ Pv l++
  PHY93_10220|PHY93_10220  88 LAfdQIINSAAIVNFMSGGQISLPLVIRMTSGGGRQLAAQHSNSFEGWLAHIPGLKILTPATVEDARFMLGYAIK--ENSPVLLIE 171
                              ***************************************************************************..788*****9 PP

                              -SSE CS
             Transket_pyr 171 pksl 174
                              +  l
  PHY93_10220|PHY93_10220 172 HALL 175
                              9655 PP

>> PFOR_II  Pyruvate:ferredoxin oxidoreductase core domain II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.0   3.7e-07    0.0022       2      80 ..     202     277 ..     201     293 .. 0.91

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 3.7e-07
                              SEEEEE-STHHHHHHHHHHHHHHTT--EEEEEES--BS--HHHHHHHSTT-SEEEEEE-S--TT-G-HHHHHHHHHTGG CS
                  PFOR_II   2 evvivamGsvagtaksavdelReegikvGllrlrtlrPFPeeelkellkkvkkvvvldrnisfgseGqlveevkaalkk 80 
                              +  ++++G +   + +a de+ ++g ++ ++ lr+lrP   e + + l+k+++v+ +d       +G l  e++a + +
  PHY93_10220|PHY93_10220 202 DLTLITYGGMLPRCLKASDEMEKKGREIEVIDLRSLRPLDDETIFTSLRKTHRVLIVDEGW---RSGSLSAEISARIME 277
                              56799******************************************************99...469999999887765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (321 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       344  (0.0191868); expected 358.6 (0.02)
Passed bias filter:                      325  (0.0181271); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.38
# Mc/sec: 2523.79
//
Query:       PHY93_10225|PHY93_10225  [L=313]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (313 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       395  (0.0220313); expected 358.6 (0.02)
Passed bias filter:                      178  (0.00992805); expected 358.6 (0.02)
Passed Vit filter:                         6  (0.000334653); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.39
# Mc/sec: 2435.99
//
Query:       PHY93_10230|PHY93_10230  [L=576]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.8e-82  277.2   0.0    2.3e-82  276.9   0.0    1.1  1  AMP-binding    AMP-binding enzyme
    5.8e-21   75.3   0.1    5.6e-20   72.1   0.1    2.3  2  AMP-binding_C  AMP-binding enzyme C-terminal domain


Domain annotation for each model (and alignments):
>> AMP-binding  AMP-binding enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  276.9   0.0   2.6e-86   2.3e-82      10     422 ..      62     479 ..      58     480 .. 0.88

  Alignments for each domain:
  == domain 1  score: 276.9 bits;  conditional E-value: 2.6e-86
                              TSEEEEE........CCSTEEEEHHHHHHHHHHHHHHHHHTTSSTT-EEEEEESSSHHHHHHHHHHHHTT-EEEEEETTS-HHHHH CS
              AMP-binding  10 dkvalvd........sgegqtlTYreldervnrlAagLrslGvkkgdrVaillpnspewvvallailkaGavvvplnptltaeela 87 
                              +k+a+ +        +++ + +TY+el  ++++l ++L++lG+ kgd++  l+p+ p+ ++++la l+ G+v++pl + +++e ++
  PHY93_10230|PHY93_10230  62 NKTAIRFigkswpknQNDIKDITYGELLVQTKQLTRALTHLGLSKGDVIFSLSPRLPQSYLMALASLRSGIVYSPLFSVFGPEPIK 147
                              566665566777777778999***************************************************************** PP

                              HHHHHHTESEEEETCTCCC.HHHHHHHHSCC-EECEEEEESCCS-HCCHCCCHCCCCSCTTS..-TSCCCS-BTTSEEEEEEE--S CS
              AMP-binding  88 yiledseakvliatvdsel.leklleaaakleavklvivldadellkeeelkeeeeseekae..kpeeeeelkpddlayiiYTSGT 170
                                + + ++k+l+  + + l  +k+ +++++l + k  i+ d+d+++k    +++ +     +  +++ ++++++dd+a++ +TSGT
  PHY93_10230|PHY93_10230 148 ARMIKGNVKALF--TLASLyQKKISPIRDSLTSLKYLIIFDDDGSAKDIANYIDLNLLLT-ThyEEPVAVKTSADDIALLHFTSGT 230
                              ************..8888999********************9999988777776655544.1454557779*************** PP

                              SSS-EEEEEEHHHHHHHHHHHHHHHCSCCTTT-EEEESS-TTSCHHHHHHHHHHHHTT-EEEE-TTCGCCHHHHHHHHHHHHT-SE CS
              AMP-binding 171 TGkPKGVmlshrnlvanvaslkletrfklkeddvvlsilplahifglilelllallsGatvvllpkdaaldpklllelieklkvtv 256
                              TG PKG+m+ h+++v+   s k+    ++k+dd ++++++  +++g +++++ +l++G t+++   +a++++++++e ++k+kv+ 
  PHY93_10230|PHY93_10230 231 TGIPKGAMHVHGAVVFHQLSGKWA--LDFKSDDIFWCTADPGWVTGTSYGIISPLCNGVTLII--DEAEFNARRWYEILQKFKVSS 312
                              ***********8888775564433..44668******************************99..44557889************* PP

                              EEEEHHHHHHHHHCCCHHCHHHHCCGTT-SEEEEESS-EBHHHHHHHHHHHTCEEEEEEEEGGGSSECEECHCTTTCTSTTS-BEE CS
              AMP-binding 257 iagvPrvleallesgalkaakkakdlsslrlvllggeplspellrffralfgeevlegYGlTEttgvvtvlpleedkkklgsvGkp 342
                              ++++P+++++l+++g++    ++ dls +r++ ++gepl+pe++ ++++ +g ++++ +++TEt+g+++  + +    k+gs Gkp
  PHY93_10230|PHY93_10230 313 WYTAPTAMRMLMKAGEEL--PHEFDLSTVRFAASVGEPLNPEVIWWVKKNLGISLHDNWWQTETGGIII-SNFSSMAIKPGSMGKP 395
                              *************65443..3455**************************999***************7.5556666689****** PP

                              -TTEEEEEE...-TTTSCBEE.TTSEEEEEEE..ETTS-SEBTT-HHHHHHHEEETCCEEEEEEEEEEETTSEEEEEEECCCEEEE CS
              AMP-binding 343 lpgvevkiv...Deetgepvp.dgeeGellvr..gpgvmkgYlkkpeataeafdsegrwlrTGDlgrldedGyleivgRkkdlikl 422
                              lpg+ev+++   +++++e v+ ++eeG++ ++   p++++gYl++ e+  + f+  g+w+ +GDl+++d dGy+++vgR++d+ik+
  PHY93_10230|PHY93_10230 396 LPGIEVALIkllNDDQQEIVEdPNEEGQIAIKvgWPSMFRGYLGENERYLKCFK--GDWYLSGDLAKFDSDGYFWFVGRADDVIKS 479
                              *****876666688889999868999**997743679****************8..68**************************97 PP

>> AMP-binding_C  AMP-binding enzyme C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.0      0.14   1.3e+03      42      73 ..      30      77 ..       5      79 .. 0.64
   2 !   72.1   0.1   6.3e-24   5.6e-20       1      76 []     488     566 ..     488     566 .. 0.94

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.14
                             HHHHHHHHHHH..............HT-TTTS-S.EEEE-.S---B-T CS
            AMP-binding_C 42 leeeLkahvrk..............elgpyavpk.kvvfv.delpktr 73
                               e+Lk++v+k              +lg++  +k +++f+ ++ pk++
  PHY93_10230|PHY93_10230 30 WSEALKQKVAKnngalnichealdvHLGTVVENKtAIRFIgKSWPKNQ 77
                             568899999885555555555555566666655545556655566665 PP

  == domain 2  score: 72.1 bits;  conditional E-value: 6.3e-24
                              HHHHHHHSSTTEEEEEEE-----TTS---EEEEEE---..---..HHHHHHHHHHHHT-TTTS-SEEEE-S---B-TTS- CS
            AMP-binding_C   1 evEsalvshpaVaeaaVvGvpdevkGealvafVvlkdg..sea..leeeLkahvrkelgpyavpkkvvfvdelpktrsGK 76 
                              evEs+l++hpaV eaaV+G+pd++ Ge ++af vlk++  +    l+ ++++++r +lg   +pk++ f+d lpktr GK
  PHY93_10230|PHY93_10230 488 EVESVLMEHPAVLEAAVIGKPDQIAGELVKAFAVLKKNyrP-TesLRLDIMSFARIHLGVSVAPKEISFIDNLPKTRRGK 566
                              8**********************************988542.146**********************************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (576 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       357  (0.0199119); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.41
# Mc/sec: 4237.61
//
Query:       PHY93_10235|PHY93_10235  [L=146]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.13   12.4   2.8       0.23   11.6   0.0    2.5  2  Ycf66_N   Ycf66 protein N-terminus
        5.6    7.0  10.9       0.27   11.3   1.2    2.2  2  TspO_MBR  TspO/MBR family


Domain annotation for each model (and alignments):
>> Ycf66_N  Ycf66 protein N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   2.6e-05      0.23       6      27 ..      64      85 ..      59      96 .. 0.84
   2 ?   -1.1   1.7      0.24   2.2e+03      35      48 ..     109     116 ..     102     144 .. 0.45

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 2.6e-05
                  Ycf66_N  6 vlalaslaLYflrffkPelard 27
                             ++++++++L+f+r++ Pel  +
  PHY93_10235|PHY93_10235 64 AVVMGGMGLFFTRNIDPELMSQ 85
                             6899**************9755 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.24
                  Ycf66_N  35 vgLlygliLlfqaw 48 
                              + Llygl      w
  PHY93_10235|PHY93_10235 109 IVLLYGL------W 116
                              3333332......2 PP

>> TspO_MBR  TspO/MBR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   1.2     3e-05      0.27      71     103 ..      44      76 ..      38      88 .. 0.87
   2 ?    0.7   2.8     0.057   5.1e+02      49      81 ..     107     138 ..      86     144 .. 0.55

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 3e-05
                              HHTSGGCTTTTTSGGGHHHHHHHHHHHHHHHHH CS
                 TspO_MBR  71 nllwsplffglkspvlalvdivallglvvalil 103
                               ++w++ ff+ ++  +al++ v++ g+ +++++
  PHY93_10235|PHY93_10235  44 GAIWTTYFFWNQNWQAALLNAVVMGGMGLFFTR 76 
                              589*********************999998884 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.057
                              HHHHHHHHHHHHHHHHHHHHHHHHTSGGCTTTT CS
                 TspO_MBR  49 lmgvaaylvwkalalyavqlvlnllwsplffgl 81 
                               + v +y +w++l + ++ ++l ++    ffg+
  PHY93_10235|PHY93_10235 107 GIIVLLYGLWTHL-VVTILIGLSVIILGHFFGW 138
                              2333334455554.4444455555555555544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (146 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       722  (0.04027); expected 358.6 (0.02)
Passed bias filter:                      344  (0.0191868); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.39u 0.20s 00:00:00.59 Elapsed: 00:00:00.36
# Mc/sec: 1221.90
//
Query:       PHY93_10240|PHY93_10240  [L=474]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   1.4e-144  482.3   0.2   1.6e-144  482.1   0.2    1.0  1  RtcB      tRNA-splicing ligase RtcB


Domain annotation for each model (and alignments):
>> RtcB  tRNA-splicing ligase RtcB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  482.1   0.2    9e-149  1.6e-144       1     410 [.      45     474 .]      45     474 .] 0.98

  Alignments for each domain:
  == domain 1  score: 482.1 bits;  conditional E-value: 9e-149
                              HHHHHTTSTTB-S-EEEEEEEE--SSS-EEEEEEE-....-EE-HHHC-SST.-EEEEEEEEEEHHHHGGGHHHHHHHHHHHS--- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     RtcB   1 qlknvaslpgivkhvaamPDvHlGkgapiGsViatk....gviiPaaVGvDI.CGvrllktnltaeeleeklkelvkelekavpvg 81 
                              q+ nva+lpgiv +++amPD+H+G+g+piG+V+a++    g++++++VG+DI CGvrll+t ++ ee+ +k ++l++ l+k++p+g
  PHY93_10240|PHY93_10240  45 QICNVATLPGIVDKAYAMPDAHWGYGFPIGGVAAFDpelgGIVSAGGVGFDIsCGVRLLHTGMKIEEIMDKKNTLADLLFKKIPSG 130
                              899*********************************************************************************** PP

                              ----------HHHHHHHHHHTHHHHHHTTSS-GGGGGGBGGGG--TT--GGGS-HHHHHHHGGGTT---STT-EEEEEEEEEES-H CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     RtcB  82 lgskkkvklskkeleevleegakwaveeglgeeedlekieeegalkeadlekvskkakerarkqlGtlGsGNHFiEvqlveeilde 167
                              +gs+++++ls +e++++l+ ga+wav++g+g+  dle iee+g++++a++e++s+kaker++ ++GtlGsGNH++E+q v+ei++ 
  PHY93_10240|PHY93_10240 131 VGSQSEIRLSMQEMDKMLTGGAEWAVKNGYGQMGDLEFIEEHGHMEGAKPEAISNKAKERQKLEMGTLGSGNHYLEIQEVKEIFHP 216
                              ************************************************************************************** PP

                              HHHHHHT--TTEEEEEEEE--HHHHHHHHHHHHHHHHCCHHHCT---SSGGG--EETTSHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     RtcB 168 eaakalgleegqvvvmlHsGSRglGhqiaedylkiakkalkkkgiklpdrdLaylpagseegqaYlkamqaaanyAkaNRqviter 253
                              +aa+ lg++ ++vv+ +H+GSRglGhqi++dyl+ + +a k+  i +pdr+La++p++se gq+Yl am+ a n+A aNRq+it+ 
  PHY93_10240|PHY93_10240 217 KAAEVLGIHLKDVVISIHCGSRGLGHQIGTDYLRSMLEASKNFSIIIPDRELACAPINSEIGQNYLGAMRGAINCALANRQIITHF 302
                              *************************************999*9******************************************** PP

                              HHHHHHHT.T--HHHH--EEEEEEESEEEEEEEE..T...EEEEEEEES-EE-.............TT--EEEE--STTS-EEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.x...xxxxxxxxxxxxx.............xxxxxxxxxxxxxxxxxxxx RF
                     RtcB 254 vreilekvlkkekedlelelvvdvaHNiakkEehe.d...ekvlVhRKGAtrA.............kvgqpviipGsmgtkSyivk 322
                              +r +++++++++    +l+lv+dv+HN++k+E+h+ +   +++++hRKGAtrA             ++gqpv+i Gsmg +Sy++ 
  PHY93_10240|PHY93_10240 303 TRLAFAQIFSHS----QLRLVYDVSHNTCKNEVHTvNgekKHLYIHRKGATRAfgphhpnipskykEIGQPVLIGGSMGIGSYVLI 384
                              *********743....4689***************9457899******************************************** PP

                              --HHHH..SSSEE---S-----------------TTTTTCCCT-EEEE------------------HHHHHHHHCTS-EEEEEEEE CS
                              xxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     RtcB 323 Gkgnae..sfgStsHGAGRlmsRakakkkfkleevkkdleeqgigvearkkegvleEapeaYKdideVveaqaeaglvevvarlkp 406
                              G+ ++e  sf+S++HGAGR+msR++a+k++++ +v ++l+e+gi +++ + +gv+eEap+aYK+++eVv++++ agl++ va l+p
  PHY93_10240|PHY93_10240 385 GTTKSEdlSFSSSCHGAGRAMSRTEATKHWSGPQVIQQLKEHGILIRSGSFRGVAEEAPDAYKNLHEVVSSAELAGLSKRVAYLSP 470
                              ***9999******************************************************************************* PP

                              EEEE CS
                              xxxx RF
                     RtcB 407 vlvv 410
                               +++
  PHY93_10240|PHY93_10240 471 HICI 474
                              *996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (474 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       412  (0.0229795); expected 358.6 (0.02)
Passed bias filter:                      394  (0.0219756); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.20s 00:00:00.71 Elapsed: 00:00:00.35
# Mc/sec: 4008.50
//
Query:       PHY93_10245|PHY93_10245  [L=135]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.3e-31  108.9   0.2    2.6e-31  108.7   0.2    1.0  1  Archease  Archease protein family (MTH1598/TM1083)
  ------ inclusion threshold ------
      0.087   13.1   0.1       0.21   11.9   0.0    1.7  2  DUF3932   Protein of unknown function (DUF3932)


Domain annotation for each model (and alignments):
>> Archease  Archease protein family (MTH1598/TM1083)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  108.7   0.2   2.9e-35   2.6e-31       1     136 [.       4     135 .]       4     135 .] 0.98

  Alignments for each domain:
  == domain 1  score: 108.7 bits;  conditional E-value: 2.9e-35
                              EEE---SSEEEEEEE-SSSHHHHHHHHHHHHHHHS--TT---S-EEEEEEEESSSHHHHHHHHHHHHHHHHHT--S----EEEE.E CS
                 Archease   1 yeyldhtADviieawGksleeafesaalalfeymtdlskvepkeekeieveaedledlLfdfLdellylfdteyfvfkevkvdeee 86 
                              +e++ h ADv+i++ G+++e+afe aa+al++++t  +kv  + + +i++e +d+e l++d+L+ l+y++dt++++f+++    ++
  PHY93_10245|PHY93_10245   4 WEHFSHDADVGIRGIGNTVEQAFEMAAIALTAVVTIPEKVSSSITFHIHCEDSDMELLFYDWLNALIYEMDTKKILFNKY----KV 85 
                              89******************************************************************************....66 PP

                              -SSSEEEEEEEE----.-TT--------B--S---EEEEETTEEEEEEEE CS
                 Archease  87 eeeeleleaeargekfdkekhevqtevKAvTyhelrieeeddgweayvvv 136
                              + ++ +l+ae+ ge++++  h+   ++K++T++el++ + +d+w a+++v
  PHY93_10245|PHY93_10245  86 HISNGVLDAECSGERVNSVSHDPAVDIKGATMTELKVIHVKDQWIAQCIV 135
                              7789*****************999************************97 PP

>> DUF3932  Protein of unknown function (DUF3932)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   2.3e-05      0.21      44      77 ..      32      63 ..      23      68 .. 0.77
   2 ?   -3.3   0.0       1.3   1.1e+04      28      38 ..     110     120 ..      98     125 .. 0.54

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 2.3e-05
                  DUF3932 44 alhtlqtvperisssityyaqrvssasnteiiiy 77
                             al +  t+pe++sssit++       s+ e+++y
  PHY93_10245|PHY93_10245 32 ALTAVVTIPEKVSSSITFHIH--CEDSDMELLFY 63
                             4566789***********875..34566677777 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 1.3
                  DUF3932  28 tqlkwstlkel 38 
                               ++k +t+ el
  PHY93_10245|PHY93_10245 110 VDIKGATMTEL 120
                              34555565554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (135 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       387  (0.0215851); expected 358.6 (0.02)
Passed bias filter:                      282  (0.0157287); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.19s 00:00:00.61 Elapsed: 00:00:00.36
# Mc/sec: 1120.39
//
Query:       PHY93_21345|PHY93_21345  [L=86]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.08   12.9   0.1       0.13   12.2   0.1    1.3  1  DUF1778   Protein of unknown function (DUF1778)


Domain annotation for each model (and alignments):
>> DUF1778  Protein of unknown function (DUF1778)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.1   7.3e-06      0.13      43      78 ..      48      83 ..      47      85 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 7.3e-06
                  DUF1778 43 dherieLseedfqafvaaLdeppkpnprLlkaarrl 78
                             ++++i+L + d ++f+ aL + p  n+++++a +++
  PHY93_21345|PHY93_21345 48 EEKIISLADVDRDRFITALSAQPVRNEAFNRAQDEF 83
                             57899*************************997765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (86 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       352  (0.019633); expected 358.6 (0.02)
Passed bias filter:                      256  (0.0142785); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.37u 0.19s 00:00:00.56 Elapsed: 00:00:00.35
# Mc/sec: 729.41
//
Query:       PHY93_10250|PHY93_10250  [L=325]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    7.1e-33  114.6   0.0    9.3e-33  114.2   0.0    1.2  1  Trypsin_2      Trypsin-like peptidase domain
      4e-16   59.1   0.0    7.6e-16   58.2   0.0    1.5  1  PDZ_2          PDZ domain
    8.9e-15   55.1   0.0    1.4e-14   54.4   0.0    1.3  1  Trypsin        Trypsin
    0.00023   20.9   0.1       0.61   10.0   0.0    2.5  2  PDZ_6          PDZ domain
     0.0057   17.0   0.0       0.68   10.3   0.0    2.6  2  PDZ            PDZ domain
  ------ inclusion threshold ------
       0.31   10.2   2.1          7    5.7   0.2    2.7  3  Peptidase_S32  Equine arteritis virus serine endopeptidase S3
       0.42    9.2   1.6       0.44    9.1   0.7    1.4  2  Peptidase_S46  Peptidase S46


Domain annotation for each model (and alignments):
>> Trypsin_2  Trypsin-like peptidase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  114.2   0.0   3.7e-36   9.3e-33       1     150 []      46     185 ..      46     185 .. 0.97

  Alignments for each domain:
  == domain 1  score: 114.2 bits;  conditional E-value: 3.7e-36
                Trypsin_2   1 GsGflvgsdglilTnaHvvdsadgaavkaikkkveeagadgrevpakvvaadpelDlAllkvssderaglpplplgpsealkggep 86 
                              GsGf++++dg+i+Tn+Hvvd+ ++  +        + ++d+++++ak+++adp +D+A+l++ +  r +l p+ lg+s++l +g++
  PHY93_10250|PHY93_10250  46 GSGFVWDKDGHIITNFHVVDGGSSFLI--------VFKDDKKQYRAKLIGADPIKDIAVLQL-EVKRPSLKPIILGDSKSLLVGQK 122
                              9**************************........9****************888*******.*********************** PP

                Trypsin_2  87 vyvvGyplggeksgsvssGivsgvve.sesaasgegesflqtdaatspGsSGGplfdsdGrvvGl 150
                              + v+G+plg ++  ++++G++s++++  +++ + + ++++qtda+++pG+SGG+l+ds+G+++G+
  PHY93_10250|PHY93_10250 123 ALVIGCPLGLNH--TLTTGSISALERkIKGYGGVSIDGMIQTDASINPGNSGGALLDSQGKLIGI 185
                              ************..9***********88888888899999************************8 PP

>> PDZ_2  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.2   0.0     3e-19   7.6e-16      14      82 .]     245     324 ..     226     324 .. 0.91

  Alignments for each domain:
  == domain 1  score: 58.2 bits;  conditional E-value: 3e-19
                              .-EEEEEE-TTSGGGGT.--T...........T-EEEEETTB--SSHHHHHHHHHTS-TT-EEEEEEEETTEEEEEEEE- CS
                    PDZ_2  14 ggvlvvsVkeggPaakaglka...........gDvilkvdgkkvksledlislllkkkpGdtVkltvlRdgkkktvevkl 82 
                               gv +  V+++gPaaka+l+            gD+i+++d+++vk+ +dl   + k+k+Gd+Vk++++Rd+k+kt+ v+l
  PHY93_10250|PHY93_10250 245 DGVMIKFVDPKGPAAKADLQGitrnlwgqyffGDIIISIDSTPVKNNDDLFATIEKHKIGDKVKIKYIRDNKEKTTYVTL 324
                              5899999*********************************************************************9987 PP

>> Trypsin  Trypsin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.4   0.0   5.6e-18   1.4e-14      26     218 ..      45     211 ..      29     214 .. 0.80

  Alignments for each domain:
  == domain 1  score: 54.4 bits;  conditional E-value: 5.6e-18
                              EEEEEEEETT.EEEEEGGGTTTGGGEEEEESESBTTSCTTTEEEEEEEEEEEETTEBTTTTTTTEEEEEESSSSTSBSSBHCCBBC CS
                  Trypsin  26 lCgGslisen.wvlTAaHCvsnasdvkvvlgehnlkksegkeqklkvekvivhpnynpstldnDiallklkepvklgdtvrpiclp 110
                              + +G++ +++  ++T+ H+v++ s++ +v+++      ++k+ ++k+         +p +   Dia+l+l+ +    ++ +pi l 
  PHY93_10250|PHY93_10250  45 IGSGFVWDKDgHIITNFHVVDGGSSFLIVFKD------DKKQYRAKLIG------ADPIK---DIAVLQLEVK---RPSLKPIILG 112
                              557999999999**********9999885554......44333333433......67877...**********...********** PP

                              STTHTTSTTTEEEEEESSBSSTSSBSSBEEEEEEEEEEHHHHHHHTTTTSTTTEEEEESTTSSSBCTTTTTTSEEEETTTEEEEEE CS
                  Trypsin 111 aassslpvgttclvsGwgrtkekgksdtlqevevpvvsretcksaykgkvtenmlcagakeggkdacqGDSGGPlvcsdgelvGiv 196
                              + s+sl vg++ lv+G +       ++tl+++ +++++r ++k  y+g   + m++++a     ++++G+SGG+l+ s+g+l+Gi+
  PHY93_10250|PHY93_10250 113 D-SKSLLVGQKALVIGCPLG----LNHTLTTGSISALER-KIKG-YGGVSIDGMIQTDA-----SINPGNSGGALLDSQGKLIGIN 186
                              *.7779************96....3368********999.6777.788889********.....9********************* PP

                              EEE...SSSSCTTS..EEEEEEGGGGH CS
                  Trypsin 197 swg...kgcakgnr..pgvytkvssyl 218
                              +      g +       g++++v+ ++
  PHY93_10250|PHY93_10250 187 TILfnaSGSQA--SagLGFAIPVDIIK 211
                              *6642323333..23489999998665 PP

>> PDZ_6  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.5   0.0   0.00067       1.7       2      17 ..     249     264 ..     248     265 .. 0.91
   2 !   10.0   0.0   0.00024      0.61      19      44 ..     277     301 ..     276     313 .. 0.80

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.00067
                    PDZ_6   2 VtaVdpgsPAdrAGlr 17 
                              ++ Vdp +PA++A l+
  PHY93_10250|PHY93_10250 249 IKFVDPKGPAAKADLQ 264
                              678***********98 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00024
                    PDZ_6  19 GDiilsvNGqpveglsladvaallr.g 44 
                              GDii+s++ +pv  ++ +d+ a ++  
  PHY93_10250|PHY93_10250 277 GDIIISIDSTPV--KNNDDLFATIEkH 301
                              9***********..9999998888744 PP

>> PDZ  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   0.0     0.031        79      26      45 ..     245     264 ..     221     268 .. 0.85
   2 !   10.3   0.0   0.00027      0.68      47      80 ..     277     310 ..     272     312 .. 0.94

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.031
                              SSEEEEEECTT.SHHHHHTSS CS
                      PDZ  26 kgifvsevlpg.gaaeadglk 45 
                               g+ ++ v p+ +aa+ad l+
  PHY93_10250|PHY93_10250 245 DGVMIKFVDPKgPAAKAD-LQ 264
                              5899*******7777776.76 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 0.00027
                              TEEEEEETTEETTTSHHHHHHHHHHTTTSEEEEE CS
                      PDZ  47 GDkIlsvNgvdvenvsheeavqaikgskgkvtLt 80 
                              GD+I+s++ ++v+n  ++ a ++  ++++kv+++
  PHY93_10250|PHY93_10250 277 GDIIISIDSTPVKNNDDLFATIEKHKIGDKVKIK 310
                              9**************************9999976 PP

>> Peptidase_S32  Equine arteritis virus serine endopeptidase S32
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.8   0.0     0.022        56     111     139 ..      43      69 ..      34      87 .. 0.80
   2 ?   -0.9   0.1      0.28   7.3e+02     208     231 ..     112     135 ..     109     163 .. 0.74
   3 ?    5.7   0.2    0.0027         7     206     227 ..     167     188 ..     152     201 .. 0.82

  Alignments for each domain:
  == domain 1  score: 2.8 bits;  conditional E-value: 0.022
                              SSEEEEEEEECTTEEEEEEEHHHH-TSEE CS
            Peptidase_S32 111 sslGsGgvftidgevvvvtashvlgdnka 139
                              s +GsG v+ +dg+  ++t  hv+ ++++
  PHY93_10250|PHY93_10250  43 SGIGSGFVWDKDGH--IITNFHVVDGGSS 69 
                              77899999988885..89******97765 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.28
                              GGTT-EEEETTE.EEEEEEEEETT CS
            Peptidase_S32 208 GDsGspvvdedgelvGvhtGsnkk 231
                              GDs s +v +++ ++G   G n+ 
  PHY93_10250|PHY93_10250 112 GDSKSLLVGQKALVIGCPLGLNHT 135
                              9***************99998753 PP

  == domain 3  score: 5.7 bits;  conditional E-value: 0.0027
                              -GGGTT-EEEETTE.EEEEEEE CS
            Peptidase_S32 206 kcGDsGspvvdedgelvGvhtG 227
                              ++G+sG +++d +g+l+G+ t 
  PHY93_10250|PHY93_10250 167 NPGNSGGALLDSQGKLIGINTI 188
                              79*****************994 PP

>> Peptidase_S46  Peptidase S46
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.8   0.0       1.4   3.5e+03      47      67 ..      44      64 ..      40      66 .. 0.81
   2 ?    9.1   0.7   0.00017      0.44     627     651 ..     162     186 ..     154     188 .. 0.90

  Alignments for each domain:
  == domain 1  score: -3.8 bits;  conditional E-value: 1.4
                             TTEE-EE-STT-EEEE-HHHH CS
            Peptidase_S46 47 ggCtasfVSpeGLvlTNHHCa 67
                             g  ++ +  ++G ++TN H++
  PHY93_10250|PHY93_10250 44 GIGSGFVWDKDGHIITNFHVV 64
                             56677777899********87 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.00017
                              ES----TT-TT-EEE-TTS-EEEEE CS
            Peptidase_S46 627 stnDitGGNSGSPvlngkgelvGla 651
                              +++ i  GNSG ++l+++g+l+G++
  PHY93_10250|PHY93_10250 162 TDASINPGNSGGALLDSQGKLIGIN 186
                              6778889****************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (325 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       470  (0.0262145); expected 358.6 (0.02)
Passed bias filter:                      390  (0.0217525); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.51u 0.19s 00:00:00.70 Elapsed: 00:00:00.38
# Mc/sec: 2538.42
//
Query:       PHY93_10255|PHY93_10255  [L=159]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.8e-24   85.8   1.7    2.3e-24   85.5   1.7    1.1  1  HSP20       Hsp20/alpha crystallin family
    1.1e-10   40.9   0.0    1.8e-10   40.2   0.0    1.4  1  ArsA_HSP20  HSP20-like domain found in ArsA
     0.0086   16.1   0.0        2.8    8.0   0.0    2.3  2  Phage_GPL   Phage head completion protein (GPL)


Domain annotation for each model (and alignments):
>> HSP20  Hsp20/alpha crystallin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.5   1.7   3.9e-28   2.3e-24       1     101 [.      58     159 .]      58     159 .] 0.95

  Alignments for each domain:
  == domain 1  score: 85.5 bits;  conditional E-value: 3.9e-28
                              E--SSEEEEEEEEE-TT--CCCEEEEEETTEEEEEEE--....---TT----SS---EEEEEE--STTB-TTT-EEEEETTEEEEE CS
                    HSP20   1 dikeeeeefevkldvpglkkeelkvkvednrvlvkgehe..eeeedekglikerssrkFsrkftLPenvdadkvkaslkdGvLtvt 84 
                              d ke+++++ + +dvpg+++ +++++ +++++++kge++  +e+ d+ ++  erss+ F+r + L e++d++++ka+lkdGvL+v+
  PHY93_10255|PHY93_10255  58 DLKEKDNKYLLDADVPGMNEADIDIDFHNKTLTIKGEKKseKETRDSGYVCVERSSGTFRRDIYLDEDIDQNNIKAELKDGVLHVE 143
                              5799***********************************877788888999*********************************** PP

                              EEBSS--..-------- CS
                    HSP20  85 vpkkepekkkkerkiqi 101
                              + kke++k+ + +ki+i
  PHY93_10255|PHY93_10255 144 LLKKEKAKE-SHKKIAI 159
                              *****9976.8999987 PP

>> ArsA_HSP20  HSP20-like domain found in ArsA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.2   0.0   3.1e-14   1.8e-10       1      63 []      63     144 ..      63     144 .. 0.98

  Alignments for each domain:
  == domain 1  score: 40.2 bits;  conditional E-value: 3.1e-14
               ArsA_HSP20   1 ddeyvlkldLPfvdkeeidlsrsgdeLtIkig....................nfrRqitLPsvlarkevtsAkfedgvLeIrF 63 
                              d++y l++d+P++++++id+  ++++LtIk +                     frR i L + +++ ++ +A+++dgvL++++
  PHY93_10255|PHY93_10255  63 DNKYLLDADVPGMNEADIDIDFHNKTLTIKGEkkseketrdsgyvcverssgTFRRDIYLDEDIDQNNI-KAELKDGVLHVEL 144
                              799******************************************************************.**********986 PP

>> Phage_GPL  Phage head completion protein (GPL)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.8   0.0    0.0021        12       4      26 ..      51      73 ..      49      77 .. 0.91
   2 !    8.0   0.0   0.00046       2.8      13      50 ..     114     150 ..     112     158 .. 0.81

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.0021
                Phage_GPL  4 dgFfPdidladfreamrldgtvt 26
                             + F+P idl++  +++ ld++v 
  PHY93_10255|PHY93_10255 51 TSFYPSIDLKEKDNKYLLDADVP 73
                             57*****************9985 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.00046
                Phage_GPL  13 adfreamrldgtvteerlraalleAiaevnaeLaawra 50 
                              + fr+++ ld++++++ ++a+l++++++v+  L++ +a
  PHY93_10255|PHY93_10255 114 GTFRRDIYLDEDIDQNNIKAELKDGVLHVEL-LKKEKA 150
                              679**************************85.444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (159 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       627  (0.0349713); expected 358.6 (0.02)
Passed bias filter:                      381  (0.0212505); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.36
# Mc/sec: 1320.73
//
Query:       PHY93_10260|PHY93_10260  [L=620]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.8e-60  202.0   0.2    1.1e-59  201.5   0.2    1.2  1  Peptidase_M41    Peptidase family M41
    6.1e-45  152.9   0.1    1.9e-44  151.3   0.0    1.9  1  AAA              ATPase family associated with various cellul
      7e-12   45.0   0.0    1.9e-11   43.6   0.0    1.7  1  AAA_lid_3        AAA+ lid domain
      2e-05   25.1   1.7     0.0032   17.9   0.1    2.7  2  AAA_16           AAA ATPase domain
    2.6e-05   24.6   0.9    2.6e-05   24.6   0.9    2.3  2  FtsH_ext         FtsH Extracellular
      3e-05   23.4   1.5    3.3e-05   23.2   0.0    1.7  2  TIP49            TIP49 P-loop domain
    5.7e-05   23.1   0.0    0.00025   21.1   0.0    2.2  1  AAA_5            AAA domain (dynein-related subfamily)
    7.2e-05   23.1   0.4      0.021   15.1   0.4    2.7  1  AAA_22           AAA domain
    0.00029   20.6   0.0    0.00094   19.0   0.0    1.9  1  RuvB_N           Holliday junction DNA helicase RuvB P-loop d
    0.00039   20.2   0.2     0.0014   18.4   0.0    2.0  2  IstB_IS21        IstB-like ATP binding protein
     0.0066   15.8   0.4      0.016   14.6   0.3    1.6  1  Mg_chelatase     Magnesium chelatase, subunit ChlI
     0.0077   16.7   0.0      0.051   14.0   0.0    2.2  2  AAA_17           AAA domain
  ------ inclusion threshold ------
      0.015   15.4   0.1      0.059   13.5   0.0    2.0  1  AAA_2            AAA domain (Cdc48 subfamily)
      0.016   15.3   0.0      0.031   14.4   0.0    1.3  1  Spore_YhcN_YlaJ  Sporulation lipoprotein YhcN/YlaJ (Spore_Yhc
       0.02   15.4   0.0       0.07   13.7   0.0    2.1  1  AAA_18           AAA domain
      0.023   14.8   0.0      0.059   13.5   0.0    1.7  1  AAA_33           AAA domain
      0.027   14.7   0.0       0.09   13.0   0.0    1.9  1  AAA_28           AAA domain
      0.032   13.5   0.7       0.25   10.6   0.1    2.4  2  Zeta_toxin       Zeta toxin
      0.044   14.3   0.1       0.12   12.9   0.1    1.7  1  ABC_tran         ABC transporter
      0.053   13.0   0.1       0.18   11.3   0.1    1.9  1  AAA_7            P-loop containing dynein motor region
      0.059   13.1   0.0       0.14   11.8   0.0    1.7  1  AAA_24           AAA domain
      0.069   13.5   0.0       0.83   10.1   0.0    2.3  2  RNA_helicase     RNA helicase
      0.074   12.7   0.0       0.19   11.5   0.0    1.7  1  Sigma54_activat  Sigma-54 interaction domain
      0.076   12.9   0.6       0.48   10.3   0.1    2.2  2  NACHT            NACHT domain
       0.12   12.3   0.0       0.28   11.2   0.0    1.5  1  TsaE             Threonylcarbamoyl adenosine biosynthesis pro
       0.18   11.6   0.0       0.54   10.1   0.0    1.7  2  CPT              Chloramphenicol phosphotransferase-like prot
       0.27   11.7   9.1       0.18   12.2   0.5    3.4  3  NBD94            Nucleotide-Binding Domain 94 of RH


Domain annotation for each model (and alignments):
>> Peptidase_M41  Peptidase family M41
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  201.5   0.2   1.7e-62   1.1e-59       1     190 [.     416     606 ..     416     607 .. 0.97

  Alignments for each domain:
  == domain 1  score: 201.5 bits;  conditional E-value: 1.7e-62
                              XX--HHHHHHHHHHHHHHHHHHCCSSS-S-B--EES--TTS.-----------TSS--BHHHHHHHHHHHHHHHHHHHHHHHS-BG CS
            Peptidase_M41   1 rvisekekklvAyHEaGHalvglllkeadpveKvtiiPRgq.alGltlslPeedklsltkeellarlavllGGraaEelifgevtt 85 
                              rv++ekekk+vAyHE GHa v++ l+++d+v+Kv+iiPRg  alG+tl+ P ed++ +tkeel +++++llGGraaE+++fg+ +t
  PHY93_10260|PHY93_10260 416 RVLNEKEKKIVAYHEIGHAFVAISLPGSDKVRKVSIIPRGIgALGYTLQSPLEDRYLMTKEELENKIIILLGGRAAEKIFFGNFST 501
                              5899********************************************************************************** PP

                              GGHHHHHHHHHHHHHHHHTS---TTT-S--------..----.------SS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHH CS
            Peptidase_M41  86 GasnDlekatkiarkmvtefGmsdklGpvsleeeeeeevflgkelkkekelseetaeeideevkelveeayerakeileekreele 171
                              G+s+D+ k+t++ar    ++Gm + lG +s+e+  e+   +   ++ +k++se++ae+id+++kelv+ a+e+a +i+++++  ++
  PHY93_10260|PHY93_10260 502 GSSDDIAKVTQVARGIALKYGMVEGLGHISYEDPTEKFLGTSDYFDGHKNYSEKVAEQIDKKIKELVDVAFEKAITIVRNNQVIID 587
                              *********************************99966666678999*************************************** PP

                              HHHHHHHHHSEE-HHHHHH CS
            Peptidase_M41 172 alaeaLlekEtldaeeiee 190
                                a++Ll+kEtl++e++++
  PHY93_10260|PHY93_10260 588 MAAKELLQKETLSEEDLKK 606
                              ***************9985 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  151.3   0.0   2.8e-47   1.9e-44       1     131 [.     202     335 ..     202     336 .. 0.97

  Alignments for each domain:
  == domain 1  score: 151.3 bits;  conditional E-value: 2.8e-47
                              EEEESSTTSSHHHHHHHHHHHHTHEEEEEETTTCSSSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGHHHHH....TTCCCHHH CS
                      AAA   1 vllyGppGtGKTllakavakelgvefleisgsellskyvgesekkirelfkeakekakpsilfiDEidalaksr....sgseseee 82 
                              +ll+GppGtGKTllaka+a e++v+f++isgse+++++vg +++++r+lf++a++++ p+i+fiDE+dal+++r     +s ++e+
  PHY93_10260|PHY93_10260 202 ILLVGPPGTGKTLLAKAIAGEAKVPFFSISGSEFVEMFVGVGAARVRDLFEQARSQS-PCIIFIDELDALGRARgispISSGHDEK 286
                              69******************************************************9.******************9988899*** PP

                              HHHHHHHHHHHHHTTTSSSTEEEEEEESSGGGSTHHHHS.TTSSEEEETT CS
                      AAA  83 ervvnqLlteldgvkkkeskvivigatnrpdkldpallr.gRfdrkieie 131
                              e+++nqLl+eldg+++ ++ vi+++atnrp+ ldpallr gRfdr++ i+
  PHY93_10260|PHY93_10260 287 EQTLNQLLSELDGFDSTTG-VILLAATNRPEILDPALLRsGRFDRQVLID 335
                              ****************866.*************************99886 PP

>> AAA_lid_3  AAA+ lid domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.6   0.0   2.9e-14   1.9e-11       1      43 [.     358     400 ..     358     402 .. 0.89

  Alignments for each domain:
  == domain 1  score: 43.6 bits;  conditional E-value: 2.9e-14
                AAA_lid_3   1 dvdlkeLAerTeGySGADlaalcreAallAlrrgikeitmedf 43 
                              d+ l+++A++T+G++GADla+l++eAal A r +++ +  edf
  PHY93_10260|PHY93_10260 358 DLKLEDVAALTPGFTGADLANLVNEAALSATRKKREFVLPEDF 400
                              7789*****************************9987655555 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.1   4.9e-06    0.0032      17      48 ..     192     223 ..     176     241 .. 0.77
   2 ?    5.7   0.1     0.026        17     122     149 ..     246     272 ..     242     309 .. 0.73

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 4.9e-06
                   AAA_16  17 ervrsgrpelvllsGesGvGKsslvrellral 48 
                              +r+ +  p  +ll+G++G+GK+ l+++++ ++
  PHY93_10260|PHY93_10260 192 GRLGAKMPKGILLVGPPGTGKTLLAKAIAGEA 223
                              356666779****************9998655 PP

  == domain 2  score: 5.7 bits;  conditional E-value: 0.026
                   AAA_16 122 llkrllallsrderplvlvlDdlqwade 149
                               +++l++++++ ++p ++++D+l+ +  
  PHY93_10260|PHY93_10260 246 RVRDLFEQARS-QSPCIIFIDELDALGR 272
                              56777888888.999*********5543 PP

>> FtsH_ext  FtsH Extracellular
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.6   0.9   3.9e-08   2.6e-05       4      82 ..      22      88 ..      18     110 .. 0.66
   2 ?   -0.8   0.1       2.9   1.9e+03       2      21 ..     116     139 ..     115     167 .. 0.74

  Alignments for each domain:
  == domain 1  score: 24.6 bits;  conditional E-value: 3.9e-08
                 FtsH_ext  4 wlllallllllllslfggsgtgstkeisyseFledleqgnvekvvvqestisalirrptgdgvsttkkgnstttystpt 82
                             +++ +++++l+  +    + +  +++++yseF   l++g++++vvv + +++         gv +   +++++ + ++ 
  PHY93_10260|PHY93_10260 22 YIIMFVVIFLIQEF---YNRNAIYETLPYSEFKSLLSSGKIKEVVVSDTEVR---------GVLKEPGPDKKSIVLSTL 88
                             55555555555555...56788**************************9999.........444444444444443333 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 2.9
                 FtsH_ext   2 llwlllallllllllslfg....g 21 
                              ++ +++ ++++++++ +      g
  PHY93_10260|PHY93_10260 116 IFSWVVPTFVFFAVWIYLSrkfmG 139
                              788999999999999997666553 PP

>> TIP49  TIP49 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.2   0.0     5e-08   3.3e-05      49      89 ..     199     236 ..     176     243 .. 0.86
   2 ?   -3.0   0.3       4.9   3.2e+03     107     123 ..     560     576 ..     548     611 .. 0.49

  Alignments for each domain:
  == domain 1  score: 23.2 bits;  conditional E-value: 5e-08
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                    TIP49  49 aGravLlaGpsgtGktalaiaiskelgedvpfvalsgsevy 89 
                                +++Ll+Gp+gtGkt la ai+ e  ++vpf ++sgse+ 
  PHY93_10260|PHY93_10260 199 P-KGILLVGPPGTGKTLLAKAIAGE--AKVPFFSISGSEFV 236
                              3.89*******************98..57*********975 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 4.9
                              XXXXXXX-S-EEEEEEE CS
                    TIP49 107 igvrikeekevleGevv 123
                              i  +ike  +v   + +
  PHY93_10260|PHY93_10260 560 IDKKIKELVDVAFEKAI 576
                              33334444443333333 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.1   0.0   3.7e-07   0.00025       2      78 ..     202     271 ..     201     325 .. 0.73

  Alignments for each domain:
  == domain 1  score: 21.1 bits;  conditional E-value: 3.7e-07
                              EEEE--SSSSHHHHHHHGGGGBS--EEEEE--TT--HHHHH--B--.........--------..G-SEEEEESGGG-- CS
                    AAA_5   2 vlLvGppGtgKselaerlaaalnreveyvqltrdtteedlkgrreikngttslvdsplvraar..egeilvlDEverae 78 
                              +lLvGppGtgK+ la+ +a   + +++ + ++++ +    +g  ++           l ++ar  +++i+++DE++ + 
  PHY93_10260|PHY93_10260 202 ILLVGPPGTGKTLLAKAIAGEAKVPFFSISGSEFVEMFVGVGAARV---------RDLFEQARsqSPCIIFIDELDALG 271
                              89******************************99887777777776.........788888888899999999999766 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.4   3.1e-05     0.021       8      29 ..     202     223 ..     197     318 .. 0.79

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 3.1e-05
                   AAA_22   8 lvvtGesGtGKTtllrrlleql 29 
                              ++++G++GtGKT+l++ ++ ++
  PHY93_10260|PHY93_10260 202 ILLVGPPGTGKTLLAKAIAGEA 223
                              799*************999887 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.0   0.0   1.4e-06   0.00094      33      69 ..     199     235 ..     164     274 .. 0.71

  Alignments for each domain:
  == domain 1  score: 19.0 bits;  conditional E-value: 1.4e-06
                   RuvB_N  33 ldhvllyGpPGlGkttlakiiakelgvklkitsgPvl 69 
                                 +ll+GpPG Gkt lak ia e +v + + sg   
  PHY93_10260|PHY93_10260 199 PKGILLVGPPGTGKTLLAKAIAGEAKVPFFSISGSEF 235
                              5679***********************9988888643 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0   2.1e-06    0.0014      48     101 ..     200     253 ..     196     273 .. 0.76
   2 ?   -3.2   0.0         9     6e+03     125     149 ..     559     583 ..     554     598 .. 0.71

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 2.1e-06
                IstB_IS21  48 enivllGpsGvGKshlaialgveavraglsvlfvrvedLveelkrarrdgklar 101
                              ++i+l+Gp+G+GK+ la a++ ea    +s++     +++  + +ar  + +++
  PHY93_10260|PHY93_10260 200 KGILLVGPPGTGKTLLAKAIAGEAKVPFFSISGSEFVEMFVGVGAARVRDLFEQ 253
                              5799*****************999887777777777777777777777666665 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 9
                IstB_IS21 125 aeaellfeviekryerrsiiitsnl 149
                              +  +++ e+++ ++e++ +i+  n+
  PHY93_10260|PHY93_10260 559 QIDKKIKELVDVAFEKAITIVRNNQ 583
                              5556677788888888888777765 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.6   0.3   2.4e-05     0.016      25      43 ..     202     220 ..     193     226 .. 0.90

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 2.4e-05
             Mg_chelatase  25 lllvGppGsGKtmlakrlp 43 
                              +llvGppG+GKt+lak+++
  PHY93_10260|PHY93_10260 202 ILLVGPPGTGKTLLAKAIA 220
                              89**************986 PP

>> AAA_17  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.0   0.0   7.7e-05     0.051       1      52 [.     205     257 ..     205     331 .. 0.80
   2 ?   -0.4   0.0       2.2   1.5e+03      43      87 ..     550     597 ..     526     616 .. 0.63

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 7.7e-05
                              EE-TTSSHHHHHHHHHHHHTEEEEEH.HHHHHHHHHTTTSHSSHHHHCTSHHH CS
                   AAA_17   1 lGgPGsGKgtqceklvekygfthlsa.Gdllreeakrgglakardemrklple 52 
                              +G+PG GK+ +++ ++ + +++++s  G+ + e+    g+a+ rd ++++  +
  PHY93_10260|PHY93_10260 205 VGPPGTGKTLLAKAIAGEAKVPFFSIsGSEFVEMFVGVGAARVRDLFEQARSQ 257
                              7**********************998799999999999988888888766555 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 2.2
                              HHHHCTSHHHHHHHHHHHHHHHHHHHH...HSSEEEEEE-SEEEETTE CS
                   AAA_17  43 rdemrklpleekkelqkeaaekiaeea...kkkgvlvdghprikeqag 87 
                              +++ +k+ ++++k++ +++  + +++    ++++v++d  +    q++
  PHY93_10260|PHY93_10260 550 KNYSEKVAEQIDKKIKELVDVAFEKAItivRNNQVIIDMAAKELLQKE 597
                              444556666666655555544444432444667777776665544444 PP

>> AAA_2  AAA domain (Cdc48 subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   8.8e-05     0.059       6      83 ..     202     273 ..     198     300 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 8.8e-05
                              EEEE--TTSSHHHHHHHHHHHTT-....-EEEEEGGG-------THHHHHHHHHTTT-HHHHTTS.EEEEETGGG---- CS
                    AAA_2   6 illlgptgvGktelakalaellfvkkekkliradaselleeeevehlvsrligappgyvgaeegG.ivllDEidKihpk 83 
                              ill+gp g+Gkt+laka+a   +v    ++  +  se+ e   +   v    +   + +++ ++  i+++DE+d   + 
  PHY93_10260|PHY93_10260 202 ILLVGPPGTGKTLLAKAIAGEAKV----PFFSISGSEFVE---MFVGVGAARVRDLFEQARSQSPcIIFIDELDALGRA 273
                              899*******************98....************...55566666666666666666558*******987764 PP

>> Spore_YhcN_YlaJ  Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0   4.6e-05     0.031      50      95 ..     545     592 ..     534     608 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 4.6e-05
          Spore_YhcN_YlaJ  50 qvryhkdydgetaqniaqrverlegV..edarvlvtgndvlVavqtde 95 
                                + hk+y +++a++i +++++l +V  e+a ++v +n+v++ + ++e
  PHY93_10260|PHY93_10260 545 YFDGHKNYSEKVAEQIDKKIKELVDVafEKAITIVRNNQVIIDMAAKE 592
                              55789*******************99779************9777666 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   0.00011      0.07       1      24 [.     202     225 ..     202     314 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 0.00011
                   AAA_18   1 IlltGtpGvGKttlakeLskrlgf 24 
                              Ill G+pG+GKt lak+++ + ++
  PHY93_10260|PHY93_10260 202 ILLVGPPGTGKTLLAKAIAGEAKV 225
                              99***************9766444 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   8.9e-05     0.059       2      30 ..     202     232 ..     202     277 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 8.9e-05
                   AAA_33   2 vllvGlpGsGKstlaerllkklg..avllss 30 
                              +llvG+pG+GK+ la+ ++ + +  ++ +s 
  PHY93_10260|PHY93_10260 202 ILLVGPPGTGKTLLAKAIAGEAKvpFFSISG 232
                              689*************999887765555555 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   0.00014      0.09       2      35 ..     202     236 ..     201     261 .. 0.73

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 0.00014
                   AAA_28   2 ivitGgestGKTtlleaLa.argypvvpEaareil 35 
                              i ++G+++tGKT l++a+a + ++p +  ++ e++
  PHY93_10260|PHY93_10260 202 ILLVGPPGTGKTLLAKAIAgEAKVPFFSISGSEFV 236
                              789****************5447776544444443 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.1   0.00037      0.25      14      40 ..     197     223 ..     192     239 .. 0.87
   2 ?   -0.1   0.0      0.72   4.8e+02      66     102 ..     550     588 ..     544     617 .. 0.70

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00037
               Zeta_toxin  14 erPklillgGqpGAGKselaellkdel 40 
                              + Pk ill+G pG GK+ la++++ e 
  PHY93_10260|PHY93_10260 197 KMPKGILLVGPPGTGKTLLAKAIAGEA 223
                              679*******************99875 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.72
               Zeta_toxin  66 kadpkkaseltqkdaselvekllqeaie..ngyniiveg 102
                              k++++k++e+++k ++elv+ ++++ai   +   +i++ 
  PHY93_10260|PHY93_10260 550 KNYSEKVAEQIDKKIKELVDVAFEKAITivRNNQVIIDM 588
                              557778999999999999999999997522344456555 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.1   0.00018      0.12      14      36 ..     202     224 ..     193     234 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 0.00018
                              EEEEESTTSSHHHHHHHHTTSS- CS
                              xxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  14 vaivGenGaGKStLlkllagllk 36 
                              + +vG+ G+GK+ L+k++ag+ k
  PHY93_10260|PHY93_10260 202 ILLVGPPGTGKTLLAKAIAGEAK 224
                              689*****************976 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.1   0.00028      0.18      32      56 ..     198     222 ..     193     270 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00028
                    AAA_7  32 nkkpvllvGptGtGKtviikdllkk 56 
                                k +llvGp GtGKt+++k +  +
  PHY93_10260|PHY93_10260 198 MPKGILLVGPPGTGKTLLAKAIAGE 222
                              56789*************9987655 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   0.00021      0.14       3      23 ..     200     222 ..     198     288 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00021
                   AAA_24   3 lkiliyGpsgiGKTtlakel..g 23 
                              + il++Gp+g+GKT lak +  +
  PHY93_10260|PHY93_10260 200 KGILLVGPPGTGKTLLAKAIagE 222
                              679**************998543 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.0    0.0013      0.83       1      21 [.     202     222 ..     202     263 .. 0.88
   2 ?    0.6   0.0       1.1   7.2e+02      40      90 ..     542     592 ..     527     601 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.0013
             RNA_helicase   1 iwlyGpsgeGKStlakeLaka 21 
                              i+l+Gp+g+GK++lak +a +
  PHY93_10260|PHY93_10260 202 ILLVGPPGTGKTLLAKAIAGE 222
                              689*************97754 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 1.1
             RNA_helicase  40 eddfwdgYtgqevvvidDfgqvkdeenpsdlaelirlvsstpyplnmasle 90 
                              ++d++dg ++    v + + ++ +e  +  ++  i +v +++++++ma+ e
  PHY93_10260|PHY93_10260 542 TSDYFDGHKNYSEKVAEQIDKKIKELVDVAFEKAITIVRNNQVIIDMAAKE 592
                              67888888888888888888887774444899999************9876 PP

>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00028      0.19      19      45 ..     196     222 ..     182     254 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00028
                              CTSSS-EEEECSTTSSHHHHHHHHHHH CS
          Sigma54_activat  19 aktdlsvlitGesGtGKellaraihea 45 
                              ak++  +l++G  GtGK+lla+ai  +
  PHY93_10260|PHY93_10260 196 AKMPKGILLVGPPGTGKTLLAKAIAGE 222
                              677889*****************9754 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.1   0.00072      0.48       3      25 ..     202     224 ..     200     227 .. 0.89
   2 ?   -0.0   0.0       1.1   7.2e+02      83     126 ..     260     311 ..     246     326 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00072
                              EEEEC-TTTCHHHHHHHHHHHHC CS
                    NACHT   3 vilqGeaGsGKTtLlqklalawa 25 
                              ++l G++G GKT L++ +a +++
  PHY93_10260|PHY93_10260 202 ILLVGPPGTGKTLLAKAIAGEAK 224
                              789***************98765 PP

  == domain 2  score: -0.0 bits;  conditional E-value: 1.1
                              EEEEEE-STT-SS-TCH.................HHHHHCTTTTT--EEEEE CS
                    NACHT  83 lLlilDglDelvtdlgq........kekqpvrtlLselirkkllpeaslllt 126
                                + +D lD l +  g         +++q +++lLsel    + +++ ll++
  PHY93_10260|PHY93_10260 260 CIIFIDELDALGRARGIspissghdEKEQTLNQLLSELDGFDSTTGVILLAA 311
                              5567899999998887799999998888889999998866666666666654 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   0.00043      0.28      14      45 ..     194     225 ..     173     236 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00043
                              HHHCHTEEEEEEESTTSSHHHHHHHHHHHTT- CS
                     TsaE  14 lakalgdvilLeGdLGaGKTtlvrglakalgv 45 
                              l++++ + ilL G+ G+GKT l++++a + +v
  PHY93_10260|PHY93_10260 194 LGAKMPKGILLVGPPGTGKTLLAKAIAGEAKV 225
                              23333446******************988766 PP

>> CPT  Chloramphenicol phosphotransferase-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.0   0.00082      0.54       4      42 ..     202     240 ..     200     268 .. 0.89
   2 ?   -2.7   0.0         7   4.7e+03      62      90 ..     562     591 ..     550     609 .. 0.58

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00082
                              EEEEE-TTSSHHHHHHHHHHHSSS-EEEEEHHHHHHHS- CS
                      CPT   4 ilLnGgsssGKsslaralqevldepwlhlgvDafvealp 42 
                              ilL G + +GK+ la+a+   ++ p++ +   +fve+  
  PHY93_10260|PHY93_10260 202 ILLVGPPGTGKTLLAKAIAGEAKVPFFSISGSEFVEMFV 240
                              89*********************************9854 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 7
                              -HHHHHHHHHHHHHHHHHHHTT-EEEEE...E CS
                      CPT  62 gpeldlllaalyeavaamaraGnnvivD...d 90 
                              +++ +l+  a+ +a+  + +  n+vi+D   +
  PHY93_10260|PHY93_10260 562 KKIKELVDVAFEKAITIVRN--NQVIIDmaaK 591
                              44455566677777765543..6888883332 PP

>> NBD94  Nucleotide-Binding Domain 94 of RH
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.5   0.00027      0.18      29      51 ..       2      24 ..       1      36 [. 0.87
   2 ?   -1.8   0.0       6.3   4.2e+03      36      57 ..      92     113 ..      89     116 .. 0.76
   3 ?    1.9   1.7      0.46   3.1e+02      11      35 ..     550     574 ..     543     607 .. 0.68

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 0.00027
                    NBD94 29 eeiekektsleevknielsYgrs 51
                             ++i+++k++ ++vk+i++sY  +
  PHY93_10260|PHY93_10260  2 ADIKNNKIPENKVKKINISYYII 24
                             69******************755 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 6.3
                    NBD94  36 tsleevknielsYgrsLikllv 57 
                              t ++e ++ +++Y ++    l+
  PHY93_10260|PHY93_10260  92 TLSNEFDKFNVKYSKVPDSTLL 113
                              6689999******998666665 PP

  == domain 3  score: 1.9 bits;  conditional E-value: 0.46
                    NBD94  11 idkkkkiyeniekllnEleeiekek 35 
                              ++  +k+ e+i+k ++El ++  ek
  PHY93_10260|PHY93_10260 550 KNYSEKVAEQIDKKIKELVDVAFEK 574
                              6678999999999999999997776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (620 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1014  (0.0565564); expected 358.6 (0.02)
Passed bias filter:                      738  (0.0411624); expected 358.6 (0.02)
Passed Vit filter:                       117  (0.00652574); expected 17.9 (0.001)
Passed Fwd filter:                        27  (0.00150594); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              27  [number of targets reported over threshold]
# CPU time: 0.73u 0.23s 00:00:00.96 Elapsed: 00:00:00.40
# Mc/sec: 4603.55
//
Query:       PHY93_10265|PHY93_10265  [L=223]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.3e-49  166.2   0.0    5.5e-49  165.9   0.0    1.1  1  YkuD_2    L,D-transpeptidase catalytic domain


Domain annotation for each model (and alignments):
>> YkuD_2  L,D-transpeptidase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  165.9   0.0     3e-53   5.5e-49       5     169 .]      54     219 ..      51     219 .. 0.95

  Alignments for each domain:
  == domain 1  score: 165.9 bits;  conditional E-value: 3e-53
                   YkuD_2   5 lskealekalkgleklkkkkkekkkltiiDfskpStekRlfviDlkkkkllletlvahGknsgen..latkFsneegSkksslGfy 88 
                              +  ++le al+ ++k +k  ++ + ltiiDf+k S ekR+f+++lk++++  + lv+hGk+s  +  +a+ Fsn++gS++ss+Gf+
  PHY93_10265|PHY93_10265  54 IPANVLEIALNYFKKNQKLINNVDFLTIIDFTKLSIEKRMFILNLKNGSV-ESLLVTHGKKSEGElgQAKYFSNTPGSEMSSIGFF 138
                              5678899999999999999999988************************9.999*******8776689****************** PP

                   YkuD_2  89 ktget.ykgkhGlslrLeGlekgiNdnAreRaivlHgadyvseefikklgrlgrSlGCpavseelakkiiellkegsllfiy 169
                              +t++  y gkhG slr++Gl+k+ N+nA  R+iv+Hgady+++ f+++ grlg S+GCpav+++ +k +i +lk++sll+i+
  PHY93_10265|PHY93_10265 139 VTDSVpYVGKHGDSLRINGLSKT-NSNALMRNIVIHGADYATQWFADERGRLGLSQGCPAVAPNKVKGVITKLKGESLLYIH 219
                              ***988*****************.********************************************************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (223 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       373  (0.0208043); expected 358.6 (0.02)
Passed bias filter:                      312  (0.017402); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.20s 00:00:00.60 Elapsed: 00:00:00.35
# Mc/sec: 1911.12
//
Query:       PHY93_10270|PHY93_10270  [L=582]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      4e-17   62.5   0.0      1e-16   61.2   0.0    1.8  2  GSDH             Glucose / Sorbosone dehydrogenase
  ------ inclusion threshold ------
      0.014   15.7   0.1       0.08   13.3   0.0    2.3  3  Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
      0.084   13.5   0.0       0.24   12.0   0.0    1.9  1  PSCyt1           Planctomycete cytochrome C
      0.086   13.2   0.0       0.17   12.2   0.0    1.4  1  DUF3365          Protein of unknown function (DUF3365)
       0.22   11.5   0.5         31    4.6   0.2    2.5  2  DUF5633          Family of unknown function (DUF5633)


Domain annotation for each model (and alignments):
>> GSDH  Glucose / Sorbosone dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.2   0.0   2.8e-20     1e-16      79     280 ..     163     382 ..     120     446 .. 0.81
   2 ?   -1.7   0.0       0.4   1.4e+03       3      19 ..     422     438 ..     420     463 .. 0.80

  Alignments for each domain:
  == domain 1  score: 61.2 bits;  conditional E-value: 2.8e-20
                              SSEEEEEEEEE-SS..-EEEEEEEEEEE---TT-------EEE-TTS-EEEE---TT-...GG..............GGG-TT-SS CS
                     GSDH  79 gagtavararlsedeaaledlevifrqepkvesgahfGsrlafgpdgtLfvtvGdrsk...re..............eaqdlssel 147
                              g++ta+ r++  ++ + le+ ev+ ++ p+  +g h    +af++ g+Lfv vG + +   ++              ea++++  +
  PHY93_10270|PHY93_10270 163 GSSTAILRFNPLAT-NPLESIEVLIKDLPA--EGLHPLKSFAFDESGSLFVNVGAATNvchKNsvgsifgnrnktcdEAENREIGQ 245
                              56788888886554.69*************..899*********************998762245555555666677888888889 PP

                              SEEEE..E-TTSSB-TT-TTTT-TTS-TTEEEE--SCE---EE-TTT--EEEEEE--SSS..............EEEEEE-TT-B- CS
                     GSDH 148 Gkilr..lnkdGsvpadnpfvgkagakpeiwsyGhRnpqGlaldpdtgeLwesEhGprgg..............DelnlieaGknY 217
                              G+i r  +n++Gsv+++  f        ei++ G Rn  +l++d++ + L + E                    De+nlie+Gk Y
  PHY93_10270|PHY93_10270 246 GQIRRykINNNGSVADG--F--------EIYAKGLRNSVALTWDSKRQVLIQGENSRDTIeknaphlsgadlphDEINLIEQGKHY 321
                              98854338888888544..4........8*****************9****99987655578999********************* PP

                              -TTT-S......S-.....-S-TTS---SEEETT---EEEEEEE........TTEEEEEETTT CS
                     GSDH 218 GWplvsygeeYsgkkigesetreglekpvlvwtpsiapsglafytgdafpewkgdllvggLks 280
                              GWp     ++ ++++  ++ +  +++kp +      ap +l +y+g++fpew +  ++++L+ 
  PHY93_10270|PHY93_10270 322 GWPYCY--DNNQSSPEWKQIKCGSYQKPQMLLPAHSAPLSLHVYNGSMFPEWYQGRMFAALHG 382
                              ***998..4445556667788889********999*****************99999999974 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 0.4
                              -EEEEEE-TTS-EEEEE CS
                     GSDH   3 hPwslaflpdgrlLvte 19 
                              +P +++ lpdg++++ e
  PHY93_10270|PHY93_10270 422 SPVGITELPDGSMIIIE 438
                              58888999999998866 PP

>> Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       1.5   5.3e+03      16      29 ..     218     230 ..     217     253 .. 0.67
   2 ?   -3.0   0.0       2.7   9.7e+03      23      44 ..     298     318 ..     295     324 .. 0.74
   3 ?   13.3   0.0   2.2e-05      0.08       9      60 ..     503     567 ..     500     572 .. 0.53

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 1.5
          Cytochrome_CBB3  16 sCHgkggagpslag 29 
                               CH+ + +g  + +
  PHY93_10270|PHY93_10270 218 VCHK-NSVGSIFGN 230
                              6999.777754443 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 2.7
          Cytochrome_CBB3  23 agpslagrdwepdalvdiiknG 44 
                              ++p+l+g d+++d++ + i++G
  PHY93_10270|PHY93_10270 298 NAPHLSGADLPHDEI-NLIEQG 318
                              568999999999887.555655 PP

  == domain 3  score: 13.3 bits;  conditional E-value: 2.2e-05
          Cytochrome_CBB3   9 lykknCasCHg.kggagpsla..grdwep.........dalvdiik..nGkgaMpafggqlsdeel 60 
                              + +k+C  CHg +++ g +l   +++ ++         +++++++    G+  Mp++g   s+ee+
  PHY93_10270|PHY93_10270 503 VIDKTCYVCHGgENAPGIQLLryDDEGNDarilkakkaSEVYSMVSgvAGFPPMPPQGF-SSEEEA 567
                              6789******9444445444455223333123333344666665540033457999885.444444 PP

>> PSCyt1  Planctomycete cytochrome C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   6.7e-05      0.24       1      59 []     508     560 ..     508     560 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 6.7e-05
                   PSCyt1   1 CyeCHgpddaegglrLdsrdaalkggesg.aaivpgdpeeselierilsddedmeMPPpd 59 
                              Cy CHg+++a  g++L + d      ++g  a + +  ++se+++ ++       MPP++
  PHY93_10270|PHY93_10270 508 CYVCHGGENA-PGIQLLRYD------DEGnDARILKAKKASEVYSMVSGVAGFPPMPPQG 560
                              ********96.778888887......23446777788899******************86 PP

>> DUF3365  Protein of unknown function (DUF3365)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   4.7e-05      0.17      86     139 ..     473     528 ..     459     536 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 4.7e-05
                              S--SHHHHHHHHHEE......TEEEEEEEEE--TTTHHHHS-GGG--HHHHHH-T-- CS
                  DUF3365  86 kpdefEkealeefkk...egervfryarplrveesClkCHgdpedapkslierygkd 139
                              ++++ E++ l+ +kk   ++ + f +++   ++++C  CHg + +ap  +  ry ++
  PHY93_10270|PHY93_10270 473 RANAEETRRLKLLKKlaaGNSKPFTLFQTRVIDKTCYVCHGGE-NAPGIQLLRYDDE 528
                              56777777777775565568999******************88.7888777777655 PP

>> DUF5633  Family of unknown function (DUF5633)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.0    0.0092        33      18      39 ..     139     162 ..     136     163 .. 0.80
   2 ?    4.6   0.2    0.0086        31       1      12 [.     559     570 ..     559     572 .. 0.93

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.0092
                  DUF5633  18 en...dpiNnsYevaqgadGryyYk 39 
                              +    + iN   ++++  dG yyY+
  PHY93_10270|PHY93_10270 139 KDprrEIINRPHQITKHTDG-YYYV 162
                              55555789999*********.8885 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.0086
                  DUF5633   1 sGYatkeeAekA 12 
                              +G++++eeA++A
  PHY93_10270|PHY93_10270 559 QGFSSEEEAREA 570
                              7*********99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (582 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       425  (0.0237046); expected 358.6 (0.02)
Passed bias filter:                      415  (0.0231469); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.57u 0.22s 00:00:00.78 Elapsed: 00:00:00.38
# Mc/sec: 4548.66
//
Query:       PHY93_10275|PHY93_10275  [L=345]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.7e-30  105.1   3.4    3.4e-30  104.1   3.4    1.5  1  ADH_N         Alcohol dehydrogenase GroES-like domain
    7.7e-23   80.9   0.1    1.5e-22   80.0   0.1    1.5  1  ADH_zinc_N    Zinc-binding dehydrogenase
    6.9e-06   27.2   0.0    1.2e-05   26.3   0.0    1.5  1  ADH_zinc_N_2  Zinc-binding dehydrogenase
    7.8e-06   25.5   1.0    2.8e-05   23.7   1.0    1.8  1  Glu_dehyd_C   Glucose dehydrogenase C-terminus
    0.00041   19.7   0.1    0.00086   18.7   0.1    1.5  1  AlaDh_PNT_C   Alanine dehydrogenase/PNT, C-terminal domain
     0.0056   16.6   0.0      0.011   15.7   0.0    1.5  1  ADH_N_assoc   Alcohol dehydrogenase GroES-associated
  ------ inclusion threshold ------
        0.1   11.9   0.0       0.29   10.5   0.0    1.6  2  NAS           Nicotianamine synthase protein


Domain annotation for each model (and alignments):
>> ADH_N  Alcohol dehydrogenase GroES-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  104.1   3.4   1.3e-33   3.4e-30       2     103 ..      26     130 ..      25     136 .. 0.92

  Alignments for each domain:
  == domain 1  score: 104.1 bits;  conditional E-value: 1.3e-33
                              TEEEEEEEEEEE-HHHHHHHTTSTTTTSSSSEE---EEEEEEEEESTT-CS--TT-EEEE-SEEE-SSSHHHHTT-GGG-TTBEET CS
                    ADH_N   2 gevlikvkaagiCgsDlhilkggkelevklplilGHEivGeveevgpevkklkvGdrVvvepliscgeCaaCkegeenlCeeakll 87 
                              +++++k++ ++iCg+Dlhi kg + ++v  + ilGHE vG++eevg +v+++kvGd+V++++++scg+C++Ck+g +++Ce+++ +
  PHY93_10275|PHY93_10275  26 TDAIVKMTKTTICGTDLHIKKG-DVPTVTDGRILGHEGVGVIEEVGGSVTNFKVGDHVLISCITSCGKCSNCKKGMYSHCENGGGW 110
                              6899******************.8********************************************************998877 PP

                              TTS..S-SSSBSEEEEC..G CS
                    ADH_N  88 gvs..ldGgfaeyvvvp..e 103
                               ++  +dG++aeyv +p  +
  PHY93_10275|PHY93_10275 111 ILGnlIDGTQAEYVRIPyaD 130
                              66667**********99544 PP

>> ADH_zinc_N  Zinc-binding dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   80.0   0.1   5.9e-26   1.5e-22       1     113 [.     178     291 ..     178     305 .. 0.91

  Alignments for each domain:
  == domain 1  score: 80.0 bits;  conditional E-value: 5.9e-26
                              HHHHHHHHHHH.HTT-EEEEEESSHHHHHHHHHTTESEEEETTTC.HHHHHHHHHTTTSSEEEEEESSCSHHHHHHHHHCEEEEEE CS
               ADH_zinc_N   1 gvGlaavqlAk.alGaeviavdsseeklelakklGadevinykea.dlverikeltggegvdvvfecvGsgatleaalkllkpgGr 84 
                              ++Gla +  A   + ae+i+vd+++++le akk+Ga+ +in+ ++ +  e+i elt+++gvdv++e+vG+++t++ + ++++ gG 
  PHY93_10275|PHY93_10275 178 PIGLASLLTAQfYSPAEIIMVDVDDNRLEVAKKFGATKLINN-NDgKAIEKIMELTNKRGVDVAIEAVGIPSTFDVCQAIVAAGGH 262
                              6888888888855557**************************.6669*************************************** PP

                              EEECSCTSSEEEEEHHHHHHTT-EEEEE- CS
               ADH_zinc_N  85 lvvvGggkgeeefdlrnlllkeksilGsl 113
                              ++ +G+ +++ ++++ +l+ ++++++  l
  PHY93_10275|PHY93_10275 263 IANIGVHGKPVQLNMDKLWSHNITLTTRL 291
                              ******999999************97655 PP

>> ADH_zinc_N_2  Zinc-binding dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.3   0.0   4.8e-09   1.2e-05       2     120 ..     212     329 ..     211     344 .. 0.72

  Alignments for each domain:
  == domain 1  score: 26.3 bits;  conditional E-value: 4.8e-09
                              T-SEEEETTSTTHH....HHH-TT-EEEEEES-HHHHH.HHHHHHEEEEEEEEE----.S-EEE-CHHHCTTT-EEEE--GGG... CS
             ADH_zinc_N_2   2 GAdevidyrtedfe....aatggegvDvvldtvggealleaslkvlpggGrlvsiggpplsaallkpakkrkgrsvkyeflfsmka 83 
                              GA++ i++ +  +     + t+++gvDv++++vg +++++ + ++++ gG++  ig +  + +l++ ++  +++++++++ +    
  PHY93_10275|PHY93_10275 212 GATKLINNNDGKAIekimELTNKRGVDVAIEAVGIPSTFDVCQAIVAAGGHIANIGVHGKPVQLNMDKL--WSHNITLTTRL---- 291
                              9999997775555559999***************666659998888777***99995333333333333..33333333333.... PP

                              -.-HHHHHHHHHHHHHHH---..-EEEEEEGGGHHHHHH CS
             ADH_zinc_N_2  84 saqadileelaalieeGklrp..vvdrvfpleeaaeAhr 120
                               + + +   l++ + +Gkl+p   ++++f+l+++ +A++
  PHY93_10275|PHY93_10275 292 -VDTVTTPMLFKTVMSGKLQPkkLITHHFKLNDVMQAYK 329
                              .23444667999999***9984459999*****999997 PP

>> Glu_dehyd_C  Glucose dehydrogenase C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.7   1.0   1.1e-08   2.8e-05      32     209 ..     169     343 ..     163     345 .] 0.71

  Alignments for each domain:
  == domain 1  score: 23.7 bits;  conditional E-value: 1.1e-08
              Glu_dehyd_C  32 esalvlGaGslGLLalalleaeerglervyvlgrrdrpdptidlveelGatYv..dsretpvdeipea..seemdlvvEaTGsakh 113
                              +++ ++G G++GL +  ll+a  + ++   ++   d +d ++++ ++ Gat    +++ + +++i e   ++ +d+ +Ea G +  
  PHY93_10275|PHY93_10275 169 DTVAIVGGGPIGLAS--LLTA--QFYSPAEIIM-VDVDDNRLEVAKKFGATKLinNNDGKAIEKIMELtnKRGVDVAIEAVGIPST 249
                              5789*********99..5554..3455555554.478999***********75224455788988876115679*********986 PP

              Glu_dehyd_C 114 afeaiea.lapnGvaaLlGvpedsevevdggelhrelvleNkalvGsvNanrrhfeaavdtLaalpeslldelvtkvvdldeleeA 198
                               f+  +a +a+ G +a +Gv  +  v++++++l ++ +   + lv +v + +  f++ ++      +   ++l+t+  +l+++ +A
  PHY93_10275|PHY93_10275 250 -FDVCQAiVAAGGHIANIGVHGKP-VQLNMDKLWSHNITLTTRLVDTVTTPM-LFKTVMSG-----KLQPKKLITHHFKLNDVMQA 327
                              .555555278889999****8765.888888888887777788888887655.45544332.....22356788888888888888 PP

              Glu_dehyd_C 199 fe.....dddetiKtv 209
                              ++      +++t+K++
  PHY93_10275|PHY93_10275 328 YKtfgnaMEEHTLKVI 343
                              8756655566666666 PP

>> AlaDh_PNT_C  Alanine dehydrogenase/PNT, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   0.1   3.4e-07   0.00086      17     102 ..     159     247 ..     146     252 .. 0.75

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 3.4e-07
                              EETTCEETCB---.EEEEESTSHHHHHHHHHHHHTT.-EEEEEESSHHHHHHHHHTTTCECEE.HCHHHHHHHHHH.....HH-SE CS
              AlaDh_PNT_C  17 gtlaGgvpgvepa.kvlviGgGvaGlqAiatakglg.akVtvlDvrparleqleslgakfvev.lksqeellaeav.....keadv 94 
                              g+l G+v+   p+ +v ++GgG  Gl+++ ta+    a++ ++Dv+ +rle  +++ga+  ++  +++ +++++ +     + +dv
  PHY93_10275|PHY93_10275 159 GVLNGQVK---PGdTVAIVGGGPIGLASLLTAQFYSpAEIIMVDVDDNRLEVAKKFGAT--KLiNNNDGKAIEKIMeltnkRGVDV 239
                              67888898...652689***************976549*******************99..4413333344444331112135788 PP

                              EEE---BT CS
              AlaDh_PNT_C  95 vigtvlip 102
                               i +v ip
  PHY93_10275|PHY93_10275 240 AIEAVGIP 247
                              88888887 PP

>> ADH_N_assoc  Alcohol dehydrogenase GroES-associated
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   4.2e-06     0.011       1      22 [.       1      22 [.       1      23 [. 0.96

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 4.2e-06
              ADH_N_assoc  1 MKAVTyqGpkdVrVeeVPDPkI 22
                             MK ++y+Gp + + e+ P P+I
  PHY93_10275|PHY93_10275  1 MKSLVYHGPGKLALEDKPKPSI 22
                             888*****************99 PP

>> NAS  Nicotianamine synthase protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   0.00011      0.29     120     180 ..     166     233 ..     153     263 .. 0.65
   2 ?   -1.6   0.0      0.53   1.4e+03      33      71 ..     286     328 ..     276     344 .. 0.66

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00011
                      NAS 120 vPt.kvaFiGsGPlPltslvlaskhls.ktifdnlDkd..gla.ndkasklvsaded..lssrmsfht 180
                              +P   va +G GP+ l+sl+ a+ + + ++i+ ++D +    a +  a+kl++++++  +++ m +  
  PHY93_10275|PHY93_10275 166 KPGdTVAIVGGGPIGLASLLTAQFYSPaEIIMVDVDDNrlEVAkKFGATKLINNNDGkaIEKIMELTN 233
                              34448*****************9998833444566654122341456888998544311566666654 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 0.53
                      NAS  33 aLFtdLvtacitrsp.vdvtk..lg.qevqeileeLirlcsea 71 
                              +L t+Lv++++t+     v +  l+ +++ +   +L+ + +++
  PHY93_10275|PHY93_10275 286 TLTTRLVDTVTTPMLfKTVMSgkLQpKKLITHHFKLNDVMQAY 328
                              4778999999998886666655576555555555555555544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (345 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       613  (0.0341904); expected 358.6 (0.02)
Passed bias filter:                      410  (0.022868); expected 358.6 (0.02)
Passed Vit filter:                        67  (0.00373696); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.40
# Mc/sec: 2559.45
//
Query:       PHY93_10280|PHY93_10280  [L=249]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.2e-33  116.0   9.5    1.6e-33  115.6   9.5    1.1  1  MgtC           MgtC family
  ------ inclusion threshold ------
      0.013   14.6   0.8      0.017   14.2   0.8    1.1  1  Acyl_transf_3  Acyltransferase family
      0.047   14.0   0.1      0.093   13.1   0.1    1.5  1  LAGLIDADG_3    LAGLIDADG-like domain
      0.054   13.7   0.1      0.054   13.7   0.1    2.9  3  ATPase_gene1   Putative F0F1-ATPase subunit Ca2+/Mg2+ transpo
       0.89    9.2   3.6          1    9.0   0.8    2.2  3  DUF4956        Domain of unknown function (DUF4956)


Domain annotation for each model (and alignments):
>> MgtC  MgtC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  115.6   9.5   4.6e-37   1.6e-33       2     118 ..      26     149 ..      25     151 .. 0.94

  Alignments for each domain:
  == domain 1  score: 115.6 bits;  conditional E-value: 4.6e-37
                     MgtC   2 llAlllGlliGleRelrekaaGlRTfaLvalgaalfvllslelae.........srvaaqvvsgigflgagvilkekegakvkglT 78 
                              +  l+lG l+G+eRe + k aG++T++L++lga+l + +s+  +          sr+ aq+vsgigflgag+il  +++ ++ glT
  PHY93_10280|PHY93_10280  26 VTGLILGSLVGYEREQKMKNAGIKTNVLICLGATLYTAISMIGHGqgggidydaSRIPAQIVSGIGFLGAGAIL--RDRGTIIGLT 109
                              67799**********************************88876699***************************..66569***** PP

                     MgtC  79 TaaslwvtaaiGllvglglyllavvatvlvllllallrel 118
                              Taa++wv+aaiG+ +g+g+ ++a++ t+++l +l ll+++
  PHY93_10280|PHY93_10280 110 TAATIWVVAAIGMTIGYGFPIIATIFTLTILSVLKLLSPI 149
                              ***********************************99987 PP

>> Acyl_transf_3  Acyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.8   4.7e-06     0.017     153     241 ..      42     127 ..      27     157 .. 0.74

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 4.7e-06
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Acyl_transf_3 153 llrkvrkshlllllilllllslvfirhelfgpatsvgllplpsvla..llfflfGalladaddrdrnlsrglkislllsllllali 236
                              ++++ + + ++l++++++l+++++++ +++g    ++++ +p+ +   + f+++Ga+l+d    ++    ++++++++  +++   
  PHY93_10280|PHY93_10280  42 KMKNAGIKTNVLICLGATLYTAISMIGHGQGGGIDYDASRIPAQIVsgIGFLGAGAILRDRGTIIGLTTAATIWVVAAIGMTI--- 124
                              6788888999*********************************6666666666666666666666655555444444444444... PP

                              xxxxx RF
            Acyl_transf_3 237 llalf 241
                                +++
  PHY93_10280|PHY93_10280 125 --GYG 127
                              ..333 PP

>> LAGLIDADG_3  LAGLIDADG-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.1   2.6e-05     0.093      43      82 ..     139     179 ..     136     180 .. 0.93

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 2.6e-05
                              HHHHCT.HSCEEEE.EEE-SCCCCECCCHCHCTTCGGGTTT CS
              LAGLIDADG_3  43 lLlrlGIestiyek.kkakgrgvyrlliisgenlkrFleki 82 
                              +L+ l + s iy+   ++k++ +y++ i s+ ++k+Fl++i
  PHY93_10280|PHY93_10280 139 ILSVLKLLSPIYKGfESTKNHRYYHVEILSNGDIKNFLKEI 179
                              677888999******************************98 PP

>> ATPase_gene1  Putative F0F1-ATPase subunit Ca2+/Mg2+ transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.1   1.5e-05     0.054       4      44 ..      18      58 ..      17      60 .. 0.94
   2 ?   -0.6   0.4      0.42   1.5e+03       4      20 ..      79      95 ..      78     108 .. 0.69
   3 ?   -1.2   5.3      0.65   2.3e+03       6      37 ..     105     137 ..     102     141 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1.5e-05
             ATPase_gene1  4 asqiGielvapillggllGywLDkkfgtspwfliiglllGl 44
                             ++++Gi +v++ +lg l+Gy  ++k++++ + + +++ lG 
  PHY93_10280|PHY93_10280 18 YLGMGIKIVTGLILGSLVGYEREQKMKNAGIKTNVLICLGA 58
                             789*************************99*9999999996 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.42
             ATPase_gene1  4 asqiGielvapillggl 20
                             as+i  ++v +i+  g+
  PHY93_10280|PHY93_10280 79 ASRIPAQIVSGIGFLGA 95
                             67888888888877444 PP

  == domain 3  score: -1.2 bits;  conditional E-value: 0.65
             ATPase_gene1   6 qiGielvapillggllGywLDkkfgt.spwfli 37 
                               iG++ +a+i + +++G+ +   f+  + +f++
  PHY93_10280|PHY93_10280 105 IIGLTTAATIWVVAAIGMTIGYGFPIiATIFTL 137
                              589999999***9***99999866555555554 PP

>> DUF4956  Domain of unknown function (DUF4956)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0      0.55     2e+03      94     126 ..      46      78 ..      24      87 .. 0.62
   2 ?    9.0   0.8   0.00028         1      46     143 ..      85     179 ..      79     207 .. 0.73
   3 ?   -0.2   0.1      0.19   6.9e+02     111     140 ..     214     243 ..     199     245 .. 0.78

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.55
                  DUF4956  94 ellvlnvlivlvlallesprllkkerrklvtld 126
                                + +nvli+l  +l+    ++ + +   + +d
  PHY93_10280|PHY93_10280  46 AGIKTNVLICLGATLYTAISMIGHGQGGGIDYD 78 
                              345567777777777777777766666666666 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.00028
                  DUF4956  46 siglglGLfgvlsilRlRseeisvrevtYlFvaialglinglaslslvellvlnvlivlvlallesprllkkerrklvtldrieli 131
                              +i  g+G +g  +ilR R + i     + ++v+ a+g++ g++   +  ++++ +l++l ++ l sp+    e++k  ++ ++e +
  PHY93_10280|PHY93_10280  85 QIVSGIGFLGAGAILRDRGTIIGLTTAATIWVVAAIGMTIGYG---FPIIATIFTLTILSVLKLLSPIYKGFESTKNHRYYHVEIL 167
                              667899***********************************96...4444444455555555555666677777777777776666 PP

                  DUF4956 132 apedeeeliadl 143
                                 d ++  +++
  PHY93_10280|PHY93_10280 168 SNGDIKNFLKEI 179
                              666665555555 PP

  == domain 3  score: -0.2 bits;  conditional E-value: 0.19
                  DUF4956 111 sprllkkerrklvtldrieliapedeeeli 140
                              + r+++ + r +v+++ri+ +++++++ ++
  PHY93_10280|PHY93_10280 214 KMRIMSDALRDIVQVQRIHYHQIDNKSVIR 243
                              556777788999999999999999887665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (249 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1025  (0.0571699); expected 358.6 (0.02)
Passed bias filter:                      616  (0.0343577); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.59u 0.25s 00:00:00.84 Elapsed: 00:00:00.47
# Mc/sec: 1576.77
//
Query:       PHY93_10285|PHY93_10285  [L=66]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.3e-06   27.9   0.0    2.7e-06   27.7   0.0    1.1  1  OmpA      OmpA family


Domain annotation for each model (and alignments):
>> OmpA  OmpA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.7   0.0   1.5e-10   2.7e-06      41      91 ..       5      55 ..       2      59 .. 0.85

  Alignments for each domain:
  == domain 1  score: 27.7 bits;  conditional E-value: 1.5e-10
                             --HHHHHHHHHHHHHHHHHHHHHTTSSGGGEEEEE-TT------------- CS
                     OmpA 41 gseernweLSqkRAeaVanylqnegvppsrisvsgyGaerpitanntaekk 91
                              s + n +L +kR + V++++ ++g++++r+s++++G+e+p++ + ++++ 
  PHY93_10285|PHY93_10285  5 RSVQFNLALGEKRSKDVEDFFLEQGISADRLSFVSIGKEHPVSFGHDEDSW 55
                             45566************************************9977776655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (66 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       161  (0.00897987); expected 358.6 (0.02)
Passed bias filter:                      149  (0.00831056); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.24s 00:00:00.63 Elapsed: 00:00:00.42
# Mc/sec: 476.97
//
Query:       PHY93_10290|PHY93_10290  [L=174]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (174 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       338  (0.0188521); expected 358.6 (0.02)
Passed bias filter:                      209  (0.0116571); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.20s 00:00:00.63 Elapsed: 00:00:00.40
# Mc/sec: 1321.07
//
Query:       PHY93_10295|PHY93_10295  [L=489]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.5e-10   39.0   0.0      2e-09   37.1   0.0    1.9  1  Pyr_redox_2      Pyridine nucleotide-disulphide oxidoreductas
    0.00039   20.1   0.0       0.13   11.8   0.0    2.3  2  DAO              FAD dependent oxidoreductase
     0.0033   16.3   0.0     0.0055   15.6   0.0    1.3  1  Trp_halogenase   Tryptophan halogenase
  ------ inclusion threshold ------
      0.088   12.7   0.0        1.3    8.9   0.0    2.1  2  Glucosamine_iso  Glucosamine-6-phosphate isomerases/6-phospho
        0.1   13.0   0.0       0.23   11.9   0.0    1.6  1  NAD_binding_7    Putative NAD(P)-binding


Domain annotation for each model (and alignments):
>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.1   0.0   5.6e-13     2e-09       1     160 [.       9     191 ..       9     323 .. 0.70

  Alignments for each domain:
  == domain 1  score: 37.1 bits;  conditional E-value: 5.6e-13
                              CSEEEE--SHHHHHHHHHHHH...HTS-EEEEETTHCHHHCSHHHHCHHHHHHHHHHHHH...........HHHHCHHHHCCCCHC CS
                              xxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...........xxxxxxxxxxxxxxx RF
              Pyr_redox_2   1 kdvvviGgGpAGlaaaltlaq...agakvtlvelegtclnggcllskallgvaedaeias...........evvkklnqgielllg 72 
                              k++v++G+G+ G++aal++++    +a++t+v+ e+   n+  ++s++++gv + +e+             e +   + giel+ +
  PHY93_10295|PHY93_10295   9 KKIVILGAGVSGHTAALYAKRflrDKADITVVSPEK-DYNW--IPSNIWVGVNQMREEDVlfpllpvytkkEITFIRGRGIELFPE 91 
                              589******************9877*******5555.4455..999**********99999*999888765444444444555555 PP

                              CTCEEEEESCEEEEETEEEC....TCEEEEEESEEEE---EEE-BCTCTTC.TTBEECCSECHHHHHHCCSS-T..........SE CS
                              xxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..........xx RF
              Pyr_redox_2  73 eevvkidpgkkkvklekkke....gdeekiaydklvlAtGssprdlgipGvaenvgklvrtldsaealklkllp..........kr 144
                                ++k  +++  v++e + +    g++++++yd+l+ AtG + +   ++G++++++   + ++   a +   +           k+
  PHY93_10295|PHY93_10295  92 --GTKESEKS-FVVYEST-NektkGEKHNLDYDYLINATGPKLNFEATKGLGPDYHIY-SVCTAHHATQAGAKLnacieemkkgKH 172
                              ..33332222.2222222.14667999*************766666899996666544.555555555544444458877777755 PP

                              E.EEES..-SHHHHHHHHH CS
                              x.xxxx..xxxxxxxxxxx RF
              Pyr_redox_2 145 i.vvvG..gGyiGvElAaa 160
                              + +vvG   G + +E Aa+
  PHY93_10295|PHY93_10295 173 LtLVVGmgHGTCTCEGAAF 191
                              4455551145566665555 PP

>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.8   0.0   3.7e-05      0.13       1      31 [.      10      45 ..      10      51 .. 0.80
   2 !    6.2   0.0    0.0019       6.8     181     227 ..     101     154 ..      73     241 .. 0.63

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 3.7e-05
                             EEEEECTSHHHHHHHHHHHHT...T...EEEEESSSS CS
                      DAO  1 dvviiGGGiiGlstAyeLarr...g...Vtllekgdi 31
                             ++vi G+G+ G ++A+++ +r       +t++  +++
  PHY93_10295|PHY93_10295 10 KIVILGAGVSGHTAALYA-KRflrDkadITVVSPEKD 45
                             59****************.443433589999987755 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.0019
                              EEE...EECT.EEEE..EEEEEEE--GGGHH.HH.HTT.CTTTSEEEEEEEEEEEE CS
                      DAO 181 gve...rttp.gend..aadavVnaaGawsd.ll.gll.keldlpispvrgqvlvl 227
                               v+   +++  ge++   +d+++na+G+  + ++ ++l ++    i+ v   + ++
  PHY93_10295|PHY93_10295 101 VVYestNEKTkGEKHnlDYDYLINATGPKLNfEAtKGLgPD--YHIYSVCTAHHAT 154
                              333566444447775454577********997555555443..3665544444444 PP

>> Trp_halogenase  Tryptophan halogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   1.5e-06    0.0055       1      34 [.      10      43 ..      10      46 .. 0.93

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 1.5e-06
                             EEEEE--SHHHHHHHHHHHHHTTTSSEEEEEE-S CS
           Trp_halogenase  1 kivivGGGtaGwlaAaalakalkgklevtlvese 34
                             kivi+G+G +G +aA + ++ l++k+++t+v  e
  PHY93_10295|PHY93_10295 10 KIVILGAGVSGHTAALYAKRFLRDKADITVVSPE 43
                             79********************999*****9765 PP

>> Glucosamine_iso  Glucosamine-6-phosphate isomerases/6-phosphogluconolactonase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   0.0   0.00036       1.3     132     155 ..      11      33 ..       7      48 .. 0.74
   2 ?    1.3   0.0     0.074   2.7e+02     135     166 ..     136     167 ..      88     178 .. 0.68

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.00036
                              EEEE---TTS-BTTB-TTCHHHHC CS
          Glucosamine_iso 132 lvlLGmGpDGHtaSLFPgspelee 155
                              +v+LG G  GHta L+ +    ++
  PHY93_10295|PHY93_10295  11 IVILGAGVSGHTAALYAKRFL-RD 33 
                              79**************98765.33 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.074
                              E---TTS-BTTB-TTCHHHHCSSSSEEEESSB CS
          Glucosamine_iso 135 LGmGpDGHtaSLFPgspeleetdrlvvaveds 166
                               G+GpD H+ S    +++ +  ++l + +e+ 
  PHY93_10295|PHY93_10295 136 KGLGPDYHIYSVCTAHHATQAGAKLNACIEEM 167
                              599*******9999999976666666666533 PP

>> NAD_binding_7  Putative NAD(P)-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   6.5e-05      0.23       8      40 ..       9      44 ..       7     130 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 6.5e-05
            NAD_binding_7  8 kkvlvvGgG...evAarkvrklleagakvtvvapev 40
                             kk+++ G+G     Aa  ++++l+ +a++tvv+pe 
  PHY93_10295|PHY93_10295  9 KKIVILGAGvsgHTAALYAKRFLRDKADITVVSPEK 44
                             78889997622266777899***************4 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (489 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       470  (0.0262145); expected 358.6 (0.02)
Passed bias filter:                      422  (0.0235373); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.39
# Mc/sec: 3741.79
//
Query:       PHY93_21350|PHY93_21350  [L=334]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (334 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       278  (0.0155056); expected 358.6 (0.02)
Passed bias filter:                      129  (0.00719505); expected 358.6 (0.02)
Passed Vit filter:                         5  (0.000278878); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 2478.75
//
Query:       PHY93_19310|PHY93_19310  [L=132]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (132 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       371  (0.0206927); expected 358.6 (0.02)
Passed bias filter:                      239  (0.0133304); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.19s 00:00:00.59 Elapsed: 00:00:00.37
# Mc/sec: 1072.27
//
Query:       PHY93_19315|PHY93_19315  [L=474]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    3.9e-42  145.0   0.0    6.4e-42  144.3   0.0    1.3  1  PmbA_TldD  Putative modulator of DNA gyrase


Domain annotation for each model (and alignments):
>> PmbA_TldD  Putative modulator of DNA gyrase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  144.3   0.0   3.6e-46   6.4e-42       3     277 ..      19     321 ..      17     322 .. 0.85

  Alignments for each domain:
  == domain 1  score: 144.3 bits;  conditional E-value: 3.6e-46
                              EEEEEEEEEEEEEEETTEEEEEEEEEEEEEEEEEEETTEEEE.EE....ESSHHHHHHHHHHHHHHCCS---TT-........... CS
                PmbA_TldD   3 evrleesestsvrfengevetnsssedsglgvrvikggrlgf.astl.dtsdealeeaveraveiaklapedpea........... 75 
                              ++r + +++ +++++n  +e ++ssed+gl++ v  +g++++ a+++ ++s  ++ +++ +a ++a  a+                
  PHY93_19315|PHY93_19315  19 SLRSVYNKTVNISVRNEILEGVTSSEDHGLMIEVMIDGQIAYgATNSfEPS--EVLRCALKAKQSALMAKR---Fglyqfsehvrp 99 
                              67888999**********************************955444888..666666666666633322...245578778887 PP

                              ..............GGS-HHHHHHHHHHHHHH.CHCSTTEEEEEEEEEE......EEE.EEEEEEETTSEEEEEEEEEEEEEEEEE CS
                PmbA_TldD  76 ..............eevsaeekielleelekalrsadpkienskgarisgvsaslsaskeeklianSeGldveqtrtrvslslsvi 147
                                            e   ++e  ell  l+ a ++ ++        ++ ++sas s +++e++++ ++G+dv q+  r s+sl ++
  PHY93_19315|PHY93_19315 100 kvvgeyqgpaargiEHFIPSELSELLMTLSTA-MKIHE--------HVISRSASFSLTETESHMVATNGSDVLQKIIRSSISLGAT 176
                              77777777777776666666666676666655.77777........9*************************************** PP

                              E..S..TCS...ETEEEEEEEESSHHHS..SSHHHHHHHHHHCTTT-B---SEEEEEEE-HHHHHHHHHGHHHHHTBHHHHH.... CS
                PmbA_TldD 148 a.dd..ggs...gdgmgggsgyedleeedleeiaeeaaekalasleakplppgkypVvlspeavgsllheavghaleadavl.... 223
                              a ++  +++   gd++++ sg e+l++ +l ++ e++a+ ala+lea ++p+ + +++l+p+++ + +he++gh+le+d++l    
  PHY93_19315|PHY93_19315 177 AaSEkgSQRrtfGDDQSSQSGLERLDSHQLLQASERIANEALALLEAPECPSETLDLLLAPDQMYLQIHESIGHPLELDRILgder 262
                              *6654533367655667777779999999********************************************************9 PP

                              ..TT--TTTT.-TTS.B-S-TT--EEEETT-......-SB-TTSBB---EEEEETTEE- CS
                PmbA_TldD 224 ..egrSflkd.klGe.kvaselltivddpts.gglgsypfDdEGvptqrtvlIenGvLk 277
                                +g Sf k+ ++G+ +++s+l++++ dpt  g+ +sy  Dd G  + r +lI++G+L+
  PHY93_19315|PHY93_19315 263 nyAGWSFVKPsDFGTlQYGSKLMNVTFDPTVvGQNASYFADDIGAIATREYLIRDGILE 321
                              999*****9966******************99*************************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (474 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       374  (0.0208601); expected 358.6 (0.02)
Passed bias filter:                      352  (0.019633); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.38
# Mc/sec: 3726.12
//
Query:       PHY93_19320|PHY93_19320  [L=445]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    2.6e-15   57.0   0.0    3.5e-15   56.6   0.0    1.1  1  PmbA_TldD  Putative modulator of DNA gyrase


Domain annotation for each model (and alignments):
>> PmbA_TldD  Putative modulator of DNA gyrase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.6   0.0     2e-19   3.5e-15       6     279 .]      34     308 ..      31     308 .. 0.70

  Alignments for each domain:
  == domain 1  score: 56.6 bits;  conditional E-value: 2e-19
                              EEEEEEEEEEEETTEEEEEEEEEEEEEEEEEEETTEEEE..EE....ESS...HHHHHHHHHHHHHHCCS---TT-.......... CS
                PmbA_TldD   6 leesestsvrfengevetnsssedsglgvrvikggrlgf..astl.dtsd...ealeeaveraveiaklapedpea.......... 75 
                              l+ +e+++ rf+n +v+++++ ++  + +  ikg+++ +     + ++++   ++  + ++++     + pedp+           
  PHY93_19320|PHY93_19320  34 LSAEETLFTRFSNAKVRQITNLNQAFIDFNFIKGNKTLSfsL--PfKATEddfAGALKKIKESRIWIAHLPEDPYLvrpefygvtk 117
                              678999************99999999*******887777352..333333345455566666666666899999989876644443 PP

                              .....GGS-HHHHH.HHHHHHHHH.CHCSTTEEEEEEEEEE......EEE.EEEEEEETTSE.EEEEEEEEEEEEEEEEE...STC CS
                PmbA_TldD  76 .....eevsaeeki.elleelekalrsadpkienskgarisgvsaslsaskeeklianSeGl.dveqtrtrvslslsvia.d.dgg 152
                                   + +s +e    +le+++                +++ + ++ s+    ++ +nS G  +++ tr+++ l +s    + +  
  PHY93_19320|PHY93_19320 118 denlfDLPSNDEMLsGILESAS----------------HVDMAGVF-SSGDIVRATINSVGQfHWFKTRNFY-LDYSLYNnKqK-- 183
                              3322111111111111122111................33333333.4444779999*****8999999888.55555552211.. PP

                              SETEEEEEEEE....SSHHHS..SSHHHHHHHHHHCTTT.-B---SEEEEEEE-HHHHHHHHHGHHHHHTBHHHHHTT--TTTT.- CS
                PmbA_TldD 153 sgdgmgggsgy....edleeedleeiaeeaaekalasle.akplppgkypVvlspeavgsllheavghaleadavlegrSflkd.k 232
                                        +     +++ + l++ +++   k+  + + +k+++ g y+V l+p+av +ll+ +   ++++   ++g   +kd  
  PHY93_19320|PHY93_19320 184 -------AVKSlfagNEWDVNALQTNIKDSEYKLSLMNReSKKIERGSYRVFLAPSAVSELLGTLSWGGVSMGDHQRGNGSFKDlW 262
                              .......1111233344555668889999999999999889**********************98888888888888888887866 PP

                              TTSB-S-TT--EEEETT...-.....-SB-TTSBB---EE.EEETTEE--- CS
                PmbA_TldD 233 lGekvaselltivddpt...sgglgsypfDdEGvptqrtv.lIenGvLkny 279
                                +k +s+++++++d     s       f+d G  +     +Ie+G Lkn+
  PHY93_19320|PHY93_19320 263 EKKKKLSPKFNLTEDFSlgmS-----PRFNDRGEVAPSLLpIIEKGELKNF 308
                              999************875433.....9*********98888*********8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (445 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       406  (0.0226449); expected 358.6 (0.02)
Passed bias filter:                      350  (0.0195214); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.37
# Mc/sec: 3607.25
//
Query:       PHY93_19325|PHY93_19325  [L=287]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.8e-36  125.7  29.7    2.3e-36  125.4  29.7    1.0  1  BPD_transp_2  Branched-chain amino acid transport system / pe


Domain annotation for each model (and alignments):
>> BPD_transp_2  Branched-chain amino acid transport system / permease component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  125.4  29.7   1.3e-40   2.3e-36       3     268 .]       9     274 ..       7     275 .. 0.92

  Alignments for each domain:
  == domain 1  score: 125.4 bits;  conditional E-value: 1.3e-40
             BPD_transp_2   3 lnlltlaailaiaAlGlalvfgiaGvinlghggfmalGayvaalllalllsllllallvallvgaavglllgllvlrlkvdeliit 88 
                              + +l++a++l+++AlG  l+  ++Gvin+g +g+m++Ga++a l++    + ++l+ll++ l+g+ ++ll +++++++k ++++++
  PHY93_19325|PHY93_19325   9 STTLMYATPLIFTALGGVLSE-KTGVINIGLEGMMTMGAFTASLVAIKTSN-PWLGLLAGGLGGLSLALLHAIASIKYKGNQVVSG 92 
                              568999***************.******************99999999998.********************************** PP

             BPD_transp_2  89 llllsvlvgltlllltgitsgvkgqssvkellgfagallsflsaviv.llalllvlavllllrrtrfGralravgeneeaaralGi 173
                               +++++  g++ ++     +  +  +s++++l+ +  +  ++++  + +lal+l l+++++l++t++G+++  vge ++ a+a+G+
  PHY93_19325|PHY93_19325  93 MAINFLGSGFAIFFC----RLFFEGTSMTPPLDLEKKIPEYGGQYATvYLALALSLLIWFVLTKTVLGLRMVSVGEHPKSADAAGL 174
                              ************655....556666678888888888888888776679************************************* PP

             BPD_transp_2 174 nvkrvklltfvisgalAglaGallalllgsipp.nigvglgfnaiaavvlGgagsllgtviGaliigvvksllltllgi.....pt 253
                              nv  ++++ ++ sg+lAgl Ga l+  ++s        g gf aiaa + G + +++ t ++ l +g++++l ++l g      ++
  PHY93_19325|PHY93_19325 175 NVSLYRTIGVLASGFLAGLGGASLSIAIVSNFRpTLISGQGFIAIAALIFGKW-RPIQTALACLFFGLSQALVIFLGGRetihiSS 259
                              **********************9998877665559999***************.**********************9998888779 PP

             BPD_transp_2 254 elarvllgallilvl 268
                              +l ++l ++l +++l
  PHY93_19325|PHY93_19325 260 QLLSILPYILTLIIL 274
                              999999999888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (287 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       514  (0.0286686); expected 358.6 (0.02)
Passed bias filter:                      203  (0.0113224); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.36
# Mc/sec: 2415.64
//
Query:       PHY93_19330|PHY93_19330  [L=361]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.4e-44  151.5  24.4    2.4e-44  151.5  24.4    1.6  2  BPD_transp_2  Branched-chain amino acid transport system / pe
  ------ inclusion threshold ------
        8.3    6.6   9.1        1.7    8.8   2.0    3.2  3  Insulin_TMD   Insulin receptor trans-membrane segment


Domain annotation for each model (and alignments):
>> BPD_transp_2  Branched-chain amino acid transport system / permease component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.2      0.13   1.2e+03      64      82 ..       8      26 ..       4      38 .. 0.64
   2 !  151.5  24.4   2.6e-48   2.4e-44       1     267 [.      46     343 ..      46     344 .. 0.92

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 0.13
             BPD_transp_2 64 lvgaavglllgllvlrlkv 82
                             +++++ gll+g+l+l+l  
  PHY93_19330|PHY93_19330  8 ILCVLGGLLFGALILKLSG 26
                             4566666677777666654 PP

  == domain 2  score: 151.5 bits;  conditional E-value: 2.6e-48
             BPD_transp_2   1 gilnlltlaailaiaAlGlalvfgiaGvinlghggfmalGayvaalllalllsl....lllallvallvgaavglllgllvlrlkv 82 
                              +i+ ++ ++++l++++l++a+ f ++G++n+g +g++++Ga +aa+   ++  +    ++l+l +a+ ++ + g + g++++r++v
  PHY93_19330|PHY93_19330  46 YIAYIIIRSTPLILTGLSVAFAF-RTGLFNIGTEGQFIIGALSAAYFGLYFNFNpwiqIPLVLTLAVFISSLYGGIAGFMKARFGV 130
                              57899******************.**********************999999998888999999999999999999********** PP

             BPD_transp_2  83 deliitllllsvlvgltlllltgitsgvkgqssvkellgfagallsflsaviv..........................llalllv 142
                              +e+i+t++l+++++++ +  +  +  g   +++ +  + +++++++ l  + +                          +la+++v
  PHY93_19330|PHY93_19330 131 HEVISTIMLNWIALYFSN--YMVLLEGFHKPNTETSEFINPSTSITILENWKSsdaglewlgrhpflsefmrpsinagiFLAIIAV 214
                              ***************999..6667777777777777777777777777777778889***************************** PP

             BPD_transp_2 143 lavllllrrtrfGralravgeneeaaralGinvkrvklltfvisgalAglaGallalllgsipp..nigvglgfnaiaavvlGgag 226
                              ++v+l+l++t fG++l+avg ++eaar++Gin+++   ++++i+g+l+glaGa +++      +   +  g+gf++ia+ ++G + 
  PHY93_19330|PHY93_19330 215 FFVWLILNKTTFGFKLKAVGLSPEAARYAGININKKMSQSMMIAGGLSGLAGATQVMGVSKNIAilAMHEGYGFDGIAVSLIGSN- 299
                              *******************************************************99987777779*******************. PP

             BPD_transp_2 227 sllgtviGaliigvvksllltllgi....ptelarvllgallilv 267
                              s++g + +++ +g++k  +++ +++    p+e+ ++++ga+++++
  PHY93_19330|PHY93_19330 300 SPFGSMTAGFFLGALKY-SGQKIQSaleaPSEVISIMIGAIIFFI 343
                              *****************.555555559889************997 PP

>> Insulin_TMD  Insulin receptor trans-membrane segment
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.0      0.19   1.7e+03      10      20 ..      43      53 ..      40      65 .. 0.75
   2 ?   -0.7   0.1      0.18   1.6e+03      21      30 ..     210     219 ..     194     227 .. 0.58
   3 ?    8.8   2.0   0.00019       1.7       9      30 ..     326     347 ..     321     350 .. 0.84

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 0.19
              Insulin_TMD 10 dpsnivkIvig 20
                              ps+i+ I+i 
  PHY93_19330|PHY93_19330 43 RPSYIAYIIIR 53
                             68999999994 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.18
              Insulin_TMD  21 Pviciillll 30 
                               +i ++++ l
  PHY93_19330|PHY93_19330 210 AIIAVFFVWL 219
                              3444444444 PP

  == domain 3  score: 8.8 bits;  conditional E-value: 0.00019
              Insulin_TMD   9 ldpsnivkIvigPviciillll 30 
                                ps+++ I ig +i++i + +
  PHY93_19330|PHY93_19330 326 EAPSEVISIMIGAIIFFIAIPI 347
                              679**************98755 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (361 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       600  (0.0334653); expected 358.6 (0.02)
Passed bias filter:                      242  (0.0134977); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.25s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 2666.98
//
Query:       PHY93_19335|PHY93_19335  [L=506]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.2e-50  170.7   0.0    3.3e-28   98.9   0.0    2.2  2  ABC_tran     ABC transporter
    1.8e-08   34.6   3.5     0.0028   17.5   0.1    3.0  3  AAA_21       AAA domain, putative AbiEii toxin, Type IV TA sy
    0.00039   21.0   1.2    0.00086   19.9   1.0    1.8  1  AAA_23       AAA domain
     0.0025   17.5   0.1     0.0068   16.1   0.1    1.7  1  AAA_29       P-loop containing region of AAA domain
     0.0028   17.1   1.9       0.14   11.5   0.1    2.9  3  SMC_N        RecF/RecN/SMC N terminal domain
  ------ inclusion threshold ------
      0.012   15.2   0.1       0.02   14.5   0.1    1.3  1  AAA_27       AAA domain
      0.018   13.7   0.3        1.6    7.3   0.1    2.1  2  AAA_13       AAA domain
      0.031   14.0   3.4        0.6    9.8   0.2    2.3  2  AAA_15       AAA ATPase domain
      0.045   13.8   0.4       0.28   11.3   0.1    2.2  2  DUF87        Helicase HerA, central domain
      0.049   13.5   0.6       0.26   11.2   0.1    2.2  2  RsgA_GTPase  RsgA GTPase
      0.082   12.6   1.1       0.47   10.2   0.2    2.2  2  IstB_IS21    IstB-like ATP binding protein
      0.089   12.1   0.3       0.56    9.5   0.0    2.1  2  Gtr1_RagA    Gtr1/RagA G protein conserved region
       0.13   12.6   0.4        1.5    9.1   0.4    2.4  1  AAA_22       AAA domain
       0.15   11.8   0.2       0.42   10.3   0.0    1.7  2  AAA_30       AAA domain
       0.25   11.0   1.1        9.4    5.9   0.0    2.6  3  AAA_24       AAA domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   98.9   0.0   2.7e-31   3.3e-28       2     137 .]      20     170 ..      19     170 .. 0.94
   2 !   69.8   0.0   2.6e-22   3.1e-19       1     136 [.     274     430 ..     274     431 .. 0.89

  Alignments for each domain:
  == domain 1  score: 98.9 bits;  conditional E-value: 2.7e-31
                              EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--.SEEEEEETTCEGGG.B-HHHCCHCEEEE-SS--S-TTSBHHHH...... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxx...... RF
                 ABC_tran   2 knvslklkegekvaivGenGaGKStLlkllagllkp.teGeilldgkdlke.qeleslrkeigvlpqepqlfpeltvren...... 79 
                              + ++l++  ge++ai+GenGaGKStL+k++ gl++p + Gei l+gk+++  +++   ++ ig+++q+  l +  t+ +n      
  PHY93_19335|PHY93_19335  20 DGINLDVISGEVHAILGENGAGKSTLMKIIFGLYQPdAGGEIFLKGKKITIpTPRFAIKNGIGMVHQHFMLVRPFTILQNiilgve 105
                              5799********************************66789*********98999999**********99999999********** PP

                              ...........HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              ...........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ...........esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                                          +++++++++++++ +  +d+ v    +++S G++qrv++ ++l ++++l++lDEpta
  PHY93_19335|PHY93_19335 106 prtwfgavnyqVARAQVTELAKTYNFNIEADRLV----ETISVGMQQRVEIIKTLYRNAELIILDEPTA 170
                              ******9988777888999999999999899999....*****************************97 PP

  == domain 2  score: 69.8 bits;  conditional E-value: 2.6e-22
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG.B-HHHCCHCEEEE-SS...--S-TTSBHHHH... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxx...xxxxxxxxxxxx... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke.qeleslrkeigvlpqe...pqlfpeltvren... 79 
                              +kn +l+l++ge++++ G  G G   L+++l+gl k ++G+i+++gk++ + +++++++++++++p++     l  + +v+en   
  PHY93_19335|PHY93_19335 274 VKNFNLTLRRGEILGLAGIDGNGQRELVEALTGLRKFKSGSIKINGKEIGHlTPRQIYESKLAMIPEDrqrRGLIMDFKVKENfvl 359
                              589*****************************************************************88888999999******* PP

                              .................HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              .................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 .................esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                                               e+++  e ++++++   ++ ++++ ++++LSgG +q++ lar ++++p++l++  pt
  PHY93_19335|PHY93_19335 360 qriekspfshygfiinrEMEKFTESMMERFD---IRPRNIELNARNLSGGNQQKIILAREIANNPDVLIAFQPT 430
                              **********999544444444445555554...666999999*************************986665 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.1   2.4e-06    0.0028       2      24 ..      32      54 ..      31      81 .. 0.77
   2 !   15.6   0.1   9.3e-06     0.011     237     299 ..     142     201 ..     116     205 .. 0.87
   3 ?    1.1   0.1      0.24   2.9e+02     156     244 ..     303     410 ..     253     425 .. 0.75

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 2.4e-06
                   AAA_21  2 nvliGpNgsGKSnLLdaldllar 24
                              ++ G Ng+GKS+L++++ +l +
  PHY93_19335|PHY93_19335 32 HAILGENGAGKSTLMKIIFGLYQ 54
                             689***************99975 PP

  == domain 2  score: 15.6 bits;  conditional E-value: 9.3e-06
                   AAA_21 237 lSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQviltTHSp 299
                              +S G+++   ++  l+r +    l+++DEp ++L P+ +  +++++++l+r g  +i+ TH  
  PHY93_19335|PHY93_19335 142 ISVGMQQRVEIIKTLYRNA---ELIILDEPTASLTPQEILDFYRIVENLKRVGKTIIIITHKL 201
                              4778888889999999999...9*************888888899999999**********65 PP

  == domain 3  score: 1.1 bits;  conditional E-value: 0.24
                   AAA_21 156 llldglrkerigllnifadyfgfakekrllqrlvrslklveielsdlgegeeliasvderlrer...................... 219
                               l         + +      ++++++++l+ r + ++kl+ i+ +  + g  + ++v+e                           
  PHY93_19335|PHY93_19335 303 ALT------GLRKFKSGSIKINGKEIGHLTPRQIYESKLAMIPEDRQRRGLIMDFKVKENFVLQriekspfshygfiinremekft 382
                              444......66777777778888888888888888888888888888888777777776666668888888888888888888888 PP

                   AAA_21 220 ...gvvflengdgqelparelSdGtkrl 244
                                   +f  +++  el+ar+lS G ++ 
  PHY93_19335|PHY93_19335 383 esmMERFDIRPRNIELNARNLSGGNQQK 410
                              8888899999999999999999998876 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.9   1.0   7.2e-07   0.00086       7      44 ..      13      53 ..       4     193 .. 0.81

  Alignments for each domain:
  == domain 1  score: 19.9 bits;  conditional E-value: 7.2e-07
                   AAA_23  7 frsfrdqe.idF...skgltlItGpNGaGKTTildAiklaLy 44
                             f+ f+  + i++   s  + +I G+NGaGK+T++  i ++Ly
  PHY93_19335|PHY93_19335 13 FGTFKANDgINLdviSGEVHAILGENGAGKSTLMKII-FGLY 53
                             677755555777779999****************966.4555 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.1   5.7e-06    0.0068      14      39 ..      18      46 ..      12      57 .. 0.74

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 5.7e-06
                   AAA_29 14 g.htieidl.kg.atlltGpsGsGKSTll 39
                                 i++d+ +g ++ + G++G+GKSTl+
  PHY93_19335|PHY93_19335 18 AnDGINLDViSGeVHAILGENGAGKSTLM 46
                             544455554144799*************8 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.5   0.1   0.00012      0.14      22      46 ..      27      50 ..       9      56 .. 0.81
   2 ?    3.5   0.0     0.035        42     156     211 ..     157     214 ..     151     222 .. 0.80
   3 ?   -0.7   0.0      0.66   7.9e+02     128     144 ..     394     410 ..     259     421 .. 0.62

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00012
                             TTSSEEEEEESTTSSHHHHHHHHHH CS
                             xxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 22 fsksftaivGpNGSGKsnlldAilF 46
                             +s ++ ai+G+NG+GKs l+  i F
  PHY93_19335|PHY93_19335 27 ISGEVHAILGENGAGKSTLMKII-F 50
                             566799*************9977.5 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.035
                              CS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTT.SEEEEE-SSHHHCCC-.SCEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxx.xxxxxx RF
                    SMC_N 156 vkpaplyllDeidaaLDeknvkkvaellkekskn.aQfivislreemleka.dklvgv 211
                              ++ a l +lDe  a L  +++  + +++++ +     +i+i+++ + +++  d++  +
  PHY93_19335|PHY93_19335 157 YRNAELIILDEPTASLTPQEILDFYRIVENLKRVgKTIIIITHKLHEIKEIaDRCTVI 214
                              6788899********************9998877577899999976666542555544 PP

  == domain 3  score: -0.7 bits;  conditional E-value: 0.66
                              HCTT-STTCS-HHHHHH CS
                              xxxxxxxxxxxxxxxxx RF
                    SMC_N 128 esagiskelLSgGektL 144
                              ++ +++  +LSgG+++ 
  PHY93_19335|PHY93_19335 394 RNIELNARNLSGGNQQK 410
                              23444445888887664 PP

>> AAA_27  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.1   1.7e-05      0.02      10      46 ..      12      49 ..       4      54 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 1.7e-05
                   AAA_27 10 ryGkft.drsldfsaeeadlhliyGpNEAGKstalrAi 46
                              +G f+ +  ++++  + ++h i+G N AGKst+++ i
  PHY93_19335|PHY93_19335 12 TFGTFKaNDGINLDVISGEVHAILGENGAGKSTLMKII 49
                             69999724579999999****************99865 PP

>> AAA_13  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3   0.1    0.0013       1.6      17      39 ..      30      52 ..      12      76 .. 0.80
   2 ?    4.5   0.0    0.0092        11     527     582 ..     160     212 ..     150     235 .. 0.88

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0013
                   AAA_13 17 riNliYGwNGaGKTtLSrllrsl 39
                             ++  i G NGaGK+tL +++  l
  PHY93_19335|PHY93_19335 30 EVHAILGENGAGKSTLMKIIFGL 52
                             566799**********9999766 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.0092
                   AAA_13 527 dkivviDDPvSSLDsnslfivfsliksrllkkkkakQlfiLTHnleffkevkkntk 582
                               + +++D P  SL  + +   +  +++        k ++i TH l+  ke+ +++ 
  PHY93_19335|PHY93_19335 160 AELIILDEPTASLTPQEILDFYRIVENLK---RVGKTIIIITHKLHEIKEIADRCT 212
                              57899**********************97...8999**************999876 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.2    0.0005       0.6      24      43 ..      29      49 ..      12      78 .. 0.80
   2 ?    4.7   0.4     0.017        20     299     366 ..     144     201 ..     115     204 .. 0.87

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.0005
                   AAA_15 24 e.ltvliGkNnsGKSsileal 43
                               +  + G+N++GKS++++++
  PHY93_19335|PHY93_19335 29 GeVHAILGENGAGKSTLMKII 49
                             3488999************99 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.017
                   AAA_15 299 sGvqrllllillileaekkdekeeknvilliEEPEahLHpqaqkvlikllkelandnktQviitTHSp 366
                               G+q+ + +i  ++++ +          ++++EP a+L pq    +++   +l + +k  +ii TH  
  PHY93_19335|PHY93_19335 144 VGMQQRVEIIKTLYRNAEL---------IILDEPTASLTPQEILDFYRIVENLKRVGK-TIIIITHKL 201
                              5777777777777777666.........99***************************9.899999965 PP

>> DUF87  Helicase HerA, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.1   0.00023      0.28      26      44 ..      32      50 ..      14      63 .. 0.82
   2 ?    0.1   0.0      0.59     7e+02      93     144 ..     168     221 ..     116     305 .. 0.68

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00023
                    DUF87 26 lAilgsTGsGKSntvavLl 44
                              Ailg+ G+GKS+++++++
  PHY93_19335|PHY93_19335 32 HAILGENGAGKSTLMKIIF 50
                             59*************9875 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.59
                    DUF87  93 npwsldpeelldllee.ddkpaaavqrsvleealdqaka.keekeklssdepve 144
                              + +sl+p+e+ld++ + ++ +   +   ++  +l+++k+ + + + +   +++e
  PHY93_19335|PHY93_19335 168 PTASLTPQEILDFYRIvENLKRVGKTIIIITHKLHEIKEiADRCTVIRKGRFIE 221
                              566777777777777744444444444444555555554544445554444444 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.1   0.00022      0.26      96     120 ..      26      50 ..      10      69 .. 0.87
   2 ?   -0.4   0.1      0.78   9.4e+02      92     133 ..     276     318 ..     225     337 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00022
                              HCTTSEEEEECSTTSSHHHHHHHHC CS
              RsgA_GTPase  96 llkdktsvlvGqSGvGKStLinall 120
                              ++++++ +++G+ G+GKStL++ + 
  PHY93_19335|PHY93_19335  26 VISGEVHAILGENGAGKSTLMKIIF 50 
                              678899**************99876 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 0.78
                              HHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT-----S----- CS
              RsgA_GTPase  92 elkellkd.ktsvlvGqSGvGKStLinallpelelktgevsek 133
                              + +  l+  ++  l+G  G G   L++al++  + k g+++ +
  PHY93_19335|PHY93_19335 276 NFNLTLRRgEILGLAGIDGNGQRELVEALTGLRKFKSGSIKIN 318
                              4444555558888999999999999999999888888888754 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.0      0.38   4.5e+02      48      63 ..      30      45 ..      24      58 .. 0.84
   2 ?   10.2   0.2    0.0004      0.47      82     150 ..     134     202 ..     111     208 .. 0.79

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.38
                IstB_IS21 48 enivllGpsGvGKshl 63
                             e  ++lG  G+GKs l
  PHY93_19335|PHY93_19335 30 EVHAILGENGAGKSTL 45
                             56689********987 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 0.0004
                IstB_IS21  82 rvedLveelkrarrdgklaralkrllkvdllilDdlgllpldqaeaellfevie..kryerrsiiitsnlp 150
                               +++Lve++++   +++++ + + + +++l+ilD+  +  l  +e  ++++++e  kr++++ iiit +l+
  PHY93_19335|PHY93_19335 134 EADRLVETISVGM-QQRVEIIKTLYRNAELIILDEP-TASLTPQEILDFYRIVEnlKRVGKTIIIITHKLH 202
                              5567777777754.446666666677789*****97.5789999*********955699********8876 PP

>> Gtr1_RagA  Gtr1/RagA G protein conserved region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.0   0.00047      0.56       5      26 ..      35      56 ..      33      62 .. 0.91
   2 ?    0.1   0.1      0.36   4.2e+02      83     127 ..     164     207 ..     143     235 .. 0.76

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00047
                Gtr1_RagA  5 mGksgsGKtsmrsiiFdnylar 26
                             +G++g+GK+++ +iiF  y++ 
  PHY93_19335|PHY93_19335 35 LGENGAGKSTLMKIIFGLYQPD 56
                             8****************99985 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.36
                Gtr1_RagA  83 VfDvesre.leedletlkeilealrqyspeakvfvlihKmDliqed 127
                              ++D  + +  ++++ ++ +i+e+l+++ +   + ++ hK+  i+e 
  PHY93_19335|PHY93_19335 164 ILDEPTASlTPQEILDFYRIVENLKRVGKT--IIIITHKLHEIKEI 207
                              56766666578999999999**99999875..56788999988754 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   0.4    0.0012       1.5       9      33 ..      33      57 ..      28     205 .. 0.58

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.0012
                   AAA_22  9 vvtGesGtGKTtllrrlleqldeea 33
                             ++ Ge G+GK+tl++ ++  ++ +a
  PHY93_19335|PHY93_19335 33 AILGENGAGKSTLMKIIFGLYQPDA 57
                             789************9888876444 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0   0.00035      0.42      17      49 ..      29      61 ..      24      69 .. 0.83
   2 ?   -2.3   0.0       2.5     3e+03      85      98 ..     156     169 ..     117     197 .. 0.57

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00035
                   AAA_30 17 gdrvavltGpAGtGKttalkalreaweaa.ggrv 49
                             g  v+++ G  G+GK+t++k +  +++ + gg++
  PHY93_19335|PHY93_19335 29 G-EVHAILGENGAGKSTLMKIIFGLYQPDaGGEI 61
                             4.3999***************9999887767666 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 2.5
                   AAA_30  85 rlepgtllivDEag 98 
                               +++++l+i DE  
  PHY93_19335|PHY93_19335 156 LYRNAELIILDEPT 169
                              33445888888843 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.9   0.0    0.0079       9.4       6      21 ..      33      48 ..      28      58 .. 0.85
   2 ?    3.1   0.1     0.059        70     111     134 ..     180     203 ..     178     249 .. 0.80
   3 ?   -3.1   0.0       4.5   5.4e+03     148     171 ..     446     469 ..     438     488 .. 0.78

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.0079
                   AAA_24  6 liyGpsgiGKTtlake 21
                             +i G++g+GK+tl+k 
  PHY93_19335|PHY93_19335 33 AILGENGAGKSTLMKI 48
                             79***********986 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.059
                   AAA_24 111 frrllkklqelrknvifiahektr 134
                              f r++++l+ ++k++i+i h   +
  PHY93_19335|PHY93_19335 180 FYRIVENLKRVGKTIIIITHKLHE 203
                              889***************997554 PP

  == domain 3  score: -3.1 bits;  conditional E-value: 4.5
                   AAA_24 148 lepklgkktanelkeevDlvlran 171
                              +++  + k+  ++ +e+D+v+ ++
  PHY93_19335|PHY93_19335 446 IKLRDQGKAILLISYELDEVINLS 469
                              566777888889999999999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (506 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       612  (0.0341346); expected 358.6 (0.02)
Passed bias filter:                      476  (0.0265492); expected 358.6 (0.02)
Passed Vit filter:                        60  (0.00334653); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.62u 0.24s 00:00:00.86 Elapsed: 00:00:00.41
# Mc/sec: 3660.10
//
Query:       PHY93_19340|PHY93_19340  [L=312]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (312 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       776  (0.0432818); expected 358.6 (0.02)
Passed bias filter:                      229  (0.0127726); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.36
# Mc/sec: 2627.38
//
Query:       PHY93_10300|PHY93_10300  [L=211]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.3e-39  133.7   0.0    1.2e-35  123.3   0.0    2.0  2  PPDK_N    Pyruvate phosphate dikinase, PEP/pyruvate binding d


Domain annotation for each model (and alignments):
>> PPDK_N  Pyruvate phosphate dikinase, PEP/pyruvate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.7   0.0   5.3e-05      0.95       4      36 ..       8      39 ..       6      50 .. 0.90
   2 !  123.3   0.0   6.8e-40   1.2e-35      87     231 ..      57     193 ..      44     207 .. 0.90

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 5.3e-05
                   PPDK_N  4 vGGKganLaellneagipvPpgfaitadafref 36
                              GGK+ +L +l +e g pvP++ +i+ d+fre 
  PHY93_10300|PHY93_10300  8 YGGKADSLIKL-KEFGFPVPKFEIIPMDVFREA 39
                             5**********.88****************985 PP

  == domain 2  score: 123.3 bits;  conditional E-value: 6.8e-40
                   PPDK_N  87 eayeelgkkfgdeelpvaVRSSataEDlpkasfaGqqdtyLnvggeeevleaikavfaSlfnerAilYrkekgldheevalavvvq 172
                               + ++++         vaVRSSa  ED +++sfaG+ +tyL ++g e++  ++ ++++S+++er   Y ++++ld +e+++avv+q
  PHY93_10300|PHY93_10300  57 TLSNQFE------GAAVAVRSSASKEDGSTTSFAGLFETYLDIKGHEAIEASVLKCWKSTITERTQKYCERNKLDVNELEMAVVIQ 136
                              4444443......368********************************************************************** PP

                   PPDK_N 173 kmvnsdlgasGVafsldpetGfkdevlinasyGlGeaVVaGrvtpdefvvekstrkile 231
                              + +++d   +GV f+++p +G+++e++i+a  G Ge+ V+G +tp +f+++++ ++il 
  PHY93_10300|PHY93_10300 137 EYIEPD--FAGVIFTVNPISGNDQEMVIEACLGSGEKLVSGLITPSRFILNREIENILT 193
                              ******..******************************************998877664 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (211 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       498  (0.0277762); expected 358.6 (0.02)
Passed bias filter:                      441  (0.024597); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.20s 00:00:00.65 Elapsed: 00:00:00.37
# Mc/sec: 1729.14
//
Query:       PHY93_10305|PHY93_10305  [L=506]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.6e-17   62.3   0.0    5.1e-17   61.4   0.0    1.5  1  PEP-utilizers  PEP-utilising enzyme, mobile domain


Domain annotation for each model (and alignments):
>> PEP-utilizers  PEP-utilising enzyme, mobile domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.4   0.0   2.8e-21   5.1e-17       2      71 ..     431     500 ..     430     501 .. 0.96

  Alignments for each domain:
  == domain 1  score: 61.4 bits;  conditional E-value: 2.8e-21
                              --S-EEEEES---HHHHTTS-GEEEEEES--TTHHHHHHHHHHTT--EEE--SSHH.HH--TEEEEEETT CS
            PEP-utilizers   2 leegvILvaeetspsdiagldkaaGivterGGmtSHaAivArelgiPaVvgvgeatielkegdlitvDgs 71 
                              +++++I+v e+ +p + + +    Gi++e+GG  SH AivAre+giP++ gv++++ +lkeg+ i +D++
  PHY93_10305|PHY93_10305 431 ITKKSIIVLESATPVYAPFYALSGGIISETGGSLSHGAIVAREYGIPMLTGVENVCASLKEGQSIFLDAD 500
                              6788****************************************************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (506 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       568  (0.0316805); expected 358.6 (0.02)
Passed bias filter:                      388  (0.0216409); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.20s 00:00:00.76 Elapsed: 00:00:00.38
# Mc/sec: 4018.15
//
Query:       PHY93_10310|PHY93_10310  [L=452]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      2e-39  135.7   0.4    2.8e-39  135.3   0.4    1.2  1  NTP_transf_5  Uncharacterised nucleotidyltransferase
  ------ inclusion threshold ------
      0.062   13.0   0.0       0.13   11.9   0.0    1.5  1  DUF3394       Domain of unknown function (DUF3394)
       0.22   12.0   3.0       0.14   12.6   0.5    1.8  2  PIN_12        PIN domain


Domain annotation for each model (and alignments):
>> NTP_transf_5  Uncharacterised nucleotidyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  135.3   0.4   4.7e-43   2.8e-39       3     248 ..      33     281 ..      31     283 .. 0.90

  Alignments for each domain:
  == domain 1  score: 135.3 bits;  conditional E-value: 4.7e-43
             NTP_transf_5   3 adwerllrlarrhrvlpllykslkrlgleqlppeellrrlksayqaiakrnllllaeleellalleeegipvllLKGpalaq.lYp 87 
                               +++++l+la++++v + l+ +lkrl+    +p++ll  l++ yq+i+ +n++ l+    +l++l++++i+v+ LKG a+a+ + +
  PHY93_10310|PHY93_10310  33 CEISDFLELAAHNKVGANLFLQLKRLN--FPIPASLLLPLEETYQKIRAKNIRRLEVGLPILNELKKANIEVIILKGNAIAEeIFQ 116
                              6789***********************..78999***********************************************88*** PP

             NTP_transf_5  88 dpalRemgDiDllvkredldraeelLeelGyelesd...gsekhevyyre.......kkgveielhwrllppesprlepdfddlle 163
                              d++ ++m+DiD+lvk+edl+ + e+ +++   +  +      k+e y++        k +v++  hw++  p ++ l++ ++d+++
  PHY93_10310|PHY93_10310 117 DIGYKPMNDIDILVKKEDLAAIYEIFLKNHMLTAAPlesDIRKQEKYSHHwppffdkKLEVFLGTHWNIAAP-TRGLDIPVQDFWK 201
                              *********************99998777775544445523344444444445554488899**********.899*******998 PP

             NTP_transf_5 164 erarpveiggksilvlspedlllylalHlakhfwnrglgLrwlvDiaallrklkdeldweallararelglrralllaltlakel 248
                                 ++ e++g ++  l+p ++ll+l++Hl         gLr++ Di  l++ ++ +l   ++++ + + ++++ ++ al l+++l
  PHY93_10310|PHY93_10310 202 D-KEKFELMGETYFRLAPKHFLLHLCVHLNSAKT----GLREIGDIVKLIEARESDLLASEFVEMVIKAHAENEVYEALSLVAAL 281
                              7.89*************************99888....8******************************************9986 PP

>> DUF3394  Domain of unknown function (DUF3394)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   2.2e-05      0.13      40     142 ..      14     117 ..      11     145 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 2.2e-05
                  DUF3394  40 ftLfrPgffldlisppyeelepselvevveelpkgselrlkvegenlegeeiektvalplge.....eatgeerLeaaGltlleed 120
                              + L+ P  ++  i+ p e+ e s++ e +++ + g +l l++++ n+   +i   + lpl+e     +a+  +rL ++Gl +l+e 
  PHY93_10310|PHY93_10310  14 LYLLSPAELASNIQLPSESCEISDFLELAAHNKVGANLFLQLKRLNF---PIPASLLLPLEEtyqkiRAKNIRRL-EVGLPILNEL 95 
                              67999*****************************************5...7899999999999876666666677.79*******9 PP

                  DUF3394 121 gkvlvdevefgspaekagldfd 142
                              +k+ ++ + +++ a ++++ +d
  PHY93_10310|PHY93_10310  96 KKANIEVIILKGNAIAEEIFQD 117
                              9999999998888877777666 PP

>> PIN_12  PIN domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.1      0.59   3.5e+03      93      93 ..     106     106 ..      65     173 .. 0.57
   2 ?   12.6   0.5   2.4e-05      0.14      19     114 ..     237     329 ..     226     339 .. 0.83

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.59
                   PIN_12  93 e 93 
                              +
  PHY93_10310|PHY93_10310 106 K 106
                              1 PP

  == domain 2  score: 12.6 bits;  conditional E-value: 2.4e-05
                   PIN_12  19 ealkklleliesgkiklivpdivldEflknrekkieeskklekalks.lsklksakkklnekkkllslkeikkkieekveeslkkl 103
                               ++  +++lie+++  l+ ++ v++ ++ + e+++ e+     +l   l+ + ++++ l+++++l+ +++ kkk++++++ ++k l
  PHY93_10310|PHY93_10310 237 REIGDIVKLIEARESDLLASEFVEMVIKAHAENEVYEA----LSLVAaLRAFPFTEAVLKKLDQLILDEHFKKKVQKRLSPRHKIL 318
                              478899*************************8888877....344446******************************99987776 PP

                   PIN_12 104 lekleaikvip 114
                                +++ i++i+
  PHY93_10310|PHY93_10310 319 HIRTNYISKIE 329
                              66666666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (452 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       443  (0.0247086); expected 358.6 (0.02)
Passed bias filter:                      325  (0.0181271); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.50u 0.20s 00:00:00.70 Elapsed: 00:00:00.35
# Mc/sec: 3877.85
//
Query:       PHY93_16750|PHY93_16750  [L=421]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.4e-13   49.8   9.1      0.014   15.4   0.2    7.3  6  TPR_2     Tetratricopeptide repeat
    2.6e-10   39.7   7.8      0.014   15.2   0.1    5.5  4  TPR_1     Tetratricopeptide repeat
    1.4e-09   38.0   7.3       0.34   11.8   1.2    6.7  6  TPR_14    Tetratricopeptide repeat
    2.3e-07   31.2   9.7       0.52   10.9   0.3    5.4  4  TPR_19    Tetratricopeptide repeat
    6.8e-07   29.0  15.3      0.014   15.6   1.4    5.8  5  TPR_8     Tetratricopeptide repeat
    1.3e-06   29.0   4.6       0.19   12.4   0.0    4.5  5  TPR_16    Tetratricopeptide repeat
    2.5e-06   27.1   3.7    0.00012   21.6   0.1    3.7  5  TPR_MalT  MalT-like TPR region
    2.8e-06   27.5  13.0     0.0016   18.7   2.8    5.7  6  TPR_12    Tetratricopeptide repeat
    3.5e-05   23.9   9.6        8.3    7.0   0.0    6.2  7  TPR_17    Tetratricopeptide repeat
      5e-05   23.5  10.1       0.12   12.6   0.1    4.8  5  ANAPC3    Anaphase-promoting complex, cyclosome, subunit 3
    0.00012   21.8   5.2     0.0015   18.4   0.0    4.8  6  TPR_7     Tetratricopeptide repeat
     0.0014   18.5  13.7      0.022   14.7   0.8    5.8  9  TPR_10    Tetratricopeptide repeat
     0.0018   17.9   4.9        5.6    6.7   0.8    4.2  3  TPR_11    TPR repeat
     0.0082   16.7   9.3        2.3    9.1   0.2    5.2  4  TPR_4     Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.012   15.3   4.5        2.1    8.0   0.9    2.8  2  TPR_21    Tetratricopeptide repeat-like domain


Domain annotation for each model (and alignments):
>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.0      0.49   5.8e+02       3      29 ..     108     134 ..     107     136 .. 0.86
   2 ?    3.5   0.0     0.078        93      11      32 ..     150     171 ..     148     173 .. 0.90
   3 !   15.4   0.2   1.2e-05     0.014       3      30 ..     175     202 ..     173     205 .. 0.91
   4 !    9.8   0.0   0.00076      0.91       9      33 ..     224     248 ..     224     249 .. 0.93
   5 !   12.4   0.7   0.00012      0.14       3      30 ..     252     279 ..     250     283 .. 0.88
   6 ?    5.4   0.0      0.02        23       2      29 ..     359     386 ..     358     390 .. 0.85

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.49
                    TPR_2   3 alynlGlayyklgdyeeAleafekAle 29 
                              a++ l++++ ++ ++ + + + +k l+
  PHY93_16750|PHY93_16750 108 AYFVLADIAQAQVQFSKSIVYAQKILK 134
                              789999999999999999999999887 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.078
                    TPR_2  11 yyklgdyeeAleafekAleldP 32 
                              +++lg++ eA ++ ++ ++  P
  PHY93_16750|PHY93_16750 150 HLALGNLVEANHYADELISVMP 171
                              789*************999887 PP

  == domain 3  score: 15.4 bits;  conditional E-value: 1.2e-05
                    TPR_2   3 alynlGlayyklgdyeeAleafekAlel 30 
                              a+  ++l++ ++g+ +eA+ +f++Al+ 
  PHY93_16750|PHY93_16750 175 AYTLRALVLSAQGRNDEARYDFDEALSA 202
                              7899**********************85 PP

  == domain 4  score: 9.8 bits;  conditional E-value: 0.00076
                    TPR_2   9 layyklgdyeeAleafekAleldPn 33 
                              + y+k+g ++ A+e++++Al + P+
  PHY93_16750|PHY93_16750 224 NYYLKKGSLDSAEELLKEALIITPT 248
                              579*******************997 PP

  == domain 5  score: 12.4 bits;  conditional E-value: 0.00012
                    TPR_2   3 alynlGlayyklgdyeeAleafekAlel 30 
                              al  +G++ +k+++y+ A++++++A + 
  PHY93_16750|PHY93_16750 252 ALGLMGDLFEKKNKYKNAVKYYKAAFKE 279
                              67789********************886 PP

  == domain 6  score: 5.4 bits;  conditional E-value: 0.02
                    TPR_2   2 ealynlGlayyklgdyeeAleafekAle 29 
                              e l  l++a++ ++++ eA++  + +l+
  PHY93_16750|PHY93_16750 359 ENLILLAWALEMNNHLVEARRVVRDVLA 386
                              67899***************98777765 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.5   0.0      0.12   1.4e+02       3      29 ..     108     134 ..     106     136 .. 0.92
   2 !   15.2   0.1   1.1e-05     0.014       2      29 ..     174     201 ..     173     205 .. 0.93
   3 !    6.8   0.0    0.0054       6.5      10      32 ..     225     247 ..     224     249 .. 0.88
   4 !   14.4   1.1   2.1e-05     0.025       3      27 ..     252     276 ..     250     280 .. 0.91

  Alignments for each domain:
  == domain 1  score: 2.5 bits;  conditional E-value: 0.12
                              HHHHHHHHHHHTT-HHHHHHHHHHHHH CS
                    TPR_1   3 alynlGnayfklgkydeAleyyekALe 29 
                              a++ l+ + + + ++ + + y +k L+
  PHY93_16750|PHY93_16750 108 AYFVLADIAQAQVQFSKSIVYAQKILK 134
                              89999******************9987 PP

  == domain 2  score: 15.2 bits;  conditional E-value: 1.1e-05
                              HHHHHHHHHHHHTT-HHHHHHHHHHHHH CS
                    TPR_1   2 kalynlGnayfklgkydeAleyyekALe 29 
                              +a+  +++++  +g+ deA  ++++AL+
  PHY93_16750|PHY93_16750 174 NAYTLRALVLSAQGRNDEARYDFDEALS 201
                              59************************97 PP

  == domain 3  score: 6.8 bits;  conditional E-value: 0.0054
                              HHHHTT-HHHHHHHHHHHHHHST CS
                    TPR_1  10 ayfklgkydeAleyyekALelnP 32 
                               y+k+g +d A+e  ++AL + P
  PHY93_16750|PHY93_16750 225 YYLKKGSLDSAEELLKEALIITP 247
                              69*****************7755 PP

  == domain 4  score: 14.4 bits;  conditional E-value: 2.1e-05
                              HHHHHHHHHHHTT-HHHHHHHHHHH CS
                    TPR_1   3 alynlGnayfklgkydeAleyyekA 27 
                              al  +G ++ k++ky+ A++yy+ A
  PHY93_16750|PHY93_16750 252 ALGLMGDLFEKKNKYKNAVKYYKAA 276
                              78899******************98 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   0.0      0.44   5.3e+02      24      44 .]      53      73 ..      42      88 .. 0.73
   2 ?    2.7   0.0      0.25     3e+02       1      28 [.     140     167 ..     140     174 .. 0.83
   3 !   11.8   1.2   0.00028      0.34       2      43 ..     174     219 ..     173     220 .. 0.80
   4 !   11.8   0.0    0.0003      0.36       9      43 ..     224     258 ..     211     259 .. 0.77
   5 ?    3.2   0.0      0.18   2.1e+02       6      31 ..     255     280 ..     250     298 .. 0.80
   6 ?    5.8   0.0     0.024        29       3      31 ..     360     388 ..     358     400 .. 0.81

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.44
                   TPR_14 24 lrralalaPddaeawlllaql 44
                             ++++l+++P++ +  l+la+l
  PHY93_16750|PHY93_16750 53 YQKRLKRNPTSFQDTLALAKL 73
                             666777777776666666654 PP

  == domain 2  score: 2.7 bits;  conditional E-value: 0.25
                   TPR_14   1 peallalaeallalGdpdeAiallrral 28 
                              pea l l++ +lalG++ eA  ++++++
  PHY93_16750|PHY93_16750 140 PEAFLILVKGHLALGNLVEANHYADELI 167
                              7999************999976666666 PP

  == domain 3  score: 11.8 bits;  conditional E-value: 0.00028
                   TPR_14   2 eallalaeallalGdpdeAiallrralalaPdd...a.eawlllaq 43 
                              +a+ ++a +l a+G+ deA+  +++al++  ++   a e+++++a+
  PHY93_16750|PHY93_16750 174 NAYTLRALVLSAQGRNDEARYDFDEALSAEEEEplqAsETRIMYAR 219
                              578899**********************765441223379999997 PP

  == domain 4  score: 11.8 bits;  conditional E-value: 0.0003
                   TPR_14   9 eallalGdpdeAiallrralalaPddaeawlllaq 43 
                               ++l  G +d A++ll++al   P++  a+ l+++
  PHY93_16750|PHY93_16750 224 NYYLKKGSLDSAEELLKEALIITPTSHFALGLMGD 258
                              345667*******************9999998886 PP

  == domain 5  score: 3.2 bits;  conditional E-value: 0.18
                   TPR_14   6 alaeallalGdpdeAiallrralala 31 
                              +++++++   +++ A++++++a +  
  PHY93_16750|PHY93_16750 255 LMGDLFEKKNKYKNAVKYYKAAFKES 280
                              67888999999***********8755 PP

  == domain 6  score: 5.8 bits;  conditional E-value: 0.024
                   TPR_14   3 allalaeallalGdpdeAiallrralala 31 
                               l +la+al+ +  + eA+++ r++la +
  PHY93_16750|PHY93_16750 360 NLILLAWALEMNNHLVEARRVVRDVLASN 388
                              56789********************9965 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.0   0.2    0.0033         4      11      66 ..     126     180 ..     113     182 .. 0.78
   2 !   10.9   0.3   0.00043      0.52       3      57 ..     185     248 ..     183     259 .. 0.78
   3 ?    4.6   0.1      0.04        48       5      23 ..     264     282 ..     259     298 .. 0.73
   4 !    8.3   0.0    0.0027       3.2      21      57 ..     354     390 ..     332     399 .. 0.78

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.0033
                   TPR_19  11 lalleqalqedpknaearllLAeallalgqldeAealLdalpeedpddaryasLlA 66 
                              + + +++l+e++ ++ea l L++ +lalg+l eA    d+l    p  +++ +L+A
  PHY93_16750|PHY93_16750 126 IVYAQKILKEKARSPEAFLILVKGHLALGNLVEANHYADELISVMPS-ENAYTLRA 180
                              4566779999************************8888877777777.55556665 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.00043
                   TPR_19   3 aegdyaeAlalleqalqedpk....naearllLAeall.....algqldeAealLdalpeedpd 57 
                              a+g+ +eA   + +al+++ +     +e r+ +A+ ++     + g ld Ae+lL++++  +p 
  PHY93_16750|PHY93_16750 185 AQGRNDEARYDFDEALSAEEEeplqASETRIMYARFYIenyylKKGSLDSAEELLKEALIITPT 248
                              799999999999999988777788999999999998652222279**********999877776 PP

  == domain 3  score: 4.6 bits;  conditional E-value: 0.04
                   TPR_19   5 gdyaeAlalleqalqedpk 23 
                              ++y +A++++++a++e+ +
  PHY93_16750|PHY93_16750 264 NKYKNAVKYYKAAFKESKQ 282
                              589**********877665 PP

  == domain 4  score: 8.3 bits;  conditional E-value: 0.0027
                   TPR_19  21 dpknaearllLAeallalgqldeAealLdalpeedpd 57 
                                +n+e ++lLA al  +++l eA++++ ++++++  
  PHY93_16750|PHY93_16750 354 IKGNPENLILLAWALEMNNHLVEARRVVRDVLASNYR 390
                              456999999********************99999877 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.0      0.17     2e+02       2      29 ..     107     134 ..     106     138 .. 0.90
   2 !    9.1   0.1    0.0013       1.6       3      32 ..     175     204 ..     173     206 .. 0.92
   3 !    7.4   0.0     0.005         6      10      28 ..     225     243 ..     224     249 .. 0.87
   4 !   15.6   1.4   1.2e-05     0.014       4      30 ..     253     279 ..     252     282 .. 0.88
   5 ?   -1.0   0.1       2.3   2.8e+03      10      23 ..     401     414 ..     392     416 .. 0.66

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.17
                              CHHHHHHHHHHHTT-HHHHHHHHHHHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeAkeyyekale 29 
                              +ay+ l++i + + ++ +++ y +k l+
  PHY93_16750|PHY93_16750 107 PAYFVLADIAQAQVQFSKSIVYAQKILK 134
                              79***********999999999999887 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.0013
                              HHHHHHHHHHHTT-HHHHHHHHHHHHHHHH CS
                    TPR_8   3 ayynlgsiylklgdyeeAkeyyekaleldp 32 
                              ay + +++++ +g+ +eA   + +al++++
  PHY93_16750|PHY93_16750 175 AYTLRALVLSAQGRNDEARYDFDEALSAEE 204
                              89************************9876 PP

  == domain 3  score: 7.4 bits;  conditional E-value: 0.005
                              HHHHTT-HHHHHHHHHHHH CS
                    TPR_8  10 iylklgdyeeAkeyyekal 28 
                               ylk+g +++A+e +++al
  PHY93_16750|PHY93_16750 225 YYLKKGSLDSAEELLKEAL 243
                              59****************9 PP

  == domain 4  score: 15.6 bits;  conditional E-value: 1.2e-05
                              HHHHHHHHHHTT-HHHHHHHHHHHHHH CS
                    TPR_8   4 yynlgsiylklgdyeeAkeyyekalel 30 
                              + ++g++ +k+++y++A++yy+ a + 
  PHY93_16750|PHY93_16750 253 LGLMGDLFEKKNKYKNAVKYYKAAFKE 279
                              6789*******************9885 PP

  == domain 5  score: -1.0 bits;  conditional E-value: 2.3
                              HHHHTT-HHHHHHH CS
                    TPR_8  10 iylklgdyeeAkey 23 
                              i +kl++ + Ak y
  PHY93_16750|PHY93_16750 401 IEEKLKNSNLAKIY 414
                              45566777766655 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.0      0.82   9.9e+02       3      53 ..     112     159 ..     110     173 .. 0.72
   2 !   11.0   1.0   0.00044      0.53       7      61 ..     150     200 ..     146     207 .. 0.83
   3 !   12.4   0.0   0.00016      0.19       5      60 ..     224     276 ..     224     282 .. 0.90
   4 ?   -2.7   0.0       8.4     1e+04       7      19 ..     335     347 ..     328     349 .. 0.62
   5 ?    2.5   0.0      0.19   2.3e+02       3      29 ..     364     390 ..     359     396 .. 0.63

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.82
                   TPR_16   3 laraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeA 53 
                              la++a ++ ++ + + +++  lk  ++sP+   A l l   +l++g+l eA
  PHY93_16750|PHY93_16750 112 LADIAQAQVQFSKSIVYAQKILKEKARSPE---AFLILVKGHLALGNLVEA 159
                              677777777788888788999999966666...666665555556555555 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.00044
                   TPR_16   7 alragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraal 61 
                              +l++g+  +A +++++++      P    A+ l+++++ +qgr +eA+  +++al
  PHY93_16750|PHY93_16750 150 HLALGNLVEANHYADELISVM---P-SENAYTLRALVLSAQGRNDEARYDFDEAL 200
                              577888888888888888888...5.5689******************8888887 PP

  == domain 3  score: 12.4 bits;  conditional E-value: 0.00016
                   TPR_16   5 raalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraa 60 
                              +++l+ g  d A+++l++al   p s +   Al l gd++ +++ ++ A+ +y+aa
  PHY93_16750|PHY93_16750 224 NYYLKKGSLDSAEELLKEALIITPTSHF---ALGLMGDLFEKKNKYKNAVKYYKAA 276
                              589********************55555...99999*****************997 PP

  == domain 4  score: -2.7 bits;  conditional E-value: 8.4
                   TPR_16   7 alragdyddAaaa 19 
                              + +++dy++A ++
  PHY93_16750|PHY93_16750 335 RGNSKDYPEAMRL 347
                              4456677777665 PP

  == domain 5  score: 2.5 bits;  conditional E-value: 0.19
                   TPR_16   3 laraalragdyddAaaaleaalkrdps 29 
                              la a+  +++  +A+++ + +l+++++
  PHY93_16750|PHY93_16750 364 LAWALEMNNHLVEARRVVRDVLASNYR 390
                              444555555666677777777776655 PP

>> TPR_MalT  MalT-like TPR region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.0      0.97   1.2e+03     161     191 ..      64      94 ..      55     108 .. 0.82
   2 ?    1.4   0.0      0.14   1.7e+02     160     187 ..     105     132 ..      70     142 .. 0.75
   3 !   13.4   0.6   3.2e-05     0.038     137     264 ..     114     240 ..     112     241 .. 0.69
   4 !   21.6   0.1     1e-07   0.00012      15     224 ..     154     344 ..     146     355 .. 0.82
   5 ?    2.4   0.1     0.067        81     281     308 ..     359     386 ..     325     396 .. 0.77

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.97
                 TPR_MalT 161 ldayvllarialaqGdleeAetllekaeela 191
                               + +++la+++ a+G+  + e++++ a+  a
  PHY93_16750|PHY93_16750  64 FQDTLALAKLYTARGKEIGLENYFKVAQSYA 94 
                              567899*********9999999998888765 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.14
                 TPR_MalT 160 aldayvllarialaqGdleeAetlleka 187
                               ++ay +la+ia+aq + +++  + +k+
  PHY93_16750|PHY93_16750 105 NTPAYFVLADIAQAQVQFSKSIVYAQKI 132
                              5689999999999998888877776665 PP

  == domain 3  score: 13.4 bits;  conditional E-value: 3.2e-05
                 TPR_MalT 137 dLeeAeqhlqeGielleql..epeaaldayvllarialaqGdleeAetllekaeelaresnfhvdwlanaeevrvrlwlaqgdlaa 220
                              d  +A+    ++i ++++   e++++ +a ++l++ +la G+l eA ++ +++  ++ ++n            r +++ aqg++++
  PHY93_16750|PHY93_16750 114 DIAQAQVQFSKSIVYAQKIlkEKARSPEAFLILVKGHLALGNLVEANHYADELISVMPSENA--------YTLRALVLSAQGRNDE 191
                              56788888889999999976444666679999*********************999997775........2233344567777777 PP

                 TPR_MalT 221 aer....wleaa.elpsdddnhflelelrnlarvllalgrydeAlelle 264
                              a+     +l+a+ e+p ++++    + + ++   +l+ g  d+A+ell+
  PHY93_16750|PHY93_16750 192 ARYdfdeALSAEeEEPLQASETRIMYARFYIENYYLKKGSLDSAEELLK 240
                              7653333444442233444444444556667777788899999999997 PP

  == domain 4  score: 21.6 bits;  conditional E-value: 1e-07
                 TPR_MalT  15 gdaeralelArqALallpeddl.lariaatavlGeasllqGdleaAlqalqeaeklarqadslhvallallqqaeilvaqGrLheA 99 
                              g+  +a  +A + ++ +p+++    r+++++++G+    + d+++Al+a +e     +qa  ++  ++a  ++ + + ++G+L+ A
  PHY93_16750|PHY93_16750 154 GNLVEANHYADELISVMPSENAyTLRALVLSAQGRNDEARYDFDEALSAEEEE---PLQASETR-IMYARFYIENYYLKKGSLDSA 235
                              77788999*********987751579******************888765443...33555555.556666688999********* PP

                 TPR_MalT 100 letyeqalqlateqglqqlplvgfllvlladllyEwndLeeAeqhlqeGielleqlepeaaldayvllarialaqGdleeAetlle 185
                              +e+ ++al          +p++ f+l l++dl+  +n+ + A ++ +++ + ++ql        ++  ar++   G+   +++l++
  PHY93_16750|PHY93_16750 236 EELLKEALI--------ITPTSHFALGLMGDLFEKKNKYKNAVKYYKAAFKESKQL------IYLMKEARVHKLMGEDAFSLALFN 307
                              *******99........78999999************************7666665......6678899999999*99999***** PP

                 TPR_MalT 186 kaeelaresnfhvdwlanaeevrvrlwlaqgdlaaaerw 224
                              + e l++e+  ++  l  ++ +r+  +l +g++++  ++
  PHY93_16750|PHY93_16750 308 QTEILMKENLAKNKKLGHTDLIRL--FLERGNSKDYPEA 344
                              *99999999888888877777775..5678877766555 PP

  == domain 5  score: 2.4 bits;  conditional E-value: 0.067
                 TPR_MalT 281 eiliLqalalqaqgreeeAlaaLeqALe 308
                              e+liL+a+al+++++  eA ++++++L+
  PHY93_16750|PHY93_16750 359 ENLILLAWALEMNNHLVEARRVVRDVLA 386
                              89*************9999999999885 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0       4.8   5.8e+03      48      71 ..     109     132 ..     108     135 .. 0.55
   2 !   18.7   2.8   1.4e-06    0.0016       4      72 ..     174     243 ..     172     247 .. 0.83
   3 !   10.1   0.2   0.00064      0.76      13      71 ..     226     276 ..     224     282 .. 0.87
   4 !    6.4   0.0     0.009        11      47      71 ..     252     276 ..     248     310 .. 0.81
   5 ?    2.7   0.0      0.13   1.6e+02      48      73 ..     361     386 ..     356     390 .. 0.91
   6 ?    1.3   0.0      0.35   4.2e+02      22      51 ..     391     417 ..     388     417 .. 0.86

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 4.8
                   TPR_12  48 lrnLgrlyralgryeeAlelleea 71 
                              ++ L+++ +a+ ++ + + + ++ 
  PHY93_16750|PHY93_16750 109 YFVLADIAQAQVQFSKSIVYAQKI 132
                              556666666665555555555554 PP

  == domain 2  score: 18.7 bits;  conditional E-value: 1.4e-06
                   TPR_12   4 talnnlaavlrrlgrydeAlellekaleiarrllGpdh.pltattlrnLgrlyralgryeeAlelleeal 72 
                              +a++ +a+vl ++gr deA+  +++al + ++ +   +      +++ +  +y++ g ++ A+ell+eal
  PHY93_16750|PHY93_16750 174 NAYTLRALVLSAQGRNDEARYDFDEALSAEEEEPLQASeTRIMYARFYIENYYLKKGSLDSAEELLKEAL 243
                              68889*************************99944444155555556666677899************98 PP

  == domain 3  score: 10.1 bits;  conditional E-value: 0.00064
                   TPR_12  13 lrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleea 71 
                              +++ g +d A+ell++al i      p+++    +l  +g+l+++ ++y+ A+++++ a
  PHY93_16750|PHY93_16750 226 YLKKGSLDSAEELLKEALIIT-----PTSHF---ALGLMGDLFEKKNKYKNAVKYYKAA 276
                              788999999999999999999.....66645...8*********************987 PP

  == domain 4  score: 6.4 bits;  conditional E-value: 0.009
                   TPR_12  47 tlrnLgrlyralgryeeAlelleea 71 
                              +l  +g+l+++ ++y+ A+++++ a
  PHY93_16750|PHY93_16750 252 ALGLMGDLFEKKNKYKNAVKYYKAA 276
                              5677788888888888888888766 PP

  == domain 5  score: 2.7 bits;  conditional E-value: 0.13
                   TPR_12  48 lrnLgrlyralgryeeAlelleeala 73 
                              l+ L++++++ +++ eA++  +++la
  PHY93_16750|PHY93_16750 361 LILLAWALEMNNHLVEARRVVRDVLA 386
                              889***************99999887 PP

  == domain 6  score: 1.3 bits;  conditional E-value: 0.35
                   TPR_12  22 AlellekaleiarrllGpdhpltattlrnL 51 
                              +++++ +a+ i ++l  +++ ++a ++rn+
  PHY93_16750|PHY93_16750 391 SEDIYIRAISIEEKL--KNS-NLAKIYRNI 417
                              7899***********..777.789999885 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   0.0     0.021        25       1      28 [.      52      79 ..      52      82 .. 0.91
   2 ?   -1.3   0.0       3.2   3.8e+03      12      22 ..     105     115 ..      93     119 .. 0.72
   3 !    6.8   0.1    0.0083       9.9      14      33 ..     174     193 ..     172     194 .. 0.94
   4 ?   -2.0   0.0       5.2   6.2e+03      18      33 ..     216     236 ..     210     237 .. 0.58
   5 ?    5.1   0.0      0.03        36       1      33 [.     238     270 ..     238     271 .. 0.92
   6 !    7.0   0.0     0.007       8.3      11      33 ..     356     378 ..     348     379 .. 0.91
   7 ?   -2.2   0.0         6   7.2e+03      18      25 ..     409     416 ..     407     417 .. 0.82

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.021
                   TPR_17  1 lylkaleldPnnadaynnLAelllknGd 28
                             +y+k l+++P+++     LA+l+  +G+
  PHY93_16750|PHY93_16750 52 FYQKRLKRNPTSFQDTLALAKLYTARGK 79
                             599***********99999999998886 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 3.2
                   TPR_17  12 nadaynnLAel 22 
                              n +ay+ LA +
  PHY93_16750|PHY93_16750 105 NTPAYFVLADI 115
                              78999999976 PP

  == domain 3  score: 6.8 bits;  conditional E-value: 0.0083
                   TPR_17  14 daynnLAelllknGdlmtAr 33 
                              +ay+++A +l+ +G+ ++Ar
  PHY93_16750|PHY93_16750 174 NAYTLRALVLSAQGRNDEAR 193
                              69*****************8 PP

  == domain 4  score: -2.0 bits;  conditional E-value: 5.2
                   TPR_17  18 nLAelll.....knGdlmtAr 33 
                              ++A+++      k+G l+ A+
  PHY93_16750|PHY93_16750 216 MYARFYIenyylKKGSLDSAE 236
                              566666533333777666665 PP

  == domain 5  score: 5.1 bits;  conditional E-value: 0.03
                   TPR_17   1 lylkaleldPnnadaynnLAelllknGdlmtAr 33 
                              l+++al + P++  a+ +++ l++k+++++ A+
  PHY93_16750|PHY93_16750 238 LLKEALIITPTSHFALGLMGDLFEKKNKYKNAV 270
                              5789999**********************9996 PP

  == domain 6  score: 7.0 bits;  conditional E-value: 0.007
                   TPR_17  11 nnadaynnLAelllknGdlmtAr 33 
                               n++ + +LA++l++n+ l +Ar
  PHY93_16750|PHY93_16750 356 GNPENLILLAWALEMNNHLVEAR 378
                              59999***************998 PP

  == domain 7  score: -2.2 bits;  conditional E-value: 6
                   TPR_17  18 nLAelllk 25 
                              nLA+++++
  PHY93_16750|PHY93_16750 409 NLAKIYRN 416
                              89999987 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.1      0.41     5e+02       6      38 ..      47      79 ..      43      99 .. 0.79
   2 !   12.6   0.1    0.0001      0.12       4      77 ..     121     194 ..     118     199 .. 0.93
   3 !    8.5   0.8     0.002       2.4      13      80 ..     206     274 ..     203     276 .. 0.90
   4 ?    5.1   0.2     0.022        27      11      64 ..     238     289 ..     228     297 .. 0.65
   5 ?    3.6   0.0     0.063        76      38      79 ..     340     381 ..     337     409 .. 0.64

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.41
                             HHHHHHHHHHH.HHH--HHHHHHHHHHHHHTT- CS
                   ANAPC3  6 knAiflaerllaaetespedayllAlclylngq 38
                             +  ++++ + l++++ s +d+++lA+ +  +g+
  PHY93_16750|PHY93_16750 47 QRKVLFYQKRLKRNPTSFQDTLALAKLYTARGK 79
                             556666666666999999********9998887 PP

  == domain 2  score: 12.6 bits;  conditional E-value: 0.0001
                              -HHHHHHHHHHHH.HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCTSHHHC-HHHHHHHHHHHHHTT-HHHHHH CS
                   ANAPC3   4 nyknAiflaerllaaetespedayllAlclylngqykrAyellrkaklnskslgcrylfAqcllkLkkyeeAia 77 
                              ++ + i +a ++l+ +++spe+ + l + ++ +g+  +A ++++++ +   s+++  l A +l ++++ +eA+ 
  PHY93_16750|PHY93_16750 121 QFSKSIVYAQKILKEKARSPEAFLILVKGHLALGNLVEANHYADELISVMPSENAYTLRALVLSAQGRNDEARY 194
                              6778899***************************************999***********************86 PP

  == domain 3  score: 8.5 bits;  conditional E-value: 0.002
                              HHHH.HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-HHHHHHHHHHHHHTT-HHHHHHHH- CS
                   ANAPC3  13 erllaaetespedayllAlclylngqykrAyellrka.klnskslgcrylfAqcllkLkkyeeAiaaLe 80 
                              e+l+a+et+  +++++    +++ g  ++A ell++a  + ++s+ ++ l++    k +ky+ A++ ++
  PHY93_16750|PHY93_16750 206 EPLQASETRIMYARFYIENYYLKKGSLDSAEELLKEAlIITPTSHFALGLMGDLFEKKNKYKNAVKYYK 274
                              6677777888888999999*******************************************9998765 PP

  == domain 4  score: 5.1 bits;  conditional E-value: 0.022
                              HHHHHH.HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCTSHHHC-HHHHHHHHH CS
                   ANAPC3  11 laerllaaetespedayllAlclylngqykrAyellrkaklnskslgcrylfAq 64 
                              l+  +l   + s+ ++ l +  + + ++yk A ++++ a   ++s++  yl+ +
  PHY93_16750|PHY93_16750 238 LLKEALIITPTSHFALGLMGDLFEKKNKYKNAVKYYKAA--FKESKQLIYLMKE 289
                              444444344555555555566677788899999999998..6777777888765 PP

  == domain 5  score: 3.6 bits;  conditional E-value: 0.063
                              -HHHHHHHHHCTSHHHC-HHHHHHHHHHHHHTT-HHHHHHHH CS
                   ANAPC3  38 qykrAyellrkaklnskslgcrylfAqcllkLkkyeeAiaaL 79 
                              +y +A++l+ + ++ + +++ ++l+A +l   +++ eA+++ 
  PHY93_16750|PHY93_16750 340 DYPEAMRLAISDNKIKGNPENLILLAWALEMNNHLVEARRVV 381
                              566666666666555666666666666665556655555554 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0       4.2     5e+03       3      13 ..      68      78 ..      68      79 .. 0.82
   2 ?   -1.9   0.0       3.9   4.7e+03       1      30 [.     108     138 ..     108     141 .. 0.71
   3 ?   -0.9   0.1       1.9   2.3e+03       4      19 ..     178     193 ..     175     209 .. 0.69
   4 ?    0.5   0.0      0.68   8.1e+02       4      26 ..     221     243 ..     218     248 .. 0.81
   5 !   18.4   0.0   1.3e-06    0.0015       1      31 [.     252     280 ..     252     284 .. 0.91
   6 ?   -1.0   0.0         2   2.4e+03       3      11 ..     408     416 ..     408     418 .. 0.87

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 4.2
                    TPR_7  3 lnLarlysrlG 13
                             l+La ly ++G
  PHY93_16750|PHY93_16750 68 LALAKLYTARG 78
                             58999999888 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 3.9
                    TPR_7   1 aLlnLarlysrlGdyeeAielyeqsL.altk 30 
                              a++ La++ +++ ++++ i + ++ L + ++
  PHY93_16750|PHY93_16750 108 AYFVLADIAQAQVQFSKSIVYAQKILkEKAR 138
                              5777999998888888888777776655555 PP

  == domain 3  score: -0.9 bits;  conditional E-value: 1.9
                    TPR_7   4 nLarlysrlGdyeeAi 19 
                                a + s++G+ +eA 
  PHY93_16750|PHY93_16750 178 LRALVLSAQGRNDEAR 193
                              5577788899999985 PP

  == domain 4  score: 0.5 bits;  conditional E-value: 0.68
                    TPR_7   4 nLarlysrlGdyeeAielyeqsL 26 
                              ++ + y + G  + A+el++++L
  PHY93_16750|PHY93_16750 221 YIENYYLKKGSLDSAEELLKEAL 243
                              56777889999999******966 PP

  == domain 5  score: 18.4 bits;  conditional E-value: 1.3e-06
                    TPR_7   1 aLlnLarlysrlGdyeeAielyeqsLaltkd 31 
                              aL  +++l+++ ++y++A+++y++  a+ ++
  PHY93_16750|PHY93_16750 252 ALGLMGDLFEKKNKYKNAVKYYKA--AFKES 280
                              7999********************..88776 PP

  == domain 6  score: -1.0 bits;  conditional E-value: 2
                    TPR_7   3 lnLarlysr 11 
                              +nLa +y++
  PHY93_16750|PHY93_16750 408 SNLAKIYRN 416
                              59*****97 PP

>> TPR_10  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       3.7   4.4e+03       8      17 ..      70      79 ..      69      87 .. 0.86
   2 ?   -3.4   0.0       8.7     1e+04      14      29 ..     152     167 ..     150     169 .. 0.70
   3 !   14.7   0.8   1.8e-05     0.022       8      33 ..     179     204 ..     174     206 .. 0.85
   4 !    5.9   0.0    0.0099        12      10      31 ..     224     245 ..     224     246 .. 0.90
   5 ?    0.4   0.0      0.53   6.3e+02      16      30 ..     264     278 ..     261     283 .. 0.81
   6 ?   -3.1   0.0       6.8   8.1e+03      16      25 ..     339     348 ..     337     349 .. 0.79
   7 ?   -2.8   0.0       5.5   6.5e+03       8      30 ..     364     386 ..     364     391 .. 0.71
   8 ?    1.0   0.0      0.35   4.2e+02      21      37 ..     391     407 ..     389     409 .. 0.84
   9 ?   -2.5   0.0       4.4   5.3e+03       6      14 ..     408     416 ..     407     416 .. 0.87

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 3.7
                   TPR_10  8 Lanalrqrgr 17
                             La ++++rg+
  PHY93_16750|PHY93_16750 70 LAKLYTARGK 79
                             8999****98 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 8.7
                   TPR_10  14 qrgrydeAealleeal 29 
                              ++g++ eA  +++e +
  PHY93_16750|PHY93_16750 152 ALGNLVEANHYADELI 167
                              6788888888877765 PP

  == domain 3  score: 14.7 bits;  conditional E-value: 1.8e-05
                   TPR_10   8 LanalrqrgrydeAealleealairr 33 
                               a +l+++gr deA+ +++eal++ +
  PHY93_16750|PHY93_16750 179 RALVLSAQGRNDEARYDFDEALSAEE 204
                              689*******************9866 PP

  == domain 4  score: 5.9 bits;  conditional E-value: 0.0099
                   TPR_10  10 nalrqrgrydeAealleealai 31 
                              n++ + g +d Ae+ll+eal i
  PHY93_16750|PHY93_16750 224 NYYLKKGSLDSAEELLKEALII 245
                              67899999***********987 PP

  == domain 5  score: 0.4 bits;  conditional E-value: 0.53
                   TPR_10  16 grydeAealleeala 30 
                              ++y+ A+++++ a  
  PHY93_16750|PHY93_16750 264 NKYKNAVKYYKAAFK 278
                              7999******99976 PP

  == domain 6  score: -3.1 bits;  conditional E-value: 6.8
                   TPR_10  16 grydeAeall 25 
                              ++y eA++l+
  PHY93_16750|PHY93_16750 339 KDYPEAMRLA 348
                              7899999986 PP

  == domain 7  score: -2.8 bits;  conditional E-value: 5.5
                   TPR_10   8 LanalrqrgrydeAealleeala 30 
                              La al   + + eA++  +++la
  PHY93_16750|PHY93_16750 364 LAWALEMNNHLVEARRVVRDVLA 386
                              56666666777788888888877 PP

  == domain 8  score: 1.0 bits;  conditional E-value: 0.35
                   TPR_10  21 AealleealairrrllG 37 
                              +e+++++a++i ++l +
  PHY93_16750|PHY93_16750 391 SEDIYIRAISIEEKLKN 407
                              699********999865 PP

  == domain 9  score: -2.5 bits;  conditional E-value: 4.4
                   TPR_10   6 nNLanalrq 14 
                              +NLa ++r+
  PHY93_16750|PHY93_16750 408 SNLAKIYRN 416
                              6*****986 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.4   0.1     0.026        31       6      22 ..     185     201 ..     180     207 .. 0.86
   2 ?    5.5   0.0     0.011        14       4      26 ..     226     248 ..     224     255 .. 0.88
   3 !    6.7   0.8    0.0047       5.6       1      20 [.     257     276 ..     257     282 .. 0.91

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.026
                   TPR_11   6 eqGkyeeAieaYkkAlk 22 
                              +qG+++eA  ++ +Al 
  PHY93_16750|PHY93_16750 185 AQGRNDEARYDFDEALS 201
                              8**************96 PP

  == domain 2  score: 5.5 bits;  conditional E-value: 0.011
                   TPR_11   4 yyeqGkyeeAieaYkkAlkldPd 26 
                              y ++G ++ A e +k+Al ++P+
  PHY93_16750|PHY93_16750 226 YLKKGSLDSAEELLKEALIITPT 248
                              99****************99997 PP

  == domain 3  score: 6.7 bits;  conditional E-value: 0.0047
                   TPR_11   1 GdayyeqGkyeeAieaYkkA 20 
                              Gd++ +++ky++A++ Yk+A
  PHY93_16750|PHY93_16750 257 GDLFEKKNKYKNAVKYYKAA 276
                              889999************99 PP

>> TPR_4  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.0         4   4.8e+03       5      15 ..      68      78 ..      67      79 .. 0.87
   2 ?    1.6   0.0      0.51   6.1e+02       3      20 ..     142     159 ..     140     159 .. 0.80
   3 !    9.1   0.2     0.002       2.3       3      21 ..     175     193 ..     174     193 .. 0.91
   4 !    7.4   0.2    0.0068       8.1       4      25 ..     361     382 ..     361     383 .. 0.93

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 4
                    TPR_4  5 laLArallalG 15
                             laLA ++ a+G
  PHY93_16750|PHY93_16750 68 LALAKLYTARG 78
                             79*****9999 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.51
                    TPR_4   3 allaLArallalGdldeA 20 
                              a l L   +lalG+l eA
  PHY93_16750|PHY93_16750 142 AFLILVKGHLALGNLVEA 159
                              556677789******998 PP

  == domain 3  score: 9.1 bits;  conditional E-value: 0.002
                    TPR_4   3 allaLArallalGdldeAr 21 
                              a+ ++A +l a+G+ deAr
  PHY93_16750|PHY93_16750 175 AYTLRALVLSAQGRNDEAR 193
                              66789*************8 PP

  == domain 4  score: 7.4 bits;  conditional E-value: 0.0068
                    TPR_4   4 llaLArallalGdldeAralle 25 
                              l++LA+al    +l eAr++++
  PHY93_16750|PHY93_16750 361 LILLAWALEMNNHLVEARRVVR 382
                              589****************998 PP

>> TPR_21  Tetratricopeptide repeat-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   0.9    0.0018       2.1     155     179 ..     182     206 ..     102     216 .. 0.82
   2 ?    7.7   0.1    0.0022       2.6     123     178 ..     226     282 ..     216     295 .. 0.79

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.0018
                   TPR_21 155 ilvaqgkldeAraaYqaAlaaleek 179
                              +l+aqg++deAr  +++Al+a ee+
  PHY93_16750|PHY93_16750 182 VLSAQGRNDEARYDFDEALSAEEEE 206
                              899*****************99886 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.0022
                   TPR_21 123 llaekkydeAlktLeakkeeafaalva.elrGDilvaqgkldeAraaYqaAlaalee 178
                              +l+++ +d A ++L+++   + ++++a  l GD++ +++k ++A + Y+aA+++ ++
  PHY93_16750|PHY93_16750 226 YLKKGSLDSAEELLKEALIITPTSHFAlGLMGDLFEKKNKYKNAVKYYKAAFKESKQ 282
                              677788888888887766555555443389*********************998776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (421 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       857  (0.0477997); expected 358.6 (0.02)
Passed bias filter:                      507  (0.0282782); expected 358.6 (0.02)
Passed Vit filter:                        57  (0.00317921); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.62u 0.24s 00:00:00.86 Elapsed: 00:00:00.46
# Mc/sec: 2738.16
//
Query:       PHY93_10315|PHY93_10315  [L=279]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.5e-08   35.0   0.1    0.00036   20.7   0.0    2.2  2  Acyl-CoA_dh_1  Acyl-CoA dehydrogenase, C-terminal domain
    0.00017   21.8   0.0       0.09   13.1   0.0    2.2  2  Acyl-CoA_dh_2  Acyl-CoA dehydrogenase, C-terminal domain


Domain annotation for each model (and alignments):
>> Acyl-CoA_dh_1  Acyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.1   0.0   1.9e-05      0.17      15      68 ..     156     209 ..     151     222 .. 0.86
   2 !   20.7   0.0   4.1e-08   0.00036     101     128 ..     229     256 ..     225     262 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 1.9e-05
                              -----..-SHHHHHHHHHHHHHHHTSB-CC-BGGGSHHHHHHHHHHHHHHHHHH CS
            Acyl-CoA_dh_1  15 Rlavaaaalglarraleealeyarrrkafgkplidhqlvreklaemaaeleaar 68 
                               +++ a ++g+  + ++ a eya +r + g+++ d  +++  l e++  + a  
  PHY93_10315|PHY93_10315 156 IVSISAICAGAKFKSFQLASEYASTRIQGGRAIKDWSSIQLLLSELYLSVKADE 209
                              578999**************************************9998777654 PP

  == domain 2  score: 20.7 bits;  conditional E-value: 4.1e-08
                              HHHHHHHHHHGGGTTSGGGHHHHHHHHT CS
            Acyl-CoA_dh_1 101 evadlamqllGgaGyleeypverlyrda 128
                              +++++ mq++GgaGy e+y verlyr++
  PHY93_10315|PHY93_10315 229 QFVSRNMQVFGGAGYIEDYVVERLYREC 256
                              567888********************98 PP

>> Acyl-CoA_dh_2  Acyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.7   0.0   0.00092       8.2       2      57 ..     158     211 ..     157     221 .. 0.86
   2 !   13.1   0.0     1e-05      0.09      95     122 ..     228     255 ..     214     261 .. 0.89

  Alignments for each domain:
  == domain 1  score: 6.7 bits;  conditional E-value: 0.00092
                              HHHHHHHHHHHHHHHHHHHHHHHHHCTTT-------HHHHHHHHHHHHHHHHHHHH CS
            Acyl-CoA_dh_2   2 giaavalGaAraalaefvelarervrassgekladdpatqlalaeaaarldAAral 57 
                              +i+a++ Ga    ++ + e+a +r++  +g++++d + +ql l e+  +++A + l
  PHY93_10315|PHY93_10315 158 SISAICAGAKFKSFQLASEYASTRIQ--GGRAIKDWSSIQLLLSELYLSVKADEVL 211
                              57888888888999999*********..******************9999986554 PP

  == domain 2  score: 13.1 bits;  conditional E-value: 1e-05
                              HHHHHHHHHHCGGGGGBTT-HHHHHHHH CS
            Acyl-CoA_dh_2  95 iaavdalfeaaGgsalrkesplqRlwRD 122
                               + v++ ++++Gg ++ ++++++Rl+R+
  PHY93_10315|PHY93_10315 228 DQFVSRNMQVFGGAGYIEDYVVERLYRE 255
                              578999*********************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (279 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       356  (0.0198561); expected 358.6 (0.02)
Passed bias filter:                      277  (0.0154498); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.24s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 2117.10
//
Query:       PHY93_10320|PHY93_10320  [L=484]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      8e-18   64.4   0.0    1.3e-17   63.7   0.0    1.4  1  Acyl-CoA_dh_M    Acyl-CoA dehydrogenase, middle domain
    1.2e-11   45.0   0.0    5.6e-10   39.6   0.0    2.3  2  Acyl-CoA_dh_1    Acyl-CoA dehydrogenase, C-terminal domain
      5e-06   26.4   0.0      1e-05   25.3   0.0    1.4  1  HpaB_N           4-hydroxyphenylacetate 3-hydroxylase N termi
  ------ inclusion threshold ------
       0.13   12.1   0.0       0.24   11.2   0.0    1.4  1  Glutaredoxin2_C  Glutaredoxin 2, C terminal domain


Domain annotation for each model (and alignments):
>> Acyl-CoA_dh_M  Acyl-CoA dehydrogenase, middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.7   0.0   2.9e-21   1.3e-17       1      97 []     151     254 ..     151     254 .. 0.92

  Alignments for each domain:
  == domain 1  score: 63.7 bits;  conditional E-value: 2.9e-21
                              EEE---SS-SS-GGG--......-EE.EEETT.EEEEEEEEEEEETTTT-SEEEEEEETS---.----EEEEEEE..GGGEEE--- CS
            Acyl-CoA_dh_M   1 afalTEpqaGsdvasvk......tta.aerdggeyvlnGeKiwitnaaiatlalvlartekpd.rarglslflvprdapgvsvrri 78 
                              ++a+TEp+aGsd+++ +       ++ a++ +g+y ++G+Ki+i+n+  a++++v a  e+ +  a++l +f+v+++a+g+s++r 
  PHY93_10320|PHY93_10320 151 SLAITEPGAGSDMEEAEllkkakVCTlAKKTEGGYLVSGQKIFISNSLFAKWYIVSAF-EDLAlPADSLVIFAVKANAEGISLGRS 235
                              589*********999999999994455999999*************************.5555789******************** PP

                              --BSS-TTS-EEEEEEE.. CS
            Acyl-CoA_dh_M  79 eeklGlrglptgelvfedv 97 
                              e+klG+   p+  ++fe+v
  PHY93_10320|PHY93_10320 236 EAKLGQSASPANIVFFENV 254
                              *****************97 PP

>> Acyl-CoA_dh_1  Acyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.9   0.0     0.026   1.1e+02      10      40 ..     285     315 ..     281     342 .. 0.85
   2 !   39.6   0.0   1.2e-13   5.6e-10      89     148 ..     411     470 ..     400     472 .. 0.95

  Alignments for each domain:
  == domain 1  score: 2.9 bits;  conditional E-value: 0.026
                              TT--S-----..-SHHHHHHHHHHHHHHHTS CS
            Acyl-CoA_dh_1  10 tlnheRlavaaaalglarraleealeyarrr 40 
                               l  +R++v++ a g+ +r+le ++e a + 
  PHY93_10320|PHY93_10320 285 LLSLSRAGVGCLATGVQKRILEIMIEVAEKN 315
                              58899*********************99875 PP

  == domain 2  score: 39.6 bits;  conditional E-value: 1.2e-13
                              HHHHHHHHHHHHHHHHHHHHHHGGGTTSGGGHHHHHHHHTHHHHHSSS-HHHHHHHHHHH CS
            Acyl-CoA_dh_1  89 smaKlfaselaqevadlamqllGgaGyleeypverlyrdarvlrigeGtseiqrniiarr 148
                              +++K ++++ a+e + la++l+G +G +  +++e+++rd+++l+i+eGt+e  r++i ++
  PHY93_10320|PHY93_10320 411 ALTKSVCTDKAMESVLLALELVGSDGGSSFWELEKILRDVKLLQIYEGTNELNRLMIYKS 470
                              789*****************************************************9875 PP

>> HpaB_N  4-hydroxyphenylacetate 3-hydroxylase N terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.3   0.0   2.3e-09     1e-05     143     266 ..     149     257 ..     132     261 .. 0.82

  Alignments for each domain:
  == domain 1  score: 25.3 bits;  conditional E-value: 2.3e-09
                              -EEEEES--SS-TTS-GGGSSSTTSB-EEEEE-SSEEEEEEEEEEEE-.--SSEEEE---SS-..TTSGGG-EEEEEETT-TTEEE CS
                   HpaB_N 143 vlthaitdpkgdRskrpseqedpdvyvrvveetddGivVrGakvlaTgaaladeilvlptramlkeedkdyavafavpvdapGlkl 228
                              +++ ait+p      +++e  ++  +    ++t+ G  V+G k++++++++a + +v  ++ +  +  +d  v+fav+++a+G++l
  PHY93_10320|PHY93_10320 149 TVSLAITEPGAGSDMEEAELLKKAKVCTLAKKTEGGYLVSGQKIFISNSLFAKWYIVSAFEDL--ALPADSLVIFAVKANAEGISL 232
                              678899999888888888888888889999******************************777..568999*************97 PP

                              EE-------S..-TTT-TTTTT----EEEEEEEEEEEE CS
                   HpaB_N 229 icresfedkleesefdyplssrfdendalvvfDdVfVP 266
                                 +s ++ l           +      +v+f++Vf+P
  PHY93_10320|PHY93_10320 233 G--RSEAK-L---------G-QSASPANIVFFENVFIP 257
                              4..33333.2.........1.22345568899999998 PP

>> Glutaredoxin2_C  Glutaredoxin 2, C terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   5.5e-05      0.24      70     114 ..     305     349 ..     296     360 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 5.5e-05
          Glutaredoxin2_C  70 lepliksseavngelSvdDillfpiLrsLtlvkglefppkvraYl 114
                              le +i+  e+ n ++ +++i++  +L+++ + k +++  +++ Y 
  PHY93_10320|PHY93_10320 305 LEIMIEVAEKNNLNFEWEQIQIAQVLQNFIVSKTISWEGHIECYS 349
                              7889998999999****************************9996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (484 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       451  (0.0251548); expected 358.6 (0.02)
Passed bias filter:                      399  (0.0222544); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.57u 0.23s 00:00:00.80 Elapsed: 00:00:00.41
# Mc/sec: 3513.79
//
Query:       PHY93_10325|PHY93_10325  [L=260]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    0.00047   20.6   4.2      0.068   13.6   0.1    2.5  2  Rubrerythrin     Rubrerythrin
    0.00059   19.9   0.2       0.18   11.8   0.1    2.2  2  RNase_H_2        RNase_H superfamily
     0.0036   17.5   0.1        1.3    9.3   0.0    2.4  2  Ferritin_2       Ferritin-like domain
  ------ inclusion threshold ------
      0.027   13.3   0.0      0.051   12.4   0.0    1.4  1  FA_desaturase_2  Fatty acid desaturase
      0.037   13.8   0.1       0.34   10.7   0.1    2.2  1  SPAM             Salmonella surface presentation of antigen g


Domain annotation for each model (and alignments):
>> Rubrerythrin  Rubrerythrin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.1   0.6   0.00091       3.3       3      55 ..      47      98 ..       5     116 .. 0.68
   2 !   13.6   0.1   1.9e-05     0.068      10      57 ..     141     189 ..     135     227 .. 0.84

  Alignments for each domain:
  == domain 1  score: 8.1 bits;  conditional E-value: 0.00091
                             HHHHHHHHHHHHHHHHHHHHCHHTT-HHHHHHHHHHHHHHHHHHHHHHHHHHH CS
             Rubrerythrin  3 LekAiagEssarrlYkelaekakegypqiaelFeelAeeEreHakilnkllek 55
                             L+ A ++E+s++++     + ++     + ++++   e+E++H+++l++ +++
  PHY93_10325|PHY93_10325 47 LSSAASAEESEEMVVLPVLKAFE-YSDILHRYLKTHMEDESRHRDLLKEYVKN 98
                             55555555555555555555555.22233555555556666666666666655 PP

  == domain 2  score: 13.6 bits;  conditional E-value: 1.9e-05
                              HHHHHHHHHHHHHCHH.TT-HHHHHHHHHHHHHHHHHHHHHHHHHHHCS CS
             Rubrerythrin  10 EssarrlYkelaekak.egypqiaelFeelAeeEreHakilnkllekle 57 
                              E  a+++Y el  +a  +++ ++++lF ++ ++E +H++ ++ ll+  +
  PHY93_10325|PHY93_10325 141 EWFAEEFYAELMNRAGeDKLINLKNLFIQIEKDELRHRAGIKALLGIWK 189
                              667999********************************99998887554 PP

>> RNase_H_2  RNase_H superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.8   0.1   4.9e-05      0.18      52     108 ..      51     107 ..      29     122 .. 0.74
   2 !    6.1   0.0    0.0028        10       1      32 [.     166     197 ..     166     227 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 4.9e-05
                RNase_H_2  52 lellekkkalvtfngksFDvpflkrlfkkykldeeefrhiDLlkelrkkkl..esysLk 108
                              ++  e ++ +v    k+F+++ + +++ k++++  e rh DLlke+ k+++  e  + k
  PHY93_10325|PHY93_10325  51 ASAEESEEMVVLPVLKAFEYSDILHRYLKTHMED-ESRHRDLLKEYVKNNFsyEK-KKK 107
                              45555556666667899***99999998999*98.*************9995444.444 PP

  == domain 2  score: 6.1 bits;  conditional E-value: 0.0028
                RNase_H_2   1 lffDiEttGlspkknliyliGvldvdekeiek 32 
                              lf+ iE + l ++ ++  l+G++  ++k+i k
  PHY93_10325|PHY93_10325 166 LFIQIEKDELRHRAGIKALLGIWKSEGKKIDK 197
                              799**********************9999876 PP

>> Ferritin_2  Ferritin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.1   0.0    0.0033        12      34      62 ..      69      97 ..      42     116 .. 0.74
   2 !    9.3   0.0   0.00035       1.3      12      62 ..     140     186 ..     133     242 .. 0.81

  Alignments for each domain:
  == domain 1  score: 6.1 bits;  conditional E-value: 0.0033
               Ferritin_2 34 lldaevrevaeeiakheeaHveflkaale 62
                              +++  ++++++ +++e  H+++lk+ ++
  PHY93_10325|PHY93_10325 69 EYSDILHRYLKTHMEDESRHRDLLKEYVK 97
                             456667899****************9996 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.00035
               Ferritin_2  12 lEyleaafYtaalegaslddkalldaevrevaeeiakheeaHveflkaale 62 
                               E  + +fY++ +++a++d       + ++++ +i k+e  H++ +ka l+
  PHY93_10325|PHY93_10325 140 YEWFAEEFYAELMNRAGED----KLINLKNLFIQIEKDELRHRAGIKALLG 186
                              6888999999999977554....3345689999**************9995 PP

>> FA_desaturase_2  Fatty acid desaturase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   1.4e-05     0.051     100     201 ..      76     180 ..      67     187 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 1.4e-05
          FA_desaturase_2 100 kWvraWtaEEnrHgdlLnkYlylsgrvdmre...vektvqelikaGfdiktekdpykgfvYtsfQErATkvsHrntaklakeagde 182
                              +++++ + +E rH dlL++Y+      + ++    +  + + i +G+++ +ek p   +v   f E   +   ++  + a+e +  
  PHY93_10325|PHY93_10325  76 RYLKTHMEDESRHRDLLKEYVKNNFSYEKKKktlTDIIIYKGIFRGVNVISEKRPLPIIVAILFYEWFAEEFYAELMNRAGEDKLI 161
                              566777889************98766655442224566778899**********************99998999999999998999 PP

          FA_desaturase_2 183 llakicgaiaadEkrHeaa 201
                               l+++  +i +dE rH a 
  PHY93_10325|PHY93_10325 162 NLKNLFIQIEKDELRHRAG 180
                              99**************875 PP

>> SPAM  Salmonella surface presentation of antigen gene type M protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.1   9.4e-05      0.34      30      71 ..     168     208 ..     150     255 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 9.4e-05
                     SPAM  30 ldkeeeaieeqragLkeLLdlqrpegksldreelyallrkqa 71 
                              ++ e++++  +rag+k LL + ++egk++d+ +++  +  + 
  PHY93_10325|PHY93_10325 168 IQIEKDEL-RHRAGIKALLGIWKSEGKKIDKIDIFYTKILLG 208
                              55566665.4689********************997655554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (260 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       956  (0.0533214); expected 358.6 (0.02)
Passed bias filter:                      573  (0.0319594); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 1884.33
//
Query:       PHY93_10330|PHY93_10330  [L=357]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.5e-27   96.2   0.0    4.8e-26   92.5   0.0    2.3  1  Sulfotransfer_3  Sulfotransferase family
    6.4e-13   48.8   0.1    3.3e-12   46.5   0.1    1.9  1  Sulfotransfer_1  Sulfotransferase domain
  ------ inclusion threshold ------
      0.014   15.2   0.1      0.068   13.0   0.1    2.1  1  Sulfotransfer_4  Sulfotransferase domain


Domain annotation for each model (and alignments):
>> Sulfotransfer_3  Sulfotransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   92.5   0.0     8e-30   4.8e-26       1     216 [.      58     316 ..      58     317 .. 0.71

  Alignments for each domain:
  == domain 1  score: 92.5 bits;  conditional E-value: 8e-30
                              -EEEE--TTSSHHHHHHHHHTSTT.......EE--S--.--TT.-SBHHHHHHHHTT-S...TTTHHHHHHHHHH........... CS
          Sulfotransfer_3   1 PifivGlpRSGTTlLhrlLaahpd.......vripeetlfvaprllalleawskdgrelrrlldagltqeeaelp........... 68 
                              PifivGlpRSGT++L +lL ah +       +++ +e+  +++ l+++++ ++ +g++ ++  d+ +       p           
  PHY93_10330|PHY93_10330  58 PIFIVGLPRSGTSMLYNLLCAHEKaayitnsINACPESICTIEWLRKKFN-FNASGERFLA--DS-INTD-FGSPsepallwgkwm 138
                              9********************88877776666666666566665555544.3333333322..22.3222.333345567777666 PP

                              ..........T--HHHHHHHHHHHHHTT-BHHHHHHHHHHHTTTSEEEEEESSGGG-HHHHHHHBSSEEEEEEE--H.HHHHHHHH CS
          Sulfotransfer_3  69 ..........hledaeepeedlqllraalasvilealarvpsyarwlvdKsPshlfrldlllelfPdAkfihlvRdpvdtvlssyv 144
                                        +   a+  +e++q  ++++++++++    +++++++++ K P +   l  +  lfPdA+fih+vRd  + +++s++
  PHY93_10330|PHY93_10330 139 grdvdslyweEKRLACFSSEKIQEIYTDVRRILFTF-GGLKNNDKRFICKYPVMQTELRMVQDLFPDAHFIHIVRDS-RPAANSLL 222
                              666767766666667778888888888888888865.778888888888***************************7.66777777 PP

                              HTT--------........................--..-HHHHHHHHHHHHHHHHHHHHHHS-TTSEEEEEHHHHHH-HHHHHHH CS
          Sulfotransfer_3 145 slfgkkresys........................edsldeledaleewarayerllaararlppdrfldvrYedLvadpegtlrr 206
                              +l++ ++++ +                        +   d++++ ++ w++++e  ++     + ++f++vrYed+ ++p  +l+r
  PHY93_10330|PHY93_10330 223 KLYHLTNNQIKkikhpwvtyivpyprvktlqgyidQFGADDIRTTANVWQDSIELVHQTA--PDLKNFIEVRYEDILTNPSLELKR 306
                              766655555555559999*****9999999555431112244444566666666544333..45589******************* PP

                              HHHHHT---- CS
          Sulfotransfer_3 207 iyeflglpwd 216
                              + +f++l w+
  PHY93_10330|PHY93_10330 307 LFDFCELNWP 316
                              ********97 PP

>> Sulfotransfer_1  Sulfotransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.5   0.1   5.5e-16   3.3e-12       3     201 ..      58     325 ..      56     351 .. 0.73

  Alignments for each domain:
  == domain 1  score: 46.5 bits;  conditional E-value: 5.5e-16
                              SEEEEESTTSSHHHHHHHHHHHHTTTCCHHHTSSGHCT-.HHHSCBTTHECCTSGCCGTTE.CCC..................... CS
          Sulfotransfer_1   3 dvlivtypKSGTtwlqellslitsegdfekaeepalfna.rdrspfLelydlyfpnslkpp.dhl..................... 65 
                               ++iv++p+SGT++l+ ll+++ + +       + + na  + +  +e+ ++ f  ++ ++ ++l                     
  PHY93_10330|PHY93_10330  58 PIFIVGLPRSGTSMLYNLLCAHEKAAYI----TNSI-NAcPESICTIEWLRKKFN-FNASGeRFLadsintdfgspsepallwgkw 137
                              69*******************5555555....2333.333667777777544443.333332444777899999999999999999 PP

                              ..................................HHHTTTEEHHHHHHHSTSS.EEE..E...GGGS.CHHHHTT-EEEEEE--HH CS
          Sulfotransfer_1  66 ..................................rsyshvaekvvrlralesprllk..tHlplkllpkslldsnlKiiylvRnpk 115
                                                                        ++  l++  ++r++   + +  +l   + l +++  i++vR+ +
  PHY93_10330|PHY93_10330 138 mgrdvdslyweekrlacfssekiqeiytdvrrilF-------TFGGLKNN-DKRFICkyPVMQTELRMVQDLFPDAHFIHIVRDSR 215
                              99999999999999999999666666533333330.......33333343.4444433655666666666679************* PP

                              HHHHHHHHHHHHBT.............TSTTT-S.-HHHHHHHHHT..THSTTC-HHHHHHHHHH.HTTTTTEEEEEHHHHHHHHH CS
          Sulfotransfer_1 116 dvavSryhfsrslk.............klkepet.pfeeffdlfle..grvvcgsyfdhvkswlk.lrkkgnvlflrYEdlkkdpa 184
                               +a S +     ++             +++ p + +++ ++d+f +   r++   + d+++ + + + + +n+  +rYEd+ ++p 
  PHY93_10330|PHY93_10330 216 PAANSLLKLYHLTNnqikkikhpwvtyIVPYPRVkTLQGYIDQFGAddIRTTANVWQDSIELVHQtAPDLKNFIEVRYEDILTNPS 301
                              *****98777666666889999999995555555559999999987558899999**********99999**************** PP

                              HHHHHHHHHTT--.........HH CS
          Sulfotransfer_1 185 keikkiaeFlGiplt.......ee 201
                               e+k++++F++++         + 
  PHY93_10330|PHY93_10330 302 LELKRLFDFCELNWPsvdnksfQS 325
                              ***********9965555444444 PP

>> Sulfotransfer_4  Sulfotransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.1   1.1e-05     0.068       2     183 ..      59     291 ..      58     318 .. 0.62

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 1.1e-05
          Sulfotransfer_4   2 ViglGlpRtGTkSlkaALeiLgykpvyhmeeviengsdlkewaealeakkegk................................. 54 
                              ++++GlpR+GT+ l++ L          + + i+   +  + +e+l++k++++                                 
  PHY93_10330|PHY93_10330  59 IFIVGLPRSGTSMLYNLLCAHEKA--AYITNSINACPESICTIEWLRKKFNFNasgerfladsintdfgspsepallwgkwmgrdv 142
                              688999999999666655554444..334444555468888999999999988777666666666666654444444433333333 PP

          Sulfotransfer_4  55 ..........kpitredfdkllggydavvdvpaalfaeelleay......................................Pdak 92 
                                        +++++e+++++                      y                                      Pda 
  PHY93_10330|PHY93_10330 143 dslyweekrlACFSSEKIQEI----------------------YtdvrrilftfgglknndkrfickypvmqtelrmvqdlfPDAH 206
                              333333333333333333333......................355555555555555555555555555555555555556**** PP

          Sulfotransfer_4  93 vIlteRdpekWlksmkktllalrsetlsrllalldpllellaklvellralvrrlfgagsdaedeeaakeayeehnervrevvp.a 177
                              +I ++Rd++  ++s  k+ + ++++ ++    +++ +     + v++l+  +++ fg    a+d +++++++++  e v +++p  
  PHY93_10330|PHY93_10330 207 FIHIVRDSRPAANSLLKLYHLTNNQIKKIKHPWVTYIVP--YPRVKTLQGYIDQ-FG----ADDIRTTANVWQDSIELVHQTAPdL 285
                              ********9999999999988888877777777665432..3444444444333.33....3577777778888888888877744 PP

          Sulfotransfer_4 178 erlLvy 183
                              ++++++
  PHY93_10330|PHY93_10330 286 KNFIEV 291
                              445555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (357 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       437  (0.0243739); expected 358.6 (0.02)
Passed bias filter:                      330  (0.0184059); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.40
# Mc/sec: 2687.73
//
Query:       PHY93_10335|PHY93_10335  [L=274]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    9.7e-21   74.5  15.3    1.7e-20   73.7  15.3    1.4  1  FA_hydroxylase  Fatty acid hydroxylase superfamily
  ------ inclusion threshold ------
        7.7    6.9  13.5       0.32   11.3   5.9    2.2  2  DUF3021         Protein of unknown function (DUF3021)


Domain annotation for each model (and alignments):
>> FA_hydroxylase  Fatty acid hydroxylase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.7  15.3   1.9e-24   1.7e-20       1     133 []      81     215 ..      81     215 .. 0.96

  Alignments for each domain:
  == domain 1  score: 73.7 bits;  conditional E-value: 1.9e-24
           FA_hydroxylase   1 lllallledfveYwvHrllHrvkllwrrlHkvHHsseaptalaalrahplealllallllllllllg.plsalllvlvlaallell 85 
                              +++ +++ +f++Yw H   H+v++ w+  H  HHs ++ + + ++r  + +++ l+++++l+l+llg + + ++l + + +l++++
  PHY93_10335|PHY93_10335  81 FIFTFVAVEFMYYWNHWYNHHVNIGWA-THIMHHSPTKYNLTLGYRLGITRFFSLGWMVFLPLILLGfHSEDIALSIGIIFLYQFF 165
                              57899************9999999***.***************************************99999999*********** PP

           FA_hydroxylase  86 iHsglhvslgwllerllatpraHrlHHskneeg...nfgvllslwDrlfgT 133
                              iH++l  +lg+l +++++tp+ Hr+HHs+n+e+   n g ++ ++D+lfgT
  PHY93_10335|PHY93_10335 166 IHTELIPKLGRL-DKVINTPSSHRVHHSSNPEHyntNLGGITLVFDHLFGT 215
                              ****88889998.899***************88899**************9 PP

>> DUF3021  Protein of unknown function (DUF3021)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   5.9   3.6e-05      0.32      10     100 ..      11     107 ..       7     115 .. 0.70
   2 ?   -0.6   0.8      0.17   1.5e+03      47     113 ..     134     160 ..     116     171 .. 0.52

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 3.6e-05
                  DUF3021  10 iGiligliislvislfsgettllestavlkqvlls..aliGvlfa.....laslifeserlsllkqtlihflvvlllvlllalllg 88 
                              ++i+i l + +++s   g +++ + +a+++ +l+s   +iG + +     + ++++    + l  +  ++f++++++v ++ ++++
  PHY93_10335|PHY93_10335  11 AAIFICLGVEFFVSRKKGLSNFSSYEALTSIALISfdKIIGYFTGtdggpIVKWLWAHRVFELGFNHTTNFIFTFVAVEFMYYWNH 96 
                              55566666666666666666664555556666666666777777633333578999*9**************************** PP

                  DUF3021  89 Wfplsvigiliv 100
                              W++++v +i ++
  PHY93_10335|PHY93_10335  97 WYNHHV-NIGWA 107
                              ***943.44444 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.17
                  DUF3021  47 iGvlfalasli..feserlsllkqtlihflvvlllvlllalllgWfplsvigilivilifiiiyliiwl 113
                              +G++++l+ ++  f+se++ l++ ++                                          +
  PHY93_10335|PHY93_10335 134 LGWMVFLPLILlgFHSEDIALSIGII------------------------------------------F 160
                              33333333333344444444444443..........................................2 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (274 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       411  (0.0229238); expected 358.6 (0.02)
Passed bias filter:                      214  (0.011936); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1998.82
//
Query:       PHY93_10340|PHY93_10340  [L=553]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.22   11.2   0.0        0.4   10.4   0.0    1.3  1  DUF1848   Domain of unknown function (DUF1848)


Domain annotation for each model (and alignments):
>> DUF1848  Domain of unknown function (DUF1848)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0   2.2e-05       0.4      56     144 ..      87     172 ..      79     183 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 2.2e-05
                  DUF1848  56 knpkpllkkleelkergiklyfqfTltdyekelepnvpsleerie.tfkelseklgkerviwRyDPilltekltvelhlekfekla 140
                              k++ ++ ++l +++     + f   + +y++    n+p +++ ++ t+ ++++ l  + +iwR  P++ + ++t+e++l+++++ +
  PHY93_10340|PHY93_10340  87 KEYIQFRNELLKVS---SGIEFYALIKKYDDGYS-NIPATANDLKfTIARMATWLPMKGIIWRMTPMVHQVATTQEVLLSTLKNYS 168
                              55555555555554...34444455777777665.56666665544899**********************************999 PP

                  DUF1848 141 eelk 144
                              e++k
  PHY93_10340|PHY93_10340 169 EQVK 172
                              9886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (553 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       335  (0.0186848); expected 358.6 (0.02)
Passed bias filter:                      317  (0.0176809); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.41
# Mc/sec: 4046.71
//
Query:       PHY93_10345|PHY93_10345  [L=741]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.16   12.7   0.0       0.35   11.7   0.0    1.5  1  DUF2553   Protein of unknown function (DUF2553)
       0.95    8.3   6.0      0.082   11.8   0.7    1.9  3  MMPL      MMPL family


Domain annotation for each model (and alignments):
>> DUF2553  Protein of unknown function (DUF2553)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   3.9e-05      0.35       7      51 ..      69     113 ..      64     122 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 3.9e-05
                  DUF2553   7 dkvtgklengeleLYldnekiGevkeesenqyelkegysqeeeki 51 
                              + +++++++g ++L++    iG+++ ++e+  ++ + ys++ + i
  PHY93_10345|PHY93_10345  69 KSIKARYQDGVTSLFVLSPPIGQFTFTTEQLCQIRKWYSFKRNTI 113
                              5799********************99*************998866 PP

>> MMPL  MMPL family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.7   9.2e-06     0.082     256     320 ..     342     407 ..     337     418 .. 0.88
   2 ?   -2.9   0.0      0.28   2.5e+03     101     145 ..     551     592 ..     519     611 .. 0.71
   3 ?   -3.8   0.2      0.51   4.6e+03     254     288 ..     690     724 ..     681     726 .. 0.66

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 9.2e-06
                     MMPL 256 ltvaiamlgLvvarlpvlaqvGvaialGvlvdvlivlTllPAllvllGraa.lakprrkrkkrwWr 320
                              lt ++ + +L ++++++++ +G+ +a G lv+ ++ + ++PAll  +   + + +p++ +  +++ 
  PHY93_10345|PHY93_10345 342 LTTILGFWALRTSEVEAVRRMGTWAAWGGLVQWMLLFIFIPALLQQFPSLRvWGNPKKSLGVNLFS 407
                              7888999*************************************9988877799999999888874 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 0.28
                     MMPL 101 teadesvaairaaveearpleglkvevtGpaatladlrdasdrdl 145
                              + a esvaa+++++++       + +++G  +++ d++ ++ + l
  PHY93_10345|PHY93_10345 551 ETAVESVAALKRIAADIC---QNNCHLGGEVVAYSDFASLVPKTL 592
                              456678888888888887...777888888888888777665555 PP

  == domain 3  score: -3.8 bits;  conditional E-value: 0.51
                     MMPL 254 aGltvaiamlgLvvarlpvlaqvGvaialGvlvdv 288
                               +l +a++ l  + + +++ +++Gv +++G+l ++
  PHY93_10345|PHY93_10345 690 TALLMALSSLIYLGSYFSSPREFGVILSVGLLASL 724
                              45555555555566666777788888888888776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (741 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       651  (0.0363099); expected 358.6 (0.02)
Passed bias filter:                      353  (0.0196888); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.60u 0.26s 00:00:00.86 Elapsed: 00:00:00.40
# Mc/sec: 5605.01
//
Query:       PHY93_10350|PHY93_10350  [L=953]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (953 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       562  (0.0313459); expected 358.6 (0.02)
Passed bias filter:                      405  (0.0225891); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.68u 0.25s 00:00:00.93 Elapsed: 00:00:00.42
# Mc/sec: 6783.81
//
Query:       PHY93_10355|PHY93_10355  [L=172]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.7e-20   72.5   0.1      4e-20   72.0   0.1    1.2  1  OmpA      OmpA family


Domain annotation for each model (and alignments):
>> OmpA  OmpA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.0   0.1   2.2e-24     4e-20       1      95 []      70     165 ..      70     165 .. 0.96

  Alignments for each domain:
  == domain 1  score: 72.0 bits;  conditional E-value: 2.2e-24
                              .B-TTS--B-GGGHHHHHHHHHHHH.S-S--EEEEE---S---HHHHHHHHHHHHHHHHHHHHHTTSSGGGEEEEE-TT------- CS
                     OmpA   1 yFapgsseLtpkaksaldkiaellk.kpeqkitveGhtdaagseernweLSqkRAeaVanylqnegvppsrisvsgyGaerpitan 85 
                              yF+++s+ L++ +k+al+  a+++k +++ k++veGh+d++g+ + n +L +kRA++V++yl+  gv+++ri + + G+e+p++ +
  PHY93_10355|PHY93_10355  70 YFDFNSAGLSNDTKDALNNNAQFMKtNTSVKVQVEGHADERGGVQFNLALGEKRAKTVREYLVGLGVEAARITTISLGKEKPVSFG 155
                              8************************777788*****************************************************99 PP

                              -------EE. CS
                     OmpA  86 ntaekkarnr 95 
                               ++e+ ++nr
  PHY93_10355|PHY93_10355 156 HDEESWSKNR 165
                              9999888886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (172 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       453  (0.0252663); expected 358.6 (0.02)
Passed bias filter:                      323  (0.0180155); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.36
# Mc/sec: 1414.73
//
Query:       PHY93_10360|PHY93_10360  [L=98]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.5e-06   28.0   5.2    2.9e-06   27.8   5.2    1.0  1  DUF4398   Domain of unknown function (DUF4398)
  ------ inclusion threshold ------
      0.019   15.5   0.8      0.042   14.4   0.8    1.6  1  LPAM_1    Prokaryotic membrane lipoprotein lipid attachment s
       0.18   11.7   2.2       0.28   11.1   2.2    1.3  1  LPAM_2    Prokaryotic lipoprotein-attachment site


Domain annotation for each model (and alignments):
>> DUF4398  Domain of unknown function (DUF4398)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.8   5.2   4.9e-10   2.9e-06       2      70 ..      27      95 ..      26      97 .. 0.95

  Alignments for each domain:
  == domain 1  score: 27.8 bits;  conditional E-value: 4.9e-10
                  DUF4398  2 eladAraaleaAraagaeeyApaeleeAreaLaqAeaamaekdyeeAdhlaylAerdaelAearAkaak 70
                             e++ A+ a+ aA++a+a+  Ap  +++A+ +  +A++  ++k   +A ++a+l++ + e Ae  A ++k
  PHY93_10360|PHY93_10360 27 EMSMAQVAFMAAKEAQADVKAPGLYRKAEYYYLKAKSSYKRKYFNKAQQYALLSKKYSERAEYVAIRKK 95
                             7899*********************************999*********************99988776 PP

>> LPAM_1  Prokaryotic membrane lipoprotein lipid attachment site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.8     7e-06     0.042       2      17 ..       2      17 ..       2      17 .. 0.95

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 7e-06
                   LPAM_1  2 KKillalgalllLsGC 17
                             KK l++l+++l+Ls+C
  PHY93_10360|PHY93_10360  2 KKNLSFLFLVLILSAC 17
                             7889************ PP

>> LPAM_2  Prokaryotic lipoprotein-attachment site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   2.2   4.7e-05      0.28       2      17 ..       5      20 ..       5      21 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 4.7e-05
                   LPAM_2  2 llllallllLaGCGqK 17
                             l +l+l+l L++CG++
  PHY93_10360|PHY93_10360  5 LSFLFLVLILSACGLT 20
                             5689**********85 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (98 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       834  (0.0465168); expected 358.6 (0.02)
Passed bias filter:                      389  (0.0216967); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.38u 0.22s 00:00:00.60 Elapsed: 00:00:00.37
# Mc/sec: 800.42
//
Query:       PHY93_16755|PHY93_16755  [L=461]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.5e-08   34.3   0.1    9.8e-06   25.0   0.2    3.5  2  Lactonase     Lactonase, 7-bladed beta-propeller
      0.002   18.3   0.5        5.1    7.4   0.0    4.7  5  Arylesterase  Arylesterase
  ------ inclusion threshold ------
       0.06   12.4   0.0      0.097   11.7   0.0    1.2  1  DUF1513       Protein of unknown function (DUF1513)


Domain annotation for each model (and alignments):
>> Lactonase  Lactonase, 7-bladed beta-propeller
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.7   0.0    0.0024        15     285     309 ..      38      62 ..      23      66 .. 0.82
   2 !   25.0   0.2   1.6e-09   9.8e-06      96     317 ..     173     449 ..     163     455 .. 0.79

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.0024
                              EEE-SSS.--EEEE-TTSSEEEEEE CS
                Lactonase 285 evstegkfPRdfaldpsgklllvan 309
                               + ++g +P  +++dp g++l+va+
  PHY93_16755|PHY93_16755  38 STTSTGCMPKGMKIDPVGNFLYVAE 62 
                              44556999***************96 PP

  == domain 2  score: 25.0 bits;  conditional E-value: 1.6e-09
                              TSSEEEEEETTTTEEEEEEB.TTSEBESECEEEE.....SST.......TT-SSTTEEEEEE-TTSSEEEEEETTTTEEEEEEE.- CS
                Lactonase  96 dgkllavAnYsggsvsvfpldadgslkeasqvlkhegsgpnp.......erqesphaHsvvldpdgkfllvpDLGtDrvrvykldk 174
                               +++++vAnY ++++s++++ +  + ++ + + + +g  p         +r     +  + ++pdgk+ lv    t ++++++  k
  PHY93_16755|PHY93_16755 173 HEQIIYVANYFSDNISIVDVTNLREDGHLDGTAHFKGLIPLHtsyrnprSRGYLIAPRGIAFTPDGKYALVLATETGSLIIVDAVK 258
                              6899*******99998777655555555544455443322222222223588888999**********************999977 PP

                              TTS-..EEEEEEEE-STT--EEEEEE-TTSSEEEEEETTTTEEEEEEEE...-TTT.EEEEEEEEESS-T.SS-S-.......... CS
                Lactonase 175 atgk..ltepasvklppgsGPRHlaFhpdgkiaYvvnELsstvsvfsyd...eatg.aleelqtvstlpe.gftgk.......... 243
                              +++   l + +s ++ +    RH++  +dg++aY+ +   + +s ++++   ++   +l+++  ++tlp+ ++++           
  PHY93_16755|PHY93_16755 259 HQQIaeLAPISSQTAGRDLNLRHIVVANDGETAYISHMRGNAISRIHLStliQK-InTLHQTGMTTTLPSsTWDELlipfntalgp 343
                              764334767778888888999****************99999999966611133.258899999999999445555********** PP

                              .......................--EEEEEE-T.TSSEEEEEETS........STEEEEEEE-TTT--EEEEEEEE-SSS.--EEE CS
                Lactonase 244 .......................nsaaeIrlsp.dgkflyvSnRg........adsiavfavdeadgtltlveevstegkfPRdfa 297
                                                     +++  I+l+p  +++lyvS+R+         d  ++ ++d  d +   v    ++g++P  ++
  PHY93_16755|PHY93_16755 344 vkililedypndhpnfpgqkwnySHPNTIVLEPiRNRYLYVSSRTttnsddskVDPKIMGKIDIIDTEKDRVVFSLVGGAQPTALE 429
                              *******************999889*******96799************98886666677777777777889999999******** PP

                              E-TTSSEEEEEETTTTEEEE CS
                Lactonase 298 ldpsgklllvanqksdnvtv 317
                              ++++gk l+ a+   d++  
  PHY93_16755|PHY93_16755 430 VSRDGKTLISAGLINDKLYF 449
                              ********999876666655 PP

>> Arylesterase  Arylesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.4   0.0   0.00085       5.1      54      74 ..      44      64 ..      17      73 .. 0.85
   2 ?    1.4   0.1     0.064   3.8e+02      65      83 ..     174     192 ..     155     194 .. 0.88
   3 ?    0.3   0.0      0.14   8.3e+02      53      70 ..     226     243 ..     219     254 .. 0.87
   4 ?    1.2   0.0     0.073   4.4e+02      54      75 ..     367     389 ..     362     394 .. 0.80
   5 ?   -0.7   0.0      0.28   1.7e+03      55      83 ..     424     452 ..     411     454 .. 0.85

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.00085
             Arylesterase 54 ssanGInidadkkyiyvadil 74
                              ++ G++id++  ++yva++ 
  PHY93_16755|PHY93_16755 44 CMPKGMKIDPVGNFLYVAEMC 64
                             6799***************96 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.064
             Arylesterase  65 kkyiyvadilresihvmkk 83 
                              +++iyva+   ++i ++++
  PHY93_16755|PHY93_16755 174 EQIIYVANYFSDNISIVDV 192
                              689*********9988776 PP

  == domain 3  score: 0.3 bits;  conditional E-value: 0.14
             Arylesterase  53 lssanGInidadkkyiyv 70 
                              l+++ GI + +d ky  v
  PHY93_16755|PHY93_16755 226 LIAPRGIAFTPDGKYALV 243
                              689***********9766 PP

  == domain 4  score: 1.2 bits;  conditional E-value: 0.073
             Arylesterase  54 ssanGInida.dkkyiyvadilr 75 
                              s +n I++++  ++y+yv++ + 
  PHY93_16755|PHY93_16755 367 SHPNTIVLEPiRNRYLYVSSRTT 389
                              67999999983579****99776 PP

  == domain 5  score: -0.7 bits;  conditional E-value: 0.28
             Arylesterase  55 sanGInidadkkyiyvadilresihvmkk 83 
                               ++ + ++ d k +  a +++++++ ++ 
  PHY93_16755|PHY93_16755 424 QPTALEVSRDGKTLISAGLINDKLYFYDL 452
                              68899999******9999**999999875 PP

>> DUF1513  Protein of unknown function (DUF1513)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   1.6e-05     0.097      97     205 ..     208     319 ..     176     332 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 1.6e-05
                  DUF1513  97 gGigp.HelllladgetLvvAnGGietepesgreklnldtmqpslvyLdaetGa.lleqvelae..dlnrlSiRHlavaddgtvlv 178
                              +G  p H     ++++  ++A  Gi  +p+  +  l l+t + sl+++da + + ++e + +++  + + l +RH+ va+dg ++ 
  PHY93_16755|PHY93_16755 208 KGLIPlHTSYRNPRSRGYLIAPRGIAFTPDG-KYALVLATETGSLIIVDAVKHQqIAELAPISSqtAGRDLNLRHIVVANDGETAY 292
                              5544448888888889999*******99997.****************98765515555555441155789*************** PP

                  DUF1513 179 aeqyegeakeaapllalhrrgealeal 205
                                +++g+a ++  l  l+++ + l+++
  PHY93_16755|PHY93_16755 293 ISHMRGNAISRIHLSTLIQKINTLHQT 319
                              ********9999999999887777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (461 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       363  (0.0202465); expected 358.6 (0.02)
Passed bias filter:                      326  (0.0181828); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.36
# Mc/sec: 3809.66
//
Query:       PHY93_10365|PHY93_10365  [L=268]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.7e-13   48.9   2.8    1.1e-05   25.7   0.1    3.6  3  TPR_6            Tetratricopeptide repeat
    4.1e-09   35.8   0.1     0.0006   19.7   0.0    2.8  2  TPR_2            Tetratricopeptide repeat
    4.9e-07   29.3   0.1     0.0046   16.7   0.0    2.6  2  TPR_1            Tetratricopeptide repeat
    6.1e-07   29.4   0.9    6.1e-07   29.4   0.9    2.2  3  YfiO             Outer membrane lipoprotein
    7.7e-07   28.8   9.2      0.012   15.7   0.1    4.0  3  TPR_8            Tetratricopeptide repeat
    2.1e-06   28.1   0.4    6.3e-06   26.6   0.2    1.9  1  TPR_19           Tetratricopeptide repeat
    9.8e-06   25.8   0.1    2.4e-05   24.5   0.0    1.7  1  TPR_12           Tetratricopeptide repeat
    9.9e-05   22.9   0.0    0.00022   21.8   0.0    1.6  1  TPR_16           Tetratricopeptide repeat
    0.00063   20.3  17.6     0.0035   17.9   5.1    2.7  2  SlyX             SlyX
     0.0023   18.6   0.0       0.22   12.5   0.1    2.5  2  TPR_14           Tetratricopeptide repeat
      0.006   16.3   1.0      0.006   16.3   1.0    2.6  2  TPR_21           Tetratricopeptide repeat-like domain
     0.0077   16.3   4.0     0.0077   16.3   4.0    2.8  2  TolA_bind_tri    TolA binding protein trimerisation
  ------ inclusion threshold ------
      0.012   15.6   2.8       0.28   11.3   0.2    3.7  3  Fis1_TPR_C       Fis1 C-terminal tetratricopeptide repeat
       0.04   14.1   0.5       0.04   14.1   0.5    2.1  2  ANAPC3           Anaphase-promoting complex, cyclosome, subun
      0.074   13.2   2.4        4.7    7.3   0.0    3.0  3  TPR_18           Tetratricopeptide repeat
        0.3   11.3   0.1        0.3   11.3   0.1    4.0  3  Bac_small_YrzI   Probable sporulation protein (Bac_small_yrzI
          1    9.5  16.9        1.3    9.2   1.9    3.4  2  DUF3847          Protein of unknown function (DUF3847)
        1.1    9.6  15.6        4.7    7.5   2.5    2.9  2  XhlA             Haemolysin XhlA
        1.2    7.4   5.7        2.9    6.1   5.6    1.7  1  SpecificRecomb   Site-specific recombinase
        2.3    8.3  13.5        6.9    6.7   6.8    2.4  2  DUF1664          Protein of unknown function (DUF1664)
        2.5    7.3  20.7       0.38   10.0   6.1    2.3  2  HemX             HemX, putative uroporphyrinogen-III C-methyl
        3.1    7.8  14.5        6.6    6.8   4.9    2.4  2  Noelin-1         Neurogenesis glycoprotein
        4.6    5.8   7.1        7.7    5.1   7.1    1.3  1  Tweety           Tweety
        6.9    6.7  23.5        2.4    8.2   4.5    2.7  3  Laminin_II       Laminin Domain II
        7.7    6.1  23.6         11    5.5  18.7    2.6  2  DUF4795          Domain of unknown function (DUF4795)
        8.8    6.7   8.9    5.4e+02    0.9   8.9    2.7  1  DUF948           Bacterial protein of unknown function (DUF94


Domain annotation for each model (and alignments):
>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.0       1.7   1.2e+03       7      29 ..     156     178 ..     154     178 .. 0.84
   2 !   20.6   0.0   6.8e-07   0.00047       2      33 .]     189     220 ..     188     220 .. 0.96
   3 !   25.7   0.1   1.6e-08   1.1e-05       2      33 .]     226     257 ..     225     257 .. 0.97

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 1.7
                              HHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   7 alsyrklgdtdkAlealerlike 29 
                              a + +k ++ ++++e++  l+++
  PHY93_10365|PHY93_10365 156 AIAKYKEKNMEASKEMFLTLLDN 178
                              67889988********9999875 PP

  == domain 2  score: 20.6 bits;  conditional E-value: 6.8e-07
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHH-TT- CS
                    TPR_6   2 AlyklalsyrklgdtdkAlealerlikeYPdS 33 
                              ++y+l++  +k++++++A+ ++ +l +e PdS
  PHY93_10365|PHY93_10365 189 SFYHLGMIEYKGKNYEEAKVYFSKLFSENPDS 220
                              58*****************************9 PP

  == domain 3  score: 25.7 bits;  conditional E-value: 1.6e-08
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHH-TT- CS
                    TPR_6   2 AlyklalsyrklgdtdkAlealerlikeYPdS 33 
                              Al++la+s+++l+ +++A++ l++li++YP+S
  PHY93_10365|PHY93_10365 226 ALLNLAKSFLQLKSKEEARQSLDELITRYPKS 257
                              9***********9*****************98 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.7   0.0   8.7e-07    0.0006       4      33 ..     190     219 ..     188     220 .. 0.94
   2 !   13.3   0.0    0.0001      0.07       1      33 [.     224     256 ..     224     257 .. 0.94

  Alignments for each domain:
  == domain 1  score: 19.7 bits;  conditional E-value: 8.7e-07
                    TPR_2   4 lynlGlayyklgdyeeAleafekAleldPn 33 
                               y lG++ yk ++yeeA+ +f k  + +P+
  PHY93_10365|PHY93_10365 190 FYHLGMIEYKGKNYEEAKVYFSKLFSENPD 219
                              699**************************8 PP

  == domain 2  score: 13.3 bits;  conditional E-value: 0.0001
                    TPR_2   1 aealynlGlayyklgdyeeAleafekAleldPn 33 
                              a al nl+++ ++l+  eeA++ +++ +  +P+
  PHY93_10365|PHY93_10365 224 ASALLNLAKSFLQLKSKEEARQSLDELITRYPK 256
                              5799*************************9997 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.0   6.7e-06    0.0046       4      33 ..     190     219 ..     188     220 .. 0.90
   2 !   10.0   0.0   0.00087       0.6       1      33 [.     224     256 ..     224     257 .. 0.92

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 6.7e-06
                              HHHHHHHHHHTT-HHHHHHHHHHHHHHSTT CS
                    TPR_1   4 lynlGnayfklgkydeAleyyekALelnPn 33 
                              +y lG++ +k ++y+eA  y++k  + nP+
  PHY93_10365|PHY93_10365 190 FYHLGMIEYKGKNYEEAKVYFSKLFSENPD 219
                              89********************98777776 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00087
                              HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT CS
                    TPR_1   1 akalynlGnayfklgkydeAleyyekALelnPn 33 
                              a al nl+  +++l+  +eA +  ++ ++ +P+
  PHY93_10365|PHY93_10365 224 ASALLNLAKSFLQLKSKEEARQSLDELITRYPK 256
                              679********************9999988886 PP

>> YfiO  Outer membrane lipoprotein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.1       2.7   1.9e+03     132     142 ..      51      61 ..      26     118 .. 0.57
   2 ?   -1.4   0.2       2.4   1.6e+03      19      60 ..     127     167 ..     107     177 .. 0.60
   3 !   29.4   0.9   8.9e-10   6.1e-07       3      79 ..     185     261 ..     183     266 .. 0.95

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 2.7
                              HHHHHHHHHHH CS
                     YfiO 132 rltelrerLAr 142
                              r  +l e +A+
  PHY93_10365|PHY93_10365  51 RFMALEEEMAK 61 
                              33333333333 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 2.4
                              T-HHHHHHHHHHHHHHSTTSTTHHHHHHHHHHHHHHTT-HHH CS
                     YfiO  19 gdyaeAikklealdsryPfspyaeqaqldliyAyykdadyae 60 
                              ++ ++A+kk ++ +sr   s  ae   ++ + A yk++++++
  PHY93_10365|PHY93_10365 127 EQKEQARKKVSQKESR-EESSSAETPTIKGAIAKYKEKNMEA 167
                              4445666666666665.3455566666666666676666654 PP

  == domain 3  score: 29.4 bits;  conditional E-value: 8.9e-10
                              --HHHHHHHHHHHHHHT-HHHHHHHHHHHHHHSTTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-SSSTTHH CS
                     YfiO   3 ktaselYekgqealqkgdyaeAikklealdsryPfspyaeqaqldliyAyykdadyaealasaerFlrlyPthknvd 79 
                              ++++ +Y+ g+ +++ ++y+eA+ ++++l s  P s y ++a l+l+++ ++ +  +ea +s+++ +  yP+++++ 
  PHY93_10365|PHY93_10365 185 DKETSFYHLGMIEYKGKNYEEAKVYFSKLFSENPDSTYGASALLNLAKSFLQLKSKEEARQSLDELITRYPKSREAA 261
                              67899********************************************************************9876 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   0.3       0.6   4.2e+02      12      28 ..     160     176 ..     154     180 .. 0.82
   2 !   15.7   0.1   1.8e-05     0.012       3      33 ..     189     219 ..     187     220 .. 0.93
   3 !   15.1   0.1   2.9e-05      0.02       1      33 [.     224     256 ..     224     257 .. 0.94

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.6
                              HHTT-HHHHHHHHHHHH CS
                    TPR_8  12 lklgdyeeAkeyyekal 28 
                               k +++e++ke +   l
  PHY93_10365|PHY93_10365 160 YKEKNMEASKEMFLTLL 176
                              5789********98876 PP

  == domain 2  score: 15.7 bits;  conditional E-value: 1.8e-05
                              HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH CS
                    TPR_8   3 ayynlgsiylklgdyeeAkeyyekaleldpd 33 
                              + y+lg+i  k ++yeeAk y+ k  + +pd
  PHY93_10365|PHY93_10365 189 SFYHLGMIEYKGKNYEEAKVYFSKLFSENPD 219
                              689**********************999997 PP

  == domain 3  score: 15.1 bits;  conditional E-value: 2.9e-05
                              CCHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH CS
                    TPR_8   1 aeayynlgsiylklgdyeeAkeyyekaleldpd 33 
                              a+a++nl++  l+l+ +eeA +++ + ++  p+
  PHY93_10365|PHY93_10365 224 ASALLNLAKSFLQLKSKEEARQSLDELITRYPK 256
                              6799************************99987 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.6   0.2   9.1e-09   6.3e-06       5      61 ..     201     260 ..     197     267 .. 0.90

  Alignments for each domain:
  == domain 1  score: 26.6 bits;  conditional E-value: 9.1e-09
                   TPR_19   5 gdyaeAlalleqalqedpk...naearllLAeallalgqldeAealLdalpeedpddary 61 
                              ++y+eA  +++++++e+p+    a a+l+LA+  l+l+  +eA++ Ld+l   +p++ ++
  PHY93_10365|PHY93_10365 201 KNYEEAKVYFSKLFSENPDstyGASALLNLAKSFLQLKSKEEARQSLDELITRYPKSREA 260
                              58*****************9988889999**************************96444 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.5   0.0   3.5e-08   2.4e-05       4      76 ..     188     255 ..     185     256 .. 0.92

  Alignments for each domain:
  == domain 1  score: 24.5 bits;  conditional E-value: 3.5e-08
                   TPR_12   4 talnnlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleealaiae 76 
                              t+ ++l++++++ ++y+eA  ++ k    +++   pd+ + a++l nL+  +++l+  eeA++ l e + +++
  PHY93_10365|PHY93_10365 188 TSFYHLGMIEYKGKNYEEAKVYFSKL---FSEN--PDSTYGASALLNLAKSFLQLKSKEEARQSLDELITRYP 255
                              56789*********************...7666..******************************99998886 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.8   0.0   3.2e-07   0.00022       3      66 ..     193     256 ..     191     258 .. 0.92

  Alignments for each domain:
  == domain 1  score: 21.8 bits;  conditional E-value: 3.2e-07
                   TPR_16   3 laraalragdyddAaaaleaalkrdpssPd...aaeAllllgdaalrqgrlaeAaalyraalraapd 66 
                              l+++ ++ ++y++A  ++  +   +   Pd    a All+l+ ++l+++  +eA++ ++++++ +p+
  PHY93_10365|PHY93_10365 193 LGMIEYKGKNYEEAKVYFSKLFSEN---PDstyGASALLNLAKSFLQLKSKEEARQSLDELITRYPK 256
                              789999*********9999999999...66666******************************9997 PP

>> SlyX  SlyX
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.6   2.4     0.002       1.4      16      58 ..      28      70 ..      26      78 .. 0.84
   2 !   17.9   5.1   5.1e-06    0.0035       2      62 ..      84     144 ..      83     151 .. 0.89

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.002
                             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-XXXXXXXXXXX CS
                     SlyX 16 edtieeLndvvaeqqqqidrlqrqlrllaerlkeleessgase 58
                             e+ +e Ln++va+ q+  +    ++ +l+e++++l  + ++s+
  PHY93_10365|PHY93_10365 28 EKNVENLNEQVAQTQKSTANANSRFMALEEEMAKLTGKIEEST 70
                             7899**************************9988877765544 PP

  == domain 2  score: 17.9 bits;  conditional E-value: 5.1e-06
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-XXXXXXXXXXXXXXX CS
                     SlyX   2 eerleeLEiklafqedtieeLndvvaeqqqqidrlqrqlrllaerlkeleessgaseaeee 62 
                              +er++ LE+    q +++++Ln+ v eq + i++  + l  l+e+ ++++++ +++e++ee
  PHY93_10365|PHY93_10365  84 KERINSLEETNKKQTEFMKALNEKVQEQSKYIEQVITSLSSLNEQKEQARKKVSQKESREE 144
                              79*******************************************9888888777666444 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.3   0.0     0.061        42       5      42 ..     191     231 ..     189     232 .. 0.81
   2 !   12.5   0.1   0.00031      0.22       3      38 ..     226     261 ..     224     264 .. 0.93

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.061
                   TPR_14   5 lalaeallalGdpdeAiallrralalaPdd...aeawllla 42 
                              + l+ +++   +++eA  ++ ++ + +Pd+   a a+l la
  PHY93_10365|PHY93_10365 191 YHLGMIEYKGKNYEEAKVYFSKLFSENPDStygASALLNLA 231
                              56777788889******************955556777776 PP

  == domain 2  score: 12.5 bits;  conditional E-value: 0.00031
                   TPR_14   3 allalaeallalGdpdeAiallrralalaPddaeaw 38 
                              all la+ +l+l   +eA++ l++++ ++P+++ea 
  PHY93_10365|PHY93_10365 226 ALLNLAKSFLQLKSKEEARQSLDELITRYPKSREAA 261
                              8899****************************9985 PP

>> TPR_21  Tetratricopeptide repeat-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   6.6      0.98   6.7e+02      33     109 ..     105     182 ..      87     207 .. 0.61
   2 !   16.3   1.0   8.8e-06     0.006      42     105 ..     190     253 ..     159     266 .. 0.76

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.98
                   TPR_21  33 eeqaeeAsalYqqlqeave..akdaakakeaaeeladeyggtaYaalaaLllAkaaveagdlaaAkaqLewvlekakde 109
                              +e+ +e s+  +q+ ++++  ++++++a++++++ +++ + ++ a+  ++  A a++++++++a+k+ +  +l+++k +
  PHY93_10365|PHY93_10365 105 NEKVQEQSKYIEQVITSLSslNEQKEQARKKVSQKESREE-SSSAETPTIKGAIAKYKEKNMEASKEMFLTLLDNKKIK 182
                              4555666666666666655333333344445444444333.34688888888888888888888888888888777643 PP

  == domain 2  score: 16.3 bits;  conditional E-value: 8.8e-06
                   TPR_21  42 lYqqlqeaveakdaakakeaaeeladeyggtaYaalaaLllAkaaveagdlaaAkaqLewvlek 105
                               Y+    + + k+ ++ak  +++l +e+++++Y+a a L lAk+  + +  ++A+++L++++  
  PHY93_10365|PHY93_10365 190 FYHLGMIEYKGKNYEEAKVYFSKLFSENPDSTYGASALLNLAKSFLQLKSKEEARQSLDELITR 253
                              3333233455777888999***************************************998865 PP

>> TolA_bind_tri  TolA binding protein trimerisation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   4.0   1.1e-05    0.0077       3      50 ..      28      75 ..      26      80 .. 0.94
   2 ?   -0.7   5.7       2.3   1.6e+03       4      53 ..      85     141 ..      83     152 .. 0.58

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 1.1e-05
            TolA_bind_tri  3 edrvarLErilearsqlllelqqqlealqqelreLRGqiEelqyqleq 50
                             e+ v+ L++++++ +++  +  ++  al++e+++L G+iEe +++ +q
  PHY93_10365|PHY93_10365 28 EKNVENLNEQVAQTQKSTANANSRFMALEEEMAKLTGKIEESTHNRQQ 75
                             7899****************************************9998 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 2.3
            TolA_bind_tri   4 drvarLErilears.......qlllelqqqlealqqelreLRGqiEelqyqleqlee 53 
                              +r+ +LE+  ++++       +   e+ + +e+  + l++L+ q E+ + +++q e 
  PHY93_10365|PHY93_10365  85 ERINSLEETNKKQTefmkalnEKVQEQSKYIEQVITSLSSLNEQKEQARKKVSQKES 141
                              566666666666554444444444455555555555556666666666655555555 PP

>> Fis1_TPR_C  Fis1 C-terminal tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.5   0.0      0.48   3.3e+02       8      28 ..     156     176 ..     155     179 .. 0.89
   2 ?   11.3   0.2   0.00041      0.28       5      33 ..     191     219 ..     188     236 .. 0.91
   3 ?   -0.4   0.0       1.8   1.2e+03      18      38 ..     241     261 ..     230     262 .. 0.76

  Alignments for each domain:
  == domain 1  score: 1.5 bits;  conditional E-value: 0.48
                              HHHHHHHT-HHHHHHHHHHHH CS
               Fis1_TPR_C   8 AlGhyklgeYseArryvdalL 28 
                              A+++yk ++ + +++   +lL
  PHY93_10365|PHY93_10365 156 AIAKYKEKNMEASKEMFLTLL 176
                              89***********99988888 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 0.00041
                              HHHHHHHHHHT-HHHHHHHHHHHHHHTTS CS
               Fis1_TPR_C   5 YylAlGhyklgeYseArryvdalLeiEPe 33 
                              Y+l +  yk ++Y+eA+ y   l +  P+
  PHY93_10365|PHY93_10365 191 YHLGMIEYKGKNYEEAKVYFSKLFSENPD 219
                              8899999****************999997 PP

  == domain 3  score: -0.4 bits;  conditional E-value: 1.8
                              HHHHHHHHHHHHHTTS-HHHH CS
               Fis1_TPR_C  18 seArryvdalLeiEPenrQaq 38 
                              +eAr+ +d l+   P+ r a+
  PHY93_10365|PHY93_10365 241 EEARQSLDELITRYPKSREAA 261
                              688888888888888777775 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.1       4.4     3e+03       3      30 ..      75     103 ..      73     138 .. 0.65
   2 ?   14.1   0.5   5.8e-05      0.04      20      81 ..     184     249 ..     162     250 .. 0.82

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 4.4
                              T-HHHHHHHHHHHH..HHH--HHHHHHHH CS
                   ANAPC3   3 nnyknAiflaerlla.aetespedayllA 30 
                              + +k+A ++ er+ +  et+  +  +++A
  PHY93_10365|PHY93_10365  75 QEIKDAAIIKERINSlEETNKKQTEFMKA 103
                              56777777777776433333333344444 PP

  == domain 2  score: 14.1 bits;  conditional E-value: 5.8e-05
                              H--HHHHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-H...HHHHHHHHHHHHTT-HHHHHHHH-S CS
                   ANAPC3  20 tespedayllAlclylngqykrAyellrka.klnsksl...gcrylfAqcllkLkkyeeAiaaLek 81 
                              ++ + + y l+   y+ ++y++A  +++k+  +n+ s     +++ +A++ l+Lk+ eeA++ L++
  PHY93_10365|PHY93_10365 184 KDKETSFYHLGMIEYKGKNYEEAKVYFSKLfSENPDSTygaSALLNLAKSFLQLKSKEEARQSLDE 249
                              34444455579999****************99999998998889999***************9986 PP

>> TPR_18  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.1       2.6   1.8e+03      97      99 ..     109     111 ..      70     161 .. 0.57
   2 ?    4.7   0.1     0.043        30     105     141 ..     190     226 ..     146     230 .. 0.78
   3 ?    7.3   0.0    0.0068       4.7     115     141 ..     237     263 ..     226     266 .. 0.77

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 2.6
                   TPR_18  97 ldk 99 
                              +++
  PHY93_10365|PHY93_10365 109 QEQ 111
                              222 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.043
                   TPR_18 105 lvsldrsdrdteaakaafrdfkrLlsryPnseYaaDa 141
                              + +l  ++   +++++a   f++L s  P+s Y a a
  PHY93_10365|PHY93_10365 190 FYHLGMIEYKGKNYEEAKVYFSKLFSENPDSTYGASA 226
                              4455555666677888899999999999999998766 PP

  == domain 3  score: 7.3 bits;  conditional E-value: 0.0068
                   TPR_18 115 teaakaafrdfkrLlsryPnseYaaDa 141
                               ++ ++a++  ++L++ryP+s+ aa+ 
  PHY93_10365|PHY93_10365 237 LKSKEEARQSLDELITRYPKSREAAEG 263
                              5667899999999******99887765 PP

>> Bac_small_YrzI  Probable sporulation protein (Bac_small_yrzI)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.1   0.00043       0.3      17      39 ..      20      42 ..       7      44 .. 0.85
   2 ?   -2.5   4.6       8.4   5.8e+03      12      43 ..      83     115 ..      82     117 .. 0.70
   3 ?   -1.9   0.2       5.5   3.8e+03      35      44 ..     183     192 ..     178     192 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00043
           Bac_small_YrzI 17 yseeEiereqqiekieeemkdrq 39
                             +++e i+re ++e++ e++ + q
  PHY93_10365|PHY93_10365 20 KTQEDIRREKNVENLNEQVAQTQ 42
                             89****************99877 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 8.4
           Bac_small_YrzI  12 IqKRkyseeEiereq.qiekieeemkdrqlkYy 43 
                              I+ R  s eE + +q +  k+ +e  + q+kY 
  PHY93_10365|PHY93_10365  83 IKERINSLEETNKKQtEFMKALNEKVQEQSKYI 115
                              666777777777666356778888888888886 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 5.5
           Bac_small_YrzI  35 mkdrqlkYys 44 
                               kd+++++y+
  PHY93_10365|PHY93_10365 183 KKDKETSFYH 192
                              5888888885 PP

>> DUF3847  Protein of unknown function (DUF3847)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.0   7.4     0.076        52       2      41 ..      31      72 ..      30     116 .. 0.72
   2 ?    9.2   1.9    0.0019       1.3       2      24 ..     122     144 ..     121     149 .. 0.91

  Alignments for each domain:
  == domain 1  score: 4.0 bits;  conditional E-value: 0.076
                  DUF3847  2 leeLkaelekaekklrqaehkekiLenrlkyle..RkeRtHr 41
                             +e+L++++++++k  + a+++   Le  +++l+    e+tH+
  PHY93_10365|PHY93_10365 31 VENLNEQVAQTQKSTANANSRFMALEEEMAKLTgkIEESTHN 72
                             699******************************877899997 PP

  == domain 2  score: 9.2 bits;  conditional E-value: 0.0019
                  DUF3847   2 leeLkaelekaekklrqaehkek 24 
                              l +L++++e+a+kk+ q e++e+
  PHY93_10365|PHY93_10365 122 LSSLNEQKEQARKKVSQKESREE 144
                              779****************9986 PP

>> XhlA  Haemolysin XhlA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   2.5    0.0068       4.7       8      47 ..      26      65 ..      21      67 .. 0.92
   2 ?    6.6   5.4     0.013       8.8       2      46 ..      83     127 ..      82     130 .. 0.95

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0068
                     XhlA  8 rietkldnleervdkleekaaeaeekiknleedlkklesn 47
                             r e++++nl+e+v + ++  a+a ++ + lee+++kl+  
  PHY93_10365|PHY93_10365 26 RREKNVENLNEQVAQTQKSTANANSRFMALEEEMAKLTGK 65
                             5599*********************************975 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.013
                     XhlA   2 ikerlerietkldnleervdkleekaaeaeekiknleedlkkles 46 
                              iker++ +e+  ++  e ++ l+ek  e+ + i+++   l++l +
  PHY93_10365|PHY93_10365  83 IKERINSLEETNKKQTEFMKALNEKVQEQSKYIEQVITSLSSLNE 127
                              89***************999********************99987 PP

>> SpecificRecomb  Site-specific recombinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.1   5.6    0.0042       2.9     161     221 ..      33      93 ..      29     146 .. 0.85

  Alignments for each domain:
  == domain 1  score: 6.1 bits;  conditional E-value: 0.0042
           SpecificRecomb 161 glepelrrrlpeleeeespFlalqrelealleayeaaledeeeaeedlkhlrvlldqcrea 221
                              +l++++ + ++++++++s F+al++e+++l+ ++e+ +++++++ +d++ ++  ++  +e+
  PHY93_10365|PHY93_10365  33 NLNEQVAQTQKSTANANSRFMALEEEMAKLTGKIEESTHNRQQEIKDAAIIKERINSLEET 93 
                              689999******************************9999999888888888766655554 PP

>> DUF1664  Protein of unknown function (DUF1664)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.0   0.7     0.035        24      87     122 ..      29      64 ..      18      74 .. 0.54
   2 ?    6.7   6.8    0.0099       6.9      64     121 ..      83     140 ..      66     143 .. 0.86

  Alignments for each domain:
  == domain 1  score: 5.0 bits;  conditional E-value: 0.035
                  DUF1664  87 eevtevredlseigedvesvkeavegleskleriee 122
                              ++v++++e+++++++   + ++ ++ le++++++ +
  PHY93_10365|PHY93_10365  29 KNVENLNEQVAQTQKSTANANSRFMALEEEMAKLTG 64 
                              345555555555555555555555555555544433 PP

  == domain 2  score: 6.7 bits;  conditional E-value: 0.0099
                  DUF1664  64 Lssridrvdkkldeqkeiskeikeevtevredlseigedvesvkeaveglesklerie 121
                              +++ri++++++ ++q+e  k+++e+v+e ++ ++++ + ++s++e  e+  +k+++ e
  PHY93_10365|PHY93_10365  83 IKERINSLEETNKKQTEFMKALNEKVQEQSKYIEQVITSLSSLNEQKEQARKKVSQKE 140
                              6789999999999999999999999999999999999999999999998888887655 PP

>> HemX  HemX, putative uroporphyrinogen-III C-methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   6.1   0.00055      0.38      10     106 ..       4      97 ..       1     103 [. 0.85
   2 ?    2.1   9.3      0.14        98      27      94 ..      95     162 ..      90     171 .. 0.71

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.00055
                     HemX  10 lallvalavgaglyylgqqqvqeltaevaelqqqlaaleqqlaqveaekeqkqeleerlqqlaeklealekeleqlqkqleelqqq 95 
                              l ll+ l +   l   + q+  + +++v++l++q+a+ ++++a+    +++   lee++++l++k+e+++++ +q  k+ + ++++
  PHY93_10365|PHY93_10365   4 LQLLLILSIIIVLPSCKTQEDIRREKNVENLNEQVAQTQKSTAN---ANSRFMALEEEMAKLTGKIEESTHNRQQEIKDAAIIKER 86 
                              5688888888889999999998999999*******999999999...77788889999999999**99999999999999999999 PP

                     HemX  96 lskvsgaerkd 106
                              ++ ++ +++k+
  PHY93_10365|PHY93_10365  87 INSLEETNKKQ 97 
                              99998876654 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.14
                     HemX  27 qqqvqeltaevaelqqqlaaleqqlaqveaekeqkqeleerlqqlaeklealekeleqlqkqleelqq 94 
                              ++q + ++a ++++q+q + +eq  +++++++eqk++  +++ q++++ e++++e+ + + ++++ ++
  PHY93_10365|PHY93_10365  95 KKQTEFMKALNEKVQEQSKYIEQVITSLSSLNEQKEQARKKVSQKESREESSSAETPTIKGAIAKYKE 162
                              44555566666888888888888888888888888888888888888877777777777777766655 PP

>> Noelin-1  Neurogenesis glycoprotein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.1   2.1     0.015        10      45      93 ..      28      76 ..      17      82 .. 0.89
   2 ?    6.8   4.9    0.0096       6.6      39      95 ..      85     141 ..      78     145 .. 0.86

  Alignments for each domain:
  == domain 1  score: 6.1 bits;  conditional E-value: 0.015
                 Noelin-1 45 lekvqnlsqsievldlRtsrdlqyvrktetllktlesklkvveedrkel 93
                             +++v+nl +++ + ++ t+++    +  e+ + +l+ k+++ +++r++ 
  PHY93_10365|PHY93_10365 28 EKNVENLNEQVAQTQKSTANANSRFMALEEEMAKLTGKIEESTHNRQQE 76
                             5689*************************************99999876 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.0096
                 Noelin-1  39 rqlrqllekvqnlsqsievldlRtsrdlqyvrktetllktlesklkvveedrkelsa 95 
                              +++ +l+e  +  ++ ++ l+++ +++ +y++++ t l++l+++ ++++++  ++++
  PHY93_10365|PHY93_10365  85 ERINSLEETNKKQTEFMKALNEKVQEQSKYIEQVITSLSSLNEQKEQARKKVSQKES 141
                              67899999999*******************************998888776655554 PP

>> Tweety  Tweety
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   7.1     0.011       7.7      90     170 ..      37     131 ..      30     145 .. 0.48

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.011
                   Tweety  90 Gvlqltyslrkanhtlagikklvseteesleek.............leeeLtkleeifakrtdlletlr.lvqeqveevvqqlsel 161
                               v q  +s  +an  + ++++ + +++ ++ee+             ++e++++lee  +k+t+++++l+ +vqeq + + q +++l
  PHY93_10365|PHY93_10365  37 QVAQTQKSTANANSRFMALEEEMAKLTGKIEESthnrqqeikdaaiIKERINSLEETNKKQTEFMKALNeKVQEQSKYIEQVITSL 122
                              55666666666666666655555555555555500000000000224555555555555555555555324555555555555555 PP

                   Tweety 162 pflkkkdvs 170
                              + l++++ +
  PHY93_10365|PHY93_10365 123 SSLNEQKEQ 131
                              544443333 PP

>> Laminin_II  Laminin Domain II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.2   4.5    0.0034       2.4      37      84 ..      28      75 ..      19      89 .. 0.74
   2 ?    5.6   9.4     0.022        15      25     100 ..      89     158 ..      75     164 .. 0.68
   3 ?   -1.8   0.1       4.2   2.9e+03      73      92 ..     232     251 ..     227     254 .. 0.75

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.0034
                             XXXXXXXXXXXXXXXXXXXXXXXXXXXX--TTTTTGGGHHHHHHHHHH CS
               Laminin_II 37 nrsveetnekvkdankairdArrsvkkLeklapqLldklkelkqleea 84
                             +++ve+ ne+v + +k ++ A++    Le+++ +L  k++e  + +++
  PHY93_10365|PHY93_10365 28 EKNVENLNEQVAQTQKSTANANSRFMALEEEMAKLTGKIEESTHNRQQ 75
                             4678999*******************************7654433333 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.022
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX--TTTTTGGGHHHHHHHHHH...HHHHHHHHHHHHH CS
               Laminin_II  25 nlentkeklseinrsveetnekvkdankairdArrsvkkLeklapqLldklkelkqleeassslsdniseikelIa 100
                               le+t++k  e+    +  nekv++ +k i+++ +s + L+++ +q  +k+++ + +ee     s++   ik  Ia
  PHY93_10365|PHY93_10365  89 SLEETNKKQTEFM---KALNEKVQEQSKYIEQVITSLSSLNEQKEQARKKVSQKESREES---SSAETPTIKGAIA 158
                              3444444444444...45999999999999999999999999999999885554444444...5566666665554 PP

  == domain 3  score: -1.8 bits;  conditional E-value: 4.2
                              GGHHHHHHHHHH...HHHHH CS
               Laminin_II  73 dklkelkqleeassslsdni 92 
                              + + +lk +eea++sl + i
  PHY93_10365|PHY93_10365 232 KSFLQLKSKEEARQSLDELI 251
                              55678999999999987665 PP

>> DUF4795  Domain of unknown function (DUF4795)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.5  18.7     0.016        11       4     109 ..      40     141 ..      20     142 .. 0.84
   2 ?    0.9   5.9      0.42   2.9e+02       4      60 ..     110     166 ..     108     182 .. 0.74

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.016
                  DUF4795   4 nsaellkklqeaieklqeelekleekvkelekrledkekklealkkqieelekvkadkeeveeelaekadkeaLatkvsrdqfDea 89 
                              ++++   + ++ +  l+ee++kl +k +e  ++ +++ k+   +k+ i+ le+++++++e  ++l+ek+  +   + +  +q+ ++
  PHY93_10365|PHY93_10365  40 QTQKSTANANSRFMALEEEMAKLTGKIEESTHNRQQEIKDAAIIKERINSLEETNKKQTEFMKALNEKVQEQS--KYI--EQVITS 121
                              33444566669999******************************************************98875..333..557799 PP

                  DUF4795  90 kkeLekmleellekleeqee 109
                              ++ L+++ e++++k++++e+
  PHY93_10365|PHY93_10365 122 LSSLNEQKEQARKKVSQKES 141
                              99999999999999998885 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.42
                  DUF4795   4 nsaellkklqeaieklqeelekleekvkelekrledkekklealkkqieelekvkad 60 
                              ++++ ++++   ++ l e++e+  +kv++ e+r+e  + ++ ++k +i + ++++ +
  PHY93_10365|PHY93_10365 110 EQSKYIEQVITSLSSLNEQKEQARKKVSQKESREESSSAETPTIKGAIAKYKEKNME 166
                              455667788888888888888888888888888888888888888888888877733 PP

>> DUF948  Bacterial protein of unknown function (DUF948)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.9   8.9      0.78   5.4e+02      25      73 ..      42      90 ..       6     141 .. 0.53

  Alignments for each domain:
  == domain 1  score: 0.9 bits;  conditional E-value: 0.78
                   DUF948 25 kktldeaaatieelekqvdpilkevedllakvnelledvneklekvdpl 73
                             +k   +a+++   le+++ +++ ++e+ +++ ++  +d     e++++l
  PHY93_10365|PHY93_10365 42 QKSTANANSRFMALEEEMAKLTGKIEESTHNRQQEIKDAAIIKERINSL 90
                             3333333344444446666666666666666666333333333333332 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (268 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      4527  (0.252496); expected 358.6 (0.02)
Passed bias filter:                      847  (0.0472419); expected 358.6 (0.02)
Passed Vit filter:                       180  (0.0100396); expected 17.9 (0.001)
Passed Fwd filter:                        58  (0.00323498); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              26  [number of targets reported over threshold]
# CPU time: 1.01u 0.28s 00:00:01.29 Elapsed: 00:00:00.48
# Mc/sec: 1689.62
//
Query:       PHY93_10370|PHY93_10370  [L=530]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.2e-09   36.3  13.6    7.7e-07   29.9   0.4    3.8  3  Cytochrome_C554  Cytochrome c554 and c-prime
    1.3e-07   31.5  13.2    0.00086   19.3   1.0    2.6  2  Cytochrome_C7    Cytochrome c7 and related cytochrome c
    0.00085   19.1  16.2        0.1   12.3   6.3    2.5  3  Cytochrom_NNT    NapC/NirT cytochrome c family, N-terminal re
     0.0016   18.9  20.2       0.06   13.8   2.1    3.1  3  Cytochrom_c3_2   Cytochrome c3
     0.0065   16.2  19.8       0.22   11.3   8.9    3.2  2  Paired_CXXCH_1   Doubled CXXCH motif (Paired_CXXCH_1)
  ------ inclusion threshold ------
      0.014   15.7  11.8          4    7.8   0.1    4.4  4  Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
      0.074   13.4  19.5       0.24   11.7   4.8    3.5  4  Cytochrom_CIII   Class III cytochrome C family
      0.098   13.2  10.0        3.8    8.1   4.6    2.5  2  zf-CHY           CHY zinc finger
       0.45   10.5  19.7       0.49   10.4   0.6    4.0  4  Haem_bd          Haem-binding domain


Domain annotation for each model (and alignments):
>> Cytochrome_C554  Cytochrome c554 and c-prime
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.9   0.4   3.8e-10   7.7e-07       2      70 ..     351     404 ..     350     410 .. 0.86
   2 !    6.7   6.6    0.0069        14      13      84 .]     421     499 ..     416     499 .. 0.57
   3 ?    5.8   2.0     0.013        26      38      60 ..     481     503 ..     468     528 .. 0.69

  Alignments for each domain:
  == domain 1  score: 29.9 bits;  conditional E-value: 3.8e-10
                              HHHHTHHHHHHHTTSTGGGTTGGGSTTSSHHHHHHTT--TTS--TT-TTTGGGSBSTTTSTT---SSS- CS
          Cytochrome_C554   2 CaeCHeeqyeswkkskhakaleslkkekkaeakkkakldpakdaeeapeClkCHatgagkdkgfvlkek 70 
                              C eCH+ q e w++++h+ a+ +l + ++               +++ +C+kCH  g g++kgf+  ++
  PHY93_10370|PHY93_10370 351 CIECHKPQGEFWQGTPHSIAYTTLMNVHE---------------QNNLQCIKCHSLGLGDPKGFTAAKN 404
                              **********************9987554...............34789**************987765 PP

  == domain 2  score: 6.7 bits;  conditional E-value: 0.0069
                              HTTSTGGGTTGGGSTTSSHHHHHHTT--TT....S--TT-TTTGGGSBSTTTSTT--....-SSS--GGGBSS-HHHHH- CS
          Cytochrome_C554  13 wkkskhakaleslkkekkaeakkkakldpa....kdaeeapeClkCHatgagkdkgf....vlkektkllagVqCesCHg 84 
                              +  s+  k++++l++++ ++++kk  +  +    k+   + +Cl+CH+   +++       + +ekt++    +C +CH+
  PHY93_10370|PHY93_10370 421 YAMSSDVKSVRKLESKQIQNISKKWMVFDKmygvKNNFANVQCLNCHTQHDEHPFNSdmpqTHEEKTAQ-IKSKCLTCHT 499
                              56666777777777777666655543332223334455789******9876543322111133333333.3678*****5 PP

  == domain 3  score: 5.8 bits;  conditional E-value: 0.013
                              T--TTS--TT-TTTGGGSBSTTT CS
          Cytochrome_C554  38 kldpakdaeeapeClkCHatgag 60 
                              +++ +k+a+ +++Cl+CH++ ++
  PHY93_10370|PHY93_10370 481 QTHEEKTAQIKSKCLTCHTSEQS 503
                              345566778899******98764 PP

>> Cytochrome_C7  Cytochrome c7 and related cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.3   1.0   4.3e-07   0.00086      42      72 ..     342     389 ..     316     394 .. 0.61
   2 !   16.5   5.2   3.1e-06    0.0062      11      59 ..     456     503 ..     441     528 .. 0.69

  Alignments for each domain:
  == domain 1  score: 19.3 bits;  conditional E-value: 4.3e-07
            Cytochrome_C7  42 kaeves.ltCgaCHdgknaf................svakkaeCakCH 72 
                               ++ ++ ++C++CH+ + +f                +++++ +C kCH
  PHY93_10370|PHY93_10370 342 IKKYRTaVSCIECHKPQGEFwqgtphsiayttlmnvHEQNNLQCIKCH 389
                              333444444777777777777777777777777777556677777777 PP

  == domain 2  score: 16.5 bits;  conditional E-value: 3.1e-06
            Cytochrome_C7  11 a..tgykCtdCHsklfeska.kkkmaemekgkskkaeves.ltCgaCHdgkna 59 
                              +  ++ +C +CH++  +++  +++m +++++k      ++  +C +CH++++ 
  PHY93_10370|PHY93_10370 456 NnfANVQCLNCHTQH-DEHPfNSDMPQTHEEKT----AQIkSKCLTCHTSEQS 503
                              3445789*****998.33333344666554444....444477*****99876 PP

>> Cytochrom_NNT  NapC/NirT cytochrome c family, N-terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.1   1.7   0.00012      0.24     106     165 ..     328     390 ..     311     394 .. 0.70
   2 !   11.7   7.3   7.7e-05      0.15      95     165 ..     423     499 ..     396     502 .. 0.60
   3 !   12.3   6.3   5.2e-05       0.1      36      90 ..     460     516 ..     437     527 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00012
            Cytochrom_NNT 106 eakrlelaerewarmka.ndsreCrnCHsee.amdlekqkkkaakahkkaaeeek.tCidCHk 165
                              e+ r+ ++++  a +k+      C +CH+ + +    + ++ a ++  ++ e+++ +Ci CH 
  PHY93_10370|PHY93_10370 328 EQSRMGMETSPNAPIKKyRTAVSCIECHKPQgEFWQGTPHSIAYTTLMNVHEQNNlQCIKCHS 390
                              55677777776666655155679******996555555666666666666655555******6 PP

  == domain 2  score: 11.7 bits;  conditional E-value: 7.7e-05
            Cytochrom_NNT  95 lvgkidtkekfeakrlelaerewarmkan.......dsreCrnCHseeamdlekqkkkaakahkkaaeeektCidCHk 165
                              ++ ++++  k+e+k+ +  +++w+ + +         + +C nCH++++ +   ++++ +++ +k+a+ +++C+ CH+
  PHY93_10370|PHY93_10370 423 MSSDVKSVRKLESKQIQNISKKWMVFDKMygvknnfANVQCLNCHTQHDEHP-FNSDMPQTHEEKTAQIKSKCLTCHT 499
                              3466777778888888888888776544311111114679*****9984333.2333334444455566779****97 PP

  == domain 3  score: 12.3 bits;  conditional E-value: 5.2e-05
            Cytochrom_NNT  36 eeFCvsCHemedn..veeykesiHysnrsgvraeCsdCHvPkelvkklarkiqaske 90 
                              +  C++CH+ +d+  +++   ++H + +  ++ +C  CH  +++ + + + ++ ++e
  PHY93_10370|PHY93_10370 460 NVQCLNCHTQHDEhpFNSDMPQTHEEKTAQIKSKCLTCHTSEQSPEWYGKDLKTVNE 516
                              445999998776656888888999999999999999999998887777777775555 PP

>> Cytochrom_c3_2  Cytochrome c3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.8   2.1     3e-05      0.06      24      66 ..     346     390 ..     317     393 .. 0.76
   2 !    8.5   1.0    0.0013       2.7      53      71 ..     455     473 ..     430     480 .. 0.73
   3 !   10.0   9.1   0.00047      0.94      22      70 ..     456     503 ..     447     513 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 3e-05
                              HHHHHHHHHH--HHHCHTTSST..TSSBTTSSC.TSSS-GGGTS- CS
           Cytochrom_c3_2  24 veeekClsCHgkleelakktkea.keanphksh.ekeleCteCHk 66 
                               ++ +C++CH+ + e+ + t ++ + ++  + h +++l+C +CH+
  PHY93_10370|PHY93_10370 346 RTAVSCIECHKPQGEFWQGTPHSiAYTTLMNVHeQNNLQCIKCHS 390
                              45567******99998886655535556666663699*******7 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.0013
                              SSCTSSS-GGGTS-TTTSB CS
           Cytochrom_c3_2  53 kshekeleCteCHkeHkks 71 
                              k++  +++C +CH++H+++
  PHY93_10370|PHY93_10370 455 KNNFANVQCLNCHTQHDEH 473
                              4455788999999999875 PP

  == domain 3  score: 10.0 bits;  conditional E-value: 0.00047
                              THHHHHHHHHHH--HHHCHTTSST.TSSBTTSSCTSSS-GGGTS-TTTS CS
           Cytochrom_c3_2  22 kaveeekClsCHgkleelakktkeakeanphkshekeleCteCHkeHkk 70 
                              ++  + +Cl+CH + +e+  +++   +++++k+ + + +C +CH++ ++
  PHY93_10370|PHY93_10370 456 NNFANVQCLNCHTQHDEHPFNSDM-PQTHEEKTAQIKSKCLTCHTSEQS 503
                              567788999999999998877774.666666777788899999987654 PP

>> Paired_CXXCH_1  Doubled CXXCH motif (Paired_CXXCH_1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.6   3.3   0.00077       1.5       8      38 ..     350     390 ..     340     393 .. 0.71
   2 !   11.3   8.9   0.00011      0.22       4      40 ..     458     501 ..     456     503 .. 0.78

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.00077
           Paired_CXXCH_1   8 eClsCH.........nphgsdnpkll.kkakgaalCysCHd 38 
                              +C  CH          ph+ ++  l+ + ++++  C +CH+
  PHY93_10370|PHY93_10370 350 SCIECHkpqgefwqgTPHSIAYTTLMnVHEQNNLQCIKCHS 390
                              5*****55555555555555555555777888888*****6 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 0.00011
           Paired_CXXCH_1   4 vaegeClsCHnphgsd..npkll......kkakgaalCysCHdek 40 
                              +a+ +Cl+CH  h ++  n   +      k+a+ +  C++CH+++
  PHY93_10370|PHY93_10370 458 FANVQCLNCHTQHDEHpfNSD-MpqtheeKTAQIKSKCLTCHTSE 501
                              56678*****99999433333.369999999***********986 PP

>> Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.3     0.046        92      12      22 ..     349     359 ..     339     373 .. 0.77
   2 ?    6.6   0.0    0.0048       9.6      11      42 ..     382     418 ..     370     443 .. 0.57
   3 ?    2.6   1.1     0.084   1.7e+02      10      22 ..     458     471 ..     453     489 .. 0.68
   4 ?    7.8   0.1     0.002         4       9      34 ..     489     513 ..     481     527 .. 0.70

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.046
          Cytochrome_CBB3  12 knCasCHgkgg 22 
                               +C  CH+++g
  PHY93_10370|PHY93_10370 349 VSCIECHKPQG 359
                              39*****9554 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.0048
          Cytochrome_CBB3  11 kknCasCHgkggagpsla.....grdwepdalvdiik 42 
                              + +C  CH  g + p+ +        ++++ + d+ +
  PHY93_10370|PHY93_10370 382 NLQCIKCHSLGLGDPKGFtaaknMVSFKAKPIIDYWN 418
                              449*****96655555552221122444444555444 PP

  == domain 3  score: 2.6 bits;  conditional E-value: 0.084
          Cytochrome_CBB3  10 ykk.nCasCHgkgg 22 
                              +++ +C  CH+++ 
  PHY93_10370|PHY93_10370 458 FANvQCLNCHTQHD 471
                              55559*****9443 PP

  == domain 4  score: 7.8 bits;  conditional E-value: 0.002
          Cytochrome_CBB3   9 lykknCasCHgkggagpslagrdwep 34 
                                k++C +CH+   + p++ g+d+++
  PHY93_10370|PHY93_10370 489 QIKSKCLTCHT-SEQSPEWYGKDLKT 513
                              56889******.67889998887774 PP

>> Cytochrom_CIII  Class III cytochrome C family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.1         2     4e+03       9      31 ..      31      53 ..      24      59 .. 0.62
   2 ?    6.0   4.3    0.0075        15      45      83 ..     346     389 ..     316     389 .. 0.70
   3 ?    8.3   3.5    0.0014       2.8      45      84 ..     346     390 ..     339     405 .. 0.71
   4 ?   11.7   4.8   0.00012      0.24      46      88 ..     459     503 ..     436     528 .. 0.79

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 2
                             SSTCCTCTSSSEEEEEHHHHTTS CS
           Cytochrom_CIII  9 pkeakkletkkavefnHkaHaev 31
                              k++++++++ a++f+H+   e+
  PHY93_10370|PHY93_10370 31 SKKKSATPKNLAIVFSHNLSGET 53
                             33333447899999999865554 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.0075
                              CSTS-CTCTS-SSS......TTTSTTCHHHHHHCSSTTTCHHHHH CS
           Cytochrom_CIII  45 eeiekcstcHaeek......ekkekkslekavHkkkaaksCvgCH 83 
                              ++  +c +cH+ +        ++   ++   vH++++  +C++CH
  PHY93_10370|PHY93_10370 346 RTAVSCIECHKPQGefwqgtPHSIAYTTLMNVHEQNNL-QCIKCH 389
                              55677888888777675432222223335566776666.888888 PP

  == domain 3  score: 8.3 bits;  conditional E-value: 0.0014
                              CSTS-CTCTS-SSS......TTTSTTCHHHHHHCSSTTTCHHHHHH CS
           Cytochrom_CIII  45 eeiekcstcHaeek......ekkekkslekavHkkkaaksCvgCHk 84 
                              ++  +c +cH+ +        ++   ++   vH++++  +C++CH+
  PHY93_10370|PHY93_10370 346 RTAVSCIECHKPQGefwqgtPHSIAYTTLMNVHEQNNL-QCIKCHS 390
                              56778999999988786543233333335667997777.9*****7 PP

  == domain 4  score: 11.7 bits;  conditional E-value: 0.00012
                              STS-CTCTS-SSSTTTSTTCHHHHHHCSSTT...TCHHHHHHHHHH CS
           Cytochrom_CIII  46 eiekcstcHaeekekkekkslekavHkkkaa...ksCvgCHkkkkk 88 
                              +  +c +cH+++ +++  +s +   H++k+a   ++C+ CH+++++
  PHY93_10370|PHY93_10370 459 ANVQCLNCHTQH-DEHPFNSDMPQTHEEKTAqikSKCLTCHTSEQS 503
                              4568999***99.55555666677788777668789*****99874 PP

>> zf-CHY  CHY zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   0.2     0.003       5.9      17      62 ..     346     390 ..     339     408 .. 0.60
   2 ?    8.1   4.6    0.0019       3.8      21      63 ..     462     500 ..     454     529 .. 0.70

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.003
                   zf-CHY  17 kklyaCreCH.........eeledhelerlevkevlcllCeteqekavlCkkCkk 62 
                              +++ +C eCH         +    h++          +l + +++++ +C kC++
  PHY93_10370|PHY93_10370 346 RTAVSCIECHkpqgefwqgT---PHSIA-------YTTLMNVHEQNNLQCIKCHS 390
                              56779*****5544332220...22222.......22333344456777888864 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.0019
                   zf-CHY  21 aCreCHeeledhelerlevkevlcllCeteqekavlCkkCkke 63 
                              +C +CH+++ +h+++    ++      e++ +++++C +C+++
  PHY93_10370|PHY93_10370 462 QCLNCHTQHDEHPFNSDMPQTH----EEKTAQIKSKCLTCHTS 500
                              7*****9999999876544432....24444667778888762 PP

>> Haem_bd  Haem-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.3     0.062   1.2e+02      15      51 ..     320     360 ..     311     381 .. 0.78
   2 ?   -0.8   1.0      0.68   1.4e+03      37      47 ..     380     390 ..     363     393 .. 0.76
   3 ?    9.6   1.1   0.00041      0.82      29      59 ..     449     480 ..     426     486 .. 0.77
   4 ?   10.4   0.6   0.00024      0.49      31      57 ..     483     509 ..     478     521 .. 0.84

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.062
                  Haem_bd  15 een...ltaeadvkaelkapkevkkiL.eksCydCHsnete 51 
                              + n   l++++ +  e++ ++ +kk     sC +CH ++ e
  PHY93_10370|PHY93_10370 320 QMNiiqLQEQSRMGMETSPNAPIKKYRtAVSCIECHKPQGE 360
                              444555677788888888999999999899******88765 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 0.68
                  Haem_bd  37 iLeksCydCHs 47 
                                + +C +CHs
  PHY93_10370|PHY93_10370 380 QNNLQCIKCHS 390
                              55668*****9 PP

  == domain 3  score: 9.6 bits;  conditional E-value: 0.00041
                  Haem_bd  29 kapkevkkiL.eksCydCHsnetelpwYakia 59 
                              ++   vk+ + + +C +CH+++ e p+ + ++
  PHY93_10370|PHY93_10370 449 DKMYGVKNNFaNVQCLNCHTQHDEHPFNSDMP 480
                              4556688888899**************99887 PP

  == domain 4  score: 10.4 bits;  conditional E-value: 0.00024
                  Haem_bd  31 pkevkkiLeksCydCHsnetelpwYak 57 
                              ++e  + ++++C  CH++e    wY k
  PHY93_10370|PHY93_10370 483 HEEKTAQIKSKCLTCHTSEQSPEWYGK 509
                              56667789*****************75 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (530 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       896  (0.0499749); expected 358.6 (0.02)
Passed bias filter:                      527  (0.0293937); expected 358.6 (0.02)
Passed Vit filter:                        55  (0.00306766); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.64u 0.24s 00:00:00.88 Elapsed: 00:00:00.40
# Mc/sec: 3949.55
//
Query:       PHY93_10375|PHY93_10375  [L=185]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.02   15.0   0.0      0.037   14.1   0.0    1.5  1  TAN       Telomere-length maintenance and DNA damage repair


Domain annotation for each model (and alignments):
>> TAN  Telomere-length maintenance and DNA damage repair
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   2.1e-06     0.037       4      46 ..     142     183 ..     139     185 .] 0.83

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 2.1e-06
                      TAN   4 alrlLssskikeRnkaldeLkhllsskrnktslsdlkdkawhe 46 
                              a+ +Ls+s+ikeR+k ++e+k++ ++k+ +ts+ + ++k++he
  PHY93_10375|PHY93_10375 142 AVGALSASQIKERSKNIKEIKNMSQQKNGTTSI-TAPPKKIHE 183
                              6789*******************9999886655.677777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (185 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       763  (0.0425568); expected 358.6 (0.02)
Passed bias filter:                      406  (0.0226449); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1363.47
//
Query:       PHY93_10380|PHY93_10380  [L=557]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    0.00072   19.8   1.5      0.027   14.7   0.1    2.9  2  CarboxypepD_reg  Carboxypeptidase regulatory-like domain
  ------ inclusion threshold ------
      0.028   14.6   1.2       0.33   11.2   0.1    2.8  2  SdrD_B           SdrD B-like domain


Domain annotation for each model (and alignments):
>> CarboxypepD_reg  Carboxypeptidase regulatory-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.1     3e-06     0.027      11      60 ..      68     118 ..      57     137 .. 0.80
   2 ?    2.9   0.1     0.015   1.3e+02      49      79 ..     507     536 ..     497     538 .. 0.79

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 3e-06
          CarboxypepD_reg  11 gapiagatVtvtna.dtgtvastttdadGafrlrglppgtysvtvsapGya 60 
                               +p+ ++ V++ na d+++v+st + ++Ga+ ++  +  ++++++ a+   
  PHY93_10380|PHY93_10380  68 QKPMRNVFVELLNAaDDSVVSSTSSSDSGAYDFAITASANIKLRIYAEMKS 118
                              68*********9953778899************97777*****99766544 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.015
          CarboxypepD_reg  49 tysvtvsapGyatatreevtltagqtttldi 79 
                               y+ + sa+ + +++++ +  tagq+ t+++
  PHY93_10380|PHY93_10380 507 HYEHRTSAAAFGPFNYS-FPTTAGQEYTVNV 536
                              4566679********96.**********997 PP

>> SdrD_B  SdrD B-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.1   3.7e-05      0.33      22      66 ..      69     114 ..      61     148 .. 0.77
   2 ?    0.9   0.1     0.057   5.1e+02      49      71 ..     521     543 ..     499     548 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 3.7e-05
                   SdrD_B  22 kgisgvtVtLkdakgevv.atttTdasGkYkFtnltpGeYkVefta 66 
                              k +++v V+L +a++++v ++t ++ sG+Y F   ++ + k+++ a
  PHY93_10380|PHY93_10380  69 KPMRNVFVELLNAADDSVvSSTSSSDSGAYDFAITASANIKLRIYA 114
                              667899****8888777758999999******99988887666644 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.057
                   SdrD_B  49 kYkFtnltpGeYkVeftapagyt 71 
                              +Y+F   +  eY+V++ + +++ 
  PHY93_10380|PHY93_10380 521 NYSFPTTAGQEYTVNVLTAQDVI 543
                              69999988889*****9987765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (557 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       383  (0.021362); expected 358.6 (0.02)
Passed bias filter:                      261  (0.0145574); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.38
# Mc/sec: 4348.82
//
Query:       PHY93_10385|PHY93_10385  [L=271]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.4e-15   56.0   0.0    7.3e-08   32.0   0.0    2.1  2  Hydrolase_4    Serine aminopeptidase, S33
    5.7e-08   32.7   0.0    0.00022   21.0   0.0    2.2  2  Abhydrolase_1  alpha/beta hydrolase fold
      4e-06   27.6   0.0    0.00012   22.7   0.0    2.0  2  Abhydrolase_6  Alpha/beta hydrolase family


Domain annotation for each model (and alignments):
>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.0   0.0   1.2e-11   7.3e-08       2     115 ..      66     180 ..      65     196 .. 0.75
   2 !   22.6   0.0   8.9e-09   5.3e-05     181     232 ..     198     249 ..     184     253 .. 0.88

  Alignments for each domain:
  == domain 1  score: 32.0 bits;  conditional E-value: 1.2e-11
              Hydrolase_4   2 epkavvvlvHGlaehsgryaelaeaLaaqGfavyalDhrGhGrsegkrghvpsfddyvdDlaafvekvkeehpel...plfllGhS 84 
                              +p+ +v+++HG a+  +       ++ ++  +v+++D+rG+G seg        + +++D  +f++ + ++ +     +++++ +S
  PHY93_10385|PHY93_10385  66 NPENLVLMFHGNAQNLSSHVFNLTWMLDKKTDVLIFDYRGYGLSEGTPY----PKGVLEDGIKFLQLAYDKFKVGnykRFIIYTQS 147
                              68999********99999999999999******************9999....55566666666655554433222337999**** PP

              Hydrolase_4  85 mGGliallyllrypd..kvaglilsaPalkika 115
                              +GG+ia+++l++ p   +++ l+l +++ +++ 
  PHY93_10385|PHY93_10385 148 LGGTIAMRALEEVPWrnDISLLVLDSTFRSPQD 180
                              **********77665448888888888876663 PP

  == domain 2  score: 22.6 bits;  conditional E-value: 8.9e-09
              Hydrolase_4 181 krleeraakitlPllllhGeaDkvvdpeasrelyerlgskdktlklypglyH 232
                               ++ ++ +++t+Pll++h+ +D+v++ +   el+ +++s++kt+  ++ +yH
  PHY93_10385|PHY93_10385 198 YTADRELTHLTMPLLVIHAPNDPVIPFKFGLELFTKAPSTKKTFWKIEDGYH 249
                              567788999******************************************* PP

>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.0   0.0   3.6e-08   0.00022       1     107 [.      69     177 ..      69     193 .. 0.74
   2 !   10.7   0.0   4.9e-05      0.29     181     254 ..     184     253 ..     172     255 .. 0.75

  Alignments for each domain:
  == domain 1  score: 21.0 bits;  conditional E-value: 3.6e-08
                              SEEEEE-STTT..CGGGGTTGHHHHHHHHTTSEEEEEEETTSTTSSSTTTGB.CHHSHHHHHHHHHHH...HHHCTT...SSEEEE CS
            Abhydrolase_1   1 pvlvilhGlpg..ssdvwaerglapaLakdgfdvillDlrGvgySspapacinddygtasvaddldri...ldalgd...dkltlv 78 
                              ++++++hG +   ss+v +++ ++  L+k + dv+++D rG+g S+  p      y+   ++d ++++    d++++   +++++ 
  PHY93_10385|PHY93_10385  69 NLVLMFHGNAQnlSSHV-FNLTWM--LDK-KTDVLIFDYRGYGLSEGTP------YPKGVLEDGIKFLqlaYDKFKVgnyKRFIIY 144
                              6799*******666665.664555..888.*****************99......5666677777744224555544222677899 PP

                              EETHHHHHHHHHHHHH..GGGEEEEEEESE..C CS
            Abhydrolase_1  79 GhSmGGmialayaaey..perVkalvllga..i 107
                               +S+GG+ia+ +++e    + ++ lvl+++  +
  PHY93_10385|PHY93_10385 145 TQSLGGTIAMRALEEVpwRNDISLLVLDSTfrS 177
                              99**************88888999999999331 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 4.9e-05
                              HHHHHHHHHHHHHHCCHHHHHHHHHCTHHHHSEEEEEEETTCSSSCH.HHHHHHHHC.HTSEEEEEEETCSSSHHH CS
            Abhydrolase_1 181 latgalksieqwpttdsaklllrlrelknvlaptlvisgtsDplvpp.kaledlaql.lpkkrlvvisdagHlafl 254
                              ++t +l+++   +++  +  l  l +      p lvi++ +Dp++p    le ++++   kk+ ++i+d++H +++
  PHY93_10385|PHY93_10385 184 SKTHGLLWWLVSSEYTADRELTHLTM------PLLVIHAPNDPVIPFkFGLELFTKApSTKKTFWKIEDGYHGDVF 253
                              44445556666666666666666666......***********************997455799999999997776 PP

>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.7   0.0     2e-08   0.00012       1      99 [.      71     174 ..      70     196 .. 0.70
   2 ?    2.6   0.0     0.031   1.8e+02     161     208 ..     199     252 ..     178     262 .. 0.68

  Alignments for each domain:
  == domain 1  score: 22.7 bits;  conditional E-value: 2e-08
                              EEEE--GC.......GCHHHHHHHHCCTCEEEEE--TTSTS-GGCS--HHHCHHHHHHHCCTT.......TTSEEEEEETCHHHHH CS
            Abhydrolase_6   1 vlllHGagss..assWlvapLaallaagvhvlapDlpGhGrsdpppldledladlaalldelaa.....gggpvvlvGHSlGGala 79 
                              vl+ HG   +  ++++   +L   l +   vl++D++G+G s++ p+    l+d   +l+   +     +++++++   SlGG++a
  PHY93_10385|PHY93_10385  71 VLMFHGNAQNlsSHVF---NLTWMLDKKTDVLIFDYRGYGLSEGTPYPKGVLEDGIKFLQLAYDkfkvgNYKRFIIYTQSLGGTIA 153
                              5677997755546777...5544556665569********7777777776677777777777666777999999************ PP

                              HHHHHCC.........EE.EEES-..-- CS
            Abhydrolase_6  80 laaapla.......lvvg.vlldpppta 99 
                              ++   ++       + ++ ++ld+   +
  PHY93_10385|PHY93_10385 154 MR---ALeevpwrnD-ISlLVLDS---T 174
                              **...4444478743.33477776...4 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.031
                              TTCCHHTT-TTGCEEE.CTT-CHHH.....HCHHCCCHSTTEEETCE...SSS..- CS
            Abhydrolase_6 161 lpaaawadlpvpllvl.ggeDplvp.....rllerllaqagarlpvvlpgaGH..l 208
                               + +++++l++pllv+ + +Dp++p     +l+ ++   +++++ + ++++ H  +
  PHY93_10385|PHY93_10385 199 TADRELTHLTMPLLVIhAPNDPVIPfkfglELFTKAPS-TKKTF-WKIEDGYHgdV 252
                              345688889999988867****9994444444444444.77777.88999888643 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (271 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       306  (0.0170673); expected 358.6 (0.02)
Passed bias filter:                      266  (0.0148363); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.45u 0.26s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 1990.72
//
Query:       PHY93_10390|PHY93_10390  [L=606]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.8e-44  150.3   0.1    7.6e-44  149.3   0.1    1.6  1  DUF4105   Domain of unknown function (DUF4105)


Domain annotation for each model (and alignments):
>> DUF4105  Domain of unknown function (DUF4105)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  149.3   0.1   4.2e-48   7.6e-44       1     167 [.     104     273 ..     104     276 .. 0.92

  Alignments for each domain:
  == domain 1  score: 149.3 bits;  conditional E-value: 4.2e-48
                  DUF4105   1 pefewwtrtldldslslvlfasaylnnpaSmfGHtlLrfgfkdgeed...ravnysaevrkeenelfyalkglfggyegsfvvapy 83 
                              pef++w++ l++d ++l+ f+s+y nnp+S+fGHtl+r+++k++++d   +av++sa  +ke+ ++++a+kg+fggy+g + v++y
  PHY93_10390|PHY93_10390 104 PEFDEWKNGLNADFITLI-FSSSYPNNPSSLFGHTLIRLNQKNKSSDlldYAVAFSAIPEKEDPGVVFAFKGMFGGYKGLLEVTKY 188
                              689***************.*************************999*************************************** PP

                  DUF4105  84 rdkireytnvekrdvweyrLnltpeevrallahiwelk.nkpfdYyflteNCatrllelldaarpgllllsefelwvlPldtvrl 167
                              + k++ey+n e+rd+ ey++ +tp+e+++l++h+we+   ++fdYyf +eNC+  l+++l +  + ++   +++ + lP++ +++
  PHY93_10390|PHY93_10390 189 YTKVNEYNNGESRDLIEYDILMTPDELDRLINHLWEIYqTTYFDYYFADENCSAVLVDILAVPFNLDDVNTHQRWYYLPSEMIKA 273
                              ************************************9978899****************88665544444455566788887776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (606 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       505  (0.0281667); expected 358.6 (0.02)
Passed bias filter:                      362  (0.0201908); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.58u 0.23s 00:00:00.81 Elapsed: 00:00:00.40
# Mc/sec: 4587.13
//
Query:       PHY93_10395|PHY93_10395  [L=155]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.8e-34  118.6   3.8    2.3e-34  118.3   3.8    1.0  1  DUF3015   Protein of unknown function (DUF3015)


Domain annotation for each model (and alignments):
>> DUF3015  Protein of unknown function (DUF3015)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  118.3   3.8   1.3e-38   2.3e-34       4     142 .]      20     154 ..      18     154 .. 0.96

  Alignments for each domain:
  == domain 1  score: 118.3 bits;  conditional E-value: 1.3e-38
                  DUF3015   4 adggagCGlGsmvfkkksglasqvlaattNgtsgnqTfGitsGTsgCttdgivkaekksevfvesnleeLaediakGeGealaala 89 
                              ad+++gCG+G+ v  k+ +l+s+  ++ +N+t+ ++T+++t GTsgC+ ++ivk+++k  +f+e+n+++La ++a+G+Ge ++++a
  PHY93_10395|PHY93_10395  20 ADSSSGCGMGWEVAPKQ-SLISSSTRSLVNATF-SSTIAMTLGTSGCARHSIVKNDAKGIHFAEANMNQLAIEMARGNGEFVTSFA 103
                              7899********87777.7777**********9.89************************************************** PP

                  DUF3015  90 vllgveaedraafkavlqenfsslfaseevtseevlkaikevlkkdkeLakyv 142
                              +++g++++  + f++++q n++++++se+++  e+++++k+++k++++La ++
  PHY93_10395|PHY93_10395 104 SVFGCQNS--RVFGSMVQANYETVLPSEKTSGVELYNNVKAQIKNNATLASTC 154
                              *******9..7**************************************9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (155 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       503  (0.0280551); expected 358.6 (0.02)
Passed bias filter:                      324  (0.0180713); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.19s 00:00:00.58 Elapsed: 00:00:00.34
# Mc/sec: 1352.07
//
Query:       PHY93_10400|PHY93_10400  [L=353]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    7.9e-79  265.1   0.0    1.2e-78  264.6   0.0    1.3  1  Peptidase_M22  Glycoprotease family


Domain annotation for each model (and alignments):
>> Peptidase_M22  Glycoprotease family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  264.6   0.0   6.7e-83   1.2e-78       2     270 ..      34     316 ..      33     317 .. 0.93

  Alignments for each domain:
  == domain 1  score: 264.6 bits;  conditional E-value: 6.7e-83
                              CEXEEEEEEEEE....SSSSHHHHHHHHHHHHHHHHHHHHHHHTSTGGGEEEEEEEEESS-HHHHHHHHHHHHHHHHHCT--EEEE CS
            Peptidase_M22   2 vlanvvasqkelhakyGGvvPelasraHserllplieealaeaglsledldaIavtkgPGlftgLrvGvsfAkglalalnkPlvgV 87 
                              +la+   sq+ +++k GGvvPe+a+r+H e+l+p++e+al+ea+++++d+d +avt+ PGl ++L+ G+++Ak++al +++P+ +V
  PHY93_10400|PHY93_10400  34 LLAHQSFSQELILQKWGGVVPEIAARNHLEKLTPILEAALQEANVKISDIDLVAVTTNPGLLGPLLTGINCAKTIALLHELPIAAV 119
                              58899999*999************************************************************************** PP

                              EHHHHHHHCCHCTSECSSC.EEEEESSSTEEEEEECT.TEEEEEEEESSSEHHHHHHHHHHHHT..SSCCHHHHHHHCTC..S... CS
            Peptidase_M22  88 nhleahalaarleekeefP.vvllvsGghtqvylvke.gryeilgetlddaagealdkvarllglpypggpkieklakeg..kkie 169
                              nhl ah++a +l++   +P ++llvsGgh+  +lv++ +++e+lg+++ddaagea+dk ++llgl+yp+g+ i++ a  g  kk++
  PHY93_10400|PHY93_10400 120 NHLYAHVEAIHLTDSVPYPyLALLVSGGHSIYFLVRApNEFEVLGNSIDDAAGEAFDKGGKLLGLGYPAGKIIDEKAVLGdfKKYK 205
                              ************966699***********************************************************9998899** PP

                              ....EET...TEEE.CHHHHHHHHHHST..T....HHHHHHHHHHHHHHHHHHHHHHHHHH......CTBSEEEEESGGGGXHHHH CS
            Peptidase_M22 170 fprplkg...ldfsfsGlktavlkelek..e....vedlaasfqeavvdhlvekteralkl......pkakelvilGGvaankrLr 240
                              fp  + +   + +sfsG kt++++ +e+  +    +ed++as q a+v+ l +k++ al+       ++   +v++GGva+n++Lr
  PHY93_10400|PHY93_10400 206 FPISMLDsgdATLSFSGVKTSLRNFIEDhpDknflIEDVCASYQYAIVEALSRKLQVALDIafkqcgYDL-PIVVGGGVASNSALR 290
                              **********99**************55442689**********************99888887543333.469999********* PP

                              HCHCCHHHHTTSEEEXXXHHHHSSXCHHHH CS
            Peptidase_M22 241 ealeeeaeelglkliiPplkyctdnaamia 270
                              ++l++     ++++++P+  yctdn+amia
  PHY93_10400|PHY93_10400 291 NTLNKNF--SNVHFVAPK--YCTDNGAMIA 316
                              *998644..457899999..*********8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (353 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       317  (0.0176809); expected 358.6 (0.02)
Passed bias filter:                      309  (0.0172346); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.20s 00:00:00.66 Elapsed: 00:00:00.37
# Mc/sec: 2878.85
//
Query:       PHY93_10405|PHY93_10405  [L=267]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.7e-42  142.9   0.0    1.2e-41  142.6   0.0    1.0  1  RrnaAD    Ribosomal RNA adenine dimethylase


Domain annotation for each model (and alignments):
>> RrnaAD  Ribosomal RNA adenine dimethylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  142.6   0.0   6.5e-46   1.2e-41       5     239 ..      12     242 ..       9     266 .. 0.87

  Alignments for each domain:
  == domain 1  score: 142.6 bits;  conditional E-value: 6.5e-46
                              XXGCG--EE--HHHHHHHHHHH-GGTTSEEEEES-TTTCCHHHHHCC-SEEEEE-S-HHHHHHHHCHTTTCCCEEEE-S-CCGHHH CS
                   RrnaAD   5 rksygqnflknkkvineIldklnleekltvleigpGkGilTeeLakrakqvvvlElderLakllqkklskdeklkvvhqDflkfet 90 
                               ks+gq+fl+++++i+ I +  +      ++eigpG+GilTe+La     + v+E+d+r+   l + +  +   +v   D+l+ ++
  PHY93_10405|PHY93_10405  12 DKSLGQHFLRDQNIIQTICNDFKDL-AEAIVEIGPGPGILTEHLALLGLPYYVIEKDTRFGVYLDQ-FLAAD--QVTMDDALQIQL 93 
                              689****************987644.458***********************************99.55344..6778******** PP

                              HHHHCTTTCCCCEEEEEEE--TTTHHHHHHHHHHGGGGCEEEEEEEEEHHHHHHHH--T.TSTT-SHHHHHHHHHEEEEEEEEC-G CS
                   RrnaAD  91 peevtekdsihqeflvvanlPyeistqlvkqlleesrfglvkmllwlqkefarrllarp.gskkrsrlsvlreaftdvklvakvek 175
                               ++ +ek   ++++  v+nlPy+i t+l +  l+++ +  ++m+l++qke+a + +     + + s+l vl + +++  l+akv++
  PHY93_10405|PHY93_10405  94 SNFFEEKKISGKKIWLVSNLPYNIATPLLVNFLQAPDI--KYMTLMFQKEVADKVFPFAtTKNSMSSLLVLCQSYFECGLLAKVPP 177
                              *********************************97777..***************9743044577899999*************** PP

                              GCECS--SSSEEEEEEEE-SS-S.--S-HHHHHHHHHHHHCTTTSBCCCHCCCTSTCHHHHHCTT CS
                   RrnaAD 176 sifsPppkvdsalvelerkdedl.pqkdlkkyesvvrkllnrkrktlstslksllpggelqalss 239
                               +f Ppp+vdsa++  +r++++l p  + k +e+++r+++ ++rk++  +lks +  ++ +   +
  PHY93_10405|PHY93_10405 178 GAFAPPPRVDSAVITFTRRETPLvPLSEFKTLEKFLRQMFSQRRKQIGGVLKSYYLPEKIKESFE 242
                              ***************************************************99876666554433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (267 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       603  (0.0336327); expected 358.6 (0.02)
Passed bias filter:                      532  (0.0296726); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.37
# Mc/sec: 2160.98
//
Query:       PHY93_10410|PHY93_10410  [L=434]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0012   19.0   1.7     0.0012   19.0   1.7    2.8  2  OMP_b-brl        Outer membrane protein beta-barrel domain
  ------ inclusion threshold ------
      0.018   14.2   0.0      0.028   13.6   0.0    1.2  1  Fructosamin_kin  Fructosamine kinase


Domain annotation for each model (and alignments):
>> OMP_b-brl  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -4.2   8.0       1.8   1.6e+04      55      76 ..     107     139 ..       4     276 .. 0.52
   2 !   19.0   1.7   1.4e-07    0.0012      86     178 .]     322     434 .]     265     434 .] 0.82

  Alignments for each domain:
  == domain 1  score: -4.2 bits;  conditional E-value: 1.8
                OMP_b-brl  55 ndnvgvegglsysgdkdysgs...........g 76 
                              + ++++  g++++g+   s+            g
  PHY93_10410|PHY93_10410 107 GIHLALPIGYQHLGTLGVSVFlpignlmetnsG 139
                              222333333333333222222222222222221 PP

  == domain 2  score: 19.0 bits;  conditional E-value: 1.4e-07
                OMP_b-brl  86 svpvnagyafnlsdsvlpyggaGlgytkvevdvsgngasdsdtdfglglgaGveyala...dnwslkaeYrytdlks......... 159
                              ++  ++g+++nl d+++  +g+G+  t +++d sg   ++s +++ + l  G++y++    ++++l+ + +y  l++         
  PHY93_10410|PHY93_10410 322 TINPRVGIKLNLTDRWSAGLGLGYRMTPLKGDFSGS--GNSIDANTYILSTGLQYRIViwsKDVNLGTSLEYHELEKkhvtkssgq 405
                              48899****************************999..999999999999999998865567888888888888888889999998 PP

                OMP_b-brl 160 ..........dadndlknntfqvgvgyrF 178
                                         ++ d+  + + +++g++F
  PHY93_10410|PHY93_10410 406 edgtngpkigAGGYDIAGHVIAASFGVKF 434
                              87777777666666688899999999998 PP

>> Fructosamin_kin  Fructosamine kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   3.1e-06     0.028     188     242 ..     239     295 ..     203     303 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 3.1e-06
          Fructosamin_kin 188 psllHGdLWsgNaaltkd..gepvifdPaayygdrEvdlamtelfggfpsefyegYq 242
                               +l+ G++ + N+ + +   ++ +++dP ++   + ++l+m ++f g + +++++Y+
  PHY93_10410|PHY93_10410 239 HALVSGEITNPNLPIFESaiDSMIFYDPHTFRLGSSYELGMATVFAGVEYQLWSAYK 295
                              46777788778876544334889*********************************7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (434 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       425  (0.0237046); expected 358.6 (0.02)
Passed bias filter:                      322  (0.0179597); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.21s 00:00:00.71 Elapsed: 00:00:00.36
# Mc/sec: 3574.63
//
Query:       PHY93_16760|PHY93_16760  [L=109]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      7e-05   23.0   0.0    0.00013   22.1   0.0    1.6  1  Glutaredoxin   Glutaredoxin
  ------ inclusion threshold ------
      0.074   12.9   0.2        8.3    6.4   0.0    2.4  2  A1_Propeptide  A1 Propeptide
          1    9.1   2.9        3.6    7.3   0.9    2.2  2  Apo-CIII       Apolipoprotein CIII (Apo-CIII)


Domain annotation for each model (and alignments):
>> Glutaredoxin  Glutaredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.1   0.0   2.2e-08   0.00013      13      60 .]      50     100 ..      38     100 .. 0.88

  Alignments for each domain:
  == domain 1  score: 22.1 bits;  conditional E-value: 2.2e-08
                              HHHHHHHHHTTGGEEEEEGCCSH...HHHHHHHHHHTSSSSSEEEETTEEE CS
             Glutaredoxin  13 kkakrlLkelgvkfeeidvdkde...eireelkelsgvrtvPqvfidgkhv 60 
                              k a++ L+ +g  f++i+        ++r ++k  sg++t+Pqvf +gk+v
  PHY93_16760|PHY93_16760  50 KTARKHLEAKGKTFHYIEHGSYWskwKVRLAIKLWSGWPTFPQVFHKGKLV 100
                              568899999999999999888845789999******************987 PP

>> A1_Propeptide  A1 Propeptide
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.4   0.1    0.0056        34      12      22 ..       1      11 [.       1      12 [. 0.84
   2 ?    6.4   0.0    0.0014       8.3       9      20 ..      49      60 ..      49      61 .. 0.92

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.0056
                             HHHHHHHTT-H CS
            A1_Propeptide 12 mRetLrEkglL 22
                             mR+tL E  +L
  PHY93_16760|PHY93_16760  1 MRNTLNESQIL 11
                             9******7665 PP

  == domain 2  score: 6.4 bits;  conditional E-value: 0.0014
                             ---HHHHHHHTT CS
            A1_Propeptide  9 vKSmRetLrEkg 20
                             vK++R++L  kg
  PHY93_16760|PHY93_16760 49 VKTARKHLEAKG 60
                             7*********99 PP

>> Apo-CIII  Apolipoprotein CIII (Apo-CIII)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.1     0.025   1.5e+02      29      44 ..      26      41 ..      14      45 .. 0.84
   2 ?    7.3   0.9   0.00061       3.6      51      65 ..      70      85 ..      39      89 .. 0.64

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.025
                 Apo-CIII 29 vqesqvaqqArgWvtd 44
                             v e   a +A++Wv  
  PHY93_16760|PHY93_16760 26 VNEVRTAIEAHEWVIV 41
                             789999*******965 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.00061
                 Apo-CIII 51 dYwstfkgkfs.gfwd 65
                              Yws++k +++ ++w 
  PHY93_16760|PHY93_16760 70 SYWSKWKVRLAiKLWS 85
                             6*********988996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (109 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       452  (0.0252106); expected 358.6 (0.02)
Passed bias filter:                      360  (0.0200792); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.39u 0.21s 00:00:00.60 Elapsed: 00:00:00.38
# Mc/sec: 866.57
//
Query:       PHY93_10415|PHY93_10415  [L=148]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.2e-50  169.7   4.6    3.9e-50  169.5   4.6    1.0  1  SmpB      SmpB protein


Domain annotation for each model (and alignments):
>> SmpB  SmpB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  169.5   4.6   2.2e-54   3.9e-50       3     140 ..       8     145 ..       6     147 .. 0.98

  Alignments for each domain:
  == domain 1  score: 169.5 bits;  conditional E-value: 2.2e-54
                              E-CHHHTTSEEEEEEEEEB---HHHHHHHHH--EESSSEEEEEE.SSCEEEEESEE---S--SS----TT--EEBB--HHHHHHHH CS
                     SmpB   3 kNkkarhdYeieetyeaGivLkGtEvkslragkvnlkdsyvkik.ngelfllnvhiseyekgnifnhdpkrkrkLLlhkkeikkla 87 
                              +Nk+a++dY++ +++eaGi+L GtEvk lr+gkv l++syv i+ +ge++ +nv+i +y+ gni+nh+++r +kLLl++ ei++l 
  PHY93_10415|PHY93_10415   8 TNKRASFDYTLMDKFEAGIQLLGTEVKVLREGKVALNESYVVIDaKGEVWAYNVNIPHYAYGNINNHTEQRVKKLLLNRLEITRLY 93 
                              8******************************************989**************************************** PP

                              HHHHHHT-EEEEEEEEE.ESSEEEEEEEEEEC--SS--XXXXXXXXXXXXXXX CS
                     SmpB  88 gkveekgltlvplklyfkkkglvKveialakgkklydkretlkerdakreier 140
                              +++++++ltl+ +k+yf k++++K+e alakgkk +dkr++ ke+d++r+++r
  PHY93_10415|PHY93_10415  94 HQMKTQNLTLIVTKMYF-KDSKIKLEFALAKGKKAHDKRDAEKEKDVARKLQR 145
                              *****************.889*****************************998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (148 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       821  (0.0457917); expected 358.6 (0.02)
Passed bias filter:                      362  (0.0201908); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.38u 0.21s 00:00:00.59 Elapsed: 00:00:00.36
# Mc/sec: 1236.20
//
Query:       PHY93_10420|PHY93_10420  [L=89]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (89 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       514  (0.0286686); expected 358.6 (0.02)
Passed bias filter:                      302  (0.0168442); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.36u 0.20s 00:00:00.56 Elapsed: 00:00:00.35
# Mc/sec: 766.92
//
Query:       PHY93_10425|PHY93_10425  [L=168]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (168 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       676  (0.0377043); expected 358.6 (0.02)
Passed bias filter:                      571  (0.0318478); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.17s 00:00:00.60 Elapsed: 00:00:00.35
# Mc/sec: 1455.74
//
Query:       PHY93_10430|PHY93_10430  [L=139]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0068   16.2   8.0     0.0083   15.9   8.0    1.1  1  TIC20     Chloroplast import apparatus Tic20-like
  ------ inclusion threshold ------
       0.03   13.0   5.5      0.035   12.8   5.5    1.1  1  Ndc1_Nup  Nucleoporin protein Ndc1-Nup
      0.057   13.6   6.1      0.066   13.4   6.1    1.0  1  Arv1      Arv1-like family


Domain annotation for each model (and alignments):
>> TIC20  Chloroplast import apparatus Tic20-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   8.0   1.4e-06    0.0083      53     144 ..      33     124 ..       9     137 .. 0.79

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 1.4e-06
                    TIC20  53 yskvgyyleplleqfellqlliypilgainllksyfslvvffvlylvvVrnkelp.rylRFhvmlailLdvalqvvllesnfnPli 137
                              y ++   ++p+++  + +q  iy++l    ++  +++lv  +v+y++ Vr++++  +y+RF + +a +    +++  +     Pli
  PHY93_10430|PHY93_10430  33 YDEYLKIVKPMVDSPD-FQVQIYAVLLQSFIFSMLIFLVFHLVIYFLFVRETKYAiKYVRFYTFMAAISAGIMIFSGVIVAIIPLI 117
                              4444445777777655.8999999999999999999**************9887549*********99999999999999999999 PP

                    TIC20 138 gfklklg 144
                               + l+++
  PHY93_10430|PHY93_10430 118 IYTLSFI 124
                              9998876 PP

>> Ndc1_Nup  Nucleoporin protein Ndc1-Nup
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   5.5   5.8e-06     0.035     134     242 ..      12     119 ..       4     128 .. 0.63

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 5.8e-06
                 Ndc1_Nup 134 flllsglvlalvysllhllfdrdrlsfkssfpivqpskyl.lkr.lpsilkksl.ilslvlllvspiiyylllrsfiwslalillr 216
                               +l++++ l+++      ++++d         +++ + +  ++  ++ +l +s+ ++ l++l+++ +iy+l++r++ + + ++ + 
  PHY93_10430|PHY93_10430  12 AILCFLADLGISVWSYEKIKNYDEY----LKIVKPMVDSPdFQVqIYAVLLQSFiFSMLIFLVFHLVIYFLFVRETKYAIKYVRFY 93 
                              5566666666666666666666666....44444445555555559********88888888*************99985555555 PP

                 Ndc1_Nup 217 lfl.nlprsaapppldslpf....nlsLllr 242
                              +f+  +++       +++++     + L+++
  PHY93_10430|PHY93_10430  94 TFMaAISAGI-----MIFSGvivaIIPLIIY 119
                              5544444433.....3333332233555544 PP

>> Arv1  Arv1-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   6.1   1.1e-05     0.066      79     194 ..      10     127 ..       2     138 .. 0.70

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 1.1e-05
                     Arv1  79 rlvillllfevyltwariekksesessslsaqaivlesakelkqylff....lvlalletlvfhlsillllslesslsalllkykk 160
                              +++il+ l +  + +++ ek  ++  + l+  + ++ s +   q+  +    ++ ++l  lvfhl+i++l+  e++   + +++  
  PHY93_10430|PHY93_10430  10 QIAILCFLADLGISVWSYEKI-KNYDEYLKIVKPMVDSPDFQVQIYAVllqsFIFSMLIFLVFHLVIYFLFVRETKYAIKYVRFY- 93 
                              6889999******99999995.555566666666666666555555552444555666777888888888877666555545554. PP

                     Arv1 161 arlnalltalllssyaklfpilmlIWeydltala 194
                              + + a+++ +++ s + + +i+++I      ++ 
  PHY93_10430|PHY93_10430  94 TFMAAISAGIMIFSGVIVAIIPLIIYTLSFISVG 127
                              68899********************988755544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (139 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1265  (0.0705561); expected 358.6 (0.02)
Passed bias filter:                      412  (0.0229795); expected 358.6 (0.02)
Passed Vit filter:                        55  (0.00306766); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.38
# Mc/sec: 1093.92
//
Query:       PHY93_10435|PHY93_10435  [L=156]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
     0.0061   16.1   0.1     0.0081   15.7   0.1    1.2  1  Ycf4           Ycf4
  ------ inclusion threshold ------
      0.017   14.1   0.1      0.022   13.8   0.1    1.1  1  Emaravirus_P4  P4 movement protein of Emaravirus, and the 30K


Domain annotation for each model (and alignments):
>> Ycf4  Ycf4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.1     9e-07    0.0081      88     147 ..      61     119 ..      47     134 .. 0.92

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 9e-07
                     Ycf4  88 nefdkkegkvkifRwGfpGknrrielelpledvqavrveikeGlnprralylrvkgrrei 147
                              ++f+++e+++++  + +  ++r+++lel+ +d+  vr+ ik+Gl  +  l l+ k+ r  
  PHY93_10435|PHY93_10435  61 ENFERRESNITVNYKNLVNEDRKLSLELK-RDIDEVRITIKKGLFKNLFLKLNYKQSRFC 119
                              68*************************97.79**************99999999998865 PP

>> Emaravirus_P4  P4 movement protein of Emaravirus, and the 30K superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.1   2.5e-06     0.022      20     104 ..      60     147 ..      47     151 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 2.5e-06
            Emaravirus_P4  20 kdelesiesiteltwnsikkmnvkvkltlkaktqelpisvynelykr.ymalkqamtriasv..allwtptskrfiematlilide 102
                               +++e  es   + ++ + + + k  l lk +  e+ i++ + l+k  +++l+   +r ++v   l wt   krf +   l +id+
  PHY93_10435|PHY93_10435  60 SENFERRESNITVNYKNLVNEDRKLSLELKRDIDEVRITIKKGLFKNlFLKLNYKQSRFCEVkgHLSWTGEEKRFSKSILLYMIDH 145
                              57899999999999999999999**********************9637889888899998843599******************9 PP

            Emaravirus_P4 103 rf 104
                               f
  PHY93_10435|PHY93_10435 146 YF 147
                              88 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (156 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       804  (0.0448435); expected 358.6 (0.02)
Passed bias filter:                      447  (0.0249317); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.40u 0.20s 00:00:00.60 Elapsed: 00:00:00.35
# Mc/sec: 1320.50
//
Query:       PHY93_10440|PHY93_10440  [L=110]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0073   16.2   0.1      0.011   15.7   0.1    1.3  1  PEGA      PEGA domain
  ------ inclusion threshold ------
        0.1   13.1   1.2       0.24   12.0   1.2    1.7  1  LPAM_1    Prokaryotic membrane lipoprotein lipid attachment s


Domain annotation for each model (and alignments):
>> PEGA  PEGA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.1   1.2e-06     0.011       3      47 ..      19      66 ..      17      69 .. 0.73

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 1.2e-06
                     PEGA  3 tltirSnpeGatVyidGkylG...kTPvtlsleaGnyslrvekeGYed 47
                             t  i++n + a++y+dG+ +G    T ++  +   + s+ ++keG ed
  PHY93_10440|PHY93_10440 19 TTLITTNDKDAKIYVDGQFVGrgqYTHTDSKMIGSTTSVLLKKEGCED 66
                             6679*****************544454444444566777788887665 PP

>> LPAM_1  Prokaryotic membrane lipoprotein lipid attachment site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   1.2   2.6e-05      0.24       5      18 .]       4      17 ..       1      17 [. 0.87

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 2.6e-05
                   LPAM_1  5 llalgalllLsGCs 18
                             +l+l a+l+L++Cs
  PHY93_10440|PHY93_10440  4 VLFLIATLILASCS 17
                             58899********9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (110 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       401  (0.022366); expected 358.6 (0.02)
Passed bias filter:                      339  (0.0189079); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.39u 0.23s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 837.10
//
Query:       PHY93_10445|PHY93_10445  [L=132]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.4e-07   28.6   0.3    1.5e-06   28.0   0.3    1.3  1  YidD      Putative membrane protein insertion efficiency fact


Domain annotation for each model (and alignments):
>> YidD  Putative membrane protein insertion efficiency factor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.0   0.3   8.3e-11   1.5e-06       4      52 ..      54     103 ..      51     105 .. 0.89

  Alignments for each domain:
  == domain 1  score: 28.0 bits;  conditional E-value: 8.3e-11
                     YidD   4 lialirlYqkvispll.ksCrfyptCSeYaleaiekyGllkGlllalkRi 52 
                               i+ + +Yq ++sp+l ++C +ypt S Ya   ++k  +   +l ++ R 
  PHY93_10445|PHY93_10445  54 EIGSLSFYQAFLSPVLnSTCHHYPTDSRYARLLFSKCSWSTSILKTTSRY 103
                              578899********6669*******************9999999999985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (132 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       585  (0.0326287); expected 358.6 (0.02)
Passed bias filter:                      420  (0.0234257); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 958.46
//
Query:       PHY93_10450|PHY93_10450  [L=223]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.019   15.3   1.9       0.06   13.7   0.1    2.5  2  TM2       TM2 domain


Domain annotation for each model (and alignments):
>> TM2  TM2 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.1   3.3e-06      0.06       3      44 ..     124     162 ..     122     168 .. 0.84
   2 ?   -0.3   0.1     0.078   1.4e+03      30      42 ..     179     191 ..     176     194 .. 0.74

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 3.3e-06
                      TM2   3 ksklvaylLwffLGglGvHRFYlGktgsGvlqlltfvGglgi 44 
                              ks ++a+l + +  + G+ + YlG ++s+ + + ++  ++gi
  PHY93_10450|PHY93_10450 124 KSPGIAALYSMI--FPGAGHVYLGAYQSAAIVFAFN-LLTGI 162
                              999******996..88************99999999.45555 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.078
                      TM2  30 sGvlqlltfvGgl 42 
                              sGvl+ +++vGg+
  PHY93_10450|PHY93_10450 179 SGVLFSIFYVGGI 191
                              7888888888654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (223 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       414  (0.0230911); expected 358.6 (0.02)
Passed bias filter:                      310  (0.0172904); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.37
# Mc/sec: 1820.74
//
Query:       PHY93_10455|PHY93_10455  [L=262]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.7e-05   25.0   0.1    5.5e-05   23.4   0.0    1.9  2  Acetyltransf_1   Acetyltransferase (GNAT) family
  ------ inclusion threshold ------
      0.013   15.5   0.0      0.024   14.6   0.0    1.5  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
      0.013   15.9   0.0      0.026   15.0   0.0    1.6  1  Acetyltransf_7   Acetyltransferase (GNAT) domain
      0.043   12.9   0.0      0.078   12.1   0.0    1.4  2  BLM_N            N-terminal region of Bloom syndrome protein
      0.093   12.8   0.0       0.26   11.4   0.0    1.8  1  Acetyltransf_9   Acetyltransferase (GNAT) domain


Domain annotation for each model (and alignments):
>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.4   0.0   1.5e-08   5.5e-05      23      85 ..      37     103 ..      16     136 .. 0.75
   2 ?   -1.5   0.0       0.8   2.9e+03      14      48 ..     125     161 ..     111     180 .. 0.57

  Alignments for each domain:
  == domain 1  score: 23.4 bits;  conditional E-value: 1.5e-08
                              H.....HHHHHHSTTCEEEEEEETTEEEEEEEEEEEETTSTTEEEEEEEEESGGGTTSSHHHHHHHHH CS
           Acetyltransf_1  23 e.....feesfsleaegllvaeedgeliGfisllkipdekggvayieslaVspeyrgkGlGsaLleal 85 
                              +     f+ + +l +++++v+  ++e+++ + + ++    ++v y+++l V+p+y++k +  + l ++
  PHY93_10455|PHY93_10455  37 DhgkdyFAFFDRLGESHYFVCTINNEVVAVAAGIIRKV-PKRVFYLCDLKVHPKYQRKRIPLKILSHA 103
                              2444435555667777******************9999.79*****************9866555555 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.8
                              HHHHHHHHHHHHHHHHSTTCEEEE.EEET.TEEEEEE CS
           Acetyltransf_1  14 ppnedaseeefeesfsleaegllv.aeed.geliGfi 48 
                              ++n +a +  ++ ++++++ + l+ +++  + ++G+ 
  PHY93_10455|PHY93_10455 125 KENRTAKLLQHFRWLRITPVEKLSiYSFSyEDILGHR 161
                              3344444445666666666633332444434466665 PP

>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.0   6.7e-06     0.024      28      76 ..      49     103 ..      30     126 .. 0.77

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 6.7e-06
          Acetyltransf_10  28 egealllvaeeggkiv....Gvi.el.rdgshisllfVdpeyrgqGigkaLleav 76 
                               ge +++v++ ++++v    G+i ++ ++  +++ l V+p+y+++ i  ++l ++
  PHY93_10455|PHY93_10455  49 LGESHYFVCTINNEVVavaaGIIrKVpKRVFYLCDLKVHPKYQRKRIPLKILSHA 103
                              48999***********544455544444444**************9987766655 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   0.0   7.1e-06     0.026       3      48 ..      52     102 ..      50     140 .. 0.74

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 7.1e-06
                              EEEEEEEETTEEEEEEEEEEES.....TCTEEEEE-GGGTTSSHHHHHHHH CS
           Acetyltransf_7   3 gevfVaeddgkivGfialslld.....aeitrlaVdpeyrgkGiGraLlea 48 
                              +++fV+  ++++v  +a  +++     ++++ l V+p+y++k i  ++l +
  PHY93_10455|PHY93_10455  52 SHYFVCTINNEVVAVAAGIIRKvpkrvFYLCDLKVHPKYQRKRIPLKILSH 102
                              799*********9877766666776777777799********998888775 PP

>> BLM_N  N-terminal region of Bloom syndrome protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.6   0.0       1.3   4.7e+03     161     183 ..      46      68 ..      32      80 .. 0.81
   2 ?   12.1   0.0   2.2e-05     0.078     244     302 ..     201     259 ..     190     262 .] 0.93

  Alignments for each domain:
  == domain 1  score: -3.6 bits;  conditional E-value: 1.3
                    BLM_N 161 FDtSgnskafvtppkshavrvst 183
                              FD  g+s+ fv +  +++v v  
  PHY93_10455|PHY93_10455  46 FDRLGESHYFVCTINNEVVAVAA 68 
                              89999999999999999988765 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 2.2e-05
                    BLM_N 244 aseelieediqeseslkthlgeErdnsekkknleetelesveksllveleedDydiDFv 302
                              + ++++ee i+e +  + h+ + + n   kk+l++ +++    ++++e++  D+d  F+
  PHY93_10455|PHY93_10455 201 QKQNIKEESITEAQVGHIHMLALTSNDPLKKELDQLNIHPSSSATVIEHNMKDFDWNFI 259
                              5788999***************************************************9 PP

>> Acetyltransf_9  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   7.2e-05      0.26      30     102 ..      40     108 ..      11     119 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 7.2e-05
                              HHHHHHHHHHTTSEEEEEEETTEEEEEEEEEEEEEEETTEEEEEEEEEEEEE-CCGTTS-H.HHHHHHHHHHHH CS
           Acetyltransf_9  30 eireyfrklleesrvlgaedngelvgqlallplelnvpGktlkaagvtgVavapehrgrgv.lskLlaraleem 102
                              +  ++f ++l+es+++++  n+e+v+++a + +++       ++ ++++  v+p+++++ + l+ L ++al+++
  PHY93_10455|PHY93_10455  40 KDYFAFFDRLGESHYFVCTINNEVVAVAAGIIRKV-----PKRVFYLCDLKVHPKYQRKRIpLKILSHAALRYY 108
                              3457899999*******************998775.....67899***************97777777777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (262 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       588  (0.032796); expected 358.6 (0.02)
Passed bias filter:                      462  (0.0257683); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.38
# Mc/sec: 2081.04
//
Query:       PHY93_10460|PHY93_10460  [L=237]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-19   70.7   0.0    1.6e-19   70.4   0.0    1.1  1  Haem_oxygenas_2  Iron-containing redox enzyme


Domain annotation for each model (and alignments):
>> Haem_oxygenas_2  Iron-containing redox enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.4   0.0     9e-24   1.6e-19       5     175 ..      41     211 ..      38     214 .. 0.85

  Alignments for each domain:
  == domain 1  score: 70.4 bits;  conditional E-value: 9e-24
          Haem_oxygenas_2   5 rqrapyklvfgdwlalvhsrltdrevkrallenlsEElGdgdlernHvelyrrllkalGldeeplealpelpetlalinl..feav 88 
                              +q++ +++ f +++a++ ++++ + +++++++n++EE+G+g+ e+ H +++r+ll  lG  ++++    +l+   ++ n+    a+
  PHY93_10460|PHY93_10460  41 IQFFSAVTFFSRPMAALSAKIPFPALRMEIVRNVWEEHGEGNFEKTHDKTFRELLLRLGNVQDSDIDKRALWPEVRVFNTtlVGAC 126
                              79999******************************************************555555455555445555555444455 PP

          Haem_oxygenas_2  89 alsrrllgallGallalEllvsletlklaeelre.lgldeeapeyfdlHvtiDnaHaamaleaviellateepeeqedvlegawrr 173
                              ++ + l+g  +G++ ++E +   +  ++ +++ +   l+e+++  ++lH  +D  H+a ++ +v+++  +e+++++  + +g+++ 
  PHY93_10460|PHY93_10460 127 VVDEYLIG--VGVMGMIERMFVDISNIIGQGIVHnGWLTEDNMIHYNLHKVLDIRHSADFF-NVLKPSWEESETNRYYIEQGLRMG 209
                              55666668..************************77789899*******************.999999999989999999999887 PP

          Haem_oxygenas_2 174 lq 175
                              ++
  PHY93_10460|PHY93_10460 210 AE 211
                              76 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (237 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       432  (0.024095); expected 358.6 (0.02)
Passed bias filter:                      356  (0.0198561); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.18s 00:00:00.64 Elapsed: 00:00:00.37
# Mc/sec: 1916.16
//
Query:       PHY93_16765|PHY93_16765  [L=131]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-23   83.3   0.6    1.4e-23   83.2   0.6    1.0  1  Response_reg     Response regulator receiver domain
  ------ inclusion threshold ------
      0.011   16.1   0.1      0.015   15.7   0.1    1.3  1  FleQ             Flagellar regulatory protein FleQ
      0.027   14.2   0.0      0.033   14.0   0.0    1.1  1  QRPTase_C        Quinolinate phosphoribosyl transferase, C-te
      0.037   13.7   0.1      0.043   13.5   0.1    1.1  1  Methyltr_RsmB-F  16S rRNA methyltransferase RsmB/F
       0.11   13.5   0.0       0.15   13.1   0.0    1.2  1  Methyltransf_24  Methyltransferase domain
       0.14   11.4   0.0        0.2   10.9   0.0    1.2  1  ThiG             Thiazole biosynthesis protein ThiG


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   83.2   0.6   4.8e-27   1.4e-23       1     111 [.       9     122 ..       9     123 .. 0.95

  Alignments for each domain:
  == domain 1  score: 83.2 bits;  conditional E-value: 4.8e-27
                              EEEESSSHHHHHHHHHHHH..HTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCT..TTSEEEEEESSTS CS
             Response_reg   1 vlivdDdplvrellrqlle..eegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireed..pelpviiltahse 82 
                              +l+vdDd +vrel+++++   +e++ ++  a+d+++a+ ++ ++++dlil+D  mpg +G++ +  +r+    + +p+i+++++ +
  PHY93_16765|PHY93_16765   9 ILVVDDDAKVRELIQTFFSlkSEEI-SCVMASDAQQAVLKMSNQDFDLILIDNVMPGRTGIDYALSLRKSIkhSRTPIILMSGALQ 93 
                              8****************99878999.9999*************************************99876678*********** PP

                              HHHHHHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  83 eedavealkagaddflsKpfdpeeLlkal 111
                              ++d+ +a++ g  d+l+Kpf+ ++L +++
  PHY93_16765|PHY93_16765  94 QDDVLKAMEGGLRDILVKPFSLKQLSEKI 122
                              *************************9987 PP

>> FleQ  Flagellar regulatory protein FleQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.7   0.1     5e-06     0.015       1     107 [.       8     125 ..       8     127 .. 0.60

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 5e-06
                     FleQ   1 kiLvidddaerrrdletiLeFlgeeveavsseel.saaleesssealavilgsvs......sleealealaekdphlPvlllgesd 79 
                              +iLv+ddda+ r+ ++t ++   ee+  v  +++ +a l+ s+++  +++ ++v         +  l++ + k+   P++l++   
  PHY93_16765|PHY93_16765   8 NILVVDDDAKVRELIQTFFSLKSEEISCVMASDAqQAVLKMSNQDFDLILIDNVMpgrtgiDYALSLRKSI-KHSRTPIILMSGAL 92 
                              69**********************96555555553333333334443444444434774333333333333.34567999998888 PP

                     FleQ  80 ea.eelan....vigelelPlnYnqLtdlLhra 107
                              ++ + l+     +   l  P++ +qL++ +  +
  PHY93_16765|PHY93_16765  93 QQdDVLKAmeggLRDILVKPFSLKQLSEKITGC 125
                              874445444454333345788888887777666 PP

>> QRPTase_C  Quinolinate phosphoribosyl transferase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   1.1e-05     0.033      81     148 ..      33     104 ..       8     114 .. 0.74

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.1e-05
                              SEEEEEESSHHHHHHHHHHT-SEEEEES--H..HHHHHHHHHHHHHSTT..SEEEEESS--TTTHHHHHCTT CS
                QRPTase_C  81 vkievevesleeleevleaeadiimLDnfsv..eelkkaveelkeknkr..vlievSGgvtlenveeyaksg 148
                              +++ +  + ++ + ++ +   d+i++Dn+ +  + +  a+ ++k+++++   +i  SG +++++v +  + g
  PHY93_16765|PHY93_16765  33 ISCVMASDAQQAVLKMSNQDFDLILIDNVMPgrTGIDYALSLRKSIKHSrtPIILMSGALQQDDVLKAMEGG 104
                              33344444445555566677*********887688999999998887767899************9987766 PP

>> Methyltr_RsmB-F  16S rRNA methyltransferase RsmB/F
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.1   1.4e-05     0.043      36     124 ..       9     101 ..       1     108 [. 0.77

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 1.4e-05
                              EEEEESSCCCHHHHHHHHHHTT--SEE.EEES-CTCCHHHHCC..EEEEEEEE--CC.GG...GTTT-TCHHHH--HHHHHHHHHH CS
          Methyltr_RsmB-F  36 vvAvdankeRlkrvaenlkrLgvtnti.vleaDarkidkvlggelfDriLlDaPCsg.tg...virrdpdvklrrkekdiaqlakl 116
                              ++ vd +  ++++++++   L  +++  v+  Da++    ++++ fD iL+D    g tg   +++ ++++k +r++  +++ a +
  PHY93_16765|PHY93_16765   9 ILVVDDD-AKVRELIQTFFSLKSEEIScVMASDAQQAVLKMSNQDFDLILIDNVMPGrTGidyALSLRKSIKHSRTPIILMSGALQ 93 
                              5555544.4677888889999998776156789***9999999*********876662332225778999*******999999999 PP

                              HHHHHHHH CS
          Methyltr_RsmB-F 117 qkellsaa 124
                              q ++l+a+
  PHY93_16765|PHY93_16765  94 QDDVLKAM 101
                              99999987 PP

>> Methyltransf_24  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   4.9e-05      0.15      26      80 ..       9      63 ..       3      87 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 4.9e-05
          Methyltransf_24 26 lvavdhdpgaeeaaalare...aglddrvrlikadseealaslaagsiDllfiDggha 80
                             +++vd d+   ++++l+++   ++ +++  ++ +d+++a+ +++++++Dl++iD    
  PHY93_16765|PHY93_16765  9 ILVVDDDA---KVRELIQTffsLKSEEISCVMASDAQQAVLKMSNQDFDLILIDNVMP 63
                             78899999...99*****999999**************9999999*********6555 PP

>> ThiG  Thiazole biosynthesis protein ThiG
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   6.7e-05       0.2     159     203 ..      66     110 ..      59     114 .. 0.92

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 6.7e-05
                              ---S-HHHHHHHHHH-SS-BEEES---SHHHHHHHHHTT-SEEEE CS
                     ThiG 159 lGllnkealkiiieeakvPvivDAGigspsdaaqamelGadavll 203
                               G+  +  l+  i++ + P+i+  G  +  d+ +ame G+  +l+
  PHY93_16765|PHY93_16765  66 TGIDYALSLRKSIKHSRTPIILMSGALQQDDVLKAMEGGLRDILV 110
                              588888999999****************************99998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (131 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       693  (0.0386525); expected 358.6 (0.02)
Passed bias filter:                      571  (0.0318478); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.40u 0.20s 00:00:00.60 Elapsed: 00:00:00.34
# Mc/sec: 1144.35
//
Query:       PHY93_10465|PHY93_10465  [L=278]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (278 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       227  (0.0126611); expected 358.6 (0.02)
Passed bias filter:                      110  (0.00613531); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.18s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 2072.32
//
Query:       PHY93_10470|PHY93_10470  [L=359]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.4e-15   58.0   0.0    2.1e-15   57.5   0.0    1.3  1  Radical_SAM  Radical SAM superfamily
     0.0025   17.9   0.0      0.017   15.3   0.0    2.1  2  Fer4_14      4Fe-4S single cluster domain


Domain annotation for each model (and alignments):
>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.5   0.0   2.3e-19   2.1e-15       3     159 ..     115     278 ..     113     288 .. 0.89

  Alignments for each domain:
  == domain 1  score: 57.5 bits;  conditional E-value: 2.3e-19
                              EESEESS--TTTSCCTTHHHHHHHHHHHHHHHHHHHHHHH.H......HTT.SEEEEEESSTGGGSTTHHHHHHHHHHTC....CC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.x......xxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxx....xx RF
              Radical_SAM   3 vtrgCnlrCsfCarpetvrregrgrslsveeileevkelk.a......ekg.vkevilgggepllypdfvellerlakla....vp 76 
                               + gC+ +C+fC++++     g  r+l+ +ei+ +  ++  +      + + ++ v +g gepl ++d v+ +  +  ++     +
  PHY93_10470|PHY93_10470 115 SQVGCAIGCTFCHTGT----MGLKRHLTADEIVGQYMAITfWlkehgnSERlTNIVYMGQGEPLHNYDNVRSATIIFMEDkglgLS 196
                              689************5....89999999999999997776447777775566*********************99999999***** PP

                              TEEEEEEECSSCHGHHHHHHHHHTT-SEEEEEEBSSSHH..HHHHHHTCTSHHHHHHHHHHHHHHTTSETEEEEEEEBTTTSHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM  77 giritvetngtlpdeeklerllelgvdrvslgleaadde..kvlklmnrghtfeevlealeklreagikrvvdrivglpGendee 159
                               ++it++t+g++p   ++e++ + ++  ++++l+aa++   + l ++n+ +++e++  a++k   +  +r+++ ++++   nd+ 
  PHY93_10470|PHY93_10470 197 QRKITLSTSGLVP---QIEKMWDFPPVNIAISLHAAHNNirTELMPINKAYDLERLFTAIKKVPLKAYRRITYEYILIADLNDRP 278
                              *************...***********************76556677799*************9999999************963 PP

>> Fer4_14  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.0      0.15   1.3e+03      77      95 ..      44      62 ..      33      75 .. 0.70
   2 !   15.3   0.0   1.8e-06     0.017       7      95 ..     118     211 ..     115     232 .. 0.61

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 0.15
                  Fer4_14 77 eypekkiwletngtleiel 95
                             +++e ++ l+tn   +i+ 
  PHY93_10470|PHY93_10470 44 KIQERDVSLWTNVAKKIKE 62
                             3458899999998877654 PP

  == domain 2  score: 15.3 bits;  conditional E-value: 1.8e-06
                  Fer4_14   7 gCnlsCkgCdnket.wks..elgkpqteelleqilk..dlkkseikiqglvltG.GePLhyenkkellklvkrlkeey..pekkiw 84 
                              gC + C++C + +   k   ++ ++  + +  +     + + +  +  ++v +G GePLh +++    +++ +  +     + ki+
  PHY93_10470|PHY93_10470 118 GCAIGCTFCHTGTMgLKRhlTADEIVGQYMAIT--FwlKEHGNSERLTNIVYMGqGEPLHNYDNVRSATIIFMEDKGLglSQRKIT 201
                              8*********65520222112233322222222..23333334444567**********877666666666554444456779999 PP

                  Fer4_14  85 letngtleiel 95 
                              l t+g++  ++
  PHY93_10470|PHY93_10470 202 LSTSGLVP-QI 211
                              99999886.44 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (359 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       445  (0.0248201); expected 358.6 (0.02)
Passed bias filter:                      390  (0.0217525); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.20s 00:00:00.70 Elapsed: 00:00:00.37
# Mc/sec: 2907.77
//
Query:       PHY93_10475|PHY93_10475  [L=290]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    0.00029   20.7   0.0    0.00068   19.5   0.0    1.6  1  Exo_endo_phos_2  Endonuclease-reverse transcriptase
    0.00048   19.7   0.0    0.00072   19.1   0.0    1.4  1  Exo_endo_phos    Endonuclease/Exonuclease/phosphatase family


Domain annotation for each model (and alignments):
>> Exo_endo_phos_2  Endonuclease-reverse transcriptase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.5   0.0   7.6e-08   0.00068      18     118 ..     188     277 ..     175     278 .. 0.84

  Alignments for each domain:
  == domain 1  score: 19.5 bits;  conditional E-value: 7.6e-08
          Exo_endo_phos_2  18 estlekllselksp..kiiilGDfNakhplWgsedtdssargeeLiefleehslsllnllksgptfkssngsstiDltltsdnlal 101
                               ++++++ ++lk+   ++i++GDfN    +W++      +r   L e+ ++ +ls   +    p+++ + +++ +D +  ++++ +
  PHY93_10475|PHY93_10475 188 RKEMNRIYEALKNVpsPLIFAGDFN----SWND------ERYAILKELGQKLKLS---EASFSPDYRMTFNKHPLDHFYYTNDIKI 260
                              56667777777766679********....6988......78999******99999...444557777777889************* PP

          Exo_endo_phos_2 102 skleleeedlgSDHrpi 118
                               + + e+   gSDH+p 
  PHY93_10475|PHY93_10475 261 ISAKVEDFYQGSDHKPL 277
                              *9999999******985 PP

>> Exo_endo_phos  Endonuclease/Exonuclease/phosphatase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0     8e-08   0.00072      72     233 .]     153     274 ..      62     274 .. 0.58

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 8e-08
                              SSEEEEEECSTE.EEEEEEEEEETSSSSGCEEEEEEEEEEEEEEE......CCCHHGHHHHHHHHHHHHHHHHHHHHHTTSEEEEE CS
                              xxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Exo_endo_phos  72 gnggavlsrfpl.tslfrrtfiefndlvaalrreplaakleqlni......ashrdhdlvrdlqllalllqvealnadrgapviva 150
                                ++ +  r+p+ +                                        +    v+    + +  ++ ++ ++ + p+i+a
  PHY93_10475|PHY93_10475 153 SPKVTLITRYPIrF------------------------------StkqltvVNIHGINFVDGPSYRKEMNRIYEALKNVPSPLIFA 208
                              33333333444431..............................23333333333444444444455556666778899******* PP

                              EE-SSSTSGGGBSCGHHHHHHCTTTHH.............SSCESCETTTTTTTTTTTEB-BEEEEEECHHHCCEEEEEEECCHHE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxx.............xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Exo_endo_phos 151 GDfNarpsdddsrvlrtrglalapapv.............glyllgggptptyvtraggsrlDrilaspalalfrsgvlppplalv 223
                              GDfN+                     +              l l   +  p y+  +    lD+ +++++ + +++ v + ++   
  PHY93_10475|PHY93_10475 209 GDFNS---------------------WnderyailkelgqKLKLSEASFSPDYRMTFNKHPLDHFYYTNDIKIISAKVEDFYQ--- 270
                              *****.....................111222233444457889999999999999999999*****************9998... PP

                              ECTSSCSSSB CS
                              xxxxxxxxxx RF
            Exo_endo_phos 224 rrealtlSDH 233
                                    +SDH
  PHY93_10475|PHY93_10475 271 ------GSDH 274
                              ......5999 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (290 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       370  (0.020637); expected 358.6 (0.02)
Passed bias filter:                      322  (0.0179597); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.38
# Mc/sec: 2286.77
//
Query:       PHY93_10480|PHY93_10480  [L=347]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.6e-12   45.8   2.7    9.9e-05   22.3   0.1    3.0  3  LysM      LysM domain


Domain annotation for each model (and alignments):
>> LysM  LysM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.3   0.1   5.5e-09   9.9e-05       1      42 [.     149     195 ..     149     197 .. 0.90
   2 !   22.3   0.2   5.5e-09   9.9e-05       1      41 [.     212     257 ..     212     258 .. 0.94
   3 ?   -1.9   0.0       0.2   3.5e+03      19      30 ..     319     330 ..     317     342 .. 0.73

  Alignments for each domain:
  == domain 1  score: 22.3 bits;  conditional E-value: 5.5e-09
                              EEE-TT--HHHHHHHC...TCHHHHHHHHC..TCSSCGG--TTEEEE CS
                     LysM   1 YtVkkGDTLwsIAkry...gitveklleaN..nlsspdkifpGqkLk 42 
                              Y+V+kG+TL +IA +       +++++++N  +ls +  ++++++Lk
  PHY93_10480|PHY93_10480 149 YKVQKGETLMQIAFKIygdISKWKDIKQMNgaKLSKSSALRANMELK 195
                              9*****************544599******999988889****9997 PP

  == domain 2  score: 22.3 bits;  conditional E-value: 5.5e-09
                              EEE-TT--HHHHHHHC...TCHHHHHHHHC..TCSSCGG--TTEEE CS
                     LysM   1 YtVkkGDTLwsIAkry...gitveklleaN..nlsspdkifpGqkL 41 
                              Y +k+G+TL +I++++      ++k++e N   +++p+ i++G +L
  PHY93_10480|PHY93_10480 212 YMIKNGETLGTISNSVyqsPKKWKKIWENNkpLIKNPNVIYAGFTL 257
                              89*****************88889*******************887 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 0.2
                              HHHHHHHHCTCS CS
                     LysM  19 tveklleaNnls 30 
                              +  +++++N+++
  PHY93_10480|PHY93_10480 319 QSATIRDLNEVK 330
                              667999999654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (347 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1291  (0.0720062); expected 358.6 (0.02)
Passed bias filter:                      342  (0.0190752); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.20s 00:00:00.70 Elapsed: 00:00:00.37
# Mc/sec: 2780.37
//
Query:       PHY93_10485|PHY93_10485  [L=135]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (135 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       254  (0.014167); expected 358.6 (0.02)
Passed bias filter:                      188  (0.0104858); expected 358.6 (0.02)
Passed Vit filter:                         6  (0.000334653); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.33u 0.20s 00:00:00.53 Elapsed: 00:00:00.32
# Mc/sec: 1247.78
//
Query:       PHY93_10490|PHY93_10490  [L=573]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
      0.026   14.2   0.0      0.045   13.4   0.0    1.3  1  Glyco_hydro_35  Glycosyl hydrolases family 35


Domain annotation for each model (and alignments):
>> Glyco_hydro_35  Glycosyl hydrolases family 35
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   2.5e-06     0.045      18     101 ..      23     106 ..      13     119 .. 0.73

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 2.5e-06
                              GGGS-GGGHHHHHHHHHHCT-SEEEEE--HHHH-SCTTB---S...GGG-CHHHHHHHHHCT-EEE....EEEES---TTBGGGG- CS
           Glyco_hydro_35  18 yfRlppelWedvlekvkalGlnaietYveWnlhepkegkydfe...GaldlekFlklaqeagLyvi....lRpGpYicaEwdaGGl 96 
                              y++   +lW+  l++    G + i +  +W++h+ + +++df+    +++l+k++++a+e+g  v+    l p p+      +GGl
  PHY93_10490|PHY93_10490  23 YWKTSASLWRTKLQEF--PGTR-IIIPLNWSFHSETGDQFDFDdhrPETNLKKLVEIAKEVGKQVVfflpLTPAPFL----PNGGL 101
                              7777788888887765..4665.5599***************9444568************9666522225666664....56777 PP

                              -GGGG CS
           Glyco_hydro_35  97 paWll 101
                              p+ l 
  PHY93_10490|PHY93_10490 102 PHLLA 106
                              76665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (573 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       397  (0.0221429); expected 358.6 (0.02)
Passed bias filter:                      324  (0.0180713); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.20s 00:00:00.72 Elapsed: 00:00:00.35
# Mc/sec: 4899.44
//
Query:       PHY93_10495|PHY93_10495  [L=379]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.2e-43  149.0   3.5    1.9e-43  148.2   3.5    1.3  1  Acyl-CoA_dh_1  Acyl-CoA dehydrogenase, C-terminal domain
    6.6e-35  120.2   0.1    1.8e-34  118.8   0.0    1.8  2  Acyl-CoA_dh_N  Acyl-CoA dehydrogenase, N-terminal domain
    2.1e-27   95.1   0.0    4.4e-27   94.1   0.0    1.6  1  Acyl-CoA_dh_M  Acyl-CoA dehydrogenase, middle domain
    5.3e-15   55.9   0.6      2e-14   54.0   0.2    2.0  2  Acyl-CoA_dh_2  Acyl-CoA dehydrogenase, C-terminal domain
     0.0052   17.3   0.0     0.0094   16.5   0.0    1.5  1  Acyl-CoA_ox_N  Acyl-coenzyme A oxidase N-terminal


Domain annotation for each model (and alignments):
>> Acyl-CoA_dh_1  Acyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  148.2   3.5   5.4e-47   1.9e-43       5     150 .]     231     376 ..     228     376 .. 0.98

  Alignments for each domain:
  == domain 1  score: 148.2 bits;  conditional E-value: 5.4e-47
                              HHHTTTT--S-----..-SHHHHHHHHHHHHHHHTSB-CC-BGGGSHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHH CS
            Acyl-CoA_dh_1   5 rvametlnheRlavaaaalglarraleealeyarrrkafgkplidhqlvreklaemaaeleaarllvyraaealdagkpdraeasm 90 
                              + +m++l+ eR+++a  +lg+a+++++++++ya +rk+fgk+++ +q +++++aema+e++++r+ +y++a+ +d+g    a a+ 
  PHY93_10495|PHY93_10495 231 YHMMKNLDIERITIAGISLGIAQACVDQCIKYACERKQFGKHIGTYQMIQKMIAEMATETAMMRSFLYTTAKNYDQGVRGAAHAAQ 316
                              679*********************************************************************************** PP

                              HHHHHHHHHHHHHHHHHHHHGGGTTSGGGHHHHHHHHTHHHHHSSS-HHHHHHHHHHHH. CS
            Acyl-CoA_dh_1  91 aKlfaselaqevadlamqllGgaGyleeypverlyrdarvlrigeGtseiqrniiarrll 150
                              +Kl  +++a+++a +a+ql+Gg+Gy++e p+er++rd ++++ig+Gt+e++++iia++ll
  PHY93_10495|PHY93_10495 317 VKLALPKMATKIALDAIQLHGGYGYSREFPLERMMRDNKLNEIGAGTNEVMIMIIAKNLL 376
                              *********************************************************985 PP

>> Acyl-CoA_dh_N  Acyl-CoA dehydrogenase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  118.8   0.0     5e-38   1.8e-34       1     113 []       5     117 ..       5     117 .. 0.99
   2 ?   -2.7   0.0       2.5     9e+03      78      78 ..     293     293 ..     274     327 .. 0.49

  Alignments for each domain:
  == domain 1  score: 118.8 bits;  conditional E-value: 5e-38
                              THHHHHHHHHHHHHHHHHTHHHHHHHHHHTSGHHHHHHHHHHTTCTSTTS-GGGTS--S-HHHHHHHHHHHHHH-HHHHHHHHHHH CS
            Acyl-CoA_dh_N   1 teeqealrdtvrefaeeelaphaaewdeegefprelwkklaelGllgitvpeeygGagldyleaaivaeelaradaglalllgvhs 86 
                              tee+++l++  r+fa++elap a+++dee+ f r ++kk++elG+lgit   +ygGag+++++a iv+ee+++a+ag  l++ +h+
  PHY93_10495|PHY93_10495   5 TEEEKDLQRLCRDFAQKELAPFAHKHDEEESFNRPAFKKMGELGVLGITADPQYGGAGMGAVAATIVMEEFGKACAGSTLSYLAHT 90 
                              89***************************************************************************999****** PP

                              HTTHHHHHHHS-HHHHHHHHHHHHTTS CS
            Acyl-CoA_dh_N  87 slvapailrfGteeqkrryLpklasge 113
                               l+++ i + G++eqk++yLpkl+sge
  PHY93_10495|PHY93_10495  91 ILCVNNIQNNGSDEQKEKYLPKLISGE 117
                              **************************8 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 2.5
                              H CS
            Acyl-CoA_dh_N  78 l 78 
                              +
  PHY93_10495|PHY93_10495 293 M 293
                              1 PP

>> Acyl-CoA_dh_M  Acyl-CoA dehydrogenase, middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   94.1   0.0   1.2e-30   4.4e-27       1      96 [.     121     214 ..     121     215 .. 0.95

  Alignments for each domain:
  == domain 1  score: 94.1 bits;  conditional E-value: 1.2e-30
                              EEE---SS-SS-GGG---EEEEETT.EEEEEEEEEEEETTTT-SEEEEEEETS-------EEEEEEE..GGGEEE-----BSS-TT CS
            Acyl-CoA_dh_M   1 afalTEpqaGsdvasvkttaaerdggeyvlnGeKiwitnaaiatlalvlartekpdrarglslflvprdapgvsvrrieeklGlrg 86 
                              +++++Ep+ Gsd+ +++t+a+++++g + lnG+K+witna++a++a v++r ++ + +++ls+f++++++pg+sv+   +k+G+r+
  PHY93_10495|PHY93_10495 121 CMGMSEPEYGSDAVGIQTKAVKHADGTFLLNGTKMWITNAQYADVAYVYTR-TGSE-RKNLSTFIIEKGTPGFSVGNPIHKMGMRS 204
                              9**************************************************.5555.799***************88889****** PP

                              S-EEEEEEE. CS
            Acyl-CoA_dh_M  87 lptgelvfed 96 
                               ptgelvf++
  PHY93_10495|PHY93_10495 205 SPTGELVFDN 214
                              ********98 PP

>> Acyl-CoA_dh_2  Acyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.4   0.0      0.35   1.3e+03     112     123 ..       7      18 ..       5      22 .. 0.84
   2 !   54.0   0.2   5.6e-18     2e-14       2     124 ..     243     355 ..     242     365 .. 0.93

  Alignments for each domain:
  == domain 1  score: -0.4 bits;  conditional E-value: 0.35
                              TT-HHHHHHHHH CS
            Acyl-CoA_dh_2 112 kesplqRlwRDa 123
                              +e+ lqRl RD 
  PHY93_10495|PHY93_10495   7 EEKDLQRLCRDF 18 
                              7899*******6 PP

  == domain 2  score: 54.0 bits;  conditional E-value: 5.6e-18
                              HHHHHHHHHHHHHHHHHHHHHHHHHCTTT-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT----HHHHHHHHHHH CS
            Acyl-CoA_dh_2   2 giaavalGaAraalaefvelarervrassgekladdpatqlalaeaaarldAAralleraaaraealaaagkevtvedraearraa 87 
                              +ia + lG+A+a++++ +++a er++  +g+++   +++q  +ae+a++    r +l+ +a+      ++g +      a a+  +
  PHY93_10495|PHY93_10495 243 TIAGISLGIAQACVDQCIKYACERKQ--FGKHIGTYQMIQKMIAEMATETAMMRSFLYTTAKN----YDQGVRG----AAHAAQVK 318
                              7999**********************..***********************************....7777764....7789999* PP

                              HHHHHHHHHHHHHHHHHCGGGGGBTT-HHHHHHHHHH CS
            Acyl-CoA_dh_2  88 alavelaiaavdalfeaaGgsalrkesplqRlwRDah 124
                              +++ ++a++++ ++++++Gg+++  e pl+R++RD +
  PHY93_10495|PHY93_10495 319 LALPKMATKIALDAIQLHGGYGYSREFPLERMMRDNK 355
                              ***********************************66 PP

>> Acyl-CoA_ox_N  Acyl-coenzyme A oxidase N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   2.6e-06    0.0094      80     119 ..      74     113 ..      11     119 .. 0.83

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 2.6e-06
                              .HHHHTHSS--TTHHHHHTHHHHHHHHS-HHHHHHHHHHH CS
            Acyl-CoA_ox_N  80 plgtglldeslplglhfsMFlptlkgqgteeQqakWlpra 119
                                g ++  ++l +  h+ + +++++++g++eQ++k+lp+ 
  PHY93_10495|PHY93_10495  74 EFGKACAGSTLSYLAHTILCVNNIQNNGSDEQKEKYLPKL 113
                              556677777778889***********************86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (379 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       537  (0.0299515); expected 358.6 (0.02)
Passed bias filter:                      430  (0.0239835); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.40
# Mc/sec: 2856.41
//
Query:       PHY93_10500|PHY93_10500  [L=380]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.1e-50  170.3   1.5    4.5e-50  169.7   1.5    1.2  1  Acyl-CoA_dh_1  Acyl-CoA dehydrogenase, C-terminal domain
      2e-24   85.6   0.1    3.5e-24   84.8   0.1    1.4  1  Acyl-CoA_dh_M  Acyl-CoA dehydrogenase, middle domain
      5e-22   78.7   0.0    9.7e-22   77.8   0.0    1.5  1  Acyl-CoA_dh_N  Acyl-CoA dehydrogenase, N-terminal domain
    1.1e-21   77.5   0.2    1.8e-21   76.8   0.2    1.3  1  Acyl-CoA_dh_2  Acyl-CoA dehydrogenase, C-terminal domain
     0.0034   16.9   0.0     0.0062   16.1   0.0    1.4  1  ApbE           ApbE family


Domain annotation for each model (and alignments):
>> Acyl-CoA_dh_1  Acyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  169.7   1.5   1.3e-53   4.5e-50       1     149 [.     227     375 ..     227     376 .. 0.99

  Alignments for each domain:
  == domain 1  score: 169.7 bits;  conditional E-value: 1.3e-53
                              TBHHHHHTTTT--S-----..-SHHHHHHHHHHHHHHHTSB-CC-BGGGSHHHHHHHHHHHHHHHHHHHHHHHHHH--------HH CS
            Acyl-CoA_dh_1   1 gkGfrvametlnheRlavaaaalglarraleealeyarrrkafgkplidhqlvreklaemaaeleaarllvyraaealdagkpdra 86 
                              g+Gf++am +l+ +R++++a a+g+ +ral+e+++ya +r++f+++++d+q +++++a+ma+e+e +rllv++aa+ +d+g+p+ +
  PHY93_10500|PHY93_10500 227 GDGFKIAMAALEKGRFTIGAIAVGCSERALDESVSYALSRQQFKQAIFDFQGLQFMMADMATEIECSRLLVLEAARDYDRGTPNAK 312
                              79************************************************************************************ PP

                              HHHHHHHHHHHHHHHHHHHHHHHHGGGTTSGGGHHHHHHHHTHHHHHSSS-HHHHHHHHHHHH CS
            Acyl-CoA_dh_1  87 easmaKlfaselaqevadlamqllGgaGyleeypverlyrdarvlrigeGtseiqrniiarrl 149
                               a maKl+a+++a++v+++a+q+lGg Gy++eypver++rda+vl+i eGt++iqr +iar+l
  PHY93_10500|PHY93_10500 313 LACMAKLKATDTAMKVTTDAVQILGGVGYTREYPVERFMRDAKVLQIVEGTNQIQRVVIARNL 375
                              ************************************************************986 PP

>> Acyl-CoA_dh_M  Acyl-CoA dehydrogenase, middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   84.8   0.1   9.8e-28   3.5e-24       1      97 []     117     215 ..     117     215 .. 0.92

  Alignments for each domain:
  == domain 1  score: 84.8 bits;  conditional E-value: 9.8e-28
                              EEE---SS-SS-GGG---EEEEETT.E...EEEEEEEEEEETTTT-SEEEEEEETS-------EEEEEEE..GGGEEE-----BSS CS
            Acyl-CoA_dh_M   1 afalTEpqaGsdvasvkttaaerdgge...yvlnGeKiwitnaaiatlalvlartekpdrarglslflvprdapgvsvrrieeklG 83 
                              af+l+E +aGsd+a+++tta+++ +++   y+lnG+Kiwit+++ia++++v+art+ +   +g+s f+v ++++g+s +++e+k+G
  PHY93_10500|PHY93_10500 117 AFCLSESGAGSDAAALQTTAKKTHHKGidgYILNGSKIWITSGGIAKTYIVMARTGAEG-GKGVSAFIVRDGTEGFSYGKKEKKMG 201
                              79****************995555544455************************76666.9************************* PP

                              -TTS-EEEEEEE.. CS
            Acyl-CoA_dh_M  84 lrglptgelvfedv 97 
                               r  pt el f+++
  PHY93_10500|PHY93_10500 202 WRISPTRELLFHNC 215
                              ***********997 PP

>> Acyl-CoA_dh_N  Acyl-CoA dehydrogenase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.8   0.0   2.7e-25   9.7e-22       2     112 ..       3     112 ..       2     113 .. 0.94

  Alignments for each domain:
  == domain 1  score: 77.8 bits;  conditional E-value: 2.7e-25
                              HHHHHHHHHHHHHHHHHTHHHHHHHHHHTSGHHHHHHHHHHTTCTSTTS-GGGTS--S-HHHHHHHHHHHHHH-HHHHHHHHHHHH CS
            Acyl-CoA_dh_N   2 eeqealrdtvrefaeeelaphaaewdeegefprelwkklaelGllgitvpeeygGagldyleaaivaeelaradaglalllgvhss 87 
                              e q +l+ ++ +f  ++++ph ++ de+++f  +++++l+ lG++g+t+pee+gG+gl+y +  i++ e+a+ ++++a++++v+ +
  PHY93_10500|PHY93_10500   3 EIQLELKNQLEKFRLQKIEPHMEHDDETETFRMDIFNELGSLGFTGMTIPEEFGGMGLSYEDFSIALCEIAKSSVSYAVTISVSCM 88 
                              567899999***********999999999******************************************************765 PP

                              TTHHHHHHHS-HHHHHHHHHHHHTT CS
            Acyl-CoA_dh_N  88 lvapailrfGteeqkrryLpklasg 112
                              +   +i +fG  +qk++yLp+l sg
  PHY93_10500|PHY93_10500  89 VQ-AIINEFGHIDQKKKYLPDLTSG 112
                              55.69*****************998 PP

>> Acyl-CoA_dh_2  Acyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.8   0.2     5e-25   1.8e-21       2     133 ..     243     364 ..     242     365 .. 0.96

  Alignments for each domain:
  == domain 1  score: 76.8 bits;  conditional E-value: 5e-25
                              HHHHHHHHHHHHHHHHHHHHHHHHHCTTT-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT----HHHHHHHHHHH CS
            Acyl-CoA_dh_2   2 giaavalGaAraalaefvelarervrassgekladdpatqlalaeaaarldAAralleraaaraealaaagkevtvedraearraa 87 
                              +i+a+a+G  ++al+e v++a  r++  +++++ d++ +q+  a++a++++  r+l+++aa++     ++g+++     + a +a+
  PHY93_10500|PHY93_10500 243 TIGAIAVGCSERALDESVSYALSRQQ--FKQAIFDFQGLQFMMADMATEIECSRLLVLEAARD----YDRGTPN----AKLACMAK 318
                              689***********************..***********************************....9*****8....89999*** PP

                              HHHHHHHHHHHHHHHHHCGGGGGBTT-HHHHHHHHHHHHCTSGGG- CS
            Acyl-CoA_dh_2  88 alavelaiaavdalfeaaGgsalrkesplqRlwRDahaaaaHaaln 133
                              + a+++a +++ +++++ Gg +++ e+p++R++RDa+++++ +++n
  PHY93_10500|PHY93_10500 319 LKATDTAMKVTTDAVQILGGVGYTREYPVERFMRDAKVLQIVEGTN 364
                              **************************************99876665 PP

>> ApbE  ApbE family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   1.7e-06    0.0062      47     166 ..      84     205 ..      68     227 .. 0.75

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 1.7e-06
                              EE-HHHHHHHHHHHHHHHHTTTSS-TTTHHHHHHHCTTSGG.----HHHHHHHHTT.-GGGEEEEESTT..-----TTTHHHHHHH CS
                     ApbE  47 kvspelaellkaaleiseltdgafdptvgplvklwgfgeekarvpsaeeidaalalvgykkiellakkgpgmkLDlggiaKGyavd 132
                              +vs  + +++++  +i ++ + + d t g  + ++  +e+  +  +a+++++  +++  k i     +g+++ +  ggiaK y+v 
  PHY93_10500|PHY93_10500  84 SVSCMVQAIINEFGHIDQKKKYLPDLTSGVEIGAFCLSES-GAGSDAAALQTTAKKTHHKGIDGYILNGSKIWITSGGIAKTYIVM 168
                              5555666666666666666666666666666665543222.233577778877777877777775666778**************9 PP

                              HHHHHHHH.TT-EEEEEETTEEEEEC..-ECT.-EEEE CS
                     ApbE 133 rvaellka.giksalvnlGGdiralG..pdgk.pwrvg 166
                              +   +    g+++++v  G + + +G  ++ k +wr+ 
  PHY93_10500|PHY93_10500 169 ARTGAEGGkGVSAFIVRDGTEGFSYGkkEK-KmGWRIS 205
                              999999999*****************7433.359*995 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (380 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       454  (0.0253221); expected 358.6 (0.02)
Passed bias filter:                      391  (0.0218082); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.49u 0.20s 00:00:00.69 Elapsed: 00:00:00.36
# Mc/sec: 3128.96
//
Query:       PHY93_10505|PHY93_10505  [L=420]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.7e-36  124.1   0.5      7e-36  123.8   0.5    1.1  1  PGI           Phosphoglucose isomerase
  ------ inclusion threshold ------
       0.12   12.4   0.3         10    6.1   0.0    2.4  2  Cucumopine_C  Cucumopine synthase C-terminal helical bundle d


Domain annotation for each model (and alignments):
>> PGI  Phosphoglucose isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  123.8   0.5   7.8e-40     7e-36      93     463 ..      53     415 ..      25     420 .] 0.83

  Alignments for each domain:
  == domain 1  score: 123.8 bits;  conditional E-value: 7.8e-40
                              S-B--EEEEE--GGGTHHHHHHHHHTGGG-TT-EEEEE--SSHHHHHHHHTT--G...GGEEEEEE-SSS--HHHHHHHHHHHHHH CS
                      PGI  93 gkaitdvvniGiGGsdlGPvlvtealkkeserlkvafvsnvdgthiaevlkkldp...ettlfivasktfttaetllnaesakewl 175
                              + + +  +++GiGGs lGP +++ al+k+ +r    f+ n+d+ +i   l++l++    + lf  +sk   taetl     + ++l
  PHY93_10505|PHY93_10505  53 FSDRKVFIHVGIGGSSLGPEMLVSALQKNDTRF--IFINNIDPEEIHSQLQSLNQykiSDCLFYFVSKSGGTAETLAALAIITNFL 136
                              44556679*******************998876..9***********99999886222569************************* PP

                              HHHH--GGGGGGTEEEESS-HHHHHHHT...--GGGEEE--TTS-GGG-TTSGGGHHHHHHH-HHHHHHHHHHHHHHHHHHHHS-G CS
                      PGI 176 lkalkedsavakhfvalstnaekveefG...ideknmfefwdwvGGryslwsaiGlsvalsiGfenfeelleGaaaidkhfleapl 258
                               +++ ++s+++  fv ++t+++k e +    + + + +e    vGGr+   + +G+  al  G + +++l++Ga++     le +l
  PHY93_10505|PHY93_10505 137 ADKNISQSELKDYFV-FATDPKKSELLElasVLNIQCLEVPSDVGGRFCALTPVGYLPALFAGMD-IDQLVRGARETQAICLEESL 220
                              ******999988887.567777766655001556678899999************9999****98.699********999999887 PP

                              GG-HHHHHHHHHHHHHHT.S---EEEEEES-GGGTTHHHHHHHHHHHHH---BBTTS-B-SS--S-EEE---TTTGGGTSHHHHHH CS
                      PGI 259 ekniPvllalvgvwyvnf.lgaeteailpydqylerlaaylqqldmesnGksvtkdgvlvdvetgeiifGeagtngqhafyqlihq 343
                                n P+l a   ++  +   +++   ++py+ +l+ +++++ ql  es Gk+ + dgv+v++  ++i+  + g+  qh+  ql   
  PHY93_10505|PHY93_10505 221 --NNPLLNAAEFLYTLKKeKNINQTVMMPYSSKLRSFSFWFTQLWAESLGKKKNLDGVVVHTGFTPIV--GFGATDQHSQMQLFME 302
                              ..77999998777775541567778899******************************9988777776..456667********** PP

                              SSS---EE.EEEEEE-S-GGGGHHHHHHHHHHHHHHHHHHH-B-HHHHHHHHHHTHHHHHGGGG-B.-----EEEEEEEE--HHHH CS
                      PGI 344 GtkliPcd.fiaavksqnieiadhhkillsnffaqtealmvGkseeevkkelakakveklvphktf.eGnrPsnsillekltpael 427
                              G    P d  ++ ++ +n     h+ +l +n+   ++     k ++   ++l ka+++  +  k+  e +r +  i + k   +++
  PHY93_10505|PHY93_10505 303 G----PNDkCLILIEVEN---FGHDYKLATNLENNSKNNNLSKLSSFTLSQLMKAELDGTI--KALqENKRATIHIKIAKNDEFHM 379
                              8....5551344555555...789999*****99999999999988888889999888766..444045678999*********** PP

                              HHHHHHHHHHHHHHHHHHTB-TT--GGGHHHHHHHH CS
                      PGI 428 GalialyehkilvqGviwginsfdqwGvelGkelak 463
                              Gali ++e  ++  G  + i+ fdq Gve Gk  a 
  PHY93_10505|PHY93_10505 380 GALIIFFESLTALMGDYLMIDPFDQPGVEAGKIYAF 415
                              ********************************9875 PP

>> Cucumopine_C  Cucumopine synthase C-terminal helical bundle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.9   0.0    0.0051        46      66     109 ..       7      51 ..       2      63 .. 0.80
   2 ?    6.1   0.0    0.0011        10      62      92 ..     366     397 ..     344     404 .. 0.81

  Alignments for each domain:
  == domain 1  score: 3.9 bits;  conditional E-value: 0.0051
             Cucumopine_C  66 lAeka.evdlksLvelakellkvkaeflgyvGlekladllkelee 109
                              ++ek+ +++lk L ++ k +++ +a+f+  +  ++l +++k+++ 
  PHY93_10505|PHY93_10505   7 FSEKNvNINLKRLESFKKIIANPNAQFFHTFERAELISSTKKMHT 51 
                              56777799********************98888888777777764 PP

  == domain 2  score: 6.1 bits;  conditional E-value: 0.0011
             Cucumopine_C  62 gl.iklAekaevdlksLvelakellkvkaefl 92 
                              ++ ik+A+++e+ + +L+ +++ l++   ++l
  PHY93_10505|PHY93_10505 366 TIhIKIAKNDEFHMGALIIFFESLTALMGDYL 397
                              4449*********************9999988 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (420 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       834  (0.0465168); expected 358.6 (0.02)
Passed bias filter:                      613  (0.0341904); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.22s 00:00:00.75 Elapsed: 00:00:00.36
# Mc/sec: 3466.97
//
Query:       PHY93_10510|PHY93_10510  [L=300]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.1e-43  146.6   0.0    7.5e-43  146.1   0.0    1.3  1  GGDEF         Diguanylate cyclase, GGDEF domain
    5.5e-16   58.7   0.0    1.4e-15   57.3   0.0    1.8  1  FHA           FHA domain
    1.3e-15   57.5   0.1    2.9e-15   56.4   0.0    1.7  2  Yop-YscD_cpl  Inner membrane component of T3SS, cytoplasmic d
  ------ inclusion threshold ------
      0.026   14.8   0.0      0.062   13.6   0.0    1.6  2  GGDEF_2       GGDEF-like domain


Domain annotation for each model (and alignments):
>> GGDEF  Diguanylate cyclase, GGDEF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  146.1   0.0   1.7e-46   7.5e-43       1     161 []     138     296 ..     138     296 .. 0.96

  Alignments for each domain:
  == domain 1  score: 146.1 bits;  conditional E-value: 1.7e-46
                              HSB-CCCGSEEHHHHHHHHHHHHHCCHHCTSEEEEEEEEETTHHHHHHHH-HHHHHHHHHHHHHHHHCC.S-TTSEEEEESSSEEE CS
                    GGDEF   1 aahDslTgLpNRrlleeeleqelqrarreqkslavllldldnFkkindtyGhsvGDevLqevakrLsss.lrksdlvaRlggdeFa 85 
                              a++D+ Tg  N+++++++++ e+++++ ++++l+++l dld+Fkk+nd yGh++GD vL+e+a  ++ + +r++d+ aR+gg+eF+
  PHY93_10510|PHY93_10510 138 ANTDKHTGCFNKTYFNNRIALEVNKCKVTGEPLSLVLFDLDHFKKLNDGYGHDAGDYVLKEMAAVIRANgIRDQDVFARYGGEEFV 223
                              689***********************888*************************************9874788************* PP

                              EEEECSSHHHHHHHHHHHHHHHHCS-EEETTCCEEE---EEEEEEEE..-TTS-HHHHHHHHHHHHHHHHHCTSSC CS
                    GGDEF  86 illpetsseeaaelaerirrllaklkepvelsgeelyvtisiGialappeegedleellkeAdealyeaKkagrnr 161
                              illp+t++++  e+aer+r+l+++ +  ++ +  +  vt+siG+a ++ +   +  +l+k+Ad+a+y+aK+agrn+
  PHY93_10510|PHY93_10510 224 ILLPKTNLKQSFEIAERLRKLIENKEFLYDGKRLP--VTASIGVADYR-QGVITGTDLFKRADDAVYKAKEAGRNQ 296
                              ***************************99977666..9*********6.999**********************97 PP

>> FHA  FHA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.3   0.0   3.2e-19   1.4e-15       3      69 .]      52     114 ..      50     114 .. 0.98

  Alignments for each domain:
  == domain 1  score: 57.3 bits;  conditional E-value: 3.2e-19
                              EESSTTSSEETTSTTSTTTEEEEEEETTCEEEEEEEESSSSSEEETTEEESTTSEEEE-TTEEEEET CS
                      FHA   3 iGRssdcdivlddpsiSrkHalikfdkgsgkvyleDlgSknGtfvNgqrigkgepveLksgdvielG 69 
                              iGR++d++i l+   +Sr+H+ +   ++  +  leD+gSknGt++N++r+++   ++L+ gd+i++G
  PHY93_10510|PHY93_10510  52 IGRNADNTIALEFNGVSRYHFKLLASGE--SHILEDCGSKNGTYLNNKRVES--LTPLAKGDIIKIG 114
                              9***************************..*********************9..9**********98 PP

>> Yop-YscD_cpl  Inner membrane component of T3SS, cytoplasmic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.0       2.9   1.3e+04      24      34 ..       3      13 ..       2      19 .. 0.72
   2 !   56.4   0.0   6.4e-19   2.9e-15       3      90 ..      34     122 ..      32     124 .. 0.95

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 2.9
                             -TT-SEE---T CS
             Yop-YscD_cpl 24 dedcDivLsDk 34
                             ++d  ivL+D 
  PHY93_10510|PHY93_10510  3 NDDTTIVLTDI 13
                             56677999985 PP

  == domain 2  score: 56.4 bits;  conditional E-value: 6.4e-19
                              ECCCCTT-EEEETTEEEEEES-TT-SEE---TTS-TT-EEEEEETTEEEEEE-CESS--EETTEE-SECC.--TTSEEEETTEEEE CS
             Yop-YscD_cpl   3 lsGpdkGaeveLeegevviGsdedcDivLsDkevsrkhlkLeveeesvrledlgsrngllvngerveele.lrpgdvlelGttela 87 
                                G  +G  ++L+e ++ iG++ d+ i L+ ++vsr h+kL +  es  led gs+ng+++n++rve+l+ l++gd +++G++ l+
  PHY93_10510|PHY93_10510  34 VGGDLNGTLFDLNEPQIGIGRNADNTIALEFNGVSRYHFKLLASGESHILEDCGSKNGTYLNNKRVESLTpLAKGDIIKIGSIALK 119
                              668889*************************************************************999*************999 PP

                              EEE CS
             Yop-YscD_cpl  88 lvk 90 
                              + +
  PHY93_10510|PHY93_10510 120 YLP 122
                              866 PP

>> GGDEF_2  GGDEF-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0       1.3   5.7e+03      87      95 ..      46      54 ..       4      60 .. 0.54
   2 ?   13.6   0.0   1.4e-05     0.062      33     101 ..     191     273 ..     166     286 .. 0.75

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 1.3
                  GGDEF_2 87 lsvriGiGs 95
                              +  iGiG+
  PHY93_10510|PHY93_10510 46 NEPQIGIGR 54
                             345566665 PP

  == domain 2  score: 13.6 bits;  conditional E-value: 1.4e-05
                  GGDEF_2  33 daerllraleealral...gpdalvavrgdrlvlllpaedeedaeallerlarrlgg...........lsvriGiGspvegla 101
                              +++ +l+++++++ra    ++d+++   g+++v+llp  + ++  +++erl++ ++            ++++iG+ ++ +g+ 
  PHY93_10510|PHY93_10510 191 AGDYVLKEMAAVIRANgirDQDVFARYGGEEFVILLPKTNLKQSFEIAERLRKLIENkeflydgkrlpVTASIGVADYRQGVI 273
                              444588899999988877568888888999**********99988*******9999999999999988888888888888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (300 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       385  (0.0214736); expected 358.6 (0.02)
Passed bias filter:                      358  (0.0199677); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.41u 0.19s 00:00:00.60 Elapsed: 00:00:00.34
# Mc/sec: 2673.80
//
Query:       PHY93_16770|PHY93_16770  [L=504]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.6e-20   72.2   0.4    1.1e-19   70.7   0.1    2.0  2  Response_reg  Response regulator receiver domain
    7.8e-16   58.6   0.5    1.8e-15   57.4   0.5    1.6  1  HATPase_c     Histidine kinase-, DNA gyrase B-, and HSP90-lik
      2e-10   40.5   0.1    6.4e-10   38.9   0.1    1.8  1  HisKA         His Kinase A (phospho-acceptor) domain
    3.2e-06   27.0   0.7    3.2e-06   27.0   0.7    1.8  2  HATPase_c_5   GHKL domain
    0.00025   20.9   0.1    0.00049   19.9   0.1    1.5  1  HATPase_c_3   Histidine kinase-, DNA gyrase B-, and HSP90-lik
     0.0037   17.5   0.0     0.0087   16.3   0.0    1.6  1  PAS_4         PAS fold
  ------ inclusion threshold ------
      0.013   15.8   0.0      0.051   13.8   0.0    2.1  1  PAS_9         PAS domain
      0.031   14.3   0.0      0.092   12.8   0.0    1.8  1  PAS           PAS fold
      0.036   14.2   0.0       0.25   11.5   0.0    2.2  1  PAS_7         PAS fold
       0.15   12.2   0.1        0.5   10.5   0.1    1.9  1  Carmo_coat_C  Carmovirus coat protein
       0.28   11.9   1.7       0.61   10.8   0.3    2.3  1  PMC2NT        PMC2NT (NUC016) domain
        9.6    6.3   6.9         13    5.9   1.2    2.5  2  NYD-SP28      Sperm tail


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0       5.7   8.5e+03      90     106 ..     200     216 ..     190     221 .. 0.73
   2 !   70.7   0.1   7.2e-23   1.1e-19       1     111 [.     390     500 ..     390     501 .. 0.95

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 5.7
                              HHCTESEEEESSG-HHH CS
             Response_reg  90 lkagaddflsKpfdpee 106
                              +  ++++fl+K  d++e
  PHY93_16770|PHY93_16770 200 IISNMKEFLHKNEDKKE 216
                              55678889999888776 PP

  == domain 2  score: 70.7 bits;  conditional E-value: 7.2e-23
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTS.HHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahse.eed 85 
                              vl+vd++  +++l+ ++l +++y +   a+++++a++ l++ +vd+i++D++mp +dG ++++e+r ++ ++pv+++t+++  +++
  PHY93_16770|PHY93_16770 390 VLVVDNELNILNLCMNFLSDSDY-HFLGASSAADAYKELERFSVDIIITDMKMPLVDGENFIRELRSKNINVPVLFMTSKDYvDKY 474
                              89*********************.99****************************************************99985666 PP

                              HHHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  86 avealkagaddflsKpfdpeeLlkal 111
                              ++   ++g ++++ Kpf+++eL+ a+
  PHY93_16770|PHY93_16770 475 KTMKEELGLKGIIIKPFTKDELVGAI 500
                              66777*****************9876 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.4   0.5   1.2e-18   1.8e-15       5     109 ..     259     365 ..     256     367 .. 0.80

  Alignments for each domain:
  == domain 1  score: 57.4 bits;  conditional E-value: 1.2e-18
                              HHHHHHHHHHHHHHHHHSTTTEE....EEEEEEEE..TEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHH CS
                HATPase_c   5 rLrqiisnlvdNavkfatkagei....eveikase..ddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkkl 84 
                              +++q++ nl++Na++  +++++i     +e+k ++  + ++i v+DnG+G++ e++ k+f  f +   tk  g+gtGlGlsi++++
  PHY93_16770|PHY93_16770 259 KIEQVLVNLIQNAIDSLKDSETIdpliVIELKIENngNFIQIFVKDNGPGVSAENRTKIFNTFFT---TKEIGKGTGLGLSISNRI 341
                              689************8333333344334444432345889999******************9999...788899***********9 PP

                              HHHTTTEEEE.EEETTTEEEEEEEEE CS
                HATPase_c  85 velmgGeiwv.esepgrGttftftlp 109
                              ++ ++G++++ es+   G  f +tlp
  PHY93_16770|PHY93_16770 342 IQSHQGKLELlESKL--GANFKITLP 365
                              999*******55555..999999988 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.9   0.1   4.3e-13   6.4e-10       3      61 ..     143     207 ..     142     212 .. 0.86

  Alignments for each domain:
  == domain 1  score: 38.9 bits;  conditional E-value: 4.3e-13
                              HHHHHHHHHHHHHHHHHHHHHHHHH....HC.....T-HSSCHHHHHHHHHHHHHHHHHHHHHHHH CS
                    HisKA   3 grflagvaHELrtPLsailgnaeaL....kre...gklteelkeyletiesearrldhlvedlLdl 61 
                              g+++a+++HE+++PL++ +gn+e++    + +   +  +e+  ++   i  + +r++++++++ ++
  PHY93_16770|PHY93_16770 143 GEMTANISHEINNPLTVAIGNSELIgfalE-SddlNIQRESITKFQTNIDHSLDRINKIISNMKEF 207
                              799**********************77641.2678445799999******************9765 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.1       6.7     1e+04      71      93 ..     194     216 ..     178     218 .. 0.68
   2 !   27.0   0.7   2.1e-09   3.2e-06       3      88 ..     257     352 ..     255     365 .. 0.75

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 6.7
              HATPase_c_5  71 lksireivkkykgnlsieaedgl 93 
                              l  i++i+++ k++l+ + +++ 
  PHY93_16770|PHY93_16770 194 LDRINKIISNMKEFLHKNEDKKE 216
                              45566666666666666655554 PP

  == domain 2  score: 27.0 bits;  conditional E-value: 2.1e-09
              HATPase_c_5   3 dldlcvilgnlLdNAieacskieeekrf..IrltvrekkksliisieNsyeg...ek.....kklesskskkeehGiGlksireiv 78 
                              ++ +  +l nl+ NAi++ ++ e+ ++   I+l+++++ +++ i ++ +  g   e+     ++++++k+ ++  G+Gl+  ++i+
  PHY93_16770|PHY93_16770 257 RVKIEQVLVNLIQNAIDSLKDSETIDPLivIELKIENNGNFIQIFVKDNGPGvsaENrtkifNTFFTTKEIGKGTGLGLSISNRII 342
                              5677889**************998777611566666667777777777644444433344567788******************** PP

              HATPase_c_5  79 kkykgnlsie 88 
                              ++++g+l++ 
  PHY93_16770|PHY93_16770 343 QSHQGKLELL 352
                              *****99864 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.9   0.1   3.2e-07   0.00049       3      63 ..     260     327 ..     258     397 .. 0.80

  Alignments for each domain:
  == domain 1  score: 19.9 bits;  conditional E-value: 3.2e-07
              HATPase_c_3   3 lekAlaelvdNsldAdaen........vkievnknrgktgeivieDdGkGmseeelknalrlatsskea 63 
                               e++l+ l++N++d+   +        +++++++n g+  +i ++D+G G+s e+  + ++   ++ke 
  PHY93_16770|PHY93_16770 260 IEQVLVNLIQNAIDSLKDSetidplivIELKIENN-GNFIQIFVKDNGPGVSAENRTKIFNTFFTTKEI 327
                              5899**********877777799**6655555554.5679**************999999887777774 PP

>> PAS_4  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0   5.8e-06    0.0087       2      68 ..      11      77 ..      10      84 .. 0.90

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 5.8e-06
                    PAS_4  2 dslpdalavldpdgrvlyaNaaaaelfgappeellGktla.ellpeedaarleralrrvlegeepief 68
                             d l ++++v d  g+++y+Na++  lf+ +p ++  +t++ e+++    +++++ ++r++++++ +++
  PHY93_16770|PHY93_16770 11 DDLFEPVLVADQFGTIVYYNASFLTLFRTTPRSMKKQTDFkEYFSS-IIPDFSSFYDRLIKEDQMLST 77
                             5566799*********************************99*998.999999999999999877665 PP

>> PAS_9  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   3.4e-05     0.051       3     103 ..      16     110 ..      15     111 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 3.4e-05
                    PAS_9   3 gilidnpdgrilyaNeaalrllGyspeevlgks.....itdlfvtdpeanerlraaleqgrkkerevevvlirkngetfwvl.lta 82 
                              ++l+ +  g+i+y+N ++l+l+ ++p+ +  +      ++ ++   p+  ++ ++++++ +    + e+ +i + +    v  + +
  PHY93_16770|PHY93_16770  16 PVLVADQFGTIVYYNASFLTLFRTTPRSMKKQTdfkeyFSSII---PDFSSFYDRLIKEDQ--MLSTELSFIIEAQ----VStIII 92 
                              567777889**************99999888777555455555...***************..9999999999977....444566 PP

                    PAS_9  83 spvkdddgelvgiivilrDit 103
                                vk + g +v   ++++D+t
  PHY93_16770|PHY93_16770  93 KGVKKETGDFV---LLFKDVT 110
                              66666665555...6999998 PP

>> PAS  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   6.1e-05     0.092       6      38 ..       9      41 ..       5      77 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 6.1e-05
                             HHHHSSSEEEEEETTSBEEEECHHHHHHHSSTH CS
                      PAS  6 ileslpdpifvvDedgrilyvNaaaeellGlsr 38
                             +l++l +p++v D  g i+y Na++ +l+  ++
  PHY93_16770|PHY93_16770  9 LLDDLFEPVLVADQFGTIVYYNASFLTLFRTTP 41
                             7888899*********************98766 PP

>> PAS_7  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00017      0.25       8     110 ..      17     112 ..      10     116 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00017
                    PAS_7   8 isvfDadlrLvawNrrylelldlpeelvqvgvpleellrynaergefgagdveaeverrlaaaragkphsfererpdgrvievrgn 93 
                              ++v D+ + +v +N  +l l+  +++ ++ ++ ++e +  +         d +++++r +++ +  + +     +++  +i ++g 
  PHY93_16770|PHY93_16770  17 VLVADQFGTIVYYNASFLTLFRTTPRSMKKQTDFKEYFSSIIP-------DFSSFYDRLIKEDQMLSTELSFIIEAQVSTIIIKGV 95 
                              7899******************************999887743.......233444444433333333333333456677778888 PP

                    PAS_7  94 plpdgGfVttytDiTer 110
                              + + g fV  ++D+T +
  PHY93_16770|PHY93_16770  96 KKETGDFVLLFKDVTVE 112
                              88888888888888865 PP

>> Carmo_coat_C  Carmovirus coat protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.1   0.00034       0.5       5      83 ..     222     300 ..     219     310 .. 0.90

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00034
                              SGGGSSS-SEEEEEETTEEEEEE-SSEEEEEEEE-SSSSSB---EEESTTEEEEEEEETTTTEEEEEEEESSTTEEEEE CS
             Carmo_coat_C   5 dkvsdgptyvvpsvngnelqlrvvaagkwciivrgtveggftkptligpgisgdvdyesarpiaicelvtqmegqilki 83 
                              d v    ++  ps++g  +++++v  g   i++   v+       li   i    d e+  p+ + el  + +g++++i
  PHY93_16770|PHY93_16770 222 DIVEKAISFANPSIKGTLIKIKIVLDGPVPILLINRVKIEQVLVNLIQNAIDSLKDSETIDPLIVIELKIENNGNFIQI 300
                              66777888999******************9999888888889999****************************999988 PP

>> PMC2NT  PMC2NT (NUC016) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.3   0.00041      0.61       9      64 ..     170     222 ..     168     233 .. 0.84

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00041
                   PMC2NT   9 aLpaeDldfyrsldpefaksldeqserllslinsllklaaskseisassklededd 64 
                              aL ++Dl+ +r    +f++++d++ +r+ ++i+++ + +++++++++     d+ d
  PHY93_16770|PHY93_16770 170 ALESDDLNIQRESITKFQTNIDHSLDRINKIISNMKEFLHKNEDKKEY---CDARD 222
                              5789*******999*********************9999999999664...44444 PP

>> NYD-SP28  Sperm tail
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.9   0.4     0.074   1.1e+02      55      82 ..     120     148 ..     112     152 .. 0.85
   2 ?    5.9   1.2    0.0086        13      55      89 ..     180     214 ..     170     219 .. 0.91

  Alignments for each domain:
  == domain 1  score: 2.9 bits;  conditional E-value: 0.074
                 NYD-SP28  55 rkeleeqkqaceelid.eKdklikelqee 82 
                              r++lee+k++ +++i+ +K k+i e+   
  PHY93_16770|PHY93_16770 120 RAQLEELKNTHSQIIQsDKLKVIGEMTAN 148
                              689************73599999998766 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.0086
                 NYD-SP28  55 rkeleeqkqaceelideKdklikelqeeLkekdeq 89 
                              r+++ + + +++  +d+ +k+i++++e L + +++
  PHY93_16770|PHY93_16770 180 RESITKFQTNIDHSLDRINKIISNMKEFLHKNEDK 214
                              6889999**********************999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (504 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1112  (0.0620224); expected 358.6 (0.02)
Passed bias filter:                      631  (0.0351944); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.61u 0.22s 00:00:00.83 Elapsed: 00:00:00.37
# Mc/sec: 4036.16
//
Query:       PHY93_10515|PHY93_10515  [L=571]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.1e-15   56.4   0.0    3.9e-15   55.6   0.0    1.4  1  DNA_mis_repair  DNA mismatch repair protein, C-terminal domai
    2.9e-11   43.3   0.0    8.7e-11   41.8   0.0    1.7  2  HATPase_c_3     Histidine kinase-, DNA gyrase B-, and HSP90-l
      4e-05   24.1   0.0    0.00011   22.7   0.0    1.7  1  HATPase_c       Histidine kinase-, DNA gyrase B-, and HSP90-l
    0.00011   22.0   0.0    0.00046   20.0   0.0    2.0  2  MutL_C          MutL C terminal dimerisation domain


Domain annotation for each model (and alignments):
>> DNA_mis_repair  DNA mismatch repair protein, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.6   0.0   8.7e-19   3.9e-15      18     118 ..     240     340 ..     220     341 .. 0.90

  Alignments for each domain:
  == domain 1  score: 55.6 bits;  conditional E-value: 8.7e-19
                              EEETTEEEEEEEE-CCG-BTTGGEEEEEETTEEE--HHHHHHHHHHHHCCSSSSSB-EEEEEEEESSGGEE-TSSTT----EETTH CS
           DNA_mis_repair  18 keeeqlkieGfiskpelsrskrdkqflfvNgRlvkskelkkaireaYkellpkgrypvvvLnleidpeevDvNvhPtKreVrfqde 103
                              +  +++k+e +++  + ++ + ++ +lf N+R+ ++k+l+  + ++ + l   g+   +++++++++ee+DvNvhP+K++++f ++
  PHY93_10515|PHY93_10515 240 EFYQDYKVEVYFTPGTHTSPQYRHHYLFANNRFFQDKSLHLSVLRTLEPLWRLGESGHYMVKITVPTEELDVNVHPNKTQIKFLKS 325
                              4456699******************************************************************************* PP

                              HCHHHHHHHHHHHHH CS
           DNA_mis_repair 104 eevieaieealkeal 118
                              + +++++ ++l+ al
  PHY93_10515|PHY93_10515 326 DVIYSLLVTSLRGAL 340
                              **********99887 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.8   0.0   1.9e-14   8.7e-11       7      96 ..      34     123 ..      29     140 .. 0.87
   2 ?   -3.6   0.1       2.1   9.3e+03      97     122 ..     191     216 ..     186     227 .. 0.55

  Alignments for each domain:
  == domain 1  score: 41.8 bits;  conditional E-value: 1.9e-14
              HATPase_c_3   7 laelvdNsldAdaenvkievnknrgktgeivieDdGkGmseeelkn.alrlatsskeakrkstslGkkGi.GlklAslslgkkltv 90 
                              + elv+NsldA +++++i++ +n    + ++ieD+G+Gms e l   +lr ats+ ++ ++   l ++G+ G  lAs+  +++lt 
  PHY93_10515|PHY93_10515  34 IKELVENSLDAGSTEINIHLVENG--LDLLSIEDNGHGMSFESLPYaFLRHATSKLKNYEDLYHLYSFGFrGEALASVAASARLTC 117
                              78********************85..699****************85679999999988888889999998999***********9 PP

              HATPase_c_3  91 itkkeg 96 
                              +t  ++
  PHY93_10515|PHY93_10515 118 TTQPKN 123
                              998665 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 2.1
              HATPase_c_3  97 esstltldvdkidkenekvleeltve 122
                              +++ +++++d  ++e +kv+++ +++
  PHY93_10515|PHY93_10515 191 SQTSFSIKWDEKEREIFKVVAPEHTQ 216
                              44455555555555445555444443 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.7   0.0   2.5e-08   0.00011       7      64 ..      31      91 ..      26     156 .. 0.65

  Alignments for each domain:
  == domain 1  score: 22.7 bits;  conditional E-value: 2.5e-08
                             HHHHHHHHHHHHHHHSTTTEEEEEEEEEE.TEEEEEEEESSSSSTTHHHTGTCSTTCH......H CS
                HATPase_c  7 rqiisnlvdNavkfatkageieveikase.ddlvisveDnGiGipkedlkklfekfsq......d 64
                               +i++lv+N++++   ++ei +++   e +   +s+eDnG G++ e l+  f ++ +      +
  PHY93_10515|PHY93_10515 31 ASLIKELVENSLDA--GSTEINIHLV--EnGLDLLSIEDNGHGMSFESLPYAFLRHATsklknyE 91
                             679**********6..6788888888..4257788***************777655553433231 PP

>> MutL_C  MutL C terminal dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       1.1   4.8e+03      49      58 ..     136     145 ..     124     147 .. 0.86
   2 !   20.0   0.0     1e-07   0.00046       5     121 ..     408     520 ..     406     535 .. 0.87

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 1.1
                              -EEEEEEEEE CS
                   MutL_C  49 ksQpLliPlv 58 
                               sQ+LliP+ 
  PHY93_10515|PHY93_10515 136 GSQELLIPYR 145
                              58******85 PP

  == domain 2  score: 20.0 bits;  conditional E-value: 1e-07
                              EEEEETTTEEEEEETTEEEEEEHHHHHHHHHHHHHHHHCCHSSB-EEEEEEEEEEE--HHHHHHHHHCHHHHHHCT-EEEE-STTE CS
                   MutL_C   5 algqvhgtyilaenedglvlvDqhaAherilyeklkeqlkeeelksQpLliPlvlelspeeaalleehkeeLaklGfeleefgpns 90 
                              +lg +  + +l+  e+++++ D ++    ++   l   +k++e  s pLli + +++++ +   +++h e+L+ lGf+l + + + 
  PHY93_10515|PHY93_10515 408 VLGFISASIVLITLENKFYIADIKKIISEYVSTSLLDFVKNDE-LSGPLLISEPFKVPRGK---IDSHFEDLKDLGFDLDRLNSEV 489
                              688999999999*************999999999999999887.899****9999999976...679******************* PP

                              EEEEEEECCCTTTSHHHHHHHHHHHHCCCSS CS
                   MutL_C  91 livravPallrqqnleelirelleelaekgk 121
                              +++r+ P + +q     +   l++++++++ 
  PHY93_10515|PHY93_10515 490 IALRTLPRFAPQNLSRDITFCLIQYFEQNKV 520
                              ********99888777777788888888774 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (571 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       532  (0.0296726); expected 358.6 (0.02)
Passed bias filter:                      334  (0.018629); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.55u 0.22s 00:00:00.77 Elapsed: 00:00:00.37
# Mc/sec: 4592.44
//
Query:       PHY93_10520|PHY93_10520  [L=318]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.3e-55  188.7   0.2    1.6e-55  188.4   0.2    1.0  1  IPPT           IPP transferase
    9.5e-11   41.5   0.0    2.1e-09   37.2   0.0    2.1  2  IPT            Isopentenyl transferase
  ------ inclusion threshold ------
      0.012   16.2   0.0      0.061   13.9   0.0    2.2  2  AAA_18         AAA domain
      0.016   14.9   0.1        0.1   12.3   0.1    2.2  1  Guanylate_kin  Guanylate kinase
      0.029   13.4   0.1      0.048   12.7   0.1    1.3  1  T2SSE          Type II/IV secretion system protein
      0.061   13.6   0.0       0.11   12.8   0.0    1.4  1  Hydin_ADK      Hydin Adenylate kinase-like domain


Domain annotation for each model (and alignments):
>> IPPT  IPP transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  188.4   0.2   5.4e-59   1.6e-55       2     223 ..      45     295 ..      44     299 .. 0.93

  Alignments for each domain:
  == domain 1  score: 188.4 bits;  conditional E-value: 5.4e-59
                              TBTT-HTTTT---HHHHTTS-EESSS-B-TTS---HHHHHHHHHHHHHHHHHTT-EEEEEES-HHHHHHHHCTG.-S--B--HHHH CS
                     IPPT   2 vYrgmdIgTakptaeeragvphhlidildpdeeysvadFqkdalkaieeilargkipilvGGTglYikallegl.delpeadeelr 86 
                              +Y++++IgTakpt+eer+g++h +idi ++++++++adF k+ + +i+e l++gk +ilvGG+ +Y++all+g+ +++   ++e++
  PHY93_10520|PHY93_10520  45 FYKEISIGTAKPTQEERQGIEHFMIDIESIKTPMNAADFIKRGEVIIKEQLSKGKCVILVGGSAFYLRALLKGMyETIA-PTKEIK 129
                              7************************************************************************967663.4569** PP

                              HHHHHHHHHSHHHHHHHHHHHC-HHHHTTS-TT-HHHHHHHHHHHHHHSS-HH.....................ECEEEEEECSHH CS
                     IPPT  87 aeleeeaeeeglealheelkevdpeaaakihpndrqRiiRalevyeetgkpls.....................ellviglesdre 151
                              +++e+++++eg ++  + l+ +dpe+ +++h+nd++R++Ra   +e tg+++s                     ++l ++l+ +++
  PHY93_10520|PHY93_10520 130 DRIETHYQKEGIDSTIAFLQLYDPESLERLHQNDHYRLMRAALHFEMTGTKFSaqkiamdelspydfsqiihpwQVLHLYLDLPKD 215
                              *****99999*******************************************999999999888888888776668888866*** PP

                              HHHHHHHHHHHHHHHTTHHHHHHHHHH.......CCCCSTTSHHHHHHHTTSS.-HHHHHHHHHHHHHHHHHHHHHHHHT CS
                     IPPT 152 elyeridkRvdemleaGlleEveklla.......kalqaigykelleylegel.sleeaieklkaatrqyaKrQltWfrk 223
                              +  e i+kR+ +m+++Gl++E+ +l +       k l++igyke++e+ +g   + +e+ie++ ++trq+aK Q+t+f+k
  PHY93_10520|PHY93_10520 216 QHFEIIKKRTGKMFSDGLMNEIAELESngfqlgeKPLNSIGYKEAIEWKRGLFpTQSECIERIAISTRQLAKSQRTFFKK 295
                              *************************98666666446***************997799*********************97 PP

>> IPT  Isopentenyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.2   0.0   6.9e-13   2.1e-09       3     113 ..       5     121 ..       3     138 .. 0.80
   2 ?    2.3   0.0     0.032        95     118     183 ..     203     265 ..     188     295 .. 0.76

  Alignments for each domain:
  == domain 1  score: 37.2 bits;  conditional E-value: 6.9e-13
                      IPT   3 vylifGatttGKtaeaiklaket....gap..vivlDRvqcyselavgsGrpleeelegtrRiylddrslseGvidaeeanerLik 82 
                              + +i G+t++GKt+++i lak+      +p  ++  D +  y+e+++g+ +p++ee +g++   +d  s++  + +a++  +r   
  PHY93_10520|PHY93_10520   5 LIIISGPTASGKTQTSIDLAKKIilkfNLPtvIVNFDSLLFYKEISIGTAKPTQEERQGIEHFMIDIESIKTPM-NAADFIKRGEV 89 
                              6789*****************862222344436779*****************************999998865.56666666555 PP

                      IPT  83 evesykd.eeglilEGGSiSLlkrmakdeywn 113
                               ++++ + ++ +il GGS   l+++ k  y +
  PHY93_10520|PHY93_10520  90 IIKEQLSkGKCVILVGGSAFYLRALLKGMYET 121
                              55555554999********9999999887765 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.032
                      IPT 118 wevkrlrlp.dedvflakakkRvrqmlrpeeegaslldElaelwkepka..railedidGyryildyar 183
                              w+v  l l   +d +++  kkR  +m++      +l++E+ael ++  +  ++ l++i Gy+ ++++ r
  PHY93_10520|PHY93_10520 203 WQVLHLYLDlPKDQHFEIIKKRTGKMFSD-----GLMNEIAELESNGFQlgEKPLNSI-GYKEAIEWKR 265
                              55554444323566678889999999987.....899999999888755336789998.9999999965 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0     2e-05     0.061       1     112 [.       6     134 ..       6     166 .. 0.63
   2 ?   -1.0   0.0      0.82   2.4e+03      95     114 ..     207     225 ..     183     243 .. 0.72

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 2e-05
                   AAA_18   1 IlltGtpGvGKttlakeLskrlgf........gvnlrdvakenglllevdpe.....aldeskrldedkldklldaleenss.... 69 
                              I+++G+ ++GKt+ +  L+k+  +         vn  ++++ ++++++  ++     +  e+  +d++  +  ++a     +    
  PHY93_10520|PHY93_10520   6 IIISGPTASGKTQTSIDLAKKI-IlkfnlptvIVNFDSLLFYKEISIGTAKPtqeerQGIEHFMIDIESIKTPMNAA----Dfikr 86 
                              9*******************94.235588988888888888888888888885333322222222222222222222....24444 PP

                   AAA_18  70 .......aleegknlvidghlaeleseaakdikkvvLtaspeelleRlek 112
                                      l +gk +++ g  a ++ + +k +  +   a+++e ++R+e+
  PHY93_10520|PHY93_10520  87 geviikeQLSKGKCVILVGGSAFYLRALLKGM--YETIAPTKEIKDRIET 134
                              66677766666777666666666666655532..3444444555555554 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.82
                   AAA_18  95 kkvvLtaspeelleRlekRg 114
                              +  +L++++++++e ++kR 
  PHY93_10520|PHY93_10520 207 H-LYLDLPKDQHFEIIKKRT 225
                              3.788888888888777775 PP

>> Guanylate_kin  Guanylate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.1   3.3e-05       0.1       2      73 ..       3      88 ..       2      97 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 3.3e-05
                             SSEEEEESTTTSS..............HHHHHHHHHHHSTTTEEE--EEESS---TTS-TTTSEEE--HHHHHHHHHTTTEEEEEE CS
            Guanylate_kin  2 rrpvvlvgpsgaG..............ksslkkaLlselpekfgvsvshtTrdprkgevdGkdYyFvskeemekdiskneflEaae 73
                             +++++++gp+  G              k +l   +++ ++  f   +s  T++p ++e +G + + +  e+++  +++ +f+ ++e
  PHY93_10520|PHY93_10520  3 NKLIIISGPTASGktqtsidlakkiilKFNLPTVIVNFDSLLFYKEISIGTAKPTQEERQGIEHFMIDIESIKTPMNAADFIKRGE 88
                             6899999*99999766666665444434444445555666667778999*********************************9998 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   1.6e-05     0.048     129     146 ..       3      20 ..       1      36 [. 0.80

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 1.6e-05
                    T2SSE 129 rglilvsGgTgsGKttll 146
                              ++li++sG+T sGKt + 
  PHY93_10520|PHY93_10520   3 NKLIIISGPTASGKTQTS 20 
                              689************765 PP

>> Hydin_ADK  Hydin Adenylate kinase-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   3.6e-05      0.11       2      22 ..       6      26 ..       5      43 .. 0.93

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 3.6e-05
                Hydin_ADK  2 iivhGaPlsGKtatavtLakk 22
                             ii+ G+  sGKt+t++ Lakk
  PHY93_10520|PHY93_10520  6 IIISGPTASGKTQTSIDLAKK 26
                             9******************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (318 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       581  (0.0324056); expected 358.6 (0.02)
Passed bias filter:                      508  (0.028334); expected 358.6 (0.02)
Passed Vit filter:                        66  (0.00368119); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.39
# Mc/sec: 2429.22
//
Query:       PHY93_10525|PHY93_10525  [L=284]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.6e-91  305.5   0.3    4.1e-91  305.3   0.3    1.0  1  Kinase-PPPase   Kinase/pyrophosphorylase
  ------ inclusion threshold ------
        0.1   12.5   0.0       0.22   11.4   0.0    1.5  1  Dev_Cell_Death  Development and cell death domain


Domain annotation for each model (and alignments):
>> Kinase-PPPase  Kinase/pyrophosphorylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  305.3   0.3   4.5e-95   4.1e-91       1     255 []      10     267 ..      10     267 .. 0.99

  Alignments for each domain:
  == domain 1  score: 305.3 bits;  conditional E-value: 4.5e-95
            Kinase-PPPase   1 ifvvSdstGetaeavaraalaqFeevevelevlpfvkteekleevleeakeeeaivvyTlvdeelrealeeaaeekgveavdllgp 86 
                              i+v+Sd+tGeta+a+ ra++aqF++ ev +++++ ++t e+++++++ea+ ++ +v++T+v+ +lre+++e +++k+v+++dl+gp
  PHY93_10525|PHY93_10525  10 IIVISDGTGETATAISRAVMAQFKDREVYFTRYKNIRTIEQIDAIFNEAAIHHDLVIHTIVSGKLREYIAELSRNKHVRTLDLIGP 95 
                              79************************************************************************************ PP

            Kinase-PPPase  87 llealeeelgvkpkeepgllhkldedYfkrieAieFalkhDDGkkprklkeADivLvGvSRtsKTPlSlyLaqkglkvaNvPLvpe 172
                              +l+a++++++++p++epgll++++e+Y+kr+eA+eF+l+hDDG++ ++l+ AD++LvGvSRtsKTPlS+yL+q+g+kv+N+P++++
  PHY93_10525|PHY93_10525  96 ALTAFSNYFNQEPMSEPGLLRAVNEEYYKRVEAMEFTLNHDDGRNLASLHLADVILVGVSRTSKTPLSVYLSQHGIKVVNIPMIKD 181
                              ************************************************************************************** PP

            Kinase-PPPase 173 lelpkelfevdkkkvfgLtidperLveiRkeRlkslglkse..sYadlerveeeleeaeklfrkl.gipvidvtnksiEetAaeil 255
                               +lp el evd++k+f+Ltidp++L+eiRk+Rl++lg++++  +Ya+ +++ ee+e+a+++f+++ ++pv++vt+k++EetAa il
  PHY93_10525|PHY93_10525 182 QPLPTELLEVDQRKIFALTIDPDSLSEIRKNRLQRLGADKHqgEYAEHHKIVEEIEWANNIFKENkRWPVFNVTDKALEETAADIL 267
                              *************************************999999********************9999*****************97 PP

>> Dev_Cell_Death  Development and cell death domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   2.5e-05      0.22      77     126 ..      95     144 ..      91     145 .. 0.92

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 2.5e-05
           Dev_Cell_Death  77 paQvrfkikkkckPLaesefkeaikenykekekkfrfeLsekqvkkLlsl 126
                              pa   f+   + +P++e  + +a++e+y+++ + ++f L++++ ++L+sl
  PHY93_10525|PHY93_10525  95 PALTAFSNYFNQEPMSEPGLLRAVNEEYYKRVEAMEFTLNHDDGRNLASL 144
                              566678888999**********************************9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (284 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       569  (0.0317363); expected 358.6 (0.02)
Passed bias filter:                      387  (0.0215851); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 2143.69
//
Query:       PHY93_10530|PHY93_10530  [L=441]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.3e-25   89.1  13.8    5.4e-25   88.0  13.8    1.7  1  MgtE_N       MgtE intracellular N domain
    4.3e-09   36.7   0.2    6.4e-05   23.3   0.0    2.8  2  CBS          CBS domain
    1.4e-07   31.7   1.5    0.00031   20.9   0.2    3.0  2  FliG_M       FliG middle domain
     0.0072   16.9   4.8       0.47   11.1   0.5    3.3  3  DUF5395      Family of unknown function (DUF5395)
  ------ inclusion threshold ------
       0.02   15.0   2.9        2.4    8.3   0.1    3.2  4  PRC          PRC-barrel domain
      0.058   13.9   0.9       0.31   11.6   0.1    2.3  2  FliG_N       FliG N-terminal domain
      0.069   13.4   1.9        9.6    6.4   0.0    2.6  3  FliG_C       FliG C-terminal domain
      0.081   13.1   0.0       0.14   12.3   0.0    1.4  1  sCache_3_2   Single cache domain 3
       0.18   10.4   0.1          1    8.0   0.0    2.0  2  HI0933_like  HI0933-like protein


Domain annotation for each model (and alignments):
>> MgtE_N  MgtE intracellular N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.0  13.8   2.7e-28   5.4e-25       1     102 []     218     320 ..     218     320 .. 0.99

  Alignments for each domain:
  == domain 1  score: 88.0 bits;  conditional E-value: 2.7e-28
                              S-HHHHHHCHCCS-HHHHHHHHHHS-HHHHHHHHCTS-CCCCCHHHHCS-HHHHHHHHCCS-HHHHHHHHCCCHHHHHHHHHHCS. CS
                   MgtE_N   1 lhpadiaelleelpeeeraallrllpkeeaaevleeldedlqeeliealsdeelaelleeldsDdaadlleelpeekveellsal. 85 
                              lhpad+a++le+l++  r  ++++l+++ aae+l+e+dedlq++l+ +  +e++ae++e++d+Ddaadll+el+e++++e++s++ 
  PHY93_10530|PHY93_10530 218 LHPADLADILEDLDSHGREMIFSNLDPKLAAETLSEVDEDLQASLLGSELPEKAAEIIENMDTDDAADLLNELDEDIADEIISNId 303
                              7************************************************************************************8 PP

                              -HHHHHHHHHHCTS-TT CS
                   MgtE_N  86 deeereeieellsYped 102
                              d e++eei+ ll+Y+ed
  PHY93_10530|PHY93_10530 304 DLETQEEIQDLLEYDED 320
                              89*************98 PP

>> CBS  CBS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.4   0.0   0.00034      0.68       3      52 ..     324     378 ..     322     381 .. 0.78
   2 !   23.3   0.0   3.2e-08   6.4e-05       1      55 [.     386     441 .]     386     441 .] 0.82

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00034
                              HHSBSSCEEEETTSBHHHHHHHHHHHT......SSEEEEEETTTBEEEEEEHHHHH CS
                      CBS   3 dimtrdvvtvppdttleealelmrekg......vsrlPVVdedgklvGivtlrDll 52 
                               +mt++++ vp +   +e+l l+ ek+      +  ++VVde++ l+G ++l  ll
  PHY93_10530|PHY93_10530 324 GLMTSEIFEVPSNLRKSEVLTLIQEKHdevasfF-DIYVVDENHILIGTLSLQELL 378
                              5788888888888888999999976666854433.67788************9987 PP

  == domain 2  score: 23.3 bits;  conditional E-value: 3.2e-08
                              HHHHSBS.SCEEEETTSBHHHHHHHHHHHT.SSEEEEEETTTBEEEEEEHHHHHHHH CS
                      CBS   1 Vgdimtr.dvvtvppdttleealelmrekg.vsrlPVVdedgklvGivtlrDllral 55 
                              V+++m++ d+ +++ dt  +++++ m ++  v  +P++ e+ +l+G+v+  D+l+ l
  PHY93_10530|PHY93_10530 386 VSEMMNDsDIKCLNADTHWKQVADFMNKYSmV-TVPIISEQYELLGMVSVDDILDRL 441
                              78887776999***************554455.9999944447***********865 PP

>> FliG_M  FliG middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.2   0.1   0.00034      0.67      18      42 ..     237     261 ..     220     263 .. 0.89
   2 !   20.9   0.2   1.5e-07   0.00031       5      51 ..     260     306 ..     260     316 .. 0.92

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00034
                              HHHHTS-HHHHHHHHHTS-HHHHHH CS
                   FliG_M  18 liLsyLdpeqAAevLseLpeelrae 42 
                              +i s Ldp+ AAe Lse +e+l+a 
  PHY93_10530|PHY93_10530 237 MIFSNLDPKLAAETLSEVDEDLQAS 261
                              699*******************986 PP

  == domain 2  score: 20.9 bits;  conditional E-value: 1.5e-07
                              HHHHTTS-HHHHHHHHHTS-HHHHHHHHHTS-HHHHHHHHHHHHTCC CS
                   FliG_M   5 anllknEhPqtiAliLsyLdpeqAAevLseLpeelraevirriatle 51 
                              a+ll +E P+ +A i+  +d + AA++L+eL+e+++ e+i  i  le
  PHY93_10530|PHY93_10530 260 ASLLGSELPEKAAEIIENMDTDDAADLLNELDEDIADEIISNIDDLE 306
                              68999************************************998887 PP

>> DUF5395  Family of unknown function (DUF5395)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.8   0.0    0.0053        11       9      47 ..     233     270 ..     226     281 .. 0.78
   2 !   11.1   0.5   0.00024      0.47      14      61 ..     274     322 ..     269     328 .. 0.87
   3 ?   -1.6   0.1       2.2   4.4e+03      49      68 ..     406     426 ..     357     428 .. 0.59

  Alignments for each domain:
  == domain 1  score: 6.8 bits;  conditional E-value: 0.0053
                  DUF5395   9 dgekWiaeneelvvkgktleeLDenlakelkkrgdfkgk 47 
                               g++ i +n + + +++tl+e+De+l+  l  + +++ k
  PHY93_10530|PHY93_10530 233 HGREMIFSNLDPKLAAETLSEVDEDLQASLLGS-ELPEK 270
                              47888899999999**************99988.45444 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 0.00024
                  DUF5395  14 iaeneelvvkgktleeLDenlakelkkr.gdfkgksqvevfmkfDyeti 61 
                              i+en +   +++ l+eLDe++a+e+  + +d++++++++  +++D +t 
  PHY93_10530|PHY93_10530 274 IIENMDTDDAADLLNELDEDIADEIISNiDDLETQEEIQDLLEYDEDTA 322
                              788888888999***********9987779***************9985 PP

  == domain 3  score: -1.6 bits;  conditional E-value: 2.2
                  DUF5395  49 qvevfm.kfDyetiPtwirqy 68 
                              qv  fm k+ + t+P    qy
  PHY93_10530|PHY93_10530 406 QVADFMnKYSMVTVPIISEQY 426
                              233344257777777776666 PP

>> PRC  PRC-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   0.1    0.0012       2.4      10      72 ..      18      76 ..      12      80 .. 0.75
   2 ?    5.5   0.0    0.0092        18      10      39 ..     120     149 ..     119     177 .. 0.80
   3 ?   -2.2   0.0       2.3   4.5e+03      18      60 ..     295     336 ..     293     346 .. 0.68
   4 ?   -3.2   0.0       4.7   9.4e+03      11      25 ..     358     372 ..     348     383 .. 0.66

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0012
                             TT-EEEETTSSEEEEEEEEEEETTTTEEEEEEEEETTT.....-EEEEEGG.CEECCCTEEEE CS
                      PRC 10 iGkeVytedGeklGkVkDvvidekegrvralvvsvggflgigekevliPfdlavkigkdriiv 72
                             +G  +y+edG klG + D  id +e ++  l +   +     +  ++i +d++++   ++ii+
  PHY93_10530|PHY93_10530 18 VGINIYNEDGHKLGSLIDYFIDYEEIYPSVLAIQYTRS----GVLFYILWDEIISFSYKKIII 76
                             5778******************9998888877776654....366666666666655555555 PP

  == domain 2  score: 5.5 bits;  conditional E-value: 0.0092
                              TT-EEEETTSSEEEEEEEEEEETTTTEEEE CS
                      PRC  10 iGkeVytedGeklGkVkDvvidekegrvra 39 
                               +k+++++ G+k+ +V+D+ +  ++ ++r 
  PHY93_10530|PHY93_10530 120 LDKQIVDTHGKKVVRVNDIQFIRAGKELRV 149
                              5799***************99776666555 PP

  == domain 3  score: -2.2 bits;  conditional E-value: 2.3
                              TSSEEEEEEEEEEETTTTEEEEEEEEETTT.....-EEEEEGG CS
                      PRC  18 dGeklGkVkDvvidekegrvralvvsvggflgigekevliPfd 60 
                               +e++  + D+   e+ +++++   ++ g+l ++++ +++P +
  PHY93_10530|PHY93_10530 295 ADEIISNIDDLETQEEIQDLLEYDEDTAGGL-MTSEIFEVPSN 336
                              5677888888877777777777777777653.57777777766 PP

  == domain 4  score: -3.2 bits;  conditional E-value: 4.7
                              T-EEEETTSSEEEEE CS
                      PRC  11 GkeVytedGeklGkV 25 
                              +  V++e+   +G++
  PHY93_10530|PHY93_10530 358 DIYVVDENHILIGTL 372
                              455788887788877 PP

>> FliG_N  FliG N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.0      0.66   1.3e+03      65      98 ..     224     257 ..     200     263 .. 0.56
   2 ?   11.6   0.1   0.00016      0.31       5      49 ..     268     310 ..     266     326 .. 0.87

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 0.66
                              CCHHCHHHHHHHHHHHHHHSHHHHHHHCHHHHXX CS
                   FliG_N  65 eylseggeeyarelLekalgeekaeellerltae 98 
                              +++ e+ ++  re++ + l+++ a+e l+++ ++
  PHY93_10530|PHY93_10530 224 ADILEDLDSHGREMIFSNLDPKLAAETLSEVDED 257
                              4555555555666666666666666666665555 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 0.00016
                              HHHHHHHHHHCXHHHHHHHHTTSXHHHHHHHHHHHHCHTTXXHHH CS
                   FliG_N   5 vqkaAilllaLgeeeaaevlkhLdeeeiekltkeiaslksvskee 49 
                              ++kaA ++  ++ ++aa +l +Lde+   +++  i  l++  +ee
  PHY93_10530|PHY93_10530 268 PEKAAEIIENMDTDDAADLLNELDEDIADEIISNIDDLET--QEE 310
                              69*********************************99996..444 PP

>> FliG_C  FliG C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.4   0.0    0.0048       9.6      36      73 ..     215     253 ..     201     263 .. 0.80
   2 ?    4.6   0.3     0.018        36      33      65 ..     272     304 ..     263     322 .. 0.79
   3 ?   -3.3   0.0         5     1e+04      59      86 ..     410     437 ..     402     438 .. 0.76

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.0048
                              HTTS-HHHHHHHHCTS-HHHHHHHHTTS.-HHHHHHHHH CS
                   FliG_C  36 lrevdkedLalaLkgaseelrekilsnm.Skraaemlre 73 
                              l+++++ dLa  L   ++  re i+sn+ +k aae+l e
  PHY93_10530|PHY93_10530 215 LKQLHPADLADILEDLDSHGREMIFSNLdPKLAAETLSE 253
                              78999999********************55555555554 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.018
                              HHHHTTS-HHHHHHHHCTS-HHHHHHHHTTS-H CS
                   FliG_C  33 qrllrevdkedLalaLkgaseelrekilsnmSk 65 
                               ++++++d++d a +L+  +e++ + i+sn+  
  PHY93_10530|PHY93_10530 272 AEIIENMDTDDAADLLNELDEDIADEIISNIDD 304
                              689999999999999999999999999999854 PP

  == domain 3  score: -3.3 bits;  conditional E-value: 5
                              HHTTS-HHHHHHHHHHHHHC-S--HHHH CS
                   FliG_C  59 ilsnmSkraaemlreelealgpvrlsdv 86 
                              ++++ S     ++ e++e lg v+++d+
  PHY93_10530|PHY93_10530 410 FMNKYSMVTVPIISEQYELLGMVSVDDI 437
                              5555666666678899999999999886 PP

>> sCache_3_2  Single cache domain 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   6.9e-05      0.14      64     124 ..     376     434 ..     293     434 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 6.9e-05
               sCache_3_2  64 rvlahpdpaevgrklsgpataaalkagrayvgtvtgtlgpslrvklPvfdadgrviGivsv 124
                              ++l h +   v +++   ++++ l a++++ +++++  +++  v +P+++++ ++ G+vsv
  PHY93_10530|PHY93_10530 376 ELLIHKENLLVSEMM-NDSDIKCLNADTHWKQVADF-MNKYSMVTVPIISEQYELLGMVSV 434
                              445554444667777.8899***************9.9*********************98 PP

>> HI0933_like  HI0933-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0      0.22   4.3e+02      97     126 ..      83     112 ..      61     140 .. 0.78
   2 ?    8.0   0.0    0.0005         1     267     365 ..     241     330 ..     223     345 .. 0.77

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.22
                              STTEEEETT.-CHHHHHHHHHHHHHHT-EE CS
              HI0933_like  97 dsgrlFpvsdkaedivdallkelkeagvkl 126
                              ++ r Fp++ + +++ ++l ++   + v++
  PHY93_10530|PHY93_10530  83 RRSRTFPKTLNTKTVTSILANQFAGSTVEY 112
                              57899**************99998888875 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.0005
                              ECSTTS-...HHHHHHHHHHHTTTSBHHHH.HTTTS-HHHHHHHHHC..TTT-TTBGGG--HHHHHHHHHHHHSEEE--SEE--TT CS
              HI0933_like 267 dllPdldaeelkaalekekekeskkslkna.laellpkrlvevlleealieeedkklaqlskkelkklaealkaltvkvngteglr 351
                              +l P+l          +e  +e +++l+ + l + lp++ +e++ +  + +++   l++l ++  +++++++ +l+ + + +  l+
  PHY93_10530|PHY93_10530 241 NLDPKLA---------AETLSEVDEDLQASlLGSELPEKAAEIIENM-DTDDAADLLNELDEDIADEIISNIDDLETQEEIQDLLE 316
                              4444444.........3333444444444427889****99877665.77799999**********************99999999 PP

                              T-SEEEEEE-GGGB CS
              HI0933_like 352 kaevTaGGVdlkev 365
                                e TaGG  ++e+
  PHY93_10530|PHY93_10530 317 YDEDTAGGLMTSEI 330
                              9**********998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (441 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       676  (0.0377043); expected 358.6 (0.02)
Passed bias filter:                      442  (0.0246528); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.39
# Mc/sec: 3365.46
//
Query:       PHY93_10535|PHY93_10535  [L=416]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.9e-90  301.8  20.2    7.5e-90  301.5  20.2    1.1  1  Nramp     Natural resistance-associated macrophage protein


Domain annotation for each model (and alignments):
>> Nramp  Natural resistance-associated macrophage protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  301.5  20.2   4.2e-94   7.5e-90       1     357 [.      40     391 ..      40     392 .. 0.97

  Alignments for each domain:
  == domain 1  score: 301.5 bits;  conditional E-value: 4.2e-94
                    Nramp   1 iatdlqaGaqfGykLlwvlllstllaillqelsarLGlvTgkglaelirerlpkkvsillwilaelaiiatdlaeviGaAialnll 86 
                              iat++ aGaq Gy L+w+l+ +t++++++qe+sar+G+v+gkgla+lire+++ k++++ ++ ++ a +++ +ae++G+A a +++
  PHY93_10535|PHY93_10535  40 IATYSLAGAQTGYRLMWILIPVTIALVMFQEMSARMGIVSGKGLADLIREKFGLKITFYSLFFLLFADLGNTMAEFAGIASAGEIF 125
                              79********************************************************************************9986 PP

                    Nramp  87 fgipllvgvlitavlvllllflekggyrklEaliialvlvialsFiaelflvkpdwgevlkglvvPslpg..keslllavgilGat 170
                               g + + +v+i+a++v+l+++  k +y+++E+++i+ ++v+ l++i++ +l+ pdw ev +++v P +++   + + ++v++lG+t
  PHY93_10535|PHY93_10535 126 -GASRYFTVPICALVVWLIIL--KSNYKTVERIFIIGCSVF-LTYIVSGLLAGPDWMEVTTAIVKPDFHSlsVKDFPIMVALLGTT 207
                              .5*******************..******************.****************************99999*********** PP

                    Nramp 171 vmphnlflhsslvqerkitidrsekeealkyeriDtiialivaflinlailivaAavlysggkdvesledaaeaLepllGskaasv 256
                              ++p+++f+ +s v+e++i++    k+  l ++++D+i++++++++++++i+i++Aa++++ g  +++++daa aLepl+G k+as+
  PHY93_10535|PHY93_10535 208 ITPWMQFYIQSAVVEKGIST----KH--LWHSKVDVIAGCTLTLFVSMFIIICCAATIHKMGITITDAKDAAVALEPLAG-KYASM 286
                              *****************555....55..*******************************99999****************.7**** PP

                    Nramp 257 lFaigLlaaGlsStitgtlagqyvmegflglrislwlrrlitralafvpalivilligaele......lvkllvlsqvllslllPf 336
                              lF+igL++a++ ++ +++la++y +++ +g+++ +++++  ++a  f  +++ +++ig +++      l+++l++sqv+ +ll+P+
  PHY93_10535|PHY93_10535 287 LFGIGLFNASFFAAAILPLAASYYICEGMGWESGVDRSF--KEAPHFFSIFTSMIVIGGAITlipsinLFNILYYSQVIDGLLIPI 370
                              ***********************************6665..********************************************* PP

                    Nramp 337 aliplllltsskklMGefkns 357
                              ++++++ l+++ ++MGe++ns
  PHY93_10535|PHY93_10535 371 VILFIIKLCNDPDIMGEYTNS 391
                              ********************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (416 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       801  (0.0446762); expected 358.6 (0.02)
Passed bias filter:                      303  (0.0169); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.39
# Mc/sec: 3174.93
//
Query:       PHY93_10540|PHY93_10540  [L=668]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.9e-40  137.6   0.3    9.1e-40  136.7   0.0    1.5  2  Pkinase         Protein kinase domain
    1.1e-34  119.9   0.0    1.8e-34  119.2   0.0    1.3  1  Pkinase_Tyr     Protein tyrosine kinase
    5.2e-06   25.5   0.3    1.2e-05   24.3   0.0    1.6  2  Pkinase_fungal  Fungal protein kinase
    0.00025   21.1   0.0     0.0032   17.4   0.0    2.2  2  APH             Phosphotransferase enzyme family
    0.00093   18.8   0.1      0.013   15.1   0.0    2.3  2  RIO1            RIO1 family


Domain annotation for each model (and alignments):
>> Pkinase  Protein kinase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  136.7   0.0   2.5e-43   9.1e-40      21     254 ..      35     275 ..      14     285 .. 0.85
   2 ?   -3.7   0.0       1.7   6.1e+03     139     161 ..     366     393 ..     362     397 .. 0.68

  Alignments for each domain:
  == domain 1  score: 136.7 bits;  conditional E-value: 2.5e-43
                              TTTTEEEEEEEEECHCHCHHHH.HHHHHHHHHHHHHSCTTB--EEEEEEESSEEEEEEE--TTEBHHHHHH....HHSS--HHHHH CS
                  Pkinase  21 ketgkivAvKkikkekakkkke.kkvlrEikilkklkhpnivrlyevfeekdelylvleyveggeladlle....rkgslseeeak 101
                              ++ +k vA+K+++ +  k++   + ++ Eik+   l hpn+++ y++  +k +l++ +ey++g +l+++l     rk +++ e   
  PHY93_10540|PHY93_10540  35 EQVDKVVAIKMVQPQYSKDEAFkTMFMDEIKVTFGLLHPNVIQTYDYGLNKGQLFVAMEYCDGRNLKEFLDklkeRKFVFPVEIST 120
                              456799******9988877766478899*************************************998888887677789999999 PP

                              HHHHHHHHHHHHHHHTT.........EE-SS-SGGGEEEETTTEEEE-SGTTSEESSSSCS..BCTTTSCGGGS-HHHHTTSCBSH CS
                  Pkinase 102 kiakqilegleylHskg.........iiHrDlKpeNiLidekgelKitDFGlakelesssk..ltsfvgtseYlAPEvlkeneysk 176
                               i++q ++gl y H  +         iiHrD+ p+Ni++  +g +Ki+DFG+ak  ++s+   + ++ g   YlAPE l++ e ++
  PHY93_10540|PHY93_10540 121 YIISQACQGLYYAHTFRdkltgteanIIHRDISPHNIMLTYDGAVKIIDFGIAKSKSNSEAtqAGTIKGKLSYLAPEYLEGAELDP 206
                              9*************876678888999******************************999987788999****************** PP

                              HHHHHHHHHHHHHHHHSS-STTTSSHHHHHHHHHHTHHHHHHHCTSHH...HHHTTS-HHHHHHHHHHT-SSGCCSTT CS
                  Pkinase 177 kvDvWslGvilyelltgkppfsgekgkekvekeldqlekilkilgetkeklpeaseiseeakdllkkllkkdpkkRlt 254
                                D ++lG++l+e+l+ + +f+++++   v k++++    +ki     + +  + ++++e+ +++ k l+kd++kR+ 
  PHY93_10540|PHY93_10540 207 RYDQFALGITLWEMLCSRKLFKENNDLA-VLKKIQE----CKI----PVPSSINPNVPRELDEIVLKALSKDRTKRFD 275
                              **********************333333.3333333....222....34556666779******************85 PP

  == domain 2  score: -3.7 bits;  conditional E-value: 1.7
                              E-SGTTSEESSSSCS.....BCTTTSCG CS
                  Pkinase 139 itDFGlakelesssk.....ltsfvgts 161
                              + DFG+ ++ +++++     ++s  gt+
  PHY93_10540|PHY93_10540 366 VLDFGFEAKSKQTQTvkrmgASSASGTK 393
                              6799998888888775555555555555 PP

>> Pkinase_Tyr  Protein tyrosine kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  119.2   0.0   4.9e-38   1.8e-34       6     250 ..      18     274 ..      14     284 .. 0.88

  Alignments for each domain:
  == domain 1  score: 119.2 bits;  conditional E-value: 4.9e-38
                              EEEEESSEEEEEEEEETTTTSSEEEEEEEEESTTSSHHH..HHHHHHHHHHHHTS-BTTB--EEEEEESSSSEEEEEE--TTEBHH CS
              Pkinase_Tyr   6 klGeGafGkVvegtlkgekekkevkVavKtlkeeateee..keelleeakimkklkhpnivkllgvctkeepllivteyvkgGdLl 89 
                              +l  G  +k+++++     e+ +  Va+K+++ +++++e  k+++++e+k+   l hpn+++ +   +++++l++ +ey++g +L+
  PHY93_10540|PHY93_10540  18 HLVDGGMAKICRARFL--GEQVDKVVAIKMVQPQYSKDEafKTMFMDEIKVTFGLLHPNVIQTYDYGLNKGQLFVAMEYCDGRNLK 101
                              6778999999999999..899999********99999988899******************************************* PP

                              HHHHHTCTTTS..BHHHHHHHHHHHHHHHHHHH.........HTTEEEST-SGGGEEEEETTEEEE-STTTHEETTTSSEEEETTS CS
              Pkinase_Tyr  90 kfLrkkekekl..tlkdllsfalqvAkGmeyLe.........skklvHrdlaarNvLlsenkvvkisDfGLardiekddeyvkkee 164
                              +fL k +++k+   ++  + ++ q ++G+ y +         + +++Hrd++  N++l+ +  vki DfG+a++  +++e +++++
  PHY93_10540|PHY93_10540 102 EFLDKLKERKFvfPVEISTYIISQACQGLYYAHtfrdkltgtEANIIHRDISPHNIMLTYDGAVKIIDFGIAKSK-SNSEATQAGT 186
                              ***99977776115666778999********87333333333468****************************99.88889999** PP

                              STSGGGGS-HHHHHHSEEEHHHHHHHHHHHHHHHHTTSSGTTTTSHHHHHHHHHHTTEE...S-BBTTSBHHHHHHHHHHT-SSGG CS
              Pkinase_Tyr 165 aklpvkWmapEslkekkftsksDvWsfGvllwEiftlgespypglkneevleklkegkr...lekpekcpeelyelmkkcweedpe 247
                               k  + ++apE l+  ++  + D ++ G++lwE+++ +++ +++ ++  vl+k++e k     + + ++p+el e++ k +++d +
  PHY93_10540|PHY93_10540 187 IKGKLSYLAPEYLEGAELDPRYDQFALGITLWEMLC-SRKLFKENNDLAVLKKIQECKIpvpSSINPNVPRELDEIVLKALSKDRT 271
                              ***********************************9.99999999999999999876643335667899***************99 PP

                              GS- CS
              Pkinase_Tyr 248 eRp 250
                              +R 
  PHY93_10540|PHY93_10540 272 KRF 274
                              995 PP

>> Pkinase_fungal  Fungal protein kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.3   0.0   3.4e-09   1.2e-05     325     392 ..     144     205 ..     135     218 .. 0.88
   2 ?   -2.3   0.3       0.4   1.4e+03     247     264 ..     403     431 ..     359     491 .. 0.45

  Alignments for each domain:
  == domain 1  score: 24.3 bits;  conditional E-value: 3.4e-09
           Pkinase_fungal 325 kagiLHrDiSenNilitdskkegerkglLiDLDlakelsddssesgarertGTleFmaievlkgeeHs 392
                              +a+i+HrDiS +Ni++t      +    +iD+ +ak+ s+ s++ +a++  G l ++a e l+g e  
  PHY93_10540|PHY93_10540 144 EANIIHRDISPHNIMLT-----YDGAVKIIDFGIAKSKSN-SEATQAGTIKGKLSYLAPEYLEGAELD 205
                              79***************.....788999***********6.777788999999999999999987655 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 0.4
           Pkinase_fungal 247 e...........lsskaevklkksesskk 264
                              +            s+ + +++k+s  +++
  PHY93_10540|PHY93_10540 403 SsriisdltkssISTLKPGQTKSSIVKGD 431
                              01222222322333333333333333333 PP

>> APH  Phosphotransferase enzyme family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   0.0      0.16   5.6e+02      58      84 ..      76     102 ..      69     113 .. 0.74
   2 !   17.4   0.0     9e-07    0.0032     164     196 ..     143     173 ..     131     175 .. 0.76

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 0.16
                              CTTBS-EEETTEEEEEEE----EE-SS CS
                      APH  58 lagdtddeeigllfalieyvpgrsllr 84 
                              + +   +  +g lf+++ey++gr l +
  PHY93_10540|PHY93_10540  76 IQTYDYGLNKGQLFVAMEYCDGRNLKE 102
                              4444455567789**********9877 PP

  == domain 2  score: 17.4 bits;  conditional E-value: 9e-07
                              S-EEEE-SS-SGGGEEEC..TTEEEEE---TT- CS
                      APH 164 lptvllHgDlhpgNllvdpddgrvtGviDfeda 196
                               ++ ++H+D++p+N++++ d g v  +iDf+ a
  PHY93_10540|PHY93_10540 143 TEANIIHRDISPHNIMLTYD-GAV-KIIDFGIA 173
                              56779*************33.333.49***976 PP

>> RIO1  RIO1 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0   3.6e-06     0.013     123     160 ..     143     181 ..     122     184 .. 0.82
   2 ?    0.8   0.0     0.086   3.1e+02      57      78 ..     231     252 ..     223     291 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 3.6e-06
                              HTSTEEESS-STTSEEEETT.EEEE--GTTEEETTSTTH CS
                     RIO1 123 keaglvHaDLSeyNvlvded.kvviIDvsQaveldhpna 160
                              +ea+++H D+S  N++++ d  v iID++ a ++++ +a
  PHY93_10540|PHY93_10540 143 TEANIIHRDISPHNIMLTYDgAVKIIDFGIAKSKSNSEA 181
                              6899***********99998899*****98877777666 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.086
                              HHHHHHHHHHHTT--S--EEEE CS
                     RIO1  57 kEfrnLkrleeagvpvPkpiel 78 
                              +  + Lk+++e ++pvP+ i+ 
  PHY93_10540|PHY93_10540 231 NDLAVLKKIQECKIPVPSSINP 252
                              5678899999999999998864 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (668 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       810  (0.0451782); expected 358.6 (0.02)
Passed bias filter:                      606  (0.0338); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.68u 0.24s 00:00:00.92 Elapsed: 00:00:00.41
# Mc/sec: 4948.10
//
Query:       PHY93_10545|PHY93_10545  [L=174]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (174 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       426  (0.0237604); expected 358.6 (0.02)
Passed bias filter:                      327  (0.0182386); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.20s 00:00:00.62 Elapsed: 00:00:00.37
# Mc/sec: 1409.12
//
Query:       PHY93_10550|PHY93_10550  [L=322]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.8e-29  102.7   0.0    2.2e-29  102.4   0.0    1.1  1  Hydrolase_4    Serine aminopeptidase, S33
    4.4e-05   23.3   0.0    6.6e-05   22.7   0.0    1.4  1  Abhydrolase_1  alpha/beta hydrolase fold
    0.00046   20.8   0.0    0.00055   20.6   0.0    1.1  1  Abhydrolase_6  Alpha/beta hydrolase family
     0.0023   17.7   0.1      0.012   15.3   0.0    2.1  2  PGAP1          PGAP1-like protein
  ------ inclusion threshold ------
      0.041   13.2   0.0      0.078   12.3   0.0    1.4  1  CASP_C         CASP C terminal
      0.088   12.4   0.0       0.13   11.7   0.0    1.4  1  LIDHydrolase   Lipid-droplet associated hydrolase


Domain annotation for each model (and alignments):
>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  102.4   0.0   7.5e-33   2.2e-29       3     238 ..      63     306 ..      61     307 .. 0.92

  Alignments for each domain:
  == domain 1  score: 102.4 bits;  conditional E-value: 7.5e-33
              Hydrolase_4   3 pkavvvlvHGlaehsgryaelaeaL..aaqGfavyalDhrGhGrsegkrghvpsfddyvdDlaafvekvkeehpel.plfllGhSm 85 
                               k +++l+H ++++ gr++ l+++    + G++++a+D  GhG s g rgh+++f+++v+D+  ++++++++  +  + ++lGh +
  PHY93_10550|PHY93_10550  63 KKITIFLLHDIGQYHGRFNSLINWTraKNPGVSFVAMDFVGHGLSSGTRGHFDKFSHLVNDFLHLLKMMEKDLAGNeKWIILGHGV 148
                              6789****************99876115679***************************************6655544********* PP

              Hydrolase_4  86 GGliallyllrypd....kvaglilsaPalkikaklk.appllklllkllgkllpklqvsnnlkadslsrdpevvaayeadplvhg 166
                              GGl+al +l r p     +++glils+  lk  +++  + + l  +l  ++kl+ + ++++    + + + p+ +  ye+dplv  
  PHY93_10550|PHY93_10550 149 GGLVALDLLNRVPGaaenRIDGLILSNFILKFSSPFLqMEEQLMTFLAGIKKLIAHSRLHRLQRGEEILSSPDDILTYEQDPLVVH 234
                              *********8777777779**************9996677777778888889999999999999********************** PP

              Hydrolase_4 167 kitvrlllelldamkrleeraakitlPllllhGeaDkvvdpeasrelyerlgskdktlklypglyHellnEp 238
                              ++t++ + e+ + ++++ ++   ++ Pl+ll++e+  + + +    +++ ++++  t k y  + H+l nE 
  PHY93_10550|PHY93_10550 235 RPTLNSIKEIQNKVANIYQDSYFLEKPLMLLQSENGAIGQSNSMDYFARGIKKNLLTEKKYSLMKHDLYNEI 306
                              ******************************************99**************************96 PP

>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.7   0.0   2.2e-08   6.6e-05      26     127 ..      89     197 ..      76     251 .. 0.86

  Alignments for each domain:
  == domain 1  score: 22.7 bits;  conditional E-value: 2.2e-08
                              HHT.TSEEEEEEETTSTTSSSTTTGB.CHHSHHHHHHHHH...HH.HHHCTTSSEEEEEETHHHHHHHHHHHHH....GGGEEEEE CS
            Abhydrolase_1  26 akd.gfdvillDlrGvgySspapacinddygtasvaddld...ri.ldalgddkltlvGhSmGGmialayaaey....perVkalv 102
                              ak+ g  ++++D  G+g Ss       d ++   v+d+l+   +  +d  g++k++++Gh  GG++al ++ +      +r+++l+
  PHY93_10550|PHY93_10550  89 AKNpGVSFVAMDFVGHGLSSGTRGHF-DKFSHL-VNDFLHllkMMeKDLAGNEKWIILGHGVGGLVALDLLNRVpgaaENRIDGLI 172
                              34458889************999866.556554.777777663448**************************************** PP

                              EESECSSCCHHHHHHHHHHHHHHCH CS
            Abhydrolase_1 103 llgaidpaaslieaqrqqaksfpdf 127
                              l + i  ++s+   ++ q+++f   
  PHY93_10550|PHY93_10550 173 LSNFILKFSSPFLQMEEQLMTFLAG 197
                              ****999999999999999998765 PP

>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.6   0.0   1.9e-07   0.00055       2      95 ..      68     175 ..      67     257 .. 0.61

  Alignments for each domain:
  == domain 1  score: 20.6 bits;  conditional E-value: 1.9e-07
                              EEE--GC.....GCHHHH...HHHHCCTCEEEEE--TTSTS-GGCS--HHHCHHH.HHHHCCTT.......TTSE.EEEEETCHHH CS
            Abhydrolase_6   2 lllHGagssassWlvapL...aallaagvhvlapDlpGhGrsdpppldledladl.aalldelaa.....gggpv.vlvGHSlGGa 77 
                              +llH  g  ++ +   +L    ++ + gv  +a+D+ GhG s++   +++   +l  ++l+ l++      g++  +++GH  GG+
  PHY93_10550|PHY93_10550  68 FLLHDIGQYHGRF--NSLinwTRAKNPGVSFVAMDFVGHGLSSGTRGHFDKFSHLvNDFLHLLKMmekdlAGNEKwIILGHGVGGL 151
                              5666555522333..3445556777777666*********888888888665555444555555555565455558********** PP

                              HHHHHHHCC...........EEEEES- CS
            Abhydrolase_6  78 lalaaapla.........lvvgvlldp 95 
                              +al    l+         ++ g++l+ 
  PHY93_10550|PHY93_10550 152 VALD---LLnrvpgaaenRIDGLILSN 175
                              ****...33333555777666655444 PP

>> PGAP1  PGAP1-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   4.1e-06     0.012      65     120 ..     114     169 ..      15     217 .. 0.76
   2 ?    0.3   0.0      0.16   4.8e+02      20      68 ..     241     300 ..     235     310 .. 0.63

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 4.1e-06
                    PGAP1  65 lldqaeylndaIkyIlslysssekeptsviliGHSmGGivaraalt.lknyikqsvn 120
                                +  +++nd ++  l+++++    +++ i++GH +GG+va  +l   +  +++ ++
  PHY93_10550|PHY93_10550 114 FDKFSHLVNDFLHL-LKMMEKDLAGNEKWIILGHGVGGLVALDLLNrVPGAAENRID 169
                              44555677777776.9*************************7665413344444454 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.16
                    PGAP1  20 vrslAseaaeayqe...........lrkllknqnkkeldfftvdfneelsaldGrtlldq 68 
                              ++ + +++a+ yq+           +++     +++++d+f+   +++l   +  +l ++
  PHY93_10550|PHY93_10550 241 IKEIQNKVANIYQDsyflekplmllQSENGAIGQSNSMDYFARGIKKNLLTEKKYSLMKH 300
                              444444555555555555788777644555555566799999888887776666666555 PP

>> CASP_C  CASP C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   2.6e-05     0.078      11      56 ..      13      56 ..       2      82 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 2.6e-05
                   CASP_C 11 eaeleeqkeLnekLEndllkvqseasnaskasdassagsevsrkae 56
                             +++l+eqk+L +kLEn+++ ++ ++s++  +s++ss + +v+r+++
  PHY93_10550|PHY93_10550 13 TEKLQEQKKLWKKLENNISITHFSSSAS--TSGSSSSQVYVKRYEP 56
                             679***************9888887755..5677777789999874 PP

>> LIDHydrolase  Lipid-droplet associated hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   4.5e-05      0.13      64     111 ..     123     168 ..      73     203 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 4.5e-05
             LIDHydrolase  64 QiehkedflkellekaksekdvklilvGHSvGaYialevlkrlsers...i 111
                                 h  +++++       + + k i++GH vG  +al +l+r++  +   i
  PHY93_10550|PHY93_10550 123 DFLHLLKMMEKD-----LAGNEKWIILGHGVGGLVALDLLNRVPGAAenrI 168
                              333444444444.....4599********************9987655554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (322 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       910  (0.0507558); expected 358.6 (0.02)
Passed bias filter:                      599  (0.0334096); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.41
# Mc/sec: 2380.09
//
Query:       PHY93_10555|PHY93_10555  [L=267]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.2e-24   85.0   0.6    1.7e-14   53.3   0.1    2.8  3  GYF_2     GYF domain 2


Domain annotation for each model (and alignments):
>> GYF_2  GYF domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.3   0.1   9.5e-19   1.7e-14       1      50 []       4      53 ..       4      53 .. 0.99
   2 ?   -1.7   0.1      0.14   2.6e+03      40      50 .]      98     108 ..      98     108 .. 0.90
   3 !   28.8   0.0   4.3e-11   7.8e-07      11      48 ..     127     164 ..     123     164 .. 0.95

  Alignments for each domain:
  == domain 1  score: 53.3 bits;  conditional E-value: 9.5e-19
                    GYF_2  1 WyyadngqqqGPfsleeLkelaasgeitpdtlVWreGmddWkpasevpeL 50
                             Wyy+ +++++GP+  e Lk+l+ + ei+ +++VWr+G+++W ++++v eL
  PHY93_10555|PHY93_10555  4 WYYVLGSERVGPVGVETLKDLFLKEEINLESYVWRKGFQNWERIKDVSEL 53
                             *************************************************9 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 0.14
                    GYF_2  40 dWkpasevpeL 50 
                              dWk ++e +eL
  PHY93_10555|PHY93_10555  98 DWKSVREEEEL 108
                              8*****99998 PP

  == domain 3  score: 28.8 bits;  conditional E-value: 4.3e-11
                    GYF_2  11 GPfsleeLkelaasgeitpdtlVWreGmddWkpasevp 48 
                              GP+sl eL++ +++++i+ ++l+ ++Gm++W ++++ p
  PHY93_10555|PHY93_10555 127 GPYSLIELQDAINDKRINNHSLIFAAGMPGWVEVGDTP 164
                              **********************************9976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (267 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       562  (0.0313459); expected 358.6 (0.02)
Passed bias filter:                      437  (0.0243739); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 2001.67
//
Query:       PHY93_10560|PHY93_10560  [L=521]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (521 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       477  (0.0266049); expected 358.6 (0.02)
Passed bias filter:                      363  (0.0202465); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.57u 0.22s 00:00:00.78 Elapsed: 00:00:00.41
# Mc/sec: 3826.79
//
Query:       PHY93_16775|PHY93_16775  [L=154]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.072   13.0   0.7      0.098   12.5   0.7    1.1  1  FdhE           Protein involved in formate dehydrogenase form
      0.087   13.0   0.7       0.28   11.3   0.7    1.9  1  Zn-ribbon_8    Zinc ribbon domain
      0.092   12.5   1.8       0.39   10.5   0.0    2.6  3  Orthopox_B11R  Orthopoxvirus B11R protein


Domain annotation for each model (and alignments):
>> FdhE  Protein involved in formate dehydrogenase formation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.7   1.6e-05     0.098     211     242 ..     106     137 ..     101     149 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 1.6e-05
                              -TTT---SS-EEE------C-EEEEEETTTTE CS
                     FdhE 211 CsnCeetkelaylsledekaavkAesCdeChs 242
                              CsnC+++k++ ++++e  +++     C++C+s
  PHY93_16775|PHY93_16775 106 CSNCDTEKKILLKNVEVANSKTPVKQCNTCKS 137
                              ******************************98 PP

>> Zn-ribbon_8  Zinc ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.7   4.7e-05      0.28       6      36 ..     104     139 ..     103     140 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 4.7e-05
              Zn-ribbon_8   6 YrCeeCghefe.....vlqsisdapltaCPeCgsev 36 
                              Y C +C++e       v ++ s+ p ++C +C+s++
  PHY93_16775|PHY93_16775 104 YFCSNCDTEKKillknVEVANSKTPVKQCNTCKSDL 139
                              99******99988876555555677788****9987 PP

>> Orthopox_B11R  Orthopoxvirus B11R protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.1      0.28   1.7e+03      46      68 ..       5      27 ..       2      29 .. 0.80
   2 ?   -0.6   0.0      0.19   1.1e+03      36      49 ..      85      98 ..      73     101 .. 0.81
   3 ?   10.5   0.0   6.5e-05      0.39      13      32 ..     108     127 ..     104     136 .. 0.85

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.28
            Orthopox_B11R 46 lvintssnsdsidkeviecichd 68
                             l in+    d +  e+i  i  d
  PHY93_16775|PHY93_16775  5 LSINSRITGDEVHTELIGVIDED 27
                             77899999999999999888655 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.19
            Orthopox_B11R 36 nhpsGyirealvin 49
                             n   G+ir+ +v++
  PHY93_16775|PHY93_16775 85 NMVHGFIRKGIVVE 98
                             55679999999986 PP

  == domain 3  score: 10.5 bits;  conditional E-value: 6.5e-05
            Orthopox_B11R  13 eidrekeeilknveiennkn 32 
                              + d ek+ +lknve+ n k 
  PHY93_16775|PHY93_16775 108 NCDTEKKILLKNVEVANSKT 127
                              6799*************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (154 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       789  (0.0440069); expected 358.6 (0.02)
Passed bias filter:                      428  (0.0238719); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.41u 0.20s 00:00:00.61 Elapsed: 00:00:00.37
# Mc/sec: 1245.72
//
Query:       PHY93_10565|PHY93_10565  [L=346]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.9e-15   56.7   0.0    3.8e-15   55.7   0.0    1.5  1  cNMP_binding  Cyclic nucleotide-binding domain


Domain annotation for each model (and alignments):
>> cNMP_binding  Cyclic nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.7   0.0   2.1e-19   3.8e-15       2      85 ..      14      98 ..      13     101 .. 0.90

  Alignments for each domain:
  == domain 1  score: 55.7 bits;  conditional E-value: 2.1e-19
                             EEE-TT-EEE-TTSB-SEEEEEEES-EEEEEEETTS.EEEEEEE-TTEEESHHHHH..HTS--SSEEEESSTEEEEEEEHHHHHHH CS
             cNMP_binding  2 rsfkagevifrqGdpadslyivlsGevrvyrlsedgkevvlavlgpGdlfGelall..tgeprtatvvAltdsellalprddflel 85
                             + +++ge +f +Gd+a s++i+++G++r++r ++ g    lavl++G+++Ge++ +  + ++r+a++ A+t++ +++++  ++++ 
  PHY93_10565|PHY93_10565 14 KTLQPGELLFNEGDTAVSMFIIQKGQLRLFRPKGKG-FIELAVLRSGEVLGEMSYFdpDSKKRSASAAAITQTDIIEISFVALEKT 98
                             5789*************************8777777.579****************987788****************98877765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (346 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       626  (0.0349155); expected 358.6 (0.02)
Passed bias filter:                      410  (0.022868); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.37
# Mc/sec: 2825.28
//
Query:       PHY93_10570|PHY93_10570  [L=383]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.5e-84  282.7   1.2    2.5e-84  282.7   1.2    1.9  2  Thiolase_N     Thiolase, N-terminal domain
    7.2e-43  145.2   2.3    4.2e-42  142.7   0.7    2.2  2  Thiolase_C     Thiolase, C-terminal domain
     0.0042   16.9   1.7        1.8    8.4   0.2    2.5  2  ACP_syn_III    3-Oxoacyl-[acyl-carrier-protein (ACP)] synthas
     0.0097   16.1   0.3       0.03   14.5   0.1    1.9  2  ACP_syn_III_C  3-Oxoacyl-[acyl-carrier-protein (ACP)] synthas
  ------ inclusion threshold ------
      0.037   13.6   0.5      0.037   13.6   0.5    3.1  4  ketoacyl-synt  Beta-ketoacyl synthase, N-terminal domain
       0.48   10.7   0.1       0.48   10.7   0.1    2.4  3  Dodecin        Dodecin


Domain annotation for each model (and alignments):
>> Thiolase_N  Thiolase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  282.7   1.2   8.4e-88   2.5e-84       1     257 [.       3     256 ..       3     259 .. 0.99
   2 ?   -1.0   0.2       0.3     9e+02      52      52 ..     310     310 ..     264     380 .. 0.61

  Alignments for each domain:
  == domain 1  score: 282.7 bits;  conditional E-value: 8.4e-88
                              EEEEEEEEE--EETTSTTTTS-HHHHHHHHHHHHHHHHTS-GGGCCEEEEEHSSCTTSTSCHHHHHHHHTTS-TTSEEEEEEHGGG CS
               Thiolase_N   1 vvivsaartpigkfggslkdlsaeeLlaealkallekagvdpeevdevivGnvlqagegqniarqaalkagipeevpavtvnkvcs 86 
                              v+i s+artp g+f+gsl+ +sa  L+a a++a+l+ka++d+++v+ev++Gnvl++g gq++arqaa+ ag+pe+vp++t+ kvc+
  PHY93_10570|PHY93_10570   3 VYILSGARTPSGSFMGSLSGVSAPLLGAVAIEAALKKAEIDASKVEEVFMGNVLTSGVGQAPARQAAIFAGLPESVPCTTIGKVCG 88 
                              79************************************************************************************ PP

                              HHHHHHHHHHHHHHTTSHSEEEEEEEEESTTS-EEETCTTTTGGSSSSEEEEEHHHHHHTEETTTTSEHHHHHHHHHHHHT--HHH CS
               Thiolase_N  87 SglkavalaaqsiaageadvvvagGvEsmsnaptaestdvrsglklgdekakdllipdgladafneehmGltaenlakkykisRee 172
                              Sglka++++aq i ag+ + vvagG+E+ms ap+  + ++r+g+k+gd  +kd ++ dgl+d++++  mG +ae+ a ky   Ree
  PHY93_10570|PHY93_10570  89 SGLKAIIAGAQTILAGDNKLVVAGGMENMSMAPHLLM-NSRNGIKFGDGAMKDSMLLDGLWDVYTNRPMGNCAEEAAVKYS-NREE 172
                              ************************************8.******************************************7.8*** PP

                              HHHHHHHHHHHHHHHHHTTTTTTTBE-EEEEESSSEEEE-S-TTS-TT--HHHHHTS-BSSSTTSS-BTTSB--BEEEEEEEEEE CS
               Thiolase_N 173 qdefAvkshqkaaaaqkagkFkdeivPvkvkgkkgkktvdkdeairsevtaekLaklkpaFkkeGtvtAgnasqisDGaaavllm 257
                              qd++ ++s ++a++a+k+g F++ei  v++kg kg+++v  de++ + +++ek+ +lkpaF+k+G++tA+nas+i+DGaaav+l 
  PHY93_10570|PHY93_10570 173 QDAYSIESFKRAQEAIKNGIFNSEIAAVTIKGPKGDTIVAIDEGPGK-ANFEKMPTLKPAFDKNGSITAANASTINDGAAAVVLG 256
                              *********************************************99.***********************************96 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.3
                              H CS
               Thiolase_N  52 n 52 
                              +
  PHY93_10570|PHY93_10570 310 E 310
                              1 PP

>> Thiolase_C  Thiolase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.0     0.079   2.4e+02      34      57 ..      34      57 ..      23      62 .. 0.69
   2 !  142.7   0.7   1.4e-45   4.2e-42       4     122 ..     265     383 .]     262     383 .] 0.97

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.079
                             HHT--GGGESEEEE--SBHHHHHH CS
               Thiolase_C 34 kagltvedidlfEinEAFaaqaLa 57
                             +a l+ ++id+  ++E F + +L+
  PHY93_10570|PHY93_10570 34 EAALKKAEIDASKVEEVFMGNVLT 57
                             355666677777777888777775 PP

  == domain 2  score: 142.7 bits;  conditional E-value: 1.4e-45
                              SEEEEEEEEEE--GGGGGGHHHHHHHHHHHHHT--GGGESEEEE--SBHHHHHHHHHHHT--GGGBSTT--HHHH-B-TTTHHHHH CS
               Thiolase_C   4 lakirsyaevgvdpeilglgPayaikkvlkkagltvedidlfEinEAFaaqaLavakaldldlekvNvnGGaialGHPlGasGaRi 89 
                              + ki+sya+ +++p+ ++++P+ a++k+l ka l++++idlfEinEAFa +aLa++k+l+ld +kvN++GG ++lGHP+G sG+Ri
  PHY93_10570|PHY93_10570 265 KFKIVSYANHAQNPTWFTTAPVEAMNKALAKANLKLDQIDLFEINEAFAIVALAAMKELKLDHSKVNIYGGGVSLGHPIGSSGTRI 350
                              56899********************************************************************************* PP

                              HHHHHHHHHHCTTSEEEEEEEETTTEEEEEEEE CS
               Thiolase_C  90 vvtllselkkeggklgvaalCigggqgvalvie 122
                              vvtl+++++++++k+g+aa+Ciggg++ +l++e
  PHY93_10570|PHY93_10570 351 VVTLMTAMENKKAKYGMAAICIGGGEALSLILE 383
                              ****************************99986 PP

>> ACP_syn_III  3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.4   0.2   0.00061       1.8       5      56 ..      85     137 ..      82     139 .. 0.82
   2 !    7.2   0.1    0.0015       4.5      49      73 ..     243     270 ..     230     277 .. 0.72

  Alignments for each domain:
  == domain 1  score: 8.4 bits;  conditional E-value: 0.00061
                              -GGGHHHHHHHHHHHHHHTTS-SEEEEEEEEEGGGCS-TT.THHHHTTB-EEE CS
              ACP_syn_III   5 aaCsgfvyalsvAdaliesgaakrvLvigaetlskilDwk.drstavlfGDGA 56 
                              ++C + + a+   ++ i +g  k v+  g e++s   +   ++++ + fGDGA
  PHY93_10570|PHY93_10570  85 KVCGSGLKAIIAGAQTILAGDNKLVVAGGMENMSMAPHLLmNSRNGIKFGDGA 137
                              78******************777777777788888666644689999*****9 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.0015
                              HTTB-EEEEEEEEEEE...SSSSCEEEE CS
              ACP_syn_III  49 avlfGDGAgAvvleas...eeegarild 73 
                              a +  DGA+Avvl+ +    + +++i++
  PHY93_10570|PHY93_10570 243 ASTINDGAAAVVLGGEefkAQAKFKIVS 270
                              55788********998554444555555 PP

>> ACP_syn_III_C  3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0       3.4     1e+04      24      38 ..      33      47 ..      29      58 .. 0.72
   2 !   14.5   0.1   9.9e-06      0.03       1      81 [.     293     378 ..     293     381 .. 0.88

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 3.4
                             HHHHHHHHT--GGGB CS
            ACP_syn_III_C 24 idavakklglpeekv 38
                             i+a++kk ++++ kv
  PHY93_10570|PHY93_10570 33 IEAALKKAEIDASKV 47
                             667777777777665 PP

  == domain 2  score: 14.5 bits;  conditional E-value: 9.9e-06
                              HHHTT--GGG-SEEEE-SSSHHHHHHHHHHHT--GGGB--TH..HHH-B-GGGH...HHHHHHHHHHTTSS-TT-EEEEEEEETTT CS
            ACP_syn_III_C   1 Lekagltpedidalvphqanlriidavakklglpeekvvvnl..deyGntsaas...iplaLdeaveegklkpgdlvllvgfGaGl 81 
                              L+ka+l+ ++id++ ++ a + +  a++k+l+l+  kv +      +G+   +s   i+++L +a+e++k k g  ++ +g G  l
  PHY93_10570|PHY93_10570 293 LAKANLKLDQIDLFEINEAFAIVALAAMKELKLDHSKVNIYGggVSLGHPIGSSgtrIVVTLMTAMENKKAKYGMAAICIGGGEAL 378
                              799*********************************9988877789999655444449****************999999988766 PP

>> ketoacyl-synt  Beta-ketoacyl synthase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   0.1     0.077   2.3e+02      91     126 ..      28      63 ..      23      74 .. 0.83
   2 ?   13.6   0.5   1.2e-05     0.037     173     206 ..      85     118 ..      78     131 .. 0.85
   3 ?   -2.9   0.0       1.3   3.9e+03     232     247 ..     240     255 ..     221     259 .. 0.67
   4 ?   -1.0   0.1      0.36   1.1e+03     180     228 ..     315     363 ..     309     380 .. 0.77

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.077
                              HHHHHHHHHHHHHTS-HHTCTTGGEEEEEEESSTHH CS
            ketoacyl-synt  91 llleaawealedagltpeeldgsrvgvfiGvgagdy 126
                              l  +a + al++a++++ ++++  +g+++ +g g+ 
  PHY93_10570|PHY93_10570  28 LGAVAIEAALKKAEIDASKVEEVFMGNVLTSGVGQA 63 
                              56788999***********99999**9999999965 PP

  == domain 2  score: 13.6 bits;  conditional E-value: 1.2e-05
                              SGGGHHHHHHHHHHHHHHTTS-SEEEEEEEE--- CS
            ketoacyl-synt 173 tACsSslvavhaavqslrsgeadvalaGGvelll 206
                                C S+l+a+ a  q + +g+ ++++aGG+e + 
  PHY93_10570|PHY93_10570  85 KVCGSGLKAIIAGAQTILAGDNKLVVAGGMENMS 118
                              57****99999999***************99764 PP

  == domain 3  score: -2.9 bits;  conditional E-value: 1.3
                              TB-SB-BB-EEEEEEE CS
            ketoacyl-synt 232 kadGfvlGEGvGavvL 247
                              +a+  ++ +G++avvL
  PHY93_10570|PHY93_10570 240 AANASTINDGAAAVVL 255
                              3477888889999888 PP

  == domain 4  score: -1.0 bits;  conditional E-value: 0.36
                              HHHHHHHHHHHTTS-SEEEEEEEE---SHHHHHHHHHTT.BB-TTSGGGT CS
            ketoacyl-synt 180 vavhaavqslrsgeadvalaGGvellltpeavagfsaag.llspdgrcka 228
                              va++a+ ++l+  +++v + GG   l +p +  g      l++++++ ka
  PHY93_10570|PHY93_10570 315 VALAAM-KELKLDHSKVNIYGGGVSLGHPIGSSGTRIVVtLMTAMENKKA 363
                              566666.9999999999999999999999888777766666666666555 PP

>> Dodecin  Dodecin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.2       1.1   3.4e+03      18      32 ..      32      46 ..      31      52 .. 0.69
   2 ?   -2.8   0.0       2.6   7.9e+03      14      23 ..     183     192 ..     179     198 .. 0.73
   3 ?   10.7   0.1   0.00016      0.48      17      45 ..     287     315 ..     285     326 .. 0.88

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 1.1
                             HHHHHHHHHHHH-SS CS
                  Dodecin 18 AiqnAiaeAsktlrn 32
                             Ai+ A+++A+    +
  PHY93_10570|PHY93_10570 32 AIEAALKKAEIDASK 46
                             788888888755555 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 2.6
                              -HHHHHHHHH CS
                  Dodecin  14 SwedAiqnAi 23 
                                ++Ai+n+i
  PHY93_10570|PHY93_10570 183 RAQEAIKNGI 192
                              4578888887 PP

  == domain 3  score: 10.7 bits;  conditional E-value: 0.00016
                              HHHHHHHHHHHHH-SSEEEEEEEEEEEEE CS
                  Dodecin  17 dAiqnAiaeAsktlrnirwveVketrahv 45 
                              +A+++A+a+A+ +l++i+ +e++e  a v
  PHY93_10570|PHY93_10570 287 EAMNKALAKANLKLDQIDLFEINEAFAIV 315
                              699********************987766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (383 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       517  (0.028836); expected 358.6 (0.02)
Passed bias filter:                      409  (0.0228122); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.50u 0.24s 00:00:00.74 Elapsed: 00:00:00.39
# Mc/sec: 2953.81
//
Query:       PHY93_10575|PHY93_10575  [L=147]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (147 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       449  (0.0250432); expected 358.6 (0.02)
Passed bias filter:                      327  (0.0182386); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.20s 00:00:00.61 Elapsed: 00:00:00.37
# Mc/sec: 1187.90
//
Query:       PHY93_10580|PHY93_10580  [L=373]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (373 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1640  (0.0914719); expected 358.6 (0.02)
Passed bias filter:                      407  (0.0227007); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.62u 0.26s 00:00:00.88 Elapsed: 00:00:00.44
# Mc/sec: 2533.42
//
Query:       PHY93_10585|PHY93_10585  [L=379]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.1e-46  158.7   0.1    1.8e-46  158.0   0.1    1.4  1  Acyl-CoA_dh_1  Acyl-CoA dehydrogenase, C-terminal domain
    4.5e-36  124.0   0.0    8.3e-36  123.1   0.0    1.5  1  Acyl-CoA_dh_N  Acyl-CoA dehydrogenase, N-terminal domain
    2.1e-25   88.7   0.1    3.4e-25   88.1   0.1    1.3  1  Acyl-CoA_dh_M  Acyl-CoA dehydrogenase, middle domain
    1.1e-21   77.5   0.0    1.6e-21   77.0   0.0    1.3  1  Acyl-CoA_dh_2  Acyl-CoA dehydrogenase, C-terminal domain


Domain annotation for each model (and alignments):
>> Acyl-CoA_dh_1  Acyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  158.0   0.1   4.1e-50   1.8e-46       1     148 [.     229     376 ..     229     378 .. 0.99

  Alignments for each domain:
  == domain 1  score: 158.0 bits;  conditional E-value: 4.1e-50
                              TBHHHHHTTTT--S-----..-SHHHHHHHHHHHHHHHTSB-CC-BGGGSHHHHHHHHHHHHHHHHHHHHHHHHHH--------HH CS
            Acyl-CoA_dh_1   1 gkGfrvametlnheRlavaaaalglarraleealeyarrrkafgkplidhqlvreklaemaaeleaarllvyraaealdagkpdra 86 
                              gkGf++a++tl+ +R+++aa+alg+ ++a++ a  y+++r +fgkp+ + q+++++la+m ++++a+rll+++a  + d++ p ++
  PHY93_10585|PHY93_10585 229 GKGFNLALSTLDGGRIGIAAQALGISEAAFRYAKGYSKQRVQFGKPICELQAIQFMLADMSTKIAASRLLIMNASFLKDNKFPYGK 314
                              79************************************************************************************ PP

                              HHHHHHHHHHHHHHHHHHHHHHHHGGGTTSGGGHHHHHHHHTHHHHHSSS-HHHHHHHHHHH CS
            Acyl-CoA_dh_1  87 easmaKlfaselaqevadlamqllGgaGyleeypverlyrdarvlrigeGtseiqrniiarr 148
                              ea+ aKlfase ++ ++++a+q+lGg+Gy++eypver++rda++++i+eGtseiqr +ia++
  PHY93_10585|PHY93_10585 315 EAAQAKLFASESCMSITTKAIQVLGGNGYSKEYPVERHFRDAKITEIYEGTSEIQRIVIAAN 376
                              ***********************************************************987 PP

>> Acyl-CoA_dh_N  Acyl-CoA dehydrogenase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  123.1   0.0   1.8e-39   8.3e-36       3     112 ..       8     117 ..       6     118 .. 0.98

  Alignments for each domain:
  == domain 1  score: 123.1 bits;  conditional E-value: 1.8e-39
                              HHHHHHHHHHHHHHHHTHHHHHHHHHHTSGHHHHHHHHHHTTCTSTTS-GGGTS--S-HHHHHHHHHHHHHH-HHHHHHHHHHHHT CS
            Acyl-CoA_dh_N   3 eqealrdtvrefaeeelaphaaewdeegefprelwkklaelGllgitvpeeygGagldyleaaivaeelaradaglalllgvhssl 88 
                              e +++rd v +f ++e+ap a+ +d++g++p++l+ kl e+G++g +vpee+gGag+dy ++ai++ee++r++a++++l+++h+sl
  PHY93_10585|PHY93_10585   8 EYKEIRDLVSKFSDTEVAPLAHAIDHDGKIPEALIGKLFENGFMGSYVPEEFGGAGMDYSSYAIIVEEISRGCASTGVLISAHTSL 93 
                              789*********************************************************************************** PP

                              THHHHHHHS-HHHHHHHHHHHHTT CS
            Acyl-CoA_dh_N  89 vapailrfGteeqkrryLpklasg 112
                              ++++il+fGt+eqk +yLp lasg
  PHY93_10585|PHY93_10585  94 CIWPILNFGTAEQKTKYLPGLASG 117
                              **********************98 PP

>> Acyl-CoA_dh_M  Acyl-CoA dehydrogenase, middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.1   0.1   7.5e-29   3.4e-25       1      97 []     122     217 ..     122     217 .. 0.93

  Alignments for each domain:
  == domain 1  score: 88.1 bits;  conditional E-value: 7.5e-29
                              EEE---SS-SS-GGG---EEEEETT.EEEEEEEEEEEETTTT-SEEEEEEETS-------EEEEEEE..GGGEEE-----BSS-TT CS
            Acyl-CoA_dh_M   1 afalTEpqaGsdvasvkttaaerdggeyvlnGeKiwitnaaiatlalvlartekpdrarglslflvprdapgvsvrrieeklGlrg 86 
                              +f+l+Ep+aGsd  ++ t  ae +g+ y l+G+K++itn+++a la+v+a+t k++ ++g++ f+v++++pg++v+++e+klG++g
  PHY93_10585|PHY93_10585 122 CFCLSEPNAGSDPGTLGT-FAEDKGDYYELSGTKNFITNGKDAGLAIVMAKTSKTNDHKGITAFIVETKTPGFKVQKLEDKLGIKG 206
                              9*****************.88888889************************444446***************************** PP

                              S-EEEEEEE.. CS
            Acyl-CoA_dh_M  87 lptgelvfedv 97 
                               +t+++ +++v
  PHY93_10585|PHY93_10585 207 SSTAQIWLDKV 217
                              *****999876 PP

>> Acyl-CoA_dh_2  Acyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.0   0.0   3.5e-25   1.6e-21       1     133 [.     244     366 ..     244     367 .. 0.93

  Alignments for each domain:
  == domain 1  score: 77.0 bits;  conditional E-value: 3.5e-25
                              .HHHHHHHHHHHHHHHHHHHHHHHHHCTTT-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT----HHHHHHHHHH CS
            Acyl-CoA_dh_2   1 lgiaavalGaAraalaefvelarervrassgekladdpatqlalaeaaarldAAralleraaaraealaaagkevtvedraearra 86 
                              +giaa+alG+ +aa+  +  + ++rv+  +g+++ + +a+q+ la++++++ A r+l+ +a        +++ ++     +ea+ a
  PHY93_10585|PHY93_10585 244 IGIAAQALGISEAAFRYAKGYSKQRVQ--FGKPICELQAIQFMLADMSTKIAASRLLIMNASFL----KDNKFPY----GKEAAQA 319
                              589************************..**********************8888887777766....5666666....9****** PP

                              HHHHHHHHHHHHHHHHHHCGGGGGBTT-HHHHHHHHHHHHCTSGGG- CS
            Acyl-CoA_dh_2  87 aalavelaiaavdalfeaaGgsalrkesplqRlwRDahaaaaHaaln 133
                              +++a+e + +++ +++++ Gg+++ ke+p++R++RDa++++++++++
  PHY93_10585|PHY93_10585 320 KLFASESCMSITTKAIQVLGGNGYSKEYPVERHFRDAKITEIYEGTS 366
                              *******************************************9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (379 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       352  (0.019633); expected 358.6 (0.02)
Passed bias filter:                      327  (0.0182386); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.51u 0.20s 00:00:00.71 Elapsed: 00:00:00.39
# Mc/sec: 2920.62
//
Query:       PHY93_10590|PHY93_10590  [L=265]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.2e-65  221.3   0.5    1.3e-65  221.2   0.5    1.0  1  ECH_1     Enoyl-CoA hydratase/isomerase
    2.9e-35  122.4   2.7    1.1e-30  107.3   0.3    2.0  2  ECH_2     Enoyl-CoA hydratase/isomerase
  ------ inclusion threshold ------
      0.016   14.2   0.0      0.023   13.7   0.0    1.2  1  SDH_sah   Serine dehydrogenase proteinase


Domain annotation for each model (and alignments):
>> ECH_1  Enoyl-CoA hydratase/isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  221.2   0.5   2.2e-69   1.3e-65       3     249 ..      15     265 .]      13     265 .] 0.97

  Alignments for each domain:
  == domain 1  score: 221.2 bits;  conditional E-value: 2.2e-69
                              ETTEEEEEE--CGCTTEE-HHHHHHHHHHHHHHHHSTT..ECEEEEEE.BTSEEEEEB-HHHHHHHHCHHHHHHHCCHHHHHHHHH CS
                    ECH_1   3 eagvaviklnrPeavNalsaelltEliqalekleddks..vravvLtG.gdkaFaaGadlkemaeeekakqallkeevlelwtkly 85 
                              e++   i++nrP ++Nal+ ell El + l ++++d+s  ++++++tG gdkaF aGad+ em    ++++ ++ +  ++      
  PHY93_10590|PHY93_10590  15 EESFTTITINRPSKLNALNIELLSELKELLIEINKDESfnIKGIIVTGeGDKAFIAGADIAEMSDMTPSDAYTFGQLGQQVTVMFE 100
                              678899****************************99863379***********************99999999************* PP

                              HSSSEEEEEE-SEEETHHHHHHHHSSEEEEETTTEEE-GGGGGTS--CTTCHHHHHHHHHHHHHHHHHHHT-EEEHHHHHHCTSSS CS
                    ECH_1  86 tvpkpviaavnGaaigGGlelalacDiviaadnasfglnelklGlipgaggtqilarkvGkskAeeilllgkkisaqealkvGlvd 171
                              t+++pv+a vnG+a+gGG+e+a+ cD+++  +na+fg++e+klGlipg+ggtq+la+ vG+++A+e++++g++++a eal +Glv 
  PHY93_10590|PHY93_10590 101 TLKVPVLACVNGFALGGGCEIAMSCDFIYSTNNAVFGQPEVKLGLIPGFGGTQRLAKLVGRNQAKEMIYTGRNVKACEALSMGLVL 186
                              *************************************************************************************9 PP

                              EEESG.GGHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTSHHHHHHHHHHHTCSH---- CS
                    ECH_1 172 kvvpe.eqlleealelaeklaekspaalrqlkealnakledalaeqleaeaklfestfskddikeGlqaflEkrkpefe 249
                              + ++  +q+ eea + +++++ +s+ a+  +k+ +n+ ++ + +e+l++e++ f+++fs++d++eG +af+Ekr p f+
  PHY93_10590|PHY93_10590 187 RTFATkDQMIEEATKTLREVMANSSFAVSIAKKVMNEGIDLTITEGLQLEKRQFSAIFSSEDMREGTKAFMEKRTPIFK 265
                              988877*********************************************************************9986 PP

>> ECH_2  Enoyl-CoA hydratase/isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  107.3   0.3   1.8e-34   1.1e-30       2     170 ..      19     187 ..      18     195 .. 0.93
   2 !   16.3   0.2   9.1e-07    0.0054     244     308 ..     194     257 ..     185     265 .] 0.83

  Alignments for each domain:
  == domain 1  score: 107.3 bits;  conditional E-value: 1.8e-34
                              EEEEE--GGGTT-B-HHHHHHHHHHHHHHCC-TT..-SEEEEEESSSSECE--B--HHHHHHHHCS-THHHHHHHHHHHHHHHHHC CS
                    ECH_2   2 gvitLnrpkalNaLslemvralkealkewekdde..vklvvlkgagekafCAGgDvralyeaakegkkeeeeffreeYklnyliat 85 
                              ++it+nrp++lNaL+ e++++lke l e++kd++  +k ++++g+g+kaf AG D++++ +   +++ +   f +   ++  + +t
  PHY93_10590|PHY93_10590  19 TTITINRPSKLNALNIELLSELKELLIEINKDESfnIKGIIVTGEGDKAFIAGADIAEMSDMTPSDAYT---FGQLGQQVTVMFET 101
                              589****************************99722567**********************99997755...99************ PP

                              -SS-EEEEE-BEEETHHHHHHTTSSEEEE-TT-EEE--GGGGT----TTHHHHHHCSST.THHHHHHHH---B-HHHHHHTTS--E CS
                    ECH_2  86 ypkpvvalmdGivmGgGvGlsvhgsfrvvtertvfAmPEtaIGlfPDvGgsyfLsrlpg.elGlylalTGarlkgadalaaglath 170
                              ++ pv+a ++G+++GgG+ +++++ f   t+++vf  PE+++Gl+P  Gg+  L++l g + ++ +  TG+++k+ +al +gl   
  PHY93_10590|PHY93_10590 102 LKVPVLACVNGFALGGGCEIAMSCDFIYSTNNAVFGQPEVKLGLIPGFGGTQRLAKLVGrNQAKEMIYTGRNVKACEALSMGLVLR 187
                              ********************************************************9775899*******************9755 PP

  == domain 2  score: 16.3 bits;  conditional E-value: 9.1e-07
                              --SHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTT--HHHHHHHHHHHHHHHHHHSSHHHHHHHHT CS
                    ECH_2 244 eedewakktletlkkrsPtslkvtleqlrrgrklsslaevlrmElrlalrllaekDfveGvrall 308
                              +  e a+ktl+++ ++s +++ ++ + +++g +l +++e l+ E r  +++++++D+ eG +a +
  PHY93_10590|PHY93_10590 194 QMIEEATKTLREVMANSSFAVSIAKKVMNEGIDL-TITEGLQLEKRQFSAIFSSEDMREGTKAFM 257
                              4455677777777899******************.5************************99976 PP

>> SDH_sah  Serine dehydrogenase proteinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   3.9e-06     0.023     110     226 ..      94     212 ..      86     229 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 3.9e-06
                  SDH_sah 110 qiakalkehkaktrvivphyamsGGtlialaadeiildenavlGpvdpqlgqypaasilkvvekkeakdiddktliladiakkaik 195
                              q++  ++  k ++   v  +a+ GG+ ia++ d i   +nav+G  + +lg +p     + + k      + k +i +    ka +
  PHY93_10590|PHY93_10590  94 QVTVMFETLKVPVLACVNGFALGGGCEIAMSCDFIYSTNNAVFGQPEVKLGLIPGFGGTQRLAKLV-GRNQAKEMIYTGRNVKACE 178
                              66777777888899999**********************************999877776666554.3445566777777777777 PP

                  SDH_sah 196 qvee.fvyell..kdkydeekakeiakklteGrw 226
                               ++  +v+  +  kd++ ee +k + + +++  +
  PHY93_10590|PHY93_10590 179 ALSMgLVLRTFatKDQMIEEATKTLREVMANSSF 212
                              7654134443346888888888888887777766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (265 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       834  (0.0465168); expected 358.6 (0.02)
Passed bias filter:                      653  (0.0364214); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.36
# Mc/sec: 2207.31
//
Query:       PHY93_10595|PHY93_10595  [L=282]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.9e-60  203.8   1.8    2.5e-60  203.5   1.8    1.1  1  3HCDH_N         3-hydroxyacyl-CoA dehydrogenase, NAD binding 
    1.8e-36  124.6   0.0    4.2e-36  123.4   0.0    1.6  1  3HCDH           3-hydroxyacyl-CoA dehydrogenase, C-terminal d
    0.00019   21.6   2.3    0.00047   20.4   2.2    1.8  1  NAD_binding_2   NAD binding domain of 6-phosphogluconate dehy
     0.0084   16.7   0.1      0.018   15.6   0.1    1.7  1  F420_oxidored   NADP oxidoreductase coenzyme F420-dependent
     0.0088   15.4   0.3      0.015   14.7   0.3    1.3  1  2-Hacid_dh_C    D-isomer specific 2-hydroxyacid dehydrogenase
  ------ inclusion threshold ------
      0.066   13.7   0.0      0.098   13.2   0.0    1.5  1  XdhC_C          XdhC Rossmann domain
      0.077   13.0   0.5       0.13   12.3   0.5    1.7  1  NAD_Gly3P_dh_N  NAD-dependent glycerol-3-phosphate dehydrogen
       0.11   12.8   0.1       0.22   11.8   0.1    1.6  1  Mur_ligase      Mur ligase family, catalytic domain


Domain annotation for each model (and alignments):
>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  203.5   1.8   1.1e-63   2.5e-60       2     180 .]       7     185 ..       6     185 .. 0.99

  Alignments for each domain:
  == domain 1  score: 203.5 bits;  conditional E-value: 1.1e-63
                              EEEE--SCCHHHHHHHHHHTT-EEEEE-S-HHHHHHHHHHHHHHHHCCTTTTSS-HHHHCCCHHCEEEES-HHHHHC-SEEEE-S- CS
                  3HCDH_N   2 vaviGaGtmGagiaavfasagleVvlvdiseealekalekieksleklvekgklkeeeveaalarisfttdleeavdadlviEavv 87 
                              ++++GaG+mG+gia+v+a +g++V+l+d+s+e l+k+++ i+++l+k +ekgk ++++v++++++is+ +++ ++ d+dl iEa++
  PHY93_10595|PHY93_10595   7 IGIVGAGQMGRGIAQVAAMSGYQVKLFDVSTEGLKKGMDFIQTQLDKGAEKGKWDAATVKSCMKNISPVSEITSLSDCDLLIEAAT 92 
                              89************************************************************************************ PP

                              SSHHHHHHHHHHHHCCS-TTSEEEE--SSS-HHHHCCCSSSGGGEEEEEE-SSTTT--EEEEEE-TT--HHHHHHHHHHHHHTT-E CS
                  3HCDH_N  88 EnlelKrkvfaelekiakpdailasnTSslsiselaealkrperviglHFfnPpplmkLvEvvrgekTseetvatvvelakkigkt 173
                              En  +K ++f+el+++ak  aila+nTSs+si+e+a+++krp+ v+g+HF+nP+p+mkLvE +rg +Ts+et++tv ++a+k+gk+
  PHY93_10595|PHY93_10595  93 ENKMVKFDIFRELDEVAKVGAILATNTSSISITEIAAVTKRPKDVAGMHFMNPVPVMKLVEGIRGLETSDETFNTVAAVAEKMGKV 178
                              ************************************************************************************** PP

                              EEEECS- CS
                  3HCDH_N 174 pvvvkdv 180
                               v+++dv
  PHY93_10595|PHY93_10595 179 FVRANDV 185
                              ***9985 PP

>> 3HCDH  3-hydroxyacyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  123.4   0.0   1.9e-39   4.2e-36       1      96 [.     187     282 .]     187     282 .] 0.99

  Alignments for each domain:
  == domain 1  score: 123.4 bits;  conditional E-value: 1.9e-39
                              TTTHHHHHHHHHHHHHHHHHTTSS-HHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHHHHHHHTTTHGGHH-HHHHHHHHTT-- CS
                    3HCDH   1 GFvvnRvlapllneavrlveegvaspediDaamrlglGlpmGpfelldlvgldvakkilevlaeelgerayapsplleklveagrl 86 
                              GF+vnR+l+p++neav ++ egva+++diD+am+lg++ pmGp+el+d +gld++++i++vl+++lg+++y+p+pll+k+v agr+
  PHY93_10595|PHY93_10595 187 GFAVNRILMPMINEAVYALYEGVATIQDIDQAMKLGTNQPMGPLELADFIGLDTCLAIMNVLHDGLGDTKYRPCPLLKKYVLAGRM 272
                              9************************************************************************************* PP

                              BGGGTBSSSB CS
                    3HCDH  87 grktgkgfyk 96 
                              grk+g+gfy+
  PHY93_10595|PHY93_10595 273 GRKSGRGFYE 282
                              *********6 PP

>> NAD_binding_2  NAD binding domain of 6-phosphogluconate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.4   2.2   2.1e-07   0.00047       1      65 [.       6      71 ..       6     183 .. 0.63

  Alignments for each domain:
  == domain 1  score: 20.4 bits;  conditional E-value: 2.1e-07
                             EEEEE--SHHHHHHHHHHHHTT-EEEEE-SSHHHHHHHHHTT..............EEE-SSHHHHHHHCSEEEE-SSS CS
            NAD_binding_2  1 kigfiGlGvMGsnmalnllkagykvavynrtkekveelvaeg..............akaaesieelvasldvvitmvka 65
                             +ig++G G+MG+ +a+  + +gy+v ++++++e +++ ++                a              +v  ++k+
  PHY93_10595|PHY93_10595  6 SIGIVGAGQMGRGIAQVAAMSGYQVKLFDVSTEGLKKGMDFIqtqldkgaekgkwdA-------------ATVKSCMKN 71
                             59*****************************98877766543222444444433331.............222333333 PP

>> F420_oxidored  NADP oxidoreductase coenzyme F420-dependent
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.1   7.9e-06     0.018       2      29 ..       7      31 ..       6      88 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 7.9e-06
                             EEEETTSHHHHHHHHHHHHTTS-GGCEE CS
            F420_oxidored  2 igiiGaGnmgealasgllaagaqpheiv 29
                             igi+GaG+mg+++a+ ++ +g   +++ 
  PHY93_10595|PHY93_10595  7 IGIVGAGQMGRGIAQVAAMSG---YQVK 31
                             9********************...6665 PP

>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.3   6.7e-06     0.015      38      70 ..       6      38 ..       3      57 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 6.7e-06
                             EEEEES-SHHHHHHHHHHHHTT-EEEEESSSHH CS
             2-Hacid_dh_C 38 tvGiiGlGrIGqavakrlkafgmkviaydrskk 70
                              +Gi+G+G++G+ +a++++  g +v  +d+s +
  PHY93_10595|PHY93_10595  6 SIGIVGAGQMGRGIAQVAAMSGYQVKLFDVSTE 38
                             69**************************99865 PP

>> XdhC_C  XdhC Rossmann domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   4.4e-05     0.098       3      32 ..       9      38 ..       7     132 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 4.4e-05
                             EE--STTHHHHHHHHHHHTEEEEEEES-GG CS
                   XdhC_C  3 ifGaghvaqalarlaaalgfrvtvvdpree 32
                             i+Gag++++ +a++aa+ g++v ++d  +e
  PHY93_10595|PHY93_10595  9 IVGAGQMGRGIAQVAAMSGYQVKLFDVSTE 38
                             9*************************8884 PP

>> NAD_Gly3P_dh_N  NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.5   5.7e-05      0.13       1      33 [.       6      38 ..       6     175 .. 0.92

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 5.7e-05
                             -EEEE--SHHHHHHHHHHHTTT--EEEE-S-HH CS
           NAD_Gly3P_dh_N  1 kiavlGaGswGtalAkvlaenghevrlwvreee 33
                             +i+++GaG+ G  +A+v a  g +v+l+  + e
  PHY93_10595|PHY93_10595  6 SIGIVGAGQMGRGIAQVAAMSGYQVKLFDVSTE 38
                             599************************998773 PP

>> Mur_ligase  Mur ligase family, catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.1    0.0001      0.22       2      47 ..       4      51 ..       3      97 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.0001
                             EEEESTTSCC.HH.HHHHHHHHTTSEEEEEESSHCHHHTT-EEEES-H CS
               Mur_ligase  2 ihfigidgrg.ms.agalflalkGykvdGsdfieslialGaaavvghd 47
                             ih+igi g+g m+ ++a+++a+ Gy+v   d+  + +++G   ++++ 
  PHY93_10595|PHY93_10595  4 IHSIGIVGAGqMGrGIAQVAAMSGYQVKLFDVSTEGLKKGMDFIQTQL 51
                             9*****99973669**************99999999999888887773 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (282 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       414  (0.0230911); expected 358.6 (0.02)
Passed bias filter:                      361  (0.020135); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.49u 0.18s 00:00:00.67 Elapsed: 00:00:00.37
# Mc/sec: 2280.62
//
Query:       PHY93_10600|PHY93_10600  [L=85]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.8e-21   76.6  16.9    1.9e-21   76.5  16.9    1.0  1  Ribosomal_S20p  Ribosomal protein S20
      0.009   15.9   0.1      0.014   15.3   0.1    1.3  1  Sigma70_ECF     ECF sigma factor


Domain annotation for each model (and alignments):
>> Ribosomal_S20p  Ribosomal protein S20
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.5  16.9   2.2e-25   1.9e-21       1      82 []       2      84 ..       2      84 .. 0.98

  Alignments for each domain:
  == domain 1  score: 76.5 bits;  conditional E-value: 2.2e-25
                             ..SCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC.-HHHHHHHHHHHHHHHHHHHCTTSSTCCHHHHHHHHHHHHHH CS
           Ribosomal_S20p  1 ANikSakKrirqnekrrlrNrsyksavrtaiKkvraaiea.dkekaqealkkaiskidkaakkgvihkNtAaRkkSrlakkin 82
                             AN+kS++Kr++q  k++l N+ + s+++t++Kkvr a++a dk++a e +k+a+ ++ k+ak gvi+ NtAaR+ +rla+++n
  PHY93_10600|PHY93_10600  2 ANHKSSEKRAKQDIKKNLANKVNESKMKTSVKKVRDAVTAgDKTAAAEFFKAAQAELRKLAKTGVIKLNTAARRTARLAAQVN 84
                             9*************************************888***************************************997 PP

>> Sigma70_ECF  ECF sigma factor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.1   1.5e-06     0.014       3      43 ..      31      72 ..      29      84 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 1.5e-06
              Sigma70_ECF  3 evtelleqvkdGdaeaaeqllelvydeLrrlagskl.knerr 43
                             +v ++ ++v  Gd+ aa++ +++ + eLr+la++ + k + +
  PHY93_10600|PHY93_10600 31 SVKKVRDAVTAGDKTAAAEFFKAAQAELRKLAKTGViKLNTA 72
                             566777899***********************9976544433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (85 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1943  (0.108372); expected 358.6 (0.02)
Passed bias filter:                      657  (0.0366445); expected 358.6 (0.02)
Passed Vit filter:                        57  (0.00317921); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.40u 0.20s 00:00:00.60 Elapsed: 00:00:00.36
# Mc/sec: 713.50
//
Query:       PHY93_10605|PHY93_10605  [L=308]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (308 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       466  (0.0259914); expected 358.6 (0.02)
Passed bias filter:                      352  (0.019633); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.19s 00:00:00.65 Elapsed: 00:00:00.36
# Mc/sec: 2566.76
//
Query:       PHY93_10610|PHY93_10610  [L=223]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00043   20.9   0.3    0.00081   20.1   0.3    1.6  1  LptE      Lipopolysaccharide-assembly


Domain annotation for each model (and alignments):
>> LptE  Lipopolysaccharide-assembly
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.1   0.3   4.5e-08   0.00081       1      56 [.      38     104 ..      38     219 .. 0.72

  Alignments for each domain:
  == domain 1  score: 20.1 bits;  conditional E-value: 4.5e-08
                              HSEEEEEES.STT..SHHHSHHHHHHHHHHH..CHTTEEEES...-SSEEEEEEEEEE........T CS
                     LptE   1 lktvyvppfenes.eprlgqeltnaLrdelarrgrlkvvdvd...adavlegeitsytl.......e 56 
                              +ktv+vp f n+s  p+l  ++t++++  l++ ++lkv ++d   adavl g + s +        +
  PHY93_10610|PHY93_10610  38 IKTVAVPMFINRSvLPQLAAPMTKEIILALNNYSGLKVLSGDnenADAVLIGILESRDHynevittT 104
                              59******************************9999998865689*****77766666554443220 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (223 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       298  (0.0166211); expected 358.6 (0.02)
Passed bias filter:                      254  (0.014167); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.20s 00:00:00.66 Elapsed: 00:00:00.39
# Mc/sec: 1698.33
//
Query:       PHY93_16780|PHY93_16780  [L=856]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      4e-30  105.2   0.0    8.4e-30  104.1   0.0    1.5  1  SpoIIE    Stage II sporulation protein E (SpoIIE)
     0.0039   17.5   0.0     0.0075   16.6   0.0    1.5  1  HAMP      HAMP domain


Domain annotation for each model (and alignments):
>> SpoIIE  Stage II sporulation protein E (SpoIIE)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  104.1   0.0   9.4e-34   8.4e-30       6     192 ..     408     602 ..     405     603 .. 0.90

  Alignments for each domain:
  == domain 1  score: 104.1 bits;  conditional E-value: 9.4e-34
                              EEEEEECSSSSHHHHHHHHHHHHHHHHHHHTTTS....HHHHHHHHHHHCHCTTSTT.TTCEEEEEEEETTTTEEEEEEESSSSEE CS
                   SpoIIE   6 alvvgDvvGhGleAalimgllrsalrelatagle....paevlkrlnralardleeeerfaTavlavydpstgkleyanaGhpppl 87 
                               ++v+D++GhG++Aali+++++s + +l  ++ +    p+ vl++ln++++  ++++  ++Ta+++++++ +++++y+na h  p+
  PHY93_16780|PHY93_16780 408 TIIVCDATGHGVPAALITAAAHSCISTLKIESEQnyisPKSVLDKLNKVIC-YMNTD-ILMTAFVLEINEVKKTITYSNASHMTPF 491
                              589*************************9666556999************5.55555.6*************************** PP

                              EEETTS......TEEEEE--SS--TTTSSST-EEEEEEE--TTEEEEEESCCCCSSSHHHHHHCCCHHCH.HHHCT.....HCCHH CS
                   SpoIIE  88 lvrpdg......gtklllastglplGilpeadyetaelelepgdtlllyTDGvtEardsdgelfgkerll.allasaegesleell 166
                              lv++ +      g++ l + +g+ +G   +++ye+++++++ gd++++++DG+tE   +dg+ +g+ ++l  +++ + + +++ l+
  PHY93_16780|PHY93_16780 492 LVHKVDgeytkeGVNPLQENNGARMGQSMDSTYEETKIDVDLGDRIVMFSDGLTEMA-IDGKAWGQRNFLkSIFKGC-KFEATGLI 575
                              ****65699998999999999999*******************************98.999999******5555555.567***** PP

                              HHHHHHHHH.HTTSSSSS-EEEEEEEE CS
                   SpoIIE 167 dalveelle.lgsgeleDDitllvlrv 192
                              + +++++ e  ++  l+DDitl+++ +
  PHY93_16780|PHY93_16780 576 ESIMSDFNEfKKDTTLQDDITLVCVTF 602
                              *********877889*********987 PP

>> HAMP  HAMP domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   8.3e-07    0.0075       2      50 ..     294     342 ..     293     345 .. 0.85

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 8.3e-07
                              HHHTTHHHHHHHHHHHHHHTTTBTSSTCCTTSSSHHHHHHHHHHHHHHH CS
                     HAMP   2 larrilrPLrrLaraarriaaGdldtrlpvsgrDEiGeLarafNaMldr 50 
                              +++r+++ ++ L +a+  +++G++d+ +   g+DEiG+L  +f +M ++
  PHY93_16780|PHY93_16780 294 FTKRMTKNVQTLFEATTLLSEGHFDVNPVAVGNDEIGALTDSFVEMKNK 342
                              6778888888888999999*******95559**************9766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (856 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1091  (0.0608511); expected 358.6 (0.02)
Passed bias filter:                      642  (0.0358079); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.72u 0.25s 00:00:00.97 Elapsed: 00:00:00.40
# Mc/sec: 6425.28
//
Query:       PHY93_10615|PHY93_10615  [L=165]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-12   48.2   0.0    1.4e-12   47.8   0.0    1.3  1  DciA      Dna[CI] antecedent, DciA
  ------ inclusion threshold ------
      0.021   14.6   0.6      0.042   13.6   0.5    1.5  2  XRN1_D1   Exoribonuclease Xrn1 D1 domain


Domain annotation for each model (and alignments):
>> DciA  Dna[CI] antecedent, DciA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.8   0.0   1.6e-16   1.4e-12       8      81 ..      18      91 ..      11     101 .. 0.85

  Alignments for each domain:
  == domain 1  score: 47.8 bits;  conditional E-value: 1.6e-16
                     DciA  8 rllsk.rglkkkalalarllqaWeeivGpelaahcrpvklrdgtLvvevesgawateLryqkpqllerlneelge 81
                             +++++ ++l  + + + +l++aW++i+G++l++h+ p+k ++gtLv+  +++a a+eL+yq   l e++ +++ +
  PHY93_10615|PHY93_10615 18 SFKKDkAHLH-ESFDFLALIRAWKDIAGAKLSEHTIPLKNQNGTLVILSNHSAIASELSYQELLLKEKIFKNFPN 91
                             4544425565.89********************************************************999864 PP

>> XRN1_D1  Exoribonuclease Xrn1 D1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0      0.25   2.3e+03     115     149 ..       6      40 ..       3      55 .. 0.75
   2 ?   13.6   0.5   4.6e-06     0.042      45     136 ..      60     153 ..      45     164 .. 0.69

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 0.25
                              HHHHHHHHHHHHHHHHHH-EEES--S-EEEEEEEE CS
                  XRN1_D1 115 kefkkkaerierkyskrlgviigevevlvhveplk 149
                              ++f  + ++++++++k ++ + ++ + l  ++  k
  PHY93_10615|PHY93_10615   6 SQFIDSPSSVQNSFKKDKAHLHESFDFLALIRAWK 40 
                              67777778888888888888887777777776655 PP

  == domain 2  score: 13.6 bits;  conditional E-value: 4.6e-06
                              EEEEE--------HHHHHHHHBTSEEEESGGG-EEE..EEEEEE-SS-...EEEEE-..SSSEEEEEE--THHHHHHHHHHHHHHH CS
                  XRN1_D1  45 mvvtiedkeenlkleelakeklgkrvfvgyPfLrEa..kvvavsdelf...kyekelleekkkkvvsrphsekekkefkkkaerie 125
                               +v +++++  ++  ++ + +l++++f ++P L+ +  k++ + d++    +ye   +  +  k ++++  + +  +fk+ +++ e
  PHY93_10615|PHY93_10615  60 TLVILSNHSAIASELSYQELLLKEKIFKNFPNLKKSiiKITFIVDSTHfskQYE---QYVGLAKKKETQIMHPHSPDFKRLKKEAE 142
                              4566777677778888889999*************9444567777754111344...34444555556666666778888888888 PP

                              HHHHHHH-EEE CS
                  XRN1_D1 126 rkyskrlgvii 136
                                +s  + + i
  PHY93_10615|PHY93_10615 143 AFFSDVVDLEI 153
                              88887666555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (165 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       885  (0.0493614); expected 358.6 (0.02)
Passed bias filter:                      453  (0.0252663); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.40u 0.22s 00:00:00.62 Elapsed: 00:00:00.37
# Mc/sec: 1331.69
//
Query:       PHY93_10620|PHY93_10620  [L=207]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.1e-22   80.4   0.0    1.3e-22   80.2   0.0    1.1  1  Sua5_yciO_yrdC  Telomere recombination


Domain annotation for each model (and alignments):
>> Sua5_yciO_yrdC  Telomere recombination
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   80.2   0.0     7e-27   1.3e-22       2     179 .]       2     185 ..       1     185 [. 0.84

  Alignments for each domain:
  == domain 1  score: 80.2 bits;  conditional E-value: 7e-27
                              HHHTTSEEEEE-SSSEEEEEETTSHHHHHHHHHHHTSHCCC--EEEESSCCCCCCCC-TC--HHHHHHHHCT-SSSCEEEEE..E- CS
           Sua5_yciO_yrdC   2 alrkGgivaiptetvYgLacdatneeaverlreiKgrpsdkplavlvasledlkklaeseveeealkllerfwPGpitlllkrske 87 
                              a++++ + ++pt+tv+g++c+++++   +r++eiK+ +++kpl++++as++d+ +  +   ee  l  le+f+    tl  + +++
  PHY93_10620|PHY93_10620   2 AIKTDDVFIYPTDTVWGIGCSLNSSIGHARIVEIKKTSKNKPLSIMFASVKDIYNNFH-FPEEMTLVWLEEFFKLETTLGYPLKAS 86 
                              6899***************************************************999.444555556777777777776655444 PP

                              T..S-HHHHTTTTEEEEEE-SSHHHHHHHHHCTS-EEEEES-STTS.-S-SSHHH..HHHHC-TTSECB-SS-.--SSS---EEEE CS
           Sua5_yciO_yrdC  88 k..lpkevapglktvGvrlPdtplarlLlealgeplvaTSanlsge.psitdaee..veeelgeivdlildgg.eiavgvdstVvd 167
                              k  +pk+ +++++ + vr  +t+++r + + +++p  +TS nl g+ p+i +ae+  ++++l+  + +i +++ +   g  st++ 
  PHY93_10620|PHY93_10620  87 KikIPKWATGESHYLSVRSLETEVVRSIYQDIQAPFFSTSLNLTGSaPIISTAEAltFQQKLAPDAHFIESNKqDDLSGSSSTIIF 172
                              445******************************************9566665555435677899988877777889999******9 PP

                              TT.SSTSSECEXX CS
           Sua5_yciO_yrdC 168 lt.egkpkilRrG 179
                              +  +  ++i R+G
  PHY93_10620|PHY93_10620 173 FQeNLDFEIKREG 185
                              9866677777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (207 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       569  (0.0317363); expected 358.6 (0.02)
Passed bias filter:                      415  (0.0231469); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.37
# Mc/sec: 1682.77
//
Query:       PHY93_10625|PHY93_10625  [L=258]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (258 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       313  (0.0174578); expected 358.6 (0.02)
Passed bias filter:                      104  (0.00580066); expected 358.6 (0.02)
Passed Vit filter:                         6  (0.000334653); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.36
# Mc/sec: 2125.61
//
Query:       PHY93_19345|PHY93_19345  [L=335]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.5e-16   61.1   7.7    2.6e-16   60.3   7.7    1.4  1  Fer4_16   4Fe-4S double cluster binding domain
    1.5e-08   34.4   0.0    3.2e-08   33.3   0.0    1.6  1  DUF1730   Domain of unknown function (DUF1730)
    4.6e-07   30.3   5.7    9.4e-07   29.3   5.7    1.6  1  Fer4_7    4Fe-4S dicluster domain
    5.5e-07   29.1  11.4    4.2e-05   23.2   3.8    2.4  2  Fer4      4Fe-4S binding domain
    3.1e-06   27.2   9.9    0.00058   19.9   4.0    2.3  2  Fer4_10   4Fe-4S dicluster domain
    2.7e-05   24.0   8.7     0.0043   17.1   2.6    2.4  2  Fer4_2    4Fe-4S binding domain
    2.8e-05   24.5   1.4        0.1   13.0   0.4    2.4  2  Fer4_8    4Fe-4S dicluster domain
    0.00022   21.3  12.7     0.0017   18.5  12.7    2.1  1  Fer4_21   4Fe-4S dicluster domain
    0.00054   19.9   9.3      0.017   15.2   3.7    2.4  2  Fer4_6    4Fe-4S binding domain
     0.0037   17.8   1.0       0.45   11.1   0.3    2.4  2  Fer4_17   4Fe-4S dicluster domain
      0.005   17.7   8.6        0.2   12.7   3.2    2.4  2  Fer4_3    4Fe-4S binding domain
  ------ inclusion threshold ------
       0.02   15.7   0.4        1.4    9.8   0.2    2.5  2  Fer4_22   4Fe-4S dicluster domain
       0.03   14.5  12.3      0.045   13.9   3.5    2.2  3  Fer4_9    4Fe-4S dicluster domain
       0.63   10.7  10.4        3.2    8.5   0.1    2.5  2  Fer4_4    4Fe-4S binding domain
        7.5    6.8  10.7        7.1    6.9   4.8    2.3  2  Fer4_18   4Fe-4S dicluster domain


Domain annotation for each model (and alignments):
>> Fer4_16  4Fe-4S double cluster binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.3   7.7   2.2e-19   2.6e-16       1      67 []     193     260 ..     193     260 .. 0.80

  Alignments for each domain:
  == domain 1  score: 60.3 bits;  conditional E-value: 2.2e-19
                  Fer4_16   1 rCgtCgkCaevCPtnaikekkekeiearecisyntaek..kdlaedeekckkqeaitgCdiCqdvCPan 67 
                              +Cg+C++C+e+CPt+ai+    ++i a++cis+ t+e+   d +++e+ + k++ i+gCdiCqdvCP+n
  PHY93_19345|PHY93_19345 193 HCGQCTRCIEACPTDAIDPV-TRTIIAKDCISTYTIEQfkLDTIPSEKMTLKEGTIFGCDICQDVCPWN 260
                              7******************9.67788888999866665213444555555578899************9 PP

>> DUF1730  Domain of unknown function (DUF1730)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.3   0.0   2.7e-11   3.2e-08       1      76 []      54     138 ..      54     138 .. 0.81

  Alignments for each domain:
  == domain 1  score: 33.3 bits;  conditional E-value: 2.7e-11
                              HH-HHHHSTT--EEEEEEEE-S-----SSS-.......B..-EE-GGGSSS...-HHHHHHHHHHHHHHHHHTTSST--EEEESSS CS
                  DUF1730   1 RadprellpgarsvivvalnYkppeaeeeke.......peegkisryAlgr...DYHkvlkkrLkklaerleeevpeeearvfvDt 76 
                              R++++e +p+ +s +v+ ++Y++++++ + +        +  k+++y+lg    DYH+ +k++L+++ e l+e++++ +++   Dt
  PHY93_19345|PHY93_19345  54 RQSLKEHWPEFESALVFLFSYHDTHQKLQ-SfyqnapnWNGLKLASYTLGFdglDYHHKIKEHLHEIGESLSEAHSGLKFKLTLDT 138
                              8899*****************64444333.1455554434599******76666********************9888***99998 PP

>> Fer4_7  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.3   5.7   7.9e-10   9.4e-07       1      51 [.     193     260 ..     193     261 .. 0.77

  Alignments for each domain:
  == domain 1  score: 29.3 bits;  conditional E-value: 7.9e-10
                   Fer4_7   1 rCigCgaCvaaCpvkaieldeeenek.................gtekveidpekClgCgaCvavCPtg 51 
                              +C +C +C +aCp++ai+   ++  +                 + ek+++++ +  gC+ C++vCP++
  PHY93_19345|PHY93_19345 193 HCGQCTRCIEACPTDAIDPVTRTIIAkdcistytieqfkldtiPSEKMTLKEGTIFGCDICQDVCPWN 260
                              6*****************88764444455555555544454444489999999*************97 PP

>> Fer4  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.2   3.8   3.6e-08   4.2e-05       2      24 .]     188     210 ..     187     210 .. 0.93
   2 !   10.5   0.9   0.00036      0.43      10      21 ..     249     260 ..     248     260 .. 0.93

  Alignments for each domain:
  == domain 1  score: 23.2 bits;  conditional E-value: 3.6e-08
                              EEETTTSSS-THHHHHSTTTEEE CS
                     Fer4   2 videekCigCGaCvevCPvgAIt 24 
                              +i ++ C  C +C+e+CP++AI+
  PHY93_19345|PHY93_19345 188 IIETDHCGQCTRCIEACPTDAID 210
                              5889*****************95 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 0.00036
                              S-THHHHHSTTT CS
                     Fer4  10 gCGaCvevCPvg 21 
                              gC +C +vCP +
  PHY93_19345|PHY93_19345 249 GCDICQDVCPWN 260
                              9*********86 PP

>> Fer4_10  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.9   4.0   4.8e-07   0.00058       2      24 ..     187     215 ..     186     246 .. 0.75
   2 !   10.9   0.3   0.00032      0.38      11      23 ..     249     261 ..     239     285 .. 0.73

  Alignments for each domain:
  == domain 1  score: 19.9 bits;  conditional E-value: 4.8e-07
                  Fer4_10   2 vvidddtCirCgkCvkaCPadl......t 24 
                               +i++d C +C++C +aCP+d+      t
  PHY93_19345|PHY93_19345 187 KIIETDHCGQCTRCIEACPTDAidpvtrT 215
                              6899****************765444440 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.00032
                  Fer4_10  11 rCgkCvkaCPadl 23 
                              +C  C+++CP++ 
  PHY93_19345|PHY93_19345 249 GCDICQDVCPWNK 261
                              8**********43 PP

>> Fer4_2  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   2.6   3.6e-06    0.0043       5      22 .]     189     206 ..     185     206 .. 0.92
   2 !   10.2   0.4   0.00054      0.64      12      21 ..     249     258 ..     248     259 .. 0.93

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 3.6e-06
                   Fer4_2   5 vdtdrCigCgaCvsaCPa 22 
                              ++td+C +C  C+ aCP+
  PHY93_19345|PHY93_19345 189 IETDHCGQCTRCIEACPT 206
                              79***************7 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 0.00054
                   Fer4_2  12 gCgaCvsaCP 21 
                              gC +C+++CP
  PHY93_19345|PHY93_19345 249 GCDICQDVCP 258
                              8********* PP

>> Fer4_8  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.0   0.4   8.6e-05       0.1       3      17 ..     192     206 ..     178     235 .. 0.80
   2 !   10.0   0.0   0.00079      0.95       7      30 ..     249     272 ..     248     303 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 8.6e-05
                   Fer4_8   3 ekCieCgaCqsaCpv 17 
                              ++C++C +C +aCp+
  PHY93_19345|PHY93_19345 192 DHCGQCTRCIEACPT 206
                              577777777777762 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00079
                   Fer4_8   7 eCgaCqsaCpvlrrtkkhlldarg 30 
                              +C  Cq+ Cp  +r ++ + d+  
  PHY93_19345|PHY93_19345 249 GCDICQDVCPWNKRLDRQHIDQDL 272
                              7*********99999977776654 PP

>> Fer4_21  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.5  12.7   1.4e-06    0.0017       2      53 ..     188     259 ..     187     264 .. 0.79

  Alignments for each domain:
  == domain 1  score: 18.5 bits;  conditional E-value: 1.4e-06
                  Fer4_21   2 ridedkCigCgkCliaCedtshqai....................eidaktvlkvvedeCvGCnlCssvCPv 53 
                              +i+ d+C +C++C+ aC++ +++ +                    ++ +++++++ e +  GC++C +vCP 
  PHY93_19345|PHY93_19345 188 IIETDHCGQCTRCIEACPTDAIDPVtrtiiakdcistytieqfklDTIPSEKMTLKEGTIFGCDICQDVCPW 259
                              5899**************9888877887777777777766655444445566688999*************6 PP

>> Fer4_6  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   3.7   1.4e-05     0.017       9      24 .]     194     209 ..     189     209 .. 0.90
   2 !    7.5   0.3    0.0038       4.5      11      21 ..     249     259 ..     247     263 .. 0.90

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 1.4e-05
                   Fer4_6   9 CigCgdCvrvCPegai 24 
                              C +C +C+ +CP++ai
  PHY93_19345|PHY93_19345 194 CGQCTRCIEACPTDAI 209
                              99************98 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0038
                   Fer4_6  11 gCgdCvrvCPe 21 
                              gC+ C +vCP 
  PHY93_19345|PHY93_19345 249 GCDICQDVCPW 259
                              8*********5 PP

>> Fer4_17  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.1   0.3   0.00038      0.45      44      59 ..     192     207 ..     173     244 .. 0.80
   2 ?    5.0   0.0      0.03        36       4      17 ..     249     262 ..     247     286 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00038
                  Fer4_17  44 slCieCgeCerkCPqg 59 
                              + C +C +C ++CP +
  PHY93_19345|PHY93_19345 192 DHCGQCTRCIEACPTD 207
                              6677777777777654 PP

  == domain 2  score: 5.0 bits;  conditional E-value: 0.03
                  Fer4_17   4 qCgyClpeCpsyea 17 
                              +C  C ++Cp +++
  PHY93_19345|PHY93_19345 249 GCDICQDVCPWNKR 262
                              68899999987665 PP

>> Fer4_3  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.7   3.2   0.00017       0.2       3      15 .]     193     208 ..     192     208 .. 0.80
   2 !    7.8   0.3    0.0062       7.4       3      14 ..     249     260 ..     247     261 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 0.00017
                   Fer4_3   3 gCg...aCvevCPvgA 15 
                              +Cg   +C e+CP++A
  PHY93_19345|PHY93_19345 193 HCGqctRCIEACPTDA 208
                              7775558*******98 PP

  == domain 2  score: 7.8 bits;  conditional E-value: 0.0062
                   Fer4_3   3 gCgaCvevCPvg 14 
                              gC  C +vCP++
  PHY93_19345|PHY93_19345 249 GCDICQDVCPWN 260
                              7999******86 PP

>> Fer4_22  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.2    0.0012       1.4      75      94 ..     187     206 ..     175     208 .. 0.77
   2 ?    3.5   0.0      0.11   1.3e+02      82      93 ..     247     258 ..     225     307 .. 0.77

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.0012
                  Fer4_22  75 ekfgesgCvGCgRCieacpv 94 
                              + +++ +C  C RCieacp+
  PHY93_19345|PHY93_19345 187 KIIETDHCGQCTRCIEACPT 206
                              4458899999********97 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.11
                  Fer4_22  82 CvGCgRCieacp 93 
                                GC  C+++cp
  PHY93_19345|PHY93_19345 247 IFGCDICQDVCP 258
                              456666666665 PP

>> Fer4_9  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   3.5   3.7e-05     0.045      34      51 .]     192     209 ..     174     209 .. 0.74
   2 ?    9.2  13.2    0.0011       1.3       2      47 ..     194     258 ..     193     260 .. 0.87
   3 ?    4.8   1.1     0.026        31       4      14 ..     249     259 ..     247     277 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 3.7e-05
                   Fer4_9  34 eaCigCgaCveaCpkgai 51 
                              + C +C +C+eaCp++ai
  PHY93_19345|PHY93_19345 192 DHCGQCTRCIEACPTDAI 209
                              469999999999999987 PP

  == domain 2  score: 9.2 bits;  conditional E-value: 0.0011
                   Fer4_9   2 CtgCgaCveaCpagvvvedaaerkarlraase...................eaCigCgaCveaCp 47 
                              C +C++C+eaCp++++ +   + +a+  +  +                      +gC  C ++Cp
  PHY93_19345|PHY93_19345 194 CGQCTRCIEACPTDAIDPVTRTIIAKDCISTYtieqfkldtipsekmtlkeGTIFGCDICQDVCP 258
                              99****************999999997555559999999********999744588999999999 PP

  == domain 3  score: 4.8 bits;  conditional E-value: 0.026
                   Fer4_9   4 gCgaCveaCpa 14 
                              gC+ C+++Cp 
  PHY93_19345|PHY93_19345 249 GCDICQDVCPW 259
                              78888888875 PP

>> Fer4_4  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   5.9     0.085     1e+02       6      16 ..     193     206 ..     191     207 .. 0.62
   2 ?    8.5   0.1    0.0027       3.2       5      15 ..     248     258 ..     248     273 .. 0.88

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.085
                   Fer4_4   6 gCgsCvaa...CPq 16 
                              +Cg+C+++   CP+
  PHY93_19345|PHY93_19345 193 HCGQCTRCieaCPT 206
                              67775554444997 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.0027
                   Fer4_4   5 igCgsCvaaCP 15 
                              +gC+ C ++CP
  PHY93_19345|PHY93_19345 248 FGCDICQDVCP 258
                              79********9 PP

>> Fer4_18  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.9   4.8     0.006       7.1      51      87 ..     184     223 ..     163     230 .. 0.77
   2 ?    3.4   0.3     0.069        82      55      73 ..     241     259 ..     224     270 .. 0.77

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.006
                  Fer4_18  51 eerkekgagdcidcescvkvcPtg.id..irkGlqlecis 87 
                              e++k  ++ +c +c  c++ cPt+ id   r  +  +cis
  PHY93_19345|PHY93_19345 184 EDKKIIETDHCGQCTRCIEACPTDaIDpvTRTIIAKDCIS 223
                              5556677889************964774446666667776 PP

  == domain 2  score: 3.4 bits;  conditional E-value: 0.069
                  Fer4_18  55 ekgagdcidcescvkvcPt 73 
                              + ++g    c+ c +vcP 
  PHY93_19345|PHY93_19345 241 TLKEGTIFGCDICQDVCPW 259
                              4566777889999999995 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (335 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       780  (0.0435049); expected 358.6 (0.02)
Passed bias filter:                      536  (0.0298957); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.60u 0.25s 00:00:00.85 Elapsed: 00:00:00.46
# Mc/sec: 2185.20
//
Query:       PHY93_19350|PHY93_19350  [L=558]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
   3.1e-122  407.8   1.3   3.1e-122  407.8   1.3    1.5  2  PK         Pyruvate kinase, barrel domain
    1.1e-23   83.7   0.1    3.7e-23   82.0   0.1    2.0  1  PK_C       Pyruvate kinase, alpha/beta domain
    3.4e-07   29.8   9.3     0.0013   18.4   1.5    2.4  2  Fer4       4Fe-4S binding domain
    1.8e-06   28.0   9.9    3.6e-06   27.1   9.9    1.5  1  Fer4_9     4Fe-4S dicluster domain
    2.1e-06   27.7   8.8    4.3e-06   26.8   8.8    1.6  1  Fer4_10    4Fe-4S dicluster domain
    9.7e-06   26.1  21.8     0.0002   21.9  11.4    2.2  2  Fer4_7     4Fe-4S dicluster domain
    3.3e-05   23.1   0.6    0.00013   21.2   0.3    2.0  3  HpcH_HpaI  HpcH/HpaI aldolase/citrate lyase family
      5e-05   23.7   4.6      0.058   13.9   0.3    2.6  2  Fer4_8     4Fe-4S dicluster domain
    0.00033   20.6   2.4    0.00033   20.6   2.4    2.5  2  Fer4_2     4Fe-4S binding domain
    0.00036   20.5   9.4      0.061   13.4   1.2    2.5  2  Fer4_6     4Fe-4S binding domain
    0.00089   19.8  10.1        0.1   13.2   1.9    2.8  2  Fer4_17    4Fe-4S dicluster domain
     0.0024   18.0   8.9      0.006   16.7   8.9    1.7  1  Fer4_21    4Fe-4S dicluster domain
     0.0047   16.0   1.5      0.014   14.4   0.1    2.4  3  IMPDH      IMP dehydrogenase / GMP reductase domain
  ------ inclusion threshold ------
       0.01   16.8  10.7       0.11   13.5   3.7    2.7  2  Fer4_16    4Fe-4S double cluster binding domain
      0.014   16.3  15.1       0.83   10.7   5.9    2.6  2  Fer4_3     4Fe-4S binding domain
      0.047   13.9   9.1       0.11   12.7   2.1    2.4  2  Fer4_18    4Fe-4S dicluster domain
      0.061   13.4   4.4       0.13   12.3   4.4    1.6  1  Fer4_19    Divergent 4Fe-4S mono-cluster
       0.55   10.8  11.3        1.8    9.1  11.3    1.9  1  Fer4_13    4Fe-4S single cluster domain of Ferredoxin I
        1.1    9.9   9.0        1.6    9.5   1.6    2.5  2  Fer4_4     4Fe-4S binding domain


Domain annotation for each model (and alignments):
>> PK  Pyruvate kinase, barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  407.8   1.3  3.2e-125  3.1e-122       1     344 [.       1     342 [.       1     346 [. 0.96
   2 ?   -2.9   0.0       2.6   2.4e+03      77     112 ..     435     471 ..     427     483 .. 0.69

  Alignments for each domain:
  == domain 1  score: 407.8 bits;  conditional E-value: 3.2e-125
                              ---SEEEEEESCCCTSHHHHHHHHHHTEEEEEEETTSS-HHHHHHHHHHHHHHHHTTTTS-EEEEE---S-EBB--BTTCSSSEEE CS
                       PK   1 lrrtkivctlGPasesvekleklieaGlnvvrlnfshGsheehqerienvreaekklgkkvaillDtkGpeirtgllkdgkkdiel 86 
                              +rr+kiv+t+GP+s+s e+l++li aG+nv r+n shG++e hq++i+n+rea k++g +vail D++Gp+ir+++l +    ++l
  PHY93_19350|PHY93_19350   1 MRRAKIVATIGPSSSSKEMLTQLIIAGMNVCRINMSHGTYEGHQQVIKNIREASKETGYEVAILADLQGPKIRVDKLPE---PLKL 83 
                              69***************************************************************************99...69** PP

                              -TTSEEEEE-SCTCTT..TBBTTEEEBS-TTHHHHS-TTEEEEETTTTEEEEEEEEETTEEEEEEESS-EEE-SS-BEE-TTS--- CS
                       PK  87 kegdklkvsldeklke..egdeelialdyknivkdvevGktilvdDGllslkvlevdeekeleveventgvlgskkgvnlpgtkvd 170
                              ++g++  +  ++   +  e +++ i   y+n+v d + G +il dDGl+  k  + d +   +++v+++g+l+s+kg+nlp+ +v+
  PHY93_19350|PHY93_19350  84 ENGSEWVIGASKVRDQypEYKDKYIPTIYENLVADCHDGARILFDDGLIIAKAVSLDRDV-YKIKVSVGGTLKSNKGINLPDCDVS 168
                              *****9998776553311458899999*****************************9999.99*********************** PP

                              S-SS-HHHHHHHHHHHHCT-SEEEETTE-SHHHHHHHHHHHTCCCTTSEEEEEE-SCHHHHTHHHHHHHSSEEEEEHHHHHHHSTC CS
                       PK 171 lpalsekDkadlrfgvkqgvdliaasfvrkasDvkevrevleeegkeikiiakienqegvenldeileasDgimvarGDlGieipa 256
                              +pa+++kD++dl f++k+g d +a+sfvrk +D+  v+++l+  + +i ii+kie+ ++v+nldeil ++D imvarGD+G+e++ 
  PHY93_19350|PHY93_19350 169 APAFTDKDREDLMFALKEGADYVALSFVRKKEDILVVKNLLHSLKVNIPIISKIEKPQAVDNLDEILSVTDMIMVARGDMGVEVGN 254
                              ************************************************************************************** PP

                              CCHHHHHHHHHHHHHHHT--EEEESSTTGGGGTSSS--HHHHHHHHHHHHHT-SEEEESHHHHTSS-HHHHHHHHHHHHHHHHHTS CS
                       PK 257 ekvllvqkklikkcnlagkpvitatqmlesmiknPrptraevsDvanavlDGtDavmLsgetakGkyPveavkamaevaleaekal 342
                              + v+ +qk++i+kcn++g pvitatqmlesm++nP ptrae+sDvana+ DGtDavmLsgeta GkyP e++ +m ++  eaek+ 
  PHY93_19350|PHY93_19350 255 HLVPSIQKMMINKCNALGIPVITATQMLESMTENPTPTRAEASDVANAIWDGTDAVMLSGETASGKYPLETILMMDKIVSEAEKTP 340
                              ***********************************************************************************985 PP

                              -H CS
                       PK 343 ke 344
                              ke
  PHY93_19350|PHY93_19350 341 KE 342
                              55 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 2.6
                              BTTCSSSEEE-TTSEEEEE-.SCTCTTTBBTTEEEBS CS
                       PK  77 lkdgkkdielkegdklkvsl.deklkeegdeeliald 112
                              lk+ k+ ++lk+gdk+ ++  d k+ ++g++++++++
  PHY93_19350|PHY93_19350 435 LKEVKERLKLKNGDKIVLTRgDGKFFSQGSSNSVKVE 471
                              5666777888888888877524556677777777665 PP

>> PK_C  Pyruvate kinase, alpha/beta domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   82.0   0.1   3.9e-26   3.7e-23       2     116 ..     357     470 ..     356     471 .. 0.90

  Alignments for each domain:
  == domain 1  score: 82.0 bits;  conditional E-value: 3.9e-26
                              HHHHHHHHHHHHHT-SEEEEE-SSSHHHHHHHHT-TSSEEEEEESHHHHHHHHHHCTTEEHHH.HHHHH...TTSHHHHHHHHHHH CS
                     PK_C   2 aiakaaveaaeelgakaIvvltesGetArliskyrpkvpiiavtpneltarqlalyrGvypvlvekaktaestdellreavkvake 87 
                              +i+ aa  +ae++ga+ Iv +tesG++ ++i ++rp+vp++ +t++ ++ar++ ly+Gv+p+ v++ +t ++  e++++++k +ke
  PHY93_19350|PHY93_19350 357 SIMVAASMIAEKIGAQRIVSVTESGSSCLRITQFRPSVPVLGITNSLKVARRMCLYWGVSPFIVTN-ET-HENVEFIKNVLKEVKE 440
                              5788999*******************************************************9874.44.4444569********* PP

                              TTSS-STSEEEEEE-SSS.S..SS--EEEE CS
                     PK_C  88 aglvkkgdevvvtaGtpk.gesgttNtlrV 116
                              +  +k+gd++v+t G+ k   +g++N ++V
  PHY93_19350|PHY93_19350 441 RLKLKNGDKIVLTRGDGKfFSQGSSNSVKV 470
                              ***************997535899**9998 PP

>> Fer4  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   1.5   1.4e-06    0.0013       3      21 ..     498     516 ..     496     518 .. 0.90
   2 !   15.5   1.3   1.2e-05     0.011       6      24 .]     536     554 ..     533     554 .. 0.92

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 1.4e-06
                              EETTTSSS-THHHHHSTTT CS
                     Fer4   3 ideekCigCGaCvevCPvg 21 
                               d++ C  C aCv+vCP++
  PHY93_19350|PHY93_19350 498 LDTNVCASCQACVQVCPHD 516
                              58999************98 PP

  == domain 2  score: 15.5 bits;  conditional E-value: 1.2e-05
                              TTSSS-THHHHHSTTTEEE CS
                     Fer4   6 ekCigCGaCvevCPvgAIt 24 
                              +kC   +aCve CP gAI+
  PHY93_19350|PHY93_19350 536 SKCAMDMACVESCPMGAIE 554
                              799999************6 PP

>> Fer4_9  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.1   9.9   3.8e-09   3.6e-06       2      51 .]     503     553 ..     502     553 .. 0.82

  Alignments for each domain:
  == domain 1  score: 27.1 bits;  conditional E-value: 3.8e-09
                   Fer4_9   2 CtgCgaCveaCpagvvvedaaerkarlraase.eaCigCgaCveaCpkgai 51 
                              C++C+aCv++Cp++++  ++ e+k  + ++ + ++C + +aCve Cp gai
  PHY93_19350|PHY93_19350 503 CASCQACVQVCPHDIWAVSKDEKKKTYIQTANiSKCAMDMACVESCPMGAI 553
                              ****************666666665554444459**************997 PP

>> Fer4_10  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.8   8.8   4.5e-09   4.3e-06       2      56 .]     496     549 ..     495     549 .. 0.81

  Alignments for each domain:
  == domain 1  score: 26.8 bits;  conditional E-value: 4.5e-09
                  Fer4_10   2 vvidddtCirCgkCvkaCPadltsvgakgeaseeeavrkkvekCtgcgaCveaCP 56 
                              + +d++ C  C++Cv++CP d+++v++ ++ ++   +  +++kC +  aCve+CP
  PHY93_19350|PHY93_19350 496 ILLDTNVCASCQACVQVCPHDIWAVSKDEK-KKTYIQTANISKCAMDMACVESCP 549
                              67899***************8877765544.4444455568*************9 PP

>> Fer4_7  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   2.7     3e-06    0.0029      26      52 .]     491     517 ..     476     517 .. 0.84
   2 !   21.9  11.4   2.1e-07    0.0002       2      52 .]     503     552 ..     502     552 .. 0.85

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 3e-06
                   Fer4_7  26 kgtekveidpekClgCgaCvavCPtga 52 
                              ++++k+ +d + C +C+aCv+vCP+++
  PHY93_19350|PHY93_19350 491 DEKKKILLDTNVCASCQACVQVCPHDI 517
                              4668999999**************975 PP

  == domain 2  score: 21.9 bits;  conditional E-value: 2.1e-07
                   Fer4_7   2 CigCgaCvaaCpvkaieldeeenekgtekveidpekClgCgaCvavCPtga 52 
                              C  C+aCv++Cp++   + ++e++k+    + + +kC    aCv+ CP ga
  PHY93_19350|PHY93_19350 503 CASCQACVQVCPHDIWAVSKDEKKKT-YIQTANISKCAMDMACVESCPMGA 552
                              99************999999854443.44466899*************997 PP

>> HpcH_HpaI  HpcH/HpaI aldolase/citrate lyase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       2.9   2.8e+03       8      51 ..      14      56 ..      13      76 .. 0.68
   2 !   21.2   0.3   1.3e-07   0.00013      76     154 ..     178     248 ..     169     280 .. 0.85
   3 ?   -2.9   0.0       3.2     3e+03      14      32 ..     299     317 ..     287     320 .. 0.79

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 2.9
                             STSHHHHHHHCTC--SEEEEESSTSSSHHHHHHHHHHHHHHHHH CS
                HpcH_HpaI  8 ganaalaekaaiagaDsvliDlEdavalaeKdaARvlvsealkq 51
                             ++++++++++ iag+ +  i++ +++  +  ++  ++++ea k+
  PHY93_19350|PHY93_19350 14 SSSKEMLTQLIIAGMNVCRINMSHGT-YEGHQQVIKNIREASKE 56
                             56777888888888888888888877.55555555555555554 PP

  == domain 2  score: 21.2 bits;  conditional E-value: 1.3e-07
                              HHGG.HHHTTSSEEEESS--SHHHHHHHHHHTSHTTTS---HCCC-EEEEEE-SHHHHHTHHHHHTSTTEEEEEE-HHHH CS
                HpcH_HpaI  76 qdle.vldlgaqvvlvPkvetaeealevvsalrepekgirganketrllaqiEsaegvknaeeIaavegldgvflGaeDl 154
                              +dl  +l++ga+ v + +v ++e++l v+++l + +        +++++  iE  ++v+n++eI++v  +++v+ G  D 
  PHY93_19350|PHY93_19350 178 EDLMfALKEGADYVALSFVRKKEDILVVKNLLHSLK-------VNIPIISKIEKPQAVDNLDEILSVTDMIMVARG--DM 248
                              567789****************************99.......99**********************988777655..44 PP

  == domain 3  score: -2.9 bits;  conditional E-value: 3.2
                              HHHHCTC--SEEEEESSTS CS
                HpcH_HpaI  14 aekaaiagaDsvliDlEda 32 
                              + +a   g D+v++ +E a
  PHY93_19350|PHY93_19350 299 VANAIWDGTDAVMLSGETA 317
                              5667778999999999977 PP

>> Fer4_8  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.9   0.3   6.1e-05     0.058      48      65 .]     500     517 ..     466     517 .. 0.75
   2 !   10.9   0.5   0.00053       0.5      43      64 ..     530     551 ..     518     552 .. 0.73

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 6.1e-05
                   Fer4_8  48 lwsCttcgaCtevCpvgi 65 
                               + C +c+aC++vCp +i
  PHY93_19350|PHY93_19350 500 TNVCASCQACVQVCPHDI 517
                              467************986 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.00053
                   Fer4_8  43 eeeealwsCttcgaCtevCpvg 64 
                               +  ++ +C + +aC+e Cp+g
  PHY93_19350|PHY93_19350 530 IQTANISKCAMDMACVESCPMG 551
                              3366799*************87 PP

>> Fer4_2  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.6   2.4   3.5e-07   0.00033       2      22 .]     495     515 ..     494     515 .. 0.92
   2 ?    2.2   0.5      0.24   2.3e+02      15      21 ..     543     549 ..     534     550 .. 0.80

  Alignments for each domain:
  == domain 1  score: 20.6 bits;  conditional E-value: 3.5e-07
                   Fer4_2   2 pvvvdtdrCigCgaCvsaCPa 22 
                              ++  dt+ C +C aCv++CP+
  PHY93_19350|PHY93_19350 495 KILLDTNVCASCQACVQVCPH 515
                              5789****************7 PP

  == domain 2  score: 2.2 bits;  conditional E-value: 0.24
                   Fer4_2  15 aCvsaCP 21 
                              aCv +CP
  PHY93_19350|PHY93_19350 543 ACVESCP 549
                              8*****9 PP

>> Fer4_6  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.1   1.7   0.00035      0.33       5      23 ..     499     517 ..     497     518 .. 0.88
   2 !   13.4   1.2   6.4e-05     0.061       5      24 .]     534     553 ..     532     553 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00035
                   Fer4_6   5 dpdkCigCgdCvrvCPega 23 
                              d + C +C +Cv vCP+++
  PHY93_19350|PHY93_19350 499 DTNVCASCQACVQVCPHDI 517
                              5677************986 PP

  == domain 2  score: 13.4 bits;  conditional E-value: 6.4e-05
                   Fer4_6   5 dpdkCigCgdCvrvCPegai 24 
                              + +kC   ++Cv  CP+gai
  PHY93_19350|PHY93_19350 534 NISKCAMDMACVESCPMGAI 553
                              779****************8 PP

>> Fer4_17  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.2   1.9   0.00011       0.1      42      60 ..     499     517 ..     466     518 .. 0.75
   2 !   10.7  11.2   0.00062      0.59       2      59 ..     503     551 ..     502     552 .. 0.74

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 0.00011
                  Fer4_17  42 kaslCieCgeCerkCPqgl 60 
                                + C++C+ C+++CP+++
  PHY93_19350|PHY93_19350 499 DTNVCASCQACVQVCPHDI 517
                              5688************986 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 0.00062
                  Fer4_17   2 CiqCgyClpeCpsyea..ydnepkkllraaklglleeaekeekaslCieCgeCerkCPqg 59 
                              C++C++C+++Cp  ++   ++e+kk+            ++  ++s+C+    C+++CP+g
  PHY93_19350|PHY93_19350 503 CASCQACVQVCPHDIWavSKDEKKKTY-----------IQTANISKCAMDMACVESCPMG 551
                              ************988843233333222...........3346899*************97 PP

>> Fer4_21  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   8.9   6.3e-06     0.006       3      58 ..     498     554 ..     490     555 .. 0.78

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 6.3e-06
                  Fer4_21   3 idedkCigCgkCliaCedtshqaieidakt..vlkvv.edeCvGCnlCssvCPvedcie 58 
                              +d + C +C+ C+++C+   + a+++d+k+  ++++   ++C     C++ CP+ ++ie
  PHY93_19350|PHY93_19350 498 LDTNVCASCQACVQVCPH-DIWAVSKDEKKktYIQTAnISKCAMDMACVESCPM-GAIE 554
                              68999************4.6778877766511444432578988899******7.9997 PP

>> IMPDH  IMP dehydrogenase / GMP reductase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.1   1.5e-05     0.014      92     144 ..       3      55 ..       1      65 [. 0.91
   2 ?   -2.7   0.0       2.4   2.2e+03      20      39 ..     201     220 ..     194     231 .. 0.82
   3 ?   -1.3   0.0      0.88   8.3e+02     219     237 ..     296     314 ..     265     335 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 1.5e-05
                              XB-EEEEE-SSTTHHHHHHHHHHTT-SEEEEE-STSSSHHHHHHHHHHHHHTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    IMPDH  92 rllvgaavgvkedalervkalveagvdvlvvdsahghsekvleavkeikkkve 144
                              r  + a++g +++++e +++l+ ag++v  ++++hg  e+  +++k+i+++ +
  PHY93_19350|PHY93_19350   3 RAKIVATIGPSSSSKEMLTQLIIAGMNVCRINMSHGTYEGHQQVIKNIREASK 55 
                              677899*******************************************9876 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 2.4
                              GSB--EESSTTEEESSSEEE CS
                              xxxxxxxxxxxxxxxxxxxx RF
                    IMPDH  20 evdlktkltkkiklniPlvs 39 
                              ++ +  +l +++k+niP++s
  PHY93_19350|PHY93_19350 201 DILVVKNLLHSLKVNIPIIS 220
                              556667888999******99 PP

  == domain 3  score: -1.3 bits;  conditional E-value: 0.88
                              HHHHHHHHHTT-SEEEESC CS
                              xxxxxxxxxxxxxxxxxxx RF
                    IMPDH 219 sgdivkAlaaGadavmlGs 237
                                d++ A+  G+davml  
  PHY93_19350|PHY93_19350 296 ASDVANAIWDGTDAVMLSG 314
                              5799999999999999854 PP

>> Fer4_16  4Fe-4S double cluster binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   3.7   0.00011      0.11       2      18 ..     503     519 ..     502     537 .. 0.71
   2 ?    6.4   0.7     0.019        18       2      18 ..     538     554 ..     537     556 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 0.00011
                  Fer4_16   2 CgtCgkCaevCPtnaik 18 
                              C +C++C++vCP++   
  PHY93_19350|PHY93_19350 503 CASCQACVQVCPHDIWA 519
                              *************7643 PP

  == domain 2  score: 6.4 bits;  conditional E-value: 0.019
                  Fer4_16   2 CgtCgkCaevCPtnaik 18 
                              C    +C+e+CP +ai+
  PHY93_19350|PHY93_19350 538 CAMDMACVESCPMGAIE 554
                              666679*********96 PP

>> Fer4_3  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   5.9   0.00088      0.83       1      14 [.     503     516 ..     503     517 .. 0.85
   2 ?   10.3   1.8    0.0012       1.1       4      15 .]     538     552 ..     536     552 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00088
                   Fer4_3   1 CtgCgaCvevCPvg 14 
                              C  C+aCv+vCP +
  PHY93_19350|PHY93_19350 503 CASCQACVQVCPHD 516
                              667*********86 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 0.0012
                   Fer4_3   4 Cg...aCvevCPvgA 15 
                              C    aCve+CP gA
  PHY93_19350|PHY93_19350 538 CAmdmACVESCPMGA 552
                              533449******998 PP

>> Fer4_18  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   2.1   0.00012      0.11      48      75 ..     490     517 ..     461     520 .. 0.70
   2 ?    5.1   0.7     0.027        25      45      74 ..     522     551 ..     518     556 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 0.00012
                  Fer4_18  48 kekeerkekgagdcidcescvkvcPtgi 75 
                              ++++++   +++ c +c++cv+vcP +i
  PHY93_19350|PHY93_19350 490 SDEKKKILLDTNVCASCQACVQVCPHDI 517
                              3333344557788************987 PP

  == domain 2  score: 5.1 bits;  conditional E-value: 0.027
                  Fer4_18  45 kalkekeerkekgagdcidcescvkvcPtg 74 
                              k+ k+k   ++++ ++c    +cv+ cP+g
  PHY93_19350|PHY93_19350 522 KDEKKKTYIQTANISKCAMDMACVESCPMG 551
                              4567777788999999*999********97 PP

>> Fer4_19  Divergent 4Fe-4S mono-cluster
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   4.4   0.00014      0.13       3      62 ..     491     556 ..     489     558 .] 0.78

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00014
                  Fer4_19   3 geeitiednrelCihsgnCvkglpe.vF....dpkrkpwikpdeast.eeiievverCPSGALsyv 62 
                              +e+ +i  ++++C++ + Cv+  p+ ++    d k+k +i+  + s+ +  ++ ve+CP GA++++
  PHY93_19350|PHY93_19350 491 DEKKKILLDTNVCASCQACVQVCPHdIWavskDEKKKTYIQTANISKcAMDMACVESCPMGAIEII 556
                              56668999*************7764477333334566899888777658889**********9986 PP

>> Fer4_13  4Fe-4S single cluster domain of Ferredoxin I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1  11.3    0.0019       1.8       2      57 ..     499     554 ..     498     555 .. 0.68

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.0019
                  Fer4_13   2 DrdtCiacgaCvelaP.dvFeeddeggasvvaeqptseeekadaeeAadaCPvesIg 57 
                              D + C +c+aCv+++P d+ +  +++++    +   +  + a  ++ +++CP+ +I+
  PHY93_19350|PHY93_19350 499 DTNVCASCQACVQVCPhDIWAVSKDEKKKTYIQ-TANISKCAMDMACVESCPMGAIE 554
                              7788************77999876655443333.332222233334569*******7 PP

>> Fer4_4  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   1.6    0.0016       1.6       2      15 ..     501     514 ..     499     527 .. 0.89
   2 ?    4.2   1.0      0.08        76       8      17 .]     542     551 ..     536     551 .. 0.83

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.0016
                   Fer4_4   2 erCigCgsCvaaCP 15 
                              + C  C +Cv +CP
  PHY93_19350|PHY93_19350 501 NVCASCQACVQVCP 514
                              57***********9 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.08
                   Fer4_4   8 gsCvaaCPqg 17 
                              ++Cv +CP+g
  PHY93_19350|PHY93_19350 542 MACVESCPMG 551
                              58******86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (558 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       697  (0.0388756); expected 358.6 (0.02)
Passed bias filter:                      487  (0.0271627); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                        20  (0.00111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              19  [number of targets reported over threshold]
# CPU time: 0.63u 0.22s 00:00:00.85 Elapsed: 00:00:00.39
# Mc/sec: 4259.51
//
Query:       PHY93_19355|PHY93_19355  [L=639]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (639 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      3428  (0.191199); expected 358.6 (0.02)
Passed bias filter:                      370  (0.020637); expected 358.6 (0.02)
Passed Vit filter:                        76  (0.00423894); expected 17.9 (0.001)
Passed Fwd filter:                        25  (0.00139439); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 1.41u 0.34s 00:00:01.75 Elapsed: 00:00:00.55
# Mc/sec: 3519.38
//
Query:       PHY93_19360|PHY93_19360  [L=348]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.8e-36  125.2   1.6    2.8e-36  125.2   1.6    1.7  2  Thioredoxin_4  Thioredoxin
    1.9e-23   83.3   1.5    2.1e-21   76.6   1.5    2.5  1  DSBA           DSBA-like thioredoxin domain
    2.7e-08   34.2   1.5    5.4e-08   33.3   0.1    2.1  2  Thioredoxin_2  Thioredoxin-like domain
    3.1e-07   30.3   0.8    6.8e-07   29.1   0.8    1.6  1  Thioredoxin_5  Thioredoxin
    0.00099   19.3   1.5     0.0025   18.0   0.2    2.4  2  DapH_N         Tetrahydrodipicolinate succinyltransferase N-t
     0.0011   19.2   1.2        2.4    8.4   0.1    3.4  3  Glutaredoxin   Glutaredoxin
     0.0082   16.2   2.2      0.043   13.8   0.0    2.7  3  Thioredoxin_3  Thioredoxin domain
  ------ inclusion threshold ------
      0.015   15.3   0.2       0.64   10.1   0.1    2.6  2  Elf1           Transcription elongation factor Elf1 like
      0.025   14.7   0.3      0.096   12.8   0.3    2.0  2  DUF2634        Protein of unknown function (DUF2634)
      0.028   14.2   2.0        1.3    8.8   0.0    2.8  3  TraF           F plasmid transfer operon protein
      0.033   14.5   0.1       0.08   13.3   0.1    1.6  1  zf-Di19        Drought induced 19 protein (Di19), zinc-bindin
      0.078   12.7   1.1       0.97    9.1   1.1    2.3  1  Redoxin        Redoxin
       0.11   13.6   0.8        2.1    9.5   0.5    2.6  2  RNase_J_C      Ribonuclease J C-terminal domain
       0.19   11.8   2.2          4    7.5   0.1    2.9  3  Thioredoxin    Thioredoxin


Domain annotation for each model (and alignments):
>> Thioredoxin_4  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.1       2.1   2.6e+03      86      91 ..     102     107 ..      49     155 .. 0.50
   2 !  125.2   1.6   2.2e-39   2.8e-36       4     166 .]     185     346 ..     182     346 .. 0.94

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 2.1
                              HHHHTH CS
            Thioredoxin_4  86 allysq 91 
                              ++l++ 
  PHY93_19360|PHY93_19360 102 EFLNKY 107
                              333222 PP

  == domain 2  score: 125.2 bits;  conditional E-value: 2.2e-39
                              SSEEES-TT-SEEEEEEE-TT-HHHHHHHHHHHHHHHHHHHTTSEEEEEEE-..---STTTHHHHHHHTT--TTHHHHHHHHHHHH CS
            Thioredoxin_4   4 tdiviGnpdApvtvieyedlrCphCakfeeeveklleeyidtGkvkfiirdfpldkekeslkaamaarcageespeaflaikally 89 
                              + ++ G +dA+vt++ey+d++Cp C k + +v +l ++y    kvk+ ++++pl+ ++++  aa aa ca+e+s + f++++++++
  PHY93_19360|PHY93_19360 185 DAPFKGGSDAKVTIVEYSDFQCPFCSKAAVTVAELEKKY--GNKVKVAFKNYPLPFHSQARLAAEAALCANEQSAKLFWKMHDAMF 268
                              567899*********************************..66******************************************* PP

                              THHHHTTS-HHHHH.......HHHHHTS-------HHHHHHHHHHHHHHT--SS-EEEETTEEE-TT--HHHHHHHHT- CS
            Thioredoxin_4  90 sqqeewaeslkela..aealdkdekfeacleeekldalveaeskeakkagiestPtfiingekveepqtyeelkalida 166
                                q++  ++ + +a  ++ + k+++f++cle +k++a + a++++ +k+gi+stPtf+ing+ v+++q++e ++++id+
  PHY93_19360|PHY93_19360 269 ADQSKLDKD-NLIAsaKKIGVKEAEFKTCLEATKFKAVIDADMAQGQKLGIKSTPTFFINGKLVSGAQPVEVFSEVIDE 346
                              *****9999.777643557888999****************************************************95 PP

>> DSBA  DSBA-like thioredoxin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.6   1.5   1.6e-24   2.1e-21       1     192 [.     197     344 ..     197     345 .. 0.95

  Alignments for each domain:
  == domain 1  score: 76.6 bits;  conditional E-value: 1.6e-24
                              EEEEEEBTTBHHHHHHHHHHHHHHHHCCT.EEEEEEE-SSSCHHHHCT.S.GGGSHHHHHHHHHHHHHHHHHHT....GGSSHHHH CS
                     DSBA   1 tvdeffDvlCPyCylgkerleklaarspd.vkvvlrpfelagakkasgnvgpselpeklkylledlkrlaeaegiplrfpkdklkn 85 
                              t++e++D++CP+C  ++  + +l++++ + vkv ++ ++l  +                                         ++
  PHY93_19360|PHY93_19360 197 TIVEYSDFQCPFCSKAAVTVAELEKKYGNkVKVAFKNYPLPFH-----------------------------------------SQ 241
                              799************************555**********999.........................................36 PP

                              HHHHHHHHHHHHHHHGHHHHHHHHHHHHHTSSS-TSSHHHHHHHHHHTTS.HHHHHHHHTSHHHHHHHHHHHHHHHHTT-SSSSEE CS
                     DSBA  86 straarlllaagaeglaekvvrelfealwsegqaitddqellevaekaGldaeeldealeseavkeavrentaaaqslgvtGvPtv 171
                              ++ aa ++l a+++   +k+++++++a++ ++ ++++d+ l + a+k G++ +e+++ le  ++k  ++ ++a++q+lg+  +Pt+
  PHY93_19360|PHY93_19360 242 ARLAAEAALCANEQS--AKLFWKMHDAMFADQSKLDKDN-LIASAKKIGVKEAEFKTCLEATKFKAVIDADMAQGQKLGIKSTPTF 324
                              889999999999998..6******************997.999******************************************* PP

                              EETTCEEEESSSSHHHHHHHH CS
                     DSBA 172 vvdgkrmvfGadrldtladal 192
                              +++gk  v+Ga++++ + + +
  PHY93_19360|PHY93_19360 325 FINGK-LVSGAQPVEVFSEVI 344
                              *****.**********99876 PP

>> Thioredoxin_2  Thioredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.1       2.7   3.4e+03      33      60 ..     141     163 ..     123     179 .. 0.56
   2 !   33.3   0.1   4.2e-11   5.4e-08       5     108 ..     194     343 ..     191     344 .. 0.88

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 2.7
            Thioredoxin_2  33 vtvrvllfplkpsfepkavaiwcakekk 60 
                              ++++     l+ ++++ av+ w a+  k
  PHY93_19360|PHY93_19360 141 IKQY-----LEVESKKLAVDKWIADKTK 163
                              3333.....4445555555555555444 PP

  == domain 2  score: 33.3 bits;  conditional E-value: 4.2e-11
            Thioredoxin_2   5 gkpvlvvftdpdCpyCkklkkelkel.....ddvtvrvllfp..lkpsfepkavaiwcakekk....kafkd.............. 65 
                               k ++v ++d +Cp+C k   ++ el     ++v+v    +p  +++++  +a+a  ca+e++        +              
  PHY93_19360|PHY93_19360 194 AKVTIVEYSDFQCPFCSKAAVTVAELekkygNKVKVAFKNYPlpFHSQARLAAEAALCANEQSaklfW---Kmhdamfadqskldk 276
                              688999999************999999999999999999999*******************9855441...156677778889999 PP

            Thioredoxin_2  66 .............................ieenvelarkygvrgtPtivfldgkeivarlpGyvpaeeleal 108
                                                           i++ ++ ++k+g+++tPt+ f++gk     + G+ p e ++++
  PHY93_19360|PHY93_19360 277 dnliasakkigvkeaefktcleatkfkavIDADMAQGQKLGIKSTPTF-FINGK----LVSGAQPVEVFSEV 343
                              9999999999999999999***************************96.78999....88999999988876 PP

>> Thioredoxin_5  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.1   0.8   5.3e-10   6.8e-07      66     165 ..     230     328 ..     195     341 .. 0.80

  Alignments for each domain:
  == domain 1  score: 29.1 bits;  conditional E-value: 5.3e-10
            Thioredoxin_5  66 l.leellsssYlaslaiKAAelQgkkkgrkFLrklqealflekkniskeellleiaekaglDveefkeDlesklakkafqcDlkla 150
                                ++ +l  + +a la  AA    ++ + k+  k+ +a+f ++ +++k + l+++a+k+g+   efk+ le++  k + ++D+   
  PHY93_19360|PHY93_19360 230 AfKNYPLPFHSQARLAAEAALCANEQSA-KLFWKMHDAMFADQSKLDK-DNLIASAKKIGVKEAEFKTCLEATKFKAVIDADMAQG 313
                              2478888888899999999977666655.56689**************.9999********************************* PP

            Thioredoxin_5 151 kemgvtevPtlvffn 165
                              + +g++++Pt+++  
  PHY93_19360|PHY93_19360 314 QKLGIKSTPTFFING 328
                              **********98754 PP

>> DapH_N  Tetrahydrodipicolinate succinyltransferase N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.1       3.1     4e+03      66      78 ..     113     125 ..      98     134 .. 0.59
   2 !   18.0   0.2     2e-06    0.0025       8      58 ..     156     206 ..     138     226 .. 0.81

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 3.1
                              TEEEEEEEE--BS CS
                   DapH_N  66 kiedyevendrRn 78 
                              k++d e+e   + 
  PHY93_19360|PHY93_19360 113 KVTDAEIEKFIKE 125
                              4555555544444 PP

  == domain 2  score: 18.0 bits;  conditional E-value: 2e-06
                              HHHHH---B-EEEEEEEE-.C.TC----.TTSEEEE-SSEEEEEEEHHHHHH CS
                   DapH_N   8 kyIkeakKkTpvkvYvkgelkeeelefp.eevkvfgsedsgvvfGdwkeiee 58 
                              k I++ +KkTpv vY+k  ++   ++++ +++ + g++d +v + ++++++ 
  PHY93_19360|PHY93_19360 156 KWIADKTKKTPVEVYLKKPQR-PVFDVNtKDAPFKGGSDAKVTIVEYSDFQC 206
                              789**************9975.44444449999**************99874 PP

>> Glutaredoxin  Glutaredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.1      0.24   3.1e+02      27      47 ..     124     147 ..     113     151 .. 0.80
   2 !    8.4   0.1    0.0019       2.4       4      26 ..     201     223 ..     198     240 .. 0.82
   3 ?    5.6   0.0     0.014        18      39      60 .]     314     331 ..     290     331 .. 0.78

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.24
                              EEEEGCCSH...HHHHHHHHHHTS CS
             Glutaredoxin  27 eeidvdkde...eireelkelsgv 47 
                              +e+++ kd+   eire +k++++v
  PHY93_19360|PHY93_19360 124 KERQIPKDQvnpEIRERIKQYLEV 147
                              677888886667********9865 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.0019
                              EESTSSHHHHHHHHHHHHTTGGE CS
             Glutaredoxin   4 ftkptCpyCkkakrlLkelgvkf 26 
                              ++  +Cp+C+ka  +  el  k+
  PHY93_19360|PHY93_19360 201 YSDFQCPFCSKAAVTVAELEKKY 223
                              77899*******98887777666 PP

  == domain 3  score: 5.6 bits;  conditional E-value: 0.014
                              HHHHHHHTSSSSSEEEETTEEE CS
             Glutaredoxin  39 eelkelsgvrtvPqvfidgkhv 60 
                              ++    +g+++ P+ fi+gk+v
  PHY93_19360|PHY93_19360 314 QK----LGIKSTPTFFINGKLV 331
                              33....39************87 PP

>> Thioredoxin_3  Thioredoxin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.1       5.7   7.3e+03      28      42 ..     113     128 ..     101     133 .. 0.57
   2 ?    1.0   0.1      0.34   4.4e+02       8      32 ..     204     228 ..     194     234 .. 0.75
   3 !   13.8   0.0   3.4e-05     0.043      35      63 ..     306     333 ..     288     344 .. 0.77

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 5.7
                              T.CECEEECCTTHHHH CS
            Thioredoxin_3  28 g.ikaevekvtdfeei 42 
                              + ++ae+ek  + ++i
  PHY93_19360|PHY93_19360 113 KvTDAEIEKFIKERQI 128
                              4467777776665555 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.34
                              SSSTTCHHHHHHHHHHCHCCTCECE CS
            Thioredoxin_3   8 pgCakCpklekavkeaaaekgikae 32 
                               +C+ C k++  v+e+ ++ g k++
  PHY93_19360|PHY93_19360 204 FQCPFCSKAAVTVAELEKKYGNKVK 228
                              57*****999999998888876655 PP

  == domain 3  score: 13.8 bits;  conditional E-value: 3.4e-05
                              CCTTHHHHHHCT-SSSSEEECTTCEEEES CS
            Thioredoxin_3  35 kvtdfeeiekygVmsvPalvidgkvvvsG 63 
                                 d+ + +k g+ s+P+ +i+gk+v+ G
  PHY93_19360|PHY93_19360 306 IDADMAQGQKLGIKSTPTFFINGKLVS-G 333
                              446888889***************974.5 PP

>> Elf1  Transcription elongation factor Elf1 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.1    0.0005      0.64      20      41 ..     202     223 ..     192     230 .. 0.75
   2 ?    2.1   0.0      0.15     2e+02      62      75 ..     333     346 ..     323     347 .. 0.85

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.0005
                     Elf1  20 tkFdCpfCnheksvev.kldkke 41 
                              + F+CpfC++  +v+v +l+kk 
  PHY93_19360|PHY93_19360 202 SDFQCPFCSKA-AVTVaELEKKY 223
                              57********9.55551566664 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.15
                     Elf1  62 lsepvDvYskwiDa 75 
                                +pv+v+s++iD+
  PHY93_19360|PHY93_19360 333 GAQPVEVFSEVIDE 346
                              679**********7 PP

>> DUF2634  Protein of unknown function (DUF2634)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.3   7.5e-05     0.096      51     101 ..     117     169 ..     113     172 .. 0.91
   2 ?   -3.2   0.0       7.4   9.4e+03      47      57 ..     221     231 ..     181     245 .. 0.72

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 7.5e-05
                  DUF2634  51 veledligkky.skeyveseikreiteaLlvnpriesvdnfsfekekdd.lkv 101
                               e+e++i++   +k+ v++ei+++i++ L v++   +vd++  +k+k++ ++v
  PHY93_19360|PHY93_19360 117 AEIEKFIKERQiPKDQVNPEIRERIKQYLEVESKKLAVDKWIADKTKKTpVEV 169
                              5899***999889*******************************999987776 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 7.4
                  DUF2634  47 enYGveledli 57 
                              ++YG++++  +
  PHY93_19360|PHY93_19360 221 KKYGNKVKVAF 231
                              45666555544 PP

>> TraF  F plasmid transfer operon protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.2       2.8   3.5e+03      38      73 ..     134     149 ..     108     176 .. 0.55
   2 ?    8.8   0.0   0.00098       1.3     140     165 ..     205     229 ..     194     250 .. 0.83
   3 ?    4.1   0.0     0.027        35     179     198 ..     307     326 ..     298     337 .. 0.84

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 2.8
                     TraF  38 atesaaelrkeleelldkAilnPteenveaylrlqr 73 
                               +e                     +e +++yl++++
  PHY93_19360|PHY93_19360 134 NPEI--------------------RERIKQYLEVES 149
                              3333....................334444444332 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.00098
                     TraF 140 kcpyceaqapilqafadkyglevraV 165
                              +cp+c ++a ++ ++++kyg +v+ V
  PHY93_19360|PHY93_19360 205 QCPFCSKAAVTVAELEKKYGNKVK-V 229
                              7*******************9997.4 PP

  == domain 3  score: 4.1 bits;  conditional E-value: 0.027
                     TraF 179 rvdkgqaarlgvkrtPalvl 198
                                d  q ++lg+k+tP++++
  PHY93_19360|PHY93_19360 307 DADMAQGQKLGIKSTPTFFI 326
                              46888999**********97 PP

>> zf-Di19  Drought induced 19 protein (Di19), zinc-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.1   6.2e-05      0.08       2      18 ..     203     220 ..     202     227 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 6.2e-05
                  zf-Di19   2 sftCPyCgk.eltvkeLv 18 
                              +f+CP+C+k ++tv+eL 
  PHY93_19360|PHY93_19360 203 DFQCPFCSKaAVTVAELE 220
                              79*******88**99985 PP

>> Redoxin  Redoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   1.1   0.00076      0.97      29     103 ..     194     318 ..     179     339 .. 0.63

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.00076
                              SEEEEEEESTTT-HHHHHTHHHHHTHHHHHHCSTTTEEEE.............................................. CS
                  Redoxin  29 kkvvvnfvpgafcPtCsaehpyleklaellkekgvdvvav.............................................. 68 
                               kv ++ +   +cP Cs+ ++ +++l++++++k v+v a                                               
  PHY93_19360|PHY93_19360 194 AKVTIVEYSDFQCPFCSKAAVTVAELEKKYGNK-VKV-AFknyplpfhsqarlaaeaalcaneqsaklfwkmhdamfadqskldkd 277
                              467777888889**************9998888.665.444777777777777777774444444444444444444444444444 PP

                              ..EESSSHH..HHHHHHH...TT-TSEEEE-TTSHHHHHTT- CS
                  Redoxin  69 ..vadndaf..vkefwgk...eglkfpvlsDgsaaftkalGl 103
                                +a+      vke+  k   e  kf+ ++D++ a  ++lG+
  PHY93_19360|PHY93_19360 278 nlIASAK-KigVKEAEFKtclEATKFKAVIDADMAQGQKLGI 318
                              3222222.1244444444666666666666666666666664 PP

>> RNase_J_C  Ribonuclease J C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.5    0.0016       2.1      20      61 ..     109     150 ..      95     152 .. 0.85
   2 ?    1.7   0.0      0.44   5.6e+02      51      65 ..     153     167 ..     150     168 .. 0.90

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.0016
                RNase_J_C  20 eeakkvvretieealeekesdwnelkrkirealkkflykktk 61 
                              ++  kv+ + ie++++e+++  ++++ +ire +k++l+ + k
  PHY93_19360|PHY93_19360 109 AKDVKVTDAEIEKFIKERQIPKDQVNPEIRERIKQYLEVESK 150
                              555678999****************************98766 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.44
                RNase_J_C  51 alkkflykktkrrPm 65 
                              a+ k++ +ktk+ P+
  PHY93_19360|PHY93_19360 153 AVDKWIADKTKKTPV 167
                              789***********7 PP

>> Thioredoxin  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.1       2.3     3e+03      77     101 ..     121     145 ..     101     164 .. 0.65
   2 ?    7.5   0.1    0.0031         4      18      54 ..     194     230 ..     181     235 .. 0.89
   3 ?    2.8   0.0     0.087   1.1e+02      58      83 ..     306     329 ..     273     346 .. 0.73

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 2.3
                              EEEETTEEEEEEESS-HHHHHHHHH CS
              Thioredoxin  77 klfkngkevkkyegarekeklaafl 101
                              k++k+ + +k+ +  + +e+++++l
  PHY93_19360|PHY93_19360 121 KFIKERQIPKDQVNPEIRERIKQYL 145
                              5566666666666555555555554 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0031
                              SSEEEEEEE-TTSHHHHCHHHHHHHHHHHCTTTSEEE CS
              Thioredoxin  18 kklvlveFyApwCghCkalaPeleklaeelkdkvkla 54 
                              +k  +ve+    C+ C + a ++++l +++ +kvk+a
  PHY93_19360|PHY93_19360 194 AKVTIVEYSDFQCPFCSKAAVTVAELEKKYGNKVKVA 230
                              578899999999********************99886 PP

  == domain 3  score: 2.8 bits;  conditional E-value: 0.087
                              TTTSHHHHHHTT-SSSSEEEEEETTE CS
              Thioredoxin  58 vdenedlakkyevegiPtlklfkngk 83 
                              +d+     +k+++++ Pt+  f ngk
  PHY93_19360|PHY93_19360 306 IDADMAQGQKLGIKSTPTF--FINGK 329
                              4555567899********9..44555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (348 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       825  (0.0460148); expected 358.6 (0.02)
Passed bias filter:                      505  (0.0281667); expected 358.6 (0.02)
Passed Vit filter:                        66  (0.00368119); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.54u 0.21s 00:00:00.75 Elapsed: 00:00:00.39
# Mc/sec: 2667.49
//
Query:       PHY93_19365|PHY93_19365  [L=298]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (298 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       215  (0.0119917); expected 358.6 (0.02)
Passed bias filter:                      138  (0.00769703); expected 358.6 (0.02)
Passed Vit filter:                         6  (0.000334653); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.48
# Mc/sec: 1877.83
//
Query:       PHY93_10630|PHY93_10630  [L=401]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (401 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       727  (0.0405488); expected 358.6 (0.02)
Passed bias filter:                      473  (0.0263818); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.60u 0.26s 00:00:00.86 Elapsed: 00:00:00.48
# Mc/sec: 2537.33
//
Query:       PHY93_10635|PHY93_10635  [L=217]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (217 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       458  (0.0255452); expected 358.6 (0.02)
Passed bias filter:                      248  (0.0138323); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 1477.57
//
Query:       PHY93_16370|PHY93_16370  [L=678]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
  ------ inclusion threshold ------
        3.5    8.0  11.6        3.8    7.9   2.8    3.6  3  TSC22      TSC-22/dip/bun family
        5.4    6.8  31.7         23    4.8  31.7    2.1  1  KASH_CCD   Coiled-coil region of CCDC155 or KASH
        7.3    5.9  32.0         21    4.4  32.0    1.8  1  GAS        Growth-arrest specific micro-tubule binding


Domain annotation for each model (and alignments):
>> TSC22  TSC-22/dip/bun family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9   2.8   0.00063       3.8      13      46 ..     486     519 ..     484     538 .. 0.91
   2 ?    1.0   0.7     0.088   5.2e+02      21      48 ..     604     633 ..     591     642 .. 0.76
   3 ?    2.3   0.0     0.037   2.2e+02      18      32 ..     647     661 ..     644     667 .. 0.88

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.00063
                    TSC22  13 rEeVevLkekIkeLeernseleeENslLkalasp 46 
                              rEe e+L ++Ik     n+ele++N +Lka + +
  PHY93_16370|PHY93_16370 486 REEREELLNQIKIFKGGNRELEQDNLTLKAALDE 519
                              9****************************98765 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.088
                    TSC22  21 ekIkeLeernselee..ENslLkalaspeq 48 
                              +kI eL  ++  le   EN   k++ s++ 
  PHY93_16370|PHY93_16370 604 QKILELRRKIDSLEFnmENVSIKEQKSQDD 633
                              689999999999984338988888888775 PP

  == domain 3  score: 2.3 bits;  conditional E-value: 0.037
                    TSC22  18 vLkekIkeLeernse 32 
                              +L+  Ik+Le+++ +
  PHY93_16370|PHY93_16370 647 TLRHSIKNLEDDIDQ 661
                              7**********9987 PP

>> KASH_CCD  Coiled-coil region of CCDC155 or KASH
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8  31.7    0.0038        23      14     190 ..     479     643 ..     473     644 .. 0.80

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.0038
                 KASH_CCD  14 qlnNkkLaeenskLkkavetaeetnakLteeieeLkkklkstQqa.lqkaklleeEleelkalvkeleEkrarlkaqnkqlekenq 98 
                              q+  ++L ee + L +++      n  L +++  Lk  l  +    +   k    Ele++k  ++  eE+++++  +++q+   ++
  PHY93_16370|PHY93_16370 479 QATIRQLREEREELLNQIKIFKGGNRELEQDNLTLKAALDESKIEvSILRKRQMVELEDIKYRLSLNEERKEQALEKARQAIGSKE 564
                              666799*******************************9965553303334444559****************99888888877777 PP

                 KASH_CCD  99 sLiakiesLqeenikllaekdelkkklkeLlkekaeLkkqlheleellaekealleektkqieeLkltieEyssiieeLraeksrL 184
                               L++++          + + +++k + keL ++ + L  ++   +  + ++++ + e  ++i++L++ +e +s   ++ + +k++L
  PHY93_16370|PHY93_16370 565 KLEQRV----------RIDFNQVKLREKELETKLEMLTIDV---DLQVQSRDQKILELRRKIDSLEFNMENVSIKEQKSQDDKRKL 637
                              777655..........5566666666666666555555554...556677******************999999999********* PP

                 KASH_CCD 185 eeqlqq 190
                              e++l++
  PHY93_16370|PHY93_16370 638 EDKLNK 643
                              **9986 PP

>> GAS  Growth-arrest specific micro-tubule binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.4  32.0    0.0035        21      26     200 .]     480     655 ..     476     663 .. 0.79

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.0035
                      GAS  26 elIkslKeeieelkkkeernekelseisqenkrlkepLkkaeeeveeLrk.qlknyekdkqslknlkarlkelekelkdlkwehev 110
                              ++I++l+ee eel ++ +  +    e++q+n  lk  L + + ev  Lrk q+ + e  k +l   ++r +++ ++ ++   ++e 
  PHY93_16370|PHY93_16370 480 ATIRQLREEREELLNQIKIFKGGNRELEQDNLTLKAALDESKIEVSILRKrQMVELEDIKYRLSLNEERKEQALEKARQAIGSKEK 565
                              68**********************************************9989********************************** PP

                      GAS 111 leqr....fekvekerdelykkfeaaiqevqqktglknllLekklkalqeelEkkeaqleevlaaanldpaalsavsekleevles 192
                              leqr    f++v+   +el+ k e+   +v  +++       +k+ +l+ ++++ e  +e v  + +  +++  +++ kl++++++
  PHY93_16370|PHY93_16370 566 LEQRvridFNQVKLREKELETKLEMLTIDVDLQVQ----SRDQKILELRRKIDSLEFNMENVSIKEQKSQDDKRKLEDKLNKIMKT 647
                              ***85555678888888888888888766653333....33455555555555555555555555555555666777777777777 PP

                      GAS 193 KnqeIkdL 200
                                ++Ik+L
  PHY93_16370|PHY93_16370 648 LRHSIKNL 655
                              77777766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (678 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2029  (0.113169); expected 358.6 (0.02)
Passed bias filter:                      553  (0.0308439); expected 358.6 (0.02)
Passed Vit filter:                        61  (0.00340231); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.77u 0.29s 00:00:01.06 Elapsed: 00:00:00.44
# Mc/sec: 4592.28
//
Query:       PHY93_16785|PHY93_16785  [L=1018]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00035   21.1   0.1     0.0019   18.8   0.0    2.3  2  FecR      FecR protein
     0.0017   18.6   5.5        1.7    8.9   0.0    5.2  5  SusE      SusE outer membrane protein
  ------ inclusion threshold ------
       0.16   12.1   0.0        2.8    8.1   0.0    2.4  2  YHS       YHS domain


Domain annotation for each model (and alignments):
>> FecR  FecR protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.0   3.1e-07    0.0019       1      94 [.      74     166 ..      74     168 .. 0.75
   2 ?   -0.2   0.0      0.27   1.6e+03      35      69 ..     153     184 ..     139     196 .. 0.66

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 3.1e-07
                     FecR   1 dvirTgagsraeilleDgsvvrlnensslekaadsskrrrevsllkGevlfdvakdkkrp.fevktpsatigvrgtefrvrksdkq 85 
                              d+i T  +s+a+i + +g  ++l ens l  + ++ ++++++sl+kG+++++ +kd+ +  + ++ ++++ +     ++++++  +
  PHY93_16785|PHY93_16785  74 DEIYTHGQSSAKIHFVNGPEISLFENSLL--RIKTLNKENTLSLDKGNLTATLSKDSPKLdIVLNGKKYSFESERANIQIEQGATE 157
                              57889999*********************..5555566667**************9975445555556666666666666666666 PP

                     FecR  86 tevavleGe 94 
                               +  +l+G+
  PHY93_16785|PHY93_16785 158 NKFLLLDGK 166
                              666666665 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.27
                     FecR  35 sskrrrevsllkGevlfdvakdkkrpfevktpsat 69 
                              +++ ++++ ll G++++++++ ++   e+k +++ 
  PHY93_16785|PHY93_16785 153 QGATENKFLLLDGKAKLNINEASQ---EIKENQVL 184
                              445556677888888888777766...45544444 PP

>> SusE  SusE outer membrane protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.6   0.1     0.013        75       9      58 ..     385     424 ..     378     455 .. 0.66
   2 ?    3.4   0.0     0.015        89      15      77 ..     476     533 ..     467     540 .. 0.70
   3 !    8.9   0.0   0.00029       1.7      14      85 ..     706     770 ..     692     775 .. 0.84
   4 ?   -2.4   0.0      0.92   5.5e+03      68      87 ..     846     865 ..     830     868 .. 0.82
   5 ?   -0.8   0.0       0.3   1.8e+03      22      66 ..     900     943 ..     894     960 .. 0.67

  Alignments for each domain:
  == domain 1  score: 3.6 bits;  conditional E-value: 0.013
                     SusE   9 ksedaseLtapasevvldednasnealtftWtaadygvpaavtYtvqfdk 58 
                               s++++eL      v+++++   + +  ++W+a+  gv++++    ++ k
  PHY93_16785|PHY93_16785 385 ISSNTPELIEK---VNYNLQ---SSSHLLSWNAPSSGVNYTI----KLTK 424
                              45555666655...346666...445569*****88876555....4444 PP

  == domain 2  score: 3.4 bits;  conditional E-value: 0.015
                     SusE  15 eLtapas.evvldednasnealtftWtaadygvpaavtYtvqfdkkgedFskpvdatgttetsl 77 
                              +Lt ++s   v++++++++  ++f+W+      +   +Y ++++++   F++   + + +++++
  PHY93_16785|PHY93_16785 476 NLTQSPSeGAVIELEKPDQL-VSFKWDHV----QNIKKYQFELASD-PAFKNLIYEKDLNSNNI 533
                              56666665888888855554.88****98....3456899999988.88888855555555544 PP

  == domain 3  score: 8.9 bits;  conditional E-value: 0.00029
                     SusE  14 seLtapas.evvldednasnealtftWtaadygvpaavtYtvqfdkkgedFskpvdatgttetslsitvkeLN 85 
                               eL +p+  e++lde+   ++ + ftWt+     p + +Y + ++ +  dF++p + + t++++++i +k+L+
  PHY93_16785|PHY93_16785 706 IELITPKHrENILDEA---EAEYLFTWTNL----PNTKSYQFIVARD-LDFEAPLIHSKTNTNEIKIRCKDLD 770
                              8999999988888888...77788****98....5677999999999.******99999***********996 PP

  == domain 4  score: -2.4 bits;  conditional E-value: 0.92
                     SusE  68 datgttetslsitvkeLNta 87 
                                +++  +s +++++ LN++
  PHY93_16785|PHY93_16785 846 YTNTSPHYSAKVSGNALNSV 865
                              56778899999999999986 PP

  == domain 5  score: -0.8 bits;  conditional E-value: 0.3
                     SusE  22 evvldednasnealtftWtaadygvpaavtYtvqfdkkgedFskp 66 
                              + +l+++ a+ ++ +f+W +  + v+ +++ +  ++ + e Fs+p
  PHY93_16785|PHY93_16785 900 DFELNLK-AARNQTNFSWGPVVAMVKKTLYVESNLAITAEGFSSP 943
                              5677787.8888889999887555555444444444444555555 PP

>> YHS  YHS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.0      0.07   4.2e+02      11      32 ..     125     146 ..     122     150 .. 0.78
   2 ?    8.1   0.0   0.00046       2.8       2      23 ..     985    1006 ..     984    1013 .. 0.90

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 0.07
                      YHS  11 dkekaeekseYkGkeYyFcSeg 32 
                              +k+  +  +  +Gk+Y F Se+
  PHY93_16785|PHY93_16785 125 SKDSPKLDIVLNGKKYSFESER 146
                              566666777789********96 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.00046
                      YHS    2 tdPvcgmkvdkekaeekseYkG 23  
                                 +v+g++v+k++++++ +++G
  PHY93_16785|PHY93_16785  985 GAFVDGTSVSKDASKHSFSRMG 1006
                               689****************999 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1018 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       669  (0.0373138); expected 358.6 (0.02)
Passed bias filter:                      424  (0.0236488); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.72u 0.20s 00:00:00.92 Elapsed: 00:00:00.38
# Mc/sec: 8110.07
//
Query:       PHY93_10640|PHY93_10640  [L=293]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      2e-06   28.1   0.2     0.0082   16.4   0.1    2.2  2  PBECR2    phage-Barnase-EndoU-ColicinE5/D-RelE like nuclease2
    5.2e-05   23.2   0.8       0.15   12.1   0.1    2.3  2  PBECR3    phage-Barnase-EndoU-ColicinE5/D-RelE like nuclease3
      0.004   17.1   0.6     0.0085   16.0   0.6    1.6  1  zf-FCS    MYM-type Zinc finger with FCS sequence motif
     0.0082   16.1   0.2      0.015   15.3   0.2    1.3  1  DUF507    Protein of unknown function (DUF507)


Domain annotation for each model (and alignments):
>> PBECR2  phage-Barnase-EndoU-ColicinE5/D-RelE like nuclease2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.8   0.0    0.0002      0.91      49     114 ..      78     144 ..      76     148 .. 0.72
   2 !   16.4   0.1   1.8e-06    0.0082      15      87 ..     175     248 ..     157     289 .. 0.66

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.0002
                   PBECR2  49 lLaetledPdeIw.ldeeeskklrrrylkrfkdrglfavfelged.ggwsgitafpkdenylekqrkG 114
                              l+ e+l++ de+w +++e ++    +y+k++++++++++ ++ ++   +++ ++ + +++ l + r+G
  PHY93_10640|PHY93_10640  78 LVDEVLSSFDEVWkVSNELDE-EIFTYIKHYDKFSGVVICKVYSGeASFVFLSTTTRSRQFLAEIRTG 144
                              667889999****66666654.349******8888888888886745555666656677878777777 PP

  == domain 2  score: 16.4 bits;  conditional E-value: 1.8e-06
                   PBECR2  15 alftdktgepvviseelfehlaege.krg.rerylplLaetledPdeIwldeeeskklrrrylkrfkd..rglfavf 87 
                              +l ++k   + v+ +el+ ++++++ + +    y + ++etle Pde++++ +++++  + y+k++ +  +++f ++
  PHY93_10640|PHY93_10640 175 QLLENK---KSVLLAELLVKRKDDDiPFEdFMLYESCFPETLETPDEVFESRDKEGDTFIVYIKSYIKerENFFYII 248
                              444444...3444455555665455655558899999************9999977445777777743453444443 PP

>> PBECR3  phage-Barnase-EndoU-ColicinE5/D-RelE like nuclease3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.5   0.1   0.00021      0.93      50      91 ..      69     115 ..      46     136 .. 0.69
   2 !   12.1   0.1   3.3e-05      0.15      36      98 ..     191     256 ..     189     259 .. 0.82

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00021
                   PBECR3  50 i.....dianipdiiknPDkviyggknkkeksieyvKkinngylvvv 91 
                              i     d + + ++++++D+v +++++  e+ + y+K++++   vv+
  PHY93_10640|PHY93_10640  69 InfnfsDKQLVDEVLSSFDEVWKVSNELDEEIFTYIKHYDKFSGVVI 115
                              24456688999******************99********66555554 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 3.3e-05
                   PBECR3  36 krHgnqstekdrgqidianipdiiknPDkviyggknkkeksieyvKki...nngylvvvev.dkkkn 98 
                              kr  ++   +d+  +  +  p+ ++ PD+v+ + +++ ++ i+y+K +    +++++++   ++k++
  PHY93_10640|PHY93_10640 191 KRKDDDIPFEDFMLY-ESCFPETLETPDEVFESRDKEGDTFIVYIKSYikeRENFFYIISClKRKDK 256
                              566666677778888.8899******************99*******99987888888887655544 PP

>> zf-FCS  MYM-type Zinc finger with FCS sequence motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.6   1.9e-06    0.0085       5      41 .]       9      43 ..       5      43 .. 0.87

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 1.9e-06
                   zf-FCS  5 rCwfCkkyikgkpeftyvlend.gvvgqFCStsCldsY 41
                              C+ Ck  ++   +    l+ + ++++ FCS+ C+ ++
  PHY93_10640|PHY93_10640  9 YCTECKAILPSLDK---LLFVEeKSTKGFCSEACIEDF 43
                             7*************...566666************987 PP

>> DUF507  Protein of unknown function (DUF507)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.2   3.3e-06     0.015     111     156 ..      64     109 ..      48     112 .. 0.90

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 3.3e-06
                   DUF507 111 lkedlievsvsenkirnkIfkilkeylkeeeeidkevrekiknykr 156
                              ++e++i+++ s++++  ++ ++++e  k+ +e+d+e+ + ik+y +
  PHY93_10640|PHY93_10640  64 IEEEKINFNFSDKQLVDEVLSSFDEVWKVSNELDEEIFTYIKHYDK 109
                              6899****************************************87 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (293 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       742  (0.0413855); expected 358.6 (0.02)
Passed bias filter:                      503  (0.0280551); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.44u 0.19s 00:00:00.63 Elapsed: 00:00:00.35
# Mc/sec: 2521.03
//
Query:       PHY93_10645|PHY93_10645  [L=290]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (290 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       337  (0.0187964); expected 358.6 (0.02)
Passed bias filter:                      276  (0.0153941); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.20s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 2229.91
//
Query:       PHY93_10650|PHY93_10650  [L=101]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (101 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       646  (0.036031); expected 358.6 (0.02)
Passed bias filter:                      415  (0.0231469); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.20s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 775.66
//
Query:       PHY93_10655|PHY93_10655  [L=100]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (100 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       440  (0.0245412); expected 358.6 (0.02)
Passed bias filter:                      375  (0.0209158); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.25s 00:00:00.63 Elapsed: 00:00:00.40
# Mc/sec: 747.96
//
Query:       PHY93_10660|PHY93_10660  [L=389]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    6.7e-05   23.0   0.3    6.7e-05   23.0   0.3    2.4  3  HSP20       Hsp20/alpha crystallin family
  ------ inclusion threshold ------
      0.026   14.9  14.4      0.026   14.9  14.4    3.6  3  OmpH        Outer membrane protein (OmpH-like)


Domain annotation for each model (and alignments):
>> HSP20  Hsp20/alpha crystallin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.2      0.58   5.2e+03      18      39 ..     186     210 ..     172     231 .. 0.51
   2 ?   -3.2   0.1       1.1   9.7e+03      22      28 ..     218     224 ..     198     251 .. 0.59
   3 !   23.0   0.3   7.5e-09   6.7e-05       2      85 ..     302     388 ..     301     389 .] 0.82

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 0.58
                              --CCCEEEEEETTE...EEEEEE-- CS
                    HSP20  18 lkkeelkvkvednr...vlvkgehe 39 
                              l+++  ++++++++   v+ k++++
  PHY93_10660|PHY93_10660 186 LRTHQTDINLQKTElkkVMDKSTEQ 210
                              5555455555544411234444443 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 1.1
                              CEEEEEE CS
                    HSP20  22 elkvkve 28 
                               lkv+++
  PHY93_10660|PHY93_10660 218 KLKVQTD 224
                              3333333 PP

  == domain 3  score: 23.0 bits;  conditional E-value: 7.5e-09
                              --SSEEEEEEEEE-TT--CCCEEEEEETTEEEEEEE--....---TT----.SS---EEEEEE--STTB-TTT-EEEEETTEEEEE CS
                    HSP20   2 ikeeeeefevkldvpglkkeelkvkvednrvlvkgehe..eeeedekglik.erssrkFsrkftLPenvdadkvkaslkdGvLtvt 84 
                              i e+e+e++v+l+vp+ +ke+++++v++++v ++ +++  +  ed++g  + + +++ Fs+ f   + ++++ v  ++++G+Lt +
  PHY93_10660|PHY93_10660 302 IAETEKEYQVSLAVPEHEKENVHLSVHGRSVKMTLTRKftDSVEDKNGSTNrSTRNELFSKDFPSKDILNPKLVVQKYENGLLTYK 387
                              7899**********************************9733333333333024556699999998889**************977 PP

                              E CS
                    HSP20  85 v 85 
                              +
  PHY93_10660|PHY93_10660 388 I 388
                              6 PP

>> OmpH  Outer membrane protein (OmpH-like)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   2.7     0.096   8.6e+02      18      51 ..      15      48 ..       6      65 .. 0.67
   2 ?   14.9  14.4   2.9e-06     0.026      19      99 ..      67     146 ..      55     151 .. 0.84
   3 ?    2.4  11.2     0.021   1.8e+02      19     105 ..     177     273 ..     158     285 .. 0.61

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.096
                             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     OmpH 18 kaaqeqlekkfkklqaeleakekelqklqeelqk 51
                             k+ +++l ++  k + e+e+ +k ++k++++ + 
  PHY93_10660|PHY93_10660 15 KKLDSKLRDQTVKKESEIENIKKIYEKKIDAAKI 48
                             6666677777777777777777777777776653 PP

  == domain 2  score: 14.9 bits;  conditional E-value: 2.9e-06
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTS.-HHHHHH..HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     OmpH  19 aaqeqlekkfkklqaeleakekelqklqeelqkkakklekeekeqe..lqkkeqelqqkqqqkaqelqkkqqellkpildkin 99 
                               a +++e+k +++++ l++ +k++++++++l  + ++  k e +++  l ++++++q  ++ +++ l +++q  ++ i+dk++
  PHY93_10660|PHY93_10660  67 GASKDYEDKLNNYKENLDKTQKSITQEENALRSDHSQ--KMESFKDqyLGNMREQFQS-ASDNQEALHQQNQNSMQTITDKAR 146
                              5778899999999999999999999999999855555..566666678**********.99999****************987 PP

  == domain 3  score: 2.4 bits;  conditional E-value: 0.021
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTS......-HHHHHH......HHHHHHHHHHHHHHHH....HHHHHHHHH CS
                     OmpH  19 aaqeqlekkfkklqaeleakekelqklqeelqkkakkle.....keekeqe......lqkkeqelqqkqqqka....qelqkkqqe 89 
                              + +++l+++ ++ q++++ +++el+k +++  +++k le           +      l++ ++++ +++q ++    ++l k+   
  PHY93_10660|PHY93_10660 177 EYRANLDNDLRTHQTDINLQKTELKKVMDKSTEQNKRLEteklkV-----QtdeltyLDNHQKDILAQKQSDFkiryENLVKEHDS 257
                              445566666677777777777777776666654444442343221.....145677888888888775555557776677777777 PP

                              HHHHHHHHHHHHHHHH CS
                     OmpH  90 llkpildkinkaikev 105
                              ll ++    ++ +k+ 
  PHY93_10660|PHY93_10660 258 LLTELKTHFEADVKKM 273
                              6666555555555544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (389 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      3155  (0.175972); expected 358.6 (0.02)
Passed bias filter:                      382  (0.0213063); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.70u 0.27s 00:00:00.97 Elapsed: 00:00:00.42
# Mc/sec: 2773.44
//
Query:       PHY93_10665|PHY93_10665  [L=251]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.2e-33  115.2   9.5    2.9e-33  114.8   9.5    1.1  1  MgtC           MgtC family
  ------ inclusion threshold ------
       0.02   14.0   0.9      0.026   13.6   0.9    1.1  1  Acyl_transf_3  Acyltransferase family
       0.13   12.4   0.2       0.13   12.4   0.2    2.9  3  ATPase_gene1   Putative F0F1-ATPase subunit Ca2+/Mg2+ transpo


Domain annotation for each model (and alignments):
>> MgtC  MgtC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  114.8   9.5   4.9e-37   2.9e-33       2     118 ..      27     150 ..      26     152 .. 0.94

  Alignments for each domain:
  == domain 1  score: 114.8 bits;  conditional E-value: 4.9e-37
                     MgtC   2 llAlllGlliGleRelrekaaGlRTfaLvalgaalfvllslelae.........srvaaqvvsgigflgagvilkekegakvkglT 78 
                              +  l+lG l+G++Re + k aG++T++L++lga+l + +s+  ++         sr+ aq+vsgigflgag+i+  +++ ++ glT
  PHY93_10665|PHY93_10665  27 VTGLILGSLVGYDREQKMKNAGIKTNVLICLGATLYTAISMLGHSqgggisydaSRIPAQIVSGIGFLGAGAIM--QDRGNIIGLT 110
                              66799**********************************99888899***************************..55559***** PP

                     MgtC  79 TaaslwvtaaiGllvglglyllavvatvlvllllallrel 118
                              Taa++wv+aaiG+ +g+g+ ++a++ t+++l +l ll ++
  PHY93_10665|PHY93_10665 111 TAATIWVVAAIGMTIGYGFPVIATIFTLTILSVLRLLGPI 150
                              **********************************999876 PP

>> Acyl_transf_3  Acyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.9   4.3e-06     0.026     153     243 ..      43     130 ..      29     166 .. 0.73

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 4.3e-06
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Acyl_transf_3 153 llrkvrkshlllllilllllslvfirhelfgpatsvgllplpsvla..llfflfGalladaddrdrnlsrglkislllsllllali 236
                              ++++ + + ++l++++++l+++++++ + +g   s++++ +p+ +   + f+++Ga++ d    ++    +++++     ++++++
  PHY93_10665|PHY93_10665  43 KMKNAGIKTNVLICLGATLYTAISMLGHSQGGGISYDASRIPAQIVsgIGFLGAGAIMQDRGNIIGLTTAATIWV-----VAAIGM 123
                              5778888999*********************************65555555566666655555555554444444.....444444 PP

                              xxxxxxx RF
            Acyl_transf_3 237 llalfgq 243
                               +++++ 
  PHY93_10665|PHY93_10665 124 TIGYGFP 130
                              4444433 PP

>> ATPase_gene1  Putative F0F1-ATPase subunit Ca2+/Mg2+ transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.2   2.2e-05      0.13       4      44 ..      19      59 ..      18      61 .. 0.93
   2 ?   -1.1   0.1      0.37   2.2e+03       4      18 ..      80      94 ..      79     101 .. 0.70
   3 ?   -0.2   3.3       0.2   1.2e+03       7      37 ..     107     138 ..     105     143 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 2.2e-05
             ATPase_gene1  4 asqiGielvapillggllGywLDkkfgtspwfliiglllGl 44
                             ++++Gi +v++ +lg l+Gy  ++k++++ + + +++ lG 
  PHY93_10665|PHY93_10665 19 YLGMGIKIVTGLILGSLVGYDREQKMKNAGIKTNVLICLGA 59
                             789***********************999999999999996 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.37
             ATPase_gene1  4 asqiGielvapillg 18
                             as+i  ++v +i+  
  PHY93_10665|PHY93_10665 80 ASRIPAQIVSGIGFL 94
                             677888888887653 PP

  == domain 3  score: -0.2 bits;  conditional E-value: 0.2
             ATPase_gene1   7 iGielvapillggllGywLDkkfgt.spwfli 37 
                              iG++ +a+i + +++G+ +   f+  + +f++
  PHY93_10665|PHY93_10665 107 IGLTTAATIWVVAAIGMTIGYGFPViATIFTL 138
                              78899999999999999988866555555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (251 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1005  (0.0560544); expected 358.6 (0.02)
Passed bias filter:                      538  (0.0300073); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.38
# Mc/sec: 1966.99
//
Query:       PHY93_10670|PHY93_10670  [L=386]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    0.00011   22.5   0.0    0.00033   21.0   0.0    1.8  1  DUF2183      Uncharacterized conserved protein (DUF2183)
  ------ inclusion threshold ------
       0.13   12.8   0.1        3.1    8.2   0.0    2.3  2  Metallophos  Calcineurin-like phosphoesterase
       0.34   10.5   3.8       0.22   11.1   1.3    2.0  2  NS3          Non-structural protein NS3


Domain annotation for each model (and alignments):
>> DUF2183  Uncharacterized conserved protein (DUF2183)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.0   0.0   5.5e-08   0.00033       4      92 ..     183     278 ..     181     285 .. 0.77

  Alignments for each domain:
  == domain 1  score: 21.0 bits;  conditional E-value: 5.5e-08
                  DUF2183   4 vSaspwnlyplleeFleenglPkgslllrdlsltlksllk.....ek..staehKraeiekil..etfperkfiliGDsgqkdpei 80 
                              +Sasp    ++++++l +n++ +  ++l+d++ +  s+l+     +    +  +K++++ +il  + +p+ +++l+GD+ ++dp i
  PHY93_10670|PHY93_10670 183 LSASPHFYEDTMRDWLYKNNIFSAGIFLKDYR-HFFSFLEgelttKDlkFQGLYKLNHLLDILlmTGIPD-ELVLMGDNFESDPAI 266
                              8********************99********9.5556666655541133456677777777541144555.9************** PP

                  DUF2183  81 Yaeiakefpeqi 92 
                              Y ++ak   e i
  PHY93_10670|PHY93_10670 267 YLTLAKILREDI 278
                              **9999776666 PP

>> Metallophos  Calcineurin-like phosphoesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.2   0.0   0.00052       3.1     164     193 ..     174     203 ..      75     207 .. 0.85
   2 ?    2.5   0.1      0.03   1.8e+02      15      48 ..     231     269 ..     215     306 .. 0.77

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.00052
                              EEEESSESSCSSSCSCCHHHHHHHHHHTTE CS
              Metallophos 164 ivlgHsplyrgsgylfgdealedllkkygv 193
                              i +gH+p   +++++f ++ ++d+l+k+++
  PHY93_10670|PHY93_10670 174 IRMGHHPFILSASPHFYEDTMRDWLYKNNI 203
                              789************************994 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.03
                              CTHHHHHHHHHHHHHHHTTESEEEEESTSSSSS.....H CS
              Metallophos  15 ggqlddllkllddllreekpdlvllaGDlvdrg.....d 48 
                              + +l++l+ lld ll    pd ++l GD+++        
  PHY93_10670|PHY93_10670 231 FQGLYKLNHLLDILLMTGIPDELVLMGDNFESDpaiylT 269
                              56789999999999999999********99887533331 PP

>> NS3  Non-structural protein NS3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.1      0.39   2.3e+03     172     208 ..     203     238 ..     190     245 .. 0.65
   2 ?   11.1   1.3   3.7e-05      0.22      38     111 ..     284     356 ..     267     386 .] 0.77

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 0.39
                      NS3 172 dfsdnvtlldaediiyrlldndswcydckttplftls 208
                               fs  ++l+d+  ++ + l+++   +d k+  l++l 
  PHY93_10670|PHY93_10670 203 IFSAGIFLKDYRHFFSF-LEGELTTKDLKFQGLYKLN 238
                              37778888888876654.5667777777777777665 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 3.7e-05
                      NS3  38 ivcikdeevdiklevkedqlirkiykwdsvldswdwskqyklpkplyellelylk.llklderttipdwleesml 111
                                 ik++++ + ++ ++ q++ kiy+ d++l       +y+ p     ++++y++  +k de  + p++ e+   
  PHY93_10670|PHY93_10670 284 WNSIKEQDIFQLKKKQNSQFLNKIYQLDNLLTRKRKEGGYQNP-AKKIMIKIYIRkRFKADE-LVAPEFFEKQKT 356
                              4579*****999999999*************************.777899***961567777.889999887543 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (386 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       586  (0.0326845); expected 358.6 (0.02)
Passed bias filter:                      360  (0.0200792); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.38
# Mc/sec: 3045.80
//
Query:       PHY93_10675|PHY93_10675  [L=76]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.042   13.4   0.2      0.047   13.3   0.2    1.0  1  PMT_4TMC  C-terminal four TMM region of protein-O-mannosyltra


Domain annotation for each model (and alignments):
>> PMT_4TMC  C-terminal four TMM region of protein-O-mannosyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.2   2.6e-06     0.047      60     114 ..      14      75 ..       8      76 .] 0.86

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 2.6e-06
                 PMT_4TMC  60 wwlstiallvfvllllalllrrqrgvkdl.......eeeetrllnsglflllgwalhylPff 114
                               wl++++l++ v+ + +++++   +v  l        +  t+++ +gl+l+lg+++  +Pf 
  PHY93_10675|PHY93_10675  14 QWLNIAMLIAAVFRVYLEIIKFDFSVLPLtkgifkdASAATKFHKNGLYLCLGYIVLSAPFT 75 
                              599999999999999999999999998889999876666677**************999997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (76 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       389  (0.0216967); expected 358.6 (0.02)
Passed bias filter:                      271  (0.0151152); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.36u 0.21s 00:00:00.56 Elapsed: 00:00:00.37
# Mc/sec: 622.11
//
Query:       PHY93_10680|PHY93_10680  [L=537]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (537 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       820  (0.045736); expected 358.6 (0.02)
Passed bias filter:                      560  (0.0312343); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.61u 0.26s 00:00:00.87 Elapsed: 00:00:00.43
# Mc/sec: 3786.96
//
Query:       PHY93_10685|PHY93_10685  [L=147]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0036   17.8   6.5     0.0049   17.4   6.5    1.2  1  PRESAN    Plasmodium RESA N-terminal


Domain annotation for each model (and alignments):
>> PRESAN  Plasmodium RESA N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   6.5   2.7e-07    0.0049      30     122 ..      40     134 ..      38     136 .. 0.80

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 2.7e-07
                              HHHHHHHHHHHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHHHHHHHHHHH..HHHHHHHS-SEEEHHHHHHHHHHHHHH CS
                   PRESAN  30 vmknekkkyknmikkLsnyleelakkynipeeykkklwkeckneitkelkklekeyn..knfynllkkkklsidefkefinsyrkl 113
                              +++ e++ yk+m k Ls+++ el+k ++ ++++  ++++ c +  ++++kk+e++++  k +   +   +++ + f++  +++++ 
  PHY93_10685|PHY93_10685  40 FIGEEERPYKDMRKSLSEKFVELCKTDKSSNDIISEMYNRCFRLTKEKIKKKESKFHfeKACDIAFIAATYYAEGFEQAKKDNAEI 125
                              56779999*********************************************998753444444466666666677766666666 PP

                              HHHHHHHHH CS
                   PRESAN 114 wkkllkkle 122
                               ++  +++e
  PHY93_10685|PHY93_10685 126 TDNSENEIE 134
                              666666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (147 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1001  (0.0558313); expected 358.6 (0.02)
Passed bias filter:                      504  (0.0281109); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 1108.52
//
Query:       PHY93_16790|PHY93_16790  [L=394]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (394 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       421  (0.0234815); expected 358.6 (0.02)
Passed bias filter:                      238  (0.0132746); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.57u 0.23s 00:00:00.80 Elapsed: 00:00:00.45
# Mc/sec: 2631.78
//
Query:       PHY93_10690|PHY93_10690  [L=201]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.5e-47  160.6   0.1      4e-47  160.4   0.1    1.0  1  DUF4360   Domain of unknown function (DUF4360)


Domain annotation for each model (and alignments):
>> DUF4360  Domain of unknown function (DUF4360)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  160.4   0.1   2.2e-51     4e-47       3     178 .]      28     201 .]      26     201 .] 0.97

  Alignments for each domain:
  == domain 1  score: 160.4 bits;  conditional E-value: 2.2e-51
                  DUF4360   3 iriksvsvsGsGCPqgtasvqvspdrtaftvtfdeftaqigpgasatdrrknCqlnlnlqvpaGfqfavvsadyrGyasldagvta 88 
                              i++   +++G+GCP+gtasv++s d+++++++fd+f++++g  a++t +rk+C++ + +++p+Gf+++vv++dyrGy+sl+a+++a
  PHY93_10690|PHY93_10690  28 IQLGTPAYGGNGCPAGTASVTLSHDAKSLSLIFDQFIVEAGG-ANRTLERKTCNVAIPVHIPQGFSVSVVNVDYRGYVSLPAQASA 112
                              6777889*******************************8887.7****************************************** PP

                  DUF4360  89 tfqatyyfsgdaeqa.stqttlsGplsgdytltdevdvasavwspCgesailnintelrltsssskatglitldstdgavtqqyhl 173
                              +++a+y+ +g+   + ++++ + G +++dy++++++d++++vws+Cg+++il++n  + ++++  + ++  t+ds+d +    y+l
  PHY93_10690|PHY93_10690 113 RMTAEYFLAGSV--GpKFDKMFLGRTDTDYQFSNTLDINAQVWSACGADTILRVNAAMLVRTNRFNDQATATVDSADFKTGILYQL 196
                              ************..66********************************************9999999******************* PP

                  DUF4360 174 awrkC 178
                              +w++C
  PHY93_10690|PHY93_10690 197 QWKRC 201
                              ***** PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (201 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       368  (0.0205254); expected 358.6 (0.02)
Passed bias filter:                      322  (0.0179597); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1545.04
//
Query:       PHY93_10695|PHY93_10695  [L=248]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.5e-15   57.5   0.1      2e-15   57.1   0.1    1.3  1  DUF4360   Domain of unknown function (DUF4360)


Domain annotation for each model (and alignments):
>> DUF4360  Domain of unknown function (DUF4360)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.1   0.1   1.1e-19     2e-15       2     166 ..      23     211 ..      22     238 .. 0.74

  Alignments for each domain:
  == domain 1  score: 57.1 bits;  conditional E-value: 1.1e-19
                  DUF4360   2 kiriksvsvsGsGCPqgtasvqvspdrtaftvtfdeftaqi.....gpgasatdrrknCqlnlnlqvpaGfqfavvsa..dyrGya 80 
                              +++ +++ v+G+GCP++ ++++++pd ++ +++f++f+ ++     +p+a++  +  nC++ l+++ p G ++   ++  d+rG+a
  PHY93_10695|PHY93_10695  23 NFQFQNIRVGGTGCPSDVTQIVMAPDFSTASILFQSFESHVpavvdNPKATPYISILNCNVFLDIKLPLGQKLDALEIsyDMRGHA 108
                              67889********************************9864333338999999999*****************9987622669*** PP

                  DUF4360  81 sldagvtatfqatyyfsgda............eqastqttlsGplsgdytltdevdvasavwspC...gesailnintelrl.... 147
                               ld+gv+++f++    s+              e+++t+t++  +     ++  +++ + a+ s+C   g+  ++ i  + +l    
  PHY93_10695|PHY93_10695 109 FLDRGVNGNFKSFLISSNGLgtersqgvqllqEKNWTNTSVDQE----EDFLVQTTKSLAIQSQCngaGSGDRVSIHLQHQLgsqi 190
                              ************99998555333333322221112444444444....33333444455566666544444567777777775455 PP

                  DUF4360 148 ..tsssskatglitldstdga 166
                                  + ++a+g it+ds d +
  PHY93_10695|PHY93_10695 191 mgGFERTNASGTITMDSSDLK 211
                              5433899999*******9976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (248 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       329  (0.0183502); expected 358.6 (0.02)
Passed bias filter:                      290  (0.0161749); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.24s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1877.88
//
Query:       PHY93_10700|PHY93_10700  [L=251]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.02   15.2   0.0      0.036   14.4   0.0    1.4  1  HTH_31    Helix-turn-helix domain
       0.04   13.7   0.2      0.079   12.8   0.2    1.5  1  HTH_IclR  IclR helix-turn-helix domain
      0.049   13.8   0.3        9.4    6.5   0.0    3.0  3  HMD       H2-forming N5,N10-methylene-tetrahydromethanopterin


Domain annotation for each model (and alignments):
>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0     6e-06     0.036      13      37 ..       5      33 ..       2      51 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 6e-06
                   HTH_31 13 aGLsqeevAerlgvsestlsrlEq....G 37
                             +GL++ ++A r+gv ++t++rl+q    G
  PHY93_10700|PHY93_10700  5 SGLTLNALAVRCGVPATTMRRLMQkcpaG 33
                             7*********************9955543 PP

>> HTH_IclR  IclR helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.2   1.3e-05     0.079      16      40 ..       4      28 ..       1      29 [. 0.89

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 1.3e-05
                             BSS-BHHHHHHHHTS-HHHHHHHHH CS
                 HTH_IclR 16 pqeltlselArrtglpkStvhRlLq 40
                               +ltl  lA r+g+p +t +Rl+q
  PHY93_10700|PHY93_10700  4 HSGLTLNALAVRCGVPATTMRRLMQ 28
                             4569*******************98 PP

>> HMD  H2-forming N5,N10-methylene-tetrahydromethanopterin dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.5   0.0     0.029   1.7e+02      47      86 ..      44      86 ..      27      99 .. 0.78
   2 ?    6.5   0.0    0.0016       9.4      40      86 ..     110     156 ..     106     163 .. 0.82
   3 ?    1.1   0.0     0.076   4.5e+02      53      85 ..     194     225 ..     187     237 .. 0.74

  Alignments for each domain:
  == domain 1  score: 2.5 bits;  conditional E-value: 0.029
                             HHHHHHHHHHHHHHHHHHHCC-...HHHHHHCHHCC-SCCCTC CS
                      HMD 47 sLqtiaslveksGieglekaln...pelllksaksmnlgeeqe 86
                              L+ ++ l +++ i  l+k+++    ell ++ +  +++ee+ 
  PHY93_10700|PHY93_10700 44 VLSLVSYLFKEKKISSLLKKIDgpvAELLNRCFDQFIFDEESS 86
                             578899999************9554588999999999988763 PP

  == domain 2  score: 6.5 bits;  conditional E-value: 0.0016
                              HHHHHHHHHHHHHHHHHHHHHHHHHHCC-HHHHHHCHHCC-SCCCTC CS
                      HMD  40 vekqilesLqtiaslveksGieglekalnpelllksaksmnlgeeqe 86 
                              + +q  +s   i+++    G+++l ++++++l+++  +++n+ +  e
  PHY93_10700|PHY93_10700 110 AANQCGTSTLEIKNIFGLLGLQKLSELIDKNLIVADKDNINILHARE 156
                              5566666667789999999*******************999876554 PP

  == domain 3  score: 1.1 bits;  conditional E-value: 0.076
                              HHHHHHHHHHHHHCC-HHHHHHCHHCC-SCCCT CS
                      HMD  53 slveksGieglekalnpelllksaksmnlgeeq 85 
                              + ++++Gi+++ k +++++++k  + m  ++ q
  PHY93_10700|PHY93_10700 194 EGMNEKGIKKI-KEIEKDAVKKIYDLMSDKNYQ 225
                              55899999986.568888888888887766555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (251 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       789  (0.0440069); expected 358.6 (0.02)
Passed bias filter:                      587  (0.0327403); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.24s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 1846.64
//
Query:       PHY93_10705|PHY93_10705  [L=103]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (103 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       388  (0.0216409); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.36u 0.23s 00:00:00.59 Elapsed: 00:00:00.38
# Mc/sec: 808.22
//
Query:       PHY93_10710|PHY93_10710  [L=148]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    0.00029   21.0   7.7     0.0004   20.6   7.7    1.1  1  Fib_alpha   Fibrinogen alpha/beta chain family
     0.0056   17.1   7.5      0.028   14.9   2.0    2.3  2  NPV_P10     Nucleopolyhedrovirus P10 protein
  ------ inclusion threshold ------
      0.017   15.1   5.6       0.76    9.8   1.2    2.1  2  DUF1664     Protein of unknown function (DUF1664)
      0.022   15.1   7.3      0.024   15.0   6.1    1.6  2  Nnf1        Nnf1
      0.036   14.1   3.6       0.95    9.6   0.1    2.8  3  Vps51       Vps51/Vps67
       0.06   11.7   3.7      0.066   11.5   3.7    1.0  1  Birna_RdRp  Birnavirus RNA dependent RNA polymerase (VP1)
      0.077   13.3   4.3        2.2    8.6   0.5    2.4  2  KxDL        Uncharacterized conserved protein
       0.12   12.0  13.3      0.031   13.9   5.7    2.0  2  DUF4795     Domain of unknown function (DUF4795)
       0.13   10.2   4.3       0.14   10.0   4.3    1.1  1  V_ATPase_I  V-type ATPase 116kDa subunit family
        0.3   11.4   6.9        2.8    8.3   1.7    2.2  2  Rx_N        Rx N-terminal domain
       0.35    9.7  13.5       0.75    8.6  13.5    1.5  1  DUF812      Protein of unknown function (DUF812)
       0.41   11.3   5.0          7    7.4   0.3    2.3  2  SlyX        SlyX
       0.46   10.4  13.0        1.1    9.2   1.4    2.6  3  Prefoldin   Prefoldin subunit
        2.9    8.3   9.1        7.2    7.1   0.6    2.5  2  FlaC_arch   Flagella accessory protein C (FlaC)


Domain annotation for each model (and alignments):
>> Fib_alpha  Fibrinogen alpha/beta chain family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.6   7.7   3.1e-07    0.0004      25     126 ..      43     145 ..      41     148 .] 0.88

  Alignments for each domain:
  == domain 1  score: 20.6 bits;  conditional E-value: 3.1e-07
                              CCCCCCCCCCHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH.HHHHHHCCCHHHHHHHCCH.HHHHHHH CS
                Fib_alpha  25 lllkyekdvkkdlekleneleeisnstkeaeelvkeikdslrekqkskkdndnvikks.skeleeeilrlketidaqe.snirvLq 108
                              +++ky  d+  +l+++en+l++++++ k+ ee+vk ik+  ++k + k ++++++  + s++l  e ++lk+ i +   + i++++
  PHY93_10710|PHY93_10710  43 VIDKYLVDLAASLKNMENKLDDNAKKLKSLEEIVKVIKEAEEKKAEVKLGEKKTTPALaSRDLS-ETEKLKADILTLKnQDIEKMK 127
                              689999*************************************999999987777665166787.9********998889999999 PP

                              HHHHHHHHHHHHHHHHHH CS
                Fib_alpha 109 nvlesneqkiqkLeqdid 126
                                +++++  ++ L+  i 
  PHY93_10710|PHY93_10710 128 VDFQELKDTVNALQATIR 145
                              999999999999988775 PP

>> NPV_P10  Nucleopolyhedrovirus P10 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   2.0   2.2e-05     0.028      17      63 ..      38      81 ..      28      88 .. 0.91
   2 ?    5.2   0.3     0.023        29       5      33 ..     115     143 ..     107     147 .. 0.54

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 2.2e-05
                  NPV_P10 17 ddkVdalqqqvddvqenlpdvtelnekLdaqsaqLaeletkvenIqd 63
                             +++++++++ + d+++ l++   +++kLd+ +++L++le+ v+ I++
  PHY93_10710|PHY93_10710 38 QERIEVIDKYLVDLAASLKN---MENKLDDNAKKLKSLEEIVKVIKE 81
                             578999**************...77******************9986 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.023
                  NPV_P10   5 iLlvIradikavddkVdalqqqvddvqen 33 
                              iL++  +di++++   + l++ v+ +q+ 
  PHY93_10710|PHY93_10710 115 ILTLKNQDIEKMKVDFQELKDTVNALQAT 143
                              44444455555444444444444444443 PP

>> DUF1664  Protein of unknown function (DUF1664)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   1.2    0.0006      0.76      56     109 ..      29      82 ..      15      95 .. 0.84
   2 ?    7.7   0.2    0.0027       3.5      83     118 ..     109     145 ..     101     147 .. 0.74

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.0006
                  DUF1664  56 slaatkrhLssridrvdkkldeqkeiskeikeevtevredlseigedvesvkea 109
                              s+ ++  + ++ri+ +dk l + ++  k++++++++  ++l++++e v+ +kea
  PHY93_10710|PHY93_10710  29 SIDNAGLNKQERIEVIDKYLVDLAASLKNMENKLDDNAKKLKSLEEIVKVIKEA 82 
                              5555555668999999****999999*********9999999999999999987 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.0027
                  DUF1664  83 keikeevtevr.edlseigedvesvkeavegleskle 118
                              +++k+++ +++ +d+++++ d++++k++v+ l+++++
  PHY93_10710|PHY93_10710 109 EKLKADILTLKnQDIEKMKVDFQELKDTVNALQATIR 145
                              4555666555426899999999999999999988875 PP

>> Nnf1  Nnf1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.1      0.31     4e+02      87     107 ..      51      71 ..      15      77 .. 0.66
   2 ?   15.0   6.1   1.9e-05     0.024      33     107 ..      67     146 ..      59     148 .] 0.80

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.31
                              HHHHHHHHHHHHHHHHHHHHH CS
                     Nnf1  87 Learlqeleaenaelaeevee 107
                              L a l+++e++ ++ a+++++
  PHY93_10710|PHY93_10710  51 LAASLKNMENKLDDNAKKLKS 71 
                              444444444444444444433 PP

  == domain 2  score: 15.0 bits;  conditional E-value: 1.9e-05
                              HHHHHHH...HHHHHHHCCHH-T............TTSSTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     Nnf1  33 ekLneLD...dlieeAkerreegeeeasrpe..vpphtLpPeeliaahlapakkeeqeeLearlqeleaenaelaeevee 107
                              +kL +L+   ++i+eA+e++ e +  +++++   +  +L+ +e ++a + ++k++  e+++   qel+   ++l+ ++++
  PHY93_10710|PHY93_10710  67 KKLKSLEeivKVIKEAEEKKAEVKLGEKKTTpaLASRDLSETEKLKADILTLKNQDIEKMKVDFQELKDTVNALQATIRS 146
                              57777774446677999988883333222225578899***************************************987 PP

>> Vps51  Vps51/Vps67
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.2     0.026        33      53      84 ..      48      79 ..      31      84 .. 0.81
   2 ?   -0.4   0.0      0.99   1.3e+03      16      34 ..     100     118 ..      93     121 .. 0.71
   3 ?    9.6   0.1   0.00074      0.95      57      82 ..     120     145 ..     116     148 .] 0.91

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.026
                    Vps51 53 LisasdtIrkmksemdkldqklselkqaiski 84
                             L++ +  +++m++++d+ ++kl++l + ++ i
  PHY93_10710|PHY93_10710 48 LVDLAASLKNMENKLDDNAKKLKSLEEIVKVI 79
                             67778889999999999999999998877665 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 0.99
                    Vps51  16 lakstlkellkveasllse 34 
                              la+++l+e+ k++a++l  
  PHY93_10710|PHY93_10710 100 LASRDLSETEKLKADILTL 118
                              7778888888888877655 PP

  == domain 3  score: 9.6 bits;  conditional E-value: 0.00074
                    Vps51  57 sdtIrkmksemdkldqklselkqais 82 
                              +++I+kmk ++++l+++++ l+++i+
  PHY93_10710|PHY93_10710 120 NQDIEKMKVDFQELKDTVNALQATIR 145
                              578*******************9987 PP

>> Birna_RdRp  Birnavirus RNA dependent RNA polymerase (VP1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   3.7   5.1e-05     0.066     676     775 ..      33     137 ..      12     146 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 5.1e-05
                              TT--SSS--..-HHHHHHHH--SS---GGGS-B-SSS--HHHHHHHHHTTTTSS-SSHHHHHHH..HHTTB-GGGHH...HHHHHH CS
               Birna_RdRp 676 egltideklevtseslaelnlpveskdpnvnkqvlrskglkevssalksGayrneksvaglvll..araksrvskakkvldeaekl 759
                               gl+ +e++ev ++ l++l   +++++ + + + ++ k+l+e+++ +k+   ++ +   g + +  a a   +s+ +k  +++  l
  PHY93_10710|PHY93_10710  33 AGLNKQERIEVIDKYLVDLAASLKNMENKLDDNAKKLKSLEEIVKVIKEAEEKKAEVKLGEKKTtpALASRDLSETEKLKADILTL 118
                              5789999*****************************************99887766655554431245556699999999999999 PP

                              HHHH...HT-THHHHHHHH CS
               Birna_RdRp 760 kpks...esadwaerseel 775
                              k ++    ++d+ e  +++
  PHY93_10710|PHY93_10710 119 KNQDiekMKVDFQELKDTV 137
                              8766111446666666664 PP

>> KxDL  Uncharacterized conserved protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   0.5    0.0017       2.2      40      78 ..      38      76 ..      28      84 .. 0.89
   2 ?    6.2   0.3    0.0096        12      52      79 ..     117     145 ..      95     147 .. 0.79

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.0017
                     KxDL 40 qerlaklrarfkqgtkllkevkkdLesifkkirslkakl 78
                             qer + + + + + +  lk++ + L+   kk++sl++ +
  PHY93_10710|PHY93_10710 38 QERIEVIDKYLVDLAASLKNMENKLDDNAKKLKSLEEIV 76
                             8899999999999999*******************9765 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.0096
                     KxDL  52 qgt.kllkevkkdLesifkkirslkakla 79 
                                + +++ ++k d + ++ ++++l+a+++
  PHY93_10710|PHY93_10710 117 TLKnQDIEKMKVDFQELKDTVNALQATIR 145
                              44448999999999999999999999886 PP

>> DUF4795  Domain of unknown function (DUF4795)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   5.7   2.4e-05     0.031      13      70 ..      31      95 ..      13     103 .. 0.83
   2 ?    3.0   0.8     0.051        66      10      41 ..     109     141 ..     100     147 .. 0.44

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 2.4e-05
                  DUF4795 13 q.......eaieklqeelekleekvkelekrledkekklealkkqieelekvkadkeeveeelae 70
                                     e ie ++++l +l  + k++e++l d  kkl++l++ +++ +++ ++k ev++ ++ 
  PHY93_10710|PHY93_10710 31 DnaglnkqERIEVIDKYLVDLAASLKNMENKLDDNAKKLKSLEEIVKVIKEAEEKKAEVKLGEKK 95
                             0555555599*************************************************987765 PP

  == domain 2  score: 3.0 bits;  conditional E-value: 0.051
                  DUF4795  10 kklqeaieklqee.lekleekvkelekrledke 41 
                              +kl+++i+ l+++ +ek++   +el+++ ++++
  PHY93_10710|PHY93_10710 109 EKLKADILTLKNQdIEKMKVDFQELKDTVNALQ 141
                              444444444432213333333333333333333 PP

>> V_ATPase_I  V-type ATPase 116kDa subunit family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   4.3   0.00011      0.14      11     103 ..      48     141 ..      22     146 .. 0.83

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.00011
               V_ATPase_I  11 frDlnedvnafqrkfvkevrrcdemerklrfleeeieklekavikeeeaeesleapeekeldeleeelekle.eelkelnenlekl 95 
                              + Dl +++++++ k  ++ +++  +e+ +++++e  ek+++++  e++++  l++++ +e+++l++++ +l+ +++++++   ++l
  PHY93_10710|PHY93_10710  48 LVDLAASLKNMENKLDDNAKKLKSLEEIVKVIKEAEEKKAEVKLGEKKTTPALASRDLSETEKLKADILTLKnQDIEKMKVDFQEL 133
                              57899999999999999999999999999999999999999999999988888888888888888887665514688888888888 PP

               V_ATPase_I  96 kkelnelv 103
                              k+++n l+
  PHY93_10710|PHY93_10710 134 KDTVNALQ 141
                              88877765 PP

>> Rx_N  Rx N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   1.7    0.0022       2.8       9      49 ..      48      87 ..      41      96 .. 0.81
   2 ?    6.0   0.3     0.011        14      11      41 ..     114     144 ..     105     146 .. 0.85

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0022
                     Rx_N  9 LadllaeeakllkgvkeeleklkdeLesiqavLedaeerqi 49
                             L dl+a+  ++  ++++  +klk+ Le i  v+++aee++ 
  PHY93_10710|PHY93_10710 48 LVDLAASLKNMENKLDDNAKKLKS-LEEIVKVIKEAEEKKA 87
                             778888888899999999999985.999999******9976 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.011
                     Rx_N  11 dllaeeakllkgvkeeleklkdeLesiqavL 41 
                              d+l+ + + ++++k ++++lkd+ +++qa +
  PHY93_10710|PHY93_10710 114 DILTLKNQDIEKMKVDFQELKDTVNALQATI 144
                              66777779999*****************987 PP

>> DUF812  Protein of unknown function (DUF812)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6  13.5   0.00059      0.75     318     421 ..      27     132 ..      11     145 .. 0.79

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.00059
                   DUF812 318 aeteeelkkkreeeleelqeqieeleskieeleeeikklessikqveeeleeekeeneelekevklkkktlell.pdaeeniekLq 402
                               ++ +++  +++e +e + + + +l ++++++e++++++++++k +ee ++  ke  e++++ +  +kkt   l   + +  ekL+
  PHY93_10710|PHY93_10710  27 YQSIDNAGLNKQERIEVIDKYLVDLAASLKNMENKLDDNAKKLKSLEEIVKVIKEAEEKKAEVKLGEKKTTPALaSRDLSETEKLK 112
                              567778888999*************************************999998877777766666666665526677999**** PP

                   DUF812 403 alveasa.qrlvelakqWek 421
                              a++ + + q++ +++  + +
  PHY93_10710|PHY93_10710 113 ADILTLKnQDIEKMKVDFQE 132
                              99877541566666666655 PP

>> SlyX  SlyX
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.1   0.6     0.014        18      17      55 ..      39      77 ..      35      94 .. 0.64
   2 ?    7.4   0.3    0.0054         7      24      54 ..     114     144 ..     108     148 .] 0.87

  Alignments for each domain:
  == domain 1  score: 6.1 bits;  conditional E-value: 0.014
                             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-XXXXXXXX CS
                     SlyX 17 dtieeLndvvaeqqqqidrlqrqlrllaerlkeleessg 55
                             + ie  ++ +++ +  ++ ++ +l+  a++lk+lee  +
  PHY93_10710|PHY93_10710 39 ERIEVIDKYLVDLAASLKNMENKLDDNAKKLKSLEEIVK 77
                             456666666677777777777777777777777766544 PP

  == domain 2  score: 7.4 bits;  conditional E-value: 0.0054
                              HHHHHHHHHHHHHHHHHHHHHHT-XXXXXXX CS
                     SlyX  24 dvvaeqqqqidrlqrqlrllaerlkeleess 54 
                              d+++  +q+i++++  +++l++ +++l+++ 
  PHY93_10710|PHY93_10710 114 DILTLKNQDIEKMKVDFQELKDTVNALQATI 144
                              6788899*****************9999875 PP

>> Prefoldin  Prefoldin subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   1.4   0.00084       1.1      76     114 ..      38      76 ..      34      81 .. 0.90
   2 ?    8.6   2.5    0.0013       1.7       5      52 ..      48      98 ..      44     103 .. 0.72
   3 ?    6.8   2.0    0.0046       5.9      73     115 ..     103     145 ..     100     148 .] 0.83

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.00084
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                Prefoldin  76 eeAiellkkkleelekqlekleeeleklkdqittleanl 114
                              +e ie+++k l +l ++l+++e++l++ ++++++le+++
  PHY93_10710|PHY93_10710  38 QERIEVIDKYLVDLAASLKNMENKLDDNAKKLKSLEEIV 76 
                              6779******************************99876 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0013
                             HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT....-TT-EEEEEEETTEEEE CS
                Prefoldin  5 leslqaelaqlkeaieelektletlktlkk...edegkevlvplgaglyvk 52
                             l  l+a+l++++ +++++ k l+ l+++ k   e e+k++ v+lg++  ++
  PHY93_10710|PHY93_10710 48 LVDLAASLKNMENKLDDNAKKLKSLEEIVKvikEAEEKKAEVKLGEKKTTP 98
                             556777777777777777777777777666666799999999999876555 PP

  == domain 3  score: 6.8 bits;  conditional E-value: 0.0046
                              EEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                Prefoldin  73 ksleeAiellkkkleelekqlekleeeleklkdqittleanla 115
                              ++l e ++l  + l+  ++ +ek++ + ++lkd+++ l+a+++
  PHY93_10710|PHY93_10710 103 RDLSETEKLKADILTLKNQDIEKMKVDFQELKDTVNALQATIR 145
                              56777777777777788889*******************9986 PP

>> FlaC_arch  Flagella accessory protein C (FlaC)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   2.5     0.023        29       2      38 ..      41      77 ..      40      91 .. 0.65
   2 ?    7.1   0.6    0.0056       7.2      14      38 ..     120     145 ..     106     146 .. 0.65

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.023
                FlaC_arch  2 idelEnklsklsteletvkkeneelsksveelkenVk 38
                             i+ +++ l +l  +l+++++++++  k+++ l+e Vk
  PHY93_10710|PHY93_10710 41 IEVIDKYLVDLAASLKNMENKLDDNAKKLKSLEEIVK 77
                             5556666666666666666666666666666666554 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0056
                FlaC_arch  14 t.eletvkkeneelsksveelkenVk 38 
                                 +e +k +++el+++v+ l+ +++
  PHY93_10710|PHY93_10710 120 NqDIEKMKVDFQELKDTVNALQATIR 145
                              33677777778888888888877775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (148 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2427  (0.135367); expected 358.6 (0.02)
Passed bias filter:                      718  (0.0400469); expected 358.6 (0.02)
Passed Vit filter:                        78  (0.00435049); expected 17.9 (0.001)
Passed Fwd filter:                        16  (0.000892409); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.52u 0.25s 00:00:00.77 Elapsed: 00:00:00.41
# Mc/sec: 1082.09
//
Query:       PHY93_10715|PHY93_10715  [L=303]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    5.5e-50  170.2   0.2    6.4e-50  170.0   0.2    1.0  1  Phosphonate-bd  ABC transporter, phosphonate, periplasmic sub
    1.4e-08   35.0   0.5    2.2e-08   34.3   0.5    1.3  1  NMT1            NMT1/THI5 like
      0.003   17.0   0.2     0.0085   15.5   0.2    1.8  3  NMT1_3          NMT1-like family


Domain annotation for each model (and alignments):
>> Phosphonate-bd  ABC transporter, phosphonate, periplasmic substrate-binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  170.0   0.2   1.1e-53   6.4e-50       1     243 []      39     286 ..      39     286 .. 0.92

  Alignments for each domain:
  == domain 1  score: 170.0 bits;  conditional E-value: 1.1e-53
                              EEE--SS-HHHHHHHHHHHHHHHHHHHSSEEEEE--SSHHHHHHHHHTTS-SEEE--HHHHHHHHHHS-EEEEEEEEETT--SEEE CS
           Phosphonate-bd   1 igvlPsespaelkeayqpladyLseelGvevelvvatdyaavvealragqvDiaflgplayvqardqagveplatrvrsdGsasyr 86 
                              i+++Ps +++++ ++ + +++++++e+G   +  + ++y avvea+ + ++Dia +++++y+ a+ + g+e+ +++ r  G++ y+
  PHY93_10715|PHY93_10715  39 IYFTPSVDANSIATNSEHFLKFMEKETGLFYKSGIPSNYIAVVEAFGSSRADIAVMNSFGYLLANTKFGAEAKLKTLR-HGKDYYS 123
                              789**************************************************************************9.******* PP

                              EEEEEETTSS--SHHHHGG-EEEE--TT-TTTTHHHHHHTCCCCT--HHHHSSEEEE--HHHHHHHHHTTSSSEEE.EEHHHHHHH CS
           Phosphonate-bd  87 sviivradsdiqsledLkgktiafvspsStsGylvpaalLvkeagldpeddfsevfsgshdaavlavlsgdadaaa.vsadaledl 171
                              ++i v+a+s+i++l+dL+gk++af+++sStsGyl+p+  + +++++++    +++f+ +hd+++  +++g++da+a +++da+e  
  PHY93_10715|PHY93_10715 124 GAIYVNANSGIKTLKDLNGKKFAFTDASSTSGYLFPLKII-NDNKIKL---ANTTFAIKHDNVITMIYQGQVDAGAaFYSDAYEGK 205
                              ****************************************.9999995...5778*******************996566555555 PP

                              HHH-HHHH.........TTEEEEEEEEEEE--EEEEETTS-HHHHHHHHHHHHH---SHHHHHHHHHT.TEEEEEE--GGGG CS
           Phosphonate-bd 172 vaegpedk.........delrviassppipndpvvvrkelseelkekiqdallslaeteegkklleal.giegfvpaddsdy 243
                              +++++e +         ++++v++ ++ ipndp+v+rk +++++ +k  d l ++  t+egk++++ +   +g+vpa+++dy
  PHY93_10715|PHY93_10715 206 IKDARE-RvmtqfpdveKKVTVLKITDHIPNDPFVFRKGMPADVTKKFIDGLNKYLATKEGKEAFKNIyAVDGVVPATNKDY 286
                              533322.2244555555**************************************************989***********9 PP

>> NMT1  NMT1/THI5 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.3   0.5   3.7e-12   2.2e-08       4     160 ..      56     208 ..      53     233 .. 0.78

  Alignments for each domain:
  == domain 1  score: 34.3 bits;  conditional E-value: 3.7e-12
                              GHHHHHHHHTTHHHHTTEEEEEE--SSTTHHHHHHHCTS-SEEEE-HHHHHHHHH...TT--EEEEEEEE-S--EEEEEECCC--S CS
                     NMT1   4 haglyvAkekGYFkeeGldVeivepadpsdatelvasgkadfgvsyqesllaara...kglpvvsvaallqeplsglivlkdsgik 86 
                              h   ++ ke G F + G+      p++   ++e+ +s  ad++v ++   l+a     + ++++++    +    ++ v+++sgik
  PHY93_10715|PHY93_10715  56 HFLKFMEKETGLFYKSGI------PSNYIAVVEAFGSSRADIAVMNSFGYLLANTkfgAEAKLKTLRHGKDYYSGAIYVNANSGIK 135
                              555566666666666666......66777789999999999999999888866653456889999999999999************ PP

                              SGGGGTTSEEEE-S-TT..HHHHHHHHHHHTT--GGG-EEEE-.TT-HHHHHHCTSSSEEECEETTTHHHHHHHTT CS
                     NMT1  87 spkDLkGkrigyvgspf..ekallkallakdggdpsdvtlvnvggtslakalltgkvDaaiggyenwegveleseg 160
                              ++kDL+Gk+ +++ ++   +  +  +++  + ++ +  t+  ++ +++++ +++g+vDa+  +++  +++e + + 
  PHY93_10715|PHY93_10715 136 TLKDLNGKKFAFTDASStsGYLFPLKIINDNKIKLANTTF-AIKHDNVITMIYQGQVDAGA-AFYS-DAYEGKIKD 208
                              *************9655225556689*******9999999.7779***************9.7777.788766333 PP

>> NMT1_3  NMT1-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0      0.22   1.3e+03     121     149 ..      71      99 ..      69     110 .. 0.85
   2 !   15.5   0.2   1.4e-06    0.0085      70     166 ..     103     196 ..      78     251 .. 0.77
   3 ?   -3.0   0.0      0.63   3.7e+03      65      89 ..     273     296 ..     271     301 .. 0.80

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.22
                   NMT1_3 121 sGtegsarailealglsekdlklleelgy 149
                              sG  +++ a+ ea+g s++d++++++ gy
  PHY93_10715|PHY93_10715  71 SGIPSNYIAVVEAFGSSRADIAVMNSFGY 99 
                              8888999999*****99999998887776 PP

  == domain 2  score: 15.5 bits;  conditional E-value: 1.4e-06
                   NMT1_3  70 egefegkkplknlraitmlyaevfqlvvskdsgigsiadlkgkrvsvGpegsGteg.sarailealglsekdlklleelgygesad 154
                              +++f  +++lk+lr    +y  ++++  +++sgi++++dl+gk++++ +++s++     ++i++  +++ ++++    ++ ++ ++
  PHY93_10715|PHY93_10715 103 NTKFGAEAKLKTLRHGKDYYSGAIYV--NANSGIKTLKDLNGKKFAFTDASSTSGYlFPLKIINDNKIKLANTT--FAIKHDNVIT 184
                              57888889999999999999998877..78*****************998888755245788888888876665..4688999999 PP

                   NMT1_3 155 alkdgqldgaal 166
                               + +gq+d+ a 
  PHY93_10715|PHY93_10715 185 MIYQGQVDAGAA 196
                              999999998654 PP

  == domain 3  score: -3.0 bits;  conditional E-value: 0.63
                   NMT1_3  65 eAyeGegefegkkplknlraitmly 89 
                              +A++G  + ++ k+++ lr + +  
  PHY93_10715|PHY93_10715 273 YAVDGVVPATN-KDYDALRKVLKAT 296
                              79999999998.6999999998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (303 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       568  (0.0316805); expected 358.6 (0.02)
Passed bias filter:                      458  (0.0255452); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.42u 0.24s 00:00:00.65 Elapsed: 00:00:00.35
# Mc/sec: 2576.77
//
Query:       PHY93_10720|PHY93_10720  [L=250]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.7e-37  129.0   0.1    2.5e-37  128.5   0.1    1.2  1  ABC_tran     ABC transporter
    7.7e-07   29.2   0.1      0.018   14.9   0.1    2.1  2  AAA_21       AAA domain, putative AbiEii toxin, Type IV TA sy
    1.2e-05   24.8   0.1       0.02   14.3   0.0    2.1  2  SMC_N        RecF/RecN/SMC N terminal domain
    0.00019   21.7   0.1    0.00087   19.6   0.0    2.0  2  AAA_22       AAA domain
    0.00032   20.4   0.0    0.00059   19.5   0.0    1.4  1  AAA_29       P-loop containing region of AAA domain
     0.0013   19.2   0.0     0.0022   18.4   0.0    1.6  1  AAA_16       AAA ATPase domain
     0.0088   15.9   0.0      0.016   15.1   0.0    1.4  1  DUF3652      Huntingtin protein region
  ------ inclusion threshold ------
      0.011   15.6   0.0      0.022   14.7   0.0    1.5  1  RsgA_GTPase  RsgA GTPase
      0.022   15.3   0.0      0.046   14.2   0.0    1.5  1  AAA_23       AAA domain
      0.037   13.7   0.0      0.063   13.0   0.0    1.4  1  AAA_30       AAA domain
      0.037   13.2   0.0      0.037   13.2   0.0    1.2  1  G-alpha      G-protein alpha subunit
      0.061   12.9   0.0       0.11   12.0   0.0    1.4  1  AAA_27       AAA domain
      0.062   13.5   0.2       0.11   12.6   0.2    1.8  1  AAA_33       AAA domain
      0.073   13.2   0.0       0.14   12.3   0.0    1.4  1  SDP_N        Sex determination protein N terminal
      0.085   12.6   0.2       0.62    9.7   0.1    1.9  2  AAA_15       AAA ATPase domain
       0.11   12.1   0.0       0.18   11.3   0.0    1.4  1  cobW         CobW/HypB/UreG, nucleotide-binding domain
       0.15   12.3   0.0        1.6    9.0   0.0    2.2  1  SbcCD_C      Putative exonuclease SbcCD, C subunit


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  128.5   0.1   2.3e-40   2.5e-37       1     137 []      18     174 ..      18     174 .. 0.93

  Alignments for each domain:
  == domain 1  score: 128.5 bits;  conditional E-value: 2.3e-40
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG...B-HHHCCHCEEEE-SS--S-TTSBHHHH.... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxx.... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke...qeleslrkeigvlpqepqlfpeltvren.... 79 
                              l+n+s+++ +ge ++++G +G+GKSt+l+++ +l++pt+Geil++g d+++   ++l++ r+eig+++q+ +l p++tv  n    
  PHY93_10720|PHY93_10720  18 LQNISFSVPKGEFLVVIGLSGSGKSTMLRCINRLHDPTSGEILFNGIDTTKlkgKNLRKIRSEIGMIFQHFNLIPRKTVLANvlsg 103
                              79*******************************************999999999******************************** PP

                              .................HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              .................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 .................esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                                               e+ e+++k++  +glk+++++++     +LSgGq+qrv++aral+++pk+ll+DEp a
  PHY93_10720|PHY93_10720 104 nlsrtgilksilgiyapEDLERAKKYIGIVGLKGKEKNRA----DNLSGGQQQRVSIARALMQNPKILLADEPVA 174
                              **************77666666777777777777777777....*****************************75 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.1   1.7e-05     0.018       1      47 [.      30      79 ..      30      85 .. 0.76
   2 !   12.7   0.0   7.7e-05     0.081     221     294 ..     130     201 ..      73     204 .. 0.71

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 1.7e-05
                   AAA_21  1 lnvliGpNgsGKSnLLdaldllarl...drdvegltdelsggggirkips 47
                             + v+iG  gsGKS+ L+++  l++       ++g  +++ +g+++rki+s
  PHY93_10720|PHY93_10720 30 FLVVIGLSGSGKSTMLRCINRLHDPtsgEILFNGIDTTKLKGKNLRKIRS 79
                             579*******************9887775555666666666666666665 PP

  == domain 2  score: 12.7 bits;  conditional E-value: 7.7e-05
                   AAA_21 221 vvflengdgqelparelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllell.kelsrngaQvil 294
                              + ++  ++  +  a++lS G+++   ++ al + +   ++ll DEp ++L+P+  +++++ l k +++ g+ vi+
  PHY93_10720|PHY93_10720 130 IGIVGLKGKEKNRADNLSGGQQQRVSIARALMQNP---KILLADEPVASLDPATSHSVMQYLkKVNEELGVTVIC 201
                              44555555555567788999998877777777777...9***********************5444447888875 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.8   0.0   0.00096         1      24      44 ..      28      48 ..       7      52 .. 0.83
   2 !   14.3   0.0   1.9e-05      0.02     135     196 ..      93     201 ..      56     221 .. 0.73

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.00096
                             SSEEEEEESTTSSHHHHHHHH CS
                             xxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 24 ksftaivGpNGSGKsnlldAi 44
                              +f +++G  GSGKs +l  i
  PHY93_10720|PHY93_10720 28 GEFLVVIGLSGSGKSTMLRCI 48
                             4699************99877 PP

  == domain 2  score: 14.3 bits;  conditional E-value: 1.9e-05
                              T...................................................CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTT CS
                              x...................................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 135 e...................................................lLSgGektLvalaLlfAiqkvkpaplyllDeida 169
                                                                                  +LSgG+++ v++a      + +p  + l De  a
  PHY93_10720|PHY93_10720  93 RktvlanvlsgnlsrtgilksilgiyapedlerakkyigivglkgkeknradNLSGGQQQRVSIARA---LMQNP-KILLADEPVA 174
                              3444444444444444444448888888888888888888888888888888********9998865...23444.47789***** PP

                              TS-HHHHHHHHHHHHHHCTTSEEEEE- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 170 aLDeknvkkvaellkeksknaQfivis 196
                               LD +  + v ++lk+ +++  + vi+
  PHY93_10720|PHY93_10720 175 SLDPATSHSVMQYLKKVNEELGVTVIC 201
                              ******************999998887 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   0.0   8.3e-07   0.00087       6      99 ..      29     171 ..      26     200 .. 0.68
   2 ?    0.3   0.0      0.71   7.5e+02      37      67 ..     165     198 ..     141     219 .. 0.66

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 8.3e-07
                   AAA_22   6 gilvvtGesGtGKTtllrrlleqldeeakaee................................erpevvfvtlpsst.sskdllr 58 
                               +lvv+G sG+GK+t lr + + +d  +   e                                 ++++v+ ++ s++ s++ +l+
  PHY93_10720|PHY93_10720  29 EFLVVIGLSGSGKSTMLRCINRLHDPTSG--EilfngidttklkgknlrkirseigmifqhfnlIPRKTVLANVLSGNlSRTGILK 112
                              699*******************9974333..2568888888888888888888888888777765666667777777778888888 PP

                   AAA_22  59 ellralglelka..............erlsseellealeqalrarav.....ielliiDE 99 
                               +l ++  e  +              e +++ + l+  +q+  + a+     +++l+ DE
  PHY93_10720|PHY93_10720 113 SILGIYAPEDLErakkyigivglkgkE-KNRADNLSGGQQQRVSIARalmqnPKILLADE 171
                              888888776666777777777777743.33333333333333333333466777777777 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.71
                   AAA_22  37 e...erpevvfvtlpsstsskdllrellralgle 67 
                              +   ++ +v++ +++ s s  + l+++ ++lg+ 
  PHY93_10720|PHY93_10720 165 KillADEPVASLDPATSHSVMQYLKKVNEELGVT 198
                              0344677788888888888899999999888864 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.5   0.0   5.6e-07   0.00059      17      56 ..      23      63 ..      13      67 .. 0.79

  Alignments for each domain:
  == domain 1  score: 19.5 bits;  conditional E-value: 5.6e-07
                   AAA_29 17 ieidlkg.atlltGpsGsGKSTllDAiqalLvpak.kvrfNk 56
                             +++  kg + +++G sGsGKST+l  i+ l  p++ ++ fN 
  PHY93_10720|PHY93_10720 23 FSVP-KGeFLVVIGLSGSGKSTMLRCINRLHDPTSgEILFNG 63
                             4443.5568999************999999999988888885 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0   2.1e-06    0.0022      21      52 ..      27      58 ..      15     196 .. 0.69

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 2.1e-06
                   AAA_16 21 sgrpelvllsGesGvGKsslvrellralekd...g 52
                             +g  e ++++G sG+GKs+++r++ r l +    +
  PHY93_10720|PHY93_10720 27 KG--EFLVVIGLSGSGKSTMLRCINR-LHDPtsgE 58
                             33..89******************96.44433542 PP

>> DUF3652  Huntingtin protein region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0   1.5e-05     0.016       1      27 [.     159     184 ..     159     187 .. 0.93

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.5e-05
                  DUF3652   1 aiigiPrIiqLcdglmASgqpalrhei 27 
                              a+++ P+I+ L d+  AS++pa++h +
  PHY93_10720|PHY93_10720 159 ALMQNPKIL-LADEPVASLDPATSHSV 184
                              799******.***************75 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.0   2.1e-05     0.022      88     124 ..      16      53 ..       5      76 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 2.1e-05
                              TTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT-- CS
              RsgA_GTPase  88 egleelkellkd.ktsvlvGqSGvGKStLinallpele 124
                              ++l++++  + + ++ v++G SG GKSt++  ++  ++
  PHY93_10720|PHY93_10720  16 HALQNISFSVPKgEFLVVIGLSGSGKSTMLRCINRLHD 53 
                              66777777776669***************987766444 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   4.3e-05     0.046       4      40 ..       4      49 ..       2      51 .. 0.74

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 4.3e-05
                   AAA_23  4 ienfrsf......rdqeidF...skgltlItGpNGaGKTTildAik 40
                             i+n+ +         q+i F   +  + +++G  G+GK+T l++i 
  PHY93_10720|PHY93_10720  4 IKNLEKVypnghhALQNISFsvpKGEFLVVIGLSGSGKSTMLRCIN 49
                             666655555543233789998766678899**************95 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0     6e-05     0.063      19      48 ..      29      58 ..      19      83 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 6e-05
                   AAA_30 19 rvavltGpAGtGKttalkalreaweaaggr 48
                              + v+ G  G+GK+t+l+ ++++++   g+
  PHY93_10720|PHY93_10720 29 EFLVVIGLSGSGKSTMLRCINRLHDPTSGE 58
                             47899***************9999876444 PP

>> G-alpha  G-protein alpha subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   3.5e-05     0.037      26      51 ..      31      61 ..      13     202 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 3.5e-05
                             EEEEESTTSSHHHHHHHHHHHCS--.....- CS
                  G-alpha 26 llllGqseSGKsTilkqlkllykkg.....f 51
                             l+++G s+SGKsT+l+ + +l++++     f
  PHY93_10720|PHY93_10720 31 LVVIGLSGSGKSTMLRCINRLHDPTsgeilF 61
                             7789******************998555553 PP

>> AAA_27  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   0.00011      0.11      12      49 ..      14      51 ..       4      52 .. 0.91

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00011
                   AAA_27 12 GkftdrsldfsaeeadlhliyGpNEAGKstalrAisdl 49
                             G+ + ++++fs  + ++ +++G   +GKst+lr i++l
  PHY93_10720|PHY93_10720 14 GHHALQNISFSVPKGEFLVVIGLSGSGKSTMLRCINRL 51
                             77777899**************************9887 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.2   0.00011      0.11       3      17 ..      32      46 ..      30     220 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 0.00011
                   AAA_33  3 llvGlpGsGKstlae 17
                             +++Gl+GsGKst ++
  PHY93_10720|PHY93_10720 32 VVIGLSGSGKSTMLR 46
                             79**********987 PP

>> SDP_N  Sex determination protein N terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   0.00013      0.14      76     109 ..      48      81 ..      36     100 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00013
                    SDP_N  76 sekLe.ssdgtsplFkGpegiqinateLrrikvdi 109
                               ++L  +++g + lF+G++ ++++ ++Lr+i+ +i
  PHY93_10720|PHY93_10720  48 INRLHdPTSGEI-LFNGIDTTKLKGKNLRKIRSEI 81 
                              477875777777.******************9887 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   0.1   0.00059      0.62      23      50 ..      29      55 ..      16     130 .. 0.75
   2 ?    1.5   0.2      0.18   1.9e+02     287     352 ..     121     192 ..      58     201 .. 0.64

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.00059
                   AAA_15 23 eeltvliGkNnsGKSsilealdlFlnnk 50
                             e + v+iG  +sGKS+ l+ ++ + + +
  PHY93_10720|PHY93_10720 29 E-FLVVIGLSGSGKSTMLRCINRLHDPT 55
                             3.99*****************9998877 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.18
                   AAA_15 287 k...............ddeelplnknGsGvqrllllillileaekkdekeeknvilliEEPEahLHpqaqkvlikllkela 352
                              +                +e+  +++ + G+q+ ++++  +  +++       ++ill +EP a+L p    +++++lk++ 
  PHY93_10720|PHY93_10720 121 EdlerakkyigivglkGKEKNRADNLSGGQQQRVSIARAL--MQN-------PKILLADEPVASLDPATSHSVMQYLKKVN 192
                              0333333444666677778888888888888888776433..333.......47899999999999999999888888875 PP

>> cobW  CobW/HypB/UreG, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00017      0.18       3      51 ..      31      79 ..      29      89 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00017
                             EEEEESTTCCHHHHHHHHHCT--SS-EEEEESS-SSCHCCCCCCHCCCT CS
                     cobW  3 tvltGflGsGKTtLlnhllenraglklavivNefgevsiDaellretgv 51
                             +v+ G  GsGK+t+l+ + + ++  +  ++ N + ++++ ++ lr+  +
  PHY93_10720|PHY93_10720 31 LVVIGLSGSGKSTMLRCINRLHDPTSGEILFNGIDTTKLKGKNLRKIRS 79
                             6899**************999999999*****99999999888877654 PP

>> SbcCD_C  Putative exonuclease SbcCD, C subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0   0.0    0.0015       1.6      27      89 ..     140     189 ..     124     190 .. 0.75

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.0015
                  SbcCD_C  27 srssgtlSGGekqflaylalaaalaalyssaegrepalrlvfLDEAFsklDeesiatllelle 89 
                              ++++ +lSGG++q  +      ++a ++ +      ++++++ DE  ++lD+ ++++++++l+
  PHY93_10720|PHY93_10720 140 KNRADNLSGGQQQR-V------SIARALMQ------NPKILLADEPVASLDPATSHSVMQYLK 189
                              56777888888832.2......33333444......4889999****************9997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (250 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       555  (0.0309554); expected 358.6 (0.02)
Passed bias filter:                      540  (0.0301188); expected 358.6 (0.02)
Passed Vit filter:                        90  (0.0050198); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              17  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.41
# Mc/sec: 1823.42
//
Query:       PHY93_10725|PHY93_10725  [L=347]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.5e-09   37.8  14.0    1.5e-09   37.8  14.0    2.5  2  BPD_transp_1  Binding-protein-dependent transport system inne
  ------ inclusion threshold ------
       0.14   12.1   3.5       0.21   11.5   0.1    2.9  2  DUF2909       Protein of unknown function (DUF2909)


Domain annotation for each model (and alignments):
>> BPD_transp_1  Binding-protein-dependent transport system inner membrane component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -7.2   8.5         2   1.8e+04      56      56 ..     103     103 ..      43     174 .. 0.52
   2 !   37.8  14.0   1.7e-13   1.5e-09       2     170 ..     173     339 ..     150     347 .] 0.90

  Alignments for each domain:
  == domain 1  score: -7.2 bits;  conditional E-value: 2
             BPD_transp_1  56 v 56 
                              +
  PHY93_10725|PHY93_10725 103 L 103
                              2 PP

  == domain 2  score: 37.8 bits;  conditional E-value: 1.7e-13
             BPD_transp_1   2 illGilaa......lnrnkkldkllrpliivllslPsfvlaillvlvfvilsilghlilpviillllsaapyvrlirraalrslpk 81 
                              ++lG++aa      ++  +    +lr   ++l+s+ ++v+ai++        ++g + ++++++l l++++  +  +++ ++s+++
  PHY93_10725|PHY93_10725 173 FVLGFFAArnlmsgNKLAFLCYSALRAGLNILRSIEPLVWAIIFS------VWVGIGPFSGMLALCLHSIASLTKQYSEQIESIDD 252
                              689999999954444455555678999999999**********99......99********************************* PP

             BPD_transp_1  82 dlveaaralGasrwqifrkvvlPnalppiitglilafggllggavlleflgswpGlgtllleailgydyseisnggvlalviavll 167
                              + vea +a Ga ++q+++  v+P++++p +++ i+++ +++  a+++ ++g+ +G+g+ll++ + +   +e    +v+ ++++v++
  PHY93_10725|PHY93_10725 253 GPVEAITATGAHPIQVVWFGVVPQIVIPYLSFTIYRWDINVRMATVIGLVGG-GGIGNLLMQYQGQARWNEVG-LLVILIAAIVWA 336
                              ***************************************************5.57***************999.888888888877 PP

             BPD_transp_1 168 lnl 170
                              +  
  PHY93_10725|PHY93_10725 337 MDW 339
                              655 PP

>> DUF2909  Protein of unknown function (DUF2909)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   2.4e-05      0.21       4      35 ..      64      95 ..      61     111 .. 0.82
   2 ?   -0.5   0.7      0.14   1.2e+03       4      16 ..     325     337 ..     323     342 .. 0.51

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 2.4e-05
                  DUF2909  4 livllLlaiiasLgsALfflvkdkgkskrmvr 35
                             ++ +++++  +sLg++Lf lvk +++++ +++
  PHY93_10725|PHY93_10725 64 AVSIVFFFTNFSLGKGLFGLVKVEENESATSK 95
                             678999****************7777666654 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.14
                  DUF2909   4 livllLlaiiasL 16 
                              l+v+l++ai++ +
  PHY93_10725|PHY93_10725 325 LLVILIAAIVWAM 337
                              3444444454443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (347 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       625  (0.0348597); expected 358.6 (0.02)
Passed bias filter:                      273  (0.0152267); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.19s 00:00:00.67 Elapsed: 00:00:00.37
# Mc/sec: 2813.93
//
Query:       PHY93_10730|PHY93_10730  [L=470]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.9e-17   63.2   0.3    6.2e-17   62.1   0.3    1.6  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    4.7e-09   36.2   0.4    1.2e-08   34.8   0.0    1.9  2  HisKA        His Kinase A (phospho-acceptor) domain
    1.8e-05   24.6   0.1    5.3e-05   23.1   0.1    1.8  1  HATPase_c_5  GHKL domain
    0.00015   21.6   1.6    0.00021   21.1   0.1    1.9  2  HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like
  ------ inclusion threshold ------
       0.15   11.9   3.6       0.21   11.4   1.0    2.4  2  CdvA         CdvA-like coiled-coil domain


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.1   0.3   1.7e-20   6.2e-17       3     108 ..     359     462 ..     357     466 .. 0.86

  Alignments for each domain:
  == domain 1  score: 62.1 bits;  conditional E-value: 1.7e-20
                              HHHHHHHHHHHHHHHHHH..HSTTTEEEEEEEEEE.TEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHHH CS
                HATPase_c   3 ekrLrqiisnlvdNavkf..atkageieveikase.ddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkklv 85 
                              e ++ q++ nlv N+v++  + +++ i++ i+ ++ d +++sv+D+G+Gi k+  +k++ +f +   tk+ g+gtGlGlsi+k ++
  PHY93_10730|PHY93_10730 359 EVQISQVLVNLVNNSVDAisSDEEKWIKIVIS-DQlDSVKFSVTDSGQGIAKDLKEKIMLPFFT---TKQVGKGTGLGLSISKGII 440
                              77899*************75558888888888.4479***************************...99999************77 PP

                              HHTTTEEEE.EEETTTEEEEEEEE CS
                HATPase_c  86 elmgGeiwv.esepgrGttftftl 108
                              + +gGe+ + ++ p   t+f+ft+
  PHY93_10730|PHY93_10730 441 KEHGGELFYnDQCP--NTQFVFTV 462
                              77*****9955555..77777765 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.1       1.2   4.2e+03      23      39 ..     201     214 ..     186     233 .. 0.49
   2 !   34.8   0.0   3.4e-12   1.2e-08       3      66 ..     247     313 ..     245     314 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 1.2
                              HHHHHHC..T-HSSCHH CS
                    HisKA  23 naeaLkregklteelke 39 
                              +++++k++   + +lk 
  PHY93_10730|PHY93_10730 201 TSHLIKKR---NNDLKN 214
                              44555442...333333 PP

  == domain 2  score: 34.8 bits;  conditional E-value: 3.4e-12
                              HHHHHHHHHHHHHHHHHHHHHHHHHHC.....T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHHH CS
                    HisKA   3 grflagvaHELrtPLsailgnaeaLkre...gklteelkeyletiesearrldhlvedlLdlsriea 66 
                              g++++g+aHE+++PL++i g +  Lkr+    +l ++ +  +++i   ++r+ ++++ l  +sr ++
  PHY93_10730|PHY93_10730 247 GELASGIAHEINNPLTVINGQILKLKRQienTELKDKFEGSFNKITLMSDRIVKIINGLKLISRDGH 313
                              89*************************9766666666666*******************99999875 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.1   0.1   1.5e-08   5.3e-05       4      89 ..     360     451 ..     358     463 .. 0.82

  Alignments for each domain:
  == domain 1  score: 23.1 bits;  conditional E-value: 1.5e-08
              HATPase_c_5   4 ldlcvilgnlLdNAieacskieeekrfIrltvrekkksliisieNsyeg......ekkkle....sskskkeehGiGlksireivk 79 
                              + ++ +l nl +N+++a s  e  ++ I++ ++ + +s+ +s++ s +g      e  k+     ++k+ ++  G+Gl+  + i+k
  PHY93_10730|PHY93_10730 360 VQISQVLVNLVNNSVDAISSDE--EKWIKIVISDQLDSVKFSVTDSGQGiakdlkE--KIMlpffTTKQVGKGTGLGLSISKGIIK 441
                              67999*************9966..9*********************9996555432..222345599******************* PP

              HATPase_c_5  80 kykgnlsiea 89 
                              +++g+l ++ 
  PHY93_10730|PHY93_10730 442 EHGGELFYND 451
                              ****987654 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.3      0.64   2.3e+03      85     123 ..     188     227 ..     186     239 .. 0.60
   2 !   21.1   0.1   5.8e-08   0.00021       4      54 ..     363     416 ..     360     438 .. 0.80

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.64
              HATPase_c_3  85 gkkltvitkkegess.tltldvdkidkenekvleeltvee 123
                              + ++++i+ + + +s  ++ + ++++++ ++  + +++++
  PHY93_10730|PHY93_10730 188 SHEMQLISNALNYTShLIKKRNNDLKNHTDNLEKMVDERT 227
                              6778888888888884355555566666665444444443 PP

  == domain 2  score: 21.1 bits;  conditional E-value: 5.8e-08
              HATPase_c_3   4 ekAlaelvdNsldAdaen....vkievnknrgktgeivieDdGkGmseeelknal 54 
                               ++l+ lv+Ns+dA +      +ki+++++  ++ +++++D G+G+ ++  ++ +
  PHY93_10730|PHY93_10730 363 SQVLVNLVNNSVDAISSDeekwIKIVISDQL-DSVKFSVTDSGQGIAKDLKEKIM 416
                              5799*********988777889*******97.799***********987444444 PP

>> CdvA  CdvA-like coiled-coil domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   1.0   5.9e-05      0.21      27      57 ..     205     235 ..     186     252 .. 0.83
   2 ?   -0.3   0.0      0.25   8.9e+02      36      68 ..     248     280 ..     241     284 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 5.9e-05
                     CdvA  27 leealkklkekakelkeklkkrlkeledqik 57 
                              +++ +++lk++ ++l +++++r++ele+q+ 
  PHY93_10730|PHY93_10730 205 IKKRNNDLKNHTDNLEKMVDERTSELESQVI 235
                              78999***********************974 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.25
                     CdvA  36 ekakelkeklkkrlkeledqikslekalanlki 68 
                              e a+ ++ ++++ l+ ++ qi +l++ + n ++
  PHY93_10730|PHY93_10730 248 ELASGIAHEINNPLTVINGQILKLKRQIENTEL 280
                              556677788888888888888888888777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (470 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1188  (0.0662614); expected 358.6 (0.02)
Passed bias filter:                      599  (0.0334096); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.59u 0.23s 00:00:00.82 Elapsed: 00:00:00.39
# Mc/sec: 3650.77
//
Query:       PHY93_10735|PHY93_10735  [L=525]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    5.9e-97  325.0   4.3    7.2e-97  324.7   4.3    1.1  1  SBP_bac_5  Bacterial extracellular solute-binding proteins, f


Domain annotation for each model (and alignments):
>> SBP_bac_5  Bacterial extracellular solute-binding proteins, family 5 Middle
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  324.7   4.3    4e-101   7.2e-97       1     375 [.      65     445 ..      65     447 .. 0.95

  Alignments for each domain:
  == domain 1  score: 324.7 bits;  conditional E-value: 4e-101
                              SEEESSEEEEEEEETTTTEEEEEE-TT-B-TTSS......B-SHHHHHHHHHHHHTGGGHCTTHHHHHC........TCTEEEEEE CS
                SBP_bac_5   1 evvpaLAeswwevsdDgktytfkLRkgvkFsDGt......pltAeDvvfsferlldpdtasgyasllee........dqdikkvea 72 
                              ++vpaLAes we+s+D+ tytf LRkgvkF+  +      +++A Dv fs++r     ++  + s  ++        ++ ik+v+a
  PHY93_10735|PHY93_10735  65 KIVPALAES-WEISKDKMTYTFELRKGVKFHTTKyftptrDFNATDVLFSIDRQRLASHPFHNVSGGKYeyfdgmemGKLIKDVKA 149
                              69*******.7****************************************9999888888888777778899************* PP

                              EETTEEEEEESSETTTTTTHCHHHHHHHGC...CHTCTCTTTTTGTTTSE-BSSSEEEEEEETTTEEEEEE-TTSTTTSCSSSSEE CS
                SBP_bac_5  73 vddytvrftlkkpnalfltllaavpasiak...kaaekeddkdkdtnekpvgtGPYklkefkpgqkivlernpdYwgggkpkldri 155
                              +d+y+v++tl++p a+fl+ +a+    i +    a+  +++k++d ++ pvgt +++++++ +++ i+++ np+Yw g+  ++d++
  PHY93_10735|PHY93_10735 150 LDPYKVQITLSSPEAPFLANMAMSFMGILSeeyGAKLAAANKKADLDNFPVGTSAFVFQSYAKDSVIKYTSNPQYW-GKHGNIDKL 234
                              ******************9999999999999997777889999*********************************.********* PP

                              EEEE-.SHHHHHHHHHTTSSSEEESTTCCTHCHHHHHTTEEEEEEEEEEEEEEEEETTTSTGGGSHHHHHHHHHHS-HHHHHHHCT CS
                SBP_bac_5 156 efkvipdsdaraaalqsGeiddvaepppsdieqlkeakglkvlyespgggvtylafNtkkppfddkrvRqAlsyAiDreeivkavl 241
                              +f + pd+++r ++l++Ge+++v+ep+p+di+++k++++l+v  +++g++++yl++N +k+pfd+  vRqA+++A++++++++a++
  PHY93_10735|PHY93_10735 235 IFAITPDANVRHQKLKTGECQFVNEPSPADIPEMKKNPALTV-MQDAGLNIGYLSMNVTKKPFDNLLVRQAINHALNKKSYIDAIY 319
                              ******************************************.******************************************* PP

                              TTSSEEESSSSTTTSTTCCSCHCCCSHHSHHHHHHHHHHHTT-BCSSTSCEETCEEEEEEEEETTSHHHH.HHHHHHHHHHHHTTE CS
                SBP_bac_5 242 egyatpansllppsspgadeeykpaykaydpekAkklLkeaGykdgdggglrekklkltlllasgspaek.aiaeliqqqlkkiGi 326
                               g a+ a++++pp+++++++  k++  +y pekAk+lL++aG+++g+++++      +tl ++  ++++  ++ el+q++l+k+Gi
  PHY93_10735|PHY93_10735 320 LGNAIIAKNPIPPTIWSYNDAVKDY--EYSPEKAKALLAKAGLPKGFETEI------WTLPVSRPYNPNGkKMGELMQADLAKVGI 397
                              *********************9997..78*******************998......88887766555544*************** PP

                              EEEEEEECHHHHHHHHHHCTTESEEEEEEECTTSTTHHHHHHHHSTTCT CS
                SBP_bac_5 327 kvevktvdwaatylervkdgdfdmillgwgadypdpdnflnpflsssga 375
                              kv++ t dw  tyl+++++gd +m ++gw++d++dpdnfln++l+++++
  PHY93_10735|PHY93_10735 398 KVKLLTFDW-PTYLKKASQGDQQMLQMGWTGDNGDPDNFLNTLLGCGAI 445
                              *********.***********************************9976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (525 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       534  (0.0297841); expected 358.6 (0.02)
Passed bias filter:                      481  (0.026828); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.37
# Mc/sec: 4302.62
//
Query:       PHY93_16795|PHY93_16795  [L=219]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (219 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       286  (0.0159518); expected 358.6 (0.02)
Passed bias filter:                      193  (0.0107647); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.37u 0.21s 00:00:00.57 Elapsed: 00:00:00.34
# Mc/sec: 1918.12
//
Query:       PHY93_10740|PHY93_10740  [L=336]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.5e-47  159.9  18.6    9.6e-47  159.1  18.6    1.4  1  BPD_transp_1  Binding-protein-dependent transport system inne


Domain annotation for each model (and alignments):
>> BPD_transp_1  Binding-protein-dependent transport system inner membrane component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  159.1  18.6   5.3e-51   9.6e-47       1     183 [.     113     336 .]     113     336 .] 1.00

  Alignments for each domain:
  == domain 1  score: 159.1 bits;  conditional E-value: 5.3e-51
             BPD_transp_1   1 gillGilaalnrnkkldkllrpliivllslPsfvlaillvlvf..........................................v 44 
                              gi+lGi+aa +rn+++d++l+  + +++s+P+f+++++l+l+f                                           
  PHY93_10740|PHY93_10740 113 GIPLGIYAAIKRNSFFDYFLMSSSLIGYSMPIFWWGLILILIFsvklgltpvsgridltfdiplfsglylidtlqsivvkadglkP 198
                              89************************************************************************************ PP

             BPD_transp_1  45 ilsilghlilpviillllsaapyvrlirraalrslpkdlveaaralGasrwqifrkvvlPnalppiitglilafggllggavllef 130
                              ++s ++hlilp+ +l+++ +a ++r++r+++l++l +d++++ara+G+s+ +i++ ++l+nal pi+t+l+l fg++++ga+l+e+
  PHY93_10740|PHY93_10740 199 FWSTIKHLILPATALGTIPLAVIARMTRSSMLEVLGEDYIRTARAKGMSKTRIIYIHALRNALVPIVTTLALLFGSIITGAILTET 284
                              ************************************************************************************** PP

             BPD_transp_1 131 lgswpGlgtllleailgydyseisnggvlalviavlllnlvadilqrlldprv 183
                              ++swpG+g +++++i ++dy+ i+ ggvl++ ++++  n+++d+++ +l+p++
  PHY93_10740|PHY93_10740 285 IFSWPGIGKWIVQSITSRDYPVIQ-GGVLIISFIIIMTNIIVDVIYYFLNPKM 336
                              ************************.**************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (336 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       742  (0.0413855); expected 358.6 (0.02)
Passed bias filter:                      343  (0.019131); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.37
# Mc/sec: 2713.51
//
Query:       PHY93_10745|PHY93_10745  [L=286]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.7e-31  109.4   9.4    1.7e-31  109.4   9.4    2.2  3  BPD_transp_1  Binding-protein-dependent transport system inne
    3.6e-10   39.6   1.8    3.6e-10   39.6   1.8    3.0  4  OppC_N        N-terminal TM domain of oligopeptide transport 


Domain annotation for each model (and alignments):
>> BPD_transp_1  Binding-protein-dependent transport system inner membrane component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   0.1      0.03   2.7e+02     159     181 ..      18      40 ..       7      42 .. 0.79
   2 ?   -3.1   0.0      0.61   5.4e+03     157     170 ..      86      99 ..      59     101 .. 0.50
   3 !  109.4   9.4   1.9e-35   1.7e-31       1     185 []     102     286 .]     102     286 .] 0.98

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.03
             BPD_transp_1 159 lalviavlllnlvadilqrlldp 181
                              ++++i++++++l++ +l+ l++p
  PHY93_10745|PHY93_10745  18 AMIGIVFIIFSLFIAFLAPLIAP 40 
                              67888888888888888877776 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 0.61
             BPD_transp_1 157 gvlalviavlllnl 170
                              ++l ++++v++++l
  PHY93_10745|PHY93_10745  86 ISLSVGFSVVVISL 99 
                              23333444444443 PP

  == domain 3  score: 109.4 bits;  conditional E-value: 1.9e-35
             BPD_transp_1   1 gillGilaalnrnkkldkllrpliivllslPsfvlaillvlvfvilsilghlilp.viillllsaapyvrlirraalrslpkdlve 85 
                              g++lG++++ ++++++d+l+++l+++++slPs+++ai++v       +lg +i+  +++++++  + ++r+ir++++ + ++++v+
  PHY93_10745|PHY93_10745 102 GTILGVISG-YYGGVIDRLIMRLTDLIMSLPSILFAIVIV------AVLGPGITNaIVAVSVVAVPNFIRIIRAQVMVEKNRQYVQ 180
                              789******.******************************......9********999**************************** PP

             BPD_transp_1  86 aaralGasrwqifrkvvlPnalppiitglilafggllggavlleflgswpGlgtllleailgydyseis..........nggvlal 161
                              aa++ Ga+ ++i++  +lPn + p+i ++ l f   + + ++l flg    lg +   +++g ++s +             + + +
  PHY93_10745|PHY93_10745 181 AAKLFGAGNFRIMFIEILPNCMAPLIVQASLGFSDGILNVAALGFLG----LGAQAPMSEWGTMLSDARsyiesspwmvTLPGICI 262
                              ***********************************************....***************999***************** PP

             BPD_transp_1 162 viavlllnlvadilqrlldprvrk 185
                              ++ vl +nl+ d l ++ldpr++k
  PHY93_10745|PHY93_10745 263 LLTVLSFNLLGDGLRDALDPRLKK 286
                              *********************985 PP

>> OppC_N  N-terminal TM domain of oligopeptide transport permease C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.6   1.8   4.1e-14   3.6e-10       9      51 .]      11      55 ..       4      55 .. 0.83
   2 ?   -3.4   0.4       1.2     1e+04      19      21 ..      98     100 ..      90     111 .. 0.49
   3 ?    3.1   2.1      0.01        92      22      37 ..     133     148 ..     132     163 .. 0.87
   4 ?   -3.5   0.2       1.2   1.1e+04      20      29 ..     260     269 ..     259     276 .. 0.56

  Alignments for each domain:
  == domain 1  score: 39.6 bits;  conditional E-value: 4.1e-14
                   OppC_N  9 rFkrNklAvvglvilllllliaifaPliaPydpqdliqn..llpP 51
                              +k+N+ A++g v++++ l+ia++aPliaP++p++  ++   lpP
  PHY93_10745|PHY93_10745 11 ELKKNRGAMIGIVFIIFSLFIAFLAPLIAPHNPTEIFADalRLPP 55
                             69******************************9444323348887 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 1.2
                   OppC_N  19 glv 21 
                              +l+
  PHY93_10745|PHY93_10745  98 SLI 100
                              222 PP

  == domain 3  score: 3.1 bits;  conditional E-value: 0.01
                   OppC_N  22 illlllliaifaPlia 37 
                              il +++++a+++P i+
  PHY93_10745|PHY93_10745 133 ILFAIVIVAVLGPGIT 148
                              7889*********995 PP

  == domain 4  score: -3.5 bits;  conditional E-value: 1.2
                   OppC_N  20 lvilllllli 29 
                               +ill++l +
  PHY93_10745|PHY93_10745 260 ICILLTVLSF 269
                              4555555544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (286 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       665  (0.0370907); expected 358.6 (0.02)
Passed bias filter:                      301  (0.0167884); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.37
# Mc/sec: 2289.60
//
Query:       PHY93_10750|PHY93_10750  [L=331]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
      1e-24   87.6   0.0    1.6e-24   86.9   0.0    1.3  1  ABC_tran   ABC transporter
    1.8e-17   63.6   0.1    3.2e-17   62.8   0.1    1.5  1  oligo_HPY  Oligopeptide/dipeptide transporter, C-terminal reg
      9e-09   35.1   0.2    1.3e-08   34.5   0.2    1.1  1  SMC_N      RecF/RecN/SMC N terminal domain
    3.2e-06   27.2   1.5    9.3e-06   25.7   0.1    2.0  2  AAA_21     AAA domain, putative AbiEii toxin, Type IV TA syst
  ------ inclusion threshold ------
      0.019   15.2   1.4        5.3    7.3   0.2    2.3  2  AAA_22     AAA domain
      0.061   12.7   1.2      0.096   12.1   0.1    1.8  2  TniB       Bacterial TniB protein


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.9   0.0   5.5e-28   1.6e-24       2     136 ..      36     193 ..      35     194 .. 0.90

  Alignments for each domain:
  == domain 1  score: 86.9 bits;  conditional E-value: 5.5e-28
                              EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEE......EETTCEGGG....B-HHHCCHCEEEE-SS..--S-TTSB CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......xxxxxxxxx....xxxxxxxxxxxxxxxx..xxxxxxxx RF
                 ABC_tran   2 knvslklkegekvaivGenGaGKStLlkllagllkpteGei......lldgkdlke....qeleslrkeigvlpqe..pqlfpelt 75 
                              +++s++lk+ge++++vGe+G+GKS    +l+g l +  G i       ++g++l +    +  ++   ei++++q+  + l+p lt
  PHY93_10750|PHY93_10750  36 RDLSFSLKQGEMLGVVGESGSGKSITNLALMGILGD--GAIvkarecSFNGRELLSlkehEWQKVRGGEIAMIFQDpmTALNPFLT 119
                              689*****************************9975..666555555777777777888777778889********99999****9 PP

                              HHHH..............HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              xxxx..............xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  76 vren..............esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                              v+ +              e+++++ ++l ++g++  +++++ks p +LSgG+ qrv++a+a+ + pkll++DEpt
  PHY93_10750|PHY93_10750 120 VEFQivetilahlnisksEAKNRAIELLLQVGITS-PKDRLKSYPFELSGGMAQRVMIAMAISTSPKLLIADEPT 193
                              988899**********9999999**********99.889999********************************9 PP

>> oligo_HPY  Oligopeptide/dipeptide transporter, C-terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.8   0.1   1.1e-20   3.2e-17       1      65 []     245     311 ..     245     311 .. 0.96

  Alignments for each domain:
  == domain 1  score: 62.8 bits;  conditional E-value: 1.1e-20
                oligo_HPY   1 vErgpssklfdeplHPYTkaLlrsvprldrekd..klekikgeapslerldeGCpFapRCpfaleeC 65 
                              vE+g +s+l+++p+HPYT +Ll+s p   ++k   +l++i+g +p+ ++++ GC+F+pRC++++e C
  PHY93_10750|PHY93_10750 245 VETGLTSELIKNPHHPYTFGLLSSRPGAVERKAktPLASIAGIVPAFHQRPFGCQFNPRCTHVQEDC 311
                              8*************************887777778*******************************9 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.5   0.2   4.4e-12   1.3e-08      26     213 ..      47     240 ..      37     246 .. 0.84

  Alignments for each domain:
  == domain 1  score: 34.5 bits;  conditional E-value: 4.4e-12
                              EEEEEESTTSSHHHHHHHHHHHCTT.TTTTTTCHCCC..CCC--.BTTCSSTTEEEEEEEEEETTEESSSSSSCEEEEEEEETTSE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N  26 ftaivGpNGSGKsnlldAilFvLGersakklrsekls..dlihk.skekasvkkaeveitfdnedkklkiekeevsisrrvkrkge 108
                              +  +vG+ GSGKs    A++ +LG+ +  k r+ +++  +l++  ++e ++v  +e++++f+++  +    ++ ++++ +++++  
  PHY93_10750|PHY93_10750  47 MLGVVGESGSGKSITNLALMGILGDGAIVKARECSFNgrELLSLkEHEWQKVRGGEIAMIFQDPMTA---LNPFLTVEFQIVETIL 129
                              5679********************999988887766433677765788899**********999998...7888999999999999 PP

                              EEEEETTEEE-HHHHHHHHHCTT-STT.........CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHH. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxx.........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx. RF
                    SMC_N 109 seykingkevtkkevsellesagiske.........lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellk. 184
                               +  i ++e++++ ++ ll ++gi++          +LSgG  + v++a+ +++   +p  l + De   aLD +  k++ +l+k 
  PHY93_10750|PHY93_10750 130 AHLNISKSEAKNRAIELLL-QVGITSPkdrlksypfELSGGMAQRVMIAMAIST---SP-KLLIADEPTTALDVTIQKQILTLIKs 210
                              9999**9999998887666.567766669************9999999887544...33.48899********************5 PP

                              .HHCTTSEEEEE-SSHHHCCC-SCEEEEEE CS
                              .xxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 185 .eksknaQfivislreemlekadklvgvtk 213
                               ++++n+ +i ++++ +++++ ++ v+v+ 
  PHY93_10750|PHY93_10750 211 lQEKNNMSVILVTHDLGVVSEFSERVQVMY 240
                              55566799**********999988888865 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.2      0.11   3.4e+02       3      19 ..      49      65 ..      47     129 .. 0.69
   2 !   25.7   0.1   3.1e-09   9.3e-06     219     302 ..     137     229 ..      84     230 .. 0.77

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.11
                   AAA_21  3 vliGpNgsGKSnLLdal 19
                             +++G  gsGKS    al
  PHY93_10750|PHY93_10750 49 GVVGESGSGKSITNLAL 65
                             689********765555 PP

  == domain 2  score: 25.7 bits;  conditional E-value: 3.1e-09
                   AAA_21 219 r...........gvvflengdgqelparelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsr.ngaQv 292
                              +            v +  ++d+ +  ++elS G+ +   ++++ +++ +  +ll+ DEp + L+  +++ +l+l+k+l++ n+  v
  PHY93_10750|PHY93_10750 137 SeaknraielllQVGITSPKDRLKSYPFELSGGMAQR-VMIAMAISTSP--KLLIADEPTTALDVTIQKQILTLIKSLQEkNNMSV 219
                              022233333344677777888888888889****998.67777777776..79**********************999999***** PP

                   AAA_21 293 iltTHSplll 302
                              il+TH+  ++
  PHY93_10750|PHY93_10750 220 ILVTHDLGVV 229
                              ******8776 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3   0.2    0.0018       5.3       5      21 ..      45      61 ..      41      74 .. 0.85
   2 ?    7.0   0.1    0.0022       6.5      85     128 ..     177     222 ..      85     228 .. 0.77

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0018
                   AAA_22  5 agilvvtGesGtGKTtl 21
                               +l v+GesG+GK+ +
  PHY93_10750|PHY93_10750 45 GEMLGVVGESGSGKSIT 61
                             667889*********86 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.0022
                   AAA_22  85 alrarav....ielliiDEaqh.lr...seealeeLrsllnlsrkgvqliLv 128
                              a+    +    ++lli DE    l+   ++++l+ ++sl++  + ++++iLv
  PHY93_10750|PHY93_10750 177 AM----AistsPKLLIADEPTTaLDvtiQKQILTLIKSLQE--KNNMSVILV 222
                              22....2344579******9998988766************..********9 PP

>> TniB  Bacterial TniB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.1      0.85   2.5e+03      38      49 ..      48      59 ..      42      61 .. 0.83
   2 ?   12.1   0.1   3.2e-05     0.096     113     160 ..     177     222 ..     163     229 .. 0.84

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 0.85
                     TniB 38 lllvGdsnnGKt 49
                             l +vG+s  GK+
  PHY93_10750|PHY93_10750 48 LGVVGESGSGKS 59
                             569********9 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 3.2e-05
                     TniB 113 rllrelkvrvLiiDEihnllagsarkqreflnalksLgnelkipivlv 160
                              ++  ++++++Li DE   +l   ++ q+++l ++ksL+++ +++++lv
  PHY93_10750|PHY93_10750 177 AMAISTSPKLLIADEPTTAL--DVTIQKQILTLIKSLQEKNNMSVILV 222
                              44456789**********99..6777889*****************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (331 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       677  (0.0377601); expected 358.6 (0.02)
Passed bias filter:                      587  (0.0327403); expected 358.6 (0.02)
Passed Vit filter:                        55  (0.00306766); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.38
# Mc/sec: 2613.44
//
Query:       PHY93_10755|PHY93_10755  [L=319]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.5e-32  113.0   0.0      2e-32  112.5   0.0    1.2  1  ABC_tran         ABC transporter
    2.5e-21   76.0   0.3    4.8e-21   75.1   0.3    1.5  1  oligo_HPY        Oligopeptide/dipeptide transporter, C-termin
    4.1e-06   26.8   3.4    0.00022   21.2   1.2    2.2  2  AAA_21           AAA domain, putative AbiEii toxin, Type IV T
    0.00047   20.1   0.1    0.00078   19.4   0.1    1.3  1  RsgA_GTPase      RsgA GTPase
    0.00049   19.6   0.2     0.0013   18.3   0.2    1.6  1  SMC_N            RecF/RecN/SMC N terminal domain
     0.0013   18.5   0.1      0.056   13.1   0.0    2.2  2  Sigma54_activat  Sigma-54 interaction domain
     0.0013   19.1   0.0     0.0019   18.6   0.0    1.3  1  AAA_16           AAA ATPase domain
     0.0014   18.9   1.9     0.0098   16.2   1.9    2.0  1  AAA_22           AAA domain
     0.0023   17.9   0.0      0.003   17.5   0.0    1.4  1  Rad17            Rad17 P-loop domain
     0.0046   17.4   0.1      0.061   13.8   0.1    2.2  1  AAA              ATPase family associated with various cellul
     0.0048   16.9   0.3        0.3   11.1   0.0    2.3  2  AAA_5            AAA domain (dynein-related subfamily)
     0.0062   16.9   0.0      0.011   16.2   0.0    1.4  1  RNA_helicase     RNA helicase
     0.0069   16.1   0.2      0.052   13.3   0.0    2.0  2  IstB_IS21        IstB-like ATP binding protein
     0.0095   15.4   0.6        3.3    7.1   0.1    2.5  2  TniB             Bacterial TniB protein
  ------ inclusion threshold ------
      0.015   15.4   0.2      0.029   14.5   0.2    1.6  1  DUF87            Helicase HerA, central domain
      0.025   14.3   0.0      0.037   13.7   0.0    1.3  1  AAA_15           AAA ATPase domain
      0.026   13.7   0.0      0.045   12.9   0.0    1.6  1  NB-ARC           NB-ARC domain
      0.027   15.0   0.0      0.049   14.2   0.0    1.5  1  AAA_18           AAA domain
      0.037   13.8   0.1       0.07   12.9   0.1    1.4  1  AAA_29           P-loop containing region of AAA domain
      0.048   14.2   0.1        0.1   13.1   0.1    1.5  1  AAA_23           AAA domain
      0.049   13.7   0.1      0.093   12.8   0.1    1.4  1  MMR_HSR1         50S ribosome-binding GTPase
       0.05   13.3   0.0      0.082   12.6   0.0    1.4  1  PRK              Phosphoribulokinase / Uridine kinase family
      0.056   13.4   0.1       0.15   12.0   0.1    1.7  1  NACHT            NACHT domain
      0.075   11.7   0.9        4.4    5.8   0.2    2.1  2  AAA_13           AAA domain
      0.077   13.2   0.0       0.21   11.7   0.0    1.9  1  AAA_33           AAA domain
      0.088   12.3   0.3       0.93    9.0   0.1    2.1  2  AAA_7            P-loop containing dynein motor region
       0.15   11.7   0.1         18    5.0   0.0    2.3  2  Viral_helicase1  Viral (Superfamily 1) RNA helicase


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  112.5   0.0   3.1e-35     2e-32       1     136 [.      33     181 ..      33     182 .. 0.90

  Alignments for each domain:
  == domain 1  score: 112.5 bits;  conditional E-value: 3.1e-35
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS..--S-TTSBHHHH..... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxx..... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqe..pqlfpeltvren..... 79 
                              l +++++l + e+++ivGe+G+GKStL+k+l++l+    Gei+l gk+ ++   ++++++i++++q+  ++l+p++++ +      
  PHY93_10755|PHY93_10755  33 LTDINFHLDKKETLGIVGESGCGKSTLAKVLTKLEARSRGEITLLGKSYDDFLASEFHSKIQMVFQDpyQSLNPRKKALDIiadpl 118
                              679****************************************************************999999999988889**** PP

                              ......HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              ......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ......esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                                     s e  e++++ ++ ++l+++ +++ p+++SgGq+qr+ +aral+ +p++l+lDEp 
  PHY93_10755|PHY93_10755 119 rintnlSSLETRERVMAMMEKVGLREEFAQRYPHHFSGGQRQRLGIARALMLRPEILILDEPV 181
                              **9999555555555555555566668888999*****************************7 PP

>> oligo_HPY  Oligopeptide/dipeptide transporter, C-terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   75.1   0.3   7.2e-24   4.8e-21       1      65 []     233     298 ..     233     298 .. 0.98

  Alignments for each domain:
  == domain 1  score: 75.1 bits;  conditional E-value: 7.2e-24
                oligo_HPY   1 vErgpssklfdeplHPYTkaLlrsvprldrekd.klekikgeapslerldeGCpFapRCpfaleeC 65 
                              vE+g+++++f++plHPYTk Ll+s+p+ +rek  +  ++kge ps+ +l++GC F pRCpfa+++C
  PHY93_10755|PHY93_10755 233 VEYGTRDQIFNNPLHPYTKILLESAPKTHREKSaQEITVKGELPSALNLPRGCAFEPRCPFAKPSC 298
                              8********************************99999**************************** PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.1   0.0     0.012       8.1       3      20 ..      47      64 ..      46     103 .. 0.78
   2 !   21.2   1.2   3.3e-07   0.00022     226     302 ..     143     217 ..      79     218 .. 0.80

  Alignments for each domain:
  == domain 1  score: 6.1 bits;  conditional E-value: 0.012
                   AAA_21  3 vliGpNgsGKSnLLdald 20
                             +++G  g+GKS+L + l 
  PHY93_10755|PHY93_10755 47 GIVGESGCGKSTLAKVLT 64
                             69************9994 PP

  == domain 2  score: 21.2 bits;  conditional E-value: 3.3e-07
                   AAA_21 226 ngdgqelparelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsr.ngaQviltTHSplll 302
                              ++   ++ ++++S G+++ l+++ al  ++    +l++DEp + L+ ++++ +l ll el++  +   ++ +H+ +++
  PHY93_10755|PHY93_10755 143 REEFAQRYPHHFSGGQRQRLGIARALMLRP---EILILDEPVSALDVSIQAQVLNLLLELQEeFKLSYLFISHDLSVI 217
                              4555677899*********99999999999...9********************99955555488999*****98876 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.4   0.1   1.2e-06   0.00078      85     129 ..      28      73 ..       4      79 .. 0.79

  Alignments for each domain:
  == domain 1  score: 19.4 bits;  conditional E-value: 1.2e-06
                              TTHTTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT-----S- CS
              RsgA_GTPase  85 ktkegleelkellkd.ktsvlvGqSGvGKStLinallpelelktge 129
                               + ++l++++ +l++ +t  +vG+SG GKStL ++l+  +  + ge
  PHY93_10755|PHY93_10755  28 LKLKALTDINFHLDKkETLGIVGESGCGKSTLAKVLTKLEARSRGE 73 
                              4567899999***9978999***************99866666555 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.2   1.9e-06    0.0013      24     209 ..      43     225 ..      27     233 .. 0.74

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 1.9e-06
                              SSEEEEEESTTSSHHHHHHHHHHHCTT.TTTTTTCHCCCCCC--..BTTCSSTTEEEEEEEEEETTEESSSSSSCEEEEEEEETTS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N  24 ksftaivGpNGSGKsnlldAilFvLGersakklrseklsdlihk..skekasvkkaeveitfdnedkklkiekeevsisrrvkrkg 107
                              k+   ivG+ G+GKs l   +     + +    rs+    l+ k   +  as  + +++++f+++ ++l+ +k+ + i     r +
  PHY93_10755|PHY93_10755  43 KETLGIVGESGCGKSTLAKVL----TKLE---ARSRGEITLLGKsyDDFLASEFHSKIQMVFQDPYQSLNPRKKALDIIADPLRIN 121
                              44567**********998876....4333...3555555555553344445677899***********999999999999888888 PP

                              EEEEEETTEEE-HHHHHHHHHCTT-STT.......CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxx.......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 108 eseykingkevtkkevsellesagiske.......lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkek 186
                              ++   ++     ++ v+ ++e++g+ +e        +SgG+++ + +a      + +p+ + +lDe  +aLD +  ++v +ll e 
  PHY93_10755|PHY93_10755 122 TNLSSLET----RERVMAMMEKVGLREEfaqryphHFSGGQRQRLGIARA---LMLRPE-ILILDEPVSALDVSIQAQVLNLLLEL 199
                              85555543....35667777777777666666777*******98888765...466776.679********************999 PP

                              CTT..SEEEEE-SSHHHCCC-.SCEE CS
                              xxx..xxxxxxxxxxxxxxxx.xxxx RF
                    SMC_N 187 skn..aQfivislreemleka.dklv 209
                              +++    ++ is++  +++++ d+++
  PHY93_10755|PHY93_10755 200 QEEfkLSYLFISHDLSVIQHMsDRIL 225
                              98844568999999999999844444 PP

>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.1   0.0   8.4e-05     0.056      15      53 ..      36      74 ..      26      98 .. 0.81
   2 ?    3.2   0.0     0.098        65      78     118 ..     154     197 ..     137     204 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 8.4e-05
                             HHHHCTSSS-EEEECSTTSSHHHHHHHHHHHSTTTTS-E CS
          Sigma54_activat 15 ikkvaktdlsvlitGesGtGKellaraiheaskrkekpf 53
                             i+   +++ ++ i+GesG+GK++la+ + + + r+++++
  PHY93_10755|PHY93_10755 36 INFHLDKKETLGIVGESGCGKSTLAKVLTKLEARSRGEI 74
                             555566777888****************99999887765 PP

  == domain 2  score: 3.2 bits;  conditional E-value: 0.098
                              STTTSS-BEHHHHHT..TTSEEEEET.GGGS-HHHHHHHHHHHH CS
          Sigma54_activat  78 FtGAekekkGlfeka..dgGtlfLDe.igelplelQekLlrvlq 118
                              F+G ++++ G  ++      +l LDe ++ l++++Q+++l++l 
  PHY93_10755|PHY93_10755 154 FSGGQRQRLGIARALmlRPEILILDEpVSALDVSIQAQVLNLLL 197
                              777777777776653225689****999***********99874 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.0   2.8e-06    0.0019      25     106 ..      44     125 ..      30     210 .. 0.56

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 2.8e-06
                   AAA_16  25 elvllsGesGvGKsslvrellralekd..ggiflrgkcdqlesaipysalaqalareellrqlldeaesaeleawrekleeala 106
                              e + ++GesG+GKs+l++ l + le++  g i+l gk  +   a ++   +q+ ++ + ++ l+ ++++ +  a++ ++ ++l+
  PHY93_10755|PHY93_10755  44 ETLGIVGESGCGKSTLAKVLTK-LEARsrGEITLLGKSYDDFLASEFHSKIQMVFQ-DPYQSLNPRKKALDIIADPLRINTNLS 125
                              567799***********88886.555523434444444443122333333333323.444444444444444455554444444 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   1.9   1.5e-05    0.0098       8     128 ..      46     210 ..      40     216 .. 0.60

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 1.5e-05
                   AAA_22   8 lvvtGesGtGKTtllrrlleqldeeakaee.........................................erpevvfvtlpssts 52 
                              l ++GesG+GK+tl++ l++    ++   e                                         ++p  +  +l+s+++
  PHY93_10755|PHY93_10755  46 LGIVGESGCGKSTLAKVLTKLEA-RSRG-EitllgksyddflasefhskiqmvfqdpyqslnprkkaldiiADPLRINTNLSSLET 129
                              5599************9999863.3222.146788888888877776666666666666665555544444444444555555553 PP

                   AAA_22  53 skdllrellralglelkaerlsseellealeqalrarav.....ielliiDEaqh.lr...seealeeLrsllnlsrkgvqliLv 128
                              ++ +  ++ +++gl+ +   ++  + ++  +++    a+     +e+li+DE    l+   ++++l+ L +l++  +++++ +++
  PHY93_10755|PHY93_10755 130 RERV-MAMMEKVGLREEF-AQRYPHHFSGGQRQRLGIARalmlrPEILILDEPVSaLDvsiQAQVLNLLLELQE--EFKLSYLFI 210
                              3333.3344455555554.2222222222222222222245778899999997776878555999999988888..877777665 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.0   4.6e-06     0.003      43      72 ..      41      70 ..      12     179 .. 0.84

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 4.6e-06
                    Rad17 43 rkkriLLisGPsGCgkstvvkvLskelgik 72
                              kk+ L i G sGCgkst  kvL+k  + +
  PHY93_10755|PHY93_10755 41 DKKETLGIVGESGCGKSTLAKVLTKLEARS 70
                             5678999*****************976655 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.8   0.1   9.1e-05     0.061       3      53 ..      48     100 ..      46     228 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 9.1e-05
                              EESSTTSSHHHHHHHHHHH.H....THEEEEEETTTCSSSSTTHHHHHHHHHHHHH CS
                      AAA   3 lyGppGtGKTllakavake.l....gvefleisgsellskyvgesekkirelfkea 53 
                              ++G  G+GK++lak + k  +    ++++l  s  ++l    +e  +ki+++f++ 
  PHY93_10755|PHY93_10755  48 IVGESGCGKSTLAKVLTKLeArsrgEITLLGKSYDDFL---ASEFHSKIQMVFQDP 100
                              68************998873232222555555555555...777777777777763 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.1   0.0   0.00045       0.3       4      24 ..      48      69 ..      46      84 .. 0.79
   2 ?    3.6   0.0     0.089        59      19      89 ..     124     196 ..     118     204 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00045
                             EE--SSSSHHHHHHHGGGGB.S CS
                    AAA_5  4 LvGppGtgKselaerlaaal.n 24
                             +vG++G+gKs+la+ l ++  +
  PHY93_10755|PHY93_10755 48 IVGESGCGKSTLAKVLTKLEaR 69
                             69*************9998644 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.089
                              GGGGBS--EEEEE--TT--HHHHH--B--..........--------G-SEEEEESGGG--.HHHHHHHHHHH CS
                    AAA_5  19 laaalnreveyvqltrdtteedlkgrreik.ngttslvdsplvraaregeilvlDEverae.sevlnsLlsll 89 
                              l+++ +re ++ ++ +   +e++ +r+    +g+++ + +++   + ++eil+lDE   a   ++++ +l+ll
  PHY93_10755|PHY93_10755 124 LSSLETRERVMAMMEKVGLREEFAQRYPHHfSGGQRQRLGIARALMLRPEILILDEPVSALdVSIQAQVLNLL 196
                              55555778888888888888999999988888888888899998899*********65555488888888877 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0   1.6e-05     0.011       3      63 ..      48     105 ..      46     128 .. 0.77

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 1.6e-05
             RNA_helicase   3 lyGpsgeGKStlakeLakallkklklkkkdsvys.rnpeddfw.dgYtgqevvvidDfgqvkd 63 
                              ++G+sg+GKStlak      l+kl+  +++++   +++ ddf+ + ++++  +v++D +q+ +
  PHY93_10755|PHY93_10755  48 IVGESGCGKSTLAKV-----LTKLEARSRGEITLlGKSYDDFLaSEFHSKIQMVFQDPYQSLN 105
                              78*************.....4455556667777768888888778888888888888887764 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.0   7.9e-05     0.052      34      70 ..      29      66 ..       9      81 .. 0.81
   2 ?    0.5   0.1      0.66   4.4e+02     102     126 ..     165     190 ..     156     220 .. 0.65

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 7.9e-05
                IstB_IS21 34 kvkeLatlsf.iekkenivllGpsGvGKshlaialgve 70
                             k+k+L   +f ++kke + ++G sG GKs la  l + 
  PHY93_10755|PHY93_10755 29 KLKALTDINFhLDKKETLGIVGESGCGKSTLAKVLTKL 66
                             5677777776589*******************998765 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.66
                IstB_IS21 102 alkrllkvdllilDd.lgllpldqae 126
                              a + +l++++lilD+ ++ l+++ ++
  PHY93_10755|PHY93_10755 165 ARALMLRPEILILDEpVSALDVSIQA 190
                              45567899******944555555443 PP

>> TniB  Bacterial TniB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.0     0.011       7.2      34      57 ..      42      65 ..      23      74 .. 0.73
   2 !    7.1   0.1    0.0049       3.3     118     157 ..     170     207 ..     144     221 .. 0.83

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.011
                     TniB 34 rmpnlllvGdsnnGKtmivekFar 57
                             + + l +vG+s +GK+++++  ++
  PHY93_10755|PHY93_10755 42 KKETLGIVGESGCGKSTLAKVLTK 65
                             345788***********9987665 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0049
                     TniB 118 lkvrvLiiDEihnllagsarkqreflnalksLgnelkipi 157
                              l++++Li+DE  ++l   ++ q ++ln+l  L++e+k++ 
  PHY93_10755|PHY93_10755 170 LRPEILILDEPVSAL--DVSIQAQVLNLLLELQEEFKLSY 207
                              5788******99999..7778899***********99986 PP

>> DUF87  Helicase HerA, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.2   4.3e-05     0.029      25      52 ..      45      71 ..      29     150 .. 0.70

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 4.3e-05
                    DUF87 25 HlAilgsTGsGKSntvavLleellekkg 52
                              l+i+g++G GKS++++vL +  + + +
  PHY93_10755|PHY93_10755 45 TLGIVGESGCGKSTLAKVLTKLEA-RSR 71
                             489****************98766.444 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   5.6e-05     0.037      12      68 ..      31      84 ..      30     138 .. 0.71

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 5.6e-05
                   AAA_15 12 Rslkdveidlsee.ltvliGkNnsGKSsilealdlFlnnkekknkkvikiekedleif 68
                             ++l d+  +l+++ +  ++G+ ++GKS+++++l ++  ++      +i++  +++++f
  PHY93_10755|PHY93_10755 31 KALTDINFHLDKKeTLGIVGESGCGKSTLAKVLTKLEARS----RGEITLLGKSYDDF 84
                             67778788888885668****************9988877....33344444444444 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   6.8e-05     0.045      21      42 ..      44      65 ..      31     223 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 6.8e-05
                             EEEEEEESTTSSHHHHHHHHCC CS
                   NB-ARC 21 lvvalvGmgGvGKttlakqiln 42
                               +++vG  G+GK+tlak   +
  PHY93_10755|PHY93_10755 44 ETLGIVGESGCGKSTLAKVLTK 65
                             3678************986554 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   7.4e-05     0.049       3      34 ..      48      92 ..      46     146 .. 0.69

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 7.4e-05
                   AAA_18  3 ltGtpGvGKttlakeLskrlgf.............gvnlrdvake 34
                             + G +G+GK+tlak L k+++               +  ++ +++
  PHY93_10755|PHY93_10755 48 IVGESGCGKSTLAKVLTKLEARsrgeitllgksydDFLASEFHSK 92
                             8899************99862235555555555544444444444 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.1    0.0001      0.07      17      38 ..      38      59 ..      31      66 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 0.0001
                   AAA_29 17 ieidlkgatlltGpsGsGKSTl 38
                             +++d k++  ++G+sG GKSTl
  PHY93_10755|PHY93_10755 38 FHLDKKETLGIVGESGCGKSTL 59
                             5677777777***********9 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.1   0.00015       0.1      14      37 ..      35      61 ..      27      64 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 0.00015
                   AAA_23 14 eidF...skgltlItGpNGaGKTTild 37
                             +i+F   +k    I+G+ G+GK+T+  
  PHY93_10755|PHY93_10755 35 DINFhldKKETLGIVGESGCGKSTLAK 61
                             4788887778889***********976 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.1   0.00014     0.093       2      25 ..      46      69 ..      45      76 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 0.00014
                             EEEEESTTSSHHHHHHHHHTSTEE CS
                 MMR_HSR1  2 vaivGrpNvGKStLinaltgekai 25
                              +ivG +  GKStL + lt+ +a+
  PHY93_10755|PHY93_10755 46 LGIVGESGCGKSTLAKVLTKLEAR 69
                             68****************985544 PP

>> PRK  Phosphoribulokinase / Uridine kinase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   0.00012     0.082       2      26 ..      46      70 ..      45     131 .. 0.68

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 0.00012
                      PRK  2 IgvagsSGaGkttvarklekifgre 26
                             +g+ g+SG+Gk+t+a+ l+k+ +r 
  PHY93_10755|PHY93_10755 46 LGIVGESGCGKSTLAKVLTKLEARS 70
                             59**************999976644 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.1   0.00022      0.15       2      25 ..      45      68 ..      44      76 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00022
                             CEEEEC-TTTCHHHHHHHHHHHHC CS
                    NACHT  2 lvilqGeaGsGKTtLlqklalawa 25
                             ++ + Ge+G+GK+tL++ l  + a
  PHY93_10755|PHY93_10755 45 TLGIVGESGCGKSTLAKVLTKLEA 68
                             56699***********98876655 PP

>> AAA_13  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.4   0.0     0.018        12      22      43 ..      49      70 ..      43      97 .. 0.89
   2 ?    5.8   0.2    0.0067       4.4     526     572 ..     171     215 ..     164     228 .. 0.82

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.018
                   AAA_13 22 YGwNGaGKTtLSrllrslelge 43
                              G  G GK+tL+++l +le ++
  PHY93_10755|PHY93_10755 49 VGESGCGKSTLAKVLTKLEARS 70
                             5889**************9876 PP

  == domain 2  score: 5.8 bits;  conditional E-value: 0.0067
                   AAA_13 526 kdkivviDDPvSSLDsnslfivfsliksrllkkkkakQlfiLTHnle 572
                                +i ++D PvS LD  ++  v +l+ +   ++ k + lfi+ H l+
  PHY93_10755|PHY93_10755 171 RPEILILDEPVSALDVSIQAQVLNLLLELQ-EEFKLSYLFIS-HDLS 215
                              6789********************999886.77778888886.6665 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00032      0.21       4      33 ..      48      92 ..      46     219 .. 0.61

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00032
                   AAA_33  4 lvGlpGsGKstlaerllkklg.....avllssdt..........l 33
                             +vG +G+GKstla+ l k ++      +ll + +           
  PHY93_10755|PHY93_10755 48 IVGESGCGKSTLAKVLTKLEArsrgeITLLGKSYddflasefhsK 92
                             59************9853333445566666666545555444441 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0   0.1    0.0014      0.93      27      54 ..      37      64 ..      27      77 .. 0.81
   2 ?    1.0   0.0      0.38   2.5e+02     146     174 ..     127     155 ..     119     158 .. 0.83

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.0014
                    AAA_7 27 elllknkkpvllvGptGtGKtviikdll 54
                             + +l++k  + +vG++G+GK++++k l+
  PHY93_10755|PHY93_10755 37 NFHLDKKETLGIVGESGCGKSTLAKVLT 64
                             56788999999***********988654 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.38
                    AAA_7 146 ikdvqlvaamgppgggrneitpRllrhfn 174
                              ++    v+am ++ g r+e  +R+ +hf+
  PHY93_10755|PHY93_10755 127 LETRERVMAMMEKVGLREEFAQRYPHHFS 155
                              55566789******************996 PP

>> Viral_helicase1  Viral (Superfamily 1) RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   0.1     0.046        31       7      20 ..      52      65 ..      48      71 .. 0.74
   2 ?    5.0   0.0     0.026        18      70     103 ..      73     106 ..      73     129 .. 0.88

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.046
          Viral_helicase1  7 pGcGKStlirkllr 20
                              GcGKStl + l +
  PHY93_10755|PHY93_10755 52 SGCGKSTLAKVLTK 65
                             6******8776554 PP

  == domain 2  score: 5.0 bits;  conditional E-value: 0.026
          Viral_helicase1  70 EylllhaGyilllaalskaklvilfGDplQipfh 103
                              E++ll   y ++la + ++k+ ++f Dp+Q+ + 
  PHY93_10755|PHY93_10755  73 EITLLGKSYDDFLASEFHSKIQMVFQDPYQSLNP 106
                              89999999**********************6443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (319 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       549  (0.0306208); expected 358.6 (0.02)
Passed bias filter:                      505  (0.0281667); expected 358.6 (0.02)
Passed Vit filter:                        91  (0.00507558); expected 17.9 (0.001)
Passed Fwd filter:                        27  (0.00150594); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              27  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.40
# Mc/sec: 2369.18
//
Query:       PHY93_10760|PHY93_10760  [L=268]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.2e-20   71.6   2.1    7.9e-20   71.2   0.5    1.8  2  DUF4423          Domain of unknown function (DUF4423)
    1.2e-05   25.0   0.0    0.00012   21.9   0.0    2.4  2  TrmB             Sugar-specific transcriptional regulator Trm
     0.0025   17.8   1.7      0.033   14.2   0.0    2.8  3  HTH_3            Helix-turn-helix
     0.0046   16.4   0.1      0.016   14.7   0.1    1.9  1  Sigma70_r4       Sigma-70, region 4
  ------ inclusion threshold ------
      0.015   15.6   0.1      0.039   14.3   0.1    1.6  1  DUF2383          Domain of unknown function (DUF2383)
      0.025   14.5   0.2      0.082   12.9   0.2    1.8  1  HTH_Crp_2        Crp-like helix-turn-helix domain
      0.042   13.7   1.5        1.5    8.8   0.1    3.2  3  HTH_5            Bacterial regulatory protein, arsR family
      0.056   13.5   0.9       0.12   12.4   0.2    1.9  2  DUF892           Domain of unknown function (DUF892)
      0.059   13.3   0.2       0.31   11.0   0.0    2.1  2  Phage_rep_org_N  N-terminal phage replisome organiser (Phage_
      0.096   12.5   2.2      0.084   12.6   0.4    1.7  2  DUF2247          Uncharacterized protein conserved in bacteri
      0.099   12.3   0.0       0.51   10.0   0.0    2.0  2  DUF1627          Protein of unknown function (DUF1627)
        0.1   13.0   1.5        1.1    9.6   0.1    2.7  3  mCpol            minimal CRISPR polymerase domain


Domain annotation for each model (and alignments):
>> DUF4423  Domain of unknown function (DUF4423)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.0      0.49   7.3e+02     113     151 ..      70     108 ..      23     115 .. 0.53
   2 !   71.2   0.5   5.3e-23   7.9e-20       6     163 ..     115     265 ..     110     267 .. 0.92

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.49
                  DUF4423 113 pkeeRdissltlaiskedyekikkeirefrkkilaiaee 151
                              ++ e d+    + i ++  e++k+   +  k+i++ a+e
  PHY93_10760|PHY93_10760  70 NPLETDFFLKLVQIERAGSEQLKNIFSRHLKQIRNQANE 108
                              444555555555666666666666666666666655555 PP

  == domain 2  score: 71.2 bits;  conditional E-value: 5.3e-23
                  DUF4423   6 kirkLdeeefe.yfssWyypvirellplkdfkadpeelakrlrpkisaeevekalefLlklgllkkdedgkyrqtekslttssevk 90 
                              ++++L+e++ + ++ssW+y++ir l  +k + ++ ee++  l+  is ++v+++l+fL + gl + ++ g+y++te++++   e++
  PHY93_10760|PHY93_10760 115 ESKELTEQDRAiFYSSWHYSMIRLLTMIKGK-QTAEEISVYLG--ISISRVQEILSFLASRGLCRLTN-GRYVRTEQNTH--VEAR 194
                              678999999999***********77777666.***********..********************999.7******9999..8999 PP

                  DUF4423  91 seavrsyhkqmlelAiealervpkeeRdissltlaiskedyekikkeirefrkkilaiaeeskeaerVyqLnl 163
                              s+++  +h+++  +++e  e+++ ++  +++ + +i k+d++kikk + e +++i  ++e s + e++++L +
  PHY93_10760|PHY93_10760 195 SALAIRHHQNWRSKSLELHEKMSSDDLAFTAPI-SIAKKDIQKIKKILLETISEISTLVEGSPS-EEIVYLGI 265
                              999999*******************99998766.******************************.88888776 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.0      0.68     1e+03       6      29 ..      69      92 ..      67     112 .. 0.78
   2 !   21.9   0.0   8.2e-08   0.00012      19      59 ..     142     182 ..     136     187 .. 0.88

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.68
                             HHHHCCCHCHHHHHHCCCHHCHHC CS
                     TrmB  6 LseyEakvYlaLlklgpatadeia 29
                             L+  E + +l+L++ ++a  +++ 
  PHY93_10760|PHY93_10760 69 LNPLETDFFLKLVQIERAGSEQLK 92
                             678899999999987777666655 PP

  == domain 2  score: 21.9 bits;  conditional E-value: 8.2e-08
                              HHCCCHHCHHCCCTTSSCHCHHHHHHHHHHCTSEEEESSTT CS
                     TrmB  19 klgpatadeiaeelgvprskvYevLrsLedkGlVerekgrp 59 
                               +g+ ta+ei+  lg++ s+v+e+L+ L ++Gl +   gr+
  PHY93_10760|PHY93_10760 142 IKGKQTAEEISVYLGISISRVQEILSFLASRGLCRLTNGRY 182
                              6899*****************************98877775 PP

>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.2   0.0   2.2e-05     0.033      16      52 ..      35      71 ..      31      73 .. 0.89
   2 ?   -3.2   0.1       6.1   9.1e+03       1       9 [.      99     107 ..      99     107 .. 0.86
   3 ?    1.8   0.1      0.18   2.6e+02      11      29 ..     147     165 ..     142     167 .. 0.68

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 2.2e-05
                             HHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEH CS
                    HTH_3 16 AeklGvsrstisriEnGernPsletlkklakaLgvsl 52
                             + +l+++ + +s+i nG+ + + e + kl++++ + +
  PHY93_10760|PHY93_10760 35 SLALNMHTTLVSQILNGKKSLTEEQATKLCDYMRLNP 71
                             66899**************************998765 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 6.1
                              HHHHHHHTT CS
                    HTH_3   1 lkelRkqlg 9  
                              lk++R+q++
  PHY93_10760|PHY93_10760  99 LKQIRNQAN 107
                              89***9976 PP

  == domain 3  score: 1.8 bits;  conditional E-value: 0.18
                              HHHHHHHHHTSSHHHHHHH CS
                    HTH_3  11 sqeeLAeklGvsrstisri 29 
                              + ee++ +lG+s s ++ i
  PHY93_10760|PHY93_10760 147 TAEEISVYLGISISRVQEI 165
                              3467777777777777766 PP

>> Sigma70_r4  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.1     1e-05     0.016       4      41 ..     118     166 ..     117     168 .. 0.93

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1e-05
                              HS-HHHHHHHHHHH...........TTT--HHHHHHHHTS-HHHHHHHH CS
               Sigma70_r4   4 sLpererevlelrf...........geglTleEIgerlgiSrerVrqie 41 
                              +L+e++r +++ ++             ++T eEI+  lgiS +rV  i+
  PHY93_10760|PHY93_10760 118 ELTEQDRAIFYSSWhysmirlltmiKGKQTAEEISVYLGISISRVQEIL 166
                              79**********************98889****************8876 PP

>> DUF2383  Domain of unknown function (DUF2383)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.1   2.6e-05     0.039      24      88 ..      83     148 ..      75     152 .. 0.90

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 2.6e-05
                              HHT--SHHHHHHHHHHHHHHHHHHHHHHHHHHHCT------.----------------------HH CS
                  DUF2383  24 aekvkdpqlktlleriaeereeaaeeLqseiralggepedg.gslagklhrawvdlksaltsndee 88 
                              +e++ ++qlk+++ r+ ++ +++a e+++++ + ++  e++   + ++ h  +++l +++++++++
  PHY93_10760|PHY93_10760  83 IERAGSEQLKNIFSRHLKQIRNQANEISNRVPESKELTEQDrAIFYSSWHYSMIRLLTMIKGKQTA 148
                              68999***************************99987776658899**************999874 PP

>> HTH_Crp_2  Crp-like helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.2   5.5e-05     0.082      23      57 ..     147     183 ..     134     188 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 5.5e-05
                              HHHHHHHHTTSSHHHHHHHHHHHHHTTSEE.ETEE.E CS
                HTH_Crp_2  23 tqeelAsmlGltretvsrilseLkreglis.rgrr.i 57 
                              t ee++ +lG++ + v  ils L  +gl + +++r +
  PHY93_10760|PHY93_10760 147 TAEEISVYLGISISRVQEILSFLASRGLCRlTNGRyV 183
                              789*************************997554434 PP

>> HTH_5  Bacterial regulatory protein, arsR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.0      0.11   1.7e+02      33      42 ..      96     105 ..      94     105 .. 0.90
   2 ?    8.8   0.1   0.00099       1.5      11      44 ..     141     174 ..     136     176 .. 0.88
   3 ?   -1.4   0.0       1.5   2.2e+03      17      30 ..     244     257 ..     242     258 .. 0.86

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.11
                              HHHHHHHHHT CS
                    HTH_5  33 ShHLkkLrea 42 
                              S+HLk+ r++
  PHY93_10760|PHY93_10760  96 SRHLKQIRNQ 105
                              9******986 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.00099
                              HTTSSEEHHHHHHHHTS-HHHHHHHHHHHHHTTS CS
                    HTH_5  11 LaegelcvcelaeelglsqstvShHLkkLreaGL 44 
                              + +g++++ e++ +lg+s s v + L++L   GL
  PHY93_10760|PHY93_10760 141 MIKGKQTAEEISVYLGISISRVQEILSFLASRGL 174
                              678********************99999987776 PP

  == domain 3  score: -1.4 bits;  conditional E-value: 1.5
                              EHHHHHHHHTS-HH CS
                    HTH_5  17 cvcelaeelglsqs 30 
                              +++e++  ++ s+s
  PHY93_10760|PHY93_10760 244 TISEISTLVEGSPS 257
                              89****99998887 PP

>> DUF892  Domain of unknown function (DUF892)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0       5.6   8.4e+03     134     142 ..      53      61 ..      36      67 .. 0.62
   2 ?   12.4   0.2   8.1e-05      0.12      27      55 ..      82     110 ..      78     122 .. 0.91

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 5.6
                              HHHHHHHHH CS
                   DUF892 134 qtleeekat 142
                              ++l ee+at
  PHY93_10760|PHY93_10760  53 KSLTEEQAT 61 
                              344444444 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 8.1e-05
                              HHHH-SSHHHHHHHHHHHHHHHHHHHHHH CS
                   DUF892  27 makaaespeLkaaleqHleeTegqierLe 55 
                              ++++a s++Lk+ + +Hl+++++q++++ 
  PHY93_10760|PHY93_10760  82 QIERAGSEQLKNIFSRHLKQIRNQANEIS 110
                              789*********************99885 PP

>> Phage_rep_org_N  N-terminal phage replisome organiser (Phage_rep_org_N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.1      0.87   1.3e+03      83     108 ..      81     107 ..      72     119 .. 0.56
   2 ?   11.0   0.0   0.00021      0.31      51     114 ..     143     205 ..     137     211 .. 0.88

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.87
          Phage_rep_org_N  83 ieisedkvikikn.wekhqnieskekk 108
                              ++i   ++ ++kn +++h  +  ++++
  PHY93_10760|PHY93_10760  81 VQIERAGSEQLKNiFSRHLKQIRNQAN 107
                              555445555555544555544444444 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.00021
          Phage_rep_org_N  51 nipytaemlalifnreletvrlaLkvlkdlelieisedkvikiknwekhqnieskekkrerkre 114
                              ++++tae++++ +   +++v+  L++l++ +l   + ++ +  ++ + h+   s+ + r++++ 
  PHY93_10760|PHY93_10760 143 KGKQTAEEISVYLGISISRVQEILSFLASRGLCRLT-NGRYVRTEQNTHVEARSALAIRHHQNW 205
                              5689******************************99.999999999999999988888776654 PP

>> DUF2247  Uncharacterized protein conserved in bacteria (DUF2247)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.4   5.6e-05     0.084      21      93 ..      52     140 ..      34     151 .. 0.83
   2 ?   -1.7   0.1       1.5   2.2e+03      44      71 ..     220     247 ..     203     257 .. 0.62

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 5.6e-05
                  DUF2247  21 knlisadevieyaekllekgeaseelileLafleekeeeelknllkklaseekkideeleerk.................wlyvvL 89 
                              k+ +++++ ++ ++++  +   +++++l+L  +e   +e+lkn+++   ++ +++  e+++r                  w y ++
  PHY93_10760|PHY93_10760  52 KKSLTEEQATKLCDYMRLNPL-ETDFFLKLVQIERAGSEQLKNIFSRHLKQIRNQANEISNRVpeskelteqdraifyssWHYSMI 136
                              6789**********9777777.***********************99999988888888888777778888888888888888887 PP

                  DUF2247  90 kelk 93 
                              + l 
  PHY93_10760|PHY93_10760 137 RLLT 140
                              6665 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 1.5
                  DUF2247  44 eelileLafleekeeeelknllkklase 71 
                              +  ++  +++ +k+ +++k++l + +se
  PHY93_10760|PHY93_10760 220 DLAFTAPISIAKKDIQKIKKILLETISE 247
                              4444444566777777777777666665 PP

>> DUF1627  Protein of unknown function (DUF1627)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.0      0.97   1.5e+03      90     113 ..      40      63 ..      33      68 .. 0.86
   2 ?   10.0   0.0   0.00034      0.51       4      40 ..     143     178 ..     141     202 .. 0.74

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 0.97
                  DUF1627  90 iktetvadivqslpsftetradel 113
                              ++t  v++i++ + s+te++a +l
  PHY93_10760|PHY93_10760  40 MHTTLVSQILNGKKSLTEEQATKL 63 
                              678889999999******999877 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00034
                  DUF1627   4 dgaktadelallfgvtsrkvastlavaiskgrlirvn 40 
                              +g +ta+e+++ +g++  +v+  l+   s+g l r+ 
  PHY93_10760|PHY93_10760 143 KGKQTAEEISVYLGISISRVQEILSFLASRG-LCRLT 178
                              699*****************99999888776.33332 PP

>> mCpol  minimal CRISPR polymerase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0       2.6   3.9e+03      12      46 ..      18      52 ..      15      62 .. 0.79
   2 ?    1.4   0.1      0.26   3.9e+02      25      90 ..      95     156 ..      81     174 .. 0.59
   3 ?    9.6   0.1   0.00073       1.1      18      59 ..     227     268 .]     218     268 .] 0.89

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 2.6
                    mCpol 12 klealllsndeeeleklskevkeaikklkkllkde 46
                             ++ea  + +   e +++s  ++  +  ++++l+ +
  PHY93_10760|PHY93_10760 18 YIEAWARAKGRGEYRRISLALNMHTTLVSQILNGK 52
                             56777777777888899999999998888888876 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.26
                    mCpol  25 leklskevkeaikklkkllkdelgasvifaaGDsilakssleedllvelsrvyqkitgltvSiGvG 90 
                              +++  k+++++ +++++ + +   ++    + D  +++ss +  ++  l  +  k+t   +S+ +G
  PHY93_10760|PHY93_10760  95 FSRHLKQIRNQANEISNRVPES--KE--LTEQDRAIFYSSWHYSMIRLLTMIKGKQTAEEISVYLG 156
                              4555566666666666666555..22..34566666666666666666666666666555555544 PP

  == domain 3  score: 9.6 bits;  conditional E-value: 0.00073
                    mCpol  18 lsndeeeleklskevkeaikklkkllkdelgasvifaaGDsi 59 
                              +s + ++++k+ k + e+i+++++l++   + ++++ + D+i
  PHY93_10760|PHY93_10760 227 ISIAKKDIQKIKKILLETISEISTLVEGSPSEEIVYLGIDCI 268
                              6778899*******************************9997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (268 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1217  (0.0678789); expected 358.6 (0.02)
Passed bias filter:                      726  (0.0404931); expected 358.6 (0.02)
Passed Vit filter:                        75  (0.00418317); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.43
# Mc/sec: 1890.03
//
Query:       PHY93_10765|PHY93_10765  [L=347]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (347 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       367  (0.0204696); expected 358.6 (0.02)
Passed bias filter:                      332  (0.0185175); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.19s 00:00:00.68 Elapsed: 00:00:00.38
# Mc/sec: 2711.12
//
Query:       PHY93_10770|PHY93_10770  [L=348]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0023   17.3   0.1     0.0046   16.4   0.1    1.4  1  DUF3810   Protein of unknown function (DUF3810)
  ------ inclusion threshold ------
        2.5    7.9   5.2        3.1    7.6   1.0    2.9  3  UPF0054   Uncharacterized protein family UPF0054


Domain annotation for each model (and alignments):
>> DUF3810  Protein of unknown function (DUF3810)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.1   5.1e-07    0.0046     171     209 ..     126     163 ..     123     171 .. 0.93

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 5.1e-07
                  DUF3810 171 yfpftgEanvNkdlpalnlpftiaHElAHllGiasEdEA 209
                              ++pf +  ++N+ ++++++   iaHEl+Hl G+ +E+EA
  PHY93_10770|PHY93_10770 126 ISPFLMSPKLNQFTYEAEIFGLIAHELSHLAGF-DENEA 163
                              579*****************************9.68887 PP

>> UPF0054  Uncharacterized protein family UPF0054
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.6   1.0   0.00034       3.1      70     110 ..     124     162 ..      38     169 .. 0.59
   2 ?   -2.7   0.1      0.52   4.7e+03      25      47 ..     230     253 ..     215     267 .. 0.69
   3 ?   -2.9   0.0      0.63   5.7e+03      35      51 ..     274     290 ..     269     325 .. 0.66

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.00034
                  UPF0054  70 ivisvekakeqaeeyghslerelafllvHgllHllGYDHee 110
                              i+is+  ++ + ++   ++e e+  l++H l Hl G+D +e
  PHY93_10770|PHY93_10770 124 ICISPFLMSPKLNQ--FTYEAEIFGLIAHELSHLAGFDENE 162
                              55555555555555..5889999***************875 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 0.52
                  UPF0054  25 e.evsvllvdneeirelnkeyrgk 47 
                              + + ++ +++  e + +n ey  +
  PHY93_10770|PHY93_10770 230 QnNSNINIITPSETELVNVEYLRI 253
                              246677788888888888888765 PP

  == domain 3  score: -2.9 bits;  conditional E-value: 0.63
                  UPF0054  35 eeirelnkeyrgkdkpT 51 
                               + ++ln+ ++g+d+ T
  PHY93_10770|PHY93_10770 274 STTTHLNNIFKGEDSIT 290
                              55666777777777666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (348 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       452  (0.0252106); expected 358.6 (0.02)
Passed bias filter:                      327  (0.0182386); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.38
# Mc/sec: 2763.71
//
Query:       PHY93_10775|PHY93_10775  [L=266]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.5e-22   79.3   0.4    9.1e-22   77.5   0.2    1.8  2  DUF4423   Domain of unknown function (DUF4423)
    0.00064   19.7   0.2      0.028   14.4   0.0    2.4  2  HTH_45    Winged helix-turn-helix
  ------ inclusion threshold ------
      0.032   14.1   0.0          5    7.1   0.0    2.5  2  TrmB      Sugar-specific transcriptional regulator TrmB
      0.036   14.4   0.1        4.8    7.6   0.1    2.3  2  Rrf2      Transcriptional regulator
      0.087   12.8   0.3       0.31   11.0   0.0    2.1  2  MarR      MarR family
       0.12   12.2   0.1        2.5    8.0   0.0    2.8  3  RuvB_C    RuvB C-terminal winged helix domain


Domain annotation for each model (and alignments):
>> DUF4423  Domain of unknown function (DUF4423)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.4   0.0      0.27   7.9e+02      70     110 ..      22      62 ..      18      99 .. 0.82
   2 !   77.5   0.2   3.1e-25   9.1e-22      11     167 ..     117     265 ..     101     266 .] 0.91

  Alignments for each domain:
  == domain 1  score: -0.4 bits;  conditional E-value: 0.27
                  DUF4423  70 kdedgkyrqtekslttssevkseavrsyhkqmlelAieale 110
                              k++ g++r+ +++l ++s v+s++ r  +   +e+A+++++
  PHY93_10775|PHY93_10775  22 KNGHGQLRKISQHLGINSVVMSQVFRGERDLTIEQALSVTQ 62 
                              67779999999999999999999999888888888887765 PP

  == domain 2  score: 77.5 bits;  conditional E-value: 3.1e-25
                  DUF4423  11 deeefeyfssWyypvirellplkdfkadpeelakrlrpkisaeevekalefLlklgllkkdedgkyrqtekslttssevkseavrs 96 
                              de++  ++s+Wy+++ir  +++++   +  ++a++l+  +  + v+k +efLlk++l+ ++++ k+    + ++++++  s +v+ 
  PHY93_10775|PHY93_10775 117 DEDRATFYSHWYFSAIRLGVSIPEH-NQLTKIADHLN--LERSLVAKVVEFLLKNKLIVEKKN-KLDMGPQVTHVGHD--SPFVNR 196
                              344445***********99******.***********..***********************8.88888888776666..669*** PP

                  DUF4423  97 yhkqmlelAiealervpkeeRdissltlaiskedyekikkeirefrkkilaiaeeskeaerVyqLnlqlFp 167
                              +h+++  ++++a+e +p+e+  + +  +ais ++ e+i+k++ + ++k  ++a++s++ e +y+Ln+++F 
  PHY93_10775|PHY93_10775 197 HHSNWRLQGLQAME-NPREQNLFYTGPMAISHKACEEIRKNLIDTIEKTTKKASQSES-EILYCLNIDWFK 265
                              **************.*******************************************.***********6 PP

>> HTH_45  Winged helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.0   9.3e-06     0.028      18      56 ..     140     178 ..     134     189 .. 0.90
   2 ?    2.9   0.1     0.036   1.1e+02      11      34 ..     241     264 ..     234     266 .] 0.81

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 9.3e-06
                   HTH_45  18 geakkTkimykanLsykllnkYLdmLvekglikkskekY 56 
                              ++++ Tki  + nL+ +l+ k +++L++++li ++k+k 
  PHY93_10775|PHY93_10775 140 EHNQLTKIADHLNLERSLVAKVVEFLLKNKLIVEKKNKL 178
                              57889***************************9988875 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.036
                   HTH_45  11 ILeaisegeakkTkimykanLsyk 34 
                              I + +++ +++ ++i+y  n+++ 
  PHY93_10775|PHY93_10775 241 IEKTTKKASQSESEILYCLNIDWF 264
                              45667889999***********96 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   0.0     0.012        37       3      30 ..      63      90 ..      61      93 .. 0.89
   2 ?    7.1   0.0    0.0017         5      25      58 ..     144     177 ..     139     187 .. 0.84

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.012
                             HCHHHHHCCCHCHHHHHHCCCHHCHHCC CS
                     TrmB  3 klGLseyEakvYlaLlklgpatadeiae 30
                              +GL+  E + +l L+++ +a ++++ +
  PHY93_10775|PHY93_10775 63 FIGLTTLERDYFLLLVQRARAGTNDLRK 90
                             68****************9999998865 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0017
                              HCHHCCCTTSSCHCHHHHHHHHHHCTSEEEESST CS
                     TrmB  25 adeiaeelgvprskvYevLrsLedkGlVerekgr 58 
                               ++ia +l+++rs v +v++ L++  l+  +k +
  PHY93_10775|PHY93_10775 144 LTKIADHLNLERSLVAKVVEFLLKNKLIVEKKNK 177
                              578*******************999988777655 PP

>> Rrf2  Transcriptional regulator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.4   0.0     0.016        47      17      47 ..      17      47 ..       1      50 [. 0.86
   2 ?    7.6   0.1    0.0016       4.8      27      56 ..     143     172 ..     133     175 .. 0.89

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.016
                             HHHSSTCC-B-HHHHHHHHTS-HHHHHHHHH CS
                     Rrf2 17 Lakeeeeepvsseeiaerqnispsylekila 47
                             ++ ++++++ ++++i+++ +i+ ++++++++
  PHY93_10775|PHY93_10775 17 IEIQPKNGHGQLRKISQHLGINSVVMSQVFR 47
                             566778888899****************986 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0016
                              -HHHHHHHHTS-HHHHHHHHHHHHHTTSEE CS
                     Rrf2  27 sseeiaerqnispsylekilakLrkaglvk 56 
                              ++++ia++ n+++s ++k+++ L k++l+ 
  PHY93_10775|PHY93_10775 143 QLTKIADHLNLERSLVAKVVEFLLKNKLIV 172
                              6789*********************99985 PP

>> MarR  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       2.1   6.2e+03       1      13 [.      58      70 ..      58      71 .. 0.83
   2 ?   11.0   0.0    0.0001      0.31      20      52 ..     144     176 ..     136     179 .. 0.85

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 2.1
                             --HHHHHHHHHHH CS
                     MarR  1 ltltqfviLrily 13
                             l+ tqf  L++l+
  PHY93_10775|PHY93_10775 58 LSVTQFIGLTTLE 70
                             7889999999986 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.0001
                              HHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEEE CS
                     MarR  20 vseLakklgvskstvtrvldrLekkGlieRsks 52 
                              ++++a++l++++s v +v+  L k+ li  +k+
  PHY93_10775|PHY93_10775 144 LTKIADHLNLERSLVAKVVEFLLKNKLIVEKKN 176
                              46**********************999976666 PP

>> RuvB_C  RuvB C-terminal winged helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0       1.1   3.3e+03      21      41 ..      23      43 ..      16      47 .. 0.75
   2 ?   -0.0   0.0      0.27   8.2e+02       3      18 ..      65      80 ..      64      95 .. 0.79
   3 ?    8.0   0.0   0.00084       2.5      26      55 ..     144     172 ..     140     188 .. 0.87

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 1.1
                             T--B-HHHHHHHTT--HHHHH CS
                   RuvB_C 21 ggpvglktlaailgeeketie 41
                             +g   l+ ++++lg+++  ++
  PHY93_10775|PHY93_10775 23 NGHGQLRKISQHLGINSVVMS 43
                             666678999999998876655 PP

  == domain 2  score: -0.0 bits;  conditional E-value: 0.27
                             ---HHHHHHHHHHHHT CS
                   RuvB_C  3 GLdeldikyLkllkek 18
                             GL+ l+++y  ll ++
  PHY93_10775|PHY93_10775 65 GLTTLERDYFLLLVQR 80
                             9********9999854 PP

  == domain 3  score: 8.0 bits;  conditional E-value: 0.00084
                              HHHHHHHTT--HHHHHHTTHHHHHHTTSEE CS
                   RuvB_C  26 lktlaailgeeketiedviEPyLlkeglIe 55 
                              l+ +a +l++e++ + +v+E +Llk++lI 
  PHY93_10775|PHY93_10775 144 LTKIADHLNLERSLVAKVVE-FLLKNKLIV 172
                              889*****************.899999985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (266 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1059  (0.0590663); expected 358.6 (0.02)
Passed bias filter:                      662  (0.0369234); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.49u 0.20s 00:00:00.69 Elapsed: 00:00:00.37
# Mc/sec: 2142.70
//
Query:       PHY93_10780|PHY93_10780  [L=58]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (58 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       243  (0.0135535); expected 358.6 (0.02)
Passed bias filter:                      187  (0.01043); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.32u 0.19s 00:00:00.51 Elapsed: 00:00:00.33
# Mc/sec: 521.68
//
Query:       PHY93_10785|PHY93_10785  [L=145]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.4e-07   30.4   0.0    5.2e-07   29.8   0.0    1.3  1  Acetyltransf_9   Acetyltransferase (GNAT) domain
    2.8e-06   27.5   0.1    3.6e-06   27.2   0.1    1.2  1  Acetyltransf_1   Acetyltransferase (GNAT) family
    3.5e-05   24.1   0.0    5.7e-05   23.5   0.0    1.4  1  Acetyltransf_7   Acetyltransferase (GNAT) domain
    0.00045   20.1   0.0    0.00066   19.6   0.0    1.2  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
    0.00062   19.7   0.0     0.0013   18.7   0.0    1.5  1  FR47             FR47-like protein
  ------ inclusion threshold ------
      0.083   12.3   0.0       0.11   11.9   0.0    1.2  1  GNAT_acetyltr_2  GNAT acetyltransferase 2


Domain annotation for each model (and alignments):
>> Acetyltransf_9  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.8   0.0   1.7e-10   5.2e-07      43     127 ..      30     112 ..      11     113 .. 0.84

  Alignments for each domain:
  == domain 1  score: 29.8 bits;  conditional E-value: 1.7e-10
                              EEEEEEETTEEEEEEEEEEEEEEETT.EEEEEEEEEEEEE-CCGTTS-HHHHHHHHHHHHHHHTT--EEEE--.SSHHHHHTTT-E CS
           Acetyltransf_9  43 rvlgaedngelvgqlallplelnvpG.ktlkaagvtgVavapehrgrgvlskLlaraleemreegqplsllfP.ssipiYrrfGye 126
                              ++++a  ngel + l ++pl+    +  + +  g++++a+ pe +++g++s+L++  ++ + e++++ ++l+   s+++Y rf ++
  PHY93_10785|PHY93_10785  30 HYVLANVNGELHSRLIVHPLQ----NiGIKNSVGLGSIATPPELQNKGYASELIRGIIQILSEQRIEHIFLYSdLSPEFYARFEFQ 111
                              445555588888888887765....224556679****************************************99*******997 PP

                              E CS
           Acetyltransf_9 127 i 127
                              i
  PHY93_10785|PHY93_10785 112 I 112
                              6 PP

>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.2   0.1   1.2e-09   3.6e-06      34     117 .]      30     110 ..       3     110 .. 0.72

  Alignments for each domain:
  == domain 1  score: 27.2 bits;  conditional E-value: 1.2e-09
                              EEEEEEETTEEEEEEEEEEEET.TSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHTTESEEEEEEETTEHHHHHHHHHTTE CS
           Acetyltransf_1  34 gllvaeedgeliGfisllkipd.ekggvayieslaVspeyrgkGlGsaLlealeerareegikkivlaveedndaairlYeklGF 117
                              ++++a  +gel   + +++ ++   ++ + + s+a  pe ++kG++s+L++ +++++ e+ i+ i+l+ +     + ++Y ++ F
  PHY93_10785|PHY93_10785  30 HYVLANVNGELHSRLIVHPLQNiGIKNSVGLGSIATPPELQNKGYASELIRGIIQILSEQRIEHIFLYSDL----SPEFYARFEF 110
                              33336666666666666666666556677888***********************************5543....5688877766 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.5   0.0   1.9e-08   5.7e-05      24      75 ..      50     111 ..      26     112 .. 0.55

  Alignments for each domain:
  == domain 1  score: 23.5 bits;  conditional E-value: 1.9e-08
                              S.......TCTEEEEE-GGGTTSSHHHHHHH.HTT....SEEEEEEEEE.THHHHHHHHHHTTEE CS
           Acetyltransf_7  24 d.......aeitrlaVdpeyrgkGiGraLle.aae....kgiileqlel.naekaikfYeklGFe 75 
                              +         ++ +a+ pe ++kG++++L++ +++    + i+  +  l ++  + +fY+++ F+
  PHY93_10785|PHY93_10785  50 QnigiknsVGLGSIATPPELQNKGYASELIRgIIQilseQRIE--HIFLySD-LSPEFYARFEFQ 111
                              1322222234455*****************9742234433322..3344222.3457*****998 PP

>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   0.0   2.2e-07   0.00066      26     115 ..      24     119 ..      12     128 .. 0.76

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 2.2e-07
          Acetyltransf_10  26 ieegealllvaeeggkivGvi........elrdgshisllfVdpeyrgqGigkaLleaveeeaekdgikleltvnaspyavpfYek 103
                              i+++  ++++a+++g++   +        +++++  ++ ++  pe + +G++++L+  +++ +++++i+ ++ + ++    +fY +
  PHY93_10785|PHY93_10785  24 INQKGEHYVLANVNGELHSRLivhplqniGIKNSVGLGSIATPPELQNKGYASELIRGIIQILSEQRIE-HIFLYSDL-SPEFYAR 107
                              4566666777777777776554444443366777799*****************************999.99999876.578**** PP

          Acetyltransf_10 104 lGFkavgeeqee 115
                              + F+ + +++++
  PHY93_10785|PHY93_10785 108 FEFQILPNQFQK 119
                              ****99444443 PP

>> FR47  FR47-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   0.0   4.2e-07    0.0013      23      62 ..      59      99 ..      50     118 .. 0.81

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 4.2e-07
                             SEEEEEE-GGG-SSSHHHHHHHHHHHHHHH.S-S-EEEEEE CS
                     FR47 23 elgalqvlpehrrrGlgsrlvkalakeiae.rgktvllvvv 62
                              lg++ + pe +++G++s l++ +++ ++e r ++++l+  
  PHY93_10785|PHY93_10785 59 GLGSIATPPELQNKGYASELIRGIIQILSEqRIEHIFLYSD 99
                             69***************************967777777754 PP

>> GNAT_acetyltr_2  GNAT acetyltransferase 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   3.7e-05      0.11     101     127 ..      63      89 ..      35     100 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 3.7e-05
          GNAT_acetyltr_2 101 iAvhpelqkmGYGsralellekyyegk 127
                              iA++pelq++GY+s+ ++ +++ ++++
  PHY93_10785|PHY93_10785  63 IATPPELQNKGYASELIRGIIQILSEQ 89 
                              9*****************999988775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (145 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       380  (0.0211947); expected 358.6 (0.02)
Passed bias filter:                      350  (0.0195214); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.38u 0.20s 00:00:00.58 Elapsed: 00:00:00.34
# Mc/sec: 1269.20
//
Query:       PHY93_16800|PHY93_16800  [L=66]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.033   14.9  12.9       0.56   10.8   4.8    2.0  2  Amelogenin  Amelogenin
      0.095   12.5   2.2        0.1   12.4   2.2    1.1  1  DUF4573     Domain of unknown function (DUF4573)


Domain annotation for each model (and alignments):
>> Amelogenin  Amelogenin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   3.9    0.0001      0.89     126     154 ..       5      33 ..       1      37 [. 0.48
   2 ?   10.8   4.8   6.2e-05      0.56     118     151 ..      30      63 ..      27      66 .] 0.83

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.0001
               Amelogenin 126 npvhpleplkpdnenkplfplqplpplle 154
                              +pv+p  plkp  +  p+ p++p  pl +
  PHY93_16800|PHY93_16800   5 APVNPCGPLKPCAPVAPVAPVNPCGPLKP 33 
                              34555555555555555555555555433 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 6.2e-05
               Amelogenin 118 plkptqlsnpvhpleplkpdnenkplfplqplpp 151
                              plkp  + +pv p++p  p n+  p+ p+ ++ p
  PHY93_16800|PHY93_16800  30 PLKPCAPVAPVAPVNPCGPLNPCAPVAPVAQVNP 63 
                              6788889999999999999999999999998887 PP

>> DUF4573  Domain of unknown function (DUF4573)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   2.2   1.2e-05       0.1      42      95 ..       5      58 ..       1      66 [] 0.39

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 1.2e-05
                  DUF4573 42 ravteveplkgvaeieplkavseiqPlravserdplgaveeieppraasemkPl 95
                              +v    plk+ a + p+ +v    Pl++ +   p  +v+   p+ + + + P 
  PHY93_16800|PHY93_16800  5 APVNPCGPLKPCAPVAPVAPVNPCGPLKPCAPVAPVAPVNPCGPLNPCAPVAPV 58
                             333444444444444444444444444444444444443333333333333222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (66 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                        83  (0.00462937); expected 358.6 (0.02)
Passed bias filter:                       28  (0.00156172); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.33u 0.19s 00:00:00.52 Elapsed: 00:00:00.34
# Mc/sec: 585.51
//
Query:       PHY93_10790|PHY93_10790  [L=157]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (157 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       386  (0.0215294); expected 358.6 (0.02)
Passed bias filter:                      309  (0.0172346); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.37u 0.21s 00:00:00.57 Elapsed: 00:00:00.34
# Mc/sec: 1363.94
//
Query:       PHY93_10795|PHY93_10795  [L=165]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.027   14.6   0.0        5.2    7.3   0.0    2.6  3  DUF4793   Domain of unknown function (DUF4793)


Domain annotation for each model (and alignments):
>> DUF4793  Domain of unknown function (DUF4793)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0       0.2   3.5e+03      50      68 ..      24      42 ..      15      47 .. 0.80
   2 ?    7.3   0.0   0.00029       5.2      33      68 ..      55      90 ..      41      95 .. 0.85
   3 ?    4.8   0.0    0.0017        31      38      68 ..     108     138 ..      91     153 .. 0.86

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 0.2
                  DUF4793 50 nteCslklsflsteavvle 68
                             +++Cs+ +    +++ +++
  PHY93_10795|PHY93_10795 24 ENTCSIGITPGGDNTLIIN 42
                             4579999999999988875 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.00029
                  DUF4793 33 ekvvYdtskalskCslnnteCslklsflsteavvle 68
                              +  ++t k+   Cs ++ +Cs+ l    +++ +++
  PHY93_10795|PHY93_10795 55 ASAAFKTIKDAGVCSSESSRCSIGLTPGGANTLIID 90
                             67789999999*****************99999986 PP

  == domain 3  score: 4.8 bits;  conditional E-value: 0.0017
                  DUF4793  38 dtskalskCslnnteCslklsflsteavvle 68 
                              +  k+   Cs ++ +Cs+ l    +++ +++
  PHY93_10795|PHY93_10795 108 KNAKDAGICSSESSRCSIGLTPGGANTLIID 138
                              55667778*9999*********999999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (165 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       388  (0.0216409); expected 358.6 (0.02)
Passed bias filter:                      300  (0.0167327); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.19s 00:00:00.58 Elapsed: 00:00:00.35
# Mc/sec: 1427.96
//
Query:       PHY93_10800|PHY93_10800  [L=87]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.027   13.7   0.0      0.027   13.6   0.0    1.0  1  DUF815    Protein of unknown function (DUF815)


Domain annotation for each model (and alignments):
>> DUF815  Protein of unknown function (DUF815)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   1.5e-06     0.027     108     165 ..       2      64 ..       1      85 [. 0.76

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 1.5e-06
                   DUF815 108 rfilfvDDLsFeeeeeey...ksLksvLeGsleakp..envliyaTsNrRhLlpeklsdneel 165
                              ++i+f+  LsF++  ee     ++k++   s e+k+  en  +y+TsN   L++  ++ + ++
  PHY93_10800|PHY93_10800   2 KIIIFLSVLSFTAMAEEKmvcGKIKTLETDSWETKAviENNTFYVTSNNQSLIQALIAAKISK 64 
                              789********9876665345688988888887775449**************9988877664 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (87 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       604  (0.0336884); expected 358.6 (0.02)
Passed bias filter:                      367  (0.0204696); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.35u 0.22s 00:00:00.56 Elapsed: 00:00:00.35
# Mc/sec: 751.23
//
Query:       PHY93_10805|PHY93_10805  [L=261]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.6e-06   26.8   0.1    1.2e-05   25.7   0.1    1.5  1  Zn_ribbon_recom  Recombinase zinc beta ribbon domain
    0.00083   19.6   1.4     0.0024   18.2   1.4    1.8  1  DUF4368          Domain of unknown function (DUF4368)
     0.0089   16.4   0.0      0.026   14.9   0.0    1.9  1  Recombinase      Recombinase
  ------ inclusion threshold ------
       0.11   11.9   0.1       0.19   11.0   0.1    1.3  1  Coq4             Coenzyme Q (ubiquinone) biosynthesis protein
       0.23   11.4   1.0       0.49   10.3   1.0    1.5  1  C1_1             Phorbol esters/diacylglycerol binding domain


Domain annotation for each model (and alignments):
>> Zn_ribbon_recom  Recombinase zinc beta ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.7   0.1   3.4e-09   1.2e-05       3      57 ..      66     130 ..      64     131 .. 0.80

  Alignments for each domain:
  == domain 1  score: 25.7 bits;  conditional E-value: 3.4e-09
          Zn_ribbon_recom   3 sGllrCgeCGspmtrrkrkgkr...hyYrCs.tyrrkgk......kCsnhsireekleeavleel 57 
                              sG+ +C+ CG ++++++++g+     yY  + +++r+        +C  ++i ++k+e +v++e+
  PHY93_10805|PHY93_10805  66 SGISFCKTCGDSLSGKTATGRScrvFYYEHGwATKRNAGlsktflTCEPKRILANKIEPLVWQEV 130
                              89***************99777887777444144444436887888****************987 PP

>> DUF4368  Domain of unknown function (DUF4368)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   1.4   6.6e-07    0.0024       8      46 ..     218     258 ..     214     260 .. 0.89

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 6.6e-07
                  DUF4368   8 kkedvekFlalvrkytdi..eeLtpeilnelIekIeVheae 46 
                              +++  ekF++  +k+  i  ee  ++i++++I+kIe++++e
  PHY93_10805|PHY93_10805 218 QADTFEKFVENWKKFLAIasEEVKKKIIHKFIKKIEIGKNE 258
                              567899*********998668****************9965 PP

>> Recombinase  Recombinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.0   7.2e-06     0.026      48     104 .]       3      48 ..       1      48 [. 0.93

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 7.2e-06
              Recombinase  48 riLtnpvyiGilvynktkgkkkkkrkddsewivieathepiiseelfeavqerlser 104
                              +iL+np y+Gi+ y+ +              ++++a +e+ii+  +f++v + ls++
  PHY93_10805|PHY93_10805   3 TILRNPTYLGIKFYKIRG-----------VLKEVPAVWEAIIDPITFKRVGDLLSKN 48 
                              79***************9...........7889999****************99987 PP

>> Coq4  Coenzyme Q (ubiquinone) biosynthesis protein Coq4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.1   5.2e-05      0.19      39      81 ..     134     177 ..     127     189 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 5.2e-05
                     Coq4  39 ttglpalerlrekmlsdeeGrriLkerpritsetldlek.lkkl 81 
                              +t++++le++r+++ ++++G + Lker ri+ +   l++ l++l
  PHY93_10805|PHY93_10805 134 LTTSTMLEEMRKEIIKKSKGDEGLKERERIKAKISGLNSqLDTL 177
                              577889*************************9987766545554 PP

>> C1_1  Phorbol esters/diacylglycerol binding domain (C1 domain)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   1.0   0.00014      0.49      11      32 ..      68      89 ..      60      90 .. 0.90

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00014
                             --B-TTT-SB--SSSS-EEEET CS
                     C1_1 11 ptfCkhCgeflwgkekqglkCs 32
                              +fCk+Cg++l+gk  +g +C+
  PHY93_10805|PHY93_10805 68 ISFCKTCGDSLSGKTATGRSCR 89
                             57*********99********7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (261 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1203  (0.067098); expected 358.6 (0.02)
Passed bias filter:                      682  (0.0380389); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.49u 0.20s 00:00:00.69 Elapsed: 00:00:00.37
# Mc/sec: 2138.79
//
Query:       PHY93_10815|PHY93_10815  [L=228]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (228 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       325  (0.0181271); expected 358.6 (0.02)
Passed bias filter:                      139  (0.0077528); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.19s 00:00:00.58 Elapsed: 00:00:00.35
# Mc/sec: 1971.10
//
Query:       PHY93_19370|PHY93_19370  [L=210]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (210 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       439  (0.0244855); expected 358.6 (0.02)
Passed bias filter:                      426  (0.0237604); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.21s 00:00:00.66 Elapsed: 00:00:00.39
# Mc/sec: 1598.14
//
Query:       PHY93_19375|PHY93_19375  [L=394]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.1e-18   65.5   0.1    9.3e-18   64.6   0.1    1.4  1  Glycos_transf_2  Glycosyl transferase family 2
    1.5e-09   38.1   0.0    2.7e-09   37.3   0.0    1.4  1  Glyco_tranf_2_3  Glycosyltransferase like family 2
      7e-07   28.9   0.0    1.2e-06   28.1   0.0    1.3  1  Glyco_transf_21  Glycosyl transferase family 21
    1.5e-06   27.9   0.0    2.3e-06   27.3   0.0    1.2  1  Glyco_tranf_2_2  Glycosyltransferase like family 2
  ------ inclusion threshold ------
      0.014   15.9   0.0      0.025   15.1   0.0    1.4  1  Glyco_tranf_2_4  Glycosyl transferase family 2
       0.46   10.2   3.7       0.87    9.4   3.7    1.4  1  SPC25            Microsomal signal peptidase 25 kDa subunit (


Domain annotation for each model (and alignments):
>> Glycos_transf_2  Glycosyl transferase family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.6   0.1   3.1e-21   9.3e-18       1      87 [.      51     140 ..      51     144 .. 0.98

  Alignments for each domain:
  == domain 1  score: 64.6 bits;  conditional E-value: 3.1e-21
                              EEEEEESS-TTTHHHHHHHHHHHGGCCEEEEEEEEES-SSCHHHHHGGGCH...C-TTEEEEEESSS-.HHHHHHHHHHHH--SSE CS
          Glycos_transf_2   1 svviptyNeektlletlesllaqdpypdfeiivvDDgStDetveileelak...edprvrvirreenv.Gkagalnaglraatgdy 82 
                              s+v+ +  ee +++ tl  ll+  +y+++eiivv+D StD t++i+ee+     +++ v++ +++e++ Gk +aln+g + a+gd+
  PHY93_19375|PHY93_19375  51 SIVVAVKDEERLIRGTLLNLLKL-DYENLEIIVVNDRSTDQTQKIIEEFTIdhqKFKVVKISKLPEGWlGKVNALNEGTKIASGDF 135
                              8**********************.*************************999999999**************************** PP

                              EEEEE CS
          Glycos_transf_2  83 ilflD 87 
                              +l++D
  PHY93_19375|PHY93_19375 136 LLYMD 140
                              ****9 PP

>> Glyco_tranf_2_3  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.3   0.0     9e-13   2.7e-09       1     204 [.      48     254 ..      48     257 .. 0.81

  Alignments for each domain:
  == domain 1  score: 37.3 bits;  conditional E-value: 9e-13
          Glyco_tranf_2_3   1 prdlavlVptfneedvlgevlesllaqeyprvevvvvvdesdaetlevaeelaaalpdvrvrvvvnarnl.gstgksralnealra 85 
                              p  ++++V++ +ee+ ++ +l +ll+ +y ++e++vv d+s++ t + +ee+  ++++ +v+ +  ++ + g  gk++alne+ ++
  PHY93_19375|PHY93_19375  48 PK-ISIVVAVKDEERLIRGTLLNLLKLDYENLEIIVVNDRSTDQTQKIIEEFTIDHQKFKVVKI--SKLPeGWLGKVNALNEGTKI 130
                              55.999****999999999*********************************999999876666..55566999************ PP

          Glyco_tranf_2_3  86 vksdlvllvDdDtvvePdtlkrllqffltpkvgavgtpvfllnrstlvsal..galefaerhlrflaar..ralgvltlnGsgsli 167
                              +++d++l +D  + +   +l++++ + ++ + ++++   +    s + ++l  +a+ f+    r  +a   r +g++   G   ++
  PHY93_19375|PHY93_19375 131 ASGDFLLYMDPGADIAGSVLEMSTKVCESYQLDHLTILPNISPKSFWPDVLitTAFIFYVSSGRPWLAIskRPIGAAKGVGQYNFV 216
                              ***********************999999999999988888888877555555666555555532222222555676656777888 PP

          Glyco_tranf_2_3 168 rrevlkelegldp.lflltdDyelglrlrragfrtayv 204
                              rr++l  +eg+   +  ++dD+ l+  + + g++++++
  PHY93_19375|PHY93_19375 217 RRSFLSKTEGFEWlKMEVADDVGLAQLIASSGGKSHFM 254
                              88888888877776788888888888888888888876 PP

>> Glyco_transf_21  Glycosyl transferase family 21
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.1   0.0     4e-10   1.2e-06       9     147 ..     111     255 ..     103     270 .. 0.84

  Alignments for each domain:
  == domain 1  score: 28.1 bits;  conditional E-value: 4e-10
          Glyco_transf_21   9 sgdpvgvnpKvnnllqaleaakydllvisDsdvrvkpdyLeellaaledpkvglVtslpvgsdakglaaal.eaafl..ntlagvl 91 
                              s+ p+g   Kvn+l+ + + a  d+l+  D  + ++   Le   +  e+ +   +t lp  s+++ ++  l   af+      + +
  PHY93_19375|PHY93_19375 111 SKLPEGWLGKVNALNEGTKIASGDFLLYMDPGADIAGSVLEMSTKVCESYQLDHLTILPNISPKSFWPDVLiTTAFIfyVSSGRPW 196
                              5557777789*99****999***************999999888888889999999999888887777777555555643557777 PP

          Glyco_transf_21  92 qa...klsglgfavGksmalrreaLeaiGGfealadeLAeDyalgkllraaGlkvvlsp 147
                               a   +  g+  +vG+   +rr+ L +  Gfe l+ e+A+D  l++l+++ G k ++ +
  PHY93_19375|PHY93_19375 197 LAiskRPIGAAKGVGQYNFVRRSFLSKTEGFEWLKMEVADDVGLAQLIASSGGKSHFMK 255
                              7744222499999*****************************************99876 PP

>> Glyco_tranf_2_2  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.3   0.0   7.6e-10   2.3e-06       2     111 ..      52     162 ..      50     169 .. 0.78

  Alignments for each domain:
  == domain 1  score: 27.3 bits;  conditional E-value: 7.6e-10
          Glyco_tranf_2_2   2 vviplraseerhyieervlqkakyydeeielivvddgSsekfleevssi.idlnl.lv.ylkdeddkayslaaarNrGaskaesdl 84 
                              +v++++   e+  i+ ++l+  k   e++e+ivv+d S++++ + ++ + id+++ +v  +++ ++   ++  a N G++ a +d+
  PHY93_19375|PHY93_19375  52 IVVAVKD--EERLIRGTLLNLLKLDYENLEIIVVNDRSTDQTQKIIEEFtIDHQKfKVvKISKLPEGWLGKVNALNEGTKIASGDF 135
                              4555544..4446*****777766559*******************9873355431445889999********************* PP

          Glyco_tranf_2_2  85 vlFlDaDcfissDkfekilklitikkl 111
                              +l++D    i+   +e   k+ ++ +l
  PHY93_19375|PHY93_19375 136 LLYMDPGADIAGSVLEMSTKVCESYQL 162
                              *****8777777777777777766655 PP

>> Glyco_tranf_2_4  Glycosyl transferase family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.1   0.0   8.5e-06     0.025       1      50 [.      57     112 ..      57     141 .. 0.72

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 8.5e-06
          Glyco_tranf_2_4   1 rneadiLpeflahhlalgfdr..ilvydndstDgtrailke....lpevkllhvdk 50 
                              ++e+ ++  +l  +l+l++++  i+v+++ stD+t +i++e    +++ k++++ k
  PHY93_19375|PHY93_19375  57 KDEERLIRGTLLNLLKLDYENleIIVVNDRSTDQTQKIIEEftidHQKFKVVKISK 112
                              6899999999999*****98555****************99776656666555554 PP

>> SPC25  Microsomal signal peptidase 25 kDa subunit (SPC25)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4   3.7   0.00029      0.87      25      78 ..     284     337 ..     268     343 .. 0.89

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.00029
                    SPC25  25 ltdvrLalGylavaiaavaflydykveFeeskpvlaiavvlYfilsgiltlyst 78 
                              +++  L lG+l++++++++++y+ +  F    ++++ + ++Y +  +i+ l+++
  PHY93_19375|PHY93_19375 284 FANYNLGLGVLIFLLTVFCSFYPLVAIFMFRSYFIIGCGIAYLLAIFIFSLVAK 337
                              68999***************************************9999999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (394 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       888  (0.0495287); expected 358.6 (0.02)
Passed bias filter:                      497  (0.0277205); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.58u 0.22s 00:00:00.80 Elapsed: 00:00:00.40
# Mc/sec: 2944.98
//
Query:       PHY93_19380|PHY93_19380  [L=785]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   4.2e-119  399.1  16.0    3.7e-72  243.9   0.3    2.1  2  CTI       Fatty acid cis/trans isomerase (CTI)


Domain annotation for each model (and alignments):
>> CTI  Fatty acid cis/trans isomerase (CTI)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  243.9   0.3   2.1e-76   3.7e-72      14     313 ..     135     439 ..     131     449 .. 0.87
   2 !  157.9  11.5   2.2e-50   3.9e-46     353     690 ..     451     784 ..     434     785 .] 0.81

  Alignments for each domain:
  == domain 1  score: 243.9 bits;  conditional E-value: 2.1e-76
                      CTI  14 eewrkkgFysvle..qskeanleasllarllelkekkplpnekllkeeidlsldreqqCpti.eefeeyakkhpeeGmPyglpgLs 96 
                               ew k++F+++ +  +++  nl++s++a +l++++++     +l + ++      +++C+++ ee+++  +k+p++GmPy+lpgL+
  PHY93_19380|PHY93_19380 135 PEWAKRDFFPIFQlgSNNLLNLDNSIFAMALQHGKENAP-GFSL-QPSL---YPPAHVCAKDsEELKSIYQKYPQSGMPYALPGLE 215
                              69***********9999999************9977543.3333.2222...246799**999*********************** PP

                      CTI  97 keeyetlkkWleqGakeek....kaelsaaeakqikewEaflNkddlkeklvaRylYEHlFlahlyfdeeeeeeffklvRsstppg 178
                              ++ey++l++W+++Ga+ ++    k+  + ++ k+i ++E+f+N+++ k +l+aRy+YEH  +ah++f+ + ++ef++lvR+s+++g
  PHY93_19380|PHY93_19380 216 ESEYQVLNEWMQKGAPGPSsdtkKVWDEPTSPKTILKFENFFNQTSPKASLTARYIYEHAIMAHIHFSGTPNDEFYELVRASNSSG 301
                              ***************9666333234445677899***********************************99***********9999 PP

                      CTI 179 epvkeiatrrPyddpgvervyYrlkkveetivaKthipyaldeaklkrvkelFlkedykve.....klpsYepevaaNpfkafeai 259
                                vke+ t++ +d + +  + Yrl++++++iv+Kth  ++l+e  l ++++lFl++ +  e     +  s ++  ++ p+k f+ i
  PHY93_19380|PHY93_19380 302 V-VKELVTEKGNDPTPAP-FVYRLHRIHDVIVRKTHALWELNEGSLVEWTKLFLDPTWDDEaniqaHYDSLDSYDRQDPMKYFSPI 385
                              5.8999*****9998888.***************************************9873211123344567899********* PP

                      CTI 260 PakarYqflLdeaeyfirtFikGpVCrGqiAlnvirdhFwvlFldPekdlsved 313
                              P k+r+ f+  +ae+ +   ++ p C G+iA+  i+dhFwv+Fl  e +++ ++
  PHY93_19380|PHY93_19380 386 PSKSRFTFMVRNAEMLVGEIVRSPSCSGKIATYAIKDHFWVFFLTAEGNEKYQK 439
                              *******************************************98876655444 PP

  == domain 2  score: 157.9 bits;  conditional E-value: 2.2e-50
                      CTI 353 arsellakllkeg..lsleliWdgdgendnaaLtvfRhfdsasvvkGlvGelpktawvldYpllEriyYlLvagFdVyGnvgHqll 436
                               + ++ +k+++++   + ++  ++++ ++   L++fRh  + +v+kGl G  p++ wv+dY   E +yY+Lv+++  +Gnv H++l
  PHY93_19380|PHY93_19380 451 VKDKIKDKVFSNKlsEKASVAINEKDIDSKMSLSLFRHDKNVTVHKGLWGGDPQSFWVMDYDNYEDLYYNLVINYKPWGNVMHRVL 536
                              4555556666666545555666777789999******************************************************* PP

                      CTI 437 tRlYmDllRmegEsnflal.lPkderkallksWYqeleeklkklleeekldsdqetaikyktkdpkkellellkkklkkvlakkde 521
                              t  +m   R+ +Es f++l l  d+  +  ++W  +  e  +++      +s++e  i+ + k+ ++++l+ + ++ +   ++ d+
  PHY93_19380|PHY93_19380 537 TWEHMVKNRKVAESRFVDLfLSGDKDCTNCATWVWDRWE-NSSFN----RNSNEEMMISTTLKKVQNKILSVMDDTAN---NQADT 614
                              *****************9615666667788999877662.22222....24556666666667777777777666554...45566 PP

                      CTI 522 inrlekeakkkeqseekkkaekaLsklaslkgkelkviellpelsllrvekeegkeevysllrnrahsnvafl....lgeelrlqp 603
                              +n  +++++ +  ++  +k e+++ +l+++++ +l   ++lp+l+++++ +e+g++++ysl+ n++++  + +    ++++l   p
  PHY93_19380|PHY93_19380 615 LNDFSNRTT-DYPKTILEKWEQQMLELTHKENIAL--LKNLPDLIYVKLIDENGEDRIYSLILNKTYTTNNDItrgtIDQNLIFLP 697
                              664445444.4455667778888888999877777..9***************************998655551111456677899 PP

                      CTI 604 eedtltlvkgvlgsYPnaffkvkeeeleefvealealkseedyeklvekygvrRtnpkfWevsdklkealkeeepveagllDlnRy 689
                              e++tl ++kg++g++Pn+f+++k ++  +fv++l+ ++s++d  +l ++++ +R++++fW+++d++ ++  +++p++ag++Dln y
  PHY93_19380|PHY93_19380 698 EKNTLIMIKGLIGNHPNLFVTLKIDNAFDFVDKLKMIRSNQDWMALRDQFATHRNTADFWKTYDNFLNWQYRNDPLNAGVIDLNYY 783
                              ************************************************************************************99 PP

                      CTI 690 e 690
                              +
  PHY93_19380|PHY93_19380 784 Q 784
                              7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (785 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       963  (0.0537119); expected 358.6 (0.02)
Passed bias filter:                      533  (0.0297284); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.70u 0.22s 00:00:00.92 Elapsed: 00:00:00.37
# Mc/sec: 6400.75
//
Query:       PHY93_19385|PHY93_19385  [L=732]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.4e-17   64.2   0.0    2.7e-17   63.3   0.0    1.5  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    3.7e-09   36.5   0.0    1.3e-08   34.7   0.0    2.0  1  HisKA        His Kinase A (phospho-acceptor) domain
    7.9e-07   28.9   0.0    3.3e-06   26.9   0.0    2.0  2  HATPase_c_5  GHKL domain
    5.1e-05   23.6   0.0    0.00013   22.3   0.0    1.7  2  GAF_2        GAF domain
    0.00027   21.6   0.0    0.00051   20.7   0.0    1.4  1  GAF          GAF domain
  ------ inclusion threshold ------
      0.034   14.0   0.0      0.068   13.0   0.0    1.4  1  HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.3   0.0   8.9e-21   2.7e-17       4     110 ..     619     723 ..     616     725 .. 0.85

  Alignments for each domain:
  == domain 1  score: 63.3 bits;  conditional E-value: 8.9e-21
                              HHHHHHHHHHHHHHHHHHS..TTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHHHHH CS
                HATPase_c   4 krLrqiisnlvdNavkfat..kageieveikaseddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkklvel 87 
                              ++++q++ nl+ Na+++    +++ i ++ ++++  +vi+ +D+G Gip + l k++++f +   tk  g gtGlGlsi+k+++e 
  PHY93_19385|PHY93_19385 619 SQIMQVLLNLLNNALDAVLplPDKWIAITATPNDFGVVITMTDSGYGIPHQVLAKIMQPFFT---TKEAGMGTGLGLSISKRMIEE 701
                              689*************9442355556666665679***************************...99999************8888 PP

                              TTTEEEEEEETTTEEEEEEEEES CS
                HATPase_c  88 mgGeiwvesepgrGttftftlpl 110
                              ++G++++ ++    t+f+++lp 
  PHY93_19385|PHY93_19385 702 HQGQFYY-QKNLDHTCFVIELPY 723
                              *******.555579****99997 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.7   0.0   4.4e-12   1.3e-08       1      64 [.     502     569 ..     502     572 .. 0.90

  Alignments for each domain:
  == domain 1  score: 34.7 bits;  conditional E-value: 4.4e-12
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHC......T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCH CS
                    HisKA   1 slgrflagvaHELrtPLsailgnaeaLkre....gklteelkeyletiesearrldhlvedlLdlsri 64 
                              +lg++++g+aHE+++PLs i++  + L r+         el+e l++i+s a+r+ ++v+ l  +sr 
  PHY93_19385|PHY93_19385 502 ALGEMASGIAHEINNPLSIIIMKGSQLIRKfetdTLDQKELEEGLKKIVSTAQRIGKVVKGLSSISRN 569
                              589************************8888999555599999*****************99888875 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0      0.81   2.4e+03      46      81 ..     514     556 ..     458     564 .. 0.66
   2 !   26.9   0.0   1.1e-09   3.3e-06       5      90 ..     620     711 ..     617     722 .. 0.83

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.81
              HATPase_c_5  46 ieNsyeg.....ek..kklesskskkeehGiGlksireivkky 81 
                              i+N+ +      ++  +k+e+ + +++e   Glk+i +++++ 
  PHY93_19385|PHY93_19385 514 INNPLSIiimkgSQliRKFETDTLDQKELEEGLKKIVSTAQRI 556
                              4444333333332234777777777777777888888877765 PP

  == domain 2  score: 26.9 bits;  conditional E-value: 1.1e-09
              HATPase_c_5   5 dlcvilgnlLdNAieacskieeekrfIrltvrekkksliisieNsyeg.......ek.kklesskskkeehGiGlksireivkkyk 82 
                               ++ +l nlL+NA++a+  ++  ++ I +t++ ++  ++i+++ s  g       ++ + ++++k+ +   G+Gl+  ++++++++
  PHY93_19385|PHY93_19385 620 QIMQVLLNLLNNALDAVLPLP--DKWIAITATPNDFGVVITMTDSGYGiphqvlaKImQPFFTTKEAGMGTGLGLSISKRMIEEHQ 703
                              68899****************..8***********99*****99966655554442256777************************ PP

              HATPase_c_5  83 gnlsieae 90 
                              g++ ++++
  PHY93_19385|PHY93_19385 704 GQFYYQKN 711
                              *9987765 PP

>> GAF_2  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.3   0.0   4.4e-08   0.00013      36     137 ..     349     459 ..     320     460 .. 0.72
   2 ?   -4.0   0.0       5.5   1.7e+04     116     134 ..     491     511 ..     482     512 .. 0.71

  Alignments for each domain:
  == domain 1  score: 22.3 bits;  conditional E-value: 4.4e-08
                              EEEEEES-TTSTT-S-B---TT.HHHHHHHHTS-EEES-.GGG-S-HHHHHHHHHTT--E......EEEEE-TTS---EEEEES.. CS
                    GAF_2  36 laawgeaeeefgaaldrplgeg.lvgealrtgrpvilnd.leedpdkkglpaghaglrsf......lavPlisegrvvGvlnlyan 113
                              ++a+  a   +   +++   ++   ++a+ tg ++++    ++++ ++++  +h+ + +       +avP++ +g+++G+++    
  PHY93_19385|PHY93_19385 349 ILAPDIAYSHLITPPSPGSMHCfAPAKAILTGTSFYIKKwNDSSAVQIAQSDEHREIIRRlspkslIAVPITFQGKILGAFTAILI 434
                              554444444444444443344434678999999999988777777777777555555444577777*****9999****9998667 PP

                              .....--HHHHHHHHHHHHHHHHHH CS
                    GAF_2 114 kppa.fdeedlelLeelaeqiaiai 137
                              k+++ +++ed +++eela   a+ai
  PHY93_19385|PHY93_19385 435 KEERlYEQEDFAWFEELAVRTATAI 459
                              777779****************999 PP

  == domain 2  score: -4.0 bits;  conditional E-value: 5.5
                              ....--HHHHHHHHHHHHHHH CS
                    GAF_2 116 pa..fdeedlelLeelaeqia 134
                              ++  f+ + ++ L e+a+ ia
  PHY93_19385|PHY93_19385 491 EEiiFSTSRMSALGEMASGIA 511
                              335699999999999999887 PP

>> GAF  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.7   0.0   1.7e-07   0.00051      43     133 .]     361     459 ..     319     459 .. 0.69

  Alignments for each domain:
  == domain 1  score: 20.7 bits;  conditional E-value: 1.7e-07
                              EEEETTSHHHH...HHHHHSSSEEESTGGTSTTHHTT....HHHHHHHHTTESEEEEEEEEETTEEEEEEEEEE..SSS.CSHHHH CS
                      GAF  43 lfmkngrgicg...qvlatgqplvipdstpdprfaqy....nrrdllenmgirsslvvPlvndgelwGllvlhn..psp.pftree 118
                              +++++g++ c    +++ tg +  i  + +d+   q     ++r+++++  ++s+++vP++ +g+++G+++++   + +  + +e+
  PHY93_19385|PHY93_19385 361 TPPSPGSMHCFapaKAILTGTSFYIKKW-NDSSAVQIaqsdEHREIIRRLSPKSLIAVPITFQGKILGAFTAILikE-ErLYEQED 444
                              3444466633345555556666666644.3333333335578999*****************************742.23579999 PP

                              HHHHHHHHHHHHHHH CS
                      GAF 119 lellqvladqvaval 133
                               + +++la + a a+
  PHY93_19385|PHY93_19385 445 FAWFEELAVRTATAI 459
                              9999**999999886 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   2.3e-05     0.068       5      63 ..     623     684 ..     619     700 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 2.3e-05
              HATPase_c_3   5 kAlaelvdNsldAdaen....vkievnknrgktgeivieDdGkGmseeelknalrlatsskea 63 
                              ++l+ l++N+ldA        + i++  n+     i+ +D G+G++ + l + +++  ++kea
  PHY93_19385|PHY93_19385 623 QVLLNLLNNALDAVLPLpdkwIAITATPND-FGVVITMTDSGYGIPHQVLAKIMQPFFTTKEA 684
                              689**********99777778*****9987.46999*******************99998885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (732 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1013  (0.0565006); expected 358.6 (0.02)
Passed bias filter:                      422  (0.0235373); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.63u 0.22s 00:00:00.85 Elapsed: 00:00:00.37
# Mc/sec: 5929.14
//
Query:       PHY93_16805|PHY93_16805  [L=175]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.032   14.2   0.0      0.047   13.7   0.0    1.3  1  Pilin_PilA  Type IV pilin PilA
      0.033   14.1   0.4       0.32   10.9   0.2    2.4  2  Rep_1B      Replicase polyprotein 1ab
      0.059   14.3   0.7       0.09   13.7   0.7    1.3  1  ComP_DUS    Type IV minor pilin ComP, DNA uptake sequence rec
       0.17   11.5   9.0       0.29   10.8   9.0    1.4  1  N_methyl    Prokaryotic N-terminal methylation motif


Domain annotation for each model (and alignments):
>> Pilin_PilA  Type IV pilin PilA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0     1e-05     0.047       1      24 [.      24      47 ..      24      90 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1e-05
               Pilin_PilA  1 fqaRarqsevktnLksLftglrtq 24
                             +qa+a+qse+k++L +++++    
  PHY93_16805|PHY93_16805 24 YQAKAKQSEAKIQLAAVYSSEVGA 47
                             79****************997643 PP

>> Rep_1B  Replicase polyprotein 1ab
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.2   7.2e-05      0.32       6      46 ..      56      95 ..      54     100 .. 0.83
   2 ?   -0.2   0.0      0.21   9.6e+02       8      20 ..     129     141 ..     123     149 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 7.2e-05
                             EEEBBTTEECSSSEEEESSSSEEEEE--TSSEEEBSS-SCE CS
                   Rep_1B  6 tlvvadGrttsPPGrykvGhkvvavvadvGGnivfGcGPGs 46
                             t +v+ G   sP G y++G       a   G i   cGPG+
  PHY93_16805|PHY93_16805 56 TCLVTLGYEQSPRGYYRIGFSAP-YDAAATGKITADCGPGA 95
                             5678889999*********9865.5567789*********7 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.21
                              EBBTTEECSSSEE CS
                   Rep_1B   8 vvadGrttsPPGr 20 
                               ++dG+t   PG 
  PHY93_16805|PHY93_16805 129 AITDGQTIVQPGG 141
                              5789***999984 PP

>> ComP_DUS  Type IV minor pilin ComP, DNA uptake sequence receptor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.7     2e-05      0.09       1      63 [.      19      78 ..      19      97 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 2e-05
                             XXXXXXXHHHHHHHHHHHHHHHHHHHHHHHHHCTS-..S.GGGGTSS-SB-TTSSEEEEEE-T CS
                 ComP_DUS  1 PsYqeyvrkarRaeakaaLleaaqalEryytqngtYasesaaeklassaasqnkyYtitlaka 63
                             P++++y +ka+ +eak +L  + +    + +++ tY   +++  +   ++s+ +yY+i +++ 
  PHY93_16805|PHY93_16805 19 PNFKKYQAKAKQSEAKIQLAAVYSSEVGASADYDTY---ATCLVTLGYEQSPRGYYRIGFSAP 78
                             99**********************************...8888889999*********99433 PP

>> N_methyl  Prokaryotic N-terminal methylation motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   9.0   6.4e-05      0.29      10      26 ..       1      17 [.       1      18 [. 0.94

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 6.4e-05
                 N_methyl 10 iElLvalaIlaillaaa 26
                             +El+v++aI++il+a+a
  PHY93_16805|PHY93_16805  1 VELMVVVAIIGILSAIA 17
                             8**************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (175 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       456  (0.0254337); expected 358.6 (0.02)
Passed bias filter:                      366  (0.0204139); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.37u 0.19s 00:00:00.56 Elapsed: 00:00:00.33
# Mc/sec: 1575.87
//
Query:       PHY93_19390|PHY93_19390  [L=81]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00014   22.1   0.0    0.00018   21.7   0.0    1.3  1  PAS_9     PAS domain
    0.00027   20.9   0.0    0.00033   20.6   0.0    1.2  1  PAS       PAS fold
    0.00031   20.7   0.0    0.00045   20.2   0.0    1.4  1  PAS_8     PAS domain
     0.0034   17.6   0.0      0.005   17.1   0.0    1.4  1  PAS_3     PAS fold
  ------ inclusion threshold ------
      0.031   14.5   0.0      0.037   14.3   0.0    1.1  1  PAS_4     PAS fold
       0.15   12.1   0.0       0.17   11.9   0.0    1.0  1  Focal_AT  Focal adhesion targeting region


Domain annotation for each model (and alignments):
>> PAS_9  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.7   0.0   6.1e-08   0.00018       4      42 ..      28      67 ..      25      81 .] 0.78

  Alignments for each domain:
  == domain 1  score: 21.7 bits;  conditional E-value: 6.1e-08
                    PAS_9  4 ili.dnpdgrilyaNeaalrllGyspeevlgksitdlfvt 42
                             i+i  n dg i+++N+ + +++Gys +ev gk+ + l+ +
  PHY93_19390|PHY93_19390 28 IIIeHNLDGLITSVNDNFFKIFGYSLDEVRGKHHRILCTD 67
                             45557899*777*********************9999922 PP

>> PAS  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.6   0.0   1.1e-07   0.00033      13      46 ..      28      61 ..      15      72 .. 0.80

  Alignments for each domain:
  == domain 1  score: 20.6 bits;  conditional E-value: 1.1e-07
                             EEEEEETTSBEEEECHHHHHHHSSTHHHCTTSBG CS
                      PAS 13 pifvvDedgrilyvNaaaeellGlsreevlgksl 46
                              i+  + dg i+ vN+++ +++G+s +ev gk+ 
  PHY93_19390|PHY93_19390 28 IIIEHNLDGLITSVNDNFFKIFGYSLDEVRGKHH 61
                             4555679************************985 PP

>> PAS_8  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.2   0.0   1.5e-07   0.00045      15      50 ..      29      65 ..      16      80 .. 0.71

  Alignments for each domain:
  == domain 1  score: 20.2 bits;  conditional E-value: 1.5e-07
                    PAS_8 15 av.vdlgdrivdvNqaalellGys.adlkgellgqllp 50
                             ++  +l+++i+ vN+ + +++Gys ++++g+   ++l+
  PHY93_19390|PHY93_19390 29 IIeHNLDGLITSVNDNFFKIFGYSlDEVRGKHH-RILC 65
                             333345678***************988888655.4444 PP

>> PAS_3  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.0   1.7e-06     0.005       2      34 ..      39      69 ..      38      81 .] 0.79

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 1.7e-06
                    PAS_3  2 iyvserveeilGyspeellgkveswldlvhpeD 34
                             ++v++++ +i+Gys +e++gk  +++ l+  e 
  PHY93_19390|PHY93_19390 39 TSVNDNFFKIFGYSLDEVRGK--HHRILCTDEF 69
                             689******************..8888777665 PP

>> PAS_4  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0   1.2e-05     0.037       4      51 ..      25      77 ..      23      81 .] 0.82

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.2e-05
                    PAS_4  4 lpdalavldpdgrvlyaNaaaaelfgappeellGktla.....ellpeedaar 51
                             + ++++  + dg ++ +N ++ ++fg++ +e++Gk+ +     e+l++++ ++
  PHY93_19390|PHY93_19390 25 SVQIIIEHNLDGLITSVNDNFFKIFGYSLDEVRGKHHRilctdEFLSDGHFQE 77
                             6677888899**************************99766666666665554 PP

>> Focal_AT  Focal adhesion targeting region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   5.5e-05      0.17      18      75 ..       3      61 ..       1      68 [. 0.83

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 5.5e-05
                 Focal_AT 18 vvkavvelsqevetakaeeyvslvksvg.lelrkLltsvdellsslpasarreielaek 75
                               kav++ s+eve  +  + ++ v+ +   +l  L+tsv++ + ++   +  e+ + ++
  PHY93_19390|PHY93_19390  3 ALKAVINQSNEVELNSIYQALNSVQIIIeHNLDGLITSVNDNFFKIFGYSLDEVRGKHH 61
                             579*********************9865167********99888887888888887764 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (81 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       677  (0.0377601); expected 358.6 (0.02)
Passed bias filter:                      508  (0.028334); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.43u 0.24s 00:00:00.67 Elapsed: 00:00:00.42
# Mc/sec: 579.94
//
Query:       PHY93_19395|PHY93_19395  [L=495]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.03   14.4   5.3        1.5    8.9   0.0    3.5  3  TaqI_C    TaqI-like C-terminal specificity domain


Domain annotation for each model (and alignments):
>> TaqI_C  TaqI-like C-terminal specificity domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   1.5    0.0032        58      42      88 ..     203     252 ..     132     287 .. 0.71
   2 ?    1.2   0.1      0.02   3.7e+02      26      96 ..     284     354 ..     258     367 .. 0.68
   3 ?    8.9   0.0   8.6e-05       1.5      35      82 ..     391     438 ..     370     441 .. 0.85

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.0032
                   TaqI_C  42 Kilvrdiskkldaaydekayyvlntlylliakdele.....vslkyllgiLN 88 
                              + ++++  k+++ ++de++y+v  ++y  + ++  +     v+lkyl+ +LN
  PHY93_19395|PHY93_19395 203 R-ILQFAVKTMEGVLDEEGYLVADSIYQYTLNECYKffvkiVQLKYLI-LLN 252
                              3.4578889999***************999777666888888888876.566 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.02
                   TaqI_C  26 kklkneka..kelfeekpKilvrdiskkldaaydekayyvlntlylliakdelevslkyllgiLNSklikfyy 96 
                              ++l++ek    ++f  + Ki+v   s+ ++  ++  +   + t yl    +++  +l++l g+ NS    f++
  PHY93_19395|PHY93_19395 284 TELQSEKYqnYDVFDFRLKIVVLARSSDVNSCIEWTGEDLRLTNYLSSPLKNN--QLDLLAGVVNSPEGVFFL 354
                              33333332334455578899999999999988888888888888888877766..899999999997666665 PP

  == domain 3  score: 8.9 bits;  conditional E-value: 8.6e-05
                   TaqI_C  35 elfeekpKilvrdiskkldaaydekayyvlntlylliakdelevslky 82 
                                fe+  Ki+++  s k++++y    y+++n++  +  ++++ + +++
  PHY93_19395|PHY93_19395 391 ASFENVRKIITKLRSLKMHITYTAGRYFFQNNFTSILFTNKFLIGDQL 438
                              5688999*****************************999887665555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (495 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       782  (0.0436165); expected 358.6 (0.02)
Passed bias filter:                      357  (0.0199119); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.19s 00:00:00.73 Elapsed: 00:00:00.38
# Mc/sec: 3947.16
//
Query:       PHY93_19400|PHY93_19400  [L=365]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.4e-15   56.6   0.1    6.5e-15   55.3   0.1    1.7  1  PAS_9        PAS domain
    9.9e-14   51.8   0.1    3.6e-13   50.0   0.0    2.0  2  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    1.8e-12   47.4   0.1    3.1e-12   46.6   0.1    1.4  1  PAS_3        PAS fold
    2.7e-10   40.2   0.0    8.4e-10   38.6   0.0    1.8  1  PAS          PAS fold
    1.3e-07   31.5   0.3    3.9e-07   30.0   0.1    1.9  2  HisKA        His Kinase A (phospho-acceptor) domain
    9.5e-07   28.7   0.1    2.8e-06   27.2   0.1    1.8  1  HATPase_c_5  GHKL domain
    2.4e-06   27.4   0.1    0.00012   22.0   0.0    2.3  2  PAS_8        PAS domain
    5.4e-06   26.6   0.0    1.1e-05   25.7   0.0    1.4  1  PAS_4        PAS fold
    1.3e-05   24.8   0.2    3.1e-05   23.7   0.2    1.5  1  PAS_12       UPF0242 C-terminal PAS-like domain
     0.0086   15.2   0.4      0.013   14.6   0.4    1.2  1  TAP42        TAP42-like family
  ------ inclusion threshold ------
      0.033   14.0   1.8      0.035   13.9   0.1    1.9  2  HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like


Domain annotation for each model (and alignments):
>> PAS_9  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.3   0.1     4e-18   6.5e-15       4     104 .]      21     122 ..      18     122 .. 0.92

  Alignments for each domain:
  == domain 1  score: 55.3 bits;  conditional E-value: 4e-18
                    PAS_9   4 ili.dnpdgrilyaNeaalrllGyspeevlgksitdlf..vtdpeanerlraaleqgrkkerevevvlirkngetfwvlltaspvk 86 
                              i+  ++++gri++aN+ ++++ Gys ee+l+++ + l   ++++e  +++ +al +g+   +++e+ + +kng+++wv+  +++++
  PHY93_19400|PHY93_19400  21 IIAyTDKQGRITFANKNFCEISGYSLEELLHQDHRILNsgHHNSEFFKEMYQALLSGK--IWRGEICNKNKNGGYYWVDSQVFAIM 104
                              444589********************************88888888888888888888..************************** PP

                    PAS_9  87 dddgelvgiivilrDite 104
                              ++d+ + ++++i  Dite
  PHY93_19400|PHY93_19400 105 NEDNHIASYASIRFDITE 122
                              *****************8 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.1       2.2   3.6e+03      12      34 ..     158     187 ..     153     231 .. 0.59
   2 !   50.0   0.0   2.2e-16   3.6e-13       4     110 ..     253     358 ..     250     360 .. 0.83

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 2.2
                              HHHHHHHHH.....HSTTTEEEEEEEE..E CS
                HATPase_c  12 nlvdNavkf.....atkageieveika..s 34 
                              +lv+ ++ +      ++ +++ev+i++  +
  PHY93_19400|PHY93_19400 158 ELVSKSLLNemkkeVPDINHVEVKINKitK 187
                              444444443111112244477777775431 PP

  == domain 2  score: 50.0 bits;  conditional E-value: 2.2e-16
                              HHHHHHHHHHHHHHHHHHSTTTEEEEEEEE.EE...TEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHHH CS
                HATPase_c   4 krLrqiisnlvdNavkfatkageieveika.se...ddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkklv 85 
                              +++ qi+ nl+ Na ++  +++e ++e+++ s+   + l i + D+G Gi   + kk+ ++f +   tk  g+gtGlGlsi+  ++
  PHY93_19400|PHY93_19400 253 DQISQILLNLINNAQDAIWTNKERWIELSVnSDdhlNILYINIIDSGEGIADHIAKKILDPFFT---TKEVGKGTGLGLSISATIA 335
                              7899************9445556666666632236778888***********************...88889************99 PP

                              HHTTTEEEEEEETTTEEEEEEEEES CS
                HATPase_c  86 elmgGeiwvesepgrGttftftlpl 110
                              +  +G++++ +++   t f++++p+
  PHY93_19400|PHY93_19400 336 R-DNGRLYY-EKKRNNTAFVLEIPM 358
                              9.689****.445578889999987 PP

>> PAS_3  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.6   0.1   1.9e-15   3.1e-12       2      86 ..      32     114 ..      31     117 .. 0.93

  Alignments for each domain:
  == domain 1  score: 46.6 bits;  conditional E-value: 1.9e-15
                    PAS_3   2 iyvserveeilGyspeellgkveswldlvhpeDrervrealqealkkgepyegeyRirrkdGeyrwveararvirdengkpvrvi 86 
                              ++++++++ei Gys eell++  +++ l      +++++++ +al +g+ + ge+  ++k+G+y+wv++++++i +e++++  + 
  PHY93_19400|PHY93_19400  32 TFANKNFCEISGYSLEELLHQ--DHRILNSGHHNSEFFKEMYQALLSGKIWRGEICNKNKNGGYYWVDSQVFAIMNEDNHIASYA 114
                              799******************..999999999999***************************************99999887766 PP

>> PAS  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.6   0.0   5.2e-13   8.4e-10      14     102 ..      22     109 ..      12     117 .. 0.91

  Alignments for each domain:
  == domain 1  score: 38.6 bits;  conditional E-value: 5.2e-13
                              EEEEETTSBEEEECHHHHHHHSSTHHHCTTSBGGGGBSTTHHHHHHHHHHHHHHHTT-ECCCCEEEECTTSSEEEEEEEEEEEEET CS
                      PAS  14 ifvvDedgrilyvNaaaeellGlsreevlgkslldliheeddaelaelleqlleqgeesrageisfklrdgrpihlevraspvrda 99 
                              i  +D++gri+++N++++e+ G+s ee+l++   +l +  +++e+ +++ q+l++g+ +r++  + ++ +g++++++ ++  ++++
  PHY93_19400|PHY93_19400  22 IAYTDKQGRITFANKNFCEISGYSLEELLHQDHRILNSGHHNSEFFKEMYQALLSGKIWRGEICNKNK-NGGYYWVDSQVFAIMNE 106
                              67899********************************************************6666666.***********999999 PP

                              TEE CS
                      PAS 100 gge 102
                              +  
  PHY93_19400|PHY93_19400 107 DNH 109
                              874 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.0   0.1   2.4e-10   3.9e-07       1      65 [.     138     206 ..     138     208 .. 0.85
   2 ?   -1.9   0.0       2.2   3.6e+03      40      60 ..     292     312 ..     275     313 .. 0.81

  Alignments for each domain:
  == domain 1  score: 30.0 bits;  conditional E-value: 2.4e-10
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHC......T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHH CS
                    HisKA   1 slgrflagvaHELrtPLsailgnaeaLkre....gklteelkeyletiesearrldhlvedlLdlsrie 65 
                              slg+  a vaHE+++PL+ i + ++ L +e    ++    ++  +++i ++++++ ++v  l ++sr +
  PHY93_19400|PHY93_19400 138 SLGEISAVVAHEINNPLAIIELVSKSLLNEmkkeVPDINHVEVKINKITKSTNQIAKIVRGLKTISRNG 206
                              68999**********************7754455444455555*******************9999976 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 2.2
                              HHHHHHHHHHHHHHHHHHHHH CS
                    HisKA  40 yletiesearrldhlvedlLd 60 
                              y+++i s++   dh+ + +Ld
  PHY93_19400|PHY93_19400 292 YINIIDSGEGIADHIAKKILD 312
                              888999999999999999988 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.2   0.1   1.7e-09   2.8e-06       4      98 ..     253     356 ..     250     358 .. 0.75

  Alignments for each domain:
  == domain 1  score: 27.2 bits;  conditional E-value: 1.7e-09
              HATPase_c_5   4 ldlcvilgnlLdNAieacskieeekrfIrltvrekk..ksliisieNsyeg.......ek.kklesskskkeehGiGlksireivk 79 
                                ++ il nl++NA +a  + +  +r I+l+v++++  + l+i+i  s eg       ++ + ++++k+ ++  G+Gl si+ ++ 
  PHY93_19400|PHY93_19400 253 DQISQILLNLINNAQDAIWTNK--ERWIELSVNSDDhlNILYINIIDSGEGiadhiakKIlDPFFTTKEVGKGTGLGL-SISATIA 335
                              67899*************9988..8********998444588888888777766554322566779999999999999.5777777 PP

              HATPase_c_5  80 kykgnlsiea..edglFtlsv 98 
                              + +g l +e+  +++ F l++
  PHY93_19400|PHY93_19400 336 RDNGRLYYEKkrNNTAFVLEI 356
                              777777765511455777665 PP

>> PAS_8  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.0   0.0   7.2e-08   0.00012      10      60 ..      17      68 ..       7      77 .. 0.70
   2 ?    2.9   0.2     0.072   1.2e+02       5      27 ..     261     294 ..     257     294 .. 0.70

  Alignments for each domain:
  == domain 1  score: 22.0 bits;  conditional E-value: 7.2e-08
                    PAS_8 10 spdgiav.vdlgdrivdvNqaalellGys.adlkgellgqllpvlrplledae 60
                             s ++i+  +d ++ri+++N+ ++e+ Gys ++l+ ++  ++l+  + + e+ +
  PHY93_19400|PHY93_19400 17 SEVAIIAyTDKQGRITFANKNFCEISGYSlEELLHQDH-RILNSGHHNSEFFK 68
                             34577753454448***************666665555.67766666666544 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.072
                    PAS_8   5 alfesspdgiav.........vdlgd..rivdvN 27 
                              +l+++++d+i+          v+ +d  +i+++N
  PHY93_19400|PHY93_19400 261 NLINNAQDAIWTnkerwielsVNSDDhlNILYIN 294
                              689********76666666665544446677777 PP

>> PAS_4  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.7   0.0   6.5e-09   1.1e-05       6     110 .]      20     125 ..      17     125 .. 0.91

  Alignments for each domain:
  == domain 1  score: 25.7 bits;  conditional E-value: 6.5e-09
                    PAS_4   6 dalavldpdgrvlyaNaaaaelfgappeellGktlaellpeedaarleralrrvlegeepiefleelll.pgeerhyelrllPlrd 90 
                              +++a+ d++gr+++aN++++e+ g++ eell +  + l + ++  ++   + ++l +++ ++ +++ +  +g+  +++ +++ + +
  PHY93_19400|PHY93_19400  20 AIIAYTDKQGRITFANKNFCEISGYSLEELLHQDHRILNSGHHNSEFFKEMYQALLSGKIWRGEICNKNkNGGYYWVDSQVFAIMN 105
                              578999*************************9988855555599999999999999999*****99999***************** PP

                    PAS_4  91 esGevigvlvisrDiTerrr 110
                              e+  +  +  i  DiTe +r
  PHY93_19400|PHY93_19400 106 EDNHIASYASIRFDITEKKR 125
                              ****999999999***9986 PP

>> PAS_12  UPF0242 C-terminal PAS-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.7   0.2   1.9e-08   3.1e-05      55     135 ..      17     100 ..      12     106 .. 0.81

  Alignments for each domain:
  == domain 1  score: 23.7 bits;  conditional E-value: 1.9e-08
                   PAS_12  55 nlgailvysqkenkllfaNaqirallGwssdkflqdfseivqeglee...WkralaklsskteskirlvlKtKagqevllncll 135
                               + ai+ y+ k+ ++ faN+++ ++ G+s +++l++ + i++ g ++   +k+  ++l s +  ++++  K+K+g+   +  ++
  PHY93_19400|PHY93_19400  17 SEVAIIAYTDKQGRITFANKNFCEISGYSLEELLHQDHRILNSGHHNsefFKEMYQALLSGKIWRGEICNKNKNGGYYWVDSQV 100
                              56789*************************************997642325666777788888888999999988876666665 PP

>> TAP42  TAP42-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.6   0.4     8e-06     0.013      21      73 ..     172     224 ..     156     235 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 8e-06
                              -TTSHHHHHHHHHHHHHHHHHHHHHHHHTTT-SSS-CCCS-TTTGGGGGHHHH CS
                    TAP42  21 psnseeyqekvkkaiaalekaaklvsqlslFSsNEsledistsdLkyLlvpyy 73 
                               ++ + ++ k++k+ ++ +++ak+v+ l+ +S+N +led s  +Lk ++v+++
  PHY93_19400|PHY93_19400 172 VPDINHVEVKINKITKSTNQIAKIVRGLKTISRNGNLEDFSEINLKNFMVDAL 224
                              677788999*****************************************986 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.2       1.4   2.3e+03       6      34 ..     155     190 ..     150     196 .. 0.64
   2 ?   13.9   0.1   2.2e-05     0.035       7      62 ..     259     319 ..     254     352 .. 0.85

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 1.4
              HATPase_c_3   6 AlaelvdNsldAdaen.......vkievnknrgktg 34 
                              A++elv  sl  ++++       v++++nk  ++t+
  PHY93_19400|PHY93_19400 155 AIIELVSKSLLNEMKKevpdinhVEVKINKITKSTN 190
                              777777777776666666666667777766655444 PP

  == domain 2  score: 13.9 bits;  conditional E-value: 2.2e-05
              HATPase_c_3   7 laelvdNsldAdaen....vkievnknr.gktgeivieDdGkGmseeelknalrlatsske 62 
                              l+ l++N+ dA  +n    ++++vn ++  +   i i D G+G+     k+ l +  ++ke
  PHY93_19400|PHY93_19400 259 LLNLINNAQDAIWTNkerwIELSVNSDDhLNILYINIIDSGEGIADHIAKKILDPFFTTKE 319
                              899************9***99999987745679************9999999998888877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (365 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       790  (0.0440627); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.40
# Mc/sec: 2707.70
//
Query:       PHY93_19405|PHY93_19405  [L=802]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.2e-17   62.6   0.0    6.8e-17   61.5   0.0    1.6  1  Peptidase_S41  Peptidase family S41
     0.0038   15.6   0.1     0.0092   14.4   0.1    1.6  1  Peptidase_M6   Immune inhibitor A peptidase M6
  ------ inclusion threshold ------
       0.78    9.8   2.6        2.3    8.3   2.6    1.9  1  Ibs_toxin      Toxin Ibs, type I toxin-antitoxin system


Domain annotation for each model (and alignments):
>> Peptidase_S41  Peptidase family S41
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.5   0.0   1.1e-20   6.8e-17       2     164 ..     326     538 ..     325     540 .. 0.72

  Alignments for each domain:
  == domain 1  score: 61.5 bits;  conditional E-value: 1.1e-20
                              EEEEEES-BCC..THHHHHHHHHHHHHH..TTSSEEEEE-TTB-EBEHHHHHHHHHCCSSSSEEEEEECTTSEEE........... CS
            Peptidase_S41   2 iGyiripsfse..ktkeelakalkelkk..knvkglilDlRnNgGGlldeavelaslflddglivstrgrdgkkk........... 72 
                               Gy++++sf++    +  ++++ + l+k  +++++l++DlR+N GG+++ a  +a l+++  +  +   +++ ++           
  PHY93_19405|PHY93_19405 326 FGYLKLQSFDAekGVNAAVSEVSSVLRKnlSETSALVIDLRGNYGGQISFAELMATLLTPMPVR-PLPFYIRANDlilvlfnedat 410
                              7********4445334444444444444669*****************9999999888884433.344444444446677777777 PP

                              ....................EEEHTCSS-S.......TT-BSSEEEEEE-TTBBTHHHHHHHHHHHTTSEEEEES-..-SB-EEEE CS
            Peptidase_S41  73 ....................kksktekase.......evqykgplvvLvnegsaSaseifagalkdngratlvGer..tfGkgtvq 129
                                                  +        +       ++ y g++v+L+n +++S+ + fa+ +kdn  +t+ G+   tfG+g   
  PHY93_19405|PHY93_19405 411 wkdliypnietnhlvgpgvlT--------TqmeltssSQVYFGKVVLLTNSECFSSCDLFAATMKDNAKVTIYGTDhsTFGGGANV 488
                              777777777777777666541........03333344678***********************************9899**99999 PP

                              EEEE-..TT............SSEEEEEEEEEEETTSBC.TTTTS---SE CS
            Peptidase_S41 130 svvel..nd............gsalkltiakyltpdgrs.iekkGvePdi 164
                              +++++  +             + ++++t  ++ +++ +  ie  Gv+ di
  PHY93_19405|PHY93_19405 489 WSIDYlaPVfkalnipatlpqNVGMRVTGRHAHRQKTNLlIEDLGVATDI 538
                              98888651144444555555588888888888888888888888888887 PP

>> Peptidase_M6  Immune inhibitor A peptidase M6
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.1   1.5e-06    0.0092     431     467 ..     765     801 ..     706     802 .] 0.84

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 1.5e-06
             Peptidase_M6 431 idakydLsayaGkkveLkfdyltDgglamkGfavDdl 467
                              ++ +++L++yaGkk+++kf+ + D +++ kG  v +l
  PHY93_19405|PHY93_19405 765 GHFEFNLDKYAGKKIDIKFRLTSDEAGSGKGAIVSNL 801
                              5678***************************999887 PP

>> Ibs_toxin  Toxin Ibs, type I toxin-antitoxin system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   2.6   0.00039       2.3       2      18 ..       1      16 [.       1      17 [. 0.85

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.00039
                Ibs_toxin  2 MKLVIILVVLLlISFpA 18
                             M  +I+ V+LL +SF+A
  PHY93_19405|PHY93_19405  1 MQKLIV-VILLSLSFSA 16
                             666788.*********9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (802 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       594  (0.0331307); expected 358.6 (0.02)
Passed bias filter:                      399  (0.0222544); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.67u 0.28s 00:00:00.95 Elapsed: 00:00:00.44
# Mc/sec: 5535.88
//
Query:       PHY93_19410|PHY93_19410  [L=471]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.8e-67  223.2   8.4      3e-23   82.0   0.7    3.4  3  CheW      CheW-like domain


Domain annotation for each model (and alignments):
>> CheW  CheW-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.1   0.1   5.5e-26   9.8e-22      18     133 ..       2     119 ..       1     130 [. 0.93
   2 !   82.0   0.7   1.7e-27     3e-23       2     135 ..     152     287 ..     151     290 .. 0.96
   3 !   67.7   0.2   4.4e-23   7.9e-19       3     102 ..     322     422 ..     320     465 .. 0.85

  Alignments for each domain:
  == domain 1  score: 77.1 bits;  conditional E-value: 5.5e-26
                              GEEEEEECCT..BTTTTSSTTEEEEEEETTEEEEEEEHHHHCTSSSSTTSTCEEEEEEEETTEEEEEEESEEEEEEEEECCGEETT CS
                     CheW  18 kvreilevpp.itpipgapgavlgvinlrGevipvidLrellglgpeesrentrvivvelgnqvvGllVdevkgiqeivikqiepp 102
                              ++ e++ +p+ i ++p ap+++lgv+nlrG +ip+i+L++ll ++  e ++++++ +v++++ +vGll d+ ++i+++++k+i++ 
  PHY93_19410|PHY93_19410   2 AIHEVVNLPEkIIKMPLAPNFLLGVFNLRGLIIPIINLKALLKFDDYEISSSQKIAIVDHEGAKVGLLFDSTSEILRVNQKDISEF 87 
                              699*****888*************************************************************************** PP

                              TSSTSSTCCCEEEEEECTTS.EEEEEE-CCCH CS
                     CheW 103 lglssdlagyisGatklgdg.rlvliLDveal 133
                                 s+++ ++isGa+kl+ g r+++i+ + al
  PHY93_19410|PHY93_19410  88 SYSSENSHKVISGAIKLDSGsRILQIIAPFAL 119
                              6668999999*******888667777766555 PP

  == domain 2  score: 82.0 bits;  conditional E-value: 1.7e-27
                              EEEEEETTEEEEEEGGGEEEEEECCT.BTTTTSSTTEEEEEEETTEEEEEEEHHHHCTSSSSTT..STCEEEEEEEETTEEEEEEE CS
                     CheW   2 lllfrlgeetyaiplakvreilevppitpipgapgavlgvinlrGevipvidLrellglgpees..rentrvivvelgnqvvGllV 85 
                              ++ f+++e +++++++ + ei++vp+i++   +++ + g++nlrG+++p+i L++llg +++++   e++r+iv++++++ +GllV
  PHY93_19410|PHY93_19410 152 CISFSINEIKMGFEISGIHEIIKVPEIQKSAIQNDLCVGMVNLRGQTVPIIELAALLGARQDDErkVEDRRIIVLKIEQELFGLLV 237
                              789***********************************************************999999****************** PP

                              SEEEEEEEEECCGEETTTSSTSSTCCCEEEEEECTTSEEEEEE-CCCHHH CS
                     CheW  86 devkgiqeivikqiepplglssdlagyisGatklgdgrlvliLDveallr 135
                              d+v+ i ++ i++i p + ls+  ++ + G++ lgd   v++L+ +++l+
  PHY93_19410|PHY93_19410 238 DAVESINTYLISEIMPIPLLSNTRSKIFLGCISLGDIGDVILLNYQEVLT 287
                              *****************8899999***********999999**9999986 PP

  == domain 3  score: 67.7 bits;  conditional E-value: 4.4e-23
                              EEEEETTEEEEEEGGGEEEEEEC.CT.BTTTTSSTTEEEEEEETTEEEEEEEHHHHCTSSSSTT.STCEEEEEEEETTEEEEEEES CS
                     CheW   3 llfrlgeetyaiplakvreilev.ppitpipgapgavlgvinlrGevipvidLrellglgpees.rentrvivvelgnqvvGllVd 86 
                              + f+l ++ +++ +  +rei+ + ++i + pg+p++v+g++nlrG++i +id r+l  +++++   +n++v++ e+g++++Gl+Vd
  PHY93_19410|PHY93_19410 322 ISFKL-DHLFGVSIKDIREIINYsDEIISAPGMPSFVKGILNLRGKLITIIDTRSLYVMNQSKVeVQNSKVLIFESGEERFGLIVD 406
                              66777.889**************666***********************************99999******************** PP

                              EEEEEEEEECCGEETT CS
                     CheW  87 evkgiqeivikqiepp 102
                              +v+ i++++ ++  + 
  PHY93_19410|PHY93_19410 407 SVESILTVDDDKKMKV 422
                              ********98876555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (471 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       637  (0.035529); expected 358.6 (0.02)
Passed bias filter:                      384  (0.0214178); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.39
# Mc/sec: 3585.35
//
Query:       PHY93_10820|PHY93_10820  [L=442]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (442 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       727  (0.0405488); expected 358.6 (0.02)
Passed bias filter:                      327  (0.0182386); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.21s 00:00:00.71 Elapsed: 00:00:00.37
# Mc/sec: 3549.06
//
Query:       PHY93_10825|PHY93_10825  [L=270]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      2e-21   76.4   0.0      3e-21   75.9   0.0    1.2  1  DUF4423   Domain of unknown function (DUF4423)
    1.6e-05   24.7   0.1       0.11   12.4   0.0    2.5  2  TrmB      Sugar-specific transcriptional regulator TrmB
      0.006   16.4   0.0       0.24   11.3   0.0    2.8  3  RuvB_C    RuvB C-terminal winged helix domain
  ------ inclusion threshold ------
      0.058   13.3   0.0       0.14   12.1   0.0    1.6  1  CemA      CemA family
      0.081   13.3   0.2        0.4   11.1   0.1    2.0  2  HTH_31    Helix-turn-helix domain
       0.11   12.5   0.0       0.27   11.2   0.0    1.6  1  HTH_45    Winged helix-turn-helix


Domain annotation for each model (and alignments):
>> DUF4423  Domain of unknown function (DUF4423)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   75.9   0.0   9.9e-25     3e-21       7     167 ..     115     269 ..     110     269 .. 0.93

  Alignments for each domain:
  == domain 1  score: 75.9 bits;  conditional E-value: 9.9e-25
                  DUF4423   7 irkLdeeefe.yfssWyypvirellplkdfkadpeelakrlrpkisaeevekalefLlklgllkkdedgkyrqtekslttssevks 91 
                              +++L++e+ + y+s Wyy +++ +  ++   ++ +++a+ l+  ++a + +++lefL+++gl+k+  dg+y+  e +l+   +  s
  PHY93_10825|PHY93_10825 115 KQVLSKEDQAtYYSLWYYAAVHVMTGIPAL-QTKSAMAQELG--LPANKLAEILEFLVNTGLVKEVPDGRYHTGEGKLH--LKKDS 195
                              57888888877*******************.***********..***********************************..55568 PP

                  DUF4423  92 eavrsyhkqmlelAiealervpkeeRdissltlaiskedyekikkeirefrkkilaiaeeskeaerVyqLnlqlFp 167
                               ++  +h+++ ++Ai+++e  + e     s+ l++sk+d + ++ +i++f++++++++  s+  e+  +L +++F+
  PHY93_10825|PHY93_10825 196 RMILRHHSNWRTQAIRSME-KDLESGIHYSVLLNCSKKDANILRSMIAKFIQDFMNVVHPSSD-EEMNCLVIDFFN 269
                              899****************.6777777777888******************************.*********996 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.7   0.1   0.00026      0.78       3      46 ..      65     108 ..      64     135 .. 0.85
   2 !   12.4   0.0   3.6e-05      0.11      26      58 ..     148     180 ..     144     184 .. 0.86

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.00026
                              HCHHHHHCCCHCHHHHHHCCCHHCHHCCCTTSSCHCHHHHHHHH CS
                     TrmB   3 klGLseyEakvYlaLlklgpatadeiaeelgvprskvYevLrsL 46 
                              +lGLs+ E + +l L+++ +a ++ +  + ++  ++++e   sL
  PHY93_10825|PHY93_10825  65 HLGLSQDENSYFLLLVQYSRAGTQSLRAHFKRNIATAQEERLSL 108
                              69****************************99999999855555 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 3.6e-05
                              CHHCCCTTSSCHCHHHHHHHHHHCTSEEEESST CS
                     TrmB  26 deiaeelgvprskvYevLrsLedkGlVerekgr 58 
                              +  a+elg+p +k  e+L+ L++ GlV+ ++  
  PHY93_10825|PHY93_10825 148 SAMAQELGLPANKLAEILEFLVNTGLVKEVPDG 180
                              67799***********************98854 PP

>> RuvB_C  RuvB C-terminal winged helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.0      0.11   3.2e+02       2      27 ..      66      88 ..      65     103 .. 0.74
   2 !   11.3   0.0   7.9e-05      0.24      28      72 .]     149     192 ..     146     192 .. 0.94
   3 ?   -1.0   0.0      0.56   1.7e+03       5      21 ..     230     246 ..     229     251 .. 0.82

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.11
                             T---HHHHHHHHHHHHT.TT--B-HH CS
                   RuvB_C  2 lGLdeldikyLkllkekfkggpvglk 27
                             lGL++ + +y  ll + +  + +g +
  PHY93_10825|PHY93_10825 66 LGLSQDENSYFLLLVQ-Y--SRAGTQ 88
                             7**********99984.4..344444 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 7.9e-05
                              HHHHHTT--HHHHHHTTHHHHHHTTSEEEETTEEEE-HHHHHHHH CS
                   RuvB_C  28 tlaailgeeketiedviEPyLlkeglIertsrGRilTkkglkylk 72 
                              ++a+ lg++ +++ ++ E +L+++gl++  + GR  T +g+ +lk
  PHY93_10825|PHY93_10825 149 AMAQELGLPANKLAEILE-FLVNTGLVKEVPDGRYHTGEGKLHLK 192
                              679999********9999.9*********************9996 PP

  == domain 3  score: -1.0 bits;  conditional E-value: 0.56
                              -HHHHHHHHHHHHT.TT CS
                   RuvB_C   5 deldikyLkllkekfkg 21 
                              +++d ++L++++ kf +
  PHY93_10825|PHY93_10825 230 SKKDANILRSMIAKFIQ 246
                              57899****99999965 PP

>> CemA  CemA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   4.5e-05      0.14      71     143 ..     172     246 ..     131     252 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 4.5e-05
                     CemA  71 eligeape..lseeeieeelkekaeelakeyreesseaiknifadlvsliafvvllllskeeleilksfldevly 143
                               l++e p+   ++ e + +lk+  + + ++ ++ +++ai+ +  dl s i ++vll  sk++ +il+s++ ++++
  PHY93_10825|PHY93_10825 172 GLVKEVPDgrYHTGEGKLHLKKDSRMILRHHSNWRTQAIRSMEKDLESGIHYSVLLNCSKKDANILRSMIAKFIQ 246
                              345555544456777788999999**********************************************99986 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.1   0.00013       0.4      19      60 ..      32      72 ..      24      75 .. 0.87
   2 ?   -1.1   0.0      0.81   2.4e+03      18      62 ..     148     162 ..     140     165 .. 0.54

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00013
                   HTH_31 19 evAerlgvsestlsrlEqGrrgrpspavlealaralgldpae 60
                              +A ++ +  s+lsr+++G+ +  s+++ + + r lgl+++e
  PHY93_10825|PHY93_10825 32 SLAVAIPCQTSYLSRVMSGESD-LSLEQADCAGRHLGLSQDE 72
                             578888899************7.***************9997 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.81
                   HTH_31  18 eevAerlgvsestlsrlEqGrrgrpspavlealaralgldpaera 62 
                               +                              +a+ lgl+ + +a
  PHY93_10825|PHY93_10825 148 SA------------------------------MAQELGLPANKLA 162
                              44..............................5555555544443 PP

>> HTH_45  Winged helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   9.2e-05      0.27      20      68 ..     145     193 ..     137     200 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 9.2e-05
                   HTH_45  20 akkTkimykanLsykllnkYLdmLvekglikkskekYvlTekGlellek 68 
                              ++k+++  +  L  + l + L++Lv+ gl+k+  +  + T +G+  l+k
  PHY93_10825|PHY93_10825 145 QTKSAMAQELGLPANKLAEILEFLVNTGLVKEVPDGRYHTGEGKLHLKK 193
                              6799999999********************9966666678889887776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (270 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       525  (0.0292822); expected 358.6 (0.02)
Passed bias filter:                      442  (0.0246528); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.47u 0.17s 00:00:00.64 Elapsed: 00:00:00.35
# Mc/sec: 2304.39
//
Query:       PHY93_10830|PHY93_10830  [L=50]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (50 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       468  (0.026103); expected 358.6 (0.02)
Passed bias filter:                      312  (0.017402); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.36u 0.24s 00:00:00.60 Elapsed: 00:00:00.39
# Mc/sec: 385.32
//
Query:       PHY93_10835|PHY93_10835  [L=273]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
       0.05   13.7   0.2       0.23   11.6   0.1    2.3  2  Bac_small_YrzI  Probable sporulation protein (Bac_small_yrzI)


Domain annotation for each model (and alignments):
>> Bac_small_YrzI  Probable sporulation protein (Bac_small_yrzI)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.1   1.3e-05      0.23       5      32 ..     134     163 ..     133     176 .. 0.72
   2 ?   -2.5   0.0      0.33     6e+03      28      35 ..     196     203 ..     194     205 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 1.3e-05
           Bac_small_YrzI   5 lFFLTITIqKRkyseeEie..reqqiekie 32 
                              ++FL +T++++ +se+E+   ++++ e + 
  PHY93_10835|PHY93_10835 134 FLFLILTLSRKGISENELSiyHFEKMEIAL 163
                              89***************6422666666555 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 0.33
           Bac_small_YrzI  28 iekieeem 35 
                               +ki++++
  PHY93_10835|PHY93_10835 196 LKKIYDKI 203
                              699**998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (273 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       414  (0.0230911); expected 358.6 (0.02)
Passed bias filter:                      286  (0.0159518); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.19s 00:00:00.64 Elapsed: 00:00:00.37
# Mc/sec: 2209.52
//
Query:       PHY93_10840|PHY93_10840  [L=73]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (73 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       524  (0.0292264); expected 358.6 (0.02)
Passed bias filter:                      405  (0.0225891); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.34u 0.21s 00:00:00.55 Elapsed: 00:00:00.34
# Mc/sec: 643.69
//
Query:       PHY93_16810|PHY93_16810  [L=273]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0086   16.7   0.7        1.7    9.5   0.1    2.8  2  TPR_6     Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.012   15.7   1.3       0.28   11.3   0.0    3.2  4  DpnI_C    Dam-replacing HTH domain


Domain annotation for each model (and alignments):
>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.5   0.1   0.00019       1.7      10      32 ..     149     171 ..     148     172 .. 0.92
   2 !    4.6   0.0    0.0069        62      12      31 ..     185     204 ..     179     205 .. 0.87

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00019
                              HHHHHHHHHHHHHHHHHHHH-TT CS
                    TPR_6  10 yrklgdtdkAlealerlikeYPd 32 
                              +++++d+d+A +  + l k++P+
  PHY93_16810|PHY93_16810 149 FFEAKDYDRAYQVTQVLKKKFPN 171
                              57889*****************8 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.0069
                              HHHHHHHHHHHHHHHHHH-T CS
                    TPR_6  12 klgdtdkAlealerlikeYP 31 
                              + g+ ++Al  l++  k+YP
  PHY93_16810|PHY93_16810 185 ENGRLEDALSSLDEYQKSYP 204
                              4689**************** PP

>> DpnI_C  Dam-replacing HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.1      0.56     5e+03       4      17 ..      86      99 ..      67     108 .. 0.51
   2 ?    2.1   0.1     0.024   2.1e+02      26      42 ..     158     174 ..     150     179 .. 0.85
   3 ?   11.3   0.0   3.1e-05      0.28      11      50 ..     177     216 ..     173     223 .. 0.92
   4 ?   -2.4   0.0      0.61   5.5e+03      10      23 ..     226     239 ..     222     245 .. 0.75

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 0.56
                             HHHHHHHHHHHHS- CS
                   DpnI_C  4 gWlldilkcidkle 17
                             +W++  ++ i +le
  PHY93_16810|PHY93_16810 86 SWMFRRFNSITNLE 99
                             34444444444443 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.024
                              HHTTHHHHHHHSTT-S- CS
                   DpnI_C  26 iykfeeeLkekhpkNnf 42 
                               y+ ++ Lk+k+p+ ++
  PHY93_16810|PHY93_16810 158 AYQVTQVLKKKFPNKTH 174
                              6999*********9877 PP

  == domain 3  score: 11.3 bits;  conditional E-value: 3.1e-05
                              HHHHHS-SSEEEHHHHHTTHHHHHHHSTT-S-HHHHHHHH CS
                   DpnI_C  11 kcidklekkeFtlediykfeeeLkekhpkNnfikdKirqq 50 
                               +i kle ++  led ++  +e ++ +p+ n i dKi q 
  PHY93_16810|PHY93_16810 177 GMITKLEAENGRLEDALSSLDEYQKSYPRGNIIGDKIYQN 216
                              6799*********************************995 PP

  == domain 4  score: -2.4 bits;  conditional E-value: 0.61
                              HHHHHHS-SSEEEH CS
                   DpnI_C  10 lkcidklekkeFtl 23 
                              l+c+++l+k++  +
  PHY93_16810|PHY93_16810 226 LNCLNNLKKADCAR 239
                              78999999876555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (273 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       536  (0.0298957); expected 358.6 (0.02)
Passed bias filter:                      349  (0.0194657); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.18s 00:00:00.63 Elapsed: 00:00:00.35
# Mc/sec: 2327.68
//
Query:       PHY93_10845|PHY93_10845  [L=120]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.3e-16   59.1   0.0    4.7e-16   58.9   0.0    1.1  1  Response_reg  Response regulator receiver domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.9   0.0   2.6e-20   4.7e-16       1      84 [.       3      88 ..       3     114 .. 0.87

  Alignments for each domain:
  == domain 1  score: 58.9 bits;  conditional E-value: 2.6e-20
                             EEEESSSHHHHHHHHHHHH...HTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHH CS
             Response_reg  1 vlivdDdplvrellrqlle...eegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseee 84
                             +livdDd +++e+++++++   + g+ +v+ a++g +a+e+lk++k+dl+++D nmp+ +G  +lk i +e+++++ +++++    e
  PHY93_10845|PHY93_10845  3 ILIVDDDDDLAEIIESYIKgifHPGV-VVHIASSGYDAIEILKTSKIDLCICDHNMPNGNGGSVLKYIINENQKTKFVLCSTVLPAE 88
                             8******************9999999.*****************************************99999****9999765555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (120 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       483  (0.0269396); expected 358.6 (0.02)
Passed bias filter:                      435  (0.0242624); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.37u 0.20s 00:00:00.57 Elapsed: 00:00:00.35
# Mc/sec: 1040.02
//
Query:       PHY93_10850|PHY93_10850  [L=673]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.9e-06   24.6   0.2    4.3e-05   22.5   0.0    1.7  1  UPF0061          Uncharacterized ACR, YdiU/UPF0061 family
  ------ inclusion threshold ------
      0.061   12.6   0.1       0.14   11.5   0.1    1.5  1  Arginosuc_synth  Arginosuccinate synthase
       0.14   12.7   1.3       0.34   11.5   1.3    1.6  1  CBM53            Starch/carbohydrate-binding module (family 5


Domain annotation for each model (and alignments):
>> UPF0061  Uncharacterized ACR, YdiU/UPF0061 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.5   0.0   7.1e-09   4.3e-05      87     272 ..      95     294 ..      86     361 .. 0.79

  Alignments for each domain:
  == domain 1  score: 22.5 bits;  conditional E-value: 7.1e-09
                  UPF0061  87 DGRgfllgqvrdkdgelydfglKGsGlTPyS......RsaDGrlvLksgvREvlaseal.hklgvrtsralslietgekllRedeP 165
                               G g+++g+ r    +  ++++KGsG+TP         +a G +  k ++ E + +e+  ++l + + r l +i +g++   + + 
  PHY93_10850|PHY93_10850  95 YGLGVNWGSGRA--ASSGEYQVKGSGQTPLVgdgqtfDHAHGGASFKESIQEAIWGEVNqQELPLGSNRVLMIIDSGTDTSWS-DG 177
                              466677776555..5567899********862222223567999*************862579************99999887.67 PP

                  UPF0061 166 spersavvvR...larshi..RfGtferlkylkrldllkkLldyvieeyypel.....adeeekyaqfyaelvervAelvAqWmaa 241
                              ++e+ a++vR   l ++h    f     ++ +++ +  k+ l++  +   p        ++e+  +q  +e ++r A+  A   a 
  PHY93_10850|PHY93_10850 178 TKEPRAMIVRedpLRPAHYleAFAGNGPWREIDNERVHKNFLNFLKSIPLPANvdrskLAKEDIVKQGLEEFIDRIAQQFAAANAR 263
                              99999****94444556542245555667777888888888888877777766444434555999999****************** PP

                  UPF0061 242 GFchgVlNTDNmsilGeslDYGPyaFldkyd 272
                                 hg +   N+ + G+ lD+G  + l ++ 
  PHY93_10850|PHY93_10850 264 RVYHGAISASNIDLSGKFLDFGTETTLSDFG 294
                              **********************776666665 PP

>> Arginosuc_synth  Arginosuccinate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   2.3e-05      0.14     131     184 ..     561     615 ..     547     633 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 2.3e-05
          Arginosuc_synth 131 aPdlkviaPvRelelt.ReeeieyakekgipvevtkkkpysiDenllgrsieagi 184
                              +  +k+i+P+R+ ++   ++ i+   +++ip+   +++ +s+ + + gr+++ +i
  PHY93_10850|PHY93_10850 561 QHIIKIISPLRQNQFGfYNNRIHIISNNDIPIIRYTENNWSTHHEVKGRAVNENI 615
                              3348**********965899******************************86543 PP

>> CBM53  Starch/carbohydrate-binding module (family 53)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   1.3   5.7e-05      0.34      14      75 ..     592     647 ..     577     648 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 5.7e-05
                    CBM53  14 tlhygfngWkssqdvamtksassgdseedwfeatvtvpkeaseldfvf.dsegeenWDNNngq 75 
                              +++y+ n+W+++++v+   +       ++  e++++++++ s ++ +  +s+g + W N +g+
  PHY93_10850|PHY93_10850 592 IIRYTENNWSTHHEVKGRAV-------NENIEFELPINDNTSHVELAMrSSDGSSWWKNGDGN 647
                              79*************99999.......899**********999*****766889999998875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (673 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       764  (0.0426125); expected 358.6 (0.02)
Passed bias filter:                      483  (0.0269396); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.68u 0.28s 00:00:00.96 Elapsed: 00:00:00.47
# Mc/sec: 4265.28
//
Query:       PHY93_10855|PHY93_10855  [L=129]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.064   13.3   0.6       0.15   12.1   0.6    1.8  1  DUF3674   RNA dependent RNA polymerase


Domain annotation for each model (and alignments):
>> DUF3674  RNA dependent RNA polymerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.6   8.5e-06      0.15      16      24 ..      99     107 ..      91     118 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 8.5e-06
                  DUF3674  16 LkFnistHk 24 
                               kFnistHk
  PHY93_10855|PHY93_10855  99 FKFNISTHK 107
                              7*******9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (129 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       612  (0.0341346); expected 358.6 (0.02)
Passed bias filter:                      305  (0.0170115); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.24s 00:00:00.63 Elapsed: 00:00:00.40
# Mc/sec: 978.35
//
Query:       PHY93_10860|PHY93_10860  [L=198]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    5.3e-12   45.3   0.2    9.5e-12   44.5   0.2    1.4  1  TetR_N     Bacterial regulatory proteins, tetR family
  ------ inclusion threshold ------
      0.016   14.9   0.0      0.033   13.9   0.0    1.5  1  Pox_VLTF3  Poxvirus Late Transcription Factor VLTF3 like
      0.026   14.7   0.4      0.036   14.3   0.4    1.3  1  DUF4441    Domain of unknown function (DUF4441)
      0.068   13.2   0.2       0.21   11.7   0.0    1.9  2  SL4P       Uncharacterized Strongylid L4 protein
      0.098   12.8   0.3       0.15   12.2   0.3    1.2  1  TetR_C_29  Tetracyclin repressor-like, C-terminal domain


Domain annotation for each model (and alignments):
>> TetR_N  Bacterial regulatory proteins, tetR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.5   0.2   2.6e-15   9.5e-12       1      47 []       7      53 ..       7      53 .. 0.98

  Alignments for each domain:
  == domain 1  score: 44.5 bits;  conditional E-value: 2.6e-15
                             HHHHHHHHHHHHHTTT--HHHHHHHHTSSHHHHHHHTSSHHHHHHHH CS
                   TetR_N  1 IldaArelfaerGydattvreIAkrAGvskgalYryFpsKeeLleal 47
                             Il aA elf++rG +++++reIA  A+v  +++ +++++KeeL++a+
  PHY93_10860|PHY93_10860  7 ILNAAIELFSKRGLEGVSIREIATLANVHFASIRYHYGDKEELYKAC 53
                             9*******************************************986 PP

>> Pox_VLTF3  Poxvirus Late Transcription Factor VLTF3 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   9.2e-06     0.033     113     164 ..      75     126 ..      47     130 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 9.2e-06
                Pox_VLTF3 113 nerknfinysyvLykllellgvnenlkdfallknneklanndeiwkkicsel 164
                              n +  ++   y ++  +++++ n  l +++ll  +++ ++ d i kk + ++
  PHY93_10860|PHY93_10860  75 NHEDMRLRLGYAIDDVFRIHNENPFLTKLILLEVESTDHRSDLILKKTMVAM 126
                              5667789999************************************988776 PP

>> DUF4441  Domain of unknown function (DUF4441)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.4   9.9e-06     0.036      31     103 ..     120     194 ..      63     196 .. 0.88

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 9.9e-06
                  DUF4441  31 kkkqksleeikkkfkryikkkkfnnstlklLikhknygkiFkyfLenea..kewLenskvkdkeshikiiefllk 103
                              kk+   ++e +  f + ++ kkf  + l  L+  +++  i+++f+  e   + +L ++ ++d e+ +++i+ ++ 
  PHY93_10860|PHY93_10860 120 KKTMVAMTETYASFFKACQAKKFIDKNLDPLFLTQSLMGILHHFMRTEHirERLLAHKPLEDRENKEIMIKNIIT 194
                              566677889999999******************************887667999****************99875 PP

>> SL4P  Uncharacterized Strongylid L4 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   5.7e-05      0.21      22      72 ..      42      97 ..      30     113 .. 0.79
   2 ?   -1.8   0.0      0.94   3.4e+03      51      65 ..     181     195 ..     179     197 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 5.7e-05
                     SL4P 22 tYkDkddLfekfkkklkelgipldevywvdedgdrilir.....naddLleavkdn 72
                              Y Dk++L+++   k +e  +  ++ +   e +++ ++r       dd++++ ++n
  PHY93_10860|PHY93_10860 42 HYGDKEELYKACISKHGESRLLSAQKFLSAEPKNHEDMRlrlgyAIDDVFRIHNEN 97
                             588***********************999999999888733444456666666654 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 0.94
                     SL4P  51 dedgdrilirnaddL 65 
                              d+++++i+i+n  +L
  PHY93_10860|PHY93_10860 181 DRENKEIMIKNIITL 195
                              789999999998777 PP

>> TetR_C_29  Tetracyclin repressor-like, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.3   4.1e-05      0.15       9     116 ..      87     193 ..      82     196 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 4.1e-05
                              HHHHHHHHHH-HHHHHHHHHHHHS-TT--TTS--SS-.THHHHHHHHHHHHHHHHTTSS-SS--HHHHHHHHHHHHHHHHHTHHHH CS
                TetR_C_29   9 veftfdyhaanpefvrLvsiEnlhrgrhlkksesirelnspliekleeilerGqaagvFrpgvdaldlyllisslcffrvsnrhtl 94 
                              ++ +f+ h++np + +L+  E      h  +   +++++ +++e+ ++  +  qa++ + +++d+l l  + +++  + +  +h  
  PHY93_10860|PHY93_10860  87 IDDVFRIHNENPFLTKLILLEVEST-DHR-SDLILKKTMVAMTETYASFFKACQAKKFIDKNLDPLFLTQSLMGILHHFMRTEHIR 170
                              67799***********999994333.333.46689999**********************************************99 PP

                              HHHH---.TTSHHHHHHHHHHHH CS
                TetR_C_29  95 salfgrd.lsspealerrraliv 116
                              ++l+ ++ l + e++e + + i+
  PHY93_10860|PHY93_10860 171 ERLLAHKpLEDRENKEIMIKNII 193
                              99886551666777776666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (198 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       541  (0.0301746); expected 358.6 (0.02)
Passed bias filter:                      413  (0.0230353); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.38
# Mc/sec: 1565.03
//
Query:       PHY93_10865|PHY93_10865  [L=144]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      0.009   15.7   2.5      0.024   14.4   0.3    2.0  2  Ald_deCOase     Long-chain fatty aldehyde decarbonylase
       0.01   16.5   4.5      0.017   15.7   4.5    1.4  1  Cytochrom_B562  Cytochrome b562
  ------ inclusion threshold ------
      0.031   13.2   0.3       0.04   12.8   0.3    1.3  1  DUF3533         Protein of unknown function (DUF3533)
       0.52   10.8   5.7        1.6    9.2   2.8    2.1  2  KELK            KELK-motif containing domain of MRCK Ser/Thr 


Domain annotation for each model (and alignments):
>> Ald_deCOase  Long-chain fatty aldehyde decarbonylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.2      0.03   1.3e+02     119     151 ..      15      52 ..       9      66 .. 0.70
   2 !   14.4   0.3   5.3e-06     0.024      22      76 ..      67     122 ..      49     137 .. 0.81

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.03
                              S-HHHHHHHHHHHHHHHHHHHHHHHH.....HHHTHHH CS
              Ald_deCOase 119 adefarkitegvvkdeylhlnfGeeW.....lkenfee 151
                               ++fa+ + +   k  +l ln G++W     +ken+e+
  PHY93_10865|PHY93_10865  15 GNAFAEDVHQHHNKTKFLSLNEGKKWeidktMKENMEA 52 
                              5789999999999999**********422222333333 PP

  == domain 2  score: 14.4 bits;  conditional E-value: 5.3e-06
                              HHHHHHHHHHHHHHSGGGHHHHHHHHHHHHHHHHHHHHH.HHHTT----HHHHHHH CS
              Ald_deCOase  22 eqeakdnylklaellpekkdelarlakmearhkkgfeac.gknlkvkpdlefakef 76 
                               + ++++y +l++l++++++++a+ +kme +  + f+   g+ l+v+ dl+  k+ 
  PHY93_10865|PHY93_10865  67 KKVTEKDYAELSNLISDSAQKIANNCKMEPKADETFHVVlGNLLAVSEDLKNQKKI 122
                              5667899*****************************97627778999999877765 PP

>> Cytochrom_B562  Cytochrome b562
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   4.5   3.9e-06     0.017       2      87 ..      46     129 ..      45     141 .. 0.77

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 3.9e-06
           Cytochrom_B562   2 lkeeMkqmkkalkqvakaddaeel.kkalkelraaaedakeatpsklekdseeqkdYqeGldklidqldkaealakagkleeakaa 86 
                              +ke+M+++ +++k++++ ++++++ +k+ +el ++ +d+ ++ +++ + +++  ++++  l +l++  +++++   + k+++a + 
  PHY93_10865|PHY93_10865  46 MKENMEAIYAKFKKLNELTSSKKVtEKDYAELSNLISDSAQKIANNCKMEPKADETFHVVLGNLLAVSEDLKN---QKKIKQATEK 128
                              589*************988887762678****************99999999999999999888766555443...4444444444 PP

           Cytochrom_B562  87 l 87 
                              l
  PHY93_10865|PHY93_10865 129 L 129
                              3 PP

>> DUF3533  Protein of unknown function (DUF3533)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.3   8.9e-06      0.04       7      78 ..       4      84 ..       3     136 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 8.9e-06
                  DUF3533  7 vlilailslywGalyrrsdrlknlnvlvVneDeg.gseltpvvgeavaqainettss.slgtwtvvnpsefke.......s 78
                             +l+l++lsl+ G ++ ++ + ++ +  +    eg + e+++ ++e++++++ + ++  +l + + v+ +++ e       s
  PHY93_10865|PHY93_10865  4 LLVLTFLSLFLGNAFAEDVHQHHNKTKFLSLNEGkKWEIDKTMKENMEAIYAKFKKLnELTSSKKVTEKDYAElsnlisdS 84
                             689************9987777666555555555559999***********999988888889999999998876664442 PP

>> KELK  KELK-motif containing domain of MRCK Ser/Thr protein kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   2.8   0.00036       1.6      14      63 ..      37      86 ..      24     101 .. 0.87
   2 ?    2.5   0.0     0.044     2e+02      25      53 ..     111     138 ..     104     142 .. 0.73

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.00036
                     KELK 14 qEkeelqkelaeaqErlksqkkeLkdaisqrklamqefsevneklselrs 63
                               k e+ k ++e +E + ++ k L + +s +k++ ++++e+++ +s+  +
  PHY93_10865|PHY93_10865 37 GKKWEIDKTMKENMEAIYAKFKKLNELTSSKKVTEKDYAELSNLISDSAQ 86
                             4577999***********************************98888655 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.044
                     KELK  25 eaqErlksqkkeLkdaisqrklamqefse 53 
                               ++E lk+qkk +k a+++   a++ +se
  PHY93_10865|PHY93_10865 111 AVSEDLKNQKK-IKQATEKLSHALKVYSE 138
                              56777887754.78888888777777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (144 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2051  (0.114396); expected 358.6 (0.02)
Passed bias filter:                      625  (0.0348597); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.38
# Mc/sec: 1137.27
//
Query:       PHY93_10870|PHY93_10870  [L=449]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.8e-05   23.0   0.2    0.00069   19.5   0.2    2.2  1  Polysacc_deac_1  Polysaccharide deacetylase
  ------ inclusion threshold ------
      0.058   13.8   0.1       0.14   12.6   0.1    1.6  1  HMG_box          HMG (high mobility group) box


Domain annotation for each model (and alignments):
>> Polysacc_deac_1  Polysaccharide deacetylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.5   0.2   7.7e-08   0.00069       4      93 ..      12     133 ..      10     181 .. 0.83

  Alignments for each domain:
  == domain 1  score: 19.5 bits;  conditional E-value: 7.7e-08
                              TTSTEEEEEEEESS.CSCHHHHHHHHHHCT--EEEEE-HHH..HCH-.............................HHHHHHHHHT CS
          Polysacc_deac_1   4 kgkksvalTfDdgp.rdntteilpvLkkykvkatffviggl..vedy.............................pdevremaas 57 
                              ++++ v l fD     d ++e l   kk+kvk   f++g +   +++                              + v++ +++
  PHY93_10870|PHY93_10870  12 RPPQYVLLAFDGSLnLDMWNETLAFAKKNKVKLSYFLSGVYflLNSNrldyiepskgaghsaigfagdsinnlvnrVSFVNKAYDE 97 
                              688999****988889************************86655557899*********************************** PP

                              TEEEEE--SS--EGGGSHHHHHHHHHHHHHHHHHHH CS
          Polysacc_deac_1  58 GveignHtinhsnlkrlseeevrreierakdalrka 93 
                              G++ig+H   h + ++++ ++ + e+++ ++ l ++
  PHY93_10870|PHY93_10870  98 GHTIGSHANGHFDGTNWTLPQWDLELKEFNHLLFDV 133
                              ********9999999999888888888877777655 PP

>> HMG_box  HMG (high mobility group) box
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.1   1.6e-05      0.14       4      34 ..     367     397 ..     367     401 .. 0.95

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 1.6e-05
                              S--HHHHHHHHHHHHHHHHSTTS-HHHHHHH CS
                  HMG_box   4 plsafflfskeqraklkaenPelknaeiskk 34 
                              p +++ +++   ++ l+++ P++k+++i k+
  PHY93_10870|PHY93_10870 367 PKNSYYIWMLNDKEILRSKYPRIKISAIPKM 397
                              89**************************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (449 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       382  (0.0213063); expected 358.6 (0.02)
Passed bias filter:                      296  (0.0165096); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.25s 00:00:00.79 Elapsed: 00:00:00.44
# Mc/sec: 3077.65
//
Query:       PHY93_10875|PHY93_10875  [L=479]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.2e-53  181.3   0.1      3e-53  180.0   0.0    1.7  2  CheB_methylest  CheB methylesterase
      1e-22   80.4   0.3    3.3e-22   78.8   0.3    1.9  1  Response_reg    Response regulator receiver domain


Domain annotation for each model (and alignments):
>> CheB_methylest  CheB methylesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.6   0.0       0.9     8e+03      29      58 ..     140     168 ..     127     176 .. 0.61
   2 !  180.0   0.0   3.3e-57     3e-53       1     170 []     289     467 ..     289     467 .. 0.93

  Alignments for each domain:
  == domain 1  score: -3.6 bits;  conditional E-value: 0.9
                              EEEE---TT-HHHHHHHHHHH-SSEEEE-- CS
           CheB_methylest  29 vvvqhmppsftsslaelLnresslkVkeae 58 
                              ++v   ++++ + l +++++   l+V+ + 
  PHY93_10875|PHY93_10875 140 LIVDD-SKTIRNILSRIFSSDPGLEVCAMA 168
                              44433.345677777777777777776644 PP

  == domain 2  score: 180.0 bits;  conditional E-value: 3.3e-57
                              EEEEE-TTHHHHHTTTGGGS-TT-SS-EEEEE---TT-HHHHHHHHHHH-SSEEEE--TT-B--TTEEEE--TTSEEEEE...... CS
           CheB_methylest   1 vvigaStGGlealkellaalpedfpaavvvvqhmppsftsslaelLnresslkVkeaedgeelepgrvyvapgdkhllie...... 80 
                              +v+g+StGG+ea++e+++alp+++p ++++vqh+p+ f++++a+++n+ ++++Vkeae+g+e++++r+++apg++++++       
  PHY93_10875|PHY93_10875 289 IVLGSSTGGTEAIREIITALPDKIP-PMLIVQHIPAVFSAAFAKRMNDLCPFEVKEAENGDEVRANRILIAPGGQQMKLIykngka 373
                              699******************9887.6***************************************************98888765 PP

                              .......EE.-.-SS-HHHHHHHHHHHH.GGEEEEE-SBSS-TTHHHHHHHHHTT-EEEEE-GGG-SSBSHHHHHHHTT--SEEE- CS
           CheB_methylest  81 .lals..ak.kgerpsiDvlfesaaeaygeraigviLtGmgsDGaeGlkaikeaggltiaqdpesavvpgmPkaaieagavdevlp 162
                               ++++  ++ ++ +ps+D +f s+a+++  ++i++iLtGmg+DGa+G+ +++++g +tiaqd+ s+vv+gmPk+ai+ g +++v p
  PHY93_10875|PHY93_10875 374 sVEVNddEPvNRFKPSVDYMFLSVAKNIYTHTIAIILTGMGKDGARGMLELRNQGVRTIAQDEYSSVVFGMPKEAIALGGAEFVEP 459
                              4333332244555***************99*************************************************9****** PP

                              GGGHHHHH CS
           CheB_methylest 163 leeiaeel 170
                              l+eiae++
  PHY93_10875|PHY93_10875 460 LSEIAEKI 467
                              *****986 PP

>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.8   0.3   3.7e-26   3.3e-22       1     107 [.     139     246 ..     139     250 .. 0.91

  Alignments for each domain:
  == domain 1  score: 78.8 bits;  conditional E-value: 3.7e-26
                              EEEESSSHHHHHHHHHHHH.HTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEE..SSTSH CS
             Response_reg   1 vlivdDdplvrellrqlle.eegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviilt..ahsee 83 
                              +livdD++++r++l++++  + g+e++a ae+++e+ +l+ ++k+d+i+lDi mp+mdG+ llk i  +  ++p ++++  + +e 
  PHY93_10875|PHY93_10875 139 ILIVDDSKTIRNILSRIFSsDPGLEVCAMAEKPSEVEALILKHKPDVITLDIHMPEMDGVALLKIIAPKY-NIPTVMISsiSMAEG 223
                              8******************89***9999**************************************9988.777777774666678 PP

                              HHHHHHHHCTESEEEESSG-HHHH CS
             Response_reg  84 edavealkagaddflsKpfdpeeL 107
                              +++ eal+ ga d+++Kp + +e+
  PHY93_10875|PHY93_10875 224 PMVLEALESGAIDYIQKP-ELSEI 246
                              9*****************.66665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (479 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       455  (0.0253779); expected 358.6 (0.02)
Passed bias filter:                      380  (0.0211947); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.40
# Mc/sec: 3632.10
//
Query:       PHY93_10880|PHY93_10880  [L=608]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.2e-45  152.7   0.0    1.6e-44  151.7   0.0    1.5  1  CheR             CheR methyltransferase, SAM binding domain
    1.6e-24   86.3   0.2    9.9e-24   83.7   0.1    2.2  2  Response_reg     Response regulator receiver domain
    2.1e-07   30.5   0.1      4e-07   29.6   0.1    1.4  1  CheR_N           CheR methyltransferase, all-alpha domain
    7.1e-06   26.6   0.0      0.023   15.4   0.0    3.8  3  Methyltransf_25  Methyltransferase domain
    1.1e-05   25.3   0.4       0.27   11.0   0.2    3.4  3  Methyltransf_31  Methyltransferase domain
     0.0014   19.3   0.2       0.43   11.4   0.1    3.6  3  Methyltransf_12  Methyltransferase domain
     0.0039   17.8   0.1        1.1    9.9   0.1    3.4  2  Methyltransf_11  Methyltransferase domain
  ------ inclusion threshold ------
      0.091   13.0   1.5       0.13   12.5   0.1    1.9  2  Transposase_28   Putative gypsy type transposon


Domain annotation for each model (and alignments):
>> CheR  CheR methyltransferase, SAM binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  151.7   0.0   7.2e-48   1.6e-44       2     187 ..      82     274 ..      81     282 .. 0.90

  Alignments for each domain:
  == domain 1  score: 151.7 bits;  conditional E-value: 7.2e-48
                              S--TTTTCHHHHHHHHCCH.HHHHHHHTS..SSEEEEEES-TTTHHHHHHHHHHHCHSTTT.SSS-EEEEEEESSCHHHHHHHHTE CS
                     CheR   2 eTeffreakhfeelekevlepllakakne..krvriwsagcssGeEpYslAmllketlpka.aklkvkilAtDidlkvlekAkagv 84 
                              +T ffre  hfe l+k +  +l+a+ak++  k+++iws +cs G+E YslAm ++ +l++   ++++kil+tDid +++  A++gv
  PHY93_10880|PHY93_10880  82 HTFFFREFPHFEILKKILP-DLVAQAKKRgdKTLKIWSSACSRGQEVYSLAMFFEYYLRELdPSMSFKILGTDIDDESVRVANNGV 166
                              799**********987666.8998888877899**********************9777651556********************* PP

                              EECCHHTTS-HHHHHHHEEEEETTCEE...E-HHHHTTEEEEE--TTT..-SGGG--EEEEEE-SSGGGC-CHHHHHHHHHHHCCE CS
                     CheR  85 ykeeeleglseelleryfekseddsyk...vkkeikelvkFeklnlle..kksvlgklDvifcrnvliYfdeetqekvlerfaekl 165
                              y+++e+++++ ++l ++  k ++d      vk+ +k+ ++F+  nll+  +    +k+Dvifcrnv+iYf++ + e++ +++ ++l
  PHY93_10880|PHY93_10880 167 YHQNEIKEIPMNFLGNHWAKGTGDISMyakVKSSLKSKCEFKTGNLLKiaEVVKNEKFDVIFCRNVFIYFESFQVEQITKDLISHL 252
                              ******************999987544567******************855566789***************************** PP

                              EEEEEEEE-TTB--SSSCCCCC CS
                     CheR 166 kpgglLllGhsEslkklkdkfe 187
                               ++g+ + G sE l++lk   +
  PHY93_10880|PHY93_10880 253 YADGVFFSGISEPLSGLKLDVK 274
                              **************98876665 PP

>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.0      0.74   1.6e+03      30      49 ..     210     229 ..     196     230 .. 0.82
   2 !   83.7   0.1   4.4e-27   9.9e-24       1     107 [.     307     414 ..     307     418 .. 0.89

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 0.74
                              SSHHHHHHHHHHHHESEEEE CS
             Response_reg  30 edgkealellkeekvdlill 49 
                               +  +  e +k+ek+d+i++
  PHY93_10880|PHY93_10880 210 GNLLKIAEVVKNEKFDVIFC 229
                              5667788999********97 PP

  == domain 2  score: 83.7 bits;  conditional E-value: 4.4e-27
                              EEEESSSHHHHHHHHHHHH.HTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEE..SSTSH CS
             Response_reg   1 vlivdDdplvrellrqlle.eegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviilt..ahsee 83 
                              v++vdD+p +++ll+++l+ ++g+e+v +a +g +a+e+lk++kvdli+lDi mp+mdG+  l++  +++ ++pv+i++  ++s++
  PHY93_10880|PHY93_10880 307 VMCVDDSPSILTLLKKVLTkDKGFEVVVTAINGIDAMEKLKTNKVDLITLDIHMPEMDGVSYLEKNFNKS-HPPVVIISsaSRSDS 391
                              799****************88*****************************************99876655.677777774567789 PP

                              HHHHHHHHCTESEEEESSG-HHHH CS
             Response_reg  84 edavealkagaddflsKpfdpeeL 107
                              ++a +alk ga+d++ Kp + ++L
  PHY93_10880|PHY93_10880 392 DVAMKALKFGASDYIEKP-ALNNL 414
                              9*****************.66665 PP

>> CheR_N  CheR methyltransferase, all-alpha domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.6   0.1   1.8e-10     4e-07       5      52 ..      19      66 ..      17      66 .. 0.94

  Alignments for each domain:
  == domain 1  score: 29.6 bits;  conditional E-value: 1.8e-10
                             HHHHHHHHTT-EE--SSTHHHHHTHHHHHHHTTT-SSSHHHHHHTSHS CS
                   CheR_N  5 rlleliyertGidlsdyKrallkrRlsrRmralglksfeeYldlLrsd 52
                             ++ + +++ +G  l ++  ++++ R+ +Rm +lg++  ++Yl++++++
  PHY93_10880|PHY93_10880 19 KVSAIVHKISGNRLGEKQAYMVETRIKKRMIELGIREASDYLKYIEQH 66
                             67889****************************************986 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.0      0.19   4.3e+02      14      41 ..     140     166 ..     127     183 .. 0.78
   2 !   15.4   0.0     1e-05     0.023      34      97 .]     194     256 ..     189     256 .. 0.82
   3 ?    4.4   0.0     0.028        62      18      70 ..     303     356 ..     293     373 .. 0.69

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.19
                              HHHCTSTSSEEEEEESSHHHHHHHHHHH CS
          Methyltransf_25  14 alakrlgkakvtgvDiseemleaarera 41 
                              +l   + + k++g+Di++e ++ a++ +
  PHY93_10880|PHY93_10880 140 ELDPSM-SFKILGTDIDDESVRVANNGV 166
                              455554.689*************99766 PP

  == domain 2  score: 15.4 bits;  conditional E-value: 1e-05
                              HHHHHHHHHHTTTTEEEEESBCCGBS..SSTTTEEEEEEESTGGGSSHHHHHHHHHHHHHHEEEEE CS
          Methyltransf_25  34 leaareraeeeglnvefvqgdaedlp..fedgsfDlvvssgalhhlsdedlekalkeiarvLkpgG 97 
                               +++++ +   + ++ef +g++ ++    ++++fD++++++++ +++  ++e++ k + ++L  +G
  PHY93_10880|PHY93_10880 194 YAKVKSSL---KSKCEFKTGNLLKIAevVKNEKFDVIFCRNVFIYFESFQVEQITKDLISHLYADG 256
                              45555555...348**********98455999*******999************999999887666 PP

  == domain 3  score: 4.4 bits;  conditional E-value: 0.028
                              TSTSSEEEEEESSHHHHHHHHHHHHHTTTTEEEEESBC...CGBS.SSTTTEEEEEE CS
          Methyltransf_25  18 rlgkakvtgvDiseemleaareraeeeglnvefvqgda...edlp.fedgsfDlvvs 70 
                              ++   kv++vD s++ l   ++ + +++  +e+v+  +   ++++ ++ +++Dl+++
  PHY93_10880|PHY93_10880 303 EI--LKVMCVDDSPSILTLLKKVLTKDK-GFEVVVTAIngiDAMEkLKTNKVDLITL 356
                              44..79****************998743.5555555551124443368899999988 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   0.0     0.033        73      11      46 ..     120     164 ..     111     180 .. 0.71
   2 !   11.0   0.2   0.00012      0.27      52      89 ..     202     238 ..     193     260 .. 0.78
   3 !    7.1   0.0    0.0019       4.3      30     113 ..     306     388 ..     281     440 .. 0.78

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.033
          Methyltransf_31  11 GCGtGeltfelae.......elgp..kaevvGiDiseeaielAre 46 
                              +C  G+ ++ la        el p    ++ G Di+ e++++A++
  PHY93_10880|PHY93_10880 120 ACSRGQEVYSLAMffeyylrELDPsmSFKILGTDIDDESVRVANN 164
                              66677777777766666665555544556**************87 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.00012
          Methyltransf_31  52 gldnveFeqgdieeleklledekfDlilsnevlnalad 89 
                              ++  +eF+ g+  ++ + ++ ekfD+i++++v+ ++ +
  PHY93_10880|PHY93_10880 202 KS-KCEFKTGNLLKIAEVVKNEKFDVIFCRNVFIYFES 238
                              44.59*********8877888**********9966654 PP

  == domain 3  score: 7.1 bits;  conditional E-value: 0.0019
          Methyltransf_31  30 evvGiDiseeaielAre.naqklgldnveFeqgdieeleklledekfDlilsnevlnaladpdkileeiervlkpggilliedpr 113
                              +v+ +D s+  ++l ++  ++++g++ v   +  i ++ek l+ +k+Dli+ + + +   d  ++le+ ++  +p  +++++  r
  PHY93_10880|PHY93_10880 306 KVMCVDDSPSILTLLKKvLTKDKGFEVVVTAINGIDAMEK-LKTNKVDLITLD-IHMPEMDGVSYLEKNFNKSHPPVVIISSASR 388
                              5888999999999999978899****99999999*99998.5779****9996.4456666667777777777777666666665 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.4   0.1   0.00019      0.43      64      98 ..     202     257 ..     133     258 .. 0.70
   2 ?    3.1   0.0      0.07   1.6e+02      19      71 ..     303     355 ..     288     360 .. 0.82
   3 ?   -0.4   0.0      0.88     2e+03      13      38 ..     516     541 ..     491     594 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00019
          Methyltransf_12  64 g...................ssfDlvvasnvlhhl..kdirevldnirklLkpgGr 98 
                              +                   ++fD++++ nv+ ++   +++++ + + ++L  +G+
  PHY93_10880|PHY93_10880 202 KskcefktgnllkiaevvknEKFDVIFCRNVFIYFesFQVEQITKDLISHLYADGV 257
                              033444444444444458889**************988888999998888888887 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.07
          Methyltransf_12  19 pdieytgvDispsaiedakeklakrennnnnnvelealdlldldggssfDlvv 71 
                              + +++ +vD sps ++  k+ l k ++  + +  ++ +d+ ++ + +++Dl++
  PHY93_10880|PHY93_10880 303 EILKVMCVDDSPSILTLLKKVLTKDKGFEVVVTAINGIDAMEKLKTNKVDLIT 355
                              478899*********9999999999988888888888888888888*****98 PP

  == domain 3  score: -0.4 bits;  conditional E-value: 0.88
          Methyltransf_12  13 alleklpdieytgvDispsaiedake 38 
                               l  k+++ +++++D+ +++ +  k+
  PHY93_10880|PHY93_10880 516 KLDMKIEPNKIYFMDFKSNFSNISKK 541
                              45556688889999998888843333 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.9   0.1   0.00051       1.1      43      94 ..     201     258 ..     120     260 .. 0.76
   2 ?    3.2   0.0     0.063   1.4e+02      16      67 ..     302     356 ..     283     363 .. 0.75

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00051
                              -..EEEETTEECCCTS..S-TT-EEEEEEES-CCC-..CCHHHHHHHHHHHEEEEEEE CS
          Methyltransf_11  43 l..kvefvvadaeklp..fednsfDlvvssevlhhv..edpekalkeiaRvLkpgGll 94 
                              l  k+ef  +++ k+   +++++fD++++++v+ ++   ++e++ k +   L  +G++
  PHY93_10880|PHY93_10880 201 LksKCEFKTGNLLKIAevVKNEKFDVIFCRNVFIYFesFQVEQITKDLISHLYADGVF 258
                              1335778999999984468999***********9995446777777777776666665 PP

  == domain 2  score: 3.2 bits;  conditional E-value: 0.063
                              HTTSEEEEEES-HHHHHHHHHHCCHHT-EEEETTEECC...CT.SS-TT-EEEEEE CS
          Methyltransf_11  16 krgarvvgvDlskemlklakekaseeglkvefvvadae...kl.pfednsfDlvvs 67 
                                  +v++vD s+  l+l k+   +++  +e+vv  +     + +++ n++Dl+++
  PHY93_10880|PHY93_10880 302 PEILKVMCVDDSPSILTLLKKVLTKDKG-FEVVVTAINgidAMeKLKTNKVDLITL 356
                              444799**********999998888875.444444444222465799999999975 PP

>> Transposase_28  Putative gypsy type transposon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.8   0.2       7.2   1.6e+04       9      28 ..      74      93 ..      72      95 .. 0.72
   2 ?   12.5   0.1   5.6e-05      0.13      16      63 ..     504     553 ..     494     556 .. 0.88

  Alignments for each domain:
  == domain 1  score: -3.8 bits;  conditional E-value: 7.2
           Transposase_28  9 eaGlrlPlssFfcevLafyg 28
                             ++Gl    + Ff +   +++
  PHY93_10880|PHY93_10880 74 LVGLITTHHTFFFREFPHFE 93
                             67888888888877777765 PP

  == domain 2  score: 12.5 bits;  conditional E-value: 5.6e-05
           Transposase_28  16 lssFfcevLafyglalsqLaPNsilal...siFavlcesflgvppslelFr 63 
                              +++F  e+  f +l++  ++PN i ++   s+F  ++++++++p s+ +F 
  PHY93_10880|PHY93_10880 504 AKDFKQELVFFDKLDM-KIEPNKIYFMdfkSNFSNISKKYASFPCSVLVFG 553
                              5789999999999998.6*******9977779******************7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (608 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       708  (0.0394891); expected 358.6 (0.02)
Passed bias filter:                      509  (0.0283898); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.64u 0.25s 00:00:00.89 Elapsed: 00:00:00.41
# Mc/sec: 4427.76
//
Query:       PHY93_10885|PHY93_10885  [L=163]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.3e-32  110.3   0.4    6.1e-32  110.1   0.4    1.1  1  CheW      CheW-like domain


Domain annotation for each model (and alignments):
>> CheW  CheW-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  110.1   0.4   3.4e-36   6.1e-32       2     135 ..      19     151 ..      18     154 .. 0.95

  Alignments for each domain:
  == domain 1  score: 110.1 bits;  conditional E-value: 3.4e-36
                              EEEEEETTEEEEEEGGGEEEEEECCT.BTTTTSSTTEEEEEEETTEEEEEEEHHHHCTSSSSTTSTCEEEEEEEETTEEEEEEESE CS
                     CheW   2 lllfrlgeetyaiplakvreilevppitpipgapgavlgvinlrGevipvidLrellglgpeesrentrvivvelgnqvvGllVde 87 
                              ++ f+lg+e yaipl  vre+++vp+ tpip++p+++lg++nlrG+vi v+dLr+ l ++ +++ +++ vi+v++g+  +G++Vd+
  PHY93_10885|PHY93_10885  19 FIEFSLGKEDYAIPLLMVREVISVPDTTPIPKSPPHFLGIMNLRGQVISVVDLRKKLKVEAKQD-KEEAVIIVDIGGMNIGVVVDS 103
                              788************************************************************6.********************* PP

                              EEEEEEEECCGEETT.TSSTSSTCCCEEEEEECTTSEEEEEE-CCCHHH CS
                     CheW  88 vkgiqeivikqiepp.lglssdlagyisGatklgdgrlvliLDveallr 135
                              +++++ ++ +++++    +++ + +yi G+ ++ +++l ++LD++++l+
  PHY93_10885|PHY93_10885 104 INKVLAFSSDEVSEMpEVENQVNTNYIFGVYRK-ENSLTVLLDIAKVLD 151
                              *************99866677889*********.888*********996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (163 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       717  (0.0399911); expected 358.6 (0.02)
Passed bias filter:                      508  (0.028334); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.38
# Mc/sec: 1282.33
//
Query:       PHY93_10890|PHY93_10890  [L=615]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.4e-21   74.4   0.2    1.3e-20   73.4   0.2    1.6  1  CheW          CheW-like domain
    7.3e-19   68.3   0.3      2e-18   67.0   0.3    1.8  1  HATPase_c     Histidine kinase-, DNA gyrase B-, and HSP90-lik
    1.1e-14   54.5   1.4    1.9e-14   53.7   0.3    2.0  2  Hpt           Hpt domain
      2e-08   34.5   4.6    2.5e-07   31.0   4.6    2.8  1  H-kinase_dim  Signal transducing histidine kinase, homodimeri
    0.00055   19.9   0.2      0.017   15.1   0.0    2.5  2  HATPase_c_2   Histidine kinase-like ATPase domain
     0.0011   18.8   0.5     0.0042   16.9   0.5    2.0  1  HATPase_c_3   Histidine kinase-, DNA gyrase B-, and HSP90-lik
  ------ inclusion threshold ------
       0.71    8.9   6.1       0.55    9.3   1.0    2.5  2  Rota_NSP3     Rotavirus non-structural protein NSP3


Domain annotation for each model (and alignments):
>> CheW  CheW-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.4   0.2   5.2e-24   1.3e-20       2     135 ..     473     601 ..     472     604 .. 0.92

  Alignments for each domain:
  == domain 1  score: 73.4 bits;  conditional E-value: 5.2e-24
                              EEEEEETTEEEEEEGGGEEEEEECCT...BTTTTSSTTEEEEEEETTEEEEEEEHHHHCTSSSSTT.STCEEEEEEEETTEEEEEE CS
                     CheW   2 lllfrlgeetyaiplakvreilevpp..itpipgapgavlgvinlrGevipvidLrellglgpees.rentrvivvelgnqvvGll 84 
                              +++ ++gee+y+ipl ++ e l+++p  ++++ g+ ++    + lrG+vip+ +++  l+ + +e+  +++++i+v+++++ +++l
  PHY93_10890|PHY93_10890 473 AMVTQIGEERYIIPLGQIHESLSPNPdlVHHVNGVGDC----LKLRGQVIPMFRISTALQRPMKEKpIHQQIAIIVNSEEKNFAVL 554
                              67889*******************77457777777777....********************9999999***************** PP

                              ESEEEEEEEEECCGEETTTSSTSSTCCCEEEEEECTTSEEEEEE-CCCHHH CS
                     CheW  85 VdevkgiqeivikqiepplglssdlagyisGatklgdgrlvliLDveallr 135
                              Vd +  +q++vik++++ ++   +++g + G ++lgdgr ++iLD+ +l++
  PHY93_10890|PHY93_10890 555 VDDILYQQQVVIKKLGEEIK---NQKG-FMGSSILGDGRPAFILDLIELFS 601
                              ******************99...9999.******************99876 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.0   0.3   7.6e-22     2e-18       4     111 ..     330     467 ..     327     468 .. 0.91

  Alignments for each domain:
  == domain 1  score: 67.0 bits;  conditional E-value: 7.6e-22
                              HHHHHHHHHHHHHHHHH......HSTTTEEEEEEEE.EE.TEEEEEEEESSSSSTTHHHT......................GTCS CS
                HATPase_c   4 krLrqiisnlvdNavkf......atkageieveika.se.ddlvisveDnGiGipkedlk......................klfe 59 
                              + L +i++n+vd+ ++       ++k++e++v+ika +e ++lvi+v+D+G+Gi+++++                       ++f 
  PHY93_10890|PHY93_10890 330 DPLVHIVRNAVDHGLESsddrlkSGKTEEGQVSIKAyHEgNNLVIEVRDDGKGIDPKIIRekaiekkvisananlsdeelvnLVFH 415
                              6899*************999987557777788888764469*****************************************99*9 PP

                              .TTCHHCSTCHTSTSSSHHHHHHHHHHHHTTTEEEEEEETTTEEEEEEEEESS CS
                HATPase_c  60 .kfsqddstkrggggtGlGlsivkklvelmgGeiwvesepgrGttftftlple 111
                                fs+ +++ ++ +g+G+G+ +vk  +e++ Ge++v++e g+G+ f + lpl+
  PHY93_10890|PHY93_10890 416 pGFST-KAEVSEISGRGVGMDVVKTNIEKLSGEVKVITELGKGSVFKVVLPLT 467
                              9****.9999999************77779********************997 PP

>> Hpt  Hpt domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.7   0.3   7.4e-18   1.9e-14       5      80 ..      11      96 ..       7     101 .. 0.89
   2 ?   -2.3   0.0       2.2   5.6e+03      47      47 ..     286     286 ..     251     310 .. 0.54

  Alignments for each domain:
  == domain 1  score: 53.7 bits;  conditional E-value: 7.4e-18
                             HHHHHHHHHHHHHHHHH........SCCHHHHHHHHHHHHHHHHHHTTBHHHHHHHHHHHHHHH..HCTSCHHHHHHHHHHHHHHH CS
                      Hpt  5 lfleeaeelleqleqal........dqedlqelaraaHtLKGsagmlGltelaelahelEdlld..ragelelepellealkalle 80
                             +fl+ea +ll+++eqa+        + ++++e++r+aH LKG+++ +G+ ++ae++he+E+l+   ++g +++++e + +l ++ +
  PHY93_10890|PHY93_10890 11 DFLAEATQLLNDAEQAFlalegdknNINLMNEIFRLAHNLKGTSRAVGFGDVAEFTHEMENLILkiKEGHVQITDEIVSLLLECND 96
                             7*******************99755555*********************************6666************998877655 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 2.2
                              H CS
                      Hpt  47 e 47 
                              +
  PHY93_10890|PHY93_10890 286 P 286
                              1 PP

>> H-kinase_dim  Signal transducing histidine kinase, homodimeric domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.0   4.6   9.6e-11   2.5e-07       2      68 ..     223     281 ..     222     304 .. 0.72

  Alignments for each domain:
  == domain 1  score: 31.0 bits;  conditional E-value: 9.6e-11
             H-kinase_dim   2 stlRVdakrlDyLlnlvGElVitkarLnqsleefrfenglkasvtelksslqnlgrisgeLQegvmk 68 
                              +++RV + r++ L n vGElVi+++ Lnq  ee+         +  + +sl++l+++s+e+Q+  m+
  PHY93_10890|PHY93_10890 223 DSIRVSLARVEMLNNVVGELVIIQTVLNQHREEVH--------NPLMLKSLSQLAKLSKEIQNISMS 281
                              58*********************************........444444444444444444444443 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.0     0.086   2.2e+02      19      44 ..     214     239 ..     210     240 .. 0.88
   2 !   15.1   0.0   6.5e-06     0.017      42     103 ..     338     433 ..     335     456 .. 0.78

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.086
              HATPase_c_2  19 lrraglseelldeirlaveEactNav 44 
                              + + g +e++  ++ la  E+++N+v
  PHY93_10890|PHY93_10890 214 ATNKGAAEDDSIRVSLARVEMLNNVV 239
                              4568999*****************98 PP

  == domain 2  score: 15.1 bits;  conditional E-value: 6.5e-06
              HATPase_c_2  42 Navehayleape.........gpvevrlesdeealtvevaDsGpgfdpetlpdpteeep.........................ke 93 
                              Nav h+ ++  +         g+v++++ ++++ l++ev+D+G+g dp+ +++++ e++                         +e
  PHY93_10890|PHY93_10890 338 NAVDHGLESSDDrlksgkteeGQVSIKAYHEGNNLVIEVRDDGKGIDPKIIREKAIEKKvisananlsdeelvnlvfhpgfstkAE 423
                              677776665554455555555899999*********************99999988877888888888888888888887777766 PP

              HATPase_c_2  94 slkegGrGla 103
                                +++GrG+ 
  PHY93_10890|PHY93_10890 424 VSEISGRGVG 433
                              6677777765 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.5   1.7e-06    0.0042       7      55 ..     332     394 ..     326     468 .. 0.72

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 1.7e-06
              HATPase_c_3   7 laelvdNsldAdaen..............vkievnknrgktgeivieDdGkGmseeelkn.alr 55 
                              l+ +v+N++d   e+              v+i++ ++ g++  i ++DdGkG++++ +++ a++
  PHY93_10890|PHY93_10890 332 LVHIVRNAVDHGLESsddrlksgkteegqVSIKAYHE-GNNLVIEVRDDGKGIDPKIIREkAIE 394
                              7889******99999999999************9996.789**************999986663 PP

>> Rota_NSP3  Rotavirus non-structural protein NSP3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   0.3     0.047   1.2e+02     137     230 ..      70     166 ..      18     180 .. 0.69
   2 ?    9.3   1.0   0.00022      0.55      56     119 ..     234     297 ..     198     384 .. 0.71

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.047
                Rota_NSP3 137 klavdkleeGklkvd.......veknevdtedlkskieeleqiidalekykdivldldkmneevkldqnsisynsaailvstilga 215
                              +++  k+ eG++++         e n+  ++ +k    +l+ ++ ++e   +i l   ++ +e+ +     s  ++a++  +i + 
  PHY93_10890|PHY93_10890  70 ENLILKIKEGHVQITdeivsllLECNDHVSVMIKMLNMDLDSRFSSVEIIAKIKL---ALAGELGSSAPHESTTNTAAVSDSISAE 152
                              4555689999999995555555556666666677777778888888887777666...5679999999999999999944455555 PP

                Rota_NSP3 216 elkvyneklerlldv 230
                              ++    e+ er+l+v
  PHY93_10890|PHY93_10890 153 DIA-LLESFERDLEV 166
                              554.55788888887 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.00022
                Rota_NSP3  56 vknaliGkaktidkalndkkvaerneewladvariakldlelaklklmlsskGidrkervlnam 119
                              + n+++G  + i   ln+++  + n   l   +++akl +e++++ + l    +++  + l  +
  PHY93_10890|PHY93_10890 234 MLNNVVGELVIIQTVLNQHREEVHNPLMLKSLSQLAKLSKEIQNISMSLRMVPLKQTLQKLQRI 297
                              569*******************************************999998888876665543 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (615 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       853  (0.0475766); expected 358.6 (0.02)
Passed bias filter:                      449  (0.0250432); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.65u 0.24s 00:00:00.89 Elapsed: 00:00:00.42
# Mc/sec: 4362.85
//
Query:       PHY93_16815|PHY93_16815  [L=298]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-05   25.3   0.0    4.1e-05   23.6   0.0    1.9  1  Glyco_trans_2_3  Glycosyl transferase family group 2
    4.4e-05   23.4   0.0    7.4e-05   22.6   0.0    1.4  1  Glycos_transf_2  Glycosyl transferase family 2
    0.00043   19.8   0.0     0.0013   18.3   0.0    1.7  1  Glyco_tranf_2_2  Glycosyltransferase like family 2
     0.0075   16.2   0.0      0.023   14.6   0.0    1.7  1  Glyco_tranf_2_3  Glycosyltransferase like family 2


Domain annotation for each model (and alignments):
>> Glyco_trans_2_3  Glycosyl transferase family group 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.6   0.0   9.2e-09   4.1e-05       1     192 [.      21     213 ..      21     255 .. 0.78

  Alignments for each domain:
  == domain 1  score: 23.6 bits;  conditional E-value: 9.2e-09
          Glyco_trans_2_3   1 iilllDaDtvlppdclreiaaela.spevaivqgpvlvmnvanwleelaalffaedhgkdilvrealgrvvp........svGsga 77 
                              +il+lD+D+++    l+++ + l+  p   i+ gp+l  +++n l++l  +ff+ ++  +++ r+++ +           +   + 
  PHY93_16815|PHY93_16815  21 YILFLDDDSLPINSLLEKYQNTLQaYPGTEILGGPSLLIEKQNNLYHLSNIFFS-SIFGIGPIRSRYNSLGKvrkatereLILCNL 105
                              79*********999**********55*********9987677777777777775.4444555555443322233455666777788 PP

          Glyco_trans_2_3  78 flrrsalqevggwdgdessvsEDfdmglrlqrkGyrvrfvpeslvkekspltlraalrQrkRwayGceleklillvrllgylgsll 163
                              +  r+ + +  g+d  +   +E  ++  +lq+   r+++ p ++v+++ +++++ +l+Q+  + +G      ++++  l y++ +l
  PHY93_16815|PHY93_16815 106 LMKRAFFLKTKGFD-QNIYPGEENEFLKSLQTS-TRIIYDPKAIVYREPRDSFYLFLKQMFSYGRG------RAKHLKLNYFFEYL 183
                              88888888999***.77999******6666655.999999**************************......88888888877776 PP

          Glyco_trans_2_3 164 wsa.lplhlallllfsllalalvlllllll 192
                              +   l+++l++  l  ++  ++v+  +ll+
  PHY93_16815|PHY93_16815 184 FLIpLLFSLYVISLPFIVNQSFVFYTPLLG 213
                              543388888777777776666665444443 PP

>> Glycos_transf_2  Glycosyl transferase family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.6   0.0   1.6e-08   7.4e-05      65     108 ..       4      47 ..       1     104 [. 0.76

  Alignments for each domain:
  == domain 1  score: 22.6 bits;  conditional E-value: 1.6e-08
                              -HHHHHHHHHHHH--SSEEEEEESSEEE-TTHHHHHHHHHHH.T CS
          Glycos_transf_2  65 vGkagalnaglraatgdyilflDaDdepdpdwleklvealekdg 108
                              + +++ +n  +r+a g+yilflD+D+ p    lek  + l++ +
  PHY93_16815|PHY93_16815   4 NNPSTQRNLLARNAEGEYILFLDDDSLPINSLLEKYQNTLQAYP 47 
                              478999*****************************999988863 PP

>> Glyco_tranf_2_2  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.0   2.9e-07    0.0013      70     223 ..       7     157 ..       3     172 .. 0.81

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 2.9e-07
          Glyco_tranf_2_2  70 aaarNrGaskaesdlvlFlDaDcfissDkfekilklitikklrenidaavvlpvvdlnkedsevlkdvedltassrvledllaaks 155
                              +  rN+ a +ae++++lFlD D +     +ek  +      l+  + + +      l++++++ ++  +  + s+     +   ++
  PHY93_16815|PHY93_16815   7 STQRNLLARNAEGEYILFLDDDSLPINSLLEKYQN-----TLQAYPGTEILGGPSLLIEKQNNLYHLSNIFFSSIFGIGPIRSRYN 87 
                              5679****************************999.....99*******9998888888888877766666666666677888899 PP

          Glyco_tranf_2_2 156 tlvk..ffapss...ssilinrraflevGGyDErfrGhgaEDfdlllRlakaikslekmpvellykaraksls 223
                              +l k     +      ++l++r  fl++ G+D ++     E+ ++l  l    + +   p  + y++   s+ 
  PHY93_16815|PHY93_16815  88 SLGKvrKATERElilCNLLMKRAFFLKTKGFDQNI--YPGEENEFLKSLQTSTRII-YDPKAIVYREPRDSFY 157
                              998866333333234788999*************9..5556679999999999888.8899999998777765 PP

>> Glyco_tranf_2_3  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.6   0.0   5.1e-06     0.023      82     225 ..      13     164 ..       5     169 .. 0.71

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 5.1e-06
          Glyco_tranf_2_3  82 alravksdlvllvDdDtvvePdtlkrllqff.ltpkvgavgtpvfl.lnrstl................vsalgalefaerhl.rf 148
                                r+++++++l++DdD++    +l+++ +++ ++p+ +++g+p +l +  ++l                +      +   + l ++
  PHY93_16815|PHY93_16815  13 LARNAEGEYILFLDDDSLPINSLLEKYQNTLqAYPGTEILGGPSLLiEKQNNLyhlsniffssifgigpI------RSRYNSLgKV 92 
                              568999*************************99**********977444444444566665443332221......2222222134 PP

          Glyco_tranf_2_3 149 laarralgvltlnGsgslirrevlkelegldplflltdDyelglrlrragfrtayvpgaavrevfpsslkayikqrn 225
                              ++a+++  +l+     +l+ r+++  ++g+d + ++++ +e  l   ++  r+ y p+a+v+++ ++s+  + kq++
  PHY93_16815|PHY93_16815  93 RKATERELILC----NLLMKRAFFLKTKGFDQNIYPGEENEF-LKSLQTSTRIIYDPKAIVYREPRDSFYLFLKQMF 164
                              44444444566....788888888888888888888888886.4445678888888888888888888888888886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (298 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       599  (0.0334096); expected 358.6 (0.02)
Passed bias filter:                      321  (0.017904); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.37
# Mc/sec: 2392.98
//
Query:       PHY93_10895|PHY93_10895  [L=360]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.1e-29  103.9   0.0    1.5e-29  103.5   0.0    1.2  1  Aminotran_4  Amino-transferase class IV


Domain annotation for each model (and alignments):
>> Aminotran_4  Amino-transferase class IV
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  103.5   0.0   8.4e-34   1.5e-29       2     220 ..      69     307 ..      68     310 .. 0.95

  Alignments for each domain:
  == domain 1  score: 103.5 bits;  conditional E-value: 8.4e-34
              Aminotran_4   2 lfEtmrvy.....ngeiffldeHleRLrksaellglelpfdeeelrkileelleannsen.......grlrllvsrgggglgaats 75 
                              +fE+m++y        if+ de+  R+++sae++ +++++++e ++++  e+++   +++       ++lr++++++++ lg  ++
  PHY93_10895|PHY93_10895  69 IFEGMKAYrvgglGPFIFRPDENHLRFNRSAERM-AMPHIPIELFMQASLEVTAYSADFVprrsgesLYLRPFMFATEEALG-IKP 152
                              7*******99988888899************887.7****************************99999*************.899 PP

              Aminotran_4  76 epsvavyvsalppgpeseke.lplvtssdvrrdapsplpgaKtln.yldnvlarreakergadevllvdedgn..vtEgstsNvfi 157
                              + ++  +v+a+p g++  +  l++++ + ++r  p  +  aK    y+ ++l + + k+ g+ ++l++d +    + E s +N+f 
  PHY93_10895|PHY93_10895 153 SEKFRFMVIASPSGSYFSVGgLSVFIERHSARAFPGGTGFAKAGGnYAASLLSAIKTKNLGFVQTLWLDGRDKkyIEEMSGMNFFA 238
                              9999999999********************************9877***********************766556*********** PP

              Aminotran_4 158 vkggelitPplssgiLpGitrrallelakalgleveereitlkdle......eadeafltntlrgvlpv 220
                              v ++el tP++ ++iL+Gitr++++ la+++g++v er+ ++++l       ++ eaf ++t++ + p+
  PHY93_10895|PHY93_10895 239 VINNELHTPEINDSILEGITRKSIITLARDAGIKVVERKMEINELLedikaeRCTEAFACGTAAIIAPI 307
                              **********************************************999999************99998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (360 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       314  (0.0175135); expected 358.6 (0.02)
Passed bias filter:                      307  (0.0171231); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.18s 00:00:00.65 Elapsed: 00:00:00.36
# Mc/sec: 2966.49
//
Query:       PHY93_10900|PHY93_10900  [L=440]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     4e-170  566.2  28.9   4.6e-170  566.0  28.9    1.0  1  Na_H_antiport_3  Putative Na+/H+ antiporter
  ------ inclusion threshold ------
      0.056   13.4   1.0      0.056   13.4   1.0    2.8  3  SVM_signal       SVM protein signal sequence
        2.8    7.9   9.5        0.2   11.6   1.6    2.9  2  PDR_CDR          CDR ABC transporter


Domain annotation for each model (and alignments):
>> Na_H_antiport_3  Putative Na+/H+ antiporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  566.0  28.9  7.6e-174  4.6e-170       2     419 .]      15     437 ..      14     437 .. 0.97

  Alignments for each domain:
  == domain 1  score: 566.0 bits;  conditional E-value: 7.6e-174
          Na_H_antiport_3   2 lelvaailfalAvvhtflaklferlahklpkha...ellhllgevevvFglWaivllvvlllvegleaaiayldsrnfteplFvvv 84 
                              le++++i+f++Av+htfl+++f+ +ah+++k++   +++hll+eve+vFg+W +v++++++l++g++ +i+yl+s nf ep+Fv+v
  PHY93_10900|PHY93_10900  15 LEIISSIIFFVAVIHTFLVSKFKMIAHRYAKNSityNIWHLLSEVEIVFGFWSFVFIALFALISGTKPTISYLESLNFSEPAFVFV 100
                              689**************************9999999************************************************** PP

          Na_H_antiport_3  85 imvvassrPilelaekvvrvvakllplesalalllvvlivvpllgslitEpaamtiaallLakqlykkevseklkYatlglLfvni 170
                              im+++++rPi+ +aek++   +kllp ++ l++++++li++pllgs+itEpaamt++a++L +++yk+++s klkYat++lLfvn+
  PHY93_10900|PHY93_10900 101 IMCMSATRPIILFAEKMIVNASKLLPFSERLSFYISALIIGPLLGSFITEPAAMTVTAMILLETIYKEKISLKLKYATISLLFVNV 186
                              ************************************************************************************** PP

          Na_H_antiport_3 171 Siggtltsfaappvlmvaekwkwdtafmlthfgwkaalailinalvvtllfrkelkelakkakekeaeeekek..vP.llvvlvhl 253
                              Siggtlt++aa pvlmva+kw+w + +ml hfg+k++lai+++++++t++frkel  +++k+++k+++  +++  +P  + v+vhl
  PHY93_10900|PHY93_10900 187 SIGGTLTAYAATPVLMVASKWQWGSLYMLEHFGYKSVLAIIVSTSLYTIFFRKELIGINRKKNSKKDTYIDKDyfIPgPWKVMVHL 272
                              *******************************************************8877776666554444334588678899*** PP

          Na_H_antiport_3 254 vflvlvvlfahhpaifiglfllflgfteateeyqerlklkeallVgfFlaglvvlgglqewWlqpvlesleelalffgataltait 339
                              +fl  vv++ahhp++fi++f++flgf+++te+yq++lk+ke+llV+fFlaglv lg +q+wWl+p+l+ + +l lffg+talt++ 
  PHY93_10900|PHY93_10900 273 CFLFSVVISAHHPIVFIAIFFIFLGFMMITEKYQDKLKIKESLLVSFFLAGLVCLGTMQAWWLKPLLSMMGDLVLFFGSTALTSVA 358
                              ************************************************************************************** PP

          Na_H_antiport_3 340 DnAaltyLaslveglsdelkyalvagavagGGLTvianapNpagvailkkkfedegisplkLllaAllPtlvaalaflll 419
                              DnAaltyL+slv+ lsd++kyalvagavagGGLTvianapNpag+ail ++f +egi+p++L+l+Al+Ptl+a+l++l+l
  PHY93_10900|PHY93_10900 359 DNAALTYLGSLVD-LSDSSKYALVAGAVAGGGLTVIANAPNPAGFAILGECFGKEGIKPFRLFLWALVPTLIAILCLLIL 437
                              ************9.9*************************************************************9875 PP

>> SVM_signal  SVM protein signal sequence
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -4.5   1.5         3   1.8e+04       8      17 ..      15      24 ..      13      25 .. 0.57
   2 ?   13.4   1.0   9.4e-06     0.056       9      29 ..     287     306 ..     283     306 .. 0.86
   3 ?   -3.4   0.3       1.6   9.4e+03       2      10 ..     309     317 ..     309     321 .. 0.74

  Alignments for each domain:
  == domain 1  score: -4.5 bits;  conditional E-value: 3
               SVM_signal  8 Llil.nIiLFi 17
                             L i+ +Ii F+
  PHY93_10900|PHY93_10900 15 LEIIsSII-FF 24
                             56774555.54 PP

  == domain 2  score: 13.4 bits;  conditional E-value: 9.4e-06
               SVM_signal   9 lilnIiLFifLGLfLItNnnq 29 
                               ++ I+ FifLG+++It  +q
  PHY93_10900|PHY93_10900 287 VFIAIF-FIFLGFMMITEKYQ 306
                              589999.*********98776 PP

  == domain 3  score: -3.4 bits;  conditional E-value: 1.6
               SVM_signal   2 fKlknqLli 10 
                              +K+k++Ll+
  PHY93_10900|PHY93_10900 309 LKIKESLLV 317
                              589999875 PP

>> PDR_CDR  CDR ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   1.6   3.4e-05       0.2      32      83 ..      41      92 ..      37      96 .. 0.84
   2 ?   -0.4   0.6      0.19   1.1e+03      52      72 ..     287     307 ..     273     318 .. 0.57

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 3.4e-05
                  PDR_CDR 32 ddYlelsfgyssshlwrnfgiliaflifflalyllatelisaekskgevlvf 83
                             ++Y ++s +y+  hl  ++ i+++f+ f +++ + +++  + + s  e l f
  PHY93_10900|PHY93_10900 41 HRYAKNSITYNIWHLLSEVEIVFGFWSFVFIALFALISGTKPTISYLESLNF 92
                             68************************99999988888777777666666655 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 0.19
                  PDR_CDR  52 iliaflifflalyllatelis 72 
                              + ia +++fl + +++ ++ +
  PHY93_10900|PHY93_10900 287 VFIAIFFIFLGFMMITEKYQD 307
                              344444444444444444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (440 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       812  (0.0452898); expected 358.6 (0.02)
Passed bias filter:                      263  (0.014669); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.36
# Mc/sec: 3644.98
//
Query:       PHY93_10905|PHY93_10905  [L=80]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.6e-18   66.3   2.0    3.3e-18   65.9   2.0    1.1  1  Fer4_13   4Fe-4S single cluster domain of Ferredoxin I
    3.2e-09   37.4   1.7    4.2e-09   37.0   1.7    1.1  1  Fer4_15   4Fe-4S single cluster domain


Domain annotation for each model (and alignments):
>> Fer4_13  4Fe-4S single cluster domain of Ferredoxin I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.9   2.0   3.7e-22   3.3e-18       3      57 ..      26      79 ..      24      80 .] 0.92

  Alignments for each domain:
  == domain 1  score: 65.9 bits;  conditional E-value: 3.7e-22
                  Fer4_13  3 rdtCiacgaCvelaPdvFeeddeggasvvaeqptseeekadaeeAadaCPvesIg 57
                              + Ciac++C+  aP++F+ed++g+ ++v++qp +++++++++e+++aCPv+sIg
  PHY93_10905|PHY93_10905 26 GEGCIACNVCYTGAPEFFKEDEDGN-AYVVKQPLTPADIELCQEQLEACPVASIG 79
                             689******************9966.5677************************7 PP

>> Fer4_15  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.0   1.7   4.7e-13   4.2e-09       6      64 ..      27      78 ..      24      79 .. 0.94

  Alignments for each domain:
  == domain 1  score: 37.0 bits;  conditional E-value: 4.7e-13
                  Fer4_15  6 daCigcglCvaeapevfeldedglasvllddgeiaegevpddeeeaaqeAaraCPvdAI 64
                             + Ci c++C++ ape+f++dedg a+v+       ++++++ ++e  qe  +aCPv+ I
  PHY93_10905|PHY93_10905 27 EGCIACNVCYTGAPEFFKEDEDGNAYVV-------KQPLTPADIELCQEQLEACPVASI 78
                             67***********************988.......59*******************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (80 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       545  (0.0303977); expected 358.6 (0.02)
Passed bias filter:                      354  (0.0197445); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.37u 0.22s 00:00:00.59 Elapsed: 00:00:00.38
# Mc/sec: 638.13
//
Query:       PHY93_10910|PHY93_10910  [L=577]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.7e-37  128.2   0.0    3.6e-37  127.1   0.0    1.6  1  PGM_PMM_I    Phosphoglucomutase/phosphomannomutase, alpha/bet
    4.6e-22   78.6   0.0    1.1e-21   77.3   0.0    1.7  1  PGM_PMM_II   Phosphoglucomutase/phosphomannomutase, alpha/bet
    2.2e-18   66.5   0.0      4e-18   65.7   0.0    1.4  1  PGM_PMM_III  Phosphoglucomutase/phosphomannomutase, alpha/bet
    2.2e-06   27.7   0.0    5.2e-06   26.5   0.0    1.6  1  PGM_PMM_IV   Phosphoglucomutase/phosphomannomutase, C-termina


Domain annotation for each model (and alignments):
>> PGM_PMM_I  Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  127.1   0.0   8.1e-41   3.6e-37       2     135 ..      51     188 ..      50     190 .. 0.95

  Alignments for each domain:
  == domain 1  score: 127.1 bits;  conditional E-value: 8.1e-41
                              GGBBTTCEEEECCHCT..BSCCHHHHHHHHHHHHCHHC.STS-EEEEEE-S-TTHHHHHHHHHHHHHCCT-CEEEEE.EB-HHHHH CS
                PGM_PMM_I   2 qkfgtsGlRgkvgege..ltpelveklgqaiaeylkae.akkkkvvvGrDtRvssrelaealaaglaanGvevillg.llptPavs 83 
                               +fgt G+R + g+g   ++ ++++k++qa++  + a+ + ++++++++D+R++s e+a+ +a+++a nG+ +++++ l p+ ++s
  PHY93_10910|PHY93_10910  51 LEFGTGGIRSILGQGInrINIYTIRKATQALCIEVLAQnTSNPSICISYDSRHFSFEFAKVAAEVMAGNGIRAYIYErLNPVAMLS 136
                              58***********88789************987666666*********************************************** PP

                              HHHHHCCECEEEEE--TTS-TTCCCEEEEETTTCE--CHHHHHHHHHHCCT- CS
                PGM_PMM_I  84 fairklkadagimitaSHnppeyngiKvylsnGgpispeveekIeaiiekee 135
                              f++r++k  ag+mitaSHnppeyng+Kv++s+G+++ p+ +++I +++++++
  PHY93_10910|PHY93_10910 137 FSVRHHKSMAGVMITASHNPPEYNGYKVFWSDGAQVIPPNDQNIINNYNSIS 188
                              **********************************************999875 PP

>> PGM_PMM_II  Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.3   0.0   2.5e-25   1.1e-21      16      99 ..     234     321 ..     218     326 .. 0.91

  Alignments for each domain:
  == domain 1  score: 77.3 bits;  conditional E-value: 2.5e-25
                              HHHHT-EEEEE-TT-TTHHHHHHHHHHTT-...EEEES-----TT-TT.SS----TT-TTTTHHHHGGGGG-SEEEEE-TTS-BEE CS
               PGM_PMM_II  16 ikksglkvvidplhGaggeilkellkelgv...dvvelnaepdpdfpt.kapnpeekealkllielvkkegadlglafDgDaDRlg 97 
                              +++++l++v++p hGag     ++l++lg+   ++v l+a pd++fpt k+pnpe+++alkl++el+++++ad+++  D+D DRlg
  PHY93_10910|PHY93_10910 234 KEGAKLRIVYTPIHGAGLIPCTRALRDLGFsdlHIVALQALPDGNFPTvKSPNPENPSALKLAVELMEETKADIVMGSDPDTDRLG 319
                              56779***************************99999************************************************* PP

                              EE CS
               PGM_PMM_II  98 vv 99 
                              v+
  PHY93_10910|PHY93_10910 320 VA 321
                              *9 PP

>> PGM_PMM_III  Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.7   0.0     9e-22     4e-18       2     104 ..     333     450 ..     332     460 .. 0.85

  Alignments for each domain:
  == domain 1  score: 65.7 bits;  conditional E-value: 9e-22
                              HHHHHHHHHHHHHCH.....CSTTTCEEEEETTS-THHHHHHHHTT-EEEEESSSCHHHHHHHHHTT.......ECEEEETTCEEE CS
              PGM_PMM_III   2 gdqllallakyllee.....klkpgagvvktvmtslalervakklgiklvetkvGdkyvleemkeeg.......avlGgEeSghii 75 
                              g+q+++l  +y+l++     kl ++   vk+++t+++l+ +ak++g ++++t +G+k+++ +m++ +       + ++ EeS +++
  PHY93_10910|PHY93_10910 333 GNQIGILKLHYILSQlkiqnKLTNNSYFVKSIVTTSLLDVIAKSFGTEVYNTLTGFKWICGKMNQIEksdpnkqFIFATEESFGYL 418
                              9************99988866666669*************************************9956667778************ PP

                              ETTTBSS--HHHHHHHHHHHHH...HHTS-HH CS
              PGM_PMM_III  76 fldeattkDGilaallvleila...etgksls 104
                               +++a++kDG+ ++++++e++     +g++l 
  PHY93_10910|PHY93_10910 419 SHTYARDKDGVSSVAMMAEVALfykLQGMDLL 450
                              *******************9875433345554 PP

>> PGM_PMM_IV  Phosphoglucomutase/phosphomannomutase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.5   0.0   1.2e-09   5.2e-06      23      54 ..     510     545 ..     479     568 .. 0.78

  Alignments for each domain:
  == domain 1  score: 26.5 bits;  conditional E-value: 1.2e-09
                              H....HCCCCCCCCGCCEEEE.EEEETTCCEEEEEE CS
               PGM_PMM_IV  23 a....sikeglkilledGrrlavRpSGTepllrvyv 54 
                              +    + +++l +++e+G  + +RpSGTep++++y+
  PHY93_10910|PHY93_10910 510 GyadlPKSNVLGFFFENGDQFYLRPSGTEPKIKFYI 545
                              144558899**************************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (577 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       393  (0.0219198); expected 358.6 (0.02)
Passed bias filter:                      337  (0.0187964); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.58u 0.23s 00:00:00.81 Elapsed: 00:00:00.42
# Mc/sec: 4146.52
//
Query:       PHY93_10915|PHY93_10915  [L=230]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.5e-67  226.4   0.0    2.9e-67  226.2   0.0    1.0  1  QueC            Queuosine biosynthesis protein QueC
    0.00011   21.8   0.1        0.1   12.2   0.0    2.2  2  ThiI            Thiamine biosynthesis protein (ThiI)
  ------ inclusion threshold ------
      0.014   15.1   0.0      0.018   14.7   0.0    1.1  1  Asn_synthase    Asparagine synthase
      0.024   14.4   0.1       0.26   11.0   0.0    2.0  2  ATP_bind_3      PP-loop family
      0.047   12.8   0.1       0.17   10.9   0.0    1.8  2  NAD_synthase    NAD synthase
       0.11   10.7   0.1       0.12   10.5   0.1    1.1  1  Glyco_hydro_70  Glycosyl hydrolase family 70


Domain annotation for each model (and alignments):
>> QueC  Queuosine biosynthesis protein QueC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  226.2   0.0   9.6e-71   2.9e-67       2     209 ..       7     216 ..       6     217 .. 0.96

  Alignments for each domain:
  == domain 1  score: 226.2 bits;  conditional E-value: 9.6e-71
                              EEEE--SSHHHHHHHHHHHHH-SEEEEEEEESS-T.TSHHHHHHHHHHHHT-..-.-EEEEE-GGGGGGSCGGG-----------. CS
                     QueC   2 avvllSGGlDSttvlalakkegkevealtfdYgqr.hkkeleaakkiakelg..veehkildldllkelggsaLtdeeievpkeel 84 
                              av+l+SGG+DS + +a+a    ++++ l+++Ygq+ +++el ++kkia+ ++  v+++ki+d+++lk++ggs+Ltd+ i+v+k + 
  PHY93_10915|PHY93_10915   7 AVCLVSGGMDSLVTAAIADTLHERLAFLHLNYGQKtEERELASFKKIAEFYKvpVSHQKIIDVSFLKQIGGSSLTDDAINVKKYKG 92 
                              89*********************************9************98884468999*************************** PP

                              ..--------TTHHHHHHHHHHHHHHHHT-SEEEE---S-STT--GGGSHHHHHHHHHHHHHH.HTS--EEE-TTTT--HHHHHHH CS
                     QueC  85 eeeelpntfVpaRNliflslaasyaealgaeaiiiGvneedfsgYPDcrdefvkalnkalnlg.edkkieieaPlidlsKaeivkl 169
                              ++ e+p ++Vp+RN+ ++s+a+s+ae +ga++i+iG+  ed+sgYPDcr+ + +a+n++++ g ++ +ie+ +P+i l+K eivk 
  PHY93_10915|PHY93_10915  93 DDVEIPDSYVPFRNTHIISMAVSWAEVVGAKKIYIGAVYEDSSGYPDCRPSYYEAMNALIKQGtKNGDIEVITPVIYLKKDEIVKK 178
                              ***************************************************************66679****************** PP

                              HHHTTHHHHH-B-STTS.-BTTTTSSSHHHHHHHHHHHHH CS
                     QueC 170 gkelgvpleetlsCYegeeegkaCgeCdaCalRkkgfeea 209
                              + el +ple ++sCYe++++  aCg Cd+CalR +gf++a
  PHY93_10915|PHY93_10915 179 ALELHAPLEFSWSCYEKNDR--ACGVCDSCALRLRGFQKA 216
                              *****************555..***************997 PP

>> ThiI  Thiamine biosynthesis protein (ThiI)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.2   0.0   3.3e-05       0.1       4      56 ..       5      57 ..       2      81 .. 0.80
   2 !    7.7   0.0   0.00081       2.4     135     161 ..     158     184 ..     149     204 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 3.3e-05
                     ThiI  4 gkvlaLlSgGiDSpVaaylllkRGcrvvlvhlknepgtseeaiekveklaell 56
                             + +++L+SgG+DS V+a ++     r  ++hl+    t+e++    +k+ae +
  PHY93_10915|PHY93_10915  5 DLAVCLVSGGMDSLVTAAIADTLHERLAFLHLNYGQKTEERELASFKKIAEFY 57
                             5689*************999999999999999777777777778888887755 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.00081
                     ThiI 135 vvnllilrPLigldKeeiiklAkeigt 161
                              + ++ ++ P+i l K+ei+k A e+  
  PHY93_10915|PHY93_10915 158 NGDIEVITPVIYLKKDEIVKKALELHA 184
                              55899****************998864 PP

>> Asn_synthase  Asparagine synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.0   6.1e-06     0.018      21      74 ..       8      63 ..       1      74 [. 0.82

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 6.1e-06
             Asn_synthase 21 GalLSGGlDSSliaalaarqsksplktFsigfee.kgsdeakyakevaehlgte..h 74
                              +l SGG+DS + aa+a+  ++ +l   ++ + +  +  e++  k++ae ++++  h
  PHY93_10915|PHY93_10915  8 VCLVSGGMDSLVTAAIADTLHE-RLAFLHLNYGQkTEERELASFKKIAEFYKVPvsH 63
                             5899***************997.9********4448888999999999999988533 PP

>> ATP_bind_3  PP-loop family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   8.7e-05      0.26       6      66 ..      11      66 ..       6      84 .. 0.79
   2 ?    1.1   0.0     0.095   2.8e+02     129     155 ..     152     178 ..     141     186 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 8.7e-05
                             --SCHHHHHHHHHHHHHCTTTTTEEEEEEEE-SSSTCHHHHHHHHHHHHHHTT-EEEEEE- CS
               ATP_bind_3  6 vSgGlDSmaLllllaklkkklgiklvaihvdhglreeskeeaelvkelckklnikleiekv 66
                             vSgG+DS++   ++ +l++    +l+ +h+++g ++e + e +  k++++ +++++  +k+
  PHY93_10915|PHY93_10915 11 VSGGMDSLVTAAIADTLHE----RLAFLHLNYGQKTEER-ELASFKKIAEFYKVPVSHQKI 66
                             9******998888888866....899*******987755.555668888888888777665 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.095
                              S-SEEEETTCCEE-CCCT--HHHHHHH CS
               ATP_bind_3 129 ikeaseiasirlvRPlLkvskeeleey 155
                              ik+ ++  +i+++ P++ ++k+e+ + 
  PHY93_10915|PHY93_10915 152 IKQGTKNGDIEVITPVIYLKKDEIVKK 178
                              666777788**************9875 PP

>> NAD_synthase  NAD synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   5.8e-05      0.17      22      81 ..       8      66 ..       2      87 .. 0.80
   2 ?   -0.8   0.0      0.22   6.7e+02     138     169 ..     155     185 ..     146     190 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 5.8e-05
                             EEEE-SSHHHHHHHHHHHHHHTCGEEEEEE--SSSTTHHHHHHHHHHHHHHTSEEEE--- CS
             NAD_synthase 22 vlGlSGGvDSslvaalavkalgkenvlalllPssvsseedvedalalaenlgievktidi 81
                             v  +SGG+DS ++aa+a ++ ++  +l l   +++++e+++   +++ae +++ v + +i
  PHY93_10915|PHY93_10915  8 VCLVSGGMDSLVTAAIADTLHERLAFLHLNY-GQKTEERELASFKKIAEFYKVPVSHQKI 66
                             5558*************99997777777766.8888899999888888887777666655 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 0.22
                              S-TTTTT--SBETTTTS-HHHHHHHHHHTT-- CS
             NAD_synthase 138 fTkyGDgaadlapiaellKtevkeLakelnvP 169
                              +Tk GD+ + + p+  l K e+ + a el +P
  PHY93_10915|PHY93_10915 155 GTKNGDIEV-ITPVIYLKKDEIVKKALELHAP 185
                              799999987.8999999999998888888777 PP

>> Glyco_hydro_70  Glycosyl hydrolase family 70
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.1   4.1e-05      0.12     302     392 ..      65     155 ..      24     167 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 4.1e-05
           Glyco_hydro_70 302 kiikaeinpkedglaftleelkkafkiynedlkaaekkytqyniasayallltnkdsv..prvyyGdlytddGqymatkspyydai 385
                              kii   + ++  g + t + ++   k y  d  +    y  +  +   ++ ++  + v   ++y G +y d   y   +  yy+a+
  PHY93_10915|PHY93_10915  65 KIIDVSFLKQIGGSSLTDDAIN--VKKYKGDDVEIPDSYVPFRNTHIISMAVSWAEVVgaKKIYIGAVYEDSSGYPDCRPSYYEAM 148
                              5666666666666666666554..46676666666666766655555555555444442279************************ PP

           Glyco_hydro_70 386 etllkar 392
                              ++l+k  
  PHY93_10915|PHY93_10915 149 NALIKQG 155
                              ****975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (230 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       518  (0.0288917); expected 358.6 (0.02)
Passed bias filter:                      432  (0.024095); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.45u 0.20s 00:00:00.65 Elapsed: 00:00:00.37
# Mc/sec: 1885.82
//
Query:       PHY93_10920|PHY93_10920  [L=88]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (88 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       327  (0.0182386); expected 358.6 (0.02)
Passed bias filter:                      311  (0.0173462); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.34u 0.23s 00:00:00.57 Elapsed: 00:00:00.35
# Mc/sec: 747.16
//
Query:       PHY93_10925|PHY93_10925  [L=351]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.2e-71  239.6   0.0    6.7e-71  238.9   0.0    1.3  1  DHO_dh    Dihydroorotate dehydrogenase


Domain annotation for each model (and alignments):
>> DHO_dh  Dihydroorotate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  238.9   0.0   3.7e-75   6.7e-71       5     294 ..      57     337 ..      53     338 .. 0.93

  Alignments for each domain:
  == domain 1  score: 238.9 bits;  conditional E-value: 3.7e-75
                              EETTEEESSSEEE-TTSSTTSSSHHHHHCTTSSEEEEEEE-SS-B--S-S--EEEETTCTEEEE---S-BS-HHHHHHHHHHHHHH CS
                   DHO_dh   5 kvlglkfknpiglAaGfdkegeeilkllklgfgaieigsvtpkpqeGnpkPrvfrlkedrsvlNslGlnneGldavlekllkrrke 90 
                              + +gl fk+piglAaG+dk++++i+ l  l f+++e+g+vtp pq GnpkPr+fr   ++s+ N +G+nn G++++l+++++  ++
  PHY93_10925|PHY93_10925  57 EAMGLSFKGPIGLAAGLDKNATAINFLTYLPFSFVEVGTVTPLPQGGNPKPRLFRYIDEESLRNCMGFNNAGAETILKNIQNSDRR 142
                              6789*****************************************************************************99977 PP

                              HHCC.CEEEEEEE-TTS..S.HHHHHHHHHHHHGGGESEEEEES-SCTCCTSCCCGCHHHHHHHHHHHHHHHH..SSEEEEEE-SS CS
                   DHO_dh  91 qeekkelginlskakkt..enavddyvevvrkigpfadilelNvSsPntpglrdlqekeelkaillkvvkevs..kvpvlvKlaPd 172
                               e  k+lg+nl+k+k t  ++a +dy+ + +k++p  d+l++NvSsPntpglrdl ++e l+ i+ +v ++++  + p+lvK++Pd
  PHY93_10925|PHY93_10925 143 -E--KILGVNLGKNKITpnDQAFNDYAILYEKFAPHCDYLVINVSSPNTPGLRDLLQDEGLRDIFKAVTEKRKkcHRPLLVKVSPD 225
                              .3..48**********998999*******************************************999999987789********* PP

                              SSHHHHHHHHHHHHHHTECEEEE...BSEE--CTTCCGCCCCTTSSEEEEEGGGHHHHHHHHHHHHHHTTT...S-EEEESS--SH CS
                   DHO_dh 173 ltdeekkdiadvllelkldgiivtNttvqrlaidlkseknvkanktGGlsGkalkdialkvirelykrlkk..eipiIgvGGiesg 256
                              ++++e   ++++++e +l+gii+tNtt++ +             ++GG+sGk l + a ++ + l ++lk+   i +IgvGG +s 
  PHY93_10925|PHY93_10925 226 MNQQELSSVVNLVKEYELSGIIATNTTIMPE------------RGAGGVSGKLLFEKARNTRMFLLEQLKEtpAIELIGVGGFSSY 299
                              **************************99877............358********98888887777777764226************ PP

                              HHHHHHHHHTECEEEESHHHHHHGTCHHHHHHHHHHHH CS
                   DHO_dh 257 eDalekieaGAslvqvytalvfegpkiakkikkeleel 294
                              eD l+  + G  l+q+y+a+vf+gpki ++i+k+l++ 
  PHY93_10925|PHY93_10925 300 EDCLDFWKMGGRLIQLYSAFVFQGPKILHDIEKKLADD 337
                              **********************************9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (351 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       371  (0.0206927); expected 358.6 (0.02)
Passed bias filter:                      359  (0.0200234); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.36
# Mc/sec: 2903.96
//
Query:       PHY93_10930|PHY93_10930  [L=307]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0056   16.0   0.2     0.0098   15.2   0.2    1.5  1  CsgG      Curli production assembly/transport component CsgG
     0.0086   16.6   0.3       0.02   15.4   0.0    1.8  2  FlgT_C    Flagellar assembly protein T, C-terminal domain
  ------ inclusion threshold ------
      0.021   14.8   0.1      0.077   13.0   0.1    2.0  1  DbpA      DbpA RNA binding domain


Domain annotation for each model (and alignments):
>> CsgG  Curli production assembly/transport component CsgG
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.2   1.6e-06    0.0098      69     206 ..      97     222 ..      46     226 .. 0.76

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 1.6e-06
                              HHHHHHHHTTT.T-----S----SEEEEEEEEEEEEEEEEEEEEEEHHTEEEEEEEEEEEEEEEEEEEETTT-BEEEEEEEEEEEE CS
                     CsgG  69 relirsgrkka.taaqlgkllgAdllveGsitaydvnvktgGgGarylGigasskkreanvtvdlRlVdvstgevlasvtvegkas 153
                              +e++  g  k  +    +k++g ++++ G+++   v  k+  +G     i ++++k+  + +v++R+ dv++g+ ++ +t  g a+
  PHY93_10930|PHY93_10930  97 KEIYVGGGMKLvQLTRQAKIAGINFVIFGRVIDARVREKSDEIG-----I-VRQTKSYTESKVEVRVFDVNAGKEIYTETLGGYAD 176
                              5555555555556667789*************888888777777.....6.9999999999************************* PP

                              EEEEEEEEEEEEGGGGGEEEEEEEEE-HHHHHHHHHHHHHHHHHHHHHHTTSS CS
                     CsgG 154 sseisagvfrfigkgllegeagstknepvelavraaieqavkeliagveelaa 206
                              +s+ +        +   e +  s+ + ++  avr a+ + v ++++ +++l++
  PHY93_10930|PHY93_10930 177 DSTYRFF------ASDREDYL-SYRRDLLRYAVRVAVRKSVPKVVEMASKLDW 222
                              9999877......44445444.4566788888888888888888887777777 PP

>> FlgT_C  Flagellar assembly protein T, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0       1.8   1.1e+04      37      48 ..     146     157 ..     135     162 .. 0.57
   2 !   15.4   0.0   3.3e-06      0.02       1      26 [.     231     256 ..     231     301 .. 0.75

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 1.8
                   FlgT_C  37 aelnkseatltV 48 
                              + +++s+++++V
  PHY93_10930|PHY93_10930 146 KSYTESKVEVRV 157
                              344556666655 PP

  == domain 2  score: 15.4 bits;  conditional E-value: 3.3e-06
                   FlgT_C   1 gnrvvinlGrkhGvkkGDklqlvrsa 26 
                              g ++++n+Gr++G++ GD l+++ + 
  PHY93_10930|PHY93_10930 231 GTKIYLNAGRESGINIGDILKIITEG 256
                              5789*****************99775 PP

>> DbpA  DbpA RNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.1   1.3e-05     0.077       2      27 ..     234     259 ..     233     267 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 1.3e-05
                              EEES-SGGGT--HHHHHHHHHTCTTB CS
                     DbpA   2 lfinvGkkdklrpgdivgaiakeagl 27 
                              +++n+G++ +++ gdi+++i++ +++
  PHY93_10930|PHY93_10930 234 IYLNAGRESGINIGDILKIITEGTEI 259
                              89*******************98776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (307 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       471  (0.0262703); expected 358.6 (0.02)
Passed bias filter:                      400  (0.0223102); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.47u 0.17s 00:00:00.64 Elapsed: 00:00:00.34
# Mc/sec: 2719.13
//
Query:       PHY93_10935|PHY93_10935  [L=391]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.052   13.4   0.1       0.12   12.2   0.1    1.7  1  Whirly    Whirly transcription factor
       0.31   10.9   2.0         14    5.5   0.2    2.3  2  zf-ZPR1   ZPR1 zinc-finger domain
        2.4    7.9   5.5       0.47   10.1   0.2    2.5  3  VraX      Family of unknown function


Domain annotation for each model (and alignments):
>> Whirly  Whirly transcription factor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.1     2e-05      0.12      11      87 ..     224     300 ..     216     327 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 2e-05
                              EEE--EEEEEGGGTEEEEE--EEEEEEEEEEETTEE-GGG-EEEEE-HHHHHHHHT--TT--EEEEE---------- CS
                   Whirly  11 elvkptfeklesgklkvkreGvvlLefapavgerqYdwekkqvfaLSatElgellslaakksleffHdpslgkseeg 87 
                              e  ++++e + ++ l+  ++G +lL f  +v +r++d ++k+ ++ S   l+  l l++++ ++   ++++++ e++
  PHY93_10935|PHY93_10935 224 ENHSASYELSAHYVLQNAKSGLILLAFDFPVQKRDFDIKNKKALSSSLASLVYNLLLSQTSKINSIIEANAKTIEQA 300
                              55677889999999999*************************99988776665555555555555555555555555 PP

>> zf-ZPR1  ZPR1 zinc-finger domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.1    0.0041        25      77     131 ..      22      86 ..      18      98 .. 0.66
   2 ?    5.5   0.2    0.0024        14      69     119 ..     288     339 ..     258     366 .. 0.74

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.0041
                  zf-ZPR1  77 tveipeleleippgtlegrlttvEGlLeqikeele....ke.....egdqaered.eekekieef 131
                              ++e++ l+ +++++ +e +l t+ G+ + +++ele    ++     + +q++ ++ ee++ ++++
  PHY93_10935|PHY93_10935  22 SLEVRALGSDVTAEMNEEQLLTLNGFRQAVTSELEdlklNSelfwsKLEQKKMKAsEETAFLQNL 86 
                              6789999999************************9665411444332222222222333333333 PP

  == domain 2  score: 5.5 bits;  conditional E-value: 0.0024
                  zf-ZPR1  69 qvlkSetatveipeleleippgtlegrlttvEGlLeqikeele.keegdqae 119
                               ++ ++  t+e  e+e++i ++++  ++  +  lL++  ++l+ ++++++ +
  PHY93_10935|PHY93_10935 288 SIIEANAKTIEQAEVEIKIVSKSSLTEIFQINSLLQERFNDLKlSSQMKSYS 339
                              56777778889999999999999999****************8632333322 PP

>> VraX  Family of unknown function
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.1      0.78   4.7e+03      32      51 ..     135     152 ..     124     154 .. 0.64
   2 ?   -1.4   0.1      0.31   1.8e+03      23      35 ..     206     218 ..     204     223 .. 0.76
   3 ?   10.1   0.2   7.9e-05      0.47      24      55 .]     301     332 ..     286     332 .. 0.83

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 0.78
                     VraX  32 tFnktEiykLLsLLenDvDn 51 
                              +  k   + LL+L+  D+Dn
  PHY93_10935|PHY93_10935 135 AATKLKSFYLLALI--DIDN 152
                              44566678888887..5555 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.31
                     VraX  23 ktitikcDetFnk 35 
                              k +t+k   tF k
  PHY93_10935|PHY93_10935 206 KSVTLKWTSTFKK 218
                              6678888888876 PP

  == domain 3  score: 10.1 bits;  conditional E-value: 7.9e-05
                     VraX  24 titikcDetFnktEiykLLsLLenDvDnmkvs 55 
                               + ik+    + tEi+++ sLL++  +++k+s
  PHY93_10935|PHY93_10935 301 EVEIKIVSKSSLTEIFQINSLLQERFNDLKLS 332
                              578999999999************99999987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (391 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       925  (0.0515924); expected 358.6 (0.02)
Passed bias filter:                      422  (0.0235373); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.37
# Mc/sec: 3200.14
//
Query:       PHY93_10940|PHY93_10940  [L=1202]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   1.6e-100  336.0   0.0   4.4e-100  334.6   0.0    1.8  1  DNA_pol3_alpha   Bacterial DNA polymerase III alpha NTPase do
    1.3e-61  206.8   0.0    2.8e-61  205.7   0.0    1.6  1  DNA_pol3_finger  Bacterial DNA polymerase III alpha subunit f
    6.8e-55  185.9   0.4    1.3e-54  185.0   0.4    1.5  1  PHP              PHP domain
    1.8e-23   82.6   0.0      6e-23   80.9   0.0    2.0  1  HHH_6            Helix-hairpin-helix motif
    6.8e-07   29.2   0.0    1.5e-06   28.1   0.0    1.6  1  tRNA_anti-codon  OB-fold nucleic acid binding domain
     0.0062   16.7   0.0      0.015   15.5   0.0    1.6  1  tRNA_anti_2      OB-fold nucleic acid binding domain
  ------ inclusion threshold ------
      0.012   15.6   0.0      0.033   14.2   0.0    1.7  1  DUF4539          Domain of unknown function (DUF4539)


Domain annotation for each model (and alignments):
>> DNA_pol3_alpha  Bacterial DNA polymerase III alpha NTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  334.6   0.0  1.7e-103  4.4e-100       7     260 .]     341     593 ..     322     593 .. 0.98

  Alignments for each domain:
  == domain 1  score: 334.6 bits;  conditional E-value: 1.7e-103
                              HHHHHHHHSTT---TTHHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHHTT--B-S--GGGGG-HHHHHTTS----HHHHT--HHH CS
           DNA_pol3_alpha   7 veeglkerlkeelpeevkerlekElevIekmgfadyflivadlvkaakkkgilvGpgRGSaagslvayllgiTeidPlkydllFer 92 
                              ++ +l+e +++e++ ++ +rle El++I kmgf++yfliv+d++k+ak++g++vGpgRGS+ags+vay+l+iT++dP+ ++llFer
  PHY93_10940|PHY93_10940 341 TKLRLQENWETEIKPKYMQRLEDELAMILKMGFPGYFLIVSDFIKWAKSNGCPVGPGRGSGAGSIVAYALDITNVDPIPFNLLFER 426
                              56678888899*************************************************************************** PP

                              HS-TTS-------EEEEGGGHHHHHHHHHHHH-TTTEEEEEEEEE--HHHHHHHHHHHH-GGHHHHHHHHHTS---SS--GGGG-- CS
           DNA_pol3_alpha  93 FlnpervsmPDiDidfekerreevidyvkekyGkenvaqiitfgtlaakaairdvgralglplkevdklaklipkelgitlekale 178
                              F+npervsmPD+D+df++e+r +vi+yv++kyG+e+v qiitfg+l+aka+i+dv r++gl+++e+d l+klip+el++tlekale
  PHY93_10940|PHY93_10940 427 FINPERVSMPDFDVDFCQENRYKVIEYVTKKYGEERVGQIITFGKLQAKAVIKDVSRVFGLTFSEADVLSKLIPDELKMTLEKALE 512
                              ************************************************************************************** PP

                              ---SHHHHHHH-HHHHHHHHHHHTTTT-EEEEEEEEEEEEE-SS-GGGTS-EEE-TTT--EEESS-HHHHHTTT-EEEEEEE CS
           DNA_pol3_alpha 179 eekelkelieedeevkrlvelakkleglkrntgqHaaGvvispkeltdlvPlqkaekeeevvtqfdmedledlgllKlDfLG 260
                               e++l el++ d+++k++v+++++legl r++++HaaGv+i++ +l++++Pl k  +e+e+v+qfd++  e++gl+K+DfLG
  PHY93_10940|PHY93_10940 513 LEPKLTELMDGDPRIKQVVNISRRLEGLLRHASIHAAGVIITNMPLVNYCPLFK-GREGEKVIQFDKDFSEKIGLVKFDFLG 593
                              ******************************************************.99************************9 PP

>> DNA_pol3_finger  Bacterial DNA polymerase III alpha subunit finger domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  205.7   0.0   1.1e-64   2.8e-61       1     165 [.     596     760 ..     596     761 .. 0.99

  Alignments for each domain:
  == domain 1  score: 205.7 bits;  conditional E-value: 1.1e-64
                              HHHHHHHHHHHHHHHH-----GGG--S--HHHHHHHHHT--TTSTT--SHHHHHHHHHH---SHHHHHHHHHHSSHHHHHTTHHHH CS
          DNA_pol3_finger   1 tltiirralklikekkgkeidleeipleDkkvykllskgdtlGvfqlesrgmrqllkrlkPktfeDlvalvaLyRpgpvqggnvdd 86 
                              tlt+i++a++ ik++k +++d+e+i+leD++vy+ +skg+t+Gvfqles+gm +l+kr+ P +++D+ a++aLyRpgp+++g+vd+
  PHY93_10940|PHY93_10940 596 TLTVIENATNFIKRDKVSDFDIENIDLEDQNVYDFISKGETVGVFQLESSGMIDLCKRIAPGSIDDISAINALYRPGPLESGMVDE 681
                              79************************************************************************************ PP

                              HHHHHTTSS----SSHHHTTTTTTTTT---BHHHHHHHHHHHH---HHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHT CS
          DNA_pol3_finger  87 yikrkngeekveyihpeleeiLketygvivyQEqvmqiaqvlagfslgeAdllrramgkkkeeeleklkekfiegaken 165
                              +i+ k+g++ ++y+  +le++Lk+tygvi+yQEqvm++a+++ag+slg+Ad+lrramgkkk +e++k++e f+ gake+
  PHY93_10940|PHY93_10940 682 FIEIKHGRKLTHYPFASLEAVLKDTYGVIIYQEQVMNVARIVAGYSLGQADMLRRAMGKKKADEMAKHRELFLAGAKER 760
                              ****************************************************************************997 PP

>> PHP  PHP domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  185.0   0.4   5.1e-58   1.3e-54       1     166 [.      13     196 ..      13     197 .. 0.97

  Alignments for each domain:
  == domain 1  score: 185.0 bits;  conditional E-value: 5.1e-58
                              EEEE--CCC--.S-H..HHHHHHHHHCT-SEEEEEEEEBTTHHHHHHHHHHHHTTTTSEEEEEEE..................... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx............. RF
                      PHP   1 dlHvHteyslldgalsieelvkkakelglkaiaiTDhgnlfgyvefykaakkkykagikpiiGleayvaddse............. 73 
                              +lH+Ht+yslldga+++++l+k+akelg +aia TDhgn+fg+++fy ++   ++agikpi+G e+y++++s+             
  PHY93_10940|PHY93_10940  13 HLHLHTQYSLLDGAIRLKDLIKRAKELGVPAIAQTDHGNMFGAIDFYTQC---KAAGIKPILGSEIYFTPGSRfekgalkkqkvvg 95 
                              9*************************************************...8899***************************** PP

                              .................E....EHHHHHHHHHHHHH..........HHHHHHS...................TTGGHHHHHHHHHH CS
                              .......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxx RF
                      PHP  74 .......kerpshltllaknqeGyknllkllskaylegfyrkpridkellekhsegLivlsgclkGevfe.aldlieveekaeeal 151
                                     + + +hl+ll+kn++Gy+nl+klls+ay+egfy+kpr d ell++++egLi++++clkGev+  ++   e ++ka +a+
  PHY93_10940|PHY93_10940  96 sqdemesRHQIHHLILLCKNETGYHNLCKLLSRAYMEGFYYKPRADYELLREFKEGLICTTACLKGEVGYnFF--TEQDDKAIKAI 179
                              **********************************************************************555..567888***** PP

                              HHHHHC...T-EEEEEG CS
                              xxxxxxx..xxxxxxxx RF
                      PHP 152 eelakif..gdyiEint 166
                              e+l++ f  ++y+Ei+ 
  PHY93_10940|PHY93_10940 180 EKLRDLFgeDFYLEIQE 196
                              ***************96 PP

>> HHH_6  Helix-hairpin-helix motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   80.9   0.0   2.3e-26     6e-23       2      89 ..     835     923 ..     834     924 .. 0.94

  Alignments for each domain:
  == domain 1  score: 80.9 bits;  conditional E-value: 2.3e-26
                    HHH_6   2 vevlppdvnrSeadftveeedgairlGLaaikglgeaaaerivaeRekegpfksledlarrvds..lnkrqleaLakaGaldsl.g 84 
                              +ev+pp vn+S + f+v   +++ir+G++aik++g++a+e++v+eR ++gp++ + ++++rv+   +n+r++e+L+k+Ga+d+  +
  PHY93_10940|PHY93_10940 835 IEVMPPAVNESLWPFNVV--GTNIRFGMGAIKNVGRNAVEEVVRERVENGPYTGFVNFCERVNLkvINTRVIESLIKVGAFDECeK 918
                              89***************9..777************************************************************945 PP

                    HHH_6  85 lnRrq 89 
                              lnR++
  PHY93_10940|PHY93_10940 919 LNRKT 923
                              58876 PP

>> tRNA_anti-codon  OB-fold nucleic acid binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.1   0.0   5.8e-10   1.5e-06       2      75 ..    1029    1104 ..    1028    1105 .. 0.91

  Alignments for each domain:
  == domain 1  score: 28.1 bits;  conditional E-value: 5.8e-10
                               EEEEEEEEEE...EEEETTEEEEEEEETTEEEEEEEETHHHHHHHTTS-TTSEEEEEEEEEECTTSSEEEEEEEEEE CS
          tRNA_anti-codon    2 tvaGrvtsis...drsggkvifidlrDgtgriqvvlfreeatklaenlkeGdvvrvtGrvkrrpggelelkveeiel 75  
                               t+aG++++++   +++g k++f++l+D +g+i++++f++ + ++   l  +  v v+G+ +  +     + +e+i l
  PHY93_10940|PHY93_10940 1029 TLAGKISAKKvilTKKGDKMCFATLEDLSGKIECIVFPKVFAEFETILNSDEPVLVEGYSNLQESP-RKIFAEKIHL 1104
                               799***********************************99999999999*********98888777.7788888776 PP

>> tRNA_anti_2  OB-fold nucleic acid binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   5.9e-06     0.015       9      80 ..    1015    1090 ..    1010    1095 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 5.9e-06
              tRNA_anti_2    9 aikelleaelkkavwvrGeisnlk...rka.sghvYftLkDekakisavifrsraaklkftledGmkVlvkgrlsv 80  
                               ++++ l ++ k+++++ G is  k   +k+  ++++ tL D + ki++++f + +a+ ++ l++++ Vlv+g  ++
  PHY93_10940|PHY93_10940 1015 HVQDFLGSDQKRTMTLAGKISAKKvilTKKgDKMCFATLEDLSGKIECIVFPKVFAEFETILNSDEPVLVEGYSNL 1090
                               577778555567899*******99987544488********999************99999*********998765 PP

>> DUF4539  Domain of unknown function (DUF4539)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   1.3e-05     0.033      14      57 ..    1041    1084 ..    1035    1116 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 1.3e-05
                  DUF4539   14 ntlnslgdalvtlkDptGeidgtihrkvleeygkdlsvGavllL 57  
                                t+++++ +++tl+D +G+i++++  kv+ e++ +l+++  +l 
  PHY93_10940|PHY93_10940 1041 LTKKGDKMCFATLEDLSGKIECIVFPKVFAEFETILNSDEPVLV 1084
                               46777778**************************9988766665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1202 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       538  (0.0300073); expected 358.6 (0.02)
Passed bias filter:                      457  (0.0254894); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.78u 0.23s 00:00:01.01 Elapsed: 00:00:00.39
# Mc/sec: 9135.74
//
Query:       PHY93_16820|PHY93_16820  [L=284]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.7e-26   93.4   0.0    2.9e-26   92.6   0.0    1.4  1  ABC_tran     ABC transporter
    2.6e-10   40.6   0.8    0.00037   20.4   0.0    2.3  2  AAA_21       AAA domain, putative AbiEii toxin, Type IV TA sy
    0.00028   20.7   1.7    0.00086   19.1   1.7    1.8  1  AAA_15       AAA ATPase domain
  ------ inclusion threshold ------
      0.024   14.6   0.4       0.13   12.1   0.0    2.2  2  RsgA_GTPase  RsgA GTPase
      0.025   15.3   2.3      0.059   14.1   2.2    1.7  1  DUF4162      Domain of unknown function (DUF4162)
      0.048   14.2   0.2        0.1   13.2   0.2    2.0  1  AAA_18       AAA domain
      0.056   13.2   0.1       0.11   12.2   0.1    1.4  1  AAA_29       P-loop containing region of AAA domain
      0.067   12.8   1.0        1.1    8.8   0.0    2.2  2  cobW         CobW/HypB/UreG, nucleotide-binding domain
        0.2   12.2   7.1       0.12   12.8   1.6    2.2  2  AAA_23       AAA domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   92.6   0.0   1.5e-29   2.9e-26       1     136 [.      23     165 ..      23     166 .. 0.94

  Alignments for each domain:
  == domain 1  score: 92.6 bits;  conditional E-value: 1.5e-29
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH....... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren....... 79 
                              ++nvs+ +++g +++++G nGaGK+tL+k+l+  +++t+G++++d  ++  q+ ++ +++ig+lp+ p l p+lt re        
  PHY93_16820|PHY93_16820  23 VDNVSFRIEAGDLIGFLGANGAGKTTLIKILMDFSRQTSGNMNFD--KIMGQNSNEIKASIGYLPERPYLYPHLTGREFleyvgnl 106
                              58****************************************888..5555669************************9******* PP

                              ......HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              ......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ......esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                                    + + +i+ + +k+++ +   +      +++S+G+ qr+  + +l+ +pkll+lDEp 
  PHY93_16820|PHY93_16820 107 nsinpeNLETRINSWSEKMQIAHALGKLT----KEYSKGMLQRLGFVSCLIHNPKLLVLDEPL 165
                              **999999999***********9888888....*****************************7 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.5   6.7e-07    0.0013       3      56 ..      37      87 ..      35     124 .. 0.67
   2 !   20.4   0.0   1.8e-07   0.00037     208     297 ..     137     195 ..     110     199 .. 0.81

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 6.7e-07
                   AAA_21  3 vliGpNgsGKSnLLdaldllarldrdvegltdelsggggirkipslldlydpei 56
                             ++ G+Ng+GK++L+++l  ++r ++++++  +++   g+++  ++ + +y pe 
  PHY93_16820|PHY93_16820 37 GFLGANGAGKTTLIKILMDFSR-QTSGNM--NFDKIMGQNSNEIKASIGYLPER 87
                             789**************66544.333333..33333555555555555555555 PP

  == domain 2  score: 20.4 bits;  conditional E-value: 1.8e-07
                   AAA_21 208 liasvderlrergvvflengdgqelparelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQvi 293
                              +                             S G+++ l++++ l+  +   +ll++DEp +gL+P   r + +++ el++ g+ ++
  PHY93_16820|PHY93_16820 137 E----------------------------YSKGMLQRLGFVSCLIHNP---KLLVLDEPLSGLDPIGRRDFKKIMVELNKSGVTIF 191
                              3............................399*****88888888888...9*************7778888999888899***** PP

                   AAA_21 294 ltTH 297
                              +++H
  PHY93_16820|PHY93_16820 192 FSSH 195
                              **** PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   1.7   4.3e-07   0.00086      17     175 ..      28     283 ..      24     284 .] 0.68

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 4.3e-07
                   AAA_15  17 veidlseeltvliGkNnsGKSsilealdlFlnnkekkn..........................................kkviki 60 
                              + i+  + l  + G+N++GK++++++l  F  ++ + n                                           + i+ 
  PHY93_16820|PHY93_16820  28 FRIEAGD-LIGFLGANGAGKTTLIKILMDFSRQT-SGNmnfdkimgqnsneikasigylperpylyphltgrefleyvgnLNSINP 111
                              5688888.999****************9999877.333445566666666666666666666666666666666655544223333 PP

                   AAA_15  61 ekedleifeniseskdikIdvef.............................................................ae 85 
                              e+ +++i+   s s +++I++                                                                 
  PHY93_16820|PHY93_16820 112 ENLETRIN---SWSEKMQIAHALgkltkeyskgmlqrlgfvsclihnpkllvldeplsgldpigrrdfkkimvelnksgvtiffS- 193
                              33333333...44444555544488888889999999999999999999999999999999999999999999999998888642. PP

                   AAA_15  86 k.ekakeyektlkskekkkadlllkkkesdlkktikdkklklkknelsdekisvekkkskkelpkekeeklekekeelkidkedlk 170
                              +   ++++e ++k   ++k + l+ + + d+  ++  ++l+  k+ ++ +   v+ + ++k+ + ek  +++ e+ e++++k +l+
  PHY93_16820|PHY93_16820 194 ShIVSDVEEICNKVIFIEKGK-LVYEGNIDTLLMKHANDLYTVKTLNNGKVEVVHLRSEEKNSYLEKMLSQKIEIIEIEKEKITLE 278
                              245566666666666666666.4444444455555555555555555566666777777888888888888888888888899999 PP

                   AAA_15 171 klikk 175
                              ++i+k
  PHY93_16820|PHY93_16820 279 EIIYK 283
                              99886 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   6.7e-05      0.13      92     133 ..      25      67 ..      14      79 .. 0.77
   2 ?   -0.4   0.2      0.48   9.6e+02      48     101 ..     205     265 ..     179     269 .. 0.56

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 6.7e-05
                              HHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT-----S----- CS
              RsgA_GTPase  92 elkellkd.ktsvlvGqSGvGKStLinallpelelktgevsek 133
                              +++ +++  +++ ++G  G+GK+tLi+ l+   ++  g++  +
  PHY93_16820|PHY93_16820  25 NVSFRIEAgDLIGFLGANGAGKTTLIKILMDFSRQTSGNMNFD 67 
                              5566666558889****************99777776666555 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 0.48
                              EEEEEEE-GGG--HHH.......HHHHHHHHHHHTTSEEEE--TTTHTTHHHHHHHCTTSE CS
              RsgA_GTPase  48 epvivlnKiDlleeee.......eleelkeelealgyevllvsaktkegleelkellkdkt 101
                              + vi + K  l+ e +       ++++l +  +  + +v +v+ +++e+ + l+++l++k+
  PHY93_16820|PHY93_16820 205 NKVIFIEKGKLVYEGNidtllmkHANDLYTVKTLNNGKVEVVHLRSEEKNSYLEKMLSQKI 265
                              5666777777776666444333222222222222223333444444455666666666665 PP

>> DUF4162  Domain of unknown function (DUF4162)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   2.2     3e-05     0.059      26      76 ..     227     280 ..     201     282 .. 0.69

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 3e-05
                              ...---EEEE-TT.S-EEEEE-------------.----EEEEEEEE---HHHH CS
                  DUF4162  26 ee.pgveeveeeg.gelelkledeeaanellkal.tsgveirsFeeeePsLndI 76 
                              ++ +++ +v++ + g++e+    +e +n+ l+++ ++++ei ++e e+ +L++I
  PHY93_16820|PHY93_16820 227 KHaNDLYTVKTLNnGKVEVVHLRSEEKNSYLEKMlSQKIEIIEIEKEKITLEEI 280
                              332457778555547787777766666666766659*****************9 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.2   5.1e-05       0.1       1      33 [.      36      79 ..      36     263 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 5.1e-05
                   AAA_18  1 IlltGtpGvGKttlakeL...skrl.gf.......gvnlrdvak 33
                             I+  G+ G+GKttl k L   s+ + g+       g+n++++ +
  PHY93_16820|PHY93_16820 36 IGFLGANGAGKTTLIKILmdfSRQTsGNmnfdkimGQNSNEIKA 79
                             7889**************88844443445668888777776654 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.1   5.6e-05      0.11      13      39 ..      24      50 ..      20      63 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 5.6e-05
                   AAA_29 13 dghtieidlkgatlltGpsGsGKSTll 39
                             d+ +++i+  + + + G++G+GK+Tl+
  PHY93_16820|PHY93_16820 24 DNVSFRIEAGDLIGFLGANGAGKTTLI 50
                             5667788866688899**********8 PP

>> cobW  CobW/HypB/UreG, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   0.0   0.00058       1.1       5      22 ..      38      58 ..      34      76 .. 0.76
   2 ?    2.5   0.2     0.048        95      37      89 ..     217     271 ..     194     277 .. 0.81

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.00058
                             EEESTTCCHHHHHHHHH...C CS
                     cobW  5 ltGflGsGKTtLlnhll...e 22
                             + G  G+GKTtL++ l+   +
  PHY93_16820|PHY93_16820 38 FLGANGAGKTTLIKILMdfsR 58
                             4566789******99985532 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.048
                              SSCHCCCCCCHCCCT...EEEETTTTE..CCHCTT-HHHHHHHHHHHHTT-SEEEEE CS
                     cobW  37 gevsiDaellretgve..ivelenGci..CctlredllkelealeereerldviliE 89 
                              +e +iD  l++++++   + +l+nG++   +  +e+    le++++++  +++i iE
  PHY93_16820|PHY93_16820 217 YEGNIDTLLMKHANDLytVKTLNNGKVevVHLRSEEKNSYLEKMLSQK--IEIIEIE 271
                              567899999988866667999999996336778888888899988888..7777777 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   1.6   6.1e-05      0.12      20      38 ..      34      52 ..      15      81 .. 0.84
   2 ?    2.3   0.3      0.11   2.1e+02     154     189 ..     242     278 ..     160     284 .] 0.43

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 6.1e-05
                   AAA_23 20 gltlItGpNGaGKTTildA 38
                              l  + G NGaGKTT++  
  PHY93_16820|PHY93_16820 34 DLIGFLGANGAGKTTLIKI 52
                             588899**********975 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.11
                   AAA_23 154 rleeleke.leeledekkllekleqekekekeleele 189
                              ++e +     e+++  +k l +++++ e eke  +le
  PHY93_16820|PHY93_16820 242 KVEVVHLRsEEKNSYLEKMLSQKIEIIEIEKEKITLE 278
                              3333222202222334444444444444444433333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (284 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       778  (0.0433934); expected 358.6 (0.02)
Passed bias filter:                      460  (0.0256568); expected 358.6 (0.02)
Passed Vit filter:                        69  (0.00384851); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.41
# Mc/sec: 2089.67
//
Query:       PHY93_10945|PHY93_10945  [L=210]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
      0.034   14.3   1.0        5.9    7.1   1.0    2.5  1  DUF2087         Uncharacterized protein conserved in bacteria
      0.049   13.5   0.0      0.099   12.5   0.0    1.5  1  DUF1242         Protein of unknown function (DUF1242)
       0.05   13.6   1.6      0.079   12.9   1.6    1.4  1  NOG1_N          NOG1 N-terminal helical domain
      0.062   13.8   1.7      0.078   13.5   0.4    1.8  2  EF-G-binding_N  Elongation factor G-binding protein, N-termin


Domain annotation for each model (and alignments):
>> DUF2087  Uncharacterized protein conserved in bacteria (DUF2087)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.1   1.0    0.0013       5.9       8      36 ..      49      78 ..      42     110 .. 0.61

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.0013
                  DUF2087  8 krkkrlvvLkhlaer.fepgreysEkevne 36
                             + ++++ vLk l+++ + ++ ++ E++v++
  PHY93_10945|PHY93_10945 49 DSAQKVPVLKDLIAKnLAKQNAMAEAQVTD 78
                             555666666666666666666666666653 PP

>> DUF1242  Protein of unknown function (DUF1242)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   2.2e-05     0.099       1      28 [.      12      39 ..      12      43 .. 0.92

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 2.2e-05
                  DUF1242  1 LltVlLLlICTCTYvravfPslldrnks 28
                             Ll + LL++ T +Y+++   sll+ nks
  PHY93_10945|PHY93_10945 12 LLSISLLIVGTMAYLHSKNSSLLNDNKS 39
                             79999*********************97 PP

>> NOG1_N  NOG1 N-terminal helical domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   1.6   1.8e-05     0.079       5     113 ..      52     165 ..      49     207 .. 0.69

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 1.8e-05
                   NOG1_N   5 ptvptseelidkalrrakraakttkkkkneikrlrnlearkvrt.asntlsdkLeeivkkfPnldelhpFyrelld....vlvdkd 85 
                              + vp  ++li k l + +  a++ + ++n +   r ++++++++ ++n + d Le+  +k P+l ++ +    +l+    +++   
  PHY93_10945|PHY93_10945  52 QKVPVLKDLIAKNLAKQNAMAEAQVTDQNVLTVERVYTEQEINEmTENKFMDLLEDTARKLPKLTDIKKLPAGALHrtppIVIQAG 137
                              579999*****************99999999999999999998625789******************9886655542222333333 PP

                   NOG1_N  86 elkksLaqvkwarklirkigkeyvnklk 113
                              +   +  +v ++ ++ + +  +++++++
  PHY93_10945|PHY93_10945 138 RDLGVIKEVLKVHESYERVVTKFYKSCA 165
                              3333333444444555555555555555 PP

>> EF-G-binding_N  Elongation factor G-binding protein, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.4   1.7e-05     0.078      13      63 ..      65     119 ..      60     125 .. 0.79
   2 ?   -2.0   0.0       1.2   5.6e+03      25      44 ..     166     185 ..     144     197 .. 0.63

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 1.7e-05
           EF-G-binding_N  13 qveqllnayrsvnDkkvveavkalaaekIlel....fpelseeqkelLeqiddik 63 
                               ++q   a ++v+D++v+ + + +++++I+e+    f +l e++++ L +++dik
  PHY93_10945|PHY93_10945  65 LAKQNAMAEAQVTDQNVLTVERVYTEQEINEMtenkFMDLLEDTARKLPKLTDIK 119
                              55566678899*********************77777777777776666777666 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 1.2
           EF-G-binding_N  25 nDkkvveavkalaaekIlel 44 
                              +D++    v+al+ +++ e+
  PHY93_10945|PHY93_10945 166 KDEEGTTPVRALCLTNLIEI 185
                              45555555666666666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (210 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1367  (0.0762452); expected 358.6 (0.02)
Passed bias filter:                      714  (0.0398237); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.48u 0.20s 00:00:00.68 Elapsed: 00:00:00.36
# Mc/sec: 1729.16
//
Query:       PHY93_10950|PHY93_10950  [L=297]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
  ------ inclusion threshold ------
      0.013   15.4   0.1       0.02   14.7   0.1    1.3  1  THDPS_N      Tetrahydrodipicolinate N-succinyltransferase N-t
      0.099   12.6   0.0       0.82    9.7   0.0    2.3  2  GnsAB_toxin  GnsA/GnsB toxin of bacterial toxin-antitoxin sys
        0.1   13.1   0.1       0.25   11.9   0.1    1.6  1  FliG_N       FliG N-terminal domain


Domain annotation for each model (and alignments):
>> THDPS_N  Tetrahydrodipicolinate N-succinyltransferase N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.1   3.4e-06      0.02      69     136 ..     203     270 ..     181     276 .. 0.77

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 3.4e-06
                              TTSSEEEEE--HHHHHHHHHHT..GGGTTS...S.--HHHHHHHHHHHT--TT......SEEEEEESS-- CS
                  THDPS_N  69 esasEvvveidkefikkalelf..kpfleealgdekHkNiqvllelkkaleeeskqkekeyrlvvlyeDk 136
                              +s  E+  +  ++ ++ka+el+  +pf    ++d+ HkNi++++e  + l+++    e ++ ++  ++D+
  PHY93_10950|PHY93_10950 203 QSVAELKKHAIRASVEKAIELYgySPFHRFGMSDDDHKNIELITEEMRDLKRK--YPEMSFFVIETFKDS 270
                              4444555555556788999996559******************9988888776..778888888888886 PP

>> GnsAB_toxin  GnsA/GnsB toxin of bacterial toxin-antitoxin system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   0.0   0.00014      0.82      16      46 ..      44      76 ..      40      81 .. 0.80
   2 ?   -0.5   0.0       0.2   1.2e+03      20      28 ..     203     211 ..     194     215 .. 0.84

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.00014
                             HHHHHHHHHHHHHHSSEE..EEEEEEEEEETTE CS
              GnsAB_toxin 16 eliakKiaELkKkTGkEV..seieFtaREkmtG 46
                             ++++  i+  +KkTG EV  s+ eF+   k  G
  PHY93_10950|PHY93_10950 44 AFLSTPIIIFNKKTGAEValSSGEFAHENKSIG 76
                             789999***********9556888887777666 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.2
                              HHHHHHHHH CS
              GnsAB_toxin  20 kKiaELkKk 28 
                              + +aELkK+
  PHY93_10950|PHY93_10950 203 QSVAELKKH 211
                              7899**996 PP

>> FliG_N  FliG N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.1   4.2e-05      0.25      29      74 ..     239     284 ..     235     288 .. 0.92

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 4.2e-05
                              HHHHHHHHHHHHCHTTXXHHHHHHHHHHHHHHHHCCCCHHCHHHHH CS
                   FliG_N  29 eeeiekltkeiaslksvskeeveaVleefleeleaqeylseggeey 74 
                               + ie +t+e+  lk+  +e+   V+e f + ++++e l+++  e 
  PHY93_10950|PHY93_10950 239 HKNIELITEEMRDLKRKYPEMSFFVIETFKDSFSKREVLINETREI 284
                              688**********************************999988776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (297 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       502  (0.0279993); expected 358.6 (0.02)
Passed bias filter:                      416  (0.0232026); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.24s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 2181.84
//
Query:       PHY93_10955|PHY93_10955  [L=119]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (119 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       247  (0.0137766); expected 358.6 (0.02)
Passed bias filter:                      168  (0.00937029); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.36u 0.20s 00:00:00.56 Elapsed: 00:00:00.34
# Mc/sec: 1033.32
//
Query:       PHY93_10960|PHY93_10960  [L=296]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
      4e-24   85.7   0.0    1.6e-23   83.7   0.0    1.8  1  Trypsin    Trypsin
    5.4e-06   27.4   0.0    1.1e-05   26.3   0.0    1.5  1  Trypsin_2  Trypsin-like peptidase domain


Domain annotation for each model (and alignments):
>> Trypsin  Trypsin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   83.7   0.0   1.8e-27   1.6e-23       3     221 .]      34     290 ..      32     290 .. 0.77

  Alignments for each domain:
  == domain 1  score: 83.7 bits;  conditional E-value: 1.8e-27
                              SSEETTTTSS..TTEEEEEETTCEEEEEEEEEETTEEEEEGGGTTT.........GGGEEEEESESBTTSCTTTEEEEEEEEEEEE CS
                  Trypsin   3 ggeeaqkgsf..pwqvslsvksgkhlCgGslisenwvlTAaHCvsn.........asdvkvvlgehnlkksegkeqklkvekvivh 77 
                              +g + ++g+     +v +++ ++k lC+Gsli +n+vlTAaHC  +         ++d++ ++++h+++  ++    l+  ++ v 
  PHY93_10960|PHY93_10960  34 NGADVKIGDGiaSSVVGVYNIKEKALCTGSLIASNIVLTAAHCSPEhvsdlkiifTNDIDDIITSHEADILQE--FMLSATDFKVG 117
                              5555555555544567777777799**********************66666666666666777766666666..57777779*** PP

                              TTEBTTTT.....TTTEEEEEESSSSTSBSSBHCCBBCSTTHTTSTTTEEEEEESSBSSTSSBSSBEEEEEEEEEEHH.HHHHH.. CS
                  Trypsin  78 pnynpstl.....dnDiallklkepvklgdtvrpiclpaassslpvgttclvsGwgrtkekgksdtlqevevpvvsre.tcksa.. 155
                              p ++p++      + Dial+k k +  +    rp+   a  s l++g +++v+G+g +  ++  +++   + p ++++ +  +   
  PHY93_10960|PHY93_10960 118 PTWDPKNEsieinTGDIALVKFKGK--IPAGYRPATFLADASLLKIGNMVTVAGFGVNIVSS--KKIDPNKYPHLDEAiEYGEVlc 199
                              ******9779***9***********..99*******99977878************954444..4455555555555444444443 PP

                              ..TTTT........................STTTEEEEESTTSSSBCTTTTTTSEEEETTT...EEEEEEEEE.SSSSCTTSEEEE CS
                  Trypsin 156 ..ykgk........................vtenmlcagakeggkdacqGDSGGPlvcsdg...elvGivswg.kgcakgnrpgvy 211
                                 +gk                        ++++ +  ++   +  +c GDSGGP+  +++   +l G++s g   c++    gvy
  PHY93_10960|PHY93_10960 200 ddENGKnincveidtdgdgilrtttapissTQTTEIILDE--RKSGTCSGDSGGPAYIRQNgefYLFGVTSRGsALCDEV---GVY 280
                              22222257888999999*****999997755555555555..889***********999999**********95555555...*** PP

                              EEGGGGHHHH CS
                  Trypsin 212 tkvssyldwi 221
                              t+  +y++wi
  PHY93_10960|PHY93_10960 281 TNALYYRPWI 290
                              *********9 PP

>> Trypsin_2  Trypsin-like peptidase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.3   0.0   1.2e-09   1.1e-05       1     146 [.      60     260 ..      60     263 .. 0.61

  Alignments for each domain:
  == domain 1  score: 26.3 bits;  conditional E-value: 1.2e-09
                Trypsin_2   1 GsGflvgsdglilTnaHvvdsadgaav.......kaikkkveeagadgrevpakvvaadp.....................el.Dl 57 
                              ++G l++s+  +lT+aH+  ++ +  +       + i  ++e+   ++           +                     ++ D+
  PHY93_10960|PHY93_10960  60 CTGSLIASNI-VLTAAHCSPEHVSDLKiiftndiDDIITSHEADILQEF----------MlsatdfkvgptwdpknesieiNTgDI 134
                              69********.********777777774443333111222222222222..........1333333444466666667766336** PP

                Trypsin_2  58 Allkvssderaglpplp.lgpsealkggepvyvvGyp.............................lggeksg...........sv 102
                              Al+k++ + +ag++p++ l++ + lk g+ v+v G++                             +     +           + 
  PHY93_10960|PHY93_10960 135 ALVKFKGKIPAGYRPATfLADASLLKIGNMVTVAGFGvnivsskkidpnkyphldeaieygevlcdD-----EngknincveidTD 215
                              *****9999999999997788889************7777777766666665555555555554431.....02233345555555 PP

                Trypsin_2 103 ssGivsgvvesesaasgegesfl.qtdaatspGsSGGplfd.sdGr 146
                               +Gi++ ++  + +++++ e +l +  + t +G SGGp    ++G+
  PHY93_10960|PHY93_10960 216 GDGILRTTTA-PISSTQTTEIILdERKSGTCSGDSGGPAYIrQNGE 260
                              5566655555.44444444444486666666799999987436665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (296 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       424  (0.0236488); expected 358.6 (0.02)
Passed bias filter:                      366  (0.0204139); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.39
# Mc/sec: 2291.96
//
Query:       PHY93_10965|PHY93_10965  [L=350]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.4e-14   52.6   0.3    7.4e-13   48.8   0.3    2.1  1  CBAH      Linear amide C-N hydrolases, choloylglycine hydrola
     0.0013   18.5   0.0     0.0018   18.0   0.0    1.3  1  AAT       Acyl-coenzyme A:6-aminopenicillanic acid acyl-trans


Domain annotation for each model (and alignments):
>> CBAH  Linear amide C-N hydrolases, choloylglycine hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.8   0.3   8.2e-17   7.4e-13      11     258 ..      34     250 ..      21     276 .. 0.69

  Alignments for each domain:
  == domain 1  score: 48.8 bits;  conditional E-value: 8.2e-17
                              S-EEEEEEEEESS--S-EEEEE-TT-EEEC.TTTCEEEE-SS...-EEEEEEESSSEEEE.SEEEETTS-EEEEEE-TTT---BSS CS
                     CBAH  11 gkllfgRnmDfeisldeeviivprnyklnl.eklkkllvtkd...avvGmgtkvesyPlf.vdglNEkGlsiaglylaeyaeykke 91 
                              +++ +gR++D+   +++ +i+++++  ++   +l   ++++    +  G  t  ++   f + g+NE+Gl +++l l + ++ + +
  PHY93_10965|PHY93_10965  34 EQHWIGRTFDWS--YGHGLIFTNKRNVTKKgLRLIP-TDVSGtwtSKHGSVTFNQFGREFpTGGMNEEGLVVEALELMTSVFPSID 116
                              57899*****96..6777777765433333133333.333334444445333333333332579*************766665555 PP

                              --TTSEEEEGGGHHHHHHHH-SSHHHHHHHHTTEEEB---CTCCSS---EEEEEE-TTS-EEEEEEETTEEEEEESSSSE..E-SS CS
                     CBAH  92 pkedkvniaagelirwvlenftsveevkeklkklkivnealdilgakaplHwiisDasgesivieerkegLkvydnevgV..ltns 175
                                  ++ ++  ++i+++l+nf++ve v + lk++++       +g+k  lH+ + D +++ ++ie ++++L+ +++++ +  l+n 
  PHY93_10965|PHY93_10965 117 ---SRASLNELQFIQYLLDNFSTVESVADGLKSVRLS-----PVGSK--LHYFVCD-TNKCMTIEFVNGELVTHQGNLQIssLAN- 190
                              ...469999***********************99863.....34445..9******.******************9666511555. PP

                              S-HHHHHHHHGGGTT--SS---EEEETTEEEE-SSSTGGGTT-B-S-SHHHHHHHHHHHHHHCHHHCSHHHHHHHHHHHHHTT CS
                     CBAH 176 PkfdwhltnlerykglrpkqveelflddrkltafgqgtgqlgLPGdvtpasRFvraaylkkalekakqesesvakifdilssv 258
                               +++ hlt+ + y   +   +++++ d +                  ++ +RFvra+y  k +++ ++    va+if +ls v
  PHY93_10965|PHY93_10965 191 NTYEEHLTYARDYI--TFGGTKPVKQDSK------------------NSLDRFVRASYNAKFINEHTDP---VAAIFGMLSDV 250
                              59************..3333333333333..................4789999999999999887665...55555555544 PP

>> AAT  Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.0     2e-07    0.0018      47     151 ..      92     201 ..      35     276 .. 0.73

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 2e-07
                              EEEEETTS-EEEE....-TTS-TTT---------HHHHHHH.--SHHHHHHTHHHH...TTTS-SEEEEEEETTEEEEEEE-SSS- CS
                      AAT  47 tdGiNeaGLavti....nllslkklrakGfprafitRllLekcesveeAvellkei...praaginyivldaagnaavveveassk 125
                              t+G+Ne+GL+v +    + + +   + ++++   ++ +lL++ ++ve +++ lk++   p ++  +y v d + + +++e+  ++ 
  PHY93_10965|PHY93_10965  92 TGGMNEEGLVVEAlelmTSVFPSIDSRASLNELQFIQYLLDNFSTVESVADGLKSVrlsPVGSKLHYFVCDTN-KCMTIEFVNGEL 176
                              78**********9999977777777789*******************************************99.888899888888 PP

                              EEEEEESS.EEEEE-SS-S-GGGSSS- CS
                      AAT 126 vcsirean.ealahtNHfvnetleaen 151
                                ++ ++n +    +N   +e l+ + 
  PHY93_10965|PHY93_10965 177 --VTHQGNlQISSLANNTYEEHLTYAR 201
                              ..5555554444444554444444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (350 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       385  (0.0214736); expected 358.6 (0.02)
Passed bias filter:                      320  (0.0178482); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 2610.69
//
Query:       PHY93_10970|PHY93_10970  [L=380]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
       0.17   12.3   0.0       0.24   11.8   0.0    1.4  1  Lipase_GDSL_2  GDSL-like Lipase/Acylhydrolase family


Domain annotation for each model (and alignments):
>> Lipase_GDSL_2  GDSL-like Lipase/Acylhydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   1.3e-05      0.24       1      61 [.     146     201 ..     146     315 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 1.3e-05
                              EEESHHHHTCTTBCCHCHHCCCCCCCHHHTT-EEEEE.EEHCCH-H..HHHHHHHHCTGGG CS
            Lipase_GDSL_2   1 alGDSiTaGygadgggrsypaylarllaarlgldvvnnlgvsGattallrllerlrdllrl 61 
                              ++GDS+T G g+    +    + +  ++ r + + v nlgv+G   ++l ++ +++++ ++
  PHY93_10970|PHY93_10970 146 FFGDSFTFGEGV----NDNETF-PYHVSIRRPKSAVYNLGVPGLGLNDLLFDLEFGNAKKY 201
                              8********665....555555.666666665556666*****988667777777655554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (380 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       706  (0.0393775); expected 358.6 (0.02)
Passed bias filter:                      478  (0.0266607); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.23s 00:00:00.79 Elapsed: 00:00:00.43
# Mc/sec: 2664.18
//
Query:       PHY93_10975|PHY93_10975  [L=368]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (368 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       423  (0.0235931); expected 358.6 (0.02)
Passed bias filter:                      323  (0.0180155); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.58u 0.25s 00:00:00.83 Elapsed: 00:00:00.49
# Mc/sec: 2270.07
//
Query:       PHY93_10980|PHY93_10980  [L=188]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (188 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       477  (0.0266049); expected 358.6 (0.02)
Passed bias filter:                      360  (0.0200792); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 1320.92
//
Query:       PHY93_10985|PHY93_10985  [L=75]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.9e-05   24.9   0.1    2.4e-05   24.6   0.1    1.4  1  PP-binding  Phosphopantetheine attachment site


Domain annotation for each model (and alignments):
>> PP-binding  Phosphopantetheine attachment site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.6   0.1   1.4e-09   2.4e-05      29      63 ..      31      65 ..       7      69 .. 0.87

  Alignments for each domain:
  == domain 1  score: 24.6 bits;  conditional E-value: 1.4e-09
               PP-binding 29 lDSllavellaaleeefgveiplsdlfehptlael 63
                             +DS++ vell+a++ ef+++++  +++ +++++++
  PHY93_10985|PHY93_10985 31 IDSIAYVELLMAFQNEFKIKFSTQEFLSLRSIKNI 65
                             9*******************************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (75 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       428  (0.0238719); expected 358.6 (0.02)
Passed bias filter:                      281  (0.0156729); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.37u 0.21s 00:00:00.57 Elapsed: 00:00:00.37
# Mc/sec: 603.78
//
Query:       PHY93_10990|PHY93_10990  [L=374]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      0.008   15.9   0.4      0.029   14.1   0.2    1.9  2  DUF2101   Predicted membrane protein (DUF2101)
  ------ inclusion threshold ------
      0.037   14.5   0.1        5.6    7.5   0.0    2.4  2  4HBT_2    Thioesterase-like superfamily


Domain annotation for each model (and alignments):
>> DUF2101  Predicted membrane protein (DUF2101)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.1   0.2   3.2e-06     0.029      34     100 ..       1      68 [.       1      87 [. 0.88
   2 ?   -2.5   0.0      0.39   3.5e+03     164     190 ..     181     206 ..     178     208 .. 0.74

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 3.2e-06
                  DUF2101  34 LkLqlifllyliislvlvfl.ksllvlllaalleflllryilirniellidfeayrafylavsviail 100
                              +kL l  l +l++s++++fl k++ + ++a+  e  ++r   i+++e++  +++ ++  ++v++ + l
  PHY93_10990|PHY93_10990   1 MKLALRTLAFLVFSILIAFLgKFINTSIVASKTEKKIIRAAEIQYREFIKHYDPQKKTIVVVGTSTSL 68 
                              589999*************83567899*****************************999999997765 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 0.39
                  DUF2101 164 DiaanvkPgyywvpavadveegdivkl 190
                              ++++n k  y ++ +   +++++i k+
  PHY93_10990|PHY93_10990 181 ELSSNFKNTY-FIANPCLIKNHKILKF 206
                              6789999765.5566678999999886 PP

>> 4HBT_2  Thioesterase-like superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.9   0.0     0.004        36      47      69 ..      37      60 ..      16     102 .. 0.82
   2 ?    7.5   0.0   0.00063       5.6      33      87 ..     246     306 ..     196     335 .. 0.81

  Alignments for each domain:
  == domain 1  score: 4.9 bits;  conditional E-value: 0.004
                   4HBT_2 47 ilssahvryrrplkfpdr.ltvef 69
                             i+++a+++yr+++k+ d  +++++
  PHY93_10990|PHY93_10990 37 IIRAAEIQYREFIKHYDPqKKTIV 60
                             89************8877565554 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.00063
                   4HBT_2  33 gl..ksrsiarrgiglilssahvryrrplkfpdrl....tvefrvididaktliiehrfls 87 
                              g   + + i ++ +++i + ++v+y  +lk +d +    + +f + +++++++ i ++f +
  PHY93_10990|PHY93_10990 246 GYfeDLNKIFNSAGLDIYALNEVDYTDELKAGDLIftnrYLHFLLNKYSENKFVIIPAFAN 306
                              33444566666699********************7688777788899********999976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (374 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       773  (0.0431145); expected 358.6 (0.02)
Passed bias filter:                      446  (0.0248759); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.55u 0.25s 00:00:00.80 Elapsed: 00:00:00.44
# Mc/sec: 2526.24
//
Query:       PHY93_16825|PHY93_16825  [L=233]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.1e-08   32.8  24.9    1.1e-07   31.5  24.7    1.9  1  ABC2_membrane_2  ABC-2 family transporter protein
    2.5e-05   24.3  19.6    2.5e-05   24.3  19.6    2.8  3  ABC2_membrane_4  ABC-2 family transporter protein


Domain annotation for each model (and alignments):
>> ABC2_membrane_2  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.5  24.7   1.2e-11   1.1e-07      76     225 ..      33     175 ..       8     233 .] 0.64

  Alignments for each domain:
  == domain 1  score: 31.5 bits;  conditional E-value: 1.2e-11
          ABC2_membrane_2  76 vvstimavlipviaalfgadaiagEkergTlkllLskPvsRdeillgKfigglaiglaiavallatvllalaiilalgivlaledl 161
                              ++ +++++   ++a+ +g++++++E e++Tl   Ls+P+sR +  lgK+ig + +   ++v +l   l++++i ++lg ++++ ++
  PHY93_16825|PHY93_16825  33 FGFGLTSISNLIMAIFIGSTLLSKEIENRTLYMILSRPISRTSFMLGKAIGLSSV---LVVNTLMLSLVSVGIYHYLGGQINALMF 115
                              4566777777799******************************************...5555555555556666666666665554 PP

          ABC2_membrane_2 162 l....llvvasvlllllvvflalglllSsvarssreaaalalglfvvlailvpivlygvaellagpav 225
                                    l+ a+v++l       +++l+S ++  ++ a+ + +  ++v   l+  +   +a+ +  + +
  PHY93_16825|PHY93_16825 116 WaawfSLIEAFVIML-------FAILFSLITS-NALAIIYTITAWIVGHSLSATSKILFAKTNVFFNY 175
                              400004444444333.......4667776666.88888888888887666666555545554444444 PP

>> ABC2_membrane_4  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.3  19.6   2.8e-09   2.5e-05      22     172 ..       3     148 ..       1     155 [. 0.69
   2 ?    2.8  10.2     0.011        99     100     167 ..     111     177 ..     103     185 .. 0.76
   3 ?   -1.4   3.6      0.23     2e+03     136     164 ..     202     231 ..     160     232 .. 0.51

  Alignments for each domain:
  == domain 1  score: 24.3 bits;  conditional E-value: 2.8e-09
          ABC2_membrane_4  22 allvpllallyfnllgktgldpaefyslsvfgftlllllplilgi.iasylifrEeqndtlknLltiPvsrtklllaKlivlllls 106
                              ++l+  l+l+++ +++++ ++ a       fgf+l+ +  li++i i+s+l+++E +n tl  +l +P+srt+++l+K i l  + 
  PHY93_16825|PHY93_16825   3 SILFIALGLVVVSYIASEFAYGAPTKVALDFGFGLTSISNLIMAIfIGSTLLSKEIENRTLYMILSRPISRTSFMLGKAIGLSSVL 88 
                              5566667788888888888888888888899***99999999999568********************************986666 PP

          ABC2_membrane_4 107 vllmlvtflitvlfallsgfvgfsvklvlellkkclelgl..lvffavlpiialvllkksyvlplilt 172
                              v+ +l+   ++++   + ++ g +++++++   ++ ++ +  +++fa+     l +l  s++l++i t
  PHY93_16825|PHY93_16825  89 VVNTLM---LSLVSVGIYHYLGGQINALMFWAAWFSLIEAfvIMLFAI-----LFSLITSNALAIIYT 148
                              655554...444444567777777776555444444333300333333.....334444555555544 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.011
          ABC2_membrane_4 100 ivllllsvllmlvtflitvlfallsgfvgfsvklvlellkkclelgllvffavlpiial.vllkksyvl 167
                               +l+++++ ++l+ +++ +lfa+l+  +  ++ ++++++  +++   l+  a++ i++  ++++ +y l
  PHY93_16825|PHY93_16825 111 NALMFWAAWFSLIEAFVIMLFAILFSLITSNALAIIYTITAWIVGHSLS--ATSKILFAkTNVFFNYTL 177
                              57999***********************999999999999877555543..455555443666666655 PP

  == domain 3  score: -1.4 bits;  conditional E-value: 0.23
          ABC2_membrane_4 136 ellkkclelgllvffavlpiial.vllkks 164
                              ++l  +l+  ++v + ++++++l ++l+k+
  PHY93_16825|PHY93_16825 202 ISLSYLLQAQIYVSIYIVALLFLiSFLFKN 231
                              455566666777776666665542667665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (233 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1060  (0.0591221); expected 358.6 (0.02)
Passed bias filter:                      256  (0.0142785); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.25s 00:00:00.78 Elapsed: 00:00:00.44
# Mc/sec: 1608.10
//
Query:       PHY93_10995|PHY93_10995  [L=466]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.3e-24   86.4  13.4    2.3e-24   86.4  13.4    2.3  2  MBOAT     MBOAT, membrane-bound O-acyltransferase family
    6.4e-05   23.1   1.3    0.00022   21.4   1.3    1.9  1  MBOAT_2   Membrane bound O-acyl transferase family


Domain annotation for each model (and alignments):
>> MBOAT  MBOAT, membrane-bound O-acyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   0.2     0.021   1.9e+02       2      36 ..      99     133 ..      98     136 .. 0.89
   2 !   86.4  13.4   2.5e-28   2.3e-24      88     344 ..     139     373 ..     132     375 .. 0.85

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.021
                    MBOAT   2 lllsyastslltllltlalsvltlqlialvlslyd 36 
                              l  ++++ +l +l l l ls++t++  ++v++ y+
  PHY93_10995|PHY93_10995  99 LKNIFHFEGLRWLYLPLGLSFYTFKTMSYVMDIYY 133
                              667889999999********************986 PP

  == domain 2  score: 86.4 bits;  conditional E-value: 2.5e-28
                    MBOAT  88 lpslleylgYvffyplllvGPilsyseymsfvesplsrllytakrnfavalyalflgltylilieyvlskicakdftifkmlssaq 173
                               +s+ +yl Yv+f+p+ ++GPi +  e   f+ +  ++++y+   n+  +l+ ++lg +++i +  +ls ++  +  +++      
  PHY93_10995|PHY93_10995 139 QISFQKYLLYVSFFPQIFCGPIMRPDE---FFLQLKFSDDYD-HENVFDGLRLIVLGMFKKIILASNLSLLVREAYAKPLSI---- 216
                              57999*******************775...666666666665.458999***************999988888777777777.... PP

                    MBOAT 174 llmrsvimrilllllllfllifdflglwlvalgedilsGlgvngarldrvadrniygdwenavsfsefwraWNipvhkWLlryvYk 259
                                  s + +++  +++ f++++df+g+  ++ g+++ +G+ v+          n+++++ +a+s+++fwr+W+i++++W + yvY 
  PHY93_10995|PHY93_10995 217 ----SGFEWVVISIITRFYIYYDFSGYSDISNGVSLTFGIKVL---------KNFNRPF-TAKSITDFWRRWHISLSTWIRDYVYY 288
                              ....58999999999999**********************985.........8999999.************************** PP

                    MBOAT 260 plg.skkfklnkslatlatFlfsAvwHglalgyliwfvlrvllllveklimrlvalsnlkfdrrrailsnvifwlgaflgpslall 344
                              p++ +++     +++++  F f+ +wHg    y++ ++ ++l++   +++ +  + s+    + + i+s++   l++++ ps++l+
  PHY93_10995|PHY93_10995 289 PMVsKFSNYAGIYISLIVSFIFLGLWHGDKINYILYGLINGLAVAISTYFAKKNRNSPPA-TKFKLIVSRISLYLFLIFLPSILLM 373
                              **84444445677888899**************************999998887755444.6777788888888888888888765 PP

>> MBOAT_2  Membrane bound O-acyl transferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.4   1.3   2.4e-08   0.00022       4      63 ..     257     315 ..     254     323 .. 0.94

  Alignments for each domain:
  == domain 1  score: 21.4 bits;  conditional E-value: 2.4e-08
                  MBOAT_2   4 lfgslleayslrrfWgrfWHqlfrrglkstakkilrlllgsklarylqllvaFllSGllH 63 
                               f+++++a s+ +fW r+WH  ++ +++ ++++++ + +++ +  y+ l+v+F++ Gl H
  PHY93_10995|PHY93_10995 257 NFNRPFTAKSITDFW-RRWHISLSTWIRDYVYYPMVSKFSNYAGIYISLIVSFIFLGLWH 315
                              79*************.679***************99999988999**************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (466 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       634  (0.0353617); expected 358.6 (0.02)
Passed bias filter:                      264  (0.0147247); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.23s 00:00:00.79 Elapsed: 00:00:00.42
# Mc/sec: 3326.57
//
Query:       PHY93_11000|PHY93_11000  [L=466]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.6e-57  194.3   0.0    4.2e-47  160.7   0.0    2.1  2  AMP-binding    AMP-binding enzyme
    1.2e-05   26.2   0.0    2.2e-05   25.3   0.0    1.5  1  AMP-binding_C  AMP-binding enzyme C-terminal domain
  ------ inclusion threshold ------
       0.14   12.0   0.0       0.31   11.0   0.0    1.5  1  DUF5386        Family of unknown function (DUF5386)


Domain annotation for each model (and alignments):
>> AMP-binding  AMP-binding enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.3   0.0   6.7e-12     4e-08      16     106 ..      19     106 ..       9     120 .. 0.84
   2 !  160.7   0.0   7.1e-51   4.2e-47     160     422 ..     119     366 ..     108     367 .. 0.86

  Alignments for each domain:
  == domain 1  score: 32.3 bits;  conditional E-value: 6.7e-12
                              ECCSTEEEEHHHHHHHHHHHHHHHHHTTSSTT-EEEEEESSSHHHHHHHHHHHHTT-EEEEEETTS-HHHHHHHHHHHTESEEEET CS
              AMP-binding  16 dsgegqtlTYreldervnrlAagLrslGvkkgdrVaillpnspewvvallailkaGavvvplnptltaeelayiledseakvliat 101
                              + +++q++  + l   +n l ++L ++G+++g+++ ++l  s  +   ++ ++++Ga v+pl+p+lt+ e+ +++ + +++++i  
  PHY93_11000|PHY93_11000  19 F-EDNQSINSQHLSLGINFLKKHLDQKGIGPGSKIILCLTSSKLFCEYFFSAWEVGACVIPLSPQLTKTEIDFLVGKIKPSLII-- 101
                              4.46888888889999999999***99*********************************************************.. PP

                              CTCCC CS
              AMP-binding 102 vdsel 106
                              +++ +
  PHY93_11000|PHY93_11000 102 YSNGK 106
                              33322 PP

  == domain 2  score: 160.7 bits;  conditional E-value: 7.1e-51
                              SEEEEEEE--SSSS-EEEEEEHHHHHHHHHHHH..HHHCSCCTTT-EEEESS-TTSCHHHHHHHHHHHHTT-EEEE-TTCGCCH.H CS
              AMP-binding 160 dlayiiYTSGTTGkPKGVmlshrnlvanvaslk..letrfklkeddvvlsilplahifglilelllallsGatvvllpkdaald.p 242
                              + a+i+YTSG+ G+PKGV+l+ ++l++ +  +   l     +++ +  l++lpl +  gli++ ll++l G++vvl+p + +ld  
  PHY93_11000|PHY93_11000 119 NNALILYTSGSSGTPKGVVLTKEALANKINLYRvnL----PIEHFSNTLCMLPLNFGHGLISNFLLPILTGHQVVLAPAS-RLDiY 199
                              679************************977765332....33344788****************************9966.56666 PP

                              HHHHHHHHHHT-SEEEEEHHHHHHHHH.CCCHHCHHHHCCGTT-SEEEEESS-EBHHHHHHHHHHHTC.EEEEEEEEGGGSSECEE CS
              AMP-binding 243 klllelieklkvtviagvPrvlealle.sgalkaakkakdlsslrlvllggeplspellrffralfge.evlegYGlTEttgvvtv 326
                                l e i+++++t++ +vP++l+  ++  +++k        +sl+ ++++ +pl  +++ +  +   + +v ++YG+TE + +++ 
  PHY93_11000|PHY93_11000 200 SNLGEIIDNFGITCFSSVPSILKIATNfGNSPK-------NKSLKKIFCASAPLDFSTWNKTFEWSSGvRVNNMYGMTELASWIAG 278
                              7788***********************666555.......679****************9999998889***************85 PP

                              .CHCTTTCTSTTS-BEE-TTEEEEEE-TTTSCBEETTSEEEEEEEETTS-SEBTT-HHHHHHHEEETCCEEEEEEEEEEETTSEEE CS
              AMP-binding 327 .lpleedkkklgsvGkplpgvevkivDeetgepvpdgeeGellvrgpgvmkgYlkkpeataeafdsegrwlrTGDlgrldedGyle 411
                                + +++  + ++   p +++e+ki+ e+     +d+e Ge+lv+++++m+ Y+ + e t +a+   ++w++TGD+g++    +++
  PHY93_11000|PHY93_11000 279 dQQIKDPIYQENTFDYP-WEAEIKILKEA-----ADDEYGEILVKSNSMMSEYYEDIENTHKALQ--DGWFKTGDIGKVS-SKRIH 355
                              43334444455566666.69******998.....68899*************************7..57**********8.569** PP

                              EEEECCCEEEE CS
              AMP-binding 412 ivgRkkdlikl 422
                              ++gR++d+i+l
  PHY93_11000|PHY93_11000 356 LMGRLDDMINL 366
                              *********98 PP

>> AMP-binding_C  AMP-binding enzyme C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.3   0.0   3.7e-09   2.2e-05       1      76 []     375     452 ..     375     452 .. 0.88

  Alignments for each domain:
  == domain 1  score: 25.3 bits;  conditional E-value: 3.7e-09
                              HHHHHHHSSTTEEEEEEE-----TTS..---EEEEEE------HHHHHHHHHHHHT-TTTS-SEEEE-S---B-TTS- CS
            AMP-binding_C   1 evEsalvshpaVaeaaVvGvpdevkG..ealvafVvlkdgsealeeeLkahvrkelgpyavpkkvvfvdelpktrsGK 76 
                              ev  ++ +hp+V +++  G + + +   +a+ +++v+ ++++    e+++ ++++l +y+ p +++++d++p ++ GK
  PHY93_11000|PHY93_11000 375 EVNRIIRQHPKVLDCFTTGLKIKDNEsdHAIGCLIVPVQNQSINILEIQEICKEHLSSYKIPTQFKILDKMPTNERGK 452
                              6778999************99886656799******9655434689*****************************999 PP

>> DUF5386  Family of unknown function (DUF5386)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   5.1e-05      0.31      39      75 ..     421     457 ..     407     463 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 5.1e-05
                  DUF5386  39 egksPvstklslasnPsefkfmdeiallkrGridkda 75 
                              e +  ++ +ls   +P++fk++d +    rG+id+  
  PHY93_11000|PHY93_11000 421 EIQEICKEHLSSYKIPTQFKILDKMPTNERGKIDRTF 457
                              55566789**************************975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (466 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       401  (0.022366); expected 358.6 (0.02)
Passed bias filter:                      349  (0.0194657); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.60u 0.24s 00:00:00.84 Elapsed: 00:00:00.44
# Mc/sec: 3167.28
//
Query:       PHY93_11005|PHY93_11005  [L=338]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.8e-23   83.6   0.2    2.9e-22   79.7   0.2    2.0  1  NMT1      NMT1/THI5 like
    2.4e-20   73.3   0.0    7.5e-20   71.7   0.0    1.6  1  NMT1_2    NMT1-like family
    0.00028   20.5   0.0    0.00048   19.7   0.0    1.4  1  YhfZ_C    YhfZ C-terminal domain
    0.00096   18.7   0.1     0.0016   17.9   0.1    1.4  1  NMT1_3    NMT1-like family
     0.0014   18.3   0.2     0.0059   16.2   0.1    2.1  2  OpuAC     Substrate binding domain of ABC-type glycine betain
     0.0018   17.7   0.1     0.0033   16.8   0.1    1.4  1  DctP      Bacterial extracellular solute-binding protein, fam


Domain annotation for each model (and alignments):
>> NMT1  NMT1/THI5 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.7   0.2   9.8e-26   2.9e-22       4     208 ..      38     251 ..      36     255 .. 0.82

  Alignments for each domain:
  == domain 1  score: 79.7 bits;  conditional E-value: 9.8e-26
                              GHHHHHHHHTTHHHHTTEEEEEE--SS.TTHHHHHHHCTS-SEEEE-HHHHH.HHHHTT--EEEEEE...EE-.S--EEEEEECC. CS
                     NMT1   4 haglyvAkekGYFkeeGldVeivepad.psdatelvasgkadfgvsyqesll.aarakglpvvsvaa...llq.eplsglivlkd. 82 
                               ag+y+A+e+GYFk++Gl+Vei+  ++ +++ t+l+ +g+ d+g  +  s    a   g+  + va    l + +   +l+v++d 
  PHY93_11005|PHY93_11005  38 SAGIYLAQERGYFKAQGLKVEINDFNNsSASMTALLSKGELDVGAGNIVSAHfNAINLGQRFKFVADkghLTEkKDYIALLVRTDl 123
                              69*********************996615667889999*****9988877664666678887777752224431456778888764 PP

                              ..C-.-SSGGGGTTSEEEE-S.-TT.HHHHHHHHHHHTT--GGG-EEEE-.TT-HHHHHHCTSSSEEECEETTTHHHHHHHTT--E CS
                     NMT1  83 ..sg.ikspkDLkGkrigyvg.spf.ekallkallakdggdpsdvtlvnvggtslakalltgkvDaaiggyenwegvelesegkel 163
                                sg   spkDLkG ++g++  +++ ++++ +++l k+g++p+dv++++ ++ ++ +al ++ +Da+i  +e   + ++ ++g   
  PHY93_11005|PHY93_11005 124 vtSGrYRSPKDLKGFKMGLTSlDGVsQQIIAERILTKNGLNPKDVEFIKLSYAEMNSALKAKLIDATI-QVEP-FLSKAVLDGFAQ 207
                              4445589***********988655536777899***********************************.6665.344455899999 PP

                              EEE-GGGTT-----SEEEEEEHHHHHH-HHHHHHHHHHHHHHHHH CS
                     NMT1 164 rifaladlgvpdyyslvlitnekllkenpelvkkFlrAlkkGyey 208
                              ++++++ + + + +s vl  +++++++np  +k F+ A+ +G+ +
  PHY93_11005|PHY93_11005 208 NMMSASIVHP-AQQSAVLLYSQDFIEKNPIEAKHFMMAYLQGVRD 251
                              9999888885.*******************************865 PP

>> NMT1_2  NMT1-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   71.7   0.0   2.5e-23   7.5e-20       8     233 ..      28     247 ..      22     264 .. 0.83

  Alignments for each domain:
  == domain 1  score: 71.7 bits;  conditional E-value: 2.5e-23
                   NMT1_2   8 lklGfialtdaaplvvakekglfakeGltvelekqaswaelrdkll.agelDaahv..ltpapllidlGiggakadmkvlaslnln 90 
                              +k++  +++  a +  a+e+g+f+ +Gl+ve+  +++ ++ +++ll +gelD+++   + +   +i+lG + + +  k+ ++ +++
  PHY93_11005|PHY93_11005  28 IKVAASPIISSAGIYLAQERGYFKAQGLKVEINDFNNSSASMTALLsKGELDVGAGniVSAHFNAINLGQRFKFVADKGHLTEKKD 113
                              788999999************************************999****9886558889999999996666666667777777 PP

                   NMT1_2  91 Gqaitlsnklkdkkvsdakalkdlvakkkaskplkiavtf.pgsthdlllrywLaaaGldpeadvklvvvpppqmvanlkagtidg 175
                                a++++ +l ++     ++ kdl       k++k++ t+ +g  ++++ ++ L ++Gl+p +dv+ +++  ++m+++lka+ id+
  PHY93_11005|PHY93_11005 114 YIALLVRTDLVTS--GRYRSPKDL-------KGFKMGLTSlDGVSQQIIAERILTKNGLNP-KDVEFIKLSYAEMNSALKAKLIDA 189
                              7777776654443..233334444.......9*******94566789999***********.************************ PP

                   NMT1_2 176 fcvgePwnaqavaegiGvtaltsqelwkdhPekv...lgvredfveknpntaralvkalle 233
                              ++  eP+ ++av +g   + ++s+++   hP +    l  ++df+eknp  a+++++a l+
  PHY93_11005|PHY93_11005 190 TIQVEPFLSKAVLDGF-AQNMMSASI--VHPAQQsavLLYSQDFIEKNPIEAKHFMMAYLQ 247
                              ****************.677777777..455543334********************9886 PP

>> YhfZ_C  YhfZ C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.7   0.0   1.6e-07   0.00048     126     163 ..     155     192 ..     124     237 .. 0.80

  Alignments for each domain:
  == domain 1  score: 19.7 bits;  conditional E-value: 1.6e-07
                   YhfZ_C 126 qkilteaifegkdvelveisynqllelllkgkiDavvW 163
                               +ilt++ ++ kdve++++sy+++  +l+++ iDa++ 
  PHY93_11005|PHY93_11005 155 ERILTKNGLNPKDVEFIKLSYAEMNSALKAKLIDATIQ 192
                              689*********************************94 PP

>> NMT1_3  NMT1-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.1   5.4e-07    0.0016     100     211 ..     126     238 ..      56     243 .. 0.83

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 5.4e-07
                   NMT1_3 100 dsgigsiadlkgkrvsvGp.egsGtegsarailealglsekdlklleelgygesadalkdgqldgaalvaGvPvsavtqlaasedi 184
                              ++  +s +dlkg ++++ +  g +++  a++il   gl+ kd++   +l+y+e+ +alk + +d++ +v  + + av + +a++ +
  PHY93_11005|PHY93_11005 126 SGRYRSPKDLKGFKMGLTSlDGVSQQIIAERILTKNGLNPKDVEF-IKLSYAEMNSALKAKLIDATIQVEPFLSKAVLDGFAQNMM 210
                              45566778888877777653577778899**************95.89**********************************9755 PP

                   NMT1_3 185 k.liplddeqldkllkeypvftkyvipa 211
                                 i   ++q + ll ++++++k  i+a
  PHY93_11005|PHY93_11005 211 SaSIVHPAQQSAVLLYSQDFIEKNPIEA 238
                              4367777788888888888888877776 PP

>> OpuAC  Substrate binding domain of ABC-type glycine betaine transport system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.1     2e-06    0.0059      23     173 ..      49     193 ..      28     266 .. 0.74
   2 ?   -2.1   0.0      0.76   2.3e+03      86     109 ..     302     326 ..     285     336 .. 0.60

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 2e-06
                              HHHHTTEEEEEEEEESHHHHHHHH.HTTSSSEEEEEEHHHHHHHHHHHHHHHHEEEEEEEESEEECEEEEEEHHHHHHHTTTBHHH CS
                    OpuAC  23 llekkGykveltnlgstavlfaal.asGdiDvypeewtgtayeaykkaveekkglevlgplgagnteglavpkyvaekygiksisD 107
                              +++++G+kve   ++++ + ++al ++G++Dv + +   ++ +a++ +   k++      +  +++ +l v+++++     +s +D
  PHY93_11005|PHY93_11005  49 YFKAQGLKVEINDFNNSSASMTALlSKGELDVGAGNIVSAHFNAINLGQRFKFVADKGHLTEKKDYIALLVRTDLVTSGRYRSPKD 134
                              67899***********99988888799*******999999988888766666666655577889999******************* PP

                              HCTHHGGTEEEEEHHCCHSTTSHHCCHHHHHHHHHHT-.T.TCEEEGSCEEEEHHHHHHHHHTTCSSE CS
                    OpuAC 108 LkkpaedlelgakgeflgrpdgwgcekvtegllkaYgl.d.kvelvegseaamdaelyaaykrgepvv 173
                              Lk  +          +++ + g   + ++e  l ++gl   +ve ++ s+a m ++l+a + + +++v
  PHY93_11005|PHY93_11005 135 LKGFKM--------GLTSLD-GVSQQIIAERILTKNGLnPkDVEFIKLSYAEMNSALKAKLIDATIQV 193
                              *66666........444444.5555666779999****767888876666666666666555544443 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 0.76
                              ECEEEEEEHHHHHH.HTTTBHHHHC CS
                    OpuAC  86 nteglavpkyvaek.ygiksisDLk 109
                                  ++ +k+ + k ++ k i D++
  PHY93_11005|PHY93_11005 302 EDIEWYFSKKYISKiPDMKNIVDMQ 326
                              3344555555555556666666664 PP

>> DctP  Bacterial extracellular solute-binding protein, family 7
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.1   1.1e-06    0.0033     126     239 ..     127     254 ..     119     279 .. 0.78

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 1.1e-06
                              S--SSGGGGTTEEEE......ETSSHHHHHHHHHHTSEEE.....E-TGGGHHHHHHTTSSSEEEEEHHHHHHTTGGGG-SEEEEE CS
                     DctP 126 kpinspeDlkglklR......vpessvllevfkalGanpt.....pipfgevytaLqtgvvDGqenplsniysqklyevqkyltlt 200
                                ++sp+Dlkg+k+       v +   +++++ + G np+     +++++e+  aL+++ +D+++++ +++ ++ l+ +++ ++  
  PHY93_11005|PHY93_11005 127 GRYRSPKDLKGFKMGltsldgVSQQIIAERILTKNGLNPKdvefiKLSYAEMNSALKAKLIDATIQVEPFLSKAVLDGFAQNMMSA 212
                              6799**********822222233444566677889****8322334689*****************************99999666 PP

                              E..EEE.EEEEEEEEHHHHHHS-HHHHHHHHHHHHHHHHHHH CS
                     DctP 201 n..hgy.ldllvlvnkktwdsLpedlqaileeaakeatelqr 239
                                 h+   ++++l ++++ ++ p + +  +   ++ ++++++
  PHY93_11005|PHY93_11005 213 SivHPAqQSAVLLYSQDFIEKNPIEAKHFMMAYLQGVRDYNN 254
                              678777567778899999999999999999888888887765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (338 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       716  (0.0399353); expected 358.6 (0.02)
Passed bias filter:                      453  (0.0252663); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.54u 0.25s 00:00:00.79 Elapsed: 00:00:00.43
# Mc/sec: 2383.20
//
Query:       PHY93_11010|PHY93_11010  [L=235]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      2e-21   76.9   0.0    4.9e-21   75.7   0.0    1.6  2  ABC_tran     ABC transporter
  ------ inclusion threshold ------
      0.099   12.9   0.1       0.27   11.5   0.1    1.8  1  AAA_22       AAA domain
       0.36   10.7   1.4        1.1    9.1   0.2    2.0  2  RsgA_GTPase  RsgA GTPase


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   75.7   0.0   8.1e-25   4.9e-21       1     136 [.      20     144 ..      20     145 .. 0.93
   2 ?   -2.6   0.0       1.2   7.1e+03      56      79 ..     182     206 ..     163     232 .. 0.56

  Alignments for each domain:
  == domain 1  score: 75.7 bits;  conditional E-value: 8.1e-25
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH.....HH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....xx RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren.....es 81 
                              l+n++l++ +g+ + +vG +GaGKS  lkl+a l+   +Gei            + l  +i++ +q++ l p l+v+en     + 
  PHY93_11010|PHY93_11010  20 LENLNLNIAKGSFHSLVGVTGAGKSLTLKLIASLVPLVSGEI------------TGLPLNISYAFQQSPLIPWLNVKENlkictTN 93 
                              789***************************************............7899**********************988766 PP

                              HTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  82 deeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                               ++++++l+ + l+el  +      ++LSgG+ q++ + r++l kp+l+l+DEp+
  PHY93_11010|PHY93_11010  94 YQDLSEYLKYFHLEELSSSYP----AELSGGMIQKINIIRCFLGKPDLILMDEPF 144
                              677888888888888766666....*****************************6 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 1.2
                              HCCHCEEEE-SS.--S-TTSBHHHH CS
                              xxxxxxxxxxxx.xxxxxxxxxxxx RF
                 ABC_tran  56 slrkeigvlpqe.pqlfpeltvren 79 
                              +l+++i+ ++++ +++ ++ +++en
  PHY93_11010|PHY93_11010 182 FLSQKISLYSKKdKCIVETFNIAEN 206
                              4555555555553444444445555 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   4.5e-05      0.27       6      38 ..      31      73 ..      27     181 .. 0.53

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 4.5e-05
                   AAA_22  6 gilvvtGesGtGKTtllrrlleqldeeakaee..........e 38
                             ++  ++G +G+GK+++l+ +++  + ++   +          +
  PHY93_11010|PHY93_11010 31 SFHSLVGVTGAGKSLTLKLIASLVPLVSGEITglplnisyafQ 73
                             56679**************999887665555466666666663 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   0.2   0.00019       1.1      83     122 ..      13      53 ..       5      64 .. 0.78
   2 ?    0.3   0.1     0.098   5.8e+02      30      77 ..     150     195 ..     145     222 .. 0.59

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.00019
                              -TTTHTTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT CS
              RsgA_GTPase  83 saktkegleelkellkd.ktsvlvGqSGvGKStLinallpe 122
                              s  +k+ le+l+ ++++ ++  lvG +G+GKS  ++ +++ 
  PHY93_11010|PHY93_11010  13 SFGNKKVLENLNLNIAKgSFHSLVGVTGAGKSLTLKLIASL 53 
                              6677889999999998879*************766666554 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.098
                              --HHHHHHHHHHHHHTT-EEEEEEE-GGG--HHHHHHHHHHHHHHTTS CS
              RsgA_GTPase  30 lslnlldrfLvlaeekgiepvivlnKiDlleeeeeleelkeelealgy 77 
                              ++ + l+ fL+++++ + +p+iv+   D+ e    l++  + +++ + 
  PHY93_11010|PHY93_11010 150 IQREGLHNFLIELWN-KFHPTIVFVTHDIDEAIF-LSQKISLYSKKDK 195
                              566678888888885.578888888888776655.4444444444433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (235 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       565  (0.0315132); expected 358.6 (0.02)
Passed bias filter:                      373  (0.0208043); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.42
# Mc/sec: 1662.03
//
Query:       PHY93_11015|PHY93_11015  [L=244]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.3e-10   40.5   9.9    2.3e-10   40.5   9.9    1.5  2  BPD_transp_1  Binding-protein-dependent transport system inne


Domain annotation for each model (and alignments):
>> BPD_transp_1  Binding-protein-dependent transport system inner membrane component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.7   0.3      0.48   8.7e+03     114     125 ..      10      21 ..       4      32 .. 0.51
   2 !   40.5   9.9   1.3e-14   2.3e-10       2     180 ..      74     241 ..      69     244 .] 0.85

  Alignments for each domain:
  == domain 1  score: -3.7 bits;  conditional E-value: 0.48
             BPD_transp_1 114 lilafggllgga 125
                               i+++++++ + 
  PHY93_11015|PHY93_11015  10 SIIVLVLVWEAL 21 
                              334444444444 PP

  == domain 2  score: 40.5 bits;  conditional E-value: 1.3e-14
             BPD_transp_1   2 illGilaalnrnkkldkllrpliivllslPsfvlaillvlvfvilsilghlilp.viillllsaapyvrlirraalrslpkdlvea 86 
                              +llGi a+  +++++d+l+ p+  +++ lP +++++l++       i+g + ++ vi++++ ++  + + +r++  r+l+++l+e 
  PHY93_11015|PHY93_11015  74 YLLGICAG--SSGPIDQLINPFLALTYPLPKIAIFPLIL------LIFGIGDFSkVILIAIGMFYLVYINVRSGTKRILNSSLMEI 151
                              45666666..*****************************......99*******77777777777777777888888********* PP

             BPD_transp_1  87 aralGasrwqifrkvvlPnalppiitglilafggllggavlleflgswpGlgtllleailgydyseisnggvlalviavlllnlva 172
                               +++    w  +++ +++ +l+ ++ gl  ++g+ l   v+ ef  s++G+g +++++  ++ +  ++    + ++i+ +l ++++
  PHY93_11015|PHY93_11015 152 VHVYKIVGWNYYYHFLFKGVLRDFLVGLKASLGYGLLLVVVSEFSVSKNGVGHFIWQSWDQFRVIDMY----AGILILSFLGLFIS 233
                              ********************************************************987777777555....55555555555555 PP

             BPD_transp_1 173 dilqrlld 180
                              + l  ++d
  PHY93_11015|PHY93_11015 234 YGLDFFID 241
                              55555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (244 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       567  (0.0316247); expected 358.6 (0.02)
Passed bias filter:                      253  (0.0141112); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1770.43
//
Query:       PHY93_11020|PHY93_11020  [L=274]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.7e-06   27.7  16.7    0.00033   20.2  16.7    2.1  1  NQR2_RnfD_RnfE  NQR2, RnfD, RnfE family


Domain annotation for each model (and alignments):
>> NQR2_RnfD_RnfE  NQR2, RnfD, RnfE family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.2  16.7   1.8e-08   0.00033      29     265 ..      26     248 ..      21     266 .. 0.66

  Alignments for each domain:
  == domain 1  score: 20.2 bits;  conditional E-value: 1.8e-08
           NQR2_RnfD_RnfE  29 llfgvynfglqa.lllilvavvvavlaEvlfaklrkkevkvt....dlsavvtglLlalilPptlplwvvvigsvfaivvvKelfG 109
                              +++ +++f lq   ++i++a++ ++++E++f + ++k  k       +sa+     l ++l ++l +++ ++g+v + v +K lf 
  PHY93_11020|PHY93_11020  26 VIICLLFFSLQRtPIQIAFAILCGLITEYIFYQATSKYEKYMlwdrLFSAFTEVAGLLVLLKSHLWWFYGFLGAV-T-VAAKYLFR 109
                              455566666665156899*************99997777555896434444333333334445555555555544.3.568***** PP

           NQR2_RnfD_RnfE 110 GlGq.NifNPAlvgrafllisfpaqmt..wvaDavsgatpLaalksaslldlflgniagsigetsalalllgglyLlvrkiiswri 192
                               + +  ifNP  +++ +++  fp +    w  + +s+  p+ ++ +            g i  +   +++++ +y+l   +i w +
  PHY93_11020|PHY93_11020 110 KTEKtHIFNPTNFAITIAVTFFPLHWFgaWPDEYMSSWYPMLHITA-----------FGIIAVWLGRIYIVSIAYIL--SVIFWCL 182
                              9986479****************88866676666666666663333...........35455555555555555554..4566666 PP

           NQR2_RnfD_RnfE 193 pvsvlatvavlsllfnllaapplfhllsGgl.llgafFmatdpvtspitkkGklifglliGlltvliRvfg.ayp 265
                              +++ + ++a l++ ++     p     +G++ l+  + m+tdp t+p + k ++++g+ i+++ +l+R+ +  y+
  PHY93_11020|PHY93_11020 183 VFFPINGLASLIYAIG-----PE----FGAIgLIYLWLMITDPKTAPKKYKHQIFYGFSIAFIHILLRYNQyIYS 248
                              6666666665555555.....22....33331556788******************************8653343 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (274 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       813  (0.0453455); expected 358.6 (0.02)
Passed bias filter:                      237  (0.0132188); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.61u 0.28s 00:00:00.89 Elapsed: 00:00:00.50
# Mc/sec: 1652.80
//
Query:       PHY93_11025|PHY93_11025  [L=599]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.2e-40  137.9  35.8    3.2e-11   43.6   2.2    6.5  6  VCBS        Repeat domain in Vibrio, Colwellia, Bradyrhizobiu
    4.6e-20   71.4   8.6     0.0014   18.7   0.1    6.6  6  FG-GAP      FG-GAP repeat
    7.8e-12   45.0   0.0    2.1e-11   43.6   0.0    1.7  1  UnbV_ASPIC  ASPIC and UnbV
  ------ inclusion threshold ------
      0.015   14.7   0.0        0.6    9.5   0.0    2.9  3  BBS1        Ciliary BBSome complex subunit 1
       0.13   12.2   0.3         22    5.0   0.0    3.1  3  pXO2-34     Family of unknown function
       0.16   12.0   0.1        4.5    7.4   0.1    3.1  3  BBS2_Mid    Ciliary BBSome complex subunit 2, middle region
        1.2    8.9  16.0        4.6    7.0   0.3    5.4  5  EF-hand_1   EF hand


Domain annotation for each model (and alignments):
>> VCBS  Repeat domain in Vibrio, Colwellia, Bradyrhizobium and Shewanella
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.9   0.4   4.5e-14   1.1e-10       1      60 [.      96     161 ..      96     162 .. 0.74
   2 !   29.2   0.2     4e-10     1e-06       1      60 [.     151     210 ..     151     211 .. 0.94
   3 !   24.0   0.6   1.7e-08   4.4e-05      14      60 ..     237     282 ..     219     283 .. 0.85
   4 !   43.6   2.2   1.3e-14   3.2e-11       1      61 []     272     336 ..     272     336 .. 0.92
   5 !   41.2   2.3   7.2e-14   1.8e-10       1      61 []     325     393 ..     325     393 .. 0.82
   6 !   19.6   0.2   3.9e-07     0.001      20      60 ..     449     489 ..     440     490 .. 0.82

  Alignments for each domain:
  == domain 1  score: 41.9 bits;  conditional E-value: 4.5e-14
                     VCBS   1 DldgDGrlDlvvan.dgg.lrvyrnngdGtftdvtkt....slggsgggtgvavgDlDgDGdlDll 60 
                              D+++DG++D+++++  ++ + +y+n++   f++ ++     +l++   +  + +gD+++DG lDl+
  PHY93_11025|PHY93_11025  96 DINNDGYMDIYITTsKNRpNLLYINHQGKYFSEEAAKfglaDLNQESVPSYAFWGDFNNDGLLDLV 161
                              9************6444437778888666688654432222666677777799***********98 PP

  == domain 2  score: 29.2 bits;  conditional E-value: 4e-10
                     VCBS   1 DldgDGrlDlvvandgglrvyrnngdGtftdvtktslggsgggtgvavgDlDgDGdlDll 60 
                              D+++DG+lDlv+a  g   ++ ++++G+f + +++  g    ++gv ++D+ + G+lDl+
  PHY93_11025|PHY93_11025 151 DFNNDGLLDLVYARHGCHSFFTGTKNGKFVEHQEWFKGYCSKPNGVNAADFYHHGRLDLV 210
                              9*****************************998887777899****************98 PP

  == domain 3  score: 24.0 bits;  conditional E-value: 1.7e-08
                     VCBS  14 ndgglrvyrnngdGtftdvtktslggsgggtgvavgDlDgDGdlDll 60 
                              + g+++++rn+g+ +f+   k  + +s + +++ ++D++ DG++D++
  PHY93_11025|PHY93_11025 237 TGGKNHLLRNDGK-SFQIEDKANFQTSSYTHNAGIADINLDGYPDIF 282
                              4688*******97.8*******************************8 PP

  == domain 4  score: 43.6 bits;  conditional E-value: 1.3e-14
                     VCBS   1 DldgDGrlDlvvan.dgglrvyrnngdGtftdvtktslgg...sgggtgvavgDlDgDGdlDllv 61 
                              D++ DG++D++++n + + ++++n ++G+f+dvt++ ++    + +g++  ++D++ DG  Dl+v
  PHY93_11025|PHY93_11025 272 DINLDGYPDIFFSNdYAHDEMFLNLKNGNFQDVTNQYIPKevhGLAGMNTEFFDFNSDGLIDLYV 336
                              9************967*******************9777767777788899************98 PP

  == domain 5  score: 41.2 bits;  conditional E-value: 7.2e-14
                     VCBS   1 DldgDGrlDlvva.......ndgglrvyrnngdGtftdvtkt.slggsgggtgvavgDlDgDGdlDllv 61 
                              D++ DG+ Dl+v+       n++ + ++  + d+tf++v++   ++  g ++++ ++D+++DGd+Dllv
  PHY93_11025|PHY93_11025 325 DFNSDGLIDLYVTnifkppfNRHFNLLWKKKVDNTFENVSNDlGVAKCGFSWAAKFADINNDGDPDLLV 393
                              9************7776643344466666777*******98746666999999**************98 PP

  == domain 6  score: 19.6 bits;  conditional E-value: 3.9e-07
                     VCBS  20 vyrnngdGtftdvtk.tslggsgggtgvavgDlDgDGdlDll 60 
                              +++++ +G f d+++   +++   ++ +a+ D+D+DG++D++
  PHY93_11025|PHY93_11025 449 LFVQK-NGEFFDIADdAGFNDREENRVMALIDYDNDGKMDVI 489
                              45555.788777776269**********************97 PP

>> FG-GAP  FG-GAP repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   2.2e-06    0.0056       4      21 ..      91     108 ..      89     124 .. 0.87
   2 !   11.6   0.0     9e-05      0.23       8      21 ..     150     163 ..     149     178 .. 0.74
   3 !    9.4   0.5   0.00045       1.2       6      18 ..     269     281 ..     266     290 .. 0.88
   4 ?    3.5   0.0     0.032        81       9      21 ..     325     337 ..     323     347 .. 0.83
   5 !   18.7   0.1   5.5e-07    0.0014       2      28 ..     375     397 ..     374     409 .. 0.80
   6 !    9.9   0.0   0.00031      0.79       6      21 ..     476     491 ..     472     505 .. 0.86

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 2.2e-06
                              SEEEESTSSSSS-EEEEE CS
                   FG-GAP   4 slavgDvNGDGyaDLavG 21 
                              s++v D+N+DGy D+ ++
  PHY93_11025|PHY93_11025  91 SVSVIDINNDGYMDIYIT 108
                              89*************998 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 9e-05
                              ESTSSSSS-EEEEE CS
                   FG-GAP   8 gDvNGDGyaDLavG 21 
                              gD+N+DG+ DL+ +
  PHY93_11025|PHY93_11025 150 GDFNNDGLLDLVYA 163
                              9**********976 PP

  == domain 3  score: 9.4 bits;  conditional E-value: 0.00045
                              EEESTSSSSS-EE CS
                   FG-GAP   6 avgDvNGDGyaDL 18 
                              + +D+N DGy+D+
  PHY93_11025|PHY93_11025 269 GIADINLDGYPDI 281
                              789*********9 PP

  == domain 4  score: 3.5 bits;  conditional E-value: 0.032
                              STSSSSS-EEEEE CS
                   FG-GAP   9 DvNGDGyaDLavG 21 
                              D+N DG+ DL v+
  PHY93_11025|PHY93_11025 325 DFNSDGLIDLYVT 337
                              9******999998 PP

  == domain 5  score: 18.7 bits;  conditional E-value: 5.5e-07
                              TSSEEEESTSSSSS-EEEEEETT-ETC CS
                   FG-GAP   2 GyslavgDvNGDGyaDLavGApeskgg 28 
                               +++  +D+N+DG +DL+v+    +g+
  PHY93_11025|PHY93_11025 375 SWAAKFADINNDGDPDLLVT----NGR 397
                              5777789*************....554 PP

  == domain 6  score: 9.9 bits;  conditional E-value: 0.00031
                              EEESTSSSSS-EEEEE CS
                   FG-GAP   6 avgDvNGDGyaDLavG 21 
                              a+ D+++DG+ D++++
  PHY93_11025|PHY93_11025 476 ALIDYDNDGKMDVITA 491
                              667***********97 PP

>> UnbV_ASPIC  ASPIC and UnbV
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.6   0.0     8e-15   2.1e-11       3      66 ..     528     593 ..     527     595 .. 0.89

  Alignments for each domain:
  == domain 1  score: 43.6 bits;  conditional E-value: 8e-15
               UnbV_ASPIC   3 GArVtvtyagatql.revdpgrGylsssdprlhFGLGkatkidsvevrWp.dGkvqtlenvkanqt 66 
                              GA+++  +++++ + re++p +Gy + +dpr+h+GLG+a+ + ++e+ Wp + +++++++vk +q+
  PHY93_11025|PHY93_11025 528 GAHIKFNLSNGKKIsRELYPANGYRGFNDPRIHVGLGNAQIVGDIEIFWPlNRVTTKINKVKLDQY 593
                              999999999665555***********************************66677788***99995 PP

>> BBS1  Ciliary BBSome complex subunit 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.0      0.24     6e+02      16      38 ..      89     111 ..      82     123 .. 0.85
   2 ?    9.5   0.0   0.00023       0.6      16      85 ..     375     444 ..     365     458 .. 0.75
   3 ?    0.4   0.0      0.14   3.7e+02      18      51 ..     474     502 ..     470     509 .. 0.86

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.24
                     BBS1  16 sscialaDlkgdgdvkLvvadlg 38 
                              + +++++D+++dg++ + +++ +
  PHY93_11025|PHY93_11025  89 PPSVSVIDINNDGYMDIYITTSK 111
                              66899**********99998876 PP

  == domain 2  score: 9.5 bits;  conditional E-value: 0.00023
                     BBS1  16 sscialaDlkgdgdvkLvvadlgteeskkkLkvykgte.l.tseitLldlPsaivsfyvdekepripaiava 85 
                              s   ++aD+++dgd  L+v++ +  + ++ Lk +   + +  + i++ ++P  i +fy  +++ +   i+  
  PHY93_11025|PHY93_11025 375 SWAAKFADINNDGDPDLLVTNGR--SRSANLKKFGEGKsMwYERIEVSQIPEIIRQFYQPHDSLKGRYISAF 444
                              667789****************9..677889999655414245689999***99999977766665555555 PP

  == domain 3  score: 0.4 bits;  conditional E-value: 0.14
                     BBS1  18 cialaDlkgdgdvkLvvadlgteeskkkLkvykg 51 
                               +al+D  +dg++ ++ a        +kLk++++
  PHY93_11025|PHY93_11025 474 VMALIDYDNDGKMDVITAGTI-----SKLKIFHN 502
                              699*************99888.....89999975 PP

>> pXO2-34  Family of unknown function
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       2.3   5.8e+03      26      36 ..     173     183 ..     169     184 .. 0.75
   2 ?    3.5   0.0     0.025        63      23      38 ..     292     307 ..     289     313 .. 0.83
   3 ?    5.0   0.0    0.0086        22      13      37 ..     438     462 ..     435     470 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 2.3
                  pXO2-34  26 nlgnGkfinqe 36 
                                +nGkf++ +
  PHY93_11025|PHY93_11025 173 GTKNGKFVEHQ 183
                              568****9876 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.025
                  pXO2-34  23 iwinlgnGkfinqetr 38 
                              +++nl+nG+f + +++
  PHY93_11025|PHY93_11025 292 MFLNLKNGNFQDVTNQ 307
                              79********998876 PP

  == domain 3  score: 5.0 bits;  conditional E-value: 0.0086
                  pXO2-34  13 ahtvrlfdgsiwinlgnGkfinqet 37 
                                +++ f+++ + + +nG+f++ ++
  PHY93_11025|PHY93_11025 438 GRYISAFERKCLFVQKNGEFFDIAD 462
                              5799*****************9765 PP

>> BBS2_Mid  Ciliary BBSome complex subunit 2, middle region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.0   0.0      0.33   8.4e+02       2      49 ..      92     139 ..      91     148 .. 0.69
   2 ?   -1.3   0.0      0.88   2.3e+03       4      27 ..     380     406 ..     377     427 .. 0.64
   3 ?    7.4   0.1    0.0018       4.5       2      31 ..     475     504 ..     474     510 .. 0.92

  Alignments for each domain:
  == domain 1  score: 0.0 bits;  conditional E-value: 0.33
                 BBS2_Mid   2 laladvdgdgeneLvvgsddfeirvfkeeelvaeitetekvvslarle 49 
                              + ++d+++dg  ++ + +  ++  ++  ++  + ++e+++   la+l+
  PHY93_11025|PHY93_11025  92 VSVIDINNDGYMDIYITTSKNRPNLLYINHQGKYFSEEAAKFGLADLN 139
                              678999999999999998877766665555555566666666666555 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 0.88
                 BBS2_Mid   4 ladvdgdgeneLvvg...sddfeirvf 27 
                              +ad+++dg+ +L+v    s   +++ f
  PHY93_11025|PHY93_11025 380 FADINNDGDPDLLVTngrSRSANLKKF 406
                              688999999988886333455555555 PP

  == domain 3  score: 7.4 bits;  conditional E-value: 0.0018
                 BBS2_Mid   2 laladvdgdgeneLvvgsddfeirvfkeee 31 
                              +al+d+d+dg+ +++ + +  ++++f++++
  PHY93_11025|PHY93_11025 475 MALIDYDNDGKMDVITAGTISKLKIFHNDT 504
                              89*************************996 PP

>> EF-hand_1  EF hand
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.2    0.0089        23       8      19 ..      94     105 ..      92     106 .. 0.87
   2 ?    0.5   0.0      0.22   5.7e+02      10      19 ..     151     160 ..     150     168 .. 0.89
   3 ?    3.1   0.2     0.032        81       8      19 ..     323     334 ..     322     335 .. 0.88
   4 ?   -0.1   0.1      0.34   8.8e+02       7      15 ..     379     387 ..     374     388 .. 0.82
   5 ?    7.0   0.3    0.0018       4.6       4      18 ..     473     487 ..     472     488 .. 0.89

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.0089
                              HHTTTSSSEEEH CS
                EF-hand_1   8 efDkDgdGkIdf 19 
                              ++D ++dG++d+
  PHY93_11025|PHY93_11025  94 VIDINNDGYMDI 105
                              68*******995 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.22
                              TTTSSSEEEH CS
                EF-hand_1  10 DkDgdGkIdf 19 
                              D ++dG +d+
  PHY93_11025|PHY93_11025 151 DFNNDGLLDL 160
                              99****9996 PP

  == domain 3  score: 3.1 bits;  conditional E-value: 0.032
                              HHTTTSSSEEEH CS
                EF-hand_1   8 efDkDgdGkIdf 19 
                               fD + dG Id+
  PHY93_11025|PHY93_11025 323 FFDFNSDGLIDL 334
                              59********96 PP

  == domain 4  score: -0.1 bits;  conditional E-value: 0.34
                              HHHTTTSSS CS
                EF-hand_1   7 refDkDgdG 15 
                              + +D ++dG
  PHY93_11025|PHY93_11025 379 KFADINNDG 387
                              679*****9 PP

  == domain 5  score: 7.0 bits;  conditional E-value: 0.0018
                              HHHHHHTTTSSSEEE CS
                EF-hand_1   4 eiFrefDkDgdGkId 18 
                              ++++++D D+dGk+d
  PHY93_11025|PHY93_11025 473 RVMALIDYDNDGKMD 487
                              6899*********98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (599 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       373  (0.0208043); expected 358.6 (0.02)
Passed bias filter:                      299  (0.0166769); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.65u 0.26s 00:00:00.91 Elapsed: 00:00:00.49
# Mc/sec: 3680.27
//
Query:       PHY93_11030|PHY93_11030  [L=345]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (345 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       424  (0.0236488); expected 358.6 (0.02)
Passed bias filter:                      280  (0.0156172); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.54u 0.28s 00:00:00.82 Elapsed: 00:00:00.48
# Mc/sec: 2140.03
//
Query:       PHY93_11035|PHY93_11035  [L=134]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (134 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       232  (0.0129399); expected 358.6 (0.02)
Passed bias filter:                      211  (0.0117686); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.21s 00:00:00.60 Elapsed: 00:00:00.39
# Mc/sec: 1028.92
//
Query:       PHY93_11040|PHY93_11040  [L=416]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (416 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1841  (0.102683); expected 358.6 (0.02)
Passed bias filter:                      639  (0.0356406); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.66u 0.29s 00:00:00.95 Elapsed: 00:00:00.48
# Mc/sec: 2583.08
//
Query:       PHY93_16830|PHY93_16830  [L=254]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.6e-35  119.3   1.4    1.3e-34  118.2   1.4    1.6  1  DiS_P_DiS      Bacterial Peptidase A24 N-terminal domain
    1.2e-12   48.2  12.6    1.2e-12   48.2  12.6    2.1  2  Peptidase_A24  Type IV leader peptidase family
  ------ inclusion threshold ------
      0.051   13.2   0.0       0.13   11.9   0.0    1.7  1  MotB_plug      Membrane MotB of proton-channel complex MotA/M
       0.18   11.2   0.2        9.7    5.7   0.0    2.3  2  zf_Rg          Reverse gyrase zinc finger
          1    8.9   4.4        2.7    7.5   0.5    2.2  2  zf-ribbon_3    zinc-ribbon domain
        1.4    8.9   4.7         19    5.3   0.6    2.3  2  zinc_ribbon_4  zinc-ribbon domain


Domain annotation for each model (and alignments):
>> DiS_P_DiS  Bacterial Peptidase A24 N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  118.2   1.4   4.2e-38   1.3e-34       1      81 [.      11      91 ..      11      93 .. 0.97

  Alignments for each domain:
  == domain 1  score: 118.2 bits;  conditional E-value: 4.2e-38
                DiS_P_DiS  1 ilGlligSFlnvviyrlpkkkslvkprSrCpkCghklkwleliPvlSylllrgrCraCkakislryplvElltallfllla 81
                             i+G++igSFln +iyr+p   ++++prS+Cp+C+h ++w+e+iPv+Sy++lrg+C++C++kis+ yp+vEl+t+l+++++a
  PHY93_16830|PHY93_16830 11 IFGIMIGSFLNALIYRIPLGINIAYPRSACPNCKHVISWYENIPVISYIFLRGKCSNCQTKISWLYPFVELITGLFAFFIA 91
                             79*****************88******************************************************998875 PP

>> Peptidase_A24  Type IV leader peptidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.2       1.1   3.4e+03      28      36 ..       9      17 ..       1      34 [. 0.49
   2 !   48.2  12.6   3.9e-16   1.2e-12       3     107 .]     109     214 ..     105     214 .. 0.82

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 1.1
            Peptidase_A24 28 llllgvlfa 36
                              +++g++++
  PHY93_16830|PHY93_16830  9 ATIFGIMIG 17
                             222222222 PP

  == domain 2  score: 48.2 bits;  conditional E-value: 3.9e-16
            Peptidase_A24   3 lltillvlsviDldtrtlpdeltlpllllgvlfaqllllglpnlaqavlgalvgalvllli..slvdeq...amGgGDvklaavlg 83 
                              +++  lv  ++Dl++++lpd++ ++l ll++++a    + +  ++ +++g+ +g+++ l++  +++ ++   ++GgGD+kl avlg
  PHY93_16830|PHY93_16830 109 VFSAFLVHFIVDLKHQILPDSINIYLGLLFLVMA----FITRPWTHWLIGFGLGLGFPLFVswIFYLMKgqvGLGGGDIKLYAVLG 190
                              577889999****************999999987....3667777777777776666555543333333468************** PP

            Peptidase_A24  84 aflgwerlllavlvaillgavlgl 107
                              + lg  +++  ++++++lga++gl
  PHY93_16830|PHY93_16830 191 IYLGPIAVMQNIFMSCFLGAIVGL 214
                              *********************986 PP

>> MotB_plug  Membrane MotB of proton-channel complex MotA/MotB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   4.4e-05      0.13      16      34 ..      72      90 ..      62      95 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 4.4e-05
                MotB_plug 16 erWlvtYaDlmtLLlaFFv 34
                              +Wl ++  l+t L+aFF+
  PHY93_16830|PHY93_16830 72 ISWLYPFVELITGLFAFFI 90
                             37****************9 PP

>> zf_Rg  Reverse gyrase zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   0.0    0.0033       9.7       8      18 ..      38      48 ..      34      51 .. 0.80
   2 ?    3.2   0.0      0.02        59       6      18 ..      61      73 ..      55      74 .. 0.71

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.0033
                    zf_Rg  8 klCPNCgGdis 18
                             + CPNC+  is
  PHY93_16830|PHY93_16830 38 SACPNCKHVIS 48
                             68****97766 PP

  == domain 2  score: 3.2 bits;  conditional E-value: 0.02
                    zf_Rg  6 feklCPNCgGdis 18
                             ++  C NC+ +is
  PHY93_16830|PHY93_16830 61 LRGKCSNCQTKIS 73
                             3457*****9986 PP

>> zf-ribbon_3  zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   0.5   0.00091       2.7       5      12 ..      40      47 ..      38      48 .. 0.71
   2 ?    2.6   0.2     0.031        94      18      26 .]      64      72 ..      64      72 .. 0.74

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.00091
              zf-ribbon_3  5 CPnCGapl 12
                             CPnC++++
  PHY93_16830|PHY93_16830 40 CPNCKHVI 47
                             88888865 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.031
              zf-ribbon_3 18 vCpyCGtkl 26
                             +C +C+tk+
  PHY93_16830|PHY93_16830 64 KCSNCQTKI 72
                             588888876 PP

>> zinc_ribbon_4  zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.2   0.3    0.0068        20      28      35 ..      40      47 ..      38      48 .. 0.84
   2 ?    5.3   0.6    0.0062        19      27      35 ..      64      72 ..      63      73 .. 0.83

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.0068
            zinc_ribbon_4 28 CskCghvF 35
                             C++C+hv+
  PHY93_16830|PHY93_16830 40 CPNCKHVI 47
                             99999986 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.0062
            zinc_ribbon_4 27 rCskCghvF 35
                             +Cs+C++++
  PHY93_16830|PHY93_16830 64 KCSNCQTKI 72
                             799999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (254 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       961  (0.0536003); expected 358.6 (0.02)
Passed bias filter:                      498  (0.0277762); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.52u 0.27s 00:00:00.79 Elapsed: 00:00:00.47
# Mc/sec: 1636.83
//
Query:       PHY93_11045|PHY93_11045  [L=406]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.15   11.9   0.0       0.41   10.5   0.0    1.6  2  DUF4347   Domain of unknown function (DUF4347)


Domain annotation for each model (and alignments):
>> DUF4347  Domain of unknown function (DUF4347)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   2.3e-05      0.41      21     100 ..     100     178 ..      82     182 .. 0.87
   2 ?   -2.3   0.0       0.2   3.5e+03     117     143 ..     358     384 ..     344     393 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 2.3e-05
                  DUF4347  21 gvevvvldaerdgveqiteaLaqrsevdaihivshGsegalqLgntelnaenlekyaeelaqwgealsedadillYgCnv 100
                              +++v+ + +++ + e+  + La  ++++++ ++ h s+ a+++g+++  ++  ++y+ ++a+++++++++a + + +Cn 
  PHY93_11045|PHY93_11045 100 NINVYKIVKQTFTAENFFAELAPFQKIASLDFFGHSSPWAIKIGKSNAALDP-SAYQVKIASLKSKFTKNAYMTISSCNS 178
                              566777777777888888899999**********************998886.55899***************9999985 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 0.2
                  DUF4347 117 tgadvaAstdltGnaalggdWeLevst 143
                               +a+v   ++  G+  +gg+ ++e ++
  PHY93_11045|PHY93_11045 358 CKAKVICKSNVFGSGPKGGSCKIEAEI 384
                              578999999999*99999999999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (406 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       574  (0.0320152); expected 358.6 (0.02)
Passed bias filter:                      381  (0.0212505); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.39
# Mc/sec: 3125.26
//
Query:       PHY93_11050|PHY93_11050  [L=917]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.5e-24   84.5  10.0      3e-23   82.1   0.1    3.8  4  Cu-oxidase_3  Multicopper oxidase
      3e-22   78.8   6.5    8.9e-20   70.8   1.1    3.2  3  Cu-oxidase_2  Multicopper oxidase
    2.9e-10   40.5   0.1    3.3e-09   37.1   0.0    2.8  2  Cu-oxidase    Multicopper oxidase


Domain annotation for each model (and alignments):
>> Cu-oxidase_3  Multicopper oxidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   82.1   0.1   5.1e-27     3e-23      26     112 ..     171     252 ..     153     258 .. 0.88
   2 ?   -2.5   0.0      0.84     5e+03      75      96 ..     384     404 ..     378     412 .. 0.60
   3 !    6.6   0.4    0.0012       7.3      16      55 ..     560     602 ..     548     664 .. 0.75
   4 ?   -1.2   0.7      0.34     2e+03      50      78 ..     689     717 ..     648     763 .. 0.60

  Alignments for each domain:
  == domain 1  score: 82.1 bits;  conditional E-value: 5.1e-27
                              S-EEEEETT-EEEEEEEE-SSS-B-EEEET--S-GG.....GSCSGGG-B-TT-EEEEEEE--S-SEEEEEEE--TTHHH.TT-EE CS
             Cu-oxidase_3  26 gptievregdtvvvnvtNkldentsihwhGlqqrktswmDGvpgvtqcpiqpgesftyrftvkqqagtlwYhshlslqqa.aGlaG 110
                              +p + + eg+t +++v+N++d +ts+hwhGl ++++  +DG+ g+tq pi+++ + +y+f++kq +gt+wYh+h  ++q  +G   
  PHY93_11050|PHY93_11050 171 APPLFFIEGETAEITVINNADTPTSVHWHGLILPND--QDGIVGITQMPIPSHGKKVYSFPLKQ-NGTYWYHPHDLNEQDtKG--- 250
                              6889999*****************************..**************************.*********999633244... PP

                              EE CS
             Cu-oxidase_3 111 ai 112
                               +
  PHY93_11050|PHY93_11050 251 SF 252
                              44 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 0.84
                              B-TT-EEEEEEE--S-SEEEEE CS
             Cu-oxidase_3  75 iqpgesftyrftvkqqagtlwY 96 
                              i+pg++++ r+  +  a++++Y
  PHY93_11050|PHY93_11050 384 IKPGDRVRLRIVNSS-ASSYFY 404
                              555555555554444.555555 PP

  == domain 3  score: 6.6 bits;  conditional E-value: 0.0012
                              EEEEECTSSBS-EEEEETT-EEEEEEEE-SSS-B-...EEEET CS
             Cu-oxidase_3  16 evitvNgqfpgptievregdtvvvnvtNkldents...ihwhG 55 
                               +++ N++   p ++++e+++v+++++N+++ ++     h+hG
  PHY93_11050|PHY93_11050 560 GTVLKNDSGGMPYLTITEDSRVRITIRNNMTMGMMnhpWHLHG 602
                              55677888889*******************6665411155666 PP

  == domain 4  score: -1.2 bits;  conditional E-value: 0.34
                              -EEEET--S-GG.....GSCSGGG-B-TT CS
             Cu-oxidase_3  50 sihwhGlqqrktswmDGvpgvtqcpiqpg 78 
                              s h + +++++ ++ DG++ + ++ ++ g
  PHY93_11050|PHY93_11050 689 SNHPNQMDIKSGTILDGMKNMKNQYVTVG 717
                              33444555555555555555555554443 PP

>> Cu-oxidase_2  Multicopper oxidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.1   0.1   0.00017         1      24      61 ..     158     200 ..     128     207 .. 0.74
   2 ?   -2.1   0.0      0.48   2.9e+03      95     118 ..     218     241 ..     214     253 .. 0.85
   3 !   70.8   1.1   1.5e-23   8.9e-20      32     132 ..     570     667 ..     539     671 .. 0.81

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.00017
                              ETCCTTTSSEEEEEET.....TEEEEEEEEE-SSS-EEEEESS CS
             Cu-oxidase_2  24 ngeefsentnvitlpk.....gevveiviqnntklpHPfHlHG 61 
                              + +ef+ ++ ++++p      ge+ ei++ nn+++p ++H+HG
  PHY93_11050|PHY93_11050 158 EAKEFNSKQRPVNAPPlffieGETAEITVINNADTPTSVHWHG 200
                              444555555555555556666*********************9 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 0.48
                              E-TTEEEEEEEES.S-EEEEEEES CS
             Cu-oxidase_2  95 vppggwvairfkadnpGvwllHCH 118
                              +p++g+ ++ f  ++ G + +H H
  PHY93_11050|PHY93_11050 218 IPSHGKKVYSFPLKQNGTYWYHPH 241
                              678899999999999*******99 PP

  == domain 3  score: 70.8 bits;  conditional E-value: 1.5e-23
                              SEEEEEETTEEEEEEEEE-SSS...-EEEEESS-EEEEEEEEECCCCCCTCCSSGCCGSSCBSEEEE-TTEEEEEEEES...S-EE CS
             Cu-oxidase_2  32 tnvitlpkgevveiviqnntkl...pHPfHlHGhdfqvlgrgpgndpeedpksynlenpvrrdtvqvppggwvairfkad..npGv 112
                               + +t+ ++++v+i+i nn ++   +HP+HlHG+ f+++++g  +       ++   +++  +t+++ pg++v +++ ad    G+
  PHY93_11050|PHY93_11050 570 MPYLTITEDSRVRITIRNNMTMgmmNHPWHLHGNFFRIIDNGDTD-------DI-IAKKPLFHTATIFPGQEVELEIYADpaFRGA 647
                              45689999**********9999899**************888888.......33.4678889**************88876689** PP

                              EEEEESSHHHHHTT-EEEEE CS
             Cu-oxidase_2 113 wllHCHilwHldqGmalqfv 132
                              w++HCH+l+H+ ++m++ + 
  PHY93_11050|PHY93_11050 648 WMFHCHNLFHMANDMMMYLK 667
                              ****************9875 PP

>> Cu-oxidase  Multicopper oxidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.1   0.0   5.4e-13   3.3e-09      62     136 ..     382     465 ..     324     480 .. 0.78
   2 ?   -1.7   0.0      0.46   2.8e+03      52     135 ..     563     652 ..     546     664 .. 0.61

  Alignments for each domain:
  == domain 1  score: 37.1 bits;  conditional E-value: 5.4e-13
                              GEEEEETTEEEEEEEESSS-BEEEEETSB-.........EEEEEETCETTSEEEESCEEE-TTEEEEEEEEE-SSSEEEEEEEE CS
               Cu-oxidase  62 ltvepgktyrlriinvsaddslnfsIeGHk.........ltVvevDgvyvepvevdsldIavGqrysvlvtanqapgnYwivas 136
                              ++++pg+++rlri+n sa +++ +  ++ +         + Vv+ Dg+++ep+ +d+l  ++G++y+v+v+  ++   Y ++a+
  PHY93_11050|PHY93_11050 382 NDIKPGDRVRLRIVNSSASSYFYIDYGNNQslnpnektdMLVVAKDGQPIEPTYTDQLYMGMGETYDVIVEVPESGTLYELRAK 465
                              5799********************9988644555556669********************************887888888884 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 0.46
                              ..CTTTTSGGGEEEEETTEEEEEE..EESSS-BEEEEETSB-EEEEEE...TCETTSEEEESCEEE-TTEEEEEEEEE-SS.SEEE CS
               Cu-oxidase  52 adkdgaslatltvepgktyrlrii..nvsaddslnfsIeGHkltVvev...DgvyvepvevdsldIavGqrysvlvtanqa.pgnY 131
                               + d+  ++ lt++   ++r+ i   ++  + +++  ++G  + ++     D    ++    +  I++Gq ++  + a+ a +g++
  PHY93_11050|PHY93_11050 563 LKNDSGGMPYLTITEDSRVRITIRnnMTMGMMNHPWHLHGNFFRIIDNgdtDDIIAKKPLFHTATIFPGQEVELEIYADPAfRGAW 648
                              44455556666666666666666642445567777777777777776555533333333566667777777777776665456666 PP

                              EEEE CS
               Cu-oxidase 132 wiva 135
                              ++++
  PHY93_11050|PHY93_11050 649 MFHC 652
                              6666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (917 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       485  (0.0270511); expected 358.6 (0.02)
Passed bias filter:                      368  (0.0205254); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.69u 0.22s 00:00:00.90 Elapsed: 00:00:00.39
# Mc/sec: 6964.84
//
Query:       PHY93_11055|PHY93_11055  [L=318]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.13   12.3   0.1       0.58   10.2   0.1    2.1  2  DUF4320   Domain of unknown function (DUF4320)


Domain annotation for each model (and alignments):
>> DUF4320  Domain of unknown function (DUF4320)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.1   3.2e-05      0.58       8      60 ..       5      57 ..       2      79 .. 0.83
   2 ?   -2.2   0.0      0.23   4.1e+03      57      95 ..     223     262 ..     215     277 .. 0.71

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 3.2e-05
                  DUF4320  8 lalavsvfsifttkqkldtvaselvreaelsGgvgseteeraaelkeqtglep 60
                             l++ v ++s ++   ++d+++++ ++ + +sG+v+ e++++ ++  e+++ e 
  PHY93_11055|PHY93_11055  5 LIFSVLIYSQLSFSAEADNFTARSLNLIDVSGQVNTEANNFLKTAVEKVNQEG 57
                             678888999999999**********************9999999888887654 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 0.23
                  DUF4320  57 glepdisw.skeqtdektgkiqlndevtvtitteakiglf 95 
                              +l p +s  +++  +e+++ i+ ++ ++ ++ ++ + + f
  PHY93_11055|PHY93_11055 223 NLGPYVSCvDAKWKVEEKNPIDFKNYIDSSMDESINCSKF 262
                              5666677766666777778888888777777776666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (318 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       659  (0.0367561); expected 358.6 (0.02)
Passed bias filter:                      482  (0.0268838); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.43
# Mc/sec: 2199.65
//
Query:       PHY93_11060|PHY93_11060  [L=120]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (120 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       404  (0.0225333); expected 358.6 (0.02)
Passed bias filter:                      297  (0.0165653); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.34u 0.20s 00:00:00.54 Elapsed: 00:00:00.33
# Mc/sec: 1088.59
//
Query:       PHY93_11065|PHY93_11065  [L=309]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (309 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       470  (0.0262145); expected 358.6 (0.02)
Passed bias filter:                      400  (0.0223102); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.19s 00:00:00.63 Elapsed: 00:00:00.34
# Mc/sec: 2698.03
//
Query:       PHY93_11070|PHY93_11070  [L=366]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    4.3e-32  111.6   0.0    5.9e-32  111.2   0.0    1.1  1  AA_kinase  Amino acid kinase family
    8.5e-20   70.5   0.1    2.3e-19   69.1   0.1    1.8  1  PUA        PUA domain


Domain annotation for each model (and alignments):
>> AA_kinase  Amino acid kinase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  111.2   0.0   6.6e-36   5.9e-32       2     237 ..       4     228 ..       3     231 .. 0.91

  Alignments for each domain:
  == domain 1  score: 111.2 bits;  conditional E-value: 6.6e-36
                              EEEEEE-TTCCCCTCC....HHHHHHHHHHHHHHHHTTEEEEEE--.HHHHHHHHHH..TCCCCCHHHC....E..HHHHHHHHHH CS
                AA_kinase   2 rvVvKlGGssltdkee....aslrrlaeqiaalkesgnklvvVhGg.gsftdgllal..ksglssgelaaglrstleeagevatrd 80 
                              r+VvK+G+ ++td+++    ++++++++++ +l+++g  ++++++g  + ++gl+++  ++++                  +  ++
  PHY93_11070|PHY93_11070   4 RIVVKVGSLAVTDENGgvspSKIKSIITDLYELRTQGFLPILISSGaINSARGLIKKpdEKKM-----------------TISYQQ 72 
                              89**********88888********************98899988835888888888333333.................344459 PP

                              HHHHHHHHHHHHHHHTTHGEEEE-GGGTCEECCCE..HHHTTTCEEECCHHHHHHHTT-EEEEESEEEEETTTEEEEE-HHHHHHH CS
                AA_kinase  81 alaslgerlvaallaaglpavglsaaaldateagrdegsdgnvesvdaeaieelleagvvpvltgfigldeegelgrgssDtiaal 166
                              ala++g+ l+++ +  +l +++ ++a++++t +++   + +++  + +++i++lle+gv+p+++++++++ e+  ++g++D++a++
  PHY93_11070|PHY93_11070  73 ALAAVGQPLLMKAYIDALCEFNWPCAQILVTHEDF---KERKRFLNIRNTINRLLEDGVLPIVNENDTVSFEEI-TVGDNDQLAVM 154
                              ***********************************...*****************************9999976.8********** PP

                              HHHHCTSSEEEEEESSSSCESSTTTTCCTTCECCEEEHHHCHH.....CSSS.TTTHHHHCHHHHHHHHHCTT-EE CS
                AA_kinase 167 lAealgAdkliiltdVdGVydadpkkvpdarllpeisvdeaee.....saselatgGmkvkhpaalaaarrggipv 237
                                ea +A+kli+l++ dG++d++pk +  a +++ei++++  +      +   ++gGm +k++a  ++   g ++v
  PHY93_11070|PHY93_11070 155 MTEASDAEKLILLSEADGLFDKNPKGP-GAIRFEEIDFRDDFKsvkiaAKTSVGRGGMDTKLKAIRKLTPLG-VDV 228
                              ************************997.**********998888***99999************99988777.666 PP

>> PUA  PUA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.1   0.1   2.6e-23   2.3e-19       2      74 .]     275     347 ..     274     347 .. 0.97

  Alignments for each domain:
  == domain 1  score: 69.1 bits;  conditional E-value: 2.6e-23
                              EEEE-HHHHHHHHT.T-EEEGGGEEEEETT--TTSEEEEEETTSCEEEEEEESS-HHHHHHHCTSEEEEEEEEE CS
                      PUA   2 rvvvddgAvkalls.gasLlapGvvevegdfeegdvVaivdedgelvavGlanysseelakikggksveiervl 74 
                              +vvvd+gA kall    sLl+ G+ +v+g+f++g+v++i  +  +++avGl++y+s el  ikg+ks+ei ++l
  PHY93_11070|PHY93_11070 275 YVVVDEGASKALLDsHTSLLPVGIKKVQGKFKRGEVIQIRHK-SKILAVGLTEYDSLELNLIKGKKSAEINDIL 347
                              59************999************************9.***************************9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (366 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       388  (0.0216409); expected 358.6 (0.02)
Passed bias filter:                      340  (0.0189637); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.19s 00:00:00.71 Elapsed: 00:00:00.39
# Mc/sec: 2805.78
//
Query:       PHY93_11075|PHY93_11075  [L=394]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.1e-13   49.6   1.8    2.1e-10   39.7   0.7    2.0  2  Aldedh           Aldehyde dehydrogenase family
  ------ inclusion threshold ------
       0.14   12.5   0.0       0.41   11.0   0.0    1.7  1  Phage_int_SAM_1  Phage integrase, N-terminal SAM-like domain


Domain annotation for each model (and alignments):
>> Aldedh  Aldehyde dehydrogenase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.7   0.7   2.4e-14   2.1e-10      55     281 ..      35     262 ..      24     287 .. 0.84
   2 !    9.0   0.0     5e-05      0.45     376     431 ..     298     353 ..     297     386 .. 0.88

  Alignments for each domain:
  == domain 1  score: 39.7 bits;  conditional E-value: 2.4e-14
                              HHHHHHHHHHHHTHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHSEEE...EEEC...TTEEEEEEEEE-SEEEEEE CS
                   Aldedh  55 eiLrkaadlleerkeelaeletletGkplaearaeveeaidvlryyaelaeklegev...lpss...egklalvrrePlGvvgaIt 134
                              ++L+ + ++l e+k++l ++   +   p+ +  +  e++i  l+ +++++ + ++ v   ++ss   +g l   +r PlGv+g+I 
  PHY93_11075|PHY93_11075  35 ALLASVDEILSENKKDLEAAKKNNLSGPMLDRLTLTEKSIFDLSVMCTEVANQKQVVgiiVESStraDGLLVQKQRIPLGVIGMI- 119
                              789999****************************7777776666666665554443322355534545555555666********. PP

                              -SSSCCHHHHHHHHHHHHTT-EEEEEE-TTSHHHHHHHHHHHHHT...TS-TTSEEE--SSTCCHHHHHHH-TTESEEEEES-HHH CS
                   Aldedh 135 PWNfPlllaawklapalaaGNtvvlKPaeetplsalllaelfeea...glPkgvlnvvtgsgsevgealvehpevdkvsftGstev 217
                               ++   ++++  +a a+  GN+++lK  +e+  s  +l++++++a    lP+g ++++ +  ++v+e l  ++ +d++   G+++ 
  PHY93_11075|PHY93_11075 120 -FESRPNVVVDGAALAIKSGNAIILKGGKEAQYSNRKLFQIIHNAtasVLPEGSISLIET-REDVAEILKLNKYIDLMVPRGGSAL 203
                              .9******************************************98888*********88.999********************** PP

                              HHHHHHHHHCTTSEEEEEE---EEEEE-TTSHHHHHHHHHHHHHHGGGGTSTTSEEEEEEEHHH CS
                   Aldedh 218 grkiakaaaknlkrvtlElGGknplivledaDldkaveaivkgafgnaGQvCiaasrllvqesi 281
                               + + ++a+    +v++   G  +l v++d+ +d+++  i+++ +   G vC a + l+++e+ 
  PHY93_11075|PHY93_11075 204 INYVKANAT---MPVVAHDKGLCHLYVHSDCHVDATA-IILNAKTQRPG-VCNALETLILNEKY 262
                              ******999...89*****************988654.55565666655.88888888888774 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 5e-05
                              EEEEESSHHHHHHHHHSSSEESEEEEE-SBHHHHHHHHHHS-SSEEEESSSST--T CS
                   Aldedh 376 svikfkdeeeaieiaNdteyGLaagvftkdleraervaerleaGnvyiNdsttgaa 431
                              s+  +k+  eaie   +     + ++ ++d++ +e + ++l+a  + iN st+++ 
  PHY93_11075|PHY93_11075 298 SIKMVKNYSEAIEHIKKYSSHHTEAILAQDPSVIEAFLNSLDASCIAINASTRFND 353
                              78889*********************************************988775 PP

>> Phage_int_SAM_1  Phage integrase, N-terminal SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   4.5e-05      0.41       9      60 ..     292     342 ..     287     351 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 4.5e-05
                              HHTT-S-HHHHHHHHHHHHHHHHHHHH.TS--TTT--HHHHHHHHHS----- CS
          Phage_int_SAM_1   9 ikerglspnTlraYrrdLrrflkflaergkesleqlttedvraflaeleeeg 60 
                              ++e+ +s + + +Y  +++++ k+ ++ + e++++ +++ + afl+ l ++ 
  PHY93_11075|PHY93_11075 292 WLEKKISIKMVKNYSEAIEHIKKYSSH-HTEAILAQDPSVIEAFLNSLDASC 342
                              689999*********************.******************998865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (394 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       737  (0.0411066); expected 358.6 (0.02)
Passed bias filter:                      572  (0.0319036); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.23s 00:00:00.80 Elapsed: 00:00:00.41
# Mc/sec: 2907.65
//
Query:       PHY93_11080|PHY93_11080  [L=929]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.7e-19   69.2   0.0      6e-19   68.1   0.0    1.6  1  Peptidase_S74  Chaperone of endosialidase
  ------ inclusion threshold ------
      0.061   13.4   0.5        0.1   12.7   0.5    1.3  1  UPF0242        Uncharacterised protein family (UPF0242) N-ter
       0.48   10.6   1.8       0.99    9.6   1.8    1.5  1  Cnn_1N         Centrosomin N-terminal motif 1


Domain annotation for each model (and alignments):
>> Peptidase_S74  Chaperone of endosialidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.1   0.0     1e-22     6e-19       1      58 []     795     846 ..     795     846 .. 0.95

  Alignments for each domain:
  == domain 1  score: 68.1 bits;  conditional E-value: 1e-22
                              -TTTTBSS-EC-HHHHHHHCT---EEE-BCCHHHHHGGGGS-BEEE--HHHHHHHHHH CS
            Peptidase_S74   1 SDrRlKtnIrpledalakvlklrpvtYrykdesirkskdsgrrevGfIAQeveavlpe 58 
                              SDrRlK++I+ple++l+k+l+lr+v Y+++      ++  +++++GfIAQeve ++pe
  PHY93_11080|PHY93_11080 795 SDRRLKHDIEPLENSLDKILQLRGVEYKFN------NDPQNKTQIGFIAQEVEPIFPE 846
                              9****************************7......467799***************8 PP

>> UPF0242  Uncharacterised protein family (UPF0242) N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.5   1.8e-05       0.1      87     141 ..     867     921 ..     820     927 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 1.8e-05
                  UPF0242  87 keealeelqeeeeeLkeeldakeeelerlkeenqqLqekleaiaedfeelklele 141
                                ea++e ++++ eL +  +  ++e++  k en qL+ ++ ++ ++++  k  l+
  PHY93_11080|PHY93_11080 867 LVEAIKEINKRTTELFRTTEGHSREIASVKAENVQLKARADKAEKENATIKARLD 921
                              5689******************************************999987665 PP

>> Cnn_1N  Centrosomin N-terminal motif 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   1.8   0.00017      0.99      31      72 ..     885     926 ..     871     927 .. 0.86

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.00017
                   Cnn_1N  31 eklseeqkeellkenielkveveslqkelkekkkllreaeka 72 
                              ++++++++ ++ +en++lk +  + +ke+ + k +l+++e+a
  PHY93_11080|PHY93_11080 885 TEGHSREIASVKAENVQLKARADKAEKENATIKARLDKMESA 926
                              45566999******************************9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (929 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       806  (0.0449551); expected 358.6 (0.02)
Passed bias filter:                      496  (0.0276647); expected 358.6 (0.02)
Passed Vit filter:                        83  (0.00462937); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.78u 0.22s 00:00:01.00 Elapsed: 00:00:00.40
# Mc/sec: 6942.00
//
Query:       PHY93_11085|PHY93_11085  [L=116]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (116 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       206  (0.0114898); expected 358.6 (0.02)
Passed bias filter:                      101  (0.00563333); expected 358.6 (0.02)
Passed Vit filter:                         4  (0.000223102); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.35u 0.18s 00:00:00.53 Elapsed: 00:00:00.34
# Mc/sec: 1017.68
//
Query:       PHY93_19415|PHY93_19415  [L=228]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.095   12.6   0.0       0.24   11.4   0.0    1.6  2  DUF5402   Family of unknown function (DUF5402)


Domain annotation for each model (and alignments):
>> DUF5402  Family of unknown function (DUF5402)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   1.3e-05      0.24      85     109 ..     154     178 ..     147     182 .. 0.89
   2 ?   -2.7   0.0       0.3   5.4e+03      77     100 ..     183     206 ..     179     219 .. 0.68

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 1.3e-05
                  DUF5402  85 Gtaevidlavrklcnrcrkefsgkk 109
                              G ++++ l+  k+c+ c ++f+g+ 
  PHY93_19415|PHY93_19415 154 GFTTIVMLNIAKFCSNCSQDFRGEA 178
                              77899*****************985 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 0.3
                  DUF5402  77 vvyarvvPGtaevidlavrklcnr 100
                              + y   +P  +   +l+ r+ c +
  PHY93_19415|PHY93_19415 183 WHYHHYLPDYEWFFELTMREDCPQ 206
                              567777888888888888887754 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (228 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       432  (0.024095); expected 358.6 (0.02)
Passed bias filter:                      379  (0.0211389); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.23s 00:00:00.72 Elapsed: 00:00:00.43
# Mc/sec: 1606.40
//
Query:       PHY93_16375|PHY93_16375  [L=330]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.4e-42  144.4   0.0    3.2e-42  144.0   0.0    1.2  1  GGDEF          Diguanylate cyclase, GGDEF domain
  ------ inclusion threshold ------
      0.013   15.4   0.8       0.59   10.0   0.1    2.4  2  NTNH_C         Nontoxic nonhaemagglutinin C-terminal
      0.061   13.6   0.0       0.13   12.6   0.0    1.6  1  GGDEF_2        GGDEF-like domain
       0.12   12.0   0.0       0.25   10.9   0.0    1.5  2  Guanylate_cyc  Adenylate and Guanylate cyclase catalytic doma


Domain annotation for each model (and alignments):
>> GGDEF  Diguanylate cyclase, GGDEF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  144.0   0.0   7.1e-46   3.2e-42       2     159 ..     153     311 ..     152     313 .. 0.94

  Alignments for each domain:
  == domain 1  score: 144.0 bits;  conditional E-value: 7.1e-46
                              SB-CCCGSEEHHHHHHHHHHHHHCCHHCTSEEEEEEEEETTHHHHHHHH-HHHHHHHHHHHHHHHHCCS-TTSEEEEESSSEEEEE CS
                    GGDEF   2 ahDslTgLpNRrlleeeleqelqrarreqkslavllldldnFkkindtyGhsvGDevLqevakrLssslrksdlvaRlggdeFail 87 
                              ++D +TgL+N+r l + l +++++ ++e+ ++ vl++d+d+Fk++nd+yGh vG ++L +va+  +s lr++d+ +R+ggdeF+++
  PHY93_16375|PHY93_16375 153 HIDDVTGLYNQRKLYKDLGSLVEKFQDEKDPFCVLFIDIDHFKRVNDNYGHLVGTKLLENVARDVKSLLRDTDISYRYGGDEFVVI 238
                              79***********************999********************************************************** PP

                              EECSSHHHHHHHHHHHHHHHHCS-EEETTCC..EEE---EEEEEEEE..-TTS-HHHHHHHHHHHHHHHHHCTS CS
                    GGDEF  88 lpetsseeaaelaerirrllaklkepvelsg..eelyvtisiGialappeegedleellkeAdealyeaKkagr 159
                              l + + ++ + + eri ++++ ++ +v++++  + +++++siG+a + p++ +++ee+l  Ad+++yeaK++gr
  PHY93_16375|PHY93_16375 239 LVDSDGQSGKIVGERILAKIRSQDYSVDIRDdsKRIKLSVSIGVAEF-PTDAKNAEEVLAIADRMMYEAKESGR 311
                              *******************9998888766551166788999******.6***********************98 PP

>> NTNH_C  Nontoxic nonhaemagglutinin C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.1   0.00013      0.59      97     158 ..      59     123 ..      48     130 .. 0.84
   2 ?    3.6   0.1     0.012        55      58     105 ..     230     277 ..     191     295 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.00013
                   NTNH_C  97 sednrlqlvdskdtakkiiisndifksncltlaynn...kylslslkdenynwmiynnnddiska 158
                               + +rlql ++k     ii  n++ +  clt+  +n    yl l lk +++ + ++    +i+  
  PHY93_16375|PHY93_16375  59 GKSDRLQLYSAKLVDELIIKHNELKILPCLTVKVENcfyYYLNLGLKRNQFYFSVFSSTTEIPTE 123
                              5679****************************9988333589999**999999999998888865 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.012
                   NTNH_C  58 lqaakfkllsidtnkqyvqkldevvvsllddeekyvdissednrlqlv 105
                                +  f ++ +d++ q  + + e +++ +  ++  vdi  + +r++l 
  PHY93_16375|PHY93_16375 230 YGGDEFVVILVDSDGQSGKIVGERILAKIRSQDYSVDIRDDSKRIKLS 277
                              456788899999999999999999999999999999999999999885 PP

>> GGDEF_2  GGDEF-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   2.8e-05      0.13      18      92 ..     179     281 ..     178     309 .. 0.73

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 2.8e-05
                  GGDEF_2  18 dldgpyvvvvielee...daer..........llraleealral..gpdalvavrgdrlvlllpaedeedae....allerlarrl 84 
                              d + p++v+ i++++      +          ll+++++ +++l  + d+ +   gd++v++l  +d ++ +    ++l++++++ 
  PHY93_16375|PHY93_16375 179 DEKDPFCVLFIDIDHfkrV--NdnyghlvgtkLLENVARDVKSLlrDTDISYRYGGDEFVVILVDSDGQSGKivgeRILAKIRSQD 262
                              56789********775441..12356777777777777777777667789999999***********9998877778888877665 PP

                  GGDEF_2  85 gg...........lsvriG 92 
                               +           lsv+iG
  PHY93_16375|PHY93_16375 263 YSvdirddskrikLSVSIG 281
                              5455555555544444444 PP

>> Guanylate_cyc  Adenylate and Guanylate cyclase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.8   0.0       1.8   8.3e+03      38      48 ..     138     148 ..     116     155 .. 0.59
   2 ?   10.9   0.0   5.7e-05      0.25       5      68 ..     180     242 ..     177     292 .. 0.69

  Alignments for each domain:
  == domain 1  score: -3.8 bits;  conditional E-value: 1.8
            Guanylate_cyc  38 lyarfdellde 48 
                              ++++fdel ++
  PHY93_16375|PHY93_16375 138 IIEKFDELYKS 148
                              44445554444 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 5.7e-05
            Guanylate_cyc   5 sydevtilFadIvgftalssahspievvklLnelyarfdelldekkvykvktiGdaymvvsglp 68 
                              ++d+ ++lF+dI  f+++  +       klL+++  ++++ll+ +++   ++ Gd ++v+   +
  PHY93_16375|PHY93_16375 180 EKDPFCVLFIDIDHFKRVNDNYGHLVGTKLLENVARDVKSLLRDTDIS-YRYGGDEFVVILVDS 242
                              67899***************99555558899999********999975.478899988875444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (330 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       582  (0.0324614); expected 358.6 (0.02)
Passed bias filter:                      422  (0.0235373); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 2490.99
//
Query:       PHY93_16835|PHY93_16835  [L=367]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.1e-65  220.0   0.1    4.7e-65  219.9   0.1    1.0  1  PilM_2    Type IV pilus assembly protein PilM;
    1.8e-11   44.3   0.2      1e-10   41.9   0.0    2.1  2  FtsA      Cell division protein FtsA
      4e-06   25.9   0.8      0.029   13.2   0.0    2.2  2  MreB_Mbl  MreB/Mbl protein
  ------ inclusion threshold ------
       0.59   10.6   5.5          4    8.0   0.0    3.6  5  DUF104    Protein of unknown function DUF104


Domain annotation for each model (and alignments):
>> PilM_2  Type IV pilus assembly protein PilM;
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  219.9   0.1     1e-68   4.7e-65       1     339 [.      27     366 ..      27     367 .] 0.92

  Alignments for each domain:
  == domain 1  score: 219.9 bits;  conditional E-value: 1e-68
                   PilM_2   1 GiDissssvklvelsk.kkgslrvealaieplekdavvdreikdieavsealkrvvkklktrvkevaiavpgsavitkkialdadL 85 
                              G+Di+ s+vk +e+ k ++gs+++ ++  + l+++++++ ei++ +++ +al+   k l+++ + v i ++g++++ k+ +l  + 
  PHY93_16835|PHY93_16835  27 GVDIGLSAVKFAEVAKqSDGSYKLLNYSAVNLPEGTIIEDEIQKEDEILKALQAGFKGLNSSNRFVCIGLSGPNTLIKRLQLAGG- 111
                              9*************99788***************************************************************887. PP

                   PilM_2  86 teeeleaqveleadqliPfpldevslDFevlgpsaekpdkvevllaAarkekvedrvalleaaglkakvvDvesyAleralelias 171
                              +eee++ qv  ea+q++Pfp+de ++ F v+g++  +++ v+v++ Aa+k  ve+  +++e +g+k+k+vD  + A+ + +e ++ 
  PHY93_16835|PHY93_16835 112 SEEEIQDQVFWEAEQYLPFPIDEGNISFSVIGEN--QGGGVDVIIGAAKKTIVESFKEIVERSGVKVKIVDLSAAATINVFENVMG 195
                              999****************************976..67889**************************************9998776 PP

                   PilM_2 172 qlpdkgkekvvaivdigasrttlsvlrdgkivYtreqafGgeqltqeivrrYglsleeaekkkrsgs....lPedyeeevlepfle 253
                              ++  ++k k+  ++d+ga++t++ ++++g  v+ +e + Gg  +t+ei+r+ g+++ eae+ k++g+    +Pe+  e + +   +
  PHY93_16835|PHY93_16835 196 EEV-QTKGKTWILMDLGAQKTHFMIYKNGVLVFFKEISIGGLTITEEIQRQMGVNYVEAESLKIHGDgsgnIPEEIVEII-NQVFD 279
                              655.67888999***************************************************98651111666654444.44456 PP

                   PilM_2 254 alaqeisralqffltssqqnkvdkilLaGGtaslpgleelleeelgisttvanpfaemelse.kvrakklardapsylvAcGLAlr 338
                              +   e++++++f+++s++++ +d  +L+GG a++pg++e+l+e l+++++v+npf+ +++++ +++++ +++ a + + A+GLA+r
  PHY93_16835|PHY93_16835 280 TFFAELKKTIDFWVSSTSEEAFDGCILTGGGAQVPGFTEALQELLETEVQVLNPFSALSYNKnNITEEMINEIAFKGVCAIGLAMR 365
                              78899******************************************************986157777888888999********* PP

                   PilM_2 339 s 339
                              s
  PHY93_16835|PHY93_16835 366 S 366
                              8 PP

>> FtsA  Cell division protein FtsA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.0      0.23     1e+03       3      19 ..      28      44 ..      26     193 .. 0.55
   2 !   41.9   0.0   2.3e-14     1e-10       2      88 ..     207     326 ..     206     352 .. 0.81

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.23
                             EEE-SSSEEEEEEETTE CS
                             xxxxxxxxxxxxxxxxx RF
                     FtsA  3 vDiGagktdvavaedga 19
                             vDiG + +++a + +++
  PHY93_16835|PHY93_16835 28 VDIGLSAVKFAEVAKQS 44
                             55555555554333333 PP

  == domain 2  score: 41.9 bits;  conditional E-value: 2.3e-14
                              EEEE-SSSEEEEEEETTEEEEEEEES--HHHHHHHHHHHHT--HHHHHHHHHH.H--S--EEEEEHHHHH................ CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxx................ RF
                     FtsA   2 lvDiGagktdvavaedgalvhlrvigvggngitkdiakalrtaveeAerikik.yGsalaekeigrkels................ 70 
                              l D+Ga+kt ++++++g lv+++ i +gg  it++i++ +++   eAe++ki+ +Gs + ++ei     +                
  PHY93_16835|PHY93_16835 207 LMDLGAQKTHFMIYKNGVLVFFKEISIGGLTITEEIQRQMGVNYVEAESLKIHgDGSGNIPEEIV----Eiinqvfdtffaelkkt 288
                              79*************************************************43244433333333....24457888888888899 PP

                              ....................GGGGSTTHHHHHHHHHT- CS
                              ....................xxxxxxxxxxxxxxxxxx RF
                     FtsA  71 ....................ggsalpnleelaeralsp 88 
                                                  gg+++p+++e++++ l++
  PHY93_16835|PHY93_16835 289 idfwvsstseeafdgciltgGGAQVPGFTEALQELLET 326
                              999999999**************************854 PP

>> MreB_Mbl  MreB/Mbl protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.8   0.5   3.6e-05      0.16     113     192 ..     166     250 ..     151     259 .. 0.76
   2 !   13.2   0.0   6.5e-06     0.029     240     304 ..     268     331 ..     262     349 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 3.6e-05
                              HHHHHHTT-SEEEEEEHHHHHHHHTT--TT......SSS-EEEEEE-SS-EEEEEEETTEEEEEEEES-SHHHHHHHHHHHHHHHH CS
                 MreB_Mbl 113 keaakkaGarevllieeplaAAiGaglpve......epsgnmvvdiGggttevavislggivtsksvrvaGdeldeaiikyirkky 192
                              ke++++ G  +v++++ + aA i    +v+      + +  +++d+G+ +t   +   g +v  k + ++G ++ e+i + +  +y
  PHY93_16835|PHY93_16835 166 KEIVERSG-VKVKIVDLSAAATINVFENVMgeevqtKGKTWILMDLGAQKTHFMIYKNGVLVFFKEISIGGLTITEEIQRQMGVNY 250
                              45555555.46899999999999876665422221133455899**********************************88776555 PP

  == domain 2  score: 13.2 bits;  conditional E-value: 6.5e-06
                              HHHHHHHHHHHHHHHHHHHHHHHTS-HHHHHHHHHH-EEEESGGGGSBTHHHHHHHHHSS-EEE- CS
                 MreB_Mbl 240 eevrealkepvsaiveavkevLektppeLaadivdrgivltGGgallkgldkllseetglpvkva 304
                              ee+ e +++++ +   ++k++++      + + +d g +ltGGga++ g+ + l+e ++ +v+v 
  PHY93_16835|PHY93_16835 268 EEIVEIINQVFDTFFAELKKTIDFWVSSTSEEAFD-GCILTGGGAQVPGFTEALQELLETEVQVL 331
                              45666666666666666666666666666666554.899*****************999988874 PP

>> DUF104  Protein of unknown function DUF104
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   0.0   0.00089         4      18      47 ..      54      83 ..      44      90 .. 0.81
   2 ?    2.1   0.8     0.061   2.7e+02      28      49 ..     150     172 ..     145     182 .. 0.81
   3 ?   -0.0   0.2      0.27   1.2e+03      22      45 ..     168     193 ..     166     200 .. 0.66
   4 ?   -1.1   0.0      0.59   2.7e+03       8      15 ..     219     226 ..     218     246 .. 0.81
   5 ?   -3.4   0.1       3.2   1.4e+04      30      47 ..     271     286 ..     268     290 .. 0.58

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.00089
                   DUF104 18 ekvdLkEGeevkikIeeakeilkklkgilk 47
                               v+L+EG+ ++ +I++  eilk l++ +k
  PHY93_16835|PHY93_16835 54 SAVNLPEGTIIEDEIQKEDEILKALQAGFK 83
                             679*******************99988777 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.061
                   DUF104  28 vkikIee.akeilkklkgilkea 49 
                              v ++I+   k+i++++k+i+ ++
  PHY93_16835|PHY93_16835 150 VDVIIGAaKKTIVESFKEIVERS 172
                              89999999999999999998854 PP

  == domain 3  score: -0.0 bits;  conditional E-value: 0.27
                   DUF104  22 LkEGeevkikIee..akeilkklkgi 45 
                              + E++ vk+kI +  a   +  ++ +
  PHY93_16835|PHY93_16835 168 IVERSGVKVKIVDlsAAATINVFENV 193
                              568999*****996644444444444 PP

  == domain 4  score: -1.1 bits;  conditional E-value: 0.59
                   DUF104   8 vYEnGvLK 15 
                              +Y nGvL 
  PHY93_16835|PHY93_16835 219 IYKNGVLV 226
                              89999995 PP

  == domain 5  score: -3.4 bits;  conditional E-value: 3.2
                   DUF104  30 ikIeeakeilkklkgilk 47 
                              ++I  + ++ + +++ lk
  PHY93_16835|PHY93_16835 271 VEI--INQVFDTFFAELK 286
                              333..3367777777666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (367 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       599  (0.0334096); expected 358.6 (0.02)
Passed bias filter:                      479  (0.0267165); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.53u 0.21s 00:00:00.74 Elapsed: 00:00:00.38
# Mc/sec: 2925.41
//
Query:       PHY93_19420|PHY93_19420  [L=336]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      3e-15   56.5   0.1    9.4e-15   54.9   0.0    1.8  2  HD        HD domain
    2.5e-12   46.9   0.0      6e-12   45.6   0.0    1.6  1  HD_5      HD domain
    0.00088   19.1   0.9     0.0022   17.8   0.1    2.0  2  HD_2      HD containing hydrolase-like enzyme
  ------ inclusion threshold ------
       0.01   15.3   0.1       0.04   13.4   0.1    2.1  1  HDOD      HDOD domain


Domain annotation for each model (and alignments):
>> HD  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.1      0.61   2.8e+03      88      88 ..      83      83 ..      34     143 .. 0.60
   2 !   54.9   0.0   2.1e-18   9.4e-15       2     121 ..     163     283 ..     162     284 .. 0.94

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.61
                             T CS
                       HD 88 h 88
                              
  PHY93_19420|PHY93_19420 83 E 83
                             2 PP

  == domain 2  score: 54.9 bits;  conditional E-value: 2.1e-18
                              HHHHHHHHHHHHHHHHHHHH..HHHHHHHHHHHHHTTTTHHHHTS..HHHHHH...CTCCHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                       HD   2 leHsleVaklarrlaedlge..eedrellllaaLlHDiGkgpfgdafekkeee...fekflaHekvgaeilrevekrlgldledva 82 
                              +eHs++Va+la  +++ +g       e l+++aL+HD Gk +++++++ +++     + +++H + g+e+l+ + + +    + v+
  PHY93_19420|PHY93_19420 163 AEHSMNVANLALLFGMAVGQnnSIVLENLYMGALFHDYGKAKIPESISANPKSvayDRAIKGHPEAGVEMLKSISNIP----KQVL 244
                              69*****************999999999*****************999996666778999**************9999....56** PP

                              HHHHTTCCHHHHHHHHHHHHCCTSCHHHHHHHHHHHHHH CS
                       HD  83 klirehheswegkkrprglaerqlslearivklaDrlaa 121
                               +++ehhe+  g ++p+g  +  ++++++iv++a  +++
  PHY93_19420|PHY93_19420 245 TIVAEHHEQFGGVGYPKGISGDSIYRLSKIVAIANVFDN 283
                              **********************************98887 PP

>> HD_5  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.6   0.0   1.3e-15     6e-12       9      63 ..     220     274 ..     217     275 .. 0.95

  Alignments for each domain:
  == domain 1  score: 45.6 bits;  conditional E-value: 1.3e-15
                     HD_5   9 ellqehpeaaarlLsklprlpkdvaeiigqhhErldGsGyPrglkgeeIpleaRi 63 
                              ++++ hpea+ ++L+ +  +pk+v +i++ hhE + G GyP+g++g++I   ++i
  PHY93_19420|PHY93_19420 220 RAIKGHPEAGVEMLKSISNIPKQVLTIVAEHHEQFGGVGYPKGISGDSIYRLSKI 274
                              6799*********************************************888776 PP

>> HD_2  HD containing hydrolase-like enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.1       0.3   1.3e+03     108     124 ..     110     126 ..      68     158 .. 0.52
   2 !   17.8   0.1   4.9e-07    0.0022      21      66 ..     157     200 ..     137     206 .. 0.88

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.3
                     HD_2 108 lreeyeelladeeaeee 124
                              l+e++ e++ de+ ++e
  PHY93_19420|PHY93_19420 110 LKETIYEVFLDEQLSSE 126
                              33333333333333333 PP

  == domain 2  score: 17.8 bits;  conditional E-value: 4.9e-07
                     HD_2  21 treenvaeHslevaliahalalienkkfggkldaerlallalyHDa 66 
                              ++++++aeHs++va +a ++++   ++  +++ +e+l++ al+HD+
  PHY93_19420|PHY93_19420 157 SMNNTIAEHSMNVANLALLFGMAVGQN--NSIVLENLYMGALFHDY 200
                              56889***************9955555..69**************8 PP

>> HDOD  HDOD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.1     9e-06      0.04      93     152 ..     160     222 ..     133     253 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 9e-06
                              HHHHHHHHHHHHHHHHHHHHTT-S-H...HHHHHHHHTTTHHHHHHHHHSHHHHHHHHHHHHH CS
                     HDOD  93 kklwehslavAlvarelaeelgledp...eeaflaGLLhdiGklvllsllpeeleellekvae 152
                              ++++ehs++vA +a     ++g+++    e++++++L+hd Gk  + + ++ + + +++  a 
  PHY93_19420|PHY93_19420 160 NTIAEHSMNVANLALLFGMAVGQNNSivlENLYMGALFHDYGKAKIPESISANPKSVAYDRAI 222
                              56899*****************9996689**************98877777777766665554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (336 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1367  (0.0762452); expected 358.6 (0.02)
Passed bias filter:                      721  (0.0402142); expected 358.6 (0.02)
Passed Vit filter:                        61  (0.00340231); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.58u 0.23s 00:00:00.81 Elapsed: 00:00:00.41
# Mc/sec: 2444.21
//
Query:       PHY93_19425|PHY93_19425  [L=605]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      2e-38  131.8   0.3    3.3e-38  131.1   0.3    1.3  1  Guanylate_cyc  Adenylate and Guanylate cyclase catalytic doma
      2e-07   31.0   6.0    5.6e-07   29.6   4.9    2.0  2  dCache_1       Cache domain
    4.2e-07   30.2   0.0      9e-07   29.2   0.0    1.6  1  HAMP           HAMP domain
  ------ inclusion threshold ------
      0.078   13.1   0.0        0.2   11.8   0.0    1.7  1  sCache_3_2     Single cache domain 3


Domain annotation for each model (and alignments):
>> Guanylate_cyc  Adenylate and Guanylate cyclase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  131.1   0.3   7.4e-42   3.3e-38       6     176 ..     395     571 ..     393     579 .. 0.91

  Alignments for each domain:
  == domain 1  score: 131.1 bits;  conditional E-value: 7.4e-42
            Guanylate_cyc   6 ydevtilFadIvgftalssahspievvklLnelyarfdelldekkvykvktiGdaymvvsglpeekaahaaklaelaLdmlealee 91 
                              ++e+t++F+dI+gft++s+ h+p+evv++Lne+++ +  +++++++  +k+iGda+m+v g+p++  +++ ++++  L+m  al++
  PHY93_19425|PHY93_19425 395 KKEITVFFSDIRGFTDFSEGHTPEEVVSMLNEYFEVMVYIINKNGGVVDKFIGDAIMAVWGAPNKTDDDVTNAVSACLEMRVALSQ 480
                              579************************************************************99999999999999999999999 PP

            Guanylate_cyc  92 vaves....keglkvrvGihtGpvvagviG.akkprydvwGntvnlAsrmestgka..gkiqvseetyellkeeqfeltergevev 170
                               ++e+     + +k++ G+htG+ ++g iG  ++++++v+G++vn+Asr+e  +k+   +  +s+e+ e l+  +f +++ ge++v
  PHY93_19425|PHY93_19425 481 LNQERidrgLTPIKIGMGLHTGEAISGQIGsSERMEFTVIGDAVNTASRIEGSTKSfgTDLLLSKEVIEKLD-GTFLIEKAGEAKV 565
                              999987666699******************999******************999862256777*********.************* PP

            Guanylate_cyc 171 kGkgkl 176
                              +Gk + 
  PHY93_19425|PHY93_19425 566 QGKTEN 571
                              **8543 PP

>> dCache_1  Cache domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.6   4.9   1.3e-10   5.6e-07      10     248 ..      47     275 ..      42     276 .. 0.67
   2 ?   -0.1   0.0      0.14   6.5e+02      71      87 ..     425     442 ..     361     467 .. 0.71

  Alignments for each domain:
  == domain 1  score: 29.6 bits;  conditional E-value: 1.3e-10
                 dCache_1  10 qllglaeqlanniedvldslenlaetlasnpslqdlleepnraneasreslqallksilksnpdisgvylvd..........adGq 85 
                                l++a +++ ++++ ++s+    +++++                + ++s+++ l+ +++ n+d +   lv+          ++ q
  PHY93_19425|PHY93_19425  47 TNLNIADSTSVEVDNLIQSYVDKITFYGQE---------------NLKNSVNHDLNGVMAFNNDAEFYGLVTimngqtgddvKSMQ 117
                              56899999*********9999999888773...............36788999999999999766655555443355555555555 PP

                 dCache_1  86 viassdpssppnlegtddpadrdwykealaggg........gkpvisdpy.vdqtggkpvitiavpiyd.dsgkfiGvlaadldld 161
                              +i  ++++ p+n          +++ + +++ +        gk+   ++y  ++++g   ++i +p+++ + g ++ ++ + ++ d
  PHY93_19425|PHY93_19425 118 II--NKKNEPKNI------NLDSYILKLIEDLKnknalsfdGKI---QVYnLSSVKGLALLAIGIPLMKnEVGLITSIAWGFVKVD 192
                              55..343333343......3334544444444445567777788...899877779************9555888999******** PP

                 dCache_1 162 nlqdllsniklgetgyvfivdsdGniiahpdkdllgknlrdelkaq...ealekalakiesgvssvklng..eeylva.yapiptg 241
                              +lq+++s+ +   +  +f+vd++G+++ahp+++++      + k++    ++++a++++   ++++  +    e+++  +a+    
  PHY93_19425|PHY93_19425 193 RLQRTFSSKS---DRTIFLVDREGKVLAHPNEQYV-----LQVKDLsphSIIKDAMSNNIRVKQKYFESAqnHEKILGaFAKTS-- 268
                              *******864...468****************9*7.....44444444545555555554444433222212355555577664.. PP

                 dCache_1 242 lgWylvv 248
                              ++ ++v+
  PHY93_19425|PHY93_19425 269 TDLIVVS 275
                              5666665 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.14
                 dCache_1  71 npdi.sgvylvdadGqvi 87 
                              n+++   vy+++++G+v+
  PHY93_19425|PHY93_19425 425 NEYFeVMVYIINKNGGVV 442
                              355534579999999994 PP

>> HAMP  HAMP domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.2   0.0     2e-10     9e-07       2      48 ..     311     359 ..     310     364 .. 0.91

  Alignments for each domain:
  == domain 1  score: 29.2 bits;  conditional E-value: 2e-10
                              HHHTTHHHHHHHHHHHHHHTTTBTSST.CCT.TSSSHHHHHHHHHHHHH CS
                     HAMP   2 larrilrPLrrLaraarriaaGdldtr.lpv.sgrDEiGeLarafNaMl 48 
                              ++ +++ P+++L   +++i++G++d+   +v ++ DE+G La af++M 
  PHY93_19425|PHY93_19425 311 FSQSLTSPIEKLLVLTKEISQGNFDVVaKDVvKSHDEVGFLASAFDDMT 359
                              6789***********************97777****************7 PP

>> sCache_3_2  Single cache domain 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   4.5e-05       0.2      54      76 ..     201     226 ..     158     250 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 4.5e-05
               sCache_3_2  54 d...yvvitDeegrvlahpdpaevgr 76 
                              +   +++  D+eg+vlahp+ + v +
  PHY93_19425|PHY93_19425 201 KsdrTIFLVDREGKVLAHPNEQYVLQ 226
                              36679***************995544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (605 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       844  (0.0470746); expected 358.6 (0.02)
Passed bias filter:                      470  (0.0262145); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.59u 0.23s 00:00:00.82 Elapsed: 00:00:00.39
# Mc/sec: 4705.47
//
Query:       PHY93_19430|PHY93_19430  [L=683]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (683 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       568  (0.0316805); expected 358.6 (0.02)
Passed bias filter:                      319  (0.0177924); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.58u 0.23s 00:00:00.81 Elapsed: 00:00:00.39
# Mc/sec: 5319.96
//
Query:       PHY93_19435|PHY93_19435  [L=325]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.2e-07   30.6   0.1      0.019   14.5   0.0    3.2  3  DUF4992   Domain of unknown function
     0.0016   18.4   1.4        0.9    9.5   0.0    3.2  3  Y_Y_Y     Y_Y_Y domain


Domain annotation for each model (and alignments):
>> DUF4992  Domain of unknown function
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.5   0.0   2.2e-06     0.019      55     128 ..      14      86 ..      11      89 .. 0.76
   2 !    5.8   0.0   0.00099       8.9      46     120 ..     104     173 ..      98     184 .. 0.79
   3 !    6.6   0.0   0.00058       5.2      68     134 ..     233     303 ..     205     316 .. 0.74

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 2.2e-06
                  DUF4992  55 ikveasadgse..lkieWpVvkGAgGYevslynvddpenPvavvedsliDgcsvavakieDtnYklsiktlgNekl 128
                              i++++  d  +  + +eW+ v GA GY ++l +v d ++     +  +   +   ++ ++  +Y++ i++l+N k+
  PHY93_19435|PHY93_19435  14 ISFATVNDQPTrwIDLEWDEVPGAKGYDIELSEVIDQKE---FSRGLFHTDTPHWAKEANPGKYNVKIRALDNRKV 86 
                              5666444433325789****************9999888...55666666666677778889***********985 PP

  == domain 2  score: 5.8 bits;  conditional E-value: 0.00099
                  DUF4992  46 qLesPsadeikveasadgselkieWpVvkGAgGYevslynvddpenPvavvedsliDgcsvavakieDtnYklsi 120
                              qL  P  +ei  + + +  +++ +W  v GA  Y++ + n ++       v d++   ++v+ ++ +  nYk ++
  PHY93_19435|PHY93_19435 104 QLIRPLDNEILTTSEMNDLSITFQWGHVPGAIFYQLIVFNSKNIA-----VLDEVTKDIEVKYKISNIDNYKWYV 173
                              677787788888888999999**************9988765533.....4677777888888888888888766 PP

  == domain 3  score: 6.6 bits;  conditional E-value: 0.00058
                  DUF4992  68 ieWpVvkGAgGYevslynvddpenPvav..vedsliDgcsva..vakieDtnYklsiktlgNeklnNkdae 134
                               +W+ v  A+ Y +++ +vd+ ++  ++  + + +  + ++a   +k  D +Y ++ik++  +  + ++a+
  PHY93_19435|PHY93_19435 233 FRWNEVFRADNYSFEVFKVDELDEGKSLrkILNGTSSKRQIAigKDKLPDGKYVIAIKAISHNYQDSENAR 303
                              68999***************99998877554455555544441157789**********987766666555 PP

>> Y_Y_Y  Y_Y_Y domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.6   0.0   0.00085       7.6      37      51 ..      70      84 ..      67      99 .. 0.82
   2 ?   -2.6   0.1      0.63   5.6e+03       7      19 ..     156     168 ..     153     171 .. 0.75
   3 !    9.5   0.0    0.0001       0.9      35      59 ..     279     303 ..     256     307 .. 0.87

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.00085
                             -SEEEEEEEEEEETT CS
                    Y_Y_Y 37 ppGdYtlkVkakdnd 51
                             +pG+Y +k++a dn 
  PHY93_19435|PHY93_19435 70 NPGKYNVKIRALDNR 84
                             7************96 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 0.63
                              TEEEEEEEETTES CS
                    Y_Y_Y   7 rllYrYrlegidk 19 
                              ++  +Y++  id+
  PHY93_19435|PHY93_19435 156 DIEVKYKISNIDN 168
                              5677888888886 PP

  == domain 3  score: 9.5 bits;  conditional E-value: 0.0001
                              S--SEEEEEEEEEEETTS-B-SS-E CS
                    Y_Y_Y  35 nlppGdYtlkVkakdndgqwnydit 59 
                               lp G+Y++ +ka++ + q +++++
  PHY93_19435|PHY93_19435 279 KLPDGKYVIAIKAISHNYQDSENAR 303
                              59***************99999953 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (325 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       618  (0.0344693); expected 358.6 (0.02)
Passed bias filter:                      410  (0.022868); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 2382.64
//
Query:       PHY93_19440|PHY93_19440  [L=89]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.1e-25   89.7   0.2    2.4e-25   89.5   0.2    1.0  1  Methyltransf_10  RNA methyltransferase


Domain annotation for each model (and alignments):
>> Methyltransf_10  RNA methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   89.5   0.2   1.3e-29   2.4e-25     226     298 ..       1      73 [.       1      74 [. 0.99

  Alignments for each domain:
  == domain 1  score: 89.5 bits;  conditional E-value: 1.3e-29
                              SHHHHHHHHHHHHHHHHHHHHGGGEEEEEEEESSGGGHHHHHHHHHHTT-SEEEEEEEEETTEEEEEEEEES- CS
          Methyltransf_10 226 lyceGGevafikklieeskqlakqvlWfttlvskkenlaplkeelkklGaskvtvvelaqGqklsrfiaWsfl 298
                              l+c+GGevaf +k+iees +++ + +Wf+tl+sk ++l+ ++eelkk G+ + +++++aqGqk sr++aW+f 
  PHY93_19440|PHY93_19440   1 LWCDGGEVAFATKMIEESIEFKSNCFWFSTLISKYTSLPIIYEELKKAGVLDFKTIDMAQGQKKSRIVAWTFK 73 
                              8**********************************************************************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (89 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       529  (0.0295053); expected 358.6 (0.02)
Passed bias filter:                      289  (0.0161191); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.35u 0.19s 00:00:00.54 Elapsed: 00:00:00.33
# Mc/sec: 801.94
//
Query:       PHY93_19445|PHY93_19445  [L=165]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (165 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       922  (0.0514251); expected 358.6 (0.02)
Passed bias filter:                      510  (0.0284455); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.23s 00:00:00.62 Elapsed: 00:00:00.35
# Mc/sec: 1411.43
//
Query:       PHY93_19450|PHY93_19450  [L=118]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (118 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       872  (0.0486363); expected 358.6 (0.02)
Passed bias filter:                      444  (0.0247643); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.36u 0.20s 00:00:00.56 Elapsed: 00:00:00.34
# Mc/sec: 1037.57
//
Query:       PHY93_19455|PHY93_19455  [L=500]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.2e-17   62.8   0.0      5e-17   62.2   0.0    1.3  1  Beta-lactamase  Beta-lactamase
  ------ inclusion threshold ------
       0.12   11.5   0.0       0.22   10.6   0.0    1.4  1  Transferrin     Transferrin


Domain annotation for each model (and alignments):
>> Beta-lactamase  Beta-lactamase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.2   0.0   5.5e-21     5e-17      43     252 ..      83     288 ..      58     364 .. 0.78

  Alignments for each domain:
  == domain 1  score: 62.2 bits;  conditional E-value: 5.5e-21
                              EESTTSBEEEGGGHHHHHHHHHHHHHHTTSSCTTSBGGGTST.....TCTTGGGTTEBHHHHHTTHSSCSSSSTSTTCTSHHHTH. CS
           Beta-lactamase  43 pvtadtlfriaSvtKtftaaavlqlveeGkldLddpVskylP.....efagpgkgkiTlrdLltHtsGlpdlfasdlleeaaada. 122
                              + + + +++++SvtKt+taa++    ++G+++Ld+++ +y P        ++ ++ki++++Ll   +G+ +++as ++  ++    
  PHY93_19455|PHY93_19455  83 KNSINKPHALWSVTKTITAALLGIAERDGRINLDQKLYEYYPiikkdTIYNNNYKKISIKNLLYLDAGFIWNEASQDVSANPVIGm 168
                              555578899*************************************9888999999****************9999999998777* PP

                              ......HHHHHHHHHSBSSSS.TTSCEE-SHHHHHHHHHHHHHHHT.SHHHHHHHHHTTTTTTSTTEESSTTGGGGGGBEEEEEEE CS
           Beta-lactamase 123 ......aellralatlppkya.pGtkwgYsntgygllgellekvtg.rsleqllreeilrpLgmkdtelgppesgdprdaagytgn 200
                                    +++  + a+ +   + p  kw+Ys    ++   +l k+ g +s+e+l  ++++ pLg +   +  ++sg +   ag+   
  PHY93_19455|PHY93_19455 169 lygtghRDMATFAAKIKMIKKgPSYKWNYSTGIPTITMGVLKKIYGnESYEELPWRNLFNPLGITTAIFERDSSGTFIGGAGS--- 251
                              ******9999999999999889********8877788888*****99****************************99999999... PP

                              TCEEECSCETTHHHHCTTTBEEEEHHHHHHHH......HHHHHCCSSSSHHHHHHHHH CS
           Beta-lactamase 201 gpearappanlpaeaegagglistardlarfl......glalegglllsaetlaqlta 252
                                                   ++t+rdla+ +      g  +++ +l  ++++++lt+
  PHY93_19455|PHY93_19455 252 ---------------------FATLRDLAKIGylylngGQWNGEVILTPEWIQKMLTP 288
                              .....................***********66666555555555555555555532 PP

>> Transferrin  Transferrin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   2.5e-05      0.22      53     114 ..     145     207 ..     125     215 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 2.5e-05
                              EEEEHHHHHHHHSTTTXEEEEEEEEECESS.SEESEEEEEEEEETTSSXXGGGCTTSEEEESS CS
              Transferrin  53 vtldgGlvfeaglapyklkPvvaevygtke.epqtsyyavavvkkssefqlnqlqGkkschtG 114
                              + ld+G++++   ++    Pv++ +ygt + +  t+   + ++kk+ ++++n   G  +   G
  PHY93_19455|PHY93_19455 145 LYLDAGFIWNEASQDVSANPVIGMLYGTGHrDMATFAAKIKMIKKGPSYKWNYSTGIPTITMG 207
                              679*******999**************96515667777799**********998887665555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (500 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       455  (0.0253779); expected 358.6 (0.02)
Passed bias filter:                      381  (0.0212505); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.37
# Mc/sec: 4076.15
//
Query:       PHY93_19460|PHY93_19460  [L=191]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (191 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       441  (0.024597); expected 358.6 (0.02)
Passed bias filter:                      357  (0.0199119); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.21s 00:00:00.60 Elapsed: 00:00:00.36
# Mc/sec: 1570.58
//
Query:       PHY93_19465|PHY93_19465  [L=167]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (167 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       556  (0.0310112); expected 358.6 (0.02)
Passed bias filter:                      502  (0.0279993); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.22s 00:00:00.62 Elapsed: 00:00:00.37
# Mc/sec: 1370.59
//
Query:       PHY93_16840|PHY93_16840  [L=202]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      3e-08   33.7   0.0    1.2e-07   31.8   0.0    1.9  1  PilN          Fimbrial assembly protein (PilN)
     0.0087   15.4   0.1      0.011   15.1   0.1    1.2  1  DUF4763       Domain of unknown function (DUF4763)
  ------ inclusion threshold ------
      0.011   16.0   0.1       0.02   15.1   0.1    1.4  1  DUF948        Bacterial protein of unknown function (DUF948)
      0.024   15.1   1.7      0.045   14.2   1.7    1.4  1  Spectrin      Spectrin repeat
      0.056   13.3   1.4        0.1   12.5   1.4    1.4  1  Sec8_exocyst  Sec8 exocyst complex component specific domain
      0.078   13.5   1.0       0.15   12.6   1.0    1.5  1  NPV_P10       Nucleopolyhedrovirus P10 protein
       0.16   12.3   4.0       0.22   11.8   4.0    1.2  1  zf-C4H2       Zinc finger-containing protein
       0.97    9.7   8.7        3.9    7.7   8.7    2.0  2  Seryl_tRNA_N  Seryl-tRNA synthetase N-terminal domain
        2.1    8.1   8.5        1.7    8.4   4.4    2.4  3  DivIC         Septum formation initiator


Domain annotation for each model (and alignments):
>> PilN  Fimbrial assembly protein (PilN)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.8   0.0   5.9e-11   1.2e-07       2      54 ..     114     167 ..     113     195 .. 0.83

  Alignments for each domain:
  == domain 1  score: 31.8 bits;  conditional E-value: 5.9e-11
                     PilN   2 lldeLsravPkgvwltsisqegn.qltitGsAvsndeVaefmrnLegspffkni 54 
                              +l++++r +P+++w+ +++ ++n  + i G + s +++ ef+  ++ spff n 
  PHY93_16840|PHY93_16840 114 VLEKIARSIPEDLWFDQLKINENkDVVIIGGSYSPRSIGEFITVINDSPFFANS 167
                              89*****************777769**************************964 PP

>> DUF4763  Domain of unknown function (DUF4763)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.1   5.4e-06     0.011      19      80 ..      52     111 ..      19     136 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 5.4e-06
                  DUF4763  19 qvsqseqldveeeisseselpaeqe.eeeeeldLdeiydelekiKqrvlelrskLalnvpecP 80 
                              +++++e + + +  s+++++++e   +++ + +L+   +++ek+K+r  ++++ L++++   P
  PHY93_16840|PHY93_16840  52 KIKEEE-ETLRTITSDSDKITKEIGkNTNIKAQLEAYNKQVEKLKARSAQVDEILKIRTN--P 111
                              443344.55556666677777788899999*************************98753..4 PP

>> DUF948  Bacterial protein of unknown function (DUF948)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.1   0.1     1e-05      0.02       6      80 ..      31     104 ..      29     109 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1e-05
                   DUF948   6 aAiAFvvLviflivvllklkktldeaaatieelekqvdpilkevedllakvnelledvneklekvdplteavadl 80 
                              + +A+ ++ i  i v +  ++ ++e ++t+++++++ d+i+ke+ + ++   + le  n+++ek+++  ++v ++
  PHY93_16840|PHY93_16840  31 IGLALFIYYIPEIFVHNHFENKIKEEEETLRTITSDSDKITKEIGKNTNIKAQ-LEAYNKQVEKLKARSAQVDEI 104
                              567778888888889999999***********************998765555.999999999999888877765 PP

>> Spectrin  Spectrin repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   1.7   2.3e-05     0.045      43     100 ..      46     102 ..      44     106 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 2.3e-05
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHTTHTTHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                 Spectrin  43 hkaleaelaaqqervkalnelaeklldeghsaseeieerleelnerWeeLkelaaerk 100
                              h  +e+ +++++e +++++  ++k+++e   ++ +i+++le+ n++ e+Lk++ a+ +
  PHY93_16840|PHY93_16840  46 HNHFENKIKEEEETLRTITSDSDKITKE-IGKNTNIKAQLEAYNKQVEKLKARSAQVD 102
                              88999*******************9776.689999**************999988755 PP

>> Sec8_exocyst  Sec8 exocyst complex component specific domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   1.4     5e-05       0.1      64     127 ..      46     109 ..      44     124 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 5e-05
             Sec8_exocyst  64 hqaFnssiasYskilssiqesqekvselKesleeakkklstkkkeLkelnarsakykevieiLd 127
                              h+ F + i+  +++l++i++  +k+++   +  + k++l++ +k+ ++l+arsa+++e+++i  
  PHY93_16840|PHY93_16840  46 HNHFENKIKEEEETLRTITSDSDKITKEIGKNTNIKAQLEAYNKQVEKLKARSAQVDEILKIRT 109
                              788****************9999998888888999************************99855 PP

>> NPV_P10  Nucleopolyhedrovirus P10 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   1.0   7.3e-05      0.15      13      67 ..      53     107 ..      48     124 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 7.3e-05
                  NPV_P10  13 ikavddkVdalqqqvddvqenlpdvtelnekLdaqsaqLaeletkvenIqdiLnp 67 
                              ik+ ++ +  + +  d++++++ + t+++++L+a ++q+++l++   ++++iL  
  PHY93_16840|PHY93_16840  53 IKEEEETLRTITSDSDKITKEIGKNTNIKAQLEAYNKQVEKLKARSAQVDEILKI 107
                              666777777788888999999999999***************9977777777763 PP

>> zf-C4H2  Zinc finger-containing protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   4.0   0.00011      0.22       2      68 ..      53     119 ..      52     135 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00011
                  zf-C4H2   2 ikeirektleleklknklakevealekeekcleeykkelelLeqEkmaHveeLrlIhaD.inalEsvi 68 
                              ike  e ++ +++ ++k++ke++  ++ +  le y+k++e+L+  + a v+e+ +I++  ++ lE++ 
  PHY93_16840|PHY93_16840  53 IKEEEETLRTITSDSDKITKEIGKNTNIKAQLEAYNKQVEKLKA-RSAQVDEILKIRTNpKKVLEKIA 119
                              88888999999999****************************76.89999999999876244456655 PP

>> Seryl_tRNA_N  Seryl-tRNA synthetase N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   8.7     0.002       3.9      36     105 ..      51     123 ..      47     126 .. 0.81
   2 ?    2.4   0.1     0.093   1.8e+02       6      20 ..     106     120 ..     103     136 .. 0.79

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.002
                              HHHHHHHHHHHHHHHHHHHHHHHCCCCCCTTS-TCCCCCCCHHHHHHHHHHHHHHH...HHHHHHHHHHCTS- CS
             Seryl_tRNA_N  36 ekrrelqveleelqaerNelskeIgkakkkkedaeeliaevkelkeelkaleaelk...eleaeleklllaiP 105
                              +k +e + +l  + + + +++keIgk  + k++ e+  ++v++lk++ +++++ lk   + ++ lek++++iP
  PHY93_16840|PHY93_16840  51 NKIKEEEETLRTITSDSDKITKEIGKNTNIKAQLEAYNKQVEKLKARSAQVDEILKirtNPKKVLEKIARSIP 123
                              567777888888999999*************999999999999999999999877622255677888888887 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.093
                              HHHH-HHHHHHHHCC CS
             Seryl_tRNA_N   6 lirenpeavkeklkk 20 
                               ir+np++v ek+++
  PHY93_16840|PHY93_16840 106 KIRTNPKKVLEKIAR 120
                              69*********9964 PP

>> DivIC  Septum formation initiator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.1     0.079   1.6e+02       8      49 ..      35      76 ..      30      79 .. 0.82
   2 ?    8.4   4.4   0.00087       1.7      16      63 ..      74     121 ..      70     122 .. 0.90
   3 ?   -3.6   0.0         5     1e+04      36      42 ..     171     177 ..     163     179 .. 0.59

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.079
                             XXXXXXXXXXHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC CS
                    DivIC  8 llifgkkgllaykqlkqeiaalqaelaklkaeneeLeaevkd 49
                             l+i++   ++     +++i++ +++l +++ + ++ ++e+ +
  PHY93_16840|PHY93_16840 35 LFIYYIPEIFVHNHFENKIKEEEETLRTITSDSDKITKEIGK 76
                             567777788888899999999999999999999999999865 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.00087
                              XXHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC-XXXXXXXXXXXXX CS
                    DivIC  16 llaykqlkqeiaalqaelaklkaeneeLeaevkdLksdedyieerARs 63 
                              + +   +k++++a +++++klka+ ++ ++ +k  ++ +  +e++ARs
  PHY93_16840|PHY93_16840  74 IGKNTNIKAQLEAYNKQVEKLKARSAQVDEILKIRTNPKKVLEKIARS 121
                              55667899***************************99**********6 PP

  == domain 3  score: -3.6 bits;  conditional E-value: 5
                              HHHHHHH CS
                    DivIC  36 lkaenee 42 
                              lk+en++
  PHY93_16840|PHY93_16840 171 LKQENKQ 177
                              5555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (202 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1831  (0.102125); expected 358.6 (0.02)
Passed bias filter:                      915  (0.0510346); expected 358.6 (0.02)
Passed Vit filter:                       128  (0.00713927); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.36
# Mc/sec: 1676.77
//
Query:       PHY93_19470|PHY93_19470  [L=160]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    8.3e-06   25.4   0.0    0.00064   19.4   0.0    2.3  2  Cupin_3         Protein of unknown function (DUF861)
      5e-05   22.9   0.1    0.00045   19.9   0.1    2.0  2  Cupin_2         Cupin domain
  ------ inclusion threshold ------
       0.02   14.8   0.0      0.034   14.0   0.0    1.3  1  AraC_binding    AraC-like ligand binding domain
      0.026   14.2   0.0      0.034   13.9   0.0    1.1  1  Cupin_6         Cupin
       0.22   11.2   0.0       0.32   10.7   0.0    1.2  1  AraC_binding_2  AraC-binding-like domain


Domain annotation for each model (and alignments):
>> Cupin_3  Protein of unknown function (DUF861)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.2   0.0    0.0096        34       8      51 ..      36      82 ..      29      94 .. 0.79
   2 !   19.4   0.0   1.8e-07   0.00064      29      60 ..      98     135 ..      83     147 .. 0.82

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.0096
                             EEEEEEEECEEEEECESSEEEEEEEECEEEEEETTTEE...EEEETT CS
                  Cupin_3  8 swgiwectpGkfrltyeedEfcyileGevkvtpegget...velraG 51
                             ++ ++++++++ + +  +dE   + +G+ +++  gg+t   v +++G
  PHY93_19470|PHY93_19470 36 RARKFSMEKSEIKNFDNADEVRNFPKGKLELVNIGGKTigrVVFQPG 82
                             5667888999999999999999**********999999444444444 PP

  == domain 2  score: 19.4 bits;  conditional E-value: 1.8e-07
                              E......EEEECEEEEEETTTEEEEEETTEEEEE-TTE CS
                  Cupin_3  29 c......yileGevkvtpeggetvelraGDlvvlpkgl 60 
                              c      y ++G  kv+ ++ge++elraGD+ ++ +g 
  PHY93_19470|PHY93_19470  98 ClaphfqYHISGVLKVKMDSGEEYELRAGDISMINPGH 135
                              4444445889***********************99996 PP

>> Cupin_2  Cupin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   0.0      0.12   4.4e+02      26      44 ..      60      82 ..      51      85 .. 0.74
   2 !   19.9   0.1   1.3e-07   0.00045      22      69 ..     103     149 ..      99     151 .. 0.90

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.12
                             EESEEEEE.ECTE...EEEEETT CS
                  Cupin_2 26 leGegelt.vdge...eveleaG 44
                              +G++el  ++g+   +v+ ++G
  PHY93_19470|PHY93_19470 60 PKGKLELVnIGGKtigRVVFQPG 82
                             58999999999996666666665 PP

  == domain 2  score: 19.9 bits;  conditional E-value: 1.3e-07
                              EEEEEESEEEEEEC.TEEEEEETTEEEEE-TT-EEEEEE-SSS-EEEEE CS
                  Cupin_2  22 ffyVleGegeltvd.geeveleaGdsvyfpagtpHrfrNtgdeparllv 69 
                              f y ++G +++++d gee+el+aGd+ ++++g  H+    g+ep+++++
  PHY93_19470|PHY93_19470 103 FQYHISGVLKVKMDsGEEYELRAGDISMINPG--HDAWVVGNEPVVIVD 149
                              67889*******888****************5..99999999**99987 PP

>> AraC_binding  AraC-like ligand binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   9.5e-06     0.034      25      57 ..     102     135 ..     100     146 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 9.5e-06
                              EEEEEEEE-EEE.EETTEEEEE-TT-EEEE-TTS CS
             AraC_binding  25 vihyvteGtgrl.rlngrtydlgpGdlfLlppge 57 
                              +++y ++G+ ++ +  g++y+l++Gd+  ++pg+
  PHY93_19470|PHY93_19470 102 HFQYHISGVLKVkMDSGEEYELRAGDISMINPGH 135
                              689999******7777888*************95 PP

>> Cupin_6  Cupin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   9.6e-06     0.034       7      74 ..      64     140 ..      62     158 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 9.6e-06
                  Cupin_6   7 Lagvrlrgalffrsaltapwslrf...pag........lalhvvlrGscwlidpasgepvrLsagdvvllpggephvla 74 
                              L+ v+++g   +r+++ + w  +    p           ++    +G + ++  +sge  +L+agd+ +++ g+  ++ 
  PHY93_19470|PHY93_19470  64 LELVNIGGKTIGRVVFQPGWKWSTsvkP-IaqtesclaPHFQYHISGVLKVK-MDSGEEYELRAGDISMINPGHDAWVV 140
                              7889999***********9999663342.256789*999999999*******.444699********988777555443 PP

>> AraC_binding_2  AraC-binding-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   8.8e-05      0.32      24      90 ..      62     136 ..      53     146 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 8.8e-05
           AraC_binding_2  24 arlrsarlgdlslgrlrygaav.......sirpselddfylvqlplsGraeveqg.grevvlgpgdavvldpgrp 90 
                              + l+ + +g+ ++gr+ +++ +        i++ e   + ++q+ +sG   v  + g+e++l++gd ++++pg++
  PHY93_19470|PHY93_19470  62 GKLELVNIGGKTIGRVVFQPGWkwstsvkPIAQTESCLAPHFQYHISGVLKVKMDsGEEYELRAGDISMINPGHD 136
                              567778888888888888854444442232233333225699*************999**************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (160 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       641  (0.0357521); expected 358.6 (0.02)
Passed bias filter:                      527  (0.0293937); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.42u 0.20s 00:00:00.62 Elapsed: 00:00:00.35
# Mc/sec: 1357.52
//
Query:       PHY93_19475|PHY93_19475  [L=430]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.5e-49  169.0   0.0    3.7e-47  161.1   0.0    2.0  1  p450      Cytochrome P450


Domain annotation for each model (and alignments):
>> p450  Cytochrome P450
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  161.1   0.0   2.1e-51   3.7e-47      22     456 ..      25     419 ..      13     426 .. 0.79

  Alignments for each domain:
  == domain 1  score: 161.1 bits;  conditional E-value: 2.1e-51
                              HHHHHHHHHHHH-SEEEEEETTEEEE.EEESHHHHHHHHCTSTTTTCEESSHHHHHHHHHTTTTSSSTTCGHHHHHHHHHHHHHHH CS
                     p450  22 lhevlrklqkkygpifrlklgskpvv.vlsgpeavkevlikkgeefsgrpdeallatsrkpfkgkgvlfangekwkklRrfltptl 106
                              + ++l +lq k+g+ f l + + p++ + ++++++k v+ + +++f+   ++++         + g+++++g+++ +lR+ ++p++
  PHY93_19475|PHY93_19475  25 PEDYLLDLQTKHGDPFPLSFPGAPTIwLTGNSDLAKVVFTAPADSFKTSDKNPVGP----LLGKDGLIMQSGSTHLSLRKEFIPNF 106
                              67788899****87776666666655055678899999999998999985555555....5899********************** PP

                              TSHSTTTHHHHHHHHHHHHHHHHHCCCCHCSEEETHHHHHHHHHHHHHHHHHSSHHHTTTSSHHHHHHHHHHHHHHHHHCHHHHCC CS
                     p450 107 tsfgklsleelveeeaedlveklrkkagesselditellskaaldvigsilFgarfdlledeklselvkaveelssllskssvqll 192
                               ++   sl ++ e +++ + e +++++g s++l i+e+  + al +i + lF +      +++ +e++k++ +    l++ s  +l
  PHY93_19475|PHY93_19475 107 SKK---SLSPFSENIVDTFFE-IHQNHGHSGVLFIQEFALNSALKIILKFLFPHL----IQSEMEEAEKLTGNF---LKSYSASFL 181
                              *77...889999999999987.566666665777777777777777777777774....444455677777777...444444445 PP

                              CCCHHHTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHCHCHCSCSSCSHHHHHHHHCTTCTCTSSSSHHHHHHHHHHHHHHHHHHH CS
                     p450 193 llfpllkylptkllrklkeavkklkdlldklieerretldsakksrrdfldalllakkekkgesklsdeelaatvlellfaGvdTt 278
                              ++++++      +++++++  ++l    +++ e   + +        ++    l+ +         s+ ++   + ++++aG++T+
  PHY93_19475|PHY93_19475 182 FIPNWV----PGTWKTFNQKKNEL---DNRFYEFFLSGVALG----INGPLSSLEGS---------SKSQVLDHIRTFIVAGHETS 247
                              555544....36677777554444...455555555556666....34445555554.........778899999*********** PP

                              HHHHHHHHHHHHHSHHHHHHHHHHHHHHCCTTTT-HHHHCCT-HHHHHHHHHHHHHSCSSTTEEEEESSS.CEEETTEEE-TT-EE CS
                     p450 279 sstlswaLyeLaknPevqeklreEidevlgdkreptyddlqklpyldavikEtLRlhpvvplllpRevtk.dvvirgylipkGtev 363
                              ++ lswaLy++ ++  + ++l+eE+    +++++   + l +  +ld +++E+LR++p+vp +++R++ +    +++ ++  ++e 
  PHY93_19475|PHY93_19475 248 ATSLSWALYYIHQDLYIRNRLQEELTIFENRSKNDFLEILLSNQFLDSIVQESLRIRPPVP-FVTRKIINrAFIFGDQKLNIDDEL 332
                              ************************87777999999999999********************.888998884667777********* PP

                              EEEHHHHHT-TTTSSSTTS--GGGGB-TTSCTESSCTT--TTEEGGGS-TTHHHHHHHHHHHHHHHHHHEEEEESTSTSGGEEESS CS
                     p450 364 ivnlyalhrdpevfpnPeeFdpeRFldekgnskrksfaflPFGaGpRnCiGerlArmelklflatlLqnFevelqpetdpppilek 449
                               v+++ lhr pe +pnP eF+p+RFld+k     ++++f PFG G R CiG  lA +elk++++  +++++ el+  t++p ++  
  PHY93_19475|PHY93_19475 333 GVCISLLHRQPETWPNPSEFKPDRFLDRKY----SPYEFAPFGGGTRKCIGAELAVLELKILIGFYIKYYQSELIG-TNIPRPEVM 413
                              ****************************75....7**************************************965.555555543 PP

                              CSSEEES CS
                     p450 450 sglllpp 456
                               ++++ p
  PHY93_19475|PHY93_19475 414 -QITIGP 419
                              .355555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (430 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       285  (0.015896); expected 358.6 (0.02)
Passed bias filter:                      267  (0.0148921); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.42
# Mc/sec: 3092.73
//
Query:       PHY93_19480|PHY93_19480  [L=285]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.1e-13   49.9   0.0    2.3e-12   47.4   0.0    2.0  2  Methyltransf_25  Methyltransferase domain
    2.7e-10   40.3   0.0      5e-10   39.4   0.0    1.5  1  Methyltransf_31  Methyltransferase domain
    1.8e-09   38.1   0.0    4.9e-09   36.7   0.0    1.7  2  Methyltransf_11  Methyltransferase domain
    4.7e-09   36.9   0.2      5e-08   33.6   0.0    2.1  2  Methyltransf_12  Methyltransferase domain
    7.2e-05   22.7   0.0    0.00017   21.4   0.0    1.6  1  Methyltransf_23  Methyltransferase domain
    7.8e-05   22.7   0.1    0.00027   20.9   0.0    2.0  3  Methyltransf_32  Methyltransferase domain
     0.0014   18.4   0.0     0.0028   17.4   0.0    1.4  1  Methyltransf_16  Lysine methyltransferase
     0.0026   17.3   0.1       0.01   15.3   0.1    1.8  2  CheR             CheR methyltransferase, SAM binding domain
     0.0062   16.1   0.0      0.012   15.2   0.0    1.4  1  MTS              Methyltransferase small domain
     0.0068   15.8   0.0     0.0096   15.3   0.0    1.3  1  Ubie_methyltran  ubiE/COQ5 methyltransferase family
  ------ inclusion threshold ------
      0.022   14.4   0.0      0.038   13.7   0.0    1.4  1  UPF0020          Putative RNA methylase family UPF0020
      0.085   11.9   0.1       0.12   11.5   0.1    1.3  1  DREV             DREV methyltransferase
        0.1   12.4   0.0       0.15   11.8   0.0    1.3  1  PCMT             Protein-L-isoaspartate(D-aspartate) O-methyl
       0.13   12.0   0.0        0.2   11.4   0.0    1.2  1  DUF938           Protein of unknown function (DUF938)


Domain annotation for each model (and alignments):
>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0       1.8   2.3e+03      34      65 ..      63      94 ..      57      97 .. 0.81
   2 !   47.4   0.0   1.8e-15   2.3e-12       1      90 [.     121     215 ..     121     220 .. 0.89

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 1.8
                             HHHHHHHHHHTTTTEEEEESBCCGBSSSTTTE CS
          Methyltransf_25 34 leaareraeeeglnvefvqgdaedlpfedgsf 65
                             +  are++++ ++nv+  q  ++ l+++++ f
  PHY93_19480|PHY93_19480 63 WTDAREHIDDPQFNVQTKQEIIQGLHLKNNLF 94
                             67799999999999999999998888877655 PP

  == domain 2  score: 47.4 bits;  conditional E-value: 1.8e-15
                              EEEET-TTSHHHHHHHCTS.T...SSEEEEEESSHHHHHHHHHHHHHTTTTEEEEESBCCGBS.SSTTTEEEEEEESTGGGSSHHH CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrl.g...kakvtgvDiseemleaareraeeeglnvefvqgdaedlp.fedgsfDlvvssgalhhlsded 81 
                              +L+lG GtG+lt+a+ ++  +   k ++tg Di +e++ aa+++a +++l+++f + da +l+ +e++s+D+++  +++hh+ +e+
  PHY93_19480|PHY93_19480 121 ILELGSGTGKLTMAMYEKTkNtsmKIQITGSDIIPEYVLAANNEAISRNLKIDFKVIDAFHLDrLEHNSYDIIFTLHSMHHFLPEQ 206
                              8*****************9724579************************************985799********888***98899 PP

                              HHHHHHHHH CS
          Methyltransf_25  82 lekalkeia 90 
                              l+ +++   
  PHY93_19480|PHY93_19480 207 LAMIMSGSQ 215
                              888776655 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.4   0.0   3.9e-13     5e-10       4      87 ..     118     202 ..     115     226 .. 0.86

  Alignments for each domain:
  == domain 1  score: 39.4 bits;  conditional E-value: 3.9e-13
          Methyltransf_31   4 glrvlDlGCGtGeltfelae...elgpkaevvGiDiseeaielArenaqklgldnveFeqgdieeleklledekfDlilsnevlna 86 
                                ++l+lG+GtG+lt +++e   +  +k++++G Di +e +  A+++a + +l+ + F++ d+++l+  le +++D+i++   +++
  PHY93_19480|PHY93_19480 118 PAKILELGSGTGKLTMAMYEktkNTSMKIQITGSDIIPEYVLAANNEAISRNLK-IDFKVIDAFHLDR-LEHNSYDIIFTLHSMHH 201
                              5689****************8665555999****************99999997.99**********8.688*******9766655 PP

          Methyltransf_31  87 l 87 
                              +
  PHY93_19480|PHY93_19480 202 F 202
                              4 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0       6.3   8.1e+03      34      62 ..      66      94 ..      59      96 .. 0.76
   2 !   36.7   0.0   3.8e-12   4.9e-09       1      78 [.     122     208 ..     122     220 .. 0.86

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 6.3
                             HHHHCCHHT-EEEETTEECCCTSS-TT-E CS
          Methyltransf_11 34 akekaseeglkvefvvadaeklpfednsf 62
                             a+e++ +++++v+  ++ ++ l +++n f
  PHY93_19480|PHY93_19480 66 AREHIDDPQFNVQTKQEIIQGLHLKNNLF 94
                             78888888888888888888887777765 PP

  == domain 2  score: 36.7 bits;  conditional E-value: 3.8e-12
                              EEET-TTSHHHHHHH...HTT....SEEEEEES-HHHHHHHHHHCCHHT-EEEETTEECCCT.SS-TT-EEEEEEES-CCC-..CC CS
          Methyltransf_11   1 LdvGcGtGrlaeala...krg....arvvgvDlskemlklakekaseeglkvefvvadaekl.pfednsfDlvvssevlhhv..ed 76 
                              L++G+GtG+l+ a+    k       +++g D+ +e + +a+++a  ++lk++f v da +l  +e ns+D+++  +++hh+  e+
  PHY93_19480|PHY93_19480 122 LELGSGTGKLTMAMYektK-NtsmkIQITGSDIIPEYVLAANNEAISRNLKIDFKVIDAFHLdRLEHNSYDIIFTLHSMHHFlpEQ 206
                              89*************6552.15789*************999999999989************88*****************97544 PP

                              HH CS
          Methyltransf_11  77 pe 78 
                              ++
  PHY93_19480|PHY93_19480 207 LA 208
                              44 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.1      0.56   7.1e+02      41      84 ..      16      75 ..       5      85 .. 0.65
   2 !   33.6   0.0   3.9e-11     5e-08       1      81 [.     122     206 ..     122     219 .. 0.73

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.56
          Methyltransf_12 41 akrennnnnnvelealdlldldgg................ssfDlvvasnvlhhlkdire 84
                             ++  + n + ++le+l l+++                    + D  +  ++ +h++d+++
  PHY93_19480|PHY93_19480 16 RQSPQTNIDDLDLEKLKLISKLLFkeidqkrstqarknllYYLDQLIWTDAREHIDDPQF 75
                             444455555555555555444444666667777777777788899999999999988886 PP

  == domain 2  score: 33.6 bits;  conditional E-value: 3.9e-11
          Methyltransf_12   1 LeiGcGtGsllrallekl....pdieytgvDispsai.edakeklakrennnnnnvelealdlldldggssfDlvvasnvlhhl.. 79 
                              Le+G+GtG l++a+ ek+      i++tg+Di p+ + ++  e ++++ + ++++++ ++ld l   + +s+D+++ ++ +hh+  
  PHY93_19480|PHY93_19480 122 LELGSGTGKLTMAMYEKTkntsMKIQITGSDIIPEYVlAANNEAISRNLKIDFKVIDAFHLDRL---EHNSYDIIFTLHSMHHFlp 204
                              8********************99************99334444444444444444444444433...337*************964 PP

          Methyltransf_12  80 kd 81 
                              ++
  PHY93_19480|PHY93_19480 205 EQ 206
                              43 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.4   0.0   1.4e-07   0.00017      14      96 ..     109     203 ..      96     214 .. 0.73

  Alignments for each domain:
  == domain 1  score: 21.4 bits;  conditional E-value: 1.4e-07
          Methyltransf_23  14 erllpklraggrvLdiGcGtGillevlrengf......svtgvDlspeaveiae........kakkaqkdqfdeqeaaepqgkfdl 85 
                               ++ + +++++++L++G GtG l+  + e+ +      ++tg D+ pe v  a         k+++ + d f  + ++ + +++d+
  PHY93_19480|PHY93_19480 109 TQINEIEKRPAKILELGSGTGKLTMAMYEKTKntsmkiQITGSDIIPEYVLAANneaisrnlKIDFKVIDAF--HLDRLEHNSYDI 192
                              444455899************99999955432224567*******999888777887777555555555555..55555888**** PP

          Methyltransf_23  86 Ivlrevlehvp 96 
                              I   ++++h+ 
  PHY93_19480|PHY93_19480 193 IFTLHSMHHFL 203
                              *********86 PP

>> Methyltransf_32  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0       2.2   2.8e+03     103     124 ..      55      88 ..      17      93 .. 0.60
   2 !   20.9   0.0   2.1e-07   0.00027       8      71 ..      99     165 ..      96     212 .. 0.82
   3 ?   -3.7   0.0       8.2     1e+04     139     152 ..     267     280 ..     263     283 .. 0.74

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 2.2
          Methyltransf_32 103 e............aeeekeeqeekesvdvligLH 124
                                           ++ +  + + +++++++ gLH
  PHY93_19480|PHY93_19480  55 LyyldqliwtdarEHIDDPQFNVQTKQEIIQGLH 88 
                              1455556666654444445556667777788888 PP

  == domain 2  score: 20.9 bits;  conditional E-value: 2.1e-07
          Methyltransf_32   8 rlaelvakllkel.akesgaltvvDvGaGkgYLsfvlal..kekeyklkvvgidakeelvekaekra 71 
                              ++++++++l++++ + e+++ +++++G+G g L+ +++   k++ +k++++g d+  e v +a++ a
  PHY93_19480|PHY93_19480  99 KTIKILEPLITQInEIEKRPAKILELGSGTGKLTMAMYEktKNTSMKIQITGSDIIPEYVLAANNEA 165
                              67888999999986668999*******************766667**********999876666544 PP

  == domain 3  score: -3.7 bits;  conditional E-value: 8.2
          Methyltransf_32 139 ekeakllvlvpCCy 152
                              +k+ ++++ ++C +
  PHY93_19480|PHY93_19480 267 SKQLEIIAKIGCPQ 280
                              48889999999966 PP

>> Methyltransf_16  Lysine methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.0   2.2e-06    0.0028      39     106 ..     110     178 ..      98     201 .. 0.64

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 2.2e-06
          Methyltransf_16  39 elganelsklsvlELGsGtGlvGlavael..lpeakviltDleellel.lkknielnknalkskvkvevLd 106
                              + ++ e ++ ++lELGsGtG   +a+ e+   +++k+ +t  + + e  l  n e+     + k+ ++v+d
  PHY93_19480|PHY93_19480 110 QINEIEKRPAKILELGSGTGKLTMAMYEKtkNTSMKIQITGSDIIPEYvLAANNEA--ISRNLKIDFKVID 178
                              4566788999**************99998543778888887665544302333333..1234455555555 PP

>> CheR  CheR methyltransferase, SAM binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.1     8e-06      0.01      18      82 ..     102     163 ..      92     199 .. 0.83
   2 ?   -0.7   0.0      0.64   8.1e+02     119     157 ..     171     210 ..     162     218 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 8e-06
                              CCH.HHHHHHHTS..SSEEEEEES-TTTHHHHHHHHHHHCHSTTTSSS-EEEEEEESSCHHHHHHHH CS
                     CheR  18 evlepllakakne..krvriwsagcssGeEpYslAmllketlpkaaklkvkilAtDidlkvlekAka 82 
                              ++lepl++++++   ++ +i++ g+++G+   ++Am  k    k+ ++k++i+++Di  + + +A++
  PHY93_19480|PHY93_19480 102 KILEPLITQINEIekRPAKILELGSGTGK--LTMAMYEKT---KNTSMKIQITGSDIIPEYVLAANN 163
                              68899999998777678***********8..677777666...667779********9998888765 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.64
                              TEEEEE--TTT.-SGGG--EEEEEE-SSGGGC-CHHHHHH CS
                     CheR 119 lvkFeklnlle.kksvlgklDvifcrnvliYfdeetqekv 157
                               ++F+  ++++ ++  +++ D+if    +  f +e+ + +
  PHY93_19480|PHY93_19480 171 KIDFKVIDAFHlDRLEHNSYDIIFTLHSMHHFLPEQLAMI 210
                              4899999999988888899999999888877777766555 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0   9.3e-06     0.012      27     103 ..     114     195 ..     105     211 .. 0.75

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 9.3e-06
                              CHCCTCSEEEEET-TTSHHHHHHHHHTTC.E....EEEEESBHHHHHHHHHHHHHTTGCEEEEE-ST..TTTSTTS-EEEEEE CS
                      MTS  27 lpkelsgkvlDlGcGaGvlgaalakespeae....vtlvdvdarAlesakenleanklevevvasdv..leeveekkfdlivs 103
                              ++k +  k+l lG+G+G l++a+ +++++++    +t  d+  + + +a++ + + +l++++   d+  l+ +e++++d+i +
  PHY93_19480|PHY93_19480 114 IEK-RPAKILELGSGTGKLTMAMYEKTKNTSmkiqITGSDIIPEYVLAANNEAISRNLKIDFKVIDAfhLDRLEHNSYDIIFT 195
                              334.4557*************99877665432222788899999999999999888888666555542278999999999975 PP

>> Ubie_methyltran  ubiE/COQ5 methyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   7.5e-06    0.0096      44     120 ..     114     193 ..     100     219 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 7.5e-06
                              -S--TTEEEEES-TT-HHHHHHHHHHHHHH...EEEEEES-HHHHHHHHHHHHHHTSSTEEEEE--TTT-TTS-.T-EEEE CS
          Ubie_methyltran  44 avkrgakvlDvagGtgDlafklsdsvgekg...kvvvlDinenmLkvgekklkeegkinieflqanaeeLpfed.dsfDvv 120
                               +kr+ak+l++ +Gtg l++++ ++ +++    ++++ Di ++ +  +++ +  +   +i+f + +a +L+  + +s+D++
  PHY93_19480|PHY93_19480 114 IEKRPAKILELGSGTGKLTMAMYEKTKNTSmkiQITGSDIIPEYVLAANNEAISR-NLKIDFKVIDAFHLDRLEhNSYDII 193
                              5799******************999888766668888999887766666555544.3578999999999986554999987 PP

>> UPF0020  Putative RNA methylase family UPF0020
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0     3e-05     0.038      68     127 ..     137     195 ..      99     196 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 3e-05
                              HHHHHHHHH--EEEEES-HHHHHHHHHHHHHTT-GGGEEEEE--GGG--.STTS---EEEE CS
                  UPF0020  68 eaeeearaelklygsDldrrvvqgareNaekagvgdliefsqadaakLr.lkegevdvivt 127
                              e  +++  ++++ gsD+++++v +a  N e+   + +i+f++ da +L  l+++++d+i t
  PHY93_19480|PHY93_19480 137 EKTKNTSMKIQITGSDIIPEYVLAA--NNEAISRNLKIDFKVIDAFHLDrLEHNSYDIIFT 195
                              33333448888***********999..5566778889***********976777***9976 PP

>> DREV  DREV methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   9.1e-05      0.12      60     159 ..      83     197 ..      33     220 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 9.1e-05
                     DREV  60 dinGllgrGsmfvlseeqfrklla.iekespasdqedkklldlGaGdGeitkrvaptfee..............vyatelsetmrd 130
                               i Gl  + ++f   ++   k+l  +  +  + ++++ k+l+lG+G G++t  + +  ++               y   + ++ + 
  PHY93_19480|PHY93_19480  83 IIQGLHLKNNLFGTYNKTI-KILEpLITQINEIEKRPAKILELGSGTGKLTMAMYEKTKNtsmkiqitgsdiipEYVLAANNEAIS 167
                              5666666666665444433.34431222333456889*****************99998889999999999988577777788888 PP

                     DREV 131 rlkkkkynvlsalelqetdvk.ldlilcln 159
                              r  k +++v+ a +l+  + + +d+i +l 
  PHY93_19480|PHY93_19480 168 RNLKIDFKVIDAFHLDRLEHNsYDIIFTLH 197
                              889999999999998877654389988876 PP

>> PCMT  Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   0.00012      0.15      73     116 ..     117     163 ..      93     207 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00012
                              TT-EEEEES-TTSHHHHHHHHHHCTTC...EEEEEESBHHHHHHHHH CS
                     PCMT  73 kgarvLevGsGsGyltavlarlvgekg...rvvsierikelveeakr 116
                              + a++Le+GsG+G lt  +++  +++    ++ + + i+e v +a++
  PHY93_19480|PHY93_19480 117 RPAKILELGSGTGKLTMAMYEKTKNTSmkiQITGSDIIPEYVLAANN 163
                              4689***************9998887633355566667776666554 PP

>> DUF938  Protein of unknown function (DUF938)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00015       0.2      14     128 ..     103     215 ..      95     227 .. 0.62

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00015
                   DUF938  14 ilevLksylaktte...rvLEiasGtGqHAvffApalp..nlkwqpsdqdeelresiaawadelalsnlkpPleldvtaevapver 94 
                              ile L  ++++ ++   ++LE++sGtG+  + + ++ +   +k q +  d    e + a  +e+ ++nlk  +++  + ++     
  PHY93_19480|PHY93_19480 103 ILEPLITQINEIEKrpaKILELGSGTGKLTMAMYEKTKntSMKIQITGSDIIP-EYVLAANNEAISRNLKIDFKVIDAFHLDR--- 184
                              666666666655554559*********97555544444004555555444433.45677777888888887666533333333... PP

                   DUF938  95 eappapasidailsinllHispwsaveglfagag 128
                                 ++++s+d i++   +H    ++   +++g +
  PHY93_19480|PHY93_19480 185 ---LEHNSYDIIFTLHSMHHFLPEQLAMIMSGSQ 215
                              ...3578999999988888665555555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (285 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       594  (0.0331307); expected 358.6 (0.02)
Passed bias filter:                      371  (0.0206927); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.49u 0.18s 00:00:00.67 Elapsed: 00:00:00.37
# Mc/sec: 2313.82
//
Query:       PHY93_19485|PHY93_19485  [L=493]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.021   15.0   0.2       0.12   12.5   0.0    2.3  3  DUF3853   Protein of unknown function (DUF3853)
       0.15   12.8   1.9         29    5.4   0.0    3.2  4  Bro-N     BRO family, N-terminal domain
        1.3    7.0  11.1        1.9    6.4  11.1    1.2  1  DUF5401   Family of unknown function (DUF5401)


Domain annotation for each model (and alignments):
>> DUF3853  Protein of unknown function (DUF3853)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   2.1e-05      0.12       9      67 ..      80     140 ..      76     148 .. 0.86
   2 ?   -2.1   0.0      0.74   4.4e+03      42      57 ..     246     261 ..     210     269 .. 0.83
   3 ?   -2.6   0.1       1.1   6.6e+03      18      39 ..     433     453 ..     419     471 .. 0.57

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 2.1e-05
                  DUF3853   9 PvlkmtGeellfLlkkaetkeeaktp..kadakeekkfvyGikglarllGislptanrikk 67 
                              P+  +  + ll+Ll+ a +++ a +p    +a ++++ +y + ++ r lG+s    nri k
  PHY93_19485|PHY93_19485  80 PLQSVENDVLLVLLTMAFEQRSALVPihAIEAVSDRRVYYTLAEICRRLGLSENNSNRISK 140
                              666677788999*****99*9999997445678899**********************987 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 0.74
                  DUF3853  42 kkfvyGikglarllGi 57 
                              ++f++ +++la+++G+
  PHY93_19485|PHY93_19485 246 NDFLFNLNELAQVIGL 261
                              5688889999999996 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 1.1
                  DUF3853  18 llfLlkkaetkeeaktpkadak 39 
                              l ++ ++  +k+e + ++ ++k
  PHY93_19485|PHY93_19485 433 LAVI-QQHRHKKELQKQEDEKK 453
                              4333.34444444444433333 PP

>> Bro-N  BRO family, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0       2.4   1.4e+04      30      44 ..      55      69 ..      49      87 .. 0.59
   2 ?    5.2   0.0    0.0058        35       9      50 ..     114     152 ..     106     181 .. 0.56
   3 ?    5.4   0.0    0.0048        29       9      49 ..     245     285 ..     241     315 .. 0.77
   4 ?   -2.3   0.1       1.3   7.6e+03      36      36 ..     445     445 ..     408     478 .. 0.58

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 2.4
                    Bro-N 30 kaikkhvdkdnkkkl 44
                             k + + vd+++   +
  PHY93_19485|PHY93_19485 55 KSVVRTVDDNGSIYM 69
                             455566665555444 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.0058
                    Bro-N   9 ngepwfvakdvakiLgysnps.kaikkhvdkdnkkkleelvst 50 
                              +  +++ + ++++ Lg s+ + +    +++k+ k+  +++ s 
  PHY93_19485|PHY93_19485 114 DRRVYYTLAEICRRLGLSENNsN----RISKAIKRIASQNLSF 152
                              678999***********888433....3333333333332222 PP

  == domain 3  score: 5.4 bits;  conditional E-value: 0.0048
                    Bro-N   9 ngepwfvakdvakiLgysnpskaikkhvdkdnkkkleelvs 49 
                              +++++f ++++a+++g ++++k+ ++++  ++ +k+ e++ 
  PHY93_19485|PHY93_19485 245 GNDFLFNLNELAQVIGLQDSQKDKRRRLIFEYMQKTREITA 285
                              5889****************888789988888877766544 PP

  == domain 4  score: -2.3 bits;  conditional E-value: 1.3
                    Bro-N  36 v 36 
                              +
  PHY93_19485|PHY93_19485 445 L 445
                              1 PP

>> DUF5401  Family of unknown function (DUF5401)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.4  11.1   0.00033       1.9     456     523 ..     426     490 ..     408     493 .] 0.69

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.00033
                  DUF5401 456 erqqqverlrqqeeerkrkklelekekrekkeaeeerrkilekeleerk.qalieeerkrkllekemee 523
                              er++q e       +++r+k el+k++ ++k+ +e   k+le  +++ k +++ie   k kl+e  m e
  PHY93_19485|PHY93_19485 426 ERRKQKELAVI---QQHRHKKELQKQE-DEKKFDESFNKLLEDIMKDAKyKKMIELSAKEKLMEEGMVE 490
                              34444333222...2333333666655.55667888899******9876489************99976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (493 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1870  (0.1043); expected 358.6 (0.02)
Passed bias filter:                      620  (0.0345808); expected 358.6 (0.02)
Passed Vit filter:                        59  (0.00329076); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.65u 0.25s 00:00:00.90 Elapsed: 00:00:00.42
# Mc/sec: 3505.82
//
Query:       PHY93_19490|PHY93_19490  [L=47]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.074   13.2   0.1       0.12   12.5   0.1    1.4  1  EZH2_WD-Binding  WD repeat binding protein EZH2


Domain annotation for each model (and alignments):
>> EZH2_WD-Binding  WD repeat binding protein EZH2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.1   6.8e-06      0.12       1      15 [.      30      44 ..      30      46 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 6.8e-06
          EZH2_WD-Binding  1 KsLFvsNrqKiqekt 15
                             KsL  sN+qKi + +
  PHY93_19490|PHY93_19490 30 KSLMISNFQKINQGL 44
                             99*********9975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (47 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       369  (0.0205812); expected 358.6 (0.02)
Passed bias filter:                      256  (0.0142785); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.33u 0.21s 00:00:00.54 Elapsed: 00:00:00.35
# Mc/sec: 405.41
//
Query:       PHY93_19495|PHY93_19495  [L=154]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    0.00087   19.5   0.6      0.002   18.4   0.1    1.8  2  Plasmod_Pvs28  Pvs28 EGF domain


Domain annotation for each model (and alignments):
>> Plasmod_Pvs28  Pvs28 EGF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0      0.39     7e+03      25      29 ..      19      25 ..      18      47 .. 0.54
   2 !   18.4   0.1   1.1e-07     0.002       5      41 ..      91     138 ..      89     139 .. 0.86

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 0.39
            Plasmod_Pvs28 25 CsCk..t 29
                             Cs++   
  PHY93_19495|PHY93_19495 19 CSSNqnH 25
                             5555330 PP

  == domain 2  score: 18.4 bits;  conditional E-value: 1.1e-07
            Plasmod_Pvs28   5 KaCkeneeCkltaqnqnyykCsCk...............tGyvySlmngnaC 41 
                              K ++ +eeCk     q +y Cs k               +G+  S mn +++
  PHY93_19495|PHY93_19495  91 KKVGGFEECKGP---QGTYACSEKeskdtmlfslnfsnlEGTLQS-MNDKVV 138
                              44999*******...*********999999999888888888888.888776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (154 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       369  (0.0205812); expected 358.6 (0.02)
Passed bias filter:                      311  (0.0173462); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.38u 0.19s 00:00:00.57 Elapsed: 00:00:00.35
# Mc/sec: 1310.23
//
Query:       PHY93_19500|PHY93_19500  [L=190]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (190 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       507  (0.0282782); expected 358.6 (0.02)
Passed bias filter:                      334  (0.018629); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.22s 00:00:00.61 Elapsed: 00:00:00.36
# Mc/sec: 1561.65
//
Query:       PHY93_19505|PHY93_19505  [L=285]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.6e-35  122.6   0.8    2.3e-35  122.1   0.8    1.2  1  AAA_31        AAA domain
    1.4e-15   57.5   0.1    2.1e-15   56.9   0.1    1.3  1  CbiA          CobQ/CobB/MinD/ParA nucleotide binding domain
    2.5e-08   33.7   0.2    5.1e-08   32.7   0.2    1.5  1  ParA          NUBPL iron-transfer P-loop NTPase
    1.1e-07   31.5   0.6    8.8e-07   28.5   0.2    2.0  2  MipZ          ATPase MipZ
    2.3e-05   24.0   0.8    0.00014   21.4   0.5    2.0  2  Fer4_NifH     4Fe-4S iron sulfur cluster binding proteins, Ni
    4.2e-05   22.9   0.8    0.00011   21.6   0.8    1.7  1  ArsA_ATPase   Anion-transporting ATPase
    0.00069   19.0   0.1      0.082   12.2   0.0    2.2  2  VirC1         VirC1 protein
     0.0085   15.7   0.0      0.015   14.9   0.0    1.3  1  Phage_endo_I  Phage endonuclease I
  ------ inclusion threshold ------
      0.012   15.1   0.0      0.026   14.0   0.0    1.5  2  CBP_BcsQ      Cellulose biosynthesis protein BcsQ
      0.079   12.7   0.1       0.23   11.3   0.0    1.7  2  CLP1_P        mRNA cleavage and polyadenylation factor CLP1 P


Domain annotation for each model (and alignments):
>> AAA_31  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  122.1   0.8   1.3e-38   2.3e-35       2     176 ..       3     187 ..       2     188 .. 0.87

  Alignments for each domain:
  == domain 1  score: 122.1 bits;  conditional E-value: 1.3e-38
                   AAA_31   2 kvIaianqKGGvGKTTtsvnlaaalaklgkkvLlvDlDp.Qanattgl.giekneiektlyevlieeknikeaiiktkvenldlip 85 
                              ++I+++ qKGGvGKTT+++ +a ala++g k+L++D D+ Q+n+t ++ g   ++ +k +++++++  +++e+++ktk+ nl +ip
  PHY93_19505|PHY93_19505   3 RIISVIAQKGGVGKTTSTIHIATALANMGFKTLIIDWDTsQGNSTYSTiGHLDSKNQKGICHIIANGGTLSEVLCKTKTPNLFIIP 88 
                              79************************************54999998651555677899**************************** PP

                   AAA_31  86 ssi.....dLaeaeielvelekkeeil.kellekvk..deYDyiiiDcpPsLglltenaLvasdsviipvqaeayaleGleqllkt 163
                              s++     +  ++e  l++l  + ++l kel+++ +  +++ +++iD  P+Lg+ t+++L+asd++i pvq+++++l  + q ++t
  PHY93_19505|PHY93_19505  89 SEVtdsrgNAYSIESTLTQLGIEGYTLlKELISENDeiQDFQFVLIDNTPKLGIETVSSLIASDYFITPVQMTDFSLGSIGQTIST 174
                              *98333334667777787777775554399997765226799******************************************** PP

                   AAA_31 164 ieevkkklnpkle 176
                                +vkk  n++le
  PHY93_19505|PHY93_19505 175 ALKVKKGHNKDLE 187
                              ******9999986 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.9   0.1   1.2e-18   2.1e-15       1     126 [.       5     240 ..       5     242 .. 0.88

  Alignments for each domain:
  == domain 1  score: 56.9 bits;  conditional E-value: 1.2e-18
                              EEEEESSTTSSHHHHHHHHHHHHHHTT--EEEEEEEESSCCCCH.HTTEB-HHHH............................... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxx............................... RF
                     CbiA   1 iaiastkGGvGKTtlaanLaralarrglrVllvDaDpqannlai.leglendiep............................... 54 
                              i+++++kGGvGKTt ++++a+ala+ g+++l +D D+   n+++   g    +++                               
  PHY93_19505|PHY93_19505   5 ISVIAQKGGVGKTTSTIHIATALANMGFKTLIIDWDTSQGNSTYsTIGHLDSKNQkgichiianggtlsevlcktktpnlfiipse 90 
                              7899********************************988888876444444444478999************************** PP

                              .........................................................................CCHCCCHHHHHHC CS
                              .........................................................................xxxxxxxxxxxxx RF
                     CbiA  55 .........................................................................dlkrllellealg 67 
                                                                                                       +l ++++++++  
  PHY93_19505|PHY93_19505  91 vtdsrgnaysiestltqlgiegytllkelisendeiqdfqfvlidntpklgietvssliasdyfitpvqmtdfSLGSIGQTISTAL 176
                              *************************************************************************7777777776555 PP

                              HCHHHH.....EEEEEEEEESS...-TTCHHHHHHHHHHC....TS-EEE.EEE--CCHCCCCHHTS CS
                              xxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxx.xxxxxxxxxxxxxxxx RF
                     CbiA  68 kkkall...lkiagvvlnrvdgeneetllkealeelkqry....gvpvlg.viprdeavaeaparge 126
                              k+k+ +   l+ +g+ +   d++  +++ kea+ el + y    g+++++ +ip  +++a++p  ++
  PHY93_19505|PHY93_19505 177 KVKKGHnkdLEALGIFVSSSDNR--INKSKEAIVELGE-YckksGIHLFDsIIPIASKFAFLPRGQQ 240
                              555444577**********9999..8888888888764.44888******99999999998887655 PP

>> ParA  NUBPL iron-transfer P-loop NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.7   0.2   2.8e-11   5.1e-08       4      55 ..       3      55 ..       1      69 [. 0.84

  Alignments for each domain:
  == domain 1  score: 32.7 bits;  conditional E-value: 2.8e-11
                     ParA  4 kviavlSgKGGVGKStvavnlAlaLakkglkvgllDaDiy.Gpsiprllgvee 55
                             ++i v++ KGGVGK+t ++++A+aLa++g+k+ ++D D   G s  + +g  +
  PHY93_19505|PHY93_19505  3 RIISVIAQKGGVGKTTSTIHIATALANMGFKTLIIDWDTSqGNSTYSTIGHLD 55
                             699***********************************743777766666555 PP

>> MipZ  ATPase MipZ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.5   0.2   4.9e-10   8.8e-07       2      45 ..       4      47 ..       3      75 .. 0.85
   2 ?    1.3   0.0     0.098   1.8e+02      95     151 ..     124     180 ..     103     185 .. 0.73

  Alignments for each domain:
  == domain 1  score: 28.5 bits;  conditional E-value: 4.9e-10
                             EEEE--SSTTSSHHHHHHHHHHHHHTTT--EEEEE--TTT-HHH CS
                     MipZ  2 vivlgnekGGsGksttavhvavaLlkkGarvaaidldlrqrtla 45
                             +i +  +kGG Gk+t ++h+a+aL+++G++   id d+ q  ++
  PHY93_19505|PHY93_19505  4 IISVIAQKGGVGKTTSTIHIATALANMGFKTLIIDWDTSQGNST 47
                             6778889*******************************997665 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.098
                              HHHHH-SEEEEE--SS--HHHHHHHHT-SEEEEEEESSHHHHCCCEEE-SSS--EEE CS
                     MipZ  95 dleaeldfividtPGsdsalsrlahsladtlvtPlndsfvdfdllgkvdpetlkvkr 151
                              d  +++ f++id   +    + ++   +d ++tP+  +   +  +g+  +++lkvk+
  PHY93_19505|PHY93_19505 124 DEIQDFQFVLIDNTPKLGIETVSSLIASDYFITPVQMTDFSLGSIGQTISTALKVKK 180
                              3346677899997777777777788889******98666666668887777777776 PP

>> Fer4_NifH  4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.4   0.5   7.8e-08   0.00014       5      67 ..       8      74 ..       3      84 .. 0.80
   2 ?    0.5   0.0      0.18   3.3e+02     169     246 ..     181     265 ..     149     273 .. 0.65

  Alignments for each domain:
  == domain 1  score: 21.4 bits;  conditional E-value: 7.8e-08
                Fer4_NifH  5 iyGkGGiGksttsqnlsaalaemgkkvlivGCDPka.D...strlllggkaqetvldtlrekgaved 67
                             i  kGG+Gk+t++  +++ala+mg k li+  D  + +   st   l++k+q+ + +++++ g+  +
  PHY93_19505|PHY93_19505  8 IAQKGGVGKTTSTIHIATALANMGFKTLIIDWDTSQgNstySTIGHLDSKNQKGICHIIANGGTLSE 74
                             567******************************8642411144455889********9999887644 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.18
                Fer4_NifH 169 aksggvrlgGliins..rkvdderelie...kfaeelgtkvle.vvPrdeivrkaelrkktvieyapese.qakeyrelarkile 246
                               ++++++  G+ + s   ++++ +e i    ++ ++ g+++++ ++P   +       ++t+++ ++ se   key +l +++l+
  PHY93_19505|PHY93_19505 181 GHNKDLEALGIFVSSsdNRINKSKEAIVelgEYCKKSGIHLFDsIIPIASKFAFLPRGQQTIFDVTKPSErGHKEYLKLTKEMLS 265
                              4444455555544331233555666554122566666777765357888888888888899999877766245789998887765 PP

>> ArsA_ATPase  Anion-transporting ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.6   0.8   5.9e-08   0.00011       6      39 ..       8      41 ..       3     141 .. 0.79

  Alignments for each domain:
  == domain 1  score: 21.6 bits;  conditional E-value: 5.9e-08
                             EEESTTSSHHHHHHHHHHHHHHTTS-EEEEE-ST CS
              ArsA_ATPase  6 vgGKGGVGKttvsaatavklsekgkkvllistDP 39
                             ++ KGGVGKtt+   +a+ l+++g k+l+i  D 
  PHY93_19505|PHY93_19505  8 IAQKGGVGKTTSTIHIATALANMGFKTLIIDWDT 41
                             677***************************8885 PP

>> VirC1  VirC1 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.2   0.0   4.6e-05     0.082       3      42 ..       4      43 ..       2      67 .. 0.86
   2 !    4.7   0.0    0.0088        16      75     166 ..     120     211 ..     111     247 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 4.6e-05
                    VirC1  3 litfcslkGGaGkttalmglcsalasdgkrvalfeadenr 42
                             +i++ + kGG Gktt+ + + +ala+ g +  + + d  +
  PHY93_19505|PHY93_19505  4 IISVIAQKGGVGKTTSTIHIATALANMGFKTLIIDWDTSQ 43
                             6888999*******************99988888877665 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.0088
                    VirC1  75 ayeeaegeGfdyalad.trgGsselnntiiassdllliPtmltpldidealatyryvielllaeelaipvailrqrvPvrrltssq 159
                                e+ e + f+++l+d t + + e  + +ias d+++ P  +t + + +  +t      +  + + ++++  +      +r++ s+
  PHY93_19505|PHY93_19505 120 ISENDEIQDFQFVLIDnTPKLGIETVSSLIAS-DYFITPVQMTDFSLGSIGQTISTALKVKKGHNKDLEALGIFVSSSDNRINKSK 204
                              55788999999999983556677888888885.88899***********9999999999999999999988888888889999999 PP

                    VirC1 160 rlisdll 166
                              + i++l 
  PHY93_19505|PHY93_19505 205 EAIVELG 211
                              9988875 PP

>> Phage_endo_I  Phage endonuclease I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.0   8.2e-06     0.015      87     128 ..     185     229 ..     173     235 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 8.2e-06
                              TSEEE.EEES-TTSBSSTT-S..SBHHHHHHHCT-EEEESS--HH CS
             Phage_endo_I  87 eldir.lvfsssrtklykgsp..ttyaewceknGikfadkliPve 128
                              +l+   +  sss  +++k  +     +e+c+k Gi+  d +iP++
  PHY93_19505|PHY93_19505 185 DLEALgIFVSSSDNRINKSKEaiVELGEYCKKSGIHLFDSIIPIA 229
                              56644145588899999876511578*****************86 PP

>> CBP_BcsQ  Cellulose biosynthesis protein BcsQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   1.5e-05     0.026       8     127 ..       9     140 ..       2     163 .. 0.61
   2 ?   -3.1   0.0       2.5   4.5e+03      71      97 ..     224     250 ..     219     266 .. 0.69

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.5e-05
                 CBP_BcsQ   8 GvRGGvGttsllaaLawalhelgesvlviDlspd..n.lLrlhFnvdieqregwaraeldgapwrqaaley.apgldllPfGelnv 89 
                                +GGvG+t+ +  +a+al ++g + l+iD  ++  n    +  ++d ++++g  +  ++g  +++  ++  +p+l ++P   + +
  PHY93_19505|PHY93_19505   9 AQKGGVGKTTSTIHIATALANMGFKTLIIDWDTSqgNsTYSTIGHLDSKNQKGICHIIANGGTLSEVLCKTkTPNLFIIPSEVTDS 94 
                              568**************************975541131445555677888888888888888888877765257788888665544 PP

                 CBP_BcsQ  90 eek.enlqqlaekae.allaalkelk......eqyrwillDlpaga 127
                                +  +++++ ++ + +  + lkel       ++++++l+D   + 
  PHY93_19505|PHY93_19505  95 RGNaYSIESTLTQLGiEGYTLLKELIsendeiQDFQFVLIDNTPKL 140
                              3330234443333221112222222223345666777777755544 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 2.5
                 CBP_BcsQ  71 aaleyapgldllPfGelnveekenlqq 97 
                              +++ +a+++++lP G+ +  + ++ ++
  PHY93_19505|PHY93_19505 224 SIIPIASKFAFLPRGQQTIFDVTKPSE 250
                              566677888899999888777665544 PP

>> CLP1_P  mRNA cleavage and polyadenylation factor CLP1 P-loop
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00013      0.23       4      39 ..      13      48 ..      11      53 .. 0.92
   2 ?   -2.5   0.0       2.1   3.7e+03      77      98 ..     253     273 ..     241     280 .. 0.65

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00013
                   CLP1_P  4 dsGKSTlarlLlNyalrkgrkpvyvDlDvGqseisp 39
                              +GK+T +  ++  ++++g k++++D D  q++ ++
  PHY93_19505|PHY93_19505 13 GVGKTTSTIHIATALANMGFKTLIIDWDTSQGNSTY 48
                             59*****************************99776 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 2.1
                   CLP1_P  77 pslylalvkelareveekleen 98 
                               ++yl+l+ke+++++   le+ 
  PHY93_19505|PHY93_19505 253 HKEYLKLTKEMLSRMI-ALEKA 273
                              4589999999988877.44444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (285 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       489  (0.0272742); expected 358.6 (0.02)
Passed bias filter:                      404  (0.0225333); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 2136.21
//
Query:       PHY93_19510|PHY93_19510  [L=75]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (75 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       629  (0.0350828); expected 358.6 (0.02)
Passed bias filter:                      453  (0.0252663); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.36u 0.22s 00:00:00.57 Elapsed: 00:00:00.36
# Mc/sec: 620.95
//
Query:       PHY93_19515|PHY93_19515  [L=68]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (68 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       328  (0.0182944); expected 358.6 (0.02)
Passed bias filter:                      287  (0.0160076); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.31u 0.25s 00:00:00.56 Elapsed: 00:00:00.36
# Mc/sec: 570.01
//
Query:       PHY93_16845|PHY93_16845  [L=223]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    8.3e-08   32.5   2.5    1.3e-07   31.9   2.5    1.3  1  PilO        Pilus assembly protein, PilO
  ------ inclusion threshold ------
      0.013   15.3   0.0      0.029   14.1   0.0    1.6  1  DASH_Duo1   DASH complex subunit Duo1
      0.033   14.2   0.7      0.058   13.4   0.7    1.4  1  Laminin_II  Laminin Domain II
      0.076   13.0   0.2       0.19   11.7   0.1    1.7  2  DUF3854     Domain of unknown function (DUF3854)


Domain annotation for each model (and alignments):
>> PilO  Pilus assembly protein, PilO
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.9   2.5   2.8e-11   1.3e-07       4     145 ..      38     184 ..      35     185 .. 0.88

  Alignments for each domain:
  == domain 1  score: 31.9 bits;  conditional E-value: 2.8e-11
                     PilO   4 aeakekeLkkefeekkeka...anLeklkkqleeleeeleellkqLPskkeipsLLedinqaglksgLefelfkpgaevekefyae 86 
                              +e +++ L+k  ++kk +    +++++ k ++e++ +e+e   + LPs+    + ++ + +++ + +++  ++ p +  ++ fy+ 
  PHY93_16845|PHY93_16845  38 QEIHRQALQKARKTKKDISafyKDIDEAKGRIERVAREIERTQQLLPSEVSDTENISLLRRMAEDVNIKELSIMPDKDDDRGFYIA 123
                              5556667777777666665222689*************************99999******************************* PP

                     PilO  87 lPikievtGsYhdigaFvsavakLpRIvtledlklkkakeen..ekstLklsvtakTYryl 145
                                 k + + +Y ++  +++++++ +RI+++++l++kk ++ +  + + ++ ++t++ Y y+
  PHY93_16845|PHY93_16845 124 RKYKFRAKATYLQFLIMFEKISENKRILNVSELSFKKLEQPQrsKFQLIDGEFTLEAYHYN 184
                              ***********************************99887765467888999999999996 PP

>> DASH_Duo1  DASH complex subunit Duo1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   6.4e-06     0.029       5      44 ..      44      83 ..      42      85 .. 0.90

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 6.4e-06
                DASH_Duo1  5 EleqLrkinevienviesLkkaksniervketvestntLL 44
                              l++ rk  + i+++ +++++ak+ ierv++ +e t++LL
  PHY93_16845|PHY93_16845 44 ALQKARKTKKDISAFYKDIDEAKGRIERVAREIERTQQLL 83
                             57778889999****************************9 PP

>> Laminin_II  Laminin Domain II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.7   1.3e-05     0.058       4      62 ..      40     101 ..      37     111 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 1.3e-05
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX...XXXXXXXXXXXXXX CS
               Laminin_II   4 laaeanetakevleqlaplsqnlentkeklseinrsveetnekvk...dankairdArrsvk 62 
                              + ++a+++a ++++++ +  +++++ k  +++++r++e+t++++    + ++ i + rr   
  PHY93_16845|PHY93_16845  40 IHRQALQKARKTKKDISAFYKDIDEAKGRIERVAREIERTQQLLPsevSDTENISLLRRMAE 101
                              5689**************************************99744445555555555555 PP

>> DUF3854  Domain of unknown function (DUF3854)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.1   4.3e-05      0.19      34     111 ..      16      95 ..       4     102 .. 0.79
   2 ?   -2.4   0.0      0.99   4.4e+03      71      90 ..     136     155 ..     130     172 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 4.3e-05
                  DUF3854  34 alpGvtngyreekdeegekiekkkli.peleklakegreiliaF.DqDtkpktiknVraaikrlgklleergckvkvikw 111
                              al  + + y+e +d+ +e i++++ + + l+k  k+++ i   + D D+++  i++V ++i+r+++ll ++ + ++ i++
  PHY93_16845|PHY93_16845  16 ALFNIGMYYKEVDDKISEIIGQQEIHrQALQKARKTKKDISAFYkDIDEAKGRIERVAREIERTQQLLPSEVSDTENISL 95 
                              56677788888899999999999655155777777777665444599999******************999998888876 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 0.99
                  DUF3854  71 eiliaFDqDtkpktiknVra 90 
                              ++li+F + +++k i nV++
  PHY93_16845|PHY93_16845 136 QFLIMFEKISENKRILNVSE 155
                              67888888888888888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (223 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1206  (0.0672653); expected 358.6 (0.02)
Passed bias filter:                      491  (0.0273858); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 1635.67
//
Query:       PHY93_19520|PHY93_19520  [L=114]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (114 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       184  (0.0102627); expected 358.6 (0.02)
Passed bias filter:                      158  (0.00881254); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.20s 00:00:00.59 Elapsed: 00:00:00.38
# Mc/sec: 897.69
//
Query:       PHY93_19525|PHY93_19525  [L=174]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.2e-08   35.1   0.0    1.8e-08   34.5   0.0    1.3  1  RimM      RimM N-terminal domain
  ------ inclusion threshold ------
      0.018   15.1   2.6      0.018   15.1   2.6    1.9  2  PRC       PRC-barrel domain


Domain annotation for each model (and alignments):
>> RimM  RimM N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.5   0.0     2e-12   1.8e-08       2      83 ..       9      95 ..       8      96 .. 0.76

  Alignments for each domain:
  == domain 1  score: 34.5 bits;  conditional E-value: 2e-12
                             EEEEEEEETTTTEEEEEE-SSSGGGGGGSSSEEEE..........ETTEEEEE-EEEEEEE.TTEEEEEETT--SHHHHHTTTT-EEE CS
                     RimM  2 vGkIvgahGlkGevkVkpftdfpealfkygrvlle.........akkgetreltvesvrvh.kkgvivklegvddrdaAealkgaelf 79
                             +G  + +hG+kGe    ++  +   +++ g ++           +++g  + +++++  ++ +++ iv+legv+dr+ +ea++ ++++
  PHY93_19525|PHY93_19525  9 IGHCTTPHGIKGEFSFVLYNPEDS-VLDDGALVSLlprstsssvPQDG--KYFKIKK--INiGNKAIVTLEGVNDRNTVEAMVPFDIY 91
                             788899************977666.55555555555887554332222..2377777..4459************************* PP

                             EETT CS
                     RimM 80 vprs 83
                              +r+
  PHY93_19525|PHY93_19525 92 FDRK 95
                             9996 PP

>> PRC  PRC-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0      0.96   8.6e+03      62      71 ..      62      71 ..      53      74 .. 0.68
   2 ?   15.1   2.6     2e-06     0.018       1      73 [.     102     170 ..     102     173 .. 0.72

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 0.96
                             CEECCCTEEE CS
                      PRC 62 avkigkdrii 71
                              ++ig+++i+
  PHY93_19525|PHY93_19525 62 KINIGNKAIV 71
                             6777777776 PP

  == domain 2  score: 15.1 bits;  conditional E-value: 2e-06
                              XEECCS---TT-EEEETT.SSEEEEEEEEEEETTTTEEEEEEEEETTT.....-EEEEEGG..CEECCCTEEEET CS
                      PRC   1 edefrasdliGkeVyted.GeklGkVkDvvidekegrvralvvsvggflgigekevliPfd.lavkigkdriivd 73 
                              e+e++++dl G+eV++    + +G+V D+  + + + v+ ++ +         + ++i+   ++v+i+++ri v 
  PHY93_19525|PHY93_19525 102 EGEYYLNDLLGLEVFDFItKKSIGRVIDF-YENGVQVVLRIKMENE-V----IELLFIDQYvPEVDIDNGRIEVI 170
                              579*************9989********9.5544555555555443.2....25555555578888888888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (174 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       327  (0.0182386); expected 358.6 (0.02)
Passed bias filter:                      255  (0.0142228); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.40u 0.23s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 1341.52
//
Query:       PHY93_19530|PHY93_19530  [L=245]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    8.7e-46  156.1   0.0    1.1e-45  155.8   0.0    1.1  1  tRNA_m1G_MT  tRNA (Guanine-1)-methyltransferase
  ------ inclusion threshold ------
       0.15   12.0   0.0       0.28   11.2   0.0    1.4  1  SPOUT_MTase  Predicted SPOUT methyltransferase


Domain annotation for each model (and alignments):
>> tRNA_m1G_MT  tRNA (Guanine-1)-methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  155.8   0.0   1.2e-49   1.1e-45      11     195 .]      36     238 ..      30     238 .. 0.92

  Alignments for each domain:
  == domain 1  score: 155.8 bits;  conditional E-value: 1.2e-49
                              HHHHHHHHHHHHHHCSSCEEEEEEETSSHHHHHHHHHHHCCGH.........HC.GG-TTEEEESSCGGHHHHCCCHHHCGG.... CS
              tRNA_m1G_MT  11 slevqllrdytanrrntvddelygggagmvlkaepelealesv.........nt.ekwkvilltptGkkftqelaeeLseke.... 82 
                              +++ + lr+yt + ++ vdd +ygggagmv+ a    eal +           +  k +vi++ p Gk  +   + + +++     
  PHY93_19530|PHY93_19530  36 EVKTVQLRNYTPKDYKGVDDSPYGGGAGMVMRADVLKEALMKGivqegnygeDFkSKLHVIFPGPRGKTWNNSYCKDFASRFskqd 121
                              788999*******************************999887789996655226799**********998887777665444445 PP

                              ..GEEEEETTTSSBECCGGTTSSE.EEEEESSSSTTCSTTHHHHHHHHHHHHTTTC..EEB-S-CCC...CHCTS..CTTSEHHTE CS
              tRNA_m1G_MT  83 ..klvylcgdyegvdervdddkvd.eysIGdfVlkggekgalvlidavkrllaGvl.ntaslpedsfsnrllekpnytrpltlrgl 164
                                 lv++cg+yeg+der+ + +vd  +sIGd++l+gge++++++id++ r   Gvl n++s  ++sf+++lle+p+ytrp++++ +
  PHY93_19530|PHY93_19530 122 skDLVFICGRYEGIDERFLNLYVDeQISIGDYILTGGEIPTMAIIDSSLRFFTGVLgNKESSMQESFQANLLEHPQYTRPKNFDEI 207
                              889*********************9************************************************************* PP

                              HHHHHHHHHCCCTTTHHHHHHHHHHHSCSXS CS
              tRNA_m1G_MT 165 kVpeiLlsgnhakienWrlkealertvprRk 195
                              +VpeiLlsg+h +ie+++++e+l+ t+  R+
  PHY93_19530|PHY93_19530 208 DVPEILLSGHHLNIEKYQKEESLRVTKLHRP 238
                              ***************************9997 PP

>> SPOUT_MTase  Predicted SPOUT methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   3.1e-05      0.28      63     128 ..      89     155 ..      67     158 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 3.1e-05
                              ..TT-EEEEE-TTSEE--HHHHHHHHHHHHHHT-.-EEEEE--TT---GGGGGG.-SEEEE--SS-- CS
              SPOUT_MTase  63 lkkkayvillderGkelsSeelakkleklaeegkselvfvIGGsdGlseevkkr.adeklslsklTf 128
                              +k+k +vi    rGk+++     +  ++ +++ +++lvf+ G  +G++e++++  +de++s+++  +
  PHY93_19530|PHY93_19530  89 FKSKLHVIFPGPRGKTWNNSYCKDFASRFSKQDSKDLVFICGRYEGIDERFLNLyVDEQISIGDYIL 155
                              66777888888999999987777777777777888****************9984699999998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (245 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       349  (0.0194657); expected 358.6 (0.02)
Passed bias filter:                      331  (0.0184617); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.36
# Mc/sec: 2025.49
//
Query:       PHY93_19535|PHY93_19535  [L=184]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.2e-67  226.4   0.0    2.5e-67  226.3   0.0    1.0  1  Methyltrn_RNA_4  SAM-dependent RNA methyltransferase
     0.0016   18.7   0.0     0.0069   16.6   0.0    1.8  1  SpoU_methylase   SpoU rRNA Methylase family
  ------ inclusion threshold ------
       0.11   12.4   0.0        8.7    6.4   0.0    2.2  2  DUF411           Protein of unknown function, DUF


Domain annotation for each model (and alignments):
>> Methyltrn_RNA_4  SAM-dependent RNA methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  226.3   0.0   4.2e-71   2.5e-67       1     181 [.       2     184 .]       2     184 .] 0.98

  Alignments for each domain:
  == domain 1  score: 226.3 bits;  conditional E-value: 4.2e-71
                              SEEEEEE-SSEE-TT-SEE-----HHHHHHHHHHHHHTT-SEEEEE---HHHHHHHHHHHHHHHTSGGGGT-SSSHHHHTTEEEES CS
          Methyltrn_RNA_4   1 nlyvalvHyPvlnkegevvatsvtnlDlhDiaRsartygvkkyyvvtpleaqrelverilehWtegagaeynpdRkealslvkvve 86 
                              +ly+ lvH+P++nk ge+v+tsvtnlD+hDi+Rs+rt+gv+ky++vtp+ aqrelv++il hW++++ +++npdR++als+ ++v+
  PHY93_19535|PHY93_19535   2 KLYLGLVHHPIINKLGELVTTSVTNLDIHDISRSCRTFGVQKYFIVTPFVAQRELVDSILGHWEQDKANAFNPDRQNALSIARAVD 87 
                              589*********************************************************************************** PP

                              SHHHHHHHHHHHHSS--EEEE--SS--SS-B-HHHHHHHHHH--S-EEEEE--TT---HHHHTT-SEEB--TTTTSS..-----HH CS
          Methyltrn_RNA_4  87 sleealeeiekeegkkplvvatsArkkentvsyeelrelleeeekpvlllfGtgwGlaeevlekadyiLepirgase..ynHLsvr 170
                              s+e+a++ei+k eg+ p++ +t A+  +   ++++l +++e ++ p++llfGtgwGl++ +lekad+ L+pi  +s+  ynHLsvr
  PHY93_19535|PHY93_19535  88 SIETAIAEITKIEGQAPMIAVTGANFDSFDGDVSQLTKKIEGSNMPCFLLFGTGWGLHPIALEKADFRLSPIISKSSdgYNHLSVR 173
                              ************************************************************************8885556******* PP

                              HHHHHHHHHHT CS
          Methyltrn_RNA_4 171 sAvaiilDRll 181
                              sAvai+lDR++
  PHY93_19535|PHY93_19535 174 SAVAIYLDRMF 184
                              *********96 PP

>> SpoU_methylase  SpoU rRNA Methylase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   1.2e-06    0.0069      18     141 ..      32     180 ..      27     181 .. 0.59

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 1.2e-06
                              HHHHHHHTT-SEEEEESG........SSC..TCGSHHHHHHCTTHHHHHH.EEEESSHHHHHHHHCCC.T.EEEEEEST.T-SEGC CS
           SpoU_methylase  18 iaRtakafgaselvlvkp........rsa..dllnpeakraaagalevle.lkvvdsleealkelkee.g.falvatsl.kgksls 89 
                              i R++++fg+++ ++v p        +s   +  +++a ++  + ++ l  ++ vds+e a++e+++  g   ++a+++ + +s++
  PHY93_19535|PHY93_19535  32 ISRSCRTFGVQKYFIVTPfvaqrelvDSIlgHWEQDKANAFNPDRQNALSiARAVDSIETAIAEITKIeGqAPMIAVTGaNFDSFD 117
                              89**************9844332222111111234445555555566666555566666666665544222334444443333222 PP

                              .CSHHH..........TTEEEEEEBTTTBS-HHHHCTSSEEEE.---..-TTSSS--HHHHHHHHH CS
           SpoU_methylase  90 .eidlk..........ekvalvfGnEdkGlsnelleladrlvk.Ipm..sgeveSLNvavAvaill 141
                               ++  +           +++l+fG+ ++Gl++ +le+ad  ++ I    s  ++ L v  Avai l
  PHY93_19535|PHY93_19535 118 gDV--SqltkkiegsnMPCFLLFGT-GWGLHPIALEKADFRLSpIISksSDGYNHLSVRSAVAIYL 180
                              322..133455668889********.6************655424222356677777888888765 PP

>> DUF411  Protein of unknown function, DUF
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   0.0    0.0092        55      14      35 ..      25      46 ..      18      49 .. 0.86
   2 ?    6.4   0.0    0.0014       8.7      13      44 ..      77     108 ..      65     111 .. 0.86

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.0092
                   DUF411 14 kklgvpeelaSchtavvggyvi 35
                             ++l + +  +Sc t  v++y+i
  PHY93_19535|PHY93_19535 25 TNLDIHDISRSCRTFGVQKYFI 46
                             567888999***********98 PP

  == domain 2  score: 6.4 bits;  conditional E-value: 0.0014
                   DUF411  13 kkklgvpeelaSchtavvggyvieGHVPaadi 44 
                              ++ l +++++ S  ta+ +   ieG  P+ ++
  PHY93_19535|PHY93_19535  77 QNALSIARAVDSIETAIAEITKIEGQAPMIAV 108
                              567899*********************99776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (184 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       337  (0.0187964); expected 358.6 (0.02)
Passed bias filter:                      327  (0.0182386); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1415.42
//
Query:       PHY93_19540|PHY93_19540  [L=119]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    7.9e-42  141.7   1.3    9.5e-42  141.4   1.3    1.0  1  Ribosomal_L19  Ribosomal protein L19


Domain annotation for each model (and alignments):
>> Ribosomal_L19  Ribosomal protein L19
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  141.4   1.3   5.3e-46   9.5e-42       2     108 ..       3     113 ..       2     115 .. 0.92

  Alignments for each domain:
  == domain 1  score: 141.4 bits;  conditional E-value: 5.3e-46
            Ribosomal_L19   2 likeiekeql...kkdlpefkvGdtvkVkvkikegkkeRiqafeGvviarkgkg.isetftvRkisegvgvervfplhspkiekie 83 
                              li+ +++++l    k+lp+fk+Gdt+ V++ki+eg k+Riq+feGvvia k+kg i+ +f vRk+s+g+gvervfp+hsp+++k+ 
  PHY93_19540|PHY93_19540   3 LIDVVNQDHLnpkVKSLPAFKSGDTIAVHTKITEGAKSRIQIFEGVVIAFKQKGdINGHFRVRKVSNGIGVERVFPFHSPNVDKVV 88 
                              66777777763334679********************************9998879****************************** PP

            Ribosomal_L19  84 vvrrgkvrrakLyYLrelkgkaari 108
                              +v++gk r+akLyYLre++gk+ari
  PHY93_19540|PHY93_19540  89 IVQKGKARKAKLYYLRERSGKSARI 113
                              ************************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (119 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       409  (0.0228122); expected 358.6 (0.02)
Passed bias filter:                      332  (0.0185175); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.37
# Mc/sec: 972.77
//
Query:       PHY93_19545|PHY93_19545  [L=247]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    2.5e-30  105.8   0.0    3.3e-30  105.4   0.0    1.1  1  RNase_HII  Ribonuclease HII


Domain annotation for each model (and alignments):
>> RNase_HII  Ribonuclease HII
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  105.4   0.0   1.8e-34   3.3e-30       1     196 [.      28     239 ..      28     241 .. 0.79

  Alignments for each domain:
  == domain 1  score: 105.4 bits;  conditional E-value: 1.8e-34
                              EEEEEE-TT-SBS-EEEEEEEE.....CGHHHH.HHHC...TTGTTGTTS-HHHHHHHHHHHH........SEEEEEEE-HHH... CS
                RNase_HII   1 iGiDEaGrGpvlGplvvaavav.....ekeree.elkk...lgvkDSKkLskqkreeLaklik........kkiekrklvaee... 66 
                              +G+DE+GrGp++Gp+v+a v +     ++++    lk+    g++DSKkL+++kr+ + +  +        ++i ++  ++++   
  PHY93_19545|PHY93_19545  28 AGTDEVGRGPLAGPVVAASVSLhfglyDEKELRkLLKEwkiFGINDSKKLTSEKRQGILSDFPfsksqmtvNQIYTHRYSKNMsln 113
                              69****************9976222223333332333233369*************************888444444444444111 PP

                              ..HH.HHTTTS-HHHHHHHHHHHHHHHHHHT..CEECCECCCE--SS..HHHHHHHHHHHHCCEEEEETTGGGT-HHHHHHHHHHH CS
                RNase_HII  67 ..ikyaseneinlneikaaltlavikllekl..gvkvdeilvdgvtt..peslkkkleqiikikvtvekkadekyllvaaASiiAk 146
                                ik+ s ++i+ ++i  a+++a+++++ ++    ++  +l+dg+++   es +  l  +i+        +d+k+ll+ +ASiiAk
  PHY93_19545|PHY93_19545 114 vlIKEISPQTIDEINILNASLKAMKEAVTEScnFSMPGLVLIDGNKKfiSESTSVVLVPVIQ--------GDSKSLLIGMASIIAK 191
                              1145588899******************9995447899*****9988555555555555555........**************** PP

                              HHHH.HHHHHHHHHCS.H.--TTSSTTSHHHHHHHHHHHHHS--TTB-TTSH CS
                RNase_HII 147 verd.eelellkrkpg.tldkgsGyasdektrallkkgatsklpdivrlsfk 196
                                rd +++++ ++ pg ++++++Gy+++++ +a+   g+t+    i+r  f 
  PHY93_19545|PHY93_19545 192 EYRDqLMTRYGEQYPGyHWKSNAGYGTAKHLEAISLLGITE----IHRKTFR 239
                              ****99999999999*************************9....9988885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (247 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       597  (0.033298); expected 358.6 (0.02)
Passed bias filter:                      455  (0.0253779); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1819.29
//
Query:       PHY93_19550|PHY93_19550  [L=95]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.14   12.1   0.0       0.21   11.6   0.0    1.3  1  ComX      Bacillus competence pheromone ComX


Domain annotation for each model (and alignments):
>> ComX  Bacillus competence pheromone ComX
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   1.2e-05      0.21      16      54 ..      29      65 ..      23      67 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 1.2e-05
                     ComX 16 leklqeGklsLvGlsetEqkailDVfqeeksdelkklsy 54
                             l  l +G++ ++Gls+  q+ +l  f+ ++s+   +++y
  PHY93_19550|PHY93_19550 29 LRSLNAGQIDMAGLSKKNQSWVLSLFEVKSSQY--PSAY 65
                             667899********************9999866..7666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (95 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       393  (0.0219198); expected 358.6 (0.02)
Passed bias filter:                      298  (0.0166211); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.22s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 726.22
//
Query:       PHY93_19555|PHY93_19555  [L=120]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.024   15.0   0.2      0.024   15.0   0.2    2.1  2  Romo1     Reactive mitochondrial oxygen species modulator 1


Domain annotation for each model (and alignments):
>> Romo1  Reactive mitochondrial oxygen species modulator 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   2.5      0.13   2.3e+03      17      28 ..      15      26 ..       6      39 .. 0.53
   2 ?   15.0   0.2   1.3e-06     0.024      13      40 ..      39      66 ..      33      71 .. 0.90

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.13
                    Romo1 17 GlaiGllfGtfs 28
                             G++ G+l+G ++
  PHY93_19555|PHY93_19555 15 GIVGGALLGAAT 26
                             233333333332 PP

  == domain 2  score: 15.0 bits;  conditional E-value: 1.3e-06
                    Romo1 13 GaaVGlaiGllfGtfsalryglrgrgll 40
                             Ga +Gl  Gl+fG++ +l+y + +rg+ 
  PHY93_19555|PHY93_19555 39 GASLGLYGGLIFGSYVILSYEMKKRGFN 66
                             99**********************9985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (120 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       367  (0.0204696); expected 358.6 (0.02)
Passed bias filter:                      253  (0.0141112); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.20s 00:00:00.59 Elapsed: 00:00:00.36
# Mc/sec: 1002.82
//
Query:       PHY93_19560|PHY93_19560  [L=126]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.2e-11   44.3   0.1    1.4e-11   44.0   0.1    1.1  1  STAS      STAS domain
    1.2e-08   35.1   0.0    1.5e-08   34.8   0.0    1.1  1  STAS_2    STAS domain


Domain annotation for each model (and alignments):
>> STAS  STAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.0   0.1   1.6e-15   1.4e-11       7     104 ..      11     100 ..       6     109 .. 0.94

  Alignments for each domain:
  == domain 1  score: 44.0 bits;  conditional E-value: 1.6e-15
                              CTTEEEEEEEEEESHHHHHHHHHHHHHHHHCCC........-SEEEEEEEEEEEE-HHHHHHHHHHHHHHHHTT-EEEEES--HHH CS
                     STAS   7 iegililrldgpidfanaesfkeklkravgeepervekkeslkslildlsavsfiDssGvraLkeilkelkrigvevvlvnikpev 92 
                               +g + ++++g +d+ n+  ++ +l + ++++p         +++ ld+  ++f+ ssG++ ++e+l+ l++++ ++ l+n+k e+
  PHY93_19560|PHY93_19560  11 SQGNITVHMNGGLDYENSLPLRVELQELTQKNP--------ASTITLDMHSLDFVGSSGIGIFVETLQILNKNKSQIKLSNVKTEF 88 
                              678889**************************8........9******************************************** PP

                              HHHHHHTTCGGC CS
                     STAS  93 reklektgffde 104
                               + ++ ++f+ +
  PHY93_19560|PHY93_19560  89 MKVFKLYNFDAF 100
                              ********9975 PP

>> STAS_2  STAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.8   0.0   1.7e-12   1.5e-08       2      80 .]      18      98 ..      17      98 .. 0.93

  Alignments for each domain:
  == domain 1  score: 34.8 bits;  conditional E-value: 1.7e-12
                   STAS_2  2 sLsGeldldtaaelreqlleal.aag..aevvvDlsgvervDsaalalLlalartarargrrlvlrglppalrrlldlyGld 80
                             +  G ld+++  +lr +l+e+  +    +++++D++ + +v s++++ +++    + + ++++ l+++  ++ +++ ly++d
  PHY93_19560|PHY93_19560 18 HMNGGLDYENSLPLRVELQELTqK-NpaSTITLDMHSLDFVGSSGIGIFVETLQILNKNKSQIKLSNVKTEFMKVFKLYNFD 98
                             66799****************963.3369**************************************************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (126 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       773  (0.0431145); expected 358.6 (0.02)
Passed bias filter:                      429  (0.0239277); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.39u 0.19s 00:00:00.58 Elapsed: 00:00:00.35
# Mc/sec: 1070.49
//
Query:       PHY93_19565|PHY93_19565  [L=276]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.5e-21   75.5   0.0    7.5e-21   75.0   0.0    1.2  1  TP_methylase  Tetrapyrrole (Corrin/Porphyrin) Methylases


Domain annotation for each model (and alignments):
>> TP_methylase  Tetrapyrrole (Corrin/Porphyrin) Methylases
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   75.0   0.0   4.2e-25   7.5e-21       2     208 ..       4     200 ..       3     205 .. 0.87

  Alignments for each domain:
  == domain 1  score: 75.0 bits;  conditional E-value: 4.2e-25
             TP_methylase   2 lylVGvGpGdpellTvrAlralktadvvlgddsraleilldllaeeleleapmgkekepleeayeeiaealaealragkdVvllv. 86 
                              l+l+ +++G+ +++T+rAl++lk+ ++ +++d+r+ + ll  l    e+ +++++  ++  e+ e   ++++e+ ++g ++ l++ 
  PHY93_19565|PHY93_19565   4 LTLITLPIGNIKDITLRALETLKSGEHFYAEDTRVFKNLLGTL----EIDFSDKHI-DSFHEHSEGKIKIITEKIKSGTTIYLVSd 84 
                              789999**************************88888887666....567777777.45556666677777*******9999999* PP

             TP_methylase  87 sGDPlvygtgselvealrareagieveviPGvsslqaaaarlgiplteggevlsvllpglakeeereleallangdtlvllkaprk 172
                              +G P++++++  l+++ r+  +gi++++iPGv+s+ +a   +g+p++ ++   +++ ++ ++e+++ + +l +  +t +++++p++
  PHY93_19565|PHY93_19565  85 AGSPMISDPAFPLLKKMRE--EGIDIKTIPGVTSVVTALELSGLPPQPFHFWGFIS-RS-KNERKDFFLELGQISGTHIFFESPHR 166
                              *******************..9**********************************.55.66788888899999***********8 PP

             TP_methylase 173 .laelaelLkealyddttpvavveragtedervvrgt 208
                               ++ +  +  +   +d  ++++++++++  e v+r+t
  PHY93_19565|PHY93_19565 167 iFETIDSFFGAL--PDG-ELIITRELTKIYESVYRVT 200
                              466666666666..556.9***************988 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (276 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       573  (0.0319594); expected 358.6 (0.02)
Passed bias filter:                      457  (0.0254894); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.42
# Mc/sec: 1973.50
//
Query:       PHY93_16850|PHY93_16850  [L=143]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      1e-06   28.7   0.1    1.3e-06   28.4   0.1    1.1  1  PilP      Pilus assembly protein, PilP


Domain annotation for each model (and alignments):
>> PilP  Pilus assembly protein, PilP
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.4   0.1   7.4e-11   1.3e-06      26     134 ..      18     129 ..      10     139 .. 0.80

  Alignments for each domain:
  == domain 1  score: 28.4 bits;  conditional E-value: 7.4e-11
                     PilP  26 yeafaYsaa..elrdPFkppkeeeeekkekakksslqpdlnrrkepLEkypLdsLkmvGtl.kkegklwalvrtpd...gkvyrvk 105
                              +++ +Y ++  +lrdPFk++ ++++ +++k+++s++    + + + +E+  ++s+++vG++  ke++ +a + + +   + vy +k
  PHY93_16850|PHY93_16850  18 FKSKTYLKNplDLRDPFKRRINKKKGQQQKTHESGF---YTNQPDRIEDKTVESIRIVGVMiGKERRAMAKIYQGKslgSAVYFIK 100
                              66666744422789******9999988776665555...45566789*************999999*****98865222579**** PP

                     PilP 106 vGnylGqnyGritkiteteielkEivpdg 134
                              +G  +G n  ++ +i    + l E +++ 
  PHY93_16850|PHY93_16850 101 EGMKIGPNGAEVKAILAGGVVLVEKIRNV 129
                              ************************99886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (143 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       447  (0.0249317); expected 358.6 (0.02)
Passed bias filter:                      343  (0.019131); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.19s 00:00:00.58 Elapsed: 00:00:00.36
# Mc/sec: 1205.35
//
Query:       PHY93_19570|PHY93_19570  [L=252]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      3e-17   62.8   0.0    3.8e-17   62.5   0.0    1.1  1  Lactamase_B_2  Beta-lactamase superfamily domain
    5.8e-11   42.1   1.0    4.6e-08   32.6   0.3    2.2  2  PDEase_II      cAMP phosphodiesterases class-II
    3.1e-09   37.1   0.3    1.1e-08   35.4   0.3    1.8  1  Lactamase_B    Metallo-beta-lactamase superfamily
    7.2e-05   22.3   0.0    0.00024   20.6   0.0    1.8  2  Lactamase_B_6  Metallo-beta-lactamase superfamily domain
  ------ inclusion threshold ------
      0.044   13.7   0.2       0.11   12.3   0.2    1.9  1  Lactamase_B_3  Beta-lactamase superfamily domain


Domain annotation for each model (and alignments):
>> Lactamase_B_2  Beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.5   0.0   1.1e-20   3.8e-17      26     190 ..      41     210 ..      26     221 .. 0.83

  Alignments for each domain:
  == domain 1  score: 62.5 bits;  conditional E-value: 1.1e-20
                              --..SEEEEE-SS--HHHHGGGGCCCC....C--EEEEEEEEHHHHHHCCTTCGHHHCHTT.........TTEEEEEE-TTSEEEE CS
            Lactamase_B_2  26 delppidaVllthaHyDHlaglltlre....lrpkklplyapkgvlavleanfvylaleee.........pavnvheldwgesfel 98 
                              +e + id +l++haH DH+ +l +l+     +++k +++ya+  + + +++++  +   ++         p++++h++ +++ +el
  PHY93_19570|PHY93_19570  41 EEQSNIDHILISHAHLDHISDLAFLADncfgMKGKPFEIYANSPIKDAIKTHLLNDIIWPDftmlpnkenPTLRFHDIRPETWIEL 126
                              44469**********************998555544******999999998865554444477777889***************** PP

                              CSTTEEEEEEEE-EE--CTCCE-TTTSEEEEEECTTEEEEEESS-S---..HHHHHHHCT-SEEEEE-S-SSTTHHHH.HHT---S CS
            Lactamase_B_2  99 gdggleitatparhksgrrldrnagdtlGlriegggkrvyyigDtgyip..eeigerlggadllllditayeddemir.hmgHltp 181
                              g  + +i ++p++h+ g          lG++ie+++ +v+++ Dtg +   +e ++++++++ ++ ++ + ++ +  + +  H tp
  PHY93_19570|PHY93_19570 127 G--DYRILPIPVNHQVGA---------LGFIIERKNTSVVFTQDTGPTNkiWEYANKIKNLKAIFSEVSFPNSLSKVAtDSQHHTP 201
                              9..578***********9.........**********************9999************999999988877787777777 PP

                              TSHHHHCTT CS
            Lactamase_B_2 182 eeaveaaad 190
                                + e +++
  PHY93_19570|PHY93_19570 202 ATMKEEIKK 210
                              666555555 PP

>> PDEase_II  cAMP phosphodiesterases class-II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.6   0.3   1.3e-11   4.6e-08      78     139 ..      43     104 ..      32     139 .. 0.84
   2 !    8.3   0.0   0.00031       1.1     231     261 ..     164     191 ..     146     216 .. 0.77

  Alignments for each domain:
  == domain 1  score: 32.6 bits;  conditional E-value: 1.3e-11
                              HHTEEEEE-S---GGGTHHHHHHGGG.GGS-S.--EEEEE-HHHHHHHHHHTBSSSSB--GGG CS
                PDEase_II  78 knniksylItHsHLDHvsglvinSae.fykaqlkkktivGlpytInalqkhlFNnkvWPnlps 139
                              + ni + lI+H+HLDH+s l     + f+  + k+  i+    + +a+++hl N+ +WP+++ 
  PHY93_19570|PHY93_19570  43 QSNIDHILISHAHLDHISDLAFLADNcFGM-KGKPFEIYANSPIKDAIKTHLLNDIIWPDFTM 104
                              4689999************97666551555.478999**999999***************875 PP

  == domain 2  score: 8.3 bits;  conditional E-value: 0.00031
                              HHHHHHHHHHS-GGGEEEEEEE--S-TT--H CS
                PDEase_II 231 lkiwkviaelIkrdkLkaIliEcStpkeipd 261
                               kiw++ +   k+++LkaI+ E S+p++  +
  PHY93_19570|PHY93_19570 164 NKIWEYAN---KIKNLKAIFSEVSFPNSLSK 191
                              68999999...8899***********98755 PP

>> Lactamase_B  Metallo-beta-lactamase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.4   0.3     3e-12   1.1e-08       6     161 ..      18     170 ..      14     196 .. 0.79

  Alignments for each domain:
  == domain 1  score: 35.4 bits;  conditional E-value: 3e-12
                              SEEEEEEETTCEEEES--SCHHHHHHHHHHHHHTSGGGGEEEEE-SBSSHHHHTTGGGCTTH.HCCEETCCEHHHHCCHCHHHHHH CS
              Lactamase_B   6 vnsyliegdggviLiDtGtsteaaraalelaalglkpkdvdavilTHlHlDHiGglgglvea.tdvpvgavaeeapalfmeeadda 90 
                              ++syli   +g +LiD+G+ ++  ++         ++ ++d+++++H+HlDHi++l+ l++  ++ +    +++a ++++++ ++ 
  PHY93_19570|PHY93_19570  18 ATSYLI---DGKLLIDAGSVASGIQI--------EEQSNIDHILISHAHLDHISDLAFLADNcFGMKGKPFEIYANSPIKDAIKTH 92 
                              578999...6***************8........59***********************998345555555666666666666555 PP

                              HHHCCHH.......TTCHCGCCEEEEETTTEECCCTEEEEEHECTTSTSCCEEEEEETTCCEEEECTTTSSHHCCCCC CS
              Lactamase_B  91 asrkgll.......lagvsadkpdvdeeeldgnaggrralyvtggpghghghgvveygggkvlftGDallagetgrid 161
                                 + ++        ++ +       + e+ +++g+ r l++++ +  g++++++e ++ +v+ft D+++++++++  
  PHY93_19570|PHY93_19570  93 LLNDIIWpdftmlpNKENPTLRFHDIRPETWIELGDYRILPIPVNHQVGALGFIIERKNTSVVFTQDTGPTNKIWEYA 170
                              555555577788987777777888888888888888899999999999999999999999999999999888877665 PP

>> Lactamase_B_6  Metallo-beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.6   0.0   6.7e-08   0.00024      33      83 ..      43      93 ..      23     121 .. 0.78
   2 ?   -1.2   0.0      0.31   1.1e+03     133     161 ..     131     159 ..     108     176 .. 0.83

  Alignments for each domain:
  == domain 1  score: 20.6 bits;  conditional E-value: 6.7e-08
            Lactamase_B_6 33 iptvdliLLshatlehlGayallyakfksklllnipvyatlpvvkLGrvsl 83
                              +++d+iL+sha l+h++ +a+l  +     ++  ++ya+ p++   ++ l
  PHY93_19570|PHY93_19570 43 QSNIDHILISHAHLDHISDLAFLADNCFGMKGKPFEIYANSPIKDAIKTHL 93
                             3579**********************99999***********987665555 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 0.31
            Lactamase_B_6 133 itaynaGhtlGGtiWkiskesekivYavd 161
                              i +    h +G+  + i+++  ++v+  d
  PHY93_19570|PHY93_19570 131 ILPIPVNHQVGALGFIIERKNTSVVFTQD 159
                              66777779999999999999999998766 PP

>> Lactamase_B_3  Beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.2   3.2e-05      0.11      18      51 ..      26      60 ..      18     166 .. 0.74

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 3.2e-05
            Lactamase_B_3 18 rilvDPfkanlgyeppa.eeaDlvlisqaledHah 51
                             ++l+D ++   g ++++  ++D +lis+a+ dH  
  PHY93_19570|PHY93_19570 26 KLLIDAGSVASGIQIEEqSNIDHILISHAHLDHIS 60
                             56777777755555544389*************86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (252 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       517  (0.028836); expected 358.6 (0.02)
Passed bias filter:                      473  (0.0263818); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.48u 0.26s 00:00:00.74 Elapsed: 00:00:00.42
# Mc/sec: 1818.99
//
Query:       PHY93_19575|PHY93_19575  [L=249]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (249 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       752  (0.0419432); expected 358.6 (0.02)
Passed bias filter:                      337  (0.0187964); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1862.74
//
Query:       PHY93_19580|PHY93_19580  [L=505]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    4.5e-08   33.3   1.1    5.8e-06   26.5   0.1    2.6  2  HTH_Tnp_1  Transposase
     0.0074   16.3   0.1      0.031   14.3   0.0    2.0  2  HTH_29     Winged helix-turn helix
  ------ inclusion threshold ------
      0.069   13.3   0.0       0.14   12.3   0.0    1.5  1  HTH_28     Helix-turn-helix domain


Domain annotation for each model (and alignments):
>> HTH_Tnp_1  Transposase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.5   0.1   9.7e-10   5.8e-06       4      65 ..       2      66 ..       1      71 [. 0.76
   2 !    8.7   0.3   0.00037       2.2       1      67 [.      52     122 ..      52     140 .. 0.72

  Alignments for each domain:
  == domain 1  score: 26.5 bits;  conditional E-value: 9.7e-10
                HTH_Tnp_1  4 rrrwsdefKariVres.lepgksvsevArrhgvspnqLykWrrqyregeeaspae..feltalee 65
                             +r  s efK++iV+     +g ++++  ++ g+++++ ++W++ y   +++ + +  + +t+le+
  PHY93_19580|PHY93_19580  2 KRQHSSEFKESIVQKItTPGGPTIVQMSEKTGIHYASIRRWVKNYANRSSMKKSKewTPVTKLEA 66
                             5899***********945557899*********************73333333333456666665 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 0.00037
                HTH_Tnp_1   1 mrrrrrwsdefKariV.reslepgksvsevArrhgvspnqLykWrrqyregeeaspae.....feltaleeen 67 
                              m++ + w++  K++++ + +  +     e  r  g++   L  W++     ++++pa      +el++l ++ 
  PHY93_19580|PHY93_19580  52 MKKSKEWTPVTKLEAIiKAATMTEQELGEFLRGNGLHSTELEEWKQDI-Y-SAQRPAGrpkldPELVELRAKE 122
                              789999******8765166699999*********************98.3.3333333233343333333333 PP

>> HTH_29  Winged helix-turn helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.3   0.0   5.2e-06     0.031      11      37 ..      21      47 ..      19      55 .. 0.91
   2 ?   -2.9   0.0       1.2   7.2e+03      17      39 ..     237     248 ..     233     256 .. 0.61

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 5.2e-06
                   HTH_29 11 GvstvsqiAkllglsrrtvyrwlkrfe 37
                             G++t+ q+ + +g+++ +++rw+k + 
  PHY93_19580|PHY93_19580 21 GGPTIVQMSEKTGIHYASIRRWVKNYA 47
                             5669********************986 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 1.2
                   HTH_29  17 qiAkllglsrrtvyrwlkrfeeg 39 
                                          ++r l++f+ +
  PHY93_19580|PHY93_19580 237 S-----------ICRQLRLFRHW 248
                              4...........45555555555 PP

>> HTH_28  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   2.3e-05      0.14      12      37 ..      21      47 ..       9      50 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 2.3e-05
                   HTH_28 12 Gh.svreaArelgisrrtvyrWikrye 37
                             G+ ++ + +++ gi++ +++rW+k y 
  PHY93_19580|PHY93_19580 21 GGpTIVQMSEKTGIHYASIRRWVKNYA 47
                             666888999***************996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (505 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       565  (0.0315132); expected 358.6 (0.02)
Passed bias filter:                      357  (0.0199119); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.54u 0.21s 00:00:00.75 Elapsed: 00:00:00.38
# Mc/sec: 3989.93
//
Query:       PHY93_19585|PHY93_19585  [L=65]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.3e-05   24.4   0.0    2.9e-05   24.1   0.0    1.1  1  HTH_7         Helix-turn-helix domain of resolvase
    0.00014   21.5   0.0    0.00019   21.1   0.0    1.1  1  UPF0175       Uncharacterised protein family (UPF0175)
    0.00018   21.2   0.0    0.00041   20.0   0.0    1.6  2  HTH_23        Homeodomain-like domain
    0.00041   20.3   0.8     0.0018   18.3   0.0    1.9  2  HTH_29        Winged helix-turn helix
    0.00064   18.8   0.0    0.00065   18.8   0.0    1.0  1  TnsD          Tn7-like transposition protein D
     0.0013   18.8   0.0     0.0017   18.4   0.0    1.2  1  HTH_AraC      Bacterial regulatory helix-turn-helix proteins,
  ------ inclusion threshold ------
      0.012   15.8   0.0      0.013   15.7   0.0    1.1  1  HTH_Tnp_1_2   Helix-turn-helix of insertion element transposa
      0.024   14.8   0.3       0.05   13.8   0.0    1.6  2  HTH_17        Helix-turn-helix domain
      0.028   14.7   0.0      0.034   14.5   0.0    1.2  1  ANT           Phage antirepressor protein KilAC domain
      0.036   13.6   0.0      0.053   13.1   0.0    1.3  1  HTH_24        Winged helix-turn-helix DNA-binding
      0.061   13.0   0.0      0.087   12.5   0.0    1.2  1  Sigma70_r4_2  Sigma-70, region 4
      0.063   13.2   0.0      0.089   12.8   0.0    1.3  1  HTH_11        HTH domain
       0.12   12.3   0.0       0.14   12.1   0.0    1.2  1  MarR_2        MarR family
       0.13   12.3   0.0       0.16   11.9   0.0    1.2  1  HTH_36        Helix-turn-helix domain


Domain annotation for each model (and alignments):
>> HTH_7  Helix-turn-helix domain of resolvase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.1   0.0   2.2e-08   2.9e-05       1      44 [.      15      59 ..      15      60 .. 0.97

  Alignments for each domain:
  == domain 1  score: 24.1 bits;  conditional E-value: 2.2e-08
                             S---SS-HHHHGGGGSSTTTT.--STTTSSSS---SSSS--SS-- CS
                    HTH_7  1 GRpsklskndinrvvkLleeG.isiskIAkevnisRsTvYRylad 44
                             GRp+++ ++  +r+ k++e+   s+ +I+  ++i R T+ Ryl +
  PHY93_19585|PHY93_19585 15 GRPRAIGEKLFERASKMHESNeLSVGEICSTLGINRRTFNRYLKE 59
                             9*******99********************************976 PP

>> UPF0175  Uncharacterised protein family (UPF0175)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.1   0.0   1.5e-07   0.00019      22      60 ..      25      63 ..      16      64 .. 0.90

  Alignments for each domain:
  == domain 1  score: 21.1 bits;  conditional E-value: 1.5e-07
                  UPF0175 22 ialAvklYeegrlSlgkAaelaglsrveflelLarrgip 60
                              + A k+ e ++lS g+ +  +g++r +f ++L++r+i+
  PHY93_19585|PHY93_19585 25 FERASKMHESNELSVGEICSTLGINRRTFNRYLKERKIS 63
                             56688999*****************************97 PP

>> HTH_23  Homeodomain-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.0       1.7   2.2e+03      17      27 ..      14      24 ..       4      25 .. 0.66
   2 !   20.0   0.0   3.2e-07   0.00041      11      40 ..      31      59 ..      22      61 .. 0.80

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 1.7
                   HTH_23 17 GlsvreIAreL 27
                             G ++r+I ++L
  PHY93_19585|PHY93_19585 14 GGRPRAIGEKL 24
                             77888888876 PP

  == domain 2  score: 20.0 bits;  conditional E-value: 3.2e-07
                   HTH_23 11 llllaeGlsvreIAreLgvsrrTvyrwlkr 40
                             ++     lsv eI+  Lg++rrT  r+lk 
  PHY93_19585|PHY93_19585 31 MHESN-ELSVGEICSTLGINRRTFNRYLKE 59
                             33333.599******************995 PP

>> HTH_29  Winged helix-turn helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.3      0.44   5.7e+02      40      55 ..       3      19 ..       1      22 [. 0.65
   2 !   18.3   0.0   1.4e-06    0.0018      12      34 ..      37      58 ..      27      60 .. 0.85

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.44
                   HTH_29 40 Glaalld.rrrsgrprn 55
                             Gl+a+   +r +grpr 
  PHY93_19585|PHY93_19585  3 GLKAANQrGRIGGRPRA 19
                             66666663444899885 PP

  == domain 2  score: 18.3 bits;  conditional E-value: 1.4e-06
                   HTH_29 12 vstvsqiAkllglsrrtvyrwlk 34
                             + +v +i+  lg+ rrt++r+lk
  PHY93_19585|PHY93_19585 37 L-SVGEICSTLGINRRTFNRYLK 58
                             4.599****************98 PP

>> TnsD  Tn7-like transposition protein D
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.0     5e-07   0.00065     178     224 ..      15      61 ..       3      65 .] 0.88

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 5e-07
                     TnsD 178 srikkfGivweerlkeLveeeglslkeiAkelgvdiktVlryakklg 224
                              +r +++G ++ er+ +++e+++ls+ ei ++lg++ +t +ry+k+++
  PHY93_19585|PHY93_19585  15 GRPRAIGEKLFERASKMHESNELSVGEICSTLGINRRTFNRYLKERK 61 
                              466899**************************************886 PP

>> HTH_AraC  Bacterial regulatory helix-turn-helix proteins, AraC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0   1.4e-06    0.0017       4      30 ..      32      58 ..      30      61 .. 0.88

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 1.4e-06
                             CCSCT--HHHHHHHTTSSHHHHHHHHH CS
                 HTH_AraC  4 nlstnltiediAdelgfSrsyFsrlFk 30
                             ++s++l++++i+++lg++r++F r +k
  PHY93_19585|PHY93_19585 32 HESNELSVGEICSTLGINRRTFNRYLK 58
                             67889*****************99666 PP

>> HTH_Tnp_1_2  Helix-turn-helix of insertion element transposase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.7   0.0     1e-05     0.013      20      51 ..      33      61 ..      21      65 .] 0.80

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 1e-05
                             HHHHH--S-HHHHHHHHTS-HHHHHHHHH-HH CS
              HTH_Tnp_1_2 20 vendyekltldeiaeevgvsrsTlykWkkkke 51
                                  ++l++ ei++ +g++r+T+ +++k+++
  PHY93_19585|PHY93_19585 33 ES---NELSVGEICSTLGINRRTFNRYLKERK 61
                             34...456******************998875 PP

>> HTH_17  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.1       2.1   2.7e+03      24      35 ..      10      16 ..       3      27 .. 0.53
   2 ?   13.8   0.0   3.9e-05      0.05       2      27 ..      37      62 ..      36      63 .. 0.95

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 2.1
                   HTH_17 24 rgelpaakiGrr 35
                             rg+     iG+r
  PHY93_19585|PHY93_19585 10 RGR-----IGGR 16
                             233.....4443 PP

  == domain 2  score: 13.8 bits;  conditional E-value: 3.9e-05
                   HTH_17  2 ltveEaAelLgvsrstvyrlirrgel 27
                             l+v E++  Lg+ r+t  r++++ ++
  PHY93_19585|PHY93_19585 37 LSVGEICSTLGINRRTFNRYLKERKI 62
                             89********************9998 PP

>> ANT  Phage antirepressor protein KilAC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0   2.7e-05     0.034      21      49 ..      34      62 ..      21      64 .. 0.90

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 2.7e-05
                      ANT 21 dgsititeiAkllgigenrlfelLrekgi 49
                              + ++++ei+ +lgi+++ ++++L+e++i
  PHY93_19585|PHY93_19585 34 SNELSVGEICSTLGINRRTFNRYLKERKI 62
                             56689*********************997 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   4.2e-05     0.053      17      40 ..      36      59 ..      32      59 .. 0.92

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 4.2e-05
                   HTH_24 17 risqreLAerlglSpstvnrrlkr 40
                              +s  e++  lg+ + t nr+lk+
  PHY93_19585|PHY93_19585 36 ELSVGEICSTLGINRRTFNRYLKE 59
                             58999*****************96 PP

>> Sigma70_r4_2  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   6.8e-05     0.087      21      48 ..      31      58 ..      30      59 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 6.8e-05
                             HHHTS---HHHHHHHHT--HHHHHHHHH CS
             Sigma70_r4_2 21 lryleglsykEIAellgisegtVksrls 48
                             +++ ++ls  EI++ lgi+ +t +++l+
  PHY93_19585|PHY93_19585 31 MHESNELSVGEICSTLGINRRTFNRYLK 58
                             677789*****************99985 PP

>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   6.9e-05     0.089      12      37 ..      32      58 ..      23      59 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 6.9e-05
                   HTH_11 12 argp.isgeeLAeeLnvSrrtvrrdIk 37
                             ++++ +s  e+   L++ rrt  r++k
  PHY93_19585|PHY93_19585 32 HESNeLSVGEICSTLGINRRTFNRYLK 58
                             56677*****************99998 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   0.00011      0.14      20      43 ..      31      58 ..      11      59 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00011
                             S....EEEHHHHHHHHTSSHHHHHHHHH CS
                   MarR_2 20 r....dltvgelarrlglsksavsrilk 43
                                  +l+vge++ +lg+ + + +r lk
  PHY93_19585|PHY93_19585 31 MhesnELSVGEICSTLGINRRTFNRYLK 58
                             044557**************99999887 PP

>> HTH_36  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   0.00013      0.16      27      48 ..      38      59 ..      27      59 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00013
                   HTH_36 27 sqetlakrlglsknTvsraike 48
                             s+  +++ lg++++T  r++ke
  PHY93_19585|PHY93_19585 38 SVGEICSTLGINRRTFNRYLKE 59
                             7789****************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (65 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       312  (0.017402); expected 358.6 (0.02)
Passed bias filter:                      267  (0.0148921); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.37u 0.19s 00:00:00.56 Elapsed: 00:00:00.36
# Mc/sec: 546.25
//
Query:       PHY93_19590|PHY93_19590  [L=73]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (73 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       504  (0.0281109); expected 358.6 (0.02)
Passed bias filter:                      303  (0.0169); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.36u 0.21s 00:00:00.56 Elapsed: 00:00:00.36
# Mc/sec: 610.62
//
Query:       PHY93_19595|PHY93_19595  [L=189]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.5e-36  126.3   1.2    1.7e-36  126.1   1.2    1.0  1  DDE_Tnp_ISL3  Transposase


Domain annotation for each model (and alignments):
>> DDE_Tnp_ISL3  Transposase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  126.1   1.2   9.6e-41   1.7e-36      77     239 ..       4     175 ..       1     176 [. 0.91

  Alignments for each domain:
  == domain 1  score: 126.1 bits;  conditional E-value: 9.6e-41
             DDE_Tnp_ISL3  77 AkivvDrFHvvklanealdevRrreqkelre......ekrkklkrsrrlllknpenlteeqkqrldelleaspelekaYelkeelr 156
                               k+++DrFHv kl+n  +d+ R+++ ++l++         +k+k++++ ++ + enl++e   rl++l+e+spel++ Y + e+l 
  PHY93_19595|PHY93_19595   4 EKVTIDRFHVAKLINGNVDDERKKVYNKLKKelkdddVALEKIKHTMWPFRHHFENLDKEDLLRLKALFEQSPELKECYDMREDLY 89 
                              589**************************66566666667789******************************************* PP

             DDE_Tnp_ISL3 157 evfrkk.dkeearkalkewiekaersglke..fkklaktlknhreeIlnyfdsrlsngpvEgiNnkikaikrrayGfrnfenfrlr 239
                              ++f+ + + e+a+ ++++w+  + + + +   f++++kt  +h+ +Ilnyf + +s+gpvEg+Nnkik ikrr++Gf n+ nf  r
  PHY93_19595|PHY93_19595  90 RIFEINqTIESAKIMIDAWCLMVLQYKKTDnpFESFVKTYYKHEINILNYFSKIHSSGPVEGLNNKIKFIKRRGFGFDNVINFAKR 175
                              ***98878************998754433345********************88****************************9877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (189 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1000  (0.0557756); expected 358.6 (0.02)
Passed bias filter:                      517  (0.028836); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.19s 00:00:00.61 Elapsed: 00:00:00.36
# Mc/sec: 1589.82
//
Query:       PHY93_19600|PHY93_19600  [L=225]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.6e-10   39.1   0.0    1.3e-09   38.2   0.0    1.4  1  DDE_Tnp_ISL3  Transposase
    1.3e-07   30.9   0.0    2.5e-07   30.0   0.0    1.5  1  HTH_Tnp_ISL3  Helix-turn-helix domain of transposase family I
    1.3e-06   28.9   6.8    2.5e-06   28.0   6.8    1.4  1  zf-ISL3       zinc-finger of transposase IS204/IS1001/IS1096/


Domain annotation for each model (and alignments):
>> DDE_Tnp_ISL3  Transposase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.2   0.0   2.1e-13   1.3e-09       1      62 [.     156     219 ..     156     222 .. 0.95

  Alignments for each domain:
  == domain 1  score: 38.2 bits;  conditional E-value: 2.1e-13
             DDE_Tnp_ISL3   1 lgiDEislkkghk.yvtvvvdllvdg.grlldilpgRkketlkafleslsekerekveavvmDm 62 
                              +g+DEi+lkkgh+ y+t+v+d+ + g  rll ++ gR++e++  f++s ++   ++ve +++Dm
  PHY93_19600|PHY93_19600 156 MGVDEIALKKGHNhYLTIVSDISIPGkTRLLKVISGRSQEEILPFFQSVPRCIWTSVESISTDM 219
                              69********************88888********************999999*********** PP

>> HTH_Tnp_ISL3  Helix-turn-helix domain of transposase family ISL3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.0   0.0   4.1e-11   2.5e-07       4      51 ..      95     141 ..      93     142 .. 0.95

  Alignments for each domain:
  == domain 1  score: 30.0 bits;  conditional E-value: 4.1e-11
             HTH_Tnp_ISL3   4 PwarrrsriTlrleayilelllesrsvkavArqlgvSwtTVwrildry 51 
                              +w+ ++  +T+++e yil+ l++s ++k++A+  ++++ +++ i+dr+
  PHY93_19600|PHY93_19600  95 EWLGENGECTKDYEKYILKCLINS-TIKDIAEKNRTTEERIEGIIDRC 141
                              49**********************.*********************97 PP

>> zf-ISL3  zinc-finger of transposase IS204/IS1001/IS1096/IS1165
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.0   6.8   4.2e-10   2.5e-06       5      47 .]      41      84 ..      38      84 .. 0.95

  Alignments for each domain:
  == domain 1  score: 28.0 bits;  conditional E-value: 4.2e-10
                  zf-ISL3  5 CPnCgsk.tvvkhgkkerrvrhlpiggkrvyLrlrkrRyrCkeC 47
                             C +Cg+k t+  ++ ke+++ hlpi+ ++v++++r +R+ C++C
  PHY93_19600|PHY93_19600 41 CYKCGKKiTKSHRQCKETIIEHLPIFDNKVFIHVRWPRFVCDNC 84
                             999****98888888***************************** PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (225 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       785  (0.0437838); expected 358.6 (0.02)
Passed bias filter:                      391  (0.0218082); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.36
# Mc/sec: 1875.48
//
Query:       PHY93_19605|PHY93_19605  [L=295]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.4e-25   89.3   1.3    3.1e-25   89.0   0.6    1.5  2  Phage_integrase  Phage integrase family
    8.4e-06   26.0   2.1    1.4e-05   25.3   0.4    2.2  2  Phage_int_SAM_1  Phage integrase, N-terminal SAM-like domain
    4.2e-05   23.9   0.8    0.00017   22.0   0.4    2.3  2  Phage_int_SAM_4  Phage integrase, N-terminal SAM-like domain
  ------ inclusion threshold ------
      0.014   15.7   1.0      0.085   13.2   1.0    2.1  2  Phage_int_SAM_5  Phage integrase SAM-like domain


Domain annotation for each model (and alignments):
>> Phage_integrase  Phage integrase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.9   0.0       2.2     1e+04      84     100 ..      14      30 ..      10      43 .. 0.69
   2 !   89.0   0.6   6.9e-29   3.1e-25       3     166 ..     128     295 .]     127     295 .] 0.95

  Alignments for each domain:
  == domain 1  score: -3.9 bits;  conditional E-value: 2.2
                              HHHHCHCCTTTSBSSBE CS
          Phage_integrase  84 lskaleeaeksellfas 100
                              l+++l+e+ek+ llf+ 
  PHY93_19605|PHY93_19605  14 LQRNLSENEKNRLLFLM 30 
                              56667777777777764 PP

  == domain 2  score: 89.0 bits;  conditional E-value: 6.9e-29
                              HHHHHHHHHHHCCGC..HHHHHHHHHHHHHHHHT--HHHHTT-BGGGEECTTTEEEEEEEECSSSSEEEEECTHHHHHHHHHHHHH CS
          Phage_integrase   3 ltedeverllaalee..slkirdklllellyetGlRisEllsLrvkdldlengvilvheregKgskeravplseealellkellsk 86 
                              +t +eve l++ +++    ++++k+++ ll+etG+RisEll L+++ ++ + g  ++ e e Kg+  + v l+e al++l + l++
  PHY93_19605|PHY93_19605 128 ITREEVELLYNSMPTnkLYDLQKKTMIILLFETGMRISELLFLKIGSIKRDFGDYIL-EFEQKGGAIHRVVLNELALSYLGKFLEE 212
                              6899***********87788999**********************************.6666*******************99999 PP

                              H...CHCCTTTSBSSBETTSSB--HHHHHHHHHHHHHHCT-SSC--TTHHHHHHHHHHHHHCTSHHHHHHHHT-SSCCHHHHH CS
          Phage_integrase  87 a...leeaeksellfaskrgkplsrqtvrkafkraveeagiekpltpHtlRhsfataLleagvdlrvvqkllGHssisttqiY 166
                                   +   ++++lf  + g+ ++r+++ + +++++++a+++++++pHt R sf ++  ++ +d+  + k  GHss++tt++Y
  PHY93_19605|PHY93_19605 213 LamaGSDLTEEKILFQTRSGRNINRKNFARLLNTLAKKAELSSEIHPHTARVSFIRQKHKENMDIYSIRKKVGHSSVRTTERY 295
                              988777888899**********************************************************************9 PP

>> Phage_int_SAM_1  Phage integrase, N-terminal SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.3   0.4   3.2e-09   1.4e-05      18      82 ..      37     102 ..      30     104 .. 0.93
   2 ?   -2.0   0.0       1.1   4.7e+03      52      60 ..     243     251 ..     227     284 .. 0.52

  Alignments for each domain:
  == domain 1  score: 25.3 bits;  conditional E-value: 3.2e-09
                              HHHHHHHHHHHHHHHHHH.TS--TTT--HHHHHHHHHS-----.-----HHHHHHHHHHHHHHHHH CS
          Phage_int_SAM_1  18 TlraYrrdLrrflkflaergkesleqlttedvraflaeleeeg.lsatslarrlsalrsFfqflvr 82 
                              +++ Y+r L++f+++l+ +   + +++++e++ a+ ++l+ +  ++ ++++++l+ + s+fq+l++
  PHY93_19605|PHY93_19605  37 SRAGYKRGLSEFITYLRLEFSINELNAKREHINAYKNHLLLNVkNAKATINKKLAVVSSYFQYLLS 102
                              6789**************99999****************99778999****************986 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 1.1
                              HHHS----- CS
          Phage_int_SAM_1  52 flaeleeeg 60 
                               l++l+++ 
  PHY93_19605|PHY93_19605 243 LLNTLAKKA 251
                              333333322 PP

>> Phage_int_SAM_4  Phage integrase, N-terminal SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.0   0.4   3.8e-08   0.00017      19      83 ..      38     105 ..      34     107 .. 0.83
   2 ?   -2.6   0.0       1.8     8e+03      29      53 ..     113     140 ..     111     152 .. 0.60

  Alignments for each domain:
  == domain 1  score: 22.0 bits;  conditional E-value: 3.8e-08
          Phage_int_SAM_4  19 iksYlsaikrflrflk.kkapeel..tkedieaYlnyLanerklsastqknalnalsffykkvlerel 83 
                              +  Y++ + +f+ +l+ + +++el  ++e+i+aY n+L+ + k +++t++ +l++ s++++ +l +++
  PHY93_19605|PHY93_19605  38 RAGYKRGLSEFITYLRlEFSINELnaKREHINAYKNHLLLNVKNAKATINKKLAVVSSYFQYLLSKRV 105
                              56688889999999983346666522789*********999999********************9886 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 1.8
          Phage_int_SAM_4  29 flrflkkk...apeeltkedieaYlnyL 53 
                              f+r ++     +   +t+e++e+  n++
  PHY93_19605|PHY93_19605 113 FIRRFRMAnvgTSVAITREEVELLYNSM 140
                              4444442233355678888888766655 PP

>> Phage_int_SAM_5  Phage integrase SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   1.0   1.9e-05     0.085      17      94 ..      33     111 ..      14     118 .. 0.84
   2 ?   -0.6   0.0      0.39   1.8e+03      14      49 ..     188     223 ..     178     227 .. 0.63

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.9e-05
                              S-HHHHHHHHHHHHHTTTS-..S---TTT--..HHHHHHHHHHHHHTS---HHHHHHHHHHHHHHHHHHHHTTS--S-HH CS
          Phage_int_SAM_5  17 gskgtlrnykstlkhlkkFlkkkditfeeid..kefleeFedYLkkkkglsentiskyfkklkavlnkAikegilkknpy 94 
                              +s g+   yk+ l  +  +l + +++++e++  +e +++++++L  + +++++ti+k +     ++++  ++ +l++np 
  PHY93_19605|PHY93_19605  33 DSIGSRAGYKRGLSEFITYL-RLEFSINELNakREHINAYKNHLLLNVKNAKATINKKLAVVSSYFQYLLSKRVLEENPC 111
                              47888888999999999999.888999999933469********8889*******************************4 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.39
                              HTTS-HHHHHHHHHHHHHTTTS-..S---TTT--HH CS
          Phage_int_SAM_5  14 kkkgskgtlrnykstlkhlkkFlkkkditfeeidke 49 
                              +k g+  ++   + +l +l kFl++  +  +++++e
  PHY93_19605|PHY93_19605 188 QKGGAIHRVVLNELALSYLGKFLEELAMAGSDLTEE 223
                              333366677777788999999996555666666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (295 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       723  (0.0403257); expected 358.6 (0.02)
Passed bias filter:                      398  (0.0221987); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.47u 0.20s 00:00:00.67 Elapsed: 00:00:00.37
# Mc/sec: 2371.34
//
Query:       PHY93_19610|PHY93_19610  [L=232]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.082   12.8   0.0       0.18   11.7   0.0    1.5  1  DUF3173   Domain of unknown function (DUF3173)


Domain annotation for each model (and alignments):
>> DUF3173  Domain of unknown function (DUF3173)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   9.9e-06      0.18      19      45 ..      15      41 ..      10      44 .. 0.92

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 9.9e-06
                  DUF3173 19 rdiIrqaKkilVkkGysfYnnkrlgvv 45
                             +++I ++Kki  ++G +fY+ k++ v+
  PHY93_19610|PHY93_19610 15 KSVIEESKKIRAERGEDFYSEKKVVVI 41
                             579********************9875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (232 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1076  (0.0600145); expected 358.6 (0.02)
Passed bias filter:                      384  (0.0214178); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1760.48
//
Query:       PHY93_19615|PHY93_19615  [L=67]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (67 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       126  (0.00702772); expected 358.6 (0.02)
Passed bias filter:                       77  (0.00429472); expected 358.6 (0.02)
Passed Vit filter:                         1  (5.57756e-05); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.34u 0.19s 00:00:00.53 Elapsed: 00:00:00.35
# Mc/sec: 569.36
//
Query:       PHY93_16855|PHY93_16855  [L=617]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    6.5e-42  143.1   3.9    1.6e-41  141.8   3.9    1.7  1  Secretin     Bacterial type II and III secretion system prote
      2e-16   60.1   0.2    6.6e-16   58.5   0.0    2.0  2  Secretin_N   Bacterial type II/III secretion system short dom
    3.7e-10   39.4   0.2    7.9e-08   32.0   0.0    3.6  3  STN          Secretin and TonB N terminus short domain
     0.0065   16.4   0.9        2.3    8.3   0.2    3.4  2  DUF4974      Domain of unknown function (DUF4974)
  ------ inclusion threshold ------
        0.1   12.7  10.7      0.023   14.8   3.2    3.2  3  AMIN         AMIN domain
       0.22   12.0   4.2        8.5    6.9   0.1    3.9  4  CSTF2_hinge  Hinge domain of cleavage stimulation factor subu


Domain annotation for each model (and alignments):
>> Secretin  Bacterial type II and III secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  141.8   3.9   5.2e-45   1.6e-41       1     169 [.     444     608 ..     444     609 .. 0.91

  Alignments for each domain:
  == domain 1  score: 141.8 bits;  conditional E-value: 5.2e-45
                 Secretin   1 aleqegkakvlstPklltldneeAeievgqevpvqvtsetgsstgatttatevefkevglsLkvtPqvtedgsirlkidvevssia 86 
                              ++e+e+k k++s+Pk++t++n +A+i++ +++++  t++t+ +tg+ttt+   + ++  l+L vtPqvt++gsi+l+++v+++s++
  PHY93_16855|PHY93_16855 444 LMESESKGKIISSPKVITKNNVAANITQDESTYFLDTNTTTGTTGVTTTTA-WKAQTSRLELAVTPQVTNEGSISLEVEVKKDSLN 528
                              589********************************7777777777776666.89******************************** PP

                 Secretin  87 ssqavtaegnsvptisrrelkttvrvkdgetlviGGliqdeeseseskvPlLgdiPllGaLFksttk.skektellifitPriv 169
                              ++++     +  +   +r +kt+v v++g t+viGG+++ ++se+ s++P+L+d+Pl+G+LF+++ +  + k+el+if+tPri+
  PHY93_16855|PHY93_16855 529 PTAQI----GAPQDEVKRVVKTQVLVDNGATVVIGGIYSYSQSENHSGIPFLKDVPLIGWLFRTKYNpASIKKELIIFLTPRII 608
                              98654....555567889**********************************************98725669***********9 PP

>> Secretin_N  Bacterial type II/III secretion system short domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.1       3.2   9.4e+03      45      69 ..     103     127 ..      92     129 .. 0.63
   2 !   58.5   0.0   2.2e-19   6.6e-16       1      82 []     285     367 ..     285     367 .. 0.96

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 3.2
                              TSEEEEETTTTEEEEEECHHHHHHH CS
               Secretin_N  45 ggrvvadprtNsllvrgspervari 69 
                              ++ ++  ++  s+lvr + + + +i
  PHY93_16855|PHY93_16855 103 RVAIQLRDNVRSVLVRKPNRIILQI 127
                              4445555566789999887776555 PP

  == domain 2  score: 58.5 bits;  conditional E-value: 2.2e-19
                              EEEEE-SSS-HHHHHHHHHHHCCTT..............SSTT-TTSEEEEETTTTEEEEEECHHHHHHHHHHHHHHCTSSSE CS
               Secretin_N   1 vrvfpLkyasaadlasiLrellgggggesas.sgassqsgallgkggrvvadprtNsllvrgspervarirqlikqLDvpraq 82 
                              +++fp+ ya+  dl +iL+e  +++ g+ +s  ++++++ga++gk+gr++ d+rtNsl+v++++e+++r++++++ LD + +q
  PHY93_16855|PHY93_16855 285 TKIFPISYAKIGDLKEILSEYSSDKMGGGGSaPPSGPSGGAGAGKRGRISIDSRTNSLIVKDTAEVIERMKKIVELLDAQTPQ 367
                              689******************999999999999*********************************************98776 PP

>> STN  Secretin and TonB N terminus short domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.1      0.24   7.2e+02       3      12 ..      41      50 ..      39      53 .. 0.86
   2 ?    3.7   0.0     0.018        53      14      38 ..     186     210 ..     185     212 .. 0.90
   3 !   32.0   0.0   2.6e-11   7.9e-08       1      44 [.     210     252 ..     210     259 .. 0.91

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 0.24
                      STN  3 fiydselvrg 12
                             fi+ds++v++
  PHY93_16855|PHY93_16855 41 FIFDSNDVQA 50
                             9*******98 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.018
                      STN  14 qtvslnignvtideaLdeLLkgtgL 38 
                              +++s n+++v +de+L+ + + +g+
  PHY93_16855|PHY93_16855 186 KKISMNLRSVKPDEILKMMADTSGF 210
                              589**************99998887 PP

  == domain 3  score: 32.0 bits;  conditional E-value: 2.6e-11
                      STN   1 vnfiydselvrgnqtvslnignvtideaLdeLLkgtgLqykitg 44 
                              +n+i++ e+v++   +sln+++v++d+aLd +L ++ L +k +g
  PHY93_16855|PHY93_16855 210 FNIIVT-EDVKKIEPISLNLNDVPWDQALDTVLEMNKLVAKKNG 252
                              79****.**********************************975 PP

>> DUF4974  Domain of unknown function (DUF4974)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.3   0.2   0.00076       2.3      38      68 ..     160     188 ..     121     190 .. 0.87
   2 !    5.1   0.0    0.0076        23      35      64 ..     187     215 ..     185     222 .. 0.80

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.00076
                              EEES-.-.HHHHHHHHHHHH--EEEETTEEE CS
                  DUF4974  38 gtfsrnesleevLelLektggikykiegnki 68 
                               ++ r+es+e++Le ++++g  ky   g+ki
  PHY93_16855|PHY93_16855 160 LNIPRSESVEDILENITQSGRKKYI--GKKI 188
                              5789****************99993..6665 PP

  == domain 2  score: 5.1 bits;  conditional E-value: 0.0076
                              EEEEEES-.-.HHHHHHHHHHHH--EEEET CS
                  DUF4974  35 rftgtfsrnesleevLelLektggikykie 64 
                              +++ ++ r+ + +e+L+++  t+g+++ + 
  PHY93_16855|PHY93_16855 187 KISMNL-RSVKPDEILKMMADTSGFNIIVT 215
                              677888.88999*************98644 PP

>> AMIN  AMIN domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   3.2   7.6e-06     0.023      10      97 .]      39     127 ..      28     127 .. 0.85
   2 ?    9.6   1.2   0.00032      0.95       6      60 ..      98     153 ..      90     162 .. 0.76
   3 ?   -0.7   0.2      0.52   1.6e+03      49      80 ..     482     510 ..     430     527 .. 0.61

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 7.6e-06
                     AMIN  10 telvletskaekykvftlsnpnrlviDlpnaelglelk...riennkpgiksvrvvgqk.dpntvRvvldldksvkpqepvrksgk 91 
                               e+++++++ ++ + f +++++ +++Dl+ ++ +       + +  ++g+  v++ ++  + + +Rv ++l  +v+    + ++++
  PHY93_16855|PHY93_16855  39 LEFIFDSND-VQASKFQVKEDKQIIVDLSSITASDRVMrafDTSQFSGGVVFVKAYKKPkNDKDIRVAIQLRDNVRS--VLVRKPN 121
                              477778876.********************99988877999999999*******6655488899*******999999..8999999 PP

                     AMIN  92 glvvdl 97 
                              ++++++
  PHY93_16855|PHY93_16855 122 RIILQI 127
                              999986 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 0.00032
                     AMIN   6 sddntelvletskaekykvftlsnpnrlviDlpnaelglelkriennkpg...iksvr 60 
                              +d+ +++ ++++  +++++  + +pnr+++ ++n     ++k++e n++    i+++ 
  PHY93_16855|PHY93_16855  98 NDKDIRVAIQLR--DNVRSVLVRKPNRIILQIENRYGVFSQKKVEDNQSFkekISEIP 153
                              245557777777..699*****************999999998888877655566665 PP

  == domain 3  score: -0.7 bits;  conditional E-value: 0.52
                     AMIN  49 iennkpgiksvrvvgqkdpntvRvvldldksv 80 
                                  + g + v+++   +++t R+ l +  +v
  PHY93_16855|PHY93_16855 482 T---TTGTTGVTTTTAWKAQTSRLELAVTPQV 510
                              2...3333444433333677777777776554 PP

>> CSTF2_hinge  Hinge domain of cleavage stimulation factor subunit 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.0      0.81   2.4e+03       4      31 ..     131     158 ..     128     160 .. 0.78
   2 ?    2.2   0.0     0.081   2.4e+02      16      36 ..     186     206 ..     175     209 .. 0.88
   3 ?    6.9   0.1    0.0028       8.5      11      44 ..     217     250 ..     212     256 .. 0.88
   4 ?    0.6   0.1      0.26   7.7e+02      28      54 ..     345     371 ..     334     375 .. 0.79

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.81
              CSTF2_hinge   4 qgvqlppglsapdaIsktLsslppeqll 31 
                              +gv  +++++  ++ ++ +s++p++q  
  PHY93_16855|PHY93_16855 131 YGVFSQKKVEDNQSFKEKISEIPSSQAA 158
                              6666677888999999999999999975 PP

  == domain 2  score: 2.2 bits;  conditional E-value: 0.081
              CSTF2_hinge  16 daIsktLsslppeqllellsq 36 
                               +Is +L s++p+++l+++++
  PHY93_16855|PHY93_16855 186 KKISMNLRSVKPDEILKMMAD 206
                              68****************985 PP

  == domain 3  score: 6.9 bits;  conditional E-value: 0.0028
              CSTF2_hinge  11 glsapdaIsktLsslppeqllellsqlKalaqqn 44 
                               ++++++Is +L+ +p +q l+ + ++ +l+ ++
  PHY93_16855|PHY93_16855 217 DVKKIEPISLNLNDVPWDQALDTVLEMNKLVAKK 250
                              57889**********************9998876 PP

  == domain 4  score: 0.6 bits;  conditional E-value: 0.26
              CSTF2_hinge  28 eqllellsqlKalaqqnpsqarelLkq 54 
                              +   e+++ +K++++   +q+ ++L +
  PHY93_16855|PHY93_16855 345 KDTAEVIERMKKIVELLDAQTPQVLIE 371
                              56679********99888888888876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (617 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       854  (0.0476323); expected 358.6 (0.02)
Passed bias filter:                      440  (0.0245412); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.59u 0.24s 00:00:00.83 Elapsed: 00:00:00.38
# Mc/sec: 4841.30
//
Query:       PHY93_19620|PHY93_19620  [L=87]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    5.9e-07   29.6   0.0    7.6e-07   29.2   0.0    1.2  1  HTH_17      Helix-turn-helix domain
    0.00079   19.2   0.6     0.0017   18.1   0.3    1.8  2  Phage_AlpA  Prophage CP4-57 regulatory protein (AlpA)
  ------ inclusion threshold ------
       0.12   12.2   0.0       0.16   11.8   0.0    1.2  1  MerR        MerR family regulatory protein


Domain annotation for each model (and alignments):
>> HTH_17  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.2   0.0   1.3e-10   7.6e-07       4      48 ..      42      86 ..      39      87 .] 0.94

  Alignments for each domain:
  == domain 1  score: 29.2 bits;  conditional E-value: 1.3e-10
                   HTH_17  4 veEaAelLgvsrstvyrlirrgelpaakiGrrwriprsdleewle 48
                             v +++++ g++ st+ r+ +++++p+ k+ +++++   ++  w++
  PHY93_19620|PHY93_19620 42 VTDVMAFTGLGYSTLMRYTSKKRIPHRKRANKLYFIPQEIMNWID 86
                             89**********************99999999***********97 PP

>> Phage_AlpA  Prophage CP4-57 regulatory protein (AlpA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0       1.3   7.5e+03      15      21 ..       1       7 [.       1       8 [. 0.81
   2 !   18.1   0.3   2.8e-07    0.0017       2      51 .]      38      85 ..      37      85 .. 0.92

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 1.3
               Phage_AlpA 15 lsrstiY 21
                             + +s iY
  PHY93_19620|PHY93_19620  1 MNKSNIY 7 
                             6789999 PP

  == domain 2  score: 18.1 bits;  conditional E-value: 2.8e-07
               Phage_AlpA  2 rilrlreVeqktglsrstiYrlikdgeFPkkvkLGvrsVgWlesEIdeWi 51
                             +i r+++V+++tgl+ st+ r+ ++++ P +++  ++   ++ +EI+ Wi
  PHY93_19620|PHY93_19620 38 QIWRVTDVMAFTGLGYSTLMRYTSKKRIPHRKR--ANKLYFIPQEIMNWI 85
                             56799**************************99..678889999999998 PP

>> MerR  MerR family regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   2.6e-05      0.16       4      30 ..      44      70 ..      41      75 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 2.6e-05
                             HHHHHHTTTHHHHHHHHHTTSSTSEEE CS
                     MerR  4 evAeltGvsprtLRyYEreGLipppeR 30
                             +v  +tG+  +tL +Y ++  ip+  R
  PHY93_19620|PHY93_19620 44 DVMAFTGLGYSTLMRYTSKKRIPHRKR 70
                             7999******************66555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (87 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       341  (0.0190195); expected 358.6 (0.02)
Passed bias filter:                      278  (0.0155056); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.42u 0.19s 00:00:00.61 Elapsed: 00:00:00.39
# Mc/sec: 668.19
//
Query:       PHY93_19625|PHY93_19625  [L=909]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.8e-35  121.6   0.0      1e-34  120.2   0.0    1.7  2  Prim-Pol  Bifunctional DNA primase/polymerase, N-terminal
    1.3e-09   37.6   0.0    3.1e-09   36.4   0.0    1.6  1  PriCT_1   Primase C terminal 1 (PriCT-1)
    3.1e-06   27.0   0.0    3.7e-05   23.4   0.0    2.2  1  DUF927    Domain of unknown function (DUF927)
  ------ inclusion threshold ------
      0.085   12.7   0.0       0.18   11.6   0.0    1.4  1  NifZ      NifZ domain


Domain annotation for each model (and alignments):
>> Prim-Pol  Bifunctional DNA primase/polymerase, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  120.2   0.0   2.3e-38     1e-34      14     158 .]      38     188 ..      18     188 .. 0.87
   2 ?   -3.6   0.0       2.9   1.3e+04      60      81 ..     693     718 ..     678     748 .. 0.72

  Alignments for each domain:
  == domain 1  score: 120.2 bits;  conditional E-value: 2.3e-38
                 Prim-Pol  14 l.......ppggKrPlgkkwekdattdpeqirawwkkhpranvglatgpsglvvlDvDgkeagaealarLareeg...plPetvtv 89 
                              +       +++gK+Pl  +w +da++d eqi++w  k p++n +latg  +l+vlDvD k++g e+la L +++g    +P     
  PHY93_19625|PHY93_19625  38 CtcgnadcRTPGKHPLV-NWKTDASSDSEQIKKWIDKFPNCNWALATG-YNLCVLDVDKKSGGLESLALLVNQYGqfeLTPT---S 118
                              0555555599*******.*****************************9.9*************************7744444...4 PP

                 Prim-Pol  90 ttgstgggrhlyfraPdglalpnsagklapgldlrgeggyvvappsvhetgraYrwledp....reiaelPew 158
                               tg   gg hlyf +P++++l+n+ g   + +d+rgegg +++pps h +g++Y+w +++     ++a+lP w
  PHY93_19625|PHY93_19625 119 NTGG--GGLHLYFLNPPNTNLKNKVGIFPG-IDFRGEGGMIIIPPSNHISGGRYEWENGKgildLPVAPLPGW 188
                              4555..***********9999999998755.****************************9***********98 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 2.9
                 Prim-Pol  60 vlDvDgke....agaealarLareeg 81 
                              ++D  +ke     g eal+rLa++++
  PHY93_19625|PHY93_19625 693 AIDKSEKEnlweRGWEALNRLAKTQS 718
                              55555555777778888888877765 PP

>> PriCT_1  Primase C terminal 1 (PriCT-1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.4   0.0   6.9e-13   3.1e-09       9      62 ..     213     267 ..     209     272 .. 0.91

  Alignments for each domain:
  == domain 1  score: 36.4 bits;  conditional E-value: 6.9e-13
                  PriCT_1   9 vsggRNntlfdllrrlaysgvdrerllalahaiNsrl.epPLdesEvrktarSva 62 
                               +g+RN+tlf+l++ l+ + ++++ +la + + N+++ +pPL+++E+  +++ + 
  PHY93_19625|PHY93_19625 213 IEGQRNDTLFRLACSLRSKAFSEDFILATIVTTNANFcNPPLSDDELLDIVKGAT 267
                              58**********************************99*********99998655 PP

>> DUF927  Domain of unknown function (DUF927)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.4   0.0   8.2e-09   3.7e-05      25     283 ..     302     575 ..     279     578 .. 0.68

  Alignments for each domain:
  == domain 1  score: 23.4 bits;  conditional E-value: 8.2e-09
                   DUF927  25 vvicspleisartrdekgeneglllewrdkdgkk.kewvmpaellsgdgsellkeLldeGltvisknarklLakylqqlesplpra 109
                                 +s +e++ +  d  +++  + +  ++ +gk    ++++a+ +s+  + +l++L  + + +  +++ +++++ +q+l    +++
  PHY93_19625|PHY93_19625 302 SNFESKIEVEEICDDGLEQKRIFKIISKSANGKDlPSVHVSASEFSS-LNWVLTQLGGKAIIFPGSSNSEHFKTAIQSLSLGHQEV 386
                              66667777777777775555555555566666665666666666644.56667777666666555555677777777777777777 PP

                   DUF927 110 tvvdrlGwh..kdedvFvlgdevigesgekeivl...qeekaa...eeaysekGtldeWrrqiaklve.....gnpllilavsaAl 182
                                  +lGw   +++ vF++++ +i+e+g ++ v     e       e a+ e    +e ++ +++ +e      ++   +++++Al
  PHY93_19625|PHY93_19625 387 LKFIHLGWRklSGKYVFLHANGAITENGLSTEVRastDE---GrlgEFALPEPPVGQELIDAVKCSLEflsltADSPACFCLYSAL 469
                              777778887666666777777777777655333322222...12343344444444444444444332111115566789999*** PP

                   DUF927 183 aapLLkllgaeggglhlygeSstGKttalklAaSvwGnpe...elvrswraTanglEglaaannDllLiLDEi..seadprevgel 263
                                + L+ ++   + + ++ge+ + K+ ++ +    +G++    +l  +w +Tan +E  a+   D++ ++D    +e+ p  +g +
  PHY93_19625|PHY93_19625 470 WRAPLNEVRPLDFSVYVVGETGSFKSEICGVIQAHFGSAFggkNLPENWSSTANSIEHRAYLAKDVIFVIDDYvpGEVSPLVTGRI 555
                              *****************************998766666555556***************************974456666667888 PP

                   DUF927 264 vYmlanGqGkqRanrtgevr 283
                                  +n  G++R + +g+ r
  PHY93_19625|PHY93_19625 556 FRGAGNKSGRGRMSSDGSQR 575
                              88888999999998888766 PP

>> NifZ  NifZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   3.9e-05      0.18      10      56 ..     746     794 ..     743     801 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 3.9e-05
                     NifZ  10 VraakdirNDGtfpgkeige.lLvkkGdv.GvvvsvGtflqnqeiYlVe 56 
                              V++++++ +DGt+ g ++++ +L++kG++ G +++ G  l+ +  ++V 
  PHY93_19625|PHY93_19625 746 VTVNEQVPEDGTSWGWKRDNdVLAAKGTRiGWIKDDGICLEPENAFAVA 794
                              8999*********99887766******955****999999977777775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (909 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       403  (0.0224776); expected 358.6 (0.02)
Passed bias filter:                      388  (0.0216409); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.74u 0.26s 00:00:01.00 Elapsed: 00:00:00.46
# Mc/sec: 5957.10
//
Query:       PHY93_19630|PHY93_19630  [L=119]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0031   17.6   1.6     0.0031   17.6   1.6    2.0  2  TssO             Type VI secretion system, TssO
  ------ inclusion threshold ------
      0.011   15.2   4.2      0.016   14.5   4.2    1.3  1  Dynamitin        Dynamitin
       0.02   15.2   3.6       0.02   15.2   3.6    2.0  2  BLOC1_2          Biogenesis of lysosome-related organelles co
      0.021   14.8   0.9       0.31   11.0   0.4    2.3  2  DASH_Dad4        DASH complex subunit Dad4
      0.022   15.2   2.4       0.93    9.9   2.4    2.1  1  MitMem_reg       Maintenance of mitochondrial structure and f
      0.022   15.0   2.6      0.039   14.2   2.5    1.5  1  DUF4375          Domain of unknown function (DUF4375)
      0.032   13.2   4.1      0.035   13.1   4.1    1.1  1  Ran-binding      RanGTP-binding protein
      0.044   14.1   3.6      0.078   13.3   2.7    1.9  2  CPSase_L_D3      Carbamoyl-phosphate synthetase large chain, 
      0.047   12.8   2.7        0.4    9.7   0.4    2.0  2  PHA_synth_III_E  Poly(R)-hydroxyalkanoic acid synthase subuni
       0.13   12.5   4.6       0.11   12.7   2.5    1.8  2  TMF_TATA_bd      TATA element modulatory factor 1 TATA bindin
       0.14   12.6   5.0       0.17   12.4   2.8    2.1  2  KELK             KELK-motif containing domain of MRCK Ser/Thr
       0.14   12.2   2.4       0.31   11.2   0.8    2.4  2  YojJ             Bacterial membrane-spanning protein N-termin
       0.14   12.6   3.7       0.19   12.3   3.1    1.5  1  IZUMO            Izumo sperm-egg fusion, Ig domain-associated
       0.23   11.8   6.7        1.5    9.2   6.7    2.4  1  DUF349           Domain of Unknown Function (DUF349)
       0.25   11.9   9.9        3.3    8.3   9.9    2.1  1  DUF16            Protein of unknown function DUF16
       0.47   10.6   5.8        1.5    9.0   5.7    1.8  1  Fib_alpha        Fibrinogen alpha/beta chain family
       0.48   10.7   4.4        4.5    7.6   0.5    2.5  2  BORCS7           BLOC-1-related complex sub-unit 7
       0.53   10.7   5.5       0.26   11.7   0.9    2.0  2  DUF3837          Domain of unknown function (DUF3837)
       0.61   10.8   4.3        2.3    8.9   0.9    2.4  2  SlyX             SlyX
       0.83   10.0   3.5        1.9    8.8   1.9    2.0  2  DUF948           Bacterial protein of unknown function (DUF94
        3.8    7.8  10.9        5.7    7.2   5.9    2.8  2  XhlA             Haemolysin XhlA


Domain annotation for each model (and alignments):
>> TssO  Type VI secretion system, TssO
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   1.6   3.6e-06    0.0031      52     102 ..      17      67 ..       8      77 .. 0.89
   2 ?    3.8   3.3     0.065        56      91     130 ..      74     112 ..      68     119 .] 0.55

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 3.6e-06
                     TssO  52 kfeekqkelkkkvdsiykkIdsLkpevnavfleneIkkdlndikntygkns 102
                              ++++    ++ ++ds  ++I++L+++ ++  +++eI k ln++ + +++++
  PHY93_19630|PHY93_19630  17 TLQKLEAIQTRELDSATERISKLTKGLQNLKEKDEIIKTLNQLVDRMTNQD 67 
                              56777888999**********************************997754 PP

  == domain 2  score: 3.8 bits;  conditional E-value: 0.065
                     TssO  91 lndikntygknssdeRykmyaqiakfykmlledKkelksv 130
                              +++++++++k+ +++  k ++ ++k + ++ + Kk++ ++
  PHY93_19630|PHY93_19630  74 IKHLNEAFKKDFVKY-NKSFTETYKRITKIEDYKKKIEKI 112
                              555555555555555.555555555555555555555544 PP

>> Dynamitin  Dynamitin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   4.2   1.9e-05     0.016     252     294 ..      19      88 ..      13     113 .. 0.69

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 1.9e-05
                Dynamitin 252 aklslLqtahLDaierRlksllaeldelaekreaiekadaeg............................q 294
                              +kl+++qt++LD+ ++R+ +l++ l++l+ek+e+i++ ++                               
  PHY93_19630|PHY93_19630  19 QKLEAIQTRELDSATERISKLTKGLQNLKEKDEIIKTLNQ-LvdrmtnqdqwflesikhlneafkkdfvkY 88 
                              589999**************************99954333.246666666665555555555555555551 PP

>> BLOC1_2  Biogenesis of lysosome-related organelles complex-1 subunit 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.2   3.6   2.4e-05      0.02      22      89 ..      15      82 ..       8      83 .. 0.94
   2 ?    3.6   0.5     0.099        84      52      76 ..      87     108 ..      71     117 .. 0.36

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 2.4e-05
                  BLOC1_2 22 yklLeklNeaasekykklkdvaaslekkleklnekyeelqpylqqidqiekqvteLeeavseLDeysk 89
                             +++L+kl   ++++ ++ ++++++l+k l++l+ek+e ++ + q +d++ +q + + e +++L+e  k
  PHY93_19630|PHY93_19630 15 VDTLQKLEAIQTRELDSATERISKLTKGLQNLKEKDEIIKTLNQLVDRMTNQDQWFLESIKHLNEAFK 82
                             57899***************************************************999999999876 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.099
                  BLOC1_2  52 klnekyeelqpylqqidqiekqvte 76 
                              k+n+   ++ +  ++i +ie+  ++
  PHY93_19630|PHY93_19630  87 KYNK---SFTETYKRITKIEDYKKK 108
                              2222...222222222222222222 PP

>> DASH_Dad4  DASH complex subunit Dad4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.4   0.00037      0.31      24      70 ..      33      79 ..      24      80 .. 0.92
   2 ?    1.9   0.0      0.26   2.3e+02      22      45 ..      87     110 ..      82     113 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00037
                DASH_Dad4 24 nesvvelnkeleeinkkNknvelvsqlwenYqrnvqfnLeatgelke 70
                             +e + +l k l++ ++k + +++++ql++   ++ q+ Le+ ++l+e
  PHY93_19630|PHY93_19630 33 TERISKLTKGLQNLKEKDEIIKTLNQLVDRMTNQDQWFLESIKHLNE 79
                             7999************************************9999875 PP

  == domain 2  score: 1.9 bits;  conditional E-value: 0.26
                DASH_Dad4  22 kLnesvvelnkeleeinkkNknve 45 
                              k n+s +e  k++ +i+++ k++e
  PHY93_19630|PHY93_19630  87 KYNKSFTETYKRITKIEDYKKKIE 110
                              779999999999999999999887 PP

>> MitMem_reg  Maintenance of mitochondrial structure and function
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   2.4    0.0011      0.93      35      60 ..      52     117 ..      10     119 .] 0.59

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.0011
               MitMem_reg  35 i..........................................lqerldlikdYlkkveegelpvnhe 60 
                              i                                            +r+ +i+dY kk+e  ++p +++
  PHY93_19630|PHY93_19630  52 IiktlnqlvdrmtnqdqwflesikhlneafkkdfvkynksfteTYKRITKIEDYKKKIE--KIPLHEN 117
                              14445555555555555555555555555555555555555559999999999999999..7777665 PP

>> DUF4375  Domain of unknown function (DUF4375)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   2.5   4.5e-05     0.039      28     116 ..       4      89 ..       3     108 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 4.5e-05
                              HHHHCT-HHHHCCHHHHHHCTT--HHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHH.-GGGHHHHHHHHHHHHHHHHHH.HHH CS
                  DUF4375  28 qlfqnssgefinealkalrliGaeelakllekakklykkgkeelereerdeelealyeeeeeefdelDdefyeyeeeltell.aeY 112
                              ql++ +  +++ ++l+ l++i  +el +  e++ kl k+ ++  e++e  + l++l ++    + + D+ f e+ ++l+e++  ++
  PHY93_19630|PHY93_19630   4 QLICEHQFNLYVDTLQKLEAIQTRELDSATERISKLTKGLQNLKEKDEIIKTLNQLVDR----MTNQDQWFLESIKHLNEAFkKDF 85 
                              9**********************************989888888888888888888666....77788888887777665541345 PP

                              HHCT CS
                  DUF4375 113 vdeh 116
                              v+ +
  PHY93_19630|PHY93_19630  86 VKYN 89 
                              5544 PP

>> Ran-binding  RanGTP-binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   4.1     4e-05     0.035      40     123 ..      30     110 ..      17     119 .] 0.82

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 4e-05
              Ran-binding  40 pedkkerkeleklqkkLeskikiispaidLieliaarGntsLesaveLtksLkkeieelgerleeaaekeekskkkeeekeelk 123
                              ++  ++ ++l+k  ++L++k +ii++  +L++ +  + + +Les  +L ++ kk++++ +++++e+ ++ +k ++    k++++
  PHY93_19630|PHY93_19630  30 DSATERISKLTKGLQNLKEKDEIIKTLNQLVDRMTNQDQWFLESIKHLNEAFKKDFVKYNKSFTETYKRITKIEDY---KKKIE 110
                              4444556789999999***********************************************9999988865443...33333 PP

>> CPSase_L_D3  Carbamoyl-phosphate synthetase large chain, oligomerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.1       1.3   1.1e+03      10      13 ..      35      38 ..       8      60 .. 0.48
   2 ?   13.3   2.7   9.1e-05     0.078      26      65 ..      59      98 ..      30     118 .. 0.69

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 1.3
              CPSase_L_D3 10 Rifa 13
                             Ri  
  PHY93_19630|PHY93_19630 35 RISK 38
                             1111 PP

  == domain 2  score: 13.3 bits;  conditional E-value: 9.1e-05
              CPSase_L_D3 26 eiheltkidpwFLekleelvel.ekelkkkkkeldeellre 65
                              + ++t+ d+wFLe +++l e+ +k++ k++k+++e+  ++
  PHY93_19630|PHY93_19630 59 LVDRMTNQDQWFLESIKHLNEAfKKDFVKYNKSFTETY-KR 98
                             57789**************9852666777765444433.33 PP

>> PHA_synth_III_E  Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.1     0.038        32     284     314 .]      17      47 ..       8      47 .. 0.83
   2 ?    9.7   0.4   0.00047       0.4      48     104 ..      55     111 ..      48     118 .. 0.71

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.038
          PHA_synth_III_E 284 vlealnlPtRsEldtlhkriqelrrevrrlk 314
                              +l++l+  + +Eld++ +ri  l + +++lk
  PHY93_19630|PHY93_19630  17 TLQKLEAIQTRELDSATERISKLTKGLQNLK 47 
                              56666667789****************9997 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.00047
          PHA_synth_III_E  48 aakelmermveqqkayfrlleqfakafad..kdasasavedaweqlekaieqlqkafqg 104
                                ++l++rm++q + +++ ++++ +af++   + ++s  e + ++  + ie+++k++++
  PHY93_19630|PHY93_19630  55 TLNQLVDRMTNQDQWFLESIKHLNEAFKKdfVKYNKSFTETYKRI--TKIEDYKKKIEK 111
                              5789***********************886633333333444444..556666666655 PP

>> TMF_TATA_bd  TATA element modulatory factor 1 TATA binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   2.5   0.00013      0.11      37      92 ..      24      79 ..       8      83 .. 0.83
   2 ?    1.2   0.0      0.47     4e+02      36      76 ..      72     112 ..      68     118 .. 0.67

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 0.00013
              TMF_TATA_bd 37 rleaerdeareeivklmkeneelkelkkeleelekeleelqeryetlLellGeksE 92
                               ++e d+a+e i kl+k  ++lke+++ +++l++ ++ ++++ +  Le ++  +E
  PHY93_19630|PHY93_19630 24 IQTRELDSATERISKLTKGLQNLKEKDEIIKTLNQLVDRMTNQDQWFLESIKHLNE 79
                             3467889************************************9999998766555 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.47
              TMF_TATA_bd  36 erleaerdeareeivklmkeneelkelkkeleelekeleel 76 
                              e++++  ++ +++ vk  k+  e+ +  +++e+ +k++e++
  PHY93_19630|PHY93_19630  72 ESIKHLNEAFKKDFVKYNKSFTETYKRITKIEDYKKKIEKI 112
                              55666666677777777777777777777777777777665 PP

>> KELK  KELK-motif containing domain of MRCK Ser/Thr protein kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.1      0.42   3.6e+02      48      66 ..      26      44 ..      15      47 .. 0.59
   2 ?   12.4   2.8   0.00019      0.17       4      67 ..      38     101 ..      35     112 .. 0.75

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.42
                     KELK 48 mqefsevneklselrsqkq 66
                               e+  ++e++s+l +  q
  PHY93_19630|PHY93_19630 26 TRELDSATERISKLTKGLQ 44
                             4466666666666665555 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 0.00019
                     KELK   4 eLekqlrllkqEkeelqkelaeaqErlksqkkeLkdaisqrklam.qefsevneklselrsqkqk 67 
                              +L+k l+ l +Ek+e+ k l+++ +r+ +q++   + i++ + a  ++f + n+  +e+ ++  k
  PHY93_19630|PHY93_19630  38 KLTKGLQNL-KEKDEIIKTLNQLVDRMTNQDQWFLESIKHLNEAFkKDFVKYNKSFTETYKRITK 101
                              666666666.59*******************9999999998887524677777777776655555 PP

>> YojJ  Bacterial membrane-spanning protein N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.8   0.00036      0.31      19      51 ..      50      82 ..       7      84 .. 0.92
   2 ?   -2.5   0.0       6.7   5.7e+03      13      18 ..     104     109 ..      93     113 .. 0.50

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00036
                     YojJ 19 eqiekeleevlkaldeedeClLcelesirekfa 51
                              +i+k+l++ ++ + ++d+  L  ++++ e f+
  PHY93_19630|PHY93_19630 50 DEIIKTLNQLVDRMTNQDQWFLESIKHLNEAFK 82
                             589**************************9997 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 6.7
                     YojJ  13 klkeeL 18 
                              + k+++
  PHY93_19630|PHY93_19630 104 DYKKKI 109
                              222222 PP

>> IZUMO  Izumo sperm-egg fusion, Ig domain-associated
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   3.1   0.00022      0.19      47     112 ..      15      81 ..       2      95 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00022
                              SGGGGGGSEEEHHHHHHHHHHHHHHHHHHHHS---HHHH..HHHHHHHHHHHHHHHHHHHHHHHHTTS CS
                    IZUMO  47 laenkflgvvdeetlekvasslkkelkrltdsdlkgell..lkeLlwllqkqkkklkealkefqkeal 112
                              ++  + l+++++++l+++++ + k +k l++ + k+e +  l++L++ + +q + + e +k+ ++ a+
  PHY93_19630|PHY93_19630  15 VDTLQKLEAIQTRELDSATERISKLTKGLQNLKEKDEIIktLNQLVDRMTNQDQWFLESIKHLNE-AF 81 
                              555577899****************************874467*************999999876.34 PP

>> DUF349  Domain of Unknown Function (DUF349)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   6.7    0.0018       1.5      28      68 ..      33      83 ..       2     113 .. 0.78

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.0018
                   DUF349 28 r.........eenlekKealieeaealaksttdwksa...tkrlkelqeeWke 68
                                        +nl++K ++i+ +++l + +t  ++     + +k l e++k+
  PHY93_19630|PHY93_19630 33 TeriskltkgLQNLKEKDEIIKTLNQLVDRMT--NQDqwfLESIKHLNEAFKK 83
                             345555555589***************99996..2223558888888888876 PP

>> DUF16  Protein of unknown function DUF16
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   9.9    0.0038       3.3      19      97 ..       5      79 ..       1     112 [. 0.71

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0038
                             B-BHHHHHHB-..BHHHHHHHHHH.HH...HHHHHHHHHHHHHHHHHHHHHHHHHHHHH.......HHHHHHHHHHHHHH CS
                    DUF16 19 YVTrkqlnefkdsnkqrLkkieak.vdklgeqinkleqkvekqgekikelkveqkaqgeelnkvdetleliletLqkink 97
                              +  +q+n +  ++ q+L+ i+++ +d+  e+i+kl++  +++ ek     + +k+ ++ ++++ +  +  le+++++n+
  PHY93_19630|PHY93_19630  5 LICEHQFNLYV-DTLQKLEAIQTReLDSATERISKLTKGLQNLKEK----DEIIKTLNQLVDRMTNQDQWFLESIKHLNE 79
                             567899****9.8999****99854999999**9999887776655....244455555555555555555555555554 PP

>> Fib_alpha  Fibrinogen alpha/beta chain family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0   5.7    0.0018       1.5      31      97 ..      47     109 ..      16     119 .] 0.60

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.0018
                              CCCCHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH CS
                Fib_alpha  31 kdvkkdlekleneleeisnstkeaeelvkeikdslrekqkskkdndnvikksskeleeeilrlketi 97 
                              k+ ++ +++l++ +++++n+ +   e +k++++  +++  ++++  + ++ ++ ++  +i+++k++i
  PHY93_19630|PHY93_19630  47 KEKDEIIKTLNQLVDRMTNQDQWFLESIKHLNEAFKKDFVKYNK--SFTETYK-RIT-KIEDYKKKI 109
                              33345566666666666666666666666666666666666663..2222222.222.344555554 PP

>> BORCS7  BLOC-1-related complex sub-unit 7
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.6   0.5    0.0053       4.5      58      98 ..       7      48 ..       1      51 [. 0.85
   2 ?    6.3   0.4     0.013        11      61      95 ..      45      79 ..      44      87 .. 0.89

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.0053
                   BORCS7 58 qedaienteesLkkmsllt.telnyqveaisksikqleevqe 98
                             +e++ +   ++L+k++++  +el+   e isk  k l++++e
  PHY93_19630|PHY93_19630  7 CEHQFNLYVDTLQKLEAIQtRELDSATERISKLTKGLQNLKE 48
                             57777777899*******559****************99998 PP

  == domain 2  score: 6.3 bits;  conditional E-value: 0.013
                   BORCS7 61 aienteesLkkmsllttelnyqveaisksikqlee 95
                             ++++ +e +k +++l++++ +q + + +sik+l+e
  PHY93_19630|PHY93_19630 45 NLKEKDEIIKTLNQLVDRMTNQDQWFLESIKHLNE 79
                             67788999**********************99987 PP

>> DUF3837  Domain of unknown function (DUF3837)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.9   0.00031      0.26      33      85 ..      17      68 ..       4      78 .. 0.87
   2 ?    1.6   0.4      0.42   3.6e+02      49      83 ..      74     108 ..      70     113 .. 0.59

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00031
                  DUF3837 33 llakllglpeieekeeleelkekleeelkkvspkdekekklikllkdYepdee 85
                             +l+kl ++ + +e ++ +e   kl + l++++ kde +k+l++l+++   +++
  PHY93_19630|PHY93_19630 17 TLQKLEAI-QTRELDSATERISKLTKGLQNLKEKDEIIKTLNQLVDRMTNQDQ 68
                             57788888.6688999999999************************9888876 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.42
                  DUF3837  49 leelkekleeelkkvspkdekekklikllkdYepd 83 
                              +++l+e+++++  k++++  +  k i  ++dY+++
  PHY93_19630|PHY93_19630  74 IKHLNEAFKKDFVKYNKSFTETYKRITKIEDYKKK 108
                              56677777777766666654444444445666654 PP

>> SlyX  SlyX
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   0.9    0.0027       2.3      19      54 ..      15      50 ..       9      55 .. 0.90
   2 ?    3.5   0.1      0.14   1.2e+02      20      53 ..      54      80 ..      49      87 .. 0.55

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.0027
                             HHHHHHHHHHHHHHHHHHHHHHHHHHHT-XXXXXXX CS
                     SlyX 19 ieeLndvvaeqqqqidrlqrqlrllaerlkeleess 54
                             +++L++  a q +++d  ++++ +l++ l++l+e++
  PHY93_19630|PHY93_19630 15 VDTLQKLEAIQTRELDSATERISKLTKGLQNLKEKD 50
                             7889999999**********************9986 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.14
                             HHHHHHHHHHHHHHHHHHHHHHHHHHT-XXXXXX CS
                     SlyX 20 eeLndvvaeqqqqidrlqrqlrllaerlkelees 53
                             +         +q +dr++ q ++  e +k+l+e+
  PHY93_19630|PHY93_19630 54 K-------TLNQLVDRMTNQDQWFLESIKHLNEA 80
                             3.......34455555555555555555555554 PP

>> DUF948  Bacterial protein of unknown function (DUF948)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   1.9    0.0022       1.9      23      66 ..      20      66 ..      13      83 .. 0.77
   2 ?    0.6   0.0       0.8   6.8e+02      22      40 ..      86     104 ..      74     113 .. 0.68

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.0022
                   DUF948 23 kl....kktldeaaatieelekqvdpilkevedllakvnelledvnek 66
                             kl    ++ ld+a+++i +l+k ++++ ke ++++++ n+l++ ++++
  PHY93_19630|PHY93_19630 20 KLeaiqTRELDSATERISKLTKGLQNL-KEKDEIIKTLNQLVDRMTNQ 66
                             5555557889***********999986.67899999999999988875 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.8
                   DUF948  22 lklkktldeaaatieelek 40 
                              +k +k ++e+ ++i+++e+
  PHY93_19630|PHY93_19630  86 VKYNKSFTETYKRITKIED 104
                              4556777777777777765 PP

>> XhlA  Haemolysin XhlA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2   5.9    0.0067       5.7       3      52 ..      18      71 ..      16      75 .. 0.83
   2 ?    1.5   0.2      0.41   3.5e+02      20      30 ..      99     109 ..      81     118 .. 0.61

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.0067
                     XhlA  3 kerlerietk.ldnleervdkle...ekaaeaeekiknleedlkklesnqkWli 52
                             +++le i+t+ ld+  er++kl    ++  e +e ik l+  +++++++  W++
  PHY93_19630|PHY93_19630 18 LQKLEAIQTReLDSATERISKLTkglQNLKEKDEIIKTLNQLVDRMTNQDQWFL 71
                             68888898866999999999997344678888999*****************97 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.41
                     XhlA  20 vdkleekaaea 30 
                              ++k+e+ + + 
  PHY93_19630|PHY93_19630  99 ITKIEDYKKKI 109
                              44444333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (119 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2451  (0.136706); expected 358.6 (0.02)
Passed bias filter:                      762  (0.042501); expected 358.6 (0.02)
Passed Vit filter:                        94  (0.0052429); expected 17.9 (0.001)
Passed Fwd filter:                        21  (0.00117129); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              21  [number of targets reported over threshold]
# CPU time: 0.51u 0.27s 00:00:00.78 Elapsed: 00:00:00.38
# Mc/sec: 930.69
//
Query:       PHY93_19635|PHY93_19635  [L=244]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
  ------ inclusion threshold ------
       0.03   14.5   0.0      0.064   13.4   0.0    1.6  1  HTH_17     Helix-turn-helix domain
      0.054   13.7   0.0       0.18   12.0   0.0    1.9  2  Gb3_synth  Alpha 1,4-glycosyltransferase conserved region


Domain annotation for each model (and alignments):
>> HTH_17  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   7.2e-06     0.064       3      40 ..      33      70 ..      31      71 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 7.2e-06
                   HTH_17  3 tveEaAelLgvsrstvyrlirrgelpaakiGrrwripr 40
                             + ++a e++++s++++  li+++++ ++ + +   +p+
  PHY93_19635|PHY93_19635 33 DLNDAKEIFNLSQNKIISLIHKKKITPFAKYQDTVFPE 70
                             568999********************996656677766 PP

>> Gb3_synth  Alpha 1,4-glycosyltransferase conserved region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0     2e-05      0.18      59     101 ..      75     114 ..      56     129 .. 0.79
   2 ?   -1.8   0.0      0.36   3.3e+03      48      66 ..     124     142 ..     117     147 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 2e-05
                Gb3_synth  59 vlppeaFypisysewkrfFeeedaeetkkltkesyavHlwnkl 101
                              v+pp aFypi+++ +++ ++++++  t   ++  +++H+ +k 
  PHY93_19635|PHY93_19635  75 VIPPAAFYPIHHPSLDTAYRSKKKIFT---LNLLIGTHVDDKT 114
                              89******************7655444...5667777776655 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 0.36
                Gb3_synth  48 smeskrckglkvlppeaFy 66 
                               +++ +c ++ v++++ F 
  PHY93_19635|PHY93_19635 124 PKQKFTCPQIFVFKKQLFQ 142
                              4568899999999999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (244 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       709  (0.0395449); expected 358.6 (0.02)
Passed bias filter:                      496  (0.0276647); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 1828.21
//
Query:       PHY93_19640|PHY93_19640  [L=212]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.7e-43  146.5   0.1    8.1e-43  146.0   0.1    1.2  1  Resolvase     Resolvase, N terminal domain
     0.0018   17.9   0.2     0.0056   16.3   0.0    1.9  2  Sigma70_r4_2  Sigma-70, region 4
     0.0036   17.0   0.0       0.03   14.1   0.0    2.3  2  HTH_23        Homeodomain-like domain
  ------ inclusion threshold ------
      0.011   15.5   0.0      0.049   13.4   0.0    2.0  2  HTH_38        Helix-turn-helix domain
      0.014   15.5   0.0      0.056   13.5   0.0    1.9  2  HTH_7         Helix-turn-helix domain of resolvase


Domain annotation for each model (and alignments):
>> Resolvase  Resolvase, N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  146.0   0.1   2.3e-46   8.1e-43       1     145 [.       5     148 ..       5     149 .. 0.97

  Alignments for each domain:
  == domain 1  score: 146.0 bits;  conditional E-value: 2.3e-46
                              EEEEEEES---.--THHHHHHHHHHHH-S--..SE...EEEE.S-TT-TT-HHHHHHHHHHTT-EE.EEEESSCCCC-S...S-HH CS
                Resolvase   1 aigYaRvStee.qddslerQkealrayakenglkivkefeDkgvSGakleRpglkrllaalregkgdvlvvekldRLaRsvrdllt 85 
                              a++YaR+St+  q+   e Q+ +lr+++ +++++++ke++D+g SG++++Rpglk+ll+++re+++dv+vv kldRL Rs+++l+ 
  PHY93_19640|PHY93_19640   5 AVLYARCSTTRdQK--PEVQLSELRRFCIAREWEVAKEITDHGYSGTTADRPGLKELLKLVRERQIDVVVVLKLDRLFRSLKHLVL 88 
                              689*******9788..********************************************************************** PP

                              HHHHHHHTT-EEEESS..SS----HHHHHHHHHHHHHHHHHHHHHCT-TTHHHHHHHHHH CS
                Resolvase  86 lleelrekgvslvsldegidtstpmgrlllqilaalaeferelirertkeglaaakakGk 145
                              ++ee++e gv++vs+++++d +t++grll+++l+ +aefe+ lirert  gl++a   Gk
  PHY93_19640|PHY93_19640  89 TVEEFEELGVEFVSVKDQFDLTTSAGRLLRNLLGCFAEFEAGLIRERTLIGLDHAVSIGK 148
                              ****************99**********************************99987776 PP

>> Sigma70_r4_2  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.2       1.1   4.1e+03      46      54 .]      78      86 ..      78      86 .. 0.90
   2 !   16.3   0.0   1.6e-06    0.0056      17      43 ..     159     185 ..     155     187 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 1.1
                             HHHHHHHHH CS
             Sigma70_r4_2 46 rlsRArkkL 54
                             rl+R +k+L
  PHY93_19640|PHY93_19640 78 RLFRSLKHL 86
                             799****98 PP

  == domain 2  score: 16.3 bits;  conditional E-value: 1.6e-06
                              HHHHHHHTS---HHHHHHHHT--HHHH CS
             Sigma70_r4_2  17 eifllryleglsykEIAellgisegtV 43 
                              e++   ++eglsy+ IA +l++s g+V
  PHY93_19640|PHY93_19640 159 EAIRKLRFEGLSYRKIAIQLNCSMGAV 185
                              6777779****************9998 PP

>> HTH_23  Homeodomain-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.0      0.26   9.5e+02       2      15 ..      23      36 ..      22      48 .. 0.77
   2 !   14.1   0.0   8.4e-06      0.03       9      36 ..     159     187 ..     158     188 .. 0.88

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.26
                   HTH_23  2 asereRlrilllla 15
                             +se++R++i++   
  PHY93_19640|PHY93_19640 23 LSELRRFCIAREWE 36
                             58999999998776 PP

  == domain 2  score: 14.1 bits;  conditional E-value: 8.4e-06
                   HTH_23   9 rilllla.eGlsvreIAreLgvsrrTvyr 36 
                              ++++ l+ eGls+r+IA +L++s   v+r
  PHY93_19640|PHY93_19640 159 EAIRKLRfEGLSYRKIAIQLNCSMGAVCR 187
                              678888879**************999988 PP

>> HTH_38  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0      0.81   2.9e+03      26      32 ..     146     152 ..     144     154 .. 0.86
   2 ?   13.4   0.0   1.4e-05     0.049      11      33 ..     159     181 ..     156     187 .. 0.91

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 0.81
                   HTH_38  26 IArrLgr 32 
                              I+++Lgr
  PHY93_19640|PHY93_19640 146 IGKKLGR 152
                              99****9 PP

  == domain 2  score: 13.4 bits;  conditional E-value: 1.4e-05
                   HTH_38  11 eeIerllaeGlslreIArrLgrs 33 
                              e I +l+ eGls+r+IA +L++s
  PHY93_19640|PHY93_19640 159 EAIRKLRFEGLSYRKIAIQLNCS 181
                              6799*****************98 PP

>> HTH_7  Helix-turn-helix domain of resolvase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0       0.9   3.2e+03      27      35 ..      31      39 ..      30      40 .. 0.87
   2 ?   13.5   0.0   1.6e-05     0.056       4      34 ..     154     181 ..     151     185 .. 0.88

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.9
                             TSSSS---S CS
                    HTH_7 27 IAkevnisR 35
                             IA+e+ +++
  PHY93_19640|PHY93_19640 31 IAREWEVAK 39
                             9****9987 PP

  == domain 2  score: 13.5 bits;  conditional E-value: 1.6e-05
                              -SS-HHHHGGGGSSTTTT--STTTSSSS--- CS
                    HTH_7   4 sklskndinrvvkLleeGisiskIAkevnis 34 
                                  knd + ++kL+ eG s +kIA+++n+s
  PHY93_19640|PHY93_19640 154 Q---KNDFEAIRKLRFEGLSYRKIAIQLNCS 181
                              4...56779*********************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (212 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       549  (0.0306208); expected 358.6 (0.02)
Passed bias filter:                      513  (0.0286129); expected 358.6 (0.02)
Passed Vit filter:                        57  (0.00317921); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.35
# Mc/sec: 1793.48
//
Query:       PHY93_19645|PHY93_19645  [L=125]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
     0.0027   18.1   0.0     0.0047   17.3   0.0    1.4  1  HTH_26          Cro/C1-type HTH DNA-binding domain
     0.0084   16.2   0.0      0.011   15.7   0.0    1.3  1  Phage_CI_repr   Bacteriophage CI repressor helix-turn-helix d
  ------ inclusion threshold ------
      0.038   14.0   0.0      0.072   13.1   0.0    1.3  1  BetR            BetR domain
       0.12   12.4   0.0        1.4    9.1   0.0    2.2  2  MerR_1          MerR HTH family regulatory protein
       0.13   12.2   0.0       0.22   11.4   0.0    1.4  1  YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitox


Domain annotation for each model (and alignments):
>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   0.0   1.3e-06    0.0047       2      58 ..      33      90 ..      32      93 .. 0.87

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 1.3e-06
                   HTH_26  2 LrelmadrgitkseLargtgisaatlsrlvkgkp.ervsldtLdkiCdaLgctpgDLl 58
                             L  lma +++++s La+++ + a t++ +v +   +  +l+ + k+ +++++++  Ll
  PHY93_19645|PHY93_19645 33 LEDLMASKRVSISILAKDLAVPAKTVQEWVGKGGrVPRNLESIKKLSEYFDVSVHYLL 90
                             789***************************8542146678***********9987775 PP

>> Phage_CI_repr  Bacteriophage CI repressor helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   3.2e-06     0.011       6      65 .]      36      97 ..      31      97 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 3.2e-06
                             HHHHHT-SSCHHHHCCTT--HHHHHHHHHSS.S--..HHHHHHHHHHH---HHHHHC-SS-S- CS
            Phage_CI_repr  6 lmsaygvkmqkeLAdlLgiakssvstwvrRd.ffP..gdvvvtcaletdtsLewLatGkgqmr 65
                             lm    v+    LA+ L ++ ++v  wv ++ ++P   + + ++++  d+s ++L++G+++ r
  PHY93_19645|PHY93_19645 36 LMASKRVSIS-ILAKDLAVPAKTVQEWVGKGgRVPrnLESIKKLSEYFDVSVHYLLFGEEDAR 97
                             5555555554.7****************995489988899*******************9876 PP

>> BetR  BetR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0     2e-05     0.072      45      74 ..      66      96 ..      64     122 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 2e-05
                     BetR 45 GsipwnlaqlekvAktfgvpaaiLl.dlted 74
                             G +p nl+ ++k+ ++f+v+  +Ll +  ++
  PHY93_19645|PHY93_19645 66 GRVPRNLESIKKLSEYFDVSVHYLLfGEEDA 96
                             789**********************444443 PP

>> MerR_1  MerR HTH family regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   0.0   0.00038       1.4       2      25 ..      43      66 ..      42      74 .. 0.86
   2 ?    0.8   0.0      0.15   5.3e+02       2      18 ..      74      90 ..      73      95 .. 0.87

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.00038
                             EHHHHHHHHTS-HHHHHHHHHHTT CS
                   MerR_1  2 sigevakilgvtthtlrywekegl 25
                             si+ +ak l v+++t++ w  +g 
  PHY93_19645|PHY93_19645 43 SISILAKDLAVPAKTVQEWVGKGG 66
                             8999***************99987 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.15
                             EHHHHHHHHTS-HHHHH CS
                   MerR_1  2 sigevakilgvtthtlr 18
                             si+++++ + v++h l 
  PHY93_19645|PHY93_19645 74 SIKKLSEYFDVSVHYLL 90
                             799*********99875 PP

>> YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   6.1e-05      0.22      10      46 ..      43      78 ..      37      89 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 6.1e-05
           YdaS_antitoxin 10 gqkaLAealgvsqqaVsqWlkgkkq.vpaervpeIeka 46
                             + + LA+ l v  ++V+ W+ gk++ vp +   +I k+
  PHY93_19645|PHY93_19645 43 SISILAKDLAVPAKTVQEWV-GKGGrVP-RNLESIKKL 78
                             5678***************9.7888455.455555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (125 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       697  (0.0388756); expected 358.6 (0.02)
Passed bias filter:                      583  (0.0325172); expected 358.6 (0.02)
Passed Vit filter:                        65  (0.00362541); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.38u 0.19s 00:00:00.57 Elapsed: 00:00:00.34
# Mc/sec: 1104.34
//
Query:       PHY93_19650|PHY93_19650  [L=222]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
      4e-12   46.1   0.3    8.1e-12   45.1   0.3    1.5  1  DnaJ       DnaJ domain
  ------ inclusion threshold ------
      0.021   14.6   0.0      0.041   13.6   0.0    1.4  1  ubiquitin  Ubiquitin family
      0.045   13.6   0.0        0.3   11.0   0.0    2.0  2  DUF1418    Protein of unknown function (DUF1418)
       0.09   13.4   0.9       0.09   13.4   0.9    2.0  2  DUF2645    Protein of unknown function (DUF2645)
       0.12   12.4   0.0        0.2   11.7   0.0    1.4  1  Imm21      Immunity protein 21


Domain annotation for each model (and alignments):
>> DnaJ  DnaJ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.1   0.3   2.3e-15   8.1e-12       1      51 [.     162     217 ..     162     221 .. 0.91

  Alignments for each domain:
  == domain 1  score: 45.1 bits;  conditional E-value: 2.3e-15
                              HHHHHHTSSTTG-HHHHHHHHHHHHHHHSTTTS....CCHH.HHHHHHHHHHHHHH CS
                     DnaJ   1 dyYeiLgvskdasedeIkkaYrklalkyHPDkn....pkdp.eaeekFkeineAye 51 
                              d +eiL v+++as +eIkkaY+k + +yHPDk     p+ +  ae+k k in+Aye
  PHY93_19650|PHY93_19650 162 DSFEILDVPRTASVSEIKKAYYKVVGQYHPDKVaslaPEFKaMAEDKSKIINHAYE 217
                              5689***************************887777777789999*********8 PP

>> ubiquitin  Ubiquitin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   1.2e-05     0.041       3      38 ..     156     193 ..     155     197 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 1.2e-05
                              EEETTSEEEEE.EEETTSBHHHHHHHHHHHHT.SSGGG CS
                ubiquitin   3 vktldgkkitl.eveesdtveelKekiaekeg.ipaeq 38 
                              +k++d+ ++++ +v+++ +v+e+K+++ +  g +++++
  PHY93_19650|PHY93_19650 156 LKNWDSDSFEIlDVPRTASVSEIKKAYYKVVGqYHPDK 193
                              799*************************9996477775 PP

>> DUF1418  Protein of unknown function (DUF1418)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.1      0.23   8.4e+02      44      62 ..      18      36 ..      11      54 .. 0.75
   2 ?   11.0   0.0   8.3e-05       0.3      28      86 ..      96     154 ..      78     162 .. 0.81

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 0.23
                  DUF1418 44 aaivmiflGvllllPaava 62
                             + + ++flG+   l a + 
  PHY93_19650|PHY93_19650 18 SFLFVVFLGIFYYLVAFIL 36
                             5567788888887777654 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 8.3e-05
                  DUF1418  28 svndylsLPgplsskeaaivmiflGvllllPaavalvwrvaqalapllrkrsPdkksrs 86 
                               +++ +++P+ ++  +   + i   + ++lPa      rv++ ++++  +++ ++k   
  PHY93_19650|PHY93_19650  96 KIKNAITIPERIAHLDYWAIEIIFTLFIFLPAFCFYTSRVVKSFKSVKDESKSETKKDA 154
                              58999********9988777777789********************9977766654443 PP

>> DUF2645  Protein of unknown function (DUF2645)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.2      0.64   2.3e+03      76      91 ..      19      34 ..       8      47 .. 0.60
   2 ?   13.4   0.9   2.5e-05      0.09       6      73 ..      70     138 ..      66     143 .. 0.86

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.64
                  DUF2645 76 lvvialvillYiiWrF 91
                             +  ++++ ++Y++  F
  PHY93_19650|PHY93_19650 19 FLFVVFLGIFYYLVAF 34
                             4444444444444444 PP

  == domain 2  score: 13.4 bits;  conditional E-value: 2.5e-05
                  DUF2645   6 iyfilallliellSildk.ewmidgsdiknlCsvlrelelddsrdvaviaalllliPlllvlvkkklks 73 
                              +y++++   ++l  i+     +i++  ikn  ++++++   d   +  i++l +++P +++ + + +ks
  PHY93_19650|PHY93_19650  70 VYAVICQASLYLSGIFTFlRIIIGDDKIKNAITIPERIAHLDYWAIEIIFTLFIFLPAFCFYTSRVVKS 138
                              799999999999999886266789999*******************************99877766554 PP

>> Imm21  Immunity protein 21
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   5.5e-05       0.2      48     110 ..      58     120 ..      54     163 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 5.5e-05
                    Imm21  48 vGlvkvgdeealVlgdePasttylpehralvrwiaadseaellaaveaaladaaeweeevewe 110
                               G++k +++ a V +   +++ yl+   +++r+i++d++ +   ++++ +a+++ w  e+ ++
  PHY93_19650|PHY93_19650  58 YGVIKAEKKYADVYAVICQASLYLSGIFTFLRIIIGDDKIKNAITIPERIAHLDYWAIEIIFT 120
                              69******************************************************9986554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (222 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       971  (0.0541581); expected 358.6 (0.02)
Passed bias filter:                      500  (0.0278878); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1675.64
//
Query:       PHY93_19655|PHY93_19655  [L=449]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (449 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       570  (0.0317921); expected 358.6 (0.02)
Passed bias filter:                      395  (0.0220313); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.20s 00:00:00.72 Elapsed: 00:00:00.37
# Mc/sec: 3631.35
//
Query:       PHY93_19660|PHY93_19660  [L=454]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00035   20.8   0.0     0.0011   19.2   0.0    1.8  1  HD_5      HD domain
  ------ inclusion threshold ------
      0.081   12.8   3.8        5.6    6.8   1.1    2.4  2  DUF792    Borrelia burgdorferi protein of unknown function (D


Domain annotation for each model (and alignments):
>> HD_5  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.2   0.0   1.2e-07    0.0011       3      52 ..     346     394 ..     344     399 .. 0.95

  Alignments for each domain:
  == domain 1  score: 19.2 bits;  conditional E-value: 1.2e-07
                     HD_5   3 LtpeerellqehpeaaarlLsklprlpkdvaeiigqhhErldGsGyPrgl 52 
                              +t+ee+  ++ hp  aa+l      ++ dv  i   +hE+  G G+P+g 
  PHY93_19660|PHY93_19660 346 YTEEEQLDFKNHPLKAAQLSTFFSGFS-DVDFILSEQHEHPTGDGFPKGM 394
                              79999999*******************.********************97 PP

>> DUF792  Borrelia burgdorferi protein of unknown function (DUF792)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.3   0.1    0.0009         8     101     139 ..     121     161 ..      75     170 .. 0.89
   2 ?    6.8   1.1   0.00063       5.6      45     115 ..     172     242 ..     164     257 .. 0.88

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.0009
                   DUF792 101 llkllkktsfansvlefns.nlvkeqlrer.vklgvyysvy 139
                               ++++kk  f +s+lef   +l k++lr+  + ++++y vy
  PHY93_19660|PHY93_19660 121 SIDWVKKEEFEESILEFSRdDLHKMRLRNFyLFEQMPYDVY 161
                              5899*************863799*****9625689999999 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.00063
                   DUF792  45 ikakselieekystasskravidyydrkseyvsynvvsndeiitlnngilssiydellkllkktsfansvl 115
                              + +k+++ ++++ +  s++ +  ++ +k e++ +  +s ++ +++ +++l    + l  +lk++ f +  +
  PHY93_19660|PHY93_19660 172 VISKNKPYTQQLIQNYSRKNIKHLHLKKDEHLKFLDTSIKNLLKIYDAKLNDKKKYLYLHLKTIFFIHQFI 242
                              568999999*******************************************9999999999999987665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (454 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       709  (0.0395449); expected 358.6 (0.02)
Passed bias filter:                      380  (0.0211947); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.44
# Mc/sec: 3113.45
//
Query:       PHY93_19665|PHY93_19665  [L=207]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.1e-12   45.6   0.0    7.2e-12   45.1   0.0    1.2  1  Pribosyltran  Phosphoribosyl transferase domain


Domain annotation for each model (and alignments):
>> Pribosyltran  Phosphoribosyl transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.1   0.0     4e-16   7.2e-12      30     142 ..      65     168 ..      41     180 .. 0.89

  Alignments for each domain:
  == domain 1  score: 45.1 bits;  conditional E-value: 4e-16
                              GEEEEEEETTTHHHHHHHHHHSTT-EE-EEEEEE-TTT--EE........EE----TTSEEEEE-SEESSSHHHHHHHHHHHCC-B CS
             Pribosyltran  30 pdvvvgiargGvpfakiladeLevplayvrkvkyrpdgseeaargssdesrlledpagkkVliVDDildtGgTllaalelLkekgp 115
                               d++ gia+ G+p a  +ad+L++p++y+r + +++++++++               +++V +V+D++  G++l  a+  +k +g 
  PHY93_19665|PHY93_19665  65 FDLIGGIATAGIPYAAFMADRLKLPMVYIRPKAKEHGKKNQV---------EGDYRPNQSVMLVEDLVNQGSSLADAMIGVKGAGL 141
                              58999*************************************.........678999***************************** PP

                              SEEEEEEEEE-HHHHHHHHHH-TTS.. CS
             Pribosyltran 116 eevriavlvdkpateeevdknakrvfs 142
                               +  + ++vd   +e  ++ +  ++  
  PHY93_19665|PHY93_19665 142 NSTQCLCIVDYQMGEATKRLKELSLSL 168
                              *********999999988887777654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (207 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       423  (0.0235931); expected 358.6 (0.02)
Passed bias filter:                      414  (0.0230911); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.38
# Mc/sec: 1642.30
//
Query:       PHY93_16860|PHY93_16860  [L=453]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.4e-13   51.1   0.0     0.0061   17.0   0.0    4.3  4  TPR_19    Tetratricopeptide repeat
    1.5e-08   34.7   0.3    1.8e-06   28.1   0.1    3.0  3  ANAPC3    Anaphase-promoting complex, cyclosome, subunit 3
    3.4e-08   33.0   0.7       0.01   15.9   0.0    4.4  4  TPR_2     Tetratricopeptide repeat
    2.9e-07   30.0   2.3       0.13   12.1   0.0    4.5  4  TPR_1     Tetratricopeptide repeat
    2.9e-07   30.1   0.0       0.82   10.0   0.0    4.7  4  TPR_8     Tetratricopeptide repeat
    2.3e-06   27.9   0.0        0.1   13.5   0.0    3.4  3  TPR_14    Tetratricopeptide repeat
    1.6e-05   24.3   0.0    0.00018   20.8   0.0    2.1  2  TPR_15    Tetratricopeptide repeat
    0.00019   21.2   0.0        1.2    9.3   0.0    3.6  3  TPR_7     Tetratricopeptide repeat
    0.00054   20.4   0.0         13    6.7   0.0    4.2  4  TPR_6     Tetratricopeptide repeat
    0.00073   19.2   0.0        9.4    6.0   0.0    3.4  3  TPR_11    TPR repeat
     0.0034   17.5   0.5       0.16   12.3   0.0    3.1  3  PPR       PPR repeat
     0.0035   17.6   0.0         13    6.2   0.0    3.6  3  TPR_12    Tetratricopeptide repeat
     0.0088   16.4   0.1        5.7    7.3   0.0    3.0  2  TPR_20    Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.043   14.1   0.1       0.16   12.3   0.1    2.0  1  Vps39_1   Vacuolar sorting protein 39 domain 1
      0.053   13.7   0.1        1.4    9.1   0.0    2.6  3  TPR_9     Tetratricopeptide repeat
      0.073   12.8   0.0       0.16   11.7   0.0    1.5  1  PPR_1     PPR repeat


Domain annotation for each model (and alignments):
>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.2   0.0     0.013        15      24      52 ..      25      53 ..      13      61 .. 0.80
   2 !   13.9   0.0   5.2e-05     0.058      11      64 ..      46      99 ..      40     101 .. 0.90
   3 !   15.4   0.0   1.7e-05     0.019      21      65 ..      90     134 ..      87     137 .. 0.89
   4 !   17.0   0.0   5.5e-06    0.0061      25      58 ..     297     330 ..     287     339 .. 0.83

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.013
                   TPR_19 24 naearllLAeallalgqldeAealLdalp 52
                              +++ + LAe + +lg +d+ +++L++  
  PHY93_16860|PHY93_16860 25 RSRVFAPLAETYRKLGMTDKSMEILSQGI 53
                             45666789*****************9865 PP

  == domain 2  score: 13.9 bits;  conditional E-value: 5.2e-05
                   TPR_19 11 lalleqalqedpknaearllLAeallalgqldeAealLdalpeedpddaryasL 64
                             +++l+q +   p ++   l+LA +++ l+q++    +L +l e+++d+ r+++L
  PHY93_16860|PHY93_16860 46 MEILSQGIRFHPSYLMGYLGLAFCYFDLKQFNLSYSTLRPLVESNRDNIRLQKL 99
                             6888998899999999*******************************9888866 PP

  == domain 3  score: 15.4 bits;  conditional E-value: 1.7e-05
                   TPR_19  21 dpknaearllLAeallalgqldeAealLdalpeedpddaryasLl 65 
                              + +n +++ l  e++l+lg  +eA ++L+ l+  +p d ++a+L 
  PHY93_16860|PHY93_16860  90 NRDNIRLQKLFSEVCLELGKKEEALETLKYLLFINPRDKEIAALV 134
                              56778888899***************************9999985 PP

  == domain 4  score: 17.0 bits;  conditional E-value: 5.5e-06
                   TPR_19  25 aearllLAeallalgqldeAealLdalpeedpdd 58 
                              + +   L++++  +g++++A ++L+++++ +p+d
  PHY93_16860|PHY93_16860 297 PLVTHTLVDLYCGQGHIEKALEVLEKILLLNPND 330
                              5555689**************************8 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.0       1.4   1.5e+03      20      48 ..      21      51 ..       4      64 .. 0.74
   2 !   28.1   0.1   1.6e-09   1.8e-06      29      80 ..      66     118 ..      54     120 .. 0.93
   3 ?    2.6   0.0      0.14   1.6e+02      29      56 ..     303     331 ..     284     342 .. 0.80

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 1.4
                             H--HHHHHH..HHHHHHHTT-HHHHHHHHHC CS
                   ANAPC3 20 tespedayl..lAlclylngqykrAyellrk 48
                              ++p ++ +  lA+++ ++g  ++ +e+l++
  PHY93_16860|PHY93_16860 21 EKNPRSRVFapLAETYRKLGMTDKSMEILSQ 51
                             455555444378*******999999999986 PP

  == domain 2  score: 28.1 bits;  conditional E-value: 1.6e-09
                              HHHHHHHTT-HHHHHHHHHCT.SHHHC-HHHHHHHHHHHHHTT-HHHHHHHH- CS
                   ANAPC3  29 lAlclylngqykrAyellrka.klnskslgcrylfAqcllkLkkyeeAiaaLe 80 
                              lA c++ ++q++  y  lr++ ++n  +++   lf +++l+L+k eeA+ +L+
  PHY93_16860|PHY93_16860  66 LAFCYFDLKQFNLSYSTLRPLvESNRDNIRLQKLFSEVCLELGKKEEALETLK 118
                              799**********************************************9996 PP

  == domain 3  score: 2.6 bits;  conditional E-value: 0.14
                              HHHHHHHTT-HHHHHHHHHCT.SHHHC-H CS
                   ANAPC3  29 lAlclylngqykrAyellrka.klnsksl 56 
                              l   ++ +g  ++A+e+l+k   ln++++
  PHY93_16860|PHY93_16860 303 LVDLYCGQGHIEKALEVLEKIlLLNPNDQ 331
                              55678999999999999999877777665 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.5   0.0      0.17   1.9e+02       7      32 ..      32      57 ..      32      59 .. 0.87
   2 ?    1.6   0.2      0.35   3.9e+02       4      18 ..      63      77 ..      61      80 .. 0.87
   3 !    7.6   0.0    0.0042       4.7      10      34 .]     103     127 ..     101     127 .. 0.91
   4 !   15.9   0.0   9.3e-06      0.01      10      34 .]     306     330 ..     305     330 .. 0.94

  Alignments for each domain:
  == domain 1  score: 2.5 bits;  conditional E-value: 0.17
                    TPR_2  7 lGlayyklgdyeeAleafekAleldP 32
                             l++ y+klg  ++  e + + ++  P
  PHY93_16860|PHY93_16860 32 LAETYRKLGMTDKSMEILSQGIRFHP 57
                             7999**********999999888777 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.35
                    TPR_2  4 lynlGlayyklgdye 18
                             +  l+ +y+ l++++
  PHY93_16860|PHY93_16860 63 YLGLAFCYFDLKQFN 77
                             7789********985 PP

  == domain 3  score: 7.6 bits;  conditional E-value: 0.0042
                    TPR_2  10 ayyklgdyeeAleafekAleldPnn 34 
                              ++++lg+ eeAle ++  l ++P++
  PHY93_16860|PHY93_16860 103 VCLELGKKEEALETLKYLLFINPRD 127
                              7899***************999976 PP

  == domain 4  score: 15.9 bits;  conditional E-value: 9.3e-06
                    TPR_2  10 ayyklgdyeeAleafekAleldPnn 34 
                              +y  +g+ e+Ale +ek l l+Pn+
  PHY93_16860|PHY93_16860 306 LYCGQGHIEKALEVLEKILLLNPND 330
                              6999*******************97 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.2   0.0     0.017        20       7      34 .]      32      59 ..      32      59 .. 0.92
   2 ?    4.8   0.4     0.024        27       4      18 ..      63      77 ..      61      80 .. 0.90
   3 ?    4.2   0.0     0.037        41      10      33 ..     103     126 ..     102     127 .. 0.81
   4 !   12.1   0.0   0.00012      0.13      10      34 .]     306     330 ..     305     330 .. 0.93

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.017
                             HHHHHHHTT-HHHHHHHHHHHHHHSTTH CS
                    TPR_1  7 lGnayfklgkydeAleyyekALelnPnn 34
                             l+ +y+klg+ d+  e  ++ ++  P++
  PHY93_16860|PHY93_16860 32 LAETYRKLGMTDKSMEILSQGIRFHPSY 59
                             7899************999999999986 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.024
                             HHHHHHHHHHTT-HH CS
                    TPR_1  4 lynlGnayfklgkyd 18
                             + +l+ +yf l++++
  PHY93_16860|PHY93_16860 63 YLGLAFCYFDLKQFN 77
                             899**********97 PP

  == domain 3  score: 4.2 bits;  conditional E-value: 0.037
                              HHHHTT-HHHHHHHHHHHHHHSTT CS
                    TPR_1  10 ayfklgkydeAleyyekALelnPn 33 
                              ++++lgk +eAle  +  L +nP 
  PHY93_16860|PHY93_16860 103 VCLELGKKEEALETLKYLLFINPR 126
                              5789*********98877777775 PP

  == domain 4  score: 12.1 bits;  conditional E-value: 0.00012
                              HHHHTT-HHHHHHHHHHHHHHSTTH CS
                    TPR_1  10 ayfklgkydeAleyyekALelnPnn 34 
                              +y  +g  ++Ale  ek L lnPn+
  PHY93_16860|PHY93_16860 306 LYCGQGHIEKALEVLEKILLLNPND 330
                              58889******************97 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.3   0.0    0.0054         6       7      29 ..      32      54 ..      26      59 .. 0.87
   2 ?    3.2   0.0      0.11   1.3e+02       4      33 ..      63      92 ..      62      93 .. 0.83
   3 ?    3.7   0.0     0.077        86      10      25 ..     103     118 ..      99     127 .. 0.83
   4 !   10.0   0.0   0.00073      0.82       8      34 .]     304     330 ..     301     330 .. 0.88

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0054
                             HHHHHHHTT-HHHHHHHHHHHHH CS
                    TPR_8  7 lgsiylklgdyeeAkeyyekale 29
                             l+ +y+klg  ++++e + + ++
  PHY93_16860|PHY93_16860 32 LAETYRKLGMTDKSMEILSQGIR 54
                             899**************998876 PP

  == domain 2  score: 3.2 bits;  conditional E-value: 0.11
                             HHHHHHHHHHTT-HHHHHHHHHHHHHHHHH CS
                    TPR_8  4 yynlgsiylklgdyeeAkeyyekaleldpd 33
                             y+ l+ +y++l++++ + ++++  +e ++d
  PHY93_16860|PHY93_16860 63 YLGLAFCYFDLKQFNLSYSTLRPLVESNRD 92
                             788999*********999988877777766 PP

  == domain 3  score: 3.7 bits;  conditional E-value: 0.077
                              HHHHTT-HHHHHHHHH CS
                    TPR_8  10 iylklgdyeeAkeyye 25 
                              ++l+lg++eeA e+++
  PHY93_16860|PHY93_16860 103 VCLELGKKEEALETLK 118
                              6789********9986 PP

  == domain 4  score: 10.0 bits;  conditional E-value: 0.00073
                              HHHHHHTT-HHHHHHHHHHHHHHHHH. CS
                    TPR_8   8 gsiylklgdyeeAkeyyekaleldpdn 34 
                               ++y  +g +e+A e++ek l l+p++
  PHY93_16860|PHY93_16860 304 VDLYCGQGHIEKALEVLEKILLLNPND 330
                              5778889******************96 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.5   0.0   9.2e-05       0.1       7      43 ..      32      68 ..      27      69 .. 0.95
   2 ?    1.4   0.0      0.68   7.6e+02       8      36 ..     101     129 ..      94     136 .. 0.75
   3 !    8.7   0.0     0.003       3.4       6      35 ..     302     331 ..     297     335 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 9.2e-05
                   TPR_14  7 laeallalGdpdeAiallrralalaPddaeawlllaq 43
                             lae ++ lG +d+++++l + ++ +P+ +  +l la+
  PHY93_16860|PHY93_16860 32 LAETYRKLGMTDKSMEILSQGIRFHPSYLMGYLGLAF 68
                             89******************************99997 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.68
                   TPR_14   8 aeallalGdpdeAiallrralalaPddae 36 
                               e++l+lG+ +eA++ l+ +l  +P d e
  PHY93_16860|PHY93_16860 101 SEVCLELGKKEEALETLKYLLFINPRDKE 129
                              6899***********99877767776655 PP

  == domain 3  score: 8.7 bits;  conditional E-value: 0.003
                   TPR_14   6 alaeallalGdpdeAiallrralalaPdda 35 
                               l++++  +G  ++A+++l+++l l+P+d+
  PHY93_16860|PHY93_16860 302 TLVDLYCGQGHIEKALEVLEKILLLNPNDQ 331
                              577788889******************997 PP

>> TPR_15  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.8   0.0   1.6e-07   0.00018     144     249 ..      24     129 ..       4     133 .. 0.89
   2 ?    0.9   0.0      0.19   2.1e+02     151     183 ..     302     334 ..     281     337 .. 0.73

  Alignments for each domain:
  == domain 1  score: 20.8 bits;  conditional E-value: 1.6e-07
                   TPR_15 144 qsaafllaraelyrqegqtdaAlrdyreAlalapdsselraallWlliDlgrraeLrellkawkaraesdasLwgplaaAlllLgr 229
                                +++++ +ae yr+ g td++++++ ++++  p       +l + + Dl++ +   ++l+ + +  + + +L++ +    l Lg+
  PHY93_16860|PHY93_16860  24 PRSRVFAPLAETYRKLGMTDKSMEILSQGIRFHPSYLMGYLGLAFCYFDLKQFNLSYSTLRPLVESNRDNIRLQKLFSEVCLELGK 109
                              45679999***************************999999*************9999******9999****************** PP

                   TPR_15 230 pkkALeylrkqakenrkdpl 249
                              +++ALe l+  +  n++d  
  PHY93_16860|PHY93_16860 110 KEEALETLKYLLFINPRDKE 129
                              ********999999999965 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.19
                   TPR_15 151 araelyrqegqtdaAlrdyreAlalapdsselr 183
                               +  ly  +g+ ++Al+++++ l l+p++++ +
  PHY93_16860|PHY93_16860 302 TLVDLYCGQGHIEKALEVLEKILLLNPNDQKTI 334
                              556677888888999999999999888887765 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.5   0.0     0.018        20       5      24 ..      32      51 ..      32      58 .. 0.87
   2 ?    1.5   0.0      0.34   3.8e+02       8      24 ..     103     119 ..     101     142 .. 0.82
   3 !    9.3   0.0    0.0011       1.2       5      28 ..     303     326 ..     300     334 .. 0.81

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.018
                    TPR_7  5 LarlysrlGdyeeAielyeq 24
                             La++y++lG +++  e++ q
  PHY93_16860|PHY93_16860 32 LAETYRKLGMTDKSMEILSQ 51
                             8************9998766 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.34
                    TPR_7   8 lysrlGdyeeAielyeq 24 
                              ++ +lG+ eeA+e ++ 
  PHY93_16860|PHY93_16860 103 VCLELGKKEEALETLKY 119
                              6899*********9986 PP

  == domain 3  score: 9.3 bits;  conditional E-value: 0.0011
                    TPR_7   5 LarlysrlGdyeeAielyeqsLal 28 
                              L +ly+ +G+ e+A+e++e+ L l
  PHY93_16860|PHY93_16860 303 LVDLYCGQGHIEKALEVLEKILLL 326
                              779*****************5544 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.7   0.0     0.011        13       6      25 ..      32      51 ..      31      57 .. 0.92
   2 ?    1.0   0.0      0.76   8.5e+02       3      23 ..      63      83 ..      62      93 .. 0.79
   3 ?    1.6   0.0      0.46   5.2e+02      11      24 ..     105     118 ..      97     121 .. 0.82
   4 ?    4.9   0.0     0.041        46      10      32 ..     307     329 ..     284     330 .. 0.87

  Alignments for each domain:
  == domain 1  score: 6.7 bits;  conditional E-value: 0.011
                             HHHHHHHHHHHHHHHHHHHH CS
                    TPR_6  6 lalsyrklgdtdkAlealer 25
                             la+ yrklg tdk++e+l +
  PHY93_16860|PHY93_16860 32 LAETYRKLGMTDKSMEILSQ 51
                             799*************9975 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.76
                             HHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6  3 lyklalsyrklgdtdkAleal 23
                             ++ la +y+ l++   +  +l
  PHY93_16860|PHY93_16860 63 YLGLAFCYFDLKQFNLSYSTL 83
                             689******998887666665 PP

  == domain 3  score: 1.6 bits;  conditional E-value: 0.46
                              HHHHHHHHHHHHHH CS
                    TPR_6  11 rklgdtdkAleale 24 
                              ++lg++++Ale+l+
  PHY93_16860|PHY93_16860 105 LELGKKEEALETLK 118
                              5678*******997 PP

  == domain 4  score: 4.9 bits;  conditional E-value: 0.041
                              HHHHHHHHHHHHHHHHHHHH-TT CS
                    TPR_6  10 yrklgdtdkAlealerlikeYPd 32 
                              y  +g  +kAle le+++   P+
  PHY93_16860|PHY93_16860 307 YCGQGHIEKALEVLEKILLLNPN 329
                              556799***********998887 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.3   0.0     0.014        16       3      40 ..      35      72 ..      33      74 .. 0.93
   2 ?    3.8   0.0     0.041        46       4      27 ..     104     127 ..     102     130 .. 0.84
   3 !    6.0   0.0    0.0084       9.4       2      27 ..     305     330 ..     305     331 .. 0.92

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.014
                   TPR_11  3 ayyeqGkyeeAieaYkkAlkldPdnaeayynLGlayyk 40
                              y+++G  ++++e +++ +++ P++   y++L++ y+ 
  PHY93_16860|PHY93_16860 35 TYRKLGMTDKSMEILSQGIRFHPSYLMGYLGLAFCYFD 72
                             69*******************************99986 PP

  == domain 2  score: 3.8 bits;  conditional E-value: 0.041
                   TPR_11   4 yyeqGkyeeAieaYkkAlkldPdn 27 
                              + e+Gk eeA+e +k  l ++P +
  PHY93_16860|PHY93_16860 104 CLELGKKEEALETLKYLLFINPRD 127
                              6799**********9888888876 PP

  == domain 3  score: 6.0 bits;  conditional E-value: 0.0084
                   TPR_11   2 dayyeqGkyeeAieaYkkAlkldPdn 27 
                              d+y+ qG +e+A+e+++k l l+P++
  PHY93_16860|PHY93_16860 305 DLYCGQGHIEKALEVLEKILLLNPND 330
                              68999*************99999986 PP

>> PPR  PPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.0      0.57   6.3e+02      10      24 ..      36      50 ..      34      55 .. 0.88
   2 ?   -0.5   0.1       1.7     2e+03      10      24 ..     104     118 ..     102     121 .. 0.82
   3 !   12.3   0.0   0.00014      0.16       5      26 ..     302     323 ..     301     327 .. 0.92

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.57
                      PPR 10 ycknGkleeAlelfk 24
                             y k G+ ++ +e++ 
  PHY93_16860|PHY93_16860 36 YRKLGMTDKSMEILS 50
                             789*********986 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 1.7
                      PPR  10 ycknGkleeAlelfk 24 
                              +   Gk eeAle +k
  PHY93_16860|PHY93_16860 104 CLELGKKEEALETLK 118
                              6678999****9886 PP

  == domain 3  score: 12.3 bits;  conditional E-value: 0.00014
                      PPR   5 slIsgycknGkleeAlelfkeM 26 
                              +l++ yc  G +e+Ale+++++
  PHY93_16860|PHY93_16860 302 TLVDLYCGQGHIEKALEVLEKI 323
                              89*****************997 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   0.0      0.31   3.4e+02      51      71 ..      32      52 ..      27      58 .. 0.71
   2 ?    6.2   0.0     0.011        13       9      69 ..      66     118 ..      58     118 .. 0.70
   3 ?    4.6   0.0     0.037        41      49      71 ..     301     323 ..     294     327 .. 0.66

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.31
                   TPR_12 51 LgrlyralgryeeAlelleea 71
                             L+++yr+lg +++  e+l + 
  PHY93_16860|PHY93_16860 32 LAETYRKLGMTDKSMEILSQG 52
                             677777777777777666655 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.011
                   TPR_12   9 laavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelle 69 
                              la +++ l+++  + + l+  +e         + + ++ +   ++++++lg+ eeAle l+
  PHY93_16860|PHY93_16860  66 LAFCYFDLKQFNLSYSTLRPLVESN-------R-DNIRLQKLFSEVCLELGKKEEALETLK 118
                              6666666666555555555553333.......3.458999999**************9875 PP

  == domain 3  score: 4.6 bits;  conditional E-value: 0.037
                   TPR_12  49 rnLgrlyralgryeeAlelleea 71 
                              ++L +ly  +g+ e+Ale le+ 
  PHY93_16860|PHY93_16860 301 HTLVDLYCGQGHIEKALEVLEKI 323
                              45556666777777777776664 PP

>> TPR_20  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.3   0.0    0.0051       5.7       8      50 ..      80     122 ..      74     133 .. 0.85
   2 ?    5.6   0.0     0.018        20      24      57 ..     299     332 ..     278     355 .. 0.79

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0051
                   TPR_20   8 laeleaalaanpddldarldlAlallaagryeeAleqLleilk 50 
                               ++l+  +++n d++ ++   +++ l+ g++eeAle L  +l 
  PHY93_16860|PHY93_16860  80 YSTLRPLVESNRDNIRLQKLFSEVCLELGKKEEALETLKYLLF 122
                              67889999*****************************977765 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.018
                   TPR_20  24 arldlAlallaagryeeAleqLleilkrdrkwed 57 
                                + l +++  +g+ e+Ale L +il  + ++++
  PHY93_16860|PHY93_16860 299 VTHTLVDLYCGQGHIEKALEVLEKILLLNPNDQK 332
                              56778899***************99988777754 PP

>> Vps39_1  Vacuolar sorting protein 39 domain 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.1   0.00014      0.16      43      93 ..     301     351 ..     295     357 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00014
                  Vps39_1  43 keLidlYygkklheeALeLlkeladedeedeedsslkgeketiiqylqkls 93 
                              + L+dlY g++  e+ALe+l+++   + +d+++ ++ +e +  +q l++ +
  PHY93_16860|PHY93_16860 301 HTLVDLYCGQGHIEKALEVLEKILLLNPNDQKTIKKIKEIQALVQPLEQYD 351
                              78********************99875555555555555555688777665 PP

>> TPR_9  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.0      0.26     3e+02      41      68 ..     106     133 ..     102     138 .. 0.73
   2 ?    9.1   0.0    0.0013       1.4       5      28 ..     307     330 ..     303     335 .. 0.85
   3 ?   -3.0   0.0       7.7   8.6e+03      47      70 ..     390     413 ..     389     415 .. 0.79

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.26
                    TPR_9  41 qlGclsaAladLeaylalapdapdaeai 68 
                              +lG  ++Al+ L + l ++p + +++a+
  PHY93_16860|PHY93_16860 106 ELGKKEEALETLKYLLFINPRDKEIAAL 133
                              7888888888888888888866665554 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.0013
                    TPR_9   5 aireedweralavverllllaPdd 28 
                              +  + + e+al+v+e +lll+P+d
  PHY93_16860|PHY93_16860 307 YCGQGHIEKALEVLEKILLLNPND 330
                              666789999***********9998 PP

  == domain 3  score: -3.0 bits;  conditional E-value: 7.7
                    TPR_9  47 aAladLeaylalapdapdaeaira 70 
                              a+l dLe   + ++ ++ + +i +
  PHY93_16860|PHY93_16860 390 AELTDLEDVSEEDGRRHLMSLIDE 413
                              678899999999999988888776 PP

>> PPR_1  PPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00014      0.16      12      32 ..     302     322 ..     301     323 .. 0.95

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00014
                              HHHHHHHHTS-HHHHHHHHHH CS
                    PPR_1  12 tLIdGlCkaGrvdeAfelfde 32 
                              tL+d +C +G++++A+e++++
  PHY93_16860|PHY93_16860 302 TLVDLYCGQGHIEKALEVLEK 322
                              9******************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (453 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       709  (0.0395449); expected 358.6 (0.02)
Passed bias filter:                      388  (0.0216409); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                        16  (0.000892409); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              16  [number of targets reported over threshold]
# CPU time: 0.55u 0.21s 00:00:00.76 Elapsed: 00:00:00.39
# Mc/sec: 3506.57
//
Query:       PHY93_19670|PHY93_19670  [L=422]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
   5.1e-126  420.6   0.0   5.9e-126  420.4   0.0    1.0  1  Citrate_synt  Citrate synthase, C-terminal domain


Domain annotation for each model (and alignments):
>> Citrate_synt  Citrate synthase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  420.4   0.0  3.3e-130  5.9e-126       1     361 []      45     407 ..      45     407 .. 0.94

  Alignments for each domain:
  == domain 1  score: 420.4 bits;  conditional E-value: 3.3e-130
                              GGTTEEEEEESSEEEETTTTEEEETTEEHHHHHHHHS-HHHHHHHHHHSS---HHHHHHHHHHHHCTTS--HHHHHHHHCSSTTS- CS
             Citrate_synt   1 glrgvaaleteisevdgekgelrYRGydieeLaeekssfeevaylLltgelPtkeelkefkeelaearklpekvlealealpkdah 86 
                              g++++ ++ ++i+++dge g+lrYRGy+ie+La eks+f ev ylL++g+lPt+++lk f++++a+++klp    + ++a+pkdah
  PHY93_19670|PHY93_19670  45 GFMNTGSCASAITFLDGELGILRYRGYPIEQLA-EKSNFIEVSYLLVYGQLPTADQLKIFSQKIADNSKLPAGAAKIIDAFPKDAH 129
                              7899*****************************.8*************************************************** PP

                              HHHHHHHHHHHHHHHSTTCTCHHH...HHHHHHHHHHHHHHHHHHHHHHHHHHHTTS.-----TTSSHHHHHHHHHHSS---HHHH CS
             Citrate_synt  87 pmavlraavsalsaddeeseakee...seeaalrdalkliAklptiaaaiyrarlgreplepddklsyaenflymlrgkkpdeeea 169
                              pmav +a+  alsa++++++++++    +e+++     +++++ +iaa+ yr+++g ep++ +++lsy+e f++m++g k + e+a
  PHY93_19670|PHY93_19670 130 PMAVASASAVALSAFHHKYNSANPtpaEREEVIA---LMLGQFKSIAAHQYRRSQGLEPIASNPSLSYCEDFMSMMFGGKVNAEVA 212
                              ****************996666663334444444...5679*******************99989************99******* PP

                              HHHHHHHHHHS--SSSHHHHHHHHHHTTT--HHHHHHHHHHHHTSTTTTTHHHHHHHHHHHHSSGG.GHHHHHHHHHHTTT.S--T CS
             Citrate_synt 170 klldlalvlhaDHelnaSTfaarvvaStladlysaiaagigalkGplhgganeavlkmleeigsaeveveeylekvlakek.erlp 254
                              k+ld++l+lhaDHe+n+S+ ++r+v+S  a+++++i+agi al+Gplhggan++vl+ml+ei++a  + +++l+++++k++  +l+
  PHY93_19670|PHY93_19670 213 KALDILLILHADHEQNCSASTVRIVGSGNANVFASISAGIDALWGPLHGGANQEVLEMLAEIQKAGGDYKKALARAKDKNDdFKLM 298
                              **************************************************************77766***********9956**** PP

                              TBC-SSSSS--HHHHHHHHHHHHHHTC.HTHHHHHHHHHHHHHHHHHHHHCHHGCT-EB-THHHHHHHHHHTT--GGGHHHHHHHH CS
             Citrate_synt 255 GfGHrvykksDpRakilkelaeelaee.kgkdpllklaeeleevapevlkekeeknlypNvDfysgvlyralgipeelftvlfais 339
                              GfGHrvyk++DpRaki+k++++++  + + kd+ll++a+ le+ a +++++k+ +nlypNvDfysg++yralgip+++ftv+fa++
  PHY93_19670|PHY93_19670 299 GFGHRVYKNFDPRAKIIKKACDSILTQlGVKDELLDIAKGLEQEALADEYFKS-RNLYPNVDFYSGIIYRALGIPTNMFTVMFAVG 383
                              ***********************9999999999********************.******************************** PP

                              HHHHHHHHHHHHH..HT------E CS
             Citrate_synt 340 RvaGwlAhileql..adnkiiRPr 361
                              R+ Gwl+++ e +  +++ki RPr
  PHY93_19670|PHY93_19670 384 RMPGWLSQWKEMRetKETKISRPR 407
                              ***********87656699****8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (422 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       554  (0.0308997); expected 358.6 (0.02)
Passed bias filter:                      526  (0.0293379); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.36
# Mc/sec: 3538.42
//
Query:       PHY93_19675|PHY93_19675  [L=348]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.2e-12   45.4   0.0      8e-12   45.0   0.0    1.2  1  Rsm22            Mitochondrial small ribosomal subunit Rsm22
     0.0013   18.5   0.0     0.0027   17.5   0.0    1.5  1  Methyltransf_31  Methyltransferase domain
     0.0017   19.0   0.0     0.0037   17.9   0.0    1.7  1  Methyltransf_25  Methyltransferase domain


Domain annotation for each model (and alignments):
>> Rsm22  Mitochondrial small ribosomal subunit Rsm22
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.0   0.0   1.3e-15     8e-12       4     254 ..      63     309 ..      60     334 .. 0.69

  Alignments for each domain:
  == domain 1  score: 45.0 bits;  conditional E-value: 1.3e-15
                    Rsm22   4 siaYalarlpatyavlrrvLdela.ervpdflPkslldvgegpgtalwaaselwe..eleevlvidaseelleiskelaadapelk 86 
                              + aY++  l ++   l+  L +l  +  +df+ + ++d+g+gpgt  +a + l +  +  e++ +d s+ +l  + ++++      
  PHY93_19675|PHY93_19675  63 VSAYTAFYLTTNIPKLHFLLSKLPgDVLDDFKNRPFIDMGSGPGTFSLAWKMLMKtpGHVEMIGVDHSQIMLDQATKIMNGFFPK- 147
                              678888888888888888888886256799***********************99555666667777777777666666655443. PP

                    Rsm22  87 eaalrrsvirealeleea...dLviisyvLleledesreklvknlWakaskilvivEeGtpaGfrrvleaRealkaagfhivAPCP 169
                                    +  +  +++ee+    ++   + ++e+  ++ ++ +  +     ++++ +E+Gt + f  ++++R+++  ++  ++ PCP
  PHY93_19675|PHY93_19675 148 ------DKFQTVRKFEEQksnSILFFGHSINEMGRQKAQDHIMTI---DPEYVMWIEPGTSEIFPELIKLRDVML-DHYDVLYPCP 223
                              ......333444444444222777777777777766666666555...778*********************975.67899***** PP

                    Rsm22 170 HeaaCPlvatedwChFsqrva.Rlslhrlak...sasvpvedekfsyvakerqprasaaaRvvrptkvrskkvlidlCse.detlq 250
                               +aaCP     +wCh   r++   s++rl +      +      ++y +k+++p+  +aa v+r  +  +     ++C+  +++ +
  PHY93_19675|PHY93_19675 224 GNAACPN----EWCHQVLRIThDPSIERLSQlvsLDRKILPMTAHVYRRKSKTPVVISAATVIRYIQETKFSFEYEVCHLvEGQNK 305
                              ******4....7***999987544555555533122334456789999**********9999999999988888888874133333 PP

                    Rsm22 251 rlvv 254
                              ++++
  PHY93_19675|PHY93_19675 306 NSII 309
                              3333 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.0   4.4e-07    0.0027       3      48 ..      94     141 ..      92     165 .. 0.82

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 4.4e-07
          Methyltransf_31   3 kglrvlDlGCGtGeltfelaeelgp..kaevvGiDiseeaielArena 48 
                              k+ +++D G+G G++++++  ++ +  + e++G+D s+ ++ +A+++ 
  PHY93_19675|PHY93_19675  94 KNRPFIDMGSGPGTFSLAWKMLMKTpgHVEMIGVDHSQIMLDQATKIM 141
                              67789***************9555523667**************9964 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.0   6.2e-07    0.0037       2      47 ..      99     142 ..      98     187 .. 0.74

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 6.2e-07
                              EEET-TTSHHHHHHHCTS...TSSEEEEEESSHHHHHHHHHHHHHTTTT CS
          Methyltransf_25   2 LdlGcGtGrltlalakrl...gkakvtgvDiseemleaareraeeegln 47 
                              +d+G G+G+++la+   +   g+ +++gvD s+ ml++a + +     n
  PHY93_19675|PHY93_19675  99 IDMGSGPGTFSLAWKMLMktpGHVEMIGVDHSQIMLDQATKIM-----N 142
                              69*********999888776569****************9877.....3 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (348 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       566  (0.031569); expected 358.6 (0.02)
Passed bias filter:                      360  (0.0200792); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.36
# Mc/sec: 2922.21
//
Query:       PHY93_19680|PHY93_19680  [L=69]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.9e-29  101.7   0.5    2.1e-29  101.5   0.5    1.0  1  Ribosomal_L31  Ribosomal protein L31


Domain annotation for each model (and alignments):
>> Ribosomal_L31  Ribosomal protein L31
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  101.5   0.5   1.2e-33   2.1e-29       1      67 []       1      64 [.       1      64 [. 0.99

  Alignments for each domain:
  == domain 1  score: 101.5 bits;  conditional E-value: 1.2e-33
            Ribosomal_L31  1 mKkgiHPeyrevvvkcacgeefltrStlkekpeikvdvcsksHPfYtGkqklvdtaGrvekFkkryg 67
                             mK+giHP+y  ++v+c cg+ ++t+St    ++ k+d+c ++HPfYtGk+k++dt+Gr+ekFkk++g
  PHY93_19680|PHY93_19680  1 MKEGIHPKYDAMTVNCVCGAVYETKST---VKLEKIDICAACHPFYTGKTKILDTEGRIEKFKKKFG 64
                             9**************************...999*********************************7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (69 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       532  (0.0296726); expected 358.6 (0.02)
Passed bias filter:                      312  (0.017402); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.35u 0.24s 00:00:00.59 Elapsed: 00:00:00.38
# Mc/sec: 550.53
//
Query:       PHY93_19685|PHY93_19685  [L=95]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.032   14.6   0.0      0.033   14.5   0.0    1.1  1  SusD-like_3      Starch-binding associating with outer membra
        0.1   12.1   0.0        0.1   12.1   0.0    1.1  1  Glycolipid_bind  Putative glycolipid-binding


Domain annotation for each model (and alignments):
>> SusD-like_3  Starch-binding associating with outer membrane
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0   3.7e-06     0.033     129     168 ..      31      74 ..      10      86 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 3.7e-06
              SusD-like_3 129 vpyttaseae....akleraTvqevydkIikDlkeAiellpkes 168
                              +p++++ e e    ++l+ + +qe  ++I +Dl++A+ell++++
  PHY93_19685|PHY93_19685  31 APIENSDEVEiqylVTLTDKDYQELFQSIHQDLNNALELLNEKY 74 
                              466654444444556789999********************987 PP

>> Glycolipid_bind  Putative glycolipid-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   1.1e-05       0.1      35      96 ..      35      94 ..       5      95 .] 0.80

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 1.1e-05
                             TTT--EEEEEE.EE-TTS-EEEEEEEEEETTEEEEEEEEE-SSS-EEETT--B-GGGTT--EE CS
          Glycolipid_bind 35 egealalsYel.etdadwrtrrlsvkvataeeerslslerdeegeWlvdageerpdldgcldv 96
                             ++++++++Y +  td+d++    s++    + ++ l+l +++ g+W +++  ++ d dgc  +
  PHY93_19685|PHY93_19685 35 NSDEVEIQYLVtLTDKDYQELFQSIHQ---DLNNALELLNEKYGHWELQDALNKTDGDGCSSC 94
                             455577999994578888888888888...45599***************98999999*9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (95 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       966  (0.0538792); expected 358.6 (0.02)
Passed bias filter:                      726  (0.0404931); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.41u 0.25s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 709.78
//
Query:       PHY93_11090|PHY93_11090  [L=95]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-13   51.4   0.0    1.3e-13   51.1   0.0    1.1  1  AAA_14           AAA domain
      3e-05   24.3   0.0     0.0042   17.4   0.0    2.1  2  AAA_22           AAA domain
    4.8e-05   23.8   0.0    6.3e-05   23.4   0.0    1.1  1  AAA              ATPase family associated with various cellul
    7.4e-05   22.8   0.2     0.0085   16.0   0.0    2.0  2  ATPase_2         ATPase domain predominantly from Archaea
    0.00031   20.5   0.0    0.00042   20.1   0.0    1.2  1  AAA_24           AAA domain
      0.001   18.5   0.1       0.26   10.6   0.0    2.1  2  TniB             Bacterial TniB protein
     0.0011   18.9   0.0       0.69    9.8   0.0    2.1  2  NTPase_1         NTPase
     0.0019   18.4   0.3       0.23   11.7   0.0    2.1  2  Roc              Ras of Complex, Roc, domain of DAPkinase
  ------ inclusion threshold ------
      0.012   16.1   0.0      0.068   13.6   0.0    1.8  2  AAA_16           AAA ATPase domain
      0.014   15.0   0.0       0.07   12.7   0.0    1.9  2  Ras              Ras family
      0.018   14.8   0.0      0.024   14.4   0.0    1.1  1  Viral_helicase1  Viral (Superfamily 1) RNA helicase
      0.023   14.4   0.1        1.5    8.5   0.0    2.0  2  AAA_30           AAA domain
      0.034   14.5   0.0      0.048   14.1   0.0    1.2  1  RNA_helicase     RNA helicase
      0.041   13.4   0.0      0.048   13.2   0.0    1.1  1  AAA_7            P-loop containing dynein motor region
      0.079   12.7   0.0      0.092   12.5   0.0    1.2  1  AAA_11           AAA domain


Domain annotation for each model (and alignments):
>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.1   0.0   1.1e-16   1.3e-13       4      81 ..      24      94 ..      21      95 .] 0.84

  Alignments for each domain:
  == domain 1  score: 51.1 bits;  conditional E-value: 1.1e-16
                   AAA_14  4 ilvitGaRrvGKTtllkqlikellvkkesilyinldderdkkladpekllelileklkeekktylflDEiqevpewek 81
                             + vi G+R+vGKTt + ++++e+   ++++l+++ d+  +++++    lle++ +  ++ ++++l++DEiq++++w+ 
  PHY93_11090|PHY93_11090 24 LQVIIGPRQVGKTTTVLKYLNENH--PDKFLFYSADEVFNATSNW---LLEIWSKA-RS-ENKILVIDEIQKCENWSA 94
                             579*****************9999..9*********977765443...56777775.44.7899************86 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.0   3.5e-06    0.0042       6      47 ..      23      56 ..      18      67 .. 0.79
   2 ?    5.2   0.0     0.019        23      88     102 ..      73      88 ..      63      93 .. 0.72

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 3.5e-06
                   AAA_22  6 gilvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtl 47
                              + v++G+  +GKTt++ ++l++++        +++++f+ +
  PHY93_11090|PHY93_11090 23 LLQVIIGPRQVGKTTTVLKYLNENH--------PDKFLFYSA 56
                             5669*******************96........666666655 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.019
                   AAA_22  88 arav.ielliiDEaqh 102
                              +++   ++l+iDE+q+
  PHY93_11090|PHY93_11090  73 KARSeNKILVIDEIQK 88 
                              3333467*******97 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.4   0.0   5.3e-08   6.3e-05       3      69 ..      27      88 ..      25      92 .. 0.92

  Alignments for each domain:
  == domain 1  score: 23.4 bits;  conditional E-value: 5.3e-08
                             EESSTTSSHHHHHHHHHHHHT.HEEEEEETTTCSSSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGG CS
                      AAA  3 lyGppGtGKTllakavakelg.vefleisgsellskyvgesekkirelfkeakekakpsilfiDEida 69
                             ++Gp  +GKT+++    +e +  +fl  s+ e++     ++++ + e++++a++++  +il+iDEi +
  PHY93_11090|PHY93_11090 27 IIGPRQVGKTTTVLKYLNENHpDKFLFYSADEVF----NATSNWLLEIWSKARSEN--KILVIDEIQK 88
                             79***********999999766889********9....89**************99..********86 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.0   7.1e-06    0.0085      10      54 ..      12      54 ..      10      58 .. 0.77
   2 !    6.2   0.0    0.0074       8.8      99     131 ..      56      90 ..      43      93 .. 0.79

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 7.1e-06
                 ATPase_2 10 eleeilerepneiyfiYGpegsGKtaLlkeiienledkdkyviyy 54
                             +l e l +++   ++i Gp+++GKt+ + + +++ +   ++ ++y
  PHY93_11090|PHY93_11090 12 KLAESLAMKNGLLQVIIGPRQVGKTTTVLKYLNENHP--DKFLFY 54
                             57788889999**************988888877633..234444 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.0074
                 ATPase_2  99 sklvfkaielllekikkkgkk..iiiiiDelqkli 131
                                +vf+a ++ l +i  k++    i++iDe+qk  
  PHY93_11090|PHY93_11090  56 ADEVFNATSNWLLEIWSKARSenKILVIDEIQKCE 90 
                              567888999999999888777789********975 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.1   0.0   3.5e-07   0.00042       6      78 ..      26      90 ..      21      94 .. 0.88

  Alignments for each domain:
  == domain 1  score: 20.1 bits;  conditional E-value: 3.5e-07
                   AAA_24  6 liyGpsgiGKTtlakel.....gpkplfidtekGlksldadkfpdieswedfldevvelaaeladyktlviDtidele 78
                             +i+Gp  +GKTt+++++     ++k+lf   ++ ++++ ++ ++              ++++ ++ k+lviD i++ e
  PHY93_11090|PHY93_11090 26 VIIGPRQVGKTTTVLKYlnenhPDKFLFYSADEVFNATSNWLLE-------------IWSKARSENKILVIDEIQKCE 90
                             89*********************************999999975.............468888888999999988765 PP

>> TniB  Bacterial TniB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.6   0.0   0.00022      0.26      39      62 ..      26      49 ..       3      62 .. 0.77
   2 !    6.2   0.0     0.005         6     119     133 ..      77      91 ..      73      95 .] 0.82

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00022
                     TniB 39 llvGdsnnGKtmivekFarlhppe 62
                             +++G+ ++GKt+ v k+ ++++p+
  PHY93_11090|PHY93_11090 26 VIIGPRQVGKTTTVLKYLNENHPD 49
                             58***************9766554 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.005
                     TniB 119 kvrvLiiDEihnlla 133
                              + ++L+iDEi+++++
  PHY93_11090|PHY93_11090  77 ENKILVIDEIQKCEN 91 
                              679********9976 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.5   0.0     0.003       3.6       4      21 ..      27      44 ..      25      51 .. 0.86
   2 !    9.8   0.0   0.00058      0.69      81     111 ..      63      93 ..      55      95 .] 0.84

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.003
                             EE--TTSSHHHHHHHHHH CS
                 NTPase_1  4 iTGppGvGKtTlvkkvle 21
                             i Gp +vGKtT v k l+
  PHY93_11090|PHY93_11090 27 IIGPRQVGKTTTVLKYLN 44
                             77***********99876 PP

  == domain 2  score: 9.8 bits;  conditional E-value: 0.00058
                              HHHHHHHHHHHHHHHH-EEEE---STTGGG- CS
                 NTPase_1  81 feelalealrkalseadviviDEiGkmElks 111
                               ++  le+ +ka se+ ++viDEi k E  s
  PHY93_11090|PHY93_11090  63 TSNWLLEIWSKARSENKILVIDEIQKCENWS 93 
                              56778899999*************9999765 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.7   0.0   0.00019      0.23       3      24 ..      26      47 ..      25      52 .. 0.88
   2 ?    5.3   0.1     0.018        22      86     118 ..      53      86 ..      46      88 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00019
                             EEESSTTSSHHHHHHCHCT-CC CS
                      Roc  3 vlvGdsgvGKtsllkrfvedkf 24
                             v++G  +vGKt+ + ++++++ 
  PHY93_11090|PHY93_11090 26 VIIGPRQVGKTTTVLKYLNENH 47
                             79***************99876 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.018
                              EEE.GHHHHCHHHHHHHHHHHCSSS-EEEEEE-T CS
                      Roc  86 vyd.srssenlkeWlkelkkvagkspvilvgnki 118
                              +y  ++ ++  ++Wl e+ ++a++++ ilv+ +i
  PHY93_11090|PHY93_11090  53 FYSaDEVFNATSNWLLEIWSKARSENKILVIDEI 86 
                              455245678889******9999999888887665 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   5.7e-05     0.068      17      58 ..      15      56 ..       8      77 .. 0.76
   2 ?    1.4   0.0       0.3   3.6e+02     128     147 ..      72      89 ..      54      94 .. 0.70

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 5.7e-05
                   AAA_16 17 ervrsgrpelvllsGesGvGKsslvrellralekdggiflrg 58
                             e++++  + l +++G++ vGK++ v + l++   d+++f ++
  PHY93_11090|PHY93_11090 15 ESLAMKNGLLQVIIGPRQVGKTTTVLKYLNENHPDKFLFYSA 56
                             566677778999*************99888888877766444 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.3
                   AAA_16 128 allsrderplvlvlDdlqwa 147
                              ++++++    +lv+D++q+ 
  PHY93_11090|PHY93_11090  72 SKARSEN--KILVIDEIQKC 89 
                              5555534..49******964 PP

>> Ras  Ras family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   5.9e-05      0.07       3      28 ..      26      51 ..      25      77 .. 0.83
   2 ?    1.2   0.0       0.2   2.4e+02      84     110 ..      57      83 ..      51      91 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 5.9e-05
                             EEEESTTSSHHHHHHHHHHSSCSSSC CS
                      Ras  3 vlvGdsavGKtslllrfvkdkFkeey 28
                             v++G ++vGKt+ +l++ +++ ++++
  PHY93_11090|PHY93_11090 26 VIIGPRQVGKTTTVLKYLNENHPDKF 51
                             89*****************9999876 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.2
                              HHHHHTHHHHHHHHHHHSTTTSEEEEE CS
                      Ras  84 resfenvkkwveeikrvaeenvpivLv 110
                               e f+  ++w+ ei ++a+++ +i+++
  PHY93_11090|PHY93_11090  57 DEVFNATSNWLLEIWSKARSENKILVI 83 
                              467999999999999999965555554 PP

>> Viral_helicase1  Viral (Superfamily 1) RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0     2e-05     0.024      10      75 ..      34      90 ..      33      93 .. 0.88

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 2e-05
          Viral_helicase1 10 GKStlirkllrtsliltvnrptaelltegkpklpnlsvrtvdsflmalvkstkgkililDEylllh 75
                             GK+t + k l++      n+p   l+  + +  ++ s++ ++ + +a+++   +kil++DE+++++
  PHY93_11090|PHY93_11090 34 GKTTTVLKYLNE------NHPDKFLFYSADEVFNATSNWLLEIWSKARSE---NKILVIDEIQKCE 90
                             9***********......8888888888888888888999******9986...7********9976 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.5   0.0    0.0013       1.5       9      36 ..      13      40 ..      11      50 .. 0.82
   2 ?    4.4   0.0     0.022        26      81     103 ..      67      92 ..      45      95 .] 0.69

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.0013
                   AAA_30  9 avealltsgdrvavltGpAGtGKttalk 36
                             ++e+l++++ +++v+ Gp   GKtt++ 
  PHY93_11090|PHY93_11090 13 LAESLAMKNGLLQVIIGPRQVGKTTTVL 40
                             68899999***************98754 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.022
                   AAA_30  81 k...grarlepgtllivDEagmvdtk 103
                                  + ++ +++++l++DE+  + ++
  PHY93_11090|PHY93_11090  67 LleiWSKARSENKILVIDEIQKCENW 92 
                              144444455677*******9888776 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0     4e-05     0.048       2      62 ..      26      90 ..      25      94 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 4e-05
             RNA_helicase  2 wlyGpsgeGKStla.keLakallkklklkkkdsvys..rnpeddfwdgYt.gqevvvidDfgqvk 62
                             ++ Gp+++GK+t++ k+L ++  +k+ + ++d+v+    n   ++w++ + +++++vid++ +++
  PHY93_11090|PHY93_11090 26 VIIGPRQVGKTTTVlKYLNENHPDKFLFYSADEVFNatSNWLLEIWSKARsENKILVIDEIQKCE 90
                             689*******9765277888899999999999998755777899**99998999******99987 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0     4e-05     0.048      28      73 ..      17      62 ..       8      77 .. 0.80

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 4e-05
                    AAA_7 28 lllknkkpvllvGptGtGKtviikdllkkldkekylsltinfsaqt 73
                             l +kn+   +++Gp  +GKt+++ ++l++ +++k+l+ +     + 
  PHY93_11090|PHY93_11090 17 LAMKNGLLQVIIGPRQVGKTTTVLKYLNENHPDKFLFYSADEVFNA 62
                             56778888899********************9**998776555555 PP

>> AAA_11  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   7.7e-05     0.092      12      58 ..      17      81 ..       6      90 .. 0.66

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 7.7e-05
                   AAA_11 12 salseseitliqGPPGtgKTktivellsqll.........sr.........rkseeeksakpriL 58
                              a+++  +++i GP   gKT+t++++l++ +          +          +   +++ +++iL
  PHY93_11090|PHY93_11090 17 LAMKNGLLQVIIGPRQVGKTTTVLKYLNENHpdkflfysaDEvfnatsnwlLEIWSKARSENKIL 81
                             456666699********************985555554440044433334411333456666666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (95 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       579  (0.032294); expected 358.6 (0.02)
Passed bias filter:                      457  (0.0254894); expected 358.6 (0.02)
Passed Vit filter:                        59  (0.00329076); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.38
# Mc/sec: 744.06
//
Query:       PHY93_11095|PHY93_11095  [L=477]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
     0.0033   17.0   0.0     0.0064   16.1   0.0    1.4  1  Glyco_hydro_cc  Glycosyl hydrolase catalytic core
  ------ inclusion threshold ------
      0.082   13.0   0.0       0.19   11.8   0.0    1.5  1  Alpha-L-AF_C    Alpha-L-arabinofuranosidase C-terminal domain


Domain annotation for each model (and alignments):
>> Glyco_hydro_cc  Glycosyl hydrolase catalytic core
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   7.1e-07    0.0064      66     146 ..     161     247 ..     147     256 .. 0.74

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 7.1e-07
           Glyco_hydro_cc  66 enskylLgF...NePDl..ks...qsnmspeeAaklwkqliqplr.e.kgvklvsPavaatnseegleWldeFleacskdckvdfl 141
                              ++ + lL+F   NePDl   +       +++   + +  + ++++ e  g++l++P     n  + leWl  F++a s   ++ f 
  PHY93_11095|PHY93_11095 161 ASKEELLAFeigNEPDLfvLQglrTNPWNVSSYIDQYNVYQKTIQkEvAGAHLSGPGL--GNFITSLEWLPPFMTAES--KNLTFA 242
                              46667777777799999542235455556666666677777777756899********..444568**********99..79**** PP

           Glyco_hydro_cc 142 avHwY 146
                              +vH+Y
  PHY93_11095|PHY93_11095 243 SVHFY 247
                              ***** PP

>> Alpha-L-AF_C  Alpha-L-arabinofuranosidase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   2.1e-05      0.19      63     135 ..     357     446 ..     345     452 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 2.1e-05
                              TTE.EEE-HHHHHHHHHHHS--SEEEEEEEE--EE.......EEEEEET...............SS--EEEEEEETT-.-SEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.......xxxxxxx...............xxxxxxxxxxxxxxxxxxxxxx RF
             Alpha-L-AF_C  63 dngkvvgtpsYyvqklfsknaggtvlpvelespky.......eikgege...............aeeavevevdleglekaskaev 126
                              ++g+++ +p+Yy +  f++ a+g ++pve+++++        +                     ++++++v++++++ +++++ + 
  PHY93_11095|PHY93_11095 357 KSGSYFPRPIYYGMLFFNEAAKGFLVPVEIKNEDSlanfsiyS-----SvqqdhtlritvinkdPQKTLNVQIRISD-KNYQSGKM 436
                              788999*************************777657554330.....24456778888888887778899999988.57888887 PP

                              EEE.E-STT- CS
                              xxx.xxxxxx RF
             Alpha-L-AF_C 127 tvl.sgdlka 135
                              + l + +l+a
  PHY93_11095|PHY93_11095 437 IQLlAPSLDA 446
                              7774546666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (477 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       452  (0.0252106); expected 358.6 (0.02)
Passed bias filter:                      409  (0.0228122); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.20s 00:00:00.78 Elapsed: 00:00:00.39
# Mc/sec: 3626.72
//
Query:       PHY93_11100|PHY93_11100  [L=169]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-47  160.5   0.0      2e-47  160.3   0.0    1.1  1  SelR      SelR domain


Domain annotation for each model (and alignments):
>> SelR  SelR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  160.3   0.0   1.1e-51     2e-47       1     121 []      34     153 ..      34     153 .. 0.98

  Alignments for each domain:
  == domain 1  score: 160.3 bits;  conditional E-value: 1.1e-51
                              HHHCTSHCCHHHHHHHTT-SSTTSSSTSS--SSCEEEETTTS-EEEECCCCE-STTSSSEESS-STTTTEEEEEEECTTSEEEEEE CS
                     SelR   1 elkkkLtpeqyevlrekgterpftgeyekekekGvyecavcgepLfssetkfdsgcGwpsFaeaikeeavkekkdtslgmertevv 86 
                              elkkkLtp qyev++e+gterpf++ey++++++G+y+++v+gepLfss +kf+sg+GwpsF+++i+ +++ +k++++l  + tev+
  PHY93_11100|PHY93_11100  34 ELKKKLTPIQYEVTQEEGTERPFKNEYNDNHKEGIYVDIVSGEPLFSSLDKFESGTGWPSFTKPIAPQNIVTKTERKLFSTITEVR 119
                              689*********************************************************************************** PP

                              ETTCECEEEEEECTSSSSS.SEEEEE-CCCEEEEE CS
                     SelR  87 cakcdahlGhvFedgpkpttgkrycinsvslkfkp 121
                              ++ +++hlGhvF+dgp+pt g+ryc+ns+slkf p
  PHY93_11100|PHY93_11100 120 SKYANSHLGHVFNDGPAPT-GQRYCMNSASLKFIP 153
                              *****************95.*************86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (169 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       310  (0.0172904); expected 358.6 (0.02)
Passed bias filter:                      277  (0.0154498); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.19s 00:00:00.59 Elapsed: 00:00:00.35
# Mc/sec: 1452.54
//
Query:       PHY93_11105|PHY93_11105  [L=201]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.2e-21   76.8   0.0    2.4e-21   75.9   0.0    1.5  1  GST_N     Glutathione S-transferase, N-terminal domain
    4.4e-14   52.6   0.0    9.5e-14   51.6   0.0    1.5  2  GST_N_3   Glutathione S-transferase, N-terminal domain
      1e-12   48.1   0.0      3e-12   46.7   0.0    1.7  2  GST_N_2   Glutathione S-transferase, N-terminal domain
    2.8e-12   46.7   0.0    4.4e-12   46.1   0.0    1.3  1  GST_C     Glutathione S-transferase, C-terminal domain
    1.8e-09   37.7   0.0      3e-09   37.0   0.0    1.4  1  GST_C_3   Glutathione S-transferase, C-terminal domain
    4.2e-07   29.9   0.0    6.9e-07   29.2   0.0    1.3  1  GST_C_2   Glutathione S-transferase, C-terminal domain


Domain annotation for each model (and alignments):
>> GST_N  Glutathione S-transferase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   75.9   0.0     8e-25   2.4e-21       3      75 ..       2      73 ..       1      74 [. 0.97

  Alignments for each domain:
  == domain 1  score: 75.9 bits;  conditional E-value: 8e-25
                             EEEESSSTSHTHHHHHHHHHHTT-EEEEEEECSTTTCGGCHHHHHHCTTS-SSEEEETTEEEESHHHHHHHHH CS
                    GST_N  3 ltlysirgsprahrirlllaakgveyevvpldfeageekspellklnplgkvPaLedngkkltESraIleYia 75
                             +tly+ ++ + a r+ ++l+++gv+y  +++d+ ++e+ks+e+lk+np gkvPaL+d++++l+ES+aI++Yia
  PHY93_11105|PHY93_11105  2 ITLYGSPR-SSAGRCFWTLEEAGVPYTLKEVDMRNKEHKSAEFLKINPMGKVPALVDGDLTLFESMAINYYIA 73
                             69999999.888************************************************************8 PP

>> GST_N_3  Glutathione S-transferase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.6   0.0   3.2e-17   9.5e-14       1      72 [.       4      77 ..       4      84 .. 0.91
   2 ?   -3.4   0.0       4.7   1.4e+04      31      48 ..     117     134 ..     113     139 .. 0.72

  Alignments for each domain:
  == domain 1  score: 51.6 bits;  conditional E-value: 3.2e-17
                             EES-TTSHHHHHHHHHHHHHT--EEEE---...TTTTHHHHHHH-TT--SSEEETTS-EEESHHHHHHHHHHHH- CS
                  GST_N_3  1 LygfpaSpyarrvrlaLnekglpvevvevt...pgehdeellaknplgkvPvLeddgealtdSlaIidyLeelyp 72
                             Lyg+p S  a r+ ++L+e g+p+++ ev+   ++++++e+l++np gkvP+L+d++  l++S aI  y+ ++y 
  PHY93_11105|PHY93_11105  4 LYGSPRSS-AGRCFWTLEEAGVPYTLKEVDmrnKEHKSAEFLKINPMGKVPALVDGDLTLFESMAINYYIADTYK 77
                             899***99.99**************999974435556*********************************99996 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 4.7
                              TTTTHHHHHHH-TT--SS CS
                  GST_N_3  31 pgehdeellaknplgkvP 48 
                              p++++++   +n l+k+P
  PHY93_11105|PHY93_11105 117 PDDKRDNNIIENNLKKLP 134
                              667777777777778877 PP

>> GST_N_2  Glutathione S-transferase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.7   0.0     1e-15     3e-12       5      69 ..      12      74 ..      10      75 .. 0.91
   2 ?   -2.6   0.0       2.5   7.3e+03      13      24 ..     129     140 ..     127     155 .. 0.71

  Alignments for each domain:
  == domain 1  score: 46.7 bits;  conditional E-value: 1e-15
                             HHHHHHHHHHCT--EEEEEEH...-TTSHHHHHHHHCTTTSSSEEE-CTTEEEESHHHHHHHHHH CS
                  GST_N_2  5 ahRvlialalkglediisvvvlepkgfekseefprlnprgtVPvLwdkdgqvineSseIlrylet 69
                             a R+ ++l++ g+++++++v ++++ ++ks+ef+++np g+VP+L+d +   + eS +I  y+++
  PHY93_11105|PHY93_11105 12 AGRCFWTLEEAGVPYTLKEV-DMRNKEHKSAEFLKINPMGKVPALVD-GDLTLFESMAINYYIAD 74
                             6799****************.66888999*****************9.667********999876 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 2.5
                              HHCT--EEEEEE CS
                  GST_N_2  13 alkglediisvv 24 
                              +lk+l+d ++v+
  PHY93_11105|PHY93_11105 129 NLKKLPDLLNVL 140
                              578888877775 PP

>> GST_C  Glutathione S-transferase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.1   0.0   1.5e-15   4.4e-12       7      93 .]     108     193 ..     102     193 .. 0.89

  Alignments for each domain:
  == domain 1  score: 46.1 bits;  conditional E-value: 1.5e-15
                              HHHHHHHSTTH.HHHHHHHHHHHHHHHHHHHHHHHHHHTSSSSSTTSSCHHHHHHHHHHHHHHHHTTTTTTTTSHHHHHHHHHHHT CS
                    GST_C   7 qilllfyvkae.ekkeelvdealekvaevlsaleeelkkqdylvGdkltlADialvpilnwlqrlglafgqekfpnlkawlerima 91 
                              +i++  +++++ +++    +++l+k+   l++l+  l++++yl+Gd++t+ADi+ + ++ + +++g++++   +pn+  wl  i+ 
  PHY93_11105|PHY93_11105 108 EIFIQKVFMPDdKRDNNIIENNLKKLPDLLNVLNSSLEGKKYLIGDHFTIADINTASVVSICAMIGVDLK--SYPNIEGWLGAISD 191
                              555555555554999999***************************************************7..***********999 PP

                              SH CS
                    GST_C  92 rp 93 
                              rp
  PHY93_11105|PHY93_11105 192 RP 193
                              98 PP

>> GST_C_3  Glutathione S-transferase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.0   0.0   9.9e-13     3e-09      19      96 ..     123     199 ..     101     201 .] 0.81

  Alignments for each domain:
  == domain 1  score: 37.0 bits;  conditional E-value: 9.9e-13
                              HHHHHHHHHHHHCHHHHHHHHHHCHGTSSSSTTS--HHHHHHHHHHHHHHHHTCC.CC-HHHHHHHHHHHTSHHHHHHH CS
                  GST_C_3  19 ekkkefleerlpkflkyfekvlkkkgggylvgdklTyADlalfqvldgleeaeal.kkfpklkalyervearpkikaYl 96 
                              ++  e   ++lp+ l++++  l+  g++yl+gd++T+AD+   +v++ +  ++ + k++p++  +  +++ rp+ ++Y 
  PHY93_11105|PHY93_11105 123 NNIIENNLKKLPDLLNVLNSSLE--GKKYLIGDHFTIADINTASVVSICAMIGVDlKSYPNIEGWLGAISDRPAYQKYQ 199
                              55556666788999999999999..999***********************95556******************99996 PP

>> GST_C_2  Glutathione S-transferase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.2   0.0   2.3e-10   6.9e-07       4      67 ..     126     186 ..     123     188 .. 0.91

  Alignments for each domain:
  == domain 1  score: 29.2 bits;  conditional E-value: 2.3e-10
                              HCHHHHHCCHCHHHCTTT---SS.CTTCS--HHHHHHHHHHHHHHHHHHS----TT-HHHHHHH CS
                  GST_C_2   4 veraleqldaaldaleahLadspflfGdqptlaDialapflvrlraagpgfdireaypnlraWl 67 
                              +e+ l++l   l +l++ L+++ +l Gd++t+aDi+ a ++  +  +g      ++ypn+  Wl
  PHY93_11105|PHY93_11105 126 IENNLKKLPDLLNVLNSSLEGKKYLIGDHFTIADINTASVVSICAMIG---VDLKSYPNIEGWL 186
                              667778888899************************************...6789********8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (201 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       432  (0.024095); expected 358.6 (0.02)
Passed bias filter:                      415  (0.0231469); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.43u 0.20s 00:00:00.63 Elapsed: 00:00:00.37
# Mc/sec: 1629.89
//
Query:       PHY93_11110|PHY93_11110  [L=173]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.4e-27   96.3   0.0    1.7e-27   96.1   0.0    1.1  1  FMN_red         NADPH-dependent FMN reductase
    4.1e-06   26.7   0.0    5.4e-06   26.2   0.0    1.3  1  Flavodoxin_2    Flavodoxin-like fold
  ------ inclusion threshold ------
      0.035   14.4   0.0       0.11   12.8   0.0    1.8  2  preATP-grasp_3  pre ATP-grasp 3 domain


Domain annotation for each model (and alignments):
>> FMN_red  NADPH-dependent FMN reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   96.1   0.0   2.8e-31   1.7e-27       2     152 ..       2     143 ..       1     146 [. 0.94

  Alignments for each domain:
  == domain 1  score: 96.1 bits;  conditional E-value: 2.8e-31
                              EEEEEES--STT-HHHHHHHHHHCCT-T.T-CEEEEETTTS.--..---HCHGHTCGGSHHHHHHHHHHHH-SCEEEEEEECTTCE CS
                  FMN_red   2 kilvisGSlrkgsntrklaewaaealkeagaevelidladlilpcalcdkdlesegqtsddvaellekiaaadaliivtPeYngsy 87 
                              kil+isGSlr+ s++ +++ ++ e ++ +  e++l+d  dl lp   ++ d e+  +  + ++ ++e i+++da++i++PeY +++
  PHY93_11110|PHY93_11110   2 KILAISGSLRASSSNTAILMAVRELAPSS-SEIKLFDGLDL-LP--HFNPDRET--ESIPSLEYFREEIKKCDAVLICSPEYAHGI 81 
                              9*************************995.9******9999.88..77766644..58999************************* PP

                              -HHHHHHHHCHT-.SSCHCCTT-EEEEEEE-SSTTTTHHHHHHHHHHHHHTT-EEEECSEEEETS CS
                  FMN_red  88 sgllKnalDrlsrtrgkkelrgKpvalvavgggrrgglraeeqlrqvlaelgaivvpraavavgk 152
                              +g lKnalD+++   g+ el gKp++++ + +   g   a+e+l  +l  + a+v+p++++a+ k
  PHY93_11110|PHY93_11110  82 PGTLKNALDWVV---GSGELIGKPIGIINATPMYEGRNFAQESLVEILQTMSAVVLPENTLAITK 143
                              ***********8...9******************************************9999876 PP

>> Flavodoxin_2  Flavodoxin-like fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.2   0.0   9.1e-10   5.4e-06       2     110 ..       2      99 ..       1     132 [. 0.78

  Alignments for each domain:
  == domain 1  score: 26.2 bits;  conditional E-value: 9.1e-10
                              EEEEEE--TTGGCCHHHCHHHHHHHHHCCCTTTEEEEEEHHCCT-----CCCCHCCHHHHTTC.HHHHHHHHHHHHCSSEEEEEEE CS
             Flavodoxin_2   2 kiLiinahprpeksfssalaqafvealekagphevtvrdLyadflpvlttrdlaaklayeekp.adveseqiekllaadaivlqfP 86 
                              kiL i ++ r  +s++ a++ a+ e + +++  e++ +d  ++ lp++++       + e+++ +  e  + e+++ +da+++ +P
  PHY93_11110|PHY93_11110   2 KILAISGSLRA-SSSNTAILMAVRELAPSSS--EIKLFDGLDL-LPHFNP-------DRETESiPSLEYFR-EEIKKCDAVLICSP 75 
                              8*********9.4776777776666666655..6888887775.899987.......44444445555555.9************* PP

                              -BTTB--HHHHHHHHHHS-TTTSC CS
             Flavodoxin_2  87 lwwfgvPailKgwiDrvltagfaf 110
                               +  g+P  lK+ +D v+  g   
  PHY93_11110|PHY93_11110  76 EYAHGIPGTLKNALDWVVGSGELI 99 
                              *****************9888755 PP

>> preATP-grasp_3  pre ATP-grasp 3 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   1.9e-05      0.11      32      51 ..      58      77 ..      45      97 .. 0.88
   2 ?   -1.9   0.0      0.73   4.3e+03      54      67 ..     125     138 ..     123     142 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 1.9e-05
           preATP-grasp_3 32 etfrrlaaeaDaVlvIAPEt 51
                             e+fr+ ++++DaVl+  PE 
  PHY93_11110|PHY93_11110 58 EYFREEIKKCDAVLICSPEY 77
                             89*****************6 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 0.73
           preATP-grasp_3  54 iLarltrlveaagk 67 
                              iL++++++v  ++ 
  PHY93_11110|PHY93_11110 125 ILQTMSAVVLPENT 138
                              89999999987765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (173 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       306  (0.0170673); expected 358.6 (0.02)
Passed bias filter:                      276  (0.0153941); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.40u 0.19s 00:00:00.59 Elapsed: 00:00:00.35
# Mc/sec: 1463.56
//
Query:       PHY93_11115|PHY93_11115  [L=309]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.4e-16   61.1  37.9    2.3e-16   60.4  37.9    1.4  1  FA_desaturase  Fatty acid desaturase


Domain annotation for each model (and alignments):
>> FA_desaturase  Fatty acid desaturase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.4  37.9   1.3e-20   2.3e-16       2     240 ..      36     258 ..      14     267 .. 0.83

  Alignments for each domain:
  == domain 1  score: 60.4 bits;  conditional E-value: 1.3e-20
            FA_desaturase   2 swlalllalllglf.l.lgitgslaHeaaHgalfkkrklnrwlndllgallglplgisysawrisHlrHHaytngpdeDpdlapla 85 
                              +w a++++++l ++    g+t  +++ ++H+a++    +++w+  +l+++ +l  + ++ +w ++H+ HH+  ++++ Dp++a   
  PHY93_11115|PHY93_11115  36 TWRAFAVCMFLFFViSpIGVTLTYHRLLSHRAFK----VPQWFEYVLATFGALSGQGPILLWVAEHRLHHRF-SDTRSDPHSA--- 113
                              6888888855555544678878************....*****99999999999999*********99***9.8899*****6... PP

            FA_desaturase  86 lsrfeglfry.llrlllgllvlgwllalvlglwlrrlarrrapsksrrrkwrllawlllllawlglwlalllllglalllwlvpll 170
                                r++g+++  +  l+++  +             + ++r+  + +   + +++l  + +++a l ++ +l++ +gl +++w+++++
  PHY93_11115|PHY93_11115 114 --RHGGFWWShVTHLFYHKEFED---------NEKLWGRYIPDLTCHSY-YHFLSKYNFVVA-LSIAPLLYWMGGLPFVMWGLFMR 186
                              ..777777771455555555555.........77777777777776665.666666666663.7777777777777777******* PP

            FA_desaturase 171 lllfllalvl.nyveHyggdwgerqvetsasirsaswllnlltgnlnyHieHHlfP.....gvpwyrLpelhrrlr 240
                              ++l+l+++++ n + H   +wg+r++et +++  + w+++ll  + ++H++HH+       g  w++++  ++ +r
  PHY93_11115|PHY93_11115 187 VALMLHVTWFvNSATH---RWGYRNFETKDDSG-NVWWVALLAAGEGWHNNHHAQSncaahGRMWWEFDLTWQMIR 258
                              *********8888888...79************.********************9988888888998888888776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (309 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       686  (0.038262); expected 358.6 (0.02)
Passed bias filter:                      336  (0.0187406); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 2314.85
//
Query:       PHY93_16865|PHY93_16865  [L=142]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.6e-47  160.6   0.2    1.8e-47  160.5   0.2    1.0  1  DHquinase_II  Dehydroquinase class II


Domain annotation for each model (and alignments):
>> DHquinase_II  Dehydroquinase class II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  160.5   0.2     1e-51   1.8e-47       1     135 [.       6     140 ..       6     142 .] 0.95

  Alignments for each domain:
  == domain 1  score: 160.5 bits;  conditional E-value: 1e-51
                              .EEEEE-TTGGGTTTSTCCCC-SS-HHHHHHHHHHHHHHTT-EEEEEE-S-HHHHHHHHHHCTT.T.TEEEEE-GGGGGT-HHHHH CS
             DHquinase_II   1 kilvlnGpNlnllgkrepeiygsetledieeelkekaeelgvelevfqsnhEgelidriqeake.kvdgiviNpgaythtSvalrd 85 
                              k+l++nGpNln+lg repeiygs +l +i +  +++ ++ ++e+  +qsn Eg+++ riqe ++ +++++viNpgay+htSva+ d
  PHY93_16865|PHY93_16865   6 KFLIINGPNLNMLGAREPEIYGSLSLLEIIKYTEKNLSA-KCECVWYQSNIEGDIVTRIQELTKqDFNALVINPGAYSHTSVAILD 90 
                              579****************************99997665.9*******************97655788****************** PP

                              HHHTSSS-EEEEESS-GGGS-GGGG--SSGGGSSEEEESSTTHHHHHHHH CS
             DHquinase_II  86 alaaveipvvEvhlsnvhaReefrhksvlsdvakgviaGlglegYelale 135
                              al+ ++ipv+Evhlsn h Reefr++ +++++++ ++ Glg ++Y +a+e
  PHY93_16865|PHY93_16865  91 ALHILKIPVIEVHLSNTHLREEFRQTKLTAKASTIIMEGLGKNAYLMAIE 140
                              ************************************************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (142 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       409  (0.0228122); expected 358.6 (0.02)
Passed bias filter:                      313  (0.0174578); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.24s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 1058.66
//
Query:       PHY93_11120|PHY93_11120  [L=192]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.8e-34  117.7   0.0    6.9e-34  117.4   0.0    1.0  1  HutD      HutD


Domain annotation for each model (and alignments):
>> HutD  HutD
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  117.4   0.0   3.9e-38   6.9e-34       2     175 ..      11     175 ..      10     185 .. 0.85

  Alignments for each domain:
  == domain 1  score: 117.4 bits;  conditional E-value: 3.9e-38
                              GG--EEE-TTSSEEEEEEEE.SS-SGGG..S-SEEEEEEEE-S-EEE---TT-EEEEEEEESS-EEEEETE..E---B-BT--EEE CS
                     HutD   2 adyrrmpWkNggGvTreiaiaPegagld..dFaWRlSiAevaedgpFSaFpgidRvlvlLeGegltLevaggeeekllepleplaF 85 
                              ++y+++ WkNg+G Tr+iai+P++a+ +  dF WR+S+A+v+++ +FS+Fp ++R lv+ +G gl ++ +      +l p +pl+F
  PHY93_11120|PHY93_11120  11 SSYKESLWKNGKGLTRQIAIFPKNATVAanDFLWRISSAKVSQSDQFSHFPHCERQLVVWSGIGLLINGK------PLLPNSPLTF 90 
                              5789999***************999988778**********************************99977......9********* PP

                              ETTS-EEEEES.SS-EEEEEEEE-TTTEEEEEEEEEEEEEEEEEE.--SEEEEEESSS-EEEEETTE..EEEE-TT-EEEEES--E CS
                     HutD  86 sGdaavsaell.dgpvrdlNlmtrrgrlqarvevlelekkaaasasgastvllfllkgqlevtlsveaadetlaagdalllegeaa 170
                              sG++++++ l+ d+pv dl ++++++ +qa+++vl++++ a+   +     +lfl+ g+  +      ++ +l+ gd+l +++e++
  PHY93_11120|PHY93_11120  91 SGEENIHCDLInDSPVVDLGIIYKKELIQASLKVLRVTTPATIDLN-PGIHFLFLAIGDGCI-----IGENNLEVGDTLKIKNEEE 170
                              *********984699*********************9666666555.445578888886555.....26899*********99994 PP

                              EEEEE CS
                     HutD 171 lelel 175
                               e e+
  PHY93_11120|PHY93_11120 171 SEEEI 175
                              44433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (192 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       423  (0.0235931); expected 358.6 (0.02)
Passed bias filter:                      370  (0.020637); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.36
# Mc/sec: 1584.55
//
Query:       PHY93_11125|PHY93_11125  [L=468]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    4.4e-18   65.4   0.4    4.4e-18   65.4   0.4    2.9  3  OmpA         OmpA family
  ------ inclusion threshold ------
      0.044   14.1   0.0       0.24   11.7   0.0    2.4  1  LAGLIDADG_3  LAGLIDADG-like domain
       0.73    9.6  36.1       0.85    9.4  10.5    2.5  2  ERM          Ezrin/radixin/moesin family
        1.9    9.1  33.7      0.036   14.7   6.4    4.6  5  DUF4398      Domain of unknown function (DUF4398)
        3.6    7.7   8.5        7.3    6.7   1.4    3.3  3  Tsi6         Tsi6


Domain annotation for each model (and alignments):
>> OmpA  OmpA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.4   0.1      0.43   1.5e+03      67      94 ..      89     116 ..      68     117 .. 0.72
   2 ?   -2.8   0.3       2.4   8.7e+03       7      26 ..     295     317 ..     291     321 .. 0.67
   3 !   65.4   0.4   1.2e-21   4.4e-18       2      95 .]     361     457 ..     360     457 .. 0.95

  Alignments for each domain:
  == domain 1  score: -0.4 bits;  conditional E-value: 0.43
                              SGGGEEEEE-TT--------------EE CS
                     OmpA  67 ppsrisvsgyGaerpitanntaekkarn 94 
                              +++ ++ +++G+   i+ann+ae  ++n
  PHY93_11125|PHY93_11125  89 SQQTLHKVAIGRAYLINANNSAEVAREN 116
                              4456677889999999999988866655 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 2.4
                              --B..-GGGHHHHHHHHHHHH.S CS
                     OmpA   7 seL..tpkaksaldkiaellk.k 26 
                              s L  ++++++ l ++ae lk +
  PHY93_11125|PHY93_11125 295 SALekEKETQTSLVQTAEELKaE 317
                              55543467788888999999953 PP

  == domain 3  score: 65.4 bits;  conditional E-value: 1.2e-21
                              B-TTS--B-GGGHHHHHHHHHHHH..S-S--EEEEE---S---HHHHHHHHHHHHHHHHHHHHH.TTSSGGGEEEEE-TT------ CS
                     OmpA   2 FapgsseLtpkaksaldkiaellk..kpeqkitveGhtdaagseernweLSqkRAeaVanylqn.egvppsrisvsgyGaerpita 84 
                              F + +++++ k++  l+k+ ++++   +   i++eGhtd+ g +  n  LS++RA+aV++ylq+ +g  +++i+++gyG+ +p+++
  PHY93_11125|PHY93_11125 361 FPSSTATIQSKSYPLLSKVQQVVEefGTGSEIIIEGHTDSSGAKTINNRLSADRAKAVKEYLQAnSGGIEAKIEAVGYGDAKPLAT 446
                              8999********************8655566*********************************99999999************** PP

                              --------EE. CS
                     OmpA  85 nntaekkarnr 95 
                              n+t +++a+nr
  PHY93_11125|PHY93_11125 447 NKTVSGRAQNR 457
                              *********98 PP

>> LAGLIDADG_3  LAGLIDADG-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   6.8e-05      0.24      27      57 ..     366     399 ..     357     459 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 6.8e-05
                              EEEEES-HHHHHHHHHHHHHCT.HSCEEEE...E CS
              LAGLIDADG_3  27 isltssskelledvqrlLlrlGIestiyek...k 57 
                               ++ s+s+ ll +vq++ +++G  s i  +    
  PHY93_11125|PHY93_11125 366 ATIQSKSYPLLSKVQQVVEEFGTGSEIIIEghtD 399
                              6899********************9998885322 PP

>> ERM  Ezrin/radixin/moesin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4  10.5   0.00024      0.85      88     217 ..      44     197 ..      38     209 .. 0.68
   2 ?    7.9  15.2   0.00066       2.4       9      61 ..     278     330 ..     269     350 .. 0.77

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.00024
                      ERM  88 eleaarleeeserkeeeaerLkee.leeareaeeeakekllealstpsks..............eseenveeseteeeeensee.. 156
                              e+ a+  ++ +++k+++++ L  +  +ea++++e+ak+k l+   +++ +              +   n++e  +e+ +    +  
  PHY93_11125|PHY93_11125  44 EEIANLERDLNSAKDKQVDVLSPKnFKEAEASLEDAKKKFLNGKDSQQ-TlhkvaigraylinaN---NSAEVARENVQ----Dvi 121
                              444455555677788888888865589999999999999999988884.4588888888874431...22222222222....122 PP

                      ERM 157 ..............esaeletde..veklsleieeeRvtylekskrlqeqLkeLkseleqlkdeekqtelDklheen 217
                                             + e+++ +   e++++eie++++t+++k++  + q + L  el ++k ++ + + D++ +  
  PHY93_11125|PHY93_11125 122 nareaalkaeapiyFNREFKNADeyFEDVTREIEKNKMTAITKER-PKLQQRYLDLELRAIKEKNLKESKDIITQAK 197
                              22334455555555557777655788999*************965.4555566777*********99999*998754 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.00066
                      ERM   9 eleerLkqlqeeaekaqeaLreseetaelLaekarraeeeaelLeqkaaeaee 61 
                              + +++L +++++ e +q aL++++et   L + a++++ e+e+Le +++  e+
  PHY93_11125|PHY93_11125 278 NNQKKLNSMEDQLETTQSALEKEKETQTSLVQTAEELKAEKEKLEDEKSFDEK 330
                              56899****************************************98764433 PP

>> DUF4398  Domain of unknown function (DUF4398)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   6.4   9.9e-06     0.036       2      75 ..      45     126 ..      44     132 .. 0.77
   2 ?    0.1   2.5      0.36   1.3e+03      26      66 ..     120     161 ..     106     166 .. 0.68
   3 ?   11.4   1.4    0.0001      0.37       3      54 ..     186     239 ..     184     261 .. 0.75
   4 ?   -3.7   5.7         5   1.8e+04      26      60 ..     283     317 ..     269     348 .. 0.57
   5 ?   -2.4   0.2       2.1   7.5e+03      38      57 ..     414     433 ..     411     459 .. 0.47

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 9.9e-06
                  DUF4398   2 eladAraaleaAraagaeeyApaeleeAreaLaqAea..amaekdyee......AdhlaylAerdaelAearAkaakaeaea 75 
                              e+a+ + +l++A++ + + + p+ ++eA+ +L+ A++  + +++++++       + ++  A   ae A++ ++     +ea
  PHY93_11125|PHY93_11125  45 EIANLERDLNSAKDKQVDVLSPKNFKEAEASLEDAKKkfLNGKDSQQTlhkvaiGRAYLINANNSAEVARENVQDVINAREA 126
                              889999********999********************765544444448889775555556666788888877766555554 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.36
                  DUF4398  26 leeAreaLaqAea..amaekdyeeAdhlaylAerdaelAearA 66 
                                 Area  +Aea     + + ++Ad++ +   r++e+ + +A
  PHY93_11125|PHY93_11125 120 VINAREAALKAEApiYF-NREFKNADEYFEDVTREIEKNKMTA 161
                              55688888888887655.6667778888888888877776666 PP

  == domain 3  score: 11.4 bits;  conditional E-value: 0.0001
                  DUF4398   3 ladAraaleaAraagaeeyApaeleeAreaLaqAeaamaekdyee..Adhlayl 54 
                              l +++  +++A+ + ae+yAp  l+ A+++    ea  +++ +e+  ++  a++
  PHY93_11125|PHY93_11125 186 LKESKDIITQAKKENAEKYAPRTLAIAEKSYTDTEAYIKANPHETleIKARAKE 239
                              566677799***************************666666655443333333 PP

  == domain 4  score: -3.7 bits;  conditional E-value: 5
                  DUF4398  26 leeAreaLaqAeaamaekdyeeAdhlaylAer.dae 60 
                              l++ +++L+  ++a  ek++e+   l + Ae+ +ae
  PHY93_11125|PHY93_11125 283 LNSMEDQLETTQSAL-EKEKETQTSLVQTAEElKAE 317
                              555566666666655.55555445555555543233 PP

  == domain 5  score: -2.4 bits;  conditional E-value: 2.1
                  DUF4398  38 aamaekdyeeAdhlaylAer 57 
                              +a+a k+y +A+    +A+ 
  PHY93_11125|PHY93_11125 414 RAKAVKEYLQANSGGIEAKI 433
                              44444444444444444444 PP

>> Tsi6  Tsi6
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.6   0.1     0.019        69       4      57 ..      47     100 ..      44     121 .. 0.88
   2 ?   -0.5   0.1      0.38   1.4e+03      58      72 ..     135     149 ..     114     154 .. 0.85
   3 ?    6.7   1.4     0.002       7.3       9      54 ..     266     311 ..     259     335 .. 0.82

  Alignments for each domain:
  == domain 1  score: 3.6 bits;  conditional E-value: 0.019
                              HHHHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHHHHHH-TTS-SCGGGG--HHH CS
                     Tsi6   4 dyvdralalvqkrekalpgfplYasieqqLeylkdvlegeekdkskLhkltlGa 57 
                              + ++r l+ +++++  + + + ++ +e+ Le  k+ + + ++ ++ Lhk+++G 
  PHY93_11125|PHY93_11125  47 ANLERDLNSAKDKQVDVLSPKNFKEAEASLEDAKKKFLNGKDSQQTLHKVAIGR 100
                              56778888899999999988999999*****9999999999**********995 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.38
                              HHHHHHTTT-HHHHH CS
                     Tsi6  58 lAskeFeetdpelae 72 
                              +  +eF + d+ +++
  PHY93_11125|PHY93_11125 135 YFNREFKNADEYFED 149
                              5579******99987 PP

  == domain 3  score: 6.7 bits;  conditional E-value: 0.002
                              HHHHHHHHHHHSTT-HHHHHHHHHHHHHHHHHH-TTS-SCGGGG-- CS
                     Tsi6   9 alalvqkrekalpgfplYasieqqLeylkdvlegeekdkskLhklt 54 
                              a+ + q+r  al + + ++s+e+qLe  +++le e++ ++ L + +
  PHY93_11125|PHY93_11125 266 AILIEQERDRALNNQKKLNSMEDQLETTQSALEKEKETQTSLVQTA 311
                              788899*****************************99999997765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (468 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2610  (0.145574); expected 358.6 (0.02)
Passed bias filter:                      531  (0.0296168); expected 358.6 (0.02)
Passed Vit filter:                        62  (0.00345808); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.69u 0.26s 00:00:00.95 Elapsed: 00:00:00.42
# Mc/sec: 3317.69
//
Query:       PHY93_11130|PHY93_11130  [L=234]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.7e-19   69.0   0.0    4.8e-19   68.2   0.0    1.4  1  cNMP_binding     Cyclic nucleotide-binding domain
    1.2e-16   60.4   0.1      2e-16   59.7   0.1    1.4  1  HTH_Crp_2        Crp-like helix-turn-helix domain
     0.0029   17.2   0.2     0.0053   16.4   0.2    1.4  1  Crp              Bacterial regulatory proteins, crp family
  ------ inclusion threshold ------
      0.097   12.6   1.9       0.55   10.2   0.4    2.6  3  Phage_rep_org_N  N-terminal phage replisome organiser (Phage_


Domain annotation for each model (and alignments):
>> cNMP_binding  Cyclic nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.2   0.0   1.1e-22   4.8e-19       3      89 .]      39     125 ..      37     125 .. 0.97

  Alignments for each domain:
  == domain 1  score: 68.2 bits;  conditional E-value: 1.1e-22
                              EE-TT-EEE-TTSB-SEEEEEEES-EEEEEEETTS.EEEEEEE-TTEEESHHHHHHTS--SSEEEESSTEEEEEEEHHHHHHHHHH CS
             cNMP_binding   3 sfkagevifrqGdpadslyivlsGevrvyrlsedgkevvlavlgpGdlfGelalltgeprtatvvAltdsellalprddflellqq 88 
                               +k+g+++f qG ++ ++y + +G ++++++ +dgke+++++   Gd++G ++l+t++++tat++A++d+ +++++++ +l+ ++q
  PHY93_11130|PHY93_11130  39 TYKKGQTLFVQGNHPFGIYCISKGNIKLTKTGPDGKETIVRIAYGGDILGHRSLFTDDNYTATATAMEDTDVCFIDKKFILKTIEQ 124
                              69****************************************************************************99999988 PP

                              - CS
             cNMP_binding  89 d 89 
                              +
  PHY93_11130|PHY93_11130 125 N 125
                              6 PP

>> HTH_Crp_2  Crp-like helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.7   0.1   4.6e-20     2e-16       1      66 [.     157     229 ..     157     231 .. 0.85

  Alignments for each domain:
  == domain 1  score: 59.7 bits;  conditional E-value: 4.6e-20
                              HHHHHHHHHHHCTTT....C..EEEEEHHHHHHHHHTTSSHHHHHHHHHHHHHTTSEEETEE.EEES-HHHHH CS
                HTH_Crp_2   1 qRlArfLlrlaerag....g..eielpltqeelAsmlGltretvsrilseLkreglisrgrr.irildleaLr 66 
                              +RlA ++l l ++ g    g  +iel+lt+ee+A m+G+  et+ r ++e+k++g+i+++++ i i++ e+L 
  PHY93_11130|PHY93_11130 157 ERLAELILSLKATHGvkegGrwKIELKLTREEMATMIGTANETLIRFMTEFKDAGIIEQEGKvIFIKNEEELL 229
                              7*********6553233324799***********************************6546699*****995 PP

>> Crp  Bacterial regulatory proteins, crp family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.2   1.2e-06    0.0053       1      32 []     182     213 ..     182     213 .. 0.96

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 1.2e-06
                              EE--HHHHHHHHTS-HHHHHHHHHHHHHTTSE CS
                      Crp   1 LpmSRqdIAdylGlTrETVSRlLtrLrekGLI 32 
                              L+++R++ A  +G++ ET  R +t ++  G I
  PHY93_11130|PHY93_11130 182 LKLTREEMATMIGTANETLIRFMTEFKDAGII 213
                              89************************999987 PP

>> Phage_rep_org_N  N-terminal phage replisome organiser (Phage_rep_org_N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   0.0       0.1   4.7e+02      76      98 ..      19      41 ..      13      47 .. 0.88
   2 ?   -3.5   0.0         2   9.1e+03      43      59 ..      61      77 ..      60      80 .. 0.75
   3 ?   10.2   0.4   0.00012      0.55      52      99 ..     182     228 ..     135     233 .. 0.89

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.1
          Phage_rep_org_N 76 vlkdlelieisedkvikiknwek 98
                             ++ dle+ e++e   +ki+n+ k
  PHY93_11130|PHY93_11130 19 IFCDLEMPEMAEISNYKINNTYK 41
                             78999**************9765 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 2
          Phage_rep_org_N 43 nGelylsenipytaeml 59
                             +G++ l++ +p+ +e++
  PHY93_11130|PHY93_11130 61 KGNIKLTKTGPDGKETI 77
                             68888888888888877 PP

  == domain 3  score: 10.2 bits;  conditional E-value: 0.00012
          Phage_rep_org_N  52 ipytaemlalifnreletvrlaLkvlkdlelieisedkvikiknwekh 99 
                              ++ t e++a+++  + et+   ++ +kd ++ie+   kvi ikn e++
  PHY93_11130|PHY93_11130 182 LKLTREEMATMIGTANETLIRFMTEFKDAGIIEQE-GKVIFIKNEEEL 228
                              67899****************************98.9*******8876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (234 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       816  (0.0455129); expected 358.6 (0.02)
Passed bias filter:                      613  (0.0341904); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.43u 0.25s 00:00:00.68 Elapsed: 00:00:00.38
# Mc/sec: 1837.79
//
Query:       PHY93_11135|PHY93_11135  [L=785]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.3e-42  144.0   0.3    9.2e-42  142.6   0.3    1.8  1  E1-E2_ATPase   E1-E2 ATPase
    3.7e-20   73.1   0.0    1.1e-19   71.6   0.0    1.8  1  Hydrolase      haloacid dehalogenase-like hydrolase
    1.5e-13   51.2   1.1    3.4e-13   50.1   1.1    1.6  1  ATPase-cat_bd  Putative metal-binding domain of cation transp
  ------ inclusion threshold ------
      0.052   14.0   0.0       0.24   11.9   0.0    2.2  2  HMA            Heavy-metal-associated domain
      0.074   13.0   2.2       0.16   11.9   2.2    1.6  1  zf-FCS         MYM-type Zinc finger with FCS sequence motif
      0.077   12.5   0.0       0.15   11.6   0.0    1.4  1  Flu_NS1        Influenza non-structural protein (NS1)


Domain annotation for each model (and alignments):
>> E1-E2_ATPase  E1-E2 ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  142.6   0.3   3.1e-45   9.2e-42      10     180 ..     312     481 ..     305     482 .. 0.96

  Alignments for each domain:
  == domain 1  score: 142.6 bits;  conditional E-value: 3.1e-45
                              E-TTS-EEEEGGG--TTSEEEEETT-B--SEEEEEEE-SEEE-TTTS---S-EE-G-TTEE-TT-EEEE-EEEEEEEE-TTTSTTT CS
             E1-E2_ATPase  10 irdgteeeidakelvpGDivllkagdrvpaDgrivegsaevdesaLTGEslpvekekgdmvfsGtvvvsgeakavVtatgedtelg 95 
                                d++  ei  + l+ GDi+++ +++ +paDg+i+eg++ +++s+LTGEs+p  +   ++vfsGt+++s ++ ++V ++ ed+++g
  PHY93_11135|PHY93_11135 312 KVDDEFIEIHPQFLKAGDIIKVSTNEMIPADGVIIEGETLINNSLLTGESRPENVGIDSQVFSGTINLSNSILIKVEKIKEDSRIG 397
                              4689999******************************************************************************* PP

                              TTSTTS--------HHHHHHHHHHHHHHHHHHHHHHHHHHS-STTTSSTTHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHHHHH CS
             E1-E2_ATPase  96 kiarlveeakskktplqkkldklgkvlvpvvlliallvflialllgkslaeallralallvaaiPcaLplavplalalgarrlak 180
                              ki +++e+   +k++++   +k++k++++ v+l+++++f+++++ gk+   al ra++ll++++PcaL+la+pl+l+  ++r+++
  PHY93_11135|PHY93_11135 398 KILKQIENGWIQKSHIVDLTNKISKYFIAGVFLLTAILFITFYSQGKTK-IALERAFTLLIVTCPCALALATPLTLTRTLSRASR 481
                              *****************************************98888876.99999**********************99999876 PP

>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   71.6   0.0   3.6e-23   1.1e-19       1     207 [.     498     682 ..     498     684 .. 0.77

  Alignments for each domain:
  == domain 1  score: 71.6 bits;  conditional E-value: 3.6e-23
                              SSEEEEESBTTTBCHHHHHHHHHHHH..CHHHHHHHHHH...HHCHHHHHHHHHHHHH....HHHHHHHHHETTTEHHHHTHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxx...xxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase   1 iktvvfDkdGTLttgepsvedvivsa..alalaaaletg...sehpigkalvaaakar....sgaltgfatfigrgayaigkpewl 77 
                              ++t+++Dk+GTLt g   +  +        +l ++++     s hp +  l ++a ++      ++ ++ ++ g g         +
  PHY93_11135|PHY93_11135 498 VETIFLDKTGTLTYGVLKIDHFKILKnpHYPLFEIINSLeiySAHPVALSLKEYAIEHgakiIHPINNYKELMGTG-----VSGEI 578
                              579*************44444322223445555544444555****************777666669999966666.....33333 PP

                              HHHHCHHHHHHHHHHHHHHCHHHHHHTTHHHHHHHHHHTHHBHTTHHHHHHHHHHTTEEEEEEESSEHHHHHHHHHHTTGGGESEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase  78 taldippdlgaaigsaqsqgrtvallqaralavftiadplkvkpeaaeavasLkaagievvlltgdnpetaeraanqlGddyfdav 163
                              + +            ++      +++++   a+f ++d   ++ + +  +a+Lk+ g+ + +++gd+++ ae++a+++G       
  PHY93_11135|PHY93_11135 579 DNH-----------FYE-IKNGKIFEDQICIAEFSLEDH--IRHDSKASIARLKSLGLTIKMISGDQRSIAESVAKEAG------- 643
                              333...........222.223344444477899999999..**************************************....... PP

                              EEHHCES...STTTSHHHHHHHHHHHTSTGGGEEEEESSHHHHHHHH CS
                              xxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 164 iasdiet...vakpspegkvaaireLqgkpeevamVGDgvnDaaala 207
                                  ie+   +++++pe k+  i++    p +v+mVGDg+nDa al 
  PHY93_11135|PHY93_11135 644 ----IEKenvFSEVNPESKLSMIEKN---P-HVLMVGDGANDAMALS 682
                              ....666689***************8...4.6*************96 PP

>> ATPase-cat_bd  Putative metal-binding domain of cation transport ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.1   1.1   1.1e-16   3.4e-13       2      84 ..       4      84 ..       3      86 .. 0.89

  Alignments for each domain:
  == domain 1  score: 50.1 bits;  conditional E-value: 1.1e-16
            ATPase-cat_bd  2 CyHCglpveesaklkaeiegeerefCCkGCqavaqliveaglesyYklrtekakkaeelllpeeleeelalyDseevqkkfvk 84
                             C HC + +     ++   ++++++fCC+GC +v+++i  +gle+yY++++++a  +++ +++e++ ++++ +D+ ++ +++  
  PHY93_11135|PHY93_11135  4 CIHCDETILIP-VFNDLDSNQTEPFCCQGCMTVFNVINYKGLEKYYEIKKQSAIFKRR-SPAENKFQQFSYLDNLDFLDEYSY 84
                             ********886.5888888999****************************99997765.8999999***********999865 PP

>> HMA  Heavy-metal-associated domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0     8e-05      0.24       2      61 ..      95     153 ..      94     154 .. 0.94
   2 ?   -2.2   0.1       1.9   5.7e+03      18      42 ..     490     511 ..     487     524 .. 0.57

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 8e-05
                      HMA   2 vrvsgmhCagCaakvekvLselpgVesvkvdlatktvtVegdaestklrkiieaiekagy 61 
                              +  +g+hC +C   +ek  + l++Ve++ +d+  + +tV++++e  +++ + +++ ++gy
  PHY93_11135|PHY93_11135  95 FYLEGIHCLACLWLIEKLPEYLNDVEQCRLDMQRSVATVSLKDEG-LFSSVARELNNLGY 153
                              7899*************************************9998.88999999999988 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 1.9
                      HMA  18 kvLselpgVesvkvdlatktvtVeg 42 
                              +v+++l+   sv+  +  kt t ++
  PHY93_11135|PHY93_11135 490 EVIEKLS---SVETIFLDKTGTLTY 511
                              5666664...555555556666666 PP

>> zf-FCS  MYM-type Zinc finger with FCS sequence motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   2.2   5.4e-05      0.16       3      39 ..       1      34 [.       1      36 [. 0.82

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 5.4e-05
                   zf-FCS  3 kkrCwfCkkyikgkpeftyvlend.gvvgqFCStsCld 39
                             ++ C +C + i  +  f    + d ++++ FC++ C++
  PHY93_11135|PHY93_11135  1 MSLCIHCDETILIPV-F---NDLDsNQTEPFCCQGCMT 34
                             578999999999998.6...44446***********98 PP

>> Flu_NS1  Influenza non-structural protein (NS1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   5.1e-05      0.15      10      76 ..     577     646 ..     571     661 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 5.1e-05
                              HHHHHHHHHHH.HHHHTTXXXHHH..HHHHHHHHHHHHHHHHHHTXXHHHHHHHHHHHHHHHHXXXXXXX CS
                  Flu_NS1  10 qvdcylwhvrk.lladrelgdapf..ddrlrrdqkalkgrgstlgldlevatregkkivedilkeesdea 76 
                              ++d +++ +++ ++ + +++ a f  +d +r d ka   r  +lgl +++ + + + i e + ke   e+
  PHY93_11135|PHY93_11135 577 EIDNHFYEIKNgKIFEDQICIAEFslEDHIRHDSKASIARLKSLGLTIKMISGDQRSIAESVAKEAGIEK 646
                              677777887753567778888877447************************************9976655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (785 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       832  (0.0464053); expected 358.6 (0.02)
Passed bias filter:                      530  (0.029561); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.66u 0.21s 00:00:00.87 Elapsed: 00:00:00.37
# Mc/sec: 6378.90
//
Query:       PHY93_11140|PHY93_11140  [L=59]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      2e-18   65.8   0.2    2.2e-18   65.6   0.2    1.1  1  FixS             Cytochrome oxidase maturation protein cbb3-t
  ------ inclusion threshold ------
      0.076   12.6   0.2      0.079   12.6   0.2    1.1  1  Proton_antipo_C  NADH-dehyrogenase subunit F, TMs, (complex I
       0.36   10.7   3.2       0.49   10.3   3.2    1.2  1  LapA_dom         Lipopolysaccharide assembly protein A domain


Domain annotation for each model (and alignments):
>> FixS  Cytochrome oxidase maturation protein cbb3-type
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.6   0.2   3.8e-22   2.2e-18       1      43 [.       2      44 ..       2      45 .. 0.97

  Alignments for each domain:
  == domain 1  score: 65.6 bits;  conditional E-value: 3.8e-22
                     FixS  1 siLylLiplSlllgllalaaFlWavksGQFDDlegpaeriLfD 43
                             +++ +Lipl+lll+l ++++F+W   +GQ+DDle+pa+r+L +
  PHY93_11140|PHY93_11140  2 EVITILIPLALLLALTFIVGFIWMTVKGQYDDLETPAMRMLIE 44
                             69***************************************97 PP

>> Proton_antipo_C  NADH-dehyrogenase subunit F, TMs, (complex I) C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.2   1.3e-05     0.079      99     139 ..       5      52 ..       3      59 .] 0.63

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 1.3e-05
          Proton_antipo_C  99 tmlfpllvLvlftlfvGliGip.......fnqegidldilskwLtpsi 139
                              t+l+pl++L  +t++vG+i +        ++   +++ i +k L p+ 
  PHY93_11140|PHY93_11140   5 TILIPLALLLALTFIVGFIWMTvkgqyddLETPAMRMLIEEKKLSPTK 52 
                              89*****************88723332222333334444445555544 PP

>> LapA_dom  Lipopolysaccharide assembly protein A domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   3.2   8.2e-05      0.49      17      33 ..       8      24 ..       3      29 .. 0.89

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 8.2e-05
                 LapA_dom 17 lpLsllllvafgiGall 33
                             +pL+lll+++f++G++ 
  PHY93_11140|PHY93_11140  8 IPLALLLALTFIVGFIW 24
                             7**************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (59 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       729  (0.0406604); expected 358.6 (0.02)
Passed bias filter:                      505  (0.0281667); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.38u 0.17s 00:00:00.55 Elapsed: 00:00:00.33
# Mc/sec: 528.69
//
Query:       PHY93_11145|PHY93_11145  [L=715]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
   2.1e-115  386.0  61.3   2.1e-115  386.0  61.3    1.4  2  COX1         Cytochrome C and Quinol oxidase polypeptide I
    3.7e-89  297.9   0.0    6.7e-89  297.0   0.0    1.4  1  FixO         Cytochrome C oxidase, mono-heme subunit/FixO
     0.0018   19.3   0.2      0.017   16.2   0.2    2.1  1  Cytochrom_C  Cytochrome c
  ------ inclusion threshold ------
       0.17   12.8   0.1       0.35   11.8   0.1    1.5  1  DUF2624      Protein of unknown function (DUF2624)


Domain annotation for each model (and alignments):
>> COX1  Cytochrome C and Quinol oxidase polypeptide I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  386.0  61.3  4.7e-119  2.1e-115       2     431 ..      22     451 ..      21     452 .. 0.96
   2 ?   -3.8   0.0      0.97   4.4e+03     289     297 ..     511     519 ..     493     537 .. 0.49

  Alignments for each domain:
  == domain 1  score: 386.0 bits;  conditional E-value: 4.7e-119
                              HHHHHHHHHHHHHHHHHHHHHHHHHHCTCT......-HHCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHCTSS-S-HHHHHH CS
                     COX1   2 igllylilalvlllvggllgllirlqlafp......dletynqlrtlHgnlmiflfatpfilgfgnylvplllgardlafprlnal 81 
                              i+++++i+++++++v++l+g++i++qla+       +  t+++lr+lH+n++if+f ++++++ ++y  ++ll+ar + +  l+ +
  PHY93_11145|PHY93_11145  22 IVRMFVIATIIWGAVAMLVGVTIAFQLATWkmnfglQWITFGRLRPLHTNAAIFAFCGNAMFAGIYYSHQRLLKARLFNDV-LSRI 106
                              99*************************975455656669*************************************99999.**** PP

                              HHH....HHHHHHHHHHHHHHCSS-STTTTTTTC.SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-CCGS-HHHHHHHHHH CS
                     COX1  82 sfw....lvvlgvvllllsllgaattgwteYaplsevdlwllglllvvvssllgainfivtilkrrapgmtvaklplfvwavlata 163
                              +fw    ++v ++++l l++    t   +eYa   e + w++ ++++v++++ +a+nf+ t+++rr+++++va     +w+++at+
  PHY93_11145|PHY93_11145 107 HFWgwqaIIVSAAITLPLGI----TRA-KEYA---ELE-WPITIAIAVIWVV-FAVNFFGTLIRRRERHIYVA-----IWFYIATI 177
                              ******999999999*****....777.8***...89*.*************.9*******************.....******** PP

                              HHHHHHCHHHHHHHHHCHHHHHCT-SSSCE-HHHHHHHHHHHHTHHH.HHHHHHHHHHHHHHHHHHHTSCCCTHHHHHHHHHHHHH CS
                     COX1 164 ilillalpvlalalllllldrslgkffspgdplldqhlfWffgHpeV.yililpalgivyyilpkfagrplfsyklsvlafililf 248
                              ++++++++v+ l+l+++++     k++s++++++d++++W++gH++V ++l++p+lg++yy++pk+a+rp++sy+lsv++f++++f
  PHY93_11145|PHY93_11145 178 LTVAVLHIVNGLSLPVSMT-----KSYSVYAGVQDALVQWWYGHNAVaFFLTTPFLGLMYYFVPKAANRPVYSYRLSVIHFWSLVF 258
                              ***************9773.....8999********************************************************** PP

                              HCCCCGGGGTTTSSS-HHHHHHHHHHHHHTHHHHHHCCCHHHHCCTTS-CH.C.HHHHHHHHHHHHHH.HHHHHHHHHHTSHHHHH CS
                     COX1 249 lsflvwaHHlfttglpewlkalgsvfslliavPsglkvfnwlatlwrgsir.f.ktpmlfflgfavlf.iigGltGvllalpsvny 331
                              +++++++HHl++t lpew+++lg++fs+++++Ps+++++n+l+tl rg ++ + ++p+l+f+++a++f ++++++G+ll+++svn 
  PHY93_11145|PHY93_11145 259 IYIWAGPHHLLYTSLPEWVQTLGMAFSIALWAPSWGGMINGLMTL-RGVWDkVrTDPVLKFMALALTFyGMSTFEGPLLSIKSVNS 343
                              *********************************************.9****999******************************** PP

                              HHTTBHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHH.SB--HHHHHHHHHHHHHHHHHHHHHHHHHHHHT.THBSSSST......- CS
                     COX1 332 vvhntywvvaHfHlvllgavvfllfaaiyyllpklt.grmlserlaklhfwllfiGlvlmflpmhilGll.gmprraad......y 409
                              + h+t+w+++H+H++++g++ +l+ +++yy++pkl+ + ++s+++a+++fwl +iGl l++++m+ +G++  +++ra d      y
  PHY93_11145|PHY93_11145 344 IGHFTDWIPGHVHAGTIGWNYLLIAGILYYMVPKLWnTTIFSKKIANAQFWLGTIGLSLYYVSMVSAGITqSLMWRAIDvngklvY 429
                              ************************************88888*************************************87788888 PP

                              -SCCCCHHHCHHHHHHHHHHHH CS
                     COX1 410 ksfletvpelqplnvlrtiggv 431
                              ++f+etv ++ p++++r++gg+
  PHY93_11145|PHY93_11145 430 PAFIETVVKIVPMYWVRAFGGT 451
                              8*******************97 PP

  == domain 2  score: -3.8 bits;  conditional E-value: 0.97
                              HHHCCTTS- CS
                     COX1 289 wlatlwrgs 297
                              +la l++++
  PHY93_11145|PHY93_11145 511 LLAILVGSA 519
                              222222222 PP

>> FixO  Cytochrome C oxidase, mono-heme subunit/FixO
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  297.0   0.0   1.5e-92   6.7e-89       1     216 [.     496     709 ..     496     710 .. 0.99

  Alignments for each domain:
  == domain 1  score: 297.0 bits;  conditional E-value: 1.5e-92
                     FixO   1 hellekkpllllvlvlvvvaigglveivPlllvkstvekvesvkpytpleleGrdiyiregCyaCHsqmiRplrdeveRyGeyska 86 
                              h++le  p++++vl+l+++++g+ +eivP+ll ++ ++k++ vkpy plel Grdiy+regCy CHsq+iRp+ +ev RyG++s a
  PHY93_11145|PHY93_11145 496 HRKLEGLPMVFAVLSLLAILVGSAIEIVPSLLSNTFINKIDVVKPYKPLELLGRDIYLREGCYLCHSQQIRPMAHEVLRYGKHSEA 581
                              899*********************************************************************************** PP

                     FixO  87 gEsvydhPflWgskRtGPDlaRvGgkysdeWhvkHlldPrsvvpesimPaykwllekkldlseiekklkalktlgvpyeeeeieea 172
                              gE++ydhPf+WgskRtGPDlaRvGgky++ Wh++H+l+Pr+v+p+simP ykwl+e+k+++ ++e+klk++k+lgvpy++++i++ 
  PHY93_11145|PHY93_11145 582 GEFIYDHPFQWGSKRTGPDLARVGGKYPNMWHYRHMLNPRDVTPQSIMPIYKWLVEQKINYVTLERKLKVMKQLGVPYTDADIASG 667
                              ************************************************************************************** PP

                     FixO 173 kadlkkqakeiaeelkeeelkeklekekkeivaliaYlqrlGtd 216
                               +++++qak iae+l ++++ +++  e+ke++aliaYlqr+Gtd
  PHY93_11145|PHY93_11145 668 VENAQAQAKVIAEDLVKQGVPAEV--EDKELIALIAYLQRMGTD 709
                              *********************999..69**************96 PP

>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.2   3.8e-06     0.017       4      90 ..     548     705 ..     546     707 .. 0.84

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 3.8e-06
                              HHHHH.HTTGGGTB-SSSBSSS.............................--HHHHHHHTTT-HHHHHHHHTTSS--SSSHHHHH CS
              Cytochrom_C   4 Gkelf.tanCaaCHgvegggakqgg.........................gptlsgaaerasaasigasvanpaavsaprddfekk 63 
                              G+ ++  ++C  CH+ + +  +                            gp+l++++ +++  ++ +   np+ v  +  ++  k
  PHY93_11145|PHY93_11145 548 GRDIYlREGCYLCHSQQIRPMAHEVlrygkhseagefiydhpfqwgskrtGPDLARVGGKYPNMWHYRHMLNPRDVTPQSIMPIYK 633
                              88899999******9999999876699**********************************************9988885555555 PP

                              HHGGGGGGG..............................................TT--HHHHHHHHHHHHT CS
              Cytochrom_C  64 kltaempark.............................................erlteqeiadlaaYLks 90 
                              +l  + +++                                               ++ ++e+ +l+aYL+ 
  PHY93_11145|PHY93_11145 634 WLVEQKINYVtlerklkvmkqlgvpytdadiasgvenaqaqakviaedlvkqgvpAEVEDKELIALIAYLQR 705
                              555555555555566777778888888888888888888888888888999999888999999999999875 PP

>> DUF2624  Protein of unknown function (DUF2624)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.1   7.8e-05      0.35       1      35 [.     629     663 ..     629     686 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 7.8e-05
                  DUF2624   1 MniiqqlVnqklnsiTaeellkyakqygveltksq 35 
                              M i++ lV+qk+n +T e  lk  kq gv+ t+++
  PHY93_11145|PHY93_11145 629 MPIYKWLVEQKINYVTLERKLKVMKQLGVPYTDAD 663
                              889***************************99987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (715 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       775  (0.0432261); expected 358.6 (0.02)
Passed bias filter:                      325  (0.0181271); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.61u 0.23s 00:00:00.84 Elapsed: 00:00:00.37
# Mc/sec: 5803.23
//
Query:       PHY93_11150|PHY93_11150  [L=55]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    4.1e-09   36.3   0.1    5.2e-09   35.9   0.1    1.2  1  FixQ         Cbb3-type cytochrome oxidase component FixQ
  ------ inclusion threshold ------
      0.042   13.8   0.0      0.042   13.8   0.0    1.0  1  Fig1         Ca2+ regulator and membrane fusion protein Fig1
      0.069   12.9   0.2      0.077   12.7   0.2    1.0  1  7TM-7TMR_HD  7TM receptor with intracellular HD hydrolase
       0.11   12.9   0.1       0.13   12.7   0.1    1.1  1  DUF2681      Protein of unknown function (DUF2681)


Domain annotation for each model (and alignments):
>> FixQ  Cbb3-type cytochrome oxidase component FixQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.9   0.1   1.2e-12   5.2e-09      13      48 ..      16      51 ..       6      51 .. 0.94

  Alignments for each domain:
  == domain 1  score: 35.9 bits;  conditional E-value: 1.2e-12
                     FixQ 13 wgllflvllfygvviyafrpgnrkdfedaAnlpLkd 48
                              gll+++++f+++ +++f+++n+k +e  + +pL d
  PHY93_11150|PHY93_11150 16 TGLLIFFICFVIYTYWTFKKENKKFYENSSYMPLHD 51
                             69********************************77 PP

>> Fig1  Ca2+ regulator and membrane fusion protein Fig1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   9.4e-06     0.042      73     102 ..       6      34 ..       1      54 [. 0.79

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 9.4e-06
                     Fig1  73 sdnvvhpyllmvaiiLtlllfllllyfplg 102
                              + n  h +++++ + +++++f++ +y +++
  PHY93_11150|PHY93_11150   6 R-NFDHAWMPITGLLIFFICFVIYTYWTFK 34 
                              4.7789********************9873 PP

>> 7TM-7TMR_HD  7TM receptor with intracellular HD hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.2   1.7e-05     0.077       1      36 [.      12      47 ..      12      50 .. 0.92

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 1.7e-05
              7TM-7TMR_HD  1 wlsllgllllvlllllilllflrrfrkelrernkkl 36
                             w ++ gll++ + +++  +  +++++k+++e+++++
  PHY93_11150|PHY93_11150 12 WMPITGLLIFFICFVIYTYWTFKKENKKFYENSSYM 47
                             78999***************************9886 PP

>> DUF2681  Protein of unknown function (DUF2681)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   2.9e-05      0.13       7      32 ..      15      40 ..      11      46 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 2.9e-05
                  DUF2681  7 lvgliaavlllvaylswqlkkarkkn 32
                             + gl++ ++ +v y +w  kk+ kk 
  PHY93_11150|PHY93_11150 15 ITGLLIFFICFVIYTYWTFKKENKKF 40
                             67899999999***********9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (55 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       956  (0.0533214); expected 358.6 (0.02)
Passed bias filter:                      596  (0.0332422); expected 358.6 (0.02)
Passed Vit filter:                        78  (0.00435049); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.35u 0.20s 00:00:00.55 Elapsed: 00:00:00.34
# Mc/sec: 491.16
//
Query:       PHY93_11155|PHY93_11155  [L=198]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      3e-19   68.5   2.7    5.7e-19   67.6   2.2    1.7  2  FixP_N           N-terminal domain of cytochrome oxidase-cbb3
    1.1e-12   48.1   0.0    2.8e-12   46.8   0.0    1.7  2  Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
      1e-06   29.8   0.0    3.8e-05   24.7   0.0    2.4  1  Cytochrom_C      Cytochrome c
  ------ inclusion threshold ------
       0.06   13.4   0.0      0.093   12.8   0.0    1.3  1  CrgA             Cell division protein CrgA
       0.11   12.2   0.0       0.31   10.7   0.0    1.8  2  Cytochrom_C550   Cytochrome c-550 domain


Domain annotation for each model (and alignments):
>> FixP_N  N-terminal domain of cytochrome oxidase-cbb3, FixP
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.6   2.2   1.6e-22   5.7e-19       2      45 ..      15      58 ..      14      60 .. 0.93
   2 ?   -2.4   0.0       1.2   4.3e+03      18      23 ..     155     160 ..     153     175 .. 0.64

  Alignments for each domain:
  == domain 1  score: 67.6 bits;  conditional E-value: 1.6e-22
                   FixP_N  2 dettgHeWDGIrElnnplPrWWlylFyativfavvYlilYpalg 45
                             + +++H +DGI+ElnnplP WW ++Fy++i+f+++Y+ilY ++g
  PHY93_11155|PHY93_11155 15 HILLDHAYDGIQELNNPLPSWWKLTFYLGIIFGIIYIILYLVMG 58
                             5689************************************8876 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 1.2
                   FixP_N  18 plPrWW 23 
                               +P+W 
  PHY93_11155|PHY93_11155 155 GMPTWS 160
                              578885 PP

>> Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.0       3.3   1.2e+04      24      40 ..      59      75 ..      56      82 .. 0.53
   2 !   46.8   0.0   7.7e-16   2.8e-12       3      67 .]     101     175 ..      99     175 .. 0.86

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 3.3
          Cytochrome_CBB3 24 gpslagrdwepdalvdi 40
                             +psl+++  ++ ++ ++
  PHY93_11155|PHY93_11155 59 APSLRDEFKKEWTVIES 75
                             47777664444444444 PP

  == domain 2  score: 46.8 bits;  conditional E-value: 7.7e-16
          Cytochrome_CBB3   3 aaaGaalykknCasCHgkggag...pslagrdwe.....pdalvdiiknGk..gaMpafggqlsdeelwalvaYl 67 
                              +++G+ +++ nC+ CH+++g g   p+l++++w      p++ + ++ nG+  ++Mp + ++ls++e+ ++vaY+
  PHY93_11155|PHY93_11155 101 VKKGQIVFETNCVPCHKEKGIGdigPNLTDEYWInskgtPATNFPVVFNGVpdKGMPTWSQTLSNDEIYQAVAYV 175
                              6899*************66666666****9977744444699999*****9778********************7 PP

>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.7   0.0   1.1e-08   3.8e-05       2      91 ..     102     178 ..     101     179 .. 0.74

  Alignments for each domain:
  == domain 1  score: 24.7 bits;  conditional E-value: 1.1e-08
                              --HHHHHHTTGGGTB-SSSBSSS....--HHHHHHHTTT-HHHHHHHHTTSS--SSSHHHHHHHGGGGGGG.TT--HHHHHHHHHH CS
              Cytochrom_C   2 arGkelftanCaaCHgvegggakqgggptlsgaaerasaasigasvanpaavsaprddfekkkltaemparkerlteqeiadlaaY 87 
                              ++G+ +f++nC+ CH+ +g g+    gp+l+++++ +s+     +             f++  + + mp++ + l+++ei + +aY
  PHY93_11155|PHY93_11155 102 KKGQIVFETNCVPCHKEKGIGDI---GPNLTDEYWINSKGTPATNFPVV---------FNGV-PDKGMPTWSQTLSNDEIYQAVAY 174
                              79*****99************97...5***9999977766655555544.........2222.23334444456999999999999 PP

                              HHTT CS
              Cytochrom_C  88 Lksl 91 
                              +++l
  PHY93_11155|PHY93_11155 175 VQTL 178
                              9997 PP

>> CrgA  Cell division protein CrgA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   2.6e-05     0.093      27      58 ..      29      60 ..      10      77 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 2.6e-05
                     CrgA 27 akpsprwyvpvmlglmllGllwlvvyYlagee 58
                             ++p p+w++ ++   +++G++++++y ++g++
  PHY93_11155|PHY93_11155 29 NNPLPSWWKLTFYLGIIFGIIYIILYLVMGAP 60
                             6789*********************9998874 PP

>> Cytochrom_C550  Cytochrome c-550 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   8.7e-05      0.31      19      43 ..      94     118 ..      78     140 .. 0.84
   2 ?   -2.9   0.0       1.4   5.1e+03     106     119 ..     162     175 ..     157     187 .. 0.63

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 8.7e-05
                              EEEEHHHHHHHHHHHHHHTHHHHGG CS
           Cytochrom_C550  19 vtlseeqlkkgkklFeaeCaqCHvg 43 
                               +l ++ +kkg+ +Fe++C  CH +
  PHY93_11155|PHY93_11155  94 AILKDDGVKKGQIVFETNCVPCHKE 118
                              56778889***************74 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 1.4
                              TS-HHHHHHHHHHH CS
           Cytochrom_C550 106 nltdedlkaiagyi 119
                              +l+++++++  +y+
  PHY93_11155|PHY93_11155 162 TLSNDEIYQAVAYV 175
                              46666666666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (198 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       848  (0.0472977); expected 358.6 (0.02)
Passed bias filter:                      733  (0.0408835); expected 358.6 (0.02)
Passed Vit filter:                        94  (0.0052429); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.51u 0.20s 00:00:00.71 Elapsed: 00:00:00.39
# Mc/sec: 1507.94
//
Query:       PHY93_11160|PHY93_11160  [L=467]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.1e-40  136.5  11.7    9.4e-39  132.1  11.7    2.2  1  Fer4_18   4Fe-4S dicluster domain
    8.6e-10   39.1   7.3      8e-07   29.6   2.2    2.5  2  Fer4_7    4Fe-4S dicluster domain
    4.3e-08   33.0   6.0    4.3e-08   33.0   6.0    3.4  3  Fer4_5    4Fe-4S binding domain
    1.2e-06   28.6   9.5    0.00078   19.5   1.9    2.8  2  Fer4_21   4Fe-4S dicluster domain
    1.5e-06   28.3  11.8    0.00016   21.8   1.6    2.9  2  Fer4_9    4Fe-4S dicluster domain
    7.7e-06   25.5  21.1     0.0001   21.9   4.2    3.4  3  Fer4      4Fe-4S binding domain
    9.7e-06   26.0   6.4     0.0077   16.8   1.4    2.6  2  Fer4_17   4Fe-4S dicluster domain
    2.6e-05   24.6   5.2      0.015   15.8   1.0    2.4  2  Fer4_8    4Fe-4S dicluster domain
    0.00059   19.9  18.3     0.0014   18.7  15.1    2.6  2  Fer4_10   4Fe-4S dicluster domain
      0.001   19.0   3.9      0.001   19.0   3.9    3.4  3  Fer4_6    4Fe-4S binding domain
     0.0014   19.4   4.6     0.0014   19.4   4.6    3.5  3  Fer4_3    4Fe-4S binding domain
     0.0015   19.4  11.3       0.15   13.0   4.6    3.0  3  Fer4_16   4Fe-4S double cluster binding domain
     0.0099   15.9   3.7     0.0099   15.9   3.7    3.3  3  Fer4_2    4Fe-4S binding domain
  ------ inclusion threshold ------
      0.015   15.8  10.8       0.55   10.8   1.8    2.7  2  Fer4_13   4Fe-4S single cluster domain of Ferredoxin I
      0.026   14.7   0.1      0.037   14.3   0.1    1.2  1  FixG_C    IG-like fold at C-terminal of FixG, putative oxidor
        7.4    7.4  12.3        9.6    7.0   2.2    2.8  2  Fer4_15   4Fe-4S single cluster domain


Domain annotation for each model (and alignments):
>> Fer4_18  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  132.1  11.7   8.4e-42   9.4e-39       1     113 [.     215     315 ..     215     316 .. 0.94

  Alignments for each domain:
  == domain 1  score: 132.1 bits;  conditional E-value: 8.4e-42
                  Fer4_18   1 lredvcvyvcPyarvqsvlydeetllvvydakrGekiagrkkekkalkekeerkekgagdcidcescvkvcPtgidirkGlqleci 86 
                              +re++c+++cPy+r+qsv++de++l+v+yd  rGe ++g               ++++gdci+c +cvkvcPtgidir G q+eci
  PHY93_11160|PHY93_11160 215 FREQFCIIACPYGRMQSVMMDENSLVVAYDPIRGEPRRGLV------------PREQEGDCINCYACVKVCPTGIDIRRGTQMECI 288
                              59*********************************987643............345689*************************** PP

                  Fer4_18  87 scllcidacdkvmeklgkpkgliryss 113
                              +c++cidacd+vmek++kp+glirys+
  PHY93_11160|PHY93_11160 289 ACTNCIDACDEVMEKVKKPRGLIRYST 315
                              *************************97 PP

>> Fer4_7  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.6   2.2   7.2e-10     8e-07       7      52 .]     219     277 ..     218     277 .. 0.69
   2 !   11.8   0.2   0.00026      0.29       2      13 ..     287     307 ..     282     349 .. 0.77

  Alignments for each domain:
  == domain 1  score: 29.6 bits;  conditional E-value: 7.2e-10
                   Fer4_7   7 aCvaaCpvkaieldeeenek.............gtekveidpekClgCgaCvavCPtga 52 
                              +C  aCp++ ++    ++++             +   ++ ++ +C++C+aCv+vCPtg+
  PHY93_11160|PHY93_11160 219 FCIIACPYGRMQSVMMDENSlvvaydpirgeprRGLVPREQEGDCINCYACVKVCPTGI 277
                              8******9999976554444444444444322233555888999*************96 PP

  == domain 2  score: 11.8 bits;  conditional E-value: 0.00026
                   Fer4_7   2 CigCgaCvaaC.........p 13 
                              Ci C +C +aC         p
  PHY93_11160|PHY93_11160 287 CIACTNCIDACdevmekvkkP 307
                              888888888884444444443 PP

>> Fer4_5  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.0   6.0   3.8e-11   4.3e-08       3      39 ..      90     126 ..      87     134 .. 0.86
   2 !    6.6   0.3    0.0066       7.4       4      37 ..     196     233 ..     193     240 .. 0.73
   3 ?   -3.3   0.4       8.3   9.3e+03       6      17 ..     336     347 ..     333     351 .. 0.49

  Alignments for each domain:
  == domain 1  score: 33.0 bits;  conditional E-value: 3.8e-11
                   Fer4_5   3 llllilflaivlvtllfGRafCgWiCPfGalqellak 39 
                              l+++ ++++i ++t +fGR++CgW CP++++ ++++ 
  PHY93_11160|PHY93_11160  90 LVVISGLFFIAFLTSVFGRVWCGWGCPQTVFIHTIFS 126
                              4567888899999999***************999885 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.0066
                   Fer4_5   4 lllilflaivlvtll...fGR.afCgWiCPfGalqell 37 
                               l+  ++++ +++l+   + R  fC  +CP+G +q ++
  PHY93_11160|PHY93_11160 196 GLFTAVMTLTAIFLFdfgWFReQFCIIACPYGRMQSVM 233
                              45556667777777776744559*********888655 PP

  == domain 3  score: -3.3 bits;  conditional E-value: 8.3
                   Fer4_5   6 lilflaivlvtl 17 
                              ++++ +i +++ 
  PHY93_11160|PHY93_11160 336 VVCLTFIAAFFY 347
                              344444444444 PP

>> Fer4_21  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.5   1.9     7e-07   0.00078      13      53 ..     219     275 ..     217     280 .. 0.83
   2 !   12.3   1.0   0.00012      0.14       6      20 ..     285     299 ..     282     316 .. 0.85

  Alignments for each domain:
  == domain 1  score: 19.5 bits;  conditional E-value: 7e-07
                  Fer4_21  13 kCliaCedtshqaieidaktvl................kvvedeCvGCnlCssvCPv 53 
                               C+iaC+ + +q + +d+++ +                + +e +C+ C  C++vCP+
  PHY93_11160|PHY93_11160 219 FCIIACPYGRMQSVMMDENSLVvaydpirgeprrglvpREQEGDCINCYACVKVCPT 275
                              5*************99988866677788888888777555688*************6 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 0.00012
                  Fer4_21   6 dkCigCgkCliaCed 20 
                               +Ci C++C+ aC++
  PHY93_11160|PHY93_11160 285 MECIACTNCIDACDE 299
                              68***********97 PP

>> Fer4_9  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.8   1.6   1.4e-07   0.00016       8      49 ..     220     276 ..     217     277 .. 0.81
   2 !   12.7   0.6    0.0001      0.11       2      27 ..     287     312 ..     281     338 .. 0.76

  Alignments for each domain:
  == domain 1  score: 21.8 bits;  conditional E-value: 1.4e-07
                   Fer4_9   8 CveaCpagvvvedaaerkarlraase...............eaCigCgaCveaCpkg 49 
                              C+ aCp+g ++     +   + a++                 +Ci C aCv++Cp+g
  PHY93_11160|PHY93_11160 220 CIIACPYGRMQSVMMDENSLVVAYDPirgeprrglvpreqeGDCINCYACVKVCPTG 276
                              8889988888776666666666665577789999999999989************98 PP

  == domain 2  score: 12.7 bits;  conditional E-value: 0.0001
                   Fer4_9   2 CtgCgaCveaCpagvvvedaaerkar 27 
                              C+ C++C++aC   + + ++ ++ +r
  PHY93_11160|PHY93_11160 287 CIACTNCIDACDEVMEKVKKPRGLIR 312
                              88888888888665555555555544 PP

>> Fer4  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.1   0.2     0.039        43      14      21 ..     220     227 ..     218     227 .. 0.90
   2 !   21.9   4.2   9.3e-08    0.0001       5      21 ..     260     276 ..     257     277 .. 0.91
   3 !    8.0   4.1    0.0023       2.6       7      18 ..     286     297 ..     284     299 .. 0.92

  Alignments for each domain:
  == domain 1  score: 4.1 bits;  conditional E-value: 0.039
                              HHHHSTTT CS
                     Fer4  14 CvevCPvg 21 
                              C+ +CP+g
  PHY93_11160|PHY93_11160 220 CIIACPYG 227
                              ******97 PP

  == domain 2  score: 21.9 bits;  conditional E-value: 9.3e-08
                              TTTSSS-THHHHHSTTT CS
                     Fer4   5 eekCigCGaCvevCPvg 21 
                              e +Ci+C aCv+vCP+g
  PHY93_11160|PHY93_11160 260 EGDCINCYACVKVCPTG 276
                              678*************8 PP

  == domain 3  score: 8.0 bits;  conditional E-value: 0.0023
                              TSSS-THHHHHS CS
                     Fer4   7 kCigCGaCvevC 18 
                               Ci+C +C+++C
  PHY93_11160|PHY93_11160 286 ECIACTNCIDAC 297
                              6*********** PP

>> Fer4_17  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   1.4   6.9e-06    0.0077       7      61 .]     219     278 ..     217     278 .. 0.66
   2 !   11.3   0.3   0.00035      0.39       1      28 [.     286     313 ..     286     329 .. 0.77

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 6.9e-06
                  Fer4_17   7 yClpeCpsyeaydn..epkkllraakl...glleeaekeekaslCieCgeCerkCPqgld 61 
                              +C+ +Cp+++  +   ++++l+ a+ +   +  ++   +e+ ++Ci+C  C+++CP g+d
  PHY93_11160|PHY93_11160 219 FCIIACPYGRMQSVmmDENSLVVAYDPirgEPRRGLVPREQEGDCINCYACVKVCPTGID 278
                              6999999988844322455566655553422233333348999**************997 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 0.00035
                  Fer4_17   1 rCiqCgyClpeCpsyeaydnepkkllra 28 
                              +Ci C  C+++C   ++  ++p+ l+r 
  PHY93_11160|PHY93_11160 286 ECIACTNCIDACDEVMEKVKKPRGLIRY 313
                              6*************99999888885553 PP

>> Fer4_8  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   1.0   1.3e-05     0.015      44      65 .]     251     277 ..     218     277 .. 0.57
   2 !   10.4   0.2   0.00064      0.71       3      30 ..     285     313 ..     283     335 .. 0.74

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 1.3e-05
                   Fer4_8  44 e.....eealwsCttcgaCtevCpvgi 65 
                                    +e  + C +c aC++vCp+gi
  PHY93_11160|PHY93_11160 251 RrglvpREQEGDCINCYACVKVCPTGI 277
                              033345677799************997 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 0.00064
                   Fer4_8   3 ekCieCgaCqsaCp.vlrrtkkhlldarg 30 
                              ++Ci C  C +aC  v+++ kk +   r+
  PHY93_11160|PHY93_11160 285 MECIACTNCIDACDeVMEKVKKPRGLIRY 313
                              58***********6355555566655555 PP

>> Fer4_10  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.3   7.1   0.00012      0.14      15      56 .]     220     274 ..     218     274 .. 0.84
   2 !   18.7  15.1   1.2e-06    0.0014       5      55 ..     259     297 ..     255     298 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00012
                  Fer4_10  15 CvkaCPadl.............tsvgakgeaseeeavrkkvekCtgcgaCveaCP 56 
                              C  aCP+                 +  +ge  ++ + r+  ++C++c aCv++CP
  PHY93_11160|PHY93_11160 220 CIIACPYGRmqsvmmdenslvvAYDPIRGEPRRGLVPREQEGDCINCYACVKVCP 274
                              8999999889999999998887666677777788888899999**********99 PP

  == domain 2  score: 18.7 bits;  conditional E-value: 1.2e-06
                  Fer4_10   5 dddtCirCgkCvkaCPadltsvgakgeaseeeavrkkvekCtgcgaCveaC 55 
                              ++  Ci+C +Cvk+CP+            +++  r+   +C++c++C++aC
  PHY93_11160|PHY93_11160 259 QEGDCINCYACVKVCPT------------GIDIRRGTQMECIACTNCIDAC 297
                              5668*************............88888999999*********** PP

>> Fer4_6  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6   0.2     0.033        37      15      22 ..     220     227 ..     217     229 .. 0.89
   2 !   19.0   3.9   9.3e-07     0.001       8      22 ..     262     276 ..     255     277 .. 0.86
   3 ?    3.6   6.2     0.068        76       9      20 ..     287     298 ..     287     301 .. 0.92

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.033
                   Fer4_6  15 CvrvCPeg 22 
                              C+++CP+g
  PHY93_11160|PHY93_11160 220 CIIACPYG 227
                              ******98 PP

  == domain 2  score: 19.0 bits;  conditional E-value: 9.3e-07
                   Fer4_6   8 kCigCgdCvrvCPeg 22 
                               Ci C++Cv+vCP+g
  PHY93_11160|PHY93_11160 262 DCINCYACVKVCPTG 276
                              5************98 PP

  == domain 3  score: 3.6 bits;  conditional E-value: 0.068
                   Fer4_6   9 CigCgdCvrvCP 20 
                              Ci C +C+++C 
  PHY93_11160|PHY93_11160 287 CIACTNCIDACD 298
                              ***********5 PP

>> Fer4_3  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.1      0.44   4.9e+02       7      14 ..     220     227 ..     217     227 .. 0.90
   2 !   19.4   4.6   1.3e-06    0.0014       1      14 [.     263     276 ..     263     277 .. 0.95
   3 ?    2.2   3.6       0.4   4.4e+02       1      11 [.     287     297 ..     287     299 .. 0.93

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.44
                   Fer4_3   7 CvevCPvg 14 
                              C  +CP+g
  PHY93_11160|PHY93_11160 220 CIIACPYG 227
                              999***97 PP

  == domain 2  score: 19.4 bits;  conditional E-value: 1.3e-06
                   Fer4_3   1 CtgCgaCvevCPvg 14 
                              C++C+aCv+vCP+g
  PHY93_11160|PHY93_11160 263 CINCYACVKVCPTG 276
                              ************99 PP

  == domain 3  score: 2.2 bits;  conditional E-value: 0.4
                   Fer4_3   1 CtgCgaCvevC 11 
                              C+ C  C ++C
  PHY93_11160|PHY93_11160 287 CIACTNCIDAC 297
                              999*99***** PP

>> Fer4_16  4Fe-4S double cluster binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.0   4.6   0.00013      0.15       8      66 ..     220     275 ..     217     276 .. 0.66
   2 !   11.1   3.6   0.00054      0.61       2      16 ..     263     277 ..     262     285 .. 0.88
   3 !    8.8   0.6    0.0028       3.1       2      13 ..     287     298 ..     286     324 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 0.00013
                  Fer4_16   8 CaevCPtnaikekkekeieare.cisy...ntaekkdlaedeekckkqeaitgCdiCqdvCPa 66 
                              C+ +CP + +++    +++ +   ++y   + + +++l ++e++    ++++ C +C++vCP 
  PHY93_11160|PHY93_11160 220 CIIACPYGRMQSV---MMDENSlVVAYdpiRGEPRRGLVPREQE----GDCINCYACVKVCPT 275
                              9999999999999...5555541444443344455555555554....459999999999996 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 0.00054
                  Fer4_16   2 CgtCgkCaevCPtna 16 
                              C++C +C++vCPt+ 
  PHY93_11160|PHY93_11160 263 CINCYACVKVCPTGI 277
                              ************985 PP

  == domain 3  score: 8.8 bits;  conditional E-value: 0.0028
                  Fer4_16   2 CgtCgkCaevCP 13 
                              C+ C++C+++C 
  PHY93_11160|PHY93_11160 287 CIACTNCIDACD 298
                              ***********5 PP

>> Fer4_2  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.0   0.1         1   1.1e+03      16      22 .]     220     226 ..     217     226 .. 0.84
   2 !   15.9   3.7   8.8e-06    0.0099      10      22 .]     263     275 ..     256     275 .. 0.90
   3 ?    3.9   5.3     0.058        65      10      20 ..     287     297 ..     285     297 .. 0.96

  Alignments for each domain:
  == domain 1  score: 0.0 bits;  conditional E-value: 1
                   Fer4_2  16 CvsaCPa 22 
                              C+ aCP+
  PHY93_11160|PHY93_11160 220 CIIACPY 226
                              9999*95 PP

  == domain 2  score: 15.9 bits;  conditional E-value: 8.8e-06
                   Fer4_2  10 CigCgaCvsaCPa 22 
                              Ci+C aCv++CP+
  PHY93_11160|PHY93_11160 263 CINCYACVKVCPT 275
                              ************7 PP

  == domain 3  score: 3.9 bits;  conditional E-value: 0.058
                   Fer4_2  10 CigCgaCvsaC 20 
                              Ci+C  C++aC
  PHY93_11160|PHY93_11160 287 CIACTNCIDAC 297
                              *********** PP

>> Fer4_13  4Fe-4S single cluster domain of Ferredoxin I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   1.9    0.0016       1.8       5      18 ..     262     275 ..     259     280 .. 0.91
   2 ?   10.8   1.8   0.00049      0.55       5      21 ..     286     302 ..     283     309 .. 0.86

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.0016
                  Fer4_13   5 tCiacgaCvelaPd 18 
                               Ci+c aCv+++P 
  PHY93_11160|PHY93_11160 262 DCINCYACVKVCPT 275
                              6************5 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 0.00049
                  Fer4_13   5 tCiacgaCvelaPdvFe 21 
                              +Ciac++C +++ +v e
  PHY93_11160|PHY93_11160 286 ECIACTNCIDACDEVME 302
                              8***********99865 PP

>> FixG_C  IG-like fold at C-terminal of FixG, putative oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.1   3.3e-05     0.037       4     119 .]     348     467 .]     345     467 .] 0.77

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 3.3e-05
                              XXXX--SEEEEEEE-SS---------S....EEEEEEEEEEE-SSS-EEEEEEEES-S...S-EE.E.S--EEEE-TT-EEEEEEE CS
                   FixG_C   4 alatreplelnvlrdrgplyvevsdgs....ieNsYtlkilNktekprrytlsveglp...glelagraekeitvapgekrkvpvf 82 
                               l + ++l++  +r + ++++ + +      i N++t+k+  + e ++++ ++v++ +   ++e+   + k++++ + e++ + +f
  PHY93_11160|PHY93_11160 348 FLNKSTELSFVFMRGTDSPFQVMTEANgktiIVNHFTVKLSHQGEVQHELFFQVKEADlkdKIEI-ITPMKPLKINAPEVKALMFF 432
                              5555566666667777777765444334477************************8545569999.7799********99988776 PP

                              EEE-GGG-SSSEEEEEEEEEEGGGTEEEEEEEEEE-. CS
                   FixG_C  83 vrvpaealkkkstpitfkvtdddeketverksrFvgp 119
                               + +++ l ++s  i++++  +++++  +++ ++vgp
  PHY93_11160|PHY93_11160 433 -KFDPSILVNGSRIIHMEAI-ENNHVLSTQEVVLVGP 467
                              .7778888888889999996.6667888888888876 PP

>> Fer4_15  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.9   1.4     0.019        21       7      24 ..     262     279 ..     259     285 .. 0.85
   2 ?    7.0   2.2    0.0085       9.6       7      26 ..     286     305 ..     283     322 .. 0.84

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.019
                  Fer4_15   7 aCigcglCvaeapevfel 24 
                               Ci c +Cv+++p+ + +
  PHY93_11160|PHY93_11160 262 DCINCYACVKVCPTGIDI 279
                              6************98766 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.0085
                  Fer4_15   7 aCigcglCvaeapevfelde 26 
                              +Ci c +C+++++ev e+ +
  PHY93_11160|PHY93_11160 286 ECIACTNCIDACDEVMEKVK 305
                              7**************99865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (467 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       862  (0.0480785); expected 358.6 (0.02)
Passed bias filter:                      419  (0.02337); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              16  [number of targets reported over threshold]
# CPU time: 0.60u 0.21s 00:00:00.81 Elapsed: 00:00:00.39
# Mc/sec: 3616.12
//
Query:       PHY93_11165|PHY93_11165  [L=234]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.6e-37  127.2  13.6    8.8e-37  127.0  13.6    1.0  1  DsbD_2           Cytochrome C biogenesis protein transmembran
  ------ inclusion threshold ------
      0.033   14.2   0.0      0.069   13.2   0.0    1.5  1  DUF1106          Protein of unknown function (DUF1106)
       0.62    9.9  11.7        8.1    6.3   0.1    4.1  4  DUF3953          Protein of unknown function (DUF3953)
       0.76    9.4   3.1        1.4    8.5   2.3    1.9  1  CPP1-like        Protein CHAPERONE-LIKE PROTEIN OF POR1-like
        1.8    8.7   7.2        1.6    8.9   2.2    2.8  2  Phage_holin_3_3  LydA holin phage, holin superfamily III


Domain annotation for each model (and alignments):
>> DsbD_2  Cytochrome C biogenesis protein transmembrane region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  127.0  13.6   2.5e-40   8.8e-37       3     198 ..      16     209 ..      14     210 .. 0.91

  Alignments for each domain:
  == domain 1  score: 127.0 bits;  conditional E-value: 2.5e-40
                   DsbD_2   3 fllgLlgslhClgmCggivlalslskpkralalllynlGRilsYallGalvgllgsvlqlageleglrallgvllgllllllglkl 88 
                              f++g+ gslhC+gmCgg+v+a  ++++    + + y++GR+l Y +lG ++g+lg++++ +++ ++++ + g++lg l l++g++ 
  PHY93_11165|PHY93_11165  16 FIAGIGGSLHCVGMCGGLVTATCQKSN----DVARYQIGRLLGYLCLGFFAGVLGKIFTIQEANPKMTLIPGLILGGLFLFWGIQN 97 
                              899*******************99987....7899**************************************************9 PP

                   DsbD_2  89 llkkkll..klerlgkllsrllkklakklkslasalllGllnGllpCglvysalllalasgsaleGalvmlaFgLGTlpalllfgl 172
                               ++kk++    ++l++++ +l+k+l  k +++++a+++Gl+  +lpCgl+y ++l +++ ++ +   ++ml+F+LGTlp+++l+  
  PHY93_11165|PHY93_11165  98 YRGKKAElpMPKFLSQFYTKLWKRLVYKNENSSKAFFTGLISLFLPCGLLYGVVLGVATFEHSFHALFTMLFFWLGTLPSMVLAPS 183
                              96554331134556677777777777666999****************************************************** PP

                   DsbD_2 173 llgllskklrkkllrlagvllillgl 198
                              +++ + k l+ kl r  ++ lil+gl
  PHY93_11165|PHY93_11165 184 IIQKFLKPLKSKLPRTYAISLILIGL 209
                              ************************98 PP

>> DUF1106  Protein of unknown function (DUF1106)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   1.9e-05     0.069       3      40 ..     117     154 ..     115     166 .. 0.91

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.9e-05
                  DUF1106   3 slwkklfyssgrrrryfeeeehsfsilcgrlrgivlti 40 
                               lwk+l+y + +  + f  +  s+ + cg l g+vl +
  PHY93_11165|PHY93_11165 117 KLWKRLVYKNENSSKAFFTGLISLFLPCGLLYGVVLGV 154
                              69*********************************976 PP

>> DUF3953  Protein of unknown function (DUF3953)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.2       1.3   4.5e+03      26      33 ..      13      20 ..      10      22 .. 0.77
   2 ?    5.4   0.1    0.0043        16       3      19 ..      84     100 ..      84     103 .. 0.87
   3 ?    6.3   0.1    0.0023       8.1      17      35 ..     124     142 ..     124     142 .. 0.95
   4 ?    3.9   0.2     0.013        46       2      12 ..     204     214 ..     203     225 .. 0.81

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 1.3
                  DUF3953 26 illilaal 33
                             +++++a++
  PHY93_11165|PHY93_11165 13 WVSFIAGI 20
                             88999987 PP

  == domain 2  score: 5.4 bits;  conditional E-value: 0.0043
                  DUF3953   3 ifLGlmaltiGieEfkk 19 
                              ++LG ++l  Gi++++ 
  PHY93_11165|PHY93_11165  84 LILGGLFLFWGIQNYRG 100
                              68************986 PP

  == domain 3  score: 6.3 bits;  conditional E-value: 0.0023
                  DUF3953  17 fkkenkfsGillilaalfv 35 
                              +k+en ++++++ l++lf+
  PHY93_11165|PHY93_11165 124 YKNENSSKAFFTGLISLFL 142
                              79****************6 PP

  == domain 4  score: 3.9 bits;  conditional E-value: 0.013
                  DUF3953   2 lifLGlmalti 12 
                              li++Glm++++
  PHY93_11165|PHY93_11165 204 LILIGLMTISF 214
                              79*****9987 PP

>> CPP1-like  Protein CHAPERONE-LIKE PROTEIN OF POR1-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.5   2.3   0.00039       1.4     134     194 ..     122     174 ..      70     176 .. 0.69

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.00039
                CPP1-like 134 lnrKekklgravlltlvgLvv..GlllGsllasllqvdvalsglsseellvslvtlvllwlvs 194
                              l  K+++  +a+ ++l++L++  Gll G +l +       ++     + + +l+t++++wl++
  PHY93_11165|PHY93_11165 122 LVYKNENSSKAFFTGLISLFLpcGLLYGVVLGVAT-----FE-----HSFHALFTMLFFWLGT 174
                              66799999********9988633777777777654.....33.....5599**********87 PP

>> Phage_holin_3_3  LydA holin phage, holin superfamily III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   2.2   0.00045       1.6       5      49 ..      26      70 ..      13      81 .. 0.90
   2 ?    1.1   0.2      0.12   4.4e+02      27      65 ..     128     168 ..     117     175 .. 0.51

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.00045
          Phage_holin_3_3  5 vlAllGGlvsylmrakkgrrrfsikellleivvSgfvGllvfllc 49
                             ++++ GGlv    ++ +   r  i +ll+ ++ + f+G+l+ ++ 
  PHY93_11165|PHY93_11165 26 CVGMCGGLVTATCQKSNDVARYQIGRLLGYLCLGFFAGVLGKIFT 70
                             57999****9999999999*********************97775 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.12
          Phage_holin_3_3  27 sikellleivvSgf..vGllvfllceelglsqlltlaiagl 65 
                              +++ +++   +S+f  +Gll + ++  +++   + +++  l
  PHY93_11165|PHY93_11165 128 NSSKAFFTGLISLFlpCGLLYGVVLGVATFEHSFHALFTML 168
                              44445555555555333555444444444444444444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (234 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       598  (0.0333538); expected 358.6 (0.02)
Passed bias filter:                      344  (0.0191868); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.45u 0.21s 00:00:00.66 Elapsed: 00:00:00.37
# Mc/sec: 1901.02
//
Query:       PHY93_16870|PHY93_16870  [L=189]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    5.7e-26   90.0   0.1    1.1e-25   89.1   0.1    1.5  1  Elong-fact-P_C  Elongation factor P, C-terminal
    1.4e-20   73.0   0.2    3.1e-20   72.0   0.2    1.5  1  EFP_N           Elongation factor P (EF-P) KOW-like domain
    1.3e-16   60.4   1.6    4.9e-16   58.5   1.1    2.0  2  EFP             Elongation factor P (EF-P) OB domain
     0.0014   18.2   0.0      0.002   17.6   0.0    1.3  1  Peptidase_A4    Peptidase A4 family
  ------ inclusion threshold ------
       0.13   12.0   0.0       0.21   11.3   0.0    1.3  1  DUF966          Domain of unknown function (DUF966)


Domain annotation for each model (and alignments):
>> Elong-fact-P_C  Elongation factor P, C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   89.1   0.1   3.2e-29   1.1e-25       1      56 []     131     186 ..     131     186 .. 0.99

  Alignments for each domain:
  == domain 1  score: 89.1 bits;  conditional E-value: 3.2e-29
                              EEEEEEE--SSS--SSSSTTEEEEEETTS-EEEEETT--TT-EEEEETTTTEEEEE CS
           Elong-fact-P_C   1 VeleVvetepgvkGdtasggtKpatletGaevqVPlFIneGdkIkvdTrtgeYvsR 56 
                              V+l+V+et+pg+kGdtasg+tK+a++etG++v+VPlFI+eG+ +k+dTr+g Yv+R
  PHY93_16870|PHY93_16870 131 VNLKVTETDPGLKGDTASGATKKAVMETGLQVRVPLFIKEGELLKIDTREGAYVER 186
                              89*****************************************************9 PP

>> EFP_N  Elongation factor P (EF-P) KOW-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.0   0.2   8.6e-24   3.1e-20       2      55 ..       4      57 ..       3      59 .. 0.97

  Alignments for each domain:
  == domain 1  score: 72.0 bits;  conditional E-value: 8.6e-24
                             GGG--TT-EEEETTEEEEEEEEEEEEETTS--EEEEEEEETTTS-EEEEEEETT CS
                    EFP_N  2 aselkkGlvieidgklyvVlefehvkpGkGqafvrvklknlrtGakvektfkag 55
                             ++e+k+Gl+ e++gk+y+Vl+ e++ pGkG+afv v++knl tG+++e+tfk+g
  PHY93_16870|PHY93_16870  4 TTEMKRGLKMELEGKPYIVLKSEFTNPGKGSAFVIVRIKNLETGQVMERTFKSG 57
                             789**************************************************8 PP

>> EFP  Elongation factor P (EF-P) OB domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.5   1.1   1.4e-19   4.9e-16       1      54 []      70     123 ..      70     123 .. 0.98
   2 ?   -0.1   0.0      0.28   9.9e+02      36      51 ..     166     181 ..     157     184 .. 0.80

  Alignments for each domain:
  == domain 1  score: 58.5 bits;  conditional E-value: 1.4e-19
                              EEEEEEEEETTEEEEEETTT--EEEEEHHHHTTGCGG--TT-EEEEEEETTEEE CS
                      EFP   1 remqylYkdgdeyvFMdnetYeqielpkeqlgdaakfLkEgmevtvllyegepi 54 
                              +e++y+Y+d d+++FMd+ ++e i+l+ eq+gd++ fL Eg ++tvl+y+g+pi
  PHY93_16870|PHY93_16870  70 KEVEYMYADVDGFNFMDQANFESIHLTTEQVGDDKFFLMEGSKLTVLYYKGRPI 123
                              799**************************************************8 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.28
                              GG--TT-EEEEEEETT CS
                      EFP  36 kfLkEgmevtvllyeg 51 
                               f+kEg+ +++ + eg
  PHY93_16870|PHY93_16870 166 LFIKEGELLKIDTREG 181
                              69****9999877666 PP

>> Peptidase_A4  Peptidase A4 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.0   5.6e-07     0.002     113     170 ..      38     101 ..      21     121 .. 0.83

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 5.6e-07
             Peptidase_A4 113 tvtieNlstgqsvtktlsaps......sklcgqsAeWivEdfesgglvplanFgtvtFtdasat 170
                              +v i+Nl+tgq +++t+++          l ++++e++  d++  + +  anF++++ t+ ++ 
  PHY93_16870|PHY93_16870  38 IVRIKNLETGQVMERTFKSGVstnaeiPDLEEKEVEYMYADVDGFNFMDQANFESIHLTTEQVG 101
                              4556***************9788888999************996569999********987764 PP

>> DUF966  Domain of unknown function (DUF966)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   5.7e-05      0.21       2      27 ..     114     139 ..     113     143 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 5.7e-05
                   DUF966   2 aVVYYLsRngqLeHPHfmEVplsspe 27 
                               V+YY  R   +eHPHf+ +++ +++
  PHY93_16870|PHY93_16870 114 TVLYYKGRPISIEHPHFVNLKVTETD 139
                              699***************99998775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (189 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       356  (0.0198561); expected 358.6 (0.02)
Passed bias filter:                      315  (0.0175693); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 1453.61
//
Query:       PHY93_11170|PHY93_11170  [L=478]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-31  110.0  14.6    1.1e-31  110.0  14.6    3.2  2  MCPsignal        Methyl-accepting chemotaxis protein (MCP) si
    0.00015   22.4   0.0    0.00054   20.6   0.0    2.0  1  Hemerythrin      Hemerythrin HHE cation binding domain
  ------ inclusion threshold ------
        3.1    7.8  10.9         14    5.7   1.7    4.4  4  Sec20            Sec20
        9.5    6.5  10.2         14    6.0   0.1    4.0  3  DASH_Dad1        DASH complex subunit Dad1


Domain annotation for each model (and alignments):
>> MCPsignal  Methyl-accepting chemotaxis protein (MCP) signalling domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.8   2.6     0.021        94      76     157 ..      77     141 ..      26     145 .. 0.51
   2 !  110.0  14.6   2.4e-35   1.1e-31      15     169 ..     125     290 ..     111     293 .. 0.82

  Alignments for each domain:
  == domain 1  score: 2.8 bits;  conditional E-value: 0.021
                              HHHHHHHHHHHHHHHHH...HHH..............HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal  76 EVrkLAersaqaakeie...aliieiqkeindsvesleetrqrveegselveetgealkeiveavaevadlvqeiaaaseeqsas 157
                              E+ ++ +r+ + ++ ++   +l++e+++     ve + ++  +++egse  +                    +e++++ +e+s+s
  PHY93_11170|PHY93_11170  77 EINAMMNRTSDNTNSLSneaNLLQEVTARGSGIVEEMVHVSLEIKEGSEHFK--------------------SEMQKSMNELSQS 141
                              2222222222222222111123333333333333333333333333333332....................2233333333333 PP

  == domain 2  score: 110.0 bits;  conditional E-value: 2.4e-35
                              HHHHHHHHHHHHHHHHH...HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH.. CS
                MCPsignal  15 gkevanvvkqmeeieks...skeisdiieVideiadQTNlLALNAaiEAARAGeqGrGFaVVAdEVrkLAersaqaakeiealiie 97 
                              ++  ++++k m+e+++s    k+isd ++ i++i +QT lL  NA++EAARAGe+G+GF+VVA+E+ kLA+ s  +a ei++++++
  PHY93_11170|PHY93_11170 125 EHFKSEMQKSMNELSQSletIKQISDKTKLINDIVFQTKLLSFNASVEAARAGEAGKGFSVVAEEIGKLAQMSGRTADEISKIVEQ 210
                              44557899999999999666677777799*******************************************************87 PP

                              ....................HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal  98 iqkei........ndsvesleetrqrveegselveetgealkeiveavaevadlvqeiaaaseeqsasieevnqaveeva 169
                               +  +        +++ +   e+ ++ + g + +++ + ++kei+e+++e+  +++ei+ a++eq+ ++++   ++ +++
  PHY93_11170|PHY93_11170 211 STTSVgkaiisakDRVEKLTLESAKKNDLGYQSTKNCEVVFKEISEKISEIHRSIEEINIATKEQAIGVNQLDITIIKLQ 290
                              65554111111114444455578899999******************************************987776665 PP

>> Hemerythrin  Hemerythrin HHE cation binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.6   0.0   1.2e-07   0.00054       3     123 ..     351     460 ..     349     466 .. 0.83

  Alignments for each domain:
  == domain 1  score: 20.6 bits;  conditional E-value: 1.2e-07
                              HHHHHHHHHHHHHHHHHHHHHHHH.HHHHCCCHCCHHHHHHHHHHHHHHHHHHHHHHCHHHHH.CCC.HHHHHHHHHHHHHHHHHH CS
              Hemerythrin   3 vealdeeHralrallerlralada.aaevhgalrklaelldelvdeleaHhaaEEellfPlledrpggravldvlereHdeirell 87 
                              v+ +d+eH  l + ++ l + +++  ++ +   + l + +  l++ + +H+ +EE+++      r+ g+  l ++++ H+ +   +
  PHY93_11170|PHY93_11170 351 VKSMDAEHVILIEKINNLVTQMEQqYGKKD--TESLYQCFSDLAKFTVEHFSHEEDYM------RSIGYMQLTSHHKIHEKLLNHV 428
                              77899***********99777777465555..9************************8......4555666999999999999999 PP

                              HHHHHHCHTCGGSTCHHHHHHHHHHHHHHHHHHHHH CS
              Hemerythrin  88 eelrellkgleepsaaafaelleeladllreHiakE 123
                               +    +k+ +     + ++l+  l+ +l +Hi   
  PHY93_11170|PHY93_11170 429 GTYGVQIKNGT----IDSQKLISFLRNWLLSHIMGV 460
                              99996666666....477779***********9865 PP

>> Sec20  Sec20
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.3   0.2     0.034   1.5e+02       3      47 ..      85     129 ..      83     134 .. 0.90
   2 ?    5.7   1.7     0.003        14      11      56 ..     121     163 ..     111     173 .. 0.79
   3 ?    3.8   0.1     0.012        53      22      41 ..     301     320 ..     285     335 .. 0.88
   4 ?   -1.9   0.0      0.72   3.2e+03      51      77 ..     361     388 ..     355     395 .. 0.66

  Alignments for each domain:
  == domain 1  score: 2.3 bits;  conditional E-value: 0.034
                    Sec20   3 akqiTeslraisqllsqevqqSeenleeldastkslekleeeykq 47 
                              +++ T+sl +  +ll++ + +    +ee+++ + ++++ +e +k+
  PHY93_11170|PHY93_11170  85 TSDNTNSLSNEANLLQEVTARGSGIVEEMVHVSLEIKEGSEHFKS 129
                              57789********************************99999986 PP

  == domain 2  score: 5.7 bits;  conditional E-value: 0.003
                    Sec20  11 raisqllsqevqqSeenleeldastkslekleeeykqvedvlsrsk 56 
                              +++s+++++e+q+S   ++el++s +++++++++ k ++d++ ++k
  PHY93_11170|PHY93_11170 121 KEGSEHFKSEMQKS---MNELSQSLETIKQISDKTKLINDIVFQTK 163
                              56666777777776...789999999******99999999887776 PP

  == domain 3  score: 3.8 bits;  conditional E-value: 0.012
                    Sec20  22 qqSeenleeldastkslekl 41 
                               qS+e ++el+++t++l +l
  PHY93_11170|PHY93_11170 301 SQSTEHAHELVKQTQNLAEL 320
                              69**************9876 PP

  == domain 4  score: -1.9 bits;  conditional E-value: 0.72
                    Sec20  51 vlsrskklvkklerr.dktdkllvflal 77 
                              ++++ ++lv+++e++  k+d   ++  +
  PHY93_11170|PHY93_11170 361 LIEKINNLVTQMEQQyGKKDTESLYQCF 388
                              5667778888887762355555555555 PP

>> DASH_Dad1  DASH complex subunit Dad1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.6      0.44     2e+03      11      27 ..      76      92 ..      70     103 .. 0.78
   2 ?    6.0   0.1    0.0031        14      20      40 ..     131     151 ..     115     158 .. 0.79
   3 ?    4.7   0.4    0.0077        35       9      30 ..     250     271 ..     244     292 .. 0.81

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 0.44
                DASH_Dad1 11 qeIaesmeevlnnlnaL 27
                              eI++ m+    n+n L
  PHY93_11170|PHY93_11170 76 HEINAMMNRTSDNTNSL 92
                             57888888888888877 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.0031
                DASH_Dad1  20 vlnnlnaLNRsLEeviavgke 40 
                              + +++n L +sLE++ +++ +
  PHY93_11170|PHY93_11170 131 MQKSMNELSQSLETIKQISDK 151
                              55789**********999876 PP

  == domain 3  score: 4.7 bits;  conditional E-value: 0.0077
                DASH_Dad1   9 liqeIaesmeevlnnlnaLNRs 30 
                              + +eI+e++ e++ +++ +N+ 
  PHY93_11170|PHY93_11170 250 VFKEISEKISEIHRSIEEINIA 271
                              6789999999999999999985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (478 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1719  (0.0958782); expected 358.6 (0.02)
Passed bias filter:                      566  (0.031569); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.69u 0.22s 00:00:00.90 Elapsed: 00:00:00.39
# Mc/sec: 3652.21
//
Query:       PHY93_11175|PHY93_11175  [L=171]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (171 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       263  (0.014669); expected 358.6 (0.02)
Passed bias filter:                      252  (0.0140554); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.17s 00:00:00.56 Elapsed: 00:00:00.33
# Mc/sec: 1552.85
//
Query:       PHY93_11180|PHY93_11180  [L=198]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    3.4e-12   46.9   0.0      4e-12   46.7   0.0    1.1  1  AAA_28      AAA domain
    6.1e-05   23.4   0.0      8e-05   23.0   0.0    1.3  1  AAA_19      AAA domain
    0.00083   18.7   0.1     0.0024   17.2   0.0    1.7  2  Zeta_toxin  Zeta toxin
     0.0034   17.6   0.0     0.0056   17.0   0.0    1.3  1  AAA_22      AAA domain
     0.0058   17.0   0.0     0.0066   16.8   0.0    1.3  1  AAA_16      AAA ATPase domain
  ------ inclusion threshold ------
      0.013   15.2   0.5      0.027   14.2   0.4    1.4  1  AAA_30      AAA domain
      0.024   13.9   0.2      0.036   13.3   0.2    1.3  1  DUF2075     Uncharacterized conserved protein (DUF2075)
        0.1   12.0   0.0       0.17   11.2   0.0    1.3  1  ATPase      KaiC
       0.19   10.8   0.1       0.34    9.9   0.1    1.3  1  T2SSE       Type II/IV secretion system protein
       0.22   12.0   0.3       0.34   11.4   0.3    1.5  1  AAA_23      AAA domain


Domain annotation for each model (and alignments):
>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.7   0.0   2.2e-15     4e-12       2     154 ..      13     173 ..      12     182 .. 0.69

  Alignments for each domain:
  == domain 1  score: 46.7 bits;  conditional E-value: 2.2e-15
                   AAA_28   2 ivitGgestGKTtlleaLaar...gypvvpEaareileeklakgedalpwvedllafaerv..leeqleeeaaa.aankvlfcDrg 81 
                              ivitGg+++GKT +le  ++    + +++pE+a  i+  +  +    l +   + a ++++  ++ ++e++ +  +   + fcDrg
  PHY93_11180|PHY93_11180  13 IVITGGPGAGKTAVLEMAKKFlvdNATILPESASIIFGGGFWR-LPSLTA---KAAAQRAIfhVQTEMENLVREeKRWALGFCDRG 94 
                              9************9987665477688888****9999655533.222333...3444444400444444444443556788***** PP

                   AAA_28  82 lldtlaYaraygge.aeaelea.aarekrydlvfllp.pap..ei.dddgeRredleereaiderlrealrelgipvii 154
                              +ld laY+  ++++  e + ++ + + ++y +v++l+ p+    + + +  R e+ ++ + id+++ ++++ ++   ++
  PHY93_11180|PHY93_11180  95 TLDGLAYWPNSEKTfWEISNTSlEKELNKYYAVIHLRsPSDlfGYnHINPLRIESAAQSQMIDDKIANIWKSHPRYEVV 173
                              ********888887533232223445677999****944555533699***********************99754444 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.0   0.0   4.5e-08     8e-05      10      68 ..      10      82 ..       6     165 .. 0.71

  Alignments for each domain:
  == domain 1  score: 23.0 bits;  conditional E-value: 4.5e-08
                   AAA_19 10 ekvllvtaGpGtGKTrvlkhivallvelggvkp..............eeillvaftgrAakelrerlaalgae 68
                              k++++t+GpG GKT vl+++ + lv++ ++ p               ++++ a ++rA   +++++++l +e
  PHY93_11180|PHY93_11180 10 TKLIVITGGPGAGKTAVLEMAKKFLVDNATILPesasiifgggfwrlPSLTAKAAAQRAIFHVQTEMENLVRE 82
                             5789***********************9998886666666666666555555566666666666666555555 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.0   1.3e-06    0.0024      15      40 ..       9      34 ..       2      42 .. 0.82
   2 ?   -2.0   0.0      0.99   1.8e+03      57      75 ..     166     184 ..     152     196 .. 0.70

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 1.3e-06
               Zeta_toxin 15 rPklillgGqpGAGKselaellkdel 40
                               kli++ G+pGAGK++++e++k+ l
  PHY93_11180|PHY93_11180  9 DTKLIVITGGPGAGKTAVLEMAKKFL 34
                             5689*****************99866 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.99
               Zeta_toxin  57 lhPeyeeilkadpkkasel 75 
                               hP+ye ++ +++  + ++
  PHY93_11180|PHY93_11180 166 SHPRYEVVMSNESFFTKAQ 184
                              6888888777665444444 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.0   3.1e-06    0.0056       6      51 ..      11      60 ..       8      85 .. 0.78

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 3.1e-06
                   AAA_22  6 gilvvtGesGtGKTtllrrlleqldeeakaeeerpevv....fvtlpsst 51
                             +++v+tG +G+GKT +l++ ++ l+  a +  e+++++    f  lps+t
  PHY93_11180|PHY93_11180 11 KLIVITGGPGAGKTAVLEMAKKFLVDNATILPESASIIfgggFWRLPSLT 60
                             789*******************9976666555777777666666666666 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   3.7e-06    0.0066      22      51 ..       8      37 ..       2     128 .. 0.83

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 3.7e-06
                   AAA_16 22 grpelvllsGesGvGKsslvrellralekd 51
                             +++ l++++G +G GK+++++++++ l ++
  PHY93_11180|PHY93_11180  8 PDTKLIVITGGPGAGKTAVLEMAKKFLVDN 37
                             44599******************9988877 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.4   1.5e-05     0.027      19      42 ..      11      34 ..       6      67 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 1.5e-05
                   AAA_30 19 rvavltGpAGtGKttalkalreaw 42
                             ++ v+tG++G+GKt +l+ +++ +
  PHY93_11180|PHY93_11180 11 KLIVITGGPGAGKTAVLEMAKKFL 34
                             5889*************9998765 PP

>> DUF2075  Uncharacterized conserved protein (DUF2075)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.2     2e-05     0.036       2      18 ..      11      27 ..      10      51 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 2e-05
                  DUF2075  2 avvlVtGvaGtGKtvvl 18
                             +++++tG++G+GKt vl
  PHY93_11180|PHY93_11180 11 KLIVITGGPGAGKTAVL 27
                             789***********997 PP

>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   9.7e-05      0.17      17      44 ..       8      38 ..       4      47 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 9.7e-05
                   ATPase 17 pegrvvlitGepGtGKti...falqFlikga 44
                             p+ + + itG+pG+GKt    +a++Fl+  a
  PHY93_11180|PHY93_11180  8 PDTKLIVITGGPGAGKTAvleMAKKFLVDNA 38
                             67899************75568999999876 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.1   0.00019      0.34     130     155 ..      11      36 ..       6      42 .. 0.84

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00019
                    T2SSE 130 glilvsGgTgsGKttllyallkeink 155
                              +li+++Gg g GKt +l ++ k++ +
  PHY93_11180|PHY93_11180  11 KLIVITGGPGAGKTAVLEMAKKFLVD 36 
                              78***************998887765 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.3   0.00019      0.34      18      38 ..       9      29 ..       3     124 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00019
                   AAA_23 18 skgltlItGpNGaGKTTildA 38
                             + +l +ItG  GaGKT++l+ 
  PHY93_11180|PHY93_11180  9 DTKLIVITGGPGAGKTAVLEM 29
                             5689**************985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (198 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       573  (0.0319594); expected 358.6 (0.02)
Passed bias filter:                      475  (0.0264934); expected 358.6 (0.02)
Passed Vit filter:                        82  (0.0045736); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.37
# Mc/sec: 1605.07
//
Query:       PHY93_11185|PHY93_11185  [L=278]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.8e-07   29.0   0.1    2.1e-06   27.7   0.1    1.6  1  Mrr_cat        Restriction endonuclease
  ------ inclusion threshold ------
      0.066   13.8   0.2       0.19   12.4   0.1    1.8  2  ATP-cone       ATP cone domain
      0.072   12.8   0.0       0.34   10.6   0.0    1.9  2  Peptidase_M24  Metallopeptidase family M24


Domain annotation for each model (and alignments):
>> Mrr_cat  Restriction endonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.7   0.1   3.6e-10   2.1e-06       6     106 ..      95     204 ..      93     208 .. 0.74

  Alignments for each domain:
  == domain 1  score: 27.7 bits;  conditional E-value: 3.6e-10
                              TTCHHHHHHHHHHHHSSS...EEE---B-TTSSB--EEEETTEEEEEEEEEEE--T...S-B-HHHHHHHHHHCTT......S..S CS
                  Mrr_cat   6 pkeFeklvaellealGyk...eveltgrsgDggiDliakkdplgserilvqaKryk...nkvgvkeVqeligalkk......rgad 79 
                              + eFe++v +++e+ Gy+    + + g+   + +D++a+k + +  + +v++K ++   ++ + k V  + ++ ++       ++ 
  PHY93_11185|PHY93_11185  95 GFEFEYFVSKYFEEIGYTtyiGIVVQGEFVRHEVDIVASKPN-Y--QAYVECKFHNnigRTNDIKIVLYIKARWDDlkngpdGKYL 177
                              689***************655444666667899******955.4..8*******96343455555555555544446657765577 PP

                              EEEEEE.SS-B-HHHHHHHHTT--EEEE CS
                  Mrr_cat  80 kgifvt.tsdftkaAreeaeelnkieLl 106
                              + +fv  + +f+k+A+++a++  +++Ll
  PHY93_11185|PHY93_11185 178 REFFVAsNTTFSKDAIDYAKG-TGLQLL 204
                              7777762666**********9.888886 PP

>> ATP-cone  ATP cone domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   3.1e-05      0.19       2      47 ..      13      57 ..      12      66 .. 0.85
   2 ?   -2.7   0.0       1.6   9.3e+03      48      59 ..     259     270 ..     236     274 .. 0.69

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 3.1e-05
                             EEE-TTS-EEE--HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH CS
                 ATP-cone  2 kViKRdGtvepfdvekIkraiekAcegseeeideiaeeveaevrkr 47
                             ++ K  G+ e f+ +k++r++ +     +++++ei++ev+++v+ +
  PHY93_11185|PHY93_11185 13 HIFKSTGELEIFSAKKLERSLLRTGLR-PKDVKEISKEVAQKVKPG 57
                             68899*******************999.999****99998887544 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 1.6
                              HIIT-BHHHHHH CS
                 ATP-cone  48 lrdgisteeIqd 59 
                              +r g+s eeI+ 
  PHY93_11185|PHY93_11185 259 IRMGMSEEEIRA 270
                              566788888875 PP

>> Peptidase_M24  Metallopeptidase family M24
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   5.7e-05      0.34     111     145 ..      42      77 ..      40     153 .. 0.72
   2 ?   -0.4   0.0      0.13   7.8e+02      21      36 ..     259     274 ..     243     277 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 5.7e-05
                              HHHHHHHHHHHC-STTSBHHHHHHHHHHHHHHT.TB CS
            Peptidase_M24 111 avleaqeaaikavkpGvtlseidaaarevlesa.gl 145
                               v+e+ +++ ++vkpG++++ei + a ++++++  +
  PHY93_11185|PHY93_11185  42 DVKEISKEVAQKVKPGTSTREIFKDAFKLIRKKsPI 77 
                              6899***************************85322 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 0.13
                              HHTTCBHHHHHHHHHH CS
            Peptidase_M24  21 ikpgvterelaaeiea 36 
                              i+ g++e+e+ a++ +
  PHY93_11185|PHY93_11185 259 IRMGMSEEEIRAIFSD 274
                              889*********9975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (278 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       475  (0.0264934); expected 358.6 (0.02)
Passed bias filter:                      355  (0.0198003); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.42u 0.19s 00:00:00.61 Elapsed: 00:00:00.34
# Mc/sec: 2455.87
//
Query:       PHY93_11190|PHY93_11190  [L=433]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.3e-19   69.2   0.0    8.1e-19   68.0   0.0    1.7  1  Beta-Casp      Beta-Casp domain
    6.8e-19   68.1   0.0    1.6e-16   60.3   0.0    2.3  2  Lactamase_B_6  Metallo-beta-lactamase superfamily domain
    1.3e-15   58.0   0.1      3e-15   56.8   0.1    1.6  1  Lactamase_B    Metallo-beta-lactamase superfamily
    6.7e-12   45.4   0.0    2.2e-11   43.7   0.0    1.8  2  Lactamase_B_2  Beta-lactamase superfamily domain
    5.2e-10   39.1   1.4    1.7e-09   37.4   0.0    2.6  3  RMMBL          Zn-dependent metallo-hydrolase RNA specificity
  ------ inclusion threshold ------
      0.019   14.9   0.0      0.036   14.0   0.0    1.6  1  Lactamase_B_3  Beta-lactamase superfamily domain


Domain annotation for each model (and alignments):
>> Beta-Casp  Beta-Casp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.0   0.0   2.7e-22   8.1e-19       3     110 .]     236     352 ..     234     352 .. 0.89

  Alignments for each domain:
  == domain 1  score: 68.0 bits;  conditional E-value: 2.7e-22
                              HHHHHH..HCTT..TTS-S-EEEEE-HHHHHHHHHGGGGGG........E-SHH.....HHHH....HHHS-SSEEEEES-TTSSS CS
                Beta-Casp   3 ellylLeelwkekkledlklpiyldsplaskatevYkeyae........veaks.lewmeskke..elnsskgpkvilassgmleg 77 
                               l+ l++++ + +++   k+  ++d+p++++a +vYke+++        ++a + +e +++ +e  ++++++gp v+++ssgm++g
  PHY93_11190|PHY93_11190 236 LLITLIHKFYQLHPE--EKVRFVIDGPMMTEANKVYKEFSHdtkcpedlKTALEeVEVIDHIREwdSISKKEGPLVVVTSSGMVSG 319
                              567777999998874..347*******************999****9995555568888888777888899*************** PP

                              SHHHHHHHHHTTSTTSEEEESS---TTSHHHHH CS
                Beta-Casp  78 GrsrellkklledprntvilvgyqaegTlgrkl 110
                              Gr+ ++l+++ +dp+ +++l+gyqa gT g++l
  PHY93_11190|PHY93_11190 320 GRIWRYLENWQNDPNACLFLPGYQAAGTAGKAL 352
                              ******************************976 PP

>> Lactamase_B_6  Metallo-beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.3   0.0   5.4e-20   1.6e-16       1     159 [.      18     168 ..      18     179 .. 0.82
   2 !    5.4   0.0    0.0038        11      95     149 ..     271     325 ..     254     333 .. 0.80

  Alignments for each domain:
  == domain 1  score: 60.3 bits;  conditional E-value: 5.4e-20
            Lactamase_B_6   1 lLeldnvkiLlDvGwdeskvs.lesalkelekviptvdliLLshatlehlGayallyakfksklllnipvyatlpvvkLGrvslld 85 
                              l+e  + kiL+D+G  + +++ +++ l++l    +++d+i+L+ha l+h G  + l+     kl+ + ++yat+p+ kL+r+ + d
  PHY93_11190|PHY93_11190  18 LVECAEGKILIDCGLYQGSDDiVKKNLRPLPFNPKEIDAIILTHAHLDHSGHIPRLV-----KLGFRGHIYATKPTLKLARLIMSD 98 
                              5778889*******98664441577899999999*****************544444.....6899******************** PP

            Lactamase_B_6  86 lyaskgllg.pedseeleledideafdkiktlkYsQklelkskldgltitaynaGhtlGGtiWkiskesekivYa 159
                              +++  + ++ ++ s+  e+ed+  a + +k+ k++ ++el +    +++t    Gh lG++   i+ +++kiv+ 
  PHY93_11190|PHY93_11190  99 SAQILEKSEhHILSSFYEMEDVMIAISLFKPKKFHEPFELLG----MSLTLRPVGHILGASSVFIQ-GEQKIVFS 168
                              998766555155667789*********************995....67777778******987776.55677776 PP

  == domain 2  score: 5.4 bits;  conditional E-value: 0.0038
            Lactamase_B_6  95 pedseeleledideafdkiktlkYsQklelkskldgltitaynaGhtlGGtiWki 149
                              +++ ++   ed ++a ++++ + +  + +  sk +g +++  ++G + GG iW+ 
  PHY93_11190|PHY93_11190 271 EFSHDTKCPEDLKTALEEVEVIDHIREWDSISKKEGPLVVVTSSGMVSGGRIWRY 325
                              33334444599******************************************85 PP

>> Lactamase_B  Metallo-beta-lactamase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.8   0.1     1e-18     3e-15       4     162 ..      12     182 ..       9     222 .. 0.81

  Alignments for each domain:
  == domain 1  score: 56.8 bits;  conditional E-value: 1e-18
                              CSSEEEEEEETTCEEEES--SCHHHHHHHH.HHHHHTSGGGGEEEEE-SBSSHHHHTTGGGCTTHHCCEETCCEHHHHCCHCHHHH CS
              Lactamase_B   4 dpvnsyliegdggviLiDtGtsteaaraal.elaalglkpkdvdavilTHlHlDHiGglgglveatdvpvgavaeeapalfmeead 88 
                              + ++++l+e  +g iLiD+G+ +  +++++ +l+ l ++pk++da+ilTH+HlDH G  + lv+     +++  + + +l +  + 
  PHY93_11190|PHY93_11190  12 VTGSMTLVECAEGKILIDCGLYQGSDDIVKkNLRPLPFNPKEIDAIILTHAHLDHSGHIPRLVKLGFRGHIYATKPTLKLARLIMS 97 
                              67899**************************************************************9999999999999999998 PP

                              HHHHHCCHH..............TTCHCGCCEEEEETTTEECCCTEEEEEHECTTSTSCCEEEEEETTCCEEEECTTTSSHHCCCC CS
              Lactamase_B  89 daasrkgll..............lagvsadkpdvdeeeldgnaggrralyvtggpghghghgvveygggkvlftGDallagetgri 160
                              d+a+  +                 ++ s +kp  + e+ ++ +++  + +v ++ g +++   +  g++k++f+GD++  ++ + +
  PHY93_11190|PHY93_11190  98 DSAQILEKSehhilssfyemedvMIAISLFKPKKFHEPFELLGMSLTLRPVGHILGASSV---FIQGEQKIVFSGDVGRFNDPIIF 180
                              87777666699*********9776666666666666666666666666666666666554...556999*********99988888 PP

                              CC CS
              Lactamase_B 161 dl 162
                              ++
  PHY93_11190|PHY93_11190 181 PP 182
                              87 PP

>> Lactamase_B_2  Beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.7   0.0   7.3e-15   2.2e-11       3     166 ..      26     197 ..      25     205 .. 0.70
   2 ?   -3.4   0.0         2   5.9e+03     176     198 ..     380     402 ..     371     403 .. 0.79

  Alignments for each domain:
  == domain 1  score: 43.7 bits;  conditional E-value: 7.3e-15
                              EEES--TT.....HHHHHTCGGS--SSS--..SEEEEE-SS--HHHHGGGGCCCC..C--EEEEEEEEHHHHH....HCCTTCGHH CS
            Lactamase_B_2   3 iLiDagpd.....lrqqalralqPvelrdelppidaVllthaHyDHlaglltlre..lrpkklplyapkgvla....vleanfvyl 77 
                              iLiD+g+      +++  lr   P     ++++ida++lthaH DH   ++ l +  +r+   ++ya+k +l+    +++++ + l
  PHY93_11190|PHY93_11190  26 ILIDCGLYqgsddIVKKNLR---PL--PFNPKEIDAIILTHAHLDHSGHIPRLVKlgFRG---HIYATKPTLKlarlIMSDSAQIL 103
                              99***998555554444233...33..345778**********************66555...7****999995555333333333 PP

                              HCHTT...........TTEEEEEE-..........TTSEEEECSTTEEEEEEEE-EE--CTCCE-TTTSEEEEEECTTEEEEEESS CS
            Lactamase_B_2  78 aleee...........pavnvheld..........wgesfelgdggleitatparhksgrrldrnagdtlGlriegggkrvyyigD 142
                               + e+                               +e+fel   g+++t+ p+ h  g           ++ i+ g+++++++gD
  PHY93_11190|PHY93_11190 104 EKSEHhilssfyemedV-------MiaislfkpkkFHEPFELL--GMSLTLRPVGHILGA---------SSVFIQ-GEQKIVFSGD 170
                              33333444433222231.......2333333333477777774..677888888888887.........788888.9********* PP

                              -S---HHHH...HHHCT-SEEEEE-S- CS
            Lactamase_B_2 143 tgyipeeig...erlggadlllldita 166
                              +g++ + i    e+  + d+l+++ t+
  PHY93_11190|PHY93_11190 171 VGRFNDPIIfppEKCPPTDILVMESTY 197
                              *****998878999********99875 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 2
                              HT---STSHHHHCTTSSSSEEEE CS
            Lactamase_B_2 176 mgHltpeeaveaaadlgakrlvl 198
                               +H++++e + +++d+++ + ++
  PHY93_11190|PHY93_11190 380 SSHADQSELISWIKDIDKNTQIF 402
                              47999999999999998877665 PP

>> RMMBL  Zn-dependent metallo-hydrolase RNA specificity domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.1       2.1   6.4e+03      32      43 ..      52      66 ..      49      75 .. 0.57
   2 ?   -1.8   0.0         1     3e+03      20      32 ..     208     220 ..     207     226 .. 0.71
   3 !   37.4   0.0   5.8e-13   1.7e-09      11      59 ..     376     425 ..     367     429 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 2.1
                    RMMBL 32 rn...vilvHGeeea 43
                             +    +il H + ++
  PHY93_11190|PHY93_11190 52 KEidaIILTHAHLDH 66
                             555556666654444 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 1
                    RMMBL  20 nellelirklkpr 32 
                              +el  +++k+k +
  PHY93_11190|PHY93_11190 208 EELAAFLKKIKRE 220
                              6788888888765 PP

  == domain 3  score: 37.4 bits;  conditional E-value: 5.8e-13
                    RMMBL  11 id.fSgHadknellelirklkprn.vilvHGeeeatsalarllkeeegidv 59 
                               + fS Had++el+ +i+ + +   ++++HGe ++++ ++++l +e g++ 
  PHY93_11190|PHY93_11190 376 SEaFSSHADQSELISWIKDIDKNTqIFINHGEVDSKQMFKDKL-TELGYKN 425
                              577*****************99999******************.9998544 PP

>> Lactamase_B_3  Beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   1.2e-05     0.036      10      58 ..      17      76 ..      12     191 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.2e-05
            Lactamase_B_3 10 flletagarilvDPf.........kanlgyeppa.........eeaDlvlisqaledHa.hletlkql 58
                              l+e a+ +il+D +         k        +         +e+D++++++a+ dH  h+++l +l
  PHY93_11190|PHY93_11190 17 TLVECAEGKILIDCGlyqgsddivK--------KnlrplpfnpKEIDAIILTHAHLDHSgHIPRLVKL 76
                             578999999****994444333321........2466666777***************6366666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (433 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       434  (0.0242066); expected 358.6 (0.02)
Passed bias filter:                      386  (0.0215294); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.37
# Mc/sec: 3542.45
//
Query:       PHY93_11195|PHY93_11195  [L=420]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.9e-62  209.8   0.0    3.1e-62  209.1   0.0    1.3  1  AcetylCoA_hyd_C  Acetyl-CoA hydrolase/transferase C-terminal 
    7.8e-14   52.1   0.1    1.7e-13   51.0   0.1    1.5  1  AcetylCoA_hydro  Acetyl-CoA hydrolase/transferase N-terminal 
    0.00042   20.3   0.1      0.069   13.1   0.0    2.6  3  DeoRC            DeoR C terminal sensor domain


Domain annotation for each model (and alignments):
>> AcetylCoA_hyd_C  Acetyl-CoA hydrolase/transferase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  209.1   0.0   5.1e-66   3.1e-62       1     153 [.     265     416 ..     265     417 .. 0.99

  Alignments for each domain:
  == domain 1  score: 209.1 bits;  conditional E-value: 5.1e-66
                              S-HHHHHHHTT-TTEEE-BHHHHT-HHHHTTSTTEEEEEE-SEEETTS-EESSECTTCCTCGGTTHHHHHHHHHHSTT-EEEEE-- CS
          AcetylCoA_hyd_C   1 GskklydfldenpkielrpveyvndpeviaqnkkvvsinsalevdltGqvnseslggrvvsGvGgqldFvrgaalskggksiialp 86 
                              Gs+k+y+f+d+n ++ l +++y+n+p++iaqn+kvv++nsa+e+dltGqv+s+s+g+r++sGvGgq+dF+rgaa s+ggk+iialp
  PHY93_11195|PHY93_11195 265 GSEKIYNFIDDNTEVILLDCSYTNNPHIIAQNPKVVAVNSAIEIDLTGQVCSDSIGSRIYSGVGGQMDFIRGAAISQGGKPIIALP 350
                              99************************************************************************************ PP

                              SEETTTTEESEESS-STTSSECE-TTT-SEEEETTEEEE-TT--HHHHHHHHHTTS-HHHHHHHHHH CS
          AcetylCoA_hyd_C  87 StakkgeiSrIvpslkegahvtttrhdvdyvvTEyGiadLrgkslreraealikiAhpdfreeLlee 153
                              S ++kge S+Ivp+lk+ga+v+ttr++v+yvvTEyG+a+L+g++l+era+ali+iA p++re+L ++
  PHY93_11195|PHY93_11195 351 SKTSKGE-SKIVPFLKAGAGVVTTRAHVQYVVTEYGVAYLHGLTLEERAKALIAIAAPEHRETLDRK 416
                              ******9.*******************************************************9875 PP

>> AcetylCoA_hydro  Acetyl-CoA hydrolase/transferase N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.0   0.1   2.9e-17   1.7e-13      13     184 ..       8     167 ..       2     176 .. 0.77

  Alignments for each domain:
  == domain 1  score: 51.0 bits;  conditional E-value: 2.9e-17
          AcetylCoA_hydro  13 eeaaelvkngshielsgftavgtakaipkylakrkvekenvkkkllidlavgavlsagPeeevleekdavlyrpapkqvgellrka 98 
                              +ea+  +k+++ + +    a+ t+  + k++++r  e+ +v      d+ +    + g    + +++   +++   ++ g+ +r+a
  PHY93_11195|PHY93_11195   8 DEAVREIKSNDKVFIHS--AAATPEELVKAMVRRSSELRDV------DIYHIH--TEG-DCSYAKDEYRESFKLHAFFNGSNIRQA 82 
                              55555555555554444..4555555555555555554443......444444..556.78899999999999999********** PP

          AcetylCoA_hydro  99 inqglv.sfvdkhlsevpqklekgfvpiDvalieataldedGylnlGvgvrakKviiEvaelvvivvkknpPrvngydelialdkv 183
                               n+ l+ s+v+++ls +p ++  + v +Dval++ t++d++G   lG +v++  ++    ++ +++++ + Pr  g  e i+ +k+
  PHY93_11195|PHY93_11195  83 TNNHLAsSYVPIFLSDIPHLFYNKKVELDVALVQLTPPDRHGMCSLGPSVDVSIAALNTTKKIIAQINPKLPRTFG--EQIHYSKI 166
                              *9998637***********99999999**********************************************999..77888887 PP

          AcetylCoA_hydro 184 d 184
                               
  PHY93_11195|PHY93_11195 167 T 167
                              3 PP

>> DeoRC  DeoR C terminal sensor domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.2   0.0    0.0064        38      10      41 ..       7      39 ..       3      47 .. 0.84
   2 !   13.1   0.0   1.2e-05     0.069       8      51 ..     190     233 ..     187     243 .. 0.95
   3 ?   -3.6   0.0       1.6   9.6e+03      17      31 ..     273     288 ..     268     295 .. 0.69

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.0064
                    DeoRC 10 AkaAaeliedgdtiflda.GtTtlelaraLaek 41
                             A +A++ i+++d +f+ +   T +el++a+ ++
  PHY93_11195|PHY93_11195  7 ADEAVREIKSNDKVFIHSaAATPEELVKAMVRR 39
                             889*************86257889999999877 PP

  == domain 2  score: 13.1 bits;  conditional E-value: 1.2e-05
                    DeoRC   8 rIAkaAaeliedgdtifldaGtTtlelaraLaekknltvvTnsl 51 
                              +I+k  aeliedg+t+ l++G    ++ + L ++k+l + T ++
  PHY93_11195|PHY93_11195 190 AIGKNIAELIEDGSTLQLGIGAIPNAVLSLLGNHKDLGIHTEMF 233
                              79************************************999875 PP

  == domain 3  score: -3.6 bits;  conditional E-value: 1.6
                    DeoRC  17 ied.gdtifldaGtTt 31 
                              i d  ++i+ld++ T+
  PHY93_11195|PHY93_11195 273 IDDnTEVILLDCSYTN 288
                              5551468888988775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (420 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       532  (0.0296726); expected 358.6 (0.02)
Passed bias filter:                      502  (0.0279993); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.38
# Mc/sec: 3290.77
//
Query:       PHY93_11200|PHY93_11200  [L=768]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.8e-40  139.2   0.0    3.7e-27   95.5   0.0    3.8  4  PPDK_N         Pyruvate phosphate dikinase, PEP/pyruvate bind
    8.4e-21   73.5   0.0    1.5e-20   72.7   0.0    1.4  1  PEP-utilizers  PEP-utilising enzyme, mobile domain


Domain annotation for each model (and alignments):
>> PPDK_N  Pyruvate phosphate dikinase, PEP/pyruvate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.9   0.0   0.00018       1.7       3      30 ..      27      53 ..      25      55 .. 0.88
   2 !   95.5   0.0   4.1e-31   3.7e-27     101     227 ..      74     198 ..      56     203 .. 0.90
   3 !   31.8   0.0     1e-11     9e-08     269     321 ..     203     254 ..     192     261 .. 0.84
   4 ?   -1.1   0.0       0.1   9.1e+02      81     108 ..     478     505 ..     412     508 .. 0.71

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.00018
                   PPDK_N  3 lvGGKganLaellneagipvPpgfaita 30
                              +GGK++ L+ + ++a+ pvP+g + +a
  PHY93_11200|PHY93_11200 27 FLGGKAYALGLM-SNAHFPVPDGAVLSA 53
                             69**********.66********98775 PP

  == domain 2  score: 95.5 bits;  conditional E-value: 4.1e-31
                   PPDK_N 101 lpvaVRSSataEDlpkasfaGqqdtyLnvggeeevleaikavfaSlfnerAilYrkek.gldheevalavvvqkmvnsdlgasGVa 185
                               ++a+RSSa +ED+ ++sfaGq  t+Ln+++  ++ ++++++f+S++++ + lYr++  + + e+v++ vv q mv++   +sGV 
  PHY93_11200|PHY93_11200  74 PKLAIRSSAQGEDSGDQSFAGQNSTFLNIDDIPSIKKSVEKCFESINKKSSALYREHFlKEKSESVKMNVVLQIMVDPL--YSGVF 157
                              689****************************************************9962445599**************..***** PP

                   PPDK_N 186 fsldpetGfkdevlinasyGlGeaVVaGrvtpdefvvekstr 227
                              fs+dp++  +++++++a  G+Ge+ V+G+ tp +f  +k+++
  PHY93_11200|PHY93_11200 158 FSIDPRSN-EKSWVLEAIEGYGEDLVSGKKTPFHFEENKKQD 198
                              *******9.***********************9999888765 PP

  == domain 3  score: 31.8 bits;  conditional E-value: 1e-11
                   PPDK_N 269 eveeLaeiakkiekhygtpmdiEfaideeegklyllQaRpetrtsekkekkaa 321
                              +++e+ ++++k+ +++g  +d+E+aid +++k+++lQaRp+t  s k++kk+ 
  PHY93_11200|PHY93_11200 203 NINEVVSVGNKVRDYFGFEIDMEWAID-KNNKFFVLQARPITALSGKSSKKKL 254
                              68999**********************.****************998887765 PP

  == domain 4  score: -1.1 bits;  conditional E-value: 0.1
                   PPDK_N  81 leeaikeayeelgkkfgdeelpvaVRSS 108
                              + + ++ +  +++++++ + ++v+ RSS
  PHY93_11200|PHY93_11200 478 MSHGLHTVTMKMNEDYQLACQDVSLRSS 505
                              2333455666677777777899999999 PP

>> PEP-utilizers  PEP-utilising enzyme, mobile domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.7   0.0   1.6e-24   1.5e-20       3      73 .]     695     765 ..     693     765 .. 0.98

  Alignments for each domain:
  == domain 1  score: 72.7 bits;  conditional E-value: 1.6e-24
                              -S-EEEEES---HHHHTTS-GEEEEEES--TTHHHHHHHHHHTT--EEE--SSHH.HH--TEEEEEETTTT CS
            PEP-utilizers   3 eegvILvaeetspsdiagldkaaGivterGGmtSHaAivArelgiPaVvgvgeatielkegdlitvDgstG 73 
                              +e+vILvae+t+p ++  + k +++++e+GG  SH AivAre+++Pa++ +++   +lk+gd i vDg++G
  PHY93_11200|PHY93_11200 695 PENVILVAESTDPGWTGLFLKSKAVIVEKGGVLSHCAIVAREMNLPAISEIKQCHLRLKDGDKIWVDGNNG 765
                              789******************************************************************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (768 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       641  (0.0357521); expected 358.6 (0.02)
Passed bias filter:                      421  (0.0234815); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.61u 0.26s 00:00:00.87 Elapsed: 00:00:00.38
# Mc/sec: 6070.94
//
Query:       PHY93_11205|PHY93_11205  [L=495]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      2e-20   73.4   0.0    6.2e-10   39.1   0.0    3.1  3  PQQ_2     PQQ-like domain
    5.4e-13   49.0   0.0        1.1    9.9   0.0    7.6  8  PQQ_3     PQQ-like domain
    1.5e-12   46.8   0.0       0.41   10.7   0.0    6.5  6  PQQ       PQQ enzyme repeat
  ------ inclusion threshold ------
      0.041   13.9   0.7        2.2    8.4   0.1    3.1  2  DUF5074   Domain of unknown function (DUF5074)
        1.7    9.0   4.5         26    5.2   0.0    4.1  5  Kelch_3   Galactose oxidase, central domain


Domain annotation for each model (and alignments):
>> PQQ_2  PQQ-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.0   0.0   2.3e-07   0.00081      14      97 ..     140     225 ..     139     241 .. 0.84
   2 !   25.7   0.0   2.1e-09   7.5e-06      31     150 ..     194     323 ..     189     329 .. 0.74
   3 !   39.1   0.0   1.7e-13   6.2e-10       6     183 ..     308     489 ..     303     494 .. 0.77

  Alignments for each domain:
  == domain 1  score: 19.0 bits;  conditional E-value: 2.3e-07
                    PQQ_2  14 aelWrvdlarplgggvsravlsggtlfvatgggrlvaldaatGkvlWettlegpvvgaplvaegrvvvvasdg.....qlialdae 94 
                              +e+W+++l  ++g+ +s+   s++ +f +++ +++++ld  +Gk + ++    +v ++p + + ++++  ++      +++ +d +
  PHY93_11205|PHY93_11205 140 KEVWTQKL--KKGSFRSGVI-SNNSIFYGSDDRQVHELDLDSGKNKRNFFIGTQVTTRPIIYNSHLFAGEGNHethhaRIYSFDLK 222
                              589*****..4555554445.*********************************************99983334556799999999 PP

                    PQQ_2  95 dGk 97 
                              +Gk
  PHY93_11205|PHY93_11205 223 TGK 225
                              998 PP

  == domain 2  score: 25.7 bits;  conditional E-value: 2.1e-09
                    PQQ_2  31 ravlsggtlfva.....tgggrlvaldaatGkvlWettlegpvvga....plvaegrvvvvasdgqlialdaedGkrlWstqqrse 107
                              r+   +++lf++     t  +r++++d +tGk    ++ +g + g      +++e  ++  a+++ l+a++ ++ k++W+  ++++
  PHY93_11205|PHY93_11205 194 RPIIYNSHLFAGegnheTHHARIYSFDLKTGKFAGAFQTKGHTEGQplieTFNNETLLFITAGKDGLYAISPNNLKEKWH-MLDGH 278
                              566677888888777667899******************99999996653455555557777777***************.66665 PP

                    PQQ_2 108 epaelrssaspavagdtvvvges........sgklvaldpkdGkvlWerel 150
                               +a+       ++ +++v+ g          +  ++a+d ++Gk++W++el
  PHY93_11205|PHY93_11205 279 LDAT------VSIQDGVVYTGSGrekgnnqdRVYATAYDFSSGKKIWKTEL 323
                              4444......3444555555555333333225566*************998 PP

  == domain 3  score: 39.1 bits;  conditional E-value: 1.7e-13
                    PQQ_2   6 saldaatGaelWrv.....dlarplgggvsravlsggtlfvatgggrlvaldaatGkvlWettlegpvvgaplvaegrv....vvv 82 
                              +a+d  +G+++W++     ++  p+ g+ +  + s g ++  +  g l++ld+++G   +++ +e+p+ g+pl+   +     +v 
  PHY93_11205|PHY93_11205 308 TAYDFSSGKKIWKTelplsNWMHPIIGIKDVCY-SLGEIYFPSQVGLLYCLDKKSGLADFSVPFEAPLIGKPLIIKSEEkelaIVS 392
                              789999********5555544334555554455.99999999*****************************987555544567999 PP

                    PQQ_2  83 asdgqlialdaedGkrlWstqqrseepae.lrssaspavagdtvvvgessgklvaldpkdGkvlWerel.aaprgtselsrvgdis 166
                              + +g+++a++ ++ ++ W   ++++e+++ + ssa+    ++ +  +  +++l a+d+k+G v  +  l ++ +    +   + ++
  PHY93_11205|PHY93_11205 393 SLKGEICAVNLKTRNKEWC-NKTGTEKTShAFSSADYDSKKNLLWYASLDNGLFAFDLKTGAVKTH-WLpTKST----YNAWNETD 472
                              9******************.66666555537777777766677666666**************333.2323333....34579999 PP

                    PQQ_2 167 grpvvaegtVyassgqg 183
                              ++++++++++y++  +g
  PHY93_11205|PHY93_11205 473 ASVTIKDDSLYIADIEG 489
                              99999999999987776 PP

>> PQQ_3  PQQ-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.2   0.0     0.001       3.6       2      39 ..     140     177 ..     140     178 .. 0.91
   2 !    5.3   0.0    0.0081        29      10      40 .]     188     223 ..     184     223 .. 0.91
   3 ?    2.1   0.0     0.082   2.9e+02      21      39 ..     248     266 ..     229     267 .. 0.71
   4 !    8.0   0.0    0.0012       4.2      11      35 ..     277     307 ..     269     308 .. 0.79
   5 !    9.9   0.0    0.0003       1.1       1      39 [.     315     360 ..     315     361 .. 0.89
   6 ?   -2.6   0.0       2.6   9.2e+03      25      40 .]     390     405 ..     387     405 .. 0.77
   7 ?    3.3   0.0     0.034   1.2e+02      22      40 .]     433     451 ..     410     451 .. 0.83
   8 ?    1.1   0.0      0.17     6e+02      14      36 ..     472     494 ..     464     495 .] 0.81

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.001
                    PQQ_3   2 evlWsvqlpgpvnsspavdgglvyvgtgdGtlyAlDae 39 
                              +++W+++l     +s +++++ ++ g++d  ++ lD +
  PHY93_11205|PHY93_11205 140 KEVWTQKLKKGSFRSGVISNNSIFYGSDDRQVHELDLD 177
                              689*****998889****************99988876 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.0081
                    PQQ_3  10 pgpvnsspavdgglvyvgtg.....dGtlyAlDaet 40 
                              + +v++ p +++ ++++g g       ++y++D +t
  PHY93_11205|PHY93_11205 188 GTQVTTRPIIYNSHLFAGEGnhethHARIYSFDLKT 223
                              6689999**************************987 PP

  == domain 3  score: 2.1 bits;  conditional E-value: 0.082
                    PQQ_3  21 gglvyvgtgdGtlyAlDae 39 
                              + l+++++g  +lyA+ ++
  PHY93_11205|PHY93_11205 248 ETLLFITAGKDGLYAISPN 266
                              4589***********9875 PP

  == domain 4  score: 8.0 bits;  conditional E-value: 0.0012
                    PQQ_3  11 gpvnsspavdgglvyvgtg......dGtlyA 35 
                              g + +++ + +g+vy+g+g      + ++yA
  PHY93_11205|PHY93_11205 277 GHLDATVSIQDGVVYTGSGrekgnnQDRVYA 307
                              4566789999*********998888888887 PP

  == domain 5  score: 9.9 bits;  conditional E-value: 0.0003
                    PQQ_3   1 GevlWsvqlpgpvnssp.......avdgglvyvgtgdGtlyAlDae 39 
                              G+ +W+++lp   +  p        ++ g +y+ +  G ly+lD +
  PHY93_11205|PHY93_11205 315 GKKIWKTELPLSNWMHPiigikdvCYSLGEIYFPSQVGLLYCLDKK 360
                              899******999998898888887778899**************86 PP

  == domain 6  score: -2.6 bits;  conditional E-value: 2.6
                    PQQ_3  25 yvgtgdGtlyAlDaet 40 
                               v++  G ++A++ +t
  PHY93_11205|PHY93_11205 390 IVSSLKGEICAVNLKT 405
                              56666899****9887 PP

  == domain 7  score: 3.3 bits;  conditional E-value: 0.034
                    PQQ_3  22 glvyvgtgdGtlyAlDaet 40 
                              +l+  ++ d++l+A+D +t
  PHY93_11205|PHY93_11205 433 NLLWYASLDNGLFAFDLKT 451
                              68999999********988 PP

  == domain 8  score: 1.1 bits;  conditional E-value: 0.17
                    PQQ_3  14 nsspavdgglvyvgtgdGtlyAl 36 
                               +s+++ ++ +y+++  G ++ l
  PHY93_11205|PHY93_11205 472 DASVTIKDDSLYIADIEGVIRKL 494
                              57899*********988877765 PP

>> PQQ  PQQ enzyme repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.1   0.0   0.00075       2.7       1      22 [.     160     181 ..     160     182 .. 0.92
   2 !    8.4   0.0   0.00061       2.2      10      37 ..     214     241 ..     209     242 .. 0.89
   3 !    8.3   0.0   0.00064       2.3      13      29 ..     308     324 ..     304     333 .. 0.83
   4 ?   -1.1   0.0      0.59   2.1e+03       3      20 ..     345     362 ..     343     362 .. 0.78
   5 ?    1.9   0.0     0.068   2.4e+02       6      19 ..     392     405 ..     388     410 .. 0.78
   6 !   10.7   0.0   0.00011      0.41       6      24 ..     438     456 ..     434     457 .. 0.89

  Alignments for each domain:
  == domain 1  score: 8.1 bits;  conditional E-value: 0.00075
                              TEEEEEETTSEEEEEETTTCCE CS
                      PQQ   1 gvvylgsadGylyAlDadTGkv 22 
                              + +++gs+d ++  lD+d+Gk 
  PHY93_11205|PHY93_11205 160 NSIFYGSDDRQVHELDLDSGKN 181
                              679*****************96 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.00061
                              SEEEEEETTTCCEEEEEESSSCGSSESE CS
                      PQQ  10 GylyAlDadTGkvlWrfktggpvlslpi 37 
                               ++y +D++TGk    f+t+g+  ++p+
  PHY93_11205|PHY93_11205 214 ARIYSFDLKTGKFAGAFQTKGHTEGQPL 241
                              58*******************9999885 PP

  == domain 3  score: 8.3 bits;  conditional E-value: 0.00064
                              EEEETTTCCEEEEEESS CS
                      PQQ  13 yAlDadTGkvlWrfktg 29 
                               A+D ++Gk++W+++++
  PHY93_11205|PHY93_11205 308 TAYDFSSGKKIWKTELP 324
                              79***********9987 PP

  == domain 4  score: -1.1 bits;  conditional E-value: 0.59
                              EEEEETTSEEEEEETTTC CS
                      PQQ   3 vylgsadGylyAlDadTG 20 
                              +y +s  G ly lD ++G
  PHY93_11205|PHY93_11205 345 IYFPSQVGLLYCLDKKSG 362
                              5666666889****9998 PP

  == domain 5  score: 1.9 bits;  conditional E-value: 0.068
                              EETTSEEEEEETTT CS
                      PQQ   6 gsadGylyAlDadT 19 
                               s  G ++A++++T
  PHY93_11205|PHY93_11205 392 SSLKGEICAVNLKT 405
                              4889*********9 PP

  == domain 6  score: 10.7 bits;  conditional E-value: 0.00011
                              EETTSEEEEEETTTCCEEE CS
                      PQQ   6 gsadGylyAlDadTGkvlW 24 
                              +s d+ l+A+D++TG v+ 
  PHY93_11205|PHY93_11205 438 ASLDNGLFAFDLKTGAVKT 456
                              5789************986 PP

>> DUF5074  Domain of unknown function (DUF5074)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.0     0.052   1.8e+02      56      94 ..     200     238 ..     189     250 .. 0.84
   2 ?    8.4   0.1   0.00061       2.2       9      62 ..     435     486 ..     429     492 .. 0.83

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.052
                  DUF5074  56 naLYfiggsswfsgkkiykydidtetlseelitlpeeeg 94 
                               +L+  +g++    + iy +d +t++++  + t  + eg
  PHY93_11205|PHY93_11205 200 SHLFAGEGNHETHHARIYSFDLKTGKFAGAFQTKGHTEG 238
                              5778888888899999***********999999887775 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.00061
                  DUF5074   9 vWaa.sgtkLvkinpktlevktvelpelsiesswyawtptslcasttenaLYfig 62 
                              +W a  ++ L +++ kt  vkt  lp    +s+  aw++t    + +++ LY+++
  PHY93_11205|PHY93_11205 435 LWYAsLDNGLFAFDLKTGAVKTHWLPT---KSTYNAWNETDASVTIKDDSLYIAD 486
                              565537888999*****99**999999...677779999999999*******986 PP

>> Kelch_3  Galactose oxidase, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0       1.7   6.2e+03      20      30 ..     119     129 ..     114     152 .. 0.63
   2 ?   -2.1   0.0       1.4   5.1e+03      19      29 ..     169     179 ..     164     184 .. 0.83
   3 ?    5.2   0.0    0.0073        26       6      32 ..     202     227 ..     202     240 .. 0.85
   4 ?    1.8   0.1     0.089   3.2e+02       5      32 ..     289     320 ..     287     331 .. 0.62
   5 ?   -0.6   0.1      0.49   1.8e+03      18      34 ..     441     457 ..     438     476 .. 0.74

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 1.7
                  Kelch_3  20 dvyvydldtnt 30 
                               +++yd+ ++t
  PHY93_11205|PHY93_11205 119 RTHSYDVTNTT 129
                              56777775432 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 1.4
                  Kelch_3  19 ndvyvydldtn 29 
                               +v+++dld++
  PHY93_11205|PHY93_11205 169 RQVHELDLDSG 179
                              5799****987 PP

  == domain 3  score: 5.2 bits;  conditional E-value: 0.0073
                  Kelch_3   6 ifGGlgddgqdrlndvyvydldtntWa 32 
                              +f G+g ++++++   y++dl t+++a
  PHY93_11205|PHY93_11205 202 LFAGEG-NHETHHARIYSFDLKTGKFA 227
                              688999.99**************9887 PP

  == domain 4  score: 1.8 bits;  conditional E-value: 0.089
                  Kelch_3   5 yifGGlgddgqdrlndvy..vydldtn..tWa 32 
                              ++++G g+  +++   vy  +yd++++   W+
  PHY93_11205|PHY93_11205 289 VVYTGSGREKGNNQDRVYatAYDFSSGkkIWK 320
                              7999***8444444555544445544433777 PP

  == domain 5  score: -0.6 bits;  conditional E-value: 0.49
                  Kelch_3  18 lndvyvydldtntWaei 34 
                              +n ++++dl t+ +++ 
  PHY93_11205|PHY93_11205 441 DNGLFAFDLKTGAVKTH 457
                              68999****99966644 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (495 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       551  (0.0307323); expected 358.6 (0.02)
Passed bias filter:                      406  (0.0226449); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.37
# Mc/sec: 3984.58
//
Query:       PHY93_11210|PHY93_11210  [L=857]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.5e-93  314.4   0.1    2.4e-93  313.7   0.1    1.3  1  Erythro_esteras  Erythromycin esterase
    2.7e-28   98.5   0.0    5.6e-28   97.5   0.0    1.5  1  Pribosyltran     Phosphoribosyl transferase domain
    1.4e-07   31.2   0.1    2.7e-07   30.2   0.1    1.4  1  UPRTase          Uracil phosphoribosyltransferase
    0.00017   21.0   0.0     0.0067   15.7   0.0    2.5  2  Hydrolase_4      Serine aminopeptidase, S33
    0.00025   20.8   0.0      0.023   14.3   0.0    2.4  2  Abhydrolase_1    alpha/beta hydrolase fold
     0.0024   18.5   1.5      0.057   14.0   1.5    2.3  1  Abhydrolase_6    Alpha/beta hydrolase family
     0.0066   16.0   0.0      0.013   15.0   0.0    1.4  1  PRTase_2         Phosphoribosyl transferase
  ------ inclusion threshold ------
      0.017   14.7   0.0      0.063   12.8   0.0    1.8  2  DLH              Dienelactone hydrolase family
      0.078   12.4   0.2        1.2    8.6   0.0    2.5  3  Peptidase_S9     Prolyl oligopeptidase family


Domain annotation for each model (and alignments):
>> Erythro_esteras  Erythromycin esterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  313.7   0.1   1.2e-96   2.4e-93       1     344 []     489     836 ..     489     836 .. 0.91

  Alignments for each domain:
  == domain 1  score: 313.7 bits;  conditional E-value: 1.2e-96
                              HHHC---EEEEEEEHHHHHHHHHHHHHS-.S-GGGT.........S-CCC-CHHHHHHHHHHHHHHHSTT-SS--EEEEEE-S--- CS
          Erythro_esteras   1 veehGfrtvalEadwpdalrvdryvrggt.gdaeea......krfptwmWrneevlelveWlReyNagrpkkervrfyGlDlqslr 79 
                              +++ G+++va+E+dwpd++++++y+ +   +da+        +r+ptwmW+nee+ +l++W+++ N+        +fyGlD++sl 
  PHY93_11210|PHY93_11210 489 IQNYGYSFVAVEGDWPDCYKLNEYINDPVsQDAK-KvvhdqfHRWPTWMWANEEIPPLINWMKK-NQ------LGKFYGLDVYSLF 566
                              7899*********************655544444.35999************************.62......347********** PP

                              HHHHHHHHHHHHCHCCCCHHHHHHHCCHGGCS.......TSSCCCCCHHHHHHHHHHHHCCHGGG.....GG.TSHHHHHHHHHHH CS
          Erythro_esteras  80 esldavldyLakvdpelagaareryaclapla.dpraarsaeaaelrscedevvallkellakreeyaaedg.eaeeffsaeqnar 163
                              +sl+++ ++L+ +dp la+++ + y+c++ ++ d+ a+++   +    c +evv +l++ll+ r    +e++  +e+ f+a+qnar
  PHY93_11210|PHY93_11210 567 DSLEEIEKHLDHIDPSLAEKMLNGYKCFESYKfDEIAYAKSLLKMPAGCLEEVVSNLRALLRVRL---QETSlTKEALFDAKQNAR 649
                              *******************************877755555556799*************999998...44556789********** PP

                              HHHHHHHHC.....CSSSSSCHHHHHHHHHHHHHHHHHHHH...HHSSEEEEEEHHHHSSS-STTTT-S...S-HHHHHHHHHGGG CS
          Erythro_esteras 164 lvknaeryyra...gdeeswnlrllalRDrhMaenleallehe.argkivvwAHNsHigdaratdmgkerg.lnaGqllrerlgde 244
                              +++nae+yyr+   g +eswn      RD hM+++le ll+ + +++k++vwAHN+Higd  atdm  + g ln+G l+rer+g e
  PHY93_11210|PHY93_11210 650 VIANAEKYYRSmltGGAESWNV-----RDLHMMDTLENLLHLHgPDSKAIVWAHNTHIGDYHATDMVDN-GyLNLGGLARERFGIE 729
                              **********************.....**************99*99*********************76.45************99 PP

                              .EEEEEEEEEEEEEEEC-.......EEEE----TTSHHHHHHCSS....-SEEEEEG-.CHHHHHHEE............EEE--- CS
          Erythro_esteras 245 .yvaiGftfgtgtvaaasewgepmevmtvrppppgslEallhaag....ppdflldlrneelrewleeprleraiGv..rpeterq 323
                               ++++G+++++g+v+a s+wg+p ++m+++++++gs+E+++h+a+     ++fl  + + + ++ l +++++ra+Gv  +p++e++
  PHY93_11210|PHY93_11210 730 nVFLLGLSTYQGEVTAGSAWGGPEKKMNLPKAHAGSYEDYFHQAAlnmkTNQFLTTFDKLDKNSSLYRKLGHRAVGVvyDPAHESR 815
                              9******************************************88666577777777556677888999***************** PP

                              SB-BTTSHHHH-SEEEEEEEE CS
          Erythro_esteras 324 shyveaslaeqfDalifvdet 344
                              ++yv++++a+++D+lifvd+t
  PHY93_11210|PHY93_11210 816 GNYVPTQMAKRYDGLIFVDQT 836
                              *******************97 PP

>> Pribosyltran  Phosphoribosyl transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   97.5   0.0   2.8e-31   5.6e-28       7     155 ..       6     193 ..       2     197 .. 0.95

  Alignments for each domain:
  == domain 1  score: 97.5 bits;  conditional E-value: 2.8e-31
                              T---EEEEEEETTEEEEEE--GGGEEEEEEETTTHHHHHHHHHHSTT-EE-EEEEEE-TTT--EE..................... CS
             Pribosyltran   7 enpaildavarlaaeileeyngkpdvvvgiargGvpfakiladeLevplayvrkvkyrpdgseeaargssdes............. 79 
                              en++    + +l+ae+l +y+  ++v+++ +rgGvp+a+++a +L +pl++v ++k  ++g ee+a+g+++e              
  PHY93_11210|PHY93_11210   6 ENRE---QAGKLLAEKLLQYQKLEPVILALPRGGVPIAYEIATKLRAPLDVVFVKKIGAPGHEEFAIGAVAEDekpilnhklikqy 88 
                              5566...8999*************************************************************************** PP

                              ............................EE----TTSEEEEE-SEESSSHHHHHHHHHHHCC-BSEEEEEEEEE-HHHHHHHHHH- CS
             Pribosyltran  80 ............................rlledpagkkVliVDDildtGgTllaalelLkekgpeevriavlvdkpateeevdkna 137
                                                           ++ +++g++V++VDD+l+tG T+ aa+e+L+ ++  ++++av+v  ++ + e +k +
  PHY93_11210|PHY93_11210  89 qfnpdeiesiivnriseirersknyrkkLPPVSLEGRTVIVVDDGLATGATMMAAIEWLHTQKTNKIIVAVPVSSKEAAYEIKKTV 174
                              ***************************99999****************************************************** PP

                              TTS......EEEEEEE-SE CS
             Pribosyltran 138 krvfsls.pdnfvavvgfe 155
                              + ++s+  p+nf av   +
  PHY93_11210|PHY93_11210 175 DIFLSILtPENFMAVGMWY 193
                              ***********99886655 PP

>> UPRTase  Uracil phosphoribosyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.2   0.1   1.4e-10   2.7e-07     105     172 ..     107     173 ..      88     184 .. 0.83

  Alignments for each domain:
  == domain 1  score: 30.2 bits;  conditional E-value: 1.4e-10
                  UPRTase 105 tlepveyynkLPkki.aertvlllDpviaTGgsaaaaiqlLkergvgeekIlvlsvlaseegvkrlaee 172
                                +++ y +kLP    + rtv+++D  +aTG++++aai+ L     +++kI+v+  ++s+e++ ++ ++
  PHY93_11210|PHY93_11210 107 RERSKNYRKKLPPVSlEGRTVIVVDDGLATGATMMAAIEWLHT--QKTNKIIVAVPVSSKEAAYEIKKT 173
                              345678999**99888***************************..6678***********998887765 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   3.4e-06    0.0067       2      99 ..     240     338 ..     239     347 .. 0.89
   2 ?    2.6   0.0     0.035        70     185     232 ..     354     398 ..     349     402 .. 0.71

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 3.4e-06
              Hydrolase_4   2 epkavvvlvHGlaehsgryae..laeaLaaqGfavyalDhrGhGrsegkrghvpsfddyvdDlaafvekvkeehpelplfllGhSm 85 
                              + +++++++HG +++ +   +  +a+aL+++Gf ++ +D     +    r  v ++d +++ l  +++ +k++ p+lp+  +G S+
  PHY93_11210|PHY93_11210 240 KSRGLILFAHGGGSSHKSPRNlfVAKALNDAGFGTLLFDLLTVAEA-LDRKNVFDIDLMTKRLLVATDWAKRNCPDLPIGYFGAST 324
                              6799********998776666559*****************99999.88889********************************** PP

              Hydrolase_4  86 GGliallyllrypd 99 
                              G++ al +++++ d
  PHY93_11210|PHY93_11210 325 GAAAALGAAEDRLD 338
                              ******99988766 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.035
              Hydrolase_4 185 eraakitlPllllhGeaDkvvdpeasrelyerlgskdktlklypglyH 232
                              e  +k+ +P+lll G++D+ v p ++  + ++l  k++++ l+p + H
  PHY93_11210|PHY93_11210 354 EALPKVYAPTLLLVGAEDHPVIPLNQ-LAKDKL--KNCQMVLIPRAGH 398
                              6678899***********98887665.222333..3666677766666 PP

>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.3   0.0   1.2e-05     0.023       2      41 ..     244     283 ..     243     335 .. 0.85
   2 ?    3.9   0.0     0.018        36     207     251 ..     356     399 ..     326     402 .. 0.78

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.2e-05
                              EEEEE-STTTCGGGGTTGHHHHHHHHTTSEEEEEEETTST CS
            Abhydrolase_1   2 vlvilhGlpgssdvwaerglapaLakdgfdvillDlrGvg 41 
                              ++++ hG++ s+ +++++++a+aL+++gf ++l+Dl+ v+
  PHY93_11210|PHY93_11210 244 LILFAHGGGSSHKSPRNLFVAKALNDAGFGTLLFDLLTVA 283
                              79*********************************98766 PP

  == domain 2  score: 3.9 bits;  conditional E-value: 0.018
                              THHHHSEEEEEEETTCSSSCHHHHHHHHHCHTSEEEEEEETCSSS CS
            Abhydrolase_1 207 lknvlaptlvisgtsDplvppkaledlaqllpkkrlvvisdagHl 251
                              l +v aptl++ g++D+ v p ++   ++l +  + v i+ agHl
  PHY93_11210|PHY93_11210 356 LPKVYAPTLLLVGAEDHPVIPLNQLAKDKLKNC-QMVLIPRAGHL 399
                              446777**********99999555555667788.**********7 PP

>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.0   1.5   2.9e-05     0.057     111     211 ..     294     402 ..     239     412 .. 0.54

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 2.9e-05
                              THHHHHHTT-CCCCHCCH..S-HSCCCCHHHCCCCHCHCCCGHHHHCC........HHCHTTCCHHTT-TTGCEEE.C.TT-CHHH CS
            Abhydrolase_6 111 lllallallrllawlsre..plprlfladedadaawrarlarlaalla........glgllpaaawadlpvpllvl.g.geDplvp 184
                              + l   +ll++  w +r+  +lp ++++   a +  +a+l ++ + l+        g+  l+++a++ + +p+l+l g ++ p++p
  PHY93_11210|PHY93_11210 294 IDLMTKRLLVATDWAKRNcpDLPIGYFG---ASTGAAAALGAAEDRLDifavvsrgGRPDLALEALPKVYAPTLLLvGaEDHPVIP 376
                              2223333455567777767655558888...3333333333333333322233222222335779999999997666526666888 PP

                              HCHHCCCH..STTEEETCE...SSS-HHH CS
            Abhydrolase_6 185 rllerlla..qagarlpvvlpgaGHlphl 211
                                l +l+   +  +++ v++p+aGHl+ +
  PHY93_11210|PHY93_11210 377 --LNQLAKdkLKNCQM-VLIPRAGHLFEE 402
                              ..88888888899***.********8765 PP

>> PRTase_2  Phosphoribosyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   6.5e-06     0.013     120     156 ..     123     159 ..     111     176 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 6.5e-06
                 PRTase_2 120 aakelvLvDDEistGktalnliralqeklprkryvvv 156
                              + +++++vDD ++tG t+++ i+ l+++ ++k +v v
  PHY93_11210|PHY93_11210 123 EGRTVIVVDDGLATGATMMAAIEWLHTQKTNKIIVAV 159
                              5689***********************9998877765 PP

>> DLH  Dienelactone hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   3.2e-05     0.063      98     192 ..     315     403 ..     281     419 .. 0.78
   2 ?   -1.0   0.0      0.52     1e+03     120     188 ..     408     473 ..     400     503 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 3.2e-05
                      DLH  98 kkvgvvGfCmGGalalllaaevpevdaavafYGlspekeleeaakikapilalfgeeDefipadevekleealkaanvdlelkvYp 183
                                +g  G   G+a al  a     + a+v+  G +p+  le+ +k+ ap l l+g eD+++        ++  k++ +++++++ p
  PHY93_11210|PHY93_11210 315 LPIGYFGASTGAAAALGAAEDRLDIFAVVSRGG-RPDLALEALPKVYAPTLLLVGAEDHPVIPL-----NQLAKDKLKNCQMVLIP 394
                              567888888898888888887756778888777.*************************98765.....3444455699999999* PP

                      DLH 184 gagHaFand 192
                               agH F ++
  PHY93_11210|PHY93_11210 395 RAGHLFEEA 403
                              ****99876 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.52
                      DLH 120 pevdaavafYGlspekeleeaakikapilalfgeeDefipadevekleealkaanvdlelkvYpgagHa 188
                              + v+ av ++ +  + +le+   ik  i+  +  e +++p++++++l++ lk+   + ++ +  +a+H+
  PHY93_11210|PHY93_11210 408 QVVEYAVTWFSNCISLHLEKNIPIKENIIDEI--EENSVPFSNANDLDSWLKKIS-KNRIIMLGEATHG 473
                              46788999999999999999999999988777..556888888899999995554.4566666778887 PP

>> Peptidase_S9  Prolyl oligopeptidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   0.0      0.16   3.1e+02      66      92 ..     317     343 ..     302     346 .. 0.91
   2 ?    8.6   0.0    0.0006       1.2     142     210 ..     359     422 ..     350     424 .. 0.83
   3 ?   -3.7   0.1       3.4   6.7e+03     124     186 ..     638     701 ..     630     708 .. 0.65

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.16
                              EEEEEETHHHHHHHHHHHH-GGG-SEE CS
             Peptidase_S9  66 laitGgSyGGyltgaalnqrpdlFkaa 92 
                              ++ +G+S G   ++ a+++r d+F+++
  PHY93_11210|PHY93_11210 317 IGYFGASTGAAAALGAAEDRLDIFAVV 343
                              6889********************986 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0006
                              ---EEEEEEETT-SSS-THHHHHHHHHHH.--S-SEEEEEETTS-SSTTSSHHHHHHHHHHHHHHHHHCT CS
             Peptidase_S9 142 aypplLlihGlaDdrvppaealklvaaLq.kkgknvlllifpdegHgvgkprakveelarllaFlkealg 210
                              +y+p+Ll++G +D  v p +       L  +k kn +++  p +gH + +  +  + ++  + ++ +++ 
  PHY93_11210|PHY93_11210 359 VYAPTLLLVGAEDHPVIPLNQ------LAkDKLKNCQMVLIPRAGHLFEEAGTLEQVVEYAVTWFSNCIS 422
                              89***********99977554......44266677**************999999**********99985 PP

  == domain 3  score: -3.7 bits;  conditional E-value: 3.4
                              CHHHHHHHHHH-CGGG-----EEEEEEETT-SSS-THHHHHHHHHHH.--S-SEEEEEETTS-S CS
             Peptidase_S9 124 neegykelspyspldnvkaypplLlihGlaDdrvppaealklvaaLq.kkgknvlllifpdegH 186
                              +e+ +++ ++++  +n ++y + +l+ G +  +v   + +  +++L   +g +++  +     H
  PHY93_11210|PHY93_11210 638 KEALFDAKQNARVIANAEKYYRSMLTGGAESWNVRDLHMMDTLENLLhLHGPDSKAIVWAHNTH 701
                              6667777778888888888888888888877777666665555555434444466666666666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (857 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       694  (0.0387082); expected 358.6 (0.02)
Passed bias filter:                      630  (0.0351386); expected 358.6 (0.02)
Passed Vit filter:                        57  (0.00317921); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.77u 0.24s 00:00:01.01 Elapsed: 00:00:00.41
# Mc/sec: 6322.54
//
Query:       PHY93_11215|PHY93_11215  [L=482]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.2e-54  183.7   3.7    2.2e-54  183.7   3.7    2.1  2  E1-E2_ATPase     E1-E2 ATPase
    1.7e-17   62.9   0.1    3.1e-17   62.0   0.1    1.5  1  Cation_ATPase_N  Cation transporter/ATPase, N-terminus
    3.7e-15   55.8   0.0    7.6e-15   54.8   0.0    1.5  1  Cation_ATPase    Cation transport ATPase (P-type)
     0.0077   16.0   0.8      0.018   14.8   0.8    1.5  1  Claudin_2        PMP-22/EMP/MP20/Claudin tight junction


Domain annotation for each model (and alignments):
>> E1-E2_ATPase  E1-E2 ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.2     0.055   2.5e+02     109     155 ..      56      98 ..      44     102 .. 0.61
   2 !  183.7   3.7   4.9e-58   2.2e-54       2     181 .]     120     314 ..     119     314 .. 0.99

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 0.055
                              -HHHHHHHHHHHHHHHHHHHHHHHHHHS-STTTSSTTHHHHHHHHHH CS
             E1-E2_ATPase 109 tplqkkldklgkvlvpvvlliallvflialllgkslaeallralall 155
                              ++    l+ +++++  + +l+++ ++lia +lg+++ +  + a+++l
  PHY93_11215|PHY93_11215  56 SS----LQIFFSQFKDLLILVLIGAALIASFLGEPHDTVAIIAIVIL 98 
                              44....45555555556666666666666666677665555566555 PP

  == domain 2  score: 183.7 bits;  conditional E-value: 4.9e-58
                              SS--EEEEE-TTS-EEEEGGG--TTSEEEEETT-B--SEEEEEEE-S.EEE-TTTS---S-EE-..............G-TTEE-T CS
             E1-E2_ATPase   2 llpptakvirdgteeeidakelvpGDivllkagdrvpaDgrivegsa.evdesaLTGEslpvek..............ekgdmvfs 72 
                              l +p akv r+g++   ++ +lv+GDivll+ag+++paD r +e  +  +desaLTGEs p+ek              ++++m+f 
  PHY93_11215|PHY93_11215 120 LASPNAKVKRNGQIIITPSTDLVIGDIVLLEAGNIIPADLRMLETFQiYIDESALTGESQPIEKishaimtdlhlpiaDQKNMAFK 205
                              78899********************************************************************************* PP

                              T-EEEE-EEEEEEEE-TTTSTTTTTSTTS--------HHHHHHHHHHHHHHHHHHHHHHHHHHS-STTTSSTTHHHHHHHHHHHHH CS
             E1-E2_ATPase  73 GtvvvsgeakavVtatgedtelgkiarlveeakskktplqkkldklgkvlvpvvlliallvflialllgkslaeallralallvaa 158
                              Gt+v+ g+a+avV+ +g+ telgkia l++++++ ktplq+ +  ++k+l+++vl++++++f++ l++g++++ +++ al+l+va 
  PHY93_11215|PHY93_11215 206 GTQVTGGRATAVVVSIGMATELGKIAGLMKNEEEVKTPLQNRIAHFAKILSLIVLALCFIIFIVGLIRGEEVVLMFMTALSLAVAG 291
                              ************************************************************************************** PP

                              S-TTHHHHHHHHHHHHHHHHHHT CS
             E1-E2_ATPase 159 iPcaLplavplalalgarrlakk 181
                              iP+aLp++v+++l+lg r ++kk
  PHY93_11215|PHY93_11215 292 IPEALPAVVTISLSLGSRVMSKK 314
                              ********************997 PP

>> Cation_ATPase_N  Cation transporter/ATPase, N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.0   0.1     7e-21   3.1e-17       3      69 .]      14      80 ..      12      80 .. 0.96

  Alignments for each domain:
  == domain 1  score: 62.0 bits;  conditional E-value: 7e-21
          Cation_ATPase_N  3 alsleevlekLetdlenGLtqaeaaerlkkyGpNelkekkkkslwvkllkqftnplvilLlvaalvs 69
                             ++s  ev+e  +t+l++GL+++e+ +r+++ GpN++++ k+ks ++++++qf+++l+++L+ aal++
  PHY93_11215|PHY93_11215 14 QQSETEVIETQKTSLSEGLSDQEVMKRQAELGPNKIDDVKRKSSLQIFFSQFKDLLILVLIGAALIA 80
                             788999**********************************************************995 PP

>> Cation_ATPase  Cation transport ATPase (P-type)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.8   0.0   1.7e-18   7.6e-15      14      89 ..     387     460 ..     375     462 .. 0.92

  Alignments for each domain:
  == domain 1  score: 54.8 bits;  conditional E-value: 1.7e-18
            Cation_ATPase  14 kdevkllGnktEsALlvlaeklgldteelreetkkvqeipFnssrKrmsvvlklepekkvrlyvKGApeiilkrCt 89 
                               d+ +llG++tE+AL+ la ++gl++++l++  ++++e+pF+s+r +ms+++++   k+ +++ K Ape il+ C+
  PHY93_11215|PHY93_11215 387 GDKGQLLGDPTEIALISLALEQGLEIKSLQKFLPRLAELPFSSERAMMSTIHST--GKGSIIFSKDAPEKILSLCK 460
                              67889************************************************6..6******************7 PP

>> Claudin_2  PMP-22/EMP/MP20/Claudin tight junction
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.8     4e-06     0.018      90     146 ..     247     304 ..     232     320 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 4e-06
                Claudin_2  90 rfvqvlliLslvlivlavvlgllallkqsvlllkaagilfl.lagvlgllavvvfies 146
                              r + ++ iLsl+++ l +++++++l++++ ++l+++  l l +ag++ +l+ vv+i+ 
  PHY93_11215|PHY93_11215 247 RIAHFAKILSLIVLALCFIIFIVGLIRGEEVVLMFMTALSLaVAGIPEALPAVVTISL 304
                              4455667***********************8888776666659*******99999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (482 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       843  (0.0470188); expected 358.6 (0.02)
Passed bias filter:                      571  (0.0318478); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.71u 0.33s 00:00:01.04 Elapsed: 00:00:00.61
# Mc/sec: 2375.24
//
Query:       PHY93_16875|PHY93_16875  [L=383]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.4e-05   24.4   0.5    2.4e-05   24.4   0.5    2.1  2  ANAPC3    Anaphase-promoting complex, cyclosome, subunit 3
      0.003   17.5   4.1       0.56   10.5   1.4    3.0  3  TPR_2     Tetratricopeptide repeat
     0.0042   16.9   2.4       0.71    9.8   2.1    2.8  2  TPR_1     Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.012   16.4   0.0       0.18   12.7   0.0    2.5  2  TPR_14    Tetratricopeptide repeat
      0.066   13.5   2.6        1.5    9.2   1.2    3.0  2  TPR_8     Tetratricopeptide repeat
       0.18   12.1   4.0         17    6.0   0.3    3.5  3  PPR       PPR repeat


Domain annotation for each model (and alignments):
>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.1       1.9   5.7e+03      20      49 ..      44      73 ..      37      76 .. 0.75
   2 !   24.4   0.5   8.2e-09   2.4e-05      10      76 ..     285     359 ..     279     365 .. 0.73

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 1.9
                             H--HHHHHHHHHHHHHTT-HHHHHHHHHCT CS
                   ANAPC3 20 tespedayllAlclylngqykrAyellrka 49
                             +e p + +l  ++ +++g+   A  +++k+
  PHY93_16875|PHY93_16875 44 HEAPRSYMLMWKVAFRSGKLSLANSYAKKF 73
                             555666666678999999998888888876 PP

  == domain 2  score: 24.4 bits;  conditional E-value: 8.2e-09
                              HHHHHHH...HHH--HHHHHHH.HHHHHHTT-HHHHHHHHHCT.SHHHC-H....HHHHHHHHHHHHTT-HHHHH CS
                   ANAPC3  10 flaerlla..aetespedayll.AlclylngqykrAyellrka.klnsksl....gcrylfAqcllkLkkyeeAi 76 
                               l+++++   ++++   ++y+  A++l +ng++++ ++l+++  ++++ +     + +yl+A+++lkLkk++ A 
  PHY93_16875|PHY93_16875 285 TLCDKMVGilTDAKERASTYYVwAQALSNNGDFYKSIDLIDDViRKEPLTCaerlAFLYLKAEACLKLKKIKMAK 359
                              67888884444444444444434***************999985444333256669**************98775 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.1       2.2   6.4e+03      11      28 ..      57      74 ..      55      76 .. 0.66
   2 !    6.3   0.0    0.0039        12       2      32 ..     302     332 ..     301     333 .. 0.90
   3 !   10.5   1.4   0.00019      0.56       3      33 ..     341     371 ..     340     372 .. 0.93

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 2.2
                    TPR_2 11 yyklgdyeeAleafekAl 28
                             ++++g++  A  + +k l
  PHY93_16875|PHY93_16875 57 AFRSGKLSLANSYAKKFL 74
                             567777777777777665 PP

  == domain 2  score: 6.3 bits;  conditional E-value: 0.0039
                    TPR_2   2 ealynlGlayyklgdyeeAleafekAleldP 32 
                                +y +++a+ ++gd+ + +++ + +++ +P
  PHY93_16875|PHY93_16875 302 STYYVWAQALSNNGDFYKSIDLIDDVIRKEP 332
                              5799*****************9999988877 PP

  == domain 3  score: 10.5 bits;  conditional E-value: 0.00019
                    TPR_2   3 alynlGlayyklgdyeeAleafekAleldPn 33 
                               ly  ++a++kl++ + A+e++ +  + +P+
  PHY93_16875|PHY93_16875 341 FLYLKAEACLKLKKIKMAKELYLEIKRQNPH 371
                              589**********************999997 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.4   0.0     0.012        36       1      26 [.     301     326 ..     301     332 .. 0.82
   2 !    9.8   2.1   0.00024      0.71       4      34 .]     342     372 ..     340     372 .. 0.94

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.012
                              HHHHHHHHHHHHHTT-HHHHHHHHHH CS
                    TPR_1   1 akalynlGnayfklgkydeAleyyek 26 
                              a ++y  ++a+ ++g++ + ++  + 
  PHY93_16875|PHY93_16875 301 ASTYYVWAQALSNNGDFYKSIDLIDD 326
                              678999*************9987665 PP

  == domain 2  score: 9.8 bits;  conditional E-value: 0.00024
                              HHHHHHHHHHTT-HHHHHHHHHHHHHHSTTH CS
                    TPR_1   4 lynlGnayfklgkydeAleyyekALelnPnn 34 
                              ly ++ a++kl+k + A e y +  + nP++
  PHY93_16875|PHY93_16875 342 LYLKAEACLKLKKIKMAKELYLEIKRQNPHY 372
                              899********************99999986 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   6.1e-05      0.18       3      33 ..     303     333 ..     301     348 .. 0.79
   2 ?    1.8   0.0      0.19   5.7e+02       3      35 ..     341     373 ..     338     379 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 6.1e-05
                   TPR_14   3 allalaeallalGdpdeAiallrralalaPd 33 
                               ++  a+al ++Gd+ ++i+l ++++++ P 
  PHY93_16875|PHY93_16875 303 TYYVWAQALSNNGDFYKSIDLIDDVIRKEPL 333
                              57899**********************9993 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.19
                   TPR_14   3 allalaeallalGdpdeAiallrralalaPdda 35 
                               l++ aea+l l + + A +l+ ++ +++P  +
  PHY93_16875|PHY93_16875 341 FLYLKAEACLKLKKIKMAKELYLEIKRQNPHYR 373
                              467789*****************9999999865 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.0     0.095   2.8e+02       2      23 ..     302     323 ..     301     329 .. 0.82
   2 ?    9.2   1.2    0.0005       1.5       3      31 ..     341     369 ..     339     372 .. 0.86

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.095
                              CHHHHHHHHHHHTT-HHHHHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeAkey 23 
                              + yy  ++++++ gd+ +++  
  PHY93_16875|PHY93_16875 302 STYYVWAQALSNNGDFYKSIDL 323
                              679999**********999875 PP

  == domain 2  score: 9.2 bits;  conditional E-value: 0.0005
                              HHHHHHHHHHHTT-HHHHHHHHHHHHHHH CS
                    TPR_8   3 ayynlgsiylklgdyeeAkeyyekaleld 31 
                               +y+++ ++lkl+++++Ake y +  + +
  PHY93_16875|PHY93_16875 341 FLYLKAEACLKLKKIKMAKELYLEIKRQN 369
                              589*******************9866555 PP

>> PPR  PPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.3       1.5   4.4e+03       6      27 ..     270     291 ..     270     292 .. 0.85
   2 ?    5.3   0.0    0.0088        26       2      29 ..     303     330 ..     302     331 .. 0.89
   3 ?    6.0   0.3    0.0056        17       9      29 ..     348     368 ..     347     369 .. 0.91

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 1.5
                      PPR   6 lIsgycknGkleeAlelfkeMk 27 
                              +I ++   G+ + +l l ++M+
  PHY93_16875|PHY93_16875 270 MIIAFELLGMEKVVLTLCDKMV 291
                              7888888899999999999996 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.0088
                      PPR   2 tynslIsgycknGkleeAlelfkeMkek 29 
                              ty ++ ++++ nG++ + ++l+++ ++k
  PHY93_16875|PHY93_16875 303 TYYVWAQALSNNGDFYKSIDLIDDVIRK 330
                              8889999***************998875 PP

  == domain 3  score: 6.0 bits;  conditional E-value: 0.0056
                      PPR   9 gycknGkleeAlelfkeMkek 29 
                              ++ k  k+++A+el+ e+k+ 
  PHY93_16875|PHY93_16875 348 ACLKLKKIKMAKELYLEIKRQ 368
                              799***************985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (383 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       930  (0.0518713); expected 358.6 (0.02)
Passed bias filter:                      405  (0.0225891); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.43
# Mc/sec: 2701.65
//
Query:       PHY93_19690|PHY93_19690  [L=148]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (148 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       710  (0.0396006); expected 358.6 (0.02)
Passed bias filter:                      260  (0.0145016); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.38
# Mc/sec: 1179.24
//
Query:       PHY93_19695|PHY93_19695  [L=166]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.6e-33  115.6   0.2      3e-33  115.4   0.2    1.0  1  NYN       NYN domain


Domain annotation for each model (and alignments):
>> NYN  NYN domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  115.4   0.2   1.7e-37     3e-33       1     146 [.      12     160 ..      12     161 .. 0.94

  Alignments for each domain:
  == domain 1  score: 115.4 bits;  conditional E-value: 1.7e-37
                      NYN   1 rvavfiDgenlpvpak...gkevdyrklleeirs.kgelvraraygn.wedeeqnkfqdalsstgikvkhkplkkrg.gsgkkavD 80 
                              r+a+f+D++n++++ k   + ++dy+ +++++++  +e+++a+ay+  ++ e q  fq++l+ +g++vk kp++ r+ g++k+++D
  PHY93_19695|PHY93_19695  12 RIAIFVDVQNIYYTVKdglKGQFDYNYFWQKVVTvDCEVAVAYAYAIeRNVELQVHFQNILRGIGFEVKLKPFISRNdGTSKGDWD 97 
                              89**************975555************9999*********66566689999*****************99********* PP

                      NYN  81 velavdalelaydnkydtivLvsgDgDFaplveklrergkrVevllaeeastsseLisaadefisl 146
                              v++++d+le a   ++d+++L+sgDgDF  lvekl +++k V +++++ + t+++L++ a++f+ +
  PHY93_19695|PHY93_19695  98 VGITIDMLENA--GNVDRLILLSGDGDFDLLVEKLISKNKIVDIYGVP-QLTAESLKRTASNFYPI 160
                              ***********..99*******************************77.8*************976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (166 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       540  (0.0301188); expected 358.6 (0.02)
Passed bias filter:                      431  (0.0240393); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.19s 00:00:00.63 Elapsed: 00:00:00.38
# Mc/sec: 1321.40
//
Query:       PHY93_19700|PHY93_19700  [L=555]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.5e-80  270.1   0.0    2.4e-80  269.5   0.0    1.2  1  T2SSE     Type II/IV secretion system protein
    2.4e-10   40.6   0.0    7.2e-10   39.1   0.0    1.8  1  T2SSE_N   Type II secretion system (T2SS), protein E, N-termi
     0.0052   17.1   0.0      0.024   14.9   0.0    2.1  2  AAA_22    AAA domain
  ------ inclusion threshold ------
      0.011   15.4   0.1      0.027   14.2   0.1    1.6  1  AAA_29    P-loop containing region of AAA domain
      0.014   15.2   0.0      0.029   14.2   0.0    1.6  1  AAA_11    AAA domain
      0.014   15.8   0.0       0.03   14.7   0.0    1.6  1  AAA_16    AAA ATPase domain
       0.02   14.6   0.0      0.044   13.5   0.0    1.5  1  AAA_30    AAA domain
      0.025   14.9   0.0      0.071   13.5   0.0    1.7  1  AAA_19    AAA domain
      0.053   13.6   0.0       0.17   11.9   0.0    1.8  1  AAA_14    AAA domain
      0.061   13.8   1.4       0.13   12.7   0.1    2.1  2  AAA_23    AAA domain
      0.068   12.7   0.0       0.13   11.7   0.0    1.4  1  AAA_7     P-loop containing dynein motor region
      0.084   12.6   0.0       0.17   11.5   0.0    1.5  1  AAA_24    AAA domain
        0.1   12.3   0.0       0.27   11.0   0.0    1.8  1  DEAD      DEAD/DEAH box helicase


Domain annotation for each model (and alignments):
>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  269.5   0.0   1.7e-83   2.4e-80       5     272 ..     180     443 ..     176     444 .. 0.98

  Alignments for each domain:
  == domain 1  score: 269.5 bits;  conditional E-value: 1.7e-83
                    T2SSE   5 leallddekvsdihvekper.vkvrervdgielreveelekaalerlisriaalakldiseerplqdarlp....ekgvrlrvvll 85 
                               ea+   +k sdih+e++e+ ++vr r dg +l e+++++++++  +isr+++la++dise+r++qd+r++    +k ++ rv+ l
  PHY93_19700|PHY93_19700 180 AEAF--VSKCSDIHIEPYENnFRVRYRQDG-SLVEAAKPPRSLMLPIISRVKILAQMDISERRKPQDGRIKleigGKPIDYRVSSL 262
                              5556..6789********************.*******************************************99********** PP

                    T2SSE  86 PvvagealviR..kksakeltlddlgaeealkekiaevlrkavrerglilvsGgTgsGKttllyallkeinksderivtvEDpvEi 169
                              P++ ge++v+R  ++s+ +l++ +lg+e+++ e ++e + ++   +g+ lv+G+TgsGKtt+ly++l+e+n+ d +i t+EDpvE 
  PHY93_19700|PHY93_19700 263 PTLFGEKIVLRllDSSNLQLDMTKLGFEQKQLEIFKEGIYRP---YGMCLVTGPTGSGKTTTLYSALSELNTIDTNISTAEDPVEF 345
                              ******************************************...***************************************** PP

                    T2SSE 170 qleganqvqlnakkakvtfadllraaLRlrPDrimvGEiRdketlei.lkAvnTGHlgslsTlHansaagalerLeqlgaeveaae 254
                              +leg+nqv+++++  ++tfa++l+++LR++PD+imvGEiRd e+ ei ++A+ TGHl+ lsTlH+n+a ++++rL ++g  +e++ 
  PHY93_19700|PHY93_19700 346 NLEGINQVNIKKD-IGLTFAAALKSFLRQDPDIIMVGEIRDGEVGEIaIEAALTGHLV-LSTLHTNDAPSTITRLINMG--IEPFL 427
                              *************.********************************************.********************..***** PP

                    T2SSE 255 lkssilavvdivvrlvrk 272
                              ++  ++ v  +++rl r+
  PHY93_19700|PHY93_19700 428 VAAALNVV--VAQRLCRR 443
                              ********..*****997 PP

>> T2SSE_N  Type II secretion system (T2SS), protein E, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.1   0.0   5.3e-13   7.2e-10       3     100 ..      40     136 ..      25     143 .. 0.94

  Alignments for each domain:
  == domain 1  score: 39.1 bits;  conditional E-value: 5.3e-13
                  T2SSE_N   3 eegllseeqlleaLaeqlglpfldldqleidpsllqllpleflrrygvlPlreedgkllvavvdPldlaaldelqrllgkkgvkpv 88 
                              + ++ + + +++ +ae ++l + dl+  +i+ ++lql++ + + +y+v+P++ + +++ va+ dP+   ++ elq  ++  +++++
  PHY93_19700|PHY93_19700  40 NFKFFDNDRFARQVAENYNLFYADLSKAKISKRMLQLIKKSDIIKYRVIPVQKNSNAVSVAIYDPSIIKLQAELQSYYQH-PIEFI 124
                              557888999********************************************************************999.***** PP

                  T2SSE_N  89 latksdidalld 100
                              l++ s +++l++
  PHY93_19700|PHY93_19700 125 LTSLSAWADLFS 136
                              *****9999986 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0       3.8   5.3e+03      44      70 ..     122     148 ..     109     180 .. 0.70
   2 !   14.9   0.0   1.8e-05     0.024       6      29 ..     306     329 ..     302     360 .. 0.83

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 3.8
                   AAA_22  44 fvtlpsstsskdllrellralglelka 70 
                              ++ l+s++ ++dl++ + + +++ l++
  PHY93_19700|PHY93_19700 122 EFILTSLSAWADLFSLIPESVEDVLET 148
                              566788888888888888888877666 PP

  == domain 2  score: 14.9 bits;  conditional E-value: 1.8e-05
                   AAA_22   6 gilvvtGesGtGKTtllrrlleql 29 
                              g+++vtG++G+GKTt+l   l++l
  PHY93_19700|PHY93_19700 306 GMCLVTGPTGSGKTTTLYSALSEL 329
                              899************997777766 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.1     2e-05     0.027      21      39 ..     304     322 ..     293     339 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 2e-05
                   AAA_29  21 lkgatlltGpsGsGKSTll 39 
                              + g++l+tGp+GsGK+T l
  PHY93_19700|PHY93_19700 304 PYGMCLVTGPTGSGKTTTL 322
                              55899**********9976 PP

>> AAA_11  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   2.1e-05     0.029       4      43 ..     291     334 ..     288     422 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 2.1e-05
                   AAA_11   4 dsqreaiksalsese.itliqGPPGtgKTktivellsqll...s 43 
                              ++q+e +k+ + ++  ++l+ GP G+gKT+t+ + ls+l+   +
  PHY93_19700|PHY93_19700 291 QKQLEIFKEGIYRPYgMCLVTGPTGSGKTTTLYSALSELNtidT 334
                              66777776555555459*********************964430 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.0   2.2e-05      0.03      23      49 ..     303     330 ..     291     425 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 2.2e-05
                   AAA_16  23 rp.elvllsGesGvGKsslvrellrale 49 
                              rp +++l++G+ G+GK++ + ++l +l+
  PHY93_19700|PHY93_19700 303 RPyGMCLVTGPTGSGKTTTLYSALSELN 330
                              45689**************977776655 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   3.2e-05     0.044       3      38 ..     290     325 ..     288     338 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 3.2e-05
                   AAA_30   3 naeQaaavealltsgdrvavltGpAGtGKttalkal 38 
                              +++Q +++++ +  +  ++++tGp G+GKtt+l ++
  PHY93_19700|PHY93_19700 290 EQKQLEIFKEGIYRPYGMCLVTGPTGSGKTTTLYSA 325
                              5789999999999999***************99665 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   5.1e-05     0.071       9      38 ..     304     333 ..     297     340 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 5.1e-05
                   AAA_19   9 kekvllvtaGpGtGKTrvlkhivallvelg 38 
                              + +++lvt++ G+GKT++l  ++++l+ + 
  PHY93_19700|PHY93_19700 304 PYGMCLVTGPTGSGKTTTLYSALSELNTID 333
                              56799**************99999887765 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   0.00013      0.17       4      48 ..     307     357 ..     305     388 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00013
                   AAA_14   4 ilvitGaRrvGKTtllkqlikell......vkkesilyinldderdkklad 48 
                              ++++tG+  +GKTt l+  ++el        ++e+ +++nl+  ++ ++++
  PHY93_19700|PHY93_19700 307 MCLVTGPTGSGKTTTLYSALSELNtidtniSTAEDPVEFNLEGINQVNIKK 357
                              679*****************9999888887778888899988887766553 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.2       1.4     2e+03     120     167 ..      32      85 ..       9     167 .. 0.56
   2 ?   12.7   0.1   9.7e-05      0.13      20      36 ..     306     322 ..     288     327 .. 0.84

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 1.4
                   AAA_23 120 fisellgskkiilnlilflgqerfeefel......kdkkerleelekeleeled 167
                              +ise    +++ +++  f  q  +++++       ++ ++r+ +l+k+ + ++ 
  PHY93_19700|PHY93_19700  32 IISEFNLLNFKFFDNDRFARQVAENYNLFyadlskAKISKRMLQLIKKSDIIKY 85 
                              444443344444444443333333333333333323444444444444444443 PP

  == domain 2  score: 12.7 bits;  conditional E-value: 9.7e-05
                   AAA_23  20 gltlItGpNGaGKTTil 36 
                              g+ l+tGp+G+GKTT l
  PHY93_19700|PHY93_19700 306 GMCLVTGPTGSGKTTTL 322
                              7889***********76 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   9.6e-05      0.13      35      60 ..     307     332 ..     290     345 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 9.6e-05
                    AAA_7  35 pvllvGptGtGKtviikdllkkldke 60 
                               +l++GptG+GKt+++ + l++l++ 
  PHY93_19700|PHY93_19700 307 MCLVTGPTGSGKTTTLYSALSELNTI 332
                              589****************9999954 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00013      0.17       5      35 ..     308     338 ..     305     373 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00013
                   AAA_24   5 iliyGpsgiGKTtlakelgpkplfidtekGl 35 
                              +l++Gp g+GKTt+++++  +   idt+ ++
  PHY93_19700|PHY93_19700 308 CLVTGPTGSGKTTTLYSALSELNTIDTNIST 338
                              799**************96666666655443 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0    0.0002      0.27      14      72 ..     305     453 ..     290     488 .. 0.58

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.0002
                              TCEEEEEESTTSSHHHHHHHHHHHHHHHS..TTSTS.................................................. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxx.................................................. RF
                     DEAD  14 ggdvlvaaeTGsGKTlaflipvlqivyet..kgktg.................................................. 47 
                               g +lv ++TGsGKT+    + l+++ +t  +   +                                                  
  PHY93_19700|PHY93_19700 305 YGMCLVTGPTGSGKTTTLYSA-LSEL-NTidT---Nistaedpvefnleginqvnikkdigltfaaalksflrqdpdiimvgeird 385
                              3789***********984443.3344.22221...122334455555555555555555666666666666666666666666666 PP

                              ...........................................-EEEEEESSHHHHHHHHHHHHHHTT CS
                              ...........................................xxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  48 ...........................................pkalivePtreLaeqtlnnlkkfkk 72 
                                                                           al v+  + L++ +++++k +  
  PHY93_19700|PHY93_19700 386 gevgeiaieaaltghlvlstlhtndapstitrlinmgiepflvAAALNVVVAQRLCRRICKDCKDVEA 453
                              66666666666666666666666666666666666666666655555555555666666665555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (555 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       626  (0.0349155); expected 358.6 (0.02)
Passed bias filter:                      492  (0.0274416); expected 358.6 (0.02)
Passed Vit filter:                        76  (0.00423894); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.63u 0.24s 00:00:00.87 Elapsed: 00:00:00.39
# Mc/sec: 4232.59
//
Query:       PHY93_19705|PHY93_19705  [L=139]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.9e-14   52.7   0.2    7.3e-14   51.9   0.2    1.6  1  FHA           FHA domain
    1.5e-11   44.4   0.0    3.2e-11   43.4   0.0    1.5  1  Yop-YscD_cpl  Inner membrane component of T3SS, cytoplasmic d
  ------ inclusion threshold ------
      0.047   13.8   0.0      0.076   13.1   0.0    1.3  1  DUF2396       Protein of unknown function (DUF2396)


Domain annotation for each model (and alignments):
>> FHA  FHA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.9   0.2   1.2e-17   7.3e-14       1      69 []      23      87 ..      23     108 .. 0.96

  Alignments for each domain:
  == domain 1  score: 51.9 bits;  conditional E-value: 1.2e-17
                             EEEESSTTSSEETTSTTSTTTEEEEEEETTCEEEEEEEESSSSSEEETTEEESTTSEEEE-TTEEEEET CS
                      FHA  1 vtiGRssdcdivlddpsiSrkHalikfdkgsgkvyleDlgSknGtfvNgqrigkgepveLksgdvielG 69
                             +t+GRss+cd++l+d +iS +H  ++ + + g++  +DlgS+nG ++N++++ k   ++ + +++++lG
  PHY93_19705|PHY93_19705 23 CTVGRSSSCDLQLEDMQISGRHGFFELNAN-GELVYTDLGSTNGSYLNNSQVDK---IRFRINETLRLG 87
                             79****************************.9*********************9...888888888887 PP

>> Yop-YscD_cpl  Inner membrane component of T3SS, cytoplasmic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.4   0.0   5.3e-15   3.2e-11      17      88 ..      21      93 ..       9      97 .. 0.89

  Alignments for each domain:
  == domain 1  score: 43.4 bits;  conditional E-value: 5.3e-15
                             EEEEEES-TT-SEE---TTS-TT-EEEEEE.TTEEEEEE-CESS--EETTEE-SECC--TTSEEEETTEEEEE CS
             Yop-YscD_cpl 17 gevviGsdedcDivLsDkevsrkhlkLeve.eesvrledlgsrngllvngerveelelrpgdvlelGttelal 88
                             +++++G++++cD+ L+D+++s +h   e++ + +++ +dlgs+ng+++n+ +v++   r ++ l lG+t + +
  PHY93_19705|PHY93_19705 21 KKCTVGRSSSCDLQLEDMQISGRHGFFELNaNGELVYTDLGSTNGSYLNNSQVDKIRFRINETLRLGNTNILI 93
                             789*************************9945568889****************999***********99866 PP

>> DUF2396  Protein of unknown function (DUF2396)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   1.3e-05     0.076       8      76 ..      22      84 ..      18      92 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 1.3e-05
                  DUF2396  8 kcPhcrqtipaltltdtylcerhGafeadpeteelvhlqsgrkwrlwegkwyrqhthpdgirfeiheal 76
                             kc   r     l l d  +  rhG fe +++ +elv+ + g +     +  y + ++ d irf i e+l
  PHY93_19705|PHY93_19705 22 KCTVGRSSSCDLQLEDMQISGRHGFFELNAN-GELVYTDLGST-----NGSYLNNSQVDKIRFRINETL 84
                             68889999999*****************986.78999988865.....445677788999999999887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (139 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       306  (0.0170673); expected 358.6 (0.02)
Passed bias filter:                      257  (0.0143343); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.38u 0.19s 00:00:00.57 Elapsed: 00:00:00.35
# Mc/sec: 1192.85
//
Query:       PHY93_19710|PHY93_19710  [L=520]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.3e-14   52.1   0.1    1.7e-13   51.1   0.1    1.5  1  5_nucleotid_C  5'-nucleotidase, C-terminal domain
    2.6e-11   44.4   0.4    5.1e-11   43.5   0.4    1.5  1  Metallophos    Calcineurin-like phosphoesterase


Domain annotation for each model (and alignments):
>> 5_nucleotid_C  5'-nucleotidase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.1   0.1   1.9e-17   1.7e-13      25     154 ..     341     469 ..     320     473 .. 0.87

  Alignments for each domain:
  == domain 1  score: 51.1 bits;  conditional E-value: 1.9e-17
                              HHHHHHHTGSTT--EEEEEGGG---.-BTTTEEEHHHHHHHS-..S--E......EEEEEEEHHHHHHHHHH.HTTTTTS--TT-E CS
            5_nucleotid_C  25 nliadalraaagadialangggira.dlpaGditvkdlltvlp..fgnt......lvvveltGaqlkeaLenesvsaskaasgrfl 101
                               +i+da++a++++d+a+ +++ +++ ++p G+it++dl++ +p  f+ t      +++ +++G  lk ++e      + ++ g+ l
  PHY93_19710|PHY93_19710 341 YFITDAMKAKVNVDVAIHTPF-MNGeNFPVGNITRRDLFNSIPrvFDLTekygwsIYTTQIKGIWLKSVFE------ALTHFGQPL 419
                              59*******************.777366***********9999554433678888****************......467899999 PP

                              EEESEEEEE-TTS-TT--EEEESSS-BEEE--TTSEEEEEEEHHHHTTGGG-H CS
            5_nucleotid_C 102 qvsGlrytydlskpagervtslsvtvngkpldddktYkvatnsylasggdgfs 154
                               +sG+++++d + + g  ++++  ++ng+++  +k Y+va +  + +g  g+s
  PHY93_19710|PHY93_19710 420 TFSGIEVEFDKT-ERGAVIKNI--KINGEEVVASKNYTVAFTEGIIKGAQGIS 469
                              9*********66.78*******..77******************999999865 PP

>> Metallophos  Calcineurin-like phosphoesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.5   0.4   5.6e-15   5.1e-11       2     203 ..      28     239 ..      27     240 .. 0.78

  Alignments for each domain:
  == domain 1  score: 43.5 bits;  conditional E-value: 5.6e-15
                              EEEEEESBTB..........TTCCTHHHHHHHHHHHHHHHTTESEEEEE.STSSSSS.....HHHHHHHHH.HHHHHHHTSEEEEE CS
              Metallophos   2 rilvigDlHl..........algggqlddllkllddllreekpdlvlla.GDlvdrg.....dlekellel.laalvkypipvyll 70 
                               il+++D+H             g ++l +l+++++   +ee++  + +  GD+++++     d   ++ e   +  ++     + +
  PHY93_19710|PHY93_19710  28 QILHTNDTHSyleysthdrsRGGSARLKSLIDFYKSKMAEENIKTITMDaGDFTEGNlfymaDQGRKVFEVhNEMGYD-----VGT 108
                              69***************666555566666666665555557888888777**99999888775555566653344444.....9** PP

                              C-TTS.......................CHHHHHHHHHHHHHHHHHHHEHHHCEEETSEEEEEETTE...EEEEEEESECEEETHH CS
              Metallophos  71 lGNHe.......................gfeeellnkygylgifsepwrsdaevfnnlplaslgsgs...lkvlllhGgspellvs 130
                               GNH+                       +   +l+  ++y++i s++  ++    +++ +a+lg ++   ++ + l Gg     v 
  PHY93_19710|PHY93_19710 109 IGNHDylmgtkdldkilgefdlkmsfvaA---NLEMVFDYKNIKSKITPYKEIEIDGIKIAVLGLTTdeiFYKWRLEGG-----VV 186
                              *************9999999999955543...88888888888888888889999999****99999999999999999.....22 PP

                              HHHHHHHHHSCHHHHCCHHHHHHHHHHTTCSEEEEEESSESSCSSSCSCCHHHHHHH.HHHTTESEEEEESSSS CS
              Metallophos 131 ldklgslnleleapepgdewlkdlekrekadwvivlgHsplyrgsgylfgdealedl.lkkygvdlvisGHtHv 203
                               d+ +  +++       +e+lkd    +k+d++i+l+H+++          + ++ l +k + +dl+++GH+H+
  PHY93_19710|PHY93_19710 187 SDPFKVAQRY-------EEILKD----RKNDFIIALTHIGVL---------NDIK-LaEKTKSIDLIVGGHSHT 239
                              2222222222.......999***....***************.........4444.4499999**********6 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (520 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       600  (0.0334653); expected 358.6 (0.02)
Passed bias filter:                      444  (0.0247643); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.21s 00:00:00.78 Elapsed: 00:00:00.40
# Mc/sec: 3920.59
//
Query:       PHY93_19715|PHY93_19715  [L=196]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    3.9e-11   42.9   0.0    1.8e-06   27.8   0.0    2.3  2  MAF_flag10  Protein of unknown function DUF115


Domain annotation for each model (and alignments):
>> MAF_flag10  Protein of unknown function DUF115
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.1   0.0   3.2e-06     0.058      14      39 ..       4      25 ..       1      35 [. 0.73
   2 !   27.8   0.0     1e-10   1.8e-06     132     168 ..      96     132 ..      50     134 .. 0.80

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 3.2e-06
               MAF_flag10 14 slkellnkfkgnkpaiivgaGPSLek 39
                             ++k+l++    +k+++i+++GPSL+ 
  PHY93_19715|PHY93_19715  4 KFKNLHS----SKHCFIISSGPSLNT 25
                             2333333....6************86 PP

  == domain 2  score: 27.8 bits;  conditional E-value: 1e-10
               MAF_flag10 132 ekneilfgGgsvantaldlAvklgfkeIiliGqDlay 168
                              + +e +++G +++ +al+lAv++gfkeI+++G+Dl  
  PHY93_19715|PHY93_19715  96 DLEEGIYSGYTISYFALQLAVYMGFKEIYFLGLDLKN 132
                              3455689***************************975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (196 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       440  (0.0245412); expected 358.6 (0.02)
Passed bias filter:                      384  (0.0214178); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.24s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1465.60
//
Query:       PHY93_19720|PHY93_19720  [L=287]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.5e-16   59.7   0.1      6e-16   58.5   0.0    1.6  2  Hpt           Hpt domain
    8.3e-12   45.3   5.1    2.8e-11   43.6   5.1    2.0  1  H-kinase_dim  Signal transducing histidine kinase, homodimeri


Domain annotation for each model (and alignments):
>> Hpt  Hpt domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.5   0.0   6.7e-20     6e-16       2      83 ..       8     103 ..       7     106 .. 0.93
   2 ?   -3.1   0.0       1.1   9.7e+03      46      54 ..     246     254 ..     233     263 .. 0.58

  Alignments for each domain:
  == domain 1  score: 58.5 bits;  conditional E-value: 6.7e-20
                              HHHHHHHHHHHHHHHHHHHH........SCCHHHHHHHHHHHHHHHHHHTTBHHHHHHHHHHHHHHH..HCTSCHHHHHHHH.... CS
                      Hpt   2 llelfleeaeelleqleqal........dqedlqelaraaHtLKGsagmlGltelaelahelEdlld..ragelelepelle.... 73 
                              +++ fl e+ e l ++++ l        dqe+l++++r +HtLKGs++ lGl++l+e++h+ E++ld  r+g+  l++e+++    
  PHY93_19720|PHY93_19720   8 IVQEFLIESLEALLSINDELtnyeknpdDQELLNSIFRKVHTLKGSSSFLGLKKLQEITHSAESILDliREGSIGLNAEMIDvffe 93 
                              789***********************99999**************************************************98887 PP

                              HHHHHHHHHH CS
                      Hpt  74 alkallealr 83 
                               ++ ++e lr
  PHY93_19720|PHY93_19720  94 CFDSCIELLR 103
                              6666666665 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 1.1
                              HHHHHHHHH CS
                      Hpt  46 telaelahe 54 
                              ++l +la++
  PHY93_19720|PHY93_19720 246 SDLNRLAQQ 254
                              333333333 PP

>> H-kinase_dim  Signal transducing histidine kinase, homodimeric domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.6   5.1   3.1e-15   2.8e-11       2      68 ..     210     268 ..     209     269 .. 0.97

  Alignments for each domain:
  == domain 1  score: 43.6 bits;  conditional E-value: 3.1e-15
             H-kinase_dim   2 stlRVdakrlDyLlnlvGElVitkarLnqsleefrfenglkasvtelksslqnlgrisgeLQegvmk 68 
                              s++RV+++ lD+ +n vGElV++++++ q ++ +          ++l++ +q+l  i++eLQ  +m 
  PHY93_19720|PHY93_19720 210 SVVRVNVQLLDKIMNVVGELVLNRNQILQYANIVD--------SSDLNRLAQQLNIITTELQTDIMT 268
                              89*********************************........99*********************6 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (287 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       827  (0.0461264); expected 358.6 (0.02)
Passed bias filter:                      416  (0.0232026); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.21s 00:00:00.66 Elapsed: 00:00:00.37
# Mc/sec: 2328.30
//
Query:       PHY93_19725|PHY93_19725  [L=245]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.5e-52  176.4   0.0    5.5e-52  176.1   0.0    1.1  1  CheR             CheR methyltransferase, SAM binding domain
    1.6e-06   28.8   0.1    0.00031   21.4   0.1    2.4  2  Methyltransf_12  Methyltransferase domain
    1.7e-05   25.5   0.0     0.0022   18.6   0.0    2.6  3  Methyltransf_25  Methyltransferase domain
    0.00098   19.0   0.0      0.011   15.5   0.0    2.1  2  Methyltransf_23  Methyltransferase domain
     0.0047   16.7   0.2      0.019   14.8   0.2    2.0  1  Methyltransf_31  Methyltransferase domain
  ------ inclusion threshold ------
      0.013   16.1   0.0      0.047   14.3   0.0    2.1  1  Methyltransf_11  Methyltransferase domain
      0.017   14.4   0.0      0.025   13.9   0.0    1.3  1  Methyltransf_2   O-methyltransferase domain
      0.066   13.6   0.9        6.6    7.2   0.1    2.5  2  HP0268           HP0268


Domain annotation for each model (and alignments):
>> CheR  CheR methyltransferase, SAM binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  176.1   0.0   2.4e-55   5.5e-52       1     192 [.      39     231 ..      39     234 .. 0.97

  Alignments for each domain:
  == domain 1  score: 176.1 bits;  conditional E-value: 2.4e-55
                              SS--TTTTCHHHHHHHHCCH.HHHHHHHTSSSEEEEEES-TTTHHHHHHHHHHHCHSTTTSSS-EEEEEEESSCHHHHHHHHTEEE CS
                     CheR   1 neTeffreakhfeelekevlepllakaknekrvriwsagcssGeEpYslAmllketlpkaaklkvkilAtDidlkvlekAkagvyk 86 
                              neT+ffr+ k+f++++++++++ll +++ + ++++wsa++ssG+E++s+ m +++tl +  + +++++A+Di++++l+kAk+g y+
  PHY93_19725|PHY93_19725  39 NETYFFRDVKPFKVFSTNIIPELLVRVTGNTQLNVWSAASSSGQEAFSMLMSAQNTLGDSGSSRLSLFASDISTNALNKAKKGLYN 124
                              89**************************99******************************************************** PP

                              CCHH.TTS-HHHHHHHEEEEETTCEEE-HHHHTTEEEEE--TTT-SGGG--EEEEEE-SSGGGC-CHHHHHHHHHHHCCEEEEEEE CS
                     CheR  87 eeel.eglseelleryfekseddsykvkkeikelvkFeklnllekksvlgklDvifcrnvliYfdeetqekvlerfaeklkpgglL 171
                                 + +gl+ ++l ++f++ e+++++++++i ++vkF + nll++k +++   vifcrnvliY d+++++k+l++++++l +gg++
  PHY93_19725|PHY93_19725 125 GLDVqRGLPITFLMKHFTQVENENWQINSNILSRVKFFEFNLLKDKFPKEMYHVIFCRNVLIYQDKDNKNKILNNVYDALTDGGYM 210
                              ****89**************************************88889999********************************** PP

                              EE-TTB--SSSCCCCCEEEEC CS
                     CheR 172 llGhsEslkklkdkfevvkst 192
                              +lG+ Esl + ++ fe v ++
  PHY93_19725|PHY93_19725 211 FLGNGESLIGIDTSFERVTID 231
                              ***************998876 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   0.0     0.017        39      17      38 ..      94     120 ..      80     130 .. 0.75
   2 !   21.4   0.1   1.4e-07   0.00031      42      98 ..     150     209 ..     137     210 .. 0.80

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.017
          Methyltransf_12  17 kl.....pdieytgvDispsaiedake 38 
                               l     +++++ ++Dis++a+++ak+
  PHY93_19725|PHY93_19725  94 TLgdsgsSRLSLFASDISTNALNKAKK 120
                              3366677889999*********87776 PP

  == domain 2  score: 21.4 bits;  conditional E-value: 1.4e-07
          Methyltransf_12  42 krennnnnnvelealdlldldgg.ssfDlvvasnvlhhl..kdirevldnirklLkpgGr 98 
                              +++ n  ++v++++ +ll+++ + + + ++++ nvl +   ++++++l+n++++L++gG+
  PHY93_19725|PHY93_19725 150 QINSNILSRVKFFEFNLLKDKFPkEMYHVIFCRNVLIYQdkDNKNKILNNVYDALTDGGY 209
                              5555566777777777776665569***************88899**************7 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.4   0.0     0.027        61      21      55 ..     102     141 ..      86     152 .. 0.71
   2 !   18.6   0.0     1e-06    0.0022      46      97 .]     155     208 ..     140     208 .. 0.88
   3 ?   -3.3   0.0       6.7   1.5e+04      22      33 ..     216     227 ..     212     231 .. 0.70

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.027
                              SSEEEEEESSHHHHHHHHHHHHH.....TTTTEEEEESBC CS
          Methyltransf_25  21 kakvtgvDiseemleaareraee.....eglnvefvqgda 55 
                              + ++ + Dis ++l++a++ + +     +gl ++f+ + +
  PHY93_19725|PHY93_19725 102 RLSLFASDISTNALNKAKKGLYNgldvqRGLPITFLMKHF 141
                              467899************9874433333444666665555 PP

  == domain 2  score: 18.6 bits;  conditional E-value: 1e-06
                              T..TEEEEESBCCGBSSSTTTEEEEEEESTGGGSSHHHHHHHHHHHHHHEEEEE CS
          Methyltransf_25  46 l..nvefvqgdaedlpfedgsfDlvvssgalhhlsdedlekalkeiarvLkpgG 97 
                              +  +v+f + ++ + +f+++ +++++++++l + ++++  k+l++++++L++gG
  PHY93_19725|PHY93_19725 155 IlsRVKFFEFNLLKDKFPKEMYHVIFCRNVLIYQDKDNKNKILNNVYDALTDGG 208
                              34699**********************99999*9999****************9 PP

  == domain 3  score: -3.3 bits;  conditional E-value: 6.7
                              SEEEEEESSHHH CS
          Methyltransf_25  22 akvtgvDiseem 33 
                              ++++g+D s e 
  PHY93_19725|PHY93_19725 216 ESLIGIDTSFER 227
                              577888888665 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   0.0      0.19   4.2e+02      94     119 ..       9      34 ..       6      80 .. 0.62
   2 !   15.5   0.0   5.1e-06     0.011      45     117 ..     103     212 ..      78     214 .. 0.72

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.19
          Methyltransf_23  94 hvpdppellrqiatllkpgGylllse 119
                              +v+++++++++ +t++ p+  ++l  
  PHY93_19725|PHY93_19725   9 SVENVESVFQMYKTNITPDMKAVLIN 34 
                              899**************995554433 PP

  == domain 2  score: 15.5 bits;  conditional E-value: 5.1e-06
          Methyltransf_23  45 fsvtgvDlspeaveiae...............kakkaqkdqfdeqeaae....................pqgkfdlIvlrevlehv 95 
                               s+ + D+s +a ++a+               ++   +++q+  ++++                     p++ + +I +r+vl   
  PHY93_19725|PHY93_19725 103 LSLFASDISTNALNKAKkglyngldvqrglpiTFLMKHFTQVENENWQInsnilsrvkffefnllkdkfPKEMYHVIFCRNVLIYQ 188
                              478889999999999999999999999999997777777777444333333333333333333333333777***********998 PP

          Methyltransf_23  96 p..dppellrqiatllkpgGylll 117
                              +  +  + l+++++ l +gGy++l
  PHY93_19725|PHY93_19725 189 DkdNKNKILNNVYDALTDGGYMFL 212
                              8768******************97 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.2   8.3e-06     0.019      55     110 ..     158     213 ..      80     226 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 8.3e-06
          Methyltransf_31  55 nveFeqgdieeleklledekfDlilsnevl..naladpdkileeiervlkpggillie 110
                              +v+F + +  + +  + +e + +i++++vl  ++  +++kil+++ ++l++gg++ + 
  PHY93_19725|PHY93_19725 158 RVKFFEFNLLKDK--FPKEMYHVIFCRNVLiyQDKDNKNKILNNVYDALTDGGYMFLG 213
                              4444444443322..56688899*******999999*****************99765 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0   2.1e-05     0.047      38      95 ..     149     211 ..      91     212 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 2.1e-05
                              CCHHT-...EEEETTEECCCTSS-TT-EEEEEEES-CCC-..CCHHHHHHHHHHHEEEEEEEE CS
          Methyltransf_11  38 aseegl...kvefvvadaeklpfednsfDlvvssevlhhv..edpekalkeiaRvLkpgGllv 95 
                               + + +   +v+f + ++ k +f+++ + ++++++vl +   ++ +k+l++++  L  gG+++
  PHY93_19725|PHY93_19725 149 WQINSNilsRVKFFEFNLLKDKFPKEMYHVIFCRNVLIYQdkDNKNKILNNVYDALTDGGYMF 211
                              3333335678999999999999******************999******************97 PP

>> Methyltransf_2  O-methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   1.1e-05     0.025     107     164 ..     153     212 ..     136     237 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 1.1e-05
                              ----TTEEEEES-TTTS---..--SEEEEESSGGGS-HHHHHHHHHHHHHH--TT-EEEE CS
           Methyltransf_2 107 ageeervefvgGdffkdslP..eaDaillkrvlhDwsdekcvklLkrvkkalpagGkviv 164
                              ++  +rv+f + ++ kd+ P     +i+  +vl   + ++ +k+L++v++al +gG + +
  PHY93_19725|PHY93_19725 153 SNILSRVKFFEFNLLKDKFPkeMYHVIFCRNVLIYQDKDNKNKILNNVYDALTDGGYMFL 212
                              5566899*************5334678888999999999999**************8876 PP

>> HP0268  HP0268
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.1     0.018        41      21      65 ..       3      48 ..       1      50 [. 0.84
   2 ?    7.2   0.1    0.0029       6.6      31      58 ..     183     210 ..     163     222 .. 0.87

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.018
                             HHHHHHHH-S.EEEEEE--TTTSHHHHHHHHHHHHSTT-EEEEE-T CS
                   HP0268 21 kleekvekeg.ekifYfdkenshKdlkklveffekkgksvylrevr 65
                             +l   ++ e+ e++f + k+n   d+k+++    +++ +  +r+v+
  PHY93_19725|PHY93_19725  3 DLVTILSVENvESVFQMYKTNITPDMKAVLINVSTNNETYFFRDVK 48
                             5555666655699*****************9999999999999997 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.0029
                              EEEEEE--TTTSHHHHHHHHHHHHSTT- CS
                   HP0268  31 ekifYfdkenshKdlkklveffekkgks 58 
                              + + Y dk+n++K l ++ + + + g+ 
  PHY93_19725|PHY93_19725 183 NVLIYQDKDNKNKILNNVYDALTDGGYM 210
                              5578****************99998876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (245 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       717  (0.0399911); expected 358.6 (0.02)
Passed bias filter:                      442  (0.0246528); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.35
# Mc/sec: 2075.54
//
Query:       PHY93_19730|PHY93_19730  [L=119]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.2e-24   86.6   0.1    1.4e-24   86.5   0.1    1.0  1  Response_reg  Response regulator receiver domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.5   0.1   7.5e-29   1.4e-24       1     110 [.       3     113 ..       3     115 .. 0.92

  Alignments for each domain:
  == domain 1  score: 86.5 bits;  conditional E-value: 7.5e-29
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHH.HHHHESEEEEESSCSSSEHHHHHHHHHHCT.TTSEEEEEESSTSHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealell.keekvdlillDinmpgmdGlellkeireed.pelpviiltahseee 84 
                              +l+vdD++++ + ++q+l+e g  +   aedg +a+++l k++++ +illD+nmp+m+Gle+l++  +e+  + p+i++t++++ e
  PHY93_19730|PHY93_19730   3 ILVVDDSRAIYAMVSQMLQEGGH-TSVWAEDGLKAVDILtKNNTIEIILLDWNMPNMNGLEFLEKNAKENfTKAPIIMMTTENSPE 87 
                              8******************9999.7779**********955666********************9966666*************** PP

                              HHHHHHHCTESEEEESSG-HHHHHHH CS
             Response_reg  85 davealkagaddflsKpfdpeeLlka 110
                               +++al+++a ++++Kpf+++ L ++
  PHY93_19730|PHY93_19730  88 FIKKALSLNAAEYIMKPFTKDILFNK 113
                              *******************9988765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (119 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       461  (0.0257125); expected 358.6 (0.02)
Passed bias filter:                      337  (0.0187964); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.37u 0.19s 00:00:00.56 Elapsed: 00:00:00.34
# Mc/sec: 1035.32
//
Query:       PHY93_19735|PHY93_19735  [L=131]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.3e-15   57.5   0.1    1.5e-15   57.3   0.1    1.0  1  Response_reg  Response regulator receiver domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.3   0.1   8.5e-20   1.5e-15       2     111 ..       8     119 ..       7     120 .. 0.96

  Alignments for each domain:
  == domain 1  score: 57.3 bits;  conditional E-value: 8.5e-20
                              EEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCT..TTSEEEEEESSTSHHH CS
             Response_reg   2 livdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireed..pelpviiltahseeed 85 
                               ivdDdp+++e++ ++l   ++ ++++++d+ eal++l      +++lD nmp+++G +++ ++ e+   + +   ++ta++ +++
  PHY93_19735|PHY93_19735   8 YIVDDDPKIIEVMLSMLAPYEL-KIKTFTDPIEALKQLTDTPARVVFLDYNMPTLNGKNFIIRMSERYlfQYCTTFLVTAQQFDQM 92 
                              59********************.*****************************************99999899***********999 PP

                              HHHHH.HCTESEEEESSG-HHHHHHHH CS
             Response_reg  86 aveal.kagaddflsKpfdpeeLlkal 111
                               ++ l  +g +++++Kpf++++L+ a+
  PHY93_19735|PHY93_19735  93 NIDLLhTLGFSKVIQKPFTEKDLIGAI 119
                              9999989****************9887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (131 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       567  (0.0316247); expected 358.6 (0.02)
Passed bias filter:                      429  (0.0239277); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 1002.86
//
Query:       PHY93_05525|PHY93_05525  [L=439]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.7e-18   66.6   0.0    6.5e-11   41.6   0.0    2.2  2  Peptidase_S13  D-Ala-D-Ala carboxypeptidase 3 (S13) family


Domain annotation for each model (and alignments):
>> Peptidase_S13  D-Ala-D-Ala carboxypeptidase 3 (S13) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.8   0.0   1.8e-09   3.3e-05      35     114 ..      61     132 ..      50     142 .. 0.89
   2 !   41.6   0.0   3.6e-15   6.5e-11     261     439 ..     217     392 ..     131     396 .. 0.80

  Alignments for each domain:
  == domain 1  score: 22.8 bits;  conditional E-value: 1.8e-09
                              ESTTSEB--GGGHHHHHHHHHHHHT-TT-EEEEEEEESSEEETTEEESCEEEEECSBTTBBHHHHHHHHHHHHHTT-SEE CS
            Peptidase_S13  35 hqgdtpllPAStqKllTAaaAlltLganfrftTevvaegtvenrnlegnlvlvgsGDPtLsaedldalaeelkksGvtki 114
                               + d++++ AS  KllT + A+++Lg n+++ T++  +g         nl + gs DP L +e++  l+ +l + G  k 
  PHY93_05525|PHY93_05525  61 ENLDIRVRLASVSKLLTSLWAVEKLGINYKYRTKLFIKG--------SNLHIQGSLDPFLGNEKMFFLLSQLNDLGYSKF 132
                              566889999****************************98........99***********************99997765 PP

  == domain 2  score: 41.6 bits;  conditional E-value: 3.6e-15
                              TTSEEEEEEEECEHHHHHHHHHHHT-HHHHHHHHHHHHHHHCS-BSHHHHHHHHHHHHHHTT--CTTSB-S-SSS-STT-BBEHHH CS
            Peptidase_S13 261 esaevlashqSaPLsellkkmmkkSdNliAesllrevakeikrpgsfeagldavrerLskagidtanlvLeDgSGLSrknlvtakt 346
                              ++++ ++   S+ L + lk+++ +S+N  A +++ +++ + + ++  +       ++ ++ +  t++       G+ r+n  t +t
  PHY93_05525|PHY93_05525 217 NHEAKILTLSSPVLYKYLKEINVQSNNYAAHTIFLQLGGAVEFEKFISDRYG---KTSNSIHFYTGSGLPSVVDGIRRDNYATCAT 299
                              5667889999****************************88877776665544...44455577777776666779*********** PP

                              HHHHHHHHH..CTCCHHHHHHCS-BTTTS.GGGTTSSTHCTTTTTTTEEEEEEEETTEEEEEEEEESTTSEEEEEEEEEESSSCCC CS
            Peptidase_S13 347 laqlLeaia..dqpalqalldsLPvAGes.GtlenrfkltstpavGkvraKTGsLtgvssLaGyvttasGeklaFsfllngldeed 429
                                +l+ a +   + + ++l d+ +v G + Gt +nr+    +  +    aKTG+L   s LaG + t++G    + ++++ +d e 
  PHY93_05525|PHY93_05525 300 TIELIAALKesTERQGKKLEDLVAVPGSDaGTFSNRIF--PADYKNAFVAKTGTLMHTSTLAGAMSTQKGFSF-YGIFNQSTDIEG 382
                              ***99999944455678999********99*******9..77888999**********************955.666666588888 PP

                              THHHHHHHHH CS
            Peptidase_S13 430 gknirdalde 439
                              +k +++++++
  PHY93_05525|PHY93_05525 383 SKIVQNGMVK 392
                              8888888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (439 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       391  (0.0218082); expected 358.6 (0.02)
Passed bias filter:                      337  (0.0187964); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.21s 00:00:00.74 Elapsed: 00:00:00.37
# Mc/sec: 3513.72
//
Query:       PHY93_19740|PHY93_19740  [L=302]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.7e-21   75.1   0.2    9.7e-21   74.0   0.1    1.6  2  Response_reg  Response regulator receiver domain
    2.6e-06   27.6   0.0    5.3e-06   26.6   0.0    1.5  1  Hpt           Hpt domain
  ------ inclusion threshold ------
      0.085   13.2   0.1       0.32   11.4   0.0    1.9  2  FleQ          Flagellar regulatory protein FleQ


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0       1.4   8.1e+03      34      47 ..      71      87 ..      54     115 .. 0.53
   2 !   74.0   0.1   1.6e-24   9.7e-21       1     112 []     166     275 ..     166     275 .. 0.96

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 1.4
                             HHHHHHHHHH...ESEE CS
             Response_reg 34 ealellkeek...vdli 47
                             + l++  +++   +d  
  PHY93_19740|PHY93_19740 71 QGLKNSSNMHqpqIDYF 87
                             33333322223334433 PP

  == domain 2  score: 74.0 bits;  conditional E-value: 1.6e-24
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseeeda 86 
                              v+ivdD+  + +l+++++  + +  +  a + ++a  +l   k++li+ Di+mpg +Gl+llk++ +  +++pvii++++ + e+a
  PHY93_19740|PHY93_19740 166 VMIVDDEVGAHKLISKMISTKCL--IINALNVNQANTILGICKPHLIISDIKMPGESGLDLLKHMSQSFKDIPVIIISGNPSIETA 249
                              89*****************6666..88899******************************************************** PP

                              HHHHHCTESEEEESSG-HHHHHHHHH CS
             Response_reg  87 vealkagaddflsKpfdpeeLlkale 112
                              ++al+ ga+ fl Kpf+++eL +a++
  PHY93_19740|PHY93_19740 250 INALNGGAVHFLEKPFNKNELQNAIN 275
                              **********************9985 PP

>> Hpt  Hpt domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.6   0.0     9e-10   5.3e-06       1      70 [.       4      83 ..       4      96 .. 0.82

  Alignments for each domain:
  == domain 1  score: 26.6 bits;  conditional E-value: 9e-10
                             HHHHHHHHHHHHHHHHHHHHH........SCCHHHHHHHHHHHHHHHHHHTTBHHHHHHHHHHHHHHH..HCTSCHHHHH CS
                      Hpt  1 ellelfleeaeelleqleqal........dqedlqelaraaHtLKGsagmlGltelaelahelEdlld..ragelelepe 70
                             e+ + f+ +a ell+++e+ +         ++ ++ + r + ++KG++gm+ ++ ++ ++h+ Ed+l+  ++++  ++p+
  PHY93_19740|PHY93_19740  4 EIFQEFILDAMELLGTAEDCFlkiekgesVADHYDVIYRCFDSIKGASGMFDFQNVSIATHKAEDYLQglKNSSNMHQPQ 83
                             577889999999999998888999877766668999********************************966655555544 PP

>> FleQ  Flagellar regulatory protein FleQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0      0.72   4.3e+03      37      65 ..     157     184 ..     145     189 .. 0.57
   2 ?   11.4   0.0   5.4e-05      0.32      55     105 ..     220     275 ..     206     278 .. 0.84

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 0.72
                     FleQ  37 aleesssealavilgsvssleealealae 65 
                              +l+++ + +++++ ++v  + ++++++++
  PHY93_19740|PHY93_19740 157 QLKSRYEPVVMIVDDEVG-AHKLISKMIS 184
                              333333444444444444.6777766655 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 5.4e-05
                     FleQ  55 sleealealaekdphlPvlllgesdeaeelan.....vigelelPlnYnqLtdlLh 105
                              s  ++l+ + ++ + +Pv++++ +++ e + n      +  le P+n n+L +++ 
  PHY93_19740|PHY93_19740 220 SGLDLLKHMSQSFKDIPVIIISGNPSIETAINalnggAVHFLEKPFNKNELQNAIN 275
                              447899*******************99555556999***************99985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (302 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       475  (0.0264934); expected 358.6 (0.02)
Passed bias filter:                      396  (0.0220871); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.38
# Mc/sec: 2373.17
//
Query:       PHY93_19745|PHY93_19745  [L=522]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.1e-32  112.1   0.7    3.8e-20   72.0   0.0    2.4  2  PAS_3        PAS fold
    1.7e-16   60.4   1.2    1.4e-14   54.2   0.5    2.8  3  PAS_9        PAS domain
    4.9e-16   59.2   2.4    7.3e-16   58.7   0.9    2.1  2  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    4.7e-11   42.7   0.0    1.2e-08   35.0   0.0    2.5  2  PAS          PAS fold
    8.9e-10   38.5   0.4    2.1e-09   37.2   0.0    1.9  2  HisKA        His Kinase A (phospho-acceptor) domain
    9.1e-05   22.3   0.9    0.00024   20.9   0.9    1.7  1  HATPase_c_5  GHKL domain
    0.00034   20.6   0.0     0.0027   17.7   0.0    2.4  3  PAS_8        PAS domain
     0.0007   19.4   0.1     0.0016   18.3   0.1    1.5  1  HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like
    0.00094   19.4   0.0     0.0031   17.7   0.0    1.9  1  PAS_4        PAS fold
     0.0011   18.6   0.3     0.0033   17.1   0.1    1.9  2  PAS_12       UPF0242 C-terminal PAS-like domain


Domain annotation for each model (and alignments):
>> PAS_3  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.0   0.0   2.1e-23   3.8e-20       2      88 ..      28     114 ..      27     115 .. 0.98
   2 !   38.4   0.1   6.2e-13   1.1e-09       1      87 [.     164     248 ..     164     250 .. 0.93

  Alignments for each domain:
  == domain 1  score: 72.0 bits;  conditional E-value: 2.1e-23
                    PAS_3   2 iyvserveeilGyspeellgkveswldlvhpeDrervrealqealkkgepyegeyRirrkdGeyrwveararvirdengkpvrvig 87 
                              i +s+++e ++G+ + e+  ++es+l+++hpeDre+v ea++ +l+  +py + +R+++++Ge+++ve+++++++d+++kp r++g
  PHY93_19745|PHY93_19745  28 IEWSDSIEPMFGLKKGEFGRTYESFLSYIHPEDREHVIEAVKLSLEIFCPYFVRHRVVWPNGEIHYVEESGEIVKDKDNKPSRMLG 113
                              79**********************************************************************************99 PP

                    PAS_3  88 v 88 
                               
  PHY93_19745|PHY93_19745 114 S 114
                              6 PP

  == domain 2  score: 38.4 bits;  conditional E-value: 6.2e-13
                    PAS_3   1 iiyvserveeilGyspeellgkveswldlvhpeDrervrealqealkkgepyegeyRirrkdGeyrwveararvirdengkpvrvi 86 
                              iiyv++++++i Gys +e++g+  ++         + ++ ++++ +k+g++++g    r+k+Ge ++v++++++i+ e ++++++i
  PHY93_19745|PHY93_19745 164 IIYVNDKFCKISGYSFSEVIGH--NHNITSSGLHDKTYWVNFWKTIKSGKVFNGIMVNRNKNGELYYVDTTIVPIFTETNEIYQYI 247
                              69********************..7777777777789*********************************************9998 PP

                    PAS_3  87 g 87 
                              +
  PHY93_19745|PHY93_19745 248 S 248
                              6 PP

>> PAS_9  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   0.0     0.038        67      14     102 ..      28     118 ..      17     119 .. 0.66
   2 !   54.2   0.5   7.6e-18   1.4e-14       4     103 ..     155     254 ..     152     255 .. 0.90
   3 ?   -3.0   0.0         5     9e+03      19      52 ..     358     388 ..     357     410 .. 0.66

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.038
                    PAS_9  14 lyaNeaalrllGyspeevlgksitdlf..vtdpeanerlraaleqgrk..kerevevvlirkngetfwvlltaspvkdddgelvgi 95 
                              + ++++ + ++G ++ e  g+ ++ ++    +pe++e + +a++   +   ++ v    + +nge  +v+ +   vkd+d++  ++
  PHY93_19745|PHY93_19745  28 IEWSDSIEPMFGLKKGE-FGRTYESFLsyI-HPEDREHVIEAVKLSLEifCPYFVRHRVVWPNGEIHYVEESGEIVKDKDNKPSRM 111
                              78999*******99998.888888888652.2222222222222222245577777777778888888888888888777776666 PP

                    PAS_9  96 ivilrDi 102
                              ++ +++i
  PHY93_19745|PHY93_19745 112 LGSIKNI 118
                              6666665 PP

  == domain 2  score: 54.2 bits;  conditional E-value: 7.6e-18
                    PAS_9   4 ilidnpdgrilyaNeaalrllGyspeevlgksitdlf..vtdpeanerlraaleqgrkkerevevvlirkngetfwvlltaspvkd 87 
                              + i++ +g+i+y+N++++++ Gys+ ev+g++   +    +d+    ++++ +++g+  ++++ +v+++knge ++v+ t++p++ 
  PHY93_19745|PHY93_19745 155 VTITDVNGKIIYVNDKFCKISGYSFSEVIGHNHNITSsgLHDKTYWVNFWKTIKSGK--VFNGIMVNRNKNGELYYVDTTIVPIFT 238
                              45799***************************7777766778888888888888888..*************************** PP

                    PAS_9  88 ddgelvgiivilrDit 103
                              + +e+  +i+  +D+t
  PHY93_19745|PHY93_19745 239 ETNEIYQYISMRTDVT 254
                              **************99 PP

  == domain 3  score: -3.0 bits;  conditional E-value: 5
                    PAS_9  19 aalrllGyspeevlgksitdlfvtdpeanerlra 52 
                              ++++++  s+++++  +i+ ++    ++ +++++
  PHY93_19745|PHY93_19745 358 HFREFTRLSSDDFVDVDIHSTI---INSLHFFKE 388
                              5777777788888888887777...444444444 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0       3.6   6.5e+03       5      20 ..     391     406 ..     388     408 .. 0.88
   2 !   58.7   0.9   4.1e-19   7.3e-16       2     110 ..     411     521 ..     410     522 .] 0.86

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 3.6
                              HHHHHHHHHHHHHHHH CS
                HATPase_c   5 rLrqiisnlvdNavkf 20 
                              rL +i  +l+ Na+++
  PHY93_19745|PHY93_19745 391 RLNEIHFELSLNAIEY 406
                              899999*******986 PP

  == domain 2  score: 58.7 bits;  conditional E-value: 4.1e-19
                              HHHHHHHHHHHHHHHHHHH.....HSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHH CS
                HATPase_c   2 dekrLrqiisnlvdNavkf.....atkageieveikaseddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivk 82 
                               + rL+q++ nl++N+ +       ++   i+++  ++ ++++i  +DnGiGi+ ++++k+ ++f +   tk   +gtGlGlsi++
  PHY93_19745|PHY93_19745 411 VSNRLEQVLVNLLSNSRDSllekvMSERRLIHIKTISDGNNIKIIFSDNGIGIDSKNINKITDPFFT---TKKVNQGTGLGLSIAH 493
                              689***************9776544455566666664559***************************...566667********** PP

                              HHHHHTTTEEEEEEETTTEEEEEEEEES CS
                HATPase_c  83 klvelmgGeiwvesepgrGttftftlpl 110
                              ++++ +gG i+++s  ++G +f +t+pl
  PHY93_19745|PHY93_19745 494 SIIDEVGGAIECKSIINEGAEFEITMPL 521
                              *8888*******9999*********998 PP

>> PAS  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   0.0     0.012        22      17      61 ..      21      64 ..      17     116 .. 0.68
   2 !   35.0   0.0   6.4e-12   1.2e-08      10     108 ..     151     248 ..     142     253 .. 0.93

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.012
                             EETTSBEEEECHHHHHHHSSTHHHC..TTSBGGGGBSTTHHHHHHHH CS
                      PAS 17 vDedgrilyvNaaaeellGlsreev..lgkslldliheeddaelael 61
                             ++ ++  +++++++e ++Gl+  e     +s+l +ih+ed   +   
  PHY93_19745|PHY93_19745 21 WNIKTGAIEWSDSIEPMFGLKKGEFgrTYESFLSYIHPED---REHV 64
                             78888899************99664112234444444444...4444 PP

  == domain 2  score: 35.0 bits;  conditional E-value: 6.4e-12
                              SSSEEEEEETTSBEEEECHHHHHHHSSTHHHCTTSBGGGGBSTTHHHHHHHHHHHHHHHTT-ECCCCEEEECTTSSEEEEEEEEEE CS
                      PAS  10 lpdpifvvDedgrilyvNaaaeellGlsreevlgkslldliheeddaelaelleqlleqgeesrageisfklrdgrpihlevrasp 95 
                               ++ + ++D +g+i+yvN++++++ G+s +ev+g + ++  +  +d +    +++ +++g+ +++  +++++ +g+ ++++++ +p
  PHY93_19745|PHY93_19745 151 QHSLVTITDVNGKIIYVNDKFCKISGYSFSEVIGHNHNITSSGLHDKTYWVNFWKTIKSGKVFNGIMVNRNK-NGELYYVDTTIVP 235
                              6778899*************************************999999**********************.************* PP

                              EEETTEEEEEEEE CS
                      PAS  96 vrdaggeilgflg 108
                              ++ +  ei +++ 
  PHY93_19745|PHY93_19745 236 IFTETNEIYQYIS 248
                              ****999977665 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.1       5.9   1.1e+04      31      44 ..     279     292 ..     270     293 .. 0.72
   2 !   37.2   0.0   1.2e-12   2.1e-09       1      65 [.     296     366 ..     296     368 .. 0.83

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 5.9
                              .T-HSSCHHHHHHH CS
                    HisKA  31 gklteelkeyleti 44 
                              +kl+e ++++++++
  PHY93_19745|PHY93_19745 279 KKLRETQAQLIQSA 292
                              37889999988765 PP

  == domain 2  score: 37.2 bits;  conditional E-value: 1.2e-12
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHC..T-HSSCHHHHHHHHHHHH......HHHHHHHHHHHHCCHH CS
                    HisKA   1 slgrflagvaHELrtPLsailgnaeaLkregklteelkeyletiesear......rldhlvedlLdlsrie 65 
                              +lg++ +g+aHEL++PL  i+g++  Lk++++ + + + y + i +  +      r+++l++ +++++r+ 
  PHY93_19745|PHY93_19745 296 ALGELSSGLAHELNNPLFLIQGFSANLKEKIEENHQAEGYADMIDDANEiynnciRMTNLIKHFREFTRLS 366
                              589**************************84433333337777777777999999************9986 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.9   0.9   1.4e-07   0.00024       6      88 ..     415     506 ..     412     521 .. 0.75

  Alignments for each domain:
  == domain 1  score: 20.9 bits;  conditional E-value: 1.4e-07
              HATPase_c_5   6 lcvilgnlLdNAieacsk.ieeekrfIrltvrekkks.liisieNsyeg..ek.....kklesskskkeehGiGlksireivkkyk 82 
                              l  +l nlL N+ ++  + + +e+r I+++  ++ ++  ii  +N +    ++     + ++++k+ ++  G+Gl+  ++i+++ +
  PHY93_19745|PHY93_19745 415 LEQVLVNLLSNSRDSLLEkVMSERRLIHIKTISDGNNiKIIFSDNGIGIdsKNinkitDPFFTTKKVNQGTGLGLSIAHSIIDEVG 500
                              667999*******9975526669*******9999988356666777555332233334556699********************** PP

              HATPase_c_5  83 gnlsie 88 
                              g+++++
  PHY93_19745|PHY93_19745 501 GAIECK 506
                              *99865 PP

>> PAS_8  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0       3.7   6.6e+03      27      57 ..      31      57 ..      28      67 .. 0.61
   2 !   17.7   0.0   1.5e-06    0.0027      16      42 ..     157     184 ..     144     202 .. 0.83
   3 ?   -1.6   0.0       1.6   2.9e+03      29      57 ..     358     388 ..     357     395 .. 0.78

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 3.7
                    PAS_8 27 NqaalellGysadlkgellgqllpvlrplle 57
                              ++ + ++G    lk  ++g+  + + ++++
  PHY93_19745|PHY93_19745 31 SDSIEPMFG----LKKGEFGRTYESFLSYIH 57
                             555666999....666667666665555554 PP

  == domain 2  score: 17.7 bits;  conditional E-value: 1.5e-06
                    PAS_8  16 vvd.lgdrivdvNqaalellGys.adlkg 42 
                              ++d +g+ i++vN++++++ Gys  +++g
  PHY93_19745|PHY93_19745 157 ITDvNGK-IIYVNDKFCKISGYSfSEVIG 184
                              5677888.***************777666 PP

  == domain 3  score: -1.6 bits;  conditional E-value: 1.6
                    PAS_8  29 aalellGys.adlkgellg.qllpvlrplle 57 
                               + e++ +s +d+ + +++ ++++ l+  +e
  PHY93_19745|PHY93_19745 358 HFREFTRLSsDDFVDVDIHsTIINSLHFFKE 388
                              5889999999999998888788888887777 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.1   8.7e-07    0.0016       3      62 ..     415     480 ..     412     493 .. 0.84

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 8.7e-07
              HATPase_c_3   3 lekAlaelvdNsldAdaen.......vkievnknrgktgeivieDdGkGmseeelknalrlatsske 62 
                              le++l+ l+ Ns d+  e+       ++i+   + g++ +i + D+G G++ +++ +   +  ++k+
  PHY93_19745|PHY93_19745 415 LEQVLVNLLSNSRDSLLEKvmserrlIHIKTISD-GNNIKIIFSDNGIGIDSKNINKITDPFFTTKK 480
                              4899***********9999999999999998886.6899****************998876666665 PP

>> PAS_4  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   0.0   1.8e-06    0.0031       7     107 ..     154     255 ..     150     258 .. 0.87

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 1.8e-06
                    PAS_4   7 alavldpdgrvlyaNaaaaelfgappeellGktla.ellpee..daarleralrrvlegeepiefleelllpgeerhyelrllPlr 89 
                              ++++ d +g+++y+N  ++++ g+++ e++G+       + +  d++   + ++   +g+ +   +  ++ +ge  +++++++P++
  PHY93_19745|PHY93_19745 154 LVTITDVNGKIIYVNDKFCKISGYSFSEVIGHNHNiT--SSGlhDKTYWVNFWKTIKSGKVFNGIMVNRNKNGELYYVDTTIVPIF 237
                              67889******************************43..33345999999999999999988888887888*************** PP

                    PAS_4  90 desGevigvlvisrDiTe 107
                               e  e+  ++ + +D+T 
  PHY93_19745|PHY93_19745 238 TETNEIYQYISMRTDVTH 255
                              **9999999999999996 PP

>> PAS_12  UPF0242 C-terminal PAS-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.1   1.9e-06    0.0033      47     135 ..     141     233 ..     125     240 .. 0.84
   2 ?   -2.9   0.0       2.5   4.6e+03       6      39 ..     343     377 ..     339     394 .. 0.57

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 1.9e-06
                   PAS_12  47 LfDsL.rsEnlgailvysqkenkllfaNaqirallGwssdkflqdfseivqeglee...WkralaklsskteskirlvlKtKagqe 128
                              L+DsL +  n+ +++  +  + k++++N+++ ++ G+s  +++ + ++i + gl++   W +  ++++s +  ++ +v ++K+g+ 
  PHY93_19745|PHY93_19745 141 LMDSLlKGVNQHSLVTITDVNGKIIYVNDKFCKISGYSFSEVIGHNHNITSSGLHDktyWVNFWKTIKSGKVFNGIMVNRNKNGEL 226
                              78886266789999999************************************975444888888888888888889999999887 PP

                   PAS_12 129 vllncll 135
                               ++ +++
  PHY93_19745|PHY93_19745 227 YYVDTTI 233
                              7766655 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 2.5
                   PAS_12   6 sillkkcieiaqkitgansftneks.rfrdlsldn 39 
                              +  ++ ci + + i+   +ft  +s  f d+ +++
  PHY93_19745|PHY93_19745 343 NEIYNNCIRMTNLIKHFREFTRLSSdDFVDVDIHS 377
                              55556666666666666666554431344444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (522 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       941  (0.0524848); expected 358.6 (0.02)
Passed bias filter:                      497  (0.0277205); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.60u 0.27s 00:00:00.87 Elapsed: 00:00:00.45
# Mc/sec: 3494.06
//
Query:       PHY93_19750|PHY93_19750  [L=315]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.5e-33  114.7   0.2    5.3e-33  114.5   0.2    1.0  1  BNR_2     BNR repeat-like domain
  ------ inclusion threshold ------
       0.25   11.9   3.0       0.37   11.3   0.6    2.2  2  PilJ_C    Pili PilJ C-terminal domain


Domain annotation for each model (and alignments):
>> BNR_2  BNR repeat-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  114.5   0.2   5.9e-37   5.3e-33       1     277 [.      26     290 ..      26     291 .. 0.88

  Alignments for each domain:
  == domain 1  score: 114.5 bits;  conditional E-value: 5.9e-37
                              XTEEEEEESSSSGGGEEEEEEEEEETTEEE.EEEEEE-TTS-...BTTEEEEEEEEEEETTTEEEEEEEEEETT--HHT----EEE CS
                    BNR_2   1 gtLlaawfggsregapdvaiwvsvsdkgsneWsapqvvadreqsrearkklgNPvlfqdpsgtliLfykvgvsvggwagskitrvt 86 
                              g+L+ +w   ++ ++++ +i ++  dk++neW +  ++a        + + gNPvlf+  +++l+Lf+ v+ + + w +s i+  +
  PHY93_19750|PHY93_19750  26 GQLYMSWYVYEDKENEKGQIVYCKYDKATNEWAKS-IIAFPS---LGGSSQGNPVLFT-FNNKLHLFF-VILKRHYWNSSEIYSSS 105
                              789999999999999999999999********765.666666...79**********9.99*******.************99755 PP

                              ESSTTSS----EHHHGGEEEEEE-SS--..EE--T--EEEEEE..SS--EEEEEEEESSTTSS-EE----SSSEEEEEEEE.EEET CS
                    BNR_2  87 SkDdGktWsaprrlpkspflnisgpvknkpiqladGrlilPsshelagkwrallelsddggktWkkgrvveqisgeiqpsilvekd 172
                               + +  +Ws p+++ +        +v+ +p++  +   i+P + e  +    +l+  +++   W++   +  ++++iq  ++  ++
  PHY93_19750|PHY93_19750 106 FDSKSSSWSIPQKINTP----EGIMVRHRPMLIGNQA-IIPAYDE--NTMTTILYSFQNNISIWTEYSRI--TESCIQGDLFSFNE 182
                              555779******88877....557899***8886665.6688877..5566666666667777*999998..568*********** PP

                              TEEEEEEEE.....EEEEEEESSTTSS-EEE-EEEEE----.......---SEEEEEE.EE--SSEEEEEEESTT-GGG--.--EE CS
                    BNR_2 173 gslvalaRsrka..aileseSedgGetWskveltslpnpnsgidavtlkdgrlllvyN.hesapRkpLtvalskdngkswk.evlt 254
                              +++++++Rs+++  +il+s S+++G++W++++ t+l  p sgi+a++lk+g++l+++N +e ++R+p +++ls+ +g  ++  +++
  PHY93_19750|PHY93_19750 183 QECQMYLRSTNEsrKILKSVSANAGKQWEATRMTKLHCPLSGIAAIALKSGKILIANNqTELHKRNPISLSLSDSKGLDFDlGTWH 268
                              *********66668********************************************766669*****************89999 PP

                              EEEEE...EEEEEEEEEEESXXX CS
                    BNR_2 255 LekgpkseysYPsliqaedgklh 277
                               +k++  e+sYP+l+q+++  +h
  PHY93_19750|PHY93_19750 269 VDKTN-IELSYPTLFQDSEEVIH 290
                              99999.***********997777 PP

>> PilJ_C  Pili PilJ C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.6   4.1e-05      0.37      27      76 ..      14      62 ..       2      66 .. 0.76
   2 ?   -0.1   0.1      0.15   1.3e+03      26      73 ..     167     212 ..     146     215 .. 0.69

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 4.1e-05
                   PilJ_C 27 vdeellekeeyegddlYiqpYikkvksege.vvlyantaketgdkWranlv 76
                             v ++  + +eyeg+ lY+  Y+++ k++ +  ++y + + + +++W  +++
  PHY93_19750|PHY93_19750 14 VYSHAATITEYEGQ-LYMSWYVYEDKENEKgQIVYCKYD-KATNEWAKSII 62
                             5566667789****.********5444444489999888.67778987766 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.15
                   PilJ_C  26 kvdeellekeeyegddlYiqpYikkvksegevvlyantaketgdkWra 73 
                               ++e+ +++   + ++   q Y+ ++++  +++   + +   g++W+a
  PHY93_19750|PHY93_19750 167 RITESCIQGDLFSFNEQECQMYLRSTNESRKILKSVSAN--AGKQWEA 212
                              566666666666666667778888666666555555444..7788877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (315 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       583  (0.0325172); expected 358.6 (0.02)
Passed bias filter:                      385  (0.0214736); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.42
# Mc/sec: 2234.95
//
Query:       PHY93_11220|PHY93_11220  [L=110]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (110 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       224  (0.0124937); expected 358.6 (0.02)
Passed bias filter:                      143  (0.0079759); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.23s 00:00:00.62 Elapsed: 00:00:00.41
# Mc/sec: 811.83
//
Query:       PHY93_11225|PHY93_11225  [L=614]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.8e-12   45.5   0.0    1.1e-11   44.5   0.0    1.5  1  Peptidase_S41  Peptidase family S41
    6.3e-07   29.8   0.1      1e-05   25.9   0.0    2.5  2  PDZ_4          PDZ domain
      0.002   18.0   0.0     0.0049   16.7   0.0    1.6  1  PDZ_6          PDZ domain
  ------ inclusion threshold ------
       0.12   12.8   0.0       0.29   11.5   0.0    1.6  1  PDZ            PDZ domain


Domain annotation for each model (and alignments):
>> Peptidase_S41  Peptidase family S41
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.5   0.0   2.5e-15   1.1e-11       2     127 ..     348     530 ..     347     556 .. 0.78

  Alignments for each domain:
  == domain 1  score: 44.5 bits;  conditional E-value: 2.5e-15
                              EEEEEES-BCC...........THHHHHHHHHHHHHHTTSSEEEEE-TTB-EBEHHHHHHHHHCCSSSSEEEEEECTTSEEE.... CS
            Peptidase_S41   2 iGyiripsfse...........ktkeelakalkelkkknvkglilDlRnNgGGlldeavelaslflddglivstrgrdgkkk.... 72 
                              +G+++i +f             +  + ++ +++elk ++   lilDlR NgGG+ +  ++++s + ++g i +   +  + +    
  PHY93_11225|PHY93_11225 348 YGVLQILTF-MtknvkvgdaqmSFIDGIRAFVSELK-ESQLPLILDLRVNGGGNGNLPAQVLSVLAEEGAIYPGATSGFRMTsymr 431
                              688888888.22478888777777788889999999.55556*****************************999988888886777 PP

                              ..............................EEEHTCSS-S......................TT-BSSEEEEEE-TTBBTHHHHHH CS
            Peptidase_S41  73 ..............................kksktekase......................evqykgplvvLvnegsaSaseifa 106
                                                            k        +                       + ++ ++v Lv +++ Sa + ++
  PHY93_11225|PHY93_11225 432 qvqepsfhqevvgedqsfgltkdemktffqK--------TiderrdytpmfatevipydsvkVKGFNNKIVALVTANCISACDKMS 509
                              7777777777777777666666665555441........04445556667888888889888778********************* PP

                              HHHHHTTSEEEEES--SB-EE CS
            Peptidase_S41 107 galkdngratlvGertfGkgt 127
                               +lk+ grat++G+ + G g 
  PHY93_11225|PHY93_11225 510 FLLKSSGRATIIGTHSNGTGA 530
                              ***************777654 PP

>> PDZ_4  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.9   0.0   2.2e-09     1e-05      25      73 ..     189     238 ..     169     247 .. 0.80
   2 ?    0.5   0.0      0.17   7.5e+02      25      53 ..     357     384 ..     339     388 .. 0.72

  Alignments for each domain:
  == domain 1  score: 25.9 bits;  conditional E-value: 2.2e-09
                              SSSSS-TT-EEEEETTEEHHHHHHTTS-T..T----HHHHHHHHHHHTEEE CS
                    PDZ_4  25 eklelkvGDellefdgkpvkevveelkes..ehknsatdqslaevkLtsRe 73 
                                + ++vGDe+++++g+pv++ ++elk+   ++ +++ d++ a + Lt R 
  PHY93_11225|PHY93_11225 189 DFSRIAVGDEVIAINGQPVEDRINELKKYvsGSSDEFIDYQ-AIRALTIRN 238
                              56889**********************97436677799998.899999986 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.17
                              SSSSS-TT-EEEEETTEEHHHHHHTTS-T CS
                    PDZ_4  25 eklelkvGDellefdgkpvkevveelkes 53 
                               + ++kvGD  ++f +  ++ +v+elkes
  PHY93_11225|PHY93_11225 357 MTKNVKVGDAQMSFID-GIRAFVSELKES 384
                              56899******99954.599999999987 PP

>> PDZ_6  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.0   1.1e-06    0.0049      16      48 ..     193     224 ..     193     226 .. 0.85

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 1.1e-06
                    PDZ_6  16 lrvGDiilsvNGqpveglsladvaallrgsage 48 
                              + vGD ++++NGqpv    +++++ ++ gs +e
  PHY93_11225|PHY93_11225 193 IAVGDEVIAINGQPV-EDRINELKKYVSGSSDE 224
                              679************.67777999999888776 PP

>> PDZ  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   6.4e-05      0.29      44      60 ..     193     209 ..     166     217 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 6.4e-05
                              SSTTEEEEEETTEETTT CS
                      PDZ  44 lkvGDkIlsvNgvdven 60 
                              + vGD+++++Ng++ve+
  PHY93_11225|PHY93_11225 193 IAVGDEVIAINGQPVED 209
                              89*************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (614 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       498  (0.0277762); expected 358.6 (0.02)
Passed bias filter:                      431  (0.0240393); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.63u 0.20s 00:00:00.83 Elapsed: 00:00:00.39
# Mc/sec: 4694.40
//
Query:       PHY93_11230|PHY93_11230  [L=741]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    9.6e-46  155.4   0.1      2e-45  154.3   0.1    1.6  1  Peptidase_S41  Peptidase family S41
    3.1e-42  145.0  15.2    3.1e-42  145.0  15.2    2.8  3  TSP_NTD        Tail specific protease N-terminal domain
    8.5e-28   97.5  11.4    8.5e-28   97.5  11.4    3.3  2  DUF3340        C-terminal domain of tail specific protease (D
    2.9e-11   43.6   1.2    7.6e-11   42.2   0.3    2.0  2  PDZ            PDZ domain
    9.8e-07   28.5   1.0    2.7e-06   27.1   0.3    2.2  2  PDZ_6          PDZ domain
    4.5e-05   23.7   3.8    4.8e-05   23.6   1.2    2.4  2  PDZ_2          PDZ domain
  ------ inclusion threshold ------
      0.056   13.9   1.0        1.4    9.5   0.1    3.0  2  PNPase         Polyribonucleotide nucleotidyltransferase, RNA
       0.24   11.4   4.8       0.13   12.2   1.5    2.2  3  Stn1_C         Telomere capping C-terminal wHTH


Domain annotation for each model (and alignments):
>> Peptidase_S41  Peptidase family S41
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  154.3   0.1     9e-49     2e-45       1     165 [.     393     572 ..     393     573 .. 0.94

  Alignments for each domain:
  == domain 1  score: 154.3 bits;  conditional E-value: 9e-49
                              EEEEEEES-BCC.......THHHHHHHHHHHHHHTTSSEEEEE-TTB-EBEHHHHHHHHHCCSSSSEEEEEECTTSEEEEEEHTCS CS
            Peptidase_S41   1 kiGyiripsfse.......ktkeelakalkelkkknvkglilDlRnNgGGlldeavelaslflddglivstrgrdgkkkkksktek 79 
                              k+Gyi++p+f +       + +++++k l++lkk+nv++++lDlRnNgGG l+ a  +++lf+ +g++v++++++gk +  ++++ 
  PHY93_11230|PHY93_11230 393 KVGYIQLPKFYRdfensqiNCTDDVRKELERLKKANVDAVVLDLRNNGGGALEDARLMSGLFIGKGPVVQVKDHTGKIEILENEDP 478
                              79********5578999**************************************************************6666655 PP

                              S-STT-BSSEEEEEE-TTBBTHHHHHHHHHHHTTSEEEEES-.-SB-EEEEEEEE-TT..........SSEEEEEEEEEEETTSBC CS
            Peptidase_S41  80 aseevqykgplvvLvnegsaSaseifagalkdngratlvGer.tfGkgtvqsvvelnd..........gsalkltiakyltpdgrs 154
                                    y+gpl+vL+n+ saSasei+aga++d+gra+++G   ++Gkgtvq v++ln+           +alk+ti+k+++  g s
  PHY93_11230|PHY93_11230 479 SV---FYDGPLIVLINRFSASASEILAGAVQDYGRAVIIGGDfSHGKGTVQAVLNLNQgpllsmfgptMGALKVTIQKFYRVTGAS 561
                              55...6**************************************************888888888888999*************** PP

                              TTTTS---SEE CS
            Peptidase_S41 155 iekkGvePdie 165
                              ++ kGv+ di+
  PHY93_11230|PHY93_11230 562 TQYKGVTSDIV 572
                              *********97 PP

>> TSP_NTD  Tail specific protease N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  145.0  15.2   1.4e-45   3.1e-42       3     192 ..      55     268 ..      53     269 .. 0.89
   2 ?   -1.4   2.5         1   2.3e+03     125     161 ..     629     665 ..     602     689 .. 0.51
   3 ?    1.4   7.1      0.14   3.2e+02      69     130 ..     647     722 ..     625     740 .. 0.72

  Alignments for each domain:
  == domain 1  score: 145.0 bits;  conditional E-value: 1.4e-45
                  TSP_NTD   3 ekLereHykkkklddelskkvfdrYlkqLDpqklyflqsDidefekyreklddalkngdlsfaeeiynlyqkrieerkeyikellk 88 
                              + Le++Hy+  k++de+s+k+f +Ylk++D +k+++++ Di+e+e+y+  +dd++ +g+++ +e+  + ++kr   ++ ++ke +k
  PHY93_11230|PHY93_11230  55 NALETYHYRALKINDEVSQKAFAQYLKKIDGSKQFLTKGDIKELEAYQFDMDDEMVSGEYTLIEKSLAMFKKRTALAEGLRKEAFK 140
                              689*********************************************************************************** PP

                  TSP_NTD  89 kpfdfskdetleldrekapwakneaelkelwrkrlkneilaelklk.....skkdk....................eikkskeele 149
                              k+fdf+ +e++e+d ek++wak+e+ lke+w+   k+ +l+++++      +   k                    +   ++ e++
  PHY93_11230|PHY93_11230 141 KQFDFNGNEQVEVDPEKRDWAKDENLLKENWKLIFKQATLNKYLSLideqsD---KpskttkkvtqksskklppikK--LTDAEMR 221
                              ****************************************999999985550...3555666788888888998641..2345566 PP

                  TSP_NTD 150 kryeeqlkrlsq....rlekkksedvfelflnalassfDPHTsYfsp 192
                              ++++e + ++ q    rl k++++d ++ f+n+++ ++DPHT+Y+  
  PHY93_11230|PHY93_11230 222 TKAHESVSKRFQkifdRLAKEDRDDQLDNFYNSVTAVYDPHTTYLPA 268
                              66666666666667779999************************975 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 1
                  TSP_NTD 125 neilaelklkskkdkeikkskeelekryeeqlkrlsq 161
                              n+i+++++  +kk+k+++ s +  + ++e+  ++++ 
  PHY93_11230|PHY93_11230 629 NKIIKNIEYLNKKKKDTLVSLNLKQVQAEDVQNKKMA 665
                              3444455555555555555455444444444444433 PP

  == domain 3  score: 1.4 bits;  conditional E-value: 0.14
                  TSP_NTD  69 ynlyqkrieerkeyikellkk.pfdfskdetleldreka.............pwakneaelkelwrkrlkneilae 130
                              ++l  k+++  +  +k++ ++ ++d + ++ l ++ e++             +w k+ ++ ke w k l+++++ e
  PHY93_11230|PHY93_11230 647 VSLNLKQVQAEDVQNKKMADElKMDEEDKNLLVTNFEDSlkahenirpgdmkKWSKDFEQRKEEWIKSLRQDVVLE 722
                              4555555666666666666665677777777777777778888888888888*******************99844 PP

>> DUF3340  C-terminal domain of tail specific protease (DUF3340)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?  -10.2  15.0         8   1.8e+04      63     129 ..     176     238 ..      54     258 .. 0.65
   2 !   97.5  11.4   3.8e-31   8.5e-28       2     154 ..     578     732 ..     577     733 .. 0.80

  Alignments for each domain:
  == domain 1  score: -10.2 bits;  conditional E-value: 8
                  DUF3340  63 kerkekktvsLnekkrkaereeqeakrlarenerekakglkplksl.lleknlekeeeleke.dekeae 129
                              k+   +k++sL  ++  +  +       +++  +++ k+l+p+k+l ++e  ++  e   k  ++  ++
  PHY93_11230|PHY93_11230 176 KQATLNKYLSLIDEQSDKPSK------TTKKVTQKSSKKLPPIKKLtDAEMRTKAHESVSKRfQKIFDR 238
                              333333444444444433333......233333333455666666644433333333333334443333 PP

  == domain 2  score: 97.5 bits;  conditional E-value: 3.8e-31
                  DUF3340   2 dyeeiGEssldnALpWDkIspanykkygkiaallpkLkkksekRiakdpeFklleediawlkerkekktvsLnekkrkaereeqea 87 
                              +y e  E++l+++LpWD+I++  ++k++ ++ +lp+Lk+ks +R++++p+F+ + ++i++l+++k+++ vsLn+k+ +ae    ++
  PHY93_11230|PHY93_11230 578 SYVESREKDLEYSLPWDQIAAKPFSKWSRFSYNLPQLKEKSSARVKTNPRFNKIIKNIEYLNKKKKDTLVSLNLKQVQAEDV--QN 661
                              78999***************************************************************************99..33 PP

                  DUF3340  88 krlarenerek...akglkplksllleknlekeeelekedekeaeedd.pkdkekkDiylrEaanIlaDli 154
                              k++a+e + ++   +  ++++++ l+++++    + +k +++ +++++ + +++++D++l+E++ +++D++
  PHY93_11230|PHY93_11230 662 KKMADELKMDEedkNLLVTNFEDSLKAHENIRPGDMKKWSKDFEQRKEeWIKSLRQDVVLEESVMVANDIV 732
                              3333332222201134445555554444444444444448888888888********************97 PP

>> PDZ  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.2   0.3   3.4e-14   7.6e-11       6      82 .]     280     357 ..     275     357 .. 0.90
   2 ?   -1.1   0.0       1.1   2.6e+03      23      48 ..     668     696 ..     641     697 .. 0.69

  Alignments for each domain:
  == domain 1  score: 42.2 bits;  conditional E-value: 3.4e-14
                              TSTTSESSEEEEEETTSSSSSSEEEEEECTTSHHHHHT.SSTTEEEEEETT.....EETTTSHHHHHHHHHHTTTS.EEEEEEE CS
                      PDZ   6 kegrgglGfslkggsdqrgdkgifvsevlpggaaeadg.lkvGDkIlsvNg.....vdvenvsheeavqaikgskg.kvtLtil 82 
                                + +g+G+ l+++ +      i v +v+pgg+a +++ l+++D Il+v +     vd++++ +++av  i+g+kg +v+Lt++
  PHY93_11230|PHY93_11230 280 G-KLEGIGAVLQEDGS-----YIKVVQVVPGGPAWRQKdLEADDTILAVSQgsgdsVDLTDMKVDDAVRYIRGKKGtEVRLTVK 357
                              4.88999999999666.....9***************************7778888*************************995 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 1.1
                              S....SSSSEEEEEECTTSHHHHHTSSTTE CS
                      PDZ  23 r....gdkgifvsevlpggaaeadglkvGD 48 
                                   +dk++ v++ +    a+   +++GD
  PHY93_11230|PHY93_11230 668 LkmdeEDKNLLVTNFEDSLKAHEN-IRPGD 696
                              144556778888888888888888.89988 PP

>> PDZ_6  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.1   0.3   1.2e-09   2.7e-06       2      55 ..     298     357 ..     297     358 .. 0.93
   2 ?   -2.8   0.0       2.7     6e+03      20      34 ..     644     658 ..     643     669 .. 0.79

  Alignments for each domain:
  == domain 1  score: 27.1 bits;  conditional E-value: 1.2e-09
                    PDZ_6   2 VtaVdpgsPAdrA.GlrvGDiilsv.....NGqpveglsladvaallrgsagesvvlvvr 55 
                              V +V+pg+PA+r   l++ D+il+v     + ++++ ++++d+++++rg+ g++v+l+v+
  PHY93_11230|PHY93_11230 298 VVQVVPGGPAWRQkDLEADDTILAVsqgsgDSVDLTDMKVDDAVRYIRGKKGTEVRLTVK 357
                              899*********736**********9998899***99999******************97 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 2.7
                    PDZ_6  20 DiilsvNGqpvegls 34 
                              D+++s+N + v+ ++
  PHY93_11230|PHY93_11230 644 DTLVSLNLKQVQAED 658
                              999999999884444 PP

>> PDZ_2  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.6   1.2   2.1e-08   4.8e-05       3      74 ..     285     362 ..     283     368 .. 0.71
   2 ?   -1.4   0.1       1.4   3.1e+03      57      70 ..     639     652 ..     626     675 .. 0.64

  Alignments for each domain:
  == domain 1  score: 23.6 bits;  conditional E-value: 2.1e-08
                              ..XX------..-EEEEEE-TTSGGGGT..--TT-EEEEE.....TTB--SSHHHHH....HHHH..TS-TT-EEEEEEEE.TTE CS
                    PDZ_2   3 lGvsvsdeedtggvlvvsVkeggPaakag.lkagDvilkv.....dgkkvksledli....slll..kkkpGdtVkltvlR.dgk 74 
                              +G+ ++++ +   + vv+V +ggPa +++ l+a+D+il+v     d   v +l+d++       +  ++k+G++V+ltv+  dg+
  PHY93_11230|PHY93_11230 285 IGAVLQEDGS--YIKVVQVVPGGPAWRQKdLEADDTILAVsqgsgD--SV-DLTDMKvddaV--RyiRGKKGTEVRLTVKKvDGT 362
                              5555555555..*************88877**********554322..33.44444455433..336************984444 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 1.4
                              HTS-TT-EEEEEEE CS
                    PDZ_2  57 lkkkpGdtVkltvl 70 
                              +kkk+++ V+l+++
  PHY93_11230|PHY93_11230 639 NKKKKDTLVSLNLK 652
                              45555555555543 PP

>> PNPase  Polyribonucleotide nucleotidyltransferase, RNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.1      0.17   3.7e+02      32      62 ..      25      55 ..      20      86 .. 0.68
   2 ?    9.5   0.1   0.00063       1.4       4      42 ..     222     260 ..     219     275 .. 0.86

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.17
                             HHHHHHHHHHH...HHSTTS-HHHHHHHHHH CS
                   PNPase 32 eikekvveafaaeleeedeedekeikeifka 62
                             e +e ++ + aa+ e +d  +ek i++i+k+
  PHY93_11230|PHY93_11230 25 EARESAARKSAASKETKDPRREKLIGNILKN 55
                             5566666666667777777777777777763 PP

  == domain 2  score: 9.5 bits;  conditional E-value: 0.00063
                              HHHHTTTHHHHHHHTTSSSHHHHHHHHHHHHHHHHHHHH CS
                   PNPase   4 ekvaelaeerisealtiteKqeRyaaldeikekvveafa 42 
                               k  e +++r ++++    K++R+++ld+ ++ v++ + 
  PHY93_11230|PHY93_11230 222 TKAHESVSKRFQKIFDRLAKEDRDDQLDNFYNSVTAVYD 260
                              566788999************************999875 PP

>> Stn1_C  Telomere capping C-terminal wHTH
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.6   0.0       4.5     1e+04       3      17 ..      68      82 ..      66      84 .. 0.82
   2 ?   -2.7   0.0       2.4   5.3e+03      15      43 ..     376     404 ..     373     412 .. 0.78
   3 ?   12.2   1.5   5.8e-05      0.13      37     115 ..     631     712 ..     603     715 .. 0.82

  Alignments for each domain:
  == domain 1  score: -3.6 bits;  conditional E-value: 4.5
                   Stn1_C  3 leelkselfadllak 17
                             ++e+ +++fa++l+k
  PHY93_11230|PHY93_11230 68 NDEVSQKAFAQYLKK 82
                             689999999999987 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 2.4
                   Stn1_C  15 lakLaklglisledasnvidlkpLknlke 43 
                               a++ak+ +++++++++++   +L + ++
  PHY93_11230|PHY93_11230 376 AASFAKSSVLQYKANDTKVGYIQLPKFYR 404
                              5789999*****99999888888777665 PP

  == domain 3  score: 12.2 bits;  conditional E-value: 5.8e-05
                   Stn1_C  37 pLknlkeYiqkrisvlikL...qcltgtidykqireklklpelskkliidvfkeslrkiakqspellksWwidlkseessiv 115
                               +kn++   +k+ ++l+ L   q+++  +++k+  + lk++e  k+l++  f  sl+ + + +p  +k+W  d ++ ++ ++
  PHY93_11230|PHY93_11230 631 IIKNIEYLNKKKKDTLVSLnlkQVQAEDVQNKKMADELKMDEEDKNLLVTNFEDSLKAHENIRPGDMKKWSKDFEQRKEEWI 712
                              56777666677788888882233445579*****************************************999998888776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (741 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1401  (0.0781416); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.70u 0.24s 00:00:00.94 Elapsed: 00:00:00.41
# Mc/sec: 5364.99
//
Query:       PHY93_11235|PHY93_11235  [L=72]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (72 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1007  (0.056166); expected 358.6 (0.02)
Passed bias filter:                      514  (0.0286686); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.20s 00:00:00.58 Elapsed: 00:00:00.36
# Mc/sec: 600.75
//
Query:       PHY93_11240|PHY93_11240  [L=238]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    5.4e-16   59.1   3.4    7.5e-16   58.6   3.4    1.2  1  RDD         RDD family
  ------ inclusion threshold ------
      0.018   15.1   0.8       0.03   14.4   0.8    1.2  1  CagY_I      CagY type 1 repeat
       0.59   10.0   2.2        1.6    8.6   2.2    1.7  1  Myelin_PLP  Myelin proteolipid protein (PLP or lipophilin)


Domain annotation for each model (and alignments):
>> RDD  RDD family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.6   3.4   1.3e-19   7.5e-16       2     140 ..      96     233 ..      95     234 .. 0.94

  Alignments for each domain:
  == domain 1  score: 58.6 bits;  conditional E-value: 1.3e-19
                      RDD   2 aslgrRllAfliDlvllliislllallivall........nakasaneavagslllllllvlllvllvyqllllskkgqTlGklll 79 
                              a l +R +Af++D++ l++i++++ +    l         n k   + +++  ++ +++++  l+l++ ++++++ + ++lGk++l
  PHY93_11240|PHY93_11240  96 APLPKRAIAFVLDTIWLAAILFVVKFSSPLLRkliqyfmdNYKLKFMISEPIVMNGIVGISGSLALFFLIVIPVAFFNTSLGKKIL 181
                              66779*****************99888777668899999999999999999999******************************** PP

                      RDD  80 glkvvdedgrklglaqaliRalllllllvlglslvlllllligflfvlfsrkrqalhDkla 140
                              gl+v+ +  + l++ qa++R+l         ++  l +++l+gf+++++s+k+ ++hD+l+
  PHY93_11240|PHY93_11240 182 GLRVRGNGKYTLSISQAFKREL---------IMKPLSIVILAGFITPFISKKHLSIHDMLS 233
                              **********************.........889999**********************97 PP

>> CagY_I  CagY type 1 repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.8   5.1e-06      0.03       7      54 ..       9      57 ..       5      66 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 5.1e-06
                   CagY_I  7 qqdsPqdlsneeatean.hfenllkeskessdhhldnPtetqtnfdGdk 54
                              q+ P ++s+eea + +  fe +l   k+  dh   +P   +t+  G +
  PHY93_11240|PHY93_11240  9 TQNVPPNVSEEEAVDQDwEFEAILPKVKNEEDHKNSEPQVKKTHIIGRR 57
                             4788999******998737************************998865 PP

>> Myelin_PLP  Myelin proteolipid protein (PLP or lipophilin)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   2.2   0.00026       1.6      43     101 ..     128     183 ..     102     218 .. 0.81

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.00026
               Myelin_PLP  43 klletyFsknlqdaelllevieavklviyglaavffllgilllavgfyttgavkellge 101
                              kl++ yF  n++ + +++e i  v   i+g++  ++l+ ++++ v+f++t+  k++lg 
  PHY93_11240|PHY93_11240 128 KLIQ-YFMDNYKLKFMISEPI--VMNGIVGISGSLALFFLIVIPVAFFNTSLGKKILGL 183
                              5555.9998888888888877..777899**********************99999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (238 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       663  (0.0369792); expected 358.6 (0.02)
Passed bias filter:                      395  (0.0220313); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.47u 0.25s 00:00:00.72 Elapsed: 00:00:00.42
# Mc/sec: 1694.49
//
Query:       PHY93_11245|PHY93_11245  [L=359]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      7e-42  143.4   1.7    1.1e-41  142.7   1.7    1.3  1  T2SSE          Type II/IV secretion system protein
    8.2e-05   23.1   0.3    0.00022   21.7   0.2    1.9  1  ABC_tran       ABC transporter
    8.6e-05   22.2   1.4    0.00024   20.8   0.3    2.2  2  AAA_29         P-loop containing region of AAA domain
    0.00017   21.8   0.1    0.00075   19.7   0.0    2.0  2  DUF87          Helicase HerA, central domain
    0.00026   20.0   0.1    0.00056   18.9   0.1    1.4  1  TrwB_AAD_bind  Type IV secretion-system coupling protein DNA-
     0.0003   20.1   0.0    0.00047   19.5   0.0    1.3  1  Zeta_toxin     Zeta toxin
    0.00034   20.9   0.0    0.00079   19.7   0.0    1.7  1  AAA_22         AAA domain
    0.00037   19.9   0.1    0.00077   18.9   0.1    1.5  1  FtsK_SpoIIIE   FtsK/SpoIIIE family
     0.0011   19.0   0.0     0.0021   18.1   0.0    1.5  1  ResIII         Type III restriction enzyme, res subunit
     0.0013   18.3   0.0      0.003   17.1   0.0    1.5  1  AAA_7          P-loop containing dynein motor region
     0.0018   18.0   0.1     0.0037   17.0   0.1    1.4  1  AAA_30         AAA domain
     0.0021   18.5   0.0     0.0037   17.7   0.0    1.5  1  AAA_16         AAA ATPase domain
     0.0031   17.9   0.0     0.0071   16.7   0.0    1.6  1  AAA_19         AAA domain
     0.0042   17.6   0.1     0.0096   16.4   0.1    1.5  1  AAA_23         AAA domain
  ------ inclusion threshold ------
      0.012   15.4   0.0      0.018   14.9   0.0    1.2  1  AAA_21         AAA domain, putative AbiEii toxin, Type IV TA 
      0.016   15.7   0.0       0.39   11.3   0.0    2.4  2  AAA_18         AAA domain
      0.036   13.4   0.4       0.24   10.7   0.3    2.1  2  AAA_8          P-loop containing dynein motor region D4
      0.043   13.6   0.8       0.24   11.1   0.2    2.1  2  AAA_11         AAA domain
      0.057   13.2   0.0        0.1   12.4   0.0    1.5  1  DEAD           DEAD/DEAH box helicase
      0.065   13.6   0.1       0.26   11.7   0.0    2.0  2  RNA_helicase   RNA helicase
      0.071   13.1   0.0        0.2   11.7   0.0    1.8  1  AAA_14         AAA domain
      0.072   12.3   0.0      0.087   12.0   0.0    1.2  1  KAP_NTPase     KAP family P-loop domain
      0.096   12.4   0.0       0.18   11.6   0.0    1.4  1  ATP_bind_1     Conserved hypothetical ATP binding protein
       0.14   11.4   0.0        0.2   10.9   0.0    1.2  1  DUF2075        Uncharacterized conserved protein (DUF2075)
       0.15   12.3   0.0       0.24   11.6   0.0    1.3  1  AAA_28         AAA domain
       0.18   11.0   0.0       0.37    9.9   0.0    1.5  1  DAP3           Mitochondrial ribosomal death-associated prote


Domain annotation for each model (and alignments):
>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  142.7   1.7   1.7e-44   1.1e-41       7     261 ..      15     264 ..       9     274 .. 0.83

  Alignments for each domain:
  == domain 1  score: 142.7 bits;  conditional E-value: 1.7e-44
                    T2SSE   7 allddekvsdihvekpervkvrervdgielreveelekaalerlisriaalakldis.eerplqdarlp.ekgvrlrvvllPvvag 90 
                              a+  ++++sdih+ ++e   +r   ++++  + ++ + + ++ +++ + a  +++ + +++  +d+++  ++  r+r ++   +  
  PHY93_11245|PHY93_11245  15 AI--QHNASDIHIRTNEVPCLR-IRGELVPIQTKTFSVEDINDIMKILLADGSHSAElSQKTEIDGAFGiDNLCRVRFNIFRYFGV 97 
                              45..889**********97773.456668888888888999999888777665555426677899999888999**********99 PP

                    T2SSE  91 ealviRkksakeltlddlgaeealkekiaevlrkavrerglilvsGgTgsGKttllyallkeinks.derivtvEDpvEiqlegan 175
                                +v+R  +++  tl+ l +        ++    a+++rg+ilv+G+TgsGK+t+l a++  in++   +i+ +EDp+E+   + +
  PHY93_11245|PHY93_11245  98 FGIVLRVINTQVPTLASLDMPSII----SR---IALQKRGMILVTGATGSGKSTTLAAMIDHINEHsGSHIISIEDPIEYLHPQ-K 175
                              ******888887788888765543....33...355679***************************889**********97654.4 PP

                    T2SSE 176 qvqlnak...kakvtfadllraaLRlrPDrimvGEiRdketlei.lkAvnTGHlgslsTlHansaagalerLeqlgaeveaaelks 257
                              ++++ ++   k + +f+++lr+aLR++PD+i +GE+Rd  t++i lkA++TGH + +sTlH+ +++ ++ r+  +    e+ e+k+
  PHY93_11245|PHY93_11245 176 MSRISQRevgKDTEDFNSGLRSALRQDPDVISIGEMRDPITANIaLKAAETGHVV-FSTLHTTNTVTTIGRIISMFPSHEQPEVKK 260
                              56666666688999*****************************************.*******************98877777777 PP

                    T2SSE 258 sila 261
                               +++
  PHY93_11245|PHY93_11245 261 RLAE 264
                              7665 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.7   0.2   3.2e-07   0.00022       8      69 ..     126     192 ..     122     320 .. 0.72

  Alignments for each domain:
  == domain 1  score: 21.7 bits;  conditional E-value: 3.2e-07
                              EETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEET.TCEGGG....B-HHHCCHCEEEE-SS-- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxx....xxxxxxxxxxxxxxxxxx RF
                 ABC_tran   8 lkegekvaivGenGaGKStLlkllagllkpteGeilld.gkdlke....qeleslrkeigvlpqepq 69 
                              l++  ++ ++G +G+GKSt l++++ + +  +G+  +  ++++++    +  +++++e+g  +++ +
  PHY93_11245|PHY93_11245 126 LQKRGMILVTGATGSGKSTTLAAMIDHINEHSGSHIISiEDPIEYlhpqKMSRISQREVGKDTEDFN 192
                              666778899************************9888877888887665555556666666555533 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.8   0.3   3.4e-07   0.00024      17      42 ..     124     149 ..     121     153 .. 0.88
   2 ?   -1.7   0.0       3.8   2.6e+03      31      37 ..     314     320 ..     310     320 .. 0.87

  Alignments for each domain:
  == domain 1  score: 20.8 bits;  conditional E-value: 3.4e-07
                   AAA_29  17 ieidlkgatlltGpsGsGKSTllDAi 42 
                              i ++ +g++l+tG++GsGKST l A+
  PHY93_11245|PHY93_11245 124 IALQKRGMILVTGATGSGKSTTLAAM 149
                              6778899**************99887 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 3.8
                   AAA_29  31 sGsGKST 37 
                              +G GKST
  PHY93_11245|PHY93_11245 314 QGQGKST 320
                              699***9 PP

>> DUF87  Helicase HerA, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.0       2.1   1.4e+03      85     110 ..      32      62 ..      12      74 .. 0.67
   2 !   19.7   0.0   1.1e-06   0.00075      26      56 ..     132     162 ..     112     219 .. 0.88

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 2.1
                    DUF87  85 a...kdkelkinpwsldpeelldllee..dd 110
                              +     + + i+ + +++e++ d++++   d
  PHY93_11245|PHY93_11245  32 ClriRGELVPIQTKTFSVEDINDIMKIllAD 62 
                              3555567788999999999999999997633 PP

  == domain 2  score: 19.7 bits;  conditional E-value: 1.1e-06
                    DUF87  26 lAilgsTGsGKSntvavLleellekkgatil 56 
                              +++ g TGsGKS+t a +++ + e  g++i+
  PHY93_11245|PHY93_11245 132 ILVTGATGSGKSTTLAAMIDHINEHSGSHII 162
                              5799*******************88788887 PP

>> TrwB_AAD_bind  Type IV secretion-system coupling protein DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.1   8.1e-07   0.00056      17      48 ..     131     162 ..     118     166 .. 0.88

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 8.1e-07
            TrwB_AAD_bind  17 hilivGttGsGKtqalekllrairargdraiv 48 
                               il++G+tGsGK+++l +++++i++    +i+
  PHY93_11245|PHY93_11245 131 MILVTGATGSGKSTTLAAMIDHINEHSGSHII 162
                              5899*********************9999998 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.5   0.0   6.8e-07   0.00047      17      84 ..     130     196 ..     121     228 .. 0.82

  Alignments for each domain:
  == domain 1  score: 19.5 bits;  conditional E-value: 6.8e-07
               Zeta_toxin  17 klillgGqpGAGKselaellkdele.rqgnvvrldpDdlRelhPeyeeilkadpkkaseltqkdaselv 84 
                               +il+ G++G+GKs++++++ d ++ + g+ +   +D +  lhP+  ++ +  ++++ + t+++ s l 
  PHY93_11245|PHY93_11245 130 GMILVTGATGSGKSTTLAAMIDHINeHSGSHIISIEDPIEYLHPQ--KMSRISQREVGKDTEDFNSGLR 196
                              689********************9976777788889********9..4446666777777776666555 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.7   0.0   1.1e-06   0.00079       4      39 ..     128     158 ..     123     214 .. 0.80

  Alignments for each domain:
  == domain 1  score: 19.7 bits;  conditional E-value: 1.1e-06
                   AAA_22   4 tagilvvtGesGtGKTtllrrlleqldeeakaeeer 39 
                              ++g+++vtG +G+GK+t+l+ + +  +e++     +
  PHY93_11245|PHY93_11245 128 KRGMILVTGATGSGKSTTLAAMIDHINEHS-----G 158
                              79*******************999987664.....3 PP

>> FtsK_SpoIIIE  FtsK/SpoIIIE family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.1   1.1e-06   0.00077      41      60 ..     131     150 ..     107     153 .. 0.83

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 1.1e-06
                              SEEEE--TTSSHHHHHHHHH CS
             FtsK_SpoIIIE  41 hllvaGatgsGKStalntLi 60 
                               +lv GatgsGKSt+l ++i
  PHY93_11245|PHY93_11245 131 MILVTGATGSGKSTTLAAMI 150
                              58*****************9 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.0     3e-06    0.0021      22     116 ..     127     239 ..     101     270 .. 0.72

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 3e-06
                              .TTSEEEEEESTTSTHHHHHHHHHHHH-S.....-EEEEESSHH.HHHHHHHHGGGGTGG................GEEEESSS-B CS
                   ResIII  22 krdkrglikmaTGtGKTlvaaklierllkkgkeekflflvprks.lleqtleefkkflseayke............igkkvsgdkk 94 
                              +++  +l+  aTG+GK+ ++a++i+++ ++ + ++++ + + ++ l  q ++++++    +++e                      
  PHY93_11245|PHY93_11245 127 QKRGMILVTGATGSGKSTTLAAMIDHINEHSG-SHIISIEDPIEyLHPQKMSRISQREVGKDTEdfnsglrsalrqD--------- 202
                              4455677999******************9766.69998888875277777788877666666555644433333330......... PP

                              --.......................-SEEEEEHHHHHH CS
                   ResIII  95 ka................kekdstnkkilvttiqslda 116
                               +                  k++++ +++++t ++ + 
  PHY93_11245|PHY93_11245 203 -PdvisigemrdpitaniALKAAETGHVVFSTLHTTNT 239
                              .3344455555555555588899999999999988775 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.0   4.3e-06     0.003      11      63 ..     106     158 ..     102     184 .. 0.81

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 4.3e-06
                    AAA_7  11 eilVptvdtvrysyllel.llknkkpvllvGptGtGKtviikdllkkldkekyl 63 
                              ++ Vpt  ++ +  +++   l+++  +l++G tG+GK++++  ++++++ e+  
  PHY93_11245|PHY93_11245 106 NTQVPTLASLDMPSIISRiALQKRGMILVTGATGSGKSTTLAAMIDHIN-EHSG 158
                              567999999999887776156667788999*************999999.4444 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.1   5.4e-06    0.0037      10      50 ..     121     162 ..     119     166 .. 0.83

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 5.4e-06
                   AAA_30  10 vealltsgdrvavltGpAGtGKttalkalreaweaa.ggrvi 50 
                              + +++ +++ + ++tG+ G+GK+t+l+a+ ++++++ g ++i
  PHY93_11245|PHY93_11245 121 ISRIALQKRGMILVTGATGSGKSTTLAAMIDHINEHsGSHII 162
                              5677788889******************97777777587776 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   0.0   5.3e-06    0.0037      22      54 ..     127     160 ..     119     286 .. 0.78

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 5.3e-06
                   AAA_16  22 grpelvllsGesGvGKsslvrellralekd.ggi 54 
                              +  +++l++G+ G+GKs+ + +  ++++++ g +
  PHY93_11245|PHY93_11245 127 QKRGMILVTGATGSGKSTTLAAMIDHINEHsGSH 160
                              44489***************99999999984233 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.0     1e-05    0.0071       8      40 ..     127     159 ..     121     189 .. 0.88

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 1e-05
                   AAA_19   8 lkekvllvtaGpGtGKTrvlkhivallvelggv 40 
                               k++++lvt+  G+GK+++l +++ +++e  g 
  PHY93_11245|PHY93_11245 127 QKRGMILVTGATGSGKSTTLAAMIDHINEHSGS 159
                              57899*********************9998765 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.1   1.4e-05    0.0096      18      39 ..     128     149 ..     121     151 .. 0.88

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 1.4e-05
                   AAA_23  18 skgltlItGpNGaGKTTildAi 39 
                              ++g+ l+tG +G+GK+T l A+
  PHY93_11245|PHY93_11245 128 KRGMILVTGATGSGKSTTLAAM 149
                              579****************996 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.0   2.6e-05     0.018       2      92 ..     132     204 ..     131     226 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 2.6e-05
                   AAA_21   2 nvliGpNgsGKSnLLdaldllarldrdvegltdelsggggirkipslldlydpeipfefeieeflsqgvryryglrlersqveekl 87 
                               +++G+ gsGKS+ L a+            +++++ +g++i++i+  +   +p + ++++ +e++++  +++ glr   +q     
  PHY93_11245|PHY93_11245 132 ILVTGATGSGKSTTLAAM-----------IDHINEHSGSHIISIEDPIEYLHPQKMSRISQREVGKDTEDFNSGLRSALRQD---- 202
                              5799**************...........4789999999************************************9998887.... PP

                   AAA_21  88 ssvet 92 
                                 ++
  PHY93_11245|PHY93_11245 203 ---PD 204
                              ...44 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00057      0.39       1      18 [.     132     149 ..     132     235 .. 0.76
   2 ?    2.2   0.0      0.35   2.4e+02      69     101 ..     313     347 ..     257     351 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00057
                   AAA_18   1 IlltGtpGvGKttlakeL 18 
                              Il+tG+ G+GK+t   + 
  PHY93_11245|PHY93_11245 132 ILVTGATGSGKSTTLAAM 149
                              99***********87666 PP

  == domain 2  score: 2.2 bits;  conditional E-value: 0.35
                   AAA_18  69 s....aleegknlvidghlaeleseaakdikkvvLta 101
                              s    ++++g+   +d+h+ +l++  ++d+  v L+a
  PHY93_11245|PHY93_11245 313 SqgqgKSTNGGQ-TFDQHIMHLFQKGFIDKE-VALDA 347
                              044445677777.89*************999.99987 PP

>> AAA_8  P-loop containing dynein motor region D4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.3   0.00034      0.24      16      50 ..     121     153 ..     114     164 .. 0.86
   2 ?   -0.2   0.0      0.74   5.1e+02      98     130 ..     233     265 ..     218     273 .. 0.83

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00034
                    AAA_8  16 ilRvlrqprghaLlvGvgGsGrqsltkLAafiael 50 
                              i+R+  q+rg +L+ G  GsG+   t+LAa+i ++
  PHY93_11245|PHY93_11245 121 ISRIALQKRGMILVTGATGSGKS--TTLAAMIDHI 153
                              89********************7..5788877654 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.74
                    AAA_8  98 fledinnlLntGevpnLfskeekeeiieelrke 130
                               l+  n++ + G + ++f + e+ e+ ++l ++
  PHY93_11245|PHY93_11245 233 TLHTTNTVTTIGRIISMFPSHEQPEVKKRLAEN 265
                              578899999999999999999999998887765 PP

>> AAA_11  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.2   0.00035      0.24      11      44 ..     123     156 ..     116     186 .. 0.78
   2 ?    0.5   0.1       0.6   4.1e+02     184     206 ..     215     237 ..     169     242 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00035
                   AAA_11  11 ksalseseitliqGPPGtgKTktivellsqllsr 44 
                              + al+++++ l+ G  G+gK++t+++++ +++++
  PHY93_11245|PHY93_11245 123 RIALQKRGMILVTGATGSGKSTTLAAMIDHINEH 156
                              67899999***********************855 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.6
                   AAA_11 184 aeesleeevldeaeivltTlsga 206
                              +++++  +  ++ ++v++Tl++ 
  PHY93_11245|PHY93_11245 215 ITANIALKAAETGHVVFSTLHTT 237
                              4566667788899*******986 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   0.00015       0.1      12      70 ..     126     182 ..     117     261 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.00015
                              H.TTCEEEEEESTTSSHHHHHHHHHHHHHHHSTTSTS-EEEEEE.SSHHHHHHHHHHHHHH CS
                              x.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxx RF
                     DEAD  12 l.gggdvlvaaeTGsGKTlaflipvlqivyetkgktgpkalive.PtreLaeqtlnnlkkf 70 
                              l + g +lv ++TGsGK++  l ++++++ e    +g  ++ +e P + L  q +++++++
  PHY93_11245|PHY93_11245 126 LqKRGMILVTGATGSGKSTT-LAAMIDHINE---HSGSHIISIEdPIEYLHPQKMSRISQR 182
                              33567999*********987.6777778844...555555555447777777777777665 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00038      0.26       1      27 [.     132     158 ..     132     187 .. 0.85
   2 ?   -1.7   0.0       5.3   3.7e+03       7      15 ..     314     322 ..     313     343 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00038
             RNA_helicase   1 iwlyGpsgeGKStlakeLakallkklk 27 
                              i+++G++g GKSt+   +++++ ++++
  PHY93_11245|PHY93_11245 132 ILVTGATGSGKSTTLAAMIDHINEHSG 158
                              6899***************99998873 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 5.3
             RNA_helicase   7 sgeGKStla 15 
                              +g+GKSt  
  PHY93_11245|PHY93_11245 314 QGQGKSTNG 322
                              699**9965 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00029       0.2       2      41 ..     129     167 ..     128     212 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00029
                   AAA_14   2 rkilvitGaRrvGKTtllkqlikellvkkesilyinldde 41 
                              r ++++tGa  +GK+t l  +i++   +++    i+++d+
  PHY93_11245|PHY93_11245 129 RGMILVTGATGSGKSTTLAAMIDHIN-EHSGSHIISIEDP 167
                              56899*****************7776.5555555666654 PP

>> KAP_NTPase  KAP family P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   0.00013     0.087      11      56 ..     120     163 ..     112     286 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00013
               KAP_NTPase  11 ilseptlatpivvgLygkWGsGKssllnkledelkefakpvrflfa 56 
                              i+s  +l++  ++ ++g+ GsGKs+ l+ ++d ++e+  + ++++ 
  PHY93_11245|PHY93_11245 120 IISRIALQKRGMILVTGATGSGKSTTLAAMIDHINEH--SGSHIIS 163
                              778888899999*************************..4444443 PP

>> ATP_bind_1  Conserved hypothetical ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00026      0.18       1      25 [.     134     157 ..     134     170 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00026
               ATP_bind_1   1 vvGpaGsGKttfvgalseilelrgr 25 
                              v+G  GsGK+t   a+++++++   
  PHY93_11245|PHY93_11245 134 VTGATGSGKSTTLAAMIDHINEH-S 157
                              89*****************9987.4 PP

>> DUF2075  Uncharacterized conserved protein (DUF2075)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   0.00028       0.2       3      33 ..     131     159 ..     129     201 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00028
                  DUF2075   3 vvlVtGvaGtGKtvvllnllaeleddeeert 33 
                              ++lVtG++G+GK+  l +++  +  +e+  +
  PHY93_11245|PHY93_11245 131 MILVTGATGSGKSTTLAAMIDHI--NEHSGS 159
                              89***************999999..333333 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00035      0.24       2      23 ..     132     158 ..     131     203 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00035
                   AAA_28   2 ivitGgestGKTtlleaLaar.....g 23 
                              i +tG+ ++GK+t+l+a+ ++     g
  PHY93_11245|PHY93_11245 132 ILVTGATGSGKSTTLAAMIDHinehsG 158
                              889************998765443344 PP

>> DAP3  Mitochondrial ribosomal death-associated protein 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.0   0.00053      0.37      25      65 ..     131     172 ..     120     184 .. 0.79

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00053
                              EEEEE-SSSSSTTTTHHHHHHHGGGS.--EEEEES-GGGGTS CS
                     DAP3  25 rlvltGekgsGKSvlLlqalayAlek.gwvvlhvpeaedlvn 65 
                               +++tG +gsGKS++L+ ++ +  e  g  ++++ ++ + ++
  PHY93_11245|PHY93_11245 131 MILVTGATGSGKSTTLAAMIDHINEHsGSHIISIEDPIEYLH 172
                              5789*************9987666555888888888877665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (359 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       533  (0.0297284); expected 358.6 (0.02)
Passed bias filter:                      481  (0.026828); expected 358.6 (0.02)
Passed Vit filter:                       105  (0.00585643); expected 17.9 (0.001)
Passed Fwd filter:                        26  (0.00145016); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              26  [number of targets reported over threshold]
# CPU time: 0.59u 0.24s 00:00:00.83 Elapsed: 00:00:00.42
# Mc/sec: 2554.18
//
Query:       PHY93_11250|PHY93_11250  [L=339]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.1e-25   88.5   0.0      1e-24   87.3   0.0    1.6  1  Glyco_transf_9  Glycosyltransferase family 9 (heptosyltransfe


Domain annotation for each model (and alignments):
>> Glyco_transf_9  Glycosyltransferase family 9 (heptosyltransferase)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   87.3   0.0   5.6e-29     1e-24       4     240 ..      76     308 ..      73     317 .. 0.81

  Alignments for each domain:
  == domain 1  score: 87.3 bits;  conditional E-value: 5.6e-29
                              HHHHTTTTT-SEEEE-S--SGGGHHHHHTT-SEEEEE-TTT-.....TTT-TEEE---TTT--SHHHHHHHTTS-GGGS-SS---- CS
           Glyco_transf_9   4 lakaLrekayDlvidlqgllkSAllvralkapvriGldeesr....elaslfysrkvdkakgqhaVernraLfaqaldlpkpeskp 85 
                              +a  Lr+++++ v+d+ + l+S ++ ++l a+    l   ++    + ++lf  r ++ +k    +e++++ +++   l    s +
  PHY93_11250|PHY93_11250  76 FALLLRSENFTHVYDAHNNLRSNIIKFFLMARLNRPLMVTRAkdrwKRILLFNFRINKFPKPFKGIESYLDPISKWGVLRL--SDS 159
                              566799*******************9999998777766555555577788888888888888899******9998644443..333 PP

                              -----HHHHHHHHHHTT--SSS-EEEEE---TTGGGS--HHHHHHHHHHHHHTT-EEEE---GGGHHHHHHTTS-HHHHTTEEE-T CS
           Glyco_transf_9  86 elalslkeraaaldaagllaerpyivflpgaskdaKrWpeekyaelaealqekgyqvvLfgsaeaeeeeiaeriaagleekavnll 171
                              ++       a + + ++  + +++i ++p+a ++ KrWp +++++l++ l e+    v++g++e+  +   +++a+       nl+
  PHY93_11250|PHY93_11250 160 RFVKWVFPSAVEEKINSIISTKQIISLVPSAAWEMKRWPLDHWKKLIKLLPEAD--FVVLGGKED--NLFCQELADLDPSRVQNLA 241
                              3433333333333444466788********************************..889999999..888999999988889**** PP

                              TTS-HHHHHHHHHTSSEEEEESSHHHHHHHHTT--EEEEESSS-TTSS----TTEEEEESS--.----- CS
           Glyco_transf_9 172 gktsLeelaallakadlvvgnDSGlmHlAaAldrpviaLYgptdpkrtgplsksativsleeeaspelk 240
                              gk+sL e   l++k +lv++ D+Gl H+A  l+ + ++L gpt  ++t   s +++ + +++++ p+ k
  PHY93_11250|PHY93_11250 242 GKLSLVESCHLIQKSTLVISADTGLLHVADVLGVKALSLMGPTAFGFTM--SSKIKTLEVNLPCRPCSK 308
                              ***********************************************95..566666666677777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (339 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       570  (0.0317921); expected 358.6 (0.02)
Passed bias filter:                      485  (0.0270511); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.20s 00:00:00.71 Elapsed: 00:00:00.38
# Mc/sec: 2708.56
//
Query:       PHY93_21220|PHY93_21220  [L=288]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.7e-60  204.6   0.0    2.2e-60  204.3   0.0    1.0  1  NTP_transferase  Nucleotidyl transferase
    3.5e-07   30.7   0.0    3.8e-07   30.6   0.0    1.1  1  NTP_transf_3     MobA-like NTP transferase domain


Domain annotation for each model (and alignments):
>> NTP_transferase  Nucleotidyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  204.3   0.0   2.5e-64   2.2e-60       1     245 [.       2     237 ..       2     239 .. 0.96

  Alignments for each domain:
  == domain 1  score: 204.3 bits;  conditional E-value: 2.5e-64
                              EEEEE--S--GGGTTCCTTSSGGGSEETTETETTHHHHHHHHHTT-SEEEEEEETTTHHHHHHHHTTSGGGTSEEEEEEESS--BG CS
          NTP_transferase   1 kavILaGGsGtRLwPLtrtlakklvpvlgkerliqatlsrlansgieeiivvltqehsflveeqlkegskfgvevlialepegkgt 86 
                              k+++LaGG+GtRL+P t++++k+l+pv++k + i+++ls+l+ +gi+ei +++t+++ +l++e l++g+++g+++++ ++++++g+
  PHY93_21220|PHY93_21220   2 KGILLAGGNGTRLFPTTKSISKQLLPVYDK-PTIYYPLSTLMLAGIREIEIISTPRDTPLIRELLGDGAHIGLKLSYKVQEKPNGI 86 
                              69****************************.******************************************************* PP

                              GHHHHHTHHHHTTSSE..EEEEETTEEEESTTHHHHHHHHHTHSSTTSEEEEEEESS-CTTSEEEEECTTSBEEEEECS-SSHSHC CS
          NTP_transferase  87 AdAvalaaelledeksdelvlvLggDhlikdayeeavkkaiekaakgtvtfgivpveeateyGvieadeegrverfvEKPkeakas 172
                              A+A++++++++++++    +l+Lg+++++++++++   +  + ++   +++++++v++++++Gv+e+++eg++ +++EKP ++k s
  PHY93_21220|PHY93_21220  87 AEAFKISKDFIGNSSV---CLILGDNIFYGQDMTNQTIECSKIEK--GAAVFAYRVQDPEKFGVVEFNSEGQALSIEEKPLNPK-S 166
                              ************9995...***********988887777777777..89***********************************.* PP

                              SEECCSEEEEETTHHHHHHHCCHHHTTSSCHHHHHHHHHHHTTEEEEEECSTTEE-EEEXSSHHHHHHHHHHH CS
          NTP_transferase 173 elassGiYvfnsevllflakdleelkrgedeitdilpkaleegkvalaflfkdaeyWsDvGtldslleanekl 245
                              ++a++G+Y+++s+v++ + + l++++rge eitd+++ +leeg   ++ + ++ + W D+G+++sl+  + ++
  PHY93_21220|PHY93_21220 167 NWAVTGLYFYDSSVVERAFN-LKPSARGELEITDLNRTYLEEGALTVEKIGRGIA-WLDTGSHESLISSSLFV 237
                              ****************9975.********************************96.**********9988766 PP

>> NTP_transf_3  MobA-like NTP transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.6   0.0   4.3e-11   3.8e-07       1     127 [.       3     139 ..       3     228 .. 0.79

  Alignments for each domain:
  == domain 1  score: 30.6 bits;  conditional E-value: 4.3e-11
                              EEEEEESS-TTT....TT.THHHHCCCCCCHHHHHHHHHCTT.-CEEEEECSH..CHHHHHHTTCTS-EEE-.TTSS-SHHHHHHH CS
             NTP_transf_3   1 aviLAGGrSsRm....gg.dKallplggkpllervldalraagvdevvvvggd..eevlaalarlgvrvved.edpgkgplaslaa 78 
                              +++LAGG+++R+    ++  K+llp+ +kp + + l +l  ag++e+ ++  +   ++ ++l + g+++    +++ +    ++a 
  PHY93_21220|PHY93_21220   3 GILLAGGNGTRLfpttKSiSKQLLPVYDKPTIYYPLSTLMLAGIREIEIISTPrdTPLIRELLGDGAHIGLKlSYKVQEKPNGIAE 88 
                              699*********7765459**************************99877544243455567777766633313334555566666 PP

                              HHHHH....SSSCEEEEETT-TT--HHHHHHHHHCHHHHTSSEEEEESSSEE CS
             NTP_transf_3  79 alraaa...dadavlvlacDmPlltpelverllaaaaasgadvvvptyeger 127
                              a + ++   +++ v ++++D +++ +++ ++ ++  +  ++ ++v++y+ + 
  PHY93_21220|PHY93_21220  89 AFKISKdfiGNSSVCLILGDNIFYGQDMTNQTIECSK-IEKGAAVFAYRVQD 139
                              6654334449************************886.44445555555444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (288 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       318  (0.0177366); expected 358.6 (0.02)
Passed bias filter:                      311  (0.0173462); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.37
# Mc/sec: 2335.13
//
Query:       PHY93_16380|PHY93_16380  [L=89]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
  ------ inclusion threshold ------
      0.027   15.0   0.4      0.028   14.9   0.4    1.1  1  Metallophos  Calcineurin-like phosphoesterase


Domain annotation for each model (and alignments):
>> Metallophos  Calcineurin-like phosphoesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.4   1.6e-06     0.028       3      47 ..       3      63 ..       1      86 [. 0.69

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 1.6e-06
                             EEEEESBTB....TTCCTHHHHHHHHHHHH..............HHHTTESEEEEESTSSSSS CS
              Metallophos  3 ilvigDlHl....algggqlddllkllddl..............lreekpdlvllaGDlvdrg 47
                             ilv++DlHl     l +gql+ l+++l+d                + e++ lvl +GD+ +  
  PHY93_16380|PHY93_16380  3 ILVLSDLHLgkgkFLKNGQLNLLEDFLEDEkffdfcdyyskgeyEK-EEVHLVL-NGDILNLI 63
                             9************888899999999996655556556665443222.3444444.79977654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (89 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       398  (0.0221987); expected 358.6 (0.02)
Passed bias filter:                      255  (0.0142228); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.35u 0.24s 00:00:00.59 Elapsed: 00:00:00.38
# Mc/sec: 704.03
//
Query:       PHY93_05530|PHY93_05530  [L=211]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.5e-23   82.8   4.3    2.5e-23   82.8   4.3    2.0  3  SNARE_assoc  SNARE associated Golgi protein
  ------ inclusion threshold ------
      0.036   13.1   0.0      0.053   12.5   0.0    1.2  1  DUF5460      Family of unknown function (DUF5460)


Domain annotation for each model (and alignments):
>> SNARE_assoc  SNARE associated Golgi protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.1      0.48   4.3e+03      65      80 ..      24      39 ..      14      48 .. 0.54
   2 !   82.8   4.3   2.8e-27   2.5e-23       1     119 [.      49     174 ..      49     175 .. 0.97
   3 ?   -2.2   0.1       0.6   5.4e+03      66      80 ..     188     202 ..     180     206 .. 0.51

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 0.48
              SNARE_assoc 65 rygflallllrllpiv 80
                             +y +++ l+l l+ ++
  PHY93_05530|PHY93_05530 24 NYHSWTYLFLFLILFI 39
                             4444444444444444 PP

  == domain 2  score: 82.8 bits;  conditional E-value: 2.8e-27
              SNARE_assoc   1 lPsevllvaaGvlf.....glllgtlvtslgallGaslayllgrylgr...kalrrkllsekrvkalerlverygflallllrllp 78 
                              lP++ ll+a+G+++     ++++   ++++ga+lG++++y +g+++g+    + ++kll+ k++++++ +  +yg+++++l+r++p
  PHY93_05530|PHY93_05530  49 LPGDSLLFAVGAFAsrgsfDFWSISGTLLMGAILGDTVNYSIGKFMGPkifAKENHKLLNIKHLEKAHNFYAKYGAKTIILARFIP 134
                              79************9*999*****************************89888899****************************** PP

              SNARE_assoc  79 ivPrdlvnyvaGltrvsfkrFflatfiGsipwalvyaylGs 119
                              iv r+++++vaG+ ++ +k+F+ +++iG+ +w++ ++ lG+
  PHY93_05530|PHY93_05530 135 IV-RTFAPFVAGIGKMTYKKFMSYNVIGATLWIFSFIPLGY 174
                              **.**********************************9998 PP

  == domain 3  score: -2.2 bits;  conditional E-value: 0.6
              SNARE_assoc  66 ygflallllrllpiv 80 
                              +  la++++ ++p++
  PHY93_05530|PHY93_05530 188 FAMLAIVVISVVPGL 202
                              344444555555544 PP

>> DUF5460  Family of unknown function (DUF5460)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   5.9e-06     0.053     184     247 ..      72     135 ..      61     142 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 5.9e-06
                  DUF5460 184 algtlalgsilgytikyvwdnykgkniknenlelvrenkelkfvellyknfknnavildeviki 247
                                gtl +g+ilg t++y+  ++ g +i  ++ +   + k+l+ ++ +y ++  +++il   i i
  PHY93_05530|PHY93_05530  72 ISGTLLMGAILGDTVNYSIGKFMGPKIFAKENHKLLNIKHLEKAHNFYAKYGAKTIILARFIPI 135
                              569*********************9987655555578899**9*************99988876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (211 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       785  (0.0437838); expected 358.6 (0.02)
Passed bias filter:                      424  (0.0236488); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.21s 00:00:00.66 Elapsed: 00:00:00.38
# Mc/sec: 1671.88
//
Query:       PHY93_11255|PHY93_11255  [L=552]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.3e-07   31.3   0.1     0.0003   20.2   0.0    2.9  3  A_deaminase  Adenosine/AMP deaminase


Domain annotation for each model (and alignments):
>> A_deaminase  Adenosine/AMP deaminase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0     0.039     7e+02       4      26 ..      91     113 ..      89     130 .. 0.75
   2 !    7.1   0.0   0.00016       2.9     160     229 ..     288     366 ..     265     380 .. 0.75
   3 !   20.2   0.0   1.7e-08    0.0003     204     288 ..     423     501 ..     417     511 .. 0.81

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.039
                              EEEEEEECCCSS-HHHHHHHHHH CS
              A_deaminase   4 KvdlHvHldgclnpktllrlakk 26 
                                + H+Hl+g+l+ + +    kk
  PHY93_11255|PHY93_11255  91 YHEEHIHLTGSLSADFIYPRLKK 113
                              5688********99888766555 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.00016
                              CCCCCCCCCC-TTSTTGGG....HHHHHCCCCHTT-EEEEEESSS.....S-CHHHHHHHHCS--SCECE-GGGGGSHH CS
              A_deaminase 160 ytvvnldllndekiepasl....flklraeagkstllltpHaGEa.....gglehvveAllllkaerigHGvrlrkdpv 229
                              + ++ +d  +de+    ++     +   ++   ++++++ H GE+      g++ v +Al + + + ++HG++l   p+
  PHY93_11255|PHY93_11255 288 EVLSEVDTVGDERELYKKKhffeMKPGLRRLQYQGFRIRSHHGETwkilrLGVQAVDNALNIWHIDTLEHGLSLGINPN 366
                              5677777888887777766544445566777889**********93333346799*****************9977666 PP

  == domain 3  score: 20.2 bits;  conditional E-value: 1.7e-08
                              HHHHHHHHCS--SCECE-GGGGGSHHHHHHHHHCT-EEEE-HHHHCCC.SST-TTTT-CHHHHHHTT-EEEE--BSCCCCT-SHHH CS
              A_deaminase 204 ehvveAllllkaerigHGvrlrkdpvLqyllalaqiplevcPlSNval.gafleyaenPlkeflerglnvslntDDPlqfgttLie 288
                              +++++ + +  a +i+H     ++ ++++++ ++++ l   P+SN +l g f +y+++P+  + ++g+++ ++tD+ +  +t+ i+
  PHY93_11255|PHY93_11255 423 KFLKTKFHT--AREIEH-----YQHDVLNRMINKKVSLVALPSSNLKLtGCFPDYKDHPFSWWEKKGVQLGIGTDNYITLSTNYIQ 501
                              555555666..666666.....6788999****************986389*************************8887777444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (552 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       426  (0.0237604); expected 358.6 (0.02)
Passed bias filter:                      338  (0.0188521); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.37
# Mc/sec: 4491.02
//
Query:       PHY93_11260|PHY93_11260  [L=355]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.8e-10   40.8   0.5    7.1e-10   38.9   0.5    2.0  1  DnaJ      DnaJ domain
  ------ inclusion threshold ------
       0.41   10.7   3.7       0.68   10.0   0.7    2.3  2  Med28     Mediator complex subunit 28


Domain annotation for each model (and alignments):
>> DnaJ  DnaJ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.9   0.5   7.9e-14   7.1e-10       4      53 ..     296     352 ..     294     354 .. 0.85

  Alignments for each domain:
  == domain 1  score: 38.9 bits;  conditional E-value: 7.9e-14
                              HHHTSSTTG-HHHHHHHHHHHHHHHSTTTS....CCHH.....HHHHHHHHHHHHHHHH CS
                     DnaJ   4 eiLgvskdasedeIkkaYrklalkyHPDkn....pkdp.....eaeekFkeineAyevL 53 
                              eiLg++ + ++++Ikk Y+k+al  HPDk        p     +a e+F++i+eAyev 
  PHY93_11260|PHY93_11260 296 EILGINLQKNTEDIKKIYKKIALIKHPDKIvsqkL--PkilesKAIERFNQIQEAYEVV 352
                              79**************************8755440..2444568999**********95 PP

>> Med28  Mediator complex subunit 28
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.7   7.6e-05      0.68       3      74 ..     167     249 ..     165     264 .. 0.74
   2 ?    1.0   0.1     0.046   4.1e+02      91     118 ..     291     319 ..     285     330 .. 0.77

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 7.6e-05
                    Med28   3 rsyleqlsqkFvllDviRekktfvlekrn.eLsa..............svsdlkkelerkaekykvapeellmkHlqktseqlatq 73 
                              ++yl  l   F+l++ iRekk ++lek   +L +               v  lkkel+++    ++  e+++   +++ + + a++
  PHY93_11260|PHY93_11260 167 KNYLVTLLIFFLLIEEIREKKYYILEKIAkKLGIsstelalafqikllMVVSLKKELKED----RIFSEAIVINQYSEETIKEASE 248
                              67777788889***************9541455555899999999888888899999888....7777777777766644444444 PP

                    Med28  74 l 74 
                              +
  PHY93_11260|PHY93_11260 249 V 249
                              4 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.046
                    Med28  91 idstidyle.klkqvlsdaedvykvrdev 118
                              +d++ + l  +l+++ +d++++yk+++ +
  PHY93_11260|PHY93_11260 291 VDTACEILGiNLQKNTEDIKKIYKKIALI 319
                              666666664389************98755 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (355 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       873  (0.0486921); expected 358.6 (0.02)
Passed bias filter:                      413  (0.0230353); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.37
# Mc/sec: 2842.72
//
Query:       PHY93_11265|PHY93_11265  [L=331]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.3e-14   53.0   0.0    4.5e-14   52.6   0.0    1.1  1  MR_MLE_C  Enolase C-terminal domain-like


Domain annotation for each model (and alignments):
>> MR_MLE_C  Enolase C-terminal domain-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.6   0.0   2.5e-18   4.5e-14      14     170 ..     149     298 ..     137     324 .. 0.81

  Alignments for each domain:
  == domain 1  score: 52.6 bits;  conditional E-value: 2.5e-18
                              T-SEEEEETSSSHHHHHHHHHHHHHHHHTTTSTSEEEEE-TTTSBHH.HHHHHHHHHGG.GTESEEESSSSTTTHHHHHHHHHHHH CS
                 MR_MLE_C  14 gfravKlkvggddvaedvervravreavgpgddvdlmvDanqawdla.tAirvarelee.ldllwlEEPvppeddleglaelrara 97 
                               f  +K+kv +d      + +++v + +  ++   l++Dan++++ a + +++++ +    +l++lE+P++++ + ++  el+ ++
  PHY93_11265|PHY93_11265 149 RFSVLKVKVNRD---NAHDFCQEVLRLT--DV--PLRIDANESFESAaDTLKFLENFSNlSRLEFLEQPLHSS-QHDEALELK-KH 225
                              588999998774...7778999999999..66..*********966659********99555**********5.6999999*9.66 PP

                              .SSEEEESTTSSSHHHHHHHHHHTSESEEEEBHHHHTSHHHHHHHHHHHHHTT-EEEEBSC.SSHHHHHHHHHHH CS
                 MR_MLE_C  98 .sipiaagEslysradfrelleagavdivqpdvsrvgGitearkvaalaeafgvpvapHsg.sgglglaaslhla 170
                               ++ ++a+Es++  +   e++ ++ +  ++++++++gG  +a+k ++ a+  g++ +++++ +++lg   +l ++
  PHY93_11265|PHY93_11265 226 sKVFLMADESVTKEEI-NEYFLER-FHGINVKMMKAGGYLKAVKQLRQAKLLGLKTMLGCMiETSLGISSALNIS 298
                              69********976555.5555555.8**********************************845666666555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (331 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       624  (0.0348039); expected 358.6 (0.02)
Passed bias filter:                      493  (0.0274974); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.19s 00:00:00.65 Elapsed: 00:00:00.34
# Mc/sec: 2876.60
//
Query:       PHY93_11270|PHY93_11270  [L=408]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.012   15.4   2.5       0.13   12.1   2.5    2.1  1  RhoGAP    RhoGAP domain


Domain annotation for each model (and alignments):
>> RhoGAP  RhoGAP domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   2.5   7.4e-06      0.13      32     115 ..      40     183 ..      34     185 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 7.4e-06
                              HHHHHHHHHTGGGCT.....TTTTSCHHHHHHHHHHHHHHSSSTTTTGGHHHHHHHHHTSSSHHHH.................... CS
                   RhoGAP  32 kelreafdkgkavds.....dleeedvhavaslLKrfLrelpepLltkelyeelieaaksedeeer.................... 92 
                               +++++++++++ ds     ++++++++ + s+LK++++el+  +++ ++y+++     s ++  +                    
  PHY93_11270|PHY93_11270  40 SKIESRYNSNNQDDSlalkeNFSSNKLENINSALKTYFQELK--VISPDAYNQFSLGEFSAEAYAQvsaqglglargmtdhftlyg 123
                              6778888888888889999999*******************5..9*********96444444444456668888888888888888 PP

                              .....................................HHHHHHHHTTS-HHHHHHHHHHH CS
                   RhoGAP  93 .....................................lealkellekLPkenrdtLryLl 115
                                                                      +k+l  +LP++n ++L++L+
  PHY93_11270|PHY93_11270 124 slpiyhiktnvtfhqtqksnlaaiqaavqnaptntaiSTFVKQLTLQLPETNEQLLQSLV 183
                              888888888888888888888888888888888888666777777788888888888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (408 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       783  (0.0436723); expected 358.6 (0.02)
Passed bias filter:                      487  (0.0271627); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.37
# Mc/sec: 3303.92
//
Query:       PHY93_11275|PHY93_11275  [L=227]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (227 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       393  (0.0219198); expected 358.6 (0.02)
Passed bias filter:                      325  (0.0181271); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.37
# Mc/sec: 1848.79
//
Query:       PHY93_11280|PHY93_11280  [L=378]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.3e-29  101.2   0.0    9.6e-29  100.1   0.0    1.5  2  Glycos_transf_1  Glycosyl transferases group 1
      1e-20   74.5   0.0    1.6e-20   73.9   0.0    1.3  1  Glyco_trans_1_4  Glycosyl transferases group 1
    6.3e-09   36.1   0.0    1.5e-08   34.8   0.0    1.6  2  Glyco_transf_4   Glycosyltransferase Family 4
  ------ inclusion threshold ------
      0.032   14.7   0.0      0.061   13.8   0.0    1.5  1  Glyco_trans_4_4  Glycosyl transferase 4-like domain
       0.11   12.9   0.0       0.23   11.9   0.0    1.5  1  Glyco_trans_1_2  Glycosyl transferases group 1
       0.14   12.6   0.1       0.29   11.6   0.1    1.5  1  TFIIS_M          Transcription factor S-II (TFIIS), central d


Domain annotation for each model (and alignments):
>> Glycos_transf_1  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.0       2.1   6.3e+03      65      90 ..     162     177 ..     144     188 .. 0.49
   2 !  100.1   0.0   3.2e-32   9.6e-29       9     169 ..     200     355 ..     193     358 .. 0.92

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 2.1
                              HHHHHCTTCGGGEEECCHSSSHHHHH CS
          Glycos_transf_1  65 laeelelsdnviflgevsredleell 90 
                              l++ l++ +          +++   +
  PHY93_11280|PHY93_11280 162 LIKFLGVDE----------KKIVVHY 177
                              222222222..........3333333 PP

  == domain 2  score: 100.1 bits;  conditional E-value: 3.2e-32
                              TTTTTT-EEEEEESS-TTTTTHHHHHHHHHCCCCCHCSCEEEEEES..STTHHHHHHHHHHHCTTCGGGEEECCHSSSHHHHHHCE CS
          Glycos_transf_1   9 lgknekkkiilsvgrlekeKgvdllikafallkkqlnpnvklviaG.ngeeekelkklaeelelsdnviflgevsredleellkna 93 
                              +++  + ++il vg++e++K++ +l+ a+a++ ++   +  lv++G ++++++++k+l+ el+l+++v+fl     ++l++++++a
  PHY93_11280|PHY93_11280 200 YKL--QNPYILHVGAFEERKNQLNLLLAYAQIADK--IEEDLVFIGqGKKYKDKVKALVSELKLNHRVHFLNSARFDELPAIYQAA 281
                              444..789************************987..5555677776699*************************999******** PP

                              SEEEEEESSBSS-HHHHHHHHTT--EEEETTTTHCHHCHTTTSEEEE-TT-HHHHHHHHHHHHHSHHHHHHHHHHH CS
          Glycos_transf_1  94 difvlpsisEgfGivllEAmaaglpviasnaggpaevvkdgetGllvkpnnaealaeairklledeelrerlgena 169
                               +f++ps  EgfGi+++EA+ +++pvi+s  + ++e   +    l+++p ++ ++a+++ +l+ d++l+++++e++
  PHY93_11280|PHY93_11280 282 RVFCFPSLFEGFGIPIVEALFSKTPVITSFGSCFPESAGPDS--LFIDPLSPSSIANGLLRLIGDQNLQNQMSERG 355
                              ******************************************..*****************************998 PP

>> Glyco_trans_1_4  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.9   0.0   5.3e-24   1.6e-20       2     134 .]     205     344 ..     204     344 .. 0.91

  Alignments for each domain:
  == domain 1  score: 73.9 bits;  conditional E-value: 5.3e-24
                              EEEEEES---GG.GTHHHHHHHHHHHH.H.HEEEEEES---...HHHHHHHT..T-T.TEEEE---..THHHHHHHH-SEEEE--. CS
          Glyco_trans_1_4   2 pvilfvGrleenvkgvdllleavpllrkk.dvrlvivGdgp.rpeeleelaa..gleerveftGfv..edlaellaaadvfvaPs. 80 
                              p il+vG++ e++k++  ll a +++++k +  lv++G+g+  ++++++l++  +l++rv+f+     ++l+++++aa+vf++Ps 
  PHY93_11280|PHY93_11280 205 PYILHVGAF-EERKNQLNLLLAYAQIADKiEEDLVFIGQGKkYKDKVKALVSelKLNHRVHFLNSArfDELPAIYQAARVFCFPSl 289
                              78*******.677**************885578*****998866899998866889999*****999999**************** PP

                              .---SHHHHHHHHTT-EEEE-TGGGTTT--TTSSEE--TT-HHHHHHHHHHHHH- CS
          Glyco_trans_1_4  81 .egfglkllEamaaglpvVatdvggiaevvgengllvppgdpealaeailrLled 134
                               egfg+ ++Ea+ +++pv+++  + ++e  g + l ++p +p+++a+ +lrL+ d
  PHY93_11280|PHY93_11280 290 fEGFGIPIVEALFSKTPVITSFGSCFPESAGPDSLFIDPLSPSSIANGLLRLIGD 344
                              *********************76568**889999******************976 PP

>> Glyco_transf_4  Glycosyltransferase Family 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.8   0.0   5.1e-12   1.5e-08      42     162 ..      60     176 ..      36     179 .. 0.75
   2 ?   -2.8   0.0       1.8   5.4e+03      18      35 ..     259     276 ..     250     298 .. 0.56

  Alignments for each domain:
  == domain 1  score: 34.8 bits;  conditional E-value: 5.1e-12
           Glyco_transf_4  42 rvprvplpllkrllrslaflrrlrrllkrekpDvvHahspaalgaallalrrrlgiplVltvHglyekrllkarlkplsrllrale 127
                               v ++p  + +    +l+ ++ l++ +k+ + D+ H  s+   +   l+       + ++t+H+l   r+ +++    + +++   
  PHY93_11280|PHY93_11280  60 VVLKYPQTFIETKFSTLWRSFLLAEEIKKDRLDIFHGLSHE--IPYRLKGP--MPFKKIVTMHDLIFLRYPEFFPLVDRMVYHQKF 141
                              4444454555555667899999*************866633..33444455..79999********86666666666666667777 PP

           Glyco_transf_4 128 rrllrradrviavSeatadelrerygvppekitVi 162
                              +++++++d via++e+t+++l++ +gv+++ki+V 
  PHY93_11280|PHY93_11280 142 KYACKHSDIVIAICEQTKEDLIKFLGVDEKKIVVH 176
                              889*****************************996 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 1.8
           Glyco_transf_4  18 rGheVtvvtpgddgplee 35 
                              ++h+V+++ +++ ++l+ 
  PHY93_11280|PHY93_11280 259 LNHRVHFLNSARFDELPA 276
                              568888884443333333 PP

>> Glyco_trans_4_4  Glycosyl transferase 4-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0     2e-05     0.061      98     156 ..     112     175 ..      61     178 .. 0.70

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 2e-05
          Glyco_trans_4_4  98 plvvtlhglllrrg...sgavrrly.ralerrllrradavlvvseaeaeelra.lgvpadrvvv 156
                              + +vt+h+l + r+    + v r++ +   ++++++ d v++++e+  e+l+  lgv+  ++vv
  PHY93_11280|PHY93_11280 112 KKIVTMHDLIFLRYpefFPLVDRMVyHQKFKYACKHSDIVIAICEQTKEDLIKfLGVDEKKIVV 175
                              3499999977655545655566655233357*****************************9998 PP

>> Glyco_trans_1_2  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   7.8e-05      0.23       4      83 ..     286     365 ..     265     373 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 7.8e-05
          Glyco_trans_1_2   4 npsrsespnlrlfEaaacGafaltddaegleelftpgkevilfe.dleelaekiryllanpeerraiaeaarervlaehty 83 
                              +ps  e++   ++Ea+ + ++++t+  + ++e   p+  +i    ++ ++a  + +l+ +  + ++++e++ e+v++ h +
  PHY93_11280|PHY93_11280 286 FPSLFEGFGIPIVEALFSKTPVITSFGSCFPESAGPDSLFID-PlSPSSIANGLLRLIGDQNLQNQMSERGLEFVQRFHLC 365
                              5677799999***************66999999988844444.46*******************************99965 PP

>> TFIIS_M  Transcription factor S-II (TFIIS), central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.1   9.9e-05      0.29      28      65 ..     226     260 ..     193     269 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 9.9e-05
                              HHHHHHHHHHHHHHHT------HHHHHHHHHHHHHS-T CS
                  TFIIS_M  28 veelaaeiEealfekekkstdkkykqkvrslvfNLkdk 65 
                               +++a +iEe l        +kkyk+kv+ lv+ Lk +
  PHY93_11280|PHY93_11280 226 YAQIADKIEEDLVF---IGQGKKYKDKVKALVSELKLN 260
                              5789999****744...2578**************844 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (378 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       460  (0.0256568); expected 358.6 (0.02)
Passed bias filter:                      390  (0.0217525); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.39
# Mc/sec: 2901.53
//
Query:       PHY93_11285|PHY93_11285  [L=273]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.5e-30  104.1  10.3    6.5e-30  104.1  10.3    2.6  2  Flagellin_N    Bacterial flagellin N-terminal helical region
    5.5e-14   52.3   6.2    5.5e-14   52.3   6.2    2.2  2  Flagellin_C    Bacterial flagellin C-terminal helical region
      0.007   16.5   0.7      0.007   16.5   0.7    2.7  3  Tropomyosin_1  Tropomyosin like
  ------ inclusion threshold ------
      0.067   13.4   4.1      0.053   13.7   1.1    2.1  2  CHDCT2         CHDCT2 (NUC038) domain
       0.23   12.0   2.5       0.33   11.5   1.1    2.0  1  Reprolysin_3   Metallo-peptidase family M12B Reprolysin-like
       0.63    9.9   2.7        3.3    7.6   0.5    2.3  2  DUF2721        Protein of unknown function (DUF2721)


Domain annotation for each model (and alignments):
>> Flagellin_N  Bacterial flagellin N-terminal helical region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  104.1  10.3   2.2e-33   6.5e-30       1     134 [.       3     136 ..       3     141 .. 0.98
   2 ?    1.7   3.4     0.084   2.5e+02      55      85 ..     204     234 ..     183     261 .. 0.67

  Alignments for each domain:
  == domain 1  score: 104.1 bits;  conditional E-value: 2.2e-33
                              --SS-STTHHHHHHHHHHHHHHHHHHHHTTSBTTSSTTS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
              Flagellin_N   1 istnalalaarsnlnknqaelqkaqeelstGlridsalddaaglaisvslrsqiaglsqlvrnnslgisrlqtaqgalselsdilq 86 
                              +stn+ +++a++ +++  +el++  ++ls+G+ri + +dd+aglais++++s i+  sq+ rn+++ is+lq+a+gal+ ++ i +
  PHY93_11285|PHY93_11285   3 VSTNVQSMVAQRYVQQHTEELAREDSQLSSGERIVRSADDPAGLAISEKMKSIIRSNSQAERNTNDSISLLQVAEGALNTMQGIST 88 
                              89************************************************************************************ PP

                              HHHHHHHHHT-TTTS-SHHHHHHHHHHHHHHHHHHHHHH-EETTEE-S CS
              Flagellin_N  87 rlkelavaasndsnsdedrqslqaelqqLtdelnrianttsfNGekLl 134
                              rl+el ++as+d+ sd dr+ +++e+q L+ e++ri  +tsfNG ++ 
  PHY93_11285|PHY93_11285  89 RLRELSMQASSDTVSDMDRSIIDKEFQHLSLEVERITAATSFNGNNII 136
                              ********************************************9986 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.084
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
              Flagellin_N  55 aglsqlvrnnslgisrlqtaqgalselsdil 85 
                              a+l++++   + +i+ lq++++++se ++ +
  PHY93_11285|PHY93_11285 204 AQLGSMSNRMNSVIQNLQVSKENISESNSKI 234
                              5566666666666666666666666655544 PP

>> Flagellin_C  Bacterial flagellin C-terminal helical region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0       3.8   1.1e+04       3      18 ..      15      30 ..       9      41 .. 0.59
   2 !   52.3   6.2   1.8e-17   5.5e-14       2      85 ..     190     273 .]     189     273 .] 0.96

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 3.8
                             HHHHHHHHHHHHHHHH CS
              Flagellin_C  3 ivdeaitdldkvrsel 18
                             +v++ +++l+ + s+l
  PHY93_11285|PHY93_11285 15 YVQQHTEELAREDSQL 30
                             4555555555555555 PP

  == domain 2  score: 52.3 bits;  conditional E-value: 1.8e-17
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHCHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHCTCCHHHHHHH CS
              Flagellin_C   2 divdeaitdldkvrselGavqnRlesaitnlkaqsenlkaaesrledvDpaeestrvtklqiliqasyallaqanqlpqsllnl 85 
                              +++d+ +++++  r++lG+++nR++s i+nl+  +en++++ s+++d+D+a e+++ +k+ i + as+all   n +p ++l+l
  PHY93_11285|PHY93_11285 190 SALDNMMSEISGSRAQLGSMSNRMNSVIQNLQVSKENISESNSKIRDADMAREAANRAKILISQSASLALLKLSNDQPATILKL 273
                              678999*****************************************************************9999999998876 PP

>> Tropomyosin_1  Tropomyosin like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.6      0.06   1.8e+02      78     132 ..      12      67 ..       3      77 .. 0.76
   2 ?    1.5   0.2       0.1   3.1e+02      21      91 ..      50     123 ..      45     127 .. 0.63
   3 !   16.5   0.7   2.3e-06     0.007      52     117 ..     183     248 ..     180     257 .. 0.92

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.06
            Tropomyosin_1  78 ltrkiqlLEeeleesdkkLkettekLretdvkae.elERkvkaLeqerdewekkye 132
                               +r +q+  eel + d++L +     r +d  a+  +  k+k++ +++ + e+  +
  PHY93_11285|PHY93_11285  12 AQRYVQQHTEELAREDSQLSSGERIVRSADDPAGlAISEKMKSIIRSNSQAERNTN 67 
                              5889999999*******999999999999888874456677777777776666655 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.1
            Tropomyosin_1  21 ekvKeleqenlekeqeiksLtkknqqleeevek...leeklkeakekaeesekkktnnealtrkiqlLEeelee 91 
                              ek+K+   +n + e + ++    +q++e  +++   ++++l+e   +a++ +  +++   + +  q L  e+e+
  PHY93_11285|PHY93_11285  50 EKMKSIIRSNSQAERNTNDSISLLQVAEGALNTmqgISTRLRELSMQASSDTVSDMDRSIIDKEFQHLSLEVER 123
                              55555555555555555555555555555444400156788888888888888888888888888888777775 PP

  == domain 3  score: 16.5 bits;  conditional E-value: 2.3e-06
            Tropomyosin_1  52 ekleeklkeakekaeesekkktnnealtrkiqlLEeeleesdkkLkettekLretdvkaeelERkv 117
                              e ++++l+   + ++e +  +++  +++ +++ + ++l  s +++ e + k+r++d++ e  +R+ 
  PHY93_11285|PHY93_11285 183 ESAQNSLSALDNMMSEISGSRAQLGSMSNRMNSVIQNLQVSKENISESNSKIRDADMAREAANRAK 248
                              789999******************************************************999975 PP

>> CHDCT2  CHDCT2 (NUC038) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.0   0.1      0.28   8.4e+02     105     146 ..      50      90 ..       9     112 .. 0.65
   2 ?   13.7   1.1   1.8e-05     0.053     118     167 ..     178     227 ..      96     230 .. 0.76

  Alignments for each domain:
  == domain 1  score: 0.0 bits;  conditional E-value: 0.28
                   CHDCT2 105 eshqkllkesaagnknanavlekvLnqleelLsdmkadvsrl 146
                              e  ++++++ ++ ++n+n+ +  +L+  e  L+ m++  +rl
  PHY93_11285|PHY93_11285  50 EKMKSIIRSNSQAERNTNDSI-SLLQVAEGALNTMQGISTRL 90 
                              444455555555566666554.35555566666666555555 PP

  == domain 2  score: 13.7 bits;  conditional E-value: 1.8e-05
                   CHDCT2 118 nknanavlekvLnqleelLsdmkadvsrlpatlsrlrpvaeRLqmsersi 167
                              n  +++  ++ L+ l++++s++ +  ++l ++ +r+++v + Lq+s+++i
  PHY93_11285|PHY93_11285 178 NVRSKESAQNSLSALDNMMSEISGSRAQLGSMSNRMNSVIQNLQVSKENI 227
                              5567788899*************************************998 PP

>> Reprolysin_3  Metallo-peptidase family M12B Reprolysin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   1.1   0.00011      0.33      17      96 ..     112     189 ..      95     216 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00011
             Reprolysin_3  17 rdlg.irlqlvaiiitdkasdpytkkdatealdelaevtaeaergqagyDlvhlftardesgvgGlAyvgsvcnsskkagv 96 
                              ++++ ++l++ +i   ++ +  +  k++++++d +  v+a ++++q  yD++ ++  +++    G+ +++  +++s + ++
  PHY93_11285|PHY93_11285 112 KEFQhLSLEVERITAATSFNGNNIIKSKESIYDLQIGVNADKNIDQIHYDMGKIMDSSNN---FGISGINVRSKESAQNSL 189
                              666678999999999999999999999**************99**************766...555555555554444333 PP

>> DUF2721  Protein of unknown function (DUF2721)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.0   0.1     0.058   1.7e+02      20      58 ..      81     119 ..      69     131 .. 0.78
   2 ?    7.6   0.5    0.0011       3.3       8      55 ..     199     245 ..     199     260 .. 0.80

  Alignments for each domain:
  == domain 1  score: 2.0 bits;  conditional E-value: 0.058
                  DUF2721  20 nRlariadrirqLedeleelaeeeeedeelakeiknlrr 58 
                              n ++ i  r+r+L+ + ++ + ++ +++ ++ke ++l+ 
  PHY93_11285|PHY93_11285  81 NTMQGISTRLRELSMQASSDTVSDMDRSIIDKEFQHLSL 119
                              67788999******9999999998889999999888765 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0011
                  DUF2721   8 lsaigllllvltnRlariadrirqLedeleelaeeeeedeelakeikn 55 
                              +s+  + l +++nR++++++ ++  +++++e++++ ++ +++a+e +n
  PHY93_11285|PHY93_11285 199 ISGSRAQLGSMSNRMNSVIQNLQVSKENISESNSKIRD-ADMAREAAN 245
                              577778899*****************999988888765.888877553 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (273 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1016  (0.056668); expected 358.6 (0.02)
Passed bias filter:                      340  (0.0189637); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.39
# Mc/sec: 2074.20
//
Query:       PHY93_11290|PHY93_11290  [L=439]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      1e-24   87.2   0.3    1.9e-24   86.3   0.3    1.4  1  HATPase_c        Histidine kinase-, DNA gyrase B-, and HSP90-
    2.3e-12   46.8   0.8    5.6e-12   45.5   0.1    2.0  2  HisKA            His Kinase A (phospho-acceptor) domain
    2.5e-06   27.4   0.0    5.1e-06   26.4   0.0    1.5  1  HATPase_c_3      Histidine kinase-, DNA gyrase B-, and HSP90-
      1e-05   25.5   0.0    2.2e-05   24.4   0.0    1.7  1  PAS              PAS fold
    2.5e-05   24.2   0.0     0.0001   22.2   0.0    2.0  2  PAS_8            PAS domain
    0.00035   20.4   0.1      0.001   18.9   0.1    1.8  1  HATPase_c_5      GHKL domain
    0.00052   20.2   0.0      0.056   13.7   0.0    2.4  2  PAS_4            PAS fold
  ------ inclusion threshold ------
      0.064   13.5   0.1       0.27   11.5   0.1    2.2  1  PAS_9            PAS domain
       0.11   13.2   1.2        1.4    9.6   0.3    2.8  2  PMC2NT           PMC2NT (NUC016) domain
       0.26   11.5   3.3        1.1    9.5   3.5    1.9  2  Toxin_GhoT_OrtT  Toxin GhoT_OrtT


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.3   0.3   1.1e-27   1.9e-24       6     109 ..     335     439 .]     331     439 .] 0.94

  Alignments for each domain:
  == domain 1  score: 86.3 bits;  conditional E-value: 1.1e-27
                              HHHHHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCH.HCSTCHTSTSSSHHHHHHHHHHHHTTT CS
                HATPase_c   6 LrqiisnlvdNavkfatkageieveikaseddlvisveDnGiGipkedlkklfekfsq.ddstkrggggtGlGlsivkklvelmgG 90 
                              ++q++ nl+dN++k+  ++g i+++ + ++++ ++ ++DnG Gip+++++++fe+f + d+s++++ +gtGlGlsivk ++++++G
  PHY93_11290|PHY93_11290 335 FEQVLLNLIDNSLKYIEHNGVITIRSHHEDGWDHLVIKDNGVGIPEDQINRIFERFFRvDSSRSSEIEGTGLGLSIVKHIIQKHDG 420
                              78*************7799999999996669***************************99999999*************9999*** PP

                              EEEEEEETTTEEEEEEEEE CS
                HATPase_c  91 eiwvesepgrGttftftlp 109
                              +i+v+s+  +Gt+ft+++p
  PHY93_11290|PHY93_11290 421 RIKVQSKLLEGTSFTLSFP 439
                              ***************9876 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0       2.3   4.1e+03      17      48 ..      42      70 ..      42      72 .. 0.77
   2 !   45.5   0.1   3.1e-15   5.6e-12       1      66 [.     217     286 ..     217     287 .. 0.95

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 2.3
                             HHHHHHHHHHHHC..T-HSSCHHHHHHHHHHH CS
                    HisKA 17 LsailgnaeaLkregklteelkeyletiesea 48
                             ++ai++n+   kr   +    + +l++i+s+a
  PHY93_11290|PHY93_11290 42 IAAIILNLIYVKR---YALPTRSLLRKIRSSA 70
                             6788888888899...6677788888888876 PP

  == domain 2  score: 45.5 bits;  conditional E-value: 3.1e-15
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHC......T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHHH CS
                    HisKA   1 slgrflagvaHELrtPLsailgnaeaLkre....gklteelkeyletiesearrldhlvedlLdlsriea 66 
                              ++++f+++ +HE rtPL+ + g  + Lk+     ++   + ++y+ +i +++rrl +l +dlL+ls+ e+
  PHY93_11290|PHY93_11290 217 MREDFVSNFSHEVRTPLTILNGQMQNLKEAllkeDNFESRFAQYFVKIDNNTRRLINLFNDLLRLSSVES 286
                              689************************999999988889***************************9986 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.4   0.0   2.8e-09   5.1e-06       3      68 ..     334     402 ..     332     416 .. 0.80

  Alignments for each domain:
  == domain 1  score: 26.4 bits;  conditional E-value: 2.8e-09
              HATPase_c_3   3 l.ekAlaelvdNsldAdaen..vkievnknrgktgeivieDdGkGmseeelknal.rlatsskeakrkst 68 
                              l e++l+ l+dNsl    +n  ++i  ++++   + +vi+D+G G++e+++ + + r+ + + +++++ +
  PHY93_11290|PHY93_11290 334 LfEQVLLNLIDNSLKYIEHNgvITIRSHHED-GWDHLVIKDNGVGIPEDQINRIFeRFFRVDSSRSSEIE 402
                              4499***********8888877999999987.489******************88567777777544433 PP

>> PAS  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.4   0.0   1.2e-08   2.2e-05       2      45 ..     104     147 ..     103     208 .. 0.72

  Alignments for each domain:
  == domain 1  score: 24.4 bits;  conditional E-value: 1.2e-08
                              HHHHHHHHSSSEEEEEETTSBEEEECHHHHHHHSSTHHHCTTSB CS
                      PAS   2 dlraileslpdpifvvDedgrilyvNaaaeellGlsreevlgks 45 
                              +++++l+sl dp+++++++  i+yvN+a+  l+ ++ + +    
  PHY93_11290|PHY93_11290 104 KYKRLLDSLEDPVCILNKNLLIIYVNQAFGALFDFADQKLPFPL 147
                              699******************************99887765555 PP

>> PAS_8  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.2   0.0   5.7e-08    0.0001       2      46 ..     104     144 ..     103     166 .. 0.77
   2 ?   -2.7   0.0       3.7   6.7e+03      26      41 ..     383     396 ..     381     406 .. 0.75

  Alignments for each domain:
  == domain 1  score: 22.2 bits;  conditional E-value: 5.7e-08
                    PAS_8   2 rlralfesspdgiavvdlgdrivdvNqaalellGysadlkgellg 46 
                              +++ l++s+ d++++++ + +i++vNqa+  l+     + +++l 
  PHY93_11290|PHY93_11290 104 KYKRLLDSLEDPVCILNKNLLIIYVNQAFGALFD----FADQKLP 144
                              799*************94458************8....6666665 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 3.7
                    PAS_8  26 vNqaalellGysadlk 41 
                              +N+ +++++ ++  ++
  PHY93_11290|PHY93_11290 383 INRIFERFFRVD--SS 396
                              688899999977..44 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.1   5.7e-07     0.001       9      90 ..     338     427 ..     332     437 .. 0.70

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 5.7e-07
              HATPase_c_5   9 ilgnlLdNAieacskieeekrfIrltvrekkksliisie.Nsyeg...ek........kklesskskkeehGiGlksireivkkyk 82 
                              +l nl+dN++   ++    + +I++  + +++   + i+ N +     ++        +   s++s+ e  G+Gl+ +++i++k++
  PHY93_11290|PHY93_11290 338 VLLNLIDNSLKYIEH----NGVITIRSHHEDGWDHLVIKdNGVGIpedQInriferffRVDSSRSSEIEGTGLGLSIVKHIIQKHD 419
                              677888887765554....679999999999885555551554335453334453233333377899999**************** PP

              HATPase_c_5  83 gnlsieae 90 
                              g ++++ +
  PHY93_11290|PHY93_11290 420 GRIKVQSK 427
                              **998865 PP

>> PAS_4  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.7   0.0   3.1e-05     0.056       1      33 [.     109     141 ..     109     143 .. 0.90
   2 ?    4.2   0.0     0.028        50      73     109 ..     180     212 ..     165     213 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 3.1e-05
                    PAS_4   1 ldslpdalavldpdgrvlyaNaaaaelfgappe 33 
                              ldsl d++++l++++ ++y+N+a+ +lf ++++
  PHY93_11290|PHY93_11290 109 LDSLEDPVCILNKNLLIIYVNQAFGALFDFADQ 141
                              79**********************999877765 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.028
                    PAS_4  73 llpgeerhyelrllPlrdesGevigvlvisrDiTerr 109
                              l ++   +++l ++P+++       +l++++D+Ter+
  PHY93_11290|PHY93_11290 180 LQDPHKTFFDLKVFPVDN----LSNYLCLLHDVTERK 212
                              446777889999999977....7789*********97 PP

>> PAS_9  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   0.00015      0.27       2     104 .]     114     210 ..     113     210 .. 0.70

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00015
                    PAS_9   2 dgilidnpdgrilyaNeaalrllGyspeevlgksitdlf...vtdpeanerlraaleqgrkkerevevvlirkngetfwvlltasp 84 
                              d+++i n++  i+y+N+a+  l+      +  +++   +     + e +e+l+  + q r++ r++ + ++  +  + +++l+++p
  PHY93_11290|PHY93_11290 114 DPVCILNKNLLIIYVNQAFGALFD-----FADQKLPFPLieiTRNLEFQEFLKSSIGQERTSRRSYFTFNQLQDPHKTFFDLKVFP 194
                              78999999**888*********85.....5556655555344445566666666666666566666666666666778889***** PP

                    PAS_9  85 vkdddgelvgiivilrDite 104
                              v    ++l  ++++l+D+te
  PHY93_11290|PHY93_11290 195 V----DNLSNYLCLLHDVTE 210
                              *....345556699***998 PP

>> PMC2NT  PMC2NT (NUC016) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   0.3    0.0008       1.4      17      63 ..     253     298 ..     243     313 .. 0.78
   2 ?    0.6   0.0      0.52   9.3e+02      35      71 ..     338     368 ..     334     373 .. 0.76

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.0008
                   PMC2NT  17 fyrsldpefaksldeqserllslinsllklaaskseisasskleded 63 
                              f + + +++  ++d++++rl++l n+ll+l + +s++  ++++ + +
  PHY93_11290|PHY93_11290 253 FESRF-AQYFVKIDNNTRRLINLFNDLLRLSSVESKKDIIKESVNIE 298
                              66666.6666799**************99999888886664444444 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.52
                   PMC2NT  35 rllslinsllklaaskseisassklededdveekfks 71 
                               ll+li++ lk+++ ++ i     + + +d    ++ 
  PHY93_11290|PHY93_11290 338 VLLNLIDNSLKYIEHNGVITI---RSHHED---GWDH 368
                              699************999944...455555...5665 PP

>> Toxin_GhoT_OrtT  Toxin GhoT_OrtT
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   3.5   0.00062       1.1       1      38 [.       6      43 ..       6      47 .. 0.87
   2 ?   -2.1   0.0       2.6   4.7e+03      22      47 ..     415     439 .]     406     439 .] 0.77

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00062
          Toxin_GhoT_OrtT  1 welilviYaiglvisvlitfflskdpslkirLLsalli 38
                             +  il + ai l++ +litf+l k++s+ i++L   + 
  PHY93_11290|PHY93_11290  6 YRRILFFQAIFLIVLALITFILFKENSKPIQFLIVWIA 43
                             567899999***********************976665 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 2.6
          Toxin_GhoT_OrtT  22 lskdpslkirLLsalliglTWPlSfP 47 
                              + k    +i+  s ll g    lSfP
  PHY93_11290|PHY93_11290 415 IQKH-DGRIKVQSKLLEGTSFTLSFP 439
                              5555.578888899999999999999 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (439 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       968  (0.0539907); expected 358.6 (0.02)
Passed bias filter:                      544  (0.0303419); expected 358.6 (0.02)
Passed Vit filter:                        69  (0.00384851); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.60u 0.23s 00:00:00.83 Elapsed: 00:00:00.41
# Mc/sec: 3242.08
//
Query:       PHY93_11295|PHY93_11295  [L=233]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.9e-21   75.3   0.0      6e-21   74.7   0.0    1.3  1  Response_reg  Response regulator receiver domain
    3.9e-19   68.5   0.0    8.1e-19   67.5   0.0    1.5  1  Trans_reg_C   Transcriptional regulatory protein, C terminal
     0.0026   17.6   0.8        5.2    7.0   0.0    3.2  3  DUF1507       Protein of unknown function (DUF1507)


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.7   0.0     1e-24     6e-21       1     111 [.       6     120 ..       6     121 .. 0.92

  Alignments for each domain:
  == domain 1  score: 74.7 bits;  conditional E-value: 1e-24
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHH...ESEEEEESSCSSSEHHHHHHHHHHCT..TTSEEEEEESST CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeek...vdlillDinmpgmdGlellkeireed..pelpviiltahs 81 
                              ++i++D+  + el+++++ + g+ ++  + dgk+al+++++++    +l ++D ++p ++Gle++k ir  +  +++p+++lta s
  PHY93_11295|PHY93_11295   6 IVIIEDESEISELIQSQIANLGF-TTIPFFDGKKALDYIQSSEsknTQLFIIDRMLPSVNGLEICKFIRFYNttKTTPILMLTALS 90 
                              79*********************.7777899********5554455**********************98777799********** PP

                              SHHHHHHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  82 eeedavealkagaddflsKpfdpeeLlkal 111
                              + e++ve+l+agadd+++Kpfd + L +++
  PHY93_11295|PHY93_11295  91 TPEQIVEGLDAGADDYMTKPFDHAILQARV 120
                              ***********************9999887 PP

>> Trans_reg_C  Transcriptional regulatory protein, C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.5   0.0   1.4e-22   8.1e-19       4      76 ..     161     230 ..     157     231 .. 0.94

  Alignments for each domain:
  == domain 1  score: 67.5 bits;  conditional E-value: 1.4e-22
                              EE-SHHHHHHHHHHHHTTTSEEEHHHHHHHHTTTTSTSHTHHHHHHHHHHHHHHHTTTTSSSSEEEETTTEEE CS
              Trans_reg_C   4 veltpkefklLelLlenpgrvvsreeLleevwgededvddrtvdvhisrLRkkLeddekkprlIetvrgvGYr 76 
                              +elt  e+k+L ++l +pg+v++r++L+e++ +   +v+drt+d+hi  LRkkL++ +   + Iet+rg+GYr
  PHY93_11295|PHY93_11295 161 LELTLSEYKILCCFLLSPGKVLTRNQLVEYIQDGPVHVTDRTIDTHIFGLRKKLGEYA---SIIETIRGIGYR 230
                              799*****************************************************43...6**********9 PP

>> DUF1507  Protein of unknown function (DUF1507)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.0   0.0   0.00087       5.2      10      37 ..       8      35 ..       2      41 .. 0.88
   2 ?    1.4   0.2     0.048   2.9e+02       8      32 ..     143     167 ..     129     172 .. 0.70
   3 !    5.8   0.0    0.0021        12      38      58 ..     201     222 ..     184     228 .. 0.80

  Alignments for each domain:
  == domain 1  score: 7.0 bits;  conditional E-value: 0.00087
                             HHHHHHHHHHHHHHHHT--HHHHHHHHH CS
                  DUF1507 10 LkedadkikkLikvqmdnLtlsqCplyE 37
                             + ed + i +Li++q  nL  +  p ++
  PHY93_11295|PHY93_11295  8 IIEDESEISELIQSQIANLGFTTIPFFD 35
                             5689999************999999885 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.048
                              HHHHHHHHHHHHHHHHHHT--HHHH CS
                  DUF1507   8 elLkedadkikkLikvqmdnLtlsq 32 
                              + L  d d+ k  i++q  +Ltls+
  PHY93_11295|PHY93_11295 143 KELVLDMDQCKVWIDNQILELTLSE 167
                              4455677777777777777777776 PP

  == domain 3  score: 5.8 bits;  conditional E-value: 0.0021
                              HHHHHHHHHHHHHH.HHHHHTT CS
                  DUF1507  38 evlDtqmyGlsrev.dfavrlg 58 
                                +Dt+++Gl +++ ++a  ++
  PHY93_11295|PHY93_11295 201 RTIDTHIFGLRKKLgEYASIIE 222
                              579********99745766555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (233 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       438  (0.0244297); expected 358.6 (0.02)
Passed bias filter:                      360  (0.0200792); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.39
# Mc/sec: 1792.26
//
Query:       PHY93_11300|PHY93_11300  [L=209]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-33  115.3  13.5    1.6e-19   70.2   3.6    2.1  2  PhoU      PhoU domain
  ------ inclusion threshold ------
      0.092   11.2   3.6      0.047   12.2   0.9    1.7  2  S6OS1     Six6 opposite strand transcript 1 family
       0.22   11.9   2.1       0.55   10.6   1.5    2.2  2  DUF2935   Domain of unknown function (DUF2935)


Domain annotation for each model (and alignments):
>> PhoU  PhoU domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.9   2.3   2.7e-17   1.6e-13       4      85 ..       8      91 ..       6      94 .. 0.87
   2 !   70.2   3.6   2.6e-23   1.6e-19       1      88 [.     105     189 ..     105     190 .. 0.93

  Alignments for each domain:
  == domain 1  score: 50.9 bits;  conditional E-value: 2.7e-17
                             HHHHHHHHHHHHHHHHHCT.-H.HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGG-SHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     PhoU  4 maeiveemlddalealeek.dt.elarevierddeidrlekeiersllealakrqplaedlrellsllriardlERigDhavni 85
                             + + v++m +++  +l+   +  +  +e+ e++++i++++++i++++++ +a ++p a+dlr+++++++i  dlER+gD+a +i
  PHY93_11300|PHY93_11300  8 LRDHVLKMASLVEASLSGAlNLdKSMEEIFELERKINEFHMLIDDACFKYIALKSPAAKDLRTAIAVMKINADLERMGDQALKI 91
                             56778888888888887665541566*******************************************************998 PP

  == domain 2  score: 70.2 bits;  conditional E-value: 2.6e-23
                              HHHHHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGG-SHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     PhoU   1 lrrmaeiveemlddalealeekdtelarevierddeidrlekeiersllealakrqplaedlrellsllriardlERigDhavnia 86 
                              ++ ma  v+ m+++al+++++ + +la +vie d+ei+ l ++i r++++ ++ +++++   +e  ++++i+++lERigDha+nia
  PHY93_11300|PHY93_11300 105 IKNMALEVNIMVKNALDSFVRSNIKLATDVIEYDQEINLLNQNIVRHHVNQIK-NNEMG--FDEGYNIIKISKNLERIGDHAKNIA 187
                              578*************************************************5.46664..7999********************* PP

                              HH CS
                     PhoU  87 er 88 
                              e 
  PHY93_11300|PHY93_11300 188 ED 189
                              97 PP

>> S6OS1  Six6 opposite strand transcript 1 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.1     0.078   4.7e+02     165     194 ..      12      47 ..       8      56 .. 0.58
   2 ?   12.2   0.9   7.9e-06     0.047     145     228 ..      95     180 ..      76     191 .. 0.80

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.078
                    S6OS1 165 iLklAetltkk...slelkkeade...lEikinylk 194
                              +Lk+A+ +  +   +l+l+k ++e   lE+kin ++
  PHY93_11300|PHY93_11300  12 VLKMASLVEASlsgALNLDKSMEEifeLERKINEFH 47 
                              666665554322115667776664211688888776 PP

  == domain 2  score: 12.2 bits;  conditional E-value: 7.9e-06
                    S6OS1 145 FkslskWaLyivnlRlktediLklA.etltkkslelkkeadelEikinylkkqiarlles..knlsevleeknkelekrkelkeri 227
                              + s+ +  L+i n+ l  + ++k A ++++++ ++l  ++ e + +in l+++i r  ++  kn+    +e  + +   k+l eri
  PHY93_11300|PHY93_11300  95 YMSIGREILQIKNMALEVNIMVKNAlDSFVRSNIKLATDVIEYDQEINLLNQNIVRHHVNqiKNNEMGFDEGYNIIKISKNL-ERI 179
                              667788889**************9967999************************9976651156666677776666666666.566 PP

                    S6OS1 228 f 228
                               
  PHY93_11300|PHY93_11300 180 G 180
                              5 PP

>> DUF2935  Domain of unknown function (DUF2935)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   1.5   9.2e-05      0.55      31      89 ..      83     141 ..       6     155 .. 0.94
   2 ?   -0.3   0.0      0.22   1.3e+03       6      39 ..     141     176 ..     139     197 .. 0.59

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 9.2e-05
                  DUF2935  31 dlikeakefkkeFekllaeavelseglvrasseleeavakLneealkltreliqFkkel 89 
                              ++ ++a ++k+++  + +e  +++++ + ++ + ++a+ ++ +  +kl++ +i++ +e+
  PHY93_11300|PHY93_11300  83 RMGDQALKIKRQYMSIGREILQIKNMALEVNIMVKNALDSFVRSNIKLATDVIEYDQEI 141
                              5668999************************************************9997 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.22
                  DUF2935   6 ehlFWlrimkeHalfi...ealldpkekdlikeakef 39 
                              ++l+ ++i+++H   i   e ++d+   ++ik++k++
  PHY93_11300|PHY93_11300 141 INLLNQNIVRHHVNQIknnEMGFDEG-YNIIKISKNL 176
                              56667778888888884333333332.3555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (209 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       932  (0.0519828); expected 358.6 (0.02)
Passed bias filter:                      425  (0.0237046); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.43
# Mc/sec: 1450.83
//
Query:       PHY93_05535|PHY93_05535  [L=107]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (107 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       316  (0.0176251); expected 358.6 (0.02)
Passed bias filter:                      256  (0.0142785); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.18s 00:00:00.57 Elapsed: 00:00:00.35
# Mc/sec: 903.43
//
Query:       PHY93_11305|PHY93_11305  [L=252]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.2e-31  110.1   0.0    1.6e-31  109.6   0.0    1.2  1  ABC_tran     ABC transporter
    6.1e-11   42.7   0.0    4.9e-06   26.6   0.0    2.1  2  AAA_21       AAA domain, putative AbiEii toxin, Type IV TA sy
    1.8e-09   37.4   0.1    3.3e-08   33.3   0.1    2.0  1  SMC_N        RecF/RecN/SMC N terminal domain
      7e-05   23.1   0.0    0.00016   22.0   0.0    1.7  1  AAA_22       AAA domain
    0.00032   20.7   0.0    0.00052   20.0   0.0    1.4  1  Rad17        Rad17 P-loop domain
     0.0006   19.6   0.2       0.01   15.6   0.0    2.1  2  AAA_30       AAA domain
    0.00073   20.0   0.1     0.0031   17.9   0.0    2.1  2  AAA_16       AAA ATPase domain
      0.001   19.6   0.1     0.0023   18.5   0.0    1.6  2  AAA_23       AAA domain
     0.0032   17.2   0.0     0.0064   16.2   0.0    1.5  1  AAA_29       P-loop containing region of AAA domain
     0.0043   17.0   0.0      0.012   15.5   0.0    1.7  2  RsgA_GTPase  RsgA GTPase
     0.0079   15.0   0.1        2.5    6.8   0.0    2.1  2  ABC_ATPase   Predicted ATPase of the ABC class
  ------ inclusion threshold ------
      0.013   15.3   0.0      0.019   14.7   0.0    1.4  1  AAA_15       AAA ATPase domain
       0.02   14.8   0.8        0.2   11.5   0.8    2.1  1  ATPase_2     ATPase domain predominantly from Archaea
      0.031   13.1   0.0       0.37    9.5   0.0    2.0  2  Adeno_IVa2   Adenovirus IVa2 protein
       0.04   13.7   0.0      0.069   12.9   0.0    1.4  1  PRK          Phosphoribulokinase / Uridine kinase family
      0.052   13.8   0.2       0.13   12.5   0.2    1.6  1  AAA_28       AAA domain
      0.087   13.2   0.3       0.53   10.6   0.1    2.0  2  AAA_19       AAA domain
        0.1   13.1   0.1        6.8    7.1   0.0    2.4  2  AAA          ATPase family associated with various cellular a


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  109.6   0.0   1.6e-34   1.6e-31       2     137 .]      23     179 ..      22     179 .. 0.92

  Alignments for each domain:
  == domain 1  score: 109.6 bits;  conditional E-value: 1.6e-34
                              EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--.....SEEEEEETTCEGGG..B-HHHCCHCEEEE-SS--S-TTSBHHHH. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....xxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxx. RF
                 ABC_tran   2 knvslklkegekvaivGenGaGKStLlkllagllkp.....teGeilldgkdlke..qeleslrkeigvlpqepqlfpeltvren. 79 
                              k +s++  e +++ai+G++G+GKSt l++l + ++        Ge+ll+gk++ +  ++   +rk+ig+++q+p+ fp l++ +n 
  PHY93_11305|PHY93_11305  23 KGISVQYTERTITAIIGPSGCGKSTYLRCLNRIHEEiegtkVTGEVLLEGKNIYDkkIDVVDVRKRIGMVFQKPNPFPSLSILDNv 108
                              789999***************************99966655667789*****9998899999************************ PP

                              .............HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              .............xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 .............esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                                           +  e +e+ l+k  l e  +++++s ++sLSgGq+qr+++aral+ +p++ll+DEpt+
  PHY93_11305|PHY93_11305 109 viglrlqgitkrsTLMEVAETCLKKAALWEEVKDKLNSLGTSLSGGQQQRLCIARALAINPPVLLMDEPTS 179
                              *******98766555555***************************************************96 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.3   0.0   2.7e-05     0.027       1      24 [.      34      57 ..      34      92 .. 0.75
   2 !   26.6   0.0   4.9e-09   4.9e-06     236     298 ..     150     208 ..     133     210 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 2.7e-05
                   AAA_21  1 lnvliGpNgsGKSnLLdaldllar 24
                             ++++iGp g+GKS+ L++l  ++ 
  PHY93_11305|PHY93_11305 34 ITAIIGPSGCGKSTYLRCLNRIHE 57
                             79*****************88743 PP

  == domain 2  score: 26.6 bits;  conditional E-value: 4.9e-09
                   AAA_21 236 elSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQviltTHS 298
                              +lS G+++ l+++ al+  +   ++ll DEp + L+P +++++ el++e +r +  vi++TH+
  PHY93_11305|PHY93_11305 150 SLSGGQQQRLCIARALAINP---PVLLMDEPTSALDPIATAKIEELMDEIKR-DYTVIIVTHN 208
                              57999999989999999888...**************999999999988888.999******8 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.3   0.1   3.3e-11   3.3e-08      21     206 ..      29     216 ..      16     229 .. 0.76

  Alignments for each domain:
  == domain 1  score: 33.3 bits;  conditional E-value: 3.3e-11
                              ETTSSEEEEEESTTSSHHHHHHHHHHHCTT.TTTTTTCHCC..CCCC--BTTCSSTTEEEEEEEEEETTEE...SSSSSSCEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxx RF
                    SMC_N  21 pfsksftaivGpNGSGKsnlldAilFvLGersakklrsekl..sdlihkskekasvkkaeveitfdnedkk...lkiekeevsisr 101
                                ++ +tai+Gp G+GKs  l  +  +  e + +k+  e l   + i+ +k      + ++ ++f++++     +  ++  + ++ 
  PHY93_11305|PHY93_11305  29 YTERTITAIIGPSGCGKSTYLRCLNRIHEEIEGTKVTGEVLleGKNIYDKKIDVVDVRKRIGMVFQKPNPFpslSILDNVVIGLRL 114
                              457789*****************977777777777766655222345544555555567899999999988654445555567777 PP

                              EEETTSEEEEEETTEEE-HHHHHHHHHCT.T-STTCS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 102 rvkrkgeseykingkevtkkevsellesa.giskelLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkek 186
                              + ++k ++ +++ ++  +k+ + e ++++ +   ++LSgG+++ + +a  +Ai+     p+ l+De  +aLD   ++k+ el++e 
  PHY93_11305|PHY93_11305 115 QGITKRSTLMEVAETCLKKAALWEEVKDKlNSLGTSLSGGQQQRLCIARALAIN----PPVLLMDEPTSALDPIATAKIEELMDEI 196
                              788888888999888888877666665541334568*******99999999996....59************************** PP

                              CTTSEEEEE-SSHHHCCC-S CS
                              xxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 187 sknaQfivislreemlekad 206
                              + +  +i+++++ ++ ++ +
  PHY93_11305|PHY93_11305 197 KRDYTVIIVTHNMQQAARIS 216
                              ***********998877665 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.0   0.0   1.6e-07   0.00016       4      89 ..      31     147 ..      28     211 .. 0.69

  Alignments for each domain:
  == domain 1  score: 22.0 bits;  conditional E-value: 1.6e-07
                   AAA_22   4 tagilvvtGesGtGKTtllrrlleqldeeakaee......................erpevvfvtlpsstsskdllrellralgle 67 
                              +++i++++G+sG+GK+t lr l + ++ e++ ++                      +++  + ++ p++  s ++l +++  l l+
  PHY93_11305|PHY93_11305  31 ERTITAIIGPSGCGKSTYLRCLNRIHE-EIEGTKvtgevllegkniydkkidvvdvRKRIGMVFQKPNPFPSLSILDNVVIGLRLQ 115
                              689*******************99974.4454447888888888888866666655444444666777777777777777777777 PP

                   AAA_22  68 lka..........erlsseellealeqalrar 89 
                              + +            l++ +l+e + + l++ 
  PHY93_11305|PHY93_11305 116 GITkrstlmevaeTCLKKAALWEEVKDKLNSL 147
                              76655666655554444444445555555554 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.0   0.0   5.2e-07   0.00052      39      70 ..      26      57 ..      18     102 .. 0.81

  Alignments for each domain:
  == domain 1  score: 20.0 bits;  conditional E-value: 5.2e-07
                    Rad17 39 vLesrkkriLLisGPsGCgkstvvkvLskelg 70
                             +++  ++ i  i GPsGCgkst ++ L +++ 
  PHY93_11305|PHY93_11305 26 SVQYTERTITAIIGPSGCGKSTYLRCLNRIHE 57
                             55566677999*****************9985 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0     1e-05      0.01      16      51 ..      30      66 ..      20      69 .. 0.87
   2 ?    2.0   0.0      0.14   1.4e+02      90     129 ..     170     212 ..     121     219 .. 0.76

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 1e-05
                   AAA_30 16 sgdrvavltGpAGtGKttalkalreaweaa.ggrvig 51
                             +++ ++++ Gp G GK+t l+ l++++e+  g +v g
  PHY93_11305|PHY93_11305 30 TERTITAIIGPSGCGKSTYLRCLNRIHEEIeGTKVTG 66
                             466799**********************987888865 PP

  == domain 2  score: 2.0 bits;  conditional E-value: 0.14
                   AAA_30  90 tllivDEagmv....dtkqlaallkaaekagakvilvGDerQla 129
                               +l+ DE   +    +t+++++l++++++ + +vi+v  + Q a
  PHY93_11305|PHY93_11305 170 PVLLMDEPTSAldpiATAKIEELMDEIKR-DYTVIIVTHNMQQA 212
                              56777776666666689999999999988.88888887777765 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.0   3.1e-06    0.0031      25      51 ..      33      58 ..      20     205 .. 0.80
   2 ?   -0.5   0.0       1.4   1.4e+03      39      64 ..     187     213 ..     185     247 .. 0.58

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 3.1e-06
                   AAA_16 25 elvllsGesGvGKsslvrellralekd 51
                              ++ ++G+sG+GKs+ +r+l  ++ ++
  PHY93_11305|PHY93_11305 33 TITAIIGPSGCGKSTYLRCLN-RIHEE 58
                             6889*************9999.56666 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 1.4
                   AAA_16  39 slvrellralekdggif.lrgkcdqle 64 
                              + ++el++++++d+ +  ++ + +q  
  PHY93_11305|PHY93_11305 187 AKIEELMDEIKRDYTVIiVTHNMQQAA 213
                              557888889999974441444444442 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.5   0.0   2.3e-06    0.0023      18      40 ..      31      53 ..      14      89 .. 0.87
   2 ?   -2.0   0.0       4.4   4.4e+03     162     162 ..     151     151 ..     109     219 .. 0.59

  Alignments for each domain:
  == domain 1  score: 18.5 bits;  conditional E-value: 2.3e-06
                   AAA_23 18 skgltlItGpNGaGKTTildAik 40
                             ++ +t+I+Gp G+GK+T l+++ 
  PHY93_11305|PHY93_11305 31 ERTITAIIGPSGCGKSTYLRCLN 53
                             7789*****************96 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 4.4
                   AAA_23 162 l 162
                              l
  PHY93_11305|PHY93_11305 151 L 151
                              1 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0   6.4e-06    0.0064      15      39 ..      23      49 ..      13      55 .. 0.73

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 6.4e-06
                   AAA_29 15 htieidlkg..atlltGpsGsGKSTll 39
                             + i+++  +  +t ++GpsG GKST l
  PHY93_11305|PHY93_11305 23 KGISVQYTErtITAIIGPSGCGKSTYL 49
                             444444444449*************76 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   1.2e-05     0.012      96     124 ..      29      58 ..       8      76 .. 0.75
   2 ?   -2.4   0.0       3.9   3.9e+03      65      81 ..     189     204 ..     158     218 .. 0.58

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.2e-05
                              HCTTSEEEEECSTTSSHHHHHHHHCT.T-- CS
              RsgA_GTPase  96 llkdktsvlvGqSGvGKStLinallp.ele 124
                              + +  +++++G+SG GKSt +  l+  ++e
  PHY93_11305|PHY93_11305  29 YTERTITAIIGPSGCGKSTYLRCLNRiHEE 58 
                              4455899************99888764333 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 3.9
                              HHHHHHHHHHTTSEEEE CS
              RsgA_GTPase  65 leelkeelealgyevll 81 
                              +eel++e+++ +y+v++
  PHY93_11305|PHY93_11305 189 IEELMDEIKR-DYTVII 204
                              3333333322.234433 PP

>> ABC_ATPase  Predicted ATPase of the ABC class
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.8   0.0    0.0025       2.5     236     266 ..      21      54 ..      16      61 .. 0.81
   2 !    6.2   0.0    0.0037       3.7     324     369 ..     152     196 ..     141     231 .. 0.72

  Alignments for each domain:
  == domain 1  score: 6.8 bits;  conditional E-value: 0.0025
                              EEEEEEE-...SSEEEEEE-TTSSHHHHHHHHHH CS
               ABC_ATPase 236 kvsGmgip...kGvtlIvGggfhGKsTLLeAlek 266
                              +v+G+ ++   + +t+I+G+   GKsT L+ l++
  PHY93_11305|PHY93_11305  21 AVKGISVQyteRTITAIIGPSGCGKSTYLRCLNR 54 
                              5777777533266*****************9975 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.0037
                              -HHHHHHHHHHHHHHTT-SEEEEEGGGS-HHHH---HHHHHHS-GG CS
               ABC_ATPase 324 SGStsqAanimealeagakllLiDEDtsAtNlmirDermqelvske 369
                              SG   q   i++al ++ ++lL+DE tsA   +   + ++el+ + 
  PHY93_11305|PHY93_11305 152 SGGQQQRLCIARALAINPPVLLMDEPTSALDPIA-TAKIEELMDEI 196
                              899999999********************88766.45556666544 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.0   1.9e-05     0.019      16      84 ..      24     148 ..      17     249 .. 0.58

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1.9e-05
                   AAA_15  16 dveidlsee.ltvliGkNnsGKSsilealdlFlnnkekkn.kkvikiekedleifeniseskdikIdvef................ 83 
                               ++++  e  +t +iG+ ++GKS+ l+ l+ + ++ e  +   ++ +e +++ +++ +  + + +I + f                
  PHY93_11305|PHY93_11305  24 GISVQYTERtITAIIGPSGCGKSTYLRCLNRIHEEIEGTKvTGEVLLEGKNIYDKKIDVVDVRKRIGMVFqkpnpfpslsildnvv 109
                              55555555569******************998887755556444455555555555555555555555555555555555555556 PP

                   AAA_15  84 ......................................a 84 
                                                                     
  PHY93_11305|PHY93_11305 110 iglrlqgitkrstlmevaetclkkaalweevkdklnslG 148
                              666555555555555555555555555555555555550 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.8    0.0002       0.2      18      49 ..      30      61 ..      22     226 .. 0.60

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.0002
                 ATPase_2 18 epneiyfiYGpegsGKtaLlkeiienledkdk 49
                             ++++i  i Gp g+GK++ l+ +   +e+ + 
  PHY93_11305|PHY93_11305 30 TERTITAIIGPSGCGKSTYLRCLNRIHEEIEG 61
                             5689999***********99876655554443 PP

>> Adeno_IVa2  Adenovirus IVa2 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.0   0.00037      0.37      83     107 ..      29      52 ..      14      59 .. 0.81
   2 ?    1.3   0.0      0.12   1.2e+02     234     254 ..     198     217 ..     174     239 .. 0.73

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00037
               Adeno_IVa2  83 yglqPviGviyGPtGsGksqllrnl 107
                              y  +  i  i GP G+Gks  lr l
  PHY93_11305|PHY93_11305  29 YTER-TITAIIGPSGCGKSTYLRCL 52 
                              4444.567788************87 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.12
               Adeno_IVa2 234 tgfsvlvvlhnlnPrsdiagn 254
                                ++v++v hn++  + i ++
  PHY93_11305|PHY93_11305 198 RDYTVIIVTHNMQQAARI-SD 217
                              5799********987777.44 PP

>> PRK  Phosphoribulokinase / Uridine kinase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   6.9e-05     0.069       2      47 ..      35      78 ..      34      99 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 6.9e-05
                      PRK  2 IgvagsSGaGkttvarklekifgrekvkaaeiegdsflrldraekd 47
                              ++ g+SG+Gk+t  r l+ i +  +++ ++++g ++l+ ++++++
  PHY93_11305|PHY93_11305 35 TAIIGPSGCGKSTYLRCLNRIHE--EIEGTKVTGEVLLEGKNIYDK 78
                             5899************9999877..566667778777776666543 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.2   0.00013      0.13       3      30 ..      36      68 ..      34      73 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 0.00013
                   AAA_28  3 vitGgestGKTtlleaLaar.....gypvvpEa 30
                             +i+G++++GK+t l+ L++      g++v  E+
  PHY93_11305|PHY93_11305 36 AIIGPSGCGKSTYLRCLNRIheeieGTKVTGEV 68
                             79************9999533557788888776 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.1   0.00053      0.53       6      42 ..      28      64 ..      23      76 .. 0.85
   2 ?    0.5   0.0      0.67   6.7e+02      29      62 ..     187     219 ..     119     245 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00053
                   AAA_19  6 ealkekvllvtaGpGtGKTrvlkhivallvelggvkp 42
                             +++++++ +++++ G+GK++ l++  ++ +e++g k+
  PHY93_11305|PHY93_11305 28 QYTERTITAIIGPSGCGKSTYLRCLNRIHEEIEGTKV 64
                             56788999****************9999999887765 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.67
                   AAA_19  29 hivallvelggvkpeeillvaftgrAakelrerl 62 
                              +++++l ++ +++  ++++v+ + + a ++++ +
  PHY93_11305|PHY93_11305 187 AKIEELMDEIKRD-YTVIIVTHNMQQAARISDYT 219
                              4455555555444.67777888877777777766 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.1   0.0    0.0068       6.8       3      20 ..      37      54 ..      35     108 .. 0.75
   2 ?    3.8   0.0     0.071        71      45     113 ..     156     210 ..     115     215 .. 0.67

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.0068
                             EESSTTSSHHHHHHHHHH CS
                      AAA  3 lyGppGtGKTllakavak 20
                             ++Gp G+GK++  + + +
  PHY93_11305|PHY93_11305 37 IIGPSGCGKSTYLRCLNR 54
                             68*********9887655 PP

  == domain 2  score: 3.8 bits;  conditional E-value: 0.071
                              HHHHHHHHHHHTS.TSEEEEEETGGGHHHHHTTCCCHHHHHHHHHHHHHHHHTTTSSSTEEEEEEESSGG CS
                      AAA  45 kirelfkeakeka.kpsilfiDEidalaksrsgseseeeervvnqLlteldgvkkkeskvivigatnrpd 113
                              + r ++++a   a +p +l++DE  +               + +++ + +d+ k+   + +vi++t++++
  PHY93_11305|PHY93_11305 156 QQRLCIARA--LAiNPPVLLMDEPTSALDPI----------ATAKIEELMDEIKR---DYTVIIVTHNMQ 210
                              444445444..44559999999966655544..........35555556666666...366777777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (252 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       665  (0.0370907); expected 358.6 (0.02)
Passed bias filter:                      601  (0.0335211); expected 358.6 (0.02)
Passed Vit filter:                       102  (0.00568911); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              18  [number of targets reported over threshold]
# CPU time: 0.56u 0.27s 00:00:00.83 Elapsed: 00:00:00.44
# Mc/sec: 1730.64
//
Query:       PHY93_11310|PHY93_11310  [L=284]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.9e-22   78.1  23.7    8.1e-22   77.9  13.1    2.1  2  BPD_transp_1  Binding-protein-dependent transport system inne
  ------ inclusion threshold ------
      0.069   13.5   0.0      0.069   13.5   0.0    3.8  5  Sigma_reg_N   Sigma factor regulator N-terminal


Domain annotation for each model (and alignments):
>> BPD_transp_1  Binding-protein-dependent transport system inner membrane component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.0   3.1   0.00099       8.8      14      65 ..      11      83 ..       4      89 .. 0.81
   2 !   77.9  13.1     9e-26   8.1e-22       1     181 [.      89     278 ..      85     282 .. 0.88

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.00099
             BPD_transp_1 14 kkldkllrpliivllslPsfv.laillvlvf....................vilsilghlilpviillllsaa 65
                             + +++ l ++ ivl+++ ++v l++++ +vf                     i ++ +h+il+ i ++ll+a+
  PHY93_11310|PHY93_11310 11 RAIKNRLFTILIVLSAVAVLVpLFMVIRYVFvqgasslnlsfftelpkpvgEIGGGMKHAILGTIYIVLLGAL 83
                             66788899999999999999999999999999********9999**999997778888888886655555544 PP

  == domain 2  score: 77.9 bits;  conditional E-value: 9e-26
             BPD_transp_1   1 gillGilaalnrnkkldkllrpliivllslPsfvlaillvlvfvilsilg.hlilpviillllsaapyvrlirraalrslpkdlve 85 
                              g++ Gi++  +r++kl+k lr  +++++++Ps+v++i+ +l++v+   l+ +++l++ ++l + ++p+++ + +++l+ +p+  +e
  PHY93_11310|PHY93_11310  89 GVTCGIYLNEFRKSKLSKTLRLTVDLMSGIPSIVIGIFAYLMVVVP--LKsFSALAGGVALSIIMLPIIIKTSEEILKLVPDHIRE 172
                              566777777*****************************88875444..554778889999999999******************** PP

             BPD_transp_1  86 aaralGasrwqifrkvvlPnalppiitglilafggllggavlleflgswpGlgtllleailgydyseis..............ngg 157
                              a +alG++rw+++  ++l+ +++ ++tg+ila+ ++ g+++ l+f++    +g++ l++++  +++                    
  PHY93_11310|PHY93_11310 173 AGLALGLPRWKVILFIILKGSISNLLTGIILAISRAAGETAPLLFTA----FGNMYLSFNMKEPMATLPvqiytyaispfkdwQRQ 254
                              ***********************************************....***************888**************666 PP

             BPD_transp_1 158 vlalviavlllnlvadilqrlldp 181
                              ++a+++++++l+l+++i++r++  
  PHY93_11310|PHY93_11310 255 AWAGAFVLMILILSMNIFARYVLT 278
                              777777777777777777776655 PP

>> Sigma_reg_N  Sigma factor regulator N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   1.4     0.002        18      10      41 ..      14      46 ..      10      56 .. 0.76
   2 ?   13.5   0.0   7.7e-06     0.069      10      57 ..      69     116 ..      66     117 .. 0.94
   3 ?   -2.9   0.1      0.97   8.7e+03      21      34 ..     146     159 ..     144     170 .. 0.71
   4 ?   -3.8   0.9       1.8   1.7e+04       9      26 ..     182     199 ..     181     207 .. 0.49
   5 ?   -0.3   0.3      0.15   1.4e+03      22      42 ..     260     281 ..     259     284 .] 0.65

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.002
              Sigma_reg_N 10 ksilrivlislivlllifvil.vvtllylaeke 41
                             k++l ++li+l+++ ++++++ v+ + +++  +
  PHY93_11310|PHY93_11310 14 KNRLFTILIVLSAVAVLVPLFmVIRYVFVQGAS 46
                             789999*********999999777777765444 PP

  == domain 2  score: 13.5 bits;  conditional E-value: 7.7e-06
              Sigma_reg_N  10 ksilrivlislivlllifvilvvtllylaekegnklrevlelaveits 57 
                               +il ++ i+l+ +l+ ++i v  + yl+e +++kl ++l+l+v+++s
  PHY93_11310|PHY93_11310  69 HAILGTIYIVLLGALIAVPIGVTCGIYLNEFRKSKLSKTLRLTVDLMS 116
                              68999***************************************9885 PP

  == domain 3  score: -2.9 bits;  conditional E-value: 0.97
              Sigma_reg_N  21 ivlllifvilvvtl 34 
                              ++ +++++i+++t 
  PHY93_11310|PHY93_11310 146 ALSIIMLPIIIKTS 159
                              55677777777664 PP

  == domain 4  score: -3.8 bits;  conditional E-value: 1.8
              Sigma_reg_N   9 rksilrivlislivllli 26 
                              +k il i+l   i+ ll 
  PHY93_11310|PHY93_11310 182 WKVILFIILKGSISNLLT 199
                              666665555444444444 PP

  == domain 5  score: -0.3 bits;  conditional E-value: 0.15
              Sigma_reg_N  22 vlllifvil.vvtllylaekeg 42 
                              ++l+i++++  + ++y+++k +
  PHY93_11310|PHY93_11310 260 FVLMILILSmNIFARYVLTKIK 281
                              6777777776677777766654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (284 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       777  (0.0433376); expected 358.6 (0.02)
Passed bias filter:                      325  (0.0181271); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.41
# Mc/sec: 2102.47
//
Query:       PHY93_11315|PHY93_11315  [L=303]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.2e-13   48.9  16.9    6.2e-13   48.9  16.9    2.2  2  BPD_transp_1  Binding-protein-dependent transport system inne


Domain annotation for each model (and alignments):
>> BPD_transp_1  Binding-protein-dependent transport system inner membrane component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7  13.1      0.23     4e+03      23      67 ..      13      91 ..       2      97 .. 0.82
   2 !   48.9  16.9   3.5e-17   6.2e-13       5     180 ..      87     298 ..      83     303 .] 0.79

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 0.23
             BPD_transp_1 23 liivllslPsfvlaillvlvf..................................vilsilghlilpviillllsaapy 67
                             l+++l+ +  +v+++ll+ +f                                  +i++ l +++++v+i++ +s+++ 
  PHY93_11315|PHY93_11315 13 LFYILRFISLLVIGLLLFIIFvlfkaawpsikqnglnfifktewnpvedqygalpFIFGTLVTSFIAVLIAAPVSILAA 91
                             5677799999999999998889999*****************9999999999888888888888888888888887765 PP

  == domain 2  score: 48.9 bits;  conditional E-value: 3.5e-17
             BPD_transp_1   5 Gilaa....lnrnkkldkllrpliivllslPsfvlaillvlvf.....................vilsilghlilpviillllsaa 65 
                              +ilaa     +  k ++++++ l++++ ++Ps+v+++  ++ +                     ++  ++g +il + ++l ++++
  PHY93_11315|PHY93_11315  87 SILAAlfitEYLPKSVSHIISLLVEMVAAIPSIVFGLWGIFYLspfvkstlapflksyfgylpfFNGPSFGIGILTASLVLSIMIV 172
                              555555555999**********************7777665556778888888888888****999999***************** PP

             BPD_transp_1  66 pyvrlirraalrslpkdlveaaralGasrwqifrkvvlPnalppiitglilafggllggavlleflgswpG.......lgtlllea 144
                              p++  i+r++++ +p+ ++ea++alG ++ ++++  vl  +++ i + ++l +g++lg+++++ +l+++++           ++ +
  PHY93_11315|PHY93_11315 173 PTISSICRSIFELIPQHQKEASYALGSTKYEMIKMAVLSPSASGISSAVVLGLGRALGETMAVTMLIGNSPiisksifAPAATMAS 258
                              *******************************************************************8887766555533333333 PP

             BPD_transp_1 145 ilgydyseis........nggvlalviavlllnlvadilqrlld 180
                               +++     +        ++++  l+++++l++++++i+++ + 
  PHY93_11315|PHY93_11315 259 VMANE----YtdassplhVASLCYLALLLFLITFLSNIFAKSIV 298
                              34444....14554666655666666666666666666655554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (303 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       992  (0.0553294); expected 358.6 (0.02)
Passed bias filter:                      376  (0.0209716); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.20s 00:00:00.75 Elapsed: 00:00:00.38
# Mc/sec: 2371.05
//
Query:       PHY93_11320|PHY93_11320  [L=70]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (70 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       254  (0.014167); expected 358.6 (0.02)
Passed bias filter:                      245  (0.013665); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.35u 0.19s 00:00:00.54 Elapsed: 00:00:00.34
# Mc/sec: 612.86
//
Query:       PHY93_11325|PHY93_11325  [L=333]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (333 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       598  (0.0333538); expected 358.6 (0.02)
Passed bias filter:                      434  (0.0242066); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.22s 00:00:00.75 Elapsed: 00:00:00.42
# Mc/sec: 2374.49
//
Query:       PHY93_11330|PHY93_11330  [L=314]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.083   12.6   0.0       0.16   11.7   0.0    1.5  1  GGDEF     Diguanylate cyclase, GGDEF domain


Domain annotation for each model (and alignments):
>> GGDEF  Diguanylate cyclase, GGDEF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   8.8e-06      0.16      41      90 ..     223     272 ..     189     309 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 8.8e-06
                              TTHHHHHHHH-HHHHHHHHHHHHHHHHCCS-TTSEEEEESSSEEEEEEEC CS
                    GGDEF  41 dnFkkindtyGhsvGDevLqevakrLssslrksdlvaRlggdeFaillpe 90 
                              d Fkk+ ++    +GD +L ++ +r+ ++  +   + R +++eF+i    
  PHY93_11330|PHY93_11330 223 DAFKKLDEHQNILAGDYLLFKIESRIINFYGNMNNAKRSSDEEFCIFARY 272
                              7899999999999*********************************8654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (314 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       678  (0.0378158); expected 358.6 (0.02)
Passed bias filter:                      311  (0.0173462); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.18s 00:00:00.62 Elapsed: 00:00:00.34
# Mc/sec: 2729.91
//
Query:       PHY93_11335|PHY93_11335  [L=265]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.2e-16   58.7   0.1    1.3e-15   57.4   0.0    1.7  2  DUF2063   Putative DNA-binding domain


Domain annotation for each model (and alignments):
>> DUF2063  Putative DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.4   0.0   7.1e-20   1.3e-15       5      85 .]       9     101 ..       5     101 .. 0.86
   2 ?   -3.4   0.0      0.69   1.2e+04      40      57 ..     194     211 ..     193     214 .. 0.77

  Alignments for each domain:
  == domain 1  score: 57.4 bits;  conditional E-value: 7.1e-20
                              XXXXXXX...................XXXXXX--HHHHHHHHHHHHHHHHHTTTGGGGS-HHHHHHHHHHHHHSGGGG-S-GGGHH CS
                  DUF2063   5 aFaaallspdad............pglsaakrlavYrnlvfnnlieaLaaaFpvlrallGeerfdalarayirahpsrspllreyG 78 
                              +Fa+ +++p++             ++lsa + l+vY++ + ++l+eaL++++ ++  l+G+e f  +a +yi+ hps s +l++yG
  PHY93_11335|PHY93_11335   9 KFANLVRTPNSLeqvellaqikdgAKLSALQALEVYQEDYQARLTEALKNTYRAINYLIGDEDFFGIASDYIKIHPSCSSDLDDYG 94 
                              5777777555213345555566678999999******************************************************* PP

                              HHHHHHH CS
                  DUF2063  79 eeFpefL 85 
                              ++F +fL
  PHY93_11335|PHY93_11335  95 NDFSHFL 101
                              ******8 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 0.69
                              HHHHTTTGGGGS-HHHHH CS
                  DUF2063  40 LaaaFpvlrallGeerfd 57 
                              ++++F v  ++l + +++
  PHY93_11335|PHY93_11335 194 IKNDFMVKTHVLSKSQWE 211
                              567888888889888887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (265 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       685  (0.0382063); expected 358.6 (0.02)
Passed bias filter:                      497  (0.0277205); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.39
# Mc/sec: 2027.69
//
Query:       PHY93_11340|PHY93_11340  [L=276]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.8e-90  302.8   0.0      2e-90  302.6   0.0    1.0  1  DUF692    Protein of unknown function (DUF692)


Domain annotation for each model (and alignments):
>> DUF692  Protein of unknown function (DUF692)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  302.6   0.0   1.1e-94     2e-90       2     261 ..      13     273 ..      12     275 .. 0.97

  Alignments for each domain:
  == domain 1  score: 302.6 bits;  conditional E-value: 1.1e-94
                   DUF692   2 vGlglrrelleelleekpe..vdflEvaaenylkaggkarkelealreryplvlHGvslslGsaepldeehlkrlkallerlepal 85 
                              +Glglr+++++ l  ++p+   +++Ev++eny++++g++rk lealr++yp+++HGvsls++s e +d  +l++lk++ +++ep  
  PHY93_11340|PHY93_11340  13 FGLGLRSPHYSYLE-ARPSttAGWFEVISENYFRTRGRPRKILEALRADYPISCHGVSLSIASYEDFDWVYLEDLKKFYNEIEPFQ 97 
                              7**********999.5555589**************************************************************** PP

                   DUF692  86 vSeHlsfssaggvelndllPlpyteealavvaerikqvqdiLerplllEnvssylafpeselsEaeFlaelvertgcglllDvnNv 171
                              +S+Hl+f+ +++ +l++llP++y+ e+l+++ eri++vq++L+r+l+lEn+s+y+++++s++sE++F++el++ t+c+lllD+nN+
  PHY93_11340|PHY93_11340  98 ISDHLCFTGQRNNNLHNLLPFAYSLENLHHLGERIDKVQNFLGRKLALENLSAYFDYKNSTMSEWDFINELTKVTDCDLLLDLNNI 183
                              ********99999************************************************************************* PP

                   DUF692 172 yvnavNhgfdpeayldalplervaeiHlAGheekeelliDtHgapvadevwalleealarlgpvptllErDnnipplaellaelak 257
                              +vn+ Nh+++ +++++a+p  rv+eiHlAG++e++++++DtH++p   e  +l++++l+r +++ptl E+D++ip+++ l a++ +
  PHY93_11340|PHY93_11340 184 FVNSYNHQLNSDDFINAIPIGRVKEIHLAGFSERDGFYFDTHANPLYPELIELYKKVLNRKKNIPTLFEWDEDIPSFEILEAQIIE 269
                              *******************************999**********************************************999888 PP

                   DUF692 258 arai 261
                              +r+i
  PHY93_11340|PHY93_11340 270 LRTI 273
                              7766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (276 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       390  (0.0217525); expected 358.6 (0.02)
Passed bias filter:                      318  (0.0177366); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.37
# Mc/sec: 2231.18
//
Query:       PHY93_11345|PHY93_11345  [L=54]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (54 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1093  (0.0609627); expected 358.6 (0.02)
Passed bias filter:                      241  (0.0134419); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.32u 0.20s 00:00:00.52 Elapsed: 00:00:00.33
# Mc/sec: 487.66
//
Query:       PHY93_11350|PHY93_11350  [L=263]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-30  107.0  23.6    1.4e-30  106.8  23.6    1.1  1  ABC2_membrane_6  ABC-2 family transporter protein


Domain annotation for each model (and alignments):
>> ABC2_membrane_6  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  106.8  23.6   7.8e-35   1.4e-30       1     228 [.      34     263 .]      34     263 .] 0.95

  Alignments for each domain:
  == domain 1  score: 106.8 bits;  conditional E-value: 7.8e-35
          ABC2_membrane_6   1 lillalsllllslifskvgslgGwnleevllllglflilqglaavffapalsrigesvrdGsldflLlkPinlllqillkrlnlrr 86 
                              +i +a+++l++++i++++  l+G + e++++ +  +l l++l+++f+a+++  ++ ++++G ld +L++P+++l++++l++++   
  PHY93_11350|PHY93_11350  34 FIFYAVNILFFKIIYLHTSLLAGMTEEQMMIFVASYLFLDSLIMTFLANNIWMLPVYINKGDLDYYLVRPVSSLFFLSLRDIAANS 119
                              68899********************************************************************************* PP

          ABC2_membrane_6  87 vgrllvgiilliyavkkldikltaakillliislilglliltslffilgslsfwfvkseeiieileglleaakyPltiyplilrkl 172
                              + ++l ++ +l+++ +k +  +t  ++++++i++++gl +++++ +++    fw+ +s    e++ g+ + ++ P++ +   ++++
  PHY93_11350|PHY93_11350 120 AINMLGAFSILVWCFSKYSGAITIFQLIVYAIFVLNGLGLYYLVRMMFVIPVFWTHTSRGLDELFWGIEQCMQRPVDLFRGQFKRF 205
                              ************************************************************************************** PP

          ABC2_membrane_6 173 ltfiiPvaflsyvPaeivlgklsi...vfalvlqlilalvllvlskliwkkglrkYtsa 228
                              lt+iiP+ ++ ++P++++    s+      ++ +l++++++ +  +  wk glr Y sa
  PHY93_11350|PHY93_11350 206 LTTIIPLGLIVSFPVKMLFSM-SFeesKPLIIHMLLVTILFGIFFRWCWKLGLRNYSSA 263
                              ***************987765.4546555666767788888888899*********996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (263 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       831  (0.0463495); expected 358.6 (0.02)
Passed bias filter:                      269  (0.0150036); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.35
# Mc/sec: 2253.94
//
Query:       PHY93_05540|PHY93_05540  [L=154]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.8e-19   68.0   0.0    8.4e-19   67.7   0.0    1.1  1  DUF3465   Protein of unknown function (DUF3465)


Domain annotation for each model (and alignments):
>> DUF3465  Protein of unknown function (DUF3465)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.7   0.0   4.7e-23   8.4e-19      21     125 ..      44     145 ..      32     146 .. 0.91

  Alignments for each domain:
  == domain 1  score: 67.7 bits;  conditional E-value: 4.7e-23
                  DUF3465  21 lkqafeekrsdlqvegeGevikvladdtkgsrHqrFilrlesgqtiliahniDlAPrledlkkgdtvefyGeYewnskgGvvhWtH 106
                              lk + ++  s+ qv  +G v++++++d+kg  Hq++ l ++ +  +li++n+D   r+  l +g+t+++ GeY+ n  +G++hWtH
  PHY93_05540|PHY93_05540  44 LKVVMKSSVSNPQVIVTGVVTQIMPEDHKGLPHQKYTLTVGGQIKLLIVSNLDFG-RV-PLTVGTTLSVCGEYK-NVGQGMIHWTH 126
                              567788889999*****************************************86.55.599***********7.78899****** PP

                  DUF3465 107 kdpkrkhaaGwlkvkgkrY 125
                               dp+  h++G+  v+g  Y
  PHY93_05540|PHY93_05540 127 FDPHGGHPDGFTIVNGSLY 145
                              ****************988 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (154 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       345  (0.0192426); expected 358.6 (0.02)
Passed bias filter:                      318  (0.0177366); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.19s 00:00:00.59 Elapsed: 00:00:00.35
# Mc/sec: 1304.43
//
Query:       PHY93_11355|PHY93_11355  [L=265]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-16   61.3  21.2    1.4e-16   60.9  21.2    1.1  1  ABC2_membrane_6  ABC-2 family transporter protein


Domain annotation for each model (and alignments):
>> ABC2_membrane_6  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.9  21.2     8e-21   1.4e-16       4     227 ..      34     264 ..      31     265 .] 0.81

  Alignments for each domain:
  == domain 1  score: 60.9 bits;  conditional E-value: 8e-21
          ABC2_membrane_6   4 lalsllllslifsk..vgslgGwnleevllllglflilqglaavffapalsrigesvrdGsldflLlkPinlllqillkrln..lr 85 
                              l ls++l+s ifs    +s+gG n++ ++l+    ++  +  +++   ++ +i + + dG l+ + + P+++  +  ++++   l 
  PHY93_11355|PHY93_11355  34 LGLSYFLWSSIFSGskNTSIGGMNFQMMILYS---FLAPMTLKTVNGLQSLNINQDIYDGGLNKYIIYPLSYFQFKWIQQIThvLS 116
                              6789********876699*************5...444444444444556699*****************9876555555542267 PP

          ABC2_membrane_6  86 rvgrllvgi.illiyavkkldikltaakillliislilglliltslffilgslsfwfvkseeiieilegl...leaakyPltiypl 167
                               +++l+vg+ +  i+  + l+ k    +il ++i l+ g+ +++++  i+  ++fw+ +++  + +l+ +   l+ a   lt +p+
  PHY93_11355|PHY93_11355 117 HLFQLFVGLaFFAIFIGMPLEYKFHSLNILCFAINLFIGSTLFFAMEAIMEMTAFWADNVWSLSVLLRFIinlLSGAWLSLTLFPE 202
                              78888777525667778888889999*************************************99998875557888889****** PP

          ABC2_membrane_6 168 ilrklltfiiPvaflsyvPaeivlgklsi...vfalvlqlilalvllvlskliwkkglrkYts 227
                                + l+ + +P++ + y P++i++g ++    + + + +++++ ++ ++++++w +g  +Yt+
  PHY93_11355|PHY93_11355 203 WSQELFYY-LPFKGMVYSPVRILMGSMNYgewIQSQIIMIVWLCLISLVANKVWLRGNLRYTG 264
                              ********.********************55422333335666677778899******99996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (265 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       778  (0.0433934); expected 358.6 (0.02)
Passed bias filter:                      276  (0.0153941); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.19s 00:00:00.63 Elapsed: 00:00:00.35
# Mc/sec: 2266.41
//
Query:       PHY93_11360|PHY93_11360  [L=306]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    8.3e-26   91.1   0.0    1.4e-25   90.4   0.0    1.4  1  ABC_tran      ABC transporter
    2.2e-12   47.4   2.3    8.4e-06   25.8   0.1    2.3  2  AAA_21        AAA domain, putative AbiEii toxin, Type IV TA s
     0.0052   17.3   0.4       0.24   12.0   0.1    2.3  2  AAA_18        AAA domain
     0.0079   14.9   0.1      0.014   14.1   0.1    1.3  1  AAA_13        AAA domain
     0.0087   16.4   0.0       0.35   11.3   0.0    2.3  2  RNA_helicase  RNA helicase
  ------ inclusion threshold ------
      0.035   14.4   0.3       0.27   11.5   0.1    2.2  3  AAA_28        AAA domain
      0.041   14.4   1.9       0.17   12.3   0.5    2.4  3  AAA_23        AAA domain
      0.042   13.6   0.1       0.12   12.1   0.1    1.7  2  AAA_29        P-loop containing region of AAA domain
      0.054   13.4   0.4      0.054   13.4   0.4    2.8  4  RsgA_GTPase   RsgA GTPase
      0.065   12.3   0.1       0.14   11.2   0.1    1.5  1  T2SSE         Type II/IV secretion system protein
      0.065   13.0   0.0       0.11   12.3   0.0    1.3  1  CLP1_P        mRNA cleavage and polyadenylation factor CLP1 P
      0.072   13.2   0.0       0.22   11.7   0.0    1.9  2  AAA_33        AAA domain
       0.15   11.3   0.0       0.26   10.5   0.0    1.4  1  Zeta_toxin    Zeta toxin
       0.19   11.4   0.1       0.57    9.9   0.0    1.7  2  AAA_30        AAA domain
       0.32   11.4   1.6         21    5.6   0.1    2.5  2  AAA_17        AAA domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   90.4   0.0   1.2e-28   1.4e-25       1     136 [.      38     182 ..      38     183 .. 0.86

  Alignments for each domain:
  == domain 1  score: 90.4 bits;  conditional E-value: 1.2e-28
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH....... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren....... 79 
                              l+n+s++++ege+v+++G nGaGK+tL k+l+g  +  +Gei++ g+d  ++e+++ +k + ++ q+++l+ +l + +        
  PHY93_11360|PHY93_11360  38 LNNISFNVREGEIVGLIGANGAGKTTLSKILSGIIHSSSGEITVLGNDPWKREISFRKKMSLIMGQKASLWWDLPALDCylllkei 123
                              79*******************************************7777776777777777778899****99988777999*888 PP

                              ......HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              ......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ......esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                                    ++  +++ ++++l++k+  +  +    + LS G++ +v+l +all +p++++lDEpt
  PHY93_11360|PHY93_11360 124 yqiedaDYHTRLNFLAETLRIKDQLKVQI----RRLSLGERMKVELIAALLHNPQVVFLDEPT 182
                              88665555555667777777766555555....*****************************9 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.4   0.4   1.5e-07   0.00018       2      35 ..      51      78 ..      50     100 .. 0.71
   2 !   25.8   0.1     7e-09   8.4e-06     223     298 ..     141     214 ..     117     219 .. 0.84

  Alignments for each domain:
  == domain 1  score: 21.4 bits;  conditional E-value: 1.5e-07
                   AAA_21  2 nvliGpNgsGKSnLLdaldllarldrdvegltde 35
                              +liG+Ng+GK++L ++l+++       +++  e
  PHY93_11360|PHY93_11360 51 VGLIGANGAGKTTLSKILSGII------HSSSGE 78
                             68****************8884......333333 PP

  == domain 2  score: 25.8 bits;  conditional E-value: 7e-09
                   AAA_21 223 flengdgqelparelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQv.iltTHS 298
                              +l  +d  ++++r lS G +    l++all  +    ++++DEp  gL+  +++ + ++l + +++   + ilt+H 
  PHY93_11360|PHY93_11360 141 TLRIKDQLKVQIRRLSLGERMKVELIAALLHNP---QVVFLDEPTIGLDLTAQKAVRQFLLDYRQKYNPCmILTSHY 214
                              556678899**********************99...9***********************66666555666999995 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.0   0.1    0.0002      0.24       1      19 [.      51      69 ..      51     103 .. 0.86
   2 ?    3.5   0.0      0.08        96      43     114 ..     202     270 ..     165     294 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.0002
                   AAA_18  1 IlltGtpGvGKttlakeLs 19
                             ++l G+ G+GKttl+k Ls
  PHY93_11360|PHY93_11360 51 VGLIGANGAGKTTLSKILS 69
                             6899**************6 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.08
                   AAA_18  43 pealdeskrldedkldklldaleenssaleegknlvidghlaeleseaakdikkvvLtasp.eelleRlekRg 114
                              ++ ++++ +l  ++++ + ++ e+++    +++++v dg l + +s +a +++ ++Lt+ + ++ +eR+++ g
  PHY93_11360|PHY93_11360 202 QK-YNPCMILTSHYMEDIETLCERIII--LKEGSIVYDGPLKDIISKYANEKQ-IILTLVNgDIIKERVSRNG 270
                              33.577788888888888888888875..677888999999999999999999.****999899999998877 PP

>> AAA_13  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.1   0.1   1.1e-05     0.014      23      39 ..      55      71 ..      51      93 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 1.1e-05
                   AAA_13 23 GwNGaGKTtLSrllrsl 39
                             G+NGaGKTtLS++l+ +
  PHY93_11360|PHY93_11360 55 GANGAGKTTLSKILSGI 71
                             9*************987 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.3   0.0   0.00029      0.35       3      64 ..      53     129 ..      51     160 .. 0.74
   2 ?    2.8   0.0      0.13   1.5e+02      12      54 ..     212     253 ..     211     267 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00029
             RNA_helicase   3 lyGpsgeGKStlakeLakallkkl...............klkkkdsvysrnpeddfwdgYtgqevvvidDfgqvkde 64 
                              l G++g GK+tl+k L+  + +++                + kk s++++++++ +wd      +++  +++q++d 
  PHY93_11360|PHY93_11360  53 LIGANGAGKTTLSKILSGIIHSSSgeitvlgndpwkreiSFRKKMSLIMGQKASLWWDLPALDCYLLLKEIYQIEDA 129
                              78*************99999987788899997777777777777777777777777777666666666666666654 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.13
             RNA_helicase  12 StlakeLakallkklklkkkdsvysrnpeddfwdgYtgqevvv 54 
                              S+++++ +++l++++   k++s+++ +p +d+ ++Y +++ ++
  PHY93_11360|PHY93_11360 212 SHYMED-IETLCERIIILKEGSIVYDGPLKDIISKYANEKQII 253
                              667777.7888889989999*****************988776 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   0.00023      0.27       4      20 ..      53      69 ..      50      96 .. 0.84
   2 ?   -2.2   0.0       3.5   4.2e+03     109     147 ..     114     154 ..     109     157 .. 0.70
   3 ?    0.0   0.0      0.74   8.9e+02      51      80 ..     148     180 ..     126     184 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00023
                   AAA_28  4 itGgestGKTtlleaLa 20
                             ++G+ ++GKTtl++ L+
  PHY93_11360|PHY93_11360 53 LIGANGAGKTTLSKILS 69
                             89************998 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 3.5
                   AAA_28 109 ydlvfllppapei.dddgeRr.edleereaiderlrealre 147
                               d+++ll++   i d d + r   l+e  +i+++l+   r+
  PHY93_11360|PHY93_11360 114 LDCYLLLKEIYQIeDADYHTRlNFLAETLRIKDQLKVQIRR 154
                              68888888888887667664426778888888887766655 PP

  == domain 3  score: 0.0 bits;  conditional E-value: 0.74
                   AAA_28  51 dllafaervleeqleeeaaa...aankvlfcDr 80 
                               +++++++ l e+++ e  a   ++++v+f+D 
  PHY93_11360|PHY93_11360 148 LKVQIRRLSLGERMKVELIAallHNPQVVFLDE 180
                              456677777788887774444579999999996 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.5   0.00015      0.17      14      35 ..      40      64 ..      33      96 .. 0.84
   2 ?   -1.9   0.0       3.3     4e+03      13      28 ..      89     104 ..      86     106 .. 0.86
   3 ?    0.1   0.0      0.79   9.5e+02      96     134 ..     239     278 ..     176     303 .. 0.59

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00015
                   AAA_23 14 eidF...skgltlItGpNGaGKTTi 35
                             +i F   +  ++ ++G NGaGKTT+
  PHY93_11360|PHY93_11360 40 NISFnvrEGEIVGLIGANGAGKTTL 64
                             4666666778999***********9 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 3.3
                   AAA_23  13 qeidFskgltlItGpN 28 
                               ei F k++ lI G+ 
  PHY93_11360|PHY93_11360  89 REISFRKKMSLIMGQK 104
                              589**********985 PP

  == domain 3  score: 0.1 bits;  conditional E-value: 0.79
                   AAA_23  96 lskkkgkttkka..klelleideleqfisellgskkiilnl 134
                              l++  +k+ +++  +l l++ d  ++++s++ g++++i++l
  PHY93_11360|PHY93_11360 239 LKDIISKYANEKqiILTLVNGDIIKERVSRN-GISERISSL 278
                              3333222222221133333334444444433.233333333 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.1    0.0001      0.12      10      38 ..      36      64 ..      27      68 .. 0.76
   2 ?   -2.4   0.0       3.4   4.1e+03      17      33 ..      91     106 ..      88     106 .. 0.68

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.0001
                   AAA_29 10 gtfdghtieidlkgatlltGpsGsGKSTl 38
                             + +++ ++++++ +++ l+G++G+GK+Tl
  PHY93_11360|PHY93_11360 36 HALNNISFNVREGEIVGLIGANGAGKTTL 64
                             55556666676555999***********8 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 3.4
                   AAA_29  17 ieidlkgatlltGpsGs 33 
                              i+++   + l++G+  s
  PHY93_11360|PHY93_11360  91 ISFRK-KMSLIMGQKAS 106
                              56653.3799*999765 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.4   4.5e-05     0.054      83     130 ..      31      79 ..       7      83 .. 0.85
   2 ?   -0.7   0.0      0.99   1.2e+03      60     105 ..     133     178 ..     120     184 .. 0.78
   3 ?   -1.5   0.0       1.7     2e+03      57      95 ..     186     223 ..     181     233 .. 0.73
   4 ?   -2.2   0.1       2.8   3.4e+03      47      93 ..     250     298 ..     242     305 .. 0.56

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 4.5e-05
                              -TTTHTTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT-----S-- CS
              RsgA_GTPase  83 saktkegleelkellkd.ktsvlvGqSGvGKStLinallpelelktgev 130
                              +  tk++l++++ ++++ +++ l+G  G+GK+tL + l +  + + ge+
  PHY93_11360|PHY93_11360  31 KIVTKHALNNISFNVREgEIVGLIGANGAGKTTLSKILSGIIHSSSGEI 79 
                              5567899999*99999989*****************9999877777776 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.99
                              -HHHHHHHHHHHHHHTTSEEEE--TTTHTTHHHHHHHCTTSEEEEE CS
              RsgA_GTPase  60 eeeeeleelkeelealgyevllvsaktkegleelkellkdktsvlv 105
                              ++ + l e+     +l +++  +s  ++ ++e +++ll++  +v++
  PHY93_11360|PHY93_11360 133 TRLNFLAETLRIKDQLKVQIRRLSLGERMKVELIAALLHNPQVVFL 178
                              5555566777778899999999999999999999999999777765 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 1.7
                              GG--HHHHHHHHHHHHHHTTSEEEE--TTTHTTHHHHHH CS
              RsgA_GTPase  57 Dlleeeeeleelkeelealgyevllvsaktkegleelke 95 
                              Dl+ ++  ++++  ++++   +++++ ++  e++e+l e
  PHY93_11360|PHY93_11360 186 DLTAQKA-VRQFLLDYRQKYNPCMILTSHYMEDIETLCE 223
                              7777777.9999999999866666666666666666654 PP

  == domain 4  score: -2.2 bits;  conditional E-value: 2.8
                              -EEEEEEE-GGG--HHHHHHHHHHHHHHTT..SEEEE--TTTHTTHHHH CS
              RsgA_GTPase  47 iepvivlnKiDlleeeeeleelkeelealg..yevllvsaktkegleel 93 
                               ++++ l   D+++e+ + + ++e++++l   y+vl +s+++ e  e +
  PHY93_11360|PHY93_11360 250 KQIILTLVNGDIIKERVSRNGISERISSLLklYDVLDLSVTEIEISEII 298
                              4566677777777777744444444444322277777766654444444 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.1   0.00011      0.14     104     166 ..      23      86 ..       6     107 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00011
                    T2SSE 104 tlddlgaeealkekiaevlrkavrerglilvsGgTgsGKttllyallkeinksderivtv.EDp 166
                              +l+ l +++ ++++  + ++  vre  ++ + G+ g GKttl  +l  +i++s+ +i ++  Dp
  PHY93_11360|PHY93_11360  23 SLKSLFKRKIVTKHALNNISFNVREGEIVGLIGANGAGKTTLSKILSGIIHSSSGEITVLgNDP 86 
                              6888999999999999********999999*********************9977775542566 PP

>> CLP1_P  mRNA cleavage and polyadenylation factor CLP1 P-loop
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   9.4e-05      0.11       1      47 [.      55     101 ..      55     111 .. 0.91

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 9.4e-05
                   CLP1_P   1 GpkdsGKSTlarlLlNyalrkgrkpvyvDlDvGqseispPgtislal 47 
                              G++ +GK+Tl+++L   + +++ +++++  D+ + eis    +sl +
  PHY93_11360|PHY93_11360  55 GANGAGKTTLSKILSGIIHSSSGEITVLGNDPWKREISFRKKMSLIM 101
                              7899**********************************999999876 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00018      0.22       3      39 ..      52      93 ..      50     153 .. 0.75
   2 ?   -3.1   0.0       6.5   7.8e+03      26      40 ..     255     269 ..     244     305 .. 0.55

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00018
                   AAA_33  3 llvGlpGsGKstlaerl....lkklg.avllssdtlrrrlfg 39
                              l+G++G+GK+tl++ l    +   g  ++l  d ++r +  
  PHY93_11360|PHY93_11360 52 GLIGANGAGKTTLSKILsgiiHSSSGeITVLGNDPWKREISF 93
                             589***********9987766666667888888877776655 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 6.5
                   AAA_33  26 vllssdtlrrrlfgt 40 
                              +l++ d++++r+  +
  PHY93_11360|PHY93_11360 255 TLVNGDIIKERVSRN 269
                              567777777777653 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   0.00022      0.26      19     127 ..      51     164 ..      36     170 .. 0.71

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00022
               Zeta_toxin  19 illgGqpGAGKselaellkdele.rqgnvvrldpDdlRelh...Peyeeilkadpkkaseltqkdaselvekllq...eaiengyn 97 
                              + l G+ GAGK++l++ l   ++ + g++ +l  D  ++ +    + + i+ ++ + + +l   d++ l +++ q   + +  + n
  PHY93_11360|PHY93_11360  51 VGLIGANGAGKTTLSKILSGIIHsSSGEITVLGNDPWKREIsfrKKMSLIMGQKASLWWDLPALDCYLLLKEIYQiedADYHTRLN 136
                              556799***********999988789999999999999877111233445557777777888888888877654322156777778 PP

               Zeta_toxin  98 iivegtlrspdvvkklaealkkaGYevevv 127
                              ++ e tlr  d++k ++++l   G +++v 
  PHY93_11360|PHY93_11360 137 FLAE-TLRIKDQLKVQIRRLSL-GERMKVE 164
                              7777.67777777777777665.5555555 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.0   0.00048      0.57      19      52 ..      49      82 ..      41      86 .. 0.84
   2 ?   -1.9   0.0         2   2.3e+03      46      79 ..     132     172 ..     119     198 .. 0.57

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00048
                   AAA_30 19 rvavltGpAGtGKttalkalreaweaaggrvigl 52
                              ++ l G+ G+GKtt+ k l  +++++ g++ +l
  PHY93_11360|PHY93_11360 49 EIVGLIGANGAGKTTLSKILSGIIHSSSGEITVL 82
                             478899****************999997777665 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 2
                   AAA_30  46 ggrviglAptgkaAkvLaeelg.......ieastiakllkr 79 
                                r+  lA t +  ++L+ ++        ++ + ia ll++
  PHY93_11360|PHY93_11360 132 HTRLNFLAETLRIKDQLKVQIRrlslgerMKVELIAALLHN 172
                              45666777777777777743222222233466666666643 PP

>> AAA_17  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6   0.1     0.034        40       1      15 [.      54      68 ..      54      81 .. 0.73
   2 ?    5.6   0.1     0.017        21      21      68 ..     254     300 ..     240     306 .] 0.79

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.034
                             EE-TTSSHHHHHHHH CS
                   AAA_17  1 lGgPGsGKgtqcekl 15
                             +G  G+GK+t+++ l
  PHY93_11360|PHY93_11360 54 IGANGAGKTTLSKIL 68
                             5999******99544 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.017
                              EEEEEHHHHHHHHHHTTTSHSSHHHHCTSHHHHHHHHHHHHHHHHHHH CS
                   AAA_17  21 fthlsaGdllreeakrgglakardemrklpleekkelqkeaaekiaee 68 
                              +t ++ Gd++ e ++r+g ++  + + kl+ + +  ++++ + +i e+
  PHY93_11360|PHY93_11360 254 LTLVN-GDIIKERVSRNGISERISSLLKLYDVLDLSVTEIEISEIIEK 300
                              44555.*************99999999999999999999888888776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (306 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       669  (0.0373138); expected 358.6 (0.02)
Passed bias filter:                      532  (0.0296726); expected 358.6 (0.02)
Passed Vit filter:                        85  (0.00474092); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.41
# Mc/sec: 2241.30
//
Query:       PHY93_11365|PHY93_11365  [L=228]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    7.5e-49  165.2   0.0    9.1e-49  164.9   0.0    1.1  1  SfsA            Sugar fermentation stimulation protein RE dom
    6.2e-20   71.1   0.0      1e-19   70.4   0.0    1.4  1  SfsA_N          SfsA N-terminal OB domain
  ------ inclusion threshold ------
       0.15   12.0   0.0       0.29   11.1   0.0    1.5  2  Glyco_transf_4  Glycosyltransferase Family 4
       0.16   12.0   0.0         17    5.5   0.0    2.3  2  Put_DNA-bind_N  Putative DNA-binding protein N-terminus


Domain annotation for each model (and alignments):
>> SfsA  Sugar fermentation stimulation protein RE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  164.9   0.0     2e-52   9.1e-49       2     136 ..      82     218 ..      81     220 .. 0.96

  Alignments for each domain:
  == domain 1  score: 164.9 bits;  conditional E-value: 2e-52
                              HHHHHHHHHHEE...........EEES-EETTEE-SEEEE-S.SSEEEEEEEE--EE..E.EEEE-SS--HHHHHHHHHHHHHHHT CS
                     SfsA   2 lpnklveealesgli.elagyeeikrevkygnsriDfllekeeeekcyvEVKsvtleegg.ialfPdapteRgqkhleeLaelvke 85 
                              l n l+ ea+++g i el+gy+++k+evk+g+sriD+ll++ + ++cyvEVK+vtl +++ ++lfPd++teRgqkhl+eL++l+++
  PHY93_11365|PHY93_11365  82 LTNGLAIEAIKNGTIkELQGYSDLKPEVKIGQSRIDILLSNGALDPCYVEVKNVTLINDEdHCLFPDSVTERGQKHLRELIDLKEK 167
                              67999*******8888*****************************************8544************************* PP

                              T-EEEEEEEE-SSS--EEEE-TTT-HHHHHHHHHHHHHT-EEEEEEEEE-T CS
                     SfsA  86 gyravvlfvvqredarefkpnkeidpefaealreaaeaGVevlaydckvtp 136
                              g r+v+lf+vqred+  fk+++  dp ++++l++a+ +GVevl y+ck+tp
  PHY93_11365|PHY93_11365 168 GIRTVMLFIVQREDCSFFKIENLLDPIYCRLLKQAIGQGVEVLVYQCKLTP 218
                              ************************************************997 PP

>> SfsA_N  SfsA N-terminal OB domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.4   0.0   2.3e-23     1e-19       1      63 []      13      78 ..      13      78 .. 0.95

  Alignments for each domain:
  == domain 1  score: 70.4 bits;  conditional E-value: 2.3e-23
                             EEEEETTEEEEEEE.....EE----S--TTT--TT-EEEEE....ESSS-SEEEEEEEETTEEEE- CS
                   SfsA_N  1 lrRpnRFladveldgt...vHvpntGrlkelllpGarvllsksdnpkrKtkytleavekegtwvgi 63
                             ++R++RF+ad+++ +    +H++ntG++k++l +++++lls +++p+rK++y+ e++ ++++w+gi
  PHY93_11365|PHY93_11365 13 IKRYKRFFADIQVGEDiviAHTANTGSMKNCLGENWPALLSFHNSPTRKLAYSFEMIFNGKSWIGI 78
                             89**********9852457*********************************************98 PP

>> Glyco_transf_4  Glycosyltransferase Family 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   6.5e-05      0.29      51     152 ..       3     103 ..       1     111 [. 0.81
   2 ?   -3.5   0.0         2   9.2e+03      11      25 ..     198     212 ..     196     218 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 6.5e-05
           Glyco_transf_4  51 lkrllrslaflrrlrrllkre..kpDvvHahspaalgaallalrrrlgiplVltvHglyekrllkarlkplsrllralerrllrra 134
                              +k +l+s  f++r +r +     + D+v ah++ ++  ++  ++   + p  l++H++  ++l +++ + ++   +   +  l + 
  PHY93_11365|PHY93_11365   3 FKTPLISGFFIKRYKRFFADIqvGEDIVIAHTANTG--SMKNCLG-ENWPALLSFHNSPTRKLAYSFEMIFNGKSWIGINTSLTNG 85 
                              5667777788888888888887788*******9999..7888887.*************999999999999999888888888888 PP

           Glyco_transf_4 135 drviavSeatadelrery 152
                               ++ a+ + t +el+ + 
  PHY93_11365|PHY93_11365  86 LAIEAIKNGTIKELQGYS 103
                              888887777777777755 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 2
           Glyco_transf_4  11 LaraLarrGheVtvv 25 
                              L ++   +G+eV v+
  PHY93_11365|PHY93_11365 198 LLKQAIGQGVEVLVY 212
                              667777788888887 PP

>> Put_DNA-bind_N  Putative DNA-binding protein N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.5   0.0    0.0038        17       3      28 ..     147     172 ..     146     173 .. 0.92
   2 ?    4.1   0.0      0.01        46      11      27 ..     193     209 ..     193     211 .. 0.93

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.0038
                              -HHHHHHHHHHHHHHHHHHHTT--EE CS
           Put_DNA-bind_N   3 PeatikRLplYlryLeelkeegveri 28 
                              P+++ +R    lr L +lke+g+ ++
  PHY93_11365|PHY93_11365 147 PDSVTERGQKHLRELIDLKEKGIRTV 172
                              8899999999*************997 PP

  == domain 2  score: 4.1 bits;  conditional E-value: 0.01
                              HHHHHHHHHHHHTT--E CS
           Put_DNA-bind_N  11 plYlryLeelkeegver 27 
                              p+Y r+L++   +gve+
  PHY93_11365|PHY93_11365 193 PIYCRLLKQAIGQGVEV 209
                              89************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (228 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       331  (0.0184617); expected 358.6 (0.02)
Passed bias filter:                      316  (0.0176251); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.37
# Mc/sec: 1850.39
//
Query:       PHY93_19755|PHY93_19755  [L=488]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.7e-15   57.7   0.7    9.3e-15   55.3   0.3    2.2  2  Fic       Fic/DOC family
  ------ inclusion threshold ------
      0.037   12.7   0.6      0.054   12.1   0.6    1.1  1  DUF4455   Domain of unknown function (DUF4455)
          1    9.4   3.3       0.46   10.5   0.7    1.8  2  DUF4083   Domain of unknown function (DUF4083)


Domain annotation for each model (and alignments):
>> Fic  Fic/DOC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.0      0.34     2e+03       4      27 ..     158     192 ..     148     231 .. 0.71
   2 !   55.3   0.3   1.6e-18   9.3e-15       5      97 .]     324     413 ..     321     413 .. 0.88

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.34
                              HHHHHHHHC.HS-S----..........--TS--S CS
                      Fic   4 ledllelhr.lllqdige..........eagefrd 27 
                              l++++++h  + l++i++           + efr+
  PHY93_19755|PHY93_19755 158 LDQICQIHGeEALNQIRDvartlsvelsMEPEFRK 192
                              67888888877777777654444444442245554 PP

  == domain 2  score: 55.3 bits;  conditional E-value: 1.6e-18
                              HHHHHHHCHS-S----.--TS--SS-ST..EEEE---SCCCHHHHH.HHHHHHHCHHT-S-HHHHHHHHHHHHHHH--SSS-HHHH CS
                      Fic   5 edllelhrlllqdige.eagefrdeevsegklesalappeevpael.eelleylnelekeeplekaaalhyefekiHPFaDGNgRt 88 
                              e +++ h++ll  ++  ++gef+++ +  + +++ +  p  v  +l + l++y+     ++pl++  +l++ ++  HPF+DGNgR+
  PHY93_19755|PHY93_19755 324 ELIKHHHKILLSAHPHaHPGEFKEKRN--QAGNTLFVEPSAVIGTLvKGLENYYL---LQDPLKQSIYLMFLIAEVHPFNDGNGRI 404
                              67899999*****999999***99777..99999999999888887355555555...999************************* PP

                              HHHHHHHHH CS
                      Fic  89 arlllnllL 97 
                              arl++n +L
  PHY93_19755|PHY93_19755 405 ARLFMNSIL 413
                              ******887 PP

>> DUF4455  Domain of unknown function (DUF4455)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.6     9e-06     0.054     364     445 ..     126     209 ..     124     221 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 9e-06
                  DUF4455 364 ekqeeelekkleqlrqkhdeenqakeaeLdklldklrqasteekLketlekalqlLd..dikkeYeefhkdqvaiveeyPemvl 445
                              +++e+++ ++l+q + +        ++e +k+ld++ q   ee+L++  ++a++l     ++ e+++ +k   ai++++P++vl
  PHY93_19755|PHY93_19755 126 SNRERAFLENLQQTKTSTISNKSVSQKEIEKKLDQICQIHGEEALNQIRDVARTLSVelSMEPEFRKLNKIISAILNTHPSSVL 209
                              578899999999999999999999************************9999875432369*********************98 PP

>> DUF4083  Domain of unknown function (DUF4083)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.7   7.7e-05      0.46      35      52 ..     146     163 ..     140     165 .. 0.81
   2 ?   -4.1   0.1       2.7   1.6e+04      46      51 ..     192     197 ..     191     198 .. 0.85

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 7.7e-05
                  DUF4083  35 akkkkskeleqKLDkiIe 52 
                               k +++ke+e+KLD+i +
  PHY93_19755|PHY93_19755 146 NKSVSQKEIEKKLDQICQ 163
                              46789**********976 PP

  == domain 2  score: -4.1 bits;  conditional E-value: 2.7
                  DUF4083  46 KLDkiI 51 
                              KL kiI
  PHY93_19755|PHY93_19755 192 KLNKII 197
                              9****9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (488 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       856  (0.0477439); expected 358.6 (0.02)
Passed bias filter:                      598  (0.0333538); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.61u 0.23s 00:00:00.84 Elapsed: 00:00:00.42
# Mc/sec: 3494.65
//
Query:       PHY93_19760|PHY93_19760  [L=331]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.5e-37  128.2   0.0      5e-37  127.7   0.0    1.2  1  Y2_Tnp    Putative transposase
  ------ inclusion threshold ------
       0.18   11.9   1.5       0.41   10.7   1.5    1.6  1  DUF4351   Domain of unknown function (DUF4351)


Domain annotation for each model (and alignments):
>> Y2_Tnp  Putative transposase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  127.7   0.0   5.6e-41     5e-37       1     180 [.      31     239 ..      31     242 .. 0.92

  Alignments for each domain:
  == domain 1  score: 127.7 bits;  conditional E-value: 5.6e-41
                   Y2_Tnp   1 GavavlhtfgsalnlhpHvHvlvpdGgleedgewkaskksfflpvkalsrlfrgklletlrkavaraklk.rgllerdeefssllk 85 
                              Ga++v+++fg alnl++H+ ++ +dG+++e+       ++  ++   +s+++++ l+++l+k++ r + + ++ +++d + ++l +
  PHY93_19760|PHY93_19760  31 GAITVVQRFGGALNLNVHFNTIYTDGVFHENY-----LGEEVFREIIPSHEEVELLTAQLKKRLGRLMAReENIINEDLSLAQLQA 111
                              99****************************95.....45556677899********************995566677777777777 PP

                   Y2_Tnp  86 kaskk...............................gfvvhakkave.kerkvleyLarYisrpaisnkRlvstdeekvtfrlkdk 139
                              + +++                               gf++ha++++  ++r+ le+L+rYi r++i+++R++  d++kv+++lk++
  PHY93_19760|PHY93_19760 112 QSVQNrdekfklpiplgkicdppfrefkgwrccyndGFSLHANVKFLgNQREGLERLCRYILRGPIAKDRISYDDSGKVRLKLKTP 197
                              777779999************************************999************************************** PP

                   Y2_Tnp 140 rrkktktvtlepeefirrllahVppkgfkriRyyGvla.rvk 180
                              ++++t++++++p++fi+r++ ++pp++ ++iRy Gv+  r+k
  PHY93_19760|PHY93_19760 198 YSDGTTHLQFTPDQFIKRVISLIPPPRQNLIRYIGVFGaRHK 239
                              *************************************95444 PP

>> DUF4351  Domain of unknown function (DUF4351)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   1.5   4.6e-05      0.41       6      41 ..      75     111 ..      65     115 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 4.6e-05
                  DUF4351   6 egeqsLilrlLtrrfGelspeleeqI..ksLsleqLEd 41 
                               +e++L+  +L++r+G l    ee+I  + Lsl+qL +
  PHY93_19760|PHY93_19760  75 HEEVELLTAQLKKRLGRLMAR-EENIinEDLSLAQLQA 111
                              5899****************9.75554567*****975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (331 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       821  (0.0457917); expected 358.6 (0.02)
Passed bias filter:                      680  (0.0379274); expected 358.6 (0.02)
Passed Vit filter:                        60  (0.00334653); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.39
# Mc/sec: 2524.68
//
Query:       PHY93_19765|PHY93_19765  [L=570]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
   5.9e-108  353.4  35.3    2.6e-23   82.1   2.5    6.2  6  S1             S1 RNA binding domain
    3.7e-11   42.9  10.1     0.0037   17.3   0.1    6.3  7  S1_2           S1 domain
    6.8e-09   35.7   8.8       0.03   13.9   0.2    5.1  5  DUF2110        Uncharacterized protein conserved in archaea (
    8.8e-09   36.1   3.8       0.85   10.4   0.0    6.1  5  PCB_OB         Penicillin-binding protein OB-like domain
  ------ inclusion threshold ------
      0.056   14.0   5.7       0.36   11.5   0.5    3.8  3  EXOSC1         Exosome component EXOSC1/CSL4
      0.061   13.0   0.2        2.5    7.8   0.1    2.9  2  AbrB_C         AbrB C-terminal domain
      0.093   12.5   0.3          8    6.2   0.1    2.7  3  Flag1_repress  Repressor of phase-1 flagellin
       0.39   10.7   4.9       0.67    9.9   0.0    3.9  4  CsrA           Global regulator protein family


Domain annotation for each model (and alignments):
>> S1  S1 RNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.6   0.6   4.4e-13   9.9e-10       2      74 ..      43     111 ..      42     112 .. 0.96
   2 !   44.5   0.1   6.4e-15   1.4e-11       3      75 .]     128     195 ..     127     195 .. 0.96
   3 !   73.5   0.3   5.7e-24   1.3e-20       3      75 .]     214     284 ..     212     284 .. 0.97
   4 !   68.2   0.3   2.6e-22   5.9e-19       4      75 .]     300     371 ..     297     371 .. 0.96
   5 !   67.1   2.9   5.9e-22   1.3e-18       1      74 [.     384     457 ..     384     458 .. 0.96
   6 !   82.1   2.5   1.2e-26   2.6e-23       2      75 .]     472     544 ..     471     544 .. 0.98

  Alignments for each domain:
  == domain 1  score: 38.6 bits;  conditional E-value: 4.4e-13
                              STTTCEEEEEEEEEETTEEEEEETTTEEEEEEGGGSSSSCEESCHHHCEETTEEEEEEEEEEETTTTEEEEEE CS
                       S1   2 pekgevveGeVtsvtkgGafVelgngvegfvpaselsrdarvedpdevlkvGdevkvkvlkvdkdrrriilsi 74 
                              +e+gev++G+++s+ ++ + V++g+++eg+v+++e  +     d++ ++k Gd ++v+++k++ + +++ils+
  PHY93_19765|PHY93_19765  43 FEEGEVFMGTIISIGQDYVTVDIGYKQEGLVSVKEFQNY----DGTLKIKSGDVIEVYLEKLESNMGNLILSK 111
                              689**********************************75....****************************96 PP

  == domain 2  score: 44.5 bits;  conditional E-value: 6.4e-15
                              TTTCEEEEEEEEEETTEEEEEETTTEEEEEEGGGSSSSCEESCHHHCEETTEEEEEEEEEEETTTTEEEEEEC CS
                       S1   3 ekgevveGeVtsvtkgGafVelgngvegfvpaselsrdarvedpdevlkvGdevkvkvlkvdkdrrriilsik 75 
                              e ge ++G+V+  +kgG+ V++g  v++f+p s+++ +   + ++   ++G++ ++kv+k++k+r++i+ls++
  PHY93_19765|PHY93_19765 128 ESGEPLTGTVIAKVKGGLSVDIG--VKAFLPGSQIDIR---PTRYLDKYIGKTMEFKVIKFNKKRGNIVLSRR 195
                              579999*****************..***********99...99****************************86 PP

  == domain 3  score: 73.5 bits;  conditional E-value: 5.7e-24
                              TTTCEEEEEEEEEETTEEEEEETTTEEEEEEGGGSSSSCEESCHHHCEETTEEEEEEEEEEETTTTEEEEEEC CS
                       S1   3 ekgevveGeVtsvtkgGafVelgngvegfvpaselsrdarvedpdevlkvGdevkvkvlkvdkdrrriilsik 75 
                              e+g vv+G+V+++t++Gaf++lg g++g++++ ++s+  rv++p+  l +Gde++vk+lk+d d++r++l +k
  PHY93_19765|PHY93_19765 214 EEGMVVKGIVKNITDYGAFIDLG-GIDGLLHITDMSWG-RVKHPSNILNIGDEIEVKILKFDTDKERVSLGLK 284
                              89*********************.**************.******************************9875 PP

  == domain 4  score: 68.2 bits;  conditional E-value: 2.6e-22
                              TTCEEEEEEEEEETTEEEEEETTTEEEEEEGGGSSSSCEESCHHHCEETTEEEEEEEEEEETTTTEEEEEEC CS
                       S1   4 kgevveGeVtsvtkgGafVelgngvegfvpaselsrdarvedpdevlkvGdevkvkvlkvdkdrrriilsik 75 
                               g+ v+Ge++sv ++G+f+el+ g+eg++++se+s+ +++++p++++  G++++++vl+vd++++ri+l +k
  PHY93_19765|PHY93_19765 300 PGTKVSGEIVSVKDYGVFIELDDGIEGLIHVSEMSWTNKIKNPTKHFNAGERIEAQVLDVDVENKRISLGLK 371
                              6999****************************************************************9875 PP

  == domain 5  score: 67.1 bits;  conditional E-value: 5.9e-22
                              HSTTTCEEEEEEEEEETTEEEEEETTTEEEEEEGGGSSSSCEESCHHHCEETTEEEEEEEEEEETTTTEEEEEE CS
                       S1   1 kpekgevveGeVtsvtkgGafVelgngvegfvpaselsrdarvedpdevlkvGdevkvkvlkvdkdrrriilsi 74 
                              k+++g+ v+G+V+s++++G+fV++g++v++++++s++s+  ++ ++ +++k+G++v++ v  vdk++ + +l +
  PHY93_19765|PHY93_19765 384 KFKIGDKVKGKVKSIVDFGVFVDIGEEVDALIHVSDISWTRKNIVIADEFKEGQTVEAMVMAVDKENQKFSLGL 457
                              6899***************************************************************9999876 PP

  == domain 6  score: 82.1 bits;  conditional E-value: 1.2e-26
                              STTTCEEEEEEEEEETTEEEEEETTTEEEEEEGGGSSSSCEESCHHHCEETTEEEEEEEEEEETTTTEEEEEEC CS
                       S1   2 pekgevveGeVtsvtkgGafVelgngvegfvpaselsrdarvedpdevlkvGdevkvkvlkvdkdrrriilsik 75 
                              + +g+vve+eV++vt++GafVel+ g+eg++++sels + rve+p++v+k+Gd+ k+ v+ vdk++++i+lsik
  PHY93_19765|PHY93_19765 472 FPVGTVVEAEVVRVTDFGAFVELETGIEGLIHISELSEE-RVEKPSDVIKKGDKPKAMVISVDKEAKKIALSIK 544
                              579************************************.********************************97 PP

>> S1_2  S1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0       3.8   8.6e+03      37      47 ..      86      96 ..      52      97 .. 0.75
   2 ?   -2.2   0.0       2.1   4.6e+03       6      34 ..     134     160 ..     130     163 .. 0.75
   3 ?   -1.9   0.1       1.7   3.7e+03       1      14 [.     172     185 ..     172     187 .. 0.90
   4 !    7.2   0.1    0.0023       5.2       2      46 ..     216     267 ..     216     269 .. 0.74
   5 !    5.3   0.0    0.0093        21       2      35 ..     301     334 ..     300     341 .. 0.87
   6 !   14.1   0.1   1.7e-05     0.037       1      35 [.     387     421 ..     387     441 .. 0.89
   7 !   17.3   0.1   1.7e-06    0.0037       1      37 [.     474     510 ..     474     518 .. 0.92

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 3.8
                     S1_2 37 eleiGdeveVF 47
                             +++ Gd +eV 
  PHY93_19765|PHY93_19765 86 KIKSGDVIEVY 96
                             56778888886 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 2.1
                     S1_2   6 tlkvlretdfgyfLqkdesgevlLpkkev 34 
                              t +v+ + + g+ ++ +   + +Lp +++
  PHY93_19765|PHY93_19765 134 TGTVIAKVKGGLSVDIGV--KAFLPGSQI 160
                              778888888898887765..788888776 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 1.7
                     S1_2   1 iGkintlkvlretd 14 
                              iGk+ ++kv++ ++
  PHY93_19765|PHY93_19765 172 IGKTMEFKVIKFNK 185
                              8*********9986 PP

  == domain 4  score: 7.2 bits;  conditional E-value: 0.0023
                     S1_2   2 GkintlkvlretdfgyfLqkdesgevlLpkkevp........eeleiGdeveV 46 
                              G +++  v+ +td g+f++ ++  + lL+  ++         + l+iGde+eV
  PHY93_19765|PHY93_19765 216 GMVVKGIVKNITDYGAFIDLGG-IDGLLHITDMSwgrvkhpsNILNIGDEIEV 267
                              7789999************999.999**9987643222222355677777776 PP

  == domain 5  score: 5.3 bits;  conditional E-value: 0.0093
                     S1_2   2 GkintlkvlretdfgyfLqkdesgevlLpkkevp 35 
                              G+ ++ +++  +d g+f++ d++ e l + +e+ 
  PHY93_19765|PHY93_19765 301 GTKVSGEIVSVKDYGVFIELDDGIEGLIHVSEMS 334
                              888899*************9999**999999986 PP

  == domain 6  score: 14.1 bits;  conditional E-value: 1.7e-05
                     S1_2   1 iGkintlkvlretdfgyfLqkdesgevlLpkkevp 35 
                              iG  ++ kv+ + dfg+f++ +e+++ l + +++ 
  PHY93_19765|PHY93_19765 387 IGDKVKGKVKSIVDFGVFVDIGEEVDALIHVSDIS 421
                              79999***************9999******98875 PP

  == domain 7  score: 17.3 bits;  conditional E-value: 1.7e-06
                     S1_2   1 iGkintlkvlretdfgyfLqkdesgevlLpkkevpee 37 
                              +G++++++v+r tdfg+f++ +++ e l + +e+ ee
  PHY93_19765|PHY93_19765 474 VGTVVEAEVVRVTDFGAFVELETGIEGLIHISELSEE 510
                              69*******************************9865 PP

>> DUF2110  Uncharacterized protein conserved in archaea (DUF2110)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.9   0.2   1.3e-05      0.03      58      94 ..      33      69 ..       6      86 .. 0.75
   2 !    7.2   0.0    0.0015       3.3      57     102 ..     116     161 ..     110     178 .. 0.90
   3 ?    2.9   0.0     0.031        71      62      91 ..     207     236 ..     193     256 .. 0.89
   4 ?    1.0   0.1      0.12   2.7e+02      59     102 ..     289     334 ..     283     367 .. 0.80
   5 !   11.3   0.3   8.7e-05       0.2      59     142 ..     376     457 ..     355     486 .. 0.69

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 1.3e-05
                  DUF2110 58 reefgeitkeveegevyvGtlesldedgfvldigvev 94
                             +  + +i k++eegev++Gt+ s+++d  ++dig + 
  PHY93_19765|PHY93_19765 33 ELLHSSISKNFEEGEVFMGTIISIGQDYVTVDIGYKQ 69
                             3334566677************************874 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.0015
                  DUF2110  57 lreefgeitkeveegevyvGtlesldedgfvldigvevripkdelk 102
                              + + ++ i  + e+ge ++Gt+ +  + g  +digv+   p ++++
  PHY93_19765|PHY93_19765 116 ILKAWDRISLACESGEPLTGTVIAKVKGGLSVDIGVKAFLPGSQID 161
                              6789********************************9888877765 PP

  == domain 3  score: 2.9 bits;  conditional E-value: 0.031
                  DUF2110  62 geitkeveegevyvGtlesldedgfvldig 91 
                              gei +++eeg v++G ++++++ g  +d g
  PHY93_19765|PHY93_19765 207 GEILSQIEEGMVVKGIVKNITDYGAFIDLG 236
                              788888********************9998 PP

  == domain 4  score: 1.0 bits;  conditional E-value: 0.12
                  DUF2110  59 eefgeitkeveegevyvGtlesldedgf..vldigvevripkdelk 102
                              + ++e +++  +g ++ G + s+++ g    ld g+e  i+ +e++
  PHY93_19765|PHY93_19765 289 NPWEEAKTKYIPGTKVSGEIVSVKDYGVfiELDDGIEGLIHVSEMS 334
                              569999999****************998556788999888888887 PP

  == domain 5  score: 11.3 bits;  conditional E-value: 8.7e-05
                  DUF2110  59 eefgeitkeveegevyvGtlesldedgfvldigvevr..ipkdelkpLgegspeqiaerFGlvqhlpleveveeveeeekeiearl 142
                              + ++ ++++++ g++++G ++s+ + g  +dig ev   i+ ++++   + +   ia++F   q +   v    v++e++++   l
  PHY93_19765|PHY93_19765 376 NPWDALVAKFKIGDKVKGKVKSIVDFGVFVDIGEEVDalIHVSDIS--WTRKNIVIADEFKEGQTVEAMVMA--VDKENQKFSLGL 457
                              569******************************9976225555555..455555666666544444333333..334444444444 PP

>> PCB_OB  Penicillin-binding protein OB-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   0.0      0.21   4.6e+02      22      69 ..      36      83 ..      23     108 .. 0.75
   2 !    9.4   0.0   0.00079       1.8      24      99 ..     208     271 ..     187     292 .. 0.82
   3 !   10.4   0.0   0.00038      0.85      36      90 ..     305     349 ..     282     373 .. 0.76
   4 ?    4.0   0.1     0.036        81      25      74 ..     381     430 ..     367     459 .. 0.71
   5 !    5.8   0.1    0.0099        22      26      98 ..     469     535 ..     448     546 .. 0.74

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.21
                             HHHCCTSSTCTTEEEEEEEEEETTEEEEEETTS-EEEEEGGGGTTTGC CS
                   PCB_OB 22 eealkklpdsgelrpAvVlsvseksarvglrdgetgtipleglkwark 69
                              + ++k  ++ge+  + ++s+ ++ ++v +  +++g +++++ +    
  PHY93_19765|PHY93_19765 36 HSSISKNFEEGEVFMGTIISIGQDYVTVDIGYKQEGLVSVKEFQNYDG 83
                             556677778889999999999999999999889999988887765555 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.00079
                              HCCTSSTCTTEEEEEEEEEETTEEEEEETTS-EEEEEGGGGTTTGCCTTTS-B---CCCHCCC--TTEEEEEEE-T CS
                   PCB_OB  24 alkklpdsgelrpAvVlsvseksarvglrdgetgtipleglkwarkvlsdkkqgkapksasdvlkpGdvvlvrkee 99 
                              ++ ++ ++g++++++V ++++ +a + l +g  g + + +++w r            k +s +l+ Gd + v+  +
  PHY93_19765|PHY93_19765 208 EILSQIEEGMVVKGIVKNITDYGAFIDL-GGIDGLLHITDMSWGRV-----------KHPSNILNIGDEIEVKILK 271
                              44555578999*****************.****************9...........89999*****999998666 PP

  == domain 3  score: 10.4 bits;  conditional E-value: 0.00038
                              EEEEEEEETTEEEEEETTS-EEEEEGGGGTTTGCCTTTS-B---CCCHCCC--TT CS
                   PCB_OB  36 pAvVlsvseksarvglrdgetgtipleglkwarkvlsdkkqgkapksasdvlkpG 90 
                               + ++sv++ ++ ++l+dg +g i +++++w +k  + +k  +a          G
  PHY93_19765|PHY93_19765 305 SGEIVSVKDYGVFIELDDGIEGLIHVSEMSWTNKIKNPTKHFNA----------G 349
                              556899****************************6555544333..........3 PP

  == domain 4  score: 4.0 bits;  conditional E-value: 0.036
                              CCTSSTCTTEEEEEEEEEETTEEEEEETTS-EEEEEGGGGTTTGCCTTTS CS
                   PCB_OB  25 lkklpdsgelrpAvVlsvseksarvglrdgetgtipleglkwarkvlsdk 74 
                              l +  + g+ +++ V s+ + ++ v + ++  + i +++++w rk +   
  PHY93_19765|PHY93_19765 381 LVAKFKIGDKVKGKVKSIVDFGVFVDIGEEVDALIHVSDISWTRKNIVIA 430
                              55555667777788888888889999999999999999999999965433 PP

  == domain 5  score: 5.8 bits;  conditional E-value: 0.0099
                              CTSSTCTTEEEEEEEEEETTEEEEEETTS-EEEEEGGGGTTTGCCTTTS-B---CCCHCCC--TTE.....EEEEEE- CS
                   PCB_OB  26 kklpdsgelrpAvVlsvseksarvglrdgetgtipleglkwarkvlsdkkqgkapksasdvlkpGd.....vvlvrke 98 
                              ++   +g +++A V++v++ +a v+l+ g +g i +++l+  r            +++sdv+k+Gd     v+ v ke
  PHY93_19765|PHY93_19765 469 ESRFPVGTVVEAEVVRVTDFGAFVELETGIEGLIHISELSEERV-----------EKPSDVIKKGDkpkamVISVDKE 535
                              4445578899999999**********999999999999998777...........68888888888555555555555 PP

>> EXOSC1  Exosome component EXOSC1/CSL4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.0       1.2   2.7e+03       4      28 ..      45      69 ..      27     119 .. 0.75
   2 ?   11.5   0.5   0.00016      0.36      65     107 ..     400     444 ..     354     446 .. 0.74
   3 ?    2.4   0.1       0.1   2.3e+02       5      75 ..     475     545 ..     472     569 .. 0.61

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 1.2
                             TT-EEEEEEEEEESSEEEEEEEEEC CS
                   EXOSC1  4 egdvVLarvtrlrkkqalveilsve 28
                             eg+v ++ ++ + +  ++v+i  ++
  PHY93_19765|PHY93_19765 45 EGEVFMGTIISIGQDYVTVDIGYKQ 69
                             5777777777777777777776553 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 0.00016
                              S...STTTT.SEEEEEECCCTECCSSSTT-GGCTEECTTEEEEEEE CS
                   EXOSC1  65 v...ssdlgetfkaiirsqdvRatekdrvkviemfrpGDIvraqvi 107
                                    d+ge+  a+i   d+  t k ++++ + f++G  v+a+v+
  PHY93_19765|PHY93_19765 400 DfgvFVDIGEEVDALIHVSDISWTRK-NIVIADEFKEGQTVEAMVM 444
                              134478***************77765.5778889*********997 PP

  == domain 3  score: 2.4 bits;  conditional E-value: 0.1
                              T-EEEEEEEEEESSEEEEEEEEECTBSBCCCEEECCCTTSS--STS.TTSSCCHC.TEEETTSSTTTT.SEEE CS
                   EXOSC1   5 gdvVLarvtrlrkkqalveilsvegennvlsdsgvgangegavkei.eaggglds.llsvatvssdlgetfka 75 
                              g vV a v+r++   a+ve+ +    +  + +s ++++   + +++ + g++ ++  +sv + ++++ +++ka
  PHY93_19765|PHY93_19765 475 GTVVEAEVVRVTDFGAFVELETG--IEGLIHISELSEERVEKPSDViKKGDKPKAmVISVDKEAKKIALSIKA 545
                              77899999999999999998764..223566666666665555555444444333033444445555555555 PP

>> AbrB_C  AbrB C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   0.1    0.0011       2.5      18      31 ..     105     118 ..     100     119 .. 0.92
   2 ?    1.6   0.0     0.098   2.2e+02      18      26 ..     188     196 ..     184     198 .. 0.85

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0011
                   AbrB_C  18 GkivLSkeGAeiLi 31 
                              G+++LSk+ AeiL 
  PHY93_19765|PHY93_19765 105 GNLILSKDKAEILK 118
                              9***********96 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.098
                   AbrB_C  18 GkivLSkeG 26 
                              G+ivLS+ +
  PHY93_19765|PHY93_19765 188 GNIVLSRRA 196
                              9*****865 PP

>> Flag1_repress  Repressor of phase-1 flagellin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   0.0      0.02        45      35     108 ..      86     166 ..      72     175 .. 0.77
   2 ?    6.2   0.1    0.0036         8      40      92 ..     174     227 ..     154     234 .. 0.82
   3 ?   -2.8   0.0       2.1   4.8e+03      50      73 ..     333     356 ..     328     366 .. 0.83

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.02
            Flag1_repress  35 vsedarvitgyvaklnske.nkvdlsdkp..fdkekrielkler....lailesgvteliandatnlslvhadyvdlrpsr 108
                                + + vi +y++kl s+  n+++  dk   ++  +ri l  e+      ++ + v  + + d+  ++ ++   +d rp+r
  PHY93_19765|PHY93_19765  86 KIKSGDVIEVYLEKLESNMgNLILSKDKAeiLKAWDRISLACESgeplTGTVIAKVKGGLSVDIGVKAFLPGSQIDIRPTR 166
                              567899*********998537888877754468889****99983332345555677788889999999999999999988 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.0036
            Flag1_repress  40 rvitgyvaklnskenkvdlsdkpfdkekrielklerlailesg.vteliandat 92 
                              + +   v k+n k+  + ls + +  e+r +++ e l+ +e g v+++i +++t
  PHY93_19765|PHY93_19765 174 KTMEFKVIKFNKKRGNIVLSRRAILAEERGKMRGEILSQIEEGmVVKGIVKNIT 227
                              55566789********************************99834567766655 PP

  == domain 3  score: -2.8 bits;  conditional E-value: 2.1
            Flag1_repress  50 nskenkvdlsdkpfdkekrielkl 73 
                              +s  nk++   k f+  +rie ++
  PHY93_19765|PHY93_19765 333 MSWTNKIKNPTKHFNAGERIEAQV 356
                              677899999999999999999765 PP

>> CsrA  Global regulator protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.1       1.2   2.8e+03      11      22 ..      16      27 ..      13      29 .. 0.80
   2 ?    9.9   0.0    0.0003      0.67      12      34 ..     259     283 ..     253     285 .. 0.80
   3 ?   -0.8   0.0      0.67   1.5e+03      15      32 ..     349     366 ..     345     371 .. 0.71
   4 ?   -3.4   0.1       4.6     1e+04      22      36 ..     529     545 ..     518     548 .. 0.61

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 1.2
                             EEEETTTEEEEE CS
                     CsrA 11 sIvIgddIeitv 22
                              +vIg+d+e +v
  PHY93_19765|PHY93_19765 16 DVVIGEDVETVV 27
                             689*****9777 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 0.0003
                              EEETTTEEEEEEEEETTE..EEEEE CS
                     CsrA  12 IvIgddIeitvlevegnq..vrlgI 34 
                              + Igd+Ie+++l+ + ++  v lg+
  PHY93_19765|PHY93_19765 259 LNIGDEIEVKILKFDTDKerVSLGL 283
                              68**********9997764477775 PP

  == domain 3  score: -0.8 bits;  conditional E-value: 0.67
                              TTTEEEEEEEEETTEEEE CS
                     CsrA  15 gddIeitvlevegnqvrl 32 
                              g+ Ie +vl+v+ ++ r+
  PHY93_19765|PHY93_19765 349 GERIEAQVLDVDVENKRI 366
                              789999999988655444 PP

  == domain 4  score: -3.4 bits;  conditional E-value: 4.6
                              EEEEETTE..EEEEEE- CS
                     CsrA  22 vlevegnq..vrlgIeA 36 
                              v++v++++  + l I+A
  PHY93_19765|PHY93_19765 529 VISVDKEAkkIALSIKA 545
                              55555544226666666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (570 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       517  (0.028836); expected 358.6 (0.02)
Passed bias filter:                      371  (0.0206927); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.64u 0.28s 00:00:00.92 Elapsed: 00:00:00.46
# Mc/sec: 3752.51
//
Query:       PHY93_19770|PHY93_19770  [L=164]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (164 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       847  (0.0472419); expected 358.6 (0.02)
Passed bias filter:                      470  (0.0262145); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.20s 00:00:00.61 Elapsed: 00:00:00.35
# Mc/sec: 1389.51
//
Query:       PHY93_19775|PHY93_19775  [L=186]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.062   13.4   0.0       0.13   12.4   0.0    1.5  1  Cupredoxin_1  Cupredoxin-like domain


Domain annotation for each model (and alignments):
>> Cupredoxin_1  Cupredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   7.4e-06      0.13       2      41 ..      15      54 ..      14      66 .. 0.91

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 7.4e-06
             Cupredoxin_1  2 laalavllllsskaaaaaektveitvkdggfePskievka 41
                             la+l  +++ls ++ ++a+++ +i + d+gf P+ki++++
  PHY93_19775|PHY93_19775 15 LALLGPAFFLSFQNYSEAQASLNIAFIDTGFCPNKIKIEK 54
                             6788889******************************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (186 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       532  (0.0296726); expected 358.6 (0.02)
Passed bias filter:                      442  (0.0246528); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.22s 00:00:00.62 Elapsed: 00:00:00.35
# Mc/sec: 1580.32
//
Query:       PHY93_19780|PHY93_19780  [L=1077]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
       0.03   13.2   9.1      0.012   14.6   5.7    2.0  2  Spc7          Spc7 kinetochore protein
      0.062   12.8   8.6       0.16   11.4   8.6    1.7  1  Golgin_A5     Golgin subfamily A member 5
       0.27   10.7   5.5       0.16   11.4   3.4    1.7  2  DUF4349       Domain of unknown function (DUF4349)
       0.28   11.9   2.4         50    4.7   0.0    4.1  4  DUF4162       Domain of unknown function (DUF4162)
       0.35   11.0   5.8       0.22   11.6   1.2    2.9  3  TPR_MLP1_2    TPR/MLP1/MLP2-like protein
       0.38   10.6   8.9       0.15   11.9   4.2    2.3  2  KASH_CCD      Coiled-coil region of CCDC155 or KASH
       0.58   10.7   9.9       0.17   12.5   3.6    3.2  2  APG6_N        Apg6 coiled-coil region
       0.65   10.5   5.5        3.5    8.2   2.0    3.2  3  Cep57_MT_bd   Centrosome microtubule-binding domain of Cep57
          1    9.9   4.5        2.3    8.7   0.8    2.8  2  ZapB          Cell division protein ZapB
        2.6    8.3   5.8         12    6.1   2.0    3.0  2  TMF_TATA_bd   TATA element modulatory factor 1 TATA binding
        3.2    7.2   9.7       0.17   11.4   3.4    2.1  2  HAUS-augmin3  HAUS augmin-like complex subunit 3
        4.2    6.4   7.3         10    5.1   7.3    1.6  1  Atg14         Vacuolar sorting 38 and autophagy-related subun
        5.7    7.6   6.2         28    5.4   2.6    2.8  2  SlyX          SlyX
        5.9    6.0   6.6        0.4    9.9   1.2    1.8  2  TMPIT         TMPIT-like protein


Domain annotation for each model (and alignments):
>> Spc7  Spc7 kinetochore protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   5.7   9.1e-06     0.012     137     271 ..      63     200 ..      60     206 .. 0.75
   2 ?   -2.1   0.1       1.1   1.4e+03     143     184 ..     901     942 ..     899     948 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 9.1e-06
                     Spc7 137 legLkegleenlegleedkelLekqeeeldellpeleeekaeleeeleklqeaaeeles...id.keeLeelreelaelkaeieek 218
                              l+++ke+l +++ +l+ ++++L  +++ l++  +  ++ k++l+++l++l++a e  ++   +d ++++    +++a+l+ ++ + 
  PHY93_19780|PHY93_19780  63 LDQIKEQLADQVRSLTGQRDNLIGHMNDLQQRIDGAKATKTSLQAQLAELNKAPEV-NKdqiLDiQNKMTVQDNSIADLSRQYGAS 147
                              789************************************************94332.22133555555555566666666666666 PP

                     Spc7 219 kkelaelqeqleeleekieelkeqkseleeeiaeaervleeckgwsesevsrl 271
                              k +l  ++ +l++++ ++  ++++ ++++ ++++  r +e+ ++   + ++++
  PHY93_19780|PHY93_19780 148 KLDLGPVNVRLDQIQHDFGIANQNSQNVMRRLQAMARDRENYRQDLINSIQNI 200
                              66666667777777777777777778888888888888777777666666655 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 1.1
                     Spc7 143 gleenlegleedkelLekqeeeldellpeleeekaeleeele 184
                              g+++  + +++  +  +k+ +++++l ++ +e  a+l++e++
  PHY93_19780|PHY93_19780 901 GVQKSSAMIQSSLRSFDKDLALANDLTQSATELLARLKAEIN 942
                              667777777777788888888888888888888888888776 PP

>> Golgin_A5  Golgin subfamily A member 5
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   8.6   0.00012      0.16       9     160 ..      53     202 ..      45     210 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00012
                Golgin_A5   9 ledYKqkAarILQsKekliasLkegsgeegle..sstalsaeldelkqerdllreelqklnqqieqlrtelqdleaqqqaeaeslr 92 
                               ed K   ar+ Q Ke+l +++++  g++++     + l++ +d +k+ +  l+++l++ln++ e  + ++ d++++++ +     
  PHY93_19780|PHY93_19780  53 AEDAKIEVARLDQIKEQLADQVRSLTGQRDNLigHMNDLQQRIDGAKATKTSLQAQLAELNKAPEVNKDQILDIQNKMTVQ----D 134
                              567788889999***********966655443115677999*********************************9988544....4 PP

                Golgin_A5  93 eqlqeleeqleeerkakeeveaelerlkeelryleeelvrskatlqsrikdrekeieklrnqlttksl 160
                              + +++l  q  +++     v+  l ++++++ +++++ +++   lq+  +dre+  ++l n +++ ++
  PHY93_19780|PHY93_19780 135 NSIADLSRQYGASKLDLGPVNVRLDQIQHDFGIANQNSQNVMRRLQAMARDRENYRQDLINSIQNINN 202
                              66899999999999999**************************************9999999987655 PP

>> DUF4349  Domain of unknown function (DUF4349)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   3.4   0.00013      0.16      27     138 ..      26     143 ..      22     185 .. 0.78
   2 ?   -3.7   0.0       5.4   6.9e+03      81      97 ..     923     939 ..     921     940 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00013
                  DUF4349  27 veeagGyvesss...ersgtegdersasltlRvPaarldafldelaelgkvtsrstsaeDVTeqyvDleaRlkaleasedrllall 109
                              + e  Gy+ ++s   +++++ +d  +    +++  arld+  ++la   +v+s + + +++   + Dl++R+   +a+ ++l+a l
  PHY93_19780|PHY93_19780  26 AGEIPGYIGQQSfrlQDDSQLSDLTRRAEDAKIEVARLDQIKEQLA--DQVRSLTGQRDNLIGHMNDLQQRIDGAKATKTSLQAQL 109
                              5667799999997765555556666666678888899999999998..67************************************ PP

                  DUF4349 110 ekak.....svedlleiereLsevqaeieslegq 138
                              ++ +     + + +l i+++++     i  l +q
  PHY93_19780|PHY93_19780 110 AELNkapevNKDQILDIQNKMTVQDNSIADLSRQ 143
                              9866244444456677777777666666666655 PP

  == domain 2  score: -3.7 bits;  conditional E-value: 5.4
                  DUF4349  81 aeDVTeqyvDleaRlka 97 
                              a D+T++ + l aRlka
  PHY93_19780|PHY93_19780 923 ANDLTQSATELLARLKA 939
                              689***********997 PP

>> DUF4162  Domain of unknown function (DUF4162)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.0     0.039        50      38      75 ..      34      72 ..      16      74 .. 0.88
   2 ?   -1.2   0.1       2.8   3.6e+03       3      57 ..     137     197 ..     136     203 .. 0.73
   3 ?    3.8   0.0     0.076        97      35      65 ..     777     808 ..     755     820 .. 0.70
   4 ?   -2.4   0.0       6.6   8.5e+03      43      62 ..     923     942 ..     899     948 .. 0.70

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.039
                             S-EEEEE-------------.----EEEEEEEE---HHH CS
                  DUF4162 38 gelelkledeeaanellkal.tsgveirsFeeeePsLnd 75
                             g+ +++l+d+++ ++l +++ ++++e+ ++ +++  L d
  PHY93_19780|PHY93_19780 34 GQQSFRLQDDSQLSDLTRRAeDAKIEVARLDQIKEQLAD 72
                             56789***************77********999987766 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 2.8
                              HHHHHTTS-SSEEEEE...-------..---EEEE-TT..S-EEEEE--.----------- CS
                  DUF4162   3 leeiKrsygknrieve...adaeelleepgveeveeeg..gelelkled.eeaanellkal 57 
                              + ++ r+yg  ++ ++      ++++   g+   + ++  ++l+   +d e+ +++l++ +
  PHY93_19780|PHY93_19780 137 IADLSRQYGASKLDLGpvnVRLDQIQHDFGIANQNSQNvmRRLQAMARDrENYRQDLINSI 197
                              5677789999999988654446666666776666666677888888888899999999887 PP

  == domain 3  score: 3.8 bits;  conditional E-value: 0.076
                              -TTS-EEEEE--.------------.---EEEE CS
                  DUF4162  35 eeggelelkled.eeaanellkalt.sgveirs 65 
                              +++g++++ + + +++ n+ll+al+ +g+  ++
  PHY93_19780|PHY93_19780 777 QDKGKASVIVANsDKNLNQLLDALSlAGG-TEK 808
                              3337778888877***********62554.444 PP

  == domain 4  score: -2.4 bits;  conditional E-value: 6.6
                              EE-----------------E CS
                  DUF4162  43 kledeeaanellkaltsgve 62 
                                + +++a ell++l++ ++
  PHY93_19780|PHY93_19780 923 ANDLTQSATELLARLKAEIN 942
                              44448899999999965554 PP

>> TPR_MLP1_2  TPR/MLP1/MLP2-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   1.2   0.00017      0.22      78     127 ..      61     110 ..      44     112 .. 0.85
   2 ?    2.9   0.5     0.083   1.1e+02       2      45 ..     101     144 ..     100     147 .. 0.89
   3 ?   -1.5   0.0       1.9   2.4e+03      20      51 ..     165     195 ..     151     205 .. 0.52

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00017
               TPR_MLP1_2  78 aeaesakaeleeseesweeqkeelekelselekriedlneqNklLhdQlE 127
                              a++++ k++l+ +  s++ q+++l  ++++l++ri+  ++  + L  Ql 
  PHY93_19780|PHY93_19780  61 ARLDQIKEQLADQVRSLTGQRDNLIGHMNDLQQRIDGAKATKTSLQAQLA 110
                              56899******************************************996 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.083
               TPR_MLP1_2   2 elksleeeikslkeekeeaeaklqklqedlekqaeiakeaqqkY 45 
                               ++sl++++++l++  e  ++++  +q++++ q ++ ++  ++Y
  PHY93_19780|PHY93_19780 101 TKTSLQAQLAELNKAPEVNKDQILDIQNKMTVQDNSIADLSRQY 144
                              5899***************************9999888877777 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 1.9
               TPR_MLP1_2  20 aeaklqklqedlekqaeiakeaqqkYerelvk 51 
                                 + q+ q+ ++  ++ a++ ++ Y + l++
  PHY93_19780|PHY93_19780 165 FGIANQNSQNVMRRLQAMARDREN-YRQDLIN 195
                              444444445555555554444433.5555554 PP

>> KASH_CCD  Coiled-coil region of CCDC155 or KASH
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   4.2   0.00011      0.15      65     157 ..      49     141 ..      34     151 .. 0.90
   2 ?    0.2   0.2      0.45   5.8e+02      77     110 ..     170     203 ..     158     212 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00011
                 KASH_CCD  65 leeEleelkalvkeleEkrarlkaqnkqlekenqsLiakiesLqeenikllaekdelkkklkeLlkekaeLkkqlheleellaeke 150
                              l    e++k  v +l+  +++l+ q + l   ++ Li ++++Lq+++   +a k  l+ +l+eL k  +  k q+  +++ ++ ++
  PHY93_19780|PHY93_19780  49 LTRRAEDAKIEVARLDQIKEQLADQVRSLTGQRDNLIGHMNDLQQRIDGAKATKTSLQAQLAELNKAPEVNKDQILDIQNKMTVQD 134
                              666789**************************************************************99999**99999999999 PP

                 KASH_CCD 151 alleekt 157
                              +++ +  
  PHY93_19780|PHY93_19780 135 NSIADLS 141
                              9887655 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.45
                 KASH_CCD  77 keleEkrarlkaqnkqlekenqsLiakiesLqee 110
                              ++++   +rl+a ++  e  +q Li  i++++++
  PHY93_19780|PHY93_19780 170 QNSQNVMRRLQAMARDRENYRQDLINSIQNINNQ 203
                              5677888888888888888889999999888765 PP

>> APG6_N  Apg6 coiled-coil region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   3.6   0.00013      0.17      11     126 ..      46     165 ..      42     172 .. 0.84
   2 ?   -1.6   0.2       2.9   3.8e+03      89     122 ..    1042    1075 ..    1036    1076 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 0.00013
                   APG6_N  11 leeldkqleqaekerdaYeeflkklkkekkeeek....qdeeleeleeeleklekeeeelleeLkelekereeleaelaaleeele 92 
                              l+ l+++ e+a+ e   + +  ++l ++ ++ +         +++l+++++  ++++ +l+++L+el k+ e  ++++ +++++  
  PHY93_19780|PHY93_19780  46 LSDLTRRAEDAKIEVARLDQIKEQLADQVRSLTGqrdnLIGHMNDLQQRIDGAKATKTSLQAQLAELNKAPEVNKDQILDIQNKMT 131
                              6677888888888888888888888888666544666645567789999999********************************** PP

                   APG6_N  93 aleeeeerfwreynelqlelleleeeldsleaqy 126
                                ++  +   r+y + +l+l   + +ld++++ +
  PHY93_19780|PHY93_19780 132 VQDNSIADLSRQYGASKLDLGPVNVRLDQIQHDF 165
                              ********************99999999998876 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 2.9
                   APG6_N   89 eelealeeeeerfwreynelqlelleleeeldsl 122 
                               ++ + l++ e+ f ++ ++++ +l ++  e++s+
  PHY93_19780|PHY93_19780 1042 ATNKVLNNMEDSFKKSLKNFNKDLYNKAYEQASI 1075
                               5667789999999999999999999988888876 PP

>> Cep57_MT_bd  Centrosome microtubule-binding domain of Cep57
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.2   2.0    0.0027       3.5      16      73 ..      66     125 ..      46     128 .. 0.89
   2 ?    1.7   0.0      0.28   3.5e+02      16      59 ..     157     199 ..     146     204 .. 0.81
   3 ?   -2.5   0.0       5.6   7.1e+03       9      25 ..    1039    1055 ..    1036    1062 .. 0.69

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.0027
              Cep57_MT_bd  16 vlkeLedEfehlklelqelaaqynaldpsl..gkrkRkdLaeeleelvkrlEaKadqIyk 73 
                              + ++L d+++ l  +++ l  ++n+l++++   k+ +++L+++l el k+ E+ +dqI  
  PHY93_19780|PHY93_19780  66 IKEQLADQVRSLTGQRDNLIGHMNDLQQRIdgAKATKTSLQAQLAELNKAPEVNKDQILD 125
                              55789999999****************9997778999********************965 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.28
              Cep57_MT_bd  16 vlkeLedEfehlklelqelaaqynaldpslgkrkRkdLaeelee 59 
                               l +++ +f+  +   q + ++++a+  +  ++ R+dL +++++
  PHY93_19780|PHY93_19780 157 RLDQIQHDFGIANQNSQNVMRRLQAMA-RDRENYRQDLINSIQN 199
                              6889999*******************8.5566667777777765 PP

  == domain 3  score: -2.5 bits;  conditional E-value: 5.6
              Cep57_MT_bd    9 pkeaLaevlkeLedEfe 25  
                               ++ a  +vl+++ed f+
  PHY93_19780|PHY93_19780 1039 IQSATNKVLNNMEDSFK 1055
                               45556678888888765 PP

>> ZapB  Cell division protein ZapB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.5   0.1      0.32   4.1e+02      24      45 ..      57      78 ..      44      89 .. 0.69
   2 ?    8.7   0.8    0.0018       2.3       7      64 ..      89     181 ..      82     188 .. 0.63

  Alignments for each domain:
  == domain 1  score: 1.5 bits;  conditional E-value: 0.32
                     ZapB 24 qmeieeLkeeneelkeenrele 45
                             + e+++L + +e+l+++ r l+
  PHY93_19780|PHY93_19780 57 KIEVARLDQIKEQLADQVRSLT 78
                             4577777777777777777765 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 0.0018
                     ZapB   7 eqLEskiqkaidtitlLqmeieeLkeeneelkeenrele.......eeneqlk................................. 52 
                              + L+++i+ a  t t+Lq +++eL +  e  k+++  ++                                               
  PHY93_19780|PHY93_19780  89 NDLQQRIDGAKATKTSLQAQLAELNKAPEVNKDQILDIQnkmtvqdN-----Siadlsrqygaskldlgpvnvrldqiqhdfgian 169
                              56777888888888888888888877777777777777655444331.....0333444445555555555555556666666766 PP

                     ZapB  53 eereawqerlkk 64 
                              ++ +++++rl++
  PHY93_19780|PHY93_19780 170 QNSQNVMRRLQA 181
                              666777777765 PP

>> TMF_TATA_bd  TATA element modulatory factor 1 TATA binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.1   2.0    0.0097        12      20      75 ..      59     114 ..      41     148 .. 0.62
   2 ?    2.2   0.1      0.16     2e+02       7      41 ..     169     203 ..     159     211 .. 0.70

  Alignments for each domain:
  == domain 1  score: 6.1 bits;  conditional E-value: 0.0097
              TMF_TATA_bd  20 eirrlEgElaslkeelerleaerdeareeivklmkeneelkelkkeleelekelee 75 
                              e+ rl+  +++l +++ +l+ +rd++   + +l ++ +  k++k++l+ + +el++
  PHY93_19780|PHY93_19780  59 EVARLDQIKEQLADQVRSLTGQRDNLIGHMNDLQQRIDGAKATKTSLQAQLAELNK 114
                              44555555555555666666666655555555555555555555555444444433 PP

  == domain 2  score: 2.2 bits;  conditional E-value: 0.16
              TMF_TATA_bd   7 agpsvqlverlsseirrlEgElaslkeelerleae 41 
                              +++s++++ rl++  r +E+  + l +++++++++
  PHY93_19780|PHY93_19780 169 NQNSQNVMRRLQAMARDRENYRQDLINSIQNINNQ 203
                              56666677777777777776666666666666554 PP

>> HAUS-augmin3  HAUS augmin-like complex subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   3.4   0.00013      0.17      64     165 ..      51     148 ..      35     160 .. 0.76
   2 ?   -3.3   0.2         4   5.2e+03     122     147 ..    1040    1065 ..    1025    1074 .. 0.62

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00013
             HAUS-augmin3  64 edvellevileeeeesleaLeqelqeLqkekalklkrlnkLqvqaaslqqelrkleeeekeakkklkeaqeelraenaetnavLqq 149
                              +  e ++ +++ +++ +e+L+++++ L  +++ ++ ++n Lq  +  ++ ++ +l+    ++  +l++a e ++ +++++++ ++ 
  PHY93_19780|PHY93_19780  51 RRAEDAKIEVARLDQIKEQLADQVRSLTGQRDNLIGHMNDLQQRIDGAKATKTSLQ----AQLAELNKAPEVNKDQILDIQNKMTV 132
                              45556677788888999999999999999999999999999976665555555555....55566788888999999999999999 PP

             HAUS-augmin3 150 lteeakqlaeyfeeae 165
                              + ++   l+ ++ +++
  PHY93_19780|PHY93_19780 133 QDNSIADLSRQYGASK 148
                              9999999999998775 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 4
             HAUS-augmin3  122 ekeakkklkeaqeelraenaetnavL 147 
                               +++++k+l++ ++++++  ++ n+ L
  PHY93_19780|PHY93_19780 1040 QSATNKVLNNMEDSFKKSLKNFNKDL 1065
                               45566666666666666666555555 PP

>> Atg14  Vacuolar sorting 38 and autophagy-related subunit 14
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   7.3     0.008        10      22     138 ..      51     199 ..      39     212 .. 0.66

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.008
                    Atg14  22 erlyelrerlaklksekeslkkkiekalegke....eaeqledkiknkkakleelksliadlrerlqelkdklsqlkkeieekkkk 103
                              +r ++ ++++a+l   ke+l  ++  +  +++               ++++++  k+++ +l+++l+el++  + +k++i + ++k
  PHY93_19780|PHY93_19780  51 RRAEDAKIEVARLDQIKEQLADQVRSLTGQRDnligH-------MNDLQQRIDGAKATKTSLQAQLAELNKAPEVNKDQILDIQNK 129
                              5778899******************888888855544.......555555555555555555555555555555555555555555 PP

                    Atg14 104 laklsdklk...................................kRrsdleslqneleerrkkqiaklqd 138
                              +  ++++++                                     +++l+++    e++r+++i+++q+
  PHY93_19780|PHY93_19780 130 MTVQDNSIAdlsrqygaskldlgpvnvrldqiqhdfgianqnsqNVMRRLQAMARDRENYRQDLINSIQN 199
                              5555555554444444777777777777777777777777777744445557777777777777777776 PP

>> SlyX  SlyX
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.4   2.6     0.022        28       4      55 ..      52     103 ..      49     116 .. 0.81
   2 ?    2.6   0.1      0.16   2.1e+02       3      25 ..     121     143 ..     119     185 .. 0.85

  Alignments for each domain:
  == domain 1  score: 5.4 bits;  conditional E-value: 0.022
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-XXXXXXXX CS
                     SlyX   4 rleeLEiklafqedtieeLndvvaeqqqqidrlqrqlrllaerlkeleessg 55 
                              r e+  i++a +++  e+L d+v     q d l  +++ l++r+  +++++ 
  PHY93_19780|PHY93_19780  52 RAEDAKIEVARLDQIKEQLADQVRSLTGQRDNLIGHMNDLQQRIDGAKATKT 103
                              5666678999**********************************65555443 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.16
                              HHHHHHHHHHHHHHHHHHHHHHH CS
                     SlyX   3 erleeLEiklafqedtieeLndv 25 
                              +++ +++ k++ q++ i +L+++
  PHY93_19780|PHY93_19780 121 DQILDIQNKMTVQDNSIADLSRQ 143
                              67889999999999999999986 PP

>> TMPIT  TMPIT-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   1.2   0.00031       0.4       3     111 ..      59     161 ..      57     173 .. 0.85
   2 ?   -3.6   0.4       3.9     5e+03      37      75 ..    1027    1065 ..    1019    1072 .. 0.49

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00031
                    TMPIT   3 eweelekefkeleetakeykqkleelsklqskcskeikkqkkrlkelksslkklkksvkeeeeeeveelkeelkerkkvlkevesl 88 
                              e+++l +  ++l ++ ++++ + ++l  + ++++++i+  k   ++l+++l +l+k+  e +++++ ++++++  +++++++++  
  PHY93_19780|PHY93_19780  59 EVARLDQIKEQLADQVRSLTGQRDNLIGHMNDLQQRIDGAKATKTSLQAQLAELNKAP-EVNKDQILDIQNKMTVQDNSIADLSRQ 143
                              6778888899999*****************************************9985.799999**************9998876 PP

                    TMPIT  89 lpkknglylklvlGnvnvsllnk 111
                                ++     kl lG+vnv+l + 
  PHY93_19780|PHY93_19780 144 YGAS-----KLDLGPVNVRLDQI 161
                              4433.....56778888877665 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 3.9
                    TMPIT   37 keikkqkkrlkelksslkklkksvkeeeeeeveelkeel 75  
                                ++++   ++++++s+ +k+ ++++++ ++ +++ +++l
  PHY93_19780|PHY93_19780 1027 DAMSNSDIMMSKIQSATNKVLNNMEDSFKKSLKNFNKDL 1065
                               444444444555555555555444444444444444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1077 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1340  (0.0747392); expected 358.6 (0.02)
Passed bias filter:                      651  (0.0363099); expected 358.6 (0.02)
Passed Vit filter:                        93  (0.00518713); expected 17.9 (0.001)
Passed Fwd filter:                        23  (0.00128284); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.92u 0.25s 00:00:01.17 Elapsed: 00:00:00.41
# Mc/sec: 7790.93
//
Query:       PHY93_19785|PHY93_19785  [L=813]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (813 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       308  (0.0171789); expected 358.6 (0.02)
Passed bias filter:                      173  (0.00964917); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.62u 0.24s 00:00:00.86 Elapsed: 00:00:00.43
# Mc/sec: 5715.71
//
Query:       PHY93_05545|PHY93_05545  [L=243]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.3e-08   33.5   1.1      9e-08   32.4   1.1    1.5  1  HTH_26           Cro/C1-type HTH DNA-binding domain
    5.8e-06   26.3   0.6    3.7e-05   23.7   0.8    2.1  2  HTH_3            Helix-turn-helix
    0.00074   19.0   2.7      0.031   13.9   0.1    3.6  3  HTH_24           Winged helix-turn-helix DNA-binding
  ------ inclusion threshold ------
      0.021   14.6   0.2       0.46   10.4   0.0    2.8  3  HTH_AsnC-type    AsnC-type helix-turn-helix domain
      0.093   12.9   0.1        2.1    8.6   0.0    2.5  2  Bac_DNA_binding  Bacterial DNA-binding protein
        1.5    8.7   4.9        1.1    9.2   0.1    3.2  4  HU-CCDC81_bac_2  CCDC81-like prokaryotic HU domain 2


Domain annotation for each model (and alignments):
>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.4   1.1     3e-11     9e-08       2      58 ..      11      65 ..      10      66 .. 0.95

  Alignments for each domain:
  == domain 1  score: 32.4 bits;  conditional E-value: 3e-11
                   HTH_26  2 LrelmadrgitkseLargtgisaatlsrlvkgkpervsldtLdkiCdaLgctpgDLl 58
                             L++ +++r+i + +La+ +++s+++++r+++ k  ++sl++L+ iC+a + ++++++
  PHY93_05545|PHY93_05545 11 LKRSLKARNILYRDLAETLNLSESSVKRILSSK--SLSLERLEEICKASDLSFAEIC 65
                             778899**************************9..***************9999985 PP

>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.7   0.8   1.2e-08   3.7e-05       1      54 [.      11      63 ..      11      64 .. 0.92
   2 ?   -0.5   0.0      0.46   1.4e+03      19      28 ..     186     195 ..     184     197 .. 0.86

  Alignments for each domain:
  == domain 1  score: 23.7 bits;  conditional E-value: 1.2e-08
                             HHHHHHHTTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHHH CS
                    HTH_3  1 lkelRkqlglsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvslde 54
                             lk+ +k++++  ++LAe l++s s++ ri + ++  sle+l++++ka ++s++e
  PHY93_05545|PHY93_05545 11 LKRSLKARNILYRDLAETLNLSESSVKRILSSKS-LSLERLEEICKASDLSFAE 63
                             677889**************************77.***********98888877 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.46
                              HTSSHHHHHH CS
                    HTH_3  19 lGvsrstisr 28 
                              +G++++++s+
  PHY93_05545|PHY93_05545 186 AGLTPQALSK 195
                              799*****98 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.9   0.1     1e-05     0.031      17      38 ..      19      40 ..       8      42 .. 0.85
   2 ?    1.2   0.0      0.09   2.7e+02       9      25 ..      50      66 ..      50      68 .. 0.91
   3 ?    1.7   0.1     0.065     2e+02       7      19 ..     202     215 ..     199     218 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 1e-05
                   HTH_24 17 risqreLAerlglSpstvnrrl 38
                             +i +r+LAe l+lS s v+r l
  PHY93_05545|PHY93_05545 19 NILYRDLAETLNLSESSVKRIL 40
                             4889***************987 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.09
                   HTH_24  9 LelLqknprisqreLAe 25
                             Le++ k +++s +e+++
  PHY93_05545|PHY93_05545 50 LEEICKASDLSFAEICR 66
                             899************87 PP

  == domain 3  score: 1.7 bits;  conditional E-value: 0.065
                   HTH_24   7 kILelLqknpr.is 19 
                              k+L ++q+++r is
  PHY93_05545|PHY93_05545 202 KLLAEIQEEARfIS 215
                              89********9777 PP

>> HTH_AsnC-type  AsnC-type helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0   0.00015      0.46      20      36 ..      22      38 ..      17      38 .. 0.93
   2 ?   -1.8   0.0      0.94   2.8e+03       9      23 ..      50      64 ..      50      67 .. 0.83
   3 ?    0.3   0.0      0.22   6.5e+02       7      17 ..     202     212 ..     201     213 .. 0.92

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00015
            HTH_AsnC-type 20 yaeLAervGlSestvlr 36
                             y++LAe ++lSes v r
  PHY93_05545|PHY93_05545 22 YRDLAETLNLSESSVKR 38
                             89************987 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 0.94
            HTH_AsnC-type  9 LeaLqedaRisyaeL 23
                             Le++ + + +s+ae+
  PHY93_05545|PHY93_05545 50 LEEICKASDLSFAEI 64
                             6788888999**998 PP

  == domain 3  score: 0.3 bits;  conditional E-value: 0.22
            HTH_AsnC-type   7 kILeaLqedaR 17 
                              k+L+++qe aR
  PHY93_05545|PHY93_05545 202 KLLAEIQEEAR 212
                              89******998 PP

>> Bac_DNA_binding  Bacterial DNA-binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   0.0      0.11   3.1e+02       6      27 ..      21      42 ..      16      60 .. 0.86
   2 ?    8.6   0.0    0.0007       2.1       9      54 ..     108     153 ..     106     163 .. 0.91

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.11
                             HHHHHHTT----HHHHHHHHHH CS
          Bac_DNA_binding  6 Lieeiaektgltkkdakrvvea 27
                             L + +ae  +l++ ++kr++++
  PHY93_05545|PHY93_05545 21 LYRDLAETLNLSESSVKRILSS 42
                             778899************9986 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0007
                              HHHTT----HHHHHHHHHHHHHHHHHHHHTT-EEEETTTEEEEEEE CS
          Bac_DNA_binding   9 eiaektgltkkdakrvveafldtikeaLkkgekvelsgFGtfkvke 54 
                              +i ++ ++t+++ k+++ ++  +   +L+  ++v+++g Gt+  k+
  PHY93_05545|PHY93_05545 108 KIEKEYEITNNESKKLLLQLDRLNLIELHPRDRVKIKGVGTLRFKR 153
                              7889999**********************************98875 PP

>> HU-CCDC81_bac_2  CCDC81-like prokaryotic HU domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0      0.91   2.7e+03      29      37 ..      11      19 ..       2      48 .. 0.58
   2 ?   -1.0   0.0      0.55   1.6e+03       7      21 ..      53      67 ..      50      88 .. 0.59
   3 ?    9.2   0.1   0.00035       1.1      31      55 ..     133     157 ..     107     174 .. 0.72
   4 ?   -1.1   0.1       0.6   1.8e+03      16      39 ..     190     213 ..     189     217 .. 0.74

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.91
          HU-CCDC81_bac_2 29 lkqeLeeeg 37
                             lk+ L+ ++
  PHY93_05545|PHY93_05545 11 LKRSLKARN 19
                             555554433 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.55
          HU-CCDC81_bac_2  7 iaeaegisyeeAlqk 21
                             i++a ++s+ e  + 
  PHY93_05545|PHY93_05545 53 ICKASDLSFAEICRN 67
                             788888888887654 PP

  == domain 3  score: 9.2 bits;  conditional E-value: 0.00035
          HU-CCDC81_bac_2  31 qeLeeegrveleniGeLslneegkl 55 
                               eL+ + rv+++++G+L+++ +g +
  PHY93_05545|PHY93_05545 133 IELHPRDRVKIKGVGTLRFKRDGAV 157
                              58999**************998743 PP

  == domain 4  score: -1.1 bits;  conditional E-value: 0.6
          HU-CCDC81_bac_2  16 eeAlqkiekeveelkqeLeeegrv 39 
                              ++Al+k +  +e+l  e++ee r+
  PHY93_05545|PHY93_05545 190 PQALSKFKVKIEKLLAEIQEEARF 213
                              677777788888888888888776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (243 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       962  (0.0536561); expected 358.6 (0.02)
Passed bias filter:                      550  (0.0306766); expected 358.6 (0.02)
Passed Vit filter:                        63  (0.00351386); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.49u 0.18s 00:00:00.67 Elapsed: 00:00:00.38
# Mc/sec: 1933.12
//
Query:       PHY93_19790|PHY93_19790  [L=523]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.5e-29  102.3  46.1      1e-28  100.3  23.4    4.6  3  MCPsignal     Methyl-accepting chemotaxis protein (MCP) signa
    1.1e-17   64.2   3.2    1.1e-17   64.2   3.2    4.1  4  4HB_MCP_1     Four helix bundle sensory module for signal tra
  ------ inclusion threshold ------
       0.02   14.8   0.2       0.02   14.8   0.2    4.2  5  DASH_Dad4     DASH complex subunit Dad4
      0.021   14.8   0.0      0.021   14.8   0.0    3.5  4  TarH          Tar ligand binding domain homologue
      0.028   14.9   0.5        0.1   13.0   0.0    2.2  2  COX6A         Cytochrome c oxidase subunit VIa
       0.15   12.4   1.4         34    4.9   0.0    3.4  2  Tiam_CC_Ex    T-lymphoma invasion and metastasis CC-Ex domain
       0.34   10.9  40.6       0.27   11.2   5.8    4.5  3  Laminin_II    Laminin Domain II
       0.46   10.8   8.0       0.77   10.0   2.1    2.7  2  Big_3_2       Bacterial Ig-like domain
       0.83   10.3   3.5         22    5.7   0.1    3.5  3  DUF493        Protein of unknown function (DUF493)


Domain annotation for each model (and alignments):
>> MCPsignal  Methyl-accepting chemotaxis protein (MCP) signalling domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   1.1      0.21   4.1e+02      97     140 ..      86     135 ..      73     192 .. 0.59
   2 !    7.0   7.5    0.0024       4.7      95     167 ..     213     282 ..     176     287 .. 0.68
   3 !  100.3  23.4   5.1e-32     1e-28       3     170 ..     286     482 ..     284     484 .. 0.86

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.21
                              .............HHHHHHHH......HHHHHHHHHCCHHHHHHHHHHHH CS
                MCPsignal  97 eiqkeindsvesleetrqrve......egselveetgealkeiveavaev 140
                              eiq +i+ds++ + + +++++      e+ + v+++  ++k  ve+++++
  PHY93_19790|PHY93_19790  86 EIQDDIEDSTDNILKNVSEIDrlkvkdETKKAVADSLPEIKLYVENAKKI 135
                              56666666666665555555411100122233333333333333333333 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.0024
                              H..............HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal  95 iieiqkeindsvesleetrqrveegselveetgealkeiveavaevadlvqeiaaaseeqsasieevnqavee 167
                              i ++ + i  +ve l+e+++ v+++ ++v+ + ++l+ iv+   ++ ++++e aaa +e+sa i++ n++ e+
  PHY93_19790|PHY93_19790 213 INNLIASITGTVERLSESVHDVQNSGQKVNFASNKLAIIVQD--QI-SSITETAAAMDEISAMIKQNNHSAEN 282
                              333445555566666777777777777777777777777653..33.35677788888888888888777665 PP

  == domain 3  score: 100.3 bits;  conditional E-value: 5.1e-32
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHH.....................HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCCC CS
                MCPsignal   3 laeeaseeAeeggkevanvvkqmeeieks.....................skeisdiieVideiadQTNlLALNAaiEAARAGeqG 67 
                              l++e+++ A +g + +++ + +m++i+ks                      + i++ ++Vi++i +QT lL  NA++EAARAGe+G
  PHY93_19790|PHY93_19790 286 LSHESKKAAVSGVHIIEKLLIEMDAIAKSydeiqesvsdnnneikkiidvISLIANKTHVINDIVFQTKLLSFNASVEAARAGEAG 371
                              577889999999999999999999999999999999999988877776666777777889************************** PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHHHH......................HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHH CS
                MCPsignal  68 rGFaVVAdEVrkLAersaqaakeiealiieiqkeindsve........sleetrqrveegselveetgealkeiveavaevadlvq 145
                              +GF+VVA E+ +L + s +aa++i++++i+ q++++  +e        ++++ r +v +gs+ + e++e+l++i +++++++ +++
  PHY93_19790|PHY93_19790 372 KGFSVVAVEISNLTSVSGKAANDIAEMLIDSQNQVKLIAEattsnigvIVSSGRDKVLSGSKVTVESKEQLENILNNINQLDLTIS 457
                              **************************99988877653332111112224678899******************************* PP

                              HHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal 146 eiaaaseeqsasieevnqaveevak 170
                              ei+aa +eqs+++eevn a++++++
  PHY93_19790|PHY93_19790 458 EITAAIKEQSSGVEEVNLAMKNLEN 482
                              *******************998776 PP

>> 4HB_MCP_1  Four helix bundle sensory module for signal transduction
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.2   3.2   5.5e-21   1.1e-17       1     178 [.       4     184 ..       4     187 .. 0.95
   2 ?    2.4   2.3      0.05     1e+02      14     110 ..     197     292 ..     192     296 .. 0.79
   3 ?    0.4   0.5       0.2   4.1e+02      76     102 ..     307     333 ..     298     337 .. 0.74
   4 ?    3.0   1.9     0.033        65      72     115 ..     437     481 ..     424     508 .. 0.65

  Alignments for each domain:
  == domain 1  score: 64.2 bits;  conditional E-value: 5.5e-21
                4HB_MCP_1   1 nlkirkKLillflllallliivGvvGlyslkkinknletmYedrllpikdlgeikanlrelradlleli....ltkdkaekdellk 82 
                              nl i+ KLi l ++++ l++i+Gv+G++++ ki +nle++ e +l  ++ ++ ++ + +++++ +++ +     ++d++ k+e+++
  PHY93_19790|PHY93_19790   4 NLPIKVKLIGLCSFFLSLILIIGVFGVVEIFKIGENLENIAEVQLPAVRKMTIADMYHDAIKSIVFQSLhfasTSTDPKLKKEIQD 89 
                              899**************************************************************99653333679********** PP

                4HB_MCP_1  83 dieeleaeidkllekyektilteeEkelleefkeqlnaYrevrkkvlelakegkkdeAyqlyetegrparekliealeelvdlnlk 168
                              die+  ++i k+ ++++++++ +e k+ +++   +++ Y e  kk++ la  ++  +A + + + + +++++l+ +le+l++l + 
  PHY93_19790|PHY93_19790  90 DIEDSTDNILKNVSEIDRLKVKDETKKAVADSLPEIKLYVENAKKIVSLALDKNMAKAEESLPEFL-QHFSNLEVKLEKLATLIER 174
                              ******************************************************************.****************999 PP

                4HB_MCP_1 169 vAeeaykdnk 178
                              +++ ++  +k
  PHY93_19790|PHY93_19790 175 DSNAVKIHSK 184
                              9999887666 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.05
                4HB_MCP_1  14 llallliivGvvGlyslkkinknletmYedrllpikdlgeikanlrelradlleliltkdkaekdellkdieeleaeidkllekye 99 
                              l+++ lii ++++++ ++++ ++++  +e    ++ d+++  ++++   ++ l +i+ ++ +  +e++++++e++a i ++  + e
  PHY93_19790|PHY93_19790 197 LIIAGLIIGSAFSYIIINNLIASITGTVERLSESVHDVQNSGQKVN-FASNKLAIIVQDQISSITETAAAMDEISAMIKQNNHSAE 281
                              5555555556999999999999999999988888999888888875.788899999999999999999999999999998887777 PP

                4HB_MCP_1 100 ktilteeEkel 110
                              +    + E+++
  PHY93_19790|PHY93_19790 282 NALNLSHESKK 292
                              77777777665 PP

  == domain 3  score: 0.4 bits;  conditional E-value: 0.2
                4HB_MCP_1  76 ekdellkdieeleaeidkllekyekti 102
                              e+d+++k+ +e+++++ ++ ++++k+i
  PHY93_19790|PHY93_19790 307 EMDAIAKSYDEIQESVSDNNNEIKKII 333
                              678888888888888888888888875 PP

  == domain 4  score: 3.0 bits;  conditional E-value: 0.033
                4HB_MCP_1  72 kdkaekdellkdieeleaeidkllekyektilteeEke.lleefk 115
                              + k++ +++l++i++l+  i ++++++++ +   eE +  +++++
  PHY93_19790|PHY93_19790 437 ESKEQLENILNNINQLDLTISEITAAIKEQSSGVEEVNlAMKNLE 481
                              456677777777777777777777777777777777662333333 PP

>> DASH_Dad4  DASH complex subunit Dad4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.2       2.1   4.3e+03      19      52 ..     143     173 ..     141     190 .. 0.54
   2 ?   14.8   0.2     1e-05      0.02      10      49 ..     214     253 ..     213     264 .. 0.94
   3 ?   -0.0   0.2      0.44   8.8e+02      32      66 ..     254     288 ..     249     293 .. 0.68
   4 ?   -2.2   0.3       2.1   4.1e+03      19      37 ..     314     332 ..     300     343 .. 0.58
   5 ?    3.1   3.8     0.047        93      13      59 ..     442     488 ..     437     500 .. 0.81

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 2.1
                DASH_Dad4  19 nvekLnesvvelnkeleeinkkNknvelvsqlwe 52 
                              n+ k  es+ e+ +++++      ++e +++l+e
  PHY93_19790|PHY93_19790 143 NMAKAEESLPEFLQHFSNL---EVKLEKLATLIE 173
                              5666666655554444443...344444455554 PP

  == domain 2  score: 14.8 bits;  conditional E-value: 1e-05
                DASH_Dad4  10 salLsRIiknvekLnesvvelnkeleeinkkNknvelvsq 49 
                              ++l++ I ++ve+L+esv++++++ +++n + ++++++ q
  PHY93_19790|PHY93_19790 214 NNLIASITGTVERLSESVHDVQNSGQKVNFASNKLAIIVQ 253
                              689999*************************999999876 PP

  == domain 3  score: -0.0 bits;  conditional E-value: 0.44
                DASH_Dad4  32 keleeinkkNknvelvsqlwenYqrnvqfnLeatg 66 
                               ++++i++  + ++ +s ++++ +++++  L+ ++
  PHY93_19790|PHY93_19790 254 DQISSITETAAAMDEISAMIKQNNHSAENALNLSH 288
                              56777777778888888888877777776665444 PP

  == domain 4  score: -2.2 bits;  conditional E-value: 2.1
                DASH_Dad4  19 nvekLnesvvelnkeleei 37 
                              + + + esv + n+e+++i
  PHY93_19790|PHY93_19790 314 SYDEIQESVSDNNNEIKKI 332
                              3344444444444444444 PP

  == domain 5  score: 3.1 bits;  conditional E-value: 0.047
                DASH_Dad4  13 LsRIiknvekLnesvvelnkeleeinkkNknvelvsqlwenYqrnvq 59 
                              L+ I++n+++L  ++ e+  +++e ++  ++v+l+ + +en  +n  
  PHY93_19790|PHY93_19790 442 LENILNNINQLDLTISEITAAIKEQSSGVEEVNLAMKNLENTTHNST 488
                              788******************99999999999888888887766655 PP

>> TarH  Tar ligand binding domain homologue
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   0.0     1e-05     0.021       3      59 ..       3      59 ..       1      65 [. 0.94
   2 ?    0.4   0.1      0.27   5.3e+02      51     127 ..      88     160 ..      82     190 .. 0.57
   3 ?   -2.6   0.1       2.3   4.5e+03     130     144 ..     264     278 ..     224     290 .. 0.67
   4 ?   -0.7   0.2      0.59   1.2e+03      36      64 ..     476     504 ..     421     513 .. 0.69

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 1e-05
                             XXXXXXXXXXXXXXXXXXXXXXXXSSSSSSHHHHHHHCHHHHHHH.HHHHHHHHHHH CS
                     TarH  3 krisIrtrLllvlallgvLllvsgglglsglsrsndalrevytnrlqqqaaLaearv 59
                             k++ I+  L+ +  ++  L+l++g+ g+  + +  ++l+++++ +l++ ++++ a++
  PHY93_19790|PHY93_19790  3 KNLPIKVKLIGLCSFFLSLILIIGVFGVVEIFKIGENLENIAEVQLPAVRKMTIADM 59
                             8999********************************************999987776 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.27
                              HHHHHHHHHHHHHHHHHHHHHHHHHTTTSSSSS.SHHHHHHHHHHHHHHHHHHHHHTS---GGGHH.HHHHHHHHHHH CS
                     TarH  51 qaaLaearvsllqaRltLnragiaaladeaeda.kellaraeeslaqseeawkaYlalprtaeeeealaaelkakyka 127
                              q+++ +++++ l++   ++r     ++de+++a ++ l +++ +++++++      al ++ ++ e+ + e+ +++ +
  PHY93_19790|PHY93_19790  88 QDDIEDSTDNILKNVSEIDR---LKVKDETKKAvADSLPEIKLYVENAKKIVSL--ALDKNMAKAEESLPEFLQHFSN 160
                              66777788888888888888...7777777777644444444444444443322..2222222222234444444444 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 2.3
                              HHHHHHHHHHHTT-H CS
                     TarH 130 dglapliaaleagnl 144
                              ++++++ a+++++n+
  PHY93_19790|PHY93_19790 264 AAMDEISAMIKQNNH 278
                              233333333333333 PP

  == domain 4  score: -0.7 bits;  conditional E-value: 0.59
                              HHHHCHHHHHHH.HHHHHHHHHHHHHHHH CS
                     TarH  36 sndalrevytnrlqqqaaLaearvsllqa 64 
                              +  +l+++ +n+++ +++  e++++l+++
  PHY93_19790|PHY93_19790 476 AMKNLENTTHNSTTITQKTKESSDELTKQ 504
                              34566666666666666666666666665 PP

>> COX6A  Cytochrome c oxidase subunit VIa
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   5.3e-05       0.1      23      69 ..     172     218 ..     147     244 .. 0.79
   2 ?   -1.6   0.1       1.8   3.6e+03      17      46 ..     266     295 ..     251     327 .. 0.67

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 5.3e-05
                    COX6A  23 FvkereavkeHaeettdlwrklslyvaipalilaainaynlekeHae 69 
                                ++ +avk H++e+t+  +k+s   +i +li+ ++  y + ++  +
  PHY93_19790|PHY93_19790 172 IERDSNAVKIHSKESTQNAKKISSGLIIAGLIIGSAFSYIIINNLIA 218
                              5678899****************************999998877555 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 1.8
                    COX6A  17 aaaeneFvkereavkeHaeettdlwrklsl 46 
                              + + ++ +k++++ +e a + ++  +k ++
  PHY93_19790|PHY93_19790 266 MDEISAMIKQNNHSAENALNLSHESKKAAV 295
                              345567778888888888888877777654 PP

>> Tiam_CC_Ex  T-lymphoma invasion and metastasis CC-Ex domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.3     0.023        46      18      46 ..      76     104 ..      58     143 .. 0.75
   2 ?    4.9   0.0     0.017        34       3      45 ..     306     348 ..     304     385 .. 0.79

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.023
               Tiam_CC_Ex  18 ssvtdakkkktildqiflweenlekfrld 46 
                              s+ td+k kk i+d+i    +n+ k   +
  PHY93_19790|PHY93_19790  76 STSTDPKLKKEIQDDIEDSTDNILKNVSE 104
                              6789************9999998775444 PP

  == domain 2  score: 4.9 bits;  conditional E-value: 0.017
               Tiam_CC_Ex   3 idmdekmkkmgelqlssvtdakkkktildqiflweenlekfrl 45 
                              i+md   k   e+q s+  ++ + k i d i l  + +   + 
  PHY93_19790|PHY93_19790 306 IEMDAIAKSYDEIQESVSDNNNEIKKIIDVISLIANKTHVIND 348
                              89************987777778899***99988877665554 PP

>> Laminin_II  Laminin Domain II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.3   7.8   0.00054       1.1       2      90 ..      85     174 ..      84     196 .. 0.85
   2 ?   -0.8  11.0      0.73   1.4e+03      25     110 ..     251     344 ..     209     354 .. 0.60
   3 ?   11.2   5.8   0.00014      0.27      19      98 ..     435     518 ..     420     521 .. 0.73

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.00054
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.XXXXXXX--TTTTTGGGHHHHHHHHHH.. CS
               Laminin_II   2 kelaaeanetakevleqlaplsqnlentkeklseinrsveetnekvkdankairdA.rrsvkkLeklapqLldklkelkqleeass 86 
                              ke+ +++++++ ++l+ + +++ +l+   e  + +++s+ e++  v++a+k++ +A  +++ k e+ +p+ l+ +++l+ + e+ +
  PHY93_19790|PHY93_19790  85 KEIQDDIEDSTDNILKNVSEID-RLKVKDETKKAVADSLPEIKLYVENAKKIVSLAlDKNMAKAEESLPEFLQHFSNLEVKLEKLA 169
                              778899***************8.57777788889*********************955689******************9999876 PP

                              ..HHH CS
               Laminin_II  87 s.lsd 90 
                              + + +
  PHY93_19790|PHY93_19790 170 TlIER 174
                              65555 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 0.73
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.......XXXXXXX--TTTTTGGGHHHHHHHHHH....HHHHHHHHHHHHHHH CS
               Laminin_II  25 nlentkeklseinrsveetnekvkdankairdA.......rrsvkkLeklapqLldklkelkqleeasss.lsdniseikelIaqA 102
                               ++   +++ e ++ ++e+ + +k+ n+  + A       +++ +   + +++Ll  +  + +  ++ +  +sdn +eik++I + 
  PHY93_19790|PHY93_19790 251 IVQDQISSITETAAAMDEISAMIKQNNHSAENAlnlshesKKAAVSGVHIIEKLLIEMDAIAKSYDEIQEsVSDNNNEIKKIIDVI 336
                              44444444444444444444444433333333300000002222222344677777778887776665555999999999999988 PP

                              HHHHHT-- CS
               Laminin_II 103 RkaAnkik 110
                                 Ank  
  PHY93_19790|PHY93_19790 337 SLIANKTH 344
                              88888765 PP

  == domain 3  score: 11.2 bits;  conditional E-value: 0.00014
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX--TTT...TTGGGHHHHHHHHHH.....HHHHHHHHHHH CS
               Laminin_II  19 laplsqnlentkeklseinrsveetnekvkdankairdArrsvkkLeklap...qLldklkelkqleeasss..lsdniseikel 98 
                              + + +++len+ +++++++ ++ e+++ +k+ + ++++++ ++k+Le++      + +k ke      ++ s  l  +++e+++l
  PHY93_19790|PHY93_19790 435 TVESKEQLENILNNINQLDLTISEITAAIKEQSSGVEEVNLAMKNLENTTHnstTITQKTKESSDELTKQ-ShvLRFSVQELRKL 518
                              5566789999999999999999999999999999999999999999987651114666655544433332.24688888888887 PP

>> Big_3_2  Bacterial Ig-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.4   0.4     0.045        89      37      79 ..     255     295 ..     217     302 .. 0.78
   2 ?   10.0   2.1   0.00039      0.77       3      76 ..     413     483 ..     412     512 .. 0.78

  Alignments for each domain:
  == domain 1  score: 3.4 bits;  conditional E-value: 0.045
                  Big_3_2  37 rlsGitddasGidsaklrvidsdgsvyssvnvsydegqgtvsi 79 
                              ++s it++a+ +d++++ +++++ s   ++ ++++ +++++++
  PHY93_19790|PHY93_19790 255 QISSITETAAAMDEISAMIKQNNHS--AENALNLSHESKKAAV 295
                              56789****************9998..5555555555555554 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00039
                  Big_3_2   3 tassisattssgynmvtsgavwelglgaaskaalrlsGitddasGidsaklrvidsdgsvyssvnvsydegqgt 76 
                              t+s+i +  ssg + v+sg+  +  ++ +++ ++ l++i + +  i+++++ ++++++ v+ +vn+++ + ++t
  PHY93_19790|PHY93_19790 413 TTSNIGVIVSSGRDKVLSGS--KVTVESKEQLENILNNINQLDLTISEITAAIKEQSSGVE-EVNLAMKNLENT 483
                              6889999999**********..6666799**********999**************77655.555554444433 PP

>> DUF493  Protein of unknown function (DUF493)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.1     0.068   1.4e+02      25      64 ..     215     255 ..     203     273 .. 0.79
   2 ?    5.7   0.1     0.011        22      58      78 ..     433     453 ..     386     457 .. 0.82
   3 ?   -0.7   0.1       1.1   2.1e+03      25      60 ..     458     493 ..     455     504 .. 0.77

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.068
                   DUF493  25 avvevverhapdfdeetvevres.skgkYlSvtvtvrvese 64 
                              ++++ ++ ++++++e+ + v++s +k ++ S ++ + v+++
  PHY93_19790|PHY93_19790 215 NLIASITGTVERLSESVHDVQNSgQKVNFASNKLAIIVQDQ 255
                              5666777777888999999999999*************975 PP

  == domain 2  score: 5.7 bits;  conditional E-value: 0.011
                   DUF493  58 tvrveseeqldalyqeLkahp 78 
                              +v+ves+eql+++ +++++ +
  PHY93_19790|PHY93_19790 433 KVTVESKEQLENILNNINQLD 453
                              79************9998866 PP

  == domain 3  score: -0.7 bits;  conditional E-value: 1.1
                   DUF493  25 avvevverhapdfdeetvevresskgkYlSvtvtvr 60 
                              +++++++++   ++e ++ +++ ++ ++ S t+t +
  PHY93_19790|PHY93_19790 458 EITAAIKEQSSGVEEVNLAMKNLENTTHNSTTITQK 493
                              688888888888888889999999999999998754 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (523 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2489  (0.138825); expected 358.6 (0.02)
Passed bias filter:                      618  (0.0344693); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                        26  (0.00145016); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.87u 0.23s 00:00:01.10 Elapsed: 00:00:00.46
# Mc/sec: 3437.54
//
Query:       PHY93_19795|PHY93_19795  [L=223]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.8e-47  159.2   0.6    6.8e-47  159.2   0.6    1.6  2  DDE_Tnp_IS240  DDE domain
    2.4e-07   31.0   0.1      5e-07   29.9   0.1    1.5  1  rve            Integrase core domain
     0.0013   18.3   0.3     0.0029   17.1   0.0    1.6  2  DDE_Tnp_IS66   Transposase IS66 family
  ------ inclusion threshold ------
      0.043   11.8   0.2       0.05   11.6   0.2    1.1  1  SCP-1          Synaptonemal complex protein 1 (SCP-1)
      0.052   13.7   0.1       0.25   11.5   0.0    1.9  2  CEP209_CC5     Coiled-coil region of centrosome protein CE290


Domain annotation for each model (and alignments):
>> DDE_Tnp_IS240  DDE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.0       0.8   2.9e+03      85     107 ..      45      66 ..      23      69 .. 0.53
   2 !  159.2   0.6   1.9e-50   6.8e-47       2     139 ..      71     205 ..      70     206 .. 0.98

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 0.8
            DDE_Tnp_IS240  85 devshvqvkylnnriEsdhrtlK 107
                               +++++  k     iE+++r+ K
  PHY93_19795|PHY93_19795  45 TSINRWVLKF-TPDIEKKFRKHK 66 
                              3444444444.445666666555 PP

  == domain 2  score: 159.2 bits;  conditional E-value: 1.9e-50
            DDE_Tnp_IS240   2 kswrvDETyvkikGkwaYlyravDkegrildflvskrRdtkaakaflrkalkkeklepeeivtDkasayasalkelkregelfdev 87 
                               swr+DETy+kikG+w+YlyravDk+g+++dfl++++Rd+kaa +f+rka+ ++ + p++i++Dk++a+ +++k  ++  ++  ++
  PHY93_19795|PHY93_19795  71 TSWRMDETYIKIKGQWKYLYRAVDKNGETVDFLLTAKRDRKAALRFFRKAIASS-GTPVKINIDKSGANTAGIKDYNE--KKKTNI 153
                              59****************************************************.***********************..57799* PP

            DDE_Tnp_IS240  88 shvqvkylnnriEsdhrtlKkrlrptrgfkslksaaktlagfeavknlrkgh 139
                              + +q kylnn++Esdhr++K+ ++p+ gf+s++sa+k+lag+e+v  +rkg+
  PHY93_19795|PHY93_19795 154 EIRQCKYLNNIVESDHRNVKRITNPMMGFQSFSSAKKVLAGIEMVAIIRKGQ 205
                              **************************************************98 PP

>> rve  Integrase core domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.9   0.1   1.4e-10     5e-07       5     117 ..      70     174 ..      66     175 .. 0.88

  Alignments for each domain:
  == domain 1  score: 29.9 bits;  conditional E-value: 1.4e-10
                      rve   5 gelwqvDvtvvripdgggkayllvvvddfsrlilaealsdemdastvlalleravarfggvepervlsDngseytskafrefladl 90 
                              g  w +D t+++i+  g+++yl+ +vd     +    + ++ d +++l++ ++a+a+ g   p +++ D+  + t   ++++ ++ 
  PHY93_19795|PHY93_19795  70 GTSWRMDETYIKIK--GQWKYLYRAVDKNGETVDFLLTAKR-DRKAALRFFRKAIASSGT--PVKINIDKSGANT-AGIKDYNEKK 149
                              778*********66..457*********9999999999999.******************..9******998888.7888888888 PP

                      rve  91 girvsftrpgrpqdnGkvErfhrtlkd 117
                              +++++   +++ + n +vE+ hr +k+
  PHY93_19795|PHY93_19795 150 KTNIEI--RQCKYLNNIVESDHRNVKR 174
                              888754..56799**********9997 PP

>> DDE_Tnp_IS66  Transposase IS66 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.0     8e-07    0.0029      16     122 ..      21     118 ..       8     129 .. 0.87
   2 ?   -1.4   0.1      0.36   1.3e+03     250     280 ..     158     188 ..     142     190 .. 0.78

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 8e-07
             DDE_Tnp_IS66  16 kyadhlPlyRqeeilarlGvelsrgtlanwvkraaelleplvealkaallasevihaDETtlrvlkpgrgkgkksylWvyvtdkrk 101
                                ++ ++++ +ee++ + G+e++ +++ +wv +    +e+   + k  + +s +  +DET ++       kg+ +yl+ +v ++  
  PHY93_19795|PHY93_19795  21 YLSYPVSYRNIEEMMLERGIEVDHTSINRWVLKFTPDIEKKFRKHKHVVGTSWR--MDETYIK------IKGQWKYLYRAVDKN-G 97 
                              5678899999*******************************9999999988875..8******......899999999999988.7 PP

             DDE_Tnp_IS66 102 pavlfeyspsRggevaealLa 122
                              ++v f  +++R +++a +++ 
  PHY93_19795|PHY93_19795  98 ETVDFLLTAKRDRKAALRFFR 118
                              9999*********99998854 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.36
             DDE_Tnp_IS66 250 vpidNNaaERaiRpvvlgRKnslfagseeGa 280
                              ++  NN++E + R v+   + +++++s   a
  PHY93_19795|PHY93_19795 158 CKYLNNIVESDHRNVKRITNPMMGFQSFSSA 188
                              5566999999999999888888877776665 PP

>> SCP-1  Synaptonemal complex protein 1 (SCP-1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.2   1.4e-05      0.05     545     618 ..     109     180 ..      76     199 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 1.4e-05
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.....................XXXXXXXXXXXXXXXXXXXXXXX CS
                    SCP-1 545 nlrdelesvrkelkqkrdevkckldkseenarsieyevlkkekqlkilenkcnnlkkqvenkskyieelqqenk 618
                              + +  l + rk +   +  vk ++dks  n+  i+    kk+   +i   +c+ l++ ve   ++++ + +   
  PHY93_19795|PHY93_19795 109 DRKAALRFFRKAIASSGTPVKINIDKSGANTAGIKDYNEKKKT--NIEIRQCKYLNNIVESDHRNVKRITNPMM 180
                              445678999*********************9888766555555..555578999*******9999988776555 PP

>> CEP209_CC5  Coiled-coil region of centrosome protein CE290
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.0      0.43   1.6e+03      77      99 ..      79     101 ..      71     105 .. 0.81
   2 ?   11.5   0.0   7.1e-05      0.25      65     116 ..     139     190 ..     134     198 .. 0.87

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 0.43
               CEP209_CC5  77 ltkqkeeikylknlieeqertis 99 
                                k k + kyl + ++++ +t++
  PHY93_19795|PHY93_19795  79 YIKIKGQWKYLYRAVDKNGETVD 101
                              56789999***999999998886 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 7.1e-05
               CEP209_CC5  65 elrlqelklkreltkqkeeikylknlieeqertisklEeeivqlnkvheerq 116
                              +++++++  k++ + +  ++kyl+n++e+  r ++++ + ++  +++ + ++
  PHY93_19795|PHY93_19795 139 TAGIKDYNEKKKTNIEIRQCKYLNNIVESDHRNVKRITNPMMGFQSFSSAKK 190
                              67899******************************99998888777776665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (223 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       616  (0.0343577); expected 358.6 (0.02)
Passed bias filter:                      397  (0.0221429); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.38
# Mc/sec: 1743.84
//
Query:       PHY93_19800|PHY93_19800  [L=405]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (405 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       497  (0.0277205); expected 358.6 (0.02)
Passed bias filter:                      337  (0.0187964); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.40
# Mc/sec: 3014.01
//
Query:       PHY93_19805|PHY93_19805  [L=653]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.5e-37  128.1  11.7    2.3e-36  125.0   6.4    3.5  2  DUF4082   Domain of unknown function (DUF4082)
    1.4e-29  102.7  18.1    8.2e-17   61.7   6.7    5.6  5  Big_7     Bacterial Ig domain
      0.001   19.4   3.4       0.02   15.2   0.1    3.5  3  fn3       Fibronectin type III domain
     0.0046   16.9   1.8        1.3    9.1   0.2    2.9  3  Y_Y_Y     Y_Y_Y domain


Domain annotation for each model (and alignments):
>> DUF4082  Domain of unknown function (DUF4082)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.0   0.2     0.011        49      23      44 ..     324     345 ..     321     386 .. 0.80
   2 !  125.0   6.4   5.1e-40   2.3e-36       9     142 ..     411     542 ..     401     543 .. 0.94

  Alignments for each domain:
  == domain 1  score: 4.0 bits;  conditional E-value: 0.011
                  DUF4082  23 ssvdGsitgvrfykgagntgth 44 
                              +++dG+i +v+fy+g+++ g+ 
  PHY93_19805|PHY93_19805 324 TDSDGTIAKVEFYNGTTKLGED 345
                              789***********98877765 PP

  == domain 2  score: 125.0 bits;  conditional E-value: 5.1e-40
                  DUF4082   9 addtsavelGvrFtssvdGsitgvrfykgagntgthtgslWsatgtlLasatftnetasGwqtvtlsspvavtagttYvvsyhaps 94 
                               + + ++elG+rF ++++G+i++++fyk+++++g+htg+++satg+lLas+ ft+etasGwq+ tls+p++++a+t+Y+v++++ +
  PHY93_19805|PHY93_19805 411 DGANVNYELGMRFMATTAGQIKAIKFYKSTSESGAHTGKIYSATGALLASVLFTAETASGWQQQTLSAPLTIAANTEYTVAVNTGN 496
                              3466789******************************************************************************* PP

                  DUF4082  95 gryaatanyFaagvtsgpltaasanngvYaygasgafPtqsynssnYw 142
                               +y+ t ++ a +++sg+++   ++ngvY +   g++P +sy++snY+
  PHY93_19805|PHY93_19805 497 TYYVDTVSGMATQIVSGNIKSIVGSNGVYGSI--GTMPINSYQNSNYF 542
                              *******************************9..9************8 PP

>> Big_7  Bacterial Ig domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0       2.9   1.3e+04      22      42 ..     129     151 ..     128     163 .. 0.66
   2 ?   -2.2   1.2       1.7   7.6e+03      53      55 ..     223     225 ..     174     245 .. 0.55
   3 !   61.7   6.7   1.8e-20   8.2e-17       1      70 []     298     366 ..     298     366 .. 0.97
   4 ?    4.0   2.6      0.02        88       9      55 ..     410     454 ..     407     509 .. 0.71
   5 !   55.3   3.5   1.9e-18   8.6e-15       1      70 []     562     635 ..     562     635 .. 0.94

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 2.9
                              EEEEE-SS-EEEEEEE..ETTEE CS
                    Big_7  22 sasAsddggvskVefy..vdgtl 42 
                              s++A+  ++ ++V ++  +dg+l
  PHY93_19805|PHY93_19805 129 SGNATQTSNANRVAISglNDGNL 151
                              56777777777777743366665 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 1.7
                              EEE CS
                    Big_7  53 slt 55 
                              s++
  PHY93_19805|PHY93_19805 223 SYN 225
                              222 PP

  == domain 3  score: 61.7 bits;  conditional E-value: 1.8e-20
                              XEEEEEE--TT--EB.TSEEEEEEEEE-S.S-EEEEEEEETTEE.EEEE-SSSEEEEEE--...SEEEEEEE CS
                    Big_7   1 PtvtitsPangatvs.ggtvtisasAsdd.ggvskVefyvdgtlglgtdtsapysltwtttaltagthtltV 70 
                              P+v++t+P  gat++ g+++tisa+A+d+ g+++kVefy+++t+ lg+d ++pys+ ++ +   ag++tl++
  PHY93_19805|PHY93_19805 298 PVVSVTAPVTGATFTsGSNITISANATDSdGTIAKVEFYNGTTK-LGEDLTSPYSFVINNS--IAGNYTLSA 366
                              9*******************************************.**************98..6999*9986 PP

  == domain 4  score: 4.0 bits;  conditional E-value: 0.02
                              -TT--EBTSEEEEEEEEE-SS-EEEEEEEETTEE.EEEE-SSSEEEE CS
                    Big_7   9 angatvsggtvtisasAsddggvskVefyvdgtlglgtdtsapyslt 55 
                              ++ga+v+   +  +  A+ +g+++ ++fy  +++ +g+ t   ys+t
  PHY93_19805|PHY93_19805 410 SDGANVN-YELGMRFMATTAGQIKAIKFYKSTSE-SGAHTGKIYSAT 454
                              6788888.88899999***************999.666666666655 PP

  == domain 5  score: 55.3 bits;  conditional E-value: 1.9e-18
                              XEEEEEE--TT--EB.TS....EEEEEEEEE-SS-EEEEEEEETTEE.EEEE-SSSEEEEEE--...SEEEEEEE CS
                    Big_7   1 PtvtitsPangatvs.gg....tvtisasAsddggvskVefyvdgtlglgtdtsapysltwtttaltagthtltV 70 
                              P ++itsPang+ vs ++    +v+i+a Asd++gvskVefyv+g+l  +td +a y++++++t  ++ +++++V
  PHY93_19805|PHY93_19805 562 PLTSITSPANGTLVSvATsasrKVNITAVASDNVGVSKVEFYVNGSL-KCTDVTAAYNCSFSITRTKGVQYKIQV 635
                              789*********99987778899************************.****************99999999987 PP

>> fn3  Fibronectin type III domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.1   4.4e-06      0.02      13      77 ..      27      87 ..      19      91 .. 0.84
   2 ?   -0.9   0.1      0.49   2.2e+03      64      77 ..     483     496 ..     463     500 .. 0.75
   3 ?    2.4   0.1     0.044     2e+02      66      83 ..     628     645 ..     626     647 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 4.4e-06
                             SSEEEEEEE-CSSSSSTEEEEEEEEEETTSTSTEEEEEECSTSSEEEEESSSTTEEEEEEEEEEE CS
                      fn3 13 stsltvsWeppkdgggpitgYeveyrekgseeewneftvprtttsvtltgLkpgteYevrVqavn 77
                             s ++ + W+p    + ++ gYe++y  ++++  ++ ++v ++t ++++ +L +g++Y +   ++n
  PHY93_19805|PHY93_19805 27 SANVKLAWDPV--IDPNLGGYEIHYGLTSNNY-TQIVDVGNDT-QFEIVNLLEGKTYYFAAVSYN 87
                             5678899**99..699999******9997774.8888888888.**************9776665 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.49
                              STTEEEEEEEEEEE CS
                      fn3  64 kpgteYevrVqavn 77 
                               ++teY+v V + n
  PHY93_19805|PHY93_19805 483 AANTEYTVAVNTGN 496
                              67899999998766 PP

  == domain 3  score: 2.4 bits;  conditional E-value: 0.044
                              TEEEEEEEEEEETSEEEE CS
                      fn3  66 gteYevrVqavngggegp 83 
                              g +Y+++V+a+ ++g+ +
  PHY93_19805|PHY93_19805 628 GVQYKIQVKAYDAAGNMG 645
                              89**********998655 PP

>> Y_Y_Y  Y_Y_Y domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.7   0.0       2.7   1.2e+04      20      40 ..      58      77 ..      55      77 .. 0.79
   2 !    9.1   0.2   0.00028       1.3      30      65 ..     351     385 ..     334     386 .. 0.81
   3 !    6.0   0.0    0.0026        12      26      57 ..     616     647 ..     609     653 .] 0.82

  Alignments for each domain:
  == domain 1  score: -3.7 bits;  conditional E-value: 2.7
                             SEEEESSTS.EEEEES--SEE CS
                    Y_Y_Y 20 eWveasdysqeasytnlppGd 40
                             + v+ ++ + ++++ nl +G+
  PHY93_19805|PHY93_19805 58 QIVDVGNDT-QFEIVNLLEGK 77
                             567778888.99999998886 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.00028
                              EEEEES--SEEEEEEEEEEETTS-B-SS-EEEEEEE CS
                    Y_Y_Y  30 easytnlppGdYtlkVkakdndgqwnyditslsfti 65 
                              ++ ++n  +G+Ytl +ka dn g   +    +++t+
  PHY93_19805|PHY93_19805 351 SFVINNSIAGNYTLSAKAFDNQGATTSS-SVVNLTV 385
                              8999******************999888.5555555 PP

  == domain 3  score: 6.0 bits;  conditional E-value: 0.0026
                              STS.EEEEES--SEEEEEEEEEEETTS-B-SS CS
                    Y_Y_Y  26 dysqeasytnlppGdYtlkVkakdndgqwnyd 57 
                              +y+ ++s+t  +  +Y+++Vka d  g+  + 
  PHY93_19805|PHY93_19805 616 AYNCSFSITRTKGVQYKIQVKAYDAAGNMGSS 647
                              56668999999999***********9998876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (653 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       698  (0.0389313); expected 358.6 (0.02)
Passed bias filter:                      385  (0.0214736); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.60u 0.23s 00:00:00.83 Elapsed: 00:00:00.40
# Mc/sec: 4940.61
//
Query:       PHY93_00005|PHY93_00005  [L=88]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      2e-20   73.1   0.3    2.1e-20   73.0   0.3    1.0  1  Response_reg     Response regulator receiver domain
     0.0028   17.3   0.0     0.0034   17.0   0.0    1.1  1  Ribosom_S12_S23  Ribosomal protein S12/S23
  ------ inclusion threshold ------
      0.048   14.0   0.1      0.057   13.8   0.1    1.1  1  FleQ             Flagellar regulatory protein FleQ


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.0   0.3   3.5e-24   2.1e-20       1      84 [.       4      85 ..       4      88 .] 0.96

  Alignments for each domain:
  == domain 1  score: 73.0 bits;  conditional E-value: 3.5e-24
                             EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHH CS
             Response_reg  1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseee 84
                             +li+dD+  +r+llr  le +gy ++ ea++g+e l+++ ee++ +illD+ +p+ +Gl++lkeir+ + ++p+iilt  ++++
  PHY93_00005|PHY93_00005  4 ILIIDDESSIRKLLRVSLEANGY-QIVEAQTGQEGLQKILEERPEVILLDLGLPDKSGLTILKEIRQWS-QTPIIILTVVDNDQ 85
                             8**********************.9******************************************88.********888766 PP

>> Ribosom_S12_S23  Ribosomal protein S12/S23
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.0   5.7e-07    0.0034      35      77 ..      10      53 ..       7      67 .. 0.82

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 5.7e-07
                             --S-EEEEEEEET.TSEEE.EEEE-SSS..----TT-EEEEEE- CS
          Ribosom_S12_S23 35 nsAlRkvvrvrLikngkev.tafipgegalnfldEhdevlvrGi 77
                              s +Rk+ rv L  ng+++  a +++eg  + l+E  ev++  +
  PHY93_00005|PHY93_00005 10 ESSIRKLLRVSLEANGYQIvEAQTGQEGLQKILEERPEVILLDL 53
                             599*************9962688888887788899999987655 PP

>> FleQ  Flagellar regulatory protein FleQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.1   9.5e-06     0.057       1      78 [.       3      81 ..       3      87 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 9.5e-06
                     FleQ  1 kiLvidddaerrrdletiLeFlgeeveavsseel.saaleesssealavilgsvs.sleealealaekdphlPvlllges 78
                             kiL+idd+++ r+ l + Le  g +++  +  +   ++  e++ e++++ lg  + s  + l+++ +++ + P+++l+  
  PHY93_00005|PHY93_00005  3 KILIIDDESSIRKLLRVSLEANGYQIVEAQTGQEgLQKILEERPEVILLDLGLPDkSGLTILKEIRQWS-QTPIIILTVV 81
                             7************************66655555548889999999999999999855566666666665.5677766554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (88 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       359  (0.0200234); expected 358.6 (0.02)
Passed bias filter:                      293  (0.0163422); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.34u 0.21s 00:00:00.55 Elapsed: 00:00:00.34
# Mc/sec: 767.44
//
Query:       PHY93_00010|PHY93_00010  [L=267]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.03   14.2   0.1      0.068   13.1   0.1    1.7  1  COS       TRIM C-terminal subgroup One Signature domain


Domain annotation for each model (and alignments):
>> COS  TRIM C-terminal subgroup One Signature domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.1   3.8e-06     0.068      16      33 ..      26      43 ..       7      51 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 3.8e-06
                      COS 16 rVsmATASsQVLIPeinl 33
                              V+mAT S+Q+ IP  ++
  PHY93_00010|PHY93_00010 26 GVAMATPSTQIWIPSTDI 43
                             59************7654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (267 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       468  (0.026103); expected 358.6 (0.02)
Passed bias filter:                      384  (0.0214178); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.20s 00:00:00.64 Elapsed: 00:00:00.36
# Mc/sec: 2233.97
//
Query:       PHY93_00015|PHY93_00015  [L=132]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-13   51.2   0.1    1.3e-13   51.1   0.1    1.0  1  AA_kinase        Amino acid kinase family
  ------ inclusion threshold ------
      0.066   13.3   0.4       0.15   12.1   0.4    1.6  1  Myco_arth_vir_N  Mycoplasma virulence signal region (Myco_art


Domain annotation for each model (and alignments):
>> AA_kinase  Amino acid kinase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.1   0.1   1.5e-17   1.3e-13       2     116 ..       3     106 ..       2     129 .. 0.90

  Alignments for each domain:
  == domain 1  score: 51.1 bits;  conditional E-value: 1.5e-17
                              EEEEEE-TTCCCCTCCHHHHHHHHHHHHHHHHTTEEEEEE--.HHHHHHHHHHTCCCCCHHHC....E..HHHHHHHHHHHHHHHH CS
                AA_kinase   2 rvVvKlGGssltdkeeaslrrlaeqiaalkesgnklvvVhGg.gsftdgllalksglssgelaaglrstleeagevatrdalaslg 86 
                              ++V K+GG+ l+d ++  ++++a  i +lk+s+++++v+++  g++td l+a+ ++ls+++++              + d l+s g
  PHY93_00015|PHY93_00015   3 LIVQKFGGATLADLGK--IKSVAVRIHELKKSKKNIIVIVSTmGKTTDTLIAQSYNLSEHPNQ-------------RELDVLLSTG 73 
                              79**************..******************************************999.............355******* PP

                              HHHHHHHHHTTHGEEEE-GGGTCEECCCE.... CS
                AA_kinase  87 erlvaallaaglpavglsaaaldateagr...d 116
                              e + a+ la +l++ g +a +++ t ag+   +
  PHY93_00015|PHY93_00015  74 EVIPASYLAIALNDLGRPAISFTGTHAGFiirS 106
                              **************************9995543 PP

>> Myco_arth_vir_N  Mycoplasma virulence signal region (Myco_arth_vir_N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.4   1.7e-05      0.15       3      17 ..      28      42 ..      27      44 .. 0.91

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 1.7e-05
          Myco_arth_vir_N  3 flKKKKikIltlalv 17
                              lKK K+ I++++++
  PHY93_00015|PHY93_00015 28 ELKKSKKNIIVIVST 42
                             59***********97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (132 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       725  (0.0404373); expected 358.6 (0.02)
Passed bias filter:                      571  (0.0318478); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.41u 0.20s 00:00:00.61 Elapsed: 00:00:00.36
# Mc/sec: 1098.49
//
Query:       PHY93_00020|PHY93_00020  [L=90]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0011   18.7   0.0     0.0013   18.4   0.0    1.2  1  ACT_7     ACT domain
  ------ inclusion threshold ------
      0.033   14.6   0.5      0.042   14.3   0.5    1.3  1  NOC3p     Nucleolar complex-associated protein


Domain annotation for each model (and alignments):
>> ACT_7  ACT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0   1.5e-07    0.0013      21      65 .]      38      83 ..      23      83 .. 0.92

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 1.5e-07
                             --HHHHHHHHHHTTT---EEEE.-SS-EEEEEEGGGHHHHHHHHHH CS
                    ACT_7 21 tGivaklaspLaeagIsifqiS.tyrtdyiLVpeedlekAveaLhe 65
                             +  + k++ +L +  I+i ++  ++ +  i+++  +  +A+e Lh+
  PHY93_00020|PHY93_00020 38 PELMEKIVDVLEKKEIQIMYMIiSAMSVTIFIKPGYRIQAIELLHQ 83
                             667899**************999*********************95 PP

>> NOC3p  Nucleolar complex-associated protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.5   4.7e-06     0.042      22      65 ..      39      79 ..       3      88 .. 0.70

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 4.7e-06
                    NOC3p 22 sllkrllklaeskdsavtvrklallsllaVfkDiiPgYrIrslt 65
                             +l+++++++ e+k+  +++  ++++s ++V   i PgYrI++++
  PHY93_00020|PHY93_00020 39 ELMEKIVDVLEKKE--IQI-MYMIISAMSVTIFIKPGYRIQAIE 79
                             67778888777777..444.4567899*************9865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (90 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       804  (0.0448435); expected 358.6 (0.02)
Passed bias filter:                      514  (0.0286686); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.30s 00:00:00.84 Elapsed: 00:00:00.56
# Mc/sec: 479.74
//
Query:       PHY93_00025|PHY93_00025  [L=555]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   5.4e-221  734.5  37.8   6.4e-221  734.3  37.8    1.0  1  KdpA      Potassium-transporting ATPase A subunit
  ------ inclusion threshold ------
      0.065   13.6   1.5        0.2   12.0   0.2    2.4  3  DUF3390   Domain of unknown function (DUF3390)


Domain annotation for each model (and alignments):
>> KdpA  Potassium-transporting ATPase A subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  734.3  37.8  7.1e-225  6.4e-221       2     547 .]      11     549 ..      10     549 .. 0.97

  Alignments for each domain:
  == domain 1  score: 734.3 bits;  conditional E-value: 7.1e-225
                              HHHHHHHHHHHHHHHHHHHHHTT-...--SS-SHHHHHHHHHHT---.----HHHHHHHHHHHHHHHHHHHHHHHHTTTTSS--SS CS
                     KdpA   2 lllllllllalplgkylakvfegektlldkllkpverllyrllgvdeeeemtwkeYalalllfnlvlllllylllrlqgvlplnpe 87 
                              l++ ++++l+ +lgky+akvfeg+     ++++++e+++yr+lg+d+++em+w +Y+l+ll+fnl+++l+++++l++q +lp+np+
  PHY93_00025|PHY93_00025  11 LTFGAIIVLTPILGKYMAKVFEGKI----NIFSKIENMIYRVLGLDAHKEMNWVDYTLNLLVFNLIGFLFVIAILMFQVHLPFNPQ 92 
                              678899******************6....68999**************************************************** PP

                              ------HHHHHHHHHHHHTT-----S-HHHH--HHHHHTTHHHHHHHHHHHHHHHHHHHHHHH.....HS-S-S----HHHHHHHH CS
                     KdpA  88 glealspdlafntavSFvtntnlQhYsgestlsylsqmlgltvlnFvsaatGlavavalirgl.....arketkelGnfyvdlvra 168
                              ++++l   lafn a SFvtntn+Q+Y gest+sy+sqm++l ++nF+saat+++v++al+rgl     +++e+++lGnf++dl+r+
  PHY93_00025|PHY93_00025  93 HFASLPFPLAFNVATSFVTNTNWQSYGGESTMSYFSQMMALGTQNFLSAATAMTVLLALVRGLsrksiKEREAETLGNFWKDLTRS 178
                              ***************************************************************43333345669************ PP

                              HHHTHHHHHHHHHHHHHHHT--------EEEE-SSS-EEEE--SSHHHHHHHHHHTT----SSSSTTTSTTTS-SHHHHHHHHHHH CS
                     KdpA 169 ilrvLLPlslvvalllvaqGvpqtlsgkaevttlegakqtialGpvAsleaIkqlGtnGGGffgaNsahpfenptaltnlleilai 254
                              +l++L+Pls+v+a++lv qG++q++++++++tt+eg+ q i+ Gp+As++aIkqlGtnGGGff++Nsahpfenpt+l+n+l++l+i
  PHY93_00025|PHY93_00025 179 TLFILIPLSIVLAFILVKQGTIQNFATYVHATTIEGKDQLIPGGPAASQIAIKQLGTNGGGFFNVNSAHPFENPTPLSNWLSLLSI 264
                              ************************************************************************************** PP

                              HHHHHHHHHHHHHHTS-THHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHH..-----TTB-SSS-HHHHHHHHHHHHHTT---- CS
                     KdpA 255 llipaalvftfGrmvkdkrqglailavmlvlflvllvvvvvaeaagnpalaeeqaggnmeGkEvrfGiaasalfavvttatstGav 340
                              +lipaal++t+G +++ k+qg+ai+a+m+++++v++++++ ++ a            +meGkE+r+Gi +s++++  t a+s+G+v
  PHY93_00025|PHY93_00025 265 ILIPAALTYTYGLLIGAKKQGWAIFAAMMIMLMVGTFIIMKSDLAV----------NMMEGKETRLGIINSSMWTGWTSAASNGSV 340
                              **************************************99988663..........469*************************** PP

                              SS-GGGS-HHHHHHHHHHHHT.S-TT-TTTHHHHHHHHHHHHHHHHHHHHHTS--EETTEE--HHHHHHHHHHHHHHHHHHHHHHH CS
                     KdpA 341 namhdsltplgglvpllnmml.evvfGGvGvGllnllvfvilavFiagLmvGrtPeylgkkiearevklaalaiLvhpllilvgta 425
                              nam++s  pl+g v++ln+ml ev+fGGvG+Gl+++++fvil+vF++gLmvGrtPeylgkkie+re+k+++laiL+ +++il+g a
  PHY93_00025|PHY93_00025 341 NAMISSQAPLAGGVAMLNIMLgEVIFGGVGCGLYGMILFVILTVFLSGLMVGRTPEYLGKKIESREIKMIILAILAPSACILLGGA 426
                              ************************************************************************************** PP

                              HHTTSH.HHTT--S-THHHHHHHHHHHHHHHTT-----S-S---SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTS------TT- CS
                     KdpA 426 lalalp.alaslsnpgahglsevLYeftSaaanNGSafeGlgdntvfwnltlglamllgRflpiiavlaiAgslaakkkvpesagt 510
                              l ++++ +l+sls++g+hglse+LY+ftSaa+nNGSaf+Gl++nt f+n++lg++m++gRf+++i+v+aiAgs+++kk  p s gt
  PHY93_00025|PHY93_00025 427 LGVSTKaGLSSLSHQGPHGLSEILYAFTSAAGNNGSAFAGLNANTNFYNYLLGFTMIIGRFAVLIPVMAIAGSMVTKKASPPSFGT 512
                              ******78888*************************************************************************** PP

                              --SSHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHH CS
                     KdpA 511 lktdtplFvvllvgvilivgaLtFlPalaLGPiaehl 547
                              l td+p+Fvvll+gvi+ivgaLtFlPal+LGPi+e++
  PHY93_00025|PHY93_00025 513 LATDNPIFVVLLIGVIVIVGALTFLPALSLGPIVEQF 549
                              ***********************************97 PP

>> DUF3390  Domain of unknown function (DUF3390)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.0      0.34     3e+03      50      67 ..     245     260 ..     232     263 .. 0.82
   2 ?   12.0   0.2   2.3e-05       0.2      14      56 ..     311     353 ..     304     358 .. 0.88
   3 ?   -3.1   0.0       1.2   1.1e+04      33      59 ..     463     492 ..     462     494 .. 0.62

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.34
                  DUF3390  50 latrlrgllPkklkaWts 67 
                               a+ +++++P  l++W s
  PHY93_00025|PHY93_00025 245 SAHPFENPTP--LSNWLS 260
                              5677899999..9***86 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 2.3e-05
                  DUF3390  14 kvikgkgakasaaEklamkgfalaasspalYrlgtklatrlrg 56 
                              + + gk+++  ++ + ++ g+++aas+++++ ++++ a+ ++g
  PHY93_00025|PHY93_00025 311 NMMEGKETRLGIINSSMWTGWTSAASNGSVNAMISSQAPLAGG 353
                              4677899999************************999987765 PP

  == domain 3  score: -3.1 bits;  conditional E-value: 1.2
                  DUF3390  33 gfalaasspalYrlgtkl...atrlrgllP 59 
                              +fa ++++ + Y+ ++ +    +r++ l+P
  PHY93_00025|PHY93_00025 463 AFAGLNANTNFYNYLLGFtmiIGRFAVLIP 492
                              688889999999876544000445566666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (555 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       780  (0.0435049); expected 358.6 (0.02)
Passed bias filter:                      308  (0.0171789); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.69u 0.30s 00:00:00.99 Elapsed: 00:00:00.53
# Mc/sec: 3158.54
//
Query:       PHY93_00030|PHY93_00030  [L=693]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.2e-33  117.2   0.8    2.1e-33  116.4   0.8    1.4  1  Hydrolase     haloacid dehalogenase-like hydrolase
    2.5e-31  108.6   1.2    2.5e-31  108.6   1.2    2.3  3  E1-E2_ATPase  E1-E2 ATPase
    3.3e-05   24.4   0.0    0.00043   20.7   0.0    2.7  1  HAD           haloacid dehalogenase-like hydrolase
    0.00011   22.0   3.0    0.00057   19.7   0.5    2.8  3  Hydrolase_3   haloacid dehalogenase-like hydrolase
  ------ inclusion threshold ------
      0.038   12.9   0.0      0.068   12.1   0.0    1.3  1  DUF759        Borrelia burgdorferi protein of unknown functio


Domain annotation for each model (and alignments):
>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  116.4   0.8   5.8e-37   2.1e-33       1     210 []     304     537 ..     304     537 .. 0.83

  Alignments for each domain:
  == domain 1  score: 116.4 bits;  conditional E-value: 5.8e-37
                              SSEEEEESBTTTBCHHHHHHHHHHHHCHHHHHHHHHH......HHCHHHHHHHHHHHHH..............HHHHHHHHHETTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxx..............xxxxxxxxxxxxx RF
                Hydrolase   1 iktvvfDkdGTLttgepsvedvivsaalalaaaletg......sehpigkalvaaakar..............sgaltgfatfigr 66 
                              i+++++Dk+GT+t g++   d+ +   +++a    t+       e+p g+ +v  a++                ++ t  +++ g 
  PHY93_00030|PHY93_00030 304 IDVLLLDKTGTITIGNRMASDFRAGPGISEALLAKTAllsslsDETPEGRSIVLLAQNKyktpevnlgsaqveYIPFTAQTRMSGI 389
                              789*************8888855555555555555555566799********8888888898877766554442222333333333 PP

                              E........HHHHTHHHHHHHH......HCHHHHHHHHHHHHHHCHHHHHH..TTHHHHHHHHHHTHHBHTTHHHHHHHHHHTTEE CS
                              x........xxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase  67 g........ayaigkpewltal......dippdlgaaigsaqsqgrtvall..qaralavftiadplkvkpeaaeavasLkaagie 136
                              +        ++ +g  + ++a       ++pp +++ ++   ++g t  ++  ++++l+v+ ++d   vkp++ e +a+L+++gi+
  PHY93_00030|PHY93_00030 390 NitengkviEIRKGASDSVKAYvealggTFPPAVQDIVDGIGRAGGTPLVVseDKKVLGVIYLKDI--VKPGISERFAELRKMGIR 473
                              36666688877777777666666666*************************9999***********..****************** PP

                              EEEEESSEHHHHHHHHHHTTGGGESEEEEHHCES.STTTSHHHHHHHHHHHTSTGGGEEEEESSHHHHHHHHHTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 137 vvlltgdnpetaeraanqlGddyfdaviasdiet.vakpspegkvaaireLqgkpeevamVGDgvnDaaalaaAg 210
                              +v++tgdnp ta ++a ++G           ++   a + pe+k+  ire q+k++ vam GDg nDa+ala+A+
  PHY93_00030|PHY93_00030 474 TVMITGDNPLTAAAIAAEAG-----------VDDfLAQATPEMKLSRIREEQAKGHLVAMTGDGTNDAPALAQAD 537
                              ********************...........6667***************************************8 PP

>> E1-E2_ATPase  E1-E2 ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.3      0.98   3.5e+03     123     150 ..      37      64 ..      27      78 .. 0.51
   2 !  108.6   1.2   7.1e-35   2.5e-31       5     181 .]     103     288 ..      98     288 .. 0.87
   3 ?   -1.5   0.4      0.43   1.5e+03     145     163 ..     627     649 ..     586     653 .. 0.61

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 0.98
                              HHHHHHHHHHHHHS-STTTSSTTHHHHH CS
             E1-E2_ATPase 123 vpvvlliallvflialllgkslaeallr 150
                              +++  ++al++ lia+ +g + ++++++
  PHY93_00030|PHY93_00030  37 MFITWVCALVTSLIAIRNGATGQNSFFE 64 
                              3344444444444444444444344433 PP

  == domain 2  score: 108.6 bits;  conditional E-value: 7.1e-35
                              -EEEEE-TTS-EEEEGGG--TTSEEEEETT-B--SEEEEEEE-SEEE-TTTS---S-EE-G...-TTEE-TT-EEEE-EEEEEEEE CS
             E1-E2_ATPase   5 ptakvirdgteeeidakelvpGDivllkagdrvpaDgrivegsaevdesaLTGEslpveke...kgdmvfsGtvvvsgeakavVta 87 
                              + a++++++ e+ ++a el+ G iv++++gd +p Dg+++eg a+vdesa+TGEs pv +e    +++v++Gt v+s+++ ++++ 
  PHY93_00030|PHY93_00030 103 TLARLMNGKHETVVNALELKKGNIVVCENGDLIPGDGEVIEGIASVDESAITGESAPVIREsggDRSSVTGGTLVISDRILIRIVS 188
                              34555566667779**********************************************64448899****************** PP

                              -TTTSTTTTTSTTS--------HHHHHHHHHHHHHHHHHHHHHHHHHHS-STTTSSTT......HHHHHHHHHHHHHS-TTHHHHH CS
             E1-E2_ATPase  88 tgedtelgkiarlveeakskktplqkkldklgkvlvpvvlliallvflialllgksla......eallralallvaaiPcaLplav 167
                                 +++l+++++lve+a+++ktp +  l+ l + l++v +l+++++ ++a + g           ++   ++llv+ iP  ++ ++
  PHY93_00030|PHY93_00030 189 EPGSSFLDRMIALVESASRQKTPNEIALSILLSGLTLVFILAVVTLKFFADYSGAASHqdlshiITVPVLISLLVCLIPTTIGGLL 274
                              **********************************998888777777666655554444688864444449**************** PP

                              HHHHHHHHHHHHHT CS
             E1-E2_ATPase 168 plalalgarrlakk 181
                              + + + g+ rl +k
  PHY93_00030|PHY93_00030 275 SAIGISGMDRLIRK 288
                              ********999775 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 0.43
                              T....HHHHHHHHHHHHHS-TTH CS
             E1-E2_ATPase 145 a....eallralallvaaiPcaL 163
                              +     a+++   ++va iP aL
  PHY93_00030|PHY93_00030 627 QsailSAVIFNALVIVALIPLAL 649
                              12233444444446667777766 PP

>> HAD  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.7   0.0   1.2e-07   0.00043      43     187 ..     400     533 ..     352     534 .. 0.71

  Alignments for each domain:
  == domain 1  score: 20.7 bits;  conditional E-value: 1.2e-07
                      HAD  43 frellrldraglaelleallaglseelaaelerfv........aevirpk........lldpgalellaahraaGdrvvvvSgglr 112
                              +r++++++ +++ e+l  ++ +  +++ + ++r++        +++            + +pg+ e++a+ r+ G+r+v+++g + 
  PHY93_00030|PHY93_00030 400 IRKGASDSVKAYVEALGGTFPPAVQDIVDGIGRAGgtplvvseDKK---VlgviylkdIVKPGISERFAELRKMGIRTVMITGDNP 482
                              5677777788888888888888888888888888888777654222...133455555799************************* PP

                      HAD 113 plvepllaelgadevlatelevddrltgelglegkpvrgegkvaalrewlaaegegidleevvay.GDspsDlpll 187
                                + +++ae g+d++la         t e            k++++re  ++++     + +va  GD+ +D p+l
  PHY93_00030|PHY93_00030 483 LTAAAIAAEAGVDDFLAQ-------ATPE-----------MKLSRIRE--EQAK----GH-LVAMtGDGTNDAPAL 533
                              ***********8888888.......3333...........23345555..1111....11.333347777777665 PP

>> Hydrolase_3  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.1      0.12   4.3e+02      47      74 ..     114     142 ..     109     153 .. 0.80
   2 ?   -1.1   0.0      0.36   1.3e+03      20      58 ..     460     498 ..     453     501 .. 0.85
   3 !   19.7   0.5   1.6e-07   0.00057     206     242 ..     520     556 ..     510     562 .. 0.88

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.12
                              HHHHHCCCC..SEEEEGGGTEEECTTTEEE CS
              Hydrolase_3  47 pvleelgld..lpvialNGaliddekgkil 74 
                               v+++l+l+  ++v++ NG li   +g+++
  PHY93_00030|PHY93_00030 114 TVVNALELKkgNIVVCENGDLI-PGDGEVI 142
                              577888888889*********9.5555555 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.36
                              HHHHHHHHHHTTSEEEEE-SS-HHHHHHHHHHCCCCSEE CS
              Hydrolase_3  20 tkeaikklkekgikvviATGRslravlpvleelgldlpv 58 
                              + e +++l++ gi  v  TG ++ ++  ++ e g+d ++
  PHY93_00030|PHY93_00030 460 ISERFAELRKMGIRTVMITGDNPLTAAAIAAEAGVDDFL 498
                              566788999*******************99999998765 PP

  == domain 3  score: 19.7 bits;  conditional E-value: 1.6e-07
                              EEEEESSGGGHHHHHHSSEEEEETTS-HHHHHHSSEE CS
              Hydrolase_3 206 viafGDgeNDieMLeaaglgvAmgnaseevkkaAdyv 242
                              v+  GDg ND + L +a++gvAm+ +++ +k+a ++v
  PHY93_00030|PHY93_00030 520 VAMTGDGTNDAPALAQADVGVAMNTGTQAAKEAGNMV 556
                              6778****************************98876 PP

>> DUF759  Borrelia burgdorferi protein of unknown function (DUF759)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   1.9e-05     0.068     266     346 ..     518     598 ..     505     611 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 1.9e-05
                   DUF759 266 vnsvlggdgselfdllkksgvgdkyiedakmawqsgaqvdldsritkmmemfkdfksfgltkkvnnaesiqsnlasaeqtl 346
                                  + gdg++    l ++ vg      ++ a ++g  vdlds  tk++e+ +  k + +t+    + s+  ++a     l
  PHY93_00030|PHY93_00030 518 HLVAMTGDGTNDAPALAQADVGVAMNTGTQAAKEAGNMVDLDSNPTKLIEIVETGKQLLMTRGALTTFSVANDVAKYFAIL 598
                              5556899**************************************************999998888888877777655555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (693 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       574  (0.0320152); expected 358.6 (0.02)
Passed bias filter:                      387  (0.0215851); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.72u 0.28s 00:00:01.00 Elapsed: 00:00:00.50
# Mc/sec: 4182.85
//
Query:       PHY93_05550|PHY93_05550  [L=126]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.3e-29  102.5   0.1    1.5e-29  102.3   0.1    1.1  1  DOPA_dioxygen  Dopa 4,5-dioxygenase family


Domain annotation for each model (and alignments):
>> DOPA_dioxygen  Dopa 4,5-dioxygenase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  102.3   0.1   8.5e-34   1.5e-29       1     106 [.      22     124 ..      22     125 .. 0.97

  Alignments for each domain:
  == domain 1  score: 102.3 bits;  conditional E-value: 8.5e-34
                              EEEEEEE...-GGGHHHHHHHHHHHHHHTTTT...E---BSS--TT-SSEEEEEEE.-HHHHHHHHHHHHHH-TT--EEEEEESS- CS
            DOPA_dioxygen   1 fdvhiyylendeaekkeAkeLrekirrefeee.lrvgklaekpiGPhpvamfevdvftpeqfgkvvswlalnrgplsvLiHpntgd 85 
                              fd+h+y+   +e + k+A++L+  ++++f+ + + vg++ ++ iGPhp++mfe ++ + + f++vv wl+ ++++lsvLiHp tg+
  PHY93_05550|PHY93_05550  22 FDAHVYF---NELTFKKAENLHALMIETFQGQkVFVGQMINQSIGPHPTGMFEANF-PVKLFADVVLWLMKEHEELSVLIHPLTGN 103
                              9******...9******************877699*********************.***************************** PP

                              HHHHHHHS-EEESS-----GG CS
            DOPA_dioxygen  86 elrdHteraiWlGeklpldle 106
                              ++ dH+ +a+WlG  lpld +
  PHY93_05550|PHY93_05550 104 DYIDHSGQALWLGITLPLDFS 124
                              ******************975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (126 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       355  (0.0198003); expected 358.6 (0.02)
Passed bias filter:                      336  (0.0187406); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.25s 00:00:00.68 Elapsed: 00:00:00.43
# Mc/sec: 885.37
//
Query:       PHY93_00035|PHY93_00035  [L=182]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      2e-61  207.0   0.0    2.3e-61  206.8   0.0    1.0  1  KdpC      K+-transporting ATPase, c chain


Domain annotation for each model (and alignments):
>> KdpC  K+-transporting ATPase, c chain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  206.8   0.0   1.3e-65   2.3e-61       3     181 ..       6     181 ..       4     182 .] 0.92

  Alignments for each domain:
  == domain 1  score: 206.8 bits;  conditional E-value: 1.3e-65
                              HHHHHHHHHHHHHHTHHHHHHHHHHHHH-HHHHTT-EEE.ETEEEEETTT------SSS--------ST-TTT-------SS-HHH CS
                     KdpC   3 kalrlllvltvllgliYplavtgiaqllfpeqAnGslieadgkvvGseligqeftsdkYfhgRpsavnynaaasggsnlgpsnpel 88 
                              + l+++l+++vl+g +Ypl++t+++q++f+++AnGsl++++gkvvGs li+qef+ ++Yf++Rpsa+ny+ a+sg+snl+p++++l
  PHY93_00035|PHY93_00035   6 NNLKIFLFFIVLTGAVYPLFITVVSQAIFNDEANGSLLSKNGKVVGSGLIAQEFKGKQYFWPRPSAANYDSASSGASNLSPDSKTL 91 
                              67899********************************************************************************* PP

                              HHHHHHHHHHHHHH-TTS..-SB-HHHHS-BSSS---EE-HHHHHHTHHHHHHHHT--H...HHHHHHHHHTEE--SSTTT---EE CS
                     KdpC  89 lerveervaalraenpekkkeevPadlvtaSgSGLDPhIspeaAelQvarvakarglse...eeveklvaentegrllgilGeprV 171
                               e++++r+ +       +   +   dl++aSgSGLDPhIspe+Ae Q++r+++ar+l++   ee++klva+ntegr+lgilG  r 
  PHY93_00035|PHY93_00035  92 RETIAKRAVDNG----LD--INSNDDLLYASGSGLDPHISPESAERQINRIVEARHLDVgkvEELKKLVADNTEGRQLGILGRVRL 171
                              ****99976655....22..23357********************************86222566789****************** PP

                              EHHHHHHHHH CS
                     KdpC 172 nVlklNlaLd 181
                              nVlklNl Ld
  PHY93_00035|PHY93_00035 172 NVLKLNLILD 181
                              *******998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (182 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       464  (0.0258799); expected 358.6 (0.02)
Passed bias filter:                      405  (0.0225891); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.20s 00:00:00.62 Elapsed: 00:00:00.37
# Mc/sec: 1489.84
//
Query:       PHY93_00040|PHY93_00040  [L=886]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      6e-90  300.3   0.3    1.3e-89  299.2   0.3    1.6  1  KdpD         Osmosensitive K+ channel His kinase sensor domai
    4.4e-18   65.8   0.1    2.1e-17   63.7   0.0    2.1  2  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    3.6e-17   62.1   4.7    6.3e-17   61.3   4.7    1.4  1  DUF4118      Domain of unknown function (DUF4118)
    6.6e-11   42.1   1.3    1.8e-10   40.7   1.3    1.9  1  HisKA        His Kinase A (phospho-acceptor) domain
    1.7e-05   25.1   0.0      8e-05   23.0   0.0    2.1  2  GAF_3        GAF domain
    0.00098   19.4   0.0     0.0024   18.2   0.0    1.7  1  GAF_2        GAF domain
     0.0084   15.9   0.0      0.023   14.5   0.0    1.7  1  HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like
  ------ inclusion threshold ------
       0.02   14.8   0.0      0.049   13.6   0.0    1.5  1  HATPase_c_2  Histidine kinase-like ATPase domain
      0.039   14.5   0.1        1.2    9.6   0.1    2.7  1  Usp          Universal stress protein family
      0.082   12.7   0.0       0.18   11.6   0.0    1.5  1  HPTransfase  Histidine phosphotransferase C-terminal domain
       0.25   11.3   3.1        1.2    9.1   0.0    2.9  3  ResIII       Type III restriction enzyme, res subunit


Domain annotation for each model (and alignments):
>> KdpD  Osmosensitive K+ channel His kinase sensor domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  299.2   0.3   8.2e-93   1.3e-89       2     210 .]      25     233 ..      24     233 .. 0.99

  Alignments for each domain:
  == domain 1  score: 299.2 bits;  conditional E-value: 8.2e-93
                     KdpD   2 rGrlkiflGaapGvGktyamLeeaqelkeegvdvviglvethgrketeallegleviprkeveykgkeleeldldailarkpevvl 87 
                              rG ++if+G++pGvGkt+amL++aqe+++ g+++v+gl+ethgr++te++legl+viprke+ y++k ++e+d+d+il  kp++vl
  PHY93_00040|PHY93_00040  25 RGAFRIFFGMCPGVGKTFAMLRAAQEQQKLGKNIVVGLIETHGRSDTEKMLEGLTVIPRKEILYREKIIHEFDVDKILILKPDIVL 110
                              8************************************************************************************* PP

                     KdpD  88 vDelahtnapgsrhekryqdveelLeagidVittvnvqhleslndvvekitgvrvretvPdevleeAdevelvDltpeeLlerLke 173
                              vDelahtnap+srh kryqdv elL+agi+V+tt+nvqh+es +d+v++itgv+vretvPd++ + Ad++el+D++p+eL++rLke
  PHY93_00040|PHY93_00040 111 VDELAHTNAPSSRHVKRYQDVMELLDAGISVYTTLNVQHIESRADIVQQITGVQVRETVPDSLWDLADQIELIDISPQELIKRLKE 196
                              ************************************************************************************** PP

                     KdpD 174 gkvykkekaeralknffrkgnLtaLRelaLrrvAdrv 210
                              g+vy  +ka ra +nff+++ L+aLRe++Lr +A++v
  PHY93_00040|PHY93_00040 197 GRVYLGDKAARAEDNFFKEAYLVALREISLRFTAEKV 233
                              **********************************997 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.1       2.4     4e+03       4      20 ..     658     674 ..     655     729 .. 0.63
   2 !   63.7   0.0   1.3e-20   2.1e-17       2     109 ..     771     877 ..     770     878 .. 0.90

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 2.4
                              HHHHHHHHHHHHHHHHH CS
                HATPase_c   4 krLrqiisnlvdNavkf 20 
                              ++L+q + n v++ +++
  PHY93_00040|PHY93_00040 658 EKLHQTLLNSVSHEMRI 674
                              67788888877776666 PP

  == domain 2  score: 63.7 bits;  conditional E-value: 1.3e-20
                              HHHHHHHHHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCH.HCSTCHTSTSSSHHHHHHHHHHH CS
                HATPase_c   2 dekrLrqiisnlvdNavkfatkageieveikaseddlvisveDnGiGipkedlkklfekfsq.ddstkrggggtGlGlsivkklve 86 
                              de+ L++++ nl+ Na  +++++++i+v+i+++e+++ i+v D G Gip+++l+ + +kf++      + +gg+GlGlsivk ++e
  PHY93_00040|PHY93_00040 771 DERLLEHALVNLLLNAKTYSPEGTTITVQIEKDEKTIFIRVLDQGAGIPEDQLEAILDKFYRlP---GSPTGGVGLGLSIVKGIME 853
                              8999***************99**********87799999***********************41...34589************** PP

                              HTTTEEEEEEET.TTEEEEEEEEE CS
                HATPase_c  87 lmgGeiwvesep.grGttftftlp 109
                               +gG+++ +++  + G  f ++lp
  PHY93_00040|PHY93_00040 854 AHGGSVHASNRTdETGAVFSLELP 877
                              ********6666678999998886 PP

>> DUF4118  Domain of unknown function (DUF4118)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.3   4.7   3.9e-20   6.3e-17       4     102 ..     402     500 ..     399     505 .. 0.94

  Alignments for each domain:
  == domain 1  score: 61.3 bits;  conditional E-value: 3.9e-20
                  DUF4118   4 avlllalatllallldkllslanivllfllavllvallgglgpgllaallsvllfnyfftpPyftltiadpeylltlvvflvvall 89 
                              ++ +l+++t+l+l+l++ ++ + i +l+l+ v++v ++  lgp l+a+l ++l+++y+f+pP+ft++i++ e+ +  + f++v++l
  PHY93_00040|PHY93_00040 402 TLYFLIMVTILGLFLNPSIGYRAIGFLYLMSVIVVGFRSTLGPILFASLSGALIWDYVFIPPLFTFQINEIEDKMMCLAFVLVGVL 487
                              6678899********888888***************************************************************** PP

                  DUF4118  90 vstlvararrqar 102
                               ++l+ + ++++r
  PHY93_00040|PHY93_00040 488 SGVLARKTKTKER 500
                              *******999887 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.7   1.3   1.1e-13   1.8e-10       4      67 .]     663     728 ..     660     728 .. 0.89

  Alignments for each domain:
  == domain 1  score: 40.7 bits;  conditional E-value: 1.1e-13
                              HHHHHHHHHHHHHHHHHHHHHHHHHC....T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH CS
                    HisKA   4 rflagvaHELrtPLsailgnaeaLkre..gklteelkeyletiesearrldhlvedlLdlsrieag 67 
                               +l +v+HE+r PL++i+g+++aL+++  ++++e+ k +   + ++++rl++++e+lL + r+ +g
  PHY93_00040|PHY93_00040 663 TLLNSVSHEMRIPLTSIMGTVSALQDTkiQNNPEMIKILNSELMQSSERLNRVIENLLNINRLNSG 728
                              6999**********************9876666777778888888888**************9886 PP

>> GAF_3  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0       2.1   3.4e+03      98     128 ..     258     290 ..     255     291 .. 0.72
   2 !   23.0   0.0   4.9e-08     8e-05      16     129 .]     539     641 ..     525     641 .. 0.69

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 2.1
                    GAF_3  98 lal.astkpra.fdaedlelleslArqiataie 128
                              +a+ +s++  + ++a+++  ++  A +ia++i+
  PHY93_00040|PHY93_00040 258 VAVsHSPHSAKlIRAARRMAFNLEAPWIAIHID 290
                              555244443346788999999999******997 PP

  == domain 2  score: 23.0 bits;  conditional E-value: 4.9e-08
                    GAF_3  16 llgaevgalllldedgnklqvaagwdgkpalsesldedsalarralssgevvsepsfaeedglpdraalavPLvagrqviGvlala 101
                              ll+a++ +l l +  +nk+ +++++    + s + d++ ala + ++ +     +++   ++l  +  l +PL+++ + +Gvl+++
  PHY93_00040|PHY93_00040 539 LLDAQITIL-LAN--ENKIITRKST----RSSDVSDKEFALALWSFDNKKT---AGWST-QTLSESRCLSIPLIVPGKILGVLLFY 613
                              344444333.333..2344444444....4443446777788888887764...35444.45566667889****99********* PP

                    GAF_3 102 stkprafdaedlelleslArqiataier 129
                               + ++ ++ e++ ll+s+++q+a+a+e+
  PHY93_00040|PHY93_00040 614 PDLKKILSIEERNLLNSICFQLANALEH 641
                              *99888999*****************96 PP

>> GAF_2  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.0   1.5e-06    0.0024      83     138 .]     585     640 ..     566     640 .. 0.86

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 1.5e-06
                              HHHHHHTT--EEEEEE-TTS---EEEEES......--HHHHHHHHHHHHHHHHHHH CS
                    GAF_2  83 lpaghaglrsflavPlisegrvvGvlnlyankppafdeedlelLeelaeqiaiaie 138
                              +  +     ++l++Pli  g+++Gvl +y + +  ++ e++ lL++++ q+a a+e
  PHY93_00040|PHY93_00040 585 WSTQTLSESRCLSIPLIVPGKILGVLLFYPDLKKILSIEERNLLNSICFQLANALE 640
                              55556667789*******779******987777779******************97 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.5   0.0   1.4e-05     0.023       4      54 ..     776     827 ..     773     837 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 1.4e-05
              HATPase_c_3   4 ekAlaelvdNsld..AdaenvkievnknrgktgeivieDdGkGmseeelknal 54 
                              e Al+ l+ N+ +   + ++++++++k++ kt  i++ D G+G++e++l+  l
  PHY93_00040|PHY93_00040 776 EHALVNLLLNAKTysPEGTTITVQIEKDE-KTIFIRVLDQGAGIPEDQLEAIL 827
                              7899******9553377888999999986.7999*************998866 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0     3e-05     0.049      40     111 ..     779     854 ..     773     873 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 3e-05
              HATPase_c_2  40 ctNavehayleap.egpvevrlesdeealtvevaDsGpgfdpe...tlpdpteeepkeslkegGrGlalikglvDe 111
                              ++N    a+   p   +++v++e de+++ ++v D+G+g +     ++ d+    p  +    G+Gl ++kg+++ 
  PHY93_00040|PHY93_00040 779 LVNLLLNAKTYSPeGTTITVQIEKDEKTIFIRVLDQGAGIPEDqleAILDKFYRLPGSPTGGVGLGLSIVKGIMEA 854
                              55555566666665789*******************998555401144444444458899999999******9986 PP

>> Usp  Universal stress protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   0.1   0.00075       1.2       2      49 ..     253     300 ..     252     363 .. 0.73

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.00075
                              -SEEEEEE-SSHHHHHHHHHHHHHHHHCTSEEEEEEEEESSHCCCCCC CS
                      Usp   2 ykrIlVavDgseeskkAlewAlelakargaelillhvidprasgavsd 49 
                              ++r +Vav +s++s k+++ A ++a + +a+ i++h+ + ++  + ++
  PHY93_00040|PHY93_00040 253 NERLMVAVSHSPHSAKLIRAARRMAFNLEAPWIAIHIDSGMRLNQFDQ 300
                              5799********************************987776655554 PP

>> HPTransfase  Histidine phosphotransferase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00011      0.18      36      75 ..     779     818 ..     777     829 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00011
                              HHHHHHHHHHC-TT--EEEEEEEEETTCEEEEEEEESTT- CS
              HPTransfase  36 llnllliaedalprGGtitvsaegeegageirvrakGera 75 
                              l+nlll a++  p G titv++e++e++  irv  +G  +
  PHY93_00040|PHY93_00040 779 LVNLLLNAKTYSPEGTTITVQIEKDEKTIFIRVLDQGAGI 818
                              89*********************99999888888887765 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   0.0   0.00072       1.2      18      53 ..      21      56 ..       6      89 .. 0.75
   2 ?    2.8   0.1     0.063     1e+02     101     157 ..      53     135 ..      48     144 .. 0.66
   3 ?   -2.2   0.2       2.3   3.7e+03      43     110 ..     637     702 ..     631     756 .. 0.64

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.00072
                             .....TTSEEEEEESTTSTHHHHHHHHHHHH-S... CS
                   ResIII 18 klkskrdkrglikmaTGtGKTlvaaklierllkkgk 53
                             + ks++  r+++ m  G+GKT+ +++++++ +k gk
  PHY93_00040|PHY93_00040 21 ANKSRGAFRIFFGMCPGVGKTFAMLRAAQEQQKLGK 56
                             33336677******************9999887655 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.063
                              ...-SEEEEEHHHHHHTH........................HHHTTT-S.....EEEEETGGGTTS......TTTHHHHHT- CS
                   ResIII 101 stnkkilvttiqsldadseee................eeeseellrdrfd.....viiiDEaHrlgak.....kswreilekf 157
                              +  k+i+v  i++  ++ +e+                e+  +e++ d+++     ++++DE  +++a      k ++ ++e +
  PHY93_00040|PHY93_00040  53 KLGKNIVVGLIETHGRSDTEKmlegltviprkeilyrEKIIHEFDVDKILilkpdIVLVDELAHTNAPssrhvKRYQDVMELL 135
                              5567778888888777776668888888888755555444444444444477777***********96444444666666655 PP

  == domain 3  score: -2.2 bits;  conditional E-value: 2.3
                              HHHHHH-S.....-EEEEESSHHHHHHHHHHGGGGTGG....GEEEESSS-B--.......-SEEEEE CS
                   ResIII  43 klierllkkgkeekflflvprkslleqtleefkkflseaykeigkkvsgdkkkakekdstnkkilvtt 110
                              ++ e+l+ + +++++ +l  +++l + +l+ +++ +  + ++i++ vs  ++++  ++++   i + +
  PHY93_00040|PHY93_00040 637 NALEHLMLQDQNKNIQLLEESEKLHQTLLNSVSHEMRIPLTSIMGTVSALQDTK--IQNNPEMIKILN 702
                              555666666666677777777777777777776666666666555555555554..333444444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (886 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       755  (0.0421105); expected 358.6 (0.02)
Passed bias filter:                      456  (0.0254337); expected 358.6 (0.02)
Passed Vit filter:                        55  (0.00306766); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.73u 0.23s 00:00:00.96 Elapsed: 00:00:00.42
# Mc/sec: 6306.71
//
Query:       PHY93_00045|PHY93_00045  [L=200]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.4e-57  192.6  11.8      1e-56  192.4  11.8    1.0  1  Na_H_antiport_1  Na+/H+ antiporter 1
  ------ inclusion threshold ------
      0.074   12.6   0.1       0.19   11.2   0.1    1.7  1  E1-E2_ATPase     E1-E2 ATPase
        1.6    8.1   4.8        0.2   11.1   0.4    1.7  2  Mucin15          Cell-membrane associated Mucin15
        7.3    6.4   9.6        6.7    6.5   2.8    2.5  2  PAP2             PAP2 superfamily


Domain annotation for each model (and alignments):
>> Na_H_antiport_1  Na+/H+ antiporter 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  192.4  11.8   2.3e-60     1e-56     189     375 ..       2     190 ..       1     191 [. 0.94

  Alignments for each domain:
  == domain 1  score: 192.4 bits;  conditional E-value: 2.3e-60
                              HHHHHTT---HHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHHS--....S.......-HHHHHHHHHHHHHHHTHHHHHHHHHS-- CS
          Na_H_antiport_1 189 lllnrlgvrslllylllgvvlWvlvlksGvhatiaGvllallipa....kkklkeeesplerlehalhplvaflilPlFAlanagv 270
                              ++++ +g+rs l+y++lg+++W+ +l sGvhatiaGvl++l++p+    kk+++++ spl++l ++lh++v++ i+P+FAlanag+
  PHY93_00045|PHY93_00045   2 MFIKAIGLRSYLIYTILGAIAWFGFLLSGVHATIAGVLIGLMTPYnfptKKRSTSTYSPLDDLVNKLHSWVSYGIMPIFALANAGI 87 
                              6788899*************************************9666555556666***************************** PP

                              -SSSS--ST.TTSHHHHHHHHHHHTHHHHHHHHHHHHHHHTTTT--TTS-TTTHHHHHHHHTT--HHHHHHHHHHHSTT....HHH CS
          Na_H_antiport_1 271 slegeslseallspvtlgivlgLvlGKplGillasllavklklaklpeglswkqllgvallaGiGFTmslfiaelafeeeeeelee 356
                              ++ g++ls+++ + +  g+vlgLv+GKp Gi+l+s+lav l+laklp+gl+wk++++++++aGiGFTm+lfi++la +   e+   
  PHY93_00045|PHY93_00045  88 NILGTNLSQIIQNLIHQGVVLGLVIGKPTGIILFSALAVALGLAKLPSGLHWKNIVAIGFIAGIGFTMALFISSLALSP--EQEIY 171
                              *********999*****************************************************************95..77889 PP

                              HHHHHHHHHHHHHHHHHHT CS
          Na_H_antiport_1 357 aklgiLlgsllaavlglll 375
                              +k+gi+lgsl++a+lg+ +
  PHY93_00045|PHY93_00045 172 SKTGIVLGSLISAILGSSF 190
                              9***************876 PP

>> E1-E2_ATPase  E1-E2 ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.1   4.3e-05      0.19     105     178 ..      55     133 ..      50     135 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 4.3e-05
                              -----HHHHHHHHHHHHHHHHHHHHHHHHHHS-STTTSSTT....HHHHH.HHHHHHHHS-TTHHHHHHHHHHHHHHHH CS
             E1-E2_ATPase 105 kskktplqkkldklgkvlvpvvlliallvflialllgksla....eallr.alallvaaiPcaLplavplalalgarrl 178
                              +s+ +pl   ++kl ++++  ++ i++l+ +   +lg +l     + + + ++  lv+  P +++l+  la+alg+++l
  PHY93_00045|PHY93_00045  55 TSTYSPLDDLVNKLHSWVSYGIMPIFALANAGINILGTNLSqiiqNLIHQgVVLGLVIGKPTGIILFSALAVALGLAKL 133
                              47789999999999999999888888777666666666666688666666455569*******************9987 PP

>> Mucin15  Cell-membrane associated Mucin15
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.4      0.85   3.8e+03     216     235 ..     103     122 ..      92     128 .. 0.76
   2 ?   11.1   0.4   4.4e-05       0.2     211     235 ..     168     192 ..     150     195 .. 0.81

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 0.85
                  Mucin15 216 ntGvvfGaiLGaiLGasLLs 235
                                Gvv G ++G   G+ L s
  PHY93_00045|PHY93_00045 103 HQGVVLGLVIGKPTGIILFS 122
                              56999999999888877776 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 4.4e-05
                  Mucin15 211 qkenrntGvvfGaiLGaiLGasLLs 235
                              q+    tG+v G+++ aiLG s L+
  PHY93_00045|PHY93_00045 168 QEIYSKTGIVLGSLISAILGSSFLA 192
                              444578****************997 PP

>> PAP2  PAP2 superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   0.6     0.011        50      86     122 ..      10      43 ..       3      54 .. 0.85
   2 ?    6.5   2.8    0.0015       6.7      88     128 ..     118     158 ..      68     164 .. 0.83

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.011
                     PAP2  86 llalillllavlvalsRlylgvHflsDvlaGlliGia 122
                              + +li+++l +  +++ l  gvH    ++aG+liG++
  PHY93_00045|PHY93_00045  10 RSYLIYTILGAIAWFGFLLSGVHA---TIAGVLIGLM 43 
                              578999999999*********996...6888888876 PP

  == domain 2  score: 6.5 bits;  conditional E-value: 0.0015
                     PAP2  88 alillllavlvalsRlylgvHflsDvlaGlliGialaalay 128
                              + ++ +lav  +l+ l  g H+ + v +G++ Gi ++++++
  PHY93_00045|PHY93_00045 118 IILFSALAVALGLAKLPSGLHWKNIVAIGFIAGIGFTMALF 158
                              5678899**************************99988766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (200 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       747  (0.0416643); expected 358.6 (0.02)
Passed bias filter:                      391  (0.0218082); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.43u 0.19s 00:00:00.62 Elapsed: 00:00:00.35
# Mc/sec: 1697.51
//
Query:       PHY93_00050|PHY93_00050  [L=443]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.3e-10   40.7   0.0    3.4e-10   40.1   0.0    1.3  1  NAD_binding_10  NAD(P)H-binding
    4.5e-08   32.8   0.0    1.7e-07   30.9   0.0    1.8  2  Epimerase       NAD dependent epimerase/dehydratase family
    2.4e-05   24.0   0.0    3.3e-05   23.6   0.0    1.2  1  NmrA            NmrA-like family
    9.8e-05   21.5   0.0     0.0002   20.5   0.0    1.5  1  3Beta_HSD       3-beta hydroxysteroid dehydrogenase/isomerase
  ------ inclusion threshold ------
       0.11   12.9   0.0       0.21   12.0   0.0    1.4  1  Semialdhyde_dh  Semialdehyde dehydrogenase, NAD binding domai
       0.16   11.1   0.1        1.8    7.7   0.0    2.3  3  NAD_binding_4   Male sterility protein


Domain annotation for each model (and alignments):
>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.1   0.0   1.1e-13   3.4e-10       1     157 [.       7     158 ..       7     197 .. 0.77

  Alignments for each domain:
  == domain 1  score: 40.1 bits;  conditional E-value: 1.1e-13
                              TTTSHHHHHHHHHHHHC-T-EEEEEETTHHHCHHHHCTTTCEEEE--TT-CCHHHHHHTT-S.EEEES-..........--TCC.. CS
           NAD_binding_10   1 GAtGkvGrllvkellargghevtalvRnpeklaeleaeeglevvegdvtdvedlaealkgad.aVvsal..........ggggk.. 73 
                              GA+G +G+ l+k l  +  ++++al R+++  +    +++++ ve+d+ + ++  +alk++d a++  +          g   +  
  PHY93_00050|PHY93_00050   7 GASGFIGKNLIKNLDTN--LSIKALSRTSKISK----DKNVTWVEVDLFSLSSTIAALKDTDiAIYLVHsmmpssrlfqG---Nfq 83 
                              9***********99665..9*****98655444....69***********************556666666554444321...133 PP

                              HHHH....HHHHHHHHHHCT--EEEEEEETTTTSGCGCHHHHHHHHCCHHHHHHHHHHHHHHHHSSSEEEEEEE-CEE-ST--SEE CS
           NAD_binding_10  74 deeg....aknivdaakeagvkRfvlvsaigvgdevpgefgewnkellkaylaakraaeellrasgldwTivrpggLtdepttkyr 155
                              d  +    a+n ++a+ +++vk++++++++  +   +g+        +++ l   ++ e++lr +++  T++r g+   + ++ ++
  PHY93_00050|PHY93_00050  84 D--TdlllADNFARACHKEKVKQMIYLGGLIPE---AGS--------FSKHLTSRKEVEDVLRYTNIPITVLRAGMAVGDGGSSFE 156
                              3..14477*******************998766...344........45568999*******************998776666666 PP

                              EE CS
           NAD_binding_10 156 vv 157
                              ++
  PHY93_00050|PHY93_00050 157 IL 158
                              55 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.9   0.0   5.8e-11   1.7e-07       1     114 [.       3     109 ..       3     114 .. 0.84
   2 ?   -0.9   0.0      0.31   9.2e+02     207     239 ..     175     205 ..     117     206 .. 0.75

  Alignments for each domain:
  == domain 1  score: 30.9 bits;  conditional E-value: 5.8e-11
                              EEEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHCEEEE--TT-HHHHHHHHHHHT-SEEEE--S---HHHHHHSHHH CS
                Epimerase   1 ilVtGatGfiGsalvkallekgyevigldrlssasntarledlelveldltdrsalerlfkeeqpdavihlAavggvaassedpad 86 
                              i ++Ga+GfiG++l+k+l ++      ++ ls++s+ ++++++++ve+dl   s++ +++k+   d+ i l   +  + s   +  
  PHY93_00050|PHY93_00050   3 ITIAGASGFIGKNLIKNLDTNL----SIKALSRTSKISKDKNVTWVEVDLFSLSSTIAALKD--TDIAIYL-VHSMMPSSRLFQGN 81 
                              789***************9874....333333335566677789*****************5..5666666.368888899999** PP

                              HHHHHTHHHHHHHHHHHHHTCTEEEEEE CS
                Epimerase  87 fieknlqgtlnlleaarkagvkrllfls 114
                              f +++l ++ n + a++k +vk++++l+
  PHY93_00050|PHY93_00050  82 FQDTDLLLADNFARACHKEKVKQMIYLG 109
                              **************************98 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.31
                              T-EEEEEEHHHHHHHHHHHHHHHTT-STTEEEE CS
                Epimerase 207 talRdflyveDvaeaillvlehvdagdkgeiyn 239
                              +++ + +y++D++ +i+  +++  +   ++++n
  PHY93_00050|PHY93_00050 175 KNKTQTIYIDDLIAVIIKSINNKMFF--NKTIN 205
                              55667799999999999999985443..34565 PP

>> NmrA  NmrA-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.6   0.0   1.1e-08   3.3e-05       1     228 [.       3     228 ..       3     300 .. 0.83

  Alignments for each domain:
  == domain 1  score: 23.6 bits;  conditional E-value: 1.1e-08
                              EEESSTTSHHHHHHHHHHHHHT-EEEEEES-S-SHHHHHHHHSTTEEEES-TT-HHHHHHHHTT-SEEEE---GG........... CS
                     NmrA   1 IlviGaTGrqGksvvrallkaghkvralvRdtkselakslkeaGvelvkgdlddkeslvealkgvdvvfsvtgfy........... 75 
                              I++ Ga+G +Gk +++  l+ + +++al R +k       k++ v+ v+ dl + +s  +alk+ d ++  + ++           
  PHY93_00050|PHY93_00050   3 ITIAGASGFIGKNLIKN-LDTNLSIKALSRTSKIS-----KDKNVTWVEVDLFSLSSTIAALKDTDIAIYLVHSMmpssrlfqgnf 82 
                              89*************96.689*******9976544.....67889**********************99999888899999*9999 PP

                              .S-HHHHHHHHHHHHHHHS-SEEEEEE---GG.GT.SSS---TTTHHHHHHHHHHHHCTS-EEEEEE-EEGGG-BSSS-SS-BEEE CS
                     NmrA  76 .skeiedgkklvdAakeaGvkhfiySslgddndrsnaeepavphfdsKaeieeyvralgipytfvyagffmenflsllaqlkvgdt 160
                               ++ +    + ++A  + +vk++iy +    +  s   +   +h  s  e+e+++r   ip t ++ag+  +   s++  lk+  +
  PHY93_00050|PHY93_00050  83 qDTDLLLADNFARACHKEKVKQMIYLGGLIPEAGS---F--SKHLTSRKEVEDVLRYTNIPITVLRAGMAVGDGGSSFEILKNLVL 163
                              88888999999**************8755555333...4..7899*******************************9999888888 PP

                              -TTS.-EEEEESS-TTS-EE.-HHHHHHHHHHHHHHHHHHHTTEEEEE-SEEE-HHHHHHHHHHHHTS- CS
                     NmrA 161 appedkvtllgpgnpkavll.daeeDiGafvikilkdprklkgkriklagntlsgneivelfekkigkt 228
                              + p     +l p  +k +   +  +D  a++ik ++++  ++  +  ++g+tl++++++e      gk+
  PHY93_00050|PHY93_00050 164 NLPF----MLLPKWTKNKTQtIYIDDLIAVIIKSINNKMFFNKTINIVTGETLTYKNLIEQTIDHFGKK 228
                              8885....5555555555555599***********99999988888899*********99888888887 PP

>> 3Beta_HSD  3-beta hydroxysteroid dehydrogenase/isomerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.5   0.0   6.6e-08    0.0002       2     114 ..       5     108 ..       4     112 .. 0.76

  Alignments for each domain:
  == domain 1  score: 20.5 bits;  conditional E-value: 6.6e-08
                3Beta_HSD   2 vtGgaGFlGralvkeLvrleelkevrvlDlrespelleelskvnvkkviegDvtdkdkleealegvdvvihlaslvdvagkltede 87 
                              + G++GF+G++l+k+L        ++       +++ +++sk ++ + +e+D+ + ++  +al++ d+ i+l   ++  ++l +++
  PHY93_00050|PHY93_00050   5 IAGASGFIGKNLIKNLDTNL---SIK-----ALSRT-SKISKDKNVTWVEVDLFSLSSTIAALKDTDIAIYLVHSMMPSSRLFQGN 81 
                              78************984433...344.....34444.334444445599**********************955555555566666 PP

                3Beta_HSD  88 imkvnvkGTrnvleacvkagvrvlvYt 114
                              +++  +    n   ac k  v+ ++Y 
  PHY93_00050|PHY93_00050  82 FQDTDLLLADNFARACHKEKVKQMIYL 108
                              77777777788889************6 PP

>> Semialdhyde_dh  Semialdehyde dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   6.9e-05      0.21       1      44 [.       2      44 ..       2      70 .. 0.70

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 6.9e-05
                             EEEEETTTSHHHHHHHHHHHCTSSEEEEEEEESTTTTTSBHHHH CS
           Semialdhyde_dh  1 kvaivGatGyvGqellrlLeehpevelvvllsssrsaGkklaea 44
                             ++ i Ga+G +G++l++ L+++ +++ +  +s+ + + k+++ +
  PHY93_00050|PHY93_00050  2 NITIAGASGFIGKNLIKNLDTNLSIKALSRTSKIS-KDKNVTWV 44
                             5889****************988777777666555.88888777 PP

>> NAD_binding_4  Male sterility protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   0.0   0.00059       1.8       1      33 [.       5      34 ..       5     122 .. 0.72
   2 ?    0.8   0.0     0.074   2.2e+02     187     209 ..     128     153 ..      98     206 .. 0.73
   3 ?   -3.3   0.0       1.4     4e+03     129     153 ..     288     313 ..     284     331 .. 0.70

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.00059
                             EE-TTSHHHHHHHHHHHHHS-.TEEEEEE-SSS CS
            NAD_binding_4  1 lTGaTGFLGkvLlekLLrttpevkiyllvRaks 33
                             + Ga+GF+Gk L+++L ++     i +l R+++
  PHY93_00050|PHY93_00050  5 IAGASGFIGKNLIKNLDTNL---SIKALSRTSK 34
                             67************984333...4666666654 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.074
                              HHHHHHHH---EEEEEE-EEE-...- CS
            NAD_binding_4 187 vrearrrsglpvvivRpsiitg...e 209
                              v++  r  ++p++++R ++ +g   +
  PHY93_00050|PHY93_00050 128 VEDVLRYTNIPITVLRAGMAVGdggS 153
                              555666678**********9995541 PP

  == domain 3  score: -3.3 bits;  conditional E-value: 1.4
                              .-EEEEEE.GGGTTS-TTT--SSS-H CS
            NAD_binding_4 129 kvllhvST.ayvngeregeveekvye 153
                              ++l  vST  +v++ +++++ +++++
  PHY93_00050|PHY93_00050 288 EMLKMVSTnKIVKKGSRSKLVDRTVR 313
                              46788999877777777666666554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (443 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       565  (0.0315132); expected 358.6 (0.02)
Passed bias filter:                      339  (0.0189079); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.42
# Mc/sec: 3195.66
//
Query:       PHY93_00055|PHY93_00055  [L=61]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
     0.0043   16.6   0.2     0.0058   16.2   0.2    1.2  1  HTH_24        Winged helix-turn-helix DNA-binding
     0.0047   17.0   0.0     0.0054   16.8   0.0    1.0  1  Replic_Relax  Replication-relaxation
     0.0093   15.9   0.2      0.018   15.0   0.1    1.6  2  HTH_12        Ribonuclease R winged-helix domain
  ------ inclusion threshold ------
      0.012   15.5   0.2      0.016   15.1   0.2    1.4  1  MarR          MarR family
      0.051   13.7   0.1       0.06   13.5   0.1    1.1  1  FUR           Ferric uptake regulator family
        0.1   12.5   0.2       0.22   11.4   0.0    1.7  2  HTH_5         Bacterial regulatory protein, arsR family


Domain annotation for each model (and alignments):
>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.2   1.9e-06    0.0058      32      48 .]      36      52 ..      32      52 .. 0.91

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 1.9e-06
                   HTH_24 32 stvnrrlkrLeeeGlIk 48
                             stv+rrl+ Le+eGlI+
  PHY93_00055|PHY93_00055 36 STVLRRLRILEKEGLIR 52
                             9***************7 PP

>> Replic_Relax  Replication-relaxation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   1.8e-06    0.0054       2      42 ..      12      53 ..      11      57 .. 0.92

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 1.8e-06
             Replic_Relax  2 rlLaehrvlTtrqiarllfashra.tarrrLarLrelgllsr 42
                               L + ++l+t  i + +f+++ + t+ rrL++L+++gl++r
  PHY93_00055|PHY93_00055 12 SDLGNYGLLSTTVIVEKHFNNVYYsTVLRRLRILEKEGLIRR 53
                             66888999********************************98 PP

>> HTH_12  Ribonuclease R winged-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0       1.2   3.6e+03      47      54 ..       3      10 ..       2      19 .. 0.64
   2 !   15.0   0.1     6e-06     0.018      33      52 ..      36      55 ..      22      60 .. 0.85

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 1.2
                   HTH_12 47 ltrrvgya 54
                             +t+r+ y 
  PHY93_00055|PHY93_00055  3 FTNRKQYL 10
                             78888886 PP

  == domain 2  score: 15.0 bits;  conditional E-value: 6e-06
                   HTH_12 33 ravRyrLrkleergltrrvg 52
                              +v +rLr+le++gl+rr g
  PHY93_00055|PHY93_00055 36 STVLRRLRILEKEGLIRRAG 55
                             57889*************87 PP

>> MarR  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.1   0.2   5.5e-06     0.016      29      49 ..      33      53 ..       4      54 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 5.5e-06
                             S-HHHHHHHHHHHHHTTSEEE CS
                     MarR 29 vskstvtrvldrLekkGlieR 49
                             v  stv r l+ Lek+Gli+R
  PHY93_00055|PHY93_00055 33 VYYSTVLRRLRILEKEGLIRR 53
                             5569****************9 PP

>> FUR  Ferric uptake regulator family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.1     2e-05      0.06      33      61 ..      26      54 ..      18      60 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 2e-05
                             HHHTTTT--HHHHHHHHHHHHHTTSEEEE CS
                      FUR 33 lkeedpeislaTVYrtLklleeaglvkel 61
                             ++++++++  +TV r L++le++gl+++ 
  PHY93_00055|PHY93_00055 26 VEKHFNNVYYSTVLRRLRILEKEGLIRRA 54
                             679999********************986 PP

>> HTH_5  Bacterial regulatory protein, arsR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0       1.1   3.2e+03      36      46 ..      11      21 ..      10      22 .. 0.78
   2 ?   11.4   0.0   7.3e-05      0.22      30      46 ..      36      52 ..      32      53 .. 0.92

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 1.1
                             HHHHHHTTSEE CS
                    HTH_5 36 LkkLreaGLVe 46
                             L+ L + GL++
  PHY93_00055|PHY93_00055 11 LSDLGNYGLLS 21
                             77888889886 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 7.3e-05
                             HHHHHHHHHHHHTTSEE CS
                    HTH_5 30 stvShHLkkLreaGLVe 46
                             stv + L++L+++GL++
  PHY93_00055|PHY93_00055 36 STVLRRLRILEKEGLIR 52
                             89*************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (61 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       417  (0.0232584); expected 358.6 (0.02)
Passed bias filter:                      341  (0.0190195); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.34u 0.21s 00:00:00.55 Elapsed: 00:00:00.35
# Mc/sec: 519.29
//
Query:       PHY93_00060|PHY93_00060  [L=883]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.5e-49  167.3   0.5    2.5e-49  167.3   0.5    2.0  2  E1-E2_ATPase     E1-E2 ATPase
    6.8e-47  159.5   3.0    6.8e-47  159.5   3.0    1.7  2  Cation_ATPase_C  Cation transporting ATPase, C-terminus
    4.3e-25   89.2   1.6    3.9e-24   86.1   1.2    2.6  2  Hydrolase        haloacid dehalogenase-like hydrolase
    1.2e-20   73.4   0.0    3.3e-20   72.0   0.0    1.8  1  Cation_ATPase    Cation transport ATPase (P-type)
    1.2e-11   44.1   0.7    2.9e-11   42.9   0.0    2.1  2  Cation_ATPase_N  Cation transporter/ATPase, N-terminus
    2.3e-10   40.7   1.2    5.1e-07   29.7   0.7    2.2  2  Hydrolase_3      haloacid dehalogenase-like hydrolase
    8.3e-05   23.1   0.3    0.00022   21.7   0.0    1.8  2  HAD              haloacid dehalogenase-like hydrolase
  ------ inclusion threshold ------
       0.24   11.0   6.2       0.48   10.1   0.0    2.9  2  DUF4131          Domain of unknown function (DUF4131)


Domain annotation for each model (and alignments):
>> E1-E2_ATPase  E1-E2 ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  167.3   0.5   1.1e-52   2.5e-49       2     181 .]     129     322 ..     128     322 .. 0.99
   2 ?   -2.8   0.1       1.7   3.9e+03     110     163 ..     681     734 ..     656     740 .. 0.65

  Alignments for each domain:
  == domain 1  score: 167.3 bits;  conditional E-value: 1.1e-52
                              SS--EEEEE-TTS-EEEEGGG--TTSEEEEETT-B--SEEEEEEE-S.EEE-TTTS---S-EE-.............G-TTEE-TT CS
             E1-E2_ATPase   2 llpptakvirdgteeeidakelvpGDivllkagdrvpaDgrivegsa.evdesaLTGEslpvek.............ekgdmvfsG 73 
                              + p++++v+r+g++ e++a+++v GDivll +g+rvpaDgr++ +++ e+des+LTGEs+p  k             e+ +m+++ 
  PHY93_00060|PHY93_00060 129 MIPRRTNVRREGKTFEVAAEDIVLGDIVLLDTGSRVPADGRLLVSQSlEIDESVLTGESVPTAKrqdveldskapisERVNMAYMN 214
                              67999***********************************************************************99******** PP

                              -EEEE-EEEEEEEE-TTTSTTTTTSTTS--------HHHHHHHHHHHHHHHHHHHHHHHHHHS-STTTSSTTHHHHHHHHHHHHHS CS
             E1-E2_ATPase  74 tvvvsgeakavVtatgedtelgkiarlveeakskktplqkkldklgkvlvpvvlliallvflialllgkslaeallralallvaai 159
                              t+v++g+ +  Vt tg  te+gk+a+++ + +   tplqk+ld+lgk l+++++ +++++ ++ +++g++l ++ +++++l+vaa+
  PHY93_00060|PHY93_00060 215 TNVTRGRGELLVTGTGARTEIGKMAAMIGSIELPPTPLQKQLDQLGKRLAAFAVSVVAIIGIFEYFRGDTLKQIAMESISLAVAAM 300
                              ************************************************************************************** PP

                              -TTHHHHHHHHHHHHHHHHHHT CS
             E1-E2_ATPase 160 PcaLplavplalalgarrlakk 181
                              P++Lp++v+++lalg+ r+a+k
  PHY93_00060|PHY93_00060 301 PEGLPAVVTVTLALGLYRMARK 322
                              ********************97 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 1.7
                              HHHHHHHHHHHHHHHHHHHHHHHHHHS-STTTSSTTHHHHHHHHHHHHHS-TTH CS
             E1-E2_ATPase 110 plqkkldklgkvlvpvvlliallvflialllgkslaeallralallvaaiPcaL 163
                               +  ++ k++++   +++ ++l +f++ +l   s+ + +    + +++  P+a+
  PHY93_00060|PHY93_00060 681 TIYDNIVKFMRFQLSTSIGALLSIFFAPILGLPSPLNPIQVLWVAMIMDGPPAI 734
                              455667788888777777778888888777777776666655555555556655 PP

>> Cation_ATPase_C  Cation transporting ATPase, C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.1       2.8   6.3e+03      89     133 ..     658     705 ..     640     710 .. 0.62
   2 !  159.5   3.0     3e-50   6.8e-47       1     181 [.     713     883 .]     713     883 .] 0.97

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 2.8
          Cation_ATPase_C  89 yaqtmaFitlvlsqifn.alnlrsrreslfkfsglf..snkllllail 133
                               a tm+++   ++ i++ +   r+ +++++kf+ ++  ++  +ll+i+
  PHY93_00060|PHY93_00060 658 EAATMVLTDDNFATIIQaVHEGRTIYDNIVKFMRFQlsTSIGALLSIF 705
                              466666666667777775556788888888877777433333333333 PP

  == domain 2  score: 159.5 bits;  conditional E-value: 3e-50
          Cation_ATPase_C   1 plplsaiqiLwinLvtDllpalaLaleppekdimkrpPrkkkepliskkmlrriliqgllqalvtllvffltlllfgisekenkls 86 
                              p+pl++iq+Lw+ +++D+ pa+aL+++ +e++im+rpPr+ + +++s+  lr  l++g+++a+ tl+++ +++   + + ++    
  PHY93_00060|PHY93_00060 713 PSPLNPIQVLWVAMIMDGPPAIALGMDLAEEEIMTRPPRPLEGQILSSQRLRSLLFYGAVMAAGTLYLLRVGMI--NGKLEQ---- 792
                              79*******************************************************************99998..666655.... PP

          Cation_ATPase_C  87 snyaqtmaFitlvlsqifnalnlrsrreslfkfsglfsnkllllaillslllqvlivyvpglnavfgtaplsleewlialllalvv 172
                                 a t+ F+t+vl+q+fna+n+rs+ +s+f   ++f+n+ l+ +++l +llqvl+v +p+l+avfgt+pl++ ew  a+++a+ +
  PHY93_00060|PHY93_00060 793 ---AKTLSFTTFVLFQFFNAFNARSEGRSAFG-LQFFTNYRLWTSLALVILLQVLVVHWPPLQAVFGTVPLGPFEWGQAIGIASSL 874
                              ...*****************************.9999************************************************* PP

          Cation_ATPase_C 173 llvdelvKl 181
                              l++ e++Kl
  PHY93_00060|PHY93_00060 875 LFLEEIRKL 883
                              *******97 PP

>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.0      0.76   1.7e+03      30      76 ..     192     247 ..     178     290 .. 0.70
   2 !   86.1   1.2   1.8e-27   3.9e-24       2     210 .]     339     644 ..     338     644 .. 0.67

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 0.76
                              HHHHHHHHHHCHHHHHH.HHHHHHH......HHHH....HHHHHETTTEHHHHTHHHH CS
                              xxxxxxxxxxxxxxxxx.xxxxxxx......xxxx....xxxxxxxxxxxxxxxxxxx RF
                Hydrolase  30 laaaletgsehpigkal.vaaakar......sgal....tgfatfigrgayaigkpew 76 
                               ++  e+ s+ pi +++  a+ +        +  l    tg +t ig+ a++ig+ e+
  PHY93_00060|PHY93_00060 192 KRQDVELDSKAPISERVnMAYMNTNvtrgrgE--LlvtgTGARTEIGKMAAMIGSIEL 247
                              45556666888888888666666668877552..223346666666666888888774 PP

  == domain 2  score: 86.1 bits;  conditional E-value: 1.8e-27
                              SEEEEESBTTTBCHHHHHHHHHHHH........CHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHETTTE............ CS
                              xxxxxxxxxxxxxxxxxxxxxxxxx........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx............ RF
                Hydrolase   2 ktvvfDkdGTLttgepsvedvivsa........alalaaaletgsehpigkalvaaakarsgaltgfatfigrg............ 67 
                              ++++ Dk+GTLt+  +  e ++           +            + i k +++a  +    + +++  +++             
  PHY93_00060|PHY93_00060 339 NVICTDKTGTLTQNLMTAEAFWIHPrtydvrnaK------------TEIKKTYIEALIDPFVLCNDVQIHNEKFvgdpteialikl 412
                              899*********9999999988887333333331............3333333333333322222222211111222233233333 PP

                              .........................................HHHHTHHHHHHHHHCHHHHHHHHHHHHHHCHHHHHH......... CS
                              .........................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......... RF
                Hydrolase  68 .........................................ayaigkpewltaldippdlgaaigsaqsqgrtvall......... 103
                                                                       ++                                 +         
  PHY93_00060|PHY93_00060 413 amelgsnaselrqirpriaeipfeserkfmatfhtsldgieVL---------------------------------Vkgapdvilq 465
                              3333333333333323335544444444444444444444433.................................1344444444 PP

                              ............................................................TTHHHHHHHHHHTHHBHTTHHHHHHH CS
                              ............................................................xxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 104 ............................................................qaralavftiadplkvkpeaaeavas 129
                                                                                          +    +++ + dp  ++ ea+ea+++
  PHY93_00060|PHY93_00060 466 hcsqiltaegfapldsqhiaevkneitllarrgmrvlavaskiktssefslqgdllleitNLTFIGLIGLIDP--PRAEAKEAIKR 549
                              555555555555555555555557777777777777777********************999***********..*********** PP

                              HHHTTEEEEEEESSEHHHHHHHHHHTT...GGGESEEEEHHCES...........STTTSHHHHHHHHHHHTSTGGGEEEEESSHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxx...........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 130 LkaagievvlltgdnpetaeraanqlG...ddyfdaviasdiet...........vakpspegkvaaireLqgkpeevamVGDgvn 201
                               k+agi+v ++tgd+  ta+++a++lG   + +  a +++++++           +a + pe+k++++r L+ +++ vam GDgvn
  PHY93_00060|PHY93_00060 550 CKQAGIDVKMITGDHLDTAMAIASELGlegEAISGADLEQIDDEalskrislisvFARVAPEHKLRIVRALKSNGKVVAMTGDGVN 635
                              ****************************954444666666666679999999999*****************99999********* PP

                              HHHHHHHTT CS
                              xxxxxxxxx RF
                Hydrolase 202 DaaalaaAg 210
                              Da+al+aA+
  PHY93_00060|PHY93_00060 636 DAPALRAAD 644
                              ********8 PP

>> Cation_ATPase  Cation transport ATPase (P-type)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.0   0.0   1.5e-23   3.3e-20       2      91 .]     389     470 ..     388     470 .. 0.94

  Alignments for each domain:
  == domain 1  score: 72.0 bits;  conditional E-value: 1.5e-23
            Cation_ATPase   2 lcNsaafsensekdevkllGnktEsALlvlaeklgldteelreetkkvqeipFnssrKrmsvvlklepekkvrlyvKGApeiilkr 87 
                              lcN+ ++      +++k++G++tE+AL++la +lg + +elr+  ++++eipF+s+rK+m++ ++     ++ ++vKGAp++il++
  PHY93_00060|PHY93_00060 389 LCNDVQI------HNEKFVGDPTEIALIKLAMELGSNASELRQIRPRIAEIPFESERKFMATFHTSL--DGIEVLVKGAPDVILQH 466
                              5666666......8999************************************************76..***************** PP

            Cation_ATPase  88 Cthv 91 
                              C+++
  PHY93_00060|PHY93_00060 467 CSQI 470
                              *975 PP

>> Cation_ATPase_N  Cation transporter/ATPase, N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.9   0.0   1.3e-14   2.9e-11       2      67 ..      23      87 ..      22      89 .. 0.96
   2 ?   -3.1   0.1         3   6.6e+03      38      58 ..     790     810 ..     789     811 .. 0.83

  Alignments for each domain:
  == domain 1  score: 42.9 bits;  conditional E-value: 1.3e-14
          Cation_ATPase_N  2 halsleevlekLetdlenGLtqaeaaerlkkyGpNelkekkkkslwvkllkqftnplvilLlvaal 67
                             +++++e+ l +++ ++  GL+++e++ r+ ++G N+l+e+ ++s+++ +++q++ +l ilL  aa+
  PHY93_00060|PHY93_00060 23 WTVPVENCLIQFN-SSVMGLNEEEINSRRVQFGANQLAERSPRSVVRVVFDQLKGFLNILLGLAAI 87
                             789*********9.9***********************************************9998 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 3
          Cation_ATPase_N  38 lkekkkkslwvkllkqftnpl 58 
                              l++ k  s+  ++l qf n +
  PHY93_00060|PHY93_00060 790 LEQAKTLSFTTFVLFQFFNAF 810
                              778888999999999999987 PP

>> Hydrolase_3  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.2   0.0   0.00042      0.93      19      60 ..     542     583 ..     538     600 .. 0.87
   2 !   29.7   0.7   2.3e-10   5.1e-07     196     252 ..     617     673 ..     613     676 .. 0.88

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.00042
                              HHHHHHHHHHHTTSEEEEE-SS-HHHHHHHHHHCCCCSEEEE CS
              Hydrolase_3  19 ktkeaikklkekgikvviATGRslravlpvleelgldlpvia 60 
                              ++keaik++k++gi v   TG +l +++ ++ elgl+  +i+
  PHY93_00060|PHY93_00060 542 EAKEAIKRCKQAGIDVKMITGDHLDTAMAIASELGLEGEAIS 583
                              789********************************9977765 PP

  == domain 2  score: 29.7 bits;  conditional E-value: 2.3e-10
                              HHHCT--GGGEEEEESSGGGHHHHHHSSEEEEETTS-HHHHHHSSEEE--GGGTHHH CS
              Hydrolase_3 196 akelnisleeviafGDgeNDieMLeaaglgvAmgnaseevkkaAdyvtksnnedGVa 252
                              +  l+ + + v+  GDg ND + L aa++g+Amg+++e +k+aA++v ++ n   + 
  PHY93_00060|PHY93_00060 617 VRALKSNGKVVAMTGDGVNDAPALRAADIGIAMGSGTEVAKEAATMVLTDDNFATII 673
                              56778888889999*********************************9998876665 PP

>> HAD  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.0       5.1   1.1e+04       7      41 ..     347     382 ..     342     387 .. 0.73
   2 !   21.7   0.0     1e-07   0.00022      87     188 .]     537     641 ..     525     641 .. 0.84

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 5.1
                      HAD   7 gTLldg.dslelllrfllrrgaprlwralrekllla 41 
                              gTL+++  ++e+++ + +  + + + ++++ ++ +a
  PHY93_00060|PHY93_00060 347 GTLTQNlMTAEAFWIHPRTYDVRNAKTEIKKTYIEA 382
                              899999888888888777776666666666666555 PP

  == domain 2  score: 21.7 bits;  conditional E-value: 1e-07
                      HAD  87 dp...galellaahraaGdrvvvvSgglrplvepllaelg..adevlatelevdd..rltgelglegkpvrg..egkvaalrewla 163
                              dp   +a+e+++++++aG+ v +++g +   + +++ elg   +++ + +le  d   l++++ l+  + r   e+k++ +r+   
  PHY93_00060|PHY93_00060 537 DPpraEAKEAIKRCKQAGIDVKMITGDHLDTAMAIASELGleGEAISGADLEQIDdeALSKRISLISVFARVapEHKLRIVRA--- 619
                              555679***********************************99999999********99999666666654444778877777... PP

                      HAD 164 aegegidleevvay.GDspsDlpllr 188
                               +++g     vva  GD+++D p+lr
  PHY93_00060|PHY93_00060 620 LKSNGK----VVAMtGDGVNDAPALR 641
                              444444....78888*********98 PP

>> DUF4131  Domain of unknown function (DUF4131)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.0   0.00021      0.48      50     112 ..     116     174 ..      73     188 .. 0.74
   2 ?   -0.5   4.3      0.39   8.7e+02      26      53 ..     813     851 ..     756     853 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00021
                  DUF4131  50 rapqpnandlsqllesgqeviveGvvaslpeltgsgtrfvleverv.......lsagktkpvsgrvlvtv 112
                              ++              ++  +++G +  + +++++g+ f++++e +       l++g ++p+ gr+lv+ 
  PHY93_00060|PHY93_00060 116 EYKAE-----------KTLAALKGMIPRRTNVRREGKTFEVAAEDIvlgdivlLDTGSRVPADGRLLVSQ 174
                              32222...........455679**********************************************86 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.39
                  DUF4131  26 r...........rprrrvllllllllllallgfalrapq 53 
                              r            +++r +++l+l++ll +l+++++ +q
  PHY93_00060|PHY93_00060 813 RsegrsafglqfFTNYRLWTSLALVILLQVLVVHWPPLQ 851
                              055555555555789999*************99998766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (883 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       505  (0.0281667); expected 358.6 (0.02)
Passed bias filter:                      372  (0.0207485); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.71u 0.26s 00:00:00.97 Elapsed: 00:00:00.42
# Mc/sec: 6272.03
//
Query:       PHY93_00065|PHY93_00065  [L=141]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.4e-15   56.2   9.5    3.4e-15   56.2   9.5    1.9  2  PsiE      Phosphate-starvation-inducible E


Domain annotation for each model (and alignments):
>> PsiE  Phosphate-starvation-inducible E
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.4      0.15   2.7e+03       4      10 ..      15      21 ..       3      34 .. 0.55
   2 !   56.2   9.5   1.9e-19   3.4e-15       1      68 []      56     123 ..      56     123 .. 0.98

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 0.15
                     PsiE  4 iLllLil 10
                             iL+lL+ 
  PHY93_00065|PHY93_00065 15 ILMLLMV 21
                             3333332 PP

  == domain 2  score: 56.2 bits;  conditional E-value: 1.9e-19
                     PsiE   1 lgdiLllLillEllrtivaylkehriavrlvieaaiiavaRklIildlkdggyltllglaaailaLgl 68 
                              + ++Ll+L+ +El +t+++y+ +h+i+ +++i++aiia+aRk+I+ldlk+ +   llg+aa+ l+L++
  PHY93_00065|PHY93_00065  56 FSMFLLVLVGIELVETLKIYVFQHEIRTEIIILVAIIALARKIITLDLKEVSNGSLLGVAAIMLSLSI 123
                              689**************************************************************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (141 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       923  (0.0514808); expected 358.6 (0.02)
Passed bias filter:                      264  (0.0147247); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.24s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 1090.60
//
Query:       PHY93_00070|PHY93_00070  [L=38]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (38 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       389  (0.0216967); expected 358.6 (0.02)
Passed bias filter:                      316  (0.0176251); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.36u 0.18s 00:00:00.54 Elapsed: 00:00:00.35
# Mc/sec: 320.91
//
Query:       PHY93_00075|PHY93_00075  [L=93]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (93 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       253  (0.0141112); expected 358.6 (0.02)
Passed bias filter:                      207  (0.0115455); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.33u 0.20s 00:00:00.53 Elapsed: 00:00:00.33
# Mc/sec: 839.66
//
Query:       PHY93_00080|PHY93_00080  [L=90]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (90 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       410  (0.022868); expected 358.6 (0.02)
Passed bias filter:                      308  (0.0171789); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.21s 00:00:00.60 Elapsed: 00:00:00.38
# Mc/sec: 713.48
//
Query:       PHY93_05555|PHY93_05555  [L=321]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.6e-43  148.8  20.2    2.1e-43  148.4  20.2    1.1  1  Cation_efflux  Cation efflux family
  ------ inclusion threshold ------
       0.03   14.6   1.0      0.079   13.2   1.0    1.7  1  ESSS           ESSS subunit of NADH:ubiquinone oxidoreductase


Domain annotation for each model (and alignments):
>> Cation_efflux  Cation efflux family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  148.4  20.2   2.3e-47   2.1e-43       2     196 ..      39     227 ..      38     228 .. 0.97

  Alignments for each domain:
  == domain 1  score: 148.4 bits;  conditional E-value: 2.3e-47
            Cation_efflux   2 ilsllanlilalvelivglltnSlalladafhslsdlvsllllllalklsrkppderfpfGygrlevlgalvsgllllglavflll 87 
                              i ++ +n ++ ++e+++g+++nSlal+ada h+lsd+++l++++ a++l+ k+p+ +++fG+ ++  l al+++++l++++  +++
  PHY93_05555|PHY93_05555  39 IFGITLNSLFVIIEGFYGYFSNSLALMADAGHNLSDVAGLIIAWGAIWLATKKPTSNYTFGLRKSSILSALFNAIFLMIAVGIIIW 124
                              678999******************************************************************************** PP

            Cation_efflux  88 eaiqklikegereihaglalvvalvslvvnlalllilrragrklrsaalkaaalhvlgDaltslgvlvsalvillfnlksgplaDp 173
                              ea+++l+  +  +i+  ++++va++++v+n + +l++ +   k ++ ++k+a+lh+  Dal s+gv++s ++i ++   s++++Dp
  PHY93_05555|PHY93_05555 125 EALHRLW-VPSLVIEYKMVIIVAGIGIVINSITALLFFKD--KDHDLNIKGAYLHMAADALISAGVVLSGVIISYT---SWNWVDP 204
                              *******.9****************************998..56***************************99998...779**** PP

            Cation_efflux 174 vaslligliilysalkllkesls 196
                              ++s++i++ii+y +++llk+s++
  PHY93_05555|PHY93_05555 205 LVSIVISFIIIYGTWDLLKNSMR 227
                              ********************986 PP

>> ESSS  ESSS subunit of NADH:ubiquinone oxidoreductase (complex I)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   1.0   8.8e-06     0.079      30      62 ..      13      45 ..       4      65 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 8.8e-06
                     ESSS 30 lyekNpdshGfdkdpvedkenmeavfffgvsiv 62
                               ekN +sh  +++ +   +n +++f+fg+++ 
  PHY93_05555|PHY93_05555 13 SLEKNSHSHKHHHHHHHGPKNYNVAFIFGITLN 45
                             579***************************973 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (321 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1118  (0.0623571); expected 358.6 (0.02)
Passed bias filter:                      495  (0.0276089); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.39
# Mc/sec: 2442.82
//
Query:       PHY93_00085|PHY93_00085  [L=138]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    9.2e-33  113.5  13.7      1e-32  113.3  13.7    1.0  1  DMT_YdcZ    Putative inner membrane exporter, YdcZ
  ------ inclusion threshold ------
      0.071   13.0   0.8        3.3    7.6   0.0    2.1  2  Flavi_NS2B  Flavivirus non-structural protein NS2B
        7.4    5.2   5.0         10    4.8   5.0    1.2  1  DUF2207     Predicted membrane protein (DUF2207)


Domain annotation for each model (and alignments):
>> DMT_YdcZ  Putative inner membrane exporter, YdcZ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  113.3  13.7   1.7e-36     1e-32       5     139 .]       1     136 [.       1     136 [. 0.98

  Alignments for each domain:
  == domain 1  score: 113.3 bits;  conditional E-value: 1.7e-36
                 DMT_YdcZ   5 lallaGallalqaaiNaqLgkklgsplaAalvsflvGlivllllllllrks.aalaalksvpwwallGGllGavfvtlnillvpkl 89 
                              la+ +G ++++q+ i ++L++k+++p+ Aa+v+f+ G++++l+++ +++ + ++++++ ++pw++++GG++G vf++ +++++pk+
  PHY93_00085|PHY93_00085   1 LAFSIGCFIPFQGIITSNLSQKIQHPFGAAFVNFFGGMLLFLFAISVSSVAlPSIKKVMTIPWYLFTGGVVGSVFIFGALFALPKI 86 
                              68899****************************************9999878********************************** PP

                 DMT_YdcZ  90 GaaltvvlvllGqllaslliDhfGlfgvekrplsltrllGlllllaGvvl 139
                              Ga++++  ++lGqll+ l++Dh+G+fg++ ++++  r++G++ll+ G++l
  PHY93_00085|PHY93_00085  87 GASTFFGQIVLGQLLMTLIVDHYGVFGLPIHKIDSIRIIGVALLISGAFL 136
                              ***********************************************986 PP

>> Flavi_NS2B  Flavivirus non-structural protein NS2B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.6   0.0   0.00055       3.3      30      58 ..      34      63 ..       9      67 .. 0.70
   2 ?    4.4   0.1    0.0053        32      21      53 ..      87     119 ..      65     134 .. 0.77

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.00055
               Flavi_NS2B 30 ivGGllialvvvaGrvddl.elkklaevsw 58
                               GG+l+ l++++ ++  l ++kk+  + w
  PHY93_00085|PHY93_00085 34 FFGGMLLFLFAISVSSVALpSIKKVMTIPW 63
                             46***********98887758999998888 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.0053
               Flavi_NS2B  21 edvnllGPlivGGllialvvvaGrvddlelkkl 53 
                                  + G ++ G ll++l+v    v +l ++k+
  PHY93_00085|PHY93_00085  87 GASTFFGQIVLGQLLMTLIVDHYGVFGLPIHKI 119
                              567899***********9997777777777776 PP

>> DUF2207  Predicted membrane protein (DUF2207)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   5.0    0.0017        10     378     447 ..      22      99 ..      12     102 .. 0.69

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.0017
                  DUF2207 378 kklkklsalglgliilglilillallllvll........lvfllilllillliaiivlllfsrllgrrteeGaellak 447
                              k++  ++a+ + ++  +l++++++ ++ v+l        + ++l+++ +++ ++i+ +l++   +g+ t  G+ +l++
  PHY93_00085|PHY93_00085  22 KIQHPFGAAFVNFFGGMLLFLFAISVSSVALpsikkvmtIPWYLFTGGVVGSVFIFGALFALPKIGASTFFGQIVLGQ 99 
                              4444444444444444444444444444444899****9999999999999999999999988888888777777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (138 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       499  (0.027832); expected 358.6 (0.02)
Passed bias filter:                      196  (0.010932); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.25s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 912.41
//
Query:       PHY93_00090|PHY93_00090  [L=40]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.13   12.3   7.7        0.3   11.1   7.7    1.7  1  DUF3641   Protein of unknown function (DUF3641)


Domain annotation for each model (and alignments):
>> DUF3641  Protein of unknown function (DUF3641)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   7.7   1.7e-05       0.3     123     135 .]      17      29 ..       1      29 [. 0.87

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 1.7e-05
                  DUF3641 123 gCtaGaGssCgGa 135
                              +CtaGaGssCgGa
  PHY93_00090|PHY93_00090  17 TCTAGAGSSCGGA 29 
                              7***********7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (40 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       235  (0.0131073); expected 358.6 (0.02)
Passed bias filter:                      180  (0.0100396); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.35u 0.21s 00:00:00.55 Elapsed: 00:00:00.37
# Mc/sec: 324.82
//
Query:       PHY93_00095|PHY93_00095  [L=344]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.3e-29  102.1   0.0    3.9e-29  101.4   0.0    1.4  1  Methyltransf_31  Methyltransferase domain
    1.4e-17   64.2   0.0    2.9e-17   63.1   0.0    1.6  1  Methyltransf_25  Methyltransferase domain
    1.7e-16   60.6   0.0    3.4e-16   59.7   0.0    1.5  1  Methyltransf_11  Methyltransferase domain
    3.8e-13   49.6   0.0    5.8e-13   49.0   0.0    1.2  1  Methyltransf_23  Methyltransferase domain
    8.6e-13   48.2   0.0    1.4e-12   47.5   0.0    1.2  1  Ubie_methyltran  ubiE/COQ5 methyltransferase family
    1.3e-08   35.4   0.0    3.3e-08   34.2   0.0    1.7  1  Methyltransf_12  Methyltransferase domain
    9.4e-07   28.8   0.0    1.7e-06   27.9   0.0    1.3  1  PCMT             Protein-L-isoaspartate(D-aspartate) O-methyl
    1.5e-05   24.6   0.0    8.9e-05   22.1   0.0    2.0  2  DOT1             Histone methylation protein DOT1
    0.00066   19.2   0.0     0.0011   18.4   0.0    1.3  1  PrmA             Ribosomal protein L11 methyltransferase (Prm
     0.0026   17.7   0.1      0.008   16.0   0.0    1.8  2  Methyltransf_8   Hypothetical methyltransferase
  ------ inclusion threshold ------
      0.013   15.3   0.1      0.022   14.5   0.0    1.4  1  Methyltransf_16  Lysine methyltransferase
      0.018   15.1   0.0      0.035   14.2   0.0    1.5  1  FtsJ             FtsJ-like methyltransferase
      0.036   13.6   0.0      0.051   13.1   0.0    1.3  1  Methyltransf_5   MraW methylase family
      0.073   12.3   0.0       0.11   11.7   0.0    1.2  1  CMAS             Mycolic acid cyclopropane synthetase
      0.081   12.9   0.0       0.14   12.1   0.0    1.4  1  Methyltransf_32  Methyltransferase domain
       0.09   12.2   0.0       0.96    8.9   0.0    2.1  2  Methyltransf_4   Putative methyltransferase


Domain annotation for each model (and alignments):
>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  101.4   0.0   3.5e-32   3.9e-29       4     148 ..      64     213 ..      61     241 .. 0.89

  Alignments for each domain:
  == domain 1  score: 101.4 bits;  conditional E-value: 3.5e-32
          Methyltransf_31   4 glrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielAre....naqklgld..nveFeqgdieelekl.ledekfDlilsne 82 
                              g++vlDlG+G+G++++ l +++gp ++v+G+D++ e ie+A++    +++k g++  nveF +g ie+l++  ++ +++D+++sn+
  PHY93_00095|PHY93_00095  64 GKTVLDLGSGSGRDCYILSKLVGPSGKVIGVDMTDEQIEVAKKyidyHTDKFGYKksNVEFVKGYIEDLNEIgIATSSIDVVISNC 149
                              789*********************************************************************************** PP

          Methyltransf_31  83 vlnaladpdkileeiervlkpggilliedprllaelpakveeeskay.evvegakigtqkdelyell 148
                              v+n+ ++++ ++ ei+rvl+pgg+l  +d+   ++ p+++ ++s +  e+++ga      +++++ll
  PHY93_00095|PHY93_00095 150 VINLSPSKERVFTEIFRVLRPGGELYFSDVFSSRRIPEELVQNSVLMgECLSGAL---YTEDFRRLL 213
                              ******************************9999999888888886678887776...444444443 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.1   0.0   2.6e-20   2.9e-17       1      97 []      67     172 ..      67     172 .. 0.85

  Alignments for each domain:
  == domain 1  score: 63.1 bits;  conditional E-value: 2.6e-20
                              EEEET-TTSHHHHHHHCTST.SSEEEEEESSHHHHHHHHHHHHH..TTT.....TEEEEESBCCGBS...SSTTTEEEEEEEST.G CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrlg.kakvtgvDiseemleaareraee..egl.....nvefvqgdaedlp...fedgsfDlvvssga.l 74 
                              vLdlG G+Gr++  l+k +g ++kv+gvD+++e++e a++ ++   +++     nvefv+g +edl+    + +s+D+v+s ++ +
  PHY93_00095|PHY93_00095  67 VLDLGSGSGRDCYILSKLVGpSGKVIGVDMTDEQIEVAKKYIDYhtDKFgykksNVEFVKGYIEDLNeigIATSSIDVVIS-NCvI 151
                              9******************669*****************988776522255667*******999998444599********.5735 PP

                              GGSSHHHHHHHHHHHHHHEEEEE CS
          Methyltransf_25  75 hhlsdedlekalkeiarvLkpgG 97 
                              + ls +  e+++ ei+rvL+pgG
  PHY93_00095|PHY93_00095 152 N-LS-PSKERVFTEIFRVLRPGG 172
                              5.55.4668*************9 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.7   0.0     3e-19   3.4e-16       1      96 []      68     176 ..      68     176 .. 0.91

  Alignments for each domain:
  == domain 1  score: 59.7 bits;  conditional E-value: 3e-19
                              EEET-TTSHHHHHHHHTT...SEEEEEES-HHHHHHHHHHCCHHT-.......EEEETTEECCCTS...S-TT-EEEEEEES-CCC CS
          Methyltransf_11   1 LdvGcGtGrlaealakrg...arvvgvDlskemlklakekaseegl.......kvefvvadaeklp...fednsfDlvvssevlhh 73 
                              Ld+G+G+Gr +  l k +   ++v+gvD+++e++++ak+ +            +vefv++ +e+l+   ++ +s+D+v+s+ v++ 
  PHY93_00095|PHY93_00095  68 LDLGSGSGRDCYILSKLVgpsGKVIGVDMTDEQIEVAKKYIDYHTDkfgykksNVEFVKGYIEDLNeigIATSSIDVVISNCVINL 153
                              8**************888899****************99887766677999999***9999998533449**************** PP

                              -CCHHHHHHHHHHHEEEEEEEEE CS
          Methyltransf_11  74 vedpekalkeiaRvLkpgGllvi 96 
                               +  e+++ ei RvL+pgG l++
  PHY93_00095|PHY93_00095 154 SPSKERVFTEIFRVLRPGGELYF 176
                              *******************9986 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.0   0.0   5.2e-16   5.8e-13      21     161 ..      62     219 ..      41     223 .. 0.80

  Alignments for each domain:
  == domain 1  score: 49.0 bits;  conditional E-value: 5.2e-16
          Methyltransf_23  21 raggrvLdiGcGtGillevl.rengf..svtgvDlspeaveiaekakkaqkdqfdeqeaaepqg...................... 81 
                               +g+ vLd+G G+G+ + +l +  g   +v+gvD+ +e++e a+k + ++ d+f         g                      
  PHY93_00095|PHY93_00095  62 LEGKTVLDLGSGSGRDCYILsKLVGPsgKVIGVDMTDEQIEVAKKYIDYHTDKF---------Gykksnvefvkgyiedlneigia 138
                              57899***************55557789***************96666666666.........22222345555566666666667 PP

          Methyltransf_23  82 ..kfdlIvlrevlehvpdppellrqiatllkpgGylllseplaslkedrllldwlylvpagrhi..sffsarslkelleeaGle 161
                                ++d+++++ v++  p+ +++++ i++ l+pgG l++s++ +s    + l ++  l  +   +   +++ +++++ll + G++
  PHY93_00095|PHY93_00095 139 tsSIDVVISNCVINLSPSKERVFTEIFRVLRPGGELYFSDVFSSRRIPEELVQNSVLMGE--CLsgALYT-EDFRRLLAKIGCQ 219
                              77***************************************9998877877777765544..33458999.9999999999987 PP

>> Ubie_methyltran  ubiE/COQ5 methyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.5   0.0   1.3e-15   1.4e-12      45     151 ..      61     176 ..      55     191 .. 0.83

  Alignments for each domain:
  == domain 1  score: 47.5 bits;  conditional E-value: 1.3e-15
                              S--TTEEEEES-TT-HHHHHHHHHHHHHHEEEEEES-HHHHHHHHHHHHHHTSS......TEEEEE--TTT-TTS-...T-EEEEE CS
          Ubie_methyltran  45 vkrgakvlDvagGtgDlafklsdsvgekgkvvvlDinenmLkvgekklkeegki......nieflqanaeeLpfed...dsfDvvt 121
                              +++g++vlD+ +G+g   + ls+ vg +gkv+++D+ ++ ++v++k +  ++ +      n+ef+++  e+L++      s Dvv 
  PHY93_00095|PHY93_00095  61 DLEGKTVLDLGSGSGRDCYILSKLVGPSGKVIGVDMTDEQIEVAKKYIDYHTDKfgykksNVEFVKGYIEDLNEIGiatSSIDVV- 145
                              689*******************************************98765444444588************9986433566665. PP

                              EES-GGG-.S-HHHHHHHHHHHEEEEEEEEE CS
          Ubie_methyltran 122 vsfGlrnv.tDklkaLkeayrvlkpGGrlvv 151
                              +s  + n+ + k++++ e++rvl+pGG+l+ 
  PHY93_00095|PHY93_00095 146 ISNCVINLsPSKERVFTEIFRVLRPGGELYF 176
                              67777776268899**************986 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.2   0.0     3e-11   3.3e-08       1      99 []      68     174 ..      68     174 .. 0.78

  Alignments for each domain:
  == domain 1  score: 34.2 bits;  conditional E-value: 3e-11
          Methyltransf_12   1 LeiGcGtGsllrallekl.pdieytgvDispsaiedakeklakre...nnnnnnvelealdlldldgg....ssfDlvvasnvlhh 78 
                              L++G+G+G+    l +   p  +++gvD   ++ie ak+ +  +    +++ +nve+ +  ++dl +     ss D+v++++v++ 
  PHY93_00095|PHY93_00095  68 LDLGSGSGRDCYILSKLVgPSGKVIGVDMTDEQIEVAKKYIDYHTdkfGYKKSNVEFVKGYIEDLNEIgiatSSIDVVISNCVINL 153
                              8*********999988889***************4444433322211123445555555555555555****************** PP

          Methyltransf_12  79 lkdirevldnirklLkpgGrl 99 
                               + +++v+ +i ++L+pgG l
  PHY93_00095|PHY93_00095 154 SPSKERVFTEIFRVLRPGGEL 174
                              *******************76 PP

>> PCMT  Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.9   0.0   1.5e-09   1.7e-06      73     129 ..      63     125 ..      62     131 .. 0.86

  Alignments for each domain:
  == domain 1  score: 27.9 bits;  conditional E-value: 1.5e-09
                              TT-EEEEES-TTSHHHHHHHHHHCTTCEEEEEESBHHHHHHHHHHHHHCTTC......SEEEE CS
                     PCMT  73 kgarvLevGsGsGyltavlarlvgekgrvvsierikelveeakrnlkkldle......nvivv 129
                              +g+ vL++GsGsG    +l++lvg++g+v++++ + e +e ak+ +  +  +      nv +v
  PHY93_00095|PHY93_00095  63 EGKTVLDLGSGSGRDCYILSKLVGPSGKVIGVDMTDEQIEVAKKYIDYHTDKfgykksNVEFV 125
                              5889***************************************99987765555555566555 PP

>> DOT1  Histone methylation protein DOT1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.1   0.0     8e-08   8.9e-05      44     154 ..      65     174 ..      61     195 .. 0.83
   2 ?   -0.2   0.0      0.55   6.1e+02      87     138 ..     207     258 ..     199     266 .. 0.75

  Alignments for each domain:
  == domain 1  score: 22.1 bits;  conditional E-value: 8e-08
                              -EEEEES-TTSH.HHHHHHHHH--SEEEEEE--HHHHHHHHHHHHHHHHHHHHTTB----EEEESS-STT-HHHHHHGGG-SEEEE CS
                     DOT1  44 dvFvDLGSGvGn.vvlqaalevgcklsvGvEimdnaselaekqkeelkkrlklfGkklakiefirksFvenekveeiieeadvilv 128
                              ++ +DLGSG G+ + ++  l     + +Gv+++d+  e+a+k    +  + + fG k++++ef+++   + +++  + ++ dv++ 
  PHY93_00095|PHY93_00095  65 KTVLDLGSGSGRdCYILSKLVGPSGKVIGVDMTDEQIEVAKKY---IDYHTDKFGYKKSNVEFVKGYIEDLNEIGIATSSIDVVIS 147
                              6789*******7366666666678899*********9999765...5667899*************999999999999999****9 PP

                              --TT--HHHHHHH.HHHHTT--TT-EE CS
                     DOT1 129 NNfaFdaelnkql.kellqdlkegtki 154
                              N ++  +  ++++ +e++  l+ g+ +
  PHY93_00095|PHY93_00095 148 NCVINLSPSKERVfTEIFRVLRPGGEL 174
                              999887777777779999999998765 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.55
                              HHHHHHHHHTTB----EEEESS-STT-HHHHHHGGG-SEEEE--TT--HHHH CS
                     DOT1  87 eelkkrlklfGkklakiefirksFvenekveeiieeadvilvNNfaFdaeln 138
                              e ++++l+  G + +++ f++k  ++ne++e+++ + +   +   aF  +l+
  PHY93_00095|PHY93_00095 207 EDFRRLLAKIGCQDSRVLFKSKITIQNEEIERLVGRIEFSSITIRAFKLNLE 258
                              6688888889999999999999999999999988776665555555555555 PP

>> PrmA  Ribosomal protein L11 methyltransferase (PrmA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0   9.7e-07    0.0011     161     265 ..      63     183 ..      47     194 .. 0.74

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 9.7e-07
                     PrmA 161 egeevlDvGtGSGiLa.iaaakLga.kkvvavDiDevAvkvakeNaelN......kvea.klev.a.lseellk....eekadviv 231
                              eg++vlD+G GSG    i ++++g   kv++vD+ +  ++vak+ +++       k  + ++e  +   e+l +    ++++dv++
  PHY93_00095|PHY93_00095  63 EGKTVLDLGSGSGRDCyILSKLVGPsGKVIGVDMTDEQIEVAKKYIDYHtdkfgyK--KsNVEFvKgYIEDLNEigiaTSSIDVVI 146
                              789**********754266677775269****************999885555331..22232211223333334455899***** PP

                     PrmA 232 aNILaev...lielaedikklvkeggllilSGilkek 265
                              +N + +      +   +i +++++gg l +S + +++
  PHY93_00095|PHY93_00095 147 SNCVINLspsKERVFTEIFRVLRPGGELYFSDVFSSR 183
                              **865541116789999***********999988776 PP

>> Methyltransf_8  Hypothetical methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.0   7.1e-06     0.008     112     162 ..     131     182 ..     123     209 .. 0.84
   2 ?   -2.7   0.0       3.8   4.2e+03      75      89 ..     212     226 ..     202     237 .. 0.75

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 7.1e-06
                              -TTS-S--TT-EEEEEE.ES---SS-HHHHHHHHHHHEEEEEEEEEEEEGGG CS
           Methyltransf_8 112 dlakvPledesvdvavf.clslmgtnladflkeanrvlkvGGllkvaevksr 162
                              dl+++ ++ +s+dv++  c+  ++   +    e+ rvl++GG l+ ++v s 
  PHY93_00095|PHY93_00095 131 DLNEIGIATSSIDVVISnCVINLSPSKERVFTEIFRVLRPGGELYFSDVFSS 182
                              899999********995488778888888889****************9763 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 3.8
                              -EEEES-TT-HHHHH CS
           Methyltransf_8  75 vvadlGcGeakiaea 89 
                               +a +Gc ++++ ++
  PHY93_00095|PHY93_00095 212 LLAKIGCQDSRVLFK 226
                              578899999998754 PP

>> Methyltransf_16  Lysine methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0     2e-05     0.022      43     131 ..      60     152 ..      47     184 .. 0.78

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 2e-05
          Methyltransf_16  43 nelsklsvlELGsGtGlvGlavaell.peakviltDlee.llellkknielnkn...alkskvkvevLdWgeeleedllekeevDl 123
                              ++l++++vl+LGsG+G    ++ +l+ p+ kvi  D+ +  +e+ kk i+   +     ks+v++    + e+l+e  ++++++D+
  PHY93_00095|PHY93_00095  60 DDLEGKTVLDLGSGSGRDCYILSKLVgPSGKVIGVDMTDeQIEVAKKYIDYHTDkfgYKKSNVEFV-KGYIEDLNEIGIATSSIDV 144
                              568899***********9999999987999**999976559*********9665664445555554.3577999999999999998 PP

          Methyltransf_16 124 ilaaDcvY 131
                              ++   ++ 
  PHY93_00095|PHY93_00095 145 VISNCVIN 152
                              87655554 PP

>> FtsJ  FtsJ-like methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   3.1e-05     0.035      21     100 ..      63     154 ..      35     192 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 3.1e-05
                              TT-EEEECT-TTSHHHHHHCCT.T.-SEEEEEESSSS.................HHHTTEEEECS-CCCSSHHHHHCHCHHH..SS CS
                     FtsJ  21 pgktvvDlgaaPGgwsqvllqrlgakgkvvavDlqpm.................aplpgvttiqgditdpetiekikealse..rk 87 
                              +gktv+Dlg++ G  + +l++ +g++gkv++vD+                     + ++v++++g i d + i           + 
  PHY93_00095|PHY93_00095  63 EGKTVLDLGSGSGRDCYILSKLVGPSGKVIGVDMTDEqievakkyidyhtdkfgYKKSNVEFVKGYIEDLNEIG-------IatSS 141
                              6799******************************6654555554444444322222245555555555555444.......03356 PP

                              EEEEEE--S-SS- CS
                     FtsJ  88 vdlvvsDgapdvs 100
                              +d+v+s  + + s
  PHY93_00095|PHY93_00095 142 IDVVISNCVINLS 154
                              7888877766555 PP

>> Methyltransf_5  MraW methylase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   4.6e-05     0.051      26     101 ..      69     145 ..      40     162 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 4.6e-05
                              ES--TTSHHHHHHHTT--TT..EEEEEES-HHHHHHHTT.....---EEEEES-GGGHHHHHHHTTTT-EEEEEEE-S CS
           Methyltransf_5  26 DaTlGaggHsealLeqlsel..rligidrDksalarakerLkefekrltlvkgnfkelkealaeanvtkvdgillDLG 101
                              D   G+ g   ++L++l     ++ig+d+ ++ +++ak+ +  +++++ + k+n +++k ++++ n   +    +D  
  PHY93_00095|PHY93_00095  69 DLGSGS-GRDCYILSKLVGPsgKVIGVDMTDEQIEVAKKYIDYHTDKFGYKKSNVEFVKGYIEDLNEIGIATSSIDVV 145
                              544444.445678888743335****************************************9998444444444444 PP

>> CMAS  Mycolic acid cyclopropane synthetase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   9.9e-05      0.11      62     162 ..      63     174 ..      61     191 .. 0.63

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 9.9e-05
                              TT-EEEEES-TTSHHHHHHHHHH..--EEEEEES-HHHHHHHHHHHH....TS-SSS-EEEE.ES-G.GG---......--SEEEE CS
                     CMAS  62 pGmtlLdiGcGWGslvrravery..dvkvvglTlSkeqaklakkrvd....eldlerkvevk.lldy.edlde......kvdrvvs 133
                              +G+t+Ld+G G G  +    +      kv+g+ + +eq ++akk +d    + + ++  +v+ +++y edl+e       +d v+s
  PHY93_00095|PHY93_00095  63 EGKTVLDLGSGSGRDCYILSKLVgpSGKVIGVDMTDEQIEVAKKYIDyhtdKFGYKK-SNVEfVKGYiEDLNEigiatsSIDVVIS 147
                              69***********876655544411679****************9972111334333.3343134554677775555444555555 PP

                              ES-GGGTSGGGHHHHHHHHHHHS-TT-EE CS
                     CMAS 134 vgafehvgkenydtffkklkkllkedGll 162
                                +++     + ++ f +++++l+++G l
  PHY93_00095|PHY93_00095 148 NCVINLS--PSKERVFTEIFRVLRPGGEL 174
                              4444432..23345666666777777766 PP

>> Methyltransf_32  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   0.00013      0.14      21      78 ..      59     115 ..      34     149 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00013
          Methyltransf_32  21 akesgaltvvDvGaGkgYLsfvlalkekeyklkvvgidakeelvekaekraeklgkkf 78 
                               ++ + +tv+D+G+G g    +l+   +  + kv+g+d+ +e +e a+k  +    kf
  PHY93_00095|PHY93_00095  59 PDDLEGKTVLDLGSGSGRDCYILSK-LVGPSGKVIGVDMTDEQIEVAKKYIDYHTDKF 115
                              4556789**********99999988.55689***************999766555444 PP

>> Methyltransf_4  Putative methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   0.0   0.00086      0.96       3      56 ..      65     125 ..      63     142 .. 0.78
   2 ?    0.9   0.0      0.25   2.8e+02      98     116 ..     159     177 ..     156     192 .. 0.83

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.00086
                              EEEEEET-TTSHHHHHHHHH.STTSEEEEEES-HHHHHHHHHHHHHC......TTSSEEEE CS
           Methyltransf_4   3 pvvleiGcGkGeflvalAkk.nPdknflGiEirvkvvakvlkkieal......elkNlril 56 
                              ++vl++G+G+G+    l+k   P+ +++G+++  + ++ + k i+ +      + +N++ +
  PHY93_00095|PHY93_00095  65 KTVLDLGSGSGRDCYILSKLvGPSGKVIGVDMTDEQIEVAKKYIDYHtdkfgyKKSNVEFV 125
                              689**************99637***************988888876655554444455444 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.25
                              HHHHHHHHHEEEEEEEEEE CS
           Methyltransf_4  98 ellkelarvLkkgGvlela 116
                               + +e+ rvL++gG+l++ 
  PHY93_00095|PHY93_00095 159 RVFTEIFRVLRPGGELYFS 177
                              5568999*********984 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (344 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       500  (0.0278878); expected 358.6 (0.02)
Passed bias filter:                      437  (0.0243739); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                        16  (0.000892409); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              16  [number of targets reported over threshold]
# CPU time: 0.55u 0.21s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 2517.94
//
Query:       PHY93_00100|PHY93_00100  [L=217]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.4e-22   79.3  13.4    1.7e-17   63.9   7.2    2.1  2  MIP       Major intrinsic protein


Domain annotation for each model (and alignments):
>> MIP  Major intrinsic protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.9   7.2   9.5e-22   1.7e-17      10     175 ..       4     155 ..       1     164 [. 0.78
   2 !   20.1   1.0   2.3e-08   0.00041      55     116 ..     153     215 ..     139     217 .] 0.75

  Alignments for each domain:
  == domain 1  score: 63.9 bits;  conditional E-value: 9.5e-22
                              HHHHHHHHHHHHHHHHHHHHHCCCSSCSSSSTTSSHHHHHHHHHHHHHHHHHHHHHHHCHT-S-SHHHHHHHHHTTSSSHHHHHHH CS
                      MIP  10 avlAEflatlllvfigvgsalnvkkkvsslaslvsvtleavalafglalavlvylaagiSGaHlNPavTlallvarkisllrailY 95 
                              ++++Efl+t +l++i+vgs + + ++ +    + ++ l+  +la g++l+vl++ ++ iSGa +NP v l  ++ ++++ +  +lY
  PHY93_00100|PHY93_00100   4 KFVSEFLGTAFLLMIVVGSGI-MGESLAG--GNNAIALLVNSLATGAGLFVLIQNLGPISGANFNPIVSLVEALWGRLDRKSLMLY 86 
                              689***************999.4454433..34557899999******************************************** PP

                              HHHHHHHHHHHHHHHHHHCHHHHHHTTTTSSSSSTTSSHHHHHHHHHHHHHHHHHHHHHHCSTTSSSSTCHGHHHHHHHH CS
                      MIP  96 ivaQllGaivaaallklltkglesraglfanslkpglsagqalvvEiiltfvLvlvvfaltddkrkvslgelaplaigll 175
                              ++aQ +Gai+++ l ++++++   + +      k+  +  +  ++Ei+ tf L+ ++  l   +++v   e+ap++i   
  PHY93_00100|PHY93_00100  87 WIAQFAGAIAGVWLTHAIFHQEIIQLS-----TKARFG-SHLWISEIVATFGLICTIA-LS-GRKHV---EFAPISIAAY 155
                              ****************99999522222.....333333.344589*******987663.32.22333...3566666655 PP

  == domain 2  score: 20.1 bits;  conditional E-value: 2.3e-08
                              HHHHHHHHHHHHHCHT-S-SHHHHHHHHH...TTSSSHHHHHHHHHHHHHHHHHHHHHHHHHCHH CS
                      MIP  55 glalavlvylaagiSGaHlNPavTlallv...arkisllrailYivaQllGaivaaallklltkg 116
                              ++ ++ ++  +   S +  NPavT+a +    ++ i+ + +  +i aQ+ Ga+ a  +l  + ++
  PHY93_00100|PHY93_00100 153 AAYVTSAYWFTS--STSFANPAVTVARMFtntFCGIDPTGVFPFILAQITGALFAFVILIKVRNE 215
                              455555555555..44567*******9862225788999******************99887665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (217 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       436  (0.0243181); expected 358.6 (0.02)
Passed bias filter:                      210  (0.0117129); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.19s 00:00:00.65 Elapsed: 00:00:00.37
# Mc/sec: 1737.51
//
Query:       PHY93_00105|PHY93_00105  [L=587]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      9e-53  178.5   0.0    1.7e-52  177.6   0.0    1.5  1  CheB_methylest  CheB methylesterase
    4.1e-25   88.1   0.1    1.2e-24   86.7   0.1    1.9  1  Response_reg    Response regulator receiver domain
    5.4e-24   84.9   0.2    1.1e-23   83.8   0.2    1.6  1  HATPase_c       Histidine kinase-, DNA gyrase B-, and HSP90-l
    1.2e-12   47.7   1.3    3.7e-12   46.1   1.3    1.9  1  HisKA           His Kinase A (phospho-acceptor) domain
    3.8e-05   23.5   0.1    0.00012   22.0   0.0    1.9  2  HATPase_c_3     Histidine kinase-, DNA gyrase B-, and HSP90-l
     0.0018   18.2   0.1     0.0042   17.0   0.1    1.6  1  HATPase_c_2     Histidine kinase-like ATPase domain
     0.0031   17.4   0.2       0.01   15.7   0.2    1.9  1  HATPase_c_5     GHKL domain
  ------ inclusion threshold ------
      0.022   14.2   5.4      0.039   13.4   5.4    1.3  1  Golgin_A5       Golgin subfamily A member 5
      0.034   13.9   2.7      0.092   12.5   2.7    1.7  1  DivIC           Septum formation initiator
       0.13   11.9   0.1       0.92    9.1   0.0    2.1  2  Fe_hyd_lg_C     Iron only hydrogenase large subunit, C-termin
       0.25   11.8   2.1       0.61   10.6   2.1    1.7  1  UPF0449         Uncharacterised protein family UPF0449
          2    9.0   5.7        8.8    7.0   5.7    2.1  1  Syntaxin-6_N    Syntaxin 6, N-terminal


Domain annotation for each model (and alignments):
>> CheB_methylest  CheB methylesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  177.6   0.0   1.1e-55   1.7e-52       1     170 []      11     187 ..      11     187 .. 0.96

  Alignments for each domain:
  == domain 1  score: 177.6 bits;  conditional E-value: 1.1e-55
                              EEEEE-TTHHHHHTTTGGGS-TT-SS-EEEEE---TT-HHHHHHHHHHH-SSEEEE--TT-B--TTEEEE--TTSEEEEE...... CS
           CheB_methylest   1 vvigaStGGlealkellaalpedfpaavvvvqhmppsftsslaelLnresslkVkeaedgeelepgrvyvapgdkhllie....la 82 
                              vvig+S+GG+eal+++l+ l+e++p+++++v h+p++  s l e+++++ +lkVkea ++e+++pg +y+ap+++hl ie    ++
  PHY93_00105|PHY93_00105  11 VVIGTSAGGIEALEKILSVLSESYPLPIIIVLHLPAGKPSLLPEVFKHKVKLKVKEAAEKESIKPGIIYFAPPGHHLIIEknktFS 96 
                              89******************999*********************************************************999966 PP

                              ....EE.-.-SS-HHHHHHHHHHHH.GGEEEEE-SBSS-TTHHHHHHHHHTT-EEEEE-GGG-SSBSHHHHHHHTT--SEEE-GGG CS
           CheB_methylest  83 ls..ak.kgerpsiDvlfesaaeaygeraigviLtGmgsDGaeGlkaikeaggltiaqdpesavvpgmPkaaieagavdevlplee 165
                              l+  ++   +rpsiDvlf+saa+++ge ++g++LtG+ +DGa Glk+ike+ggl+i+q+p sa++p mP+a +     d vl+l++
  PHY93_00105|PHY93_00105  97 LTldEPiLFSRPSIDVLFKSAAQTFGESLLGILLTGASEDGAMGLKNIKENGGLVIVQNPTSAEIPVMPAAGLPYASPDCVLSLDQ 182
                              5553566778******************************************************************999******* PP

                              HHHHH CS
           CheB_methylest 166 iaeel 170
                              ia+ l
  PHY93_00105|PHY93_00105 183 IADFL 187
                              **875 PP

>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.7   0.1   7.9e-28   1.2e-24       1     111 [.     218     330 ..     218     331 .. 0.95

  Alignments for each domain:
  == domain 1  score: 86.7 bits;  conditional E-value: 7.9e-28
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCT..TTSEEEEEE.SSTSH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireed..pelpviilt.ahsee 83 
                              +livdD ++++ +l+ lle++++ ++ +a +g+ealel+ ++++ l llD++mpgm+G+el++ +r  +  +++p+i++t +++++
  PHY93_00105|PHY93_00105 218 ILIVDDVKDNLVALKALLERDDV-NISQALSGQEALELMMKHDFALALLDVQMPGMNGFELAELMRGSNktKNIPIIFVTaGAKDQ 302
                              8**********************.*****************************************98887799*******666779 PP

                              HHHHHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  84 edavealkagaddflsKpfdpeeLlkal 111
                               ++ ++++ ga+dfl Kp+dp  +++++
  PHY93_00105|PHY93_00105 303 IYVFKGYESGAVDFLRKPLDPHSVKSKV 330
                              99*******************9988876 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   83.8   0.2   7.4e-27   1.1e-23       2     110 ..     482     587 .]     481     587 .] 0.93

  Alignments for each domain:
  == domain 1  score: 83.8 bits;  conditional E-value: 7.4e-27
                              HHHHHHHHHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHHHHH CS
                HATPase_c   2 dekrLrqiisnlvdNavkfatkageieveikaseddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkklvel 87 
                              d+ r++q+i nl++Na+++ + ++ ++++i+++ ++ vi +eD GiGi +edlk++f++f +   t ++ +g GlGl+iv +++e 
  PHY93_00105|PHY93_00105 482 DKLRIEQVITNLLTNAIRY-GAGKPVKINIRTEHERAVIIIEDQGIGIAEEDLKRIFQRFER--VTGTEVSGLGLGLYIVSQIIEA 564
                              67899**************.878888888886457***************************..7888899*************** PP

                              TTTEEEEEEETTTEEEEEEEEES CS
                HATPase_c  88 mgGeiwvesepgrGttftftlpl 110
                              ++G+i+ves  g G+ ft++lpl
  PHY93_00105|PHY93_00105 565 HNGSIKVESHLGTGSAFTIELPL 587
                              ********************996 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.1   1.3   2.5e-15   3.7e-12       2      67 .]     364     436 ..     363     436 .. 0.96

  Alignments for each domain:
  == domain 1  score: 46.1 bits;  conditional E-value: 2.5e-15
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHC.........T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH CS
                    HisKA   2 lgrflagvaHELrtPLsailgnaeaLkre.......gklteelkeyletiesearrldhlvedlLdlsrieag 67 
                              +++f+a   HELrtPL+a+++ a+  kr        + +te+l+++++   ++ +rl++l++d+Ld+sri +g
  PHY93_00105|PHY93_00105 364 REEFMAIATHELRTPLTALKLQAQSRKRNlergldsALTTEKLAKMFDADNKQLERLTRLIDDMLDISRISSG 436
                              789**********************99999******9999******************************886 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.1       4.3   6.5e+03      24      41 ..     206     223 ..     203     225 .. 0.83
   2 !   22.0   0.0   7.7e-08   0.00012       4      56 ..     487     539 ..     484     556 .. 0.82

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 4.3
              HATPase_c_3  24 ievnknrgktgeivieDd 41 
                              i  ++n++++ ei i Dd
  PHY93_00105|PHY93_00105 206 IMSETNKTAKFEILIVDD 223
                              777888899999999999 PP

  == domain 2  score: 22.0 bits;  conditional E-value: 7.7e-08
              HATPase_c_3   4 ekAlaelvdNsldAdaen.vkievnknrgktgeivieDdGkGmseeelknalrl 56 
                              e++++ l+ N++   a + vki++ +++ + + i ieD G G+ ee+lk+ ++ 
  PHY93_00105|PHY93_00105 487 EQVITNLLTNAIRYGAGKpVKINIRTEH-ERAVIIIEDQGIGIAEEDLKRIFQR 539
                              78999*******9555544999999976.799******************8863 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.1   2.8e-06    0.0042      31     106 ..     485     559 ..     451     570 .. 0.76

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 2.8e-06
              HATPase_c_2  31 eirlaveEactNavehayleapegpvevrlesdeealtvevaDsGpg.fdpe..tlpdpteeepkeslkegGrGlalik 106
                              +i+ +++ ++tNa++++      +pv++ ++ ++e+ ++ ++D+G g  +     + ++ e    ++    G+Gl+++ 
  PHY93_00105|PHY93_00105 485 RIEQVITNLLTNAIRYGAG----KPVKINIRTEHERAVIIIEDQGIGiAEEDlkRIFQRFERVTGTEVSGLGLGLYIVS 559
                              788899999*********8....99********************9954333113333333333455555555666665 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.2   6.8e-06      0.01       6      91 ..     486     575 ..     482     585 .. 0.77

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 6.8e-06
              HATPase_c_5   6 lcvilgnlLdNAieacskieeekrfIrltvrekkksliisieNsyeg....ek....kkle.sskskkeehGiGlksireivkkyk 82 
                              +  ++ nlL NAi            +++++r++++  +i+ie +  g    +     +++e  + ++ +  G+Gl  +++i++ ++
  PHY93_00105|PHY93_00105 486 IEQVITNLLTNAIRYGAGK-----PVKINIRTEHERAVIIIEDQGIGiaeeDLkrifQRFErVTGTEVSGLGLGLYIVSQIIEAHN 566
                              557899******9876654.....59****************995444433334344444444567788999************** PP

              HATPase_c_5  83 gnlsieaed 91 
                              g++++e + 
  PHY93_00105|PHY93_00105 567 GSIKVESHL 575
                              ****99875 PP

>> Golgin_A5  Golgin subfamily A member 5
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   5.4   2.6e-05     0.039      90     178 ..     335     426 ..     314     431 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 2.6e-05
                Golgin_A5  90 slreqlqeleeqleeerkakeeveaelerlkeelryleeelvrskatlqsrikdrekeiek.lrnqlttkslsss...seselesR 171
                              +l +q +el++q+ee +k+k e+e+ ++  +e + ++  el+   + l+ + + r +++e+ l + ltt++l +     +++le R
  PHY93_00105|PHY93_00105 335 ELSQQKKELKKQVEELKKTKAELEQAIRAREEFMAIATHELRTPLTALKLQAQSRKRNLERgLDSALTTEKLAKMfdaDNKQLE-R 419
                              677899999999999999999999999999999999999999999999999999999999989999998876665332444444.7 PP

                Golgin_A5 172 lkqLtes 178
                              l  L + 
  PHY93_00105|PHY93_00105 420 LTRLIDD 426
                              7777665 PP

>> DivIC  Septum formation initiator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   2.7   6.1e-05     0.092      20      62 ..     334     362 ..     325     374 .. 0.58

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 6.1e-05
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHCC-XXXXXXXXXXXX CS
                    DivIC  20 kqlkqeiaalqaelaklkaeneeLeaevkdLksdedyieerAR 62 
                                             +l+++++eL+++v++Lk++++ +e+  R
  PHY93_00105|PHY93_00105 334 L--------------ELSQQKKELKKQVEELKKTKAELEQAIR 362
                              4..............4555555555555555555555555433 PP

>> Fe_hyd_lg_C  Iron only hydrogenase large subunit, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.0      0.32   4.8e+02     147     188 ..     175     232 ..     165     317 .. 0.68
   2 ?    9.1   0.0   0.00062      0.92     131     194 ..     383     458 ..     376     532 .. 0.71

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.32
                              -EEEEHHHHHHHHHHTT--GGGS------.-TTSSSSSTSS-...............T CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxx...............x RF
              Fe_hyd_lg_C 147 DavlTtrElaellkeagidlakleeeeld.nplgessgagki...............e 188
                              D+vl+   +a+ l++ +    + ++++l+ n+++e+++++k                +
  PHY93_00105|PHY93_00105 175 DCVLSLDQIADFLQNLNPVTPEFSKSSLKeNIMSETNKTAKFeilivddvkdnlvalK 232
                              9999999999999988877777776665404566666666657788844444333331 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.00062
                              HHHHTSTT-BBTBBSS-EEEEHHHHHHHHHHTT--GGGS--...-----TTSSSSSTSS-...........TTEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxx...........xxxxxxx RF
              Fe_hyd_lg_C 131 klEaareefksagrdvDavlTtrElaellkeagidlaklee...eeldnplgessgagki...........egvkeae 194
                              kl a+ ++ +  +r +D  lTt+ la+++++ + +l++l+    ++ld + + ssg+ +i           ++v e +
  PHY93_00105|PHY93_00105 383 KLQAQSRKRNL-ERGLDSALTTEKLAKMFDADNKQLERLTRlidDMLD-ISRISSGKFTInlenfdlcsliHEVVERN 458
                              55555555433.399*****************9999888763213433.34566666666776666666663333333 PP

>> UPF0449  Uncharacterised protein family UPF0449
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   2.1   0.00041      0.61      66     100 ..     328     362 ..     324     363 .. 0.86

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00041
                  UPF0449  66 tylelnerLeeakeeLkqkceeLktageeLeeeie 100
                              + +++  +L+++k+eLk+++eeLk+   eLe++i 
  PHY93_00105|PHY93_00105 328 SKVNIFLELSQQKKELKKQVEELKKTKAELEQAIR 362
                              556666789***********************995 PP

>> Syntaxin-6_N  Syntaxin 6, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.0   5.7    0.0059       8.8      38      70 ..     335     392 ..     324     434 .. 0.66

  Alignments for each domain:
  == domain 1  score: 7.0 bits;  conditional E-value: 0.0059
             Syntaxin-6_N  38 eldetrteLrkalrsiewdledLeetvrivek.........................n 70 
                              el+++++eL+k++++++++  +Le+++r+ e+                         n
  PHY93_00105|PHY93_00105 335 ELSQQKKELKKQVEELKKTKAELEQAIRAREEfmaiathelrtpltalklqaqsrkrN 392
                              8999***********************7766655555555554444444444444440 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (587 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1533  (0.0855039); expected 358.6 (0.02)
Passed bias filter:                      829  (0.0462379); expected 358.6 (0.02)
Passed Vit filter:                       111  (0.00619109); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.75u 0.26s 00:00:01.01 Elapsed: 00:00:00.44
# Mc/sec: 4028.01
//
Query:       PHY93_00110|PHY93_00110  [L=282]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.5e-37  128.3   0.0    3.3e-37  127.9   0.0    1.1  1  CheR      CheR methyltransferase, SAM binding domain
    5.5e-11   42.0   1.4    5.5e-11   42.0   1.4    2.1  2  CheR_N    CheR methyltransferase, all-alpha domain


Domain annotation for each model (and alignments):
>> CheR  CheR methyltransferase, SAM binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  127.9   0.0   3.7e-41   3.3e-37       2     181 ..      76     255 ..      75     269 .. 0.91

  Alignments for each domain:
  == domain 1  score: 127.9 bits;  conditional E-value: 3.7e-41
                              S--TTTTCHHHHHHHHCCH.HHHHHHHTSSSEEEEEES-TTTHHHHHHHHHHHCHSTTTSSS-EEEEEEESSCHHHHHHHHTEEEC CS
                     CheR   2 eTeffreakhfeelekevlepllakaknekrvriwsagcssGeEpYslAmllketlpkaaklkvkilAtDidlkvlekAkagvyke 87 
                              +Te+fr++ +f++++++v+ p l   k+  +++iw agcs+GeE+Ys A+llke  +   + +  i+AtDi++k+l+kA+agv+  
  PHY93_00110|PHY93_00110  76 VTEMFRDPSYFRAIREKVI-PVL---KTYPSLKIWVAGCSTGEEAYSYAILLKE--EGLLD-RTIIYATDINAKSLQKAQAGVFGL 154
                              59*****************.555...4458************************..66666.789********************* PP

                              CHHTTS-HHHHHHHEEEEETTCEE.......E-HHHHTTEEEEE--TTT-SGGG--EEEEEE-SSGGGC-CHHHHHHHHHHHCCEE CS
                     CheR  88 eeleglseelleryfekseddsyk.......vkkeikelvkFeklnllekksvlgklDvifcrnvliYfdeetqekvlerfaeklk 166
                              + +++ ++++++   + + +d y+       ++k +k++++F  + l + +sv+++   i crnvliYfd++ q + l  f+e+l 
  PHY93_00110|PHY93_00110 155 DDIQKFTKNYQRSGGKATFSDYYTanfdaaiFHKSLKSNITFTDHSLST-DSVFSETQFISCRNVLIYFDRKLQDRALGLFYESLG 239
                              *******9998887777777777788889999*****************.************************************ PP

                              EEEEEEE-TTB--S.S CS
                     CheR 167 pgglLllGhsEslk.k 181
                               +g+L lG  E+++ +
  PHY93_00110|PHY93_00110 240 RKGFLGLGPKETIEfS 255
                              ************9842 PP

>> CheR_N  CheR methyltransferase, all-alpha domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.0   1.4   6.1e-15   5.5e-11       2      53 .]      11      62 ..      10      62 .. 0.97
   2 ?   -2.0   0.0      0.35   3.2e+03      40      47 ..     171     178 ..     166     179 .. 0.80

  Alignments for each domain:
  == domain 1  score: 42.0 bits;  conditional E-value: 6.1e-15
                             HHHHHHHHHHHTT-EE--SSTHHHHHTHHHHHHHTTT-SSSHHHHHHTSHSS CS
                   CheR_N  2 dferlleliyertGidlsdyKrallkrRlsrRmralglksfeeYldlLrsdp 53
                             ++ +lle iy ++ +d++dy ra+lkrR s  +r+l+++++++++d++ +dp
  PHY93_00110|PHY93_00110 11 ELGLLLEAIYLKYKYDFRDYSRASLKRRMSLALRELNCATLSALQDKILHDP 62
                             67799*********************************************98 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.35
                              SSSHHHHH CS
                   CheR_N  40 ksfeeYld 47 
                              ++f++Y+ 
  PHY93_00110|PHY93_00110 171 ATFSDYYT 178
                              69****95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (282 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       347  (0.0193541); expected 358.6 (0.02)
Passed bias filter:                      254  (0.014167); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.20s 00:00:00.64 Elapsed: 00:00:00.37
# Mc/sec: 2263.34
//
Query:       PHY93_00115|PHY93_00115  [L=1225]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.5e-60  199.8  11.5    1.3e-27   96.1   1.0    4.1  3  Response_reg   Response regulator receiver domain
    5.7e-32  110.5   0.1    7.2e-30  103.8   0.1    3.0  2  HATPase_c      Histidine kinase-, DNA gyrase B-, and HSP90-li
    4.8e-27   94.2   0.4    4.7e-12   45.9   0.0    3.3  2  PAS            PAS fold
    1.3e-25   89.6   0.3    1.7e-11   44.3   0.1    3.2  2  PAS_9          PAS domain
    1.2e-16   60.5   0.1    1.2e-16   60.5   0.1    4.7  4  HisKA          His Kinase A (phospho-acceptor) domain
      2e-16   60.5   0.0    5.6e-16   59.1   0.0    1.8  1  GAF_2          GAF domain
    5.6e-16   58.6   0.0    1.1e-06   28.9   0.0    3.0  2  PAS_3          PAS fold
    1.9e-15   57.1   0.0    1.1e-06   28.9   0.0    2.8  2  PAS_4          PAS fold
    1.6e-14   53.6   0.1    3.8e-06   26.8   0.0    3.6  3  PAS_8          PAS domain
    1.6e-09   38.5   0.0      5e-09   36.9   0.0    1.9  1  GAF            GAF domain
    3.3e-05   23.8  18.0    0.00012   22.0  18.0    2.0  1  ERM            Ezrin/radixin/moesin family
    0.00017   21.7   0.2       0.15   12.2   0.0    3.3  2  PilN           Fimbrial assembly protein (PilN)
    0.00018   21.8   0.0    0.00051   20.4   0.0    1.9  1  GAF_3          GAF domain
    0.00049   20.3   0.0        1.8    8.6   0.0    2.9  2  MLTR_LBD       MmyB-like transcription regulator ligand bindi
     0.0012   17.9  16.1      0.003   16.6  16.1    1.7  1  IFT57          Intra-flagellar transport protein 57
     0.0051   16.9   0.0        6.3    7.0   0.0    3.2  2  TruB_C_2       tRNA pseudouridylate synthase B C-terminal dom
     0.0052   16.9   8.6       0.61   10.3   0.1    4.6  3  PAS_7          PAS fold
  ------ inclusion threshold ------
      0.013   13.5  13.4      0.027   12.4  13.4    1.5  1  V_ATPase_I     V-type ATPase 116kDa subunit family
      0.023   13.6  31.7      0.029   13.3  27.9    2.6  2  Spc7           Spc7 kinetochore protein
      0.029   14.2   0.0      0.089   12.6   0.0    1.8  1  HATPase_c_3    Histidine kinase-, DNA gyrase B-, and HSP90-li
        0.2   10.9  11.5       0.45    9.7  11.5    1.5  1  DUF1943        Domain of unknown function (DUF1943)
       0.47   10.7  27.0        2.5    8.3  27.0    2.3  1  Jnk-SapK_ap_N  JNK_SAPK-associated protein-1
       0.48   10.6   4.8        1.9    8.6   4.8    2.0  1  DDHD           DDHD domain
       0.75    8.6  15.3        1.6    7.5  15.3    1.5  1  Fmp27_WPPW     RNA pol II promoter Fmp27 protein domain
        1.4    7.9  23.4      0.059   12.5  17.3    1.8  1  Atg14          Vacuolar sorting 38 and autophagy-related subu
        1.7    8.9  29.3        1.3    9.3  26.4    2.5  1  FliJ           Flagellar FliJ protein
        2.4    8.2  25.4       0.31   11.1  19.9    2.4  1  UPF0242        Uncharacterised protein family (UPF0242) N-ter
        2.7    7.5  41.1        1.8    8.0  29.3    3.4  3  MscS_porin     Mechanosensitive ion channel porin domain
        2.8    7.6  24.3       0.83    9.3  20.5    2.1  1  DUF745         Protein of unknown function (DUF745)
        2.9    7.1  22.7       0.23   10.7  16.6    2.4  2  DUF3450        Protein of unknown function (DUF3450)
        3.3    7.1  30.5         49    3.2  30.5    2.9  1  DUF3552        Domain of unknown function (DUF3552)
        5.5    7.7  11.8        7.9    7.2   8.5    3.2  1  DUF2203        Uncharacterized conserved protein (DUF2203)


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.9   0.1   1.5e-17   8.5e-15       1     110 [.     835     942 ..     835     944 .. 0.95
   2 !   54.1   0.2   2.6e-17   1.5e-14       1     101 [.     957    1058 ..     957    1070 .. 0.85
   3 !   96.1   1.0   2.4e-30   1.3e-27       1     111 [.    1103    1215 ..    1103    1216 .. 0.97

  Alignments for each domain:
  == domain 1  score: 54.9 bits;  conditional E-value: 1.5e-17
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCT..TTSEEEEEESSTSHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireed..pelpviiltahseee 84 
                              vl+++D+ ++ ++l +l  e +y ++ +a+ ++e ++++ e ++d illD+ +p+  Gl++l+++++++  +++pv +++ +   +
  PHY93_00115|PHY93_00115 835 VLVIEDEAIFSKILLDLAHELKY-KCLVAQGADEGFKMALEYSPDAILLDMILPDHLGLTVLDRLKQNPrtRHIPVHVISVE---D 916
                              89*********************.********************************************98888999999965...5 PP

                              HHHHHHHCTESEEEESSG-HHHHHHH CS
             Response_reg  85 davealkagaddflsKpfdpeeLlka 110
                              + + al++ga +++ Kp+++ee+++a
  PHY93_00115|PHY93_00115 917 YSETALQMGAIGYMLKPIKREEIKNA 942
                              8999*******************987 PP

  == domain 2  score: 54.1 bits;  conditional E-value: 2.6e-17
                               EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCT..TTSEEEEEESSTS CS
             Response_reg    1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireed..pelpviiltahse 82  
                               +l+v+D++l+r+ +  l+e+ g+ e+++++ ++eal  lk+  +d++++D+++p+m+G +ll+++  e+  + +pvi++t+ s 
  PHY93_00115|PHY93_00115  957 ILVVEDNELQRKSICLLIEDTGI-EITTVALASEALVELKKTVFDCMIMDLRLPDMSGDKLLEQMTHEEiqHFPPVIVYTGSSL 1039
                               89*********************.*****************************************877765669******9887 PP

                               HHHHHHHHHCTESEEEESS CS
             Response_reg   83 eedavealkagaddflsKp 101 
                               + + ++ l+   + ++ K 
  PHY93_00115|PHY93_00115 1040 SREEEDKLRKYSKSIIIKG 1058
                               7666666666666666665 PP

  == domain 3  score: 96.1 bits;  conditional E-value: 2.4e-30
                               EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHH.ESEEEEESSCSSSEHHHHHHHHHHCT..TTSEEEEEESST CS
             Response_reg    1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeek.vdlillDinmpgmdGlellkeireed..pelpviiltahs 81  
                               +l+vdDd  ++ +l+++le++g  ++ + ++g+eale+l+ +  +dl+l+Di+mp+mdG+e++k+ir+++   +lp+i++ta++
  PHY93_00115|PHY93_00115 1103 ILVVDDDIRNIFALTSALEQKGA-TIIVGRNGHEALEKLDLDPsIDLVLMDIMMPEMDGYEATKKIRKQKrfVSLPIIAVTARA 1185
                               89*********************.9999***********99888**********************99998899********** PP

                               SHHHHHHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg   82 eeedavealkagaddflsKpfdpeeLlkal 111 
                                ++d +++l+aga+d+lsKp+d ++Ll+ +
  PHY93_00115|PHY93_00115 1186 MKDDQEKCLEAGANDYLSKPVDLDKLLSLI 1215
                               **************************9876 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  103.8   0.1   1.3e-32   7.2e-30       1     110 [.     663     773 ..     663     775 .. 0.96
   2 ?    3.3   0.0       0.2   1.1e+02      35      55 ..     964     987 ..     931    1019 .. 0.67

  Alignments for each domain:
  == domain 1  score: 103.8 bits;  conditional E-value: 1.3e-32
                              EHHHHHHHHHHHHHHHHHHHHSTTTEEEEEEEE.EETEEEEEEEESSSSSTTHHHTGTCSTTCH.HCSTCHTSTSSSHHHHHHHHH CS
                HATPase_c   1 gdekrLrqiisnlvdNavkfatkageieveika.seddlvisveDnGiGipkedlkklfekfsq.ddstkrggggtGlGlsivkkl 84 
                              +d +rL+qi++nl++Na+kf t++g +++++ + s+++l ++v+D+GiGipke+++ +fe+f q d++t+r++ggtGlGlsi++ l
  PHY93_00115|PHY93_00115 663 TDRQRLEQILKNLLSNALKF-TSSGAVKIRLYRhSKGKLAFEVSDSGIGIPKEQQQIIFEAFRQaDGTTNRKYGGTGLGLSISRDL 747
                              5899****************.99*********85459************************************************* PP

                              HHHTTTEEEEEEETTTEEEEEEEEES CS
                HATPase_c  85 velmgGeiwvesepgrGttftftlpl 110
                              ++l+gG+i+ves+ g+G++ft+ lp+
  PHY93_00115|PHY93_00115 748 ARLLGGSIEVESTVGIGSRFTLILPE 773
                              **********************9997 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.2
                              E...TEEEEEEEESSSSSTTHHHT CS
                HATPase_c  35 e...ddlvisveDnGiGipkedlk 55 
                              e   + +++ +eD+Gi i+   l 
  PHY93_00115|PHY93_00115 964 ElqrKSICLLIEDTGIEITTVALA 987
                              2444688999*********98887 PP

>> PAS  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.9   0.0   1.8e-14   9.8e-12       2     113 .]      40     150 ..      39     150 .. 0.95
   2 !   45.9   0.0   8.3e-15   4.7e-12       2     107 ..     162     266 ..     161     272 .. 0.93

  Alignments for each domain:
  == domain 1  score: 44.9 bits;  conditional E-value: 1.8e-14
                              HHHHHHHHSSSEEEEEETTSBEEEECHHHHHHHSSTHHHCTTSBGGGGBSTTHHHHHHHHHHHHHHHTT-ECCCCEEEECTTSSEE CS
                      PAS   2 dlraileslpdpifvvDedgrilyvNaaaeellGlsreevlgkslldliheeddaelaelleqlleqgeesrageisfklrdgrpi 87 
                              ++ ++++++ d+i + D  g+il +N+ aee+ G+s+ e+l  +++d +++e+ +e a+++   l+ ge   + e+++k++dgr+ 
  PHY93_00115|PHY93_00115  40 RMATVIQDSNDAITIQDLEGNILAWNRGAEEMYGYSEAEALCMNIVDTVPTEY-QEEARQFIASLKRGELVPNLETKRKTKDGRIL 124
                              7899*********************************************9985.58****************************** PP

                              EEEEEEEEEEETTEEEEEEEEEEEES CS
                      PAS  88 hlevraspvrdaggeilgflgvlrdi 113
                               + +++++++d +g+++g+  + rdi
  PHY93_00115|PHY93_00115 125 DVWLTNTKLTDDKGKLTGIATTERDI 150
                              ******************99888876 PP

  == domain 2  score: 45.9 bits;  conditional E-value: 8.3e-15
                              HHHHHHHHSSSEEEEEETTSBEEEECHHHHHHHSSTHHHCTTSBGGGGBSTTHHHHHHHHHHHHHHHTT-ECCCCEEEECTTSSEE CS
                      PAS   2 dlraileslpdpifvvDedgrilyvNaaaeellGlsreevlgkslldliheeddaelaelleqlleqgeesrageisfklrdgrpi 87 
                              ++ ++++++ d+i + D  g+il +N+ ae + G+s+ e+l+k+++d +++e+ +e a+++   l+ ge   + e+++k +dgr+i
  PHY93_00115|PHY93_00115 162 RMATVIQDSNDAITIQDLEGNILAWNRGAELMYGYSEAEALSKNIVDTVPTEY-QEEARQFIASLKRGELVPNLETKRKHKDGRII 246
                              7899*********************************************9985.57999999999999999999999999****** PP

                              EEEEEEEEEEETTEEEEEEE CS
                      PAS  88 hlevraspvrdaggeilgfl 107
                               + +++++++d +g+++g+ 
  PHY93_00115|PHY93_00115 247 DVWLTNTKLTDDKGKLTGIA 266
                              ****************9986 PP

>> PAS_9  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.3   0.1     3e-14   1.7e-11       2     104 .]      50     152 ..      49     152 .. 0.97
   2 !   42.0   0.0   1.6e-13   8.9e-11       2     103 ..     172     273 ..     171     274 .. 0.96

  Alignments for each domain:
  == domain 1  score: 44.3 bits;  conditional E-value: 3e-14
                    PAS_9   2 dgilidnpdgrilyaNeaalrllGyspeevlgksitdlfvtdpeanerlraaleqgrk..kerevevvlirkngetfwvlltaspv 85 
                              d+i i + +g+il +N++a++++Gys++e l  +i d++  + e +e+ r+++ ++++   + + e+   +k+g+ + v lt + +
  PHY93_00115|PHY93_00115  50 DAITIQDLEGNILAWNRGAEEMYGYSEAEALCMNIVDTV--PTEYQEEARQFIASLKRgeLVPNLETKRKTKDGRILDVWLTNTKL 133
                              7899999********************************..9999999999999999999***************99999****** PP

                    PAS_9  86 kdddgelvgiivilrDite 104
                               dd+g+l+gi+ + rDi+e
  PHY93_00115|PHY93_00115 134 TDDKGKLTGIATTERDISE 152
                              *****************98 PP

  == domain 2  score: 42.0 bits;  conditional E-value: 1.6e-13
                    PAS_9   2 dgilidnpdgrilyaNeaalrllGyspeevlgksitdlfvtdpeanerlraaleqgrk..kerevevvlirkngetfwvlltaspv 85 
                              d+i i + +g+il +N++a+ ++Gys++e l k+i d++  + e +e+ r+++ ++++   + + e+   +k+g+ + v lt + +
  PHY93_00115|PHY93_00115 172 DAITIQDLEGNILAWNRGAELMYGYSEAEALSKNIVDTV--PTEYQEEARQFIASLKRgeLVPNLETKRKHKDGRIIDVWLTNTKL 255
                              7899999********************************..9999999999999999999************************** PP

                    PAS_9  86 kdddgelvgiivilrDit 103
                               dd+g+l+gi+ + r it
  PHY93_00115|PHY93_00115 256 TDDKGKLTGIATTEREIT 273
                              *********999999998 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0       7.1     4e+03      24      47 ..     199     228 ..     193     230 .. 0.76
   2 ?   -2.0   1.5       6.9   3.8e+03      32      54 ..     474     496 ..     458     519 .. 0.73
   3 !   60.5   0.1   2.1e-19   1.2e-16       2      67 .]     549     616 ..     548     616 .. 0.98
   4 ?    1.1   0.2      0.74   4.2e+02      27      59 ..     634     676 ..     630     680 .. 0.78

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 7.1
                              HHHHHC........T-HSSCHHHHHHHHHH CS
                    HisKA  24 aeaLkre......gklteelkeyletiese 47 
                              aeaL++        ++ ee ++++++++++
  PHY93_00115|PHY93_00115 199 AEALSKNivdtvpTEYQEEARQFIASLKRG 228
                              566655578888888999999999999886 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 6.9
                              T-HSSCHHHHHHHHHHHHHHHHH CS
                    HisKA  32 klteelkeyletiesearrldhl 54 
                               ++eel+e+ + ++++  rl+++
  PHY93_00115|PHY93_00115 474 TANEELEEQSRALKESQARLQNQ 496
                              36777777777777777777765 PP

  == domain 3  score: 60.5 bits;  conditional E-value: 2.1e-19
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHC....T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH CS
                    HisKA   2 lgrflagvaHELrtPLsailgnaeaLkre..gklteelkeyletiesearrldhlvedlLdlsrieag 67 
                              +++fla+++HELrtPL++ l  a++L++   g+lt+e+ ++  +i s+++ l++l++d+Ldls+ eag
  PHY93_00115|PHY93_00115 549 KTEFLANMSHELRTPLNSSLILAKLLMDNvkGNLTDEQVQFAGSIYSSGNDLLNLINDILDLSKVEAG 616
                              799**************************************************************997 PP

  == domain 4  score: 1.1 bits;  conditional E-value: 0.74
                              HHC...T-HSSCHHHHHHHHHHHH.........HHHHHHHHHH CS
                    HisKA  27 Lkre.gklteelkeyletiesear.........rldhlvedlL 59 
                              Lk + ++l +e k ++e+i +e           rl++++++lL
  PHY93_00115|PHY93_00115 634 LKQTfQSLAQEKKLNFEVISEENIpqalttdrqRLEQILKNLL 676
                              5555566778888899998888888899999999999999997 PP

>> GAF_2  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.1   0.0     1e-18   5.6e-16       2     137 ..     307     442 ..     306     443 .. 0.83

  Alignments for each domain:
  == domain 1  score: 59.1 bits;  conditional E-value: 1e-18
                              HHHHHHHHHHHHHHHHS.S..EE.EEEEE-TTS-EEEEEEEES-TTSTT-S-B---TTHHHHHHHHTS-EEES-.GGG-S-HHHHH CS
                    GAF_2   2 adleelldlvldelvel.gaalg.yillvdddgglrlaawgeaeeefgaaldrplgeglvgealrtgrpvilnd.leedpdkkglp 84 
                              +d++ l + +l++lv + +a+lg +++ + +d++l+ ++ +   +++ ++    +gegl+g+a+ ++r +++++ +e   +k+ + 
  PHY93_00115|PHY93_00115 307 QDISHLGRSILSHLVPFtNAQLGaFYWAY-GDEKLKRVSGYALSKTDASEKTIEFGEGLIGQAALEKRIFLIENvPEGYFNKIKSD 391
                              7889999*********867**88544443.4577555544444444444444478*******************8888******** PP

                              HHHHTT--EEEEEE-TTS---EEEEES......--HHHHHHHHHHHHHHHHHH CS
                    GAF_2  85 aghaglrsflavPlisegrvvGvlnlyankppafdeedlelLeelaeqiaiai 137
                              +g+  ++s l+ P+++e++v Gv++++     +f+e ++++L+ +++ i+iai
  PHY93_00115|PHY93_00115 392 LGEITPKSLLICPILYEDEVNGVIEIA--SITPFTEHQRAFLSHVSGNIGIAI 442
                              ****************99********5..6777*******************9 PP

>> PAS_3  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.4   0.0   1.1e-08   6.4e-06       2      86 ..      62     144 ..      61     146 .. 0.92
   2 !   28.9   0.0   1.9e-09   1.1e-06       2      86 ..     184     266 ..     183     268 .. 0.92

  Alignments for each domain:
  == domain 1  score: 26.4 bits;  conditional E-value: 1.1e-08
                    PAS_3   2 iyvserveeilGyspeellgkveswldlvhpeDrervrealqealkkge.pyegeyRirrkdGeyrwveararvirdengkpvrvi 86 
                              + +++  ee++Gys++e l    ++ d v  e +e++r+ ++ +lk+ge + + e ++++kdG +  v+ + + + d++gk + + 
  PHY93_00115|PHY93_00115  62 LAWNRGAEEMYGYSEAEALCM--NIVDTVPTEYQEEARQFIA-SLKRGElVPNLETKRKTKDGRILDVWLTNTKLTDDKGKLTGIA 144
                              68*******************..*************999997.888999555*****************************98876 PP

  == domain 2  score: 28.9 bits;  conditional E-value: 1.9e-09
                    PAS_3   2 iyvserveeilGyspeellgkveswldlvhpeDrervrealqealkkge.pyegeyRirrkdGeyrwveararvirdengkpvrvi 86 
                              + +++  e ++Gys++e l+k  ++ d v  e +e++r+ ++ +lk+ge + + e ++++kdG ++ v+ + + + d++gk + + 
  PHY93_00115|PHY93_00115 184 LAWNRGAELMYGYSEAEALSK--NIVDTVPTEYQEEARQFIA-SLKRGElVPNLETKRKHKDGRIIDVWLTNTKLTDDKGKLTGIA 266
                              68*******************..*************999997.888999555*****************************99876 PP

>> PAS_4  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.4   0.0   2.3e-08   1.3e-05       4     108 ..      48     153 ..      45     155 .. 0.89
   2 !   28.9   0.0   1.9e-09   1.1e-06       4     109 ..     170     276 ..     167     277 .. 0.90

  Alignments for each domain:
  == domain 1  score: 25.4 bits;  conditional E-value: 2.3e-08
                    PAS_4   4 lpdalavldpdgrvlyaNaaaaelfgappeellGktlaellpeedaarleralrrvlegeepiefleelllpgeerhyelrl..lP 87 
                              ++da+++ d +g++l++N+ a+e++g++ +e+l +   + +p+e +++ ++ ++ + +ge +   ++ +++ +++r++++ l  + 
  PHY93_00115|PHY93_00115  48 SNDAITIQDLEGNILAWNRGAEEMYGYSEAEALCMNIVDTVPTEYQEEARQFIASLKRGELVPNLETKRKT-KDGRILDVWLtnTK 132
                              899****************************************9999999999999999876666666666.77777777766699 PP

                    PAS_4  88 lrdesGevigvlvisrDiTer 108
                              l d++G+  g+  + rDi+e+
  PHY93_00115|PHY93_00115 133 LTDDKGKLTGIATTERDISEQ 153
                              99*****************98 PP

  == domain 2  score: 28.9 bits;  conditional E-value: 1.9e-09
                    PAS_4   4 lpdalavldpdgrvlyaNaaaaelfgappeellGktlaellpeedaarleralrrvlegeepiefleelllpgeerhyelrl..lP 87 
                              ++da+++ d +g++l++N+ a+ ++g++ +e+l k   + +p+e +++ ++ ++ + +ge +   ++ +++ +++r++++ l  + 
  PHY93_00115|PHY93_00115 170 SNDAITIQDLEGNILAWNRGAELMYGYSEAEALSKNIVDTVPTEYQEEARQFIASLKRGELVPNLETKRKH-KDGRIIDVWLtnTK 254
                              899*****************999************************************988888888888.66666665555599 PP

                    PAS_4  88 lrdesGevigvlvisrDiTerr 109
                              l d++G+  g+  + r+iT+r+
  PHY93_00115|PHY93_00115 255 LTDDKGKLTGIATTEREITARK 276
                              9*******************97 PP

>> PAS_8  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.8   0.0   6.8e-09   3.8e-06       3      63 ..      41     100 ..      36     105 .. 0.85
   2 !   21.8   0.0   2.4e-07   0.00014       3      63 ..     163     222 ..     158     227 .. 0.80
   3 ?   -0.1   0.0       1.8     1e+03       4      17 ..     870     892 ..     869     934 .. 0.57

  Alignments for each domain:
  == domain 1  score: 26.8 bits;  conditional E-value: 6.8e-09
                    PAS_8   3 lralfesspdgiavvd.lgdrivdvNqaalellGysadlkgellgqllpvlrplle.daeqll 63 
                                +++  s+d+i + d +g+ i+ +N+ a+e++Gys    ++l+ ++++ ++ + + +a+q+ 
  PHY93_00115|PHY93_00115  41 MATVIQDSNDAITIQDlEGN-ILAWNRGAEEMYGYS--EAEALCMNIVDTVPTEYQeEARQFI 100
                              456899**********6666.***************..8889999999999999998888876 PP

  == domain 2  score: 21.8 bits;  conditional E-value: 2.4e-07
                    PAS_8   3 lralfesspdgiavvd.lgdrivdvNqaalellGysadlkgellgqllpvlrplle.daeqll 63 
                                +++  s+d+i + d +g+ i+ +N+ a+ ++Gys    ++l  ++++ ++ + + +a+q+ 
  PHY93_00115|PHY93_00115 163 MATVIQDSNDAITIQDlEGN-ILAWNRGAELMYGYS--EAEALSKNIVDTVPTEYQeEARQFI 222
                              456899**********6666.***************..6667777888888888887777765 PP

  == domain 3  score: -0.1 bits;  conditional E-value: 1.8
                    PAS_8   4 ralfesspdgiav.........v 17 
                              + ++e spd+i++         +
  PHY93_00115|PHY93_00115 870 KMALEYSPDAILLdmilpdhlgL 892
                              567899******74433333330 PP

>> GAF  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.9   0.0     9e-12     5e-09       4     133 .]     311     442 ..     308     442 .. 0.79

  Alignments for each domain:
  == domain 1  score: 36.9 bits;  conditional E-value: 9e-12
                              HHHHHHHHHHHHHHTESEEEEEE.......EEETTEEECEEEEECC.EEEETTSHHHHHHHHHSSSEEESTGGTSTTHHTTHHHHH CS
                      GAF   4 elldtvveelrellgadrvalyl.......pdydGlhydipqasrw.lfmkngrgicgqvlatgqplvipdstpdprfaqynrrdl 81 
                               l + +++ l ++++a+ +a+y        ++ +G  y ++  ++    ++ g+g++gq++ ++++ +i+++ p++ f++   ++ 
  PHY93_00115|PHY93_00115 311 HLGRSILSHLVPFTNAQLGAFYWaygdeklKRVSG--YALSKTDASeKTIEFGEGLIGQAALEKRIFLIENV-PEGYFNK--IKSD 391
                              56678999999999999999988333333322222..2222222222445559*****************76.8888999..899* PP

                              HHHTTESEEEEEEEEETTEEEEEEEEEESSSCSHHHHHHHHHHHHHHHHHHH CS
                      GAF  82 lenmgirsslvvPlvndgelwGllvlhnpsppftreelellqvladqvaval 133
                              l++  ++s+l  P++ ++e+ G++ + + +p ft++++++l +++  +++a+
  PHY93_00115|PHY93_00115 392 LGEITPKSLLICPILYEDEVNGVIEIASITP-FTEHQRAFLSHVSGNIGIAI 442
                              ****************************989.*****************997 PP

>> ERM  Ezrin/radixin/moesin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.0  18.0   2.1e-07   0.00012       5     113 ..     456     561 ..     448     659 .. 0.86

  Alignments for each domain:
  == domain 1  score: 22.0 bits;  conditional E-value: 2.1e-07
                      ERM   5 rekreleerLkqlqeeaekaqeaLreseetaelLaekarraeeeaelLeqkaaeaeeeiqrlkesaekeeeekeklerklreaele 90 
                               + + l++ L++ qee + a+e+L+e+ +    L+e++ r+++++ +Le+ ++++ee++q+l+++++  + + ++l++     e++
  PHY93_00115|PHY93_00115 456 EKSQTLNQSLQSQQEELKTANEELEEQSR---ALKESQARLQNQQSELEKTNNQLEEQTQALEQQKNILNDKNKALNKAQVLLEEK 538
                              56788999999999999999999987765...499999999999999999999999999999999999888888888888899999 PP

                      ERM  91 aarleeeserkeeeaerLkeele 113
                              +++++++s+ k e   ++ +el+
  PHY93_00115|PHY93_00115 539 TNEVQRASQYKTEFLANMSHELR 561
                              99999999888877766666665 PP

>> PilN  Fimbrial assembly protein (PilN)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.2   0.0   0.00027      0.15      13      47 ..     125     159 ..     124     205 .. 0.90
   2 ?    5.7   0.0     0.028        16      13      38 ..     247     272 ..     246     274 .. 0.92

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 0.00027
                     PilN  13 gvwltsisqegnqltitGsAvsndeVaefmrnLeg 47 
                              +vwlt+ + ++++ ++tG+A+++++++e  ++Le+
  PHY93_00115|PHY93_00115 125 DVWLTNTKLTDDKGKLTGIATTERDISEQTKTLEK 159
                              69*******************************97 PP

  == domain 2  score: 5.7 bits;  conditional E-value: 0.028
                     PilN  13 gvwltsisqegnqltitGsAvsndeV 38 
                              +vwlt+ + ++++ ++tG+A++++e+
  PHY93_00115|PHY93_00115 247 DVWLTNTKLTDDKGKLTGIATTEREI 272
                              69*******************99987 PP

>> GAF_3  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.4   0.0   9.2e-07   0.00051       8     127 ..     315     442 ..     308     444 .. 0.77

  Alignments for each domain:
  == domain 1  score: 20.4 bits;  conditional E-value: 9.2e-07
                    GAF_3   8 kllkllvkllgaevgalllldedgnklqvaagw..dgkpalsesldedsalar.ralssgevvsepsfae........edglpdra 82 
                              ++l++lv+ ++a+ ga++    + +kl++++g+     +a +++++ ++ l+  +al+ + +++e+  ++               +
  PHY93_00115|PHY93_00115 315 SILSHLVPFTNAQLGAFYWAY-GDEKLKRVSGYalSKTDASEKTIEFGEGLIGqAALEKRIFLIENVPEGyfnkiksdLGEITPKS 399
                              78999************9866.447********96666677779996666666266666667888776553333221123355678 PP

                    GAF_3  83 alavPLvagrqviGvlalastkprafdaedlelleslArqiatai 127
                              +l+ P+  +++v Gv+ +as    +f++ ++++l+++++ i++ai
  PHY93_00115|PHY93_00115 400 LLICPILYEDEVNGVIEIASIT--PFTEHQRAFLSHVSGNIGIAI 442
                              8999****************99..67******************9 PP

>> MLTR_LBD  MmyB-like transcription regulator ligand binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.1   0.0    0.0049       2.8      19      64 ..      54     100 ..      47     108 .. 0.77
   2 !    8.6   0.0    0.0033       1.8      19      65 ..     176     223 ..     169     231 .. 0.81

  Alignments for each domain:
  == domain 1  score: 8.1 bits;  conditional E-value: 0.0049
                 MLTR_LBD  19 VldrrwdvlaaNraaraLlgdpaalpeperNllrlvfl..dpglrpli 64 
                              ++d   ++la+Nr a+ ++g  ++ ++   N++ +v +  ++++r++i
  PHY93_00115|PHY93_00115  54 IQDLEGNILAWNRGAEEMYGY-SEAEALCMNIVDTVPTeyQEEARQFI 100
                              778889**************9.67777777877777664445566655 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0033
                 MLTR_LBD  19 VldrrwdvlaaNraaraLlgdpaalpeperNllrlvfl..dpglrplie 65 
                              ++d   ++la+Nr a+ ++g  ++ ++  +N++ +v +  ++++r++i+
  PHY93_00115|PHY93_00115 176 IQDLEGNILAWNRGAELMYGY-SEAEALSKNIVDTVPTeyQEEARQFIA 223
                              778889**************9.788899999998887755556777665 PP

>> IFT57  Intra-flagellar transport protein 57
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6  16.1   5.4e-06     0.003     252     334 ..     445     527 ..     422     544 .. 0.88

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 5.4e-06
                    IFT57 252 edisktlekiesrEkylnsqleellqeyreaqeelsevkekykqlsegvseltrelaeiseelekvkqemeergssmtDgspl 334
                              +++ k +e++ ++ + ln++l+++ +e+++a+eel+e+++ +k+ ++++++++ el++++++le+  q +e++++ ++D +  
  PHY93_00115|PHY93_00115 445 TNVRKKVEELFEKSQTLNQSLQSQQEELKTANEELEEQSRALKESQARLQNQQSELEKTNNQLEEQTQALEQQKNILNDKNKA 527
                              6788899999999*****************************************************************97543 PP

>> TruB_C_2  tRNA pseudouridylate synthase B C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.0   0.0     0.011       6.3      18      51 ..      36      70 ..      34      87 .. 0.85
   2 ?    6.1   0.0     0.022        12      18      48 ..     158     188 ..     154     208 .. 0.85

  Alignments for each domain:
  == domain 1  score: 7.0 bits;  conditional E-value: 0.011
                             EEEEEEEETTEGG-..B-HHHHHHHHHHHHT.--H CS
                 TruB_C_2 18 eeLRRtrvgpfdeedmvtledLedavllyke.dee 51
                             e+ RR+++   d +d++t++dLe  +l ++  +ee
  PHY93_00115|PHY93_00115 36 EKFRRMATVIQDSNDAITIQDLEGNILAWNRgAEE 70
                             678*********************99999887554 PP

  == domain 2  score: 6.1 bits;  conditional E-value: 0.022
                              EEEEEEEETTEGG-..B-HHHHHHHHHHHHT CS
                 TruB_C_2  18 eeLRRtrvgpfdeedmvtledLedavllyke 48 
                              e+ RR+++   d +d++t++dLe  +l ++ 
  PHY93_00115|PHY93_00115 158 EKFRRMATVIQDSNDAITIQDLEGNILAWNR 188
                              678*********************9998876 PP

>> PAS_7  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.3   0.1    0.0011      0.61       5      35 ..      49      79 ..      45     158 .. 0.62
   2 !    7.8   0.1    0.0062       3.5       5     111 ..     171     276 ..     167     280 .. 0.57
   3 ?   -1.5   1.7       4.7   2.6e+03      36      92 ..     456     511 ..     446     524 .. 0.51

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.0011
                    PAS_7  5 sqGisvfDadlrLvawNrrylelldlpeelv 35
                             +++i++ D +++++awNr   e+++++e  +
  PHY93_00115|PHY93_00115 49 NDAITIQDLEGNILAWNRGAEEMYGYSEAEA 79
                             67899*********************99765 PP

  == domain 2  score: 7.8 bits;  conditional E-value: 0.0062
                    PAS_7   5 sqGisvfDadlrLvawNrrylelldlpeelvqvgvpleellrynaergefgagdveaeverrlaaaragkphsfererpdgrviev 90 
                              +++i++ D +++++awNr    +++++e  +   +++ + +       e++ +++++++ + l++ +   +  ++r+++dgr+i+v
  PHY93_00115|PHY93_00115 171 NDAITIQDLEGNILAWNRGAELMYGYSEAEA-LSKNIVDTVP-----TEYQ-EEARQFI-ASLKRGELVPNLETKRKHKDGRIIDV 248
                              6789999*******************99766.2333222222.....2222.2222222.22334444556667777777777776 PP

                    PAS_7  91 rgnpl.......pdgGfVttytDiTerr 111
                                + +          G+ tt  +iT+r+
  PHY93_00115|PHY93_00115 249 WLTNTkltddkgKLTGIATTEREITARK 276
                              4333333333323345666666666666 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 4.7
                    PAS_7  36 qvgvpleellrynaergefgagdveaeverrlaaaragkphsfererpdgrvievrg 92 
                              +   +l++ l+ ++e+ + ++++ e++ ++  ++ ++ ++++ e e+++++ +e ++
  PHY93_00115|PHY93_00115 456 EKSQTLNQSLQSQQEELKTANEELEEQSRALKESQARLQNQQSELEKTNNQ-LEEQT 511
                              444455555555555555555555665555554444444444444444433.33333 PP

>> V_ATPase_I  V-type ATPase 116kDa subunit family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4  13.4   4.9e-05     0.027      30     169 ..     449     586 ..     423     603 .. 0.65

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 4.9e-05
               V_ATPase_I  30 rrcdemerklrfleeeieklekavikeeeaeesleapeekeldeleeelekleeelkelnenleklkkelnelvelkavlekakef 115
                              ++++e+ +k + l++ +++++++  +++e+ e+++++ +++  +l+++ ++le+  ++l+e++++l++++n l ++++ l+ka+ +
  PHY93_00115|PHY93_00115 449 KKVEELFEKSQTLNQSLQSQQEELKTANEELEEQSRALKESQARLQNQQSELEKTNNQLEEQTQALEQQKNILNDKNKALNKAQVL 534
                              67888888888888888887777777777677777777777777778888888888888888888888888888888888888888 PP

               V_ATPase_I 116 leeeeeeeeeeeseeeeeekeeeeeeeseeeeeeelleeeeelsfvaGvikrek 169
                              lee+++e +++++ ++e    +++++e ++  +++l   +  +++v G ++ e+
  PHY93_00115|PHY93_00115 535 LEEKTNEVQRASQYKTEF--LANMSHELRTPLNSSLILAKLLMDNVKGNLTDEQ 586
                              876633333322222221..2222223333333333333344566666665555 PP

>> Spc7  Spc7 kinetochore protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3  27.9   5.2e-05     0.029     140     253 ..     447     559 ..     444     565 .. 0.93
   2 ?    0.5   0.1       0.4   2.2e+02     141     221 ..     631     710 ..     625     720 .. 0.72

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 5.2e-05
                     Spc7 140 LkegleenlegleedkelLekqeeeldellpeleeekaeleeeleklqeaaeelesidkeeLeelreelaelkaeieekkkelael 225
                              +++++ee +e+ ++ ++ L++q+eel+++ +elee+  +l+e  ++lq+++ ele+ ++++Lee  ++l+++k+ ++ k+k l++ 
  PHY93_00115|PHY93_00115 447 VRKKVEELFEKSQTLNQSLQSQQEELKTANEELEEQSRALKESQARLQNQQSELEK-TNNQLEEQTQALEQQKNILNDKNKALNKA 531
                              67899999999999***************************************999.6789************************* PP

                     Spc7 226 qeqleeleekieelkeqkseleeeiaea 253
                              q  lee++++++ +++ k+e+ ++++++
  PHY93_00115|PHY93_00115 532 QVLLEEKTNEVQRASQYKTEFLANMSHE 559
                              *********************9998765 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.4
                     Spc7 141 kegleenlegleedkelLekqeeeldellpeleeekaeleeeleklqeaaeelesidkeeLeelreelaelkaeieekkke 221
                               egl++++++l ++k +L+ +    +++ ++l++ +++le+ l++l + a +++s+   +++ +r++  +l  e++     
  PHY93_00115|PHY93_00115 631 LEGLKQTFQSLAQEK-KLNFEVISEENIPQALTTDRQRLEQILKNLLSNALKFTSSGAVKIRLYRHSKGKLAFEVSDSGIG 710
                              566667777766554.45555555578889999999999999999999999999998888888888877777777665555 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   0.00016     0.089       4      79 ..     669     743 ..     666     770 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 0.00016
              HATPase_c_3   4 ekAlaelvdNsld.AdaenvkievnknrgktgeivieDdGkGmseeelknalrlatsskeakrkstslGkkGiGlkl 79 
                              e+ l  l+ N+l   ++  vki + +  + +  + + D G G+++e+ +  ++  +++    ++++++G  G+Gl  
  PHY93_00115|PHY93_00115 669 EQILKNLLSNALKfTSSGAVKIRLYRHSKGKLAFEVSDSGIGIPKEQQQIIFEAFRQADG--TTNRKYGGTGLGLSI 743
                              566889999*999878888999999999899***************76666665555544..356889999999654 PP

>> DUF1943  Domain of unknown function (DUF1943)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7  11.5    0.0008      0.45      57     180 ..     442     577 ..     438     592 .. 0.81

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.0008
                  DUF1943  57 araegleelleklfgpkgffsdkllkkksekekkeeskrrkrsvqkrkqdikeeikkkleklakklkidkeepeek.......... 132
                              + + +  + +e lf+++ +++++l+ +++e +  +e+  +++++ k++q++ ++++++lek  ++l+++ ++ e++          
  PHY93_00115|PHY93_00115 442 INTTNVRKKVEELFEKSQTLNQSLQSQQEELKTANEELEEQSRALKESQARLQNQQSELEKTNNQLEEQTQALEQQknilndknka 527
                              667788999****************99666666666666777777777889******************99999999999999999 PP

                  DUF1943 133 ..easlylklfGnelaflsideqaeqealeqiistieelpsnikkllkkl 180
                                +a++ l  + ne+  +s  + +   ++ ++++t+ + +  ++kll++ 
  PHY93_00115|PHY93_00115 528 lnKAQVLLEEKTNEVQRASQYKTEFLANMSHELRTPLNSSLILAKLLMDN 577
                              99999999999999988888888788888888877777777777766654 PP

>> Jnk-SapK_ap_N  JNK_SAPK-associated protein-1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3  27.0    0.0045       2.5      51     143 ..     450     542 ..     441     561 .. 0.49

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0045
            Jnk-SapK_ap_N  51 eleelreeleqLeteyerekelrkraeeeleeiedqweeerkelqekveqleeenrelelkaknaadqlsrleekeaelkkeyskl 136
                              ++eel e+ ++L + ++ ++e+ k a+eelee   +++e +  lq++ ++le+ n++le +++++++q + l++k++ l+k +  l
  PHY93_00115|PHY93_00115 450 KVEELFEKSQTLNQSLQSQQEELKTANEELEEQSRALKESQARLQNQQSELEKTNNQLEEQTQALEQQKNILNDKNKALNKAQVLL 535
                              44555555555555555555555555555555555555555555555555555555555333333333333333333333333333 PP

            Jnk-SapK_ap_N 137 heretel 143
                              +e+ +e+
  PHY93_00115|PHY93_00115 536 EEKTNEV 542
                              3344443 PP

>> DDHD  DDHD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   4.8    0.0034       1.9      81     170 ..     427     522 ..     415     646 .. 0.69

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.0034
                     DDHD  81 krrkllhlelkesltsigaalkqkvsglvsslsallnrslelaeeesaslaessksherasesskasqeskaaesstasssakssk 166
                              +r  l h + + +++  ++++++kv++l+++ + +ln+sl+ ++ee ++++e+ ++++ra ++s+a+ +++++e ++++++ ++++
  PHY93_00115|PHY93_00115 427 QRAFLSHVSGNIGIAINTTNVRKKVEELFEKSQ-TLNQSLQSQQEELKTANEELEEQSRALKESQARLQNQQSELEKTNNQLEEQT 511
                              554445555555566666777777777777764.4666666666666666666666666666666666655555555555444333 PP

                     DDHD 167 aee.......k 170
                              ++        +
  PHY93_00115|PHY93_00115 512 QALeqqknilN 522
                              33222322220 PP

>> Fmp27_WPPW  RNA pol II promoter Fmp27 protein domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5  15.3    0.0029       1.6     172     283 ..     443     553 ..     416     563 .. 0.71

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0029
               Fmp27_WPPW 172 qkelleeRleeleeqiekleekleelelksekedeelkeeieelekeikelkeklefletlledlkeseesseeeeskskelsaas 257
                              +++ +++ +eel e+ ++l+++l++++++ ++ +eel+e++++l++  ++l+++++ le++ ++l+e++++ e++++    l++++
  PHY93_00115|PHY93_00115 443 NTTNVRKKVEELFEKSQTLNQSLQSQQEELKTANEELEEQSRALKESQARLQNQQSELEKTNNQLEEQTQALEQQKN---ILNDKN 525
                              56667888889999999999999999999888899999999999999999999999999999999998874443333...222222 PP

               Fmp27_WPPW 258 tsesfse..ldelasseesaseFknRFi 283
                              ++ ++++  l+e +++ + as++k  F+
  PHY93_00115|PHY93_00115 526 KALNKAQvlLEEKTNEVQRASQYKTEFL 553
                              2222222002333555566666666664 PP

>> Atg14  Vacuolar sorting 38 and autophagy-related subunit 14
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5  17.3    0.0001     0.059      37     156 ..     443     558 ..     425     593 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 0.0001
                    Atg14  37 ekeslkkkiekalegkeeaeqledkiknkkakleelksliadlrerlqelkdklsqlkkeieekkkklaklsdklkkRrsdleslq 122
                                  ++kk+e++ e+ +   +l++ ++++++ l++   + +++++ l+e +++l+++++e+e++ ++l+++ ++l + +  l+  +
  PHY93_00115|PHY93_00115 443 NTTNVRKKVEELFEKSQ---TLNQSLQSQQEELKTANEELEEQSRALKESQARLQNQQSELEKTNNQLEEQTQALEQQKNILNDKN 525
                              55677889999999888...888888888888888888888888888888888888888888888888888888887777777666 PP

                    Atg14 123 neleerrkkqiaklqdaikrieqklsslssktle 156
                              + l++++  ++++ +++++r +q ++++   + +
  PHY93_00115|PHY93_00115 526 KALNKAQV-LLEEKTNEVQRASQYKTEFLANMSH 558
                              66665554.5566666777777776666555544 PP

>> FliJ  Flagellar FliJ protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.3  26.4    0.0023       1.3       4     101 ..     462     554 ..     450     562 .. 0.89

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.0023
                     FliJ   4 areLaeaqrelqqaeekleeleqyrqeyqkqlsgeaqglsaaelrnyqafisaldeaiaqqkqelaqaekqvekareewqearqer 89 
                               + L+++q el+ a+e+lee  + ++e q +l++++     +el +++++++   +a++qqk+ l++++k+++ka+  + e+  e+
  PHY93_00115|PHY93_00115 462 NQSLQSQQEELKTANEELEEQSRALKESQARLQNQQ-----SELEKTNNQLEEQTQALEQQKNILNDKNKALNKAQVLLEEKTNEV 542
                              688999******************************.....*************************************99999999 PP

                     FliJ  90 kklekLkerekk 101
                              +     k +  +
  PHY93_00115|PHY93_00115 543 QRASQYKTEFLA 554
                              988777666555 PP

>> UPF0242  Uncharacterised protein family (UPF0242) N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1  19.9   0.00055      0.31      77     173 ..     447     543 ..     415     564 .. 0.59

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00055
                  UPF0242  77 lteldeglktkeealee.lqeeeeeLkeeldakeeelerlkeenqqLqekleaiaedfeelkleleeqLaekqellqeyqetieeq 161
                              + ++ e+l +k ++l++ lq+++eeLk   ++ ee+++ lke ++ Lq + ++  e  ++++ e  ++L+++++ l++ ++ +++ 
  PHY93_00115|PHY93_00115 447 VRKKVEELFEKSQTLNQsLQSQQEELKTANEELEEQSRALKESQARLQNQQSE-LEKTNNQLEEQTQALEQQKNILNDKNKALNKA 531
                              22222444455555533245555566666666666666666666666655555.33334444555566666666666666666666 PP

                  UPF0242 162 rsvlekrqdqie 173
                              +  le++ ++++
  PHY93_00115|PHY93_00115 532 QVLLEEKTNEVQ 543
                              666666666554 PP

>> MscS_porin  Mechanosensitive ion channel porin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.3       1.3   7.4e+02     135     187 ..     254     308 ..     215     312 .. 0.82
   2 ?    8.0  29.3    0.0033       1.8      81     168 ..     452     542 ..     441     566 .. 0.53
   3 ?    6.0   0.3     0.013       7.4     111     139 ..     650     678 ..     627     694 .. 0.71

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 1.3
               MscS_porin 135 rLnstaaage..alsqaqrtalqaelaaleaqieeleqellsnnnrqeLlklqrd 187
                              +L++ +   +  a ++ + ta ++ +a+++ + +ele ++++  ++ e  + q+d
  PHY93_00115|PHY93_00115 254 KLTDDKGKLTgiATTEREITARKVSEALIREKSRELEYLQAGLIALSERMRGQQD 308
                              5533333333558899999999999999999999999999998888888777777 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.0033
               MscS_porin  81 eeLeqrllqtssqlqelqeqlaqlnsqlvelqtrperaqqqltearqrlqeirnrL..nstaaage...alsqaqrtalqaelaal 161
                              eeL  + ++ ++ lq++qe+l+++n++l e++ ++ + q++l + + +l++ +n+L  + t +a e   ++ +++  al+  + +l
  PHY93_00115|PHY93_00115 452 EELFEKSQTLNQSLQSQQEELKTANEELEEQSRALKESQARLQNQQSELEKTNNQLeeQ-T-QALEqqkNILNDKNKALNKAQVLL 535
                              45555555555555555555555555555555555555555555555555555555421.1.111112344444444444444444 PP

               MscS_porin 162 eaqieel 168
                              e +++e 
  PHY93_00115|PHY93_00115 536 EEKTNEV 542
                              4444443 PP

  == domain 3  score: 6.0 bits;  conditional E-value: 0.013
               MscS_porin 111 lqtrperaqqqltearqrlqeirnrLnst 139
                                 + e ++q+lt+ rqrl++i ++L s+
  PHY93_00115|PHY93_00115 650 EVISEENIPQALTTDRQRLEQILKNLLSN 678
                              4456799***************8888444 PP

>> DUF745  Protein of unknown function (DUF745)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.3  20.5    0.0015      0.83      62     155 ..     463     557 ..     454     567 .. 0.86

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.0015
                   DUF745  62 qlveqleqelreaeavvqeekkslqsseanakaaakaakqaqqqlealkallkaakenlenaeqvaagaqqelaektqlleaAkk. 146
                              q +++ ++el+ a++ ++e++++l++s+a ++  ++  ++ ++qle  +++l++ k+ l++ +++ ++aq  l+ekt+ ++ A + 
  PHY93_00115|PHY93_00115 463 QSLQSQQEELKTANEELEEQSRALKESQARLQNQQSELEKTNNQLEEQTQALEQQKNILNDKNKALNKAQVLLEEKTNEVQRASQy 548
                              55677788899999***************************************************************999988762 PP

                   DUF745 147 RveeLkkql 155
                              + e L +  
  PHY93_00115|PHY93_00115 549 KTEFLANMS 557
                              555555544 PP

>> DUF3450  Protein of unknown function (DUF3450)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7  16.6   0.00042      0.23      19      92 ..     449     522 ..     431     565 .. 0.80
   2 ?   -3.2   0.4       7.6   4.3e+03      62     113 ..     619     672 ..     609     676 .. 0.63

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00042
                  DUF3450  19 dqalkeaekavaaaaqsqkkidklddekqellaeyralkeeleslevyneqlerlvasqeqeiasleeqieeie 92 
                              +++++  ek+++  ++ q+++++l+   +el+++ ralke +++l+ ++++le+  +++e++ + le+q++ ++
  PHY93_00115|PHY93_00115 449 KKVEELFEKSQTLNQSLQSQQEELKTANEELEEQSRALKESQARLQNQQSELEKTNNQLEEQTQALEQQKNILN 522
                              56777888888888888999999999999999999999999999999999999999999999888888887554 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 7.6
                  DUF3450  62 slevyneqlerlvasqeqeiasleeqie.eieeiere.lvpllekmidrLeqfv 113
                              +++v+n +  ++++ ++q+++sl ++++ ++e i++e + + l +  +rLeq+ 
  PHY93_00115|PHY93_00115 619 DIRVENVYIPKVLEGLKQTFQSLAQEKKlNFEVISEEnIPQALTTDRQRLEQIL 672
                              667788888888888888888887766536666654314445555555555555 PP

>> DUF3552  Domain of unknown function (DUF3552)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2  30.5     0.088        49      56     138 ..     466     551 ..     443     562 .. 0.52

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.088
                  DUF3552  56 leakeeihklreeleke...lkerrnelqrlekRllqkeetLdrkeeslekkeesleekekelkqkeqsleekeeeleelveeqrq 138
                                 +ee++++ eele+    lke ++ lq+++  l++ +++L++++++le++ + l++k+k l++ +  leek +e+++  + +++
  PHY93_00115|PHY93_00115 466 QSQQEELKTANEELEEQsraLKESQARLQNQQSELEKTNNQLEEQTQALEQQKNILNDKNKALNKAQVLLEEKTNEVQRASQYKTE 551
                              33344555555555443111445555555555555555555555555555555555555555555555555555555555554444 PP

>> DUF2203  Uncharacterized conserved protein (DUF2203)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2   8.5     0.014       7.9      14      97 ..     450     535 ..     443     554 .. 0.76

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.014
                  DUF2203  14 llkelleelralrkeleeleeeleeakaeaekse..aaeleaeleeleaeieelveeieelGvevkdleaglvDFpakldgeevll 97 
                              +++el+e+ ++l++ l++ +eel++a++e e+++   +e +a+l++ ++e+e++ +++ee    + + +++l D    l++ +vll
  PHY93_00115|PHY93_00115 450 KVEELFEKSQTLNQSLQSQQEELKTANEELEEQSraLKESQARLQNQQSELEKTNNQLEEQTQALEQQKNILNDKNKALNKAQVLL 535
                              67888888888999999999999888888877777766667777777777777777777777777777777766666666666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1225 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2785  (0.155335); expected 358.6 (0.02)
Passed bias filter:                      840  (0.0468515); expected 358.6 (0.02)
Passed Vit filter:                       223  (0.0124379); expected 17.9 (0.001)
Passed Fwd filter:                        68  (0.00379274); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              32  [number of targets reported over threshold]
# CPU time: 1.54u 0.34s 00:00:01.88 Elapsed: 00:00:00.55
# Mc/sec: 6740.94
//
Query:       PHY93_00120|PHY93_00120  [L=138]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.3e-22   80.0   0.1    1.6e-22   79.7   0.1    1.1  1  Response_reg  Response regulator receiver domain
     0.0039   17.5   0.1     0.0081   16.5   0.1    1.5  1  FleQ          Flagellar regulatory protein FleQ


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.7   0.1   1.8e-26   1.6e-22       1     111 [.       9     118 ..       9     119 .. 0.96

  Alignments for each domain:
  == domain 1  score: 79.7 bits;  conditional E-value: 1.8e-26
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHH.ESEEEEESSCSSSEHHHHHHHHHHCT.TTSEEEEEESSTSHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeek.vdlillDinmpgmdGlellkeireed.pelpviiltahseee 84 
                              +liv+Dd +++  l+ lle+egy +v++ae+g+ alel+k++  ++lillD++mp m+G ++  ++++   + +p++++ta+++  
  PHY93_00120|PHY93_00120   9 ILIVEDDVDILFSLEMLLENEGY-TVQVAENGAVALELIKNNGlPNLILLDMMMPVMNGWQFGLKVHALYgHLCPIVVMTAAAD-- 91 
                              8**********************.****************9999**********************9999788*******9998.. PP

                              HHHHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  85 davealkagaddflsKpfdpeeLlkal 111
                                ++a +++a d l Kpf+ ++Ll+ +
  PHY93_00120|PHY93_00120  92 AQQRAKDINAIDWLEKPFNFKKLLTLI 118
                              789999*****************9987 PP

>> FleQ  Flagellar regulatory protein FleQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.1   9.1e-07    0.0081       1     105 [.       8     119 ..       8     121 .. 0.82

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 9.1e-07
                     FleQ   1 kiLvidddaerrrdletiLeFlgeeveavsseelsaaleesssealavilgsvs....sleealealaekdphlPvlllgesdea. 81 
                              kiL+++dd +    le++Le  g +v++ ++ +++ +l +++    +++l+ +     + +  l+  a   + +P+++++  ++a 
  PHY93_00120|PHY93_00120   8 KILIVEDDVDILFSLEMLLENEGYTVQVAENGAVALELIKNNGLPNLILLDMMMpvmnGWQFGLKVHALYGHLCPIVVMTAAADAq 93 
                              79****************************99997777777777666666666667876666777777777889999999999995 PP

                     FleQ  82 eelan..vigelelPlnYnqLtdlLh 105
                              +++++   i  le P+n+++L+ l++
  PHY93_00120|PHY93_00120  94 QRAKDinAIDWLEKPFNFKKLLTLIK 119
                              5555588***************9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (138 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       526  (0.0293379); expected 358.6 (0.02)
Passed bias filter:                      358  (0.0199677); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.40u 0.19s 00:00:00.59 Elapsed: 00:00:00.35
# Mc/sec: 1167.19
//
Query:       PHY93_00125|PHY93_00125  [L=368]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.7e-28   97.9   0.0    7.9e-28   97.2   0.0    1.4  1  HATPase_c        Histidine kinase-, DNA gyrase B-, and HSP90-
    7.2e-11   42.0   0.3    2.2e-10   40.4   0.3    1.9  1  HisKA            His Kinase A (phospho-acceptor) domain
    0.00097   19.0   0.0     0.0021   17.9   0.0    1.6  1  HATPase_c_3      Histidine kinase-, DNA gyrase B-, and HSP90-
     0.0027   17.6   0.1      0.011   15.7   0.0    2.1  2  HATPase_c_5      GHKL domain
     0.0072   16.3   0.3       0.95    9.4   0.0    2.5  2  HATPase_c_2      Histidine kinase-like ATPase domain
  ------ inclusion threshold ------
      0.011   15.8   5.4       0.12   12.3   3.9    2.3  2  Chlorosome_CsmC  Chlorosome envelope protein C


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   97.2   0.0   2.6e-31   7.9e-28       2     111 ..     257     366 ..     256     367 .. 0.94

  Alignments for each domain:
  == domain 1  score: 97.2 bits;  conditional E-value: 2.6e-31
                              HHHHHHHHHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCH.HCSTCHTSTSSSHHHHHHHHHHH CS
                HATPase_c   2 dekrLrqiisnlvdNavkfatkageieveikaseddlvisveDnGiGipkedlkklfekfsq.ddstkrggggtGlGlsivkklve 86 
                              d+ rL q++ nl+dNa+k+ t++g iev++   ++ +++sv+D G Gi+ke++ +lf++fs+ +++ ++  +g GlGlsi++++++
  PHY93_00125|PHY93_00125 257 DPLRLSQVLANLLDNAIKY-TNTGAIEVTLVDMSNMIRFSVTDHGAGISKEKQAELFTAFSRgSSDITVMPSGLGLGLSICRAIID 341
                              789****************.***********6558***************************767777778*************** PP

                              HTTTEEEEEEETTTEEEEEEEEESS CS
                HATPase_c  87 lmgGeiwvesepgrGttftftlple 111
                              l+gG+i ves +g+G+tf+++lp+e
  PHY93_00125|PHY93_00125 342 LHGGRIGVESVEGKGSTFYIELPKE 366
                              **********************987 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.4   0.3   7.4e-14   2.2e-10       2      66 ..     146     211 ..     145     212 .. 0.92

  Alignments for each domain:
  == domain 1  score: 40.4 bits;  conditional E-value: 7.4e-14
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHC...T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHHH CS
                    HisKA   2 lgrflagvaHELrtPLsailgnaeaLkre.gklteelkeyletiesearrldhlvedlLdlsriea 66 
                              +++fl   aHELr+P+++i++ +++++++ +k  +  ++ l++++  ++rl +lv dlLd+s +e 
  PHY93_00125|PHY93_00125 146 KNKFLDLAAHELRNPIASISLLLQVIEKQiEKGQPLDMKILARLRAPTDRLASLVVDLLDMSGLER 211
                              7899999*******************9999677799999**********************98876 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.0     7e-07    0.0021       4      55 ..     262     313 ..     259     339 .. 0.81

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 7e-07
              HATPase_c_3   4 ekAlaelvdNsld.AdaenvkievnknrgktgeivieDdGkGmseeelknalr 55 
                               ++la l+dN++   +   +++++ +   +  +++++D G+G+s+e+  + ++
  PHY93_00125|PHY93_00125 262 SQVLANLLDNAIKyTNTGAIEVTLVDMS-NMIRFSVTDHGAGISKEKQAELFT 313
                              579*********9888899******985.79***************8777554 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       1.7   5.2e+03      10      32 ..      10      31 ..       3      40 .. 0.73
   2 !   15.7   0.0   3.6e-06     0.011       2      89 ..     257     351 ..     256     363 .. 0.74

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 1.7
              HATPase_c_5 10 lgnlLdNAieacskieeekrfIr 32
                                +L+ A+e + ++ + +  I+
  PHY93_00125|PHY93_00125 10 AARVLEEAVEKAATLVK-DAAIK 31
                             56689999999888774.56555 PP

  == domain 2  score: 15.7 bits;  conditional E-value: 3.6e-06
              HATPase_c_5   2 kdldlcvilgnlLdNAieacskieeekrfIrltvrekkksliisieNsyeg....ek........kklesskskkeehGiGlksir 75 
                              ++l l+ +l nlLdNAi   ++       I++t+   ++++ +s++ + +g    ++        +   + +   +  G+Gl+  r
  PHY93_00125|PHY93_00125 257 DPLRLSQVLANLLDNAIKYTNTG-----AIEVTLVDMSNMIRFSVTDHGAGiskeKQaelftafsRGSSDITVMPSGLGLGLSICR 337
                              5677999**********877664.....5999999999999999999966655542233343343334455677899999999999 PP

              HATPase_c_5  76 eivkkykgnlsiea 89 
                               i++ ++g + +e 
  PHY93_00125|PHY93_00125 338 AIIDLHGGRIGVES 351
                              99999999887665 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.9   0.6     0.016        48       7      45 ..      94     133 ..      71     146 .. 0.83
   2 !    9.4   0.0   0.00032      0.95      42     103 ..     271     332 ..     258     341 .. 0.72

  Alignments for each domain:
  == domain 1  score: 3.9 bits;  conditional E-value: 0.016
              HATPase_c_2   7 hvrtvrevaeavlrr.aglseelldeirlaveEactNave 45 
                                +++   +++++++ a l++ ++++  l ++Ea + av 
  PHY93_00125|PHY93_00125  94 AAKKATLLLKEAAEKaALLPKGATEKAALLLNEAAAKAVF 133
                              4566888888998777999999999999999999999986 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.00032
              HATPase_c_2  42 NavehayleapegpvevrlesdeealtvevaDsGpgfdpetlpdpteeep.....keslkegGrGla 103
                              Na+++ +     g +ev+l + ++ ++++v+D+G+g   e++++           +    ++G+Gl 
  PHY93_00125|PHY93_00125 271 NAIKYTNT----GAIEVTLVDMSNMIRFSVTDHGAGISKEKQAELFTA-FsrgssDITVMPSGLGLG 332
                              66666665....999*********************666655443322.134555556666666665 PP

>> Chlorosome_CsmC  Chlorosome envelope protein C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   3.9   4.1e-05      0.12      57     127 ..       8      82 ..       3      85 .. 0.71
   2 ?    4.1   0.1     0.015        44      69     128 ..      75     138 ..      71     148 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 4.1e-05
          Chlorosome_CsmC  57 lidatGiskllgstsgvvgetidrvaitvkdvsraaGelysdavknvenvtdnaakav....Gdvgvsasevvkn 127
                              li a  + + +++++ +v ++  + ai  kd++  a +l +da+++  n +++aa+       d++ +a++ vkn
  PHY93_00125|PHY93_00125   8 LIAARVLEEAVEKAATLVKDAAIKAAILPKDAAEKAANLSKDAAEKAANLSKDAAEKAailpKDAAEKAANLVKN 82 
                              566667777778888888888888888888888888888888888888777776653311335777777777777 PP

  == domain 2  score: 4.1 bits;  conditional E-value: 0.015
          Chlorosome_CsmC  69 stsgvvgetidrvaitvkdvsraaGelysdavknv....envtdnaakavGdvgvsasevvknv 128
                              +++++v ++  + a+  kd+++ a  l ++a+++     + +t++aa  + +++ +a  ++k+ 
  PHY93_00125|PHY93_00125  75 KAANLVKNATVKAALLPKDAAKKATLLLKEAAEKAallpKGATEKAALLLNEAAAKAVFILKEE 138
                              56778888888899999**********9999987633335788888888888888887777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (368 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       738  (0.0411624); expected 358.6 (0.02)
Passed bias filter:                      345  (0.0192426); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.37
# Mc/sec: 2976.95
//
Query:       PHY93_00130|PHY93_00130  [L=265]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.9e-18   66.6   0.1    3.4e-18   65.9   0.1    1.4  1  Response_reg  Response regulator receiver domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.9   0.1   1.9e-22   3.4e-18       1     111 [.       7     118 ..       7     119 .. 0.97

  Alignments for each domain:
  == domain 1  score: 65.9 bits;  conditional E-value: 1.9e-22
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCT..TTSEEEEEESSTSHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireed..pelpviiltahseee 84 
                              +l++dD+ l+ +l + +l + g  +v+ ++++++ ++ ++++++dli++D++mp ++G e+++ +r+ +   ++p+i+++a  ++ 
  PHY93_00130|PHY93_00130   7 ILVIDDEVLLEDLYKGFLARIGA-DVTFCDHPQKGWKAIDKKEYDLIITDLKMPVITGDEFISIVRASKlnAHTPIILCSAFINKL 91 
                              89*********************.*****************************************99998899************* PP

                              HHHHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  85 davealkagaddflsKpfdpeeLlkal 111
                              +++e  +     fl+Kpfd ++Ll+ +
  PHY93_00130|PHY93_00130  92 VITEITRESKIYFLTKPFDSKALLELV 118
                              **********************99876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (265 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       632  (0.0352502); expected 358.6 (0.02)
Passed bias filter:                      453  (0.0252663); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.39
# Mc/sec: 2035.61
//
Query:       PHY93_05560|PHY93_05560  [L=349]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.3e-33  116.3   0.3    2.2e-33  115.6   0.3    1.4  1  MS_channel  Mechanosensitive ion channel


Domain annotation for each model (and alignments):
>> MS_channel  Mechanosensitive ion channel
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  115.6   0.3   1.2e-37   2.2e-33       5     199 ..     136     329 ..     131     336 .. 0.93

  Alignments for each domain:
  == domain 1  score: 115.6 bits;  conditional E-value: 1.2e-37
                              HHHHHHHHHHHHHHTTT--SCCHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTT-SS-TT-EEESS....SEEEEEEEE-SSEEEE CS
               MS_channel   5 kiliivvgilivlsllgvnvsallavlGalglalglalkdlisnlvaGiillfekpfkiGDlveig....dieGtVediglrttki 86 
                              ++  +v++  ++ +++g+ ++a+la  ++ +l+lglal+d++ nl++G+ l +++pf+iGD++e+     + +G+V++i++r+t++
  PHY93_05560|PHY93_05560 136 LVFSLVIVSWLAADVFGFHLAAVLATSAVFSLVLGLALQDTLGNLFSGVALQIDRPFNIGDWIEMHsgseKWTGQVQEISWRATTL 221
                              45567777888999************************************************************************ PP

                              EETTSEEEEEEHHHHHTS-EEESSS.SSEEEEEEEEEE-TTS-...HHHHHHHHHHHHHH-TTB-TTS-EEEEEEEE-SSSEEEEE CS
               MS_channel  87 rtfdgrivtiPnsslvtsnieNlsresgtrrikvsigvtyssdvkklekvleelkealkekpevlkdkellvvldefgdsslnfev 172
                                f+ +++ iPn+ +++ +  N+s+ ++  r++  + + ++ +   ++++++ l+e + + pe+l+d+++  +++e++ s ++++v
  PHY93_05560|PHY93_05560 222 LGFADELILIPNRIIAQCQLLNFSHLQKPARLNQMFRFHFDVS---IDNARKALLEGIANVPEILEDPAPRTLITEVTESWITIKV 304
                              *************************999***************...**************************************** PP

                              EEEEET...TTHHHHHHHHHHHHHHHH CS
               MS_channel 173 rvfvktvvpeeylsvqseinlrikkil 199
                               + +k+  ++ ++++ + ++ +i + +
  PHY93_05560|PHY93_05560 305 FYSLKD--YGTRYRTGDIVISQILDRI 329
                              *****9..8888888877777776655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (349 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       932  (0.0519828); expected 358.6 (0.02)
Passed bias filter:                      328  (0.0182944); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.20s 00:00:00.71 Elapsed: 00:00:00.38
# Mc/sec: 2754.93
//
Query:       PHY93_00135|PHY93_00135  [L=64]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.5e-13   49.3   3.6    6.2e-13   49.2   3.6    1.0  1  SlyX          SlyX
  ------ inclusion threshold ------
       0.04   13.2   2.3       0.04   13.2   2.3    1.0  1  DUF3450       Protein of unknown function (DUF3450)
       0.04   14.2   1.2      0.067   13.4   0.9    1.5  2  ABC_tran_CTD  ABC transporter C-terminal domain
      0.053   13.4   0.1      0.053   13.4   0.1    2.1  2  PKcGMP_CC     Coiled-coil N-terminus of cGMP-dependent protei
       0.14   12.3   2.1       0.15   12.2   2.1    1.1  1  Fib_alpha     Fibrinogen alpha/beta chain family


Domain annotation for each model (and alignments):
>> SlyX  SlyX
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.2   3.6   1.7e-16   6.2e-13       1      65 [.       2      64 .]       2      64 .] 0.88

  Alignments for each domain:
  == domain 1  score: 49.2 bits;  conditional E-value: 1.7e-16
                             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-XXXXXXXXXXXXXXXXXX CS
                     SlyX  1 leerleeLEiklafqedtieeLndvvaeqqqqidrlqrqlrllaerlkeleessgaseaeeepPP 65
                             leer+++LE+k ++q+ ++++Ln++v++qq  +++lq+ + +l+   +e ++++++   e++ PP
  PHY93_00135|PHY93_00135  2 LEERIKDLEVKFSHQDFLVDQLNKIVTNQQLMLEKLQKDILELKLSQSESAPQARSL--EDDVPP 64
                             69**************************************99998888887775533..666666 PP

>> DUF3450  Protein of unknown function (DUF3450)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   2.3   1.1e-05      0.04      49     101 ..       2      54 ..       1      62 [. 0.91

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.1e-05
                  DUF3450  49 llaeyralkeeleslevyneqlerlvasqeqeiasleeqieeieeierelvpl 101
                              l++++++l+ + +  ++  +ql+++v++q+  +++l+++i e++  ++e  p 
  PHY93_00135|PHY93_00135   2 LEERIKDLEVKFSHQDFLVDQLNKIVTNQQLMLEKLQKDILELKLSQSESAPQ 54 
                              7899***************************************9999988775 PP

>> ABC_tran_CTD  ABC transporter C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.9   1.9e-05     0.067      20      60 ..       2      44 ..       1      46 [. 0.85
   2 ?    3.6   0.4     0.022        79       5      21 ..      29      45 ..      25      55 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 1.9e-05
             ABC_tran_CTD 20 LEeeiaeleaeladpelysdp.ek.laelsaeleeleaeLeel 60
                             LEe+i++le ++++ ++  d+ +k ++  +  le+l++++ el
  PHY93_00135|PHY93_00135  2 LEERIKDLEVKFSHQDFLVDQlNKiVTNQQLMLEKLQKDILEL 44
                             9*****************9998773666666699999998875 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.022
             ABC_tran_CTD  5 keqreleeleaeIeaLE 21
                             ++q  le+l ++I +L 
  PHY93_00135|PHY93_00135 29 NQQLMLEKLQKDILELK 45
                             67888999999998886 PP

>> PKcGMP_CC  Coiled-coil N-terminus of cGMP-dependent protein kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.1   1.5e-05     0.053       7      27 ..       3      23 ..       1      25 [. 0.88
   2 ?    0.6   0.6      0.15   5.3e+02      15      28 ..      32      45 ..      30      48 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 1.5e-05
                PKcGMP_CC  7 DERIRELEkrlaekdeEIqEL 27
                             +ERI++LE + + +d  + +L
  PHY93_00135|PHY93_00135  3 EERIKDLEVKFSHQDFLVDQL 23
                             8************99777776 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.15
                PKcGMP_CC 15 krlaekdeEIqELr 28
                              +l++  + I EL+
  PHY93_00135|PHY93_00135 32 LMLEKLQKDILELK 45
                             67777788888888 PP

>> Fib_alpha  Fibrinogen alpha/beta chain family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   2.1   4.3e-05      0.15      85     129 ..       1      45 [.       1      55 [. 0.93

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 4.3e-05
                              HHHHCCCHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                Fib_alpha  85 eleeeilrlketidaqesnirvLqnvlesneqkiqkLeqdidqke 129
                              +lee+i +l+ + ++q   + +L +++ +++  ++kL++di +++
  PHY93_00135|PHY93_00135   1 MLEERIKDLEVKFSHQDFLVDQLNKIVTNQQLMLEKLQKDILELK 45 
                              89***************************************9886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (64 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1268  (0.0707234); expected 358.6 (0.02)
Passed bias filter:                      669  (0.0373138); expected 358.6 (0.02)
Passed Vit filter:                        55  (0.00306766); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.38u 0.22s 00:00:00.60 Elapsed: 00:00:00.37
# Mc/sec: 521.96
//
Query:       PHY93_00140|PHY93_00140  [L=208]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-20   73.5   0.0    2.3e-20   72.8   0.0    1.4  1  OmpA             OmpA family
    2.6e-08   33.7  22.0    4.3e-08   33.0  22.0    1.4  1  Gly-zipper_Omp   Glycine zipper
    1.7e-07   30.8  23.7    2.6e-07   30.3  23.7    1.3  1  Gly-zipper_YMGG  YMGG-like Gly-zipper
    1.1e-05   25.2  23.9    1.7e-05   24.6  23.9    1.3  1  Rick_17kDa_Anti  Glycine zipper 2TM domain
    0.00074   19.3   0.5      0.014   15.1   0.1    2.1  2  Pilus_CpaD       Pilus biogenesis CpaD protein (pilus_cpaD)
     0.0039   17.6   4.0     0.0039   17.6   4.0    2.4  3  LPAM_1           Prokaryotic membrane lipoprotein lipid attac
  ------ inclusion threshold ------
      0.091   12.6  23.3       0.16   11.8  23.3    1.3  1  Gly-zipper_OmpA  Glycine-zipper domain
       0.12   12.1   5.6        0.2   11.3   5.6    1.4  1  TraT             Enterobacterial TraT complement resistance p
       0.81    9.5   0.0       0.81    9.5   0.0    2.4  2  LapA_dom         Lipopolysaccharide assembly protein A domain
        2.2    8.5  15.7        4.9    7.4  15.7    1.6  1  Bacteriocin_IIc  Bacteriocin class II with double-glycine lea


Domain annotation for each model (and alignments):
>> OmpA  OmpA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.8   0.0   1.3e-23   2.3e-20       1      95 []      96     191 ..      96     191 .. 0.98

  Alignments for each domain:
  == domain 1  score: 72.8 bits;  conditional E-value: 1.3e-23
                              .B-TTS--B-GGGHHHHHHHHHHHH.S-S--EEEEE---S---HHHHHHHHHHHHHHHHHHHHHTTSSGGGEEEEE-TT------- CS
                     OmpA   1 yFapgsseLtpkaksaldkiaellk.kpeqkitveGhtdaagseernweLSqkRAeaVanylqnegvppsrisvsgyGaerpitan 85 
                              +F++g+++L+p+a++ l+++a ++k  pe+ + v G+td++gs+e n+ LS+kRA+aV++ l++ g+p   i + g+G ++pi++n
  PHY93_00140|PHY93_00140  96 LFDTGKADLKPEARDNLKQMAVIMKkYPENVLAVKGYTDNTGSKEINEILSEKRAKAVKEQLVAAGLPGPVIATHGMGPSNPIADN 181
                              5************************888888******************************************************* PP

                              -------EE. CS
                     OmpA  86 ntaekkarnr 95 
                              ++ +++++nr
  PHY93_00140|PHY93_00140 182 SSLVGRKQNR 191
                              *******998 PP

>> Gly-zipper_Omp  Glycine zipper
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.0  22.0   2.4e-11   4.3e-08       2      45 ..      28      70 ..      27      71 .. 0.97

  Alignments for each domain:
  == domain 1  score: 33.0 bits;  conditional E-value: 2.4e-11
           Gly-zipper_Omp  2 GaaiGAaaGaliGgavggrgtGaliGAavGaavGgliGaamdkq 45
                             Ga+iGA++G+++G++vg  g+Ga+iGA++G+ +Gg  G+ mdkq
  PHY93_00140|PHY93_00140 28 GAGIGAVVGGGLGAIVGK-GKGAAIGAVLGGSLGGYAGHRMDKQ 70
                             9****************6.9***********************9 PP

>> Gly-zipper_YMGG  YMGG-like Gly-zipper
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.3  23.7   1.5e-10   2.6e-07       1      44 [.      23      64 ..      23      66 .. 0.95

  Alignments for each domain:
  == domain 1  score: 30.3 bits;  conditional E-value: 1.5e-10
                             ....XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
          Gly-zipper_YMGG  1 ggavrGAaiGAaaGAvvGaliGsgggkGAaiGAaaGalaGgaiG 44
                             ++a rGA+iGA++G ++Ga++G   gkGAaiGA+ G+  Gg++G
  PHY93_00140|PHY93_00140 23 KNAYRGAGIGAVVGGGLGAIVG--KGKGAAIGAVLGGSLGGYAG 64
                             5899******************..99****************99 PP

>> Rick_17kDa_Anti  Glycine zipper 2TM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.6  23.9   9.6e-09   1.7e-05       2      41 ..      28      67 ..      27      68 .. 0.96

  Alignments for each domain:
  == domain 1  score: 24.6 bits;  conditional E-value: 9.6e-09
          Rick_17kDa_Anti  2 GaliGAaaGgvaGaaigggggrvlGavvGAaaGavaGnai 41
                             Ga iGA++Gg +Ga +g+g+g+++Gav+G+ +G++aG+ +
  PHY93_00140|PHY93_00140 28 GAGIGAVVGGGLGAIVGKGKGAAIGAVLGGSLGGYAGHRM 67
                             9************************************987 PP

>> Pilus_CpaD  Pilus biogenesis CpaD protein (pilus_cpaD)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.0     0.052        94       2      18 ..       8      24 ..       7      30 .. 0.82
   2 !   15.1   0.1     8e-06     0.014      22     121 ..      74     177 ..      53     199 .. 0.71

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.052
               Pilus_CpaD  2 lalalllagCastaasn 18
                             +++++llagCas++++n
  PHY93_00140|PHY93_00140  8 ILSLILLAGCASSENKN 24
                             57899******998875 PP

  == domain 2  score: 15.1 bits;  conditional E-value: 8e-06
               Pilus_CpaD  22 tgsi.dyrsrhpivveeaeasldlkvasgdggLtaaqrarlealaeeyrregagaivisvpsgssneaaa.....aaaaaeiravl 101
                               ++i + + +++  v++ ++ + +   +g+  L++++r++l+++a  ++++ +++++++ ++++  ++++     ++ a+++++ l
  PHY93_00140|PHY93_00140  74 LQQIaETKRTEQGLVTKLKSDILFD--TGKADLKPEARDNLKQMAVIMKKYPENVLAVKGYTDNTGSKEIneilsEKRAKAVKEQL 157
                              3344455666666666666555555..5******************************9977776665550001155667788888 PP

               Pilus_CpaD 102 aaaGvpaseisvrayqaaap 121
                              +aaG+p+  i+ +++ +++p
  PHY93_00140|PHY93_00140 158 VAAGLPGPVIATHGMGPSNP 177
                              88998888888888777765 PP

>> LPAM_1  Prokaryotic membrane lipoprotein lipid attachment site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   4.0   2.2e-06    0.0039       1      18 []       1      18 [.       1      18 [. 0.97
   2 ?   -3.3   0.2       9.3   1.7e+04       7      12 ..      50      55 ..      50      55 .. 0.82
   3 ?   -1.7   0.0       2.8   5.1e+03       1       4 [.     119     122 ..     119     128 .. 0.80

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 2.2e-06
                   LPAM_1  1 MKKillalgalllLsGCs 18
                             MKKil++++ l lL+GC+
  PHY93_00140|PHY93_00140  1 MKKILITILSLILLAGCA 18
                             *****************6 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 9.3
                   LPAM_1  7 algall 12
                             a+ga+l
  PHY93_00140|PHY93_00140 50 AIGAVL 55
                             799997 PP

  == domain 3  score: -1.7 bits;  conditional E-value: 2.8
                   LPAM_1   1 MKKi 4  
                              MKK+
  PHY93_00140|PHY93_00140 119 MKKY 122
                              9**7 PP

>> Gly-zipper_OmpA  Glycine-zipper domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8  23.3   8.7e-05      0.16       5      43 ..      26      63 ..      23      64 .. 0.70

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 8.7e-05
          Gly-zipper_OmpA  5 avGAalGAaaGAavGaitGsaGtGAaiGAasGavaGllr 43
                              +GA++GA+ G  +Gai    G+GAaiGA +G+  G+ +
  PHY93_00140|PHY93_00140 26 YRGAGIGAVVGGGLGAIV-GKGKGAAIGAVLGGSLGGYA 63
                             556666666666666665.3467**********999876 PP

>> TraT  Enterobacterial TraT complement resistance protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   5.6   0.00011       0.2      85     129 ..      22      69 ..      12      89 .. 0.67

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00011
                     TraT  85 lkaGfggalagaaagaaigaanggsagaalgggl...vGglvgaiaga 129
                               k+++ ga+ ga++g ++ga  g++ gaa+g+ l   +Gg++g  +++
  PHY93_00140|PHY93_00140  22 NKNAYRGAGIGAVVGGGLGAIVGKGKGAAIGAVLggsLGGYAGHRMDK 69 
                              467888888888888888888555555544433311134444444444 PP

>> LapA_dom  Lipopolysaccharide assembly protein A domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   3.1       5.3   9.4e+03      28      38 ..      30      40 ..      29      44 .. 0.72
   2 ?    9.5   0.0   0.00045      0.81      28      54 ..      50      76 ..      48      85 .. 0.86

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 5.3
                 LapA_dom 28 giGallgwlls 38
                             giGa++g+ l+
  PHY93_00140|PHY93_00140 30 GIGAVVGGGLG 40
                             89999887555 PP

  == domain 2  score: 9.5 bits;  conditional E-value: 0.00045
                 LapA_dom 28 giGallgwllslwsylrlrrelrrlkk 54
                             +iGa+lg+ l+ ++  r  +++++l++
  PHY93_00140|PHY93_00140 50 AIGAVLGGSLGGYAGHRMDKQAKELQQ 76
                             8***********************987 PP

>> Bacteriocin_IIc  Bacteriocin class II with double-glycine leader peptide
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.4  15.7    0.0027       4.9      27      61 ..      28      58 ..      15      63 .. 0.59

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.0027
          Bacteriocin_IIc 27 givggalaGaatGaatlgilgaavGavvGavvGai 61
                             g++ ga+ G + Ga+    +g + Ga++Gav G++
  PHY93_00140|PHY93_00140 28 GAGIGAVVGGGLGAI----VGKGKGAAIGAVLGGS 58
                             455566666666666....5555555555555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (208 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       967  (0.053935); expected 358.6 (0.02)
Passed bias filter:                      652  (0.0363657); expected 358.6 (0.02)
Passed Vit filter:                        65  (0.00362541); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.36
# Mc/sec: 1739.34
//
Query:       PHY93_00145|PHY93_00145  [L=270]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.2e-29  101.8   0.4    7.8e-29  101.5   0.4    1.1  1  MipA      MltA-interacting protein MipA


Domain annotation for each model (and alignments):
>> MipA  MltA-interacting protein MipA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  101.5   0.4   4.3e-33   7.8e-29       5     211 ..      40     269 ..      36     270 .] 0.80

  Alignments for each domain:
  == domain 1  score: 101.5 bits;  conditional E-value: 4.3e-33
                     MipA   5 agygpsypgsddyellllPllfyegenfyldgls.dg.gynlletdnfrlglslslslesgrdesda...lgdrktsleaGlfaey 85 
                               +yg++y+gs++++l+++P++++ ++   l++ + +  +  ++ +++f+++lsl l+l+  ++ ++a   ++++++++eaG+ + +
  PHY93_00145|PHY93_00145  40 SIYGNHYRGSNQSRLWFFPIPYFTYKSKRLEA-EpSFvRGIFFHNEWFSFKLSLMLGLNVESKRNKAregMPSLDYTVEAGPMFIF 124
                              6899***************************8.334567789999999988888888888877777788***************** PP

                     MipA  86 r.tqvgllr....la.........dvsg.ahkGaea.....lsasfsl........sgrwtlspgaglsyasskyndyyYGVsaae 143
                              + +++++      ++         d+s  +  G  +     +                +w+ +++++  +a+sky++y+YGV+++ 
  PHY93_00145|PHY93_00145 125 HlWKSKNKDltvnFEwpiresfatDLSYiKPVG--LftvpyI-----NiihtptptAWNWSSEFSVSPMFADSKYHQYFYGVDKQY 203
                              966655532445411556666666666633333..1223431.....1344455545588899999999***************** PP

                     MipA 144 aaasglpaYkagaglssvglglgasyrpltenwsllasasytrls.seiadSPlvesdnqvtaglgvaY 211
                              a ++++p ++a +g+s+++  l ++ r   +n+ ++ ++++++l    + +SPlv+ ++ + +glg+ +
  PHY93_00145|PHY93_00145 204 A-RADRPFFHAHGGYSGFQTALVLNKR--VKNFVIIPFVRWDHLKnAVFVNSPLVKTKSYAIGGLGLFW 269
                              *.6666********************8..77**************8999***************99865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (270 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       237  (0.0132188); expected 358.6 (0.02)
Passed bias filter:                      194  (0.0108205); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.18s 00:00:00.62 Elapsed: 00:00:00.36
# Mc/sec: 2249.19
//
Query:       PHY93_00150|PHY93_00150  [L=332]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.1e-21   75.6   0.1    5.3e-21   74.8   0.1    1.4  1  OmpA           OmpA family
      4e-05   23.8   0.1    6.1e-05   23.2   0.1    1.3  1  OMP_b-brl      Outer membrane protein beta-barrel domain
  ------ inclusion threshold ------
      0.092   12.5   0.0       0.16   11.7   0.0    1.4  1  OmpA_membrane  OmpA-like transmembrane domain


Domain annotation for each model (and alignments):
>> OmpA  OmpA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.8   0.1   8.8e-25   5.3e-21       2      95 .]     223     317 ..     222     317 .. 0.97

  Alignments for each domain:
  == domain 1  score: 74.8 bits;  conditional E-value: 8.8e-25
                              B-TTS--B-GGGHHHHHHHHHHHH.S-S--EEEEE---S---HHHHHHHHHHHHHHHHHHHHHTTSSGGGEEEEE-TT-------- CS
                     OmpA   2 FapgsseLtpkaksaldkiaellk.kpeqkitveGhtdaagseernweLSqkRAeaVanylqnegvppsrisvsgyGaerpitann 86 
                              F++  +e++p + ++++k+ae+lk  + ++ +veG++d++g +  n++LS++RAeaV++ l+++gv+++r++++g+Ga rpi++n+
  PHY93_00150|PHY93_00150 223 FDSSMAEIKPHYIDQIKKVAEQLKgDNTLSGIVEGYADSTGPADLNDKLSKRRAEAVQKKLIEFGVDQKRLRAEGFGAGRPIADNR 308
                              9999********************777777******************************************************** PP

                              ------EE. CS
                     OmpA  87 taekkarnr 95 
                              t e++++nr
  PHY93_00150|PHY93_00150 309 TSEGRQKNR 317
                              *******98 PP

>> OMP_b-brl  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.2   0.1     1e-08   6.1e-05       2     150 ..       5     142 ..       4     174 .. 0.72

  Alignments for each domain:
  == domain 1  score: 23.2 bits;  conditional E-value: 1e-08
                OMP_b-brl   2 allllaalsaaaaaassfggfyvggglgls.kvkvdgv.gsds.gfgfgvgagyefndnvgvegglsysgdkdysgsgktdikinl 84 
                              +++l++al ++a+ ++  ++f++gg++g+   v ++++  + +  +   v + y+f++  g+++++s+ g kd+          n+
  PHY93_00150|PHY93_00150   5 IAILALALLTPAFPSDLTHKFGLGGSVGFPiPVFGNNFnSVADpEWSASVHGRYHFDQFMGLDLSVSKEGFKDTPM--------NF 82 
                              689999999******************999655544442333335***********************99886555........44 PP

                OMP_b-brl  85 lsvpvnagyaf.nlsdsvlpyggaGlgytkvevdvsgngasdsdtdfglglgaGveyaladnwslka 150
                               ++ +   +++ +++d + p +g+G g t+ +           + + +l +  G+ey++ + + l+a
  PHY93_00150|PHY93_00150  83 ENINLLGLWRMlGVAD-FTPIFGLGAGVTRIKDY------LPGSAKLSLLARGGIEYNMMPSLVLGA 142
                              4566665555436777.79999999998644333......334466666666677777776655543 PP

>> OmpA_membrane  OmpA-like transmembrane domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   2.7e-05      0.16     124     157 ..     120     155 ..     112     175 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 2.7e-05
                              EEEEEEEEEEEEEEEETTEEEE..EEEEEESSSSSB CS
            OmpA_membrane 124 tkvslllavGveyaitpelalr..leYqylnnvgdl 157
                              +k sll+  G+ey+++p l l   ++Yqy++++  +
  PHY93_00150|PHY93_00150 120 AKLSLLARGGIEYNMMPSLVLGalVDYQYVSKIMGK 155
                              689***************9875338******99655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (332 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       598  (0.0333538); expected 358.6 (0.02)
Passed bias filter:                      541  (0.0301746); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.36
# Mc/sec: 2738.76
//
Query:       PHY93_00155|PHY93_00155  [L=133]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
  ------ inclusion threshold ------
      0.046   13.1   1.8      0.066   12.6   1.8    1.2  1  Smac_DIABLO  Second Mitochondria-derived Activator of Caspase
      0.059   13.5   2.6       0.11   12.6   2.6    1.4  1  ORF6C        ORF6C domain
       0.27   11.8   7.7       0.54   10.8   7.7    1.7  1  DUF16        Protein of unknown function DUF16
       0.27   11.7   4.3        1.2    9.6   4.3    2.0  1  DUF4094      Domain of unknown function (DUF4094)


Domain annotation for each model (and alignments):
>> Smac_DIABLO  Second Mitochondria-derived Activator of Caspases
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   1.8   1.5e-05     0.066     160     214 ..      58     112 ..      54     127 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 1.5e-05
              Smac_DIABLO 160 tarshlqlvksqveevrqlskeaekkLaeakveeikrlkeraeeaskpegaeaee 214
                              t   +lq+ ++++ e++ l+keae kL +a ++++  +  + e++ + ++ ++ e
  PHY93_00155|PHY93_00155  58 TKSVELQINQAKLVEMNLLKKEAELKLHNAAIDKLTLTITTLEQEIRVNNEKNGE 112
                              556689****************************988655555544444433333 PP

>> ORF6C  ORF6C domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   2.6   2.4e-05      0.11       8      50 ..      81     123 ..      74     130 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 2.4e-05
                    ORF6C   8 alkehdekieeidervkkLeenmpldesekeeiqkkvkkkvve 50 
                              +lk h+  i+++   ++ Le++ ++++++++eiqk +    v+
  PHY93_00155|PHY93_00155  81 ELKLHNAAIDKLTLTITTLEQEIRVNNEKNGEIQKMIDTHLVS 123
                              57889******************************99888776 PP

>> DUF16  Protein of unknown function DUF16
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   7.7   0.00012      0.54      32      93 ..      71     132 ..      24     133 .] 0.86

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00012
                              BHHHHHHHHHHHH...HHHHHHHHHHHHHHHHHHHHHHHHHHHHH.......HHHHHHHHHH CS
                    DUF16  32 nkqrLkkieakvdklgeqinkleqkvekqgekikelkveqkaqgeelnkvdetleliletLq 93 
                               + +L k ea+++ ++  i+kl+ ++++++++i+  +++    ++ +++   +l+l+ e ++
  PHY93_00155|PHY93_00155  71 VEMNLLKKEAELKLHNAAIDKLTLTITTLEQEIRVNNEKNGEIQKMIDTHLVSLQLLQEKIT 132
                              56789999*************************99988888888889999999999988775 PP

>> DUF4094  Domain of unknown function (DUF4094)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   4.3   0.00026       1.2       6      84 ..       4     105 ..       2     109 .. 0.61

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.00026
                  DUF4094   6 llLcvasflagllftnRlwtvp.s......diirqsk...........eelkl..vsedcds.....kdaesr..skdilg...ev 61 
                              +++c++ +++g++f + + ++p +      ++    +            +++l  v+e  +s     +  + +  + ++l+   e 
  PHY93_00155|PHY93_00155   4 VVMCICLTIMGIYFFKST-DLPkElkersaQM----RaesgpavsavpRKMNLpkVKEMTKSvelqiN--QAKlvEMNLLKkeaEL 82 
                              689999999999999887.4554344322222....12345567788877777644444444544222..2225566777653234 PP

                  DUF4094  62 skthkaiqtLdktissLemeLaa 84 
                              +  + ai +L  ti +Le+e+++
  PHY93_00155|PHY93_00155  83 KLHNAAIDKLTLTITTLEQEIRV 105
                              45566888************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (133 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1114  (0.062134); expected 358.6 (0.02)
Passed bias filter:                      430  (0.0239835); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.39
# Mc/sec: 1021.04
//
Query:       PHY93_00160|PHY93_00160  [L=239]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (239 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       784  (0.043728); expected 358.6 (0.02)
Passed bias filter:                      414  (0.0230911); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.25s 00:00:00.78 Elapsed: 00:00:00.47
# Mc/sec: 1535.17
//
Query:       PHY93_00165|PHY93_00165  [L=236]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-17   63.6   0.0    1.6e-17   63.1   0.0    1.3  1  HTH_25    Helix-turn-helix domain
    6.4e-06   26.1   0.0    1.3e-05   25.2   0.0    1.5  1  HTH_3     Helix-turn-helix
    1.2e-05   25.2   0.0    2.2e-05   24.4   0.0    1.5  1  HTH_19    Helix-turn-helix domain
     0.0017   18.7   0.0     0.0025   18.1   0.0    1.2  1  HTH_31    Helix-turn-helix domain


Domain annotation for each model (and alignments):
>> HTH_25  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.1   0.0   3.6e-21   1.6e-17       3      59 ..      28      84 ..      26      88 .. 0.96

  Alignments for each domain:
  == domain 1  score: 63.1 bits;  conditional E-value: 3.6e-21
                             HHHHHTTT--HHHHHHHSS--HHHHHHHHCT--TTSS-HHHHHHHHHHHHHHTT--H CS
                   HTH_25  3 raaRearglsleevaketkIrkdylealEeddfdalpepvylrgylrnYArlLgldp 59
                             +  Re+rg+sl++vak+tkI++ +l ++E++++ +lp+++y++g++r+   +Lg+dp
  PHY93_00165|PHY93_00165 28 KSTRERRGMSLKDVAKKTKIHVGILNQIENNNLTNLPSKPYVKGFVRSTSLFLGIDP 84
                             679*****************************************************8 PP

>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.2   0.0   2.9e-09   1.3e-05       1      37 [.      27      65 ..      27      71 .. 0.88

  Alignments for each domain:
  == domain 1  score: 25.2 bits;  conditional E-value: 2.9e-09
                             HHHHHHHTTHHHHHHHHHHTSSHHHHHHHHTT..SSCSB CS
                    HTH_3  1 lkelRkqlglsqeeLAeklGvsrstisriEnG..ernPs 37
                             +k  R+ +g+s++++A+k+ +++  +++iEn+     Ps
  PHY93_00165|PHY93_00165 27 IKSTRERRGMSLKDVAKKTKIHVGILNQIENNnlTNLPS 65
                             7999***************************97666665 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.4   0.0     5e-09   2.2e-05       1      56 [.      24      85 ..      24      93 .. 0.83

  Alignments for each domain:
  == domain 1  score: 24.4 bits;  conditional E-value: 5e-09
                   HTH_19  1 GerLkeaReelgltqeelaerlgisrskisaiEng.kkdvps....aelllkiaealgid.l 56
                             G+ +k  Re +g++++++a++++i  + +++iEn+  ++ ps     + +++ + +lgid +
  PHY93_00165|PHY93_00165 24 GDLIKSTRERRGMSLKDVAKKTKIHVGILNQIENNnLTNLPSkpyvKGFVRSTSLFLGIDpI 85
                             7889*******************************755566666666666999999999844 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.0   5.5e-07    0.0025       2      40 ..      23      61 ..      22      75 .. 0.87

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 5.5e-07
                   HTH_31  2 LGalLralReraGLsqeevAerlgvsestlsrlEqGrrg 40
                             +G+l +  Rer+G+s+++vA+ + + +  l+++E+   +
  PHY93_00165|PHY93_00165 23 IGDLIKSTRERRGMSLKDVAKKTKIHVGILNQIENNNLT 61
                             7999******************************97665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (236 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       491  (0.0273858); expected 358.6 (0.02)
Passed bias filter:                      396  (0.0220871); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.50u 0.25s 00:00:00.75 Elapsed: 00:00:00.45
# Mc/sec: 1566.05
//
Query:       PHY93_00170|PHY93_00170  [L=300]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.2e-15   54.9   0.0    9.7e-15   54.3   0.0    1.3  1  HTH_1            Bacterial regulatory helix-turn-helix protei
     0.0022   17.4   0.0     0.0044   16.4   0.0    1.5  1  LysR_substrate   LysR substrate binding domain
  ------ inclusion threshold ------
      0.032   14.6   0.0      0.078   13.4   0.0    1.6  1  Snapin_Pallidin  Snapin/Pallidin


Domain annotation for each model (and alignments):
>> HTH_1  Bacterial regulatory helix-turn-helix protein, lysR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.3   0.0   1.6e-18   9.7e-15       1      59 [.       4      62 ..       4      63 .. 0.97

  Alignments for each domain:
  == domain 1  score: 54.3 bits;  conditional E-value: 1.6e-18
                             HHHHHHHHHHHHHSSHHHHHHHHTS-HHHHHHHHHHHHHHHTS-SEEESSSEEEE-HHH CS
                    HTH_1  1 lrqlrlfvavaeegsftrAAeeLglsqpavsrqikrLEeelgvpLfeRtgrglrLTeaG 59
                             +++l +f  va+ +s+t AA +L +sqp+++ qik+LE  lg +Lf+++gr+l+LT+ G
  PHY93_00170|PHY93_00170  4 FNHLFYFYIVAKLKSVTSAALHLKTSQPSLTTQIKTLEMNLGKTLFIKKGRNLELTPDG 62
                             68999****************************************************98 PP

>> LysR_substrate  LysR substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.0   7.3e-07    0.0044      38     186 ..     126     280 ..      90     284 .. 0.67

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 7.3e-07
                              EEEEESHHHHHHHHHTTSSSEEEEESSS.CCTTEEEEEEEEEEEEEEEETTS.......GGGGSSSECGGGGCT.SEEEEESTTST CS
           LysR_substrate  38 elvegdseelldllaegelDlairagpp.edsglearpLaeeplvlvaspdh.......pLargepvsledLad.eplilleegsg 114
                               + +g+ e l+++l+ ++l + i+     +d  l + + ++ p+vl+  +d         L   e +    L++   ++ l+++  
  PHY93_00170|PHY93_00170 126 KINTGTHEYLIEQLKLNKLNFIITNKSDdDDLTLKVLKEYSMPVVLAGTADFikklkmkSLKSSEGI----LKKvSGFLALPAEDL 207
                              5555555566666666667666666555555556666666666666666665333333333333333....333334556655555 PP

                              .HHHHHHHHHHCTTEECEEEEEESSHHHHHHHHHTTS-BEEEEGGGHHCCCHTTTEEEEEESSTTCE.EEEEEE CS
           LysR_substrate 115 .lrdlledalreaglkprvalevnsleallalvaaGlGiallprsavrdeladgrlvalplpepplp.relylv 186
                               lr + + +l +++ +++  +e++ ++++++    G+ ++llp  ++++el+++ l+ l  +   l   ++y++
  PHY93_00170|PHY93_00170 208 kLRSETNTFLTKNKMRYKSIFESDIIASIVRSTVDGMTFCLLPLPYIHKELEQNALQ-LLTSKNGLWeHQIYII 280
                              79*******************************************************.5544447777888776 PP

>> Snapin_Pallidin  Snapin/Pallidin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   1.3e-05     0.078      11      79 ..      12      79 ..       3      83 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 1.3e-05
          Snapin_Pallidin 11 lepkldeldeklkelrqsQeeLleqldrlnekLkeleeaqeaevlpdlkeyakKLvnikkrmsslnerl 79
                             ++ kl+ +++    l++sQ  L+ q+++l  +L ++  +++     +l +   KL  i  rm + ne l
  PHY93_00170|PHY93_00170 12 IVAKLKSVTSAALHLKTSQPSLTTQIKTLEMNLGKTLFIKK-GRNLELTPDGGKLFDICSRMFEANEEL 79
                             6789*********************************9999.555899999999999999998888877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (300 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       587  (0.0327403); expected 358.6 (0.02)
Passed bias filter:                      361  (0.020135); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.46
# Mc/sec: 1944.71
//
Query:       PHY93_00175|PHY93_00175  [L=143]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.2e-25   87.3   0.4      1e-24   87.1   0.4    1.0  1  AHSA1     Activator of Hsp90 ATPase homolog 1-like protein


Domain annotation for each model (and alignments):
>> AHSA1  Activator of Hsp90 ATPase homolog 1-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   87.1   0.4   5.8e-29     1e-24       2     121 ..      16     141 ..      15     143 .] 0.92

  Alignments for each domain:
  == domain 1  score: 87.1 bits;  conditional E-value: 5.8e-29
                              S-HHHHHHHHH-HHHHHHH.....EEEEEEEE--STTEEEEEEETTTSEEEEEEEEEEEEETTTEEEEEEEEETSET...EEEEEE CS
                    AHSA1   2 apperVfraltdpellkrW.....ftlteaemdlrpGgkfrlrdspdgkefgnegeylevvpperlvytwrledepe...eeestv 79 
                              a  e+Vf+a+t+p+ +++W     ++ +++e+   +Gg++++ + + ++ ++ +g++le+ p ++lv+++++ d ++     e+ v
  PHY93_00175|PHY93_00175  16 AEQEKVFAAWTNPKIVEKWfcpegMKAEVHEWNAVVGGNYSISMIDGEDVYTTNGTFLEIAPFHKLVFSYGWVDGDSaedNVETLV 101
                              678****************99988888889999999******6659999********************99997777778889*** PP

                              EEEEEEETTEEEEEEEEEEEEHCHHHHHHHHHHHHHHHHHHH CS
                    AHSA1  80 tieleeegggTrltlthtglprkqkeeegveeGweqsldqLk 121
                              t+el   ++gT +tlth+g++ ++     +eeGw ++l +L+
  PHY93_00175|PHY93_00175 102 TVELRNLDDGTDVTLTHEGVDPEEVTG--HEEGWLSALSNLA 141
                              ************************999..9********9997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (143 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       333  (0.0185733); expected 358.6 (0.02)
Passed bias filter:                      291  (0.0162307); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.44
# Mc/sec: 968.17
//
Query:       PHY93_00180|PHY93_00180  [L=296]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.9e-22   79.6   0.0    3.9e-22   79.1   0.0    1.2  1  Cupin_4       Cupin superfamily protein
    8.7e-07   28.9   0.0      3e-06   27.1   0.0    1.6  2  Cupin_8       Cupin-like domain
     0.0018   18.7   0.0     0.0029   18.0   0.0    1.4  1  JmjC          JmjC domain, hydroxylase
     0.0038   16.9   0.0      0.025   14.3   0.0    2.0  2  Cupin_2       Cupin domain
     0.0088   15.9   0.0        0.2   11.5   0.0    2.3  2  AraC_binding  AraC-like ligand binding domain


Domain annotation for each model (and alignments):
>> Cupin_4  Cupin superfamily protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.1   0.0   1.1e-25   3.9e-22      30     230 ..      37     250 ..      15     276 .. 0.74

  Alignments for each domain:
  == domain 1  score: 79.1 bits;  conditional E-value: 1.1e-25
                              HHHHHCCHHCHHCCC.EECTCCEEEEECCCCEEEE-SSB-SCCCHHHHHHCCHCC.CTTEEEEC-HHHC-HH.HHHHHHHHHHS-E CS
                  Cupin_4  30 ddLaeLaeeeevearlikgerdkaewkvsrgpleerrlrklpakdwtlLvqgvslwkkavaqLlqpfrfepe.wrlddvmesfslv 114
                              +dL +L   e++ea l + + ++ + +  +   e++  + +p+++ +l  +g+ l  k+v+ +    +      r+d  ++  + +
  PHY93_00180|PHY93_00180  37 KDLTSLPFLESLEALLNS-WPNQIQAHLPDVRDEASSIDTTPKDAKKLFDNGMGLLFKNVNTISPVLAHWLLeLRRDLGLSALTNA 121
                              455555555566663333.3333333333333333336666666666666666666666666666555444425566666666999 PP

                              EEEEEEE-TTBBSS-SEE-SSEEEEEEEEC-EEEEEE-...............SCCCTTSSSEE--TTCCG--S-SEEEEE-TT-E CS
                  Cupin_4 115 gsnvYatpggsqgvgpHyDdyDVfllQleGrkrWrvyk...............ptvpelelkseeplkildefepvedfvLepGDl 185
                              +s++Y+tp+g +g +pH+D+   f+lQ++G k+W +                 p++pele + ++p++  ++ e +  +vL++G l
  PHY93_00180|PHY93_00180 122 RSSIYVTPKG-SGTAPHFDQNINFVLQISGSKKWWIAPnehvanpmtrhtmgqPCDPELESYLDAPMP-TSMPEDISPIVLKAGSL 205
                              **********.9************************9999***************************8.444599*********** PP

                              EEE-TT-EEEEEBBT-CCEEEEEECCEEHCCHHHCHHHHHHHHHH CS
                  Cupin_4 186 LYlPrgviHqgvaedesltlSvglraptaaellesvldllldklp 230
                              L++Prg +H+ +ae+++l+l + ++apt+ +l++++l   l + +
  PHY93_00180|PHY93_00180 206 LFVPRGSWHSTEAESDALSLNFTFTAPTWIDLFTAALRGRLAQSS 250
                              ********************************9888766555554 PP

>> Cupin_8  Cupin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.0      0.28     1e+03      26      72 ..      51      94 ..      15     107 .. 0.73
   2 !   27.1   0.0   8.5e-10     3e-06     132     250 ..     122     231 ..      59     233 .. 0.80

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 0.28
                  Cupin_8 26 alqkwtddeylleylkekaedvkvsvektpdgeadsfkeneelkfvk 72
                             +l+ w   +++ ++l+++  d+  s+++tp+++++ f+++++l f++
  PHY93_00180|PHY93_00180 51 LLNSWP--NQIQAHLPDVR-DEASSIDTTPKDAKKLFDNGMGLLFKN 94
                             566776..46777787764.445556779999999998887776665 PP

  == domain 2  score: 27.1 bits;  conditional E-value: 8.5e-10
                  Cupin_8 132 avnlWlGnsasvsslHkDhyeNlycvvrGrKkftLfpPsdapflyeaslsptedgtvvssvdve..epdlekfprlkdakkalevt 215
                                ++++ +++s ++ H D   N+  +++G Kk+++ p + + +  ++++         ++ d+e  ++ +  +p    +  +  + 
  PHY93_00180|PHY93_00180 122 RSSIYVTPKGSGTAPHFDQNINFVLQISGSKKWWIAPNEHVANPMTRHT-------MGQPCDPEleSYLDAPMPTSMPE-DISPIV 199
                              4569999*********************************999998883.......45667776224444555555555.9999** PP

                  Cupin_8 216 lnaGevLylPalWfHeVkslaeeplhlavnywydm 250
                              l+aG  L++P++ +H  +    ++  l++n+ +  
  PHY93_00180|PHY93_00180 200 LKAGSLLFVPRGSWHSTEAE--SD-ALSLNFTFTA 231
                              ****************9977..77.8999998865 PP

>> JmjC  JmjC domain, hydroxylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.0   8.1e-07    0.0029       2     114 .]     125     229 ..     124     229 .. 0.82

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 8.1e-07
                              EEEE-TT-EEEEE--GGG-EEEEEEEEES-EEEEEE-GGGHHHHHHHHHHHHHCCSTTGCCTTTCEE-HHHHHHTT---EEEEE-T CS
                     JmjC   2 lylgmpksttpwhiedqglySinylhfgapkvWyiipeekkeklekvlskknskeqpdllrhkstlispkqlekegipvyrfvqkp 87 
                              +y+ +++s t+ h +++  +   +l + ++k W i p e+   ++ +++ ++++ +  +l  + +   p+ + +    +  +v k+
  PHY93_00180|PHY93_00180 125 IYVTPKGSGTAPHFDQNINF---VLQISGSKKWWIAPNEHV--ANPMTRHTMGQPCDPELESYLDAPMPTSMPED---ISPIVLKA 202
                              6999************9999...566666666777787764..4455666677789999*******99*999666...8889**** PP

                              T-EEEE-TT-EEEEEESSSEEEEEEEE CS
                     JmjC  88 gefVfvfpgayHsvfnlgfniaeavnf 114
                              g ++fv+ g++Hs+    ++++ ++ f
  PHY93_00180|PHY93_00180 203 GSLLFVPRGSWHSTEAESDALSLNFTF 229
                              *************99998888877665 PP

>> Cupin_2  Cupin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.0      0.24   8.6e+02       5      40 ..     128     162 ..     124     165 .. 0.76
   2 !   14.3   0.0   6.8e-06     0.025      38      63 ..     197     222 ..     191     230 .. 0.87

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.24
                              EETTEEEEEECSSSEEEEEEEEESEEEEEECTEEEE CS
                  Cupin_2   5 lppGesapshrHpgedeffyVleGegeltvdgeeve 40 
                               p+G  + +h  ++   f+  ++G  ++++  +e++
  PHY93_00180|PHY93_00180 128 TPKGSGTAPHFDQNI-NFVLQISGSKKWWIAPNEHV 162
                              455668889999999.99999999999998766665 PP

  == domain 2  score: 14.3 bits;  conditional E-value: 6.8e-06
                              EEEEETTEEEEE-TT-EEEEEE-SSS CS
                  Cupin_2  38 eveleaGdsvyfpagtpHrfrNtgde 63 
                              +++l+aG ++++p+g +H  + ++d+
  PHY93_00180|PHY93_00180 197 PIVLKAGSLLFVPRGSWHSTEAESDA 222
                              689*******************9986 PP

>> AraC_binding  AraC-like ligand binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.0   0.0     0.049   1.7e+02      13      47 ..     131     165 ..     124     167 .. 0.88
   2 !   11.5   0.0   5.7e-05       0.2      44      67 ..     199     222 ..     196     277 .. 0.81

  Alignments for each domain:
  == domain 1  score: 2.0 bits;  conditional E-value: 0.049
                              T-SEEEETT-SEEEEEEEEE-EEEEETTEEEEE-T CS
             AraC_binding  13 dhsfpphvhdeyvihyvteGtgrlrlngrtydlgp 47 
                              + +++ph  ++  +++ ++G+ +++++ +++ ++p
  PHY93_00180|PHY93_00180 131 GSGTAPHFDQNINFVLQISGSKKWWIAPNEHVANP 165
                              67899**********************99998876 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 5.7e-05
                              EE-TT-EEEE-TTS-EEEEE-TTS CS
             AraC_binding  44 dlgpGdlfLlppgepHdyesdsed 67 
                               l++G+l+++p+g +H+ e++s++
  PHY93_00180|PHY93_00180 199 VLKAGSLLFVPRGSWHSTEAESDA 222
                              699******************964 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (296 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       276  (0.0153941); expected 358.6 (0.02)
Passed bias filter:                      265  (0.0147805); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 2175.97
//
Query:       PHY93_05565|PHY93_05565  [L=147]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.4e-14   54.0   0.0    3.4e-14   53.6   0.0    1.2  1  Usp       Universal stress protein family
     0.0069   15.6   0.4      0.027   13.7   0.1    2.1  2  DUF3666   Ribose-5-phosphate isomerase
  ------ inclusion threshold ------
      0.016   15.2   0.0      0.031   14.3   0.0    1.5  2  SBDS_C    SBDS protein C-terminal domain
       0.21   10.9   0.0       0.36   10.2   0.0    1.3  1  DUF2817   Protein of unknown function (DUF2817)


Domain annotation for each model (and alignments):
>> Usp  Universal stress protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.6   0.0   7.5e-18   3.4e-14       1     141 []       1     143 [.       1     143 [. 0.86

  Alignments for each domain:
  == domain 1  score: 53.6 bits;  conditional E-value: 7.5e-18
                              S-SEEEEEE-SSHHHHHHHHHHHHHHHHCTSEEEEEEEEESSHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCTTCEEEEEE CS
                      Usp   1 mykrIlVavDgseeskkAlewAlelakargaelillhvidprasgavsdadeeaeeeeleleeaeleadaakaaaeaggvkvevvv 86 
                              m k+I+V++D +++s   l+   + +  ++a+l+ +hv + + + a   +     e ++ + e+      +k a+++g+++ +v++
  PHY93_05565|PHY93_05565   1 M-KNIVVCTDLNQNSLDTLKTLNQSLDFKDATLHFIHVFEIHMYNADIVPVIFPTEVQYPEIEKSTLGILDKLAKDIGVKSDQVKL 85 
                              5.9****************999998888**********999888887777766666666666666655556788888888888888 PP

                              E...ESSHHHHHHHHHHHTTSSEEEEESCCSSTTTTCSSBHHHHHHHHHTSSEEEEEE CS
                      Usp  87 e...egdpaeeilevaeeedadliVvGsrgrsglsrlllGSvseyvlrhapcpVlvVr 141
                              +   +++  e+i  + +e +a+++Vv++rg++g+++++  S ++ + + +pc+Vlv+r
  PHY93_05565|PHY93_05565  86 KcffSHSREEKISSYLKEVNANMVVVATRGKHGIEGFFSSSLADFLCKYSPCDVLVIR 143
                              6444689999**********************************************98 PP

>> DUF3666  Ribose-5-phosphate isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.0       0.3   1.3e+03       6      17 ..      14      25 ..       7      25 .. 0.81
   2 !   13.7   0.1     6e-06     0.027      29      47 .]      86     104 ..      85     104 .. 0.95

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.3
                             HHHHHHHS-HHH CS
                  DUF3666  6 lleiLkaiDqdL 17
                              l++Lk++ q L
  PHY93_05565|PHY93_05565 14 SLDTLKTLNQSL 25
                             589999998876 PP

  == domain 2  score: 13.7 bits;  conditional E-value: 6e-06
                              HHHTTT---HHHHHHHHTT CS
                  DUF3666  29 eyFFancqdeeIaayvkel 47 
                              ++FF ++++e+I +y+ke+
  PHY93_05565|PHY93_05565  86 KCFFSHSREEKISSYLKEV 104
                              7****************97 PP

>> SBDS_C  SBDS protein C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0       1.5   6.5e+03      46      60 ..      12      26 ..       4      35 .. 0.69
   2 ?   14.3   0.0     7e-06     0.031      45      92 ..      62     109 ..      54     133 .. 0.85

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 1.5
                             CCHHHHHHHHTTTS- CS
                   SBDS_C 46 sQalevikaLiqeip 60
                             +  l+ +k+L+q ++
  PHY93_05565|PHY93_05565 12 QNSLDTLKTLNQSLD 26
                             556777777777665 PP

  == domain 2  score: 14.3 bits;  conditional E-value: 7e-06
                              CCCHHHHHHHHTTTS--EE-EEEEEEEE-...CCCHHHHHHHHHH... CS
                   SBDS_C  45 ksQalevikaLiqeipiqrarmrlritcptsikdkilklieqvesqkv 92 
                              ++  l ++++L + i ++  +++l+  +++s ++ki +++++v+++ v
  PHY93_05565|PHY93_05565  62 EKSTLGILDKLAKDIGVKSDQVKLKCFFSHSREEKISSYLKEVNANMV 109
                              56678899***********************************99663 PP

>> DUF2817  Protein of unknown function (DUF2817)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0     8e-05      0.36      45      72 ..     101     128 ..      90     138 .. 0.86

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 8e-05
                  DUF2817  45 lgpadakklLvltsGthGveGfaGSavq 72 
                              l++ +a+ ++v t G hG+eGf+ S + 
  PHY93_05565|PHY93_05565 101 LKEVNANMVVVATRGKHGIEGFFSSSLA 128
                              56778999**************999765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (147 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       615  (0.034302); expected 358.6 (0.02)
Passed bias filter:                      515  (0.0287244); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.42
# Mc/sec: 1046.43
//
Query:       PHY93_00185|PHY93_00185  [L=392]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00079   19.7   0.5     0.0024   18.1   0.5    1.8  1  POTRA_1   POTRA domain, FtsQ-type
  ------ inclusion threshold ------
      0.015   15.8   2.0      0.084   13.5   1.6    2.3  2  POTRA     Surface antigen variable number repeat


Domain annotation for each model (and alignments):
>> POTRA_1  POTRA domain, FtsQ-type
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.5   2.7e-07    0.0024       3      45 ..      22      64 ..      21      76 .. 0.90

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 2.7e-07
                             X-EEEEES-SS--HHHHHHHHHTTSTT-GGGS-HHHHHHHHHH CS
                  POTRA_1  3 ikqvevsGnkhlsseeiikalgiekgtslfsldleaieqrlek 45
                             +k+ve++Gnk++++e+ii+  +i+ g+ l   dl++i+++l +
  PHY93_00185|PHY93_00185 22 LKNVEITGNKRTKKEAIIQHGQIKIGQELSVEDLATIKENLGR 64
                             689*************************999999999999876 PP

>> POTRA  Surface antigen variable number repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   1.6   9.4e-06     0.084       4      51 ..      23      66 ..      21      85 .. 0.86
   2 ?    1.6   0.1     0.046   4.1e+02       2      24 ..      64      85 ..      63     111 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 9.4e-06
                             EEEEEES.SSS-HHHHHTTTSSSTTSBHCHHHHHHHHHHHHHHHHCTT CS
                    POTRA  4 kkinfeGnkktkdeelrrelelkegdvynpekleadkealksryanlG 51
                             k+++++Gnk+tk+e + +  ++k g+ ++ e+l + ke    ++++ G
  PHY93_00185|PHY93_00185 23 KNVEITGNKRTKKEAIIQHGQIKIGQELSVEDLATIKE----NLGRIG 66
                             89************************************....887777 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.046
                             EEEEEEEES.SSS-HHHHHTTTS CS
                    POTRA  2 kikkinfeGnkktkdeelrrele 24
                             +i++i++++   +kd +lr e+e
  PHY93_00185|PHY93_00185 64 RIGQIHIKNV-DFKDGVLRIEVE 85
                             799*****88.*****9998875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (392 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       493  (0.0274974); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.22s 00:00:00.73 Elapsed: 00:00:00.39
# Mc/sec: 3024.85
//
Query:       PHY93_00190|PHY93_00190  [L=361]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.8e-20   74.0   0.0    5.2e-20   72.5   0.0    1.8  2  GFO_IDH_MocA    Oxidoreductase family, NAD-binding Rossmann f
      5e-10   39.4   0.1    9.5e-10   38.5   0.1    1.5  1  GFO_IDH_MocA_C  Oxidoreductase family, C-terminal alpha/beta 


Domain annotation for each model (and alignments):
>> GFO_IDH_MocA  Oxidoreductase family, NAD-binding Rossmann fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.5   0.0   5.8e-24   5.2e-20       3     109 ..       9     119 ..       7     128 .. 0.94
   2 ?   -3.0   0.0       1.4   1.2e+04      30      59 ..     273     302 ..     262     308 .. 0.68

  Alignments for each domain:
  == domain 1  score: 72.5 bits;  conditional E-value: 5.8e-24
                              EEEETTSHH.HHHHHHHHHHTTTTE...EEEEEECSSHHHHHHHHHHTTHEEESSHHHHHTCT..TESEEEE-S-GGGHHHHHHHH CS
             GFO_IDH_MocA   3 vaiiGaGki.gskhlrplnesqrle...evvalldpdaeraeavaesfgveaysdleelladp..eidavivatpngtheelakaa 82 
                               ai+G+G+i  + h++++ ++ +++   e++a++d+ +er  +v    gv +y+d++ell+++  + d++ v t++  h+++ k a
  PHY93_00190|PHY93_00190   9 GAIVGFGFIsSKGHMPAYADRLKKYgdvEIIAICDICPERILDV--PVGVRFYTDYQELLSKEveHLDFLDVSTHAADHYKISKMA 92 
                              59*******8888999999999999*****************99..99**************9999******************** PP

                              HHTT-EEEEESSS-SSHHHHHHHHHHH CS
             GFO_IDH_MocA  83 leagkhvllEKPlattveeakelvela 109
                              le+g hvl+EKPl+t+++ea++l+++a
  PHY93_00190|PHY93_00190  93 LEKGLHVLCEKPLTTSIAEAEDLIQTA 119
                              ************************987 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 1.4
                              EEECSSHHHHHHHHHHTTHEEESSHHHHHT CS
             GFO_IDH_MocA  30 alldpdaeraeavaesfgveaysdleella 59 
                              a+l+++++      ++f+ ++ys +++ ++
  PHY93_00190|PHY93_00190 273 AILNSNESDLSSHKATFHTDFYSIISDWMD 302
                              567777777777777888888877666655 PP

>> GFO_IDH_MocA_C  Oxidoreductase family, C-terminal alpha/beta domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.5   0.1   1.1e-13   9.5e-10       1     103 [.     142     245 ..     142     254 .. 0.79

  Alignments for each domain:
  == domain 1  score: 38.5 bits;  conditional E-value: 1.1e-13
                              HHHHHTTTTSSEEEEEE.EEECBEEECHHHHCCGGSH...HCSTSHHHHTCHHHHHHH.HHHHTSEEEEEEEEE.SEEESCTCCSC CS
           GFO_IDH_MocA_C   1 KelIengklGevvsvdv.wtldtragaeakkrwkrrk...kksgGvlgdlgiHdiDll.qwLfGqppsvvaalgrmrqnaeaaede 81 
                              +e +e+gk+G+v+++++ ++++t+a   ++++  +r+     +gG+++d+g+H ++l+  wL G p+sv+a+ +  ++  ++ + e
  PHY93_00190|PHY93_00190 142 REVVESGKIGKVKAITLnTFRNTHAVGTKEWMPDWRRykeYSGGGIAMDHGSHSLYLTfEWLGGYPKSVTANSQ--NFSFPKYDTE 225
                              689*****************************99999999999*************983455556666666665..7777788888 PP

                              SEEEEEEEEEEETTEE.EEEEEE CS
           GFO_IDH_MocA_C  82 daavmsvlnlekgsge.vitles 103
                              d++    + +e++sg  +i+l++
  PHY93_00190|PHY93_00190 226 DNF---SAVYEFESGFaNIHLTW 245
                              888...35555555542555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (361 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       659  (0.0367561); expected 358.6 (0.02)
Passed bias filter:                      442  (0.0246528); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.41
# Mc/sec: 2666.32
//
Query:       PHY93_00195|PHY93_00195  [L=438]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.7e-93  312.1   0.0    5.4e-93  311.9   0.0    1.0  1  NAD_binding_5   Myo-inositol-1-phosphate synthase
    1.6e-30  105.6   0.0    3.4e-30  104.5   0.0    1.6  1  Inos-1-P_synth  Myo-inositol-1-phosphate synthase


Domain annotation for each model (and alignments):
>> NAD_binding_5  Myo-inositol-1-phosphate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  311.9   0.0     6e-97   5.4e-93       2     322 .]      14     419 ..      13     419 .. 0.98

  Alignments for each domain:
  == domain 1  score: 311.9 bits;  conditional E-value: 6e-97
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            NAD_binding_5   2 GvllvGlgGnngtTlvagvlankkglswetkeglkkanylGsvtqsstirlGkdeeegedvyvpikdllplvnpndlvfgGwDiss 87 
                               +l  G+ G++++Tl+agvla++kgl+++           Gs+tq+ +irlGk++e+   +   i++l+pl+n++++vfgGwDi +
  PHY93_00195|PHY93_00195  14 AILTPGM-GAVTSTLIAGVLATRKGLAKPI----------GSLTQMGKIRLGKRSEN---RSKLISELVPLANLDNIVFGGWDIYH 85 
                              58899*9.**********************..........**************965...8999********************** PP

                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            NAD_binding_5  88 lnlaeamerakvldkdlqeqlkpelekikplksvydkdfiaanqeeradnvlkgkskleqleqirkdireFkkknkldkvivlwta 173
                              +n++ea+ +akv+d++l+eq+++e+eki+p+ +v+d+++i++ ++e+++      +k+++++ + +d+r+F k+nk+++ +++w+a
  PHY93_00195|PHY93_00195  86 DNAYEAALKAKVVDRHLLEQVRDEMEKITPMSAVFDERYIKNINGENIKRFK---TKMDAADLLIQDMRNFIKQNKCSRAVIVWCA 168
                              ************************************************9997...79***************************** PP

                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxx....... RF
            NAD_binding_5 174 nTEryievipgvndtlenllkaikeneeeispstiyavAailegvpyingsPqntl.vpglvelAekkgvfiaGdDfKt....... 251
                              +TE y ++++ v+++l+++++++++n+++isps+iya+Aai+e v+y+ngsP+ ++ +p+l+elA +  v ++G+DfKt       
  PHY93_00195|PHY93_00195 169 STEAYNPIQA-VHTSLKSFEEGLRNNDPAISPSQIYAYAAIKERVAYVNGSPNVSVeIPALQELALEMSVCLGGSDFKTgqtlmkt 253
                              ****987665.5************************************************************************** PP

                              ...................................................................................... RF
            NAD_binding_5 252 ...................................................................................... 251
                                                                                                                    
  PHY93_00195|PHY93_00195 254 iiapglknrllgvegwfstnilgnrdglvlddpesfkskevskggvledilspeeypdlygnlfhkirieyypprgdnkegwdnid 339
                              ************************************************************************************** PP

                              ....................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            NAD_binding_5 252 ....................lLAaPlilDLvllveLaqrvevkkekkkefkklesvlsllsyflKaPlvskgtkvvnalfkQraal 317
                                                  +LAaP++lDL+l+++L+qr++++           +++++l+++lKaPl+++g+k+vn+l+ Q+ +l
  PHY93_00195|PHY93_00195 340 ivgwlgekmqikvdflckdsILAAPIVLDLALFIDLSQRAGMR-----------GIQEWLGFYLKAPLTKPGIKAVNDLSLQLLKL 414
                              *******************************************...........******************************** PP

                              xxxxx RF
            NAD_binding_5 318 enilR 322
                              en+lR
  PHY93_00195|PHY93_00195 415 ENTLR 419
                              ****9 PP

>> Inos-1-P_synth  Myo-inositol-1-phosphate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  104.5   0.0   3.8e-34   3.4e-30       1     109 []     247     359 ..     247     359 .. 0.98

  Alignments for each domain:
  == domain 1  score: 104.5 bits;  conditional E-value: 3.8e-34
                              SHHHHHHHHHHHHHHTT-EEEEEEEEEEE-HHHHHHTTSHHHHHHHHHHHHHHHHHHHSS--EEE........EEEEE-GGGTTEE CS
           Inos-1-P_synth   1 GqTklksvLaellverglkvksivslNilGnnDgknlseeerfksKkisKssvvddivkanelly....vdhevvikYvpylgDsK 82 
                              GqT++k+++a+ l++r l v+ ++s+NilGn+Dg++l+++e+fksK++sK  v++di++ +e+ +      h+++i+Y+p+ gD+K
  PHY93_00195|PHY93_00195 247 GQTLMKTIIAPGLKNRLLGVEGWFSTNILGNRDGLVLDDPESFKSKEVSKGGVLEDILSPEEYPDlygnLFHKIRIEYYPPRGDNK 332
                              9***********************************************************99988999977*************** PP

                              EEEEEEEEEEGGGEEEEEEEEEEEEH. CS
           Inos-1-P_synth  83 valdeieseiflggkntielkleceDS 109
                              + +d+i++ ++lg k++i++ + c+DS
  PHY93_00195|PHY93_00195 333 EGWDNIDIVGWLGEKMQIKVDFLCKDS 359
                              **************************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (438 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       404  (0.0225333); expected 358.6 (0.02)
Passed bias filter:                      370  (0.020637); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.39
# Mc/sec: 3368.68
//
Query:       PHY93_00200|PHY93_00200  [L=293]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
  ------ inclusion threshold ------
      0.078   12.2   0.0       0.15   11.3   0.0    1.4  1  ATPgrasp_ST  Sugar-transfer associated ATP-grasp


Domain annotation for each model (and alignments):
>> ATPgrasp_ST  Sugar-transfer associated ATP-grasp
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   8.3e-06      0.15     233     274 ..     229     270 ..     222     282 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 8.3e-06
              ATPgrasp_ST 233 akaaeklpglgylGwDivldeekgplllElNarpglaivqia 274
                              a++a+++++l y+G D  ++++++  l+  N+ p+   + ++
  PHY93_00200|PHY93_00200 229 AHLAARILELDYFGGDCIITNTGKMHLIDFNDWPSFRTCRND 270
                              455666888*************************99988765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (293 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       379  (0.0211389); expected 358.6 (0.02)
Passed bias filter:                      353  (0.0196888); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.34
# Mc/sec: 2559.05
//
Query:       PHY93_00205|PHY93_00205  [L=309]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.5e-12   46.1   0.9    6.5e-12   46.1   0.9    2.7  2  CDP-OH_P_transf  CDP-alcohol phosphatidyltransferase


Domain annotation for each model (and alignments):
>> CDP-OH_P_transf  CDP-alcohol phosphatidyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.1   0.9   3.6e-16   6.5e-12       1      66 []      43     111 ..      43     111 .. 0.91
   2 ?   -3.3   5.2      0.93   1.7e+04      21      21 ..     248     248 ..     113     292 .. 0.52

  Alignments for each domain:
  == domain 1  score: 46.1 bits;  conditional E-value: 3.6e-16
                              S-HHHHHHHHHHHHHHHHHGGGS-H.......HHHHHHHHHHHHHTTHHHHHHHHTT---HHHHHHHHHHH CS
          CDP-OH_P_transf   1 nlPnaiTllrlllsvlailllltyyp.....lvlailllliasltDalDGklARrlnqvstlGkllDslaD 66 
                              ++P ++++++l +++la +  ++++p     l++a ++l++++++D+ DG+lAR  nq++++G +lD ++D
  PHY93_00205|PHY93_00205  43 MTPTMLSITGLYIGLLASY--YYLRPlnnqaLFFAGFFLILSGVFDSADGQLARISNQSTKIGLVLDGICD 111
                              68**********9888885..5566699******************************777*********9 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 0.93
                              G CS
          CDP-OH_P_transf  21 l 21 
                              +
  PHY93_00205|PHY93_00205 248 F 248
                              0 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (309 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       786  (0.0438396); expected 358.6 (0.02)
Passed bias filter:                      394  (0.0219756); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.19s 00:00:00.69 Elapsed: 00:00:00.36
# Mc/sec: 2552.06
//
Query:       PHY93_00210|PHY93_00210  [L=254]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.6e-11   43.1   9.2    4.4e-11   42.9   9.2    1.0  1  LPG_synthase_TM  Lysylphosphatidylglycerol synthase TM region


Domain annotation for each model (and alignments):
>> LPG_synthase_TM  Lysylphosphatidylglycerol synthase TM region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.9   9.2   2.4e-15   4.4e-11      68     301 .]       6     240 ..       3     240 .. 0.75

  Alignments for each domain:
  == domain 1  score: 42.9 bits;  conditional E-value: 2.4e-15
          LPG_synthase_TM  68 rrllrayliglfvnnvtPgalg.Gevvrayllkrkegvslskalasvvverlldllalvllgllall.llggllaegaa...vlll 148
                              r  ++++ ++++ nn+tP+  + Ge+++ ++l +   ++  +alas++   ++ lla ++ ++++ l l+  + +++ +    ll+
  PHY93_00210|PHY93_00210   6 RIFTKLTIVNIAWNNLTPFLKVgGEPLKYMMLLK--YLPQREALASTINYNIIHLLATGISFIVTSLlLVVFYQMPR-EirySLLI 88 
                              566788999999******96666***********..89999999999998888877666555554440444444444.34445555 PP

          LPG_synthase_TM 149 lalallllavlalllllllrrrlarlarvlkrlarllarfarklasakr.klvlasprrlllafllslliwllealtlylllralg 233
                              +al++ l +  ++  ll++ +     ++   r++r    +  kla++++ +++ ++p+++ll++++ +++  +e+l +y+ ++ ++
  PHY93_00210|PHY93_00210  89 FALLFSLSLYSGF--LLMRVKSVYVSKNYRYRFVRT-TIVNLKLAFRRIlNFYKNKPKAFLLSLFFDVVARFIEGLSFYFGFYLIK 171
                              5555555444444..444444444444444444443.455555656555789999******************************* PP

          LPG_synthase_TM 234 vdvslalll.lillaltlvgalpplPgGlGvrEaalalllall.GvsaaealaaallyrlitlylllllG 301
                               ++s++++  l +  + + ++ +++P  +G+rE ++ + +  +  v++   l+a++lyr++ + +++++G
  PHY93_00210|PHY93_00210 172 HPISFLSSSlLDVGRTFVDTIFFFIPYQVGSREEGVHFFMEKVlVVNSKGFLTAVFLYRFVEI-FWIFIG 240
                              *******99666666666688899********9999777776669*****************9.999887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (254 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       805  (0.0448993); expected 358.6 (0.02)
Passed bias filter:                      281  (0.0156729); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.20s 00:00:00.63 Elapsed: 00:00:00.35
# Mc/sec: 2159.55
//
Query:       PHY93_00215|PHY93_00215  [L=225]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.3e-17   64.4   0.1    2.2e-17   63.7   0.1    1.5  1  HAD_2           Haloacid dehalogenase-like hydrolase
    1.7e-10   40.8   0.0    3.2e-10   39.9   0.0    1.5  1  Hydrolase_like  HAD-hyrolase-like
      9e-06   26.1   0.0    1.3e-05   25.6   0.0    1.6  1  Hydrolase       haloacid dehalogenase-like hydrolase


Domain annotation for each model (and alignments):
>> HAD_2  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.7   0.1   3.6e-21   2.2e-17      81     177 ..     105     200 ..       7     201 .. 0.81

  Alignments for each domain:
  == domain 1  score: 63.7 bits;  conditional E-value: 3.6e-21
                    HAD_2  81 ydgvkelLeeLkeagyklgivTsksreaveekleqlgiesyFdvivtsedvekkKPdpeviekaleklklkkeeviyvGDsp.tDi 165
                              +   +++Le+L + +y+lgi+++ s  ++   l+++ + s+F +++ s +v+ +KP+p++++ alek k +++++ +vGD++ +Di
  PHY93_00215|PHY93_00215 105 LRRNNKILEQL-NGQYQLGIISNFS-GNLATILNEFSLASHFRFVLDSYHVGSSKPNPAIFNLALEKCKSTSKDICFVGDNIeRDI 188
                              4555789****.9********9976.567889****************************************************** PP

                    HAD_2 166 eaakkagikvia 177
                                a ++g+k+i 
  PHY93_00215|PHY93_00215 189 NPANALGMKTIL 200
                              **********97 PP

>> Hydrolase_like  HAD-hyrolase-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.9   0.0   5.4e-14   3.2e-10       3      48 ..     156     201 ..     155     216 .. 0.96

  Alignments for each domain:
  == domain 1  score: 39.9 bits;  conditional E-value: 5.4e-14
                              STTSSHHHHHHHHHH---GGGEEEEES-TTTHHHHHHHCT-EEEEE CS
           Hydrolase_like   3 gKPepemydfalevlgsdpeevlmiGDrlatDiagAnnaGwksvLV 48 
                              +KP+p ++  ale+++s++++++++GD+++ Di  An+ G+k++L+
  PHY93_00215|PHY93_00215 156 SKPNPAIFNLALEKCKSTSKDICFVGDNIERDINPANALGMKTILI 201
                              6*******************************************97 PP

>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.6   0.0   2.2e-09   1.3e-05     127     209 ..     112     194 ..       4     195 .. 0.83

  Alignments for each domain:
  == domain 1  score: 25.6 bits;  conditional E-value: 2.2e-09
                              HHHHHHTTE.EEEEEESSEHHHHHHHHHHTT.GGGESEEEEHHCESSTTTSHHHHHHHHHHHTSTGGGEEEEESSHH.HHHHHHHT CS
                              xxxxxxxxx.xxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxx RF
                Hydrolase 127 vasLkaagi.evvlltgdnpetaeraanqlG.ddyfdaviasdietvakpspegkvaaireLqgkpeevamVGDgvn.DaaalaaA 209
                              +++L+  g  +++++++ +  +   ++n++  + +f +v++s+ ++ +kp+p +++ a+++++   +++++VGD++  D+  + a 
  PHY93_00215|PHY93_00215 112 LEQLN--GQyQLGIISNFS-GNLATILNEFSlASHFRFVLDSYHVGSSKPNPAIFNLALEKCKSTSKDICFVGDNIErDINPANAL 194
                              55555..444788888544.4555599999999********************************************999877765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (225 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       496  (0.0276647); expected 358.6 (0.02)
Passed bias filter:                      337  (0.0187964); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.45u 0.20s 00:00:00.65 Elapsed: 00:00:00.36
# Mc/sec: 1853.78
//
Query:       PHY93_00220|PHY93_00220  [L=234]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-09   38.0   0.0    1.9e-09   37.5   0.0    1.2  1  NTP_transferase  Nucleotidyl transferase
    2.5e-08   34.4   0.0    3.1e-08   34.2   0.0    1.1  1  NTP_transf_3     MobA-like NTP transferase domain
      0.001   18.8   0.0      0.013   15.3   0.0    2.3  3  IspD             2-C-methyl-D-erythritol 4-phosphate cytidyly
  ------ inclusion threshold ------
      0.057   13.3   0.1       0.16   11.8   0.0    1.8  2  CTP_transf_3     Cytidylyltransferase


Domain annotation for each model (and alignments):
>> NTP_transferase  Nucleotidyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.5   0.0   4.2e-13   1.9e-09       1     218 [.       3     206 ..       3     233 .. 0.81

  Alignments for each domain:
  == domain 1  score: 37.5 bits;  conditional E-value: 4.2e-13
                              EEEEE--S--GGGTTCCTTSSGGGSEETTETETTHHHHHHHHHTT-SEEEEEEETTTHHHHHHHHTTSGGGTSEEEEEEESS--BG CS
          NTP_transferase   1 kavILaGGsGtRLwPLtrtlakklvpvlgkerliqatlsrlansgieeiivvltqehsflveeqlkegskfgvevlialepegkgt 86 
                              ka ILa G G R+  +  + +k+ v + g+ +l++ tl++l  +++++i ++ ++ ++++  + l   s  g  v++ +++ +  +
  PHY93_00220|PHY93_00220   3 KAAILAAGDGLRIKSI--APYKPIVKINGT-PLLELTLKNLHFKNFKNICIIFNEAEKEMDLSLLPGLSSPG--VNYFFKSTPS-S 82 
                              689**********955..78*********9.*************************************9988..8898888776.6 PP

                              GHHHHHTHHHHTTSSE..EEEEETTEEEEST...THHHHHHHHHTHSSTTSEEEEEEESS-CTTSEEEEECTTSBEEEEECS-SSH CS
          NTP_transferase  87 AdAvalaaelledeksdelvlvLggDhlikd...ayeeavkkaiekaakgtvtfgivpveeateyGvieadeegrverfvEKPkea 169
                               ++++ +a+ le ++ ++l++ + + ++i     ++ +++   ++++++ +vt +i+++++ t     +++e+g +++f+  P e+
  PHY93_00220|PHY93_00220  83 MHSLYEVAQKLELKSGEHLFVSMVDSIVIPLeaqNFHQFCLTLKSDESALLVTSFIEDEKPLT----LKINEQGYITEFQ-CPIED 163
                              688888888888888767788888888887667789999999999999889999999999998....8***********9.58887 PP

                              SHCSEECCSEEEEETTHHHHHHHCCHHHTTSSCHHHHHHHHHHHTTEEE CS
          NTP_transferase 170 kaselassGiYvfnsevllflakdleelkrgedeitdilpkaleegkva 218
                                  l+ sG+Y+f ++++  l++     ++g++++ ++l +++++  ++
  PHY93_00220|PHY93_00220 164 G--VLITSGVYYFSENIFPLLLE---MINEGQTKMRNFLTELVKHN-HK 206
                              7..79****************76...66666677777777776664.33 PP

>> NTP_transf_3  MobA-like NTP transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.2   0.0   6.8e-12   3.1e-08       1     144 [.       4     185 ..       4     205 .. 0.71

  Alignments for each domain:
  == domain 1  score: 34.2 bits;  conditional E-value: 6.8e-12
                              EEEEEESS-TTTTT...THHHHCCCCCCHHHHHHHHHCTT.-CEEEEECSHC......HHHHHHTTCTS-EEE-TTSS-SHHHHHH CS
             NTP_transf_3   1 aviLAGGrSsRmgg...dKallplggkpllervldalraagvdevvvvggde......evlaalarlgvrvvededpgkgplasla 77 
                              a+iLA+G + R ++    K+ ++++g+plle +l++l+  ++++++++ ++       ++l+ l ++gv ++  + p    ++sl+
  PHY93_00220|PHY93_00220   4 AAILAAGDGLRIKSiapYKPIVKINGTPLLELTLKNLHFKNFKNICIIFNEAekemdlSLLPGLSSPGVNYFFKSTP--SSMHSLY 87 
                              68***********98889********************999*******99962334444444667889999999865..5777888 PP

                              HHHHHH...SSSCEEEEETT-TT..--HHHHHHHHHCHHHHTSSEEEEESSSEE...........................EECCE CS
             NTP_transf_3  78 aalraaa..dadavlvlacDmPl..ltpelverllaaaaasgadvvvptyeger...........................ghpll 132
                                +++++  + ++++v ++D +   l+++  ++++  +++++++ +v ++ +++                               +
  PHY93_00220|PHY93_00220  88 EVAQKLElkSGEHLFVSMVDSIVipLEAQNFHQFCLTLKSDESALLVTSFIEDEkpltlkineqgyitefqcpiedgvlitSGVYY 173
                              8887755559**********888224555588999888888888877776655545666666666666666665555555333335 PP

                              EEGGGHHHHHHH CS
             NTP_transf_3 133 frarllsalaal 144
                              f+ ++++ l+++
  PHY93_00220|PHY93_00220 174 FSENIFPLLLEM 185
                              555555555555 PP

>> IspD  2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   2.8e-06     0.013       4      59 ..       5      60 ..       3      71 .. 0.85
   2 ?   -2.1   0.0       0.6   2.7e+03      42      71 ..     104     134 ..      88     136 .. 0.75
   3 ?    0.4   0.0       0.1   4.5e+02     202     220 ..     214     232 ..     198     233 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 2.8e-06
                             EEECTTSSCTT-SSS-.GGGSEETTEEHHHHHHHHHHCTTTEEEEEEEE-GGGHHHH CS
                     IspD  4 vipAAGsGkRmkaglp.Kqflelkgqtllehtvdallaskavdkivvvvseddteef 59
                              i AAG G R+k+  p K  ++++g +lle t++ l   k+ ++i ++ +e + e  
  PHY93_00220|PHY93_00220  5 AILAAGDGLRIKSIAPyKPIVKINGTPLLELTLKNLHF-KNFKNICIIFNEAEKEMD 60
                             689*********99986889**************9876.999*****9999885544 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 0.6
                              TTEEEEEEEE-GGGHHHHH.HHHGGCCEEEE CS
                     IspD  42 kavdkivvvvseddteefe.qllldksiqlv 71 
                              + vd iv+ ++++++++f  +l +d+s+ lv
  PHY93_00220|PHY93_00220 104 SMVDSIVIPLEAQNFHQFClTLKSDESALLV 134
                              4789999999999988875256666666666 PP

  == domain 3  score: 0.4 bits;  conditional E-value: 0.1
                              TG----SHHHHHHHHHHHH CS
                     IspD 202 dnlKittpeDlalAeailr 220
                              + l i +peD+ +Aea+l+
  PHY93_00220|PHY93_00220 214 KTLDIDRPEDIHSAEAFLK 232
                              468899**********986 PP

>> CTP_transf_3  Cytidylyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   3.6e-05      0.16      14      94 ..      20     103 ..      14     143 .. 0.84
   2 ?   -1.4   0.0       0.4   1.8e+03     116     194 ..     187     217 ..     171     232 .. 0.47

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 3.6e-05
                              TTGGGSEETTEEHHHHHHHHHHHTTTTSE.EEEEES-HHHHHHHHHTT...SEEEE--TTCSSHHHHHHHHHHHHTTT.TTSEEE CS
             CTP_transf_3  14 pgKnlldlggkpliayvleaalkskafek.vivaTDseeiknvakefg...asvlvtrsslesdterflevvkaflmseneeiiv 94 
                              p K++ +++g pl++ +l+++   k+f++ +i+    e+ +++    g    +v+ + +s++s +++++ev ++++ +  e++ v
  PHY93_00220|PHY93_00220  20 PYKPIVKINGTPLLELTLKNLHF-KNFKNiCIIFNEAEKEMDLSLLPGlssPGVNYFFKSTPSSMHSLYEVAQKLELKSGEHLFV 103
                              67******************998.999994555566666667665555558899999999**********999999987777544 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.4
                              HHSTTSSEEEEEEETTSHHHHTSTTSTEEEETTTSBEEEEESSESSEEHHHHHCTSTTTSEEEEEEEEEEHHHHHHHHH CS
             CTP_transf_3 116 kenqedylstlvkkvgkeeevlnandlkvllddagkalyfeesvipyireeplelsrrlylshagiytfrkeqplkelv 194
                              +e q +   +l + v+  +++  +++lk+                                                l+
  PHY93_00220|PHY93_00220 187 NEGQTKMRNFLTELVKHNHKIKIFESLKT------------------------------------------------LD 217
                              44433222223333333334444444443................................................33 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (234 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       542  (0.0302304); expected 358.6 (0.02)
Passed bias filter:                      439  (0.0244855); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.36
# Mc/sec: 1968.93
//
Query:       PHY93_00225|PHY93_00225  [L=452]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
   4.7e-101  338.4   0.0   5.9e-101  338.1   0.0    1.0  1  Aminotran_3  Aminotransferase class-III
  ------ inclusion threshold ------
      0.047   13.5   0.0        0.1   12.4   0.0    1.5  1  VPS13_C      Vacuolar-sorting-associated 13 protein C-termina


Domain annotation for each model (and alignments):
>> Aminotran_3  Aminotransferase class-III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  338.1   0.0  6.6e-105  5.9e-101      11     403 ..      46     440 ..      40     443 .. 0.96

  Alignments for each domain:
  == domain 1  score: 338.1 bits;  conditional E-value: 6.6e-105
                              EEEEEEEBTEEEETTS-EEEESSHHHHTTTT-BT-HHHHHHHHHHHTT-S---TTTCEEHHHHHHHHHHHHHCT-..SEEEEESSH CS
              Aminotran_3  11 lvitkaeGvyltdvdgkrylDlvssiavvnlGhahPkvvkavkeqaaklshvsfgaltnepalklaekllklapkgldkvflansG 96 
                              +v++ a+G++++dvdg+++lD++++i v+ lGh+hPk vka+ +q+ak+s  s   +t+e+ l++ + + ++  ++l++v l  sG
  PHY93_00225|PHY93_00225  46 IVVESARGNIIKDVDGNEFLDIIGGIGVNGLGHSHPKFVKAITDQVAKSSVGS---FTTESRLEFFKLIDSVKLGNLNRVQLYSSG 128
                              899**********************************************7666...9************9999999********** PP

                              HHHHHHHHHHHHHHHHHTSHCTT-EEEEETTT---SSHHHHHHSS--TTTTTTCTTB-TSEEEE-TTBGGGTB-HHHHHHHHHHHH CS
              Aminotran_3  97 seAvetAlKlarkyarekkatektkiiafkgafHGrtlgalsvtgskkkyktlfgpflpevvrlkypdeevlkeneeeeaalleel 182
                              seAve+Al+la++      +t k ++++f+g+fHG+t+gals+ gs    k+ +gp +p+v  ++y+ ++++  n     + + +l
  PHY93_00225|PHY93_00225 129 SEAVESALRLAKN------KTGKWEMVSFSGGFHGKTHGALSLMGS--DFKKSYGPYAPGVNIIPYANCYRCSLNTTYPGCGMACL 206
                              *************......9**************************..9***************************9999999998 PP

                              HHHH....CHTCCCEEEEEE-SCETTTTSEB--CCHHHHHHHHHHHHT-EEEEE-TTTTTTTTSSSSGGGGCTS--SEEEE-GGGG CS
              Aminotran_3 183 eale....kkkkdevaAvivEpiqgegGvvvaspeflaklrelckkhdvllivDEvqtGfGrTGklfAlehagvspDlmtlaKalt 264
                              e  +    + +   vaA+ivEp+qg +G +++++efl ++++++++ d+l+i DE  tGfGrTG+++++e+ gv pD+mt++K  +
  PHY93_00225|PHY93_00225 207 EVGRshlkANIGSGVAAFIVEPVQGTAGNIIPPKEFLPGVKAIAQEFDALMISDEMITGFGRTGTFWGAEQSGVIPDIMTIGKQFG 292
                              87655555889999************************************************************************ PP

                              TTSS-EEEEEEHHHHTTS-TTS...B--TTTT-HHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHCTT-TTEEEEEEETTE CS
              Aminotran_3 265 gGlplsavlataevmqalapgs...hgsTfgGnplacavalavleiieeekllenaqelgaalkegLeelqkkyevikevRgkGlm 347
                              gG+p+s v+ t+++ ++   g+    +s++gGnpla a+a+a+ +ii ee+l+en +++ga++ e+++++ ++y +++evRg+Glm
  PHY93_00225|PHY93_00225 293 GGFPVSGVVSTDQLIKVRPWGNpsgSSSSYGGNPLASAAARASTQIIIEEHLVENSKKMGAYFLEKMKPFTDQYSFVGEVRGVGLM 378
                              ***************998777777799*********************************************************** PP

                              EEEEEBCCCETTC.......HHHHHHHHHCTEE-EEETTTEEEE---TT--HHHHHHHHHHHH CS
              Aminotran_3 348 iaielkeeaevke.......keilkkakekGvlilsaGdnvirllppliitdeeidelleilk 403
                              ++ie+++++++ke       + i+++++++G+l++    ++ r+ p+ +i  + id+++ i++
  PHY93_00225|PHY93_00225 379 LGIEMVKDKKTKEplsknatNWIFTEFLNQGLLTMAYA-SSFRIQPAMTIDRDTIDNIVAIMQ 440
                              **********999******977***********88888.9******************99987 PP

>> VPS13_C  Vacuolar-sorting-associated 13 protein C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   1.1e-05       0.1     108     138 ..     214     247 ..     211     254 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 1.1e-05
                  VPS13_C 108 fnnissGvkdlfyePiqglvkg...peefgegla 138
                                ni+sGv++++ eP+qg   +   p+ef+ g++
  PHY93_00225|PHY93_00225 214 KANIGSGVAAFIVEPVQGTAGNiipPKEFLPGVK 247
                              579*****************99999999999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (452 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       317  (0.0176809); expected 358.6 (0.02)
Passed bias filter:                      296  (0.0165096); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.37
# Mc/sec: 3661.56
//
Query:       PHY93_00230|PHY93_00230  [L=42]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (42 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       156  (0.00870099); expected 358.6 (0.02)
Passed bias filter:                      115  (0.00641419); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.34u 0.20s 00:00:00.54 Elapsed: 00:00:00.37
# Mc/sec: 342.29
//
Query:       PHY93_05570|PHY93_05570  [L=488]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (488 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       683  (0.0380947); expected 358.6 (0.02)
Passed bias filter:                      486  (0.0271069); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.39
# Mc/sec: 3755.60
//
Query:       PHY93_00235|PHY93_00235  [L=249]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.1e-48  162.7   0.1    6.3e-48  162.4   0.1    1.1  1  YkuD_2    L,D-transpeptidase catalytic domain


Domain annotation for each model (and alignments):
>> YkuD_2  L,D-transpeptidase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  162.4   0.1   3.5e-52   6.3e-48       7     167 ..      93     249 .]      88     249 .] 0.95

  Alignments for each domain:
  == domain 1  score: 162.4 bits;  conditional E-value: 3.5e-52
                   YkuD_2   7 kealekalkgleklkkkkkekkkltiiDfskpStekRlfviDlkkkkllletlvahGknsgen...latkFsneegSkksslGfyk 89 
                              k++l k l+ ++k k+  k+k+ ++iiDf+++ +++R+++iD++++++  + l ahGkns+ +   +at Fsn++gS++ss Gfy+
  PHY93_00235|PHY93_00235  93 KSLLAKTLNYFDKNKAVIKNKNFIAIIDFKQHNSKERFYIIDMQSGHV-ERYLTAHGKNSDPDydgYATIFSNTTGSEMSSQGFYL 177
                              67788999999999999999988***********************99.8999********988899******************* PP

                   YkuD_2  90 tgetykgkhGlslrLeGlekgiNdnAreRaivlHgadyvseefikklgrlgrSlGCpavseelakkiiellkegsllf 167
                              t+ety+g+hGlsl L+Gl+++ N+nAr+Raiv+Hga+yv++      +++grS+GCpa+  +++ ++i+++k+g l++
  PHY93_00235|PHY93_00235 178 TAETYQGSHGLSLALDGLSTT-NSNARSRAIVIHGATYVTPG-----SKIGRSWGCPALDMRYYVEVINQIKNGVLIY 249
                              ********************9.*****************986.....579************************8876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (249 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       620  (0.0345808); expected 358.6 (0.02)
Passed bias filter:                      466  (0.0259914); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.20s 00:00:00.65 Elapsed: 00:00:00.37
# Mc/sec: 2036.02
//
Query:       PHY93_00240|PHY93_00240  [L=167]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.7e-40  137.7   0.1    3.3e-40  137.4   0.1    1.1  1  PBP       Phosphatidylethanolamine-binding protein


Domain annotation for each model (and alignments):
>> PBP  Phosphatidylethanolamine-binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  137.4   0.1   1.9e-44   3.3e-40       5     132 .]      27     167 .]      23     167 .] 0.93

  Alignments for each domain:
  == domain 1  score: 137.4 bits;  conditional E-value: 1.9e-44
                              GG.......CSBGGS-EEEEES--TTSSEEEEEEEETTSCCTCTTEEEEEEEEEETTSSEE-TTC..........EE-B-TTSSCC CS
                      PBP   5 ky.......egentsPplswsdvpegtksyalvviDpDapkvsetflHwvvtnipasvtslpega..........vqgknslgees 73 
                              +y       +g+n+sPpl+w+++p+gtks+a++v DpDap++ + ++Hw v nipa+ ++++ega          +++ +++g+  
  PHY93_00240|PHY93_00240  27 NYvfsghgcDGKNISPPLEWDGAPSGTKSFAVTVFDPDAPTDHG-WWHWAVLNIPANIHKIEEGAsnegrlplnaIEVVTDFGD-- 109
                              555556666899****************************9999.******************999999999999999999999.. PP

                              CCS---B--STTS..EEEEEEEEEESSSG--BGSS-SHHHHHHHHCTTEEEEEEEEEEE CS
                      PBP  74 esgYlgpcPpkgdgkHrYvfllyaldvealdlkagftraelgaaiaghvlakatlagnY 132
                               ++Y+gpcPpkgd++HrYvf++yal+ e+ld++++ + + ++++i+++++aka+ +++Y
  PHY93_00240|PHY93_00240 110 -AHYGGPCPPKGDKPHRYVFTVYALKKEKLDVNKKLKAESIKKNIEENSIAKASFTVKY 167
                              .9***********99********************999******************998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (167 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       603  (0.0336327); expected 358.6 (0.02)
Passed bias filter:                      415  (0.0231469); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 1253.98
//
Query:       PHY93_00245|PHY93_00245  [L=317]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (317 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       376  (0.0209716); expected 358.6 (0.02)
Passed bias filter:                      344  (0.0191868); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 2342.56
//
Query:       PHY93_00250|PHY93_00250  [L=73]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (73 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       284  (0.0158403); expected 358.6 (0.02)
Passed bias filter:                      249  (0.0138881); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.20s 00:00:00.58 Elapsed: 00:00:00.37
# Mc/sec: 596.68
//
Query:       PHY93_00255|PHY93_00255  [L=170]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (170 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       347  (0.0193541); expected 358.6 (0.02)
Passed bias filter:                      287  (0.0160076); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.18s 00:00:00.60 Elapsed: 00:00:00.36
# Mc/sec: 1432.38
//
Query:       PHY93_00260|PHY93_00260  [L=392]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (392 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       596  (0.0332422); expected 358.6 (0.02)
Passed bias filter:                      373  (0.0208043); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.20s 00:00:00.71 Elapsed: 00:00:00.37
# Mc/sec: 3137.64
//
Query:       PHY93_00265|PHY93_00265  [L=159]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    2.4e-23   82.2   0.4    3.2e-23   81.8   0.4    1.2  1  HSP20       Hsp20/alpha crystallin family
      6e-10   38.5   0.0    9.2e-10   37.9   0.0    1.3  1  ArsA_HSP20  HSP20-like domain found in ArsA
  ------ inclusion threshold ------
       0.12   13.4   1.5       0.25   12.4   0.4    2.1  2  CS          CS domain


Domain annotation for each model (and alignments):
>> HSP20  Hsp20/alpha crystallin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   81.8   0.4   5.3e-27   3.2e-23       1     101 [.      58     159 .]      58     159 .] 0.96

  Alignments for each domain:
  == domain 1  score: 81.8 bits;  conditional E-value: 5.3e-27
                              E--SSEEEEEEEEE-TT--CCCEEEEEETTEEEEEEE--....---TT----SS---EEEEEE--STTB-TTT-EEEEETTEEEEE CS
                    HSP20   1 dikeeeeefevkldvpglkkeelkvkvednrvlvkgehe..eeeedekglikerssrkFsrkftLPenvdadkvkaslkdGvLtvt 84 
                              di+e+++++ + +d+pg+k +++ ++  +n++++kge++   e++de +l  ers+++F+r +   + v+++++ka+lk+GvL+v+
  PHY93_00265|PHY93_00265  58 DIREKDNKYLLDADLPGMKDSDISIDFYNNTLTIKGEKKseLETKDEGYLCVERSYGSFQRDIPFEDAVNEESIKAELKNGVLHVE 143
                              799************************************8778999999************************************* PP

                              EEBSS--..-------- CS
                    HSP20  85 vpkkepekkkkerkiqi 101
                              + kke++++ + rkiqi
  PHY93_00265|PHY93_00265 144 LTKKEKAPE-THRKIQI 159
                              *****9976.9****98 PP

>> ArsA_HSP20  HSP20-like domain found in ArsA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.9   0.0   1.5e-13   9.2e-10       1      63 []      63     144 ..      63     144 .. 0.98

  Alignments for each domain:
  == domain 1  score: 37.9 bits;  conditional E-value: 1.5e-13
               ArsA_HSP20   1 ddeyvlkldLPfvdkeeidlsrsgdeLtIkig....................nfrRqitLPsvlarkevtsAkfedgvLeIrF 63 
                              d++y l++dLP++++++i++   +++LtIk +                    +f+R i+  + ++++ + +A++++gvL++++
  PHY93_00265|PHY93_00265  63 DNKYLLDADLPGMKDSDISIDFYNNTLTIKGEkkseletkdegylcversygSFQRDIPFEDAVNEESI-KAELKNGVLHVEL 144
                              799****************************************************************99.**********986 PP

>> CS  CS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.0      0.68   4.1e+03      56      66 ..       3      13 ..       2      28 .. 0.50
   2 ?   12.4   0.4   4.2e-05      0.25      16      76 .]      70     146 ..      55     146 .. 0.83

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.68
                             BETTTEEEEEE CS
                       CS 56 Idpeesswtie 66
                             I+p++s+ t+ 
  PHY93_00265|PHY93_00265  3 IVPKKSTSTVP 13
                             45555555543 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 4.2e-05
                              EE-TTCTTTTTCEEEEEETTEEEEEE.TSCEEEEECE.................BSS-BETTTEEEEEETTEEEEEEEB CS
                       CS  16 iyvkkvnikkkdvkvefkerslkvki.gkeklliege.................LfgpIdpeesswtieskkveitLkK 76 
                                ++++  k +d++++f +++l++k  +k +l  ++e                 + + ++ e+ +  +++  +++ L+K
  PHY93_00265|PHY93_00265  70 ADLPGM--KDSDISIDFYNNTLTIKGeKKSELETKDEgylcversygsfqrdipFEDAVNEESIKAELKNGVLHVELTK 146
                              567777..99***************8444444444449************************************99998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (159 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       559  (0.0311785); expected 358.6 (0.02)
Passed bias filter:                      410  (0.022868); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.40u 0.19s 00:00:00.59 Elapsed: 00:00:00.34
# Mc/sec: 1405.76
//
Query:       PHY93_00270|PHY93_00270  [L=176]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    0.00019   21.6   0.0    0.00038   20.7   0.0    1.5  1  Glyoxalase    Glyoxalase/Bleomycin resistance protein/Dioxyge
  ------ inclusion threshold ------
      0.032   14.4   0.0      0.044   14.0   0.0    1.2  1  Glyoxalase_5  Hydroxyphenylpyruvate dioxygenase, HPPD, N-term
      0.089   13.6   0.0       0.26   12.1   0.0    1.7  1  Glyoxalase_6  Glyoxalase-like domain


Domain annotation for each model (and alignments):
>> Glyoxalase  Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.7   0.0   6.3e-08   0.00038       7     126 ..      41     153 ..      33     155 .. 0.78

  Alignments for each domain:
  == domain 1  score: 20.7 bits;  conditional E-value: 6.3e-08
                              EEESHHHHHHHHHHHHHTSEEEEEEEEEESTEEEEEEEEETTTSEEEEEE.EECCTTSCTHHCCBSCTSEEEEEEEEEHCHHHHHH CS
               Glyoxalase   7 llvgdleksldFYtkvLGfklvkktdnteeteglriaffhaggghielvl.neapsgaakhvkkieetvhhvafialdvedvgkal 91 
                              l+v+ ++++ldFY+k++G+k++  +     +    +  + +g+ ++++ + ++  + + +++      +  +  i+l  ed +k +
  PHY93_00270|PHY93_00270  41 LYVNMASAALDFYQKAFGAKVLVSIK--DDKNRIVHSEILIGKARVMISDeFPEMDCYSPRH-----LGGTTSGITLFFEDSDKIF 119
                              79*********************999..4445555555566666666555055555555555.....4667888888888888999 PP

                              HHHHHTTGEEEEEEECHHCTEEEEEEEEETTSEEE CS
               Glyoxalase  92 drlkeagvkvvaepgrhyfgalysfyfrDpdGill 126
                              +++ e g +  +++++ + g++ +  + Dp+G+ +
  PHY93_00270|PHY93_00270 120 KQAIESGAQELRKVEDLFCGDRGGK-IVDPFGHQW 153
                              9999999999999999999999999.999999987 PP

>> Glyoxalase_5  Hydroxyphenylpyruvate dioxygenase, HPPD, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   7.3e-06     0.044       3     101 ..      33     132 ..      31     137 .. 0.83

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 7.3e-06
             Glyoxalase_5   3 nPlGldGfefvefaapeaealeelfeklGftavarhrskdvtl.yrqGginfilneepdsaaakfarehGpsacalafrvkdakka 87 
                              n +G + + +v++a+ + +  ++ f +  + ++   +++ v+     G+  +++ +e   +  +  r+ G +++++++ ++d++k+
  PHY93_00270|PHY93_00270  33 NYAGATPYLYVNMASAALDFYQKAFGAKVLVSIKDDKNRIVHSeILIGKARVMISDEFPEMDCYSPRHLGGTTSGITLFFEDSDKI 118
                              667777788888888888888888888888888888888886524578899999999999998889999***************** PP

             Glyoxalase_5  88 yeralekGakpvek 101
                              +++a+e+Ga+ ++k
  PHY93_00270|PHY93_00270 119 FKQAIESGAQELRK 132
                              *********99876 PP

>> Glyoxalase_6  Glyoxalase-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   4.4e-05      0.26       9     104 ..      46     153 ..      40     156 .. 0.69

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 4.4e-05
             Glyoxalase_6   9 paalaaFwaaalgwevereeaaledpegvgpaaedaatllfqrvpe...................paknrvHldlavedldaevar 75 
                              + a+ +F+++a+g +v       +d + +      +  +l++++++                   +      + l  ed d+  ++
  PHY93_00270|PHY93_00270  46 ASAALDFYQKAFGAKVLVSI---KDDKNRIV----HSEILIGKARVmisdefpemdcysprhlggT---TSGITLFFEDSDKIFKQ 121
                              56777888888888887776...22222222....2355555555555555556877776654432...23445555999****** PP

             Glyoxalase_6  76 lvalGArvlreprdgthgr...vlaDPeGneF 104
                              +++ GA++lr+ +d   g+    + DP G+++
  PHY93_00270|PHY93_00270 122 AIESGAQELRKVEDLFCGDrggKIVDPFGHQW 153
                              **************9888889999*****986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (176 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       353  (0.0196888); expected 358.6 (0.02)
Passed bias filter:                      328  (0.0182944); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.40u 0.24s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 1353.32
//
Query:       PHY93_00275|PHY93_00275  [L=435]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.4e-38  132.8   0.1    2.7e-34  119.0   0.1    2.3  2  CCP_MauG        Di-haem cytochrome c peroxidase
     0.0041   18.2   0.0        5.9    8.1   0.0    2.8  2  Cytochrom_C     Cytochrome c
     0.0047   16.9   0.0        3.9    7.5   0.0    2.4  2  Cytochrome_C7   Cytochrome c7 and related cytochrome c
     0.0058   16.3   0.5          1    9.2   0.1    2.5  2  Paired_CXXCH_1  Doubled CXXCH motif (Paired_CXXCH_1)
  ------ inclusion threshold ------
        0.1   13.2   0.1         44    4.8   0.0    3.6  3  PSCyt1          Planctomycete cytochrome C
       0.11   12.9   0.8       0.17   12.2   0.0    1.7  2  DUF1924         Domain of unknown function (DUF1924)


Domain annotation for each model (and alignments):
>> CCP_MauG  Di-haem cytochrome c peroxidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  119.0   0.1   9.1e-38   2.7e-34       3     149 ..      53     259 ..      51     260 .. 0.92
   2 !   11.6   0.0   0.00011      0.32      22      78 ..     277     353 ..     261     392 .. 0.70

  Alignments for each domain:
  == domain 1  score: 119.0 bits;  conditional E-value: 9.1e-38
                              HHHHHHHHHC-GGGSTTSS--HHHHSGCCCTTS-SSSSBBEG.GGEBSSS----STTGGGSS..SBSTTEEBS............. CS
                 CCP_MauG   3 kveLGkkLFfdkrLSgngkisCasCHdpaagftdglkvslgv.egrlgarnaptllnaafnk..glfwdgrae............. 72 
                              +veLGk+LF +k++Sgn++i+C +CH+p++g+ d  ++s    ++   +rn+p+l+n+++++   +fwdgr++             
  PHY93_00275|PHY93_00275  53 QVELGKRLFSEKKMSGNRRIACLTCHNPKTGTGDAFPMSQTEnGKGILKRNSPALFNIGMSDksFMFWDGRVHydfknktfttpem 138
                              79********************************988666653668899***********54559********************* PP

                              ..................SHHHHHHHHHHHTTTT..............H.SSHHHHHHHHH.......TSHHHHHHHHHHCT.... CS
                 CCP_MauG  73 ..................sleeqalgPllnpvem..............gnaskeevverla.......aspeYaelfeaafg.... 115
                                                 l++qa++Pl+ ++em              + ++++++v rl+       +s++Y++lf +a++    
  PHY93_00275|PHY93_00275 139 alngvnpkakeitsaltsALSAQAIFPLVTHNEMlgekgeneiadakdNLQAWDRIVVRLKqdmsqnsQSKSYSQLFMQAYPntpi 224
                              *************9999999*****************99999998876577899999999999999887888************** PP

                              SCCSHHHHHHHHHHHHT.T--STTSHHHHHHTTSC CS
                 CCP_MauG 116 ekitfaniakAiaayer.tlvsaeskfDrylkgde 149
                              eki++ ++a++iaa+er +++s+ s+f+rylkgd+
  PHY93_00275|PHY93_00275 225 EKINIGHVAESIAAFEReEFQSTGSPFQRYLKGDN 259
                              99***************8899999*********96 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 0.00011
                              --HHHHSGCCCTTS-SSSSBBE.............GGGEBSS............S----STTGGGSSSBSTTEEBSSHHHHH CS
                 CCP_MauG  22 isCasCHdpaagftdglkvslg.............vegrlga............rnaptllnaafnkglfwdgraesleeqa 78 
                                C +CH+ ++ ++++l  s+g                   +             ++p+lln+++   ++++g +++l + +
  PHY93_00275|PHY93_00275 277 GRCINCHQGSELGNNNLFASVGapqwgeaplildkG-----RgdvvneskrnffFRVPSLLNVSLTAPYMHNGAFQTLRAVI 353
                              46*****98888888777999955555544444430.....044444555444489********************997765 PP

>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.3   0.0    0.0036        11       2      28 ..      55     104 ..      54     168 .. 0.75
   2 !    8.1   0.0     0.002       5.9      10      50 ..     277     350 ..     266     377 .. 0.76

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0036
                              --HHHHH.HT........TGGGTB-SSSBSSS.................. CS
              Cytochrom_C   2 arGkelf.ta........nCaaCHgvegggakqgg..............g 28 
                              + Gk+lf ++         C +CH ++ g   + +              +
  PHY93_00275|PHY93_00275  55 ELGKRLFsEKkmsgnrriACLTCHNPKTGTGDAFPmsqtengkgilkrnS 104
                              6799***77799************88877665554455555444444443 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.002
                              TTGGGTB-SSSBSSS.....................................--HHHHHHHTTT-HHHHHHHHT CS
              Cytochrom_C  10 anCaaCHgvegggakqgg.................................gptlsgaaerasaasigasvanp 50 
                                C +CH+  + g+++                                   +p l ++  +a++ ++ga+ +  
  PHY93_00275|PHY93_00275 277 GRCINCHQGSELGNNNLFasvgapqwgeaplildkgrgdvvneskrnfffrVPSLLNVSLTAPYMHNGAFQTLR 350
                              58*****9999999754488888888888888888888888888888888888888888888888887777665 PP

>> Cytochrome_C7  Cytochrome c7 and related cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.5   0.0    0.0013       3.9      44      59 ..      67      83 ..      48     103 .. 0.62
   2 !    6.8   0.0    0.0023       6.9      49      58 ..     268     287 ..     241     300 .. 0.65

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0013
            Cytochrome_C7 44 eves.ltCgaCHdgkna 59
                             + +   +C +CH+ k+ 
  PHY93_00275|PHY93_00275 67 SGNRrIACLTCHNPKTG 83
                             22333446666666654 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.0023
            Cytochrome_C7  49 t..........CgaCHdgkn 58 
                              +          C++CH+g++
  PHY93_00275|PHY93_00275 268 QglfvflgngrCINCHQGSE 287
                              12223445666999998875 PP

>> Paired_CXXCH_1  Doubled CXXCH motif (Paired_CXXCH_1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.2   0.1   0.00034         1       8      20 ..      73      85 ..      67      98 .. 0.78
   2 !    4.8   0.0    0.0079        24       6      15 ..     276     285 ..     264     299 .. 0.73

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.00034
           Paired_CXXCH_1  8 eClsCHnphgsdn 20
                              Cl+CHnp  ++ 
  PHY93_00275|PHY93_00275 73 ACLTCHNPKTGTG 85
                             5*******98865 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.0079
           Paired_CXXCH_1   6 egeClsCHnp 15 
                              +g C +CH+ 
  PHY93_00275|PHY93_00275 276 NGRCINCHQG 285
                              5668888864 PP

>> PSCyt1  Planctomycete cytochrome C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.0     0.015        44       1      13 [.      74      86 ..      74     120 .. 0.90
   2 ?    1.5   0.0      0.15   4.5e+02      14      47 ..     164     195 ..     156     202 .. 0.79
   3 ?    2.3   0.0     0.089   2.6e+02       1       9 [.     279     287 ..     279     309 .. 0.88

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.015
                   PSCyt1  1 CyeCHgpddaegg 13
                             C++CH+p+   g+
  PHY93_00275|PHY93_00275 74 CLTCHNPKTGTGD 86
                             *******998876 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.15
                   PSCyt1  14 lrLdsrdaalkggesgaaivpgdpeeselieril 47 
                              + L +++++l  ge+g   +++  ++ ++++ri+
  PHY93_00275|PHY93_00275 164 FPLVTHNEML--GEKGENEIADAKDNLQAWDRIV 195
                              5677888888..78898888899999******97 PP

  == domain 3  score: 2.3 bits;  conditional E-value: 0.089
                   PSCyt1   1 CyeCHgpdd 9  
                              C++CH++++
  PHY93_00275|PHY93_00275 279 CINCHQGSE 287
                              *****9876 PP

>> DUF1924  Domain of unknown function (DUF1924)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   5.7e-05      0.17       5      36 ..      51      81 ..      48      94 .. 0.83
   2 ?   -4.1   0.1         6   1.8e+04      28      34 ..     278     284 ..     276     288 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 5.7e-05
                             ---HHHHHHHHH---SSS-TT-SSTHHHH-SS CS
                  DUF1924  5 efsaerGealfkkkvktkkgkelsCasCHged 36
                             ++++e G++lf++k k++ +++++C +CH  +
  PHY93_00275|PHY93_00275 51 RPQVELGKRLFSEK-KMSGNRRIACLTCHNPK 81
                             578899*****666.8899999*******765 PP

  == domain 2  score: -4.1 bits;  conditional E-value: 6
                              STHHHH- CS
                  DUF1924  28 sCasCHg 34 
                              +C  CH 
  PHY93_00275|PHY93_00275 278 RCINCHQ 284
                              6999*96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (435 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       478  (0.0266607); expected 358.6 (0.02)
Passed bias filter:                      418  (0.0233142); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.44
# Mc/sec: 2995.09
//
Query:       PHY93_00280|PHY93_00280  [L=148]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      2e-27   95.4   0.5    9.5e-13   48.4   0.0    2.1  2  CBS            CBS domain
     0.0039   16.1   0.5        1.2    8.0   0.2    2.0  2  Vmethyltransf  Viral methyltransferase


Domain annotation for each model (and alignments):
>> CBS  CBS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.5   0.1   8.7e-16   7.8e-12       1      51 [.       4      56 ..       4      58 .. 0.92
   2 !   48.4   0.0   1.1e-16   9.5e-13       2      54 ..      73     125 ..      72     128 .. 0.92

  Alignments for each domain:
  == domain 1  score: 45.5 bits;  conditional E-value: 8.7e-16
                             HHHHSBSSCEEEETTSBHHHHHHHHHHHTSSEEEEE..ETTTBEEEEEEHHHH CS
                      CBS  1 VgdimtrdvvtvppdttleealelmrekgvsrlPVV..dedgklvGivtlrDl 51
                             V+++mt ++ +++ +t l+++++lm+e++++ +PVV   e++klvG++t+rD+
  PHY93_00280|PHY93_00280  4 VRSVMTMNPACCTMETKLADVARLMIEHDCGEIPVVnnHEEKKLVGVITDRDI 56
                             789**9******************************8655558*********9 PP

  == domain 2  score: 48.4 bits;  conditional E-value: 1.1e-16
                              HHHSBSSCEEEETTSBHHHHHHHHHHHTSSEEEEEETTTBEEEEEEHHHHHHH CS
                      CBS   2 gdimtrdvvtvppdttleealelmrekgvsrlPVVdedgklvGivtlrDllra 54 
                              +d mt++ +tv  d+++e ++elm++k ++r+PV+d+ g ++G+v+l D++r+
  PHY93_00280|PHY93_00280  73 KDCMTSPAITVGMDMPIEACIELMEKKQIRRVPVIDDKGCCCGMVSLADIARK 125
                              789*********************7777********9**888********996 PP

>> Vmethyltransf  Viral methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.0   0.2   0.00013       1.2      77     158 ..      14     103 ..       1     107 [. 0.62
   2 !    7.4   0.0    0.0002       1.8      73     102 ..     109     137 ..     100     146 .. 0.73

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.00013
            Vmethyltransf  77 cnpl.ldprDvaRyte.relslesalssledk.daskeldp......fCehtfedckfka.ktk...yafahdslydlslkelasa 149
                              c+++   ++DvaR +  +++    +++++e+k               +C   ++d++  a ++k   +  a+  ++d+++++ +++
  PHY93_00280|PHY93_00280  14 CCTMeTKLADVARLMIeHDCGEIPVVNNHEEKkLVG----VitdrdiCCRAVAQDLNPAAmNAKdcmTSPAITVGMDMPIEACIEL 95 
                              444425678888884402233333444444443333....0334457**********999955534555566667*********** PP

            Vmethyltransf 150 llrkgkler 158
                              +++k ++ r
  PHY93_00280|PHY93_00280  96 MEKKQIR-R 103
                              *998876.4 PP

  == domain 2  score: 7.4 bits;  conditional E-value: 0.0002
            Vmethyltransf  73 qhhdcnplldprDvaRyterelslesalss 102
                              +  +c+ +++++D aR te e  + s++++
  PHY93_00280|PHY93_00280 109 DKGCCCGMVSLADIARKTE-EWTTGSIVKN 137
                              5579**************9.5555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (148 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       430  (0.0239835); expected 358.6 (0.02)
Passed bias filter:                      266  (0.0148363); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.24s 00:00:00.65 Elapsed: 00:00:00.42
# Mc/sec: 1056.09
//
Query:       PHY93_05575|PHY93_05575  [L=201]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.1e-35  119.3   0.8    7.1e-35  119.3   0.8    2.3  2  Sod_Fe_C  Iron/manganese superoxide dismutases, C-terminal do
    7.7e-20   71.2   1.1    1.4e-19   70.3   1.1    1.4  1  Sod_Fe_N  Iron/manganese superoxide dismutases, alpha-hairpin
  ------ inclusion threshold ------
      0.016   13.7   0.0      0.016   13.7   0.0    1.1  1  Dymeclin  Dyggve-Melchior-Clausen syndrome protein
      0.054   13.6   0.0      0.087   12.9   0.0    1.3  1  DUF5617   Domain of unknown function (DUF5617)


Domain annotation for each model (and alignments):
>> Sod_Fe_C  Iron/manganese superoxide dismutases, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.1     0.077   3.4e+02      77      97 ..      26      46 ..      20      53 .. 0.86
   2 !  119.3   0.8   1.6e-38   7.1e-35       4     101 ..      95     196 ..      93     197 .. 0.94

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.077
                             HHHTT-HHHHHHHHGGGBBHH CS
                 Sod_Fe_C 77 ldyqnkradYieafwnvvnWk 97
                             l+y+++ ++Y e+f++ +  +
  PHY93_05575|PHY93_05575 26 LHYNKHHRKYYEKFMEAIGHT 46
                             6899999********998665 PP

  == domain 2  score: 119.3 bits;  conditional E-value: 1.6e-38
                              HHHHHHHHHHSSHHHHHHHHHHHHHHSSSSEEEEEEEETTTEEEEEEEETTTBGGGGTTC....EEEEEE-SGGGTHHHHTT-HHH CS
                 Sod_Fe_C   4 elaeaieedfgslekfkkefkaaalavfgsGwawLvldkkkkLeivttknqdnplvkeak....plLalDvwehAYyldyqnkrad 85 
                               l + ie++++ +e f+k+f+++a+ +f+sGw+wL+ld+k++L+i++++n+dnpl++++     plL+lDvwehAYyl y+n+r+ 
  PHY93_05575|PHY93_05575  95 PLRAGIEKKWKTMEGFEKKFSESAVDLFASGWVWLILDEKQELQIIQSHNHDNPLMDTSPikgqPLLVLDVWEHAYYLRYKNERNG 180
                              68889***************************************************75556788********************** PP

                              HHHHHGGGBBHHHHHH CS
                 Sod_Fe_C  86 YieafwnvvnWkevee 101
                              +++a+w++vnWk++e+
  PHY93_05575|PHY93_05575 181 FVQAWWDIVNWKHAED 196
                              ************9986 PP

>> Sod_Fe_N  Iron/manganese superoxide dismutases, alpha-hairpin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.3   1.1   3.1e-23   1.4e-19       3      81 ..       4      85 ..       2      86 .. 0.91

  Alignments for each domain:
  == domain 1  score: 70.3 bits;  conditional E-value: 3.1e-23
                             -----SS-TTTTTTTS-HHHHHHHHHTHHHHHHHHHHHHHHCHHHHC.HCCHHHHHH..HHHHHHHHHHHHHHHHHHHHHTB CS
                 Sod_Fe_N  3 eLpeLpYaydaLePhisketlelHhdkHhktYvnnlNkalekleeak.kkleelvlk..klekalrnnagghvnHslfwknl 81
                             ++peLpYa++aL   i+++t++lH++kHh+ Y +++ +a+ +++++  +++e+l ++  k e  ++nn+gg  nH++fw+++
  PHY93_05575|PHY93_05575  4 QFPELPYALNALVECIDAQTMDLHYNKHHRKYYEKFMEAIGHTDTEGvETIEQLFANisKYEPVIKNNGGGLYNHTFFWNSM 85
                             79*****************************************76651678888776779999*****************99 PP

>> Dymeclin  Dyggve-Melchior-Clausen syndrome protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   3.5e-06     0.016     169     249 ..      13      88 ..      10     177 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 3.5e-06
                 Dymeclin 169 klLlvllseqlysp.pssadssafnklldgktsaenrialplvtsLLntviaydpvdesdagsgvpynhllfsdaaaslepl 249
                              + L+ +++ q +    ++ + + ++k++++ ++++++   + + +L+ ++++y+pv  +++g+g+ ynh++f +++    p 
  PHY93_05575|PHY93_05575  13 NALVECIDAQTMDLhYNKHHRKYYEKFMEAIGHTDTE-GVETIEQLFANISKYEPV-IKNNGGGL-YNHTFFWNSM---TPN 88 
                              566666655544330233444468*****99999999.77899*************.88889999.******6666...333 PP

>> DUF5617  Domain of unknown function (DUF5617)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   1.9e-05     0.087      40      91 ..      22      78 ..      11      83 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 1.9e-05
                             GGGGSTTHHHHHHHHHHHHHHH...HTT--SSHHHHHHHHHTTT..SB--S--HHHH CS
                  DUF5617 40 riftgHWnRHhvkavdkivkei...dkgnytdaddlvkrLkelk..lvnpkGsLkrr 91
                             + + +H+n+Hh k  +k ++ i   d + ++++++l +++++ +  ++n++G L+++
  PHY93_05575|PHY93_05575 22 QTMDLHYNKHHRKYYEKFMEAIghtDTEGVETIEQLFANISKYEpvIKNNGGGLYNH 78
                             56789*************999976677788999999999999987777999999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (201 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       662  (0.0369234); expected 358.6 (0.02)
Passed bias filter:                      470  (0.0262145); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.46u 0.20s 00:00:00.66 Elapsed: 00:00:00.37
# Mc/sec: 1609.23
//
Query:       PHY93_00285|PHY93_00285  [L=587]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.2e-26   90.5  69.8    4.7e-06   26.3   0.0   14.1 13  RCC1_2    Regulator of chromosome condensation (RCC1) repeat
    5.3e-05   23.8  13.9       0.11   13.2   0.0    8.7  9  RCC1      Regulator of chromosome condensation (RCC1) repeat


Domain annotation for each model (and alignments):
>> RCC1_2  Regulator of chromosome condensation (RCC1) repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.0   0.4   7.5e-06     0.068       3      26 ..      31      53 ..      31      55 .. 0.90
   2 !    4.1   0.0    0.0047        42       7      24 ..      73      89 ..      71      95 .. 0.88
   3 !   26.3   0.0   5.2e-10   4.7e-06       4      29 ..     112     137 ..     110     138 .. 0.95
   4 ?    2.3   0.1     0.017   1.5e+02      16      24 ..     162     170 ..     148     172 .. 0.81
   5 !    4.5   0.7    0.0036        32       6      24 ..     191     208 ..     188     211 .. 0.90
   6 !    9.7   0.2   7.9e-05      0.71       4      23 ..     261     280 ..     259     280 .. 0.95
   7 !    7.8   0.1   0.00033       2.9       4      29 ..     308     333 ..     303     334 .. 0.88
   8 ?    2.1   2.5      0.02   1.8e+02       4      25 ..     348     368 ..     345     373 .. 0.80
   9 ?    2.2   0.6     0.018   1.6e+02      18      26 ..     398     406 ..     386     410 .. 0.79
  10 !   15.5   1.5   1.2e-06     0.011       1      25 [.     420     443 ..     420     446 .. 0.91
  11 !   11.9   0.2   1.7e-05      0.15       3      25 ..     461     483 ..     459     486 .. 0.95
  12 !   16.1   2.1   8.1e-07    0.0072       1      26 [.     513     537 ..     513     539 .. 0.89
  13 !   14.4   0.6   2.7e-06     0.024       3      24 ..     555     575 ..     554     581 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 7.5e-06
                   RCC1_2  3 svsaGdyHscaLtedGeVlcWGsN 26
                             ++s G++H caLt+ G V c+G+ 
  PHY93_00285|PHY93_00285 31 DISVGRSHVCALTSLG-VKCFGNS 53
                             79************99.9999985 PP

  == domain 2  score: 4.1 bits;  conditional E-value: 0.0047
                   RCC1_2  7 GdyHscaLtedGeVlcWG 24
                             G+++sc +++ G V+cWG
  PHY93_00285|PHY93_00285 73 GNRFSCMIDDLG-VRCWG 89
                             899999999999.***** PP

  == domain 3  score: 26.3 bits;  conditional E-value: 5.2e-10
                   RCC1_2   4 vsaGdyHscaLtedGeVlcWGsNsdG 29 
                              +s G+ H+ca++e +++ cWG+N++G
  PHY93_00285|PHY93_00285 112 LSVGYEHACAVSEKDKIKCWGRNDFG 137
                              699*********************99 PP

  == domain 4  score: 2.3 bits;  conditional E-value: 0.017
                   RCC1_2  16 edGeVlcWG 24 
                              +dG+V cWG
  PHY93_00285|PHY93_00285 162 ADGAVACWG 170
                              699*****9 PP

  == domain 5  score: 4.5 bits;  conditional E-value: 0.0036
                   RCC1_2   6 aGdyHscaLtedGeVlcWG 24 
                              +G+ H c+ t+dG + cWG
  PHY93_00285|PHY93_00285 191 SGWWHHCVQTDDG-IKCWG 208
                              8************.99999 PP

  == domain 6  score: 9.7 bits;  conditional E-value: 7.9e-05
                   RCC1_2   4 vsaGdyHscaLtedGeVlcW 23 
                              +s G+  +ca+t+d  V cW
  PHY93_00285|PHY93_00285 261 LSVGSTNACAITTDKGVICW 280
                              799***************** PP

  == domain 7  score: 7.8 bits;  conditional E-value: 0.00033
                   RCC1_2   4 vsaGdyHscaLtedGeVlcWGsNsdG 29 
                              vsaG   +ca  + G++ cWG N  G
  PHY93_00285|PHY93_00285 308 VSAGHASTCAYGDAGNIKCWGFNPEG 333
                              8888889**************99766 PP

  == domain 8  score: 2.1 bits;  conditional E-value: 0.02
                   RCC1_2   4 vsaGdyHscaLtedGeVlcWGs 25 
                              +s G+  +ca+t++  + cWG+
  PHY93_00285|PHY93_00285 348 LSVGSHRTCAITNSV-LSCWGN 368
                              6889999*****995.777775 PP

  == domain 9  score: 2.2 bits;  conditional E-value: 0.018
                   RCC1_2  18 GeVlcWGsN 26 
                              ++++cWG N
  PHY93_00285|PHY93_00285 398 DNIRCWGEN 406
                              3499***99 PP

  == domain 10  score: 15.5 bits;  conditional E-value: 1.2e-06
                   RCC1_2   1 VksvsaGdyHscaLtedGeVlcWGs 25 
                              + ++s+G +H ca+++d+ V cWG 
  PHY93_00285|PHY93_00285 420 ISQLSSGFSHVCAVSNDQ-VICWGG 443
                              6799************99.*****6 PP

  == domain 11  score: 11.9 bits;  conditional E-value: 1.7e-05
                   RCC1_2   3 svsaGdyHscaLtedGeVlcWGs 25 
                              +++aG+ +sc++t  G+ +cWG+
  PHY93_00285|PHY93_00285 461 AICAGGTFSCGITKLGKTVCWGD 483
                              79********************8 PP

  == domain 12  score: 16.1 bits;  conditional E-value: 8.1e-07
                   RCC1_2   1 VksvsaGdyHscaLtedGeVlcWGsN 26 
                              V+ +s+G +H+ca+  +G++ cWG+ 
  PHY93_00285|PHY93_00285 513 VVEISCGLSHACAIY-NGKIKCWGDG 537
                              788***********6.799*****96 PP

  == domain 13  score: 14.4 bits;  conditional E-value: 2.7e-06
                   RCC1_2   3 svsaGdyHscaLtedGeVlcWG 24 
                              ++s+G++H+ca+ + G + cWG
  PHY93_00285|PHY93_00285 555 QLSSGWNHTCAVGDKG-LSCWG 575
                              89**************.****9 PP

>> RCC1  Regulator of chromosome condensation (RCC1) repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.1       0.2   1.8e+03      39      50 .]      31      42 ..      20      42 .. 0.84
   2 ?   -0.0   0.2      0.16   1.4e+03       6      13 ..     130     137 ..     130     139 .. 0.89
   3 ?    1.0   0.0     0.078     7e+02      33      49 ..     299     317 ..     281     318 .. 0.76
   4 ?   -0.1   0.0      0.17   1.5e+03       6      20 ..     326     340 ..     322     358 .. 0.67
   5 ?   -3.3   0.0       1.7   1.5e+04      36      49 ..     381     394 ..     370     394 .. 0.72
   6 ?    0.0   0.1      0.15   1.4e+03       7      19 ..     403     415 ..     399     434 .. 0.63
   7 ?    0.1   0.0      0.14   1.3e+03      30      48 ..     451     470 ..     435     472 .. 0.75
   8 !   13.2   0.0   1.2e-05      0.11      23      50 .]     499     526 ..     481     526 .. 0.78
   9 !    5.9   0.0    0.0022        20      21      50 .]     542     566 ..     532     566 .. 0.70

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.2
                             EEEEETTEEEEE CS
                     RCC1 39 kvacGddhtval 50
                             +++ G +h++al
  PHY93_00285|PHY93_00285 31 DISVGRSHVCAL 42
                             89*******997 PP

  == domain 2  score: -0.0 bits;  conditional E-value: 0.16
                              EEE--GGG CS
                     RCC1   6 sWGrndyG 13 
                              +WGrnd+G
  PHY93_00285|PHY93_00285 130 CWGRNDFG 137
                              5*****98 PP

  == domain 3  score: 1.0 bits;  conditional E-value: 0.078
                              TTS..-EEEEEEETTEEEE CS
                     RCC1  33 sgn..rvvkvacGddhtva 49 
                              sg   ++  v++G+  t+a
  PHY93_00285|PHY93_00285 299 SGGvaKIEYVSAGHASTCA 317
                              3336799*******99997 PP

  == domain 4  score: -0.1 bits;  conditional E-value: 0.17
                              EEE--GGGTTSSSS- CS
                     RCC1   6 sWGrndyGqLGlgtt 20 
                              +WG+n +G L  +tt
  PHY93_00285|PHY93_00285 326 CWGFNPEGALDVPTT 340
                              588888888765555 PP

  == domain 5  score: -3.3 bits;  conditional E-value: 1.7
                              -EEEEEEETTEEEE CS
                     RCC1  36 rvvkvacGddhtva 49 
                              +v+ +++G++ ++a
  PHY93_00285|PHY93_00285 381 NVTLASSGGNQVCA 394
                              89999999987765 PP

  == domain 6  score: 0.0 bits;  conditional E-value: 0.15
                              EE--GGGTTSSSS CS
                     RCC1   7 WGrndyGqLGlgt 19 
                              WG n +G L +++
  PHY93_00285|PHY93_00285 403 WGENIRGALDIPK 415
                              7777777775544 PP

  == domain 7  score: 0.1 bits;  conditional E-value: 0.14
                              GGGTTS.-EEEEEEETTEEE CS
                     RCC1  30 eglsgn.rvvkvacGddhtv 48 
                              +++++  ++ ++++G+ +++
  PHY93_00285|PHY93_00285 451 NPPKKMmNARAICAGGTFSC 470
                              3444335788999**99997 PP

  == domain 8  score: 13.2 bits;  conditional E-value: 1.2e-05
                              E...EEEEE-GGGTTS-EEEEEEETTEEEEE CS
                     RCC1  23 v...lvPtkveglsgnrvvkvacGddhtval 50 
                              +   ++Pt+v++    +vv ++cG +h +a+
  PHY93_00285|PHY93_00285 499 NevlNIPTEVQNA---NVVEISCGLSHACAI 526
                              134578****998...8************97 PP

  == domain 9  score: 5.9 bits;  conditional E-value: 0.0022
                              --EEEEEE-GGGTTS-EEEEEEETTEEEEE CS
                     RCC1  21 esvlvPtkveglsgnrvvkvacGddhtval 50 
                              e+ +vP+ +++       + ++G++ht+a+
  PHY93_00285|PHY93_00285 542 ERLSVPSTIKN-----PRQLSSGWNHTCAV 566
                              34455555555.....56**********96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (587 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       299  (0.0166769); expected 358.6 (0.02)
Passed bias filter:                      237  (0.0132188); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.22s 00:00:00.78 Elapsed: 00:00:00.41
# Mc/sec: 4313.62
//
Query:       PHY93_00290|PHY93_00290  [L=156]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.4e-25   88.0   1.8    4.3e-25   87.7   0.0    1.9  2  Thioredoxin    Thioredoxin
    4.5e-08   33.5   0.4    1.5e-07   31.8   0.0    2.0  2  Thioredoxin_2  Thioredoxin-like domain
    4.5e-07   30.0   0.0    5.1e-06   26.6   0.0    2.1  2  Thioredoxin_7  Thioredoxin-like
    0.00022   21.5   0.0      0.011   16.0   0.0    2.4  2  Thioredoxin_8  Thioredoxin-like
     0.0013   18.2   0.1     0.0016   17.9   0.1    1.1  1  OST3_OST6      OST3 / OST6 family, transporter family
     0.0036   17.2   0.0     0.0053   16.7   0.0    1.2  1  Thioredoxin_6  Thioredoxin-like domain
     0.0085   15.5   0.6      0.016   14.6   0.6    1.5  1  Vps36-NZF-N    Vacuolar protein sorting 36 NZF-N zinc-finger 
  ------ inclusion threshold ------
      0.013   15.2   0.0      0.068   12.9   0.1    1.8  2  Redoxin        Redoxin
      0.015   15.1   0.0      0.021   14.6   0.0    1.3  1  Thioredoxin_9  Thioredoxin
      0.027   14.1   0.1      0.054   13.1   0.1    1.5  1  zf_C2H2_13     Zinc finger domain
      0.081   13.0   0.2        1.1    9.3   0.0    2.3  3  Thioredoxin_3  Thioredoxin domain


Domain annotation for each model (and alignments):
>> Thioredoxin  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.1       1.6   2.6e+03      25      33 ..      25      33 ..      13      35 .. 0.79
   2 !   87.7   0.0   2.6e-28   4.3e-25      14     102 ..      55     143 ..      46     144 .. 0.96

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 1.6
                             EE-TTSHHH CS
              Thioredoxin 25 FyApwCghC 33
                                p Cg+C
  PHY93_00290|PHY93_00290 25 LQVPVCGSC 33
                             557899999 PP

  == domain 2  score: 87.7 bits;  conditional E-value: 2.6e-28
                              HTTTSSEEEEEEE-TTSHHHHCHHHHHHHHHHHCTTTSEEEEEETTTSHHHHHHTT-SSSSEEEEEETTEEEEEEESS-HHHHHHH CS
              Thioredoxin  14 vakekklvlveFyApwCghCkalaPeleklaeelkdkvklakvdvdenedlakkyevegiPtlklfkngkevkkyegarekeklaa 99 
                               +k++++++++F+ApwCg+Ck++ P++e++++ + +k++++k+++++ ++   +++++giPt++++kngkev++ +ga + e++++
  PHY93_00290|PHY93_00290  55 TQKADQPIVIDFWAPWCGPCKSFGPTFERASHIFGGKIVFVKINTQDFPQASGQFNIRGIPTILIYKNGKEVARESGAFPLEQFKN 140
                              46789********************************************************************************* PP

                              HHH CS
              Thioredoxin 100 flk 102
                              +l+
  PHY93_00290|PHY93_00290 141 WLQ 143
                              997 PP

>> Thioredoxin_2  Thioredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.1       4.7   7.7e+03      16      28 ..       8      21 ..       7      29 .. 0.66
   2 !   31.8   0.0   9.3e-11   1.5e-07       3     109 .]      57     142 ..      55     142 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 4.7
            Thioredoxin_2 16 dCpyCkklkk.elk 28
                              C  C  l+k  ++
  PHY93_00290|PHY93_00290  8 YCMKCNNLNKvAID 21
                             58888888883333 PP

  == domain 2  score: 31.8 bits;  conditional E-value: 9.3e-11
            Thioredoxin_2   3 gngkpvlvvftdpdCpyCkklkkelkelddvtvrvllfplkpsfepkavaiwcakekkkafkdieenvelarkygvrgtPt.ivfl 87 
                              +  +p++++f++p+C+ Ck +  +++  + +        ++ +  +++v+i +++ ++            + ++++rg Pt +++ 
  PHY93_00290|PHY93_00290  57 KADQPIVIDFWAPWCGPCKSFGPTFERASHI--------FGGK--IVFVKINTQDFPQ-----------ASGQFNIRGIPTiLIYK 121
                              5679*******************99999555........7777..9999999999997...........67789*******66699 PP

            Thioredoxin_2  88 dgkeivarlpGyvpaeeleall 109
                              +gk +var  G+ p e+++ +l
  PHY93_00290|PHY93_00290 122 NGK-EVARESGAFPLEQFKNWL 142
                              999.99************9987 PP

>> Thioredoxin_7  Thioredoxin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.0       0.3   4.9e+02      27      42 ..       7      22 ..       5      28 .. 0.85
   2 !   26.6   0.0   3.1e-09   5.1e-06      12      82 ..      54     121 ..      45     122 .. 0.88

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.3
                             TT-HHHHHHHHHHHH- CS
            Thioredoxin_7 27 swcftCqalerdflsd 42
                             s+c  C  l+++ +++
  PHY93_00290|PHY93_00290  7 SYCMKCNNLNKVAIDK 22
                             79*********99886 PP

  == domain 2  score: 26.6 bits;  conditional E-value: 3.1e-09
                              HHHHHT--EEEEE--TT-HHHHHHHHHHHH-HHHHH.HHHT-EEEEESS--S-GGG.-TT---SSEEEEE- CS
            Thioredoxin_7  12 kaaergkpvlvffgaswcftCqalerdflsdeevkaalaekfvllrvdvterdanileldeqgvPvvafld 82 
                                ++  +p+ ++f a wc++C+ +  +f+ +  +   + +k+v+++++ +   +  +++  +g+P++++++
  PHY93_00290|PHY93_00290  54 MTQKADQPIVIDFWAPWCGPCKSFGPTFERASHI---FGGKIVFVKINTQDFPQASGQFNIRGIPTILIYK 121
                              568999************************9776...99*********98888777788889******985 PP

>> Thioredoxin_8  Thioredoxin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.0   6.7e-06     0.011       2      42 ..      60      98 ..      59     106 .. 0.83
   2 ?    3.5   0.1     0.055        90      76      93 ..     107     124 ..      94     126 .. 0.72

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 6.7e-06
                             SEEEEEE--SSSHHHHHHHHHHHHHHHHHHHTTSEEEEEEE CS
            Thioredoxin_8  2 kvvlLyfgaswcppckaftpklkelyeklkkkkkveivyvs 42
                             + +++ f+a wc pck f p+  + +  +    k+++v ++
  PHY93_00290|PHY93_00290 60 QPIVIDFWAPWCGPCKSFGPTFERASHIFG--GKIVFVKIN 98
                             57899****************999998887..666666665 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.055
                              T-S--TT-SEEEEE-TT- CS
            Thioredoxin_8  76 kkynvkaiPtlvvldkng 93 
                               ++n+ +iPt+++ ++ +
  PHY93_00290|PHY93_00290 107 GQFNIRGIPTILIYKNGK 124
                              589*******66665544 PP

>> OST3_OST6  OST3 / OST6 family, transporter family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.1   9.6e-07    0.0016      46     137 ..      71     146 ..      53     155 .. 0.81

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 9.6e-07
                OST3_OST6  46 CelCrefepefelvakswrkdekskskklfFakvdfdegkdvFqklglnsaPhlllfppkkgpkeskkkdtydfsrggfdaealak 131
                              C +C+ f p fe  +  +  +       ++F+k++ ++ ++   +++++ +P +l+++  k         ++  ++g f  e++ +
  PHY93_00290|PHY93_00290  71 CGPCKSFGPTFERASHIFGGK-------IVFVKINTQDFPQASGQFNIRGIPTILIYKNGK---------EVARESGAFPLEQFKN 140
                              999********9977666555.......9****************************9933.........3455555566666777 PP

                OST3_OST6 132 fisert 137
                              ++++ +
  PHY93_00290|PHY93_00290 141 WLQQFV 146
                              776655 PP

>> Thioredoxin_6  Thioredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.0   3.2e-06    0.0053     119     183 ..      83     143 ..      75     144 .. 0.83

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 3.2e-06
                              HHHHHTTTT-EEEEEETTGGHHHHHHTT--GGG-SEEEEEESSSS-EEEETTSS--HHHHHHHHH CS
            Thioredoxin_6 119 kvakefkdkinfaladaksfkrpleylglsssdlPvivivdsashkykyppkdefspeklkeFlk 183
                              +++  f +ki f+ +++ +f++   +++++   +P+i i++  ++k  +  ++ f+ e++k +l+
  PHY93_00290|PHY93_00290  83 RASHIFGGKIVFVKINTQDFPQASGQFNIR--GIPTILIYK--NGKEVARESGAFPLEQFKNWLQ 143
                              555557799******************999..9*****999..555445559**********998 PP

>> Vps36-NZF-N  Vacuolar protein sorting 36 NZF-N zinc-finger domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.6   0.6     1e-05     0.016      15      53 ..       9      47 ..       7      59 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 1e-05
              Vps36-NZF-N 15 CsfsNevps.nfdpnastplPpClaCGvkpdlelikksik 53
                             C+  N++++  +d + + ++P+C +CG + ++  + + i+
  PHY93_00290|PHY93_00290  9 CMKCNNLNKvAID-KIKLQVPVCGSCGSPLNMHSLVSDID 47
                             5555555441345.89***********9999887777665 PP

>> Redoxin  Redoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.1   4.2e-05     0.068      25      97 ..      56     126 ..      43     133 .. 0.66
   2 ?    1.8   0.0      0.11   1.7e+02     113     137 ..     111     135 ..      94     144 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 4.2e-05
                              HHTTSEEEEEEESTTT-HHHHHTHHHHHTHHHHHHCSTTTEEEEEESSSHHHHHHHHHTT-TSEEEE-TTSHH CS
                  Redoxin  25 efkgkkvvvnfvpgafcPtCsaehpyleklaellkekgvdvvavvadndafvkefwgkeglkfpvlsDgsaaf 97 
                              + +++++v+ f++  +c++C+   p +e  +  ++ k + +v +++++ ++++   +  g++ ++++  ++++
  PHY93_00290|PHY93_00290  56 QKADQPIVIDFWAP-WCGPCKSFGPTFERASHIFGGK-IVFVKINTQDFPQASGQFNIRGIPTILIYKNGKEV 126
                              447899********.******9888777777775555.44445555544445444444555555555555555 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.11
                              EEE-EEEEEEETTEEEEEEESSSCH CS
                  Redoxin 113 lrtpryavidedgkvvylevepepe 137
                              +r   +++i ++gk v++e +++p 
  PHY93_00290|PHY93_00290 111 IRGIPTILIYKNGKEVARESGAFPL 135
                              6666689************999984 PP

>> Thioredoxin_9  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.0   1.3e-05     0.021      47     119 ..      65     135 ..      40     146 .. 0.78

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 1.3e-05
                              EE--TT-HHHHHHHHHHHHHHHH-TTEEEEEE-HHHHHHHTTTTTT.-SS--SSEEEEE-TT--EEEEEESS-H CS
            Thioredoxin_9  47 vltedwCgDaavnvPvlakiaelnpnievkillrdenlelmdqylt.ngaraiPtliildeegeelgvwgerPa 119
                               + ++wCg +  + P +++++ +      ki++ + n++ + q +   + r iPt++i++++ e+  + g +P 
  PHY93_00290|PHY93_00290  65 DFWAPWCGPCKSFGPTFERASHIF---GGKIVFVKINTQDFPQASGqFNIRGIPTILIYKNGKEVARESGAFPL 135
                              3679*****************998...6777888888887777776678899********99999999999984 PP

>> zf_C2H2_13  Zinc finger domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.1   3.3e-05     0.054      16      34 ..      26      44 ..      16      48 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 3.3e-05
               zf_C2H2_13 16 nYRvCnkCGkPisleaivd 34
                             +  vC +CG P+ ++++v 
  PHY93_00290|PHY93_00290 26 QVPVCGSCGSPLNMHSLVS 44
                             5569************995 PP

>> Thioredoxin_3  Thioredoxin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   1.9      0.92   1.5e+03      10      24 ..       9      20 ..       5      33 .. 0.62
   2 ?   -1.9   0.0       2.2   3.6e+03       3      18 ..      23      38 ..      21      48 .. 0.63
   3 ?    9.3   0.0   0.00069       1.1       8      71 ..      69     138 ..      62     143 .. 0.73

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.92
                             STTCHHHHHHHHHHC CS
            Thioredoxin_3 10 CakCpklekavkeaa 24
                             C kC++l+k    a+
  PHY93_00290|PHY93_00290  9 CMKCNNLNK---VAI 20
                             555555554...444 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 2.2
                             EEEESSSSTTCHHHHH CS
            Thioredoxin_3  3 ikvlgpgCakCpklek 18
                             ik   p C  C    +
  PHY93_00290|PHY93_00290 23 IKLQVPVCGSCGSPLN 38
                             5555677888874433 PP

  == domain 3  score: 9.3 bits;  conditional E-value: 0.00069
                              SSSTTCHHHHHHHHHHCHCCTCECEEECC..TTHHHH.HHCT-SSSSEEEC..TTCEEE..ESS---CCHH CS
            Thioredoxin_3   8 pgCakCpklekavkeaaaekgikaevekv..tdfeei.ekygVmsvPalvi..dgkvvv..sGkvpseeei 71 
                              p C  C+ +   +++a    g k+ ++k+  +df++   +++++ +P+++i  +gk v+  sG+ p  e++
  PHY93_00290|PHY93_00290  69 PWCGPCKSFGPTFERASHIFGGKIVFVKIntQDFPQAsGQFNIRGIPTILIykNGKEVAreSGAFPL-EQF 138
                              56999999999999999999888866666569*****9***********773456554322775444.444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (156 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       594  (0.0331307); expected 358.6 (0.02)
Passed bias filter:                      493  (0.0274974); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.38
# Mc/sec: 1217.53
//
Query:       PHY93_00295|PHY93_00295  [L=180]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.6e-28   98.8   0.0    4.1e-28   98.6   0.0    1.0  1  Thioredoxin_4   Thioredoxin
    3.2e-10   40.1   0.1    2.8e-05   24.0   0.0    2.0  2  DSBA            DSBA-like thioredoxin domain
    1.5e-05   24.7   0.0    2.3e-05   24.2   0.0    1.3  1  Thioredoxin_5   Thioredoxin
     0.0099   15.7   1.6      0.031   14.1   0.0    2.3  3  Thioredoxin_12  Thioredoxin-like domain
  ------ inclusion threshold ------
      0.077   13.4   0.0       0.12   12.8   0.0    1.3  1  Thioredoxin_2   Thioredoxin-like domain


Domain annotation for each model (and alignments):
>> Thioredoxin_4  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   98.6   0.0   1.1e-31   4.1e-28       2     165 ..      10     171 ..       9     172 .. 0.91

  Alignments for each domain:
  == domain 1  score: 98.6 bits;  conditional E-value: 1.1e-31
                              SSSSEEES-TT-SEEEEEEE-TT-HHHHHHHHHHHHHHHHHHHTTSEEEEEEE-..---S.TTTHHHHHHHTT--TTHHHHHHHHH CS
            Thioredoxin_4   2 tetdiviGnpdApvtvieyedlrCphCakfeeeveklleeyidtGkvkfiirdfpldkek.eslkaamaarcageespeaflaika 86 
                              te+d++iG+  A v+++ey d++Cph   f+  v +l++e+  + ++ +++r+fpl +    +l aa+a+++a +++ e++ + + 
  PHY93_00295|PHY93_00295  10 TEKDHHIGSLHALVVLVEYGDFECPHSSSFSPIVDQLINEF--KSNICYVYRHFPLSNIRpHALLAALASEAADQQH-EFWNFSEF 92 
                              689**************************************..**************99999***********9998.55555555 PP

                              HHHTHHHHTTS-HHHHH.....HHHHHTS-------HHHHHHHHHHHHHHT--SS-EEEETTEEE-TT--HHHHHHHHT CS
            Thioredoxin_4  87 llysqqeewaeslkelaaealdkdekfeacleeekldalveaeskeakkagiestPtfiingekveepqtyeelkalid 165
                              l+++ ++   e ++e a+    +  +f +++++e l + ++++     ++g+ stPt+++n++++++p tye+l+ +i+
  PHY93_00295|PHY93_00295  93 LFKNYDYLSPELMDECAEGLNLNLHQFRKDMKSENLLERITKDFSGGVRSGVHSTPTIFLNDHRYDGPLTYESLRDAIQ 171
                              66666777777788888666666999***************************************************98 PP

>> DSBA  DSBA-like thioredoxin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.2     4e-06     0.014       2      42 ..      25      66 ..      24      71 .. 0.89
   2 !   24.0   0.0   7.8e-09   2.8e-05      89     193 .]      68     171 ..      64     171 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 4e-06
                             EEEEEBTTBHHHHHHHHHHHHHHHHC.CTEEEEEEE-SSSCH CS
                     DSBA  2 vdeffDvlCPyCylgkerleklaars.pdvkvvlrpfelaga 42
                             ++e+ D+ CP++  +++ +++l++    ++  v+r+f+l   
  PHY93_00295|PHY93_00295 25 LVEYGDFECPHSSSFSPIVDQLINEFkSNICYVYRHFPLSNI 66
                             789**********************9555**********887 PP

  == domain 2  score: 24.0 bits;  conditional E-value: 7.8e-09
                              HHHHHHHHHHHH.GHHHHHHHHHHHHHTSSS-TSSHHHHHHHHHHTTS.HHHHHHHHTSHHHHHHHHHHHHHHHHTT-SSSSEEEE CS
                     DSBA  89 aarlllaagaeg.laekvvrelfealwsegqaitddqellevaekaGldaeeldealeseavkeavrentaaaqslgvtGvPtvvv 173
                               ++ll a++ e+  +++ ++ + e l+++   ++ +  ++e+ae + l+  +++++++se+  e + ++   +++ gv  +Pt+++
  PHY93_00295|PHY93_00295  68 PHALLAALASEAaDQQHEFWNFSEFLFKNYDYLSPE-LMDECAEGLNLNLHQFRKDMKSENLLERITKDFSGGVRSGVHSTPTIFL 152
                              566776666666566677777777788866666666.7************************************************ PP

                              TTCEEEESSSSHHHHHHHHH CS
                     DSBA 174 dgkrmvfGadrldtladala 193
                              +++    G   ++ l+da++
  PHY93_00295|PHY93_00295 153 NDH-RYDGPLTYESLRDAIQ 171
                              **9.9999999999999986 PP

>> Thioredoxin_5  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.2   0.0   6.4e-09   2.3e-05     101     166 ..      91     155 ..      63     167 .. 0.85

  Alignments for each domain:
  == domain 1  score: 24.2 bits;  conditional E-value: 6.4e-09
            Thioredoxin_5 101 ealflekkniskeellleiaekaglDveefkeDlesklakkafqcDlklakemgvtevPtlvffne 166
                              e lf +   +s  el+ e+ae  +l++++f++D++s+   +   +D       gv+++Pt+++ ++
  PHY93_00295|PHY93_00295  91 EFLFKNYDYLSP-ELMDECAEGLNLNLHQFRKDMKSENLLERITKDFSGGVRSGVHSTPTIFLNDH 155
                              556555555555.***********************************************987764 PP

>> Thioredoxin_12  Thioredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.1   0.0   8.5e-06     0.031     134     188 ..      11      65 ..       3      69 .. 0.73
   2 ?   -0.1   0.2       0.2   7.3e+02       6      28 ..      72      94 ..      67     134 .. 0.74
   3 ?   -0.9   0.0      0.36   1.3e+03     125     142 ..     143     160 ..     106     170 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 8.5e-06
                              TT---BS....--SEEEEEEE--SSTTSHHHHHHHHHHH...HHTSEEEEEEE---TT CS
           Thioredoxin_12 134 pfDhvypgskeasspvaILYgdlgskefkefhkkLkela...kegkvkYvlRhvppsg 188
                              + Dh + gs + +  v++ Ygd+++++ ++f     +l    k+ ++ Yv Rh+p s+
  PHY93_00295|PHY93_00295  11 EKDHHI-GSLH-ALVVLVEYGDFECPHSSSFSPIVDQLInefKS-NICYVYRHFPLSN 65 
                              679988.6666.7888999***9877766666666666633155.7********9776 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.2
                             HHHHHHHSSS-HHHHHHHHHHH. CS
           Thioredoxin_12  6 lealEtlakenedlFwefvdale 28
                             l al + a ++++ Fw+f + l+
  PHY93_00295|PHY93_00295 72 LAALASEAADQQHEFWNFSEFLF 94
                             55555567778899999977764 PP

  == domain 3  score: -0.9 bits;  conditional E-value: 0.36
                              -SS-STS--TT---BS.. CS
           Thioredoxin_12 125 ssseqpellpfDhvypgs 142
                                ++ p+++  Dh y g+
  PHY93_00295|PHY93_00295 143 GVHSTPTIFLNDHRYDGP 160
                              456778999999999665 PP

>> Thioredoxin_2  Thioredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   3.5e-05      0.12      11      90 ..      27     156 ..      19     170 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 3.5e-05
            Thioredoxin_2  11 vftdpdCpyCkklkkelkel.....ddvtvrvllfp...lkpsfepkavaiwcakekkkafkd....................... 65 
                               + d +Cp    +   +++l     +++   ++ fp   ++p++  +a a   a+++++ ++                        
  PHY93_00295|PHY93_00295  27 EYGDFECPHSSSFSPIVDQLinefkSNICYVYRHFPlsnIRPHALLAALASEAADQQHEFWNFseflfknydylspelmdecaegl 112
                              44577788877777777777744444455556666799999998888888888888874444477888889999999999999999 PP

            Thioredoxin_2  66 ...................ieenvelarkygvrgtPtivfldgk 90 
                                                 i++ +  + + gv++tPti++ d +
  PHY93_00295|PHY93_00295 113 nlnlhqfrkdmksenllerITKDFSGGVRSGVHSTPTIFLNDHR 156
                              999999999999999999999999999999**********9988 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (180 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       424  (0.0236488); expected 358.6 (0.02)
Passed bias filter:                      394  (0.0219756); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.47u 0.26s 00:00:00.73 Elapsed: 00:00:00.43
# Mc/sec: 1267.56
//
Query:       PHY93_00300|PHY93_00300  [L=533]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    9.1e-47  158.7  12.5    1.6e-46  158.0  12.5    1.4  1  EptA_B_N   Phosphoethanolamine transferase EptA/EptB
    2.4e-44  152.0   0.1    3.4e-44  151.5   0.1    1.2  1  Sulfatase  Sulfatase


Domain annotation for each model (and alignments):
>> EptA_B_N  Phosphoethanolamine transferase EptA/EptB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  158.0  12.5   1.8e-50   1.6e-46       2     150 ..      52     200 ..      51     202 .. 0.98

  Alignments for each domain:
  == domain 1  score: 158.0 bits;  conditional E-value: 1.8e-50
                              HHHHHHHHHHH--TTTHHHHHHHHHHHHHHHHHHHHHS----SHHHHHHHHH--HHHHHTT--HHHHHHHHHHTHHHHHHHHH-EE CS
                 EptA_B_N   2 laalllllsllslryllkpllilllllsaaasYfmdtYgvvidkdMirNvleTdvaEasellslklllyllllgvlPallllrvki 87 
                              ++++++ll+l+  +y +kp+li ll+ls +a+Y+md+Yg+v+d++M+ N+++Td++Ea +lls++ll+yl++l+++P+++++++++
  PHY93_00300|PHY93_00300  52 TSFINILLNLVRSKYATKPILISLLFLSTLAAYVMDSYGTVLDDTMFLNIFNTDTHEAFDLLSFRLLIYLIFLWIIPSFIIYKINL 137
                              6899********************************************************************************** PP

                              ----HHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHH-TTGGGGSTTHHHHHHHHHHHHH CS
                 EptA_B_N  88 krksllkellkrlalllvallvivlvallfykdyaslfRnnkelrylinPtnyiyslvkylkk 150
                              ++ s+++e l+rl++ll ++l+iv+++++f k+yas+fR++k+lry++nPt+yiys+ ky+++
  PHY93_00300|PHY93_00300 138 TSFSFKEEALSRLKSLLGSVLLIVVLLFSFGKNYASFFREQKTLRYYTNPTYYIYSVGKYISH 200
                              ************************************************************986 PP

>> Sulfatase  Sulfatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  151.5   0.1   3.7e-48   3.4e-44       2     308 ..     227     514 ..     226     515 .. 0.93

  Alignments for each domain:
  == domain 1  score: 151.5 bits;  conditional E-value: 3.7e-48
                              EEEEEEESSE-TTGSGGGTTTSCSSHHHHHHHHTSEEESSEE-SSSSHHHHHHHHHHSS-HHHHTHSSCCSTTTHHCTTTS-HHHH CS
                Sulfatase   2 nvvliladdlgagdlglyggktattpnldrlaeeglrftnfysaaplcspsraalltgryphnsgvasntevgggglpqteatLpe 87 
                               +v+++++++++++++l+g+k +t+p+l+   e+ + f+n+ s++++++ s++++++ + +  ++         ++++ ++++L++
  PHY93_00300|PHY93_00300 227 LIVFVVGETARRDHFSLNGYKKETNPYLK--KENVVSFSNMTSCGTSTAISVPCIFSNFGRSKFN---------NEKAASTENLLD 301
                              69**************************9..9*********************************.........************ PP

                              HHHHTT-EEEEEEES-SCCSGGGSHHCCTTTSEEEETSSSCHHTCCCCCCCCCECTCCCTTTTCSHHHHHHHHHHHHHHCCC.TSS CS
                Sulfatase  88 llkeaGYntaaigkwhlgwssrqsvyknrgfdrflgfptgsaalkdpekseyngevlrvppeggysddrlldealefllarn.dkp 172
                              +l           k +  w +++s  k+      ++    ++++k+p+ ++ ++        +++ d  +l  +++++ +++ d +
  PHY93_00300|PHY93_00300 302 ILSHT-------KKVNILWRDNNSNSKG------VALRVPYEDYKQPPLNTICD--------PECRDVGMLVGLQDYI-NTKkDGN 365
                              **977.......4666799999995443......55556689999999999886........67*************7.5555*** PP

                              EEEEEEE-TTSSSTCTCGGHTCCGSTTTTCCCCCCH......HHHHHHHHHHHHHHHHHHHHHHHHHHTTTGGGEEEEEEESSSSC CS
                Sulfatase 173 fflylatlapHappeapdeyakkyatffddgseaar......qlleaylnsveyvDdligrvlaaLeenglldntlvvftSDhgas 252
                               f++l+ +++H+ p + ++y+ ++++f++ +++++       +  +ay+n+  y+D ++++v+  L+en  +  t ++++SDhg+s
  PHY93_00300|PHY93_00300 366 VFIVLHQMGNHG-PAYYKRYPPAFEKFKPVCQTNELekcsneEINNAYDNATLYTDFFLSKVISLLKENSSNFGTSMFYISDHGES 450
                              ***********6.8********************66777777******************************************** PP

                              CCGHHTTSSSCTTCSSSHHHHBEEEEEEETTTSHC........EEECSEEEGGGHHHHHHHHTT CS
                Sulfatase 253 leesngplrggkganayeggtrvPllvwwpgekap........rvseelvshiDlfptildlag 308
                              l+e++ +l+  +++ a++++ ++ +++w+ g  a+        ++  +++sh+++f+t+l+l+ 
  PHY93_00300|PHY93_00300 451 LGEKGLYLHSLPYFMAPDEQKNIAAVLWFGGDTAKninydllkKKAVKPYSHDNIFHTFLGLMK 514
                              *******************************************999***************996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (533 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       907  (0.0505884); expected 358.6 (0.02)
Passed bias filter:                      428  (0.0238719); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.59u 0.23s 00:00:00.82 Elapsed: 00:00:00.41
# Mc/sec: 3938.04
//
Query:       PHY93_00305|PHY93_00305  [L=258]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      6e-43  146.9   0.0    7.3e-43  146.6   0.0    1.1  1  DTW       DTW domain


Domain annotation for each model (and alignments):
>> DTW  DTW domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  146.6   0.0   4.1e-47   7.3e-43       2     197 ..      24     220 ..      23     221 .. 0.93

  Alignments for each domain:
  == domain 1  score: 146.6 bits;  conditional E-value: 4.1e-47
                      DTW   2 elCerCllpaevclcsslppleklpikvlilqhpkEkkkst.ntarllalslanlrvvvgsdveeeaklsallkdpkrksvllFPs 86 
                              ++C +C + +++clc  ++p+ +  +++++l hp E k+++ +t+++ + sl n+++++g d++e+ +++al+++pk+ +++l+P+
  PHY93_00305|PHY93_00305  24 DFCFNCVRIKKNCLCGLIKPFYTD-FHFVLLLHPMEAKREKmGTGKISKISLLNSHMITGVDFTEDLQVNALINNPKNYCMVLYPG 108
                              79******************7766.***********888888******************************************** PP

                      DTW  87 knaksledllaseaakasekkeefeekrlillDGTWsqAkkilrrnprledlpqvkLkkgesseyerlRkqpkkgclSTiEaiaya 172
                              k a+++++    + a   +kk ++ ++++ l+DGTW+ Akk++r++ +l+ lp+++++++++s + ++++qp++ clSTiE+i+ +
  PHY93_00305|PHY93_00305 109 KGAINVSEG---DVAPLIDKKVRGLRLVVFLIDGTWPCAKKMMRQSHNLQILPRISFTANHTSIF-EIKEQPADFCLSTIESIHFF 190
                              ****99753...3344455677888999999**********************************.******************** PP

                      DTW 173 Lkele.....eekealdnLldvfkamvekq 197
                              ++e++     + +  +dn+ dvfkam+++q
  PHY93_00305|PHY93_00305 191 IQECNrkgleKTDGMEDNMIDVFKAMINFQ 220
                              ***999999877789************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (258 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       552  (0.0307881); expected 358.6 (0.02)
Passed bias filter:                      397  (0.0221429); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.42
# Mc/sec: 1859.02
//
Query:       PHY93_00310|PHY93_00310  [L=71]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    9.9e-28   95.8   1.3    1.1e-27   95.7   1.3    1.0  1  QSregVF_b  Putative quorum-sensing-regulated virulence factor


Domain annotation for each model (and alignments):
>> QSregVF_b  Putative quorum-sensing-regulated virulence factor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   95.7   1.3   6.1e-32   1.1e-27       2      66 .]       6      70 ..       5      70 .. 0.98

  Alignments for each domain:
  == domain 1  score: 95.7 bits;  conditional E-value: 6.1e-32
                QSregVF_b  2 kelleelvktkmPFGkYkgrllidlPeeYlvWfarkGFPkgkLGellalvleiklngLesllkpl 66
                             +++l +l++t mPFGkYkg+llidlPe+Y+vWf  +G P+g++G+ll l++eiklngLe+l++pl
  PHY93_00310|PHY93_00310  6 QNELVKLATTYMPFGKYKGTLLIDLPETYVVWFYGQGLPDGQIGKLLGLLYEIKLNGLEDLVRPL 70
                             5789***********************************************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (71 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       166  (0.00925874); expected 358.6 (0.02)
Passed bias filter:                      159  (0.00886831); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.34u 0.20s 00:00:00.54 Elapsed: 00:00:00.34
# Mc/sec: 616.98
//
Query:       PHY93_00315|PHY93_00315  [L=219]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.3e-40  138.2   0.0    2.8e-40  137.9   0.0    1.0  1  DUF2459   Protein of unknown function (DUF2459)


Domain annotation for each model (and alignments):
>> DUF2459  Protein of unknown function (DUF2459)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  137.9   0.0   1.5e-44   2.8e-40       2     170 ..      45     212 ..      44     213 .. 0.98

  Alignments for each domain:
  == domain 1  score: 137.9 bits;  conditional E-value: 1.5e-44
                  DUF2459   2 ylvsngvHtdivlpvktelldwseelkleklkskaseykylefGWGdkgFYletptwadlkvstalkAlflpsesvlhvtgykpla 87 
                              y++   +Ht++++p+ ++l+dw++ ++++++++k  + +++++GWG k+F+l+++  ++lkv  +lk ++lpses+lhv++  +l+
  PHY93_00315|PHY93_00315  45 YIAAGSIHTEFIFPISNSLFDWTQLIPINQVTNKIINPQFISIGWGSKDFFLNMKDLSSLKVLVVLKTIILPSESALHVEYILDLK 130
                              788999***************************************************************************99988 PP

                  DUF2459  88 eeseevkkiklseeeyarLlafieasferdeqgkvieiakasygkddaFyeAkgsYsllntCNtWtaeaLkaaglktalwtpl 170
                               +    +++ l++ ey +L+++i++ f  d++g+v++i++ sy+++d+F++++ +Y++lntCN Wt ++Lk  + + ++w+pl
  PHY93_00315|PHY93_00315 131 -DTLPARPLYLTSGEYLKLITYIKDYFLLDSKGNVQKINEFSYYNTDKFFKSHHQYTILNTCNIWTLKGLKIINARRPVWSPL 212
                              .8899***************************************************************************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (219 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       647  (0.0360868); expected 358.6 (0.02)
Passed bias filter:                      324  (0.0180713); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.20s 00:00:00.61 Elapsed: 00:00:00.34
# Mc/sec: 1903.77
//
Query:       PHY93_00320|PHY93_00320  [L=266]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.6e-45  153.8   0.4    6.8e-45  153.3   0.4    1.2  1  DUF3494   Protein of unknown function (DUF3494)


Domain annotation for each model (and alignments):
>> DUF3494  Protein of unknown function (DUF3494)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  153.3   0.4   3.8e-49   6.8e-45       2     209 .]      68     266 .]      67     266 .] 0.90

  Alignments for each domain:
  == domain 1  score: 153.3 bits;  conditional E-value: 3.8e-49
                              EESSEEE-TT-EEESSEEEESSS-.GGEES--B-STTBTTEES--.......EE-TT--.HH...HHHHHHHHHHHHHHHHHSSS- CS
                  DUF3494   2 laksgvtntGstvitGdiGvspas.taitGfadelatgtestsglvltG..kvyaadaa.aatpatltqAvadletAynalagrsl 83 
                               a++++++ +s++itG++G+ p+  + it  +          +++v  G  ++ya+d +  at+a + qA+ d+  Ayn+ +  ++
  PHY93_00320|PHY93_00320  68 FAHTSISSIPSSSITGKVGLRPGPrSLITLDP----------TEVV-GGlpEIYAGDDSdVATAAFVLQAKIDMINAYNEEERTVA 142
                              6899*******************988888777..........3334.34337999998856678999*************998877 PP

                              TT.-EEE--SB-TTEEEESEEEEESS-EEE-SS-EEEE-TT-TT--EEEEESS-EEE-TT--EEEETT--GGGEEEEESS-EEE-T CS
                  DUF3494  84 pd.itelgagelggrtLapGvYkstsavtittgdltLDaqGdanavwiFqiagtLtvasgssvvLinGAqaknvfWqvggsatlgt 168
                              ++    l +g+lg+++La+GvY+++s vti   dl L  +G++++vwiF++ag+L v+++ +v+L +GA+a+nvfWqvg+ + + +
  PHY93_00320|PHY93_00320 143 DAdKIGLWNGNLGNKVLAAGVYEWKSRVTIPL-DLKL--EGNETDVWIFKVAGQLRVGTDVHVTLSGGAKASNVFWQVGDDVLIRA 225
                              763335566*********************66.9999..*********************************************** PP

                              T-EEEEEEEESS-EEE-TT-EEEEEEEESSSEEEESS-EEE CS
                  DUF3494 169 gstfeGtilaqtsitlstgatvnGrllaqtgaVtLdnntit 209
                               s+++Gti++q+  +++++a++ Gr++ +++++ Ld+ntit
  PHY93_00320|PHY93_00320 226 RSSMVGTIISQQTFEMKEQASLVGRAFVKNDKLVLDKNTIT 266
                              ***************************************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (266 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       520  (0.0290033); expected 358.6 (0.02)
Passed bias filter:                      423  (0.0235931); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.19s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 2069.60
//
Query:       PHY93_00325|PHY93_00325  [L=221]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.7e-11   43.1   6.0    4.7e-11   43.1   6.0    3.0  3  PAP2_C    PAP2 superfamily C-terminal
      4e-06   26.6   7.1      4e-06   26.6   7.1    3.0  2  PAP2      PAP2 superfamily
    5.3e-05   23.0  14.3    5.3e-05   23.0  14.3    2.8  2  PAP2_3    PAP2 superfamily


Domain annotation for each model (and alignments):
>> PAP2_C  PAP2 superfamily C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   1.4      0.13   7.5e+02      23      47 ..      14      38 ..       5      48 .. 0.50
   2 ?   -1.3   0.5      0.54   3.2e+03      33      45 ..      99     111 ..      70     117 .. 0.53
   3 !   43.1   6.0   7.9e-15   4.7e-11       3      71 ..     141     202 ..     140     206 .. 0.92

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.13
                   PAP2_C 23 eyspkklailkvillllallglfli 47
                                +++++++++++ ++ l++++li
  PHY93_00325|PHY93_00325 14 TALRNRYFVVEFLISTVILVFIMLI 38
                             4444444444444444444444333 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 0.54
                   PAP2_C  33 kvillllallglf 45 
                               + l++l+ + ++
  PHY93_00325|PHY93_00325  99 AYALMVLTRIVMM 111
                              3333333333333 PP

  == domain 3  score: 43.1 bits;  conditional E-value: 7.9e-15
                   PAP2_C   3 gDlifSGHtvvltlavlfileyspkklailkvillllallglfliiasrkHYtvDVllglyittlvfll 71 
                              +Dl+fSGHt++++l++l++    pkk   lk+i l++++l  +++++++ HYtvDVl++ yi++++++l
  PHY93_00325|PHY93_00325 141 NDLFFSGHTATMFLLLLAV----PKK---LKWIFLIITILVAISVLIQKVHYTVDVLVAPYISFTCYHL 202
                              6**********99999876....778...699*********************************9964 PP

>> PAP2  PAP2 superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   3.5      0.46   2.7e+03      62      73 ..      74      85 ..       7     112 .. 0.60
   2 !   26.6   7.1   6.8e-10     4e-06      53     133 ..     141     209 ..     123     212 .. 0.81

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.46
                     PAP2 62 afafalalllal 73
                             ++ + l+++la+
  PHY93_00325|PHY93_00325 74 MIYGGLLFALAS 85
                             222233333333 PP

  == domain 2  score: 26.6 bits;  conditional E-value: 6.8e-10
                     PAP2  53 kesfPSgHsafafalalllalllrrkrkkiglvllalillllavlvalsRlylgvHflsDvlaGlliGialaalayrlvqk 133
                              ++ f SgH+a++f+l+l++    ++k  k       +i+l+ ++lva+s l++ vH++ Dvl++ +i++++  l+ ++++ 
  PHY93_00325|PHY93_00325 141 NDLFFSGHTATMFLLLLAV----PKK-LK-------WIFLIITILVAISVLIQKVHYTVDVLVAPYISFTCYHLILKFFYF 209
                              55689****9988765543....333.33.......5799999***************************99999888776 PP

>> PAP2_3  PAP2 superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.9   0.8     0.053   3.2e+02      51      77 ..      14      40 ..       9      45 .. 0.64
   2 !   23.0  14.3   8.8e-09   5.3e-05      35     187 ..      71     199 ..      41     202 .. 0.73

  Alignments for each domain:
  == domain 1  score: 0.9 bits;  conditional E-value: 0.053
                   PAP2_3 51 lflrrrerlreflttlllatllgllvy 77
                             ++lr+r  + efl++ ++++++ l+++
  PHY93_00325|PHY93_00325 14 TALRNRYFVVEFLISTVILVFIMLIFS 40
                             446666666666666666666666654 PP

  == domain 2  score: 23.0 bits;  conditional E-value: 8.8e-09
                   PAP2_3  35 aYaslhfqvtllvlvllflrrrerlreflttlllatllgllvyalfPaagPrlleeagfvdtvaaaslagalrdgasravllrgti 120
                              ++++  +   ll+++  +++ + rl  +  +++l++l+ +++++ +P  +P  +     + +++++   +      +++ l+++  
  PHY93_00325|PHY93_00325  71 IFSM--IYGGLLFALASLVSSPYRLMILFEAYALMVLTRIVMMFILPLSPPIGM-----ILLQDPFVEFF-----GTGKTLVNDL- 143
                              4443..222344455555899******************************777.....22222222222.....2223333333. PP

                   PAP2_3 121 englaafPSlHvawallvalalwrlrrkrllrvlalllnvlmivatvatgnHYlvDviaGvalalva 187
                                    f S H+a  +l++la     +k+ l++++l++ +l++++++ +  HY vDv+++  + + +
  PHY93_00325|PHY93_00325 144 ------FFSGHTATMFLLLLA----VPKK-LKWIFLIITILVAISVLIQKVHYTVDVLVAPYISFTC 199
                              ......89*****99999999....6666.6***************************987776665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (221 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1011  (0.0563891); expected 358.6 (0.02)
Passed bias filter:                      284  (0.0158403); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.39
# Mc/sec: 1713.32
//
Query:       PHY93_00330|PHY93_00330  [L=186]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.035   14.6   0.5      0.063   13.8   0.5    1.4  1  YflT      Heat induced stress protein YflT
      0.038   13.8   0.0      0.058   13.2   0.0    1.4  1  DUF3577   Protein of unknown function (DUF3577)
      0.044   14.1   2.6      0.077   13.3   2.6    1.4  1  zf-C4H2   Zinc finger-containing protein
      0.098   12.9   1.8       0.13   12.5   1.8    1.1  1  THOC7     Tho complex subunit 7


Domain annotation for each model (and alignments):
>> YflT  Heat induced stress protein YflT
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.5   1.4e-05     0.063       6      45 ..      55      94 ..      52     125 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 1.4e-05
                     YflT  6 neeellsaieelkaeGyneddiyvvakdkdrlerlaentd 45
                             +++e  ++i +l+aeG++++d++ +++dk + ++++++ +
  PHY93_00330|PHY93_00330 55 SIAEFEREIADLQAEGISNKDLIAYTTDKIKDKQIQNDIN 94
                             568999**********************999888886654 PP

>> DUF3577  Protein of unknown function (DUF3577)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   1.3e-05     0.058      66     116 ..      87     137 ..      45     146 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.3e-05
                  DUF3577  66 krlqkaveedkkvLisfklgdlkadaftlkkgdraGetaaslkgrLikikl 116
                              k++q++++e +kv+ + ++++ +a a+++++ + + +++as  gr i  ++
  PHY93_00330|PHY93_00330  87 KQIQNDINEMSKVIAETQMSNEEARAYIISRLSSTYSQGASWSGRRIGAHT 137
                              5899****************************9999999999999876655 PP

>> zf-C4H2  Zinc finger-containing protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   2.6   1.7e-05     0.077       7      90 ..      28     123 ..      22     127 .. 0.65

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.7e-05
                  zf-C4H2   7 ektleleklknklakevea..lekeekcleeykkelelLeqEkmaHveeL.........rlIhaDinalEsvikeaeeekeksle. 80 
                              e  + +++l+ kl  e ++  ++  +  + e+++e+  L+ E  +  + +         ++I++Din++ +vi e++ ++e++ + 
  PHY93_00330|PHY93_00330  28 ELNKTFDSLNYKLNVEWNQkdVQFFDASIAEFEREIADLQAEGISNKDLIayttdkikdKQIQNDINEMSKVIAETQMSNEEARAy 113
                              555556666666666655411344577888999999999988766544333333333556****************9887776651 PP

                  zf-C4H2  81 kakklyeeyk 90 
                               +++l++ y+
  PHY93_00330|PHY93_00330 114 IISRLSSTYS 123
                              5566766665 PP

>> THOC7  Tho complex subunit 7
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   1.8   2.9e-05      0.13      18     103 ..      28     112 ..      11     118 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 2.9e-05
                    THOC7  18 rltkrllklltslaesteeeleqlkedllldfaafelsierlqllakanerereryeae..keeieseieavreeieelkaqLeea 101
                               l k++++l       + e ++++ + + + +a+fe +i+ lq+   +n+  ++  +++   ++i++ i ++ + i+e + ++eea
  PHY93_00330|PHY93_00330  28 ELNKTFDSLNYK---LNVEWNQKDVQFFDASIAEFEREIADLQAEGISNKDLIAYTTDKikDKQIQNDINEMSKVIAETQMSNEEA 110
                              455555554444...46789999****************************8887776422689********************** PP

                    THOC7 102 ra 103
                              ra
  PHY93_00330|PHY93_00330 111 RA 112
                              97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (186 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1487  (0.0829383); expected 358.6 (0.02)
Passed bias filter:                      764  (0.0426125); expected 358.6 (0.02)
Passed Vit filter:                        63  (0.00351386); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 1446.15
//
Query:       PHY93_21235|PHY93_21235  [L=413]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.1e-12   45.9   1.6    4.4e-11   42.6   1.6    2.4  1  ATPase         KaiC
    2.4e-11   43.1   8.8    3.9e-11   42.5   8.8    1.4  1  Rubredoxin_2   Rubredoxin metal binding domain
    1.2e-09   38.0   0.3    3.4e-08   33.3   0.3    2.7  1  AAA_25         AAA domain
    9.3e-06   25.5   0.0    0.00031   20.5   0.0    2.5  1  AAA_24         AAA domain
    1.4e-05   24.6   0.0      0.048   13.0   0.0    2.7  3  DnaB_C         DnaB-like helicase C terminal domain
    0.00043   20.2   0.3     0.0016   18.4   0.2    1.9  1  RsgA_GTPase    RsgA GTPase
     0.0015   17.8   0.3        0.2   10.9   0.1    2.5  2  Rad51          Rad51
     0.0041   17.5   0.0     0.0087   16.5   0.0    1.6  1  AAA            ATPase family associated with various cellular
     0.0079   16.4   0.0      0.013   15.6   0.0    1.4  1  AAA_33         AAA domain
     0.0085   16.5   0.0      0.013   15.9   0.0    1.3  1  AAA_16         AAA ATPase domain
     0.0091   15.8   0.0      0.025   14.4   0.0    1.7  1  ChlI           Subunit ChlI of Mg-chelatase
  ------ inclusion threshold ------
       0.01   16.3   0.1      0.021   15.3   0.1    1.5  1  ABC_tran       ABC transporter
      0.012   15.4   0.1      0.024   14.4   0.1    1.5  1  AAA_29         P-loop containing region of AAA domain
      0.059   13.2   0.2         16    5.4   0.0    2.8  2  SinI           Anti-repressor SinI
      0.063   13.2   0.1       0.12   12.3   0.1    1.4  1  NACHT          NACHT domain
       0.09   12.5   0.0       0.17   11.6   0.0    1.4  1  VirE           Virulence-associated protein E
       0.11   13.1   0.0       0.24   11.9   0.0    1.6  1  DUF2061        Predicted membrane protein (DUF2061)
       0.12   12.5   0.1       0.27   11.3   0.1    1.7  1  MMR_HSR1       50S ribosome-binding GTPase
       0.14   12.3   0.7       0.34   11.1   0.7    1.7  1  Zn-ribbon_8    Zinc ribbon domain
       0.44   10.3   2.9       0.77    9.6   2.9    1.4  1  zinc_ribbon_2  zinc-ribbon domain
       0.45   10.5   3.6       0.55   10.3   1.3    2.4  3  HypA           Hydrogenase/urease nickel incorporation, metal


Domain annotation for each model (and alignments):
>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.6   1.6   5.1e-14   4.4e-11       3     204 ..      75     257 ..      73     277 .. 0.79

  Alignments for each domain:
  == domain 1  score: 42.6 bits;  conditional E-value: 5.1e-14
                   ATPase   3 tgIeglDeilkgGipegrvvlitGepGtGKtifalqFlikgaekygepgvfvtveepaedlrenakslGwdlekleeegklaiida 88 
                              + I ++D++l  Gi +g+v+l +GepG GK+++  q + k        g++v+ ee+ae++  ++k+lG  +e++   ++  i ++
  PHY93_21235|PHY93_21235  75 SNIGEFDRVLGKGIVRGSVTLFAGEPGIGKSTLLTQLIGKI------GGLYVAGEESAEQIALRVKRLGLSTERFDVFESNSIEEI 154
                              67999***************************998876443......69********************99888755433333333 PP

                   ATPase  89 sesaeesaeekdkedleelieelaeaikeikakrvviDsitgl.ayeekeavaReilrqlvrvlkklgvTailvsekssseeaagg 173
                                       e++ + ++ l + +  ++++i++ +   Ds +g   +  + +++Re  ++l+r  k+lg+   +v  ++++ +++ g
  PHY93_21235|PHY93_21235 155 ---------EEYLNRVKDLYKIV--VVDSIQVMAAFADSSGGPmGTVGSVSQIREVTFRLIRLAKNLGISIFIVGHVTKG-GEVAG 228
                              .........34556677777654..7999**********9998678889999****************987777777666.56666 PP

                   ATPase 174 ygveefivdgvivLdlkeieeelvRtleivk 204
                              +++ e++vd v+  + +++ +   R+l+  k
  PHY93_21235|PHY93_21235 229 PKLLEHMVDTVLYFEGEKNGD--LRILRTSK 257
                              666666****99988666655..45555555 PP

>> Rubredoxin_2  Rubredoxin metal binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.5   8.8   4.6e-14   3.9e-11       1      28 []       8      35 ..       8      35 .. 0.98

  Alignments for each domain:
  == domain 1  score: 42.5 bits;  conditional E-value: 4.6e-14
             Rubredoxin_2  1 YvCsqCGfesakwfGrCpsCgsWntlke 28
                             +vCs+CG+e++kw+G+C +Cg+Wn+lke
  PHY93_21235|PHY93_21235  8 FVCSSCGNEYSKWQGQCSACGEWNSLKE 35
                             8*************************98 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.3   0.3     4e-11   3.4e-08      26     193 ..      85     224 ..      80     225 .. 0.83

  Alignments for each domain:
  == domain 1  score: 33.3 bits;  conditional E-value: 4e-11
                   AAA_25  26 vkgllpagelallaGapgtGKttlaldlalavatGkpwlgpvapeqgkVlyvsaEdsedelrrRlravgealrddarllvldlagv 111
                               kg+ ++g+++l+aG pg GK+tl+++l  ++                 lyv++E+s+++++ R++++g      +r +v      
  PHY93_21235|PHY93_21235  85 GKGI-VRGSVTLFAGEPGIGKSTLLTQLIGKIG---------------GLYVAGEESAEQIALRVKRLGLST---ERFDVFES--- 148
                              5666.69*********************96664...............59*******************997...66666652... PP

                   AAA_25 112 eslpLfakdrggtlltadvdaleaaieeveg.vrlvviDplsralgg.densnsd........vgalvealeriarrtgaavllvh 187
                                                ++++e+ +++v++ ++ vv+D+++ + +  d+             ++++  +l r+a+++g+ +++v 
  PHY93_21235|PHY93_21235 149 ----------------NSIEEIEEYLNRVKDlYKIVVVDSIQVMAAFaDSSGGPMgtvgsvsqIREVTFRLIRLAKNLGISIFIVG 218
                              ................45788899999998889********9988774444433366666655799999***************** PP

                   AAA_25 188 HvgKes 193
                              Hv K +
  PHY93_21235|PHY93_21235 219 HVTKGG 224
                              ****87 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.5   0.0   3.6e-07   0.00031       6     132 ..      95     221 ..      90     263 .. 0.66

  Alignments for each domain:
  == domain 1  score: 20.5 bits;  conditional E-value: 3.6e-07
                   AAA_24   6 liyGpsgiGKTtlakel..gpkplfidtekGlksldadkfpdie....swedfldevvel.....aaeladyktlviDtideleel 80 
                              l  G++giGK+tl+++l  +   l++  e+++ ++   +++++      ++ f +   e      ++ ++ yk++v+D+i+ +  +
  PHY93_21235|PHY93_21235  95 LFAGEPGIGKSTLLTQLigKIGGLYVAGEESAEQIA-LRVKRLGlsteRFDVFESNSIEEieeylNRVKDLYKIVVVDSIQVMAAF 179
                              678**************8777779999999876554.3334343444544444333222256668999*************99988 PP

                   AAA_24  81 claevirqnekaeskedkgdgkGygelaeefrrllkklqelrknvifiahek 132
                              ++     +  +++           ++++e   rl++  ++l+  + +++h +
  PHY93_21235|PHY93_21235 180 ADSSGGPMGTVGSV----------SQIREVTFRLIRLAKNLGISIFIVGHVT 221
                              88776666666333..........4666666666666666666666666665 PP

>> DnaB_C  DnaB-like helicase C terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.9   0.0   0.00099      0.84       6      44 ..      77     116 ..      73     136 .. 0.74
   2 !   13.0   0.0   5.7e-05     0.048     101     178 ..     138     220 ..     121     230 .. 0.74
   3 ?   -2.0   0.0       2.2   1.8e+03     230     243 ..     254     267 ..     238     273 .. 0.75

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.00099
                              THHHHHHC.TSBXTTXEEEEEEXTTSSHHHHHHHHHHHHH CS
                              xxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   DnaB_C   6 fkdLDklt.sGlqkgdliiiAarpsmGktalalniaenaa 44 
                                ++D+++ +G+ +g +++ A+ p++Gk++l ++++ ++ 
  PHY93_21235|PHY93_21235  77 IGEFDRVLgKGIVRGSVTLFAGEPGIGKSTLLTQLIGKIG 116
                              56778765379********************999987654 PP

  == domain 2  score: 13.0 bits;  conditional E-value: 5.7e-05
                              HSEEEEEEXSSXCHHHHHHHHHHHHHHTTEEEEEEEEGGGTB...TSCS......SSCCCHHHHHHHHHHHHHHHHCTSXEEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   DnaB_C 101 eaklfiddtpaltvseirskarrlkkekglgliviDyLqlme...gsee......kenreqevseisrsLkalakelnvpvialsq 177
                               +   +d   + +++ei++ + r+k     +++v+D +q+m    +  +      +   ++++ e++ +L  lak+l + + ++  
  PHY93_21235|PHY93_21235 138 LSTERFDVFESNSIEEIEEYLNRVKD--LYKIVVVDSIQVMAafaD--SsggpmgTVGSVSQIREVTFRLIRLAKNLGISIFIVGH 219
                              55555666677899999999999966..7899**********5541..23455534478999*****************9987765 PP

                              X CS
                              x RF
                   DnaB_C 178 L 178
                              +
  PHY93_21235|PHY93_21235 220 V 220
                              5 PP

  == domain 3  score: -2.0 bits;  conditional E-value: 2.2
                              EEEEETTSXXEEEE CS
                              xxxxxxxxxxxxxx RF
                   DnaB_C 230 iiaKhRnGptgtvk 243
                                 K+R Gpt++v 
  PHY93_21235|PHY93_21235 254 RTSKNRFGPTDEVG 267
                              4689******9986 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.2   1.8e-06    0.0016      65     122 ..      56     114 ..      47     160 .. 0.78

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 1.8e-06
                              HHHHHHHHHHTTSEEEE--TTTHTTHHHHHH.HCTTSEEEEECSTTSSHHHHHHHHCTT CS
              RsgA_GTPase  65 leelkeelealgyevllvsaktkegleelke.llkdktsvlvGqSGvGKStLinallpe 122
                              +++l++   + g++ ++ s++ +e  + l +  +++++++++G+ G+GKStL+ +l+++
  PHY93_21235|PHY93_21235  56 VKKLSKIEIKEGMNSYVFSSNIGEFDRVLGKgIVRGSVTLFAGEPGIGKSTLLTQLIGK 114
                              666777777777777777777776666665514567********************987 PP

>> Rad51  Rad51
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.9   0.1   0.00023       0.2      24      57 ..      78     111 ..      47     157 .. 0.82
   2 ?    4.6   0.0      0.02        17     130     188 ..     162     222 ..     147     249 .. 0.74

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00023
                              HHHHHHHTSSEESSSEEEEEESTTSSHHHHHHHH CS
                    Rad51  24 kklDelLgGGietgsiteifGefrsGktqlchtl 57 
                               ++D++Lg Gi  gs+t   Ge + Gk+ l  +l
  PHY93_21235|PHY93_21235  78 GEFDRVLGKGIVRGSVTLFAGEPGIGKSTLLTQL 111
                              589*************************998776 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.02
                              HS-EEEEEEETT..TGGGCH-------THHHHHHHHHHHHHHHHHHHHH--EEEEEEE--- CS
                    Rad51 130 edkfallivDsv..talyRtdfsgrgelakRqqklgkllrtLrkladefevavvitnqvva 188
                              +d +++++vDs+  +a +     g         ++ ++  +L +la++ +++++i  +v++
  PHY93_21235|PHY93_21235 162 KDLYKIVVVDSIqvMAAFADSSGGPMGTVGSVSQIREVTFRLIRLAKNLGISIFIVGHVTK 222
                              567999****9732566654444433334455789999999*************9999976 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0     1e-05    0.0087       2      72 ..      95     178 ..      94     199 .. 0.72

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 1e-05
                              EEESSTTSSHHHHHHHHHHHH.........T.....HEEEEEETTTCSSS....STTHHHHHHHHHHHHHHHTSTSEEEEEETGGG CS
                      AAA   2 llyGppGtGKTllakavakel.........g.....vefleisgsellsk....yvgesekkirelfkeakekakpsilfiDEida 69 
                              l+ G pG+GK++l  +++ ++         +      ++ ++ +s+   +    + ++s ++i+e+++++k     +i+++D i  
  PHY93_21235|PHY93_21235  95 LFAGEPGIGKSTLLTQLIGKIgglyvageeSaeqiaLRVKRLGLST---ErfdvFESNSIEEIEEYLNRVKDLY--KIVVVDSIQV 175
                              89******************74333333331222223344444444...1455599999**********99987..9*****9998 PP

                              HHH CS
                      AAA  70 lak 72 
                              +a 
  PHY93_21235|PHY93_21235 176 MAA 178
                              875 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   1.6e-05     0.013       1     102 [.      93     217 ..      93     222 .. 0.64

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 1.6e-05
                   AAA_33   1 lvllvGlpGsGKstlaerllkklgavllssdt................lrrrlfg.tdqqsktdytrvldr.....lyqilnelar 64 
                              ++l+ G pG GKstl+++l+ k g+  ++  +                +r+ +f+ +  + +++y +  ++     + + ++ +a+
  PHY93_21235|PHY93_21235  93 VTLFAGEPGIGKSTLLTQLIGKIGGLYVAGEEsaeqialrvkrlglstERFDVFEsNSIEEIEEYLNRVKDlykivVVDSIQVMAA 178
                              6899***************9999966666555556666666666655566666665444444455554444133333335556666 PP

                   AAA_33  65 kalsagrnvildatnlsrrera.rflklarrlgvpvriv 102
                               a s+g+++ +     + re   r+++la++lg  + iv
  PHY93_21235|PHY93_21235 179 FADSSGGPMGTVGSVSQIREVTfRLIRLAKNLGISIFIV 217
                              666777777777777777777667777777777666655 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.0   1.5e-05     0.013      24      49 ..      91     116 ..      78     211 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 1.5e-05
                   AAA_16  24 pelvllsGesGvGKsslvrellrale 49 
                              ++++l+ Ge+G+GKs+l+++l   + 
  PHY93_21235|PHY93_21235  91 GSVTLFAGEPGIGKSTLLTQLIGKIG 116
                              4789**************99875554 PP

>> ChlI  Subunit ChlI of Mg-chelatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.0   2.9e-05     0.025      32      99 ..     343     409 ..     329     411 .. 0.83

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 2.9e-05
                     ChlI  32 alknsgfefpakkitvnLaPadlkkeGsafDLpiAigilaaleqieaeeetlflGeLsldGslrpvkg 99 
                              a kn g  + +  + v+++   +k e +  DL++  ++ +++++++  + ++++Ge+sl G++++vk+
  PHY93_21235|PHY93_21235 343 AQKNLGIPLYKYDVFVSVTGG-IKIEETGVDLAVLAAMWSSYKEKPLLKGVVYVGEVSLLGEVKRVKY 409
                              445566666666677777665.999999******99999*************************9986 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.3   0.1   2.5e-05     0.021       8      35 ..      88     115 ..      84     188 .. 0.75

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 2.5e-05
                              EETTSEEEEEESTTSSHHHHHHHHTTSS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran   8 lkegekvaivGenGaGKStLlkllagll 35 
                              + +g+++ + Ge G GKStLl  l+g+ 
  PHY93_21235|PHY93_21235  88 IVRGSVTLFAGEPGIGKSTLLTQLIGKI 115
                              56899******************99986 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.1   2.8e-05     0.024       8      39 ..      76     108 ..      71     112 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 2.8e-05
                   AAA_29   8 NWgtfdghtieidlkg.atlltGpsGsGKSTll 39 
                              N g+fd+   +  ++g +tl++G+ G GKSTll
  PHY93_21235|PHY93_21235  76 NIGEFDRVLGKGIVRGsVTLFAGEPGIGKSTLL 108
                              55777775555556788***************8 PP

>> SinI  Anti-repressor SinI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.9   0.1     0.026        22      18      28 .]     150     160 ..     150     160 .. 0.91
   2 ?    5.4   0.0     0.019        16       8      19 ..     203     214 ..     201     214 .. 0.92

  Alignments for each domain:
  == domain 1  score: 4.9 bits;  conditional E-value: 0.026
                              -SHHHHHHHHH CS
                     SinI  18 skeEfReFLef 28 
                              s+eE++e+L++
  PHY93_21235|PHY93_21235 150 SIEEIEEYLNR 160
                              89*******95 PP

  == domain 2  score: 5.4 bits;  conditional E-value: 0.019
                              HHHHHHHHT--S CS
                     SinI   8 LikEAkesGlsk 19 
                              Li  Ak+ G+s+
  PHY93_21235|PHY93_21235 203 LIRLAKNLGISI 214
                              9*********96 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.1   0.00014      0.12       2      24 ..      93     115 ..      92     137 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00014
                              CEEEEC-TTTCHHHHHHHHHHHH CS
                    NACHT   2 lvilqGeaGsGKTtLlqklalaw 24 
                              + +  Ge+G+GK+tLl +l+ ++
  PHY93_21235|PHY93_21235  93 VTLFAGEPGIGKSTLLTQLIGKI 115
                              56789*************99776 PP

>> VirE  Virulence-associated protein E
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0    0.0002      0.17      39     126 ..      78     165 ..      54     174 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.0002
                     VirE  39 aavarvlePgiKfDfvlvLvGkqgsgKstflekl.gee..wftdslksvedkdavekiqgvliveiaEleasnkaeveaiKafitr 121
                              +   rvl  gi    v+   G+ g+gKst+l++l g+    ++    ++e  +++    + l + ++ ++ ++   +e+i +++ r
  PHY93_21235|PHY93_21235  78 GEFDRVLGKGIVRGSVTLFAGEPGIGKSTLLTQLiGKIggLYVA---GEESAEQIALRVKRLGLSTERFDVFESNSIEEIEEYLNR 160
                              445689999999999*******************5543445655...5555567777778899999*****************999 PP

                     VirE 122 kkdkf 126
                               kd +
  PHY93_21235|PHY93_21235 161 VKDLY 165
                              98865 PP

>> DUF2061  Predicted membrane protein (DUF2061)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   0.00028      0.24       5      49 ..     199     246 ..     196     247 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00028
                  DUF2061   5 lswrvihtvvtflvaylltgslalAgaia...lvEpvvktvlYyfHER 49 
                              +++r+i ++  ++++ +++g ++ +g +a   l+E +v tvlY+  E+
  PHY93_21235|PHY93_21235 199 VTFRLIRLAKNLGISIFIVGHVTKGGEVAgpkLLEHMVDTVLYFEGEK 246
                              89**************************966679*********97665 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.1   0.00031      0.27       3      22 ..      95     114 ..      93     172 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00031
                              EEEESTTSSHHHHHHHHHTS CS
                 MMR_HSR1   3 aivGrpNvGKStLinaltge 22 
                              +++G p  GKStL+ +l+g+
  PHY93_21235|PHY93_21235  95 LFAGEPGIGKSTLLTQLIGK 114
                              589***************96 PP

>> Zn-ribbon_8  Zinc ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.7    0.0004      0.34       6      35 ..       8      31 ..       7      36 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.0004
              Zn-ribbon_8  6 YrCeeCghefevlqsisdapltaCPeCgs.e 35
                             + C +Cg+e+ ++q        +C +Cg+ +
  PHY93_21235|PHY93_21235  8 FVCSSCGNEYSKWQG-------QCSACGEwN 31
                             89***********94.......599999865 PP

>> zinc_ribbon_2  zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   2.9    0.0009      0.77       2      21 ..      10      29 ..       9      29 .. 0.95

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.0009
            zinc_ribbon_2  2 CpnCGaelqdnakFCpyCGt 21
                             C++CG+e ++ +  C+ CG+
  PHY93_21235|PHY93_21235 10 CSSCGNEYSKWQGQCSACGE 29
                             *******************6 PP

>> HypA  Hydrogenase/urease nickel incorporation, metallochaperone, hypA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   1.3   0.00065      0.55      65      95 ..       2      30 ..       1      39 [. 0.82
   2 ?   -2.2   0.0       4.9   4.2e+03      15      38 ..      48      71 ..      44      79 .. 0.73
   3 ?   -2.9   0.0         8   6.8e+03      37      60 ..     369     392 ..     367     397 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00065
                             EEE--EEEETTTS-EEECHHHHHS-TTTSSS CS
                     HypA 65 eevpvkvrCreCgkefeleekalrCpkCgsa 95
                             ++++ ++ C++Cg+e+++   + +C +Cg+ 
  PHY93_21235|PHY93_21235  2 KKKETVFVCSSCGNEYSKW--QGQCSACGEW 30
                             5678899*********966..458****986 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 4.9
                             HHHHCCTT..EEEEEEEEEETTCT CS
                     HypA 15 eeeakeaaarkvtkvkvevGelsg 38
                             ++ a++ +++k +k++++ G  s 
  PHY93_21235|PHY93_21235 48 RRVAEKVEVKKLSKIEIKEGMNSY 71
                             455666788888999888887665 PP

  == domain 3  score: -2.9 bits;  conditional E-value: 8
                              CT--HHHHHHHHHHHHCC.TTTT- CS
                     HypA  37 sgvepeaLefafellaegtvlega 60 
                              +gv+  +L+ +++ ++e+ +l+g 
  PHY93_21235|PHY93_21235 369 TGVDLAVLAAMWSSYKEKPLLKGV 392
                              57888999999*999999888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (413 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       914  (0.0509789); expected 358.6 (0.02)
Passed bias filter:                      755  (0.0421105); expected 358.6 (0.02)
Passed Vit filter:                       127  (0.0070835); expected 17.9 (0.001)
Passed Fwd filter:                        21  (0.00117129); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              21  [number of targets reported over threshold]
# CPU time: 0.65u 0.26s 00:00:00.91 Elapsed: 00:00:00.43
# Mc/sec: 2908.93
//
Query:       PHY93_05580|PHY93_05580  [L=56]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (56 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1917  (0.106922); expected 358.6 (0.02)
Passed bias filter:                      388  (0.0216409); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.35u 0.21s 00:00:00.55 Elapsed: 00:00:00.36
# Mc/sec: 470.02
//
Query:       PHY93_00335|PHY93_00335  [L=254]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (254 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       579  (0.032294); expected 358.6 (0.02)
Passed bias filter:                      448  (0.0249875); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.35
# Mc/sec: 2154.48
//
Query:       PHY93_00340|PHY93_00340  [L=421]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (421 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1076  (0.0600145); expected 358.6 (0.02)
Passed bias filter:                      448  (0.0249875); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.36
# Mc/sec: 3527.80
//
Query:       PHY93_00345|PHY93_00345  [L=393]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0066   16.0   0.0      0.014   15.0   0.0    1.5  1  DUF2268   Predicted Zn-dependent protease (DUF2268)


Domain annotation for each model (and alignments):
>> DUF2268  Predicted Zn-dependent protease (DUF2268)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   7.8e-07     0.014      64     152 ..     247     329 ..     232     332 .. 0.79

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 7.8e-07
                  DUF2268  64 rlaallaHEyhHvvrlkqlekeeksiTllesivlEGlAesfatelvgeeklapwtskldeetleellkkvikeeldlkgfsevsey 149
                               + +++ HE+ H+   ++le +        + v EGlA++fa ++   +kla   + ++  + +++ kk   + + ++g++  +++
  PHY93_00345|PHY93_00345 247 LVPEIIYHEFSHAALSDHLELS------HSTPVNEGLADYFAGKIANSKKLAMKIKDYNLFNGKQVKKKQQYQMAFERGEYANTDF 326
                              578899**************76......456799****************998888888877755555554444445588888888 PP

                  DUF2268 150 lyG 152
                              ++G
  PHY93_00345|PHY93_00345 327 VFG 329
                              877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (393 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       565  (0.0315132); expected 358.6 (0.02)
Passed bias filter:                      348  (0.0194099); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.38
# Mc/sec: 3137.19
//
Query:       PHY93_00350|PHY93_00350  [L=667]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.9e-91  306.3   3.3    7.7e-91  305.6   3.3    1.3  1  Peptidase_M13_N  Peptidase family M13
    5.6e-70  235.1   0.3    1.2e-69  234.0   0.3    1.6  1  Peptidase_M13    Peptidase family M13
  ------ inclusion threshold ------
      0.095   13.0   0.3        0.5   10.6   0.1    2.1  2  MMR1             Mitochondrial Myo2 receptor-related protein
       0.21   12.1   1.8       0.47   11.0   1.0    2.1  2  Glucosaminidase  Mannosyl-glycoprotein endo-beta-N-acetylgluc


Domain annotation for each model (and alignments):
>> Peptidase_M13_N  Peptidase family M13
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  305.6   3.3   1.7e-94   7.7e-91       1     382 []      43     421 ..      43     421 .. 0.92

  Alignments for each domain:
  == domain 1  score: 305.6 bits;  conditional E-value: 1.7e-94
          Peptidase_M13_N   1 PCdDFYeyaCGnWlkehpipadkssygtfeelqeelekqlreilee..kpsskedakavkkaktlYksCmdedaieklglkplldl 84 
                              PC+DF++yaCGnWlk++p+padk+++  f+e++e++  +l++il++    ++ + ++  +k++++Y++C+d d++e    + +  l
  PHY93_00350|PHY93_00350  43 PCEDFFQYACGNWLKTNPVPADKAELYRFTEIDENTLLILKNILQTyqRGENMPPQAESQKLGNAYSACLDIDKNEISAKEVMAAL 128
                              9************************************99*****7654222222333556*************9999888889999 PP

          Peptidase_M13_N  85 lkelggldsnwkdkfdllellaklrrygidilfslgvdpdpkdpsknvlyldqpglglpdreyylkerdekeeeileaykeylakl 170
                              lk+   l    ++k +l+ lla l++ gi+++f ++  ++p + ++++ ++dq+g+glp+++yy++   +++ ei+++y +++   
  PHY93_00350|PHY93_00350 129 LKKNHFL----QNKNNLMPLLAGLHEQGINPFFTIYAMQNPGEATQMIGTVDQAGMGLPEKSYYFD---KDNLEIRTQYVTHIYHS 207
                              9998877....6889****************************9********************74...45677************ PP

          Peptidase_M13_N 171 lkllge...eaaelaeevvefekklakitldseerrdpeklynpmtlaelqklapqidwkaylsa.llertsssekvivtepeylk 252
                              l l+g    ea e+a++++++e+++aki+l++ e++dp k+ynp+    lqkl pq+dw  y++a  +e   +s+++++ +p+y+k
  PHY93_00350|PHY93_00350 208 LLLAGIrstEALEQAKKIFKLESEIAKISLSAIEQQDPVKTYNPIGKMSLQKLSPQMDWSIYFKAlHFE---TSDTLNIVSPQYFK 290
                              **9877443468899*****************************9999999999***********4344...69************ PP

          Peptidase_M13_N 253 klskllaettpkrtlanYllwrlvrelapylsdefrdakfefyk.tlsgreer.prwkrCvsqvnsllgmalgrlyvkkyfpeesk 336
                               ls+ll ++t+++++++Yl w++++e +++ +  +++++f+fy+ tl+g++e+ p wk+Cvs v++ lg+alg+ ++k +f +esk
  PHY93_00350|PHY93_00350 291 RLSALL-NKTSLTDIKAYLDWQIIHETSNFSTLALQQEYFNFYGkTLNGKKEQaPHWKKCVSSVDKSLGEALGEAFIKVAFGQESK 375
                              ******.66******************************************998******************************** PP

          Peptidase_M13_N 337 kdveemvedikeafkerlkeldWmdeetkkkAleKldamklkigyP 382
                              + ++++v ++k+++ke++ +ldWmd etk  Al+K++++++k+g+P
  PHY93_00350|PHY93_00350 376 DMADTLVANVKSSLKEMITKLDWMDVETKTGALKKMQSLNQKVGFP 421
                              *********************************************9 PP

>> Peptidase_M13  Peptidase family M13
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  234.0   0.3   2.8e-73   1.2e-69       1     203 [.     473     666 ..     473     667 .] 0.96

  Alignments for each domain:
  == domain 1  score: 234.0 bits;  conditional E-value: 2.8e-73
            Peptidase_M13   1 NAyYqpeensivfpaailqppffdleypeavNyggiGaviaHEltHgfddqgvqfdkegnlaswltdedaeefkekakclieqfse 86 
                              NAyY p++n+ivfpa+ilq+p+f+ + + a+Nyg++Ga+i+HE+tHgfdd+g q+d+ gnl++w+ +++++ +keka+cli+q+s 
  PHY93_00350|PHY93_00350 473 NAYYDPTMNEIVFPAGILQAPLFNVHSSIAANYGATGATIGHEMTHGFDDSGSQYDELGNLKNWWSEKSSQTYKEKAQCLIKQYSS 558
                              9************************************************************************************* PP

            Peptidase_M13  87 vtepektkavngaltlgEniADlggleiAyraykklksakeerlpelenltkdqlfFisyAqiwcekqsdeellrqllvdvHspae 172
                              +t++e + ++ng+l +gEniADlggl++A+ ay+k     ++++   +  ++ ++fFi+yAq+wc + ++e++ +q+  d+Hs ++
  PHY93_00350|PHY93_00350 559 YTTNEGI-HLNGELSIGENIADLGGLKVALAAYNK----TNSQVL--D--SDLKIFFIAYAQSWCGQLTKEAARTQINSDTHSLPK 635
                              ******9.**************************5....333343..3..558********************************* PP

            Peptidase_M13 173 lRvngvlsnlpaFaeaFnckegskmypekek 203
                              +Rvngv+snlp+Fa+aF+c  +++m+p++++
  PHY93_00350|PHY93_00350 636 FRVNGVVSNLPEFADAFQCMDTQAMAPKNRC 666
                              ****************************999 PP

>> MMR1  Mitochondrial Myo2 receptor-related protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.0      0.34   1.5e+03      37      62 ..     128     153 ..     123     180 .. 0.80
   2 ?   10.6   0.1   0.00011       0.5     161     233 ..     392     465 ..     315     475 .. 0.85

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 0.34
                     MMR1  37 MLKpEYlsqkqnsnlPllSallknss 62 
                              +LK+  + q++n+ +Pll  l +++ 
  PHY93_00350|PHY93_00350 128 LLKKNHFLQNKNNLMPLLAGLHEQGI 153
                              58998887878899****99988664 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 0.00011
                     MMR1 161 tlleledle.tteaetlnpnnsveekkpavektkspskrivStssvassleevelnelpkdleldalptDknGF 233
                               ++ l+ +  +t++ +l++ +s ++k+   ++ k+ ++  vSt s   + ++ +l  ++++l   +lp+D+n+ 
  PHY93_00350|PHY93_00350 392 MITKLDWMDvETKTGALKKMQSLNQKVGFPKHFKTYHDLAVSTDSWFENQLTSNLFHFNENLKKANLPVDRNEW 465
                              34456667777888999999999**99999999999************************************86 PP

>> Glucosaminidase  Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0       1.1     5e+03      39      39 ..     250     250 ..     134     301 .. 0.57
   2 ?   11.0   1.0    0.0001      0.47      20      59 ..     310     437 ..     303     558 .. 0.57

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 1.1
                              - CS
          Glucosaminidase  39 N 39 
                              N
  PHY93_00350|PHY93_00350 250 N 250
                              2 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.0001
                              HHHHHHHTTT.TCHHHHHCT-TSE.B............................................................ CS
          Glucosaminidase  20 aqaalEsgwg.tsrlakeqnNlfGik............................................................ 44 
                               q ++E+ ++ t +l++e+ N++G k                                                            
  PHY93_00350|PHY93_00350 310 WQIIHETSNFsTLALQQEYFNFYG-Ktlngkkeqaphwkkcvssvdkslgealgeafikvafgqeskdmadtlvanvksslkemit 394
                              599*****99777***********.3234445555555555555555666666665555555555555555555555555555555 PP

                              ............................HCTE-SSHHHHHHHH CS
          Glucosaminidase  45 ............................kfrkydsveesirah 59 
                                                          +f++y +++ s +++
  PHY93_00350|PHY93_00350 395 kldwmdvetktgalkkmqslnqkvgfpkHFKTYHDLAVSTDSW 437
                              5555555555555555544444444444444555555555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (667 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       868  (0.0484132); expected 358.6 (0.02)
Passed bias filter:                      571  (0.0318478); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.65u 0.25s 00:00:00.90 Elapsed: 00:00:00.41
# Mc/sec: 4874.51
//
Query:       PHY93_00355|PHY93_00355  [L=246]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.063   13.6   0.0       0.15   12.4   0.0    1.6  1  CBM_6     Carbohydrate binding module (family 6)


Domain annotation for each model (and alignments):
>> CBM_6  Carbohydrate binding module (family 6)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   8.4e-06      0.15       8      68 ..      23      82 ..      19      91 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 8.4e-06
                             EES-EEEE--STTTSEEEE---TT-EEEEEEEEESSTEEEEEE.EEEEESSSEEEEEEEESS CS
                    CBM_6  8 qsgvslekataagggkavgyinnGdwlaYkdvdfgsggaysve.arvasgaaggsielrlds 68
                             ++++ + k +a+++g+a+g+   G+ l+++ +d++++ +   + +  +s++ +  i+l++ds
  PHY93_00355|PHY93_00355 23 EREFRINKNSATKNGYAIGWGIPGEKLDFEALDMKTDDEI--QqFITTSNVVNYLIDLHTDS 82
                             5667788888888************************994..436666666678*******9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (246 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       513  (0.0286129); expected 358.6 (0.02)
Passed bias filter:                      387  (0.0215851); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.20s 00:00:00.67 Elapsed: 00:00:00.39
# Mc/sec: 1893.34
//
Query:       PHY93_00360|PHY93_00360  [L=85]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (85 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       951  (0.0530426); expected 358.6 (0.02)
Passed bias filter:                      265  (0.0147805); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.23s 00:00:00.61 Elapsed: 00:00:00.39
# Mc/sec: 661.82
//
Query:       PHY93_00365|PHY93_00365  [L=176]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.086   13.0   0.0       0.16   12.1   0.0    1.4  1  PilN      Fimbrial assembly protein (PilN)


Domain annotation for each model (and alignments):
>> PilN  Fimbrial assembly protein (PilN)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   8.8e-06      0.16       2      51 ..      10      59 ..       9      69 .. 0.93

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 8.8e-06
                     PilN  2 lldeLsravPkgvwltsisqegnqltitGsAvsndeVaefmrnLegspff 51
                             +l +L+    ++ + t+i+ +++q++i+   ++  + a+++ +Le+s+f+
  PHY93_00365|PHY93_00365 10 VLTSLRALAAEKRYYTKINSSEAQVKIETDQKDSIQAASYVDGLENSKFI 59
                             5788999999999***********************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (176 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       613  (0.0341904); expected 358.6 (0.02)
Passed bias filter:                      402  (0.0224218); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.38
# Mc/sec: 1388.00
//
Query:       PHY93_00370|PHY93_00370  [L=83]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.3e-12   47.0   9.1    2.3e-12   47.0   9.1    2.1  2  Transgly_assoc   Transglycosylase associated protein
     0.0071   16.4   5.3     0.0097   15.9   5.3    1.3  1  ECF-ribofla_trS  ECF-type riboflavin transporter, S component
  ------ inclusion threshold ------
      0.055   13.6  11.8      0.069   13.3  11.8    1.2  1  DUF5518          Family of unknown function (DUF5518)
       0.11   12.5   2.6      0.072   13.0   0.8    1.6  2  RseC_MucC        Positive regulator of sigma(E), RseC/MucC
          2    8.6  11.8       0.98    9.6   1.2    2.2  2  Bacteriocin_IIc  Bacteriocin class II with double-glycine lea
        4.2    7.2  11.1       0.22   11.3   5.1    1.9  2  Gly-zipper_YMGG  YMGG-like Gly-zipper


Domain annotation for each model (and alignments):
>> Transgly_assoc  Transglycosylase associated protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   1.1     0.065   1.9e+02       4      17 ..       2      15 ..       1      22 [. 0.66
   2 !   47.0   9.1   7.7e-16   2.3e-12       3      45 ..      35      76 ..      33      79 .. 0.96

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.065
           Transgly_assoc  4 GivGAfvGgfllgl 17
                             GivG ++ gf  gl
  PHY93_00370|PHY93_00370  2 GIVGTIIIGFFVGL 15
                             77777776665544 PP

  == domain 2  score: 47.0 bits;  conditional E-value: 7.7e-16
           Transgly_assoc  3 lGivGAfvGgfllgllgigvgggelaslivaiiGAiILLfivr 45
                             +GivGAfvG fl++++gi +g  e+a+++ a+iGA+++L++++
  PHY93_00370|PHY93_00370 35 VGIVGAFVGRFLGQAIGI-YGVNEPAGFVGAVIGAVLVLALLK 76
                             8*****************.*********************986 PP

>> ECF-ribofla_trS  ECF-type riboflavin transporter, S component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   5.3   3.2e-06    0.0097      80     169 ..       3      77 ..       1      80 [. 0.92

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 3.2e-06
                              HHHHHHHHHHHHHH--S-S-SSH...HHHHHHHHHHHHHHHHHHHHHHHH..........S-HHHHHHHHHHHHHHHHHHHHHHHH CS
          ECF-ribofla_trS  80 liikgliGlivGliakklkknkengvfkilalvlfaivmvigyviaegllpildiiiysepaekvalqsipaniiqavvgaiialp 165
                              ++   +iG++vGl+a+ +k + +     +++l++   v+++g +++++l           +a  ++ ++ pa ++ av+ga+++l 
  PHY93_00370|PHY93_00370   3 IVGTIIIGFFVGLVARFIKPDDD-----KMGLLFTTSVGIVGAFVGRFLG----------QAIGIYGVNEPAGFVGAVIGAVLVLA 73 
                              57889*************77776.....99******************99..........9999********************** PP

                              HHHH CS
          ECF-ribofla_trS 166 Llka 169
                              Llk 
  PHY93_00370|PHY93_00370  74 LLKI 77 
                              9986 PP

>> DUF5518  Family of unknown function (DUF5518)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3  11.8   2.3e-05     0.069      23      98 ..       2      74 ..       1      79 [. 0.73

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 2.3e-05
                  DUF5518 23 psvgsllgllvgGlvaGylaggdskdgavaGalaGligaipv.lvlllvlllglvaaigglagfvallvalllvvll 98
                             + vg+++ +++ Glva ++  +d k g++  + +G++ga+++ + l  ++++     + ++agfv ++++++lv++l
  PHY93_00370|PHY93_00370  2 GIVGTIIIGFFVGLVARFIKPDDDKMGLLFTTSVGIVGAFVGrF-LGQAIGI---YGVNEPAGFVGAVIGAVLVLAL 74
                             5678999999999***************************9954.4444443...2455666666666666666333 PP

>> RseC_MucC  Positive regulator of sigma(E), RseC/MucC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.0      0.63   1.9e+03      97     105 ..       8      16 ..       1      26 [. 0.48
   2 ?   13.0   0.8   2.4e-05     0.072      75     117 ..      37      81 ..      26      82 .. 0.86

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 0.63
                RseC_MucC  97 algallglv 105
                              ++g ++glv
  PHY93_00370|PHY93_00370   8 IIGFFVGLV 16 
                              223333333 PP

  == domain 2  score: 13.0 bits;  conditional E-value: 2.4e-05
                RseC_MucC  75 llllilgallgsall..gssellaalgallglvlgflivrllskr 117
                              +++ ++g +lg+a++  g +e + ++ga++g+vl + ++++ ++r
  PHY93_00370|PHY93_00370  37 IVGAFVGRFLGQAIGiyGVNEPAGFVGAVIGAVLVLALLKITNNR 81 
                              456777777777777*************************99886 PP

>> Bacteriocin_IIc  Bacteriocin class II with double-glycine leader peptide
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   1.2   0.00033      0.98      27      59 ..       2      43 ..       1      46 [. 0.92
   2 ?    3.9   4.3      0.02        59      34      57 ..      46      69 ..      43      72 .. 0.82

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.00033
          Bacteriocin_IIc 27 givggalaGaatGaa.........tlgilgaavGavvGavvG 59
                             givg + +G  +G +          +g+l +++ ++vGa+vG
  PHY93_00370|PHY93_00370  2 GIVGTIIIGFFVGLVarfikpdddKMGLLFTTSVGIVGAFVG 43
                             7999999999999999********9999999999*******9 PP

  == domain 2  score: 3.9 bits;  conditional E-value: 0.02
          Bacteriocin_IIc 34 aGaatGaatlgilgaavGavvGav 57
                              G a+G++  +  ++ vGav+Gav
  PHY93_00370|PHY93_00370 46 LGQAIGIYGVNEPAGFVGAVIGAV 69
                             588999998888888899999987 PP

>> Gly-zipper_YMGG  YMGG-like Gly-zipper
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.3      0.81   2.4e+03      13      14 ..       9      10 ..       2      18 .. 0.47
   2 ?   11.3   5.1   7.2e-05      0.22       8      38 ..      37      69 ..      32      70 .. 0.71

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.81
                             XX CS
          Gly-zipper_YMGG 13 aG 14
                             +G
  PHY93_00370|PHY93_00370  9 IG 10
                             23 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 7.2e-05
                             XXXXXXXXXXXXXXX......XXXXXXXXXXXXXXXX CS
          Gly-zipper_YMGG  8 aiGAaaGAvvGaliG......sgggkGAaiGAaaGal 38
                              +GA +G  +G++iG              +GA++Ga+
  PHY93_00370|PHY93_00370 37 IVGAFVGRFLGQAIGiygvneP----AGFVGAVIGAV 69
                             689************9865332....34555555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (83 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       534  (0.0297841); expected 358.6 (0.02)
Passed bias filter:                      301  (0.0167884); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.38u 0.19s 00:00:00.57 Elapsed: 00:00:00.35
# Mc/sec: 701.10
//
Query:       PHY93_00375|PHY93_00375  [L=422]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (422 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       603  (0.0336327); expected 358.6 (0.02)
Passed bias filter:                      490  (0.02733); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.56u 0.21s 00:00:00.77 Elapsed: 00:00:00.41
# Mc/sec: 3090.62
//
Query:       PHY93_00380|PHY93_00380  [L=266]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    4.8e-46  157.0   0.3    6.2e-46  156.7   0.3    1.1  1  DUF3494     Protein of unknown function (DUF3494)
  ------ inclusion threshold ------
      0.027   14.8   0.2       0.16   12.3   0.2    2.3  1  Bactofilin  Polymer-forming cytoskeletal


Domain annotation for each model (and alignments):
>> DUF3494  Protein of unknown function (DUF3494)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  156.7   0.3   6.9e-50   6.2e-46       1     209 []      68     266 .]      68     266 .] 0.90

  Alignments for each domain:
  == domain 1  score: 156.7 bits;  conditional E-value: 6.9e-50
                              EEESSEEE-TT-EEESSEEEESSS-.GGEES--B-STTBTTEES--......EE-TT--HH...HHHHHHHHHHHHHHHHHSSS-T CS
                  DUF3494   1 ilaksgvtntGstvitGdiGvspas.taitGfadelatgtestsglvl.tGkvyaadaaaatpatltqAvadletAynalagrslp 84 
                              ila s++++ ++++i+G++G+ p+   +i   +           ++v  + +++ +d  +++   l +A+ d+ +Ay+++ +++++
  PHY93_00380|PHY93_00380  68 ILAYSSISSYPNSSINGKVGLLPGPrEQIILDP----------REVVGgATDIIGSDDETTPINLLSNAKVDMVMAYKEAVTLTPD 143
                              7899********************755555544..........3334323468888888888999******************987 PP

                              T.-EEE--SB-TTEEEESEEEEESS-EEE-SS-EEEE-TT-TT--EEEEESS-EEE-TT--EEEETT--GGGEEEEESS-EEE-TT CS
                  DUF3494  85 d.itelgagelggrtLapGvYkstsavtittgdltLDaqGdanavwiFqiagtLtvasgssvvLinGAqaknvfWqvggsatlgtg 169
                              +    l +g+lgg++L+pG Yk+++++ti++ d ++  +G  ++vwiF+i  +++vasg ++ L++GAq+kn+fWq++gsa+l+ g
  PHY93_00380|PHY93_00380 144 SdKIGLYEGKLGGKILSPGCYKWNGDLTINN-DFVI--EGTDTDVWIFKIPANFKVASGVHLSLAGGAQSKNIFWQIAGSAVLESG 226
                              74446777*********************55.****..9*********************************************** PP

                              -EEEEEEEESS-EEE-TT-EEEEEEEESSSEEEESS-EEE CS
                  DUF3494 170 stfeGtilaqtsitlstgatvnGrllaqtgaVtLdnntit 209
                              s f+Gti+aq+si++++ ++++Gr++a++g + L++ ti+
  PHY93_00380|PHY93_00380 227 SVFAGTIIAQQSIEMKNHSSLTGRVFAKNGYINLNQATIN 266
                              *************************************996 PP

>> Bactofilin  Polymer-forming cytoskeletal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.2   1.8e-05      0.16       8      88 ..     165     259 ..     158     266 .] 0.62

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 1.8e-05
               Bactofilin   8 kikGelevegdlridGkveGdi.........eakgklvvgeggkvegnikaee..vvvaGtvk........Gnveaeekvelkkta 74 
                              k +G+l++++d++i+G ++ d+         +    +  g + ++ g  ++++   ++aG+          G++ a++++e+k+++
  PHY93_00380|PHY93_00380 165 KWNGDLTINNDFVIEG-TDTDVwifkipanfK----VASGVHLSLAGGAQSKNifWQIAGSAVlesgsvfaGTIIAQQSIEMKNHS 245
                              5678888888888888.444444475543331....33333333444444444222344542223333335*************** PP

               Bactofilin  75 kveGdikaksleie 88 
                              +++G++ ak+  i+
  PHY93_00380|PHY93_00380 246 SLTGRVFAKNGYIN 259
                              ******99987765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (266 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       497  (0.0277205); expected 358.6 (0.02)
Passed bias filter:                      421  (0.0234815); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.20s 00:00:00.65 Elapsed: 00:00:00.36
# Mc/sec: 2237.03
//
Query:       PHY93_05585|PHY93_05585  [L=289]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-43  149.4   0.0    1.9e-43  148.9   0.0    1.2  1  Endonuclease_NS  DNA/RNA non-specific endonuclease
     0.0017   18.5   0.2     0.0039   17.3   0.2    1.6  1  Endonuclea_NS_2  DNA/RNA non-specific endonuclease


Domain annotation for each model (and alignments):
>> Endonuclease_NS  DNA/RNA non-specific endonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  148.9   0.0   2.1e-47   1.9e-43      12     219 ..      50     284 ..      39     289 .] 0.86

  Alignments for each domain:
  == domain 1  score: 148.9 bits;  conditional E-value: 2.1e-47
                              TSTTSEEEE-SSEEEEEETTTTEEEEEEEEESCGGGSS-TT--GG---B--.......TTS-CCSG---HHHCTTS.SSEEEESS- CS
          Endonuclease_NS  12 tsgddkvlfykgfsvsynkerriplwvaenldgasvnasaaerrgpsfkad.......pripqlsfrtqysdyagskgldRGHLaa 90 
                               + ++ ++++ ++++synk rr+p+w+a++l+ +++++s    r ++f +d       ++ pq+  ++ +++y+gs  +dRGH+++
  PHY93_05585|PHY93_05585  50 NEASEIIISRDQYVISYNKLRRSPNWTAWKLELDQIGNSG---RSNNFLQDidlenylNQSPQNLHAVDPTEYKGS-CFDRGHQIP 131
                              3344456999***************************995...999**9994444444455777777889999999.7******** PP

                              GGG--SSHHHHHHTTBGGGEEEE-HHHHCTHHHHHHHHHHHHHCTTS.EEEEEEEEES-ECC-EEEETT.TTEE--SEEEEEEEEE CS
          Endonuclease_NS  91 aadfkfsteanaatfnytNivPQvagfNqgnWlrlEnlvrklvrkydrklyvvtGpvfvprllyeligk.nkvavPthfwkvilse 175
                              +ad++ s+e+n+ tf+++N++PQ++++N++ W++lE+++r+lv+k+++k+y+++Gp+++++    lig  +++++P+  +kvi+  
  PHY93_05585|PHY93_05585 132 SADRTDSKENNQTTFFMSNMIPQTPNLNRVSWEHLEQYTRDLVQKQGKKAYIIAGPIYDQDFG--LIGPnKDIPIPSKDFKVIIIL 215
                              *************************************************************88..********************* PP

                              CCTTT..CEECCEEEE...EESSSS....................-TTS-GGGGB--HHHHHHHHT--T CS
          Endonuclease_NS 176 daddk..gtlnaaafl...lpnepi....................aderpltayqvpvdeleeltGldf 219
                              da+++  + +n++ ++   +pn                        d+ ++ +y+ ++ e+e+l+G+++
  PHY93_05585|PHY93_05585 216 DANQTpaDINNDTPIIsviMPNTLQdgskplsdmnqlckplspgpLDRNDWVKYKTTLSEVETLSGFKI 284
                              **877984444444444558888669999****************9********************876 PP

>> Endonuclea_NS_2  DNA/RNA non-specific endonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   0.2   4.3e-07    0.0039      73     117 ..     149     192 ..      76     199 .. 0.82

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 4.3e-07
          Endonuclea_NS_2  73 kNlvtgtrqlNrgemlklEnelakylklsenkkvrvevtpvYkgn 117
                               N++++t +lNr ++ +lE+  ++ l ++++kk  +   p+Y+++
  PHY93_05585|PHY93_05585 149 SNMIPQTPNLNRVSWEHLEQYTRD-LVQKQGKKAYIIAGPIYDQD 192
                              59**********************.9999**99988888999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (289 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       365  (0.0203581); expected 358.6 (0.02)
Passed bias filter:                      311  (0.0173462); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.25s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 2108.14
//
Query:       PHY93_00385|PHY93_00385  [L=279]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.4e-48  162.6   0.1    8.7e-48  162.0   0.1    1.3  1  YkuD_2    L,D-transpeptidase catalytic domain


Domain annotation for each model (and alignments):
>> YkuD_2  L,D-transpeptidase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  162.0   0.1   4.8e-52   8.7e-48       5     168 ..     121     277 ..     118     278 .. 0.96

  Alignments for each domain:
  == domain 1  score: 162.0 bits;  conditional E-value: 4.8e-52
                   YkuD_2   5 lskealekalkgleklkkkkkekkkltiiDfskpStekRlfviDlkkkkllletlvahGknsgen...latkFsneegSkksslGf 87 
                              +  ++l++al+ +++++++ ++k+ +++iDf+++S+++R+++iD++++++  + lva Gkns+ +   +at+Fsn++gS++ss+Gf
  PHY93_00385|PHY93_00385 121 VPSTLLSQALSYYDSHQSAFANKRVISVIDFKQHSSKERFYIIDMETGRV-DSYLVAAGKNSDPDhdgYATSFSNTPGSEMSSIGF 205
                              6678899***************999************************9.9999*******998889****************** PP

                   YkuD_2  88 yktgetykgkhGlslrLeGlekgiNdnAreRaivlHgadyvseefikklgrlgrSlGCpavseelakkiiellkegsllfi 168
                              ykt+ety+g hG+sl L+Gl+++ N+n r+R+iv+H adyvs+         grS+GCpa++++++ +ii+++k+gsl+++
  PHY93_00385|PHY93_00385 206 YKTAETYEGGHGYSLMLDGLSNT-NSNVRSRSIVIHPADYVSS--------GGRSWGCPALEPRYSVQIIDQIKGGSLIYA 277
                              ***********************.*****************86........49*************************996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (279 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       399  (0.0222544); expected 358.6 (0.02)
Passed bias filter:                      255  (0.0142228); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.37
# Mc/sec: 2251.80
//
Query:       PHY93_00390|PHY93_00390  [L=292]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.6e-12   45.4   0.1    1.6e-11   44.7   0.1    1.4  1  FecR      FecR protein
     0.0028   16.9   0.0      0.004   16.4   0.0    1.2  1  N2227     N2227-like protein


Domain annotation for each model (and alignments):
>> FecR  FecR protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.7   0.1   1.8e-15   1.6e-11       1      95 [.      69     173 ..      69     174 .. 0.86

  Alignments for each domain:
  == domain 1  score: 44.7 bits;  conditional E-value: 1.8e-15
                     FecR   1 dvirTgagsraeilleDgsvvrlnenssl....ekaadsskrrrevsllkGevlfdvakdkkrp..fevktpsatigvrgtef..r 78 
                              d i+T ++s + i++ D +vv+l+++s +     + ++++ r++ +s++kG+ ++ +++++k++  +++ktp +++gvrgte   +
  PHY93_00390|PHY93_00390  69 DLIQTSEKSFVVIEMIDLTVVTLGPKSDFkvenWSYRTKNDRDAVFSVIKGQWRALIKSKSKDDdqLKIKTPLVSMGVRGTELmvN 154
                              5799*************************9998555666677779*******98888888886668*****************776 PP

                     FecR  79 vr..ksdkqtevavleGeV 95 
                              v+  ++++ t+va+l G+V
  PHY93_00390|PHY93_00390 155 VNtmEGREITQVALLAGHV 173
                              65447777899******99 PP

>> N2227  N2227-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.0   4.5e-07     0.004      24     112 ..     100     188 ..      94     230 .. 0.82

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 4.5e-07
                              HHH-STTHHHHHHHHHHHHHHHHHHS-T......T-EEEEET-TT-HHHHHHHHTT-EEEEEE--HHHHHHHHHHHHS---TT-EE CS
                    N2227  24 RdwsaegkeERealykpiieelkelvpseskerekvkilvPGaGlGrlavelatkgyqvegnEfsyfmllasefiLnavkeenqit 109
                               +ws  +k++R+a+++ i  + ++l++s+sk+ ++ ki +P   +G    el+ +  ++eg E+    lla +  L+    + q  
  PHY93_00390|PHY93_00390 100 ENWSYRTKNDRDAVFSVIKGQWRALIKSKSKDDDQLKIKTPLVSMGVRGTELMVNVNTMEGREITQVALLAGHVHLQGELPSIQQD 185
                              58*******************************************************************99988887666555555 PP

                              E-T CS
                    N2227 110 iyp 112
                              + p
  PHY93_00390|PHY93_00390 186 LLP 188
                              555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (292 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1045  (0.0582855); expected 358.6 (0.02)
Passed bias filter:                      468  (0.026103); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.20s 00:00:00.72 Elapsed: 00:00:00.39
# Mc/sec: 2217.88
//
Query:       PHY93_00395|PHY93_00395  [L=306]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      5e-17   62.0   0.0    2.7e-14   53.2   0.0    2.3  2  MMR_HSR1     50S ribosome-binding GTPase
    1.9e-06   27.5   0.1    4.7e-06   26.2   0.0    1.6  2  FeoB_N       Ferrous iron transport protein B
    0.00052   20.0   0.0      0.036   14.0   0.0    2.5  1  RsgA_GTPase  RsgA GTPase
    0.00067   19.2   0.8     0.0068   15.9   0.1    2.6  3  Arf          ADP-ribosylation factor family
     0.0068   17.0   0.0      0.017   15.7   0.0    1.6  1  AAA_18       AAA domain
     0.0085   16.3   0.0       0.02   15.1   0.0    1.6  1  AAA_28       AAA domain
  ------ inclusion threshold ------
      0.034   13.6   0.0      0.073   12.5   0.0    1.5  1  SRPRB        Signal recognition particle receptor beta subuni
      0.035   13.4   0.4      0.055   12.7   0.0    1.5  2  Septin       Septin
      0.037   13.4   0.0       0.07   12.5   0.0    1.4  1  TniB         Bacterial TniB protein
       0.04   14.1   0.0      0.089   13.0   0.0    1.6  1  Roc          Ras of Complex, Roc, domain of DAPkinase
      0.042   13.9   0.4        1.3    9.1   0.3    3.0  2  Dynamin_N    Dynamin family
      0.059   12.5   0.0        0.1   11.7   0.0    1.3  1  G-alpha      G-protein alpha subunit
       0.14   12.5   0.0       0.96    9.7   0.0    2.3  3  AAA_22       AAA domain
       0.14   11.9   0.0       0.44   10.2   0.0    1.9  2  AAA_24       AAA domain


Domain annotation for each model (and alignments):
>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.8   0.0    0.0055         7      52     114 .]      19      82 ..       2      82 .. 0.64
   2 !   53.2   0.0   2.1e-17   2.7e-14       2      65 ..     147     210 ..     146     269 .. 0.75

  Alignments for each domain:
  == domain 1  score: 6.8 bits;  conditional E-value: 0.0055
                              ECGGCSSHHHHHH...HHHHHHHHHHC....TSEEEEEEETTTTCSHHHHHHHHHHHHHTTSEEEEEEES CS
                 MMR_HSR1  52 DtpGliegaseek...glgkaflalee....adlillvvdaseeklkpldeeleelleeakkplilvlnk 114
                              DtpG    +  ++    +++a+++++e    +d++l + da+ + l+  ++++ee+l+  +k  +++lnk
  PHY93_00395|PHY93_00395  19 DTPGR---SGFNWfpgHMARAVREIKEkvklVDIVLEIRDAR-APLASGNKTMEETLR--QKSRLILLNK 82 
                              99993...2333344445555555444422467777777866.678888999999996..5777777776 PP

  == domain 2  score: 53.2 bits;  conditional E-value: 2.1e-17
                              EEEEESTTSSHHHHHHHHHTS.TEEESSSTTSSSSEEEEEEEETTEEEEEEECGGCSS..HHHHHHH CS
                 MMR_HSR1   2 vaivGrpNvGKStLinaltge.kaivsdkpgtTrdinegrvklkgkeielvDtpGlie..gaseekg 65 
                               +i+G pN+GKSt+in+l ++ + +v+d+pg T+  +++ ++   k++ l+DtpG++    a+ee+g
  PHY93_00395|PHY93_00395 147 LMIIGLPNTGKSTIINQLANRnATKVADRPGQTQVQQWIVID---KDLDLLDTPGVMPplLAKEEHG 210
                              68******************9456***************997...69********753332333333 PP

>> FeoB_N  Ferrous iron transport protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0       2.6   3.3e+03      80     123 ..      48      91 ..      34     100 .. 0.62
   2 !   26.2   0.0   3.7e-09   4.7e-06       2      57 ..     146     199 ..     145     209 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 2.6
                              SEEEEEEEGGGHHHHHHHHHHHHHTTSSEEEEEETHHHHHHTTE CS
                   FeoB_N  80 dvvvnvvdatnlernLyLtlqllelgvpvvlalnmideaekkgi 123
                              d+v+++ da     +   t++ +  +++ ++ ln+++ a+ k i
  PHY93_00395|PHY93_00395  48 DIVLEIRDARAPLASGNKTMEETLRQKSRLILLNKVNLADPKMI 91 
                              55566666555444444444444455566666777776666655 PP

  == domain 2  score: 26.2 bits;  conditional E-value: 3.7e-09
                              EEEEEESTTSSHHHHHHHHHTTS.EEEEESTTSSSEEEEEEEEETTEEEEEEE---- CS
                   FeoB_N   2 tvalvGnpnvGkttlfnaltgak.qkvgNwpGvtvekkegklklkgkeveivDlPGi 57 
                              +++++G pn+Gk+t++n+l++ + +kv+  pG t  ++   ++   k+++++D PG+
  PHY93_00395|PHY93_00395 146 KLMIIGLPNTGKSTIINQLANRNaTKVADRPGQTQVQQWIVID---KDLDLLDTPGV 199
                              5789****************987479********888777777...99********8 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.0   0.0   2.8e-05     0.036     101     161 ..     146     199 ..      66     204 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 2.8e-05
                              EEEEECSTTSSHHHHHHHHCTT-----S--------------SEEEEEETTTEEEESS-SS CS
              RsgA_GTPase 101 tsvlvGqSGvGKStLinallpelelktgevseklgrGkhTTtavellelaegglliDtPGf 161
                                +++G    GKSt+in+l++++ +k+++     + G+  T+ ++ + ++++  l DtPG+
  PHY93_00395|PHY93_00395 146 KLMIIGLPNTGKSTIINQLANRNATKVAD-----RPGQ--TQVQQWIVIDKDLDLLDTPGV 199
                              4578899999***********96555544.....4454..788889999999999999997 PP

>> Arf  ADP-ribosylation factor family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.0      0.68   8.7e+02     109     128 ..      67      86 ..      45      90 .. 0.83
   2 ?   -0.4   0.0      0.51   6.5e+02      73     111 ..      92     130 ..      86     136 .. 0.82
   3 !   15.9   0.1   5.3e-06    0.0068      12      41 ..     142     171 ..     136     193 .. 0.85

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 0.68
                              TSGCCTTSEEEEEEE-TTST CS
                      Arf 109 eeeelkevallvlaNKqDlp 128
                               ee+l++   l+l NK  l+
  PHY93_00395|PHY93_00395  67 MEETLRQKSRLILLNKVNLA 86 
                              5788999999******9886 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 0.51
                              GGGGGGCTTESEEEEEEETT-CTTHHHHHHHHHHHCTSG CS
                      Arf  73 plWknYfektdavifvvDsadreRleeakeeLkalleee 111
                              +lW+++f+k       +D+ d+  +++a +  +a+++++
  PHY93_00395|PHY93_00395  92 HLWEEWFKKQGEPFLFLDCFDKGSMKKALSMARAIVDQK 130
                              79*****9998888889****999999988777777665 PP

  == domain 3  score: 15.9 bits;  conditional E-value: 5.3e-06
                              TTEEEEEEEESTTSSHHHHHHHHHHSSCEE CS
                      Arf  12 kkelrilllGLDnaGKtTilkklkleelvt 41 
                              k +l+++++GL n+GK+Ti+++l + + ++
  PHY93_00395|PHY93_00395 142 KAKLKLMIIGLPNTGKSTIINQLANRNATK 171
                              5689*******************9987765 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   1.3e-05     0.017       2     102 ..     148     257 ..     147     270 .. 0.61

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 1.3e-05
                   AAA_18   2 lltGtpGvGKttlakeLskrlgf........gvnlrdvakenglllevdpe.....aldeskrldedkldklldaleenss...al 71 
                              ++ G p +GK+t+ + L++r++          ++ + ++ +++l l ++p                + +  +l+al+++++    +
  PHY93_00395|PHY93_00395 148 MIIGLPNTGKSTIINQLANRNATkvadrpgqTQVQQWIVIDKDLDLLDTPGvmpplL-----AK--EEHGLWLSALNAIPDeamGE 226
                              699****************97447888888777778888888888888887322222.....22..22224555555555542222 PP

                   AAA_18  72 eegknlvidghlaeleseaakdikkvvLtas 102
                              e + + +i+ + + + +e   ++k   L++s
  PHY93_00395|PHY93_00395 227 ERPATFLIEYLKERNSKELKERYKLESLELS 257
                              3333446666665555555555554555555 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0   1.6e-05      0.02       2      35 ..     147     181 ..     146     192 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.6e-05
                   AAA_28   2 ivitGgestGKTtlleaLaar.gypvvpEaareil 35 
                               +i+G + tGK+t++++La+r  ++v  +++ + +
  PHY93_00395|PHY93_00395 147 LMIIGLPNTGKSTIINQLANRnATKVADRPGQTQV 181
                              579****************9945778788887765 PP

>> SRPRB  Signal recognition particle receptor beta subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   5.7e-05     0.073       5      58 ..     146     198 ..     142     201 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 5.7e-05
                              EEEEE-STTSSHHHHHHHHHHSS---B---S.S-EEETTG...GGTT-SEEEETT CS
                    SRPRB   5 avllvGlsdsGKTslftrLttdsvkktvtSq.essaalkvksekgskltliDfPG 58 
                              +++++Gl ++GK +++++L + +++k      ++++ + +    ++ l+l+D PG
  PHY93_00395|PHY93_00395 146 KLMIIGLPNTGKSTIINQLANRNATKVADRPgQTQVQQWI--VIDKDLDLLDTPG 198
                              689*****************99877766555344444444..7788889999998 PP

>> Septin  Septin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   4.3e-05     0.055       4      41 ..     144     181 ..     142     200 .. 0.76
   2 ?   -3.9   0.2         5   6.4e+03     252     273 ..     234     255 ..     231     259 .. 0.70

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 4.3e-05
                              EEEEEEEEBTTSSCCCCCCTTSSSS------------- CS
                   Septin   4 eftlmvvGesglGkttlintlfetdlieeekleeasek 41 
                              ++ lm++G   +Gk+t+in l +++ ++    + +++ 
  PHY93_00395|PHY93_00395 144 KLKLMIIGLPNTGKSTIINQLANRNATKVADRPGQTQV 181
                              689********************999998766655443 PP

  == domain 2  score: -3.9 bits;  conditional E-value: 5
                              HHHHHHHHHHTHHHHHHHHHH- CS
                   Septin 252 ledLkevteellYetyRsekls 273
                              +e Lke+ ++ l e+y+ e l+
  PHY93_00395|PHY93_00395 234 IEYLKERNSKELKERYKLESLE 255
                              4557777788888888777765 PP

>> TniB  Bacterial TniB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   5.4e-05      0.07      37      70 ..     146     181 ..     136     189 .. 0.73

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 5.4e-05
                     TniB  37 nlllvGdsnnGKtmivekFarlhppe..kdedaekv 70 
                              +l+++G +n+GK++i+++ a+++  +  +++ +++v
  PHY93_00395|PHY93_00395 146 KLMIIGLPNTGKSTIINQLANRNATKvaDRPGQTQV 181
                              79******************8886542144555554 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   6.9e-05     0.089       1      30 [.     146     175 ..     146     196 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 6.9e-05
                              EEEEESSTTSSHHHHHHCHCT-CCC-EEET CS
                      Roc   1 KvvlvGdsgvGKtsllkrfvedkfsekeks 30 
                              K++++G  ++GK+++++++ +++ ++  + 
  PHY93_00395|PHY93_00395 146 KLMIIGLPNTGKSTIINQLANRNATKVADR 175
                              99******************9998766554 PP

>> Dynamin_N  Dynamin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.0      0.95   1.2e+03     114     160 ..      35      76 ..       6      83 .. 0.65
   2 ?    9.1   0.3     0.001       1.3       2      25 ..     148     171 ..     147     286 .. 0.87

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 0.95
                              SSGTTSHHHHHHHSTTEEEEEEEETTS-CCC-CHHHHHHHHSTTBTT CS
                Dynamin_N 114 vnkrdqelvkeyikkadiilavtsanhdlsnsealflarevdpkgkr 160
                              +++   + +ke +k  di+l + +a   l++    +  +e   +++r
  PHY93_00395|PHY93_00395  35 RAV---REIKEKVKLVDIVLEIRDARAPLAS--GNKTMEETLRQKSR 76 
                              333...4478888888888888888888883..33334444444444 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.001
                              EEEEBTTTTHHHHHHHHHTS--S- CS
                Dynamin_N   2 avvGsqSsGKSSvlnaLlgedilp 25 
                              +++G  + GKS+++n+L  ++   
  PHY93_00395|PHY93_00395 148 MIIGLPNTGKSTIINQLANRNATK 171
                              6899999**********9998655 PP

>> G-alpha  G-protein alpha subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   7.9e-05       0.1      11      52 ..     130     173 ..     121     191 .. 0.68

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 7.9e-05
                              XXXX.XXXXXE...EEEEEEEESTTSSHHHHHHHHHHHCS---- CS
                  G-alpha  11 lkae.rkarkk.krevkllllGqseSGKsTilkqlkllykkgfs 52 
                               +++ + ++ + k ++kl+++G    GKsTi++ql      ++ 
  PHY93_00395|PHY93_00395 130 KRRDsNPDTYEpKAKLKLMIIGLPNTGKSTIINQLANRNATKVA 173
                              3333233333368999******************9866555544 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.0         2   2.5e+03      38      67 ..     101     130 ..      76     144 .. 0.62
   2 ?    9.7   0.0   0.00075      0.96       8      29 ..     147     168 ..     139     189 .. 0.85
   3 ?   -2.0   0.0       3.1     4e+03      44      59 ..     248     264 ..     213     289 .. 0.60

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 2
                   AAA_22  38 erpevvfvtlpsstsskdllrellralgle 67 
                              ++ +++f ++  ++s k+ l++   +++++
  PHY93_00395|PHY93_00395 101 QGEPFLFLDCFDKGSMKKALSMARAIVDQK 130
                              456666667766666666655555555544 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.00075
                   AAA_22   8 lvvtGesGtGKTtllrrlleql 29 
                              l+++G + tGK+t +++l++++
  PHY93_00395|PHY93_00395 147 LMIIGLPNTGKSTIINQLANRN 168
                              79*****************997 PP

  == domain 3  score: -2.0 bits;  conditional E-value: 3.1
                   AAA_22  44 fvtlpsst.sskdllre 59 
                              +++l s++ s +++l++
  PHY93_00395|PHY93_00395 248 RYKLESLElSVEEILEK 264
                              33333333333344433 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0   0.00034      0.44       2      23 ..     144     165 ..     143     190 .. 0.84
   2 ?   -3.0   0.0       3.9     5e+03      48      72 ..     257     290 ..     235     291 .. 0.67

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00034
                   AAA_24   2 klkiliyGpsgiGKTtlakelg 23 
                              klk++i+G + +GK+t++++l 
  PHY93_00395|PHY93_00395 144 KLKLMIIGLPNTGKSTIINQLA 165
                              789****************993 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 3.9
                   AAA_24  48 swedfldevvel.........aaeladyktlviD 72 
                              s+e++l+++++l         ++ ++ yk + iD
  PHY93_00395|PHY93_00395 257 SVEEILEKIATLrgcvrqkglPDLERVYKLILID 290
                              5666666666667777777777777778888877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (306 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       642  (0.0358079); expected 358.6 (0.02)
Passed bias filter:                      536  (0.0298957); expected 358.6 (0.02)
Passed Vit filter:                        82  (0.0045736); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.54u 0.25s 00:00:00.79 Elapsed: 00:00:00.40
# Mc/sec: 2270.15
//
Query:       PHY93_00400|PHY93_00400  [L=168]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (168 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       733  (0.0408835); expected 358.6 (0.02)
Passed bias filter:                      593  (0.0330749); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1216.34
//
Query:       PHY93_00405|PHY93_00405  [L=134]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    0.00013   21.6  32.2    0.00019   21.1  32.2    1.3  1  Gly-zipper_YMGG  YMGG-like Gly-zipper
  ------ inclusion threshold ------
      0.019   14.7  34.5       0.03   14.1  34.5    1.3  1  Gly-zipper_OmpA  Glycine-zipper domain
      0.021   14.8  34.2       0.04   13.9  34.2    1.5  1  Gly-zipper_Omp   Glycine zipper
      0.027   14.3  31.1      0.044   13.7  31.1    1.3  1  Rick_17kDa_Anti  Glycine zipper 2TM domain
       0.13   11.9  12.3       0.16   11.6  12.0    1.3  1  TraT             Enterobacterial TraT complement resistance p
       0.19   11.3   4.5       0.21   11.2   4.5    1.1  1  SseC             Secretion system effector C (SseC) like fami
        4.2    6.7  11.5        5.5    6.3  11.5    1.2  1  DUF3482          Domain of unknown function (DUF3482)


Domain annotation for each model (and alignments):
>> Gly-zipper_YMGG  YMGG-like Gly-zipper
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.1  32.2   7.4e-08   0.00019       4      45 ..      66     110 ..      63     111 .. 0.89

  Alignments for each domain:
  == domain 1  score: 21.1 bits;  conditional E-value: 7.4e-08
                              .XXXXXXXXXXXXXXXXXX...XXXXXXXXXXXXXXXXXXXXXX- CS
          Gly-zipper_YMGG   4 vrGAaiGAaaGAvvGaliG...sgggkGAaiGAaaGalaGgaiGa 45 
                              ++ A+ GA++G +vGa++G   +g g+GA++GAa+G+++Gga+Ga
  PHY93_00405|PHY93_00405  66 AKSAGFGAVVGGAVGAVAGvftGGIGRGAVQGAAIGGVGGGAAGA 110
                              6788999999999999999987799*******************7 PP

>> Gly-zipper_OmpA  Glycine-zipper domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1  34.5   1.2e-05      0.03       1      44 []      66     109 ..      66     109 .. 0.95

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 1.2e-05
          Gly-zipper_OmpA   1 vegAavGAalGAaaGAavGaitGsaGtGAaiGAasGavaGllrg 44 
                              +++A+ GA++G a GA+ G +tG +G+GA  GAa+G+v+G+++g
  PHY93_00405|PHY93_00405  66 AKSAGFGAVVGGAVGAVAGVFTGGIGRGAVQGAAIGGVGGGAAG 109
                              689**************************************986 PP

>> Gly-zipper_Omp  Glycine zipper
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9  34.2   1.6e-05      0.04       2      41 ..      72     111 ..      69     116 .. 0.91

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 1.6e-05
           Gly-zipper_Omp   2 GaaiGAaaGaliGgavggrgtGaliGAavGaavGgliGaa 41 
                              Ga++G+a+Ga+ G  +gg g+Ga+ GAa+G+++Gg+ Ga+
  PHY93_00405|PHY93_00405  72 GAVVGGAVGAVAGVFTGGIGRGAVQGAAIGGVGGGAAGAM 111
                              99999999999999999*********************98 PP

>> Rick_17kDa_Anti  Glycine zipper 2TM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7  31.1   1.7e-05     0.044       2      40 ..      72     111 ..      71     112 .. 0.95

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1.7e-05
          Rick_17kDa_Anti   2 GaliGAaaGgvaGaaigg.gggrvlGavvGAaaGavaGna 40 
                              Ga++G+a+G+vaG   gg g+g+v Ga++G++ G++aG++
  PHY93_00405|PHY93_00405  72 GAVVGGAVGAVAGVFTGGiGRGAVQGAAIGGVGGGAAGAM 111
                              9*************99888*******************86 PP

>> TraT  Enterobacterial TraT complement resistance protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6  12.0   6.3e-05      0.16      82     134 ..      64     115 ..      45     122 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 6.3e-05
                     TraT  82 egalkaGfggalagaaagaaigaanggsagaalggglvGglvgaiagalvedv 134
                              + a +aGfg a+ g+a+ga++g  +gg  ++a+ g+++Gg+ g++aga+  d+
  PHY93_00405|PHY93_00405  64 KIAKSAGFG-AVVGGAVGAVAGVFTGGIGRGAVQGAAIGGVGGGAAGAMSPDQ 115
                              344557887.7899999*******9999999999***********99998876 PP

>> SseC  Secretion system effector C (SseC) like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   4.5   8.1e-05      0.21      50     102 ..      63     108 ..      35     128 .. 0.61

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 8.1e-05
                     SseC  50 eekakkaGiigkIfGwilaivsvvagalkvgaslllaavgvAgglmdaalgia 102
                              ++ ak+aG  + + G+    v  vag++++g + ++ + g+A  +  ++ g+a
  PHY93_00405|PHY93_00405  63 KKIAKSAGFGAVVGGA----VGAVAGVFTGGIGRGA-VQGAA--IGGVGGGAA 108
                              5778888866665554....5556788888877776.33333..222222222 PP

>> DUF3482  Domain of unknown function (DUF3482)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.3  11.5    0.0021       5.5     151     191 ..      66     108 ..      57     128 .. 0.61

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.0021
                  DUF3482 151 gaGaaaGAaaGagiDlavgGlt..LGaaaaiGalaGglaatlk 191
                              ++ a  GA++G ++ +++g  t  +G +a+ Ga++Gg+ + + 
  PHY93_00405|PHY93_00405  66 AKSAGFGAVVGGAVGAVAGVFTggIGRGAVQGAAIGGVGGGAA 108
                              4455555555555555555554335566666777766665553 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (134 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       489  (0.0272742); expected 358.6 (0.02)
Passed bias filter:                      325  (0.0181271); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.38u 0.23s 00:00:00.61 Elapsed: 00:00:00.35
# Mc/sec: 1134.90
//
Query:       PHY93_00410|PHY93_00410  [L=186]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    9.2e-52  175.2   0.0      1e-51  175.0   0.0    1.0  1  DJ-1_PfpI   DJ-1/PfpI family
    3.2e-05   23.8   0.0    3.3e-05   23.7   0.0    1.2  1  GATase      Glutamine amidotransferase class-I
    0.00026   20.6   0.0    0.00037   20.2   0.0    1.2  1  Catalase_C  C-terminal domain found in long catalases
    0.00051   19.2   0.0     0.0011   18.2   0.0    1.5  1  GATase_5    CobB/CobQ-like glutamine amidotransferase domain
    0.00066   19.4   0.0       0.21   11.3   0.0    2.2  2  ThiJ_like   ThiJ/PfpI family-like
  ------ inclusion threshold ------
      0.025   14.2   0.0      0.035   13.7   0.0    1.2  1  GATase_3    CobB/CobQ-like glutamine amidotransferase domain


Domain annotation for each model (and alignments):
>> DJ-1_PfpI  DJ-1/PfpI family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  175.0   0.0   3.5e-55     1e-51       1     165 []      12     180 ..      12     180 .. 0.98

  Alignments for each domain:
  == domain 1  score: 175.0 bits;  conditional E-value: 3.5e-55
                              EEEEEEEETTBEHHHHHHHHHHHHHTTEEEEEEESSTSEEEETTS....EEEE-SEEGGGCTCCG-SEEEE--BHHHHHHHHTSHH CS
                DJ-1_PfpI   1 kkvlvlladgvedvElivpvdvlkragikvdvvsvdkeevkgsrG....lkvtvdaslddvkaaeyDalvlpGGragperlrenek 82 
                              +++++l +dg+e+ El++p ++l+ ag kvd+vs+  + +k+ ++     ++ vda++dd +  +yD l++pGG  +p++lr +++
  PHY93_00410|PHY93_00410  12 RRIAILATDGFEESELFEPKKALEDAGAKVDIVSLHPGRIKSWKDddwgKSIHVDATVDDTEGYKYDSLLIPGGVMNPDKLRSSKR 97 
                              59**************************************9999888889**********9999********************** PP

                              HHHHHHHHHHTT-EEEEETTTHHHHHHTTTTTTSEE--SGGGHHHHHHTTSEE-SSSEEEETTEEEESSGGGHHHHHHHHHHH CS
                DJ-1_PfpI  83 vvelvkefaekgklvaaICagpqlLaaagvlkgrrvTsypavkdklekagakyvdkrvvvdgnlvTsrgpgaaiefalellee 165
                              +++++ ef+e++k++a+IC+gpq+L++ag+ kg+ +Ts+p+vk++l ++ga++vd++vvvd+ l+Tsr+p ++++f+++++ee
  PHY93_00410|PHY93_00410  98 AIAFIHEFVEDDKTIASICHGPQVLIEAGLTKGKHLTSWPSVKTDLINSGADWVDEEVVVDEHLITSRSPRDIPAFNKKMIEE 180
                              ********************************************************************************985 PP

>> GATase  Glutamine amidotransferase class-I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.7   0.0   1.1e-08   3.3e-05      30      87 ..      66     125 ..      31     185 .. 0.83

  Alignments for each domain:
  == domain 1  score: 23.7 bits;  conditional E-value: 1.1e-08
                              TSHHHHHHHTHHSTSEEEEEEESSCTT....TTTHHHHHHHHCTSTS-EEEETHHHHHHHHH CS
                   GATase  30 dasaeeilellknpdgilvsgGpgspg....vegkieaikearenkiPiLGICLGmQllaie 87 
                              da+ + +  +  ++d +l++gG+ +p      + +i++i+e+ e ++ i  IC G Q+l+++
  PHY93_00410|PHY93_00410  66 DATVDDT--EGYKYDSLLIPGGVMNPDklrsSKRAIAFIHEFVEDDKTIASICHGPQVLIEA 125
                              4444444..4679****************999**************************9986 PP

>> Catalase_C  C-terminal domain found in long catalases
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.2   0.0   1.2e-07   0.00037       3     119 ..      12     129 ..      11     148 .. 0.85

  Alignments for each domain:
  == domain 1  score: 20.2 bits;  conditional E-value: 1.2e-07
               Catalase_C   3 lkVgiLasndseaslaqakalaaalaaegvdvtvvaeklg.......saeg......vnrTYstadaveFDaivvadgaeslfsak 75 
                              ++++iLa+  +  + +++ + ++al+++g++v++v  + g       +         v++T   +++ ++D++++ +g   +    
  PHY93_00410|PHY93_00410  12 RRIAILAT--DGFEESELFEPKKALEDAGAKVDIVSLHPGrikswkdD--DwgksihVDATVDDTEGYKYDSLLIPGG---V---- 86 
                              689****8..56688899999**************9666655566442..23466779********************...3.... PP

               Catalase_C  76 ataasslfpagrplqllldayrhgKpigalGsgaealkaagisa 119
                               +++++l +++r++ ++++  +  K+i+ + +g ++l +ag+++
  PHY93_00410|PHY93_00410  87 -MNPDKLRSSKRAIAFIHEFVEDDKTIASICHGPQVLIEAGLTK 129
                              .468899**************************99999998875 PP

>> GATase_5  CobB/CobQ-like glutamine amidotransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.0   3.6e-07    0.0011       3     122 ..      13     138 ..      11     151 .. 0.71

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 3.6e-07
                 GATase_5   3 kvailreeGvngey..emaaafekaGfeavdvh..................msdllegrvslddfqilalpGGfsygDelgsgkgw 68 
                              ++ail+  G    +  e ++a+e+aG++++ v                     d + ++++  ++  l +pGG  + D+l s k +
  PHY93_00410|PHY93_00410  13 RIAILATDGFEESElfEPKKALEDAGAKVDIVSlhpgrikswkdddwgksiHVDATVDDTEGYKYDSLLIPGGVMNPDKLRSSKRA 98 
                              7889999998765334889999****999887644555444443333333222233334466778889999999999999877766 PP

                 GATase_5  69 akslllneklrealekflnredtlaLGiCnGfqlLvklglvpggeieeaekspt 122
                               + +          ++f+++ d+ +  iC G q+L++ gl  g   ++ +++p+
  PHY93_00410|PHY93_00410  99 IAFI----------HEFVED-DKTIASICHGPQVLIEAGLTKG---KHLTSWPS 138
                              6555..........699999.******************9988...44555555 PP

>> ThiJ_like  ThiJ/PfpI family-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.2   0.0    0.0024       7.3       1      33 [.      17      49 ..      17      64 .. 0.87
   2 !   11.3   0.0   6.9e-05      0.21      84     143 ..      76     127 ..      52     142 .. 0.85

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.0024
                ThiJ_like  1 ladeGydvtevaipwkvlkdagfsveFvtekgk 33
                             la  G++  e+  p k l+dag +v+ v+ +  
  PHY93_00410|PHY93_00410 17 LATDGFEESELFEPKKALEDAGAKVDIVSLHPG 49
                             6889************************99965 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 6.9e-05
                ThiJ_like  84 eydlvllpGGsdkavrelleserlhsllveylklvkrekepskvlgaicqgvlalafakp 143
                              +yd +l+pGG  ++  +l  s+r  + ++e++       e++k +++ic+g  +l +a  
  PHY93_00410|PHY93_00410  76 KYDSLLIPGGVMNPD-KLRSSKRAIAFIHEFV-------EDDKTIASICHGPQVLIEAGL 127
                              79********98886.7888999999999999.......789*********999998865 PP

>> GATase_3  CobB/CobQ-like glutamine amidotransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   1.2e-05     0.035      36      91 ..      72     125 ..      58     141 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1.2e-05
                 GATase_3  36 slgedadlvilpGgkdtiqdlallresgldeaikeaaeaggpvlgiCGGlqmLGee 91 
                              + g ++d +++pGg    ++l ++++      i+e++e+++++  iC G q+L e 
  PHY93_00410|PHY93_00410  72 TEGYKYDSLLIPGGVMNPDKLRSSKR--AIAFIHEFVEDDKTIASICHGPQVLIEA 125
                              333569********998888887776..8899*******************99765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (186 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       255  (0.0142228); expected 358.6 (0.02)
Passed bias filter:                      239  (0.0133304); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.39u 0.20s 00:00:00.59 Elapsed: 00:00:00.35
# Mc/sec: 1604.75
//
Query:       PHY93_00415|PHY93_00415  [L=173]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (173 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       369  (0.0205812); expected 358.6 (0.02)
Passed bias filter:                      316  (0.0176251); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1317.58
//
Query:       PHY93_00420|PHY93_00420  [L=271]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.4e-31  107.9   1.9    7.4e-31  107.4   1.9    1.2  1  Ku        Ku70/Ku80 beta-barrel domain
  ------ inclusion threshold ------
      0.083   13.5   0.9        0.7   10.5   0.2    2.3  2  MucBP_2   Mucin binding domain


Domain annotation for each model (and alignments):
>> Ku  Ku70/Ku80 beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  107.4   1.9   8.3e-35   7.4e-31       2     201 ..      12     191 ..      11     194 .. 0.88

  Alignments for each domain:
  == domain 1  score: 107.4 bits;  conditional E-value: 8.3e-35
                       Ku   2 gggvsipVklykateeakkpkfkkldketnepvkvetkyvcsdtge.vdeedivkgyey.Ggevvpltkeelekiksfdskglkll 85 
                              +g+++ipV l  a ee k+++f+ ld+++ +   +++k+++++tg+ v+++ i+kgyey  +++v++t++++++ +   + ++++ 
  PHY93_00420|PHY93_00420  12 FGLLNIPVRLMLASEE-KALHFSLLDEKDLA--PIRYKKINAKTGKeVPYNRITKGYEYkKNQYVVMTDKDFKEANVEATGTIDIE 94 
                              799***********98.**************..9**********777************9888**********988866******* PP

                       Ku  86 gFvplseilkeylsikssyfiyPddkdekgstkafsaLveamleskkvaivrfvlrskskprlvaLvPqeeelsseeekeglvlvt 171
                               Fv+l+ i+  +l  +++y+++P   +++g++  + +L eam++skkvai+++v+r+k++  lv+++++          ++lvl  
  PHY93_00420|PHY93_00420  95 NFVELKDIDLMFL--ERPYYLVP---EKNGEK-GYFLLSEAMKKSKKVAIAKIVIRAKQH--LVMIMVR-------G--NYLVLEI 163
                              *******999999..9*******...777666.***************************..*******.......2..49***** PP

                       Ku 172 LpfaddiRslkfpsldeeeeekknkpteeq 201
                              ++fa ++ + +  +  ++ + kk k+++++
  PHY93_00420|PHY93_00420 164 MRFAHEVLEADEVDY-FS-TLKKAKFSSKE 191
                              ******997666665.22.22455666665 PP

>> MucBP_2  Mucin binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.2   7.9e-05       0.7       9      56 ..      36      83 ..      29     100 .. 0.73
   2 ?    1.0   0.0     0.074   6.7e+02      14      32 ..     220     238 ..     210     251 .. 0.77

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 7.9e-05
                  MucBP_2  9 DdttnktltddtltGktgetisYstadtik...aleaqgYvlvssdgfpag 56
                             D+ + + +  ++++ ktg+ + Y   + i+   ++++++Yv+++ ++f++ 
  PHY93_00420|PHY93_00420 36 DEKDLAPIRYKKINAKTGKEVPY---NRITkgyEYKKNQYVVMTDKDFKEA 83
                             555666677799**********9...55665668*******9966555544 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.074
                  MucBP_2  14 ktltddtltGktgetisYs 32 
                              k++ +++++G  g++i Y+
  PHY93_00420|PHY93_00420 220 KKIINKKIKGGKGKVIEYQ 238
                              4555699**********94 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (271 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       726  (0.0404931); expected 358.6 (0.02)
Passed bias filter:                      314  (0.0175135); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.26s 00:00:00.78 Elapsed: 00:00:00.47
# Mc/sec: 1739.40
//
Query:       PHY93_00425|PHY93_00425  [L=186]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.6e-42  141.7   0.2    1.3e-41  141.1   0.2    1.3  1  LigD_N    DNA polymerase Ligase (LigD)


Domain annotation for each model (and alignments):
>> LigD_N  DNA polymerase Ligase (LigD)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  141.1   0.2   7.2e-46   1.3e-41       1     105 []      37     141 ..      37     141 .. 0.99

  Alignments for each domain:
  == domain 1  score: 141.1 bits;  conditional E-value: 7.2e-46
                              EEEESSSEEEEEEEEETTEEEEEEETT---SSTTSEEEEEEEEEE-GGGGGEEEEE-TTSTT-EEEEEEEEEEEEE..-HHHHHHH CS
                   LigD_N   1 qeHdaprlHYDlrLeidevlsswavpkglpedpnskrlAvetedhpleyadfegliekgeygaGsvliwDtGtyeveeklaealkk 86 
                              +eH+a++lHYD+rLe+d+vl+swavpkg++++p++krlAve+edhpl+ya+f+g+i+kg+yg+G+v+iwD+Gt+++e ++ + lkk
  PHY93_00425|PHY93_00425  37 HEHHASHLHYDFRLELDGVLKSWAVPKGPSMKPADKRLAVEVEDHPLDYANFHGTIPKGQYGSGDVYIWDKGTWQEEGDAYQGLKK 122
                              89************************************************************************************ PP

                              TEEEEEEECSSSEEEEEEE CS
                   LigD_N  87 rkiklrLhGeklkgkyvlv 105
                              +k++++L+G+klkg++vlv
  PHY93_00425|PHY93_00425 123 GKLEFTLNGKKLKGHFVLV 141
                              ****************995 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (186 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       391  (0.0218082); expected 358.6 (0.02)
Passed bias filter:                      300  (0.0167327); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.46
# Mc/sec: 1225.78
//
Query:       PHY93_00430|PHY93_00430  [L=619]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.4e-31  107.6   0.0    1.1e-30  106.9   0.0    1.3  1  DNA_ligase_A_M   ATP dependent DNA ligase domain
      1e-25   90.2   0.1    2.6e-25   88.9   0.1    1.7  1  DNA_ligase_A_C   ATP dependent DNA ligase C terminal region
    2.2e-08   34.6   0.1    4.9e-08   33.4   0.1    1.6  1  RNA_ligase       RNA ligase
    0.00057   19.8   0.1     0.0029   17.5   0.1    2.1  2  mRNA_cap_enzyme  mRNA capping enzyme, catalytic domain
  ------ inclusion threshold ------
      0.056   13.5   0.9        1.8    8.6   0.9    2.6  1  DNA_ligase_OB_2  DNA ligase OB-like domain


Domain annotation for each model (and alignments):
>> DNA_ligase_A_M  ATP dependent DNA ligase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  106.9   0.0     3e-34   1.1e-30      19     204 .]      27     195 ..      15     195 .. 0.91

  Alignments for each domain:
  == domain 1  score: 106.9 bits;  conditional E-value: 3e-34
                              TSEEEEEEEESSEEEEEEEETTEEEEEETTS-B-GGGCHHHHHHHHHHBSTTESEEEEEEEEEEEETTTTCBEHHHHHCHHHHCHC CS
           DNA_ligase_A_M  19 ekafivEiKyDGeRaqvhkegdkvklfSRrlkditaakpelvkalkeafkkdeksvilDGElvavdketgeilpfqklasrkkkkk 104
                              ek ++ EiK+DG+R+qvh +++k+klf+R+++   +++p++vka +++  +   s+i DGE+v++d        f+kl++  + + 
  PHY93_00430|PHY93_00430  27 EKGWVHEIKFDGYRLQVHLKNNKIKLFTRNGNIWNEQFPKIVKAFEKLPIQ---SAIFDGEAVVLDDS--GRSSFGKLQDALSHND 107
                              577899***************************************888765...69********9877..6678999999975555 PP

                              CTHHHHHHSEEEEEEEEEEEETTEEHTTSCHHHHHHHHHHHB--BTTTEEE--EEEESSHHHHHHHHHHHHHTTECEEEEEETT-C CS
           DNA_ligase_A_M 105 kveeklkeaelclfvFDiLyldgesltdeplkeRrklLeeilkesedrvelaeslevkdveeleelleeaiseglEGlvvKnpdsk 190
                                      +++ +f+FD+Lyl+ge+l +++lk+R+++L++il++s++ + ++e  +++     +++++   +++lEG+v K+ +++
  PHY93_00430|PHY93_00430 108 -------DSKIKFFIFDLLYLNGEDLRELSLKDRKEKLKDILSKSNEVIFFSEDVDTNG----ADFFKICCHHELEGIVSKDSNAP 182
                              .......46789******************************9999999999*999999....67999****************** PP

                              C-TTCEEEEEEEEE CS
           DNA_ligase_A_M 191 YepgkrsknwlKvK 204
                              Y+ g++   w K K
  PHY93_00430|PHY93_00430 183 YRSGRS-LIWCKSK 195
                              ****88.9999987 PP

>> DNA_ligase_A_C  ATP dependent DNA ligase C terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.9   0.1   7.2e-29   2.6e-25       1      99 []     214     311 ..     214     311 .. 0.91

  Alignments for each domain:
  == domain 1  score: 88.9 bits;  conditional E-value: 7.2e-29
                              GGGSEEEEEEEEEE....TTEEEEEEEE-SS--HHHHHHHHHHHGGGEECTTCESS---HHHHTTEEE-TT-EEEEEESEEECTSS CS
           DNA_ligase_A_C   1 rgglvgslllgvyd....dgkleyvgkvgtGfsdaeleelrkklkelerkkppfaekvpeeekrdvWvePelvveVkfaeitasgk 82 
                              r++++g+lllgvy+    ++k++yvgkvg+Gf+ ++l e++kk+ +l +kk+pf  + p+e+ + +W++P+lv+e+kf+++ta++ 
  PHY93_00430|PHY93_00430 214 RKSELGALLLGVYEkhgeKRKFRYVGKVGAGFDVESLGEVKKKVGRLAQKKSPFDLHSPKEH-NTHWIKPKLVAEIKFSNWTADQ- 297
                              57899**********987777*********************************55555554.449*******************. PP

                              STTEECT-EEEEE-TTS CS
           DNA_ligase_A_C  83 ykaslRfPrfkrlReDk 99 
                                  lR+P+f+++R+Dk
  PHY93_00430|PHY93_00430 298 ---ILRQPVFLGFRNDK 311
                              ...*************8 PP

>> RNA_ligase  RNA ligase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.4   0.1   1.4e-11   4.9e-08       3     161 .]      30     195 ..      28     195 .. 0.68

  Alignments for each domain:
  == domain 1  score: 33.4 bits;  conditional E-value: 1.4e-11
                              EEEEEE-SSEEEEEEEETT.EEEEETTCEB.CTTTHHHHHHTHHHHHHHHHHHHH..ECCEEEEEEEES.......SS...TTSS. CS
               RNA_ligase   3 vvvtEKlDGtnfriylvke.vgvasRsqil.pfgeekfkefkrwaaalrkklkeklaneelilyGElig......hsi.kygglpk 79 
                              +v++ K DG++++++l ++ +++++R++ + +      ++f + +     k  ekl  ++ i+ GE +       +s  k +   +
  PHY93_00430|PHY93_00430  30 WVHEIKFDGYRLQVHLKNNkIKLFTRNGNIwN------EQFPKIV-----KAFEKLPIQSAIFDGEAVVlddsgrSSFgKLQD--A 102
                              9***************9767**********32......2222333.....33345565679********88655422242222..1 PP

                              .........EEEEEEEEEEECTTBECE--HHHH.HHHHHCCT...B..EEEEE.SSHHHHHCCC........HHHHTC--EEEEEE CS
               RNA_ligase  80 .........efyvFdifdirdkeeqrylspdev.ealakglg...tvpvlyegkflaaeellel.......llskgnkrEGlVikp 145
                                       +f+ Fd++ ++  e+ r ls +++ e+l++ l     v ++       +e++ +        +    +  EG+V k+
  PHY93_00430|PHY93_00430 103 lshnddskiKFFIFDLLYLN-GEDLRELSLKDRkEKLKDILSksnEVIFF-------SEDVDTNgadffkiC--CHHELEGIVSKD 178
                              444777888********998.34788888888866766633243344444.......333333355543333..6779******** PP

                              SSSSBE.TTEBSEEEEE CS
               RNA_ligase 146 eselyk.nkgraifKvk 161
                               ++ y+   +  ++K k
  PHY93_00430|PHY93_00430 179 SNAPYRsGRSLIWCKSK 195
                              ****9977669999976 PP

>> mRNA_cap_enzyme  mRNA capping enzyme, catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.1   8.1e-07    0.0029      22     125 ..      34     145 ..      26     165 .. 0.78
   2 ?   -2.5   0.0         1   3.7e+03     167     187 ..     167     187 ..     151     190 .. 0.87

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 8.1e-07
                              EEESSEEEEEEEEECTEEEEEEETTS-EEEESSST-BTTSSSSTCTSBGGSEEEEEEEEE.EECTT.............CEEEEEE CS
          mRNA_cap_enzyme  22 eKaDGiRylmllteeeegvylidRenevyrvenlrfprekdkeklekvldetllDgElvi.dkvee.............kkkelry 93 
                               K DG R+ + l+++  ++ l+ R+ ++++ ++ +++   +k       +++++DgE v+ d   +               ++ ++
  PHY93_00430|PHY93_00430  34 IKFDGYRLQVHLKNN--KIKLFTRNGNIWNEQFPKIVKAFEK----LPIQSAIFDGEAVVlDDSGRssfgklqdalshnDDSKIKF 113
                              599**********99..799*********9987777766654....4599*******765465444455545445554555789** PP

                              EEEEEEEETTEEGTTSBHHHHHHHHHHHTHHH CS
          mRNA_cap_enzyme  94 liyDivaingvtvaeeplskRleilkkelikp 125
                               i+D++ +ng +++e  l++R e lk  l k 
  PHY93_00430|PHY93_00430 114 FIFDLLYLNGEDLRELSLKDRKEKLKDILSKS 145
                              *********************99998766655 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 1
                              TTSTEEEEEEEESSSB--SEE CS
          mRNA_cap_enzyme 167 lshesDGLIfqpvkepyvagr 187
                               +he  G++ + +++py +gr
  PHY93_00430|PHY93_00430 167 CHHELEGIVSKDSNAPYRSGR 187
                              57999*************998 PP

>> DNA_ligase_OB_2  DNA ligase OB-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   0.9   0.00051       1.8      36      66 .]     256     308 ..     209     308 .. 0.56

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.00051
                              H.....................HHHTT-EE.EEEEE-TTSSSS-EEEEEEEE- CS
          DNA_ligase_OB_2  36 n.....................ppkiGkii.tykyqeltskgvpRfPsflrvR 66 
                              +                     +  + k++ ++k+ + t++ ++R P+fl++R
  PHY93_00430|PHY93_00430 256 KvgrlaqkkspfdlhspkehntHWIKPKLVaEIKFSNWTADQILRQPVFLGFR 308
                              144444444455555544444323333444699*****************998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (619 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       544  (0.0303419); expected 358.6 (0.02)
Passed bias filter:                      422  (0.0235373); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.64u 0.24s 00:00:00.88 Elapsed: 00:00:00.43
# Mc/sec: 4300.44
//
Query:       PHY93_05590|PHY93_05590  [L=76]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (76 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       655  (0.036533); expected 358.6 (0.02)
Passed bias filter:                      164  (0.00914719); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.37u 0.20s 00:00:00.57 Elapsed: 00:00:00.37
# Mc/sec: 617.78
//
Query:       PHY93_00435|PHY93_00435  [L=541]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.3e-46  159.8   0.0    1.7e-46  159.4   0.0    1.1  1  DAO             FAD dependent oxidoreductase
    7.7e-10   38.6   0.1    1.6e-09   37.6   0.1    1.5  1  Rieske          Rieske [2Fe-2S] domain
    9.1e-06   25.0   0.1    1.7e-05   24.1   0.1    1.4  1  FAD_binding_2   FAD binding domain
    1.5e-05   25.1   2.5      7e-05   23.0   1.7    2.6  2  NAD_binding_8   NAD(P)-binding Rossmann-like domain
    3.8e-05   23.1   1.7    8.4e-05   22.0   1.3    1.7  2  FAD_binding_3   FAD binding domain
    5.2e-05   22.6   0.1     0.0001   21.7   0.1    1.4  1  Thi4            Thi4 family
    0.00024   19.9   0.0      0.016   13.9   0.0    2.1  2  HI0933_like     HI0933-like protein
     0.0011   18.3   0.6     0.0031   16.8   0.6    1.9  1  Pyr_redox_2     Pyridine nucleotide-disulphide oxidoreductase
     0.0074   15.4   1.9      0.045   12.8   0.1    2.7  3  GIDA            Glucose inhibited division protein A
     0.0075   15.2   0.0      0.011   14.6   0.0    1.2  1  Trp_halogenase  Tryptophan halogenase
     0.0083   15.5   0.1      0.012   15.0   0.1    1.2  1  FAD_oxidored    FAD dependent oxidoreductase
  ------ inclusion threshold ------
      0.012   14.7   0.1       0.13   11.2   0.0    2.1  2  Lycopene_cycl   Lycopene cyclase protein
       0.08   13.4   0.1       0.36   11.3   0.0    2.0  2  NAD_binding_7   Putative NAD(P)-binding
      0.083   12.1   1.2       0.27   10.4   0.2    2.1  2  Pyr_redox_3     Pyridine nucleotide-disulphide oxidoreductase


Domain annotation for each model (and alignments):
>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  159.4   0.0   1.3e-49   1.7e-46       1     352 []      32     393 ..      32     393 .. 0.75

  Alignments for each domain:
  == domain 1  score: 159.4 bits;  conditional E-value: 1.3e-49
                              EEEEECTSHHHHHHHHHHHHTT..EEEEESSSSTTSSGGGSSEEEEESSS.........STHHSTHHHHHHHHHHH....HHHHHH CS
                      DAO   1 dvviiGGGiiGlstAyeLarrg..VtllekgdiagsgaSgrnsgllhsgl.........rylpeaselarlsleal....eelrel 71 
                              dv+iiGGG +Gl+tAy L + g  V++le   ++gsg++gr++++++ +l         ++ +   + arl++e++    +   e+
  PHY93_00435|PHY93_00435  32 DVCIIGGGLAGLTTAYLLLQTGrkVCVLEGF-EIGSGQTGRSTAQFTTALderyfmlekYHGE---KGARLAAESHsaaiKKVSEI 113
                              9*****************999999******9.9999************999977666543333...44588888885444555777 PP

                              HHHHSSTTSEEE.EEEEEEESSH...........HHHHHHHHHHHHHHHTTTTEEEEEHHHHHHHSTTST..TTSEEEEETTEEEE CS
                      DAO  72 eeelgididyrr.tGllslaade...........eelealdkllallleagldaelldaeevrelepalp..gllgalfypdtgqv 143
                                +++i++d+++ +G+l+   +e           + le+l  +l+++l+ gl     +   + e+ p lp  +   al +pd+ q+
  PHY93_00435|PHY93_00435 114 IHRENIECDLEKiNGYLFNS-SErpnyelqssrdKYLEYLNLELEAVLRSGL-----SDVYMTERVP-LPsfDPGPALCFPDQLQL 192
                              7788*****99945555554.3312221111111223333333333333333.....3322446666.33344467899******* PP

                              EHHHHHHHHHHHHHHTT-EEEESECEEEEEEEETCEEEEEEECT.EEEEEEEEEEE--GGGHH.HHHTTCTTTSEEEEEEEEEEEE CS
                      DAO 144 dpakltaalaraaealGveilegtevtgleeedgkvwgverttp.gendaadavVnaaGawsd.llgllkeldlpispvrgqvlvl 227
                              +p k++++la+a+ ++G+ i++++ v+++  ++g ++ v+   + +++++ + +V+a++   + l+     ++ +    r++v+ +
  PHY93_00435|PHY93_00435 193 HPLKYLRGLAQAIIKKGGLIFTNSHVVEV--QGGEAAYVR-LQNdHIVTS-ESIVVATNSPINdLV----AIHTKQASYRSYVIGI 270
                              ***************************99..567788884.444355445.88******8877444....3445668999999999 PP

                              EECCTHSTGSGCSEEEEEEEETTTTEEEEEETTSE.....EEEEESSEEETTCSSTSCSHHHHHHHHHHHHHHSGGGCGEEEEEEE CS
                      DAO 228 kplseklvspaailpvpetdddgrgvyvtprkdgr.....vlvGgtadeesgdddpevdeedidellealrklfPqlgdvlrkwaG 308
                              + ++        i  ++ +d+++ ++y++  k+++     +lvGg++   +++++ + +e+ + +l ++ rk+f + g+vl++w+G
  PHY93_00435|PHY93_00435 271 EVPKG-----SIIKGLY-WDTEDPYHYIRLEKNDKhpyevLLVGGED---HKTGQNDNPENSYTRLENWTRKRFQKAGRVLYRWSG 347
                              44444.....3455555.9***********98885555546679986...666666788999************999********* PP

                              EEEE.TTSSEEEEEEE.TEEEEEEEEECTTTHHHHHHHHHHHHHHH CS
                      DAO 309 lrpl.pdglpligetp.gvkglylatGhsghGltlapatGkllael 352
                              +    +dgl +ig+ p  ++++y+ tGhsg+G+t ++ +G l+++l
  PHY93_00435|PHY93_00435 348 HVMEpVDGLAYIGHNPmDSDNVYVITGHSGNGMTYSMIAGMLITDL 393
                              888537********668899***********************996 PP

>> Rieske  Rieske [2Fe-2S] domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.6   0.1   1.3e-12   1.6e-09      26      85 ..     459     516 ..     431     523 .. 0.81

  Alignments for each domain:
  == domain 1  score: 37.6 bits;  conditional E-value: 1.3e-12
                              EEEEE-TTS-EEEEESC-TTTT-BCGGSEEETT.EEE-TTT--EEETTSBEEE-TTHHHE CS
                   Rieske  26 lvvlrdedgevyAlsdvCtHrgaplsegkidekgvleCpcHgwaydadGkvikgPaprpl 85 
                              ++ ++d+ g++   s vC+H+g ++  +k  ek    CpcHg++++++Gkvi+gPa ++l
  PHY93_00435|PHY93_00435 459 VAAYKDNYGNLELNSAVCPHLGGIVHWNKA-EK-SWDCPCHGSRFTCHGKVIDGPAVADL 516
                              677889999999************988999.66.89********************9876 PP

>> FAD_binding_2  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.1   0.1   1.3e-08   1.7e-05       1      44 [.      32      75 ..      32      84 .. 0.87

  Alignments for each domain:
  == domain 1  score: 24.1 bits;  conditional E-value: 1.3e-08
                             SEEEE--SHHHHHHHHHHHHTTT-EEEEESSSGGGSGGGG--S- CS
            FAD_binding_2  1 DviViGsGlAGLaAAleaaeaGlkvavvekeqefggatawsqGg 44
                             Dv +iG+GlAGL+ A+ + + G+kv+v+e  +  +g+t  s + 
  PHY93_00435|PHY93_00435 32 DVCIIGGGLAGLTTAYLLLQTGRKVCVLEGFEIGSGQTGRSTAQ 75
                             99***************************988877788887765 PP

>> NAD_binding_8  NAD(P)-binding Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.0   1.7   5.5e-08     7e-05       1      27 [.      35      61 ..      35      98 .. 0.90
   2 ?   -1.5   0.0       2.4     3e+03      32      56 ..     438     463 ..     435     470 .. 0.76

  Alignments for each domain:
  == domain 1  score: 23.0 bits;  conditional E-value: 5.5e-08
                             EE--SHHHHHHHHHHHCCTEEEEEE-S CS
            NAD_binding_8  1 IvGaGlsGlvaAylLakagfdvlllek 27
                             I+G+Gl+Gl++AylL + g++v +le 
  PHY93_00435|PHY93_00435 35 IIGGGLAGLTTAYLLLQTGRKVCVLEG 61
                             9***********************995 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 2.4
                              SGGG-EECE.TTCEECTS---EEETT CS
            NAD_binding_8  32 GGraasyev.pgvrvdygahifhgsg 56 
                              +G++ s+e  +g+++  g hi++  +
  PHY93_00435|PHY93_00435 438 SGDLDSIEEgEGIVYRDGLHIVAAYK 463
                              6888999995579999****998863 PP

>> FAD_binding_3  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.0   1.3   6.5e-08   8.4e-05       1      32 [.      30      61 ..      30      96 .. 0.92
   2 ?   -2.2   0.0       1.5   1.9e+03     224     271 ..      82     129 ..      66     140 .. 0.79

  Alignments for each domain:
  == domain 1  score: 22.0 bits;  conditional E-value: 6.5e-08
                             EEEEEEE--SHHHHHHHHHHHHTTHHEEEEES CS
            FAD_binding_3  1 etdVlIVGaGpaGlmlallLseaGvrvvlvek 32
                             ++dV+I+G+G+aGl++a lL + G +v+++e 
  PHY93_00435|PHY93_00435 30 DVDVCIIGGGLAGLTTAYLLLQTGRKVCVLEG 61
                             68***************************995 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 1.5
                              EEEEEEEECCE-GGGSCCCHHHHHHHHHHHHHHTTSSCEEEEEEEEEE CS
            FAD_binding_3 224 erfyvqvearaekeersekfteeevkarlreivgektldveieevsaw 271
                              er+ ++ ++  ek+ r  +++ + +++++ ei++ + ++ ++e+++ +
  PHY93_00435|PHY93_00435  82 ERYFMLEKYHGEKGARLAAESHSAAIKKVSEIIHRENIECDLEKINGY 129
                              566666667778888899999999999999999999999998887765 PP

>> Thi4  Thi4 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.7   0.1   7.8e-08    0.0001       8      49 ..      21      61 ..      16      79 .. 0.85

  Alignments for each domain:
  == domain 1  score: 21.7 bits;  conditional E-value: 7.8e-08
                             HHHHHHHHTEEEEEEE--SHHHHHHHHHHHHCTTS-EEEEES CS
                     Thi4  8 yfedllkyaesDvvivGaGssGLtaayylakkpdlkvailer 49
                             +f+ l++ ++ Dv i+G+G +GLt+ay l +  + kv++le 
  PHY93_00435|PHY93_00435 21 TFSTLIEDIDVDVCIIGGGLAGLTTAYLLLQT-GRKVCVLEG 61
                             578899999**********************9.*******95 PP

>> HI0933_like  HI0933-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.9   0.0   1.2e-05     0.016       2      31 ..      32      61 ..      31      92 .. 0.94
   2 ?    3.9   0.0     0.014        18     112     162 ..     198     246 ..     185     249 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 1.2e-05
                             SEEEE--SHHHHHHHHHHHHTT--EEEE-S CS
              HI0933_like  2 dviviGgGaAGlmaAisaakrgkrVlllek 31
                             dv +iGgG AGl +A  + ++g++V +le 
  PHY93_00435|PHY93_00435 32 DVCIIGGGLAGLTTAYLLLQTGRKVCVLEG 61
                             89**************************96 PP

  == domain 2  score: 3.9 bits;  conditional E-value: 0.014
                              HHHHHHHHHHHT-EEE-S--EEEEECETTE.EEEEE.TTEEEEESEEEE-- CS
              HI0933_like 112 vdallkelkeagvklrletevksvekeedgkfrvktkseeeleadklvlAt 162
                              ++ l +++ ++g  + ++++v +v  + +++  v++++++ ++++++v+At
  PHY93_00435|PHY93_00435 198 LRGLAQAIIKKGGLIFTNSHVVEV--QGGEAAYVRLQNDHIVTSESIVVAT 246
                              67899999999*************..566668999999************7 PP

>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.6   2.4e-06    0.0031       2      31 ..      32      69 ..      31     259 .. 0.78

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 2.4e-06
                             SEEEE--SHHHHHHHHHHHHHTS-EEEEE........T CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxx........x RF
              Pyr_redox_2  2 dvvviGgGpAGlaaaltlaqagakvtlve........l 31
                             dv++iGgG AGl++a  l q g kv ++e         
  PHY93_00435|PHY93_00435 32 DVCIIGGGLAGLTTAYLLLQTGRKVCVLEgfeigsgqT 69
                             8**************************96555555551 PP

>> GIDA  Glucose inhibited division protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.8   0.1   3.5e-05     0.045       1      28 [.      32      59 ..      32      82 .. 0.85
   2 ?    0.5   0.1      0.19   2.5e+02     114     162 ..     214     260 ..     188     271 .. 0.71
   3 ?   -2.3   0.0       1.4   1.8e+03     282     304 ..     286     308 ..     277     311 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 3.5e-05
                             CEEEE-SSHHHHHHHHHHHHTT--EEEE CS
                     GIDA  1 dviViGgGhAGceAAlaaarlGakvlLi 28
                             dv +iGgG+AG+  A+ + + G kv  +
  PHY93_00435|PHY93_00435 32 DVCIIGGGLAGLTTAYLLLQTGRKVCVL 59
                             79**********************9877 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.19
                              EES-EEEEEECTTEEEEEEETTS-EEEECEEEE--TT-BT-EEEETTEE CS
                     GIDA 114 ieeeveeliveekkvkgvvtedgetikakavviatGtflkgkihigeke 162
                               +  v e+  + ++ + v+++++++++++++v+at +  +  + i +k+
  PHY93_00435|PHY93_00435 214 TNSHVVEV--QGGEAAYVRLQNDHIVTSESIVVATNSPINDLVAIHTKQ 260
                              44555555..558899999999999999999999977666666665554 PP

  == domain 3  score: -2.3 bits;  conditional E-value: 1.4
                              T-S--EEEEEESSTT--EEEEET CS
                     GIDA 282 dkeshqvfLepegleteliylvg 304
                              ++++h + Le+++++  ++ lvg
  PHY93_00435|PHY93_00435 286 EDPYHYIRLEKNDKHPYEVLLVG 308
                              789***********999988887 PP

>> Trp_halogenase  Tryptophan halogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.6   0.0   8.5e-06     0.011       1      47 [.      32      75 ..      32      88 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 8.5e-06
                             EEEEE--SHHHHHHHHHHHHHTTTSSEEEEEE-SSS---SS-EE--T CS
           Trp_halogenase  1 kivivGGGtaGwlaAaalakalkgklevtlveseeigtvgvGeatip 47
                             ++ i+GGG aG ++A +l +++    +v ++e  eig  + G++t  
  PHY93_00435|PHY93_00435 32 DVCIIGGGLAGLTTAYLLLQTG---RKVCVLEGFEIGSGQTGRSTAQ 75
                             589***************9999...57****************9965 PP

>> FAD_oxidored  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.1   9.3e-06     0.012       1      32 [.      32      63 ..      32     118 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 9.3e-06
             FAD_oxidored  1 DvvVvGGgpaGvaAAiaAaraGakvlLveerg 32
                             Dv+++GGg+aG++ A+   + G+kv+++e  +
  PHY93_00435|PHY93_00435 32 DVCIIGGGLAGLTTAYLLLQTGRKVCVLEGFE 63
                             9**************************99655 PP

>> Lycopene_cycl  Lycopene cyclase protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0    0.0001      0.13       1      32 [.      32      61 ..      32      84 .. 0.93
   2 ?    1.1   0.0      0.12   1.6e+02      93     142 ..     201     249 ..     196     273 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.0001
            Lycopene_cycl  1 DvvviGaGpAglslAarlteakpglkvvliea 32
                             Dv +iG+G+Agl  A  l   ++g kv+++e+
  PHY93_00435|PHY93_00435 32 DVCIIGGGLAGLTTAYLL--LQTGRKVCVLEG 61
                             9*****************..99999***9986 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.12
            Lycopene_cycl  93 llerlv.engvklleakvesveeeeageslvvleggrkirarlvvdargla 142
                              l++ ++ ++g +++++ v +v+  ea   +v l++++ + +  +v+a+  +
  PHY93_00435|PHY93_00435 201 LAQAIIkKGGLIFTNSHVVEVQGGEA--AYVRLQNDHIVTSESIVVATNSP 249
                              55666667899************999..999******99999999998754 PP

>> NAD_binding_7  Putative NAD(P)-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00028      0.36       9      38 ..      32      61 ..      29     127 .. 0.73
   2 ?   -1.3   0.0       2.3   2.9e+03       6      51 ..     214     257 ..     211     278 .. 0.68

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00028
            NAD_binding_7  9 kvlvvGgGevAarkvrklleagakvtvvap 38
                              v+++GgG  +++ ++ ll++g kv v+  
  PHY93_00435|PHY93_00435 32 DVCIIGGGLAGLTTAYLLLQTGRKVCVLEG 61
                             69************************9754 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 2.3
            NAD_binding_7   6 kgkkvlvvGgGevAarkvrklleagakvtvvapevkeeleelvkla 51 
                              ++ +v+ v gGe A+ ++++      + +vva +  + +++lv ++
  PHY93_00435|PHY93_00435 214 TNSHVVEVQGGEAAYVRLQNDHIVTSESIVVATN--SPINDLVAIH 257
                              6777888888888888887655555555666665..3566666554 PP

>> Pyr_redox_3  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.2   0.00021      0.27       2      33 ..      35      65 ..      34      79 .. 0.91
   2 ?   -0.5   0.0      0.44   5.6e+02      95     132 ..     210     246 ..     188     263 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00021
              Pyr_redox_3  2 IiGaGPaGlaaaielkkagledylilEkgnig 33
                             IiG+G aGl++a+ l + g  ++++lE  +ig
  PHY93_00435|PHY93_00435 35 IIGGGLAGLTTAYLLLQTGR-KVCVLEGFEIG 65
                             9******************9.79****88776 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.44
              Pyr_redox_3  95 elpiklfeeVesvkkedegfevetsketyeAkkviiAt 132
                               l i ++++V +v+  +  ++  ++ + ++++++++At
  PHY93_00435|PHY93_00435 210 GL-IFTNSHVVEVQGGEAAYVRLQNDHIVTSESIVVAT 246
                              33.78888888888888888777788888888888887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (541 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       349  (0.0194657); expected 358.6 (0.02)
Passed bias filter:                      324  (0.0180713); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.60u 0.26s 00:00:00.86 Elapsed: 00:00:00.41
# Mc/sec: 3939.13
//
Query:       PHY93_00440|PHY93_00440  [L=193]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    7.4e-27   94.6   0.0    8.8e-27   94.3   0.0    1.1  1  DUF1768     Domain of unknown function (DUF1768)
  ------ inclusion threshold ------
      0.013   15.3   0.0      0.018   14.8   0.0    1.3  1  Phage_30_3  Bacteriophage protein GP30.3


Domain annotation for each model (and alignments):
>> DUF1768  Domain of unknown function (DUF1768)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   94.3   0.0   9.8e-31   8.8e-27       2     159 ..      45     181 ..      44     183 .. 0.90

  Alignments for each domain:
  == domain 1  score: 94.3 bits;  conditional E-value: 9.8e-31
                  DUF1768   2 FwkeeeeygflsnwypspftvdgeehkvelealtyntaehymmaqKallfedtevaeeil.akspkeakalgrkvrnfdeedWeee 86 
                              F++ ++ yg +sn++  p++v+g           ++++ehy++a+K   f d++ +e+++ a+sp  a+++gr ++   +edW++ 
  PHY93_00440|PHY93_00440  45 FYSVKNIYGEFSNFALFPINVEGLI---------WPSSEHYYQAHK---FLDHDLQERVRvAASPFLAAQIGRDASLPMREDWDDI 118
                              7888889*******96666666555.........************...***********888**********55555577***** PP

                  DUF1768  87 keevvregnlaKfsqneelrelLlatgdrelveasprDriWGiGlkadeaaeerekwkGkNlLGkalmevRee 159
                              k+ v+  ++ aK+sq + l++lL +tg++ l e++++D +W+     d         +G+N+LG+ lm++Ree
  PHY93_00440|PHY93_00440 119 KDGVMLVALHAKYSQYPVLKDLLRSTGKSHLYEHTQNDCYWADC--GD--------HSGRNMLGQQLMQIREE 181
                              ******************************************97..34........36*************97 PP

>> Phage_30_3  Bacteriophage protein GP30.3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   0.0     2e-06     0.018       5      57 ..      53     106 ..      49     131 .. 0.88

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 2e-06
               Phage_30_3   5 salsnfaprafvldGvecasleGflqalkfknpemqrri.cklsGkaakaaGrk 57 
                              + +snfa  +  ++G+   s e + qa kf + + q r+ +  s   a ++Gr 
  PHY93_00440|PHY93_00440  53 GEFSNFALFPINVEGLIWPSSEHYYQAHKFLDHDLQERVrVAASPFLAAQIGRD 106
                              679***********************************9334566778888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (193 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       422  (0.0235373); expected 358.6 (0.02)
Passed bias filter:                      383  (0.021362); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1410.94
//
Query:       PHY93_00445|PHY93_00445  [L=281]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-48  164.5   0.1    2.1e-48  164.1   0.1    1.1  1  Transgly  Transglycosylase
  ------ inclusion threshold ------
      0.043   14.4   0.4      0.078   13.5   0.4    1.4  1  DUF4405   Domain of unknown function (DUF4405)


Domain annotation for each model (and alignments):
>> Transgly  Transglycosylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  164.1   0.1   2.4e-52   2.1e-48      13     174 ..      71     231 ..      62     235 .. 0.95

  Alignments for each domain:
  == domain 1  score: 164.1 bits;  conditional E-value: 2.4e-52
                 Transgly  13 nrelvkleeippalkkavvaiEDrrFyehkGvdlkgiarAvlknlksgkssqGgSTitqQlvknlflseertlerKlkeavlAlkl 98 
                              ++++v++e+i++ ++ av+ +ED++Fy h+G+d+++i +A+  n  ++ +++G+STi+qQ++kn+fl  +r++ rK  e+++++ +
  PHY93_00445|PHY93_00445  71 EKKWVPIEQIARPMQLAVIKAEDAKFYIHNGFDFEAIEKAMKYNK-THIKQKGASTISQQTAKNVFLWPARSWLRKGMEVYFTVLI 155
                              679***************************************997.677889********************************** PP

                 Transgly  99 ekklsKdeILeaYlNsvylgrevyGieaAarayFgkdakdLtlaeaalLagllkaPsrynplenpeeakkrrkvvl 174
                              e+ ++K++ILe YlN+++lg +vyG+eaA++ yF+k+a++L+ a+aal+a++l++P +++ ++ ++++ +r++ ++
  PHY93_00445|PHY93_00445 156 EHLWNKKRILEVYLNVIELGPGVYGVEAASQKYFHKNARNLNPAQAALIASVLPNPIKFKINKPTAYILRRQRKIM 231
                              ***********************************************************88888888888888776 PP

>> DUF4405  Domain of unknown function (DUF4405)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.4   8.7e-06     0.078       4      25 ..      26      47 ..      24      74 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 8.7e-06
                  DUF4405  4 lllllsflvlaiSGillsfavl 25
                             l+++l fl+l iSG+ll++ v 
  PHY93_00445|PHY93_00445 26 LTMTLGFLILSISGVLLYRFVP 47
                             799***************9964 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (281 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       615  (0.034302); expected 358.6 (0.02)
Passed bias filter:                      436  (0.0243181); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.59u 0.31s 00:00:00.89 Elapsed: 00:00:00.56
# Mc/sec: 1505.75
//
Query:       PHY93_00450|PHY93_00450  [L=434]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.4e-46  158.4  14.3    2.4e-46  158.4  14.3    1.9  2  Peptidase_S8  Subtilase family


Domain annotation for each model (and alignments):
>> Peptidase_S8  Subtilase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.0     0.013   2.3e+02     184     211 ..      57      84 ..      41     145 .. 0.61
   2 !  158.4  14.3   1.3e-50   2.4e-46       4     286 ..     144     412 ..     141     421 .. 0.83

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.013
                              STTCEEEEEESTTSSB-TT--B-TT... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8 184 sknvitvgayttegkiapfSsrGpssdg 211
                              ++n i+v a+ ++++   +++r  +s+ 
  PHY93_00450|PHY93_00450  57 TTNLISVEAALKNNSAVVYTERNHHSER 84 
                              5688888888888888888888887762 PP

  == domain 2  score: 158.4 bits;  conditional E-value: 1.3e-50
                              -EEEEECS-B-TT-TTTGGGEEE..EEEE---TTSG..............GGEETT-SS-TT-SC-SSS...........HHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.............xxxxxxxxxxxxxxxxxxxxxxx.......xxxxxx RF
             Peptidase_S8   4 vlvavlDtGvdpshpdlsvttdgerklvdvideegag.............fngadsettstnwarddngnsie.......HGthvA 69 
                              v+vav+DtG+d +h dl+       ++v+v  +e+ +             +ng ++   + n +++              HGthv 
  PHY93_00450|PHY93_00450 144 VIVAVVDTGIDIHHEDLK-------DVVWVNTKEIPNngidddgngyiddINGINTLVRDANGKAT------MdnkdthsHGTHVS 216
                              89****************.......66666666666566667886666663333333333333333......23333346****** PP

                              HHHH-B..SSSSSB-SSTTSEEEEEE-SSTTSB-HH..HHHHHHHHHHHHCT-SEEEE-EESCETTCHHCHHHHHHHHHHHH.CCT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8  70 Giaaanapeegekngvapgakilsvkvldtsggsmetgteliraieeaaedkvdvinmslgestslpktgrsiealainravnkkg 155
                              G+++a++++  ++ g+a ++ki +++ ++++g +  t  ++++a+ +aa++++++in+s+g+s++ ++   ++    +++  +k+g
  PHY93_00450|PHY93_00450 217 GTIGAKQNNGIGIAGIASNVKIMGIRTVPNDGDE--TDIDVAEAFVYAARNGAKIINCSFGKSSNEGRQL-IPD--TLKYIGDKYG 297
                              ****************************999855..559**********************776666666.566..8*****999* PP

                              -EEEEE--SS-T-HHEEE-TTCEECTTTST..TCEEEEEESTTSSB-TT--B-TT.......-EEEE-S-CCCCCCCCCHHHTTTH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8 156 vlvviSaGNngktgsslqagspvgtpstsk..nvitvgayttegkiapfSsrGpssdgklkpdivapGgnivstwsrqsnnsagls 239
                              vlv+++aGN++++       s+  +p++++  n + ++++t+ g +++fS++G+     +++d++apG+ni+st++ ++       
  PHY93_00450|PHY93_00450 298 VLVIAAAGNDSTDI-----DSTPTYPASFNndNLLIIASTTNGGGMSYFSNYGK-----INVDVAAPGSNIYSTVPGNK------- 366
                              ***********433.....4666778888878*********************9.....579*****************....... PP

                              HEEEE-SHHHCHHHHHHHHHHHHHHHTT--HHHHHHHHHCCS-EE.. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8 240 syqsmsGTSmAsPnaagaaAlllsalpkltpetvraallntAqdlgk 286
                               y+smsGTSmA+P   g+aA +ls +p+lt+++++++l+++ + ++ 
  PHY93_00450|PHY93_00450 367 -YESMSGTSMATPTTVGVAAEILSHNPDLTVAQLKDVLIKSVTKINS 412
                              .***************************************9988743 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (434 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       406  (0.0226449); expected 358.6 (0.02)
Passed bias filter:                      300  (0.0167327); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.43
# Mc/sec: 3041.22
//
Query:       PHY93_00455|PHY93_00455  [L=237]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.7e-15   56.9   0.0    2.6e-15   56.2   0.0    1.3  1  cNMP_binding  Cyclic nucleotide-binding domain
    6.7e-15   54.8   0.7      1e-14   54.2   0.7    1.3  1  HTH_Crp_2     Crp-like helix-turn-helix domain
     0.0001   21.9   0.0    0.00018   21.1   0.0    1.4  1  Crp           Bacterial regulatory proteins, crp family


Domain annotation for each model (and alignments):
>> cNMP_binding  Cyclic nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.2   0.0   4.4e-19   2.6e-15       3      88 ..      42     127 ..      40     128 .. 0.97

  Alignments for each domain:
  == domain 1  score: 56.2 bits;  conditional E-value: 4.4e-19
                              EE-TT-EEE-TTSB-SEEEEEEES-EEEEEEETTS.EEEEEEE-TTEEESHHHHHHTS--SSEEEESSTEEEEEEEHHHHHHHHHH CS
             cNMP_binding   3 sfkagevifrqGdpadslyivlsGevrvyrlsedgkevvlavlgpGdlfGelalltgeprtatvvAltdsellalprddflellqq 88 
                              ++++g  + ++G pa++ y + sG++++   + dgke+++++++pGd+ G + l+ +++  at+vAl+  + +++p+++f+ ll++
  PHY93_00455|PHY93_00455  42 EYHRGAHLNQKGNPANGAYCIGSGQAKIIWPEVDGKESIVKIVSPGDMTGYRCLFSEDTFRATAVALGSIRGCFIPKEHFNGLLKD 127
                              799*************************99*************************99**************************987 PP

>> HTH_Crp_2  Crp-like helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.2   0.7   1.8e-18     1e-14       1      68 []     160     234 ..     160     234 .. 0.85

  Alignments for each domain:
  == domain 1  score: 54.2 bits;  conditional E-value: 1.8e-18
                              HHHHHHHHHHHCT....TTC..EEEEEHHHHHHHHHTTSSHHHHHHHHHHHHHTTSEE.ET.EEEEES-HHHHHHH CS
                HTH_Crp_2   1 qRlArfLlrlaer....agg..eielpltqeelAsmlGltretvsrilseLkreglis.rg.rririldleaLral 68 
                              +RlA  Ll l e     +++   ++++lt+ee+++ +G+  etv r ls++k+e++i+  g + i++l+++aLr++
  PHY93_00455|PHY93_00455 160 ERLAEALLILKEScgvqQDDrwVLDIQLTREEISAWIGSAKETVVRSLSDMKDEKVIEqEGlH-IVLLNIQALRQI 234
                              7*******9955433322235899**********************************55655.**********86 PP

>> Crp  Bacterial regulatory proteins, crp family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.1   0.0     3e-08   0.00018       2      32 .]     186     216 ..     185     216 .. 0.96

  Alignments for each domain:
  == domain 1  score: 21.1 bits;  conditional E-value: 3e-08
                              E--HHHHHHHHTS-HHHHHHHHHHHHHTTSE CS
                      Crp   2 pmSRqdIAdylGlTrETVSRlLtrLrekGLI 32 
                               ++R++I   +G++ ETV R L++ + +++I
  PHY93_00455|PHY93_00455 186 QLTREEISAWIGSAKETVVRSLSDMKDEKVI 216
                              79****************************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (237 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       595  (0.0331865); expected 358.6 (0.02)
Passed bias filter:                      480  (0.0267723); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.38
# Mc/sec: 1881.34
//
Query:       PHY93_00460|PHY93_00460  [L=97]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (97 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       719  (0.0401026); expected 358.6 (0.02)
Passed bias filter:                      400  (0.0223102); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.20s 00:00:00.58 Elapsed: 00:00:00.36
# Mc/sec: 796.87
//
Query:       PHY93_00465|PHY93_00465  [L=319]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0088   15.9   0.0        1.5    8.6   0.0    2.4  2  mRNA_cap_enzyme  mRNA capping enzyme, catalytic domain


Domain annotation for each model (and alignments):
>> mRNA_cap_enzyme  mRNA capping enzyme, catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.6   0.0   8.5e-05       1.5      77     118 ..      60     101 ..      38     125 .. 0.85
   2 !    4.9   0.0    0.0012        21     104     151 ..     187     236 ..     170     247 .. 0.80

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 8.5e-05
                              EEEEEEECTTCEEEEEEEEEEEEEETTEEGTTSBHHHHHHHH CS
          mRNA_cap_enzyme  77 gElvidkveekkkelryliyDivaingvtvaeeplskRleil 118
                              g  vi k  ek ++  + +yD+vai   +++++ l +R+++ 
  PHY93_00465|PHY93_00465  60 GKKVIAKATEKAEQKGFTLYDVVAIGDGSLTDTTLIRRFAAS 101
                              566899999999**************************9875 PP

  == domain 2  score: 4.9 bits;  conditional E-value: 0.0012
                              EEGTTSBHHHHHHHHHHHT..HHHHHHHHHTTCCCCTTSSSEEEE--EEE CS
          mRNA_cap_enzyme 104 vtvaeeplskRleilkkel..ikprneekktglletdkepfsvrlKefil 151
                              ++  ++ ++k+l i+ kel  +++++  ++   +++d+e fs+  K++ +
  PHY93_00465|PHY93_00465 187 RSNCQKVFDKKLGIISKELgvQEFYKVGNHYRNFKKDIEKFSLNEKDLPQ 236
                              4556888**********96337888888888889999*********9865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (319 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       978  (0.0545485); expected 358.6 (0.02)
Passed bias filter:                      674  (0.0375927); expected 358.6 (0.02)
Passed Vit filter:                        59  (0.00329076); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.25s 00:00:00.80 Elapsed: 00:00:00.44
# Mc/sec: 2170.85
//
Query:       PHY93_00470|PHY93_00470  [L=158]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    4.8e-26   91.1   0.2    5.7e-26   90.9   0.2    1.1  1  Oxidored_q6  NADH ubiquinone oxidoreductase, 20 Kd subunit


Domain annotation for each model (and alignments):
>> Oxidored_q6  NADH ubiquinone oxidoreductase, 20 Kd subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   90.9   0.2   3.2e-30   5.7e-26       3     130 ..      31     141 ..      30     142 .. 0.91

  Alignments for each domain:
  == domain 1  score: 90.9 bits;  conditional E-value: 3.2e-30
                              HHHHHHT-TTTTHHHHHHTEEEEEET.TT-S--HHHHHHTHTTTSEEEEEESBE...EEEHHHHHHHHGGGSSEEEEESHHHHH-T CS
              Oxidored_q6   3 Gcsisllaleedlldllelielryhe.tlladskeeeieakekeadvlvveGavtrkpkealellkelaekakaviavGtCAafGG 87 
                              +c i+++a+  + +dl     +r+++  ++a+++         +ad+++v G+vt k+++++++l+e+++++++vi++G+CA  GG
  PHY93_00470|PHY93_00470  31 CCAIEMMATGASKYDL-----ERFGCgAFMATPR---------RADLMIVAGTVTFKMATRIKTLYEQMPEPRYVISMGSCANKGG 102
                              49**************.....9999867777777.........9****************************************** PP

                              GGGSTT-TEE-HHHHHHHC.S-E.EEE-SSS--HHHHHHHHHH CS
              Oxidored_q6  88 ipaaannpsvgeevgellevvpvdinipGCPphpeailetlla 130
                               +  ++    +   ++++evvpvd+++pGCPp+pea++e++++
  PHY93_00470|PHY93_00470 103 PYWQHG--YHV--LKGVDEVVPVDVYVPGCPPRPEALIEGIMT 141
                              **6666..445..469***********************9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (158 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       368  (0.0205254); expected 358.6 (0.02)
Passed bias filter:                      348  (0.0194099); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.37
# Mc/sec: 1286.79
//
Query:       PHY93_00475|PHY93_00475  [L=206]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.1e-38  131.6   0.0    2.7e-38  131.3   0.0    1.1  1  Complex1_30kDa  Respiratory-chain NADH dehydrogenase, 30 Kd s


Domain annotation for each model (and alignments):
>> Complex1_30kDa  Respiratory-chain NADH dehydrogenase, 30 Kd subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  131.3   0.0   1.5e-42   2.7e-38       1     120 [.      32     154 ..      32     156 .. 0.95

  Alignments for each domain:
  == domain 1  score: 131.3 bits;  conditional E-value: 1.5e-42
                              EE--HHHHHHHHHHHHH...TT--EEEEEEEEETTSSSEEEEEEEE--S-.-EEEEEE........-S-BEE--TTT-STHHHHHH CS
           Complex1_30kDa   1 lvvepedllevakflkdeeelgfdvlsdltavDekeerfevvyhllsleknerirvkvevde....eepevpSvtdlfpgadwyER 82 
                              ++ve++++lev+++lk+++++ f+vl+ +t+ D++ +r+e+ y+l+s++kn ++ +k+++++    + p+++S+++l+ +a+++ER
  PHY93_00475|PHY93_00475  32 ITVEAASILEVCRALKTSPDFAFNVLQVITGTDYP-DRVELSYILASYSKNLELILKANLPRgdknNLPKINSIVSLWSAANFQER 116
                              57999*****************************6.************************66554459****************** PP

                              HHHHHSHHBCTTSSTSS-SSSSTTSSS-TTSTTS---- CS
           Complex1_30kDa  83 EayDmfGivfeghpdlrrillpedfeghPLRkdfplsg 120
                              E+yDm+G+ f ghpd rril+p+d+ ghPLRkd+ +++
  PHY93_00475|PHY93_00475 117 ETYDMIGVDFVGHPDFRRILCPYDWDGHPLRKDYVVQE 154
                              **********************************9886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (206 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       427  (0.0238162); expected 358.6 (0.02)
Passed bias filter:                      401  (0.022366); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.20s 00:00:00.62 Elapsed: 00:00:00.37
# Mc/sec: 1677.35
//
Query:       PHY93_00480|PHY93_00480  [L=385]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    7.5e-93  310.5   0.1    4.3e-66  222.8   0.0    2.1  2  Complex1_49kDa  Respiratory-chain NADH dehydrogenase, 49 Kd s
    0.00058   18.9   0.0    0.00091   18.2   0.0    1.5  1  NiFeSe_Hases    Nickel-dependent hydrogenase
  ------ inclusion threshold ------
       0.16   11.8   0.0       0.31   10.9   0.0    1.4  1  RVT_3           Reverse transcriptase-like


Domain annotation for each model (and alignments):
>> Complex1_49kDa  Respiratory-chain NADH dehydrogenase, 49 Kd subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  222.8   0.0   7.1e-70   4.3e-66       1     170 [.     137     311 ..     137     313 .. 0.98
   2 !   86.8   0.0   2.2e-28   1.3e-24     196     269 ..     312     385 .]     307     385 .] 0.97

  Alignments for each domain:
  == domain 1  score: 222.8 bits;  conditional E-value: 7.1e-70
                              HTT-HHHHHHHHHHHHHHHHHHHHHHSSSSS-TTBESSBBSS---TTHHHHHHHHHHHHHHHHHHHHHHHHSSSSHHHHHSSSS-B CS
           Complex1_49kDa   1 DlGaltvflyafreRekildlleevtGaRltasyiriGGvarDlpegllekikeflkelekkldeleklltknrifkkRtkgvgvl 86 
                              DlGa+tvfly+f++Re+il+l+ee++GaR+ ++y++iGGv +D++++ l+++k+f++++e +l++++ l+ +n+if+ Rt +vgv+
  PHY93_00480|PHY93_00480 137 DLGAFTVFLYCFEDREEILRLFEELSGARMLYNYVWIGGVWNDITDDQLARVKKFCDRFEVELKKYHALVGENKIFIGRTANVGVI 222
                              9************************************************************************************* PP

                              SHHHHHHHTT-SSSSGGGT-TTTHHHHSS-SSGGGS------.....-SSBSHHHHHHHHHHHHHHHHHHHHHHHHT--.S-SB-- CS
           Complex1_49kDa  87 skeealelgltGpvlRasGvkyDlRkaepYeaYdeldfdvpv.....geegDvydRylvrveEmrqSlkIieqaleklpegpvlae 167
                              ++e a+++g+tGpvlR+sGvk+DlRk++pY +Yd++dfd+pv     g+ gD++dRy vrv Em +S+kI++q+le ++egpv+ +
  PHY93_00480|PHY93_00480 223 TEEVAFDFGATGPVLRGSGVKWDLRKNRPYGIYDKFDFDIPVgvgekGTVGDCWDRYHVRVLEMFESIKIVRQVLEGIEEGPVIGK 308
                              ******************************************99888889********************************9987 PP

                              -TT CS
           Complex1_49kDa 168 dkk 170
                               +k
  PHY93_00480|PHY93_00480 309 VPK 311
                              766 PP

  == domain 2  score: 86.8 bits;  conditional E-value: 2.2e-28
                              -----SEEEEEEEEETTEEEEEEEEEESSSS-SEEEEE-HHHHTTTTHHHHTTTS-SGGGTHHHHTT---HHHH CS
           Complex1_49kDa 196 gfkvpkgevyaavEapkGelgvylvsdgsskpyrlkirapsfvnlqaleellkgellaDvvailgsldivlgev 269
                               +kvp+ge+y+++E p+Gelg++l+sdg+++pyrlk+++++f+++++l++++ g ++aD+va +gs+divlgev
  PHY93_00480|PHY93_00480 312 IIKVPAGEIYMRTECPRGELGYHLISDGGKTPYRLKVKSSCFTHVSMLPAIAPGLMIADMVASIGSIDIVLGEV 385
                              579*********************************************************************97 PP

>> NiFeSe_Hases  Nickel-dependent hydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.0   1.5e-07   0.00091       1      70 [.      62     131 ..      62     196 .. 0.93

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 1.5e-07
                              --HHHHTTTS-GGGHHHHHHTT-SSSTTHHHHHHHHHHHHHHT----HHHHHHHHHHHHHHHHHHHHHHH CS
             NiFeSe_Hases   1 RGlElilkgrdprdawalvqRiCGVCttvHalasvravedAlgikipknarlirnliaaalllhdhivhF 70 
                              R +E+  ++ d r    +v+R+    +++  +  + +ve+ lg+++pk a++ir l+a  + + +h+v+F
  PHY93_00480|PHY93_00480  62 RCFEKHAENLDYRGIIPFVDRMDYLAAMSMEWGYALTVEKMLGTEVPKRAEYIRVLVAELQRIASHLVFF 131
                              667788888888888888888888889999999999*********************************9 PP

>> RVT_3  Reverse transcriptase-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   5.2e-05      0.31      35      76 ..      13      54 ..       6      63 .. 0.89

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 5.2e-05
                    RVT_3 35 qgkasveeAElqALlrGLqlalklgirrlvvegDsktvvqll 76
                              g ++v  +El+ L +G q+ + +g+ r+++++Ds+ vv+++
  PHY93_00480|PHY93_00480 13 LGDQEVLKSELLTLNMGPQHPATHGVLRVEIKTDSEIVVDAI 54
                             566788999******************************998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (385 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       373  (0.0208043); expected 358.6 (0.02)
Passed bias filter:                      361  (0.020135); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 2834.77
//
Query:       PHY93_05595|PHY93_05595  [L=79]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.031   13.9   0.4      0.036   13.7   0.4    1.1  1  SLATT_4   SMODS and SLOG-associating 2TM effector domain fami


Domain annotation for each model (and alignments):
>> SLATT_4  SMODS and SLOG-associating 2TM effector domain family 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.4     2e-06     0.036     114     156 ..      27      69 ..      13      77 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 2e-06
                  SLATT_4 114 alsleearkkrDeLqeelsevYsgaprTtskaYkkAqkaLkkn 156
                              + +lee+r++ D    ++ +vY++a+  + k Y+kA++ L+ +
  PHY93_05595|PHY93_05595  27 EHDLEELREHIDLISFNIGKVYRHAKDRSRKEYNKARHTLRRK 69 
                              457788999999999*************************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (79 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1292  (0.072062); expected 358.6 (0.02)
Passed bias filter:                      520  (0.0290033); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.36u 0.20s 00:00:00.56 Elapsed: 00:00:00.35
# Mc/sec: 678.75
//
Query:       PHY93_00485|PHY93_00485  [L=172]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      2e-11   43.2  21.1    1.2e-05   24.9   6.8    2.3  2  Fer4      4Fe-4S binding domain
      3e-08   34.1  16.1    4.8e-08   33.5  16.1    1.3  1  Fer4_7    4Fe-4S dicluster domain
    1.1e-06   28.6  12.1     0.0036   17.4   2.5    2.2  2  Fer4_10   4Fe-4S dicluster domain
    4.1e-05   24.4  17.0    0.00078   20.3  16.5    2.2  2  Fer4_16   4Fe-4S double cluster binding domain
    6.2e-05   23.1  16.6     0.0015   18.6  17.9    2.1  2  Fer4_9    4Fe-4S dicluster domain
    9.3e-05   22.8  12.6    0.00017   21.9  12.6    1.4  1  Fer4_8    4Fe-4S dicluster domain
    0.00011   22.3  21.2     0.0023   18.0  21.5    2.1  2  Fer4_21   4Fe-4S dicluster domain
    0.00015   21.7  16.6     0.0064   16.5   2.6    2.4  2  Fer4_2    4Fe-4S binding domain
     0.0012   19.3  15.8      0.013   16.0  16.4    2.0  2  Fer4_17   4Fe-4S dicluster domain
  ------ inclusion threshold ------
      0.011   15.8  22.6      0.046   13.8   7.3    2.3  2  Fer4_6    4Fe-4S binding domain
      0.033   15.0  14.9       0.88   10.5   1.8    2.2  2  Fer4_22   4Fe-4S dicluster domain
       0.86    9.8   7.4        1.1    9.4   1.0    2.2  2  ETF_QO    Electron transfer flavoprotein-ubiquinone oxidoredu
        1.1    9.5  14.4        1.8    8.8   2.4    2.2  2  Fer4_18   4Fe-4S dicluster domain
        1.9    9.3  18.4        1.9    9.3   2.5    3.2  3  Fer4_15   4Fe-4S single cluster domain
          3    8.6  20.3       0.55   10.9   4.6    2.3  2  Fer4_4    4Fe-4S binding domain


Domain annotation for each model (and alignments):
>> Fer4  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.3   6.4   1.6e-08   1.9e-05       4      24 .]      69      89 ..      66      89 .. 0.93
   2 !   24.9   6.8     1e-08   1.2e-05       1      24 []     117     140 ..     117     140 .. 0.94

  Alignments for each domain:
  == domain 1  score: 24.3 bits;  conditional E-value: 1.6e-08
                             ETTTSSS-THHHHHSTTTEEE CS
                     Fer4  4 deekCigCGaCvevCPvgAIt 24
                             d e Ci C +C+ +CPv++I+
  PHY93_00485|PHY93_00485 69 DAENCISCLQCAVACPVDCIY 89
                             89*****************96 PP

  == domain 2  score: 24.9 bits;  conditional E-value: 1e-08
                              EEEETTTSSS-THHHHHSTTTEEE CS
                     Fer4   1 vvideekCigCGaCvevCPvgAIt 24 
                              ++id+ +C +CG+C  vCP++++t
  PHY93_00485|PHY93_00485 117 YTIDTTLCCYCGLCTTVCPTECLT 140
                              58*******************986 PP

>> Fer4_7  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.5  16.1     4e-11   4.8e-08       2      51 ..      73     137 ..      72     138 .. 0.80

  Alignments for each domain:
  == domain 1  score: 33.5 bits;  conditional E-value: 4e-11
                   Fer4_7   2 CigCgaCvaaCpvkaieldeeenek.........gt......ekveidpekClgCgaCvavCPtg 51 
                              Ci C +C++aCpv++i+++ ++++          gt      ++++id + C +Cg C +vCPt+
  PHY93_00485|PHY93_00485  73 CISCLQCAVACPVDCIYITAVKRPTdaakiktkdGTpirldlKQYTIDTTLCCYCGLCTTVCPTE 137
                              *******************88777655555544422555566888******************96 PP

>> Fer4_10  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   2.5     3e-06    0.0036       3      26 ..      67      93 ..      65     111 .. 0.69
   2 !   16.7   2.2   4.8e-06    0.0058       3      24 ..     118     140 ..     116     161 .. 0.78

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 3e-06
                  Fer4_10  3 vidddtCirCgkCvkaCPadl...tsv 26
                             + d++ Ci C +C  aCP+d    t+v
  PHY93_00485|PHY93_00485 67 YNDAENCISCLQCAVACPVDCiyiTAV 93
                             67999**************77665222 PP

  == domain 2  score: 16.7 bits;  conditional E-value: 4.8e-06
                  Fer4_10   3 vidddtCirCgkCvkaCPadl.t 24 
                               id+  C  Cg C+++CP+   t
  PHY93_00485|PHY93_00485 118 TIDTTLCCYCGLCTTVCPTEClT 140
                              68999*************95553 PP

>> Fer4_16  4Fe-4S double cluster binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.3  16.5   6.5e-07   0.00078       1      66 [.      72     136 ..      72     137 .. 0.70
   2 !   16.4   4.7   1.1e-05     0.013       2      28 ..     124     150 ..     123     170 .. 0.80

  Alignments for each domain:
  == domain 1  score: 20.3 bits;  conditional E-value: 6.5e-07
                  Fer4_16   1 rCgtCgkCaevCPtnaikekkekeiearecisyntaekkdlaedeekck.kqeaitgCdiCqdvCPa 66 
                              +C++C +Ca +CP+++i  +  ++ ++ +  + +t++   ++ d ++ +   + + +C+ C++vCP 
  PHY93_00485|PHY93_00485  72 NCISCLQCAVACPVDCIYIT--AVKRPTDAAKIKTKDGTPIRLDLKQYTiDTTLCCYCGLCTTVCPT 136
                              6***************9988..333333333334555555555555555235678***********6 PP

  == domain 2  score: 16.4 bits;  conditional E-value: 1.1e-05
                  Fer4_16   2 CgtCgkCaevCPtnaikekkekeiear 28 
                              C  Cg C+ vCPt+++++++++e+++ 
  PHY93_00485|PHY93_00485 124 CCYCGLCTTVCPTECLTHTTDYEFASY 150
                              99****************988887654 PP

>> Fer4_9  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   4.0   1.3e-05     0.015      33      51 .]      65      88 ..      44      88 .. 0.72
   2 !   18.6  17.9   1.3e-06    0.0015       1      50 [.      72     138 ..      72     139 .. 0.89

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 1.3e-05
                   Fer4_9 33 e.....eaCigCgaCveaCpkgai 51
                                   e+Ci+C +C+ aCp ++i
  PHY93_00485|PHY93_00485 65 RlyndaENCISCLQCAVACPVDCI 88
                             13333679************9987 PP

  == domain 2  score: 18.6 bits;  conditional E-value: 1.3e-06
                   Fer4_9   1 kCtgCgaCveaCpagvvvedaaerkarlraase.................eaCigCgaCveaCpkga 50 
                              +C++C +C  aCp + +   a++r     + +                  + C  Cg C+ +Cp+++
  PHY93_00485|PHY93_00485  72 NCISCLQCAVACPVDCIYITAVKRPTDAAKIKTkdgtpirldlkqytidtTLCCYCGLCTTVCPTEC 138
                              6***********999998888888877777766789999999********9*************985 PP

>> Fer4_8  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.9  12.6   1.4e-07   0.00017       2      64 ..      70     137 ..      69     138 .. 0.72

  Alignments for each domain:
  == domain 1  score: 21.9 bits;  conditional E-value: 1.4e-07
                   Fer4_8   2 lekCieCgaCqsaCp...vlrrtkkhlldargeaae.........dvqeeqvleeeealwsCttcgaCtevCpvg 64 
                              +e+Ci C  C  aCp   ++ +  k++ da + +++         ++              C  cg Ct+vCp++
  PHY93_00485|PHY93_00485  70 AENCISCLQCAVACPvdcIYITAVKRPTDAAKIKTKdgtpirldlKQY-------TIDTTLCCYCGLCTTVCPTE 137
                              79************9887555555666666666666565554432222.......455799************85 PP

>> Fer4_21  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.8   6.8   4.1e-05     0.049      37      57 ..      69      88 ..      59      91 .. 0.75
   2 !   18.0  21.5     2e-06    0.0023       4      58 ..      69     140 ..      67     141 .. 0.74

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 4.1e-05
                  Fer4_21 37 vedeCvGCnlCssvCPvedci 57
                              +++C+ C  C+  CPv dci
  PHY93_00485|PHY93_00485 69 DAENCISCLQCAVACPV-DCI 88
                             56788888888888888.888 PP

  == domain 2  score: 18.0 bits;  conditional E-value: 2e-06
                  Fer4_21   4 dedkCigCgkCliaCedtshqai............eidaktvl...............kvvedeCvGCnlCssvCPvedcie 58 
                              d ++Ci+C +C++aC+   +++i            +      +               ++ +  C  C lC++vCP+ +c++
  PHY93_00485|PHY93_00485  69 DAENCISCLQCAVACP---VDCIyitavkrptdaaK------IktkdgtpirldlkqyTIDTTLCCYCGLCTTVCPT-ECLT 140
                              679*************...78886666565554442......034444455556655588899*************6.9986 PP

>> Fer4_2  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   2.6   5.4e-06    0.0064       4      21 ..      67      84 ..      64      85 .. 0.88
   2 !   10.6   6.3    0.0004      0.47       4      22 .]     118     136 ..     115     136 .. 0.85

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 5.4e-06
                   Fer4_2  4 vvdtdrCigCgaCvsaCP 21
                             + d+++Ci+C  C  aCP
  PHY93_00485|PHY93_00485 67 YNDAENCISCLQCAVACP 84
                             6689************** PP

  == domain 2  score: 10.6 bits;  conditional E-value: 0.0004
                   Fer4_2   4 vvdtdrCigCgaCvsaCPa 22 
                               +dt  C  Cg C+++CP+
  PHY93_00485|PHY93_00485 118 TIDTTLCCYCGLCTTVCPT 136
                              678888888*********7 PP

>> Fer4_17  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.2   3.5   8.5e-05       0.1      40      58 ..      67      85 ..      41      88 .. 0.77
   2 !   16.0  16.4   1.1e-05     0.013       1      59 [.      72     137 ..      72     139 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 8.5e-05
                  Fer4_17 40 eekaslCieCgeCerkCPq 58
                              + a++Ci+C +C+ +CP 
  PHY93_00485|PHY93_00485 67 YNDAENCISCLQCAVACPV 85
                             3789**************6 PP

  == domain 2  score: 16.0 bits;  conditional E-value: 1.1e-05
                  Fer4_17   1 rCiqCgyClpeCpsyeaydnepkkllraaklgllee..aeke.......ekaslCieCgeCerkCPqg 59 
                              +Ci+C  C+ +Cp   +y +  k++  aak++ +++  +  +           lC+ Cg+C+++CP +
  PHY93_00485|PHY93_00485  72 NCISCLQCAVACPVDCIYITAVKRPTDAAKIKTKDGtpI--RldlkqytIDTTLCCYCGLCTTVCPTE 137
                              6****************99999******99966666331..223444435889*************75 PP

>> Fer4_6  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   7.3   3.9e-05     0.046       5      24 .]      69      88 ..      66      88 .. 0.90
   2 ?    7.7   7.4    0.0032       3.8       4      22 ..     119     137 ..     118     139 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 3.9e-05
                   Fer4_6  5 dpdkCigCgdCvrvCPegai 24
                             d+++Ci+C  C+++CP + i
  PHY93_00485|PHY93_00485 69 DAENCISCLQCAVACPVDCI 88
                             89**************8765 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.0032
                   Fer4_6   4 idpdkCigCgdCvrvCPeg 22 
                              id  +C  Cg C++vCP+ 
  PHY93_00485|PHY93_00485 119 IDTTLCCYCGLCTTVCPTE 137
                              67777777*********96 PP

>> Fer4_22  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   1.8   0.00073      0.88       1      24 [.      72      94 ..      72     113 .. 0.66
   2 ?   10.0   5.6     0.001       1.3       2      22 ..     124     144 ..     123     161 .. 0.72

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00073
                  Fer4_22  1 rClsCgaCtlvCptCsCfdvedet 24
                             +C+sC +C+++Cp   C+ ++ ++
  PHY93_00485|PHY93_00485 72 NCISCLQCAVACPV-DCIYITAVK 94
                             6************7.444444444 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.001
                  Fer4_22   2 ClsCgaCtlvCpt.CsCfdved 22 
                              C  Cg Ct+vCpt C  +++ d
  PHY93_00485|PHY93_00485 124 CCYCGLCTTVCPTeCLTHTT-D 144
                              99**********94444433.3 PP

>> ETF_QO  Electron transfer flavoprotein-ubiquinone oxidoreductase, 4Fe-4S
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4   1.0   0.00091       1.1      62      91 ..      60      89 ..      48      97 .. 0.80
   2 ?    4.0   0.7     0.046        55      22      54 ..     108     138 ..      91     153 .. 0.61

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.00091
                             TTSSEEEEE-CCC--S--HHHHH-TT--EE CS
                   ETF_QO 62 eakekklqinaqnCvhCktCdikdpsqnie 91
                              ++ ++l  +a+nC+ C  C +  p + i 
  PHY93_00485|PHY93_00485 60 ANSRSRLYNDAENCISCLQCAVACPVDCIY 89
                             456789999*************99988775 PP

  == domain 2  score: 4.0 bits;  conditional E-value: 0.046
                              S--SEEESSTTHHHHTHHHHHS-THHHH-TTS- CS
                   ETF_QO  22 qpvhLklkdaevavkvnlekyagpeqryCPagv 54 
                               p+ L lk+ ++   ++l  y g ++ +CP   
  PHY93_00485|PHY93_00485 108 TPIRLDLKQYTID--TTLCCYCGLCTTVCPTEC 138
                              4555555544433..334446666666666554 PP

>> Fer4_18  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   2.4    0.0015       1.8      51      74 ..      63      86 ..      35      93 .. 0.73
   2 ?    5.2   5.6     0.019        23      56      74 ..     119     137 ..      87     142 .. 0.76

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.0015
                  Fer4_18 51 eerkekgagdcidcescvkvcPtg 74
                              +r  ++a +ci+c +c   cP++
  PHY93_00485|PHY93_00485 63 RSRLYNDAENCISCLQCAVACPVD 86
                             455567778899999999999975 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.019
                  Fer4_18  56 kgagdcidcescvkvcPtg 74 
                               +++ c  c+ c +vcPt+
  PHY93_00485|PHY93_00485 119 IDTTLCCYCGLCTTVCPTE 137
                              45667************96 PP

>> Fer4_15  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.3   4.6     0.027        32       4      19 ..      69      84 ..      67      84 .. 0.93
   2 ?    5.9   0.8     0.018        21      57      66 .]      81      90 ..      80      90 .. 0.86
   3 ?    9.3   2.5    0.0016       1.9       2      20 ..     118     136 ..     118     155 .. 0.89

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.027
                  Fer4_15  4 DrdaCigcglCvaeap 19
                             D ++Ci+c +C+ ++p
  PHY93_00485|PHY93_00485 69 DAENCISCLQCAVACP 84
                             889**********998 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.018
                  Fer4_15 57 raCPvdAIrv 66
                              aCPvd+I +
  PHY93_00485|PHY93_00485 81 VACPVDCIYI 90
                             69******87 PP

  == domain 3  score: 9.3 bits;  conditional E-value: 0.0016
                  Fer4_15   2 vvDrdaCigcglCvaeape 20 
                              ++D ++C  cglC +++p+
  PHY93_00485|PHY93_00485 118 TIDTTLCCYCGLCTTVCPT 136
                              69***************85 PP

>> Fer4_4  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   4.6   0.00046      0.55       2      16 ..      71      85 ..      70      92 .. 0.93
   2 ?    3.2   7.8      0.13   1.5e+02       4      16 ..     124     136 ..     121     143 .. 0.88

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00046
                   Fer4_4  2 erCigCgsCvaaCPq 16
                             e+Ci C +C  aCP+
  PHY93_00485|PHY93_00485 71 ENCISCLQCAVACPV 85
                             89************7 PP

  == domain 2  score: 3.2 bits;  conditional E-value: 0.13
                   Fer4_4   4 CigCgsCvaaCPq 16 
                              C  Cg C+ +CP+
  PHY93_00485|PHY93_00485 124 CCYCGLCTTVCPT 136
                              666*********7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (172 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       562  (0.0313459); expected 358.6 (0.02)
Passed bias filter:                      267  (0.0148921); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.42u 0.20s 00:00:00.62 Elapsed: 00:00:00.35
# Mc/sec: 1461.34
//
Query:       PHY93_00490|PHY93_00490  [L=377]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.6e-60  203.1  39.1    3.9e-32  111.6  17.6    2.1  2  Chromate_transp  Chromate transporter


Domain annotation for each model (and alignments):
>> Chromate_transp  Chromate transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   97.7  13.6   4.1e-32   7.3e-28       3     154 ..      15     176 ..      13     179 .. 0.87
   2 !  111.6  17.6   2.2e-36   3.9e-32       3     155 ..     210     371 ..     208     373 .. 0.91

  Alignments for each domain:
  == domain 1  score: 97.7 bits;  conditional E-value: 4.1e-32
          Chromate_transp   3 lflfflkiGllifGGgyavipllreevverkgwlteeefldglalaqalPGPiavnlatfvGylil.gvlGaliatlgfflPsfll 87 
                              +++ fl++G+l+fGG++av+  +++++ve+++w++ e+f  +++l +a+PGP+a ++a+f+G + + g++G+ +a +g+++P+f+l
  PHY93_00490|PHY93_00490  15 VLFYFLRLGSLGFGGPLAVVGSIQKDLVENRKWMEVEDFNAVFSLIKAMPGPVAFQTAVFMGRV-RaGFFGGALAAFGLVTPAFCL 99 
                              6789**************************99*******************************9.55******************* PP

          Chromate_transp  88 illlaplleklrknplvkaaleglnaavvglilaaalslakk........iallaflllllf..kvspilvillaal 154
                              ++l++ +++++++ +  +++l g++ a+ g+il  +  l+k+        +++++  +++++  +++pi++i ++++
  PHY93_00490|PHY93_00490 100 MILFSLFFKSMSEIEGTSSVLVGMQVAALGVILGSLKGLVKNnmkdfffwVLVFVSGAINFYhpSIEPIIIIGFGLM 176
                              ***********888999*******************97777788888876555566666666333447766644443 PP

  == domain 2  score: 111.6 bits;  conditional E-value: 2.2e-36
          Chromate_transp   3 lflfflkiGllifGGgyavipllreevverkgwlteeefldglalaqalPGPiavnlatfvGylilgvlGaliatlgfflPsflli 88 
                              l+l+ +k+G+l+fG g+a++p+l+++vv +++wl+++efld+la++q++PGP++  +at++G++++g++Ga+iat+++f+ +f+ +
  PHY93_00490|PHY93_00490 210 LALVCFKAGALVFGTGLAIVPMLQHDVVVKYKWLSQSEFLDALAFGQMTPGPVV-ITATYIGHKLAGMPGAIIATAAIFAAAFFHM 294
                              78999************************************************5.99*******66******************** PP

          Chromate_transp  89 lllapllek.lrknplvkaaleglnaavvglilaaalslakk.........iallaflllllfkvspilvillaall 155
                                + pl+ + lr +++++ ++ g  aavvg i+ ++l+++ +         +a+++f+l+++ kv+ +l+i l+++l
  PHY93_00490|PHY93_00490 295 STWFPLVVSrLRGQKWINDFVFGAVAAVVGPIIVTVLKMGYEvpfniflmiMAIVVFVLTFMNKVPLWLLIPLGGIL 371
                              **99998776888************************9988899999988766777888888888878888677665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (377 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       967  (0.053935); expected 358.6 (0.02)
Passed bias filter:                      349  (0.0194657); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.22s 00:00:00.78 Elapsed: 00:00:00.41
# Mc/sec: 2731.40
//
Query:       PHY93_00495|PHY93_00495  [L=144]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.7e-20   73.7   3.8    3.7e-18   66.1   3.8    2.1  1  RDD              RDD family
  ------ inclusion threshold ------
      0.078   12.2   0.3      0.097   11.9   0.3    1.2  1  ABC2_membrane_2  ABC-2 family transporter protein


Domain annotation for each model (and alignments):
>> RDD  RDD family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.1   3.8   4.1e-22   3.7e-18       1     140 [.       3     114 ..       3     115 .. 0.91

  Alignments for each domain:
  == domain 1  score: 66.1 bits;  conditional E-value: 4.1e-22
                      RDD   1 laslgrRllAfliDlvllliislllallivallnakasaneavagslllllllvlllvllvyqllllsk.kgqTlGklllglkvvd 85 
                              + sl+rR +A++iD+++l++is l                        ++l+  +++++++y+ +++s+   +T+Gk l  + v +
  PHY93_00495|PHY93_00495   3 YSSLWRRAAAAIIDGIILSAISTLCLRT--------------------VILFPFAFILHFFYKPIFESSnVRATPGKYLAEISVCR 68 
                              689******************9875443....................3458888889999999999998**************** PP

                      RDD  86 edgrklglaqaliRalllllllvlglslvlllllligflfvlfsrkrqalhDkla 140
                              ++g kl+l+ a iR +          s +++l+l ig+l++lf++++q+lhD++a
  PHY93_00495|PHY93_00495  69 SNGDKLSLKDAYIRYF---------ASWISGLTLGIGYLIALFNDRKQTLHDMFA 114
                              ****************.........8899************************98 PP

>> ABC2_membrane_2  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.3   1.1e-05     0.097     130     189 ..      12     104 ..       6     123 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 1.1e-05
          ABC2_membrane_2 130 igla..iavallatvll..................................alaiilalgivlaledllllvvasvlllllvvfla 179
                              ++++  i+++++ t+ l                                  ++ +  ++g+ l+l+d ++  +as++++l  + l+
  PHY93_00495|PHY93_00495  12 AAIIdgIILSAISTLCLrtvilfpfafilhffykpifessnvratpgkylaEISVCRSNGDKLSLKDAYIRYFASWISGL--T-LG 94 
                              445553344444443337777777777778888888888888888888888*****************************..5.8* PP

          ABC2_membrane_2 180 lglllSsvar 189
                              +g+l++ +  
  PHY93_00495|PHY93_00495  95 IGYLIALFND 104
                              *****99876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (144 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       439  (0.0244855); expected 358.6 (0.02)
Passed bias filter:                      325  (0.0181271); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 1099.50
//
Query:       PHY93_00500|PHY93_00500  [L=148]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.4e-14   52.2  12.6    8.6e-14   52.0  12.6    1.0  1  DMT_YdcZ  Putative inner membrane exporter, YdcZ
  ------ inclusion threshold ------
        1.8    9.1  20.9        2.1    8.9   6.4    2.6  3  FtsX      FtsX-like permease family


Domain annotation for each model (and alignments):
>> DMT_YdcZ  Putative inner membrane exporter, YdcZ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.0  12.6   9.6e-18   8.6e-14       2     137 ..       4     142 ..       3     144 .. 0.90

  Alignments for each domain:
  == domain 1  score: 52.0 bits;  conditional E-value: 9.6e-18
                 DMT_YdcZ   2 llllallaGallalqaaiNaqLgkklgsplaAalvsflvGlivllllllllrks........aalaalksvpwwallGGllGavfv 79 
                               +ll l++G +  lq+aiN q+++++g + +A+l++ + ++i+++ + ++++          +  a +++ +ww+ +  +lG +++
  PHY93_00500|PHY93_00500   4 TILLPLFIGCFGILQGAINRQIATTIG-VAQATLITNIGSVIICIGFYFFVKYFsdlfpdffQMKAPITTYKWWYIFPPILGFLII 88 
                              58999**********************.****************999999996556785553333446699*************** PP

                 DMT_YdcZ  80 tlnillvpklGaaltvvlvllGqllaslliDhfGlfgvekrplsltrllGlllllaGv 137
                              +   +++ klGa+ ++v ++++q+++s++ D      ve ++l++ +++G+++ ++ v
  PHY93_00500|PHY93_00500  89 AGIPFAIAKLGAVKVTVGLIAAQMVTSIVWDM----MVEDISLNIMKVIGIFFAFLSV 142
                              *******************************5....6***************998766 PP

>> FtsX  FtsX-like permease family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.2       0.2   1.8e+03      26      39 ..       9      22 ..       2      33 .. 0.66
   2 ?    8.9   6.4   0.00023       2.1      22      83 ..      31      89 ..      14      98 .. 0.70
   3 ?    4.3  10.0    0.0063        57      27      82 ..      91     145 ..      82     148 .] 0.67

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 0.2
                     FtsX 26 llitlvalviGlgl 39
                             l+i++++++ G ++
  PHY93_00500|PHY93_00500  9 LFIGCFGILQGAIN 22
                             67777777776554 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 0.00023
                     FtsX 22 lteillitlvalviGlglgllaaqllsdvllssvfsselkisidlitvliiivlllllalla 83
                             + ++ lit +++vi ++  +++ +++sd++  ++   ++k  i +  ++ i+  +l ++++a
  PHY93_00500|PHY93_00500 31 VAQATLITNIGSVIICIGFYFFVKYFSDLFPDFF---QMKAPITTYKWWYIFPPILGFLIIA 89
                             45789****************************5...5555555555555555554444444 PP

  == domain 3  score: 4.3 bits;  conditional E-value: 0.0063
                     FtsX  27 litlvalviG..lglgllaaqllsdvllssvfsselkisidlitvliiivlllllall 82 
                              + +++a + +  + +gl+aaq++ + +  +   +  +is++++ v+ i++ +l ++ +
  PHY93_00500|PHY93_00500  91 IPFAIAKLGAvkVTVGLIAAQMVTSIVWDM---MVEDISLNIMKVIGIFFAFLSVTFI 145
                              222222222223456*******99999999...6799999999999999988887765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (148 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       840  (0.0468515); expected 358.6 (0.02)
Passed bias filter:                      299  (0.0166769); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.38
# Mc/sec: 1161.57
//
Query:       PHY93_00505|PHY93_00505  [L=410]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.9e-20   71.6   0.0    8.1e-20   71.1   0.0    1.1  1  Methyltrans_SAM  S-adenosylmethionine-dependent methyltransfe
    1.3e-06   28.2   0.0    1.9e-06   27.6   0.0    1.2  1  Cons_hypoth95    Conserved hypothetical protein 95
     0.0016   18.2   0.0     0.0044   16.8   0.0    1.7  2  Met_10           Met-10+ like-protein
       0.01   15.2   0.0      0.018   14.4   0.0    1.3  1  Methyltransf_10  RNA methyltransferase
  ------ inclusion threshold ------
      0.059   12.8   0.0      0.096   12.1   0.0    1.3  1  PrmA             Ribosomal protein L11 methyltransferase (Prm


Domain annotation for each model (and alignments):
>> Methyltrans_SAM  S-adenosylmethionine-dependent methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   71.1   0.0   2.3e-23   8.1e-20      60     266 ..     164     377 ..     114     391 .. 0.80

  Alignments for each domain:
  == domain 1  score: 71.1 bits;  conditional E-value: 2.3e-23
          Methyltrans_SAM  60 grslvlqhryadgaas.evlvgeldespvvvesglkyqldigrnqnfglfldmrlgrdwvqen.akdknvlnlfaytcgfsvaaia 143
                                 + +q r  +++ s   + g+ ++ +v++e g++yq+ +  n +fg++ dm   r+ ++    k++ +lnlf+yt  fs+ ++ 
  PHY93_00505|PHY93_00505 164 LEDIWIQERNFNQSKSiRSMNGKTHADFVLKEFGINYQIRLNENYDFGIYTDMSAIRNQMRSYlEKSQSLLNLFSYTGAFSLYTLK 249
                              456778888666655427899*************************************999872577899**************** PP

          Methyltrans_SAM 144 ggaskvvnvdmargslnkgrdnhrlngh.dlrrvsflgydifkswgki.kksgpydlviidppsfq.kgsfa..ltkdykkilrrl 224
                               ga+++v vd++   ln   +n  ln   + +  s l     k+  k+   + +++ +i dpps    gs +    k y k+l  +
  PHY93_00505|PHY93_00505 250 LGAKNIVSVDLSSKYLNWLEENIALNPDlNPELHSSLCMPSEKAMEKLiSEQIKFEAIICDPPSASsDGSTTssALKSYEKLLPLM 335
                              **************************6425556788888899999996267889*********985257754115699******** PP

          Methyltrans_SAM 225 pellveggevlacvnspavspdflieemaeeapslefverld 266
                               +ll+  g+++  +n  ++s + + e++       ef ++++
  PHY93_00505|PHY93_00505 336 LKLLATNGSLFVFLNTHTISWNKFEEKLSLIIATTEFANKIN 377
                              ********************9988888777777777766665 PP

>> Cons_hypoth95  Conserved hypothetical protein 95
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.6   0.0   5.3e-10   1.9e-06      34     142 ..     221     331 ..     216     356 .. 0.85

  Alignments for each domain:
  == domain 1  score: 27.6 bits;  conditional E-value: 5.3e-10
                              HHHCCCHC.C-EEEETT-TTSHHHHHHHHTT-SEEEEEES-HHHHHHHHHHHCCCT--T..TTEEEEES-HHHHCTS--SS-EEEE CS
            Cons_hypoth95  34 nilaaeie.garvLDlfaGsGalglEAlSRgakkavlvekdkeavkilkenleelklee..etaelkedaleallklakkkeefdi 116
                              n +++++e  +++L+lf+ +Ga +l  l  gak++v v+ +++ ++ l+en++     +   ++ l + +++a++kl +++ +f+ 
  PHY93_00505|PHY93_00505 221 NQMRSYLEkSQSLLNLFSYTGAFSLYTLKLGAKNIVSVDLSSKYLNWLEENIALNPDLNpeLHSSLCMPSEKAMEKLISEQIKFEA 306
                              55566654145789**************************************9754333447999********************* PP

                              EEE--SSSTTCH.HHHHHHHHHTT-E CS
            Cons_hypoth95 117 vflDPPyakellieevlelleekkll 142
                              +  DPP a+++   ++ ++l++ + l
  PHY93_00505|PHY93_00505 307 IICDPPSASSDG-STTSSALKSYEKL 331
                              *********998.8888888776555 PP

>> Met_10  Met-10+ like-protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0      0.83     3e+03     126     141 ..       4      19 ..       2      20 .. 0.84
   2 !   16.8   0.0   1.2e-06    0.0044      53     147 ..     179     275 ..     166     304 .. 0.85

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 0.83
                              EEEEEES-HHHHHHHH CS
                   Met_10 126 rvlaidlnPesvkylk 141
                              ++  ++l P+s kylk
  PHY93_00505|PHY93_00505   4 KISKVNLHPASCKYLK 19 
                              5677999*******97 PP

  == domain 2  score: 16.8 bits;  conditional E-value: 1.2e-06
                              -EEEEEES-.SEEEEEETTEEEEEETTTS-...--GGGHHHHHHHHTT--TT-EEEETT-TTTCCHHHCCHHTTSSEEEEEES-HH CS
                   Met_10  53 elevlaGsdstetihkEngcrfklDvskvy...fsskleaErerlaklveegevVvdvfAGiGpfaipiakyskakrvlaidlnPe 135
                              +++ + G+ +   + kE g+++++ + + y     +  +a r+++ +  e+ +  +++f   G f++   k++ ak ++++dl  +
  PHY93_00505|PHY93_00505 179 SIRSMNGKTHADFVLKEFGINYQIRLNENYdfgIYTDMSAIRNQMRSYLEKSQSLLNLFSYTGAFSLYTLKLG-AKNIVSVDLSSK 263
                              56677888888888899999999988887652223567788999999***********************976.56699******* PP

                              HHHHHHHHHHHT CS
                   Met_10 136 svkylkeniklN 147
                                ++l+eni+lN
  PHY93_00505|PHY93_00505 264 YLNWLEENIALN 275
                              ***********9 PP

>> Methyltransf_10  RNA methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.0   4.9e-06     0.018     128     195 ..     254     321 ..     226     339 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 4.9e-06
                              EEEEEES-HHHHHHHHHHHHHT.T-TTTEEEEE--TT-SCCHHSSTTSS-EEEEEE-S---SS----- CS
          Methyltransf_10 128 rfvgsevddvslasakaivesnsklsdaiklrkqkekkaifdglieenerydvtlCnPPfhaslaeak 195
                              + v+ +++++ l+  + +++ n++l+  ++      +++ ++ li e+ ++++ +C+PP  +s   ++
  PHY93_00505|PHY93_00505 254 NIVSVDLSSKYLNWLEENIALNPDLNPELHSSLCMPSEKAMEKLISEQIKFEAIICDPPSASSDGSTT 321
                              46889999***************************************************876655444 PP

>> PrmA  Ribosomal protein L11 methyltransferase (PrmA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   2.7e-05     0.096     159     215 ..     227     284 ..     216     310 .. 0.69

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 2.7e-05
                     PrmA 159 vkegeevlDvGtGSGiLaiaaakLgakkvvavDiDevAvkvakeNaelN.kveaklev 215
                              +++ +++l +   +G  ++  +kLgak++v vD+ +  ++  +eN++lN +++ +l+ 
  PHY93_00505|PHY93_00505 227 LEKSQSLLNLFSYTGAFSLYTLKLGAKNIVSVDLSSKYLNWLEENIALNpDLNPELHS 284
                              55666666666678899999*****************************634444433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (410 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       596  (0.0332422); expected 358.6 (0.02)
Passed bias filter:                      418  (0.0233142); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.39
# Mc/sec: 3125.89
//
Query:       PHY93_00510|PHY93_00510  [L=89]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (89 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       295  (0.0164538); expected 358.6 (0.02)
Passed bias filter:                      260  (0.0145016); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.37u 0.20s 00:00:00.57 Elapsed: 00:00:00.35
# Mc/sec: 752.27
//
Query:       PHY93_00515|PHY93_00515  [L=308]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        6.7    6.7   8.7        1.4    8.9   2.6    2.5  3  DUF2678   Protein of unknown function (DUF2678)


Domain annotation for each model (and alignments):
>> DUF2678  Protein of unknown function (DUF2678)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   2.6   7.7e-05       1.4      26      76 ..     123     178 ..     113     209 .. 0.72
   2 ?    1.1   0.3      0.02   3.6e+02      30      56 ..     168     194 ..     162     228 .. 0.77
   3 ?    0.0   0.4     0.043   7.7e+02      76     107 ..     261     292 ..     257     304 .. 0.75

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 7.7e-05
                  DUF2678  26 rdriinlvvggltsllvlvtvvssfvfpsl.....ppkplniffavcillisssvi 76 
                               +++++ ++ggl  +lv+ t   sfvf s+     p     iff++ + l  + v 
  PHY93_00515|PHY93_00515 123 EKKVLDEIIGGLLQFLVIATTTWSFVFLSAslvqiPLSKSTIFFMLALQLGGVVVF 178
                              67899999*******************76411111334446888888877655544 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.02
                  DUF2678  30 inlvvggltsllvlvtvvssfvfpslp 56 
                              + l +gg+  ++ lv +v s  f +  
  PHY93_00515|PHY93_00515 168 LALQLGGVVVFFQLVKIVKSKTFLKFS 194
                              678999***********9998886643 PP

  == domain 3  score: 0.0 bits;  conditional E-value: 0.043
                  DUF2678  76 ivlifwyrqgdlepkfrnliyyilasivllcl 107
                              i+   w+ q +   kf +++  + +si+++ +
  PHY93_00515|PHY93_00515 261 IIREIWHLQEENFQKFTKIVQVLKFSILVFFF 292
                              566679999999999*9999999999876543 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (308 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       971  (0.0541581); expected 358.6 (0.02)
Passed bias filter:                      507  (0.0282782); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.19s 00:00:00.69 Elapsed: 00:00:00.36
# Mc/sec: 2547.00
//
Query:       PHY93_00520|PHY93_00520  [L=558]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.8e-54  182.9   0.1    1.8e-25   90.1   0.0    3.4  3  ABC_tran      ABC transporter
    5.1e-18   65.9   1.2      0.001   18.9   0.0    4.3  4  AAA_21        AAA domain, putative AbiEii toxin, Type IV TA s
    5.1e-15   55.3   6.6    2.3e-12   46.8   5.8    2.7  2  ABC_tran_Xtn  ABC transporter
    7.4e-07   28.8   5.3       0.13   11.6   0.3    4.3  3  SMC_N         RecF/RecN/SMC N terminal domain
    1.8e-05   24.4   0.5       0.12   12.2   0.0    2.4  2  AAA_29        P-loop containing region of AAA domain
    5.4e-05   23.7   0.7       0.18   12.4   0.0    3.3  3  AAA_18        AAA domain
    6.7e-05   22.9   0.1       0.35   10.9   0.1    2.7  2  MMR_HSR1      50S ribosome-binding GTPase
    0.00035   20.8   0.1        1.5    9.0   0.0    3.1  3  AAA_33        AAA domain
    0.00038   20.5   0.3       0.21   11.6   0.0    3.1  3  Dynamin_N     Dynamin family
     0.0012   18.8   0.5       0.31   10.9   0.0    2.4  2  RsgA_GTPase   RsgA GTPase
     0.0018   17.2   0.2       0.13   11.1   0.0    2.3  2  DLIC          Dynein light intermediate chain (DLIC)
     0.0026   18.3   1.2     0.0026   18.3   1.2    3.8  3  AAA_23        AAA domain
     0.0027   18.1   0.6        1.5    9.3   0.3    3.0  2  AAA           ATPase family associated with various cellular 
      0.003   17.8   0.5       0.55   10.5   0.4    3.0  2  AAA_22        AAA domain
     0.0047   17.0   1.5        5.9    6.9   0.0    3.5  3  AAA_14        AAA domain
     0.0085   15.8   0.1        6.3    6.4   0.0    3.0  2  AAA_15        AAA ATPase domain
     0.0086   15.3   1.0       0.44    9.7   0.0    2.8  2  NB-ARC        NB-ARC domain
  ------ inclusion threshold ------
       0.02   15.1   0.3        4.4    7.5   0.0    2.7  2  Roc           Ras of Complex, Roc, domain of DAPkinase
      0.021   14.6   2.3        3.6    7.3   0.6    3.4  2  ATP_bind_1    Conserved hypothetical ATP binding protein
      0.021   15.2   4.2        4.7    7.6   0.1    3.4  3  AAA_16        AAA ATPase domain
      0.024   13.3   5.3       0.48    9.0   0.0    3.4  4  AAA_13        AAA domain
      0.039   13.4   0.7        2.3    7.6   0.1    2.5  2  Arf           ADP-ribosylation factor family
      0.042   13.4   2.4        1.1    8.8   0.1    2.4  2  cobW          CobW/HypB/UreG, nucleotide-binding domain
      0.057   13.1   5.3        1.3    8.7   0.1    3.0  3  AAA_24        AAA domain
      0.067   13.0   0.0      0.067   13.0   0.0    2.0  2  HeLo          Prion-inhibition and propagation
      0.071   12.4   0.2       0.16   11.3   0.0    1.7  2  AAA_8         P-loop containing dynein motor region D4
       0.19   10.7   0.4          2    7.3   0.0    2.3  2  MeaB          Methylmalonyl Co-A mutase-associated GTPase Mea
       0.23   11.4   4.8        7.6    6.4   0.1    2.9  2  NACHT         NACHT domain
       0.27   11.4   4.7          6    7.1   0.0    3.4  2  AAA_28        AAA domain
       0.33   10.7   1.8        2.8    7.7   0.1    2.3  2  PduV-EutP     Ethanolamine utilisation - propanediol utilisat
        1.2    6.5   9.8       0.67    7.4   0.1    3.1  3  DUF3584       Protein of unknown function (DUF3584)
        1.7    8.2   0.0        1.7    8.2   0.0    2.7  2  AAA_27        AAA domain
        2.3    7.8   4.2         22    4.6   0.1    2.9  3  SRP54         SRP54-type protein, GTPase domain
        4.8    7.6   6.5         14    6.1   0.0    3.1  2  AAA_17        AAA domain
        5.2    6.7   7.7         12    5.6   0.5    2.8  2  AAA_30        AAA domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   90.1   0.0   3.5e-28   1.8e-25       1     137 []      26     197 ..      26     197 .. 0.82
   2 ?   -0.5   0.1       3.1   1.6e+03      64      93 ..     254     305 ..     208     320 .. 0.55
   3 !   88.5   0.0     1e-27   5.3e-25       2     137 .]     346     478 ..     345     478 .. 0.92

  Alignments for each domain:
  == domain 1  score: 90.1 bits;  conditional E-value: 3.5e-28
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH....... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren....... 79 
                              lk++ l+ + g k++++G nG+GKStLlk++ag  k+  Ge ++           s +  +g+l+q+pql+pe+tvre        
  PHY93_00520|PHY93_00520  26 LKDIRLSYYYGAKIGVLGLNGSGKSTLLKIMAGIDKDYLGETTI-----------SKNYTVGYLEQDPQLDPEKTVREIvqegaqq 100
                              799***********************************999844...........45789*********************99999 PP

                              ............................................HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHH CS
                              ............................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ............................................esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalar 121
                                                                          + d+++e a+++l+ +  +d+++      LSgG+k+rval+r
  PHY93_00520|PHY93_00520 101 vvdllaefdevnnkfgetlsdaemeklyarqsdlqdkldacnawDLDSRLELAMDSLNCPP-ADQKC----GVLSGGEKRRVALCR 181
                              9999999998888888887777777777666655555554444444444555555555444.44554....*************** PP

                              HHHHTSSEEEEESTTT CS
                              xxxxxxxxxxxxxxxx RF
                 ABC_tran 122 allkkpkllllDEpta 137
                              +ll++p++lllDEpt+
  PHY93_00520|PHY93_00520 182 LLLQEPDILLLDEPTN 197
                              ***************8 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 3.1
                              E-SS--S-TTSBHHHH......................HHHTCHHHHHHHST CS
                              xxxxxxxxxxxxxxxx......................xxxxxxxxxxxxxx RF
                 ABC_tran  64 lpqepqlfpeltvren......................esdeeiekalsklg 93 
                              l+q+++   + + +e+                      +s+++i+++ ++l+
  PHY93_00520|PHY93_00520 254 LEQKSNRLATEEKQESkrqkamkeelewirsapkarqaKSKARINDYEKRLQ 305
                              4444222222222222233322222444422222222344444444444444 PP

  == domain 3  score: 88.5 bits;  conditional E-value: 1e-27
                              EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH........ CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx........ RF
                 ABC_tran   2 knvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren........ 79 
                              + +++kl +g +v+++G+nGaGK+tL+++++g++kpt G+i++             + +++++ q+  l+pe+tv e         
  PHY93_00520|PHY93_00520 346 EGLNFKLPPGGIVGVIGPNGAGKTTLFRMISGKEKPTTGTIKIG-----------DSVKLAYVDQDRALDPEKTVIECisggldim 420
                              679**************************************554...........57899**************99999******* PP

                              ...HHHTCHHHHHHHSTTGG.TTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              ...xxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ...esdeeiekalsklglke.lkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                                  +++++ +++s+++ ++ +++++     +++SgG+k rv la++l ++ ++lllDEpt+
  PHY93_00520|PHY93_00520 421 klgGKEVNARAFISRFNFSGeDQNKR----IKEISGGEKNRVHLAAVLKEEGNVLLLDEPTN 478
                              **999999999***999988234444....5******************************8 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0     1e-05    0.0052       4      56 ..      41      87 ..      39     140 .. 0.71
   2 !   18.9   0.0     2e-06     0.001     237     303 .]     169     229 ..     166     229 .. 0.79
   3 !   17.5   0.1   5.7e-06    0.0029       2      21 ..     358     377 ..     357     418 .. 0.76
   4 !    8.7   0.0    0.0026       1.3     220     298 ..     433     505 ..     388     510 .. 0.71

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 1e-05
                   AAA_21  4 liGpNgsGKSnLLdaldllarldrdvegltdelsggggirkipslldlydpei 56
                             + G NgsGKS+LL+++ ++       ++   e + ++++++   ++d+  + +
  PHY93_00520|PHY93_00520 41 VLGLNGSGKSTLLKIMAGI------DKDYLGETTISKNYTVGYLEQDPQLDPE 87
                             789*************766......4444444444455555555555555555 PP

  == domain 2  score: 18.9 bits;  conditional E-value: 2e-06
                   AAA_21 237 lSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllell.kelsrngaQviltTHSpllld 303
                              lS G kr  al  +ll+ +   ++ll+DEp n+L+    ++++ +l + l++ ++ +i++TH+ ++ld
  PHY93_00520|PHY93_00520 169 LSGGEKRRVALCRLLLQEP---DILLLDEPTNHLDA---ETVW-WLeRHLKDYKGTIIAVTHDRYFLD 229
                              6888888877777777766...**************...7777.55355555888*******998876 PP

  == domain 3  score: 17.5 bits;  conditional E-value: 5.7e-06
                   AAA_21   2 nvliGpNgsGKSnLLdaldl 21 
                               ++iGpNg+GK++L++ +++
  PHY93_00520|PHY93_00520 358 VGVIGPNGAGKTTLFRMISG 377
                              689*************9953 PP

  == domain 4  score: 8.7 bits;  conditional E-value: 0.0026
                   AAA_21 220 gvvflengdgqelparelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQv.iltTHS 298
                               ++f+  g +q+  + e+S G k    l++ l +      +ll+DEp n L+   lr l e l e +     + ++ +H+
  PHY93_00520|PHY93_00520 433 ISRFNFSGEDQNKRIKEISGGEKNRVHLAAVLKEEG---NVLLLDEPTNDLDVNTLRALEEALMEYAG----CaVVISHD 505
                              667777777778888888888887767777777766...89************999999877755544....33555555 PP

>> ABC_tran_Xtn  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.8   5.8   4.5e-15   2.3e-12       1      77 [.     236     310 ..     236     318 .. 0.87
   2 ?    6.5   0.0     0.017       8.5       4      26 ..     520     542 ..     517     551 .. 0.86

  Alignments for each domain:
  == domain 1  score: 46.8 bits;  conditional E-value: 4.5e-15
             ABC_tran_Xtn   1 velengklteYkGnYseyleekeerleqqqkayekqqkeikkleefIerfrakakkakqaqsrekaLeklekiekpe 77 
                              +el++g+   Y+GnYs +le+k  rl++++k++ k+qk +k++ e+I+   +  +++++ ++r+   ek  +++ ++
  PHY93_00520|PHY93_00520 236 LELDRGQGIPYEGNYSGWLEQKSNRLATEEKQESKRQKAMKEELEWIRSAPK--ARQAKSKARINDYEKRLQVQSET 310
                              69***********************************************998..77777888888888887666663 PP

  == domain 2  score: 6.5 bits;  conditional E-value: 0.017
             ABC_tran_Xtn   4 engklteYkGnYseyleekeerl 26 
                              e+ ++  ++Gn+s+y e k++rl
  PHY93_00520|PHY93_00520 520 EGDQVVFFDGNFSDYEEDKKRRL 542
                              67778889************997 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.6   0.3   0.00026      0.13      28     202 ..      40     228 ..      18     235 .. 0.67
   2 !    7.3   0.2    0.0056       2.9      26      44 ..     357     375 ..     348     377 .. 0.84
   3 ?    6.2   0.0     0.012         6     130     202 ..     443     509 ..     391     523 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00026
                              EEEESTTSSHHHHHHHHHHHCTT.TTTTTTCHCCCCCC--...BTTCSSTTEEEEEEEEEETTEESSSSSSCEEEEEEEETTSEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N  28 aivGpNGSGKsnlldAilFvLGersakklrseklsdlihk...skekasvkkaeveitfdnedkklkiekeevsisrrvkrkgese 110
                               ++G NGSGKs ll  +    G ++   l ++++s+  +    +++ +   + +v  ++++  ++++    e+    +++ +  s+
  PHY93_00520|PHY93_00520  40 GVLGLNGSGKSTLLKIM---AGIDKD-YLGETTISKNYTVgylEQDPQLDPEKTVREIVQEGAQQVVDLLAEFDEVNNKFGETLSD 121
                              58899999999998876...444333.45554444322222222333333455666666666666555555655555556666667 PP

                              EEETTEEE-HHHHHHHHHCTT-STT.....................CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxx.....................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 111 ykingkevtkkevsellesagiske.....................lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDekn 175
                               ++++  ++++++++ l   +                         +LSgGek  val  l+     +   + llDe   +LD++ 
  PHY93_00520|PHY93_00520 122 AEMEKLYARQSDLQDKLDACNAWDLdsrlelamdslncppadqkcgVLSGGEKRRVALCRLL----LQEPDILLLDEPTNHLDAET 203
                              77777777777777777665432223568888888888899999999*****9877765442....445558899********999 PP

                              HHHHHHHHHHHCTTSEEEEE-SSHHHC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 176 vkkvaellkeksknaQfivislreeml 202
                              v  + + lk  +    +i +++++ +l
  PHY93_00520|PHY93_00520 204 VWWLERHLKDYK--GTIIAVTHDRYFL 228
                              999999999887..6677788777665 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.0056
                              EEEEEESTTSSHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxx RF
                    SMC_N  26 ftaivGpNGSGKsnlldAi 44 
                              +  ++GpNG+GK+ l+  i
  PHY93_00520|PHY93_00520 357 IVGVIGPNGAGKTTLFRMI 375
                              6679*********998665 PP

  == domain 3  score: 6.2 bits;  conditional E-value: 0.012
                              TT-STTCS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTTSEEEEE-SSHHHC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 130 agiskelLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkeksknaQfivislreeml 202
                              ++  ++++SgGek  v la ++     +   + llDe    LD +  +++ e l e       +vis+++ +l
  PHY93_00520|PHY93_00520 443 QNKRIKEISGGEKNRVHLAAVL----KEEGNVLLLDEPTNDLDVNTLRALEEALMEYA--GCAVVISHDRFFL 509
                              44456689******99998663....45566789*******************99998..5668888877665 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.9   0.1    0.0012       0.6      27      39 ..      41      53 ..      30      57 .. 0.88
   2 !   12.2   0.0   0.00023      0.12      13      39 ..     346     372 ..     343     375 .. 0.86

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.0012
                   AAA_29 27 ltGpsGsGKSTll 39
                             + G +GsGKSTll
  PHY93_00520|PHY93_00520 41 VLGLNGSGKSTLL 53
                             6899********8 PP

  == domain 2  score: 12.2 bits;  conditional E-value: 0.00023
                   AAA_29  13 dghtieidlkgatlltGpsGsGKSTll 39 
                              +g  +++ + g++ ++Gp+G+GK+Tl+
  PHY93_00520|PHY93_00520 346 EGLNFKLPPGGIVGVIGPNGAGKTTLF 372
                              56678888899999***********96 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.4   0.0   0.00035      0.18       1      70 [.      39     129 ..      39     164 .. 0.63
   2 !    8.0   0.1    0.0077         4       1      22 [.     358     379 ..     358     411 .. 0.80
   3 ?   -1.8   0.0       8.4   4.3e+03      25      54 ..     457     482 ..     426     526 .. 0.57

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.00035
                   AAA_18   1 IlltGtpGvGKttlakeLskrl.gfgvnlrdvakenglllevdpe....aldeskrldedkldklldaleenss............ 69 
                              I++ G  G+GK+tl k  +       +    ++++n+++ + +++      +  ++++++  ++++d+l e ++            
  PHY93_00520|PHY93_00520  39 IGVLGLNGSGKSTLLKIMAGIDkD--YLGETTISKNYTVGYLEQDpqldPEKTVREIVQEGAQQVVDLLAEFDEvnnkfgetlsda 122
                              899**************9554323..444444445554444444443555677888888888999999988877666666666666 PP

                   AAA_18  70 ......a 70 
                                    a
  PHY93_00520|PHY93_00520 123 emeklyA 129
                              5555553 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.0077
                   AAA_18   1 IlltGtpGvGKttlakeLskrl 22 
                              +++ G+ G+GKttl + +s ++
  PHY93_00520|PHY93_00520 358 VGVIGPNGAGKTTLFRMISGKE 379
                              6899**********99887664 PP

  == domain 3  score: -1.8 bits;  conditional E-value: 8.4
                   AAA_18  25 gvnlrdvakenglllevdpealdeskrlde 54 
                               v+l  v+ke+g +l  d++    ++ ld 
  PHY93_00520|PHY93_00520 457 RVHLAAVLKEEGNVLLLDEP----TNDLDV 482
                              34444455555555555555....333333 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.3   0.0    0.0023       1.2       1      33 [.      38      67 ..      38     125 .. 0.82
   2 !   10.9   0.1   0.00069      0.35       2      24 ..     358     380 ..     357     400 .. 0.84

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.0023
                             EEEEEESTTSSHHHHHHHHHTSTEEESSSTTSS CS
                 MMR_HSR1  1 evaivGrpNvGKStLinaltgekaivsdkpgtT 33
                             +++++G   +GKStL++ + g   i +d+ g T
  PHY93_00520|PHY93_00520 38 KIGVLGLNGSGKSTLLKIMAG---IDKDYLGET 67
                             699**************9987...334444433 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.00069
                              EEEEESTTSSHHHHHHHHHTSTE CS
                 MMR_HSR1   2 vaivGrpNvGKStLinaltgeka 24 
                              v+++G   +GK+tL++ ++g++ 
  PHY93_00520|PHY93_00520 358 VGVIGPNGAGKTTLFRMISGKEK 380
                              89*****************9843 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.1   0.0    0.0055       2.8       5      20 ..      42      57 ..      39     114 .. 0.72
   2 ?   -0.5   0.0       2.5   1.3e+03      40      70 ..     263     292 ..     181     314 .. 0.59
   3 !    9.0   0.0     0.003       1.5       3      21 ..     359     377 ..     357     478 .. 0.89

  Alignments for each domain:
  == domain 1  score: 8.1 bits;  conditional E-value: 0.0055
                   AAA_33  5 vGlpGsGKstlaerll 20
                              Gl+GsGKstl++ ++
  PHY93_00520|PHY93_00520 42 LGLNGSGKSTLLKIMA 57
                             6**********99765 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 2.5
                   AAA_33  40 tdqqsktdytrvldrlyqilnelarkalsag 70 
                              t+++++++++++ ++  +++ + a ka++a+
  PHY93_00520|PHY93_00520 263 TEEKQESKRQKAMKEELEWI-RSAPKARQAK 292
                              34444445555556666666.5555555554 PP

  == domain 3  score: 9.0 bits;  conditional E-value: 0.003
                   AAA_33   3 llvGlpGsGKstlaerllk 21 
                               ++G++G+GK+tl + +  
  PHY93_00520|PHY93_00520 359 GVIGPNGAGKTTLFRMISG 377
                              589**********987655 PP

>> Dynamin_N  Dynamin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.6   0.0   0.00041      0.21       1      80 [.      39     123 ..      39     223 .. 0.76
   2 ?    0.1   0.2       1.4   7.3e+02      49      88 ..     263     302 ..     235     330 .. 0.68
   3 ?    5.0   0.0     0.043        22       1      39 [.     358     395 ..     358     476 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00041
                              EEEEEBTTTTHHHHHHHHHTS--S---SSS---S-EEEEECCT---C.CS...SSEEEE....T-EB--CHHHHHHHHHHHHHHH CS
                Dynamin_N   1 iavvGsqSsGKSSvlnaLlgedilprgpnptTrrplelqlgeeeeas.eravkeelkek....ekkledfsevreeieketekia 80 
                              i v+G   sGKS++l  + g d    g++ ++ + ++  l+++++   e++v+e ++e+     + l +f+ev++++ +  + ++
  PHY93_00520|PHY93_00520  39 IGVLGLNGSGKSTLLKIMAGIDKDYLGETTISKNYTVGYLEQDPQLDpEKTVREIVQEGaqqvVDLLAEFDEVNNKFGETLSDAE 123
                              789999**********************************999998854444444555565677777777777777665554444 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 1.4
                              S...SSEEEET-EB--CHHHHHHHHHHHHHHHTSSSS--S CS
                Dynamin_N  49 ravkeelkekekkledfsevreeieketekiagankgisk 88 
                              +++k+e k +++  e+++ +r + +++++k++ + ++  k
  PHY93_00520|PHY93_00520 263 TEEKQESKRQKAMKEELEWIRSAPKARQAKSKARINDYEK 302
                              3444555555777777777777777777776655544433 PP

  == domain 3  score: 5.0 bits;  conditional E-value: 0.043
                              EEEEEBTTTTHHHHHHHHHTS--S---SSS---S-EEEE CS
                Dynamin_N   1 iavvGsqSsGKSSvlnaLlgedilprgpnptTrrplelq 39 
                              + v+G   +GK+++   + g++  p+  ++     ++l 
  PHY93_00520|PHY93_00520 358 VGVIGPNGAGKTTLFRMISGKE-KPTTGTIKIGDSVKLA 395
                              68*******************9.5555544444445555 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   0.1     0.026        14     102     128 ..      39      65 ..       7      76 .. 0.72
   2 !   10.9   0.0   0.00061      0.31     100     131 ..     356     387 ..     329     391 .. 0.85

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.026
                              EEEECSTTSSHHHHHHHHCTT-----S CS
              RsgA_GTPase 102 svlvGqSGvGKStLinallpelelktg 128
                              + ++G  G GKStL++ +++ ++   g
  PHY93_00520|PHY93_00520  39 IGVLGLNGSGKSTLLKIMAGIDKDYLG 65 
                              456899**********99985554444 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.00061
                              SEEEEECSTTSSHHHHHHHHCTT-----S--- CS
              RsgA_GTPase 100 ktsvlvGqSGvGKStLinallpelelktgevs 131
                               ++ ++G+ G+GK+tL  ++ ++++  tg ++
  PHY93_00520|PHY93_00520 356 GIVGVIGPNGAGKTTLFRMISGKEKPTTGTIK 387
                              677799*****************999999886 PP

>> DLIC  Dynein light intermediate chain (DLIC)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   0.0     0.042        22      27      54 ..      38      65 ..      32      94 .. 0.88
   2 !   11.1   0.0   0.00025      0.13      21      55 ..     351     385 ..     348     412 .. 0.85

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.042
                     DLIC 27 svlvlGedgsGkttliaklqGveeekkG 54
                             ++ vlG +gsGk+tl+  + G+++   G
  PHY93_00520|PHY93_00520 38 KIGVLGLNGSGKSTLLKIMAGIDKDYLG 65
                             5779******************987665 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 0.00025
                     DLIC  21 klPsgksvlvlGedgsGkttliaklqGveeekkGr 55 
                              klP g  v v+G +g+Gkttl   + G e++  G 
  PHY93_00520|PHY93_00520 351 KLPPGGIVGVIGPNGAGKTTLFRMISGKEKPTTGT 385
                              9****************************987764 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.4   1.4     0.011       5.6      25      39 ..      42      56 ..      39     143 .. 0.81
   2 ?   -2.1   7.4         9   4.6e+03     120     174 ..     262     316 ..     202     334 .. 0.59
   3 !   18.3   1.2   5.1e-06    0.0026      11      39 ..     346     375 ..     342     496 .. 0.86

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.011
                   AAA_23 25 tGpNGaGKTTildAi 39
                              G NG+GK+T+l  +
  PHY93_00520|PHY93_00520 42 LGLNGSGKSTLLKIM 56
                             699********9765 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 9
                   AAA_23 120 fisellgskkiilnlilflgqer....feefel.kdkkerleelekeleeledekkllek 174
                               ++e     k+++++   +++e      +++++ ++ k r++++ek l+ +++++++ ++
  PHY93_00520|PHY93_00520 262 ATEE-----KQESKRQKAMKEELewirSAPKARqAKSKARINDYEKRLQVQSETRNETNE 316
                              2222.....221211111111111222111111144444777777777777666666555 PP

  == domain 3  score: 18.3 bits;  conditional E-value: 5.1e-06
                   AAA_23  11 rdqeidF.skgltlItGpNGaGKTTildAi 39 
                              ++ ++ +   g++ ++GpNGaGKTT+++ i
  PHY93_00520|PHY93_00520 346 EGLNFKLpPGGIVGVIGPNGAGKTTLFRMI 375
                              55556664449****************987 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   0.0     0.033        17       3      90 ..      41     128 ..      39     147 .. 0.62
   2 !    9.3   0.3    0.0028       1.5       3      29 ..     360     386 ..     358     475 .. 0.79

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.033
                              EESSTTSSHHHHHHHHHHHHTHEEEEEETTTCSSS......STTHHHHHHHHHHHHHHHTSTSEEEEEETGGGHHHHHTTCCCHHH CS
                      AAA   3 lyGppGtGKTllakavakelgvefleisgsellsk......yvgesekkirelfkeakekakpsilfiDEidalaksrsgseseee 82 
                              + G  G GK++l k +a   + ++ e+  s+           + + ek +re+++e  +   +++ ++ E+d+++++     ++ +
  PHY93_00520|PHY93_00520  41 VLGLNGSGKSTLLKIMAGIDKDYLGETTISKNYTVgyleqdPQLDPEKTVREIVQEGAQ---QVVDLLAEFDEVNNKF---GETLS 120
                              57999************995544433333333321222222677778888888877433...3677888888886665...33344 PP

                              HHHHHHHH CS
                      AAA  83 ervvnqLl 90 
                              +  +++L+
  PHY93_00520|PHY93_00520 121 DAEMEKLY 128
                              44444444 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.0028
                              EESSTTSSHHHHHHHHHHHHTHEEEEE CS
                      AAA   3 lyGppGtGKTllakavakelgveflei 29 
                              ++Gp G GKT+l + +  + + +  +i
  PHY93_00520|PHY93_00520 360 VIGPNGAGKTTLFRMISGKEKPTTGTI 386
                              79*************998855444444 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.4   0.0     0.084        43      10      26 ..      41      57 ..      35     137 .. 0.82
   2 !   10.5   0.4    0.0011      0.55       6      29 ..     356     379 ..     354     502 .. 0.86

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.084
                   AAA_22 10 vtGesGtGKTtllrrll 26
                             v G  G+GK+tll+ ++
  PHY93_00520|PHY93_00520 41 VLGLNGSGKSTLLKIMA 57
                             66999*******99765 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 0.0011
                   AAA_22   6 gilvvtGesGtGKTtllrrlleql 29 
                              gi+ v+G+ G+GKTtl r++  + 
  PHY93_00520|PHY93_00520 356 GIVGVIGPNGAGKTTLFRMISGKE 379
                              67789************9987664 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   0.0     0.029        15       6      74 ..      40     112 ..      36     135 .. 0.60
   2 ?    6.9   0.0     0.011       5.9       4      27 ..     357     380 ..     355     417 .. 0.71
   3 ?    1.1   0.0      0.73   3.8e+02      34      76 ..     434     479 ..     418     527 .. 0.68

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.029
                   AAA_14   6 vitGaRrvGKTtllkqli..kell....vkkesilyinldderdkkladpe.kllelileklkeekktylflDEiq 74 
                               + G+  +GK+tllk ++  ++ +    + ++++    l+++++ +   pe ++ e+++e +++  + +  +DE+ 
  PHY93_00520|PHY93_00520  40 GVLGLNGSGKSTLLKIMAgiDKDYlgetTISKNYTVGYLEQDPQLD---PEkTVREIVQEGAQQVVDLLAEFDEVN 112
                              688999********98851133335665333444444444443332...321233444443444344556666665 PP

  == domain 2  score: 6.9 bits;  conditional E-value: 0.011
                   AAA_14   4 ilvitGaRrvGKTtllkqlikell 27 
                              i+ + G+  +GKTtl + +  ++ 
  PHY93_00520|PHY93_00520 357 IVGVIGPNGAGKTTLFRMISGKEK 380
                              899************888766665 PP

  == domain 3  score: 1.1 bits;  conditional E-value: 0.73
                   AAA_14  34 lyinldderdkkladpe....kllelileklkeekktylflDEiqev 76 
                                +n+  e++ k+ + e    + +++ l+ + +e+ ++l+lDE  + 
  PHY93_00520|PHY93_00520 434 SRFNFSGEDQNKRIK-EisggEKNRVHLAAVLKEEGNVLLLDEPTND 479
                              456666655533222.1234444556666644458999*****7765 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.4   0.0     0.012       6.3      29      43 ..      42      56 ..      26     321 .. 0.65
   2 ?    6.3   0.1     0.013       6.8      28      43 ..     360     375 ..     348     451 .. 0.87

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.012
                   AAA_15 29 iGkNnsGKSsileal 43
                              G N+sGKS++l+++
  PHY93_00520|PHY93_00520 42 LGLNGSGKSTLLKIM 56
                             589*********998 PP

  == domain 2  score: 6.3 bits;  conditional E-value: 0.013
                   AAA_15  28 liGkNnsGKSsileal 43 
                              +iG+N++GK+++ +++
  PHY93_00520|PHY93_00520 360 VIGPNGAGKTTLFRMI 375
                              7***********9998 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.4   0.1      0.07        36      23      38 ..      39      54 ..      22      65 .. 0.89
   2 !    9.7   0.0   0.00087      0.44      22      47 ..     357     382 ..     345     478 .. 0.90

  Alignments for each domain:
  == domain 1  score: 3.4 bits;  conditional E-value: 0.07
                             EEEEESTTSSHHHHHH CS
                   NB-ARC 23 valvGmgGvGKttlak 38
                             +++ G  G+GK+tl+k
  PHY93_00520|PHY93_00520 39 IGVLGLNGSGKSTLLK 54
                             7999**********86 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.00087
                              EEEEEESTTSSHHHHHHHHCCSHCCC CS
                   NB-ARC  22 vvalvGmgGvGKttlakqilnksdev 47 
                              +v++ G  G GKttl++ i  k + +
  PHY93_00520|PHY93_00520 357 IVGVIGPNGAGKTTLFRMISGKEKPT 382
                              89***************998876555 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.0     0.064        33       1      35 [.      38      72 ..      38      94 .. 0.75
   2 ?    7.5   0.0    0.0086       4.4       4      39 ..     360     395 ..     358     413 .. 0.76

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.064
                             EEEEESSTTSSHHHHHHCHCT-CCC-EEETTTTEE CS
                      Roc  1 KvvlvGdsgvGKtsllkrfvedkfsekekstigvd 35
                             K+ ++G +g+GK++llk +   + +   ++ti+ +
  PHY93_00520|PHY93_00520 38 KIGVLGLNGSGKSTLLKIMAGIDKDYLGETTISKN 72
                             8999************9777655555555555555 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0086
                              EESSTTSSHHHHHHCHCT-CCC-EEETTTTEEEEEE CS
                      Roc   4 lvGdsgvGKtsllkrfvedkfsekekstigvdfltk 39 
                              ++G +g+GKt+l++ +  ++  ++ +  ig +++  
  PHY93_00520|PHY93_00520 360 VIGPNGAGKTTLFRMISGKEKPTTGTIKIGDSVKLA 395
                              89***********99888877777777777776554 PP

>> ATP_bind_1  Conserved hypothetical ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   0.0     0.058        30       1      17 [.      41      57 ..      41      65 .. 0.87
   2 ?    7.3   0.6     0.007       3.6       1      73 [.     360     414 ..     360     514 .. 0.78

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.058
               ATP_bind_1  1 vvGpaGsGKttfvgals 17
                             v+G  GsGK+t+ + ++
  PHY93_00520|PHY93_00520 41 VLGLNGSGKSTLLKIMA 57
                             89**********98775 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.007
               ATP_bind_1   1 vvGpaGsGKttfvgalseilelrgrsvavvNLDPAaeelpYeaavdirelitledvmedlglgpngalvvale 73 
                              v+Gp G+GKtt+ + +s   + +                    ++ i + ++l+ v++d  l p ++++ ++ 
  PHY93_00520|PHY93_00520 360 VIGPNGAGKTTLFRMISGKEKPT------------------TGTIKIGDSVKLAYVDQDRALDPEKTVIECIS 414
                              89**********99888655544..................44666777777777777777777777777765 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   0.1     0.031        16      29      51 ..      41      62 ..      37     194 .. 0.68
   2 ?    0.9   0.0      0.99   5.1e+02      57     122 ..     232     300 ..     206     319 .. 0.62
   3 ?    7.6   0.1    0.0093       4.7      25      44 ..     356     375 ..     349     387 .. 0.87

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.031
                   AAA_16 29 lsGesGvGKsslvrellralekd 51
                             + G  G+GKs+l++  +  + kd
  PHY93_00520|PHY93_00520 41 VLGLNGSGKSTLLKIMA-GIDKD 62
                             7899*********6655.67777 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.99
                   AAA_16  57 rgkcdql..esaipy....salaqalareellrqlldeaesaeleawrekleealaavpelagaea.srllel 122
                              +g+  +l  +++ipy    s ++++ ++ +l +++++e   ++++ + ++ +e+++++p+++ a++  r+++ 
  PHY93_00520|PHY93_00520 232 AGWILELdrGQGIPYegnySGWLEQKSN-RLATEEKQE---SKRQKAMKEELEWIRSAPKARQAKSkARINDY 300
                              5555555445668995554556666633.555555555...66677777777777777777777776555554 PP

  == domain 3  score: 7.6 bits;  conditional E-value: 0.0093
                   AAA_16  25 elvllsGesGvGKsslvrel 44 
                              ++v ++G+ G GK++l r++
  PHY93_00520|PHY93_00520 356 GIVGVIGPNGAGKTTLFRMI 375
                              6889************9876 PP

>> AAA_13  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6   0.0      0.02        10      23      41 ..      43      61 ..      40     142 .. 0.89
   2 ?   -1.5   0.9       1.4     7e+02     563     597 ..     217     257 ..     163     301 .. 0.50
   3 ?   -3.0   2.8         4     2e+03     414     456 ..     265     307 ..     251     322 .. 0.41
   4 ?    9.0   0.0   0.00093      0.48      23      44 ..     362     383 ..     359     469 .. 0.78

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.02
                   AAA_13 23 GwNGaGKTtLSrllrslel 41
                             G NG+GK+tL ++++ + +
  PHY93_00520|PHY93_00520 43 GLNGSGKSTLLKIMAGIDK 61
                             99********999998765 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 1.4
                   AAA_13 563 QlfiLTHnleffkevkkntkr......krkkkeesfyllkk 597
                               ++  TH  +f+  v  ++ +        ++ + s +l +k
  PHY93_00520|PHY93_00520 217 TIIAVTHDRYFLDSVAGWILEldrgqgIPYEGNYSGWLEQK 257
                              45556666666666666655433232211222233333222 PP

  == domain 3  score: -3.0 bits;  conditional E-value: 4
                   AAA_13 414 ykkkykklekaieklekelkeeeaelkkleeeikeLekqlrde 456
                               k++ k+ ++  e+le   ++ +a+++k +++i++ ek+l+ +
  PHY93_00520|PHY93_00520 265 EKQESKRQKAMKEELEWIRSAPKARQAKSKARINDYEKRLQVQ 307
                              2222222233333333333333333333333444444433333 PP

  == domain 4  score: 9.0 bits;  conditional E-value: 0.00093
                   AAA_13  23 GwNGaGKTtLSrllrslelget 44 
                              G NGaGKTtL r+++  e+  t
  PHY93_00520|PHY93_00520 362 GPNGAGKTTLFRMISGKEKPTT 383
                              99************99765443 PP

>> Arf  ADP-ribosylation factor family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.6   0.1    0.0045       2.3      15      35 ..      37      57 ..      23      78 .. 0.83
   2 ?    3.6   0.1     0.079        40      19      41 ..     360     382 ..     357     396 .. 0.80

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.0045
                             EEEEEEESTTSSHHHHHHHHH CS
                      Arf 15 lrilllGLDnaGKtTilkklk 35
                             ++i +lGL ++GK+T+lk + 
  PHY93_00520|PHY93_00520 37 AKIGVLGLNGSGKSTLLKIMA 57
                             7899*************9765 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.079
                              EEESTTSSHHHHHHHHHHSSCEE CS
                      Arf  19 llGLDnaGKtTilkklkleelvt 41 
                              ++G  +aGKtT+  +++ +e  t
  PHY93_00520|PHY93_00520 360 VIGPNGAGKTTLFRMISGKEKPT 382
                              578899*******9998877544 PP

>> cobW  CobW/HypB/UreG, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   0.3     0.056        29       4      20 ..      40      56 ..      37      68 .. 0.83
   2 ?    8.8   0.1    0.0022       1.1       3      27 ..     358     382 ..     356     417 .. 0.68

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.056
                             EEEESTTCCHHHHHHHH CS
                     cobW  4 vltGflGsGKTtLlnhl 20
                             ++ G  GsGK+tLl+ +
  PHY93_00520|PHY93_00520 40 GVLGLNGSGKSTLLKIM 56
                             678999********865 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.0022
                              EEEEESTTCCHHHHHHHHHCT--SS CS
                     cobW   3 tvltGflGsGKTtLlnhllenragl 27 
                              +++ G+ G+GKTtL + +  +++  
  PHY93_00520|PHY93_00520 358 VGVIGPNGAGKTTLFRMISGKEKPT 382
                              6789***********9988554444 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.4   0.4     0.027        14       3      22 ..      37      56 ..      35      77 .. 0.88
   2 ?   -1.4   0.0       3.1   1.6e+03     110     130 ..     203     223 ..     198     226 .. 0.76
   3 ?    8.7   0.1    0.0025       1.3       5      31 ..     358     388 ..     356     418 .. 0.76

  Alignments for each domain:
  == domain 1  score: 5.4 bits;  conditional E-value: 0.027
                   AAA_24  3 lkiliyGpsgiGKTtlakel 22
                             +ki + G +g+GK+tl+k +
  PHY93_00520|PHY93_00520 37 AKIGVLGLNGSGKSTLLKIM 56
                             799*************9987 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 3.1
                   AAA_24 110 efrrllkklqelrknvifiah 130
                               ++ l ++l+++++++i++ h
  PHY93_00520|PHY93_00520 203 TVWWLERHLKDYKGTIIAVTH 223
                              44555567**********999 PP

  == domain 3  score: 8.7 bits;  conditional E-value: 0.0025
                   AAA_24   5 iliyGpsgiGKTtlakel....gpkplfidt 31 
                              + ++Gp+g+GKTtl +++    +p++  i +
  PHY93_00520|PHY93_00520 358 VGVIGPNGAGKTTLFRMIsgkeKPTTGTIKI 388
                              5699***********9998866555555555 PP

>> HeLo  Prion-inhibition and propagation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   0.00013     0.067      54     108 ..      75     134 ..      34     158 .. 0.78
   2 ?   -1.9   1.3       4.8   2.4e+03     110     139 ..     265     290 ..     248     316 .. 0.49

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 0.00013
                              HTTT...-SHH.......HHHHHHHHHHHHHHHHHHHHHHHHHHHH--CGG........... CS
                     HeLo  54 vgllspdsdkrlddestrralvleileqiealleefeklqeryglklekqdass.......s 108
                              vg l  ++d++ld e+t r+ v+e  +q+ +ll ef+++++++g  l++++ ++       +
  PHY93_00520|PHY93_00520  75 VGYL--EQDPQLDPEKTVREIVQEGAQQVVDLLAEFDEVNNKFGETLSDAEMEKlyarqsdL 134
                              4554..48999**8888888***************************988766555533332 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 4.8
                              ..G-B--GGGS-HHHHHHH.HHHHHHHHHS CS
                     HeLo 110 lalssereksfraefellkrlmrkaakkrq 139
                              ++ +s+r+k++++e+e ++     a k+rq
  PHY93_00520|PHY93_00520 265 EKQESKRQKAMKEELEWIRS----APKARQ 290
                              23333344444444444442....112222 PP

>> AAA_8  P-loop containing dynein motor region D4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00032      0.16      26      70 ..      38      82 ..      20     135 .. 0.73
   2 ?   -2.9   0.1       6.3   3.3e+03      29      43 ..     360     374 ..     354     385 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00032
                    AAA_8 26 haLlvGvgGsGrqsltkLAafiaelelfqievtkkykekefredl 70
                             ++ ++G++GsG+ +l k+ a i +  l + +++k+y++   ++d 
  PHY93_00520|PHY93_00520 38 KIGVLGLNGSGKSTLLKIMAGIDKDYLGETTISKNYTVGYLEQDP 82
                             55578*******************************998877764 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 6.3
                    AAA_8  29 lvGvgGsGrqsltkL 43 
                              ++G +G G+ +l ++
  PHY93_00520|PHY93_00520 360 VIGPNGAGKTTLFRM 374
                              69********99987 PP

>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3   0.0     0.004         2      15      48 ..      22      55 ..       7      66 .. 0.82
   2 ?    0.6   0.2      0.44   2.3e+02      31      48 ..     357     374 ..     349     399 .. 0.88

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.004
                             HHHHHHHHGGG-S-SEEEEEEE-TTSSHHHHHHH CS
                     MeaB 15 akellerllakaGraqvvGltGvPGaGkstlvea 48
                              k++l+ ++ +     ++G+ G+ G+Gkstl++ 
  PHY93_00520|PHY93_00520 22 QKHVLKDIRLSYYYGAKIGVLGLNGSGKSTLLKI 55
                             56677777777777889*************9875 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.44
                              EEEEEE-TTSSHHHHHHH CS
                     MeaB  31 vvGltGvPGaGkstlvea 48 
                               vG+ G  GaGk tl   
  PHY93_00520|PHY93_00520 357 IVGVIGPNGAGKTTLFRM 374
                              69************9765 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   1.1     0.039        20       5      22 ..      41      57 ..      38     132 .. 0.89
   2 ?    6.4   0.1     0.015       7.6       4      20 ..     359     375 ..     357     383 .. 0.86

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.039
                             EEC-TTTCHHHHHHHHHH CS
                    NACHT  5 lqGeaGsGKTtLlqklal 22
                             + G +GsGK+tLl+ ++ 
  PHY93_00520|PHY93_00520 41 VLGLNGSGKSTLLK-IMA 57
                             7899********96.444 PP

  == domain 2  score: 6.4 bits;  conditional E-value: 0.015
                              EEEC-TTTCHHHHHHHH CS
                    NACHT   4 ilqGeaGsGKTtLlqkl 20 
                               + G++G GKTtL + +
  PHY93_00520|PHY93_00520 359 GVIGPNGAGKTTLFRMI 375
                              589**********9987 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.0   0.1     0.051        26       2      36 ..      39      79 ..      38     134 .. 0.75
   2 ?    7.1   0.0     0.012         6       4      21 ..     360     377 ..     357     404 .. 0.82

  Alignments for each domain:
  == domain 1  score: 5.0 bits;  conditional E-value: 0.051
                   AAA_28  2 ivitGgestGKTtlleaLa...ar..gypvv.pEaareile 36
                             i ++G  ++GK+tll+ +a   ++  g +++ + +   +le
  PHY93_00520|PHY93_00520 39 IGVLGLNGSGKSTLLKIMAgidKDylGETTIsKNYTVGYLE 79
                             6678999*********9996642245444443555555554 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.012
                   AAA_28   4 itGgestGKTtlleaLaa 21 
                              ++G+ ++GKTtl + ++ 
  PHY93_00520|PHY93_00520 360 VIGPNGAGKTTLFRMISG 377
                              89**********998884 PP

>> PduV-EutP  Ethanolamine utilisation - propanediol utilisation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   0.2      0.34   1.8e+02       3      27 ..      38      62 ..      36      74 .. 0.82
   2 ?    7.7   0.1    0.0054       2.8       6      25 ..     360     379 ..     356     391 .. 0.88

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.34
                PduV-EutP  3 killiGkvgsGKttLtqalkgeelk 27
                             ki ++G  gsGK tL + + g +  
  PHY93_00520|PHY93_00520 38 KIGVLGLNGSGKSTLLKIMAGIDKD 62
                             67799**********9998876555 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.0054
                PduV-EutP   6 liGkvgsGKttLtqalkgee 25 
                              +iG+ g+GKttL + ++g+e
  PHY93_00520|PHY93_00520 360 VIGPNGAGKTTLFRMISGKE 379
                              89**************9986 PP

>> DUF3584  Protein of unknown function (DUF3584)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.3      0.25   1.3e+02      22      36 ..      41      55 ..      37      56 .. 0.87
   2 ?    2.7   1.3     0.033        17     253     449 ..     257     307 ..     222     318 .. 0.38
   3 ?    7.4   0.1    0.0013      0.67      16      37 ..     354     375 ..     346     376 .. 0.86

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.25
                  DUF3584 22 ieGtNaaGKTtLlrL 36
                             + G N++GK tLl++
  PHY93_00520|PHY93_00520 41 VLGLNGSGKSTLLKI 55
                             67**********986 PP

  == domain 2  score: 2.7 bits;  conditional E-value: 0.033
                  DUF3584 253 efeqleslelrLsllkgelkadeerlaekqeevqeakaelkqqlrtledelkeaidelnqelsaakaklaakeselealeeqkkky 338
                              +++ l++ e++ s                                                                         
  PHY93_00520|PHY93_00520 257 KSNRLATEEKQESKR----------------------------------------------------------------------- 271
                              111222222222222....................................................................... PP

                  DUF3584 339 edadieklkadldqlpsirseleeleeeldaltekhqdvqekydrrkqkikeeleeeleklkerleaireekdrlkaaieealeal 424
                                                                                                         ++a++e+le +
  PHY93_00520|PHY93_00520 272 ---------------------------------------------------------------------------QKAMKEELEWI 282
                              ...........................................................................22223333333 PP

                  DUF3584 425 esqlrkqleaqkeelneeekelesr 449
                              +s+ ++++ + k+++n+ ek+l+ +
  PHY93_00520|PHY93_00520 283 RSAPKARQAKSKARINDYEKRLQVQ 307
                              3333333333333333333322222 PP

  == domain 3  score: 7.4 bits;  conditional E-value: 0.0013
                  DUF3584  16 ldghtnieGtNaaGKTtLlrLi 37 
                              + g + + G N+aGKTtL r+i
  PHY93_00520|PHY93_00520 354 PGGIVGVIGPNGAGKTTLFRMI 375
                              56778899************98 PP

>> AAA_27  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.1      0.51   2.6e+02      31      44 ..      41      54 ..      37      59 .. 0.88
   2 ?    8.2   0.0    0.0033       1.7      18      46 ..     347     375 ..     337     377 .. 0.79

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 0.51
                   AAA_27 31 iyGpNEAGKstalr 44
                             ++G N +GKst+l+
  PHY93_00520|PHY93_00520 41 VLGLNGSGKSTLLK 54
                             79*********997 PP

  == domain 2  score: 8.2 bits;  conditional E-value: 0.0033
                   AAA_27  18 sldfsaeeadlhliyGpNEAGKstalrAi 46 
                               l+f+    ++  ++GpN AGK+t++r i
  PHY93_00520|PHY93_00520 347 GLNFKLPPGGIVGVIGPNGAGKTTLFRMI 375
                              56777777888889***********9876 PP

>> SRP54  SRP54-type protein, GTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.3   0.3       0.1        53       6      23 ..      41      58 ..      37      69 .. 0.82
   2 ?   -1.5   0.0       3.3   1.7e+03      52      87 ..      70     105 ..      66     106 .. 0.86
   3 ?    4.6   0.1     0.042        22       6      18 ..     360     372 ..     356     403 .. 0.79

  Alignments for each domain:
  == domain 1  score: 3.3 bits;  conditional E-value: 0.1
                             EEESTTSSHHHHHHHHHH CS
                    SRP54  6 lvGlqGaGKTttlaKLaa 23
                             ++Gl+G+GK t l  +a 
  PHY93_00520|PHY93_00520 41 VLGLNGSGKSTLLKIMAG 58
                             79*********9987775 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 3.3
                              HHHTTEEEEESSTTSCHHHHHHHHHHHHHHTTSSEE CS
                    SRP54  52 aeklgvpvikkkeeadpaavakeavekakeekidvv 87 
                               +++ v +++++ + dp ++++e v++  ++ +d++
  PHY93_00520|PHY93_00520  70 SKNYTVGYLEQDPQLDPEKTVREIVQEGAQQVVDLL 105
                              567788899999999************999999975 PP

  == domain 3  score: 4.6 bits;  conditional E-value: 0.042
                              EEESTTSSHHHHH CS
                    SRP54   6 lvGlqGaGKTttl 18 
                              ++G++GaGKTt  
  PHY93_00520|PHY93_00520 360 VIGPNGAGKTTLF 372
                              79*********86 PP

>> AAA_17  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.1   0.0     0.028        14       1      17 [.      42      57 ..      42      73 .. 0.80
   2 ?    4.1   0.1      0.11        58       1      18 [.     361     378 ..     361     427 .. 0.81

  Alignments for each domain:
  == domain 1  score: 6.1 bits;  conditional E-value: 0.028
                             EE-TTSSHHHHHHHHHH CS
                   AAA_17  1 lGgPGsGKgtqceklve 17
                             lG+ GsGK+t++ k++ 
  PHY93_00520|PHY93_00520 42 LGLNGSGKSTLL-KIMA 57
                             79**********.5544 PP

  == domain 2  score: 4.1 bits;  conditional E-value: 0.11
                              EE-TTSSHHHHHHHHHHH CS
                   AAA_17   1 lGgPGsGKgtqceklvek 18 
                              +G+ G+GK+t+ + +  k
  PHY93_00520|PHY93_00520 361 IGPNGAGKTTLFRMISGK 378
                              599********9888643 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.0   0.0     0.035        18      23      46 ..      41      65 ..      21      75 .. 0.81
   2 ?    5.6   0.5     0.023        12      20      38 ..     357     375 ..     353     388 .. 0.85

  Alignments for each domain:
  == domain 1  score: 5.0 bits;  conditional E-value: 0.035
                   AAA_30 23 ltGpAGtGKttalkalreaweaa.g 46
                             + G  G+GK+t+lk ++ + ++  g
  PHY93_00520|PHY93_00520 41 VLGLNGSGKSTLLKIMAGIDKDYlG 65
                             67999*********99988877655 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.023
                   AAA_30  20 vavltGpAGtGKttalkal 38 
                              ++ + Gp G+GKtt+ + +
  PHY93_00520|PHY93_00520 357 IVGVIGPNGAGKTTLFRMI 375
                              56789**********9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (558 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1173  (0.0654247); expected 358.6 (0.02)
Passed bias filter:                      689  (0.0384294); expected 358.6 (0.02)
Passed Vit filter:                       105  (0.00585643); expected 17.9 (0.001)
Passed Fwd filter:                        36  (0.00200792); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              35  [number of targets reported over threshold]
# CPU time: 0.75u 0.26s 00:00:01.01 Elapsed: 00:00:00.38
# Mc/sec: 4359.39
//
Query:       PHY93_00525|PHY93_00525  [L=383]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
      3e-40  138.3   0.0    4.5e-40  137.7   0.0    1.3  1  AA_kinase  Amino acid kinase family
  ------ inclusion threshold ------
       0.17   11.9   0.0       0.32   11.0   0.0    1.4  1  Cdc6_C     CDC6, C terminal winged helix domain


Domain annotation for each model (and alignments):
>> AA_kinase  Amino acid kinase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  137.7   0.0   5.1e-44   4.5e-40       1     240 [.       4     286 ..       4     287 .. 0.84

  Alignments for each domain:
  == domain 1  score: 137.7 bits;  conditional E-value: 5.1e-44
                              TEEEEEE-TTCCCCTCCHHHHHHHHHHHHHHHHTTEEEEEE--HHHHHHHHHHTCCCCCHHHC.........E..HHHHHHHHH.. CS
                AA_kinase   1 krvVvKlGGssltdkeeaslrrlaeqiaalkesgnklvvVhGggsftdgllalksglssgelaa.....glrstleeagevatr.. 79 
                              k+vV K+GGss++d+ +  + r+ ++i++     +k+vv+++  ++t++l  +++  + g +++     +             +  
  PHY93_00525|PHY93_00525   4 KWVVSKFGGSSVKDAAA--MLRCSQIIENN--PLIKIVVISATQNTTNQLEFIARAAQMGDENTmnnvtT-------------Eli 72 
                              789************99..***99999999..77997777777888888877744444444443222230.............222 PP

                              .............................................HHHHHHHHHHHHHHHHTTH..GEEEE-GGGTCEECCCE... CS
                AA_kinase  80 .............................................dalaslgerlvaallaagl..pavglsaaaldateagr... 115
                                                                           d+l slger+++ l++ +l  +   l+ + ++  +a+    
  PHY93_00525|PHY93_00525  73 nkhvkiatelftspvvltelealcgelkalgltileersftpkmmDELYSLGERMSSLLMSDLLrlR---LPNKNINFLDARHiik 155
                              22333345577778888889999999999999999999999999*******************9652...4444444443333444 PP

                              .........HHHTTTCEEECCHHHHHHHTT-EEEEESEEEEETTTE...EEEE-HHHHHHHHHHHCTSSEEEEEESSSSCESSTTT CS
                AA_kinase 116 .......degsdgnvesvdaeaieelleagvvpvltgfigldeege...lgrgssDtiaallAealgAdkliiltdVdGVydadpk 191
                                      e++++ + ++ +++i  +l+++ + v++gfig+d  g    lgr +sD++aal++e ++A  ++i+tdV+GV ++dp+
  PHY93_00525|PHY93_00525 156 tnsefqrAEPQVDLILKNAKSEIYPYLNEDTIFVTQGFIGADLLGNtttLGREGSDYSAALFGEVINASLVEIWTDVSGVASSDPR 241
                              77888999999999************************************************************************ PP

                              TCCTTCECCEEEHHHCHHCSSS.TTTHHHHCHHHHHHHHHCTT-EEEEE CS
                AA_kinase 192 kvpdarllpeisvdeaeesaselatgGmkvkhpaalaaarrggipvvIt 240
                              +vpd + ++e+s+dea +    lat G+kv+ p +l + +r++ipv++ 
  PHY93_00525|PHY93_00525 242 DVPDVKFIKELSYDEATA----LATLGAKVLFPTTLLPTKRKNIPVFVG 286
                              ******************....*************************96 PP

>> Cdc6_C  CDC6, C terminal winged helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   3.6e-05      0.32      18      63 ..      68     113 ..      52     131 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 3.6e-05
                              HHHHHHHHHHHHHHTT-----HHHHHHHHHHHHHTTSEEEEEEE-C CS
                   Cdc6_C  18 tgevyevYkslCesegvdpltqrevsdllseLemlgileleksskG 63 
                              t+e+ +++ +++ ++  +p+  +e   l+ eL++lg+  le++s  
  PHY93_00525|PHY93_00525  68 TTELINKHVKIATELFTSPVVLTELEALCGELKALGLTILEERSFT 113
                              789999**********************************999765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (383 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       536  (0.0298957); expected 358.6 (0.02)
Passed bias filter:                      443  (0.0247086); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.21s 00:00:00.71 Elapsed: 00:00:00.38
# Mc/sec: 3029.15
//
Query:       PHY93_00530|PHY93_00530  [L=367]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.2e-40  138.5   0.0    2.7e-40  138.1   0.0    1.2  1  T2SSE            Type II/IV secretion system protein
    1.1e-05   25.9   0.0    2.3e-05   24.9   0.0    1.5  1  ABC_tran         ABC transporter
    1.5e-05   24.4   0.2     0.0001   21.7   0.0    2.3  3  FtsK_SpoIIIE     FtsK/SpoIIIE family
    3.9e-05   23.2   0.1    7.6e-05   22.3   0.1    1.6  1  AAA_7            P-loop containing dynein motor region
    4.8e-05   22.7   0.0    8.9e-05   21.8   0.0    1.3  1  Zeta_toxin       Zeta toxin
    5.9e-05   23.5   0.0    0.00011   22.6   0.0    1.5  1  AAA_16           AAA ATPase domain
    0.00016   20.7   0.0    0.00027   20.0   0.0    1.2  1  TrwB_AAD_bind    Type IV secretion-system coupling protein DN
     0.0002   21.9   2.5    0.00022   21.8   0.4    2.0  2  AAA_23           AAA domain
     0.0003   21.0   0.4      0.001   19.2   0.1    2.0  2  DUF87            Helicase HerA, central domain
    0.00062   19.8   0.2     0.0021   18.1   0.1    1.8  1  ResIII           Type III restriction enzyme, res subunit
    0.00067   19.2   0.3     0.0027   17.2   0.0    2.2  3  Pox_A32          Poxvirus A32 protein
      0.001   18.8   0.0     0.0022   17.7   0.0    1.5  1  AAA_29           P-loop containing region of AAA domain
     0.0014   18.2   0.0     0.0024   17.5   0.0    1.3  1  cobW             CobW/HypB/UreG, nucleotide-binding domain
     0.0021   18.0   0.1     0.0037   17.2   0.1    1.3  1  RsgA_GTPase      RsgA GTPase
     0.0037   16.4   0.1     0.0092   15.2   0.0    1.7  2  DUF815           Protein of unknown function (DUF815)
      0.004   17.4   0.0     0.0092   16.3   0.0    1.6  1  AAA_22           AAA domain
     0.0043   17.1   0.0     0.0087   16.1   0.0    1.5  1  TsaE             Threonylcarbamoyl adenosine biosynthesis pro
     0.0061   16.6   0.0      0.015   15.4   0.0    1.7  1  Dynein_heavy     Dynein heavy chain region D6 P-loop domain
     0.0086   16.6   0.0      0.056   14.0   0.0    2.3  2  AAA_18           AAA domain
  ------ inclusion threshold ------
      0.014   15.4   0.0      0.029   14.3   0.0    1.5  1  NACHT            NACHT domain
      0.015   15.1   0.0      0.028   14.2   0.0    1.4  1  DEAD             DEAD/DEAH box helicase
      0.018   14.8   0.0      0.048   13.4   0.0    1.8  1  Viral_helicase1  Viral (Superfamily 1) RNA helicase
      0.019   15.3   0.0      0.044   14.1   0.0    1.7  1  AAA_19           AAA domain
       0.02   15.1   0.0      0.039   14.2   0.0    1.5  1  AAA_28           AAA domain
      0.028   14.6   0.0      0.053   13.7   0.0    1.5  1  AAA_33           AAA domain
      0.036   14.0   1.5       0.12   12.3   0.2    2.3  2  Microtub_bd      Microtubule binding
      0.044   12.6   0.1      0.091   11.5   0.0    1.5  2  AAA_32           AAA domain
      0.051   13.3   0.0      0.097   12.4   0.0    1.4  1  Sigma54_activat  Sigma-54 interaction domain
      0.054   13.3   0.0       0.11   12.2   0.0    1.5  1  ATP_bind_1       Conserved hypothetical ATP binding protein
      0.063   13.0   0.0        0.1   12.3   0.0    1.3  1  AAA_24           AAA domain
      0.066   13.3   0.1       0.25   11.4   0.0    2.0  1  AAA_14           AAA domain
      0.067   12.5   0.0       0.12   11.7   0.0    1.4  1  ATPase           KaiC
      0.068   12.9   0.0       0.14   11.9   0.0    1.5  1  IstB_IS21        IstB-like ATP binding protein
       0.07   13.5   0.0       0.17   12.3   0.0    1.8  1  RNA_helicase     RNA helicase
      0.089   12.0   0.0       0.14   11.4   0.0    1.3  1  DUF2075          Uncharacterized conserved protein (DUF2075)


Domain annotation for each model (and alignments):
>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  138.1   0.0   5.3e-43   2.7e-40       4     269 ..      70     341 ..      67     345 .. 0.76

  Alignments for each domain:
  == domain 1  score: 138.1 bits;  conditional E-value: 5.3e-43
                    T2SSE   4 lleallddekvsdihvekper.vkvrervdgielreveelekaalerlisriaalakldiseerplq...darlpekgvrlrvvll 85 
                              +++++ld e  ++i+++ + +  k+    d+ e+ e+ +l+++  +   + + al ++  ++ +++    + ++ +++ r+ +++ 
  PHY93_00530|PHY93_00530  70 FITNILDTEPFNEIIFHSNTEaQKI--FSDKKEIIEIVNLTADDYQLSFEIF-ALKNNIAWNFSIPFasfSTEIGNHEFRITLIHH 152
                              6778899999999999888886777..4455589999999888876555544.444444444444431114444466666666666 PP

                    T2SSE  86 Pvvag..ealviRkksakeltlddlgaeealkekiaevlrkavrerglilvsGgTgsGKttllyallkeinksderivtvEDpvEi 169
                               ++a+   ++ +R+ ++ + tl    +  + k++  e+l   ++ +++il+sG TgsGKtt+l all+ei  + e++v++ED+ Ei
  PHY93_00530|PHY93_00530 153 STSANrkSKIFLRSLQKINPTLT--LF--NEKQTTVEFLVGLIKDKKNILISGSTGSGKTTFLRALLSEISPE-EHVVVLEDTHEI 233
                              66666445577774433332322..22..3345667899999999***************************9.************ PP

                    T2SSE 170 qleganqvqlnak..kakvtfadllraaLRlrPDrimvGEiRdketleilkAvnTGHlgslsTlHansaagalerLeqlgae.... 249
                                  ++q++  ++    k  ++d    aLR+ PDr++vGE+R +e++ ++ A+nTGH+g +sT+Hans ++al+r++ l +     
  PHY93_00530|PHY93_00530 234 LTFSPHQTSFLSQddLSKKSLKDYCAYALRMSPDRLIVGEMRSNEVVPFMLAMNTGHKGLMSTIHANSGVDALSRIALLFSLysen 319
                              *********999977788999*********************************************************99777666 PP

                    T2SSE 250 ..veaaelkssilavvdivvrl 269
                                +    +++  ++ +d v+++
  PHY93_00530|PHY93_00530 320 keIDFSLITKLACKNIDYVIHM 341
                              6666667777777766766666 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.9   0.0   4.4e-08   2.3e-05       8      72 ..     191     252 ..     188     305 .. 0.85

  Alignments for each domain:
  == domain 1  score: 24.9 bits;  conditional E-value: 4.4e-08
                              EETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEET.TCEGGGB-HHHCCHCEEEE-SS--S-T CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran   8 lkegekvaivGenGaGKStLlkllagllkpteGeilld.gkdlkeqeleslrkeigvlpqepqlfp 72 
                              +k  + + i G++G+GK+t+l++l+ + +p+e  + l+  ++     l+++ ++ ++l+q++  ++
  PHY93_00530|PHY93_00530 191 IKDKKNILISGSTGSGKTTFLRALLSEISPEEHVVVLEdTHE----ILTFSPHQTSFLSQDDLSKK 252
                              56778999**********************999997773333....56699999999999955444 PP

>> FtsK_SpoIIIE  FtsK/SpoIIIE family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.0       1.9     1e+03      52      81 ..      35      64 ..      35      78 .. 0.77
   2 ?   -2.2   0.0       4.2   2.2e+03     134     157 ..      90     113 ..      66     120 .. 0.74
   3 !   21.7   0.0     2e-07    0.0001      31      60 ..     186     215 ..     165     223 .. 0.78

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 1.9
                             HHHHHHHHHHHHHTT--TTTEEEEEE-TTS CS
             FtsK_SpoIIIE 52 KStalntLilSlatthtPeeVqliliDykg 81
                             KS+ + tL    +t+ +P+eV ++ + +k+
  PHY93_00530|PHY93_00530 35 KSVLQSTLCELGITKFSPHEVHFLEVWFKT 64
                             6776666666668999*******9777766 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 4.2
                              HHHHHHHHHHTT---B-TT-.... CS
             FtsK_SpoIIIE 134 ydgeiaedpldifgdvflvlDnyd 157
                                ++i +d+++i ++v+l  D+y+
  PHY93_00530|PHY93_00530  90 EAQKIFSDKKEIIEIVNLTADDYQ 113
                              567788888999999999999986 PP

  == domain 3  score: 21.7 bits;  conditional E-value: 2e-07
                              EEEEGGGS-.SEEEE--TTSSHHHHHHHHH CS
             FtsK_SpoIIIE  31 lvldlkkmashllvaGatgsGKStalntLi 60 
                              + + l+k   ++l+ G+tgsGK+t+l++L+
  PHY93_00530|PHY93_00530 186 FLVGLIKDKKNILISGSTGSGKTTFLRALL 215
                              4455556668******************98 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.3   0.1   1.5e-07   7.6e-05      25      66 ..     186     227 ..     154     261 .. 0.77

  Alignments for each domain:
  == domain 1  score: 22.3 bits;  conditional E-value: 1.5e-07
                    AAA_7  25 llelllknkkpvllvGptGtGKtviikdllkkldkekylslt 66 
                              +l  l+k kk++l+ G+tG+GKt+ ++ ll+++++e+++++ 
  PHY93_00530|PHY93_00530 186 FLVGLIKDKKNILISGSTGSGKTTFLRALLSEISPEEHVVVL 227
                              445689***************************999887764 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.8   0.0   1.7e-07   8.9e-05      15      69 ..     193     248 ..     187     260 .. 0.84

  Alignments for each domain:
  == domain 1  score: 21.8 bits;  conditional E-value: 1.7e-07
               Zeta_toxin  15 rPklillgGqpGAGKselaellkdelerqgnvvrl.dpDdlRelhPeyeeilkadp 69 
                               +k il++G++G+GK++ +++l  e+ +++ vv+l d+ ++ ++ P+  + l +d+
  PHY93_00530|PHY93_00530 193 DKKNILISGSTGSGKTTFLRALLSEISPEEHVVVLeDTHEILTFSPHQTSFLSQDD 248
                              57889**********************99999999345578888888887777765 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.6   0.0   2.2e-07   0.00011      24      71 ..     194     238 ..     179     312 .. 0.78

  Alignments for each domain:
  == domain 1  score: 22.6 bits;  conditional E-value: 2.2e-07
                   AAA_16  24 pelvllsGesGvGKsslvrellralekdggiflrgkcdqlesaipysa 71 
                                ++l+sG  G+GK++ +r+ll +++ ++ +++ +++++    +++s+
  PHY93_00530|PHY93_00530 194 KKNILISGSTGSGKTTFLRALLSEISPEEHVVVLEDTHEI---LTFSP 238
                              479*************************855555555555...34444 PP

>> TrwB_AAD_bind  Type IV secretion-system coupling protein DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.0   0.0   5.3e-07   0.00027      15      51 ..     194     230 ..     189     239 .. 0.89

  Alignments for each domain:
  == domain 1  score: 20.0 bits;  conditional E-value: 5.3e-07
            TrwB_AAD_bind  15 tqhilivGttGsGKtqalekllrairargdraivlDl 51 
                              ++ ili G+tGsGKt+ l++ll +i   ++ ++  D+
  PHY93_00530|PHY93_00530 194 KKNILISGSTGSGKTTFLRALLSEISPEEHVVVLEDT 230
                              6789*********************999988888776 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.1       3.2   1.6e+03      75      77 ..     102     104 ..      58     181 .. 0.53
   2 !   21.8   0.4   4.4e-07   0.00022      11      39 ..     180     214 ..     166     216 .. 0.86

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 3.2
                   AAA_23  75 vel 77 
                              +e+
  PHY93_00530|PHY93_00530 102 IEI 104
                              111 PP

  == domain 2  score: 21.8 bits;  conditional E-value: 4.4e-07
                   AAA_23  11 rdqeidF......skgltlItGpNGaGKTTildAi 39 
                              + ++++F      +k+  lI+G +G+GKTT+l+A+
  PHY93_00530|PHY93_00530 180 KQTTVEFlvglikDKKNILISGSTGSGKTTFLRAL 214
                              44669**99999999999***************98 PP

>> DUF87  Helicase HerA, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0       5.1   2.6e+03     156     165 ..      93     102 ..      10     164 .. 0.59
   2 !   19.2   0.1     2e-06     0.001      24      58 ..     195     227 ..     175     239 .. 0.83

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 5.1
                    DUF87 156 elrklknqai 165
                              ++ ++k+++i
  PHY93_00530|PHY93_00530  93 KIFSDKKEII 102
                              3333333333 PP

  == domain 2  score: 19.2 bits;  conditional E-value: 2e-06
                    DUF87  24 rHlAilgsTGsGKSntvavLleellekkgatilil 58 
                              + ++i gsTGsGK+++ + Ll+e+   +  ++++l
  PHY93_00530|PHY93_00530 195 KNILISGSTGSGKTTFLRALLSEIS--PEEHVVVL 227
                              567899******************9..66666665 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.1   4.1e-06    0.0021      21      67 ..     179     234 ..     161     245 .. 0.79

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 4.1e-06
                              ..............TTSEEEEEESTTSTHHHHHHHHHHHH-S.....-EEEEESSHHHH CS
                   ResIII  21 s............krdkrglikmaTGtGKTlvaaklierllkkgkeekflflvprksll 67 
                              +            k++k++li   TG+GKT  + +l  +++ +   e++++l ++ ++l
  PHY93_00530|PHY93_00530 179 EkqttveflvgliKDKKNILISGSTGSGKTTFLRALLSEISPE---EHVVVLEDTHEIL 234
                              2444555566666999****************99999999885...78****9999986 PP

>> Pox_A32  Poxvirus A32 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0       8.1   4.1e+03     170     196 ..      93     119 ..      88     126 .. 0.69
   2 ?   -2.7   0.0       6.1   3.2e+03      10      33 ..     141     167 ..     136     170 .. 0.68
   3 !   17.2   0.0   5.2e-06    0.0027       9      39 ..     190     220 ..     184     269 .. 0.87

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 8.1
                  Pox_A32 170 slkgskkkllkvlnilrsaeqkkrkvl 196
                              ++ ++kk++++++n+  +  q + +++
  PHY93_00530|PHY93_00530  93 KIFSDKKEIIEIVNLTADDYQLSFEIF 119
                              567788889999888877766555555 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 6.1
                  Pox_A32  10 lkkpFrlalvGgsGsGk...tvyLlsL 33 
                               +++Fr+ l+  s s      ++L+sL
  PHY93_00530|PHY93_00530 141 GNHEFRITLIHHSTSANrksKIFLRSL 167
                              578899999999888641224677766 PP

  == domain 3  score: 17.2 bits;  conditional E-value: 5.2e-06
                  Pox_A32   9 LlkkpFrlalvGgsGsGktvyLlsLlrtlvk 39 
                              L+k++ ++ + G +GsGkt++L++Ll+++  
  PHY93_00530|PHY93_00530 190 LIKDKKNILISGSTGSGKTTFLRALLSEISP 220
                              78889999******************99865 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   0.0   4.3e-06    0.0022      21      49 ..     193     221 ..     174     225 .. 0.81

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 4.3e-06
                   AAA_29  21 lkgatlltGpsGsGKSTllDAiqalLvpa 49 
                               k ++l++G +GsGK+T+l A+   + p+
  PHY93_00530|PHY93_00530 193 DKKNILISGSTGSGKTTFLRALLSEISPE 221
                              44589**************9988766666 PP

>> cobW  CobW/HypB/UreG, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.0   4.6e-06    0.0024       3      38 ..     197     232 ..     195     249 .. 0.87

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 4.6e-06
                              EEEEESTTCCHHHHHHHHHCT--SS-EEEEESS-SS CS
                     cobW   3 tvltGflGsGKTtLlnhllenraglklavivNefge 38 
                              ++++G+ GsGKTt+l++ll++ + ++  v++ +  e
  PHY93_00530|PHY93_00530 197 ILISGSTGSGKTTFLRALLSEISPEEHVVVLEDTHE 232
                              689****************88888888888888776 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.1   7.2e-06    0.0037      64     124 ..     159     219 ..     138     236 .. 0.80

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 7.2e-06
                              HHHHHHHHHHHTTSEEEE--TTTHTTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT-- CS
              RsgA_GTPase  64 eleelkeelealgyevllvsaktkegleelkellkd.ktsvlvGqSGvGKStLinallpele 124
                              + + +   l++++ +++l ++k ++++e l  l+kd k +++ G++G GK+t++ all+e +
  PHY93_00530|PHY93_00530 159 KSKIFLRSLQKINPTLTLFNEK-QTTVEFLVGLIKDkKNILISGSTGSGKTTFLRALLSEIS 219
                              3677788889998777777555.899**********7778889**************99854 PP

>> DUF815  Protein of unknown function (DUF815)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0       8.3   4.3e+03      67     112 ..      40      85 ..      23      87 .. 0.78
   2 !   15.2   0.0   1.8e-05    0.0092      41      86 ..     180     228 ..     144     250 .. 0.73

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 8.3
                   DUF815  67 SslvkallneyaeegLrlievekedlkelpklvellrerperfilf 112
                              S+l+   +++++ ++++++ev  +++++   ++++l ++p + i+f
  PHY93_00530|PHY93_00530  40 STLCELGITKFSPHEVHFLEVWFKTIHHQLFITNILDTEPFNEIIF 85 
                              6666666777888888888888888888888888888888888887 PP

  == domain 2  score: 15.2 bits;  conditional E-value: 1.8e-05
                   DUF815  41 venteqflegl..pannvLLwGarGtGKSslvkallneyaeeg.Lrlie 86 
                              ++ t +fl gl    +n+L+ G+ G+GK + ++all+e++ e+ + ++e
  PHY93_00530|PHY93_00530 180 KQTTVEFLVGLikDKKNILISGSTGSGKTTFLRALLSEISPEEhVVVLE 228
                              4568889988622578**********************99877344444 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0   1.8e-05    0.0092       4      32 ..     193     221 ..     190     276 .. 0.72

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 1.8e-05
                   AAA_22   4 tagilvvtGesGtGKTtllrrlleqldee 32 
                              +++ +++ G +G+GKTt lr ll++   e
  PHY93_00530|PHY93_00530 193 DKKNILISGSTGSGKTTFLRALLSEISPE 221
                              7899*******************997533 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   1.7e-05    0.0087      13      45 ..     189     220 ..     174     235 .. 0.74

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 1.7e-05
                              HHHHCH..TEEEEEEESTTSSHHHHHHHHHHHTT- CS
                     TsaE  13 klakal..gdvilLeGdLGaGKTtlvrglakalgv 45 
                               l   +  ++ il++G  G+GKTt+ r+l++++  
  PHY93_00530|PHY93_00530 189 GL---IkdKKNILISGSTGSGKTTFLRALLSEISP 220
                              33...233667******************998765 PP

>> Dynein_heavy  Dynein heavy chain region D6 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   2.9e-05     0.015       5      80 ..     172     247 ..     168     285 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 2.9e-05
                              -EEEEE-TT--THHHHHHHHHHTT--EEEEETTSHHHHHHHHHHHHHHHHT-EEEEE-GGG-CCCHHHHHHH.... CS
             Dynein_heavy   5 PvlfilspgadptesleklakklkklvksvslGqgqeeeaekalekaakegsWvlLqNchlapswlkeLekileel 80 
                              P l + +++   +e l  l k++k+ + s s G+g++   +++l++ + e++ v+L++ h ++ + ++ +++l++ 
  PHY93_00530|PHY93_00530 172 PTLTLFNEKQTTVEFLVGLIKDKKNILISGSTGSGKTTFLRALLSEISPEEHVVVLEDTHEILTFSPHQTSFLSQD 247
                              777777888888999999999999999**************************************99988887643 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.0   0.0       2.2   1.1e+03      51      89 ..       5      48 ..       3     114 .. 0.68
   2 !   14.0   0.0   0.00011     0.056       1      32 [.     197     231 ..     197     321 .. 0.74

  Alignments for each domain:
  == domain 1  score: 0.0 bits;  conditional E-value: 2.2
                   AAA_18 51 rldedkldklldaleenssaleegknl......vidghlaelese 89
                             rl ++++ ++l++++ +++  +++k+l      v+++ l+el  +
  PHY93_00530|PHY93_00530  5 RLLQNYQIEVLELFKVHYR-KMSAKDLmldfksVLQSTLCELGIT 48
                             6777888888888888887.2333333133333555555555544 PP

  == domain 2  score: 14.0 bits;  conditional E-value: 0.00011
                   AAA_18   1 IlltGtpGvGKttlakeL......skrlgfgvnlrdva 32 
                              Il++G  G+GKtt+ ++L      +++   +v+l d++
  PHY93_00530|PHY93_00530 197 ILISGSTGSGKTTFLRALlseispEEH---VVVLEDTH 231
                              99****************444432222...44444443 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0   5.6e-05     0.029       3      25 ..     197     219 ..     195     230 .. 0.90

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 5.6e-05
                              EEEEC-TTTCHHHHHHHHHHHHC CS
                    NACHT   3 vilqGeaGsGKTtLlqklalawa 25 
                              +++ G  GsGKTt+l+ l +++ 
  PHY93_00530|PHY93_00530 197 ILISGSTGSGKTTFLRALLSEIS 219
                              799***************99875 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   5.4e-05     0.028      10      58 ..     190     232 ..     182     272 .. 0.78

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 5.4e-05
                              HHHTTCEEEEEESTTSSHHHHHHHHHHHHHHHSTTSTS-EEEEEESSHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  10 lilgggdvlvaaeTGsGKTlaflipvlqivyetkgktgpkalivePtre 58 
                              li +++++l+++ TGsGKT+ fl ++l++++     ++  ++++e t+e
  PHY93_00530|PHY93_00530 190 LIKDKKNILISGSTGSGKTT-FLRALLSEIS-----PEEHVVVLEDTHE 232
                              677899*************7.5777776663.....3444555555444 PP

>> Viral_helicase1  Viral (Superfamily 1) RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   9.3e-05     0.048       1      38 [.     197     237 ..     197     270 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 9.3e-05
          Viral_helicase1   1 ivvhGvpGcGKStlirkllrts...liltvnrptaellteg 38 
                              i+++G  G+GK+t +r ll++     +++v   t e+lt +
  PHY93_00530|PHY93_00530 197 ILISGSTGSGKTTFLRALLSEIspeEHVVVLEDTHEILTFS 237
                              689****************9966665555555556666554 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   8.6e-05     0.044      10      55 ..     194     241 ..     188     336 .. 0.64

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 8.6e-05
                   AAA_19  10 ekvllvtaGpGtGKTrvlkhivallvelggvkp..eeillvaftgrAa 55 
                              +k++l+ +  G+GKT+ l++ ++++  +++v +  ++  +++f  + +
  PHY93_00530|PHY93_00530 194 KKNILISGSTGSGKTTFLRALLSEISPEEHVVVleDTHEILTFSPHQT 241
                              7899******************99998887755553444444444444 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   7.7e-05     0.039       1      35 [.     196     234 ..     196     268 .. 0.77

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 7.7e-05
                   AAA_28   1 kivitGgestGKTtlleaLaar....gypvvpEaareil 35 
                              +i i+G  ++GKTt l+aL ++    +++vv E   eil
  PHY93_00530|PHY93_00530 196 NILISGSTGSGKTTFLRALLSEispeEHVVVLEDTHEIL 234
                              599****************97767766777755555544 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0    0.0001     0.053       2      32 ..     197     230 ..     197     283 .. 0.74

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 0.0001
                   AAA_33   2 vllvGlpGsGKstlaerllkklg...avllssdt 32 
                              +l+ G  GsGK+t+++ ll +      v++ +dt
  PHY93_00530|PHY93_00530 197 ILISGSTGSGKTTFLRALLSEISpeeHVVVLEDT 230
                              5778**************9887777755555555 PP

>> Microtub_bd  Microtubule binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.1       2.3   1.2e+03      57      77 ..      84     104 ..      77     123 .. 0.62
   2 ?   12.3   0.2   0.00023      0.12      33     103 ..     141     219 ..     121     251 .. 0.72

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 2.3
                              EEECTTHCCCCCCCCHHHHHH CS
              Microtub_bd  57 vfeseseqeevfeeisqlvqs 77 
                              +f+s++e +++f++ + +++ 
  PHY93_00530|PHY93_00530  84 IFHSNTEAQKIFSDKKEIIEI 104
                              577777888888776665543 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 0.00023
                              S-T.EEEETTT....TTTEEEE-SEEEECTTHCCCCCCCCHHHHHHHH..TT--EEEEEEES................. CS
              Microtub_bd  33 esekakikfpe.eekkkkkefsFdrvfeseseqeevfeeisqlvqsal..dgynvcifaygqTGsGKtyTmeg.....e 103
                               +++++i+  + +++ ++k+  F r +++ + +  +f+e +  v+  +   +   +i+  g+TGsGKt  + +     +
  PHY93_00530|PHY93_00530 141 GNHEFRITLIHhSTSANRKSKIFLRSLQKINPTLTLFNEKQTTVEFLVglIKDKKNILISGSTGSGKTTFLRAllseiS 219
                              44334444443455666677778899999999999*****999998876688999************976665554444 PP

>> AAA_32  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.7   0.1       7.3   3.8e+03     403     417 ..       6      20 ..       5      21 .. 0.90
   2 ?   11.5   0.0   0.00018     0.091      20      59 ..     184     223 ..     173     230 .. 0.88

  Alignments for each domain:
  == domain 1  score: -3.7 bits;  conditional E-value: 7.3
                   AAA_32 403 lLseyDpdfkklFkv 417
                              lL++y  ++ +lFkv
  PHY93_00530|PHY93_00530   6 LLQNYQIEVLELFKV 20 
                              899***********9 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 0.00018
                   AAA_32  20 lefglkikkkgYNifvlGesgtGrttlvkrlleeiakkep 59 
                              +ef +++ k++ Ni ++G++g+G+tt+++ ll+ei+ +e+
  PHY93_00530|PHY93_00530 184 VEFLVGLIKDKKNILISGSTGSGKTTFLRALLSEISPEEH 223
                              677788888899**********************998876 PP

>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   0.00019     0.097      11      51 ..     183     223 ..     177     233 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.00019
                              HHHHHHHHCTSSS-EEEECSTTSSHHHHHHHHHHHSTTTTS CS
          Sigma54_activat  11 lleqikkvaktdlsvlitGesGtGKellaraiheaskrkek 51 
                              ++e +  ++k + ++li G +G+GK+++ ra+ ++ + +e+
  PHY93_00530|PHY93_00530 183 TVEFLVGLIKDKKNILISGSTGSGKTTFLRALLSEISPEEH 223
                              5566666788899***************9999876665554 PP

>> ATP_bind_1  Conserved hypothetical ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   0.00022      0.11       1      44 [.     199     239 ..     199     257 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 0.00022
               ATP_bind_1   1 vvGpaGsGKttfvgal.seilelrgrsvavvNLDPAaeelpYeaa 44 
                              + G  GsGKttf +al sei +++    +vv L    e+l+++++
  PHY93_00530|PHY93_00530 199 ISGSTGSGKTTFLRALlSEISPEE----HVVVLEDTHEILTFSPH 239
                              5799*********99626777777....99999998888888876 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0    0.0002       0.1       2      23 ..     194     221 ..     193     241 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.0002
                   AAA_24   2 klkiliyGpsgiGKTtlakel......g 23 
                              k++ili G+ g+GKTt+++ l      +
  PHY93_00530|PHY93_00530 194 KKNILISGSTGSGKTTFLRALlseispE 221
                              789***************9987666544 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00049      0.25       2      37 ..     194     228 ..     193     262 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00049
                   AAA_14   2 rkilvitGaRrvGKTtllkqlikellvkkesilyin 37 
                              +k ++i+G   +GKTt+l+ l++e   ++e+++ ++
  PHY93_00530|PHY93_00530 194 KKNILISGSTGSGKTTFLRALLSEIS-PEEHVVVLE 228
                              57899*****************8877.555555443 PP

>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00024      0.12      14      36 ..     189     211 ..     177     227 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00024
                   ATPase  14 gGipegrvvlitGepGtGKtifa 36 
                              g i +++ +li+G++G+GKt+f 
  PHY93_00530|PHY93_00530 189 GLIKDKKNILISGSTGSGKTTFL 211
                              5678899**************95 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   0.00028      0.14      43      79 ..     190     226 ..     175     254 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00028
                IstB_IS21  43 fiekkenivllGpsGvGKshlaialgveavraglsvl 79 
                               i++k+ni++ G +G GK+ +  al  e   +++ v+
  PHY93_00530|PHY93_00530 190 LIKDKKNILISGSTGSGKTTFLRALLSEISPEEHVVV 226
                              5899***************999999777666666665 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   0.00034      0.17       1      35 [.     197     225 ..     197     286 .. 0.73

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00034
             RNA_helicase   1 iwlyGpsgeGKStlakeLakall..kklklkkkdsvy 35 
                              i+++G++g GK+t+ + L ++++  +        +v+
  PHY93_00530|PHY93_00530 197 ILISGSTGSGKTTFLRALLSEISpeE--------HVV 225
                              689**************999998322........222 PP

>> DUF2075  Uncharacterized conserved protein (DUF2075)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00027      0.14       1      31 [.     194     222 ..     194     265 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00027
                  DUF2075   1 kavvlVtGvaGtGKtvvllnllaeleddeee 31 
                              k+ +l++G +G+GKt  l +ll e+  + ee
  PHY93_00530|PHY93_00530 194 KKNILISGSTGSGKTTFLRALLSEI--SPEE 222
                              6789*********************..2222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (367 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       653  (0.0364214); expected 358.6 (0.02)
Passed bias filter:                      454  (0.0253221); expected 358.6 (0.02)
Passed Vit filter:                       110  (0.00613531); expected 17.9 (0.001)
Passed Fwd filter:                        35  (0.00195214); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              35  [number of targets reported over threshold]
# CPU time: 0.62u 0.23s 00:00:00.85 Elapsed: 00:00:00.40
# Mc/sec: 2746.61
//
Query:       PHY93_05600|PHY93_05600  [L=720]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    7.4e-59  199.5  57.1    7.4e-59  199.5  57.1    2.2  2  Na_H_Exchanger  Sodium/hydrogen exchanger family
    2.7e-22   78.3   0.5    1.5e-11   43.9   0.0    2.7  2  TrkA_C          TrkA-C domain


Domain annotation for each model (and alignments):
>> Na_H_Exchanger  Sodium/hydrogen exchanger family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  199.5  57.1   8.2e-63   7.4e-59       3     379 ..      13     377 ..      11     380 .. 0.92
   2 !    5.5   3.7   0.00069       6.2      74     209 ..     419     547 ..     413     559 .. 0.75

  Alignments for each domain:
  == domain 1  score: 199.5 bits;  conditional E-value: 8.2e-63
                              HHHHHHHHHHHHHHHTTSXHHHHHHHHHHHHTTTTTS.......HHHCHCCHHHHCHHCCHHHHCTCGCCTGCCTHHHHHHHHHHH CS
           Na_H_Exchanger   3 llillallvgllarrlklpeivgliiaGlllGpsglgl..iepseedlevlselglilllFlaGleldlrelrknlksilllallg 86 
                              +++++a +v++l+r++++p+++g+iiaG l+  ++  l  +++    ++v +e+g+i+llF++Gle+++++l +++ ++ + a++ 
  PHY93_05600|PHY93_05600  13 IILMAAGFVTILFRKIGQPVVLGYIIAGFLVSSHVWFLptVSDL-PNIQVWAEIGVIFLLFALGLEFSFKKLIRVGAASSITAVVE 97 
                              455557777778*************************5559999.***************************************** PP

                              HHHHHHHHHHHHH.HHTXTTCHHHHHHHHHHHTSSXHHHHHHHC.CCCTSTCCCCCCHHHHHHHHHHHCCCCCHHHHHHTX.XXXX CS
           Na_H_Exchanger  87 vlitvvliGlllylllilgiplleallfgailsatdpvvvlailkeegrvperlgtlllgesvlnDavavvllavllalak.eeag 171
                              v  +v+l G+l +   ++g++ +++l++g+il+++++ +++++l e+g   + +   ++g+++++D vav+ll++l ++a   + +
  PHY93_05600|PHY93_05600  98 VCGMVIL-GFLSGE--FFGWSTIDSLFLGGILAISSTTIIIRTLGESGMKGRGFVDFVFGILIIEDMVAVLLLVLLSTVAVtNQFN 180
                              *******.**9997..7999***********************************************************9865555 PP

                              TSSSTSXHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCTHHHHHHHHHHHHHHHHHHHHHTSXXXHHHHHHHHHHHHHHHHHHTTH CS
           Na_H_Exchanger 172 getslllllliflvvavgglllglvigwllrlitrftdddrelevllvlllallaallaellgvsgilgaflaGlvlseyefsnkl 257
                              ge  +++ l+ +++v++ ++ + ++++ ll++i++    ++e+ ++++l+l++l+++l++  g+s +lgaf++G +l+e+++ +k+
  PHY93_05600|PHY93_05600 181 GEELIFSTLKLLFFVILCFVSGIFILPTLLKYIRKI--LTEEMLLVVSLALCFLLVILSTRAGFSPALGAFIMGTILAETSEVKKI 264
                              566666777777777888888888899999999999..7***************************************9999999* PP

                              HHHHHHHHHHHHHHHHHHHHHHHSXHHHHHXXHHHHHHHHHHHHHHHTHHHHHHHHHTTTXSSXHHHHHHCCCCSS.BHHHHHHHH CS
           Na_H_Exchanger 258 seklesfreglfnplfFvlvGlsldlkvlnnhlsvlilvllilvaillgrilavflllrllglslrealiigfgglqrgavalala 343
                              ++ + ++  +lf+ +fFv+vG+ +++k+l   ++ + + ll+l+++ +g++ ++++ + + + slr+++ +g++++q+g++++++a
  PHY93_05600|PHY93_05600 265 EHLILPVK-DLFAAIFFVSVGMLINPKILI--EYGWQIFLLTLLTV-FGKFFTILIGALIARRSLRHSIQAGLSLAQIGEFSFIIA 346
                              ********.9*******************4..77777777777777.6************************************** PP

                              HHHHHHXHHHHTTSSTTTCSTSXHHHHHHHHHHHHH CS
           Na_H_Exchanger 344 algpalgllarelyallivvvlftvlvqGlslkpll 379
                              alg +l++ ++ ly+++++v ++t++     ++p+l
  PHY93_05600|PHY93_05600 347 ALGINLKVTSNFLYPIAVGVSVITTF-----ITPYL 377
                              **************************.....66665 PP

  == domain 2  score: 5.5 bits;  conditional E-value: 0.00069
                              CTHHHHHHHHHHHHHHHHHHHHHHHH.HHTXTTCHHHHHHHHHHHTSSXHHHHHHHC....CCCTSTCCCCCCHHHHHHHHHHHCC CS
           Na_H_Exchanger  74 knlksilllallgvlitvvliGlllylllilgiplleallfgailsatdpvvvlailk...eegrvperlgtlllgesvlnDavav 156
                               n+ s+l + +l v+i +++  + ly++     ++ e + +++ l ++ p + + +l+    + + +++  t +  es+   +v+ 
  PHY93_05600|PHY93_05600 419 NNIFSSLSFIILNVVIILAI-FYSLYWT---YSYFNEYISLAITLFISAPFFWALLLRkafPLSKSKKDRITFVCVESMRIIIVCA 500
                              45556666777777776666.5666654...4599999999999999999999999996666667777777777777777666666 PP

                              CCCHHHHHHTXXXXXTSSSTSXHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS.C CS
           Na_H_Exchanger 157 vllavllalakeeaggetslllllliflvvavgglllglvigwllrlitrft.d 209
                              ++ +++l++           l++ ++++v +++++l+  +++ +++++++++ +
  PHY93_05600|PHY93_05600 501 LFCYLALQY-------SLRPLMITMALIVTFILLFLCSPFLKIIYSKFEKHFiR 547
                              666665555.......48999999999999999999999999999999998743 PP

>> TrkA_C  TrkA-C domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.9   0.0   1.7e-15   1.5e-11       3      68 ..     570     637 ..     568     639 .. 0.88
   2 !   32.1   0.1   8.6e-12   7.7e-08      11      63 ..     665     719 ..     655     720 .] 0.87

  Alignments for each domain:
  == domain 1  score: 43.9 bits;  conditional E-value: 1.7e-15
                              EEEEE--GGGTTSBHHHHTHHHH.S-EEEEEE-T.-EEES--TT-B--TT-EEEEEEEHHHHHHHHHH CS
                   TrkA_C   3 evtvpagsplvGktlkelnlrar.gvlvvairRg.geliipsgdtvLeeGDvllvvgspsdlaelrel 68 
                               + +pa+s ++Gktl el++r+  g+ ++ i Rg  +++ p+ d +L ++D++ v+g+++ + +l+ +
  PHY93_05600|PHY93_05600 570 YLDIPAESEVAGKTLHELKIRETfGASIALIERGhLFITAPGRDEKLFPNDRVAVIGDDEMIGKLTHF 637
                              5789******************************555555555******************9998876 PP

  == domain 2  score: 32.1 bits;  conditional E-value: 8.6e-12
                              GGTTSBHHHHTHHHH.S-EEEEEE-T.-EEES--TT-B--TT-EEEEEEEHHHHH CS
                   TrkA_C  11 plvGktlkelnlrar.gvlvvairRg.geliipsgdtvLeeGDvllvvgspsdla 63 
                               ++ kt++ +++r++ + lvv+i R+ +++++p++ +++ ++D++++vg++s ++
  PHY93_05600|PHY93_05600 665 SFAFKTIRKSGIREKtDGLVVGIERHgERILNPDSMLKILPDDLIWIVGDSSKIE 719
                              56669******************5555************************9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (720 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1093  (0.0609627); expected 358.6 (0.02)
Passed bias filter:                      359  (0.0200234); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.75u 0.26s 00:00:01.01 Elapsed: 00:00:00.45
# Mc/sec: 4838.48
//
Query:       PHY93_00535|PHY93_00535  [L=520]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.3e-10   39.2   1.1    9.4e-10   38.4   1.1    1.4  1  Secretin         Bacterial type II and III secretion system p
    0.00033   20.3   0.0    0.00056   19.6   0.0    1.4  1  T2SS-T3SS_pil_N  Pilus formation protein N terminal region
  ------ inclusion threshold ------
        2.5    8.6   5.8        2.1    8.8   0.3    2.9  3  Linker_histone   linker histone H1 and H5 family


Domain annotation for each model (and alignments):
>> Secretin  Bacterial type II and III secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.4   1.1   1.6e-13   9.4e-10       3     156 ..     369     507 ..     367     516 .. 0.84

  Alignments for each domain:
  == domain 1  score: 38.4 bits;  conditional E-value: 1.6e-13
                 Secretin   3 eqegkakvlstPklltldneeAeievgqevpvqvtsetgsstgatttatevefkevglsLkvtPqvtedgsirlkidvevssiass 88 
                              +++ ++++l++P+ l+   ++Ae+++g ++p++    + +++    + +++++k +gl++k+  +   +++i+++ + e ++++  
  PHY93_00535|PHY93_00535 369 QKKVRMSTLAEPQSLIRPLTPAEMQIGADIPFK----NINAN----NIQSTDWKFAGLKIKILLENY-GEKIKINYETELTQPS-- 443
                              6777899**************************....33222....233489**********87766.5556666666666654.. PP

                 Secretin  89 qavtaegnsvptisrrelkttvrvkdgetlviGGliqdeeseseskvPlLgdiPllGaLFksttkske 156
                              +++    n+v++i  ++ k++v++     + i  +  ++e + ++++P+L+ iPllG+LFks++ +++
  PHY93_00535|PHY93_00535 444 NDT----NGVTSIGGNKEKSSVILPLKTAVKIFQISLKTEGKATDQMPFLNAIPLLGELFKSKSLQSN 507
                              444....99*****************************************************997765 PP

>> T2SS-T3SS_pil_N  Pilus formation protein N terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   0.0   9.4e-08   0.00056       5      71 ..     122     187 ..     119     188 .. 0.87

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 9.4e-08
          T2SS-T3SS_pil_N   5 lelevgksrllrlpepvervavgnpkiadvtvl.sprevlltGksvGtTnlivwdaggrelltldvrV 71 
                              + l  g+s+ + l   +e+  +gn +++ +++  +++++l+ G++ G +++ vw+++     t+++ V
  PHY93_00535|PHY93_00535 122 IILARGQSTEIAL-MAMEKFNIGNRQVITYRLNeKSKKLLVRGNQLGHSEILVWNKDKT-SETYQIFV 187
                              6677888888886.6899999***********95666*******************999.89998877 PP

>> Linker_histone  linker histone H1 and H5 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.1      0.71   4.3e+03      31      57 ..     137     163 ..     130     164 .. 0.80
   2 ?    1.1   0.1     0.086   5.2e+02      27      60 ..     233     267 ..     231     272 .. 0.79
   3 ?    8.8   0.3   0.00036       2.1      26      51 ..     296     321 ..     293     342 .. 0.83

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 0.71
           Linker_histone  31 kakykvvdvskfksllkkalkkgvekg 57 
                               +k+++++ + ++++l+   kk++ +g
  PHY93_00535|PHY93_00535 137 MEKFNIGNRQVITYRLNEKSKKLLVRG 163
                              578888899999999999999987665 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.086
           Linker_histone  27 kkyikakykvv.dvskfksllkkalkkgvekgelv 60 
                              kk ++++ +v  d+ +++s lk+ + +gv    ++
  PHY93_00535|PHY93_00535 233 KKILEQNKEVIlDEVHLNSELKNKIFAGVYTAFFE 267
                              67788888877999999999999999998766665 PP

  == domain 3  score: 8.8 bits;  conditional E-value: 0.00036
           Linker_histone  26 Ikkyikakykvvdvskfksllkkalk 51 
                              +kk++++kyk++ v+k+++++kk   
  PHY93_00535|PHY93_00535 296 LKKFLTEKYKINLVQKNNQQFKKNYS 321
                              7**********999999****99865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (520 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1022  (0.0570026); expected 358.6 (0.02)
Passed bias filter:                      509  (0.0283898); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.57u 0.26s 00:00:00.83 Elapsed: 00:00:00.42
# Mc/sec: 3696.14
//
Query:       PHY93_00540|PHY93_00540  [L=108]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.012   14.7   0.2      0.012   14.6   0.2    1.0  1  Tmp39     Putative transmembrane protein


Domain annotation for each model (and alignments):
>> Tmp39  Putative transmembrane protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.2   6.8e-07     0.012     239     305 ..       2      74 ..       1      92 [. 0.78

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 6.8e-07
                    Tmp39 239 evlfssllsayyvalvplifvkktvyyd...llwscqllilvllsafvllvah...llPakyldllhraalhl 305
                              +++f+sl+++y++ ++p +f+++ v+++   ++ + +ll  +l+++f l  +        + +++   a +hl
  PHY93_00540|PHY93_00540   2 KSIFKSLICCYLIFICPKLFAREVVLIEnlaTISEGELLKSILIKKFHLPRELitlKNTSQACEIKSEAIIHL 74 
                              579******************8887776333677889999999999998654411144556788888888888 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (108 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       360  (0.0200792); expected 358.6 (0.02)
Passed bias filter:                      227  (0.0126611); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.37
# Mc/sec: 872.46
//
Query:       PHY93_00545|PHY93_00545  [L=162]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (162 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       557  (0.031067); expected 358.6 (0.02)
Passed bias filter:                      448  (0.0249875); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.20s 00:00:00.59 Elapsed: 00:00:00.35
# Mc/sec: 1388.04
//
Query:       PHY93_00550|PHY93_00550  [L=256]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (256 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       759  (0.0423336); expected 358.6 (0.02)
Passed bias filter:                      448  (0.0249875); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.19s 00:00:00.64 Elapsed: 00:00:00.35
# Mc/sec: 2163.91
//
Query:       PHY93_00555|PHY93_00555  [L=56]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (56 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       508  (0.028334); expected 358.6 (0.02)
Passed bias filter:                      358  (0.0199677); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.34u 0.20s 00:00:00.54 Elapsed: 00:00:00.34
# Mc/sec: 488.59
//
Query:       PHY93_00560|PHY93_00560  [L=208]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    5.8e-12   45.8   0.0      1e-11   45.0   0.0    1.4  1  SPOR        Sporulation related domain
     0.0019   18.2   0.4     0.0036   17.3   0.4    1.4  1  DUF4446     Protein of unknown function (DUF4446)
  ------ inclusion threshold ------
      0.031   14.4   0.7      0.043   13.9   0.7    1.3  1  Podoplanin  Podoplanin
       0.15   12.2   3.4       0.21   11.8   3.4    1.1  1  CENP-Q      CENP-Q, a CENPA-CAD centromere complex subunit


Domain annotation for each model (and alignments):
>> SPOR  Sporulation related domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.0   0.0   2.3e-15     1e-11       2      63 ..     131     194 ..     130     201 .. 0.95

  Alignments for each domain:
  == domain 1  score: 45.0 bits;  conditional E-value: 2.3e-15
                              TTBB--BS-EES-HHHHHHHHHHCCHHT--.....EEECCSSSCEEEEESSBCTCCHHHHHHHH CS
                     SPOR   2 sggytvQvgafsseanAerlaakLrakgfaaav..avvsgggglyrVrvGpfasreeAqaalkk 63 
                              sg++t+Q+g+ ++ ++Ae +a+  +a+g+++ +  + ++g+g++yrV +G+f++ eeA+  ++k
  PHY93_00560|PHY93_00560 131 SGKFTIQLGSHRTLKEAEDFAEGFKARGYDTIInqIEIKGKGTWYRVSLGAFPNMEEAKSYINK 194
                              689****************************99*************************988775 PP

>> DUF4446  Protein of unknown function (DUF4446)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   0.4   8.1e-07    0.0036       6      80 ..      18      92 ..      14      94 .. 0.75

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 8.1e-07
                  DUF4446  6 lavlvvillillivllvklkklkkkykklmkgkdgksleellkekleeveelkeeseelekeieeleeklkkslq 80
                             ++++++++ i+ +vl vk+ k  +   + +++ d+k++ ell++k e++e++k++ e+++ e +++e+kl+++++
  PHY93_00560|PHY93_00560 18 IFIFMILIAITSFVLGVKIGKNYSLEMAGVTKGDEKKVVELLSKKEEDLESIKKNAEAHSVESSDIEHKLQEKIS 92
                             4455555555666666666555544444455669999*********************************99875 PP

>> Podoplanin  Podoplanin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.7   9.7e-06     0.043      38     127 ..      43     131 ..      19     138 .. 0.73

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 9.7e-06
                              XXXXXXXXXXXXXXXXXXXXX.XXXXXXXXXXXXXXXX--.---GGG-XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
               Podoplanin  38 edekvtpGvednvvttgasee.pyesglttlvptstesvt.dlrledlptaestvkakeesqstttlnvvtshstekvgeetettv 121
                              e + vt+G e +vv   +++e   es +    + s+es   +++l+++  ae   ++ + s++t+ +   t+ stek+  e +++ 
  PHY93_00560|PHY93_00560  43 EMAGVTKGDEKKVVELLSKKEeDLESIKKNAEAHSVESSDiEHKLQEKISAEFG-ADAKGSHETAQPAHTTNMSTEKTSHESNKS- 126
                              556789999999998755554044433333345566665415556666665555.77888899999***************9999. PP

                              XXXXXX CS
               Podoplanin 122 ekdGLa 127
                                dGL+
  PHY93_00560|PHY93_00560 127 -SDGLS 131
                              .78886 PP

>> CENP-Q  CENP-Q, a CENPA-CAD centromere complex subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   3.4   4.7e-05      0.21      56     133 ..      53     131 ..      45     150 .. 0.59

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 4.7e-05
                   CENP-Q  56 ekeeralerdyeaLreLeknakaearerke...klkk............ehvllqesdseelslleassdevlgeasgtvfsdlep 126
                              +k++++l + +e L++ +kna+a+  e  +   kl++            +h  +q            + +  + + s++ +s+ + 
  PHY93_00560|PHY93_00560  53 KKVVELLSKKEEDLESIKKNAEAHSVESSDiehKLQEkisaefgadakgSHETAQ------------PAH--TTNMSTEKTSHESN 124
                              7899**********************98886554444333333333333333333............222..22223333333333 PP

                   CENP-Q 127 eldeell 133
                              ++ + l+
  PHY93_00560|PHY93_00560 125 KSSDGLS 131
                              3333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (208 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1891  (0.105472); expected 358.6 (0.02)
Passed bias filter:                      945  (0.0527079); expected 358.6 (0.02)
Passed Vit filter:                        83  (0.00462937); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.55u 0.20s 00:00:00.75 Elapsed: 00:00:00.38
# Mc/sec: 1639.61
//
Query:       PHY93_00565|PHY93_00565  [L=359]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.9e-40  137.0   0.0    1.3e-39  136.3   0.0    1.3  1  NTP_transferase  Nucleotidyl transferase
    5.8e-06   26.7   0.0    1.1e-05   25.8   0.0    1.5  1  NTP_transf_3     MobA-like NTP transferase domain
  ------ inclusion threshold ------
       0.07   12.5   0.6       0.12   11.8   0.6    1.3  1  eIF-6            eIF-6 family


Domain annotation for each model (and alignments):
>> NTP_transferase  Nucleotidyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  136.3   0.0   2.2e-43   1.3e-39       3     244 ..      13     289 ..      11     292 .. 0.84

  Alignments for each domain:
  == domain 1  score: 136.3 bits;  conditional E-value: 2.2e-43
                              EEE--S--GGGTTCCTTSSGGGSEETTET.ETTHHHHHHHHH..TT-SEEEEEEETTTHHHHHHHHTTSGGGTSEEEEEEESS--B CS
          NTP_transferase   3 vILaGGsGtRLwPLtrtlakklvpvlgke.rliqatlsrlan..sgieeiivvltqehsflveeqlkegskfgvevlialepegkg 85 
                              +I+aGG+GtR+wP + +  +k+ + l +  +l++ tl r  +  ++ ++ i+ + +++   ve+ ++++++      i++ep+g++
  PHY93_00565|PHY93_00565  13 LIMAGGKGTRFWPESTQAKPKQYLNLISTkTLLEETLDRFDSliEKDHRFIITVKEQEVLCVESSFGKIAD----DGIIFEPSGRN 94 
                              7************99998888887777766********987743333332333344444456667777765....56********* PP

                              GGHHHHHTHHHHTTSSE....EEEEETTEEEEST..THHHHHHHHHTHSST.T.SEEEEEEESS-CTTSEEEEEC.....TTSBEE CS
          NTP_transferase  86 tAdAvalaaelledeks..delvlvLggDhlikd..ayeeavkkaiekaak.g.tvtfgivpveeateyGviead.....eegrve 160
                              t ++++ ++  l d+    d+++ ++++Dh+i +   + e++k+a++ + +   +vt+gi+p+ ++t++G+ie +     e+++v 
  PHY93_00565|PHY93_00565  95 TGPCILMSIAALLDRGVcpDDVIAIVPSDHVILNckGFHETMKRAADFSVHnQnIVTIGITPNFPHTGFGYIEKGemvegEGFKVS 180
                              ********99999999899**************999999999999886544235*********************99986666*** PP

                              EEECS-SSHSHCSEECCSEEEEETTHHHHHHH.CCHHHTTSSCHHHHHHHHHHHTTEEEEEECSTTEE.................. CS
          NTP_transferase 161 rfvEKPkeakaselassGiYvfnsevllflak.dleelkrgedeitdilpkaleegkvalaflfkdae.................. 227
                              rf+EKP  + a+e++ sG Y++n ++++  +k  lee k++++++++ + ++ +  ++ +++     e                  
  PHY93_00565|PHY93_00565 181 RFKEKPHFELAKEYIRSGDYLWNAGMFVAPIKiLLEEFKTHAPNMYEHFAELQQVINDPQKLKVVY-Ekmpsdsidycimekskkv 265
                              ***********************************************9988876666555433333.346789************* PP

                              .......-EEEXSSHHHHHHHHHH CS
          NTP_transferase 228 .......yWsDvGtldslleanek 244
                                      W+D G++d+l  + e+
  PHY93_00565|PHY93_00565 266 svvpatfDWNDMGSWDALTSVIEE 289
                              ******************988776 PP

>> NTP_transf_3  MobA-like NTP transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.8   0.0   1.9e-09   1.1e-05       1     102 [.      12     130 ..      12     153 .. 0.77

  Alignments for each domain:
  == domain 1  score: 25.8 bits;  conditional E-value: 1.9e-09
                              EEEEEESS-TTT......TTTHHHHCC.CCCCHHHHHHHHHCTT.-C...EEEEECSHCHHHH......HHTTCTS-EEE-.TTSS CS
             NTP_transf_3   1 aviLAGGrSsRm......ggdKallpl.ggkpllervldalraagvd...evvvvggdeevla......alarlgvrvved.edpg 69 
                              ++i+AGG+++R+       ++K+ l+l   k+lle +ld++ ++ ++   + ++ ++++evl        +a+ g+ + +  ++ g
  PHY93_00565|PHY93_00565  12 CLIMAGGKGTRFwpestqAKPKQYLNLiSTKTLLEETLDRFDSL-IEkdhRFIITVKEQEVLCvessfgKIADDGIIFEPSgRNTG 96 
                              58**********88876556************************.54444888888888777433333344666766655534446 PP

                              -SHHHHHHHHHHH..H.SSSCEEEEETT-TT--HH CS
             NTP_transf_3  70 kgplaslaaalra..aadadavlvlacDmPlltpe 102
                                +l s+aa l++  +  +d +++++ D++ l+ +
  PHY93_00565|PHY93_00565  97 PCILMSIAALLDRgvC-PDDVIAIVPSDHVILNCK 130
                              7789********9855.8***********998755 PP

>> eIF-6  eIF-6 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.6     2e-05      0.12      85     128 ..     308     355 ..     293     357 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 2e-05
                              ---EEE--SS--HHH....HEEE-SSEEEE-GGGGG.GHHHHHHHHTS CS
                    eIF-6  85 leverleekltAlGN....vilaNDkvAlvhpdlsketveiiadvLgv 128
                              ++v   ++k+ Al N    ++++NDkv lv p  ++++++++ + L+v
  PHY93_00565|PHY93_00565 308 DNVVFAPNKFVALINmdkhIVVVNDKVVLVAPVADSQEIKKVVEHLRV 355
                              7888999999999999999999******************99999998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (359 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       527  (0.0293937); expected 358.6 (0.02)
Passed bias filter:                      438  (0.0244297); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.47u 0.19s 00:00:00.65 Elapsed: 00:00:00.34
# Mc/sec: 3156.68
//
Query:       PHY93_00570|PHY93_00570  [L=533]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (533 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       772  (0.0430587); expected 358.6 (0.02)
Passed bias filter:                      568  (0.0316805); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.37
# Mc/sec: 4335.70
//
Query:       PHY93_00575|PHY93_00575  [L=108]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
  ------ inclusion threshold ------
      0.016   15.6   1.3       0.02   15.3   0.7    1.5  1  PEN-2        Presenilin enhancer-2 subunit of gamma secretase
       0.03   14.0   0.2      0.036   13.8   0.2    1.1  1  Tetraspanin  Tetraspanin family


Domain annotation for each model (and alignments):
>> PEN-2  Presenilin enhancer-2 subunit of gamma secretase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.3   0.7   2.2e-06      0.02      11      49 ..      14      54 ..       6      72 .. 0.68

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 2.2e-06
                    PEN-2 11 kyflvGfalLPflWlvN.vvyffkeaflke.afeeqkeirk 49
                             k f+ Gfa+L f+Wlv  +vy + + + ++  f ++++i  
  PHY93_00575|PHY93_00575 14 KAFNYGFAFLIFVWLVAgLVYLYDSYRDQKlVFITKNSIDL 54
                             6799************8245666655544313445555555 PP

>> Tetraspanin  Tetraspanin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.2   4.1e-06     0.036      69     131 ..       3      63 ..       2      79 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 4.1e-06
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX--HHH........HHHHHHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Tetraspanin  69 igalkenkcllltfsllllvlfllelaagilgfvfsdkargkvseiinnaievkyrddldlkk 131
                              i +lk+nk +l  f+    +l+++ l+ag+ ++ + + +++k+  i +n+i + y+++  l++
  PHY93_00575|PHY93_00575   3 IISLKNNKHILKAFNYGFAFLIFVWLVAGL-VYLYDSYRDQKLVFITKNSI-DLYQNSDALSS 63 
                              6799***********777777777777666.4444444478999999***9.88998877754 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (108 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       658  (0.0367003); expected 358.6 (0.02)
Passed bias filter:                      352  (0.019633); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.37u 0.19s 00:00:00.56 Elapsed: 00:00:00.33
# Mc/sec: 973.37
//
Query:       PHY93_00580|PHY93_00580  [L=168]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.1e-64  214.1   0.6    7.1e-64  213.9   0.6    1.0  1  AIRC      AIR carboxylase


Domain annotation for each model (and alignments):
>> AIRC  AIR carboxylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  213.9   0.6     4e-68   7.1e-64       2     146 ..       9     153 ..       8     155 .. 0.99

  Alignments for each domain:
  == domain 1  score: 213.9 bits;  conditional E-value: 4e-68
                              EEEEESSGGGHHHHHHHHHHHHHTT-EEEEEE--TTTSHHHHHHHHHHCHTTTEEEEEEEEESS--HHHHHHHHSSS-EEEEEE-- CS
                     AIRC   2 VgiimGSdsDlevmkkaaeilkelgveyevrvvSahrtpeelleyaeeaeerglkviIagAGgaahLpgvvaslttlPVigvPvks 87 
                              V++imGS sD+++mk+a+++l++++++ye +++Sahrtp+e+ ++a  a+++g+k+iIagAGgaahLpg++a++ttlPVigvP+ s
  PHY93_00580|PHY93_00580   9 VAVIMGSLSDWPTMKEATDVLEAFHIPYEHQILSAHRTPDEMRDFALLARDNGIKIIIAGAGGAAHLPGMTAAYTTLPVIGVPILS 94 
                              99************************************************************************************ PP

                              STTCCHHHHHHHHT--TTS--EE-SSTHHHHHHHHHHHHHTTT-HHHHHHHHHHHHHHH CS
                     AIRC  88 kalkgldsllSivqmPsgvpvatvaigkaknAallAaqilalkdeelaekleeyreelk 146
                              k+l+g+dsllSivqmP+g+pvatvaig+a+nAallA+qil+++d++l  k+e++r++++
  PHY93_00580|PHY93_00580  95 KTLQGVDSLLSIVQMPKGIPVATVAIGNAANAALLAIQILSIEDTTLGLKIENFRANQT 153
                              ******************************************************99875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (168 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       571  (0.0318478); expected 358.6 (0.02)
Passed bias filter:                      410  (0.022868); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.16s 00:00:00.56 Elapsed: 00:00:00.33
# Mc/sec: 1512.91
//
Query:       PHY93_05605|PHY93_05605  [L=122]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.3e-19   69.6   0.5    2.8e-19   69.4   0.5    1.1  1  Response_reg  Response regulator receiver domain
     0.0054   17.1   0.0     0.0068   16.8   0.0    1.3  1  FleQ          Flagellar regulatory protein FleQ


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.4   0.5   3.1e-23   2.8e-19       1     111 [.       7     118 ..       7     119 .. 0.88

  Alignments for each domain:
  == domain 1  score: 69.4 bits;  conditional E-value: 3.1e-23
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHH.ESEEEEESSCSSSEHHHHHHHHHHCT....TTSEEEEEESST CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeek.vdlillDinmpgmdGlellkeireed....pelpviiltahs 81 
                              +li+dDdp v+ +l+++le  g  +   a+dg++ale+l ++  + li++D++mp m+Gle+l++i+ ++     ++p++il+a++
  PHY93_05605|PHY93_05605   7 ILIIDDDPEVQVALKKVLEILGH-KSLCAKDGSAALEILSHDIkPALIFCDLMMPSMNGLEFLTKIKSDKdselASIPIVILSAEK 91 
                              8**********************.7778***********66544**********************9888667777*******988 PP

                              SHHHHHHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  82 eeedavealkagaddflsKpfdpeeLlkal 111
                              +   + + +    +d+lsK f++++L+ ++
  PHY93_05605|PHY93_05605  92 D---LGKQVTPFHVDYLSKAFKIDDLIGIV 118
                              7...55556666789***********9776 PP

>> FleQ  Flagellar regulatory protein FleQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   7.6e-07    0.0068       1      48 [.       6      54 ..       6     115 .. 0.65

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 7.6e-07
                     FleQ  1 kiLvidddaerrrdletiLeFlgeeveavsseel.saaleesssealav 48
                             kiL+iddd e + +l+ +Le lg++    ++ ++  + l+++ + al+ 
  PHY93_05605|PHY93_05605  6 KILIIDDDPEVQVALKKVLEILGHKSLCAKDGSAaLEILSHDIKPALIF 54
                             7************************999988887434444444444443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (122 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       395  (0.0220313); expected 358.6 (0.02)
Passed bias filter:                      356  (0.0198561); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.37u 0.20s 00:00:00.57 Elapsed: 00:00:00.34
# Mc/sec: 1088.71
//
Query:       PHY93_00585|PHY93_00585  [L=387]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.2e-49  166.8   0.0    4.9e-49  166.2   0.0    1.3  1  ATP-grasp        ATP-grasp domain
    5.8e-17   61.1   0.6    1.2e-16   60.1   0.6    1.5  1  PurK_C           Phosphoribosylaminoimidazole carboxylase C-t
    1.1e-12   48.0   0.1    2.5e-12   46.8   0.1    1.5  1  Dala_Dala_lig_C  D-ala D-ala ligase C-terminus
    4.6e-10   39.4   0.1    6.5e-10   38.9   0.1    1.2  1  CPSase_L_D2      Carbamoyl-phosphate synthase L chain, ATP bi
  ------ inclusion threshold ------
       0.04   13.2   0.0       0.18   11.0   0.1    2.0  2  ATPgrasp_ST      Sugar-transfer associated ATP-grasp
       0.14   11.6   0.1       0.38   10.2   0.0    1.7  2  ATP-grasp_5      ATP-grasp domain


Domain annotation for each model (and alignments):
>> ATP-grasp  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  166.2   0.0   1.6e-52   4.9e-49       2     171 .]     121     293 ..     120     293 .. 0.96

  Alignments for each domain:
  == domain 1  score: 166.2 bits;  conditional E-value: 1.6e-52
                              HTTT--B-EEEEECCHHHHHHHHHHH-SCEEEEESSS-CTTTTEEEECTCCGHHCHHHHC....GTTCEEEEE----SEEEEEEEE CS
                ATP-grasp   2 eklglpvprflaveskeeleeaaeelglpvvvKarrlgydGkGqsvvrseedleqaleal....keekvivEefvpfekElsvlvv 83 
                              +k+g+++++f+ +++ +++++++++ g+pvv+K++++gydG G+  +++e +++  +  l     ++ ++vE f+p+e El+++++
  PHY93_00585|PHY93_00585 121 QKAGIKIAPFARIQNINDVKAFCKTHGYPVVLKSAKGGYDGYGNCTIKNEGQIKASILKLkandPARVLLVEAFIPYEAELAIMIA 206
                              799**************************************************98776665776667789**************** PP

                              EETTC-EEE--EEEEEEETTEEEEEEECEE-SCHHHHHHHHHHHHHHHHHTSSEEEEEEEEEETTCTEEEEEEESS--GGGGGHHH CS
                ATP-grasp  84 rsaeGetafypvvetvqedgilrlsvapaevsekaqkkaeeiakkiveeLggvGvfavElFvledgellvnElapRpHnsGhvtld 169
                              r+++  +++yp+ +t+qe+ i++++ +pa++s+k+++++ e akk++ +++ +G+fa+E+F++++gel++nE apRpHnsGh+t++
  PHY93_00585|PHY93_00585 207 RNKSE-MVTYPIAHTIQENHICHYVSVPATLSNKIEAEIIENAKKAMTAIDAIGIFAFEFFLTKNGELYLNESAPRPHNSGHYTIE 291
                              *9986.*******************************************************************************9 PP

                              HB CS
                ATP-grasp 170 aa 171
                              +a
  PHY93_00585|PHY93_00585 292 GA 293
                              85 PP

>> PurK_C  Phosphoribosylaminoimidazole carboxylase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.1   0.6   4.2e-20   1.2e-16       2      54 ..     321     377 ..     321     379 .. 0.90

  Alignments for each domain:
  == domain 1  score: 60.1 bits;  conditional E-value: 4.2e-20
                   PurK_C   2 vMvNlLGedae....ekleellaipgahlHlYgKeearpgRKmGHitvvgdsaeele 54 
                              +M+NlLG+++     ++ ++ l++ + hlHlYgK+ ++ gRKmGH+t++g++++e++
  PHY93_00585|PHY93_00585 321 MMLNLLGTQNApaelKNASDFLKVSDGHLHLYGKKLSKVGRKMGHFTLLGNNQKEMQ 377
                              5*********7766666666*********************************9987 PP

>> Dala_Dala_lig_C  D-ala D-ala ligase C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.8   0.1   8.4e-16   2.5e-12       3     176 ..     121     282 ..     120     285 .. 0.87

  Alignments for each domain:
  == domain 1  score: 46.8 bits;  conditional E-value: 8.4e-16
                              HHTT--B--EEEEETTHHCH-H-HHHHHHHHHC-SSEEEEESSSST.TTTEEEESSGGGHHHHHHHHHTT-..SCEEEEE--.ESE CS
          Dala_Dala_lig_C   3 kaaGlpvvpyvvlekeeakeekkellekveeelgypvfVKpareGS.SvGvskveseeelkeaieeafkyd..ekvlvEeai.egr 84 
                              ++aG++++p++ +++ +  +       + +++ gypv+ K+a+ G    G   +++e ++k+ i +    d  +  lvE++i    
  PHY93_00585|PHY93_00585 121 QKAGIKIAPFARIQNINDVK-------AFCKTHGYPVVLKSAKGGYdGYGNCTIKNEGQIKASILKLKANDpaRVLLVEAFIpYEA 199
                              78899999998887665555.......5599**************6379***************9888887324578*****8889 PP

                              EEEEEEEETSSCEEEEEEEEE-SSSSS-HHHHHC.TT-EEESS----HHHHHHHHHHHHHHHHHTT--SEEEEEEEEETTTEEEEE CS
          Dala_Dala_lig_C  85 eievavlgneklevsevgeivvkkgfydyeakysddkaqlevpaklekeveekiqelalkaykaldlrGlaRvDfflteegeivln 170
                              e+ + +  n +  v+  ++++ +++ +   + y      + vpa+l++++e++i e a+ka +a+d+ G+    fflt++ge++ln
  PHY93_00585|PHY93_00585 200 ELAIMIARNKSEMVTYPIAHTIQENHI---CHY------VSVPATLSNKIEAEIIENAKKAMTAIDAIGIFAFEFFLTKNGELYLN 276
                              999999999999999999999888655...677......69********************************************* PP

                              EEESS- CS
          Dala_Dala_lig_C 171 EvNtlP 176
                              E  + P
  PHY93_00585|PHY93_00585 277 ESAPRP 282
                              *87666 PP

>> CPSase_L_D2  Carbamoyl-phosphate synthase L chain, ATP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.9   0.1   2.2e-13   6.5e-10       1     180 [.     112     282 ..     112     297 .. 0.81

  Alignments for each domain:
  == domain 1  score: 38.9 bits;  conditional E-value: 2.2e-13
                              SHHHHHHHHHHTT-BBSSEECSSBSSHHHHHHHHHHH-SSEEEEETTCC.TTTTEEEESSHHHHHHHHHHHHHHHHHHHSTS-EEE CS
              CPSase_L_D2   1 DkesakealkkinvpvvpssaapvetleealaiakeigyPviikaafgl.GGkGmrvarneeelaelvkkalaeakaafgnkqvlv 85 
                              Dk s ke  +k++++++p +    ++++++ a+ k++gyPv++k+a g+  G G   ++ne ++++++ k  a+ +     + +lv
  PHY93_00585|PHY93_00585 112 DKISEKESFQKAGIKIAPFARI--QNINDVKAFCKTHGYPVVLKSAKGGyDGYGNCTIKNEGQIKASILKLKANDP----ARVLLV 191
                              89999*************9998..*********************987537**************99988777775....6899** PP

                              EE--SSSEEEEEEEEEETTS-EEEEEEEEECCEC.TCCCCEEEES-SS--HHHHHHHHHHHHHHHHHHT-EEEEEEEEEEETTTTE CS
              CPSase_L_D2  86 ekslkgpkeiEvevlrDakgnvitvcerenslql.rtqkvievAPsqtLtdeerqalreaavkvvrevgvvgagtveflldpkske 170
                              e ++    e E+ ++  ++   ++   +   +q  +    + v P+ tL+++   ++ e+a k++ +++ +g   +ef l + ++e
  PHY93_00585|PHY93_00585 192 EAFIP--YEAELAIMIARNKSEMVTYPIAHTIQEnHICHYVSV-PA-TLSNKIEAEIIENAKKAMTAIDAIGIFAFEFFLTK-NGE 272
                              ***95..566666655544444444555555555276666655.76.8999999***************************7.999 PP

                              EEEEEEESS- CS
              CPSase_L_D2 171 yyviEvNtRl 180
                               y+ E  +R 
  PHY93_00585|PHY93_00585 273 LYLNESAPRP 282
                              9999988885 PP

>> ATPgrasp_ST  Sugar-transfer associated ATP-grasp
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.1   6.1e-05      0.18      13      80 ..     104     168 ..      93     187 .. 0.80
   2 ?   -1.2   0.0      0.32   9.6e+02     227     261 ..     243     277 ..     240     286 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 6.1e-05
              ATPgrasp_ST  13 raefplvddKlkfkelalraglkvpkllgvikeqaeiseleafvkeleegvviKpakg.sgGkGilvit 80 
                               + f+l+ dK+  ke  ++ag+k+      +   ++i++++af+k +   vv+K akg   G G   i+
  PHY93_00585|PHY93_00585 104 SKTFKLIGDKISEKESFQKAGIKIAP----FARIQNINDVKAFCKTHGYPVVLKSAKGgYDGYGNCTIK 168
                              45789*******************99....778899***********666****998624576666654 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 0.32
              ATPgrasp_ST 227 evlelaakaaeklpglgylGwDivldeekgplllE 261
                              e++e a+ka + +  +g++   + l+++++++l E
  PHY93_00585|PHY93_00585 243 EIIENAKKAMTAIDAIGIFAFEFFLTKNGELYLNE 277
                              788999***********************998866 PP

>> ATP-grasp_5  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0   0.00013      0.38      16      54 ..     117     155 ..     111     176 .. 0.91
   2 ?   -2.5   0.1      0.94   2.8e+03      43      83 ..     211     251 ..     199     255 .. 0.70

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00013
              ATP-grasp_5  16 kelleaygipvvetrlassaeeaveaaeeigypvvlKiv 54 
                              ke ++  gi+++++  +++ +++ + +++ gypvvlK +
  PHY93_00585|PHY93_00585 117 KESFQKAGIKIAPFARIQNINDVKAFCKTHGYPVVLKSA 155
                              6678999******************************76 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 0.94
              ATP-grasp_5  43 eeigypvvlKivspdilhKtdvgGvrlnlkdaeevraaaee 83 
                              e + yp++  i+ ++i+h   v     n  +ae +++a ++
  PHY93_00585|PHY93_00585 211 EMVTYPIAHTIQENHICHYVSVPATLSNKIEAEIIENAKKA 251
                              45689999999999999977776666655555555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (387 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       636  (0.0354733); expected 358.6 (0.02)
Passed bias filter:                      537  (0.0299515); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.41
# Mc/sec: 2865.09
//
Query:       PHY93_00590|PHY93_00590  [L=501]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.3e-12   45.7   0.0    1.2e-11   44.6   0.0    1.6  1  GATase_7      Glutamine amidotransferase domain
    1.2e-09   37.9   0.0    2.2e-09   37.0   0.0    1.4  1  Pribosyltran  Phosphoribosyl transferase domain
      6e-09   36.2   0.0    1.6e-08   34.9   0.0    1.6  1  GATase_6      Glutamine amidotransferase domain
  ------ inclusion threshold ------
      0.033   13.7   0.0       0.05   13.1   0.0    1.3  1  PRTase_2      Phosphoribosyl transferase


Domain annotation for each model (and alignments):
>> GATase_7  Glutamine amidotransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.6   0.0   2.7e-15   1.2e-11       7     107 ..      89     205 ..      85     233 .. 0.89

  Alignments for each domain:
  == domain 1  score: 44.6 bits;  conditional E-value: 2.7e-15
                 GATase_7   7 idseagaQPmvssedgrlvivfnGeiyNykelreeLeak.ghrfrtksDtevllallea................ewgeealerln 75 
                              id++++ QPm+ +    + +v+nG i+Ny +l++ L+ + + +  t+ D evl++ll++                  +++++++ +
  PHY93_00590|PHY93_00590  89 IDKKRDIQPMMINYPYGIGMVHNGNIVNYFQLKQYLQVEkDRHLFTQNDLEVLINLLSDglserskstfsfdqfqMAIQNIFDKAH 174
                              78999******987888*******************965267889*************9***************999********* PP

                 GATase_7  76 GmfAfaiwdeeekrlllaRDrlGikPLyyged 107
                              G f+++ + +++  l++ RD+ G +PL++ge+
  PHY93_00590|PHY93_00590 175 GGFSVVGLLADK-GLFAFRDPHGLRPLILGER 205
                              ******999888.8**************9986 PP

>> Pribosyltran  Phosphoribosyl transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.0   0.0   4.9e-13   2.2e-09      22     124 ..     311     420 ..     299     436 .. 0.84

  Alignments for each domain:
  == domain 1  score: 37.0 bits;  conditional E-value: 4.9e-13
                              EEEE--GGGEEEEEEETTTHHHHHHHHHHSTT-EE.-EEEEEE-TTT--EE...............EE----TTSEEEEE-SEESS CS
             Pribosyltran  22 ileeyngkpdvvvgiargGvpfakiladeLevpla.yvrkvkyrpdgseeaargssdes.......rlledpagkkVliVDDildt 99 
                              +++e + +pd+vv+i+  + + a  l+  L++p+  ++ k +y + +    ++  s ++         +++++gk +l+VDD +  
  PHY93_00590|PHY93_00590 311 LIDEGKISPDIVVPIPETSRVAAISLSETLKIPYReVLIKNRYIQRSFILNTQ-ESRNRavqlkltAIASEIKGKNILLVDDSIVR 395
                              56777999*************************87366666666666555554.3444479999999******************* PP

                              SHHHHHHHHHHHCC-BSEEEEEEEE CS
             Pribosyltran 100 GgTllaalelLkekgpeevriavlv 124
                              G+T ++++e +ke+g+ ev +a  +
  PHY93_00590|PHY93_00590 396 GTTSKRIIEMVKEAGAREVYFASTC 420
                              *******************999876 PP

>> GATase_6  Glutamine amidotransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.9   0.0   3.5e-12   1.6e-08      10     124 ..      65     204 ..      57     212 .. 0.80

  Alignments for each domain:
  == domain 1  score: 34.9 bits;  conditional E-value: 3.5e-12
                 GATase_6  10 vedevalaHvRlaivgla.......eeega.qPf.psedgrlllvhNGeiynykelreelpalkglafrsrsDtevllall..... 81 
                              +++++ +aH+R ++vg +       +++++ qP+  ++  ++ +vhNG i ny +l++ l+ +k +++ +++D evl++ll     
  PHY93_00590|PHY93_00590  65 FSGQMSIAHTRYSTVGPNsgpknaiDKKRDiQPMmINYPYGIGMVHNGNIVNYFQLKQYLQVEKDRHLFTQNDLEVLINLLsdgls 150
                              5677899********9863333332357889***9899999**************************************9989998 PP

                 GATase_6  82 ...........eelG...eevlerlrGmfafaiwdkrentlilardrlgvkplyyav 124
                                                +  ++++ G f+++    + ++l+  rd +g +pl+ ++
  PHY93_00590|PHY93_00590 151 erskstfsfdqF--QmaiQNIFDKAHGGFSVVGLL-ADKGLFAFRDPHGLRPLILGE 204
                              877766555332..255677778999988887665.667777889999999998875 PP

>> PRTase_2  Phosphoribosyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   1.1e-05      0.05      92     155 ..     356     417 ..     294     426 .. 0.70

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 1.1e-05
                 PRTase_2  92 veelleFeEeHSHAtdhllyaedeellaaakelvLvDDEistGktalnliralqeklprkryvv 155
                               + +l+ +E+   A++  l a  +e+  + k+++LvDD i  G+t  ++i+ ++e+  r+ y  
  PHY93_00590|PHY93_00590 356 RSFILNTQESRNRAVQLKLTAIASEI--KGKNILLVDDSIVRGTTSKRIIEMVKEAGAREVYFA 417
                              56667777777777777777666555..5688***********************999988765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (501 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       500  (0.0278878); expected 358.6 (0.02)
Passed bias filter:                      453  (0.0252663); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.37
# Mc/sec: 4062.16
//
Query:       PHY93_00595|PHY93_00595  [L=382]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.2e-17   63.5   0.0      3e-10   40.1   0.0    2.1  2  SAICAR_synt  SAICAR synthetase


Domain annotation for each model (and alignments):
>> SAICAR_synt  SAICAR synthetase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.6   0.0   7.4e-09   0.00013       2      64 ..       8      74 ..       7     102 .. 0.78
   2 !   40.1   0.0   1.7e-14     3e-10      84     249 ..     153     312 ..     108     315 .. 0.84

  Alignments for each domain:
  == domain 1  score: 21.6 bits;  conditional E-value: 7.4e-09
                             EEE-SSEEEEE-SSTTEEEEEEESEEEECCC.TEEEEETTHHHHHHHHHHHHHHHHH..H.--BSEE CS
              SAICAR_synt  2 lyeGKvrdvYeledddklllvakDrisAfdv.vlkeeipgKGkvltqlsafwfekle..k.ipnhli 64
                             ly+G v++v    ++++ll++++Dr s+fd+  +++ ++gKG+ l  + + +f++le  k  +n + 
  PHY93_00595|PHY93_00595  8 LYRGSVKNVRGEVSAESLLFEFSDRYSVFDWgEMPDLLSGKGAALAIMGKSFFQYLEnpKnWENLFS 74
                             7999999999877889**************64899**********************4423444443 PP

  == domain 2  score: 40.1 bits;  conditional E-value: 1.7e-14
                              EESEEEEEE.EE--HHH........HH.....HH..T--TT-EEEEEEEEEEE--CCCT.S-EE-HHHHH.HTT.-HHHHHHHHHH CS
              SAICAR_synt  84 mlpvEvvvR.gyltGslwkey.kksgk.vcgirlpeglkegeklpepiftpstKaeegehDeniseeevvealg.teeeaeeieel 165
                              ++p+Ev++R g+  G  +++   ++++      ++e  + g+ l++p++++stK e g  D  +s+ e+ +++g +++e++e++++
  PHY93_00595|PHY93_00595 153 LVPLEVIFRiGLSEGNSLSKRlGNNQNlWKEFGFNETPTGGSLLKKPVIDFSTKLERG--DRYLSYTEACDIAGlNSKEWTELHQM 236
                              6788888885566676654431333331344566667777999**************8..9*********9999*9********** PP

                              HHHHHHHHHHHHHHTTEEEEEEEEEEEEETT...TTEEEEES--.STTTEEEEETTT.....GGGB-STHHHHTT-STHHHHHHHH CS
              SAICAR_synt 166 alavyekaaelaaergiilvDtKlEFGldee...dgelvLaDevltpDssRfwdaetyeegkeqeslDKqfvRdwleeveekwkek 248
                              +  +   + ++ +  g+ l D K+E+ ++++   + +++L+D +   D  R+  + +        s+ K+f+R+  ++  ++w ++
  PHY93_00595|PHY93_00595 237 THLIALNLFHFHHMIGLELWDGKIEVAFTKNpdgTRSFMLVDSI-GIDELRLLYKGK--------SFSKEFLRESYKN--SDWYKN 311
                              *************************999865433558*******.********9888........**********999..888777 PP

                              H CS
              SAICAR_synt 249 l 249
                              l
  PHY93_00595|PHY93_00595 312 L 312
                              6 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (382 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       365  (0.0203581); expected 358.6 (0.02)
Passed bias filter:                      303  (0.0169); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.19s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 2879.62
//
Query:       PHY93_00600|PHY93_00600  [L=434]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.2e-68  228.2   0.0      1e-67  227.7   0.0    1.2  1  GARS_A           Phosphoribosylglycinamide synthetase, ATP-gr
    8.4e-27   93.8   0.2    2.2e-26   92.5   0.2    1.7  1  GARS_N           Phosphoribosylglycinamide synthetase, N doma
    3.8e-21   75.2   0.0    6.7e-21   74.4   0.0    1.4  1  GARS_C           Phosphoribosylglycinamide synthetase, C doma
    4.9e-05   23.4   0.0     0.0001   22.4   0.0    1.5  1  ATP-grasp_3      ATP-grasp domain
     0.0015   18.1   0.2     0.0029   17.2   0.2    1.3  1  ATP-grasp_2      ATP-grasp domain
  ------ inclusion threshold ------
      0.042   13.4   0.0      0.079   12.5   0.0    1.4  1  ATP-grasp_4      ATP-grasp domain
      0.061   12.9   0.0       0.14   11.7   0.0    1.6  1  ATP-grasp        ATP-grasp domain
       0.14   12.4   0.1       0.23   11.7   0.1    1.4  1  Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding doma


Domain annotation for each model (and alignments):
>> GARS_A  Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  227.7   0.0   4.5e-71     1e-67       1     194 []     104     297 ..     104     297 .. 0.99

  Alignments for each domain:
  == domain 1  score: 227.7 bits;  conditional E-value: 4.5e-71
                              HBHHHHHHHHHHTT--B--EEEESSHHHHHHHHHHHSSSEEEEEESC-GGGT-EEEESSHHHHHHHHHHHCTS-TTCCCCSSEEEE CS
                   GARS_A   1 asKsfakdllkkagiptaeyeaftdpeeakeyieeatakalVvKadglaagKgvivakseeealkavkeilekkkfGeagekvviE 86 
                              +sK+fak+++++ag+pta +++f ++e a ++i++  +  +VvK dglaagKgv+v+++++ea++av+ ++++k  Ge  ++++iE
  PHY93_00600|PHY93_00600 104 TSKAFAKKIMNEAGVPTAAFSEFFEAEIALQFIHSSPHTKMVVKCDGLAAGKGVVVCQNKTEAINAVNALMKDKLLGENIDHIIIE 189
                              79************************************************************************************ PP

                              E---SEEEEEEEEECTTEEEE---BEEEEEEECCCEEEEECECEEEES-TTS-HHHHHHHHHHTHHHHHHHHHCTT---EEEEEEE CS
                   GARS_A  87 elleGeEvsllalvdgktvkplplaqdhkrvlegDkgpnTGGmGayspapvvteellekikeeileptveglkkegipfkGvLyag 172
                              ++leG+Evs +al+dg+++  l +a dhkr+ +gD gpnTGGmG++spa++++ +++  i+e+++ p+++ +kk+g+pf+G+L+ag
  PHY93_00600|PHY93_00600 190 DFLEGIEVSAFALCDGESFSFLGTACDHKRLRDGDMGPNTGGMGVFSPASIFSIADELWINENVFAPMLNTMKKNGTPFTGILFAG 275
                              ************************************************************************************** PP

                              EEEETTEEEEEEEESS--TTCH CS
                   GARS_A 173 lmlvedgpkvlefnvRfgDpet 194
                              lm +++g  vlefnvRfgDpet
  PHY93_00600|PHY93_00600 276 LMKTKHGWSVLEFNVRFGDPET 297
                              *********************8 PP

>> GARS_N  Phosphoribosylglycinamide synthetase, N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   92.5   0.2   9.6e-30   2.2e-26       1      90 []       1     103 [.       1     103 [. 0.97

  Alignments for each domain:
  == domain 1  score: 92.5 bits;  conditional E-value: 9.6e-30
                              EEEEEEESSHHHHHHHHHHTTSTTESEEEEEE--CGG..............TTHHHHHHHHHHCTESEEEE-SHHHHHTTHHHHHH CS
                   GARS_N   1 mkvLvvGsGGRehalawklaqspkvekvyvapgNagt..............edlealvefakeekidlvvvGpeapLvaGvadale 72 
                              mk+L++GsGGReha+a+kl+ s++v+ ++v pgNag+              +d+eal++fa +e+i l++vGpea L  G+++ ++
  PHY93_00600|PHY93_00600   1 MKILIIGSGGREHAIAHKLSLSSDVSGIIVSPGNAGMektlpgiktqkiaaDDIEALLSFALKEQIALTIVGPEATLSLGIVNLFR 86 
                              9********************************************99999988999*****************************7 PP

                              HHHT-EEES--CCCCHHH CS
                   GARS_N  73 eekgikvfGpskeaAqlE 90 
                              ++ ++ ++G +kea+ lE
  PHY93_00600|PHY93_00600  87 AN-NLLIVGSTKEASLLE 103
                              77.************998 PP

>> GARS_C  Phosphoribosylglycinamide synthetase, C domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.4   0.0     3e-24   6.7e-21       2      79 ..     340     433 ..     339     434 .] 0.92

  Alignments for each domain:
  == domain 1  score: 74.4 bits;  conditional E-value: 3e-24
                              EEEEEEETTTTSS....--ST-EEBS.......TTEEEEESSEE.....EEE-SSEEEEEEEEESSHHHHHHHHHHHHTTCB-TTE CS
                   GARS_C   2 vgvvlaskGYPgs....yekgkeitg.......egvkvfhagtk.....lvtsGGRvlavvavgetleeArakayeavkkikfegl 71 
                              v vv+a++GYPg+    +++g++i+        ++ ++f ag+      lvt+GGR+l+++a+ e+++ Ar++ay+ ++ki+f+g+
  PHY93_00600|PHY93_00600 340 VHVVMAAHGYPGTegvkVRSGDKIQFdknfnldSKDYLFFAGVDgigsdLVTKGGRILGITALSEKFSSARKNAYDLISKIHFDGA 425
                              78*********887777899999966999***96667*****9999999************************************* PP

                              E--STTTH CS
                   GARS_C  72 fyRkDIGa 79 
                              ++R+DI++
  PHY93_00600|PHY93_00600 426 QFRRDIAN 433
                              ******96 PP

>> ATP-grasp_3  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.4   0.0   4.6e-08    0.0001       8      91 ..     109     213 ..     104     234 .. 0.79

  Alignments for each domain:
  == domain 1  score: 22.4 bits;  conditional E-value: 4.6e-08
                              HHHHTTT.S---........-EESS--..........SSSEEEEESS-------B--SS--TTE...................EEE CS
              ATP-grasp_3   8 ykkLkeagvkvP....tkleaeeleee..........ekklvvKprdGaggesvrvveekeeaeaaieeve............lvq 67 
                              +kk++++ + vP    ++  ++    e            k+vvK    a+g++v+v ++k ea +a++ +             ++ 
  PHY93_00600|PHY93_00600 109 AKKIMNE-AGVPtaafSEFFEA----EialqfihsspHTKMVVKCDGLAAGKGVVVCQNKTEAINAVNALMkdkllgenidhiIIE 189
                              4555555.45552244222222....2334467777799******999************99988888777999************ PP

                              E---SEEEEEEEEE.SSSEEEEEE CS
              ATP-grasp_3  68 efieGkplSvsllsdgekvlvlav 91 
                              +f+eG ++S+ +l+dge +++l +
  PHY93_00600|PHY93_00600 190 DFLEGIEVSAFALCDGESFSFLGT 213
                              ******************999965 PP

>> ATP-grasp_2  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.2   1.3e-06    0.0029       7      99 ..     109     190 ..     106     198 .. 0.93

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 1.3e-06
                              HHHHHHCTT----SEEEESSHHHHHHHHHHHTSSSEEEEE--SSSTCCCTTCEEEESSHHHHHHHHHCCTTSEEE-TTS-TT-EEE CS
              ATP-grasp_2   7 akeilakygvkvpegevaesaeeaeeaakklgekelvvKaQvlaGGRGKagGvklvkskeeakeaakellgkelvtkqtgkeGkkv 92 
                              ak+i+++ gv+++ +   ++ae a + +++  ++++vvK+  la G+    Gv ++++k+ea +a+++l+  +l        G+++
  PHY93_00600|PHY93_00600 109 AKKIMNEAGVPTAAFSEFFEAEIALQFIHSSPHTKMVVKCDGLAAGK----GVVVCQNKTEAINAVNALMKDKLL-------GENI 183
                              89**************************************9998876....69*********************9.......9999 PP

                              --EEEEE CS
              ATP-grasp_2  93 ekvlvee 99 
                              +++++e+
  PHY93_00600|PHY93_00600 184 DHIIIED 190
                              9999987 PP

>> ATP-grasp_4  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   3.5e-05     0.079       5      76 ..     144     207 ..     141     226 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 3.5e-05
              ATP-grasp_4   5 vviKPsvgffSlGVykinneeewkaavaaieeeleqakeeykeevveeesflvEeyieGeEfavdayfdeeG 76 
                              +v+K    ++  GV +++n++e  +av+a+ ++      +   e  + +++++E+++eG E++  a+ d e 
  PHY93_00600|PHY93_00600 144 MVVKCDGLAAGKGVVVCQNKTEAINAVNALMKD------KLLGE--NIDHIIIEDFLEGIEVSAFALCDGES 207
                              78999999999*****************99988......23333..34789***********9988887665 PP

>> ATP-grasp  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   6.4e-05      0.14       2      62 ..     114     182 ..     113     205 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 6.4e-05
                              HTTT--B-EEEEECCHH.HHHHHHHHH-SCEEEEESSS-CTTTTEEEECTCCGHHCHHHHC........G CS
                ATP-grasp   2 eklglpvprflaveske.eleeaaeelglpvvvKarrlgydGkGqsvvrseedleqaleal........k 62 
                              +++g+p++ f    ++e +l+ + ++   ++vvK + +   GkG  v++++ ++ +a++al        +
  PHY93_00600|PHY93_00600 114 NEAGVPTAAFSEFFEAEiALQFIHSSPHTKMVVK-CDGLAAGKGVVVCQNKTEAINAVNALmkdkllgeN 182
                              578999*9999988888577777778899*****.888889*****************999444444433 PP

>> Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.1    0.0001      0.23       1      70 [.       3      65 ..       3     111 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.0001
                             EEEE--SHHHHHHHHHHHCTCCT-GEEEEEESSHHHHHHHHCHHTTTCEEEEE--TTTHHHHHHHHHTTS CS
          Sacchrp_dh_NADP  1 vliiGaGsvGqavaellarhfdvdaeitvadrskeklealaakalgvrfeaialdaenyeavLaallkeg 70
                             +liiG+G+  +a+a++l+ ++dv    +++++ ++++e+++     + ++++++ a+++ea+L+ +lke+
  PHY93_00600|PHY93_00600  3 ILIIGSGGREHAIAHKLSLSSDV--SGIIVSPGNAGMEKTL-----PGIKTQKIAADDIEALLSFALKEQ 65
                             89*********************..99*********99997.....78899999999****999889887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (434 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       356  (0.0198561); expected 358.6 (0.02)
Passed bias filter:                      332  (0.0185175); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.58u 0.30s 00:00:00.87 Elapsed: 00:00:00.49
# Mc/sec: 2638.27
//
Query:       PHY93_00605|PHY93_00605  [L=189]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.6e-49  167.4   0.0    2.9e-49  167.3   0.0    1.0  1  Formyl_trans_N  Formyl transferase


Domain annotation for each model (and alignments):
>> Formyl_trans_N  Formyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  167.3   0.0   1.6e-53   2.9e-49       2     181 .]       5     183 ..       4     183 .. 0.99

  Alignments for each domain:
  == domain 1  score: 167.3 bits;  conditional E-value: 1.6e-53
                              EEEEEESESSHHHHHHHHHHHHTTSECEEEEEEESCTTEHCHHHHHHCCHCCCECHHCCSCCCCCCCHHHHHHHHCTT-SEEEEES CS
           Formyl_trans_N   2 kivvlisgtgsnlqalldalkkgsleadvvlvvsnkdkaaglekaeaasiptkvfeekkleprsqfeeelaeelkelkadlivlag 87 
                              k+++l+sg+gsn++a+++ + ++++ a+vv+v snk+ a  +++ae ++ip++++ +kk e+r+ ++e +  +l e+k+d i+lag
  PHY93_00605|PHY93_00605   5 KLAILASGSGSNAEAIMKWAATSDI-AEVVCVGSNKKAAMVISRAEIFNIPKFTVLKKKNESRESYDERMSGALSEYKPDWIILAG 89 
                              89********************999.7*********************************************************** PP

                              --S---HHHHHSSTTSEEEEESSSTTTTBSS-HHHHHHHTTSSEEEEEEEE--SSSSTS-EEEEEEEE--TT--HHHHHHHHHHHH CS
           Formyl_trans_N  88 ymkllpkelvqavrlkilniHpSLLPrfkGaaaiqraleaGdketGvtihfvdeelDtGailaqkkveiiaedtkeeleqrvadae 173
                              +m+ll++ ++++++++++niHpSLLP f+G++ +  a++aG+ e+G+t+h+vd +lD Gai+ q   + i+ ++ e+ ++r    e
  PHY93_00605|PHY93_00605  90 FMRLLTESFLEKFNHQVINIHPSLLPMFPGLDGYGDAFKAGVIESGCTVHYVDAGLDSGAIIEQRIFPMIPGESFEDFKKRGLSIE 175
                              ************************************************************************************** PP

                              HHHHHHHH CS
           Formyl_trans_N 174 hkalveal 181
                              +k ++e+l
  PHY93_00605|PHY93_00605 176 NKFYPEVL 183
                              *****996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (189 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       372  (0.0207485); expected 358.6 (0.02)
Passed bias filter:                      357  (0.0199119); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.42
# Mc/sec: 1361.38
//
Query:       PHY93_00610|PHY93_00610  [L=1020]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.2e-36  124.4   0.0    5.7e-21   75.3   0.0    2.4  2  AIRS_C          AIR synthase related protein, C-terminal doma
    4.7e-20   72.0   0.4      7e-12   45.8   0.1    2.5  2  AIRS            AIR synthase related protein, N-terminal doma
    4.9e-20   71.8   2.1    1.6e-19   70.2   2.0    2.0  2  FGAR-AT_linker  Formylglycinamide ribonucleotide amidotransfe
  ------ inclusion threshold ------
      0.039   14.1   0.0       0.17   12.1   0.0    2.2  3  PurS            Phosphoribosylformylglycinamidine (FGAM) synt
       0.11   12.4   0.2       0.37   10.7   0.0    1.9  2  MF_alpha_N      Mating factor alpha precursor N-terminus


Domain annotation for each model (and alignments):
>> AIRS_C  AIR synthase related protein, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   75.3   0.0   1.6e-24   5.7e-21       1     148 [.     456     601 ..     456     607 .. 0.92
   2 !   46.7   0.0     1e-15   3.6e-12       2     152 ..     864    1004 ..     863    1007 .. 0.83

  Alignments for each domain:
  == domain 1  score: 75.3 bits;  conditional E-value: 1.6e-24
                              STTEEEEEEET....SSCTCCHHHHHHHCHHHCTSHTTTSEHHHHHHHHHHHHHHHHHHHHHTTECEEEE--TTHHHHHHHHHHHT CS
                   AIRS_C   1 kpGdvliltgs....lGlggagtslkrkileeeglddsavqlgdvlleptliyvkralaalkglvkaahDvTgGGLlgalaemapa 82 
                              +pGd++++ g+    +G++ga++s+ +     +g++ s vq+gd++  ++l +   ++  l gl ++++D ++GGL++++ ema+ 
  PHY93_00610|PHY93_00610 456 RPGDLIVMAGGrigkDGIHGATFSSME---LVDGVPSSVVQIGDPITQKRLGDFLVEARKL-GLFNSVTDNGAGGLSSSVGEMAQL 537
                              79********************77766...567888889*********9999999999998.************************ PP

                              TTEEEEEECGTHHHHHHHHHHHHHHHCSTTTEEEEEEEHGGHHHHHHHHHHTTCCCEEEEEEEEES CS
                   AIRS_C  83 sgvgaeidldkvpifdelesplemllsensGrllvavppeeadavlaileeeglpeaavIGevtak 148
                                 ga+++l+k  +  +  sp+e+++se+++r+ ++vp+++ da+l++ +++ + ea+vIGe  ++
  PHY93_00610|PHY93_00610 538 T-NGANVELEKALVKYPGLSPFELMISESQERMTFSVPKDSIDAFLELSKKRSV-EASVIGEFNNS 601
                              8.********88888888899********************************9.8******8776 PP

  == domain 2  score: 46.7 bits;  conditional E-value: 1e-15
                               TTEEEEEEETSSCTCCHHHHHHHCHHHCTSHTTTSEHHHHHHHHHHHHHHHHHHHH..HTTECEEEE--TTHHHHHHHHHHHTT CS
                   AIRS_C    2 pGdvliltgslGlggagtslkrkileeeglddsavqlgdvlleptliyvkralaal..kglvkaahDvTgGGLlgalaemapas 83  
                                Gd+++l+g++ l   + ++ +++ e+ ++++   +   +l ++++++++r +  +  ++l+ + hD+++GGL+ alae + + 
  PHY93_00610|PHY93_00610  864 TGDLVYLIGGDLLEFTSAFELAELYEDYEVQY---P-LPALETNRQVELYRQIHKAmkNNLIESGHDISDGGLILALAEKMMGT 943 
                               59********9999999999999999999874...3.2233333444444444444669************************* PP

                               TEEEEEECGTHHHHHHHHHHHHHHHCSTTTEEEEEEEHGGHHHHHHHHHHTTCCCEEEEEEEEESSSEE CS
                   AIRS_C   84 gvgaeidldkvpifdelesplemllsensGrllvavppeeadavlaileeeglpeaavIGevtakeels 152 
                                 g++i+ld    +de  s +  l+ e+ Gr lv+v+p +++a+ +il+    + +  +Ge+t++++l 
  PHY93_00610|PHY93_00610  944 PMGIRISLD----IDEN-SLAGFLFNESAGRILVTVKPSNEKAFEEILKGF--H-FMLLGETTNSGSLF 1004
                               *********....6665.78999**************************87..4.899****9998665 PP

>> AIRS  AIR synthase related protein, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.8   0.1   1.9e-15     7e-12       3      94 .]     315     441 ..     313     441 .. 0.91
   2 !   23.9   0.0   1.4e-08   4.9e-05       6      94 .]     729     850 ..     711     850 .. 0.87

  Alignments for each domain:
  == domain 1  score: 45.8 bits;  conditional E-value: 1.9e-15
                              SE.........EEEEEEEEE.EECCTCCCCHHHHHHHHHHHHHH..TTTEEEEEEEEEEEEC.....................HHH CS
                     AIRS   3 aa.........vvvttdshnrpvlvepvhfiGakavavnlsDla..amGArPlalllslalp.....................wle 56 
                              a+         v++++++hn+p++++p+ + + +++ ++ +D++    GA+P+a +++++l                      + e
  PHY93_00610|PHY93_00610 315 AGivrfddtvdVCIKVETHNSPSALDPYGG-ALTGILGVNRDILgvGQGAKPIANTNVFCLAennyfednkisiplllknpdrIKE 399
                              55444444445699****************.************965679*****9***************************9999 PP

                              HHHHHHHHHHHHTT-EEEEEEEEEESS....EEEEEEEEEEE CS
                     AIRS  57 evvrglaeaaeelgvplvgGdtsfsne....ptisvtavGlv 94 
                              +v +g+++++++ g+p+v G   f+ +    p++ ++++G++
  PHY93_00610|PHY93_00610 400 GVHQGVQDGGNKSGIPTVNGAFVFDRDfvgkPLVFCGTIGVM 441
                              ************************988999*********986 PP

  == domain 2  score: 23.9 bits;  conditional E-value: 1.4e-08
                              EEEEEEEE.EECCTCCCCHHHHHHHHHHHHHHTTTEEEE..EEEEEEEEC................HHHHHHHHHHHHHHHTT-EE CS
                     AIRS   6 vvttdshnrpvlvepvhfiGakavavnlsDlaamGArPl..alllslalp................wleevvrglaeaaeelgvpl 73 
                              +++    ++ +  + + + ++ av +++++ +++GA P   +l++++++p                +l ++ + l +   ++g+p 
  PHY93_00610|PHY93_00610 729 AIASGVCPKVSKFDTYLM-AEYAVDEAVRNAVCVGANPDemVLVDNYCWPdpiasdrnpdaelklaQLVRASKALYDISIAYGMPF 813
                              555554555566666666.*******************7668899******************999999999************** PP

                              EEEEEEEESS................EEEEEEEEEEE CS
                     AIRS  74 vgGdtsfsne................ptisvtavGlv 94 
                              v+G+ s +n+                pt+ vta+G v
  PHY93_00610|PHY93_00610 814 VSGKDSMKNDfigmneyqekmkisvpPTLLVTAMGRV 850
                              ******8888888888999999999999999999976 PP

>> FGAR-AT_linker  Formylglycinamide ribonucleotide amidotransferase linker domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.2   2.0   4.5e-23   1.6e-19       1      50 []     209     258 ..     209     258 .. 0.98
   2 ?   -3.6   0.0       4.9   1.8e+04      14      33 ..     765     787 ..     763     792 .. 0.70

  Alignments for each domain:
  == domain 1  score: 70.2 bits;  conditional E-value: 4.5e-23
           FGAR-AT_linker   1 LeeankelglaLsdeEidylqeafeklgrnPtdvElemfaqvwSEHCrHK 50 
                              Le+ n ++ +aLs +E++ +++++++l+r PtdvE+e++aq wSEHC+HK
  PHY93_00610|PHY93_00610 209 LEKMNHDNCWALSRDEMNHIKNYYKSLKRSPTDVEMEVIAQSWSEHCKHK 258
                              7999*********************************************9 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 4.9
           FGAR-AT_linker  14 deEidylqeaf....eklgrnPtd 33 
                              ++E+  + +++     +  rnP d
  PHY93_00610|PHY93_00610 765 PDEMVLVDNYCwpdpIASDRNP-D 787
                              6899999999877764466776.4 PP

>> PurS  Phosphoribosylformylglycinamidine (FGAM) synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -4.0   0.0       4.8   1.7e+04      51      71 ..      52      72 ..      38      74 .. 0.74
   2 ?   12.1   0.0   4.6e-05      0.17       4      77 .]     100     172 ..      98     172 .. 0.90
   3 ?   -3.6   0.0       3.8   1.4e+04       3      21 ..     329     347 ..     328     350 .. 0.78

  Alignments for each domain:
  == domain 1  score: -4.0 bits;  conditional E-value: 4.8
                             HHHHHHHHHHHHHTTS-TTTE CS
                     PurS 51 eeaeeeveemceklLaNpvie 71
                             e+  +++++ +++++  +v+e
  PHY93_00610|PHY93_00610 52 EKPIANIRAYAQEVFTDSVVE 72
                             455678888999999999988 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 4.6e-05
                              EEEEE-TTS--HHHHHHHHHHHHT.THTTEE.EEEEEEEEEEEEE-SSHHHHHHHHHHHHHHTTS-TTTEEEEEEE CS
                     PurS   4 veVtlKkgvlDpqGkavkkalksl.gyeeve.dvrvgkyieleleaedeeeaeeeveemceklLaNpviedyeiel 77 
                              +++++++gv D  + a  +alk +  + +ve +v  g ++ +e e+        ++e ++ + LaN   ++++i++
  PHY93_00610|PHY93_00610 100 IDISYRPGVTDNSAHAALEALKLIpALASVEmKVASGTMYFIESEKPM---NSIQLEGLAYEKLANNLLHKVTITI 172
                              89**********************888889989*******99999664...3579****************99975 PP

  == domain 3  score: -3.6 bits;  conditional E-value: 3.8
                              EEEEEE-TTS--HHHHHHH CS
                     PurS   3 kveVtlKkgvlDpqGkavk 21 
                              kve    ++ lDp G a++
  PHY93_00610|PHY93_00610 329 KVETHNSPSALDPYGGALT 347
                              6677778999***999876 PP

>> MF_alpha_N  Mating factor alpha precursor N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0    0.0001      0.37      24      75 ..     564     614 ..     556     619 .. 0.86
   2 ?   -3.0   0.1       1.9     7e+03      57      68 ..     995    1006 ..     991    1010 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.0001
               MF_alpha_N  24 tedeeeeaaevPaeAvigyldlegdndvallpfsnstssGllfvNtTileqa 75 
                              ++ +e+ + +vP++ + ++l+l +++ v+   + +  +sG l +N   +e a
  PHY93_00610|PHY93_00610 564 ES-QERMTFSVPKDSIDAFLELSKKRSVEASVIGEFNNSGFLHINYEGVEVA 614
                              33.448899************************************7666655 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 1.9
               MF_alpha_N   57 snstssGllfvN 68  
                                ++t+sG lfv 
  PHY93_00610|PHY93_00610  995 GETTNSGSLFVK 1006
                               5789******96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1020 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       493  (0.0274974); expected 358.6 (0.02)
Passed bias filter:                      449  (0.0250432); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.75u 0.27s 00:00:01.02 Elapsed: 00:00:00.45
# Mc/sec: 6765.24
//
Query:       PHY93_19810|PHY93_19810  [L=85]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
  ------ inclusion threshold ------
      0.062   13.2   0.1      0.088   12.7   0.1    1.2  1  Sec31        Protein transport protein SEC31
       0.16   11.3   0.1       0.34   10.3   0.1    1.6  1  MttA_Hcf106  mttA/Hcf106 family


Domain annotation for each model (and alignments):
>> Sec31  Protein transport protein SEC31
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   9.9e-06     0.088      28      46 ..      39      57 ..      31      60 .. 0.92

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 9.9e-06
                    Sec31 28 DLPlkvkeKpsRAKavsva 46
                             DLP  ++eK    Kavsv 
  PHY93_19810|PHY93_19810 39 DLPKVSREKNISSKAVSVE 57
                             *****************95 PP

>> MttA_Hcf106  mttA/Hcf106 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.1   3.8e-05      0.34       4      21 ..       2      19 ..       1      20 [. 0.90

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 3.8e-05
                             HHHHHHHHHHHHHS-TTT CS
              MttA_Hcf106  4 pelliIlvValllFGpkk 21
                              ++liI  + l+lFG +k
  PHY93_19810|PHY93_19810  2 KNILIISCIFLVLFGCSK 19
                             679************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (85 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       502  (0.0279993); expected 358.6 (0.02)
Passed bias filter:                      376  (0.0209716); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.35u 0.23s 00:00:00.57 Elapsed: 00:00:00.36
# Mc/sec: 701.51
//
Query:       PHY93_19815|PHY93_19815  [L=94]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.014   16.1   0.0      0.014   16.1   0.0    1.1  1  AIRS      AIR synthase related protein, N-terminal domain


Domain annotation for each model (and alignments):
>> AIRS  AIR synthase related protein, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   16.1   0.0   7.6e-07     0.014      45      89 ..      42      92 ..       6      94 .] 0.81

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 7.6e-07
                             EEEEEEEEC......HHHHHHHHHHHHHHHTT-EEEEEEEEEESSEEEEEE CS
                     AIRS 45 alllslalp......wleevvrglaeaaeelgvplvgGdtsfsneptisvt 89
                              l+ +l ++      ++ ev r l++  + +g++++gGdts++ e++i ++
  PHY93_19815|PHY93_19815 42 HLVHALVFSkemseqEVMEVSRCLGDVYRTCGFDVLGGDTSSGAELSIFIS 92
                             455567777889999999*************************99888775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (94 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       641  (0.0357521); expected 358.6 (0.02)
Passed bias filter:                      426  (0.0237604); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.22s 00:00:00.61 Elapsed: 00:00:00.38
# Mc/sec: 734.58
//
Query:       PHY93_19820|PHY93_19820  [L=300]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-09   38.0   0.0    1.8e-09   37.3   0.0    1.3  1  DAGK_cat  Diacylglycerol kinase catalytic domain


Domain annotation for each model (and alignments):
>> DAGK_cat  Diacylglycerol kinase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.3   0.0     1e-13   1.8e-09       3      98 ..       3      97 ..       2     124 .. 0.86

  Alignments for each domain:
  == domain 1  score: 37.3 bits;  conditional E-value: 1e-13
                             EEEE-TTCTTTTHHHHHHHCHHHHHHCTCEEEEEE--STTHHHHHHHHHHHCC-SEEEEEESHHHHHHHHHHHCT....HHCTTSEEE CS
                 DAGK_cat  3 lvivNpksGkgkgekllrkvrelleeagvelelieteepgdakelakeakeegvdlivvaGGDGtvsevlnglle....elatkpplg 86
                             ++++Np+s +g + k ++kv+ ll e      +i ++   + +  + +++e   d  + aGGDGt++  +n+l++    e    +++g
  PHY93_19820|PHY93_19820  3 YLFLNPQSCSGLALKKWSKVKTLLPELSE---AIIVDDFYQIDWNLFQIAEG--DSFISAGGDGTLHCMVNALVKnkgiEILLMIKIG 85
                             68**********************96665...66666677888888899996..999******************666666666**** PP

                             EEE-SS--HHHH CS
                 DAGK_cat 87 iiPlGtgNdlar 98
                              i lG+ N++ r
  PHY93_19820|PHY93_19820 86 HIGLGSNNSFLR 97
                             **********88 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (300 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       372  (0.0207485); expected 358.6 (0.02)
Passed bias filter:                      305  (0.0170115); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.19s 00:00:00.65 Elapsed: 00:00:00.37
# Mc/sec: 2412.85
//
Query:       PHY93_19825|PHY93_19825  [L=202]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.4e-08   34.6   0.2    1.1e-07   31.8   0.2    2.0  1  Thymidylate_kin  Thymidylate kinase
  ------ inclusion threshold ------
      0.023   14.5   0.0      0.039   13.7   0.0    1.5  1  PRK              Phosphoribulokinase / Uridine kinase family
      0.027   14.1   0.2      0.075   12.7   0.0    1.7  2  SRP54            SRP54-type protein, GTPase domain
      0.065   12.7   0.0       0.12   11.8   0.0    1.5  1  KTI12            Chromatin associated protein KTI12


Domain annotation for each model (and alignments):
>> Thymidylate_kin  Thymidylate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.8   0.2   2.4e-11   1.1e-07       3     183 ..       8     198 ..       7     200 .. 0.77

  Alignments for each domain:
  == domain 1  score: 31.8 bits;  conditional E-value: 2.4e-11
                              ESTTSSHHHHHHHHHHHHHHTTE..EEEE.....SSSTTSHHHHHHHHHHHTCS---HHH.HHHHHHHHHHHTTHHHHHHHHHTT- CS
          Thymidylate_kin   3 GlDGaGKttqaellkerlkeegik.vvlt.....repggteiGekirelllkeeeleeqt.eallfaadriehleekikpalkqgk 81 
                              G D  GK+tq++ lk++++ + +k  v+t      e ++ +  ++++e+++ +  l+ +t +  +f+ +  +  ++ki +  + + 
  PHY93_19825|PHY93_19825   8 GADACGKDTQIASLKKYFEGQNKKvQVITiwdslAEFSSINDKKSLQEIVE-TFLLKYEThARSFFLLACLKNSVSKIDA--TADI 90 
                              88999*****************99877773333346666666777888877.4444444444455555555666667766..2222 PP

                              EEE...EES-HHHHHHHHHTTTTTTCHHHHHHGGGTTSE-SEEEEEESSHHHHHTSCCTTSS.........TTTSHHHHHHHHHHH CS
          Thymidylate_kin  82 tvi...vdRylfSslaYqgakegvdldlvlslnedvllkPdltflldvdpevalkRlakrde.........ldeeeeeqldflrkv 155
                              ++    + +y +S +aY   ++   + + ++++e+v+   d++f+l+++ e +l R +  ++         ++ e+  + df++++
  PHY93_19825|PHY93_19825  91 ILLngfFHKYWASEMAYGV-ES---ALWEKNISEFVP--SDKVFYLKTPIEQCLSRKTSWSKyeqglglfaKKIEKLSKVDFQKNL 170
                              332333789********77.55...589999999998..8****************9988887789998766677788899***** PP

                              HHHHHHHHHTTSTEEEEETTS-HHHHHH CS
          Thymidylate_kin 156 rerylelakederiliidasksieevhe 183
                              +++++++  + e++++id s+s+e+v +
  PHY93_19825|PHY93_19825 171 HANLDRISHTIENLIVIDGSQSVEKVFS 198
                              ************************9976 PP

>> PRK  Phosphoribulokinase / Uridine kinase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   8.7e-06     0.039       1      67 [.       3      70 ..       3     100 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 8.7e-06
                      PRK  1 vIgvagsSGaGkttvarklekifgrekvkaaei.egdsflrldraekdleleerkrakekevsflspe 67
                             vI + g+ ++Gk t  + l+k f+++++k ++i  +ds+ ++ +++++ +l+e  +++  +++  +  
  PHY93_19825|PHY93_19825  3 VITLIGADACGKDTQIASLKKYFEGQNKKVQVItIWDSLAEFSSINDKKSLQEIVETFLLKYETHARS 70
                             7999********************99999777746999*******99999999888887777665555 PP

>> SRP54  SRP54-type protein, GTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   1.7e-05     0.075       2      36 ..       2      36 ..       1      42 [. 0.93
   2 ?   -1.8   0.0      0.46   2.1e+03     103     126 ..     172     192 ..     163     197 .. 0.63

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 1.7e-05
                             EEEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEE CS
                    SRP54  2 nvillvGlqGaGKTttlaKLaallkkegkkvllva 36
                             +vi l+G    GK t +a L ++++ ++kkv +++
  PHY93_19825|PHY93_19825  2 EVITLIGADACGKDTQIASLKKYFEGQNKKVQVIT 36
                             5899***************************9886 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 0.46
                              HHHHHHHHHHSSSEEEEEEETTBH CS
                    SRP54 103 eelkkikkvvkpdevllvldattg 126
                              ++l+   ++ +++e+l+v+d++  
  PHY93_19825|PHY93_19825 172 ANLD---RISHTIENLIVIDGSQS 192
                              4444...44555688999998765 PP

>> KTI12  Chromatin associated protein KTI12
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   2.7e-05      0.12       1      38 [.       1      40 [.       1      66 [. 0.80

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 2.7e-05
                             E.EEEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-..TH CS
                    KTI12  1 MpLvvltGlPssGKstrakeLakaleeekrsvvvid..de 38
                             M  ++l G  + GK t  + L+k++e ++++v+vi   d 
  PHY93_19825|PHY93_19825  1 MEVITLIGADACGKDTQIASLKKYFEGQNKKVQVITiwDS 40
                             7789**************************9999974233 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (202 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       913  (0.0509231); expected 358.6 (0.02)
Passed bias filter:                      561  (0.0312901); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.44u 0.26s 00:00:00.70 Elapsed: 00:00:00.39
# Mc/sec: 1535.67
//
Query:       PHY93_05610|PHY93_05610  [L=104]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.2e-08   33.3   0.0    6.7e-08   32.7   0.0    1.3  1  Hpt       Hpt domain
  ------ inclusion threshold ------
      0.012   15.4   0.1       0.02   14.6   0.1    1.5  1  AHD       ANC1 homology domain (AHD)
      0.018   15.5   0.0      0.019   15.4   0.0    1.1  1  Sld5      GINS complex protein
        1.6    8.6   7.9       0.24   11.3   3.4    2.0  2  CAP18_C   LPS binding domain of CAP18 (C terminal)


Domain annotation for each model (and alignments):
>> Hpt  Hpt domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.7   0.0   1.5e-11   6.7e-08      11      81 ..      29     102 ..      22     104 .] 0.80

  Alignments for each domain:
  == domain 1  score: 32.7 bits;  conditional E-value: 1.5e-11
                              HHHHHHHHHHH....SCCHHHHHHHHHHHHHHHHHHTTBHHHHHHHHHHHHHHHHCTSCHHHHHHHHHHHHHHHH CS
                      Hpt  11 eelleqleqal....dqedlqelaraaHtLKGsagmlGltelaelahelEdlldragelelepellealkallea 81 
                               e+l+++++ l    d   l++++ + H++KGsag  G+++l+e+  +lE    ++g+    p  ++++++ l++
  PHY93_05610|PHY93_05610  29 FEDLKEIKNTLqdikDTHRLEKIQKIGHKIKGSAGLYGFSQLSEIGLRLEITA-KSGDITKLPNVVDEFQTFLNE 102
                              355556655555555999********************************944.688888888888888888876 PP

>> AHD  ANC1 homology domain (AHD)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.1   4.6e-06      0.02       2      28 ..      28      54 ..      27      70 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 4.6e-06
                      AHD  2 kleeLkeLqkklmsltdrkvlqrivdi 28
                             ++e+Lke++++l++++d ++l +i +i
  PHY93_05610|PHY93_05610 28 RFEDLKEIKNTLQDIKDTHRLEKIQKI 54
                             789******************999887 PP

>> Sld5  GINS complex protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.4   0.0   4.2e-06     0.019      35      93 ..       3      62 ..       1      95 [. 0.83

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 4.2e-06
                             CHHTTSSSSTTTTTTHHHHHHHHHHHHT..HCHHHHHHHHHHHH.HHHHHHHTHCHHHHHH CS
                     Sld5 35 edetkssdlpslpphflelavkllelard.ldelkrllrdllev.Rlakirkfaenledaa 93
                             +d + + + + ++++f+  ++ +l+ + + l+e+k+ l+d+ ++ Rl+ki+k+  +++++a
  PHY93_05610|PHY93_05610  3 ADTNGN-RIHEIEKYFFSQGKNYLDKRFEdLKEIKNTLQDIKDThRLEKIQKIGHKIKGSA 62
                             556666.8899***********99999655************876*******999998888 PP

>> CAP18_C  LPS binding domain of CAP18 (C terminal)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.1       1.5   6.8e+03      20      24 ..      40      44 ..      34      44 .. 0.60
   2 ?   11.3   3.4   5.3e-05      0.24      13      24 ..      49      60 ..      48      60 .. 0.93

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 1.5
                             HHHHH CS
                  CAP18_C 20 QKIKD 24
                             Q IKD
  PHY93_05610|PHY93_05610 40 QDIKD 44
                             55777 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 5.3e-05
                             HHHHHHHHHHHH CS
                  CAP18_C 13 EKLkkIGQKIKD 24
                             EK++kIG KIK+
  PHY93_05610|PHY93_05610 49 EKIQKIGHKIKG 60
                             9**********6 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (104 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1214  (0.0677115); expected 358.6 (0.02)
Passed bias filter:                      788  (0.0439511); expected 358.6 (0.02)
Passed Vit filter:                        67  (0.00373696); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.37
# Mc/sec: 842.07
//
Query:       PHY93_19830|PHY93_19830  [L=436]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.4e-52  176.9   0.0    7.9e-52  176.6   0.0    1.1  1  Aminotran_1_2    Aminotransferase class I and II
    3.6e-05   22.6   0.0    5.6e-05   22.0   0.0    1.3  1  Aminotran_3      Aminotransferase class-III
     0.0022   17.4   0.1      0.017   14.4   0.1    2.2  1  DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
     0.0053   16.1   0.0       0.33   10.2   0.0    2.9  1  Beta_elim_lyase  Beta-eliminating lyase
     0.0086   14.6   0.0      0.015   13.8   0.0    1.3  1  Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
  ------ inclusion threshold ------
      0.014   14.5   0.0       0.04   13.1   0.0    1.6  2  CCDC144C         CCDC144C protein coiled-coil region


Domain annotation for each model (and alignments):
>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  176.6   0.0   2.7e-55   7.9e-52       2     361 ..      89     430 ..      88     432 .. 0.90

  Alignments for each domain:
  == domain 1  score: 176.6 bits;  conditional E-value: 2.7e-55
                              EEEESSSSSTTSTTSS.HHHHHHHHHHHH.HHHHHTSTTST-BTTHHHHHHHHHHHHHCTCTTCHTTGGEGEEEESHHHHHHHHHH CS
            Aminotran_1_2   2 dvinLgsneylgdsgk.ptlpevakaeke.galaggtlneygpidglpeleealakflgrseklklkreaavvvgsGagalieali 85 
                              +++ +gsn+ylg ++  +  ++v+k+  e g+++ g+    g  +++++le++la+f g        +e+a+v+ sG++a+++ ++
  PHY93_19830|PHY93_19830  89 KMLMFGSNNYLGFANDeTIKKKVIKTIEEyGIGMAGPMILNGSGTIQKQLEKKLAEFKG--------KEDAIVLPSGYQANLAWVN 166
                              68889**********94444556666666*99999999999999999************........999**************** PP

                              HHHHHTTT-EEEEEESS-THHHHHHHHTTSEEEEEEBEETTTTEE-HHHHHHHHTTHHCTTE.TEEEEEEESS-TTT--B--HHHH CS
            Aminotran_1_2  86 fllklnpgdeilvpdptyasyknilrlsggevvryplyseedfhldlealeealkeapegnk.ktkvilvesphNPtGtvatleel 170
                               l++       l ++ ++as ++++rl +   +r+          d+ +lee+l++  ++++ +  +++  ++++++G va+l   
  PHY93_19830|PHY93_19830 167 SLIT--DNAILLYDEASHASLIDAIRLGKKRAFRFL-------AQDMASLEEQLTKYRSEDPkRDIFVCMQGVYSMSGEVADLRPA 243
                              ***8..8888999**************999999999.......89***********988888667799***************999 PP

                              HHHHHHHHHTTEEEEEEETTTTCBSSSSHTHHHHGGSTTSTTEEEEEESSSTTSSGGG-EEEEEEEHHHHHHHHHHHHHHTSSHHH CS
            Aminotran_1_2 171 eklldlakkynlllfvDeaYagfvfgsldavatranveeepnllivgslsKafGlaGeRvGyilgnaavvsqlrklsrpflsssll 256
                               +l   + kyn++l+vD+a++++v+g    +a + +v+ ++  l++g++sK+f+++G   G+++g+++ ++ +r ++rp+ ++++ 
  PHY93_19830|PHY93_19830 244 ADL---CVKYNAFLVVDDAHGTGVLGRGHGTAEHYGVSSKVF-LTMGTFSKSFAVTG---GFLAGDKKTINFIRFFARPYFFTAAI 322
                              999...********************7644444999999887.**************...**********************8888 PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSTEEEECCSCSSEEEEEETHHCHHHHHHH....HHHTCTEEEEEGGGG CS
            Aminotran_1_2 257 qaavaaalsdallkqseleemrqrlqkrrkelrdeLaelglkvlasqsgmflltdlsaetakelskk....Lleevgvyvtpgtsf 338
                               ++va a+ +  ++++ + e++q++ +++++lr +L+++ +k++  +s+++++    ++    +++k    L +e g+ + p++++
  PHY93_19830|PHY93_19830 323 TPMVASAVLAGIEEIEAHPERVQQVLDNAEYLRTQLDKAHIKYIRTESAVVPVFPPANS----VFRKialeLHKE-GLFINPIEPP 403
                              8888888888888899************************************9666666....555556669999.********** PP

                              TS...TTEEEEEC.TTS-HHHHHHHHH CS
            Aminotran_1_2 339 tv...pgrlRitv.Aglteeeleelve 361
                               v   ++r+R++v A+++++++e++v 
  PHY93_19830|PHY93_19830 404 AVtlgTERFRMSVmATHSKADIEKAVA 430
                              ************************996 PP

>> Aminotran_3  Aminotransferase class-III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.0   0.0   1.9e-08   5.6e-05     215     405 ..     240     435 ..     228     436 .] 0.72

  Alignments for each domain:
  == domain 1  score: 22.0 bits;  conditional E-value: 1.9e-08
                              HHHHHHHHHHHT-EEEEE-TTTTTTTTSSSSG.GGGCTS--SEE....EE-G..GGGTTSS-EEEEEEHHHHTTS-TTSB--TTTT CS
              Aminotran_3 215 laklrelckkhdvllivDEvqtGfGrTGklfA.lehagvspDlm....tlaK..altgGlplsavlataevmqalapgshgsTfgG 293
                              l+ +++lc k++++l+vD    G G  G   + +eh+gvs  ++    t++K  a+tgG+ +     t +  + +a  +  +    
  PHY93_19830|PHY93_19830 240 LRPAADLCVKYNAFLVVDDA-HGTGVLGRGHGtAEHYGVSSKVFltmgTFSKsfAVTGGFLA-GDKKTINFIRFFARPYFFTAAIT 323
                              67789*************95.57777777776257889999876444478994446777644.44455566777767666555555 PP

                              -HHHHHHHHHHHHHHHH.TTHHHHHHHHHHHHHHHHHHHCTT-TTEEEEEEETTEEEEEEBCCCETTCHHHHHHHHHCTEE-EEET CS
              Aminotran_3 294 nplacavalavleiiee.ekllenaqelgaalkegLeelqkkyevikevRgkGlmiaielkeeaevkekeilkkakekGvlilsaG 378
                               ++a av++  +e ie   + ++++ +  ++l+++L +++     ik +R   +++ + ++ ++ v  ++i+ +++++G+ i ++ 
  PHY93_19830|PHY93_19830 324 PMVASAVLA-GIEEIEAhPERVQQVLDNAEYLRTQLDKAH-----IKYIRTESAVVPV-FPPANSVF-RKIALELHKEGLFINPIE 401
                              555555554.45555444899999999999**99998877.....777*******999.55555544.79************9876 PP

                              T.......TEEEE---TT--HHHHHHHHHHHHHH CS
              Aminotran_3 379 d.......nvirllppliitdeeidelleilkka 405
                              +       +  r+  + + ++++i++++ ilkk+
  PHY93_19830|PHY93_19830 402 PpavtlgtERFRMSVMATHSKADIEKAVAILKKV 435
                              6443333377788888899999999999998886 PP

>> DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.1   5.8e-06     0.017      22     166 ..     132     277 ..     113     287 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 5.8e-06
                              SHHHHHHHHHHHHHHT-SEEEEESSHHHHHHHHHHHTTTTTT-EEEEESSS-THHHHHHHHTT-EEEEE-B-TTTSSB-GGGCGGG CS
          DegT_DnrJ_EryC1  22 gpeveeFEkafaaylgvkhaiavssGtaAlhlaLralgvgpgdeVIvpsltFvatanavlelgakpvfvDvdpdtynidpaaieaa 107
                              g   +++Ek++a++ g++ ai + sG +A++   + l  +  + ++       a+   +++lg k  f    +d   ++ + ++  
  PHY93_19830|PHY93_19830 132 GTIQKQLEKKLAEFKGKEDAIVLPSGYQANLAWVNSLITD--NAILLYDEASHASLIDAIRLGKKRAFRFLAQDMASLEEQLTKYR 215
                              77889************************99888877555..7888888888889999999*****99888888877777777777 PP

                              --TTEEEEEEB.....-GGGB---HHHHHHHHHHCT-EEEEE-TT-TT-EETTEECCCSSSEEE CS
          DegT_DnrJ_EryC1 108 itertkaIlpV.....hlyGqvadmdalkaiaakhglkvieDaAhAlGatykgkkvGalgdaav 166
                               +   + I++       + G+vad+    +++ k++  ++ D Ah+ G  + g+  G+ +  +v
  PHY93_19830|PHY93_19830 216 SEDPKRDIFVCmqgvySMSGEVADLRPAADLCVKYNAFLVVDDAHGTG--VLGRGHGTAEHYGV 277
                              7777777776433333789***********************766555..55555666665555 PP

>> Beta_elim_lyase  Beta-eliminating lyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.2   0.0   0.00011      0.33      35      84 ..     136     185 ..     128     375 .. 0.63

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00011
                              HHHHHHHHHHTT-SEEEEES-HHHHHHHHHHHH--TTEEEEEETT-HHHH CS
          Beta_elim_lyase  35 nrLedavaelfgkeaalfvpqGtaAnsillkillqrgeevivtepahihf 84 
                              ++Le+++ae  gke a+ +p+G +An   ++ l+  +   + +e +h   
  PHY93_19830|PHY93_19830 136 KQLEKKLAEFKGKEDAIVLPSGYQANLAWVNSLITDNAILLYDEASHASL 185
                              689*******************************7777777777777654 PP

>> Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.8   0.0   5.1e-06     0.015      54     182 ..     135     266 ..     131     271 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 5.1e-06
                              HHHHHHHHHHHHT-SEEEEESSHHHHHHHHHHTTS-TTEEEEEESTSSHHHHHHHHHTHHHTTCEEEEESTTSHH.HHHHHCCT.. CS
          Cys_Met_Meta_PP  54 rsvleeriaaLeggeaalavssGmaAiaaailallkaGdeivvsddlYggtqrllkkvlkklgievkfvdtsdle.elekaike.. 136
                              ++ le+++a+ +g e a++++sG  A  a + +l++    ++ ++  + +  + ++   k+   ++   d+++le +l k  +e  
  PHY93_19830|PHY93_19830 135 QKQLEKKLAEFKGKEDAIVLPSGYQANLAWVNSLITDNAILLYDEASHASLIDAIRLGKKR-AFRFLAQDMASLEeQLTKYRSEdp 219
                              578************************9999999998888888887777777777655555.567777777665414555444432 PP

                              .TEEEEEEESS-TTTT----HHHHHHHHHHTT-EEEEEGTTTHTTTS CS
          Cys_Met_Meta_PP 137 .ntklvylEtptnpllkvvDiekiaklakkagvlvvvDntfaspllq 182
                               +   v +  + +   +v+D++  a+l+ k ++ +vvD +  +++l 
  PHY93_19830|PHY93_19830 220 kRDIFVCMQGVYSMSGEVADLRPAADLCVKYNAFLVVDDAHGTGVLG 266
                              22234566778888899*************************99985 PP

>> CCDC144C  CCDC144C protein coiled-coil region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0      0.91   2.7e+03     283     301 ..     200     218 ..     198     221 .. 0.73
   2 ?   13.1   0.0   1.3e-05      0.04     214     276 ..     335     397 ..     328     400 .. 0.92

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 0.91
                 CCDC144C 283 Linecnhlkerlyqyekek 301
                              L+++++ l+e+l +y +e 
  PHY93_19830|PHY93_19830 200 LAQDMASLEEQLTKYRSED 218
                              5677788888888887775 PP

  == domain 2  score: 13.1 bits;  conditional E-value: 1.3e-05
                 CCDC144C 214 akqesleerlaqlqsenmlLrqqLedaqnkadakekvvidiqdqfqdivkkLqaesekqvlll 276
                              ++ e+  er++q+  ++  Lr qL++a+ k +  e +v+ +    +++++k+  e +k++l +
  PHY93_19830|PHY93_19830 335 EEIEAHPERVQQVLDNAEYLRTQLDKAHIKYIRTESAVVPVFPPANSVFRKIALELHKEGLFI 397
                              5668889*************************************************9999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (436 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       466  (0.0259914); expected 358.6 (0.02)
Passed bias filter:                      437  (0.0243739); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.72u 0.31s 00:00:01.03 Elapsed: 00:00:00.59
# Mc/sec: 2224.76
//
Query:       PHY93_19835|PHY93_19835  [L=341]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.9e-06   28.1   0.0    1.3e-05   25.3   0.0    2.0  2  AIRS_C    AIR synthase related protein, C-terminal domain
    0.00057   20.5   0.0     0.0011   19.6   0.0    1.4  1  AIRS      AIR synthase related protein, N-terminal domain


Domain annotation for each model (and alignments):
>> AIRS_C  AIR synthase related protein, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.0     0.085   7.6e+02      27      81 ..      93     145 ..      81     148 .. 0.67
   2 !   25.3   0.0   1.5e-09   1.3e-05       2     149 ..     150     299 ..     149     303 .. 0.78

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 0.085
                              HHCTSHTTTSE.HHHHHHHHHHHHHHHHHHHHHTTECEEEE--TTHHHHHHHHHHH CS
                   AIRS_C  27 eeeglddsavq.lgdvlleptliyvkralaalkglvkaahDvTgGGLlgalaemap 81 
                              e+++++ +  q ++++ +e   ++v +++     +v  ++ +T+ GL++ ++++ +
  PHY93_19835|PHY93_19835  93 EDQKWQQEFFQgVAQASAEYQIVEVEKIITK---GVQTLTACTAYGLSSEAPNLSR 145
                              4455544455556666666555555544444...9999*********999998865 PP

  == domain 2  score: 25.3 bits;  conditional E-value: 1.5e-09
                              TTEEEEEEETSSCTCCHHHHHHHCHHHCTSHTTTSEHHHHHHHHHHHHHHHHHHHH.HTTECEEEE--TTHHHHHHHHHHHTTTEE CS
                   AIRS_C   2 pGdvliltgslGlggagtslkrkileeeglddsavqlgdvlleptliyvkralaal.kglvkaahDvTgGGLlgalaemapasgvg 86 
                              pGd l+ltg++G g a+ +l++  l++++ +     l+d + +  + ++  ++a++ +   k + D ++ GLl +l+ +   ++ +
  PHY93_19835|PHY93_19835 150 PGDSLFLTGPIGWGNAV-ALANIALRKQSSE-----LADKFDLSYRPKARWREALFiNQYSKVCIDTSD-GLLATLKWLEIFNQTK 228
                              9************9999.7777777777766.....777777766666666666666678999999999.8******9999999** PP

                              EEEECG.........THHHHHHHH.....HHHHHHHCSTTTE.EEEEEEHGGHHHHHHHHHHTTCCCEEEEEEEEESS CS
                   AIRS_C  87 aeidld.........kvpifdele.....splemllsensGr.llvavppeeadavlaileeeglpeaavIGevtake 149
                              ++id++         +  +    +     +p+  + s+n +  ll++v+ ++++++l ++ e++ + +++IG+v+ ++
  PHY93_19835|PHY93_19835 229 LVIDYKkslfhpvalE--V----AsltkvNPWLFMASQNGEFeLLFSVSTQKKAEFLTAAMEHEFH-FQEIGKVESGA 299
                              ******8886555222..2....244335777777778877526666777777**********996.*******9886 PP

>> AIRS  AIR synthase related protein, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   0.0   1.2e-07    0.0011      14      72 ..      53     115 ..      29     136 .. 0.76

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 1.2e-07
                              .EECCTCCCCHHHHHHHHHHHHHHTTTEEEEEEEEEEEEC.......HHHHHHHHHHHHHHHTT-E CS
                     AIRS  14 rpvlvepvhfiGakavavnlsDlaamGArPlalllslalp.......wleevvrglaeaaeelgvp 72 
                               +++ +pv+  G+++v++ +sDl a+G +   ++l   l+       w +e+++g+a+a +e+++ 
  PHY93_19835|PHY93_19835  53 LQLINNPVTL-GWLTVTASVSDLSAVGMKTERISL--LLKdknedqkWQQEFFQGVAQASAEYQIV 115
                              3344467777.********************8555..55555********************9985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (341 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       423  (0.0235931); expected 358.6 (0.02)
Passed bias filter:                      338  (0.0188521); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.43
# Mc/sec: 2385.71
//
Query:       PHY93_19840|PHY93_19840  [L=639]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (639 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       404  (0.0225333); expected 358.6 (0.02)
Passed bias filter:                      231  (0.0128842); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.57u 0.19s 00:00:00.76 Elapsed: 00:00:00.38
# Mc/sec: 4994.40
//
Query:       PHY93_19845|PHY93_19845  [L=198]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (198 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       399  (0.0222544); expected 358.6 (0.02)
Passed bias filter:                       95  (0.00529868); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 1457.09
//
Query:       PHY93_19850|PHY93_19850  [L=143]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (143 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       810  (0.0451782); expected 358.6 (0.02)
Passed bias filter:                      512  (0.0285571); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.22s 00:00:00.62 Elapsed: 00:00:00.36
# Mc/sec: 1188.65
//
Query:       PHY93_19855|PHY93_19855  [L=591]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    2.5e-40  137.9   0.0    5.3e-40  136.9   0.0    1.5  1  UvrC_HhH_N  UvrC Helix-hairpin-helix N-terminal
    7.2e-10   39.0   0.3    7.2e-10   39.0   0.3    2.1  2  GIY-YIG     GIY-YIG catalytic domain
    6.7e-09   35.2   5.4    1.6e-08   34.0   5.4    1.7  1  UVR         UvrB/uvrC motif
  ------ inclusion threshold ------
       0.16   11.2   0.0       0.27   10.5   0.0    1.3  1  DDE_5       DDE superfamily endonuclease


Domain annotation for each model (and alignments):
>> UvrC_HhH_N  UvrC Helix-hairpin-helix N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  136.9   0.0   1.2e-43   5.3e-40       2     153 ..     406     566 ..     405     566 .. 0.92

  Alignments for each domain:
  == domain 1  score: 136.9 bits;  conditional E-value: 1.2e-43
                              HHTT-SS---EEEEEEEEEETTTEEEEEEEEEETTEE-GGG-EEEEEE.-SS.--HHHHHHHHHHHHHTTS.....---SEEEESS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
               UvrC_HhH_N   2 ellglkekpkriecyDiShiqgtntvgsmvvfedgkpkkseyRkfkiksvke.gdDyaamrevlrRrfkrllkefsklPdLiliDG 86 
                              +llglke+p  +ecyDi+ +qg++ +++ +vf+dgkp+k++yR++++++  e ++D+a+mre++ Rr  +      +lPd++++DG
  PHY93_19855|PHY93_19855 406 DLLGLKERPVVLECYDIAIFQGSSPTAAQIVFHDGKPDKKNYRNYHLQELPEgNNDFAMMRELIIRRSDNG-----ALPDVFIVDG 486
                              789*********************************************98889**************9885.....69******** PP

                              SHHHHHHHHHHHHHTT----EEEEES.................SSSEE........EE--TT-HHHHHHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....xxxxxxx........xxxxxxxxxxxxxxxxxxxxxxxx RF
               UvrC_HhH_N  87 GkgqlnaakevleelglkipvvglaKdkkrktraka.....eereeev........lelkkssealkllqrirdeaHrfA 153
                              G gq+n+ +e+l+elg+ ipvvg+aK+k  +t+        +++ee++        + l+++ +++k++ ++rdeaHrf+
  PHY93_19855|PHY93_19855 487 GLGQVNIFREALKELGIAIPVVGIAKSKVVRTKDGFksediKRSEERLiipgrsnpYMLNQNRSLFKIIVQMRDEAHRFS 566
                              **************************887766655456666555555589****************************96 PP

>> GIY-YIG  GIY-YIG catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.0   0.3   1.6e-13   7.2e-10       2      78 .]      34     109 ..      33     109 .. 0.85
   2 ?   -4.0   0.1         4   1.8e+04      62      70 ..     225     233 ..     221     242 .. 0.54

  Alignments for each domain:
  == domain 1  score: 39.0 bits;  conditional E-value: 1.6e-13
                              -EEEEEEETTT--EEEEEESSHHHHHHHHHHHHHHT--S-H...S.STEEEEEEEE----HHHHHHHHHHHHHHTTSSSS CS
                  GIY-YIG   2 ggvYiirskenkliYvGstknlekRlkqHnagkkakytrkk...gkkpfeliileifptksealelEkklikkyksnkyn 78 
                               g+Y++++k+ ++iYvG++knl+ R  ++++++ ++ ++      +++f++ii e    +s +  lE+ likk+++ kyn
  PHY93_19855|PHY93_19855  34 PGCYLMKNKAEQIIYVGKAKNLRARVISYFNNSVKGPKTEIlvsHIEDFDFIITENDA-ESFV--LENNLIKKHSP-KYN 109
                              69***************************99999999999877777777777665444.3444..7**********.998 PP

  == domain 2  score: -4.0 bits;  conditional E-value: 4
                              HHHHHHHHH CS
                  GIY-YIG  62 lelEkklik 70 
                               elEk+ +k
  PHY93_19855|PHY93_19855 225 RELEKRMQK 233
                              344444444 PP

>> UVR  UvrB/uvrC motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.0   5.4   3.6e-12   1.6e-08       2      35 ..     222     255 ..     221     256 .. 0.92

  Alignments for each domain:
  == domain 1  score: 34.0 bits;  conditional E-value: 3.6e-12
                      UVR   2 klikeLeeemeeAaenedFEkAAklRDqinalkk 35 
                              k i+eLe+ m++Aa++e+FEkAA++RD +  l++
  PHY93_19855|PHY93_19855 222 KTIRELEKRMQKAANEEEFEKAAQIRDSLDTLRE 255
                              679************************9988875 PP

>> DDE_5  DDE superfamily endonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0     6e-05      0.27     163     217 ..     464     519 ..     453     564 .. 0.83

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 6e-05
                    DDE_5 163 ialelldraraagvplqvvvaDagYgdaaalrqglrelglhy.vvrvrsdralypp 217
                              + +el+ r   +g+ + v+ +D+g g+ + +r++l+elg+ + vv++ ++++++ +
  PHY93_19855|PHY93_19855 464 MMRELIIRRSDNGALPDVFIVDGGLGQVNIFREALKELGIAIpVVGIAKSKVVRTK 519
                              5667777788999999***********************98846677666666554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (591 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       835  (0.0465726); expected 358.6 (0.02)
Passed bias filter:                      533  (0.0297284); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.61u 0.24s 00:00:00.85 Elapsed: 00:00:00.40
# Mc/sec: 4463.97
//
Query:       PHY93_19860|PHY93_19860  [L=96]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.9e-10   39.6   0.1    8.1e-10   38.6   0.0    1.6  2  HTH_3     Helix-turn-helix
      7e-05   22.8   0.1    0.00023   21.1   0.0    1.7  2  HTH_19    Helix-turn-helix domain
    0.00025   21.3   0.0    0.00031   21.0   0.0    1.1  1  HTH_31    Helix-turn-helix domain


Domain annotation for each model (and alignments):
>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0      0.78   4.6e+03      13      20 ..       8      15 ..       7      20 .. 0.79
   2 !   38.6   0.0   1.4e-13   8.1e-10       9      55 .]      31      77 ..      23      77 .. 0.92

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 0.78
                             HHHHHHHT CS
                    HTH_3 13 eeLAeklG 20
                             +eL +k+G
  PHY93_19860|PHY93_19860  8 KELERKIG 15
                             68999998 PP

  == domain 2  score: 38.6 bits;  conditional E-value: 1.4e-13
                             THHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHHHH CS
                    HTH_3  9 glsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvsldel 55
                              ++++e++  lG+s ++++++E+G+r+Ps+++++++ak Lg + +++
  PHY93_19860|PHY93_19860 31 EMTLKEFSTFLGISIASLADLEKGRRIPSPSRAFEIAKKLGEPEAYW 77
                             69***************************************999886 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.1      0.31   1.9e+03      11      33 ..       3      24 ..       2      28 .. 0.68
   2 !   21.1   0.0   3.8e-08   0.00023      13      58 ..      32      76 ..      30      81 .. 0.91

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.31
                   HTH_19 11 lgltqeelaerlgisrskisaiE 33
                             ++++ +el++++g   ++ +aiE
  PHY93_19860|PHY93_19860  3 KKFGTKELERKIGK-MTFANAIE 24
                             67788888888887.55555555 PP

  == domain 2  score: 21.1 bits;  conditional E-value: 3.8e-08
                   HTH_19 13 ltqeelaerlgisrskisaiEngkkdvpsaelllkiaealgidley 58
                             +t++e +  lgis+++++ +E+g++  ps+++   ia++lg ++ y
  PHY93_19860|PHY93_19860 32 MTLKEFSTFLGISIASLADLEKGRR-IPSPSRAFEIAKKLGEPEAY 76
                             899999999****************.*****************654 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.0   0.0   5.1e-08   0.00031      14      59 ..      31      75 ..      19      80 .. 0.89

  Alignments for each domain:
  == domain 1  score: 21.0 bits;  conditional E-value: 5.1e-08
                   HTH_31 14 GLsqeevAerlgvsestlsrlEqGrrgrpspavlealaralgldpa 59
                              ++++e    lg+s + l +lE Grr +psp+    +a  lg ++a
  PHY93_19860|PHY93_19860 31 EMTLKEFSTFLGISIASLADLEKGRR-IPSPSRAFEIAKKLGEPEA 75
                             5899999999****************.7*********999997765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (96 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       384  (0.0214178); expected 358.6 (0.02)
Passed bias filter:                      316  (0.0176251); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.40u 0.19s 00:00:00.59 Elapsed: 00:00:00.37
# Mc/sec: 785.25
//
Query:       PHY93_19865|PHY93_19865  [L=89]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    0.00049   20.7   0.7    0.00085   19.9   0.7    1.5  1  ParE_toxin  ParE toxin of type II toxin-antitoxin system, par


Domain annotation for each model (and alignments):
>> ParE_toxin  ParE toxin of type II toxin-antitoxin system, parDE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.9   0.7   4.8e-08   0.00085       5      84 ..       7      87 ..       4      89 .] 0.80

  Alignments for each domain:
  == domain 1  score: 19.9 bits;  conditional E-value: 4.8e-08
                             HHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHHHHHTTTSEECTSTC....CTTEEEEEEC.TEEEEEEE..ETSTTEEEEEEEE CS
               ParE_toxin  5 prAlkdlkkiadyiardgpaakrfldaleealellaenpalgrprrelg....lkglrririg.dyriiYri..ddeelvvvilrvl 84
                             ++A+kd++k+ +yi       +++l+  ee   +  +  ++++  ++       +g r+ir+   yr+iY+    +e + ++++ v 
  PHY93_19865|PHY93_19865  7 DKAKKDIDKLPSYI------TRKLLKWAEEVEMSGIREIRKYSGYHDEPlkgfRNGQRSIRLSaSYRAIYTEraSGEIDLIIVIEVN 87
                             68************......**********999999999999995555557887799999998********9553333333366665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (89 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       299  (0.0166769); expected 358.6 (0.02)
Passed bias filter:                      250  (0.0139439); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.36u 0.19s 00:00:00.55 Elapsed: 00:00:00.34
# Mc/sec: 776.60
//
Query:       PHY93_19870|PHY93_19870  [L=68]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
  ------ inclusion threshold ------
      0.012   15.7   4.1      0.094   12.9   4.1    2.2  1  Zn-ribbon_8  Zinc ribbon domain
          1   10.0   4.1         24    5.6   1.2    2.4  2  zf-C2H2      Zinc finger, C2H2 type


Domain annotation for each model (and alignments):
>> Zn-ribbon_8  Zinc ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   4.1     1e-05     0.094       7      40 .]      28      66 ..       5      66 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 1e-05
              Zn-ribbon_8  7 rCeeCghefevlqsisdap.....lta.CPeCgsevrrvi 40
                             +C+ Cg++  + + ++  +     + a CP+Cg+ +r++i
  PHY93_19870|PHY93_19870 28 ECHICGSKLVITHLSD-YKnllmqESArCPDCGQGCRKII 66
                             5999997777555444.33357777777*********987 PP

>> zf-C2H2  Zinc finger, C2H2 type
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.9   0.1    0.0045        40       2       8 ..      28      36 ..      28      47 .. 0.68
   2 ?    5.6   1.2    0.0027        24       2      10 ..      54      62 ..      54      66 .. 0.83

  Alignments for each domain:
  == domain 1  score: 4.9 bits;  conditional E-value: 0.0045
                             EETTTT..E CS
                  zf-C2H2  2 kCpdCg..k 8 
                             +C++Cg   
  PHY93_19870|PHY93_19870 28 ECHICGskL 36
                             5****9554 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.0027
                             EETTTTEEE CS
                  zf-C2H2  2 kCpdCgksF 10
                             +CpdCg+ +
  PHY93_19870|PHY93_19870 54 RCPDCGQGC 62
                             7*****876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (68 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       865  (0.0482459); expected 358.6 (0.02)
Passed bias filter:                      494  (0.0275531); expected 358.6 (0.02)
Passed Vit filter:                        57  (0.00317921); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.36u 0.19s 00:00:00.55 Elapsed: 00:00:00.34
# Mc/sec: 592.05
//
Query:       PHY93_19875|PHY93_19875  [L=223]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.2e-07   31.8   0.0    3.1e-07   30.5   0.0    1.8  2  UDG       Uracil DNA glycosylase superfamily


Domain annotation for each model (and alignments):
>> UDG  Uracil DNA glycosylase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0      0.31   5.5e+03      35      60 ..       4      34 ..       2      59 .. 0.66
   2 !   30.5   0.0   1.7e-11   3.1e-07      79     155 .]     137     216 ..      70     216 .. 0.78

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 0.31
                             -HHHHHHHCCCCCCCHHG.....CTEEEEES CS
                      UDG 35 llrkllneaglkrdlese.....qgvyitnv 60
                             +++kl+++++ +++++++     +g ++ n 
  PHY93_19875|PHY93_19875  4 QFKKLIQKTKAQKEQKDPlfksfEGALFQNS 34
                             6777777766666555556666655555554 PP

  == domain 2  score: 30.5 bits;  conditional E-value: 1.7e-11
                              CCHH.HHHHHHHHHHSSEEEEESHHHHHH....HHHHSCESCCCSCT......SEEEEES-SSTTTTTTTTSHHHHHHHHHHHHH CS
                      UDG  79 acap.lleeeiellkprlivllGktaakall..geklgklrgklleak.....irvlplphPsplnrnffksnpelkaeawedLk 155
                               ca   l + i   +p+ +v lG+t  + ll   ekl+ ++g+++e++     + ++p +hP  l  n     p +k++aw dL+
  PHY93_19875|PHY93_19875 137 SCATqKLFNTIVEKRPKFVVSLGATVTNILLgkREKLSTIHGQFFEKRvgecvYSLMPIFHPDFLVIN-----PNMKRTAWIDLQ 216
                              344445666666677***************99666************88899****************.....********9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (223 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       485  (0.0270511); expected 358.6 (0.02)
Passed bias filter:                      432  (0.024095); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.38
# Mc/sec: 1737.89
//
Query:       PHY93_05615|PHY93_05615  [L=405]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.9e-10   39.0   0.0      1e-09   38.0   0.0    1.5  1  DisA_N    DisA bacterial checkpoint controller nucleotide-bin
  ------ inclusion threshold ------
       0.21   11.6   1.9       0.37   10.8   1.9    1.4  1  DZR       Double zinc ribbon


Domain annotation for each model (and alignments):
>> DisA_N  DisA bacterial checkpoint controller nucleotide-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.0   0.0   1.2e-13     1e-09      11     117 ..     197     313 ..     196     315 .. 0.73

  Alignments for each domain:
  == domain 1  score: 38.0 bits;  conditional E-value: 1.2e-13
                              T--EEEEEESSSC..........CCTTCCTSEEEEEE--HHHHHHHTSTTSTTCSSEEEE.ETTEEEEEEEEE--TT.-TTS.S.T CS
                   DisA_N  11 kiGaliviereee..........lkeiietgvkldaevskellkeifekksplhDGAvii.rdgrivaagviLplse.nkel.k.e 82 
                              ++Ga+iv+  +e           +++i     +++ ++  e     f +  +++DGA ++  +g+ ++ g++L+ s+ ++ l +  
  PHY93_05615|PHY93_05615 197 QVGATIVWWLKEIpfvdseiqttGQDIS----EFNFSILDEARAVTFCHFLSQIDGATFLnPEGKFTRTGIHLKNSNkSRGLiPeL 278
                              5799999988877665444332223333....33444444444556777799********66*************66566677548 PP

                              -SHHHHHHHHHHHHS.SSEEEEE-TTTS-EEEEETT CS
                   DisA_N  83 lGtRHraAlgiseet.dalvivVSeetgkislakdg 117
                               GtRH++A ++s +  d lvi+VS++ g ++++ dg
  PHY93_05615|PHY93_05615 279 KGTRHTSAQRFSYDFsDTLVITVSSD-GPVTIFSDG 313
                              8**********765439999999987.******998 PP

>> DZR  Double zinc ribbon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   1.9   4.2e-05      0.37      14      48 ..     350     393 ..     339     394 .. 0.83

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 4.2e-05
                      DZR  14 fCseCgtklkavaa..........edrCpsCgekvdpearfCpeC 48 
                               C++Cg++l   ++          + +C  C++ + +   f  eC
  PHY93_05615|PHY93_05615 350 ICQHCGKRLIV-EQvnvvdwnkdtNLNCLVCQSLLRSANCFTIEC 393
                              8*******985.4459********9********999888887777 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (405 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       615  (0.034302); expected 358.6 (0.02)
Passed bias filter:                      519  (0.0289475); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.42
# Mc/sec: 2926.20
//
Query:       PHY93_19880|PHY93_19880  [L=383]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.6e-20   72.3   0.2    7.7e-20   71.3   0.2    1.5  1  SpoIID    Stage II sporulation protein


Domain annotation for each model (and alignments):
>> SpoIID  Stage II sporulation protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   71.3   0.2   4.3e-24   7.7e-20       4      93 ..     113     207 ..     110     207 .. 0.80

  Alignments for each domain:
  == domain 1  score: 71.3 bits;  conditional E-value: 4.3e-24
                              TTTEEEEEEHHHHHHHHHHHHS-TTS-HHHHHHHHHHHHHHHHS-............--S.TT-S-TTTS-----..H-HHHTHHH CS
                   SpoIID   4 kltavnevpleeYllgVvasempasfelealkAqAVaaRtyalaq.......kdredhkk.fdvcddthcqvYqg..etrasyeek 79 
                              + ++vne+p+e Y+ + + +em+++++ ealkAqAVaaRtyal++       k +  +++ +d+ +++++qv ++  +     +e+
  PHY93_19880|PHY93_19880 113 SCDIVNEIPMEAYISSLLTKEMNSKWPIEALKAQAVAARTYALHKmrtqqvtK-ELGSEAyYDLESSQKHQVGGSffD----ATES 193
                              6789***************************************5555556643.333344369999999999666542....2345 PP

                              HHHHHHCTTTEEEE CS
                   SpoIID  80 veeAveaTrgevlt 93 
                              +++A ++Trgevlt
  PHY93_19880|PHY93_19880 194 TNAASNDTRGEVLT 207
                              78**********98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (383 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       511  (0.0285013); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.19s 00:00:00.68 Elapsed: 00:00:00.37
# Mc/sec: 3129.34
//
Query:       PHY93_19885|PHY93_19885  [L=60]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    6.2e-12   46.0   0.0    6.6e-12   45.9   0.0    1.0  1  Amidase_3  N-acetylmuramoyl-L-alanine amidase
  ------ inclusion threshold ------
      0.011   15.5   0.0      0.012   15.5   0.0    1.1  1  CdiI_3     CDI immunity proteins


Domain annotation for each model (and alignments):
>> Amidase_3  N-acetylmuramoyl-L-alanine amidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.9   0.0   7.4e-16   6.6e-12       1      49 [.       3      58 ..       3      60 .] 0.92

  Alignments for each domain:
  == domain 1  score: 45.9 bits;  conditional E-value: 7.4e-16
                Amidase_3  1 ividpGHGgkdpGavg.......knglkEkdlnlkvalklaklLeakgaeVvltrd 49
                             i+idpGHGg+d Ga +       ++ +kEkd++l +a+k+ ++L+ak+++V ltr+
  PHY93_19885|PHY93_19885  3 ILIDPGHGGEDDGAKAhtlgrvpEELIKEKDIALLIAQKIYEKLSAKNYTVFLTRS 58
                             89***********888877788777799**************************97 PP

>> CdiI_3  CDI immunity proteins
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.5   0.0   1.4e-06     0.012      19      49 ..      16      46 ..      10      57 .. 0.89

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.4e-06
                   CdiI_3 19 ekveelrkkpleeltveDlrllirQeiglel 49
                             +k+++l ++p e ++++D+ lli+Q+i  +l
  PHY93_19885|PHY93_19885 16 AKAHTLGRVPEELIKEKDIALLIAQKIYEKL 46
                             5789***********************8775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (60 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       425  (0.0237046); expected 358.6 (0.02)
Passed bias filter:                      353  (0.0196888); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.37u 0.23s 00:00:00.60 Elapsed: 00:00:00.40
# Mc/sec: 455.15
//
Query:       PHY93_19890|PHY93_19890  [L=321]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (321 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       519  (0.0289475); expected 358.6 (0.02)
Passed bias filter:                      333  (0.0185733); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.26s 00:00:00.78 Elapsed: 00:00:00.40
# Mc/sec: 2391.85
//
Query:       PHY93_19895|PHY93_19895  [L=189]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (189 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       557  (0.031067); expected 358.6 (0.02)
Passed bias filter:                      454  (0.0253221); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1423.55
//
Query:       PHY93_19900|PHY93_19900  [L=146]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0097   16.2   0.1      0.036   14.3   0.1    2.0  2  DUF1828   Domain of unknown function DUF1828
  ------ inclusion threshold ------
      0.078   13.5   0.2        2.1    8.9   0.1    2.2  2  DUF4193   Domain of unknown function (DUF4193)
       0.12   12.6   0.0       0.19   12.0   0.0    1.3  1  RisS_PPD  Periplasmic domain of Sensor histidine kinase RisS


Domain annotation for each model (and alignments):
>> DUF1828  Domain of unknown function DUF1828
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.3   0.1     6e-06     0.036      29      67 ..      13      52 ..      12      74 .. 0.80
   2 ?   -1.4   0.0      0.49   2.9e+03      45      56 ..      81      92 ..      67     118 .. 0.59

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 6e-06
                  DUF1828 29 GltlmdLsysgidldlskkRkellesilakfgvtl.edge 67
                             ++t+++L+++ +      +R+el+e+++ ++gv++  d+ 
  PHY93_19900|PHY93_19900 13 SYTINNLKEKKLIEFHPTRREELIEAMATEYGVSFaTDED 52
                             58*****99876543388888*************965554 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.49
                  DUF1828 45 skkRkellesil 56
                             +  Rke+++s  
  PHY93_19900|PHY93_19900 81 NHARKEIIKSFN 92
                             556666666553 PP

>> DUF4193  Domain of unknown function (DUF4193)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.7   0.0     0.031   1.8e+02       1      26 [.       1      22 [.       1      36 [. 0.70
   2 ?    8.9   0.1   0.00036       2.1       1      31 [.      39      69 ..      39      95 .. 0.80

  Alignments for each domain:
  == domain 1  score: 2.7 bits;  conditional E-value: 0.031
                  DUF4193  1 matDydapRktddeleedsleelkar 26
                             m tD+d+ R+    l++ ++++lk++
  PHY93_19900|PHY93_19900  1 MKTDFDTLRA----LASYTINNLKEK 22
                             99*******6....455555555554 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 0.00036
                  DUF4193  1 matDydapRktddeleedsleelkarraeka 31
                             mat+y+   +td++++e+++ee++++   ++
  PHY93_19900|PHY93_19900 39 MATEYGVSFATDEDVREQAIEEVEEKMGVDN 69
                             9**********************99876553 PP

>> RisS_PPD  Periplasmic domain of Sensor histidine kinase RisS
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   3.1e-05      0.19       9      69 ..      14      76 ..       8     101 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 3.1e-05
                 RisS_PPD  9 vsvvnltraALisadpelrvaLlkeLaekegirilprep..sDkiepleddrltrliaeevre 69
                              ++ nl  + Li+ +p +r +L++ +a++ g+     e+  +  ie +e++  ++++ e+v+e
  PHY93_19900|PHY93_19900 14 YTINNLKEKKLIEFHPTRREELIEAMATEYGVSFATDEDvrEQAIEEVEEKMGVDNLPEDVTE 76
                             578899**************************9998875225667777777777777776655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (146 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       689  (0.0384294); expected 358.6 (0.02)
Passed bias filter:                      507  (0.0282782); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.38
# Mc/sec: 1160.53
//
Query:       PHY93_19905|PHY93_19905  [L=186]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.7e-22   77.8   0.0    6.1e-22   77.4   0.0    1.1  1  dCMP_cyt_deam_1  Cytidine and deoxycytidylate deaminase zinc-
    9.2e-08   31.9   0.0    1.1e-07   31.7   0.0    1.2  1  MafB19-deam      MafB19-like deaminase


Domain annotation for each model (and alignments):
>> dCMP_cyt_deam_1  Cytidine and deoxycytidylate deaminase zinc-binding region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.4   0.0   6.8e-26   6.1e-22       2     100 ..      26     140 ..      25     141 .. 0.97

  Alignments for each domain:
  == domain 1  score: 77.4 bits;  conditional E-value: 6.8e-26
                              HHHHHHHHHHHHHHHHHHTTTSCSEEEEEEE.TTEEEEEEESBHHCCTG....................TTB-HHHHHHHHHHHHT CS
          dCMP_cyt_deam_1   2 ekdekllelalkaakeaqkcsnfkVGavivk.ngeiistgyngepaggs....................ktiHAEvnAilkaakng 66 
                              ++de+++ +a+ aa ++ k++ +kVG+v+v+ n+++i  gyng  ag +                    +++H+E nAil+  +  
  PHY93_19905|PHY93_19905  26 TWDEYFMLQAMIAAFKS-KDPATKVGSVFVDkNNHQITMGYNGFVAGIDeskvpwgkdksaplefqkygYVVHSEANAILHSSR-- 108
                              69***************.***************************************************************984.. PP

                              SSCETTEEEEEEE--BHHHHHHHHHHT-SEEEEE CS
          dCMP_cyt_deam_1  67 gsklegatlyvtlePCsmCakaiiqsgikkvvvg 100
                                +leg   yvtl+PC++Cak+i+ s++k+vv++
  PHY93_19905|PHY93_19905 109 --SLEGSRAYVTLFPCNECAKLIASSKVKEVVFL 140
                              ..689999************************96 PP

>> MafB19-deam  MafB19-like deaminase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.7   0.0   1.2e-11   1.1e-07       2     108 ..      26     160 ..      25     186 .] 0.77

  Alignments for each domain:
  == domain 1  score: 31.7 bits;  conditional E-value: 1.2e-11
              MafB19-deam   2 dkekafrkalaevekatkikedkigaviv.kdkkviargsn....................ekelnakataHaEiaalqqAakklk 66 
                              +++++f+ ++  +   +k    k+g v v k++  i  g+n                     + ++     H E++a+        
  PHY93_19905|PHY93_19905  26 TWDEYFMLQAMIAAFKSKDPATKVGSVFVdKNNHQITMGYNgfvagideskvpwgkdksapLEFQKYGYVVHSEANAILHS----- 106
                              57888888888888888888899999999899999*********************998852233455679*******998..... PP

              MafB19-deam  67 skrlddatlyvtlepCdmCagaivqaglkklvygagnpks............ln 108
                              s  l++   yvtl pC+ Ca++i+ +++k++v+ +++ +             l+
  PHY93_19905|PHY93_19905 107 SRSLEGSRAYVTLFPCNECAKLIASSKVKEVVFLSDKHQEtesnriakkifdLS 160
                              445666688***********************9999665555566555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (186 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       550  (0.0306766); expected 358.6 (0.02)
Passed bias filter:                      450  (0.025099); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.42
# Mc/sec: 1314.16
//
Query:       PHY93_19910|PHY93_19910  [L=314]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.1e-58  196.6   0.1    4.1e-58  195.7   0.0    1.5  2  2-Hacid_dh_C   D-isomer specific 2-hydroxyacid dehydrogenase,
    6.2e-31  106.8   0.1    7.3e-31  106.6   0.1    1.0  1  2-Hacid_dh     D-isomer specific 2-hydroxyacid dehydrogenase,
    0.00013   22.2   0.1    0.00039   20.6   0.0    1.8  2  NAD_binding_2  NAD binding domain of 6-phosphogluconate dehyd
     0.0048   17.0   0.0       0.01   15.9   0.0    1.5  1  AdoHcyase_NAD  S-adenosyl-L-homocysteine hydrolase, NAD bindi
  ------ inclusion threshold ------
      0.013   15.8   0.3      0.039   14.3   0.1    1.9  2  Gp_dh_N        Glyceraldehyde 3-phosphate dehydrogenase, NAD 
      0.021   14.4   0.0       0.08   12.5   0.0    2.0  1  IlvN           Acetohydroxy acid isomeroreductase, NADPH-bind


Domain annotation for each model (and alignments):
>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0       1.2   3.7e+03     108     135 ..      55      82 ..      52      86 .. 0.78
   2 !  195.7   0.0   1.4e-61   4.1e-58       1     178 []     108     282 ..     108     282 .. 0.96

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 1.2
                              SBSHHHHHCSTTTEEEEESS-GGGB-HH CS
             2-Hacid_dh_C 108 linaeelakmkkgailiNtaRGglvdee 135
                               in+e l++ ++  i+i ++ G+    +
  PHY93_19910|PHY93_19910  55 TINKELLDLAPNLKIVIRAGEGTDNIDK 82 
                              6999999999999999999988755555 PP

  == domain 2  score: 195.7 bits;  conditional E-value: 1.4e-61
                              HHHHHHHHTTHHHHHHHHHTTCCHTTCCGSBS-GTTSEEEEES-SHHHHHHHHHHHHTT-EEEEESSSHHHHHCHHHHTCEECSHH CS
             2-Hacid_dh_C   1 lalllallrrlaeadeevregewksekallgkelsgktvGiiGlGrIGqavakrlkafgmkviaydrskkkeeeeeelgvelvsle 86 
                              +al++ +lr++a ad+ +++g+w ++++l+g el +k+vGi+G+GrIGq vakr+++f+ +++++d+   +++   +   ++ +l+
  PHY93_19910|PHY93_19910 108 IALMMTVLRNTALADATMKAGKW-EKNSLTGLELWKKKVGIVGFGRIGQIVAKRISGFEPEILFFDPVLMSSD-LPN-TKKVNDLK 190
                              689********************.9*******************************************99777.333.44688*** PP

                              HHHHH-SEEEE-S--STTTTTSBSHHHHHCSTTTEEEEESS-GGGB-HHHHHHHHHTTSCCEEEES--SSSSSGTCHHHHHSTTEE CS
             2-Hacid_dh_C  87 ellaesDivslhlpltpetrhlinaeelakmkkgailiNtaRGglvdeeaLleaLksgkiagaalDvfeeeplpedspllelpnvi 172
                              e+++++Di++lh+pl ++t+++i++e l++mkk+ail+N++RGg+vde+aL+++Lk++ki+ga++Dvf+ eplp+ds+llel n++
  PHY93_19910|PHY93_19910 191 EIFSTCDIITLHTPLMAQTKGMITSELLNLMKKDAILVNASRGGIVDEDALYTVLKEKKIRGAGFDVFAVEPLPTDSKLLELTNLV 276
                              ************************************************************************************** PP

                              E-SS-T CS
             2-Hacid_dh_C 173 ltPHia 178
                              ++PH++
  PHY93_19910|PHY93_19910 277 MSPHVG 282
                              ****97 PP

>> 2-Hacid_dh  D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  106.6   0.1   2.4e-34   7.3e-31      12     133 ..      16     313 ..       5     314 .] 0.97

  Alignments for each domain:
  == domain 1  score: 106.6 bits;  conditional E-value: 2.4e-34
                              HHHHHHTTE.EEEEES..CSSHHHCHHHHTTESEEEE-TTS-BSHHHHHHHTT--EEEESSSSCTTB-HHHHHHTT-EEEE-TTTT CS
                              xxxxxxxxx.xxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
               2-Hacid_dh  12 lellkeegv.evevkd..ellteellekakdadalivrsntkvtaevlealpkLkviaragvGvDnvDldaakerGilVtnvpgys 94 
                               e lk+  + +++v+   + ++eel++ ++++++li+rs t +++e+l+ +p+Lk++ rag G+Dn+D ++++erG++V+n+pg++
  PHY93_19910|PHY93_19910  16 FEELKK--IpNLNVHPtsKVSQEELKALLPKVEGLIIRSATTINKELLDLAPNLKIVIRAGEGTDNIDKALCAERGVKVANTPGAN 99 
                              344444..7788888888******************************************************************** PP

                              HHHHHHHH.............................................................................. CS
                              xxxxxxxx.............................................................................. RF
               2-Hacid_dh  95 tesvAElt.............................................................................. 102
                               +s+AE +                                                                              
  PHY93_19910|PHY93_19910 100 NNSAAEQAialmmtvlrntaladatmkagkweknsltglelwkkkvgivgfgrigqivakrisgfepeilffdpvlmssdlpntkk 185
                              ************************************************************************************** PP

                              ...................................................................................... CS
                              ...................................................................................... RF
               2-Hacid_dh 103 ...................................................................................... 102
                                                                                                                    
  PHY93_19910|PHY93_19910 186 vndlkeifstcdiitlhtplmaqtkgmitsellnlmkkdailvnasrggivdedalytvlkekkirgagfdvfaveplptdsklle 271
                              ************************************************************************************** PP

                              ...........T-BHHHHHHHHHHHHHHHHHHHTTCCGTTBC CS
                              ...........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
               2-Hacid_dh 103 ...........aaTeeaqeniaeeaaenlvaflkgespanav 133
                                         a+Teeaq +++e+a+ ++ +f+k++++ n+v
  PHY93_19910|PHY93_19910 272 ltnlvmsphvgASTEEAQFRVGEMAVHQINEFFKNNNLLNEV 313
                              *************************************99998 PP

>> NAD_binding_2  NAD binding domain of 6-phosphogluconate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0       1.2   3.5e+03      43      70 ..      90     122 ..      76     128 .. 0.49
   2 !   20.6   0.0   1.3e-07   0.00039       1     110 [.     144     251 ..     144     257 .. 0.90

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 1.2
                              EEE-SSHHHHHHHC.....SEEEE-SSSHHHHH CS
            NAD_binding_2  43 akaaesieelvasl.....dvvitmvkagkavd 70 
                              +k+a+++ +  +s+      +++t++++++  d
  PHY93_19910|PHY93_19910  90 VKVANTPGANNNSAaeqaiALMMTVLRNTALAD 122
                              444444332222222222455555555555555 PP

  == domain 2  score: 20.6 bits;  conditional E-value: 1.3e-07
                              EEEEE--SHHHHHHHHHHHHTT-EEEEE-SSHHHHHHHHHTTEEE-SSHHHHHHHCSEEEE-SSSHHHHHHHHHS.HCCC--TT-E CS
            NAD_binding_2   1 kigfiGlGvMGsnmalnllkagykvavynrtkekveelvaegakaaesieelvasldvvitmvkagkavdevieg.llealkkgdi 85 
                              k+g++G G +G+  a+++   + ++ +++    + +     + k +++++e+++++d++ +  +  ++++ +i++ ll+ +kk++i
  PHY93_19910|PHY93_19910 144 KVGIVGFGRIGQIVAKRISGFEPEILFFDPVLMSSDLP---NTKKVNDLKEIFSTCDIITLHTPLMAQTKGMITSeLLNLMKKDAI 226
                              69***************************774444333...356789**************************999********** PP

                              EEE-S---HHHHHHHHHHHHHTT-E CS
            NAD_binding_2  86 lidgstsspedtrelakelkekglk 110
                              l++ s   + d   l++ lkek+++
  PHY93_19910|PHY93_19910 227 LVNASRGGIVDEDALYTVLKEKKIR 251
                              *****************99999986 PP

>> AdoHcyase_NAD  S-adenosyl-L-homocysteine hydrolase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.0   3.4e-06      0.01      23     110 ..     142     231 ..     133     255 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 3.4e-06
                              TSEEEEE--SHHHHHHHHHHHHCT-EEEEE-S-HHHHHHHHCTT-EE--HHHCTTT-SEEEE-S....SSSSSB-HHHHCCS-TTE CS
            AdoHcyase_NAD  23 GkvavvaGyGdvGkGcaaslkglGarvivtevdPicalqaameGfevvtleevvkkadivvttt....Gnkdiitlehlkkmkdda 104
                               k++ ++G+G +G+  a+ + g+     +   dP+     + +  +v+ l+e+ +++di+   t     +k +it+e l+ mk+da
  PHY93_19910|PHY93_19910 142 KKKVGIVGFGRIGQIVAKRISGFEPE--ILFFDPVLMSSDLPNTKKVNDLKEIFSTCDIITLHTplmaQTKGMITSELLNLMKKDA 225
                              588899********999988776665..5568***************************9877633325799************** PP

                              EEEE-S CS
            AdoHcyase_NAD 105 ivcniG 110
                              i+ n  
  PHY93_19910|PHY93_19910 226 ILVNAS 231
                              **9964 PP

>> Gp_dh_N  Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.1   1.3e-05     0.039       2      20 ..     144     162 ..     143     175 .. 0.88
   2 ?   -3.4   0.0       4.3   1.3e+04      23      36 ..     293     306 ..     282     311 .. 0.62

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.3e-05
                              EEEEESTSHHHHHHHHHHH CS
                  Gp_dh_N   2 kvainGfGRIGrlvlrall 20 
                              kv+i GfGRIG++v++ + 
  PHY93_19910|PHY93_19910 144 KVGIVGFGRIGQIVAKRIS 162
                              8*************99875 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 4.3
                              TTCEEEEEE-TS-H CS
                  Gp_dh_N  23 kelevvaindltdl 36 
                               e+ v +in++ ++
  PHY93_19910|PHY93_19910 293 GEMAVHQINEFFKN 306
                              45667777775554 PP

>> IlvN  Acetohydroxy acid isomeroreductase, NADPH-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   2.7e-05      0.08       3      94 ..     141     230 ..     139     241 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 2.7e-05
                              HTS-EEEES-SHHHHHHHHHHHHTT--EEEEE-TT-HHHHHHHHTT-EEEEHHHHHHT-SEEEE-S-HHHHHH.HHHHHTGGG--T CS
                     IlvN   3 kgkkiaviGyGsqGhaqalnlrdsgldvvvglregsksvkkAkeegfevltvaeavkkadvvmiliPDelqke.vyeeeiepnlke 87 
                               +kk+ ++G+G  G+  a+ +  sg++  +   +    +++   +  +v +++e+ ++ d++++ +P ++q++ ++++e+ + +k+
  PHY93_19910|PHY93_19910 141 WKKKVGIVGFGRIGQIVAKRI--SGFEPEILFFDPV-LMSSDLPNTKKVNDLKEIFSTCDIITLHTPLMAQTKgMITSELLNLMKK 223
                              579**************9976..6777666555554.56666778889*******************999865488999******* PP

                              T-EEEES CS
                     IlvN  88 gkalafa 94 
                              +++l+ a
  PHY93_19910|PHY93_19910 224 DAILVNA 230
                              9999866 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (314 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       493  (0.0274974); expected 358.6 (0.02)
Passed bias filter:                      410  (0.022868); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.41
# Mc/sec: 2322.33
//
Query:       PHY93_19915|PHY93_19915  [L=462]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     1e-157  525.4   0.0   1.2e-157  525.2   0.0    1.0  1  Adenylsucc_synt  Adenylosuccinate synthetase
  ------ inclusion threshold ------
       0.16   11.0   0.0          1    8.3   0.0    1.9  2  LuxC             Acyl-CoA reductase (LuxC)


Domain annotation for each model (and alignments):
>> Adenylsucc_synt  Adenylosuccinate synthetase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  525.2   0.0  1.3e-161  1.2e-157       2     419 .]       5     416 ..       4     416 .. 0.95

  Alignments for each domain:
  == domain 1  score: 525.2 bits;  conditional E-value: 1.3e-161
                              EEEE-SSS-S-HHHHHHHHHTT-SEEEE-SB-TTSSEEEEETTEEEEESSS-GGGGSTT-EEEE-TTBEE-HHHHHHHHTTSS-TT CS
          Adenylsucc_synt   2 vvvGaqwGDEGKGkivDllaeeadvvvRfqGGanAGHtvvvdgkkyklhllpSGilnpgvvnviGngvvvdpealleEieeleakg 87 
                              +++G+qwGDEGKGki+Dll+e++dvvvR+qGG+nAGHt++vdg+k++lhl+pSGil+p+ v+viG+gvv++pea+ +E+++++++g
  PHY93_19915|PHY93_19915   5 AIIGSQWGDEGKGKITDLLSEKCDVVVRYQGGNNAGHTIIVDGRKIVLHLIPSGILHPHSVSVIGHGVVFEPEAFQTELKKVADAG 90 
                              79************************************************************************************ PP

                              ......TEEEETTSEE--HHHHHHHHHHHHH----------TTHHHHHHHHHTT---BGGGGGSHHHHHHHHHHHHHHTHHHHHHT CS
          Adenylsucc_synt  88 velskerllisdrahlvlpyhkalDkleeaakgkkkiGtTkkGiGpayadkvarrgirvgdlldeeeleeklekllelknkllekl 173
                              + +++++l+is+++++++ y k+lD+++e++ g+ kiGtT+kGiGpay+dk+arr+i+++dl+d e+l++kl+++le+k++l+++ 
  PHY93_19915|PHY93_19915  91 IVVTSKNLKISENVTVITSYNKLLDAARESQ-GAVKIGTTGKGIGPAYEDKIARRAIKLKDLFDLESLKSKLARNLEEKETLFKHR 175
                              ***9*************************95.569************************************************998 PP

                              ......T-----HHHHHHHHHHHHGGGEE-HHHHHHHHHHTT--EEEE--S-GGG-TTTSSTTSS-SS--SHHHHHHHTT--GGGE CS
          Adenylsucc_synt 174 dk...eeleveelleellkyaerlkpyvvdtvallnealkegkkvLfEGaqgtllDidhGtYPfvTsSnttaggaltglglapkki 256
                              ++    +++ ee   +l ++ ++++p+++dt ++l++a++++kk+LfEGaqg+llDid+GtYP+vTsS+t +gg++tg+g++ +++
  PHY93_19915|PHY93_19915 176 YDiafPSVD-EEA-LRLFDLGKNIAPFMCDTFSYLDQAIQDNKKILFEGAQGVLLDIDYGTYPYVTSSSTAVGGIYTGAGIPESHV 259
                              866555555.444.45689******************************************************************* PP

                              EEEEEEEESSEEESSSS--TTB--SHHHHHHHHHTT-B-TTT--B-EEE-EEHHHHHHHHHHHT-SEEEEE-GGGGTT-SEEEEEE CS
          Adenylsucc_synt 257 devlgvvKAyttrvGeGpfptelkdevgeklrekGkEfgtttgrpRrcGwlDlvllryavrvngvtelaltklDvldgldeikvcv 342
                              +evlg++KAyttrvGeGpfptel+d++ge++++kG+Efg+ttgr+RrcGwlDl+ll+y+v+++++t++altklD+l g+ e+kvcv
  PHY93_19915|PHY93_19915 260 EEVLGITKAYTTRVGEGPFPTELFDAMGEEIQTKGQEFGATTGRKRRCGWLDLPLLKYSVKASNLTSIALTKLDILCGISELKVCV 345
                              ************************************************************************************** PP

                              EEEETTEEES.S--S.....-GEEEEEEEEE--.S--TT---GGGS-HHHHHHHHHHHHHHTS-EEEEE-SSSTT-EE CS
          Adenylsucc_synt 343 aYkldgkeld.efpasleelekvepvyeelpgWkedisgvrsfedlpenakkyvefieellgvpvkiisvGpereqti 419
                              aY+++g +++  +p    +l+k++p+y++++ + +d++g++s      +++ y++ ie++lg+pv ii++Gper+++i
  PHY93_19915|PHY93_19915 346 AYEYEGARIEvAYP--GIDLTKAKPIYKSMKPFADDFKGAQS-----PELEMYIAEIENFLGIPVGIIAFGPERKEII 416
                              *******9874555..466999***********999888764.....4789************************997 PP

>> LuxC  Acyl-CoA reductase (LuxC)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   0.0   0.00011         1     151     227 ..       4      88 ..       1      93 [. 0.82
   2 ?    0.2   0.0     0.033   2.9e+02      39      77 ..     137     175 ..      97     184 .. 0.76

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.00011
                     LuxC 151 lsvv..yf.ksgdtkleeeivqnaDvvvaw.Ggeeaikaise.klkpgkqlikfG..akvSfavvdkea.leeealdkaaeraAk 227
                              l+++   + ++g+ k+ + ++++ Dvvv + Gg++a ++i+    k   +li  G  +  S++v+++ + +e+ea ++ ++++A+
  PHY93_19915|PHY93_19915   4 LAIIgsQWgDEGKGKITDLLSEKCDVVVRYqGGNNAGHTIIVdGRKIVLHLIPSGilHPHSVSVIGHGVvFEPEAFQTELKKVAD 88 
                              566544588999****************98899***9999987999999999988667789999998762559999999999886 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.033
                     LuxC  39 yeealleilkalaallkreeLkkvleseLgqpeiLdefl 77 
                              ye ++++   +l +l++ e+Lk +l ++L+++e L + +
  PHY93_19915|PHY93_19915 137 YEDKIARRAIKLKDLFDLESLKSKLARNLEEKETLFKHR 175
                              555555554458899999***********9999986655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (462 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       386  (0.0215294); expected 358.6 (0.02)
Passed bias filter:                      367  (0.0204696); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.55u 0.26s 00:00:00.81 Elapsed: 00:00:00.43
# Mc/sec: 3221.07
//
Query:       PHY93_19920|PHY93_19920  [L=288]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.05   13.3   0.1          4    7.2   0.0    2.6  3  DUF2102   Uncharacterized protein conserved in archaea (DUF21


Domain annotation for each model (and alignments):
>> DUF2102  Uncharacterized protein conserved in archaea (DUF2102)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.8   0.0      0.59   1.1e+04      81      88 ..      37      44 ..      34      51 .. 0.78
   2 ?    3.3   0.0    0.0038        68       3      58 ..      71     125 ..      69     127 .. 0.78
   3 ?    7.2   0.0   0.00022         4      30      49 ..     128     147 ..     125     154 .. 0.88

  Alignments for each domain:
  == domain 1  score: -3.8 bits;  conditional E-value: 0.59
                  DUF2102 81 aRpGfhql 88
                             aRpG++  
  PHY93_19920|PHY93_19920 37 ARPGYTRA 44
                             79999865 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.0038
                  DUF2102   3 vieseaevtpselvrkvyeleedvtiketCfGllvegeeeevekvveevrkldpnk 58 
                              +++++ae++ ++ +++    + d  i +tC G++ ++ ++++++++ + ++  +++
  PHY93_19920|PHY93_19920  71 FLKNSAEISMNDYANEYIDHQIDA-ILKTCAGAFPTTLQSKIDNAILKCKTSTREH 125
                              667777788888887766666664.667*****************99998877766 PP

  == domain 3  score: 7.2 bits;  conditional E-value: 0.00022
                  DUF2102  30 etCfGllvegeeeevekvve 49 
                              + C+G+l+++++++v +v++
  PHY93_19920|PHY93_19920 128 KECYGALITAKTSSVATVIR 147
                              67**************9996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (288 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       820  (0.045736); expected 358.6 (0.02)
Passed bias filter:                      491  (0.0273858); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.20s 00:00:00.68 Elapsed: 00:00:00.37
# Mc/sec: 2339.04
//
Query:       PHY93_19925|PHY93_19925  [L=89]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.065   13.3   0.0       0.08   13.0   0.0    1.2  1  Nucleoporin2  Nucleoporin autopeptidase


Domain annotation for each model (and alignments):
>> Nucleoporin2  Nucleoporin autopeptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   4.5e-06      0.08      16      62 ..      37      87 ..      25      89 .] 0.80

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 4.5e-06
                             S-HHHHTSBSS-EEEETT....TEEEEESS-B--GGG-HHHHBTTTEEEET CS
             Nucleoporin2 16 mseeelsavkdFtvgrkg....vGsveFlepvdlssldldeiagkivklek 62
                             ++e+el+++ +F+++  +    + +v ++++vdl +l+ +ei ++i+++++
  PHY93_19925|PHY93_19925 37 LEEDELHSLGEFIISYFNkkilLDHVFWERSVDLCHLNDEEIENEIIQIRN 87
                             5677888888888864332222689************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (89 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       390  (0.0217525); expected 358.6 (0.02)
Passed bias filter:                      237  (0.0132188); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.38u 0.20s 00:00:00.58 Elapsed: 00:00:00.36
# Mc/sec: 733.06
//
Query:       PHY93_05620|PHY93_05620  [L=137]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.3e-10   39.8   0.0    5.2e-10   39.5   0.0    1.1  1  Response_reg  Response regulator receiver domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.5   0.0   2.9e-14   5.2e-10       1     107 [.      12     128 ..      12     133 .. 0.84

  Alignments for each domain:
  == domain 1  score: 39.5 bits;  conditional E-value: 2.9e-14
                              EEEESSSHHHHHHHHHHHH..HTTEEEEEEESSHHHHHHHH......HHHH...ESEEEEESSCSS.SEHHHHHHHHHHCTTTSEE CS
             Response_reg   1 vlivdDdplvrellrqlle..eegyeevaeaedgkealell......keek...vdlillDinmpg.mdGlellkeireedpelpv 74 
                              v++v+Dd  + +++ ++l   +  + + + a++++ea++ l      k  +   +dl+++Di ++g  +Gl+l k  +++ p+++v
  PHY93_05620|PHY93_05620  12 VFVVEDDLELSTVIDRILIsiDPTL-HLEWATTAEEAIATLvkrskeK--NnnpYDLMICDIFLEGaRNGLDLWKFCHTHYPSMKV 94 
                              89****************9766667.999**********998776431..2568************89****************** PP

                              EEEESSTSHHHHHHHH..HCTESEEEESSG-HHHH CS
             Response_reg  75 iiltahseeedaveal..kagaddflsKpfdpeeL 107
                              +++++ +  e ++e l    ++  flsKpf+ ++ 
  PHY93_05620|PHY93_05620  95 VVISGID-LEKLTELLdsHEEVPLFLSKPFSVSDC 128
                              ****765.677778883345677899999998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (137 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       428  (0.0238719); expected 358.6 (0.02)
Passed bias filter:                      396  (0.0220871); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.38u 0.20s 00:00:00.58 Elapsed: 00:00:00.35
# Mc/sec: 1168.56
//
Query:       PHY93_19930|PHY93_19930  [L=72]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.4e-07   30.7   0.3    4.7e-07   29.8   0.0    1.7  2  HTH_3            Helix-turn-helix
    0.00041   20.6   0.0    0.00047   20.4   0.0    1.2  1  HTH_31           Helix-turn-helix domain
    0.00058   20.1   1.2    0.00072   19.8   1.2    1.3  1  FCH              Fes/CIP4, and EFC/F-BAR homology domain
    0.00078   19.4   0.1      0.001   19.0   0.1    1.2  1  HTH_19           Helix-turn-helix domain
  ------ inclusion threshold ------
      0.012   16.4   0.1      0.015   16.1   0.1    1.1  1  Colicin-DNase    DNase/tRNase domain of colicin-like bacterio
      0.036   14.0   0.4      0.036   14.0   0.4    1.1  1  RF-1             RF-1 domain
      0.044   14.3   0.2      0.099   13.1   0.2    1.7  1  Phage_int_SAM_4  Phage integrase, N-terminal SAM-like domain


Domain annotation for each model (and alignments):
>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.1       2.4     6e+03      41      45 ..      12      16 ..       5      17 .. 0.56
   2 !   29.8   0.0   1.8e-10   4.7e-07       1      55 []      19      72 .]      19      72 .] 0.94

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 2.4
                             HHHHH CS
                    HTH_3 41 lkkla 45
                             l+kla
  PHY93_19930|PHY93_19930 12 LEKLA 16
                             44444 PP

  == domain 2  score: 29.8 bits;  conditional E-value: 1.8e-10
                             HHHHHHHTTHHHHHHHHHHT..SSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHHHH CS
                    HTH_3  1 lkelRkqlglsqeeLAeklG..vsrstisriEnGernPsletlkklakaLgvsldel 55
                             +k++R+++ l q   A+++    s ++i+++E+G+ +P+l t+ +la+++g++l el
  PHY93_19930|PHY93_19930 19 IKKARLKNQLRQ---ADMIEfgFSERYIQKLESGKYSPNLYTVHRLADTFGLELFEL 72
                             8999**999999...8888888******************************99886 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.4   0.0   1.8e-07   0.00047       7      57 ..      20      68 ..      11      72 .] 0.86

  Alignments for each domain:
  == domain 1  score: 20.4 bits;  conditional E-value: 1.8e-07
                   HTH_31  7 ralReraGLsqeevAerlgvsestlsrlEqGrrgrpspavlealaralgld 57
                             + +R +  L+q+++    g+se ++ +lE+G+   p + ++ +la+ +gl+
  PHY93_19930|PHY93_19930 20 KKARLKNQLRQADM-IEFGFSERYIQKLESGKY-SPNLYTVHRLADTFGLE 68
                             55677778899997.7799**************.6*************986 PP

>> FCH  Fes/CIP4, and EFC/F-BAR homology domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.8   1.2   2.8e-07   0.00072      30      51 ..       5      27 ..       2      62 .. 0.75

  Alignments for each domain:
  == domain 1  score: 19.8 bits;  conditional E-value: 2.8e-07
                             HHHHHHHHHHHCT----TT.-.. CS
                      FCH 30 EkeYakkLqkLakkylkrr.kkk 51
                             Ek+Yak+L+kLak+++k r k++
  PHY93_19930|PHY93_19930  5 EKNYAKALEKLAKNIKKARlKNQ 27
                             9****************985543 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.0   0.1     4e-07     0.001       2      55 ..      17      68 ..      16      72 .] 0.94

  Alignments for each domain:
  == domain 1  score: 19.0 bits;  conditional E-value: 4e-07
                   HTH_19  2 erLkeaReelgltqeelaerlgisrskisaiEngkkdvpsaelllkiaealgid 55
                             +++k+aR +++l q+++ e  g+s ++i ++E+gk+  p+  ++ ++a ++g++
  PHY93_19930|PHY93_19930 17 KNIKKARLKNQLRQADMIE-FGFSERYIQKLESGKY-SPNLYTVHRLADTFGLE 68
                             79****************9.**************99.***9999****999987 PP

>> Colicin-DNase  DNase/tRNase domain of colicin-like bacteriocin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   16.1   0.1   5.7e-06     0.015      20      83 ..       5      69 ..       1      71 [. 0.74

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 5.7e-06
            Colicin-DNase 20 eeellkksrevqfksankklkeelakdpklankftkeqleqi.kkgkkpngytWHHhqdlgtlqL 83
                             e+++ k+ ++   +  + +lk++l +    +  f+++ ++++ + ++ pn yt+H   d+  l+L
  PHY93_19930|PHY93_19930  5 EKNYAKALEKLAKNIKKARLKNQLRQADMIEFGFSERYIQKLeSGKYSPNLYTVHRLADTFGLEL 69
                             455555555555666666677777777777777*********888899*********99987776 PP

>> RF-1  RF-1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.4   1.4e-05     0.036      52      82 ..       2      32 ..       1      58 [. 0.82

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.4e-05
                             SSHHHHHHHHHHHHHHHHHHHHHHHCCCCCH CS
                     RF-1 52 RsqekNrekAlerLkaklkekeleeekeeek 82
                             R+ ekN +kAle+L++ +k+++l+++ ++++
  PHY93_19930|PHY93_19930  2 RNTEKNYAKALEKLAKNIKKARLKNQLRQAD 32
                             899***************8887777766554 PP

>> Phage_int_SAM_4  Phage integrase, N-terminal SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.2   3.9e-05     0.099      17      49 ..       3      36 ..       1      62 [. 0.87

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 3.9e-05
          Phage_int_SAM_4 17 rTiksYlsaikrflrflkkkap.eeltkedieaY 49
                             +T+k+Y  a++ +++ +kk +  ++l ++d++++
  PHY93_19930|PHY93_19930  3 NTEKNYAKALEKLAKNIKKARLkNQLRQADMIEF 36
                             8*****************7777699999999987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (72 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1332  (0.074293); expected 358.6 (0.02)
Passed bias filter:                      877  (0.0489152); expected 358.6 (0.02)
Passed Vit filter:                        72  (0.00401584); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.38
# Mc/sec: 562.90
//
Query:       PHY93_19935|PHY93_19935  [L=126]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    7.4e-17   61.5   0.0    8.4e-17   61.4   0.0    1.0  1  Response_reg  Response regulator receiver domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.4   0.0   4.7e-21   8.4e-17       1     111 [.       9     117 ..       9     118 .. 0.93

  Alignments for each domain:
  == domain 1  score: 61.4 bits;  conditional E-value: 4.7e-21
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseeeda 86 
                              +li+dD+p ++el+++ ++++ y +   a++g ea+++lk + +dl++ D +mp+ +G+ +l+ ++  ++++  +++++   e + 
  PHY93_19935|PHY93_19935   9 ILIADDEPGILELMADTFNSHRY-DLYLASNGMEAIDILKLKVIDLVISDFRMPNGNGMAILNFVNLMEKKPIFLFFSSDF-ELES 92 
                              8**********************.****************************************99999777777777655.5778 PP

                              HHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  87 vealkagaddflsKpfdpeeLlkal 111
                              +++lk+g++++  Kpf+  +L++ +
  PHY93_19935|PHY93_19935  93 NDCLKLGVKQVFPKPFSLCQLISEV 117
                              9*****************9999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (126 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       291  (0.0162307); expected 358.6 (0.02)
Passed bias filter:                      234  (0.0130515); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.37u 0.18s 00:00:00.55 Elapsed: 00:00:00.34
# Mc/sec: 1123.59
//
Query:       PHY93_19940|PHY93_19940  [L=487]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.2e-07   32.0   0.0    1.8e-07   31.4   0.0    1.3  1  Peptidase_C92  Permuted papain-like amidase enzyme, YaeF/YiiX


Domain annotation for each model (and alignments):
>> Peptidase_C92  Permuted papain-like amidase enzyme, YaeF/YiiX, C92 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.4   0.0     1e-11   1.8e-07       3     166 ..     178     353 ..     176     354 .. 0.83

  Alignments for each domain:
  == domain 1  score: 31.4 bits;  conditional E-value: 1e-11
            Peptidase_C92   3 ekGdiifqtsraslseainpata..sefkHvgiv.vgeegderlvveaaakegvrvtpLseflar.rssiavyrlkea.....lta 79 
                              ++Gdi  ++  + +s  i+++ +  s f+H   v v++e++e++ +e+   +gv++ p++e l++ + +i ++r k+a     + +
  PHY93_19940|PHY93_19940 178 RNGDIMITKGVSFVSSTISEIGHprSLFSHIVFVhVDKETKEVMTIESYVGKGVTLYPIEEALKNeNARILILRSKDAdlagrAAD 263
                              789**99999999999999999988999**6654277788*********************9998899999999999986554444 PP

            Peptidase_C92  80 eqrqkaaeaalrrlgkpYdfgFele.ddrlYCsklVakaykealgikvktvellgklllknpdsklkl...leletvlpqslaesp 161
                                 +k+++  ++   +pYd+  + + +++l C ++ ++++k+a+  kv  +e ++++++++          ++  + +p+++ ++ 
  PHY93_19940|PHY93_19940 264 YMYNKVVDLKKENKFIPYDYDLDFSdNSKLSCEEVAYDSFKQASEGKVILPEVMSQITMNDASFLN-RiglKKGAMMVPNDMETDS 348
                              55688899999999999*9999999566799***************************96644333.2577888888899998887 PP

            Peptidase_C92 162 alelv 166
                              +   v
  PHY93_19940|PHY93_19940 349 RFDIV 353
                              77665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (487 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       466  (0.0259914); expected 358.6 (0.02)
Passed bias filter:                      406  (0.0226449); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.38
# Mc/sec: 3831.06
//
Query:       PHY93_19945|PHY93_19945  [L=424]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.8e-21   75.4   1.9    4.1e-21   74.9   0.4    2.2  2  Flg_bbr_C    Flagellar basal body rod FlgEFG protein C-termin
    5.6e-19   68.9  19.6    2.2e-18   67.0   9.3    3.2  3  FlaE         Flagellar basal body protein FlaE
    2.2e-06   27.5   0.7    6.9e-06   25.9   0.7    2.0  1  Flg_bb_rod   Flagella basal body rod protein
  ------ inclusion threshold ------
       0.16   12.3   2.1       0.42   11.0   2.1    1.7  1  Flagellin_C  Bacterial flagellin C-terminal helical region


Domain annotation for each model (and alignments):
>> Flg_bbr_C  Flagellar basal body rod FlgEFG protein C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.1       2.6   1.2e+04       4      18 ..     252     266 ..     247     273 .. 0.68
   2 !   74.9   0.4   9.2e-25   4.1e-21       2      73 ..     347     423 ..     346     424 .] 0.93

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 2.6
                Flg_bbr_C   4 ekggdnlyretsgap 18 
                              +k+g+n++  ++ga+
  PHY93_19945|PHY93_19945 252 KKEGKNVFNFNKGAA 266
                              488999995555554 PP

  == domain 2  score: 74.9 bits;  conditional E-value: 9.2e-25
                Flg_bbr_C   2 glekggdnlyrets..gapilga.dadg..kvaqgflegSNVnlveemtnlieaqraYeanakvittademlqtaln 73 
                              gl k+g+nl++e++  g++ lg  +++g   v +  +e SNV++++e++nl++aqr+++anak++ttad+mlq++l+
  PHY93_19945|PHY93_19945 347 GLFKIGKNLFKESKasGQAALGKpGESGraEVLSKSIELSNVDIANEFVNLMTAQRNFQANAKTLTTADQMLQEVLQ 423
                              899*******999999998899669999888*******************************************998 PP

>> FlaE  Flagellar basal body protein FlaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.1   0.1    0.0075        34      58      80 ..     108     130 ..      92     179 .. 0.61
   2 !   67.0   9.3   4.8e-22   2.2e-18       4     121 ..     181     305 ..     177     306 .. 0.85
   3 ?    3.0   0.5     0.033   1.5e+02      56      91 ..     309     386 ..     306     416 .. 0.53

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.0075
                     FlaE  58 tgtltFdssGkltsvsaetlase 80 
                               g+l+Fd++G+lt+++  ++   
  PHY93_19945|PHY93_19945 108 DGSLHFDKEGSLTTMDGYKVLGF 130
                              689***********775544333 PP

  == domain 2  score: 67.0 bits;  conditional E-value: 4.8e-22
                     FlaE   4 pttynsstsvtvYDslGnsheltlyFvktgtpntWevyvtvDgkevdaa....atalstgtltFdssGkltsvsaetlasesslea 85 
                              ++t n s+s+t+YD+ G++ ++t y+ kt+ +ntWe+++++Dgk+v+ +      ++++g+l F+++G+l++ ++++ +    ++ 
  PHY93_19945|PHY93_19945 181 EKTSNFSNSMTIYDNIGTARTVTAYYNKTD-NNTWEYHIAADGKDVEGGkpdtMYEQASGSLIFNDKGQLQEKKEGKNV----FNF 261
                              68999*************************.8*************99999998888999*************4444333....455 PP

                     FlaE  86 aasstntqtitldfgll.k.......gstqyasafsvnsltqdG 121
                              ++++++ q+i+++ g++ k        stqy+s++++ + tqdG
  PHY93_19945|PHY93_19945 262 NKGAAQGQKINFNWGQSiKeggtgldASTQYGSDSAIARHTQDG 305
                              5666688999999988877776666666***************9 PP

  == domain 3  score: 3.0 bits;  conditional E-value: 0.033
                     FlaE  56 lstgtltFdssGkltsvsaetlase..s.s.leaaasst.......................................n 91 
                              ++ ++l+F+++G lt + ++  + +  + + ++ +++ +                                       +
  PHY93_19945|PHY93_19945 309 ATLTSLSFNDKGILTANYNNGETRDiaQiAvAKFENN-EglfkigknlfkeskasgqaalgkpgesgraevlsksielS 386
                              56789*********99444433333422323222222.23556666666665555555555555555555555544442 PP

>> Flg_bb_rod  Flagella basal body rod protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.9   0.7   1.5e-09   6.9e-06       3      31 .]       9      37 ..       7      37 .. 0.96

  Alignments for each domain:
  == domain 1  score: 25.9 bits;  conditional E-value: 1.5e-09
               Flg_bb_rod  3 tavsALnaqqialdvianNiANanTtGyK 31
                             ++vs+Lna  + + vi++NiANa T+GyK
  PHY93_19945|PHY93_19945  9 IGVSGLNASGQGMGVIGDNIANAGTNGYK 37
                             79**************************9 PP

>> Flagellin_C  Bacterial flagellin C-terminal helical region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   2.1   9.3e-05      0.42      44      84 ..     383     423 ..     376     424 .] 0.92

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 9.3e-05
                              CHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHCTCCHHHHHH CS
              Flagellin_C  44 srledvDpaeestrvtklqiliqasyallaqanqlpqslln 84 
                               +l +vD+a+e +++ ++q   qa+ + l  a q+ q++l+
  PHY93_19945|PHY93_19945 383 IELSNVDIANEFVNLMTAQRNFQANAKTLTTADQMLQEVLQ 423
                              4799***********************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (424 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       686  (0.038262); expected 358.6 (0.02)
Passed bias filter:                      390  (0.0217525); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.53u 0.19s 00:00:00.72 Elapsed: 00:00:00.37
# Mc/sec: 3476.24
//
Query:       PHY93_19950|PHY93_19950  [L=138]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.1e-08   32.3   1.8    6.1e-08   32.3   1.8    2.3  2  Flagellar_put  Putative flagellar
  ------ inclusion threshold ------
      0.055   13.8   1.1       0.12   12.7   1.1    1.8  1  DUF4258        Domain of unknown function (DUF4258)


Domain annotation for each model (and alignments):
>> Flagellar_put  Putative flagellar
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.1       0.3   2.7e+03      18      22 ..      22      26 ..      22      26 .. 0.92
   2 !   32.3   1.8   6.8e-12   6.1e-08       2      24 .]     116     138 .]     116     138 .] 0.96

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 0.3
            Flagellar_put 18 NIDSA 22
                             N DSA
  PHY93_19950|PHY93_19950 22 NVDSA 26
                             99**9 PP

  == domain 2  score: 32.3 bits;  conditional E-value: 6.8e-12
            Flagellar_put   2 VITAmdkeemkenVFTNIDSAVi 24 
                              ++TA+dk++  enVFT IDS+++
  PHY93_19950|PHY93_19950 116 IVTAIDKDSIGENVFTKIDSTIL 138
                              79*******************96 PP

>> DUF4258  Domain of unknown function (DUF4258)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   1.1   1.4e-05      0.12       1      17 [.      60      76 ..      60     121 .. 0.93

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 1.4e-05
                  DUF4258  1 fsaHArermaeRgIsee 17
                             +s+HA++r++eR++s++
  PHY93_19950|PHY93_19950 60 LSTHAMRRLQERNLSID 76
                             699**********9865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (138 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       579  (0.032294); expected 358.6 (0.02)
Passed bias filter:                      384  (0.0214178); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.41u 0.19s 00:00:00.60 Elapsed: 00:00:00.36
# Mc/sec: 1143.04
//
Query:       PHY93_19955|PHY93_19955  [L=286]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    2.4e-19   69.4   1.6    4.1e-19   68.7   1.6    1.5  1  FlgD        Flagellar hook capping protein - N-terminal regio
      2e-10   40.4   1.3    2.8e-10   39.9   0.2    1.8  2  FlgD_ig     FlgD Ig-like domain
    2.6e-07   30.8   0.0    1.4e-06   28.4   0.0    2.1  1  FLgD_tudor  FlgD Tudor-like domain
  ------ inclusion threshold ------
      0.037   14.4   0.0      0.081   13.3   0.0    1.6  1  DUF2369     Uncharacterised conserved protein (DUF2369)


Domain annotation for each model (and alignments):
>> FlgD  Flagellar hook capping protein - N-terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.7   1.6   9.2e-23   4.1e-19      19      74 ..      54     109 ..       9     110 .. 0.89

  Alignments for each domain:
  == domain 1  score: 68.7 bits;  conditional E-value: 9.2e-23
                     FlgD  19 sdksegeltqddFLkLLtaqLknQDPlnPmDnnqmisQlaqfStveqveklndslg 74 
                              ++k+ ++l+ d F+kLL  qLknQDP++PmD++++ s laqfS++eq++ +n++++
  PHY93_19955|PHY93_19955  54 DRKTHETLGPDGFMKLLAHQLKNQDPMKPMDQKDFSSNLAQFSQLEQLTAMNKKMD 109
                              6789999**********************************************996 PP

>> FlgD_ig  FlgD Ig-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0       1.8   7.9e+03      17      37 ..      24      44 ..      16      46 .. 0.76
   2 !   39.9   0.2   6.1e-14   2.8e-10       4      74 ..     138     209 ..     135     214 .. 0.87

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 1.8
                             E.ESSSEEEEEEEE-SS--EE CS
                  FlgD_ig 17 elpeaadevtvtikDasGevV 37
                             e++ +a++v+ +i D+ ++ V
  PHY93_19955|PHY93_19955 24 EIQGDAQAVNPKIGDELNKMV 44
                             467788888888888888777 PP

  == domain 2  score: 39.9 bits;  conditional E-value: 6.1e-14
                              EEE-SS--.EEEEEE.ESSSEEEEEEEE-SS--EEEEEEEEESSSEEEEEEE-SB-TTS-B--SEEEEEEEE CS
                  FlgD_ig   4 isllgdge.aplgvelpeaadevtvtikDasGevVrtidlgaqsaGvvsftWdGtdndGnkladGaYtvkvt 74 
                              + ++g+g+  +l + l+++a++v ++i+D +++ + ++d ++  +G++ +tWdG + dG+ +++ +Y + v 
  PHY93_19955|PHY93_19955 138 VDYNGEGKnVELPFYLDKSAKNVIIRIYDNKNQMIGKVDKEDLGKGQQAVTWDGVGLDGQIAPKEQYHFDVF 209
                              555555554666677*****************************************************9985 PP

>> FLgD_tudor  FlgD Tudor-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.4   0.0   3.2e-10   1.4e-06       5      57 ..     122     253 ..     120     254 .. 0.98

  Alignments for each domain:
  == domain 1  score: 28.4 bits;  conditional E-value: 3.2e-10
                              HTTCTTTSEEEEE......................................................................... CS
                              xxxxxxxxxxxxx......................................................................... RF
               FLgD_tudor   5 qAasLiGkeVlvp......................................................................... 17 
                              q+as+ Gk+V ++                                                                         
  PHY93_19955|PHY93_19955 122 QGASYLGKKVVTSgttvdyngegknvelpfyldksaknviiriydnknqmigkvdkedlgkgqqavtwdgvgldgqiapkeqyhfd 207
                              9************************************************************************************* PP

                              .......TEEEEE-EEEEEEEEEEEE.ETTEEEEEETTEE.EECCCB CS
                              .......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
               FLgD_tudor  18 .......GtsvaattlvygtVdsVslstggglmLnLglggtvplsdV 57 
                                     +++    t + gtV++V++ ++g+++L++++g++v l dV
  PHY93_19955|PHY93_19955 208 vfafddkNEKFMGVTRAEGTVTGVRF-ENGETILDVSGGRKVYLKDV 253
                              *****999999999************.******************99 PP

>> DUF2369  Uncharacterised conserved protein (DUF2369)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   1.8e-05     0.081      13      33 ..     197     217 ..     194     282 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.8e-05
                  DUF2369  13 eLkpdtqYyfdVFvvdqkrnt 33 
                              ++ p++qY+fdVF+ d k+++
  PHY93_19955|PHY93_19955 197 QIAPKEQYHFDVFAFDDKNEK 217
                              6789************99973 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (286 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       590  (0.0329076); expected 358.6 (0.02)
Passed bias filter:                      352  (0.019633); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.39
# Mc/sec: 2176.06
//
Query:       PHY93_19960|PHY93_19960  [L=224]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
     0.0011   18.8   0.2     0.0021   17.9   0.2    1.5  1  Flg_hook    Flagellar hook-length control protein FliK
  ------ inclusion threshold ------
      0.021   14.8   2.1      0.046   13.8   2.1    1.5  1  DUF1664     Protein of unknown function (DUF1664)
       0.14   12.6   0.6       0.31   11.4   0.0    1.9  2  EF-hand_14  EF-hand domain


Domain annotation for each model (and alignments):
>> Flg_hook  Flagellar hook-length control protein FliK
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.2   3.5e-07    0.0021       4      76 ..      82     162 ..      79     171 .. 0.87

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 3.5e-07
                              HHHHHCCTTSEEEEEECCCCCEEEEEEEEEETTE........EEEEEEE-SCHHHHHHHHTHHHHHHHHHCCTTCCEEEEE CS
                 Flg_hook   4 vakaasngsqeatlrLdppeLGkvevkltlrggq........lsvqltaenpetrelLeqnlprLreaLaaaGlklddlsv 76 
                              v +++ +++ +++l+ + + LG+ ++++++   +        +  q+t++++e  + + +n  +L + L++aG++l+dl +
  PHY93_19960|PHY93_19960  82 VEQNQVANKGSLDLTVKHESLGEFKIQVSKMPSSstnqvqnlIDMQITTSSKEGHDFFVKNEVSLMKNLNQAGVNLSDLRI 162
                              56777788999*****************77777556777788***********************************9876 PP

>> DUF1664  Protein of unknown function (DUF1664)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   2.1   7.6e-06     0.046      41     112 ..      12      84 ..       6      90 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 7.6e-06
                  DUF1664  41 davesvskqleqvseslaatkrhLssridrvdkkldeqkeiskeikeevtevre.dlseigedvesvkeaveg 112
                              +a++++ +  ++v ++l+a k+++   i++  ++  +q+e++++++++v ++++ +++++ e ++ +++ ve+
  PHY93_19960|PHY93_19960  12 SAIDELRTPDTKVGAELSAIKQDMIPGIQNNKNNHGQQAETQTQTNQKVLDLSKiNTANTTEIIKRISDYVEQ 84 
                              56666666668999************************************9976599999999****999986 PP

>> EF-hand_14  EF-hand domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.2      0.65   3.9e+03      64      64 ..      62      62 ..      35     101 .. 0.61
   2 ?   11.4   0.0   5.1e-05      0.31      21      57 ..     145     181 ..     132     206 .. 0.81

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.65
               EF-hand_14 64 d 64
                             d
  PHY93_19960|PHY93_19960 62 D 62
                             3 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 5.1e-05
               EF-hand_14  21 kllkaLaetGirkdDpRLkellkklkkvekekseaee 57 
                               l+k+L+++G++ +D+R+ +++++   + +++s++++
  PHY93_19960|PHY93_19960 145 SLMKNLNQAGVNLSDLRIISTMSEATPFGQSDSRQSS 181
                              699********************99998888764333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (224 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1450  (0.0808746); expected 358.6 (0.02)
Passed bias filter:                      376  (0.0209716); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.38
# Mc/sec: 1779.49
//
Query:       PHY93_11370|PHY93_11370  [L=162]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.012   15.4   1.3      0.025   14.4   0.8    1.7  2  DUF992    Protein of unknown function (DUF992)


Domain annotation for each model (and alignments):
>> DUF992  Protein of unknown function (DUF992)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0      0.17     3e+03      15      23 ..      51      59 ..      45      64 .. 0.81
   2 ?   14.4   0.8   1.4e-06     0.025      84     142 ..     103     160 ..      94     161 .. 0.94

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 0.17
                   DUF992 15 vqvGvLeCe 23
                               vG+L+C 
  PHY93_11370|PHY93_11370 51 NAVGTLTCV 59
                             579****95 PP

  == domain 2  score: 14.4 bits;  conditional E-value: 1.4e-06
                   DUF992  84 kegaLaGeYvGasasaavgvGlganvlvggssksiaLqplsvegqtGlnvaagvaeltL 142
                              ++++L G+Y+ a ++ a+++G+g    v  +  ++++q +sv+   G ++ +gv+++tL
  PHY93_11370|PHY93_11370 103 EPEDLLGSYIVAVGQGALVAGAGVMTAVHATIPHLTMQ-VSVQFVRGFGLNVGVTKMTL 160
                              6799*******************************999.9******************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (162 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       429  (0.0239277); expected 358.6 (0.02)
Passed bias filter:                      286  (0.0159518); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.41
# Mc/sec: 1197.48
//
Query:       PHY93_11375|PHY93_11375  [L=202]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.037   14.5   4.0      0.069   13.7   4.0    1.5  1  LPAM_1    Prokaryotic membrane lipoprotein lipid attachment s
      0.042   13.8   0.0       0.12   12.3   0.0    1.8  1  PQQ       PQQ enzyme repeat


Domain annotation for each model (and alignments):
>> LPAM_1  Prokaryotic membrane lipoprotein lipid attachment site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   4.0   7.7e-06     0.069       1      18 []       1      18 [.       1      18 [. 0.99

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 7.7e-06
                   LPAM_1  1 MKKillalgalllLsGCs 18
                             MKK+++a + +ll+++Cs
  PHY93_11375|PHY93_11375  1 MKKFIFATSCALLVASCS 18
                             *****************9 PP

>> PQQ  PQQ enzyme repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   1.3e-05      0.12       7      32 ..      67      92 ..      64      97 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 1.3e-05
                             ETTSEEEEEETTTCCEEEEEESSSCG CS
                      PQQ  7 sadGylyAlDadTGkvlWrfktggpv 32
                             +++ ++ AlD +TG+++ + ++++++
  PHY93_11375|PHY93_11375 67 QNNCVIKALDSKTGDLVYTRNLNQEI 92
                             57889************999998876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (202 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       727  (0.0405488); expected 358.6 (0.02)
Passed bias filter:                      532  (0.0296726); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.39
# Mc/sec: 1553.70
//
Query:       PHY93_11380|PHY93_11380  [L=244]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.7e-12   46.0   0.1    7.5e-12   45.3   0.1    1.3  1  Haem_degrading  Haem-degrading


Domain annotation for each model (and alignments):
>> Haem_degrading  Haem-degrading
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.3   0.1   4.2e-16   7.5e-12       7     114 ..      33     186 ..      28     190 .. 0.78

  Alignments for each domain:
  == domain 1  score: 45.3 bits;  conditional E-value: 4.2e-16
           Haem_degrading   7 kelgaaarakarek.gkpvviaivdaggqllffarm....dgaspdnedwaerKantaarfg.....kstaalgeklk........ 74 
                              ++++  ar++a+   +  +  +ivd++g + ++a +    d  +p +  ++ +Kanta +f       sta l  +++        
  PHY93_11380|PHY93_11380  33 QKALLEARKEANGGlNLDMWGTIVDRSGVVCAVAFSgeknDSQWPGSRVISAQKANTANAFSlkglaLSTANLYSAVQpgaslfgl 118
                              5555666666665578889999******8888776544436789***************999666667777777777788888888 PP

           Haem_degrading  75 ...............eedya..............grv.ilgGGvpi.rvkggvvGaigvSGlkqeeDhqva 114
                                             +   +              g+v ++gGG+ +   kg +vGa+gvSG ++  Dh++a
  PHY93_11380|PHY93_11380 119 qesnpvdtkvayegeS---TrfgtakdpmngkriGGVnVFGGGLALyTAKGVLVGALGVSGDTSCADHNIA 186
                              8777776666555440...1556666677899999999********98899******************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (244 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       278  (0.0155056); expected 358.6 (0.02)
Passed bias filter:                      240  (0.0133861); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.36
# Mc/sec: 2015.24
//
Query:       PHY93_05625|PHY93_05625  [L=167]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    9.5e-18   64.4   0.0    1.1e-17   64.1   0.0    1.2  1  FMN_red       NADPH-dependent FMN reductase
    4.7e-05   23.2   0.0    5.7e-05   22.9   0.0    1.1  1  Flavodoxin_2  Flavodoxin-like fold


Domain annotation for each model (and alignments):
>> FMN_red  NADPH-dependent FMN reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.1   0.0   1.3e-21   1.1e-17       2     145 ..       5     142 ..       4     164 .. 0.89

  Alignments for each domain:
  == domain 1  score: 64.1 bits;  conditional E-value: 1.3e-21
                              EEEEEES--STT-HHHHHHHHHHCCT-T.T-CEEEEETTTS.--..---HCHGHTCGGSHHHHHHHHHHHH-SCEEEEEEECTTCE CS
                  FMN_red   2 kilvisGSlrkgsntrklaewaaealkeagaevelidladlilpcalcdkdlesegqtsddvaellekiaaadaliivtPeYngsy 87 
                              ki ++ +S+   +++  la+++ + lke+++ev ++++ +++lp  l+++  e+ ++    ++ +++ i  ad++++v PeYng++
  PHY93_05625|PHY93_05625   5 KICIVLAST---GKNLGLANEISDVLKEKNCEVCFLNIVEMNLP--LYTSSAETIHSAEVLIQPFRDHII-ADGFVFVAPEYNGGP 84 
                              788888888...9*******************************..***999765555555599999997.8************** PP

                              -HHHHHHHHCHT-...SSCHCCTT-EEEEEEE-SSTTTTHHHHHHHHHHHHHTT-EEEEC CS
                  FMN_red  88 sgllKnalDrlsr..trgkkelrgKpvalvavgggrrgglraeeqlrqvlaelgaivvpr 145
                              ++ + n+l ++sr  ++ ++ ++gK ++l++ ++g   g +a   +r  l+++g+ v++r
  PHY93_05625|PHY93_05625  85 PPTFNNFLAWVSRstKNWRETFNGKSAMLASFSAG--SGIQAIMIMRLQLSHVGMNVIGR 142
                              *************98888999*********99987..66677778899999999999988 PP

>> Flavodoxin_2  Flavodoxin-like fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.9   0.0   6.3e-09   5.7e-05       1     136 [.       4     119 ..       4     135 .. 0.85

  Alignments for each domain:
  == domain 1  score: 22.9 bits;  conditional E-value: 6.3e-09
                              -EEEEEE--TTGGCCHHHCHHHHHHHHHCCCTTTEEEEEEHHCCT-----CCCCHCCHHHHTTC.HHHHHHHHHHHHCSSEEEEEE CS
             Flavodoxin_2   1 mkiLiinahprpeksfssalaqafvealekagphevtvrdLyadflpvlttrdlaaklayeekp.adveseqiekllaadaivlqf 85 
                              +ki i+ a+  +    +  la+++ + l++++  ev  +++ ++ lp  t        ++e+   a v  + + +   ad  v+++
  PHY93_05625|PHY93_05625   4 KKICIVLASTGK----NLGLANEISDVLKEKN-CEVCFLNIVEMNLPLYTS-------SAETIHsAEVLIQPFRDHIIADGFVFVA 77 
                              688888888854....6799************.9*************9997.......66665448888888999999******** PP

                              E-BTTB--HHHHHHHHHHS-TTTSCEETTCSSCCCCTTTTSEEEEEEEESS CS
             Flavodoxin_2  86 PlwwfgvPailKgwiDrvltagfafyteeggegrgggLkgkkalvivttGg 136
                              P ++ g P+ + +++  v +  +           ++ + gk+a++++ + g
  PHY93_05625|PHY93_05625  78 PEYNGGPPPTFNNFLAWVSRSTKNW---------RETFNGKSAMLASFSAG 119
                              ******************9988833.........46788998888776655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (167 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       648  (0.0361426); expected 358.6 (0.02)
Passed bias filter:                      559  (0.0311785); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.40u 0.20s 00:00:00.60 Elapsed: 00:00:00.35
# Mc/sec: 1441.02
//
Query:       PHY93_11385|PHY93_11385  [L=143]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    7.4e-10   38.6   1.0    1.6e-09   37.6   0.0    2.0  2  MarR            MarR family
    1.2e-07   31.5   0.0    1.9e-07   30.8   0.0    1.3  1  MarR_2          MarR family
      2e-07   30.4   0.0    8.9e-07   28.4   0.0    2.1  2  HTH_24          Winged helix-turn-helix DNA-binding
    3.1e-07   30.3   0.3    7.5e-07   29.0   0.1    1.8  2  HTH_Crp_2       Crp-like helix-turn-helix domain
    1.3e-06   28.1   0.0    2.5e-06   27.2   0.0    1.4  1  HTH_IclR        IclR helix-turn-helix domain
    4.7e-05   23.7   0.1    0.00012   22.4   0.1    1.6  1  Rrf2            Transcriptional regulator
    0.00015   22.2   0.1    0.00026   21.4   0.1    1.4  1  HTH_27          Winged helix DNA-binding domain
    0.00032   20.8   0.8    0.00046   20.3   0.8    1.3  1  FUR             Ferric uptake regulator family
    0.00058   19.8   2.0    0.00071   19.6   2.0    1.2  1  Stathmin        Stathmin family
     0.0015   18.7   0.1     0.0051   17.0   0.0    1.9  2  Fe_dep_repress  Iron dependent repressor, N-terminal DNA bind
     0.0019   17.9   0.0        2.4    8.0   0.0    2.4  2  HTH_38          Helix-turn-helix domain
     0.0032   17.4   0.3     0.0083   16.1   0.3    1.7  2  Dimerisation2   Dimerisation domain
     0.0038   17.0   0.1      0.007   16.2   0.1    1.6  1  HxlR            HxlR-like helix-turn-helix
     0.0041   17.1   0.1     0.0089   16.1   0.1    1.6  1  HTH_20          Helix-turn-helix domain
     0.0051   16.8   0.0      0.011   15.8   0.0    1.5  1  HTH_29          Winged helix-turn helix
     0.0067   16.3   0.7      0.037   13.9   0.1    2.5  3  TrmB            Sugar-specific transcriptional regulator TrmB
     0.0091   15.8   0.9      0.018   14.9   0.3    1.7  2  TFIIE_alpha     TFIIE alpha subunit
  ------ inclusion threshold ------
      0.014   15.6   0.8      0.019   15.2   0.8    1.3  1  DRE2_N          Fe-S cluster assembly protein DRE2 N-terminus
      0.022   14.7   0.0      0.049   13.6   0.0    1.6  1  HTH_11          HTH domain
      0.025   14.7   0.0      0.032   14.3   0.0    1.2  1  Replic_Relax    Replication-relaxation
       0.03   14.3   0.1      0.061   13.3   0.1    1.7  1  PadR            Transcriptional regulator PadR-like family
      0.032   14.1   0.2        0.1   12.5   0.2    1.9  1  HTH_AsnC-type   AsnC-type helix-turn-helix domain
      0.048   13.5   0.1       0.49   10.3   0.0    2.7  2  HTH_5           Bacterial regulatory protein, arsR family
       0.05   13.7   0.0      0.096   12.8   0.0    1.6  1  FeoC            FeoC like transcriptional regulator
      0.069   13.1   0.0       0.11   12.5   0.0    1.3  1  SelB-wing_1     Elongation factor SelB, winged helix
       0.08   13.0   0.0        1.6    8.8   0.0    2.5  2  HTH_3           Helix-turn-helix
      0.086   12.6   0.0       0.13   12.1   0.0    1.4  1  AAA_lid_4       RuvB AAA lid domain
        0.1   13.0   0.0        0.6   10.5   0.0    2.2  2  HTH_31          Helix-turn-helix domain
       0.13   12.4   0.1        1.2    9.3   0.1    2.2  1  PilN            Fimbrial assembly protein (PilN)


Domain annotation for each model (and alignments):
>> MarR  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.6   0.0   2.6e-12   1.6e-09       1      55 [.      33      88 ..      33      89 .. 0.95
   2 ?   -1.6   0.0       4.3   2.7e+03      28      46 ..     121     139 ..     117     139 .. 0.74

  Alignments for each domain:
  == domain 1  score: 37.6 bits;  conditional E-value: 2.6e-12
                             --HHHHHHHHHHHHSTT.EEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEEETTS CS
                     MarR  1 ltltqfviLrilyeqgp.lsvseLakklgvskstvtrvldrLekkGlieRskspeD 55
                             lt + +++L+il+e+++ l+++eLa++ +v++ t+ r+l+++e +Gl++++ ++ +
  PHY93_11385|PHY93_11385 33 LTVPKYSVLAILEEEDNkLTNAELARRASVTPQTMNRLLHAMENDGLVKSKNDKAN 88
                             899*********************************************99988765 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 4.3
                              TS-HHHHHHHHHHHHHTTS CS
                     MarR  28 gvskstvtrvldrLekkGl 46 
                              g+s+  v+ +  +Lek +l
  PHY93_11385|PHY93_11385 121 GLSQKEVSGFMCQLEKMNL 139
                              5677778888888998875 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.8   0.0   3.1e-10   1.9e-07       3      54 ..      33      83 ..      31      89 .. 0.90

  Alignments for each domain:
  == domain 1  score: 30.8 bits;  conditional E-value: 3.1e-10
                             --HHHHHHHHHHHCTTTSEEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEEE CS
                   MarR_2  3 ltpaqarvLaaLgrrpgrdltvgelarrlglsksavsrilkrLvaaGLverr 54
                             lt+  + vLa L  ++ + lt +elarr  +++++++r+l  ++  GLv  +
  PHY93_11385|PHY93_11385 33 LTVPKYSVLAILEEEDNK-LTNAELARRASVTPQTMNRLLHAMENDGLVKSK 83
                             89999***********75.******************************755 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.4   0.0   1.4e-09   8.9e-07       7      48 .]      39      81 ..      37      81 .. 0.92
   2 ?   -2.3   0.0       5.6   3.5e+03      17      24 ..     121     128 ..     120     129 .. 0.81

  Alignments for each domain:
  == domain 1  score: 28.4 bits;  conditional E-value: 1.4e-09
                   HTH_24  7 kILelLqk.nprisqreLAerlglSpstvnrrlkrLeeeGlIk 48
                              +L +L++ + +++++eLA+r  ++p+t nr l  +e++Gl+k
  PHY93_11385|PHY93_11385 39 SVLAILEEeDNKLTNAELARRASVTPQTMNRLLHAMENDGLVK 81
                             589999996777*****************************97 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 5.6
                   HTH_24  17 risqreLA 24 
                              ++sq+e++
  PHY93_11385|PHY93_11385 121 GLSQKEVS 128
                              78999986 PP

>> HTH_Crp_2  Crp-like helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.0   0.1   1.2e-09   7.5e-07      19      54 ..      48      84 ..      22      92 .. 0.83
   2 ?   -2.1   0.0       6.5     4e+03      32      47 ..     121     136 ..     110     139 .. 0.65

  Alignments for each domain:
  == domain 1  score: 29.0 bits;  conditional E-value: 1.2e-09
                             EEEHHHHHHHHHTTSSHHHHHHHHHHHHHTTSEE.ET CS
                HTH_Crp_2 19 elpltqeelAsmlGltretvsrilseLkreglis.rg 54
                             + +lt++elA++  +t++t++r+l++++++gl++ ++
  PHY93_11385|PHY93_11385 48 DNKLTNAELARRASVTPQTMNRLLHAMENDGLVKsKN 84
                             4589*****************************9654 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 6.5
                              TSSHHHHHHHHHHHHH CS
                HTH_Crp_2  32 GltretvsrilseLkr 47 
                              Gl++  vs  + +L++
  PHY93_11385|PHY93_11385 121 GLSQKEVSGFMCQLEK 136
                              5566666666666665 PP

>> HTH_IclR  IclR helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.2   0.0     4e-09   2.5e-06       8      49 ..      40      81 ..      38      83 .. 0.96

  Alignments for each domain:
  == domain 1  score: 27.2 bits;  conditional E-value: 4e-09
                             HHCT-CTTBSS-BHHHHHHHHTS-HHHHHHHHHHHHHTTSEE CS
                 HTH_IclR  8 iLdalaeapqeltlselArrtglpkStvhRlLqtLvelGyve 49
                             +L +l+e++  lt++elArr+ +++ t  RlL+ +++ G+v+
  PHY93_11385|PHY93_11385 40 VLAILEEEDNKLTNAELARRASVTPQTMNRLLHAMENDGLVK 81
                             9****************************************8 PP

>> Rrf2  Transcriptional regulator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.4   0.1   1.9e-07   0.00012      15      58 ..      42      83 ..      37      87 .. 0.83

  Alignments for each domain:
  == domain 1  score: 22.4 bits;  conditional E-value: 1.9e-07
                             HHHHHSSTCC-B-HHHHHHHHTS-HHHHHHHHHHHHHTTSEEEE CS
                     Rrf2 15 lyLakeeeeepvsseeiaerqnispsylekilakLrkaglvksv 58
                             ++L++e  +++++ +e+a+r ++ p+ + ++l+ +++ glvks+
  PHY93_11385|PHY93_11385 42 AILEEE--DNKLTNAELARRASVTPQTMNRLLHAMENDGLVKSK 83
                             344333..3459******************************97 PP

>> HTH_27  Winged helix DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.4   0.1   4.2e-07   0.00026       3      67 ..      35      99 ..      33     100 .. 0.92

  Alignments for each domain:
  == domain 1  score: 21.4 bits;  conditional E-value: 4.2e-07
                   HTH_27  3 rqqalvLhlirhrrrrkkladlcgrlnvedshisyslkkLtekGLvertgdeadrrekrvrlTdk 67
                              +   vL  +++++++ + a+l++r  v+ +++   l ++++ GLv+++ d+a+    +++lT k
  PHY93_11385|PHY93_11385 35 VPKYSVLAILEEEDNKLTNAELARRASVTPQTMNRLLHAMENDGLVKSKNDKANELKIFYTLTKK 99
                             5667799999999******************************************99******88 PP

>> FUR  Ferric uptake regulator family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.3   0.8   7.4e-07   0.00046       3     118 ..      30     140 ..      28     142 .. 0.79

  Alignments for each domain:
  == domain 1  score: 20.3 bits;  conditional E-value: 7.4e-07
                              THCHHHHHHHHHHHHHHHSSSBEHHHHHHHHHHTTTT--HHHHHHHHHHHHHTTSEEEEEET.TSEEEEEESSSSSEEEEEETTT- CS
                      FUR   3 glklTkqRekilevlekseehlsaeevykelkeedpeislaTVYrtLklleeaglvkelefe.dgesryelakkehhdhlicekCg 87 
                              +l lT +   +l++le++++ l+  e+ +     + ++   T  r L+ +e+ glvk+ + + ++ + +++  +++ + ++c    
  PHY93_11385|PHY93_11385  30 HLELTVPKYSVLAILEEEDNKLTNAELAR-----RASVTPQTMNRLLHAMENDGLVKSKNDKaNELKIFYTL-TKKAHKVVCSAHT 109
                              56788899999999999999777777765.....567889999**************999883444666666.4677789****** PP

                              -EEEE--HHHHHHHHHHHHHTT-EEEEEEEE CS
                      FUR  88 kviefkddeiekiqeeiaekegfklvshrle 118
                              +v  ++   +e ++++ +     +l++++l+
  PHY93_11385|PHY93_11385 110 EVNRIETLMLEGLSQKEVSGFMCQLEKMNLK 140
                              ********99999998887666666666665 PP

>> Stathmin  Stathmin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   2.0   1.1e-06   0.00071      17     113 ..      17     115 ..      13     141 .. 0.83

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 1.1e-06
                 Stathmin  17 evILkppskesvpekllssPkkkdls.leeiqkKLeaAE.eRRksleaqklkqlaekrekeeevlqKaaeennnfskaaeeklkqk 100
                              e+IL ++ + +  +  l+ Pk + l+ lee ++KL  AE  RR s++ q+++ l   +e    v++K+++ n+  +  +  k ++k
  PHY93_11385|PHY93_11385  17 ELILRQKIDRVLEHLELTVPKYSVLAiLEEEDNKLTNAElARRASVTPQTMNRLLHAMENDGLVKSKNDKANELKIFYTLTKKAHK 102
                              8999999999988899999999998835799********88***************************999988777777777777 PP

                 Stathmin 101 measkenreaqla 113
                                 s   + ++++
  PHY93_11385|PHY93_11385 103 VVCSAHTEVNRIE 115
                              6655555555544 PP

>> Fe_dep_repress  Iron dependent repressor, N-terminal DNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.0   8.2e-06    0.0051      16      59 ..      44      87 ..      39      88 .. 0.92
   2 ?   -2.2   0.0       8.1     5e+03      10      23 ..      90     104 ..      90     107 .. 0.75

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 8.2e-06
                             HHHHHSSB-HHHHHHHHTS-HHHHHHHHHHHHHTTSEEEETTTE CS
           Fe_dep_repress 16 lseekkvvktkdlaerLnvspssVsemlkkLekdGyveyekykg 59
                             l+ee ++ ++++la+r  v p +    l  +e+dG+v+ + +k+
  PHY93_11385|PHY93_11385 44 LEEEDNKLTNAELARRASVTPQTMNRLLHAMENDGLVKSKNDKA 87
                             56799*********************************999885 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 8.1
                              HHHHHHHHH.HHSSB CS
           Fe_dep_repress  10 LetIYtlse.ekkvv 23 
                              L+  Ytl +  +kvv
  PHY93_11385|PHY93_11385  90 LKIFYTLTKkAHKVV 104
                              677899998777776 PP

>> HTH_38  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.0   0.0    0.0039       2.4      20      42 ..      50      72 ..      40      73 .. 0.90
   2 !    7.6   0.0    0.0053       3.3       9      26 ..     110     127 ..     108     132 .. 0.90

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.0039
                   HTH_38 20 GlslreIArrLgrspsTIsRElk 42
                             +l+++e Arr  + p+T +R l+
  PHY93_11385|PHY93_11385 50 KLTNAELARRASVTPQTMNRLLH 72
                             699*****************986 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0053
                   HTH_38   9 eReeIerllaeGlslreI 26 
                              e ++Ie+l  eGls++e+
  PHY93_11385|PHY93_11385 110 EVNRIETLMLEGLSQKEV 127
                              89*************997 PP

>> Dimerisation2  Dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.3   1.3e-05    0.0083      22      84 ..      39     104 ..      33     110 .. 0.82
   2 ?    3.3   0.0      0.13        82      18      52 ..      87     117 ..      86     120 .. 0.80

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 1.3e-05
            Dimerisation2  22 gvFdlLke.eeplsaeevaeelgasvkGterLldacvaLgLLere..kkeekkalYsntelastyL 84 
                               v  +L+e +++l+ +e+a++ +++++ ++rLl+a+   gL +++  k +e k +Y+ t+ a++  
  PHY93_11385|PHY93_11385  39 SVLAILEEeDNKLTNAELARRASVTPQTMNRLLHAMENDGLVKSKndKANELKIFYTLTKKAHKVV 104
                              566789998999******************************988333334567999999998765 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.13
            Dimerisation2  18 AceLgvFdlLkeeeplsaeevaeelgasvkGterL 52 
                              A eL++F +L +    +a++v ++ +++v+ +e+L
  PHY93_11385|PHY93_11385  87 ANELKIFYTLTK----KAHKVVCSAHTEVNRIETL 117
                              789*******99....7788888888887777766 PP

>> HxlR  HxlR-like helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.1   1.1e-05     0.007       6      72 ..      38     103 ..      33     120 .. 0.86

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 1.1e-05
                              THHHHHHHHTTS-EEHHHHHHHSTTS-HHHHHHHHHHHHHTTSEEEEEESSSS-EEEEEE-TCGGGG CS
                     HxlR   6 WkllilvellkgkkRfselkralpkisqkmLaqrLreLeqdglierevypevPpkveYsltekGrsl 72 
                              +++l + e  + k    el+r+  +++ +++ + L+++e+dgl++ +  +    k+ Y+lt+k +++
  PHY93_11385|PHY93_11385  38 YSVLAILEEEDNKLTNAELARRA-SVTPQTMNRLLHAMENDGLVKSKNDKANELKIFYTLTKKAHKV 103
                              55555666666677778999998.99999********************************998766 PP

>> HTH_20  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.1   1.4e-05    0.0089      16      56 ..      41      82 ..      26      85 .. 0.80

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 1.4e-05
                             HHHH.STCTTB-HHHHHHHHTS-HHHHHHHHHHHHHCTTEEE CS
                   HTH_20 16 lraL.araegltaselaerldlskntlsyHLrvLeeagLvev 56
                             l+ L  ++  lt +ela+r +++++t+++ L+++e  gLv++
  PHY93_11385|PHY93_11385 41 LAILeEEDNKLTNAELARRASVTPQTMNRLLHAMENDGLVKS 82
                             3333777888999**************************985 PP

>> HTH_29  Winged helix-turn helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.0   1.7e-05     0.011       6      46 ..      41      84 ..      39      91 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 1.7e-05
                   HTH_29  6 lllaeGvs...tvsqiAkllglsrrtvyrwlkrfeegGlaalld 46
                             l++ e+++   t +++A++  ++++t +r l+++e++Gl + ++
  PHY93_11385|PHY93_11385 41 LAILEEEDnklTNAELARRASVTPQTMNRLLHAMENDGLVKSKN 84
                             55556666668***************************876666 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.0   0.0       1.3     8e+02      36      47 ..      21      32 ..      18      35 .. 0.88
   2 !   13.9   0.1     6e-05     0.037      15      59 ..      42      91 ..      28     103 .. 0.78
   3 ?   -1.8   0.0       4.9     3e+03       5      14 ..     121     130 ..     114     142 .. 0.64

  Alignments for each domain:
  == domain 1  score: 0.0 bits;  conditional E-value: 1.3
                             CHCHHHHHHHHH CS
                     TrmB 36 rskvYevLrsLe 47
                             r+k+ +vL+ Le
  PHY93_11385|PHY93_11385 21 RQKIDRVLEHLE 32
                             899******997 PP

  == domain 2  score: 13.9 bits;  conditional E-value: 6e-05
                             HHHH.HHCCCHHCHHCCCTTSSCHCHHHHHHHHHHCTSEEEESST....T CS
                     TrmB 15 laLl.klgpatadeiaeelgvprskvYevLrsLedkGlVerekgr....p 59
                             + L  +  ++t  e+a+++ v  ++ ++ L  +e+ GlV+ +  +    +
  PHY93_11385|PHY93_11385 42 AILEeEDNKLTNAELARRASVTPQTMNRLLHAMENDGLVKSKNDKanelK 91
                             333356678999****************************9987755543 PP

  == domain 3  score: -1.8 bits;  conditional E-value: 4.9
                              HHHHHCCCHC CS
                     TrmB   5 GLseyEakvY 14 
                              GLs+ E++ +
  PHY93_11385|PHY93_11385 121 GLSQKEVSGF 130
                              5555555544 PP

>> TFIIE_alpha  TFIIE alpha subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.0       3.1   1.9e+03      81      97 ..      16      32 ..       9      39 .. 0.70
   2 !   14.9   0.3   2.9e-05     0.018      17      86 ..      39     105 ..      35     121 .. 0.75

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 3.1
                             HCCCHHHHHHHHHHHHH CS
              TFIIE_alpha 81 lvdvvkrkleevvkkLe 97
                                ++++k+++v+ +Le
  PHY93_11385|PHY93_11385 16 TELILRQKIDRVLEHLE 32
                             44567888888888776 PP

  == domain 2  score: 14.9 bits;  conditional E-value: 2.9e-05
                              HHHHHHHCT.TSEBHHHHHHHHTS-HHHHHHHHHHHHHCTSEEEEEEEETTTEEEEEEEEEECCCHCCCHH CS
              TFIIE_alpha  17 lvldvLlek.gevteedlakelkidlnelrklLnrLyearlvkykrrrdeekswykyywrinyeklvdvvk 86 
                               vl +L e+  ++t+ +la+  ++ ++ + +lL ++ +++lvk k  + +e +    ++ ++ +k+ +vv 
  PHY93_11385|PHY93_11385  39 SVLAILEEEdNKLTNAELARRASVTPQTMNRLLHAMENDGLVKSKNDKANELK---IFYTLT-KKAHKVVC 105
                              5777776542799*****************************99887776654...333333.34555554 PP

>> DRE2_N  Fe-S cluster assembly protein DRE2 N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.2   0.8     3e-05     0.019      34      97 ..      22     106 ..       9     138 .. 0.77

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 3e-05
                              EEHHHHHHT-----SSS--SEEEE---........SS-S----HHHHHHHHTT--TT--EE---H....................H CS
                   DRE2_N  34 qmlDRlaaglvsLpastYdlvllltde......eeeeeelliprkliqkivkaLkpgGklkgqdgkake................a 97 
                              q +DR+ +   +L+  +Y++  +l +e      +e +++ +   ++++++ +a++++G +k++++ka+e                +
  PHY93_11385|PHY93_11385  22 QKIDRVLE-HLELTVPKYSVLAILEEEdnkltnAELARRASVTPQTMNRLLHAMENDGLVKSKNDKANElkifytltkkahkvvcS 106
                              66999965.679*************99999988555567777799********************987777777776555555550 PP

>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   7.9e-05     0.049       5      43 ..      40      78 ..      37      86 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 7.9e-05
                   HTH_11  5 ilelLleargpisgeeLAeeLnvSrrtvrrdIkaLeelg 43
                             +l +L e++++++ +eLA++ +v+ +t  r + a+e  g
  PHY93_11385|PHY93_11385 40 VLAILEEEDNKLTNAELARRASVTPQTMNRLLHAMENDG 78
                             79999888888****************999999999888 PP

>> Replic_Relax  Replication-relaxation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0   5.1e-05     0.032      10      73 ..      51     108 ..      41     137 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 5.1e-05
             Replic_Relax  10 lTtrqiarllfashratarrrLarLrelgllsrlrkrvggarggsepyvYaLtpkGarllaaqr 73 
                              lT + +ar    + ++ ++r L  ++  gl+++ + +   a++   ++ Y+Lt+k+++++   +
  PHY93_11385|PHY93_11385  51 LTNAELARRASVTPQT-MNRLLHAMENDGLVKSKNDK---ANE--LKIFYTLTKKAHKVVCSAH 108
                              7888899988888888.99999999********7776...333..468***********93333 PP

>> PadR  Transcriptional regulator PadR-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.1   9.9e-05     0.061      36      71 ..      69     102 ..      27     105 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 9.9e-05
                              HHHHHHHHTTSEEEEEE-STSSS-EEEEEESHCCCH CS
                     PadR  36 paLkrLekeglveseweesgegpprkyYrlTdaGrr 71 
                              ++L+ +e++glv+s+++++  +  + +Y+lT++ ++
  PHY93_11385|PHY93_11385  69 RLLHAMENDGLVKSKNDKA--NELKIFYTLTKKAHK 102
                              68*************9985..88999*****98776 PP

>> HTH_AsnC-type  AsnC-type helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.2   0.00016       0.1      14      40 ..      47      73 ..      39      75 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 0.00016
            HTH_AsnC-type 14 edaRisyaeLAervGlSestvlrRvrr 40
                             ed ++++aeLA+r  ++++t  r +++
  PHY93_11385|PHY93_11385 47 EDNKLTNAELARRASVTPQTMNRLLHA 73
                             679****************98775555 PP

>> HTH_5  Bacterial regulatory protein, arsR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0   0.00079      0.49       8      47 .]      41      82 ..      37      82 .. 0.91
   2 ?   -0.6   0.0         2   1.3e+03      26      44 ..     121     139 ..     120     139 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00079
                             HHHHTT..SSEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEE CS
                    HTH_5  8 LklLae..gelcvcelaeelglsqstvShHLkkLreaGLVek 47
                             L +L+e  ++l+  ela+   +++ t  + L ++++ GLV++
  PHY93_11385|PHY93_11385 41 LAILEEedNKLTNAELARRASVTPQTMNRLLHAMENDGLVKS 82
                             6677777799******************************86 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 2
                              TS-HHHHHHHHHHHHHTTS CS
                    HTH_5  26 glsqstvShHLkkLreaGL 44 
                              glsq  vS    +L++++L
  PHY93_11385|PHY93_11385 121 GLSQKEVSGFMCQLEKMNL 139
                              6889889888888888876 PP

>> FeoC  FeoC like transcriptional regulator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   0.00016     0.096      11      51 ..      47      87 ..      39     110 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 0.00016
                     FeoC 11 ergrvslkeLsrhfkaspealeamLeqwvrkGrvekvaata 51
                             e ++    eL+r+ +++p++++ +L  ++  G v+ ++ +a
  PHY93_11385|PHY93_11385 47 EDNKLTNAELARRASVTPQTMNRLLHAMENDGLVKSKNDKA 87
                             55667778**************************9998765 PP

>> SelB-wing_1  Elongation factor SelB, winged helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   0.00018      0.11      10      47 ..      43      80 ..      35      87 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 0.00018
              SelB-wing_1 10 vvrehreGLdWqeaaaraaLsleetrkLLqdmaaaGql 47
                             ++ e  + L   e a ra+++++   +LL  m   G +
  PHY93_11385|PHY93_11385 43 ILEEEDNKLTNAELARRASVTPQTMNRLLHAMENDGLV 80
                             778888899999********************988754 PP

>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   0.0    0.0026       1.6       7      28 ..      48      69 ..      42      73 .. 0.87
   2 ?    1.3   0.0      0.58   3.6e+02       7      15 ..     119     127 ..     105     130 .. 0.87

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.0026
                             HTTHHHHHHHHHHTSSHHHHHH CS
                    HTH_3  7 qlglsqeeLAeklGvsrstisr 28
                              ++l+ +eLA+++ v+++t +r
  PHY93_11385|PHY93_11385 48 DNKLTNAELARRASVTPQTMNR 69
                             579***************9665 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.58
                              HTTHHHHHH CS
                    HTH_3   7 qlglsqeeL 15 
                                glsq+e+
  PHY93_11385|PHY93_11385 119 LEGLSQKEV 127
                              579***998 PP

>> AAA_lid_4  RuvB AAA lid domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0    0.0002      0.13      16      47 ..      43      74 ..      18      92 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.0002
                AAA_lid_4 16 ilgveieeegaaeiarRsRGTPRianrLLrRv 47
                             il+ e ++ + ae+arR+  TP   nrLL+ +
  PHY93_11385|PHY93_11385 43 ILEEEDNKLTNAELARRASVTPQTMNRLLHAM 74
                             666666777899*****************865 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   0.00096       0.6      14      35 ..      50      71 ..      20      77 .. 0.89
   2 ?   -0.4   0.0       2.5   1.6e+03      13      20 ..     120     127 ..     100     130 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00096
                   HTH_31 14 GLsqeevAerlgvsestlsrlE 35
                              L+ +e+A+r+ v++ t++rl 
  PHY93_11385|PHY93_11385 50 KLTNAELARRASVTPQTMNRLL 71
                             6999****************97 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 2.5
                   HTH_31  13 aGLsqeev 20 
                              +GLsq+ev
  PHY93_11385|PHY93_11385 120 EGLSQKEV 127
                              48999988 PP

>> PilN  Fimbrial assembly protein (PilN)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.3   0.1    0.0019       1.2       1      47 [.      26     136 ..      26     139 .. 0.85

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.0019
                     PilN   1 alldeLsravPkgvwltsisqegn.............................................................. 24 
                              ++l+ L+ +vPk   l  +++e+n                                                              
  PHY93_11385|PHY93_11385  26 RVLEHLELTVPKYSVLAILEEEDNkltnaelarrasvtpqtmnrllhamendglvkskndkanelkifytltkkahkvvcsahtev 111
                              68999999999999999999999988888888888888888888888888888888888888888888888888888888888888 PP

                     PilN  25 ....qltitGsAvsndeVaefmrnLeg 47 
                                  +l ++G +  ++eV+ fm +Le+
  PHY93_11385|PHY93_11385 112 nrieTLMLEGLS--QKEVSGFMCQLEK 136
                              888899999988..6999999999886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (143 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       859  (0.0479112); expected 358.6 (0.02)
Passed bias filter:                      497  (0.0277205); expected 358.6 (0.02)
Passed Vit filter:                        87  (0.00485247); expected 17.9 (0.001)
Passed Fwd filter:                        29  (0.00161749); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              29  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.35
# Mc/sec: 1210.57
//
Query:       PHY93_11390|PHY93_11390  [L=245]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (245 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       489  (0.0272742); expected 358.6 (0.02)
Passed bias filter:                      412  (0.0229795); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 1888.24
//
Query:       PHY93_11395|PHY93_11395  [L=268]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00088   18.7   0.0     0.0015   17.9   0.0    1.4  1  NicO      High-affinity nickel-transport protein
  ------ inclusion threshold ------
       0.02   14.9   0.2       0.23   11.4   0.2    2.1  1  CYTH      CYTH domain
       0.15   12.1   0.9       0.21   11.6   0.9    1.4  1  DUF4130   Domain of unknown function (DUF4130


Domain annotation for each model (and alignments):
>> NicO  High-affinity nickel-transport protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.0   2.6e-07    0.0015     113     179 ..      56     123 ..      34     127 .. 0.84

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 2.6e-07
                     NicO 113 apaaeleaalakrgllsrilgk..lfrlitkswhmypvgflfglGfdtateiallaidpsealkgdsfd 179
                                   + +++++++++ ++l +   +r+++++w++++ + l glG  ta e ++ +id    +++++++
  PHY93_11395|PHY93_11395  56 TRTDLYFDIFESHHFILKNLSDpiKLRFQDSKWQIQKSHSLKGLGSITAKESQSISIDED-PYDTQKIY 123
                              4455678999**********999999*******************************998.77777776 PP

>> CYTH  CYTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.2   3.9e-05      0.23       2     172 ..      26     241 ..      25     246 .. 0.60

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 3.9e-05
                              EEEEEEEEE-HHHHHHHHHH.HHHCTCEEEEEEEEEEEEEE-TTTHHHHTTEEEEEEEETTTEEEEEEEEECSSST.....EEEEE CS
                     CYTH   2 iEvEvKflvsaaeyedlelr.laelrakeettveqrdtYydtpdrdlartdeaLRiRraegdgeeltlKgpgvdge.....reeve 81 
                               E+E+K+++++  + + +++ ++ ++a+e t+  ++   +++ ++ l+  +  +++R + +++++   K+  + g      +e+ +
  PHY93_11395|PHY93_11395  26 TEYELKIPLTQIGFQKFKTLfIDHFQAEETTRTDLYFDIFESHHFILKNLSDPIKLRFQ-DSKWQ-IQKSHSLKGLgsitaKESQS 109
                              69999999998888888888999999999999988888888999999999999999955.66666.67777666633343333333 PP

                              EEECCCEEECCCC.....................................HHHHHHHHHHHTT...........-EEEEEEEEEEE CS
                     CYTH  82 gevsreEyeepls.....................................daaeaaelldglg...........lepvasvkklRr 119
                              +           s                                     d    ++ll+++              + +  +k+R+
  PHY93_11395|PHY93_11395 110 I-----------SidedpydtqkiyndiidfhreltdlnplalntatkisDQLFKLKLLRKATklcslcteekaYYSSQMNHKNRY 184
                              3...........23344555668666666555555544444444444333222222222222244444444422333333333333 PP

                              EEEETT.....EEEEEEEETTT......TEEEEEEEEEESSHHHHHHHHHHHHHHHHHTTEEGG CS
                     CYTH 120 kykleg.....vevalDavefl......egeevEiElevedeeevkeaaekllallrelglssa 172
                              k+k+++     + +       +       +e +E+E+e ++ ++v++a+  l ++l+  gls++
  PHY93_11395|PHY93_11395 185 KVKIKEkglefIMF-------VgattsgLIESYELEAELKNSNDVEKALSVLTNWLNDQGLSPG 241
                              33332244442333.......24444446999******99999999999887777777777665 PP

>> DUF4130  Domain of unknown function (DUF4130
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.9   3.5e-05      0.21      56      96 ..      56      95 ..      35     191 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 3.5e-05
                  DUF4130 56 ledgiyvakiePkhnvlellaehFadRfadekwlIldekrk 96
                             ++ ++y+  +e +h +l+ l++  + Rf+d kw I + +++
  PHY93_11395|PHY93_11395 56 TRTDLYFDIFESHHFILKNLSDPIKLRFQDSKWQIQK-SHS 95
                             24569******************************95.333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (268 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       968  (0.0539907); expected 358.6 (0.02)
Passed bias filter:                      602  (0.0335769); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.60u 0.23s 00:00:00.83 Elapsed: 00:00:00.49
# Mc/sec: 1644.46
//
Query:       PHY93_11400|PHY93_11400  [L=107]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (107 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       539  (0.030063); expected 358.6 (0.02)
Passed bias filter:                      367  (0.0204696); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.20s 00:00:00.60 Elapsed: 00:00:00.38
# Mc/sec: 850.13
//
Query:       PHY93_11405|PHY93_11405  [L=139]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (139 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       412  (0.0229795); expected 358.6 (0.02)
Passed bias filter:                      327  (0.0182386); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 1078.50
//
Query:       PHY93_11410|PHY93_11410  [L=231]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (231 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       410  (0.022868); expected 358.6 (0.02)
Passed bias filter:                      313  (0.0174578); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.24s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1757.04
//
Query:       PHY93_11415|PHY93_11415  [L=655]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (655 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       538  (0.0300073); expected 358.6 (0.02)
Passed bias filter:                      454  (0.0253221); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.64u 0.22s 00:00:00.86 Elapsed: 00:00:00.40
# Mc/sec: 4973.58
//
Query:       PHY93_11420|PHY93_11420  [L=268]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.6e-42  142.9   0.0      1e-41  142.8   0.0    1.0  1  LigB      Catalytic LigB subunit of aromatic ring-opening dio


Domain annotation for each model (and alignments):
>> LigB  Catalytic LigB subunit of aromatic ring-opening dioxygenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  142.8   0.0   5.7e-46     1e-41      28     272 ..      28     267 ..       7     268 .] 0.85

  Alignments for each domain:
  == domain 1  score: 142.8 bits;  conditional E-value: 5.7e-46
                     LigB  28 ikgyesireriaek..sPdtiivvsphhltdvnpvfvlgvaeefeaiddfg...kflprleyelkgnpeLaekiaealkksgidla 108
                              ++ +e+    ia++  +P++i+++s h++      f l ++++ + ++d+g   +  + ++y+++g+ eL ++ + +++++g+++ 
  PHY93_11420|PHY93_11420  28 FDKLEASLISIAKEvgRPKAILMISGHWEE---ESFTLMANPNPPMLYDYGgfpEHTYHVKYPAPGDLELVARTKALIEGAGFPME 110
                              44445555555555579************9...36789999999*********999****************************99 PP

                     LigB 109 vesnsmklDHGtlvPLelmlpdeakvpvikvslntvaypllsferlykLGeAlrkaveeldknvlilgsGglsHqlegdeaakada 194
                                ++s++ DHGt+vPL +m+p ea vpv+++sl        ++e +y+LG+Al++++   ++++li+gsG   H+l++  +++a  
  PHY93_11420|PHY93_11420 111 L-DQSRGFDHGTFVPLVIMYP-EADVPVVQLSLKK----NYDPETHYQLGKALAPLR---EEGILIIGSGLSYHNLREFGRGEAAN 187
                              8.*******************.9************....67****************...9********************96666 PP

                     LigB 195 qtlllneefdeelldllke....grveelckmskeelsaaaghe.eeelvplvvalGalsgd.kaelrkelvsyeglpavsavf 272
                                  + ++fd +l   l++    +r++ l++++ +++sa+a+h+ e++l+pl+v  Ga++++  + + +e   + g++ +s++f
  PHY93_11420|PHY93_11420 188 ---IASKQFDVWLGKTLIDlpkeERHQHLLEWT-KAPSARAAHPyEDHLIPLHVVVGAAENEkGVMIYHEEGLMHGMTVSSFRF 267
                              ...788888877666665555549*********.9*************************875455556666666666666666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (268 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       318  (0.0177366); expected 358.6 (0.02)
Passed bias filter:                      305  (0.0170115); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.19s 00:00:00.65 Elapsed: 00:00:00.38
# Mc/sec: 2137.49
//
Query:       PHY93_11425|PHY93_11425  [L=301]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.6e-05   23.1   0.0    0.00011   21.8   0.0    1.7  1  Exo_endo_phos  Endonuclease/Exonuclease/phosphatase family


Domain annotation for each model (and alignments):
>> Exo_endo_phos  Endonuclease/Exonuclease/phosphatase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.8   0.0     6e-09   0.00011      20     233 .]      47     288 ..       2     288 .. 0.65

  Alignments for each domain:
  == domain 1  score: 21.8 bits;  conditional E-value: 6e-09
                              HHHHHHHHHCTTSEEEEEEEBSCTCHHHHHHHHHTTCEEEEECCH.....ECSSSTTSSEEEEEECSTE...EEEEEEEEEETSSS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....xxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxx RF
            Exo_endo_phos  20 drladlltaydaDvlgLQEvdddelsriplllalggflgasstsp.....tgggggggnggavlsrfpl...tslfrrtfiefndl 97 
                               +la+++++ daD+ +LQE       +i ++++  +f++++ +++        + ++   ++ l+r  +                 
  PHY93_11425|PHY93_11425  47 LDLAKIIQTIDADIYCLQE-------VISETSL-VNFNTHFLNDQyevvlEESNSNRSIYVGFLIRKGIdydI------------- 111
                              5699***************.......8877776.555555444444444522222333333333333333221............. PP

                              SGCEEEEEEEEEEEEEEE...........................................CCCHHGHHHHHHHHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxx...........................................xxxxxxxxxxxxxxxxxxxxxxxxx RF
            Exo_endo_phos  98 vaalrreplaakleqlni...........................................ashrdhdlvrdlqllalllqvealn 140
                                                                                           + + + ++ r+l+  +l     +l 
  PHY93_11425|PHY93_11425 112 -----------------SsyshwrmkngslasrnlsslvikknnhpilvllgahlkskrldEKRLNTYSLRELEVSLLSEIHTDLA 180
                              .................022222222222222222233333333555688888888888888889999999999999999999999 PP

                              HHTTSEEEEEEE-SSSTSGGGBSCGHHHHHHCTTTH......H.........SSCESCETTTTTTTTTTTEB-BEEEEEEC.HHHC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......x.........xxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxx RF
            Exo_endo_phos 141 adrgapvivaGDfNarpsdddsrvlrtrglalapap......v.........glyllgggptptyvtraggsrlDrilasp.alal 210
                              +  ++p++++GD+Na              + l+p+                   ++   g+++t+  ++  ++lD il  +  l l
  PHY93_11425|PHY93_11425 181 LKYSCPILILGDMNA-------------NFNLEPEFhplhkkDffdfvkekyKENYVSVGTFTTNYLETKLQHLDFILIEKkYLDL 253
                              999999*********.............3333333333555415566789999999999999999999999999***877655555 PP

                              CEEEEEEECCHHEEC............TSSCSSSB CS
                              xxxxxxxxxxxxxxx............xxxxxxxx RF
            Exo_endo_phos 211 frsgvlppplalvrr............ealtlSDH 233
                              + + + + +l  + +            +++ +SDH
  PHY93_11425|PHY93_11425 254 VELASSDIYLYQNEYgdrislpfnkieRPYLPSDH 288
                              55555554444444477788888888888888888 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (301 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       585  (0.0326287); expected 358.6 (0.02)
Passed bias filter:                      337  (0.0187964); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.18s 00:00:00.67 Elapsed: 00:00:00.36
# Mc/sec: 2505.77
//
Query:       PHY93_11430|PHY93_11430  [L=349]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      5e-19   68.8   0.0    1.4e-18   67.3   0.0    1.8  2  Chal_sti_synt_C  Chalcone and stilbene synthases, C-terminal 
      1e-14   54.5   0.0    3.5e-14   52.8   0.0    1.8  2  FAE1_CUT1_RppA   FAE1/Type III polyketide synthase-like prote
    3.5e-13   49.5   0.0    7.2e-13   48.5   0.0    1.5  1  Chal_sti_synt_N  Chalcone and stilbene synthases, N-terminal 
    4.5e-12   46.0   0.0    8.5e-12   45.1   0.0    1.5  1  ACP_syn_III_C    3-Oxoacyl-[acyl-carrier-protein (ACP)] synth
  ------ inclusion threshold ------
      0.096   12.6   0.1       0.21   11.5   0.1    1.5  1  ACP_syn_III      3-Oxoacyl-[acyl-carrier-protein (ACP)] synth


Domain annotation for each model (and alignments):
>> Chal_sti_synt_C  Chalcone and stilbene synthases, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0         1   3.7e+03      64     114 ..      27      77 ..       6     113 .. 0.57
   2 !   67.3   0.0     4e-22   1.4e-18       3     147 ..     211     348 ..     209     349 .] 0.88

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 1
          Chal_sti_synt_C  64 ivhPGGpaildrleaklklekekleasrkvlseyGnvssatvlyvldelrd 114
                               + P  ++ +++  +   +e  +l    +  ++  ++    +++  + lr 
  PHY93_11430|PHY93_11430  27 KMWPEKSSFIEQFTESTAVESRHLTLPLNYYRDLKDMGKRNIIWKAEALRL 77 
                              455555555555555555555555555555555555655566665555553 PP

  == domain 2  score: 67.3 bits;  conditional E-value: 4e-22
          Chal_sti_synt_C   3 vsaaqtflPetdgvidgklteeGltfkllrdlPekieenieeflkklleklGieefndlfwivhPGGpaildrleaklklekekle 88 
                               s+   f P+t+ v+   + e+G+++ l +++P ++++++ + + + l k   +  +  f+++hPGG  il++l ++l+ +k+k+ 
  PHY93_11430|PHY93_11430 211 LSTESIFYPDTERVMGWDMVENGFQIVLSNEIPALVKDKVGKNIDEFLSKNKLTRSDINFFVAHPGGADILEALSETLNHDKDKFA 296
                              56667899******************************999999999987666655555*************************** PP

          Chal_sti_synt_C  89 asrkvlseyGnvssatvlyvldelrdkelkkklattgegkewGlllafGPGltietlll 147
                               s + l+  Gn s+a+vl+vl++  d     +la     + +Gl+la+GP + +e  l+
  PHY93_11430|PHY93_11430 297 LSWNSLKTRGNTSAASVLHVLEQTID---TADLAP----NTLGLMLAMGPAFCLEISLI 348
                              ***********************999...333333....479**********9997766 PP

>> FAE1_CUT1_RppA  FAE1/Type III polyketide synthase-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.8   0.0   9.9e-18   3.5e-14      80     208 ..      71     200 ..      19     213 .. 0.85
   2 ?   -1.3   0.0       0.3   1.1e+03      88     110 ..     251     273 ..     243     275 .. 0.86

  Alignments for each domain:
  == domain 1  score: 52.8 bits;  conditional E-value: 9.9e-18
           FAE1_CUT1_RppA  80 reEaeevlfgavdellaktkvspkdidilvvncslfsptPslsamvvnryklredvksynLsgmGCsAglisidlaknllqvhknt 165
                              ++Ea ++ ++ +++ll ++k++ +di+++  ++++  + Psl a+++n++ +  + k + + g+GC Ag+  ++ +++ l  h+++
  PHY93_11430|PHY93_11430  71 KAEALRLQTENIKKLLDESKIDIADIGLIASATTTGLAVPSLEALMMNQFPFSPNTKRLPIFGLGCLAGVAGVNRVNDYLLGHPEK 156
                              56777888899*************************************************************************** PP

           FAE1_CUT1_RppA 166 lalvvstEnitlnwYvGn.ersmllanclFRvGgaavllsnksa 208
                               a+++ tE ++l + + + + + +++++lF  G+ avl+  +++
  PHY93_11430|PHY93_11430 157 AAILMVTELCSLTFQFEEsSIANIIGTSLFGDGSGAVLMVGEDH 200
                              ***********998776515688*************99876544 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 0.3
           FAE1_CUT1_RppA  88 fgavdellaktkvspkdidilvv 110
                               + +de l+k+k++ +di+++v 
  PHY93_11430|PHY93_11430 251 GKNIDEFLSKNKLTRSDINFFVA 273
                              5679**************99985 PP

>> Chal_sti_synt_N  Chalcone and stilbene synthases, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.5   0.0     2e-16   7.2e-13      21     222 ..       9     197 ..       2     200 .. 0.79

  Alignments for each domain:
  == domain 1  score: 48.5 bits;  conditional E-value: 2e-16
          Chal_sti_synt_N  21 kalPeqvveqeklvdyylrvtksedlaelkeklerlcdkstvkkryivlteeileenPeltaemapsldarleivnaevlklgkea 106
                              ++ Peq v+q+++ +  +++   e+       +e++ + + v  r++ l    l+ + +l+      + +r+ i +ae l+l +e 
  PHY93_11430|PHY93_11430   9 TSCPEQLVPQKEIKNLLIKMWP-EK----SSFIEQFTESTAVESRHLTLP---LNYYRDLKD-----MGKRNIIWKAEALRLQTEN 81 
                              5667777777777766665533.22....344566667777777777765...444555544.....457888999********** PP

          Chal_sti_synt_N 107 alkalkewGrPkskithlvfvsssevelPGadlklakklGlrpsvkrvmlyflGcygGatvlrlakdiaennkGarvlvvaseitv 192
                               +k l e    +++i  +   +++++ +P  +  + +++ ++p++kr+ ++ lGc +G++++    d     +    +++++e+  
  PHY93_11430|PHY93_11430  82 IKKLLDESKIDIADIGLIASATTTGLAVPSLEALMMNQFPFSPNTKRLPIFGLGCLAGVAGVNRVNDYLLGHPEKAAILMVTELCS 167
                              ***********************************************************998777776666666555666679*** PP

          Chal_sti_synt_N 193 lgfrgPskdrlddlvGaalfGdGaaavi.iG 222
                              l+f+   ++ + +++G++lfGdG+ av+ +G
  PHY93_11430|PHY93_11430 168 LTFQF-EESSIANIIGTSLFGDGSGAVLmVG 197
                              ***86.678899*************996255 PP

>> ACP_syn_III_C  3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.1   0.0   2.4e-15   8.5e-12       1      80 [.     258     340 ..     258     349 .] 0.90

  Alignments for each domain:
  == domain 1  score: 45.1 bits;  conditional E-value: 2.4e-15
                              HHHTT--GGG-SEEEE-SSSHHHHHHHHHHHT--GGGB--TH...HHH-B-GGGHHHHHHHHHHHTTSS-TT-EEEEEEEETT CS
            ACP_syn_III_C   1 Lekagltpedidalvphqanlriidavakklglpeekvvvnl...deyGntsaasiplaLdeaveegklkpgdlvllvgfGaG 80 
                              L+k++lt +di+++v h   + i++a+ + l+ +++k++ ++   ++ Gntsaas++  L++ +++ +l p+ l l++++G  
  PHY93_11430|PHY93_11430 258 LSKNKLTRSDINFFVAHPGGADILEALSETLNHDKDKFALSWnslKTRGNTSAASVLHVLEQTIDTADLAPNTLGLMLAMGPA 340
                              689*********************************998654223888********************************965 PP

>> ACP_syn_III  3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   5.8e-05      0.21       6      67 ..     135     201 ..     132     215 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 5.8e-05
                              GGGHHHHHHHHHHHHHHTTS-SEEEEEEEEEGGGCS-TTTHHHHT.....TB-EEEEEEEEEEESSS CS
              ACP_syn_III   6 aCsgfvyalsvAdaliesgaakrvLvigaetlskilDwkdrstav.....lfGDGAgAvvleaseee 67 
                              +C + v++++ +++++     k +++  +e +s  + ++++s a      lfGDG gAv++  ++++
  PHY93_11430|PHY93_11430 135 GCLAGVAGVNRVNDYLLGHPEKAAILMVTELCSLTFQFEESSIANiigtsLFGDGSGAVLMVGEDHP 201
                              68888888999999999888899999999999999888865554445777*********99877544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (349 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       430  (0.0239835); expected 358.6 (0.02)
Passed bias filter:                      404  (0.0225333); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.51u 0.20s 00:00:00.71 Elapsed: 00:00:00.37
# Mc/sec: 2855.04
//
Query:       PHY93_21240|PHY93_21240  [L=158]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0018   18.1   0.2       0.89    9.6   0.0    3.1  2  PQQ       PQQ enzyme repeat


Domain annotation for each model (and alignments):
>> PQQ  PQQ enzyme repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.6   0.0     5e-05      0.89      14      36 ..      97     119 ..      84     121 .. 0.81
   2 !    5.2   0.0    0.0012        22       8      25 ..     136     151 ..     130     153 .. 0.82

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 5e-05
                              EEETTTCCEEEEEESSSCGSSES CS
                      PQQ  14 AlDadTGkvlWrfktggpvlslp 36 
                               +D d+G++ W ++++++v+++ 
  PHY93_21240|PHY93_21240  97 VVDEDSGEEEWFHREVAVVDGSL 119
                              68*****************9985 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.0012
                              TTSEEEEEETTTCCEEEE CS
                      PQQ   8 adGylyAlDadTGkvlWr 25 
                              +dG++y +D+++  +lW+
  PHY93_21240|PHY93_21240 136 DDGRVYSYDRNS--KLWS 151
                              79*******887..7776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (158 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       585  (0.0326287); expected 358.6 (0.02)
Passed bias filter:                      540  (0.0301188); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.20s 00:00:00.62 Elapsed: 00:00:00.36
# Mc/sec: 1313.69
//
Query:       PHY93_05630|PHY93_05630  [L=484]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.7e-12   44.9   0.2    2.2e-11   43.6   0.2    1.8  1  HTH_3          Helix-turn-helix
    3.8e-11   43.2   0.0    8.3e-11   42.1   0.0    1.6  1  HTH_31         Helix-turn-helix domain
    4.9e-09   36.1   3.3    8.5e-09   35.3   0.1    3.1  3  HTH_19         Helix-turn-helix domain
    3.6e-06   26.9   0.1    7.6e-06   25.8   0.1    1.6  1  DUF2083        Predicted transcriptional regulator (DUF2083)
    7.2e-06   25.9   0.3    4.3e-05   23.4   0.0    2.3  3  Peptidase_M78  IrrE N-terminal-like domain
    2.4e-05   24.7   0.0    0.00017   22.0   0.0    2.5  2  HTH_26         Cro/C1-type HTH DNA-binding domain
     0.0005   19.9   0.2     0.0016   18.2   0.0    2.0  2  HTH_25         Helix-turn-helix domain
  ------ inclusion threshold ------
       0.04   13.7   0.1      0.078   12.7   0.1    1.4  1  LolA_like      Outer membrane lipoprotein-sorting protein
       0.04   14.3   4.6        1.4    9.3   0.4    3.8  3  RICH           RICH domain


Domain annotation for each model (and alignments):
>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.6   0.2   1.1e-14   2.2e-11       1      55 []      16      70 ..      16      70 .. 0.98

  Alignments for each domain:
  == domain 1  score: 43.6 bits;  conditional E-value: 1.1e-14
                             HHHHHHHTTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHHHH CS
                    HTH_3  1 lkelRkqlglsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvsldel 55
                             +++lR  +g s++eLA+++++s s+++ iE+G+  P +e+l  la  Lgv+l +l
  PHY93_05630|PHY93_05630 16 IRQLRMRRGFSLKELADLSDLSISYLNEIEKGKKYPKVEKLASLALGLGVDLGDL 70
                             8**************************************************9876 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.1   0.0   4.1e-14   8.3e-11       2      58 ..      12      67 ..      11      72 .. 0.93

  Alignments for each domain:
  == domain 1  score: 42.1 bits;  conditional E-value: 4.1e-14
                   HTH_31  2 LGalLralReraGLsqeevAerlgvsestlsrlEqGrrgrpspavlealaralgldp 58
                             LG   r+lR r+G s++e+A+++ +s s+l+ +E G+   p+ + l++la +lg+d 
  PHY93_05630|PHY93_05630 12 LGLKIRQLRMRRGFSLKELADLSDLSISYLNEIEKGKKY-PKVEKLASLALGLGVDL 67
                             89999*********************************8.***************94 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.3   0.1   4.3e-12   8.5e-09       3      60 ..      15      71 ..      13      75 .. 0.94
   2 ?   -1.3   0.1       1.2   2.3e+03      15      31 ..     172     191 ..     155     214 .. 0.58
   3 ?   -2.1   0.1       2.1   4.1e+03      31      42 ..     471     482 ..     470     484 .] 0.79

  Alignments for each domain:
  == domain 1  score: 35.3 bits;  conditional E-value: 4.3e-12
                   HTH_19  3 rLkeaReelgltqeelaerlgisrskisaiEngkkdvpsaelllkiaealgidleyll 60
                             +++++R  +g++++ela+  + s+s++++iE+gkk +p+ e+l ++a  lg+dl  l 
  PHY93_05630|PHY93_05630 15 KIRQLRMRRGFSLKELADLSDLSISYLNEIEKGKK-YPKVEKLASLALGLGVDLGDLV 71
                             69********************************9.*****************87765 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 1.2
                   HTH_19  15 qeelae....rlgisrskisa 31 
                              qe +++     l+  + ++++
  PHY93_05630|PHY93_05630 172 QESISYedmsSLIK-KQYLYE 191
                              44444322222222.333333 PP

  == domain 3  score: -2.1 bits;  conditional E-value: 2.1
                   HTH_19  31 aiEngkkdvpsa 42 
                              +iE+++k+++ +
  PHY93_05630|PHY93_05630 471 KIEKNQKEKALS 482
                              89***9998765 PP

>> DUF2083  Predicted transcriptional regulator (DUF2083)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.8   0.1   3.8e-09   7.6e-06      56     153 ..     387     478 ..     360     482 .. 0.79

  Alignments for each domain:
  == domain 1  score: 25.8 bits;  conditional E-value: 3.8e-09
                  DUF2083  56 ilvqlaelpdgeryltiartvekesgafgepekrfaialgceikhaeklvyadgldleekaaatpiGvgCrlCeredCaqRafppl 141
                              +l q++ ++dg++y++i+ + +++++  +++ ++++i++ ++ + ++ + + d+  l    + + iG +C+ C++e+C++R +p++
  PHY93_05630|PHY93_05630 387 LLGQISIVEDGQQYFSISLAKKSNTE--ENTFQSLTIGFLVNEELKSVIKFLDDPIL----SRISIGQTCERCPKENCEDRVVPAC 466
                              6789999**********977666654..44555666666666666666655555544....7899*******************99 PP

                  DUF2083 142 grelevdenerg 153
                                + ++++n+++
  PHY93_05630|PHY93_05630 467 IYQKKIEKNQKE 478
                              988888888775 PP

>> Peptidase_M78  IrrE N-terminal-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.0      0.43   8.6e+02      69      93 ..     185     209 ..     180     215 .. 0.86
   2 !   23.4   0.0   2.2e-08   4.3e-05      24     122 ..     211     310 ..     196     311 .. 0.88
   3 ?   -2.5   0.0       2.3   4.6e+03      27      44 ..     340     357 ..     323     358 .. 0.68

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 0.43
            Peptidase_M78  69 kaqerlereanafAaelllPeeafl 93 
                              k q  +e+  n +Aa+ ll e+++l
  PHY93_05630|PHY93_05630 185 KKQYLYEIDENTLAANSLLEETKVL 209
                              678899*************999875 PP

  == domain 2  score: 23.4 bits;  conditional E-value: 2.2e-08
            Peptidase_M78  24 dnsetkvivlnsnhsptrqrftlaHElgHlllhherdkfreegdskaqerlereanafAaelllPeeaflalaatqrkdlee.... 105
                              ++se + i+lns +   ++ f l  E+gH ll+  +       +s  +   ++ a ++A+++ll e++f + ++++ +  +     
  PHY93_05630|PHY93_05630 211 KRSELPKIFLNSKLETGQKTFYLTKEIGHRLLGLGNL-----EKSLGALLDDYKASYLAGAILLEEKMFSKDLKNFFSNSQFdqnl 291
                              4446789*****************************5.....599999999*********************99998876667889 PP

            Peptidase_M78 106 ..rlaeyfgVSkeavavrl 122
                                 l  +++VS e + +rl
  PHY93_05630|PHY93_05630 292 flSLIDKYQVSSELMFHRL 310
                              99999*******9999998 PP

  == domain 3  score: -2.5 bits;  conditional E-value: 2.3
            Peptidase_M78  27 etkvivlnsnhsptrqrf 44 
                               +k ++l++ hsp  qr 
  PHY93_05630|PHY93_05630 340 MNKELHLSQLHSPHGQRM 357
                              478889999999988875 PP

>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.0   0.0   8.4e-08   0.00017       1      61 [.      15      74 ..      15      76 .. 0.96
   2 ?   -1.4   0.0       1.7   3.3e+03      21      58 ..     100     139 ..      97     141 .. 0.64

  Alignments for each domain:
  == domain 1  score: 22.0 bits;  conditional E-value: 8.4e-08
                   HTH_26  1 kLrelmadrgitkseLargtgisaatlsrlvkgkpervsldtLdkiCdaLgctpgDLleye 61
                             k+r+l   rg + +eLa  +++s + l+ + kgk ++++ + L+ ++  Lg+++gDL++++
  PHY93_05630|PHY93_05630 15 KIRQLRMRRGFSLKELADLSDLSISYLNEIEKGK-KYPKVEKLASLALGLGVDLGDLVSFK 74
                             68999999*************************9.8*********************9986 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 1.7
                   HTH_26  21 gisaatlsrlvkgkpervsl..dtLdkiCdaLgctpgDLl 58 
                              g+s++ +  l  + pe       t   i + ++++++D+ 
  PHY93_05630|PHY93_05630 100 GLSESDVVDLMGNAPEKFASfvLTVLQISRSFDMKLEDIY 139
                              5666666666666665555533344678999999999985 PP

>> HTH_25  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.0   8.2e-07    0.0016       2      33 ..      16      47 ..      15      52 .. 0.94
   2 ?   -2.9   0.0       3.2   6.4e+03      22      35 ..     184     197 ..     174     199 .. 0.78

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 8.2e-07
                             HHHHHHTTT--HHHHHHHSS--HHHHHHHHCT CS
                   HTH_25  2 LraaRearglsleevaketkIrkdylealEed 33
                              r+ R++rg sl+e+a+   ++ +yl ++E++
  PHY93_05630|PHY93_05630 16 IRQLRMRRGFSLKELADLSDLSISYLNEIEKG 47
                             699***************************98 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 3.2
                              --HHHHHHHHCT-- CS
                   HTH_25  22 IrkdylealEeddf 35 
                              I+k+yl +++e+ +
  PHY93_05630|PHY93_05630 184 IKKQYLYEIDENTL 197
                              88999999988865 PP

>> LolA_like  Outer membrane lipoprotein-sorting protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   3.9e-05     0.078      33      77 ..     153     195 ..     148     215 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 3.9e-05
                              EETTTTCEEEE-GGGTTSECCTTC.EHHHHC--SCCCEEEEEEEE CS
                LolA_like  33 YlPalkrvrrisssdksqsfmGsdfsyeDlssrevedythellge 77 
                              Y P+l+++ +i    ++ +f  + +syeD+ss  +++y +e+ + 
  PHY93_05630|PHY93_05630 153 YFPELEKMAKIK--RNDWNFTQESISYEDMSSLIKKQYLYEIDEN 195
                              9***********..8889**************99***99998554 PP

>> RICH  RICH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.1      0.11   2.3e+02      39      61 ..      31      53 ..      15      60 .. 0.79
   2 ?    1.4   0.0      0.21   4.2e+02      39      73 ..     133     166 ..     129     172 .. 0.82
   3 ?    9.3   0.4   0.00072       1.4      43      70 ..     183     206 ..     181     224 .. 0.65

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.11
                     RICH 39 kkLseIkteyLyelkvlkekska 61
                              +Ls++   yL+e+++ k+  k+
  PHY93_05630|PHY93_05630 31 ADLSDLSISYLNEIEKGKKYPKV 53
                             57999**********98866453 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.21
                     RICH  39 kkLseIkteyLyelkvlkekskaeleelvsktkae 73 
                               kL++I + +L+   +++ ++  ele+ + k+k +
  PHY93_05630|PHY93_05630 133 MKLEDIYNAALRSFIEANDNYFPELEK-MAKIKRN 166
                              69**************99998777776.7888865 PP

  == domain 3  score: 9.3 bits;  conditional E-value: 0.00072
                     RICH  43 eIkteyLyelkvlkekskaeleelvskt 70 
                               Ik++yLye+++++        +l+++t
  PHY93_05630|PHY93_05630 183 LIKKQYLYEIDENTLAAN----SLLEET 206
                              59*********9986643....222222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (484 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       752  (0.0419432); expected 358.6 (0.02)
Passed bias filter:                      419  (0.02337); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.56u 0.23s 00:00:00.79 Elapsed: 00:00:00.40
# Mc/sec: 3629.26
//
Query:       PHY93_11435|PHY93_11435  [L=191]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.8e-34  118.7   0.0    2.2e-34  118.5   0.0    1.1  1  FMN_red       NADPH-dependent FMN reductase
    7.4e-11   42.1   0.0    9.4e-11   41.8   0.0    1.1  1  Flavodoxin_2  Flavodoxin-like fold


Domain annotation for each model (and alignments):
>> FMN_red  NADPH-dependent FMN reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  118.5   0.0   2.4e-38   2.2e-34       2     153 ..       3     155 ..       2     157 .. 0.96

  Alignments for each domain:
  == domain 1  score: 118.5 bits;  conditional E-value: 2.4e-38
                              EEEEEES--STT-HHHHHHHHHHCCT-T.T-CEEEEETTTS.--..---HCHGHTCGGSHHHHHHHHHHHH-SCEEEEEEECTTCE CS
                  FMN_red   2 kilvisGSlrkgsntrklaewaaealkeagaevelidladlilpcalcdkdlesegqtsddvaellekiaaadaliivtPeYngsy 87 
                              ki++++GS+r +s+++k++++a   ++eagaev++idl+d++lp  l+d+dle +++ + + ++l+e  ++++al+++ PeYn s+
  PHY93_11435|PHY93_11435   3 KIIAFAGSTRTESYNKKILKAAVFGAREAGAEVTVIDLRDFPLP--LFDGDLEAKEGIPSNGKKLKELFKTHHALLLALPEYNSSM 86 
                              89******************************************..*******99******************************* PP

                              -HHHHHHHHCHT-.....SSCHCCTT-EEEEEEE-SSTTTTHHHHHHHHHHHHHTT-EEEECSEEEETSH CS
                  FMN_red  88 sgllKnalDrlsr....trgkkelrgKpvalvavgggrrgglraeeqlrqvlaelgaivvpraavavgka 153
                              sg++Kn +D++sr    + + + + gK+++l+++++g  gglr   ++r++l ++++ v+p+ +  v+ka
  PHY93_11435|PHY93_11435  87 SGVFKNTIDWVSRpekgETPLQCFDGKVAGLISASPGSLGGLRGLVHARSMLENINVLVMPE-QICVPKA 155
                              **************77777777888************************************9.8777765 PP

>> Flavodoxin_2  Flavodoxin-like fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.8   0.0     1e-14   9.4e-11       2     134 ..       3     121 ..       2     141 .. 0.81

  Alignments for each domain:
  == domain 1  score: 41.8 bits;  conditional E-value: 1e-14
                              EEEEEE--TTGGCCHHHCHHHHHHHHHCCCTTTEEEEEEHHCCT-----CCCCHCCHHHHTT.CHHHHHHHHHHHHCSSEEEEEEE CS
             Flavodoxin_2   2 kiLiinahprpeksfssalaqafvealekagphevtvrdLyadflpvlttrdlaaklayeek.padveseqiekllaadaivlqfP 86 
                              ki    ++ r+ +s ++++++a+v ++++ag +evtv+dL + +lp ++ +       ++e+ p + ++ + e ++ ++a++l+ P
  PHY93_11435|PHY93_11435   3 KIIAFAGSTRT-ESYNKKILKAAVFGAREAG-AEVTVIDLRDFPLPLFDGDLE-----AKEGiPSNGKKLK-ELFKTHHALLLALP 80 
                              56666788899.5******************.9*********99*****9443.....3555567778888.************** PP

                              -BTTB--HHHHHHHHHHS-TTTSCEETTCSSCCCCTTTTSEEEEEEEE CS
             Flavodoxin_2  87 lwwfgvPailKgwiDrvltagfafyteeggegrgggLkgkkalvivtt 134
                               ++ +++ ++K+ iD v ++ +      +  +  + + gk a +i+++
  PHY93_11435|PHY93_11435  81 EYNSSMSGVFKNTIDWVSRPEKGE----T--P-LQCFDGKVAGLISAS 121
                              *****************9998833....2..2.455556666666555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (191 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       314  (0.0175135); expected 358.6 (0.02)
Passed bias filter:                      309  (0.0172346); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.37u 0.21s 00:00:00.57 Elapsed: 00:00:00.34
# Mc/sec: 1664.20
//
Query:       PHY93_11440|PHY93_11440  [L=462]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    6.5e-79  265.6   0.1    9.2e-79  265.1   0.1    1.2  1  Lyase_1      Lyase
    5.8e-17   61.9   0.6    5.8e-17   61.9   0.6    2.9  4  FumaraseC_C  Fumarase C C-terminus
    5.2e-05   22.9   0.7    0.00011   21.8   0.7    1.5  1  FANCI_S1     FANCI solenoid 1
  ------ inclusion threshold ------
       0.12   11.8   0.2       0.16   11.4   0.2    1.2  1  SDA1         SDA1


Domain annotation for each model (and alignments):
>> Lyase_1  Lyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  265.1   0.1     2e-82   9.2e-79       1     312 []       9     343 ..       9     343 .. 0.93

  Alignments for each domain:
  == domain 1  score: 265.1 bits;  conditional E-value: 2e-82
                              CEEEEETCHHHHHHHHHHHHHGGGHHHHHC.....HHHHHHHHHHHTTSST....HHHHHHHHHHHHHHHCHCHHC....GGHHHB CS
                  Lyase_1   1 grftvkadklmgiftersrenfrlseedik.....alaalkkaaakanvdl....keeaaaiikaldevleegkld....dqfvlk 73 
                              g+++ + d+++gi++ r+++nf++se +++        +lkkaaa+an+++     ++a aii+a+de+++ ++ +    + f+++
  PHY93_11440|PHY93_11440   9 GQLEIADDAYYGIQSYRASQNFQISETQVHplmikSYLLLKKAAAIANEKVgvlePKKARAIISAVDELIN-IDTHkdssKYFIID 93 
                              5678899******************999999999888899*********999999*************998.43321111469*** PP

                              SSSSSHHHHHHHHHHHHHH....HHTT......HSSGIIIIITTT--HHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHT CS
                  Lyase_1  74 viqegsgtavnmnlnevig....ellg......ekvepndkvhtgqSsnDqvpTalrlalkkalsekLlpaleqLidalkekakef 149
                               +q g+gt+ nmn+nevi+    ellg        ++pnd+v+++qS+nD +pT +rla+ +   ++L+++le + ++l  ka+ef
  PHY93_11440|PHY93_11440  94 AFQAGAGTSQNMNANEVIAnkaqELLGkklgsyDEINPNDHVNMSQSTNDSYPTVMRLATLALS-NQLITELEYFSNSLGVKAQEF 178
                              *******************9999888899999999***********************987655.99******************* PP

                              TT-EEEEEETTEEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHTCEETTTTTTTSSTTTSCCTHHHHHHHHHH.HHHCST.EESS CS
                  Lyase_1 150 kdvvkiGrThlqdAtPvtlgqelsayaealerdrerlkellkrllvellgggtavgtglnadpefaelvakela.kvtglp.vkap 233
                              ++++k+GrThlqdA+P++lgqe+ ay   +++ ++ l+e+++ l+v+ +gg +avgtg+n+ + +   ++ el   ++  + ++ap
  PHY93_11440|PHY93_11440 179 DHILKAGRTHLQDAVPIRLGQEFGAYKYTVDQLIKLLNEAQASLRVLGIGG-SAVGTGINVPKGYRDTIILELRtLFQDDKlTIAP 263
                              *****************************************8888888877.**********************545666789*** PP

                              SHHHHHHC-HHHHHHHHHHHHHHHHHHHHHHHHHHHTSTT.TSSEEEEGCCTSSC-TTSTTTEBTHHHHHHHHHHHHHHH CS
                  Lyase_1 234 nsfeavsdrDavvellgalkllatsLskfaeDlrllssge.aglvelslaesepGSSiMPgKvNPvqlElltgvagrvvG 312
                              n + a++++  ++ ++ al+  a++L ++ +Dlrllssg+ +gl e+ l+ s+pGSSiMPgK NP  lE+ ++v ++v+G
  PHY93_11440|PHY93_11440 264 NLIAAMQSQLPMMIYSNALRASALELTRIMNDLRLLSSGPsTGLAEIILPSSQPGSSIMPGKINPSLLEMGNQVFFKVIG 343
                              ******************************************************************************98 PP

>> FumaraseC_C  Fumarase C C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   1.0       2.7   1.2e+04      13      20 ..      50      57 ..      49      59 .. 0.84
   2 ?   -2.3   0.0       1.4   6.5e+03      37      48 ..     166     183 ..     151     184 .. 0.65
   3 ?   -3.0   0.0       2.3     1e+04       7      21 ..     340     354 ..     339     358 .. 0.83
   4 !   61.9   0.6   1.3e-20   5.8e-17       1      53 [.     409     461 ..     409     462 .] 0.98

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 2.7
                             HHHHHHHH CS
              FumaraseC_C 13 kAakIAke 20
                             kAa+IA+e
  PHY93_11440|PHY93_11440 50 KAAAIANE 57
                             9*****87 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 1.4
                              -.......-HHHHHHHT- CS
              FumaraseC_C  37 l......lteeeldelld 48 
                              +      ++++e+d +l+
  PHY93_11440|PHY93_11440 166 YfsnslgVKAQEFDHILK 183
                              344444467888888885 PP

  == domain 3  score: -3.0 bits;  conditional E-value: 2.3
                              HHHHHHHHHHHHHHH CS
              FumaraseC_C   7 phIGYekAakIAkeA 21 
                              ++IG ++A + A +A
  PHY93_11440|PHY93_11440 340 KVIGNDNAMAFAIQA 354
                              589*9***9988766 PP

  == domain 4  score: 61.9 bits;  conditional E-value: 1.3e-20
                              GGGGGHHHHHHHHHHHHHHHHHHHT--HHHHHHHTT-.-HHHHHHHT-HHHHH CS
              FumaraseC_C   1 LVTaLnphIGYekAakIAkeAlkegktlreavlelgllteeeldelldpekMt 53 
                              ++TaL+p IGY kAa++Ak Al e+k++ e++ e+++lt+e++++ll+ ++Mt
  PHY93_11440|PHY93_11440 409 IATALSPLIGYAKAAELAKVALSENKSIIELIKEKKILTDEQFKKLLNLREMT 461
                              79**************************************************9 PP

>> FANCI_S1  FANCI solenoid 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.8   0.7   2.5e-08   0.00011      14      96 ..     351     453 ..     346     457 .. 0.87

  Alignments for each domain:
  == domain 1  score: 21.8 bits;  conditional E-value: 2.5e-08
                 FANCI_S1  14 liesgelseklasdlislLlleldklsgdhlvelvelcldaikegdakfgkvlelLPkvLsvla....................ee 79 
                              +i+ g+l+ +++  l++ L+le  ++ +++l  + e c+d ik++d+++ k l l  ++ ++l+                    + 
  PHY93_11440|PHY93_11440 351 AIQAGQLELNVMMPLMAQLSLESTHIMKNALHSIRERCIDGIKANDKQCEKYLGLTSQIATALSpligyakaaelakvalsenkSI 436
                              68999**********************************************************99999988888888888754333 PP

                 FANCI_S1  80 etlnaekgelsGeeyks 96 
                               +l  ek+ l++e++k+
  PHY93_11440|PHY93_11440 437 IELIKEKKILTDEQFKK 453
                              45667777788888887 PP

>> SDA1  SDA1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.2   3.5e-05      0.16     187     223 ..     422     458 ..     390     462 .] 0.77

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 3.5e-05
                     SDA1 187 eeekkkekeeekiskaselattrILTpaDFaklkelr 223
                              ++e +k + +e++s  + ++ ++ILT++ F+kl +lr
  PHY93_11440|PHY93_11440 422 AAELAKVALSENKSIIELIKEKKILTDEQFKKLLNLR 458
                              3445555556666666689**************9999 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (462 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       541  (0.0301746); expected 358.6 (0.02)
Passed bias filter:                      354  (0.0197445); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.57u 0.22s 00:00:00.78 Elapsed: 00:00:00.42
# Mc/sec: 3282.20
//
Query:       PHY93_11445|PHY93_11445  [L=241]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-14   54.1   1.4    6.3e-14   51.9   2.0    1.9  2  PAP2      PAP2 superfamily
    6.8e-07   29.2   0.2      1e-06   28.6   0.2    1.3  1  PAP2_3    PAP2 superfamily
  ------ inclusion threshold ------
      0.022   15.3   1.5       0.06   13.9   0.4    2.1  2  PAP2_C    PAP2 superfamily C-terminal


Domain annotation for each model (and alignments):
>> PAP2  PAP2 superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.8   0.0       1.7     1e+04      68      81 ..      49      62 ..      45      77 .. 0.70
   2 !   51.9   2.0   1.1e-17   6.3e-14      50     134 ..     139     215 ..     113     217 .. 0.84

  Alignments for each domain:
  == domain 1  score: -3.8 bits;  conditional E-value: 1.7
                     PAP2 68 alllalllrrkrkk 81
                             +++l+lll++  kk
  PHY93_11445|PHY93_11445 49 LTILTLLLKNDAKK 62
                             56667776666665 PP

  == domain 2  score: 51.9 bits;  conditional E-value: 1.1e-17
                     PAP2  50 keakesfPSgHsafafalalllalllrrkrkkiglvllalillllavlvalsRlylgvHflsDvlaGlliGialaalayrlvqkk 134
                              +  ++sfPSgHs++afa+  ++++     +           + ++a++v++sRl +++H+l Dv+aG+ iG + ++ +y+  +k+
  PHY93_11445|PHY93_11445 139 NGSDHSFPSGHSTTAFAFSSVVMMEHSLPWGI--------AANAMAAFVGFSRLNDNAHYLQDVIAGATIGSMYGVGLYYAQKKR 215
                              45679************999887655555555........8***********************************999988775 PP

>> PAP2_3  PAP2 superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.6   0.2   1.7e-10     1e-06     125     184 ..     143     201 ..      97     206 .. 0.82

  Alignments for each domain:
  == domain 1  score: 28.6 bits;  conditional E-value: 1.7e-10
                   PAP2_3 125 aafPSlHvawallvalalwrlrrkrllrvlalllnvlmivatvatgnHYlvDviaGvala 184
                               +fPS H + a+ +  + + + ++  ++++a ++++++ ++ +    HYl DviaG++++
  PHY93_11445|PHY93_11445 143 HSFPSGHSTTAFAFSSV-VMMEHSLPWGIAANAMAAFVGFSRLNDNAHYLQDVIAGATIG 201
                              47*****9999999988.4455555599*****************************987 PP

>> PAP2_C  PAP2 superfamily C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.4   0.0      0.28   1.7e+03      12      30 ..       6      24 ..       5      52 .. 0.75
   2 ?   13.9   0.4     1e-05      0.06       8      67 ..     147     203 ..     141     211 .. 0.83

  Alignments for each domain:
  == domain 1  score: -0.4 bits;  conditional E-value: 0.28
                   PAP2_C 12 vvltlavlfileyspkkla 30
                             ++++l++l+ ++ s+++++
  PHY93_11445|PHY93_11445  6 FFIVLFLLISFQASSSEFW 24
                             5788888888998888886 PP

  == domain 2  score: 13.9 bits;  conditional E-value: 1e-05
                   PAP2_C   8 SGHtvvltlavlfileyspkklailkvillllallglfliiasrkHYtvDVllglyittl 67 
                              SGH+++ + ++ +++  ++  +    + +  +a++  f+ +    HY  DV+ g++i ++
  PHY93_11445|PHY93_11445 147 SGHSTTAFAFSSVVMMEHSLPW---GIAANAMAAFVGFSRLNDNAHYLQDVIAGATIGSM 203
                              9**9988887777766555555...8999999************************9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (241 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       521  (0.0290591); expected 358.6 (0.02)
Passed bias filter:                      441  (0.024597); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.45u 0.21s 00:00:00.66 Elapsed: 00:00:00.37
# Mc/sec: 1971.50
//
Query:       PHY93_11450|PHY93_11450  [L=115]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    8.9e-29   99.3   6.7      1e-28   99.2   6.7    1.0  1  DAGK_prokar  Prokaryotic diacylglycerol kinase
     0.0026   18.0   1.8      0.005   17.1   1.8    1.5  1  2TM          2TM domain
  ------ inclusion threshold ------
        1.9    8.8   9.2       0.13   12.5   4.1    1.6  2  DUF1430      Protein of unknown function (DUF1430)


Domain annotation for each model (and alignments):
>> DAGK_prokar  Prokaryotic diacylglycerol kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   99.2   6.7   1.7e-32     1e-28       2     100 ..      12     110 ..      11     112 .. 0.97

  Alignments for each domain:
  == domain 1  score: 99.2 bits;  conditional E-value: 1.7e-32
              DAGK_prokar   2 yalkGlkaalkeernfrielvlavlvlllalllklsalewlllilaillvlvaEllNtaiEavvDlvspeyhelakraKDiaaaav 87 
                              +al+Glk a+ +er+fr ++v++++v++  ++lk s   w+++il+i+++l+aEl+Nt++E + Dl++p+yh +++raKD+aaaav
  PHY93_11450|PHY93_11450  12 FALQGLKSAWLSERSFRAQIVITFIVIVSLIFLKASLQWWAIIILVIGATLAAELINTSLEYMLDLLHPNYHSQIGRAKDCAAAAV 97 
                              69************************************************************************************ PP

              DAGK_prokar  88 lvaailavvvgll 100
                              lv+++ a+++ ++
  PHY93_11450|PHY93_11450  98 LVLSCSAILIFAA 110
                              *******999875 PP

>> 2TM  2TM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   1.8   8.3e-07     0.005      10      56 ..      24      70 ..      18      84 .. 0.87

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 8.3e-07
                      2TM 10 ikgFyrhlvvYlivniflilinlgsswflwpilfWgiglllhalkvF 56
                             +++F+ ++v+ +iv++ li+++ + +w+ ++il+ g  l+++ +++ 
  PHY93_11450|PHY93_11450 24 ERSFRAQIVITFIVIVSLIFLKASLQWWAIIILVIGATLAAELINTS 70
                             689******************98777877889999*****9999975 PP

>> DUF1430  Protein of unknown function (DUF1430)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   4.1   2.2e-05      0.13      20      79 ..       3      64 ..       3      75 .. 0.78
   2 ?   -2.1   0.2      0.76   4.6e+03       8      12 ..     103     107 ..      92     113 .. 0.41

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 2.2e-05
                  DUF1430 20 eqfkkkilikkihGyslfkrhkeyliiqlivllillvlifiltk..ekiillvvlvllliel 79
                             +q+ +k li  + G++    +++ + +q+++ +i++v++++l+   ++++++++++ +++ +
  PHY93_11450|PHY93_11450  3 NQNLYKRLIFALQGLKSAWLSERSFRAQIVITFIVIVSLIFLKAslQWWAIIILVIGATLAA 64
                             5999***********99999999999999999999998888888766666666666655544 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 0.76
                  DUF1430   8 llliv 12 
                              + + +
  PHY93_11450|PHY93_11450 103 SAILI 107
                              11111 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (115 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       996  (0.0555525); expected 358.6 (0.02)
Passed bias filter:                      391  (0.0218082); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.41u 0.18s 00:00:00.59 Elapsed: 00:00:00.35
# Mc/sec: 978.51
//
Query:       PHY93_11455|PHY93_11455  [L=249]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    3.1e-21   75.6   9.4    3.1e-21   75.6   9.4    1.8  2  PAP2       PAP2 superfamily
     0.0002   21.1   6.6    0.00038   20.2   6.4    1.7  1  PAP2_3     PAP2 superfamily
  ------ inclusion threshold ------
       0.03   14.9   7.1       0.03   14.9   7.1    2.6  3  PAP2_C     PAP2 superfamily C-terminal


Domain annotation for each model (and alignments):
>> PAP2  PAP2 superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0      0.33     2e+03     118     118 ..      81      81 ..      35     111 .. 0.46
   2 !   75.6   9.4   5.2e-25   3.1e-21       3     132 ..     114     230 ..     110     234 .. 0.89

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.33
                     PAP2 118 l 118
                              +
  PHY93_11455|PHY93_11455  81 A 81 
                              0 PP

  == domain 2  score: 75.6 bits;  conditional E-value: 5.2e-25
                     PAP2   3 lalllalalaalltsvlKdlvgrpRPfflaeetkldtqvstletseskeakesfPSgHsafafalalllalllrrkrkkig.lvll 87 
                              l+l la+   +l +svlK+++ rpRP ++ +  +  +               s+PSgHs+++++ +l+lall++r +k ++  +l+
  PHY93_11455|PHY93_11455 114 LYLFLAVSGGTLWMSVLKNFMARPRPQIISHLVEVEGL--------------SYPSGHSLVSTVTYLALALLVCRHIKSYKiISLV 185
                              44555555555559*****************9999998..............9***************************998888 PP

                     PAP2  88 alillllavlvalsRlylgvHflsDvlaGlliGialaalayrlvq 132
                              +  ++l + l+a+sRlylgvH++sDvl G+l+Gi++++ +++l++
  PHY93_11455|PHY93_11455 186 LITAILIISLIAFSRLYLGVHYPSDVLSGMLFGISWVLMLTALFK 230
                              888889999****************************99888765 PP

>> PAP2_3  PAP2 superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.2   6.4   6.3e-08   0.00038     123     185 ..     149     219 ..      91     224 .. 0.79

  Alignments for each domain:
  == domain 1  score: 20.2 bits;  conditional E-value: 6.3e-08
                   PAP2_3 123 glaafPSlHvawallvalalwrlrrkr........llrvlalllnvlmivatvatgnHYlvDviaGvalal 185
                              +  + PS H  ++++++lal+ l  ++        l+ + a+l+  l++++ +++g HY  Dv+ G+++++
  PHY93_11455|PHY93_11455 149 EGLSYPSGHSLVSTVTYLALALLVCRHiksykiisLVLITAILIISLIAFSRLYLGVHYPSDVLSGMLFGI 219
                              55678999999888877776655444434446666778888999999*******************98764 PP

>> PAP2_C  PAP2 superfamily C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.1      0.96   5.7e+03      34      50 ..      27      43 ..       9      52 .. 0.45
   2 ?   -2.3   0.2       1.1   6.8e+03      49      49 ..     107     107 ..      91     134 .. 0.58
   3 ?   14.9   7.1     5e-06      0.03       8      68 ..     155     221 ..     153     228 .. 0.74

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 0.96
                   PAP2_C 34 villllallglfliias 50
                              i +ll   g f+++a 
  PHY93_11455|PHY93_11455 27 NIKILLWPAGAFFFLAL 43
                             33333333344444443 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 1.1
                   PAP2_C  49 a 49 
                              a
  PHY93_11455|PHY93_11455 107 A 107
                              2 PP

  == domain 3  score: 14.9 bits;  conditional E-value: 5e-06
                   PAP2_C   8 SGHtvvltlavlfileyspkklailkvillll..allglfliiasr....kHYtvDVllglyittlv 68 
                              SGH++v t+++l++     ++++ +k+i+l+l  a+l+++li  sr     HY  DVl g+++ +  
  PHY93_11455|PHY93_11455 155 SGHSLVSTVTYLALALLVCRHIKSYKIISLVLitAILIISLIAFSRlylgVHYPSDVLSGMLFGISW 221
                              9**************999999997777766651144445555555433336***********98765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (249 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       965  (0.0538234); expected 358.6 (0.02)
Passed bias filter:                      386  (0.0215294); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 1841.84
//
Query:       PHY93_11460|PHY93_11460  [L=180]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (180 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       339  (0.0189079); expected 358.6 (0.02)
Passed bias filter:                      303  (0.0169); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.25s 00:00:00.64 Elapsed: 00:00:00.38
# Mc/sec: 1403.76
//
Query:       PHY93_11465|PHY93_11465  [L=177]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      0.007   16.0   1.8      0.018   14.6   1.8    1.8  1  Ni_hydr_CYTB  Prokaryotic cytochrome b561
  ------ inclusion threshold ------
       0.12   12.7   1.6        1.9    8.8   0.2    2.4  2  DUF420        Protein of unknown function (DUF420)
       0.13   12.4   0.1        0.2   11.7   0.1    1.4  1  C2-C2_1       First C2 domain of RPGR-interacting protein 1


Domain annotation for each model (and alignments):
>> Ni_hydr_CYTB  Prokaryotic cytochrome b561
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.6   1.8   3.1e-06     0.018      42     155 ..      79     174 ..       5     177 .] 0.80

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 3.1e-06
                              HHHHHHHHHHHHHHHHHHHHHHH------------STTTSSSSS----------------TT...THHHHHHHHHHHHHHHHHHHT CS
             Ni_hydr_CYTB  42 aralHklaGlvllalllfrllwlkkakkpspriifrqikrdltlllrgrkpeagknnplqkl...vhlllyvllvvliltGlllsf 124
                                ++Hk+aG++  +l++  ++++                       +++kpe +k +   ++   +++l + l+ + ++ G+l  +
  PHY93_11465|PHY93_11465  79 DNNVHKYAGITTGLLYWTTAYFA----------------------WTAPKPEGIKDTGSTEIhraLAWLHVPLMTITPILGYLAKE 142
                              35789999999999998888888......................99*******9999999999999****************988 PP

                              HHHHHHHH.....HTS-THHHHHHH.HHHHHHH CS
             Ni_hydr_CYTB 125 aatagfpll..lddkggaqlarelHellaaall 155
                               a +g +++   + +gg + a+ l  ++aa+l 
  PHY93_11465|PHY93_11465 143 DANKGKESTglVKAHGGIATAAYLS-FMAAGLT 174
                              6555555555566666666666666.6666665 PP

>> DUF420  Protein of unknown function (DUF420)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.5   0.1     0.027   1.6e+02     101     125 ..      50      74 ..      35      77 .. 0.78
   2 ?    8.8   0.2   0.00032       1.9      81     127 ..      83     139 ..      81     141 .. 0.88

  Alignments for each domain:
  == domain 1  score: 2.5 bits;  conditional E-value: 0.027
                   DUF420 101 kgkfekHrkiaritvpiwlyvavtG 125
                              ++k + H+k++  t+  +  ++++G
  PHY93_11465|PHY93_11465  50 HSKLQLHQKLGLATMAAMTATVILG 74 
                              4477889999999998888888877 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.00032
                   DUF420  81 HivLavvvvplvlvtlvlalkg..........kfekHrkiaritvpiwlyvavtGvv 127
                              H    +++  l  +t ++a++           ++e Hr++a++ vp++ ++ ++G++
  PHY93_11465|PHY93_11465  83 HKYAGITTGLLYWTTAYFAWTApkpegikdtgSTEIHRALAWLHVPLMTITPILGYL 139
                              5566677888999999999999999***99999******************999986 PP

>> C2-C2_1  First C2 domain of RPGR-interacting protein 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.1   3.3e-05       0.2      67     116 ..      36      83 ..      13      92 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 3.3e-05
                  C2-C2_1  67 VtvddlfleylqteslkleLhqalgsdfktlaaaqlslkellekrsekie 116
                              ++vd  +l+ +++++ kl+Lhq lg      ++a++ l e  ++  ++++
  PHY93_11465|PHY93_11465  36 LKVDPQILKVMEERHSKLQLHQKLGLATMAAMTATVILGESAKD--NNVH 83 
                              799**********************9999999999999888855..4444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (177 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       449  (0.0250432); expected 358.6 (0.02)
Passed bias filter:                      326  (0.0181828); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.44u 0.26s 00:00:00.70 Elapsed: 00:00:00.42
# Mc/sec: 1266.08
//
Query:       PHY93_11470|PHY93_11470  [L=237]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.8e-41  141.9   0.8    2.2e-41  141.6   0.8    1.1  1  LolA_like      Outer membrane lipoprotein-sorting protein
  ------ inclusion threshold ------
      0.033   13.1   0.1      0.098   11.6   0.0    1.6  2  Peptidase_M66  Peptidase M66


Domain annotation for each model (and alignments):
>> LolA_like  Outer membrane lipoprotein-sorting protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  141.6   0.8   2.5e-45   2.2e-41       3     181 ..      66     237 .]      64     237 .] 0.98

  Alignments for each domain:
  == domain 1  score: 141.6 bits;  conditional E-value: 2.5e-45
                              TEEEEEEEESTTTTT-EEEEESSSTTEEEEEETTTTCEEEE-GGGTTSECCTTC.EHHHHC.--SCCCEEEEEEEEEEETTEEEEE CS
                LolA_like   3 dkslivftePadvkGtafLtlkekdddlWlYlPalkrvrrisssdksqsfmGsdfsyeDls.srevedythellgeeevggkdcyv 87 
                              ++sl+  teP++ +G ++L++   d d Wl+ P++k+  ris    +q++ G+  +++D++ ++++edy+++llg e++++ ++y 
  PHY93_11470|PHY93_11470  66 NNSLTEQTEPERARGRKILMH---DYDIWLFTPNIKKALRIS---LEQKLTGQV-ANGDIArTNYAEDYEAKLLGIEKMDNIEVYR 144
                              5789999**************...99****************...********9.******************************* PP

                              EEEEESS.TTSSECEEEEEEETTT--EEEEEEEETTS-EEEEEEEEEEEEETTEEEEEEEEEEE.TTT--EEEEEEEEEEE--.-- CS
                LolA_like  88 leltpkdaadvsYskivlwvdketylplkvefydksgkllKtltvsdiekidgrwtptkmtmed.lkkghkTvleisevefdkglp 172
                              l+l++++ ++v+Y+ki+++v k+++ p+++ f+++sgk+lK++++s+++ i+g+ ++tkm+++d l+k++ +++ +s+ + +k ++
  PHY93_11470|PHY93_11470 145 LDLKARN-NKVTYGKIEYFVAKKDFSPVEATFFALSGKPLKRANFSEFKPIQGMSRATKMVVQDyLQKDKVSTMIFSDHNPEK-FS 228
                              *******.7**************************************************************************.** PP

                              GGGCSCGGC CS
                LolA_like 173 dklFtkryL 181
                              +++F+k+ L
  PHY93_11470|PHY93_11470 229 ESIFNKERL 237
                              ******987 PP

>> Peptidase_M66  Peptidase M66
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.0       0.1     9e+02      18      60 ..      50      93 ..      37     128 .. 0.61
   2 ?   11.6   0.0   1.1e-05     0.098      62     106 ..     186     230 ..     177     234 .. 0.92

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.1
            Peptidase_M66 18 kdwmkpgv.klqfsaslkksselsspkvgadseLkiqtlpfylf 60
                              ++ k++v ++ f++ +++  e + p+     ++ ++  ++ lf
  PHY93_11470|PHY93_11470 50 DQDHKKEVyHVAFKDVNNSLTEQTEPERARGRKILMHDYDIWLF 93
                             33333333234455555555555555555555555555555555 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 1.1e-05
            Peptidase_M66  62 andtntkPfsktkvideeiakelfqkvpvsklkvsnhpiqrfdss 106
                              an +  kP + +  + + + ++++qk  vs +++s+h++++f++s
  PHY93_11470|PHY93_11470 186 ANFSEFKPIQGMSRATKMVVQDYLQKDKVSTMIFSDHNPEKFSES 230
                              7888999***********************************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (237 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       598  (0.0333538); expected 358.6 (0.02)
Passed bias filter:                      394  (0.0219756); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.42
# Mc/sec: 1705.37
//
Query:       PHY93_11475|PHY93_11475  [L=426]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (426 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       694  (0.0387082); expected 358.6 (0.02)
Passed bias filter:                      447  (0.0249317); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.26s 00:00:00.78 Elapsed: 00:00:00.41
# Mc/sec: 3131.21
//
Query:       PHY93_11480|PHY93_11480  [L=227]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    3.5e-31  108.5   0.0    4.7e-31  108.1   0.0    1.2  1  ABC_tran     ABC transporter
    1.1e-05   25.5   4.0     0.0012   18.7   0.0    2.1  2  AAA_21       AAA domain, putative AbiEii toxin, Type IV TA sy
    0.00011   21.7   1.7     0.0014   18.1   1.7    2.0  1  SMC_N        RecF/RecN/SMC N terminal domain
     0.0045   16.7   0.1     0.0091   15.7   0.1    1.5  1  AAA_29       P-loop containing region of AAA domain
  ------ inclusion threshold ------
      0.011   16.1   0.8      0.026   14.9   0.7    1.6  1  AAA_16       AAA ATPase domain
      0.012   15.6   2.1      0.057   13.3   0.4    2.5  3  RsgA_GTPase  RsgA GTPase
      0.014   14.5   0.0      0.021   13.9   0.0    1.3  1  T2SSE        Type II/IV secretion system protein
      0.066   13.5   0.2        1.7    9.0   0.2    2.3  1  SbcCD_C      Putative exonuclease SbcCD, C subunit
      0.084   12.6   1.6          8    6.0   0.0    2.3  2  AAA_15       AAA ATPase domain
      0.099   12.2   0.1        1.1    8.8   0.1    2.1  2  AAA_25       AAA domain
       0.14   12.1   0.8       0.59   10.0   0.1    2.0  2  NACHT        NACHT domain
        0.2   11.9   2.3        2.4    8.5   0.2    2.3  2  AAA_22       AAA domain
       0.52   10.9   3.3        1.6    9.3   0.9    2.5  3  AAA_18       AAA domain
        1.5    9.2   6.7       0.33   11.4   1.2    2.1  2  AAA_23       AAA domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  108.1   0.0   3.6e-34   4.7e-31       1     137 []      25     174 ..      25     174 .. 0.88

  Alignments for each domain:
  == domain 1  score: 108.1 bits;  conditional E-value: 3.6e-34
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG....B-HHHCCHCEEEE-SS--S-TTSBHHHH... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxx... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke....qeleslrkeigvlpqepqlfpeltvren... 79 
                              l+n++l++++ge +++ G++G+GK+tLl++      p +G++ +++ ++k+    q   +  +eig+++q+ +l p l++ en   
  PHY93_11480|PHY93_11480  25 LQNINLQVRKGEFIGLSGKSGSGKTTLLNVAGLIDPPSKGDLFIKNINIKNisdnQLSLIRAQEIGYIFQTFNLLPLLSALENvey 110
                              79***************************98888888*****9999999998875555566799********************** PP

                              ..........HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              ..........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ..........esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                                        e+ e+ ++al+k+gl+++ +++     s+LSgGq+qrva ara++k+p+l+l+DEpta
  PHY93_11480|PHY93_11480 111 plmllninekERLERSHAALKKVGLENFIHRRP----SQLSGGQRQRVAFARAIVKNPTLILADEPTA 174
                              ******965555555777777777777666666....*****************************97 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.3   1.8    0.0028       3.6       3      58 ..      39      77 ..      37      98 .. 0.65
   2 !   18.7   0.0   9.5e-07    0.0012     232     303 .]     141     210 ..     100     210 .. 0.81

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0028
                   AAA_21  3 vliGpNgsGKSnLLdaldllarldrdvegltdelsggggirkipslldlydpeipf 58
                             +l G+ gsGK++LL    l+   d              +++k + ++ +++++  +
  PHY93_11480|PHY93_11480 39 GLSGKSGSGKTTLLNVAGLI---D--------------PPSKGDLFIKNINIKNIS 77
                             6779**********999777...3..............444444444444444444 PP

  == domain 2  score: 18.7 bits;  conditional E-value: 9.5e-07
                   AAA_21 232 lparelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsr.ngaQviltTHSpllld 303
                              + +++lS G+++  a++ a+   +   +l+l DEp ++L+ k   +++ell +l++  ++ v+l +H++ l++
  PHY93_11480|PHY93_11480 141 RRPSQLSGGQRQRVAFARAIVKNP---TLILADEPTANLDTKTSDEVFELLMRLQQdLKVTVMLCSHDNDLIS 210
                              5678999***99999999999988...************************666666***********99985 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   1.7   1.1e-06    0.0014     124     212 ..      12     219 ..       7     224 .. 0.72

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 1.1e-06
                              HHHHHCTT-STT.......................................................................... CS
                              xxxxxxxxxxxx.......................................................................... RF
                    SMC_N 124 sellesagiske.......................................................................... 135
                              +++++s+gi+ +                                                                          
  PHY93_11480|PHY93_11480  12 HKIFASEGIEFTalqninlqvrkgefiglsgksgsgkttllnvaglidppskgdlfikniniknisdnqlsliraqeigyifqtfn 97 
                              55555555555555555566666666666666666666666666666666666666666666666666777777777777777777 PP

                              ...............................................CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HH CS
                              ...............................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 136 ...............................................lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDek 174
                                                                             +LSgG+++ va    fA   vk   l l De  a+LD k
  PHY93_11480|PHY93_11480  98 llpllsalenveyplmllninekerlershaalkkvglenfihrrpsQLSGGQRQRVA----FARAIVKNPTLILADEPTANLDTK 179
                              77777777777777777777777777777777778888888888888*******9766....6677789999************** PP

                              HHHHHHHHHHHHCTT..SEEEEE-SSHHHCCC-SCEEEEE CS
                              xxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 175 nvkkvaellkekskn..aQfivislreemlekadklvgvt 212
                                 +v ell + +++  + ++  s++++++++ ++ + + 
  PHY93_11480|PHY93_11480 180 TSDEVFELLMRLQQDlkVTVMLCSHDNDLISRTHRQITII 219
                              **********988882245566799999999998888765 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.1   7.1e-06    0.0091      18      39 ..      31      52 ..      20      65 .. 0.71

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 7.1e-06
                   AAA_29 18 eidlkg.atlltGpsGsGKSTll 39
                             +++ kg ++ l+G+sGsGK+Tll
  PHY93_11480|PHY93_11480 31 QVR-KGeFIGLSGKSGSGKTTLL 52
                             333.3368889***********9 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.7     2e-05     0.026      11      52 ..      24      70 ..      19     202 .. 0.43

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 2e-05
                   AAA_16 11 qLlsalervrsgrpelvllsGesGvGKsslvrellralekd........g 52
                             +L+++  +vr+g  e + lsG sG+GK++l++ +   +           +
  PHY93_11480|PHY93_11480 24 ALQNINLQVRKG--EFIGLSGKSGSGKTTLLNVAG-LIDPPskgdlfikN 70
                             566655578888..7899*************7655.34433343333330 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.4   4.5e-05     0.057      88     118 ..      23      54 ..       6      80 .. 0.80
   2 ?    0.8   0.0      0.32   4.1e+02      68      99 ..     101     132 ..      76     139 .. 0.82
   3 ?   -1.6   0.0       1.7   2.2e+03      66      85 ..     186     205 ..     167     222 .. 0.50

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 4.5e-05
                              TTHHHHHHHCTT.SEEEEECSTTSSHHHHHHH CS
              RsgA_GTPase  88 egleelkellkd.ktsvlvGqSGvGKStLina 118
                              ++l++++ ++++ +++ l G+SG GK+tL+n+
  PHY93_11480|PHY93_11480  23 TALQNINLQVRKgEFIGLSGKSGSGKTTLLNV 54 
                              55667776776669999**************6 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.32
                              HHHHHHHTTSEEEE--TTTHTTHHHHHHHCTT CS
              RsgA_GTPase  68 lkeelealgyevllvsaktkegleelkellkd 99 
                              l ++le+++y+++l++ ++ke le+ +++lk+
  PHY93_11480|PHY93_11480 101 LLSALENVEYPLMLLNINEKERLERSHAALKK 132
                              66789999999999999999999987777765 PP

  == domain 3  score: -1.6 bits;  conditional E-value: 1.7
                              HHHHHHHHHTTSEEEE--TT CS
              RsgA_GTPase  66 eelkeelealgyevllvsak 85 
                              e l+   ++l ++v+l+s +
  PHY93_11480|PHY93_11480 186 ELLMRLQQDLKVTVMLCSHD 205
                              33333334444444444433 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   1.7e-05     0.021     105     149 ..      11      55 ..       3      67 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 1.7e-05
                    T2SSE 105 lddlgaeealkekiaevlrkavrerglilvsGgTgsGKttllyal 149
                              ++++ a+e  + +  + ++  vr+   i +sG  gsGKttll+++
  PHY93_11480|PHY93_11480  11 IHKIFASEGIEFTALQNINLQVRKGEFIGLSGKSGSGKTTLLNVA 55 
                              56666666666677788899999999999*************986 PP

>> SbcCD_C  Putative exonuclease SbcCD, C subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0   0.2    0.0013       1.7      27      88 ..     140     188 ..     122     190 .. 0.73

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.0013
                  SbcCD_C  27 srssgtlSGGekqflaylalaaalaalyssaegrepalrlvfLDEAFsklDeesiatllell 88 
                              +r+ ++lSGG++q         a+a ++ +      ++ l++ DE  ++lD +++++++ell
  PHY93_11480|PHY93_11480 140 HRRPSQLSGGQRQR-------VAFARAIVK------NPTLILADEPTANLDTKTSDEVFELL 188
                              66667777777743.......233333333......5889999**********999999987 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.1   1.5     0.024        31      13      42 ..      24      54 ..      21      83 .. 0.82
   2 ?    6.0   0.0    0.0063         8     320     369 .]     160     209 ..     147     209 .. 0.89

  Alignments for each domain:
  == domain 1  score: 4.1 bits;  conditional E-value: 0.024
                   AAA_15 13 slkdveidlsee.ltvliGkNnsGKSsilea 42
                             +l+++ +++ +  +  l Gk +sGK+++l++
  PHY93_11480|PHY93_11480 24 ALQNINLQVRKGeFIGLSGKSGSGKTTLLNV 54
                             6788777777768999************975 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.0063
                   AAA_15 320 keeknvilliEEPEahLHpqaqkvlikllkelandnktQviitTHSphii 369
                              + +++ ++l +EP a+L ++   ++++ll +l +d k  v++++H + +i
  PHY93_11480|PHY93_11480 160 IVKNPTLILADEPTANLDTKTSDEVFELLMRLQQDLKVTVMLCSHDNDLI 209
                              4568899**************************************98765 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   0.1   0.00088       1.1      30      50 ..      32      52 ..      25      57 .. 0.88
   2 ?    0.9   0.0      0.22   2.8e+02     162     188 ..     177     204 ..     165     206 .. 0.80

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.00088
                   AAA_25 30 lpagelallaGapgtGKttla 50
                             +++ge++ l G +g+GKttl+
  PHY93_11480|PHY93_11480 32 VRKGEFIGLSGKSGSGKTTLL 52
                             4689***************97 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.22
                   AAA_25 162 nsdv.galvealeriarrtgaavllvhH 188
                              ++++ ++++e l r+++ ++++v+l  H
  PHY93_11480|PHY93_11480 177 DTKTsDEVFELLMRLQQDLKVTVMLCSH 204
                              444568999999*************999 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.1   0.00046      0.59       5      18 ..      40      53 ..      36      67 .. 0.88
   2 ?    0.5   0.1       0.4   5.2e+02      52     114 ..     133     193 ..     112     221 .. 0.59

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.00046
                             EEC-TTTCHHHHHH CS
                    NACHT  5 lqGeaGsGKTtLlq 18
                             l G++GsGKTtLl 
  PHY93_11480|PHY93_11480 40 LSGKSGSGKTTLLN 53
                             89**********95 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.4
                              .-HCHHHCCCCTS--SSS-CCHHHHCCSCCCEE....EEEE-STT-SS-TCH.........HHHHHC CS
                    NACHT  52 rsladllfsqlpepaapvsevwavllelperlL....lilDglDelvtdlgqkekqpvrtlLselir 114
                               +l +++++   ++++ +++    +++ ++ ++    lil  +De  + l+ k+  +v +lL +l +
  PHY93_11480|PHY93_11480 133 VGLENFIHRRPSQLSGGQRQ----RVAFARAIVknptLIL--ADEPTANLDTKTSDEVFELLMRLQQ 193
                              57777777777777777777....4444444444444444..5555555555555555555555544 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.5   0.2    0.0018       2.4       5      23 ..      35      53 ..      32      59 .. 0.86
   2 ?    3.3   0.1     0.074        94      79     125 ..     153     199 ..     105     219 .. 0.71

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.0018
                   AAA_22  5 agilvvtGesGtGKTtllr 23
                               ++ + G sG+GKTtll+
  PHY93_11480|PHY93_11480 35 GEFIGLSGKSGSGKTTLLN 53
                             5678899*********986 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.074
                   AAA_22  79 lealeqalraravielliiDEaqh.lr...seealeeLrsllnlsrkgvql 125
                              + a+++a+ +  +  l++ DE    l+   s+e++e L +l+   + +v++
  PHY93_11480|PHY93_11480 153 RVAFARAIVKNPT--LILADEPTAnLDtktSDEVFELLMRLQQ--DLKVTV 199
                              3445555555555..9999998877998766999999977776..444444 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.3   0.9    0.0012       1.6       1      15 [.      38      52 ..      38      56 .. 0.91
   2 ?   -0.5   0.0       1.3   1.6e+03      75     111 ..      89     127 ..      63     138 .. 0.66
   3 ?   -0.4   0.0       1.3   1.6e+03      65      83 ..     189     223 ..     156     226 .. 0.54

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.0012
                   AAA_18  1 IlltGtpGvGKttla 15
                             I+l+G++G+GKttl 
  PHY93_11480|PHY93_11480 38 IGLSGKSGSGKTTLL 52
                             89***********96 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 1.3
                   AAA_18  75 knlvidghlaeleseaakdikk..vvLtaspeelleRle 111
                                ++++ +   ++  a+    +  + L  +++e+leR  
  PHY93_11480|PHY93_11480  89 IGYIFQTFNLLPLLSALENVEYplMLLNINEKERLERSH 127
                              344666666666666666555577889999999999965 PP

  == domain 3  score: -0.4 bits;  conditional E-value: 1.3
                   AAA_18  65 eenss................aleegknlvidghl 83 
                              ++  +                ++++ +  +idg++
  PHY93_11480|PHY93_11480 189 MRLQQdlkvtvmlcshdndliSRTHRQITIIDGQI 223
                              33333333333333334444555555555666665 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   1.2   0.00026      0.33      13      37 ..      26      53 ..       5      58 .. 0.74
   2 ?    1.2   0.4      0.36   4.6e+02     123     175 ..      69     126 ..      54     196 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00026
                   AAA_23 13 qeidF...skgltlItGpNGaGKTTild 37
                             q+i++   +  +  ++G+ G+GKTT+l+
  PHY93_11480|PHY93_11480 26 QNINLqvrKGEFIGLSGKSGSGKTTLLN 53
                             33444765556889************97 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.36
                   AAA_23 123 ellgskkiilnlilflgqer....feefelkdkkerleelekeleele.dekkllekl 175
                              +++++k+i+ n+++++ +++    f+ f+l   +++le++e  l  l+ +ek+ le+ 
  PHY93_11480|PHY93_11480  69 KNINIKNISDNQLSLIRAQEigyiFQTFNLLPLLSALENVEYPLMLLNiNEKERLERS 126
                              3577777777777777777778887777777777777777666655431455555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (227 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       529  (0.0295053); expected 358.6 (0.02)
Passed bias filter:                      452  (0.0252106); expected 358.6 (0.02)
Passed Vit filter:                        81  (0.00451782); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.39
# Mc/sec: 1754.59
//
Query:       PHY93_05635|PHY93_05635  [L=976]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   2.1e-128  428.9   0.1   5.1e-128  427.6   0.0    1.5  2  Malate_synthase  Malate synthase
   1.3e-104  350.6   1.3    4.5e-58  197.0   0.0    2.2  2  ICL              Isocitrate lyase family
    5.2e-18   65.4   0.2    9.4e-18   64.5   0.2    1.3  1  PEP_mutase       Phosphoenolpyruvate phosphomutase


Domain annotation for each model (and alignments):
>> Malate_synthase  Malate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  427.6   0.0  8.6e-132  5.1e-128      18     485 ..      28     489 ..      15     528 .. 0.93
   2 ?   -2.5   0.0      0.18   1.1e+03     461     519 ..     678     732 ..     668     734 .. 0.79

  Alignments for each domain:
  == domain 1  score: 427.6 bits;  conditional E-value: 8.6e-132
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHS..HHHCCTCCCH-TSS---S-EECCCCE-TCCCCCCC.-CCHCCCCCCC CS
          Malate_synthase  18 ealefvaelvrdltprrrelLeeRdelqaeidkgeln..dflketkylreepewktatlhielqdrrveiiGka.drkmiinalne 100
                               +l+ +++l+r+++ rr++lL+ R+++ +++d+g+ +  + l+e  +l+   +wk+a+++ +l  rrvei+G++ d km+in+l  
  PHY93_05635|PHY93_05635  28 GFLDLLTKLHRKMEIRRNQLLAVRRRRLESYDQGAIPrtEILNEKSTLL---DWKVAPIPNDLLLRRVEITGPVnDTKMVINMLSR 110
                              58999******************************66447789*****9...9********************7369*******87 PP

                              S.....SSEEEEESSTTS--HHHHHHCCHHCCCHCCTTT-EEEET-TSEEEEETTSESSSSEEEEE---TTTEEEEEECTTCEEEH CS
          Malate_synthase 101 s.....aittiaDfEDsvapnwenlvkGqlnledavrgrisfrkenkdksYklndglegrsllfvRnrGwhltekhilvdGeeise 181
                              +     a + ++DfEDs+ p+w+n+++G  n   a  g++ ++k ++ k Yk+    ++++ l+vR rG hl+e  i +dG+ +s+
  PHY93_05635|PHY93_05635 111 NseglrADMAMLDFEDSMKPSWNNIIDGVYNVIGASLGELHYQKDDQSKIYKVD--PKDMAGLMVRVRGLHLQEVNIKIDGQYVSA 194
                              533444789********************************************9..599*************************** PP

                              HHHHHHHHHHHHHHHCSCCTTSSEEEEE-S-SSHHHHHHHHHHHHHHHHHCTSSTTSCEEEEEE-SHHHHTTHHHHHHCTTTTEEE CS
          Malate_synthase 182 gilDfgliffhnakelklsrgggpyivlPKmegpqEaalwnevFsraedllglprgtikatvliEtlraslnldeiiyelrdrvag 267
                              g++D +l+f+h+a++l ++  ++p  + PK+e p Ea +wn++F+  ++ lg   gt++at liEtl+a++n++ei+yelr++v+g
  PHY93_05635|PHY93_05635 195 GLFDLALCFYHSAANL-IKAHKTPKYYVPKIEYPMEAWWWNDLFCQLQTELGYSIGTLRATFLIETLPAAFNMEEILYELREHVVG 279
                              ****************.999999999************************************************************ PP

                              EEE-CHHHHHHHHHHTCCCCGCB...CGGGGCCSHHHHHHHHHHHHHHHHTT.CCCCCCCTCSEECCCEHHHCCCHHHHHHHCHHH CS
          Malate_synthase 268 lNcGrlDyifseiktlreagdmvLPdRkavtktapfikaYekllvktchkrgvhamgGlaakipikkdmeaneellekvredKlre 353
                              +N Gr+D+ifs iktl+++++++ PdR+++t+++ ++++Y k+lv++ch+rg+ a+gG++a+ p k+  e  +   +kv edK++e
  PHY93_05635|PHY93_05635 280 MNVGRWDKIFSDIKTLKNHPSRISPDRSEITMKKFWMENYAKKLVNVCHRRGAYAIGGMSAFTPGKDS-EVRALQTKKVIEDKSNE 364
                              ****************************************************************7766.66667789********* PP

                              HHCT-SEEEESSHHHHHHHHHHHHHCHCHCHHCCHHTTTHHHHHHHHCS.--BBHHHHHHHHHHHHHHHHHHHHHHCT-SSEEETT CS
          Malate_synthase 354 vraGadgaWvahPtlatlaaevfeevdvapnQielakeevritaddLltkipeaeeteeglrnnvqvglqYvvaWlrgvGcvpiih 439
                               + G+dg+Wv+hP  +  a++ f +    +nQ+++  e++ ++ + L+    ++ +t  gl+ n+qv++ Y+    +g+Gcv+ ++
  PHY93_05635|PHY93_05635 365 FKLGHDGCWVSHPYFIGPAMQCFPK----SNQVDFIDESFPAHPQLLM--EGSGPRTLGGLKINIQVAIAYLYGLAKGLGCVAHNN 444
                              ***********************87....89****9999888766555..599*********************99********** PP

                              EEESHHHHHHHHHHHHHHHHTTSC-CCHSHCHHHHHHHHHHHHHCC CS
          Malate_synthase 440 LmEDaATaeiSrqqlaqWirhgvvlkeqgvkvslelmaklvdeena 485
                              +mED AT+eiSr+q++qW +++++l+e g  v+++l+++l ++e++
  PHY93_05635|PHY93_05635 445 MMEDLATLEISRAQVWQWNHYQITLDE-GLVVNEALIKDLFQKEQE 489
                              ***************************.7************99987 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 0.18
                              TSC-CCHSHCHHHHHHHHHHHHHCCHHHHHHHCCTTHHHCHHHHHHHHHTTTCCC-CHH CS
          Malate_synthase 461 gvvlkeqgvkvslelmaklvdeenarleelgkedeayreaakllkkeataeefadfltl 519
                              + v +  + +v++e +a ++ +  a     g + +ay+ ++++++  a + +f+d l+ 
  PHY93_05635|PHY93_05635 678 DQVESA-EGNVTREWLAPIIADAEA---GFGGALNAYELMKQMIAAGAAGVHFEDQLAS 732
                              444444.368999999999888777...5677899***********9999999999986 PP

>> ICL  Isocitrate lyase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  197.0   0.0   7.5e-62   4.5e-58       8     254 ..     563     797 ..     555     800 .. 0.88
   2 !  153.8   0.3   9.7e-49   5.8e-45     353     526 .]     798     973 ..     795     973 .. 0.94

  Alignments for each domain:
  == domain 1  score: 197.0 bits;  conditional E-value: 7.5e-62
                              HHTSGGGGG---SS-HHHHHHH--SS----THHH.HHHHHHHHHHHHHHHT--EEEEB--SHHH.HHHHHHH-S-EEE-HHHHHHH CS
                      ICL   8 wwsdsrwrktkrvysaedivskrGnlkieyasse.qakklfklleeheaektasktfGaldpvq.vtqmakyldtiyvsGwqssst 91 
                              w +d rw+   r ys+ d+ + rG+ k+e++ ++  a+ l++ll+e++       + Gal   q v q+   l +iy+sGwq ++ 
  PHY93_05635|PHY93_05635 563 WEKDRRWKGITRDYSPADVLKLRGSYKLEHSLARlGAENLWRLLNEEN----YINALGALTGNQaVQQVRAGLKAIYLSGWQVAAD 644
                              667899*********************9998665169*******8765....45678999876527788889************** PP

                              --TT----SS-S-S-TTHHHHHHHHHHHHHHHHHHHHHHHHHSS-HHHHTTS--------EEEE-TT-SSSHHHHHHHHHHHHHTT CS
                      ICL  92 astsnepspdladypmdtvpnkvehlflaqlfhdrkqkeerlkvkkeereklanvdylrpiiadadtGhGGltavvkltklfierG 177
                              a  + e  pd + yp d+vpn v+++  a +  d+ +  e             + ++l piiada++G+GG      l k +i  G
  PHY93_05635|PHY93_05635 645 ANLAGEMYPDQSLYPSDSVPNVVKKINQALVRADQVESAE----------GNVTREWLAPIIADAEAGFGGALNAYELMKQMIAAG 720
                              ************************9988876555433222..........2234479***************************** PP

                              -SEEEE-SB-TT---------EEE--HHHHHHHHHHHHHHHHHTT---EEEEE--GGGEEEES-TT-GGGGGGEEEE CS
                      ICL 178 aaGihiedqasgtkkcGhmaGkvlvpiqehinrlvairaqadilgsdllvvartdseaatlitstidtrdhafilGa 254
                              aaG+h edq ++ kkcGh+ Gkvlvpi+e i +l a+r++ad++++ +lv+artd++aatl+ts +d+rdh+f+ G 
  PHY93_05635|PHY93_05635 721 AAGVHFEDQLASEKKCGHLGGKVLVPISEFIKKLTAARLAADVMDVPTLVIARTDAQAATLLTSDVDQRDHKFLTGE 797
                              **************************************************************************996 PP

  == domain 2  score: 153.8 bits;  conditional E-value: 9.7e-49
                              --TT--EEE--SHHHHHHHHHHHTTS-SEEE---SS--HHHHHHHHHHHHTT-TT-EEEEE--SSS-GGGTS-HHHHHSHHHHHHH CS
                      ICL 353 rvreGyyrykGgtqcsvvravafapyadliwmesklpdyaqakefaeGvkakvpeqklaynlspsfnwkkamsadeqetyikrlak 438
                              r+ eG++r + g++ ++ r++a+apyadliw e+++pd+++a+ fae ++a++p+++layn spsfnwkk   a    ++ k l++
  PHY93_05635|PHY93_05635 798 RTPEGFFRIRNGMDIAIARGLAYAPYADLIWCETSTPDLEEARLFAESIHAQFPNKMLAYNCSPSFNWKKKLDATTIAKFQKELGA 883
                              999*********************************************************************************** PP

                              TTEEEEEETTHHHHHHHHHHHHHHHHHHHHTHHHHHHHTHHHHHHH...T-GGGSHHHHHTHHHHHHHHHHHH--XXXXXXXXXXX CS
                      ICL 439 lGyvwqfitlaGlhtnalisdkfakdyakrGmkaygeevqeeeidn...GvdvvkhqkwsGaeyidellklvtGGvsstaamGkGv 521
                              +Gy +qf+tlaG+h+      ++a +y  +Gm ay+  +qe+e      G    khq+  G+ y+d + +++  G sst a+    
  PHY93_05635|PHY93_05635 884 MGYKFQFVTLAGFHSLNYSMYSLAYQYKTHGMSAYSA-LQENEFSAeaiGYTATKHQREVGTGYFDLVSNTIGQGQSSTLALKGST 968
                              ***********************************86.677776432348899****************************97666 PP

                              XXXXX CS
                      ICL 522 tedqf 526
                               e+qf
  PHY93_05635|PHY93_05635 969 EEEQF 973
                              67787 PP

>> PEP_mutase  Phosphoenolpyruvate phosphomutase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.5   0.2   1.6e-21   9.4e-18      26     173 ..     627     827 ..     607     889 .. 0.81

  Alignments for each domain:
  == domain 1  score: 64.5 bits;  conditional E-value: 1.6e-21
               PEP_mutase  26 eeagfkalatsSlavaasl...G..vpDgeelpleellaavraiaevvs.................lPlivDledGygespeevae 89 
                               +ag ka+ +s+++vaa +   G  +pD++  p +++ ++v++i +++                   P+i+D+e+G+g  + +  e
  PHY93_05635|PHY93_05635 627 VRAGLKAIYLSGWQVAADAnlaGemYPDQSLYPSDSVPNVVKKINQALVradqvesaegnvtrewlAPIIADAEAGFGG-ALNAYE 711
                              3569***********987633346689*****************99987799**************************9.889*** PP

               PEP_mutase  90 tvrrliaaGvvgvniEDk.....kknd.aerqlldieefaekiaaaraaaeeag..fvinARtdalll.................. 149
                                +++iaaG++gv++ED+     k++  +++ l++i ef +k++aar aa+  +   +++ARtda                     
  PHY93_05635|PHY93_05635 712 LMKQMIAAGAAGVHFEDQlasekKCGHlGGKVLVPISEFIKKLTAARLAADVMDvpTLVIARTDAQAAtlltsdvdqrdhkfltge 797
                              ******************9986444456888888*******************999*********887888899988888888888 PP

               PEP_mutase 150 .......sagagleeaieRaraYaeAGAdgv 173
                                     + ++g++ ai+R+ aYa   Ad +
  PHY93_05635|PHY93_05635 798 rtpegffRIRNGMDIAIARGLAYAPY-ADLI 827
                              88888887888888888888888754.5555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (976 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       467  (0.0260472); expected 358.6 (0.02)
Passed bias filter:                      409  (0.0228122); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.74u 0.26s 00:00:01.00 Elapsed: 00:00:00.44
# Mc/sec: 6730.42
//
Query:       PHY93_11485|PHY93_11485  [L=414]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.5e-13   48.4   5.0    9.5e-13   48.4   5.0    2.5  3  FtsX      FtsX-like permease family
    4.4e-10   40.3   0.1    6.6e-10   39.7   0.1    1.3  1  MacB_PCD  MacB-like periplasmic core domain


Domain annotation for each model (and alignments):
>> FtsX  FtsX-like permease family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.0   0.1      0.14   1.3e+03      31      48 ..      33      50 ..       2      72 .. 0.60
   2 ?   -4.0   0.4         2   1.8e+04      79      82 ..     290     293 ..     283     303 .. 0.40
   3 !   48.4   5.0   1.1e-16   9.5e-13       3      95 ..     310     407 ..     308     408 .. 0.92

  Alignments for each domain:
  == domain 1  score: -0.0 bits;  conditional E-value: 0.14
                     FtsX 31 valviGlglgllaaqlls 48
                             +++++G + ++++   ls
  PHY93_11485|PHY93_11485 33 ISMIAGAVCSIILFHGLS 50
                             233333333444444444 PP

  == domain 2  score: -4.0 bits;  conditional E-value: 2
                     FtsX  79 lall 82 
                               +++
  PHY93_11485|PHY93_11485 290 ALMF 293
                              1111 PP

  == domain 3  score: 48.4 bits;  conditional E-value: 1.1e-16
                     FtsX   3 eigilralGmkkkqvlllllteillitlvalviGlglgllaaql.lsdvllssvfs....selkisidlitvliiivlllllalla 83 
                              eig+lr++G ++ +++ ++++e+ll+tlv++++G + +++++q+   +++ +++ +    + l++++ +++v+ + +l+l + ++a
  PHY93_11485|PHY93_11485 310 EIGTLRSFGESRSDIISQFVLESLLLTLVGTIVGSIGSWAIIQIiHIAKIATEMPGvsvpFTLHLNFLFSSVFYASFLALATSVIA 395
                              9******************************************9556889999998788899999999999999999999999999 PP

                     FtsX  84 gllsiskilkke 95 
                              +++++ ++++++
  PHY93_11485|PHY93_11485 396 TYIPAKRAAHMN 407
                              999999999997 PP

>> MacB_PCD  MacB-like periplasmic core domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.7   0.1   7.4e-14   6.6e-10       1     169 [.      29     220 ..      29     255 .. 0.68

  Alignments for each domain:
  == domain 1  score: 39.7 bits;  conditional E-value: 7.4e-14
                 MacB_PCD   1 slltvLGiaiGvaaviaivslgeglqasvlsqisdl..gnlvtvtpgk.....gsges......lsdpdvealrrevp.veavapv 72 
                              sll++  ia +v ++i++ +l + +++s+++  +++  gn +++  +k         +      ++ +++++l++  p v +v+ +
  PHY93_11485|PHY93_11485  29 SLLSISMIAGAVCSIILFHGLSDFVLESLKHIAAENqfGN-MQIAKDKywapgK---EgrklrmFNLDELKQLKELHPeVIKVSGR 110
                              7899999999****************99999655333453.5555554655542...13443334555555555556789999998 PP

                 MacB_PCD  73 v....tvrgggsg.eeevtvvgvd....pdyfkvfglklaeGrffteadlrggpnvvvigeelaerlf.pvGdtirl......... 139
                              +    +v++g+ + +    v+gvd    p++ k   +   +G+ff++    +++++ +ig+ la++   + Gd+i++         
  PHY93_11485|PHY93_11485 111 LsffgLVSNGDLSiG--GKVIGVDtigePNFTKSMRI--MSGKFFND----NNAKEGMIGQLLAKQMNvKPGDNITVltntvdgvm 188
                              778874455543333..46788553333799884444..45****77....478899*********66989******999999988 PP

                 MacB_PCD 140 ..kpftVvGvledppgsgsalgddavylp...ltt 169
                                 ++tV+G++++  g  + ++ + +y+p    +t
  PHY93_11485|PHY93_11485 189 naMDLTVSGIFSA--GI-DEIDSQVIYIPlglTQT 220
                              8888999999954..32.4567899****554222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (414 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       689  (0.0384294); expected 358.6 (0.02)
Passed bias filter:                      435  (0.0242624); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.42
# Mc/sec: 2979.27
//
Query:       PHY93_11490|PHY93_11490  [L=168]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    7.5e-12   45.3   0.6    1.9e-07   30.8   0.1    2.1  2  DDE_Tnp_IS66  Transposase IS66 family


Domain annotation for each model (and alignments):
>> DDE_Tnp_IS66  Transposase IS66 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.5   0.0   2.1e-06     0.037      36      74 ..       3      41 ..       2      43 .. 0.97
   2 !   30.8   0.1   1.1e-11   1.9e-07     124     182 ..      46     100 ..      41     131 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 2.1e-06
             DDE_Tnp_IS66 36 elsrgtlanwvkraaelleplvealkaallasevihaDE 74
                             +ls++tl +  ++a+  l    e +ka+ll+s+v+haDE
  PHY93_11490|PHY93_11490  3 TLSPATLVSFARQASSRLLIWEENIKAELLSSHVLHADE 41
                             799***********************************9 PP

  == domain 2  score: 30.8 bits;  conditional E-value: 1.1e-11
             DDE_Tnp_IS66 124 fkGvlvsDgyagYnklaeeqvthalCwaHlrRkfvdaeeakkksqaaaealar.igklya 182
                              +  +l +D + +Y+ +   +v+ha C+ Hl+R+++++ e+++  q++a+ la+ + k  +
  PHY93_11490|PHY93_11490  46 YARILSHDFWPSYSDF---DVVHAPCHSHLQRELTKVYEDYE--QKWANDLADlLLKANE 100
                              7789***********9...7*******************987..9*****9996665554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (168 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       699  (0.0389871); expected 358.6 (0.02)
Passed bias filter:                      478  (0.0266607); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.20s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1263.93
//
Query:       PHY93_11495|PHY93_11495  [L=141]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (141 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       468  (0.026103); expected 358.6 (0.02)
Passed bias filter:                      270  (0.0150594); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.38
# Mc/sec: 1109.27
//
Query:       PHY93_11500|PHY93_11500  [L=147]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (147 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       813  (0.0453455); expected 358.6 (0.02)
Passed bias filter:                      298  (0.0166211); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 1112.77
//
Query:       PHY93_11505|PHY93_11505  [L=1418]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    3.8e-36  122.8  34.2    2.5e-10   40.1   0.4    8.3  8  PKD          PKD domain
      0.008   15.6   0.5        9.6    5.8   0.0    3.5  3  TcfC         E-set like domain
       0.01   15.8   0.3       0.28   11.2   0.2    2.9  2  Y_Y_Y        Y_Y_Y domain
  ------ inclusion threshold ------
      0.025   14.3   6.1        1.9    8.3   0.0    4.4  4  PKD_3        PKD-like domain
      0.049   13.9   0.1         14    5.9   0.0    3.6  3  DUF4625      Domain of unknown function (DUF4625)
      0.052   13.4   1.8       0.11   12.3   0.5    2.3  3  Nepo_coat_C  Nepovirus coat protein, C-terminal domain
      0.053   14.3   0.0      0.053   14.3   0.0    5.6  6  Big_9        Bacterial Ig domain
       0.18   12.0   0.1       0.18   12.0   0.1    5.5  6  He_PIG       Putative Ig domain


Domain annotation for each model (and alignments):
>> PKD  PKD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.8   0.4   2.3e-12   5.2e-09      20      68 ..      27      71 ..      15      74 .. 0.87
   2 !   13.0   0.1   3.1e-05      0.07      12      68 ..     105     167 ..      96     170 .. 0.83
   3 !   21.1   0.1   9.5e-08   0.00021      21      67 ..     210     255 ..     196     258 .. 0.91
   4 !   18.0   1.3   8.5e-07    0.0019      20      70 ..     295     347 ..     281     348 .. 0.83
   5 !    8.1   0.3    0.0011       2.4      10      67 ..     371     427 ..     362     431 .. 0.76
   6 !   40.1   0.4   1.1e-13   2.5e-10      13      69 ..     460     516 ..     450     518 .. 0.88
   7 !    5.9   0.1     0.005        11      12      41 ..     544     573 ..     541     601 .. 0.73
   8 ?   -1.3   0.1      0.89     2e+03      21      45 ..    1036    1059 ..    1029    1060 .. 0.81

  Alignments for each domain:
  == domain 1  score: 35.8 bits;  conditional E-value: 2.3e-12
                             S.-SS-SEEEEE--SS--EEEEETTEEEEEE-SSEEEEEEEEEE-SS-E CS
                      PKD 20 vpdganvtysWdfgdgsvvqvlseptvthtYlspGeYeVtvtasnavgs 68
                              p g++++y+Wdfgd   +q+ +++++ h Y +pG+Y Vt+t+ +++g+
  PHY93_11505|PHY93_11505 27 TPNGSIISYLWDFGD---GQTATGQKIAHFY-NPGSYFVTLTVVDTAGL 71
                             389************...***********99.6*************997 PP

  == domain 2  score: 13.0 bits;  conditional E-value: 3.1e-05
                              EEEEEEEES.-SS-SEEEEE--SS......--EEEEETTEEEEEE-SSEEEEEEEEEE-SS-E CS
                      PKD  12 atvaftaavpdganvtysWdfgdg......svvqvlseptvthtYlspGeYeVtvtasnavgs 68 
                              +    ta    g++   + + gdg      s ++ +   ++th Y++ G+Y +++ ++ ++g 
  PHY93_11505|PHY93_11505 105 QQCKVTALDKQGQISKVRLTWGDGtaavnlSLTAAQGINKPTHNYAAVGTYPIRLSVFTSRGE 167
                              444556666889999999999*****9999999999999*****************9987775 PP

  == domain 3  score: 21.1 bits;  conditional E-value: 9.5e-08
                              .-SS-SEEEEE--SS--EEEEETTEEEEEE-SSEEEEEEEEEE-SS- CS
                      PKD  21 pdganvtysWdfgdgsvvqvlseptvthtYlspGeYeVtvtasnavg 67 
                              ++g ++tys+d gd s + +  +    h Y+s+G + V+++++na g
  PHY93_11505|PHY93_11505 210 RTGGILTYSFDYGD-SFTETNANGISAHAYSSAGLFIVSLKVTNANG 255
                              78999*********.*****************************998 PP

  == domain 4  score: 18.0 bits;  conditional E-value: 8.5e-07
                              S...-SS-SEEEEE--SS--EEEEETTEEEEEE-SSEEEEEEEEEE-SS-EEE CS
                      PKD  20 v..pdganvtysWdfgdgsvvqvlseptvthtYlspGeYeVtvtasnavgsat 70 
                              +  +dg++v ys   +d + v  +++ ++ h ++++G+++Vt+t ++++g ++
  PHY93_11505|PHY93_11505 295 SfdQDGTIVFYSYSWDDNTDVVHGESGEIFHLFTTAGSHQVTLTETDNDGGVS 347
                              145799999999888888899999999999*******************9986 PP

  == domain 5  score: 8.1 bits;  conditional E-value: 0.0011
                              SSEEEEEEEES...-SS-SEEEEE--SS--EEEEETTEEEEEE-SSEEEEEEEEEE-SS- CS
                      PKD  10 pgatvaftaav..pdganvtysWdfgdgsvvqvlseptvthtYlspGeYeVtvtasnavg 67 
                              + +tv+ ++ +  pdg++++++W ++d   ++v  + ++t ++++  +  +++ +++++g
  PHY93_11505|PHY93_11505 371 ASQTVTCQSFSydPDGTIASTRWILED---GTVIWGNNFTNIFEAVTSTKIKLEVTDDLG 427
                              4555666665677**************...777778888888888888888888888777 PP

  == domain 6  score: 40.1 bits;  conditional E-value: 1.1e-13
                              EEEEEEES....-SS-SEEEEE--SS--EEEEETTEEEEEE-SSEEEEEEEEEE-SS-EE CS
                      PKD  13 tvaftaav...pdganvtysWdfgdgsvvqvlseptvthtYlspGeYeVtvtasnavgsa 69 
                              +v+f+a      dg++++y W f d   +++   p++ +t++++G+Y+V++ ++++ g  
  PHY93_11505|PHY93_11505 460 NVNFQALNvsdNDGTIASYKWMFPD---GTTFDKPNALYTFTTAGSYNVKLQVTDNNGGM 516
                              6777777777899************...****************************9976 PP

  == domain 7  score: 5.9 bits;  conditional E-value: 0.005
                              EEEEEEEES....-SS-SEEEEE--SS--EEEE CS
                      PKD  12 atvaftaav...pdganvtysWdfgdgsvvqvl 41 
                                v+f+a+    pdg++v y+W  ++     v+
  PHY93_11505|PHY93_11505 544 LDVHFNASEstdPDGQIVKYEWFYQN---EKVG 573
                              6799**999999**********7777...4444 PP

  == domain 8  score: -1.3 bits;  conditional E-value: 0.89
                               .-SS-SEEEEE--SS--EEEEETTE CS
                      PKD   21 pdganvtysWdfgdgsvvqvlsept 45  
                               pd   ++y+W  g+ s ++    ++
  PHY93_11505|PHY93_11505 1036 PDTYGARYLWGAGN-SIAWGNGDHN 1059
                               88999********9.8888776665 PP

>> TcfC  E-set like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.8   0.0    0.0043       9.6      43      67 ..      56      80 ..      53      81 .. 0.94
   2 ?   -0.2   0.0      0.31   6.9e+02      43      62 ..     152     171 ..     138     176 .. 0.80
   3 !    5.2   0.0    0.0066        15      43      60 ..     500     518 ..     495     523 .. 0.79

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.0043
                     TcfC 43 sGiYeveirvyengqvvrteqqkft 67
                              G+Y v++ v+++ ++ ++e+q +t
  PHY93_11505|PHY93_11505 56 PGSYFVTLTVVDTAGLRSSETQHVT 80
                             59********************986 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.31
                     TcfC  43 sGiYeveirvyengqvvrte 62 
                               G+Y++++ v+ +++ ++t 
  PHY93_11505|PHY93_11505 152 VGTYPIRLSVFTSRGETKTM 171
                              59*********988766665 PP

  == domain 3  score: 5.2 bits;  conditional E-value: 0.0066
                     TcfC  43 sGiYeveirvye.ngqvvr 60 
                               G+Y+v+++v + ng++++
  PHY93_11505|PHY93_11505 500 AGSYNVKLQVTDnNGGMTE 518
                              6***********5555554 PP

>> Y_Y_Y  Y_Y_Y domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.2   0.2   0.00012      0.28      22      56 ..     481     518 ..     477     523 .. 0.79
   2 ?    0.9   0.0       0.2   4.4e+02      34      65 ..     673     701 ..     660     702 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00012
                              EEESSTS....EEEEES--SEEEEEEEEEEETTS-B-S CS
                    Y_Y_Y  22 veasdysq...easytnlppGdYtlkVkakdndgqwny 56 
                              +  ++ +    +a yt   +G+Y +k++++dn+g   +
  PHY93_11505|PHY93_11505 481 MFPDGTTFdkpNALYTFTTAGSYNVKLQVTDNNGGMTE 518
                              555555445569*********************97765 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.2
                              ES--SEEEEEEEEEEETTS-B-SS-EEEEEEE CS
                    Y_Y_Y  34 tnlppGdYtlkVkakdndgqwnyditslsfti 65 
                              tn+ +G Y + + a+d  g  ++  +++++++
  PHY93_11505|PHY93_11505 673 TNNQAGAYSFSILASD--GVLSFA-KKININV 701
                              89************99..777777.7777776 PP

>> PKD_3  PKD-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.1       1.4   3.2e+03      35      65 ..     307     338 ..     305     341 .. 0.71
   2 ?   -0.2   0.2      0.38   8.6e+02      35      67 ..     391     423 ..     387     424 .. 0.90
   3 ?    5.4   0.0     0.007        16      33      67 ..     476     510 ..     467     511 .. 0.86
   4 ?    8.3   0.0   0.00086       1.9      34      68 .]     562     596 ..     543     596 .. 0.91

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 1.4
                    PKD_3  35 faWtieGkiv.steptytfteeelgsyevtle 65 
                              ++W  +  +v ++  ++   ++++gs++vtl+
  PHY93_11505|PHY93_11505 307 YSWDDNTDVVhGESGEIFHLFTTAGSHQVTLT 338
                              66666645432566677778999*******96 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.38
                    PKD_3  35 faWtieGkivsteptytfteeelgsyevtleve 67 
                               +W++e+  v   +++t  +e ++s +++lev+
  PHY93_11505|PHY93_11505 391 TRWILEDGTVIWGNNFTNIFEAVTSTKIKLEVT 423
                              68****9999999*****************996 PP

  == domain 3  score: 5.4 bits;  conditional E-value: 0.007
                    PKD_3  33 aafaWtieGkivsteptytfteeelgsyevtleve 67 
                              a ++W+  +    + p+  +t++++gsy+v+l+v+
  PHY93_11505|PHY93_11505 476 ASYKWMFPDGTTFDKPNALYTFTTAGSYNVKLQVT 510
                              4589999888888999999*************996 PP

  == domain 4  score: 8.3 bits;  conditional E-value: 0.00086
                    PKD_3  34 afaWtieGkivsteptytfteeelgsyevtleven 68 
                              +++W  + ++v++  ++ + ++e g   +tl+++n
  PHY93_11505|PHY93_11505 562 KYEWFYQNEKVGEGDQLDYLFDEIGPQSMTLQTTN 596
                              49*****************************9998 PP

>> DUF4625  Domain of unknown function (DUF4625)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.0     0.043        96     104     131 ..      54      81 ..      45      82 .. 0.88
   2 ?    5.9   0.0    0.0062        14     105     127 ..     499     521 ..     489     524 .. 0.90
   3 ?   -2.7   0.0       2.9   6.5e+03     101     117 ..     672     688 ..     671     689 .. 0.90

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.043
                  DUF4625 104 aeaGdYhlvirvtDasGneteesreiki 131
                               ++G Y ++++v+D +G  + e  +++i
  PHY93_11505|PHY93_11505  54 YNPGSYFVTLTVVDTAGLRSSETQHVTI 81 
                              579****************999999988 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.0062
                  DUF4625 105 eaGdYhlvirvtDasGneteesr 127
                              +aG Y++ ++vtD++G  te+s+
  PHY93_11505|PHY93_11505 499 TAGSYNVKLQVTDNNGGMTEKSI 521
                              79**************9999886 PP

  == domain 3  score: -2.7 bits;  conditional E-value: 2.9
                  DUF4625 101 PadaeaGdYhlvirvtD 117
                              P++ +aG Y + i + D
  PHY93_11505|PHY93_11505 672 PTNNQAGAYSFSILASD 688
                              8999*******998877 PP

>> Nepo_coat_C  Nepovirus coat protein, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.6   0.0       3.8   8.6e+03      80     125 ..      32      75 ..      22      82 .. 0.70
   2 ?   12.3   0.5     5e-05      0.11      12     149 ..     410     546 ..     405     553 .. 0.80
   3 ?   -2.7   0.0         2   4.5e+03     105     154 ..    1154    1204 ..    1121    1213 .. 0.74

  Alignments for each domain:
  == domain 1  score: -3.6 bits;  conditional E-value: 3.8
                              EEE--STTSS---EEEES....S--EEEEEE---SS--SSTTSSS- CS
              Nepo_coat_C  80 ivklvgkfgeatdgestieatallileksasiplevgdfaGattsg 125
                              i++++ +fg++  ++ t++++a  + ++s+ + l+v d aG  +s 
  PHY93_11505|PHY93_11505  32 IISYLWDFGDG--QTATGQKIAHFYNPGSYFVTLTVVDTAGLRSSE 75 
                              56666666666..333445568888999999999999999987776 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 5e-05
                              EES----TB---B-SS------SSSEEEE---..HHHHHHHTEEEEEEEEEEEEE--B-S-TTT----EEEEE--STTSS---EEE CS
              Nepo_coat_C  12 lsnftkdelkfkipsriadikskeatvtlevN..plalliastGlhrGkveLhlsWslntklgkskgrvkivklvgkfgeatdges 95 
                              ++++t++++k+++   + +i+s+e+tv ++vN  p+ +liast+  +G + L +++++  + ++  g++   k +   g+++d+ +
  PHY93_11505|PHY93_11505 410 FEAVTSTKIKLEVTDDLGTISSTEQTVFIFVNqlPTFNLIASTT--KGILPLNVNFQA-LNVSDNDGTIASYKWMFPDGTTFDKPN 492
                              47889999***********************9778889999997..9***********.999999999999998888899999999 PP

                              ES....S--EEEEEE---SS--SSTTSSS-....----EE..EEB-S--TTTBTEEEEE CS
              Nepo_coat_C  96 tieatallileksasiplevgdfaGattsg....alsleee.wieiklakaksisslrv 149
                               +        ++s++++l+v+d  G  t +    ++s+     + i ++k + +++l+v
  PHY93_11505|PHY93_11505 493 AL---YTFTTAGSYNVKLQVTDNNGGMTEKsiiiGASD--SsNLIILTDKDNGLATLDV 546
                              99...78889999********99998776633222222..2255555666666666655 PP

  == domain 3  score: -2.7 bits;  conditional E-value: 2
                               EEEEEE---SS--SSTTSSS-----EE.EEB.-S--TTTBTEEEEEEEEEE CS
              Nepo_coat_C  105 leksasiplevgdfaGattsgalsleeewie.iklakaksisslrvsievl 154 
                               ++++++ pl  g+f  + + +  s e+++i+ i+ +++ +++++++   v+
  PHY93_11505|PHY93_11505 1154 DDSRLEKPLSNGTFHSVYSLKSFSGEHKYIRsIENSEMFNLNTISLVSIVQ 1204
                               567778899999999999999999999988646666666666666544444 PP

>> Big_9  Bacterial Ig domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.0   2.9      0.16   3.5e+02       6      73 ..     353     386 ..     310     432 .. 0.61
   2 ?    1.3   2.0      0.27   5.9e+02      11      89 ..     440     513 ..     428     530 .. 0.67
   3 ?   -1.9   0.0       2.6   5.9e+03      30      50 ..     550     569 ..     517     606 .. 0.56
   4 ?   14.3   0.0   2.4e-05     0.053      45      88 ..     647     689 ..     636     690 .. 0.88
   5 ?   -2.1   0.1       3.1   6.9e+03      53      64 ..     713     725 ..     701     739 .. 0.69
   6 ?   -4.0   0.1         8   1.8e+04      57      76 ..    1247    1266 ..    1241    1268 .. 0.81

  Alignments for each domain:
  == domain 1  score: 2.0 bits;  conditional E-value: 0.16
                    Big_9   6 vtvtpvndaPvavddsvtvtedsv..landtdpdgdaltvtsltvtlvtapanGtvtinadgtltytpna 73 
                              ++++  n+ Pva++   ++++++v   +                                   ++y+p+ 
  PHY93_11505|PHY93_11505 353 FDIK-SNQSPVANAHCSNTASQTVtcQS-----------------------------------FSYDPDG 386
                              2222.34444444444444444443333...................................4444443 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.27
                    Big_9  11 vndaPvavddsvtvtedsv......landtdpdgdaltvtsltvtlvtapanGtvtinadgtltytpnagfsgtdsftYtvsDgs 89 
                              vn+ P+++  + t++   +        n +d dg+  +++ +       p  Gt   +++  +t+t +    g+++++ +v+D++
  PHY93_11505|PHY93_11505 440 VNQLPTFNLIASTTKGILPlnvnfqALNVSDNDGTIASYK-W-----MFP-DGTTFDKPNALYTFTTA----GSYNVKLQVTDNN 513
                              7788888887777774444332444559999999888654.2.....234.56666677877888865....4455556666655 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 2.6
                    Big_9  30 landtdpdgdaltvtsltvtl 50 
                               +  tdpdg   +++ + ++ 
  PHY93_11505|PHY93_11505 550 ASESTDPDGQIVKYE-WFYQN 569
                              445667777666554.33443 PP

  == domain 4  score: 14.3 bits;  conditional E-value: 2.4e-05
                    Big_9  45 sltvtlvtapanGtvtinadgtltytpnagfsgtdsftYtvsDg 88 
                              +++++lv+ap++ t++ ++  +l ++p+++++g +sf++ +sDg
  PHY93_11505|PHY93_11505 647 NINLSLVDAPEGVTISGDGA-RLEWNPTNNQAGAYSFSILASDG 689
                              67788999999999999976.8*********************8 PP

  == domain 5  score: -2.1 bits;  conditional E-value: 3.1
                    Big_9  53 apanGtvtin.ad 64 
                              + ++Gt+t+n ++
  PHY93_11505|PHY93_11505 713 PNTGGTFTVNnPN 725
                              5678888888333 PP

  == domain 6  score: -4.0 bits;  conditional E-value: 8
                    Big_9   57 Gtvtinadgtltytpnagfs 76  
                               G+  +  d+++ y +n gf+
  PHY93_11505|PHY93_11505 1247 GSYNLFKDNSYDYLANRGFN 1266
                               6667778999*****99998 PP

>> He_PIG  Putative Ig domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.2      0.14   3.1e+02      34      49 .]      55      70 ..      25      70 .. 0.81
   2 ?   -1.5   0.1       1.4     3e+03      34      47 ..     151     164 ..     131     166 .. 0.78
   3 ?   -0.9   0.1       0.9     2e+03      34      49 .]     329     344 ..     320     344 .. 0.86
   4 ?    6.0   0.2    0.0063        14      28      49 .]     498     514 ..     466     514 .. 0.80
   5 ?   12.0   0.1     8e-05      0.18      13      47 ..     656     689 ..     651     690 .. 0.88
   6 ?   -4.4   0.7         8   1.8e+04      21      32 ..     715     727 ..     714     731 .. 0.70

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.14
                   He_PIG 34 apGsytftVtatdgsg 49
                             +pGsy +t+t+ d++g
  PHY93_11505|PHY93_11505 55 NPGSYFVTLTVVDTAG 70
                             47*********99876 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 1.4
                   He_PIG  34 apGsytftVtatdg 47 
                              a G+y ++++++++
  PHY93_11505|PHY93_11505 151 AVGTYPIRLSVFTS 164
                              55*******99876 PP

  == domain 3  score: -0.9 bits;  conditional E-value: 0.9
                   He_PIG  34 apGsytftVtatdgsg 49 
                              ++Gs ++t+t td++g
  PHY93_11505|PHY93_11505 329 TAGSHQVTLTETDNDG 344
                              469*******999875 PP

  == domain 4  score: 6.0 bits;  conditional E-value: 0.0063
                   He_PIG  28 tpdqtvapGsytftVtatdgsg 49 
                              t     ++Gsy++ + +td++g
  PHY93_11505|PHY93_11505 498 T-----TAGSYNVKLQVTDNNG 514
                              3.....45***********986 PP

  == domain 5  score: 12.0 bits;  conditional E-value: 8e-05
                   He_PIG  13 PsGLtLdsstGtitGtpdqtvapGsytftVtatdg 47 
                              P G t++    ++ ++p+++ ++G y+f + a+dg
  PHY93_11505|PHY93_11505 656 PEGVTISGDGARLEWNPTNN-QAGAYSFSILASDG 689
                              8999997777789999****.88**********97 PP

  == domain 6  score: -4.4 bits;  conditional E-value: 8
                   He_PIG  21 stGtitGt.pdqt 32 
                              + Gt+t++ p+++
  PHY93_11505|PHY93_11505 715 TGGTFTVNnPNSS 727
                              5688888877776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1418 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       384  (0.0214178); expected 358.6 (0.02)
Passed bias filter:                      280  (0.0156172); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.82u 0.25s 00:00:01.06 Elapsed: 00:00:00.43
# Mc/sec: 9811.68
//
Query:       PHY93_11510|PHY93_11510  [L=135]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (135 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       346  (0.0192983); expected 358.6 (0.02)
Passed bias filter:                      265  (0.0147805); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.37u 0.24s 00:00:00.61 Elapsed: 00:00:00.38
# Mc/sec: 1059.69
//
Query:       PHY93_11515|PHY93_11515  [L=167]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.6e-32  110.7   0.3    5.6e-32  110.7   0.3    1.3  2  Fasciclin     Fasciclin domain
  ------ inclusion threshold ------
       0.13   11.9   0.3       0.64    9.7   0.0    2.2  3  HrcA_DNA-bdg  Winged helix-turn-helix transcription repressor


Domain annotation for each model (and alignments):
>> Fasciclin  Fasciclin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.1       1.2     1e+04      99     110 ..      24      33 ..      16      39 .. 0.42
   2 !  110.7   0.3   6.2e-36   5.6e-32       2     128 .]      44     165 ..      43     165 .. 0.96

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 1.2
                              EEETTEEEEEEE CS
                Fasciclin  99 vtvngkarvvrs 110
                                vn+  +v + 
  PHY93_11515|PHY93_11515  24 ANVND--TVSKN 33 
                              23333..23333 PP

  == domain 2  score: 110.7 bits;  conditional E-value: 6.2e-36
                              GGHHHHHHHHTTTCCCCCTCSSSSEEEEEE-HHHHCCCHHHHHHHHHT..CHHHHHHHHHTTEEESSS-HHHHHHHHEEEECCTTS CS
                Fasciclin   2 dlstfvsllekaglaeeLnkkdgglTvFaPtneAfaklppellaklln..dkkklkeiLkyHvvpetvsssalkkasetlatlleg 85 
                              d +t+v++l++a+l + +  + g++TvFaPtn+Afa+lp+++ ++ll+  +kk+l +iL+yHv  +++ ++ lk++ +tl+  ++g
  PHY93_11515|PHY93_11515  44 DHTTLVTALKAADLIDVM-ANPGPFTVFAPTNAAFAALPKGTVENLLKseNKKDLVNILQYHVFVGALQAKWLKNG-QTLNQ-VNG 126
                              689***************.555******************************************************.****9.*** PP

                              SEEEEEEEGGTTEEEETTEEEEEEEEEEESSEEEEEESS-TSX CS
                Fasciclin  86 aklrvniekgngtvtvngkarvvrsdieatngvihvidkvLlp 128
                              ++ +++++  ++++ +ng a+++ + i++tng+ihvid vLlp
  PHY93_11515|PHY93_11515 127 SDAKIKVD--GKKISING-ANII-ASIKTTNGIIHVIDAVLLP 165
                              ********..99******.***9.88***************98 PP

>> HrcA_DNA-bdg  Winged helix-turn-helix transcription repressor, HrcA DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   0.0   7.1e-05      0.64      44      74 ..      49      81 ..      25      86 .. 0.84
   2 ?   -2.1   0.0      0.34   3.1e+03      37      52 ..      82      97 ..      81      99 .. 0.70
   3 ?   -1.1   0.2      0.17   1.6e+03      20      40 ..     136     156 ..     131     161 .. 0.82

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 7.1e-05
             HrcA_DNA-bdg 44 lqsLkalgLve..gvpGPkGGYkPtlkayealk 74
                             +++Lka +L++  + pGP   + Pt +a+ al 
  PHY93_11515|PHY93_11515 49 VTALKAADLIDvmANPGPFTVFAPTNAAFAALP 81
                             689*****97633789*************9986 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 0.34
             HrcA_DNA-bdg 37 eGtvRNqlqsLkalgL 52
                             +Gtv N l+s    +L
  PHY93_11515|PHY93_11515 82 KGTVENLLKSENKKDL 97
                             5999999887655555 PP

  == domain 3  score: -1.1 bits;  conditional E-value: 0.17
             HrcA_DNA-bdg  20 kkravKgeeiAevlkrneGtv 40 
                              kk ++ g +i + +k  +G +
  PHY93_11515|PHY93_11515 136 KKISINGANIIASIKTTNGII 156
                              567899999999999999987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (167 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       847  (0.0472419); expected 358.6 (0.02)
Passed bias filter:                      583  (0.0325172); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.37
# Mc/sec: 1354.07
//
Query:       PHY93_11520|PHY93_11520  [L=144]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.2e-07   31.9   0.1    3.8e-07   31.2   0.1    1.4  1  Cytochrom_C      Cytochrome c
     0.0034   17.7   0.0     0.0064   16.8   0.0    1.5  2  Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
  ------ inclusion threshold ------
      0.026   14.2   0.1      0.044   13.5   0.1    1.4  1  Cytochrom_C550   Cytochrome c-550 domain
      0.038   13.2   0.0      0.049   12.8   0.0    1.1  1  NB-ARC           NB-ARC domain
      0.042   13.5   0.1      0.053   13.2   0.1    1.3  1  Citrate_ly_lig   Citrate lyase ligase C-terminal domain


Domain annotation for each model (and alignments):
>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.2   0.1   1.1e-10   3.8e-07       2      90 ..      44     128 ..      43     141 .. 0.90

  Alignments for each domain:
  == domain 1  score: 31.2 bits;  conditional E-value: 1.1e-10
                              --HHHHHHTTGGGTB-SSSBSSS....--HHHHHHHTTT-HHHHHHHHTTSS--SSSHHHHHHHGGGGGGG.TT--HHHHHHHHHH CS
              Cytochrom_C   2 arGkelftanCaaCHgvegggakqgggptlsgaaerasaasigasvanpaavsaprddfekkkltaemparkerlteqeiadlaaY 87 
                              + Gk+ f+++C +CH++e++ ++    p+l  +++r+  ++i +++ np +  +++++ +  +++   ++ ++++ e +++++ ++
  PHY93_11520|PHY93_11520  44 ELGKTTFKTKCSQCHKIEKRYTG----PQLLAVTKRRKPEWIMNMILNPLEMTKQDPTAKALQSKLLVQMANQNVGEINARAILEF 125
                              67*****99***********997....***********************************999999999988888888888888 PP

                              HHT CS
              Cytochrom_C  88 Lks 90 
                               ++
  PHY93_11520|PHY93_11520 126 FRN 128
                              764 PP

>> Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   1.8e-06    0.0064       4      43 ..      44      87 ..      41     110 .. 0.80
   2 ?   -3.2   0.0       3.1   1.1e+04      54      63 ..     132     141 ..     128     141 .. 0.74

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 1.8e-06
          Cytochrome_CBB3  4 aaGaalykknCasCHg..kggagpslagr..dwepdalvdiikn 43
                             + G+ ++k +C++CH+  k   gp+l       +p+ + ++i n
  PHY93_11520|PHY93_11520 44 ELGKTTFKTKCSQCHKieKRYTGPQLLAVtkRRKPEWIMNMILN 87
                             679*************8666778999955335568888888876 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 3.1
          Cytochrome_CBB3  54 qlsdeelwal 63 
                               l+++e++a+
  PHY93_11520|PHY93_11520 132 ALTEKEIQAV 141
                              6888999875 PP

>> Cytochrom_C550  Cytochrome c-550 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.1   1.2e-05     0.044      20      50 ..      37      67 ..      28      77 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 1.2e-05
                             EEEHHHHHHHHHHHHHHTHHHHGGGSBTTST CS
           Cytochrom_C550 20 tlseeqlkkgkklFeaeCaqCHvgGktktnp 50
                             t+ ++ ++ gk  F+++C+qCH   k +t p
  PHY93_11520|PHY93_11520 37 TINQKMVELGKTTFKTKCSQCHKIEKRYTGP 67
                             77889999**************877766665 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   1.4e-05     0.049      31      90 ..      45     103 ..      41     123 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 1.4e-05
                              SSHHHHHHHHCCSHCCCCCCBTEEEEEEEESXXHHHHHHHXXHHHHHCCCTTSSSS-STT CS
                   NB-ARC  31 vGKttlakqilnksdevegrFdsvawvvvsktdkseeiletilkeLslseddleekeeve 90 
                              +GKtt  ++  +  +++e+r+ +   + v+k  k e i++ il+ L+ +++d   k+ + 
  PHY93_11520|PHY93_11520  45 LGKTTFKTKCSQC-HKIEKRYTGPQLLAVTKRRKPEWIMNMILNPLEMTKQDPTAKALQS 103
                              7*******99888.9*******************************99977766665333 PP

>> Citrate_ly_lig  Citrate lyase ligase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.1   1.5e-05     0.053      75     123 ..      27      75 ..      21     140 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.5e-05
           Citrate_ly_lig  75 fPsYflkeqeevaesqaelDlklfkeriakalgitkryvGeeplsevta 123
                               P  f+k ++++++  +el  + fk++ ++  +i+kry G   l+ + +
  PHY93_11520|PHY93_11520  27 GPVKFVKLDATINQKMVELGKTTFKTKCSQCHKIEKRYTGPQLLAVTKR 75 
                              5889************************************987764443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (144 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       797  (0.0444531); expected 358.6 (0.02)
Passed bias filter:                      561  (0.0312901); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1049.56
//
Query:       PHY93_11525|PHY93_11525  [L=658]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.1e-30  105.4   0.1    3.9e-28   97.2   0.0    3.1  3  nos_propeller  Nitrous oxide reductase propeller repeat
  ------ inclusion threshold ------
      0.081   13.3   1.9        3.9    7.9   1.9    2.5  1  S1             S1 RNA binding domain


Domain annotation for each model (and alignments):
>> nos_propeller  Nitrous oxide reductase propeller repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0      0.52   4.6e+03       4      26 ..     271     293 ..     269     300 .. 0.85
   2 !    4.6   0.0    0.0034        30      12      34 ..     331     353 ..     323     356 .. 0.84
   3 !   97.2   0.0   4.4e-32   3.9e-28       1      71 []     433     503 ..     433     503 .. 0.99

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 0.52
            nos_propeller   4 vhYniGHlsaaegdtkepdGkyl 26 
                              v+++ G  + aeg++++   +y 
  PHY93_11525|PHY93_11525 271 VNWKAGEKCLAEGKAVDTASNYY 293
                              7889999999****999999986 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.0034
            nos_propeller  12 saaegdtkepdGkylvalnKlsk 34 
                              ++++g  ++p+G+y++a  Kl+ 
  PHY93_11525|PHY93_11525 331 KSPHGSDVDPTGEYFIAGGKLAA 353
                              6789999*************985 PP

  == domain 3  score: 97.2 bits;  conditional E-value: 4.4e-32
            nos_propeller   1 kvdvhYniGHlsaaegdtkepdGkylvalnKlskdrflpvGplkpeneqLidisgekmklladaptlgEPH 71 
                              ++++ Y+ GHl++++g++++p+ kyl+a+nK++kdr+lp+Gp++++++qLid++gekm++  d+p++gEPH
  PHY93_11525|PHY93_11525 433 RIPTFYSLGHLMIPGGNSMKPNPKYLLAMNKITKDRYLPTGPELAQAAQLIDLTGEKMEMFLDFPLIGEPH 503
                              799******************************************************************** PP

>> S1  S1 RNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9   1.9   0.00044       3.9      41      66 ..     557     582 ..     522     587 .. 0.83

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.00044
                              CEESCHHHCEETTEEEEEEEEEEETT CS
                       S1  41 arvedpdevlkvGdevkvkvlkvdkd 66 
                              + ++d+ e +kvGd+v++ v++v+ d
  PHY93_11525|PHY93_11525 557 HFGPDNIEGIKVGDTVYFHVTNVEQD 582
                              477899999**************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (658 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       568  (0.0316805); expected 358.6 (0.02)
Passed bias filter:                      516  (0.0287802); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.62u 0.26s 00:00:00.88 Elapsed: 00:00:00.41
# Mc/sec: 4828.84
//
Query:       PHY93_11530|PHY93_11530  [L=187]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
       0.13   11.6   2.1       0.19   11.2   1.8    1.8  1  DUF599           Protein of unknown function, DUF599
        1.8    8.6   3.2         11    6.1   0.0    2.9  3  Gram_pos_anchor  LPXTG cell wall anchor motif
        2.1    8.0   4.5          1    9.0   0.7    2.1  3  DUF4131          Domain of unknown function (DUF4131)


Domain annotation for each model (and alignments):
>> DUF599  Protein of unknown function, DUF599
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   1.8   3.1e-05      0.19     112     139 ..      83     110 ..      51     186 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 3.1e-05
                   DUF599 112 llllliflvAFlkfvqsirlynhasfli 139
                              +l+++ ++ AF+k++++ir+y+ +  + 
  PHY93_11530|PHY93_11530  83 VLIFGTLVSAFIKNIWAIRVYVTVFLVC 110
                              57788899*************9886554 PP

>> Gram_pos_anchor  LPXTG cell wall anchor motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.1      0.04   2.4e+02      17      32 ..       5      20 ..       2      22 .. 0.77
   2 ?   -0.9   0.2      0.29   1.7e+03      24      35 ..      80      91 ..      80      96 .. 0.60
   3 ?    6.1   0.0    0.0018        11      22      42 ..     167     187 .]     165     187 .] 0.88

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.04
                             XXXXXXXXXXXXXXXX CS
          Gram_pos_anchor 17 nifltaaGllallggl 32
                             ++++++++  +++g  
  PHY93_11530|PHY93_11530  5 SKWMLIFAGVLMVGIY 20
                             6789999999988865 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.29
                             XXXXXXXXXXXX CS
          Gram_pos_anchor 24 GllallggllLl 35
                             G+++l++g+l++
  PHY93_11530|PHY93_11530 80 GVAVLIFGTLVS 91
                             667777777763 PP

  == domain 3  score: 6.1 bits;  conditional E-value: 0.0018
                              XXXXXXXXXXXXXXXXXXXXX CS
          Gram_pos_anchor  22 aaGllallggllLlvkrRKke 42 
                              ++G++ +l  ++++++ ++k+
  PHY93_11530|PHY93_11530 167 LFGAATILIFSAFYLREKNKN 187
                              689999999999999999997 PP

>> DUF4131  Domain of unknown function (DUF4131)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.1      0.11   6.3e+02       7      24 ..       6      23 ..       2      38 .. 0.70
   2 ?    9.0   0.7   0.00017         1       2      56 ..      73     127 ..      72     147 .. 0.78
   3 ?   -3.1   0.0      0.89   5.3e+03      10      22 ..     168     180 ..     161     185 .. 0.48

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 0.11
                  DUF4131  7 lvllalllllllllllll 24
                              ++l+++++l++ ++++ 
  PHY93_11530|PHY93_11530  6 KWMLIFAGVLMVGIYFFP 23
                             577777777777777764 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.00017
                  DUF4131   2 glplalvllalllllllllllllrrrprrrvllllllllllallg.falrapqpna 56 
                               l++  + +a+l++ +l+ +++++  +  rv ++++l++++++++ f+l+ ++ ++
  PHY93_11530|PHY93_11530  73 ELSYLPWGVAVLIFGTLVSAFIKN-IWAIRVYVTVFLVCAIGSFYdFWLWGYRYGH 127
                              67889999*************987.8888888888888888888845555555544 PP

  == domain 3  score: -3.1 bits;  conditional E-value: 0.89
                  DUF4131  10 lalllllllllll 22 
                              ++++ +l++ +++
  PHY93_11530|PHY93_11530 168 FGAATILIFSAFY 180
                              3333333333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (187 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       615  (0.034302); expected 358.6 (0.02)
Passed bias filter:                      304  (0.0169558); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1365.13
//
Query:       PHY93_05640|PHY93_05640  [L=175]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      1e-20   73.9   6.4      1e-20   73.9   6.4    1.6  1  PAP2      PAP2 superfamily
    6.7e-10   39.0  15.9    5.1e-09   36.1  15.9    2.0  1  PAP2_3    PAP2 superfamily
  ------ inclusion threshold ------
      0.026   14.7   1.3      0.069   13.3   0.2    2.1  2  DUF212    Divergent PAP2 family
       0.13   12.3   0.0       0.21   11.6   0.0    1.3  1  DUF3212   Protein of unknown function (DUF3212)
          7    7.1   9.3        2.7    8.4   3.6    2.7  2  UPF0016   Uncharacterized protein family UPF0016


Domain annotation for each model (and alignments):
>> PAP2  PAP2 superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.9   6.4   2.9e-24     1e-20       3     127 ..      68     174 ..      66     175 .] 0.92

  Alignments for each domain:
  == domain 1  score: 73.9 bits;  conditional E-value: 2.9e-24
                     PAP2   3 lalllalalaalltsvlKdlvgrpRPfflaeetkldtqvstletseskeakesfPSgHsafafalalllalllrrkrkkiglvlla 88 
                              l+ +++ +++ ++ +++K++++r RPf+++ + ++    +           +sfPS H+a ++a++++l l+ +++          
  PHY93_05640|PHY93_05640  68 LKAMICTFMTWVIGNIIKQIFRRKRPFQAMANLESLVYSPKD---------DSFPSLHTASTTAFFTALLLIHHPWALW------- 137
                              5667778888899************************96654.........5******************999999888....... PP

                     PAP2  89 lillllavlvalsRlylgvHflsDvlaGlliGialaala 127
                                + ++a+ v +sRlylgvH+lsD+++G+l+Gi++++l+
  PHY93_05640|PHY93_05640 138 --VGVWAAIVTFSRLYLGVHYLSDLFGGILLGIFCGYLV 174
                              ..9********************************9986 PP

>> PAP2_3  PAP2 superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.1  15.9   1.4e-12   5.1e-09       5     187 ..      10     170 ..       6     173 .. 0.71

  Alignments for each domain:
  == domain 1  score: 36.1 bits;  conditional E-value: 1.4e-12
                   PAP2_3   5 aldralgldweaalnklllahpalavilalaYaslhfqvtllvl...vllflrrrerlreflttlllatllgllvyalfPaagPrl 87 
                              ++dra  l + ++  k ++   ++a+++a  Ya+ +++++l++l    + ++      +++++  ++++++g ++   f + +P+ 
  PHY93_05640|PHY93_05640  10 EFDRAATLAVAKWRTKEITFILKMATYTARGYAWGFYVIVLVTLnqkGIQIIVGQYLILKAMICTFMTWVIGNIIKQIFRRKRPFQ 95 
                              66666666666666655555555566666669999999999998443233455566666677777789****************33 PP

                   PAP2_3  88 leeagfvdtvaaaslagalrdgasravllrgtienglaafPSlHvawallvalalwrlrrkrllrvlalllnvlmivatvatgnHY 173
                                        a a+l++         ++++ +      +fPSlH+a ++ +  al  ++ +++  +++ +++++++++ +++g HY
  PHY93_05640|PHY93_05640  96 ----------AMANLES---------LVYSPK----DDSFPSLHTASTTAFFTALLLIH-HPWALWVG-VWAAIVTFSRLYLGVHY 156
                              ..........3444444.........222222....247*******9999988855544.44478888.89*************** PP

                   PAP2_3 174 lvDviaGvalalva 187
                              l D+ +G++l++ +
  PHY93_05640|PHY93_05640 157 LSDLFGGILLGIFC 170
                              *********99876 PP

>> DUF212  Divergent PAP2 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.2   1.9e-05     0.069       5      60 ..      70     130 ..      67     152 .. 0.71
   2 ?   -0.2   0.1      0.28     1e+03     113     127 ..     155     169 ..     148     170 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.9e-05
                   DUF212   5 vllaallawlvaqllKvliellkekkld....lkllv...stGgmPSsHsalvtalatavgle 60 
                              ++++++++w++  ++K +++  +++ ++    l+ lv   ++  +PS H+a  ta +ta+ l 
  PHY93_05640|PHY93_05640  70 AMICTFMTWVIGNIIKQIFR--RKRPFQamanLESLVyspKDDSFPSLHTASTTAFFTALLLI 130
                              6889999*********9998..4443333333555542336789*************998764 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.28
                   DUF212 113 HtpleVlvGallGii 127
                              H   + ++G+llGi+
  PHY93_05640|PHY93_05640 155 HYLSDLFGGILLGIF 169
                              888999*******97 PP

>> DUF3212  Protein of unknown function (DUF3212)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0     6e-05      0.21      10      33 ..      75      98 ..      70     107 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 6e-05
                             HHHHHHHHHHHHHHHHHBSS---H CS
                  DUF3212 10 ynawivsdlvkqifskeageeadi 33
                             + +w++ +++kqif+++ + +a +
  PHY93_05640|PHY93_05640 75 FMTWVIGNIIKQIFRRKRPFQAMA 98
                             789*************99887754 PP

>> UPF0016  Uncharacterized protein family UPF0016
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.3      0.14   5.1e+02      40      51 ..      70      81 ..      23      98 .. 0.57
   2 ?    8.4   3.6   0.00076       2.7      16      48 ..     121     152 ..     119     175 .] 0.77

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 0.14
                  UPF0016 40 lalmtvlsvllG 51
                              +++t++  ++G
  PHY93_05640|PHY93_05640 70 AMICTFMTWVIG 81
                             244455555555 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.00076
                  UPF0016  16 TqlaaalLaarykplpVflGavlAlalmtvlsv 48 
                              T + +alL  ++ p++ ++G+++A++  + l  
  PHY93_05640|PHY93_05640 121 TAFFTALLLIHH-PWALWVGVWAAIVTFSRLYL 152
                              8899*******9.***********998766544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (175 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       661  (0.0368676); expected 358.6 (0.02)
Passed bias filter:                      293  (0.0163422); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1317.14
//
Query:       PHY93_11535|PHY93_11535  [L=143]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.7e-05   25.2   0.0    2.6e-05   24.6   0.0    1.2  1  NosL      NosL
     0.0056   16.8   0.1      0.014   15.5   0.1    1.7  1  YHS       YHS domain


Domain annotation for each model (and alignments):
>> NosL  NosL
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.6   0.0   2.9e-09   2.6e-05       7     126 ..      27     138 ..      23     140 .. 0.90

  Alignments for each domain:
  == domain 1  score: 24.6 bits;  conditional E-value: 2.9e-09
                     NosL   7 eaecdvCgMliaehpgpkgqifyededepakFcstrdlfafllepeerk.eikaiyvtDmsavdwespdaeafidakkalyVvgsd 91 
                              ++ c++C M i++ p   g i++e+ ++  kF+s  +l++f  e+ +++ +ika yv +         ++ ++++ ++a++    +
  PHY93_11535|PHY93_11535  27 SEFCNHCAMGIHD-PRYGGLILTEK-GKSYKFDSLECLLKFEDEKLDKAeKIKARYVFNTF-------KKGELVKLDQAIFLKIPN 103
                              578********87.66666666665.****************99988777*******9977.......789*************** PP

                     NosL  92 veGaMGpelvpFsdeadAeaFaaehgGkvlrfedv 126
                              ++++MG+ + + s+ ++ ++  ae gG+vl++ ++
  PHY93_11535|PHY93_11535 104 MRSPMGAGIWASSSLEEISKAKAERGGEVLNWSQL 138
                              ******************************99876 PP

>> YHS  YHS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.1   1.5e-06     0.014      22      40 ..      50      68 ..      47      70 .. 0.94

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.5e-06
                      YHS 22 kGkeYyFcSegCkdkFede 40
                             kGk Y F+S +C+ kFede
  PHY93_11535|PHY93_11535 50 KGKSYKFDSLECLLKFEDE 68
                             8****************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (143 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       431  (0.0240393); expected 358.6 (0.02)
Passed bias filter:                      365  (0.0203581); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.37u 0.22s 00:00:00.59 Elapsed: 00:00:00.36
# Mc/sec: 1204.55
//
Query:       PHY93_11540|PHY93_11540  [L=425]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.3e-47  162.1  25.7    1.9e-41  141.9  19.0    2.1  2  NosD        Periplasmic copper-binding protein (NosD)
    9.8e-25   87.2  32.7    2.7e-21   76.1  15.1    2.4  2  Beta_helix  Right handed beta helix region


Domain annotation for each model (and alignments):
>> NosD  Periplasmic copper-binding protein (NosD)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.7   0.5   1.4e-09   1.2e-05      41     102 ..      96     164 ..      62     169 .. 0.70
   2 !  141.9  19.0   2.1e-45   1.9e-41      15     227 ..     172     372 ..     163     379 .. 0.96

  Alignments for each domain:
  == domain 1  score: 24.7 bits;  conditional E-value: 1.4e-09
                     NosD  41 illdnssnntitgntienl.......ryGihlensesntiedntlssnesGialmsssnntlenNtisn 102
                              +ll  + n+++ g  ++++        ++i++e++   +i+dn+l +n +Gi+l +s+n+ +enN+i++
  PHY93_11540|PHY93_11540  96 MLLIVAPNVEVAGLILKDSqisflddVSAIRIEGAAYAYIHDNKLINNAYGIYLAKSKNCRIENNEIIG 164
                              445555555555555555555555778999999999999999999999999999999999999999987 PP

  == domain 2  score: 141.9 bits;  conditional E-value: 2.1e-45
                     NosD  15 rgngiqlensegseisnneisnsrdgilldnssnntitgn.tienlryGihlensesntiedntlssnesGialmsssnntlenNt 99 
                              +gngi++++ ++ +i nn++s++rdgi+++  ++ +i+gn  ++n+ryG+h++ s++n ++ n +++n +G+a+m+s+   ++nN+
  PHY93_11540|PHY93_11540 172 SGNGIHIWSGKEHHIINNKLSKNRDGIYFEFVTDSKIEGNySFQNSRYGLHFMFSHRNEYRRNRFTHNAAGVAVMYSKSILMDNNE 257
                              79**************************************999999********************************99****** PP

                     NosD 100 isnnen...yGillsdssnntisnNtisnnnkGiflensssntitgNriesnqkiGilllsssegntiynNyFinnsenvkydgsn 182
                              +s + +   yG ll+++s ++i nN++++n+ Gi++e+++++ +++N +++n    + +l +s+gn++ +N F+ n+ +v+ ++s 
  PHY93_11540|PHY93_11540 258 FSASVGggaYGLLLKEISLSNIVNNKFLDNSIGIYIEGTTKSHFKNNLFNKN-ARALRILGNSDGNNFERNFFLHNTFEVATNSSI 342
                              ****99999*******************************************.*****************************9998 PP

                     NosD 183 .nneWnttktsgtniiggpylgGNyWsdydgeDadgDGigDtpYei 227
                               +n +                  NyWs+y+g D +gDG+gD+p+++
  PHY93_11540|PHY93_11540 343 sQNVF----------------DKNYWSKYTGYDLNGDGLGDVPHRP 372
                              99999................56*********************87 PP

>> Beta_helix  Right handed beta helix region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.1  15.1     3e-25   2.7e-21       1     143 [.     123     267 ..     123     278 .. 0.96
   2 !   16.6  10.0   5.9e-07    0.0052      11      90 ..     277     350 ..     267     371 .. 0.51

  Alignments for each domain:
  == domain 1  score: 76.1 bits;  conditional E-value: 3e-25
                              -SEEE-SS-E.EEESEEEES-SS-SEEE-SSS-.EEES-EEES......-SS-SEEE-TT-S-EEES-EEE---SEEE-TT--S-- CS
               Beta_helix   1 sgisingssnvtiknntisnsggyGiylrgssnvvienneian......nsgsGiyilgssnntisnntisdnngggialfgasnn 80 
                              s+i i+g   + i +n++ n ++yGiyl  s+n++iennei +       sg+Gi+i ++++  i nn+ s n  +gi+++    +
  PHY93_11540|PHY93_11540 123 SAIRIEGAAYAYIHDNKLIN-NAYGIYLAKSKNCRIENNEIIGvdrgdaESGNGIHIWSGKEHHIINNKLSKNR-DGIYFEFVTDS 206
                              589999**************.6****************************************************.*********** PP

                              EEES-EEES-SS-SEE-TT-S--EEES-EEESTT--SEE---TT---EEES-EEES-SSEEEE CS
               Beta_helix  81 lienneitdnggsGiylnyssnntienNiidnnagsGividdsssnvtvtnNtitnnkgaGia 143
                               ie+n  + n+++G++++ s++n  ++N++++na +G+ +++s+ ++ + nN ++ ++g G++
  PHY93_11540|PHY93_11540 207 KIEGNYSFQNSRYGLHFMFSHRNEYRRNRFTHNA-AGVAVMYSK-SILMDNNEFSASVGGGAY 267
                              ******************9***************.*********.**********99977764 PP

  == domain 2  score: 16.6 bits;  conditional E-value: 5.9e-07
                              .EEESEEEES-SS-SEEE-SSS-.EEES-EEES-SS-SEEE-TT.-S-EEES-EEE---SEEE-TT--S--EEES-EEES- CS
               Beta_helix  11 vtiknntisnsggyGiylrgssnvvienneiannsgsGiyilgs.snntisnntisdnngggialfgasnnlienneitdn 90 
                               +i nn++ + ++ Giy++g+++ +++nn +++ +   ++ilg  ++n++++n + +n+ +++a++    + i+ n + +n
  PHY93_11540|PHY93_11540 277 SNIVNNKFLD-NSIGIYIEGTTKSHFKNNLFNK-NARALRILGNsDGNNFERNFFLHNT-FEVATN----SSISQNVFDKN 350
                              3455555555.3555555555555555555555.4455544444455555555555555.333333....33333333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (425 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       659  (0.0367561); expected 358.6 (0.02)
Passed bias filter:                      430  (0.0239835); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.37
# Mc/sec: 3399.97
//
Query:       PHY93_11545|PHY93_11545  [L=241]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.7e-25   89.0   0.0    5.8e-25   88.4   0.0    1.3  1  ABC_tran  ABC transporter
    2.6e-14   53.7   0.0    1.7e-06   28.1   0.0    2.1  2  AAA_21    AAA domain, putative AbiEii toxin, Type IV TA syste
    1.7e-05   24.4   0.1    0.00061   19.3   0.1    2.1  1  SMC_N     RecF/RecN/SMC N terminal domain
     0.0014   18.4   0.0     0.0014   18.4   0.0    1.2  1  AAA_15    AAA ATPase domain
      0.003   18.1   0.1      0.007   16.9   0.1    1.6  1  AAA_23    AAA domain
     0.0048   16.9   0.1      0.084   12.9   0.0    2.3  2  AAA_14    AAA domain
  ------ inclusion threshold ------
      0.011   15.7   0.0      0.016   15.1   0.0    1.4  1  ATPase_2  ATPase domain predominantly from Archaea
      0.027   14.4   1.0       0.39   10.6   1.0    2.3  1  Rad17     Rad17 P-loop domain
      0.083   13.1   0.0       0.19   11.9   0.0    1.6  1  DUF5371   Family of unknown function (DUF5371)
      0.084   12.6   0.0       0.54   10.0   0.0    2.0  2  AAA_24    AAA domain
      0.098   12.2   0.0        1.5    8.4   0.0    2.3  2  AAA_25    AAA domain
       0.11   12.9   0.5       0.52   10.7   0.5    2.2  1  AAA       ATPase family associated with various cellular acti


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.4   0.0   3.9e-28   5.8e-25       1     136 [.      17     155 ..      17     156 .. 0.91

  Alignments for each domain:
  == domain 1  score: 88.4 bits;  conditional E-value: 3.9e-28
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH....... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren....... 79 
                              lk ++l++++g+++++vG+n +GK+tL+k+l+gl +  +G++ +++ d+++   +++r+ ig++pq+p +  +l+vre        
  PHY93_11545|PHY93_11545  17 LKGIDLTIENGTVLGLVGPNACGKTTLMKCLLGLAHFSKGKVIIQNLDIEM--GTEYRRMIGYMPQNPDFPGNLQVREIlemmedl 100
                              789***********************************************9..99*************************888876 PP

                              ..HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              ..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ..esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                                es +  +++++ ++l++  d++     + LSgG kq+va + a++ + ++l+lDEpt
  PHY93_11545|PHY93_11545 101 rgESAKFKNDLIEYFSLEDSLDKTF----EVLSGGTKQKVAAVLAFMFEVPILILDEPT 155
                              6555555677777777777777776....*****************************9 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.1   0.0   1.1e-09   1.7e-06       3      83 ..      31     111 ..      29     124 .. 0.77
   2 !   23.9   0.0   2.2e-08   3.2e-05     234     297 ..     125     185 ..     114     191 .. 0.86

  Alignments for each domain:
  == domain 1  score: 28.1 bits;  conditional E-value: 1.1e-09
                   AAA_21   3 vliGpNgsGKSnLLdaldllarldrdvegltdelsggggirkipslldlydpeipfefeieeflsqgvryryglrlersqv 83 
                              +l+GpN++GK++L+++l +la + +     ++ +   g++      + + +p+ p++++++e l+ + + r++    ++++
  PHY93_11545|PHY93_11545  31 GLVGPNACGKTTLMKCLLGLAHFSKGKVIIQNLDIEMGTEYRRMIGYMPQNPDFPGNLQVREILEMMEDLRGESAKFKNDL 111
                              79*********************4444444445555777777888888889999999999999998888888887777777 PP

  == domain 2  score: 23.9 bits;  conditional E-value: 2.2e-08
                   AAA_21 234 arelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQviltTH 297
                              +  lS Gtk+  a ++a+       ++l++DEp  gL+P   +++ el++  ++ ga +i+++H
  PHY93_11545|PHY93_11545 125 FEVLSGGTKQKVAAVLAFMFEV---PILILDEPTVGLDPVSGAKFKELVRTRAKSGATIIIVSH 185
                              6778********9999999999...9*************88888889995555568******** PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.3   0.1   4.1e-07   0.00061      27     205 ..      30     193 ..       8     206 .. 0.68

  Alignments for each domain:
  == domain 1  score: 19.3 bits;  conditional E-value: 4.1e-07
                              EEEEESTTSSHHHHHHHHHHHCTT.TTTTTTCHCCCCCC--BTTCSSTTEEE.EEEEEEETTEESSSSSSCEEEEEEEETTSEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N  27 taivGpNGSGKsnlldAilFvLGersakklrseklsdlihkskekasvkkae.veitfdnedkklkiekeevsisrrvkrkgesey 111
                                +vGpN +GK+ l+  +   LG ++      +k + +i++ + +  ++  + +  + +n+d   + +  e  i   ++     + 
  PHY93_11545|PHY93_11545  30 LGLVGPNACGKTTLMKCL---LGLAHF-----SKGKVIIQNLDIEMGTEYRRmIGYMPQNPDFPGNLQVRE--ILEMMEDLRGESA 105
                              458999999999999999...997776.....666677777333333333330333334444443334444..3333333333345 PP

                              EETTEEE-HHHHHHHHHCTT-STTCS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTT.SEEEEE- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxx RF
                    SMC_N 112 kingkevtkkevsellesagiskelLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkekskn.aQfivis 196
                              k+++  +++  +++ l +   + e+LSgG k+ va  L f        p+ +lDe    LD    +k+ el++++ k+ a +i++s
  PHY93_11545|PHY93_11545 106 KFKNDLIEYFSLEDSLDK---TFEVLSGGTKQKVAAVLAFM----FEVPILILDEPTVGLDPVSGAKFKELVRTRAKSgATIIIVS 184
                              666667777777777766...4689****999888777664....368*************************9988869999999 PP

                              SSHHHCCC- CS
                              xxxxxxxxx RF
                    SMC_N 197 lreemleka 205
                              +    le++
  PHY93_11545|PHY93_11545 185 HVLSELEQV 193
                              977776665 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0   9.6e-07    0.0014      15      55 ..      18      97 ..       9     232 .. 0.64

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 9.6e-07
                   AAA_15 15 kdveidlsee.ltvliGkNnsGKSsilealdlFlnnkekkn.......................................k 55
                             k +++ +++  +  l+G+N++GK+++++ l  +   + k +                                        
  PHY93_11545|PHY93_11545 18 KGIDLTIENGtVLGLVGPNACGKTTLMKCLLGLAHFS-KGKviiqnldiemgteyrrmigympqnpdfpgnlqvreilemM 97
                             444455555467789**************98777766.2223455555555555555555555555555555555555441 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.1   4.7e-06     0.007       9      39 ..      13      47 ..       8      58 .. 0.77

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 4.7e-06
                   AAA_23  9 sfrdqe.idF...skgltlItGpNGaGKTTildAi 39
                             +++  + id+   +  +  ++GpN +GKTT++ ++
  PHY93_11545|PHY93_11545 13 KYQVLKgIDLtieNGTVLGLVGPNACGKTTLMKCL 47
                             4544445777775556778*************998 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.9   0.0   5.6e-05     0.084       2      41 ..      27      66 ..      26      83 .. 0.79
   2 ?    1.9   0.0      0.14   2.1e+02      28      73 ..     107     154 ..      93     217 .. 0.64

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 5.6e-05
                   AAA_14  2 rkilvitGaRrvGKTtllkqlikellvkkesilyinldde 41
                             + +l ++G+  +GKTtl+k l+     +k +++  nld e
  PHY93_11545|PHY93_11545 27 GTVLGLVGPNACGKTTLMKCLLGLAHFSKGKVIIQNLDIE 66
                             57899*************9988555567777777777755 PP

  == domain 2  score: 1.9 bits;  conditional E-value: 0.14
                   AAA_14  28 vkkesilyinldderdkkladpe....kllelileklkeekktylflDEi 73 
                               k++ i y++l+d  dk+++  +    +   ++l+  +  +  +l+lDE 
  PHY93_11545|PHY93_11545 107 FKNDLIEYFSLEDSLDKTFEVLSggtkQKVAAVLAF-MF-EVPILILDEP 154
                              566778899999998877664433322222333332.22.5678888884 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.1   0.0   1.1e-05     0.016      20     126 ..      27     153 ..      17     202 .. 0.67

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.1e-05
                 ATPase_2  20 neiyfiYGpegsGKtaLlkeiienledkdkyviyyialreesiskldefie.........eeeekkklekal...........gia 85 
                               +++ + Gp  +GKt+L+k ++    + +k ++ + +l  e  ++++++i+          + +++++ +++           ++ 
  PHY93_11545|PHY93_11545  27 GTVLGLVGPNACGKTTLMKCLLGLA-HFSKGKVIIQNLDIEMGTEYRRMIGympqnpdfpGNLQVREILEMMedlrgesakfkNDL 111
                              5566678************999887.77889999********9****999999998888844444445555545555322233222 PP

                 ATPase_2  86 vpkaeleeilkeksklvfkaielllekikkkgkk............iiiiiDe 126
                              +      e ++     ++ ++++ +e ++   k+            +i+i+De
  PHY93_11545|PHY93_11545 112 I------EYFS-----LEDSLDKTFEVLSGGTKQkvaavlafmfevPILILDE 153
                              2......2222.....2222222222222222222222222233336666665 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   1.0   0.00026      0.39      36      65 ..      18      47 ..       5     198 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00026
                    Rad17 36 kadvLesrkkriLLisGPsGCgkstvvkvL 65
                             k   L  ++  +L + GP  Cgk+t +k L
  PHY93_11545|PHY93_11545 18 KGIDLTIENGTVLGLVGPNACGKTTLMKCL 47
                             55555556667999*************987 PP

>> DUF5371  Family of unknown function (DUF5371)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   0.00013      0.19      10      37 ..     205     232 ..     199     237 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00013
                  DUF5371  10 vLaeeeLeeLKkKtnesstkdAlsiAve 37 
                              vLa   L eLKkK+++s+    l  Av 
  PHY93_11545|PHY93_11545 205 VLATTSLFELKKKAGDSAGNSSLENAVM 232
                              9**********************99995 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.0   0.00036      0.54       3      60 ..      28     101 ..      26     128 .. 0.69
   2 ?    0.4   0.0      0.31   4.6e+02     109     132 ..     164     187 ..     162     198 .. 0.86

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.00036
                   AAA_24   3 lkiliyGpsgiGKTtlakel.......gpkplfi..dtekGlksldadkfpdie.......swedfldevvela 60 
                                + ++Gp+  GKTtl+k l       + k+++   d+e+G+     + +   +       ++ ++l+ ++ l+
  PHY93_11545|PHY93_11545  28 TVLGLVGPNACGKTTLMKCLlglahfsKGKVIIQnlDIEMGTEYRRMIGYMPQNpdfpgnlQVREILEMMEDLR 101
                              56789***************999988655555524488888865555444322245555555555555555555 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.31
                   AAA_24 109 eefrrllkklqelrknvifiahek 132
                              ++f++l+++  + + ++i+++h  
  PHY93_11545|PHY93_11545 164 AKFKELVRTRAKSGATIIIVSHVL 187
                              68999*****************75 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.4   0.0   0.00098       1.5      30      82 ..      24      66 ..      16     124 .. 0.64
   2 ?    1.3   0.0      0.14   2.2e+02     169     189 ..     166     186 ..     159     189 .. 0.86

  Alignments for each domain:
  == domain 1  score: 8.4 bits;  conditional E-value: 0.00098
                   AAA_25 30 lpagelallaGapgtGKttlaldlalavatGkpwlgpvapeqgkVlyvsaEds 82
                             +  g++  l+G+ ++GKttl   l     +G      +   +gkV++ +++  
  PHY93_11545|PHY93_11545 24 IENGTVLGLVGPNACGKTTLMKCL-----LGLAH---F--SKGKVIIQNLDIE 66
                             67899999***********96433.....22211...1..3455555555555 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.14
                   AAA_25 169 vealeriarrtgaavllvhHv 189
                              ++ l r +++ ga++++v Hv
  PHY93_11545|PHY93_11545 166 FKELVRTRAKSGATIIIVSHV 186
                              577889999***********8 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.5   0.00035      0.52       3      25 ..      32      54 ..      30     218 .. 0.72

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00035
                             EESSTTSSHHHHHHHHHHHHTHE CS
                      AAA  3 lyGppGtGKTllakavakelgve 25
                             l+Gp  +GKT+l+k +   ++++
  PHY93_11545|PHY93_11545 32 LVGPNACGKTTLMKCLLGLAHFS 54
                             89************998887533 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (241 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       498  (0.0277762); expected 358.6 (0.02)
Passed bias filter:                      466  (0.0259914); expected 358.6 (0.02)
Passed Vit filter:                        80  (0.00446204); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.52u 0.25s 00:00:00.77 Elapsed: 00:00:00.42
# Mc/sec: 1708.56
//
Query:       PHY93_11550|PHY93_11550  [L=257]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.2e-06   25.3  30.7    0.00053   19.4  23.6    2.7  2  ABC2_membrane_2  ABC-2 family transporter protein
  ------ inclusion threshold ------
       0.52    9.7  33.4      0.028   13.8  25.5    2.0  2  ABC2_membrane    ABC-2 type transporter
        2.8    7.5  10.2        1.4    8.5   0.2    3.1  3  Smim3            Small integral membrane protein 3
        4.7    5.2  10.9        1.6    6.8   8.2    1.6  1  UPF0182          Uncharacterised protein family (UPF0182)
        5.8    6.9   9.2       0.37   10.7   0.7    2.7  3  UPF0139          Uncharacterised protein family (UPF0139)


Domain annotation for each model (and alignments):
>> ABC2_membrane_2  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.4   0.8   0.00016      0.57       6      36 ..      10      40 ..       6      51 .. 0.77
   2 !   19.4  23.6   1.5e-07   0.00053      84     246 ..      56     205 ..      48     257 .] 0.65

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.00016
          ABC2_membrane_2  6 kEfrdlvrsrrfllltvllplidvalaylkd 36
                              E+++ +rs+++++lt+l++++++   +l+d
  PHY93_11550|PHY93_11550 10 YELSNVLRSKWLYVLTILIAIMTFTFLFLSD 40
                             6999******************554444443 PP

  == domain 2  score: 19.4 bits;  conditional E-value: 1.5e-07
          ABC2_membrane_2  84 lipviaalfgadaiagEkergTlkllLskPvsRdeillgKfigglaiglaiavallatvllalaiilalgivlaledllllvvasv 169
                              lip++a+lf++ +    +er T +llL++P+sR+ i l+     ++i   +  +l+ ++ ++++i  a+   ++++ l++l ++s+
  PHY93_11550|PHY93_11550  56 LIPLVALLFTSLYWY-NSERFT-ELLLTQPISRKVIFLSR----AVI---LGTSLIFSLSIGVVIPFAWFQIFNADILFFLGLMSL 132
                              566666666665543.233333.9**********996555....555...555555555556788999999999*99999999999 PP

          ABC2_membrane_2 170 lllllvvflalglllSsvarssreaaalalglfvvlailvpivlygvaellagpavpqeindfls.llsptsayntll 246
                               l+l  vf+ lgll+S+ + ++ +a+ l+lg++++l+++ ++++  ++ ll+ + +p+ i+ ++  +++p+   ++ll
  PHY93_11550|PHY93_11550 133 -LAL--VFVNLGLLISVSMSDKMKALGLVLGIWMYLLMVHDGIV--LMGLLLLKGYPTDISALVAgTINPIGLARILL 205
                              .444..589*******************************9999..66777777777555444422444444444433 PP

>> ABC2_membrane  ABC-2 type transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8  25.5   7.8e-06     0.028       4     174 ..       5     168 ..       3     178 .. 0.66
   2 ?    0.7   0.9     0.081   2.9e+02      97     127 ..     224     253 ..     186     256 .. 0.54

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 7.8e-06
            ABC2_membrane   4 kallkreflqrwrdpslgllwrliqplllalvfgtvfgnlgnsedgl.nrpgllffsvlflafsaltsvapvferergvlerelvs 88 
                              k+++ +e+ + +r++ l+    ++++l+ ++ f+++f + ++ ++ l +   +++ ++  +a  +l+++ +++   +++ e +l+ 
  PHY93_11550|PHY93_11550   5 KTVVYYELSNVLRSKWLY----VLTILIAIMTFTFLFLS-DDIKKTLlSLTIVFCALIPLVA--LLFTS-LYWYNSERFTELLLTQ 82 
                              678889999999999777....46777777778888883.1222222133333333333333..44444.79************** PP

            ABC2_membrane  89 plyslsayvlakvlve.lpvsllqalifll.ivyf.lvgldlsrfflflllllltalaasslgllisalap.sfedasqlaslvll 170
                              p+ s+++++l+++++    +++ +++ +++ +++f +++ d+   ++fl l+ l+al+++ lgllis+ ++ +++  +++ ++ ++
  PHY93_11550|PHY93_11550  83 PI-SRKVIFLSRAVILgTSLIFSLSIGVVIpFAWFqIFNADI---LFFLGLMSLLALVFVNLGLLISVSMSdKMKALGLVLGIWMY 164
                              **.*********965424444444555555233332556666...99*******************97555045555555555555 PP

            ABC2_membrane 171 plll 174
                              +l++
  PHY93_11550|PHY93_11550 165 LLMV 168
                              5555 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.081
            ABC2_membrane  97 vlakvlvelpvsllqalifllivyflvgldl 127
                              ++ + ++ ++ +l+ ++i++++ ++l gl+ 
  PHY93_11550|PHY93_11550 224 LFLSSTTGVIAALIGGAIWIFCPLWL-GLRA 253
                              34444455666666666666666666.6654 PP

>> Smim3  Small integral membrane protein 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.4    0.0061        22      21      39 ..      20      38 ..      12      41 .. 0.90
   2 ?   -2.4   0.4      0.94   3.4e+03      26      40 ..      95     104 ..      88     112 .. 0.51
   3 ?    8.5   0.2   0.00038       1.4      17      39 ..     158     180 ..     145     186 .. 0.90

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.0061
                    Smim3 21 WvivLiiLativimtsLlL 39
                             W  vL iL  i+  t L+L
  PHY93_11550|PHY93_11550 20 WLYVLTILIAIMTFTFLFL 38
                             99******99999999998 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 0.94
                    Smim3  26 iiLativimtsLlLC 40 
                              +iL      tsL+  
  PHY93_11550|PHY93_11550  95 VIL-----GTSLIFS 104
                              233.....3566554 PP

  == domain 3  score: 8.5 bits;  conditional E-value: 0.00038
                    Smim3  17 iLDiWvivLiiLativimtsLlL 39 
                              +L iW+ +L++   iv+m  LlL
  PHY93_11550|PHY93_11550 158 VLGIWMYLLMVHDGIVLMGLLLL 180
                              799******************98 PP

>> UPF0182  Uncharacterised protein family (UPF0182)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.8   8.2   0.00045       1.6       4     111 ..      46     154 ..      43     162 .. 0.79

  Alignments for each domain:
  == domain 1  score: 6.8 bits;  conditional E-value: 0.00045
                  UPF0182   4 llavlavlllllellarlytellwfkelgylsvfltrlltrlllfvvvflllalllllnlllaerlell.eklerlrealekklkl 88 
                              ll + +v+++l+ l+a l+t l w+++  +++++lt+ ++r ++f+  +++l + l+++l +    +    ++ ++  ++   l  
  PHY93_11550|PHY93_11550  46 LLSLTIVFCALIPLVALLFTSLYWYNSERFTELLLTQPISRKVIFLSRAVILGTSLIFSLSIGVVIPFAwFQIFNADILFFLGLMS 131
                              556667778889***************************************99999999988666533343355566666667777 PP

                  UPF0182  89 lllaialvlsllvglvassqwek 111
                              ll+++ + l+ll+++++s++++ 
  PHY93_11550|PHY93_11550 132 LLALVFVNLGLLISVSMSDKMKA 154
                              77777788888888888887765 PP

>> UPF0139  Uncharacterised protein family (UPF0139)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.7    0.0001      0.37      44      86 ..      15      57 ..       3      61 .. 0.92
   2 ?    0.1   0.8       0.2   7.2e+02      30      47 ..     129     146 ..     125     157 .. 0.85
   3 ?   -1.4   0.1      0.63   2.3e+03      27      42 ..     148     163 ..     144     169 .. 0.77

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.0001
                  UPF0139 44 mlklkwcaWvalvcslisfanskssddlkqilssfmlsvsalv 86
                             +l+ kw+  +++++++++f+    sdd k+ l s+++ ++al+
  PHY93_11550|PHY93_11550 15 VLRSKWLYVLTILIAIMTFTFLFLSDDIKKTLLSLTIVFCALI 57
                             79***********************************999997 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.2
                  UPF0139  30 ymnllgmifsllglmlkl 47 
                               m+ll+++f  lgl++ +
  PHY93_11550|PHY93_11550 129 LMSLLALVFVNLGLLISV 146
                              6999*****999999865 PP

  == domain 3  score: -1.4 bits;  conditional E-value: 0.63
                  UPF0139  27 tpdymnllgmifsllg 42 
                              + d m  lg+++++  
  PHY93_11550|PHY93_11550 148 MSDKMKALGLVLGIWM 163
                              6789999999999864 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (257 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1092  (0.0609069); expected 358.6 (0.02)
Passed bias filter:                      325  (0.0181271); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.57u 0.23s 00:00:00.80 Elapsed: 00:00:00.40
# Mc/sec: 1920.66
//
Query:       PHY93_11555|PHY93_11555  [L=328]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.5e-23   83.4   0.0    2.2e-23   82.9   0.0    1.2  1  Phage_integrase  Phage integrase family
    1.4e-12   47.8   0.7    6.7e-12   45.5   0.1    2.4  3  Phage_int_SAM_1  Phage integrase, N-terminal SAM-like domain
    4.4e-09   36.7   1.2    8.8e-09   35.7   0.7    1.8  2  Phage_int_SAM_4  Phage integrase, N-terminal SAM-like domain
  ------ inclusion threshold ------
       0.11   12.3   0.0       0.17   11.7   0.0    1.2  1  TMEM61           TMEM61 protein family


Domain annotation for each model (and alignments):
>> Phage_integrase  Phage integrase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   82.9   0.0     5e-27   2.2e-23       5     169 ..     132     308 ..     129     311 .. 0.93

  Alignments for each domain:
  == domain 1  score: 82.9 bits;  conditional E-value: 5e-27
                              HHHHHHHHHCCGC..HHHHHHHHHHHHHHHHT--HHHHTT-BGGGEECTTTEEEEEEEECSSSSEEEEECTHHHHHHHHHHHHHH. CS
          Phage_integrase   5 edeverllaalee..slkirdklllellyetGlRisEllsLrvkdldlengvilvheregKgskeravplseealellkellska. 87 
                               +++++ll+ +e+     + ++++l +l+ tG+R +El +Lr+k++ +++g  ++ e + Kg+k+ +  +  + +e++ e+l++  
  PHY93_11555|PHY93_11555 132 DEQIRNLLELVETlkGPGLLHRAVLYTLFTTGIRKAELTNLRLKNFFMKDGFYII-EVRAKGGKQLTKVIHPKCAEVINEYLDYLr 216
                              57889999999998768899***********************************.8888************************98 PP

                              ..CHCCTTTSBSSBET........TSSB--HHHHHHHHHHHHHHCT-SSC--TTHHHHHHHHHHHHHCTSHHHHHHHHT-SSCCHH CS
          Phage_integrase  88 ..leeaeksellfask........rgkplsrqtvrkafkraveeagiekpltpHtlRhsfataLleagvdlrvvqkllGHssistt 163
                                 e   +++++f             kpl+ ++v+ ++k+++++agi+++++pH+ R s+    le+g dl ++ +  GH+s++tt
  PHY93_11555|PHY93_11555 217 stGEPLHQEDWVFRPSknplepghIIKPLNPKSVDYIIKSWCRKAGIDQRISPHSARASYIGSALESGTDLYKISRDVGHASVKTT 302
                              88888888999997666999999899************************************************************ PP

                              HHHHCC CS
          Phage_integrase 164 qiYthv 169
                              + Y++ 
  PHY93_11555|PHY93_11555 303 EEYNKR 308
                              ***986 PP

>> Phage_int_SAM_1  Phage integrase, N-terminal SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.5   0.1   1.5e-15   6.7e-12      15      83 ..      35     105 ..      32     106 .. 0.97
   2 ?   -1.5   0.0      0.71   3.2e+03       1      11 [.     208     218 ..     207     221 .. 0.81
   3 ?   -4.1   0.0         4   1.8e+04      14      24 ..     297     307 ..     293     311 .. 0.77

  Alignments for each domain:
  == domain 1  score: 45.5 bits;  conditional E-value: 1.5e-15
                              -HHHHHHHHHHHHHHHHHHHH...TS--TTT--HHHHHHHHHS----------HHHHHHHHHHHHHHHHHT CS
          Phage_int_SAM_1  15 spnTlraYrrdLrrflkflae..rgkesleqlttedvraflaeleeeglsatslarrlsalrsFfqflvre 83 
                              sp+T+ +Yr d++ f++fl++  + ++s +++++ +++af ++l +++l+ +s++r+++a  sFf+flv++
  PHY93_11555|PHY93_11555  35 SPHTRKSYRLDISQFFEFLRDnfALINSYQEIERVHLVAFRNWLTDSDLAPKSINRKMAANSSFFDFLVEK 105
                              9********************999********************************************976 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.71
                              HHHHHHHHHHT CS
          Phage_int_SAM_1   1 leqfleyLike 11 
                              ++++l+yL++ 
  PHY93_11555|PHY93_11555 208 INEYLDYLRST 218
                              68999999875 PP

  == domain 3  score: -4.1 bits;  conditional E-value: 4
                              S-HHHHHHHHH CS
          Phage_int_SAM_1  14 lspnTlraYrr 24 
                              +s +T ++Y++
  PHY93_11555|PHY93_11555 297 ASVKTTEEYNK 307
                              57889999976 PP

>> Phage_int_SAM_4  Phage integrase, N-terminal SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.7   0.7     2e-12   8.8e-09      15      82 ..      35     106 ..      21     109 .. 0.92
   2 ?   -2.9   0.0       2.2   9.9e+03      46      54 ..     208     216 ..     206     220 .. 0.78

  Alignments for each domain:
  == domain 1  score: 35.7 bits;  conditional E-value: 2e-12
          Phage_int_SAM_4  15 serTiksYlsaikrflrflkkk......apeeltkedieaYlnyLanerklsastqknalnalsffykkvlere 82 
                              s+ T+ksY   i +f +fl+ +      + +e+++ ++ a+ n+L  +  l++++++++++a s+f+  ++e+ 
  PHY93_11555|PHY93_11555  35 SPHTRKSYRLDISQFFEFLR-DnfalinSYQEIERVHLVAFRNWLT-DSDLAPKSINRKMAANSSFFDFLVEKN 106
                              799****************9.558999999****************.**********************99986 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 2.2
          Phage_int_SAM_4  46 ieaYlnyLa 54 
                              i++Yl yL+
  PHY93_11555|PHY93_11555 208 INEYLDYLR 216
                              789999997 PP

>> TMEM61  TMEM61 protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   3.8e-05      0.17      85     120 ..     283     318 ..     270     323 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 3.8e-05
                   TMEM61  85 prwdpyrlsrdlyyltvessekesyrtpkvvaiPty 120
                              + +d+y++srd+ + +v+++e+ + r  k+ + P +
  PHY93_11555|PHY93_11555 283 SGTDLYKISRDVGHASVKTTEEYNKRRQKLSDSPVF 318
                              468*************************99988865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (328 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       614  (0.0342462); expected 358.6 (0.02)
Passed bias filter:                      508  (0.028334); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.50u 0.21s 00:00:00.71 Elapsed: 00:00:00.38
# Mc/sec: 2583.62
//
Query:       PHY93_11560|PHY93_11560  [L=604]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.48   10.6   3.4       0.59   10.3   0.3    2.7  2  eIF-5a    Eukaryotic elongation factor 5A hypusine, DNA-bindi
       0.59   10.2   3.5        1.3    9.1   1.2    2.8  2  RNR_N     Ribonucleotide reductase N-terminal
       0.63   10.7   6.3       0.51   11.0   0.4    3.5  3  DUF3139   Protein of unknown function (DUF3139)


Domain annotation for each model (and alignments):
>> eIF-5a  Eukaryotic elongation factor 5A hypusine, DNA-binding OB fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.3   9.9e-05      0.59      19      55 ..     430     471 ..     422     477 .. 0.83
   2 ?   -1.1   0.2      0.36   2.1e+03      25      52 ..     547     574 ..     543     585 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 9.9e-05
                              EEEETT--EEE.EEGG.......GB-HHHHTT--TT-E..EE CS
                   eIF-5a  19 sLmdddgetkeDlklp...eg..elgkqikekfeegkdvlVt 55 
                              s+++++g t +++k     e+  e++++ik++f e+kd +++
  PHY93_11560|PHY93_11560 430 SYLKEEGYTDDQIKNLtsaENieEVKAKIKKRFSEEKDAIIK 471
                              78999999999999665666699***************7775 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.36
                              --EEE.EEGG..GB-HHHHTT--TT-E. CS
                   eIF-5a  25 getkeDlklpegelgkqikekfeegkdv 52 
                              ++++ ++k  +++  k+i+ek +++kd+
  PHY93_11560|PHY93_11560 547 ASLFAEVKSMDQKDSKDIMEKIKNNKDL 574
                              5666778888888888999999888884 PP

>> RNR_N  Ribonucleotide reductase N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   1.2   0.00022       1.3      17      79 ..     395     460 ..     382     462 .. 0.88
   2 ?   -1.2   0.0      0.36   2.1e+03      10      26 ..     481     497 ..     476     503 .. 0.79

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.00022
                    RNR_N  17 iqlekDkeAleaYlkehvnpntvkfesleekld...yLvendYyeeevlekYskefieelyklays 79 
                              ++++k ++A++++  ++  ++    e+l++k +   yL e++Y ++++ +  s e+iee+ +++++
  PHY93_11560|PHY93_11560 395 VNTNKNTDAVTEFGLRQFAKEEALSEKLDDKTNvgsYLKEEGYTDDQIKNLTSAENIEEVKAKIKK 460
                              5789999**********************99855559***********************998875 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 0.36
                    RNR_N  10 lkdedgkiqlekDkeAl 26 
                                 +dg+i+ +kD  Al
  PHY93_11560|PHY93_11560 481 TTVSDGSIDKDKDLSAL 497
                              44568********9997 PP

>> DUF3139  Protein of unknown function (DUF3139)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.1      0.18     1e+03      32      56 ..     147     172 ..     135     189 .. 0.78
   2 ?   11.0   0.4   8.5e-05      0.51      35      59 ..     424     448 ..     407     471 .. 0.78
   3 ?   -2.2   0.1       1.1   6.6e+03      49      64 ..     561     576 ..     514     582 .. 0.56

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.18
                  DUF3139  32 kylankkldkyl..qekgykeddIksi 56 
                               +++ kkld+ l  +++++k+++I + 
  PHY93_11560|PHY93_11560 147 AFFG-KKLDEALngSAQDIKDKKIVTV 172
                              4666.9999999888999999998774 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 8.5e-05
                  DUF3139  35 ankkldkylqekgykeddIksikpk 59 
                              +++++ +yl+e+gy++d+Ik+  ++
  PHY93_11560|PHY93_11560 424 DKTNVGSYLKEEGYTDDQIKNLTSA 448
                              468999**************94433 PP

  == domain 3  score: -2.2 bits;  conditional E-value: 1.1
                  DUF3139  49 keddIks.ikpkydskk 64 
                              + +dI + ik  +d k+
  PHY93_11560|PHY93_11560 561 S-KDIMEkIKNNKDLKE 576
                              2.233323555555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (604 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1282  (0.0715043); expected 358.6 (0.02)
Passed bias filter:                      386  (0.0215294); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.64u 0.21s 00:00:00.85 Elapsed: 00:00:00.42
# Mc/sec: 4309.94
//
Query:       PHY93_11565|PHY93_11565  [L=234]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (234 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       564  (0.0314574); expected 358.6 (0.02)
Passed bias filter:                      332  (0.0185175); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.23s 00:00:00.62 Elapsed: 00:00:00.36
# Mc/sec: 1935.18
//
Query:       PHY93_11570|PHY93_11570  [L=261]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      8e-20   71.0   0.0    1.3e-19   70.3   0.0    1.3  1  Methyltransf_30  S-adenosyl-L-methionine-dependent methyltran


Domain annotation for each model (and alignments):
>> Methyltransf_30  S-adenosyl-L-methionine-dependent methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.3   0.0   7.3e-24   1.3e-19      27     122 ..     139     239 ..     129     241 .. 0.95

  Alignments for each domain:
  == domain 1  score: 70.3 bits;  conditional E-value: 7.3e-24
                              TTTTEEEEEEES-HHHHHHHC-.....T-EEEEEE-SS-TTTSGGGCSHHHHHHHHHHEEEEEEEEES---HHHHHHHHHTT-EEE CS
          Methyltransf_30  27 aaeevtlklligdarealkeld.....ekadawFlDgFsPaknPelwseellkelarllkkkgtlatyssAgavrrgLkeaGfkve 107
                              ++++++++++igd r  l+  +     + +da+F D+FsP+knP+lws+e +  l+ ++++  +l+tyss+  +r++L +a   +e
  PHY93_11570|PHY93_11570 139 SNKKIEVQIYIGDGRLTLPLASrlsliKPLDAIFQDAFSPRKNPTLWSVEWFLFLKSISSQWVQLSTYSSSVRIRKSLLAADWIIE 224
                              567899************99888999999********************************************************* PP

                              EEE-CTCSSEEEEEE CS
          Methyltransf_30 108 krkgfgrKremlkas 122
                                 gf++K+ m+ka+
  PHY93_11570|PHY93_11570 225 DALGFAHKKSMTKAK 239
                              *************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (261 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       493  (0.0274974); expected 358.6 (0.02)
Passed bias filter:                      453  (0.0252663); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 1949.92
//
Query:       PHY93_11575|PHY93_11575  [L=451]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00075   19.7   0.0     0.0025   18.0   0.0    2.0  1  HD_5      HD domain
  ------ inclusion threshold ------
       0.19   12.0   1.3       0.46   10.7   1.3    1.8  1  HD        HD domain


Domain annotation for each model (and alignments):
>> HD_5  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.0   2.8e-07    0.0025       2      51 ..     336     385 ..     335     396 .. 0.92

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 2.8e-07
                     HD_5   2 tLtpeerellqehpeaaarlLsklprlpkdvaeiigqhhErldGsGyPrg 51 
                              +L++++++++  h  +a+ l++k p+ p  + eii +hh   +G+G+ + 
  PHY93_11575|PHY93_11575 336 NLNEQDWDMVFNHAMEASVLIRKHPEAPIGADEIIKHHHGASNGKGFSNS 385
                              699***********************999*****************9765 PP

>> HD  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   1.3   5.2e-05      0.46      25      98 ..     303     383 ..     277     438 .. 0.71

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 5.2e-05
                              HHHHHHHHHHTTTTHHHHTS..HHH..........HHH...CTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHH CS
                       HD  25 rellllaaLlHDiGkgpfgdafekk..........eee...fekflaHekvgaeilrevekrlgldledvaklirehheswegkkr 97 
                               +++  a  +HDi     +d  +k+            +   ++   +H+ ++  ++r++++ +      + ++i++hh+ ++gk++
  PHY93_11575|PHY93_11575 303 FDKIAYASFFHDIMLADRED-LSKInsfdelekanL-NeqdWDMVFNHAMEASVLIRKHPEAPI----GADEIIKHHHGASNGKGF 382
                              55666677777777777665.333357665444351.1567999999****************4....4999*********98866 PP

                              H CS
                       HD  98 p 98 
                               
  PHY93_11575|PHY93_11575 383 S 383
                              5 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (451 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       658  (0.0367003); expected 358.6 (0.02)
Passed bias filter:                      349  (0.0194657); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.43
# Mc/sec: 3145.09
//
Query:       PHY93_11580|PHY93_11580  [L=326]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.4e-69  234.3   2.8    3.4e-67  227.2   2.8    2.0  1  NMO           Nitronate monooxygenase
    1.4e-13   50.6   0.1    5.6e-11   42.0   0.1    2.2  1  IMPDH         IMP dehydrogenase / GMP reductase domain
    8.2e-12   44.8   0.1    1.2e-11   44.2   0.1    1.2  1  FMN_dh        FMN-dependent dehydrogenase
      4e-05   23.0   0.3      6e-05   22.4   0.3    1.4  1  DHO_dh        Dihydroorotate dehydrogenase
    9.5e-05   21.8   0.1    0.00014   21.3   0.1    1.2  1  ThiG          Thiazole biosynthesis protein ThiG
    0.00051   19.6   0.1    0.00094   18.7   0.1    1.5  1  His_biosynth  Histidine biosynthesis protein
     0.0006   19.1   0.0      0.001   18.3   0.0    1.3  1  NanE          Putative N-acetylmannosamine-6-phosphate epimer
     0.0013   18.0   2.1     0.0037   16.5   1.0    2.1  2  Glu_synthase  Conserved region in glutamate synthase
     0.0017   17.8   0.3     0.0068   15.8   0.1    2.1  2  G3P_antiterm  Glycerol-3-phosphate responsive antiterminator
     0.0032   16.6   0.0     0.0069   15.5   0.0    1.6  2  Dus           Dihydrouridine synthase (Dus)
     0.0088   15.2   0.4       0.03   13.5   0.2    1.9  2  DUF561        Protein of unknown function (DUF561)
  ------ inclusion threshold ------
      0.012   14.9   0.3      0.025   13.9   0.3    1.7  1  TMP-TENI      Thiamine monophosphate synthase
      0.032   14.2   0.2       0.18   11.8   0.1    2.2  2  ADH_zinc_N    Zinc-binding dehydrogenase
       0.08   12.9   0.0       0.23   11.5   0.0    1.8  1  DUF2103       Predicted metal-binding protein (DUF2103)


Domain annotation for each model (and alignments):
>> NMO  Nitronate monooxygenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  227.2   2.8   2.7e-70   3.4e-67       4     330 ..      16     315 ..      14     316 .. 0.93

  Alignments for each domain:
  == domain 1  score: 227.2 bits;  conditional E-value: 2.7e-70
                      NMO   4 ltellkikppvvqpgmggiskarLaaavsnaGgLGvlasgyltaDrlakeirkvkaltdkPfgvnlflpkkdaadraekykkelee 89 
                              +t+l++i++p++q+gm ++s+ +Laaavs aGgLG++++g + +  l+  i+k+++lt+kP+gvn+ l  ++  ++          
  PHY93_11580|PHY93_11580  16 ITKLFGINYPIIQGGMVWVSGGKLAAAVSRAGGLGIIGAGSMQPELLQRHITKAQSLTSKPIGVNVPLLYEKSHEQ---------- 91 
                              6899**************************************************************9999999888.......... PP

                      NMO  90 aalelnieegvrfyrkvevvldekvevvsfgfglpteevvarlkeagvvliptissvkearkvearGaDalivqGpeaGGhqGtpe 175
                                  ++   g++               + f+ +  +++    lk+ g+ ++ +is+ ++a   e++G Da++++G eaGGh+G  e
  PHY93_11580|PHY93_11580  92 --IDMALSLGIK---------------IFFTSAGSPKKYTSYLKDHGATIVHVISTPEQALNCEEAGVDAVVAEGFEAGGHNGRDE 160
                              ..6788999999...............566666666999********************************************666 PP

                      NMO 176 vgdkglfaLvpqvldavdiPviAaGGiidrrgvaaaLalGAsgvqigtrfLltkesdakdahkkklleaklddteltsavsGrpaR 261
                              +    +++L+pqv+ +++iP+iAaGGi d++ + aaL+lGA +vq+gtrfL+t es a++  k+ lle+    t+   +    p R
  PHY93_11580|PHY93_11580 161 I---TTLTLIPQVKRVIKIPLIAAGGIADGKSILAALSLGADAVQMGTRFLMTRESSAHENFKNLLLESTASSTKTLMRST-IPVR 242
                              6...6**********************************************************************998888.9*** PP

                      NMO 262 alatelleelee....akiatlalpeahelakk.iraalveagnteegllwagqgidrldkiisvkeLiesLve 330
                               l++++ +e+ +    ++++ l+ + +++l k   r++++e+ + e+g l +gq+   +++i+sv+++ ++L++
  PHY93_11580|PHY93_11580 243 LLNNKFAREIMQieqsFHGENLKQKLNEHLGKMrARQGMLEG-DLENGELEVGQVVSLIKNIPSVEDVFKELLQ 315
                              ********99987767777888777766766667899****9.*****************************97 PP

>> IMPDH  IMP dehydrogenase / GMP reductase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.0   0.1   4.4e-14   5.6e-11      26     249 ..      15     217 ..      11     224 .. 0.79

  Alignments for each domain:
  == domain 1  score: 42.0 bits;  conditional E-value: 4.4e-14
                              ESSTTEEESSSEEE-SSTTT-SHHHHHHHHHTTSEEEE-S.SS-HHHHHHHHHHHHTSTTSXBXTTSXB-EEEEE-S.STTHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxx RF
                    IMPDH  26 kltkkiklniPlvsaamdtvtesemAialareGgigvihk.nlsieeqaeevkkvkrspnaakdekgrllvgaavgv.kedalerv 109
                              k+tk + +n P++   m +v++ ++A a++r+Gg+g+i   ++++e   ++++k ++             +g  v    e+++e++
  PHY93_11580|PHY93_11580  15 KITKLFGINYPIIQGGMVWVSGGKLAAAVSRAGGLGIIGAgSMQPELLQRHITKAQSL--------TSKPIGVNVPLlYEKSHEQI 92 
                              6889999*******************************65278888888888877733........22344555543134678899 PP

                              HHHHHTT-SEEEEE-STSSSHHHHHHHHHHHHHTTTSEEEEEEE-SHHHHHHHHHTT-SEEEE.-SS-STTBHHHHHCSB---HHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxx RF
                    IMPDH 110 kalveagvdvlvvdsahghsekvleavkeikkkveeveviaGnvataegakaLieagadavkv.GiGpGsiCttrvvagvGvpqlt 194
                              ++ ++ g+ + +  ++ g  +k ++ +k   +++      +  + t e+a +  eag+dav   G  +G           G+ ++t
  PHY93_11580|PHY93_11580  93 DMALSLGIKIFF--TSAGSPKKYTSYLKDHGATI------VHVISTPEQALNCEEAGVDAVVAeGFEAGG--------HNGRDEIT 162
                              999999988876..67788877776666555444......445789999999999999997432666664........46999999 PP

                              HHHHHHHHHCTCT-EEEEES---SHHHHHHHHHTT-SEEEESCCCTTBTTSSSEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    IMPDH 195 AvaevaeaakkagvpviaDGGikysgdivkAlaaGadavmlGsllagteEspgev 249
                               ++ + ++ +  ++p+ia GGi   + i  Al++Gadav +G  +  t+Es ++ 
  PHY93_11580|PHY93_11580 163 TLTLIPQVKRVIKIPLIAAGGIADGKSILAALSLGADAVQMGTRFLMTRESSAHE 217
                              9999999999999999999999999999999999999999999999999998765 PP

>> FMN_dh  FMN-dependent dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.2   0.1   9.5e-15   1.2e-11     220     306 ..     124     210 ..     113     237 .. 0.87

  Alignments for each domain:
  == domain 1  score: 44.2 bits;  conditional E-value: 9.5e-15
                              EEEEE-SHHHHHHHHHTTESEEEE-..-GGGTSSTT---HHHCHHHHHHHH..SS-EEEESS--SHHHHHHHHHTT-SEEEESHHH CS
                   FMN_dh 220 vvKGvltaedakraveaGvdgivvS..NHGGRqldgapatidvLpeiveavggrievlvDgGirrGsDvlkAlalGAdavllGRpf 303
                              +v  + t+e a ++ eaGvd++v      GG++ +  ++t+  +p++ + ++  i++++ gGi  G+ +l Al lGAdav +G  f
  PHY93_11580|PHY93_11580 124 IVHVISTPEQALNCEEAGVDAVVAEgfEAGGHNGRDEITTLTLIPQVKRVIK--IPLIAAGGIADGKSILAALSLGADAVQMGTRF 207
                              677799***************98863369******************99997..*****************************999 PP

                              HHH CS
                   FMN_dh 304 lyg 306
                              l+ 
  PHY93_11580|PHY93_11580 208 LMT 210
                              876 PP

>> DHO_dh  Dihydroorotate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.4   0.3   4.7e-08     6e-05     216     284 ..     148     215 ..      58     224 .. 0.80

  Alignments for each domain:
  == domain 1  score: 22.4 bits;  conditional E-value: 4.7e-08
                              T..SSEEEEEGGGHHHHHHHHHHHHHHTTT.S-EEEESS--SHHHHHHHHHHTECEEEESHHHHHHGTCHH CS
                   DHO_dh 216 n..ktGGlsGkalkdialkvirelykrlkkeipiIgvGGiesgeDalekieaGAslvqvytalvfegpkia 284
                              +  ++GG  G+    + l +i ++++++k  ip+I+ GGi  g+  l  +  GA +vq++t +  +   +a
  PHY93_11580|PHY93_11580 148 EgfEAGGHNGRD-EITTLTLIPQVKRVIK--IPLIAAGGIADGKSILAALSLGADAVQMGTRFLMTRESSA 215
                              334667777765.3456788999999999..******************************9877666555 PP

>> ThiG  Thiazole biosynthesis protein ThiG
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.1   1.1e-07   0.00014     130     206 ..     127     206 ..     111     218 .. 0.81

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 1.1e-07
                              E-S-HHHHHHHHHTT-SEBEEBSSSTTS----S-HHHHHHH..HHH-.SS-BEEES---SHHHHHHHHHTT-SEEEESHH CS
                     ThiG 130 vsdDlvlarrleevGcaavmPlaapiGsglGllnkealkii..ieea.kvPvivDAGigspsdaaqamelGadavllnta 206
                              v   +  a + ee+G+ av+  +   G  +G  + ++l++i  ++++ k+P+i   Gi   + + +a+ lGadav + t 
  PHY93_11580|PHY93_11580 127 VISTPEQALNCEEAGVDAVVAEGFEAGGHNGRDEITTLTLIpqVKRViKIPLIAAGGIADGKSILAALSLGADAVQMGTR 206
                              555566788899*******************98888888773333445***************************99886 PP

>> His_biosynth  Histidine biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   0.1   7.3e-07   0.00094      60     106 ..     162     208 ..     105     218 .. 0.65

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 7.3e-07
                              HHHHHHHHHHHH-SSEEEEESSSSSHHHHHHHHHCT-SEEEESHHHH CS
             His_biosynth  60 anldlveeiaeevfipvqvGGGIrsledveelleagadkviigtaav 106
                              + l+l+ ++ + ++ip+   GGI + +++ ++l++gad v +gt  +
  PHY93_11580|PHY93_11580 162 TTLTLIPQVKRVIKIPLIAAGGIADGKSILAALSLGADAVQMGTRFL 208
                              34456666666666666666666666666666666666666666544 PP

>> NanE  Putative N-acetylmannosamine-6-phosphate epimerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.0   7.9e-07     0.001      87     188 ..     116     221 ..     108     225 .. 0.81

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 7.9e-07
                              HHHHH--EEEEE-SSHHHHHHHHHTT-SEEE-.TTTTSSTTS-.SS--HHHHHHHHHT.T--EEEES---SHHHHHHHHTT--SEE CS
                     NanE  87 kikekyqllmaDistleeglvakklGvdivGt.tlsGytkeeekaepDfalvkalsea.glkviaeGrintPekakkaieiGvdav 170
                               +k+++  ++  ist e++l+++++Gvd v +  +    ++ +++   ++l+ +++   ++ +ia G i   +    a+ +G+dav
  PHY93_11580|PHY93_11580 116 YLKDHGATIVHVISTPEQALNCEEAGVDAVVAeGFEAGGHNGRDEITTLTLIPQVKRViKIPLIAAGGIADGKSILAALSLGADAV 201
                              578999999999****************8754144444455555788999999998743899************************ PP

                              EE-HH..HH-HHHHHHHHHH CS
                     NanE 171 vvGsa..itrleeiakkfve 188
                               +G+   +tr +   + f +
  PHY93_11580|PHY93_11580 202 QMGTRflMTRESSAHENFKN 221
                              ***85336888877777765 PP

>> Glu_synthase  Conserved region in glutamate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.0      0.34   4.4e+02      57     136 ..      15      88 ..       3     102 .. 0.68
   2 !   16.5   1.0   2.9e-06    0.0037     273     309 ..     174     210 ..     124     217 .. 0.90

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.34
                              GS--HHHHHTTEE---B-TTTS-HHHHHHHHHHHHHHT-B-EETTS---GGGGS-----SEEEE-TT-TT--HHHHHH-S CS
             Glu_synthase  57 evepalkikkriltsamSyGalseeahealakamnrlgtksntGEGGedeerlktakdvaikQvasgrFGvteeyLnnak 136
                              ++ + + i+ +i++++m + +        la a++r+g+    G G +++e l+ +       ++s   Gv+   L + +
  PHY93_11580|PHY93_11580  15 KITKLFGINYPIIQGGMVWVSG-----GKLAAAVSRAGGLGIIGAGSMQPELLQRHITK-AQSLTSKPIGVNVPLLYEKS 88 
                              6666777777777777766443.....45889999999999999999999888776665.45566666777755554444 PP

  == domain 2  score: 16.5 bits;  conditional E-value: 2.9e-06
                              GG-EEEEESS--SHHHHHHHHHHT-SEEE-SHHHHHH CS
             Glu_synthase 273 drvsliadGglktgadvvkalalGAdavgigtaalia 309
                               ++ lia+Gg+  g+ ++ al lGAdav++gt  l++
  PHY93_11580|PHY93_11580 174 IKIPLIAAGGIADGKSILAALSLGADAVQMGTRFLMT 210
                              47889***************************98875 PP

>> G3P_antiterm  Glycerol-3-phosphate responsive antiterminator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0       1.7   2.1e+03     138     148 ..      22      32 ..      11      41 .. 0.81
   2 !   15.8   0.1   5.3e-06    0.0068     129     169 ..     165     205 ..     161     209 .. 0.91

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 1.7
                              ...EEEEESS- CS
             G3P_antiterm 138 lkipiiaGGLi 148
                              ++ pii GG++
  PHY93_11580|PHY93_11580  22 INYPIIQGGMV 32 
                              5889*****98 PP

  == domain 2  score: 15.8 bits;  conditional E-value: 5.3e-06
                              HHHCTSTTS...EEEEESS--SHHHHHHHCTT.SSEEEE-- CS
             G3P_antiterm 129 kvikeikkelkipiiaGGLietkedveealkaGaiavstsn 169
                               +i ++k+ +kip+ia+G i + + + +al+ Ga+av  ++
  PHY93_11580|PHY93_11580 165 TLIPQVKRVIKIPLIAAGGIADGKSILAALSLGADAVQMGT 205
                              67999********************************8876 PP

>> Dus  Dihydrouridine synthase (Dus)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0       2.4   3.1e+03     106     138 ..      58      90 ..      53     101 .. 0.77
   2 !   15.5   0.0   5.4e-06    0.0069     170     215 ..     162     206 ..     128     287 .. 0.75

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 2.4
                              SHHHHHHHHHHHHCCSSS-EEEEEESESSTTTC CS
                      Dus 106 kpdlvaqivkavvkaveiPvtvkirigiddeee 138
                              +p+l+++ ++++++ ++ P+ v + +  ++++e
  PHY93_11580|PHY93_11580  58 QPELLQRHITKAQSLTSKPIGVNVPLLYEKSHE 90 
                              688888888888888888888888877776665 PP

  == domain 2  score: 15.5 bits;  conditional E-value: 5.4e-06
                              --CHHHHHHHHH-SS-EEEESS--SHHHHHHHHHHH--SEEEESCH CS
                      Dus 170 adweaIkevkqavsipviaNGdIkdaedaqaileetGadgvmigrg 215
                                +  I +vk+ ++ip+ia G+I d +++ a+l+  Gad+v +g  
  PHY93_11580|PHY93_11580 162 TTLTLIPQVKRVIKIPLIAAGGIADGKSILAALSL-GADAVQMGTR 206
                              4566799***************************9.*****77754 PP

>> DUF561  Protein of unknown function (DUF561)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0       0.5   6.3e+02     117     150 ..      73     104 ..      64     140 .. 0.68
   2 !   13.5   0.2   2.3e-05      0.03     125     216 ..     124     206 ..     118     233 .. 0.70

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.5
                   DUF561 117 PktdlsvtiPyiL.kleeqvkLakkLeslgvdliq 150
                               + ++ v +P +  k +eq+++a +L   g+ +  
  PHY93_11580|PHY93_11580  73 TSKPIGVNVPLLYeKSHEQIDMALSL---GIKIFF 104
                              56688999999873568999999754...555554 PP

  == domain 2  score: 13.5 bits;  conditional E-value: 2.3e-05
                   DUF561 125 iPyiLkleeqvkLakkLeslgvdliqteGkitsiskakkvndliekslstlastyeiskkvslPvicasGlsdv.tvplalslgas 209
                              i ++++  eq   a + e++gvd + +eG  ++        ++ +  ++tl+ + ++ +++++P+i+a G++d  ++  alslga 
  PHY93_11580|PHY93_11580 124 IVHVISTPEQ---ALNCEEAGVDAVVAEG-FEAG------GHNGRDEITTLTLIPQVKRVIKIPLIAAGGIADGkSILAALSLGAD 199
                              5555555555...3445667777777777.2221......122344567899999****************986156668999999 PP

                   DUF561 210 GiGigsa 216
                               + +g  
  PHY93_11580|PHY93_11580 200 AVQMGTR 206
                              9887765 PP

>> TMP-TENI  Thiamine monophosphate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.3     2e-05     0.025      96     174 ..     121     200 ..      56     207 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 2e-05
                 TMP-TENI  96 dliiGlSvhsleeaeeaealgadYigvGpifpTdtKkda.eplgleglkelaealeiPvvaiGGitl.envaevleagadg 174
                              ++ i   ++++e+a++ e++g+d +++  + +   ++++ e   l+++ ++++ ++iP++a GGi   +++ ++l  gad 
  PHY93_11580|PHY93_11580 121 GATIVHVISTPEQALNCEEAGVDAVVAEGF-EAGGHNGRdEITTLTLIPQVKRVIKIPLIAAGGIADgKSILAALSLGADA 200
                              55666668899************9988666.777777777*************************7513444455556655 PP

>> ADH_zinc_N  Zinc-binding dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.0      0.69   8.9e+02      22      70 ..      87     111 ..      73     120 .. 0.59
   2 ?   11.8   0.1   0.00014      0.18       9      42 ..     116     154 ..     112     238 .. 0.74

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.69
                              SSHHHHHHHHHTTESEEEETTTCHHHHHHHHHTTTSSEEEEEESSCSHH CS
               ADH_zinc_N  22 sseeklelakklGadevinykeadlverikeltggegvdvvfecvGsga 70 
                               s+e++++a +lG + ++++                        +Gs++
  PHY93_11580|PHY93_11580  87 KSHEQIDMALSLGIKIFFTS------------------------AGSPK 111
                              45566666666666665555........................33333 PP

  == domain 2  score: 11.8 bits;  conditional E-value: 0.00014
                              HHHHTT-EEEEEESSHHHHHHHHHTTESEEEET.....T CS
               ADH_zinc_N   9 lAkalGaeviavdsseeklelakklGadeviny.....k 42 
                              ++k  Ga+++ v s++e++  +++ G+d+v+ +      
  PHY93_11580|PHY93_11580 116 YLKDHGATIVHVISTPEQALNCEEAGVDAVVAEgfeagG 154
                              78999**************************99665441 PP

>> DUF2103  Predicted metal-binding protein (DUF2103)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00018      0.23      14      78 ..     152     219 ..     147     234 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00018
                  DUF2103  14 iggreGkkllekiakhpevkkviPgvi.kakgsssggglrvkvt.rad.erGnlrlllrdgssvQevf 78 
                               gg +G+  +++++ +p+vk+vi  ++  a+g ++g+ + + ++  ad  + + r l++ +ss+ e+f
  PHY93_11580|PHY93_11580 152 AGGHNGRDEITTLTLIPQVKRVIKIPLiAAGGIADGKSILAALSlGADaVQMGTRFLMTRESSAHENF 219
                              58999*****************9887747777666666655554233312344888888888888876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (326 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       658  (0.0367003); expected 358.6 (0.02)
Passed bias filter:                      570  (0.0317921); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.55u 0.22s 00:00:00.77 Elapsed: 00:00:00.36
# Mc/sec: 2679.31
//
Query:       PHY93_05645|PHY93_05645  [L=366]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-38  133.0  17.0    1.5e-38  132.8  17.0    1.0  1  ABC2_membrane_3  ABC-2 family transporter protein
    2.7e-30  105.4  18.8    2.4e-29  102.2  15.8    2.4  3  ABC2_membrane    ABC-2 type transporter
    1.8e-27   96.4  14.7    2.8e-27   95.7  14.7    1.3  1  ABC2_membrane_2  ABC-2 family transporter protein
  ------ inclusion threshold ------
      0.089   13.0   0.3       0.51   10.5   0.0    2.3  2  Popeye           Popeye protein conserved region
       0.27   10.8  26.0       0.57    9.7  24.3    2.3  2  ABC2_membrane_5  ABC-2 family transporter protein
        4.8    7.1  24.4       0.11   12.4  15.5    2.6  3  ABC2_membrane_4  ABC-2 family transporter protein


Domain annotation for each model (and alignments):
>> ABC2_membrane_3  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  132.8  17.0   5.1e-42   1.5e-38       7     344 ..      28     360 ..      23     361 .. 0.87

  Alignments for each domain:
  == domain 1  score: 132.8 bits;  conditional E-value: 5.1e-42
          ABC2_membrane_3   7 tlllPiilvlllglifsnsveddentpiavvdednsslsqqlvealeaspsvelvyevdseeeakkalkngdidgilvipkgfskd 92 
                               ++ Pii ++l+g+++s++v   +n+++ ++ ++n++  +++++   +s+ +       s+ +   ++  +++d++lv p   + d
  PHY93_05645|PHY93_05645  28 LFVAPIIQMTLFGVAISSDV---KNVRLSYIPHTNDTVLEHVYQRAIKSGWFI--PARVSTRDPFGQIHANEADAVLVAPPEGLTD 108
                              6899**********998766...9**********9777788888888888887..677778889999************8888888 PP

          ABC2_membrane_3  93 llkgesatvtvlinssnlnsskailnalns.llqqlnasalvlqseatstsaninvestqleeelsnvasflvg.liliilifita 176
                                   + +v++lin+sn++ +++i+n++ns +++  ++++l    + + + a+i+++++ l++++  +a ++v+ ++  ++ +it+
  PHY93_05645|PHY93_05645 109 SIARGRGQVQLLINASNVLRAQSIENYMNSiFSNV-IQKDL----NRKRNIAPIHFDIRILYNPTIRTAVYMVPgVMSTLICLITI 189
                              8889999***********************55555.55554....5889999*************888888888777788889999 PP

          ABC2_membrane_3 177 sfiavsiveEkesrikelqlvsgvsplqywlskilgdflvyllqlllill...lafglgipfg.nlglllllfllfglayialgyl 258
                              + +++si +Eke+++ e++++++ ++++++l+k l + ++++  + lil+   ++f+  +p+  ++++l+l +++f  +++++g+l
  PHY93_05645|PHY93_05645 190 TLTSMSISKEKETGTFEMLVSAPTKKWEIILGKTLPYIVLGVSNVPLILGvavFVFD--VPMRgSFLVLILSSIIFVCTTVSIGTL 273
                              999***************************************666444442346999..****5555666**************** PP

          ABC2_membrane_3 259 lsslfknsetaqilifivilllsgffgglfpledlpsalkwifsiiPffapglgllrli.tgdplweillsliilalfavvyllla 343
                              +s l+k++   + + f+++++++ ++g++fp+e++p ++k i++++P++++ ++l +++ +g     il ++++l+l+++v++ ++
  PHY93_05645|PHY93_05645 274 ISILTKTQQQSMMASFLFLFPAIQLSGMTFPIENMPPYMKFIAYLNPLTYFLELLRNIMlKGGDTRLILSHFAVLILMGAVLITIS 359
                              *************9******999999999*****************************95444344488**************998 PP

          ABC2_membrane_3 344 l 344
                              +
  PHY93_05645|PHY93_05645 360 F 360
                              7 PP

>> ABC2_membrane  ABC-2 type transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.7   0.0   4.2e-05      0.13       7      41 ..      11      44 ..       5      62 .. 0.88
   2 !  102.2  15.8   8.2e-33   2.4e-29      52     210 .]     168     333 ..     117     333 .. 0.90
   3 ?   -4.8   1.5       4.6   1.4e+04     102     118 ..     342     358 ..     340     360 .. 0.52

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 4.2e-05
            ABC2_membrane  7 lkreflqrwrdpslgllwrliqplllalvfgtvfg 41
                             +++ef+q +rdp +  ++ ++ p++++++fg++++
  PHY93_05645|PHY93_05645 11 IRKEFIQTLRDPKMR-ALLFVAPIIQMTLFGVAIS 44
                             799************.99*************9988 PP

  == domain 2  score: 102.2 bits;  conditional E-value: 8.2e-33
            ABC2_membrane  52 r........pgllffsvlflafsaltsvapvferergvlerelvsplyslsayvlakvlvelpvsllqalifllivyflvgldls. 128
                                       pg++ +++  ++ ++lts++++ e+e g++e + ++p+ + ++++l+k+l ++++++  + ++l +++f++++++  
  PHY93_05645|PHY93_05645 168 TirtavymvPGVMSTLICLIT-ITLTSMSISKEKETGTFEMLVSAPT-KKWEIILGKTLPYIVLGVSNVPLILGVAVFVFDVPMRg 251
                              044444445************.99***********************.************************************99 PP

            ABC2_membrane 129 rfflflllllltalaasslgllisalapsfedasqlaslvllpllllsGffipidsmpkwlqwiaylnPltyavealrsnlf 210
                              +f+ ++l  ++++++++s+g lis+l++++++ ++ ++l+l+p + lsG+ +pi++mp ++++iaylnPlty++e+lr++++
  PHY93_05645|PHY93_05645 252 SFLVLILSSIIFVCTTVSIGTLISILTKTQQQSMMASFLFLFPAIQLSGMTFPIENMPPYMKFIAYLNPLTYFLELLRNIML 333
                              99*******************************************************77********************986 PP

  == domain 3  score: -4.8 bits;  conditional E-value: 4.6
            ABC2_membrane 102 lvelpvsllqaliflli 118
                              l++++v +l+++++++i
  PHY93_05645|PHY93_05645 342 LSHFAVLILMGAVLITI 358
                              45555555555555554 PP

>> ABC2_membrane_2  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   95.7  14.7   9.5e-31   2.8e-27       4     285 ..      11     365 ..       9     366 .] 0.78

  Alignments for each domain:
  == domain 1  score: 95.7 bits;  conditional E-value: 9.5e-31
          ABC2_membrane_2   4 akkEfrdlvrsrrfllltvllpli.............................................................. 27 
                              ++kEf++++r++++ +l ++ p+i                                                              
  PHY93_05645|PHY93_05645  11 IRKEFIQTLRDPKMRALLFVAPIIqmtlfgvaissdvknvrlsyiphtndtvlehvyqraiksgwfiparvstrdpfgqihanead 96 
                              79************************966666666666555555555555555555555555555555555555555555555555 PP

          ABC2_membrane_2  28 dvalaylkdlgsslqseakaikeatlaleyveaasasdeaedtdqdlkv..................................... 76 
                               v +a+ + l +s  ++ ++++ +  a  +++a               +                                     
  PHY93_05645|PHY93_05645  97 AVLVAPPEGLTDSIARGRGQVQLLINASNVLRA---------------Qsienymnsifsnviqkdlnrkrniapihfdirilynp 167
                              455555555555555555555555555555555...............0555555555566667********************** PP

          ABC2_membrane_2  77 ........vstimavlipviaalfgadaiagEkergTlkllLskPvsRdeillgKfigglaigla.iavallatvllalaiilalg 153
                                      v++ m++li++i +++++ +i++Eke gT + l s P  ++ei+lgK + ++++g+  + ++l+++v +         
  PHY93_05645|PHY93_05645 168 tirtavymVPGVMSTLICLITITLTSMSISKEKETGTFEMLVSAPTKKWEIILGKTLPYIVLGVSnVPLILGVAVFV--------F 245
                              **************************************************************999988888888554........4 PP

          ABC2_membrane_2 154 ivlaledllllvvasvlllllvvflalglllSsvarssreaaalalglfvvlailvpivlygvaellagpavpqeindflsllspt 239
                              +v+  +++l+l+++s++++   + +++g+l+S++++++++++ ++ +lf++ ai  +++ +++ +++ ++++       + +l+p 
  PHY93_05645|PHY93_05645 246 DVPMRGSFLVLILSSIIFVC--TTVSIGTLISILTKTQQQSMMAS-FLFLFPAIQLSGMTFPIENMPPYMKF-------IAYLNPL 321
                              56666778888888888888..559***********777777666.6999999***************8888.......******* PP

          ABC2_membrane_2 240 sayntllneilagsdlnalgstatnllilllllavllvlgyvlFkr 285
                               ++  ll+ i   ++     +  +++++l+l+ avl+ +++  Fk+
  PHY93_05645|PHY93_05645 322 TYFLELLRNIMLKGGDT--RLILSHFAVLILMGAVLITISFKKFKN 365
                              ***99999988777544..688899999999999999999988875 PP

>> Popeye  Popeye protein conserved region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   0.00017      0.51      77     133 ..      56     151 ..      31     153 .. 0.81
   2 ?   -1.4   0.3      0.79   2.4e+03      26      41 ..     261     276 ..     230     303 .. 0.58

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00017
                              xxxxxxxxxxxxxx.....xxxxxxxx.xxxxxxxxxxxxxxxx.................................xxxxxxxxx RF
                   Popeye  77 pvkfekeleelYkk.....lFqplkvs.rkeFkklvseeeakil.................................eryLaavfs 123
                              p++ +  le++Y++      F p +vs r+ F ++  +e+  +l                                 e+y++++fs
  PHY93_05645|PHY93_05645  56 PHTNDTVLEHVYQRaiksgWFIPARVStRDPFGQIHANEADAVLvappegltdsiargrgqvqllinasnvlraqsiENYMNSIFS 141
                              555566677777762222258899996367799999977666669***************************************** PP

                              xxxxxxxxxx RF
                   Popeye 124 vligkDiteK 133
                              ++i kD  +K
  PHY93_05645|PHY93_05645 142 NVIQKDLNRK 151
                              ******9998 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.79
                              xxxxxxxxxxxxxxxx RF
                   Popeye  26 llvlrsllvlGfllla 41 
                              ++++ +++ +G+l+++
  PHY93_05645|PHY93_05645 261 IIFVCTTVSIGTLISI 276
                              2333333333333333 PP

>> ABC2_membrane_5  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0       1.6   4.8e+03      45     161 ..      32      40 ..      12      57 .. 0.51
   2 ?    9.7  24.3   0.00019      0.57      38     187 ..     178     318 ..     144     364 .. 0.67

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 1.6
          ABC2_membrane_5  45 lvisiililttlsyDekskwnkylltLPvtrkeiVksKYlfvlililiailitlllliiavlikgnvtisevllsiliglvialif 130
                              ++i ++l                                                                               
  PHY93_05645|PHY93_05645  32 PIIQMTL------------------------------------------------------------------------------- 38 
                              2222222............................................................................... PP

          ABC2_membrane_5 131 laivlPlyfkfgvekgrivliiiifgiifll 161
                                                           ++
  PHY93_05645|PHY93_05645  39 -----------------------------FG 40 
                              .............................22 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.00019
          ABC2_membrane_5  38 lifsilslvisiililttlsyDekskwnkylltLPvtrkeiVksKYlfvlililiailitlllliiavlikgnvtisevllsilig 123
                               ++s l+++i+i+l  +++s+++  ++  +l++ P +++ei+  K l +++l+++ + ++l +++   ++  ++   ++l  il +
  PHY93_05645|PHY93_05645 178 GVMSTLICLITITLTSMSISKEKETGTFEMLVSAPTKKWEIILGKTLPYIVLGVSNVPLILGVAV--FVFDVPMR-GSFLVLILSS 260
                              3466667777777778*******************************999999988777665552..34444443.3334444555 PP

          ABC2_membrane_5 124 lvialiflaivlPlyfkfgvekgrivliiiifgiifllvaifslsklelslidlsnyilliill 187
                              ++++++ ++i   + ++++++   +++ +++++     +  ++ls+ ++ +++++ y+ +i +l
  PHY93_05645|PHY93_05645 261 IIFVCTTVSIGTLISILTKTQQQSMMASFLFLF-----P-AIQLSGMTFPIENMPPYMKFIAYL 318
                              555555555555555555544444333322222.....2.345566666666777666666554 PP

>> ABC2_membrane_4  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0       2.2   6.7e+03      18     102 ..      28      36 ..      12      52 .. 0.52
   2 ?   12.4  15.5   3.7e-05      0.11      56     177 ..     180     293 ..     164     318 .. 0.67
   3 ?   -0.5   0.4      0.35   1.1e+03      92     114 ..     338     360 ..     336     363 .. 0.80

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 2.2
          ABC2_membrane_4  18 lvlaallvpllallyfnllgktgldpaefyslsvfgftlllllplilgiiasylifrEeqndtlknLltiPvsrtklllaKlivl 102
                              l++a+++                                                                             +
  PHY93_05645|PHY93_05645  28 LFVAPIIQ----------------------------------------------------------------------------M 36 
                              22222221............................................................................1 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 3.7e-05
          ABC2_membrane_4  56 lllllplilgi.iasylifrEeqndtlknLltiPvsrtklllaKlivllllsvllmlvtflitvlfallsgfvgfsvklvlellkk 140
                              + + l ++++i ++s++i++E++ +t+  L+  P ++ +++l+K +  ++l v  + +  ++ v++      ++f+v +  ++l+ 
  PHY93_05645|PHY93_05645 180 MST-LICLITItLTSMSISKEKETGTFEMLVSAPTKKWEIILGKTLPYIVLGVSNVPL--ILGVAV------FVFDVPMRGSFLVL 256
                              344.4455555389******************************99876665533322..222111......22344444455555 PP

          ABC2_membrane_4 141 clelgllvffavlpiialvllkksyvlpliltlvyti 177
                              +l  +++v+ +v+   ++++l+k++  +++ ++++ +
  PHY93_05645|PHY93_05645 257 ILSSIIFVCTTVSIGTLISILTKTQQQSMMASFLFLF 293
                              5555555555555445566666666666666555555 PP

  == domain 3  score: -0.5 bits;  conditional E-value: 0.35
          ABC2_membrane_4  92 tklllaKlivllllsvllmlvtf 114
                              t+l+l+ ++vl+l+ ++l+ ++f
  PHY93_05645|PHY93_05645 338 TRLILSHFAVLILMGAVLITISF 360
                              67888999999998888887765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (366 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       757  (0.0422221); expected 358.6 (0.02)
Passed bias filter:                      353  (0.0196888); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.40
# Mc/sec: 2732.81
//
Query:       PHY93_11585|PHY93_11585  [L=300]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.3e-37  127.5   0.0    7.1e-37  127.1   0.0    1.2  1  Peptidase_M48    Peptidase family M48
    6.4e-05   22.3   0.0    0.00011   21.5   0.0    1.4  1  Peptidase_M56    BlaR1 peptidase M56
  ------ inclusion threshold ------
      0.015   15.2   0.0      0.023   14.5   0.0    1.3  1  SprT-like        SprT-like family
        1.3    9.3  12.2        4.5    7.5   8.8    2.2  2  RDD              RDD family
          3    8.2  16.2       0.37   11.2   0.7    2.6  3  DUF4199          Protein of unknown function (DUF4199)


Domain annotation for each model (and alignments):
>> Peptidase_M48  Peptidase family M48
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  127.1   0.0     2e-40   7.1e-37       4     194 ..      79     296 ..      76     298 .. 0.90

  Alignments for each domain:
  == domain 1  score: 127.1 bits;  conditional E-value: 2e-40
                              SSHHHHHHHHHHHHTT-..-EEEEEEE-GGGT-EEEEESSS-E.EEEEEHHHH-SSB-HHHHHHHHHHHHHHHHTTHHHHH.HHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxx RF
            Peptidase_M48   4 eaelkevveelakeaglpkpltkvyvvnspkrNAFalgggknk.rivltdgLlkqllseeelaaVlGHElGHikhrhsvvs.livs 87 
                               ++l ++v++l ++agl  ++++v +++++ +NAFa+g + n+  +++++gLl   ++e+el++VlGHE++Hi+++++v++ l+++
  PHY93_11585|PHY93_11585  79 HKNLVDTVHRLSRRAGL-TEMPEVGIYQNQIMNAFATGPSRNNsLVAVSTGLL-GSMNESELEGVLGHEVAHIANGDMVTMaLVQG 162
                              5788899**********.999********************999*********.***************************99999 PP

                              HHHHHHHHHHHHHHTT-SHHHHHTT--S---HHHHHHHHHHTT..............HHHHHHHHHHHHHHHHTTT.HHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..............xxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48  88 llasillllglallisraeedaagafldalavliglliillfl..............alSRkrEyqADeagvellkrakdlvrali 159
                              +++ +++++ ++++++ +++   +   d+ +  ++  ++l+f+              ++SR+rEy+AD+ g+ l+  +++++ al+
  PHY93_11585|PHY93_11585 163 VVNAFVMFFSRIAAFAITQAMSDKDDRDSRPSPFIQ-MMLVFVldiifgilaspivaWFSRYREYRADRGGADLAG-KEKMIAALQ 246
                              9*********99999999999999888888888654.4444445889999**************************.********* PP

                              HHHHHTT--S---HHHH...............HHS-SS--HHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxx...............xxxxxxxxxxxxxxxxxx RF
            Peptidase_M48 160 klakdlerqdvsaslrs...............ellstHPplleRiqalke 194
                               l++ + + +  +++ +                ++s+HPpl++Ri+ l++
  PHY93_11585|PHY93_11585 247 ALSRAYPQLELVKEESNpnfksmqisskdaamRIFSSHPPLASRIAMLQN 296
                              *******96555555555666888889999999*************9975 PP

>> Peptidase_M56  BlaR1 peptidase M56
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.0   3.2e-08   0.00011     112     221 ..      52     163 ..      40     187 .. 0.71

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 3.2e-08
            Peptidase_M56 112 galilllyliaallvlkkr.fvrklgklraeelkeaLkeakeemqlkrniki.rlsssidsPavlgllkp..rIvlPadflkklsd 193
                              g+li ll + + + ++    +v  +g+ ++  l++ ++  +++ +l   +++  ++++i + + +g  ++   + +++ +l ++++
  PHY93_11585|PHY93_11585  52 GSLISLLLSKKMAKWMMGVqLVTLEGPHKN--LVDTVHRLSRRAGLTEMPEVgIYQNQIMNAFATGPSRNnsLVAVSTGLLGSMNE 135
                              555554444444444444445666666555..777777777888877777773467889999999998862257788999****** PP

            Peptidase_M56 194 eeleyillHElaHlkrkDllvnllvavl 221
                               ele +l HE aH++++D++  +lv+ +
  PHY93_11585|PHY93_11585 136 SELEGVLGHEVAHIANGDMVTMALVQGV 163
                              ***********************99865 PP

>> SprT-like  SprT-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0   6.5e-06     0.023      28      77 ..      88     151 ..      65     161 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 6.5e-06
                SprT-like  28 rlnttaGranlkr..............atvrhhasIeLseklldsrsedrllntLaHElcHlal 77 
                              rl++ aG +++ +               ++r++  +  s+ ll s +e++l+ +L HE++H+a+
  PHY93_11585|PHY93_11585  88 RLSRRAGLTEMPEvgiyqnqimnafatGPSRNNSLVAVSTGLLGSMNESELEGVLGHEVAHIAN 151
                              5666666666666666666667777666778889999*************************99 PP

>> RDD  RDD family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   8.8    0.0013       4.5      10     101 ..       6      90 ..       1     172 [. 0.68
   2 ?    2.2   1.4     0.051   1.8e+02      14      65 ..     153     215 ..     146     224 .. 0.70

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0013
                      RDD  10 Afli.DlvllliislllallivallnakasaneavagslllllllvlllvllvyqllllskkgqTlGklllglkvvdedgrklgla 94 
                               fl   ++++++is+l+++l+          ++ ++ +l++  ll++ ++++    l+++   +   k+++g+++v+ +g    l 
  PHY93_11585|PHY93_11585   6 LFLAvNILVVATISILISALGIG--------QYMTSAGLQYGPLLAFCFLWGMVGSLISLLLSKKMAKWMMGVQLVTLEGPHKNLV 83 
                              33333455555555555555555........667777777777777777777777777777777799*************999998 PP

                      RDD  95 qaliRal 101
                                + R +
  PHY93_11585|PHY93_11585  84 DTVHRLS 90 
                              6555544 PP

  == domain 2  score: 2.2 bits;  conditional E-value: 0.051
                      RDD  14 Dlvllliislllallivall...........nakasaneavagslllllllvlllvllvyqll 65 
                              D+v ++++ +++++++++             ++k  + +  +  ++++l++vl +++++    
  PHY93_11585|PHY93_11585 153 DMVTMALVQGVVNAFVMFFSriaafaitqamSDKDDRDSRPSPFIQMMLVFVLDIIFGILASP 215
                              666666666666666666446666666677788888888888888888888888888776655 PP

>> DUF4199  Protein of unknown function (DUF4199)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   5.1     0.012        42      34      87 ..      11      59 ..       2      61 .. 0.72
   2 ?   11.2   0.7    0.0001      0.37     132     167 ..     180     222 ..     151     222 .. 0.65
   3 ?   -3.3   0.1         3   1.1e+04     109     133 ..     243     268 ..     238     287 .. 0.45

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.012
                  DUF4199 34 gllallllllvpflvylalkkyrkknlgGfisfgqafgfgflislvagllsavf 87
                             ++  l+ + +++++  l++ +y      G +++g  + f+fl  +v++l+s+++
  PHY93_11585|PHY93_11585 11 NI--LVVATISILISALGIGQYMTS--AG-LQYGPLLAFCFLWGMVGSLISLLL 59
                             22..222233367799999999555..57.*********************985 PP

  == domain 2  score: 11.2 bits;  conditional E-value: 0.0001
                  DUF4199 132 kealesls.........piivalqsflgnliiGlilsliiAlilk 167
                              ++a++            p+i ++  f+  +i+G++ s i+A++ +
  PHY93_11585|PHY93_11585 180 TQAMS--DkddrdsrpsPFIQMMLVFVLDIIFGILASPIVAWFSR 222
                              22222..02233333435444999******************965 PP

  == domain 3  score: -3.3 bits;  conditional E-value: 3
                  DUF4199 109 ekleeakeesae.eenaemseeeike 133
                              + l+++  +  + e + e+s+  +k+
  PHY93_11585|PHY93_11585 243 AALQALSRAYPQlELVKEESNPNFKS 268
                              33444444444444444444444422 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (300 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       747  (0.0416643); expected 358.6 (0.02)
Passed bias filter:                      463  (0.0258241); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.39
# Mc/sec: 2279.24
//
Query:       PHY93_11590|PHY93_11590  [L=425]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.5e-18   66.7   0.0    2.4e-18   66.0   0.0    1.4  1  cNMP_binding  Cyclic nucleotide-binding domain
    8.7e-16   57.9  15.5    1.3e-15   57.3  15.5    1.2  1  Ion_trans     Ion transport protein
      3e-15   55.9  10.4      3e-15   55.9  10.4    2.0  2  Ion_trans_2   Ion channel
  ------ inclusion threshold ------
      0.021   15.1   0.1       0.49   10.8   0.1    2.3  2  HEPN_Swt1     Swt1-like HEPN
      0.034   13.9   0.1          3    7.7   0.0    2.5  2  DUF4538       Domain of unknown function (DUF4538)
        1.1    9.3   6.0       0.21   11.7   0.9    2.4  2  CrgA          Cell division protein CrgA


Domain annotation for each model (and alignments):
>> cNMP_binding  Cyclic nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.0   0.0   8.1e-22   2.4e-18       5      89 .]     326     406 ..     322     406 .. 0.96

  Alignments for each domain:
  == domain 1  score: 66.0 bits;  conditional E-value: 8.1e-22
                              -TT-EEE-TTSB-SEEEEEEES-EEEEEEETTS.EEEEEEE-TTEEESHHHHHHTS--SSEEEESSTEEEEEEEHHHHHHHHHH- CS
             cNMP_binding   5 kagevifrqGdpadslyivlsGevrvyrlsedgkevvlavlgpGdlfGelalltgeprtatvvAltdsellalprddflellqqd 89 
                              ++g++i++ Gd +++++++  G v v  l e+g++  +a+l++G++fGe+all +++r+a+++++  + l++l++++f+e+++++
  PHY93_11590|PHY93_11590 326 SPGDMIIKIGDIGEEMFVIAHGMVDV--LLESGER--VATLHDGQIFGEIALLKETTRSANIQSQAYCDLYKLTKKSFNEIIKRY 406
                              79************************..9****77..8***************99**************************9986 PP

>> Ion_trans  Ion transport protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.3  15.5   4.4e-19   1.3e-15       6     243 ..      11     231 ..       8     233 .. 0.82

  Alignments for each domain:
  == domain 1  score: 57.3 bits;  conditional E-value: 4.4e-19
                              HHHHHHHHHHHHHHHCCCSSSSHHHHC..HHHHHHHHHHHHHHHHHHHHHHHHHTH.........HHHHHHCHSHHHHHHHHHHHH CS
                Ion_trans   6 lfilllillncvflaletyfpedelek..tileilelvftaiftlemllkilalgl.........likkrYlrdpwnilDflvvlp 80 
                              ++ + li++ + f a+e +f    ++k  ++  +++ ++  +f+ +++  ++ ++            kk Y+   +  +D+l+++p
  PHY93_11590|PHY93_11590  11 FLWVALIFWCASFTAIEAPFSFVFKTKiqPWQLVVDAIISLLFVADLIYHLREARRnkikhdvgvPQKKWYFPL-MLAVDLLACIP 95 
                              677899999999****9999997677788999999*****************9766799999997777777777.6********** PP

                              HHH.HHHHHHHHHHHHHHHHHHGGGGGGHHHCHSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCCCCCSCCS CS
                Ion_trans  81 sll.slvlseesllllsvlrlfrvlrllklisrleglrtlvtalirsvkdllnvlllllvvlfifaligvqlfkgklreknecakt 165
                              ++l s++l  ++  l+ ++rl+r++r++k++  +e++ ++   l+++    + v +l++v +++ ++i+  ++             
  PHY93_11590|PHY93_11590  96 FDLlSYYL--GHQDLFIAFRLMRMIRIIKVFYLIENITIVPG-LFKMQS--IVVGFLMVVNWIACGWIF--IY------------- 161
                              *9944444..46889999999999999999999999888777.666643..556777777777777777..33............. PP

                              TSSSTTTSSSSSSHHHHHHHHHHHHTTSSHHHHHHHHHHHSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                Ion_trans 166 wenpnngntnFdnfftallwlfrlmttegwgdilyatldekskvaliyfvifiilgsflllNlliaviadnfqelter 243
                                +++ + t+   ++ +++w+++++tt+g+gdi++++  ++      +f +fi+++++ ++ ++i++i+  +++  ++
  PHY93_11590|PHY93_11590 162 PMTADTDVTS--YYIRSFYWALTTLTTIGYGDITPHNNIGR------IFTCFIMIIGVGMYGIVIGNISRMLASADRH 231
                              1123333344..79***************************......**********************999988776 PP

>> Ion_trans_2  Ion channel
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.9   0.4       4.8   1.4e+04       5      15 ..      15      25 ..      11      33 .. 0.49
   2 !   55.9  10.4     1e-18     3e-15       2      77 ..     148     225 ..     147     227 .. 0.86

  Alignments for each domain:
  == domain 1  score: -3.9 bits;  conditional E-value: 4.8
                             HTCHHHHHHHH CS
              Ion_trans_2  5 lvlifgaviys 15
                             ++++++a + +
  PHY93_11590|PHY93_11590 15 ALIFWCASFTA 25
                             33333433333 PP

  == domain 2  score: 55.9 bits;  conditional E-value: 1e-18
                              HHHHTCHHHHHHHHT........T.---HHHHHHHHHHHHTTS----SSTT-----HHHHHHHHHHHHHHHHHHHHHHHHH CS
              Ion_trans_2   2 vlllvlifgaviysl....eegwe.kwsfldalYfsfvtltTiGYGdivpetdagrlftivyillGlalfalflavlgkvl 77 
                              +++ +++ g+++++     +     +  ++ ++Y++++tltTiGYGdi+p++++gr+ft++++++G++++++++ +++++l
  PHY93_11590|PHY93_11590 148 MVVNWIACGWIFIYPmtadT---DvTSYYIRSFYWALTTLTTIGYGDITPHNNIGRIFTCFIMIIGVGMYGIVIGNISRML 225
                              77889999999998866431...31456888*********************************************99987 PP

>> HEPN_Swt1  Swt1-like HEPN
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.0      0.11   3.2e+02      80     115 ..      58      94 ..      34      95 .. 0.84
   2 ?   10.8   0.1   0.00016      0.49      42      92 ..     228     291 ..     218     298 .. 0.89

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.11
                HEPN_Swt1  80 aseLrev.RNkwaHqesfstddayraldtierllrai 115
                              +  Lre+ RNk+ H   + +++ y  l  + +ll  i
  PHY93_11590|PHY93_11590  58 IYHLREArRNKIKHDVGVPQKKWYFPLMLAVDLLACI 94 
                              556775527******9999999999999999998765 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 0.00016
                HEPN_Swt1  42 kesekeiskldvqdllrvite.............nWkevFkkklsraerslaseLrevRNkwaH 92 
                              ++++ke s++ ++dll ++++             ++ ++F+k+ls ++++++s+L ++  + +H
  PHY93_11590|PHY93_11590 228 ADRHKEQSREKISDLLMFMKHyripdglqtaainHYSHLFSKRLSDNDEKIISDLPHAIQQEMH 291
                              46789999999**********************999*******************887777776 PP

>> DUF4538  Domain of unknown function (DUF4538)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.4   0.1     0.021        62       5      31 ..     138     165 ..     136     168 .. 0.83
   2 ?    7.7   0.0   0.00099         3       7      26 ..     199     218 ..     195     238 .. 0.86

  Alignments for each domain:
  == domain 1  score: 3.4 bits;  conditional E-value: 0.021
                  DUF4538   5 kyvllvggvvglig.lalYPiiiaPllh 31 
                              k+  +v+g++ ++  +a+  i+i+P++ 
  PHY93_11590|PHY93_11590 138 KMQSIVVGFLMVVNwIACGWIFIYPMTA 165
                              6777899999998658**********85 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.00099
                  DUF4538   7 vllvggvvgliglalYPiii 26 
                                ++ +++ +ig+ +Y i+i
  PHY93_11590|PHY93_11590 199 GRIFTCFIMIIGVGMYGIVI 218
                              56899*************98 PP

>> CrgA  Cell division protein CrgA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.9   6.9e-05      0.21      16      87 ..      63     152 ..      55     153 .. 0.70
   2 ?   -3.3   0.4       3.3     1e+04      77      82 ..     207     212 ..     198     223 .. 0.54

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 6.9e-05
                     CrgA  16 aaertpvkakaakpsprwyvpvmlglmllGll..wlvvyYlage.....eip.........fmaelgawNlliG...fgliivGll 82 
                              +a+r++ k++   p+++wy p+ml++ ll ++   l+ yYl ++                 ++  +++  ++ G   +  i+vG+l
  PHY93_11590|PHY93_11590  63 EARRNKIKHDVGVPQKKWYFPLMLAVDLLACIpfDLLSYYLGHQdlfiaF-RlmrmiriikVFYLIENITIVPGlfkMQSIVVGFL 147
                              66778888888899************999997335899****99666640.14444444444444455555555222567899999 PP

                     CrgA  83 mttrW 87 
                              m  +W
  PHY93_11590|PHY93_11590 148 MVVNW 152
                              99999 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 3.3
                     CrgA  77 iivGll 82 
                              +i+G++
  PHY93_11590|PHY93_11590 207 MIIGVG 212
                              222222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (425 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       939  (0.0523733); expected 358.6 (0.02)
Passed bias filter:                      535  (0.0298399); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.54u 0.25s 00:00:00.79 Elapsed: 00:00:00.39
# Mc/sec: 3232.48
//
Query:       PHY93_11595|PHY93_11595  [L=445]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    9.8e-07   29.0   0.2    2.2e-06   27.9   0.2    1.5  1  LAM_C        Lysine-2,3-aminomutase
  ------ inclusion threshold ------
       0.02   15.3   0.1      0.048   14.0   0.1    1.8  1  Radical_SAM  Radical SAM superfamily
       0.11   12.4   0.1         12    5.9   0.1    2.5  2  DUF3331      Domain of unknown function (DUF3331)


Domain annotation for each model (and alignments):
>> LAM_C  Lysine-2,3-aminomutase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.9   0.2   3.6e-10   2.2e-06       3      29 ..     359     385 ..     357     390 .. 0.90

  Alignments for each domain:
  == domain 1  score: 27.9 bits;  conditional E-value: 3.6e-10
                    LAM_C   3 glrGhtsGyavPtfvvdaPgGGGkial 29 
                              ++rG t+G+  Ptfv+daPgGGGk  +
  PHY93_11595|PHY93_11595 359 AVRGTTAGFNTPTFVCDAPGGGGKRHV 385
                              589********************9665 PP

>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.1     8e-06     0.048       3      90 ..     149     242 ..     147     320 .. 0.68

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 8e-06
                              EESEESS--TTTSCCTT........HHHHHHHHHHHHHHHHHHHHHHHHHTTSEEEEEESSTGGGS..TTHHHHHHHHHHTCCCTE CS
                              xxxxxxxxxxxxxxxxx........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxx RF
              Radical_SAM   3 vtrgCnlrCsfCarpet........vrregrgrslsveeileevkelkaekgvkevilgggeplly..pdfvellerlaklavpgi 78 
                              +t  C+  Cs+C+r++         ++ ++ +    ++   + +++      ++ v+++gg+ ++   + ++++ e+l  +    +
  PHY93_11595|PHY93_11595 149 PTTICPVYCSYCTRSRLiggsteavEKETYGVNAARMDVAFDYIRSH--PA-IEDVVISGGDAFMMtaKQITFIGENLLNI-PHIR 230
                              7899***********99**9886664444444444444444444444..23.88888888888887443333333333333.4666 PP

                              EEEEEECSSCHG CS
                              xxxxxxxxxxxx RF
              Radical_SAM  79 ritvetngtlpd 90 
                              r+++ t g+ ++
  PHY93_11595|PHY93_11595 231 RLRFATKGIAIY 242
                              666666666655 PP

>> DUF3331  Domain of unknown function (DUF3331)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.9   0.1     0.002        12      28      46 ..      30      48 ..      25      56 .. 0.86
   2 ?    3.8   0.0    0.0085        51      26      40 ..      92     106 ..      71     110 .. 0.84

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.002
                  DUF3331 28 lWrdatrCsyedqvWraar 46
                              W+d tr +++d  W++  
  PHY93_11595|PHY93_11595 30 AWKDVTRAEFSDHLWQMKH 48
                             6**************9865 PP

  == domain 2  score: 3.8 bits;  conditional E-value: 0.0085
                  DUF3331  26 tilWrdatrCsyedq 40 
                               + W d+t C+ + q
  PHY93_11595|PHY93_11595  92 LMDWSDPTNCAMRKQ 106
                              568********9988 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (445 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       431  (0.0240393); expected 358.6 (0.02)
Passed bias filter:                      381  (0.0212505); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.50u 0.21s 00:00:00.71 Elapsed: 00:00:00.36
# Mc/sec: 3659.23
//
Query:       PHY93_11600|PHY93_11600  [L=202]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      2e-17   63.8   2.1      2e-17   63.8   2.1    1.8  2  SNARE_assoc  SNARE associated Golgi protein


Domain annotation for each model (and alignments):
>> SNARE_assoc  SNARE associated Golgi protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.8   2.1   1.1e-21     2e-17       1     112 [.      41     159 ..      41     166 .. 0.95
   2 ?   -1.4   0.0      0.18   3.3e+03      62      80 ..     179     196 ..     163     200 .. 0.56

  Alignments for each domain:
  == domain 1  score: 63.8 bits;  conditional E-value: 1.1e-21
              SNARE_assoc   1 lPsevllvaaGvlf.....glllgtlvtslgallGaslayllgrylgr...kalrrkllsekrvkalerlverygflallllrllp 78 
                              lP++ ll+++G++      +l + ++ ++l+++lG+ ++y+lgr++     +++ r +l+ek+++ ++++  r+g +++l+  +++
  PHY93_11600|PHY93_11600  41 LPGDSLLITLGLISsrgdiDLKILIPSLILATVLGDHFSYFLGRKFSVkvrSNISRFYLEEKHLEMAHSYYIRHGGKTILFCKFIA 126
                              69************999888888***********************989999********************************** PP

              SNARE_assoc  79 ivPrdlvnyvaGltrvsfkrFflatfiGsipwal 112
                              +v r++++++aG++++s+ rF+l+ ++G+++w+ 
  PHY93_11600|PHY93_11600 127 FV-RTFAPFIAGTSKMSLFRFALFDIAGAALWVG 159
                              **.*****************************85 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.18
              SNARE_assoc  62 lverygflallllrllpiv 80 
                              +++ + +++l++l ++p++
  PHY93_11600|PHY93_11600 179 YFHYF-AFFLIFLLVSPFL 196
                              44222.3344555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (202 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       542  (0.0302304); expected 358.6 (0.02)
Passed bias filter:                      279  (0.0155614); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.25s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1317.45
//
Query:       PHY93_11605|PHY93_11605  [L=657]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (657 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       914  (0.0509789); expected 358.6 (0.02)
Passed bias filter:                      493  (0.0274974); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.71u 0.30s 00:00:01.01 Elapsed: 00:00:00.50
# Mc/sec: 3946.65
//
Query:       PHY93_11610|PHY93_11610  [L=338]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-20   74.1   0.3    2.4e-20   73.0   0.0    1.6  2  Phage_integrase  Phage integrase family
    1.2e-08   35.2   0.7     0.0011   19.2   0.0    2.8  3  Phage_int_SAM_1  Phage integrase, N-terminal SAM-like domain
    0.00045   20.3   0.9      0.081   13.0   0.2    2.8  2  Phage_int_SAM_6  Phage integrase SAM-like domain
     0.0029   18.1   2.0       0.61   10.6   0.0    3.3  3  Phage_int_SAM_4  Phage integrase, N-terminal SAM-like domain
  ------ inclusion threshold ------
      0.013   15.6   0.0          2    8.6   0.0    2.6  2  HBD              Helical bundle domain
       0.22   11.9   0.2       0.22   11.9   0.2    2.8  3  Rep_Org_C        Putative replisome organiser protein C-termi


Domain annotation for each model (and alignments):
>> Phage_integrase  Phage integrase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0       2.1   6.2e+03      89     116 ..     101     135 ..      91     148 .. 0.53
   2 !   73.0   0.0     8e-24   2.4e-20      18     170 ..     182     330 ..     168     331 .. 0.92

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 2.1
                              HCCTTTSBSSBET......TSSB--H.HHHHHHHH CS
          Phage_integrase  89 eeaeksellfask......rgkplsr.qtvrkafk 116
                              ++++++++lf +       r+++ls+ +++ +++k
  PHY93_11610|PHY93_11610 101 KKRSEKSVLFFQPplsvssRRRHLSSlKNFFQYLK 135
                              44555555665554454443333332134444444 PP

  == domain 2  score: 73.0 bits;  conditional E-value: 8e-24
                              HHHHHHHHHHHHHHHHT--HHHHTT-BGGGEECTTTEEEEEEEECSSSSEEEEECT..HHHHHHHHHHHHHHCHCCTTTSBSSBET CS
          Phage_integrase  18 slkirdklllellyetGlRisEllsLrvkdldlengvilvheregKgskeravpls..eealellkellskaleeaeksellfask 101
                              +  ++++l+l lly  GlR sEl+ L+++++d   ++i+      Kg+  +++ ++  + + + +  +l+++   + ks++lf +k
  PHY93_11610|PHY93_11610 182 TFRTKERLMLYLLYYGGLRLSELCYLKISNFDPVAKIITF---TRKGGSIHTLVIQkeDLIFKNFDFYLNQN---EFKSDFLFQNK 261
                              456899**************************99999999...66999999999997666788888999888...99********* PP

                              TSSB--HHHHHHHHHHHHHHCT-SSC--TTHHHHHHHHHHHHHCTSHHHHHHHHT-SSCCHHHHHHCCC CS
          Phage_integrase 102 rgkplsrqtvrkafkraveeagiekpltpHtlRhsfataLleagvdlrvvqkllGHssisttqiYthva 170
                               gk  s +t++  + ++  +a+i++ ++pH++R+++at+ + +  dl  v ++l+H++ + tq+Y+++a
  PHY93_11610|PHY93_11610 262 VGKAYSLKTFYNQVMKIILRADITPGISPHSFRKACATNIYIRTKDLLYVRDYLNHADAKVTQTYIDKA 330
                              *****************************************************************9875 PP

>> Phage_int_SAM_1  Phage integrase, N-terminal SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.2   0.0   3.8e-07    0.0011       2      56 ..      16      69 ..      15      79 .. 0.82
   2 !   13.4   0.1   2.3e-05      0.07      61      81 ..     115     135 ..      99     138 .. 0.86
   3 ?   -3.3   0.0       3.8   1.1e+04      51      58 ..     313     320 ..     306     334 .. 0.52

  Alignments for each domain:
  == domain 1  score: 19.2 bits;  conditional E-value: 3.8e-07
                             HHHHHHHHHTT-S-HHHHHHHHHHHHHHHHHHHH.TS--TTT--HHHHHHHHHS- CS
          Phage_int_SAM_1  2 eqfleyLikerglspnTlraYrrdLrrflkflaergkesleqlttedvraflael 56
                             +++l+ L+     s +T+ +Yr dL +f+++ ++ +k+++++ + e++ ++ + l
  PHY93_11610|PHY93_11610 16 DAYLHNLSRLNK-SDHTIKNYRADLIKFFTWIEHFEKNKIAKTNGEMIGRYKEFL 69
                             567777775544.9********************999999999999987776555 PP

  == domain 2  score: 13.4 bits;  conditional E-value: 2.3e-05
                              -----HHHHHHHHHHHHHHHH CS
          Phage_int_SAM_1  61 lsatslarrlsalrsFfqflv 81 
                              ls +s++r+ls+l++Ffq+l+
  PHY93_11610|PHY93_11610 115 LSVSSRRRHLSSLKNFFQYLK 135
                              8999***************96 PP

  == domain 3  score: -3.3 bits;  conditional E-value: 3.8
                              HHHHS--- CS
          Phage_int_SAM_1  51 aflaelee 58 
                              ++l++  +
  PHY93_11610|PHY93_11610 313 DYLNHADA 320
                              34433333 PP

>> Phage_int_SAM_6  Phage integrase SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.0   0.2   2.7e-05     0.081      96     130 ..      13      48 ..       1      52 [. 0.68
   2 !    5.0   0.0    0.0079        24     109     132 .]     115     138 ..     107     138 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 2.7e-05
          Phage_int_SAM_6  96 ellseflai.etaslsdAskknyrialinfFgfidk 130
                              el+  +l   +  + sd + knyr  li fF++i++
  PHY93_11610|PHY93_11610  13 ELMDAYLHNlSRLNKSDHTIKNYRADLIKFFTWIEH 48 
                              444445533133466999***************985 PP

  == domain 2  score: 5.0 bits;  conditional E-value: 0.0079
          Phage_int_SAM_6 109 lsdAskknyrialinfFgfidkqn 132
                              ls  s++ +  +l nfF+++++ n
  PHY93_11610|PHY93_11610 115 LSVSSRRRHLSSLKNFFQYLKEVN 138
                              8999****************9866 PP

>> Phage_int_SAM_4  Phage integrase, N-terminal SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.6   0.0   0.00021      0.61       2      34 ..      15      47 ..      13      82 .. 0.66
   2 !    5.3   0.1    0.0089        27      56      80 ..     112     136 ..     100     140 .. 0.85
   3 ?   -2.6   0.0       2.6   7.8e+03      70      80 ..     267     277 ..     262     278 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00021
          Phage_int_SAM_4  2 lerfrealrlaglserTiksYlsaikrflrflk 34
                             +++++++l   ++s+ Tik+Y   +  f  +++
  PHY93_11610|PHY93_11610 15 MDAYLHNLSRLNKSDHTIKNYRADLIKFFTWIE 47
                             555566666667777777777777777777765 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.0089
          Phage_int_SAM_4  56 erklsastqknalnalsffykkvle 80 
                              ++ ls+s+ +++l++l+ f++ + e
  PHY93_11610|PHY93_11610 112 QPPLSVSSRRRHLSSLKNFFQYLKE 136
                              45689***************98765 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 2.6
          Phage_int_SAM_4  70 alsffykkvle 80 
                              +l+ fy++v +
  PHY93_11610|PHY93_11610 267 SLKTFYNQVMK 277
                              79999999975 PP

>> HBD  Helical bundle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   0.0   0.00067         2       4      36 ..      12      44 ..       9      80 .. 0.80
   2 ?    4.3   0.0     0.015        44      29      49 ..     124     144 ..     117     161 .. 0.83

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.00067
                             HHHHHHHHHHHHTSSSSS-SHHHHHHHHHHHHH CS
                      HBD  4 rylleeYleeLekvkqkddklkstRlsvvkrla 36
                               l++ Yl++L++ +++d  +k+ R  ++k ++
  PHY93_11610|PHY93_11610 12 LELMDAYLHNLSRLNKSDHTIKNYRADLIKFFT 44
                             5799*********9999999*******998765 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.015
                              HHHHHHHHHHHHT-SS--HHH CS
                      HBD  29 lsvvkrlaeYLneqtelteev 49 
                              ls +k++++YL+e  e t+e 
  PHY93_11610|PHY93_11610 124 LSSLKNFFQYLKEVNEDTSEK 144
                              7889*********99999885 PP

>> Rep_Org_C  Putative replisome organiser protein C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   0.1      0.15   4.6e+02       3      52 ..      14      66 ..      12      70 .. 0.67
   2 ?   11.9   0.2   7.4e-05      0.22      12      69 ..      93     151 ..      85     162 .. 0.83
   3 ?   -2.5   0.2       2.2   6.6e+03      63      77 ..     245     259 ..     235     270 .. 0.60

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.15
                Rep_Org_C  3 llskfldsfinfssknis...kravalaeflklpsfqkeqavigaknyiqsyk 52
                             l+  +l+ ++ +++ + +    ra   + f  +  f+k+++ ++  + i  yk
  PHY93_11610|PHY93_11610 14 LMDAYLHNLSRLNKSDHTiknYRADLIKFFTWIEHFEKNKIAKTNGEMIGRYK 66
                             56667777666666543311146666677778889999999998888888887 PP

  == domain 2  score: 11.9 bits;  conditional E-value: 7.4e-05
                Rep_Org_C  12 infsskniskravalaeflk..lpsfqkeqavigaknyiqsyknehpddkagkysvnaye 69 
                              i fs+    kr+   + f++  l+   +   + + kn++q y +e  +d ++k+s n+++
  PHY93_11610|PHY93_11610  93 IIFSQTRFKKRSEKSVLFFQppLSVSSRRRHLSSLKNFFQ-YLKEVNEDTSEKFSKNPVK 151
                              56888888999999999987557888999999******98.788999**********986 PP

  == domain 3  score: -2.5 bits;  conditional E-value: 2.2
                Rep_Org_C  63 ysvnayeflenvmfk 77 
                              + +n  ef ++ +f+
  PHY93_11610|PHY93_11610 245 FYLNQNEFKSDFLFQ 259
                              444555555555444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (338 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       894  (0.0498633); expected 358.6 (0.02)
Passed bias filter:                      451  (0.0251548); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.50u 0.24s 00:00:00.74 Elapsed: 00:00:00.41
# Mc/sec: 2447.07
//
Query:       PHY93_11615|PHY93_11615  [L=246]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.5e-30  104.4   0.0    4.8e-30  103.9   0.0    1.2  1  Acyltransferase  Acyltransferase


Domain annotation for each model (and alignments):
>> Acyltransferase  Acyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  103.9   0.0   2.7e-34   4.8e-30       2     135 .]      53     180 ..      52     180 .. 0.98

  Alignments for each domain:
  == domain 1  score: 103.9 bits;  conditional E-value: 2.7e-34
          Acyltransferase   2 vrvtglenlpekgpailvaNHqsylDvlllwlllyksngprnvviiakkellsipllgflmrllgfifidRksnaraagslenise 87 
                              ++ +++e l++++p+++++NHq +lD++   + l     p n+v+i+k++++ ip++g++++l+g i idRk+++ra ++++ +++
  PHY93_11615|PHY93_11615  53 IELRNKEILNPARPCVFISNHQHNLDIFPGCYTL-----PGNTVTIGKRSIILIPFFGQFFWLSGNILIDRKNKKRAFEAMDVAAN 133
                              778999**************************99.....9********************************************** PP

          Acyltransferase  88 lleegkl.vviFPEGtrsregellpfkkGlvrlaakakkgvpivPvais 135
                              +++e+kl v+i+PEGtrs+ +++lpfkkG +  a+ka  +vpivP+ais
  PHY93_11615|PHY93_11615 134 AIKEKKLsVWIMPEGTRSKGRGILPFKKGPFITAIKA--QVPIVPIAIS 180
                              *************************************..*******996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (246 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       619  (0.0345251); expected 358.6 (0.02)
Passed bias filter:                      474  (0.0264376); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.20s 00:00:00.65 Elapsed: 00:00:00.36
# Mc/sec: 2023.56
//
Query:       PHY93_11620|PHY93_11620  [L=200]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    7.4e-36  123.7   0.0    8.4e-36  123.5   0.0    1.0  1  DTW            DTW domain
     0.0085   15.6   0.2      0.018   14.5   0.0    1.5  2  Peptidase_C65  Peptidase C65 Otubain


Domain annotation for each model (and alignments):
>> DTW  DTW domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  123.5   0.0   9.4e-40   8.4e-36       2     196 ..      10     192 ..       9     194 .. 0.95

  Alignments for each domain:
  == domain 1  score: 123.5 bits;  conditional E-value: 9.4e-40
                      DTW   2 elCerCllpaevclcsslppleklpikvlilqhpkEkkkstntarllalslanlrvvvgsdveeeaklsallkdpkrksvllFPsk 87 
                              ++C rC++  ++c c+++ + + ++++v i++h++E++  +nta+l++ +l+n +++ +   e   +l+ l  +p+  +++lFP+ 
  PHY93_11620|PHY93_11620  10 KRCLRCRINISLCFCDQIVE-HDTQTRVSIIMHHREEHLTSNTAKLATMTLNNASIYPRGLPEAPFSLNLLKLEPNVLPLYLFPDV 94 
                              68******************.6677******************************999999999999999**************** PP

                      DTW  88 naksledllaseaakasekkeefeekrlillDGTWsqAkkilrrnprledlpqvkLkkgesseyerlRkqpkkgclSTiEaiayaL 173
                              +a +l+d ++ +         +  + +li+ DGTWsq+ k  rr+p l ++ +vkL+++ + ey +lR++ +++ ++T EaiayaL
  PHY93_11620|PHY93_11620  95 DALELNDDFKIS---------HPGPYHLIVPDGTWSQTMKVRRREPGLSEILCVKLSDDIKGEY-KLRRGVREDGVCTFEAIAYAL 170
                              *****9988765.........3789***************************************.********************* PP

                      DTW 174 keleeekealdnLldvfkamvek 196
                              + le +ke++  Ll+ f+ m ++
  PHY93_11620|PHY93_11620 171 EILE-NKEVAVDLLRQFRIMNNR 192
                              ****.699**********99875 PP

>> Peptidase_C65  Peptidase C65 Otubain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0      0.29   2.6e+03     223     240 ..      29      46 ..      17      55 .. 0.64
   2 !   14.5   0.0     2e-06     0.018      31      71 ..     140     179 ..     122     199 .. 0.74

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 0.29
                              ..SS-S--SEEEEEETBE CS
            Peptidase_C65 223 kseeeqapeitLlYrpgH 240
                              +++++++ +i++  r++H
  PHY93_11620|PHY93_11620  29 EHDTQTRVSIIMHHREEH 46 
                              445555555666666665 PP

  == domain 2  score: 14.5 bits;  conditional E-value: 2e-06
                              HH.HHHHTTEEEEE-B--SSTHHHHHHHHHHHHHHHH-HH.. CS
            Peptidase_C65  31 ki.kllsekYssiRrvrgDGnCfyRaflfsylellleskdka 71 
                              k+ ++++ +Y+  R vr DG C + a+++++   +le+k+ a
  PHY93_11620|PHY93_11620 140 KLsDDIKGEYKLRRGVREDGVCTFEAIAYAL--EILENKEVA 179
                              443678999******************9874..677888744 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (200 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       513  (0.0286129); expected 358.6 (0.02)
Passed bias filter:                      394  (0.0219756); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1514.53
//
Query:       PHY93_11625|PHY93_11625  [L=543]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
     0.0011   18.4   1.9      0.011   15.2   0.3    2.6  2  EF-hand_5  EF hand
  ------ inclusion threshold ------
      0.077   12.6   0.2       0.28   10.8   0.2    2.0  1  EF-hand_1  EF hand


Domain annotation for each model (and alignments):
>> EF-hand_5  EF hand
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   0.1     0.025   2.2e+02       7      17 ..      40      50 ..      39      56 .. 0.77
   2 !   15.2   0.3   1.2e-06     0.011       8      20 ..      94     106 ..      92     107 .. 0.90

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.025
                             HH-SS-SSCE- CS
                EF-hand_5  7 aiDlNgDGkIs 17
                             +iDlN+D k +
  PHY93_11625|PHY93_11625 40 EIDLNQDNKTD 50
                             59*****9855 PP

  == domain 2  score: 15.2 bits;  conditional E-value: 1.2e-06
                              H-SS-SSCE-HHH CS
                EF-hand_5   8 iDlNgDGkIskeE 20 
                              +D+NgDGkI++ E
  PHY93_11625|PHY93_11625  94 MDTNGDGKIDRIE 106
                              8*********976 PP

>> EF-hand_1  EF hand
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.2   3.2e-05      0.28       8      19 ..      93     104 ..      91     106 .. 0.87

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 3.2e-05
                              HHTTTSSSEEEH CS
                EF-hand_1   8 efDkDgdGkIdf 19 
                              e+D++gdGkId+
  PHY93_11625|PHY93_11625  93 EMDTNGDGKIDR 104
                              89********96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (543 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       926  (0.0516482); expected 358.6 (0.02)
Passed bias filter:                      378  (0.0210832); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.59u 0.23s 00:00:00.82 Elapsed: 00:00:00.42
# Mc/sec: 3892.91
//
Query:       PHY93_11630|PHY93_11630  [L=87]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.047   14.3   0.0      0.051   14.2   0.0    1.1  1  OAD_gamma   Oxaloacetate decarboxylase, gamma chain
       0.16   11.8   0.0        0.2   11.4   0.0    1.3  1  TMEM132D_C  Mature oligodendrocyte transmembrane protein, TME


Domain annotation for each model (and alignments):
>> OAD_gamma  Oxaloacetate decarboxylase, gamma chain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   5.7e-06     0.051      16      57 ..       5      46 ..       5      78 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 5.7e-06
                OAD_gamma 16 vvLilLslvislfskiikkkakkkkkkakaaaaaaaaaaaaa 57
                             ++L++L+++++l +   +  +kkkkk  ++++a +++++ ++
  PHY93_11630|PHY93_11630  5 IALFCLIVLVTLSGNADASTKKKKKKSRAQTSARTRTHKVSK 46
                             5899********************999999999988887665 PP

>> TMEM132D_C  Mature oligodendrocyte transmembrane protein, TMEM132D, C-term
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   2.3e-05       0.2      39      74 ..       5      41 ..       1      59 [. 0.86

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 2.3e-05
               TMEM132D_C 39 lgvfClAilvflincvvyalkfrrkkvpvegqgsv.t 74
                             ++ fCl++lv l   +  + k ++kk++ ++++ + t
  PHY93_11630|PHY93_11630  5 IALFCLIVLVTLSGNADASTKKKKKKSRAQTSARTrT 41
                             689*************99******9999999655523 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (87 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1326  (0.0739584); expected 358.6 (0.02)
Passed bias filter:                      646  (0.036031); expected 358.6 (0.02)
Passed Vit filter:                        64  (0.00356964); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.42
# Mc/sec: 628.80
//
Query:       PHY93_05650|PHY93_05650  [L=367]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-44  152.8  10.3    1.4e-44  152.6  10.3    1.0  1  ABC2_membrane_3  ABC-2 family transporter protein
    3.8e-30  105.2   8.6    4.7e-30  104.9   8.6    1.0  1  ABC2_membrane_2  ABC-2 family transporter protein
    2.6e-26   92.4  16.9    1.2e-24   86.9  12.7    2.2  2  ABC2_membrane    ABC-2 type transporter
    3.2e-05   23.0   6.0      0.013   14.5   0.7    3.3  3  DUF3533          Protein of unknown function (DUF3533)
     0.0076   16.2   8.8     0.0076   16.2   8.8    2.4  3  ABC2_membrane_4  ABC-2 family transporter protein
  ------ inclusion threshold ------
        1.4    8.5  18.2       0.15   11.6  12.9    2.1  2  ABC2_membrane_5  ABC-2 family transporter protein


Domain annotation for each model (and alignments):
>> ABC2_membrane_3  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  152.6  10.3   4.8e-48   1.4e-44       3     344 ..      23     360 ..      21     361 .. 0.88

  Alignments for each domain:
  == domain 1  score: 152.6 bits;  conditional E-value: 4.8e-48
          ABC2_membrane_3   3 fliitlllPiilvlllglifsnsveddentpiavvdednsslsqqlvealeaspsvelvyevdseeeakkalkngdidgilvipkg 88 
                              +l + lllP+ +v+++gl++     +++n++iav+d d+++ s++l++ l++s+++  v++  ++++a + +++++  ++l+i+k+
  PHY93_05650|PHY93_05650  23 TLALALLLPVMMVTIFGLAIEF---NVRNIKIAVYDGDKTQSSRKLIDTLSSSHYFL-VNHSFNQKDAIHSIDSEKDRAALIIEKN 104
                              4445566666666666666544...579***************************98.899999999******************* PP

          ABC2_membrane_3  89 fskdllkgesatvtvlinssnlnsskailnalnsllqqlnasalvlqseatstsaninvestqleeelsnvasflvg.liliilif 173
                              f+++ll+ + a+++++i++++ +++ ++ +++  + ++ + +     ++ ++ +  + ++++ l++++ n+  f+v+ l+++++++
  PHY93_05650|PHY93_05650 105 FEYNLLSERGANAQLMIDGADNSTVGSVTSYFGRIENIAAEK-----ITGKKRPNDVVLKTRFLYNPELNSRWFIVPgLMVVVVAI 185
                              *************************99999988876665544.....45789999999999999*************877777788 PP

          ABC2_membrane_3 174 itasfiavsiveEkesrikelqlvsgvsplqywlskilgdflvyllqlllilll...afglgipfgnlglll.llfllfglayial 255
                              ++++ ++  +++E e++ +el+l+++v+p +++l+k++ +  ++l  + +i ++   +fg  +pf ++ +++    llf+ +y+a+
  PHY93_05650|PHY93_05650 186 LSILLTSLTVAREYENGSMELLLSTPVRPVEIVLGKLTPYIGLGLGAVGFIYIIarvFFG--VPFLGSHFIFlGGCLLFLTTYLAQ 269
                              88888999*************************************888776665565899..****7765555************* PP

          ABC2_membrane_3 256 gyllsslfknsetaqilifivilllsgffggl.fpledlpsalkwifsiiPffapglgllrli.tgdplweillsliilalfavvy 339
                              g+l+s+ ++++   +++ ++  ll+s+++ g+ fp+e++p ++++++ ++P  ++++   ++   g   +e+  ++++lal+++++
  PHY93_05650|PHY93_05650 270 GLLISVTTRKQQISMQFSMMSGLLPSLLLSGFiFPIESMPLFFRVLTAVLPVRWFMEISRDVFlEGSGVYELRHAFLALALICALM 355
                              *****************999999998887777588***************************755556699999**********99 PP

          ABC2_membrane_3 340 lllal 344
                              + +a+
  PHY93_05650|PHY93_05650 356 VTIAA 360
                              99997 PP

>> ABC2_membrane_2  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  104.9   8.6   1.6e-33   4.7e-30       2     285 ..       8     365 ..       7     366 .. 0.93

  Alignments for each domain:
  == domain 1  score: 104.9 bits;  conditional E-value: 1.6e-33
          ABC2_membrane_2   2 aiakkEfrdlvrsrrfllltvllpli..............dvalaylkdlgsslqseakaikeatlaleyveaasasdeaedtdqd 73 
                              a+akkE+  + r++ +l+l++llp++                 +a+++ ++++++++  ++ +++  + ++   +++d++ + d +
  PHY93_05650|PHY93_05650   8 AMAKKEVFHITRDPFTLALALLLPVMmvtifglaiefnvrNIKIAVYDGDKTQSSRKLIDTLSSSHYFLVNHSFNQKDAIHSIDSE 93 
                              89**************************************9********************************9*99988666655 PP

          ABC2_membrane_2  74 lkv..............................................................................vstim 81 
                                +                                                                              v+++m
  PHY93_05650|PHY93_05650  94 KDRaaliieknfeynllserganaqlmidgadnstvgsvtsyfgrieniaaekitgkkrpndvvlktrflynpelnsrwfiVPGLM 179
                              555999******************************************************************************** PP

          ABC2_membrane_2  82 avlipviaalfgadaiagEkergTlkllLskPvsRdeillgKfigglaiglaiavallatvllalaiilalgivlaledllllvva 167
                               v+++++ +l+++  +a+E+e+g+++llLs+Pv   ei+lgK+  ++ +   ++ a++ ++++     + +g+++ ++ +++l   
  PHY93_05650|PHY93_05650 180 VVVVAILSILLTSLTVAREYENGSMELLLSTPVRPVEIVLGKLTPYIGL---GLGAVGFIYII---ARVFFGVPFLGSHFIFLGGC 259
                              *************************************************...99999999655...89999***999988766544 PP

          ABC2_membrane_2 168 svlllllvvflalglllSsvarssreaaalalglfvvlailvpivlygvaellagpavpqeindflsllsptsayntllneilags 253
                               +   +l+++la+gll+S+++r+++ +++ + +  ++ ++l +++ +++ ++++ + v       l+ + p ++++ + + ++  +
  PHY93_05650|PHY93_05650 260 LL---FLTTYLAQGLLISVTTRKQQISMQFSMMSGLLPSLLLSGFIFPIESMPLFFRV-------LTAVLPVRWFMEISRDVFLEG 335
                              44...44579************************************************.......************999998888 PP

          ABC2_membrane_2 254 dlnalgstatnllilllllavllvlgyvlFkr 285
                              +    +     +l+l l++a ++ +++  Fkr
  PHY93_05650|PHY93_05650 336 S--GVYELRHAFLALALICALMVTIAAKKFKR 365
                              4..35677777888888889999999999998 PP

>> ABC2_membrane  ABC-2 type transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.5   0.1   0.00081       2.4       4      40 ..       7      42 ..       4      54 .. 0.88
   2 !   86.9  12.7     4e-28   1.2e-24      52     209 ..     169     332 ..     136     333 .. 0.91

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.00081
            ABC2_membrane  4 kallkreflqrwrdpslgllwrliqplllalvfgtvf 40
                              a+ k+e+  + rdp+++ ++ l+ p+++ ++fg+++
  PHY93_05650|PHY93_05650  7 IAMAKKEVFHITRDPFTL-ALALLLPVMMVTIFGLAI 42
                             68999**********888.99*************986 PP

  == domain 2  score: 86.9 bits;  conditional E-value: 4e-28
            ABC2_membrane  52 r......pgllffsvlflafsaltsvapvferergvlerelvsplyslsayvlakvlvelpvsllqalifllivyflvgldls.rf 130
                              +      pgl++  v  l+ ++lts+ + +e+e+g++e +l++p+ ++ ++vl+k++ ++ ++l ++  + +i+ +++g++   + 
  PHY93_05650|PHY93_05650 169 NsrwfivPGLMVVVVAILS-ILLTSLTVAREYENGSMELLLSTPV-RPVEIVLGKLTPYIGLGLGAVGFIYIIARVFFGVPFLgSH 252
                              0345566************.9999999******************.************************************9777 PP

            ABC2_membrane 131 flflllllltalaasslgllisalapsfedasqla.slvllpllllsGffipidsmpkwlqwiaylnPltyavealrsnl 209
                              f+fl  +ll++ + ++ gllis+ +++++  +q++ +  llp lllsGf++pi+smp +++ +  ++P+++++e+ r ++
  PHY93_05650|PHY93_05650 253 FIFLGGCLLFLTTYLAQGLLISVTTRKQQISMQFSmMSGLLPSLLLSGFIFPIESMPLFFRVLTAVLPVRWFMEISRDVF 332
                              **********************************95778************************************99987 PP

>> DUF3533  Protein of unknown function (DUF3533)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.0   0.0     0.027        81      58     114 ..      68     118 ..      25     135 .. 0.71
   2 !    7.6   0.2   0.00053       1.6     178     224 ..     204     251 ..     178     278 .. 0.81
   3 !   14.5   0.7   4.3e-06     0.013     324     370 ..     301     349 ..     258     358 .. 0.82

  Alignments for each domain:
  == domain 1  score: 2.0 bits;  conditional E-value: 0.027
                  DUF3533  58 ettssslgtwtvvnpsefkeseeeveelvhkekywgaivvkenateklyaalsanga 114
                              +++ss    +  vn  +f  ++++  + ++ ek  +a+++++n+ ++l +   an +
  PHY93_05650|PHY93_05650  68 TLSSS---HYFLVN-HSF--NQKDAIHSIDSEKDRAALIIEKNFEYNLLSERGANAQ 118
                              33322...233343.566..58888899****************9999887755544 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.00053
                  DUF3533 178 na.llaspiafnsidlrPftdgvalaplqvgliyliiltffqfaflgk 224
                               + ll++p++   i l ++t+ ++l++ +vg+iy+i   ff ++flg+
  PHY93_05650|PHY93_05650 204 MElLLSTPVRPVEIVLGKLTPYIGLGLGAVGFIYIIARVFFGVPFLGS 251
                              22589999999999999*************************999986 PP

  == domain 3  score: 14.5 bits;  conditional E-value: 4.3e-06
                  DUF3533 324 tfvPlelspgFYrygyal.PlhniveilrvIffdtak.gqlgrnlgiLl 370
                               ++P+e +p F+r + a+ P++  +ei r++f++++   +l +++  L+
  PHY93_05650|PHY93_05650 301 FIFPIESMPLFFRVLTAVlPVRWFMEISRDVFLEGSGvYELRHAFLALA 349
                              579**************99***************999778888776554 PP

>> ABC2_membrane_4  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.2      0.61   1.8e+03      20      33 ..      25      38 ..       6      53 .. 0.56
   2 !   16.2   8.8   2.6e-06    0.0076      56     172 ..     178     299 ..     160     306 .. 0.64
   3 ?   -1.9   0.2      0.96   2.9e+03     127     152 ..     331     356 ..     307     363 .. 0.50

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 0.61
          ABC2_membrane_4 20 laallvpllallyf 33
                             ++all+p++++++f
  PHY93_05650|PHY93_05650 25 ALALLLPVMMVTIF 38
                             22222222222222 PP

  == domain 2  score: 16.2 bits;  conditional E-value: 2.6e-06
          ABC2_membrane_4  56 lllllplilgi.iasylifrEeqndtlknLltiPvsrtklllaKlivllllsv.llmlvtflitvlfallsgfvgfs.vklvlell 138
                              l++++++il i ++s  + rE++n+ +  Ll  Pv  ++++l+Kl+  + l + ++ ++  ++ v f++ + ++ f   ++ l +l
  PHY93_05650|PHY93_05650 178 LMVVVVAILSIlLTSLTVAREYENGSMELLLSTPVRPVEIVLGKLTPYIGLGLgAVGFIYIIARVFFGVPFLGSHFIfLGGCLLFL 263
                              44556666666378999****************************98877766322222223333333333333332023455677 PP

          ABC2_membrane_4 139 kkclelgllvffavlpi.ial.vllkksyvlplilt 172
                                +l  gll+ +++    i +  ++ ++ +++l+l+
  PHY93_05650|PHY93_05650 264 TTYLAQGLLISVTTRKQqISMqFSMMSGLLPSLLLS 299
                              788888888877766542323134666666666665 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 0.96
          ABC2_membrane_4 127 vgfsvklvlellkkclelgllvffav 152
                              v +++++v+el   +l l+l+++++v
  PHY93_05650|PHY93_05650 331 VFLEGSGVYELRHAFLALALICALMV 356
                              44444444444444444444444333 PP

>> ABC2_membrane_5  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.2       1.3   3.9e+03     188     191 ..      32      35 ..      14      51 .. 0.51
   2 ?   11.6  12.9     5e-05      0.15      39     159 ..     178     295 ..     171     363 .. 0.73

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 1.3
          ABC2_membrane_5 188 viil 191
                              v+++
  PHY93_05650|PHY93_05650  32 VMMV 35 
                              1111 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 5e-05
          ABC2_membrane_5  39 ifsilslvisiililttlsyDekskwnkylltLPvtrkeiVksKYlfvlililiailitlllliiavlikgnvtisevllsiligl 124
                              +++++++++si+l   t++ +  ++++ +ll++Pv+  eiV  K   ++ l+l a+ ++++++    ++ g  ++ + ++++  +l
  PHY93_05650|PHY93_05650 178 LMVVVVAILSILLTSLTVAREYENGSMELLLSTPVRPVEIVLGKLTPYIGLGLGAVGFIYIIA---RVFFGVPFLGSHFIFLGGCL 260
                              45666777777777778888999*****************************99999997777...55666655666667777777 PP

          ABC2_membrane_5 125 vialiflaivlPlyfkfgvekgrivliiiifgiif 159
                              ++ +++la  l +   +  + + + + +++ ++  
  PHY93_05650|PHY93_05650 261 LFLTTYLAQGLLISVTTRKQQISMQFSMMSGLLPS 295
                              77777777777777777766666544444444322 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (367 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       675  (0.0376485); expected 358.6 (0.02)
Passed bias filter:                      389  (0.0216967); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.42
# Mc/sec: 2605.14
//
Query:       PHY93_11635|PHY93_11635  [L=350]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (350 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       177  (0.00987227); expected 358.6 (0.02)
Passed bias filter:                      114  (0.00635841); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.38
# Mc/sec: 2771.18
//
Query:       PHY93_11640|PHY93_11640  [L=76]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
      0.022   14.4   0.1      0.023   14.3   0.1    1.1  1  DEAD_2          DEAD_2
      0.027   14.9   0.4      0.027   14.9   0.4    1.1  1  Spore_II_R      Stage II sporulation protein R (spore_II_R)
      0.032   14.5   0.4      0.037   14.3   0.4    1.1  1  TonB_2          TonB C terminal
      0.033   12.9   0.2      0.073   11.7   0.0    1.6  2  TLV_coat        ENV polyprotein (coat polyprotein)
      0.039   13.2   0.3      0.043   13.0   0.3    1.0  1  HlyD_D23        Barrel-sandwich domain of CusB or HlyD membra
       0.13   12.2   2.5       0.26   11.3   2.5    1.5  1  VitD-bind_III   Vitamin D binding protein, domain III
       0.14   10.8   1.5       0.13   10.9   1.5    1.0  1  Astro_capsid_N  Astrovirus capsid protein precursor


Domain annotation for each model (and alignments):
>> DEAD_2  DEAD_2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.1   9.1e-06     0.023      75     116 ..      15      54 ..       1      65 [. 0.70

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 9.1e-06
                              TT-SCCCCHHHHHHHHHHC---CHHHHHHHHHCT--HHHHHH CS
                   DEAD_2  75 sffenleelkklkkllleevvdiedlvelgeklklCPYylsr 116
                              +   +++  +k+k++++++ ++i +l   g+ ++ CP+y+  
  PHY93_11640|PHY93_11640  15 KV--KQKVKQKVKQKVKQHTMSIITLGTKGNIKERCPFYSNH 54 
                              22..22233445899999999999999999999999999865 PP

>> Spore_II_R  Stage II sporulation protein R (spore_II_R)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.4   1.1e-05     0.027      17      50 ..       4      37 ..       1      72 [. 0.69

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 1.1e-05
               Spore_II_R 17 eDqklKlkvrdavleeleellkeakskeeaeeli 50
                               qk+K+kv+++v +++++++k++ +++ ++ ++
  PHY93_11640|PHY93_11640  4 FKQKVKQKVKQKVKQKVKQKVKQKVKQHTMSIIT 37
                             5688888888888888888886654444444444 PP

>> TonB_2  TonB C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.4   1.4e-05     0.037       3      44 ..       3      47 ..       1      57 [. 0.72

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.4e-05
                   TonB_2  3 eYaakvrarikenwafp.sq...isgnleavveitidpdGeivsvr 44
                             e+++kv++++k++++++ +q   ++ ++ ++ +it+  +G i + r
  PHY93_11640|PHY93_11640  3 EFKQKVKQKVKQKVKQKvKQkvkQKVKQHTMSIITLGTKGNI-KER 47
                             677788888888764444335667999999***********8.655 PP

>> TLV_coat  ENV polyprotein (coat polyprotein)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.1       0.2   5.2e+02     161     170 ..      17      26 ..       2      42 .. 0.37
   2 ?   11.7   0.0   2.9e-05     0.073     479     497 ..      44      62 ..      39      71 .. 0.89

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.2
                              XXXXXXXXXX CS
                 TLV_coat 161 cnkLilaftk 170
                              ++k+++++++
  PHY93_11640|PHY93_11640  17 KQKVKQKVKQ 26 
                              1111111111 PP

  == domain 2  score: 11.7 bits;  conditional E-value: 2.9e-05
                              HTS--------HHHHHHHH CS
                 TLV_coat 479 LkEeCCFyadksgivrdsi 497
                              +kE+C Fy ++sgi  ds 
  PHY93_11640|PHY93_11640  44 IKERCPFYSNHSGILIDST 62 
                              8*************99875 PP

>> HlyD_D23  Barrel-sandwich domain of CusB or HlyD membrane-fusion
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.3   1.7e-05     0.043      66     122 ..       7      61 ..       1      65 [. 0.76

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 1.7e-05
                              XXXXX.XXXXXX.XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                 HlyD_D23  66 alkak.kklkkkelleaarerLrllgvseeqiaelektgkvqktvtvkapisGvVtek 122
                                k+k k++ k++  ++ +++ ++  +s   i +l  +g+++++ +++++ sG+ ++ 
  PHY93_11640|PHY93_11640   7 KVKQKvKQKVKQKVKQKVKQKVKQHTMS---IITLGTKGNIKERCPFYSNHSGILIDS 61 
                              3333303333444788899999999998...99*********************9875 PP

>> VitD-bind_III  Vitamin D binding protein, domain III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   2.5    0.0001      0.26      13      42 ..       3      32 ..       1      36 [. 0.95

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.0001
            VitD-bind_III 13 eyKkrlaeklkkklPeaspeelkelvekrs 42
                             e+K+++++k+k+k+ +  ++++k+ v++++
  PHY93_11640|PHY93_11640  3 EFKQKVKQKVKQKVKQKVKQKVKQKVKQHT 32
                             9**************************997 PP

>> Astro_capsid_N  Astrovirus capsid protein precursor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   1.5     5e-05      0.13      38      75 ..       5      40 ..       2      66 .. 0.55

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 5e-05
           Astro_capsid_N 38 krqksrkvrnkvekqlkkakvrGPkiaitfravvtlGr 75
                             k++  +kv++kv++++k +kv+  k+ +   +++tlG+
  PHY93_11640|PHY93_11640  5 KQKVKQKVKQKVKQKVK-QKVKQ-KVKQHTMSIITLGT 40
                             44444555555544444.23322.23333333444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (76 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      3833  (0.213788); expected 358.6 (0.02)
Passed bias filter:                     1559  (0.0869541); expected 358.6 (0.02)
Passed Vit filter:                       172  (0.0095934); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.46u 0.26s 00:00:00.72 Elapsed: 00:00:00.38
# Mc/sec: 598.03
//
Query:       PHY93_11645|PHY93_11645  [L=527]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   6.4e-181  602.6   2.0   2.1e-171  571.2   0.7    2.0  2  HSP70     Hsp70 protein
    9.8e-18   64.0   0.1    1.5e-17   63.5   0.1    1.3  1  MreB_Mbl  MreB/Mbl protein
    0.00077   18.8   0.8       0.24   10.6   0.0    2.3  2  StbA      StbA protein
  ------ inclusion threshold ------
      0.035   14.5   0.9       0.17   12.3   0.1    2.6  2  FtsA      Cell division protein FtsA
       0.11   12.1   0.0       0.33   10.6   0.0    1.9  1  FGGY_C    FGGY family of carbohydrate kinases, C-terminal dom


Domain annotation for each model (and alignments):
>> HSP70  Hsp70 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.2   0.0   1.8e-11   6.5e-08      29      71 ..      28      71 ..      18      76 .. 0.92
   2 !  571.2   0.7  5.9e-175  2.1e-171     102     553 ..      76     526 ..      71     527 .] 0.99

  Alignments for each domain:
  == domain 1  score: 31.2 bits;  conditional E-value: 1.8e-11
                             SXSSEESEEEEXTT.SEEETHHHHHCTTTTGGGEEEXGGGTTTX CS
                    HSP70 29 gnrttPsvvaFtkk.erlvGeaAkrqavtnpkntvfsvKrliGr 71
                             g ++ Ps+va t + + lvGe+Akrqa++np+ t++++Kr +G 
  PHY93_11645|PHY93_11645 28 GGKAFPSYVAITTDgQMLVGEPAKRQAASNPEGTITAFKRSMGI 71
                             67899*********99***************************6 PP

  == domain 2  score: 571.2 bits;  conditional E-value: 5.9e-175
                              EETTEEEEHHHHHHHHHHHHHHHHHHHHTSBEEEEEEEEXTTXXHHHHHHHHHHHHHTTXEEEEEEEHHHHHHHHHHTCCSSSCEE CS
                    HSP70 102 eaagekftpeqisamvLkklketaeaylgkkvtdavitvPaYfndaqRqatkdAgkiAGLnvlRivNepTAaalaYGldkkdkern 187
                              +  g++f+peq+s+++L+k+k++aea+lg+kv+++v+tvPaYf+d+qR+atkdA kiAGL v R+vNepTAa+laYGld+k +e +
  PHY93_11645|PHY93_11645  76 KLRGKEFSPEQLSSFLLAKIKRDAEAFLGEKVEKCVVTVPAYFDDNQRNATKDACKIAGLSVERLVNEPTAASLAYGLDRKGEELK 161
                              5679********************************************************************************** PP

                              EEEEEEXSSXEEEEEEEEETTEEEEEEEEEETTXSHHHHHHHHHHHHHHHHHHHHSXXGGGSHHHHHHHHHHHHHHHHHTTTSSCS CS
                    HSP70 188 vlvyDlGggtfdvSilelekGvfevkaTagDthlGGedfDealvehlveefkkkegidlskdkkalqrlkeaaekaKkeLSsskqt 273
                              ++v+DlGggt dv ++e++kGvfevkaT+gDt+lGG d+D++lv +l+e++kk++g++++ + ka +rl+eaae aK eLS+ +++
  PHY93_11645|PHY93_11645 162 IVVIDLGGGTLDVTVMEFGKGVFEVKATSGDTQLGGTDMDQKLVAYLIERIKKEYGLNIAGNLKAESRLREAAEMAKVELSTGSSA 247
                              ************************************************************************************** PP

                              EEEEEEEEEETTT.EEEEEEEEHHHHHHHHHHHHHHTHHHHHHHHHHCTEEGGGCSEEEEESGGGGSHHHHHHHHHHTTCHHBSSS CS
                    HSP70 274 einleietvdedg.kdlseklsRakfeelvedllertlepvekalkdaklkkeeidevvlvGGstRiPkvqelvkelfgkepsktv 358
                              +i+l++ ++ +++  +l+++l+R ++e+ ++ +++r+  p+e+a++dakl+ + id +v vGG tR+P v++  +e++ ++++++v
  PHY93_11645|PHY93_11645 248 HISLPYLAALNNQpFHLEIDLTRTELERQIQSVINRCRGPLEQAIQDAKLESKKIDRIVFVGGPTRMPIVRNFFEEFLHQKAESGV 333
                              ********999999************************************************************************ PP

                              HTTTHHHHHHHHHHHHHCTCGCSHCCEEEEBESS-EEEEETTTEEEEEESTTCBSSEEEEEEEEESSTTSSSEEEEEEESSSSBGG CS
                    HSP70 359 npDeavaiGAAvqagvlsgeeevkdllllDvtpLslgietlggvmtkliernttiptkksqvfstaadnqtaveievlqgerelvk 444
                              +p e+va GAA+qagvl+g  ev d+ll DvtpL+lgietlgg++t li+rnt ip kks++f+taad qt+v+++v+qger +++
  PHY93_11645|PHY93_11645 334 DPMECVASGAAIQAGVLAG--EVGDILLVDVTPLTLGIETLGGIATPLISRNTPIPIKKSEMFTTAADMQTSVSVQVFQGERPMTH 417
                              *******************..***************************************************************** PP

                              GSEEEEEEEEECESSCSTTCSEEEEEEEEETTSCEEEEEEETTTCCEEEEEEECCSSSBHHHHHHHHHHHHHCHHHHHHHHHHHHH CS
                    HSP70 445 dnkllgsfeldgippaprGvpqieVtfdidanGiltvsakdketgkeeeitieaseglseeeiekmvkdaeesaeedkkkkeaiea 530
                              dn +lg f+l+g+ p prGvp+ieVtfdida+Gil+v+ kd +++k+++i+i+ s++l e+e ++m+k+ae++ae+dkk++e +++
  PHY93_11645|PHY93_11645 418 DNLSLGLFTLQGLAPSPRGVPKIEVTFDIDASGILNVTTKDLASQKSQSISIQGSTRLAENEKQRMIKEAEKYAEDDKKRREDADK 503
                              ************************************************************************************** PP

                              HHHHHHHHHHHHHHHHHHGGGST CS
                    HSP70 531 kneaeelvyslekkleeeaekvs 553
                               n a++++y++ek+l++ ++k++
  PHY93_11645|PHY93_11645 504 INLADSVCYEAEKTLADYGSKLD 526
                              *****************988876 PP

>> MreB_Mbl  MreB/Mbl protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.5   0.1   4.1e-21   1.5e-17      92     317 ..     106     345 ..      31     351 .. 0.78

  Alignments for each domain:
  == domain 1  score: 63.5 bits;  conditional E-value: 4.1e-21
                              S--EEEEEE-SS--HHHHHHHHHHHHHTT-SEEEEEEHHHHHHHHTT--TTSSS-E.EEEEE-SS-EEEEEEETTEEE.....EEE CS
                 MreB_Mbl  92 skprvvicvPsgiteverrAvkeaakkaGarevllieeplaAAiGaglpveepsgn.mvvdiGggttevavislggiv.....tsk 171
                              + ++ v++vP   ++ +r+A k+a+k aG +   l++ep aA +  gl+ +  + + +v+d+Gggt +v+v+ +g  v     ts 
  PHY93_11645|PHY93_11645 106 KVEKCVVTVPAYFDDNQRNATKDACKIAGLSVERLVNEPTAASLAYGLDRKGEELKiVVIDLGGGTLDVTVMEFGKGVfevkaTSG 191
                              56789********************************************98766651678**************976522222344 PP

                              EES-SHHHHHHHHHHH....HHHHHSEE-.-HHHHHHHHHHH-BSS--HHHH..EEEEEEEETTTTCEEEEEEEHHHHHHHHHHHH CS
                 MreB_Mbl 172 svrvaGdeldeaiiky....irkkynlli.Gertaekikieigsavkeeeee..kmeikGrdlvtglpkevevsseevrealkepv 250
                                +++G ++d++++ y    i+k+y l i G+ +ae+   e ++++k e ++  + +i+   l+    + ++++ +  r  l+ ++
  PHY93_11645|PHY93_11645 192 DTQLGGTDMDQKLVAYlierIKKEYGLNIaGNLKAESRLREAAEMAKVELSTgsSAHISLPYLAALNNQPFHLEIDLTRTELERQI 277
                              5799********99995555799999988456667765555554444443333455555555544444445555556688999999 PP

                              HHHHHHHHHHHHTS..-HHHHHHHHHH-EEEESGGGGSBTHHHHHHHHHSS-EEE-SSTTTHHHHHHHH CS
                 MreB_Mbl 251 saiveavkevLekt..ppeLaadivdrgivltGGgallkgldkllseetglpvkvaedpltcvakGtgk 317
                              +++++  +  Le++   + L +  +dr iv++GG + +  ++++++e ++ + + + dp++cva+G+++
  PHY93_11645|PHY93_11645 278 QSVINRCRGPLEQAiqDAKLESKKIDR-IVFVGGPTRMPIVRNFFEEFLHQKAESGVDPMECVASGAAI 345
                              999999999999973356799999999.6667**********************************976 PP

>> StbA  StbA protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.9   0.6    0.0018       6.5     164     180 ..     161     177 ..     144     190 .. 0.81
   2 !   10.6   0.0   6.8e-05      0.24     169     283 ..     194     313 ..     190     328 .. 0.83

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.0018
                     StbA 164 slLiiDlGGttLDvakv 180
                              + ++iDlGG tLDv+ +
  PHY93_11645|PHY93_11645 161 KIVVIDLGGGTLDVTVM 177
                              4679**********854 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 6.8e-05
                     StbA 169 DlGGttLDvakvrgklegiskvkgdskiGvslitdavkealetaktrtss....flad.eliknrkdeeyLkrrindedkresvle 249
                               lGGt +D   v   +e i k +g +  G     + ++ea e+ak++ s+    ++    l    ++  +L+  ++ ++   ++ +
  PHY93_11645|PHY93_11645 194 QLGGTDMDQKLVAYLIERIKKEYGLNIAGNLKAESRLREAAEMAKVELSTgssaHISLpYLAALNNQPFHLEIDLTRTELERQIQS 279
                              59***************************999999999887776665543101133321455566777789999************ PP

                     StbA 250 vinekvkkLkerviravsefsgythvmvvGGGae 283
                              vin+    L++ +++a  e +++ +++ vGG + 
  PHY93_11645|PHY93_11645 280 VINRCRGPLEQAIQDAKLESKKIDRIVFVGGPTR 313
                              ******************************9765 PP

>> FtsA  Cell division protein FtsA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.1   4.7e-05      0.17       1      61 [.     163     233 ..     163     344 .. 0.50
   2 ?   -1.4   0.1      0.87   3.1e+03      37      50 ..     480     493 ..     436     519 .. 0.64

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 4.7e-05
                              EEEEE-SSSEEEEEEETTEEEE.....EEEES--HHHHHHHHHHHHT--HHHHHHHHHHH--S--...........E CS
                              xxxxxxxxxxxxxxxxxxxxxx.....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...........x RF
                     FtsA   1 alvDiGagktdvavaedgalvh.....lrvigvggngitkdiakalrtaveeAerikikyGsala...........e 61 
                              +++D+G+g+ dv+v+e g+ v+     +   ++gg  +++ ++  l       erik++yG  +a            
  PHY93_11645|PHY93_11645 163 VVIDLGGGTLDVTVMEFGKGVFevkatSGDTQLGGTDMDQKLVAYL------IERIKKEYGLNIAgnlkaesrlreA 233
                              79***************97554444333333447777777744333......3555555555554444333333331 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.87
                              HHHHHT--HHHHHH CS
                              xxxxxxxxxxxxxx RF
                     FtsA  37 iakalrtaveeAer 50 
                               ++++++a + Ae 
  PHY93_11645|PHY93_11645 480 KQRMIKEAEKYAED 493
                              33444444444444 PP

>> FGGY_C  FGGY family of carbohydrate kinases, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   9.3e-05      0.33     139     196 ..     288     349 ..     195     351 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 9.3e-05
                   FGGY_C 139 lealekd...sgkpldrlavdGGgskndllmqllAdilgvpVerpkt.aeatalGaAilAav 196
                              le+  +d   + k++dr++ +GG ++ + ++ ++ + l  + e   +  e++a GaAi A+v
  PHY93_11645|PHY93_11645 288 LEQAIQDaklESKKIDRIVFVGGPTRMPIVRNFFEEFLHQKAESGVDpMECVASGAAIQAGV 349
                              3444333444899**************************887776556************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (527 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       979  (0.0546043); expected 358.6 (0.02)
Passed bias filter:                      649  (0.0361983); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.69u 0.27s 00:00:00.96 Elapsed: 00:00:00.43
# Mc/sec: 3713.22
//
Query:       PHY93_11650|PHY93_11650  [L=336]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.9e-34  116.6   0.2    1.3e-32  113.0   0.3    2.0  1  DnaJ_C           DnaJ C terminal domain
    1.7e-26   92.1   0.3    2.6e-26   91.5   0.3    1.3  1  DnaJ             DnaJ domain
    1.9e-12   47.4  14.6    3.6e-12   46.5  14.6    1.5  1  DnaJ_CXXCXGXG    DnaJ central domain
    0.00087   19.2  16.5      0.088   12.8   3.6    3.4  4  Anti-TRAP        Tryptophan RNA-binding attenuator protein in
  ------ inclusion threshold ------
      0.067   12.8   0.3      0.067   12.8   0.3    2.1  2  TackOD1          Thaumarchaeal output domain 1
       0.15   12.5   6.3       0.34   11.4   6.2    1.7  1  Cytochrom_c3_2   Cytochrome c3
       0.26   11.3   8.0       0.94    9.5   8.2    1.8  1  Cytochrome_C7    Cytochrome c7 and related cytochrome c
       0.34   11.3   2.6       0.61   10.5   2.6    1.4  1  Cytochrom_CIII   Class III cytochrome C family
        0.6   10.2   5.6       0.96    9.6   2.8    2.2  2  DUF1272          Protein of unknown function (DUF1272)
       0.63   10.1   9.7        3.9    7.5   1.6    2.3  2  HypA             Hydrogenase/urease nickel incorporation, met
       0.72    9.3   7.3        3.8    7.0   0.1    3.1  3  zf_Rg            Reverse gyrase zinc finger
        1.3    9.2   9.2          6    7.0   9.4    2.0  2  DZR              Double zinc ribbon
        1.6    8.6   7.1       0.15   11.9   1.4    2.2  2  Paired_CXXCH_1   Doubled CXXCH motif (Paired_CXXCH_1)
        6.8    6.6   8.1        8.2    6.3   0.6    3.2  3  CxC3             CxC3 like cysteine cluster associated with K
        9.9    6.1   5.9        3.1    7.8   0.2    2.3  2  RseC_MucC        Positive regulator of sigma(E), RseC/MucC


Domain annotation for each model (and alignments):
>> DnaJ_C  DnaJ C terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  113.0   0.3     1e-35   1.3e-32       2     142 ..     119     330 ..     118     333 .. 0.91

  Alignments for each domain:
  == domain 1  score: 113.0 bits;  conditional E-value: 1e-35
                              EEEEEE-HHHHHH-.EEE.EEEE............................................................... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx............................................................ RF
                   DnaJ_C   2 eveleisleelykGktkkikikrnvi............................................................ 27 
                              ev  ++sl+ +++G +  i++  ++                                                             
  PHY93_11650|PHY93_11650 119 EVYFDVSLDKIMFGGSVPITLLVKDScsnckgsgavpgtqpktcdechgtgetiitsseknvliknittcfkchgkgvliekpcpq 204
                              67788999999999999888866655788888889999999999999999999999999999999999****************** PP

                              ..........TEEEEEE-TT--TT-EEEETT-SS..SS....S---EEEEEEE---SS-EEETTEEEEEEEEEHHHHHHTEEEEEE CS
                              ......xxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   DnaJ_C  28 ......kkekktlevkipaGikdgqkirlegeGd..eeg..gepGDlivtikvkphpvFkrkgndlyveveislaeallGgklevp 103
                                    ++++k++ev+ip+Gi+dg+ ++++g+G   + +  g pGDl+v+++ +++p+F+r g dly+ v+i++ +a+lG+k+ev+
  PHY93_11650|PHY93_11650 205 cggtgmTRKEKKIEVSIPKGIEDGTILKVQGHGAmaP-TsaGVPGDLLVIVRTQEDPRFQRAGPDLYCAVTIPVYDAVLGTKIEVQ 289
                              *****9777889**********************652.157***********99******************************** PP

                              -SS-EEEEEE...--TT-EEEETT-S-EET...TEE--EEEE CS
                              xxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   DnaJ_C 104 tldgkvklki...tqpgevlrikgkGmpklkkpgkrGdlyve 142
                              tldgk+ +++   tq++++lr+ gkG+pk + ++++Gdly e
  PHY93_11650|PHY93_11650 290 TLDGKIVVNVpkgTQSQTTLRVTGKGLPKFN-QTGFGDLYEE 330
                              ********99999*****************7.*******965 PP

>> DnaJ  DnaJ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   91.5   0.3   2.2e-29   2.6e-26       1      63 []       6      67 ..       6      67 .. 0.99

  Alignments for each domain:
  == domain 1  score: 91.5 bits;  conditional E-value: 2.2e-29
                             HHHHHHTSSTTG-HHHHHHHHHHHHHHHSTTTSCCHHHHHHHHHHHHHHHHHHTSHHHHHHHH CS
                     DnaJ  1 dyYeiLgvskdasedeIkkaYrklalkyHPDknpkdpeaeekFkeineAyevLsdpekRkqYD 63
                             d+Ye+Lgvsk+a++++Ik a+r+lal+yHPD+n k+p aee+Fkei+ Ay vLsdpekR+qYD
  PHY93_11650|PHY93_11650  6 DLYEVLGVSKEADANQIKDAFRELALRYHPDRN-KEPGAEERFKEIAGAYAVLSDPEKRQQYD 67
                             79*******************************.****************************9 PP

>> DnaJ_CXXCXGXG  DnaJ central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.5  14.6     3e-15   3.6e-12       1      67 []     145     209 ..     145     217 .. 0.84

  Alignments for each domain:
  == domain 1  score: 46.5 bits;  conditional E-value: 3e-15
            DnaJ_CXXCXGXG   1 CkkCkGsgakkgk.kktCktCkGsGvvreeqktlgpfvqqsqstCpeCeGtGkvikekdkCkkCkGkg 67 
                              C++CkGsga +g+ +ktC++C+G+G++  +++  +++  ++ +tC +C+G+G +i  +++C++C G+g
  PHY93_11650|PHY93_11650 145 CSNCKGSGAVPGTqPKTCDECHGTGETIITSS-EKNVLIKNITTCFKCHGKGVLI--EKPCPQCGGTG 209
                              *********99666***********6444432.3445556789************..779******86 PP

>> Anti-TRAP  Tryptophan RNA-binding attenuator protein inhibitory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.8   3.6   7.4e-05     0.088      12      41 ..     144     170 ..     140     185 .. 0.79
   2 !   11.7   1.6   0.00016      0.19      12      42 ..     161     197 ..     158     198 .. 0.70
   3 !   10.9   3.3   0.00028      0.33      11      42 ..     186     211 ..     180     218 .. 0.90
   4 !    9.3   1.0   0.00093       1.1      10      47 ..     199     235 ..     197     246 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 7.4e-05
                              E-TTTTTTSEETTE......E-TTTTTSSE CS
                Anti-TRAP  12 kCdaCngsGkiepeeprasleCPkCsGkgl 41 
                               C +C+gsG +++++p+    C +C G g 
  PHY93_11650|PHY93_11650 144 SCSNCKGSGAVPGTQPK---TCDECHGTGE 170
                              7*************777...7999999873 PP

  == domain 2  score: 11.7 bits;  conditional E-value: 0.00016
                              E-TTTTTTSEETTE............E-TTTTTSSEE CS
                Anti-TRAP  12 kCdaCngsGkiepe..ep....rasleCPkCsGkgli 42 
                              +Cd+C+g+G+   +  e+    +    C kC Gkg++
  PHY93_11650|PHY93_11650 161 TCDECHGTGETIITssEKnvliKNITTCFKCHGKGVL 197
                              8********965443344111134558********97 PP

  == domain 3  score: 10.9 bits;  conditional E-value: 0.00028
                              EE-TTTTTTSEETTE......E-TTTTTSSEE CS
                Anti-TRAP  11 tkCdaCngsGkiepeeprasleCPkCsGkgli 42 
                              t+C +C+g G    +      +CP+C+G g+ 
  PHY93_11650|PHY93_11650 186 TTCFKCHGKGVLIEK------PCPQCGGTGMT 211
                              79*********9999......*******9985 PP

  == domain 4  score: 9.3 bits;  conditional E-value: 0.00093
                              EEE-TTTTTTSEETTE......E-TTTTTSSEEE-HHH CS
                Anti-TRAP  10 EtkCdaCngsGkiepeeprasleCPkCsGkglipTaqG 47 
                              E++C++C g+G    e ++  +  Pk    g i+  qG
  PHY93_11650|PHY93_11650 199 EKPCPQCGGTGMTRKE-KKIEVSIPKGIEDGTILKVQG 235
                              8899999999988877.666777777666666666665 PP

>> TackOD1  Thaumarchaeal output domain 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   1.5      0.76     9e+02      86      96 ..     141     151 ..     137     171 .. 0.50
   2 ?   12.8   0.3   5.6e-05     0.067      68     101 ..     180     213 ..     175     218 .. 0.87

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 0.76
                  TackOD1  86 vrevCpkCkSi 96 
                              v+++C++Ck +
  PHY93_11650|PHY93_11650 141 VKDSCSNCKGS 151
                              55555555432 PP

  == domain 2  score: 12.8 bits;  conditional E-value: 5.6e-05
                  TackOD1  68 elvdrirlCpsCksghlnvrevCpkCkSidieeq 101
                               l+++i +C +C+++ + + + Cp+C+ + ++++
  PHY93_11650|PHY93_11650 180 VLIKNITTCFKCHGKGVLIEKPCPQCGGTGMTRK 213
                              57899*********************99887765 PP

>> Cytochrom_c3_2  Cytochrome c3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   6.2   0.00029      0.34       8      78 ..     144     205 ..     141     207 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00029
                              TGGGTSSSST-SSTTHHHHHHHHHHH--HHHCHTTSST.TSSBTTSSCTSSS-GGGTS-TTTSBT-GGGGT CS
           Cytochrom_c3_2   8 kCadCHtkekpkkdkaveeekClsCHgkleelakktkeakeanphkshekeleCteCHkeHkksekvCaeC 78 
                              +C++C ++  +     ++ ++C +CHg+ e++ +++++      +  +++ ++C +CH +    ek C +C
  PHY93_11650|PHY93_11650 144 SCSNCKGSGAV---PGTQPKTCDECHGTGETIITSSEK------NVLIKNITTCFKCHGKGVLIEKPCPQC 205
                              69999988886...4567799******99999988774......445567788999999998888889888 PP

>> Cytochrome_C7  Cytochrome c7 and related cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   8.2   0.00078      0.94      13      71 ..     159     205 ..     141     207 .. 0.72

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00078
            Cytochrome_C7  13 gykCtdCHsklfeskakkkmaemekgkskkaeves.ltCgaCHdgknafsvakkaeCakC 71 
                               ++C++CH++          + + +++ k++ +++ +tC +CH +        ++ C +C
  PHY93_11650|PHY93_11650 159 PKTCDECHGTG---------ETIITSSEKNVLIKNiTTCFKCHGKGVLI----EKPCPQC 205
                              579*****998.........233333444556777799*****988776....4566666 PP

>> Cytochrom_CIII  Class III cytochrome C family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   2.6   0.00051      0.61      33      87 ..     144     196 ..     138     212 .. 0.71

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00051
                              THHHTSTT.CTTSCSTS-CTCTS-SSSTTTSTTCHHHHHHCSSTTTCHHHHHHHHH CS
           Cytochrom_CIII  33 eCeeCHhk.eeekeeiekcstcHaeekekkekkslekavHkkkaaksCvgCHkkkk 87 
                              +C++C       +++ ++c +cH +  e+  ++s ++++ k  + ++C++CH k  
  PHY93_11650|PHY93_11650 144 SCSNCKGSgAVPGTQPKTCDECHGTG-ETIITSSEKNVLIK--NITTCFKCHGKGV 196
                              799999886566789999*****988.44444444444444..4569*****8755 PP

>> DUF1272  Protein of unknown function (DUF1272)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   0.0      0.49   5.8e+02      40      49 ..     141     150 ..     137     154 .. 0.75
   2 ?    9.6   2.8    0.0008      0.96       8      54 ..     162     212 ..     159     215 .. 0.63

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.49
                  DUF1272  40 lenvCPncgG 49 
                              +++ C nc G
  PHY93_11650|PHY93_11650 141 VKDSCSNCKG 150
                              4678888887 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 0.0008
                  DUF1272   8 CecCd...kdlppdseearicsyEctFCaeCaee.vl.envCPncgGelvkR 54 
                              C+ C    +++ ++s e  +     t C +C+ + vl e+ CP+cgG  ++R
  PHY93_11650|PHY93_11650 162 CDECHgtgETIITSS-EKNVLIKNITTCFKCHGKgVLiEKPCPQCGGTGMTR 212
                              555531114444444.55555667899****97633359********76665 PP

>> HypA  Hydrogenase/urease nickel incorporation, metallochaperone, hypA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   1.6    0.0032       3.9      72     107 ..     144     180 ..     137     186 .. 0.76
   2 ?    7.5   1.2    0.0033       3.9      70      99 ..     185     212 ..     181     222 .. 0.78

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0032
                              EETTTS-EEECHH.HHHS-TTTSSS-EEEEESSSEEE CS
                     HypA  72 rCreCgkefelee.kalrCpkCgsadveivsGeellv 107
                               C++C+ ++ +   +  +C +C++++ +i++ +e +v
  PHY93_11650|PHY93_11650 144 SCSNCKGSGAVPGtQPKTCDECHGTGETIITSSEKNV 180
                              7*****999976634668*******999998776443 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0033
                              EEEETTTS-EEECHHHHHS-TTTSSS-EEE CS
                     HypA  70 kvrCreCgkefeleekalrCpkCgsadvei 99 
                               ++C +C+ ++ l ek   Cp+Cg+++++ 
  PHY93_11650|PHY93_11650 185 ITTCFKCHGKGVLIEK--PCPQCGGTGMTR 212
                              578*****99997755..8*****998765 PP

>> zf_Rg  Reverse gyrase zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.0   0.1    0.0032       3.8       2      15 ..     137     150 ..     136     153 .. 0.92
   2 ?   -2.5   0.4       2.9   3.4e+03       8      15 ..     160     167 ..     159     170 .. 0.79
   3 ?    5.6   0.1    0.0086        10       5      16 ..     197     208 ..     195     215 .. 0.86

  Alignments for each domain:
  == domain 1  score: 7.0 bits;  conditional E-value: 0.0032
                    zf_Rg   2 ikavfeklCPNCgG 15 
                              i+++++ +C NC+G
  PHY93_11650|PHY93_11650 137 ITLLVKDSCSNCKG 150
                              7899*********9 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 2.9
                    zf_Rg   8 klCPNCgG 15 
                              k C  C+G
  PHY93_11650|PHY93_11650 160 KTCDECHG 167
                              67889998 PP

  == domain 3  score: 5.6 bits;  conditional E-value: 0.0086
                    zf_Rg   5 vfeklCPNCgGd 16 
                              ++ek CP CgG 
  PHY93_11650|PHY93_11650 197 LIEKPCPQCGGT 208
                              67999*****95 PP

>> DZR  Double zinc ribbon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   3.5      0.19   2.3e+02      15      34 ..     145     165 ..     132     166 .. 0.60
   2 ?    7.0   9.4     0.005         6       1      49 []     145     206 ..     142     208 .. 0.80

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.19
                      DZR  15 CseCgtklkavaa.edrCpsC 34 
                              Cs+C+ +   + + +++C++C
  PHY93_11650|PHY93_11650 145 CSNCKGSGAVPGTqPKTCDEC 165
                              666655532222236666666 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.005
                      DZR   1 CpqCgee...lppdarfCseCgtk...lkavaa..........edrCpsCgekvdpearfCpeCG 49 
                              C++C+        + ++C+eC  +   +    +           ++C +C+ k  + ++ Cp+CG
  PHY93_11650|PHY93_11650 145 CSNCKGSgavPGTQPKTCDECHGTgetII---TsseknvliknITTCFKCHGKGVLIEKPCPQCG 206
                              8888776554456788*****88844433...3445899**999*********99999******9 PP

>> Paired_CXXCH_1  Doubled CXXCH motif (Paired_CXXCH_1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.4       3.5   4.1e+03       6      12 ..     142     148 ..     140     148 .. 0.66
   2 ?   11.9   1.4   0.00012      0.15       8      39 ..     161     194 ..     154     196 .. 0.81

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 3.5
           Paired_CXXCH_1   6 egeClsC 12 
                              +++C++C
  PHY93_11650|PHY93_11650 142 KDSCSNC 148
                              4558888 PP

  == domain 2  score: 11.9 bits;  conditional E-value: 0.00012
           Paired_CXXCH_1   8 eClsCH....nphgsdnpkllkkakgaalCysCHde 39 
                               C  CH        s +++ l   k+  +C++CH +
  PHY93_11650|PHY93_11650 161 TCDECHgtgeTIITSSEKNVL--IKNITTCFKCHGK 194
                              5*****888766777777777..5899*******86 PP

>> CxC3  CxC3 like cysteine cluster associated with KDZ transposases
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.3   0.1      0.12   1.4e+02       2      21 ..     135     154 ..     134     158 .. 0.84
   2 ?    6.3   0.6    0.0068       8.2       3      31 ..     153     181 ..     151     195 .. 0.76
   3 ?    2.2   0.1      0.13   1.6e+02       7      28 ..     197     217 ..     194     227 .. 0.77

  Alignments for each domain:
  == domain 1  score: 2.3 bits;  conditional E-value: 0.12
                     CxC3   2 vcvpclppsccgeCkktgtl 21 
                              v++ +l+++ c++Ck +g +
  PHY93_11650|PHY93_11650 135 VPITLLVKDSCSNCKGSGAV 154
                              78899**********99865 PP

  == domain 2  score: 6.3 bits;  conditional E-value: 0.0068
                     CxC3   3 cvpclppsccgeCkktgtltlkageesia 31 
                              +vp   p++c+eC+ tg    +++e++++
  PHY93_11650|PHY93_11650 153 AVPGTQPKTCDECHGTGETIITSSEKNVL 181
                              699999***********755555555554 PP

  == domain 3  score: 2.2 bits;  conditional E-value: 0.13
                     CxC3   7 lppsccgeCkktgtltlkagee 28 
                              l++++c++C  tg +t+k+++ 
  PHY93_11650|PHY93_11650 197 LIEKPCPQCGGTG-MTRKEKKI 217
                              67899********.66666544 PP

>> RseC_MucC  Positive regulator of sigma(E), RseC/MucC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   1.4      0.43   5.1e+02       7      26 ..     133     152 ..     130     184 .. 0.66
   2 ?    7.8   0.2    0.0026       3.1      11      62 ..     180     239 ..     171     246 .. 0.82

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.43
                RseC_MucC   7 gtaeVeierksaCgsCaaks 26 
                              g + ++   k +C++C+ ++
  PHY93_11650|PHY93_11650 133 GSVPITLLVKDSCSNCKGSG 152
                              56667777889999999765 PP

  == domain 2  score: 7.8 bits;  conditional E-value: 0.0026
                RseC_MucC  11 VeierksaCgsCaaks........sCklsaleskekrleveneigakvGdkVevgieeks 62 
                              V i++ ++C +C+ k+        +C  +++++kek++ev+ ++g++ G   +v+ + ++
  PHY93_11650|PHY93_11650 180 VLIKNITTCFKCHGKGvliekpcpQCGGTGMTRKEKKIEVSIPKGIEDGTILKVQGHGAM 239
                              67788899*****99999999777774479*******************99999876655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (336 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       727  (0.0405488); expected 358.6 (0.02)
Passed bias filter:                      584  (0.0325729); expected 358.6 (0.02)
Passed Vit filter:                        83  (0.00462937); expected 17.9 (0.001)
Passed Fwd filter:                        21  (0.00117129); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.56u 0.22s 00:00:00.78 Elapsed: 00:00:00.37
# Mc/sec: 2689.29
//
Query:       PHY93_11655|PHY93_11655  [L=331]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    8.2e-20   71.6   0.7    8.2e-20   71.6   0.7    2.0  2  LON_substr_bdg  ATP-dependent protease La (LON) substrate-bin
  ------ inclusion threshold ------
      0.024   14.0   3.9      0.031   13.7   2.7    1.7  2  Cluap1          Clusterin-associated protein-1
       0.21   12.2   0.9         13    6.4   0.0    2.7  2  Phage_pRha      Phage regulatory protein Rha (Phage_pRha)


Domain annotation for each model (and alignments):
>> LON_substr_bdg  ATP-dependent protease La (LON) substrate-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   71.6   0.7   1.4e-23   8.2e-20       2     205 ..      13     204 ..      12     206 .. 0.83
   2 ?    0.1   0.4      0.11   6.4e+02     109     109 ..     253     253 ..     205     322 .. 0.49

  Alignments for each domain:
  == domain 1  score: 71.6 bits;  conditional E-value: 1.4e-23
           LON_substr_bdg   2 lpllpldnkvlfPgitlpltvsrpksiaaierlldkdkpyigvflvkesqkdaideesiselysvGtvarIvqilrlddgrikvvl 87 
                               p+l+l++ vlfP+i lp+ ++++k  +ai+++l   ++++ v+ v+   k++i+  + ++ly+vGt a I ++ r +dg i++ l
  PHY93_11655|PHY93_11655  13 APVLSLNDAVLFPEILLPIAIFSQKGKEAINAALAGPEKTLIVVSVRIFAKEKIE-VNEDDLYQVGTKAIISHMARYEDG-ISLSL 96 
                              59**********************************6664444444223333322.369***************877555.88*** PP

           LON_substr_bdg  88 egleRvkikklekekeegylvaeveiieddsepedsdslqkelkalvqeiiekikkslarellkllleielllkyedlenpyrLad 173
                               g+eR+ki+k   e+  +yl a+ +++      +  d+ + e++al +e ++k+++  ++ +++    i +++ ++++++p + ++
  PHY93_11655|PHY93_11655  97 SGIERIKINKY--ESHVPYLLAQSTPY------PLLDDSDPESEALNRETLKKFEE--MKLNVQTENGISISELIKNVPDPVHQSY 172
                              ***********..559********888......33333446888888898888887..467777777899**************** PP

           LON_substr_bdg 174 lvaailpfsneekqelLeeldvedRlkkvlel 205
                              l+a ++ +  ++ q lLe+ + ++ +k+  + 
  PHY93_11655|PHY93_11655 173 LMAVVMGLAVDKSQVLLEAKSTKEVCKIMHDY 204
                              *********************99988887665 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.11
           LON_substr_bdg 109 a 109
                              +
  PHY93_11655|PHY93_11655 253 G 253
                              1 PP

>> Cluap1  Clusterin-associated protein-1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0      0.32   1.9e+03      60      81 ..      60      81 ..      54      83 .. 0.82
   2 ?   13.7   2.7   5.3e-06     0.031     139     227 ..     201     293 ..     181     307 .. 0.81

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.32
                   Cluap1 60 latkasikLntkkLYaAdgaAv 81
                             + +k +i++n   LY+    A+
  PHY93_11655|PHY93_11655 60 IFAKEKIEVNEDDLYQVGTKAI 81
                             678999*********9988876 PP

  == domain 2  score: 13.7 bits;  conditional E-value: 5.3e-06
                   Cluap1 139 LydlLekeve...lreartkalsrqleleeiekalkeaikkvkeelektkkalenlesdeanLeaki.ekkkqeleraqkrLqslq 220
                              ++d ++ e +   lr++ +k+++ +l  e+ e  l+++++++++el +++++ +  e +++ L+  + ek + e+ ++ krL++l+
  PHY93_11655|PHY93_11655 201 MHDYISYEDNvqmLRDRISKQVADELGKEQKEYVLRRQLSEIQKELGDVTDKGTIREMEDQLLKGGLpEKAHDEVKKQLKRLSQLT 286
                              4566666666444677777788899999************************999999999999887467788999********** PP

                   Cluap1 221 svrPafm 227
                              ++ P + 
  PHY93_11655|PHY93_11655 287 EMSPEYQ 293
                              ****993 PP

>> Phage_pRha  Phage regulatory protein Rha (Phage_pRha)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.6   0.2     0.016        95      15      60 ..     195     240 ..     189     261 .. 0.60
   2 ?    6.4   0.0    0.0022        13      11      39 ..     269     308 ..     266     331 .] 0.61

  Alignments for each domain:
  == domain 1  score: 3.6 bits;  conditional E-value: 0.016
               Phage_pRha  15 knVlrdIrkliedleefgkelnfeeseykdsngretkvylltrdgf 60 
                              k+V++    +i++  +++  ++   ++  d+ g+e+k+y l r+ +
  PHY93_11655|PHY93_11655 195 KEVCKIMHDYISYEDNVQMLRDRISKQVADELGKEQKEYVLRRQLS 240
                              5555555555555544443332224555666666666666666544 PP

  == domain 2  score: 6.4 bits;  conditional E-value: 0.0022
               Phage_pRha  11 gkrHknVlrdIrkliedleefgke...lnfe...........e 39 
                              +k H++V++++++l ++l+e++ e                  +
  PHY93_11655|PHY93_11655 269 EKAHDEVKKQLKRL-SQLTEMSPEyqvI--DsyvksllelpwN 308
                              799**********9.9999999775440..1334344444432 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (331 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1198  (0.0668191); expected 358.6 (0.02)
Passed bias filter:                      641  (0.0357521); expected 358.6 (0.02)
Passed Vit filter:                        66  (0.00368119); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.53u 0.22s 00:00:00.75 Elapsed: 00:00:00.38
# Mc/sec: 2644.75
//
Query:       PHY93_11660|PHY93_11660  [L=307]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.4e-19   69.6   0.0    5.4e-19   68.9   0.0    1.3  1  AAA            ATPase family associated with various cellular
    4.1e-19   68.9   0.0    8.5e-19   67.9   0.0    1.5  1  Lon_C          Lon protease (S16) C-terminal proteolytic doma
    9.4e-09   35.4   0.0    1.7e-08   34.5   0.0    1.5  1  AAA_5          AAA domain (dynein-related subfamily)
     0.0012   19.2   0.9       0.12   12.6   0.3    2.7  2  AAA_22         AAA domain
     0.0014   18.7   0.0     0.0031   17.6   0.0    1.6  1  AAA_2          AAA domain (Cdc48 subfamily)
     0.0018   18.0   0.0       0.01   15.6   0.0    2.1  2  RuvB_N         Holliday junction DNA helicase RuvB P-loop dom
     0.0019   18.6   0.2      0.019   15.4   0.0    2.2  2  AAA_16         AAA ATPase domain
     0.0023   17.9   0.4       0.53   10.2   0.0    2.6  2  NTPase_1       NTPase
     0.0076   16.8   0.0      0.016   15.8   0.0    1.6  1  AAA_18         AAA domain
      0.009   16.4   0.0      0.017   15.5   0.0    1.5  1  RNA_helicase   RNA helicase
  ------ inclusion threshold ------
      0.013   15.6   0.0      0.023   14.9   0.0    1.4  1  AAA_33         AAA domain
      0.014   15.2   0.0       0.03   14.2   0.0    1.6  1  AAA_3          ATPase family associated with various cellular
      0.023   14.4   0.0      0.049   13.4   0.0    1.6  1  IstB_IS21      IstB-like ATP binding protein
       0.04   13.8   0.0       0.18   11.7   0.0    2.1  3  NACHT          NACHT domain
      0.052   13.6   0.1      0.098   12.7   0.1    1.4  1  ClpB_D2-small  C-terminal, D2-small domain, of ClpB protein
       0.09   12.9   0.1       0.27   11.4   0.1    1.8  1  SKI            Shikimate kinase
      0.092   12.8   0.0       0.16   12.0   0.0    1.4  1  AAA_14         AAA domain
      0.092   13.2   0.1       0.27   11.7   0.1    1.9  1  AAA_23         AAA domain


Domain annotation for each model (and alignments):
>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.9   0.0   5.4e-22   5.4e-19       1     126 [.       2     138 ..       2     144 .. 0.95

  Alignments for each domain:
  == domain 1  score: 68.9 bits;  conditional E-value: 5.4e-22
                              EEEESSTTSSHHHHHHHHHHHHTHEEEEEETTTCSSS.........STTHHHHHHHHHHHHHHHTSTSEEEEEETGGGHHHHHTTC CS
                      AAA   1 vllyGppGtGKTllakavakelgvefleisgsellsk.........yvgesekkirelfkeakekakpsilfiDEidalaksrsgs 77 
                              ++++GppG+GKT+l +++a+ lg++f ++s+  + ++         y+g+ + +i e +++a+ ++    +++DEid+++ +    
  PHY93_11660|PHY93_11660   2 LCFVGPPGVGKTSLGQSIARALGRKFERMSLGGMHDEaelrghrrtYIGAIPGRIMESIRRAQVNN--PLIMLDEIDKMGVD---- 81 
                              589********************************889*************************999..9**********655.... PP

                              CCHHHHHHHHHHHHHHHHTTTS............SSTEEEEEEESSGGGSTHHHHSTTSSE CS
                      AAA  78 eseeeervvnqLlteldgvkkk............eskvivigatnrpdkldpallrgRfdr 126
                                 ++ + +++L+++ld  ++              s+v++i+++n+  +++++ll +R+++
  PHY93_11660|PHY93_11660  82 ---FRGDPAAALMEVLDPAQNFafhdnyldvpfdLSHVFFITTANTTTNIPKPLL-DRMEI 138
                              ...59*****************************777******************.**986 PP

>> Lon_C  Lon protease (S16) C-terminal proteolytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.9   0.0   8.5e-22   8.5e-19       2      78 ..     220     297 ..     219     305 .. 0.94

  Alignments for each domain:
  == domain 1  score: 67.9 bits;  conditional E-value: 8.5e-22
                              E-TTTTHHHH-S-SS--SSSSS--BSSEEEEEEEETTEEEEEEEEEEEES.S-S-EEEEES--HHHHHHHHHHHHHHT CS
                    Lon_C   2 vtakeleellGkkrfrseeaekedqvGvvtGlawtevGGdlltieavllp.gkgklkltGklgdvmkesaqaalsyvr 78 
                              vt ++l+++lG+++   e+++++ + G+ tG+awte+GGd+++ie++ lp  k ++k+tG++gd+m+es++ alsyv 
  PHY93_11660|PHY93_11660 220 VTLENLQSFLGHEKVFLEKVREKWSAGISTGMAWTEAGGDIIYIESSFLPrRKNEIKITGHVGDIMRESVTCALSYVW 297
                              7889*********************************************955779*********************95 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.5   0.0   1.7e-11   1.7e-08       2     124 ..       2     126 ..       1     136 [. 0.71

  Alignments for each domain:
  == domain 1  score: 34.5 bits;  conditional E-value: 1.7e-11
                              EEEE--SSSSHHHHHHHGGGGBS--EEEEE--TT--HHHHH--B--.........--------....G-SEEEEESGGG--....H CS
                    AAA_5   2 vlLvGppGtgKselaerlaaalnreveyvqltrdtteedlkgrreikngttslvdsplvraar....egeilvlDEverae....s 79 
                              ++ vGppG+gK++l +++a+al+r++e + l     e++l+g+r++        ++ +++++r    +  +++lDE++++      
  PHY93_11660|PHY93_11660   2 LCFVGPPGVGKTSLGQSIARALGRKFERMSLGGMHDEAELRGHRRT---YIGAIPGRIMESIRraqvNNPLIMLDEIDKMGvdfrG 84 
                              799******************************************7...6666778888888866678888*******98511113 PP

                              HHHHHHHHHHHSSE.EE..-SSSEEE---......-EEEEEESS-- CS
                    AAA_5  80 evlnsLlslleerr.llleeggelvkaknddllerfrviatanpld 124
                              + +++L+ +l+  + + + ++   v ++       + +i tan+  
  PHY93_11660|PHY93_11660  85 DPAAALMEVLDPAQnFAFHDNYLDVPFDLSH----VFFITTANTTT 126
                              4456666666643314444444444444433....66666666655 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.6   0.3   0.00012      0.12       7      51 ..       1      36 [.       1     123 [. 0.68
   2 ?   -2.0   0.0       3.9   3.9e+03      60     102 ..     186     227 ..     168     245 .. 0.55

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 0.00012
                   AAA_22  7 ilvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsst 51
                             il+ +G++G+GKT l + +++ l         ++++ ++ l +  
  PHY93_11660|PHY93_11660  1 ILCFVGPPGVGKTSLGQSIARAL---------GRKFERMSLGGMH 36
                             57889************999999.........4444444444444 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 3.9
                   AAA_22  60 llralglelkaerlsseellealeqalrarav.....ielliiDEaqh 102
                                r+ g++      + +++++++++ + ++       +  + +++ q 
  PHY93_11660|PHY93_11660 186 YTREAGVR------EFKRCISQIARKVATKIIkgealPITVTLENLQS 227
                              33443333......3345666666655555444444555556666665 PP

>> AAA_2  AAA domain (Cdc48 subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.0   3.1e-06    0.0031       7     136 ..       3     131 ..       1     165 [. 0.71

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 3.1e-06
                              EEE--TTSSHHHHHHHHHHHTT-....-EEEEEGGG---.----THHHHHHHHHTTT-HHHHTTS..EEEEETGGG---------- CS
                    AAA_2   7 lllgptgvGktelakalaellfvkkekkliradaselle.eeevehlvsrligappgyvgaeegG..ivllDEidKihpkessgad 89 
                               ++gp gvGkt l +++a+ l  +k +++    + + +e +   ++++    g     +++++     ++lDEidK         d
  PHY93_11660|PHY93_11660   3 CFVGPPGVGKTSLGQSIARALG-RKFERMSLGGMHDEAElRGHRRTYIGAIPGRIMESIRRAQVNnpLIMLDEIDKMGV------D 81 
                              599*******************.89999999999998884444555555555544444444444477**********99......3 PP

                              ---HHHHHHHHHHHH--EE-...----.--EE-TT-EEEEEE--TTHHHHT CS
                    AAA_2  90 vSregVqrdLLqileggtlt...dkqg.rkvdtknilfImtgafgsskisd 136
                                r +   +L+ +l+ ++     d++   + d +++ fI t +  ++ ++ 
  PHY93_11660|PHY93_11660  82 -FRGDPAAALMEVLDPAQNFafhDNYLdVPFDLSHVFFITTANTTTNIPKP 131
                              .35577889999999887554556665588888999999999988877765 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0     1e-05      0.01      38      66 ..       4      32 ..       1      45 [. 0.83
   2 ?   -0.6   0.0         1   9.9e+02     128     156 ..     111     139 ..     106     141 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 1e-05
                   RuvB_N 38 lyGpPGlGkttlakiiakelgvklkitsg 66
                             ++GpPG+Gkt+l + ia+ lg k++  s 
  PHY93_11660|PHY93_11660  4 FVGPPGVGKTSLGQSIARALGRKFERMSL 32
                             79*******************99987765 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 1
                   RuvB_N 128 ldlpkftlvgattragllssPlrdrfgiv 156
                              +dl++  +++++  ++ + +Pl dr+ i 
  PHY93_11660|PHY93_11660 111 FDLSHVFFITTANTTTNIPKPLLDRMEIL 139
                              677777777777778899*******9875 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   1.9e-05     0.019      27      51 ..       2      26 ..       1      68 [. 0.74
   2 ?    0.5   0.0      0.68   6.8e+02      75     146 ..     152     227 ..     126     242 .. 0.56

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 1.9e-05
                   AAA_16 27 vllsGesGvGKsslvrellralekd 51
                             + ++G++GvGK+sl ++++ral ++
  PHY93_11660|PHY93_11660  2 LCFVGPPGVGKTSLGQSIARALGRK 26
                             5689****************99998 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.68
                   AAA_16  75 alareellrqllde.......aesaeleawrekleealaavpelagaeasrllellkrll.allsrder........plvlvlDdl 144
                              ++ + +l+ q+l+e       + + + +   + ++e ++          ++  +++kr++ + +++ +         p+ ++l++l
  PHY93_11660|PHY93_11660 152 IA-KQHLIPQELEEtgikstqL-QIQDNSLGQIIHEYTR----------EAGVREFKRCIsQIARKVATkiikgealPITVTLENL 225
                              44.3477777777733222211.1111222222222222..........5555555666633333333355555556788888888 PP

                   AAA_16 145 qw 146
                              q 
  PHY93_11660|PHY93_11660 226 QS 227
                              75 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.2   0.0   0.00053      0.53       5      44 ..       5      46 ..       2      50 .. 0.77
   2 ?    5.2   0.1     0.018        17      85     109 ..      56      80 ..      47     100 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00053
                             E--TTSSHHHHHHHHHHHH.....GGGEEEEEEEEE------ CS
                 NTPase_1  5 TGppGvGKtTlvkkvlellkss..gvkvgGfyteevreggrr 44
                              GppGvGKt l + ++++l ++   +++gG+  e   +g rr
  PHY93_11660|PHY93_11660  5 VGPPGVGKTSLGQSIARALGRKfeRMSLGGMHDEAELRGHRR 46
                             59*****************76544677777776665555555 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.018
                              HHHHHHHHHHHH-EEEE---STTGG CS
                 NTPase_1  85 alealrkalseadviviDEiGkmEl 109
                              ++e++r+a+ ++ +i++DEi km +
  PHY93_11660|PHY93_11660  56 IMESIRRAQVNNPLIMLDEIDKMGV 80 
                              6899******************966 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.0   1.6e-05     0.016       2      28 ..       3      27 ..       2      76 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 1.6e-05
                   AAA_18  2 lltGtpGvGKttlakeLskrlgfgvnl 28
                             +  G+pGvGKt+l++ +++ lg   + 
  PHY93_11660|PHY93_11660  3 CFVGPPGVGKTSLGQSIARALGR--KF 27
                             678***************99943..33 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   1.7e-05     0.017       1      27 [.       2      31 ..       2      95 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.7e-05
             RNA_helicase  1 iwlyGpsgeGKStlakeLakallkkl...k 27
                             ++++Gp+g+GK++l +++a+al +k+    
  PHY93_11660|PHY93_11660  2 LCFVGPPGVGKTSLGQSIARALGRKFermS 31
                             589*******************99984440 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.0   2.3e-05     0.023       2      29 ..       2      31 ..       1      67 [. 0.88

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 2.3e-05
                   AAA_33  2 vllvGlpGsGKstlaerllkklg..avlls 29
                             + +vG+pG+GK+ l ++++++lg  +++ s
  PHY93_11660|PHY93_11660  2 LCFVGPPGVGKTSLGQSIARALGrkFERMS 31
                             579*******************98888766 PP

>> AAA_3  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0     3e-05      0.03       6      88 ..       6      96 ..       2     137 .. 0.67

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 3e-05
                    AAA_3  6 gvPGlaktllvkalakaldlefkriqftpdllPsdilGtevfeeke...kef.efkkGpvfanllladeinrappktq....sallea 85
                             g PG++kt l +++a+al+ +f+r+ +      +++ G++     +   + + ++++  v + l++ dei++     +    +al+e+
  PHY93_11660|PHY93_11660  6 GPPGVGKTSLGQSIARALGRKFERMSLGGMHDEAELRGHRRTYIGAipgRIMeSIRRAQVNNPLIMLDEIDKMGVDFRgdpaAALMEV 93
                             78***********************998887788888875433333233333146777777788888888776543221122666666 PP

                    AAA_3 86 mee 88
                             ++ 
  PHY93_11660|PHY93_11660 94 LDP 96
                             665 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0     5e-05     0.049      50     134 ..       2      94 ..       1      99 [. 0.61

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 5e-05
                IstB_IS21  50 ivllGpsGvGKshlaialgveavraglsvlfvrvedLveelkrarrd......gklaralkrl.lkvdllilDdlgllpld..qae 126
                              ++++Gp+GvGK+ l  +++++  r+  +++   ++d  +el+ +rr       g++ + ++r  ++  l++lD++    +d   + 
  PHY93_11660|PHY93_11660   2 LCFVGPPGVGKTSLGQSIARALGRKFERMSLGGMHDE-AELRGHRRTyigaipGRIMESIRRAqVNNPLIMLDEIDKMGVDfrGDP 86 
                              689***************9999888888777777774.445555543232222444444443313335677777765443311455 PP

                IstB_IS21 127 aellfevi 134
                              a+ l+ev+
  PHY93_11660|PHY93_11660  87 AAALMEVL 94 
                              56666665 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00019      0.18       3      26 ..       2      25 ..       1      30 [. 0.90
   2 ?   -2.1   0.0       3.2   3.2e+03      84      99 ..      57      84 ..      38      96 .. 0.64
   3 ?   -2.7   0.0       4.7   4.7e+03     123     161 ..     116     155 ..     111     158 .. 0.61

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00019
                             EEEEC-TTTCHHHHHHHHHHHHCT CS
                    NACHT  3 vilqGeaGsGKTtLlqklalawae 26
                             ++  G++G+GKT L q++a+a+ +
  PHY93_11660|PHY93_11660  2 LCFVGPPGVGKTSLGQSIARALGR 25
                             6889***************99865 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 3.2
                             E............EEEE-STT-SS-TCH CS
                    NACHT 84 L............lilDglDelvtdlgq 99
                             +            + lD +D++  d++ 
  PHY93_11660|PHY93_11660 57 MesirraqvnnplIMLDEIDKMGVDFRG 84
                             4444444444444889999999876655 PP

  == domain 3  score: -2.7 bits;  conditional E-value: 4.7
                              EEEEEECCCHHHHCTTSSCE...EEEE--TCCHHHHHHHH CS
                    NACHT 123 llltvrpralrdleeqleea.ivlevegfsesrrkqlvrk 161
                              ++ +++ ++  ++++ l +  ++le++g + ++ ++++ +
  PHY93_11660|PHY93_11660 116 VFFITTANTTTNIPKPLLDRmEILELAGYTDYEKVEIAKQ 155
                              4444445555556655555548888888888777777766 PP

>> ClpB_D2-small  C-terminal, D2-small domain, of ClpB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   9.8e-05     0.098       9      74 ..     152     216 ..     146     222 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 9.8e-05
                              HHHHHHHHHHHHSCT.TTEEEEEHHHHHHHHHHHTSBTTTBTCCHHHHHHHHTHHHHHHHHHTTSSS CS
            ClpB_D2-small   9 Ivdlalkklekrlke.rgvelevtdealdalaekgydpeyGARpLrriiqreiedplaeeilsgelk 74 
                              I++++l  +e      +  +l+++d+ l  ++ + y +e G R+ +r+i  +i  ++a++i++ge  
  PHY93_11660|PHY93_11660 152 IAKQHLIPQELEETGiKSTQLQIQDNSLGQIIHE-YTREAGVREFKRCIS-QIARKVATKIIKGEAL 216
                              55555554444444457789***********986.9*************7.5999********9965 PP

>> SKI  Shikimate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1   0.00027      0.27       1      20 [.       8      27 ..       8      30 .. 0.95

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00027
                             TTSSHHHHHHHHHHHHTSEE CS
                      SKI  1 mGaGKstvGkllAkklglef 20
                             +G+GK+++G+ +A++lg++f
  PHY93_11660|PHY93_11660  8 PGVGKTSLGQSIARALGRKF 27
                             69****************98 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   0.00016      0.16       5      76 ..       2      78 ..       1     120 [. 0.73

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00016
                   AAA_14  5 lvitGaRrvGKTtllkqlikellvkkesilyinldderd....kkladpe....kllelileklke..ekktylflDEiqev 76
                             l+ +G+  vGKT l + +++ l    +++  ++l   +d    + ++  +     ++  i+e++++   ++ +++lDEi ++
  PHY93_11660|PHY93_11660  2 LCFVGPPGVGKTSLGQSIARALG---RKFERMSLGGMHDeaelRGHR--RtyigAIPGRIMESIRRaqVNNPLIMLDEIDKM 78
                             67899**********99999998...666677666555521122222..134566666777764334457899******986 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.1   0.00027      0.27      23      54 ..       3      34 ..       1     241 [. 0.71

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00027
                   AAA_23 23 lItGpNGaGKTTildAiklaLygetprlsrks 54
                             +++Gp G GKT++ + i  aL+ +++r+s + 
  PHY93_11660|PHY93_11660  3 CFVGPPGVGKTSLGQSIARALGRKFERMSLGG 34
                             89**********************99998754 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (307 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       535  (0.0298399); expected 358.6 (0.02)
Passed bias filter:                      506  (0.0282224); expected 358.6 (0.02)
Passed Vit filter:                        70  (0.00390429); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              18  [number of targets reported over threshold]
# CPU time: 0.52u 0.20s 00:00:00.72 Elapsed: 00:00:00.36
# Mc/sec: 2579.59
//
Query:       PHY93_11665|PHY93_11665  [L=617]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.9e-06   27.1   0.1    5.8e-06   26.1   0.1    1.4  1  Peptidase_M90  Glucose-regulated metallo-peptidase M90
    0.00052   19.5   0.2     0.0011   18.4   0.2    1.5  1  Peptidase_Mx   Putative zinc-binding metallo-peptidase
     0.0017   17.8   0.0     0.0041   16.6   0.0    1.6  1  Peptidase_Mx1  Putative zinc-binding metallo-peptidase


Domain annotation for each model (and alignments):
>> Peptidase_M90  Glucose-regulated metallo-peptidase M90
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.1   0.1   9.7e-10   5.8e-06     146     240 ..     234     337 ..     221     341 .. 0.85

  Alignments for each domain:
  == domain 1  score: 26.1 bits;  conditional E-value: 9.7e-10
            Peptidase_M90 146 kenvviHEfaHkLDmedg..eadGvPplaerasaeeWaevlseeyeklrerveakee.......slidpYgatnpaEFFAVasEaF 222
                              +  v++HE++H+LD  +    + G+ + +e  + + W+++ + e +k   + +a++e       +++++Y+ ++paE +A ++ ++
  PHY93_11665|PHY93_11665 234 GPLVAVHELTHHLDFSSSdkLTLGISESPEFLKLSGWKSTTNYETDKKSGKKTAETEwehaldkKFVRDYAGSEPAEDLAESTAYY 319
                              46699*********986622578*********************99988887755445556677********************** PP

            Peptidase_M90 223 FekpeklkeehpelyelL 240
                                 p+klk+  pe y+ +
  PHY93_11665|PHY93_11665 320 VYFPNKLKALDPEKYDFI 337
                              ************999876 PP

>> Peptidase_Mx  Putative zinc-binding metallo-peptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.2   1.8e-07    0.0011      92     171 ..     240     327 ..     238     355 .. 0.70

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 1.8e-07
             Peptidase_Mx  92 HEvgHyy....wdrlvedeerleefralFGder.adYaaalqahYaegppadwe....eefvsaYAtaHpwEDwAEtwahylhivd 168
                              HE+ H++     d+l    ++  ef +l G ++ ++Y+   ++  ++ ++++we    ++fv  YA + p ED AE+ a+y+   +
  PHY93_11665|PHY93_11665 240 HELTHHLdfssSDKLTLGISESPEFLKLSGWKStTNYET-DKKSGKKTAETEWEhaldKKFVRDYAGSEPAEDLAESTAYYVYFPN 324
                              666666543333455555566677777777644044444.44455556666675222279*********************99877 PP

             Peptidase_Mx 169 tle 171
                               l+
  PHY93_11665|PHY93_11665 325 KLK 327
                              776 PP

>> Peptidase_Mx1  Putative zinc-binding metallo-peptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   6.9e-07    0.0041     150     194 ..     272     321 ..     232     333 .. 0.72

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 6.9e-07
            Peptidase_Mx1 150 segkYtsstw.....inkteae.....ankrGfvtayassspeeDfaEvislylt 194
                              s+++Y ++++           e     a ++ fv +ya s+p eD+aE +++y+ 
  PHY93_11665|PHY93_11665 272 STTNYETDKKsgkktA-----EtewehALDKKFVRDYAGSEPAEDLAESTAYYVY 321
                              3455665555433333.....244444**************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (617 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       888  (0.0495287); expected 358.6 (0.02)
Passed bias filter:                      411  (0.0229238); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.22s 00:00:00.77 Elapsed: 00:00:00.37
# Mc/sec: 5049.79
//
Query:       PHY93_11670|PHY93_11670  [L=170]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (170 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       532  (0.0296726); expected 358.6 (0.02)
Passed bias filter:                      315  (0.0175693); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.24s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1295.11
//
Query:       PHY93_11675|PHY93_11675  [L=349]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.6e-30  105.7  32.7    3.2e-30  105.4  32.7    1.1  1  AI-2E_transport  AI-2E family transporter
  ------ inclusion threshold ------
        9.7    5.8  21.5       0.78    9.4   6.7    3.2  3  PRA1             PRA1 family protein


Domain annotation for each model (and alignments):
>> AI-2E_transport  AI-2E family transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  105.4  32.7   3.6e-34   3.2e-30       4     325 ..      11     344 ..       9     346 .. 0.85

  Alignments for each domain:
  == domain 1  score: 105.4 bits;  conditional E-value: 3.6e-34
          AI-2E_transport   4 ilvllllllalypfis.elllplliAlvlayllnpvvkfLkkrgv........krvlavllvlllllvllvllvll.lvplliaql 79 
                              +++++l+ +++++fi  ++++ +l+++v a+ ++p+++++  +++        ++ l+++++++ll+++ +l++++ l+ l  +++
  PHY93_11675|PHY93_11675  11 YFIFALIFIIMSFFIVqSFMFGILWGAVTALSVWPIFEKISNKNIlligkgtkNHALIFAIIFCLLFLVPFLYGIYeLGELYKSST 96 
                              566666666666666679******************99986655545554444677777777776666655555442566666677 PP

          AI-2E_transport  80 tqlvkslpayidslqnilnelpslleelen....liqalkqslskilsnilssilnsllsllasllglilslvlvllllffllldg 161
                               ++ +++++ +  + +++++lp +++   +    +i+++   ++++ +   ++++  ++sl  ++l  +++ +++++ ++f+l++g
  PHY93_11675|PHY93_11675  97 HYIATNSEHGVLNYPSWFESLPMKEKLI-DfwntNIATSSGLIEAVDRLSSGKLVLLFSSLWTQVLDRVITTIVMIISFYFMLKNG 181
                              7777778888888888888877443332.2445689999999999999999999******************************** PP

          AI-2E_transport 162 eklrqgilkllpervrervkailrelektlsgylrgqvlvaliigvlvfigllilgvpyalllailvglanliPyiGavivlipia 247
                              +++++   +++   +  r    +++   +l+g+++g+vl+ +++g+l+++ l++ g++ ++l+++ +gl+ +iP++ +++++    
  PHY93_11675|PHY93_11675 182 DTIKKNYKNIFSYWLSPRGLGHIENGILALRGTINGVVLIGVLEGILLAVPLTAGGLNSGFLIGLAAGLLGVIPLLMPLLIAPC-L 266
                              *********99999999***************************************************************9999.8 PP

          AI-2E_transport 248 iialltggikevlivlivvllvqliegnilePklmgkrlglhplvillsllaggklfGlvGlilavpltavikailea 325
                              +++++tg++  ++i  + +++v  + +ni++P +++k+++++ ++il+s+++g  l G+vGl+l++ +++++  ++++
  PHY93_11675|PHY93_11675 267 LYLYMTGNTLWAIIGAVDLVVVWFMFENIVKPQMISKKVKINSVIILISMIGGMQLMGPVGLFLGPSIVSMAIGMIRD 344
                              ********7777888888888899999*******************************************99888765 PP

>> PRA1  PRA1 family protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4   6.7   8.7e-05      0.78      41     106 ..      10      79 ..       8      88 .. 0.63
   2 ?    3.4   2.7    0.0061        54      47     124 ..     149     249 ..     147     290 .. 0.73
   3 ?   -1.6   3.2       0.2   1.8e+03      57     100 ..     274     316 ..     250     342 .. 0.44

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 8.7e-05
                     PRA1  41 NYlivvllvlllslltnplsli...vllllvlawlflyf.lrseplvlfgrelsdrvvlivllvvsvlll 106
                              NY+i++l+++++s+++    ++    +++++l+++ ++  + ++++ l+g+ ++++ ++++++ + ++l+
  PHY93_11675|PHY93_11675  10 NYFIFALIFIIMSFFIVQSFMFgilWGAVTALSVWPIFEkISNKNILLIGKGTKNHALIFAIIFCLLFLV 79 
                              ******9999999997654444000444555555544444559999999999987766555555444444 PP

  == domain 2  score: 3.4 bits;  conditional E-value: 0.0061
                     PRA1  47 llvlllslltnplslivllllvlawlflyflr....seplv.lfgrelsdr..................vvlivllvvsvlllflt 109
                              l++l+ sl t+ l+ ++ ++++++ +++++ +    +++ + +f++ ls r                  vvli++l   +l++ lt
  PHY93_11675|PHY93_11675 149 LVLLFSSLWTQVLDRVITTIVMIISFYFMLKNgdtiKKNYKnIFSYWLSPRglghiengilalrgtingVVLIGVLEGILLAVPLT 234
                              46777777788887777777766666666655334433333567777777799999999999999999877777777777777777 PP

                     PRA1 110 gavlvllwalligll 124
                               ++l+  + +++++ 
  PHY93_11675|PHY93_11675 235 AGGLNSGFLIGLAAG 249
                              777775555554443 PP

  == domain 3  score: -1.6 bits;  conditional E-value: 0.2
                     PRA1  57 nplslivlll.lvlawlflyflrseplvlfgrelsdrvvlivllv 100
                              n l  i++++ lv++w+++  + + ++  ++++++ + v+i++++
  PHY93_11675|PHY93_11675 274 NTLWAIIGAVdLVVVWFMFENIVKPQM--ISKKVKINSVIILISM 316
                              222222222202222222222222222..3444433333333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (349 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       908  (0.0506442); expected 358.6 (0.02)
Passed bias filter:                      305  (0.0170115); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.43
# Mc/sec: 2426.80
//
Query:       PHY93_11680|PHY93_11680  [L=190]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00074   19.1   0.1    0.00097   18.8   0.1    1.3  1  CDtoxinA  Cytolethal distending toxin A/C domain


Domain annotation for each model (and alignments):
>> CDtoxinA  Cytolethal distending toxin A/C domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.1   5.4e-08   0.00097      77     148 ..     101     175 ..      52     177 .. 0.87

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 5.4e-08
                              ..--TT-GGG-EEEEEBTTS-EEEEETTT--EEEE-SS-SS...S-B-EEEE-----EETTEE--EEEE--SS-E CS
                 CDtoxinA  77 k.CdeddketvFsliptttgavqikslssgeCitanflsrl..piaktltlekCdlakevnleqlwlitpplkta 148
                                C +++++t+F ++ ++++av +    s++ ++ n +++l  + +   t+e C  ++ ++  + ++i+p++ t+
  PHY93_11680|PHY93_11680 101 DtCTATNNNTDFMILLSSNTAVHMAMEFSTFTFKVNIFENLsaKRKDGATIEDCSEIFLDENRKYYIISPVVLTI 175
                              24**************************************976677789*****999999999*******98776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (190 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       621  (0.0346366); expected 358.6 (0.02)
Passed bias filter:                      393  (0.0219198); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1438.78
//
Query:       PHY93_05655|PHY93_05655  [L=307]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.4e-31  107.3   0.0    1.5e-30  106.5   0.0    1.4  1  ABC_tran  ABC transporter
    9.4e-11   42.1   4.1    2.2e-07   31.0   0.0    2.5  3  AAA_21    AAA domain, putative AbiEii toxin, Type IV TA syste
    2.9e-05   23.9   0.9      0.094   12.4   0.0    2.4  2  AAA_15    AAA ATPase domain
    0.00013   22.5   1.9     0.0002   21.9   1.9    1.5  1  AAA_23    AAA domain
  ------ inclusion threshold ------
       0.05   14.0   0.5       0.53   10.7   0.5    2.2  1  AAA       ATPase family associated with various cellular acti
      0.058   13.1   0.0       0.13   12.0   0.0    1.6  1  AAA_29    P-loop containing region of AAA domain
      0.087   11.5   0.0       0.12   11.0   0.0    1.1  1  RNA12     RNA12 protein


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  106.5   0.0   5.9e-34   1.5e-30       1     137 []      21     167 ..      21     167 .. 0.96

  Alignments for each domain:
  == domain 1  score: 106.5 bits;  conditional E-value: 5.9e-34
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG.B-HHHCCHCEEEE-SS--S-TTSBHHHH...... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxx...... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke.qeleslrkeigvlpqepqlfpeltvren...... 79 
                              ++n+s+++++ge+ +++G nGaGK+t +++l+gll pt+G++++ g +++   +    ++++g+++q+ +l ++ltv+en      
  PHY93_05655|PHY93_05655  21 VNNISFNVQKGEIFGFLGANGAGKTTTIRVLCGLLIPTSGSVEVAGISFNIeGNADLIKAKVGYMSQKFTLYNDLTVEENisftas 106
                              58*********************************************9999789999***************************** PP

                              .......HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              .......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 .......esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                                     +++++ +++ + ++ ++ ++t+v    s L gG+kq v+la+++l +p++l+lDEpta
  PHY93_05655|PHY93_05655 107 lrklpreYYEKRKKELFDFISFNKPANTKV----SDLAGGMKQQVSLAASILHEPEILFLDEPTA 167
                              **9999988899999999999999999999....*****************************97 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.6   2.1e-05     0.054       2      83 ..      34     114 ..      33     133 .. 0.47
   2 !   31.0   0.0   8.7e-11   2.2e-07     220     297 ..     122     196 ..      75     201 .. 0.77
   3 ?   -3.1   0.1         2   5.2e+03     107     142 ..     245     280 ..     232     300 .. 0.61

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 2.1e-05
                   AAA_21   2 nvliGpNgsGKSnLLdaldllarldrdvegltdelsggggirkipslldlydpeipfefeieeflsqgvryryglrlersqv 83 
                               ++ G+Ng+GK++ ++ l +l    +++  +    s + +   +  +   ++ +++f++  ++++++++ ++ +lr   + +
  PHY93_05655|PHY93_05655  34 FGFLGANGAGKTTTIRVLCGLLI-PTSGSVEVAGISFNIEGNADLIKAKVGYMSQKFTLYNDLTVEENISFTASLRKLPREY 114
                              6789**************66632.2222222222222222222222222222333333333334444444444444444444 PP

  == domain 2  score: 31.0 bits;  conditional E-value: 8.7e-11
                   AAA_21 220 gvvflengdgqelparelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQviltTH 297
                               + f   ++  ++ +++l  G+k+   l++++l  +    +l++DEp +g   ++  ++++l+k+l+++g  +++t+H
  PHY93_05655|PHY93_05655 122 LFDFISFNKPANTKVSDLAGGMKQQVSLAASILHEP---EILFLDEPTAGVSSAARQKFWDLIKSLAKEGKTIFVTSH 196
                              33333333334455566699*************999...9************************************** PP

  == domain 3  score: -3.1 bits;  conditional E-value: 2
                   AAA_21 107 eedvfnpeargirggvsvfslkelsvsepndlqfgk 142
                              +e +++   +++ + +s+ ++++ s+++ +++  +k
  PHY93_05655|PHY93_05655 245 QELESIKALKYFESFESYGHRYHASPINLSKWNEFK 280
                              455555555566666666666666666666555544 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.7   2.2     0.001       2.6      11      55 ..      18      85 ..      13     149 .. 0.58
   2 !   12.4   0.0   3.7e-05     0.094     322     364 ..     155     196 ..     142     197 .. 0.90

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.001
                   AAA_15 11 FRslkdveidlsee.ltvliGkNnsGKSsilealdlFlnnkekkn.........................k 55
                             F++  +++ ++++  +  + G+N++GK++ +++l  +l  +   +                          
  PHY93_05655|PHY93_05655 18 FKAVNNISFNVQKGeIFGFLGANGAGKTTTIRVLCGLLIPT---SgsvevagisfniegnadlikakvgyM 85
                             888888888888877889***************97776655...222345554444555444443333332 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 3.7e-05
                   AAA_15 322 eknvilliEEPEahLHpqaqkvlikllkelandnktQviitTH 364
                               ++ il+++EP a     a + +++l+k+la+++k  +++t+H
  PHY93_05655|PHY93_05655 155 HEPEILFLDEPTAGVSSAARQKFWDLIKSLAKEGK-TIFVTSH 196
                              5789******************************9.9*****9 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.9   1.9     8e-08    0.0002       7     115 ..      18     130 ..      12     298 .. 0.63

  Alignments for each domain:
  == domain 1  score: 21.9 bits;  conditional E-value: 8e-08
                   AAA_23   7 frsfrdqeidF...skgltlItGpNGaGKTTildAiklaLygetprlsrksgrgfeksdveiesegkvkayveltfenkdgry.tr 88 
                              f+  ++  i F   +  ++ + G NGaGKTT ++ ++  L    ++     g +f+ +  +    + + +y++ +f+  ++    +
  PHY93_05655|PHY93_05655  18 FKAVNN--ISFnvqKGEIFGFLGANGAGKTTTIRVLCGLLIPT-SGSVEVAGISFNIEGNA-DLIKAKVGYMSQKFTLYNDLTvEE 99 
                              344444..555555558***********************985.45555556666644433.223344555555555544422344 PP

                   AAA_23  89 siererelskkkgkttkkaklellei....d 115
                              +i+++ +l+k   +++ k k+el++     +
  PHY93_05655|PHY93_05655 100 NISFTASLRKLPREYYEKRKKELFDFisfnK 130
                              5555555555555555555555444433432 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.5   0.00021      0.53       3      74 ..      36     172 ..      34     207 .. 0.53

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00021
                              EESSTTSSHHHHHHHHHHHH..........THE..................EEEEETTTCSSS....................... CS
                      AAA   3 lyGppGtGKTllakavakel..........gve..................fleisgsellsk....................... 37 
                              + G  G GKT++++ ++  l          g++                             k                       
  PHY93_05655|PHY93_05655  36 FLGANGAGKTTTIRVLCGLLiptsgsvevaGISfniegnadlikakvgymsQ----------Kftlyndltveenisftaslrklp 111
                              6799**************9766555443331112233333333333333330..........255555555555555555555555 PP

                              .......................STTHHHHHHHHHHHHHHHTS.TSEEEEEETGGGHHHHH CS
                      AAA  38 .......................yvgesekkirelfkeakeka.kpsilfiDEidalaksr 74 
                                                      v++ +  +++ ++ a +   +p ilf+DE  a ++s 
  PHY93_05655|PHY93_05655 112 reyyekrkkelfdfisfnkpantKVSDLAGGMKQQVSLAASILhEPEILFLDEPTAGVSSA 172
                              5555555555555555444333333333333333333333333567888888877766666 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0     5e-05      0.13      17      50 ..      24      59 ..      12      70 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 5e-05
                   AAA_29 17 ieidlkg..atlltGpsGsGKSTllDAiqalLvpak 50
                             i+++++   ++ + G++G+GK+T +  +  lL+p++
  PHY93_05655|PHY93_05655 24 ISFNVQKgeIFGFLGANGAGKTTTIRVLCGLLIPTS 59
                             4444433368899***********988888888876 PP

>> RNA12  RNA12 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   4.8e-05      0.12     322     422 ..     161     258 ..     141     264 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 4.8e-05
                    RNA12 322 lldseeakkakwtkeqaWklikklskkgsieynellleelfkgsaesalkaLekaelisvstedgrpskikagkPvyraafkrlvs 407
                              +ld+  a  ++  +++ W lik+l+k+g+ ++ +    +    ++ + ++ + + eli++ +  g   k  + +P+y+   k+ +s
  PHY93_05655|PHY93_05655 161 FLDEPTAGVSSAARQKFWDLIKSLAKEGKTIFVTSHYMDEV--EQCDRIALMSNGELIALDSPAGLKAKTFP-QPLYELDSKQSLS 243
                              335777888889999**************998655444433..3455899999************9988776.8************ PP

                    RNA12 408 dkvlkavlelevlek 422
                              +++l++   l++ e+
  PHY93_05655|PHY93_05655 244 NQELESIKALKYFES 258
                              ****99999988775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (307 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       582  (0.0324614); expected 358.6 (0.02)
Passed bias filter:                      505  (0.0281667); expected 358.6 (0.02)
Passed Vit filter:                        74  (0.00412739); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.50u 0.24s 00:00:00.74 Elapsed: 00:00:00.38
# Mc/sec: 2437.26
//
Query:       PHY93_11685|PHY93_11685  [L=265]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.8e-07   30.2  30.3    2.8e-07   30.2  30.3    1.7  2  ABC2_membrane    ABC-2 type transporter
  ------ inclusion threshold ------
        0.1   11.7  35.8       0.14   11.2  35.8    1.3  1  ABC2_membrane_3  ABC-2 family transporter protein
       0.29   11.0   4.8        1.4    8.9   4.8    2.2  1  DUF2873          Protein of unknown function (DUF2873)


Domain annotation for each model (and alignments):
>> ABC2_membrane  ABC-2 type transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.2  30.3   4.6e-11   2.8e-07       6     209 ..       9     217 ..       4     218 .. 0.71
   2 ?   -2.0   0.7      0.34     2e+03     119     139 ..     228     244 ..     220     254 .. 0.45

  Alignments for each domain:
  == domain 1  score: 30.2 bits;  conditional E-value: 4.6e-11
            ABC2_membrane   6 llkreflqrwrdpslgll....wrliqplllalvfgtvfgnlgnsedglnr.pgllffsvlflafs.altsvapvfere..rgvle 83 
                              ++ r+f +  +++s + +    w  + ++l++++  ++ +    + d +n  + +l   +l+ +f+ ++++v ++f+ +   +++ 
  PHY93_11685|PHY93_11685   9 IVLRQFYLVRGSSSRI-VplfaWVAVDIILWGFITKYLRSV---TRDNVNLsASILTAVLLWDFFMrIMQGVTMTFFEDvwARNFL 90 
                              5566666555544443.223339999999999999999995...446665555555555555554414444444443332256677 PP

            ABC2_membrane  84 relvsplyslsayvlakvlvelpvsllqalifllivyflvgldlsrf...flflllllltalaasslgllisalapsfedasq.la 165
                                +++ l s+s+y+ + vl+++++sl+   ++l+++  ++g     f   fl++++l++++l++ slg++ +a++  +  as  ++
  PHY93_11685|PHY93_11685  91 NYFSTAL-SVSEYLGGLVLSSFIMSLFGLSAMLFLATTFFGNSF--FalgFLLVPYLIILILFGFSLGIIACAMVLRLGPASEwFV 173
                              7778888.*************99999988888888888778777..5556999999999999999999999988766666653244 PP

            ABC2_membrane 166 slvllpllllsGffipidsmpkwlqwiaylnPltyavealrsnl 209
                                +  +++ ++G+++p++ +p w+q+i++++P +y++e lr +l
  PHY93_11685|PHY93_11685 174 WPIPALIVPFAGVYYPVSVLPPWMQYISRALPPSYVFENLRLIL 217
                              5555555679**********77******************9886 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.34
            ABC2_membrane 119 vyflvgldlsrfflfllllll 139
                              ++ + gl l   f++ll+ ++
  PHY93_11685|PHY93_11685 228 SIGM-GLAL---FYILLAGWI 244
                              2222.3333...333333322 PP

>> ABC2_membrane_3  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2  35.8   2.4e-05      0.14     159     343 ..      56     245 ..      24     247 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 2.4e-05
          ABC2_membrane_3 159 vasflvgliliilifitasfiavsiveEkesrikelqlvsgvsplqywlskilgdflvyllqlllilll...afglgipfg..nlg 239
                              +as+l +++l+ +++ +++ +++ + e+   r     +++ +s+++y+ + +l++f+++l+ l  +l+l   +fg   +f+  +++
  PHY93_11685|PHY93_11685  56 SASILTAVLLWDFFMRIMQGVTMTFFEDVWARNFLNYFSTALSVSEYLGGLVLSSFIMSLFGLSAMLFLattFFG--NSFFalGFL 139
                              34455556666666667776666677777778888899999*******************999999998555555..222212332 PP

          ABC2_membrane_3 240 l..llllfllfglayialgyllsslfknsetaqilifivilllsgffgglfpledlpsalkwifsiiPffapglgllrlitgd.pl 322
                              l   l+ ++lfg+++  ++ ++      +++   +++++  l+  f g+ +p++ lp ++++i++ +P +++++ l  +++++   
  PHY93_11685|PHY93_11685 140 LvpYLIILILFGFSLGIIACAMVLRLGPASE--WFVWPIPALIVPFAGVYYPVSVLPPWMQYISRALPPSYVFENLRLILMNQaAS 223
                              2224477777777777777777777777777..4689999977777777799999*********************9998888788 PP

          ABC2_membrane_3 323 weil.lsliilalfavvyllla 343
                              w++l + +++ +  +++ ++++
  PHY93_11685|PHY93_11685 224 WTMLsIGMGLALFYILLAGWIF 245
                              8876666666666666666665 PP

>> DUF2873  Protein of unknown function (DUF2873)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   4.8   0.00023       1.4      14      34 ..     136     156 ..     127     158 .. 0.89

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.00023
                  DUF2873  14 LafLLfLvLimLiifWfsLei 34 
                              L fLL   Li+Li+f fsL i
  PHY93_11685|PHY93_11685 136 LGFLLVPYLIILILFGFSLGI 156
                              7899999************87 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (265 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       939  (0.0523733); expected 358.6 (0.02)
Passed bias filter:                      301  (0.0167884); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.25s 00:00:00.77 Elapsed: 00:00:00.42
# Mc/sec: 1911.06
//
Query:       PHY93_11690|PHY93_11690  [L=242]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    5.6e-33  114.4   0.0    8.9e-33  113.7   0.0    1.3  1  ABC_tran     ABC transporter
    6.6e-12   45.8   3.3    6.2e-09   36.1   0.1    2.1  2  AAA_21       AAA domain, putative AbiEii toxin, Type IV TA sy
    3.6e-06   26.6   0.1    3.3e-05   23.4   0.1    2.0  1  SMC_N        RecF/RecN/SMC N terminal domain
    3.3e-05   23.8   0.3       0.13   12.0   0.1    2.2  2  AAA_15       AAA ATPase domain
     0.0015   19.1   0.3      0.003   18.1   0.1    1.6  2  AAA_23       AAA domain
     0.0059   16.5   0.0      0.011   15.6   0.0    1.4  1  RsgA_GTPase  RsgA GTPase
      0.006   15.3   0.2       0.63    8.6   0.0    2.1  2  AAA_13       AAA domain
  ------ inclusion threshold ------
      0.019   14.7   0.0      0.038   13.7   0.0    1.4  1  AAA_29       P-loop containing region of AAA domain
      0.025   14.0   0.1      0.054   13.0   0.1    1.5  1  KdpD         Osmosensitive K+ channel His kinase sensor domai
      0.026   14.9   0.0      0.077   13.4   0.0    1.8  1  AAA_16       AAA ATPase domain
      0.027   14.5   0.0        1.8    8.6   0.0    2.2  2  AAA_14       AAA domain
      0.034   14.6   0.1       0.16   12.4   0.1    2.1  1  AAA          ATPase family associated with various cellular a
      0.046   14.0   0.1       0.13   12.5   0.1    1.8  1  AAA_22       AAA domain
      0.054   13.8   0.0       0.13   12.5   0.0    1.7  2  AAA_19       AAA domain
       0.12   12.1   0.0       0.92    9.2   0.0    2.1  2  AAA_24       AAA domain
       0.12   12.1   0.0       0.22   11.3   0.0    1.3  1  MukB         MukB N-terminal
       0.13   11.3   0.0       0.21   10.6   0.0    1.3  1  T2SSE        Type II/IV secretion system protein
       0.16   12.2   0.2        4.7    7.5   0.0    2.3  2  BEN          BEN domain
       0.17   11.5   0.0       0.29   10.7   0.0    1.4  1  SRP54        SRP54-type protein, GTPase domain
       0.18   11.5   0.0       0.32   10.7   0.0    1.3  1  AAA_30       AAA domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  113.7   0.0   9.9e-36   8.9e-33       2     137 .]      22     163 ..      21     163 .. 0.95

  Alignments for each domain:
  == domain 1  score: 113.7 bits;  conditional E-value: 9.9e-36
                              EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG.B-HHHCCHCEEEE-SS--S-TTSBHHHH....... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxx....... RF
                 ABC_tran   2 knvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke.qeleslrkeigvlpqepqlfpeltvren....... 79 
                              +n+s++l+++e+++++G+nGaGK+t +++++g l+p +G+i+++++d+ + ++l  l+ +++ +     l  +ltvren       
  PHY93_11690|PHY93_11690  22 ENISFSLHANEILGLLGPNGAGKTTTINMILGVLEPSAGHIRIENHDVAKdRQLALLSTNFAAVYSP--LPGNLTVRENlnvfgki 105
                              79**********************************************9967777777777777766..9**************** PP

                              ....HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              ....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ....esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                                  + d++i+++l+k+ l+ +k+t+v     +LS G++ rv+la+all++p llllDEpta
  PHY93_11690|PHY93_11690 106 ygvkQLDSRITELLKKFHLERFKETRV----GTLSSGEQTRVSLAKALLNRPHLLLLDEPTA 163
                              ****9**********************....*****************************97 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.0   0.4   0.00031      0.28       3      22 ..      35      54 ..      33      74 .. 0.78
   2 !   36.1   0.1     7e-12   6.2e-09     220     301 ..     118     197 ..      61     199 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00031
                   AAA_21  3 vliGpNgsGKSnLLdaldll 22
                             +l GpNg+GK++ +  + ++
  PHY93_11690|PHY93_11690 35 GLLGPNGAGKTTTINMILGV 54
                             799*********99887665 PP

  == domain 2  score: 36.1 bits;  conditional E-value: 7e-12
                   AAA_21 220 gvvflengdgqelparelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsr.ngaQviltTHSpll 301
                               +  ++ ++ +e+ +  lS+G +    l+ all ++    lll+DEp ++L+P + +++  ++ke ++ n++ v+ t+H+ + 
  PHY93_11690|PHY93_11690 118 LLKKFHLERFKETRVGTLSSGEQTRVSLAKALLNRP---HLLLLDEPTASLDPNIAHEIRYIIKEFAKkNNTAVLWTSHNMYE 197
                              5667788888999999********************...89**********************9999989*********9875 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.4   0.1   3.7e-08   3.3e-05      25     213 ..      32     207 ..       6     213 .. 0.74

  Alignments for each domain:
  == domain 1  score: 23.4 bits;  conditional E-value: 3.7e-08
                              SEEEEEESTTSSHHHHHHHHHHHCTT.TTTTTTCHCCCCCC--BTTCSSTTEEEEEEEEEETTEESSSSSSCEEEEEEEETTSEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N  25 sftaivGpNGSGKsnlldAilFvLGersakklrseklsdlihkskekasvkkaeveitfdnedkklkiekeevsisrrvkrkgese 110
                              ++  ++GpNG+GK+  ++ il vL  ++  ++r e+ + + +  +++ ++ + + + +++    +       ++++ ++   g+  
  PHY93_11690|PHY93_11690  32 EILGLLGPNGAGKTTTINMILGVLEPSAG-HIRIENHD-VAK--DRQLALLSTNFAAVYSPLPGN-------LTVRENLNVFGK-I 105
                              4556889*************999996555.99998764.433..566677777777777776666.......677777777776.6 PP

                              EEETTEEE-HHHHHHHHHCTT-STT...CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTTSEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 111 ykingkevtkkevsellesagiske...lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkeksknaQfi 193
                              y +++ + + +e+ + ++ ++++++   +LS Ge+t v+la        ++  l llDe  a LD +  +++  ++ke  k+    
  PHY93_11690|PHY93_11690 106 YGVKQLDSRITELLKKFHLERFKETrvgTLSSGEQTRVSLAKA----LLNRPHLLLLDEPTASLDPNIAHEIRYIIKEFAKKNNTA 187
                              66777777777777776666666544558*******9887644....45666799**********************998888888 PP

                              EE-SSHHHCCC-SCEEEEEE CS
                              xxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 194 vislreemlekadklvgvtk 213
                              v   +++m+e  + + +v +
  PHY93_11690|PHY93_11690 188 VLWTSHNMYEVEEICDRVLF 207
                              87777888877776666655 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.8   0.0   0.00067       0.6      18      66 ..      27      70 ..      17      86 .. 0.77
   2 !   12.0   0.1   0.00014      0.13     322     367 ..     151     196 ..     137     198 .. 0.93

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00067
                   AAA_15 18 eidlseeltvliGkNnsGKSsilealdlFlnnkekknkkvikiekedle 66
                             +++ +e +  l G+N++GK++ ++++   l+ +       i ie++d+ 
  PHY93_11690|PHY93_11690 27 SLHANE-ILGLLGPNGAGKTTTINMILGVLEPS----AGHIRIENHDVA 70
                             455555.88899**************9888877....455556665554 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 0.00014
                   AAA_15 322 eknvilliEEPEahLHpqaqkvlikllkelandnktQviitTHSph 367
                              +++++ll++EP a+L p+   ++   +ke a++n+t v+ t+H+ +
  PHY93_11690|PHY93_11690 151 NRPHLLLLDEPTASLDPNIAHEIRYIIKEFAKKNNTAVLWTSHNMY 196
                              578****************************************965 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.1   3.3e-06     0.003      13      43 ..      22      55 ..       6      82 .. 0.79
   2 ?   -1.6   0.0       3.6   3.2e+03     131     143 ..     115     127 ..      91     200 .. 0.58

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 3.3e-06
                   AAA_23 13 qeidF...skgltlItGpNGaGKTTildAiklaL 43
                             ++i F    + +  + GpNGaGKTT ++ i  +L
  PHY93_11690|PHY93_11690 22 ENISFslhANEILGLLGPNGAGKTTTINMILGVL 55
                             457777776789999************9997665 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 3.6
                   AAA_23 131 ilnlilflgqerf 143
                              i +l+  ++ erf
  PHY93_11690|PHY93_11690 115 ITELLKKFHLERF 127
                              3333333333333 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   1.2e-05     0.011      87     131 ..      18      63 ..       4      72 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 1.2e-05
                              HTTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT-----S--- CS
              RsgA_GTPase  87 kegleelkellkd.ktsvlvGqSGvGKStLinallpelelktgevs 131
                              k ++e+++  l+  ++  l+G+ G+GK+t in++l+ le + g+++
  PHY93_11690|PHY93_11690  18 KIAVENISFSLHAnEILGLLGPNGAGKTTTINMILGVLEPSAGHIR 63 
                              567889999998879999*****************99888888776 PP

>> AAA_13  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.1      0.01       9.4      23      39 ..      38      54 ..      31      86 .. 0.77
   2 !    8.6   0.0    0.0007      0.63     470     573 ..     106     197 ..      83     212 .. 0.80

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.01
                   AAA_13 23 GwNGaGKTtLSrllrsl 39
                             G NGaGKTt  +++  +
  PHY93_11690|PHY93_11690 38 GPNGAGKTTTINMILGV 54
                             99*****9987766554 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0007
                   AAA_13 470 fGlgeleLkfeeekkgYrivrkggsqaaetLSeGEktaIaflYFlkslkeddseigkdkivviDDPvSSLDsnslfivfsliksrl 555
                              +G ++l  +++e  k + + r  ++++ +tLS GE+t + +    k      + ++      +D P  SLD n+   +   ik+ +
  PHY93_11690|PHY93_11690 106 YGVKQLDSRITELLKKFHLERF-KETRVGTLSSGEQTRVSLA---K------ALLNRPHLLLLDEPTASLDPNIAHEIRYIIKEFA 181
                              4777777777777888888886.55899*********99864...2......334578899****************999999987 PP

                   AAA_13 556 lkkkkakQlfiLTHnlef 573
                                kk+   ++   Hn++ 
  PHY93_11690|PHY93_11690 182 --KKNNTAVLWTSHNMYE 197
                              ..6777777777788875 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   4.2e-05     0.038      17      50 ..      26      59 ..      20      65 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 4.2e-05
                   AAA_29 17 ieidlkgatlltGpsGsGKSTllDAiqalLvpak 50
                             ++++ +++  l Gp+G+GK+T +  i  +L p+ 
  PHY93_11690|PHY93_11690 26 FSLHANEILGLLGPNGAGKTTTINMILGVLEPSA 59
                             45565667789************99999999876 PP

>> KdpD  Osmosensitive K+ channel His kinase sensor domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.1     6e-05     0.054      56     134 ..     125     205 ..     105     216 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 6e-05
                     KdpD  56 eviprkev.eykgkeleeldldailarkpevvlvDelahtnapgsrhekryqdveelLeagidV.ittvnvqhleslndvv 134
                              e +++++v + ++ e ++++l ++l ++p+++l+De   +  p+  he ry   e   +++  V +t+ n+ ++e++ d v
  PHY93_11690|PHY93_11690 125 ERFKETRVgTLSSGEQTRVSLAKALLNRPHLLLLDEPTASLDPNIAHEIRYIIKEFAKKNNTAVlWTSHNMYEVEEICDRV 205
                              4444444413456678899********************************755555566666636999999999999987 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   8.6e-05     0.077      25     128 ..      32     182 ..      21     211 .. 0.52

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 8.6e-05
                   AAA_16  25 elvllsGesGvGKsslvrellralekdggiflrgkcdqlesa.....................ipysalaqalareellrqllde. 88 
                              e++ l G+ G GK++ ++++l  le + +  +r ++++  ++                     +                      
  PHY93_11690|PHY93_11690  32 EILGLLGPNGAGKTTTINMILGVLEPS-AGHIRIENHDVAKDrqlallstnfaavysplpgnlT--------------------Vr 96 
                              678899***************988888.444444444442231232333222222211111110....................01 PP

                   AAA_16  89 ..............aesaeleawrekleeala........................................avpelagaeasrll 120
                                            +        + +++e l+                                        ++++l++ +a+ ++
  PHY93_11690|PHY93_11690  97 enlnvfgkiygvkqL--------DSRITELLKkfhlerfketrvgtlssgeqtrvslakallnrphlllldePTASLDPNIAHEIR 174
                              111122111111111........111111111222222223333333344444444555555666666666666777777777777 PP

                   AAA_16 121 ellkrlla 128
                              + +k++++
  PHY93_11690|PHY93_11690 175 YIIKEFAK 182
                              77777664 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   0.0     0.002       1.8       2      45 ..      31      71 ..      30     123 .. 0.70
   2 ?    4.3   0.0     0.044        39      57     102 ..     145     194 ..     102     206 .. 0.60

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.002
                   AAA_14  2 rkilvitGaRrvGKTtllkqlikellvkkesilyinldderdkk 45
                             ++il + G+  +GKTt ++ ++  l  +  s   i +++++ +k
  PHY93_11690|PHY93_11690 31 NEILGLLGPNGAGKTTTINMILGVLE-P--SAGHIRIENHDVAK 71
                             68999*************99986665.3..33333333333333 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.044
                   AAA_14  57 lek.lkeekktylflDEiqev..pewekalkslvdeg..knldvivtGSns 102
                              l+k l  ++ ++l+lDE   +  p++ + ++++++e   kn   ++  S++
  PHY93_11690|PHY93_11690 145 LAKaLL-NRPHLLLLDEPTASldPNIAHEIRYIIKEFakKNNTAVLWTSHN 194
                              222233.48899*****8877677777777777774433333444444544 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   0.00018      0.16       3      38 ..      36     131 ..      34     210 .. 0.60

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.00018
                              EESSTTSSHHHHHHHHHHHHT..HEEEEEETTTCSSS................................................. CS
                      AAA   3 lyGppGtGKTllakavakelg..vefleisgsellsk................................................. 37 
                              l Gp G GKT++++ +   l+  +  ++i+ +++ ++                                                 
  PHY93_11690|PHY93_11690  36 LLGPNGAGKTTTINMILGVLEpsAGHIRIENHDVAKDrqlallstnfaavysplpgnltvrenlnvfgkiygvkqldsritellkk 121
                              89**************9998533555666666666334555555555555555666666666666666666444444444444444 PP

                              .........S CS
                      AAA  38 .........y 38 
                                        
  PHY93_11690|PHY93_11690 122 fhlerfketR 131
                              4444444442 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.1   0.00015      0.13       7      65 ..      33     107 ..      29     201 .. 0.54

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 0.00015
                   AAA_22   7 ilvvtGesGtGKTtllrrlleqldeeakaee.............................erpevvfvtlpsstsskdllrellra 63 
                              il + G+ G+GKTt+++++l  l+  a + +                                           + ++ l+ + ++
  PHY93_11690|PHY93_11690  33 ILGLLGPNGAGKTTTINMILGVLEPSAGHIRienhdvakdrqlallstnfaavysplpgnL-------------TVRENLNVFGKI 105
                              56688**************999987777776877777666555555444444444442220.............333333333333 PP

                   AAA_22  64 lg 65 
                              +g
  PHY93_11690|PHY93_11690 106 YG 107
                              33 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   0.00015      0.13       8      36 ..      29      57 ..      22      86 .. 0.83
   2 ?   -1.8   0.0       4.1   3.6e+03     104     110 ..     154     160 ..      95     203 .. 0.67

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 0.00015
                   AAA_19  8 lkekvllvtaGpGtGKTrvlkhivallve 36
                             +++++l ++++ G GKT+++++i+ +l+ 
  PHY93_11690|PHY93_11690 29 HANEILGLLGPNGAGKTTTINMILGVLEP 57
                             6788999****************998875 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 4.1
                   AAA_19 104 ellivDE 110
                               ll+ DE
  PHY93_11690|PHY93_11690 154 HLLLLDE 160
                              2444444 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   0.0     0.001      0.92       6      27 ..      35      60 ..      30      80 .. 0.77
   2 ?    0.7   0.0      0.41   3.7e+02     156     174 ..     194     212 ..     145     231 .. 0.75

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.001
                   AAA_24  6 liyGpsgiGKTtlakel....gpkpl 27
                              + Gp+g+GKTt+++++    +p++ 
  PHY93_11690|PHY93_11690 35 GLLGPNGAGKTTTINMIlgvlEPSAG 60
                             689***********998666655555 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.41
                   AAA_24 156 tanelkeevDlvlranlkr 174
                               + e++e++D vl++++++
  PHY93_11690|PHY93_11690 194 NMYEVEEICDRVLFLDQTK 212
                              4567888888888888653 PP

>> MukB  MukB N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00025      0.22      28      62 ..      33      67 ..      24      74 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00025
                             HHHHHS--SHHHHHHHHHHHHHHS--TTT------ CS
                     MukB 28 vttlsGgnGaGksttmaafvtaliPdlsllhfrnt 62
                             +  l G nGaGk+tt+  ++ +l P    ++  n 
  PHY93_11690|PHY93_11690 33 ILGLLGPNGAGKTTTINMILGVLEPSAGHIRIENH 67
                             56789********************9999998886 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   0.00024      0.21     128     160 ..      30      62 ..       4      76 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00024
                    T2SSE 128 erglilvsGgTgsGKttllyallkeinksderi 160
                              ++ ++ + G+ g GKtt+++++l  ++ s  +i
  PHY93_11690|PHY93_11690  30 ANEILGLLGPNGAGKTTTINMILGVLEPSAGHI 62 
                              44556678****************999885544 PP

>> BEN  BEN domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.7   0.0      0.17   1.5e+02      33      55 ..     107     129 ..      96     145 .. 0.87
   2 ?    7.5   0.0    0.0053       4.7      32      74 ..     160     202 ..     136     204 .. 0.78

  Alignments for each domain:
  == domain 1  score: 2.7 bits;  conditional E-value: 0.17
                              --EE--HHHHHHHHHHHHHHH-- CS
                      BEN  33 pkkaLDpnklsaIrnyveeryps 55 
                              + k+LD+++  +++++  er+ +
  PHY93_11690|PHY93_11690 107 GVKQLDSRITELLKKFHLERFKE 129
                              5799**************99998 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0053
                              ---EE--HHHHHHHHHHHHHHH--..........-HHHHHHHH CS
                      BEN  32 ppkkaLDpnklsaIrnyveerypsekededwwrecldqInkil 74 
                              +p+  LDpn+   Ir++++e+   ++    w  +   ++ +i+
  PHY93_11690|PHY93_11690 160 EPTASLDPNIAHEIRYIIKEFAKKNNTAVLWTSHNMYEVEEIC 202
                              67889***************99986655556666555555555 PP

>> SRP54  SRP54-type protein, GTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   0.00033      0.29       4      23 ..      34      53 ..      31      81 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00033
                             EEEEESTTSSHHHHHHHHHH CS
                    SRP54  4 illvGlqGaGKTttlaKLaa 23
                             + l+G++GaGKTtt+  +  
  PHY93_11690|PHY93_11690 34 LGLLGPNGAGKTTTINMILG 53
                             5589**********987655 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   0.00035      0.32      19      47 ..      32      60 ..      21      86 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00035
                   AAA_30 19 rvavltGpAGtGKttalkalreaweaagg 47
                              +  l Gp G+GKtt+++ +  ++e + g
  PHY93_11690|PHY93_11690 32 EILGLLGPNGAGKTTTINMILGVLEPSAG 60
                             467789************99988887743 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (242 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       538  (0.0300073); expected 358.6 (0.02)
Passed bias filter:                      495  (0.0276089); expected 358.6 (0.02)
Passed Vit filter:                        81  (0.00451782); expected 17.9 (0.001)
Passed Fwd filter:                        20  (0.00111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              20  [number of targets reported over threshold]
# CPU time: 0.53u 0.27s 00:00:00.80 Elapsed: 00:00:00.41
# Mc/sec: 1758.08
//
Query:       PHY93_11695|PHY93_11695  [L=215]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.2e-49  165.6  13.2    5.1e-19   68.4   0.2    3.0  3  BON       BON domain


Domain annotation for each model (and alignments):
>> BON  BON domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.3   1.6   1.8e-20   3.3e-16       1      68 [.       3      70 ..       3      70 .. 0.98
   2 !   68.4   0.2   2.8e-23   5.1e-19       1      69 []      78     146 ..      78     146 .. 0.98
   3 !   45.6   0.5   3.7e-16   6.6e-12       4      67 ..     152     215 .]     150     215 .] 0.97

  Alignments for each domain:
  == domain 1  score: 59.3 bits;  conditional E-value: 1.8e-20
                             EHHCCHHHHHHHHHHHCHTTGCCCEEEEETTCEEEECEEECHHHHHHHHHHHHCCTTEEEEEEEEEEE CS
                      BON  1 dDaeiaakvkaalakdggldaadinVevenGvVtLsGtVdseaekekAveiarnvaGVkkVvnelkvr 68
                             +D+++++++ ++l++++++++++i V v+ G +tLsGtV++  ek  A+++a++v GVk++v +++v+
  PHY93_11695|PHY93_11695  3 SDSQLQTNIIEELKWEPSVNHEHIGVAVSGGIATLSGTVQTFIEKHNAEKAAQRVVGVKAIVENIEVK 70
                             79****************************************************************96 PP

  == domain 2  score: 68.4 bits;  conditional E-value: 2.8e-23
                              EHHCCHHHHHHHHHHHCHTTGCCCEEEEETTCEEEECEEECHHHHHHHHHHHHCCTTEEEEEEEEEEEE CS
                      BON   1 dDaeiaakvkaalakdggldaadinVevenGvVtLsGtVdseaekekAveiarnvaGVkkVvnelkvrp 69 
                              dD++ia+++ ++++++  ++ ++i+ +v+nG+VtLsG+Vd+e ++ +Av+++r+++GVk V n+++++p
  PHY93_11695|PHY93_11695  78 DDEDIAKAIVNQFEWNTLIPRNKIKAKVSNGWVTLSGEVDWEFQRKAAVKVVRELTGVKFVSNNIELKP 146
                              8****************************************************************9985 PP

  == domain 3  score: 45.6 bits;  conditional E-value: 3.7e-16
                              CCHHHHHHHHHHHCHTTGCCCEEEEETTCEEEECEEECHHHHHHHHHHHHCCTTEEEEEEEEEE CS
                      BON   4 eiaakvkaalakdggldaadinVevenGvVtLsGtVdseaekekAveiarnvaGVkkVvnelkv 67 
                              ++++k+++al+++   ++  i+V v+  +V+LsG V+s +e+ +++ +a+  +GV++V ++l+v
  PHY93_11695|PHY93_11695 152 DLKEKIEKALLRAAEHESRQIDVNVDGSHVILSGVVRSFSEMKAVEGAAWAAPGVTEVQDNLRV 215
                              6899***********************99*********************************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (215 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       567  (0.0316247); expected 358.6 (0.02)
Passed bias filter:                      374  (0.0208601); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.19s 00:00:00.64 Elapsed: 00:00:00.37
# Mc/sec: 1729.80
//
Query:       PHY93_11700|PHY93_11700  [L=202]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.3e-27   94.4  17.6    6.3e-27   94.4  17.6    1.8  2  Rhomboid  Rhomboid family
      0.002   18.6   4.5      0.002   18.6   4.5    1.8  1  DUF1751   Eukaryotic integral membrane protein (DUF1751)


Domain annotation for each model (and alignments):
>> Rhomboid  Rhomboid family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.7      0.19   1.7e+03     102     126 ..      10      33 ..       2      40 .. 0.71
   2 !   94.4  17.6     7e-31   6.3e-27       3     146 ..      44     196 ..      42     199 .. 0.87

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.19
                              HC...CCCCCCCCCCHHHCTSSSTT CS
                 Rhomboid 102 iallllllfillnlvlgllpraggv 126
                              i ++ +l+f+l+n+   ++p +  +
  PHY93_11700|PHY93_11700  10 IVIINILVFLLWNTYGLIYPEF-MI 33 
                              3367889999999988888876.45 PP

  == domain 2  score: 94.4 bits;  conditional E-value: 7e-31
                              GCC-TTHHHHGGG--SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-S.......-EESSHHHHHHHHH CS
                 Rhomboid   3 krgelwrlltsmflHagwlHllfNmlallvfGsplerrlGslrflllyllsglagsllsllfsaeses....plvGaSGaifgllg 84 
                              ++g++w+llts+f+H   +H+++Nm++++ fG+ +e+ lG +rf+ +yll+g++gsl+++l+ a        +++GaSGai+g+++
  PHY93_11700|PHY93_11700  44 SQGRYWTLLTSVFSHNMTWHIFINMFVFFNFGIIVENYLGPVRFIGFYLLAGITGSLVHCLVCAFILNqpnlMALGASGAISGVIM 129
                              6899*****************************************************999876664335667************** PP

                              HHHHHHHCCCCGS----HC....CCCCCCCCCCHHHCTSS....STTTHHHHHHHHHHHHHHHHHHC CS
                 Rhomboid  85 allvlvprnrkllrkliia.llllllfillnlvlgllpra....ggvsnlAHlgGllaGlllgllll 146
                              ++++l p++r+ l+++i+   +  ++++    +lgll+++    + + + AHlgG+l+Gl++ ++l+
  PHY93_11700|PHY93_11700 130 LFALLYPQERIFLFGIIPLpAIWAAVLFTGVDALGLLNQTrgiaSTIGYGAHLGGALTGLIYFAILR 196
                              **************9999974445555555556666666679999*****************99986 PP

>> DUF1751  Eukaryotic integral membrane protein (DUF1751)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   4.5   2.3e-07     0.002       8      85 ..      48     122 ..      35     137 .. 0.82

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 2.3e-07
                  DUF1751   8 pwtlltasfveqnvwkvlvslltlllggkylErlWgskEllkFilvvnvitnllvvlltlllylvtkseelllvpisG 85 
                               wtllt+ f     w++ ++++  + +g ++E++ g   ++ F l+ ++  +l+ +l++   +++ ++ +l+ +  sG
  PHY93_11700|PHY93_11700  48 YWTLLTSVFSHNMTWHIFINMFVFFNFGIIVENYLGPVRFIGFYLLAGITGSLVHCLVC---AFILNQPNLMALGASG 122
                              6***********************************************99999887665...4455555544444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (202 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       729  (0.0406604); expected 358.6 (0.02)
Passed bias filter:                      260  (0.0145016); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.36
# Mc/sec: 1666.78
//
Query:       PHY93_11705|PHY93_11705  [L=427]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.6e-88  295.9   0.1    4.1e-88  295.2   0.1    1.2  1  CMAS             Mycolic acid cyclopropane synthetase
    2.3e-14   53.8   0.0    4.6e-14   52.9   0.0    1.5  1  Methyltransf_25  Methyltransferase domain
    4.5e-11   43.2   0.0    8.8e-11   42.3   0.0    1.5  1  Methyltransf_11  Methyltransferase domain
    2.2e-10   40.6   0.0    3.6e-10   39.9   0.0    1.3  1  Methyltransf_23  Methyltransferase domain
    4.6e-10   40.1   0.0      1e-09   39.0   0.0    1.6  1  Methyltransf_12  Methyltransferase domain
    7.5e-09   35.6   0.0    1.4e-08   34.7   0.0    1.5  1  Methyltransf_31  Methyltransferase domain
    2.3e-05   24.0   0.0    3.7e-05   23.3   0.0    1.3  1  MTS              Methyltransferase small domain
    0.00073   19.1   0.0     0.0012   18.4   0.0    1.2  1  DOT1             Histone methylation protein DOT1
     0.0019   18.2   0.0     0.0031   17.5   0.0    1.3  1  Methyltransf_18  Methyltransferase domain
     0.0022   17.6   0.0     0.0038   16.8   0.0    1.4  1  Methyltransf_15  RNA cap guanine-N2 methyltransferase
     0.0089   15.8   0.0      0.014   15.2   0.0    1.2  1  PCMT             Protein-L-isoaspartate(D-aspartate) O-methyl
     0.0095   15.5   0.0      0.017   14.7   0.0    1.3  1  MetW             Methionine biosynthesis protein MetW
  ------ inclusion threshold ------
      0.015   15.3   0.0      0.032   14.2   0.0    1.5  1  Methyltransf_32  Methyltransferase domain
      0.049   13.7   0.0      0.089   12.9   0.0    1.4  1  FtsJ             FtsJ-like methyltransferase
       0.11   11.8   0.0       0.21   10.9   0.0    1.5  1  Ubie_methyltran  ubiE/COQ5 methyltransferase family


Domain annotation for each model (and alignments):
>> CMAS  Mycolic acid cyclopropane synthetase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  295.2   0.1   3.4e-91   4.1e-88       5     271 ..     144     405 ..     141     407 .. 0.97

  Alignments for each domain:
  == domain 1  score: 295.2 bits;  conditional E-value: 3.4e-91
                              XXHHHHHHHHTS-HHHHCTTS-TT---S----SSTT--HHHHHHHHHHHHHTTTT--TT-EEEEES-TTSHHHHHHHHHH--EEEE CS
                     CMAS   5 kevenikahYDlsndffalfldptmtYsCAyferddmtLeeAqlaKldlileklelkpGmtlLdiGcGWGslvrraverydvkvvg 90 
                              k++en+ +hYDls d+++lfld++++YsC y+++ ++tLeeAq++K++ il kl +++ +++LdiGcGWG+l+r+ +++ +++v g
  PHY93_11705|PHY93_11705 144 KSRENVGHHYDLSSDLYKLFLDQEWQYSCGYYSSGSETLEEAQKSKMQYILTKLLINKDHHVLDIGCGWGGLARYIARETGARVTG 229
                              56899********************************************************************************* PP

                              EES-HHHHHHHHHHHHTS-SSS-EEEEES-GGG-----SEEEEES-GGGTSGGGHHHHHHHHHHHS-TT-EEEEEEEEE--HHHHH CS
                     CMAS  91 lTlSkeqaklakkrvdeldlerkvevklldyedldekvdrvvsvgafehvgkenydtffkklkkllkedGllllhtitslhkkela 176
                              +TlS+eq  +a+++  e++l++ v+ kl+dy++l++ +dr+vsvg+fehvg++ y+tff+++ kl+ ++G+ llh+i + +  +++
  PHY93_11705|PHY93_11705 230 ITLSREQLDYAENKTREEGLSHLVKFKLCDYRNLKGVYDRIVSVGMFEHVGVDCYQTFFQTIRKLMGREGVALLHSIGRSTIPTTT 315
                              *****************************************************************************998877666 PP

                              CTTCCCHHHHHHTSTTS---BHHHHHHHHHHTT-EEEEEEE-HHHHHHHHHHHHHHHHHTHHHHHHHSHHHHHHHHHHHHHHHHHH CS
                     CMAS 177 erglklkfidkeiFPgGelpsieeieeeiseagftvvdveslrahYakTLkaWaealqenkdeaialvseevarmyelYLagcaea 262
                                     +i+k+iFPgG++p ++e++ ++++ g+ ++d e lr hYakT+++W+e+++e++++a ++++e++ rm+e YLa ++++
  PHY93_11705|PHY93_11705 316 -----NPWIKKYIFPGGYIPALSEVIPHVERSGLFMTDLEVLRLHYAKTINEWRERFEEQRERAQSIYDERFCRMWEFYLASSEAS 396
                              .....48******************************************************************************* PP

                              HHTTSCEEE CS
                     CMAS 263 Frkgyidva 271
                              F+   + v+
  PHY93_11705|PHY93_11705 397 FKYSGNMVF 405
                              *98776666 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.9   0.0   3.9e-17   4.6e-14       1      97 []     205     299 ..     205     299 .. 0.95

  Alignments for each domain:
  == domain 1  score: 52.9 bits;  conditional E-value: 3.9e-17
                              EEEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTT..TEEEEESBCCGBSSSTTTEEEEEEESTGGGSSHHHHHH CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeegl..nvefvqgdaedlpfedgsfDlvvssgalhhlsdedlek 84 
                              vLd+GcG G l++++a++ g a+vtg+ +s e+l++a+++ +eegl   v+f  +d ++l+   g +D +vs+g+++h+  + +++
  PHY93_11705|PHY93_11705 205 VLDIGCGWGGLARYIARETG-ARVTGITLSREQLDYAENKTREEGLshLVKFKLCDYRNLK---GVYDRIVSVGMFEHVGVDCYQT 286
                              9*****************98.************************9999***********8...889******99*********** PP

                              HHHHHHHHEEEEE CS
          Methyltransf_25  85 alkeiarvLkpgG 97 
                              +++ i++++  +G
  PHY93_11705|PHY93_11705 287 FFQTIRKLMGREG 299
                              *****99987666 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.3   0.0   7.4e-14   8.8e-11       1      94 [.     206     301 ..     206     303 .. 0.91

  Alignments for each domain:
  == domain 1  score: 42.3 bits;  conditional E-value: 7.4e-14
                              EEET-TTSHHHHHHH.HTTSEEEEEES-HHHHHHHHHHCCHHT-..EEEETTEECCCTSS-TT-EEEEEEES-CCC-..CCHHHHH CS
          Methyltransf_11   1 LdvGcGtGrlaeala.krgarvvgvDlskemlklakekaseegl..kvefvvadaeklpfednsfDlvvssevlhhv..edpekal 81 
                              Ld+GcG G la+++a ++garv+g+ ls e+l++a++k++eegl   v+f  +d ++l   ++ +D +vs  +++hv  +  + ++
  PHY93_11705|PHY93_11705 206 LDIGCGWGGLARYIArETGARVTGITLSREQLDYAENKTREEGLshLVKFKLCDYRNL---KGVYDRIVSVGMFEHVgvDCYQTFF 288
                              8**************7777************************988888888888885...589**************99999999 PP

                              HHHHHHEEEEEEE CS
          Methyltransf_11  82 keiaRvLkpgGll 94 
                              + i++++  +G+ 
  PHY93_11705|PHY93_11705 289 QTIRKLMGREGVA 301
                              9999999888876 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.9   0.0     3e-13   3.6e-10       6     125 ..     187     322 ..     181     387 .. 0.77

  Alignments for each domain:
  == domain 1  score: 39.9 bits;  conditional E-value: 3e-13
          Methyltransf_23   6 eeelsdklerllpklraggrvLdiGcGtGillevl.rengfsvtgvDlspeaveiae....kakkaqkdqfdeqeaaepqgkfdlI 86 
                              + +++  l +ll   +++  vLdiGcG G l++++ re g+ vtg+ ls+e+ + ae    +   ++ ++f   + ++ +g +d I
  PHY93_11705|PHY93_11705 187 KSKMQYILTKLL--INKDHHVLDIGCGWGGLARYIaRETGARVTGITLSREQLDYAEnktrEEGLSHLVKFKLCDYRNLKGVYDRI 270
                              456777777777..8999*****************6666***********9999888776655555555555557888999***** PP

          Methyltransf_23  87 vlrevlehvp.d.ppellrqiatllkpgGylllseplasl...........k 125
                              v+  ++ehv  d +   +++i++l+  +G++ll+ +++s            +
  PHY93_11705|PHY93_11705 271 VSVGMFEHVGvDcYQTFFQTIRKLMGREGVALLHSIGRSTiptttnpwikkY 322
                              **********768**********************99987766666555550 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.0   0.0   8.7e-13     1e-09       1      98 [.     206     300 ..     206     301 .. 0.89

  Alignments for each domain:
  == domain 1  score: 39.0 bits;  conditional E-value: 8.7e-13
          Methyltransf_12   1 LeiGcGtGsllralleklpdieytgvDispsaiedakeklakrennnnnnvelealdlldldggssfDlvvasnvlhhl..kdire 84 
                              L+iGcG G l+r+++++  ++++tg+ +s+++++ a++k+++++  +   v+++ +d  +l+g   +D +v+ + ++h+  +  + 
  PHY93_11705|PHY93_11705 206 LDIGCGWGGLARYIARE-TGARVTGITLSREQLDYAENKTREEGLSH--LVKFKLCDYRNLKG--VYDRIVSVGMFEHVgvDCYQT 286
                              8****************.***************88888888888766..66666666666666..9******************** PP

          Methyltransf_12  85 vldnirklLkpgGr 98 
                              +++ irkl+  +G+
  PHY93_11705|PHY93_11705 287 FFQTIRKLMGREGV 300
                              ********999886 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.7   0.0   1.2e-11   1.4e-08       2     113 ..     200     307 ..     199     378 .. 0.80

  Alignments for each domain:
  == domain 1  score: 34.7 bits;  conditional E-value: 1.2e-11
          Methyltransf_31   2 dkglrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielArenaqklgld.nveFeqgdieeleklledekfDlilsnevl.n 85 
                              +k+ +vlD+GCG G l+  +a+e   +a+v+Gi  s e + +A++++++ gl+  v+F+ +d  +l+       +D i+s + + +
  PHY93_11705|PHY93_11705 200 NKDHHVLDIGCGWGGLARYIARET--GARVTGITLSREQLDYAENKTREEGLShLVKFKLCDYRNLK-----GVYDRIVSVGMFeH 278
                              78999****************885..69*************************99**********99.....779*9*99999963 PP

          Methyltransf_31  86 aladp.dkileeiervlkpggilliedpr 113
                                 d+ + +++ i +++  +g+ l+ ++ 
  PHY93_11705|PHY93_11705 279 VGVDCyQTFFQTIRKLMGREGVALLHSIG 307
                              33444155667777777777777666655 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.3   0.0   3.1e-08   3.7e-05      24     103 ..     194     272 ..     188     303 .. 0.82

  Alignments for each domain:
  == domain 1  score: 23.3 bits;  conditional E-value: 3.1e-08
                              HHHCHCCTCSEEEEET-TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHTTGC..EEEEE-STTTTSTTS-EEEEEE CS
                      MTS  24 letlpkelsgkvlDlGcGaGvlgaalakespeaevtlvdvdarAlesakenleankle..vevvasdvleeveekkfdlivs 103
                              l++l  +++++vlD+GcG+G l+  +a+e+   +vt +  + + l+ a++  ++++l+  v++  +d + +++ + +d ivs
  PHY93_11705|PHY93_11705 194 LTKLLINKDHHVLDIGCGWGGLARYIARETGA-RVTGITLSREQLDYAENKTREEGLShlVKFKLCD-YRNLK-GVYDRIVS 272
                              44555558899****************98877.8**********************99877777777.45666.78888887 PP

>> DOT1  Histone methylation protein DOT1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0     1e-06    0.0012      15      88 ..     174     246 ..     167     264 .. 0.90

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 1e-06
                              --SSGGG----B-HHHHHHHHHHTT--TT-EEEEES-TTSHHHHHHHHHH--SEEEEEE--HHHHHHHHHHHHH CS
                     DOT1  15 YkafsnevYGEllpeflsevldkvnlkkedvFvDLGSGvGnvvlqaalevgcklsvGvEimdnaselaekqkee 88 
                              Y +  +e+  E + + ++ +l+k+ ++k++  +D+G G G +  ++a e+g +  +G+ ++ +  ++ae++++e
  PHY93_11705|PHY93_11705 174 YYSSGSETLEEAQKSKMQYILTKLLINKDHHVLDIGCGWGGLARYIARETGAR-VTGITLSREQLDYAENKTRE 246
                              5555567788999**************************************99.99*************98875 PP

>> Methyltransf_18  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.0   2.6e-06    0.0031      11      91 ..     198     275 ..     187     283 .. 0.86

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 2.6e-06
          Methyltransf_18  11 lvekgsrvaDiGtDHgylpiylvkegkakkviasDinegplekakeniekagledkievrlsdGleklkeeevdtvviaGm 91 
                              l++k+++v+DiG+  g l+ y+++e  a +v+ + ++++ l+ a+++ +++gl++ +++ l+d   +lk + +d +v  Gm
  PHY93_11705|PHY93_11705 198 LINKDHHVLDIGCGWGGLARYIARETGA-RVTGITLSREQLDYAENKTREEGLSHLVKFKLCDY-RNLK-GVYDRIVSVGM 275
                              789999****************977665.99******************************995.5564.44777887777 PP

>> Methyltransf_15  RNA cap guanine-N2 methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   3.2e-06    0.0038       3      60 ..     204     262 ..     202     294 .. 0.86

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 3.2e-06
          Methyltransf_15   3 vilDlfsGaGGnviqfalv.fekviaieinleklacaqhNaevYgvsdkitlvlgdvfe 60 
                               +lD+ +G GG +  +a++ + +v +i  ++e+l  a++ ++  g s+ ++++l+d+ +
  PHY93_11705|PHY93_11705 204 HVLDIGCGWGGLARYIAREtGARVTGITLSREQLDYAENKTREEGLSHLVKFKLCDYRN 262
                              58***************98899**********************************987 PP

>> PCMT  Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0   1.2e-05     0.014      62     132 ..     190     259 ..     166     273 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 1.2e-05
                              HHHHHHHTT--TT-EEEEES-TTSHHHHHHHHHHCTTCEEEEEESBHHHHHHHHHHHHHCTTC.SEEEEES- CS
                     PCMT  62 valalellelkkgarvLevGsGsGyltavlarlvgekgrvvsierikelveeakrnlkkldle.nvivvvgD 132
                              + ++l  l ++k  +vL++G+G G l+  +ar  g+  rv +i  ++e  + a+++ ++++l+  v+++  D
  PHY93_11705|PHY93_11705 190 MQYILTKLLINKDHHVLDIGCGWGGLARYIARETGA--RVTGITLSREQLDYAENKTREEGLShLVKFKLCD 259
                              4455555669***************99999886665..6799*99***9*******9999998456677666 PP

>> MetW  Methionine biosynthesis protein MetW
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.0   1.4e-05     0.017       8      50 ..     196     238 ..     189     249 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1.4e-05
                     MetW   8 aelikpgsrvldlGcGdGellellkeekqvdgrGleldeegva 50 
                              + li++  +vld+GcG G l ++++ e + +  G+ l++e + 
  PHY93_11705|PHY93_11705 196 KLLINKDHHVLDIGCGWGGLARYIARETGARVTGITLSREQLD 238
                              4589999*****************************9998765 PP

>> Methyltransf_32  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   2.7e-05     0.032      24      75 ..     200     248 ..     186     264 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 2.7e-05
          Methyltransf_32  24 sgaltvvDvGaGkgYLsfvlalkekeyklkvvgidakeelvekaekraeklg 75 
                              +++ +v+D+G+G g L++ +a    e + +v+gi +++e  + ae+  ++ g
  PHY93_11705|PHY93_11705 200 NKDHHVLDIGCGWGGLARYIAR---ETGARVTGITLSREQLDYAENKTREEG 248
                              46789*****************...99*********9999998887766654 PP

>> FtsJ  FtsJ-like methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   7.5e-05     0.089       8      56 ..     189     234 ..     185     259 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 7.5e-05
                              HHHHHHHHHT-S-TT-EEEECT-TTSHHHHHHCCT.T.-SEEEEEESSS CS
                     FtsJ   8 KLleidekfklfkpgktvvDlgaaPGgwsqvllqrlgakgkvvavDlqp 56 
                              K++ i+ k   ++++++v+D+g++ Gg + ++++++g  ++v +++l  
  PHY93_11705|PHY93_11705 189 KMQYILTKLL-INKDHHVLDIGCGWGGLARYIARETG--ARVTGITLSR 234
                              5666666664.8899********************87..69****9965 PP

>> Ubie_methyltran  ubiE/COQ5 methyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   0.00017      0.21      46     102 ..     200     255 ..     179     323 .. 0.84

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00017
                              --TTEEEEES-TT-HHHHHHHHHHHHHHEEEEEES-HHHHHHHHHHHHHHTSS.TEEE CS
          Ubie_methyltran  46 krgakvlDvagGtgDlafklsdsvgekgkvvvlDinenmLkvgekklkeegki.nief 102
                               + ++vlD+ +G g la  ++++ g+  +v+++ ++ + L+ +e+k +eeg +  ++f
  PHY93_11705|PHY93_11705 200 NKDHHVLDIGCGWGGLARYIARETGA--RVTGITLSREQLDYAENKTREEGLShLVKF 255
                              45679***************998876..5899*******************9844566 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (427 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       712  (0.0397122); expected 358.6 (0.02)
Passed bias filter:                      642  (0.0358079); expected 358.6 (0.02)
Passed Vit filter:                        65  (0.00362541); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.37
# Mc/sec: 3484.29
//
Query:       PHY93_11710|PHY93_11710  [L=159]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.4e-24   86.2   0.5    1.8e-24   85.8   0.5    1.1  1  HSP20       Hsp20/alpha crystallin family
    1.2e-09   37.5   0.0    2.2e-09   36.7   0.0    1.4  1  ArsA_HSP20  HSP20-like domain found in ArsA


Domain annotation for each model (and alignments):
>> HSP20  Hsp20/alpha crystallin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.8   0.5     2e-28   1.8e-24       1     101 [.      58     159 .]      58     159 .] 0.95

  Alignments for each domain:
  == domain 1  score: 85.8 bits;  conditional E-value: 2e-28
                              E--SSEEEEEEEEE-TT--CCCEEEEEETTEEEEEEE--....---TT----SS---EEEEEE--STTB-TTT-EEEEETTEEEEE CS
                    HSP20   1 dikeeeeefevkldvpglkkeelkvkvednrvlvkgehe..eeeedekglikerssrkFsrkftLPenvdadkvkaslkdGvLtvt 84 
                              d ke+++++ + +d+pg+++++++++ +dn +++kge++  +e+ d +++  erss++F+r + L e++d++++ka+lkdGvL+++
  PHY93_11710|PHY93_11710  58 DLKEKNDKYLLDADLPGMNESDIDIDFHDNILTIKGEKKseKETRDLDYVCVERSSGSFRRDIYLDEEIDQSNIKADLKDGVLHME 143
                              57999**********************************7777788899************************************* PP

                              EEBSS--..-------- CS
                    HSP20  85 vpkkepekkkkerkiqi 101
                              + kkep k+ + +ki+i
  PHY93_11710|PHY93_11710 144 LTKKEPGKS-THKKIPI 159
                              ******976.9999988 PP

>> ArsA_HSP20  HSP20-like domain found in ArsA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.7   0.0   2.5e-13   2.2e-09       1      61 [.      63     142 ..      63     144 .. 0.97

  Alignments for each domain:
  == domain 1  score: 36.7 bits;  conditional E-value: 2.5e-13
               ArsA_HSP20   1 ddeyvlkldLPfvdkeeidlsrsgdeLtIkig....................nfrRqitLPsvlarkevtsAkfedgvLeI 61 
                              +d+y l++dLP++++++id+  +++ LtIk +                    +frR i L + +++ ++ +A ++dgvL+ 
  PHY93_11710|PHY93_11710  63 NDKYLLDADLPGMNESDIDIDFHDNILTIKGEkkseketrdldyvcverssgSFRRDIYLDEEIDQSNI-KADLKDGVLHM 142
                              699******************************************************************.*********86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (159 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       451  (0.0251548); expected 358.6 (0.02)
Passed bias filter:                      344  (0.0191868); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.41u 0.23s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 1187.55
//
Query:       PHY93_11715|PHY93_11715  [L=186]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (186 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       264  (0.0147247); expected 358.6 (0.02)
Passed bias filter:                      242  (0.0134977); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.23s 00:00:00.62 Elapsed: 00:00:00.38
# Mc/sec: 1465.18
//
Query:       PHY93_11720|PHY93_11720  [L=209]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.3e-24   86.5   0.0    1.5e-24   86.3   0.0    1.1  1  Pribosyltran  Phosphoribosyl transferase domain
      8e-06   25.4   0.1    1.1e-05   25.0   0.1    1.2  1  UPRTase       Uracil phosphoribosyltransferase
     0.0064   16.0   0.0     0.0093   15.5   0.0    1.2  1  PRTase_2      Phosphoribosyl transferase


Domain annotation for each model (and alignments):
>> Pribosyltran  Phosphoribosyl transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.3   0.0   2.5e-28   1.5e-24       6     146 ..       3     179 ..       1     192 [. 0.87

  Alignments for each domain:
  == domain 1  score: 86.3 bits;  conditional E-value: 2.5e-28
                              TT---EEEEEEETTEEEEEE--GGGEEEEEEETTTHHHHHHHHHHSTT-EE-EEEEEE-TTT--EE.................... CS
             Pribosyltran   6 lenpaildavarlaaeileeyngkpdvvvgiargGvpfakiladeLevplayvrkvkyrpdgseeaargssdes............ 79 
                              ++ ++   a+a  + e+le+y+gk+++v+gi+rg++p+aki+ad L+++l+ v++ k  ++ +ee+a+g + +s            
  PHY93_11720|PHY93_11720   3 FKDRE---AAAYQLLEKLEKYRGKNPIVAGIPRGAMPMAKIIADGLGAELDAVLVHKIPHPENEEFAIGCVGISgnihrlpyveef 85 
                              55455...6666677777779***************************************************************** PP

                              ..........................EE----TTSEEEEE-SEESSSHHHHHHHHHHHCC-BSEEEEEEEEE-HHHHHHHHHH-TT CS
             Pribosyltran  80 ..........................rlledpagkkVliVDDildtGgTllaalelLkekgpeevriavlvdkpateeevdknakr 139
                                                          +++ ++++V+iVDD+++tG T + a+  +++ g+ ++++a+ v   + ++e +  +++
  PHY93_11720|PHY93_11720  86 qisesyiqsaaktqletlkerqkkygLGEPKMKDRIVIIVDDGIATGATTIGAISEVRSLGASKIILAAAVSATSAAREIKPLVDE 171
                              *******************************************************************9999666666655555555 PP

                              S......E CS
             Pribosyltran 140 vfsls.pd 146
                              ++ l  p+
  PHY93_11720|PHY93_11720 172 FIVLDiPS 179
                              44444445 PP

>> UPRTase  Uracil phosphoribosyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.0   0.1   1.8e-09   1.1e-05     117     169 ..     115     165 ..      86     177 .. 0.82

  Alignments for each domain:
  == domain 1  score: 25.0 bits;  conditional E-value: 1.8e-09
                  UPRTase 117 kkiaertvlllDpviaTGgsaaaaiqlLkergvgeekIlvlsvlaseegvkrl 169
                               k+++r v+++D  iaTG++ + ai+ +++   g +kI++++ ++++++++++
  PHY93_11720|PHY93_11720 115 PKMKDRIVIIVDDGIATGATTIGAISEVRS--LGASKIILAAAVSATSAAREI 165
                              4678999***********************..5569********999988765 PP

>> PRTase_2  Phosphoribosyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   1.6e-06    0.0093     120     158 ..     118     156 ..      96     171 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.6e-06
                 PRTase_2 120 aakelvLvDDEistGktalnliralqeklprkryvvvsl 158
                              +++ +++vDD i+tG t++  i+++++   +k +  +++
  PHY93_11720|PHY93_11720 118 KDRIVIIVDDGIATGATTIGAISEVRSLGASKIILAAAV 156
                              568899******************998766555444443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (209 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       579  (0.032294); expected 358.6 (0.02)
Passed bias filter:                      517  (0.028836); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.38
# Mc/sec: 1628.82
//
Query:       PHY93_11725|PHY93_11725  [L=313]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.3e-26   92.8   0.0    5.4e-26   90.8   0.0    1.9  2  Pribosyltran_N  N-terminal domain of ribose phosphate pyropho
    2.5e-15   57.0   0.0    1.1e-14   54.9   0.0    1.9  2  Pribosyl_synth  Phosphoribosyl synthetase-associated domain
    1.4e-10   41.0   0.0    3.9e-10   39.5   0.0    1.7  2  Pribosyltran    Phosphoribosyl transferase domain
     0.0052   16.3   0.0     0.0082   15.6   0.0    1.2  1  UPRTase         Uracil phosphoribosyltransferase
     0.0086   15.6   0.0      0.014   14.9   0.0    1.3  1  PRTase_2        Phosphoribosyl transferase


Domain annotation for each model (and alignments):
>> Pribosyltran_N  N-terminal domain of ribose phosphate pyrophosphokinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   90.8   0.0   1.5e-29   5.4e-26       1     116 []       4     124 ..       4     124 .. 0.97
   2 ?   -0.6   0.0      0.35   1.2e+03      16      59 ..     188     233 ..     178     258 .. 0.60

  Alignments for each domain:
  == domain 1  score: 90.8 bits;  conditional E-value: 1.5e-29
           Pribosyltran_N   1 lkifagssskeLaekiakrlgvelgkakvsrfadgEikveieesvrgkdvfiiqsls....kpvndnlmelllmidalrrasakri 82 
                              lk+f    ++ La++++++lg+el +++ ++f+dgE kv+    v +++vf+ +sl     + vnd+l+el++++++lr   a ++
  PHY93_11725|PHY93_11725   4 LKVFGIGPTQTLAKEVCQKLGIELSTIDEEKFPDGELKVRPCARVENANVFVFHSLGgdniRTVNDRLCELYFFLSTLRDLGALSV 89 
                              5788888899***********************************************99999************************ PP

           Pribosyltran_N  83 taViPylgysrqdrk.ksrepisaklvaklLeaaG 116
                              taViPyl y+r+d++  + ++i  ++va++Le +G
  PHY93_11725|PHY93_11725  90 TAVIPYLSYARSDQRkGPFDSIILRYVAQMLEGSG 124
                              *************99778**************987 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.35
           Pribosyltran_N  16 iakrlgvelgkakvsrfadgE..ikveieesvrgkdvfiiqslskp 59 
                              + + +g+++ +a +++f + E  +  ++   v g+++ i+ ++ + 
  PHY93_11725|PHY93_11725 188 LENLTGIPVDSAFLEKFRTPEgvTGHKLVGAVSGRTILIVDDMIST 233
                              5555666666666666665551144566668888888888887755 PP

>> Pribosyl_synth  Phosphoribosyl synthetase-associated domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.0      0.48   1.7e+03     102     124 ..     116     138 ..     109     154 .. 0.80
   2 !   54.9   0.0   2.9e-18   1.1e-14      76     170 ..     214     308 ..     195     311 .. 0.95

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.48
                              HHHHHHHTT--EEEEEEEEE--- CS
           Pribosyl_synth 102 aaevlkerGaykiyvlathGlls 124
                               a++l+  G ++i+ +  h + +
  PHY93_11725|PHY93_11725 116 VAQMLEGSGVHRIISMDVHNISA 138
                              68999999999999999998755 PP

  == domain 2  score: 54.9 bits;  conditional E-value: 2.9e-18
                              -EES--TTSEEEEEEEEE-S-HHHHHHHHHHHHTT--EEEEEEEEE---TTHHHHHHHSS--EEEEESSS--HHHHHT-TTEEEE- CS
           Pribosyl_synth  76 tvvGdvgGriaiivddliddvesfvaaaevlkerGaykiyvlathGllssdaprlleesaidevvvtntipheiqklrcskiktvd 161
                              ++vG v+Gr  +ivdd+i   e++ +a +  ++ Ga  i v+athGl+++++ +ll++  +de +vt++ p   + +  +k++ + 
  PHY93_11725|PHY93_11725 214 KLVGAVSGRTILIVDDMISTGETIFHALDACHKEGAGSIKVFATHGLFTKNQNELLNSPLVDEFIVTDSHPALKDLAPFKKLRVLS 299
                              68*********************************************************************99999999******* PP

                              -HHHHHHHH CS
           Pribosyl_synth 162 islllaeai 170
                               + l+aeai
  PHY93_11725|PHY93_11725 300 CASLFAEAI 308
                              ********9 PP

>> Pribosyltran  Phosphoribosyl transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0      0.91   3.3e+03      43      63 ..      15      35 ..      14      39 .. 0.85
   2 !   39.5   0.0   1.1e-13   3.9e-10      30     124 ..     167     258 ..     151     276 .. 0.85

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 0.91
                             HHHHHHHHSTT-EE-EEEEEE CS
             Pribosyltran 43 fakiladeLevplayvrkvky 63
                             +ak++ ++L+++l  ++++k+
  PHY93_11725|PHY93_11725 15 LAKEVCQKLGIELSTIDEEKF 35
                             7999999*****999998876 PP

  == domain 2  score: 39.5 bits;  conditional E-value: 1.1e-13
                              GEEEEEEETTTHHHHHHHHHHS....TT-EE-EEEEEE-TTT--EE........EE----TTSEEEEE-SEESSSHHHHHHHHHHH CS
             Pribosyltran  30 pdvvvgiargGvpfakiladeL....evplayvrkvkyrpdgseeaargssdesrlledpagkkVliVDDildtGgTllaalelLk 111
                               +vv+ ++ gG+ +a i  ++L    ++p++    +k+r++ + + ++       l + + g+++liVDD+++tG T+ +al++ +
  PHY93_11725|PHY93_11725 167 LPVVLSPDIGGIKRAEIFRKQLenltGIPVDSAFLEKFRTPEGVTGHK-------LVGAVSGRTILIVDDMISTGETIFHALDACH 245
                              48********************99999999966666666655555553.......99***************************** PP

                              CC-BSEEEEEEEE CS
             Pribosyltran 112 ekgpeevriavlv 124
                              ++g+ ++++ + +
  PHY93_11725|PHY93_11725 246 KEGAGSIKVFATH 258
                              *****99987665 PP

>> UPRTase  Uracil phosphoribosyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   2.3e-06    0.0082     114     157 ..     214     257 ..     196     270 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 2.3e-06
                  UPRTase 114 kLPkkiaertvlllDpviaTGgsaaaaiqlLkergvgeekIlvl 157
                              kL   ++ rt+l++D +i+TG+++ +a++   ++g+g+ k++  
  PHY93_11725|PHY93_11725 214 KLVGAVSGRTILIVDDMISTGETIFHALDACHKEGAGSIKVFAT 257
                              667778899************************99998888765 PP

>> PRTase_2  Phosphoribosyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.0   3.9e-06     0.014     121     149 ..     221     249 ..     212     268 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 3.9e-06
                 PRTase_2 121 akelvLvDDEistGktalnliralqeklp 149
                               +++++vDD istG+t+ + ++a++++  
  PHY93_11725|PHY93_11725 221 GRTILIVDDMISTGETIFHALDACHKEGA 249
                              589*********************99865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (313 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       368  (0.0205254); expected 358.6 (0.02)
Passed bias filter:                      360  (0.0200792); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.46u 0.17s 00:00:00.63 Elapsed: 00:00:00.34
# Mc/sec: 2735.13
//
Query:       PHY93_11730|PHY93_11730  [L=363]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.2e-74  248.9   0.0    6.2e-74  248.7   0.0    1.1  1  PGA_cap   Bacterial capsule synthesis protein PGA_cap
  ------ inclusion threshold ------
      0.047   12.8   0.2       0.11   11.6   0.0    1.6  2  DUF4708   Domain of unknown function (DUF4708)


Domain annotation for each model (and alignments):
>> PGA_cap  Bacterial capsule synthesis protein PGA_cap
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  248.7   0.0     7e-78   6.2e-74       1     257 []       2     282 ..       2     282 .. 0.96

  Alignments for each domain:
  == domain 1  score: 248.7 bits;  conditional E-value: 7e-78
                  PGA_cap   1 tlafvGDvmlgralkqalkeke.............................ydfdpifaevkpllraa..DlaivNlEtpvteege 55 
                              +++++GDvm+gr+++q+l+++                              ++ d+i+++++ + +++  Dl i+NlEt++t++++
  PHY93_11730|PHY93_11730   2 KIFLCGDVMTGRGIDQILHHPVqphlyegyvkdardyvklaevvsgkipreVAADYIWGDALTIWKERrpDLKIINLETAITTNET 87 
                              699******************9*******************************************99999**************** PP

                  PGA_cap  56 plsgkplfrappevlaalkeagfdvvslAnNHalDygeeGlletlealdeagikhaGagrseaearkpailevkgirvallayteg 141
                               +++++++r++p+++ + ++ag+d++slAnNH+lD+ ++G++et++ ld+ +ikh+Gag++ +ea +pai+e +++rv++++  + 
  PHY93_11730|PHY93_11730  88 FFNKGINYRMHPDNISVFTAAGIDICSLANNHILDWDRTGMRETISVLDRINIKHSGAGETIKEAAAPAIFENEEGRVLVFSIGHI 173
                              ************************************************************************************44 PP

                  PGA_cap 142 tnstaeakagepnseeakeeeagaskerpgvaskdleklladirearkeadlvivslHwgeeyqekpadeqrelaralid.aGadv 226
                                     ++g+p +++a+++++g+       ++++ +k+++ i++ +k+ d+vivs+Hw  +++++++d+  ++a++lid aG+++
  PHY93_11730|PHY93_11730 174 -------SSGVPIEWSATDRKSGVF-LLTVFNDESIQKIQRLIEQYKKQEDIVIVSIHWDSNWGYDVPDSNSKFAHDLIDlAGVNI 251
                              .......588889999888665555.5666777899***********99************************************* PP

                  PGA_cap 227 viGhhpHvlqgieiykgklifYSlGNfifdq 257
                              ++Gh++H++++ieiykg +ifY++G+fi+d+
  PHY93_11730|PHY93_11730 252 IHGHSSHHPRPIEIYKGCPIFYGCGDFINDY 282
                              ****************************996 PP

>> DUF4708  Domain of unknown function (DUF4708)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   1.2e-05      0.11     192     240 ..     189     237 ..     174     250 .. 0.84
   2 ?   -2.6   0.1      0.28   2.5e+03     156     186 ..     304     334 ..     298     349 .. 0.53

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 1.2e-05
                  DUF4708 192 wcyvlPslkkgqvisiskeipsdspfksyedlqkhWknlyGYkLPedee 240
                               +++l  ++   + +i++ i++++  ++   + +hW++++GY +P++++
  PHY93_11730|PHY93_11730 189 GVFLLTVFNDESIQKIQRLIEQYKKQEDIVIVSIHWDSNWGYDVPDSNS 237
                              567777888889999*******999999999***************954 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 0.28
                  DUF4708 156 rlPvaeledfdisakvikeFesnkeavieek 186
                              ++ + +l+++++    i++F+ n+ +  +++
  PHY93_11730|PHY93_11730 304 QMKPFKLQKLELDCLKINHFRLNQASFKDTN 334
                              5555555555555555555555554443333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (363 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       601  (0.0335211); expected 358.6 (0.02)
Passed bias filter:                      495  (0.0276089); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.22s 00:00:00.75 Elapsed: 00:00:00.40
# Mc/sec: 2742.55
//
Query:       PHY93_05660|PHY93_05660  [L=239]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.2e-27   95.7   0.0    4.4e-27   95.3   0.0    1.2  1  ABC_tran         ABC transporter
      7e-11   42.5   0.7    6.9e-07   29.4   0.1    2.1  2  AAA_21           AAA domain, putative AbiEii toxin, Type IV T
    0.00059   19.8   0.0      0.009   15.9   0.0    2.2  2  RsgA_GTPase      RsgA GTPase
    0.00089   19.0   0.0     0.0045   16.7   0.0    1.9  2  AAA_29           P-loop containing region of AAA domain
    0.00096   19.4   0.1     0.0094   16.2   0.1    2.5  1  AAA_22           AAA domain
     0.0015   19.0   0.2      0.012   16.2   0.2    1.9  1  AAA_23           AAA domain
     0.0036   17.3   0.2      0.084   12.9   0.0    2.4  3  AAA_5            AAA domain (dynein-related subfamily)
  ------ inclusion threshold ------
      0.015   15.7   0.0      0.062   13.7   0.0    2.1  1  AAA              ATPase family associated with various cellul
      0.019   14.9   0.0      0.029   14.3   0.0    1.3  1  ATPase_2         ATPase domain predominantly from Archaea
       0.02   14.8   0.0      0.051   13.5   0.0    1.6  1  Cdc6_C           CDC6, C terminal winged helix domain
      0.059   13.1   0.0        1.6    8.4   0.0    2.1  2  AAA_15           AAA ATPase domain
      0.079   13.3   0.0       0.12   12.8   0.0    1.5  1  AAA_16           AAA ATPase domain
        0.1   12.2   0.2       0.31   10.6   0.1    1.7  2  cobW             CobW/HypB/UreG, nucleotide-binding domain
       0.12   12.0   0.0        1.4    8.6   0.0    2.1  2  Thymidylate_kin  Thymidylate kinase
       0.14   11.9   0.0       0.24   11.1   0.0    1.4  1  AAA_24           AAA domain
       0.14   11.5   0.3       0.29   10.5   0.2    1.6  1  Mg_chelatase     Magnesium chelatase, subunit ChlI
       0.15   11.8   0.0       0.32   10.7   0.0    1.5  2  AAA_30           AAA domain
       0.15   12.0   0.1        0.5   10.4   0.0    1.8  2  TsaE             Threonylcarbamoyl adenosine biosynthesis pro
       0.16   11.5   0.0       0.35   10.4   0.0    1.5  1  AAA_27           AAA domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   95.3   0.0   4.6e-30   4.4e-27       1     137 []      21     165 ..      21     165 .. 0.88

  Alignments for each domain:
  == domain 1  score: 95.3 bits;  conditional E-value: 4.6e-30
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH....... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren....... 79 
                              l++vsl++++g++++++G+ GaGK+tLl+l+++ll+p+ G+i++  +d + ++ e+++  ++++pq+++l  +l++ e+       
  PHY93_05660|PHY93_05660  21 LDDVSLNFEAGHMHGLIGPEGAGKTTLLRLMINLLRPNLGSIQYT-RDGNAITFEKVKGVVAYMPQQQSLYGDLSIDEHleffrdl 105
                              799***************************************887.56666778******************************** PP

                              ..HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              ..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ..esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                                  +++ ++ +s+l  +   d+ v++ +s+LSgG+ +++ l+++ll+ p++lllDEpt+
  PHY93_05660|PHY93_05660 106 ysIPKDQYQQTRSELLEITRLDKFVDRIASKLSGGMYKKLGLMCSLLRSPEVLLLDEPTN 165
                              *9555555555555555555555555555******************************8 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.6   0.1   0.00019      0.18       2      24 ..      34      56 ..      33      77 .. 0.74
   2 !   29.4   0.1   7.4e-10   6.9e-07     233     296 ..     133     193 ..      90     193 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00019
                   AAA_21  2 nvliGpNgsGKSnLLdaldllar 24
                              +liGp g+GK++LL+++  l r
  PHY93_05660|PHY93_05660 34 HGLIGPEGAGKTTLLRLMINLLR 56
                             589*************9966654 PP

  == domain 2  score: 29.4 bits;  conditional E-value: 7.4e-10
                   AAA_21 233 parelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQviltT 296
                               a++lS G+ + l+l  +llr +    +ll+DEp ng++P   r++++ll +l+++++ +i++T
  PHY93_05660|PHY93_05660 133 IASKLSGGMYKKLGLMCSLLRSP---EVLLLDEPTNGIDPISRREFWDLLYRLADKKILIIIAT 193
                              35678****************99...9***********************99999888888887 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.0   9.5e-06     0.009      74     128 ..       3      60 ..       1      74 [. 0.80
   2 ?    1.6   0.0      0.25   2.3e+02       5      22 ..     220     237 ..     217     239 .] 0.85

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 9.5e-06
                              HTTSEEEE--TT..THTTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT-----S CS
              RsgA_GTPase  74 algyevllvsak..tkegleelkellkd.ktsvlvGqSGvGKStLinallpelelktg 128
                               +g++vl vs+k   +++l++++ +++  ++  l+G+ G+GK+tL+  +++ l+ + g
  PHY93_05660|PHY93_05660   3 GIGIQVLNVSKKlgANQALDDVSLNFEAgHMHGLIGPEGAGKTTLLRLMINLLRPNLG 60 
                              68999999999833458899**9999988****************9877665555554 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.25
                              S-EETTTTEES--EEEEE CS
              RsgA_GTPase   5 knelvrpkvaNvdqlliv 22 
                              +++l++++vaN d l+i 
  PHY93_05660|PHY93_05660 220 RELLIKESVANFDALFIA 237
                              57899**********996 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.0   4.8e-06    0.0045      13      50 ..      22      59 ..      17      66 .. 0.81
   2 ?   -1.0   0.0       1.5   1.5e+03      38      49 ..     207     218 ..     206     221 .. 0.80

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 4.8e-06
                   AAA_29 13 dghtieidlkg.atlltGpsGsGKSTllDAiqalLvpak 50
                             d+ +++++  g ++ l+Gp G+GK+Tll  ++ lL p+ 
  PHY93_05660|PHY93_05660 22 DDVSLNFEA-GhMHGLIGPEGAGKTTLLRLMINLLRPNL 59
                             566777874.44999*************99999999985 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 1.5
                   AAA_29  38 llDAiqalLvpa 49 
                              l+DA ++lL ++
  PHY93_05660|PHY93_05660 207 LIDAGKTLLEGE 218
                              799999999776 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.1   9.9e-06    0.0094      10     117 ..      36     184 ..      30     217 .. 0.57

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 9.9e-06
                   AAA_22  10 vtGesGtGKTtllrrlleqldeeakaee.............erpevvfvtlpsst.....sskdllrellralglelkaerlssee 77 
                              ++G+ G+GKTtllr + + l                     + ++vv + +++++     s ++ l+ +   +  +++ + ++++e
  PHY93_05660|PHY93_05660  36 LIGPEGAGKTTLLRLMINLLRPNLG--SiqytrdgnaitfeKVKGVVAYMPQQQSlygdlSIDEHLEFFRDLYSIPKDQYQQTRSE 119
                              79****************9943222..24577777777775444444444444444443333333333333333333333333333 PP

                   AAA_22  78 ll..ealeqalrarav...................ielliiDEaqh.lr...seealeeLrslln 117
                              ll  ++l + +++ a                    +e+l++DE  + ++   + e +  L +l++
  PHY93_05660|PHY93_05660 120 LLeiTRLDKFVDRIASklsggmykklglmcsllrsPEVLLLDEPTNgIDpisRREFWDLLYRLAD 184
                              33333333333333333344444555555555555666666666665555533555555555555 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.2   1.2e-05     0.012      11     123 ..      22     132 ..      17     148 .. 0.64

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 1.2e-05
                   AAA_23  11 rdqeidFsk.gltlItGpNGaGKTTildAiklaLygetprlsrksgrgfeksdveiese..gkvkayveltfenkdgry.....tr 88 
                              +d++++F+   +  ++Gp GaGKTT+l+ +   L    +           ++  +i++e  + v ay+  + +     y     ++
  PHY93_05660|PHY93_05660  22 DDVSLNFEAgHMHGLIGPEGAGKTTLLRLMINLLRPNLGSIQY------TRDGNAITFEkvKGVVAYMPQQQSL----YgdlsiDE 97 
                              68889996646999*************9988888754333333......3333333333112222222222111....11223445 PP

                   AAA_23  89 siererelskkkgkttkkaklelleideleqfise 123
                               +e+ r l++  +++++++  ellei+ l++f+++
  PHY93_05660|PHY93_05660  98 HLEFFRDLYSIPKDQYQQTRSELLEITRLDKFVDR 132
                              68888888888888888888888888888888886 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.9   0.0   8.9e-05     0.084       4      35 ..      36      67 ..      35      90 .. 0.83
   2 ?   -3.0   0.0       7.2   6.8e+03      62      73 ..     151     162 ..     118     166 .. 0.66
   3 ?    1.9   0.0      0.22   2.1e+02      68      95 ..     193     221 ..     172     235 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 8.9e-05
                             EE--SSSSHHHHHHHGGGGBS--EEEEE--TT CS
                    AAA_5  4 LvGppGtgKselaerlaaalnreveyvqltrd 35
                             L+Gp G gK++l + +  +l+ ++  +q trd
  PHY93_05660|PHY93_05660 36 LIGPEGAGKTTLLRLMINLLRPNLGSIQYTRD 67
                             8*******************999888888887 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 7.2
                              ---G-SEEEEES CS
                    AAA_5  62 aaregeilvlDE 73 
                                r++e+l+lDE
  PHY93_05660|PHY93_05660 151 LLRSPEVLLLDE 162
                              345788888887 PP

  == domain 3  score: 1.9 bits;  conditional E-value: 0.22
                              EEEEESGGG--.HHHHHHHHHHHHSSEEE CS
                    AAA_5  68 ilvlDEverae.sevlnsLlslleerrll 95 
                              +++lDE er++  + +++  +lle + + 
  PHY93_05660|PHY93_05660 193 TAYLDEAERCSrVHLIDAGKTLLEGEPRE 221
                              68999999999778888888888766554 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   6.5e-05     0.062       3      52 ..      36      85 ..      35     205 .. 0.64

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 6.5e-05
                             EESSTTSSHHHHHHHHHHHHTHEEEEEETTTCSSSSTTHHHHHHHHHHHH CS
                      AAA  3 lyGppGtGKTllakavakelgvefleisgsellskyvgesekkirelfke 52
                             l+Gp G GKT+l + +++ l  ++ +i+ ++  + +  e+ k + +++ +
  PHY93_05660|PHY93_05660 36 LIGPEGAGKTTLLRLMINLLRPNLGSIQYTRDGNAITFEKVKGVVAYMPQ 85
                             89*****************9888877777777766555555555555544 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0     3e-05     0.029      25      70 ..      36      81 ..      24     143 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 3e-05
                 ATPase_2 25 iYGpegsGKtaLlkeiienledkdkyviyyialreesiskldefie 70
                             + Gpeg GKt+Ll+ +i+ l+     + y  + + +  +k++  ++
  PHY93_05660|PHY93_05660 36 LIGPEGAGKTTLLRLMINLLRPNLGSIQYTRDGNAITFEKVKGVVA 81
                             67*****************987777788888888888877776655 PP

>> Cdc6_C  CDC6, C terminal winged helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   5.5e-05     0.051      32      57 ..     165     190 ..     163     198 .. 0.91

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 5.5e-05
                              TT-----HHHHHHHHHHHHHTTSEEE CS
                   Cdc6_C  32 egvdpltqrevsdllseLemlgilel 57 
                               g+dp+++re++dll +L+++ il +
  PHY93_05660|PHY93_05660 165 NGIDPISRREFWDLLYRLADKKILII 190
                              59********************9965 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.4   0.0    0.0017       1.6      14      49 ..      21      57 ..      19     134 .. 0.82
   2 ?    2.9   0.0     0.075        71     324     361 ..     155     191 ..     149     193 .. 0.87

  Alignments for each domain:
  == domain 1  score: 8.4 bits;  conditional E-value: 0.0017
                   AAA_15 14 lkdveidlsee.ltvliGkNnsGKSsilealdlFlnn 49
                             l+dv+++++   +  liG+ ++GK+++l+++  +l  
  PHY93_05660|PHY93_05660 21 LDDVSLNFEAGhMHGLIGPEGAGKTTLLRLMINLLRP 57
                             677778887776778**************99777765 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.075
                   AAA_15 324 nvilliEEPEahLHpqaqkvlikllkelandnktQvii 361
                              + +ll++EP + + p   +++++ll++la+++   +ii
  PHY93_05660|PHY93_05660 155 PEVLLLDEPTNGIDPISRREFWDLLYRLADKKI-LIII 191
                              56899*************************987.5555 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   0.00012      0.12      29      52 ..      36      66 ..      18     191 .. 0.62

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 0.00012
                   AAA_16 29 lsGesGvGKsslvrellralekd.......g 52
                             l+G+ G GK++l+r   + l+ +       +
  PHY93_05660|PHY93_05660 36 LIGPEGAGKTTLLRLMINLLRPNlgsiqytR 66
                             89************99976666643333330 PP

>> cobW  CobW/HypB/UreG, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.1   0.00033      0.31       3      21 ..      34      52 ..      32      61 .. 0.84
   2 ?   -1.4   0.0       1.6   1.5e+03     113     147 ..     202     236 ..     183     238 .. 0.72

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00033
                             EEEEESTTCCHHHHHHHHH CS
                     cobW  3 tvltGflGsGKTtLlnhll 21
                              +l G+ G+GKTtLl+ ++
  PHY93_05660|PHY93_05660 34 HGLIGPEGAGKTTLLRLMI 52
                             57899**********9887 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 1.6
                              CEEEEEEETTTH.CCHCCHHHHHHHHHHTSSEEEE CS
                     cobW 113 davvavvDaknleaeeekieekaedqlaaadllvl 147
                               + v ++Da ++  e+e+ e ++++ +a  d l +
  PHY93_05660|PHY93_05660 202 CSRVHLIDAGKTLLEGEPRELLIKESVANFDALFI 236
                              45678888888888888888888888887777665 PP

>> Thymidylate_kin  Thymidylate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   0.0    0.0015       1.4       3      31 ..      38      66 ..      37      91 .. 0.84
   2 ?    1.0   0.0      0.31     3e+02     121     176 ..     157     212 ..     137     217 .. 0.76

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.0015
                             ESTTSSHHHHHHHHHHHHHHTTE.EEEES CS
          Thymidylate_kin  3 GlDGaGKttqaellkerlkeegikvvltr 31
                             G +GaGKtt ++l+ + l+ +  ++  tr
  PHY93_05660|PHY93_05660 38 GPEGAGKTTLLRLMINLLRPNLGSIQYTR 66
                             89*************99998876655555 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.31
                              EEEEESSHHHHHTSCCTTSSTT.TSHHHHHHHHHHHHHHHHHHHHTTSTEEEEETTS CS
          Thymidylate_kin 121 tflldvdpevalkRlakrdeld.eeeeeqldflrkvrerylelakederiliidask 176
                              ++lld +p +++  +++r+  d      ++++l  + + yl++a+   r++ ida k
  PHY93_05660|PHY93_05660 157 VLLLD-EPTNGIDPISRREFWDlLYRLADKKILIIIATAYLDEAERCSRVHLIDAGK 212
                              46666.788888888888883335667778888888899999998888999999876 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   0.00026      0.24       6      72 ..      35      96 ..      31     122 .. 0.63

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00026
                   AAA_24  6 liyGpsgiGKTtlakelgpkplfidtekGlksldadkfpdieswedfldevvelaaeladyktlviD 72
                              ++Gp+g+GKTtl++ +  + l  +    l s++ ++  ++ ++e+++  v++ +++++ y  l iD
  PHY93_05660|PHY93_05660 35 GLIGPEGAGKTTLLRLM-INLLRPN----LGSIQYTRDGNAITFEKVKGVVAYMPQQQSLYGDLSID 96
                             589***********999.3333222....22355555555556666666666665555555555555 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.2   0.00031      0.29       8      48 ..      17      57 ..      10      89 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00031
             Mg_chelatase  8 qeeakraleiaaaGgHnlllvGppGsGKtmlakrlpsllpp 48
                              ++a   + +    gH   l+Gp G+GKt l + + +ll p
  PHY93_05660|PHY93_05660 17 ANQALDDVSLNFEAGHMHGLIGPEGAGKTTLLRLMINLLRP 57
                             55555566666667888899*************99999855 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   0.00034      0.32      19      44 ..      32      57 ..      18      81 .. 0.83
   2 ?   -3.5   0.0       7.8   7.4e+03     147     175 ..     192     220 ..     189     225 .. 0.69

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00034
                   AAA_30 19 rvavltGpAGtGKttalkalreawea 44
                              ++ l Gp G+GKtt+l+ + ++++ 
  PHY93_05660|PHY93_05660 32 HMHGLIGPEGAGKTTLLRLMINLLRP 57
                             478899************99887765 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 7.8
                   AAA_30 147 gtaeLtevvRqkeseeraaalalregdae 175
                               ta L+e  R ++ +  +a + l eg+++
  PHY93_05660|PHY93_05660 192 ATAYLDEAERCSRVHLIDAGKTLLEGEPR 220
                              56777777777777777777777777665 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0   0.00053       0.5      19      43 ..      31      55 ..       8      65 .. 0.75
   2 ?   -2.3   0.0       4.3   4.1e+03      71      89 ..     179     196 ..     177     221 .. 0.51

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00053
                             TEEEEEEESTTSSHHHHHHHHHHHT CS
                     TsaE 19 gdvilLeGdLGaGKTtlvrglakal 43
                             g++  L G+ GaGKTtl r +++ l
  PHY93_05660|PHY93_05660 31 GHMHGLIGPEGAGKTTLLRLMINLL 55
                             5667899************999876 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 4.3
                              -TT-SSTHHHHHCTTCCCC CS
                     TsaE  71 lYRledeeeleelgleeyl 89 
                              lYRl+d++ l  +  + yl
  PHY93_05660|PHY93_05660 179 LYRLADKKIL-IIIATAYL 196
                              5677654433.22222232 PP

>> AAA_27  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0   0.00037      0.35      14      50 ..      21      55 ..      14      57 .. 0.88

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00037
                   AAA_27 14 ftdrsldfsaeeadlhliyGpNEAGKstalrAisdll 50
                             ++d sl+f+  + ++h ++Gp  AGK+t+lr + +ll
  PHY93_05660|PHY93_05660 21 LDDVSLNFE--AGHMHGLIGPEGAGKTTLLRLMINLL 55
                             578899998..7899***************9988886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (239 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       457  (0.0254894); expected 358.6 (0.02)
Passed bias filter:                      449  (0.0250432); expected 358.6 (0.02)
Passed Vit filter:                        96  (0.00535445); expected 17.9 (0.001)
Passed Fwd filter:                        19  (0.00105974); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              19  [number of targets reported over threshold]
# CPU time: 0.53u 0.20s 00:00:00.73 Elapsed: 00:00:00.38
# Mc/sec: 1871.92
//
Query:       PHY93_11735|PHY93_11735  [L=267]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.2e-29  103.7   0.4    1.5e-29  103.4   0.4    1.1  1  Trypsin    Trypsin
    1.1e-11   45.8   0.1    2.1e-11   44.9   0.1    1.5  1  Trypsin_2  Trypsin-like peptidase domain
  ------ inclusion threshold ------
        0.2   11.4   0.9       0.32   10.7   0.1    1.7  2  Lysis_col  Lysis protein


Domain annotation for each model (and alignments):
>> Trypsin  Trypsin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  103.4   0.4   2.5e-33   1.5e-29       9     221 .]      52     260 ..      44     260 .. 0.84

  Alignments for each domain:
  == domain 1  score: 103.4 bits;  conditional E-value: 2.5e-33
                              TTSS..TTEEEEEETTC..EEEEEEEEEETTEEEEEGGGTTT.GGGEEEEESESBTTSCTTTEEEEEEEEEEEETTEBTTTT..TT CS
                  Trypsin   9 kgsf..pwqvslsvksg..khlCgGslisenwvlTAaHCvsn.asdvkvvlgehnlkksegkeqklkvekvivhpnynpstl..dn 87 
                              k +      v+l  +++  + lC+G++i +  vlTAaHCv++ ++++++v+g  n++k+ +k+  ++ +k+++hpn++      + 
  PHY93_11735|PHY93_11735  52 KKNEnaHSLVALVAEKNsgQSLCTGTIIAPGVVLTAAHCVDEaPQKLHIVFGL-NIQKKTNKKDIREADKFVIHPNWGRHLPsgES 136
                              333332334444444445899**********************9********8.899988889***************9874579* PP

                              TEEEEEESSSSTSBSSBHCCBBCSTTHTTSTTTEEEEEESSBSSTSS..BSSBEEEEEEEEEEHHHHHHHTTTTSTTTEEEEESTT CS
                  Trypsin  88 DiallklkepvklgdtvrpiclpaassslpvgttclvsGwgrtkekg..ksdtlqevevpvvsretcksaykgkvtenmlcagake 171
                              D+al++ k    l +  +p++l+  + +l++g+++l  G+g t+ ++   s +l++++  v+++           +++ + +++  
  PHY93_11735|PHY93_11735 137 DLALIHFKGA--LPEGYSPVKLANDNLKLKIGQKVLMLGYGVTDGQSesGSGKLRQTNSFVLEE----------HSPTEIMTDG-- 208
                              **********..************99999*************8777745566666666666555..........3578899999.. PP

                              SSSBCTTTTTTSEEEETTT...EEEEEEEEE..SSSSCTTSEEEEEEGGGGHHHH CS
                  Trypsin 172 ggkdacqGDSGGPlvcsdg...elvGivswg..kgcakgnrpgvytkvssyldwi 221
                              ++ + c GDSGGP++++      ++G+ s    k+c+++   ++ t+v +y +wi
  PHY93_11735|PHY93_11735 209 QKSSVCFGDSGGPAFVKVLkeyVQWGVASSVtnKSCNEA---SIHTEVMKYETWI 260
                              789**************99999999****9977888888...99**********9 PP

>> Trypsin_2  Trypsin-like peptidase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.9   0.1   3.6e-15   2.1e-11       1     141 [.      74     223 ..      74     263 .. 0.80

  Alignments for each domain:
  == domain 1  score: 44.9 bits;  conditional E-value: 3.6e-15
                Trypsin_2   1 GsGflvgsdglilTnaHvvdsadgaavkaikkkveeagadgrevpakvvaadp..............elDlAllkvssderaglpp 72 
                              ++G +++++  +lT+aH+vd+a ++ +      v+    ++++++  + +ad               e+DlAl+ ++   + g+ p
  PHY93_11735|PHY93_11735  74 CTGTIIAPGV-VLTAAHCVDEAPQKLH-----IVFGLNIQKKTNKKDIREADKfvihpnwgrhlpsgESDLALIHFKGALPEGYSP 153
                              69*******9.****************.....3444444444444444444444444445887877777*******9999****** PP

                Trypsin_2  73 lplgpse.alkggepvyvvGyplggeksgsvssGivsgvve...sesaasgegesflqtdaatspGsSGGplf 141
                              ++l++++ +lk g++v ++Gy+  ++ s    sG+++++++    e++ ++  ++ ++ ++    G SGGp f
  PHY93_11735|PHY93_11735 154 VKLANDNlKLKIGQKVLMLGYGVTDGQS-ESGSGKLRQTNSfvlEEHSPTEIMTDGQKSSVCF--GDSGGPAF 223
                              *****777*************7666655.8888889888885555555555555555888888..******88 PP

>> Lysis_col  Lysis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.1   5.3e-05      0.32       3      25 ..       8      30 ..       6      33 .. 0.89
   2 ?   -3.5   0.1       1.4   8.7e+03      11      21 ..      78      88 ..      78      91 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 5.3e-05
                Lysis_col  3 kvkvvflFilifsifLLvACQvN 25
                             k+   fl  +ifs + LvAC +N
  PHY93_11735|PHY93_11735  8 KLNAFFLGTMIFSTLSLVACGAN 30
                             66778999**************9 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 1.4
                Lysis_col 11 ilifsifLLvA 21
                             i+ ++++L +A
  PHY93_11735|PHY93_11735 78 IIAPGVVLTAA 88
                             68889888877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (267 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       539  (0.030063); expected 358.6 (0.02)
Passed bias filter:                      417  (0.0232584); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.44u 0.19s 00:00:00.63 Elapsed: 00:00:00.35
# Mc/sec: 2301.12
//
Query:       PHY93_11740|PHY93_11740  [L=83]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.1e-09   38.0   1.6    1.3e-09   37.8   1.6    1.0  1  MerR_2      MerR HTH family regulatory protein
     0.0085   16.2   0.0      0.012   15.7   0.0    1.3  1  MerR_1      MerR HTH family regulatory protein
  ------ inclusion threshold ------
       0.11   11.3   0.1       0.11   11.3   0.1    1.1  1  ABC_ATPase  Predicted ATPase of the ABC class


Domain annotation for each model (and alignments):
>> MerR_2  MerR HTH family regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.8   1.6   2.1e-13   1.3e-09       2      77 ..       8      82 ..       7      83 .] 0.95

  Alignments for each domain:
  == domain 1  score: 37.8 bits;  conditional E-value: 2.1e-13
                   MerR_2  2 tieelcertgieeeflieLvelgliepeieeeewyfdesqlarlekavRLqrDLeinleGiavildLLdrieqLqr 77
                             +i+e   r+g+++e +++ + +++i+p  ++ + ++de+++ar+  +  L+ +L++n eG+ +il+L d++++L+ 
  PHY93_11740|PHY93_11740  8 EISEAALRCGLNPEDILQFITSEWIQPLNSQ-DLLLDEDDIARILLIRELKVQLGVNDEGVPIILHLIDQLNHLHL 82
                             7899999********************8877.899**************************************985 PP

>> MerR_1  MerR HTH family regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0     2e-06     0.012       2      60 ..       8      65 ..       7      73 .. 0.87

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 2e-06
                             EHHHHHHHHTS-HHHHHHHHHHTT-S-EE-TTS-EEEEHHHHHHHHHHHHHHH.TT--GG CS
                   MerR_1  2 sigevakilgvtthtlrywekegllkpkrteggrryYtdedierLklikyLlk.rGltlk 60
                              i+e+a ++g+++  +  + +   ++p        + +++di+r+ li++L+   G++ +
  PHY93_11740|PHY93_11740  8 EISEAALRCGLNPEDILQFITSEWIQPLN--SQDLLLDEDDIARILLIRELKVqLGVNDE 65
                             69**************************9..4447****************987777655 PP

>> ABC_ATPase  Predicted ATPase of the ABC class
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.1   1.8e-05      0.11     340     383 ..      36      77 ..      11      82 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 1.8e-05
                              T-SEEEEEGGGS-HHHH---HHHHHHS-GGG--B--HHHCHHHH CS
               ABC_ATPase 340 gakllLiDEDtsAtNlmirDermqelvskekepitplvdrvrel 383
                              +++ lL+DED  A  l+ir   +q  v  ++e++  +++++ +l
  PHY93_11740|PHY93_11740  36 NSQDLLLDEDDIARILLIRELKVQLGV--NDEGVPIILHLIDQL 77 
                              5889********************999..677777777777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (83 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       239  (0.0133304); expected 358.6 (0.02)
Passed bias filter:                      206  (0.0114898); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.38u 0.25s 00:00:00.63 Elapsed: 00:00:00.41
# Mc/sec: 612.91
//
Query:       PHY93_11745|PHY93_11745  [L=287]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.2e-29  100.4   1.0    1.3e-28  100.0   1.0    1.2  1  DnaJ_C    DnaJ C terminal domain
    2.4e-22   78.8   0.4    4.2e-22   78.0   0.4    1.4  1  DnaJ      DnaJ domain


Domain annotation for each model (and alignments):
>> DnaJ_C  DnaJ C terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  100.0   1.0   1.4e-32   1.3e-28       2     148 .]     126     263 ..     125     263 .. 0.96

  Alignments for each domain:
  == domain 1  score: 100.0 bits;  conditional E-value: 1.4e-32
                              EEEEEE-HHHHHH-.EEE.EEEE.......TEEEEEE-TT--TT-EEEETT-SSSS..S---EEEEEEE---SS-EEETTEEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   DnaJ_C   2 eveleisleelykGktkkikikrnvikkekktlevkipaGikdgqkirlegeGdeeggepGDlivtikvkphpvFkrkgndlyvev 87 
                              +++++is++e + G +k i++++       k+l++kip+Gi +g+k+r++++G+++    GD +++ikv p + ++r+g dl +ev
  PHY93_11745|PHY93_11745 126 HYQMPISFQESIIGSEKVITLSN------GKNLQIKIPPGITSGTKLRFKNQGEQG---LGDAYIEIKVGPLEGWSRQGLDLETEV 202
                              699*****************964......578*********************876...9************************** PP

                              EEEHHHHHHTEEEEEE-SS-EEEEEE...--TT-EEEETT-S-EET...TEE--EEEEEEEE-- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   DnaJ_C  88 eislaeallGgklevptldgkvklki...tqpgevlrikgkGmpklkkpgkrGdlyvevkvefP 148
                               is+ e +lG++++vpt+ g v+lki   +++g++lrikgkG++k    ++ G+++v++kv++P
  PHY93_11745|PHY93_11745 203 AISFIEGILGAEISVPTMYGPVMLKIpsgVNTGTKLRIKGKGIKKE---QEIGNQIVKLKVMLP 263
                              *******************************************987...6************99 PP

>> DnaJ  DnaJ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.0   0.4   4.7e-26   4.2e-22       1      63 []       3      65 ..       3      65 .. 0.99

  Alignments for each domain:
  == domain 1  score: 78.0 bits;  conditional E-value: 4.7e-26
                             HHHHHHTSSTTG-HHHHHHHHHHHHHHHSTTTSCCHHHHHHHHHHHHHHHHHHTSHHHHHHHH CS
                     DnaJ  1 dyYeiLgvskdasedeIkkaYrklalkyHPDknpkdpeaeekFkeineAyevLsdpekRkqYD 63
                             ++Ye Lgvsk+a++deIkkaYr la+k HPD np++++aeekFk+i++A +   +pe+R+++D
  PHY93_11745|PHY93_11745  3 NPYETLGVSKTATNDEIKKAYRALAKKNHPDLNPGNKKAEEKFKKISHANDLIGTPEERAKFD 65
                             68***********************************************************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (287 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       539  (0.030063); expected 358.6 (0.02)
Passed bias filter:                      376  (0.0209716); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.35
# Mc/sec: 2444.31
//
Query:       PHY93_11750|PHY93_11750  [L=153]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.7e-25   87.5   0.1    7.3e-15   55.2   0.1    2.3  2  CBS            CBS domain
  ------ inclusion threshold ------
      0.051   13.6   0.0      0.071   13.1   0.0    1.2  1  Saf-Nte_pilin  Saf-pilin pilus formation protein
       0.17   11.8   0.1        1.1    9.2   0.0    2.0  2  DUF1641        Protein of unknown function (DUF1641)


Domain annotation for each model (and alignments):
>> CBS  CBS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.2   0.1   1.2e-18   7.3e-15       2      55 ..       5      58 ..       4      60 .. 0.94
   2 !   30.5   0.0     6e-11   3.6e-07       1      56 [.      78     133 ..      70     134 .. 0.92

  Alignments for each domain:
  == domain 1  score: 55.2 bits;  conditional E-value: 1.2e-18
                             HHHSBSSCEEEETTSBHHHHHHHHHHHTSSEEEEEETTTBEEEEEEHHHHHHHH CS
                      CBS  2 gdimtrdvvtvppdttleealelmrekgvsrlPVVdedgklvGivtlrDllral 55
                             ++imt++++ v+p++++  a e+m+++g+++lPV+d  gklvGi+++rD+ ra+
  PHY93_11750|PHY93_11750  5 RSIMTKKIIKVKPEMPIQIACEEMKKNGIRHLPVTDQTGKLVGILSDRDVQRAV 58
                             78**********************7777**********************9886 PP

  == domain 2  score: 30.5 bits;  conditional E-value: 6e-11
                              HHHHSBSSCEEEETTSBHHHHHHHHHHHTSSEEEEEETTTBEE.EEEEHHHHHHHHH CS
                      CBS   1 VgdimtrdvvtvppdttleealelmrekgvsrlPVVdedgklv.GivtlrDllrall 56 
                              V+ +m+ +v tv++ t+++e+ ++m++ ++s+  VV++ ++++ Gi+t + ll++ll
  PHY93_11750|PHY93_11750  78 VENFMSWPVQTVDEKTSIAELTKMMIDLKISAC-VVNGPNEYIkGIITTENLLKYLL 133
                              6779999*******************999*777.**99999777***********97 PP

>> Saf-Nte_pilin  Saf-pilin pilus formation protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   1.2e-05     0.071      78     132 ..      39      93 ..      22     104 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 1.2e-05
                              -TTT--EEEEEE-HHHHHTECEEEEETTEEE.EEEESSEEEEEEE-SSS-EE-SEE CS
            Saf-Nte_pilin  78 gkntgkeigvglssdslrrsdstekwngvnw.mtfnsndtldivltgpaqnvtadt 132
                                +tgk +g+ ls   ++r+      n v+  mtfn  dt++  ++ p q v   t
  PHY93_11750|PHY93_11750  39 TDQTGKLVGI-LSDRDVQRAVNVRMINEVELeMTFNPHDTVENFMSWPVQTVDEKT 93 
                              5679999998.7777899999999*****965******************998776 PP

>> DUF1641  Protein of unknown function (DUF1641)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   0.0   0.00019       1.1      12      27 ..      43      58 ..      42      60 .. 0.86
   2 ?   -0.3   0.0      0.17     1e+03       7      18 ..      91     102 ..      89     104 .. 0.87

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.00019
                  DUF1641 12 fgLlraLrDPDVqrGL 27
                             ++L++ L+D DVqr++
  PHY93_11750|PHY93_11750 43 GKLVGILSDRDVQRAV 58
                             579999********97 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.17
                  DUF1641   7 kpvGlfgLlraL 18 
                              +++++ +L +++
  PHY93_11750|PHY93_11750  91 EKTSIAELTKMM 102
                              899*******99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (153 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       528  (0.0294495); expected 358.6 (0.02)
Passed bias filter:                      389  (0.0216967); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 1129.24
//
Query:       PHY93_11755|PHY93_11755  [L=64]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (64 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       336  (0.0187406); expected 358.6 (0.02)
Passed bias filter:                      242  (0.0134977); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.36u 0.21s 00:00:00.56 Elapsed: 00:00:00.36
# Mc/sec: 525.75
//
Query:       PHY93_11760|PHY93_11760  [L=151]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    0.00099   19.2  12.8     0.0013   18.8  12.8    1.2  1  DUF1640          Protein of unknown function (DUF1640)
     0.0031   17.1   1.5      0.005   16.4   1.5    1.4  1  YrbL-PhoP_reg    PhoP regulatory network protein YrbL
     0.0066   16.4   2.4      0.012   15.5   2.4    1.5  1  CHASE3           CHASE3 domain
     0.0087   15.5   6.7      0.024   14.1   2.4    1.9  2  HBM              Helical bimodular sensor domain
  ------ inclusion threshold ------
      0.015   15.6   9.4      0.015   15.6   9.4    2.1  2  YlqD             YlqD protein
      0.018   14.8  13.6      0.022   14.5  13.6    1.1  1  SHE3             SWI5-dependent HO expression protein 3
      0.037   14.2  11.3      0.056   13.6  11.3    1.2  1  End3             Actin cytoskeleton-regulatory complex protei
      0.099   12.7  12.0       0.13   12.3  12.0    1.1  1  UPF0242          Uncharacterised protein family (UPF0242) N-t
        0.2   11.5   9.9      0.027   14.4   2.7    2.0  2  DUF4435          Protein of unknown function (DUF4435)
       0.21   12.1  12.3       0.13   12.8   7.4    2.1  2  Carbpep_Y_N      Carboxypeptidase Y pro-peptide
       0.26   11.6  15.3       0.35   11.2  15.3    1.2  1  Muted            Organelle biogenesis, Muted-like protein
       0.54    8.1   9.1       0.61    8.0   9.1    1.1  1  Prominin         Prominin
        1.2    8.9  15.0        3.2    7.6   4.2    3.2  3  DivIC            Septum formation initiator
        1.3    8.9   5.5        0.4   10.6   0.7    2.1  2  ApoO             Apolipoprotein O
        1.7    9.0  18.9       0.11   12.9  12.3    2.1  2  Uso1_p115_C      Uso1 / p115 like vesicle tethering protein, 
        1.7    9.3   8.3        1.6    9.4   0.1    2.9  3  DUF883           Bacterial protein of unknown function (DUF88
        9.2    6.8  12.1        1.6    9.3   7.2    1.9  2  DUF2408          Protein of unknown function (DUF2408)


Domain annotation for each model (and alignments):
>> DUF1640  Protein of unknown function (DUF1640)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8  12.8   1.2e-06    0.0013      39     151 ..      33     146 ..      14     150 .. 0.88

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 1.2e-06
                  DUF1640  39 akslvskselekseylqkaalselrkevqisersefaalrseteklqreleklkqkLreeidklkadirldlnleKgrireelakl 124
                              +k+  + ++++ +e  ++    + ++e +  +++e ++l++e   l+++ ++   k + e  k ++++++ +n+  g+i+   ++ 
  PHY93_11760|PHY93_11760  33 QKKTTATEKVKEAEIAVRDYTYSQKEEFVAKTKNELNELKKELVDLEIKAKQTSGKAKAEAAKKNQEVKISINKLNGQIETIKTAT 118
                              55556666677777777777777899999999****************************************************** PP

                  DUF1640 125 eakiqelnnkidrevsalrteiE.svKl 151
                              e++ +e++nk++ ++++++++i  s K+
  PHY93_11760|PHY93_11760 119 ESQWSEVKNKFNDSMNSVKATIAkSRKW 146
                              **********************966666 PP

>> YrbL-PhoP_reg  PhoP regulatory network protein YrbL
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   1.5   4.7e-06     0.005      88     147 ..      30      87 ..      11     131 .. 0.80

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 4.7e-06
            YrbL-PhoP_reg  88 qTdlGlGlvvekirdadGnvaktLedlvkkeeltaelkeaLdefleelldnhivtndlsa 147
                               Td+ +   +ek++ a+  +a + +++ +kee+ a+ k++L+e+++el+d++i +++ s 
  PHY93_11760|PHY93_11760  30 STDQKKTTATEKVKEAE--IAVRDYTYSQKEEFVAKTKNELNELKKELVDLEIKAKQTSG 87 
                              68888999999999998..99999****************************98876665 PP

>> CHASE3  CHASE3 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   2.4   1.1e-05     0.012      13     101 ..      33     122 ..      22     146 .. 0.74

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.1e-05
                   CHASE3  13 anlerllsalvdaEtgqRGYlltgdeefLepyeqaraeiqealeelreltadnpeqqerldrlealieqkl..aeleetialrreg 96 
                              ++     + +++aE ++R Y  +++eef++  ++  +e++++l +l+    ++ + +++ ++++++ e k+  + l+++i+  +++
  PHY93_11760|PHY93_11760  33 QKKTTATEKVKEAEIAVRDYTYSQKEEFVAKTKNELNELKKELVDLEIKA-KQTSGKAKAEAAKKNQEVKIsiNKLNGQIETIKTA 117
                              5555677899*************************************555.77788888888888888887668888888888884 PP

                   CHASE3  97 gleaa 101
                              +  ++
  PHY93_11760|PHY93_11760 118 TESQW 122
                              44333 PP

>> HBM  Helical bimodular sensor domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.1   2.4   2.2e-05     0.024     138     193 ..      34      89 ..      20      96 .. 0.85
   2 ?    3.8   0.4     0.031        33      75     125 ..      92     143 ..      88     150 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 2.2e-05
                              HHHHHHHHHHHHHHHHHHHHHS--HHHHHHHHHHHHHHHHHHHHHHHH-GG.GHHH CS
                      HBM 138 aiaelkrqvqlaryqvrgYtfsenedseqaavtaldaalaeldqlrqalasdpraa 193
                              + ++++++v++a + vr Yt+s++e++  +  + l++ ++el  l+ ++ +++++a
  PHY93_11760|PHY93_11760  34 KKTTATEKVKEAEIAVRDYTYSQKEEFVAKTKNELNELKKELVDLEIKAKQTSGKA 89 
                              4568899***********************************99998888777765 PP

  == domain 2  score: 3.8 bits;  conditional E-value: 0.031
                              HHHHHHHHHHHHHHHHHHHHHHH.HHHHHHHHHHHHHHHHHHHHHHHHHHCS CS
                      HBM  75 eqlalvqeyrksfnelraayesr.naaRqeldsaaeraleaideleaevlqt 125
                              e+++++qe + s n+l+  +e    a+ +++ +  ++ ++ +++++a+++++
  PHY93_11760|PHY93_11760  92 EAAKKNQEVKISINKLNGQIETIkTATESQWSEVKNKFNDSMNSVKATIAKS 143
                              5677889999999999999988515778899999999999999999998876 PP

>> YlqD  YlqD protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.7      0.95     1e+03      60      78 ..      26      44 ..      13      51 .. 0.56
   2 ?   15.6   9.4   1.4e-05     0.015      14      88 ..      53     127 ..      45     143 .. 0.90

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 0.95
                     YlqD 60 eiqeqvekekserlekkkq 78
                             ++q++ +++k   +ek k+
  PHY93_11760|PHY93_11760 26 NAQQSTDQKKTTATEKVKE 44
                             4444444444444444443 PP

  == domain 2  score: 15.6 bits;  conditional E-value: 1.4e-05
                     YlqD  14 TeklKeelqqqlqaqieqldkelqqLefqakrlikeikkqsaqqieeiqeqvekekserlekkkqllqqleqvqk 88 
                              T + Kee+ ++ ++++++l+kel  Le++ak++  ++k + a++++e++ +++k   +++  k   ++q ++v++
  PHY93_11760|PHY93_11760  53 TYSQKEEFVAKTKNELNELKKELVDLEIKAKQTSGKAKAEAAKKNQEVKISINKLNGQIETIKTATESQWSEVKN 127
                              7789*********************************99999999999999999999999999999999988875 PP

>> SHE3  SWI5-dependent HO expression protein 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5  13.6   2.1e-05     0.022      98     204 ..      30     137 ..      22     150 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 2.1e-05
                              HCCCHHHHHHHHHHHHHHHHHHHHHHH.HHHHHHHHHHHHHHHHHHHHHHHHHHSSSXXXXXXXXXXX.XXXXXXXXXXXXXXXXX CS
                     SHE3  98 nssaseteleeelerlkvqYdalvdsq.keYkehYqqeieeLkesleklklenekqleelqerissndkdidtkldsynnkkknle 182
                              ++ +++t+ +e++++ ++       sq +e+  + ++e++eLk++l +l+   +++  + +++  +++++++ +++++n++ ++++
  PHY93_11760|PHY93_11760  30 STDQKKTTATEKVKEAEIAVRDYTYSQkEEFVAKTKNELNELKKELVDLEIKAKQTSGKAKAEAAKKNQEVKISINKLNGQIETIK 115
                              34445555666666666665555555516799999*************************************************** PP

                              XXXXXXXXXXXXXXXXXXXXXX CS
                     SHE3 183 sieeeknkkllkkleslaseld 204
                               + e++ +++++k++ +++ ++
  PHY93_11760|PHY93_11760 116 TATESQWSEVKNKFNDSMNSVK 137
                              **************99999887 PP

>> End3  Actin cytoskeleton-regulatory complex protein END3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6  11.3   5.3e-05     0.056      56     171 ..      24     137 ..      18     147 .. 0.68

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 5.3e-05
                     End3  56 ksksetstgkkakfgdsylsrlGvgsks...ekgtdfsatkgtdweevrLkreLaeLeeklekveeeaekr.kekereessksalv 137
                              k ++++st +k+ ++ + ++   ++ +    +++ +f a  +t++e ++Lk+eL +Le k ++++ +a+ + ++k++e + + + +
  PHY93_11760|PHY93_11760  24 KINAQQSTDQKKTTATEKVKEAEIAVRDytySQKEEFVA--KTKNELNELKKELVDLEIKAKQTSGKAKAEaAKKNQEVKISINKL 107
                              445666677777777777777666666433455666654..7889999******************99988445555555555777 PP

                     End3 138 kreleqLLkYKeeqlreleegegkskeknlksvk 171
                                ++e + +  e q +e++++ +    ++++svk
  PHY93_11760|PHY93_11760 108 NGQIETIKTATESQWSEVKNKFN----DSMNSVK 137
                              88888877777777776666543....3444554 PP

>> UPF0242  Uncharacterised protein family (UPF0242) N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3  12.0   0.00013      0.13      57     156 ..      23     134 ..       6     150 .. 0.46

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00013
                  UPF0242  57 wekalkekl.ekskleekeaklteld.....eglktkeealeelqeeeeeLkee.......ldake.eelerlkeenqqLqeklea 128
                               + ++++ + +k+++    +k++e +       +++kee + + ++e +eLk+e        ++ + ++ ++  ++nq++++  ++
  PHY93_11760|PHY93_11760  23 QKINAQQSTdQKKTT--ATEKVKEAEiavrdYTYSQKEEFVAKTKNELNELKKElvdleikAKQTSgKAKAEAAKKNQEVKISINK 106
                              223333333211111..112222222334434444444444444444444444444433223332214445666677777777777 PP

                  UPF0242 129 iaedfeelkleleeqLaekqellqeyqe 156
                                 ++e  k + e+q  e +++++++ +
  PHY93_11760|PHY93_11760 107 LNGQIETIKTATESQWSEVKNKFNDSMN 134
                              7777777777777777777777665543 PP

>> DUF4435  Protein of unknown function (DUF4435)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   2.7   2.5e-05     0.027     125     201 ..       4      79 ..       2      92 .. 0.86
   2 ?    1.7   0.8       0.2   2.1e+02     168     201 ..     106     137 ..      87     149 .. 0.54

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 2.5e-05
                  DUF4435 125 seiiiplflwnvlfyrkklekdiklslslqevdlssiekitleeikvenkieelkeefpdkieeekeeikkelrkln 201
                              ++++++++l  ++f  +  +++i+ + s+++++++ +ek++  ei v+ +  + keef  k + e +e+kkel  l+
  PHY93_11760|PHY93_11760   4 KNQMYLVTLLLSAFFITG-YQKINAQQSTDQKKTTATEKVKEAEIAVRDYTYSQKEEFVAKTKNELNELKKELVDLE 79 
                              688999988888887776.899**************************88888999999999999********9884 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.2
                  DUF4435 168 eikvenkieelkeefpdkieeekeeikkelrkln 201
                              +++   +ie++k  ++++ +e k+++++ +++++
  PHY93_11760|PHY93_11760 106 KLN--GQIETIKTATESQWSEVKNKFNDSMNSVK 137
                              222..45555555555555555555555555443 PP

>> Carbpep_Y_N  Carboxypeptidase Y pro-peptide
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.4   1.4       0.1   1.1e+02      18      73 ..      22      75 ..       3      82 .. 0.54
   2 ?   12.8   7.4   0.00013      0.13      25     103 ..      66     144 ..      61     150 .. 0.69

  Alignments for each domain:
  == domain 1  score: 3.4 bits;  conditional E-value: 0.1
              Carbpep_Y_N 18 lqalsiqnplkdlQqalklelnyd.tkklskllee..eekknnvfekiskvlneplkel 73
                              q +  q+  +  Q++     + + +k+ + ++ +   ++k+++++k ++ lne+ kel
  PHY93_11760|PHY93_11760 22 YQKINAQQSTD--QKKT---TATEkVKEAEIAVRDytYSQKEEFVAKTKNELNELKKEL 75
                             33333343332..2211...122234555666666657889999*********998886 PP

  == domain 2  score: 12.8 bits;  conditional E-value: 0.00013
              Carbpep_Y_N  25 nplkdlQqal.klelnydtkklskllee.eekknnvfekiskvlneplkeltseakkiWsemelkfPdavsklkfktkpkk 103
                              n l++l + l  le++ +  + s   +  + kkn+ ++   + ln ++++++  +   Wse++ kf d+++++k ++++  
  PHY93_11760|PHY93_11760  66 NELNELKKELvDLEIKAK--QTSGKAKAeAAKKNQEVKISINKLNGQIETIKTATESQWSEVKNKFNDSMNSVKATIAKSR 144
                              555554444314555555..333333343555666667677789999***************************9995544 PP

>> Muted  Organelle biogenesis, Muted-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2  15.3   0.00034      0.35      38     138 ..      39     139 ..      23     145 .. 0.93

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00034
                    Muted  38 velLenikklvnelkeqllpkclesmkenLselnkkleaalekverllqkeleeekrkseqlqekeeerkaeweeflkelqekkee 123
                               e++++ +  v++  +++ ++++++ k++L+el+k+l ++  k+++   k + e  +k+++++ + ++++ + e+ ++ ++++ +e
  PHY93_11760|PHY93_11760  39 TEKVKEAEIAVRDYTYSQKEEFVAKTKNELNELKKELVDLEIKAKQTSGKAKAEAAKKNQEVKISINKLNGQIETIKTATESQWSE 124
                              6788999999****************************************9999999***************************** PP

                    Muted 124 vDeefeekveelkek 138
                              v ++f++ ++ +k+ 
  PHY93_11760|PHY93_11760 125 VKNKFNDSMNSVKAT 139
                              **********99975 PP

>> Prominin  Prominin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   9.1   0.00058      0.61     254     357 ..      38     144 ..      23     151 .] 0.80

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.00058
                 Prominin 254 qLeqvnklekeLrksg.sqLrdglrgvkrdlnqalsnlCqs.eeCskilssleiekldtskcl.dqlpnvdevlealeevletnls 336
                              + e+v++ e  +r ++ sq ++ + + k++ln++ ++l     + ++++ ++++e  + ++++  ++++++ ++e++++++e++ s
  PHY93_11760|PHY93_11760  38 ATEKVKEAEIAVRDYTySQKEEFVAKTKNELNELKKELVDLeIKAKQTSGKAKAEAAKKNQEVkISINKLNGQIETIKTATESQWS 123
                              55778888888887653677788999999999999998884478888888888888888888878999999999999999999999 PP

                 Prominin 337 sivkeglarlneipekvknqt 357
                              ++ ++ ++++n+++ ++++  
  PHY93_11760|PHY93_11760 124 EVKNKFNDSMNSVKATIAKSR 144
                              999999999999999998865 PP

>> DivIC  Septum formation initiator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.4   0.3     0.015        16       5      35 ..      14      44 ..       9      51 .. 0.81
   2 ?    7.6   4.2     0.003       3.2      18      55 ..      53      89 ..      47      97 .. 0.87
   3 ?    2.7   1.0       0.1   1.1e+02      30      50 ..      94     114 ..      88     143 .. 0.66

  Alignments for each domain:
  == domain 1  score: 5.4 bits;  conditional E-value: 0.015
                             XXXXXXXXXXXXXHHHHHHHHHHHHHHHHHH CS
                    DivIC  5 fllllifgkkgllaykqlkqeiaalqaelak 35
                             +  ++i+g + ++a+++++q+ ++ ++++++
  PHY93_11760|PHY93_11760 14 LSAFFITGYQKINAQQSTDQKKTTATEKVKE 44
                             4457899999999999999999999999887 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.003
                             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC-XXXXX CS
                    DivIC 18 aykqlkqeiaalqaelaklkaeneeLeaevkdLksded 55
                             +y+q+++ +a+ ++el++lk+e  +Le + k+  s+++
  PHY93_11760|PHY93_11760 53 TYSQKEEFVAKTKNELNELKKELVDLEIKAKQT-SGKA 89
                             899************************999998.5654 PP

  == domain 3  score: 2.7 bits;  conditional E-value: 0.1
                              HHHHHHHHHHHHHHHHHHCC- CS
                    DivIC  30 qaelaklkaeneeLeaevkdL 50 
                               ++++++k  +++L+ +++  
  PHY93_11760|PHY93_11760  94 AKKNQEVKISINKLNGQIETI 114
                              455555555555555555443 PP

>> ApoO  Apolipoprotein O
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.6      0.53   5.5e+02      25      58 ..      51      67 ..      23      88 .. 0.45
   2 ?   10.6   0.7   0.00038       0.4      12      57 ..      96     141 ..      79     148 .. 0.66

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.53
                     ApoO 25 kslepytsavqdelnkvkskvetaeqsvtdtias 58
                              +++++                 +e++v +t ++
  PHY93_11760|PHY93_11760 51 DYTYSQ-----------------KEEFVAKTKNE 67
                             222222.................22222222222 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 0.00038
                     ApoO  12 ptdrLeegvrslRkslepytsavqdelnkvkskvetaeqsvtdtia 57 
                              + ++++ ++++l  ++e+  +a++++ ++vk+k++++ +sv+ tia
  PHY93_11760|PHY93_11760  96 KNQEVKISINKLNGQIETIKTATESQWSEVKNKFNDSMNSVKATIA 141
                              5555666666666666666666666666666666666666666665 PP

>> Uso1_p115_C  Uso1 / p115 like vesicle tethering protein, C terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.0   1.1         1     1e+03      43      64 ..      31      45 ..      21      60 .. 0.39
   2 ?   12.9  12.3    0.0001      0.11       4      75 ..      55     125 ..      52     149 .. 0.83

  Alignments for each domain:
  == domain 1  score: 0.0 bits;  conditional E-value: 1
              Uso1_p115_C 43 aesqakeleaenkklekelekl 64
                              +++++++ +       +++++
  PHY93_11760|PHY93_11760 31 TDQKKTTATE-------KVKEA 45
                             1111111222.......22222 PP

  == domain 2  score: 12.9 bits;  conditional E-value: 0.0001
              Uso1_p115_C   4 seleseaaslkdeneklkaelqslskalesleqkeakkaaesqakeleaenkklekeleklraelkeekeke 75 
                              s+ e+ +a+ k+e ++lk+el +l+ +++++  k ak++a+++++e++ +++kl+ ++e+++ + + + ++ 
  PHY93_11760|PHY93_11760  55 SQKEEFVAKTKNELNELKKELVDLEIKAKQTSGK-AKAEAAKKNQEVKISINKLNGQIETIKTATESQWSEV 125
                              5667778888888888888888888888888888.**************************99877655444 PP

>> DUF883  Bacterial protein of unknown function (DUF883)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   0.5      0.75   7.9e+02      44      68 ..      28      52 ..      23      63 .. 0.54
   2 ?    3.1   1.3      0.14   1.5e+02      25      57 ..      64      96 ..      51     101 .. 0.49
   3 ?    9.4   0.1    0.0016       1.6       5      55 ..      98     148 ..      94     151 .] 0.86

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.75
                   DUF883 44 rerlrdaeeavaerakeaaeaaddy 68
                             ++++++ + ++ e++kea  a++dy
  PHY93_11760|PHY93_11760 28 QQSTDQKKTTATEKVKEAEIAVRDY 52
                             3444444444455555554444444 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.14
                   DUF883 25 ageeaeelRerleerlerarerlrdaeeavaer 57
                             +++e++el+++l +   +a+++  +a+ ++a++
  PHY93_11760|PHY93_11760 64 TKNELNELKKELVDLEIKAKQTSGKAKAEAAKK 96
                             333444444444444444444444444444333 PP

  == domain 3  score: 9.4 bits;  conditional E-value: 0.0016
                   DUF883   5 aeleslladleellkeaadeageeaeelRerleerlerarerlrdaeeava 55 
                              +e++  +++l+  +++ +  ++++ +e++++ +++++++++++++ ++ + 
  PHY93_11760|PHY93_11760  98 QEVKISINKLNGQIETIKTATESQWSEVKNKFNDSMNSVKATIAKSRKWMS 148
                              677888899999999999***********************9998776655 PP

>> DUF2408  Protein of unknown function (DUF2408)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.8   7.4      0.16   1.7e+02      39      68 ..      39      93 ..      12      99 .. 0.65
   2 ?    9.3   7.2    0.0015       1.6      11      68 ..      64     133 ..      58     149 .. 0.62

  Alignments for each domain:
  == domain 1  score: 2.8 bits;  conditional E-value: 0.16
                  DUF2408 39 e........................vkeelkelkeeLkkieskrde.egkFksee 68
                             +                         k+el+elk+eL ++e k ++ +gk k e 
  PHY93_11760|PHY93_11760 39 TekvkeaeiavrdytysqkeefvakTKNELNELKKELVDLEIKAKQtSGKAKAEA 93
                             1334566677777777777777777889999999999888866555356654443 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.0015
                  DUF2408  11 iyekLvsirrsLlslaakskaeeakesee.......vkeelkelkeeLkkieskrde.....egkFksee 68 
                              + ++L +++++L+ l  k+k+++ k+++e       vk ++++l+ +++ i++  ++     ++kF  + 
  PHY93_11760|PHY93_11760  64 TKNELNELKKELVDLEIKAKQTSGKAKAEaakknqeVKISINKLNGQIETIKTATESqwsevKNKFNDSM 133
                              4455555666666655555555444333344444559999999999999999877775666667775443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (151 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      3628  (0.202354); expected 358.6 (0.02)
Passed bias filter:                      688  (0.0383736); expected 358.6 (0.02)
Passed Vit filter:                        99  (0.00552178); expected 17.9 (0.001)
Passed Fwd filter:                        21  (0.00117129); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              17  [number of targets reported over threshold]
# CPU time: 0.59u 0.22s 00:00:00.81 Elapsed: 00:00:00.41
# Mc/sec: 1097.95
//
Query:       PHY93_11765|PHY93_11765  [L=335]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.9e-14   53.9   0.0    5.5e-14   52.4   0.0    1.8  2  HD             HD domain
      1e-12   48.1   0.0    2.3e-12   47.0   0.0    1.6  1  HD_5           HD domain
      0.003   17.3   0.1     0.0082   15.9   0.0    1.8  1  HD_2           HD containing hydrolase-like enzyme
     0.0038   16.7   0.1      0.024   14.1   0.0    2.3  2  HDOD           HDOD domain
  ------ inclusion threshold ------
       0.01   16.0   0.3      0.022   14.9   0.3    1.6  1  Lipase_GDSL_3  GDSL-like Lipase/Acylhydrolase family


Domain annotation for each model (and alignments):
>> HD  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0       1.4   4.9e+03      64      95 ..      55      87 ..      33     114 .. 0.57
   2 !   52.4   0.0   1.5e-17   5.5e-14       1     121 [.     159     280 ..     159     281 .. 0.91

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 1.4
                             HHHHHHHHHHHHHH.HHHHHHHHHTTCCHHHHH CS
                       HD 64 aeilrevekrlgld.ledvaklirehheswegk 95
                             + i  +v++++ l+ ++d+ ++++e ++++ ++
  PHY93_11765|PHY93_11765 55 YFISMNVKELFVLNaFKDAFQVALEELKKEKIE 87
                             444444555554445555555555555555444 PP

  == domain 2  score: 52.4 bits;  conditional E-value: 1.5e-17
                              HHHHHHHHHHHHHHHHHHHHH..HHHHHHHHHHHHHTTTTHHHHTS..HHHHHH...CTCCHHHHHHHHHHHHHHHHHHHHHHHHH CS
                       HD   1 rleHsleVaklarrlaedlge..eedrellllaaLlHDiGkgpfgdafekkeee...fekflaHekvgaeilrevekrlgldledv 81 
                              ++eHs++Va+l+  +++ +g   +   e l+++aL+HD Gk +++++ + k++     + +++H + g+e+l++++  ++     v
  PHY93_11765|PHY93_11765 159 VAEHSMNVANLSLLFGMAVGQnnPIVLENLYMGALFHDYGKAKIPESVSGKPNSiayEKAIKNHPEAGVEMLKKNPSIPQP----V 240
                              579*****************999999999****************9888773334557889******************66....* PP

                              HHHHHTTCCHHHHHHHHHHHHCCTSCHHHHHHHHHHHHHH CS
                       HD  82 aklirehheswegkkrprglaerqlslearivklaDrlaa 121
                              + +++ehhe+  g ++p+g  + +++ ++riv++a  +++
  PHY93_11765|PHY93_11765 241 LTIVAEHHEQFSGVGYPKGISKDAIYGLSRIVAIANVFDN 280
                              **********************************988875 PP

>> HD_5  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.0   0.0   6.3e-16   2.3e-12       9      63 ..     217     271 ..     212     272 .. 0.96

  Alignments for each domain:
  == domain 1  score: 47.0 bits;  conditional E-value: 6.3e-16
                     HD_5   9 ellqehpeaaarlLsklprlpkdvaeiigqhhErldGsGyPrglkgeeIpleaRi 63 
                              ++++ hpea+ ++L+k p +p++v +i++ hhE + G GyP+g++ ++I   +Ri
  PHY93_11765|PHY93_11765 217 KAIKNHPEAGVEMLKKNPSIPQPVLTIVAEHHEQFSGVGYPKGISKDAIYGLSRI 271
                              6899**********************************************99999 PP

>> HD_2  HD containing hydrolase-like enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.0   2.3e-06    0.0082      20      66 ..     153     197 ..     134     202 .. 0.87

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 2.3e-06
                     HD_2  20 ntreenvaeHslevaliahalalienkkfggkldaerlallalyHDa 66 
                              ++++++vaeHs++va ++ ++++   ++  + + +e+l++ al+HD+
  PHY93_11765|PHY93_11765 153 SSMNNTVAEHSMNVANLSLLFGMAVGQN--NPIVLENLYMGALFHDY 197
                              678999**************99955555..69**************8 PP

>> HDOD  HDOD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.0      0.29     1e+03     132     160 ..      63      91 ..      59      99 .. 0.83
   2 !   14.1   0.0   6.7e-06     0.024      94     155 ..     158     222 ..     146     250 .. 0.85

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.29
                              HHHHHHHSHHHHHHHHHHHHHH---HHHH CS
                     HDOD 132 klvllsllpeeleellekvaeeelsllea 160
                              +l++l+++++ ++  le+ ++e+++ l +
  PHY93_11765|PHY93_11765  63 ELFVLNAFKDAFQVALEELKKEKIETLVT 91 
                              78999999999999999999999876654 PP

  == domain 2  score: 14.1 bits;  conditional E-value: 6.7e-06
                              HHHHHHHHHHHHHHHHHHHTT-S-H...HHHHHHHHTTTHHHHHHHHHSHHHHHHHHHHHHHH-- CS
                     HDOD  94 klwehslavAlvarelaeelgledp...eeaflaGLLhdiGklvllsllpeeleellekvaeeel 155
                              +++ehs++vA ++     ++g+++p   e++++++L+hd Gk  + + ++ + + ++++ a +++
  PHY93_11765|PHY93_11765 158 TVAEHSMNVANLSLLFGMAVGQNNPivlENLYMGALFHDYGKAKIPESVSGKPNSIAYEKAIKNH 222
                              6899********************999***************99988888888888776555554 PP

>> Lipase_GDSL_3  GDSL-like Lipase/Acylhydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.3   6.1e-06     0.022      31     102 ..      85     154 ..      74     171 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 6.1e-06
            Lipase_GDSL_3  31 klgrevvnLgfsGnalleaeladvlaevdasvfvldllpNasaeeirerleyfvktlrkahPktpillvedl 102
                              k+++ v  +g   ++l+e+++a  l e+  + f+ ++l+N ++e ++++++ f++++++++P + i+l  + 
  PHY93_11765|PHY93_11765  85 KIETLVTEVGEGNRTLVEQQVA--LKEIIYETFLDEVLSNETVEILKNQVTSFIEIVKNKNPSADIFLKISS 154
                              5556666667667778888885..89999999**********************************996533 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (335 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       986  (0.0549947); expected 358.6 (0.02)
Passed bias filter:                      554  (0.0308997); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.38
# Mc/sec: 2664.81
//
Query:       PHY93_11770|PHY93_11770  [L=200]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.84    7.7   5.6       0.97    7.5   5.6    1.1  1  UPF0182   Uncharacterised protein family (UPF0182)


Domain annotation for each model (and alignments):
>> UPF0182  Uncharacterised protein family (UPF0182)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   5.6   5.4e-05      0.97      13     102 ..      33     154 ..      20     192 .. 0.63

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 5.4e-05
                  UPF0182  13 lllellarlytellwfkelgylsvfltrlltrlllfvvvflllalllllnlllaerl........................ell.. 72 
                              ll+   + +++++  f + +y++vf++ ll+++  fv+v+l++ l+ll +++  + +                          +  
  PHY93_11770|PHY93_11770  33 LLILSKLLYVMKIRHFGNGEYSKVFWRFLLYNFYYFVLVLLAASLYLLPAIFASSIMtmrtgflmtsfllipliyimlyysL-Spf 117
                              22333345678999***********************999998888877776644443444555555555555555444440.044 PP

                  UPF0182  73 .........eklerlrealekklkllllaialvlsllvg 102
                                       +     ++ + ++++++l++i+ ++sll+ 
  PHY93_11770|PHY93_11770 118 vavfddeggS--IFSKSKIISSSNIFLVIINHLCSLLIP 154
                              4555554331..223444555555666666666665554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (200 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       908  (0.0506442); expected 358.6 (0.02)
Passed bias filter:                      241  (0.0134419); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.38
# Mc/sec: 1592.33
//
Query:       PHY93_11775|PHY93_11775  [L=246]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.9e-06   26.6   1.7      5e-06   25.8   1.7    1.4  1  N_methyl  Prokaryotic N-terminal methylation motif


Domain annotation for each model (and alignments):
>> N_methyl  Prokaryotic N-terminal methylation motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.8   1.7   2.8e-10     5e-06       1      20 [.       1      20 [.       1      27 [. 0.88

  Alignments for each domain:
  == domain 1  score: 25.8 bits;  conditional E-value: 2.8e-10
                 N_methyl  1 mrkqrGFTLiElLvalaIla 20
                             m k+rGFTL+El+v++a l+
  PHY93_11775|PHY93_11775  1 MLKNRGFTLVELMVVMAALG 20
                             679*************9776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (246 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       523  (0.0291706); expected 358.6 (0.02)
Passed bias filter:                      396  (0.0220871); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.20s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 1879.71
//
Query:       PHY93_11780|PHY93_11780  [L=326]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.1e-33  114.5   0.1    3.6e-33  113.7   0.1    1.3  1  ADH_N         Alcohol dehydrogenase GroES-like domain
    6.9e-05   22.8   0.0    0.00017   21.6   0.0    1.6  1  ADH_zinc_N    Zinc-binding dehydrogenase
    7.4e-05   23.8   0.0    0.00012   23.1   0.0    1.3  1  ADH_zinc_N_2  Zinc-binding dehydrogenase


Domain annotation for each model (and alignments):
>> ADH_N  Alcohol dehydrogenase GroES-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  113.7   0.1     6e-37   3.6e-33       1     103 [.      25     127 ..      25     132 .. 0.97

  Alignments for each domain:
  == domain 1  score: 113.7 bits;  conditional E-value: 6e-37
                              TTEEEEEEEEEEE-HHHHHHHTTSTTTTSSSSEE---EEEEEEEEESTT-CS--TT-EEEE-SEEE.-SSSHHHHTT-GGG-TTBE CS
                    ADH_N   1 pgevlikvkaagiCgsDlhilkggkelevklplilGHEivGeveevgpevkklkvGdrVvveplis.cgeCaaCkegeenlCeeak 85 
                              p+++l+kv a+g+C++Dlhil+g +  + klplilGHEivG+v++ g++v+++k+Gdr  v++l + cg+C+ C +g+enlC+ea+
  PHY93_11780|PHY93_11780  25 PNDILLKVCACGVCRTDLHILDG-ELAKPKLPLILGHEIVGKVVAKGERVERFKIGDRLGVPWLGHtCGHCKFCISGRENLCDEAR 109
                              589********************.8**************************************9989******************* PP

                              ETTTSS-SSSBSEEEECG CS
                    ADH_N  86 llgvsldGgfaeyvvvpe 103
                              ++g+sldGg+aey v+++
  PHY93_11780|PHY93_11780 110 FTGFSLDGGYAEYAVADQ 127
                              **************9986 PP

>> ADH_zinc_N  Zinc-binding dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.6   0.0   2.8e-08   0.00017       5     109 ..     176     272 ..     172     292 .. 0.76

  Alignments for each domain:
  == domain 1  score: 21.6 bits;  conditional E-value: 2.8e-08
                              HHHHHHHHTT-EEEEEESSHHHH..HHHHHTTESEEEETTTCHHHHHHHHHTTTSSEEEEEESSCSHHHHHHHHHCEEEEEEEEEC CS
               ADH_zinc_N   5 aavqlAkalGaeviavdsseekl..elakklGadevinykeadlverikeltggegvdvvfecvGsgatleaalkllkpgGrlvvv 88 
                              +  q+A+  G +++a  +  + +  ++akk+Ga  + +++e         +  + ++d+v+ ++ +g  +++al+++ +gG++v+ 
  PHY93_11780|PHY93_11780 176 IITQVAHWQGRKIFAFTRPGDTAgqDFAKKFGASWAGDSTE---------AP-PTDLDAVILFAPVGPLVPQALRYISKGGTVVCA 251
                              67899999999999965544433349999999999999944.........44.55888998888889******************* PP

                              SC.TSSEEEEEHHHHHHTT-EE CS
               ADH_zinc_N  89 Gg.gkgeeefdlrnlllkeksi 109
                              G+ +++  +f+ + l+  e++i
  PHY93_11780|PHY93_11780 252 GIhMSDIPSFPYSLLW-GERTI 272
                              *976666667766655.44444 PP

>> ADH_zinc_N_2  Zinc-binding dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.1   0.0     2e-08   0.00012      23     133 .]     222     325 ..     200     325 .. 0.77

  Alignments for each domain:
  == domain 1  score: 23.1 bits;  conditional E-value: 2e-08
                              EEEEEES-H.HHHH.HHHHHHEEEEEEEEE----.S-EEE-CHHHCTTT-EEEE--GGG...-.-HHHHHHHHHHHHHHH----EE CS
             ADH_zinc_N_2  23 vDvvldtvg.gealleaslkvlpggGrlvsiggpplsaallkpakkrkgrsvkyeflfsmkasaqadileelaalieeGklrpvvd 107
                               D+v+  +  g+    ++l+++++gG++v+ g ++      + ++ +++r+++    ++     + d  ee ++ ++  k+++ ++
  PHY93_11780|PHY93_11780 222 LDAVILFAPvGPLV-PQALRYISKGGTVVCAGIHMSDIPSFPYSLLWGERTIRSIANLT-----RLD-GEEFFKIVSLAKIKIEIE 300
                              67777776655655.99999**777*****99766555555555666667777766664.....444.5789*************8 PP

                              EEEEGGGHHHHHHHHHSS--SSEEEE CS
             ADH_zinc_N_2 108 rvfpleeaaeAhrylesgrarGKiVl 133
                               +f leea++A++ l+ gr rG  Vl
  PHY93_11780|PHY93_11780 301 -TFHLEEANKALKSLRDGRIRGAAVL 325
                              .9*******************97775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (326 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       460  (0.0256568); expected 358.6 (0.02)
Passed bias filter:                      375  (0.0209158); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.37
# Mc/sec: 2611.86
//
Query:       PHY93_05665|PHY93_05665  [L=249]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      2e-15   56.6   0.1    9.9e-14   51.1   0.1    2.3  1  HlyD_D23         Barrel-sandwich domain of CusB or HlyD membr
    1.3e-13   51.5   0.0    1.1e-09   38.9   0.0    2.2  2  HlyD_3           HlyD family secretion protein
    3.1e-07   30.1   0.0    2.3e-06   27.4   0.0    2.1  2  Biotin_lipoyl_2  Biotin-lipoyl like
     0.0027   17.5   0.0        0.1   12.5   0.0    2.4  2  Biotin_lipoyl    Biotin-requiring enzyme
  ------ inclusion threshold ------
        7.5    7.3   8.0        8.6    7.1   4.3    2.6  2  DUF3139          Protein of unknown function (DUF3139)


Domain annotation for each model (and alignments):
>> HlyD_D23  Barrel-sandwich domain of CusB or HlyD membrane-fusion
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.1   0.1   2.8e-17   9.9e-14      16     213 ..      42     242 ..      37     243 .. 0.79

  Alignments for each domain:
  == domain 1  score: 51.1 bits;  conditional E-value: 2.8e-17
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX....XXXXXXXXXXXXXXXXXXXX.XXXXXXXXXXXXXXXXXXXX CS
                 HlyD_D23  16 errlarvsarveGwveklyvnatgdkVkkGqpLaelyspel....vaaqeeyllalkakkklkkkelleaarerLrllgvseeqia 97 
                              e++ +++sarv++ + +l+++ +gd+V+ +q L++l  ++       a +++l   +  k+ +   l ++  +++r+ +       
  PHY93_05665|PHY93_05665  42 ETTKVDISARVTSVIATLNIK-EGDHVTTNQLLMTLSCEDYkldnQIATQDFLRSERLYKQGS---LSKEIFDQMRNRK------- 116
                              566789***************.**************887652111346667777666666653...4455555555443....... PP

                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                 HlyD_D23  98 elektgkvqktvtvkapisGvVteknvreGqyvqpgdtlftiadls.tVWveaevyeqqlalvkvgqkvevtvealpgktfeGkvd 182
                                  +    +  ++++p++G+V++k    G++v+pg++l+t+ +l+ +++ ++ ++++ ++++++g+k +  ++  + ++f G+v+
  PHY93_05665|PHY93_05665 117 --DDSDLKISWCNITSPLNGIVLNKYHEIGEMVTPGTRLLTLGNLKnDIYANIYIPQNLVSKISIGKKLTGYLPESNMQEFIGTVT 200
                              ..33444467899********************************636************************************** PP

                              XXXXXX.....XXXXXXXXXX......XXXXXXXXXXXXXXX CS
                 HlyD_D23 183 yiyptv.....dpetRtvkvR......ieldNpdgkLkpgmf 213
                               i+++      + +tR  + R      i+++Npd+ Lkpgm 
  PHY93_05665|PHY93_05665 201 QIAEEAeftpkNVQTREERTRlvyaikITFNNPDEILKPGMT 242
                              ***987333334566655555222222789***********6 PP

>> HlyD_3  HlyD family secretion protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.6   0.0   0.00019       0.7       2      45 ..      48      90 ..      47      95 .. 0.84
   2 !   38.9   0.0   3.2e-13   1.1e-09       2     106 .]     128     240 ..     127     240 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00019
                   HlyD_3  2 lrApvdGvvvelnveegevvqagdelleiippdtllveakvpaa 45
                             + A v+ v++ ln++eg+ v+ ++ l+++  +++++++ +++ +
  PHY93_05665|PHY93_05665 48 ISARVTSVIATLNIKEGDHVTTNQLLMTLS-CEDYKLDNQIATQ 90
                             679999***********************9.5666766666655 PP

  == domain 2  score: 38.9 bits;  conditional E-value: 3.2e-13
                   HlyD_3   2 lrApvdGvvvelnveegevvqagdelleiipp.dtllveakvpaadlgsikkkgqkvtlkldqgsdytlkgkierisptv..dakt 84 
                              +++p  G+v  + +e ge+v++g++ll++ +  +++ + +++p+  +++i ++g k t  l  ++ ++  g++++i+ ++  ++k+
  PHY93_05665|PHY93_05665 128 ITSPLNGIVLNKYHEIGEMVTPGTRLLTLGNLkNDIYANIYIPQNLVSKI-SIGKKLTGYLPESNMQEFIGTVTQIAEEAefTPKN 212
                              89*****************************769****************.6*********866666***********66224333 PP

                   HlyD_3  85 g.........aykvevslenpekksiplkpG 106
                                        +y ++++++np   +  lkpG
  PHY93_05665|PHY93_05665 213 VqtreertrlVYAIKITFNNP---DEILKPG 240
                              323344455677789999998...7777777 PP

>> Biotin_lipoyl_2  Biotin-lipoyl like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.4   0.0   6.3e-10   2.3e-06       3      41 ..      46      84 ..      42      91 .. 0.90
   2 ?   -0.5   0.0      0.31   1.1e+03       4      32 ..     127     155 ..     126     157 .. 0.76

  Alignments for each domain:
  == domain 1  score: 27.4 bits;  conditional E-value: 6.3e-10
          Biotin_lipoyl_2  3 vsIaapvsGrVaqlnVkdGqrVkaGdvLaelDsralqla 41
                             v I+a+v  ++a+ln+k+G++V + ++L++l  ++++l 
  PHY93_05665|PHY93_05665 46 VDISARVTSVIATLNIKEGDHVTTNQLLMTLSCEDYKLD 84
                             89*********************************9964 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.31
          Biotin_lipoyl_2   4 sIaapvsGrVaqlnVkdGqrVkaGdvLae 32 
                              +I++p++G V   + + G  V  G  L++
  PHY93_05665|PHY93_05665 127 NITSPLNGIVLNKYHEIGEMVTPGTRLLT 155
                              6999****998777777777777766665 PP

>> Biotin_lipoyl  Biotin-requiring enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.5   0.0   2.8e-05       0.1      43      73 .]      46      76 ..      40      88 .. 0.71
   2 ?    2.3   0.0     0.041   1.5e+02      44      73 .]     127     156 ..     124     156 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 2.8e-05
                             EEEEBSSSEEEEEESSTTTEEE-TTCEEEEE CS
            Biotin_lipoyl 43 meieapkaGvvkeilvkeGdtvevgdllaki 73
                             ++i+a+++ v++ + +keGd v++++ll+++
  PHY93_05665|PHY93_05665 46 VDISARVTSVIATLNIKEGDHVTTNQLLMTL 76
                             4566777777777777777777777777664 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.041
                              EEEBSSSEEEEEESSTTTEEE-TTCEEEEE CS
            Biotin_lipoyl  44 eieapkaGvvkeilvkeGdtvevgdllaki 73 
                               i++p +G+v   +++ G++v+ g+ l+++
  PHY93_05665|PHY93_05665 127 NITSPLNGIVLNKYHEIGEMVTPGTRLLTL 156
                              699*********************998875 PP

>> DUF3139  Protein of unknown function (DUF3139)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.1   4.3    0.0024       8.6       1      23 [.       9      36 ..       9      90 .. 0.75
   2 ?    1.1   0.1      0.18   6.4e+02      24      50 ..     168     194 ..     157     232 .. 0.65

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.0024
                  DUF3139  1 mkkiiiililliillvivkvfl.....g 23
                             mkkii i+++++++ v+vk ++      
  PHY93_05665|PHY93_05665  9 MKKIIAIILIFLVVGVSVKLIFfrrpfY 36
                             8999999999999999999988564332 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.18
                  DUF3139  24 lvgskpikkylankkldkylqekgyke 50 
                              ++ ++ + k+   kkl  yl e +++e
  PHY93_05665|PHY93_05665 168 YIPQNLVSKISIGKKLTGYLPESNMQE 194
                              555566666555688888885544443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (249 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       921  (0.0513693); expected 358.6 (0.02)
Passed bias filter:                      634  (0.0353617); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.40
# Mc/sec: 1862.26
//
Query:       PHY93_11785|PHY93_11785  [L=289]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (289 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       287  (0.0160076); expected 358.6 (0.02)
Passed bias filter:                      148  (0.00825478); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.20s 00:00:00.64 Elapsed: 00:00:00.38
# Mc/sec: 2262.17
//
Query:       PHY93_11790|PHY93_11790  [L=150]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
  ------ inclusion threshold ------
      0.016   15.3   0.0      0.022   14.8   0.0    1.2  1  DUF4947      Domain of unknown function (DUF4947)
      0.016   15.6   0.2       0.18   12.3   0.2    2.2  1  THEG         Testicular haploid expressed repeat
      0.033   13.8   0.4      0.068   12.8   0.4    1.4  1  zf_C2H2_ZHX  Zinc-fingers and homeoboxes C2H2 finger domain
      0.083   12.5   0.4      0.092   12.4   0.4    1.2  1  DUF2208      Predicted membrane protein (DUF2208)


Domain annotation for each model (and alignments):
>> DUF4947  Domain of unknown function (DUF4947)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   0.0   4.9e-06     0.022     128     160 ..      36      69 ..      25      75 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 4.9e-06
                  DUF4947 128 ki.sssrYvllvYkdqkvqlvfetdsqllyitPn 160
                              k+ + ++  l+ Y+++k+ql+ e ds l+y  P+
  PHY93_11790|PHY93_11790  36 KFdKFNKKNLYCYENNKIQLLLEDDSTLKYYRPL 69 
                              553446777*********************9997 PP

>> THEG  Testicular haploid expressed repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.2     4e-05      0.18      11      53 ..      19     108 ..      14     109 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 4e-05
                     THEG  11 kaspRieeLAkPkerhniyepdrsv...............................................wqvspaalkavpse 49 
                                ++++e+LA Pk+ +  +   ++                                                +++s+   ka+ps 
  PHY93_11790|PHY93_11790  19 FLTKKVESLAAPKTLESKFDKFNKKnlycyennkiqllleddstlkyyrpllpklfetknfsfiqkatmlslIEMSRRPDKASPSA 104
                              5799*********9999965555545778889999999999999999999999999999999999999999999999999999999 PP

                     THEG  50 Rile 53 
                              R+++
  PHY93_11790|PHY93_11790 105 RLQY 108
                              9986 PP

>> zf_C2H2_ZHX  Zinc-fingers and homeoboxes C2H2 finger domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.4   1.5e-05     0.068       6      21 ..      13      28 ..      11      29 .. 0.92

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 1.5e-05
              zf_C2H2_ZHX  6 vCveCsfsakkfegLa 21
                             +C++Csf++kk e+La
  PHY93_11790|PHY93_11790 13 FCASCSFLTKKVESLA 28
                             7**************8 PP

>> DUF2208  Predicted membrane protein (DUF2208)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.4     2e-05     0.092      20      99 ..       2      82 ..       1     112 [. 0.86

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 2e-05
                  DUF2208 20 lpqylflviilYiivimvimsvltsrsllrerkkleevesgktLfe.EknalkliekDeelqkelkeqlkasmitllllli 99
                             +++ +fl++il+ +   +++ +++s ++ +   ++ ++ + k L+  E+n  +l+ +D +  k ++  l +++ t  +++i
  PHY93_11790|PHY93_11790  2 INKRFFLIFILFCASCSFLTKKVESLAAPKTLESKFDKFNKKNLYCyENNKIQLLLEDDSTLKYYRPLLPKLFETKNFSFI 82
                             6899***********************999999999999******99***********99998888777666666655555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (150 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       638  (0.0355848); expected 358.6 (0.02)
Passed bias filter:                      395  (0.0220313); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.41u 0.20s 00:00:00.61 Elapsed: 00:00:00.37
# Mc/sec: 1230.49
//
Query:       PHY93_11795|PHY93_11795  [L=117]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.026   14.3   0.1       0.04   13.7   0.1    1.4  1  BTRD1     Bacterial tandem repeat domain 1


Domain annotation for each model (and alignments):
>> BTRD1  Bacterial tandem repeat domain 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.1   2.3e-06      0.04       9      31 ..      33      55 ..      30      71 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 2.3e-06
                    BTRD1  9 GltaaqyqakfdklkakGYrpvh 31
                             G+  +q+++ f+++++kGYr   
  PHY93_11795|PHY93_11795 33 GYREKQFDKLFYEFINKGYRILN 55
                             67789***************865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (117 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       366  (0.0204139); expected 358.6 (0.02)
Passed bias filter:                      304  (0.0169558); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.37u 0.24s 00:00:00.61 Elapsed: 00:00:00.39
# Mc/sec: 902.22
//
Query:       PHY93_11800|PHY93_11800  [L=205]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.3e-28   97.5   0.2    8.7e-28   97.2   0.2    1.0  1  CoA_trans        Coenzyme A transferase
    9.2e-05   22.4   0.0     0.0002   21.4   0.0    1.5  2  AcetylCoA_hyd_C  Acetyl-CoA hydrolase/transferase C-terminal 


Domain annotation for each model (and alignments):
>> CoA_trans  Coenzyme A transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   97.2   0.2   9.7e-32   8.7e-28       2     194 ..       7     181 ..       6     198 .. 0.92

  Alignments for each domain:
  == domain 1  score: 97.2 bits;  conditional E-value: 9.7e-32
                              CHHHHHHCTT--TTEEEEE-SBTTBTHHHHHHHHHHHHTTTSEEEEESTTTEECCHHHHHTTTEEEEEESCTTBBCEHHHHHHHHT CS
                CoA_trans   2 etaaeavakeikdGmtvavGGFgligiPealiaalarsgvkdltviiseagvlglgplllngsvkkviasyggetvnprfgkqfls 87 
                              e+a+e +  ++k    v++G    ig+P ++ia+ ++     +++i+se+gvlg++  +++ sv   ++++g+et+  + g++f++
  PHY93_11800|PHY93_11800   7 EMADEVIL-FFKPHTSVNLG----IGMP-TAIAERIPH--ELNIMIHSENGVLGVSGRPKKDSVSSTLINAGKETIAIKKGSSFFD 84 
                              67888887.9**********....****.999999998..9********************************************* PP

                              TSSEEEEHHHHHHHHHHHHHHHTEETTEEEESTTTTSHGGTTESEEEEETTEEEEEEESSSEEEEEEECCEEETTCSEESSGGGHT CS
                CoA_trans  88 gelefellpqgtlaerlraGgaglpelgfltntgigtlvapklkkvpgfgGaeyilepalkadvalikaskadeegnlvfeksagn 173
                              ++++f  +++g++++ +++Gg++++   +l+n++++    +k  kv+g+gGa++++++++ ++++++++  +d++ +l   + ++ 
  PHY93_11800|PHY93_11800  85 SAMSFG-MIRGGHIDYCVLGGMEVDVSRNLANWMVP----GK--KVTGMGGAMDLVNGSK-KVIIMMNHFSKDGVAKLLPLCLLPF 162
                              ******.*****************************....66..****************.6********************9998 PP

                              THSHHHHHHEEEEEEEEEEEE CS
                CoA_trans 174 fnkpaiaeaakvtileveeiv 194
                              ++  +++   +vt l+v+++ 
  PHY93_11800|PHY93_11800 163 TGLDVVD--IVVTELGVFKPN 181
                              8866666..899****99986 PP

>> AcetylCoA_hyd_C  Acetyl-CoA hydrolase/transferase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0      0.93   8.3e+03     116     135 ..      43      62 ..      34      69 .. 0.66
   2 !   21.4   0.0   2.2e-08    0.0002      41     128 ..     104     182 ..      94     188 .. 0.89

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 0.93
                              EEEETTEEEE-TT--HHHHH CS
          AcetylCoA_hyd_C 116 yvvTEyGiadLrgkslrera 135
                              ++ +E G+  ++g+  ++ +
  PHY93_11800|PHY93_11800  43 MIHSENGVLGVSGRPKKDSV 62 
                              56678888888887766554 PP

  == domain 2  score: 21.4 bits;  conditional E-value: 2.2e-08
                              -SEEETTS-EESSECTTCCTCGGTTHHHHHHHHHHSTT-EEEEE--SEETTTTEESEESS-STTSSECE-TTT-SEEEETTEEEE- CS
          AcetylCoA_hyd_C  41 alevdltGqvnseslggrvvsGvGgqldFvrgaalskggksiialpStakkgeiSrIvpslkegahvtttrhdvdyvvTEyGiadL 126
                               +evd+  + +  ++ g+ v+G+Gg +d v+g+++      ii+++  +k+g +++ +p +       t    vd+vvTE G+ + 
  PHY93_11800|PHY93_11800 104 GMEVDVSRNLANWMVPGKKVTGMGGAMDLVNGSKK-----VIIMMNHFSKDG-VAKLLPLCL---LPFTGLDVVDIVVTELGVFKP 180
                              699***999999999******************99.....999999999999.599**9999...77888899*********9875 PP

                              TT CS
          AcetylCoA_hyd_C 127 rg 128
                              +g
  PHY93_11800|PHY93_11800 181 NG 182
                              55 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (205 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       325  (0.0181271); expected 358.6 (0.02)
Passed bias filter:                      298  (0.0166211); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.19s 00:00:00.61 Elapsed: 00:00:00.35
# Mc/sec: 1739.91
//
Query:       PHY93_11805|PHY93_11805  [L=232]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    3.2e-60  203.2   0.1    3.6e-60  203.1   0.1    1.0  1  CoA_trans  Coenzyme A transferase


Domain annotation for each model (and alignments):
>> CoA_trans  Coenzyme A transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  203.1   0.1     2e-64   3.6e-60       7     215 ..      15     217 ..       9     219 .. 0.96

  Alignments for each domain:
  == domain 1  score: 203.1 bits;  conditional E-value: 2e-64
                              HHCTT--TTEEEEE-SBTTBTHHHHHHHHHHHHTTTSEEEEESTTTE..ECCHHHHHTTTEEEEEESCTTBBCEHHHHHHHHTTSS CS
                CoA_trans   7 avakeikdGmtvavGGFgligiPealiaalarsgvkdltviiseagv..lglgplllngsvkkviasyggetvnprfgkqflsgel 90 
                              a+  ++++Gmt++ GGFgl+gi+e+ i+al + +v+dltvi+++ g   +gl ++l++ ++kk+++sy+g   np ++ ++l+ ++
  PHY93_11805|PHY93_11805  15 ALH-DFQSGMTLMSGGFGLCGIAENCIDALTNMNVSDLTVISNNIGNsgRGLVKILIQDKIKKAYCSYVGG--NPDLEVRMLNKQI 97 
                              666.99*****************************************99**********************..************* PP

                              EEEEHHHHHHHHHHHHHHHTEETTEEEESTTTTSHGGTTESEEEEETTEEEEEEESSSEEEEEEECCEEETTCSEESSGGGHTTHS CS
                CoA_trans  91 efellpqgtlaerlraGgaglpelgfltntgigtlvapklkkvpgfgGaeyilepalkadvalikaskadeegnlvfeksagnfnk 176
                              e+el+pqgt  er+ra+g+g+   +f+t+tg+gtl+a++  +v+ f  ++ i+e al+ad+a+ika+++d+ gnl f+ +a+nf+ 
  PHY93_11805|PHY93_11805  98 EVELVPQGTFSERIRAAGMGIR--AFYTPTGYGTLIAEG-REVKIF-DRPCIMETALHADFAIIKAQRGDTFGNLWFKETARNFS- 178
                              **********************..***************.466655.69************************************. PP

                              HHHHHHEEEEEEEEEEEECTTSSECCCESBTGGGHSEEE CS
                CoA_trans 177 paiaeaakvtileveeivekgkldpekvliPgvlvdavv 215
                              p +a+aak+ti+evee+v++g++dp  ++ Pg++v+++ 
  PHY93_11805|PHY93_11805 179 PLMAMAAKTTIVEVEELVDVGEIDPHDIHLPGLFVQRIF 217
                              *************************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (232 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       293  (0.0163422); expected 358.6 (0.02)
Passed bias filter:                      273  (0.0152267); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.19s 00:00:00.60 Elapsed: 00:00:00.34
# Mc/sec: 2014.08
//
Query:       PHY93_11810|PHY93_11810  [L=392]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.1e-77  261.4   0.1    1.3e-77  261.1   0.1    1.0  1  Aminotran_3    Aminotransferase class-III
  ------ inclusion threshold ------
      0.032   13.4   0.0      0.054   12.6   0.0    1.3  1  Aminotran_1_2  Aminotransferase class I and II


Domain annotation for each model (and alignments):
>> Aminotran_3  Aminotransferase class-III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  261.1   0.1   1.5e-81   1.3e-77      11     405 ..      18     389 ..       9     390 .. 0.91

  Alignments for each domain:
  == domain 1  score: 261.1 bits;  conditional E-value: 1.5e-81
                              EEEEEEEBTEEEETTS-EEEESSHHHHTTTT-BT-HHHHHHHHHHHTT-S---TTTCEEHHHHHHHHHHHHHCT-..SEEEEESSH CS
              Aminotran_3  11 lvitkaeGvyltdvdgkrylDlvssiavvnlGhahPkvvkavkeqaaklshvsfgaltnepalklaekllklapkgldkvflansG 96 
                              + i   +Gv +t  dg++++D++s    + +Gh+hP ++k +k+q++++ + s +   +   ++ ++ ll+ + k+  k+f+ +sG
  PHY93_11810|PHY93_11810  18 FEIASVNGVTITTTDGRHLIDMTSISYQAHFGHNHPIIIKHIKDQLDTIPMSS-PKGIYPGKIETTQSLLRYMKKENGKIFYTTSG 102
                              5677789******************************************9999.777778889999*********999******** PP

                              HHHHHHHHHHHHHHHHHTSHCTT-EEEEETTT---SSHHHHHHSS--TTTTTTCTTB-TS..EEEE-TTBGGGTB-HHHHHHHHHH CS
              Aminotran_3  97 seAvetAlKlarkyarekkatektkiiafkgafHGrtlgalsvtgskkkyktlfgpflpe..vvrlkypdeevlkeneeeeaalle 180
                              +e+ve+AlK+ar        t+k+ ++a ++++HG tlgals+tg+    ++   +++pe  vvr++ p e            +le
  PHY93_11810|PHY93_11810 103 AESVENALKIARD------ITKKKIVLARTNSYHGATLGALSATGD---WRNP-AHMTPEgwVVRIPEPNEL----------DALE 168
                              *************......99*************************...4444.445454115566666432..........3456 PP

                              HHHHHH.CHTCCCEEEEEE-SCETTTTSEB--CCHHHHHHHHHHHHT-EEEEE-TTTTTTTTSSSSGGGGCTS--SEEEE-GGGGT CS
              Aminotran_3 181 eleale.kkkkdevaAvivEpiqgegGvvvaspeflaklrelckkhdvllivDEvqtGfGrTGklfAlehagvspDlmtlaKaltg 265
                              + ++++ k   d++aA+i+E+i g  Gv++ ++e+ +++++lc + ++ll++DEv +Gf rTGk f+++h+gv++Dl++laK+++g
  PHY93_11810|PHY93_11810 169 KTRNIIlKNGPDNIAAFILETITGGNGVYAGTKEWWQGIKKLCLEFNILLVMDEVVCGFERTGKAFGYMHYGVEADLLCLAKGISG 254
                              677777799***************************************************************************** PP

                              T.SS-EEEEEEHHHHTTS-TTS..B--TTTT-HHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHCTT-TTEEEEEEETTEE CS
              Aminotran_3 266 G.lplsavlataevmqalapgs..hgsTfgGnplacavalavleiieeekllenaqelgaalkegLeelqkkyevikevRgkGlmi 348
                              G +p+ av + +++++  +++    g T  + pl +a++  vlei++++k+++n +++++++k++Le+l++ +  +ke+R  Gl++
  PHY93_11810|PHY93_11810 255 GmIPFGAVWTSEKIADHYEENIlcCGLTNYAHPLGMAAMKGVLEIVHDKKFQDNLSHVQNIFKAELEKLKSLS-IVKEIRVHGLLC 339
                              *99***************7666889*********************************************998.************ PP

                              EEEEBCCCETTCHHHHHHHHHCTEE-EEETTTEEEE---TT--HHHHHHHHHHHHHH CS
              Aminotran_3 349 aielkeeaevkekeilkkakekGvlilsaGdnvirllppliitdeeidelleilkka 405
                              a++l +++        kk+ +kG+++     n i l+pplii++  ++e+++++ ++
  PHY93_11810|PHY93_11810 340 AVDLHKSVA------GKKFFNKGLYLVAQT-NRIILAPPLIISESLLREGMSKIYEV 389
                              *******99......468999****77766.9999*****************99876 PP

>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   6.1e-06     0.054      44     329 ..      76     364 ..      43     385 .. 0.73

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 6.1e-06
                              THHHHHHHHHHHHHCTCTTCHTTGGEG.EEEESHHHHHHHHHHHHHHHTTT-EEEEEESS-THHHHHHHHTTSEEEEEEBEETTTT CS
            Aminotran_1_2  44 dglpeleealakflgrseklklkreaa.vvvgsGagaliealifllklnpgdeilvpdptyasyknilrlsggevvryplyseedf 128
                               g  e  + l ++++       k ++    ++sGa ++ +al+ + ++ +++ +l+ + +y   + ++  ++g ++  +       
  PHY93_11810|PHY93_11810  76 PGKIETTQSLLRYMK-------KENGKiFYTTSGAESVENALKIARDITKKKIVLARTNSYHGATLGALSATGDWRNPA------- 147
                              455688888888888.......33334045689999999999999999**************************88888....... PP

                              EE-HHHHHHHHTTHHCTTE..............TEEEEEEESS-TTT--B-.-HHHHHHHHHHHHHTTEEEEEEETTTTCBSSSSH CS
            Aminotran_1_2 129 hldlealeealkeapegnk..............ktkvilvesphNPtGtva.tleeleklldlakkynlllfvDeaYagfvfgsld 199
                              h++ e++   + e  e ++               +  +++e++    G+ a t+e ++ + +l+ + n+ll+ De+  gf+ + + 
  PHY93_11810|PHY93_11810 148 HMTPEGWVVRIPEPNELDAlektrniilkngpdNIAAFILETITGGNGVYAgTKEWWQGIKKLCLEFNILLVMDEVVCGFERTGKA 233
                              555555555555544444455555557777778889999999999999999455557889999********************887 PP

                              THHHHGGSTTSTTEEEEEESSSTTSSGGG-EEEEEEEHHHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
            Aminotran_1_2 200 avatranveeepnllivgslsKafGlaGeRvGyilgnaavvsqlrklsrpflsssllqaavaaalsdallkqseleemrqrlqkrr 285
                              +   + +ve++   +++ + s  +       G++  +++++++ +        ++++ ++ +aa++ +l++  + ++ ++ l +  
  PHY93_11810|PHY93_11810 234 FGYMHYGVEADLL-CLAKGISGGMIP----FGAVWTSEKIADHYEENILCCGLTNYAHPLGMAAMKGVLEIV-HDKKFQDNLSHVQ 313
                              7666777777544.666666655544....459999999999999988776669999999999999999886.6666667777777 PP

                              HHHHHHHHHS.TEEEECCS..CSSEEEEEETHH.CHHHHHHH...HHHTCT CS
            Aminotran_1_2 286 kelrdeLael.glkvlasq..sgmflltdlsae.takelskk...Lleevg 329
                                +++eL++l  l+++++   +g+++ +dl ++ + k+++ k   L+ + +
  PHY93_11810|PHY93_11810 314 NIFKAELEKLkSLSIVKEIrvHGLLCAVDLHKSvAGKKFFNKglyLVAQTN 364
                              777777777775555544334999999999999888888888877555533 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (392 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       581  (0.0324056); expected 358.6 (0.02)
Passed bias filter:                      527  (0.0293937); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.37
# Mc/sec: 3202.01
//
Query:       PHY93_11815|PHY93_11815  [L=363]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.8e-13   50.7   0.0    2.4e-13   50.3   0.0    1.1  1  AAT       Acyl-coenzyme A:6-aminopenicillanic acid acyl-trans


Domain annotation for each model (and alignments):
>> AAT  Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.3   0.0   1.4e-17   2.4e-13       5     201 ..     119     319 ..     115     340 .. 0.81

  Alignments for each domain:
  == domain 1  score: 50.3 bits;  conditional E-value: 1.4e-17
                              E..EEEEEEE.E-S-S--EEEEE--S..SS--EEEE..SSSS-SEEEEEE.TTS-EEEE-TTS-TTT---------HHHHHHH.-- CS
                      AAT   5 dgkllgrNeD.ldpetlsnrflvvasedsgfaslgy..agslpGrtdGiN.eaGLavtinllslkklrakGfprafitRllLekce 86 
                                +l g+++D  +++  +++ ++v ++d++ a+l +   g + G++ G+N + GL+ ++n+++ +     G+   ++ R  Le ++
  PHY93_11815|PHY93_11815 119 TETLSGQTWDmHRTAKNYMCLIHVPQNDIHSAQLVLtlVGCI-GLM-GVNtHNGLI-GVNNINTTNA-KIGLIWPVLVRKTLE-AK 199
                              456889****88899999999999999977777666226666.999.777256886.5666666777.7**************.** PP

                              SHHHHHHTHHHHTTTS-SEEEEEEETTEEEEEEE-S..SS-EEEEEESS.EEEEE-SS-S-GGGSSS-..----HHHHHHHHHHHH CS
                      AAT  87 sveeAvellkeipraaginyivldaagnaavvevea..sskvcsirean.ealahtNHfvnetleaen..qnilesSisRlerlqe 167
                              ++ e    l  +p  +g ny++   +g    +e+++  s+kv+  + ++ + + htNH++  ++e+ +  + + +++  R++ l +
  PHY93_11815|PHY93_11815 200 NLGEMRTTLLNAPVTSGHNYLISTPEGGEH-LEITPsvSEKVSALNRGQvGGIFHTNHCIGYEIEKLEdkKSMSSTTFNRYNLLSQ 284
                              **********************99997665.56655115666777777789********88888888744667777779******* PP

                              HHCSSSSBHHHHHHHT---STTTSSSS-....BSS CS
                      AAT 168 llsqkesaeeaiellkDredepysvlrr.ksfksw 201
                               ++++++ +++  ll+D ++ p s++    +++++
  PHY93_11815|PHY93_11815 285 KTHKVTDLTDFKNLLTDHDQFPKSICSHfENGTQD 319
                              **************************998776654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (363 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       375  (0.0209158); expected 358.6 (0.02)
Passed bias filter:                      337  (0.0187964); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.20s 00:00:00.71 Elapsed: 00:00:00.39
# Mc/sec: 2810.80
//
Query:       PHY93_11820|PHY93_11820  [L=1024]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    7.5e-41  140.1   0.0    1.4e-33  116.1   0.0    3.2  2  Aminotran_3     Aminotransferase class-III
     0.0011   19.1   0.0     0.0033   17.6   0.0    1.7  1  Acetyltransf_1  Acetyltransferase (GNAT) family


Domain annotation for each model (and alignments):
>> Aminotran_3  Aminotransferase class-III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  116.1   0.0   1.6e-37   1.4e-33      27     402 ..      56     449 ..      29     452 .. 0.82
   2 !   19.8   0.0   2.9e-08   0.00026      62     330 ..     726     977 ..     719     992 .. 0.70

  Alignments for each domain:
  == domain 1  score: 116.1 bits;  conditional E-value: 1.6e-37
                              -EEEESSHHHHTTTT-BT-HHHHHHHHHHHTT-S---TTTCEEHHHHHHHHHH.HHHCT-..SEEEEESSHHHHHHHHHHHHHHHH CS
              Aminotran_3  27 krylDlvssiavvnlGhahPkvvkavkeqaaklshvsfgaltnepalklaekl.lklapkgldkvflansGseAvetAlKlarkya 111
                              + +lD++s+ia + +G+ +P v     e +++ +       + + + k+++k  ++ +  +   + ++ sG+eA+etAl  + +  
  PHY93_11820|PHY93_11820  56 HYLLDAASQIATLGHGF-NPSVFFGTTEFLESWMNDA-TTKEFKDMRKAYQKFfNRKLNWNKTSITMVHSGAEANETALGYCYR-- 137
                              4589*******999998.6999876666666653332.333334455555555333444434589***************9999.. PP

                              HHTSHCTT-EEEEETTT---SSHHHHHHSS--TTTTTTCTTB-TSEEEE-TTBGGGTB-HH........................H CS
              Aminotran_3 112 rekkatektkiiafkgafHGrtlgalsvtgskkkyktlfgpflpevvrlkypdeevlkene........................e 173
                               ++ ++e +k++af+g+fHGr + +l++t++ k  ++ f+   +   ++kyp       n                         +
  PHY93_11820|PHY93_11820 138 -SRVHPEANKVLAFEGSFHGRMMITLAATWN-KSKREPFEWKNYLAEYVKYPELNDGIINVhfpenwreiwneaslkdfkipeswS 221
                              .7779**************************.66677777776666666666433222222455567888888**********998 PP

                              HHHHHHHHHHHHH....CHTCCCEEEEEE-SCETTTTSEB--CCHHHHHHHHHHHHT-EEEEE-TTTTTTTTSSSSGGGGC..... CS
              Aminotran_3 174 eeaalleeleale....kkkkdevaAvivEpiqgegGvvvaspeflaklrelckkhdvllivDEvqtGfGrTGklfAleha..... 250
                              ++ ++++e+ +l     +  ++++  +++Ep+q egG+  +s+ f ++l  ++k   v++i+DEvqtGf    ++f + ++     
  PHY93_11820|PHY93_11820 222 NDPMVKKEVDSLLsvrkQLLTKKIFSILIEPMQCEGGDCYSSDRFHTALLLMAKTFKVAVIHDEVQTGFHLGKEFFWHRQFnlrgl 307
                              88899999999988888999*************************************************99999999999988888 PP

                              ...TS--SEEEE-GGGGTTSS-EEEEEEHHHHTTS-TTSB--TTTT-HHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHCT CS
              Aminotran_3 251 ...gvspDlmtlaKaltgGlplsavlataevmqalapgshgsTfgGnplacavalavleiieeekllenaqelgaalkegLeelqk 333
                                 +++pD ++ aK    G+ l     ++e  +++    +g+ f    + +++++   ++i  ++ + ++ el+++++ +L +l k
  PHY93_11820|PHY93_11820 308 eglQLNPDYVICAKKAQVGIVL----SHHETKNIF----KGEEF----SVASAFRGYAHAISLDQCQSRIIELENIVRPKLDALLK 381
                              877889*******888888755....567777888....55555....35677888888999999*******************99 PP

                              T-.TTEEEEEEETTEEEEEEBCCCETTCHHHHHHHHHCTEE-EEETTTEEEE---TT--HHHHHHHHHHH CS
              Aminotran_3 334 ky.evikevRgkGlmiaielkeeaevkekeilkkakekGvlilsaGdnvirllppliitdeeidelleil 402
                              k+ ++i++ R  Gl +a++l ++a  +  ++++   ++G+l ++aG +++r++  l + +++++ l+e+l
  PHY93_11820|PHY93_11820 382 KHdKFISRPRVNGLAFAFDLNDPAMLN--KFVDVRFKHGLLYYPAGGQTLRFRLNLSFGEKDLNFLFERL 449
                              999**********************88..9*********************************9999987 PP

  == domain 2  score: 19.8 bits;  conditional E-value: 2.9e-08
                              --TTTCEEHHHHHHHHHHHHHCT-..SEEEEESSHHHHHHHHHHHHHHHHHHTS.HCTT-EEEEETTT---SSHHHHHHSS--TTT CS
              Aminotran_3  62 vsfgaltnepalklaekllklapkgldkvflansGseAvetAlKlarkyarekk.atektkiiafkgafHGrtlgalsvtgskkky 146
                              v++ ++ +e  lk  +++++l+p++l +  ++   se v    K++   +r +  +++ tk+++fk+ + G+   al+ + s    
  PHY93_11820|PHY93_11820 726 VCLSNFVSETFLKGIKEVINLLPENLRHGYTCSGQSECVDKVAKTIWVKSRPEIkENHITKMMTFKNHYFGNGS-ALARSLS---- 806
                              56667777777788888888888888888888888888887777776544433226666788888888888753.4555544.... PP

                              TTTCTTB-TSEEEE-TTBGGGTB-HHHHHHHHHHHHHHHH.CHTCCCEEEEEE-SCETTTTSEB--CCHHHHHHHHHHHHT-EEEE CS
              Aminotran_3 147 ktlfgpflpevvrlkypdeevlkeneeeeaalleeleale.kkkkdevaAvivEpiqgegGvvvaspeflaklrelckkhdvlliv 231
                                +++p   ev++l+ + e++           +e+l+ +e + k  +  Av vEp+     +   + efl++lr+l++kh v+l+ 
  PHY93_11820|PHY93_11820 807 -LDVEPY-FEVKKLPNASEFN----------FQEILKLVEsEFKLGTYFAVWVEPVLQKT-MDKMPYEFLRGLRDLATKHKVALVY 879
                              .344433.3455555554333..........345566666688889999******98776.5555679****************** PP

                              E-TTTTTTTTSS..SSGGGGCTS--SEEEE-GGGGTT.SS-EEEEEEHHHHTTS-TTSB--TTTT-HHHHHHHHHHHHHHHH..TT CS
              Aminotran_3 232 DEvqtGfGrTGk..lfAlehagvspDlmtlaKaltgG.lplsavlataevmqalapgshgsTfgGnplacavalavleiiee..ek 312
                               E ++ f r  +  +fA   +++spD  ++  +  +G  ++s +   +++  ++      sT+ G+         +++ + +  ++
  PHY93_11820|PHY93_11820 880 NETASQFYRFSEknFFASSFDDISPDAGLVYLSGQAGlAFASDAYYLEQPLMMI------STWDGDEFSFNTYYHSFKNVTKnlDD 959
                              *******88553339999999*****8777644444535666666666666666......78888888888888888777665667 PP

                              HHHHHHHHHHHHHHHHHH CS
              Aminotran_3 313 llenaqelgaalkegLee 330
                              + + a+   ++l e+L++
  PHY93_11820|PHY93_11820 960 YKQTAKLFHQKLVENLSR 977
                              777777777777777776 PP

>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.0   3.7e-07    0.0033      16      97 ..     545     641 ..     531     652 .. 0.72

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 3.7e-07
                              HHHHHHHHHHHHHHSTTCEEEE...EEETTEEEEEE..............EEEEEETTSTTEEEEEEEEESGGGTTSSHHHHHHHH CS
           Acetyltransf_1  16 nedaseeefeesfsleaegllv...aeedgeliGfi..............sllkipdekggvayieslaVspeyrgkGlGsaLlea 84 
                                +++ e fe+   l+ ++l++      d +l G +              ++ ++ + +++  y+ ++ V+p+ +g GlG+ L  a
  PHY93_11820|PHY93_11820 545 ARQTDIEKFEHT-VLNRNSLCLgiiNNSDKKLMGIAfagplklyplergvRMDPNFH-EEDSLYMLDVTVDPALQGEGLGRGLKYA 628
                              333333333344.34444444433344447799999999999999998777777777.8999************************ PP

                              HHHHHHHTTESEE CS
           Acetyltransf_1  85 leerareegikki 97 
                              l   a+ +gik+i
  PHY93_11820|PHY93_11820 629 LSAMALTKGIKRI 641
                              **********998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1024 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       743  (0.0414412); expected 358.6 (0.02)
Passed bias filter:                      516  (0.0287802); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.82u 0.23s 00:00:01.05 Elapsed: 00:00:00.42
# Mc/sec: 7273.37
//
Query:       PHY93_11825|PHY93_11825  [L=329]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.4e-51  172.3   0.0    1.3e-50  171.8   0.0    1.1  1  Dala_Dala_lig_C  D-ala D-ala ligase C-terminus
    2.4e-19   69.7   0.0    4.6e-19   68.8   0.0    1.5  1  Dala_Dala_lig_N  D-ala D-ala ligase N-terminus
    1.5e-05   24.6   0.0    3.3e-05   23.5   0.0    1.5  2  ATP-grasp        ATP-grasp domain
  ------ inclusion threshold ------
       0.01   15.3   0.0      0.035   13.6   0.0    1.8  1  CPSase_L_D2      Carbamoyl-phosphate synthase L chain, ATP bi


Domain annotation for each model (and alignments):
>> Dala_Dala_lig_C  D-ala D-ala ligase C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  171.8   0.0   2.8e-54   1.3e-50       3     203 ..     128     326 ..     126     327 .. 0.91

  Alignments for each domain:
  == domain 1  score: 171.8 bits;  conditional E-value: 2.8e-54
                              HHTT--B--EEEEETTHHCH-H-HHHHHHHHHC-SSEEEEESSSSTTTTEEEESSGGGHHHHHHHHHTT-SCEEEEE--ESEEEEE CS
          Dala_Dala_lig_C   3 kaaGlpvvpyvvlekeeakeekkellekveeelgypvfVKpareGSSvGvskveseeelkeaieeafkydekvlvEeaiegreiev 88 
                              +a+ +p++p+++l + e k+  ++l     ++ g  +fVK+a +GSS+G  ++  +eel  a+ +afky + vlvE+++++re+e+
  PHY93_11825|PHY93_11825 128 NALEIPNTPFEFLASMEDKKRAHDL----FDRYG-KIFVKAASQGSSIGCFQIFKKEELDTALLSAFKYSSYVLVEKMVDARELEI 208
                              57889999**999999999888444....45555.59************************************************* PP

                              EEEE.TSSCEEEEEEEEE-SSSSS-HHHHHC..TT-EEESS-.---HHHHHHHHHHHHHHHHHTT--SEEEEEEEEETTTEEEEEE CS
          Dala_Dala_lig_C  89 avlg.neklevsevgeivvkkgfydyeakysd.dkaqlevpa.klekeveekiqelalkaykaldlrGlaRvDfflteegeivlnE 171
                              +  + +++  ++  gei   ++fy ye+ky   ++++ e+ a +l+ke  +k++ +a+ka++ l+lr l+R+Dff+t+egei+lnE
  PHY93_11825|PHY93_11825 209 STYEyEGAIIATIPGEINCPSKFYSYEEKYDPnSSTSTEIVApNLPKEAVDKMRSYAIKAFTHLKLRHLSRIDFFYTTEGEILLNE 294
                              ****7777889999****************55566666665538****************************************** PP

                              EESS---STTSHHHHHHHCTT--HHHHHHHHH CS
          Dala_Dala_lig_C 172 vNtlPGfTeiSlfpklakasGlefkkLvdqli 203
                              +Nt PG+T iS+fpk+++++G +f+k  + +i
  PHY93_11825|PHY93_11825 295 INTFPGMTPISMFPKMMENNGHSFNKFFKDII 326
                              **************************999988 PP

>> Dala_Dala_lig_N  D-ala D-ala ligase N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.8   0.0     1e-22   4.6e-19       1     103 []       4     109 ..       4     109 .. 0.84

  Alignments for each domain:
  == domain 1  score: 68.8 bits;  conditional E-value: 1e-22
                              EEEEEEE-SSTTHHHHHHHHHHHHHHCHCCT.EEEEEEEE-TTS-E....HHHHHHHHTTHHH......TCCCCHCCCTCE--SEE CS
          Dala_Dala_lig_N   1 kiavlfGGkStEhevSlvsaksvlkaldkek.yeviligitkegkw....kkkaekleskekk......klkkeeekekkaeldvv 75 
                              +i++l+GG   Eh++Slvs k + k+l++   y+vi + i k++ +          ++    +      ++k++ +  k++e+ +v
  PHY93_11825|PHY93_11825   4 NILLLCGGGGPEHDISLVSSKYIEKNLNDIGlYNVIKVEIGKDKIFrkldP-----DNI---QgeivemNFKRQLVGIKTEEIHIV 81 
                              799************************55437**********888843321.....222...122234478888899999****** PP

                              EEE-TTTTTTSSHHHHHHHHTT--BSS- CS
          Dala_Dala_lig_N  76 fpvlhGkngEDGtlqgllellgipyvGs 103
                              +p++hG+ gE G++q ++el g+py+G+
  PHY93_11825|PHY93_11825  82 VPCIHGPPGETGEIQTFFELTGLPYIGC 109
                              ***************************9 PP

>> ATP-grasp  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -4.0   0.0       2.1   9.3e+03      19      36 ..      25      42 ..      20      45 .. 0.70
   2 !   23.5   0.0   7.4e-09   3.3e-05       3     157 ..     129     296 ..     127     300 .. 0.75

  Alignments for each domain:
  == domain 1  score: -4.0 bits;  conditional E-value: 2.1
                             HHHHHHHHH-SCEEEEES CS
                ATP-grasp 19 eleeaaeelglpvvvKar 36
                              +e+ ++++gl  v+K +
  PHY93_11825|PHY93_11825 25 YIEKNLNDIGLYNVIKVE 42
                             567778888888888854 PP

  == domain 2  score: 23.5 bits;  conditional E-value: 7.4e-09
                              TTT--B-EEEEECCHHHHHHHHHHH-S..CEEEEESSS-CTTTTEEEECTCCGHHCHHHHC..GTTCEEEEE----.SEEEEE... CS
                ATP-grasp   3 klglpvprflaveskeeleeaaeelgl..pvvvKarrlgydGkGqsvvrseedleqaleal..keekvivEefvpf.ekElsv... 80 
                              +l++p ++f +++s e+ ++a + ++   ++ vKa+  g++  G + + ++e+l++al  +   +  v+vE++v+  e E+s    
  PHY93_11825|PHY93_11825 129 ALEIPNTPFEFLASMEDKKRAHDLFDRygKIFVKAASQGSS-IGCFQIFKKEELDTALLSAfkYSSYVLVEKMVDArELEISTyey 213
                              67899999999999987777777665422677888877776.5777777777777776655558899*******852457775222 PP

                              ..EEEEETTC-....EEE--EEEEEEETTEEEEEEECEE-SCHHHHHHHHHHHHHHHHHTSSEEEEEEEEEETTCTEEEEEEE CS
                ATP-grasp  81 ..lvvrsaeGe....tafypvvetvqedgilrlsvapaevsekaqkkaeeiakkiveeLggvGvfavElFvledgellvnEla 157
                                 ++ +  Ge     +fy   e++  +    + ++  +++++a  k +++a k+  +L    +  + +F++++ge+l+nE+ 
  PHY93_11825|PHY93_11825 214 egAIIATIPGEincpSKFYSYEEKYDPNSSTSTEIVAPNLPKEAVDKMRSYAIKAFTHLKLRHLSRIDFFYTTEGEILLNEIN 296
                              2234556666633336788888888888888777777789*****************************************95 PP

>> CPSase_L_D2  Carbamoyl-phosphate synthase L chain, ATP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   7.8e-06     0.035      24     178 ..     143     297 ..     119     298 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 7.8e-06
                              BSSHHHHHHHHHHH-SSEEEEETTCCTTTTEEEESSHHHHHHHHHHHHHHHHHHHSTS-EEEEE--SSSEEEEEEEEEETTS-EEE CS
              CPSase_L_D2  24 vetleealaiakeigyPviikaafglGGkGmrvarneeelaelvkkalaeakaafgnkqvlvekslkgpkeiEvevlrDakgnvit 109
                              +e+ + a ++ +++g  + +kaa  +   G   + ++eel  ++ +a++ +      + vlvek+++  +e+E+      +g +i 
  PHY93_11825|PHY93_11825 143 MEDKKRAHDLFDRYG-KIFVKAASQGSSIGCFQIFKKEELDTALLSAFKYS------SYVLVEKMVD-ARELEISTYE-YEGAIIA 219
                              555566666666666.48899999999999999999999999999999999......7999999987.5888887654.4555554 PP

                              E..EEEEECCEC........TCCCCEEEES-SS--HHHHHHHHHHHHHHHHHHT-EEEEEEEEEEETTTTEEEEEEEES CS
              CPSase_L_D2 110 v..cerenslql........rtqkvievAPsqtLtdeerqalreaavkvvrevgvvgagtveflldpkskeyyviEvNt 178
                                 +e+++  +          +    ++  ++ L +e+ +++r+ a+k+  +++++    ++f +   ++e+ + E+Nt
  PHY93_11825|PHY93_11825 220 TipGEINCPSKFysyeekydPNSSTSTEIVAPNLPKEAVDKMRSYAIKAFTHLKLRHLSRIDFFYTT-EGEILLNEINT 297
                              423577776665655554443334455667889********************************97.9********98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (329 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       509  (0.0283898); expected 358.6 (0.02)
Passed bias filter:                      452  (0.0252106); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.35
# Mc/sec: 2798.86
//
Query:       PHY93_11830|PHY93_11830  [L=580]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.7e-33  116.1   0.0    4.1e-33  114.8   0.0    1.7  1  tRNA-synt_2b    tRNA synthetase class II core domain (G, H, P
    3.4e-20   72.0   0.1    7.7e-20   70.8   0.1    1.6  1  HGTP_anticodon  Anticodon binding domain
      4e-16   58.8   0.0      1e-15   57.5   0.0    1.8  1  tRNA_SAD        Threonyl and Alanyl tRNA synthetase second ad


Domain annotation for each model (and alignments):
>> tRNA-synt_2b  tRNA synthetase class II core domain (G, H, P, S and T)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  114.8   0.0   6.9e-37   4.1e-33       6     178 ..     262     468 ..     257     469 .. 0.94

  Alignments for each domain:
  == domain 1  score: 114.8 bits;  conditional E-value: 6.9e-37
                              TTSEEEEE-SSSHHHHHHHHHHHEEEBGG.SSEEEEEEEEEEBTTTS.TBCTTTB-SEEEEEEEEEEESGGGHHHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             tRNA-synt_2b   6 rndreyiLkPtneetfvelirdevlrskr.LPlklyqiqtkyRdEks.dsrGLlRvreFhqkdgyvfhaeaslddslrdlikaisr 89 
                               +++e++LkP+n++ ++ +++     s+r LP++++++++++R+E   +  GL+Rvr F q+d+++f + + ++ ++ +l++    
  PHY93_11830|PHY93_11830 262 VDKKEFALKPMNCPCHMLMFKHY-KYSYRdLPMRYADFGRLHRYESAgAVAGLTRVRSFCQDDAHIFIQMEGIEAEIIKLMEMFFI 346
                              5679****************965.677666****************98999******************77799999999999999 PP

                              HHHHTT.SCEEEEEEGTTSC.................................BTTSEEEEEEEEETTTSEEEEEEEEEEEETHHH CS
                              xxxxxxxxxxxxxxxxxxxx.................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             tRNA-synt_2b  90 iferlglefraiielmsaks.................................adykdkkefeavsesltkgieigtiqklgtrls 142
                               + ++g+++ ++ ++++ +s                                 a+y++k ++++ +  +++ +++gtiq + ++l+
  PHY93_11830|PHY93_11830 347 CYDHFGFNQIKVGLSTRPESkagddatwdlaeaalkgaldrtghayhinagdgAFYGPKIDIQIADA-IGRWHQLGTIQLD-FQLP 430
                              ***************99888999*******************************************9.*************.**** PP

                              HHTTEEEECTTSSEEEEEEEEEE.EE.HHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxx.xx.xxxxxxxxxxx RF
             tRNA-synt_2b 143 erlgatvldennreksvimicaa.ig.veRllsaileq 178
                              +r+++++ d++++  ++++i++a +g +eR+ +++le+
  PHY93_11830|PHY93_11830 431 DRFDLKYTDKEGHDVRPVVIHRAlLGsLERFFGVYLEH 468
                              ***********************************997 PP

>> HGTP_anticodon  Anticodon binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.8   0.1   1.3e-23   7.7e-20       1      93 [.     481     571 ..     481     572 .. 0.97

  Alignments for each domain:
  == domain 1  score: 70.8 bits;  conditional E-value: 1.3e-23
                              SEEEEESSSSHHHHHHHHHHHHHHHHTTTSEEEEESSSSTHHHHHHHHHHTT-SEEEEE-HHHHHHTEEEEEETTTCEEEEEETTH CS
           HGTP_anticodon   1 qvvviplnekaeeleeyakklaeeLraagirvelddsnesigkkireadllgipfavvvGekelekgtvtvrdrdtreqervslde 86 
                              q+v++p+++  +++++++k la +L++ g+r+++d++ne++g+k r+ ++ +ipf++vvG++e+e++ v+ r   +   +++++de
  PHY93_11830|PHY93_11830 481 QAVIVPVST--DKHLDFCKTLAIDLKELGLRIKVDERNETMGYKTRQIQQSKIPFMLVVGDREMENKAVSMRAHGEANSRNMTIDE 564
                              89******9..77************************************************************************* PP

                              HHHHHHH CS
           HGTP_anticodon  87 lveklke 93 
                              l+e++ +
  PHY93_11830|PHY93_11830 565 LKEFFLK 571
                              ***9976 PP

>> tRNA_SAD  Threonyl and Alanyl tRNA synthetase second additional domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.5   0.0   1.7e-19     1e-15       1      44 []     109     159 ..     109     159 .. 0.97

  Alignments for each domain:
  == domain 1  score: 57.5 bits;  conditional E-value: 1.7e-19
                              EEEEEETT.EEEEESS---SBGGGC.-SEEEE.......CCECCCTCEEEEE CS
                 tRNA_SAD   1 vrvvsiGdisvelCgGtHvpnTgeI.gafkil.......seesiakglrRIy 44 
                              ++ +++G+ +v+lC+G+Hv+nTg++ + fk+l       +++s++k+l+RIy
  PHY93_11830|PHY93_11830 109 ITCYQQGE-FVDLCRGPHVENTGHLpKFFKLLhtagaywKGDSNNKMLQRIY 159
                              578****8.******************************************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (580 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       486  (0.0271069); expected 358.6 (0.02)
Passed bias filter:                      396  (0.0220871); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.58u 0.20s 00:00:00.78 Elapsed: 00:00:00.37
# Mc/sec: 4658.31
//
Query:       PHY93_05670|PHY93_05670  [L=458]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    9.4e-37  126.7  21.6    4.3e-20   72.3  11.8    2.1  2  OEP             Outer membrane efflux protein
  ------ inclusion threshold ------
      0.095   12.7   0.1       0.22   11.5   0.1    1.5  1  Gemini_AC4_5_2  Geminivirus AC4/5 conserved region


Domain annotation for each model (and alignments):
>> OEP  Outer membrane efflux protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.3  11.8   4.8e-24   4.3e-20      15     188 .]      47     226 ..      41     226 .. 0.93
   2 !   60.1   2.2   2.8e-20   2.5e-16      11     187 ..     284     457 ..     282     458 .] 0.98

  Alignments for each domain:
  == domain 1  score: 72.3 bits;  conditional E-value: 4.8e-24
                      OEP  15 lkaaeaeieaaeanlkaakaeflPtlslsgsygyegngsegggddggtgtt.......svgltlsqplfdggkrrarvkaakaqle 93 
                              lk+  a +e++++++k  ka  +P+lsl++sy y ++ ++  + ++  + t       ++g  l+++lfd +k +++ ++  +  +
  PHY93_05670|PHY93_05670  47 LKSITASVESSQYQAKSLKALAYPNLSLQASYAYLTEVPSK-TLGPIGSITfgthnnyAIGPVLTYTLFDNNKESKNAESYDLLGQ 131
                              56668999***99999999999**************99864.44555555589********************************* PP

                      OEP  94 aaeaqleqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislldvlqaqvrllqaraelaeaeqqlqla 179
                                 a++  ++ ql+l+++q y+++++a ++l l  ++lk ++ + + +e +++aG++s ld  qaq+++ + ++++ +a++ql+l 
  PHY93_05670|PHY93_05670 132 SKNANYLVQKKQLELNIRQVYFRVQYALRELILTAKSLKISQAQENDIEIKFQAGASSRLDQTQAQREVINYHLKYKQAQTQLALF 217
                              ************************************************************************************** PP

                      OEP 180 raqLeyllg 188
                              + +L +l+g
  PHY93_05670|PHY93_05670 218 LRELIALTG 226
                              ****99998 PP

  == domain 2  score: 60.1 bits;  conditional E-value: 2.8e-20
                      OEP  11 nnpdlkaaeaeieaaeanlkaakaeflPtlslsgsygyegngsegggddggtgttsvgltlsqplfdggkrrarvkaakaqleaae 96 
                              ++p+++   +e e+ + + +  k+  +P+++l++  +y ++++  + +  +++   +g+t+s+pl+ g ++r+r +   ++   + 
  PHY93_05670|PHY93_05670 284 DHPEMQVFNHEAESFRLASDSEKSGLWPKIQLQAKSQYIYPDAVIPKNIIQNT---IGVTFSLPLYEGEAIRSRSALKLSEALSSD 366
                              699*************************************************9...****************************** PP

                      OEP  97 aqleqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislldvlqaqvrllqaraelaeaeqqlqlaraq 182
                              + + q + +l+ + ++a   + ++  q  l e+++++a+ + +l+ ++ykaG+i +ldv++    llqa+ ++a+ e+++ + +a 
  PHY93_05670|PHY93_05670 367 YHRMQRLSDLTRDFSKARDVITSLHSQKLLSERNVREAKVIEQLTYQSYKAGKIRYLDVQDSNLKLLQAEVNHAQIESSILMETAT 452
                              ************************************************************************************** PP

                      OEP 183 Leyll 187
                              L+yl+
  PHY93_05670|PHY93_05670 453 LQYLS 457
                              **996 PP

>> Gemini_AC4_5_2  Geminivirus AC4/5 conserved region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   2.4e-05      0.22       7      29 ..     369     392 ..     368     395 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 2.4e-05
           Gemini_AC4_5_2   7 llkRL.dLTwAFTalrnIraSvHp 29 
                              +++RL dLT+ F   r++ +S H+
  PHY93_05670|PHY93_05670 369 RMQRLsDLTRDFSKARDVITSLHS 392
                              7889979****************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (458 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       614  (0.0342462); expected 358.6 (0.02)
Passed bias filter:                      266  (0.0148363); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.20s 00:00:00.72 Elapsed: 00:00:00.37
# Mc/sec: 3698.64
//
Query:       PHY93_11835|PHY93_11835  [L=420]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.8e-11   43.5   8.1    0.00045   20.4   0.1    3.9  3  TPR_12       Tetratricopeptide repeat
    1.5e-08   34.1  23.5    0.00025   20.9   1.7    5.7  5  TPR_2        Tetratricopeptide repeat
    2.6e-08   33.8   0.2    8.9e-07   28.9   0.0    2.5  2  Trans_reg_C  Transcriptional regulatory protein, C terminal
    3.3e-08   33.3   0.0    0.00057   19.4   0.0    2.2  2  TPR_MalT     MalT-like TPR region
    7.7e-07   28.8  24.9      5e-06   26.3   1.4    5.6  5  TPR_8        Tetratricopeptide repeat
    7.9e-07   28.6  27.3    0.00069   19.3   3.1    5.5  5  TPR_1        Tetratricopeptide repeat
    0.00026   21.6   7.6        1.4    9.7   0.1    4.5  3  TPR_16       Tetratricopeptide repeat
    0.00027   21.5   3.8       0.94   10.5   0.2    4.3  4  TPR_14       Tetratricopeptide repeat
    0.00072   19.4   8.8       0.26   11.4   0.3    4.6  5  TPR_7        Tetratricopeptide repeat
     0.0011   18.7   6.8        0.4   10.4   0.1    3.3  2  RPN7         26S proteasome subunit RPN7
     0.0022   18.0   0.1      0.034   14.2   0.1    2.3  2  DUF3856      Domain of Unknown Function (DUF3856)
     0.0027   17.3   4.4      0.055   13.0   1.8    2.9  3  ComR_TPR     ComR tetratricopeptide
     0.0039   17.7   4.8        9.6    6.8   0.0    4.3  4  TPR_19       Tetratricopeptide repeat
     0.0042   17.4   7.0        1.2    9.7   0.0    4.7  5  TPR_17       Tetratricopeptide repeat
     0.0084   15.6   3.2     0.0084   15.6   3.2    1.9  2  SNAP         Soluble NSF attachment protein, SNAP
  ------ inclusion threshold ------
      0.054   11.4   0.4      0.079   10.9   0.4    1.1  1  Med16        Mediator complex subunit 16
       0.17   11.8   8.8          2    8.4   0.1    4.6  5  TPR_10       Tetratricopeptide repeat
       0.17   11.4   8.3       0.77    9.2   4.6    2.8  3  SPO22        Meiosis protein SPO22/ZIP4 like
       0.42   11.3  14.4        1.5    9.6   1.7    5.2  5  TPR_6        Tetratricopeptide repeat
       0.69   10.0  14.8         18    5.5   0.1    4.0  3  TPR_3        Tetratricopeptide repeat
          7    6.4  10.6         32    4.3   0.6    4.1  5  TPR_11       TPR repeat


Domain annotation for each model (and alignments):
>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.1   1.5e-05     0.013      45      75 ..      40      70 ..      27     110 .. 0.69
   2 !   20.4   0.1   5.3e-07   0.00045       6      70 ..     125     187 ..     120     193 .. 0.93
   3 !    9.9   0.6     0.001      0.88       4      68 ..     203     265 ..     200     272 .. 0.90

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 1.5e-05
                   TPR_12 45 attlrnLgrlyralgryeeAlelleealaia 75
                              ++++ Lg ly+   ++++A+e++ +al  a
  PHY93_11835|PHY93_11835 40 GRSYYQLGKLYYDKADLDKAEEAFLKALSYA 70
                             4556666666665556666666666665443 PP

  == domain 2  score: 20.4 bits;  conditional E-value: 5.3e-07
                   TPR_12   6 lnnlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlellee 70 
                               +nl++v ++ g+++ A +++e a+   ++  +p+   ++ +l  L++  ++++++e Al++l +
  PHY93_11835|PHY93_11835 125 FYNLGVVKNYGGNFEAAKSNFELAYKKSSEENEPEL--LSKCLLSLATNAFYRKDFELALRYLDQ 187
                              56**************************99988886..************************987 PP

  == domain 3  score: 9.9 bits;  conditional E-value: 0.001
                   TPR_12   4 talnnlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlell 68 
                              +++n +a +  +l + ++Al +++ a e  ++   + + l+  +l++ ++++ ++g++++Al+++
  PHY93_11835|PHY93_11835 203 AMYNYYAKIFIELNENEKALNYYKLANEYLQSK--KCWNLYGYILFGKATALKKSGNFDDALNMF 265
                              5787799999999*************9999888..6699***********************997 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.9   1.7   2.9e-07   0.00025       3      31 ..      42      70 ..      40      72 .. 0.93
   2 ?    4.1   0.1     0.073        63       2      30 ..     123     151 ..     122     154 .. 0.85
   3 ?    6.2   0.2     0.015        13       3      26 ..     164     187 ..     162     192 .. 0.87
   4 ?    4.5   3.7     0.055        47       4      27 ..     205     228 ..     203     233 .. 0.91
   5 !    8.9   0.0    0.0021       1.8       3      27 ..     244     268 ..     242     271 .. 0.88

  Alignments for each domain:
  == domain 1  score: 20.9 bits;  conditional E-value: 2.9e-07
                    TPR_2  3 alynlGlayyklgdyeeAleafekAleld 31
                              +y+lG++yy + d+++A+eaf kAl+++
  PHY93_11835|PHY93_11835 42 SYYQLGKLYYDKADLDKAEEAFLKALSYA 70
                             69************************976 PP

  == domain 2  score: 4.1 bits;  conditional E-value: 0.073
                    TPR_2   2 ealynlGlayyklgdyeeAleafekAlel 30 
                              e  ynlG +  + g++e A+  fe A + 
  PHY93_11835|PHY93_11835 123 EFFYNLGVVKNYGGNFEAAKSNFELAYKK 151
                              5678888888899***********99875 PP

  == domain 3  score: 6.2 bits;  conditional E-value: 0.015
                    TPR_2   3 alynlGlayyklgdyeeAleafek 26 
                              +l  l+  +++++d+e Al+++++
  PHY93_11835|PHY93_11835 164 CLLSLATNAFYRKDFELALRYLDQ 187
                              67779999*************998 PP

  == domain 4  score: 4.5 bits;  conditional E-value: 0.055
                    TPR_2   4 lynlGlayyklgdyeeAleafekA 27 
                              +++ +++ ++l++ e+Al++++ A
  PHY93_11835|PHY93_11835 205 YNYYAKIFIELNENEKALNYYKLA 228
                              7999*****************977 PP

  == domain 5  score: 8.9 bits;  conditional E-value: 0.0021
                    TPR_2   3 alynlGlayyklgdyeeAleafekA 27 
                              +l+  + a+ k+g++++Al+ f  A
  PHY93_11835|PHY93_11835 244 ILFGKATALKKSGNFDDALNMFHLA 268
                              78999**************998766 PP

>> Trans_reg_C  Transcriptional regulatory protein, C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.1      0.24   2.1e+02      37      59 ..     286     309 ..     267     316 .. 0.80
   2 !   28.9   0.0     1e-09   8.9e-07      12      67 ..     325     384 ..     323     393 .. 0.85

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.24
                              TTS.TSHTHHHHHHHHHHHHHHHT CS
              Trans_reg_C  37 ede.dvddrtvdvhisrLRkkLed 59 
                               +  dv+d+tvd +  r+ +k+ +
  PHY93_11835|PHY93_11835 286 AEIdDVNDSTVDLYLDRTNRKIVE 309
                              333499***********9999866 PP

  == domain 2  score: 28.9 bits;  conditional E-value: 1e-09
                              HHHHHHHHTTTSEEEHHHHHHHHTTTTS..TSHTHHHHHHHHHHHHHHHTTTTSS..SSE CS
              Trans_reg_C  12 klLelLlenpgrvvsreeLleevwgede..dvddrtvdvhisrLRkkLeddekkp..rlI 67 
                              ++L lL +n+g  + +e+L + +w++++   + d+ + + +srLRk +e++ +++  ++I
  PHY93_11835|PHY93_11835 325 EILFLLSKNSGTYFDKEQLAKMIWKDEYnpLIHDKLIYTSVSRLRKLIEPTDSDSkrKYI 384
                              7999************************9999******************9666622444 PP

>> TPR_MalT  MalT-like TPR region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.4   0.0   6.6e-07   0.00057     125     192 ..      43     111 ..      36     119 .. 0.90
   2 !   11.6   0.0   0.00015      0.13      44     155 ..     126     235 ..     119     279 .. 0.86

  Alignments for each domain:
  == domain 1  score: 19.4 bits;  conditional E-value: 6.6e-07
                 TPR_MalT 125 lvlladllyEwndLeeAeqhlqeGielleql.epeaaldayvllarialaqGdleeAetllekaeelar 192
                              + +l++l+y++ dL++Ae++ ++++ ++e   +   +l+ y +l+r+a  + +  +A++++ + e+l++
  PHY93_11835|PHY93_11835  43 YYQLGKLYYDKADLDKAEEAFLKALSYAEPIrDGFSILKTYGFLIRLASEKLEDAKAQKYILESEKLMD 111
                              7789**************************95669***********99999999999999999988876 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 0.00015
                 TPR_MalT  44 avlGeasllqGdleaAlqalqeaeklarqadslhvallallqqaeilvaqGrLheAletyeqalqlateqglqqlplvgfllvlla 129
                              ++lG +  + G++eaA + ++ a+k + +++ +      ll++a  ++ + +++ Al+   q   l +  +  ++ l+g ++ ++a
  PHY93_11835|PHY93_11835 126 YNLGVVKNYGGNFEAAKSNFELAYKKSSEENEPELLSKCLLSLATNAFYRKDFELALRYLDQLNDLLKIIK--KFYLSGAMYNYYA 209
                              68999999**************************9999999*********************999998765..678********** PP

                 TPR_MalT 130 dllyEwndLeeAeqhlqeGielleql 155
                              ++++E n+ e+A ++ + + e+l++ 
  PHY93_11835|PHY93_11835 210 KIFIELNENEKALNYYKLANEYLQSK 235
                              *****************999998875 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.3   1.4   5.9e-09     5e-06       2      31 ..      41      70 ..      40      72 .. 0.95
   2 !    8.6   0.1    0.0028       2.4       2      28 ..     123     149 ..     122     150 .. 0.91
   3 ?   -1.8   0.1       5.9   5.1e+03      12      26 ..     173     187 ..     163     191 .. 0.70
   4 ?    4.1   3.6     0.077        66       7      28 ..     208     229 ..     203     231 .. 0.85
   5 ?    1.8   0.1      0.42   3.6e+02       3      24 ..     244     265 ..     237     271 .. 0.84

  Alignments for each domain:
  == domain 1  score: 26.3 bits;  conditional E-value: 5.9e-09
                             CHHHHHHHHHHHTT-HHHHHHHHHHHHHHH CS
                    TPR_8  2 eayynlgsiylklgdyeeAkeyyekaleld 31
                             ++yy+lg++y ++ d+++A+e++ kal+++
  PHY93_11835|PHY93_11835 41 RSYYQLGKLYYDKADLDKAEEAFLKALSYA 70
                             79*************************987 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0028
                              CHHHHHHHHHHHTT-HHHHHHHHHHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeAkeyyekal 28 
                              e  ynlg +    g++e+Ak+ +e a 
  PHY93_11835|PHY93_11835 123 EFFYNLGVVKNYGGNFEAAKSNFELAY 149
                              678*********************996 PP

  == domain 3  score: -1.8 bits;  conditional E-value: 5.9
                              HHTT-HHHHHHHHHH CS
                    TPR_8  12 lklgdyeeAkeyyek 26 
                              +  +d+e A  y+ +
  PHY93_11835|PHY93_11835 173 FYRKDFELALRYLDQ 187
                              556788888888776 PP

  == domain 4  score: 4.1 bits;  conditional E-value: 0.077
                              HHHHHHHTT-HHHHHHHHHHHH CS
                    TPR_8   7 lgsiylklgdyeeAkeyyekal 28 
                               ++i ++l++ e+A  yy+ a 
  PHY93_11835|PHY93_11835 208 YAKIFIELNENEKALNYYKLAN 229
                              799****************985 PP

  == domain 5  score: 1.8 bits;  conditional E-value: 0.42
                              HHHHHHHHHHHTT-HHHHHHHH CS
                    TPR_8   3 ayynlgsiylklgdyeeAkeyy 24 
                              +++ ++ +++k g+++ A   +
  PHY93_11835|PHY93_11835 244 ILFGKATALKKSGNFDDALNMF 265
                              567889999999*999998766 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.3   3.1     8e-07   0.00069       2      29 ..      41      68 ..      40      71 .. 0.94
   2 !    6.8   0.3    0.0073       6.2       2      27 ..     123     148 ..     122     151 .. 0.89
   3 ?    3.2   0.1       0.1        88       3      25 ..     164     186 ..     162     187 .. 0.82
   4 ?    2.8   2.5      0.13   1.2e+02       9      27 ..     210     228 ..     205     235 .. 0.88
   5 !   10.6   0.1   0.00047       0.4       3      27 ..     244     268 ..     242     270 .. 0.88

  Alignments for each domain:
  == domain 1  score: 19.3 bits;  conditional E-value: 8e-07
                             HHHHHHHHHHHHTT-HHHHHHHHHHHHH CS
                    TPR_1  2 kalynlGnayfklgkydeAleyyekALe 29
                             +++y+lG +y+ + ++d+A+e++ kAL+
  PHY93_11835|PHY93_11835 41 RSYYQLGKLYYDKADLDKAEEAFLKALS 68
                             58************************97 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.0073
                              HHHHHHHHHHHHTT-HHHHHHHHHHH CS
                    TPR_1   2 kalynlGnayfklgkydeAleyyekA 27 
                              + +ynlG++  + g+++ A   +e A
  PHY93_11835|PHY93_11835 123 EFFYNLGVVKNYGGNFEAAKSNFELA 148
                              568****************9999866 PP

  == domain 3  score: 3.2 bits;  conditional E-value: 0.1
                              HHHHHHHHHHHTT-HHHHHHHHH CS
                    TPR_1   3 alynlGnayfklgkydeAleyye 25 
                              +l  l+   f+ ++++ Al y +
  PHY93_11835|PHY93_11835 164 CLLSLATNAFYRKDFELALRYLD 186
                              67778888899*********987 PP

  == domain 4  score: 2.8 bits;  conditional E-value: 0.13
                              HHHHHTT-HHHHHHHHHHH CS
                    TPR_1   9 nayfklgkydeAleyyekA 27 
                               ++ +l++ ++Al yy+ A
  PHY93_11835|PHY93_11835 210 KIFIELNENEKALNYYKLA 228
                              67889999********965 PP

  == domain 5  score: 10.6 bits;  conditional E-value: 0.00047
                              HHHHHHHHHHHTT-HHHHHHHHHHH CS
                    TPR_1   3 alynlGnayfklgkydeAleyyekA 27 
                              +l++++ a+ k g++d+Al  +  A
  PHY93_11835|PHY93_11835 244 ILFGKATALKKSGNFDDALNMFHLA 268
                              6899***************999866 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.7   0.1    0.0016       1.4      34      61 ..      40      67 ..      35      72 .. 0.73
   2 ?    6.1   0.8      0.02        17       1      23 [.     166     188 ..     166     230 .. 0.72
   3 ?    6.3   0.0     0.017        15       3      21 ..     248     266 ..     246     271 .. 0.88

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.0016
                   TPR_16 34 aeAllllgdaalrqgrlaeAaalyraal 61
                              ++++ lg +++ + +l++A++++++al
  PHY93_11835|PHY93_11835 40 GRSYYQLGKLYYDKADLDKAEEAFLKAL 67
                             5678888888888888888887777765 PP

  == domain 2  score: 6.1 bits;  conditional E-value: 0.02
                   TPR_16   1 lalaraalragdyddAaaaleaa 23 
                              l la+ a++++d++ A+++l+++
  PHY93_11835|PHY93_11835 166 LSLATNAFYRKDFELALRYLDQL 188
                              5799***************9986 PP

  == domain 3  score: 6.3 bits;  conditional E-value: 0.017
                   TPR_16   3 laraalragdyddAaaale 21 
                              +a+a+ ++g++ddA+++++
  PHY93_11835|PHY93_11835 248 KATALKKSGNFDDALNMFH 266
                              7999************996 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.5   0.2    0.0011      0.94       4      29 ..      43      68 ..      41      76 .. 0.91
   2 ?   -1.2   0.1       6.4   5.4e+03      11      26 ..     172     187 ..     163     191 .. 0.72
   3 ?    2.2   0.0      0.49   4.2e+02       5      27 ..     206     228 ..     203     242 .. 0.87
   4 ?    6.1   0.0     0.028        24       8      27 ..     249     268 ..     245     273 .. 0.88

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.0011
                   TPR_14  4 llalaeallalGdpdeAiallrrala 29
                             +++l+++++   d+d+A++++ +al+
  PHY93_11835|PHY93_11835 43 YYQLGKLYYDKADLDKAEEAFLKALS 68
                             89**********************98 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 6.4
                   TPR_14  11 llalGdpdeAiallrr 26 
                               + + d++ A+++l++
  PHY93_11835|PHY93_11835 172 AFYRKDFELALRYLDQ 187
                              5567899999999987 PP

  == domain 3  score: 2.2 bits;  conditional E-value: 0.49
                   TPR_14   5 lalaeallalGdpdeAiallrra 27 
                                +a+++ +l + ++A+++++ a
  PHY93_11835|PHY93_11835 206 NYYAKIFIELNENEKALNYYKLA 228
                              5799***************9865 PP

  == domain 4  score: 6.1 bits;  conditional E-value: 0.028
                   TPR_14   8 aeallalGdpdeAiallrra 27 
                              a al  +G++d+A+++++ a
  PHY93_11835|PHY93_11835 249 ATALKKSGNFDDALNMFHLA 268
                              77999***********9865 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.4   0.3    0.0003      0.26       1      33 [.      42      72 ..      42      75 .. 0.90
   2 ?   -1.5   0.0       3.9   3.3e+03       3      27 ..     126     148 ..     125     158 .. 0.73
   3 ?   -1.6   0.1       4.3   3.6e+03      13      24 ..     176     187 ..     164     192 .. 0.75
   4 !    7.5   0.3    0.0053       4.5       6      27 ..     209     228 ..     205     236 .. 0.83
   5 ?    2.0   0.0      0.32   2.7e+02       6      22 ..     249     265 ..     245     273 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.0003
                    TPR_7  1 aLlnLarlysrlGdyeeAielyeqsLaltkdpe 33
                             ++++L+ ly +  d ++A+e + +  al +++ 
  PHY93_11835|PHY93_11835 42 SYYQLGKLYYDKADLDKAEEAFLK--ALSYAEP 72
                             699*********************..8888776 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 3.9
                    TPR_7   3 lnLarlysrlGdyeeAielyeqsLa 27 
                              +nL+++    G++e A + +e   a
  PHY93_11835|PHY93_11835 126 YNLGVVKNYGGNFEAAKSNFEL--A 148
                              5777777777999999888887..4 PP

  == domain 3  score: -1.6 bits;  conditional E-value: 4.3
                    TPR_7  13 GdyeeAielyeq 24 
                               d+e A++++ q
  PHY93_11835|PHY93_11835 176 KDFELALRYLDQ 187
                              488999999887 PP

  == domain 4  score: 7.5 bits;  conditional E-value: 0.0053
                    TPR_7   6 arlysrlGdyeeAielyeqsLa 27 
                              a ++ +l++ e+A+ +y+   a
  PHY93_11835|PHY93_11835 209 AKIFIELNENEKALNYYKL--A 228
                              8999*************98..5 PP

  == domain 5  score: 2.0 bits;  conditional E-value: 0.32
                    TPR_7   6 arlysrlGdyeeAiely 22 
                              a +  + G++++A+  +
  PHY93_11835|PHY93_11835 249 ATALKKSGNFDDALNMF 265
                              5677899******9987 PP

>> RPN7  26S proteasome subunit RPN7
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.4   0.1   0.00047       0.4      30     104 ..      34     111 ..      21     130 .. 0.79
   2 !    7.9   2.1    0.0026       2.2      37     142 ..     163     271 ..     133     287 .. 0.60

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00047
                              T-HHHHHHHHHHHHHHHHHCT-HHHHHHHHHTCCCC--SHHHHHHHHHH...HHHHHHHTT-HHHHHHHHHHHHCSSS CS
                     RPN7  30 lgkeeirrakldlaehYlkigdleeAlkaysrireyctslkhkidmlln...lirvaiffndwdlvskylekakelle 104
                               ++++i r +++l++ Y++  dl++A +a+ +++ y       +++l +   lir+a +  + ++++ky+ + ++l++
  PHY93_11835|PHY93_11835  34 ITSSDIGRSYYQLGKLYYDKADLDKAEEAFLKALSYAEPIRDGFSILKTygfLIRLASEKLEDAKAQKYILESEKLMD 111
                              57899*****************************99988777666665533367777777777777777766666666 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.0026
                              HHHHHHHHHHHHCT-HHHHHHHHHTCCCC--SHHH...HHHHHHHHHHHHHHTT-HHHHHHHHHHHHCSSS---.HHHHHHHHHHH CS
                     RPN7  37 rakldlaehYlkigdleeAlkaysrireyctslkh...kidmllnlirvaiffndwdlvskylekakellekggdwerknrlkvye 119
                              ++ l la   +   d+e Al+++ ++ + +   k    +  m+    ++ i++n+ +++ +y + a+e+l++ + w     +   +
  PHY93_11835|PHY93_11835 163 KCLLSLATNAFYRKDFELALRYLDQLNDLLKIIKKfylSGAMYNYYAKIFIELNENEKALNYYKLANEYLQSKKCWNLYGYILFGK 248
                              33344444444444444444444444444433333111234455555555555555555555555555555555588888899999 PP

                              HHHHHHTT-HHHHHHHHCTS-GG CS
                     RPN7 120 GlallairkfkeAaellldilst 142
                              ++al + ++f +A + ++ + ++
  PHY93_11835|PHY93_11835 249 ATALKKSGNFDDALNMFHLAQES 271
                              99999999999999999977665 PP

>> DUF3856  Domain of Unknown Function (DUF3856)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.2   0.1     0.023        20      78     134 ..     178     236 ..     160     242 .. 0.81
   2 !   14.2   0.1     4e-05     0.034      75     131 ..     215     273 ..     214     276 .. 0.83

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.023
                              HHHHHHHHHHH--TTSTHHHHHHH.HHHH.HHHHHHHTT-HHHHHHHHHHHHHHHHH-- CS
                  DUF3856  78 adkalryfnrrGeleqdeGklWia.avfs.ravaleelGrkdealkafrmagemiaerk 134
                               + alry+++  +l +   k +++ a+++  a+ + el  +++al++++ a+e ++ +k
  PHY93_11835|PHY93_11835 178 FELALRYLDQLNDLLKIIKKFYLSgAMYNyYAKIFIELNENEKALNYYKLANEYLQSKK 236
                              678999999999999999999987345542478899******************99988 PP

  == domain 2  score: 14.2 bits;  conditional E-value: 4e-05
                              HHHHHHHHHHHHHH--TTSTHH..HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHH CS
                  DUF3856  75 lesadkalryfnrrGeleqdeG..klWiaavfsravaleelGrkdealkafrmagemia 131
                              l+  +kal+y+    e  q +   +l+  ++f +a+al++ G+ d+al++f+ a+e i+
  PHY93_11835|PHY93_11835 215 LNENEKALNYYKLANEYLQSKKcwNLYGYILFGKATALKKSGNFDDALNMFHLAQESID 273
                              5667999999999998766542125677899*************************986 PP

>> ComR_TPR  ComR tetratricopeptide
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   0.1     0.068        58     186     213 ..      49      75 ..      42      81 .. 0.84
   2 !   13.0   1.8   6.4e-05     0.055     124     204 ..     149     228 ..     138     234 .. 0.91
   3 ?   -2.8   0.0       4.4   3.7e+03      79      98 ..     386     405 ..     384     414 .. 0.78

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.068
                              HHHHTS--HHHHHHHHHHHHHHHHHTT- CS
                 ComR_TPR 186 yylkvkkdiekAkelYqkAilfakllgd 213
                               y   k d++kA+e + kA+++a+ + d
  PHY93_11835|PHY93_11835  49 LYY-DKADLDKAEEAFLKALSYAEPIRD 75 
                              454.689****************98887 PP

  == domain 2  score: 13.0 bits;  conditional E-value: 6.4e-05
                              HTTTS-GGGHHHHHHHHHHHHHHHHHTT--TTHHHHHHHHHHHHHHHT--TTHHHHHHHHHHHHHHTS--HHHHHHHHHHH CS
                 ComR_TPR 124 qeesleeedlfllrdvllsaltvllklkeyeklekllkvlnkimektqdfqkkpivlmlewKyylkvkkdiekAkelYqkA 204
                              +++s+ee++  ll + lls++t  +  k++e   ++l++ln++++ +++f     ++ + +K+++   ++ ekA ++Y+ A
  PHY93_11835|PHY93_11835 149 YKKSSEENEPELLSKCLLSLATNAFYRKDFELALRYLDQLNDLLKIIKKFYLSGAMYNYYAKIFI-ELNENEKALNYYKLA 228
                              667888899999*****************************************************.667779999999877 PP

  == domain 3  score: -2.8 bits;  conditional E-value: 4.4
                              HH-SS--HHHHHHHHHHHHH CS
                 ComR_TPR  79 kkkkkyslNDlLiidlYltc 98 
                              + k  y++N l  i++++++
  PHY93_11835|PHY93_11835 386 RGKDGYTFNPLAKIRFHMEV 405
                              66889**********99983 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   0.0     0.069        59      28      51 ..      43      66 ..      35      72 .. 0.84
   2 ?    0.3   0.0       1.2     1e+03       5      37 ..     136     167 ..     135     169 .. 0.86
   3 ?    4.2   0.7     0.072        61       2      49 ..     173     226 ..     172     242 .. 0.75
   4 ?    6.8   0.0     0.011       9.6      24      51 ..     241     268 ..     227     273 .. 0.83

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.069
                   TPR_19 28 rllLAeallalgqldeAealLdal 51
                              ++L ++++   +ld+Ae++  ++
  PHY93_11835|PHY93_11835 43 YYQLGKLYYDKADLDKAEEAFLKA 66
                             6899**************987655 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 1.2
                   TPR_19   5 gdyaeAlalleqalqedpknaearllLAealla 37 
                              g++++A + +e a++++ +  e  l L ++ll+
  PHY93_11835|PHY93_11835 136 GNFEAAKSNFELAYKKSSEENEPEL-LSKCLLS 167
                              8999*********999999888888.8888886 PP

  == domain 3  score: 4.2 bits;  conditional E-value: 0.072
                   TPR_19   2 laegdyaeAlalleq...alqedpk...naearllLAeallalgqldeAealLd 49 
                              ++++d++ Al++l q   +l+   k   +++   ++A++ ++l++ ++A +  +
  PHY93_11835|PHY93_11835 173 FYRKDFELALRYLDQlndLLKIIKKfylSGAMYNYYAKIFIELNENEKALNYYK 226
                              567888889888888555445555576677888899*************87665 PP

  == domain 4  score: 6.8 bits;  conditional E-value: 0.011
                   TPR_19  24 naearllLAeallalgqldeAealLdal 51 
                              +++++ + A al ++g++d+A ++   +
  PHY93_11835|PHY93_11835 241 YGYILFGKATALKKSGNFDDALNMFHLA 268
                              56778889*************9987655 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.7   0.0    0.0013       1.2      14      34 .]      41      61 ..      33      61 .. 0.91
   2 ?   -1.8   0.0       6.3   5.4e+03      13      22 ..     122     131 ..     115     143 .. 0.77
   3 ?    2.2   0.1      0.34   2.9e+02      16      33 ..     205     222 ..     201     223 .. 0.91
   4 ?    0.8   0.2      0.98   8.4e+02       6      25 ..     213     233 ..     212     240 .. 0.76
   5 ?    5.4   0.1     0.032        27       8      33 ..     237     262 ..     230     263 .. 0.79

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.0013
                   TPR_17 14 daynnLAelllknGdlmtArq 34
                              +y++L++l++ + dl++A++
  PHY93_11835|PHY93_11835 41 RSYYQLGKLYYDKADLDKAEE 61
                             69*****************86 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 6.3
                   TPR_17  13 adaynnLAel 22 
                              +++++nL+++
  PHY93_11835|PHY93_11835 122 SEFFYNLGVV 131
                              6889999986 PP

  == domain 3  score: 2.2 bits;  conditional E-value: 0.34
                   TPR_17  16 ynnLAelllknGdlmtAr 33 
                              yn++A+++ ++++ ++A+
  PHY93_11835|PHY93_11835 205 YNYYAKIFIELNENEKAL 222
                              9**********9999985 PP

  == domain 4  score: 0.8 bits;  conditional E-value: 0.98
                   TPR_17   6 leldPn.nadaynnLAelllk 25 
                              +el+ n  a  y+ LA+ +l+
  PHY93_11835|PHY93_11835 213 IELNENeKALNYYKLANEYLQ 233
                              77776645999*****97765 PP

  == domain 5  score: 5.4 bits;  conditional E-value: 0.032
                   TPR_17   8 ldPnnadaynnLAelllknGdlmtAr 33 
                              +   + + ++ +A++l+k G++++A+
  PHY93_11835|PHY93_11835 237 CWNLYGYILFGKATALKKSGNFDDAL 262
                              55556788999999999******995 PP

>> SNAP  Soluble NSF attachment protein, SNAP
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.1      0.94     8e+02     117     143 ..      43      68 ..      36      74 .. 0.74
   2 !   15.6   3.2   9.8e-06    0.0084      50     187 ..     137     273 ..     132     280 .. 0.88

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 0.94
                              HHHHHHHHHHTT--HHHHHHHHHHHHH CS
                     SNAP 117 kkeiaelyekelgdlekAieaYekAae 143
                              + ++++ly ++ +dl+kA ea+ kA  
  PHY93_11835|PHY93_11835  43 YYQLGKLYYDK-ADLDKAEEAFLKALS 68 
                              55677777777.888888888887765 PP

  == domain 2  score: 15.6 bits;  conditional E-value: 9.8e-06
                              -THHHHHHHHHHHHHHHHTT-HHHHHHHHHH.HHHHHHHT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT--HHHH CS
                     SNAP  50 kweeAgeaflkaAecqeklkekdeaanayve.AakcykkvspeeAvealekAieiytekgrfrraAklkkeiaelyekelgdlekA 134
                              ++e+A + f+ a +  ++ +e++  +++++  A++++ +++ e A + l++  +++    +f  ++ +++  a+++ +  ++ ekA
  PHY93_11835|PHY93_11835 137 NFEAAKSNFELAYKKSSEENEPELLSKCLLSlATNAFYRKDFELALRYLDQLNDLLKIIKKFYLSGAMYNYYAKIFIEL-NENEKA 221
                              5666777777777777778888888888765599******************************************955.****** PP

                              HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTTSS CS
                     SNAP 135 ieaYekAaelyeqeeakalankcllkvAelsaelekyekAieiyekvakksle 187
                              +++Y+ A e+ ++ ++  l   +l   A    + +++++A++++  +a++s++
  PHY93_11835|PHY93_11835 222 LNYYKLANEYLQSKKCWNLYGYILFGKATALKKSGNFDDALNMFH-LAQESID 273
                              *******************************************96.6666666 PP

>> Med16  Mediator complex subunit 16
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.4   9.2e-05     0.079     518     592 ..     145     217 ..     142     230 .. 0.89

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 9.2e-05
                    Med16 518 lqlayakndvnsklklsnslvliillskvprlfllkiisalgrihellkklhkdlakllgeskeslnrvfsilnn 592
                              ++lay k + +++ +l ++  l++  +++ r ++  ++++l ++  llk +  + + l g ++++++++f  ln+
  PHY93_11835|PHY93_11835 145 FELAYKKSSEENEPELLSKCLLSLATNAFYRKDFELALRYLDQLNDLLKII--KKFYLSGAMYNYYAKIFIELNE 217
                              689999****************************************99999..6779*************55555 PP

>> TPR_10  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.4   0.1    0.0023         2       3      30 ..      41      68 ..      39      71 .. 0.91
   2 ?   -1.9   0.0         4   3.4e+03       7      28 ..     127     148 ..     126     154 .. 0.82
   3 ?    0.6   0.1      0.69   5.9e+02       4      27 ..     164     187 ..     163     188 .. 0.89
   4 ?   -0.9   0.4         2   1.7e+03       5      26 ..     205     226 ..     203     228 .. 0.76
   5 ?    4.2   0.0     0.049        42       9      26 ..     249     266 ..     249     268 .. 0.88

  Alignments for each domain:
  == domain 1  score: 8.4 bits;  conditional E-value: 0.0023
                   TPR_10  3 sslnNLanalrqrgrydeAealleeala 30
                             +s+  L+ ++++  ++d+Ae+ + +al+
  PHY93_11835|PHY93_11835 41 RSYYQLGKLYYDKADLDKAEEAFLKALS 68
                             58999*********************97 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 4
                   TPR_10   7 NLanalrqrgrydeAealleea 28 
                              NL+++    g++++A   +e a
  PHY93_11835|PHY93_11835 127 NLGVVKNYGGNFEAAKSNFELA 148
                              9999999999999998777665 PP

  == domain 3  score: 0.6 bits;  conditional E-value: 0.69
                   TPR_10   4 slnNLanalrqrgrydeAeallee 27 
                              +l  La   + r++++ A+++l++
  PHY93_11835|PHY93_11835 164 CLLSLATNAFYRKDFELALRYLDQ 187
                              7888999999*********99976 PP

  == domain 4  score: -0.9 bits;  conditional E-value: 2
                   TPR_10   5 lnNLanalrqrgrydeAealle 26 
                              +n  a +  ++++ ++A+++++
  PHY93_11835|PHY93_11835 205 YNYYAKIFIELNENEKALNYYK 226
                              5666667778899999999996 PP

  == domain 5  score: 4.2 bits;  conditional E-value: 0.049
                   TPR_10   9 analrqrgrydeAealle 26 
                              a al + g++d+A+++++
  PHY93_11835|PHY93_11835 249 ATALKKSGNFDDALNMFH 266
                              67999**********986 PP

>> SPO22  Meiosis protein SPO22/ZIP4 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0       2.5   2.2e+03      37      65 ..      41      69 ..      33      76 .. 0.66
   2 ?    9.2   4.6    0.0009      0.77      22     151 ..     108     232 ..      89     238 .. 0.70
   3 ?    2.7   0.0     0.087        74     250     274 ..     244     268 ..     234     270 .. 0.91

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 2.5
                    SPO22 37 rllyniGksllskkkyeeavkWLqraldi 65
                             r +y+ Gk  ++k + ++a   + +al++
  PHY93_11835|PHY93_11835 41 RSYYQLGKLYYDKADLDKAEEAFLKALSY 69
                             66777777777666666665545555555 PP

  == domain 2  score: 9.2 bits;  conditional E-value: 0.0009
                    SPO22  22 enllrldpeeaeeLarllyniGksllskkkyeeavkWLqraldilekqesesksssdlselrlsvlrllarayleldqeesyekal 107
                              + +++l+       ++ +yn G+     +++e+a   ++ a++  +    e    ++  el +++l +la+  +   +++++e al
  PHY93_11835|PHY93_11835 108 KLMDALSRALPTLTSEFFYNLGVVKNYGGNFEAAKSNFELAYKKSS----E----ENEPELLSKCLLSLATNAF---YRKDFELAL 182
                              5555565566666677788888888888888888444444444333....3....3557***************...8******** PP

                    SPO22 108 kavell..qkeygkkehpsllllklkill....kreadeeeieealeemi 151
                              +++++l    +  kk + s+  +++ ++     +++ +  ++++ ++e++
  PHY93_11835|PHY93_11835 183 RYLDQLndLLKIIKKFYLSGAMYNYYAKIfielNENEKALNYYKLANEYL 232
                              ******66445667777777777776666666666666666666666666 PP

  == domain 3  score: 2.7 bits;  conditional E-value: 0.087
                    SPO22 250 LLWnkgekhykaknydeAaewyels 274
                              +L+ k++++ k++n+d+A+++++l+
  PHY93_11835|PHY93_11835 244 ILFGKATALKKSGNFDDALNMFHLA 268
                              79999******************98 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   1.7    0.0018       1.5       2      27 ..      42      67 ..      41      70 .. 0.86
   2 ?    0.8   0.0       1.1   9.7e+02       3      24 ..     125     146 ..     123     152 .. 0.85
   3 ?    2.1   0.2      0.43   3.7e+02       3      26 ..     165     188 ..     163     190 .. 0.75
   4 ?    1.2   0.1      0.87   7.4e+02       6      24 ..     208     226 ..     207     231 .. 0.86
   5 ?    1.8   0.0      0.53   4.5e+02       3      23 ..     245     265 ..     243     270 .. 0.86

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.0018
                             HHHHHHHHHHH.HHHHHHHHHHHHHHH CS
                    TPR_6  2 Alyklalsyrk.lgdtdkAlealerli 27
                             ++y+l+++y+  + d dkA ea+ + +
  PHY93_11835|PHY93_11835 42 SYYQLGKLYYDkA-DLDKAEEAFLKAL 67
                             69********857.********97765 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 1.1
                              HHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   3 lyklalsyrklgdtdkAleale 24 
                              +y+l+     +g+ ++A+  +e
  PHY93_11835|PHY93_11835 125 FYNLGVVKNYGGNFEAAKSNFE 146
                              599999999999*****99887 PP

  == domain 3  score: 2.1 bits;  conditional E-value: 0.43
                              HHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   3 lyklalsyrklgdtdkAlealerl 26 
                              l+ la   +  +d + Al++l++l
  PHY93_11835|PHY93_11835 165 LLSLATNAFYRKDFELALRYLDQL 188
                              566775555555*********998 PP

  == domain 4  score: 1.2 bits;  conditional E-value: 0.87
                              HHHHHHHHHHHHHHHHHHH CS
                    TPR_6   6 lalsyrklgdtdkAleale 24 
                               a+ +++l++ +kAl +++
  PHY93_11835|PHY93_11835 208 YAKIFIELNENEKALNYYK 226
                              688999999******9996 PP

  == domain 5  score: 1.8 bits;  conditional E-value: 0.53
                              HHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   3 lyklalsyrklgdtdkAleal 23 
                              l+  a +++k g+ d+Al ++
  PHY93_11835|PHY93_11835 245 LFGKATALKKSGNFDDALNMF 265
                              889999****77*****9987 PP

>> TPR_3  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   3.6     0.032        28       5      24 ..      44      63 ..      42      69 .. 0.92
   2 ?    5.3   0.4     0.023        20      18      32 ..     219     231 ..     208     235 .. 0.89
   3 ?    5.5   0.1     0.021        18       5      29 ..     241     268 ..     239     269 .. 0.71

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.032
                             HHHHHHHHHTT-HHHHHHH. CS
                    TPR_3  5 ysyAaefynkkkyqeArelf 24
                             y ++  +y+k ++++A+e+f
  PHY93_11835|PHY93_11835 44 YQLGKLYYDKADLDKAEEAF 63
                             789***************95 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.023
                              HHHHHH..HHHHHHH CS
                    TPR_3  18 qeArelfsYallail 32 
                              ++A+++  Y+l++ +
  PHY93_11835|PHY93_11835 219 EKALNY--YKLANEY 231
                              69****..99***98 PP

  == domain 3  score: 5.5 bits;  conditional E-value: 0.021
                              HHH.....HHHHHHTT-HHHHHHH..HHHH CS
                    TPR_3   5 ysy.....AaefynkkkyqeArelfsYall 29 
                              y+y     A ++  ++++++A++ f+  l+
  PHY93_11835|PHY93_11835 241 YGYilfgkATALKKSGNFDDALNMFH--LA 268
                              5555555555555689********77..86 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.1   0.7     0.043        37      30      40 ..      42      52 ..      41      54 .. 0.87
   2 ?    4.3   0.6     0.037        32       1      22 [.      47      68 ..      47      70 .. 0.94
   3 ?   -0.7   0.0       1.4   1.2e+03      29      37 ..     123     131 ..     123     132 .. 0.85
   4 ?    4.1   1.1     0.045        38       2      19 ..     210     227 ..     209     231 .. 0.88
   5 ?   -1.9   0.0       3.3   2.9e+03       4      15 ..     252     263 ..     250     264 .. 0.83

  Alignments for each domain:
  == domain 1  score: 4.1 bits;  conditional E-value: 0.043
                   TPR_11 30 ayynLGlayyk 40
                              yy LG++yy 
  PHY93_11835|PHY93_11835 42 SYYQLGKLYYD 52
                             59*******96 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.037
                   TPR_11  1 GdayyeqGkyeeAieaYkkAlk 22
                             G++yy++ ++++A ea+ kAl 
  PHY93_11835|PHY93_11835 47 GKLYYDKADLDKAEEAFLKALS 68
                             899*****************96 PP

  == domain 3  score: -0.7 bits;  conditional E-value: 1.4
                   TPR_11  29 eayynLGla 37 
                              e++ynLG++
  PHY93_11835|PHY93_11835 123 EFFYNLGVV 131
                              689****87 PP

  == domain 4  score: 4.1 bits;  conditional E-value: 0.045
                   TPR_11   2 dayyeqGkyeeAieaYkk 19 
                              +++ e++++e+A++ Yk 
  PHY93_11835|PHY93_11835 210 KIFIELNENEKALNYYKL 227
                              7999**********9985 PP

  == domain 5  score: -1.9 bits;  conditional E-value: 3.3
                   TPR_11   4 yyeqGkyeeAie 15 
                              + + G++++A++
  PHY93_11835|PHY93_11835 252 LKKSGNFDDALN 263
                              67899****996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (420 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       762  (0.042501); expected 358.6 (0.02)
Passed bias filter:                      476  (0.0265492); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                        22  (0.00122706); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              21  [number of targets reported over threshold]
# CPU time: 0.62u 0.23s 00:00:00.85 Elapsed: 00:00:00.43
# Mc/sec: 2953.39
//
Query:       PHY93_11840|PHY93_11840  [L=138]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.2e-11   44.0   0.0    2.8e-11   43.7   0.0    1.1  1  Acetyltransf_1   Acetyltransferase (GNAT) family
    1.3e-08   34.8   0.0    1.4e-08   34.7   0.0    1.0  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
    6.7e-06   26.4   0.0    1.1e-05   25.7   0.0    1.4  1  Acetyltransf_7   Acetyltransferase (GNAT) domain
     0.0048   16.8   0.0      0.007   16.3   0.0    1.2  1  FR47             FR47-like protein
     0.0091   16.7   0.0       0.01   16.5   0.0    1.1  1  Acetyltransf_3   Acetyltransferase (GNAT) domain


Domain annotation for each model (and alignments):
>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.7   0.0   7.9e-15   2.8e-11       6     112 ..       7     108 ..       3     113 .. 0.86

  Alignments for each domain:
  == domain 1  score: 43.7 bits;  conditional E-value: 7.9e-15
                              HHHHHHTHHHHHHHHHHHHHHHHHSTTCEEEEEEETTEEEEEEEEEEEETTSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHH CS
           Acetyltransf_1   6 ellvesffppnedaseeefeesfsleaegllvaeedgeliGfisllkipdekggvayieslaVspeyrgkGlGsaLlealeerare 91 
                              el +  f+ p++++s e  +     ++  l++ +  + +iGf+ + k        a++  + ++p++r+ Gl ++Ll  ++  +++
  PHY93_11840|PHY93_11840   7 ELDRQFFPTPWGHDSWEKLFLD---HDRLLILLKTQESVIGFCLFDKSVA--DSFAHLLKILIHPQFRNIGLSKKLLGSALLNLEN 87 
                              5666667788999998885555...8888888999999*****8888877..89***************************98999 PP

                              TTESEEEEEEETTEHHHHHHH CS
           Acetyltransf_1  92 egikkivlaveedndaairlY 112
                               g+   +l+veedn aa++lY
  PHY93_11840|PHY93_11840  88 AGCSQFFLEVEEDNYAAQKLY 108
                              9**999*************** PP

>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.7   0.0     4e-12   1.4e-08      19     113 ..      19     122 ..       6     135 .. 0.84

  Alignments for each domain:
  == domain 1  score: 34.7 bits;  conditional E-value: 4e-12
          Acetyltransf_10  19 pealrerieegealllvaeeggkivGvi....elrdgs.....hisllfVdpeyrgqGigkaLleaveeeaekdgikl.eltvnas 94 
                               +++++ + +++ ll++++ +++++G++    +          h+  + ++p++r  G++k+Ll  ++ ++e++g ++  l+v+++
  PHY93_11840|PHY93_11840  19 HDSWEKLFLDHDRLLILLKTQESVIGFClfdkS----VadsfaHLLKILIHPQFRNIGLSKKLLGSALLNLENAGCSQfFLEVEED 100
                              4899999999999***************44444....235557******************************************* PP

          Acetyltransf_10  95 p.yavpfYeklGFkav..geeq 113
                              + +a+++Y +  F+ +  ++++
  PHY93_11840|PHY93_11840 101 NyAAQKLYLSAAFQIIhcKKNF 122
                              *999******999988444444 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.7   0.0   3.1e-09   1.1e-05       8      74 ..      36     113 ..      21     115 .. 0.70

  Alignments for each domain:
  == domain 1  score: 25.7 bits;  conditional E-value: 3.1e-09
                              EEETTEEEEEEEEEEES....TCTEEEEE-GGGTTSSHHHHHHH.H....TTSEEEEEEEEE..THHHHHHHHHHTTE CS
           Acetyltransf_7   8 aeddgkivGfialslld....aeitrlaVdpeyrgkGiGraLle.a....aekgiileqlel..naekaikfYeklGF 74 
                              ++ ++ ++Gf+ +  +     a++ ++ ++p++r+ G+ ++Ll  a    ++ g+  + le+  ++ +a+k+Y +  F
  PHY93_11840|PHY93_11840  36 LKTQESVIGFCLFDKSVadsfAHLLKILIHPQFRNIGLSKKLLGsAllnlENAGCSQFFLEVeeDNYAAQKLYLSAAF 113
                              34447889*99988888988888888****************97444543227776333333323348999**88655 PP

>> FR47  FR47-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0     2e-06     0.007      16      80 ..      51     116 ..      44     122 .. 0.85

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 2e-06
                              EEE-TTSSEEEEEE-GGG-SSSHHHHHHHHHHHHHHHS-.S-EEEEEETT-HHHHHHHHHHT-EEE CS
                     FR47  16 ilrkdggelgalqvlpehrrrGlgsrlvkalakeiaerg.ktvllvvvasNtpsirlyeklGfeki 80 
                               ++  +  l  + ++p++r+ Gl ++l  +   ++ ++g  + +l v ++N ++++ly +  f+ i
  PHY93_11840|PHY93_11840  51 SVADSFAHLLKILIHPQFRNIGLSKKLLGSALLNLENAGcSQFFLEVEEDNYAAQKLYLSAAFQII 116
                              56667789999***************99999999999773678899************99999877 PP

>> Acetyltransf_3  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   2.9e-06      0.01      56     137 ..      32     113 ..       6     114 .. 0.81

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 2.9e-06
           Acetyltransf_3  56 waivlkdtg.viGsvglrdleeedeeaelgymlapsfwgkGyateavralleyafeelglerlvavidkeNeaSirvleklGf 137
                              ++i lk ++ viG++ + +   ++ +  l ++++p+f++ G+ +  + ++l  + e+ g ++++ +++++N a ++++ ++ f
  PHY93_11840|PHY93_11840  32 LLILLKTQEsVIGFCLFDKSVADSFAHLLKILIHPQFRNIGLSKKLLGSALLNL-ENAGCSQFFLEVEEDNYAAQKLYLSAAF 113
                              34444444327****999998888879999*********************999.8999*****************9988766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (138 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       267  (0.0148921); expected 358.6 (0.02)
Passed bias filter:                      223  (0.0124379); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.38
# Mc/sec: 1094.12
//
Query:       PHY93_11845|PHY93_11845  [L=179]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.7e-10   40.5   0.0    4.5e-10   39.8   0.0    1.4  1  DUF150    RimP N-terminal domain
    1.7e-09   37.7   1.7    4.9e-06   26.6   0.2    2.4  2  DUF150_C  RimP C-terminal SH3 domain


Domain annotation for each model (and alignments):
>> DUF150  RimP N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.8   0.0     5e-14   4.5e-10       3      72 ..      19      88 ..      17      89 .. 0.92

  Alignments for each domain:
  == domain 1  score: 39.8 bits;  conditional E-value: 5e-14
                   DUF150  3 epvveslglelvdvelskegrgrvlriyidkdggvtlddcekvSraisalLdvedpieeeYtLEVsSPGl 72
                              +++ +l+le++d+e+s   ++  l i+  k ++  ++dc kv ra ++  + e  + e+ tLEVsSPGl
  PHY93_11845|PHY93_11845 19 SKILSDLDLEMYDLEWSAPSGQLSLFIMNPKTKTALIEDCVKVDRAFTPFIESETWMPENLTLEVSSPGL 88
                             678999************9999888877778888***********************************7 PP

>> DUF150_C  RimP C-terminal SH3 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.1   0.1   7.5e-05      0.68       1      25 [.      92     116 ..      92     117 .. 0.91
   2 !   26.6   0.2   5.5e-10   4.9e-06      28      70 .]     131     169 ..     123     169 .. 0.92

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 7.5e-05
                 DUF150_C   1 LktaedFarflGelVkvklklpveg 25 
                              L+ +e+F+  +G++V+++l  ++++
  PHY93_11845|PHY93_11845  92 LTSHEHFKGVVGQEVTLNLVKKIDE 116
                              7899***************988875 PP

  == domain 2  score: 26.6 bits;  conditional E-value: 5.5e-10
                 DUF150_C  28 kftGkivevdeetitlevdgkkrkkettipladidkArlvpef 70 
                              k++ k++e+++e+i+++++g+     ++ip+ +i+kA+l+++f
  PHY93_11845|PHY93_11845 131 KIKVKLLEAKDESIVFDARGV----QIEIPYTQIKKANLETDF 169
                              77889****************....***************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (179 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       357  (0.0199119); expected 358.6 (0.02)
Passed bias filter:                      292  (0.0162865); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 1383.30
//
Query:       PHY93_11850|PHY93_11850  [L=467]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.8e-29  100.0   4.1    7.6e-27   93.2   0.3    2.6  2  KH_5             NusA-like KH domain
    2.1e-27   95.9   5.6    2.1e-27   95.9   5.6    2.7  3  NusA_N           NusA N-terminal domain
    1.8e-05   24.5   4.0    0.00028   20.7   0.4    3.2  2  KH_2             KH domain
    0.00013   22.3   0.0     0.0004   20.7   0.0    1.9  1  S1               S1 RNA binding domain
  ------ inclusion threshold ------
      0.017   15.7   0.1      0.061   13.9   0.1    2.0  1  HHH_5            Helix-hairpin-helix domain
      0.027   14.3   0.1        3.5    7.5   0.0    2.8  2  KH_1             KH domain
       0.03   14.1   0.0       0.13   12.1   0.0    2.1  3  DNA_pol_lambd_f  Fingers domain of DNA polymerase lambda


Domain annotation for each model (and alignments):
>> KH_5  NusA-like KH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   93.2   0.3     3e-30   7.6e-27       1      68 [.     231     298 ..     231     299 .. 0.98
   2 !    7.6   0.3    0.0016       4.1       6      64 ..     307     362 ..     302     365 .. 0.77

  Alignments for each domain:
  == domain 1  score: 93.2 bits;  conditional E-value: 3e-30
                     KH_5   1 aGertkvaVkshnpnvdpvGaivgkkGsrikavsseLkgekidvvewseDlaefianalsPaevlsVk 68 
                              +G+r+k+aV+ +++++dpvGa+vg+kGsr+++v++eL+gekid+v+w++D++ f+  al+P+e+++++
  PHY93_11850|PHY93_11850 231 PGQRAKIAVYTSEKDIDPVGACVGMKGSRVQNVVNELQGEKIDIVRWNSDIEIFARAALAPSEISNIQ 298
                              79***************************************************************997 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0016
                     KH_5   6 kvaVkshnpnvdpvGaivgkkGsrikavsseLkgekidvvews...eDlaefianalsPaev 64 
                               v+V++++     +  ++g++G++++ +   L g ki ++ ++   e +++ ++n+l+ + v
  PHY93_11850|PHY93_11850 307 DVVVEEDQ-----LSLAIGRRGQNVR-LAAMLTGYKINIISKTklqEKIKKAVENLLQIVSV 362
                              57777777.....9999********8.789999*******8751115688888888876655 PP

>> NusA_N  NusA N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   95.9   5.6   8.2e-31   2.1e-27       1     121 []       6     126 ..       6     126 .. 0.97
   2 ?   -2.9   0.0       3.2   8.2e+03      28      53 ..     139     161 ..     136     202 .. 0.51
   3 ?    0.3   0.2      0.34   8.8e+02      53      78 ..     337     366 ..     265     407 .. 0.66

  Alignments for each domain:
  == domain 1  score: 95.9 bits;  conditional E-value: 8.2e-31
                              .CHCCCCCCCCCS---HHHHHHHHHHHHHHHHHCCT-SSS-EEEEE-TTT--EEEEEEEEEESS-S-TTTEEEHHHHHCCSTT--T CS
                   NusA_N   1 EllealeelakekgiskevviealeeaLakaykknygedenveveidretgeikvyskktVveevedpekeIsleeakkidpkikv 86 
                              El +++e+l k++gi+k vv++a+e+a++ +++k+yg + + e   +  + ei++y++k+Vve+v+dp  eI++++a+ +d+ ++v
  PHY93_11850|PHY93_11850   6 ELGRMIETLGKDRGIDKRVVVKAIEQAFLVTARKKYGIQGEYETRYNDAEDEIEIYQYKNVVENVKDPIIEITINDARTLDEAVEV 91 
                              56789*******************************98889********************************************* PP

                              TBEEEEE----SSCCHCHHHHHHHHHHHHHHHCCH CS
                   NusA_N  87 Gdtveeevtpkdfgriaaqtakqvivqkireaere 121
                              Gd++ + +++ +f r+ +qta+q+i qk+r+aere
  PHY93_11850|PHY93_11850  92 GDQLGIRIENPSFTRVDVQTARQIIFQKVRDAERE 126
                              ********99***********************96 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 3.2
                              HHHHHHCCT-SSS-EEEEE-TTT--E CS
                   NusA_N  28 Lakaykknygedenveveidretgei 53 
                              L++++ ++y+++   +v +d  + + 
  PHY93_11850|PHY93_11850 139 LVTGIARRYERG---NVIVDLGKSDA 161
                              555566666432...33333333332 PP

  == domain 3  score: 0.3 bits;  conditional E-value: 0.34
                              EEEEEEEEEESS....-S-TTTEEEHHHHH CS
                   NusA_N  53 ikvyskktVvee....vedpekeIsleeak 78 
                              i+++sk +  e+    ve+  + +s+++a+
  PHY93_11850|PHY93_11850 337 INIISKTKLQEKikkaVENLLQIVSVSDAR 366
                              444444444432222244444446666665 PP

>> KH_2  KH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.4   0.3     0.027        70      23      55 ..     230     268 ..     207     275 .. 0.74
   2 !   20.7   0.4   1.1e-07   0.00028      13      71 ..     292     350 ..     280     360 .. 0.84

  Alignments for each domain:
  == domain 1  score: 3.4 bits;  conditional E-value: 0.027
                              CS.CEEEEEEEESCH.....HHHHTGGGHHHHHHHHHHH CS
                     KH_2  23 ta.nrviiviresqp.....givIGkgGsnikkigkelr 55 
                              ++ +r++i +++s++     g  +G +Gs+++++  el+
  PHY93_11850|PHY93_11850 230 EPgQRAKIAVYTSEKdidpvGACVGMKGSRVQNVVNELQ 268
                              555888888888887444446699*******99998887 PP

  == domain 2  score: 20.7 bits;  conditional E-value: 1.1e-07
                              ETEEEEEEECCSCEEEEEEEESCHHHHHTGGGHHHHHHHHHHHHHHHHHHTTCEEEEEE CS
                     KH_2  13 agvskveIertanrviiviresqpgivIGkgGsnikkigkelrkdieklegkkVklniv 71 
                               ++s++ ++ +++   +v+ e q  ++IG++G+n++      +++i ++ ++k + +i+
  PHY93_11850|PHY93_11850 292 SEISNIQVDYNNHSMDVVVEEDQLSLAIGRRGQNVRLAAMLTGYKINIISKTKLQEKIK 350
                              46999***9999**********************************9999988665555 PP

>> S1  S1 RNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.7   0.0   1.6e-07    0.0004       1      70 [.     133     194 ..     133     199 .. 0.95

  Alignments for each domain:
  == domain 1  score: 20.7 bits;  conditional E-value: 1.6e-07
                              HSTTTCEEEEEEEEEETTEEEEEETTTEEEEEEGGGSSSSCEESCHHHCEETTEEEEEEEEEEETTTTEE CS
                       S1   1 kpekgevveGeVtsvtkgGafVelgngvegfvpaselsrdarvedpdevlkvGdevkvkvlkvdkdrrri 70 
                              k+++ge v+G+  + ++g+++V+lg + ++ ++++el        p+e +k Gd++ +++ +v +++r++
  PHY93_11850|PHY93_11850 133 KHREGELVTGIARRYERGNVIVDLG-KSDAILSRKELI-------PGENFKTGDRIQAYLSEVVMTNRGP 194
                              799**********************.************.......******************9999865 PP

>> HHH_5  Helix-hairpin-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.1   2.4e-05     0.061       3      38 ..     355     390 ..     353     404 .. 0.91

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 2.4e-05
                              HHHTSTT--HHHHHHHHTTT--SHHHHHHS-HHHHH CS
                    HHH_5   3 eLlsvsGiGpktAlallsaGiesvedlaaadveeLa 38 
                               Ll++  +  ++A  l+ +Gi s+ dlaa+d+e+L+
  PHY93_11850|PHY93_11850 355 NLLQIVSVSDARAQMLVQNGIMSIGDLAALDAETLS 390
                              68888889999***********************97 PP

>> KH_1  KH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.6   0.0     0.022        57      11      40 ..     249     280 ..     239     291 .. 0.86
   2 ?    7.5   0.0    0.0014       3.5       4      40 ..     308     343 ..     305     372 .. 0.73

  Alignments for each domain:
  == domain 1  score: 3.6 bits;  conditional E-value: 0.022
                              HHHHHTGGGHHHHHHHHHH.T-EEEEES.STT CS
                     KH_1  11 vgriIGkgGsnIkeIreet.gakIkvpk.sed 40 
                              vg+ +G +Gs++++  +e  g kI++++ ++d
  PHY93_11850|PHY93_11850 249 VGACVGMKGSRVQNVVNELqGEKIDIVRwNSD 280
                              78999***********9988999999966654 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0014
                              EEEGGGHHHHHHTGGGHHHHHHHHHHT-EEEEESSTT CS
                     KH_1   4 ilvPsslvgriIGkgGsnIkeIreetgakIkvpksed 40 
                              + v  ++ ++ IG++G+n++     tg kI+++ s+ 
  PHY93_11850|PHY93_11850 308 VVVEEDQLSLAIGRRGQNVRLAAMLTGYKINII-SKT 343
                              56777888899************999*****99.332 PP

>> DNA_pol_lambd_f  Fingers domain of DNA polymerase lambda
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.0       3.2   8.2e+03      22      30 ..      82      90 ..      80      96 .. 0.71
   2 ?   -2.6   0.0         2   5.2e+03      12      24 ..     110     122 ..     107     124 .. 0.81
   3 ?   12.1   0.0   5.3e-05      0.13       3      35 ..     356     389 ..     354     395 .. 0.85

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 3.2
          DNA_pol_lambd_f 22 irtledlra 30
                              rtl+++++
  PHY93_11850|PHY93_11850 82 ARTLDEAVE 90
                             699999988 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 2
          DNA_pol_lambd_f  12 ktAkkwyakGirt 24 
                              +tA++ + + +r+
  PHY93_11850|PHY93_11850 110 QTARQIIFQKVRD 122
                              8999999999886 PP

  == domain 3  score: 12.1 bits;  conditional E-value: 5.3e-05
          DNA_pol_lambd_f   3 FtkvyGVGpktAkkwyakGirtledlra.krakL 35 
                              ++++  V  ++A++++++Gi+++ dl a + ++L
  PHY93_11850|PHY93_11850 356 LLQIVSVSDARAQMLVQNGIMSIGDLAAlDAETL 389
                              78999999******************99654555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (467 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       811  (0.045234); expected 358.6 (0.02)
Passed bias filter:                      477  (0.0266049); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.53u 0.22s 00:00:00.75 Elapsed: 00:00:00.36
# Mc/sec: 3865.25
//
Query:       PHY93_11855|PHY93_11855  [L=974]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      2e-36  125.4   5.5      4e-36  124.4   1.0    2.8  2  GTP_EFTU        Elongation factor Tu GTP binding domain
    6.6e-33  113.0   0.2    2.6e-32  111.1   0.2    2.1  1  IF-2            Translation-initiation factor 2
    8.8e-13   48.3   0.2    9.3e-12   45.0   0.1    2.7  2  MMR_HSR1        50S ribosome-binding GTPase
    6.5e-10   38.7   0.4    4.1e-07   29.7   0.1    2.7  2  IF2_N           Translation initiation factor IF-2, N-termina
    9.4e-07   29.1   4.5    0.00065   20.0   0.1    3.7  3  GTP_EFTU_D2     Elongation factor Tu domain 2
    2.3e-06   27.2   0.0    5.1e-06   26.0   0.0    1.5  1  Arf             ADP-ribosylation factor family
      3e-05   23.6   0.0    0.00017   21.1   0.0    2.3  1  FeoB_N          Ferrous iron transport protein B
    0.00042   20.1   0.0     0.0011   18.7   0.0    1.8  1  PduV-EutP       Ethanolamine utilisation - propanediol utilis
      0.002   18.3   1.8     0.0023   18.1   0.0    2.1  2  Roc             Ras of Complex, Roc, domain of DAPkinase
     0.0023   17.0   0.1      0.013   14.5   0.1    2.2  2  MeaB            Methylmalonyl Co-A mutase-associated GTPase M
     0.0058   16.5   0.2      0.023   14.6   0.2    2.1  1  GTP_EFTU_D4     Elongation factor Tu domain 4
     0.0091   15.5   0.0       0.02   14.4   0.0    1.5  1  Transp_inhibit  Transport inhibitor response 1 protein domain
  ------ inclusion threshold ------
      0.073   13.1   0.0       0.24   11.4   0.0    2.0  1  MMR_HSR1_Xtn    C-terminal region of MMR_HSR1 domain
       0.74   10.3   0.0       0.74   10.3   0.0    3.5  2  AAA_23          AAA domain
        3.2    7.8   9.4          8    6.5   0.0    3.9  4  Dynamin_N       Dynamin family


Domain annotation for each model (and alignments):
>> GTP_EFTU  Elongation factor Tu GTP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.2       2.9   3.4e+03     172     172 ..     104     104 ..      28     172 .. 0.53
   2 !  124.4   1.0   3.3e-39     4e-36       6     190 ..     459     616 ..     455     619 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 2.9
                              E CS
                 GTP_EFTU 172 f 172
                               
  PHY93_11855|PHY93_11855 104 Q 104
                              0 PP

  == domain 2  score: 124.4 bits;  conditional E-value: 3.3e-39
                              EEEEESTTSSHHHHHHHHHHHTTSSCHHHHHHHHHSTHCHSHHHHHHTSCSSCEEEEEETTCSSEEEEEEEESSSGGGHHHHHHHH CS
                 GTP_EFTU   6 igiighvDhGKtTLtdrLlyktgaiskkgekaeeervlDtlkeErergiTiksaaisleketkkylinliDtPGHvdFskevirgl 91 
                              ++i+ghvDhGKtTL+d++ +++                   +  ++ giT ++ a s++  + +++++++DtPGH+ F     rg+
  PHY93_11855|PHY93_11855 459 VAIMGHVDHGKTTLLDSIRKAK------------------VASGEAGGITQHIGAYSVQ-VEGEKQVTFLDTPGHAAFAAMRQRGA 525
                              89****************9332..................2334678************.88899********************* PP

                              HT-SEEEEEEETTTBSTHHHHHHHHHHHHTTTEEEEEEESCGSTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTTEEEEEEBTTT CS
                 GTP_EFTU  92 rvlDgavlvvdaveGvepqteevlrlalkegvpiivfiNKmDrlkaelkeiveevkqklsrkeeklekygekgekevpvvfgSalk 177
                               ++D++vlvv+a++Gv+pqt+e ++ + + gvpii+++NKmD+++a+ +++++e+  ++    + +   +e+   +++ v++Salk
  PHY93_11855|PHY93_11855 526 HATDIVVLVVAADDGVMPQTKESIKYCENAGVPIIIAVNKMDKPGANPDNVKRELT-EF----NLM---PEDWGGQTQYVHVSALK 603
                              *******************************************************9.78....233...33333469********* PP

                              TBTHHHHHHHHHH CS
                 GTP_EFTU 178 gegvktllealve 190
                              g g+++llea+  
  PHY93_11855|PHY93_11855 604 GTGIDELLEAILL 616
                              **********975 PP

>> IF-2  Translation-initiation factor 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  111.1   0.2   2.2e-35   2.6e-32       3     105 .]     743     848 ..     741     848 .. 0.93

  Alignments for each domain:
  == domain 1  score: 111.1 bits;  conditional E-value: 2.2e-35
                              CHHHCCCSCS...SCCEEEEEESSHHHHHHHHHHHHCTT.SSTEEEECEEEESSB-HHHHHHHHHSTEEEEEESSSCTHHHHHCCC CS
                     IF-2   3 elfeeikeeg...kelnviikaDvqGsleAlkeaLekleseevkvkvihsgvGaitesDvelasasnaiiigFnvkvskkakklae 85 
                              ++f++ ++eg   k ln+ii++DvqGs eA+k+aLe+l++ ev vkvi  gvG+it+sDv++ ++s +++igFn+++ ++a+k+ae
  PHY93_11855|PHY93_11855 743 DFFANAAKEGeeqKFLNLIIRSDVQGSFEAIKSALETLGNAEVAVKVIAGGVGPITDSDVQMGATSGGFVIGFNMRPVTSARKMAE 828
                              566666655556699*********************************************************************** PP

                              CCTSEEEEESSHHHHHHHHH CS
                     IF-2  86 kegvkirlynvIYkliddvk 105
                              ++gv+i++y+vIY+li+dvk
  PHY93_11855|PHY93_11855 829 DKGVDIKNYSVIYELINDVK 848
                              ******************97 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.0       1.1   1.4e+03      24      49 ..     349     373 ..     336     409 .. 0.80
   2 !   45.0   0.1   7.8e-15   9.3e-12       2     114 .]     459     565 ..     458     565 .. 0.86

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 1.1
                              EEESSSTTSSSSEEEEEEEETTEEEE CS
                 MMR_HSR1  24 aivsdkpgtTrdinegrvklkgkeie 49 
                               + +d+ g+T+++++ +vk+++ +++
  PHY93_11855|PHY93_11855 349 MRKKDYLGATQQTEKTEVKESK-RVI 373
                              56689999*****999999544.433 PP

  == domain 2  score: 45.0 bits;  conditional E-value: 7.8e-15
                              EEEEESTTSSHHHHHHHHHTSTEEESSSTTSSSSEEEEEEEETT.EEEEEEECGGCSSHHHHHHHHHHHHHHHHCTSEEEEEEETT CS
                 MMR_HSR1   2 vaivGrpNvGKStLinaltgekaivsdkpgtTrdinegrvklkg.keielvDtpGliegaseekglgkaflaleeadlillvvdas 86 
                              vai+G+   GK+tL+ ++ ++k+  ++  g T++i  + v+++g k+++++DtpG            ++  a+  +d+++lvv a 
  PHY93_11855|PHY93_11855 459 VAIMGHVDHGKTTLLDSIRKAKVASGEAGGITQHIGAYSVQVEGeKQVTFLDTPG-HA----AFAAMRQRGAHA-TDIVVLVVAAD 538
                              89***************************************8888**********.22....233334444333.69******877 PP

                              TTCSHHHHHHHHHHHHHTTSEEEEEEES CS
                 MMR_HSR1  87 eeklkpldeeleelleeakkplilvlnk 114
                               +++ p+ +e  ++ e+a+ p+i+++nk
  PHY93_11855|PHY93_11855 539 -DGVMPQTKESIKYCENAGVPIIIAVNK 565
                              .77999999999**999*********98 PP

>> IF2_N  Translation initiation factor IF-2, N-terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.7   0.1   3.4e-10   4.1e-07       4      48 ..       3      46 ..       2      52 .. 0.91
   2 !    6.3   0.0    0.0068       8.1       7      30 ..     382     404 ..     381     427 .. 0.78

  Alignments for each domain:
  == domain 1  score: 29.7 bits;  conditional E-value: 3.4e-10
                    IF2_N  4 irVyeLAkeLgvkskevikkLfkelGievkshsssLDeetaelia 48
                             + V eLAkeL + + ++++ L k +G+ v +h+  L+++++++ +
  PHY93_11855|PHY93_11855  3 KKVFELAKELEMGPLDLVESL-KTKGFNVRNHMAELSDDDVTKFL 46
                             78*******************.99****************99855 PP

  == domain 2  score: 6.3 bits;  conditional E-value: 0.0068
                    IF2_N   7 yeLAkeLgvkskevikkLfkelGi 30 
                               eLAk+L +k k++++++ + l  
  PHY93_11855|PHY93_11855 382 GELAKKLSLKFKDLVDECLN-LNL 404
                              59**************9977.765 PP

>> GTP_EFTU_D2  Elongation factor Tu domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.4       8.2   9.8e+03      17      32 ..      52      67 ..      50      99 .. 0.63
   2 !    9.0   0.0    0.0015       1.8       1      26 [.     645     668 ..     645     683 .. 0.81
   3 !   20.0   0.1   5.5e-07   0.00065       3      72 ..     881     945 ..     879     947 .. 0.87

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 8.2
                             EEEEEECTCTTSEEEE CS
              GTP_EFTU_D2 17 devrilgndtskkeiv 32
                             d+v+  g d++kk  +
  PHY93_11855|PHY93_11855 52 DKVESAGTDVKKKVVR 67
                             8899977666555322 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.0015
                              EEEEEEEEEESEEETTEEEEEECTCT CS
              GTP_EFTU_D2   1 GtvalgrvysGtlkkGdevrilgndt 26 
                              G +a+  + +Gtl+kGd++++   +t
  PHY93_11855|PHY93_11855 645 GPIATLLIQNGTLHKGDYLVV--GET 668
                              5688999**************..555 PP

  == domain 3  score: 20.0 bits;  conditional E-value: 5.5e-07
                              EEEEEEEESEEETTEEEEEECTCTTSEEEEEEEEEEEEETEEESEEETTSEEEEEEEESSCCSGSSTTCE CS
              GTP_EFTU_D2   3 valgrvysGtlkkGdevrilgndtskkeivtrissletfhededeavaganaGvivaikgledaiivGdt 72 
                              +a+  v++G++  G ++r+l+n++    + ++ ssl +f+ d++e+ +g  +G+ + +  +++ i+ Gd+
  PHY93_11855|PHY93_11855 881 IAGSYVIDGKIAQGCNIRLLRNGK--IMHDGKLSSLKRFKDDVKEVKNGYECGIALEG--YSE-IKSGDI 945
                              67889**************77443..3368***********************99997..999.999997 PP

>> Arf  ADP-ribosylation factor family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.0   0.0   4.3e-09   5.1e-06      19     171 ..     461     614 ..     451     618 .. 0.81

  Alignments for each domain:
  == domain 1  score: 26.0 bits;  conditional E-value: 4.3e-09
                              EEESTTSSHHHHHHHHHHSSCEE...CSSSSSEEEEEEEET.TEEEEEEEE-SSGGGGGGGGGGCTTESEEEEEEETT-CTTHHHH CS
                      Arf  19 llGLDnaGKtTilkklkleelvt...tvPTigfnveeleik.nlkftvwDvGGqeklRplWknYfektdavifvvDsadreRleea 100
                              ++G    GKtT+l  +++ ++++      T++    +++++ + ++t+ D  G+     + ++  ++td v+ vv +ad   + ++
  PHY93_11855|PHY93_11855 461 IMGHVDHGKTTLLDSIRKAKVASgeaGGITQHIGAYSVQVEgEKQVTFLDTPGHAAFAAMRQRGAHATDIVVLVV-AADDGVMPQT 545
                              6677778*********999998854444588888899998614568889********************999988.5677889999 PP

                              HHHHHHHCTSGCCTTSEEEEEEE-TTSTTSS-HHHHHHHTTGGGSS...SSSSEEEEEEBTTTTBTHHHHHHHH CS
                      Arf 101 keeLkalleeeelkevallvlaNKqDlpealseeelrellgleelk...gkrkleiqkcsavkgeglkeglewl 171
                              ke +k      e++ v++++  NK+D p+a   ++++++l+  +l       + + +++sa+kg+g++e le +
  PHY93_11855|PHY93_11855 546 KESIK----YCENAGVPIIIAVNKMDKPGAN-PDNVKRELTEFNLMpedWGGQTQYVHVSALKGTGIDELLEAI 614
                              98876....5699***************986.567777777777774443346678899**********99876 PP

>> FeoB_N  Ferrous iron transport protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.1   0.0   1.4e-07   0.00017       3     156 .]     459     614 ..     457     614 .. 0.79

  Alignments for each domain:
  == domain 1  score: 21.1 bits;  conditional E-value: 1.4e-07
                              EEEEESTTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEETT.EEEEEEE----SSSSSSSHHHHHHHHHHHCTSSSEEEEEEE CS
                   FeoB_N   3 valvGnpnvGkttlfnaltgakqkvgNwpGvtvekkegklklkg.keveivDlPGiYslsayseeekvardflleeepdvvvnvvd 87 
                              va++G  + Gkttl++++ +ak   g   G+t      +++++g k+v+++D PG  ++ a+ +    a+d+++     +vv  +d
  PHY93_11855|PHY93_11855 459 VAIMGHVDHGKTTLLDSIRKAKVASGEAGGITQHIGAYSVQVEGeKQVTFLDTPGHAAFAAMRQRGAHATDIVV-----LVV-AAD 538
                              899*****************************999999999988799************999998888887775.....344.444 PP

                              GGGHHHHHHHHHHHHHTTSSEEEEEETHHHHHHTTEEE-HHHHHHHH.....T..S-EEEEBTTTTBTHHHHHHHH CS
                   FeoB_N  88 atnlernLyLtlqllelgvpvvlalnmideaekkgieidlkkLsekL.....g..vpvvktsakkkegieellkai 156
                                 + ++   +    + gvp+++a+n++d+  ++  ++  +  + +L     g  ++ v++sa k++gi+ell+ai
  PHY93_11855|PHY93_11855 539 DGVMPQTKESIKYCENAGVPIIIAVNKMDKPGANPDNVKRELTEFNLmpedwGgqTQYVHVSALKGTGIDELLEAI 614
                              444555555555677899***********98777666665554444433333444789999999999999999876 PP

>> PduV-EutP  Ethanolamine utilisation - propanediol utilisation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   0.0   9.4e-07    0.0011       4     141 ..     459     614 ..     457     616 .. 0.68

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 9.4e-07
                PduV-EutP   4 illiGkvgsGKttLtqalkg............eelkYkktqai.efsdeviDtPGeylenrklysalivtsaeadvialvqdatee 76 
                              + ++G+v+ GKttL  ++++            +++   + q   e + +++DtPG       +    +  ++ +d+++lv++a++ 
  PHY93_11855|PHY93_11855 459 VAIMGHVDHGKTTLLDSIRKakvasgeaggitQHIGAYSVQVEgEKQVTFLDTPGH----AAFAAMRQRGAHATDIVVLVVAADDG 540
                              568****************9556655555555444433333321333445999995....44555566778899******999986 PP

                PduV-EutP  77 esvf...ppgfasvfnkeviGiitkidlae.deenieaveelLksa.....Gaekifevsavekegieellkyl 141
                                     + ++++    ++i  + k+d++  + +n++   ++++ +     G ++  +vsa++ +gi+ell+ +
  PHY93_11855|PHY93_11855 541 VMPQtkeSIKYCENAGVPIIIAVNKMDKPGaNPDNVKRELTEFNLMpedwgGQTQYVHVSALKGTGIDELLEAI 614
                              655500055666666778888889999974255677766555554344444788889*************8765 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.5       5.5   6.5e+03      20      49 ..      66      95 ..      59     108 .. 0.51
   2 !   18.1   0.0   1.9e-06    0.0023       2     120 .]     459     568 ..     458     568 .. 0.77

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 5.5
                             CT-CCC-EEETTTTEEEEEEECGGSGGCTT CS
                      Roc 20 vedkfsekekstigvdfltkevtkikgven 49
                             v++k+  +e++t+  +++++++++ k++e+
  PHY93_11855|PHY93_11855 66 VRKKVIASESKTVEKKTVSTKAVEKKTIEK 95
                             455555555555555555544444444433 PP

  == domain 2  score: 18.1 bits;  conditional E-value: 1.9e-06
                              EEEESSTTSSHHHHHHCHCT-CCC-EEETTTTEEEEEEECGGSGGCTTBTTTTCEEEEEEEE-SGGCTTTT-HHHHCTSCEEEEEE CS
                      Roc   2 vvlvGdsgvGKtsllkrfvedkfsekekstigvdfltkevtkikgvendkkvkkvklniWDtaGqerfrslhplylreaalailvy 87 
                              v ++G    GKt+ll+++ + k+ + e   i   +   +v +++g        + ++ + Dt G+  f ++++   ++ ++++lv+
  PHY93_11855|PHY93_11855 459 VAIMGHVDHGKTTLLDSIRKAKVASGEAGGITQHIGAYSV-QVEG--------EKQVTFLDTPGHAAFAAMRQRGAHATDIVVLVV 535
                              578999*****************99988777666666654.4444........2357789*************9999999999998 PP

                              EGHHHHCHHHHHHHHHHHCSSS..-EEEEEE-TTT CS
                      Roc  88 dsrssenlkeWlkelkkvagks..pvilvgnkiDl 120
                               +  ++ + +  ke  k+++++  p+i+ +nk+D+
  PHY93_11855|PHY93_11855 536 AA--DDGVMPQTKESIKYCENAgvPIIIAVNKMDK 568
                              65..44455555666666666545899999**995 PP

>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.0      0.73   8.7e+02     202     239 ..     453     490 ..     429     512 .. 0.70
   2 !   14.5   0.1   1.1e-05     0.013     169     233 ..     558     622 ..     482     632 .. 0.76

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 0.73
                              TB--EEEEEBCCCTBSHHHHHHHHHHHHHHHHHTTHHH CS
                     MeaB 202 eWrpkvlktsavegeGidelvdaieehrevlkktGlle 239
                                rp+v+ + +   +G  +l+d i++ + +  ++G ++
  PHY93_11855|PHY93_11855 453 PTRPPVVAIMGHVDHGKTTLLDSIRKAKVASGEAGGIT 490
                              45677777777777777777777777666666666555 PP

  == domain 2  score: 14.5 bits;  conditional E-value: 1.1e-05
                              -SEEEEE---HHHHHHHHHHHHHHHHHCSTTBTTB--EEEEEBCCCTBSHHHHHHHHHHHHHHHH CS
                     MeaB 169 aDiivvnkaDkkeaekaarelraaleleeekekeWrpkvlktsavegeGidelvdaieehrevlk 233
                                ii+vnk Dk++a+  + + +     + +++ + +++ +++sa++g Gidel++ai   +e+l+
  PHY93_11855|PHY93_11855 558 PIIIAVNKMDKPGANPDNVKRELTEFNLMPEDWGGQTQYVHVSALKGTGIDELLEAILLQAEILD 622
                              44899*****99998766555555555566667778999******************88777765 PP

>> GTP_EFTU_D4  Elongation factor Tu domain 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.6   0.2   1.9e-05     0.023      11      85 ..     872     946 ..     866     947 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 1.9e-05
                              EEEETCCCEEEEEEEEEEEEETT-EE.EETTE.EE..EEEEEEEETTEEESEEETT-EEEEEEESS-TTTS--TT-EE CS
              GTP_EFTU_D4  11 vvfrrsdpaivGvevlgGvikpgvkl.ikedGrev..GeilqiqdkgkkleeakaGqevaisiegkivGrqikegdil 85 
                              v ++ +  +i G  v+ G+i  g+++ + ++G+ +  G+++++++ ++ ++e+k+G e +i++eg     +ik gdi+
  PHY93_11855|PHY93_11855 872 VFNIPKAGIIAGSYVIDGKIAQGCNIrLLRNGKIMhdGKLSSLKRFKDDVKEVKNGYECGIALEGYS---EIKSGDIF 946
                              55566677999************99833567865566****************************98...88888875 PP

>> Transp_inhibit  Transport inhibitor response 1 protein domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.0   1.7e-05      0.02      15      28 ..     581     594 ..     578     599 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 1.7e-05
           Transp_inhibit  15 adFnLvPedWGgyv 28 
                               +FnL+PedWGg+ 
  PHY93_11855|PHY93_11855 581 TEFNLMPEDWGGQT 594
                              58**********85 PP

>> MMR_HSR1_Xtn  C-terminal region of MMR_HSR1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0    0.0002      0.24      29     100 ..     525     614 ..     497     620 .. 0.69

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.0002
             MMR_HSR1_Xtn  29 ihnaevliredvtvDdlidviegnrvY.....ipclyvlNKiDl..isleeldelare...........pnsvviSaekelnldeL 96 
                               h  ++++   +  D ++   +++ +Y     +p ++++NK+D+  ++ +++++  +e            ++v +Sa k++++deL
  PHY93_11855|PHY93_11855 525 AHATDIVVLVVAADDGVMPQTKESIKYcenagVPIIIAVNKMDKpgANPDNVKRELTEfnlmpedwggqTQYVHVSALKGTGIDEL 610
                              55555555555555556655566666633333699*********7734433333222245557778887799************** PP

             MMR_HSR1_Xtn  97 keki 100
                              +e+i
  PHY93_11855|PHY93_11855 611 LEAI 614
                              **98 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0   0.00062      0.74      17      40 ..     452     477 ..     441     507 .. 0.83
   2 ?   -2.6   0.9       5.6   6.8e+03     165     176 ..     723     739 ..     703     782 .. 0.34

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00062
                   AAA_23  17 F..skgltlItGpNGaGKTTildAik 40 
                              F   +++++I G+   GKTT+ld i+
  PHY93_11855|PHY93_11855 452 FptRPPVVAIMGHVDHGKTTLLDSIR 477
                              555799******************98 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 5.6
                   AAA_23 165 ledekkllekl.....e 176
                                +e+kll +       
  PHY93_11855|PHY93_11855 723 RIQERKLLAAApekkkV 739
                              12222222221211110 PP

>> Dynamin_N  Dynamin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   3.4       5.4   6.4e+03      34      91 ..     121     172 ..      42     184 .. 0.68
   2 ?   -2.0   0.1       2.7   3.2e+03      64      83 ..     276     295 ..     201     380 .. 0.55
   3 ?    6.5   0.0    0.0067         8       1      33 [.     459     491 ..     459     494 .. 0.86
   4 ?    6.3   0.0    0.0076       9.1      80     148 ..     483     547 ..     476     574 .. 0.75

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 5.4
                              S-EEEEECCT---CCS...SSEEEET-EB--CHHHHHHHHHHHHHHHTSSSS--SS-E CS
                Dynamin_N  34 rplelqlgeeeeaseravkeelkekekkledfsevreeieketekiagankgiskkvi 91 
                              + ++++ +++e++      +e++ +e + +++s++ ee  +++e  +  n+++ ++++
  PHY93_11855|PHY93_11855 121 KATVIRRKTDEKE----TGYEYEGEEVQSSSLSALYEEEAEQEEITE--NEEFEEIPE 172
                              4566666666662....234444445555555555555444444333..444444444 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 2.7
                              -CHHHHHHHHHHHHHHHTSS CS
                Dynamin_N  64 dfsevreeieketekiagan 83 
                               + +v +   +e+ek+ g+ 
  PHY93_11855|PHY93_11855 276 TAPKVGTGTAQEEEKKRGEE 295
                              33333333333333333333 PP

  == domain 3  score: 6.5 bits;  conditional E-value: 0.0067
                              EEEEEBTTTTHHHHHHHHHTS--S---SSS--- CS
                Dynamin_N   1 iavvGsqSsGKSSvlnaLlgedilprgpnptTr 33 
                              +a++G++ +GK+++l+++ ++++   +++ +T+
  PHY93_11855|PHY93_11855 459 VAIMGHVDHGKTTLLDSIRKAKVASGEAGGITQ 491
                              799***************999988777777665 PP

  == domain 4  score: 6.3 bits;  conditional E-value: 0.0076
                              HTSSSS--SS-EEEEEEETTS-SEEEEE---B-SSSGTTSHHHHHHHSTTEEEEEEEETTS-CCC-CHH CS
                Dynamin_N  80 agankgiskkvillkilsllvkgltlvDlPGldsvnkrdqelvkeyikkadiilavtsanhdlsnseal 148
                              +g+  gi++++  ++++   +k++t++D+PG    ++ +    ++ ++  di+++v++a+  ++ + ++
  PHY93_11855|PHY93_11855 483 SGEAGGITQHIGAYSVQVEGEKQVTFLDTPGHAAFAAMR----QRGAHATDIVVLVVAADDGVMPQTKE 547
                              55667788888889999999***********99977766....56667777777777777665555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (974 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1176  (0.0655921); expected 358.6 (0.02)
Passed bias filter:                      488  (0.0272185); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                        16  (0.000892409); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.85u 0.24s 00:00:01.08 Elapsed: 00:00:00.43
# Mc/sec: 6745.25
//
Query:       PHY93_11860|PHY93_11860  [L=118]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      1e-22   80.6   0.0    1.1e-22   80.4   0.0    1.0  1  RBFA      Ribosome-binding factor A


Domain annotation for each model (and alignments):
>> RBFA  Ribosome-binding factor A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   80.4   0.0   6.3e-27   1.1e-22       2     105 .]       9     110 ..       8     110 .. 0.94

  Alignments for each domain:
  == domain 1  score: 80.4 bits;  conditional E-value: 6.3e-27
                              CHHHHHHHHHHHHHHHHHCT-HCCTGHHCEEEEEEESTTSSEEEEEEEESS-HHHHHHHHHHHHHTHHHHHHHHHHHC-SSSG-EE CS
                     RBFA   2 qervaeliqrelseilqeelkdprlgklvtiteVkvsrDlskakVyvsvlgseeekeevlkaLkkaagflrrelakrlklrktPeL 87 
                              +++++e++ +e++++l++ ++d rl+  v+it+V++s+D+ +a V +++++  + + ++ ka++ aag++r+elak l++r++P++
  PHY93_11860|PHY93_11860   9 KAKFEERLLNEINSLLRTGISDGRLQ-RVSITKVEMSPDYGYAVVSWDTFDA-STRGDAKKAIEAAAGRIRSELAKVLDVRHVPSI 92 
                              6799*********************5.*********************9995.467778899************************ PP

                              EEESSSTTTT--XXXXX. CS
                     RBFA  88 kFvlDesleqakeiekll 105
                              +Fv+D+++e++k+i +ll
  PHY93_11860|PHY93_11860  93 SFVYDNQFEEEKKIMDLL 110
                              **************9997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (118 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       580  (0.0323498); expected 358.6 (0.02)
Passed bias filter:                      398  (0.0221987); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.38u 0.22s 00:00:00.60 Elapsed: 00:00:00.37
# Mc/sec: 949.16
//
Query:       PHY93_11865|PHY93_11865  [L=316]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.3e-37  128.6   0.0    3.2e-37  128.2   0.0    1.2  1  TruB_N    TruB family pseudouridylate synthase (N terminal do
  ------ inclusion threshold ------
       0.04   13.9   0.0      0.092   12.8   0.0    1.6  1  TruB-C_2  Pseudouridine synthase II TruB, C-terminal


Domain annotation for each model (and alignments):
>> TruB_N  TruB family pseudouridylate synthase (N terminal domain)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  128.2   0.0   3.6e-41   3.2e-37       4     149 .]      33     184 ..      28     184 .. 0.94

  Alignments for each domain:
  == domain 1  score: 128.2 bits;  conditional E-value: 3.6e-41
                              TT-S-EEESS---TT-EEEEEEEEGGGGGGHHHCT.TS-EEEEEEEEETEEETTSBTTS-EEE-.....--TT--HHHHHHHH.HH CS
                   TruB_N   4 lkakkvGhtGtLDplatGvLvvavgeaTklleyll.eadKeYeatirlgaetdteDaegeilee....ekveklteekleevl.kk 83 
                              +++ k+Gh GtLDp+a+GvL++++  a kl +y++   +K+Y+a   +g +t+t D +  i+e+    +++++ ++e+le+ l +k
  PHY93_11865|PHY93_11865  33 FDFGKIGHFGTLDPFAEGVLLIGIQGAQKLNDYVHrLLPKTYRARGVFGGKTQTGDLTAPIIETkeisDHWKNKSREELEAFLgEK 118
                              4567******************************94467**********************9876677789999999****99789 PP

                              C-EEE---------------------------------EEEEEEEEEEEEEEEEEEEEEESTTTTH CS
                   TruB_N  84 ftGeieqvppmySAvkvnGkrlyelaregeeverkkrkvtiyelelleveepevelevecskGtYi 149
                              f Ge++q+p ++SAvk +Gkrly+ + eg  +e +k k +iy++e+++++ p++++ev++s+GtY+
  PHY93_11865|PHY93_11865 119 FLGEYWQRPHAVSAVKFEGKRLYQHVLEGRIIEKEKVKREIYSFEIIDYQYPYFDFEVTVSSGTYV 184
                              *****************************************************************8 PP

>> TruB-C_2  Pseudouridine synthase II TruB, C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0     1e-05     0.092       3      45 ..     248     298 ..     247     303 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 1e-05
                 TruB-C_2   3 veLseesakrflqGQrvkl.......aaglpaeg.lVRvydeegrFlGvGe 45 
                              ++L+ +++kr lqGQr +l       +++   ++    vy+e+g +lG+G+
  PHY93_11865|PHY93_11865 248 IVLNLAQTKRYLQGQRYPLievekrsNPKPICSEnYYWVYNEDGTLLGLGR 298
                              789999***********888888876444444444**************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (316 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       417  (0.0232584); expected 358.6 (0.02)
Passed bias filter:                      390  (0.0217525); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.24s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 2324.42
//
Query:       PHY93_11870|PHY93_11870  [L=283]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.4e-07   29.3   1.7    1.9e-06   28.3   1.7    1.5  1  Fer4_13   4Fe-4S single cluster domain of Ferredoxin I
  ------ inclusion threshold ------
       0.12   13.1   6.0       0.88   10.4   6.0    2.2  1  Fer4_15   4Fe-4S single cluster domain


Domain annotation for each model (and alignments):
>> Fer4_13  4Fe-4S single cluster domain of Ferredoxin I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.3   1.7   2.1e-10   1.9e-06       4      57 ..     230     280 ..     228     281 .. 0.80

  Alignments for each domain:
  == domain 1  score: 28.3 bits;  conditional E-value: 2.1e-10
                  Fer4_13   4 dtCiacgaCvelaPdvFeeddeggasvvaeq.ptseeekadaeeAadaCPvesIg 57 
                                Ci c+aC  + P+vF+  d    + +  + p ++    +++eAa+aCPve I+
  PHY93_11870|PHY93_11870 230 PGCIVCDACEGIFPEVFDVTDT--TCLIRPGaPLNDG--LRIQEAAEACPVEVIK 280
                              68******************97..4444333155555..59************97 PP

>> Fer4_15  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   6.0   9.8e-05      0.88       8      65 ..     232     280 ..     229     281 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 9.8e-05
                  Fer4_15   8 CigcglCvaeapevfeldedglasvllddgeiaegevpddeeeaaqeAaraCPvdAIr 65 
                              Ci c +C    pevf   +      l+      +   p ++   +qeAa+aCPv++I 
  PHY93_11870|PHY93_11870 232 CIVCDACEGIFPEVFDVTDTT---CLI------RPGAPLNDGLRIQEAAEACPVEVIK 280
                              888999998888888777322...233......35667788889************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (283 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       544  (0.0303419); expected 358.6 (0.02)
Passed bias filter:                      448  (0.0249875); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.37
# Mc/sec: 2269.18
//
Query:       PHY93_11875|PHY93_11875  [L=53]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (53 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       263  (0.014669); expected 358.6 (0.02)
Passed bias filter:                      193  (0.0107647); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.31u 0.19s 00:00:00.50 Elapsed: 00:00:00.32
# Mc/sec: 489.35
//
Query:       PHY93_11880|PHY93_11880  [L=230]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.5e-14   52.9   0.0    6.1e-14   52.5   0.0    1.1  1  Peptidase_M14  Zinc carboxypeptidase
    1.5e-11   43.9   0.0    1.9e-11   43.6   0.0    1.2  1  AstE_AspA      Succinylglutamate desuccinylase / Aspartoacyla
    0.00052   19.5   0.1     0.0007   19.1   0.1    1.2  1  DUF2817        Protein of unknown function (DUF2817)


Domain annotation for each model (and alignments):
>> Peptidase_M14  Zinc carboxypeptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.5   0.0     1e-17   6.1e-14      20     192 ..       7     151 ..       2     181 .. 0.87

  Alignments for each domain:
  == domain 1  score: 52.5 bits;  conditional E-value: 1e-17
                              EEEE-TTS-EEEEEEE-SSTTSTTST-CEEEEEE-SSTT-HHHHHHHHHHHHHHHHHTTTSHHHHHHHHHEEEEEES-STHHHHHH CS
            Peptidase_M14  20 siGkSvegRplkvlkisssateaeegkpvvlidggiHarEwigsalllylleqLlsaYgedeeikellddtdiyilpvlNPDGyey 105
                              + G+Sv+g  +++ k ++++   e + +   i g +H++E+ g +l+++l + L +     +e+     d+ ++i+p +N+DG+++
  PHY93_11880|PHY93_11880   7 TSGTSVKGGIIRAYKSEKKN--PEANTKYNYILGAVHGDEVEGAHLAQELFKWLSE----TDEV-----DMPVIIVPIVNVDGHKL 81 
                              46999999999999988884..55556666788*********************96....4666.....788************** PP

                              HHHT-TTTTST-SBCTTSSSBS--GGGSSSSS.TTSSSSBSSTTSTTBHHSSTT.SHHHHHHHHHHHHTTEEEEEEEEESSSEEEE CS
            Peptidase_M14 106 sstedrlwrknrsnakessceGvDlnRnFpdl.wnsegastspcsetyrgpapfsepetravlefiqkknivlfidlhsysqvily 190
                                         r n +     GvDlnRn p++ w    +s++  ++ + g ap sepe + ++++++k++  + +++hs   vi+y
  PHY93_11880|PHY93_11880  82 KT---------RVNGN-----GVDLNRNLPSNqW----TSEAREAKYFPGVAPLSEPENKYLVSLFEKYPPHFILSFHSWYPVINY 149
                              99.........9****.....*********9977....999999999*************************************99 PP

                              SH CS
            Peptidase_M14 191 py 192
                                
  PHY93_11880|PHY93_11880 150 NG 151
                              75 PP

>> AstE_AspA  Succinylglutamate desuccinylase / Aspartoacylase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.6   0.0   3.2e-15   1.9e-11       5      73 ..      34     102 ..      30     132 .. 0.90

  Alignments for each domain:
  == domain 1  score: 43.6 bits;  conditional E-value: 3.2e-15
                              EEEEE-SSTT-HHHHHHHHHHHHHHHCCC.ESCCEEEEEESSHHHHHCTSSSSSTT-S-CTTTTTCCCCC CS
                AstE_AspA   5 vlisAGvHGnElaGvellrqllkqleead.ilgeitlvplaNppAiaagsRyipidredLNRaFpgrslg 73 
                               +i ++vHG+E++G +l+++l k+l+e d +   +++vp++N+ + + ++R    +  dLNR  p+++  
  PHY93_11880|PHY93_11880  34 NYILGAVHGDEVEGAHLAQELFKWLSETDeVDMPVIIVPIVNVDGHKLKTRVNG-NGVDLNRNLPSNQWT 102
                              59***************************9*********************999.******998887766 PP

>> DUF2817  Protein of unknown function (DUF2817)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.1   1.2e-07    0.0007      68     129 ..      47     109 ..      26     127 .. 0.69

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 1.2e-07
                  DUF2817  68 GSavqvalLrealakllaegvavLlvhalNPyGfahlrrvnedNVDLnRNfl..dfskplpenk 129
                              G+ +  +l++  l+++ + +++v++v  +N  G + + rvn + VDLnRN    + ++++ e k
  PHY93_11880|PHY93_11880  47 GAHLAQELFKW-LSETDEVDMPVIIVPIVNVDGHKLKTRVNGNGVDLNRNLPsnQWTSEAREAK 109
                              33333344443.45578999******************************87433444444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (230 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       312  (0.017402); expected 358.6 (0.02)
Passed bias filter:                      293  (0.0163422); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.35
# Mc/sec: 1941.51
//
Query:       PHY93_05675|PHY93_05675  [L=419]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.5e-74  249.6  26.3    5.4e-74  249.3  26.3    1.1  1  Nramp     Natural resistance-associated macrophage protein
  ------ inclusion threshold ------
        1.1    9.7   3.5       0.66   10.4   0.6    2.2  2  DUF3624   Protein of unknown function (DUF3624)


Domain annotation for each model (and alignments):
>> Nramp  Natural resistance-associated macrophage protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  249.3  26.3   6.1e-78   5.4e-74       1     357 [.      34     392 ..      34     393 .. 0.94

  Alignments for each domain:
  == domain 1  score: 249.3 bits;  conditional E-value: 6.1e-78
                    Nramp   1 iatdlqaGaqfGykLlwvlllstllaillqelsarLGlvTgkglaelirerlpkkvsillwilaelaiiatdlaeviGaAialnll 86 
                              iat++qaGaqfG + lw+ ll+ +l++ +qe +ar+G+vT +gl   +++++pk v +l++i  + aii++  a+++G++++ nll
  PHY93_05675|PHY93_05675  34 IATYSQAGAQFGLATLWTALLTFPLMASIQETCARIGMVTSQGLTGTLKKNYPKSVLYLMVIFSFPAIILNIGADIAGMGAVSNLL 119
                              79************************************************************************************ PP

                    Nramp  87 f.gipllvgvlitavlvllllflekggyrklEaliialvlvialsFiaelflvkpdwgevlkglvvPslpg.keslllavgilGat 170
                              f  i+ +   +++ ++ ll ++     y+kl a+++ l++++ l++++  fl+k+d+  v+k +++P+++  k++l ++v++lG+t
  PHY93_05675|PHY93_05675 120 FpSISAIFFSFTFTLILLLSMI--YLPYQKLAAILKYLCIIL-LVYLIIPFLAKVDFLRVIKYTLIPTIHFnKDFLKILVALLGTT 202
                              *555555544444444444444..899*************99.******************************************* PP

                    Nramp 171 vmphnlflhsslvqerkitidrsekeealkyeriDtiialivaflinlailivaAavly.sggkdvesledaaeaLepllGskaas 255
                              ++p+ +f+++ + +e  ++++   +++ ++ ++iD+ ++++++++++++i++++ +vl+  g ++++++e+aa+aL pl+G k a 
  PHY93_05675|PHY93_05675 203 ISPYLFFWQATMEVEDMKKTQLLVNKKLIHKMEIDVDFGMLFSNIVMFFIILTTGTVLFnGGIHQIDTVEQAAKALGPLAG-KSAY 287
                              **************99977766555579*******************************77777*****************.7*** PP

                    Nramp 256 vlFaigLlaaGlsStitgtlagqyvmegflglrislwlrrlitralafvpalivilligaele.....lvkllvlsqvllslllPf 336
                              +lFa g++++G+++++++  + +y++++ +g++   ++++   +a+af+ ++++ l+ig  ++     ++++l++s+vl ++ +P+
  PHY93_05675|PHY93_05675 288 LLFATGIIGTGFLAIPVLCGSLSYILSETFGWEEGFDKKF--HEAKAFYSVIAISLIIGLLINyigisPIQALIYSAVLYGVTAPV 371
                              ************************************8888..99****************************************** PP

                    Nramp 337 aliplllltsskklMGefkns 357
                              +++++l ++++k++MGef+n+
  PHY93_05675|PHY93_05675 372 IIAIILHIANNKNIMGEFTNT 392
                              *******************97 PP

>> DUF3624  Protein of unknown function (DUF3624)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.6   7.4e-05      0.66      49      75 ..     122     148 ..     115     149 .. 0.93
   2 ?   -3.4   0.1       1.6   1.4e+04      61      71 ..     402     414 ..     396     417 .. 0.40

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 7.4e-05
                  DUF3624  49 sialllaafafsgLLllHlvvlayrkl 75 
                              si+ ++++f+f+++Lll ++ l+y+kl
  PHY93_05675|PHY93_05675 122 SISAIFFSFTFTLILLLSMIYLPYQKL 148
                              9***********************986 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 1.6
                  DUF3624  61 gLLllHl..vvla 71 
                              +LLl+ +  +vl 
  PHY93_05675|PHY93_05675 402 TLLLMSFstIVLF 414
                              2332222224444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (419 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1029  (0.0573931); expected 358.6 (0.02)
Passed bias filter:                      372  (0.0207485); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.36
# Mc/sec: 3531.14
//
Query:       PHY93_11885|PHY93_11885  [L=166]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-21   76.5   0.0    2.1e-21   76.2   0.0    1.1  1  PTPS      6-pyruvoyl tetrahydropterin synthase


Domain annotation for each model (and alignments):
>> PTPS  6-pyruvoyl tetrahydropterin synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.2   0.0   1.2e-25   2.1e-21       3     119 ..      10     161 ..       8     164 .. 0.91

  Alignments for each domain:
  == domain 1  score: 76.2 bits;  conditional E-value: 1.2e-25
                              EEE.EEEEEEE--TTTTGGGGSTEEEEEEEEEEEEEC-..STCTTBSS-HHHHHHHHHHHHHCTTTEEC.CCC-CCHHCCS..... CS
                     PTPS   3 ske.feFdaaHrlrkhegkcrnlHGHnykvevtvegee..ldetgmvvdfgelkealkeileelDhkfl.naddpeleell..... 79 
                              +k+ f+F+++H++  ++g  + lHGHny+v+++  + +    +++mv+df ++k +++e++++lDhk+l   ++p+l         
  PHY93_11885|PHY93_11885  10 YKQyFNFASSHFMLFKNGTREPLHGHNYRVQIKGNALDleNLNDDMVFDFLNIKPIVREVCDSLDHKLLiPRNNPHLHIEErekny 95 
                              55659***************************9888865577899************************99999999876699*** PP

                              ........................--HHHHHHHHHHHHHHHH...GCCCGCEEEEEEEEETTEEEE CS
                     PTPS  80 .......................spTaEnlaklifeelkerl...qekevklskvrvwEtpnswae 119
                                                     +++aE la++++ ++++++    + e k  +v+v Etp+++a 
  PHY93_11885|PHY93_11885  96 ilstrdesffsipqtdvlilpieNTSAERLAAYLAYQIRDKVlekFKFEFKSLEVEVEETPGQAAV 161
                              ******************************************9665667777789999****9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (166 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       559  (0.0311785); expected 358.6 (0.02)
Passed bias filter:                      437  (0.0243739); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.18s 00:00:00.57 Elapsed: 00:00:00.33
# Mc/sec: 1492.01
//
Query:       PHY93_11890|PHY93_11890  [L=217]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.9e-34  117.9   0.0    4.8e-34  117.6   0.0    1.1  1  RNase_H   RNase H
    0.00023   21.0   0.1     0.0026   17.6   0.1    2.3  1  RVT_3     Reverse transcriptase-like


Domain annotation for each model (and alignments):
>> RNase_H  RNase H
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  117.6   0.0   5.4e-38   4.8e-34       4     141 ..      65     213 ..      62     215 .. 0.85

  Alignments for each domain:
  == domain 1  score: 117.6 bits;  conditional E-value: 5.4e-38
                              EEEEEEEEEECTTTCEEEEEEECTT..E..EEEEEECCCCHHHHHHHHHHHHHHHTT..SC..........SEEEEEES-HHHHHH CS
                  RNase_H   4 vvvYtDGsclgnpgeggagavlykegar..nisapleeaqtnnraELsAvieaLkal.ksd..........ekvniytDSkYvvkg 76 
                                +++DG+c+gnpg+g ++ +++  + +   +s+ +  ++tnn++EL+ vi  Lk l + +          + v +y+DSkYv++g
  PHY93_11890|PHY93_11890  65 FAIFADGACRGNPGPGAWATMIQDTKGDviLKSSGVDVPTTNNKMELEGVIRGLKGLiE-KwvdegvsdheSPVFVYSDSKYVTEG 149
                              579*****************8854443334455666699****************7743.336666766668999*********** PP

                              HHCCCHHHHHTTSSSETTSSBHTTHHHHHHHHHCHC.SSEEEEEE-SCCSSSTHHHHHHHHHHHHH CS
                  RNase_H  77 itqwvhrwkknawkttseqkpvknkdlaellkelak.kkkvqlkwvkgHaGvpkgNemaDrlAkea 141
                              i +wv +wk ++wk+++++ +  n  l+++l++l +  +++++ wv+gH+G+p +Nem+Dr+A+ a
  PHY93_11890|PHY93_11890 150 IEKWVIGWKARGWKKADNK-EPENLLLWKELDQLKSsFNHIKFLWVRGHSGHP-QNEMCDRMANLA 213
                              *************999998.67888*********996677************9.********9865 PP

>> RVT_3  Reverse transcriptase-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.1   2.9e-07    0.0026       2      56 ..      69     122 ..      68     213 .. 0.68

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 2.9e-07
                    RVT_3   2 fdgafkkksgaggagvvirdsnGevllagaeklqgkasveeAElqALlrGLqlal 56 
                               dga++ + g g+++  i d +G+v+l ++   +  +++   El++++rGL+   
  PHY93_11890|PHY93_11890  69 ADGACRGNPGPGAWATMIQDTKGDVILKSSGV-DVPTTNNKMELEGVIRGLKGLI 122
                              59****************************99.777788899*********8543 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (217 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       347  (0.0193541); expected 358.6 (0.02)
Passed bias filter:                      319  (0.0177924); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.18s 00:00:00.61 Elapsed: 00:00:00.35
# Mc/sec: 1883.41
//
Query:       PHY93_11895|PHY93_11895  [L=254]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.2e-46  156.4   0.2    9.7e-46  156.2   0.2    1.0  1  Acid_phosphat_B  HAD superfamily, subfamily IIIB (Acid phosph
    1.1e-06   28.7   0.0    2.5e-06   27.5   0.0    1.6  1  Hydrolase_6      Haloacid dehalogenase-like hydrolase
  ------ inclusion threshold ------
      0.036   13.6   0.6        5.5    6.4   0.4    2.2  2  DUF2608          Protein of unknown function (DUF2608)
      0.036   13.9   0.1      0.057   13.2   0.1    1.3  1  DUF4393          Domain of unknown function (DUF4393)
       0.16   11.7   0.0       0.51   10.1   0.0    1.7  2  TPP_enzyme_M     Thiamine pyrophosphate enzyme, central domai


Domain annotation for each model (and alignments):
>> Acid_phosphat_B  HAD superfamily, subfamily IIIB (Acid phosphatase)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  156.2   0.2   2.7e-49   9.7e-46      38     230 .]      35     238 ..       6     238 .. 0.86

  Alignments for each domain:
  == domain 1  score: 156.2 bits;  conditional E-value: 2.7e-49
                              HCCHHHCCHHHCHHHHHHHHHHHHHHCTHHHHT.....TSEEEEEE--BTTTEEHHHHHHHCHHHTCHH-TTHHHHHHHTTGGCCE CS
          Acid_phosphat_B  38 eqvkevtieqyssdskavvdqaynsakeaelka.....dkkdavvfDiDeTvLsnspYqkyqglgkkkfdpekfdewvnkgeakai 118
                               qv    + q s +++a++ qayn a+ + +       ++k+a +fDiDeTvL+ns   ++++++   +d+e+f+ wv+++ a+ai
  PHY93_11895|PHY93_11895  35 YQVGAYLWFQTSGEYRALCYQAYNLARLRLDRDlenkhNRKRALIFDIDETVLDNSFSGAQEIQNQIGWDQENFNLWVKQKAAEAI 120
                              344443599******************999888888999*****************9999999*********************** PP

                              CCHHHHHHHHHHTTEEEEEEEEEECCCHHHHHHHHHHCT-T.TBSCCEEECCSTTC---HHHHHHHHHHHHHHTTEEEEEEEESSG CS
          Acid_phosphat_B 119 pgalelikkvverGvkiffvsgRseeqkaaTvenLkkagfs.sweklilkgkkdkqkksvvsyKeerrqklekkGynivlniGDnl 203
                              pga+e+i+++v+r v+++++s+R   qk+ T+enLk+ g+  ++e+l++ +++         +Keerr ++ kk y++v+++GDnl
  PHY93_11895|PHY93_11895 121 PGAKEFIEYAVSRRVEVIYISNRLAIQKDDTLENLKRLGIPaKKENLYFLNNDW--------SKEERRLEILKK-YDVVMFFGDNL 197
                              ***************************************652667777777554........58**********.*********** PP

                              GGCHC...CHHCTCCC...........CEEEE-TTSSSSCH CS
          Acid_phosphat_B 204 sDlng...akeaearg...........eriiklpNpmYgsl 230
                               D++    +k+ ++r+           e++i+lpNp+Yg++
  PHY93_11895|PHY93_11895 198 GDFHKdwdNKTSDERRalvdshhldfgEKFIVLPNPLYGDW 238
                              ***98665555555559**********************98 PP

>> Hydrolase_6  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.5   0.0     7e-10   2.5e-06      10      63 ..     111     167 ..      78     176 .. 0.81

  Alignments for each domain:
  == domain 1  score: 27.5 bits;  conditional E-value: 7e-10
                              E...ETTEE-TTHHHHHHHHHHTT-EEEEEE---SS-HHHHHHHHHHTT----GGGE CS
              Hydrolase_6  10 w...rgdkaipgaaealnalraagkpvvllTNnsskseeeyakkleklgvditeeqv 63 
                              w   +  +aipga+e++++  ++ ++v++++N+   ++++ ++ l++lg+++++e++
  PHY93_11895|PHY93_11895 111 WvkqKAAEAIPGAKEFIEYAVSRRVEVIYISNRLAIQKDDTLENLKRLGIPAKKENL 167
                              255457789*******************************************99876 PP

>> DUF2608  Protein of unknown function (DUF2608)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.4   0.4    0.0015       5.5      14      32 ..      70      89 ..      63     123 .. 0.60
   2 ?    5.3   0.0    0.0033        12      88     132 ..     124     168 ..     121     200 .. 0.83

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.0015
                  DUF2608 14 ka.dentLvvfDiDdtLlts 32
                             ++ +++  ++fDiD+t l  
  PHY93_11895|PHY93_11895 70 NKhNRKRALIFDIDETVLDN 89
                             444677789*******9853 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.0033
                  DUF2608  88 pslvnnlqnqgttvlaLTarsptlrtatlreLkslgidfskkalt 132
                              +++++ +  +  +v+  + r    ++ tl++Lk+lgi   k++l 
  PHY93_11895|PHY93_11895 124 KEFIEYAVSRRVEVIYISNRLAIQKDDTLENLKRLGIPAKKENLY 168
                              578888889999*************************99888875 PP

>> DUF4393  Domain of unknown function (DUF4393)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.1   1.6e-05     0.057      87     189 ..     113     228 ..      89     230 .. 0.73

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.6e-05
                  DUF4393  87 iklekeeikeskesiknsfsdlhekvvlenpekv..kasldnLerlgLiklsekqklteekvyeelenskiieelkeel....... 163
                               ++ +e i + ke+i +++s   e ++++n+  +   ++l+nL+rlg+  ++e+ ++ +++  +e  + +i+++++ ++       
  PHY93_11895|PHY93_11895 113 KQKAAEAIPGAKEFIEYAVSRRVEVIYISNRLAIqkDDTLENLKRLGIPAKKENLYFLNNDWSKEERRLEILKKYDVVMffgdnlg 198
                              44444567888999999999999999999999888899**********************98788888888888877778877776 PP

                  DUF4393 164 .......kkveqpkkiditkglvklTdFGkeFi 189
                                     +k+ ++++  +     +  dFG++Fi
  PHY93_11895|PHY93_11895 199 dfhkdwdNKTSDERRALVDS---HHLDFGEKFI 228
                              66544443333333333331...1235666665 PP

>> TPP_enzyme_M  Thiamine pyrophosphate enzyme, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0      0.54   1.9e+03     111     134 ..      64      86 ..      37     101 .. 0.54
   2 ?   10.1   0.0   0.00014      0.51      46     131 ..     155     239 ..     148     244 .. 0.74

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.54
                              SSCCCCTTCC--SEEEECTHHHHH CS
             TPP_enzyme_M 111 idpaeigknyqvdlaivgdvketl 134
                               d+   +k++  + a++ d++et+
  PHY93_11895|PHY93_11895  64 LDRDLENKHN-RKRALIFDIDETV 86 
                              4444333333.4455555555443 PP

  == domain 2  score: 10.1 bits;  conditional E-value: 0.00014
                              GGGTTSS-TTSTTEEEESGGGSCHHHHHHHHH-SEEEEES-SSSTCCCTTTTTTTTTT-EEEEEESSCCCCTTCC--S.EEEECTH CS
             TPP_enzyme_M  46 lmgkgvipedhplylgmlglhgskaanealeeaDlvlalGarfddirttgsepefapeakiihididpaeigknyqvd.laivgdv 130
                              l+  g+  +++ ly+   +  + + + e+l++ D+v+++G ++ d+ + + +++  ++++   +d+ + ++g  + v   +++gd 
  PHY93_11895|PHY93_11895 155 LKRLGIPAKKENLYFLNNDWSKEERRLEILKKYDVVMFFGDNLGDF-H-KDWDNKTSDERRALVDSHHLDFGEKFIVLpNPLYGDW 238
                              6667777778888888888888999999*****************4.3.3566555556888888888888877755445666665 PP

                              H CS
             TPP_enzyme_M 131 k 131
                               
  PHY93_11895|PHY93_11895 239 E 239
                              5 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (254 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       599  (0.0334096); expected 358.6 (0.02)
Passed bias filter:                      433  (0.0241508); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.52u 0.20s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 1882.72
//
Query:       PHY93_11900|PHY93_11900  [L=243]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.3e-29  100.7   0.2      2e-28   98.6   0.0    2.0  2  FKBP_C    FKBP-type peptidyl-prolyl cis-trans isomerase
    3.1e-12   47.3   5.6    4.6e-12   46.7   5.6    1.2  1  FKBP_N    Domain amino terminal to FKBP-type peptidyl-prolyl 


Domain annotation for each model (and alignments):
>> FKBP_C  FKBP-type peptidyl-prolyl cis-trans isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.0      0.14   1.3e+03      45      73 ..      57      82 ..      30     116 .. 0.77
   2 !   98.6   0.0   2.2e-32     2e-28       3      94 .]     134     221 ..     132     221 .. 0.97

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.14
                             CHHHHHHHTTSBTT-EEEEEEEGGGTTTT CS
                   FKBP_C 45 ikGfeealegmkvGekrtltippelaYge 73
                             i  +  +l+   +Gek ++    ++aY++
  PHY93_11900|PHY93_11900 57 IDSLAAGLKDAAKGEKQKVD---PMAYQQ 82
                             55667778888888888763...245554 PP

  == domain 2  score: 98.6 bits;  conditional E-value: 2.2e-32
                              CBB-TTCEEEEEEEEEETTSSEEEEHCCHTSEEEEETTSSSSCHHHHHHHTTSBTT-EEEEEEEGGGTTTTTTBCTTTB.TTSEEE CS
                   FKBP_C   3 eeakegdtVtvhykgkledgkvfdssrsrakplefkvGsgqvikGfeealegmkvGekrtltippelaYgekglaggvippnatLv 88 
                              + +ke d+V+vhy+g+l+dg+vfdssr+r+k+++f ++  +vikG+ e+++ mkvG+  ++ ip+elaYg+ g+ +++i +++tLv
  PHY93_11900|PHY93_11900 134 T-PKETDIVKVHYHGTLTDGTVFDSSRERGKEVSFPLN--RVIKGWTEGVQLMKVGGLTKFVIPSELAYGDAGA-PPKIRGGETLV 215
                              4.99*********************************9..7*********************************.88********* PP

                              EEEEEE CS
                   FKBP_C  89 FeveLl 94 
                              FeveLl
  PHY93_11900|PHY93_11900 216 FEVELL 221
                              ****97 PP

>> FKBP_N  Domain amino terminal to FKBP-type peptidyl-prolyl isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.7   5.6   5.2e-16   4.6e-12       2      96 ..      33     125 ..      32     125 .. 0.82

  Alignments for each domain:
  == domain 1  score: 46.7 bits;  conditional E-value: 5.2e-16
                   FKBP_N   2 dkvsYalGlsigqqlkaq.gkeldkdavlaGlkdalkgksk.ltdeeiqevlqalqeklqekqeeeaeknkaegeaFlaenkkkeG 85 
                              +k+ Y++G+++g++l++   ++ ++d ++aGlkda kg+++ +++ + q+ +q + +   +++e+++ + k++g+aFl+++ k eG
  PHY93_11900|PHY93_11900  33 EKTFYSIGTMFGSRLTQLsMSDAEIDSLAAGLKDAAKGEKQkVDPMAYQQKIQDMFK---ARMEKQSVDVKKKGAAFLEKFVK-EG 114
                              7899********99655426779***************8886755566666655555...5555569*************986.6* PP

                   FKBP_N  86 VkttesGLqYk 96 
                               ++t+sG++Yk
  PHY93_11900|PHY93_11900 115 ATKTASGMAYK 125
                              **********8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (243 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       712  (0.0397122); expected 358.6 (0.02)
Passed bias filter:                      515  (0.0287244); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.20s 00:00:00.66 Elapsed: 00:00:00.37
# Mc/sec: 1994.99
//
Query:       PHY93_11905|PHY93_11905  [L=218]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.6e-07   31.4   0.0      2e-07   31.1   0.0    1.2  1  NAD_binding_10  NAD(P)H-binding
    1.3e-05   24.8   0.0    4.5e-05   23.0   0.0    1.8  1  Epimerase       NAD dependent epimerase/dehydratase family
    9.1e-05   22.0   0.0    0.00013   21.5   0.0    1.2  1  HIM1            HIM1
    0.00055   19.2   0.0        0.6    9.2   0.0    2.4  3  NAD_binding_4   Male sterility protein


Domain annotation for each model (and alignments):
>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.1   0.0   4.4e-11     2e-07       1     149 [.       8     157 ..       8     204 .. 0.80

  Alignments for each domain:
  == domain 1  score: 31.1 bits;  conditional E-value: 4.4e-11
                              TTTSHHHHHHHHHHHHC-.T-EEEEEETTHHHCHHHHCTTTCEEEE.--TT-CCHHHHH.HTT-SEEEES---TCC.......... CS
           NAD_binding_10   1 GAtGkvGrllvkellarg.ghevtalvRnpeklaeleaeeglevve.gdvtdvedlaea.lkgadaVvsalggggk.......... 73 
                              G +G vG+ ++k ll++    ++ ++ R++++++   + + ++++  +d++d+ dl+e  ++ +d+ +salg++ k          
  PHY93_11905|PHY93_11905   8 GSSGLVGSFALKNLLSDArIGKIILVSRTSQDIS---NPKIIQIIGsLDLLDTVDLKEYgVDRIDIGISALGSTLKkagnkddfkk 90 
                              899**************98668999999999999...45788998658****9999986367778889999554444444556777 PP

                              .HHHHHHHHHHHHHHCT--EEEEEEETTTTSGCGCHHHHHHHHCCHHHHHHHHHHHHHHHH.SSSEEEEEEE-CEE-S CS
           NAD_binding_10  74 .deegaknivdaakeagvkRfvlvsaigvgdevpgefgewnkellkaylaakraaeellra.sgldwTivrpggLtde 149
                               d++ ++n+++  k+ g k+f ++sa+g++     + + +       y + k ++ee lra    + Ti+rp+ +  e
  PHY93_11905|PHY93_11905  91 iDKDFTVNVAAFSKRFGSKQFAVISALGADS----KSPFF-------YNQVKGEMEEALRAlNFSKLTIIRPSLILGE 157
                              77777*************************5....33333.......3455888999999943345799999977655 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.0   0.0     1e-08   4.5e-05       1     115 [.       4     116 ..       4     188 .. 0.83

  Alignments for each domain:
  == domain 1  score: 23.0 bits;  conditional E-value: 1e-08
                              EEEETTTSHHHHHHHHHHHHCT..SEEEEEES-STTTTCHHCHHC..EEEE--TT-HHHHHHHHHHHT-SEEEE--S---HHHHHH CS
                Epimerase   1 ilVtGatGfiGsalvkallekg..yevigldrlssasntarledl..elveldltdrsalerlfkeeqpdavihlAavggvaasse 82 
                              i+++G +G++Gs  +k+ll+     ++i ++r s++  + +   +   +  ldl+d ++l+++  + ++d+ i +   g+   ++ 
  PHY93_11905|PHY93_11905   4 IILAGSSGLVGSFALKNLLSDAriGKIILVSRTSQDISNPK---IiqIIGSLDLLDTVDLKEYGVD-RIDIGISA--LGSTLKKAG 83 
                              7899****************998656888877755544333...2348889************997.9******9..888888888 PP

                              SHHHHHHHHTHHHHHHHHHHHHHTCTEEEEEEE CS
                Epimerase  83 dpadfieknlqgtlnlleaarkagvkrllflsS 115
                              ++ df +++   t+n++  +++ g k++  +s 
  PHY93_11905|PHY93_11905  84 NKDDFKKIDKDFTVNVAAFSKRFGSKQFAVISA 116
                              888999********************9999886 PP

>> HIM1  HIM1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.0     3e-08   0.00013      45     147 ..      65     162 ..      54     180 .. 0.81

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 3e-08
                     HIM1  45 lsdvetlistLGstsaeekkskvkrkfvdYeLnlklakeFantedKklvivTsfNnkllskvspYfrtKlklEndLktklepklke 130
                              ++ ++  is+LGst +++  +k + k++d + ++++a    +  +K+  ++ ++  +  s ++ Y ++K ++E++L+  l  ++++
  PHY93_11905|PHY93_11905  65 VDRIDIGISALGSTLKKA-GNKDDFKKIDKDFTVNVAAFSKRFGSKQFAVISALGADSKSPFF-YNQVKGEMEEALRA-L--NFSK 145
                              5678888*******9754.44556799999999998865556789**********99888766.9***********85.5..489* PP

                     HIM1 131 LviLRPGPlvGehtkpi 147
                              L+i+RP  ++Ge ++  
  PHY93_11905|PHY93_11905 146 LTIIRPSLILGERKEVR 162
                              ***********998744 PP

>> NAD_binding_4  Male sterility protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.2   0.0   0.00013       0.6       1      35 [.       6      40 ..       6      76 .. 0.81
   2 ?   -1.2   0.0      0.21   9.3e+02      95     136 ..      76     116 ..      54     137 .. 0.73
   3 !    7.6   0.0   0.00041       1.8     175     211 ..     126     159 ..     108     196 .. 0.80

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.00013
                             EE-TTSHHHHHHHHHHHHHS-.T.EEEEEE-SSSHH CS
            NAD_binding_4  1 lTGaTGFLGkvLlekLLrttpev.kiyllvRaksge 35
                             l G++G +G++ l++LL++ + + ki+l+ R++++ 
  PHY93_11905|PHY93_11905  6 LAGSSGLVGSFALKNLLSDAR-IgKIILVSRTSQDI 40
                             67***************9986.88****99998764 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 0.21
                              -SS-S.STTSSEEHHHHHHHHHHHHHHHTSSS--.-EEEEEE CS
            NAD_binding_4  95 aAtvnfdepykellrvNveGtrevlelakklkklkvllhvST 136
                              + t++  ++ ++++++  + t++v  ++k+  ++ ++  +S 
  PHY93_11905|PHY93_11905  76 GSTLKKAGNKDDFKKIDKDFTVNVAAFSKRFGSK-QFAVISA 116
                              5566666666777777777789999999999888.8888885 PP

  == domain 3  score: 7.6 bits;  conditional E-value: 0.00041
                              HHHHHHHHHHHHHHHHHHHH---EEEEEE-EEE--SS CS
            NAD_binding_4 175 tYeqsKalaEklvrearrrsglpvvivRpsiitgesk 211
                               Y+q K + E+ +r+ +     +++i+Rps i+ge k
  PHY93_11905|PHY93_11905 126 FYNQVKGEMEEALRALN---FSKLTIIRPSLILGERK 159
                              69999*********999...45789********9654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (218 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       349  (0.0194657); expected 358.6 (0.02)
Passed bias filter:                      310  (0.0172904); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.40u 0.22s 00:00:00.62 Elapsed: 00:00:00.35
# Mc/sec: 1889.82
//
Query:       PHY93_11910|PHY93_11910  [L=101]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0053   16.6   0.2     0.0073   16.1   0.2    1.2  1  CutA1     CutA1 divalent ion tolerance protein


Domain annotation for each model (and alignments):
>> CutA1  CutA1 divalent ion tolerance protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.2   4.1e-07    0.0073      43      80 ..      58      95 ..      55     101 .] 0.90

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 4.1e-07
                             TEEEEEEEEEEEEEEEGGGHHHHHHHHHHHSSSSS-EE CS
                    CutA1 43 gkieedkEvllliktreekveelekrvkelhpyevpei 80
                             g++e+ +E ++ + ++++ ++e++ ++k++hpye+p+ 
  PHY93_11910|PHY93_11910 58 GELEKVRELKVEMVCEDNVIKEVVLALKKHHPYEMPAY 95
                             8999*******************************965 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (101 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       381  (0.0212505); expected 358.6 (0.02)
Passed bias filter:                      342  (0.0190752); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.19s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 783.57
//
Query:       PHY93_11915|PHY93_11915  [L=210]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      1e-09   38.5   1.5    1.6e-09   37.8   1.5    1.3  1  HSP20     Hsp20/alpha crystallin family
     0.0099   15.9   0.6       0.37   10.7   0.0    2.1  2  Sds3      Sds3-like
  ------ inclusion threshold ------
      0.066   13.6   0.7       0.16   12.4   0.3    1.8  2  Curto_V3  Curtovirus V3 protein
      0.097   13.0   0.2       0.16   12.2   0.2    1.3  1  DUF1400   Alpha/beta hydrolase of unknown function (DUF1400)


Domain annotation for each model (and alignments):
>> HSP20  Hsp20/alpha crystallin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.8   1.5   3.6e-13   1.6e-09       1      99 [.      93     194 ..      93     195 .. 0.87

  Alignments for each domain:
  == domain 1  score: 37.8 bits;  conditional E-value: 3.6e-13
                              E--SSEEEEEEEEE-TT--CCCEEEEEETTEEEEEEE--....---TT----SS---EEEEEE--STTB-TTT-EEEEETTEEEEE CS
                    HSP20   1 dikeeeeefevkldvpglkkeelkvkvednrvlvkgehe..eeeedekglikerssrkFsrkftLPenvdadkvkaslkdGvLtvt 84 
                              d++e++++  + l+v+++k + l++k+e++++  kg  e  +  +++   +k  ++ +F+r+f++P++vd+ + + + k G L ++
  PHY93_11915|PHY93_11915  93 DWRETPTHQVFVLKVKQVKDKPLDIKIEKGQIKLKGDVEsvDIASTKSSKSKRTTKVHFERTFSIPDGVDQGNPDFENKAGELLIK 178
                              68999999*******************************985555555556666889***************************** PP

                              EEBSS--...------ CS
                    HSP20  85 vpkkepekk.kkerki 99 
                               +k ++ k  +k ++i
  PHY93_11915|PHY93_11915 179 FKKLKTSKVpSKIKSI 194
                              ***9998664555555 PP

>> Sds3  Sds3-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   0.2     0.012        54      36      59 ..      28      51 ..      23      74 .. 0.74
   2 !   10.7   0.0   8.3e-05      0.37      74     133 ..      91     181 ..      87     208 .. 0.70

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.012
                     Sds3 36 qGthpellrklrdleeerDaeLkr 59
                              G+ +e +r++++l++ r++ Lk 
  PHY93_11915|PHY93_11915 28 TGQEQEVQRQINELMKAREEMLKS 51
                             566666666666666666666665 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 8.3e-05
                     Sds3  74 efkadiekakqeheklvkllkeklye.elekkikrLkeeklllDlananslkktrshta.........g................. 132
                              e++++++ ++q +  +vk++k+k ++ ++ek   +Lk + + +D+a+++s k++r++++         +                 
  PHY93_11915|PHY93_11915  91 EYDWRETPTHQVFVLKVKQVKDKPLDiKIEKGQIKLKGDVESVDIASTKSSKSKRTTKVhfertfsipDgvdqgnpdfenkagell 176
                              89999999***************88769**********************966666666676655444155434444444444444 PP

                     Sds3 133 ....l 133
                                  +
  PHY93_11915|PHY93_11915 177 ikfkK 181
                              44442 PP

>> Curto_V3  Curtovirus V3 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.3   3.6e-05      0.16       6      47 ..       7      48 ..       2      54 .. 0.86
   2 ?   -1.9   0.0      0.99   4.4e+03      31      45 ..     133     147 ..     119     163 .. 0.50

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 3.6e-05
                 Curto_V3  6 dwlfllfvfsillqsginfygtfqserisaklsslasridel 47
                               +fllf f+il+ s   f  t q +++ +++  l    +e+
  PHY93_11915|PHY93_11915  7 KIFFLLFSFAILVSSLSSFAQTGQEQEVQRQINELMKAREEM 48
                             678*****************************9998766665 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 0.99
                 Curto_V3  31 erisaklsslasrid 45 
                                i++  ss + r  
  PHY93_11915|PHY93_11915 133 VDIASTKSSKSKRTT 147
                              444444444433332 PP

>> DUF1400  Alpha/beta hydrolase of unknown function (DUF1400)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.2   3.6e-05      0.16      11      54 ..      12      54 ..       6      65 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 3.6e-05
                  DUF1400 11 plersisvedLekfaktgevsseLatylkllskeqreelreaLq 54
                              +++ i v++L++fa+tg+ ++  +++ + l k  +e l+++L+
  PHY93_11915|PHY93_11915 12 LFSFAILVSSLSSFAQTGQEQEVQRQINE-LMKAREEMLKSLLN 54
                             68899*************97766666666.88888888888887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (210 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1472  (0.0821016); expected 358.6 (0.02)
Passed bias filter:                      987  (0.0550505); expected 358.6 (0.02)
Passed Vit filter:                        93  (0.00518713); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.38
# Mc/sec: 1649.26
//
Query:       PHY93_11920|PHY93_11920  [L=168]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    0.00058   19.8   0.1    0.00087   19.2   0.1    1.2  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
  ------ inclusion threshold ------
      0.016   15.4   0.7      0.018   15.2   0.7    1.1  1  Acetyltransf_4   Acetyltransferase (GNAT) domain
       0.13   12.2   0.1       0.27   11.1   0.1    1.6  1  DUF1869          Domain of unknown function (DUF1869)


Domain annotation for each model (and alignments):
>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.2   0.1   1.5e-07   0.00087      20     113 ..      47     151 ..      25     156 .. 0.82

  Alignments for each domain:
  == domain 1  score: 19.2 bits;  conditional E-value: 1.5e-07
          Acetyltransf_10  20 ealrerieegealllvaeeggkivGvielrdgs........hisllfVdpeyrgqGigkaLleaveeeaekdgikl..eltvnasp 95 
                              + lre  e++++++l+a+ ++++vG+++ r++             lf ++e++ + i k Ll++v++ ++  +  +  ++  nas+
  PHY93_11920|PHY93_11920  47 AYLRESEEASDNFVLGAFLQNSLVGMVGFRRETraavlhkgSTWGLFEKSEFKDNEIEKTLLNEVIKIVRGYDDFEyiRTVQNASN 132
                              567788889********************55554898877667789**********************876655555888899999 PP

          Acetyltransf_10  96 .yavpfYeklGFkavgeeq 113
                               +  +++  lGFk+ g e+
  PHY93_11920|PHY93_11920 133 lEKLNLFFGLGFKQYGHEE 151
                              9*************98775 PP

>> Acetyltransf_4  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.2   0.7     3e-06     0.018      33     154 ..      41     164 ..      12     165 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 3e-06
           Acetyltransf_4  33 sveefekfleal.dsekeyvflvaesdrivGyaylgqfkkr.akdwkaelsvylaerdnnkeglgrelidaleqvl.keqnienll 115
                              s+e++   l +  ++  ++v++++ +  +vG+   +  + r a  +k+ +  ++ +   +++ + + l++ ++++      +e++ 
  PHY93_11920|PHY93_11920  41 SKEQVMAYLRESeEASDNFVLGAFLQNSLVGMVGFR-RETRaAVLHKGSTWGLFEKSEFKDNEIEKTLLNEVIKIVrGYDDFEYIR 125
                              5555555666654467799999999**********9.344449999999999998777889999999*********77779***** PP

           Acetyltransf_4 116 aeiaspnensiqfhkalGFelvgifkkcikkngrwiDmi 154
                              +   ++n ++ +++  lGF+  g +++ + +  +++D++
  PHY93_11920|PHY93_11920 126 TVQNASNLEKLNLFFGLGFKQYGHEERSMRVEEKYFDQV 164
                              *9999********************************85 PP

>> DUF1869  Domain of unknown function (DUF1869)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.1   4.6e-05      0.27      26      50 ..      96     120 ..      92     127 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 4.6e-05
                              CGGC-HHHHHHHHHHHHHHHHHTTS CS
                  DUF1869  26 aeLkdpevaaevvKdLiNivRgYds 50 
                              +e kd+e+    + ++i ivRgYd 
  PHY93_11920|PHY93_11920  96 SEFKDNEIEKTLLNEVIKIVRGYDD 120
                              688999*****************95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (168 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       695  (0.038764); expected 358.6 (0.02)
Passed bias filter:                      483  (0.0269396); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.39
# Mc/sec: 1278.28
//
Query:       PHY93_11925|PHY93_11925  [L=68]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.054   13.6   0.0      0.063   13.4   0.0    1.1  1  Cupredoxin_1  Cupredoxin-like domain


Domain annotation for each model (and alignments):
>> Cupredoxin_1  Cupredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   3.5e-06     0.063      21      66 ..      16      61 ..       5      67 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 3.5e-06
             Cupredoxin_1 21 ktveitvkdggfePskievkagekvklkiknkdktpeefesedlge 66
                             ++ ++ v+++gf+ +++ v +gekv++ +++ +  +++f ++d ++
  PHY93_11925|PHY93_11925 16 REQAVIVSKEGFYRNRLIVFKGEKVRFFVTAVGVDSACFNIPDKNV 61
                             567888999*******************************998665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (68 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       208  (0.0116013); expected 358.6 (0.02)
Passed bias filter:                      189  (0.0105416); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.37u 0.20s 00:00:00.57 Elapsed: 00:00:00.36
# Mc/sec: 562.42
//
Query:       PHY93_19965|PHY93_19965  [L=46]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (46 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       249  (0.0138881); expected 358.6 (0.02)
Passed bias filter:                      209  (0.0116571); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.32u 0.21s 00:00:00.53 Elapsed: 00:00:00.34
# Mc/sec: 403.21
//
Query:       PHY93_21245|PHY93_21245  [L=379]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.3e-40  135.6  27.7    2.2e-11   43.9   3.0    4.6  4  S1             S1 RNA binding domain
    0.00047   20.1   0.0     0.0012   18.8   0.0    1.7  1  MRP-S35        Mitochondrial ribosomal protein MRP-S35
      0.005   16.7   5.8      0.082   12.9   0.0    3.8  5  RNase_II_C_S1  RNase II-type exonuclease C-terminal S1 domain
  ------ inclusion threshold ------
       0.61   10.2   8.1         38    4.5   0.5    4.4  4  S1_2           S1 domain
       0.81    9.8   3.6          4    7.6   0.1    3.0  3  RuvA_N         RuvA N terminal domain


Domain annotation for each model (and alignments):
>> S1  S1 RNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.9   2.3   1.7e-11   6.2e-08       3      75 .]      42     111 ..      41     111 .. 0.95
   2 !   30.2   0.2   1.1e-10   4.1e-07      14      73 ..     138     194 ..     125     196 .. 0.89
   3 !   43.0   1.9   1.2e-14   4.2e-11       3      75 .]     215     291 ..     213     291 .. 0.85
   4 !   43.9   3.0   6.1e-15   2.2e-11       2      73 ..     305     369 ..     304     370 .. 0.96

  Alignments for each domain:
  == domain 1  score: 32.9 bits;  conditional E-value: 1.7e-11
                              TTTCEEEEEEEEEETTEEEEEETTTEEEEEEGGGSSSSCEESCHHHCEETTEEEEEEEEEEETTTTEEEEEEC CS
                       S1   3 ekgevveGeVtsvtkgGafVelgngvegfvpaselsrdarvedpdevlkvGdevkvkvlkvdkdrrriilsik 75 
                              +kge+v+G++t + ++ +++++g++ ++ v+ +e +    v+d    lk Gde++v++   ++dr+ i  si+
  PHY93_21245|PHY93_21245  42 KKGEEVKGKITAIKNKSIYIDVGGKTDAVVSGKEFE---FVKDYVADLKLGDEIEVQIKTPENDRGQILASIR 111
                              89**********************************...789************************9977775 PP

  == domain 2  score: 30.2 bits;  conditional E-value: 1.1e-10
                              EEETTEEEEEETTTEEEEEEGGGSSSSCEESCHHHCEETTEEEEEEEEEEETTTTEEEEE CS
                       S1  14 svtkgGafVelgngvegfvpaselsrdarvedpdevlkvGdevkvkvlkvdkdrrriils 73 
                              ++++gGa V    g  gf+p s++ ++   +d+d    + ++vkvkvl+vd +++r+++s
  PHY93_21245|PHY93_21245 138 ELNRGGAVVIAPFGFFGFIPGSQIGSK---YDGDPDKLISKKVKVKVLEVDQAKNRLVFS 194
                              6789999999999************99...88888899999*****************98 PP

  == domain 3  score: 43.0 bits;  conditional E-value: 1.2e-14
                              TTTCEEEEEEEEEETTEEEEEET...T....TEEEEEEGGGSSSSCEESCHHHCEETTEEEEEEEEEEETTTTEEEEEEC CS
                       S1   3 ekgevveGeVtsvtkgGafVelg...n....gvegfvpaselsrdarvedpdevlkvGdevkvkvlkvdkdrrriilsik 75 
                              ++++v+e+e+++v+++G+fV +    n    + eg+v++se+s++ +v+d ++ +kv+d++k k++  d+   r+++sik
  PHY93_21245|PHY93_21245 215 NVDDVFEAEIVRVEPFGIFVKVAydnNgaalDLEGLVHISEISWE-KVSDLSQIFKVKDKIKIKLISKDEG--RLQFSIK 291
                              799*****************9975543222257************.***************9999876666..7888886 PP

  == domain 4  score: 43.9 bits;  conditional E-value: 6.1e-15
                              STTTCEEEEEEEEEETTEEEEEETTTEEEEEEGGGSSSSCEESCHHHCEETTEEEEEEEEEEETTTTEEEEE CS
                       S1   2 pekgevveGeVtsvtkgGafVelgngvegfvpaselsrdarvedpdevlkvGdevkvkvlkvdkdrrriils 73 
                                k++++eGeV+++  +G+ V l+ gveg++++s l        ++  lk+G++v v+++ +d++rr+i+l 
  PHY93_21245|PHY93_21245 305 YPKDKEFEGEVVRIAGFGVLVKLEIGVEGLIHISKLG-------GGVNLKEGEKVMVYIESIDVERRKISLG 369
                              57999********************************.......99************************96 PP

>> MRP-S35  Mitochondrial ribosomal protein MRP-S35
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.0   3.2e-07    0.0012       3      53 ..      23      73 ..      21     102 .. 0.84

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 3.2e-07
                  MRP-S35  3 eeksfasllrnsklvqlGdaegklvvGkifhiveddlyidfGlkfhcvckr 53
                             +  ++  ll+  +  qlG  +g  v Gki  i ++ +yid G+k ++v + 
  PHY93_21245|PHY93_21245 23 QALTMEDLLKLEEAGQLGFKKGEEVKGKITAIKNKSIYIDVGGKTDAVVSG 73
                             556777889999999*******************************99875 PP

>> RNase_II_C_S1  RNase II-type exonuclease C-terminal S1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.0       0.2   7.2e+02      32      44 ..      84      96 ..      79     107 .. 0.81
   2 ?   -3.6   0.1       3.1   1.1e+04      12      20 ..     140     148 ..     132     148 .. 0.67
   3 ?    3.8   0.0     0.016        56      39      57 ..     176     194 ..     173     195 .. 0.91
   4 ?   -3.2   0.3       2.5   8.8e+03       2      14 ..     219     231 ..     218     237 .. 0.72
   5 !   12.9   0.0   2.3e-05     0.082      26      57 ..     338     369 ..     309     371 .. 0.75

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.2
            RNase_II_C_S1 32 aglplGervrVrL 44
                             a+l+lG++++V++
  PHY93_21245|PHY93_21245 84 ADLKLGDEIEVQI 96
                             4899999999986 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 3.1
            RNase_II_C_S1  12 drggtVqla 20 
                              +rgg+V++a
  PHY93_21245|PHY93_21245 140 NRGGAVVIA 148
                              488888885 PP

  == domain 3  score: 3.8 bits;  conditional E-value: 0.016
            RNase_II_C_S1  39 rvrVrLveADvatrrvrFe 57 
                              +v V++ e+D a+ r+ F+
  PHY93_21245|PHY93_21245 176 KVKVKVLEVDQAKNRLVFS 194
                              799************9996 PP

  == domain 4  score: -3.2 bits;  conditional E-value: 2.5
            RNase_II_C_S1   2 tFdAvVvdvddrg 14 
                              +F+A +v+v++ g
  PHY93_21245|PHY93_21245 219 VFEAEIVRVEPFG 231
                              7999999987655 PP

  == domain 5  score: 12.9 bits;  conditional E-value: 2.3e-05
            RNase_II_C_S1  26 ArveggaglplGervrVrLveADvatrrvrFe 57 
                               +++gg +l++Ge+v V +++ Dv++r++ + 
  PHY93_21245|PHY93_21245 338 SKLGGGVNLKEGEKVMVYIESIDVERRKISLG 369
                              5669999*********************9876 PP

>> S1_2  S1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.5      0.01        38       2      46 ..      44      94 ..      44     103 .. 0.84
   2 ?    0.5   0.0      0.18   6.5e+02      33      47 ..     121     135 ..     120     136 .. 0.83
   3 ?    1.5   0.0     0.088   3.1e+02       6      21 ..     221     237 ..     218     259 .. 0.78
   4 ?    4.2   0.3     0.012        44       8      48 ..     314     356 ..     311     356 .. 0.90

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.01
                     S1_2  2 GkintlkvlretdfgyfLqkdesgevlLpkkevp......eeleiGdeveV 46
                             G+ ++ k++ ++++ ++++ +++++  +  ke +       +l+ Gde+eV
  PHY93_21245|PHY93_21245 44 GEEVKGKITAIKNKSIYIDVGGKTDAVVSGKEFEfvkdyvADLKLGDEIEV 94
                             566788999999999999988889999999998776566678999**9999 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.18
                     S1_2  33 evpeeleiGdeveVF 47 
                              +  e+ + G ev+VF
  PHY93_21245|PHY93_21245 121 YFSEKEKSGGEVTVF 135
                              56788899******* PP

  == domain 3  score: 1.5 bits;  conditional E-value: 0.088
                     S1_2   6 tlkvlretdfgyfLq.k 21 
                              +++++r ++fg+f++ +
  PHY93_21245|PHY93_21245 221 EAEIVRVEPFGIFVKvA 237
                              579**********9642 PP

  == domain 4  score: 4.2 bits;  conditional E-value: 0.012
                     S1_2   8 kvlretdfgyfLqkdesgevlLpkkevp..eeleiGdeveVFv 48 
                              +v+r+  fg+ ++ + ++e l + + +    +l++G++v V +
  PHY93_21245|PHY93_21245 314 EVVRIAGFGVLVKLEIGVEGLIHISKLGggVNLKEGEKVMVYI 356
                              899**********9999**********8678999*****9976 PP

>> RuvA_N  RuvA N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.6   0.1    0.0011         4       5      23 ..      47      65 ..      45      98 .. 0.92
   2 ?   -3.5   0.0       3.2   1.1e+04      18      43 ..     181     208 ..     172     211 .. 0.62
   3 ?    2.0   0.2     0.065   2.3e+02       7      50 ..     313     359 ..     310     368 .. 0.62

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.0011
                             EEEEEEEESSCEEEEEETT CS
                   RuvA_N  5 lkGkvvekepdsivvevgg 23
                             +kGk+++++++si ++vgg
  PHY93_21245|PHY93_21245 47 VKGKITAIKNKSIYIDVGG 65
                             89****************9 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 3.2
                              EEEETTEEEEEEE-HHHHCC..-TTSEE CS
                   RuvA_N  18 vvevggvGYevfvplstlss..kegeev 43 
                              v+ev +   ++  +++ +s+  k+geev
  PHY93_21245|PHY93_21245 181 VLEVDQAKNRLVFSERLVSEpdKVGEEV 208
                              5555555555556666666666667665 PP

  == domain 3  score: 2.0 bits;  conditional E-value: 0.065
                              EEEEEESSCEEEEEE.TTEEEEEEE-HHHHCC.......-TTSEEEEEEEEE CS
                   RuvA_N   7 Gkvvekepdsivvev.ggvGYevfvplstlss.......kegeevklythli 50 
                              G+vv +    ++v    gv   ++++     +       kege+v +y++ i
  PHY93_21245|PHY93_21245 313 GEVVRIAGFGVLVKLeIGVEGLIHIS-----KlgggvnlKEGEKVMVYIESI 359
                              55666544445444323555556666.....3344788889999*9**9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (379 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       635  (0.0354175); expected 358.6 (0.02)
Passed bias filter:                      404  (0.0225333); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.37
# Mc/sec: 3038.12
//
Query:       PHY93_05680|PHY93_05680  [L=96]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (96 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1189  (0.0663171); expected 358.6 (0.02)
Passed bias filter:                      341  (0.0190195); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.36u 0.19s 00:00:00.55 Elapsed: 00:00:00.35
# Mc/sec: 831.95
//
Query:       PHY93_19970|PHY93_19970  [L=183]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    0.00032   21.0   0.0    0.00038   20.7   0.0    1.1  1  Polyketide_cyc2  Polyketide cyclase / dehydrase and lipid tra
  ------ inclusion threshold ------
       0.05   13.8   0.0       0.08   13.2   0.0    1.4  1  AHSA1            Activator of Hsp90 ATPase homolog 1-like pro
      0.054   12.2   0.1      0.061   12.0   0.1    1.3  1  DUF1887          Domain of unknown function (DUF1887)


Domain annotation for each model (and alignments):
>> Polyketide_cyc2  Polyketide cyclase / dehydrase and lipid transport
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.7   0.0   6.4e-08   0.00038       8     139 ..      55     179 ..      47     183 .] 0.80

  Alignments for each domain:
  == domain 1  score: 20.7 bits;  conditional E-value: 6.4e-08
                              EEESS-HHHHHHHHTTTTGGGGT-TTEEEEECSE..STSSSTTTEEEEECCCSSEEEEEEEEEETTTTEEEEEEE.SSS-TSEEEE CS
          Polyketide_cyc2   8 vviaappekVwalvsdfenwprWhpevarveleg..gggpargvegtvrvggrgtvreelvevdpegrllsyrivkpvpvanyvat 91 
                              +v + +  k w++ sd + w++W   ++ + l+g  ++g+  +  +   +gg ++v+ +l++v p++ ++  +    +p+a++ + 
  PHY93_19970|PHY93_19970  55 KVSNIDINKLWDVWSDINRWHTWQNDLDYASLDGdfKEGN--FF-FLKPKGG-PKVKIQLLKVVPNKQFIDLTT---FPLAKMYGD 133
                              35569999********************999998678888..88.7777999.99******************9...9******** PP

                              EEEEECCETEEEEEEEEEEEE--TT--HHHHHHHHHHHHHHHHHHHHH CS
          Polyketide_cyc2  92 wtvtpdgggtrvtwtgefdagplggpfekpaaakavkgdleagLerLk 139
                                +   g+  ++  t++++++  + + + ++  +++ + l+ + ++L 
  PHY93_19970|PHY93_19970 134 HDFIVYGDEIEIKTTMTIEGPLAFLWNKIVM--EGIVKKLDSQTDNLI 179
                              ***9999987777777777545557765444..666666888877775 PP

>> AHSA1  Activator of Hsp90 ATPase homolog 1-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   1.3e-05      0.08       4      63 ..      61     120 ..      58     152 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.3e-05
                              HHHHHHHHH-HHHHHHH...EEEEEEEE--STTEEEEEEETTTSEEEEEEEEEEEEETTTEEE CS
                    AHSA1   4 perVfraltdpellkrW...ftlteaemdlrpGgkfrlrdspdgkefgnegeylevvpperlv 63 
                              +++++++++d ++   W   +  ++ + d+++G  f l   +  +  + +++ l+vvp+++++
  PHY93_19970|PHY93_19970  61 INKLWDVWSDINRWHTWqndLDYASLDGDFKEGNFFFL---KPKGGPKVKIQLLKVVPNKQFI 120
                              789***************999999999999*9999999...444455556667*****99865 PP

>> DUF1887  Domain of unknown function (DUF1887)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.1     1e-05     0.061     247     296 ..      38      85 ..      10     129 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 1e-05
                  DUF1887 247 arrflnGeWLEvfvykt.lr..diqdvqDvslnvevvrektekevrNeLDVvf 296
                                 + nG+W+ +++y++ +   di++++Dv  +++  +       +N+LD ++
  PHY93_19970|PHY93_19970  38 YSEITNGGWMKTYTYSKkVSniDINKLWDVWSDINRWHT-----WQNDLDYAS 85 
                              56789**********862442234558888766654433.....678888766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (183 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       508  (0.028334); expected 358.6 (0.02)
Passed bias filter:                      282  (0.0157287); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1344.06
//
Query:       PHY93_19975|PHY93_19975  [L=102]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      7e-07   29.3   0.1    8.1e-07   29.1   0.1    1.0  1  EVE       EVE domain


Domain annotation for each model (and alignments):
>> EVE  EVE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.1   0.1   4.5e-11   8.1e-07      40     144 ..       1      97 [.       1      98 [. 0.84

  Alignments for each domain:
  == domain 1  score: 29.1 bits;  conditional E-value: 4.5e-11
                              --TT-EEEEE....ETSSS.S-EEEEEEEEECEEEE-GGGG-TTSTT--TTTBTTS--EEEEEEEEEEEEEEEEHHHHTTHGTCTT CS
                      EVE  40 mkkGDlvlfY....hsgek.lqaivgiaeVvseaypdetqfdpkskyydpkskkekpwlrvdvkpvkklkrplslkelkaepeleg 120
                              mk +D+ ++Y    + g+  lqa++ i++V +++  + + f ++  yy++k++        +   +  +k +l++++ k+    +g
  PHY93_19975|PHY93_19975   1 MKNDDWFIYYspgnKMGKSdLQAFTDIGTVPDDHVFQFKMF-ENFIYYRRKIE----YIHAKEVLLSSIKSKLKFTQEKK----WG 77 
                              9*********8887666669***********8888867666.77788888888....66777777789999999999999....99 PP

                              SHHHHCCT-SEEEE-HHHHHHHHH CS
                      EVE 121 mkllrkgrlsvrpvteedwelile 144
                              ++l    r + ++++ ed+ +i++
  PHY93_19975|PHY93_19975  78 YQL----RRGLVELSSEDFLMIAK 97 
                              999....************99986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (102 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       532  (0.0296726); expected 358.6 (0.02)
Passed bias filter:                      345  (0.0192426); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.20s 00:00:00.59 Elapsed: 00:00:00.36
# Mc/sec: 838.14
//
Query:       PHY93_19980|PHY93_19980  [L=153]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-06   28.4   0.2    2.7e-06   27.2   0.2    1.7  1  MarR      MarR family
    3.3e-06   27.5   0.0    6.3e-06   26.6   0.0    1.4  1  HTH_27    Winged helix DNA-binding domain
    3.2e-05   23.7   0.0      6e-05   22.9   0.0    1.4  1  MarR_2    MarR family


Domain annotation for each model (and alignments):
>> MarR  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.2   0.2   4.6e-10   2.7e-06       1      58 [.      40     101 ..      40     102 .. 0.87

  Alignments for each domain:
  == domain 1  score: 27.2 bits;  conditional E-value: 4.6e-10
                              --HHHHHHHHHHHHSTT....EEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEEETTSTTS CS
                     MarR   1 ltltqfviLrilyeqgp....lsvseLakklgvskstvtrvldrLekkGlieRskspeDrRe 58 
                              +++tq+++L++  +       +++s++ ++ g++k+ v+ ++++L +k l++++ +++D+R+
  PHY93_19980|PHY93_19980  40 ISPTQYSLLACYFYLKTptklPTQSDICEMAGLDKMLVSDTTKALLRKKLVNKKSNKDDQRS 101
                              6889999999987777622335788************************************8 PP

>> HTH_27  Winged helix DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.6   0.0     1e-09   6.3e-06      20      68 .]      62     110 ..      55     110 .. 0.95

  Alignments for each domain:
  == domain 1  score: 26.6 bits;  conditional E-value: 1e-09
                   HTH_27  20 kladlcgrlnvedshisyslkkLtekGLvertgdeadrrekrvrlTdkG 68 
                              +++d+c++  +++  +s   k+L +k Lv ++  + d+r+ +++lTd+G
  PHY93_19980|PHY93_19980  62 TQSDICEMAGLDKMLVSDTTKALLRKKLVNKKSNKDDQRSFFIELTDEG 110
                              679**************************9999999************9 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.9   0.0     1e-08     6e-05      14      62 .]      38     101 ..      28     101 .. 0.78

  Alignments for each domain:
  == domain 1  score: 22.9 bits;  conditional E-value: 1e-08
                              HHCTTTS..............EE.EHHHHHHHHTSSHHHHHHHHHHHHHTTSEEEEESSSSSSS CS
                   MarR_2  14 Lgrrpgr..............dl.tvgelarrlglsksavsrilkrLvaaGLverrpgpeDkRa 62 
                              L  +p +              +l t++++++  gl+k  vs + k L ++ Lv ++++ +D R+
  PHY93_19980|PHY93_19980  38 LDISPTQysllacyfylktptKLpTQSDICEMAGLDKMLVSDTTKALLRKKLVNKKSNKDDQRS 101
                              555554455555555555556667*************************************996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (153 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       669  (0.0373138); expected 358.6 (0.02)
Passed bias filter:                      430  (0.0239835); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.39u 0.21s 00:00:00.60 Elapsed: 00:00:00.36
# Mc/sec: 1281.88
//
Query:       PHY93_19985|PHY93_19985  [L=397]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.2e-05   24.7   0.0    4.3e-05   23.7   0.0    1.4  1  Gln_deamidase_2  Glutaminase
  ------ inclusion threshold ------
       0.12   12.7   3.2       0.46   10.8   0.1    2.7  3  NUC130_3NT       NUC130/3NT domain


Domain annotation for each model (and alignments):
>> Gln_deamidase_2  Glutaminase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.7   0.0   4.8e-09   4.3e-05       3     101 ..     115     217 ..     111     222 .. 0.78

  Alignments for each domain:
  == domain 1  score: 23.7 bits;  conditional E-value: 4.8e-09
          Gln_deamidase_2   3 klFkklkaerferriefkyaddgCyarAhlmarlaeeegiepekifveg..klevqtksa....gegkvsW.eyHVApvvvvkkek 81 
                              ++F+ +k+   ++r+++      C+ rA+ ++ +  e g++   i +e+  +l + ++++    + ++ +  +yH  + ++v++++
  PHY93_19985|PHY93_19985 115 SFFESWKK---DPRFRYPSGAGMCAYRAQSLSYHLAELGFKTTSIRIEHspTLIAMDRDSndklNGNYDDYrGYHTLVQIMVNRNG 197
                              67788888...666666666677*********999999*********7744444443222366655566667************** PP

          Gln_deamidase_2  82 kveklviDpslfsepvtvke 101
                              k++++ +Dp   +ep+  ++
  PHY93_19985|PHY93_19985 198 KAVPYLLDPQYMTEPLIRED 217
                              **************997776 PP

>> NUC130_3NT  NUC130/3NT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.5   0.0     0.042   3.8e+02       7      15 ..      99     107 ..      98     111 .. 0.89
   2 ?   -3.2   0.1       1.2   1.1e+04       8      18 ..     245     255 ..     242     260 .. 0.65
   3 ?   10.8   0.1   5.1e-05      0.46      33      52 .]     372     391 ..     345     391 .. 0.72

  Alignments for each domain:
  == domain 1  score: 1.5 bits;  conditional E-value: 0.042
               NUC130_3NT   7 hcYpketke 15 
                              hcYp+ tk+
  PHY93_19985|PHY93_19985  99 HCYPNLTKT 107
                              9******97 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 1.2
               NUC130_3NT   8 cYpketkefpq 18 
                              +Y++e+++ p 
  PHY93_19985|PHY93_19985 245 YYKEEAQNKPA 255
                              55888777665 PP

  == domain 3  score: 10.8 bits;  conditional E-value: 5.1e-05
               NUC130_3NT  33 pdlRkklvqaLvlLRnKdiI 52 
                               +++ ++vq+L lL+nK iI
  PHY93_19985|PHY93_19985 372 IEMKASIVQSLKLLKNKIII 391
                              48999************887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (397 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       962  (0.0536561); expected 358.6 (0.02)
Passed bias filter:                      516  (0.0287802); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.37
# Mc/sec: 3175.96
//
Query:       PHY93_19990|PHY93_19990  [L=173]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.4e-07   30.9   0.1    6.6e-07   29.5   0.1    1.6  2  BAAT_C         BAAT / Acyl-CoA thioester hydrolase C terminal
    2.7e-06   27.0   0.0    5.2e-06   26.1   0.0    1.5  1  Peptidase_S9   Prolyl oligopeptidase family
    2.9e-05   23.7   0.0    6.2e-05   22.6   0.0    1.4  2  DLH            Dienelactone hydrolase family
      0.005   16.5   0.0       0.01   15.5   0.0    1.5  1  FSH1           Serine hydrolase (FSH1)
  ------ inclusion threshold ------
      0.029   14.2   0.0        2.2    8.0   0.0    2.0  2  Abhydrolase_2  Phospholipase/Carboxylesterase
      0.033   13.5   0.0       0.45    9.7   0.0    2.0  2  Hydrolase_4    Serine aminopeptidase, S33


Domain annotation for each model (and alignments):
>> BAAT_C  BAAT / Acyl-CoA thioester hydrolase C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.5   0.1   2.2e-10   6.6e-07      16     163 ..      15     158 ..       5     170 .. 0.82
   2 ?   -1.0   0.1      0.46   1.4e+03       4      13 ..     164     173 .]     161     173 .] 0.92

  Alignments for each domain:
  == domain 1  score: 29.5 bits;  conditional E-value: 2.2e-10
                              STTB--SSEEEEEETHHHHHHHHHHHHSS....SEEEEEEES--SB--SSEEEETTE..EE----B-GGG-EE-TTS-EE-TT-B- CS
                   BAAT_C  16 hpkvkkdkigllGiSkGgelalllasflk....kisavvlingsavvvegklvykdeskvlpelklsmeklkvnknglldivdvla 97 
                                  ++++i l+GiS+G+e + ++ s+ +    kis +v+i+g +v+    +    +    ++l + +++     n+ + ++  ++
  PHY93_19990|PHY93_19990  15 L-SAENNEIILVGISRGAEAVSMIVSHPEltqfKISRAVVIAGISVIADSRKSIPRN-TLNNRLANPTSR---DLNDYVSTKPSWR 95 
                              4.456699*************9999986666799*********99999777776666.344444444444...5888889999999 PP

                              -TTTGGGCCCB--GGG--SEEEEEEETT-SSS-HHHHHHHHHHHHHCTT--.--EEEEETTB-S-- CS
                   BAAT_C  98 llkeklaekalipvekakgpillvvgedDknwpSkesaekaserLkkagkkvevqlltYpkaGHli 163
                                  +  +++ i++ +   p++++ g +D +w  +e a  ++++ +k+g k  v+++  p+aGH +
  PHY93_19990|PHY93_19990  96 ISGIDIPSRKEINIYNFTKPLMIIHGANDSLWT-VENAYRLQRNYEKNGLKAIVEII--PNAGHTF 158
                              9999999999**********************5.677889***********999999..*****86 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.46
                              HHHHHHHHHH CS
                   BAAT_C   4 eYFeeainyl 13 
                              eYFe  in+l
  PHY93_19990|PHY93_19990 164 EYFESMINFL 173
                              9*******98 PP

>> Peptidase_S9  Prolyl oligopeptidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.1   0.0   1.8e-09   5.2e-06      61     204 ..      17     172 ..       6     173 .] 0.72

  Alignments for each domain:
  == domain 1  score: 26.1 bits;  conditional E-value: 1.8e-09
                              --GGGEEEEEETHHHHHHHHHHHH-GGG-SEEEEESE---CCCHHCSTTS......THHHCCCC--TTTCHHHHHHHHHH-CGGG- CS
             Peptidase_S9  61 vdserlaitGgSyGGyltgaalnqrpdlFkaavaevpvvdvlrydsdtdl......lteeymewgnpeeneegykelspyspldnv 140
                              ++++++++ G S G   + +++  +p+l +  ++ + v+  ++   d++       l+ +   +++++ + ++y   +p      +
  PHY93_19990|PHY93_19990  17 AENNEIILVGISRGAEAVSMIVS-HPELTQFKISRAVVIAGISVIADSRKsiprntLN-NRLANPTSR-DLNDYVSTKPSWRISGI 99 
                              56788999999999999999999.9999888777777777777766665553543222.223334443.33334333333333333 PP

                              -...........---EEEEEEETT-SSS-THHHHHHHHHHH--S-SEEEEEETTS-SSTTSSHHHHHHHHHHHHH CS
             Peptidase_S9 141 k...........aypplLlihGlaDdrvppaealklvaaLqkkgknvlllifpdegHgvgkprakveelarllaF 204
                                           ++pl++ihG +D+  ++++a++l ++ +k+g ++ + i p++gH +   +a  e ++++ +F
  PHY93_19990|PHY93_19990 100 DipsrkeiniynFTKPLMIIHGANDSLWTVENAYRLQRNYEKNGLKAIVEIIPNAGHTFP--KAGSEYFESMINF 172
                              3555556999999********************************************555..6666666666666 PP

>> DLH  Dienelactone hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       1.2   3.7e+03      85     113 ..       7      35 ..       2      46 .. 0.62
   2 !   22.6   0.0   2.1e-08   6.2e-05     133     195 ..     102     164 ..      97     169 .. 0.91

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 1.2
                      DLH  85 avaylksvpevstkkvgvvGfCmGGalal 113
                              +++++ +  +++++++ +vG   G++ + 
  PHY93_19990|PHY93_19990   7 KIKKVLTSLSAENNEIILVGISRGAEAVS 35 
                              55555555557777888888777766554 PP

  == domain 2  score: 22.6 bits;  conditional E-value: 2.1e-08
                      DLH 133 pekeleeaakikapilalfgeeDefipadevekleealkaanvdlelkvYpgagHaFandsre 195
                              p+++ +++ +  +p+++++g +D   + +++ +l+ + ++++ ++ +++ p+agH F ++ +e
  PHY93_19990|PHY93_19990 102 PSRKEINIYNFTKPLMIIHGANDSLWTVENAYRLQRNYEKNGLKAIVEIIPNAGHTFPKAGSE 164
                              67788899999**********************************************887665 PP

>> FSH1  Serine hydrolase (FSH1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   3.5e-06      0.01      87     205 ..       5     161 ..       1     165 [. 0.71

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 3.5e-06
                     FSH1  87 eesldavkdyikengpfdGiiGFSqGaalaallaslleellkeashpslkfailvsGfkleepk...................... 150
                              +e +++v   +++++    ++G S Ga  +++++s  e      ++ ++  a++++G ++   +                      
  PHY93_19990|PHY93_19990   5 SEKIKKVLTSLSAENNEIILVGISRGAEAVSMIVSHPEL-----TQFKISRAVVIAGISVIADSrksiprntlnnrlanptsrdln 85 
                              666777777777777778899999999999999998885.....345666677777776633333566777777777777777777 PP

                     FSH1 151 .................yeeyyeedkiqtptLhvlGelDtvvdeerseaLaeafkns...skv.lkHpggHfvPnk 205
                                                ++  + ++++ p + ++G +D++ + e++ +L ++++++   + v +  + gH +P+ 
  PHY93_19990|PHY93_19990  86 dyvstkpswrisgidipSRKEINIYNFTKPLMIIHGANDSLWTVENAYRLQRNYEKNglkAIVeIIPNAGHTFPKA 161
                              76666666666665555333334557899**************************999864441334678999975 PP

>> Abhydrolase_2  Phospholipase/Carboxylesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   0.0   0.00075       2.2      93     146 ..       3      64 ..       1      77 [. 0.63
   2 ?    4.5   0.0    0.0086        26     157     204 ..     114     161 ..      95     173 .] 0.78

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.00075
                              HHHHHHHTT.....--GGGEEEEEETHHH.HHHHHHHHT-SS....--SEEEEES---TTGGGT CS
            Abhydrolase_2  93 lidaelkkg.....ipssriiigGFSqGa.alalylaltlpk....klggivafsgalplsqkl 146
                              +i +++kk       ++++ii++G S Ga a+++  +   p+    k++++v + g  +++ + 
  PHY93_19990|PHY93_19990   3 IISEKIKKVltslsAENNEIILVGISRGAeAVSMIVSH--PEltqfKISRAVVIAGISVIADSR 64 
                              56666666655557899***********9533333222..222234777777777776666554 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.0086
                              -EEEEEEETT-SSS-HHHHHHHHHHHHTTS-GEEEEEETT--SS--HH CS
            Abhydrolase_2 157 lpilqiHgeeDpvvplalgkaakevlkkllkkvelksyeglaHsidee 204
                               p + iHg  D +  +  +++++  ++k+  k   +++++ +H  ++ 
  PHY93_19990|PHY93_19990 114 KPLMIIHGANDSLWTVENAYRLQRNYEKNGLKAIVEIIPNAGHTFPKA 161
                              48899*************************999999**9999987764 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.0     0.033        98      74     116 ..      18      63 ..       6     101 .. 0.63
   2 ?    9.7   0.0   0.00015      0.45     186     233 ..     108     157 ..      88     160 .. 0.78

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.033
              Hydrolase_4  74 pelplfllGhSmGGliallyllrypd...kvaglilsaPalkikak 116
                              ++ +++l+G S G+  +  ++ + +    k+++++++a    i+ +
  PHY93_19990|PHY93_19990  18 ENNEIILVGISRGAEAVSMIVSHPELtqfKISRAVVIAGISVIADS 63 
                              4568999999999987777764333344577766666655544444 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.00015
              Hydrolase_4 186 raakitlPllllhGeaDkvvdpeasrelyerlgsk..dktlklypglyHe 233
                              +  ++t Pl+++hG++D +   e++ +l ++  ++  +  ++++p++ H 
  PHY93_19990|PHY93_19990 108 NIYNFTKPLMIIHGANDSLWTVENAYRLQRNYEKNglKAIVEIIPNAGHT 157
                              5678999*****************97777766666546777888888886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (173 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       422  (0.0235373); expected 358.6 (0.02)
Passed bias filter:                      379  (0.0211389); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.35
# Mc/sec: 1474.64
//
Query:       PHY93_19995|PHY93_19995  [L=263]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.3e-27   96.8  13.3    1.3e-27   96.8  13.3    1.9  2  FA_hydroxylase  Fatty acid hydroxylase superfamily


Domain annotation for each model (and alignments):
>> FA_hydroxylase  Fatty acid hydroxylase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.1     0.053   9.5e+02      43      81 ..      25      62 ..      18      81 .. 0.47
   2 !   96.8  13.3   7.1e-32   1.3e-27       1     132 [.      82     218 ..      82     219 .. 0.93

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 0.053
           FA_hydroxylase 43 aalrahplealllallllllllllgplsalllvlvlaal 81
                              + r h+++++    l++l+l  +++l +l lvl++a++
  PHY93_19995|PHY93_19995 25 RKRRDHLIRIFHNFSLAVLAL-PITRLLTLPLVLFVAHY 62
                             555666666555553333332.22233333333333222 PP

  == domain 2  score: 96.8 bits;  conditional E-value: 7.1e-32
           FA_hydroxylase   1 lllallledfveYwvHrllHrvkllwrrlHkvHHsseaptalaalrahplealllallllllllllg.plsalllvlvlaallell 85 
                              +ll++ll df+ Yw+H + H+v+++wr +H+vHH +++++a++alr+h+ e +l a++ + l+l++g + +++l++ +l +  +l+
  PHY93_19995|PHY93_19995  82 FLLGFLLLDFTLYWWHVANHKVRFFWR-FHQVHHADRDMDATTALRFHFGELVLSAFVRCGLILIVGlKVETILVFDLLVTSSALF 166
                              6899***********************.***************************************99999999*********** PP

           FA_hydroxylase  86 iHsg..lhvslgwllerllatpraHrlHHskneeg...nfgvllslwDrlfg 132
                              +Hs+  l ++l+ +l+++++tp +H+ HHs++ e    n++ +l++wDrlf 
  PHY93_19995|PHY93_19995 167 HHSNlkLPLWLENILSLIIVTPLFHQNHHSYFLEEtdsNYSAILNFWDRLFR 218
                              ****65445666666999*************9966788************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (263 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       693  (0.0386525); expected 358.6 (0.02)
Passed bias filter:                      360  (0.0200792); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 1908.31
//
Query:       PHY93_20000|PHY93_20000  [L=253]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.078   12.9   0.0       0.12   12.4   0.0    1.3  1  MTP18     Mitochondrial 18 KDa protein (MTP18)
       0.12   12.4   0.8       0.27   11.2   0.8    1.6  1  DUF2116   Uncharacterized protein containing a Zn-ribbon (DUF


Domain annotation for each model (and alignments):
>> MTP18  Mitochondrial 18 KDa protein (MTP18)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   1.3e-05      0.12      77     148 ..      51     124 ..      22     133 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 1.3e-05
                    MTP18  77 eaakkakeeeeaelktkkveeledyrlvmakravFqsiASmaLPaltiHsvVkysgk..alknvknkrlrtwgp 148
                               a+k+     ++ ++ k+++++++   + +   + q + S+  P lt H +V+ +++   lkn k++ + ++g 
  PHY93_20000|PHY93_20000  51 LAWKSXVLLLAQMARXKQMNTCKQLTPISLPVEMLQVLTSLLTPLLTKHGIVQSTDSldNLKNLKSTIVWSLGA 124
                              5555555455566667888889999999999999******************9887633577777777765554 PP

>> DUF2116  Uncharacterized protein containing a Zn-ribbon (DUF2116)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.8     3e-05      0.27      28      58 ..     134     164 ..     132     165 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 3e-05
                  DUF2116  28 yekkrkkvarsqqilfgililllavvlvlkf 58 
                              +e+ ++++++   i+ +++i+l+  +++l++
  PHY93_20000|PHY93_20000 134 WESMKRQQKNXNXIMKLVFIILMTWIALLPM 164
                              78889999*************9998888876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (253 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       480  (0.0267723); expected 358.6 (0.02)
Passed bias filter:                      277  (0.0154498); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.38
# Mc/sec: 1985.01
//
Query:       PHY93_20005|PHY93_20005  [L=257]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (257 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       279  (0.0155614); expected 358.6 (0.02)
Passed bias filter:                      144  (0.00803168); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.21s 00:00:00.66 Elapsed: 00:00:00.39
# Mc/sec: 1964.22
//
Query:       PHY93_20010|PHY93_20010  [L=532]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.6e-89  299.6   0.0    3.7e-89  299.1   0.0    1.1  1  AICARFT_IMPCHas  AICARFT/IMPCHase bienzyme
    3.9e-18   65.4   0.0    1.4e-17   63.7   0.0    2.0  3  MGS              MGS-like domain


Domain annotation for each model (and alignments):
>> AICARFT_IMPCHas  AICARFT/IMPCHase bienzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  299.1   0.0   4.1e-93   3.7e-89       2     292 ..     140     460 ..     139     464 .. 0.91

  Alignments for each domain:
  == domain 1  score: 299.1 bits;  conditional E-value: 4.1e-93
                              HHTTTT-EEE-SGGGHHHHHHHHHC..T.B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH.......CSE...EEEEEEEEESSSS CS
          AICARFT_IMPCHas   2 AKNhksVtvvvdpadYeevleelkk..gevsletrkklaakaFahtaaYDaaiaeylskq.......lpetlklslekkqkLrYGe 78 
                              AKN++sVtv++d +dYe++++ +++  g++s ++r++la+k+F+++a+YD  iae ls++         +   ls++ k++LrYGe
  PHY93_20010|PHY93_20010 140 AKNYESVTVLSDISDYEKFISLFNEnnGAISFKMRRDLAIKTFTRVAQYDCLIAEELSSRflddyktG-DLPWLSITPKETLRYGE 224
                              9**********************99988*****************************99965553320.33346788899****** PP

                              STTS-EEEEE-TT...STTHHH-EEEESS---HHHHHHHHHHHHHHCTS.......EEEEEEETTEEEEEEEESSHHHHHHHHHCC CS
          AICARFT_IMPCHas  79 NphQkaalyeeee...eeglakaeqlqGkelsynNllDadaalelvkef.......aavaivKHanpcGvAvgetlaeAyekAlaa 154
                              NphQ a++++ ++   +++l++ae lqGkelsynN+ Dadaa+++++++       + vai+KHanpcG+Av++++ +A+e+A+++
  PHY93_20010|PHY93_20010 225 NPHQWAKIFKLKNtksKNNLVDAEVLQGKELSYNNWGDADAAWRVMSDVtnvspgkNIVAIIKHANPCGLAVASSMIDALEEAWQG 310
                              *******998666667889999*************************8866665544999************************** PP

                              SHHHHTTEEEEECCEE-HHHHHHHTTS-ECEEEECEE-CCHHHCCTTSSS-EEEE-SS-.......EEEEETTEEEEEE--G..TT CS
          AICARFT_IMPCHas 155 DpvSaFGgiialnrevdaetaeeikkefleviiApsfeeealeilkkkknlrvlelkee.......elrsvsgglLvqerdeakie 233
                              D++S+FGg++a+++ vd e+a+ +++ f+ev+iA ++++eal++++kkkn+r+l+++ +        ++s+sgglL+q++de++ e
  PHY93_20010|PHY93_20010 311 DSISSFGGVLAFSHAVDLECAKFLSERFIEVVIASDYSAEALKVFQKKKNVRLLKVPVRekmesefIVKSISGGLLMQNEDESNGE 396
                              ********************************************************873456777899****************99 PP

                              CCCSEEECSC---HHHHHHHHHHHHHCCCS-SS-EEEEETTE.....EEEEE-SSSSHHHHHHH CS
          AICARFT_IMPCHas 234 eeelkvvtkkkpteeeledllfawkvvkhvkSNaivlakdgq.....tvgiGaGqmsRvdsarl 292
                              +e l++vtk   ++e+ e + f++ ++kh+kSN i+l+ ++      + g G+Gq++R+ds++l
  PHY93_20010|PHY93_20010 397 SEPLTLVTKMDMSAEAKELVDFGILACKHLKSNGIALVYKTDkgrltLAGTGMGQPNRLDSLKL 460
                              99********9999999999***************99985544556589************996 PP

>> MGS  MGS-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.7   0.0   1.5e-21   1.4e-17       2      94 ..      21     133 ..      20     134 .. 0.93
   2 ?   -3.5   0.0       1.4   1.3e+04      23      40 ..     331     348 ..     330     353 .. 0.73
   3 ?   -4.1   0.0         2   1.8e+04      24      40 ..     424     437 ..     423     442 .. 0.58

  Alignments for each domain:
  == domain 1  score: 63.7 bits;  conditional E-value: 1.5e-21
                              HHHHHHHHHHTTCEEEEEHHHHHHHHHTT--EEECCCCHSTGSGGTHCH.....................HHHHHHHTTSCCEEEE CS
                      MGS   2 lvelakklkelgfellATgGTakllkeagipvtevvektgegerlggrv.....................eildaikngeidlvin 66 
                              l++l+  l+++++e+++TgGT+k++++ gipvt ++++tg +e  ggr+                     e   ++k + idlv++
  PHY93_20010|PHY93_20010  21 LASLVDTLHKNNVEIISTGGTKKFIEDLGIPVTCISKVTGNPEAFGGRMksisfpvtsallyrrhnstdlEEARELKIEAIDLVVC 106
                              678999*************************************************************777777777777778**** PP

                              E--THHHHHHCHHHHHHHHHHHTTSHEE CS
                      MGS  67 tlypfkatvakdgykirraaenidIplp 94 
                              +lypf +    ++ + + ++enidI++p
  PHY93_20010|PHY93_20010 107 NLYPFDQYAG-KNSEEDILIENIDIGGP 133
                              ******9987.9999***********98 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 1.4
                              HHHHHHTT--EEECCCCH CS
                      MGS  23 akllkeagipvtevvekt 40 
                              ak+l+e  i+v+  +++ 
  PHY93_20010|PHY93_20010 331 AKFLSERFIEVVIASDYS 348
                              688999999887766665 PP

  == domain 3  score: -4.1 bits;  conditional E-value: 2
                              HHHHHTT--EEECCCCH CS
                      MGS  24 kllkeagipvtevvekt 40 
                              k+lk +gi+   +v kt
  PHY93_20010|PHY93_20010 424 KHLKSNGIA---LVYKT 437
                              456677776...44444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (532 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       577  (0.0321825); expected 358.6 (0.02)
Passed bias filter:                      493  (0.0274974); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.23s 00:00:00.80 Elapsed: 00:00:00.39
# Mc/sec: 4054.44
//
Query:       PHY93_20015|PHY93_20015  [L=327]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.6e-18   65.1   0.0    1.2e-17   64.5   0.0    1.3  1  AIRS_C    AIR synthase related protein, C-terminal domain
    4.8e-13   49.6   0.1    9.1e-13   48.7   0.1    1.5  1  AIRS      AIR synthase related protein, N-terminal domain


Domain annotation for each model (and alignments):
>> AIRS_C  AIR synthase related protein, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.5   0.0   1.4e-21   1.2e-17       2     150 ..     170     320 ..     169     324 .. 0.90

  Alignments for each domain:
  == domain 1  score: 64.5 bits;  conditional E-value: 1.4e-21
                              TTEEEEEEETSSCTCCHHHHHHHCHHHCTSHTTTSEHHHHHHHHHHHHHHHHHHHH...HTTECEEEE--TTHHHHHHHHHHHTTT CS
                   AIRS_C   2 pGdvliltgslGlggagtslkrkileeeglddsavqlgdvlleptliyvkralaal...kglvkaahDvTgGGLlgalaemapasg 84 
                               Gd l+ + s G++++g+sl+rkile +       +l  + l pt+iyvk +l +l   ++++k+++ +Tg G+l +++++ ++ +
  PHY93_20015|PHY93_20015 170 SGDSLVAISSTGFHSNGYSLVRKILEIKNSS---IELKKACLIPTKIYVKTILSLLgsnRNMIKGIANITGSGFL-NIPRINEKFD 251
                              59************************99876...67***************************************.69***99977 PP

                              EEEEEECGTHHHHHHHH.....HHHHHHHCSTTTEEEEEEEHGGHHHHHHHHHHTTCCCEEEEEEEEESSS CS
                   AIRS_C  85 vgaeidldkvpifdele.....splemllsensGrllvavppeeadavlaileeeglpeaavIGevtakee 150
                                ++   + +  ++e++     ++ e+++++n+G+++v++  + + +++++l+e g+ +   +G vt++ +
  PHY93_20015|PHY93_20015 252 YHVTHAHELPSSMKEVCdlsglDDVELHRTFNMGVGMVVATNKPD-EIIKKLAELGE-NSFLLGNVTEGSG 320
                              77777777888888888888****************777666666.***********.8*********975 PP

>> AIRS  AIR synthase related protein, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.7   0.1     1e-16   9.1e-13       6      93 ..      54     156 ..      18     157 .. 0.85

  Alignments for each domain:
  == domain 1  score: 48.7 bits;  conditional E-value: 1e-16
                              EEEEEEEE.EECCTCCCC....HHHHHHHHHHHHHHTTTEEEEEEEEEEEEC.....HHHHHHHHHHHHHHHTT-EEEEEEEEEES CS
                     AIRS   6 vvttdshnrpvlvepvhf....iGakavavnlsDlaamGArPlalllslalp.....wleevvrglaeaaeelgvplvgGdtsfsn 82 
                              + +td++++++ ++   +    iG  +va++++Dl++ GArPl++l+++a +       e v++g+ +++ + +++l+gG+t++++
  PHY93_20015|PHY93_20015  54 ASSTDGVGTKIKLAIELGlhdsIGIDLVAMCVNDLICSGARPLFFLDYFASSkldleVSESVLKGIVQGCLQSQMALIGGETAEMP 139
                              6678888888777554447778**********************************99999**********************998 PP

                              S......EEEEEEEEEE CS
                     AIRS  83 e......ptisvtavGl 93 
                              +      + ++ + vG+
  PHY93_20015|PHY93_20015 140 GmyqpgdYDLAGFSVGE 156
                              87777776677776665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (327 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       440  (0.0245412); expected 358.6 (0.02)
Passed bias filter:                      410  (0.022868); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.20s 00:00:00.69 Elapsed: 00:00:00.38
# Mc/sec: 2554.38
//
Query:       PHY93_05685|PHY93_05685  [L=173]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (173 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       272  (0.015171); expected 358.6 (0.02)
Passed bias filter:                      236  (0.013163); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.19s 00:00:00.59 Elapsed: 00:00:00.36
# Mc/sec: 1446.13
//
Query:       PHY93_20020|PHY93_20020  [L=647]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.5e-23   81.4   0.0    7.3e-22   77.8   0.1    2.2  2  DUF4105        Domain of unknown function (DUF4105)
  ------ inclusion threshold ------
       0.02   14.5   0.5      0.036   13.7   0.5    1.4  1  Peptidase_M90  Glucose-regulated metallo-peptidase M90


Domain annotation for each model (and alignments):
>> DUF4105  Domain of unknown function (DUF4105)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.8   0.1   8.1e-26   7.3e-22       9     165 ..     254     420 ..     249     425 .. 0.87
   2 ?    1.0   0.0     0.033   2.9e+02       2      46 ..     501     542 ..     500     562 .. 0.84

  Alignments for each domain:
  == domain 1  score: 77.8 bits;  conditional E-value: 8.1e-26
                  DUF4105   9 tldldslslv.lfasaylnnpaSmfGHtlLrfgfkdgeed.............ravnysaevrkeenelfyalkglfggyegsfvv 80 
                              ++d+++++ v +++++ ++++ S fGH++ r+  ++  ++              +++y a+v++ +      lkgl+g+y+ ++++
  PHY93_20020|PHY93_20020 254 NIDPERVYRVdYLLASKGDEAISGFGHSMYRLIVCAPFRKtvsaeclkdklyhVVLSYRANVTDIK---SNPLKGLVGKYDSILFM 336
                              579********************************9999999*********555555556555555...899************** PP

                  DUF4105  81 apyrdkireytnvekrdvweyrLnltpeevrallahiwelk.nkpfdYyflteNCatrllelldaarpgllllsefelwvlPldtv 165
                               ++ ++i+ey+  e rd+++ +Ln+++e++r+++ +  e   +++  Y flt+NCa + ++ll+ a +++      e +v P++++
  PHY93_20020|PHY93_20020 337 LSFPKVIEEYNMSELRDLYSLPLNFSKEQKRRFIYKTLETYwEYSGSYKFLTSNCASESFDLLQGAINKHPII--NESAVKPYSLM 420
                              *********************************7777777778999*******************99966555..22456666665 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.033
                  DUF4105   2 efewwtrtldldslslvlfasaylnnpaSmfGHtlLrfgfkdgee 46 
                              +f++ +++l+ ++ +lv  +   ln+  S+++  +L++g++d +e
  PHY93_20020|PHY93_20020 501 QFQEKLQQLKNEEQTLV--TKNRLNDL-SIIAQAALSIGQHDLDE 542
                              56777788888888888..88999999.9***********99755 PP

>> Peptidase_M90  Glucose-regulated metallo-peptidase M90
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.5     4e-06     0.036     149     241 ..     138     225 ..     127     229 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 4e-06
            Peptidase_M90 149 vviHEfaHkLDmedgeadGvPplaerasaeeWaevlseeyeklrerveakeeslidpYgatnpaEFFAVasEaFFekpeklkeehp 234
                              + +HE +H  D+ +     v  l++  + ++W++ l   y+   +++++k  + idpY  ++ +E +AV  E+F  ++e  k + p
  PHY93_20020|PHY93_20020 138 TLLHETSHIYDHIHFGSTQVSGLKSFFKLSDWKRNLL--YQGSSKNLSQK--RSIDPYEYKSLEEHYAVNFEYFILDSE-YKCKRP 218
                              689*********99999999999999******99875..77777888666..99******************9976654.455566 PP

            Peptidase_M90 235 elyelLa 241
                              + y  ++
  PHY93_20020|PHY93_20020 219 SYYLYFQ 225
                              6665555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (647 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1059  (0.0590663); expected 358.6 (0.02)
Passed bias filter:                      550  (0.0306766); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.63u 0.25s 00:00:00.88 Elapsed: 00:00:00.40
# Mc/sec: 4860.28
//
Query:       PHY93_20025|PHY93_20025  [L=90]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.14   12.6   0.8        1.9    9.1   0.8    2.2  1  Ank       Ankyrin repeat


Domain annotation for each model (and alignments):
>> Ank  Ankyrin repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   0.8   0.00011       1.9       4      21 ..      40      64 ..      40      87 .. 0.80

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.00011
                             BHHHHHH.......HHTTHHHHHHH CS
                      Ank  4 TPLHlAa.......tngkkriiklL 21
                             T+LHl +       ++++kri+k+L
  PHY93_20025|PHY93_20025 40 TALHLTIkvrenkaNIKNKRILKAL 64
                             9999987886666677779999988 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (90 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       719  (0.0401026); expected 358.6 (0.02)
Passed bias filter:                      365  (0.0203581); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.36u 0.20s 00:00:00.56 Elapsed: 00:00:00.36
# Mc/sec: 756.29
//
Query:       PHY93_11930|PHY93_11930  [L=69]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.2e-10   41.4   0.0    1.4e-10   41.2   0.0    1.1  1  NAD_binding_8  NAD(P)-binding Rossmann-like domain
    5.6e-09   35.9   0.0    5.9e-09   35.8   0.0    1.0  1  FAD_oxidored   FAD dependent oxidoreductase
    1.3e-08   34.4   0.0    1.5e-08   34.2   0.0    1.0  1  FAD_binding_2  FAD binding domain
    9.1e-07   27.9   0.1    1.1e-06   27.6   0.1    1.0  1  HI0933_like    HI0933-like protein
    1.5e-06   27.5   0.0    1.6e-06   27.4   0.0    1.0  1  Lycopene_cycl  Lycopene cyclase protein
    4.5e-06   26.1   0.0    4.6e-06   26.1   0.0    1.0  1  Pyr_redox_2    Pyridine nucleotide-disulphide oxidoreductase
    6.5e-06   25.6   0.2    7.8e-06   25.4   0.2    1.0  1  FAD_binding_3  FAD binding domain
    1.2e-05   24.6   0.0    1.3e-05   24.6   0.0    1.0  1  Thi4           Thi4 family
    1.8e-05   24.5   0.0    1.9e-05   24.5   0.0    1.0  1  DAO            FAD dependent oxidoreductase
    2.1e-05   23.8   0.0    2.4e-05   23.6   0.0    1.0  1  GIDA           Glucose inhibited division protein A
    0.00015   22.2   0.0    0.00018   22.0   0.0    1.1  1  Pyr_redox      Pyridine nucleotide-disulphide oxidoreductase
    0.00091   17.9   0.0      0.001   17.7   0.0    1.0  1  GDI            GDP dissociation inhibitor
     0.0037   16.6   0.0     0.0039   16.5   0.0    1.1  1  Amino_oxidase  Flavin containing amine oxidoreductase
     0.0062   15.8   0.0     0.0072   15.6   0.0    1.0  1  Pyr_redox_3    Pyridine nucleotide-disulphide oxidoreductase
     0.0065   16.1   0.0     0.0065   16.1   0.0    1.0  1  DUF1188        Protein of unknown function (DUF1188)
  ------ inclusion threshold ------
      0.012   15.5   0.0      0.012   15.5   0.0    1.1  1  3HCDH_N        3-hydroxyacyl-CoA dehydrogenase, NAD binding d
      0.088   13.1   0.1       0.11   12.7   0.1    1.1  1  TrkA_N         TrkA-N domain
       0.09   12.1   0.0       0.09   12.1   0.0    1.1  1  GMC_oxred_N    GMC oxidoreductase


Domain annotation for each model (and alignments):
>> NAD_binding_8  NAD(P)-binding Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.2   0.0   1.4e-13   1.4e-10       1      46 [.      17      67 ..      17      69 .] 0.83

  Alignments for each domain:
  == domain 1  score: 41.2 bits;  conditional E-value: 1.4e-13
                             EE--SHHHHHHHHHHHCCTEEEEEE-SSSSSSGGG-EECE...TT..CEEC CS
            NAD_binding_8  1 IvGaGlsGlvaAylLakagfdvlllekrdrlGGraasyev...pg..vrvd 46
                             +vGaGl+G+++A  +a++g++vllle++++lGG a+ +++   ++  +++d
  PHY93_11930|PHY93_11930 17 VVGAGLAGMTLANKMARDGRSVLLLESHNKLGGFATWFKRrmdDNqeHIFD 67
                             8********************************998775545422345555 PP

>> FAD_oxidored  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.8   0.0   5.9e-12   5.9e-09       1      40 [.      14      53 ..      14      66 .. 0.90

  Alignments for each domain:
  == domain 1  score: 35.8 bits;  conditional E-value: 5.9e-12
             FAD_oxidored  1 DvvVvGGgpaGvaAAiaAaraGakvlLveergvlGGllts 40
                             Dv+VvG+g+aG++ A   ar G++vlL+e ++ lGG +t 
  PHY93_11930|PHY93_11930 14 DVIVVGAGLAGMTLANKMARDGRSVLLLESHNKLGGFATW 53
                             9***********************************9995 PP

>> FAD_binding_2  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.2   0.0   1.5e-11   1.5e-08       1      40 [.      14      53 ..      14      59 .. 0.94

  Alignments for each domain:
  == domain 1  score: 34.2 bits;  conditional E-value: 1.5e-11
                             SEEEE--SHHHHHHHHHHHHTTT-EEEEESSSGGGSGGGG CS
            FAD_binding_2  1 DviViGsGlAGLaAAleaaeaGlkvavvekeqefggataw 40
                             DviV+G+GlAG++ A ++a+ G++v+++e  ++ gg ++w
  PHY93_11930|PHY93_11930 14 DVIVVGAGLAGMTLANKMARDGRSVLLLESHNKLGGFATW 53
                             9********************************9995555 PP

>> HI0933_like  HI0933-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.6   0.1   1.1e-09   1.1e-06       1      36 [.      13      48 ..      13      49 .. 0.96

  Alignments for each domain:
  == domain 1  score: 27.6 bits;  conditional E-value: 1.1e-09
                             -SEEEE--SHHHHHHHHHHHHTT--EEEE-SSSSS- CS
              HI0933_like  1 kdviviGgGaAGlmaAisaakrgkrVlllekakklg 36
                             +dviv+G+G AG+  A ++a+ g++Vllle+ +klg
  PHY93_11930|PHY93_11930 13 YDVIVVGAGLAGMTLANKMARDGRSVLLLESHNKLG 48
                             59*******************************998 PP

>> Lycopene_cycl  Lycopene cyclase protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.4   0.0   1.7e-09   1.6e-06       1      47 [.      14      56 ..      14      67 .. 0.88

  Alignments for each domain:
  == domain 1  score: 27.4 bits;  conditional E-value: 1.7e-09
            Lycopene_cycl  1 DvvviGaGpAglslAarlteakpglkvvlieaspsllfpnnyvWsde 47
                             Dv+v+GaG+Ag+ lA+++  a+ g +v+l+e+ ++l  ++  +W   
  PHY93_11930|PHY93_11930 14 DVIVVGAGLAGMTLANKM--ARDGRSVLLLESHNKL--GGFATWFKR 56
                             9*****************..************9999..777799765 PP

>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.1   0.0   4.6e-09   4.6e-06       1      35 [.      13      47 ..      13      66 .. 0.83

  Alignments for each domain:
  == domain 1  score: 26.1 bits;  conditional E-value: 4.6e-09
                             CSEEEE--SHHHHHHHHHHHHHTS-EEEEETTHCH CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2  1 kdvvviGgGpAGlaaaltlaqagakvtlvelegtc 35
                             +dv+v+G+G AG+++a ++a+ g  v+l+e+ + +
  PHY93_11930|PHY93_11930 13 YDVIVVGAGLAGMTLANKMARDGRSVLLLESHNKL 47
                             69***************************855544 PP

>> FAD_binding_3  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.4   0.2   7.8e-09   7.8e-06       2      35 ..      13      46 ..      12      49 .. 0.95

  Alignments for each domain:
  == domain 1  score: 25.4 bits;  conditional E-value: 7.8e-09
                             EEEEEE--SHHHHHHHHHHHHTTHHEEEEESSSS CS
            FAD_binding_3  2 tdVlIVGaGpaGlmlallLseaGvrvvlvekrst 35
                             +dV++VGaG+aG++la+ +++ G +v+l+e +++
  PHY93_11930|PHY93_11930 13 YDVIVVGAGLAGMTLANKMARDGRSVLLLESHNK 46
                             69*****************************986 PP

>> Thi4  Thi4 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.6   0.0   1.3e-08   1.3e-05      17      56 ..      12      50 ..       2      58 .. 0.88

  Alignments for each domain:
  == domain 1  score: 24.6 bits;  conditional E-value: 1.3e-08
                             EEEEEEE--SHHHHHHHHHHHHCTTS-EEEEESSSS--TT CS
                     Thi4 17 esDvvivGaGssGLtaayylakkpdlkvailersvspGGG 56
                               Dv++vGaG +G+t a  +a++ +  v++le++  +GG 
  PHY93_11930|PHY93_11930 12 SYDVIVVGAGLAGMTLANKMARD-GRSVLLLESHNKLGGF 50
                             46*********************.************9994 PP

>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.5   0.0   1.9e-08   1.9e-05       1      37 [.      14      52 ..      14      58 .. 0.91

  Alignments for each domain:
  == domain 1  score: 24.5 bits;  conditional E-value: 1.9e-08
                             EEEEECTSHHHHHHHHHHHHTT..EEEEESSSSTTSSGG CS
                      DAO  1 dvviiGGGiiGlstAyeLarrg..VtllekgdiagsgaS 37
                             dv+++G+G +G++ A   ar g  V+lle+++ +g  a+
  PHY93_11930|PHY93_11930 14 DVIVVGAGLAGMTLANKMARDGrsVLLLESHNKLGGFAT 52
                             9*******************999********99996555 PP

>> GIDA  Glucose inhibited division protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.6   0.0   2.4e-08   2.4e-05       1      31 [.      14      44 ..      14      56 .. 0.85

  Alignments for each domain:
  == domain 1  score: 23.6 bits;  conditional E-value: 2.4e-08
                             CEEEE-SSHHHHHHHHHHHHTT--EEEEES- CS
                     GIDA  1 dviViGgGhAGceAAlaaarlGakvlLithk 31
                             dviV+G+G+AG+  A ++ar G +vlL+  +
  PHY93_11930|PHY93_11930 14 DVIVVGAGLAGMTLANKMARDGRSVLLLESH 44
                             8**************************9333 PP

>> Pyr_redox  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.0   0.0   1.8e-07   0.00018       2      53 ..      15      61 ..      14      66 .. 0.93

  Alignments for each domain:
  == domain 1  score: 22.0 bits;  conditional E-value: 1.8e-07
                             EEEECSSHHHHHHHHHHHHTTSEEEEEESSSSSSTTSSHHHHHHHHHHHHHT CS
                Pyr_redox  2 vvvvGgGyiglElAgalaelgkkVtvversdkllrllDeeaskilqeklekn 53
                             v+vvG+G+ g+ lA+ +a+ g +V ++e ++kl       +++++++++ +n
  PHY93_11930|PHY93_11930 15 VIVVGAGLAGMTLANKMARDGRSVLLLESHNKLG-----GFATWFKRRMDDN 61
                             89********************************.....9999999999887 PP

>> GDI  GDP dissociation inhibitor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   0.0     1e-06     0.001       3      43 ..      11      51 ..       9      59 .. 0.92

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 1e-06
                             XEECEEEE--SHHHHHHHHHHHHTT--EEEE-SSSSSCGGG CS
                      GDI  3 eeydvivlGtGlkecilsGllsvdgkkvlhldrndyyGges 43
                             + ydviv+G+Gl    l+  ++ dg+ vl l+ ++  Gg +
  PHY93_11930|PHY93_11930 11 KSYDVIVVGAGLAGMTLANKMARDGRSVLLLESHNKLGGFA 51
                             68*******************************99999866 PP

>> Amino_oxidase  Flavin containing amine oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   3.9e-06    0.0039       1      28 [.      22      49 ..      22      67 .. 0.90

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 3.9e-06
                             HHHHHHHHHHHHTTEEEEEEESSSSSBT CS
            Amino_oxidase  1 laGLaaArqLlsaGfdVtvlEardrvGG 28
                             laG++ A+++++ G++V++lE+ + +GG
  PHY93_11930|PHY93_11930 22 LAGMTLANKMARDGRSVLLLESHNKLGG 49
                             79************************** PP

>> Pyr_redox_3  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   7.3e-06    0.0072       1      41 [.      16      55 ..      16      64 .. 0.87

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 7.3e-06
              Pyr_redox_3  1 iIiGaGPaGlaaaielkkagledylilEkgnignsiyrypk 41
                             i++GaG aG++ a ++ + g  ++l lE +n    +  + k
  PHY93_11930|PHY93_11930 16 IVVGAGLAGMTLANKMARDGR-SVLLLESHNKLGGFATWFK 55
                             89******************9.8*******77767777755 PP

>> DUF1188  Protein of unknown function (DUF1188)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   6.5e-06    0.0065      42      78 ..      11      48 ..       2      65 .. 0.87

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 6.5e-06
                             ..EEEEEES-CCCHHHHHHHHCCC.EEEEEEESSGGGG CS
                  DUF1188 42 eeknvlviGaYltGaaiakkLskk.eevtlvDiephlk 78
                             ++ +v+v+Ga l G+++a+k+ ++ + v+l++ +++l 
  PHY93_11930|PHY93_11930 11 KSYDVIVVGAGLAGMTLANKMARDgRSVLLLESHNKLG 48
                             6679********************9********99986 PP

>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.5   0.0   1.2e-05     0.012       2      33 ..      15      46 ..      14      63 .. 0.92

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.2e-05
                             EEEE--SCCHHHHHHHHHHTT-EEEEE-S-HH CS
                  3HCDH_N  2 vaviGaGtmGagiaavfasagleVvlvdisee 33
                             v v+GaG+ G  +a+ +a+ g +V l++ +++
  PHY93_11930|PHY93_11930 15 VIVVGAGLAGMTLANKMARDGRSVLLLESHNK 46
                             78************************998765 PP

>> TrkA_N  TrkA-N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   0.00011      0.11       1      30 [.      15      44 ..      15      49 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 0.00011
                             EEEES-SHHHHHHHHHHHHTTEEEEEEESS CS
                   TrkA_N  1 iiiiGlGrvGrslaeeLseggkdvvvidkd 30
                             +i++G+G  G++la+++ ++g++v++ ++ 
  PHY93_11930|PHY93_11930 15 VIVVGAGLAGMTLANKMARDGRSVLLLESH 44
                             79*****************77679998875 PP

>> GMC_oxred_N  GMC oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0     9e-05      0.09       1      33 [.      13      44 ..      13      65 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 9e-05
              GMC_oxred_N  1 vdelveggGsagsvvAaRLsedpstsvlvleag 33
                             +d +v+g+G+ag ++A++++ d++ svl+le+ 
  PHY93_11930|PHY93_11930 13 YDVIVVGAGLAGMTLANKMARDGR-SVLLLESH 44
                             799****************99876.78888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (69 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       378  (0.0210832); expected 358.6 (0.02)
Passed bias filter:                      350  (0.0195214); expected 358.6 (0.02)
Passed Vit filter:                        64  (0.00356964); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              18  [number of targets reported over threshold]
# CPU time: 0.39u 0.20s 00:00:00.59 Elapsed: 00:00:00.36
# Mc/sec: 570.19
//
Query:       PHY93_11935|PHY93_11935  [L=412]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (412 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       399  (0.0222544); expected 358.6 (0.02)
Passed bias filter:                      368  (0.0205254); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.37
# Mc/sec: 3342.93
//
Query:       PHY93_11940|PHY93_11940  [L=517]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    7.5e-11   42.2   0.1    3.4e-05   23.6   0.0    2.2  2  DAO            FAD dependent oxidoreductase
    2.2e-10   40.2   0.5    0.00015   21.1   0.1    2.6  3  Pyr_redox_2    Pyridine nucleotide-disulphide oxidoreductase
    3.7e-10   39.5   0.4    0.00036   19.7   0.0    2.9  3  FAD_binding_2  FAD binding domain
    9.1e-10   37.8   2.0    3.7e-08   32.5   0.1    3.2  3  HI0933_like    HI0933-like protein
    4.8e-08   32.5   1.8     0.0052   15.9   0.0    4.0  4  GIDA           Glucose inhibited division protein A
    2.1e-07   30.5   1.5    0.00015   21.1   0.4    2.7  3  Pyr_redox_3    Pyridine nucleotide-disulphide oxidoreductase
      4e-07   29.7   0.0    0.00015   21.2   0.0    2.3  2  Amino_oxidase  Flavin containing amine oxidoreductase
    7.4e-06   26.4   1.6      0.057   14.0   0.1    2.8  2  Pyr_redox      Pyridine nucleotide-disulphide oxidoreductase
    7.3e-05   22.2   0.6     0.0021   17.4   0.1    2.2  2  FAD_binding_3  FAD binding domain
     0.0016   18.6   0.0     0.0059   16.8   0.0    2.0  1  NAD_binding_8  NAD(P)-binding Rossmann-like domain
     0.0017   18.4   1.0       0.28   11.1   0.0    2.3  2  NAD_binding_9  FAD-NAD(P)-binding
     0.0025   17.2   0.0      0.015   14.7   0.0    2.0  1  FAD_oxidored   FAD dependent oxidoreductase
  ------ inclusion threshold ------
      0.028   13.5   0.1        5.5    5.9   0.0    2.3  2  Lycopene_cycl  Lycopene cyclase protein


Domain annotation for each model (and alignments):
>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.1   3.6e-06     0.005       3      54 ..      80     132 ..      80     169 .. 0.85
   2 !   23.6   0.0   2.4e-08   3.4e-05     148     213 ..     189     254 ..     173     285 .. 0.81

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 3.6e-06
                              EEECTSHHHHHHHHHHHHTT..EEEEESSSSTTSSGGGSSEEEEESSSSTHHST CS
                      DAO   3 viiGGGiiGlstAyeLarrg..VtllekgdiagsgaSgrnsgllhsglrylpea 54 
                              +iiGGG  Gl++A+ La  g   +++e+gd+a+ +   + +++++ g+ +++++
  PHY93_11940|PHY93_11940  80 IIIGGGPGGLFCALRLADFGvpSIVIERGDRAH-ARMLHIAKFWRYGIFDTENN 132
                              7***************888999*******7777.99999999999999878766 PP

  == domain 2  score: 23.6 bits;  conditional E-value: 2.4e-08
                              HHHHHHHHHHHTT-EEEESECEEEEEEEETCEEEEEEECTEEE.EEEEEEEE--GGGHHHH.HTTCTT CS
                      DAO 148 ltaalaraaealGveilegtevtgleeedgkvwgverttpgen.daadavVnaaGawsdll.gllkel 213
                              l++ + + ++++G +++++t+v +l  e+gkv+gve  ++ge+ ++ ++vV+a+G+ ++++   l++l
  PHY93_11940|PHY93_11940 189 LINQMTDYLRSKGTQVRYNTRVDRLLTENGKVVGVE-LNNGEKlFS-KYVVLATGHSAKEMyHHLHDL 254
                              67889999****************98889******5.333888778.9********998664444555 PP

>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   2.8e-06    0.0039       4      41 ..      80     116 ..      78     175 .. 0.79
   2 !   21.1   0.1   1.1e-07   0.00015     184     256 ..     188     262 ..     173     269 .. 0.87
   3 ?   -2.4   0.0       1.5   2.1e+03     262     287 ..     473     499 ..     468     501 .. 0.75

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 2.8e-06
                              EEE--SHHHHHHHHHHHHHTS-EEEEETTHCHHHCSHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2   4 vviGgGpAGlaaaltlaqagakvtlvelegtclnggcl 41 
                              ++iGgGp+Gl +al+la  g+  +++e+++  + + +l
  PHY93_11940|PHY93_11940  80 IIIGGGPGGLFCALRLADFGVPSIVIERGDRAHAR-ML 116
                              79************************655544444.33 PP

  == domain 2  score: 21.1 bits;  conditional E-value: 1.1e-07
                              HHHHHHHHHHHHTTEEEEESCEEEEEEETTEEEE.EEETTSCEEEESEEEE-S-EEES-HHCS.HCCT-EEEETT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxx RF
              Pyr_redox_2 184 elsaaleealekeGvevklgtsvkeidgngekle.vvledgeeidadlvvvavGvrpstelle.eklglelderg 256
                               l ++++++l+ +G +v+ +t+v ++  ++ k+  v+l++ge++  ++vv+a+G +++       +lg+e+++++
  PHY93_11940|PHY93_11940 188 GLINQMTDYLRSKGTQVRYNTRVDRLLTENGKVVgVELNNGEKLFSKYVVLATGHSAKEMYHHlHDLGVEMKQKD 262
                              5667899*****************98887775556***********************88877********7665 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 1.5
                              TTS.BESSTTEEE-GGGCTECCSS--H CS
                              xxx.xxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 262 efl.rtnvpgiyaiGDvaggkggpela 287
                              e++  t+++g++ +G  ag  gg+ +a
  PHY93_11940|PHY93_11940 473 ETMeSTSHQGLFPCGEGAGHAGGITSA 499
                              556346799******999877777766 PP

>> FAD_binding_2  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   2.5e-06    0.0035       3      33 ..      80     110 ..      79     123 .. 0.91
   2 !   19.7   0.0   2.6e-07   0.00036     139     204 ..     185     245 ..     149     265 .. 0.80
   3 ?   -1.2   0.1      0.61   8.5e+02     388     408 ..     476     495 ..     383     500 .. 0.82

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 2.5e-06
                              EEE--SHHHHHHHHHHHHTTT-EEEEESSSG CS
            FAD_binding_2   3 iViGsGlAGLaAAleaaeaGlkvavvekeqe 33 
                              i+iG+G +GL +Al++a+ G   +v+e +++
  PHY93_11940|PHY93_11940  80 IIIGGGPGGLFCALRLADFGVPSIVIERGDR 110
                              8**************************9987 PP

  == domain 2  score: 19.7 bits;  conditional E-value: 2.6e-07
                              HHHHHHHHHHHHHHTCTEEEEESEEEEEEEECTTEEEEEEEEETTTTCEEEEEESEEEE-----GG CS
            FAD_binding_2 139 tghallarlvesarkagvdfqerteadeLivedgrvtGavvenpesgrevrirakavvlatgGfgr 204
                                ++l+  + +++r+ g++++ +t++d+L++e+g+v+G++++  ++++     +k vvlatg   +
  PHY93_11940|PHY93_11940 185 KIRGLINQMTDYLRSKGTQVRYNTRVDRLLTENGKVVGVELN--NGEKL---FSKYVVLATGHSAK 245
                              5678999999*******************************9..44444...4799*****98775 PP

  == domain 3  score: -1.2 bits;  conditional E-value: 0.61
                              EEESSBTEEE-STCEESSSST CS
            FAD_binding_2 388 dgqpipGLYAaGevaaggvhg 408
                              + + ++GL+ +Ge a g+ +g
  PHY93_11940|PHY93_11940 476 ESTSHQGLFPCGEGA-GHAGG 495
                              456788888888888.66655 PP

>> HI0933_like  HI0933-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.5   0.1   2.7e-11   3.7e-08       4     164 ..      80     242 ..      77     311 .. 0.82
   2 ?   -2.5   0.1       1.1   1.5e+03     269     307 ..     394     432 ..     372     452 .. 0.56
   3 ?    2.0   0.0     0.048        66     366     383 ..     471     488 ..     467     500 .. 0.88

  Alignments for each domain:
  == domain 1  score: 32.5 bits;  conditional E-value: 2.7e-11
                              EEE--SHHHHHHHHHHHHTT--EEEE-SSSSS.-HHHHHCGGGT-.......EEEETT-SGGGEEES...STTTTHHHHHHS-HHH CS
              HI0933_like   4 iviGgGaAGlmaAisaakrgkrVlllekakkl.grKilisGgGrc.......NvTnlseepeellsrypenpkflksalsrftned 81 
                              i+iGgG+ Gl++A+++a+ g   +++e+++++ +r + i+   r        Nv    e  + l+s   +  + +ks + ++  + 
  PHY93_11940|PHY93_11940  80 IIIGGGPGGLFCALRLADFGVPSIVIERGDRAhARMLHIAKFWRYgifdtenNVCY-GEGGAGLFSD-GKLITRIKSPFVQYVMNR 163
                              8***************************9887245556665444411111114444.4455666776.6778899*********** PP

                              HHHHHHHTT--EEE-STTEEEETT.-CHHHHHHHHHHHHHHT-EEE-S--EEEEECETTE.EEEEE.TTEEEEESEEEE---- CS
              HI0933_like  82 lialveelgvelkeedsgrlFpvsdkaedivdallkelkeagvklrletevksvekeedgkfrvktkseeeleadklvlAtGG 164
                              ++++ + ++ ++  + +      s+k + +++ ++  l+++g ++r++t+v ++ +e+++++ v+++++e+l ++++vlAtG 
  PHY93_11940|PHY93_11940 164 FVDFGAPKETAYISNPHL----GSNKIRGLINQMTDYLRSKGTQVRYNTRVDRLLTENGKVVGVELNNGEKLFSKYVVLATGH 242
                              ***********9998874....567999****************************************************985 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 1.1
                              STTS-...HHHHHHHHHHHTTTSBHHHHHTTTS-HHHHH CS
              HI0933_like 269 lPdldaeelkaalekekekeskkslknalaellpkrlve 307
                              l +  ++++++     k+++++  +k++++e+lp+ + +
  PHY93_11940|PHY93_11940 394 LKEFMENKISSNTGMIKTSTPSGLVKTSIREILPSFVTK 432
                              333334444444444455555555555555555554443 PP

  == domain 3  score: 2.0 bits;  conditional E-value: 0.048
                              -TTT-BBTTSTTEEE-GG CS
              HI0933_like 366 ssktmeskkvpgLffaGE 383
                              +++tmes + +gLf +GE
  PHY93_11940|PHY93_11940 471 DKETMESTSHQGLFPCGE 488
                              579**************9 PP

>> GIDA  Glucose inhibited division protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.2   0.0    0.0017       2.3       3      28 ..      80     105 ..      79     122 .. 0.85
   2 !   15.9   0.0   3.8e-06    0.0052     100     150 ..     192     242 ..     187     262 .. 0.79
   3 ?    2.9   0.0     0.035        48     160     203 ..     380     422 ..     339     428 .. 0.81
   4 ?    2.6   0.0     0.043        59     347     378 ..     472     504 ..     461     516 .. 0.78

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.0017
                              EEE-SSHHHHHHHHHHHHTT--EEEE CS
                     GIDA   3 iViGgGhAGceAAlaaarlGakvlLi 28 
                              i+iGgG  G+ +Al +a  G++ + i
  PHY93_11940|PHY93_11940  80 IIIGGGPGGLFCALRLADFGVPSIVI 105
                              79*******************98887 PP

  == domain 2  score: 15.9 bits;  conditional E-value: 3.8e-06
                              HHHHHHHTSTTEEE.EES-EEEEEECTTEEEEEEETTS-EEEECEEEE--TT CS
                     GIDA 100 evteklenepnlei.ieeeveeliveekkvkgvvtedgetikakavviatGt 150
                              ++t++l++ +  ++  + +v++l++e++kv gv +++ge++ +k vv+atG 
  PHY93_11940|PHY93_11940 192 QMTDYLRS-KGTQVrYNTRVDRLLTENGKVVGVELNNGEKLFSKYVVLATGH 242
                              56666666.33344146789*******************************8 PP

  == domain 3  score: 2.9 bits;  conditional E-value: 0.035
                              TEEEESSCTTC--B-THHHHHHH.TT--EEEEEEEE--EEEGGGS CS
                     GIDA 160 ekelsaGrlgeltseglseslke.lgfellrlktgtppridkesi 203
                              +k+ ++G   el+++ l e +++ +  +++ +kt+tp  + k+si
  PHY93_11940|PHY93_11940 380 SKQNATG--RELPAQTLKEFMENkISSNTGMIKTSTPSGLVKTSI 422
                              3334444..4789*********88**************9999998 PP

  == domain 4  score: 2.6 bits;  conditional E-value: 0.043
                              -TTSBBSSSBTEEE-CGGGTB-SHHHHHH.HHH CS
                     GIDA 347 lntLetkkvkgLflAGqinGteGYeEaaa.qGl 378
                              ++t+e+ +++gLf +G+  G  G + +aa  G+
  PHY93_11940|PHY93_11940 472 KETMESTSHQGLFPCGEGAGHAGGITSAAvDGV 504
                              359******************876666653776 PP

>> Pyr_redox_3  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.1   0.4   1.1e-07   0.00015       1      31 [.      80     109 ..      80     119 .. 0.88
   2 !    7.2   0.0    0.0019       2.7      85     134 ..     191     242 ..     168     265 .. 0.68
   3 ?   -1.5   0.0      0.83   1.1e+03     266     305 .]     447     487 ..     429     487 .. 0.73

  Alignments for each domain:
  == domain 1  score: 21.1 bits;  conditional E-value: 1.1e-07
              Pyr_redox_3   1 iIiGaGPaGlaaaielkkagledylilEkgn 31 
                              iIiG+GP Gl +a+ l ++g+   +++E+g 
  PHY93_11940|PHY93_11940  80 IIIGGGPGGLFCALRLADFGV-PSIVIERGD 109
                              8********************.678****95 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.0019
              Pyr_redox_3  85 eYlrevaksfelpiklfeeVesvkk.edegfevetske.tyeAkkviiAtGe 134
                              ++++ + +s+  +++++++V ++   +++   ve +++ ++ +k+v++AtG 
  PHY93_11940|PHY93_11940 191 NQMTDYLRSKGTQVRYNTRVDRLLTeNGKVVGVELNNGeKLFSKYVVLATGH 242
                              4445556667777777777777666234556677766547777777777775 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 0.83
              Pyr_redox_3 266 Gykpdlsflkkslfeldedgrpvlteete.etnvpglflaG 305
                              G+ +d  +l ++   +++  +++ ++et+ +t  +glf +G
  PHY93_11940|PHY93_11940 447 GFVSDKAVLIAPETRTSSPVTILRDKETMeSTSHQGLFPCG 487
                              66666666666666666555666666665268899999887 PP

>> Amino_oxidase  Flavin containing amine oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.2   0.0    0.0039       5.4       3      26 ..      88     111 ..      86     116 .. 0.94
   2 !   21.2   0.0   1.1e-07   0.00015     211     263 ..     188     243 ..     133     259 .. 0.87

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.0039
                              HHHHHHHHHHTTEEEEEEESSSSS CS
            Amino_oxidase   3 GLaaArqLlsaGfdVtvlEardrv 26 
                              GL +A +L+++G+  +v+E  dr+
  PHY93_11940|PHY93_11940  88 GLFCALRLADFGVPSIVIERGDRA 111
                              9*********************96 PP

  == domain 2  score: 21.2 bits;  conditional E-value: 1.1e-07
                              HHHHHHHH..TTTTEEEETSEEEEEEEEETTC.EEEEETTSTEEEESEEEE-S-HH CS
            Amino_oxidase 211 qlpealae..elrgldirlntrVkeikregdg.vtvtledgevveaDaVvvTvplg 263
                               l++++++  +++g+++r+ntrV ++ +e+++ v+v+l +ge++  ++Vv+++  +
  PHY93_11940|PHY93_11940 188 GLINQMTDylRSKGTQVRYNTRVDRLLTENGKvVGVELNNGEKLFSKYVVLATGHS 243
                              455666666666****************88777*******************9766 PP

>> Pyr_redox  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.7   0.0   0.00044      0.61       3      35 ..      80     112 ..      79     119 .. 0.92
   2 !   14.0   0.1   4.1e-05     0.057      44      80 ..     191     227 ..     183     229 .. 0.90

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00044
                              EEECSSHHHHHHHHHHHHTTSEEEEEESSSSSS CS
                Pyr_redox   3 vvvGgGyiglElAgalaelgkkVtvversdkll 35 
                              +++GgG  gl +A  la++g    v+er+d+  
  PHY93_11940|PHY93_11940  80 IIIGGGPGGLFCALRLADFGVPSIVIERGDRAH 112
                              69***************************9865 PP

  == domain 2  score: 14.0 bits;  conditional E-value: 4.1e-05
                              HHHHHHHHHTTEEEECSEEEEEEEEETTSEEEEEEET CS
                Pyr_redox  44 kilqeklekngievllntkveeiegsedgvesvklkd 80 
                              + ++++l+ +g +v++nt+v ++ +++ +v +v+l++
  PHY93_11940|PHY93_11940 191 NQMTDYLRSKGTQVRYNTRVDRLLTENGKVVGVELNN 227
                              679*********************99988999*9975 PP

>> FAD_binding_3  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.1   1.5e-06    0.0021       5      35 ..      80     110 ..      78     115 .. 0.91
   2 ?    2.7   0.0     0.043        60     109     165 ..     191     243 ..     184     267 .. 0.76

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 1.5e-06
                              EEE--SHHHHHHHHHHHHTTHHEEEEESSSS CS
            FAD_binding_3   5 lIVGaGpaGlmlallLseaGvrvvlvekrst 35 
                              +I+G+Gp Gl  al L+  Gv ++++e+ ++
  PHY93_11940|PHY93_11940  80 IIIGGGPGGLFCALRLADFGVPSIVIERGDR 110
                              6**************************9776 PP

  == domain 2  score: 2.7 bits;  conditional E-value: 0.043
                              HHHHHHHHHHTEEETCSEEEECCEECCCCCCCEEEECCTTEEEEEEEEEEEE--GTT CS
            FAD_binding_3 109 riLvehaeerglqvrfktevesleqdeegvtaevrdketgeeetvrakYlvGaDGgr 165
                              + + + ++++g+qvr +t+v  l+ ++ +v  +    e ++ e++ +kY+v a G  
  PHY93_11940|PHY93_11940 191 NQMTDYLRSKGTQVRYNTRVDRLLTENGKVVGV----ELNNGEKLFSKYVVLATGHS 243
                              568899999************888777765444....33344569999999998864 PP

>> NAD_binding_8  NAD(P)-binding Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   4.3e-06    0.0059       1      31 [.      81     111 ..      81     133 .. 0.91

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 4.3e-06
                              EE--SHHHHHHHHHHHCCTEEEEEE-SSSSS CS
            NAD_binding_8   1 IvGaGlsGlvaAylLakagfdvlllekrdrl 31 
                              I+G+G +Gl +A +La+ g+   ++e++dr 
  PHY93_11940|PHY93_11940  81 IIGGGPGGLFCALRLADFGVPSIVIERGDRA 111
                              9***************************997 PP

>> NAD_binding_9  FAD-NAD(P)-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   0.3     0.011        15       2      18 ..      81      97 ..      80     114 .. 0.91
   2 !   11.1   0.0    0.0002      0.28     113     155 ..     199     242 ..     186     243 .. 0.77

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.011
            NAD_binding_9  2 ivGaGprGlavlerLla 18
                             i+G+Gp Gl ++ rL++
  PHY93_11940|PHY93_11940 81 IIGGGPGGLFCALRLAD 97
                             9*************985 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 0.0002
            NAD_binding_9 113 egvtvevhraevvdleeradgq.avlladgaslaadaVvLAlGh 155
                              ++ t   ++++v +l ++++++  v l++g++l  ++VvLA+Gh
  PHY93_11940|PHY93_11940 199 SKGTQVRYNTRVDRLLTENGKVvGVELNNGEKLFSKYVVLATGH 242
                              334444579999998888888658******************** PP

>> FAD_oxidored  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.0   1.1e-05     0.015       3     144 ..      80     241 ..      80     244 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1.1e-05
             FAD_oxidored   3 vVvGGgpaGvaAAiaAaraGakvlLveergvlGGlltsglvatdig...nkaee................qvvtgiareflerlrq 69 
                              +++GGgp+G+ +A+  a  G   +++e+ ++    +   +  +  g   +   e                +++t+i   f++ + +
  PHY93_11940|PHY93_11940  80 IIIGGGPGGLFCALRLADFGVPSIVIERGDRAHARMLHIAKFWRYGifdT---EnnvcygeggaglfsdgKLITRIKSPFVQYVMN 162
                              79**************************9997777666666666664321...256778888999999998999998888888877 PP

             FAD_oxidored  70 ...rgga..rlkkrskwn....tfepevakavleemlaeagvtvllntrlvevekegkriesvtveskegrktirAkvfiDATg 144
                                 +     ++++++  n    + + + + + + + l+ +g +v +ntr+++  +e++++ +v++++   ++++ +k+++ ATg
  PHY93_11940|PHY93_11940 163 rfvD--FgaPKETAYISNphlgSNKIRGLINQMTDYLRSKGTQVRYNTRVDRLLTENGKVVGVELNN---GEKLFSKYVVLATG 241
                              4332..1223332222224344555555555556666999****************99*******76...77888888888887 PP

>> Lycopene_cycl  Lycopene cyclase protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.9   0.0     0.004       5.5       3      35 ..      80     110 ..      79     125 .. 0.87
   2 ?    5.2   0.0    0.0067       9.2      92     167 ..     192     263 ..     174     272 .. 0.76

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.004
            Lycopene_cycl   3 vviGaGpAglslAarlteakpglkvvlieasps 35 
                              ++iG+Gp gl  A rl  a  g+  ++ie ++ 
  PHY93_11940|PHY93_11940  80 IIIGGGPGGLFCALRL--ADFGVPSIVIERGDR 110
                              89**************..888888888887775 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.0067
            Lycopene_cycl  92 ellerlv.engvklleakvesveeeeageslvvleggrkirarlvvdarglaslkkarrlglQtfyGvevevdnppf 167
                              ++   l  ++   +++ +v++   e+   + v l++g+k+ ++ vv a+g  s+    + ++ + + + ve++++ f
  PHY93_11940|PHY93_11940 192 QMTDYLRsKGTQVRYNTRVDRLLTENGKVVGVELNNGEKLFSKYVVLATG-HSA----KEMYHHLHDLGVEMKQKDF 263
                              55555662334557899*****999998999*******************.444....4455566666666666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (517 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       513  (0.0286129); expected 358.6 (0.02)
Passed bias filter:                      492  (0.0274416); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.62u 0.23s 00:00:00.85 Elapsed: 00:00:00.37
# Mc/sec: 4156.87
//
Query:       PHY93_11945|PHY93_11945  [L=433]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.3e-52  176.1   0.0    5.4e-52  175.5   0.0    1.4  1  CinA           Competence-damaged protein
    3.9e-28   97.9   0.0    9.1e-28   96.7   0.0    1.6  2  MoCF_biosynth  Probable molybdopterin binding domain


Domain annotation for each model (and alignments):
>> CinA  Competence-damaged protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  175.5   0.0     6e-56   5.4e-52       3     154 ..     279     430 ..     277     431 .. 0.97

  Alignments for each domain:
  == domain 1  score: 175.5 bits;  conditional E-value: 6e-56
                     CinA   3 slaeevvkllkkkgltlatAEScTGGllaaaltsvpGaSavfeggvvtYsneaKeelLgvseetleehgavSeevaeemaegarer 88 
                              +++e v++l++ k++t ++AEScTGGl+a+++t+++G+S+vf gg+vtY+neaK +lLgv+++tle++gavS eva+ema ga+ +
  PHY93_11945|PHY93_11945 279 AVNEMVLDLAIFKKRTFSFAESCTGGLVASKITDLSGSSSVFMGGFVTYANEAKINLLGVKPSTLENFGAVSIEVATEMAIGALLK 364
                              57899999****************************************************************************** PP

                     CinA  89 lgadiavavtGiAGpsggteekpvGtvyialagkggveveklefegdreeireaavkaALellrel 154
                              +++d+a++++GiAGp+ggt ++pvGtv+i++a+k+++ ++k+ f+gdr + +e++ + AL  l++l
  PHY93_11945|PHY93_11945 365 FKTDYAISISGIAGPTGGTLDRPVGTVVIGFATKNKSGARKFLFPGDRIRRKERFSEMALLTLLKL 430
                              ************************************************************999876 PP

>> MoCF_biosynth  Probable molybdopterin binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   96.7   0.0     1e-31   9.1e-28       2     143 ..      21     187 ..      20     188 .. 0.96
   2 ?   -2.9   0.0      0.53   4.7e+03     102     126 ..     386     411 ..     339     423 .. 0.66

  Alignments for each domain:
  == domain 1  score: 96.7 bits;  conditional E-value: 1e-31
                              EEEE-HHHHTTSSGBHHHHHHHHHHHTTSEEEEEEEEE-SSHHHHHHHHHHHHHTSSEEEEESS-SSSTT--HHHHHHHHHSEE-H CS
            MoCF_biosynth   2 vitvGdellsgkieDtngpllaellkelgvevskytvvpDdeeeikeallaaleeadviittGGtGptpdDvtpealaklfekele 87 
                              +i++Gde+l+g++ D ng++l+++l+  g+e ++++ + Dd++ei +al a+++e+d++it+GG+Gpt dD t+ +la++f+k++ 
  PHY93_11945|PHY93_11945  21 MIVIGDEILNGRTADLNGSWLSKYLFIKGLEFKALRFIHDDIDEINHALSASMNESDIVITSGGIGPTIDDKTKNTLANFFQKKII 106
                              79***********************************************9999********************************9 PP

                              HHHHHHHHHHHHHCC........................TTSHGGGGGGE.EETTE.EEEE-SSHHHHHHHHHHHHHGGHH CS
            MoCF_biosynth  88 gfeeafrrvslkpgk........................pvgvapgailsravgkt.iigLPGspkavkealeeillpale 143
                              +   + + v++++ +                        p g+apg++  ++++k+ +++ PG+p++++e++e+  +p ++
  PHY93_11945|PHY93_11945 107 ERIDVADIVTNNYAQfgrswtpeqnryhffpedfmatnnPRGLAPGIVYFEETKKKlVMAGPGVPREFTEIVEKEFYPLIQ 187
                              999999999999999*******************************99988887776889*************99999876 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 0.53
                              CTTSHGGGGGGE.EE.TTEEEEE-SS CS
            MoCF_biosynth 102 kpvgvapgailsrav.gktiigLPGs 126
                              +pvg++ +    ++  g+  +  PG 
  PHY93_11945|PHY93_11945 386 RPVGTVVIGFATKNKsGARKFLFPGD 411
                              36666666555444435557777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (433 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       351  (0.0195772); expected 358.6 (0.02)
Passed bias filter:                      309  (0.0172346); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.18s 00:00:00.67 Elapsed: 00:00:00.36
# Mc/sec: 3619.53
//
Query:       PHY93_11950|PHY93_11950  [L=98]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.041   14.0   0.5      0.074   13.1   0.5    1.5  1  FeoC      FeoC like transcriptional regulator
      0.082   12.9   1.5       0.34   11.0   1.5    2.0  1  DUF2680   Protein of unknown function (DUF2680)


Domain annotation for each model (and alignments):
>> FeoC  FeoC like transcriptional regulator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.5   8.3e-06     0.074      23      49 ..      40      66 ..      28      75 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 8.3e-06
                     FeoC 23 hfkaspealeamLeqwvrkGrvekvaa 49
                               + +++++e+mL+ +v  Gr+  ++ 
  PHY93_11950|PHY93_11950 40 SIRLEKKQVESMLDKMVISGRISAEEG 66
                             567899****************98765 PP

>> DUF2680  Protein of unknown function (DUF2680)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   1.5   3.8e-05      0.34      22      50 ..      50      78 ..      24      85 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 3.8e-05
                  DUF2680 22 qivdKyVeaGllTkeqgekikkniDkrlk 50
                              + dK V  G++  e g k k  i  + +
  PHY93_11950|PHY93_11950 50 SMLDKMVISGRISAEEGSKAKREIASMKD 78
                             59*******************99977765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (98 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1174  (0.0654805); expected 358.6 (0.02)
Passed bias filter:                      553  (0.0308439); expected 358.6 (0.02)
Passed Vit filter:                        60  (0.00334653); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.40u 0.23s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 761.95
//
Query:       PHY93_11955|PHY93_11955  [L=1660]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1660 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       669  (0.0373138); expected 358.6 (0.02)
Passed bias filter:                      410  (0.022868); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.92u 0.25s 00:00:01.17 Elapsed: 00:00:00.42
# Mc/sec: 11940.88
//
Query:       PHY93_11960|PHY93_11960  [L=267]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.3e-76  255.7  17.8      6e-76  255.5  17.8    1.0  1  BacA      Bacitracin resistance protein BacA
  ------ inclusion threshold ------
      0.072   13.2   1.6       0.41   10.8   0.1    2.7  2  DUF1435   Protein of unknown function (DUF1435)


Domain annotation for each model (and alignments):
>> BacA  Bacitracin resistance protein BacA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  255.5  17.8   6.7e-80     6e-76       2     256 .]       8     263 ..       7     263 .. 0.91

  Alignments for each domain:
  == domain 1  score: 255.5 bits;  conditional E-value: 6.7e-80
                     BacA   2 iilGivqGltefLPvSSsGhlilveellglekedlllfdvvihlGtllAvlvlfrkdilrllkgllkslkkkkkekeelrllllii 87 
                              iilGiv+GltefLPvSS+Ghli++++ll+l++e+++ f+++i+lG++lAv++l+ +++ +l+  + +  + kk+ +++   +++i 
  PHY93_11960|PHY93_11960   8 IILGIVEGLTEFLPVSSTGHLIMASDLLHLDQEKFASFNIIIQLGAILAVVFLYHNRFRNLCN-IKRLKSLKKNLNQKGLNAIHIA 92 
                              9*****************************9888888*********************99654.33333333334555555669** PP

                     BacA  88 vatipaailglllkdlieellrsplvvaialivtglllllaeklrkk.kkksledltlkdalliGlaQalAllPGvSRSGaTivag 172
                              +a++p++ +g+l  ++++++l++p vv+  l+++g+++l++ek++ k +  +++++t+kda++iG+ Q++Al+PGvSRSGaT++++
  PHY93_11960|PHY93_11960  93 IAIVPTLAIGYLGRKFVKAHLFTPSVVVSSLVIVGVIMLIVEKIKPKaTVITVDEITYKDAFIIGISQCFALVPGVSRSGATMLTA 178
                              ******************************************887663555668******************************** PP

                     BacA 173 lllglsreaaaefSFllaiPailgagllkllksaealtaselll.lvgfvvafvvallaikfllkllkkkklkvFaiYrivlGll 256
                              ++++++  +aa+fSFl+++P+i+ a+++++lks ++++++++l  l+gf+v+f+val+ai+ +l +lkk +l++FaiYriv+Gll
  PHY93_11960|PHY93_11960 179 MMRKVDVVTAADFSFLISVPVITIATVYEFLKSYSSFNSADTLQlLIGFIVSFIVALAAINGFLAVLKKLSLAPFAIYRIVAGLL 263
                              *****************************999999999988777799************************************85 PP

>> DUF1435  Protein of unknown function (DUF1435)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.1   4.6e-05      0.41      23      54 ..      36      67 ..      25      71 .. 0.82
   2 ?    0.2   0.2     0.089     8e+02      36      63 ..      91     120 ..      77     135 .. 0.53

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 4.6e-05
                  DUF1435 23 alaelsldqlrviivlallltvvmLyhkrlRH 54
                              l +  ++ + +ii l+ +l+vv Lyh+r+R 
  PHY93_11960|PHY93_11960 36 HLDQEKFASFNIIIQLGAILAVVFLYHNRFRN 67
                             45555678899******************995 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.089
                  DUF1435  36 ivlallltvvmLy..hkrlRHylLLPscla 63 
                              i++a++ t+++ y   k ++ +l  Ps++ 
  PHY93_11960|PHY93_11960  91 IAIAIVPTLAIGYlgRKFVKAHLFTPSVVV 120
                              555666665554422455677777777642 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (267 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1171  (0.0653132); expected 358.6 (0.02)
Passed bias filter:                      528  (0.0294495); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.38
# Mc/sec: 2083.82
//
Query:       PHY93_11965|PHY93_11965  [L=1059]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
       0.13   12.4   8.5        1.9    8.7   0.1    4.0  4  DUF5618          Domain of unknown function (DUF5618)


Domain annotation for each model (and alignments):
>> DUF5618  Domain of unknown function (DUF5618)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.0      0.54   9.6e+03      46      68 ..      59      81 ..      56      89 .. 0.60
   2 ?    8.7   0.1    0.0001       1.9      35      96 ..     158     226 ..     145     239 .. 0.87
   3 ?    6.3   0.1   0.00059        11      28      81 ..     381     442 ..     376     483 .. 0.72
   4 ?   -0.9   0.3       0.1   1.8e+03      19      51 ..     961     992 ..     951    1011 .. 0.70

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 0.54
                             HHHHHHHH---S...SS-.--HH CS
                  DUF5618 46 Llaldellgkkglekkkrpksve 68
                             L +  ++lg+k++  +++  sv+
  PHY93_11965|PHY93_11965 59 LGVYANYLGQKQQMLQQQISSVN 81
                             55556666776665555555554 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 0.0001
                              HHHHHHHHHHHHHHHHHHH---S...SS-.--HHHHHHHHHC.......C-HHHHHHHHHHHHHHIIII CS
                  DUF5618  35 keAggtAYsgvLlaldellgkkglekkkrpksvetYkealkk.......ldkkllkefnsaydvLhlag 96 
                               eA++t Y+  L  l +  + ++ + +++ +s++  + ++++       ++kkll+++n+a+d L  ag
  PHY93_11965|PHY93_11965 158 NEASNTSYAVGLRCLGDKQKAMDSQLTEMVNSLQRLQDRMNQdkqifrdNNKKLLEDMNTANDELFGAG 226
                              68999***99999999999999999999999999999999999999999**************996655 PP

  == domain 3  score: 6.3 bits;  conditional E-value: 0.00059
                              E--HHHHHHHHHHHHHHHHHHHHHHH---S....SS-.--HHHHHHHHHC.......C-HHH CS
                  DUF5618  28 YkdkkyvkeAggtAYsgvLlaldellgkkglek.kkrpksvetYkealkk.......ldkkl 81 
                              +  kkyv   +  A sg+ + ++++l+  +++  +   +  + Y++alk+       +d k+
  PHY93_11965|PHY93_11965 381 FFKKKYVNDCVTGASSGIAIPVEDILKSLEQKStNSEGTARNDYRAALKRildsdamMDDKM 442
                              7789**********************998876633344567899999999877555534433 PP

  == domain 4  score: -0.9 bits;  conditional E-value: 0.1
                              HHS-EETTEE--HHHHHHHHHHHHHHHHHHHHH CS
                  DUF5618  19 ekakkedklYkdkkyvkeAggtAYsgvLlalde 51 
                              +   k+++  k+ k +k A   AYs+ L+   e
  PHY93_11965|PHY93_11965 961 SDPAKKEDALKEIKTLKIAK-NAYSAKLEKAKE 992
                              44445556679999999995.589998876554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1059 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1795  (0.100117); expected 358.6 (0.02)
Passed bias filter:                      664  (0.037035); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.83u 0.25s 00:00:01.08 Elapsed: 00:00:00.41
# Mc/sec: 7819.57
//
Query:       PHY93_05690|PHY93_05690  [L=292]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
     0.0027   17.5   0.1      0.026   14.3   0.0    2.1  2  Peptidase_M48  Peptidase family M48


Domain annotation for each model (and alignments):
>> Peptidase_M48  Peptidase family M48
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.3   0.0   1.4e-06     0.026      31      77 ..      82     129 ..      48     135 .. 0.85
   2 ?    0.9   0.0     0.019   3.3e+02     136     189 ..     145     244 ..     143     246 .. 0.60

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.4e-06
                              -GGGT-EEEEESSS-EEEEEEHHHH.-SSB-HHHHHHHHHHHHHHHHT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48  31 nspkrNAFalgggknkrivltdgLl.kqllseeelaaVlGHElGHikh 77 
                              ++ ++NA+a   g + ++ ++ gL  + l++++  + V  HE+GH+  
  PHY93_05690|PHY93_05690  82 DDGTVNAYANRTGSTWHVNMFGGLArHPLVTDDGFLLVVCHETGHHLG 129
                              45567********888********944589***************976 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.019
                              HHHHHHHHHHHTTT.HHHHHHHHHHHHHHTT--S---HHHH............................................. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx............................................. RF
            Peptidase_M48 136 rEyqADeagvellkrakdlvraliklakdlerqdvsaslrs............................................. 176
                              +E qAD +g   ++++   ++  + + ++++ +++++s+ +                                             
  PHY93_05690|PHY93_05690 145 NEGQADYFGSLKCMKRVLSADDNQAIMAKATIDPEAKSKCEmvyksgdeialceriamagkslaqllgdlggnpnvsfttpdssvv 230
                              67888888755555466666666666666666555555555555555556666666666666666666666666666666666677 PP

                              .HHS-SS--HHHHH CS
                              .xxxxxxxxxxxxx RF
            Peptidase_M48 177 .ellstHPplleRi 189
                               + + +HP  + R+
  PHY93_05690|PHY93_05690 231 kKTFDAHPQAQCRM 244
                              77777777777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (292 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       433  (0.0241508); expected 358.6 (0.02)
Passed bias filter:                      388  (0.0216409); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.38
# Mc/sec: 2286.77
//
Query:       PHY93_11970|PHY93_11970  [L=769]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    0.00096   18.4   0.1     0.0046   16.2   0.0    1.9  2  Peptidase_M36  Fungalysin metallopeptidase (M36)


Domain annotation for each model (and alignments):
>> Peptidase_M36  Fungalysin metallopeptidase (M36)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.1     0.033   5.9e+02      89     112 ..     125     148 ..      95     156 .. 0.81
   2 !   16.2   0.0   2.6e-07    0.0046     174     308 ..     218     368 ..     161     404 .. 0.77

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 0.033
                              GGGGHHHHHHHHHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M36  89 pkkyadaavtnlFYtnnlihDlly 112
                              ++++ ++  +n FY+ n + Dl++
  PHY93_11970|PHY93_11970 125 NATSSEFLQVNTFYHLNEVSDLFF 148
                              4555677889***********987 PP

  == domain 2  score: 16.2 bits;  conditional E-value: 2.6e-07
                              S-EEGGG-HHHHHHHHHH.......HHHHHHTT-TT---TT-SHHHHHHHHHHHHHHHHHHH--T--T.T--B-SSHHHHT-TT.. CS
                              xxxxxxxxxxxxxxxxxx.......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.. RF
            Peptidase_M36 174 parDgdldngiviHEytH.......GlsnRLtGgpanssclqtkesggmgEGwsDflallltlkeddeaekdrgigtyaanqpk.. 250
                              p+   + dn+ ++HE +H        + n L+G   n++ l  +e+g++gEG sD+++ +++ +++     + + g+++ +++   
  PHY93_11970|PHY93_11970 218 PTVKWAQDNTAIYHETGHffqklqlNMRNPLVGPRVNMGNLFYDEAGSIGEGLSDYYSYFVNGRTH---FAEWAAGRFLRASRPms 300
                              5555667999********555554345677******************************999773...56888899988775555 PP

                              ...-SSSS-B-S-TTT----G.GGG..G......G--SHHHHHHHHHHHHHHHHHHHHHHH-----EET CS
                              ...xxxxxxxxxxxxxxxxxx.xxxx.x......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M36 251 ...giRkypYstdltvnpltY.kdlk.e......elsevhaiGevWaeiLwevtwalidkhGfsadlkk 308
                                  i  +  std + + l+Y + l+ +       l++vh  G + ++ L  +t++l dk  +s+ + +
  PHY93_11970|PHY93_11970 301 erdPIHVAGLSTDPDQR-LSYpQFLNyNpnnptiPLEDVHYAGMIISHYLVALTEDLEDKCAISPRVAS 368
                              55567777777776643.233122222134445588999999999999999999999999999986653 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (769 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       457  (0.0254894); expected 358.6 (0.02)
Passed bias filter:                      376  (0.0209716); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.67u 0.26s 00:00:00.93 Elapsed: 00:00:00.45
# Mc/sec: 5189.85
//
Query:       PHY93_11975|PHY93_11975  [L=224]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.055   13.1   0.1      0.079   12.6   0.1    1.2  1  FTA2      Kinetochore Sim4 complex subunit FTA2


Domain annotation for each model (and alignments):
>> FTA2  Kinetochore Sim4 complex subunit FTA2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.1   4.4e-06     0.079     140     206 ..      43     115 ..      23     119 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 4.4e-06
                     FTA2 140 t..e....drsralgeedgkkrpiraIVKelellkeqeelevsqlpkllrdlkk.lhklgIvvrDlkeenyidg 206
                                 e    + ++++ e++  + p r I +e   ++ ++e++ +q  k+l+d +  l+++ +++ D++++ny d 
  PHY93_11975|PHY93_11975  43 SnlEisghKTTKKELEAARVPSPKREIAQE-SNQNANDERNFEQQAKILKDNHFlLREERVLIGDIQKRNYQDE 115
                              223123445567777889999*********.77899999***********999626889************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (224 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       875  (0.0488036); expected 358.6 (0.02)
Passed bias filter:                      415  (0.0231469); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.31s 00:00:00.82 Elapsed: 00:00:00.49
# Mc/sec: 1375.05
//
Query:       PHY93_11980|PHY93_11980  [L=187]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    8.2e-05   22.8   7.0     0.0002   21.6   7.0    1.9  1  OMP_b-brl  Outer membrane protein beta-barrel domain


Domain annotation for each model (and alignments):
>> OMP_b-brl  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.6   7.0   1.1e-08    0.0002       4     178 .]      14     186 ..       8     186 .. 0.61

  Alignments for each domain:
  == domain 1  score: 21.6 bits;  conditional E-value: 1.1e-08
                OMP_b-brl   4 lllaalsaaaaaassfggfyvggglglskvkvdgvgsdsg.fgfgvgagyefndnvgvegglsy..sgdkdysgsgktdikinlls 86 
                              l+l++l  +a a+     + +g +++   ++ +gv+ +++ + +g+++g +   ++g+++gl+y  s+   +++ ++ d k +  +
  PHY93_11980|PHY93_11980  14 LVLTILTSSAHAS-LLIEPHLGYNISGGGTT-SGVEYKYTnPELGLRLGGQ---ILGLMAGLDYtfSSYTWTQS-PGGDDKFDRGE 93 
                              4444444444432.23455555555444444.5665554337888888844...45555555553122222222.22232334456 PP

                OMP_b-brl  87 vpvnagyafnlsdsvlpyggaGlgytkvevdvsgngasdsdtdfglglgaGveyaladnwslkaeYrytdlks....dadndlknn 168
                              v++ +gy+f++   ++  g + +++t+ +++  g+   +     g + ++Gv++   + +sl++ Yr + ++s     +++d++n+
  PHY93_11980|PHY93_11980  94 VGLFVGYNFPIL--LRFWGAYYFSNTAKDTNSTGK-TATGAEFKGNTKELGVGFTGIPFLSLNLMYRNVVFDSkpavVTGGDISNH 176
                              **********83..444444444554445555555.24444455555689******************9998899**999****** PP

                OMP_b-brl 169 tfqvgvgyrF 178
                              ++ +gv+  F
  PHY93_11980|PHY93_11980 177 EVVLGVSLPF 186
                              ******9766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (187 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       278  (0.0155056); expected 358.6 (0.02)
Passed bias filter:                      242  (0.0134977); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.42
# Mc/sec: 1329.87
//
Query:       PHY93_11985|PHY93_11985  [L=215]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.4e-39  135.8   0.8    1.5e-39  135.6   0.8    1.0  1  CoA_trans        Coenzyme A transferase
    1.2e-05   25.3   0.1    1.7e-05   24.8   0.1    1.3  1  AcetylCoA_hyd_C  Acetyl-CoA hydrolase/transferase C-terminal 


Domain annotation for each model (and alignments):
>> CoA_trans  Coenzyme A transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  135.6   0.8   1.7e-43   1.5e-39       2     216 ..       6     200 ..       5     201 .. 0.95

  Alignments for each domain:
  == domain 1  score: 135.6 bits;  conditional E-value: 1.7e-43
                              CHHHHHHCTT--TTEEEEE-SBTTBTHHHHHHHHHHHHTTTSEEEEESTTTEECCHHHHHTTTEEEEEESCTTBBCEHHHHHHHHT CS
                CoA_trans   2 etaaeavakeikdGmtvavGGFgligiPealiaalarsgvkdltviiseagvlglgplllngsvkkviasyggetvnprfgkqfls 87 
                              e++a+++a+e kdG +v++G    igiP +l+a++++     +++++se+g+lg+g  + + +v+ +++++g++tv+++ g+ f++
  PHY93_11985|PHY93_11985   6 EQIAQRIAQEMKDGYYVNLG----IGIP-TLVANYIPP--GMQVMLQSENGILGMGEFPTDDNVDPDLINAGKQTVTVVKGAVFFN 84 
                              789*****************....****.********9..99******************************************** PP

                              TSSEEEEHHHHHHHHHHHHHHHTEETTEEEESTTTTSHGGTTESEEEEETTEEEEEEESSSEEEEEEECCEEETTCSEESSGGGHT CS
                CoA_trans  88 gelefellpqgtlaerlraGgaglpelgfltntgigtlvapklkkvpgfgGaeyilepalkadvalikaskadeegnlvfeksagn 173
                              ++ +f+ +++g++++ +++G+ ++++ g +++++++    +k   v+g+gGa++++ +a + +v+ + +s++ +e+++  ++ ++ 
  PHY93_11985|PHY93_11985  85 SADSFA-MIRGGHVDLTVLGAFEVDQCGSIASWMVP----GK--LVKGMGGAMDLVAGAQN-IVVAMAHSNK-GESKILTKCKLPL 161
                              ******.*****************************....77..9***************7.7777777766.6899999999*** PP

                              THSHHHHHHEEEEEEEEEEEECTTSSECCCESBTGGGHSEEEE CS
                CoA_trans 174 fnkpaiaeaakvtileveeivekgkldpekvliPgvlvdavve 216
                              ++  +i+  ++vt+l+v+ei  k    ++ +  Pgv+v+++v 
  PHY93_11985|PHY93_11985 162 TGVSCIK--KVVTDLAVLEI--KDGAFHLLERAPGVSVEQIVS 200
                              **99999..9**********..9999***************95 PP

>> AcetylCoA_hyd_C  Acetyl-CoA hydrolase/transferase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.8   0.1   1.9e-09   1.7e-05      37     120 ..     100     173 ..      69     190 .. 0.81

  Alignments for each domain:
  == domain 1  score: 24.8 bits;  conditional E-value: 1.9e-09
                              EEEE-SEEETTS-EESSECTTCCTCGGTTHHHHHHHHHHSTT-EEEEE--SEETTTTEESEESS-STTSSECE-TTT-SEEEET CS
          AcetylCoA_hyd_C  37 sinsalevdltGqvnseslggrvvsGvGgqldFvrgaalskggksiialpStakkgeiSrIvpslkegahvtttrhdvdyvvTE 120
                              ++  a+evd  G+++s ++ g+ v G+Gg +d v+ga++      i++  + ++kge S+I+  +k      t  + ++ vvT+
  PHY93_11985|PHY93_11985 100 TVLGAFEVDQCGSIASWMVPGKLVKGMGGAMDLVAGAQN------IVVAMAHSNKGE-SKILTKCK---LPLTGVSCIKKVVTD 173
                              566799*******************************99......777777777787.99998888...444455555556665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (215 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       295  (0.0164538); expected 358.6 (0.02)
Passed bias filter:                      266  (0.0148363); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.21s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 1624.00
//
Query:       PHY93_11990|PHY93_11990  [L=230]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    4.5e-71  238.7   0.7      5e-71  238.5   0.7    1.0  1  CoA_trans  Coenzyme A transferase


Domain annotation for each model (and alignments):
>> CoA_trans  Coenzyme A transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  238.5   0.7   2.8e-75     5e-71       1     215 [.       8     217 ..       8     219 .. 0.99

  Alignments for each domain:
  == domain 1  score: 238.5 bits;  conditional E-value: 2.8e-75
                              CCHHHHHHCTT--TTEEEEE-SBTTBTHHHHHHHHHHHHTTTSEEEEESTTTE..ECCHHHHHTTTEEEEEESCTTBBCEHHHHHH CS
                CoA_trans   1 vetaaeavakeikdGmtvavGGFgligiPealiaalarsgvkdltviiseagv..lglgplllngsvkkviasyggetvnprfgkq 84 
                              ve+ +ea++  +kd+mtv+vGGFgl+giPe li+++++ +v++ t+i+++agv  +glg ll  +++k +i sy+ge  n  f+kq
  PHY93_11990|PHY93_11990   8 VESYDEALN-GLKDNMTVMVGGFGLCGIPEGLIKKMYEMNVQGITCISNNAGVdgFGLGILLERNQIKTMIGSYVGE--NALFEKQ 90 
                              57899***9.*******************************************************************..******* PP

                              HHTTSSEEEEHHHHHHHHHHHHHHHTEETTEEEESTTTTSHGGTTESEEEEETTEEEEEEESSSEEEEEEECCEEETTCSEESSGG CS
                CoA_trans  85 flsgelefellpqgtlaerlraGgaglpelgfltntgigtlvapklkkvpgfgGaeyilepalkadvalikaskadeegnlvfeks 170
                              fl+ge+++ l+pqgtlae +raGgag+p  gf+t tg gt va++ k+v++f+G++yile++ + d+ li+a+kad++gnl f+k+
  PHY93_11990|PHY93_11990  91 FLNGEMKVILTPQGTLAEKIRAGGAGIP--GFFTATGFGTPVAEG-KEVKEFNGRKYILEESYTSDFSLIRAWKADRYGNLIFRKT 173
                              ****************************..***************.9*************************************** PP

                              GHTTHSHHHHHHEEEEEEEEEEEECTTSSECCCESBTGGGHSEEE CS
                CoA_trans 171 agnfnkpaiaeaakvtileveeivekgkldpekvliPgvlvdavv 215
                              a+nfn p++a+a+k+t++eveeive g+ldp+ +++Pg++v +v+
  PHY93_11990|PHY93_11990 174 AANFN-PMMATAGKITVAEVEEIVEPGELDPNFIHTPGIFVTRVI 217
                              *****.************************************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (230 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       287  (0.0160076); expected 358.6 (0.02)
Passed bias filter:                      263  (0.014669); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.38u 0.21s 00:00:00.59 Elapsed: 00:00:00.35
# Mc/sec: 1986.95
//
Query:       PHY93_11995|PHY93_11995  [L=187]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.5e-57  192.4   0.1    6.6e-57  192.1   0.1    1.0  1  Fumerase_C       Fumarase C-terminus
  ------ inclusion threshold ------
       0.12   11.9   0.0       0.13   11.8   0.0    1.2  1  NTP_transferase  Nucleotidyl transferase


Domain annotation for each model (and alignments):
>> Fumerase_C  Fumarase C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  192.1   0.1   7.4e-61   6.6e-57      32     205 ..       4     176 ..       2     177 .. 0.97

  Alignments for each domain:
  == domain 1  score: 192.1 bits;  conditional E-value: 7.4e-61
               Fumerase_C  32 LnqketeeelskykvgtrlllsGkllvaRDaaHkrlkerlekgeelpeyvklkdrviYyaGPv....ktpedeavgsaGPTTatRm 113
                              Ln + t+e+++++kvg+++l++Gkl+++RDa+Hkrl++    g + p  v+l++++iY++GPv    k++++++v++aGPTT++R+
  PHY93_11995|PHY93_11995   4 LNYPFTHEQVKELKVGDMVLITGKLFTGRDAVHKRLHD----GVKPP--VDLNNQIIYHCGPVilqdKKTKEYKVTAAGPTTSIRE 83 
                              6778899*****************************95....78889..9****************9999**************** PP

               Fumerase_C 114 dkyvekllkktgllimlaKgnrskkvleaikkhggvYLgaiGGaAilakkaikkvevvefeelGm.EAiyeievedfpafvvvddk 198
                              ++y+++++k+ g++++++Kg++++k+l+ ++++g+vY+ aiGGaA++ +++i +v+ v +++lG  EAi+e++v+dfp++v++d++
  PHY93_11995|PHY93_11995  84 EPYQADVMKDYGIVGVIGKGGMGPKTLKGCEDYGCVYFHAIGGAAQVLAEKIDSVDAVYWQDLGSpEAIWELSVTDFPVVVTMDAH 169
                              ****************************************************************99******************** PP

               Fumerase_C 199 Gndlfke 205
                              Gn+l+++
  PHY93_11995|PHY93_11995 170 GNSLHAD 176
                              *****86 PP

>> NTP_transferase  Nucleotidyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   1.4e-05      0.13     227     243 ..     127     157 ..      32     160 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 1.4e-05
                              E..............-EEEXSSHHHHHHHHH CS
          NTP_transferase 227 e..............yWsDvGtldslleane 243
                              +              yW+D+G++++++e + 
  PHY93_11995|PHY93_11995 127 AaqvlaekidsvdavYWQDLGSPEAIWELSV 157
                              044444555556667************9875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (187 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       390  (0.0217525); expected 358.6 (0.02)
Passed bias filter:                      368  (0.0205254); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.37
# Mc/sec: 1506.36
//
Query:       PHY93_12000|PHY93_12000  [L=345]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.7e-66  223.3   0.0    3.7e-66  223.3   0.0    1.5  2  Fumerase  Fumarate hydratase (Fumerase)
     0.0045   17.1  25.3     0.0079   16.3  25.3    1.4  1  HC2       Histone H1-like nucleoprotein HC2
  ------ inclusion threshold ------
       0.27   11.1   1.1       0.38   10.6   1.1    1.1  1  FdhE      Protein involved in formate dehydrogenase formation


Domain annotation for each model (and alignments):
>> Fumerase  Fumarate hydratase (Fumerase)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.4      0.54   3.2e+03      98     103 ..      26      31 ..       5      59 .. 0.43
   2 !  223.3   0.0   6.2e-70   3.7e-66       5     268 ..      64     333 ..      60     335 .. 0.95

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 0.54
                 Fumerase  98 Rksvva 103
                              +  v a
  PHY93_12000|PHY93_12000  26 KTKVAA 31 
                              111111 PP

  == domain 2  score: 223.3 bits;  conditional E-value: 6.2e-70
                 Fumerase   5 eealkeastelpedvlealkkalek.EesenakevleqlleNaeiAaeeklplCqDTGiavvfvkigeevevetgdleeaineGvr 89 
                               e++k +s  lp+dv++ + +al++ E++++a+++++ +  N+e+A++++ plCqDTG++ +++     +   ++++++ i+++v 
  PHY93_12000|PHY93_12000  64 IELIKITSAVLPDDVQKVILEALHReEKNTTAEYAMNIIKANIELAKKKSQPLCQDTGTVLFYIGHPAGFD--QNKFTSLIHKAVV 147
                              578888999**************9978899**********************************9999986..99*********** PP

                 Fumerase  90 eaykegplRksvvadplerkntgd....nlPavihielvpgdeleitvlakGgGsenksklk.....mlnpsdglegvkkfvletv 166
                              + ++ g lR++ v d+l+ +n+g     + P  ih+++ +++++e+++++kGgG+en  + +      l   ++l+gv+k++l++v
  PHY93_12000|PHY93_12000 148 KSTELGFLRQNSV-DSLTGENSGMnvgpGHP-SIHYHQHNKKTVEVKLMLKGGGCENVGAQYslpetRLDAGRDLNGVRKVILDAV 231
                              *************.99*******98888889.9*****************************555555588889************ PP

                 Fumerase 167 keagtnaCpPlvlgvgiGgtseeaallakkallrelgeenpdeelaeleeellekinklgiGpqGlGGkttvldvkierlprhiAs 252
                              ++a+++ C P+vlg++iGg+    +  +k++llr+l+++n+  ela+le+e++e  nklgiGp+G+GGktt+l++ki +l+r +As
  PHY93_12000|PHY93_12000 232 HKAQGKGCGPGVLGICIGGDRGAGYNESKEQLLRRLDDTNEILELADLEKEIVETSNKLGIGPMGFGGKTTLLGCKIGVLNRLPAS 317
                              ************************************************************************************** PP

                 Fumerase 253 lpvavnvsCsadRrak 268
                              + v++++ C+a Rr  
  PHY93_12000|PHY93_12000 318 FFVSISYMCWAFRRQG 333
                              *************976 PP

>> HC2  Histone H1-like nucleoprotein HC2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3  25.3   1.3e-06    0.0079      51     109 ..       4      58 ..       1      70 [. 0.69

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 1.3e-06
                      HC2  51 kktvakkkvaakkaaakkaavkkavakkvvakkkvakKavAKKaaakKvvakkvvakKt 109
                              kk+ ak k+++k     k+avkk++ak +va+kk++kK + KK+aakKv++k    +Kt
  PHY93_12000|PHY93_12000   4 KKKLAK-KMVKK---PIKTAVKKSAAKTKVAAKKTIKKVASKKTAAKKVIQKPENTQKT 58 
                              333332.22221...23678888888888888888888888888888888887777776 PP

>> FdhE  Protein involved in formate dehydrogenase formation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   1.1   6.3e-05      0.38      48     142 ..      24     118 ..       9     141 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 6.3e-05
                              HHCS---..--HHHHHHHHHTT--TT-HHHHHHH-TTHHHHHHHHHT--S-SSHHHHHH.HHHHHH--HHHHHHHHHHHHTT-GGG CS
                     FdhE  48 vlaaekplaldaeaieraqehgmpplaakalerdeawqelLqallealkeelpealrea.lerlrkadaeelealadallagelea 132
                              +++++ +++++ ++++++++++ ++++ k  + ++++++ L +l++  ++ lp++++++ le+l++ ++++  + a ++++ ++e 
  PHY93_12000|PHY93_12000  24 AAKTKVAAKKTIKKVASKKTAAKKVIQ-KPENTQKTLETSLIELIKITSAVLPDDVQKViLEALHREEKNTTAEYAMNIIKANIEL 108
                              332333333555556655555555555.555668999*********9999******9973689999999***************** PP

                              S-GGGHHHHH CS
                     FdhE 133 vdaakavfva 142
                              ++++++++  
  PHY93_12000|PHY93_12000 109 AKKKSQPLCQ 118
                              *999999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (345 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1720  (0.095934); expected 358.6 (0.02)
Passed bias filter:                      661  (0.0368676); expected 358.6 (0.02)
Passed Vit filter:                        82  (0.0045736); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.59u 0.25s 00:00:00.84 Elapsed: 00:00:00.40
# Mc/sec: 2565.81
//
Query:       PHY93_12005|PHY93_12005  [L=682]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.9e-70  235.5   6.2    9.9e-70  235.5   6.2    3.1  2  UvrD-helicase    UvrD/REP helicase N-terminal domain
    8.8e-62  209.5  10.1    1.1e-61  209.2   6.1    2.5  2  UvrD_C           UvrD-like helicase C-terminal domain
    1.3e-34  119.6   0.0    2.8e-34  118.6   0.0    1.6  1  AAA_19           AAA domain
    1.3e-09   38.1   0.0    3.8e-05   23.5   0.0    2.2  2  AAA_30           AAA domain
    1.9e-09   37.2   0.0    3.9e-09   36.2   0.0    1.6  1  UvrD_C_2         UvrD-like helicase C-terminal domain
    1.1e-06   28.6   0.8       0.13   12.0   0.0    3.2  3  Viral_helicase1  Viral (Superfamily 1) RNA helicase
     0.0031   17.1   0.2        2.5    7.7   0.1    3.2  4  AAA_12           AAA domain
     0.0045   16.8   0.2      0.013   15.3   0.0    2.0  2  AAA_11           AAA domain
     0.0058   14.9   0.1     0.0094   14.2   0.1    1.3  1  Exonuc_V_gamma   Exodeoxyribonuclease V, gamma subunit


Domain annotation for each model (and alignments):
>> UvrD-helicase  UvrD/REP helicase N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  235.5   6.2     5e-73   9.9e-70       1     314 [.       7     273 ..       7     274 .. 0.94
   2 ?   -1.5   1.4      0.69   1.4e+03     226     226 ..     503     503 ..     406     678 .. 0.62

  Alignments for each domain:
  == domain 1  score: 235.5 bits;  conditional E-value: 5e-73
                              SSHHHHHHHHS-SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHHHHHCCHHCTT-HHHHHHH CS
            UvrD-helicase   1 lnpeqreaiaslggpilveAsAGsGKTfvlaerilrlikeeeiepdrilvvTFTnkAaeElkeRieealkkaeqessdderlrlal 86 
                              ln++qrea+++ +gp+l++A+AGsGKT+++++ri++++++ +i+ d+il v FTnkAa+E++eR++++l+ ++             
  PHY93_12005|PHY93_12005   7 LNDKQREAAETIEGPVLILAGAGSGKTRTITYRIAHMVDNLGIKGDSILGVSFTNKAAKEMRERVHALLGTRK------------- 79 
                              799*******************************************************************985............. PP

                              HHCTTSEEEEHHHHHHHHHHHHHGGTTSHTTTEEECHHHHHHCCHHHHHHHHHSCHSHTTTTHHHHHHHHHHHHHHCCCCCHHHHC CS
            UvrD-helicase  87 qnlseanisTlHsfcqkilkkeanrigldpnfrildeedeedlkqqellkelleksaddslnldkkkleklikelsksrnikkeel 172
                                 + ++  T+Hs++ +ilkke+ ++g+++nf+i+d++d     q  ++ + +       +  ++kk++++               
  PHY93_12005|PHY93_12005  80 --SRGVSLLTFHSLGVRILKKEITKLGYQENFSIYDQSD-----QIGIVRDAMR------HYSAEKKFDQK--------------- 137
                              ..799**********************************.....7777777775......56667777755............... PP

                              CCHHHHHCHHHHHHHHHHHTTCCTTHHCHSS..TSCSHHHHHHHHHHHHHHHHHHHHTCEEHHHHHHHHHHHHHHCHHHHHHHHHH CS
            UvrD-helicase 173 slskskaeelrelvskakekqlspkelkkaf..ekasdlqkkiaeflkeyqeqkkeenalDfsdllhallelleeneelaealrer 256
                                      ++ + +s +k+  + + +  + +    ++ ++++++ +++ yqe++k+ na+Df+d+l  +l+l++  +e+a+a++e+
  PHY93_12005|PHY93_12005 138 --------DILAKISFLKNAGIHEDDFANSPhfDPEDAYSHAAEYAYRFYQEKLKFFNAIDFDDILFLTLKLFRGFPEVARAYSEK 215
                              ........7888899999999999888877676889999999******************************************** PP

                              SSEEEESSGGG-BHHHHHHHHHHHTTTTTEEEEE-GGG--GGGGTB-THHHHHHHHHS CS
            UvrD-helicase 257 ykeiliDEyQDTnkiQyrilkllasgheelfmvGDpkQsIYgFRgAdielflkkkkdf 314
                              +++i++DEyQDTn  Q++++  l+s+h++l++vGD++QsIY+FRgAd++++l+++k f
  PHY93_12005|PHY93_12005 216 FQYIMVDEYQDTNTLQFELIVHLTSTHKNLCVVGDDDQSIYAFRGADVTNILEFEKVF 273
                              ******************************************************9977 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.69
                              H CS
            UvrD-helicase 226 e 226
                               
  PHY93_12005|PHY93_12005 503 V 503
                              0 PP

>> UvrD_C  UvrD-like helicase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   0.1     0.097   1.9e+02     134     180 ..     126     171 ..     112     243 .. 0.84
   2 !  209.2   6.1   5.5e-65   1.1e-61       1     348 [.     279     624 ..     279     625 .. 0.78

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.097
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   UvrD_C 134 rilkrlvlgigkatveriseelkklglsltDfikedtleygeeFiel 180
                              r+ + ++++ +k+ +++i + lk++g++  Df ++ +++  + +++ 
  PHY93_12005|PHY93_12005 126 RHYSAEKKFDQKDILAKI-SFLKNAGIHEDDFANSPHFDPEDAYSHA 171
                              688889999999999999.999*****************99999854 PP

  == domain 2  score: 209.2 bits;  conditional E-value: 5.5e-65
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   UvrD_C   1 ivLekNyRStksLlkaankflenilnrralekek..ktvekgeki.vvleaeteeeEaekiaatikallekneklediavLvRsnk 83 
                              ++Le+NyRS+ s+l++an++++ +++r     +k    ++k++ i  +  + ++++Eae i++++ +++++  +l+dia+L+Rsn 
  PHY93_12005|PHY93_12005 279 VKLEENYRSVTSILDLANNVIKVNKKR----RDKtlWGQKKSDHIpLLWAMGDTDHEAEVIVEEVVRHQGNGGHLADIAILYRSNT 360
                              589******************999999....33345667777766156678999******************************** PP

                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx. RF
                   UvrD_C  84 dadkiskaLkkegipfnvvdeekfFkreeikdilaylkllankqdkialkrilkrlvlgigkatveriseelkklglsltDfike. 168
                              +a  i+++L+  ++p+ +++++kf++++e+kd++ yl +++n++d++al+ril+ + +gig+at+e+ +++ ++  l l   +++ 
  PHY93_12005|PHY93_12005 361 QAPPIEDQLRLSQVPYQIIGGQKFYDKKEVKDLMSYLFVILNPSDQMALRRILNIPNRGIGNATLEKYLKKSEEEKLPLFHVLEKy 446
                              ********************************************************************999999888887765441 PP

                              .....xxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxx RF
                   UvrD_C 169 .....dtleygeeFieliraleeknlelllkk.iektaeerqalvskyadlfkelaeklaelkekseskrkkee.klenlreLysl 247
                                   +  + +  F+eli+++++k +   l + i    ee         d+ + + ++  + k+   +++      +e  +++ ++
  PHY93_12005|PHY93_12005 447 psidpQRAQGIITFVELINKYKKKFQTGTLAEnISVLIEE--------IDYLNFIDKQYDNAKQVERRRKDV-MyFIESANRFANY 523
                              1111155666778888988888888875555545555555........555555555544444433333322.1244444444444 PP

                              xxxxxxxxxxxxxxxxxxxxxxxx.........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxx RF
                   UvrD_C 248 lkelekkeeeeeveeklneileia.........tLseseleeskkkekipiiTiHqAKGlEFdvVflagleegtfPsyrskk.ekr 323
                               ke             l+ + e            L+++e ++  +k++++++T+H++KGlEF  Vfl+g+ee+t+P++r+ +  ++
  PHY93_12005|PHY93_12005 524 YKENAT----------LKIFCERLllqdsqdkdKLEDEEGDSDVRKNEVTLMTLHSSKGLEFQKVFLVGIEEETIPHKRTISqGED 599
                              444444..........333333332333344448888888888888*********************************9986669 PP

                              xxxxxxxxxxxxxxxxxxxxxxxxx RF
                   UvrD_C 324 leEEkRlfYVaiTRAkkrLfisysk 348
                              ++EE+RlfYV+iTRA++ L+++y+k
  PHY93_12005|PHY93_12005 600 ISEERRLFYVGITRAQEVLIMTYAK 624
                              ***********************98 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  118.6   0.0   1.4e-37   2.8e-34       1     146 []      11     259 ..      11     259 .. 0.95

  Alignments for each domain:
  == domain 1  score: 118.6 bits;  conditional E-value: 1.4e-37
                   AAA_19   1 qreavealkekvllvtaGpGtGKTrvlkhivallvelggvkpeeillvaftgrAakelrerlaalgae.......atTiHrlal.. 77 
                              qrea+ ++ e+++l++aG+G+GKTr+++ ++a++v++ g+k ++il v+ft++Aake+rer++al++          T+H+l++  
  PHY93_12005|PHY93_12005  11 QREAA-ETIEGPVLILAGAGSGKTRTITYRIAHMVDNLGIKGDSILGVSFTNKAAKEMRERVHALLGTrksrgvsLLTFHSLGVri 95 
                              89999.889999**************************************************99999899****99*******9** PP

                   AAA_19  78 ...................................................................................... 77 
                                                                                                                    
  PHY93_12005|PHY93_12005  96 lkkeitklgyqenfsiydqsdqigivrdamrhysaekkfdqkdilakisflknagiheddfansphfdpedayshaaeyayrfyqe 181
                              ************************************************************************************** PP

                   AAA_19  78 .......ldfddlltealelle...eaeeekklqeee.llivDEfqdvdelqyrLlkallgekkklllvGDpdQliyvfr 146
                                     +dfdd+l  +l+l++   e    +   e++ +++vDE+qd++ lq++L+  l+ ++k+l++vGD+dQ+iy+fr
  PHY93_12005|PHY93_12005 182 klkffnaIDFDDILFLTLKLFRgfpE--VARAYSEKFqYIMVDEYQDTNTLQFELIVHLTSTHKNLCVVGDDDQSIYAFR 259
                              **************888888889763..3334445666**********************88899*************97 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.5   0.0   1.9e-08   3.8e-05       2      67 ..       7      72 ..       6     111 .. 0.79
   2 !   12.4   0.0   4.8e-05     0.095      86     166 ..     212     295 ..     173     319 .. 0.77

  Alignments for each domain:
  == domain 1  score: 23.5 bits;  conditional E-value: 1.9e-08
                   AAA_30  2 lnaeQaaavealltsgdrvavltGpAGtGKttalkal.reaweaag...grviglAptgkaAkvLaeelg 67
                             ln++Q++a+e++ +++   +++ ++AG+GKt +++   ++++++ g    +++g++ t+kaAk+++e + 
  PHY93_12005|PHY93_12005  7 LNDKQREAAETI-EGP---VLILAGAGSGKTRTITYRiAHMVDNLGikgDSILGVSFTNKAAKEMRERVH 72
                             899******866.444...799999******99876526666666777799***************8654 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 4.8e-05
                   AAA_30  86 lepg.tllivDEagmvdtkqlaallkaaekagakvilvGDerQlasVeaGgvlrdlvea....agigtaeLtevvRqkeseeraaa 166
                              ++++ + ++vDE   ++t q++ ++   ++ +  + +vGD++Q     +G+ ++ ++e     ++++ ++L+e++R   +++ ++a
  PHY93_12005|PHY93_12005 212 YSEKfQYIMVDEYQDTNTLQFELIVHLTST-HKNLCVVGDDDQSIYAFRGADVTNILEFekvfHNAKIVKLEENYRS-VTSILDLA 295
                              4455699**************988888877.9***********9888888888888765455556688899999997.34444444 PP

>> UvrD_C_2  UvrD-like helicase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.2   0.0     2e-12   3.9e-09       2      51 ..     562     620 ..     561     621 .. 0.94

  Alignments for each domain:
  == domain 1  score: 36.2 bits;  conditional E-value: 2e-12
                 UvrD_C_2   2 ayaltihkaQGsefpaVivfdpdlaaarmgel.........rrrlLYtavTRAreklil 51 
                              ++ +t h ++G+ef+ V+++ +++ + ++++           rrl+Y+++TRA+e li+
  PHY93_12005|PHY93_12005 562 VTLMTLHSSKGLEFQKVFLVGIEEETIPHKRTisqgediseERRLFYVGITRAQEVLIM 620
                              6789*******************999999999***********************9986 PP

>> Viral_helicase1  Viral (Superfamily 1) RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.0     0.065   1.3e+02       2      19 ..      23      40 ..      22      80 .. 0.84
   2 !   12.0   0.0   6.4e-05      0.13      54     123 ..     209     277 ..     188     361 .. 0.78
   3 !   11.3   0.0   0.00011      0.21     174     230 ..     554     618 ..     495     621 .. 0.70

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.065
          Viral_helicase1  2 vvhGvpGcGKStlirkll 19
                             ++ + +G+GK++ i   +
  PHY93_12005|PHY93_12005 23 LILAGAGSGKTRTITYRI 40
                             67788*******998665 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 6.4e-05
          Viral_helicase1  54 lmalvkstkgkililDEylllhaGyill.laalskaklvilfGDplQipfhsrnasfllahlpsslshrvg 123
                                a ++  k++++ +DEy+  ++ +++l ++  s+ k+++++GD  Q+ +  r a++ +   + ++ h  +
  PHY93_12005|PHY93_12005 209 ARAYSE--KFQYIMVDEYQDTNTLQFELiVHLTSTHKNLCVVGDDDQSIYAFRGADVTNILEFEKVFHNAK 277
                              444444..599************999*988888999999************99999998888888855444 PP

  == domain 3  score: 11.3 bits;  conditional E-value: 0.00011
          Viral_helicase1 174 qalkealgvrevttvhevqGltfdkVtlvllketdlelis...........esrenllvAlTRhrksl 230
                               ++++   v   +t h+  Gl+f+kV lv  +e +  +             e+r  ++v++TR+ + l
  PHY93_12005|PHY93_12005 554 DSDVRKNEV-TLMTLHSSKGLEFQKVFLVGIEEET--IPHkrtisqgedisEERRLFYVGITRAQEVL 618
                              334444444.49*****************775543..3334678899999988***********9876 PP

>> AAA_12  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.0       2.9   5.8e+03     110     133 ..      79     102 ..      59     112 .. 0.70
   2 ?   -3.5   0.0       3.4   6.8e+03     182     197 ..     235     250 ..     233     251 .. 0.86
   3 !    5.8   0.0    0.0047       9.4       6      42 ..     269     303 ..     266     375 .. 0.84
   4 !    7.7   0.1    0.0012       2.5     142     194 ..     550     620 ..     451     624 .. 0.77

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 2.9
                   AAA_12 110 erkkigvitpYraqvellkkklke 133
                              + + +  +t+++  v++lkk++++
  PHY93_12005|PHY93_12005  79 KSRGVSLLTFHSLGVRILKKEITK 102
                              356889999999999999999985 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 3.4
                   AAA_12 182 NValTRAkskliivGn 197
                               V lT   ++l++vG+
  PHY93_12005|PHY93_12005 235 IVHLTSTHKNLCVVGD 250
                              5889999********8 PP

  == domain 3  score: 5.8 bits;  conditional E-value: 0.0047
                   AAA_12   6 ferllkkekekvvlLdtqYRmhpeIsrfpsklfYkgk 42 
                              fe++++++  k+v L+++YR+  +I++++++ +  +k
  PHY93_12005|PHY93_12005 269 FEKVFHNA--KIVKLEENYRSVTSILDLANNVIKVNK 303
                              67777777..99******************9876655 PP

  == domain 4  score: 7.7 bits;  conditional E-value: 0.0012
                   AAA_12 142 e...........ievntvdgfQGrekdviilslVRsn.......ekkeigflkderrlNValTRAksklii 194
                              +           ++  t  +  G e + ++l  +  +        ++   + +++r + V +TRA++ li+
  PHY93_12005|PHY93_12005 550 DeegdsdvrkneVTLMTLHSSKGLEFQKVFLVGIEEEtiphkrtISQGEDISEERRLFYVGITRAQEVLIM 620
                              0223334444569999**************99999977765433222334667777779********9987 PP

>> AAA_11  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   6.4e-06     0.013       2      88 ..       7      83 ..       6     253 .. 0.64
   2 ?   -2.9   0.1       2.3   4.6e+03     178     199 ..     542     563 ..     462     579 .. 0.48

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 6.4e-06
                   AAA_11  2 lndsqreaiksalseseitliqGPPGtgKTktivellsqllsrrkseeeksakpriLvCapSNaAvDellerllrglldsegekykp 88
                             lnd+qrea ++ ++ +  +li    G+gKT+ti++ ++++      ++ + ++  iL  + +N+A  e+ er+    l ++ +++++
  PHY93_12005|PHY93_12005  7 LNDKQREAAET-IEGP--VLILAGAGSGKTRTITYRIAHM-----VDNLGIKGDSILGVSFTNKAAKEMRERVHA--LLGTRKSRGV 83
                             78888888654.4444..3444445***************.....67899**********************988..3333333333 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 2.3
                   AAA_11 178 skeleeaeesleeevldeaeiv 199
                              s++ ++ e++  ++ +++ e+ 
  PHY93_12005|PHY93_12005 542 SQDKDKLEDEEGDSDVRKNEVT 563
                              2222222222223444444444 PP

>> Exonuc_V_gamma  Exodeoxyribonuclease V, gamma subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.2   0.1   4.7e-06    0.0094     527     662 ..     451     596 ..     429     625 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 4.7e-06
                              HHHHHHHHHHHHHHHHHHHHSSS-B-HHHHTTHHHHH.HHHH----SHHHHHHHHHHHHHHHHHHHHHHTT..--S-B-HHHHHHH CS
           Exonuc_V_gamma 527 aellgklaellerLekwrqrlskprtleeWlerlsel.ledffaedeeeeeelqelrealaelaeeaaaak..feqelslevvrel 609
                               + ++  ++++e ++k+++++++ + +e+    ++e+   +f++++ ++++++++ r+ +  ++e+a++++  ++++ +l+++ e 
  PHY93_12005|PHY93_12005 451 PQRAQGIITFVELINKYKKKFQTGTLAENISVLIEEIdYLNFIDKQYDNAKQVERRRKDVMYFIESANRFAnyYKENATLKIFCER 536
                              5667788999999********99888877777776652456779999999999999999999988888876554445666666655 PP

                              H.......HHHHHH-EE-TTTTSSSEEEEE--TT----EEEEEEE--BTTTSS------S CS
           Exonuc_V_gamma 610 l.......eerlsqesasqrfltGkvtfctllpmrsiPfrvvclLGlndgdfPrqdepag 662
                              l       +++l++e+    ++ ++vt+ tl + + + f+ v l+G+++++ P++++ ++
  PHY93_12005|PHY93_12005 537 LllqdsqdKDKLEDEEGDSDVRKNEVTLMTLHSSKGLEFQKVFLVGIEEETIPHKRTISQ 596
                              4222222246799999999***********************************998665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (682 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       577  (0.0321825); expected 358.6 (0.02)
Passed bias filter:                      327  (0.0182386); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.62u 0.23s 00:00:00.85 Elapsed: 00:00:00.42
# Mc/sec: 4825.58
//
Query:       PHY93_12010|PHY93_12010  [L=98]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (98 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       685  (0.0382063); expected 358.6 (0.02)
Passed bias filter:                      468  (0.026103); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 743.89
//
Query:       PHY93_12015|PHY93_12015  [L=119]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.094   12.7   0.5       0.22   11.6   0.5    1.7  1  Lambda_Bor  Bor protein


Domain annotation for each model (and alignments):
>> Lambda_Bor  Bor protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.5   1.2e-05      0.22      45      73 ..      82     111 ..      33     113 .. 0.69

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 1.2e-05
               Lambda_Bor  45 akVetqqtfv.ngLlgvvTlGIYtPrttkv 73 
                              + V +q+t     + ++vTlG+Y+P + k+
  PHY93_12015|PHY93_12015  82 YVVVSQTTSWkSFFYTLVTLGLYCPVDYKI 111
                              555555555405566889*******98876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (119 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       336  (0.0187406); expected 358.6 (0.02)
Passed bias filter:                      287  (0.0160076); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.21s 00:00:00.60 Elapsed: 00:00:00.38
# Mc/sec: 930.40
//
Query:       PHY93_05695|PHY93_05695  [L=253]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.6e-23   81.2   0.0      1e-22   80.3   0.0    1.3  1  Polysacc_deac_1  Polysaccharide deacetylase
  ------ inclusion threshold ------
       0.14   11.4   0.0       0.26   10.4   0.0    1.4  1  Polysacc_deac_2  Divergent polysaccharide deacetylase


Domain annotation for each model (and alignments):
>> Polysacc_deac_1  Polysaccharide deacetylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   80.3   0.0   1.1e-26     1e-22       6     118 ..      41     159 ..      37     163 .. 0.83

  Alignments for each domain:
  == domain 1  score: 80.3 bits;  conditional E-value: 1.1e-26
                              STEEEEEEEESS.CSCHHHHHHHHHHCT--EEEEE-HHHHCH-HHHHHHHHHTTEEEEE--SS--EGGGSHH....HHHHHHHHHH CS
          Polysacc_deac_1   6 kksvalTfDdgp.rdntteilpvLkkykvkatffvigglvedypdevremaasGveignHtinhsnlkrlse....eevrreiera 86 
                               + +   fDdgp + +t+++l++Lk++++katffvig++v  +p+++++++++G+ +gnH+++h  lk+l +    + v+ e+  a
  PHY93_05695|PHY93_05695  41 HNEIIFSFDDGPvPGVTDKVLDILKEHNIKATFFVIGKNVLAHPELMKRIVDEGHIVGNHSMSHIPLKNLDSiawkDIVKTEVMDA 126
                              5667889*****9999*************************************************997777511114566777777 PP

                              HHHHHHHHS-.---EEE-GGGEE-HHHHHHHHH CS
          Polysacc_deac_1  87 kdalrkalgr.eprlfryPygsasatvlevare 118
                               + +   l + +   fr+Py+++++ + + ++e
  PHY93_05695|PHY93_05695 127 HKTIMPYLANnRHFFFRAPYSDWNKIFADFLNE 159
                              777777777735555*********999888776 PP

>> Polysacc_deac_2  Divergent polysaccharide deacetylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0   2.9e-05      0.26     170     211 ..     210     251 ..     200     252 .. 0.90

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 2.9e-05
                              HHHHCCSEEEEEEE-SCCHHHHHHHHHHHHHHCTEEE--HHH CS
          Polysacc_deac_2 170 klakkkGsaiaighprpetieaLkewlpeleaegielvpvsa 211
                              +  k+kG ++++  +r +++e L++ +pele++g+ + ++++
  PHY93_05695|PHY93_05695 210 EAGKRKGGVVLMHDLRHQSAELLAKLIPELEDRGFSFSTMND 251
                              567899*****************************9988765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (253 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       520  (0.0290033); expected 358.6 (0.02)
Passed bias filter:                      464  (0.0258799); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.38
# Mc/sec: 1981.26
//
Query:       PHY93_12020|PHY93_12020  [L=270]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      3e-54  184.0   0.2    3.8e-54  183.7   0.2    1.1  1  ECH_1     Enoyl-CoA hydratase/isomerase
    4.3e-35  121.8   0.3    5.2e-35  121.5   0.3    1.0  1  ECH_2     Enoyl-CoA hydratase/isomerase


Domain annotation for each model (and alignments):
>> ECH_1  Enoyl-CoA hydratase/isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  183.7   0.2   4.2e-58   3.8e-54       9     249 ..      23     270 .]      18     270 .] 0.92

  Alignments for each domain:
  == domain 1  score: 183.7 bits;  conditional E-value: 4.2e-58
                              EEE--CGCTTEE-HHHHHHHHHHHHHHHHSTTECEEEEEEBTSEEEEEB-HHHHHHHHC.......HHHHHHHCCHHHHHHHHHHS CS
                    ECH_1   9 iklnrPeavNalsaelltEliqalekleddksvravvLtGgdkaFaaGadlkemaeeek.......akqallkeevlelwtklytv 87 
                              + ln+P+++Na++  +++ l++++++++ dk++r++vLtG +k F+aG+d+k+m  +         +    + + +++  + + +v
  PHY93_12020|PHY93_12020  23 VSLNNPDQMNAITIPMINSLVAVFKHADFDKEIRVIVLTGAGKSFCAGGDIKAMEDKTGmfegecnELRMRYMHGIQQIPRCIEEV 108
                              789**************************************************998765233112233344455556666667788 PP

                              SSEEEEEE-SEEETHHHHHHHHSSEEEEETTTEEE-GGGGGTS--CTTCHHHHHHHHHHHHHHHHHHHT-EEEHHHHHHCTSSSEE CS
                    ECH_1  88 pkpviaavnGaaigGGlelalacDiviaadnasfglnelklGlipgaggtqilarkvGkskAeeilllgkkisaqealkvGlvdkv 173
                                p+ia+vnGaaig+G+ la++cD++i  ++++f+ +++++Gl+pg ggt +l+r +G +kA+++ l+++ +s+++al+ Gl ++ 
  PHY93_12020|PHY93_12020 109 STPMIAMVNGAAIGAGCDLAMMCDLRIGCNSSKFAETFTRMGLVPGDGGTYFLQRVLGYAKAMQMFLTAETFSGKNALDFGLLNNL 194
                              99************************************************************************************ PP

                              ESGGGHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTSHHHHHHHHHHHTCSH---- CS
                    ECH_1 174 vpeeqlleealelaeklaekspaalrqlkealnakledalaeqleaeaklfestfskddikeGlqaflEkrkpefe 249
                              + + +l  e+ +la k+a  +p a ++ k+a++  + + l + l++ a+ +   + + d  e l af+Ekr pef+
  PHY93_12020|PHY93_12020 195 FEDSELITETEKLADKIAGLAPIAQAMTKKAMKISYLSDLHTSLDVLATFQGISQRTTDHFEALAAFKEKRTPEFK 270
                              *******************************************************999999*************97 PP

>> ECH_2  Enoyl-CoA hydratase/isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  121.5   0.3   5.8e-39   5.2e-35       4     207 ..      23     226 ..      21     269 .. 0.81

  Alignments for each domain:
  == domain 1  score: 121.5 bits;  conditional E-value: 5.8e-39
                              EEE--GGGTT-B-HHHHHHHHHHHHHHCC-TT-SEEEEEESSSSECE--B--HHHHHHHHCS-TH..H..HHHHHHHHHHHHHHHC CS
                    ECH_2   4 itLnrpkalNaLslemvralkealkewekddevklvvlkgagekafCAGgDvralyeaakegkke..e..eeffreeYklnyliat 85 
                              + Ln+p+++Na++ +m+++l + +k+ + d+e++++vl+gag k+fCAGgD++a+ ++    + e  e   ++++   ++   i++
  PHY93_12020|PHY93_12020  23 VSLNNPDQMNAITIPMINSLVAVFKHADFDKEIRVIVLTGAG-KSFCAGGDIKAMEDKTGMFEGEcnElrMRYMHGIQQIPRCIEE 107
                              78**************************************99.************9997766444333458999999********* PP

                              -SS-EEEEE-BEEETHHHHHHTTSSEEEE-TT-EEE--GGGGT----TTHHHHHHCSST.THHHHHHHH---B-HHHHHHTTS--E CS
                    ECH_2  86 ypkpvvalmdGivmGgGvGlsvhgsfrvvtertvfAmPEtaIGlfPDvGgsyfLsrlpg.elGlylalTGarlkgadalaaglath 170
                              +++p++a+++G ++G G+ l++ + +r+ +++++fA   t++Gl+P  Gg+yfL+r+ g + ++ + lT+++++g++al +gl ++
  PHY93_12020|PHY93_12020 108 VSTPMIAMVNGAAIGAGCDLAMMCDLRIGCNSSKFAETFTRMGLVPGDGGTYFLQRVLGyAKAMQMFLTAETFSGKNALDFGLLNN 193
                              ********************************************************988577999********************* PP

                              E--GGGHHHHHHHHHTT........--------.... CS
                    ECH_2 171 yvpseklealeeaLaelessdeeaveevleelaeeae 207
                              ++++++l + +e+La+   +    ++ ++++++++a 
  PHY93_12020|PHY93_12020 194 LFEDSELITETEKLADK-IA---GLAPIAQAMTKKAM 226
                              *****998888888874.33...33333333333332 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (270 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       377  (0.0210274); expected 358.6 (0.02)
Passed bias filter:                      329  (0.0183502); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.25s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 2013.83
//
Query:       PHY93_12025|PHY93_12025  [L=117]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      0.005   16.7   0.0      0.006   16.4   0.0    1.1  1  Ala_racemase_C  Alanine racemase, C-terminal domain


Domain annotation for each model (and alignments):
>> Ala_racemase_C  Alanine racemase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.0   3.3e-07     0.006      38     101 ..      33      94 ..      19     113 .. 0.79

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 3.3e-07
                              S--GGGTCGGGGTTEEEETTEEEEEESEE-SSEEEEEECTSTT..--TT-EEEEEEETEEEEHHHH CS
           Ala_racemase_C  38 piGYaDGlpralsgevlingkrvpvvGrvcMDqlmvdltevee..vkvgdevvllgegeeitveel 101
                              p+GY D l  +   +++++g+ v +v  v M  + v +++ ++   + g+  vll ++    ve++
  PHY93_12025|PHY93_12025  33 PLGYTDPLVSSRGTSMTLAGTSVGTVAAVNMKAIAVAIENDSQqyFQNGEMSVLLASS----VEKI 94 
                              89*****98877789***********************96555678889988888753....3322 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (117 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       709  (0.0395449); expected 358.6 (0.02)
Passed bias filter:                      442  (0.0246528); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.19s 00:00:00.60 Elapsed: 00:00:00.36
# Mc/sec: 966.10
//
Query:       PHY93_12030|PHY93_12030  [L=243]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (243 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       222  (0.0123822); expected 358.6 (0.02)
Passed bias filter:                      123  (0.00686039); expected 358.6 (0.02)
Passed Vit filter:                         6  (0.000334653); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.20s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 1892.64
//
Query:       PHY93_20030|PHY93_20030  [L=406]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.13   12.1   0.0       0.28   11.1   0.0    1.5  1  gpW       gpW


Domain annotation for each model (and alignments):
>> gpW  gpW
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   1.6e-05      0.28      41      63 ..     343     364 ..     339     368 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 1.6e-05
                              HHHHHHHHHHHHHTTST-SSXXX CS
                      gpW  41 tdLkkYiaeLekqlgitkrRRgP 63 
                              + L kYi +L+k +g   rRR P
  PHY93_20030|PHY93_20030 343 KWLDKYISTLDKVVGLKSRRR-P 364
                              5699***********996665.4 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (406 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       567  (0.0316247); expected 358.6 (0.02)
Passed bias filter:                      410  (0.022868); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.18s 00:00:00.71 Elapsed: 00:00:00.37
# Mc/sec: 3273.68
//
Query:       PHY93_20035|PHY93_20035  [L=369]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   3.1e-145  483.7   4.8   3.5e-145  483.5   4.8    1.0  1  GcpE      GcpE protein
  ------ inclusion threshold ------
      0.091   13.2   0.0       0.23   11.9   0.0    1.7  1  YlbE      YlbE-like protein


Domain annotation for each model (and alignments):
>> GcpE  GcpE protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  483.5   4.8  3.9e-149  3.5e-145       1     349 [.      29     368 ..      29     369 .] 0.99

  Alignments for each domain:
  == domain 1  score: 483.5 bits;  conditional E-value: 3.9e-149
                              .--EEETTEEESTTS--EEEEE--S-TT-HHHHHHHHHHHHHCT-SEEEEEE-SHHHHHHHHHHHHHHHHTT-SS-EEEEE-SSCH CS
                     GcpE   1 trevkvgkvkiGgeapiavqsMtntdtadveatvkqikrlaeaGaelvRvtvqdeeeaealkeikeklkkkglkvplvaDihfnpk 86 
                              tr+v+vg++kiGg++pi+vqsM+ntdt+d+++t++qik+l++aG+e++Rv+v+d+ +a+a+k+ik+ +     ++plvaDihf++k
  PHY93_20035|PHY93_20035  29 TRTVQVGNIKIGGGNPISVQSMCNTDTRDAASTISQIKKLEKAGCEIIRVAVPDMIAAKAIKDIKKGI-----RIPLVADIHFDYK 109
                              89*****************************************************************9.....************* PP

                              HHHHHHHCC-SEEEE-TTTSSSTTHHHHHHHHHHHHHHHHT-EEEEEEEGGG--HHHHHHHCCTHHHHHHHHHHHHHHHHHTT--G CS
                     GcpE  87 laleaaeagvdkvRiNPGnigdgkkkeekvkelveaakekgtaiRiGvNhGSLskrllskygdtpealvesalefleilekldfkd 172
                              lale +++g+dkvRiNPGnig+    +++vk++v+a+k+k+++iRiG+N+GSL+k+  +kyg+t++a+vesal++++ilek++f+d
  PHY93_20035|PHY93_20035 110 LALESIKNGIDKVRINPGNIGS----DQNVKKVVDACKDKKVPIRIGINTGSLEKEAEEKYGRTAKAMVESALKHIQILEKNHFYD 191
                              **********************....9*********************************************************** PP

                              EEEEEE-SSHHHHHHHHHHHHHH--S-EEE--TT-ECHHHHHHHHHHHHHHHHHTT--SEE---ECS-CCHHHHHHHHHHHHTTS- CS
                     GcpE 173 iviSlKasnvvvmveayrllaeeldyplHlGvTEAGegedgriksavgigaLLaegiGdTiRvSLtedpeeEvkvakeiLqalrlr 258
                              iviSlKas++  +veayrll +++dyplHlG+TEAG++++g++ks+vg+g++L eg+GdTiRvSLt dp eEv+v++eiL++l+lr
  PHY93_20035|PHY93_20035 192 IVISLKASDIDRTVEAYRLLHQKVDYPLHLGITEAGTVNAGTVKSSVGLGIMLFEGLGDTIRVSLTGDPIEEVRVGWEILKSLKLR 277
                              ************************************************************************************** PP

                              -SS-EEEE----TTS-CHHHHHHHHHHHHCCCHHCG-EEEEESSTCCHHHHCCCSSEEEEEBTTCEEEEETTEEEECEESSCHHHH CS
                     GcpE 259 ksktelisCPsCgRtlfdlqelveeveealehlkkglkiavmGCiVNGpgEaadAdlGivggkgkvslykkkevvkkvpeeeavde 344
                              +++++lisCP+CgRt++dl+ l+++ve+al  ++k++++avmGC+VNGpgEa++Ad+G++gg+++ +++kk+ ++k++pee++++e
  PHY93_20035|PHY93_20035 278 SRGVNLISCPTCGRTEIDLIGLANKVEKALVGIDKPITVAVMGCVVNGPGEAKEADIGVAGGHHQGVIFKKGVILKTIPEEKILSE 363
                              ************************************************************************************** PP

                              HHHHH CS
                     GcpE 345 lleli 349
                              ll++i
  PHY93_20035|PHY93_20035 364 LLSEI 368
                              *9998 PP

>> YlbE  YlbE-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   2.5e-05      0.23      26      54 ..     157     185 ..     150     194 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 2.5e-05
                     YlbE  26 elekemkekYkktipdkvekisnslqmvs 54 
                              +leke+ ekY++t++  ve + +++q+++
  PHY93_20035|PHY93_20035 157 SLEKEAEEKYGRTAKAMVESALKHIQILE 185
                              79************************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (369 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       707  (0.0394333); expected 358.6 (0.02)
Passed bias filter:                      539  (0.030063); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.38
# Mc/sec: 2905.68
//
Query:       PHY93_20045|PHY93_20045  [L=195]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.8e-17   62.0   0.0    7.2e-17   61.1   0.0    1.4  1  Peptidase_S24  Peptidase S24-like
    1.6e-11   44.1   0.0    2.9e-11   43.3   0.0    1.3  1  Peptidase_S26  Signal peptidase, peptidase S26


Domain annotation for each model (and alignments):
>> Peptidase_S24  Peptidase S24-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.1   0.0     8e-21   7.2e-17       1      70 []      43     118 ..      43     118 .. 0.96

  Alignments for each domain:
  == domain 1  score: 61.1 bits;  conditional E-value: 8e-21
                              EXXSSTTCCTXXTTXEEEEECTS....---TTSEEEEEETTCE......-EEEEEEEEETTEEEEE.SSTT.STEEEECTC CS
            Peptidase_S24   1 rvpGdSMeptlldGdlilVdkfs....epkrGdivvfrlpgee......eayiKrviglpgdrvllasnne.ypplyingk 70 
                              +v+G SM+p ++d +++l +k s    +p+rGd+v+f+ p+ e        yiKrvig pgdrv        ++++y+ng+
  PHY93_20045|PHY93_20045  43 EVKGSSMYPNFEDKEYLLTEKLSyqfgKPQRGDVVIFKAPPSEpcsaeeCEYIKRVIGVPGDRVM-----VkGGQVYLNGE 118
                              69******************9999999********************999***************.....669*****985 PP

>> Peptidase_S26  Signal peptidase, peptidase S26
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.3   0.0   3.3e-15   2.9e-11      22     133 ..      71     179 ..      61     182 .. 0.79

  Alignments for each domain:
  == domain 1  score: 43.3 bits;  conditional E-value: 3.3e-15
            Peptidase_S26  22 levgdlvlvepPeelaalaaergylprgvpllKrVlalagqevcvadgavtidg..vavsealerD..rkgrplpslqgcrvlaeg 103
                               ++gd+v++++P +    a+       ++  +KrV++++g++v v++g+v  +g  +  s+ l+    +++ +  +   + ++++g
  PHY93_20045|PHY93_20045  71 PQRGDVVIFKAPPSEPCSAE-------ECEYIKRVIGVPGDRVMVKGGQVYLNGemLDESAFLSDEviTNEEEYMEEGVELTVPDG 149
                              46699999998885555555.......56678**********************8766666665542233444444446889**** PP

            Peptidase_S26 104 elfllskevadSfDsRYfGpvpassvigva 133
                              +++ ++++ ++S D+R fGp+ ++s++g+a
  PHY93_20045|PHY93_20045 150 QYLCFGDNREHSRDGRAFGPIEEKSIVGRA 179
                              ****************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (195 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       558  (0.0311228); expected 358.6 (0.02)
Passed bias filter:                      505  (0.0281667); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.36
# Mc/sec: 1608.76
//
Query:       PHY93_20050|PHY93_20050  [L=276]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.4e-26   92.6   1.1    1.8e-26   92.3   0.2    1.7  2  ParBc     ParB-like nuclease domain
    2.2e-12   46.6   0.2    2.2e-12   46.6   0.2    2.8  4  HTH_ParB  HTH domain found in ParB protein
     0.0023   17.9   0.0      0.019   15.0   0.0    2.5  2  KorB      KorB domain
  ------ inclusion threshold ------
       0.12   12.6   0.1       0.44   10.7   0.1    1.9  2  ZT_dimer  Dimerisation domain of Zinc Transporter
       0.16   12.1   0.5       0.37   10.9   0.0    1.8  2  Mss4      Mss4 protein


Domain annotation for each model (and alignments):
>> ParBc  ParB-like nuclease domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   92.3   0.2   4.9e-30   1.8e-26       1      89 [.       5      93 ..       5      94 .. 0.98
   2 ?   -3.0   0.0       2.6   9.4e+03      14      28 ..     185     198 ..     172     206 .. 0.46

  Alignments for each domain:
  == domain 1  score: 92.3 bits;  conditional E-value: 4.9e-30
                    ParBc  1 tevplseirpnplqprkd.spekieelvasIkkkGllqPiivrktrqgryeiiaGerRlrAakrlglkevpvivleiddeeamalsli 87
                             t++p+++++pnplqpr   spe++ elv+sIk++G+l+P+iv kt+   y+iiaGerR+rAa +l+l++vp+iv+e+  ++++++++ 
  PHY93_20050|PHY93_20050  5 TQIPTNQLEPNPLQPRGIiSPESVSELVESIKEHGILEPLIVAKTP-AGYQIIAGERRWRAARILKLEYVPAIVKETNPQQMLEMAIV 91
                             579*************99***************************9.***************************************** PP

                    ParBc 88 en 89
                             en
  PHY93_20050|PHY93_20050 92 EN 93
                             *9 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 2.6
                    ParBc  14 qprkdspekieelva 28 
                               +r+  ++  + + +
  PHY93_20050|PHY93_20050 185 SVRRA-EDIARRMRK 198
                              33322.333333333 PP

>> HTH_ParB  HTH domain found in ParB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.1       1.4   4.9e+03      30      42 ..      88     100 ..      78     100 .. 0.61
   2 ?   -2.4   0.0       1.2   4.4e+03      17      26 ..     105     114 ..     104     126 .. 0.78
   3 !   46.6   0.2   6.2e-16   2.2e-12       3      52 .]     146     195 ..     144     195 .. 0.95
   4 ?   -1.4   0.0      0.58   2.1e+03      29      41 ..     264     276 .]     258     276 .] 0.82

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 1.4
                 HTH_ParB  30 lqlaekiieegLs 42 
                               +++e +++++L+
  PHY93_20050|PHY93_20050  88 MAIVENVQRKDLN 100
                              3456677777665 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 1.2
                 HTH_ParB  17 ARaLlslkde 26 
                              A+a l+lk+e
  PHY93_20050|PHY93_20050 105 AKAFLRLKEE 114
                              8999999986 PP

  == domain 3  score: 46.6 bits;  conditional E-value: 6.2e-16
                 HTH_ParB   3 vqeavsegkiseGHARaLlslkdeelqlqlaekiieegLsVRetEklvre 52 
                               ++ + +g i+eGHARaL s+ d  l++++++ +++e+ sVR +E+++r+
  PHY93_20050|PHY93_20050 146 LKDGLLSGLITEGHARALSSIGDTRLMIEAYKIVLKEKASVRRAEDIARR 195
                              688999*****************************************996 PP

  == domain 4  score: -1.4 bits;  conditional E-value: 0.58
                 HTH_ParB  29 qlqlaekiieegL 41 
                               + l+++i +++L
  PHY93_20050|PHY93_20050 264 LKSLYKQICQKDL 276
                              57899****9987 PP

>> KorB  KorB domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.0      0.44   1.6e+03      58      74 ..      24      40 ..      21      42 .. 0.88
   2 !   15.0   0.0   5.3e-06     0.019       3      43 ..     116     156 ..     114     187 .. 0.93

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 0.44
                     KorB 58 hpaevrafvaengeagl 74
                              p+ v+++v++ +e+g+
  PHY93_20050|PHY93_20050 24 SPESVSELVESIKEHGI 40
                             6999*******999987 PP

  == domain 2  score: 15.0 bits;  conditional E-value: 5.3e-06
                     KorB   3 gvkqadIAkaLGksksfvslylklldvpdylrelydsevia 43 
                              + + ++IAk+ +ks  +v   lkll +pd+l++ + s++i 
  PHY93_20050|PHY93_20050 116 NFDNNQIAKKVSKSVPYVINCLKLLTLPDALKDGLLSGLIT 156
                              57899***************************998888875 PP

>> ZT_dimer  Dimerisation domain of Zinc Transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0       1.2   4.1e+03       7      25 ..     120     139 ..     118     141 .. 0.60
   2 ?   10.7   0.1   0.00012      0.44      38      66 ..     176     204 ..     156     210 .. 0.83

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 1.2
                              HHHHHHH.TT-SS-EEEEEE CS
                 ZT_dimer   7 eeireii.ksvpgvkgvhdl 25 
                              ++i + + ksvp v+++ +l
  PHY93_20050|PHY93_20050 120 NQIAKKVsKSVPYVINCLKL 139
                              45666663567777777655 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 0.00012
                              EEEEE-TTS-HHHHHHHHHHHHHHHHHH- CS
                 ZT_dimer  38 lhievdgdlsvkeaHeiadevekrikeef 66 
                               +i+++++ sv++a +ia + +k+i+e +
  PHY93_20050|PHY93_20050 176 YKIVLKEKASVRRAEDIARRMRKKIEEGV 204
                              4899*********************9976 PP

>> Mss4  Mss4 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0    0.0001      0.37      21      62 ..      90     138 ..      65     146 .. 0.69
   2 ?   -1.6   0.1      0.87   3.1e+03      40      40 ..     215     215 ..     177     265 .. 0.60

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.0001
                     Mss4  21 llekksekeeqkeselleefllvedvfdFdnvgvskevess........k 62 
                              ++e+  ++++ +  e  ++fl +++ f+Fdn  ++k+v++s        k
  PHY93_20050|PHY93_20050  90 IVEN-VQRKDLNPIERAKAFLRLKEEFNFDNNQIAKKVSKSvpyvinclK 138
                              2222.455566677899********************9987554444444 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 0.87
                     Mss4  40 f 40 
                              f
  PHY93_20050|PHY93_20050 215 F 215
                              2 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (276 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       810  (0.0451782); expected 358.6 (0.02)
Passed bias filter:                      462  (0.0257683); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.53u 0.26s 00:00:00.79 Elapsed: 00:00:00.46
# Mc/sec: 1804.39
//
Query:       PHY93_20055|PHY93_20055  [L=81]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.7e-25   87.7   6.2    4.1e-25   87.6   6.2    1.0  1  Ribosomal_L27  Ribosomal L27 protein
  ------ inclusion threshold ------
       0.05   13.7   0.1      0.059   13.5   0.1    1.1  1  N-SET          COMPASS (Complex proteins associated with Set1


Domain annotation for each model (and alignments):
>> Ribosomal_L27  Ribosomal L27 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   87.6   6.2   4.6e-29   4.1e-25       1      79 []       2      80 ..       2      80 .. 0.99

  Alignments for each domain:
  == domain 1  score: 87.6 bits;  conditional E-value: 4.6e-29
            Ribosomal_L27  1 AhkkagGstkngrdskgkrlGvKkfggqlvkagnIivrQrgtkfhpGenvgiGkdhtlfAlvdGvVkfekkkkrkyvsv 79
                             Ah+k++G+t+++ + +g+r+GvKkfggq+v+ g+IivrQ g+ fh G  ++iGkd+t++A ++G+Vkf +k  +k+vsv
  PHY93_20055|PHY93_20055  2 AHTKSQGKTNQKANRAGQRRGVKKFGGQKVEIGQIIVRQVGSSFHSGPGTKIGKDYTIYAIQPGIVKFFQKLGKKIVSV 80
                             8********************************************************************999****998 PP

>> N-SET  COMPASS (Complex proteins associated with Set1p) component N
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.1   6.6e-06     0.059     134     164 ..       5      35 ..       1      36 [. 0.84

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 6.6e-06
                    N-SET 134 skqeissSRenRannRRfvadieaqkaalgt 164
                              ++q +++ ++nRa +RR v+ ++ qk  +g+
  PHY93_20055|PHY93_20055   5 KSQGKTNQKANRAGQRRGVKKFGGQKVEIGQ 35 
                              455678999*****************98886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (81 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       406  (0.0226449); expected 358.6 (0.02)
Passed bias filter:                      308  (0.0171789); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.45
# Mc/sec: 544.96
//
Query:       PHY93_20060|PHY93_20060  [L=103]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.6e-29  102.1   3.7    1.8e-29  102.0   3.7    1.0  1  Ribosomal_L21p  Ribosomal prokaryotic L21 protein
  ------ inclusion threshold ------
      0.043   13.5   0.2       0.13   12.0   0.1    1.7  2  TTC5_OB         Tetratricopeptide repeat protein 5 OB fold do
       0.13   12.6   3.2        1.2    9.6   3.2    2.1  1  ribosomal_L24   Ribosomal proteins 50S L24/mitochondrial 39S 


Domain annotation for each model (and alignments):
>> Ribosomal_L21p  Ribosomal prokaryotic L21 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  102.0   3.7   2.9e-33   1.8e-29       2     101 .]       3     102 ..       1     102 [. 0.99

  Alignments for each domain:
  == domain 1  score: 102.0 bits;  conditional E-value: 2.9e-33
                              EEEEECSTEEEEESSSEEEEEESSSSSTTCEEEESSEEE....EE.ECTSSSESSTCEEEEEEEEEE---EEEEEEETTTTEEEEE CS
           Ribosomal_L21p   2 yAiietgGkqykVeegdvlkvekleaevgdkveldkVllvgskddvkvGaplvegakVeaevvehgkgkkiivfkkkrrknyrrkq 87 
                              yA+++++G q+k++e++ ++v++l+ e+g++ + d+Vll+ + d++ +G+p++++akV  ++v++ +gkk++vfk+k++ +yr+++
  PHY93_20060|PHY93_20060   3 YAVVSISGSQFKITEDQKITVNNLNLEEGKTGSTDQVLLIADGDKIEIGEPTIKDAKVDYKIVKNYQGKKVRVFKYKSKSRYRKTM 88 
                              9************************************************************************************* PP

                              EE--EEEEEEEEEE CS
           Ribosomal_L21p  88 ghRqkytklrItkI 101
                              g+R ++t ++ItkI
  PHY93_20060|PHY93_20060  89 GFRPQLTDIQITKI 102
                              ************98 PP

>> TTC5_OB  Tetratricopeptide repeat protein 5 OB fold domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.0      0.23   1.4e+03      92     109 ..      14      31 ..       7      37 .. 0.68
   2 ?   12.0   0.1   2.1e-05      0.13      61      93 ..      42      75 ..      35      80 .. 0.89

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.23
                  TTC5_OB  92 RVdtpevlvvNgkklgkd 109
                              ++ + +++ vN+ +l++ 
  PHY93_20060|PHY93_20060  14 KITEDQKITVNNLNLEEG 31 
                              556667788887776655 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 2.1e-05
                  TTC5_OB 61 vvigDtvaIpePfieqikielks.kdiqfksiRV 93
                             +  gD + I eP+i++ k+ +k  k++q k +RV
  PHY93_20060|PHY93_20060 42 IADGDKIEIGEPTIKDAKVDYKIvKNYQGKKVRV 75
                             5679****************9999*********9 PP

>> ribosomal_L24  Ribosomal proteins 50S L24/mitochondrial 39S L24
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   3.2   0.00019       1.2      40      60 ..      56      78 ..      12      84 .. 0.70

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.00019
            ribosomal_L24 40 kptrvgfrlked..gkkvRvskk 60
                             k  +v ++++++  gkkvRv+k 
  PHY93_20060|PHY93_20060 56 KDAKVDYKIVKNyqGKKVRVFKY 78
                             678999988643349******94 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (103 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       810  (0.0451782); expected 358.6 (0.02)
Passed bias filter:                      434  (0.0242066); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.38
# Mc/sec: 812.58
//
Query:       PHY93_05700|PHY93_05700  [L=714]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    8.9e-52  175.6   0.1    1.5e-51  174.9   0.1    1.3  1  Peptidase_S9    Prolyl oligopeptidase family
    7.7e-28   97.4   1.9    1.1e-27   96.9   1.9    1.1  1  Peptidase_S9_N  Prolyl oligopeptidase, N-terminal beta-propel
  ------ inclusion threshold ------
      0.076   12.3   0.0          4    6.6   0.0    2.2  2  Hydrolase_4     Serine aminopeptidase, S33


Domain annotation for each model (and alignments):
>> Peptidase_S9  Prolyl oligopeptidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  174.9   0.1   2.6e-55   1.5e-51       6     208 ..     509     713 ..     504     714 .] 0.94

  Alignments for each domain:
  == domain 1  score: 174.9 bits;  conditional E-value: 2.6e-55
                              HHHHHHCCT-EEEEE--TTSSTTHCHHHHTTSGGGGHHHHHHHHHHHHHHHHTTS--GGGEEEEEETHHHHHHHHHHHH-GGG-SE CS
             Peptidase_S9   6 elqlladrGyvvvvanirGsggyGeafhdagkrklgqnefdDfiaaaealakegyvdserlaitGgSyGGyltgaalnqrpdlFka 91 
                              + +++a++G v+v anirG+g++G ++h+a  +++ q+ f+Dfia+ae l+k++++++++l+i GgS+GG+l+g +  qrp+lF a
  PHY93_05700|PHY93_05700 509 VGKVWAEKGGVYVLANIRGGGEFGATWHQAAVKENRQKVFEDFIAIAEDLIKQKITSPTHLGIQGGSNGGLLVGGTFVQRPELFNA 594
                              567999******************************************************************************** PP

                              EEEESE---CCCHHCSTTSTHH.HCCCC--TTTCHHHHHHHHHH-CGGG--...---EEEEEEETT-SSS-THHHHHHHHHHH--S CS
             Peptidase_S9  92 avaevpvvdvlrydsdtdllte.eymewgnpeeneegykelspyspldnvk...aypplLlihGlaDdrvppaealklvaaLqkkg 173
                              +++evp +d+lry +   l ++ +++e+gnp ++ ++++ +++ysp++nv     yp+++++++++Ddrv+p +a k+va+++++g
  PHY93_05700|PHY93_05700 595 VLCEVPLLDMLRYNKL--LAGAsWMDEYGNP-DDSKMREVIAKYSPYQNVLpnkSYPEVFFLTSTKDDRVHPGHARKMVAKMRSQG 677
                              ***************9..57777********.8888899***********9*********************************** PP

                              -SEEEEEETTS-SSTTSSHHHH.HHHHHHHHHHHHH CS
             Peptidase_S9 174 knvlllifpdegHgvgkprakv.eelarllaFlkea 208
                              + + +  +++ gHg++ +  ++  +   ++ +l ++
  PHY93_05700|PHY93_05700 678 HLLFYYENTEGGHGGSANIEQRiLWNSLEYTYLWRK 713
                              *************88877777769999999998776 PP

>> Peptidase_S9_N  Prolyl oligopeptidase, N-terminal beta-propeller domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   96.9   1.9   1.8e-31   1.1e-27      18     394 ..      40     425 ..      26     446 .. 0.85

  Alignments for each domain:
  == domain 1  score: 96.9 bits;  conditional E-value: 1.8e-31
                              EE-TTGGGGSTTSHHHHHHHHHHHHHHHHHHCTST.CHHHHHHHHHHHT-S-EE---EEETTEEEEEEE-SS-SS-EEEEEC.STS CS
           Peptidase_S9_N  18 vsDpYrWLeDddspetkayleaenkyteevlaqlkelrekikeeitklikeddisapfrkgkyyyysrneggknqsvlyrqd.als 102
                               +Dp+ WLe+ + +++ a+++ en+ t ++l+++++++    +  +  ++ d++ + ++ gk +y++++++     ++ r++ +++
  PHY93_05700|PHY93_05700  40 EKDPFLWLEEIEGQKALAFVKNENEKTFSILKNDPHFKRIEVDVRKIAMARDRVPWAYQLGKSLYNFWQDEANIRGLWRRTSfKSY 125
                              58*********************************7766666666777899******************************87443 PP

                              -TT.S-EEEEE-GGGGST.TS-.EEEEEEE.E-TTSSEEEEEEEETTSSEEEEEEEETTTTEEEEEEEEEEESEE.EEECTTSSEE CS
           Peptidase_S9_N 103 keg.eeeevlLDpNtlse.dgtfvalgefa.vsedgkllAyslsksGsdwytirvkdietgedlpdeledvkfsg.ivWaadekgf 184
                              ++  +++e +LD +tls+ + + ++ ++ + ++++ + +  sls++G+d+  +r +d+  + +++d +e ++ ++ +vWa+  +++
  PHY93_05700|PHY93_05700 126 ESRnPKWENVLDLDTLSKkENENWVWKGAScFPPKYERCLVSLSRGGKDATIVREFDLLRKSFVKDGFEIPEAKTnAVWADS-NTL 210
                              33369************97666788999999*****************************************9999***998.*** PP

                              EEEESS-SSS-TSTSB-S-BEEEEEETTS-GGG-EEEES-TTGTTBEE.EEEE-TTSSEEEEEEESSSS--EEEEEEGGGTSS--E CS
           Peptidase_S9_N 185 fYtrydkedersdtdtnlnqkvyrhkLGtaqseDelvfeeeeepkwll.gaersedgkylfissasgtdtnelyvldlekeskkvl 269
                              ++ +    d+ +++++    k +++  G++  e + +f+ +++++++   +e ++ ++y f+    +  +++++  ++++ +    
  PHY93_05700|PHY93_05700 211 YVGTDFGSDSTTESGYPRILKSWKR--GQKIRETVELFHVDKKDLSAGaYVEYTTKKNYHFLVRDISFFEKQVWFYNNDQMT---- 290
                              ****887888888999999999999..************9999998887999999999988754444449******999996.... PP

                              EEEESSSSS-EEEEEEETTEEEEEE-TT-TT.....-EEEEEETTSSSGG....GEEE.EE--.SSCEEEEEEECTTEEEEEEEET CS
           Peptidase_S9_N 270 klvdnrfdaeysvehnegdrfliltndgapn.....frlvsvdlndpsps....ewke.lvperekvvleeitvfknylvvsyrkd 345
                               l++   da+++ +h++   +l+++n +  n     + +v+ +l++ + s    ++ e +   + k++++  + +kn++++ ++ +
  PHY93_05700|PHY93_05700 291 -LLPMPNDAQFYGVHKNYILYLLRSNLSVGNivyksGSVVALPLSKINDShkalSFLEvIFTPTTKKFISNLSTTKNHILLDIIDN 375
                              .4444478977777776799999999766443333378****99955544446788886778999********************* PP

                              TEEEEEEEETTTS-..EEEEEB-SSSSEEEEEE--TT-SEEEEEEEETTC CS
           Peptidase_S9_N 346 vlsrvqvvdlkngkv.llfevplpgvgsvssasgekedselfysfsSflt 394
                              ++ ++  v+lk+ +     ++pl ++g++s  s+ +e++ l   ++ flt
  PHY93_05700|PHY93_05700 376 IQGKILKVTLKSPRHwEKENIPLGQNGVASIESAHNETDILLATYTDFLT 425
                              **9999999887665378889**************************986 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.6   0.0   0.00067         4      24     115 ..     510     606 ..     500     620 .. 0.77
   2 ?    3.0   0.0    0.0087        52     192     229 ..     647     685 ..     628     687 .. 0.84

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.00067
              Hydrolase_4  24 aeaLaaqGfavyalDhrGhGrse...gkrghvpsfddyvdDlaafvekvkeehpel..plfllGhSmGGliallyllrypdkvagl 104
                              ++ +a++G   +  + rG G+ +    + +  ++ +++ +D+ a+ e + +++ ++   l + G S GGl++   + ++p+ ++++
  PHY93_05700|PHY93_05700 510 GKVWAEKGGVYVLANIRGGGEFGatwHQAAVKENRQKVFEDFIAIAEDLIKQKITSptHLGIQGGSNGGLLVGGTFVQRPELFNAV 595
                              5566667766677778887777555455555677899************99999995567789*************9999988899 PP

              Hydrolase_4 105 ilsaPalkika 115
                               +  P+l++  
  PHY93_05700|PHY93_05700 596 LCEVPLLDMLR 606
                              88888887654 PP

  == domain 2  score: 3.0 bits;  conditional E-value: 0.0087
              Hydrolase_4 192 lP.llllhGeaDkvvdpeasrelyerlgskdktlklypg 229
                              +P +++l +++D  v+p+ +r+++++++s+   l +y++
  PHY93_05700|PHY93_05700 647 YPeVFFLTSTKDDRVHPGHARKMVAKMRSQGHLLFYYEN 685
                              555899999********************9999999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (714 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       432  (0.024095); expected 358.6 (0.02)
Passed bias filter:                      335  (0.0186848); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.63u 0.24s 00:00:00.87 Elapsed: 00:00:00.42
# Mc/sec: 5159.58
//
Query:       PHY93_20065|PHY93_20065  [L=330]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-78  264.7  28.9    8.5e-77  258.6  28.9    2.1  1  FTSW_RODA_SPOVE  Cell cycle protein


Domain annotation for each model (and alignments):
>> FTSW_RODA_SPOVE  Cell cycle protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  258.6  28.9   4.7e-81   8.5e-77      12     351 ..       9     330 .]       5     330 .] 0.92

  Alignments for each domain:
  == domain 1  score: 258.6 bits;  conditional E-value: 4.7e-81
          FTSW_RODA_SPOVE  12 vilGlvmiysaslveslvlfgdsfvlfirqlvylllglivfvlllriplkfleklakllliislllLvlvkvplgssanGAkrWir 97 
                              ++++l++++++ ++  ++l     +l+ +ql+   +g+ +f++  +i++k++     ++++++ +lL++  v +     G++rWi+
  PHY93_20065|PHY93_20065   9 ILISLIILFTLNILMISSLAP---SLVSKQLLAWGIGIGLFFIGRQINPKQIASSKWIIFVACCTLLLIPIV-FQNITRGSRRWID 90 
                              446677777766654444444...8999************************************99999999.************* PP

          FTSW_RODA_SPOVE  98 lggisiqPsEfvkialilflAavlskkkkevksrlrellillvivllilvlillqpdlgtavllliillvvlflsglslklilaiv 183
                              +g+ +iqPsE+vk  l+lfl +                l+  ++ ++++++ ++qpdlg+a+ ll++l+ ++++    ++l l++ 
  PHY93_20065|PHY93_20065  91 IGFTTIQPSEIVKPWLMLFLTNTN--------------LP--LLQFIPVGITMAQPDLGSALSLLLLLAPIILYNKKLFRLALVLG 160
                              ******************986532..............22..3457899999**********************999999888888 PP

          FTSW_RODA_SPOVE 184 lalilviaivllilledyqvkrvtslldpfkdplgsgYqviqsliAigsGGllGkGlgnsqq.kleyLPeahtDfIfavigEelGl 268
                              + ++ +++iv++ +l+dyq+kr+t++l+p +dplg+gY viqs+iAigsGG++GkG ++++q +l +LPe+htDf+fa  +EelG+
  PHY93_20065|PHY93_20065 161 IIFLIISPIVYSKVLHDYQRKRITTFLNPAADPLGQGYNVIQSKIAIGSGGIFGKGYKKGTQgQLLFLPEKHTDFMFAATAEELGF 246
                              888*********************************************************************************** PP

          FTSW_RODA_SPOVE 269 vGvllllllffllivrglriark.akdrfgsllavgivllivvqsfinigmvlGllPvtGltlPflSyGGsSllalliligill 351
                               G+ll+l  + lli  +l+ a++ ++++   l+++gi++ i +qsf+nigm++G+lPvtG++lPflS GGsSl++ll+++gi++
  PHY93_20065|PHY93_20065 247 AGILLILTAYYLLIKNLLVKAFNtTNNKPLFLFTLGITIQIWMQSFVNIGMNIGILPVTGIPLPFLSVGGSSLMTLLFSLGIIY 330
                              *********************9978888999***************************************************85 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (330 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       838  (0.0467399); expected 358.6 (0.02)
Passed bias filter:                      377  (0.0210274); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.38
# Mc/sec: 2582.37
//
Query:       PHY93_20070|PHY93_20070  [L=104]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (104 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       867  (0.0483574); expected 358.6 (0.02)
Passed bias filter:                      422  (0.0235373); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.21s 00:00:00.59 Elapsed: 00:00:00.35
# Mc/sec: 878.47
//
Query:       PHY93_12035|PHY93_12035  [L=240]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    2.8e-44  151.3   0.0    3.5e-44  151.0   0.0    1.1  1  Amidase_3  N-acetylmuramoyl-L-alanine amidase
  ------ inclusion threshold ------
      0.061   13.2   0.1       0.59   10.0   0.0    2.2  2  CdiI_3     CDI immunity proteins


Domain annotation for each model (and alignments):
>> Amidase_3  N-acetylmuramoyl-L-alanine amidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  151.0   0.0   3.9e-48   3.5e-44       1     174 [.       7     223 ..       7     224 .. 0.97

  Alignments for each domain:
  == domain 1  score: 151.0 bits;  conditional E-value: 3.9e-48
                Amidase_3   1 ividpGHGgkdpGavg.......knglkEkdlnlkvalklaklLeakgaeVvltrdddksvslkeranianksradlfvsiHadsa 79 
                              i+idpGHGg+d Ga +       ++ +kEkd++l +a+k+ ++L+ak+++V ltr+ d+ vsl era+ia+k++adlf+s+H++s+
  PHY93_12035|PHY93_12035   7 ILIDPGHGGEDDGAKAqtlgrvpEELIKEKDIALLIAQKIYEKLSAKNYTVFLTRSFDRAVSLPERAAIAEKTKADLFISVHINSS 92 
                              89***********888877788777799********************************************************** PP

                Amidase_3  80 anssasGvevfy.................................leknekkaeskrlaksiqkelkkklglk....nrgvkeann 128
                              ++ssa G+e++y                                 l  +++ ++sk la+si++e+k+  g+k    +rg+k+   
  PHY93_12035|PHY93_12035  93 PESSAAGFETYYldnhndvaikkvektenvqmkgdeivvqqilvdLVVEQTVSTSKPLAQSIHSEIKNSVGRKygiqSRGIKPGL- 177
                              *********************************************999999999*******9999999999999999********. PP

                Amidase_3 129 lyvlrktkipavlvElgfisnpedakllkseeyqeklakaiaegik 174
                              ++vl  +k p vl+E+gfis  +++ ++ ++++q+++a a+++gi+
  PHY93_12035|PHY93_12035 178 FFVLALSKRPGVLLEVGFISTMKERIRMMNPKFQDDYASAVVRGIE 223
                              ********************************************97 PP

>> CdiI_3  CDI immunity proteins
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.0   6.6e-05      0.59      20      49 ..      21      50 ..      17      61 .. 0.88
   2 ?    0.4   0.0     0.069   6.2e+02      40      55 ..     129     144 ..      97     151 .. 0.83

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 6.6e-05
                   CdiI_3 20 kveelrkkpleeltveDlrllirQeiglel 49
                             k+++l ++p e ++++D+ lli+Q+i  +l
  PHY93_12035|PHY93_12035 21 KAQTLGRVPEELIKEKDIALLIAQKIYEKL 50
                             6789999******************98765 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.069
                   CdiI_3  40 lirQeiglellvplAl 55 
                              ++ Q+i+++l+v+  +
  PHY93_12035|PHY93_12035 129 IVVQQILVDLVVEQTV 144
                              5789999999999776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (240 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       653  (0.0364214); expected 358.6 (0.02)
Passed bias filter:                      389  (0.0216967); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.19s 00:00:00.62 Elapsed: 00:00:00.34
# Mc/sec: 2102.79
//
Query:       PHY93_12040|PHY93_12040  [L=214]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (214 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       283  (0.0157845); expected 358.6 (0.02)
Passed bias filter:                      194  (0.0108205); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.20s 00:00:00.60 Elapsed: 00:00:00.36
# Mc/sec: 1788.34
//
Query:       PHY93_12045|PHY93_12045  [L=308]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
     0.0097   14.2   0.9     0.0097   14.2   0.9    1.8  3  ABG_transport  AbgT putative transporter family
  ------ inclusion threshold ------
       0.11   12.6   0.0       0.38   10.8   0.0    1.9  2  GST_C_2        Glutathione S-transferase, C-terminal domain
        3.9    8.1   8.7       0.13   12.8   0.8    2.6  3  DUF2627        Protein of unknown function (DUF2627)


Domain annotation for each model (and alignments):
>> ABG_transport  AbgT putative transporter family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.9   0.2      0.49   2.9e+03     337     349 ..      81      93 ..      71     112 .. 0.51
   2 !   14.2   0.9   1.6e-06    0.0097     186     274 ..     160     248 ..     152     252 .. 0.89
   3 !    2.8   0.0    0.0046        28     191     233 ..     226     268 ..     218     273 .. 0.89

  Alignments for each domain:
  == domain 1  score: -3.9 bits;  conditional E-value: 0.49
            ABG_transport 337 smgayivlvffaa 349
                               m   iv++f ++
  PHY93_12045|PHY93_12045  81 YMMVAIVFIFCLG 93 
                              3333333333322 PP

  == domain 2  score: 14.2 bits;  conditional E-value: 1.6e-06
            ABG_transport 186 qeaariidpsykvnplanwyfiaasvvvlvlialfvtdkivePrLgkykgeeekdekeelaselteeekkglryaglavvvviall 271
                              q+ +ri +p ++ n   n+ f++ +  +l+ +++fv + i+  ++ + +++  ++++   ++ +    ++ + +a++av  ++al 
  PHY93_12045|PHY93_12045 160 QDYTRIHKPVFEKNFFFNYLFVIIIFALLASVGIFVVNNIIRDQIFQLTQKFLSNNAIAGSKGIRYFIEEQFSVADIAVYFFLALH 245
                              677899999***************************************99998888888888899999999999999999988887 PP

            ABG_transport 272 alt 274
                              +l+
  PHY93_12045|PHY93_12045 246 VLM 248
                              765 PP

  == domain 3  score: 2.8 bits;  conditional E-value: 0.0046
            ABG_transport 191 iidpsykvnplanwyfiaasvvvlvlialfvtdkivePrLgky 233
                               i+++++v  +a ++f+a  v++  l+++++  ki  P  + +
  PHY93_12045|PHY93_12045 226 FIEEQFSVADIAVYFFLALHVLMYCLLGVHLYGKISGPAFAVF 268
                              58999*****************************999987766 PP

>> GST_C_2  Glutathione S-transferase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0       1.5   8.8e+03      38      63 ..     138     165 ..     133     167 .. 0.61
   2 ?   10.8   0.0   6.4e-05      0.38      19      44 ..     215     242 ..     194     246 .. 0.75

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 1.5
                              HHHHHHHHHHHHHHHS-..---TT-HHH CS
                  GST_C_2  38 ialapflvrlraagpgf..direaypnl 63 
                              ++++ ++  ++++g     +  ++y ++
  PHY93_12045|PHY93_12045 138 VFFFSHIDEAKTRGKLVkiEVPQDYTRI 165
                              5677777777777654422444667666 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 6.4e-05
                              TTT---SS....CTTCS--HHHHHHHHHH CS
                  GST_C_2  19 eahLadsp...flfGdqptlaDialapfl 44 
                              +a+ a+s    ++  +q+++aDia++ fl
  PHY93_12045|PHY93_12045 215 NAI-AGSKgirYFIEEQFSVADIAVYFFL 242
                              344.4444599999************998 PP

>> DUF2627  Protein of unknown function (DUF2627)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.1      0.54   3.3e+03      38      56 ..      16      34 ..       5      40 .. 0.78
   2 ?   -2.2   0.1       1.1   6.3e+03      49      49 ..      84      84 ..      48     101 .. 0.53
   3 ?   12.8   0.8   2.2e-05      0.13       6      50 ..     179     227 ..     176     242 .. 0.85

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 0.54
                  DUF2627 38 lwlqflaGlllfaiglgfi 56
                             ++ ++ +Gl +++++lgf 
  PHY93_12045|PHY93_12045 16 FIFKLSTGLKFVLVSLGFT 34
                             4677888999999999885 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 1.1
                  DUF2627 49 f 49
                             +
  PHY93_12045|PHY93_12045 84 V 84
                             1 PP

  == domain 3  score: 12.8 bits;  conditional E-value: 2.2e-05
                  DUF2627   6 lliLvipgllaayGi....klmrdalfgilsspfsslwlqflaGlllfa 50 
                              l++++i++lla +Gi     ++rd++f+ +++  s+ ++ +  G+  f+
  PHY93_12045|PHY93_12045 179 LFVIIIFALLASVGIfvvnNIIRDQIFQLTQKFLSNNAIAGSKGIRYFI 227
                              789************4444468*************99999999987775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (308 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       938  (0.0523175); expected 358.6 (0.02)
Passed bias filter:                      369  (0.0205812); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.37
# Mc/sec: 2503.39
//
Query:       PHY93_12050|PHY93_12050  [L=263]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.4e-28   98.0   2.6    1.7e-27   96.6   0.0    2.2  2  Thioredoxin_4  Thioredoxin
    9.8e-19   67.9   5.4    2.8e-12   46.8   0.2    2.4  3  DSBA           DSBA-like thioredoxin domain
    6.2e-07   29.3   0.7    9.3e-07   28.7   0.1    1.6  2  Thioredoxin_5  Thioredoxin
    0.00042   20.7   1.5      0.005   17.3   0.1    2.6  2  Thioredoxin_2  Thioredoxin-like domain
     0.0021   17.7   0.6     0.0021   17.7   0.6    2.0  2  HAUS6_N        HAUS augmin-like complex subunit 6 N-terminus
     0.0031   18.1   0.1     0.0083   16.7   0.1    1.7  1  MCM_N          MCM N-terminal domain
  ------ inclusion threshold ------
      0.024   14.8   5.4       0.45   10.7   0.2    2.1  2  DUF3826        Protein of unknown function (DUF3826)
      0.028   15.0   1.6        0.3   11.8   0.1    2.7  3  NAD_binding_3  Homoserine dehydrogenase, NAD binding domain
      0.033   12.7   0.5      0.054   12.0   0.5    1.3  1  Cep3           Centromere DNA-binding protein complex CBF3 su
      0.051   13.6   0.8      0.051   13.6   0.8    1.7  2  DUF615         Protein of unknown function (DUF615)
      0.076   13.3   1.1        1.6    9.1   0.3    2.7  2  MbeB_N         MbeB-like, N-term conserved region
       0.15   11.5   0.9       0.49    9.8   0.1    2.1  2  DUF1487        Protein of unknown function (DUF1487)
       0.15   12.4   0.1       0.29   11.4   0.1    1.5  1  zf-Di19        Drought induced 19 protein (Di19), zinc-bindin


Domain annotation for each model (and alignments):
>> Thioredoxin_4  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   1.5      0.45   6.3e+02      78     113 ..      49      73 ..      11      93 .. 0.42
   2 !   96.6   0.0   1.3e-30   1.7e-27       6     165 ..      95     255 ..      91     256 .. 0.89

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.45
                              HHHHHHHHHHHHTHHHHTTS-HHHHH.....HHHHH CS
            Thioredoxin_4  78 peaflaikallysqqeewaeslkelaaealdkdekf 113
                               e+++a++++ +++qee            ++k+e+ 
  PHY93_12050|PHY93_12050  49 AEFIEALQKAAKNAQEE-----------MGKKREED 73 
                              12222222222222222...........22223332 PP

  == domain 2  score: 96.6 bits;  conditional E-value: 1.3e-30
                              EEES-TT-SEEEEEEE-TT-HHHHHHHHHHHHHHHHHHHTTSEEEEEEE-..---STTTHHHHHHHTT--TT.HHHHHHHHHHHHT CS
            Thioredoxin_4   6 iviGnpdApvtvieyedlrCphCakfeeeveklleeyidtGkvkfiirdfpldkekeslkaamaarcagees.peaflaikallys 90 
                               + G ++A+ t++ey+d++Cp C +  e+v +ll++y  +G+++fi++++pl  +++++  a + ++   ++ ++af++ ++++++
  PHY93_12050|PHY93_12050  95 SIRGPKNAQLTLVEYSDFECPFCSRGYETVVALLKKY--DGNIRFIYKHLPLSFHEQAMISAKYYEAIRMQDeKKAFAFHDEVFKN 178
                              56899********************************..**************9999**********9999846777777777666 PP

                              HHHHTTS-..HHHHH.....HHHHHTS-------HHHHHHHHHHHHHHT--SS-EEEETTEEE-TT--HHHHHHHHT CS
            Thioredoxin_4  91 qqeewaes..lkelaaealdkdekfeacleeekldalveaeskeakkagiestPtfiingekveepqtyeelkalid 165
                              q++  +    l++ a++ +++++k++++l++e + + +ea++kea   g+++tP f++ng  v ++ ++e +  +++
  PHY93_12050|PHY93_12050 179 QRKLKNGVafLDATAKQVGADMAKLKKDLNSEAVTKRIEADMKEAGSFGMQGTPGFLLNGVPVRGAYPPEFFVNIVE 255
                              666666666666667889999********************************************999999998887 PP

>> DSBA  DSBA-like thioredoxin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.1       3.3   4.5e+03      42      50 ..      55      63 ..      25      83 .. 0.49
   2 !   24.1   0.1   1.9e-08   2.6e-05       1      42 [.     105     147 ..     105     161 .. 0.89
   3 !   46.8   0.2     2e-15   2.8e-12      98     190 ..     162     252 ..     147     255 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 3.3
                             HHHHCT.S. CS
                     DSBA 42 akkasgnvg 50
                              +ka++n++
  PHY93_12050|PHY93_12050 55 LQKAAKNAQ 63
                             222333332 PP

  == domain 2  score: 24.1 bits;  conditional E-value: 1.9e-08
                              EEEEEEBTTBHHHHHHHHHHHHHHHHCCT.EEEEEEE-SSSCH CS
                     DSBA   1 tvdeffDvlCPyCylgkerleklaarspd.vkvvlrpfelaga 42 
                              t++e++D+ CP+C  g e + +l++++++ +++ +++++l  +
  PHY93_12050|PHY93_12050 105 TLVEYSDFECPFCSRGYETVVALLKKYDGnIRFIYKHLPLSFH 147
                              689************************666*********9866 PP

  == domain 3  score: 46.8 bits;  conditional E-value: 2e-15
                              HHHGHHHHHHHHHHHHHTSSS-TSSHHH.HHHHHHHTTS.HHHHHHHHTSHHHHHHHHHHHHHHHHTT-SSSSEEEETTCEEEESS CS
                     DSBA  98 aeglaekvvrelfealwsegqaitddqe.llevaekaGldaeeldealeseavkeavrentaaaqslgvtGvPtvvvdgkrmvfGa 182
                              +  + ek++ ++++ +++++++++     l+++a+++G d+++l+++l+seav++ ++ ++++a s g++G+P ++++g   v Ga
  PHY93_12050|PHY93_12050 162 M--QDEKKAFAFHDEVFKNQRKLKNGVAfLDATAKQVGADMAKLKKDLNSEAVTKRIEADMKEAGSFGMQGTPGFLLNGV-PVRGA 244
                              3..5589999*************99855599************************************************9.89*** PP

                              SSHHHHHH CS
                     DSBA 183 drldtlad 190
                               +++++ +
  PHY93_12050|PHY93_12050 245 YPPEFFVN 252
                              99999976 PP

>> Thioredoxin_5  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.1       2.5   3.4e+03      95     120 ..      51      59 ..      24      85 .. 0.58
   2 !   28.7   0.1   6.8e-10   9.3e-07      81     162 ..     157     235 ..     115     242 .. 0.87

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 2.5
            Thioredoxin_5  95 FLrklqealflekkniskeellleia 120
                              F+  lq+a                 a
  PHY93_12050|PHY93_12050  51 FIEALQKA-----------------A 59 
                              22222222.................2 PP

  == domain 2  score: 28.7 bits;  conditional E-value: 6.8e-10
            Thioredoxin_5  81 iKAAelQgkkkgrkFLrklqealflekknisk.eellleiaekaglDveefkeDlesklakkafqcDlklakemgvtevPtlv 162
                              + A  +Q++kk+ +F     +++f +++++++    l + a+++g D+ ++k+Dl+s+ ++k  ++D+k a  +g + +P + 
  PHY93_12050|PHY93_12050 157 YEAIRMQDEKKAFAF----HDEVFKNQRKLKNgVAFLDATAKQVGADMAKLKKDLNSEAVTKRIEADMKEAGSFGMQGTPGFL 235
                              55999*******999....567788888877624668899****************************************875 PP

>> Thioredoxin_2  Thioredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.1      0.33   4.6e+02      16      44 ..      18      53 ..       5      85 .. 0.51
   2 !   17.3   0.1   3.6e-06     0.005       4     104 ..     101     249 ..      99     254 .. 0.80

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.33
            Thioredoxin_2 16 dCpyCkklkkelkel.....ddvtvrvllfp..lkp 44
                             +C   +k+k+++ ++     + +t+ +  +p  + +
  PHY93_12050|PHY93_12050 18 SCTSDEKMKQQITKIlkddpKVLTEAIEKHPaeFIE 53
                             466666777777776663343344442222233111 PP

  == domain 2  score: 17.3 bits;  conditional E-value: 3.6e-06
            Thioredoxin_2   4 ngkpvlvvftdpdCpyCkklkkelkel.....ddvtvrvllfp..lkps...fepkavaiwcakekkkafkd.............. 65 
                              n + +lv ++d +Cp+C + ++++  l      ++++++   p  ++++   + ++++ai  ++ekk af                
  PHY93_12050|PHY93_12050 101 NAQLTLVEYSDFECPFCSRGYETVVALlkkydGNIRFIYKHLPlsFHEQamiSAKYYEAIRMQDEKK-AFAFhdevfknqrklkng 185
                              6777889999************776666998889999999999996666233345566666666664.443355888889999999 PP

            Thioredoxin_2  66 ..............................ieenvelarkygvrgtPtivfldgkeivarlpGyvpaee 104
                                                            ie+ ++ a ++g++gtP ++ l+g      ++G++p+e 
  PHY93_12050|PHY93_12050 186 vafldatakqvgadmaklkkdlnseavtkrIEADMKEAGSFGMQGTPGFL-LNGV----PVRGAYPPEF 249
                              99999******************************************965.5666....5788888775 PP

>> HAUS6_N  HAUS augmin-like complex subunit 6 N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   0.6   1.5e-06    0.0021     105     183 ..       1      76 [.       1     101 [. 0.89
   2 ?    1.1   0.2      0.17   2.4e+02     158     204 ..     161     213 ..     141     226 .. 0.65

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 1.5e-06
                  HAUS6_N 105 ekfielLlsfssfVlkkvlkekskklalevreaaskkaqdlsklvaahrvslrrflrekaaadrarqkyqenaqllekk 183
                              +kf +lL +f s+ l+  + + +k  + ++ ++++++++ l++++++h ++  + l+++a+    ++++ ++ ++ +kk
  PHY93_12050|PHY93_12050   1 MKFAKLLVVFMSAALLVSCTSDEK-MKQQITKILKDDPKVLTEAIEKHPAEFIEALQKAAKNA--QEEMGKKREEDDKK 76 
                              69**********************.99999999******************999999999985..88888877776665 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.17
                  HAUS6_N 158 rflrekaa........adrarqkyqenaqllekkerelraeleelqaelkaekea 204
                              r+++ek+a        +   ++k+++ ++ l+   +++ a +++l+++l+ e+ +
  PHY93_12050|PHY93_12050 161 RMQDEKKAfafhdevfK--NQRKLKNGVAFLDATAKQVGADMAKLKKDLNSEAVT 213
                              45555555444444322..378888889999999999999999999988844322 PP

>> MCM_N  MCM N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.1     6e-06    0.0083      50      86 ..      37      73 ..      28     104 .. 0.78

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 6e-06
                    MCM_N 50 deeLaeailenpkeylplleealkevvkklepsykdd 86
                              + L eai+++p e++++l++a+k+  +++ ++ ++d
  PHY93_12050|PHY93_12050 37 PKVLTEAIEKHPAEFIEALQKAAKNAQEEMGKKREED 73
                             349************************9988865555 PP

>> DUF3826  Protein of unknown function (DUF3826)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.2   0.00032      0.45      18      88 ..      21      86 ..      15     133 .. 0.78
   2 ?    6.4   1.1    0.0066       9.1       8      74 ..     153     219 ..     147     226 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00032
                             S-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH.CS--CHHHHHHHHHHHHHHHHHHHHHHTHHHHHH CS
                  DUF3826 18 tdaakakkvsaiianqyrelndihnerdakikeikeginlatekkksklekaeiaksaklakvhkkllakL 88
                             +d++ ++++++i  +  + l++  ++++a+   i + ++ a++++++  +k e+++++kl++   ++ + L
  PHY93_12050|PHY93_12050 21 SDEKMKQQITKILKDDPKVLTEAIEKHPAEF--IEALQKAAKNAQEEMGKKREEDDKKKLEE---SFDKPL 86
                             69999**************************..88844455555555445555555555554...444444 PP

  == domain 2  score: 6.4 bits;  conditional E-value: 0.0066
                              HHHHHHHH--S-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH.CS--CHHHHHHHHHHHHHHH CS
                  DUF3826   8 aqkivaaLnltdaakakkvsaiianqyrelndihnerdakikeikeginlatekkksklekaeiaks 74 
                              ++k+ +a+ ++d++ka + ++ +++  r+l++     da+ k++ +++ + +++ +s+  +++i+++
  PHY93_12050|PHY93_12050 153 SAKYYEAIRMQDEKKAFAFHDEVFKNQRKLKNGVAFLDATAKQVGADMAKLKKDLNSEAVTKRIEAD 219
                              78999*************************************9998766555554444444444433 PP

>> NAD_binding_3  Homoserine dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.1   0.00022       0.3      57      88 ..      10      41 ..       2      66 .. 0.83
   2 ?    1.8   0.1      0.27   3.7e+02      33      73 ..      57      97 ..      42     102 .. 0.87
   3 ?   -1.6   0.1         3   4.1e+03      36      53 ..     201     218 ..     174     224 .. 0.56

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00022
                             HHS-EEEEE-S--HHHHTTHHHHHHTTEEEE- CS
            NAD_binding_3 57 hldpdvvVEcasseavaelvlkaLkagkdvvt 88
                             ++ + ++V c+s+e ++++++k+Lk +  v+t
  PHY93_12050|PHY93_12050 10 FMSAALLVSCTSDEKMKQQITKILKDDPKVLT 41
                             45789*********************999988 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.27
                             EE-TTHHHHHT--CB---HHHHHHHHS-EEEEE-S--HHHH CS
            NAD_binding_3 33 llskdrkallasealtldlddliahldpdvvVEcasseava 73
                             +++k+++++++++++ +d ++l +  d ++v E  s+e+++
  PHY93_12050|PHY93_12050 57 KAAKNAQEEMGKKREEDDKKKLEESFDKPLVAEIRSDESIR 97
                             56788999*************99999999999999999987 PP

  == domain 3  score: -1.6 bits;  conditional E-value: 3
                              TTHHHHHT--CB---HHH CS
            NAD_binding_3  36 kdrkallasealtldldd 53 
                              ++ k++l+sea+t+++++
  PHY93_12050|PHY93_12050 201 AKLKKDLNSEAVTKRIEA 218
                              234455555555555554 PP

>> Cep3  Centromere DNA-binding protein complex CBF3 subunit B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.5   3.9e-05     0.054     433     503 ..      21      92 ..       2      98 .. 0.73

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 3.9e-05
                              -SSSEE-HHHHHHHHHHHHHHHCT-THH.HHHHHHSS------------------------HH.HHHHHHHHH CS
                     Cep3 433 seselkHPvfkiLqnDiktikksnnklp.klikgtkseaenkklfddkleeeleeeakeseef.klivseFek 503
                              s++++k  + kiL++D k+++++++k p ++i+++++ a+n + +  k++ee ++++  +e+f k +v+e  +
  PHY93_12050|PHY93_12050  21 SDEKMKQQITKILKDDPKVLTEAIEKHPaEFIEALQKAAKNAQEEMGKKREEDDKKK-LEESFdKPLVAEIRS 92 
                              678888999*************988876379***99999888777776666666665.555552556666655 PP

>> DUF615  Protein of unknown function (DUF615)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.8   3.7e-05     0.051      95     149 ..      24      78 ..      18      82 .. 0.90
   2 ?   -2.0   0.0       2.3   3.2e+03      15      28 ..     193     206 ..     155     223 .. 0.68

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 3.7e-05
                   DUF615  95 elerwrdrLiaeddaaleelleeypevDrqeLRqlirnarkekeknkppkayreL 149
                              ++++   +++++d ++l+e++e++p+  ++ L + ++na++e  k++++  +++L
  PHY93_12050|PHY93_12050  24 KMKQQITKILKDDPKVLTEAIEKHPAEFIEALQKAAKNAQEEMGKKREEDDKKKL 78 
                              667778899*********************************9999888888887 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 2.3
                   DUF615  15 lqklgeeLaaLskk 28 
                              ++++g ++a+L+k+
  PHY93_12050|PHY93_12050 193 AKQVGADMAKLKKD 206
                              34555555555544 PP

>> MbeB_N  MbeB-like, N-term conserved region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   0.3    0.0011       1.6      25      50 ..      39      64 ..      22      66 .. 0.89
   2 ?    2.0   0.0      0.19   2.7e+02      21      40 ..     191     210 ..     189     219 .. 0.89

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.0011
                   MbeB_N 25 mvksafekheksvkeaLkesekkisd 50
                              +  a+ekh ++ +eaL++++k+ ++
  PHY93_12050|PHY93_12050 39 VLTEAIEKHPAEFIEALQKAAKNAQE 64
                             5788*******************887 PP

  == domain 2  score: 2.0 bits;  conditional E-value: 0.19
                   MbeB_N  21 Steemvksafekheksvkea 40 
                               t+++v +++ k+ k+++++
  PHY93_12050|PHY93_12050 191 ATAKQVGADMAKLKKDLNSE 210
                              599**************976 PP

>> DUF1487  Protein of unknown function (DUF1487)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.1   0.00036      0.49      35      85 ..      15      66 ..       4      98 .. 0.82
   2 ?   -0.3   0.1      0.44   6.1e+02     175     209 ..     137     171 ..     124     173 .. 0.75

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00036
                  DUF1487 35 avatvlveesirdefvervrsklkplseevaeHps.ylkalekidelkakti 85
                             ++++   +e++++++ + ++++ k l e + +Hp+ +++al+k  +   + +
  PHY93_12050|PHY93_12050 15 LLVSCTSDEKMKQQITKILKDDPKVLTEAIEKHPAeFIEALQKAAKNAQEEM 66
                             56677779*************************955*****99887655554 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.44
                  DUF1487 175 pikklfaaeknsvviakgyHyEtlvikgklkiivf 209
                               i k++  + ++  + +   yE+++++++ k+ +f
  PHY93_12050|PHY93_12050 137 FIYKHLPLSFHEQAMISAKYYEAIRMQDEKKAFAF 171
                              566666666666666666779*******9999877 PP

>> zf-Di19  Drought induced 19 protein (Di19), zinc-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1   0.00021      0.29       2      18 ..     111     128 ..     110     134 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00021
                  zf-Di19   2 sftCPyCgk.eltvkeLv 18 
                              +f CP+C++   tv++L+
  PHY93_12050|PHY93_12050 111 DFECPFCSRgYETVVALL 128
                              79*******445666666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (263 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2148  (0.119806); expected 358.6 (0.02)
Passed bias filter:                     1132  (0.0631379); expected 358.6 (0.02)
Passed Vit filter:                       131  (0.0073066); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.63u 0.25s 00:00:00.88 Elapsed: 00:00:00.43
# Mc/sec: 1849.61
//
Query:       PHY93_12055|PHY93_12055  [L=140]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (140 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       565  (0.0315132); expected 358.6 (0.02)
Passed bias filter:                      277  (0.0154498); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.45
# Mc/sec: 935.47
//
Query:       PHY93_12060|PHY93_12060  [L=90]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.6e-26   92.3   0.9    1.8e-26   92.2   0.9    1.0  1  Bac_DNA_binding  Bacterial DNA-binding protein
     0.0012   18.6   0.0     0.0017   18.2   0.0    1.2  1  HU-CCDC81_bac_2  CCDC81-like prokaryotic HU domain 2
      0.008   16.1   1.0      0.018   14.9   1.0    1.7  1  DEK_C            DEK C terminal domain
  ------ inclusion threshold ------
      0.031   14.4   0.0      0.031   14.4   0.0    1.2  1  HU-HIG           HU domain fused to wHTH, Ig, or Glycine-rich
      0.037   14.2   0.0      0.041   14.0   0.0    1.1  1  HU-CCDC81_euk_1  CCDC81 eukaryotic HU domain 1
      0.042   14.0   0.0      0.088   13.0   0.0    1.6  1  SSPI             Small, acid-soluble spore protein I
      0.066   13.0   0.0      0.083   12.7   0.0    1.2  1  Synaptobrevin    Synaptobrevin


Domain annotation for each model (and alignments):
>> Bac_DNA_binding  Bacterial DNA-binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   92.2   0.9   6.9e-30   1.8e-26       1      87 [.       1      90 []       1      90 [] 0.94

  Alignments for each domain:
  == domain 1  score: 92.2 bits;  conditional E-value: 6.9e-30
                             EEHHHHHHHHHTT-...---HHHHHHHHHHHHHHHHHHHHTT-EEEETTTEEEEEEEE--BS-B-TTT--B--B--EEEEEEEE-HHH CS
          Bac_DNA_binding  1 mtkkeLieeiaekt...gltkkdakrvveafldtikeaLkkgekvelsgFGtfkvkerkartgrnpkTgekvkiparkvvkFkpskel 85
                             m++keLie++ +      +tkk+a++++e +l+tik+++k+ge+v+l gFGtf+ ++++ r g+np+Tge++ i ar v+kFkp+k  
  PHY93_12060|PHY93_12060  1 MNRKELIEALLKDRdlsTMTKKQANQFIEVMLETIKKTVKRGEDVTLVGFGTFTKSRKASRLGVNPSTGERIRIRARVVPKFKPGKPW 88
                             9**********66633357*******************************************************************88 PP

                             HH CS
          Bac_DNA_binding 86 ke 87
                             ke
  PHY93_12060|PHY93_12060 89 KE 90
                             76 PP

>> HU-CCDC81_bac_2  CCDC81-like prokaryotic HU domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.0   6.6e-07    0.0017      13      50 ..      19      56 ..      14      60 .. 0.92

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 6.6e-07
          HU-CCDC81_bac_2 13 isyeeAlqkiekeveelkqeLeeegrveleniGeLsln 50
                             ++ ++A+q ie   e++k++ ++++ v+l + G+++ +
  PHY93_12060|PHY93_12060 19 MTKKQANQFIEVMLETIKKTVKRGEDVTLVGFGTFTKS 56
                             7889*******************************976 PP

>> DEK_C  DEK C terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   1.0   7.1e-06     0.018       8      27 ..       5      24 ..       4      41 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 7.1e-06
                    DEK_C  8 kaireiLreaDLdtvTkkkv 27
                             + i+++L++ DL+t+Tkk+ 
  PHY93_12060|PHY93_12060  5 ELIEALLKDRDLSTMTKKQA 24
                             779***************95 PP

>> HU-HIG  HU domain fused to wHTH, Ig, or Glycine-rich motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0   1.2e-05     0.031      44      88 ..      16      61 ..       1      90 [] 0.79

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 1.2e-05
                   HU-HIG 44 rstlsrgdvkavldaledelkeaLadGerVeLgelGyFslslks.k 88
                              st+++ +    ++ + +++k+  ++Ge V L ++G+F+ s k+ +
  PHY93_12060|PHY93_12060 16 LSTMTKKQANQFIEVMLETIKKTVKRGEDVTLVGFGTFTKSRKAsR 61
                             689999999999**************************99988743 PP

>> HU-CCDC81_euk_1  CCDC81 eukaryotic HU domain 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   1.6e-05     0.041      19      70 ..      19      72 ..      11      89 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.6e-05
          HU-CCDC81_euk_1 19 ltteqllliWdalgeyieeqlekgkgvhipnfGtFtfe..apdldlkadknell 70
                              t++q +  ++ + e i++ +++g  v++ +fGtFt +  a++l +  ++ e++
  PHY93_12060|PHY93_12060 19 MTKKQANQFIEVMLETIKKTVKRGEDVTLVGFGTFTKSrkASRLGVNPSTGERI 72
                             578999999999************************994433333444444444 PP

>> SSPI  Small, acid-soluble spore protein I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   3.4e-05     0.088      12      41 ..      24      53 ..      16      56 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 3.4e-05
                     SSPI 12 kgsskeeleetIedaiqskeEktLpGLGVl 41
                              ++  e + etI+ +++++e+ tL G G +
  PHY93_12060|PHY93_12060 24 ANQFIEVMLETIKKTVKRGEDVTLVGFGTF 53
                             566678889*******************76 PP

>> Synaptobrevin  Synaptobrevin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   3.2e-05     0.083       6      34 ..      18      46 ..      13      60 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 3.2e-05
                             HHHHHHHHCCCCHHCCHHHHCHCCCCCHH CS
            Synaptobrevin  6 akikaevdevkdimkeNidkvlergekld 34
                             +++k++ ++  ++m e i+k ++rge++ 
  PHY93_12060|PHY93_12060 18 TMTKKQANQFIEVMLETIKKTVKRGEDVT 46
                             6899**********************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (90 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1066  (0.0594567); expected 358.6 (0.02)
Passed bias filter:                      842  (0.046963); expected 358.6 (0.02)
Passed Vit filter:                        86  (0.0047967); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.51u 0.27s 00:00:00.78 Elapsed: 00:00:00.47
# Mc/sec: 573.04
//
Query:       PHY93_12065|PHY93_12065  [L=201]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-18   67.7   0.1    1.5e-18   67.2   0.1    1.3  1  FliL      Flagellar basal body-associated protein FliL
  ------ inclusion threshold ------
      0.061   13.4   0.3       0.19   11.8   0.0    1.8  2  DUF4366   Domain of unknown function (DUF4366)


Domain annotation for each model (and alignments):
>> FliL  Flagellar basal body-associated protein FliL
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.2   0.1   1.7e-22   1.5e-18       2      97 ..     107     197 ..     106     201 .] 0.83

  Alignments for each domain:
  == domain 1  score: 67.2 bits;  conditional E-value: 1.7e-22
                     FliL   2 vpleepfvvnlkdadgggerylkveitlevadaeleek..ekepeirdailsllssktaeelstpegkekLkeelleelnkvleeg 85 
                              +ple+ f+ nl+++dg  +r+++++++l+ +++  +e+  + +p+i d+i+s+l +k++eel ++egke Lkee+++ +n+ l +g
  PHY93_12065|PHY93_12065 107 YPLEP-FTANLAQGDGP-RRFIRISLVLKFSKETKKEEvdARKPQISDTIISMLNAKKPEELLKKEGKEYLKEEVKTSINNFLVDG 190
                              89977.*****877654.6***********544444445667**************************************977554 PP

                     FliL  86 klekgpvedVlF 97 
                              +     ++d++ 
  PHY93_12065|PHY93_12065 191 Q-----ITDIYY 197
                              5.....898885 PP

>> DUF4366  Domain of unknown function (DUF4366)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   2.1e-05      0.19     101     145 ..       4      46 ..       1      47 [. 0.73
   2 ?   -1.0   0.1      0.18   1.6e+03      75     114 ..     141     180 ..     131     192 .. 0.48

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 2.1e-05
                  DUF4366 101 keaepeepeeepekksnnglllvvlavaligggaayyfkvlkpkk 145
                              +++e++++e   + +++n ll+++++v  i++ga+ +f+++ +kk
  PHY93_12065|PHY93_12065   4 DKHEKDDAEA--APSGKNPLLVILVLVNTIAVGAVGFFQFQNHKK 46 
                              3444433444..4444599999999***************99987 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.18
                  DUF4366  75 evcactekcaagkvntdcpveepepekeaepeepeeepek 114
                              e++ +++ +  +++ +  + ++pe+  ++e +e  +e+ k
  PHY93_12065|PHY93_12065 141 EEVDARKPQISDTIISMLNAKKPEELLKKEGKEYLKEEVK 180
                              2333333333333333333366766666666664444333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (201 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       879  (0.0490267); expected 358.6 (0.02)
Passed bias filter:                      626  (0.0349155); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.43
# Mc/sec: 1393.39
//
Query:       PHY93_12070|PHY93_12070  [L=340]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.8e-59  198.6   0.5    1.2e-58  198.2   0.5    1.2  1  FliM      Flagellar motor switch protein FliM
      1e-20   73.5   0.3    1.8e-20   72.7   0.3    1.4  1  FliMN_C   Type III flagellar switch regulator (C-ring) FliN C


Domain annotation for each model (and alignments):
>> FliM  Flagellar motor switch protein FliM
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  198.2   0.5   1.3e-62   1.2e-58       1     192 []      47     239 ..      47     239 .. 0.99

  Alignments for each domain:
  == domain 1  score: 198.2 bits;  conditional E-value: 1.3e-62
                              XXXXXXXX--HHHHHHHHHHHHHHHHHHHHHHHHHHTS-EEEEEEEEEEEEHHHHHTTSBSS-EEEEEEETTTEEEEEEEE-HHHH CS
                     FliM   1 ydfkrqdrvskerlrtleliherlaRllttslsallrkivevsvasvdqlkyeeflrslpvptslnvirlkplkgtallevdpslv 86 
                              yd+++qdrv ++r++ le+i+er++R +++sls+ lrki  +s+ s d lk++ef+++lp p+ + ++r+++l+g all+++++l+
  PHY93_12070|PHY93_12070  47 YDLTNQDRVIRGRMPILEIIYERFIRSFRVSLSNSLRKISTISIISTDLLKFGEFVNTLPIPSCMCIMRFNELRGPALLVFESKLA 132
                              9************************************************************************************* PP

                              HHHHHHHTTS-S---S..TT----HHHHHHHHHHHHHHHHHHHHHHTTT---EEEEEEEESSTTSEESS-TTSEEEEEEEEEEETT CS
                     FliM  87 fsivdrllGGdgraaak.egrefteiErkvierllkvvledlkeawspvvdlepeldelEvnpqfaqivspneivvlvsleieige 171
                              ++i+d  +GG+ r  +k eg+eft iE + + ++++++++dl eaw pv+ +  ++ ++E+npqf+ +v+p+++++ ++le+e + 
  PHY93_12070|PHY93_12070 133 YAIIDSYFGGTDRPFTKiEGKEFTMIELSFMRKIMDMAINDLEEAWAPVHRIDAQYLRTEINPQFVGVVPPSDVIIATTLEVEFES 218
                              **********99988888******************************************************************** PP

                              EEEEEEEEEEHHHHHHHHTTH CS
                     FliM 172 seGelnlclPyitiEpirekl 192
                               +G++ +++Py+tiEpi +kl
  PHY93_12070|PHY93_12070 219 ASGTIMIVVPYSTIEPIKQKL 239
                              *****************9997 PP

>> FliMN_C  Type III flagellar switch regulator (C-ring) FliN C-term
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.7   0.3     2e-24   1.8e-20       1      71 [.     260     330 ..     260     332 .. 0.97

  Alignments for each domain:
  == domain 1  score: 72.7 bits;  conditional E-value: 2e-24
                              ..XXXXXEEEEEEEEEEEEEHHHHHHHHTTSEEE--TTGGGCEEEEETTEEEEEEEEEEETTEEEEEEEEE CS
                  FliMN_C   1 eelsdvpveleaelgrtrltlrellnLkvGdvipLdkpadepvevyvngkpiarGelgvvggrlavritei 71 
                              e++++++ +++++lg++++tl++ll L+ Gd+ipL+++a+ +v++ ++g++++++ +g+ +g++av+it++
  PHY93_12070|PHY93_12070 260 EHIKNTKATVVVRLGEAEMTLGDLLTLELGDIIPLNQDASGEVTLAIEGVEKMKCLMGTYKGNRAVQITKV 330
                              5899*****************************************************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (340 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       426  (0.0237604); expected 358.6 (0.02)
Passed bias filter:                      366  (0.0204139); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.20s 00:00:00.71 Elapsed: 00:00:00.38
# Mc/sec: 2649.00
//
Query:       PHY93_05705|PHY93_05705  [L=200]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.7e-06   26.9  10.9    3.7e-06   26.9  10.9    2.6  2  DUF975           Protein of unknown function (DUF975)
      4e-05   22.5   5.2      4e-05   22.5   5.2    2.2  2  GPDPase_memb     Membrane domain of glycerophosphoryl diester
    0.00099   18.8   0.7    0.00099   18.8   0.7    2.4  2  Neurensin        Neurensin
     0.0028   17.5  12.9     0.0028   17.5  12.9    1.8  1  UPF0259          Uncharacterised protein family (UPF0259)
  ------ inclusion threshold ------
      0.017   15.4  18.1      0.063   13.5  18.4    1.8  1  EI24             Etoposide-induced protein 2.4 (EI24)
       0.11   12.5   0.1       0.11   12.5   0.1    3.7  3  OppC_N           N-terminal TM domain of oligopeptide transpo
        2.7    7.7   7.3       0.77    9.5   4.3    1.7  2  FA_desaturase    Fatty acid desaturase


Domain annotation for each model (and alignments):
>> DUF975  Protein of unknown function (DUF975)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.9  10.9   1.4e-09   3.7e-06      42     133 ..      40     132 ..      25     141 .. 0.81
   2 !    7.7   9.5     0.001       2.7     155     217 ..     115     173 ..     112     200 .] 0.64

  Alignments for each domain:
  == domain 1  score: 26.9 bits;  conditional E-value: 1.4e-09
                   DUF975  42 iietilvssllel.livlllgtlltlsavfvviklvkrkekvelkeslasfke.knfiklLvllllkelflllwsliallg.llii 124
                              +i+ +l+ ++l+    v+l++ +l +++  ++ kl+k+ e++++++ + sf++  +f+++Lv+ +l+ +  ll +++ +++ ++i+
  PHY93_05705|PHY93_05705  40 YIGLTLITIILNCiPYVSLFSIFLNIGFFNCCYKLMKN-ENINFNDYFFSFQSfSRFLNILVAIVLMTVATLLGYVLLIIPgIYIS 124
                              56666777777762457899999***************.**********************************9988887526666 PP

                   DUF975 125 iislslall 133
                              +  ++ + +
  PHY93_05705|PHY93_05705 125 VALVFTI-I 132
                              6665554.3 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.001
                   DUF975 155 ivlilaiiveyayslveyilveelelGayealkeSkkmmkGyKwklfvLdLsfiGWliL.vilt 217
                              +++i++i++++a+      +v+e + G+  alk+Sk++++G  w+ f+      G l+L +i+ 
  PHY93_05705|PHY93_05705 115 LLIIPGIYISVALVFTIIAMVTENKDGI-DALKRSKEIVNGRWWNVFMF----CGFLFLlNIVG 173
                              67899*****988888888888887775.89**************9974....33322202222 PP

>> GPDPase_memb  Membrane domain of glycerophosphoryl diester phosphodiesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.4  10.7   0.00033      0.83      60     133 ..      34     119 ..      27     121 .. 0.62
   2 !   22.5   5.2   1.6e-08     4e-05     165     238 ..     110     185 ..     109     197 .. 0.74

  Alignments for each domain:
  == domain 1  score: 8.4 bits;  conditional E-value: 0.00033
             GPDPase_memb  60 tqhplvlllLillll.......llllliylefalLilgiqeilkkekislkalfk..etfkkl....kklrgvsllflliYflLii 132
                              +++p   ++L l+ +       ++l+ i+l ++++  + +++ k+e+i++ + f+  ++f+++      + ++++  ll+Y+lLii
  PHY93_05705|PHY93_05705  34 KKNPSLYIGLTLITIilncipyVSLFSIFLNIGFFN-CCYKLMKNENINFNDYFFsfQSFSRFlnilVAIVLMTVATLLGYVLLII 118
                              555555555555555001111155777777777654.55666777888887775411344444444488889999*********** PP

             GPDPase_memb 133 P 133
                              P
  PHY93_05705|PHY93_05705 119 P 119
                              * PP

  == domain 2  score: 22.5 bits;  conditional E-value: 1.6e-08
             GPDPase_memb 165 vllylifylivfylaiRliftLPliilekkslkeAlkeSwqltkknflrlllkl.llliliivivlt.vilsllll 238
                              +l+y+++++  +y+++ l+ft+  ++ e+k+  +Alk+S ++++++ + ++++  +l++l iv +l  v++ ++++
  PHY93_05705|PHY93_05705 110 LLGYVLLIIPGIYISVALVFTIIAMVTENKDGIDALKRSKEIVNGRWWNVFMFCgFLFLLNIVGLLClVVGLIVTI 185
                              589*******************************************999866542333333333333033333333 PP

>> Neurensin  Neurensin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   2.0     0.096   2.5e+02      92     118 ..     105     131 ..      30     141 .. 0.77
   2 !   18.8   0.7   3.9e-07   0.00099      20      66 ..     136     184 ..     129     192 .. 0.81

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.096
                Neurensin  92 LdtlklaGavllclGglllalsllvpa 118
                              + + +l G vll + g+ + ++l++++
  PHY93_05705|PHY93_05705 105 MTVATLLGYVLLIIPGIYISVALVFTI 131
                              344556666666666666666666554 PP

  == domain 2  score: 18.8 bits;  conditional E-value: 3.9e-07
                Neurensin  20 lekdeeklllqrakqksesllwkvslvvgtlvll..lGvtallvGylvp 66 
                              +e+++    l+r+k+  +  +w+v++ +g+l+ll  +G+ +l+vG +v+
  PHY93_05705|PHY93_05705 136 TENKDGIDALKRSKEIVNGRWWNVFMFCGFLFLLniVGLLCLVVGLIVT 184
                              4555555677888888***************996559********9876 PP

>> UPF0259  Uncharacterised protein family (UPF0259)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5  12.9   1.1e-06    0.0028     130     221 ..      95     188 ..      76     197 .. 0.73

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 1.1e-06
                  UPF0259 130 lPklliLiflttlliqlGllllliPGiivaillslsPiillkekksildsikasvnit...fknikliaPavllWllvklllllli 212
                              + ++l+ i l+t+ + lG +ll+iPGi ++++l ++ i +++e+k  +d++k s +i    + n+ +   + l+ l +  ll l++
  PHY93_05705|PHY93_05705  95 FLNILVAIVLMTVATLLGYVLLIIPGIYISVALVFTIIAMVTENKDGIDALKRSKEIVngrWWNVFMFC-GFLFLLNIVGLLCLVV 179
                              34678889999*******************************************988533366665444.4444455555555555 PP

                  UPF0259 213 skfsllskk 221
                                +  ++ +
  PHY93_05705|PHY93_05705 180 GLIVTIPLT 188
                              555555554 PP

>> EI24  Etoposide-induced protein 2.4 (EI24)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5  18.4   2.5e-05     0.063      40     177 ..      38     179 ..      22     192 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 2.5e-05
                              TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH.HHCCTTSHHHHHHHHHHHHHHHHHHHHH.HHTTHHH....HHHHH CS
                     EI24  40 vllasllvllllllplwlfplvalllaapfygllaekvekrhlglvkslaeslkslllllllllvllpl.liPvvglilsplllsw 124
                              +l   l ++ ++l  +++++l++++l+  f++  ++  + +    +++ ++s++s+ ++l++l+ + ++ + +++g +l ++++ +
  PHY93_05705|PHY93_05705  38 SLYIGLTLITIILNCIPYVSLFSIFLNIGFFNCCYKLMKNENI-NFNDYFFSFQSFSRFLNILVAIVLMtVATLLGYVLLIIPGIY 122
                              4445566677777778888899999999999999999977665.677788999999999999985555544489999999999999 PP

                              HHHHHHHHHHHHHHHHH.....-HHHHHHHHHCTHHHHHHHHHHHHHHTTSCCHHCTH CS
                     EI24 125 ltayfycfeyldlaagr.....sleerrallerrrayflgfGllvslllliPllnllf 177
                              ++   ++f  ++   ++      l++ ++++  r++ ++ f  +++ll  ++ll l++
  PHY93_05705|PHY93_05705 123 ISVA-LVFTIIAMVTENkdgidALKRSKEIVNGRWWNVFMFCGFLFLLNIVGLLCLVV 179
                              8888.88888888888888888********************8888888888887765 PP

>> OppC_N  N-terminal TM domain of oligopeptide transport permease C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.1   4.3e-05      0.11       3      29 ..      26      52 ..      24      85 .. 0.84
   2 ?   -5.3   7.1         7   1.8e+04      22      32 ..      98     108 ..      95     136 .. 0.64
   3 ?   -4.2   4.9         7   1.8e+04      17      24 ..     178     185 ..     159     198 .. 0.62

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 4.3e-05
                   OppC_N  3 wqdawrrFkrNklAvvglvilllllli 29
                             ++ aw  +k+N+   +gl ++ ++l +
  PHY93_05705|PHY93_05705 26 LAYAWDLLKKNPSLYIGLTLITIILNC 52
                             788*******************99865 PP

  == domain 2  score: -5.3 bits;  conditional E-value: 7
                   OppC_N  22 illlllliaif 32 
                              il++++l+ + 
  PHY93_05705|PHY93_05705  98 ILVAIVLMTVA 108
                              66677776532 PP

  == domain 3  score: -4.2 bits;  conditional E-value: 7
                   OppC_N  17 vvglvill 24 
                              vvgl++ +
  PHY93_05705|PHY93_05705 178 VVGLIVTI 185
                              44444444 PP

>> FA_desaturase  Fatty acid desaturase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   4.3    0.0003      0.77      96     213 ..      55     162 ..       7     167 .. 0.51
   2 ?    2.3   0.1     0.049   1.3e+02     138     170 ..     157     182 ..     138     197 .. 0.40

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.0003
            FA_desaturase  96 llrlllgllvlgwllalvlglwlrrlarrrapsksrrrkwrllawlllllawlglwlalllllglalllwlvplllllfllalvln 181
                              ++ l++++l++g++   +++  +  +  + + ++s++ + r+l +l++++  l +++ ll+   l  + +++ ++l+++++     
  PHY93_05705|PHY93_05705  55 YVSLFSIFLNIGFFNCCYKL-MKNENINFNDYFFSFQSFSRFLNILVAIV--LMTVATLLGYVLLIIPGIYISVALVFTII----A 133
                              55555666666633333333.33333334444444444445555554444..44444444433222223333333333332....7 PP

            FA_desaturase 182 yveHyggdwgerqvetsasirsaswllnlltg 213
                              +v  +   +g + ++ s  i  +++++n +++
  PHY93_05705|PHY93_05705 134 MVTENK--DGIDALKRSKEIV-NGRWWNVFMF 162
                              788876..9************.9999999965 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.049
            FA_desaturase 138 lawlllllawlglwlalllllglall.lwlvpll 170
                              + ++++          +l+ll +++l   +v l+
  PHY93_05705|PHY93_05705 157 WNVFMFCG--------FLFLLNIVGLlCLVVGLI 182
                              22222222........222222222212222222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (200 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1390  (0.077528); expected 358.6 (0.02)
Passed bias filter:                      511  (0.0285013); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.59u 0.27s 00:00:00.86 Elapsed: 00:00:00.44
# Mc/sec: 1367.58
//
Query:       PHY93_12075|PHY93_12075  [L=84]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.3e-26   89.6   2.4      1e-25   89.5   2.4    1.0  1  FliMN_C   Type III flagellar switch regulator (C-ring) FliN C


Domain annotation for each model (and alignments):
>> FliMN_C  Type III flagellar switch regulator (C-ring) FliN C-term
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   89.5   2.4   5.8e-30     1e-25       3      72 ..       7      76 ..       5      77 .. 0.98

  Alignments for each domain:
  == domain 1  score: 89.5 bits;  conditional E-value: 5.8e-30
                             XXXXXEEEEEEEEEEEEEHHHHHHHHTTSEEE--TTGGGCEEEEETTEEEEEEEEEEETTEEEEEEEEE- CS
                  FliMN_C  3 lsdvpveleaelgrtrltlrellnLkvGdvipLdkpadepvevyvngkpiarGelgvvggrlavriteii 72
                             + d+p+++++elgrt++ +++ll+L++G+v++Ldk a+ep+e++vngk++a+Ge++vv++++++r+t+ii
  PHY93_12075|PHY93_12075  7 ILDIPLKVSVELGRTQIIVKDLLQLGQGSVLELDKLAGEPLEILVNGKLVAKGEVVVVNEKFGIRLTDII 76
                             789*****************************************************************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (84 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       206  (0.0114898); expected 358.6 (0.02)
Passed bias filter:                      182  (0.0101512); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.35u 0.19s 00:00:00.54 Elapsed: 00:00:00.35
# Mc/sec: 717.45
//
Query:       PHY93_12080|PHY93_12080  [L=408]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      4e-05   23.8   0.2    0.00015   22.0   0.0    2.1  2  FliO      Flagellar biosynthesis protein, FliO


Domain annotation for each model (and alignments):
>> FliO  Flagellar biosynthesis protein, FliO
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.0   0.0   8.5e-09   0.00015      17      64 ..     272     319 ..     256     343 .. 0.76
   2 ?   -3.1   0.0      0.57     1e+04      48      67 ..     372     391 ..     371     402 .. 0.57

  Alignments for each domain:
  == domain 1  score: 22.0 bits;  conditional E-value: 8.5e-09
                     FliO  17 ggrrlkvvaslalgpkervvlVevgeellllGvtpgsislLheltkae 64 
                              +++ ++v++++ ++pk++++ V+  ++ +l+  ++++ +l++e+++ +
  PHY93_12080|PHY93_12080 272 STKLVEVLSTTHVAPKRTLMMVKAHKQVFLISSSETGMQLISEINDVT 319
                              467799**************************************6644 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 0.57
                     FliO  48 GvtpgsislLheltkaeape 67 
                              Gv +++ + L+ ++k + ++
  PHY93_12080|PHY93_12080 372 GVDKTETHALKAIEKTPVKD 391
                              56666666666664444443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (408 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       997  (0.0556082); expected 358.6 (0.02)
Passed bias filter:                      467  (0.0260472); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.42
# Mc/sec: 2891.06
//
Query:       PHY93_12085|PHY93_12085  [L=258]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.5e-77  259.1  15.9    4.1e-77  258.4  15.9    1.3  1  FliP      FliP family


Domain annotation for each model (and alignments):
>> FliP  FliP family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  258.4  15.9   2.3e-81   4.1e-77       1     190 [.      62     253 ..      62     254 .. 0.98

  Alignments for each domain:
  == domain 1  score: 258.4 bits;  conditional E-value: 2.3e-81
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX-HHHHHHHHHHH CS
                     FliP   1 lltvlslapallimvtsftrivivlsllrnalglqqvppnqvliglallltlfvmaPvleeineeavkplleeeiteeealekake 86 
                              l+t+++lap++li++tsftri+ivls++r+a+g+q++ppnqvl+g++l+l++fvm+P+ e+i+++a++p+++++i+++ a+++ + 
  PHY93_12085|PHY93_12085  62 LFTIITLAPSILILCTSFTRILIVLSFMRQAIGTQNMPPNQVLVGFSLFLSMFVMQPTGERIYNKAIQPYMQKTIATTVAIDEITL 147
                              689*********************************************************************************** PP

                              HHHHHHHHHHHHHHHHHHHHCTT-..-SSGGGS-HHHHHHHHHHHHHHHHT-XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                     FliP  87 plrefllkqtrekdlalflelaek..eeeeeevplsvlipafviselkkafeigfllylpFlviDlvvasvlmslGmmmlsPvvis 170
                               lr+f++kq+r+ d+ lf++++ k  +++ ++vp++ lipaf+iselk++f+igflly+pFl++D+vvasvlm++Gmmml+Pvv+s
  PHY93_12085|PHY93_12085 148 ALRAFMQKQVRKADIGLFYDVTGKaaPQTIDDVPIHYLIPAFIISELKTSFQIGFLLYIPFLILDMVVASVLMAMGMMMLPPVVVS 233
                              *********************99877899999****************************************************** PP

                              XXXXXXXXXXXXXXXXXXXX CS
                     FliP 171 lPfKlllfvlvdgwtllvks 190
                              lPfKlllfvlvdgw+l+++s
  PHY93_12085|PHY93_12085 234 LPFKLLLFVLVDGWQLVTGS 253
                              ****************9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (258 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       829  (0.0462379); expected 358.6 (0.02)
Passed bias filter:                      365  (0.0203581); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1950.93
//
Query:       PHY93_12090|PHY93_12090  [L=89]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.3e-30  105.1   8.3    1.7e-30  104.7   8.3    1.2  1  Bac_export_3  Bacterial export proteins, family 3
    0.00024   19.8   2.2    0.00024   19.7   2.2    1.1  1  DUF5357       Family of unknown function (DUF5357)
     0.0037   16.3   3.1     0.0042   16.1   3.1    1.0  1  Nramp         Natural resistance-associated macrophage protei
  ------ inclusion threshold ------
        0.6    9.3   6.3          1    8.5   1.4    1.9  2  Bac_export_2  FlhB HrpN YscU SpaS Family


Domain annotation for each model (and alignments):
>> Bac_export_3  Bacterial export proteins, family 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  104.7   8.3   3.8e-34   1.7e-30       3      73 ..       7      77 ..       5      78 .. 0.97

  Alignments for each domain:
  == domain 1  score: 104.7 bits;  conditional E-value: 3.8e-34
             Bac_export_3  3 idlarealllvlllsaplllvalvvGlvvsifQaaTqIqEqTLsfvpKllavllvllllgpwmletlvdft 73
                              d++++a+ ++l++sap+l+ al++G++vs+fQa+TqI+EqTLsf+pK+l+++++l++++pwm +t+++ft
  PHY93_12090|PHY93_12090  7 ADITHQAIKVALMVSAPMLIGALIMGILVSLFQAVTQINEQTLSFIPKILVIVAALVFFAPWMSDTMTTFT 77
                             589*******************************************************************9 PP

>> DUF5357  Family of unknown function (DUF5357)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.7   2.2   5.5e-08   0.00024      76     123 ..      21      65 ..       5      87 .. 0.81

  Alignments for each domain:
  == domain 1  score: 19.7 bits;  conditional E-value: 5.5e-08
                  DUF5357  76 gtflpvgalitgflvsvfafgeeedeitprtivlwptisavitaipef 123
                               + + +gali g+lvs+f  +++   i+++t+ + p i ++++a+  f
  PHY93_12090|PHY93_12090  21 SAPMLIGALIMGILVSLFQAVTQ---INEQTLSFIPKILVIVAALVFF 65 
                              4789**************98885...99****************9866 PP

>> Nramp  Natural resistance-associated macrophage protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   3.1   9.3e-07    0.0042      76     133 ..       9      66 ..       3      77 .. 0.91

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 9.3e-07
                    Nramp  76 viGaAialnllfgipllvgvlitavlvllllflekggyrklEaliialvlvialsFia 133
                              +   Ai + l++  p+l+g+li+++lv l++++ + + ++l ++ ++lv+v al+F+a
  PHY93_12090|PHY93_12090   9 ITHQAIKVALMVSAPMLIGALIMGILVSLFQAVTQINEQTLSFIPKILVIVAALVFFA 66 
                              555688899999********************************************97 PP

>> Bac_export_2  FlhB HrpN YscU SpaS Family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.5   1.4   0.00022         1      62     105 ..       7      50 ..       1      54 [. 0.84
   2 ?    4.3   0.2    0.0042        19      33      59 ..      55      81 ..      45      88 .. 0.82

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.00022
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
             Bac_export_2  62 lelllelllallllllplllvlllaallanllqvgflfstkalk 105
                              +++++++++ +l++ +p+l+ +l++++l++l+q    ++ ++l+
  PHY93_12090|PHY93_12090   7 ADITHQAIKVALMVSAPMLIGALIMGILVSLFQAVTQINEQTLS 50 
                              567889999999*********************98877777665 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.0042
                             XXXXXXXXXXXXXXXXXXXXXXXXXXX CS
             Bac_export_2 33 llaglllllllgpslveelaellrevl 59
                             +l+++++l++++p++ ++++++++ ++
  PHY93_12090|PHY93_12090 55 ILVIVAALVFFAPWMSDTMTTFTKDLF 81
                             789999999999**9999999988876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (89 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1002  (0.0558871); expected 358.6 (0.02)
Passed bias filter:                      402  (0.0224218); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 678.55
//
Query:       PHY93_12095|PHY93_12095  [L=257]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.8e-44  151.4  31.2    3.4e-44  151.1  31.2    1.0  1  Bac_export_1  Bacterial export proteins, family 1


Domain annotation for each model (and alignments):
>> Bac_export_1  Bacterial export proteins, family 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  151.1  31.2   1.9e-48   3.4e-44       2     222 ..      13     242 ..      12     249 .. 0.91

  Alignments for each domain:
  == domain 1  score: 151.1 bits;  conditional E-value: 1.9e-48
             Bac_export_1   2 lafllvfaRilallllaPvfgsrsiparvrlglalalalll....aaaalpalps.....vesllllllkEvliGlllGfllrlvf 78 
                              +af+l+f R +a+++ +P+f + +ip++v+++ al++++++    + +++    +     v+s+  l + E++iGl++Gf+++ ++
  PHY93_12095|PHY93_12095  13 VAFWLAFSRWFAVMFQLPLFDNVAIPVMVKVLTALMITFAFfpmvQ-DQIML--DikyvgVDSFWYLTIFETVIGLAIGFFVKSIM 95 
                              79***************************************87641.22222..13467799999********************* PP

             Bac_export_1  79 aalqlaGeiidlqmGlsmasvfdpasgaqssvlgqflnllalllflaldghllliealveSfelipvg..legk...laellvell 159
                              +++  aG ii +q+G++    fdp+ g q+ ++++++ +++l+++l++++   +++++v+Sf+ + +      k     e+++ ++
  PHY93_12095|PHY93_12095  96 SIFVSAGAIITQQVGFNALHYFDPSAGGQVGPFEKLIEWTVLMMVLTSGALIPMFKGVVHSFSSVHIYnlG--KmahSPEFFIMMF 179
                              *******************************************************************7541..44458888***** PP

             Bac_export_1 160 sdlfvlalqlalPvvaalllvnlalGllsRaaPqlnvfvvgfplkilvgllllllllplllev 222
                              + +f+ al+l+ P++++ +++n ++G++sRa+Pq+nv++v+f ++i +gll+++     +++ 
  PHY93_12095|PHY93_12095 180 KAFFISALMLSTPMIFINIVINAVMGIVSRAVPQMNVIAVSFAINIGLGLLVFVAGSDEFFQT 242
                              *****************************************************9887777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (257 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       943  (0.0525964); expected 358.6 (0.02)
Passed bias filter:                      277  (0.0154498); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1920.87
//
Query:       PHY93_12100|PHY93_12100  [L=358]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
   1.8e-114  382.4   9.2     2e-114  382.2   9.2    1.0  1  Bac_export_2  FlhB HrpN YscU SpaS Family
  ------ inclusion threshold ------
      0.027   14.9   0.2        1.1    9.7   0.2    2.8  2  DUF4179       Domain of unknown function (DUF4179)
      0.069   13.0   0.5      0.069   13.0   0.5    2.3  3  LapA_dom      Lipopolysaccharide assembly protein A domain


Domain annotation for each model (and alignments):
>> Bac_export_2  FlhB HrpN YscU SpaS Family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  382.2   9.2  3.4e-118    2e-114       2     330 .]      10     349 ..       9     349 .. 0.99

  Alignments for each domain:
  == domain 1  score: 382.2 bits;  conditional E-value: 3.4e-118
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX...........XXXXXXXXXXXXXXX CS
             Bac_export_2   2 eKteepTpkklrdarekGqvakskelssalvllaglllllllgpslveelaellrevlsa...........lelllelllalllll 76 
                              eKteep+++++++ r+kG+va+skel+s+lvl+a+ll+l++ + +++ee+a++++ +++            +++++++++ +l++ 
  PHY93_12100|PHY93_12100  10 EKTEEPSQHRIDEFRKKGDVASSKELTSVLVLAACLLTLSMSLVYVYEEMAKYIEWLYTLdiasaytekslNTITTRTFMVALKCG 95 
                              9*******************************************************999999999999998888899********* PP

                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
             Bac_export_2  77 lplllvlllaallanllqvgflfstkalkpklsklnplkglkrifslrslvellksllkvvlvgavaylvlkseleellalaeldl 162
                              +p++ ++l+a+++a+++q+gfl s++ l+++++++npl+g+k++fs++s++e +k ++k+++++ v+yl+lk+++ ++ ++++l++
  PHY93_12100|PHY93_12100  96 APVMCTALCAGIFAQVAQIGFLYSPDVLELNFDRINPLNGIKKLFSMQSIFEAVKGVVKFAVILSVVYLYLKDDVARYNGFMHLEF 181
                              ************************************************************************************** PP

                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX-HHHHHHHHHHHHHHHHHHHHHHHHT-SE CS
             Bac_export_2 163 eaalelllslllkllllvllallviallDlllqrwefekklkMtkqEvKdEyKesEGdpeiKsrirqlqrelarrrmmaevpkAdv 248
                               + + +  +ll+kl++++++al v+a+lD+++q+  +++klk tkq +K+E Ke++G+peiK+rirq+qre++r+rm+++v++Adv
  PHY93_12100|PHY93_12100 182 FQSFLYGKELLMKLAFAMIMALGVVAMLDFAYQKITYQNKLKQTKQQIKQESKEQDGNPEIKQRIRQMQREMSRKRMIKDVQTADV 267
                              ************************************************************************************** PP

                              EEEETTTEEEEEEEETTTESSEEEEEEEEHHHHHHHHHHHHHHT--EEE-HHHHHHHHHH--TTSB--GGGHHHHHHHHHHH CS
             Bac_export_2 249 vitNPthyAVALkYdpekmeaPvvvakGadelAlkireiAeengvpivenppLAraLyatvevgqeIpeelyeaVaeiLayv 330
                              +itNPth+++ LkYd+e+m  P+++ kG+d++A+kireiA+ +++piven+ LAr+Ly+tv+vg+ +p++ly+aVae+La+v
  PHY93_12100|PHY93_12100 268 IITNPTHISIVLKYDQENMVSPMIIGKGQDHMAMKIREIAKLHNIPIVENVLLARTLYKTVKVGSPVPRNLYKAVAEVLAFV 349
                              ********************************************************************************98 PP

>> DUF4179  Domain of unknown function (DUF4179)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   0.2   0.00019       1.1       4      37 ..      33      65 ..      30      88 .. 0.77
   2 ?    2.0   0.0      0.05     3e+02      11      52 ..     195     236 ..     188     256 .. 0.55

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.00019
                             XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.-- CS
                  DUF4179  4 rrikkvaaaaaalvllllssrllspalAsalnpv 37
                             + +++v + aa+l++l+ s +++ + +A+++ ++
  PHY93_12100|PHY93_12100 33 KELTSVLVLAACLLTLSMSLVYVYEEMAKYI-EW 65
                             6678999*********************999.22 PP

  == domain 2  score: 2.0 bits;  conditional E-value: 0.05
                              XXXXXXXXXXXXXXXXXXXXXXXX..--SS-HHHHT--SS-...HH CS
                  DUF4179  11 aaaaalvllllssrllspalAsaln.pvigslfeklsdskg...eq 52 
                              +a a++++l +++++l+ a+ ++   + +++  ++++   +   eq
  PHY93_12100|PHY93_12100 195 LAFAMIMAL-GVVAMLDFAYQKITYqNKLKQTKQQIK---QeskEQ 236
                              456666666.666666666666662122222222222...122233 PP

>> LapA_dom  Lipopolysaccharide assembly protein A domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -4.2   0.5       2.6   1.5e+04      32      41 ..      41      50 ..      38      53 .. 0.60
   2 ?   13.0   0.5   1.2e-05     0.069      20      63 ..     194     236 ..     179     237 .. 0.79
   3 ?   -3.6   1.0       1.7     1e+04      46      58 ..     243     255 ..     242     258 .. 0.62

  Alignments for each domain:
  == domain 1  score: -4.2 bits;  conditional E-value: 2.6
                 LapA_dom 32 llgwllslws 41
                             l+++ll+l++
  PHY93_12100|PHY93_12100 41 LAACLLTLSM 50
                             5566666654 PP

  == domain 2  score: 13.0 bits;  conditional E-value: 1.2e-05
                 LapA_dom  20 sllllvafgiGallgwllslwsylrlrrelrrlkkkikklekel 63 
                               l  ++ +++G+++++ +++ +++ ++ +l++ k++ik+  ke+
  PHY93_12100|PHY93_12100 194 KLAFAMIMALGVVAMLDFAY-QKITYQNKLKQTKQQIKQESKEQ 236
                              45566778888888888888.8*****************99996 PP

  == domain 3  score: -3.6 bits;  conditional E-value: 1.7
                 LapA_dom  46 rrelrrlkkkikk 58 
                              + ++r+ ++++ +
  PHY93_12100|PHY93_12100 243 KQRIRQMQREMSR 255
                              4566777776654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (358 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1945  (0.108483); expected 358.6 (0.02)
Passed bias filter:                      677  (0.0377601); expected 358.6 (0.02)
Passed Vit filter:                        67  (0.00373696); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.57u 0.23s 00:00:00.80 Elapsed: 00:00:00.39
# Mc/sec: 2751.62
//
Query:       PHY93_12105|PHY93_12105  [L=690]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
     5e-270  897.6  11.1   5.8e-270  897.4  11.1    1.0  1  FHIPEP        FHIPEP family
  ------ inclusion threshold ------
       0.13   12.2   3.5       0.63   10.0   3.5    2.2  1  Borrelia_P13  Borrelia membrane protein P13


Domain annotation for each model (and alignments):
>> FHIPEP  FHIPEP family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  897.4  11.1  6.5e-274  5.8e-270       1     657 [.      26     682 ..      26     683 .. 0.97

  Alignments for each domain:
  == domain 1  score: 897.4 bits;  conditional E-value: 6.5e-274
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX......XXXXXXXXX CS
                   FHIPEP   1 ivlmlilPlptlllDlllalnialsvlillvalyikkpldfsvFPtlLLittlfrLaLnvastrliLlegeeg....aGkvieaFg 82 
                              i++++i+P+ +++lDlllal++a+sv+i+lvaly+k+pldfs+FP++LLi+tlfrLaLnvastr iL++g +     aG++i++Fg
  PHY93_12105|PHY93_12105  26 ILVVMIVPIHPFILDLLLALSLAFSVMIMLVALYTKRPLDFSTFPSVLLISTLFRLALNVASTRNILIHGPSDgteaAGSIIKSFG 111
                              799******************************************************************87656888********* PP

                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                   FHIPEP  83 efvvggnlvvGlvvFlilvivqfvVitkGaeRvaEVaARFtLDamPGKqmaIDadlnaGlideeeArerreelereadfyGamDGA 168
                              efvv+gn+vvG+v+F+ilvi++f+V+tkGa+RvaEVaARFtLDamPGKqmaIDadlnaGli++ eA++rr+e+++eadfyG+mDGA
  PHY93_12105|PHY93_12105 112 EFVVEGNFVVGIVIFIILVIINFMVVTKGAGRVAEVAARFTLDAMPGKQMAIDADLNAGLINDVEAKRRRKEVAEEADFYGSMDGA 197
                              ************************************************************************************** PP

                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX..XXXXXXXXXXXXX CS
                   FHIPEP 169 sKFvkGDaiagliitliniigGliiGvlqhgmslsealetYtlLtiGDGLvsqiPaLlisvaagiivtrvaseenlgeeivkqlla 254
                              sKFv+GDaiag++it iniigG+iiGv+q+gm++++a+et+tlLt+GDGLv+qiPaL+is+aagi+vtr ++++n+g++++kq+  
  PHY93_12105|PHY93_12105 198 SKFVRGDAIAGILITGINIIGGIIIGVAQNGMDIGKAAETFTLLTVGDGLVTQIPALIISTAAGILVTRNTNDDNIGTQVSKQFKV 283
                              *********************************************************************99*************** PP

                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.......XXXXXXXXXXXXXX........TS-EEEEE-G CS
                   FHIPEP 255 npkalliaagvllllalvpglpklvflllaallallayllkkkkkkeekeeekeeeeeeaeeeeeeeeeeveellkvdplelelgy 340
                              +pka++ia++vl++++l+pglpkl+f++++++l+++ay ++++++k+    e +e++++ e +++++ +++eell+++ +ele+gy
  PHY93_12105|PHY93_12105 284 HPKAIYIAGAVLIFFGLIPGLPKLPFFMMGGMLGFAAYKIEQNNTKD----EMAEKQKSVEVTKKSNPQNLEELLNMELVELEVGY 365
                              ****************************************9987333....33344444455566667899*************** PP

                              GGHHHHHHT.......HHHHHHHHHHHHHSS---SEEEEE-TT--TTEEEEEETTEEEEEEE--TTSEEET........--EEEEE CS
                   FHIPEP 341 eliplvdeeqggeLlerikalrkqlaeelGlvvpeirirdnlelkpneyrikikgvevaegelkpdkllalnpgev.eelegeetk 425
                              +l++lvd+eq+g+Lleri+++rk +a + G+++p+++i+dnlelkp  y++kikg+++a+gel+ d++la++pg+v e+++g+et+
  PHY93_12105|PHY93_12105 366 GLVHLVDTEQNGDLLERITHMRKIFALDWGVIIPSVKIKDNLELKPGGYSVKIKGIQIAKGELMSDYFLAMDPGTViEKMDGVETT 451
                              ***************************************************************************97779****** PP

                              TTE...EEEEE-HHHHHHHHTTT--EEEHHHHHHHHHHHHHHHCHHHCHCHHHHHHHHHHHHTTHHHHHHHHH.HHS-HHHHHHHH CS
                   FHIPEP 426 epafglpavwieeeqreeaeaagytvvdpssvlathlsevikrhaaellgrqevkklldelkkeapklveelvpkllslgelqkvL 511
                              ep+fgl+avwi+e+q+e+a+ +gytvvd+s+++athl+e++k++++el+grqe+ +++d++k+++pklv++l+p++l+lg + kv+
  PHY93_12105|PHY93_12105 452 EPVFGLRAVWISEDQKEDAQYNGYTVVDCSTIVATHLTELLKSNLHELFGRQELVRVVDNFKETNPKLVNDLIPDILNLGIVLKVM 537
                              ************************************************************************************** PP

                              HHHHCTTXXXXXHHHHHHHHHHHTTTXXSHHHHHHHHHHHTHHHHHHHHH.TTSXEEEEEEXHHHHHHHHHHEEESSSE..EEXXX CS
                   FHIPEP 512 qnLlkErvsirdlrtIletlaeaakktkdvellteavRqaLkrqivqklaeedgelkvitldpeleqalaeslkqsegegsalale 597
                              +nLl+E+vs+rdlrtIletl+e++++ kd+e+lte +RqaL r+i++k+++e+g ++++tld+++e+ +a+++ q++ +g++l+l+
  PHY93_12105|PHY93_12105 538 KNLLREGVSVRDLRTILETLSEYGATIKDTEALTEFARQALFRTITEKIKSESGDIPLFTLDRNIEESIAQNIIQTD-QGQQLSLD 622
                              **************************************************************************977.678***** PP

                              HHHHHHHHHHHHHHH.CXXSXGGGXEEEEXCCCHHHHHHHHCTTXTTXEEEETCCCTTXS CS
                   FHIPEP 598 pelaeklleklkeavekleekgekpvllvspevRrllrkllerelpelaVlsynEieeev 657
                              p++++ +l++l+e++e+++++gek+v+l+sp +R+++++l+e+++p+l+V+s+nE+++++
  PHY93_12105|PHY93_12105 623 PKVTQIILASLNEKIEEATNMGEKMVVLCSPVIRSHFKRLTEKFIPNLVVVSHNELSPDA 682
                              ********************************************************9875 PP

>> Borrelia_P13  Borrelia membrane protein P13
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   3.5     7e-05      0.63      24      76 ..     196     248 ..     191     269 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 7e-05
             Borrelia_P13  24 GiGsfvqGdyiGGglllGfdvlGlililaGvikaldgivkkaeaavisgkvll 76 
                              G   fv+Gd i G l+ G +++G+i+i       ++g++ ++ +  ++g +l+
  PHY93_12105|PHY93_12105 196 GASKFVRGDAIAGILITGINIIGGIIIGVAQNGMDIGKAAETFTLLTVGDGLV 248
                              5668********************99977766667777666665556665544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (690 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       984  (0.0548832); expected 358.6 (0.02)
Passed bias filter:                      558  (0.0311228); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.68u 0.26s 00:00:00.94 Elapsed: 00:00:00.40
# Mc/sec: 5176.35
//
Query:       PHY93_12110|PHY93_12110  [L=504]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.7e-06   26.1   0.0    1.4e-05   24.8   0.0    1.7  1  SRP54     SRP54-type protein, GTPase domain
  ------ inclusion threshold ------
      0.053   13.3   0.1       0.13   12.1   0.1    1.7  1  DUF3577   Protein of unknown function (DUF3577)


Domain annotation for each model (and alignments):
>> SRP54  SRP54-type protein, GTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.8   0.0   1.6e-09   1.4e-05      85     195 ..     392     503 ..     362     504 .] 0.81

  Alignments for each domain:
  == domain 1  score: 24.8 bits;  conditional E-value: 1.6e-09
                              SEEEEEE--SSTTHHHHHHHHHHHHHHHSSSEEEEEEETTBHTHHHHHHHHHHHHSSCSEEEEESTTSSSSTTHHHHHHHHHT.S- CS
                    SRP54  85 dvvlvDTaGrlqndkelmeelkkikkvvkpdevllvldattgqeavkqakaFkeavgitgviltklDgdakgGaalsiaaelk.lP 169
                               +v++D      + ++  + ++ ++++ ++ evl++l+a+  +   +++    +++  +gv+++ lD+  + G++++i++ +k lP
  PHY93_12110|PHY93_12110 392 KCVFIDYKCNETESNDTKKFIDGLRRAFSKVEVLITLSAIHTELYNRKVLGTYRRL-SDGVVVSHLDACLNFGSLFNITQDIKdLP 476
                              46777777777777777777888888999999999999999988888887777777.6********************9988648* PP

                              EEEEE-SSST.TGEEE--HHHHHHHHH CS
                    SRP54 170 ikfigvGeki.edleefdperlvsrll 195
                               kf+g+Ge + +dle++++er++  ++
  PHY93_12110|PHY93_12110 477 YKFFGTGEVTpDDLEPATAERIMAGIF 503
                              ********999**********998876 PP

>> DUF3577  Protein of unknown function (DUF3577)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.1   1.4e-05      0.13      19      89 ..     334     405 ..     325     439 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 1.4e-05
                  DUF3577  19 nrirevepkkgksflacaiaaLsGpaddpeytyfdvrvag.keaeelvkrlqkaveedkkvLisfklgdlka 89 
                              + ++++ + k++s +  +i  ++ p+ +   + f + +++ +   e+v++++ka+e  k v+i +k +++++
  PHY93_12110|PHY93_12110 334 SMVQKIGTMKKDSVIIRNITSVNEPKSNFAEKLFGMSITKvASIAEIVSECRKALESGKCVFIDYKCNETES 405
                              67889999999999999********************997356789********************998764 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (504 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1647  (0.0918623); expected 358.6 (0.02)
Passed bias filter:                      658  (0.0367003); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.63u 0.26s 00:00:00.89 Elapsed: 00:00:00.44
# Mc/sec: 3442.22
//
Query:       PHY93_12115|PHY93_12115  [L=293]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.1e-21   77.5   0.6      2e-21   76.7   0.6    1.4  1  AAA_31       AAA domain
    2.1e-15   56.9   0.1    3.4e-15   56.2   0.1    1.3  1  CbiA         CobQ/CobB/MinD/ParA nucleotide binding domain
    4.5e-13   49.2   5.0    1.2e-08   34.7   2.7    2.2  2  ParA         NUBPL iron-transfer P-loop NTPase
    1.3e-10   41.2   0.1    5.2e-10   39.2   0.1    1.9  1  CBP_BcsQ     Cellulose biosynthesis protein BcsQ
    2.4e-07   30.3   8.0    3.3e-05   23.2   1.7    3.1  3  ArsA_ATPase  Anion-transporting ATPase
    7.6e-06   25.4   1.2    4.8e-05   22.8   1.2    2.1  1  MipZ         ATPase MipZ
    0.00014   21.4   0.1    0.00027   20.5   0.1    1.5  1  Fer4_NifH    4Fe-4S iron sulfur cluster binding proteins, Nif
     0.0007   19.3   2.1    0.00075   19.2   0.3    1.9  3  SRP54        SRP54-type protein, GTPase domain
     0.0025   18.4   0.8      0.006   17.1   0.4    1.8  2  AAA_18       AAA domain
     0.0028   17.2   0.1     0.0061   16.2   0.1    1.6  1  AAA_25       AAA domain
     0.0036   17.1   0.1      0.011   15.5   0.0    1.8  2  AAA_24       AAA domain
     0.0086   16.0   0.1      0.016   15.1   0.1    1.4  1  APS_kinase   Adenylylsulphate kinase
  ------ inclusion threshold ------
      0.016   15.0   1.1      0.034   13.9   0.3    1.9  2  ATP_bind_1   Conserved hypothetical ATP binding protein
      0.041   13.2   0.9      0.081   12.2   0.3    1.7  2  VirC1        VirC1 protein
      0.043   12.9   0.0       0.15   11.1   0.1    1.7  2  LpxK         Tetraacyldisaccharide-1-P 4'-kinase
       0.07   12.5   0.1       0.15   11.4   0.1    1.5  1  DnaB_C       DnaB-like helicase C terminal domain
        0.1   12.4   0.6       0.27   11.0   0.3    1.9  2  CLP1_P       mRNA cleavage and polyadenylation factor CLP1 P-
       0.12   12.0   0.2       0.21   11.3   0.2    1.3  1  AAA_30       AAA domain
       0.17   11.3   1.2       0.27   10.6   0.5    1.6  2  PhoH         PhoH-like protein


Domain annotation for each model (and alignments):
>> AAA_31  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.7   0.6   2.1e-24     2e-21       2     165 ..      29     185 ..      28     195 .. 0.83

  Alignments for each domain:
  == domain 1  score: 76.7 bits;  conditional E-value: 2.1e-24
                   AAA_31   2 kvIaianqKGGvGKTTtsvnlaaalaklgkkvLlvDlDpQanatt.glgiekneiektlyevlieeknikeaiiktkvenldlips 86 
                              k+I+++  KGGvGKT  +v++a+ la++g+kvLl D+D+  + t+ +lg+    i++ +ye++  + + ++++ k+   nl+l+ +
  PHY93_12115|PHY93_12115  29 KTISVTAGKGGVGKTSVAVKMAKILASSGYKVLLLDCDTNLSNTVvKLGL---PINNYFYELISAQRDFNDCLHKDG--NLHLLSG 109
                              99************************************987766625555...566789999999*********555..8888765 PP

                   AAA_31  87 ...sidLaeaeielvelekkeeilkellekvkdeYDyiiiDcpPsLglltenaLvasdsviipvqaeayaleGleqllktie 165
                                 sidL + + e+       +i+ ++l + + +YDyii+Dcp  +   t +  + sd+  ++v +++ ++    +l+k ++
  PHY93_12115|PHY93_12115 110 cngSIDLFNRNLEV------DRIIIDILVNHERDYDYIILDCPAGITKETLTLNAYSDYRFVIVTPDKSSVTDSYSLIKILN 185
                              11155555555544......5677899*****************999888888889**********9999988888887766 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.2   0.1   3.6e-18   3.4e-15       1     115 [.      31     234 ..      31     243 .. 0.86

  Alignments for each domain:
  == domain 1  score: 56.2 bits;  conditional E-value: 3.6e-18
                              EEEEESSTTSSHHHHHHHHHHHHHHTT--EEEEEEEESSCCCCHHTTEB-HHHH................................ CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx................................ RF
                     CbiA   1 iaiastkGGvGKTtlaanLaralarrglrVllvDaDpqannlaileglendiep................................ 54 
                              i+++++kGGvGKT++a+++a++la  g++Vll+D+D+  +n+ +  gl ++                                   
  PHY93_12115|PHY93_12115  31 ISVTAGKGGVGKTSVAVKMAKILASSGYKVLLLDCDTNLSNTVVKLGLPINNYFyelisaqrdfndclhkdgnlhllsgcngsidl 116
                              789**************************************99755554444447788888899999******************* PP

                              ...........................................................CCHCCCHHHHHHCHCHHHH..EEEEEE CS
                              ...........................................................xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     CbiA  55 ...........................................................dlkrllellealgkkkalllkiagvvl 81 
                                                                                         d  +l+++l++  ++     +   +++
  PHY93_12115|PHY93_12115 117 fnrnlevdriiidilvnherdydyiildcpagitketltlnaysdyrfvivtpdkssvtDSYSLIKILNKEFGV-----NDNHLLI 197
                              *****************************************************888888666666666444444.....5678999 PP

                              EEESS...-TTCHHHHHHHHHHC...TS-EEEEEE-- CS
                              xxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxx RF
                     CbiA  82 nrvdgeneetllkealeelkqry...gvpvlgviprd 115
                              n+v +e +++++ + l e+ + +   ++++lg i  +
  PHY93_12115|PHY93_12115 198 NKVSSEPQYQRMVKTLSETVETFlkcRLHILGGINNV 234
                              9999998888888888888776677888888877665 PP

>> ParA  NUBPL iron-transfer P-loop NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.7   2.7   1.3e-11   1.2e-08       4      41 ..      29      66 ..      27      78 .. 0.94
   2 !   14.7   0.0   1.6e-05     0.015     110     244 ..     136     263 ..     116     265 .. 0.64

  Alignments for each domain:
  == domain 1  score: 34.7 bits;  conditional E-value: 1.3e-11
                     ParA  4 kviavlSgKGGVGKStvavnlAlaLakkglkvgllDaD 41
                             k+i v++gKGGVGK++vav++A  La++g+kv llD D
  PHY93_12115|PHY93_12115 29 KTISVTAGKGGVGKTSVAVKMAKILASSGYKVLLLDCD 66
                             6899*********************************9 PP

  == domain 2  score: 14.7 bits;  conditional E-value: 1.6e-05
                     ParA 110 gelDyLiiDlPPGtgDeqltvaqklplagaviVttpqevaladvkkaiemfkkvkvkvlGvveNmsgfvcpkcgekteifgkggge 195
                               + Dy+i+D+P G + e+lt+    +    viV tp + +++d    i++++k     +Gv +N   +   +++ +++ + k   e
  PHY93_12115|PHY93_12115 136 RDYDYIILDCPAGITKETLTLNAYSD-YRFVIV-TPDKSSVTDSYSLIKILNK----EFGVNDNHLLINKVSSEPQYQRMVKTLSE 215
                              468******************99886.455666.6899898888777777665....35666666655555555555555443333 PP

                     ParA 196 klae..elgvpllgeipldpeireasdegkplvlkepeseaakaleeiaek 244
                              ++ +  ++ +++lg i    ++   +d+ ++l+l++++s+ +k++ +i++k
  PHY93_12115|PHY93_12115 216 TVETflKCRLHILGGIN---NVDAPVDQFDTLLLNQENSSLHKNFVKIVKK 263
                              33330044445566553...4555566666666677777777777777665 PP

>> CBP_BcsQ  Cellulose biosynthesis protein BcsQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.2   0.1   5.5e-13   5.2e-10       4     180 ..      31     209 ..      28     226 .. 0.80

  Alignments for each domain:
  == domain 1  score: 39.2 bits;  conditional E-value: 5.5e-13
                 CBP_BcsQ   4 lalqGvRGGvGttsllaaLawalhelgesvlviDlspdnlLrlhFnvdieqregwaraeldgapwrqaaleyapgldllPfGelnv 89 
                              + ++  +GGvG+ts+++ +a+ l + g++vl++D +  nl ++  ++ +  ++ + +   ++++++++      +l+ll  G   +
  PHY93_12115|PHY93_12115  31 ISVTAGKGGVGKTSVAVKMAKILASSGYKVLLLD-CDTNLSNTVVKLGLPINNYFYELISAQRDFNDCLH-KDGNLHLLS-GCNGS 113
                              5666669***************************.67899999999998899999999999999*99865.578899997.43333 PP

                 CBP_BcsQ  90 eekenlqqlaekaeallaalkelkeqyrwillDlpagasaltrellaladlvllvvepdanch......vr.LhqqalpaaellLi 168
                               +    +   e +  + + l + +++y++i+lD+pag ++ t +l+a +d ++ +v+pd ++       ++ L+++   + ++lLi
  PHY93_12115|PHY93_12115 114 IDLF--NRNLEVDRIIIDILVNHERDYDYIILDCPAGITKETLTLNAYSDYRFVIVTPDKSSVtdsyslIKiLNKEFGVNDNHLLI 197
                              3333..456788899999****************************************9876422222244245555567789*** PP

                 CBP_BcsQ 169 NqfeaasqlqqD 180
                              N+ +   q q+ 
  PHY93_12115|PHY93_12115 198 NKVSSEPQYQRM 209
                              **9999888864 PP

>> ArsA_ATPase  Anion-transporting ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.2   1.7   3.5e-08   3.3e-05       5      38 ..      33      66 ..      29      73 .. 0.88
   2 ?    1.1   0.0      0.18   1.7e+02     121     138 ..     134     150 ..     117     162 .. 0.76
   3 !    8.7   0.1   0.00095      0.89     199     258 ..     152     211 ..     149     255 .. 0.78

  Alignments for each domain:
  == domain 1  score: 23.2 bits;  conditional E-value: 3.5e-08
                             EEEESTTSSHHHHHHHHHHHHHHTTS-EEEEE-S CS
              ArsA_ATPase  5 lvgGKGGVGKttvsaatavklsekgkkvllistD 38
                             + +GKGGVGKt+v+  +a  l+ +g+kvll+  D
  PHY93_12115|PHY93_12115 33 VTAGKGGVGKTSVAVKMAKILASSGYKVLLLDCD 66
                             457***************************9887 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.18
                              HCSSSSEEEEESBSCCHT CS
              ArsA_ATPase 121 keeeydvvvlDtaPTGht 138
                              +e++yd+++lD  P G t
  PHY93_12115|PHY93_12115 134 HERDYDYIILDC-PAGIT 150
                              4899*******6.66655 PP

  == domain 3  score: 8.7 bits;  conditional E-value: 0.00095
                              HHHTSTTTEEEEEE.EESSHHHHHHHHHHHHHHHH.TT-EEEEEEEEEE-TTCSSSTSHHHH CS
              ArsA_ATPase 199 eiltdpertsfrlV.vipEklslkEteRaikeLkk.ygikvdavivNkllpeeeqenCefle 258
                              e+lt + ++  r+V v+p+k s+ ++  +ik L+k +g++ + +++Nk+  e + +  ++++
  PHY93_12115|PHY93_12115 152 ETLTLNAYSDYRFViVTPDKSSVTDSYSLIKILNKeFGVNDNHLLINKVSSEPQYQ--RMVK 211
                              55666666666655268****************7549************9999887..4444 PP

>> MipZ  ATPase MipZ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.8   1.2   5.1e-08   4.8e-05       3     153 ..      31     194 ..      29     236 .. 0.66

  Alignments for each domain:
  == domain 1  score: 22.8 bits;  conditional E-value: 5.1e-08
                              EEE--SSTTSSHHHHHHHHHHHHHTTT--EEEEE--TTT-.HH.......HHHHHHHHHHHHHHT------EEE-SSS..-HHHHT CS
                     MipZ   3 ivlgnekGGsGksttavhvavaLlkkGarvaaidldlrqr.tl.......arylenraataerkglsLplpealalse..aeeaev 78 
                              i ++  kGG Gk+ +av +a  L+++G +v  +d d+    t+       + y+      ++  +  L     l+l +  + + ++
  PHY93_12115|PHY93_12115  31 ISVTAGKGGVGKTSVAVKMAKILASSGYKVLLLDCDTNLSnTVvklglpiNNYFYELISAQRDFNDCLHKDGNLHLLSgcNGSIDL 116
                              778899******************************98541441111111445555544444444444444444443301334455 PP

                              TS-HHHHHHHHHHHHHHHHHH-SEEEEE--SS--HHHHHHHHT-S...EEEEEEESSHHHHCCCEEE-SSS--EEEE- CS
                     MipZ  79 eeeeeaevaeleelvadleaeldfividtPGsdsalsrlahslad...tlvtPlndsfvdfdllgkvdpetlkvkrps 153
                               + + + ++ + +++ + e+++d+i++d+P   ++ + + ++ +d    +vtP   s+ d   l k+  + + v+ + 
  PHY93_12115|PHY93_12115 117 FNRNLEVDRIIIDILVNHERDYDYIILDCPAGITKETLTLNAYSDyrfVIVTPDKSSVTDSYSLIKILNKEFGVNDNH 194
                              555555556678899999************876665555555555333689999999888766666666666665555 PP

>> Fer4_NifH  4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.5   0.1   2.9e-07   0.00027       6      53 ..      35      82 ..      30     111 .. 0.83

  Alignments for each domain:
  == domain 1  score: 20.5 bits;  conditional E-value: 2.9e-07
                Fer4_NifH  6 yGkGGiGksttsqnlsaalaemgkkvlivGCDPkaDstrlllggkaqe 53
                              GkGG+Gk+  +  +++ la+ g kvl++ CD     t + lg  +++
  PHY93_12115|PHY93_12115 35 AGKGGVGKTSVAVKMAKILASSGYKVLLLDCDTNLSNTVVKLGLPINN 82
                             59******************************9999997777655555 PP

>> SRP54  SRP54-type protein, GTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.2   0.3   7.9e-07   0.00075       4      39 ..      32      67 ..      29      83 .. 0.91
   2 ?   -2.3   0.0       3.1   2.9e+03      80      91 ..     134     145 ..     116     175 .. 0.74
   3 ?   -3.6   0.0       7.8   7.4e+03     123     140 ..     251     268 ..     238     274 .. 0.70

  Alignments for each domain:
  == domain 1  score: 19.2 bits;  conditional E-value: 7.9e-07
                             EEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEEEST CS
                    SRP54  4 illvGlqGaGKTttlaKLaallkkegkkvllvaaDt 39
                              + +G  G+GKT+ + K+a++l ++g+kvll  +Dt
  PHY93_12115|PHY93_12115 32 SVTAGKGGVGKTSVAVKMAKILASSGYKVLLLDCDT 67
                             5678999****************************8 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 3.1
                              HHTTSSEEEEEE CS
                    SRP54  80 keekidvvlvDT 91 
                              +e+++d++++D 
  PHY93_12115|PHY93_12115 134 HERDYDYIILDC 145
                              456788888885 PP

  == domain 3  score: -3.6 bits;  conditional E-value: 7.8
                              TTBHTHHHHHHHHHHHHS CS
                    SRP54 123 attgqeavkqakaFkeav 140
                              +++ ++ vk +k+F e++
  PHY93_12115|PHY93_12115 251 SSLHKNFVKIVKKFTEEI 268
                              455677777788887765 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.4   6.3e-06     0.006       4     108 ..      35     152 ..      33     170 .. 0.72
   2 ?   -1.3   0.0       3.2     3e+03      58      92 ..     181     210 ..     148     232 .. 0.61

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 6.3e-06
                   AAA_18   4 tGtpGvGKttlakeLskrlgf.....................gvnlrdvakenglllevdpe.aldeskrldedkldklldaleen 67 
                              +G+ GvGKt++a   +k l++                     g  ++ +++e  +   ++++          +d    ll++ +++
  PHY93_12115|PHY93_12115  35 AGKGGVGKTSVAVKMAKILASsgykvllldcdtnlsntvvklGLPINNYFYELISAQRDFNDcL-------HKDGNLHLLSGCNGS 113
                              7999***********9998556999999999777777777777777777777777777777743.......333322444444444 PP

                   AAA_18  68 ss...aleegknlvidghlaeleseaakdikkvvLtaspeelle 108
                              ++   ++ e + ++id ++++ +++++     ++L+++  + +e
  PHY93_12115|PHY93_12115 114 IDlfnRNLEVDRIIIDILVNHERDYDY-----IILDCPAGITKE 152
                              445555567999999999999999988.....788888766555 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 3.2
                   AAA_18  58 dklldaleenssaleegknlvidghlaeleseaak 92 
                               k+l++  + ++     ++l+i  + +e+ + +++
  PHY93_12115|PHY93_12115 181 IKILNKEFGVND-----NHLLINKVSSEPQYQRMV 210
                              333333333333.....555555555555555554 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.1   6.4e-06    0.0061      17      77 ..       5      63 ..       2     146 .. 0.73

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 6.4e-06
                   AAA_25 17 apppprrwlvkg........llpagelallaGapgtGKttlaldlalava.tGkpwlgpvapeqgkVlyv 77
                             ++p pr+wlv           l a+++++ aG +g+GKt +a+ +a  +a +G            kVl++
  PHY93_12115|PHY93_12115  5 KKPNPRDWLVSQnkyqskktSLKAKTISVTAGKGGVGKTSVAVKMAKILAsSGY-----------KVLLL 63
                             57889999998668888888889**********************998884443...........44444 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   1.2e-05     0.011       7      72 ..      34     144 ..      28     152 .. 0.70
   2 ?   -2.4   0.0       3.6   3.4e+03      25      50 ..     242     262 ..     237     276 .. 0.74

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.2e-05
                   AAA_24   7 iyGpsgiGKTtlakel.......gpkplfidtekGlksldadkfpdie...........swedfldevvel............... 59 
                                G+ g+GKT++a ++       g+k+l++d++  l ++ ++ +  i+               f d + ++               
  PHY93_12115|PHY93_12115  34 TAGKGGVGKTSVAVKMakilassGYKVLLLDCDTNLSNTVVKLGLPINnyfyelisaqrD---FNDCLHKDgnlhllsgcngsidl 116
                              579*******************************99888888777777766665553332...22222222444556666666666 PP

                   AAA_24  60 ...............aaeladyktlviD 72 
                                               +++dy+ +++D
  PHY93_12115|PHY93_12115 117 fnrnlevdriiidilVNHERDYDYIILD 144
                              5555666666666666666666666666 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 3.6
                   AAA_24  25 kplfidtekGlksldadkfpdieswe 50 
                              ++l+++ e+++ + ++ k++     +
  PHY93_12115|PHY93_12115 242 DTLLLNQENSSLHKNFVKIV-----K 262
                              67888888888888888876.....3 PP

>> APS_kinase  Adenylylsulphate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.1   1.7e-05     0.016       8      40 ..      35      67 ..      27      81 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.7e-05
                             ESSTTSSHHHHHHHHHHHHHHTT--EEEEEHHH CS
               APS_kinase  8 tGlsgsGKstianalekkLvekgisvylLdGdn 40
                             +G  g GK+++a++++k L ++g++v lLd d+
  PHY93_12115|PHY93_12115 35 AGKGGVGKTSVAVKMAKILASSGYKVLLLDCDT 67
                             58999*************************996 PP

>> ATP_bind_1  Conserved hypothetical ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.3   3.6e-05     0.034       2      99 ..      35     146 ..      34     151 .. 0.67
   2 ?   -2.7   0.0       4.3   4.1e+03     107     140 ..     253     285 ..     246     289 .. 0.61

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 3.6e-05
               ATP_bind_1   2 vGpaGsGKttfvgalseilelrgrsvavvNLDPAae....elpYeaavdirelitledvmed.lglgpngalvv....aleflres 78 
                              +G  G+GKt+   ++++il ++g++v ++  D+  +    +l  +++    eli+ +   +d l+   n  l      +++++  +
  PHY93_12115|PHY93_12115  35 AGKGGVGKTSVAVKMAKILASSGYKVLLLDCDTNLSntvvKLGLPINNYFYELISAQRDFNDcLHKDGNLHLLSgcngSIDLFNRN 120
                              6999************************9777655500005555666666788887766666666666665554111166788888 PP

               ATP_bind_1  79 l..dwldeel.....ekeed.dyllfDtP 99 
                              l  d +   +     ++e+d dy+++D+P
  PHY93_12115|PHY93_12115 121 LevDRI---IidilvNHERDyDYIILDCP 146
                              844444...233344444446*******9 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 4.3
               ATP_bind_1 107 hseslakiveeLesefalvvvyLvDsqrltdptk 140
                              +++  +kiv+++++e++ v     Ds+++++ t+
  PHY93_12115|PHY93_12115 253 LHKNFVKIVKKFTEEIEGV-ALSTDSKFVSKFTT 285
                              5566667777777655544.44567777776555 PP

>> VirC1  VirC1 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.3   8.6e-05     0.081       4      41 ..      31      68 ..      28      75 .. 0.90
   2 ?   -1.4   0.0       1.2   1.2e+03     129     146 ..     126     143 ..      90     219 .. 0.65

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 8.6e-05
                    VirC1  4 itfcslkGGaGkttalmglcsalasdgkrvalfeaden 41
                             i++++ kGG Gkt+  + +   las g +v l+++d n
  PHY93_12115|PHY93_12115 31 ISVTAGKGGVGKTSVAVKMAKILASSGYKVLLLDCDTN 68
                             677888******************************99 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 1.2
                    VirC1 129 yvielllaeelaipvail 146
                              ++i++l+  e +    il
  PHY93_12115|PHY93_12115 126 IIIDILVNHERDYDYIIL 143
                              555555444444443333 PP

>> LpxK  Tetraacyldisaccharide-1-P 4'-kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.1   0.00016      0.15      30      70 ..      23      62 ..       9      64 .. 0.77
   2 ?   -1.0   0.0      0.78   7.4e+02     165     238 ..     146     233 ..     122     267 .. 0.61

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00016
                             -B--SS-EEEEEESBSS-HSHHHHHHHHHHHTTTS..-EEE CS
                     LpxK 30 serlpvpVivVGNitvGGtGKTPlvialvkllqarglkvgv 70
                             +++l+++ i+V     GG GKT++++ ++k l+++g+kv  
  PHY93_12115|PHY93_12115 23 KTSLKAKTISVT-AGKGGVGKTSVAVKMAKILASSGYKVLL 62
                             445566667774.3569*********************976 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.78
                              TTSSBSS-GG..GGGG-SEEEE..........-TTTS..........SSS-EEEEEEEE.EETTS-..EE-GGGGTTS-EEEEESS CS
                     LpxK 165 PaGpLREpls..rlkradlvilngakaeeeeaekaee..........ksipvlrmrlepkklalla..aaeeealagkkvlavaGi 236
                              PaG   E l+  + ++  +vi++ +k++ ++  +  +          ++  + +++ ep++++ ++  ++++e++ + + + + Gi
  PHY93_12115|PHY93_12115 146 PAGITKETLTlnAYSDYRFVIVTPDKSSVTDSYSLIKilnkefgvndNHLLINKVSSEPQYQRMVKtlSETVETFLKCRLHILGGI 231
                              77777777665466666677777666665555444445566666554333333444444444333211444444555555666666 PP

                              TT CS
                     LpxK 237 gn 238
                               n
  PHY93_12115|PHY93_12115 232 NN 233
                              55 PP

>> DnaB_C  DnaB-like helicase C terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1   0.00016      0.15      14      57 ..      24      66 ..      17      78 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00016
                             TSBXTTXEEEEEEXTTSSHHHHHHHHHHHHHHCSTSEEEEEESS CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   DnaB_C 14 sGlqkgdliiiAarpsmGktalalniaenaavkeklpvavfsle 57
                             + l+  ++ + A++ ++Gkt++a+++a+  a  +  +v++   +
  PHY93_12115|PHY93_12115 24 TSLKAKTISVTAGKGGVGKTSVAVKMAKILAS-SGYKVLLLDCD 66
                             568888999*******************8885.56677776665 PP

>> CLP1_P  mRNA cleavage and polyadenylation factor CLP1 P-loop
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.3   0.00029      0.27       1      35 [.      36      70 ..      36      78 .. 0.90
   2 ?   -2.2   0.0       3.3   3.1e+03      77      92 ..     203     218 ..     167     224 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00029
                   CLP1_P  1 GpkdsGKSTlarlLlNyalrkgrkpvyvDlDvGqs 35
                             G+  +GK+++a  ++  ++++g+k++++D+D + s
  PHY93_12115|PHY93_12115 36 GKGGVGKTSVAVKMAKILASSGYKVLLLDCDTNLS 70
                             66789**************************8766 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 3.3
                   CLP1_P  77 pslylalvkelareve 92 
                                +y ++vk l ++ve
  PHY93_12115|PHY93_12115 203 EPQYQRMVKTLSETVE 218
                              3367777777777776 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.2   0.00022      0.21      17      52 ..      28      63 ..      16      81 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00022
                   AAA_30 17 gdrvavltGpAGtGKttalkalreaweaaggrvigl 52
                              + ++v  G  G GKt +  +++++++++g++v++l
  PHY93_12115|PHY93_12115 28 AKTISVTAGKGGVGKTSVAVKMAKILASSGYKVLLL 63
                             446999***************************987 PP

>> PhoH  PhoH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.5   0.00029      0.27      13      40 ..      23      50 ..      13      63 .. 0.78
   2 ?   -3.5   0.0       6.1   5.8e+03     147     172 ..     223     248 ..     222     268 .. 0.61

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00029
                             HHHHHH-SEEEEE--TTSSTTHHHHHHH CS
                     PhoH 13 lealkkndivfaiGpaGtGKtylavala 40
                              ++lk+++i + +G+ G GKt +av +a
  PHY93_12115|PHY93_12115 23 KTSLKAKTISVTAGKGGVGKTSVAVKMA 50
                             3468899*******************98 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 6.1
                              -EEEEEE--------------THHHH CS
                     PhoH 147 skvvvtGdvtqidlpkgkksGlaeal 172
                              +++ ++G ++ +d p+++ + l   +
  PHY93_12115|PHY93_12115 223 CRLHILGGINNVDAPVDQFDTLLLNQ 248
                              67778888888888876555544333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (293 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       760  (0.0423894); expected 358.6 (0.02)
Passed bias filter:                      556  (0.0310112); expected 358.6 (0.02)
Passed Vit filter:                        80  (0.00446204); expected 17.9 (0.001)
Passed Fwd filter:                        19  (0.00105974); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              19  [number of targets reported over threshold]
# CPU time: 0.63u 0.28s 00:00:00.91 Elapsed: 00:00:00.50
# Mc/sec: 1759.99
//
Query:       PHY93_12120|PHY93_12120  [L=259]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-17   63.1   0.1    2.3e-17   62.2   0.1    1.5  1  Sigma70_r4       Sigma-70, region 4
    1.7e-16   59.8   0.0    3.7e-16   58.6   0.0    1.6  1  Sigma70_r2       Sigma-70 region 2
    4.9e-09   35.7   0.3    1.2e-08   34.5   0.3    1.7  1  Sigma70_r4_2     Sigma-70, region 4
    7.6e-09   35.5   0.2    7.2e-08   32.4   0.1    2.2  2  Sigma70_r3       Sigma-70 region 3
    3.5e-05   24.0   0.3    0.00028   21.0   0.1    2.4  2  UPF0122          Putative helix-turn-helix protein, YlxM / p1
  ------ inclusion threshold ------
      0.012   15.7   0.0      0.027   14.6   0.0    1.5  1  DUF3861          Domain of Unknown Function with PDB structur
       0.13   12.2   0.1        1.9    8.5   0.0    2.4  2  Phage_terminase  Phage terminase small subunit


Domain annotation for each model (and alignments):
>> Sigma70_r4  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.2   0.1   9.1e-21   2.3e-17       3      49 ..     200     246 ..     198     247 .. 0.97

  Alignments for each domain:
  == domain 1  score: 62.2 bits;  conditional E-value: 9.1e-21
                              HHS-HHHHHHHHHHHTTT--HHHHHHHHTS-HHHHHHHHHHHHHHHH CS
               Sigma70_r4   3 asLpererevlelrfgeglTleEIgerlgiSrerVrqiekrAlrkLR 49 
                               +Lpe++r vl+l+++e+l+l+EIg++l+++++rV+q++++A+ kL+
  PHY93_12120|PHY93_12120 200 MTLPEKQRLVLSLYYYEDLNLKEIGQVLDVTESRVSQLHTQAILKLK 246
                              68********************************************8 PP

>> Sigma70_r2  Sigma-70 region 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.6   0.0   1.4e-19   3.7e-16       4      70 ..      29      98 ..      26      99 .. 0.96

  Alignments for each domain:
  == domain 1  score: 58.6 bits;  conditional E-value: 1.4e-19
                             HHHHHHHHHHHHC...T-THHHHHHHHHHHHHHHHHHGGGTSTTTCHHHHHHHHHHHHHHHHHHHHTSST CS
               Sigma70_r2  4 rylplvkrlarrl...lgsgadaeDlvQeaflrlwraverfdpergvsfsawllriarnaaidrlRkrrr 70
                             +y plvk +a+++   l+s+ + +Dl++ + ++l++a+e+fdp+r  +f++++  ++r+a++d+lR +++
  PHY93_12120|PHY93_12120 29 EYAPLVKYIAQKIasrLPSNIELDDLISCGVIGLMDAIEKFDPTRDNKFKTYAEFRIRGAILDELRAQDW 98
                             79*************9***************************************************998 PP

>> Sigma70_r4_2  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.5   0.3   4.6e-12   1.2e-08       1      54 []     192     245 ..     192     245 .. 0.94

  Alignments for each domain:
  == domain 1  score: 34.5 bits;  conditional E-value: 4.6e-12
                              HHHHHHHHTTS-HHHHHHHHHHHTS---HHHHHHHHT--HHHHHHHHHHHHHHH CS
             Sigma70_r4_2   1 rqalrealaeLperqreifllryleglsykEIAellgisegtVksrlsRArkkL 54 
                              r+++ e + +Lpe+qr ++ l+y+e+l  kEI ++l+++e+ V +   +A  kL
  PHY93_12120|PHY93_12120 192 REKIKEGIMTLPEKQRLVLSLYYYEDLNLKEIGQVLDVTESRVSQLHTQAILKL 245
                              577889999************************************999998887 PP

>> Sigma70_r3  Sigma-70 region 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.4   0.1   2.8e-11   7.2e-08       1      69 [.     105     177 ..     105     185 .. 0.81
   2 ?    0.5   0.0      0.25   6.5e+02      24      40 ..     221     237 ..     219     241 .. 0.85

  Alignments for each domain:
  == domain 1  score: 32.4 bits;  conditional E-value: 2.8e-11
                              XHHHHHHHHHHHHHHHHSSXXXHHHHHHHHTXXHHHHHHHHHHHXXXEETTXBSS....SSTTXBSTTTXBXS CS
               Sigma70_r3   1 EklnkikraqreLeqelgrePtpeEiAeeLglseekVrevleaarepvSldlpvg....eeedtelgdlledd 69 
                              Ek++ + ra  +Le +lgr +t+eE   eLg+  e+ +++l+ a++  +l+++++    + + + +++++ed 
  PHY93_12120|PHY93_12120 105 EKTKTVERAYSKLEANLGRPATDEEMCLELGMNHEEFHDLLNKAKSISLLNIDDSasfnKGDKKLISEVMEDH 177
                              78899**********************************************9987222123444455566655 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.25
                              HHHHHHHTXXHHHHHHH CS
               Sigma70_r3  24 eEiAeeLglseekVrev 40 
                               Ei + L+++e++V ++
  PHY93_12120|PHY93_12120 221 KEIGQVLDVTESRVSQL 237
                              699999*******9986 PP

>> UPF0122  Putative helix-turn-helix protein, YlxM / p13 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.0       0.5   1.3e+03      65      99 ..      74     108 ..      62     112 .. 0.82
   2 !   21.0   0.1   1.1e-07   0.00028      18      53 ..     202     237 ..     193     256 .. 0.85

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.5
                  UPF0122  65 EekLkllekykkreellekikdkllkqkelekklk 99 
                              ++k k +++++ r  +l++++ +    +++ +k+k
  PHY93_12120|PHY93_12120  74 DNKFKTYAEFRIRGAILDELRAQDWVPRSIREKTK 108
                              57899999999999999999998888877777766 PP

  == domain 2  score: 21.0 bits;  conditional E-value: 1.1e-07
                  UPF0122  18 LTekqanylelyyadDlSlsEiAeefnvsrqavydn 53 
                              L ekq+ +l+lyy +Dl l+Ei +  +v+ + v++ 
  PHY93_12120|PHY93_12120 202 LPEKQRLVLSLYYYEDLNLKEIGQVLDVTESRVSQL 237
                              679***************************999885 PP

>> DUF3861  Domain of Unknown Function with PDB structure (DUF3861)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.0     1e-05     0.027       9      71 ..     116     180 ..     113     189 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 1e-05
                  DUF3861   9 eledadgeeseekpleFeae.nhdDilkiverlkkkedldadeaaalavg.lkLlgevmlknrkn 71 
                              +le + g++ +++++ +e + nh++  +++++ k+ + l+ d++a++  g  kL++evm  +r+ 
  PHY93_12120|PHY93_12120 116 KLEANLGRPATDEEMCLELGmNHEEFHDLLNKAKSISLLNIDDSASFNKGdKKLISEVMEDHRAL 180
                              6777888888888999997549***************************9457*********975 PP

>> Phage_terminase  Phage terminase small subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   0.1      0.21   5.4e+02       6      18 ..      70      82 ..      67      86 .. 0.90
   2 ?    8.5   0.0   0.00076       1.9      23      41 ..     218     236 ..     214     243 .. 0.88

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.21
          Phage_terminase  6 sPdRDkAyelykE 18
                             +P RD+ ++ y E
  PHY93_12120|PHY93_12120 70 DPTRDNKFKTYAE 82
                             8********9988 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.00076
          Phage_terminase  23 lklkdIAkvLdvsestvrk 41 
                              l+lk+I +vLdv es v++
  PHY93_12120|PHY93_12120 218 LNLKEIGQVLDVTESRVSQ 236
                              789**************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (259 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       795  (0.0443416); expected 358.6 (0.02)
Passed bias filter:                      546  (0.0304535); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.53u 0.28s 00:00:00.81 Elapsed: 00:00:00.47
# Mc/sec: 1668.46
//
Query:       PHY93_05710|PHY93_05710  [L=364]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.7e-43  149.3   2.0    3.2e-42  145.1   2.0    2.2  1  NMO           Nitronate monooxygenase
    2.5e-08   33.3   0.6    0.00078   18.5   0.0    2.1  2  IMPDH         IMP dehydrogenase / GMP reductase domain
    2.9e-05   23.4   0.0    5.4e-05   22.6   0.0    1.4  1  DHO_dh        Dihydroorotate dehydrogenase
  ------ inclusion threshold ------
      0.018   14.5   0.0      0.031   13.7   0.0    1.3  1  His_biosynth  Histidine biosynthesis protein
      0.046   12.7   0.0      0.083   11.9   0.0    1.3  1  FMN_dh        FMN-dependent dehydrogenase


Domain annotation for each model (and alignments):
>> NMO  Nitronate monooxygenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  145.1   2.0   8.9e-46   3.2e-42       5     328 ..      11     362 ..       8     364 .] 0.76

  Alignments for each domain:
  == domain 1  score: 145.1 bits;  conditional E-value: 8.9e-46
                      NMO   5 tellkikppvvqpgmgg.iskarLaaavsnaGgLGvlasgyltaDrlakeirkvkaltdkPfgvnlflpkkdaadraekykkelee 89 
                              + +  i  p++q+gmg   s   La+av+ +Gg+Gvl+s+ l  D          +++++  g  +   +++a+d    +k+  ++
  PHY93_05710|PHY93_05710  11 IRKTRITVPIIQGGMGIgLSSYTLAGAVAAEGGMGVLSSAAL--D----------RIVSERHGRKMKHREAAAQDV-MDAKNLSNG 83 
                              6778899*********99********************7654..3..........355555555555555555555.333444455 PP

                      NMO  90 aalelnieegvr..fyrkvevvldekvevvsfgfglpteevva.rlk..eagvvliptissvkearkvearG......aDalivqG 164
                               a ++ni ++v   +   v+  +d +v++++ g+glp   +++ +l+  + +v+lip++ss  +a ++ +r+      +Dal+v+G
  PHY93_05710|PHY93_05710  84 GAIGMNIMVAVIntYEDSVLGSMDGGVDAIISGAGLPMALPEIvKLHprADEVALIPIVSSGRAAEIIFKRWsrsgrlPDALVVEG 169
                              677888888776669999*******************87654314442256799******************************** PP

                      NMO 165 peaGGhqGtpevgd.....kglfaLvpqvldavd.....iPviAaGGiidrrgvaaaLalGAsgvqigtrfLltkesdakdahkkk 240
                              p aGGh+  +e+++     ++l +L+++v ++ +     iPviAaGG+ +++++   + lG  gvq+gtrfL+t+es+a+   k+ 
  PHY93_05710|PHY93_05710 170 PLAGGHIAWREKEQaadpvNKLENLLKEVIEVCKkwnlnIPVIAAGGVYTHEDILHYIDLGCGGVQMGTRFLATNESGANSEYKQL 255
                              ********55555455365566666666666666**************************************************** PP

                      NMO 241 lleaklddteltsavs...GrpaRalatelleelee.........akiatlalpeah..............elakk..iraalvea 298
                              l+e ++ d+el  + +   G+  R+l+     +            +          +               +  +  i ++l+ +
  PHY93_05710|PHY93_05710 256 LVECQETDIELADKPGspcGMLFRVLKQSPFYQDALnfartpkcdK----------GyllnkgacsakdenDK--AfcICNGLLAS 329
                              ***********97655344677788776655444432333333330..........24555555544442223..25577777776 PP

                      NMO 299 ...gnteegllwagqgidrldkiisvkeLiesL 328
                                   +e+ l+ +gq ++r++ki+svk+L+ +L
  PHY93_05710|PHY93_05710 330 iklAPNEKNLYTVGQTAYRINKILSVKDLMDEL 362
                              555578999*********************998 PP

>> IMPDH  IMP dehydrogenase / GMP reductase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.6   0.7   1.3e-05     0.048      27     102 ..      10      89 ..       3     115 .. 0.82
   2 !   18.5   0.0   2.2e-07   0.00078     198     251 ..     197     252 ..     189     257 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 1.3e-05
                              SSTTEEESSSEEE-SSTT.T-SHHHHHHHHHTTSEEEE-SS.S-HHHHHHHHHHHHTSTTSXBX..TTSXB-EEEEE-SS CS
                              xxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxx RF
                    IMPDH  27 ltkkiklniPlvsaamdt.vtesemAialareGgigvihkn.lsieeqaeevkkvkrspnaakd..ekgrllvgaavgvk 102
                              + +k ++++P++   m    +  ++A a+a eGg+gv+    l+     ++ +k+k+ + aa+d  + ++l  g a+g++
  PHY93_05710|PHY93_05710  10 VIRKTRITVPIIQGGMGIgLSSYTLAGAVAAEGGMGVLSSAaLDRIVSERHGRKMKHREAAAQDvmDAKNLSNGGAIGMN 89 
                              568899**********9648999***************9762455566678899**9999999987889999*****987 PP

  == domain 2  score: 18.5 bits;  conditional E-value: 2.2e-07
                              HHHHHHCTC..T-EEEEES---SHHHHHHHHHTT-SEEEESCCCTTBTTSSSEEEE CS
                              xxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    IMPDH 198 evaeaakka..gvpviaDGGikysgdivkAlaaGadavmlGsllagteEspgevil 251
                              ev e++kk   ++pvia GG+ + +di   + +G   v +G  + +t+Es ++  +
  PHY93_05710|PHY93_05710 197 EVIEVCKKWnlNIPVIAAGGVYTHEDILHYIDLGCGGVQMGTRFLATNESGANSEY 252
                              677888876336**************************************887665 PP

>> DHO_dh  Dihydroorotate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.6   0.0   1.5e-08   5.4e-05     231     278 ..     195     242 ..     191     256 .. 0.89

  Alignments for each domain:
  == domain 1  score: 22.6 bits;  conditional E-value: 1.5e-08
                              HHHHHHHHHHTTT.S-EEEESS--SHHHHHHHHHHTECEEEESHHHHH CS
                   DHO_dh 231 lkvirelykrlkkeipiIgvGGiesgeDalekieaGAslvqvytalvf 278
                              lk + e+ k+ + +ip+I+ GG+ + eD l +i  G   vq++t +  
  PHY93_05710|PHY93_05710 195 LKEVIEVCKKWNLNIPVIAAGGVYTHEDILHYIDLGCGGVQMGTRFLA 242
                              57789999999*********************************8865 PP

>> His_biosynth  Histidine biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   8.7e-06     0.031     186     224 ..     201     241 ..     192     245 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 8.7e-06
                              HHHHH..SSEEEEESS--SHHHHHHHHHTTCSEEEESHHHH CS
             His_biosynth 186 laeav..kipviasGGvgsledlkelksegvdavivgsaly 224
                              +++++  +ipvia+GGv + ed+ +  + g+ +v +g+ ++
  PHY93_05710|PHY93_05710 201 VCKKWnlNIPVIAAGGVYTHEDILHYIDLGCGGVQMGTRFL 241
                              555443499***************99999999999998876 PP

>> FMN_dh  FMN-dependent dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   2.3e-05     0.083     260     308 ..     194     245 ..     173     265 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 2.3e-05
                              CHHHHHHHH.....SS-EEEESS--SHHHHHHHHHTT-SEEEESHHHHHHHH CS
                   FMN_dh 260 vLpeiveavgg...rievlvDgGirrGsDvlkAlalGAdavllGRpflygla 308
                               L e+ e +++   +i+v++ gG+ + +D+l  + lG  +v +G  fl  + 
  PHY93_05710|PHY93_05710 194 LLKEVIEVCKKwnlNIPVIAAGGVYTHEDILHYIDLGCGGVQMGTRFLATNE 245
                              456777777766669*****************************99976544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (364 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       452  (0.0252106); expected 358.6 (0.02)
Passed bias filter:                      405  (0.0225891); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.40
# Mc/sec: 2717.11
//
Query:       PHY93_12125|PHY93_12125  [L=315]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (315 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       573  (0.0319594); expected 358.6 (0.02)
Passed bias filter:                      375  (0.0209158); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.22s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 2314.97
//
Query:       PHY93_12130|PHY93_12130  [L=782]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    0.00085   19.6   1.0    0.00085   19.6   1.0    5.1  5  DUF5082         Domain of unknown function (DUF5082)
  ------ inclusion threshold ------
      0.043   13.5   8.6        1.1    8.9   1.0    3.1  2  DUF745          Protein of unknown function (DUF745)
      0.047   12.9   0.0       0.15   11.3   0.0    1.9  1  Peptidase_M50   Peptidase family M50
      0.048   14.0   4.1       0.14   12.5   0.2    2.9  2  DUF2564         Protein of unknown function (DUF2564)
       0.16   12.1   8.7        2.2    8.4   0.0    4.4  4  TolA_bind_tri   TolA binding protein trimerisation
        3.7    7.5  10.2       0.89    9.5   0.6    4.0  3  Wtap            WTAP/Mum2p family
        3.9    8.1  15.8        5.2    7.7   1.2    4.3  4  HIP1_clath_bdg  Clathrin-binding domain of Huntingtin-interac
        8.6    6.9  14.9        1.5    9.4   0.5    4.2  4  Spectrin        Spectrin repeat


Domain annotation for each model (and alignments):
>> DUF5082  Domain of unknown function (DUF5082)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   0.1      0.14   3.2e+02      12      38 ..      73      99 ..      65     144 .. 0.73
   2 ?   -0.6   0.0      0.67   1.5e+03      84     102 ..     172     190 ..     170     196 .. 0.84
   3 !   19.6   1.0   3.8e-07   0.00085      70     114 ..     496     542 ..     454     552 .. 0.77
   4 ?    1.0   0.2      0.21   4.8e+02      68     119 ..     591     641 ..     558     648 .. 0.72
   5 ?    0.2   0.1      0.39   8.7e+02      29      56 ..     707     734 ..     674     762 .. 0.71

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.14
                  DUF5082 12 iaelrseiaaleekIerLkeaktklsd 38
                             i ++  + + le++I  Lk+ k  ++ 
  PHY93_12130|PHY93_12130 73 IKDANRTFNRLEQDIHDLKSIKPGDKN 99
                             778888899999999999998865544 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.67
                  DUF5082  84 dkldelidaieeEIerLen 102
                              dk+ +l ++i+++Ie + n
  PHY93_12130|PHY93_12130 172 DKTQNLTQSINNDIEAMTN 190
                              7899999******998876 PP

  == domain 3  score: 19.6 bits;  conditional E-value: 3.8e-07
                  DUF5082  70 girs..nlessyqtyvdkldelidaieeEIerLenqiseaqgvldtl 114
                              +++   +l+s+ ++yv+k ++++d+++ EIerLen+++ + +v+  +
  PHY93_12130|PHY93_12130 496 DKAGipELYSKFSQYVEKNESIKDELSGEIERLENDLQAQRNVVVEI 542
                              333357999****************************9998876554 PP

  == domain 4  score: 1.0 bits;  conditional E-value: 0.21
                  DUF5082  68 ydgirsnlessyqtyvdkldelidaieeEIerLenqiseaqgvldtlqsqln 119
                              ++ +  ++ ss ++  + +d+ ++++++ I+ L+ + +e++g+++  +s ++
  PHY93_12130|PHY93_12130 591 FYKDQNKILSSAEKADKTVDDYVKSLKT-ITALKADFKEMKGNVEEFKSRIT 641
                              4455556666666666666666666654.77777777777777777766665 PP

  == domain 5  score: 0.2 bits;  conditional E-value: 0.39
                  DUF5082  29 Lkeaktklsdekeslkqkkkklekplns 56 
                              L++ + +l+++k++l++++ + +k+  +
  PHY93_12130|PHY93_12130 707 LEAIRVRLDTVKNNLENAQFSASKISQN 734
                              4555555566666666655555554443 PP

>> DUF745  Protein of unknown function (DUF745)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9   0.3   0.00099       2.2      53     128 ..     567     641 ..     548     648 .. 0.85
   2 ?    8.9   1.0    0.0005       1.1      96     156 ..     697     758 ..     661     766 .. 0.51

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.00099
                   DUF745  53 AeAaLaGKqqlveqleqelreaeavvqeekkslqsseanakaaakaakqaqqqlealkallkaakenlenaeqvaa 128
                                A+L++  ql eq +  l    +  ++++k l+s+e++ k++ + +k+ +  ++alka +k++k n+e+ ++  +
  PHY93_12130|PHY93_12130 567 VTAVLDARDQLEEQFKYALCSSREFYKDQNKILSSAEKADKTVDDYVKSLK-TITALKADFKEMKGNVEEFKSRIT 641
                              579***********************9999999999998888888877765.688999999999999998876554 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 0.0005
                   DUF745  96 akaakqaqqqlealkallkaakenlenaeqvaagaqqelaekt.qlleaAkkRveeLkkqlk 156
                              +++ +  +  lea++  l+++k+nlena+  a++ +q++++k  ++++  k+ + +Lk+++k
  PHY93_12130|PHY93_12130 697 MMVESREKMDLEAIRVRLDTVKNNLENAQFSASKISQNAHSKDdEMVAVLKALIVNLKTEMK 758
                              33344445556666666666666666666666666665555532455555555555544444 PP

>> Peptidase_M50  Peptidase family M50
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   6.6e-05      0.15      80     181 ..     261     721 ..     166     753 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 6.6e-05
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXX......................................................... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxx......................................................... RF
            Peptidase_M50  80 lkkspwqrllivlAGplanfilailvfvv......................................................... 108
                              ++++++  l+iv++G ++ + l+++++                                                           
  PHY93_12130|PHY93_12130 261 SSQTILYSLIIVFSGMITSLALGFVIYNYstkrgsrkteklildtiregllpieakgsdnfslefrnelekyrdyvhkrmsfgsif 346
                              57888999*********************99***9999999999999999999999999999999999999999999999999999 PP

                              ...................................................................................... CS
                              ...................................................................................... RF
            Peptidase_M50 109 ...................................................................................... 108
                                                                                                                    
  PHY93_12130|PHY93_12130 347 qeampfasilldsnlnlvwgnshfydqwqlqnfnqdgddsltwdflqrftnlednssilsalrmstsgvykihvknasmakalpye 432
                              99999999999999999999999999999999999999999999999999999999888888888888888888888888888877 PP

                              ...................................................................................... CS
                              ...................................................................................... RF
            Peptidase_M50 109 ...................................................................................... 108
                                                                                                                    
  PHY93_12130|PHY93_12130 433 mhvspvdyssqkrimiifypmseteirldsqkaeiiapilnaldahlnetmttelkhqlrqesdkagipelyskfsqyveknesik 518
                              77777777777777777777777777777777777777777777777777766666666666666666666666666666666666 PP

                              ...........-EEECECTTTSCEE-SEEEC-...................................................... CS
                              ...........xxxxxxxxxxxxxxxxxxxxx...................................................... RF
            Peptidase_M50 109 ...........pkkskeseeekrgviGvspkp...................................................... 129
                                                                                                                    
  PHY93_12130|PHY93_12130 519 delsgeierleN-------------------Dlqaqrnvvveirksvvasfetqrvsvdkynhfkssvtavldardqleeqfkyal 585
                              555555544440...................0444444444444444666666666666666777777777777777777777777 PP

                              ..................................................................................XXXX CS
                              ..................................................................................xxxx RF
            Peptidase_M50 130 ..................................................................................vkke 133
                                                                                                                + + 
  PHY93_12130|PHY93_12130 586 cssrefykdqnkilssaekadktvddyvkslktitalkadfkemkgnveefksritqvldqllifqnheddtlrvdqflgkiKLEM 671
                              77777777777777777777777777777777777888888888888888888888888888888888888888888888877777 PP

                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXX..XXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxx RF
            Peptidase_M50 134 gllealkegvektlkvvvltvkalgklitg..klslktlggpisiaqlas 181
                              + +e++ +g++++++ + +tv+ l++++    k++l+ + + +  ++ + 
  PHY93_12130|PHY93_12130 672 KGFEKVLNGFNQVVTQMDVTVTKLDMMVESreKMDLEAIRVRLDTVKNNL 721
                              88999999999999999999999999999844455555555554444444 PP

>> DUF2564  Protein of unknown function (DUF2564)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.2   6.5e-05      0.14      31      72 ..     563     604 ..     554     607 .. 0.91
   2 ?    1.3   0.4      0.21   4.6e+02       8      70 ..     695     753 ..     690     761 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 6.5e-05
                  DUF2564  31 lesAtqAiedAreqlssaeehatgvdeeFleeseqlldkaeh 72 
                               +s  +A+ dAr+ql++  + a   + eF + ++++l  ae+
  PHY93_12130|PHY93_12130 563 FKSSVTAVLDARDQLEEQFKYALCSSREFYKDQNKILSSAEK 604
                              577889*******************************99985 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.21
                  DUF2564   8 velavetAqkmvGqATmsmdpdqlesAtqAiedAreqlssaeehatgvdeeFleeseqlldka 70 
                              ++++ve+ +km  +A +      l++ ++ +e+A+   s+  ++a+  d+e ++  ++l+ ++
  PHY93_12130|PHY93_12130 695 LDMMVESREKMDLEAIR----VRLDTVKNNLENAQFSASKISQNAHSKDDEMVAVLKALIVNL 753
                              66777777777666554....358888999999998889999999999999988887777665 PP

>> TolA_bind_tri  TolA binding protein trimerisation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.9   0.3     0.053   1.2e+02      25      50 ..     509     534 ..     480     545 .. 0.78
   2 ?    2.8   0.1     0.054   1.2e+02      44      74 ..     577     607 ..     572     609 .. 0.80
   3 ?    8.4   0.0     0.001       2.2      26      54 ..     618     646 ..     613     652 .. 0.91
   4 ?   -1.4   0.1       1.1   2.6e+03       2      22 ..     688     708 ..     678     725 .. 0.77

  Alignments for each domain:
  == domain 1  score: 2.9 bits;  conditional E-value: 0.053
            TolA_bind_tri  25 qqlealqqelreLRGqiEelqyqleq 50 
                              q +e++++  +eL G+iE+l+++l+ 
  PHY93_12130|PHY93_12130 509 QYVEKNESIKDELSGEIERLENDLQA 534
                              55666666668899999999988874 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.054
            TolA_bind_tri  44 lqyqleqleerQrdlYldlDerlrkleagga 74 
                              l+ q + ++   r++Y+d ++ l++ e++ +
  PHY93_12130|PHY93_12130 577 LEEQFKYALCSSREFYKDQNKILSSAEKADK 607
                              555666677789**************99876 PP

  == domain 3  score: 8.4 bits;  conditional E-value: 0.001
            TolA_bind_tri  26 qlealqqelreLRGqiEelqyqleqleer 54 
                               + al+++ +e++G +Ee++ ++ q++ +
  PHY93_12130|PHY93_12130 618 TITALKADFKEMKGNVEEFKSRITQVLDQ 646
                              6889*********************9987 PP

  == domain 4  score: -1.4 bits;  conditional E-value: 1.1
            TolA_bind_tri   2 ledrvarLErilearsqllle 22 
                              ++  v++L+ ++e+r+++ le
  PHY93_12130|PHY93_12130 688 MDVTVTKLDMMVESREKMDLE 708
                              677889999999998776665 PP

>> Wtap  WTAP/Mum2p family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0       1.3   2.8e+03      91     131 ..     205     226 ..     170     240 .. 0.53
   2 ?    9.5   0.6    0.0004      0.89      90     135 ..     502     546 ..     471     554 .. 0.80
   3 ?   -0.4   2.4      0.44   9.9e+02      55      84 ..     626     655 ..     565     772 .. 0.59

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 1.3
                     Wtap  91 LmakcrvLeqENeELgkvleegrvakLeselalqkkfveel 131
                               ++++ + + E ++L                   +++v++ 
  PHY93_12130|PHY93_12130 205 IINRIHTIKAESANL-------------------ETYVDDH 226
                              444444444444444...................4444444 PP

  == domain 2  score: 9.5 bits;  conditional E-value: 0.0004
                     Wtap  90 rLmakcrvLeqENeELgkvleegrvakLeselalqkkfveelkkal 135
                              +L +k+ +  ++Ne ++    +g++++Le++l++q+++v e++k+ 
  PHY93_12130|PHY93_12130 502 ELYSKFSQYVEKNESIKD-ELSGEIERLENDLQAQRNVVVEIRKSV 546
                              677788888888888854.557********************9985 PP

  == domain 3  score: -0.4 bits;  conditional E-value: 0.44
                     Wtap  55 fsrlrkeleeaenkleeaqeeLqalkftpd 84 
                              f++++ ++ee+++++++  ++L  ++  +d
  PHY93_12130|PHY93_12130 626 FKEMKGNVEEFKSRITQVLDQLLIFQNHED 655
                              555555555555555555555544444444 PP

>> HIP1_clath_bdg  Clathrin-binding domain of Huntingtin-interacting protein 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   1.2    0.0023       5.2      19      81 ..     490     552 ..     478     562 .. 0.83
   2 ?    3.5   0.1     0.048   1.1e+02      40      93 ..     564     617 ..     553     622 .. 0.84
   3 ?    1.1   0.4      0.27     6e+02      13      93 ..     614     696 ..     610     704 .. 0.72
   4 ?    4.0   1.1     0.033        74      57      88 ..     703     734 ..     675     760 .. 0.58

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.0023
           HIP1_clath_bdg  19 rqaqeeverekkeleeelerlkeeaerkleeqkeelekLkreleakraelarlkssLesseqs 81 
                              +  qe+ ++   el  ++ +  e++e+  +e + e+e+L+++l+a+r+ + ++++s+  s ++
  PHY93_12130|PHY93_12130 490 QLRQESDKAGIPELYSKFSQYVEKNESIKDELSGEIERLENDLQAQRNVVVEIRKSVVASFET 552
                              55666666777899999999999999999************************9998777655 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.048
           HIP1_clath_bdg  40 keeaerkleeqkeelekLkreleakraelarlkssLesseqsgeqlssqlaaLq 93 
                              k++ +  l+ + +  e++k  l ++r+  +  ++ L+s e++++++   +++L+
  PHY93_12130|PHY93_12130 564 KSSVTAVLDARDQLEEQFKYALCSSREFYKDQNKILSSAEKADKTVDDYVKSLK 617
                              55556667777888899**************************99999999887 PP

  == domain 3  score: 1.1 bits;  conditional E-value: 0.27
           HIP1_clath_bdg  13 kqlsvarqaqeeverekkeleeelerlkeeaerkleeqkeelekLkre..leakraelarlkssLesseqsgeqlssqlaaLq 93 
                              k l    + + + +  k ++ee   r+++  ++ l  q+ e ++L+ +  l + + e++ +++ L+  +q  +q+  ++++L+
  PHY93_12130|PHY93_12130 614 KSLKTITALKADFKEMKGNVEEFKSRITQVLDQLLIFQNHEDDTLRVDqfLGKIKLEMKGFEKVLNGFNQVVTQMDVTVTKLD 696
                              55555555566666666666666667777777777778888887776543777888888999999999999999999988886 PP

  == domain 4  score: 4.0 bits;  conditional E-value: 0.033
           HIP1_clath_bdg  57 LkreleakraelarlkssLesseqsgeqlssq 88 
                               k +lea r +l+++k+ Le+ + s +++s++
  PHY93_12130|PHY93_12130 703 EKMDLEAIRVRLDTVKNNLENAQFSASKISQN 734
                              24556666666666666666666555555543 PP

>> Spectrin  Spectrin repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.1       2.6   5.9e+03       2      16 ..     375     389 ..     375     389 .. 0.92
   2 ?    3.9   0.2     0.033        75      34      95 ..     515     580 ..     504     583 .. 0.73
   3 ?    9.4   0.5   0.00065       1.5       5      64 ..     590     647 ..     587     667 .. 0.73
   4 ?    1.6   0.4      0.17   3.7e+02       9      80 ..     670     744 ..     662     764 .. 0.72

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 2.6
                              HHHHHHHHHHHHHHH CS
                 Spectrin   2 llqqfaqdadeleeW 16 
                              +lq+f+qd d+ + W
  PHY93_12130|PHY93_12130 375 QLQNFNQDGDDSLTW 389
                              589********9999 PP

  == domain 2  score: 3.9 bits;  conditional E-value: 0.033
                              HHHHHHHH.HHHHHHHHHHHHHHHHHHHH.HHHHHH.HHTT.HTTHHHHHHHHHHHHHHHHHHHHH CS
                 Spectrin  34 eevqallk.khkaleaelaaqqervkaln.elaekl.ldeg.hsaseeieerleelnerWeeLkel 95 
                              e++++ l  + ++le++l+aq++ v ++   +  ++ +++   ++  + ++++ ++ ++ ++L+e+
  PHY93_12130|PHY93_12130 515 ESIKDELSgEIERLENDLQAQRNVVVEIRkSVVASFeTQRVsVDKYNHFKSSVTAVLDARDQLEEQ 580
                              667777777999*************99995444445444434555588888888888888888876 PP

  == domain 3  score: 9.4 bits;  conditional E-value: 0.00065
                              HHHHHHHHHHHHHHHHHHHHCCSSCSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                 Spectrin   5 qfaqdadeleeWieekeellssedlgkdleevqallkkhkaleaelaaqqervkalnela 64 
                              +f++d + +++  e++++ +  +d+ k+l ++ al  ++k+++ ++++ + r++++ ++ 
  PHY93_12130|PHY93_12130 590 EFYKDQNKILSSAEKADKTV--DDYVKSLKTITALKADFKEMKGNVEEFKSRITQVLDQL 647
                              67777777777777777777..78888888888888888888888888888888777654 PP

  == domain 4  score: 1.6 bits;  conditional E-value: 0.17
                              HHHHHHHHHHHHHHHHCCSSC.SSSHHHHHHHHH..HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHTTHHHHHH CS
                 Spectrin   9 dadeleeWieekeellssedl.gkdleevqallk..khkaleaelaaqqervkalnelaeklldeghsaseeiee 80 
                              +++ +e+ +++  + ++++d+   +l+ + +  +  +++a++  l++ ++++++ +  a+k+ ++ hs+ +e  +
  PHY93_12130|PHY93_12130 670 EMKGFEKVLNGFNQVVTQMDVtVTKLDMMVESREkmDLEAIRVRLDTVKNNLENAQFSASKISQNAHSKDDEMVA 744
                              566677777777777777777555555443333347889999999999999999999999998888887766554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (782 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1682  (0.0938145); expected 358.6 (0.02)
Passed bias filter:                      642  (0.0358079); expected 358.6 (0.02)
Passed Vit filter:                        72  (0.00401584); expected 17.9 (0.001)
Passed Fwd filter:                        22  (0.00122706); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.89u 0.25s 00:00:01.14 Elapsed: 00:00:00.43
# Mc/sec: 5463.53
//
Query:       PHY93_12135|PHY93_12135  [L=114]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.9e-16   58.8   0.1    7.3e-16   57.9   0.1    1.5  1  ArsC          ArsC family
    6.1e-05   23.2   0.0    0.00021   21.5   0.0    1.7  2  Glutaredoxin  Glutaredoxin


Domain annotation for each model (and alignments):
>> ArsC  ArsC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.9   0.1   8.1e-20   7.3e-16       5      62 ..      11     113 ..       7     114 .] 0.81

  Alignments for each domain:
  == domain 1  score: 57.9 bits;  conditional E-value: 8.1e-20
                              T.............................................GCB-TTSHHHHHCTCCCTTSBHHHHHHHHHH-GGGB-S-E CS
                              x.............................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     ArsC   5 n.............................................ellskrgttyreLnldkedlsedellelilenpsLirRPi 45 
                              +                                             e++++++  y+eLnl++++ls++e++ l+le+p+L++RPi
  PHY93_12135|PHY93_12135  11 RcsksgeakeildeqgiefetidylkdglkekllshlpkllglsfkEMIREKESIYKELNLADKNLSDKEWIHLLLEHPILLERPI 96 
                              44455555556666666666666666666666666666788888889*************************************** PP

                              EEESSEEEESSSCCGGG CS
                              xxxxxxxxxxxxxxxxx RF
                     ArsC  46 vvdgkrlqiGfneeeir 62 
                               ++  ++ i +++e i+
  PHY93_12135|PHY93_12135  97 FIHKNQAVIARPSELIK 113
                              *************9875 PP

>> Glutaredoxin  Glutaredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.0   2.3e-08   0.00021       7      42 ..      10      44 ..       4      54 .. 0.85
   2 ?   -0.9   0.0      0.21   1.9e+03      16      35 ..      56      75 ..      52      86 .. 0.74

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 2.3e-08
                             TSSHHHHHHHHHHHHTTGGEEEEEGCCSHHHHHHHH CS
             Glutaredoxin  7 ptCpyCkkakrlLkelgvkfeeidvdkdeeireelk 42
                             p+C  +  ak++L+e+g++fe+id +kd  ++e+l 
  PHY93_12135|PHY93_12135 10 PRCSKSGEAKEILDEQGIEFETIDYLKD-GLKEKLL 44
                             99*************************9.7776664 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.21
                             HHHHHHTTGGEEEEEGCCSH CS
             Glutaredoxin 16 krlLkelgvkfeeidvdkde 35
                             k+  +e+   ++e ++ +  
  PHY93_12135|PHY93_12135 56 KEMIREKESIYKELNLADKN 75
                             66778888889999988764 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (114 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       450  (0.025099); expected 358.6 (0.02)
Passed bias filter:                      341  (0.0190195); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.39u 0.22s 00:00:00.61 Elapsed: 00:00:00.38
# Mc/sec: 901.20
//
Query:       PHY93_12140|PHY93_12140  [L=126]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.015   15.2   0.5      0.027   14.4   0.5    1.4  1  CD45      Leukocyte receptor CD45
      0.075   12.2   1.4       0.99    8.5   0.1    2.0  2  JHBP      Haemolymph juvenile hormone binding protein (JHBP)
      0.099   12.4   0.0       0.12   12.1   0.0    1.3  1  DUF5083   Domain of unknown function (DUF5083)


Domain annotation for each model (and alignments):
>> CD45  Leukocyte receptor CD45
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.5   4.5e-06     0.027       2      48 ..      66     112 ..      65     117 .. 0.93

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 4.5e-06
                     CD45   2 eYeYdkenksftAkLnvndkveCenneCennelhnLkeCeqinvtis 48 
                              +Y+Yd++nk+  A+L+ + ++  ++ e +n ++++Lk+ +q+ v++ 
  PHY93_12140|PHY93_12140  66 NYTYDQTNKEMVADLDCEGDLLHQKIEFANTTIEDLKNGTQVHVSLE 112
                              7**************************************99999976 PP

>> JHBP  Haemolymph juvenile hormone binding protein (JHBP)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   0.1    0.0048        29     108     153 ..      20      70 ..      17      80 .. 0.65
   2 ?    8.5   0.1   0.00017      0.99      64     113 ..      75     126 .]      71     126 .] 0.84

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.0048
                     JHBP 108 dltfpklslegkYkvd....gkilllpikgkGdfn.itlenlkakvklkgk 153
                              d t+++ ++ gkY+++     k+ +lp +    ++ + ++++k+ + ++++
  PHY93_12140|PHY93_12140  20 DTTLNEKNILGKYEMNglvdLKVTILPNHKVEAIQvGIIYDTKCIGNYTYD 70 
                              6688999*********55555667775554444431344566666666665 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.00017
                     JHBP  64 eleidqg.sgpv.slklnlknvkiyGlsnftikklkvdlkdlkiefdltfpk 113
                              e++ d++ +g++ + k+++ n +i+ l+n t  ++++++k++++++d+ ++k
  PHY93_12140|PHY93_12140  75 EMVADLDcEGDLlHQKIEFANTTIEDLKNGTQVHVSLEYKSENYDLDFDIKK 126
                              666666656644499**************************99999999875 PP

>> DUF5083  Domain of unknown function (DUF5083)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0     2e-05      0.12      62      90 ..      50      78 ..       4      86 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 2e-05
                  DUF5083 62 vitilleiifyfkllknyqydqsnvelan 90
                             v +i + ii+  k + ny ydq+n e+  
  PHY93_12140|PHY93_12140 50 VEAIQVGIIYDTKCIGNYTYDQTNKEMVA 78
                             5578899*****************99865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (126 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       695  (0.038764); expected 358.6 (0.02)
Passed bias filter:                      454  (0.0253221); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.41u 0.19s 00:00:00.60 Elapsed: 00:00:00.36
# Mc/sec: 1047.31
//
Query:       PHY93_12145|PHY93_12145  [L=94]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (94 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       509  (0.0283898); expected 358.6 (0.02)
Passed bias filter:                      438  (0.0244297); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.37u 0.24s 00:00:00.61 Elapsed: 00:00:00.39
# Mc/sec: 718.80
//
Query:       PHY93_12150|PHY93_12150  [L=301]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.7e-10   39.6   0.0    1.4e-09   38.1   0.0    1.9  1  ParBc         ParB-like nuclease domain
     0.0054   16.6   0.4     0.0097   15.8   0.1    1.6  2  CLP_protease  Clp protease
      0.006   16.4   0.6      0.013   15.4   0.1    1.8  2  DUF4923       Lipocalin-like domain (DUF4923)
  ------ inclusion threshold ------
      0.014   15.7   0.1      0.093   13.0   0.1    2.5  1  PheRS_DBD3    PheRS DNA binding domain 3
        1.4    9.1   7.2        1.7    8.8   0.7    3.2  3  CRS1_YhbY     CRS1 / YhbY (CRM) domain
        2.9    8.5   6.8         23    5.6   1.0    2.3  2  Pex14_N       Peroxisomal membrane anchor protein (Pex14p) co
        6.3    7.4   7.2        1.1    9.9   2.0    2.3  2  Kri1          KRI1-like family


Domain annotation for each model (and alignments):
>> ParBc  ParB-like nuclease domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.1   0.0   5.4e-13   1.4e-09      12      89 ..      11      84 ..       1      85 [. 0.88

  Alignments for each domain:
  == domain 1  score: 38.1 bits;  conditional E-value: 5.4e-13
                    ParBc 12 plqprkdspekieelvasIkkkGllqPiivrktrqgryeiiaGerRlrAakrlglkevpvivleiddeeamalslien 89
                             + +p++   +++ el +sI++ Gl+ P+++ +++     i+aG rR++A+ +lg++e pv++ +    e + +s+ en
  PHY93_12150|PHY93_12150 11 ATNPYLRLGTDVSELEKSIQTLGLIAPLVISPDN----VILAGARRFQALLNLGYTEAPVMIVDKGALESELVSIDEN 84
                             455555556899*********************9....****************************999999999998 PP

>> CLP_protease  Clp protease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.1   3.8e-06    0.0097     123     173 ..     129     181 ..     108     184 .. 0.88
   2 ?   -3.7   0.0       3.8   9.7e+03     128     152 ..     238     262 ..     236     267 .. 0.71

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 3.8e-06
                              HHHHHHHHHHHHHHHHHHHHHHHHHTS-HHHHHHHHCSTEEEEH..HHHHHHT CS
             CLP_protease 123 sdieieaeellkikerlneilakhtgqslekiekdldrdtflsa..eeAveyG 173
                              +  ei+ ++++   e+  +++a++tg s+++i++ ++rd + sa  +eA + G
  PHY93_12150|PHY93_12150 129 EQTEIQKKKIVLPAEKFLNLVAEKTGLSPKQIHEAINRDEMASAgvKEARKNG 181
                              567899999**********************************9889998877 PP

  == domain 2  score: -3.7 bits;  conditional E-value: 3.8
                              HHHHHHHHHHHHHHHHHHHHTS-HH CS
             CLP_protease 128 eaeellkikerlneilakhtgqsle 152
                              +a+e+l+i+ +l+++l+k  + ++e
  PHY93_12150|PHY93_12150 238 HAREFLEIEMTLKKLLKKFKQLEIE 262
                              6788888888888888776665555 PP

>> DUF4923  Lipocalin-like domain (DUF4923)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.1     5e-06     0.013      59     114 ..     142     197 ..     118     215 .. 0.89
   2 ?   -2.1   0.0       1.2     3e+03      36      36 ..     278     278 ..     244     296 .. 0.49

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 5e-06
                  DUF4923  59 veekLkeyykkvgikegkvsitfnkdstftiklkkktlkGtYsldakdktvtLkla 114
                              +e+ L+ + +k g+++++++  +n+d+  ++ +k+   +G  sl++++++v+Lk  
  PHY93_12150|PHY93_12150 142 AEKFLNLVAEKTGLSPKQIHEAINRDEMASAGVKEARKNGHLSLSQTNEIVKLKKE 197
                              7899999**********************************************972 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 1.2
                  DUF4923  36 g 36 
                              +
  PHY93_12150|PHY93_12150 278 S 278
                              2 PP

>> PheRS_DBD3  PheRS DNA binding domain 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.1   3.6e-05     0.093       8      55 ..     147     194 ..     144     198 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 3.6e-05
               PheRS_DBD3   8 aavppeggisqkel.kklggdpvakiGfskAmknkWikkdkgdgkvvrk 55 
                              + v ++ g+s k++ +++  d +a+ G++ A kn+ +++++ ++ +v++
  PHY93_12150|PHY93_12150 147 NLVAEKTGLSPKQIhEAINRDEMASAGVKEARKNGHLSLSQTNE-IVKL 194
                              67855788******999989999****************88887.4443 PP

>> CRS1_YhbY  CRS1 / YhbY (CRM) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   0.7   0.00068       1.7      18      66 ..      64     111 ..      51     186 .. 0.87
   2 ?    1.0   0.5       0.2     5e+02      40      53 ..     187     200 ..     168     223 .. 0.74
   3 ?    2.0   0.2     0.091   2.3e+02       4      48 ..     201     246 ..     196     262 .. 0.73

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.00068
                CRS1_YhbY  18 pkvkiGkaGvtkevvdeiheklkteelvkvkcegppalnmkrmaeiLee 66 
                              + v+i  +G  ++ + +i+e+l ++ l k+++eg   +  k++ ++L  
  PHY93_12150|PHY93_12150  64 APVMIVDKGALESELVSIDENLVRKDLTKIEIEGHLRR-AKEIYQKLNP 111
                              45677777888888889****************99999.9999999975 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.2
                CRS1_YhbY  40 kteelvkvkcegpp 53 
                              +t+e+vk+k e+++
  PHY93_12150|PHY93_12150 187 QTNEIVKLKKEEQQ 200
                              57899999986333 PP

  == domain 3  score: 2.0 bits;  conditional E-value: 0.091
                CRS1_YhbY   4 kelrrLrhl.airlkpkvkiGkaGvtkevvdeiheklkteelvkvk 48 
                              k l++L++l  +++k+ vki k    +e ++e  +   ++e   ++
  PHY93_12150|PHY93_12150 201 KSLSHLKSLpVREIKKFVKIAKTKGVDEAIKETPNDPHAREFLEIE 246
                              5667777774567899*****9988888888877766666666555 PP

>> Pex14_N  Peroxisomal membrane anchor protein (Pex14p) conserved region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   0.5    0.0089        23      29      79 ..      85     129 ..      81     144 .. 0.54
   2 ?    5.6   1.0    0.0088        23      32      67 ..     153     195 ..     150     238 .. 0.59

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.0089
                  Pex14_N  29 LesKGLtqeEIeeaLkraereeeasesa.vaassaseqaqeesasssatpqp 79 
                              L +K Lt+ EIe  L+ra++  ++ +++ +a+        ++s+ s   +++
  PHY93_12150|PHY93_12150  85 LVRKDLTKIEIEGHLRRAKEIYQKLNPNeEAE-------IRTSNVSVDDANE 129
                              678**************664444433221111.......1111222211111 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.0088
                  Pex14_N  32 KGLtqeEIeeaLkraereeeasesavaassas..eqa......q 67 
                               GL+ ++I+ea++r+e +++  ++a +++++   +q+      +
  PHY93_12150|PHY93_12150 153 TGLSPKQIHEAINRDEMASAGVKEA-RKNGHLslSQTneivklK 195
                              59************66444443322.111111221111222210 PP

>> Kri1  KRI1-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.2       1.3   3.4e+03      19      38 ..      89     112 ..      82     139 .. 0.55
   2 ?    9.9   2.0   0.00041       1.1       6      46 ..     195     233 ..     190     260 .. 0.79

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 1.3
                     Kri1  19 klkreeieeklekikkaag....e 38 
                               l + eie  l++ k+++     +
  PHY93_12150|PHY93_12150  89 DLTKIEIEGHLRRAKEIYQklnpN 112
                              455556666666666655533331 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 0.00041
                     Kri1   6 ekeekkeelkrlkklkreeieeklekikkaageeeaalkel 46 
                              +kee+++ l +lk+l ++ei +k  ki+k++g  ++a+ke 
  PHY93_12150|PHY93_12150 195 KKEEQQKSLSHLKSLPVREI-KKFVKIAKTKG-VDEAIKET 233
                              7999****************.8999*******.44444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (301 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1172  (0.065369); expected 358.6 (0.02)
Passed bias filter:                      512  (0.0285571); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.40
# Mc/sec: 2231.41
//
Query:       PHY93_12155|PHY93_12155  [L=530]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.8e-32  111.1  19.9    4.8e-32  111.1  19.9    3.3  3  MCPsignal        Methyl-accepting chemotaxis protein (MCP) si
     0.0001   22.6   0.1     0.0056   17.0   0.0    3.5  3  HAMP             HAMP domain
     0.0024   17.9   4.3     0.0024   17.9   4.3    3.2  4  DHR10            Designed helical repeat protein 10 domain
  ------ inclusion threshold ------
      0.017   15.7   2.6      0.017   15.7   2.6    3.6  4  DUF3139          Protein of unknown function (DUF3139)
       0.23   12.6   0.5        1.4   10.1   0.0    2.7  3  Cytochrom_C      Cytochrome c
        1.4    9.7   7.2        1.5    9.6   0.8    3.4  2  Occludin_ELL     Occludin homology domain
        1.7    8.8  20.5      0.069   13.2   5.6    4.3  5  Vps51            Vps51/Vps67
        6.1    7.1  13.3       0.38   11.0   0.3    3.7  4  Cortex-I_coil    Cortexillin I, coiled coil
        6.7    6.9  14.4        8.6    6.5   0.5    3.2  2  GCN5L1           GCN5-like protein 1 (GCN5L1)


Domain annotation for each model (and alignments):
>> MCPsignal  Methyl-accepting chemotaxis protein (MCP) signalling domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   6.8     0.038        76      93     167 ..     234     312 ..     200     322 .. 0.68
   2 !    6.8   4.7    0.0027       5.3      95     158 ..     303     366 ..     276     367 .. 0.79
   3 !  111.1  19.9   2.4e-35   4.8e-32       4     171 ..     331     498 ..     322     499 .. 0.92

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.038
                              HHH..............HHHHHHHHHHHHHHHHHCCHHHHHHHH....HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal  93 aliieiqkeindsvesleetrqrveegselveetgealkeivea....vaevadlvqeiaaaseeqsasieevnqavee 167
                              + i ++ +  ++ ++++ ++ ++v+ +++++ + ++++ +i++     + e +++ +++a++  ++s+s+ +v+++  +
  PHY93_12155|PHY93_12155 234 DEISKMSHAFDNMLNTIRNSLSQVKLSTDEIVQGTDEITSITTVttsdIREQKEETNNLASTLGKMSESSLNVANNTYQ 312
                              4455666666777777777777777777776666666666654310114445566777777777777777777766555 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.0027
                              H..............HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal  95 iieiqkeindsvesleetrqrveegselveetgealkeiveavaevadlvqeiaaaseeqsasi 158
                                ++ +++ +s +  ++++ +v  g++++ +++++++e+ ++++ va++ + + + + ++s+++
  PHY93_12155|PHY93_12155 303 SLNVANNTYQSQSFTNNVEAEVTDGASKAYSARDKINELFKQIELVASIAEKLESETIQISNTV 366
                              3467888889999999*****************************************9999997 PP

  == domain 3  score: 111.1 bits;  conditional E-value: 2.4e-35
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal   4 aeeaseeAeeggkevanvvkqmeeieksskeisdiieVideiadQTNlLALNAaiEAARAGeqGrGFaVVAdEVrkLAersaqaak 89 
                              a +a+++ +e  k+++ v +  e++e+++ +is+ ++Vid+i+ +T lL  NA++EAARAG+qG+GFaVVA+E+ +LA++++ +  
  PHY93_12155|PHY93_12155 331 AYSARDKINELFKQIELVASIAEKLESETIQISNTVKVIDDITLKTRLLSFNASVEAARAGDQGKGFAVVANEIGELAQQTKVSNI 416
                              445555666666777777778888888899******************************************************** PP

                              HHHHHH..............HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal  90 eiealiieiqkeindsvesleetrqrveegselveetgealkeiveavaevadlvqeiaaaseeqsasieevnqaveevakv 171
                              eie++ i++++ + +++++++et+  +eeg ++v+++ +++k+++e++a++++++++ia++++eqs + +e  ++++ + ++
  PHY93_12155|PHY93_12155 417 EIENATIQLKNLMATAITVIKETKILAEEGKNEVNTSYDSFKNVAEEMAKLKEVMTNIAKSTQEQSIATKEAEKNINSIMEL 498
                              ***************************************************************************9998765 PP

>> HAMP  HAMP domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.0   2.8e-06    0.0056       8      52 ..     205     251 ..     202     252 .. 0.89
   2 ?   -2.4   0.0       3.2   6.4e+03      21      39 ..     265     273 ..     253     277 .. 0.65
   3 ?    0.8   0.0      0.34   6.8e+02      35      42 ..     402     409 ..     397     410 .. 0.88

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 2.8e-06
                              HHHHHHHHHHHHHTTT.BTSSTCCT.TSSSHHHHHHHHHHHHHHHHH CS
                     HAMP   8 rPLrrLaraarriaaG.dldtrlpv.sgrDEiGeLarafNaMldrLr 52 
                              + L++++++++ ia+  dl+++l    ++DEi  + +af++Ml+ +r
  PHY93_12155|PHY93_12155 205 NKLKNIHKSIEYIAEKlDLTKTLNQnGTQDEISKMSHAFDNMLNTIR 251
                              56888888888899877********99****************9987 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 3.2
                              TTTBTSSTCCTTSSSHHHH CS
                     HAMP  21 aaGdldtrlpvsgrDEiGe 39 
                                          g DEi  
  PHY93_12155|PHY93_12155 265 V----------QGTDEITS 273
                              3..........57788875 PP

  == domain 3  score: 0.8 bits;  conditional E-value: 0.34
                              SHHHHHHH CS
                     HAMP  35 DEiGeLar 42 
                              +EiGeLa+
  PHY93_12155|PHY93_12155 402 NEIGELAQ 409
                              8******8 PP

>> DHR10  Designed helical repeat protein 10 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0       2.7   5.3e+03      61      84 ..     231     254 ..     205     268 .. 0.51
   2 ?   -2.1   0.2       1.9   3.7e+03      47      72 ..     280     305 ..     247     323 .. 0.65
   3 ?   -0.1   0.1      0.48   9.5e+02      35      68 ..     338     371 ..     328     382 .. 0.74
   4 !   17.9   4.3   1.2e-06    0.0024      15      82 ..     444     511 ..     433     529 .. 0.87

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 2.7
                    DHR10  61 elrdaleekeielrelerkeerlq 84 
                               ++d+++++++    + ++++   
  PHY93_12155|PHY93_12155 231 GTQDEISKMSHAFDNMLNTIRNSL 254
                              344555555554444444444444 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 1.9
                    DHR10  47 aelakleeakkklkelrdaleekeie 72 
                              +++++++e+  +l+++  +++e + +
  PHY93_12155|PHY93_12155 280 SDIREQKEETNNLASTLGKMSESSLN 305
                              44555555555555555555554444 PP

  == domain 3  score: -0.1 bits;  conditional E-value: 0.48
                    DHR10  35 lrsciklleeieaelakleeakkklkelrdalee 68 
                              +++++k++e +++  +kle++  +++++ + +++
  PHY93_12155|PHY93_12155 338 INELFKQIELVASIAEKLESETIQISNTVKVIDD 371
                              6778888888888888888888777776666655 PP

  == domain 4  score: 17.9 bits;  conditional E-value: 1.2e-06
                    DHR10  15 Erkarelqakidalqvvekdlrsciklleeieaelakleeakkklkelrdaleekeielrelerkeer 82 
                              E+  +e+ +++d++++v ++++++ +++  i++ ++++  a k+++++ + ++e+++++     ++  
  PHY93_12155|PHY93_12155 444 EEGKNEVNTSYDSFKNVAEEMAKLKEVMTNIAKSTQEQSIATKEAEKNINSIMELSNKTTSAVERIGE 511
                              6677899**************************************************99988887755 PP

>> DUF3139  Protein of unknown function (DUF3139)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.4   1.8     0.029        58       3      43 ..       6      50 ..       4      81 .. 0.55
   2 ?   15.7   2.6   8.7e-06     0.017       9      65 ..     186     248 ..     181     255 .. 0.59
   3 ?   -1.9   0.1       2.9   5.7e+03      45      65 ..     433     453 ..     411     461 .. 0.65
   4 ?   -1.8   0.3       2.6   5.1e+03      38      62 ..     469     492 ..     451     509 .. 0.60

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.029
                  DUF3139  3 kiiiililliillvivkvflglvgskpikkylan.......kkldkyl 43
                             kiii li++++l+  v++   +++  + k+++ +       + +++y 
  PHY93_12155|PHY93_12155  6 KIIIPLIVIFSLMSGVVI---WINFTNQKTFVEKvittqaiQTVYQYF 50
                             455555555555544333...444444444555433344454555554 PP

  == domain 2  score: 15.7 bits;  conditional E-value: 8.7e-06
                  DUF3139   9 illiillvivkvfl.......glvgskpikkylan.kkldkylqekgykeddIksikpkydskkg 65 
                              il+ii l+iv++ l       + +++k i+ y+a+  +l k+l  ++ ++d+I++ + ++d + +
  PHY93_12155|PHY93_12155 186 ILFIIALIIVVFCLkiiavnkLKNIHKSIE-YIAEkLDLTKTL-NQNGTQDEISKMSHAFDNMLN 248
                              333333333222224442444444455553.566535899***.7777888*****999998765 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 2.9
                  DUF3139  45 ekgykeddIksikpkydskkg 65 
                                 +ke +I  ++ k  ++++
  PHY93_12155|PHY93_12155 433 ITVIKETKILAEEGKNEVNTS 453
                              555778888888877777776 PP

  == domain 4  score: -1.8 bits;  conditional E-value: 2.6
                  DUF3139  38 kldkylqekgykeddIksikpkyds 62 
                              ++++ + +k ++e+ I ++++++ +
  PHY93_12155|PHY93_12155 469 EVMTNI-AKSTQEQSIATKEAEKNI 492
                              444444.555555555555544443 PP

>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0         9   1.8e+04      75      91 ..      37      53 ..      27      54 .. 0.75
   2 ?   10.1   0.0   0.00072       1.4       8      27 ..     140     160 ..     134     265 .. 0.75
   3 ?   -1.7   0.1       3.3   6.7e+03      34      73 ..     436     475 ..     404     500 .. 0.63

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 9
                             T--HHHHHHHHHHHHTT CS
              Cytochrom_C 75 rlteqeiadlaaYLksl 91
                              +t q+i+ ++ Y  s+
  PHY93_12155|PHY93_12155 37 VITTQAIQTVYQYFDSV 53
                             57899999999998876 PP

  == domain 2  score: 10.1 bits;  conditional E-value: 0.00072
                              H.HTTGGGTB-SSSBSSS... CS
              Cytochrom_C   8 f.tanCaaCHgvegggakqgg 27 
                              +  +nC  CH+ve+g++ ++ 
  PHY93_12155|PHY93_12155 140 YkGTNCIECHQVEDGAVLGAA 160
                              6568**********9986544 PP

  == domain 3  score: -1.7 bits;  conditional E-value: 3.3
                              HHHHTTT-HHHHHHHHTTSS--SSSHHHHHHHGGGGGGG. CS
              Cytochrom_C  34 aaerasaasigasvanpaavsaprddfekkkltaempark 73 
                              + e++  a++g++  n   +s   ++ e++kl+  m++ +
  PHY93_12155|PHY93_12155 436 IKETKILAEEGKNEVNTSYDSFKNVAEEMAKLKEVMTNIA 475
                              5555555555555555555555555555555555555543 PP

>> Occludin_ELL  Occludin homology domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.3       0.2     4e+02      30      87 ..     235     294 ..     204     302 .. 0.53
   2 ?    9.6   0.8   0.00074       1.5      14      71 ..     447     504 ..     436     529 .. 0.78

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.2
             Occludin_ELL  30 eleevskkfseLerelkelkegsk.eykkieeeilqeykklkk..dpeyqekkkrceyLke 87 
                              e++++s+ f ++ + ++++  + k  +++i++   +e  +++   +++ +e+k++++ L +
  PHY93_12155|PHY93_12155 235 EISKMSHAFDNMLNTIRNSLSQVKlSTDEIVQG-TDEITSITTvtTSDIREQKEETNNLAS 294
                              344444444443333333322222222222222.333333333335566666666666665 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 0.00074
             Occludin_ELL  14 kaeFnkeYkeYkelhaeleevskkfseLerelkelkegskeykkieeeilqeykklkk 71 
                              k+e n+ Y+++k++ +e++++++ ++++ + ++e++  +ke +k +++i++  +k ++
  PHY93_12155|PHY93_12155 447 KNEVNTSYDSFKNVAEEMAKLKEVMTNIAKSTQEQSIATKEAEKNINSIMELSNKTTS 504
                              778899****************************999999999999997665544444 PP

>> Vps51  Vps51/Vps67
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.3   0.2     0.043        86      56      82 ..     232     255 ..     231     263 .. 0.71
   2 ?    0.5   0.1      0.33   6.5e+02      57      79 ..     279     301 ..     263     309 .. 0.63
   3 ?   -2.7   0.1       3.2   6.5e+03      68      79 ..     353     364 ..     333     370 .. 0.46
   4 ?   13.2   5.6   3.5e-05     0.069      20      84 ..     424     488 ..     407     491 .. 0.88
   5 ?   -3.0   0.0         4     8e+03      56      77 ..     505     526 ..     503     529 .. 0.77

  Alignments for each domain:
  == domain 1  score: 3.3 bits;  conditional E-value: 0.043
                    Vps51  56 asdtIrkmksemdkldqklselkqais 82 
                              + d+I+km+  +d++ +++   ++++s
  PHY93_12155|PHY93_12155 232 TQDEISKMSHAFDNMLNTI---RNSLS 255
                              689*******996665554...44444 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.33
                    Vps51  57 sdtIrkmksemdkldqklselkq 79 
                              +++Ir+ k+e+++l+++l ++++
  PHY93_12155|PHY93_12155 279 TSDIREQKEETNNLASTLGKMSE 301
                              45555555555555555555554 PP

  == domain 3  score: -2.7 bits;  conditional E-value: 3.2
                    Vps51  68 dkldqklselkq 79 
                              +kl++++ ++++
  PHY93_12155|PHY93_12155 353 EKLESETIQISN 364
                              444555544444 PP

  == domain 4  score: 13.2 bits;  conditional E-value: 3.5e-05
                    Vps51  20 tlkellkveasllseiraldselkalVydnYskLisasdtIrkmksemdkldqklselkqaiski 84 
                               lk l+++  ++ +e + l +e k+ V ++Y  + +++++ +k+k+ m++++++++e++ a ++ 
  PHY93_12155|PHY93_12155 424 QLKNLMATAITVIKETKILAEEGKNEVNTSYDSFKNVAEEMAKLKEVMTNIAKSTQEQSIATKEA 488
                              3699999999999*********************************************9987765 PP

  == domain 5  score: -3.0 bits;  conditional E-value: 4
                    Vps51  56 asdtIrkmksemdkldqklsel 77 
                              a + I + + +++kl+++l+el
  PHY93_12155|PHY93_12155 505 AVERIGEVSIDFSKLAHELDEL 526
                              6677777788889999999988 PP

>> Cortex-I_coil  Cortexillin I, coiled coil
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.3   0.00019      0.38      13      67 ..     242     296 ..     231     309 .. 0.77
   2 ?   -0.4   0.1      0.65   1.3e+03      18      45 ..     348     375 ..     337     393 .. 0.67
   3 ?   -0.0   2.0      0.51     1e+03      24      52 ..     453     481 ..     398     498 .. 0.60
   4 ?    1.3   1.9       0.2     4e+02      10      45 ..     456     492 ..     437     526 .. 0.49

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00019
                              XHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
            Cortex-I_coil  13 elanklaglenslesekvsreelikqkdelesllasleseaaerekrlreleakl 67 
                               + n l +++nsl   k+s +e+++  de+ s+ ++  s+  e+++  ++l + l
  PHY93_12155|PHY93_12155 242 AFDNMLNTIRNSLSQVKLSTDEIVQGTDEITSITTVTTSDIREQKEETNNLASTL 296
                              356899*************************998887777666666655555544 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 0.65
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
            Cortex-I_coil  18 laglenslesekvsreelikqkdelesl 45 
                              +a++ + lese +   + +k  d++   
  PHY93_12155|PHY93_12155 348 VASIAEKLESETIQISNTVKVIDDITLK 375
                              5777788888877777777766665444 PP

  == domain 3  score: -0.0 bits;  conditional E-value: 0.51
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
            Cortex-I_coil  24 slesekvsreelikqkdelesllaslese 52 
                              s +s k   ee++k k+ + ++ +s +++
  PHY93_12155|PHY93_12155 453 SYDSFKNVAEEMAKLKEVMTNIAKSTQEQ 481
                              33333333333333333333333333332 PP

  == domain 4  score: 1.3 bits;  conditional E-value: 0.2
                              XXXXHHHHHHHHHHHHHH.HHHHHHHHHHHHHHHHHH CS
            Cortex-I_coil  10 sknelanklaglensles.ekvsreelikqkdelesl 45 
                              s +++a+ +a l++ +    k ++e+ i  k+  +++
  PHY93_12155|PHY93_12155 456 SFKNVAEEMAKLKEVMTNiAKSTQEQSIATKEAEKNI 492
                              2233444444444443321344444444433322222 PP

>> GCN5L1  GCN5-like protein 1 (GCN5L1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.5   0.5    0.0043       8.6      26      70 ..     312     356 ..     298     373 .. 0.75
   2 ?    5.4   5.0    0.0099        20      16      92 ..     422     500 ..     407     513 .. 0.81

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.0043
                   GCN5L1  26 saaaltealvdklnsgvaeayanqkklekeakalqanvakfakqt 70 
                              + +++t+++  ++ +g ++ay+   k+++ +k+++  ++  +k  
  PHY93_12155|PHY93_12155 312 QSQSFTNNVEAEVTDGASKAYSARDKINELFKQIELVASIAEKLE 356
                              67899***********************99999876655444433 PP

  == domain 2  score: 5.4 bits;  conditional E-value: 0.0099
                   GCN5L1  16 qekakkeaiesaaal..tealvdklnsgvaeayanqkklekeakalqanvakfakqtdqWlalvesfnsalkeiGDven 92 
                              + ++k+ + ++++ +  t+ l ++ +++v+++y   k++ +e+ +l++ ++++ak t++   ++++ ++++  i +++n
  PHY93_12155|PHY93_12155 422 TIQLKNLMATAITVIkeTKILAEEGKNEVNTSYDSFKNVAEEMAKLKEVMTNIAKSTQEQSIATKEAEKNINSIMELSN 500
                              555666666666655114568889999*********************************9999999999999988776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (530 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      3110  (0.173462); expected 358.6 (0.02)
Passed bias filter:                      820  (0.045736); expected 358.6 (0.02)
Passed Vit filter:                        84  (0.00468515); expected 17.9 (0.001)
Passed Fwd filter:                        28  (0.00156172); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.94u 0.27s 00:00:01.21 Elapsed: 00:00:00.46
# Mc/sec: 3468.48
//
Query:       PHY93_12160|PHY93_12160  [L=462]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.4e-15   55.4   0.1    2.5e-14   53.3   0.0    2.0  2  HD_5      HD domain
    2.7e-08   34.0   0.2    5.8e-08   33.0   0.2    1.5  1  HD        HD domain
  ------ inclusion threshold ------
      0.072   12.6   0.0       0.21   11.1   0.0    1.8  2  HDOD      HDOD domain


Domain annotation for each model (and alignments):
>> HD_5  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0       0.6   3.6e+03       9      33 ..     251     275 ..     250     277 .. 0.83
   2 !   53.3   0.0   4.2e-18   2.5e-14       2      60 ..     338     397 ..     337     398 .. 0.92

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.6
                     HD_5   9 ellqehpeaaarlLsklprlpkdva 33 
                              +++++ +e aa+l + + r+p++v+
  PHY93_12160|PHY93_12160 251 DIYEKGLEIAAQLEKLISRFPDPVT 275
                              7889999999999999999998886 PP

  == domain 2  score: 53.3 bits;  conditional E-value: 4.2e-18
                     HD_5   2 tLtpeerellqehpeaaarlLsklp.rlpkdvaeiigqhhErldGsGyPrglkgeeIple 60 
                              +L++ee+e +++h++ + +lL+k    + + +  ii++hhE++dG+G+P+gl+ge +ple
  PHY93_12160|PHY93_12160 338 ELSSEELEQYKKHVTISLELLRKKLlPFTPLIESIILHHHENFDGTGFPDGLAGENLPLE 397
                              799*******************96534667****************************97 PP

>> HD  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.0   0.2   9.6e-12   5.8e-08       3     115 ..     289     403 ..     287     409 .. 0.87

  Alignments for each domain:
  == domain 1  score: 33.0 bits;  conditional E-value: 9.6e-12
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTHHHHTS..HHH......HHHCTCCHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                       HD   3 eHsleVaklarrlaedlgeeedrellllaaLlHDiGkgpfgdafekk......eeefekflaHekvgaeilrevekrlgldledva 82 
                               Hsl+   +a  + ++    e ++ + +aa +H+iG   + + + +k      +ee e+ ++H++++ e+lr+ ++++     ++ 
  PHY93_12160|PHY93_12160 289 AHSLNCGIYAIIFSKHCH-FEHSNEIAFAAMIHNIGFSEIDQDIIRKnetelsSEELEQYKKHVTISLELLRKKLLPFTP---LIE 370
                              688888888888888777.78888999************99988888887766444777788****************55...*** PP

                              HHHHTTCCHHHHHHHHHHHHCCTSCHHHHHHHH CS
                       HD  83 klirehheswegkkrprglaerqlslearivkl 115
                               +i++hhe  +g+++p+gla+++l+le  +v++
  PHY93_12160|PHY93_12160 371 SIILHHHENFDGTGFPDGLAGENLPLECALVSI 403
                              ****************************99987 PP

>> HDOD  HDOD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0       0.5     3e+03      40      73 ..      19      55 ..      19      70 .. 0.69
   2 ?   11.1   0.0   3.5e-05      0.21      96     132 ..     288     324 ..     280     377 .. 0.85

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 0.5
                             HHHHHSHHHHTTS-.--..SHHHHHHHHHHHHHHHHH CS
                     HDOD 40 LrlaNSaayglrkk.is..sveqAvallGlkevrnlv 73
                             ++la S+a+g ++  is  + eqA+a l    +  ++
  PHY93_12160|PHY93_12160 19 IKLAVSPAFGEETHfISaqNTEQAIAQLDASPIHVII 55
                             6899999999655423233788888877666666655 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 3.5e-05
                              HHHHHHHHHHHHHHHHHTT-S-HHHHHHHHHTTTHHH CS
                     HDOD  96 wehslavAlvarelaeelgledpeeaflaGLLhdiGk 132
                               +hsl+++++a    ++++ e+ +e+  a+++h+iG 
  PHY93_12160|PHY93_12160 288 IAHSLNCGIYAIIFSKHCHFEHSNEIAFAAMIHNIGF 324
                              58**********************************4 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (462 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       555  (0.0309554); expected 358.6 (0.02)
Passed bias filter:                      428  (0.0238719); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.57u 0.22s 00:00:00.78 Elapsed: 00:00:00.41
# Mc/sec: 3410.97
//
Query:       PHY93_12165|PHY93_12165  [L=101]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      2e-18   67.1   0.0    2.3e-18   66.9   0.0    1.1  1  Abhydrolase_3  alpha/beta hydrolase fold
    0.00028   20.5   0.0     0.0003   20.4   0.0    1.1  1  DLH            Dienelactone hydrolase family


Domain annotation for each model (and alignments):
>> Abhydrolase_3  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.9   0.0   2.5e-22   2.3e-18     136     210 ..       3      77 ..       1      78 [. 0.95

  Alignments for each domain:
  == domain 1  score: 66.9 bits;  conditional E-value: 2.5e-22
                              HHHHHHHHHSS.GGGGGSTTTSGGGCS-SST---EEEEEETT-TTHHHHHHHHHHHHHTT--EEEEEETTEETTGG CS
            Abhydrolase_3 136 aldlfwrlylp.eadrddplaspllaedlsglpptlvvvaefDplrdegeayaerlraagvevelieyegmvHgfa 210
                              ++ +f++ yl+  a+ +dp+++ ++a dl+g++p+++++a+ Dplr+ege++a+++r++gv+v++++yeg++H+f+
  PHY93_12165|PHY93_12165   3 MMVWFMDNYLNtPAEKNDPRINLVAA-DLKGIKPATIITAQVDPLRSEGEELAKHMRKQGVKVRYKNYEGVTHEFF 77 
                              788*******77**********7766.************************************************7 PP

>> DLH  Dienelactone hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.4   0.0   3.3e-08    0.0003     141     211 ..      30      99 ..      11     101 .] 0.83

  Alignments for each domain:
  == domain 1  score: 20.4 bits;  conditional E-value: 3.3e-08
                      DLH 141 akikapilalfgeeDefipadevekleealkaanvdlelkvYpgagHaFandsre.syneeaaedawervle 211
                               k  +p  ++ ++ D+    +  e+l++ +++++v+++ k Y+g++H F+   +      +a+e a +r+++
  PHY93_12165|PHY93_12165  30 LKGIKPATIITAQVDPLRSEG--EELAKHMRKQGVKVRYKNYEGVTHEFFGMAPIlRDARSAQELATSRLKS 99 
                              455689999*******99888..7**************************9999955555667777777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (101 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       558  (0.0311228); expected 358.6 (0.02)
Passed bias filter:                      515  (0.0287244); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.40u 0.23s 00:00:00.63 Elapsed: 00:00:00.38
# Mc/sec: 795.13
//
Query:       PHY93_12170|PHY93_12170  [L=571]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.2e-14   53.2   2.8    5.2e-14   52.5   2.8    1.4  1  Bac_surface_Ag  Surface antigen


Domain annotation for each model (and alignments):
>> Bac_surface_Ag  Surface antigen
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.5   2.8   2.9e-18   5.2e-14     101     310 ..     328     554 ..     219     569 .. 0.70

  Alignments for each domain:
  == domain 1  score: 52.5 bits;  conditional E-value: 2.9e-18
                              H.........................S.CS--EEEEEEEEEEEEEEEEEESSSSS...-SSEEEEEEEEEEE-..TTSSS-EEEEE CS
           Bac_surface_Ag 101 s.........................a.sklqtgksltsslslslsydtrddalf...PtrGvllklrleftgpllggdvsylkld 157
                                                        +  k+++++++t +++  ++  t    +f   P +G ++++++++  p +g d+  lkld
  PHY93_12170|PHY93_12170 328 LqwtddtpsrfwlwslgpallagsykTeIKSENRNFKTGAIEGFVQTKTHTFEFFdihPEEGDFSQINFDYRHPSFGFDNPLLKLD 413
                              2555555556666555555555544324566666666666666666666665553333**************************** PP

                              EEEEEEEESST....TSSSEEEEEEEEEEEEESSSS-.--GGG-B-BSSTTSSTEE-TT-BS-EEEEEEE--BSEEEEEEEEEEEE CS
           Bac_surface_Ag 158 akasyyvpltk....ekdlvlaarvalgyisgygtkdelpfyerFyaGGsnsvRGfesgglgprdesgdalGGdsyavaslElrfp 239
                               ++ + + l +    +   +l++  ++ +   + +k +lp++ ++y GGs  +RGf+  +l +    ++ lG+ +++ a lE+r  
  PHY93_12170|PHY93_12170 414 LSFLKLFWLANlgkgSVIAGLRLNPSTTWVPNNISKINLPPSVKYYGGGSDDLRGFKLSTLPD----NTGLGALTKLGAKLEFRKT 495
                              **944444444342444444577777888876667777***********************99....578**************** PP

                              -SSS-GGTTEEEEEEEEEEEEE-TT--TTTTTTS--TTTS-EEEEEEEEEEEETTEEEEEEEEEEEE-STT CS
           Bac_surface_Ag 240 lpflkkqnsvrlalFfDaGnvwdkegqspsssrsasstaeirasvGvgLrwqsPlGPlrfdyAiplkkedg 310
                               +f+++   +  ++F+D +      g++p+s +     +++ +s GvgLrw sP+G  +  +A  l+ + +
  PHY93_12170|PHY93_12170 496 YFFVPS---LESVAFVDTALF----GERPWSVE-----SRLWYSPGVGLRWLSPIGLVQTYLARSLSTQSS 554
                              ****86...*********997....56777555.....3679*****************999999987765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (571 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       367  (0.0204696); expected 358.6 (0.02)
Passed bias filter:                      334  (0.018629); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.59u 0.26s 00:00:00.85 Elapsed: 00:00:00.43
# Mc/sec: 3983.93
//
Query:       PHY93_05715|PHY93_05715  [L=229]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.8e-21   75.0   0.0    1.5e-20   73.9   0.0    1.5  1  PseudoU_synth_2  RNA pseudouridylate synthase
    5.8e-08   32.3   0.0    1.7e-07   30.8   0.0    1.8  1  S4               S4 domain


Domain annotation for each model (and alignments):
>> PseudoU_synth_2  RNA pseudouridylate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.9   0.0   1.6e-24   1.5e-20       2     159 ..      63     195 ..      62     196 .. 0.88

  Alignments for each domain:
  == domain 1  score: 73.9 bits;  conditional E-value: 1.6e-24
          PseudoU_synth_2   2 lvvvnKPagvpvqpeakdgsekekettatssraeeekkelklvhRLDkatsGllllAksseaanklakafeerkvrKkYlalvfga 87 
                              ++v+nKP+g++v++ +     ++ + t ++  ++ +   l++v+RLD a++Glll++++ +++n l++  ++ +v+K Y + v  +
  PHY93_05715|PHY93_05715  63 YLVLNKPKGLVVTRSD-----EKGRPTVYDCLKNWKGPLLQAVGRLDLASEGLLLFTNDHQWSNLLMD--PKTHVKKIYHVQVSPI 141
                              89**************.....666777777778888999*****************************..*************866 PP

          PseudoU_synth_2  88 peeee.gaikkkiskdtekqegarrkaeeldgkkavtylkvlksgsseksakvslveleletGrkhQiRvhla 159
                              p+ e+  ++ + i                +d+k   ++++ ++sg     +k+s++ +el++Gr++QiR++++
  PHY93_05715|PHY93_05715 142 PSLEClEKLSNGIII--------------EDKKTLPAKFELIRSG-----EKNSWISVELHEGRNRQIRKMFE 195
                              666652344444554..............8***************.....*********************97 PP

>> S4  S4 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.8   0.0   1.9e-11   1.7e-07       3      37 ..       5      38 ..       5      41 .. 0.93

  Alignments for each domain:
  == domain 1  score: 30.8 bits;  conditional E-value: 1.9e-11
                             HHHHHHHTTSSSSHHHHHHHHHTTTEEETTEEE-- CS
                       S4  3 LdkvlarlglassrreArqlIehGrVlVNGkvvkd 37
                             L+ ++++ g+as r+eA+q+I +G+V VNG+++  
  PHY93_05715|PHY93_05715  5 LQRLISKRGIAS-RKEAYQMILDGKVFVNGQICLE 38
                             78999******9.******************9865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (229 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       359  (0.0200234); expected 358.6 (0.02)
Passed bias filter:                      341  (0.0190195); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1700.54
//
Query:       PHY93_12175|PHY93_12175  [L=648]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-07   31.0   0.8    4.4e-07   29.5   0.6    1.8  1  TamB      TamB, inner membrane protein subunit of TAM complex


Domain annotation for each model (and alignments):
>> TamB  TamB, inner membrane protein subunit of TAM complex
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.5   0.6   2.5e-11   4.4e-07     210     284 ..     497     563 ..     385     638 .. 0.72

  Alignments for each domain:
  == domain 1  score: 29.5 bits;  conditional E-value: 2.5e-11
                     TamB 210 rvnasssqtnerdpvrvllnvtGtlskPqvslssePnlsekeilslLllgrslsdlssgqlgaa..aasllgsagls 284
                                           ++ ++ln+ G+lskP   + s P+ls+++i+++Ll+g++ls l+++++++a  a+++l++ +ls
  PHY93_12175|PHY93_12175 497 HL----------PEYMITLNLEGPLSKPRQAFKSVPPLSQDDIYAVLLFGQPLSGLNTDDKTTArsAGQILSQGILS 563
                              44..........466799***************************************44444431155555554444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (648 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       539  (0.030063); expected 358.6 (0.02)
Passed bias filter:                      402  (0.0224218); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.61u 0.21s 00:00:00.82 Elapsed: 00:00:00.38
# Mc/sec: 5178.68
//
Query:       PHY93_12180|PHY93_12180  [L=50]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (50 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1145  (0.063863); expected 358.6 (0.02)
Passed bias filter:                      388  (0.0216409); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.20s 00:00:00.58 Elapsed: 00:00:00.37
# Mc/sec: 409.37
//
Query:       PHY93_12185|PHY93_12185  [L=117]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    5.2e-15   55.5   3.9      7e-15   55.1   3.9    1.2  1  MazG-like  MazG-like family
    0.00092   19.3   0.9     0.0015   18.6   0.9    1.4  1  MazG       MazG nucleotide pyrophosphohydrolase domain


Domain annotation for each model (and alignments):
>> MazG-like  MazG-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.1   3.9   7.8e-19     7e-15       2      83 ..      35     117 .]      34     117 .] 0.97

  Alignments for each domain:
  == domain 1  score: 55.1 bits;  conditional E-value: 7.8e-19
                MazG-like   2 sknlkaiElLkaellksveelfkallkgseeeildeLAdviiylylLAdrlGidfee.ideklkkklkkypvekehglekkyg 83 
                              + +++ +El ++ ++ s ee    + +  +++  +eLAd++iyl+  A +l+id+ee + +kl++++ kypv+k++g++kky+
  PHY93_12185|PHY93_12185  35 ALSVESSELVEIYQWISEEESNDSANETIKNKTREELADIFIYLLKIASKLDIDLEEaVLNKLDQNEIKYPVDKSKGNSKKYN 117
                              6799*******************9999******************************************************96 PP

>> MazG  MazG nucleotide pyrophosphohydrolase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.9   1.7e-07    0.0015      12      66 ..      38      97 ..      27     104 .. 0.70

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 1.7e-07
                             HHHHHHHH...HHHTT-HH.........HHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHH CS
                     MazG 12 eEvgEvae...aIkkedrd.........eleeELGDvLlqvlflaniaeeeggidledvaetileKl 66
                              E  E++e    I +e+ +         + +eEL+D+++++l +a      ++idle+++   l+Kl
  PHY93_12185|PHY93_12185 38 VESSELVEiyqWISEEESNdsanetiknKTREELADIFIYLLKIASK----LDIDLEEAV---LNKL 97
                             4555555411145554444566676777999***************5....*******99...5554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (117 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1114  (0.062134); expected 358.6 (0.02)
Passed bias filter:                      442  (0.0246528); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 870.16
//
Query:       PHY93_12190|PHY93_12190  [L=193]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.051   13.5   0.1       0.23   11.4   0.0    1.9  2  DUF1706   Protein of unknown function (DUF1706)
       0.07   13.1   0.0       0.17   11.9   0.0    1.7  1  Vps4_C    Vps4 C terminal oligomerisation domain


Domain annotation for each model (and alignments):
>> DUF1706  Protein of unknown function (DUF1706)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.0      0.16   1.4e+03     121     145 ..       6      32 ..       2      36 .. 0.80
   2 ?   11.4   0.0   2.5e-05      0.23      23      89 ..      74     144 ..      61     146 .. 0.80

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.16
                              HHS-HHHHHSTTS-HHH..S---HHHH CS
                  DUF1706 121 eslsdeeLfekkgrkWt..gkwtlgky 145
                              +++    +++++++kW+  g+ ++gk+
  PHY93_12190|PHY93_12190   6 REFHPYGIYKSGQTKWLiiGTFPIGKF 32 
                              56666678999*****99999999887 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 2.5e-05
                              HTTTTS-GGGT.....T--BTTCSS-HHHHHHHHHHHHHHHHHHHHHHHTT----SSSSSS-C..CGHHHH CS
                  DUF1706  23 klidsipeeekkap..eeavkgrdktvadvlayllgWhklllkWleeeqegeevelPeegykW..nqlgel 89 
                              k id ++e++ +++   + + + + + +d   y ++W++ l ++++e+  ++  ++ ++ y+W  +++g+l
  PHY93_12190|PHY93_12190  74 KIIDFLEEKKISMAdvIKSCRRKKGSANDSDLYDIEWNSELGQFVKENHFEKIYFTSQKAYQWflQNIGKL 144
                              45666666666666664467778889999999*******************************77666665 PP

>> Vps4_C  Vps4 C terminal oligomerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   1.9e-05      0.17      24      57 ..      79     111 ..      72     115 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 1.9e-05
                   Vps4_C  24 llePpvtlkDflkalkkarptVskeDLekheeFT 57 
                              l e ++++ D++k+ ++ + + +++DL  + e+ 
  PHY93_12190|PHY93_12190  79 LEEKKISMADVIKSCRRKKGSANDSDLYDI-EWN 111
                              7789***********************765.455 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (193 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       577  (0.0321825); expected 358.6 (0.02)
Passed bias filter:                      450  (0.025099); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.37
# Mc/sec: 1558.13
//
Query:       PHY93_12195|PHY93_12195  [L=220]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
     0.0012   18.6   0.0      0.038   13.7   0.0    2.0  2  N6_N4_Mtase  DNA methylase


Domain annotation for each model (and alignments):
>> N6_N4_Mtase  DNA methylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    3.0   0.0     0.004        71      27     111 ..      41     127 ..      33     144 .. 0.80
   2 !   13.7   0.0   2.1e-06     0.038     182     229 ..     162     208 ..     158     210 .. 0.82

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.004
                              HHHHHHHHHHHHHHHHHHHEEEEEEEEEEE-CCCHHTHHHHHHHHHTT.-EEEEEEEEEEESS.STTTSTCCS-B--EEEEEEEES CS
              N6_N4_Mtase  27 syeeyleflekvlkevrrvLkddgsifiniddseikkelkaladeifg.gffllnvivwkkpn.smpesnkdrltsthEyilvfsk 110
                              + +++ e+++k + +v     d g+++   +d++    ++ + + +++    l   + w+k    +   ++ + ++++ ++l+fsk
  PHY93_12195|PHY93_12195  41 TLAAWKEWFTKTATLVLSRTPDEGVTIFYQSDIKVDGAWVDKGYICQKaAEALGHELLWHKIVcRVRPGQATFGRPAYSHVLCFSK 126
                              678999*********99999999999999999999997777777777777788888888888534444444577789999999998 PP

                              S CS
              N6_N4_Mtase 111 n 111
                              +
  PHY93_12195|PHY93_12195 127 G 127
                              7 PP

  == domain 2  score: 13.7 bits;  conditional E-value: 2.1e-06
                              HHHHHHHS-TT-EEEETT-TTTHHHHHHHHTT-EEEEEESSHHHHHHH CS
              N6_N4_Mtase 182 erlIklstkkgdivlDpFaGSGtTavaakelgrkfiGieieeeyvela 229
                               + Ik  tk   +v  pF+G G  +++a++lg   iGie +++++ela
  PHY93_12195|PHY93_12195 162 AKFIKEHTKTLTLVH-PFCGQGAMLAVANALGLAGIGIERSPKRAELA 208
                              556666666655554.***************************99987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (220 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       291  (0.0162307); expected 358.6 (0.02)
Passed bias filter:                      280  (0.0156172); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.19s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 1666.70
//
Query:       PHY93_12200|PHY93_12200  [L=144]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (144 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       392  (0.021864); expected 358.6 (0.02)
Passed bias filter:                      257  (0.0143343); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.20s 00:00:00.59 Elapsed: 00:00:00.36
# Mc/sec: 1206.46
//
Query:       PHY93_12205|PHY93_12205  [L=200]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.1e-05   25.0   0.0      0.071   13.6   0.0    2.4  2  YflT             Heat induced stress protein YflT
    5.5e-05   22.9   0.0    0.00011   21.9   0.0    1.5  1  DUF3341          Protein of unknown function (DUF3341)
     0.0011   19.1   0.0     0.0025   17.9   0.0    1.6  1  DUF2007          Putative prokaryotic signal transducing prot
  ------ inclusion threshold ------
        1.5    8.0   4.0       0.94    8.6   1.6    1.8  2  FTR1             Iron permease FTR1 family
        1.6    9.1  12.8        6.6    7.2   2.8    2.4  2  Romo1            Reactive mitochondrial oxygen species modula
        1.8    8.9  14.8         55    4.1  14.8    2.3  1  DUF1269          Protein of unknown function (DUF1269)


Domain annotation for each model (and alignments):
>> YflT  Heat induced stress protein YflT
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.6   0.0   2.4e-05     0.071       2      48 ..      14      60 ..      13      80 .. 0.83
   2 !    9.1   0.0   0.00062       1.8      74      99 ..     120     145 ..     103     146 .. 0.91

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 2.4e-05
                     YflT  2 gvyeneeellsaieelkaeGyneddiyvvakdkdrlerlaentdaet 48
                             g+++++  l + i+ lk++ ++++di v+ +  + ++++a ++ +++
  PHY93_12205|PHY93_12205 14 GIFRDQSALDRTINILKSQNFRNSDISVLMQSTQGTRDFAFEKHTKA 60
                             78999*****************************9999995555554 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.00062
                     YflT  74 kleslGltedeaeeyeeeldeGkill 99 
                               l  lG++e ea++ye  ++eG +l+
  PHY93_12205|PHY93_12205 120 GLIGLGIPEFEAQRYEGYVKEGGMLI 145
                              6889*******************997 PP

>> DUF3341  Protein of unknown function (DUF3341)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.9   0.0   3.7e-08   0.00011       3     168 ..      12     170 ..      10     172 .. 0.91

  Alignments for each domain:
  == domain 1  score: 21.9 bits;  conditional E-value: 3.7e-08
                              B------SSHHHHHHHHHHHSS----EEB-SS.--TT-TTTSS--SS-STHHHHHHHHHHHHHHHHHHHIIIIISS---STT--SS CS
                  DUF3341   3 llaeFddedallkAakklreagykkldvysPf.pvhgldealglkksrlpliallgGllGlalalllqvytsvvdyplnigGkPlf 87 
                              ++++F+d+ al + ++ l+++++++ d+   +   +g+ ++   k+++ p  a +g+ +G++ + ++ +++ +    l i G   f
  PHY93_12205|PHY93_12205  12 VFGIFRDQSALDRTINILKSQNFRNSDISVLMqSTQGTRDFAFEKHTKAPEGATTGAATGAVAGGIFGWLVGAG--ALAIPGLGPF 95 
                              889*************************7766478999999999***********************9999988..8999998888 PP

                              -HHHHHHHHTHHHHHHHHHHHHHTTTTTT-S-----TTTT-TTGGG.TTTS---EE--S-SS---HHHHHHTTSS--S--- CS
                  DUF3341  88 slpafipitFEltvLfaalatvlgllllnglprlyhpvfkaenfdrratdDkffllieatdpkfdeeelkalLkelgAeev 168
                                   i+ +   + L+++++ v+g l+  g+     p f+a++++  + ++  +++i+++d+k  e++++++L+e gA+++
  PHY93_12205|PHY93_12205  96 IAAGPIMAAIAGAGLGGTVGGVAGGLIGLGI-----PEFEAQRYEGYVKEGGMLISIHVDDSK-WEAKAREILEENGAMNI 170
                              8888888899999999999999999999999.....6667999**99**************97.9*************998 PP

>> DUF2007  Putative prokaryotic signal transducing protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.0   8.3e-07    0.0025      32      66 ..     128     165 ..     124     166 .. 0.87

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 8.3e-07
                  DUF2007  32 eftssileGalgelp..vrilV.aeedleeAreileea 66 
                              ef+++++eG++ e +  + i+V + +++++Areilee+
  PHY93_12205|PHY93_12205 128 EFEAQRYEGYVKEGGmlISIHVdDSKWEAKAREILEEN 165
                              67788899999999999*****8889999*******97 PP

>> FTR1  Iron permease FTR1 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   1.6   0.00032      0.94     168     215 ..      64     111 ..      53     135 .. 0.89
   2 ?   -1.0   0.0      0.27     8e+02     102     141 ..     151     185 ..     142     187 .. 0.80

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.00032
                     FTR1 168 lilgvvlGaliavvlglliyrglvklslqsffilegflLllvaagLfs 215
                              + +g+  Ga ++ ++g+l++ g++++ +   fi++g +++ +a+  ++
  PHY93_12205|PHY93_12205  64 ATTGAATGAVAGGIFGWLVGAGALAIPGLGPFIAAGPIMAAIAGAGLG 111
                              5689999*********************************99986554 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.27
                     FTR1 102 keeveqklakavaeiknrekaaqkgekgsekwalfilsFl 141
                               +++e k  ++++     e++a+ ++  sek+a   +sF+
  PHY93_12205|PHY93_12205 151 DSKWEAKAREILE-----ENGAMNIATTSEKKATKETSFV 185
                              5789999999998.....5688999999999998777775 PP

>> Romo1  Reactive mitochondrial oxygen species modulator 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.0   2.6    0.0024       7.3       7      28 ..      65      86 ..      59      97 .. 0.73
   2 ?    7.2   2.8    0.0022       6.6       8      26 ..     106     124 ..     101     140 .. 0.86

  Alignments for each domain:
  == domain 1  score: 7.0 bits;  conditional E-value: 0.0024
                    Romo1  7 kmGalmGaaVGlaiGllfGtfs 28
                             ++Ga+ Ga+ G+++G l+G  +
  PHY93_12205|PHY93_12205 65 TTGAATGAVAGGIFGWLVGAGA 86
                             5788888888888888888655 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.0022
                    Romo1   8 mGalmGaaVGlaiGllfGt 26 
                              +Ga +G++VG+++G l+G+
  PHY93_12205|PHY93_12205 106 AGAGLGGTVGGVAGGLIGL 124
                              6899999999999999985 PP

>> DUF1269  Protein of unknown function (DUF1269)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.1  14.8     0.018        55       2      89 ..      69     176 ..      60     184 .. 0.67

  Alignments for each domain:
  == domain 1  score: 4.1 bits;  conditional E-value: 0.018
                  DUF1269   2 lsGalwGllvGllf.....lnPllG...aa...........vGAaaGAlvgalsdvgidddflkelgeklkpgtsalfllvekatv 68 
                              ++Ga++G+++G l+       P lG   aa           +G+++G+++g l  +gi +   ++ +  +k+g   + + v++++ 
  PHY93_12205|PHY93_12205  69 ATGAVAGGIFGWLVgagalAIPGLGpfiAAgpimaaiagagLGGTVGGVAGGLIGLGIPEFEAQRYEGYVKEGGMLISIHVDDSKW 154
                              556666666665551111123444454411566666766668888999999999*************************9999777 PP

                  DUF1269  69 dkvleal.aklggkvlrtslsk 89 
                              +  + ++ ++ g+  ++t+ +k
  PHY93_12205|PHY93_12205 155 EAKAREIlEENGAMNIATTSEK 176
                              6666555255555444444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (200 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       776  (0.0432818); expected 358.6 (0.02)
Passed bias filter:                      520  (0.0290033); expected 358.6 (0.02)
Passed Vit filter:                        60  (0.00334653); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.37
# Mc/sec: 1611.28
//
Query:       PHY93_12210|PHY93_12210  [L=113]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.9e-09   36.7   1.8    5.8e-09   36.1   1.8    1.3  1  BON       BON domain


Domain annotation for each model (and alignments):
>> BON  BON domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.1   1.8   3.2e-13   5.8e-09       2      65 ..      48     113 .]      47     113 .] 0.93

  Alignments for each domain:
  == domain 1  score: 36.1 bits;  conditional E-value: 3.2e-13
                              HHCCHHHHHHHHHHHCHT..TGCCCEEEEETTCEEEECEEECHHHHHHHHHHHHCCTTEEEEEEEE CS
                      BON   2 Daeiaakvkaalakdggl..daadinVevenGvVtLsGtVdseaekekAveiarnvaGVkkVvnel 65 
                              D ei+  +++a+ +d++l  +a +i++++ +  ++L+G+V+s aek k++ +ar  aG kkV+n+l
  PHY93_12210|PHY93_12210  48 DVEITRTLREAIMADDQLstSAHNIKIVTVKKAIILKGRVASKAEKVKIENLARARAGDKKVYNRL 113
                              889************7775578*********88*******************************86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (113 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       479  (0.0267165); expected 358.6 (0.02)
Passed bias filter:                      272  (0.015171); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 864.39
//
Query:       PHY93_12215|PHY93_12215  [L=166]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    6.1e-55  185.8   0.0    6.8e-55  185.6   0.0    1.0  1  DUF1993         Domain of unknown function (DUF1993)
  ------ inclusion threshold ------
      0.046   14.1   0.0       0.11   12.9   0.0    1.6  1  ParD_antitoxin  Bacterial antitoxin of ParD toxin-antitoxin t
       0.14   12.0   0.0       0.23   11.4   0.0    1.5  1  DinB            DinB family


Domain annotation for each model (and alignments):
>> DUF1993  Domain of unknown function (DUF1993)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  185.6   0.0   1.1e-58   6.8e-55       1     161 []       2     161 ..       2     161 .. 0.99

  Alignments for each domain:
  == domain 1  score: 185.6 bits;  conditional E-value: 1.1e-58
                              HHHHCHHHHHHHHHHHHHHHHHHHCCHHHHC..HHHHHT--SSTTS--HHHHHHHHHHHHHHHHCHHCT-GS----S.-SSHHHHH CS
                  DUF1993   1 lydasvpvfikglknlsalLkkaeahaaakkidpeellearLapDMlpLsfQvqiatdtakkavarlagkeppsledeektfadlr 86 
                              lyd++v++f+k+l+nl+++L+k+ + a+a+k+d++ ll+arLapD+++L +Qvqia+dtak ++arlag e+p  ed+ekt+ +l+
  PHY93_12215|PHY93_12215   2 LYDLTVTQFTKMLNNLNHILDKGVQSAEARKFDVDVLLNARLAPDQFNLIRQVQIACDTAKLGAARLAGVEAPIHEDKEKTLPELK 87 
                              8************************************************************************99*********** PP

                              HHHHHHHHHHHCS-GGGHCCCCCEEEE.C.CCCCEEEEHHHHHHHTHHHHHHHHHHHHHHHHHHCT----HHHHH CS
                  DUF1993  87 ariaktialLesvdpekldakeekevelklggkeleftgeeyllefalPnfyFHlttaYaILRkkGVelGkaDyl 161
                              ari++++++L +++ e++++++e++++ + + +   +tg+e+++++a+Pn+yFH+ttaYaILR++GV++Gk+Dyl
  PHY93_12215|PHY93_12215  88 ARINDVVKYLGTFKVEDFQGAHERKIS-QPRWEGKYLTGSEFAIQHAIPNIYFHITTAYAILRSNGVDVGKKDYL 161
                              ***************************.66999999**************************************7 PP

>> ParD_antitoxin  Bacterial antitoxin of ParD toxin-antitoxin type II system and RHH
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   1.9e-05      0.11      47      75 ..      14      42 ..       6      47 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 1.9e-05
                             HHHHHHHHHHHHCT-EESS--HHHHHHHC CS
           ParD_antitoxin 47 lkaLreaLeegeqsGeaepfDldafleek 75
                             l+ L ++L +g qs ea++fD+d+ l+ +
  PHY93_12215|PHY93_12215 14 LNNLNHILDKGVQSAEARKFDVDVLLNAR 42
                             7899**********************876 PP

>> DinB  DinB family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   3.9e-05      0.23      66     158 ..      69     162 ..       7     165 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 3.9e-05
                              .SSSGGGT---------HHHHHHHHHHHHHHHHCT--HHHHHSEE------SS-EEHHHH.HHHHHHHHHHHHHHHHHHHHHTT-- CS
                     DinB  66 egapavddqterkeleeldalrealderliafldqltdleretlldradagtvkmtlael.LaHvinHethHrGqitvllrqlGht 150
                              +g +a+ +++++k+l+el+a    + + l  f+ ++ + + e++++++ + +   t +e+ ++H+i +   H   ++++lr  G+ 
  PHY93_12215|PHY93_12215  69 AGVEAPIHEDKEKTLPELKARINDVVKYLGTFKVEDFQGAHERKISQPRWEGKYLTGSEFaIQHAIPNIYFHITTAYAILRSNGVD 154
                              568899999*****************************999999999999999999999659***********************9 PP

                              ----S... CS
                     DinB 151 ppaldyll 158
                              +   dyl 
  PHY93_12215|PHY93_12215 155 VGKKDYLG 162
                              99999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (166 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       564  (0.0314574); expected 358.6 (0.02)
Passed bias filter:                      544  (0.0303419); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.38
# Mc/sec: 1307.91
//
Query:       PHY93_12220|PHY93_12220  [L=87]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    2.6e-21   76.4   0.0    3.7e-21   75.9   0.0    1.2  1  Rotamase    PPIC-type PPIASE domain
    9.2e-20   71.3   0.0    1.3e-19   70.9   0.0    1.2  1  Rotamase_3  PPIC-type PPIASE domain
      5e-06   27.4   0.0    5.6e-06   27.2   0.0    1.1  1  Rotamase_2  PPIC-type PPIASE domain


Domain annotation for each model (and alignments):
>> Rotamase  PPIC-type PPIASE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   75.9   0.0   6.1e-25   3.7e-21      20      94 ..      14      86 ..       6      87 .] 0.94

  Alignments for each domain:
  == domain 1  score: 75.9 bits;  conditional E-value: 6.1e-25
                             HHHHHHHCCTCCCHHHHHHHHCCC-.-CHHHCCTTEEECEETTTS-CCCHHHHCCS-CT-B-S-EEETTEEEEEE CS
                 Rotamase 20 akaeeileqlksgedtFeelArkySddknsakngGdlgwvekgqlppefekaafslkkGeisepvetkfGfhiik 94
                               a +++++l +g   FeelAr++S +++s k+gG+lg++ kg ++p fekaaf+l +Ge+s++v+t+fGfh+ik
  PHY93_12220|PHY93_12220 14 HIALDLQKKLLEGVP-FEELARDFS-ECPSSKDGGNLGEFGKGMMVPSFEKAAFQLMPGEVSGIVRTQFGFHLIK 86
                             567889999999999.*********.************************************************9 PP

>> Rotamase_3  PPIC-type PPIASE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.9   0.0   2.2e-23   1.3e-19      37     111 ..      13      86 ..       2      87 .] 0.91

  Alignments for each domain:
  == domain 1  score: 70.9 bits;  conditional E-value: 2.2e-23
               Rotamase_3  37 kakadsllaalkegadFaalAkeySdDpaskenGGelgwftkgqmvkeFedavfslkkgeiskvvktdfGyHiik 111
                              ++ a +l ++l eg  F++lA+ +S+ p+ ++ GG+lg f kg+mv+ Fe+a+f+l  ge+s++v+t+fG+H+ik
  PHY93_12220|PHY93_12220  13 EHIALDLQKKLLEGVPFEELARDFSECPS-SKDGGNLGEFGKGMMVPSFEKAAFQLMPGEVSGIVRTQFGFHLIK 86 
                              57788999******************997.899*****************************************8 PP

>> Rotamase_2  PPIC-type PPIASE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.2   0.0   9.4e-10   5.6e-06      25     104 ..       6      86 ..       2      87 .] 0.75

  Alignments for each domain:
  == domain 1  score: 27.2 bits;  conditional E-value: 9.4e-10
               Rotamase_2  25 lelavvkdqvaaeaalalakagaekdfaalakg..nskkaadlgifesasnlpeelakaafalkpgevsgpvetdngyyivk 104
                              ++++v  +  a +++++l+++  ++++a   ++  +sk+ ++lg f +   + + ++kaaf l pgevsg+v+t++g++++k
  PHY93_12220|PHY93_12220   6 KHILVNHEHIALDLQKKLLEGVPFEELARDFSEcpSSKDGGNLGEFGKGM-MVPSFEKAAFQLMPGEVSGIVRTQFGFHLIK 86 
                              56777778888999999999998666666666633344444444555544.555*************************998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (87 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       175  (0.00976072); expected 358.6 (0.02)
Passed bias filter:                      175  (0.00976072); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.36u 0.17s 00:00:00.53 Elapsed: 00:00:00.34
# Mc/sec: 767.96
//
Query:       PHY93_05720|PHY93_05720  [L=177]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (177 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       430  (0.0239835); expected 358.6 (0.02)
Passed bias filter:                      212  (0.0118244); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 1336.85
//
Query:       PHY93_12225|PHY93_12225  [L=379]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.7e-19   69.1   0.0      1e-11   44.5   0.1    2.1  2  DUF2252   Uncharacterized protein conserved in bacteria (DUF2
  ------ inclusion threshold ------
      0.071   13.4   0.0       0.24   11.7   0.0    1.9  1  DUF2850   Protein of unknown function (DUF2850)


Domain annotation for each model (and alignments):
>> DUF2252  Uncharacterized protein conserved in bacteria (DUF2252)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.5   0.1   1.2e-15     1e-11      16      87 ..      42     121 ..      35     126 .. 0.85
   2 !   22.5   0.0   5.5e-09     5e-05     216     360 ..     209     348 ..     162     370 .. 0.83

  Alignments for each domain:
  == domain 1  score: 44.5 bits;  conditional E-value: 1.2e-15
                  DUF2252  16 spFaFfRGtaalfaadLaa........tpetglrvqicGDaHleNFGlfaspegrlvfdiNDFDEalvgpfewDlkRlaa 87 
                              + F F R     ++  +a+         + ++ + +++GDaH+eNFG++ +++ +++f++ND+D+  + p  +D  Rl++
  PHY93_12225|PHY93_12225  42 DTFIFARSFVDYYYGLMAKntsqlniaHAASSFSGWCVGDAHPENFGILLQNNSKILFSMNDMDDFGPCPLAYDFLRLLV 121
                              5677777766666666666666677788899999*******************************************987 PP

  == domain 2  score: 22.5 bits;  conditional E-value: 5.5e-09
                  DUF2252 216 lldrfrlkDvarkv.vGvGSvGtrryvvLlegksdddpllLqiKeArpsvlerlvsasepesseveheGeRvvegqrllqaas.di 299
                              +  ++r+ D++  +  G GS G+ ry vL+ +  ++d + L++Ke   +++ ++++     + +  ++ eR+ ++ ++ q ++  +
  PHY93_12225|PHY93_12225 209 VNGDLRVMDIISTSrIGGGSGGLLRYEVLCLKG-NKDLIRLELKELSLPAIYPVAT-----A-TIPSQSERMTKALQVEQGNTyST 287
                              5567999****9999***************999.557889***************3.....3.346999*********99877256 PP

                  DUF2252 300 fLgwteldgrsfyvRqlrdmkgsldlekldkdelaeyarllgrvlAraHarsddaaviagy 360
                              +++   + ++  ++R     ++ ++l++ ++++ +e+ ++ + +l+r Ha s +a+ ++ +
  PHY93_12225|PHY93_12225 288 YYNVFLVGEKTMLLRPKFAGNKGITLTNSSDQDNTEIISYEAFILGRIHAASAEASYTDVM 348
                              7777777779******************************************999855544 PP

>> DUF2850  Protein of unknown function (DUF2850)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   2.7e-05      0.24      30      51 ..      23      44 ..      17      73 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 2.7e-05
                  DUF2850 30 grlvsTsfefdGktleykvgse 51
                              +l+ T+++fdG++le +  + 
  PHY93_12225|PHY93_12225 23 SSLIDTNYQFDGQKLEASSDTF 44
                             689************9876554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (379 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       403  (0.0224776); expected 358.6 (0.02)
Passed bias filter:                      344  (0.0191868); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.38
# Mc/sec: 2955.28
//
Query:       PHY93_12230|PHY93_12230  [L=244]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.4e-08   33.1   0.0    1.2e-06   28.4   0.0    2.1  1  Abhydrolase_1  alpha/beta hydrolase fold
    6.1e-06   25.7   0.0    9.4e-06   25.1   0.0    1.2  1  Hydrolase_4    Serine aminopeptidase, S33
     0.0049   16.8   0.1     0.0084   16.1   0.1    1.4  1  BAAT_C         BAAT / Acyl-CoA thioester hydrolase C terminal
     0.0083   15.8   0.0      0.011   15.4   0.0    1.1  1  Esterase       Putative esterase
  ------ inclusion threshold ------
      0.015   14.6   0.0       0.02   14.2   0.0    1.2  1  LIP            Secretory lipase
      0.066   13.1   0.0       0.19   11.6   0.0    1.8  2  Ser_hydrolase  Serine hydrolase
        0.2   11.8   0.0       0.25   11.4   0.0    1.1  1  Thioesterase   Thioesterase domain


Domain annotation for each model (and alignments):
>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.4   0.0   4.8e-10   1.2e-06      74     256 ..      74     235 ..      56     236 .. 0.69

  Alignments for each domain:
  == domain 1  score: 28.4 bits;  conditional E-value: 4.8e-10
                              SEEEEEETHHHHHHHHHHHHHGGGEEEEEEESECSSCCHHHHHHHHHHHHHHCHHCHHHHHHHHHHHHHHHHCCSCHHHHHHHHHH CS
            Abhydrolase_1  74 kltlvGhSmGGmialayaaeyperVkalvllgaidpaaslieaqrqqaksfpdffdgyaadcarnpagplladelaaleqrhrlvd 159
                              ++++ G S+GGm++l +a++ype +k+++ +++     sl++   ++    p+   +++a+ ++  ++ +    l+ +   +++  
  PHY93_12230|PHY93_12230  74 SFNICGISLGGMVGLKWAELYPEEIKSVTIINS-----SLRQYSSFYERLIPKNYGKMIAALFNSDEAEQERIILTITSNKLDI-- 152
                              68999****************************.....8888888888888888888888888777777777777766666665.. PP

                              HHHHHCHHHCCHHHHHHHCHHHHHHHHHHHHHHHHCCHHHHHHHHHCTHHHHSEEEEEEETTCSSSCHHHHHHHHHCHTSEEEEEE CS
            Abhydrolase_1 160 alkfpdkskrfpssgsdnasslatgalksieqwpttdsaklllrlrelknvlaptlvisgtsDplvppkaledlaqllpkkrlvvi 245
                                   +k+ ++ s +s n +       ++  q     +   ++  +       p  +is+ +D+lv+   +e++a+ l +   ++ 
  PHY93_12230|PHY93_12230 153 ----TKKYLDAFSTFSKNHH---VSKTNFTRQLLLASRIEIQNLPDV------PLKIISSKHDRLVSFYCSEKIAKNLGG-NQYIH 224
                              ....4555555553332222...222234444444444455555555......777777777777777777777777777.77777 PP

                              ETCSSSHHHHS CS
            Abhydrolase_1 246 sdagHlafleg 256
                              ++agH++ l++
  PHY93_12230|PHY93_12230 225 PTAGHDLPLDE 235
                              77777776666 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.1   0.0   3.7e-09   9.4e-06      71     234 ..      68     231 ..      54     236 .. 0.73

  Alignments for each domain:
  == domain 1  score: 25.1 bits;  conditional E-value: 3.7e-09
              Hydrolase_4  71 eehpelplfllGhSmGGliallyllrypdkvaglilsaPalkikaklkappllklllkllgkllpklqv.....snnlkadslsrd 151
                                +++l + ++G S+GG++ l++++ yp++++ + ++++ l+  +++  + + k   k+++ l+ + +         + +++l   
  PHY93_12230|PHY93_12230  68 FSKQNLSFNICGISLGGMVGLKWAELYPEEIKSVTIINSSLRQYSSFYERLIPKNYGKMIAALFNSDEAeqeriILTITSNKLDIT 153
                              445566899***********************887777777777666467777777888888888777753333344444555555 PP

              Hydrolase_4 152 pevvaayeadplvhgkitvrlllelldamkrleeraakitlPllllhGeaDkvvdpeasrelyerlgskdktlklypglyHel 234
                              ++ ++a+ + +  h   ++++ ++ll a     ++ +  ++Pl ++++++D++v+   s++++++lg    +  + p + H+l
  PHY93_12230|PHY93_12230 154 KKYLDAFSTFSKNHHVSKTNFTRQLLLASRIEIQNLP--DVPLKIISSKHDRLVSFYCSEKIAKNLGG---NQYIHPTAGHDL 231
                              6666667777777777788888888888777666666..47***********************9995...455556666665 PP

>> BAAT_C  BAAT / Acyl-CoA thioester hydrolase C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.1   3.3e-06    0.0084       9     129 ..      58     205 ..      56     232 .. 0.61

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 3.3e-06
                              HHHHHHCSTTB--SSEE..EEEETHHHHHHHHHHHHSS.SEEEEEEES--SB--SSEEEETTE......................E CS
                   BAAT_C   9 ainyllrhpkvkkdkig..llGiSkGgelalllasflk.kisavvlingsavvvegklvykdes....................kv 71 
                               i++l+++++ +k++    ++GiS Gg ++l  a  ++ +i+ v +in s   ++  ++y+  +                    + 
  PHY93_12230|PHY93_12230  58 VIDILRNKSRFSKQNLSfnICGISLGGMVGLKWAELYPeEIKSVTIINSSLRQYS--SFYERLIpknygkmiaalfnsdeaeqeR- 140
                              58899999999999875338******************9***********87663..4444333444564444444444433332. PP

                              E----B-GGG-EE......................-TTS-EE-TT-B--TTTGGGCCCB--GGG-.-SEEEEEEETT-SSS CS
                   BAAT_C  72 lpelklsmeklkv......................nknglldivdvlallkeklaekalipveka.kgpillvvgedDknw 129
                                                                  kn+++  ++ +++l       ++i++ +  + p+ +++++ D+++
  PHY93_12230|PHY93_12230 141 ------------IiltitsnklditkkyldafstfSKNHHVSKTNFTRQL----LLASRIEIQNLpDVPLKIISSKHDRLV 205
                              ............03333333333334555555544444444444444444....344556666666777777777777665 PP

>> Esterase  Putative esterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   4.4e-06     0.011     100     198 ..      56     153 ..      54     177 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 4.4e-06
                              THHHHHHHHHCSEECCC..EEEEEETHHHHHHHHHHHCSTTTCCEEEEES--S-CCHCHHHCTTCCHHHCC-CCCCHCHHCHTTSE CS
                 Esterase 100 qeLlplldanfrtapdg..ravaGqSmGGlgALilalkhpdrFgsvssfSpivnpsnamWgqeekeawqendpvllakelsaslka 183
                              +++ ++l+ + r++++     + G+S+GG++ L  a  +p++ +sv      +   ++++ +   +  + ++++  a  +s++ ++
  PHY93_12230|PHY93_12230  56 KQVIDILRNKSRFSKQNlsFNICGISLGGMVGLKWAELYPEEIKSVTIINSSLRQYSSFYER-LIP--KNYGKMIAALFNSDEAEQ 138
                              678888999999988888899*************************9998788888888877.333..378888888888899999 PP

                              EEEEEEECTTBCCCH CS
                 Esterase 184 lriyldvGtseddlg 198
                               ri l ++++  d++
  PHY93_12230|PHY93_12230 139 ERIILTITSNKLDIT 153
                              999988888776555 PP

>> LIP  Secretory lipase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   7.7e-06      0.02     180     241 ..     156     217 ..     101     226 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 7.7e-06
                      LIP 180 ltgdkrafekgsdvlkdetikkvlednklsksavPqiPvlvyhgvidelipikdakklaknw 241
                              + + + +f k  +v k++  +++l   +++ + +P +P+ ++ +++d l+ +  ++k+akn 
  PHY93_12230|PHY93_12230 156 YLDAFSTFSKNHHVSKTNFTRQLLLASRIEIQNLPDVPLKIISSKHDRLVSFYCSEKIAKNL 217
                              357788999999999999999999999**99*********************9999999875 PP

>> Ser_hydrolase  Serine hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.0      0.81   2.1e+03      59      87 ..      77     104 ..      60     119 .. 0.77
   2 ?   11.6   0.0   7.4e-05      0.19     110     152 ..     186     229 ..     126     233 .. 0.85

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 0.81
                              EEEETCHHHHHHHHHHHTTSSSEEEEEEE CS
            Ser_hydrolase  59 lvAHSlgclavlhaaelqlakkvagalLV 87 
                              +   Slg ++ l++a    +++++ + ++
  PHY93_12230|PHY93_12230  77 ICGISLGGMVGLKWA-ELYPEEIKSVTII 104
                              666699999999999.7777777777665 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 7.4e-05
                              SSHHC.CHCEEEEETTBTTC-HHHHHHHHHHCT-EEEEETT-TT CS
            Ser_hydrolase 110 reklp.fpslvvaSenDpyvsfeeaeelaeawgaelvdlgeaGH 152
                               ++lp +p  +++S+ D +vsf  +e++a+++g + +  + aGH
  PHY93_12230|PHY93_12230 186 IQNLPdVPLKIISSKHDRLVSFYCSEKIAKNLGGNQYIHPTAGH 229
                              4444327779*********************************9 PP

>> Thioesterase  Thioesterase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   9.9e-05      0.25      17     163 ..      23     168 ..      18     211 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 9.9e-05
                              HHHHHHCTTCEEEEEEECSTTST..SHHHCTTCHHHHHHHHHHHHHHH-SSSSEEEEEETHHHHHHHHHHHHHHHCT-SEEEEEEE CS
             Thioesterase  17 rslasklsdpvvevlavqlpgre..rdepplesieelaaeyaealrqiqpegPyalfGhSlGgllAfevArqLesqGlavkslfli 100
                                + +k++++ +e+ +++ pg +  + e+ + +++++++ + +  r +++   +++ G SlGg++  + A+ +    +++ks+ +i
  PHY93_12230|PHY93_12230  23 EEIFKKINPE-AEMEFLEIPGNGflNIEKSPINAKQVIDILRNKSRFSKQNLSFNICGISLGGMVGLKWAELYP---EEIKSVTII 104
                              5555667775.7777778888888799999999*************************************9997...579999999 PP

                              SCCCCCCHHCHHCCCHTTHHTHHHHHCCTTHHHCCTTTHCCHHHHHHHHHHHHHHHHHTCCS...- CS
             Thioesterase 101 dssapseteaqeasrraedeefveeltdlggtepeelledeellsellpalradyraleqys...l 163
                               ss ++  + +e+   +   ++++ l    ++  e+ + +  ++s  l+ ++ + +a  ++s   +
  PHY93_12230|PHY93_12230 105 NSSLRQYSSFYERLIPKNYGKMIAALFNSDEA--EQERIILTITSNKLDITKKYLDAFSTFSknhH 168
                              99999998999998888888877666666654..44444444567777777777777777775542 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (244 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       629  (0.0350828); expected 358.6 (0.02)
Passed bias filter:                      474  (0.0264376); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.37
# Mc/sec: 1962.38
//
Query:       PHY93_12235|PHY93_12235  [L=336]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.2e-15   56.7   0.0      4e-15   56.4   0.0    1.1  1  Peptidase_M14  Zinc carboxypeptidase
    3.9e-07   29.8   0.0    2.9e-05   23.7   0.0    2.1  2  DUF2817        Protein of unknown function (DUF2817)
     0.0076   15.4   0.0       0.02   14.0   0.0    1.9  1  AstE_AspA      Succinylglutamate desuccinylase / Aspartoacyla


Domain annotation for each model (and alignments):
>> Peptidase_M14  Zinc carboxypeptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.4   0.0   6.7e-19     4e-15      41     224 ..      46     225 ..      28     294 .. 0.80

  Alignments for each domain:
  == domain 1  score: 56.4 bits;  conditional E-value: 6.7e-19
                              STTST-CEEEEEE-SSTT-HHHHHHHHHHHHHHHHHTTTSHHHHHHHHHEEEEEES-STHHHHHHHHHT-TTTTST-SBCTTSSSB CS
            Peptidase_M14  41 eaeegkpvvlidggiHarEwigsalllylleqLlsaYgedeeikellddtdiyilpvlNPDGyeysstedrlwrknrsnakessce 126
                              ++++  p+ +i+gg+H+ E +g +l+  ll+  l +   d+ ++el ++++++++p +NP Gy++++         r+n +     
  PHY93_12235|PHY93_12235  46 SENPLHPTLFITGGVHGLERVGAQLAWSLLKTTLDRLIWDKSLQELFKNIRLVVIPLVNPVGYNKFK---------RCNGN----- 117
                              468999*************************************************************.........*****..... PP

                              S--GGGSSSSS.TTSS.....SSBSSTTSTTBHHSSTT.SHHHHHHH.HHHHH...TTEEEEEEEEES...SSEEEESHSSSS--- CS
            Peptidase_M14 127 GvDlnRnFpdl.wnse.....gastspcsetyrgpapfsepetravl.efiqk...knivlfidlhsy...sqvilypygstrdei 199
                               vDl+Rn p    +++     g ++s+  + ++g+ ++ e e +a++ +f+q+      v++id+hs+    + i +p+++++   
  PHY93_12235|PHY93_12235 118 DVDLMRNSPVRaIDKTpfllgGHRYSKKIPWFQGDLNQLEVENKALYdKFFQScgkSTCVVSIDFHSGfgmKDRIWFPFSYSK--- 200
                              *******6655444445666359999999******************777999999**********9833356677*******... PP

                              SS-TTHHHHHHHHHHHHHHHCHTTT CS
            Peptidase_M14 200 spppddeelkslarkyaealqkmvr 224
                              +p ++  e++ l   ++e++++ v+
  PHY93_12235|PHY93_12235 201 KPYDRMPEMNALTVLFNETHPYHVY 225
                              6666666777788888888888666 PP

>> DUF2817  Protein of unknown function (DUF2817)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.7   0.0   4.8e-09   2.9e-05      44     118 ..      43     125 ..      21     135 .. 0.78
   2 !    4.2   0.0     0.004        24     193     231 ..     160     198 ..     149     272 .. 0.64

  Alignments for each domain:
  == domain 1  score: 23.7 bits;  conditional E-value: 4.8e-09
                  DUF2817  44 rlgpadakk.lLvltsGthGveGfaGSavqvalLrea.....laklla...egvavLlvhalNPyGfahlrrvnedNVDLnRNf 118
                               +g+++  + +L +t G+hG+e  +G+ +   lL+ +     + k+l+   +++ ++++  +NP G   ++r n + VDL RN 
  PHY93_12235|PHY93_12235  43 TIGSENPLHpTLFITGGVHGLER-VGAQLAWSLLKTTldrliWDKSLQelfKNIRLVVIPLVNPVGYNKFKRCNGNDVDLMRNS 125
                              5566555444999*********6.7998888888877666675555442227999****************************6 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.004
                  DUF2817 193 nrtlreilkehlaaaervaviDlHTGlGprgkgeiivss 231
                              n++l   + +  ++ + v+ iD+H+G G +    + +s 
  PHY93_12235|PHY93_12235 160 NKALYDKFFQSCGKSTCVVSIDFHSGFGMKDRIWFPFSY 198
                              55555555556688899***********88766555544 PP

>> AstE_AspA  Succinylglutamate desuccinylase / Aspartoacylase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.0   0.0   3.3e-06      0.02       3     109 ..      52     185 ..      51     285 .. 0.74

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 3.3e-06
                              -EEEEEE-SSTT-HHHHHHHHHHHHHHHCCC..........ESCCEEEEEESSHHHHHCTSSSSSTT-S-CT.............. CS
                AstE_AspA   3 pkvlisAGvHGnElaGvellrqllkqleead..........ilgeitlvplaNppAiaagsRyipidredLN.............. 64 
                              p+++i++GvHG E  G  l+  llk                +  + +++pl+Np + ++ +R+   ++ dL               
  PHY93_12235|PHY93_12235  52 PTLFITGGVHGLERVGAQLAWSLLKTTLDRLiwdkslqelfKNIRLVVIPLVNPVGYNKFKRCNG-NDVDLMrnspvraidktpfl 136
                              899*************9987666653211111111222453666778899***********9998.66666355888888888888 PP

                              ..........TTTTCCCCCSSTCHHHHHHHHHHHHHHHCHCTCCCGCEEEEEEEE CS
                AstE_AspA  65 ..........RaFpgrslgrsldealrateaerladalfaaalpeadivlDLHtg 109
                                          F+g++++      l++ +   + + ++  ++  + + +D+H+g
  PHY93_12235|PHY93_12235 137 lgghryskkiPWFQGDLNQ------LEVENKALYDKFFQSCGKSTCVVSIDFHSG 185
                              8887666666667777766......666665555555555555788888888876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (336 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       421  (0.0234815); expected 358.6 (0.02)
Passed bias filter:                      393  (0.0219198); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.26s 00:00:00.75 Elapsed: 00:00:00.41
# Mc/sec: 2435.97
//
Query:       PHY93_12240|PHY93_12240  [L=277]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.4e-23   83.6   0.0    2.1e-23   82.9   0.0    1.3  1  Acetyltransf_5  Acetyltransferase (GNAT) domain
     0.0026   17.3   0.0     0.0041   16.7   0.0    1.3  1  Autoind_synth   Autoinducer synthase


Domain annotation for each model (and alignments):
>> Acetyltransf_5  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   82.9   0.0   2.4e-27   2.1e-23       1     100 [.      52     147 ..      52     148 .. 0.92

  Alignments for each domain:
  == domain 1  score: 82.9 bits;  conditional E-value: 2.4e-27
           Acetyltransf_5   1 LRyevFreemgaegeaaapeldiDefDavcdhllvideae.evVGtyRllrpdeaerlegfysesefdlsklaalrrrllElgRsc 85 
                              LR+evF++e++  +++   ++diD++D+++dhl++i++++ +++GtyRl +++ ++ l   y+e+ef+ls++ +l++  +ElgR+c
  PHY93_12240|PHY93_12240  52 LRHEVFYQEFQDIETT---GIDIDKYDSHFDHLVIIHKETnKIIGTYRLSCTTFSN-L--SYTEQEFNLSEIYKLKGPHIELGRAC 131
                              8**********99888...9****************999977***********999.4..8************************* PP

           Acetyltransf_5  86 vhpeyRnkral.ellw 100
                              +++++R+++a+ +llw
  PHY93_12240|PHY93_12240 132 IQKDHRKGSAViSLLW 147
                              ******9876515555 PP

>> Autoind_synth  Autoinducer synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.0   4.6e-07    0.0041       7     106 ..      43     139 ..      37     162 .. 0.75

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 4.6e-07
            Autoind_synth   7 eaklkelfrLRkevFkdRLeWdvqiidGmerDqyDnlkttyllgvkdegrvigsvRlletkgPnmltdtFsslldgeniaesanll 92 
                              + +l e  rLR evF +  + d++ + G + D+yD +    ++  k+ +++ig+ Rl  t++ n+        l ++  ++ +  +
  PHY93_12240|PHY93_12240  43 HEELIESCRLRHEVFYQEFQ-DIE-TTGIDIDKYDSHFDHLVIIHKETNKIIGTYRLSCTTFSNLSYTEQEFNLSEIYKLK-GPHI 125
                              5556677899*****98765.555.68********8776666666899**********99999975433333455555555.8999 PP

            Autoind_synth  93 essRFfvDkdlvsd 106
                              e  R ++ kd  ++
  PHY93_12240|PHY93_12240 126 ELGRACIQKDHRKG 139
                              99999999986554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (277 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       424  (0.0236488); expected 358.6 (0.02)
Passed bias filter:                      311  (0.0173462); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.20s 00:00:00.65 Elapsed: 00:00:00.36
# Mc/sec: 2275.43
//
Query:       PHY93_12245|PHY93_12245  [L=319]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      3e-50  171.3   0.0    3.6e-50  171.0   0.0    1.0  1  Arginase  Arginase family


Domain annotation for each model (and alignments):
>> Arginase  Arginase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  171.0   0.0     2e-54   3.6e-50       7     276 ..       9     291 ..       4     294 .. 0.83

  Alignments for each domain:
  == domain 1  score: 171.0 bits;  conditional E-value: 2e-54
                              EEE--TTTSSSGGGGGHHHHHHHHHHTSBTHCHEETTTTESCCSEEEEEEEEE--S.SCHHHH....HHHHHHHHHHHHHTTCEEE CS
                 Arginase   7 GvPfdaagsgrpGarfGPraireasarleealeynlelgvleelkivdlgdvavtp.vdneev....leqieeavaeilkagklpi 87 
                              G+ f++ g+ + G  +  +  r+  + l+e ++++l ++  + ++ v    ++v   +d e++     +q++ ++ e+l++++  +
  PHY93_12245|PHY93_12245   9 GISFEV-GQSKLGLVQSSKNARKYFSILKE-IGIDLFDH-GDAITQVHQSPIKVYQeTDLEKIewdkYQQAYLKTIELLEEKTPLL 91 
                              566666.66666666666666666655553.23333222.233333333333332212333336666899999999999999999* PP

                              EEESSGGGHHHHHHHHHHHHSTTEEEEEESSS----SSCTTTBSSSTTSHHHH.............HHHHTSECGCEEEEEEE-ST CS
                 Arginase  88 vlGGDHsialgilralaekygkplgvihfDAHaDlrtpetegsgnshGtpfrr.............aaeegllkpkklvqiGirsv 160
                                GGDHsial+++ a+a +y  +  vi++DAHaDl+ p+ + +gn hG+p++              ++ ++ l+pkkl++iG+r++
  PHY93_12245|PHY93_12245  92 NWGGDHSIALSTVGAFAYHYA-DGYVIWIDAHADLNLPSKSLTGNFHGMPLAIllnlegianehfkWL-RKTLNPKKLIYIGLRDI 175
                              *******************97.59*****************************************999.8999************* PP

                              CSHHHHHHHHTTSEEEEHHHHHHHHHHHHHHHHHHHHTCTTSEEEEEEEGGGBBTTTSTSSSS-BSS-B-HHHHHHHHHHHHCHSE CS
                 Arginase 161 dneeyelakelgirvitmreidelglkavveeilervgaeedpvylSfDiDvlDpavaPGtGtpepgGltlrellallrelaekln 246
                              d+ e  ++++l+i+++ +++i ++g++++++ei +  +   +p+++SfDiD +Dp +aP+tG p+  Glt+++l  l ++l ++  
  PHY93_12245|PHY93_12245 176 DPYELSIIDSLNIKTFFYKDILKNGIENIAKEISDITQ--GHPIHISFDIDSIDPIFAPSTGVPVDYGLTPDDLNILSEKLFKNSI 259
                              ************************************96..58**************************************877799 PP

                              EEEEEEE-B-GGGSSTT..THHHHHHHHHHHH CS
                 Arginase 247 lvgaDvvEvnPaldtea..eqtarlaarlvre 276
                              + ++D+vE+nP+l t+   eqt ++a +++ +
  PHY93_12245|PHY93_12245 260 IPSMDIVEINPSLGTNTqvEQTYLIAFNFLKS 291
                              9*************977888999888888777 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (319 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       499  (0.027832); expected 358.6 (0.02)
Passed bias filter:                      401  (0.022366); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.19s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 2401.66
//
Query:       PHY93_12250|PHY93_12250  [L=224]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.2e-19   68.9   0.0    4.5e-19   68.4   0.0    1.2  1  Acyltransferase  Acyltransferase


Domain annotation for each model (and alignments):
>> Acyltransferase  Acyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.4   0.0   2.5e-23   4.5e-19       5     134 ..      44     164 ..      39     165 .. 0.91

  Alignments for each domain:
  == domain 1  score: 68.4 bits;  conditional E-value: 2.5e-23
          Acyltransferase   5 tglenlpekgpailvaNHqsylDvlllwlllyksngprnvviiakkellsipllgflmrllgfifidRksnaraagslenise.ll 89 
                               g + ++++gp ++v NH sylD+++l +        +++ +++kke++++p++g ++ ++++if++R++  ++ ++ ++i++ l+
  PHY93_12250|PHY93_12250  44 LG-KPINHNGPTLFVGNHISYLDIPILLYSC------PEISFVSKKEVKTWPVFGKVAVKMQTIFVERNNSLSRTTAKAEITKsLI 122
                              55.678899********************77......8******************************988888888888888688 PP

          Acyltransferase  90 eegklvviFPEGtrsregellpfkkGlvrlaakakkgvpivPvai 134
                              e+++ +viFP+Gt+s + ++  +kkG++++a+k   ++ + P+ i
  PHY93_12250|PHY93_12250 123 ERNQKLVIFPSGTTSIN-STSSWKKGAFEIAEKN--DIWVQPFRI 164
                              88888********9999.899*************..**9999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (224 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       455  (0.0253779); expected 358.6 (0.02)
Passed bias filter:                      285  (0.015896); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.36
# Mc/sec: 1855.18
//
Query:       PHY93_12255|PHY93_12255  [L=353]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.9e-41  142.8   0.1    6.9e-41  140.9   0.1    1.8  1  Peptidase_M14  Zinc carboxypeptidase
    4.5e-05   22.7   0.0    6.8e-05   22.1   0.0    1.4  1  AstE_AspA      Succinylglutamate desuccinylase / Aspartoacyla


Domain annotation for each model (and alignments):
>> Peptidase_M14  Zinc carboxypeptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  140.9   0.1   7.7e-45   6.9e-41       2     288 ..     104     345 ..     103     346 .. 0.90

  Alignments for each domain:
  == domain 1  score: 140.9 bits;  conditional E-value: 7.7e-45
                              HHHHHHHHHHSTTTEEEEEEEE-TTS-EEEEEEE-SSTTSTTST-CEEEEEE-SSTT-HHHHHHHHHHHHHHHHHTTTSHHHHHHH CS
            Peptidase_M14   2 eayldalaarypdlvrlvsiGkSvegRplkvlkisssateaeegkpvvlidggiHarEwigsalllylleqLlsaYgedeeikell 87 
                              e+ l+++ ++y dl++l + G++  gR+l++lkiss+++   ++kp++++++ +H++E ++ ++l+ ll+++l  Yg+d++ ++++
  PHY93_12255|PHY93_12255 104 ERDLNTIVTTYKDLASLETYGTTKGGRKLYALKISSPNKNRLTNKPEIMVTAATHGDELVTVEVLFSLLNEMLAGYGKDSRFTKMI 189
                              56788999****************************************************************************** PP

                              HHEEEEEES-STHHHHHHHHHT-TTTTST-SBCTTSSSBS--GGGSSSSSTTSSSSBSSTTSTTBHHSSTT.SHHHHHHHHHHHHT CS
            Peptidase_M14  88 ddtdiyilpvlNPDGyeysstedrlwrknrsnakessceGvDlnRnFpdlwnsegastspcsetyrgpapfsepetravlefiqkk 173
                              d  diy++pv+ PD +e+           r   +     G+D+nR Fp+        ++ ++ t           ++ +++f + +
  PHY93_12255|PHY93_12255 190 DGRDIYFIPVVSPDSFEVRE---------R-YVQ-----GLDPNRSFPWP-------ENINNRT--------VDCIQGLMDFSNAH 245
                              *****************999.........4.445.....9*******877.......3333333........678999******** PP

                              TEEEEEEEEESSSEEEESHSSSS---SS-TTHHH.HHHHHHHHHHHHCHTTTTEEE-EEEEEHHHHT---SS-HHHHHHHHTT-SE CS
            Peptidase_M14 174 nivlfidlhsysqvilypygstrdeispppddee.lkslarkyaealqkmvrgteylsegitngaliyeasggmddwayertgvkf 258
                               + +++dlh+y++++++p+g+t++  +p+p+de+ lk l +++a  +++        ++g+++ + iy a+g+++d+ y +++   
  PHY93_12255|PHY93_12255 246 HFMGSLDLHAYGKLVMFPWGYTES--APSPKDEVlLKDLVQSMARDNRY--------TAGQISTT-IYIAKGSSADYFYWKKNT-Q 319
                              ***********************8..99999999677777777777655........67855555.*************88888.* PP

                              EEEEEESSSSSSTTS--GGGHHHHHHHHHH CS
            Peptidase_M14 259 eytlelrdegkqgflppasqiepeaeenwe 288
                              ++++el d++    +p  + i+++++e +e
  PHY93_12255|PHY93_12255 320 AIAVELADQK----VPAYNAIPKVVTEARE 345
                              **********....9999*****9999876 PP

>> AstE_AspA  Succinylglutamate desuccinylase / Aspartoacylase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.1   0.0   7.6e-09   6.8e-05       3     110 ..     149     257 ..     147     351 .. 0.75

  Alignments for each domain:
  == domain 1  score: 22.1 bits;  conditional E-value: 7.6e-09
                              -EEEEEE-SSTT-HHHHHHHHHHHHHHHCCC.........ESC.CEEEEEESSHHHHHCTSSSSSTT-S-CTTTTTCCCCCSSTCH CS
                AstE_AspA   3 pkvlisAGvHGnElaGvellrqllkqleead.........ilg.eitlvplaNppAiaagsRyipidredLNRaFpgrslgrslde 78 
                              p ++++A++HG+El  ve+l  ll+++ ++          i g +i  +p++ p  ++  +Ry++    d NR+Fp  ++      
  PHY93_12255|PHY93_12255 149 PEIMVTAATHGDELVTVEVLFSLLNEMLAGYgkdsrftkmIDGrDIYFIPVVSPDSFEVRERYVQ--GLDPNRSFPWPENI----- 227
                              889***********************999887767766664441566789***************..999*****987777..... PP

                              HHHHHHHHHHHHHHCHCTC.CCGCEEEEEEEES CS
                AstE_AspA  79 alrateaerladalfaaal.peadivlDLHtgt 110
                                  +++  + + l + ++ +++   lDLH  +
  PHY93_12255|PHY93_12255 228 ---NNRTVDCIQGLMDFSNaHHFMGSLDLHAYG 257
                              ...445555555554444447777778888655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (353 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       389  (0.0216967); expected 358.6 (0.02)
Passed bias filter:                      322  (0.0179597); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.20s 00:00:00.70 Elapsed: 00:00:00.38
# Mc/sec: 2775.44
//
Query:       PHY93_12260|PHY93_12260  [L=452]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      1e-26   93.4   0.8    1.8e-13   50.6   0.1    2.6  2  PLDc_2    PLD-like domain
      2e-05   24.6   2.0       0.01   16.0   0.4    2.6  2  PLDc      Phospholipase D Active site motif
  ------ inclusion threshold ------
      0.044   13.3   0.2       0.54    9.8   0.0    2.2  2  FAM83     FAM83 A-H


Domain annotation for each model (and alignments):
>> PLDc_2  PLD-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.6   0.1     3e-17   1.8e-13       3     132 ..      54     193 ..      53     195 .. 0.71
   2 !   40.5   0.0   3.7e-14   2.2e-10      17     130 ..     287     410 ..     273     412 .. 0.78

  Alignments for each domain:
  == domain 1  score: 50.6 bits;  conditional E-value: 3e-17
                   PLDc_2   3 qliksAkksidiatyyf.vsdre....ildallkaakrgvkvrilldskkd..dagavdeaslkelkellleagvevrvfet.... 77 
                              +l ++Ak +i+i tyy  +  +     ++++l+ka++rgv+vri++   ++  +++++ + ++  ++ +  ++   v  +++    
  PHY93_12260|PHY93_12260  54 DLVRHAKNHIHIMTYYWdK--KGypieLIRELKKAHERGVDVRIMTTY-IPslTMDFWGKSKKELFAGYDKNNSSAVLAYMRmapg 136
                              57789************42..2223336******************97.6678444444444444444433333333333322233 PP

                   PLDc_2  78 ll....gslHaKlylidgktvivGSsNltkrgldlnlElnvviedkelakeleeeFerl 132
                               +    + +H+K++l+dg+ +i+G+ N++++ +++  +l v++e++ ++++++e+F+++
  PHY93_12260|PHY93_12260 137 NNesitNNIHEKVFLVDGEKAILGGRNISDNDFRAK-DLEVMLEGE-IVNQVQEHFKKM 193
                              113456789************************776.999999987.799999999876 PP

  == domain 2  score: 40.5 bits;  conditional E-value: 3.7e-14
                   PLDc_2  17 yyfvsdreildallkaakrgvkvrilldskkd.................dagavdeaslkelkellleagvevrvfetllgslHaK 85 
                              y++++++   + l k  ++g+ + i+++s ++                 +  +      ++l ++ +e+g + ++       lH+K
  PHY93_12260|PHY93_12260 287 YFIIPTERYKNYLEKNLAEGKSIDIITNSITTaaaisnkgylyglpemhNLVGLGLNLHQWLGTK-QEEGKD-KL-----FYLHEK 365
                              55567777777888899***********9666777776666666666554444444555555555.555555.22.....458*** PP

                   PLDc_2  86 lylidgktvivGSsNltkrgldlnlElnvviedkelakeleeeFe 130
                              ++l+d++  i+GS+N+ + +++   E+ v++ ++++++ l+e F+
  PHY93_12260|PHY93_12260 366 VMLFDDDHGIIGSHNFGAGSTSVSSEISVEFFSRPIVQVLNEVFD 410
                              ********************************************8 PP

>> PLDc  Phospholipase D Active site motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.5   0.1   0.00082       4.9       6      26 ..     146     166 ..     142     167 .. 0.89
   2 !   16.0   0.4   1.7e-06      0.01       3      24 ..     360     381 ..     358     385 .. 0.89

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.00082
                              ---EEEETTTEEEEE---SSH CS
                     PLDc   6 HqKivivDdrvafvGgaNLcd 26 
                              H+K + vD++ a++Gg N+ d
  PHY93_12260|PHY93_12260 146 HEKVFLVDGEKAILGGRNISD 166
                              ****************99877 PP

  == domain 2  score: 16.0 bits;  conditional E-value: 1.7e-06
                              BEE---EEEETTTEEEEE---S CS
                     PLDc   3 gthHqKivivDdrvafvGgaNL 24 
                              + +H+K + +Dd++ ++G+ N+
  PHY93_12260|PHY93_12260 360 FYLHEKVMLFDDDHGIIGSHNF 381
                              689****************997 PP

>> FAM83  FAM83 A-H
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.0   9.1e-05      0.54     213     269 ..     139     194 ..     130     196 .. 0.89
   2 ?    1.1   0.1      0.04   2.4e+02     219     258 ..     362     402 ..     358     416 .. 0.77

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 9.1e-05
                    FAM83 213 kkvkGqlkekfllvDgekvlsGsYsftWsssrlhrnlvtvltGqvvesFdeeFreLY 269
                              ++++ +++ek  lvDgek++ G    +  + r +  l ++l+G++v++  e F++++
  PHY93_12260|PHY93_12260 139 ESITNNIHEKVFLVDGEKAILGGRNISDNDFRAK-DLEVMLEGEIVNQVQEHFKKMF 194
                              5678899*******************99999975.677899**************99 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.04
                    FAM83 219 lkekfllvDgekvlsGsYsftWsssrlhrnl.vtvltGqvv 258
                              l+ek +l D ++ + Gs  f   s+ + +++ v  ++  +v
  PHY93_12260|PHY93_12260 362 LHEKVMLFDDDHGIIGSHNFGAGSTSVSSEIsVEFFSRPIV 402
                              689*****************988888877762444555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (452 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       554  (0.0308997); expected 358.6 (0.02)
Passed bias filter:                      371  (0.0206927); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.23s 00:00:00.72 Elapsed: 00:00:00.38
# Mc/sec: 3582.44
//
Query:       PHY93_12265|PHY93_12265  [L=848]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-47  161.8   1.6    1.2e-47  161.8   1.6    3.0  3  E1-E2_ATPase     E1-E2 ATPase
    4.9e-29  101.3   6.8    4.9e-29  101.3   6.8    2.6  3  Cation_ATPase_C  Cation transporting ATPase, C-terminus
    1.1e-20   74.8   0.0    6.5e-20   72.3   0.0    2.1  1  Hydrolase        haloacid dehalogenase-like hydrolase
    4.8e-09   35.8   0.0    1.1e-08   34.6   0.0    1.6  1  Cation_ATPase_N  Cation transporter/ATPase, N-terminus
    3.2e-06   27.1   0.3      0.012   15.4   0.1    2.4  2  Hydrolase_3      haloacid dehalogenase-like hydrolase
     0.0024   18.3   0.0     0.0044   17.4   0.0    1.4  1  HAD              haloacid dehalogenase-like hydrolase
  ------ inclusion threshold ------
      0.064   13.2   0.0        2.2    8.2   0.0    2.3  2  AhpC-TSA         AhpC/TSA family
        5.8    6.4  11.5       0.14   11.6   2.5    2.6  2  Peptidase_A22B   Signal peptide peptidase


Domain annotation for each model (and alignments):
>> E1-E2_ATPase  E1-E2 ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  161.8   1.6   5.4e-51   1.2e-47       2     181 .]     110     290 ..     109     290 .. 0.99
   2 ?   -2.8   0.0       1.7   3.9e+03      94     149 ..     622     677 ..     619     681 .. 0.75
   3 ?    3.4   0.5     0.022        49     106     158 ..     772     823 ..     742     833 .. 0.83

  Alignments for each domain:
  == domain 1  score: 161.8 bits;  conditional E-value: 5.4e-51
                              SS--EEEEE-TTS-EEEEGGG--TTSEEEEETT-B--SEEEEEEE-S.EEE-TTTS---S-EE-G-TTEE-TT-EEEE-EEEEEEE CS
             E1-E2_ATPase   2 llpptakvirdgteeeidakelvpGDivllkagdrvpaDgrivegsa.evdesaLTGEslpvekekgdmvfsGtvvvsgeakavVt 86 
                              l++p+a vir+gt+ +i+ +e+v  Di+++++gdrvpaD+ ++++s+  +des+LTGEs pv k+ g+++f++t+vv+g+ +avVt
  PHY93_12265|PHY93_12265 110 LSSPRALVIRNGTQIRIAGREVVREDIIFINEGDRVPADATLISSSNmAIDESLLTGESIPVAKQVGSKIFASTTVVRGQGIAVVT 195
                              7899********************************************************************************** PP

                              E-TTTSTTTTTSTTS--------HHHHHHHHHHHHHHHHHHHHHHHHHHS-STTTSSTTHHHHHHHHHHHHHS-TTHHHHHHHHHH CS
             E1-E2_ATPase  87 atgedtelgkiarlveeakskktplqkkldklgkvlvpvvlliallvflialllgkslaeallralallvaaiPcaLplavplala 172
                              a+g +t++gki ++++e +   t+l+++ ++l+k l++++l++++lv+++  ++ ++++   l +l+l +a++P  Lp+++++ +a
  PHY93_12265|PHY93_12265 196 AIGLNTQIGKIGSSIQEIEIISTRLEQQTNQLVKRLAWLALFLCILVVIVYSVKHHNWIAGSLIGLSLGMAILPNELPAVLTIFFA 281
                              ************************************************************************************** PP

                              HHHHHHHHT CS
             E1-E2_ATPase 173 lgarrlakk 181
                              +ga+rlak+
  PHY93_12265|PHY93_12265 282 MGAWRLAKR 290
                              *******96 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 1.7
                              TTTTSTTS--------HHHHHHHHHHHHHHHHHHHHHHHHHHS-STTTSSTTHHHH CS
             E1-E2_ATPase  94 lgkiarlveeakskktplqkkldklgkvlvpvvlliallvflialllgkslaeall 149
                              ++ i++++++ ++  t++++ l  l+++ +p++ + +l v+l ++l+  ++  all
  PHY93_12265|PHY93_12265 622 FSSIVEAIRTGRRVYTNIKNALIYLFAIHIPIAGMSVLPVLLGLPLVLLPAHIALL 677
                              67889999999999999999998888888888888777777776666666655555 PP

  == domain 3  score: 3.4 bits;  conditional E-value: 0.022
                              ----HHHHHHHHHHHHHHHHHHHHHHHHHHS-STTTSSTTHHHHHHHHHHHHH CS
             E1-E2_ATPase 106 skktplqkkldklgkvlvpvvlliallvflialllgkslaeallralallvaa 158
                              s k++++ k + ++k+++++++++++lv+ +  l ++  ++++l+ +++++++
  PHY93_12265|PHY93_12265 772 SLKSKFKSKPNDIVKWIMIASIVMLALVLYVPSL-REIMRFSFLHPIDIIICM 823
                              6689999999********9999999888888655.555568888888877765 PP

>> Cation_ATPase_C  Cation transporting ATPase, C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.2       2.5   5.6e+03     126     138 ..      79      91 ..      61     104 .. 0.55
   2 ?    0.4   0.9       0.2   4.5e+02     124     165 ..     228     269 ..     207     288 .. 0.57
   3 !  101.3   6.8   2.2e-32   4.9e-29       1     179 [.     666     836 ..     666     839 .. 0.96

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 2.5
          Cation_ATPase_C 126 kllllaillslll 138
                               ++lla+l+ ++ 
  PHY93_12265|PHY93_12265  79 AIMLLAFLFLIIG 91 
                              3344444444333 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.2
          Cation_ATPase_C 124 snkllllaillslllqvlivyvpglnavf.gtaplsleewlia 165
                               ++l++la++l++ l+v++  v + n++  ++  lsl + ++ 
  PHY93_12265|PHY93_12265 228 VKRLAWLALFLCI-LVVIVYSVKHHNWIAgSLIGLSLGMAILP 269
                              4567888888888.44444444566666423445555555555 PP

  == domain 3  score: 101.3 bits;  conditional E-value: 2.2e-32
          Cation_ATPase_C   1 plplsaiqiLwinLvtDllpalaLaleppekdimkrpPrkkkepliskkmlrriliqgllqalvtllvffltlllfgisekenkls 86 
                              pl+l + +i +++L+++   ++a+ +ep++ dim+++Pr+++epl++++++  +l+ g++++++   v+f+ l+ ++ +++     
  PHY93_12265|PHY93_12265 666 PLVLLPAHIALLHLIIEPASSIAFEVEPASIDIMSKKPRSPSEPLFNNEIWHSSLLRGITLFVALASVYFISLKRNQGEAE----- 746
                              789**********************************************************************96655553..... PP

          Cation_ATPase_C  87 snyaqtmaFitlvlsqifnalnlrsrreslfkfsglfsnkllllaillslllqvlivyvpglnavfgtaplsleewlialllalvv 172
                                 a+t++F tl+l+++f ++ +r ++ sl +  + + n ++ +++++s+++++l++yvp l+++++++ l + + +i++l++l++
  PHY93_12265|PHY93_12265 747 ---ARTLVFSTLILANVFLIFLSRGSKISLKSKFKSKPNDIVKWIMIASIVMLALVLYVPSLREIMRFSFLHPIDIIICMLVSLAS 829
                              ...9*********************9999999888889************************************************ PP

          Cation_ATPase_C 173 llvdelv 179
                              +++ el+
  PHY93_12265|PHY93_12265 830 TFLSELF 836
                              ***9986 PP

>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.3   0.0   2.9e-23   6.5e-20       1     208 [.     306     594 ..     306     596 .. 0.61

  Alignments for each domain:
  == domain 1  score: 72.3 bits;  conditional E-value: 2.9e-23
                              SSEEEEESBTTTBCHHHHHHHHHHHH...CHHHHHHHHHH..HHCHHHHHHHHHHHHH....HHHHHHHHHETTTE.......... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxx..xxxxxxxxxxxxxxxx....xxxxxxxxxxxxxx.......... RF
                Hydrolase   1 iktvvfDkdGTLttgepsvedvivsa...alalaaaletg..sehpigkalvaaakar....sgaltgfatfigrg.......... 67 
                              i++++ Dk+GTLt  ++ + +++ +    +l+++ +l +       +   + a  k+     + a t+ +                
  PHY93_12265|PHY93_12265 306 ITVLCVDKTGTLTLNQMAIQKIYSQEqviDLSESDVLSLPeeFHETLEFGILASRKDPfdpmELAFTSAGL----Kflkgtehlhh 387
                              6799*****************99999777444444444444322222223333333333222111111111....12222223333 PP

                              ................................................HHHHTHHHHHHHHHCHHHHHHHHHHHHHHCHHHHHH.. CS
                              ................................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.. RF
                Hydrolase  68 ................................................ayaigkpewltaldippdlgaaigsaqsqgrtvall.. 103
                                                                                                                 +  
  PHY93_12265|PHY93_12265 388 dwnlekeyplspellsithawktslgggfvigakgaheaiidlchmndD----------------------------------Qmi 439
                              3333333334443333333344444443554444455555544444442..................................033 PP

                              ....................................TTHHHHHHHHHHTHHBHTTHHHHHHHHHHTTEEEEEEESSEHHHHHHHHH CS
                              ....................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 104 ....................................qaralavftiadplkvkpeaaeavasLkaagievvlltgdnpetaeraan 153
                                                                  +   l+++ i dp  ++ +++e + + ++agi+v++ltgd+p ta ++a+
  PHY93_12265|PHY93_12265 440 kikqraeemaamglrvlgvakshlessqlpsrqhdfEFTFLGLIGITDP--IRSGIKESISECHSAGIRVIMLTGDHPLTASSIAK 523
                              333333333333455555555555555555555555579**********..*********************************** PP

                              HTT............GGGE.SEEEEHHCES.......STTTSHHHHHHHHHHHTSTGGGEEEEESSHHHHHHHHH CS
                              xxx............xxxx.xxxxxxxxxx.......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 154 qlG............ddyf.daviasdiet.......vakpspegkvaaireLqgkpeevamVGDgvnDaaalaa 208
                              ++G            ++ + d ++     +       ++ + p++k+++++ L+  +e vam GDgvnDa+al+ 
  PHY93_12265|PHY93_12265 524 KIGlqnptqvitgiqMESLsDSELV----EltkkmsvFSRVMPSQKLRLVESLKKAGEIVAMTGDGVNDAPALKS 594
                              ***9888777665552222233333....14555999*****************88888**************96 PP

>> Cation_ATPase_N  Cation transporter/ATPase, N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.6   0.0   5.1e-12   1.1e-08      20      68 ..      21      69 ..      15      70 .. 0.97

  Alignments for each domain:
  == domain 1  score: 34.6 bits;  conditional E-value: 5.1e-12
          Cation_ATPase_N 20 GLtqaeaaerlkkyGpNelkekkkkslwvkllkqftnplvilLlvaalv 68
                             GL+ + + +r+++ G Nel+  k+k ++ ++++ ++ p+v+lLl ++l+
  PHY93_12265|PHY93_12265 21 GLSLSLILQRQEQEGLNELPSSKPKKIYSFFFDVLKEPMVYLLLGCGLI 69
                             9*********************************************997 PP

>> Hydrolase_3  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.4   0.0   0.00035      0.79      16      58 ..     489     531 ..     482     549 .. 0.87
   2 !   15.4   0.1   5.4e-06     0.012     195     255 .]     568     629 ..     564     629 .. 0.85

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.00035
                              --HHHHHHHHHHHHTTSEEEEE-SS-HHHHHHHHHHCCCCSEE CS
              Hydrolase_3  16 isektkeaikklkekgikvviATGRslravlpvleelgldlpv 58 
                              i   +ke i +++++gi v+  TG ++ +++++++++gl++p 
  PHY93_12265|PHY93_12265 489 IRSGIKESISECHSAGIRVIMLTGDHPLTASSIAKKIGLQNPT 531
                              556789********************************99554 PP

  == domain 2  score: 15.4 bits;  conditional E-value: 5.4e-06
                              HHHHCT--GGGEEEEESSGGGHHHHHHSSEEEEET.TS-HHHHHHSSEEE--GGGTHHHHHH CS
              Hydrolase_3 195 lakelnisleeviafGDgeNDieMLeaaglgvAmg.naseevkkaAdyvtksnnedGVakal 255
                              l++ l+   e v+  GDg ND + L+ + +g+Amg  +++ + + +d v  + + +++++a+
  PHY93_12265|PHY93_12265 568 LVESLKKAGEIVAMTGDGVNDAPALKSSHIGIAMGgRGTDVARESSDIVLLDDDFSSIVEAI 629
                              77888888999999********************7378888888888888887778888876 PP

>> HAD  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.0     2e-06    0.0044      88     188 .]     488     593 ..     457     593 .. 0.80

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 2e-06
                      HAD  88 p...galellaahraaGdrvvvvSgglrplvepllaelg...adevlat.elevdd.....rltgelglegkpvrgegkvaalrew 161
                              p   g++e ++++++aG+rv++++g +   +  ++++ g   + +v+   ++e+        lt++  ++  +    +k++ +++ 
  PHY93_12265|PHY93_12265 488 PirsGIKESISECHSAGIRVIMLTGDHPLTASSIAKKIGlqnPTQVITGiQMESLSdselvELTKKMSVFSRVMPS-QKLRLVES- 571
                              3444999****999*************************9997777666566666667899999997777776666.77777777. PP

                      HAD 162 laaegegidleevvay.GDspsDlpllr 188
                              l+++g     e +va  GD+++D p+l+
  PHY93_12265|PHY93_12265 572 LKKAG-----E-IVAMtGDGVNDAPALK 593
                              33333.....3.66666*********96 PP

>> AhpC-TSA  AhpC/TSA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.2   0.0   0.00099       2.2      38      87 ..     431     480 ..     428     481 .. 0.90
   2 ?    2.3   0.0     0.064   1.4e+02      48      90 ..     493     545 ..     489     563 .. 0.83

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.00099
                              -CCHHHHHHHHHHCHHHCCCTTEEEEEEESSSCHHHHHHHHH-H.SSEEE CS
                 AhpC-TSA  38 cpvCttelpalaklyeefkergvevigvsvdspeshkkfiekeslnfpll 87 
                              c    +++ ++++++ee+++ g+ v+gv    +es++   ++++++f+ l
  PHY93_12265|PHY93_12265 431 CHMNDDQMIKIKQRAEEMAAMGLRVLGVAKSHLESSQLPSRQHDFEFTFL 480
                              5666789******************************9999999999876 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.064
                              HHHCHHHCCCTTEEEEEEESSSCHHHHHHHHH-H...........SSEEEE-T CS
                 AhpC-TSA  48 laklyeefkergvevigvsvdspeshkkfiekes..........lnfpllsDe 90 
                              +++ + e +++g+ vi+++ d p +  + ++k++          ++++ lsD+
  PHY93_12265|PHY93_12265 493 IKESISECHSAGIRVIMLTGDHPLTASSIAKKIGlqnptqvitgIQMESLSDS 545
                              567788999************************97777777777777777774 PP

>> Peptidase_A22B  Signal peptide peptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   2.5   6.4e-05      0.14      83     125 ..     224     268 ..      50     282 .. 0.74
   2 ?   -1.3   1.8      0.56   1.3e+03      13      53 ..     783     826 ..     725     845 .. 0.63

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 6.4e-05
                              X.XXXXXXXXXXXXX------S--XXXX.XXXXXXXXXXXXXXXX CS
           Peptidase_A22B  83 a.ielkaaeivalllsiviavlwllkrh.wilndilglalailvi 125
                              + + +k+   +al l+i +++++ +k+h wi+  ++gl+l ++++
  PHY93_12265|PHY93_12265 224 TnQLVKRLAWLALFLCILVVIVYSVKHHnWIAGSLIGLSLGMAIL 268
                              2355677888999*************999**********998765 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 0.56
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXX....XXXXXXXXXXX CS
           Peptidase_A22B  13 eaillpitaslvlllLylffkslakeflvv....lltvlivllgv 53 
                              + ++ +++as+v+l+L l + sl++  +       + ++i++l  
  PHY93_12265|PHY93_12265 783 DIVKWIMIASIVMLALVLYVPSLRE-IMRFsflhPIDIIICMLVS 826
                              4566677777777777777766533.2222111111222222222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (848 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1074  (0.059903); expected 358.6 (0.02)
Passed bias filter:                      645  (0.0359752); expected 358.6 (0.02)
Passed Vit filter:                        64  (0.00356964); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.77u 0.26s 00:00:01.03 Elapsed: 00:00:00.40
# Mc/sec: 6285.44
//
Query:       PHY93_12270|PHY93_12270  [L=283]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    7.9e-22   78.3   0.0    1.7e-09   38.3   0.0    2.2  2  Usp          Universal stress protein family
  ------ inclusion threshold ------
      0.029   14.4   0.0        2.9    8.0   0.0    2.5  2  B12-binding  B12 binding domain
        0.2   12.2   3.0       0.68   10.5   0.3    2.3  2  DUF16        Protein of unknown function DUF16


Domain annotation for each model (and alignments):
>> Usp  Universal stress protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.9   0.0   3.8e-13   2.3e-09      33     140 ..      34     143 ..      19     144 .. 0.71
   2 !   38.3   0.0   2.8e-13   1.7e-09       4     139 ..     156     282 ..     155     283 .] 0.86

  Alignments for each domain:
  == domain 1  score: 37.9 bits;  conditional E-value: 3.8e-13
                              EEEEEEEESSHCCCCCCCHHHHHHHHHHHHHHHHHHHH..HHHHHHCTTCEEEEEEEESSHHHHHHHHHHHTTSSEEEEESCCSST CS
                      Usp  33 lillhvidprasgavsdadeeaeeeeleleeaeleada..akaaaeaggvkvevvveegdpaeeilevaeeedadliVvGsrgrsg 116
                              l +++v +    + +     ++e+  +++ ++  + +   +  +  + +v  e  +   +   + +e+ ++++ dliV++s g++ 
  PHY93_12270|PHY93_12270  34 LEVVYVASNAQAELATSFSIPVEKRYSDYPKKIIKDQLkkLSLKNIKIEVLFEKSLSLTSIVKKVVEYTKKNKTDLIVIASNGKKF 119
                              66666666666666666666666555555555554443322222222223334445556788899********************* PP

                              TTTCSSBHHHHHHHHHTSSEEEEE CS
                      Usp 117 lsrlllGSvseyvlrhapcpVlvV 140
                              l r++lGS++e++++ + c++l++
  PHY93_12270|PHY93_12270 120 LPRFVLGSFAESIVHMSACDLLIY 143
                              **********************97 PP

  == domain 2  score: 38.3 bits;  conditional E-value: 2.8e-13
                              EEEEEE-SSHHHHHHHHHHHHHHHHCTSEEEEEEEEESSHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCTTCEEEEEEEES CS
                      Usp   4 rIlVavDgseeskkAlewAlelakargaelillhvidprasgavsdadeeaeeeeleleeaeleadaakaaaeaggvkvevvveeg 89 
                              +I++a D+s+     le+ ++ a + +++l+++h+  p+a g   ++++e  e++ ++ e+ le+       ++ + +  ++    
  PHY93_12270|PHY93_12270 156 NIVYAHDFSPKGSIGLEKIIAYATKWNSTLTIVHIPVPEA-GIDFQEFKEITEKRVQKVEKSLEK-------QKVKCNIYLEYDIR 233
                              79********************************766555.555555555555555555555543.......56999********* PP

                              SHHHHHHHHHHHTTSSEEEEESCCSSTTTTCSSBHHHHHHHHHTSSEEEE CS
                      Usp  90 dpaeeilevaeeedadliVvGsrgrsglsrlllGSvseyvlrhapcpVlv 139
                              +  e++l+va + +ad+i v +   ++ls ll GS +++vlr++  p+l+
  PHY93_12270|PHY93_12270 234 PIIETLLDVAAKTKADIIAVTAQS-NKLSALLGGSITRQVLRESLLPTLI 282
                              ************************.*******************999998 PP

>> B12-binding  B12 binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   0.0    0.0099        59      12      99 ..      16     125 ..      13     135 .. 0.61
   2 ?    8.0   0.0   0.00048       2.9      22      66 ..     215     261 ..     210     276 .. 0.83

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.0099
              B12-binding  12 lhplGlavlaaalrd.agfeVqllganven......................edivaairaekpdv.vglSalltsqleavkelve 73 
                              +++lG+++l +++++ +  eV+++  n+++                      +d ++++   +  + v++   + s  + vk++ve
  PHY93_12270|PHY93_12270  16 MYNLGKDLLNNCFSKkDSLEVVYVASNAQAelatsfsipvekrysdypkkiiKDQLKKLSLKNIKIeVLFEK-SLSLTSIVKKVVE 100
                              677788888888877447788888777776667777777777776666444433333333333444334433.3344456678888 PP

              B12-binding  74 llkrirprvkvvvGGahpsldpeetl 99 
                                k+++ +++v++      ++p+++l
  PHY93_12270|PHY93_12270 101 YTKKNKTDLIVIASNGK-KFLPRFVL 125
                              87777777777777643.67666665 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.00048
              B12-binding  22 aalrdagfeVq.llganven..edivaairaekpdvvglSalltsqle 66 
                                l+++ +++  +l++++ +  e++++ ++++k+d+++++a  + +l+
  PHY93_12270|PHY93_12270 215 KSLEKQKVKCNiYLEYDIRPiiETLLDVAAKTKADIIAVTA-QSNKLS 261
                              56777777776588999999*******************99.666555 PP

>> DUF16  Protein of unknown function DUF16
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   0.2     0.054   3.2e+02      37      75 ..      68     106 ..      42     121 .. 0.61
   2 ?   10.5   0.3   0.00011      0.68      24      52 ..     198     226 ..     194     271 .. 0.74

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.054
                              HHHHHHHH...HHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                    DUF16  37 kkieakvdklgeqinkleqkvekqgekikelkveqkaqg 75 
                              k+  +k++ ++ +i++l +k   ++  +k+  +  k+ +
  PHY93_12270|PHY93_12270  68 KDQLKKLSLKNIKIEVLFEKSLSLTSIVKKVVEYTKKNK 106
                              334444445555555555555555555555444444443 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 0.00011
                              HHHHB-..BHHHHHHHHHHHH...HHHHH CS
                    DUF16  24 qlnefkdsnkqrLkkieakvdklgeqink 52 
                              +++efk+ +++r++k+e+ ++k++++ n 
  PHY93_12270|PHY93_12270 198 DFQEFKEITEKRVQKVEKSLEKQKVKCNI 226
                              69*********************999885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (283 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1036  (0.0577835); expected 358.6 (0.02)
Passed bias filter:                      551  (0.0307323); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.37
# Mc/sec: 2285.96
//
Query:       PHY93_05725|PHY93_05725  [L=109]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.6e-26   91.5  25.3    5.1e-26   91.4  25.3    1.0  1  Phage_holin_4_2  Mycobacterial 4 TMS phage holin, superfamily


Domain annotation for each model (and alignments):
>> Phage_holin_4_2  Mycobacterial 4 TMS phage holin, superfamily IV
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   91.4  25.3   2.8e-30   5.1e-26       3     105 .]       4     106 ..       2     106 .. 0.98

  Alignments for each domain:
  == domain 1  score: 91.4 bits;  conditional E-value: 2.8e-30
          Phage_holin_4_2   3 fllrllvnalallvaalllpgvevasfltallaalvlgllnalvkpilkllslpltiltlGlftlvinalmlllaaalvsgfevdg 88 
                              +ll +++++++ll++++++pg+ +++f++al+a++++g+ln++ +pil +++lp++iltlGlft+v+na++l ++a++++gfe++ 
  PHY93_05725|PHY93_05725   4 WLLIWFLTSAVLLLTSYFVPGFIISGFSSALIASVLIGILNIFFRPILLFFTLPINILTLGLFTFVVNAIILKMTAFFLKGFEIKT 89 
                              899**************99***9*************************************************************** PP

          Phage_holin_4_2  89 fwsallgaliisvvsav 105
                              +++a+++a++is+v+++
  PHY93_05725|PHY93_05725  90 WLAAIIAAVFISIVQSI 106
                              **************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (109 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       960  (0.0535445); expected 358.6 (0.02)
Passed bias filter:                      212  (0.0118244); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.38u 0.20s 00:00:00.58 Elapsed: 00:00:00.35
# Mc/sec: 940.12
//
Query:       PHY93_12275|PHY93_12275  [L=505]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
   4.5e-172  572.9   0.1   5.1e-172  572.7   0.1    1.0  1  PEPCK_ATP  Phosphoenolpyruvate carboxykinase
  ------ inclusion threshold ------
      0.091   12.8   0.1       0.16   12.0   0.1    1.5  1  TANGO2     Transport and Golgi organisation 2


Domain annotation for each model (and alignments):
>> PEPCK_ATP  Phosphoenolpyruvate carboxykinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  572.7   0.1  5.7e-176  5.1e-172       2     464 ..      12     472 ..      11     473 .. 0.98

  Alignments for each domain:
  == domain 1  score: 572.7 bits;  conditional E-value: 5.7e-176
                              -EEES--HHHHHHHHHHTTS-EE-TTS-EEE--TT--S--GGGEEEE--TTTTTTS-BTTTBEEE-HHHHHHHHHHHHHHHHTS.- CS
                PEPCK_ATP   2 kvirnlsvaeLveealkreegkltstgalvvetgkktgRspkdkfiVedeetedkiwWgkvnkpiseekfealkekvleylkek.e 86 
                              kv++n++ + L+e++l+++eg l  +g lv+ tg +tgRs++dk++V ++ t++kiwW++  +++see f++l+++v++y+k++ e
  PHY93_12275|PHY93_12275  12 KVYKNAHRSLLMEKTLQKNEGALGPEGELVILTGLHTGRSANDKYVVMNNLTKNKIWWENNINEMSEEVFQELRTDVVNYFKSQeE 97 
                              799*********************************************************99********************999* PP

                              EEEEEEEE-SSTTT-EEEEEEES-HHHHHHHHHHSBGGS-S-TTT---SEEEEEETT----HHHH--SSS-EEEEETTTTEEEEES CS
                PEPCK_ATP  87 lyvvdafagadpkyrlkvrviterawqalfvknllirpteeeleefepdftilnapefkadpekdglnsetvvalnlekklvlilg 172
                              l+ +++ +g++++++l +++i ++a +a+f++ ++   + e   ++++d+ il+ap+fk dp+k g++s+tv+++ +++k+++i+g
  PHY93_12275|PHY93_12275  98 LFFTERSIGSSSSFSLGIEFISTQASSAFFTQYMFKPFEGE---AHNDDYKILHAPNFKLDPKKYGTRSKTVIVTCFKEKTTIIVG 180
                              *******************************9999654444...5789************************************** PP

                              ---THHHHHHHHHHHHHHHHHTT-EEEEEEEEE-T.TS-EEEEEE-TTSSHHHHH-BTTB-EEESSEEEE-SS-EEES-SEEEEE- CS
                PEPCK_ATP 173 teYaGEikKsifsvmnyllpkkgvlsmhcsanvgekkgdvalfFGLSGtGKTtLsadperkligdDehgwsdegvfniegGcYaKt 258
                              t+Y+GEikKs+fs+mn+llp  g+l+mh++an ++ ++++ +fFGLSGtGKTtLs+d+  +ligdDehg+sd+g+fn+egGcYaKt
  PHY93_12275|PHY93_12275 181 TMYSGEIKKSMFSIMNFLLPDVGILPMHSGANQNA-DNECFVFFGLSGTGKTTLSTDEGLQLIGDDEHGLSDKGIFNFEGGCYAKT 265
                              **********************************5.5599********************************************** PP

                              TT--TTTSHHHHHHHS.TT-EEES-EE-TTT--EETT--SS-S--EEEEEGGGSSSB-TTSEE--EEEEEEEE--TTS-S-SEEEE CS
                PEPCK_ATP 259 idLskekepeiynair.fgavlENvvldeetrevdfddtslteNtrvaypiehienakeesvaghpkniifLtadafgvlPpvskL 343
                               +Ls e+ep+iy+a + + + lENv+l ++++++df d+ lteN+r++yp+++ien +e++ ++ pkni++L+adafgvlPpvs L
  PHY93_12275|PHY93_12275 266 YKLSPETEPSIYQASNqYSSFLENVKLADDRSSIDFFDDGLTENGRSSYPLSFIENRVESGEGSIPKNIFYLSADAFGVLPPVSLL 351
                              ***************999******************************************************************** PP

                              -HHHHHHHHHH-EEEE-----------EEEE-GGG-GGG-SS-HHHHHHHHHHHHHHH--EEEEEE-SEESSSTTTSEE--HHHHH CS
                PEPCK_ATP 344 tkeqamyhFlsGytakvaGtergvtepeatFsacfgapFlplhpteyaelLaeklekhnakvyLvNtGwtggaygvgkrislkatr 429
                              ++eq+m +F +Gy+ak+ Gte+gv++p+atFs+cfgapF+ +hp +y++lL+e ++k + kv+L+NtGw gg+yg+g+r++lk+tr
  PHY93_12275|PHY93_12275 352 NAEQSMDFFKLGYSAKLGGTEVGVKTPTATFSSCFGAPFMLRHPDVYSNLLKEFITKYKIKVWLINTGWFGGSYGTGTRFPLKVTR 437
                              ************************************************************************************** PP

                              HHHHHHHTTCCCTS-EEE-TTT--EEES-BTTC-G CS
                PEPCK_ATP 430 aiikaildgeleavefekdpvfglevptevpgvps 464
                              +ii++i+ ++l+++ef +d++f+l++p+ ++ v+s
  PHY93_12275|PHY93_12275 438 NIIRQIQADKLTDIEFVNDNIFNLKIPKFIDLVDS 472
                              ****************************9998886 PP

>> TANGO2  Transport and Golgi organisation 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.1   1.8e-05      0.16     172     251 ..      65     182 ..      10     184 .. 0.67

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 1.8e-05
                   TANGO2 172 elveesveekseeelieellellsddtl..lpkdeel..eeleellssif...ippiee........................... 223
                              + + ++   ++ +e+ ee+++ l++d +  ++++eel  +e +   ss f   i+ i++                           
  PHY93_12275|PHY93_12275  65 NKIWWE---NNINEMSEEVFQELRTDVVnyFKSQEELffTERSIGSSSSFslgIEFISTqassafftqymfkpfegeahnddykil 147
                              333333...34566777777777777664333355556633333333333333333332344555555556677888889999999 PP

                   TANGO2 224 .......akkeYGTrtqtvilvdkegkvtfiErtl 251
                                       k+YGTr++tvi+   ++k t+i  t+
  PHY93_12275|PHY93_12275 148 hapnfklDPKKYGTRSKTVIVTCFKEKTTIIVGTM 182
                              9999998778***********99999998886666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (505 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       618  (0.0344693); expected 358.6 (0.02)
Passed bias filter:                      467  (0.0260472); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.22s 00:00:00.78 Elapsed: 00:00:00.39
# Mc/sec: 3870.33
//
Query:       PHY93_12280|PHY93_12280  [L=388]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.17   12.2   0.1        0.4   11.0   0.1    1.7  1  DUF3365   Protein of unknown function (DUF3365)


Domain annotation for each model (and alignments):
>> DUF3365  Protein of unknown function (DUF3365)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.1   2.2e-05       0.4      52     134 ..      49     143 ..       4     160 .. 0.51

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 2.2e-05
                              --GGGGS--SHHHHHHHHT-EEEEE-S..S-SSGGGS--SHHHHHHHHHEE................TEEEEEEEEE-.-TTTHHH CS
                  DUF3365  52 vpayaareiaeefsekrkgysyketsl..nprnprnkpdefEkealeefkk......e.......gervfryarplrv.eesClkC 121
                              + ay++++i  + ++++ +  +k+ ++  + ++ ++++d f +   +  ++      +          ++   ++l+v  + C++C
  PHY93_12280|PHY93_12280  49 PYAYSTKNIEFKNKKEK-EALLKNLTDlsDFFKSAKHADLFQRPGFRPSLEaitnhlDetimsveSDSFIFAQKRLNViGALCVTC 133
                              44555554444444444.3444443332234444455566665555444233333331445555244555555789999******* PP

                              HS-GGG--HHHHH CS
                  DUF3365 122 Hgdpedapkslie 134
                              H++ +++   +++
  PHY93_12280|PHY93_12280 134 HSQLPES---VSK 143
                              *998333...333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (388 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       830  (0.0462937); expected 358.6 (0.02)
Passed bias filter:                      553  (0.0308439); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.38
# Mc/sec: 3076.77
//
Query:       PHY93_12285|PHY93_12285  [L=487]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.8e-51  174.5   4.5    2.3e-51  174.1   4.5    1.2  1  Cation_ATPase_C  Cation transporting ATPase, C-terminus
    2.5e-21   77.0   0.1      4e-21   76.3   0.1    1.4  1  Hydrolase        haloacid dehalogenase-like hydrolase
      3e-11   43.2   0.0    5.7e-11   42.4   0.0    1.5  1  Cation_ATPase    Cation transport ATPase (P-type)
    1.5e-08   34.7   1.5    4.8e-05   23.2   0.4    2.3  2  Hydrolase_3      haloacid dehalogenase-like hydrolase
      1e-05   26.1   0.0    1.9e-05   25.2   0.0    1.5  1  HAD              haloacid dehalogenase-like hydrolase


Domain annotation for each model (and alignments):
>> Cation_ATPase_C  Cation transporting ATPase, C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  174.1   4.5   6.5e-55   2.3e-51       1     182 []     309     479 ..     309     479 .. 0.96

  Alignments for each domain:
  == domain 1  score: 174.1 bits;  conditional E-value: 6.5e-55
          Cation_ATPase_C   1 plplsaiqiLwinLvtDllpalaLaleppekdimkrpPrkkkepliskkmlrriliqgllqalvtllvffltlllfgisekenkls 86 
                              p pl +iqiLw+nLvtD+lp+laLalep+ekdim+rpPrk++e++++ +++ +++++gll+a+vtl ++++++     +       
  PHY93_12285|PHY93_12285 309 PTPLLPIQILWVNLVTDGLPGLALALEPEEKDIMRRPPRKPSENVFAHGLWQHTVWVGLLIAAVTLGTLAWAYH--TGHV-H---- 387
                              78*******************************************************************66665..3333.2.... PP

          Cation_ATPase_C  87 snyaqtmaFitlvlsqifnalnlrsrreslfkfsglfsnkllllaillslllqvlivyvpglnavfgtaplsleewlialllalvv 172
                                 +q+maF++l ++q+ ++l++rs++es+f+  g  +n  l+l +l++l+lq++ +y+p +++vf+t+ l+++e+li++l+++ v
  PHY93_12285|PHY93_12285 388 ---WQSMAFTVLTFVQMGHVLAIRSEKESFFT-LGPGTNFPLFLTVLFTLALQLATLYIPAFRKVFKTEALTMHELLICILVSSSV 469
                              ...9****************************.9999************************************************* PP

          Cation_ATPase_C 173 llvdelvKll 182
                              ++ +e+ K++
  PHY93_12285|PHY93_12285 470 FIAVEIEKWI 479
                              ********97 PP

>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.3   0.1   1.1e-24     4e-21     103     210 .]     111     239 ..      36     239 .. 0.80

  Alignments for each domain:
  == domain 1  score: 76.3 bits;  conditional E-value: 1.1e-24
                              H.....TTHHHHHHHHHHTHHBHTTHHHHHHHHHHTTEEEEEEESSEHHHHHHHHHHTT...........GGGESEEEEHHCES.. CS
                              x.....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...........xxxxxxxxxxxxxx.. RF
                Hydrolase 103 l.....qaralavftiadplkvkpeaaeavasLkaagievvlltgdnpetaeraanqlG...........ddyfdaviasdiet.. 170
                              l     +   l+++ + dp  +++ea+ea++  k+agi+vv++tgd+p+ta+++a  lG                +++     +  
  PHY93_12285|PHY93_12285 111 LsevekDLVFLGLIGLIDP--PRKEAREAIKLCKSAGIQVVMITGDHPSTAKAIALDLGilghlnekvilG----IEL-----Ent 185
                              03333366789999*****..***************************************76666433330....333.....234 PP

                              ..............STTTSHHHHHHHHHHHTSTGGGEEEEESSHHHHHHHHHTT CS
                              ..............xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 171 ..............vakpspegkvaaireLqgkpeevamVGDgvnDaaalaaAg 210
                                             a +  e+k ++++ Lq ++e vam GDgvnDa+al++A+
  PHY93_12285|PHY93_12285 186 seeellkivqetrvYARVASEQKIRIVKALQSSGEIVAMTGDGVNDAPALKKAD 239
                              444677777778999999*************88888****************98 PP

>> Cation_ATPase  Cation transport ATPase (P-type)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.4   0.0   1.6e-14   5.7e-11      27      89 ..       1      61 [.       1      63 [. 0.96

  Alignments for each domain:
  == domain 1  score: 42.4 bits;  conditional E-value: 1.6e-14
            Cation_ATPase 27 ALlvlaeklgldteelreetkkvqeipFnssrKrmsvvlklepekkvrlyvKGApeiilkrCt 89
                             AL+ la ++gl++++l++  ++++e+pF+s+r +ms+++++   ++ +++ KGApe il+ C+
  PHY93_12285|PHY93_12285  1 ALISLALEQGLEIKSLQKFLPRLAELPFSSERAMMSTIHST--GEGSIIFSKGAPEKILSLCK 61
                             89**************************************6..59*****************7 PP

>> Hydrolase_3  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.6   0.0   9.7e-05      0.35      18      54 ..     132     168 ..     128     211 .. 0.86
   2 !   23.2   0.4   1.3e-08   4.8e-05     195     247 ..     211     263 ..     205     272 .. 0.88

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 9.7e-05
                              HHHHHHHHHHHHTTSEEEEE-SS-HHHHHHHHHHCCC CS
              Hydrolase_3  18 ektkeaikklkekgikvviATGRslravlpvleelgl 54 
                              ++++eaik +k++gi+vv  TG ++++++ ++ +lg+
  PHY93_12285|PHY93_12285 132 KEAREAIKLCKSAGIQVVMITGDHPSTAKAIALDLGI 168
                              6899**************************9999986 PP

  == domain 2  score: 23.2 bits;  conditional E-value: 1.3e-08
                              HHHHCT--GGGEEEEESSGGGHHHHHHSSEEEEETTS-HHHHHHSSEEE--GG CS
              Hydrolase_3 195 lakelnisleeviafGDgeNDieMLeaaglgvAmgnaseevkkaAdyvtksnn 247
                              ++k l+ s e v+  GDg ND + L++a++g+Amg +   v   A++v+   +
  PHY93_12285|PHY93_12285 211 IVKALQSSGEIVAMTGDGVNDAPALKKADVGIAMGKGGTDVAREASHVVLLDD 263
                              78999999999******************************999999876555 PP

>> HAD  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.2   0.0   5.2e-09   1.9e-05      52     188 .]      86     236 ..      61     236 .. 0.75

  Alignments for each domain:
  == domain 1  score: 25.2 bits;  conditional E-value: 5.2e-09
                      HAD  52 aglaelleallaglseelaaelerfvaevirpk.......lldp...galellaahraaGdrvvvvSgglrplvepllaelg.... 123
                              +++ + ++ l  g+++ + +  e  + ev +         l+dp   +a+e+++ +++aG++vv+++g +   +++++  lg    
  PHY93_12285|PHY93_12285  86 EMASQGFRVLAVGYRALDRKATEIELSEVEKDLvflgligLIDPprkEAREAIKLCKSAGIQVVMITGDHPSTAKAIALDLGilgh 171
                              55556666666666666666666666555555566666666777899*******************************88887667 PP

                      HAD 124 ..adevlatelevdd.....rltgelglegkpvrgegkvaalrewlaaegegidleevvay.GDspsDlpllr 188
                                 + +l+ ele        ++  e +++  +  + +k++ +++   + +      e+va  GD+++D p+l+
  PHY93_12285|PHY93_12285 172 lnEKVILGIELENTSeeellKIVQETRVYARVASE-QKIRIVKA--LQSSG-----EIVAMtGDGVNDAPALK 236
                              76777788888888888888777777777777777.77777777..33332.....266666*********96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (487 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       738  (0.0411624); expected 358.6 (0.02)
Passed bias filter:                      528  (0.0294495); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.59u 0.24s 00:00:00.83 Elapsed: 00:00:00.41
# Mc/sec: 3570.53
//
Query:       PHY93_20075|PHY93_20075  [L=274]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (274 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       649  (0.0361983); expected 358.6 (0.02)
Passed bias filter:                      502  (0.0279993); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.39
# Mc/sec: 2093.83
//
Query:       PHY93_20080|PHY93_20080  [L=347]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.2e-14   53.8   0.0      4e-14   53.0   0.0    1.4  1  HhH-GPD   HhH-GPD superfamily base excision DNA repair protei
      2e-08   33.7   0.1    5.2e-08   32.4   0.0    1.8  2  HHH       Helix-hairpin-helix motif
     0.0076   16.2   0.0      0.019   14.9   0.0    1.7  1  DUF4743   Domain of unknown function (DUF4743)
  ------ inclusion threshold ------
      0.036   14.4   0.0       0.11   12.9   0.0    1.8  1  HHH_8     Helix-hairpin-helix domain
      0.074   13.0   0.0       0.15   12.1   0.0    1.6  1  NUDIX_4   NUDIX domain
       0.11   13.1   0.0       0.74   10.5   0.0    2.4  2  HHH_5     Helix-hairpin-helix domain


Domain annotation for each model (and alignments):
>> HhH-GPD  HhH-GPD superfamily base excision DNA repair protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.0   0.0   1.3e-17     4e-14       1     102 [.      33     162 ..      33     168 .. 0.93

  Alignments for each domain:
  == domain 1  score: 53.0 bits;  conditional E-value: 1.3e-17
                              HHHHHHTTS-HHHHHHHHHHHHHHHSHCSHHHHHHSHHHHHHHHHTTSTTHHHHHHHHHHHHHHHH.................... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.................... RF
                  HhH-GPD   1 vsailsqqtsderanriierlferfgfptpedladadeekLrelirelGfyrrKakyikelArilv.................... 66 
                              vs+i+ qqt++ ++   +e++ ++   pt  dla+ +ee++   +++lG+y r+a+++++lA ++v                    
  PHY93_20080|PHY93_20080  33 VSEIMLQQTTVGTVLNHFEKFLNE--YPTIFDLAKTSEEQICISWKGLGYY-RRARNLRNLAIQIVeqfsgeiptdlesllklkgi 115
                              89**********************..59***********************.********************************** PP

                              ...........S-SSS--TTSHHHHHHHHHHTTSSSSTTHHHHHHHH CS
                              ...........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                  HhH-GPD  67 ...........gkpdvlivvDvhvrrilkrlrsikekktkkkvekkl 102
                                         g    + +vD ++ r+l+r+++i+  k +k  +k +
  PHY93_20080|PHY93_20080 116 gpytanaviaiGADLRGLAVDANLERVLSRFYGISIVKGPKLQQKLF 162
                              ***********544479*****************9887777666655 PP

>> HHH  Helix-hairpin-helix motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.4   0.0   1.7e-11   5.2e-08       2      30 .]      98     126 ..      97     126 .. 0.93
   2 ?   -4.1   0.0         6   1.8e+04       4      12 ..     337     345 ..     336     346 .. 0.75

  Alignments for each domain:
  == domain 1  score: 32.4 bits;  conditional E-value: 1.7e-11
                              HHHHHTSSHHHHHTSTT-SHHHHHHHHHH CS
                      HHH   2 leglipasreeLlalPGVGpktAeaIlsy 30 
                              + g+ip ++e Ll+l+G+Gp+tA+a++++
  PHY93_20080|PHY93_20080  98 FSGEIPTDLESLLKLKGIGPYTANAVIAI 126
                              679***********************975 PP

  == domain 2  score: -4.1 bits;  conditional E-value: 6
                              HHHTSSHHH CS
                      HHH   4 glipasree 12 
                              +l +as++ 
  PHY93_20080|PHY93_20080 337 NLSTASIKA 345
                              688999875 PP

>> DUF4743  Domain of unknown function (DUF4743)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.0   6.3e-06     0.019      19      72 ..      33      88 ..      17      99 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 6.3e-06
                             EEEEEETTEEEEEEEHHHHHHHCT-TTTEEE-SS.EEEE-TT--..SHHHHHHHHH CS
                  DUF4743 19 flpFvvegqqvGlirpdvaeklrkfpdvFevsekeaveLapslk..tyeeRtaave 72
                             + + + + ++vG++ +++ + l+++p +F++ +++  +++ s+k   y  R+++++
  PHY93_20080|PHY93_20080 33 VSEIMLQQTTVGTVLNHFEKFLNEYPTIFDLAKTSEEQICISWKglGYYRRARNLR 88
                             556788999**********************9998555555554114666666665 PP

>> HHH_8  Helix-hairpin-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   3.7e-05      0.11      22      64 ..      74     124 ..      53     126 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 3.7e-05
                              CCCHHHHHHHHCCCCC-SS-HHHH.TT.......HCTTSTT--HHHHHHHH CS
                    HHH_8  22 pfrvraYrrAaraiealpeeitsl.ee.......eltklpgiGkkiaakie 64 
                              +++ + Y r ar++++l  +i +   +       +l kl+giG+ +a+ + 
  PHY93_20080|PHY93_20080  74 SWKGLGYYRRARNLRNLAIQIVEQfSGeiptdleSLLKLKGIGPYTANAVI 124
                              789999999999999999988885533567766678***********9875 PP

>> NUDIX_4  NUDIX domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   4.9e-05      0.15       5      44 ..     241     286 ..     238     347 .] 0.59

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 4.9e-05
                              EEEC.TEEEEEE--TTSSSTT-EE-SEEE.-TTS-.HHHHHH....H CS
                  NUDIX_4   5 irdd.grvllekRpekgllggLwefPgge.eegee.leeala....r 44 
                              i++d +++l  ++ ++  l g we+P+   e++++ l+++ +    +
  PHY93_20080|PHY93_20080 241 IVKDkNKILFYQKNSNEWLSGQWELPTFIlETNDAkLKQY-PkvknK 286
                              55555*********************85534433323332.223222 PP

>> HHH_5  Helix-hairpin-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.0       1.3   3.8e+03      18      38 ..      53      72 ..      51      80 .. 0.79
   2 ?   10.5   0.0   0.00025      0.74      33      52 ..     105     124 ..      81     149 .. 0.76

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 1.3
                             HHTTT--SHHHHHHS-HHHHH CS
                    HHH_5 18 llsaGiesvedlaaadveeLa 38
                              l+  + ++ dla+ ++e+++
  PHY93_20080|PHY93_20080 53 FLNE-YPTIFDLAKTSEEQIC 72
                             5677.889999*999998875 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 0.00025
                              -HHHHHTSTTS-HHHHHHHH CS
                    HHH_5  33 dveeLakipGiGkktAerii 52 
                              d e L k++GiG+ tA  +i
  PHY93_20080|PHY93_20080 105 DLESLLKLKGIGPYTANAVI 124
                              56667777777777777666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (347 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       638  (0.0355848); expected 358.6 (0.02)
Passed bias filter:                      339  (0.0189079); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.38
# Mc/sec: 2741.38
//
Query:       PHY93_20085|PHY93_20085  [L=235]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (235 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       739  (0.0412181); expected 358.6 (0.02)
Passed bias filter:                      460  (0.0256568); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.42
# Mc/sec: 1695.08
//
Query:       PHY93_20095|PHY93_20095  [L=236]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    0.00016   21.8   2.3    0.00036   20.6   1.1    2.2  2  zf-RING_7       C4-type zinc ribbon domain
     0.0018   18.1   1.0     0.0036   17.1   0.0    2.1  2  RNA_POL_M_15KD  RNA polymerases M/15 Kd subunit
  ------ inclusion threshold ------
       0.22   11.3   1.3       0.94    9.3   0.0    2.3  2  zinc_ribbon_2   zinc-ribbon domain
       0.57   10.2  10.1          2    8.5   0.4    3.6  3  AlphaC_C        AlphaC  C-terminal


Domain annotation for each model (and alignments):
>> zf-RING_7  C4-type zinc ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.0      0.58   2.6e+03       8      25 ..      75      92 ..      75      92 .. 0.87
   2 !   20.6   1.1   8.1e-08   0.00036       1      33 []     198     230 ..     198     230 .. 0.97

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 0.58
                             B--CCHHHHHCCSTB-EE CS
                zf-RING_7  8 elppqvlselragdevvt 25
                             +l++q+  ++  ++++++
  PHY93_20095|PHY93_20095 75 KLNSQLALAVTEKEQIAF 92
                             7999*9999999999975 PP

  == domain 2  score: 20.6 bits;  conditional E-value: 8.1e-08
                              EETTT--B--CCHHHHHCCSTB-EE-TTT--EE CS
                zf-RING_7   1 tCgGChmelppqvlselragdevvtCpeCGRIL 33 
                              +C+ Chm  + ++ + l  g  + +Cp+CGR+L
  PHY93_20095|PHY93_20095 198 KCSECHMLADTMLKNSLEEGRSIEFCPSCGRLL 230
                              7999***************************98 PP

>> RNA_POL_M_15KD  RNA polymerases M/15 Kd subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.3         1   4.5e+03       4       7 ..     199     202 ..     197     205 .. 0.64
   2 !   17.1   0.0   8.1e-07    0.0036       1      17 [.     220     236 .]     220     236 .] 0.92

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 1
                              ESTT CS
           RNA_POL_M_15KD   4 CpkC 7  
                              C++C
  PHY93_20095|PHY93_20095 199 CSEC 202
                              5555 PP

  == domain 2  score: 17.1 bits;  conditional E-value: 8.1e-07
                              EEBESTTTSBEEEEECS CS
           RNA_POL_M_15KD   1 lkFCpkCgNlLlpkedk 17 
                              ++FCp+Cg lL+p ++k
  PHY93_20095|PHY93_20095 220 IEFCPSCGRLLIPETAK 236
                              68***********9987 PP

>> zinc_ribbon_2  zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.2      0.16     7e+02       1       5 [.     198     202 ..     196     204 .. 0.67
   2 ?    9.3   0.0   0.00021      0.94       1      13 [.     222     235 ..     222     236 .] 0.72

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.16
            zinc_ribbon_2   1 fCpnC 5  
                              +C++C
  PHY93_20095|PHY93_20095 198 KCSEC 202
                              56666 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.00021
            zinc_ribbon_2   1 fCpnCGael.qdna 13 
                              fCp+CG+ l +++a
  PHY93_20095|PHY93_20095 222 FCPSCGRLLiPETA 235
                              89999987755555 PP

>> AlphaC_C  AlphaC  C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.2   0.4    0.0047        21      35      57 ..      35      58 ..      16      65 .. 0.84
   2 ?    1.0   0.2       0.1   4.5e+02      30      40 ..     118     128 ..     112     132 .. 0.82
   3 ?    8.5   0.4   0.00044         2      26      54 ..     135     164 ..     130     176 .. 0.67

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.0047
                 AlphaC_C 35 didn.nPktqsdiankiievtele 57
                             d+d+   kt+++i+n i+e ++l+
  PHY93_20095|PHY93_20095 35 DLDErRAKTRTQIENLILEEKNLN 58
                             6665257************99986 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.1
                 AlphaC_C  30 eiikkdidnnP 40 
                              e i+kdi nn 
  PHY93_20095|PHY93_20095 118 ESIQKDISNNN 128
                              789*****995 PP

  == domain 3  score: 8.5 bits;  conditional E-value: 0.00044
                 AlphaC_C  26 lisleiikkdidnnPkt.qsdiankiievt 54 
                              l sleiik+++ nn  + q  i+++ + ++
  PHY93_20095|PHY93_20095 135 LESLEIIKTEVANNISAeQKIIEDRNLRIQ 164
                              789***********7651334444444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (236 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2096  (0.116906); expected 358.6 (0.02)
Passed bias filter:                      537  (0.0299515); expected 358.6 (0.02)
Passed Vit filter:                        61  (0.00340231); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.39
# Mc/sec: 1801.68
//
Query:       PHY93_20100|PHY93_20100  [L=329]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   7.2e-102  340.4   1.3   5.2e-101  337.6   1.3    1.8  1  Chorismate_synt  Chorismate synthase


Domain annotation for each model (and alignments):
>> Chorismate_synt  Chorismate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  337.6   1.3  2.9e-105  5.2e-101       1     327 []      10     323 ..      10     323 .. 0.95

  Alignments for each domain:
  == domain 1  score: 337.6 bits;  conditional E-value: 2.9e-105
                              SEEEEE-SCCSSEEEEEEE---BT-B--HHHHHHHHHHHTCTSSSSSSHHHCS-EEEEESSEETTEE-SS-EEEEEE-TTS-..SS CS
          Chorismate_synt   1 lrvttfGeShgkalgavidgvpagleldeediqkeLdrRrpgqsklttqrkEkDeveilsGvfegktlGtpiallieNkdqrskdy 86 
                              +++t+fGeShg+a+g+v+dgvp+gl+++ +d+q+ LdrR pg+ + tt r+EkDe+eilsG+feg+tlGtpia++++N++q+s+dy
  PHY93_20100|PHY93_20100  10 FSLTSFGESHGPAMGVVLDGVPSGLKFSIDDLQACLDRRAPGKIAGTTGRIEKDEAEILSGIFEGQTLGTPIAVIVRNTNQKSSDY 95 
                              789***************************************999***************************************** PP

                              SSSTSBE-TTSTCHHHHHHC-S.STHCCCCCTHHCHHHHHHHHHHHHHHHHTTTEEEEEEEEEETTE........CHH.HHHTT-B CS
          Chorismate_synt  87 eeikevpRpgHADltyalkYgirdlrgggrsSaReTaarvaaGavakklLkelgieivayvssigei........eke.aenpvrc 163
                              +++k+  RpgHAD t+++kYgird+rgggr+S+ReT++rv+aG  a  ++    i+++a+vs +g              + +p+ +
  PHY93_20100|PHY93_20100  96 DKLKNDHRPGHADRTVEMKYGIRDHRGGGRASGRETVSRVIAGYFAGLIIP--TIKVKAFVSCLGPFkfesmpnnL-DiSFAPYSF 178
                              *************************************************96..699*********65555555432.235679*** PP

                              S-CCCHHHHHHHHHHHHHTT--B-EEEEEEEES--TT-SBTTTB-HHHHHHHHHHTSTTEEEEEETTGGGGGGSBHHHHS--EEEE CS
          Chorismate_synt 164 pdeeaaeemeeaieeakkegdslGgvvevvvkgvpaGlGepvfdkldakLakalmsipAvkgveiGsGfeaaelkGseanDeivlr 249
                              pd+++++e+++++e+++k+g+s+Gg v+++v ++ +GlGep fdkl+a+ akal+si+Av ++++G G e+a+++Gse+  ++   
  PHY93_20100|PHY93_20100 179 PDTSKNDEIQKYLEDLQKNGESVGGRVRIIVDHCSIGLGEPAFDKLKADFAKALLSIGAVVSFSYGLGEEMAAMSGSEVSRNLS-- 262
                              *******************************************************************************99988.. PP

                              SS-TTTTEETTEEBSS-EEEEEEE--SS--SSEEEEEBTTS-E-EEEE--S-S-S-THHHHHHHHHHHHHHHHHHHHH CS
          Chorismate_synt 250 ktnnaGGieGGisnGepivvrvavKpipsiakeqktvdletkeevelevkgrhDpcvvpravvvveamvalvladall 327
                                   GG+eGGisnGe++++++++Kp++++                ++  grhDpc++pra++vveamv++vlad++l
  PHY93_20100|PHY93_20100 263 ---AFGGMEGGISNGERMLMTITFKPTSTVGD--------------TARAGRHDPCIIPRAIPVVEAMVKVVLADHYL 323
                              ...89************************954..............23469************************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (329 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       419  (0.02337); expected 358.6 (0.02)
Passed bias filter:                      391  (0.0218082); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.41
# Mc/sec: 2383.71
//
Query:       PHY93_20105|PHY93_20105  [L=237]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.2e-61  208.1   0.1    2.4e-61  207.2   0.1    1.3  1  DHQ_synthase  3-dehydroquinate synthase
    9.4e-08   32.0   0.0    1.1e-07   31.8   0.0    1.1  1  Fe-ADH_2      Iron-containing alcohol dehydrogenase
    1.9e-05   23.6   0.0    9.8e-05   21.3   0.0    1.7  2  Fe-ADH        Iron-containing alcohol dehydrogenase


Domain annotation for each model (and alignments):
>> DHQ_synthase  3-dehydroquinate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  207.2   0.1     4e-65   2.4e-61       5     193 ..      57     234 ..      54     236 .. 0.94

  Alignments for each domain:
  == domain 1  score: 207.2 bits;  conditional E-value: 4e-65
                              -SSGGGCCHHHHHHHHHHHHHTT--TT-EEEEEESHHHHHHHHHHHHHBTT--EEEEEE-SHHHHHTTTSSSEEEEEETTEEEEEE CS
             DHQ_synthase   5 pdgeksKsletlekildalleakleRksllialGGGvvgDlaGfvAatylRGvrfvqvPttllaqvDssvGgKtainlplgKNliG 90 
                              +dgek+K+++ +++ ++++le++++R++ l+a+GGG+v D+aGf+Aat lRG+++  vPttlla+vD+s+GgK+ain + gKNliG
  PHY93_20105|PHY93_20105  57 ADGEKVKNINDFQNAVEFFLEKGIHRNAHLVAIGGGAVSDFAGFIAATILRGISWSIVPTTLLAMVDASIGGKVAINSKSGKNLIG 142
                              68************************************************************************************ PP

                              EE---SEEEEEGGGGGGS-HHHHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHCCTTTTGG CS
             DHQ_synthase  91 afaqPkavlidlevLktLperelraGlaEviKyalikdeelfelleenaeallkeeeeealeeliarsievkaevveeDekekglr 176
                              a+++P+ v+i +++++tLpe e ++G++Ev+Ky ++   ++++l      a    ++++ +e++i ++ e+k++  +eD ke+g+r
  PHY93_20105|PHY93_20105 143 AYHMPTNVWICPKFINTLPETEKNSGMGEVLKYCFLD-YTIYDL------A----IKKAPIEQIIDACAEFKQKLTTEDFKETGIR 217
                              *********************************9875.445322......2....357899************************* PP

                              GGGGTTHHHHHHHHHHH CS
             DHQ_synthase 177 alLnlGHtigHaiEall 193
                              ++LnlGH++gHa+E + 
  PHY93_20105|PHY93_20105 218 RILNLGHSFGHALEFIY 234
                              **************875 PP

>> Fe-ADH_2  Iron-containing alcohol dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.8   0.0   1.8e-11   1.1e-07       7     203 ..      10     213 ..       4     233 .. 0.70

  Alignments for each domain:
  == domain 1  score: 31.8 bits;  conditional E-value: 1.8e-11
                 Fe-ADH_2   7 leklgellkelelkkvllvadentkkaagek.veeslkeagikvevveeveeeadleeveklvealre...ketdlvvavGgGtii 88 
                              le++ + +++l+ +++llv+d+ +++++ ++ + ++++++++     ++ e+ +++++ ++ ve + e   ++   +va+GgG + 
  PHY93_20105|PHY93_20105  10 LESIVDEINNLDTDTILLVVDHLVWSHYSKElILDKIENKKVIFWKSADGEKVKNINDFQNAVEFFLEkgiHRNAHLVAIGGGAVS 95 
                              56666778889999***********9977662567777776543333334444455555555555533222566699********* PP

                 Fe-ADH_2  89 Diakyvsak..lnvpyvsvpTaaSvDGfaspgaslvvd..gkkrtvakaaaPlaviaDldvlaeAPrrllasGvGDllgkytalad 170
                              D a +++a+  ++++  +vpT++     as g  +  +    k  +   ++P+ v +  +++++ P+    sG+G++l ky+ l  
  PHY93_20105|PHY93_20105  96 DFAGFIAATilRGISWSIVPTTLLAMVDASIGGKVAINskSGKNLIGAYHMPTNVWICPKFINTLPETEKNSGMGEVL-KYCFLDY 180
                              *****998643799*******97655555655554444325566667889**************************99.6665544 PP

                 Fe-ADH_2 171 wklanevseplaklsaamvqeaaeklvedkket 203
                                +  ++++   +++++ + e+ +kl+ +  ++
  PHY93_20105|PHY93_20105 181 TIYDLAIKKAPIEQIIDACAEFKQKLTTEDFKE 213
                              444446677667777777777777776654444 PP

>> Fe-ADH  Iron-containing alcohol dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.0   1.6e-08   9.8e-05      11     106 ..      10     107 ..       3     121 .. 0.86
   2 ?   -0.1   0.0     0.054   3.2e+02     252     327 ..     126     206 ..     116     230 .. 0.47

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 1.6e-08
                              GGGHHHHHTTT-..EEEEEEEHHHH.HH.THHHHHHHHHCTT-EEEE.EEE-S---HHHHHHHHTTS-TT.--E...EEEEESHHH CS
                   Fe-ADH  11 leelgellkklgakralivtdkgslkksglldkvlesleeagievtvfdgvepnptleeveeaaalareegadv...viavGGGsv 93 
                              le++ +++ +l ++ +l+v+d  ++ +    + +l+++e++++ +    + e+   + + ++a++++ e+g+     ++a+GGG v
  PHY93_20105|PHY93_20105  10 LESIVDEINNLDTDTILLVVDHLVW-SHYSKELILDKIENKKVIFWKSADGEKVKNINDFQNAVEFFLEKGIHRnahLVAIGGGAV 94 
                              78889999***999***********.777899999***988888888888899999*************99865555********* PP

                              HHHHHHHHHHTT. CS
                   Fe-ADH  94 iDtAKaialllan 106
                               D A  ia+++ +
  PHY93_20105|PHY93_20105  95 SDFAGFIAATILR 107
                              *********9885 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.054
                              --HHHHHHHHHHC.C.GGGGGS-HHHHHHHHH...........HHHHHHT..........T--HHHHHHHHHHHHHTT--- CS
                   Fe-ADH 252 lgavHalahalgalf.giphglanaillpavlrfnaeaap.erlaqlaralgge...sdeeaaeeliealrellkelglpt 327
                              +g   a+  + g+ + g+ h  +n  + p  ++   e+++ + + ++ + ++ +    d + +++ ie++++ ++e++ + 
  PHY93_20105|PHY93_20105 126 IGGKVAINSKSGKNLiGAYHMPTNVWICPKFINTLPETEKnSGMGEVLKYCFLDytiYDLAIKKAPIEQIIDACAEFKQKL 206
                              555555555555554455555556666666553333333224444444444444555333333333333333333333332 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (237 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       615  (0.034302); expected 358.6 (0.02)
Passed bias filter:                      485  (0.0270511); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.24s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 1788.67
//
Query:       PHY93_05730|PHY93_05730  [L=85]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
       0.46   11.1   2.6        0.9   10.2   2.6    1.5  1  LPAM_1           Prokaryotic membrane lipoprotein lipid attac
        0.7    9.4   2.4         15    5.1   0.3    2.2  2  ATP1G1_PLM_MAT8  ATP1G1/PLM/MAT8 family


Domain annotation for each model (and alignments):
>> LPAM_1  Prokaryotic membrane lipoprotein lipid attachment site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   2.6    0.0001       0.9       1      12 [.       1      12 [.       1      14 [. 0.92

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.0001
                   LPAM_1  1 MKKillalgall 12
                             M+K+l+++++l+
  PHY93_05730|PHY93_05730  1 MRKLLFFAVLLF 12
                             **********98 PP

>> ATP1G1_PLM_MAT8  ATP1G1/PLM/MAT8 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   0.3    0.0017        15      18      30 ..       5      17 ..       5      19 .. 0.90
   2 ?    4.1   0.1    0.0036        32      24      35 ..      57      68 ..      57      70 .. 0.92

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.0017
                             HHHHHHHHHHHHH CS
          ATP1G1_PLM_MAT8 18 LifAglLfivGil 30
                             L fA+lLf ++il
  PHY93_05730|PHY93_05730  5 LFFAVLLFSLPIL 17
                             78********997 PP

  == domain 2  score: 4.1 bits;  conditional E-value: 0.0036
                             HHHHHHHHHHCC CS
          ATP1G1_PLM_MAT8 24 LfivGiliilSk 35
                             ++i++i+ i+S+
  PHY93_05730|PHY93_05730 57 ACIAPIIYIMSG 68
                             6**********7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (85 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       286  (0.0159518); expected 358.6 (0.02)
Passed bias filter:                      270  (0.0150594); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.27s 00:00:00.72 Elapsed: 00:00:00.46
# Mc/sec: 554.47
//
Query:       PHY93_20110|PHY93_20110  [L=442]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (442 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       505  (0.0281667); expected 358.6 (0.02)
Passed bias filter:                      246  (0.0137208); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.57u 0.25s 00:00:00.82 Elapsed: 00:00:00.47
# Mc/sec: 2841.46
//
Query:       PHY93_20115|PHY93_20115  [L=112]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (112 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       323  (0.0180155); expected 358.6 (0.02)
Passed bias filter:                      248  (0.0138323); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.40
# Mc/sec: 837.67
//
Query:       PHY93_20120|PHY93_20120  [L=273]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.5e-47  162.1   0.0    1.7e-47  161.9   0.0    1.0  1  Carb_kinase   Carbohydrate kinase
     0.0074   15.7   0.0      0.011   15.1   0.0    1.3  1  HK            Hydroxyethylthiazole kinase family
  ------ inclusion threshold ------
      0.012   15.0   0.1       0.02   14.3   0.1    1.3  1  Phos_pyr_kin  Phosphomethylpyrimidine kinase


Domain annotation for each model (and alignments):
>> Carb_kinase  Carbohydrate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  161.9   0.0   2.9e-51   1.7e-47       1     241 [.      26     263 ..      26     266 .. 0.89

  Alignments for each domain:
  == domain 1  score: 161.9 bits;  conditional E-value: 2.9e-51
                              EEEEE-BTTCHHHHHHHHHHHHCTT-SEEEEEESSTTTCCCCTTTTTCEECCTTHTTTS...--SSS-SEEEE-TT-SSSHCHHHH CS
              Carb_kinase   1 vlvigGsedytGAallaalaalrlgaglvsvateseaiavlksylpevivhplledeqakileklerldavviGpGLgrdekikkl 86 
                              vl++gG    +GA+l++alaa r+gag ++ +t+ ++   + ++ p+ i hp++ +e      k++   a+ iGpGLg +ek kkl
  PHY93_20120|PHY93_20120  26 VLIVGGGRGLYGAGLISALAATRMGAGYTHLMTDLTK--FPWVKFPDFILHPIKISE-----LKNKEDFAIGIGPGLGIEEKNKKL 104
                              79*******************************5555..5666789********333.....34666679**************** PP

                              CHHHCCCCS-.EEEEGGGGGSGGGG...TTTTSSEEEE--HHHHHHHCTTTCH.HCCSHHHHHHHHHHHHTTEEEEESTTSEEEEC CS
              Carb_kinase  87 leevlekdep.lviDAdgLnllaqknelserkaeviLTPhkkEfkrLlkaivk.keddrlelarelaqklnavvllkgekdvivsp 170
                              +++  +++   +v DAd+L+l+a+  ++s   +  iLTPh +E +rLlk     +++drl++ +++++k ++++llkg+ ++i++p
  PHY93_20120|PHY93_20120 105 INYLIKNNFTnVVADADALTLIAKY-DISPLPSSWILTPHEGELARLLKTKSSsIKKDRLTAIKTAQEKFGCTILLKGAITLIATP 189
                              ***99998888************97.68888899***************988889******************************* PP

                              .TTEEEEE----GGG-STTHHHHHHHHHHHHHHCTSSHHHHHHHHHHHHHHHHHHHCCCT-T..S-HCHHHHHH CS
              Carb_kinase 171 .egevlinstgssalakGGsGDvLaGligalLaqneasyeaaiaaawlhgaasdeaaekkgv..gmlatelski 241
                                +++l ++tg++al k+G+GDvL G+i al aq  +s ea ++a+++hg +s+e+        ++ + +l++ 
  PHY93_20120|PHY93_20120 190 kRQKILSVQTGTPALSKAGTGDVLLGMIVALRAQGLKSCEACLVATYVHGLSSQEWERAGNDhlSLRPIDLIER 263
                              778899************************************************99754322236666666665 PP

>> HK  Hydroxyethylthiazole kinase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0   1.9e-06     0.011     133     224 ..     155     247 ..     144     268 .. 0.72

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.9e-06
                              SSS-SHHHHHHHHHHHHHHTSEEEEESSSEEEEESSE..EEEEE-S-GGGGGSTTHHHHHHHHHHHHHTTBSSHHHHHHHHHHHHH CS
                       HK 133 skeaataavaavqkvAqklrvvvvvtGevDvvsdgkk..vyklknGtellgkitasGCllgsvvaaflavkkdkllaaveavllyk 216
                              s++ +++ ++a++++ +k+++++++ G++ +++  k+  +++++ Gt+ l+k  +   llg +va  +    ++ +a + a+ +  
  PHY93_20120|PHY93_20120 155 SSSIKKDRLTAIKTAQEKFGCTILLKGAITLIATPKRqkILSVQTGTPALSKAGTGDVLLGMIVALRA-QGLKSCEACLVATYVHG 239
                              5566777899***********************9876669***********97655566666665443.33344455566666666 PP

                              HHH.HHHH CS
                       HK 217 vAgkeaaa 224
                              + ++e   
  PHY93_20120|PHY93_20120 240 LSSQEWER 247
                              66655554 PP

>> Phos_pyr_kin  Phosphomethylpyrimidine kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.1   3.3e-06      0.02     115     229 ..     132     238 ..     110     254 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 3.3e-06
                              HTGGG-SEEE-BHHHHHHHHT---SSHH.HHHHHHHHHHHTT-SEEEEEEGGS-SSSEEEEEEEETSSEEEEEEEE----S--BTH CS
             Phos_pyr_kin 115 eLlplatvitPNlpEaeaLlgekiktee.dmkeaakkllklgakaVlikGghlegeeavvtdvlydgeeveeleaerietknthGt 199
                              + lp + ++tP   E+++Ll++k ++ + d  +a k+ ++    ++l+kG  +         +   + + +   +  ++  ++ Gt
  PHY93_20120|PHY93_20120 132 SPLPSSWILTPHEGELARLLKTKSSSIKkDRLTAIKTAQEKFGCTILLKGAIT--------LIATPKRQKILSVQTGTPALSKAGT 209
                              5578999**************777655427777777777777778999**953........2334444444445555666899*** PP

                              HHHHHHHHHHHHHCTSSHHHHHHHHHHHHH CS
             Phos_pyr_kin 200 GCtlssaiaaelakgesleeAvkkAkeyvt 229
                              G++l  +i a  a+g +  eA   A+ yv+
  PHY93_20120|PHY93_20120 210 GDVLLGMIVALRAQGLKSCEACLVAT-YVH 238
                              ******************99998774.555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (273 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       401  (0.022366); expected 358.6 (0.02)
Passed bias filter:                      367  (0.0204696); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.47u 0.19s 00:00:00.65 Elapsed: 00:00:00.37
# Mc/sec: 2238.84
//
Query:       PHY93_20125|PHY93_20125  [L=146]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.2e-10   40.0   0.0    6.3e-10   39.7   0.0    1.1  1  Usp       Universal stress protein family


Domain annotation for each model (and alignments):
>> Usp  Universal stress protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.7   0.0   3.5e-14   6.3e-10       3     141 .]       2     143 ..       1     143 [. 0.86

  Alignments for each domain:
  == domain 1  score: 39.7 bits;  conditional E-value: 3.5e-14
                              SEEEEEE-SSHHHHHHHHHHHHHHHHCTSEEEEEEEEESSHCCCCCCCHHHHHHHHHHHHHHHHHHHH...HHHHHHCTTCEEEEE CS
                      Usp   3 krIlVavDgseeskkAlewAlelakargaelillhvidprasgavsdadeeaeeeeleleeaeleada...akaaaeaggvkvevv 85 
                              k I+++v   ++s   l+        ++ae++l+hv + +   a+  +      +++ + e+   +     a++++ ++  +v+  
  PHY93_20125|PHY93_20125   2 KSIVICVNLDQQSLDTLKTIPSKIDLQDAEIHLVHVFEIHYANAEFVPVIYPTADQYPEIETSVLKILtklAEDLKIPENRVVKKC 87 
                              88999999999999999999999999***********9998888888777777777777776666555666777777777777777 PP

                              EEESSHHHHHHHHHHHTTSSEEEEESCCSSTTTTCSSBHHHHHHHHHTSSEEEEEE CS
                      Usp  86 veegdpaeeilevaeeedadliVvGsrgrsglsrlllGSvseyvlrhapcpVlvVr 141
                              v +++   ++ ++  +++a++ Vv++rg++g+++l+  S ++ + + +pc+Vlv r
  PHY93_20125|PHY93_20125  88 VFSHSREAVLKDYLTDIKAEIAVVATRGKHGIEGLFSSSLTDFLCKYSPCDVLVLR 143
                              77788888889*******************************************87 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (146 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       480  (0.0267723); expected 358.6 (0.02)
Passed bias filter:                      412  (0.0229795); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.22s 00:00:00.61 Elapsed: 00:00:00.36
# Mc/sec: 1198.98
//
Query:       PHY93_20130|PHY93_20130  [L=69]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.7e-09   37.4  11.0    2.6e-09   36.8  11.0    1.3  1  SEC-C     SEC-C motif


Domain annotation for each model (and alignments):
>> SEC-C  SEC-C motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.8  11.0   1.5e-13   2.6e-09       1      17 [.      53      69 .]      53      69 .] 0.99

  Alignments for each domain:
  == domain 1  score: 36.8 bits;  conditional E-value: 1.5e-13
                    SEC-C  1 RNdpCPCGSGkKYKkCC 17
                             RNdpCPCGS kK+KkCC
  PHY93_20130|PHY93_20130 53 RNDPCPCGSQKKFKKCC 69
                             9**************** PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (69 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       451  (0.0251548); expected 358.6 (0.02)
Passed bias filter:                      188  (0.0104858); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.34u 0.20s 00:00:00.54 Elapsed: 00:00:00.35
# Mc/sec: 584.88
//
Query:       PHY93_20135|PHY93_20135  [L=227]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (227 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       428  (0.0238719); expected 358.6 (0.02)
Passed bias filter:                      372  (0.0207485); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.37
# Mc/sec: 1840.58
//
Query:       PHY93_20140|PHY93_20140  [L=399]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.078   13.0   0.3       0.28   11.2   0.2    2.0  2  Pallilysin  Pallilysin beta barrel domain
       0.13   12.1   0.0       0.22   11.4   0.0    1.3  1  DUF4347     Domain of unknown function (DUF4347)


Domain annotation for each model (and alignments):
>> Pallilysin  Pallilysin beta barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.2   3.1e-05      0.28      41      79 ..      70     108 ..      53     127 .. 0.87
   2 ?   -1.6   0.0      0.29   2.6e+03      78     104 ..     140     166 ..     129     172 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 3.1e-05
               Pallilysin  41 eekeiifllddteevyewensslrrnGiylstknksitn 79 
                               +++ii   ++ +++++ ++  lr  G +l+++ ksi n
  PHY93_20140|PHY93_20140  70 PSEQIILIAKNENKIFNTNKNLLRSWGFFLQSEEKSIFN 108
                              5789********************************987 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 0.29
               Pallilysin  78 tnlkrrldielesldeirvkvidDvrl 104
                              +n + r++i+ ++++++r +  +D  +
  PHY93_20140|PHY93_20140 140 ENNHNRFSIQTIGIEKLRGHFAEDAYI 166
                              556778888888888888888877655 PP

>> DUF4347  Domain of unknown function (DUF4347)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   2.4e-05      0.22      36     101 ..     111     174 ..      88     204 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 2.4e-05
                  DUF4347  36 qiteaLaqrsevdaihivshG.segalqLgntelnaenlekyaeelaqwgealsedadillYgCnvA 101
                               + + L +++++++i +++hG ++  l+L n+  n  ++++    +++++ +++eda i+++gCn++
  PHY93_20140|PHY93_20140 111 ALVKELLKYKKITSIDFFTHGtAQYGLYLENN-HNRFSIQT--IGIEKLRGHFAEDAYIVMHGCNTG 174
                              45556667888**********44456777665.34444554..568899999*************87 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (399 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       631  (0.0351944); expected 358.6 (0.02)
Passed bias filter:                      442  (0.0246528); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.20s 00:00:00.71 Elapsed: 00:00:00.37
# Mc/sec: 3266.09
//
Query:       PHY93_20145|PHY93_20145  [L=98]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (98 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       629  (0.0350828); expected 358.6 (0.02)
Passed bias filter:                      522  (0.0291148); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.37u 0.19s 00:00:00.56 Elapsed: 00:00:00.34
# Mc/sec: 866.04
//
Query:       PHY93_12290|PHY93_12290  [L=101]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (101 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       122  (0.00680462); expected 358.6 (0.02)
Passed bias filter:                       82  (0.0045736); expected 358.6 (0.02)
Passed Vit filter:                         2  (0.000111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.21s 00:00:00.60 Elapsed: 00:00:00.39
# Mc/sec: 782.24
//
Query:       PHY93_12295|PHY93_12295  [L=523]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      1e-21   78.0   0.1    1.6e-21   77.4   0.1    1.2  1  PmbA_TldD       Putative modulator of DNA gyrase
  ------ inclusion threshold ------
      0.056   13.3   0.1       0.11   12.3   0.1    1.4  1  RNA_pol_Rpb1_6  RNA polymerase Rpb1, domain 6


Domain annotation for each model (and alignments):
>> PmbA_TldD  Putative modulator of DNA gyrase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.4   0.1   1.7e-25   1.6e-21      11     276 ..      46     365 ..      40     366 .. 0.68

  Alignments for each domain:
  == domain 1  score: 77.4 bits;  conditional E-value: 1.7e-25
                              EEEEEEETTEEEEEEEEEEEEEEEEEEETTEEEEEE...ESSHHHHHHHHHHHHHHCCS---TT-..................... CS
                PmbA_TldD  11 stsvrfengevetnsssedsglgvrvikggrlgfastldtsdealeeaveraveiaklapedpea..................... 75 
                              + s++      e +++s d+g+ +rv+++g     st+ ++++   +++ ra e   + +++                        
  PHY93_12295|PHY93_12295  46 TKSLSCVAAANEKSGESLDRGMVLRVLVDGENFEKSTNLLERQ---NLISRAQEFRAELDKK--Fpkvksksyrpatwkeedlttl 126
                              445555555556777999***********97755555544542...3333333322111111..0223445555656666777778 PP

                              ............................GGS-HHHHHHHHHHHHHH.CHCSTTEEEEE..EEEEE......EEE.EEEEEEE.TTS CS
                PmbA_TldD  76 ............................eevsaeekielleelekalrsadpkiensk..garisgvsaslsaskeeklian.SeG 130
                                                           e +++  ++l+ e+ + + ++++k + ++    ++++v+++++++ ++ ++++ S+ 
  PHY93_12295|PHY93_12295 127 gsdiieqlpknmdsttevhfsplcegnpFETEIATLKKLATETRNEILEKSKKYVEANsnFQELADVRSMVRQEITTNVFVDrSKN 212
                              88888888888888888888888854442222222223455555555555553333333356999999999999999999965776 PP

                              EEEEEEEEEEEEEEEEEE.STCSETEEEEEEEESSHHHS..SSHHHHHHHHHHCTTT-B---SEEEEEEE-HHHHHHHHHGHHHHH CS
                PmbA_TldD 131 ldveqtrtrvslslsviaddggsgdgmgggsgyedleeedleeiaeeaaekalasleakplppgkypVvlspeavgsllheavgha 216
                              ++ +   +    + + +++ g+ g++m gg g ++++    ee + eaa + l++ +ak+l pg+y ++ +p+++g++ hea+gh 
  PHY93_12295|PHY93_12295 213 MSQTLPISLL--YSMGMTKTGQVGRSMAGGLGGLEVAV-HSEEDIVEAALRPLQLANAKKLAPGRYQIISGPDVTGVIAHEAFGHT 295
                              6666666665..44444422222333333333344444.344455556666677778999************************** PP

                              TBHHHHHTT--TTTT.-TTS.B-S-TT--EEEETT.......-......-SB-TTSBB---EEEEETTEE CS
                PmbA_TldD 217 leadavlegrSflkd.klGe.kvaselltivddpt.......s.gglgsypfDdEGvptqrtvlIenGvL 276
                               e+d   +grS+ k+ +  + kv+++   iv  p+       s g+ gsy fD EG  ++   + ++G+L
  PHY93_12295|PHY93_12295 296 QEGDTWMKGRSIAKNlHESKiKVGNDQACIVNHPNmfsmedlShGSNGSYFFDHEGQLARAQIILDKGIL 365
                              *************87667779********************9899************************9 PP

>> RNA_pol_Rpb1_6  RNA polymerase Rpb1, domain 6
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.1   1.2e-05      0.11      39      94 ..     163     220 ..     135     223 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 1.2e-05
                              TTSSSHH..HHTT-TTHHHHHHHHHHHHHHHHHHHHHTT-T..T..---EEE..EES- CS
           RNA_pol_Rpb1_6  39 elleeevveeiredaelqelldeEyeqLkedRellrkeifpdee..kdekvklqLPvN 94 
                              + l++e+++ei e+ ++  + ++ +++L + R ++r+ei+++    +++++++ LP+ 
  PHY93_12295|PHY93_12295 163 KKLATETRNEILEKSKKYVEANSNFQELADVRSMVRQEITTNVFvdRSKNMSQTLPIS 220
                              57889999********99*********************9987764559999999985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (523 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       745  (0.0415528); expected 358.6 (0.02)
Passed bias filter:                      613  (0.0341904); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.23s 00:00:00.81 Elapsed: 00:00:00.38
# Mc/sec: 4120.92
//
Query:       PHY93_05735|PHY93_05735  [L=440]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.3e-22   78.7   0.2    1.2e-21   76.9   0.1    1.9  2  Pribosyltran   Phosphoribosyl transferase domain
    4.9e-07   29.4   0.7    1.1e-06   28.3   0.7    1.6  1  UPRTase        Uracil phosphoribosyltransferase
     0.0006   20.5   0.0       0.16   12.5   0.0    2.2  2  Abhydrolase_6  Alpha/beta hydrolase family
     0.0077   15.7   0.3      0.048   13.2   0.2    2.1  2  PRTase_2       Phosphoribosyl transferase
  ------ inclusion threshold ------
      0.022   14.6   0.1        4.2    7.1   0.0    2.6  3  Abhydrolase_2  Phospholipase/Carboxylesterase
      0.049   12.9   0.3        6.9    5.8   0.1    3.0  3  Hydrolase_4    Serine aminopeptidase, S33
      0.053   13.0   0.0          3    7.3   0.0    2.6  3  Peptidase_S9   Prolyl oligopeptidase family


Domain annotation for each model (and alignments):
>> Pribosyltran  Phosphoribosyl transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.9   0.1   4.8e-25   1.2e-21       9     128 ..       7     165 ..       2     183 .. 0.91
   2 ?   -1.7   0.0       0.7   1.8e+03      27      72 ..     319     364 ..     303     378 .. 0.75

  Alignments for each domain:
  == domain 1  score: 76.9 bits;  conditional E-value: 4.8e-25
                              --EEEEEEETTEEEEEE--GGGEEEEEEETTTHHHHHHHHHHSTT-EE-EEEEEE-TTT--EE....................... CS
             Pribosyltran   9 paildavarlaaeileeyngkpdvvvgiargGvpfakiladeLevplayvrkvkyrpdgseeaargssdes............... 79 
                              +++    a +++++  +   ++++v++ +rgGvp+++++a++L vpl++++++k  +++ +e a g++ e                
  PHY93_05735|PHY93_05735   7 RNAGILLANKISQLTLD--KSNTIVIALPRGGVPVGYEVAKKLQVPLDIILVKKIGAPSFPELAVGAVSEDneiyynedlierlgy 90 
                              55445555555555555..9************************************************999*************** PP

                              ..........................EE----TTSEEEEE-SEESSSHHHHHHHHHHHCC-BSEEEEEEEEE-HH CS
             Pribosyltran  80 ..........................rlledpagkkVliVDDildtGgTllaalelLkekgpeevriavlvdkpa 128
                                                         +++ + gk +++VDD+++tG T++ +++lLk+k++ ++++a +v   +
  PHY93_05735|PHY93_05735  91 etsdlkpfkdhalkelqkssaslrreYPSIPLLGKDIILVDDGIATGATMEVVIHLLKKKKVGKIIVASPVSSQE 165
                              ************************9999999**************************************996655 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 0.7
                              -GGGEEEEEEETTTHHHHHHHHHHSTT-EE-EEEEEE-TTT--EE. CS
             Pribosyltran  27 ngkpdvvvgiargGvpfakiladeLevplayvrkvkyrpdgseeaa 72 
                              +g+p +++g  +g+     + a+  +  ++y  +++   +++ + +
  PHY93_05735|PHY93_05735 319 EGTPIAFFGASTGAAAALEAAAKMTDENIVYSVISRGGRPDMVDKK 364
                              5788888999999998888888888877777777776666665555 PP

>> UPRTase  Uracil phosphoribosyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.3   0.7   4.2e-10   1.1e-06     122     180 ..     125     181 ..      13     186 .. 0.85

  Alignments for each domain:
  == domain 1  score: 28.3 bits;  conditional E-value: 4.2e-10
                  UPRTase 122 rtvlllDpviaTGgsaaaaiqlLkergvgeekIlvlsvlaseegvkrlaeefpkvkvvt 180
                              + ++l+D  iaTG+++  +i+lLk++ v   kI+v+s ++s+e++++l +++  ++v++
  PHY93_05735|PHY93_05735 125 KDIILVDDGIATGATMEVVIHLLKKKKV--GKIIVASPVSSQEAMTQLGSQVDMIEVIM 181
                              459**********************665..6**********************999986 PP

>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.5   0.0   6.4e-05      0.16       1      86 [.     249     342 ..     249     370 .. 0.71
   2 !    6.0   0.0    0.0064        16     171     219 ..     371     418 ..     358     419 .. 0.72

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 6.4e-05
                              EEEE--GC.....GCHHHH...HHHHCCTCEEEEE--TTSTS-GGCS--HHH....C.HHHHHHHCCTT.......TTSEEEEEET CS
            Abhydrolase_6   1 vlllHGagssassWlvapL...aallaagvhvlapDlpGhGrsdpppldled....l.adlaalldelaa.....gggpvvlvGHS 73 
                              ++++HG+gss+ s +  ++   ++l  ag+ +l +Dl  +   d ++++ +     l  +l+ + + l +      g p+  +G S
  PHY93_05735|PHY93_05735 249 IIFAHGSGSSHKSVR--NInvaLELTKAGHGTLLFDLLTM---DEDAYSNRFniplLsKRLVMATRWLMKskyylEGTPIAFFGAS 329
                              79******8766654..44445555555555599******...555555555544324666667777777899999999******* PP

                              CHHHHHHHHHHCC CS
            Abhydrolase_6  74 lGGalalaaapla 86 
                               G+a al+aa+  
  PHY93_05735|PHY93_05735 330 TGAAAALEAAAKM 342
                              ********65544 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.0064
                              TGC.EEECTT-C.HHHHCHHCCCH..STTEEETCE...SSS-HHHHSHHHHHH CS
            Abhydrolase_6 171 vpl.lvlggeDp.lvprllerlla..qagarlpvvlpgaGHlphleepdevae 219
                               p+ l++ggeD  +  + l +l+a  ++ +rl  ++pga Hl + eep ++ae
  PHY93_05735|PHY93_05735 371 IPTlLIVGGEDFeV-IE-LNKLAAesLPNCRL-SIVPGATHL-F-EEPGALAE 418
                              34425669999963.33.334444577*****.*******96.4.69999998 PP

>> PRTase_2  Phosphoribosyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.2   0.2   1.9e-05     0.048     122     151 ..     125     154 ..     101     167 .. 0.82
   2 ?    3.1   0.0     0.022        56      14      45 ..     145     176 ..     143     222 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.9e-05
                 PRTase_2 122 kelvLvDDEistGktalnliralqeklprk 151
                              k ++LvDD i+tG t+  +i+ l++k   k
  PHY93_05735|PHY93_05735 125 KDIILVDDGIATGATMEVVIHLLKKKKVGK 154
                              78**************99999988876554 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.022
                 PRTase_2  14 fLfvSkvLGkhiPvkpstvreagaaLaellae 45 
                              +L+  k +Gk i ++p  ++ea+++L++++  
  PHY93_05735|PHY93_05735 145 HLLKKKKVGKIIVASPVSSQEAMTQLGSQVDM 176
                              7888899*********************9984 PP

>> Abhydrolase_2  Phospholipase/Carboxylesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.0       2.5   6.5e+03     111     138 ..     133     160 ..     119     169 .. 0.75
   2 ?    7.1   0.0    0.0016       4.2       9      33 ..     241     265 ..     239     274 .. 0.83
   3 ?    4.5   0.0      0.01        26     101     168 ..     315     382 ..     278     410 .. 0.63

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 2.5
                              EETHHHHHHHHHHHT-SS--SEEEEES- CS
            Abhydrolase_2 111 GFSqGaalalylaltlpkklggivafsg 138
                              G   Ga + +   l  +kk+g i+  s 
  PHY93_05735|PHY93_05735 133 GIATGATMEVVIHLLKKKKVGKIIVASP 160
                              6778999999999999999998888775 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0016
                              -SS---EEEEEE--TT--SHHHHHH CS
            Abhydrolase_2   9 pkdkaqavviflHGlGdsghawaea 33 
                                dk +  +if HG G+s++++ ++
  PHY93_05735|PHY93_05735 241 TTDKIKSWIIFAHGSGSSHKSVRNI 265
                              56788999***********998776 PP

  == domain 3  score: 4.5 bits;  conditional E-value: 0.01
                              T..--GGGEEEEEETHHHHHHHHHHHT-SS..--SEEEEES---TTGGGTTTTS-GGGGG-EEEEEEETT-S CS
            Abhydrolase_2 101 g..ipssriiigGFSqGaalalylaltlpk..klggivafsgalplsqklessatavtkklpilqiHgeeDp 168
                                 ++   i+++G S Gaa al++a + +    +  +++ +g+      + ++++++  ++p l+i g eD 
  PHY93_05735|PHY93_05735 315 KyyLEGTPIAFFGASTGAAAALEAAAKMTDenIVYSVISRGGRP----DMVDKKILSSIYIPTLLIVGGEDF 382
                              244777789**************998776632455566665542....222234455556777777777774 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.1         2     5e+03      84     115 ..     135     166 ..     133     182 .. 0.66
   2 ?    5.8   0.1    0.0027       6.9      68      99 ..     313     344 ..     243     355 .. 0.62
   3 ?    3.6   0.0     0.013        33     189     232 ..     368     408 ..     360     413 .. 0.81

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 2
              Hydrolase_4  84 SmGGliallyllrypdkvaglilsaPalkika 115
                               +G+++ + + l +++kv ++i+++P+ + +a
  PHY93_05735|PHY93_05735 135 ATGATMEVVIHLLKKKKVGKIIVASPVSSQEA 166
                              56777766677667777778888888765544 PP

  == domain 2  score: 5.8 bits;  conditional E-value: 0.0027
              Hydrolase_4  68 kvkeehpelplfllGhSmGGliallyllrypd 99 
                              k k   +++p+  +G S+G++ al+++++  d
  PHY93_05735|PHY93_05735 313 KSKYYLEGTPIAFFGASTGAAAALEAAAKMTD 344
                              455555678****************9966544 PP

  == domain 3  score: 3.6 bits;  conditional E-value: 0.013
              Hydrolase_4 189 kitlPllllhGeaDkvvdpeasrelyerlgskdktlklypglyH 232
                              +i +P+ll+ G++D  v  e  + ++e+l+  +++l + pg+ H
  PHY93_05735|PHY93_05735 368 SIYIPTLLIVGGEDFEVI-ELNKLAAESLP--NCRLSIVPGATH 408
                              6779**********8776.56667788888..799999999999 PP

>> Peptidase_S9  Prolyl oligopeptidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0       2.2   5.5e+03     111     139 ..     189     216 ..     180     223 .. 0.68
   2 ?    2.9   0.1     0.026        67      49      85 ..     305     342 ..     302     361 .. 0.86
   3 ?    7.3   0.0    0.0012         3     142     209 ..     369     431 ..     344     434 .. 0.84

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 2.2
                              THHHCCCC--TTTCHHHHHHHHHH-CGGG CS
             Peptidase_S9 111 lteeymewgnpeeneegykelspyspldn 139
                              ++e+y+++++  e e+  + ls+ s l++
  PHY93_05735|PHY93_05735 189 IGEWYEDFTQT-ETEDVIDLLSEFSSLQA 216
                              56777776665.66666777776666655 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.026
                              HHHHHHHHHTT.S--GGGEEEEEETHHHHHHHHHHHH- CS
             Peptidase_S9  49 iaaaealakeg.yvdserlaitGgSyGGyltgaalnqr 85 
                              + a+++l k + y + + +a +G+S G   ++ a+++ 
  PHY93_05735|PHY93_05735 305 VMATRWLMKSKyYLEGTPIAFFGASTGAAAALEAAAKM 342
                              568899999998***************99988877754 PP

  == domain 3  score: 7.3 bits;  conditional E-value: 0.0012
                              ---EEEEEEETT-SSS-THHHHHHHHHHH--S-S.EEEEEETTS-SSTTSSHHHHHHHHHHHHHHHHHC CS
             Peptidase_S9 142 aypplLlihGlaDdrvppaealklvaaLqkkgkn.vlllifpdegHgvgkprakveelarllaFlkeal 209
                              +y p+Lli+G +D  v        +++L  +  +  +l i p++ H + +p a +e ++   ++++ ++
  PHY93_05735|PHY93_05735 369 IYIPTLLIVGGEDFEV------IELNKLAAESLPnCRLSIVPGATHLFEEPGALAEVTKLAIEWFDGHV 431
                              8999***********9......4466777666666******************************9875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (440 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       430  (0.0239835); expected 358.6 (0.02)
Passed bias filter:                      382  (0.0213063); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.43
# Mc/sec: 3097.68
//
Query:       PHY93_12300|PHY93_12300  [L=461]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.8e-14   54.3   0.0    2.5e-14   53.8   0.0    1.1  1  PmbA_TldD  Putative modulator of DNA gyrase


Domain annotation for each model (and alignments):
>> PmbA_TldD  Putative modulator of DNA gyrase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.8   0.0   1.4e-18   2.5e-14      54     273 ..      91     326 ..      53     329 .. 0.69

  Alignments for each domain:
  == domain 1  score: 53.8 bits;  conditional E-value: 1.4e-18
                              HHHHHHHHHHHHHCCS---TT-...............GGS-HHHHHHHHHHHHHH.CHCST...................TEEEEE CS
                PmbA_TldD  54 aleeaveraveiaklapedpea...............eevsaeekielleelekalrsadp...................kiensk 105
                              +le+ v++  +++ l +++p                 +                      p                   k++   
  PHY93_12300|PHY93_12300  91 NLESQVQKTFNNSLLVGNKPWDlpselngtyelvvtvD----------------------PvilesltfahtkmyneishKLKTIT 154
                              55555665555555555555544444333333222220......................11111111211222222222222222 PP

                              EEEEE......EEE.EEEEEEETTSEEEEEEEEEEEEEEEEEE...S.TCSETEEEEEEEE...SSHHHS..SSHHHHHHHHHHCT CS
                PmbA_TldD 106 garisgvsaslsaskeeklianSeGldveqtrtrvslslsvia.d.d.ggsgdgmgggsgy...edleeedleeiaeeaaekalas 185
                                ++   s++l+++    ++ +S Gl+++ +++ +++++++              +    y   +++e+++l +++++a+e +l  
  PHY93_12300|PHY93_12300 155 --KVHVNSGELFTNLLSNYFETSLGLSGQKEKSDIYFEMAIEKlPlPnT------QEVLKYkkaLSIEDANLSKFIDDAVEETLSI 232
                              ..5555578888888889*****************77777766443321......22222355578899***************** PP

                              TT-B---SE.EEEEEE-HHHHHHHHHGHHHHHTBHHHHH.......TT--TTTT-TTSB-S-TT--EEEETT-......-SB-TTS CS
                PmbA_TldD 186 leakplppg.kypVvlspeavgsllheavghaleadavl.......egrSflkdklGekvaselltivddpts.gglgsypfDdEG 262
                               eak++++   +++ ++ ea+ s+l  +v   l+a++ +        g S+l  k  +k +s++++i+ dpt+     ++pf dEG
  PHY93_12300|PHY93_12300 233 TEAKSPKTSdHCTIMIEGEAISSILNSVV-FQLNAQREDdktpfmiSGDSLL--KSEKKAGSDKINITLDPTTpVMALTTPFTDEG 315
                              *****999978**************9666.6********7777777788888..8999**************6667777******* PP

                              BB---EEEEET CS
                PmbA_TldD 263 vptqrtvlIen 273
                              ++  + v++++
  PHY93_12300|PHY93_12300 316 MKPIKAVIVKD 326
                              *********97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (461 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       449  (0.0250432); expected 358.6 (0.02)
Passed bias filter:                      351  (0.0195772); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.26s 00:00:00.78 Elapsed: 00:00:00.41
# Mc/sec: 3379.37
//
Query:       PHY93_12305|PHY93_12305  [L=476]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
   2.1e-101  338.9   0.0   3.5e-101  338.2   0.0    1.3  2  tRNA-synt_1c  tRNA synthetases class I (E and Q), catalytic d


Domain annotation for each model (and alignments):
>> tRNA-synt_1c  tRNA synthetases class I (E and Q), catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  338.2   0.0    2e-105  3.5e-101       2     313 ..       3     317 ..       2     318 .. 0.98
   2 ?   -3.7   0.0      0.23   4.2e+03      72     106 ..     392     427 ..     369     439 .. 0.57

  Alignments for each domain:
  == domain 1  score: 338.2 bits;  conditional E-value: 2e-105
                              -EEEE---SSSS-BHHHHHHHHHHHHHHHHTT-EEEEEE--SSCCC--HHHHHHHHHHHHHTT---S........SEEEEGGGGHH CS
             tRNA-synt_1c   2 VrtRfaPePtGyLHiGhakaallnylfAknnnGkfilRieDTdperekeeaeesiledlkwlgikwd........ekptyqsdrfd 79 
                              Vr+RfaP+PtGyLHiG+a++a++nyl+Ak+ +Gk ilRieDTd er++ ++e s++edlkwlgi+ d        ++p++qs+r  
  PHY93_12305|PHY93_12305   3 VRVRFAPSPTGYLHIGGARTAMYNYLYAKAMGGKYILRIEDTDTERSERKFEVSQIEDLKWLGITHDegpdvggeYGPYRQSERGH 88 
                              9************************************************************************************* PP

                              HHHHHHHHHHHTTSEEEE-STHHHHHHHHCCSSHSS-TTTTS-HHHHHHHHHHHHHTTHSTTTS-EEEESSBTTSSGGGSSTEEEE CS
             tRNA-synt_1c  80 elkkyaeeLikkGkAYvcectkeeleeereeqeklgskerdrydeenlklfeeemkkgkaegekavvRlkideessvefrDlvrgr 165
                              ++k++ae+L+  G+AY c+ct+ el  ++e   +l+ k+ ++yd+++++l +  ++++ a+ge+av+R+k +++s ++f+D vrg+
  PHY93_12305|PHY93_12305  89 IYKAWAEKLLDTGHAYHCFCTEAELTLKNEI--ALAEKRDPQYDGKCRSLDKGVVTSRLAAGEEAVIRFKAPKKS-YAFNDHVRGH 171
                              ***************************9999..777779*********************************995.5********* PP

                              EEESGGGSBTTTBTSTSEEE-HHHHHHHHHHHTT-SEEEEEGGGGCCHHHHHHHHHHTT-S.-EEEEEE--EEETTSB-SHHHHHH CS
             tRNA-synt_1c 166 iklepqeihdlvivksdiyPtYdfavvidDaleeithvlrteefldntpkyiwllealglevppfiheylrlnlekkklSKRklsl 251
                              + + +  ++d+vi +++++P Y++avv+dDa ++i+hv+r+ee+l nt ++++++ea+g+ +p+f+h +l+++++++klSKR++++
  PHY93_12305|PHY93_12305 172 VVFPEGMVGDFVIMRANGIPVYNYAVVVDDATMKISHVIRAEEHLPNTLRQLMIYEAFGITPPEFAHGSLLIGEDRQKLSKRHGAT 257
                              ************************************************************************************** PP

                              HHHTTSSSSTT-TTSCBHHHHHHCTB-HHHHHHHHHHHCCCSSS.EEEEHHHHHHHHHHHHH CS
             tRNA-synt_1c 252 lvdekqvkewddlreallnflrrlGwtpekerelftreeliksfdlnresksleafdrkkLe 313
                              +  ++ +ke  +l+ alln+l++lGw+  +e ++f+ + l ++f+l+r +k++++ d+ kL+
  PHY93_12305|PHY93_12305 258 S--VNLYKEMHYLPAALLNYLCLLGWSHPDETDVFDVHTLGTMFNLERFTKAAAIYDIIKLN 317
                              *..99**************************************************9999987 PP

  == domain 2  score: -3.7 bits;  conditional E-value: 0.23
                              EEGGGGHHHHHHHHHHHHHTTSEE.EE-STHHHHHH CS
             tRNA-synt_1c  72 tyqsdrfdelkkyaeeLikkGkAY.vcectkeelee 106
                               ++ +   ++++y e  i++ +A  + + t+eel++
  PHY93_12305|PHY93_12305 392 AKSWETTPKIREYLESEIANALASgKKFVTEEELNN 427
                              444455566666666666666664355666666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (476 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       439  (0.0244855); expected 358.6 (0.02)
Passed bias filter:                      413  (0.0230353); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.22s 00:00:00.78 Elapsed: 00:00:00.41
# Mc/sec: 3492.99
//
Query:       PHY93_12310|PHY93_12310  [L=478]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   1.8e-144  481.7   0.0     2e-144  481.6   0.0    1.0  1  Aldedh    Aldehyde dehydrogenase family
    0.00029   20.0   0.1     0.0011   18.2   0.1    1.7  1  LuxC      Acyl-CoA reductase (LuxC)


Domain annotation for each model (and alignments):
>> Aldedh  Aldehyde dehydrogenase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  481.6   0.0  2.2e-148    2e-144       2     460 ..      19     476 ..      18     478 .] 0.97

  Alignments for each domain:
  == domain 1  score: 481.6 bits;  conditional E-value: 2.2e-148
                              ET-SS.SEEEEEETTTCEEEEEEE-B-HHHHHHHHHHHHHHHHHHTTS-HHHHHHHHHHHHHHHHHTHHHHHHHHHHHH---HHHH CS
                   Aldedh   2 veses.etievinPatgeviakvpaataedvdaavaaAkeafkawaklpaeeRaeiLrkaadlleerkeelaeletletGkplaea 86 
                              +  ++ + + v+n +++++ia++p a+a++v+ a++++ + f+a++k +a eR+++L k++d ++ +ke++ +l+  e+Gkp+  a
  PHY93_12310|PHY93_12310  19 IGHSTtNVLSVTNKFDQNIIATIPYADASEVQFAISNSVQGFQAYSKFSALERHDLLLKIRDGIQLEKEKFLNLIISEAGKPIDYA 104
                              5555534599**************************************************************************** PP

                              HHHHHHHHHHHHHHHHHHHHHSEEEEEEC....TTEEEEEEEEE-SEEEEEE-SSSCCHHHHHHHHHHHHTT-EEEEEE-TTSHHH CS
                   Aldedh  87 raeveeaidvlryyaelaeklegevlpss....egklalvrrePlGvvgaItPWNfPlllaawklapalaaGNtvvlKPaeetpls 168
                              rae+e+++ vl+++ae+a +++gev+p++    +g++al++r P+G v+aI+P+NfPl+la++k+apalaaG++v+lKP++ tpl+
  PHY93_12310|PHY93_12310 105 RAEIERSLMVLQLAAEEAMRISGEVVPMNygigSGRTALTKRIPIGPVLAISPFNFPLNLALHKIAPALAAGCSVLLKPSPFTPLT 190
                              ****************************669******************************************************* PP

                              HHHHHHHHHHTTS-TTSEEE--SSTCCHHHHHHH-TTESEEEEES-HHHHHHHHHHHHCTTSEEEEEE---EEEEE-TTSHHHHHH CS
                   Aldedh 169 alllaelfeeaglPkgvlnvvtgsgsevgealvehpevdkvsftGstevgrkiakaaaknlkrvtlElGGknplivledaDldkav 254
                              al++a l++++glP+gvlnvv+   +e +e ++++++++++sftGs +vg  + ++a+k  k+v+lElGG++++iv  +a+ld+a+
  PHY93_12310|PHY93_12310 191 ALAFASLCKRVGLPPGVLNVVVC-RNEEAELMLKDDRIKMLSFTGSADVGWSLKAKAGK--KKVVLELGGNASVIVDRSANLDEAA 273
                              ***********************.556789999************************95..9************************ PP

                              HHHHHHHHGGGGTSTTSEEEEEEEHHHHHHHHHHHHHHHHT--BS-TTSTT-SB---SSHHHHHHHHHHHHHHHHTTSEEEE-TTE CS
                   Aldedh 255 eaivkgafgnaGQvCiaasrllvqesiydefveklveaakklkvgdpldedtdvGPliseaqlekvekyveeakeegaklllGger 340
                              +ai+++a+ +aGQvCi+++r++v +si+d+f+ek++ a+++lk+g+p +e + +GP+i++++le+++ +++eak +ga+++ Gg  
  PHY93_12310|PHY93_12310 274 KAIAFSAYNYAGQVCISVQRIFVDHSIFDQFLEKFKTAVSELKMGSPSQEGVSIGPIIDRSHLERLQTWINEAKIKGAQVVFGG-- 357
                              ************************************************************************************.. PP

                              .SB-SSSTTEE--EEEES-TTTSHHHHS---SSEEEEEEESSHHHHHHHHHSSSEESEEEEE-SBHHHHHHHHHHS-SSEEEESSS CS
                   Aldedh 341 eeaglekgyfvePtvlanvtpdmriaqeEiFGPVlsvikfkdeeeaieiaNdteyGLaagvftkdleraervaerleaGnvyiNds 426
                               +  + + ++++Pt+l+ +++dm+i++eE FGP++++ +++ ++e+i++ N ++yGL+ag+ft+++++++++ e+le+G + iN  
  PHY93_12310|PHY93_12310 358 -DVIDLNHNLFAPTLLTSTQEDMKIVCEEAFGPIAVIEQVQYFDEVIRVINRSRYGLQAGLFTNQISQMKYAQEHLEVGALIINGV 442
                              .6778999****************************************************************************** PP

                              ST--TTTSEB--CGGGEES-BSHHHHHHHTEEEE CS
                   Aldedh 427 ttgaaealpfgGvkqSglGreggkegleeytevk 460
                                ++++++p+gGvk+SglGreg ++++ee+te +
  PHY93_12310|PHY93_12310 443 PGFRVDSMPYGGVKDSGLGREGLRYAIEEMTEPR 476
                              *******************************975 PP

>> LuxC  Acyl-CoA reductase (LuxC)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.1   1.2e-07    0.0011      86     378 ..     145     439 ..     139     443 .. 0.73

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 1.2e-07
                     LuxC  86 kaqprglvlhvlsgNvpl.lpvmsilqglLvknvnllkvSssdpflaaallksladvdenhtladslsvvyfksgdtkleeeivqn 170
                              k+ p g vl + + N pl l++  i+ +l ++   llk+S   p +a a++   ++v         l vv  ++++ +l  +  + 
  PHY93_12310|PHY93_12310 145 KRIPIGPVLAISPFNFPLnLALHKIAPALAAGCSVLLKPSPFTPLTALAFASLCKRVGLP---PGVLNVVVCRNEEAELMLKD-DR 226
                              777888888888888887578889999999999999999999999999998888888875...56677776677777766555.66 PP

                     LuxC 171 aDvvvawGgeeaikaiseklkpgkqlikfGakvSfavvdkealeeealdkaaeraAkDiivfdQqAClspqvvfvekddkie.ide 255
                                  +  G+ +   ++++k+  +k +++ G   S+ +vd++a    +ld+aa+++A     +  q C+s q +fv+ +   + +++
  PHY93_12310|PHY93_12310 227 IKMLSFTGSADVGWSLKAKAGKKKVVLELGGNASV-IVDRSA----NLDEAAKAIAFSAYNYAGQVCISVQRIFVDHSIFDQfLEK 307
                              677777888888888888999999999*****996.79****....******************************7732221455 PP

                     LuxC 256 faeaLaaaL......ekrarilpkakldedeaakisskraelklkylladekkvvsskdqkw..tvllseeq...eelnePlnrtv 330
                              f+ a+ ++L      +    i p    +  e+ ++  + a++k  ++ ++  +v+  +++ +  t+l s ++   ++ +e +  ++
  PHY93_12310|PHY93_12310 308 FKTAV-SELkmgspsQEGVSIGPIIDRSHLERLQTWINEAKIKGAQVVFGG-DVIDLNHNLFapTLLTSTQEdmkIVCEEAFGPIA 391
                              55555.334111111233445555666666666666666666655666655.5664444433225666655577788889999999 PP

                     LuxC 331 nvkavdsledvvryvtenrt.lQtvglavnesrleelarklalaGvsri 378
                               + +v+  ++v+r+++  r  lQ  gl+ n+    ++a++ +++G+ +i
  PHY93_12310|PHY93_12310 392 VIEQVQYFDEVIRVINRSRYgLQA-GLFTNQISQMKYAQEHLEVGALII 439
                              999999999999999999998996.888888777777777888888776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (478 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       410  (0.022868); expected 358.6 (0.02)
Passed bias filter:                      396  (0.0220871); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.59u 0.24s 00:00:00.83 Elapsed: 00:00:00.42
# Mc/sec: 3443.58
//
Query:       PHY93_12315|PHY93_12315  [L=82]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (82 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       448  (0.0249875); expected 358.6 (0.02)
Passed bias filter:                      403  (0.0224776); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.36u 0.23s 00:00:00.59 Elapsed: 00:00:00.38
# Mc/sec: 642.57
//
Query:       PHY93_12320|PHY93_12320  [L=231]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    8.9e-13   48.2   1.1    8.9e-13   48.2   1.1    1.9  2  PAP2          PAP2 superfamily
  ------ inclusion threshold ------
      0.024   14.2   1.6      0.024   14.2   1.6    2.5  2  BaxI_1        Bax inhibitor 1 like
      0.032   13.9  13.9      0.033   13.8   1.5    2.6  3  Wzy_C         O-Antigen ligase
        1.3    9.1   3.4        1.3    9.2   0.1    2.5  2  Internalin_N  Bacterial adhesion/invasion protein N terminal
        3.1    7.4  10.5       0.85    9.3   2.6    2.8  3  DUF4131       Domain of unknown function (DUF4131)


Domain annotation for each model (and alignments):
>> PAP2  PAP2 superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.3      0.47   1.7e+03      69      82 ..       9      22 ..       5      77 .. 0.54
   2 !   48.2   1.1   2.5e-16   8.9e-13       4     124 ..      91     216 ..      85     226 .. 0.87

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 0.47
                     PAP2 69 lllalllrrkrkki 82
                              +lal++  +++ +
  PHY93_12320|PHY93_12320  9 SVLALFIVFAFFEF 22
                             34444433333333 PP

  == domain 2  score: 48.2 bits;  conditional E-value: 2.5e-16
                     PAP2   4 alllalalaalltsvl.KdlvgrpRPfflaeetkldtqvstletses........keakesfPSgHsafafalalllalllrrkrk 80 
                              ++ l+l++  l + v+ K+l +  +P+ l  + +  + v+ ++++++         +++++fP gH++ +fal+ l++++ +r+ k
  PHY93_12320|PHY93_12320  91 VVTLTLIILPLSVAVIgKNLTNVHCPDDLSAFAGKIPYVKLFDQYPMnpnspdgkFPQGHCFPAGHATGGFALLSLVCFFKKRRNK 176
                              34444444444444445***********************9999999**9999999999999******************999999 PP

                     PAP2  81 kiglvllalillllavlvalsRlylgvHflsDvlaGlliGiala 124
                                   l++l+++ + + +++  +  g+Hfls+ ++ +l++++l+
  PHY93_12320|PHY93_12320 177 I----LAFLFAMSVGWTMGVYQMLRGAHFLSHHVTTMLLALILV 216
                              9....9********************************999876 PP

>> BaxI_1  Bax inhibitor 1 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.1     0.097   3.5e+02      55      77 ..      61      83 ..       7      93 .. 0.70
   2 ?   14.2   1.6   6.7e-06     0.024      58     101 ..     155     199 ..     137     230 .. 0.77

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.097
                   BaxI_1 55 lllvgalvglvlalvasfkkkvs 77
                              +++ ++++lv++l++  kkk+ 
  PHY93_12320|PHY93_12320 61 PIYIVGVGALVASLISWKKKKWH 83
                             33444577888888888887775 PP

  == domain 2  score: 14.2 bits;  conditional E-value: 6.7e-06
                   BaxI_1  58 vgalvglv.lalvasfkkkvspalvllYAvleGlflGgislvfea 101
                              + a +g++ l+lv  fkk+ +++l++l+A+  G ++G+  ++  a
  PHY93_12320|PHY93_12320 155 GHATGGFAlLSLVCFFKKRRNKILAFLFAMSVGWTMGVYQMLRGA 199
                              56778887689**************************98776555 PP

>> Wzy_C  O-Antigen ligase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.1      0.56     2e+03      22      30 ..      10      18 ..       3      36 .. 0.53
   2 ?   13.8   1.5   9.2e-06     0.033      10      62 ..      53     109 ..      48     126 .. 0.72
   3 ?    7.6   1.9   0.00075       2.7       2      58 ..     160     218 ..     159     230 .. 0.65

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.56
                    Wzy_C 22 llvalivll 30
                             +l+++iv+ 
  PHY93_12320|PHY93_12320 10 VLALFIVFA 18
                             222222222 PP

  == domain 2  score: 13.8 bits;  conditional E-value: 9.2e-06
                    Wzy_C  10 lflstsRsgiigl.lvalivlliifykrripfllllgilvgvilliilfv....lstn 62 
                              +f+s+   +i  + ++al++ li ++k+++ +++ +g+lv++++liil +    +++n
  PHY93_12320|PHY93_12320  53 IFYSGIKIPIYIVgVGALVASLISWKKKKW-HVYRKGLLVVTLTLIILPLsvavIGKN 109
                              666666666666647888999999999999.888888888888888876633335554 PP

  == domain 3  score: 7.6 bits;  conditional E-value: 0.00075
                    Wzy_C   2 alllsllalflstsRsgiigllvalivlliifykrri.........pfllllgilvgvilliilfv 58 
                              +++l++l++f+   R  i+++l+a+ v+  +++ + +         +         ++++li++++
  PHY93_12320|PHY93_12320 160 GFALLSLVCFFKKRRNKILAFLFAMSVGWTMGVYQMLrgahflshhV-------TTMLLALILVST 218
                              6789999******************9998887666664555533221.......222222222222 PP

>> Internalin_N  Bacterial adhesion/invasion protein N terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   0.1   0.00036       1.3       1      30 [.      80     109 ..      80     117 .. 0.86
   2 ?   -1.0   0.5      0.52   1.9e+03      10      22 ..     208     220 ..     204     225 .. 0.52

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.00036
                              XX.....XXXXXXXXXXXXXXXXXXXXXXX CS
             Internalin_N   1 kkknsvlKklltvtlvLllsllvltsnGek 30 
                              kk+ +++K ll+vtl+L+++ l ++ +G++
  PHY93_12320|PHY93_12320  80 KKWHVYRKGLLVVTLTLIILPLSVAVIGKN 109
                              799***************998888888844 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.52
                              XXXXXXXXXXXXX CS
             Internalin_N  10 lltvtlvLllsll 22 
                              ++ ++l+L  +l+
  PHY93_12320|PHY93_12320 208 TMLLALILVSTLN 220
                              3344445555554 PP

>> DUF4131  Domain of unknown function (DUF4131)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.1      0.26   9.2e+02      32      47 ..       6      21 ..       2      44 .. 0.54
   2 ?    2.1   0.1     0.037   1.3e+02       5      42 ..      60      99 ..      56     129 .. 0.52
   3 ?    9.3   2.6   0.00024      0.85      12      56 ..     159     203 ..     151     219 .. 0.82

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 0.26
                  DUF4131 32 vllllllllllallgf 47
                              ++++l+l+++++++ 
  PHY93_12320|PHY93_12320  6 LWASVLALFIVFAFFE 21
                             3444444444444433 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.037
                  DUF4131  5 lalvllalllllllllllllrr..rprrrvllllllllll 42
                             +++ ++++++l++ l+ + +++   +r+  l++ l l++l
  PHY93_12320|PHY93_12320 60 IPIYIVGVGALVASLISWKKKKwhVYRKGLLVVTLTLIIL 99
                             4455555555555555554332443333333333333333 PP

  == domain 3  score: 9.3 bits;  conditional E-value: 0.00024
                  DUF4131  12 lllllllllllllrrrprrrvllllllllllallgfalrapqpna 56 
                               +++ll l +++++rr++   +l+++ + ++++++  lr ++  +
  PHY93_12320|PHY93_12320 159 GGFALLSLVCFFKKRRNKILAFLFAMSVGWTMGVYQMLRGAHFLS 203
                              678888888999888999999999999999999999999887665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (231 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       715  (0.0398795); expected 358.6 (0.02)
Passed bias filter:                      330  (0.0184059); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 1684.46
//
Query:       PHY93_12325|PHY93_12325  [L=660]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.4e-32  110.6   0.1    1.3e-31  109.8   0.1    1.3  1  Transketolase_N  Transketolase, thiamine diphosphate binding 
    2.5e-23   82.3   0.1    5.2e-23   81.3   0.1    1.6  1  Transketolase_C  Transketolase, C-terminal domain
    4.3e-20   72.1   0.1    8.5e-20   71.2   0.1    1.5  1  Transket_pyr     Transketolase, pyrimidine binding domain
      8e-06   25.0   1.1    1.2e-05   24.4   0.0    1.8  3  E1_dh            Dehydrogenase E1 component
     0.0095   15.2   0.6      0.036   13.3   0.0    2.2  2  DXP_synthase_N   1-deoxy-D-xylulose-5-phosphate synthase
  ------ inclusion threshold ------
      0.072   12.9   0.0       0.21   11.4   0.0    1.7  1  TPP_enzyme_C     Thiamine pyrophosphate enzyme, C-terminal TP


Domain annotation for each model (and alignments):
>> Transketolase_N  Transketolase, thiamine diphosphate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  109.8   0.1   4.4e-35   1.3e-31      22     294 ..      57     333 ..      38     366 .. 0.80

  Alignments for each domain:
  == domain 1  score: 109.8 bits;  conditional E-value: 4.4e-35
                              -S--HHHHHHHHHHHHHHHHT--B-TTBTT-TTS-EEEESSGGGHHHHHHHHHHTTS.S--HHHHTTTTSTT-SS-SS--TTTS.T CS
          Transketolase_N  22 sGhPGaplgladiaevlfkkllkhnPndpkwidRDRfvLsnGhaslllYsllhLtGy.dlsledlksfrqlgsktpGhPelght.a 105
                              + h G p + a++  +++  + k   + ++w++   fv  +Gha   +Y+l   +G+ +l+++dl+ fr ++sk  Gh e + + +
  PHY93_12325|PHY93_12325  57 AAHWGGPAAFAEMVSAVHGIMFKD--KTKNWYETYNFVNDAGHAENGIYALRANYGFdNLTFKDLRGFRSIESKLTGHGEAHLNpQ 140
                              4599999999***99999988887..8999***************************88*********************875427 PP

                              T--S---STTHHHHHHHHHHHHHHHHHHHH-BTTB-S----EEEEEEHHHHHSHHHHHHHH....HHHHTT-TTEEEEEEESSEET CS
          Transketolase_N 106 gvevttGPLGqGianavglalaektlaatynkpgfdivdhytyvilgDgclmeGvsseass....lagtlkLgkLivlyDdnkisi 187
                              gv +  GPLG G+ +a gla+a+k l  t            t ++l+Dg  meG ++e+      la + k++  + +  dn+  +
  PHY93_12325|PHY93_12325 141 GVFISNGPLGSGLPQAQGLAIADKILGRTRT----------TICLLSDGGAMEGEAKESFAaipgLAEKNKINPFVLIISDNNTKL 216
                              *************************987654..........99***************874334489999**************** PP

                              TEEGGGT..--S-HHHHHHHTT-EEEEETTTT-HHHHHHHHHHHHH-...TTS-EEEEEE--TTTTST.TTTTSGGGTSS---HHH CS
          Transketolase_N 188 dGeteis..ftedvakrfeaygWhvievedgedveaikaaieeakae...kdkPsliklrtviGygsp.akagtedvhGapLgede 267
                               G ++      + + +  +a gW +i++e+g++++++ +aie+a  e     kP  + l+t+ Gyg   + +  +  hG pL + +
  PHY93_12325|PHY93_12325 217 GGRIDDDcfSMTPTFNSLSALGWSLIREEEGHNLQKVYTAIENAIIEaekSGKPVAVVLKTIKGYGVKsTMESASGGHGYPLSAYD 302
                              **9986511456788999****************9988888887543111479*************86145667789****98755 PP

                              ...HHHHHHHTTS-TT-TS-.--HHHHHHHH CS
          Transketolase_N 268 ...vaalkkklGfdpeksfe.vpeevydayk 294
                                 va +k+ +G d  ++f+   ee+ ++  
  PHY93_12325|PHY93_12325 303 dklVAFVKEIYGGDAPAEFTdWAEEILKSKP 333
                              3458999*****9988888613444544443 PP

>> Transketolase_C  Transketolase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   81.3   0.1   1.8e-26   5.2e-23       2     124 .]     532     654 ..     531     654 .. 0.94

  Alignments for each domain:
  == domain 1  score: 81.3 bits;  conditional E-value: 1.8e-26
                              EEEEEETTSSEEEEEETTHHHHHHHHHHHHHTTTTCEEEEE-SEEESHHHHHHH.HHHHHHSEEEEEEEEESTTSHHHHHHHHHHH CS
          Transketolase_C   2 kaeilregkdvtlvayGsmveealeAaeeLekegisaeVvdlrtvkplDketil.esvkktgrlvvveeavkrgGigsevaaalae 86 
                              ka++l  g+dvt+va G mv  aleA   L+ ++i+a+V++  +v+ +D et++ ++++ +g+l+++e++  +gG+gs +++al +
  PHY93_12325|PHY93_12325 532 KANVLTTGSDVTIVAAGPMVGKALEASRLLSVKNITATVINHSFVNHVDLETLKaSLAATKGKLITIEDHQLIGGMGSMIVHALHT 617
                              899***************************************************999999************************** PP

                              CCCTTCSSEEEEEEE-SS..SSSSGHHHHHHHTT-SHHHH CS
          Transketolase_C  87 eafdgldapvkrvggpdv..iepgsaeelekafgldaeki 124
                                 +g+d + k++g+  +     ++a++l++ f l+ae i
  PHY93_12325|PHY93_12325 618 ---HGVDFKSKTLGILGEfgQSAYKADQLYARFDLSAEGI 654
                              ...899999999998844456778999********99987 PP

>> Transket_pyr  Transketolase, pyrimidine binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   71.2   0.1   2.8e-23   8.5e-20       5     160 ..     348     495 ..     344     519 .. 0.92

  Alignments for each domain:
  == domain 1  score: 71.2 bits;  conditional E-value: 2.8e-23
                              HHHHHHHHHHHHHCTTTTEEEEESSTHHHHTTCHCCHHEGGTTEGEEE--S-HHHHHHHHHHHHHHCTTEEEEEEEEHHHHGGGHH CS
             Transket_pyr   5 wrkaeaealaellkedpevvligaDvaggtfsvrkgllhdqgegrvidsgisEqavlgfavGaalagpllviveaqFgdFangAqi 90 
                              +++++a a+ + +ke+  v  i+ D++ +t+ + ++++++    ++id gi+E++++  a+G++ +g  l++++ +F++F      
  PHY93_12325|PHY93_12325 348 VQDGFARAVIRAAKEGLPVYSISSDLQSSTGIKAFHKEFPT---HYIDLGIAESNMISSAIGLSKQG--LIPIVDTFAQFGI--TK 426
                              578999***********************************...***********************..***********98..44 PP

                              GGHHHHHCHHHHHT--EE.EEESBSGGGSTTGTTTSBSSHHHHHHTSTTEEEE--SSHHHHHHHHHHHHHS CS
             Transket_pyr  91 yadqairsgeakgklkvg.vvtrlpigvgedGpehqsaeleaflrlipglkvvrPsdpaetkhllrrairr 160
                               + ++i+  + +++ +v+ ++ +++     dG++hq+    a l +ip ++vv+++  +e++ l+++ai++
  PHY93_12325|PHY93_12325 427 GNLPFIM--AGLSEGPVIaLFSHTGFQDAADGASHQATTYFAALSSIPHITVVNCACSSEAESLMYEAITT 495
                              5555555..999999******************************************************95 PP

>> E1_dh  Dehydrogenase E1 component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.4   0.0   4.1e-09   1.2e-05      86     145 ..     134     191 ..     113     218 .. 0.79
   2 ?   -3.3   0.0       1.1   3.3e+03     269     297 ..     243     270 ..     238     272 .. 0.68
   3 ?   -3.7   0.1       1.5   4.4e+03     132     158 ..     455     477 ..     451     479 .. 0.64

  Alignments for each domain:
  == domain 1  score: 24.4 bits;  conditional E-value: 4.1e-09
                              .-E..BTT..BEEE-SSTTTHHHHHHHHHHHHHHHTS---EEEEEEGGGTT-HHHHHHHH CS
                    E1_dh  86 elmyaekesrilggngivgaqvplvaGialaakiegkkevailliGDgAanqGdvyealn 145
                              e + ++++  ++  ng++g+  p+++G+a+a ki g ++++i+l  Dg+a +G++ e++ 
  PHY93_12325|PHY93_12325 134 EAHLNPQG--VFISNGPLGSGLPQAQGLAIADKILGRTRTTICLLSDGGAMEGEAKESFA 191
                              33334555..999*******************************************9973 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 1.1
                              -HHHHHHHHHHHHHHHHHHHHHHHHS--- CS
                    E1_dh 269 seeelkeiekevrkeveeavkkaeskkel 297
                               eee  ++ ++v  ++e+a+ +ae+++++
  PHY93_12325|PHY93_12325 243 REEEGHNL-QKVYTAIENAIIEAEKSGKP 270
                              45555555.55667799999999988776 PP

  == domain 3  score: -3.7 bits;  conditional E-value: 1.5
                              GGGTT-HHHHHHHHHHHHTT--EEEEE CS
                    E1_dh 132 DgAanqGdvyealnlaalwklpvifvv 158
                              DgA+ q     ++ +aal ++p i vv
  PHY93_12325|PHY93_12325 455 DGASHQA----TTYFAALSSIPHITVV 477
                              3444433....4558888888888877 PP

>> DXP_synthase_N  1-deoxy-D-xylulose-5-phosphate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.0   1.2e-05     0.036     115     175 ..     151     216 ..     143     279 .. 0.73
   2 ?   -2.4   0.1      0.72   2.1e+03      87     124 ..     372     408 ..     370     411 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.2e-05
           DXP_synthase_N 115 tsisaalGlavardlkgekkkvvaviGDgaltgGmafealnni...gelk..kkllvilNdNemsi 175
                              + + +a+Gla+a ++ g+++++++++ Dg+   G a e++  i   +e++  + +++i+ dN+   
  PHY93_12325|PHY93_12325 151 SGLPQAQGLAIADKILGRTRTTICLLSDGGAMEGEAKESFAAIpglAEKNkiNPFVLIISDNNTKL 216
                              567899***********************9999999888877742233321246889999998754 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 0.72
           DXP_synthase_N  87 tlrqkgGlsgfpkrsEseyDafeagHsstsisaalGla 124
                              +l+++ G+++f k+   +y  ++ +  s+ is a Gl+
  PHY93_12325|PHY93_12325 372 DLQSSTGIKAFHKEFPTHYIDLGIAE-SNMISSAIGLS 408
                              577889******99999998888886.57899999986 PP

>> TPP_enzyme_C  Thiamine pyrophosphate enzyme, C-terminal TPP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   7.1e-05      0.21      22      62 ..     143     186 ..     130     216 .. 0.67

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 7.1e-05
                              ECETTTS-TTTHHHHHHHHHHH....STTSEEEEEEEHHHHHHT.G CS
             TPP_enzyme_C  22 ltsgglgtmGyglpaAiGakla....kpdrevvaivGDGgflmi.l 62 
                              +     g +G glp A G+++a     + r+ +++  DGg +    
  PHY93_12325|PHY93_12325 143 FI--SNGPLGSGLPQAQGLAIAdkilGRTRTTICLLSDGGAMEGeA 186
                              44..4799*************743333469**********986444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (660 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       513  (0.0286129); expected 358.6 (0.02)
Passed bias filter:                      448  (0.0249875); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.63u 0.26s 00:00:00.89 Elapsed: 00:00:00.44
# Mc/sec: 4495.36
//
Query:       PHY93_12330|PHY93_12330  [L=246]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0095   15.2   0.1      0.012   14.8   0.1    1.2  1  DUF5050   Domain of unknown function (DUF5050)
  ------ inclusion threshold ------
       0.11   12.1   0.1       0.25   11.0   0.1    1.6  2  CHB_HEX   Putative carbohydrate binding domain


Domain annotation for each model (and alignments):
>> DUF5050  Domain of unknown function (DUF5050)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.1   1.4e-06     0.012     172     248 ..     106     185 ..      59     204 .. 0.68

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 1.4e-06
                              EEE-S-EEEEEEEETTEEEEEG..GGTT-EEEE-SSS---.EE-S-S-EEEEEEETTEEEEEE-SSS-E.EEEEETTS-- CS
                  DUF5050 172 kvseenlyllvvegdyiYyidl..sknyaLyrvklsgsek.evltedkvdnyNvtgnwiYyqkesdeekalyrikldGse 248
                               ++ +    ++ +++ iY+ d+  +k  aL+ + ++  +  +vl+++ ++n  +  n iY    ++++k++  i+ ++++
  PHY93_12330|PHY93_12330 106 IILTSGDLEFSSQDNSIYFRDIitEKSAALAAICTEIVNPqTVLEKKVISNATILSNRIYLVALGTNDKGFDTIQINTKT 185
                              33333334468888999998887788888998888877773455555568888899999999888888887666666654 PP

>> CHB_HEX  Putative carbohydrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.9   0.0       1.1   9.7e+03      76      96 ..      28      48 ..      26      50 .. 0.78
   2 ?   11.0   0.1   2.8e-05      0.25      17      54 ..      89     127 ..      78     138 .. 0.82

  Alignments for each domain:
  == domain 1  score: -3.9 bits;  conditional E-value: 1.1
                  CHB_HEX 76 rlePtakFkglaagesvevpf 96
                             ++ Pt + +gl++ ++ ++++
  PHY93_12330|PHY93_12330 28 KIIPTGNIAGLEEPQQHTLKL 48
                             788999999999888887765 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 2.8e-05
                  CHB_HEX  17 gv.CaelgadascnkaeltLtnkgkaiaskdWaiyfssi 54 
                              +  C++++ ++s   a++ Lt+ + +++s+d +iyf +i
  PHY93_12330|PHY93_12330  89 KKsCSSSTIEKSDLAAQIILTSGDLEFSSQDNSIYFRDI 127
                              333*********************************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (246 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       466  (0.0259914); expected 358.6 (0.02)
Passed bias filter:                      342  (0.0190752); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.39
# Mc/sec: 1887.99
//
Query:       PHY93_12335|PHY93_12335  [L=463]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (463 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       761  (0.0424452); expected 358.6 (0.02)
Passed bias filter:                      322  (0.0179597); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.37
# Mc/sec: 3716.81
//
Query:       PHY93_12340|PHY93_12340  [L=234]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (234 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       445  (0.0248201); expected 358.6 (0.02)
Passed bias filter:                      340  (0.0189637); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.19s 00:00:00.63 Elapsed: 00:00:00.36
# Mc/sec: 1928.60
//
Query:       PHY93_12345|PHY93_12345  [L=147]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.4e-10   41.2   0.1    1.7e-10   40.9   0.1    1.1  1  Acid_phosphat_B  HAD superfamily, subfamily IIIB (Acid phosph
  ------ inclusion threshold ------
      0.017   14.8   0.0      0.034   13.9   0.0    1.5  2  PNK3P            Polynucleotide kinase 3 phosphatase
      0.023   14.4   0.1       0.31   10.7   0.1    2.2  1  Hydrolase_3      haloacid dehalogenase-like hydrolase
       0.03   14.6   0.0      0.099   12.9   0.0    1.8  1  Hydrolase        haloacid dehalogenase-like hydrolase


Domain annotation for each model (and alignments):
>> Acid_phosphat_B  HAD superfamily, subfamily IIIB (Acid phosphatase)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.9   0.1   3.9e-14   1.7e-10      71     199 ..       3     124 ..       1     133 [. 0.81

  Alignments for each domain:
  == domain 1  score: 40.9 bits;  conditional E-value: 3.9e-14
                              TSEEEEEE--BTTTEEHHHHHHHCHHHTCHH-TTHHHHHHHTTGGCCECC.HHHHHHHHHHTTEEEEEEEEEECCCHHHHHHHHHH CS
          Acid_phosphat_B  71 dkkdavvfDiDeTvLsnspYqkyqglgkkkfdpekfdewvnkgeakaipg.alelikkvverGvkiffvsgRseeqkaaTvenLkk 155
                              dk++a+ +D+D T+  +++    +++g    ++++++ + +   ++ + +  +el++ + +rG+ki+fv+gR e  +aaT++ Lkk
  PHY93_12345|PHY93_12345   3 DKIKAILVDLDGTLC-DVGHRVHHVQG----SNKDWKSFNELMVDDELNHwCFELMEAMGSRGYKIIFVTGRGEPWRAATESWLKK 83 
                              899**********65.57776666665....5678999999999999999677********************************* PP

                              CT-TTBSCCEEECCSTTC---HHHHHHHHH.HHHHHTTEEEEEEE CS
          Acid_phosphat_B 156 agfssweklilkgkkdkqkksvvsyKeerr.qklekkGynivlni 199
                                ++  e+l+++g  d  +      Kee   +k+e++ y++  +i
  PHY93_12345|PHY93_12345  84 HMVKY-EHLYMRGVLDYRE--DSDVKEEIYlNKIEQN-YQVLFVI 124
                              99766.*******999555..6666777651555555.8887666 PP

>> PNK3P  Polynucleotide kinase 3 phosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   7.6e-06     0.034       4      76 ..       9      91 ..       6     119 .. 0.81
   2 ?   -2.0   0.0      0.57   2.6e+03      36      53 ..     107     125 ..      99     139 .. 0.53

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 7.6e-06
                    PNK3P  4 aFDlDstliktksgkefak.daddwkllses.........vlekLkklkeegykivifsNqggvvekktkkslekfkekieal 76
                               DlD+tl      +++ + +++dwk ++e          + e ++++ + gyki++++ +g+  + +t++ l+k++ k e+l
  PHY93_12345|PHY93_12345  9 LVDLDGTLCDVGHRVHHVQgSNKDWKSFNELmvddelnhwCFELMEAMGSRGYKIIFVTGRGEPWRAATESWLKKHMVKYEHL 91
                             67********9997776665899***99887766667776677777778888*******999999988888888888777776 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.57
                    PNK3P  36 ekLkkl.keegykivifsN 53 
                              e++     e++y+++++  
  PHY93_12345|PHY93_12345 107 EEIYLNkIEQNYQVLFVID 125
                              4444333566666654433 PP

>> Hydrolase_3  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.1     7e-05      0.31       1      40 [.       8      69 ..       8      88 .. 0.67

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 7e-05
                             EEEEIIIIIS-TTS---..HHHHHHHHHHHH....................TTSEEEEE-SS CS
              Hydrolase_3  1 ialDlDGTLlnsdkkis..ektkeaikklke....................kgikvviATGR 40
                             i +DlDGTL++ +++++  + + +  k + e                    +g+k+++ TGR
  PHY93_12345|PHY93_12345  8 ILVDLDGTLCDVGHRVHhvQGSNKDWKSFNElmvddelnhwcfelmeamgsRGYKIIFVTGR 69
                             689********777765333333334444444446666666666666666688888888888 PP

>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   2.2e-05     0.099       1      26 [.       5      30 ..       5     109 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 2.2e-05
                             SSEEEEESBTTTBCHHHHHHHHHHHH CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase  1 iktvvfDkdGTLttgepsvedvivsa 26
                             ik+++ D+dGTL++  ++v+ v  s+
  PHY93_12345|PHY93_12345  5 IKAILVDLDGTLCDVGHRVHHVQGSN 30
                             89***********9999999887776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (147 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       624  (0.0348039); expected 358.6 (0.02)
Passed bias filter:                      462  (0.0257683); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.34
# Mc/sec: 1291.16
//
Query:       PHY93_05740|PHY93_05740  [L=402]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.7e-49  167.0   0.0    8.1e-49  166.7   0.0    1.0  1  Aminotran_1_2    Aminotransferase class I and II
  ------ inclusion threshold ------
      0.012   14.9   0.0      0.017   14.5   0.0    1.1  1  DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
       0.03   13.3   0.0      0.066   12.2   0.0    1.5  1  Aminotran_5      Aminotransferase class-V
       0.18   11.0   0.0       0.26   10.5   0.0    1.2  1  Beta_elim_lyase  Beta-eliminating lyase


Domain annotation for each model (and alignments):
>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  166.7   0.0   1.8e-52   8.1e-49       4     349 ..      36     383 ..      33     393 .. 0.91

  Alignments for each domain:
  == domain 1  score: 166.7 bits;  conditional E-value: 1.8e-52
                              EESSSSSTTSTTSSHHHHHHHHHHHHHHHHHTSTTST-BTTHHHHHHHHHHHHHCTCTTCHTTGGEGEEEESHHHHHHHHHHHHHH CS
            Aminotran_1_2   4 inLgsneylgdsgkptlpevakaekegalaggtlneygpidglpeleealakflgrseklklkreaavvvgsGagaliealifllk 89 
                              ++L+++++    g  +++e+++     +l  +++  y  ++g +++++a+   ++++ +  ++ e ++  g+G ++li++++++l 
  PHY93_05740|PHY93_05740  36 LKLNIGNPGAF-GFNVPEEIVRDI---ILNLPKAQGYCESKGIYSARKAIVLDYQNNGVRGVDVE-NIYIGNGVSELIVMAMQAL- 115
                              67777777655.445777777766...57999*******************99997888888888.*******************. PP

                              HTTT-EEEEEESS-THHHHHHHHTTSEEEEEEBEETTTTEE-HHHHHHHHTTHHCTTETEEEEEEESS-TTT--B--HHHHHHHHH CS
            Aminotran_1_2  90 lnpgdeilvpdptyasyknilrlsggevvryplyseedfhldlealeealkeapegnkktkvilvesphNPtGtvatleeleklld 175
                              ln++de+l+p+p y+  + +++ls g+ v y++++e+++  d++++++++++       t+ i++ +p+NPtG+v++++ l ++++
  PHY93_05740|PHY93_05740 116 LNTDDEVLIPSPDYPLWTAAVNLSSGKAVHYRCDEEANWFPDIDDIKKKISK------CTRAIVLINPNNPTGAVYSKDLLLEVIE 195
                              ****************************************************......7899************************ PP

                              HHHHTTEEEEEEETTTTCBSSSSHTHHH.HGGSTTSTTEEEEEESSSTTSSGGG-EEEEEEEH......HHHHHHHHHHHHHTS.S CS
            Aminotran_1_2 176 lakkynlllfvDeaYagfvfgsldavat.ranveeepnllivgslsKafGlaGeRvGyilgna......avvsqlrklsrpfls.s 253
                              l++ +nlllf+De+Y +  ++   av +  a +++++  ++ g+lsK + +aG+R+G+   +       ++++ l +ls+  l   
  PHY93_05740|PHY93_05740 196 LCRLHNLLLFSDEIYDKILYDG--AVHIpAASLSNDILNVTFGGLSKVYRAAGFRIGWMMLSGnlkssqNYIEGLDILSSMRLCaN 279
                              *********************5..555567777777767********************998878999999999999987655559 PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS.TEEEECCSCSSEEEEEETHH.....CHHHHHHHHHHTCTEEEE CS
            Aminotran_1_2 254 sllqaavaaalsdallkqseleemrqrlqkrrkelrdeLael.glkvlasqsgmflltdlsae.....takelskkLleevgvyvt 333
                               + q+a+ +al   + ++ el ++  rl ++r  +++ L+++ g++v+++++ ++++  l+ +     ++++l   Ll+ ++v+++
  PHY93_05740|PHY93_05740 280 VPCQYAIQTALGGYQSIN-ELVAADGRLTNQRNLCCELLNSIpGVSVVPPKGSLYTFAKLDSKrfnlkNDEQLVLDLLQDKKVLLV 364
                              9*************9875.************************************************999**************** PP

                              EGGGGTS..TTEEEEEC.T CS
            Aminotran_1_2 334 pgtsftv..pgrlRitv.A 349
                              +gt f    p ++Ri + +
  PHY93_05740|PHY93_05740 365 HGTAFNWpePDHVRIVFlP 383
                              *******9999****9933 PP

>> DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0   3.7e-06     0.017      44     144 ..     100     207 ..      93     208 .. 0.67

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 3.7e-06
                              ESSHHHHHH.HHHHHTTTTTT-EEEEESSS-THHHHHHHHTT-EEEEE-B-.TTTSSB-GGGCGGG--TTEEEEEEB-...GGGB- CS
          DegT_DnrJ_EryC1  44 vssGtaAlh.laLralgvgpgdeVIvpsltFvatanavlelgakpvfvDvd.pdtynidpaaieaaitertkaIlpVh...lyGqv 124
                              + +G + l  +a++a  ++ +deV++ps  +    +av  +  k+v    d ++ + +d ++i+++i + t+aI++++     G+v
  PHY93_05740|PHY93_05740 100 IGNGVSELIvMAMQA-LLNTDDEVLIPSPDYPLWTAAVNLSSGKAVHYRCDeEANWFPDIDDIKKKISKCTRAIVLINpnnPTGAV 184
                              566666655145555.46679**********987777766666666665551578********************88622234554 PP

                              -..-.HHHHHHHHHHCT-EEEEE CS
          DegT_DnrJ_EryC1 125 a..d.mdalkaiaakhglkvieD 144
                                 d + ++ ++++ h+l +++D
  PHY93_05740|PHY93_05740 185 YskDlLLEVIELCRLHNLLLFSD 207
                              42322345556666666666665 PP

>> Aminotran_5  Aminotransferase class-V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   1.5e-05     0.066      66     175 ..     100     207 ..      90     209 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 1.5e-05
                              EESSHHHHHHHHHHHCCCC-TTTSEEEEETTSHGGGTHHHHHHHHHHTEEEEEE.EBETTSCBEGGGHHHH--TTEEEEEEESBET CS
              Aminotran_5  66 ftsGtteainlvalslarslkpgdeivvteaehhanlvpwqelakrtgakvkvi.pldeegeldldelekllnektklvaithvsn 150
                                 G +e i +++++l   l+++de+++ + ++   + ++++l+   g  v++    ++++  d+d+++k++++ t+++ +   +n
  PHY93_05740|PHY93_05740 100 IGNGVSELIVMAMQAL---LNTDDEVLIPSPDYPLWT-AAVNLS--SGKAVHYRcDEEANWFPDIDDIKKKISKCTRAIVLINPNN 179
                              5556666677777777...999999999999999888.777776..56666654378899************************** PP

                              TTTEB...--HHHHHHHHHHTT-EEEEE CS
              Aminotran_5 151 vtGti...qpveeigklakkkgalvlvD 175
                               tG +   + + e+++l++ ++ l++ D
  PHY93_05740|PHY93_05740 180 PTGAVyskDLLLEVIELCRLHNLLLFSD 207
                              ***9722234567888888888777766 PP

>> Beta_elim_lyase  Beta-eliminating lyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   5.8e-05      0.26     109     167 ..     156     207 ..     111     209 .. 0.84

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 5.8e-05
                              E-HHHHHHHS--S-TTS-EEEEEEEESSBTTTTTB---HHHHHHHHHHHHHCT-EEEEE CS
          Beta_elim_lyase 109 mdlekleaaikevgaheekiklisltvTnntagGqvvsleelrevaaiakkygiplhlD 167
                               d+++++++i +       +++i+l + nn   G v+s + l ev ++++ +++ l+ D
  PHY93_05740|PHY93_05740 156 PDIDDIKKKISK------CTRAIVLINPNNP-TGAVYSKDLLLEVIELCRLHNLLLFSD 207
                              577888888877......5889*****9995.9*********************99888 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (402 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       426  (0.0237604); expected 358.6 (0.02)
Passed bias filter:                      411  (0.0229238); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.37
# Mc/sec: 3277.13
//
Query:       PHY93_12350|PHY93_12350  [L=438]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.4e-14   53.0  47.3    8.5e-13   48.0  32.8    2.2  2  MFS_1     Major Facilitator Superfamily
    1.5e-13   50.0  14.1    2.2e-13   49.5  13.7    1.5  1  MFS_3     Transmembrane secretion effector
     0.0063   16.9   0.9     0.0063   16.9   0.9    2.6  3  CopD      Copper resistance protein D


Domain annotation for each model (and alignments):
>> MFS_1  Major Facilitator Superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.0  32.8   1.4e-16   8.5e-13       1     297 [.      11     308 ..      11     333 .. 0.73
   2 !    9.6   8.2   6.7e-05       0.4      88     174 ..     345     432 ..     318     436 .. 0.85

  Alignments for each domain:
  == domain 1  score: 48.0 bits;  conditional E-value: 1.4e-16
                    MFS_1   1 lllaaflsalarsilgpalplalaed....lgispse.igllltlyalgaavaslplGrlsdrfGrrrvlllglllfalglllll. 80 
                              l+ ++f+ al+ +i+  al l+++ +    +gi+ s+ + l  +++ l ++++s   G ++drf  + +l+  +  f + +++l+ 
  PHY93_12350|PHY93_12350  11 LFWTQFFGALNDNIFKNALVLIITYQgvslFGINSSAlVALSGGVFILPFFFLSATSGQIADRF-EKTMLVKIIKKFEILVCMLAi 95 
                              578899999999999999997776665666666666635555555777889999999*******.666444444444444233333 PP

                    MFS_1  81 fa...sslwlllvlrvlqGlgagalfpagaaliadwfpkeergraigllsagfslGailgpllggllasslg..Wravfyilaivs 161
                              ++    +++lll++ +l G+ + ++ p+ ++li  +++ke+  + ++l+s+g+ ++++lg +lggl +s+ +  W + f+++ +++
  PHY93_12350|PHY93_12350  96 WGlylKNYPLLLFVLFLFGMHSTFFGPLKYSLIPNYSKKEHLVFSNALISSGTFIAILLGTILGGLAVSNQNnlWGLKFLLMLFAT 181
                              545569**************************************************************777789999999999999 PP

                    MFS_1 162 llafvlfllllpeepperkrkspkeeekgtgpaplvp...awkallkdpvlwillialllfffgfsglltllplylqevlglsgll 244
                              l ++  +  l p+++ e +++s++ +  + +     +   ++k+++k+  + il+++l  f+f  +gll+llpl+ +  ++ +   
  PHY93_12350|PHY93_12350 182 LGLIA-ASRLKPQTHAEVATESTAVD--WNFCN---SsrdILKLVFKNSMVGILVVGLSWFWFLGAGLLSLLPLLSKNIFHGN--E 259
                              99855.44555666666666666555..33333...2445999999999776666666666767777****************..9 PP

                    MFS_1 245 laglllallalvgailallagrlsdrlgrrrrlllallllllaalglallavt 297
                              ++++++ +++ vg   + ++ +++ r+  r r + al+ l+l+a++++++  +
  PHY93_12350|PHY93_12350 260 QVATIMLFSFTVG---MGVGPFMLERIT-RGRVYRALIPLSLIAMSFFIFDIA 308
                              9999999999999...556777777755.356666666666666666666655 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 6.7e-05
                    MFS_1  88 llvlrvlqGlgagalfpagaaliadwfpkeergraigllsagfslGailgpllgglla.sslgWravfyilaivsllafvlfllll 172
                              +++  ++ +l++g+++    a + +++++ e +r i+  ++ ++l+++   +l  +l  ++l+ + +f il+++ +++ ++ ++++
  PHY93_12350|PHY93_12350 345 IILDLFFLSLFGGVFTVPQFAELQRITSGLELSRIIAGNNIINALAMVSVSILLMILHqQHLSLSIIFGILGVLNVVMSIILIFFY 430
                              788899************************************************************************99877887 PP

                    MFS_1 173 pe 174
                              ++
  PHY93_12350|PHY93_12350 431 RA 432
                              65 PP

>> MFS_3  Transmembrane secretion effector
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.5  13.7   3.6e-17   2.2e-13      43     314 ..      45     320 ..      40     408 .. 0.83

  Alignments for each domain:
  == domain 1  score: 49.5 bits;  conditional E-value: 3.6e-17
                    MFS_3  43 splmvAlvqaaatLPifllsilaGalaDnfdrRkvllavqlllalvsvlltvlaalgllspwlllaltlligiGaalndPaWqAsv 128
                              s + vAl      LP f+ls  +G +aD f++  ++ +++ + +lv +l++    l l +  lll + +l g+ +++  P     +
  PHY93_12350|PHY93_12350  45 SSALVALSGGVFILPFFFLSATSGQIADRFEKTMLVKIIKKFEILVCMLAIW--GLYLKNYPLLLFVLFLFGMHSTFFGPLKYSLI 128
                              6677888888889******************999999999999998876654..45566778899999****************** PP

                    MFS_3 129 gelvkrrdvpaAvaLnsvginiaRsvGPAlgGvlvaavGaal..afavnalsylalivallrwkre.....vrksslprEklleal 207
                              ++  k++++    aL s g  ia   G  lgG+ v+    ++   f +  ++ l li+a  r k++     +++s+    ++ ++ 
  PHY93_12350|PHY93_12350 129 PNYSKKEHLVFSNALISSGTFIAILLGTILGGLAVSNQNNLWglKFLLMLFATLGLIAA-SRLKPQthaevATESTAVDWNFCNSS 213
                              *************************************9999722467777777777766.44444311111355667777899999 PP

                    MFS_3 208 raglRftaasreikavlvRaalFglsasavlaLLPlvardqldgdalvyGillgalGvGAilgalllsrLRerlsserlvllaava 293
                              r+ l+ +   + +   +v    F +  +  l+LLPl+ ++  +g+  v  i+l ++ vG  +g  +l r+ +     +l+ l+ +a
  PHY93_12350|PHY93_12350 214 RDILKLVFKNSMVGILVVGLSWFWFLGAGLLSLLPLLSKNIFHGNEQVATIMLFSFTVGMGVGPFMLERITRGRVYRALIPLSLIA 299
                              99999999999999888888889899999***********************************9999998888889999999999 PP

                    MFS_3 294 lAlvllslalasslwvavlvl 314
                              + + ++ +al+ sl +    l
  PHY93_12350|PHY93_12350 300 MSFFIFDIALVISLIQKQSSL 320
                              999999998876655443333 PP

>> CopD  Copper resistance protein D
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.1      0.87   5.2e+03      16      27 ..      47      58 ..      39     113 .. 0.56
   2 !   16.9   0.9   1.1e-06    0.0063      16     102 ..     141     234 ..     125     237 .. 0.79
   3 ?   -2.6   0.1       1.2   7.2e+03      45      57 ..     386     398 ..     351     407 .. 0.62

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 0.87
                     CopD 16 avvlvtGvvnal 27
                             a+v+++G v +l
  PHY93_12350|PHY93_12350 47 ALVALSGGVFIL 58
                             556666655542 PP

  == domain 2  score: 16.9 bits;  conditional E-value: 1.1e-06
                     CopD  16 avvlvtGvvnallrvg..lagllttayGrlllaKlalllvllalaalnrfrlvprleaa.........tgaggqalrhrlrrsaal 90 
                               +++ +G++ a+l+ g  l+gl+ ++   l+ +K +l+l  ++l++++  rl p+  a+         +  + ++ r ++ +++  
  PHY93_12350|PHY93_12350 141 NALISSGTFIAILL-GtiLGGLAVSNQNNLWGLKFLLML-FATLGLIAASRLKPQTHAEvatestavdWNFC-NSSR-DILKLVFK 222
                              6899******8777.667799999999999999987766.56789999999999997767888888876444.4455.79999999 PP

                     CopD  91 elvlalvvllla 102
                              + +++++v++l+
  PHY93_12350|PHY93_12350 223 NSMVGILVVGLS 234
                              999999999986 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 1.2
                     CopD  45 laKlalllvllal 57 
                              +  la++ v ++l
  PHY93_12350|PHY93_12350 386 INALAMVSVSILL 398
                              3333333333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (438 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       825  (0.0460148); expected 358.6 (0.02)
Passed bias filter:                      248  (0.0138323); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.58u 0.22s 00:00:00.80 Elapsed: 00:00:00.37
# Mc/sec: 3554.62
//
Query:       PHY93_12355|PHY93_12355  [L=211]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.6e-13   48.8   0.1    8.3e-13   48.3   0.1    1.2  1  Glutaredoxin2_C  Glutaredoxin 2, C terminal domain
    9.7e-10   38.7   0.0    1.6e-09   38.0   0.0    1.3  1  GST_N_3          Glutathione S-transferase, N-terminal domain
    1.9e-07   31.3   0.0    3.5e-07   30.4   0.0    1.5  1  GST_N_2          Glutathione S-transferase, N-terminal domain
  ------ inclusion threshold ------
      0.034   14.1   0.2       0.28   11.2   0.0    2.0  2  DUF1951          Domain of unknown function (DUF1951)
       0.12   12.5   0.0       0.27   11.3   0.0    1.6  2  GST_C_2          Glutathione S-transferase, C-terminal domain


Domain annotation for each model (and alignments):
>> Glutaredoxin2_C  Glutaredoxin 2, C terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.3   0.1   2.3e-16   8.3e-13       1     122 [.      86     204 ..      86     210 .. 0.91

  Alignments for each domain:
  == domain 1  score: 48.3 bits;  conditional E-value: 2.3e-16
          Glutaredoxin2_C   1 eieawlksvsellkrLllPRfvkaplpEFatqsAreyftkkkeksigdfeellaktpeliaelnalL.eelepliksseavngelS 85 
                              e+e  ++++++++++L +P ++    pEF+ +++r+yf+ kke++ g f++l+++++  i++ln+ L +ele+ + s+ + +++l+
  PHY93_12355|PHY93_12355  86 EVETLVSKMGSPVHSLCMPYWI--WTPEFN-PESRKYFQIKKEAKRGPFTNLIKNKEISIKNLNDILsNELEEHL-SPFYKSSTLT 167
                              5888999************776..568**7.789*********************************44799988.67777779** PP

          Glutaredoxin2_C  86 vdDillfpiLrsLtlvkglefppkvraYldevsektk 122
                              + Di++ ++L ++ +  + +f  k+++Yl++v++ t+
  PHY93_12355|PHY93_12355 168 IIDIMIASHLWGMYIFPEFQFTLKMHQYLQSVKDLTH 204
                              ********************************99987 PP

>> GST_N_3  Glutathione S-transferase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.0   0.0   4.5e-13   1.6e-09       1      69 [.       3      71 ..       3      73 .. 0.90

  Alignments for each domain:
  == domain 1  score: 38.0 bits;  conditional E-value: 4.5e-13
                             EES-TTSHHHHHHHHHHHHHT--EEEE---TTTTHHHHHHH-TT--SSEEETT.S-EEESHHHHHHHHHH CS
                  GST_N_3  1 LygfpaSpyarrvrlaLnekglpvevvevtpgehdeellaknplgkvPvLedd.gealtdSlaIidyLee 69
                             Ly++ ++p++ rvr+ L ++ +++e v +++ +      + ++ + +P+Le+  g a+ +Sl I++ ++ 
  PHY93_12355|PHY93_12355  3 LYHYVHCPFCIRVRMGLGLLSISYESVVLPYNDELT-PVQLTGVKMLPILEISkGNAINESLNILKKFDA 71
                             9****************************9999733.36889********9766***********99885 PP

>> GST_N_2  Glutathione S-transferase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.4   0.0   9.8e-11   3.5e-07       1      69 [.       8      71 ..       8      72 .. 0.90

  Alignments for each domain:
  == domain 1  score: 30.4 bits;  conditional E-value: 9.8e-11
                             S-HHHHHHHHHHHHCT--EEEEEEH...-TTSHHHHHHHHCTTTSSSEEE-CTTEEEESHHHHHHHHHH CS
                  GST_N_2  1 aCPwahRvlialalkglediisvvvlepkgfekseefprlnprgtVPvLwdkdgqvineSseIlrylet 69
                             +CP++ Rv++ l l+ + ++  v+     +++++ +  +l++  ++P+L + +g+ ineS+ Il  +++
  PHY93_12355|PHY93_12355  8 HCPFCIRVRMGLGLLSISYESVVL-----PYNDELTPVQLTGVKMLPILEISKGNAINESLNILKKFDA 71
                             6*******************6555.....778777789**************************98875 PP

>> DUF1951  Domain of unknown function (DUF1951)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   7.7e-05      0.28      28     114 ..      35     124 ..      29     135 .. 0.77
   2 ?    0.9   0.1      0.12   4.2e+02      39      64 ..     141     165 ..     129     210 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 7.7e-05
                  DUF1951  28 dtvanvevPlaklkelielik....neetkhyarnffintellkltaieei.kdvlslfkknkevlikfclsyllykfsflfdesk 108
                              d ++ v++   k+  ++e+ k    ne  +    + f  t ll   a++++ ++v +l +k    +  +c+ y ++  +f+ +  k
  PHY93_12355|PHY93_12355  35 DELTPVQLTGVKMLPILEISKgnaiNESLN--ILKKFDATNLLAWQAYDKLfNEVETLVSKMGSPVHSLCMPYWIWTPEFNPESRK 118
                              666666666667777777765211144433..4456788999999999997366999999*99*********************** PP

                  DUF1951 109 kfklkk 114
                               f++kk
  PHY93_12355|PHY93_12355 119 YFQIKK 124
                              ****98 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.12
                  DUF1951  39 klkelielikneetkhyarnffinte 64 
                               +k+l +++ ne ++h +  f+  ++
  PHY93_12355|PHY93_12355 141 SIKNLNDILSNELEEHLSP-FYKSST 165
                              5788888888888886653.444333 PP

>> GST_C_2  Glutathione S-transferase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0       2.2   7.7e+03       7       9 ..      76      78 ..      58      91 .. 0.60
   2 ?   11.3   0.0   7.6e-05      0.27      11      48 ..     142     181 ..     132     197 .. 0.78

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 2.2
                             HHH CS
                  GST_C_2  7 ale 9 
                             a++
  PHY93_12355|PHY93_12355 76 AWQ 78
                             333 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 7.6e-05
                              CCHCHHHCTTT---SS...CTTCS--HHHHHHHHHHHHHH CS
                  GST_C_2  11 ldaaldaleahLadsp..flfGdqptlaDialapflvrlr 48 
                              +++  d l+++L+ +   f+  +++t+ Di+ a +l+ + 
  PHY93_12355|PHY93_12355 142 IKNLNDILSNELEEHLspFYKSSTLTIIDIMIASHLWGMY 181
                              5566667777777777779******************995 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (211 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       779  (0.0434492); expected 358.6 (0.02)
Passed bias filter:                      571  (0.0318478); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.38
# Mc/sec: 1678.99
//
Query:       PHY93_12360|PHY93_12360  [L=128]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      8e-21   74.3   0.0    9.3e-21   74.1   0.0    1.1  1  Response_reg  Response regulator receiver domain
  ------ inclusion threshold ------
      0.025   14.6   0.1      0.034   14.2   0.1    1.1  1  BRCT_3        BRCA1 C Terminus (BRCT) domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.1   0.0     1e-24   9.3e-21       1     106 [.      11     114 ..      11     120 .. 0.92

  Alignments for each domain:
  == domain 1  score: 74.1 bits;  conditional E-value: 1e-24
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseeeda 86 
                              vlivdD+ +v+el+++ le+  + +v +a+dg++al  l ++kvd i++Di+mp+m+Gle+++ ++e+++ +p  ++t++ +   +
  PHY93_12360|PHY93_12360  11 VLIVDDETDVLELFKESLEDLSC-QVFTANDGQKALSFLASNKVDFIVTDISMPNMTGLEFISLLHERSDLTPFFFITGYHD-YPR 94 
                              8**********************.******************************************************9998.345 PP

                              HHHHHCTESEEEESSG-HHH CS
             Response_reg  87 vealkagaddflsKpfdpee 106
                              ++  ++    +++Kpfd +e
  PHY93_12360|PHY93_12360  95 EDLNRYKPRAIIFKPFDFAE 114
                              66678888899999999876 PP

>> BRCT_3  BRCA1 C Terminus (BRCT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.1   3.8e-06     0.034       5      60 ..       8      65 ..       4      70 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 3.8e-06
                   BRCT_3  5 dlkillvseqkefeelWseilklaGaavvkkekseaee..islgkldvvvtdsscpee 60
                             +  +l+v ++ ++ el++e l+   ++v +++  ++    ++ +k+d +vtd s+p+ 
  PHY93_12360|PHY93_12360  8 SKSVLIVDDETDVLELFKESLEDLSCQVFTANDGQKALsfLASNKVDFIVTDISMPNM 65
                             56899***********************998887777678999************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (128 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       451  (0.0251548); expected 358.6 (0.02)
Passed bias filter:                      407  (0.0227007); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.38u 0.21s 00:00:00.59 Elapsed: 00:00:00.36
# Mc/sec: 1074.80
//
Query:       PHY93_12365|PHY93_12365  [L=651]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.4e-19   67.9  23.2      7e-11   41.8   9.7    2.4  2  FTR1             Iron permease FTR1 family
    9.9e-10   38.6   0.0    2.2e-09   37.5   0.0    1.7  1  Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
    3.8e-09   37.6   0.0    1.4e-08   35.7   0.0    2.0  2  Cytochrom_C      Cytochrome c
  ------ inclusion threshold ------
        6.1    7.0  10.3        1.2    9.3   3.1    2.9  3  DUF3180          Protein of unknown function (DUF3180)


Domain annotation for each model (and alignments):
>> FTR1  Iron permease FTR1 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.0   9.4   5.6e-14   2.5e-10      98     234 ..     353     493 ..     338     503 .. 0.78
   2 !   41.8   9.7   1.6e-14     7e-11      75     224 ..     461     599 ..     461     603 .. 0.90

  Alignments for each domain:
  == domain 1  score: 40.0 bits;  conditional E-value: 5.6e-14
                     FTR1  98 gkklkeeveqklakavaeiknrekaaqkgekgsekwalfilsF....livlREGlEavLfvaaivaytvk.rvsalilgvvlGali 178
                               ++ k+ v+q++a+++a ++      +  e +++k+  f ++F     i+lREG+EavL++  +++  +      + l+v +G   
  PHY93_12365|PHY93_12365 353 ISDPKGSVNQLSAQIIATQDIFS---EVEETIQAKELSFGVAFsgafAIILREGFEAVLIILTLLSVIKAfGSRKAALWVHAGWGS 435
                              55668899999999999773333...455566666666666656665*****************9999989567777888888888 PP

                     FTR1 179 avvlglliyr...glvklslqsffilegflLllvaagLfsvgtlellekaeacngkdyi 234
                              a+ lg+++      l+k+s++s+++le ++ +++++ L++ g ++l++  e   +k+ i
  PHY93_12365|PHY93_12365 436 ALFLGFVAWFlsgTLMKMSGASREVLEAVTSAVAVVILLYFG-FWLHRQTEISRWKKFI 493
                              8777765554111689**************************.*********9999866 PP

  == domain 2  score: 41.8 bits;  conditional E-value: 1.6e-14
                     FTR1  75 legvlsliavvviswmilwmrrv..gkklkeeveqklakavaeiknrekaaqkgekgsekwalfilsFlivlREGlEavLfvaaiv 158
                              le+v s++avv++ + ++w  r+   ++ k+ +++k++ a+               +++ + lf+++F+ v+RE +E+vLf+ a+ 
  PHY93_12365|PHY93_12365 461 LEAVTSAVAVVILLYFGFWLHRQteISRWKKFIHEKVQGAMD--------------NKNLFGLFSIAFISVFREAFETVLFIRALW 532
                              6899******************99999999999999999987..............4479************************** PP

                     FTR1 159 aytvk.rvsalilgvvlGaliavvlglliyrglvklslqsffilegflLllvaagLfsvgtlellek 224
                               +t+   + a+ +g ++++   + +++++ r++ kl  +  f +++++  ++a  L +++ + ++e+
  PHY93_12365|PHY93_12365 533 FQTNTdGKNAIAVGLIAALVLIFSFSFIALRYSKKLPVRELFKVSSIMTSILAFILAGKAVHSMQEA 599
                              ***9887788888888888888889********************9999999999999998888886 PP

>> Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.5   0.0     5e-13   2.2e-09       3      67 .]     138     219 ..     136     219 .. 0.73

  Alignments for each domain:
  == domain 1  score: 37.5 bits;  conditional E-value: 5e-13
          Cytochrome_CBB3   3 aaaGaalykknCasCHgkggag............pslagrdwep............dalvdiiknGk..gaMpafggqlsdeelwa 62 
                              +++G+ ly+++C++CHg++g+g            +        +             +++++i+ G+  ++M a+  ++sd+e+w+
  PHY93_12365|PHY93_12365 138 LTNGKLLYEQSCVTCHGQNGLGdgpnatglepapA--------NfhnsermsaisaFHVYNTIRLGVpgTGMIAWS-NFSDKEVWD 214
                              689**************887777755555555433........033333343355588888*****96559****8.7******** PP

          Cytochrome_CBB3  63 lvaYl 67 
                              l  Y+
  PHY93_12365|PHY93_12365 215 LSFYV 219
                              98775 PP

>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.7   0.0   3.2e-12   1.4e-08       3      91 ..     140     222 ..     138     223 .. 0.89
   2 ?   -2.1   0.1       2.1   9.2e+03      31      55 ..     286     310 ..     253     323 .. 0.59

  Alignments for each domain:
  == domain 1  score: 35.7 bits;  conditional E-value: 3.2e-12
                              -HHHHHHTTGGGTB-SSSBSSS....--HHHHHHHTTT-HHHHHHHHTTSS--SSSHHHHHHHGGGGGGG.TT--HHHHHHHHHHH CS
              Cytochrom_C   3 rGkelftanCaaCHgvegggakqgggptlsgaaerasaasigasvanpaavsaprddfekkkltaemparkerlteqeiadlaaYL 88 
                              +Gk l+++ C++CHg +g g++    p+ +g++  a+a+++++ ++    +   ++++  + +++ m+a+ ++ +++e++dl  Y+
  PHY93_12365|PHY93_12365 140 NGKLLYEQSCVTCHGQNGLGDG----PNATGLEP-APANFHNSERMSAISAFHVYNTIRLGVPGTGMIAW-SNFSDKEVWDLSFYV 219
                              8*****99*************7....99999988.6666666777777789999***************9.9************** PP

                              HTT CS
              Cytochrom_C  89 ksl 91 
                              +sl
  PHY93_12365|PHY93_12365 220 MSL 222
                              *98 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 2.1
                              HHHHHHHTTT-HHHHHHHHTTSS-- CS
              Cytochrom_C  31 lsgaaerasaasigasvanpaavsa 55 
                              + g a+ + ++ + a+++n++++++
  PHY93_12365|PHY93_12365 286 FVGKAKSYLSQALSAYKSNSKNSKQ 310
                              4444455555555555555544433 PP

>> DUF3180  Protein of unknown function (DUF3180)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0       1.5   6.8e+03      75      91 ..      47      63 ..       5      69 .. 0.68
   2 ?    9.3   3.1   0.00027       1.2      78     129 ..     433     482 ..     414     487 .. 0.80
   3 ?    0.4   0.7      0.15   6.9e+02       2      46 ..     548     590 ..     543     602 .. 0.55

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 1.5
                  DUF3180 75 AsalvGAllaGvyaGll 91
                             A  ++GA++ G +a+++
  PHY93_12365|PHY93_12365 47 AHDYAGAVIHGKVASVT 63
                             56678888888777765 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.00027
                  DUF3180  78 lvGAllaGvyaGllvyllragelpaaaedllaavvavlaavalvvaglwlEr 129
                              +  Al++G++a +l  +l   +++ a++++l+av++++a v+l+  g+wl r
  PHY93_12365|PHY93_12365 433 WGSALFLGFVAWFLSGTL--MKMSGASREVLEAVTSAVAVVILLYFGFWLHR 482
                              666777777666666666..77889999999999999999999999999987 PP

  == domain 3  score: 0.4 bits;  conditional E-value: 0.15
                  DUF3180   2 vaaavvaavagwllvrvsygslpplpwlaavvllvlavvelvlAl 46 
                              +aa+v++  +++++  ++y++ +p++ l+ v+ ++ +++ ++lA 
  PHY93_12365|PHY93_12365 548 IAALVLIFSFSFIA--LRYSKKLPVRELFKVSSIMTSILAFILAG 590
                              34444444444444..45666666666666666666555555553 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (651 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1275  (0.0711138); expected 358.6 (0.02)
Passed bias filter:                      567  (0.0316247); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.69u 0.25s 00:00:00.94 Elapsed: 00:00:00.42
# Mc/sec: 4702.14
//
Query:       PHY93_12370|PHY93_12370  [L=717]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.3e-07   31.0   0.7    7.4e-07   29.3   0.1    2.2  2  ABC1      ABC1 family
  ------ inclusion threshold ------
      0.076   12.5   0.1       0.28   10.7   0.0    2.0  2  DUF4635   Domain of unknown function (DUF4635)


Domain annotation for each model (and alignments):
>> ABC1  ABC1 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0      0.84   7.5e+03      45      79 ..     243     276 ..     226     286 .. 0.59
   2 !   29.3   0.1   8.3e-11   7.4e-07      13     102 ..     359     455 ..     356     483 .. 0.78

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 0.84
                     ABC1  45 pgvkkriksDlel..lkllakllkkflkelrldleel 79 
                               +++k+ + D+++  +kl++k ++ ++++l     ++
  PHY93_12370|PHY93_12370 243 SEIAKSGQVDMKNtqIKLVVKFMDYYFNKLP---SNV 276
                              5666777777765224566777777776666...233 PP

  == domain 2  score: 29.3 bits;  conditional E-value: 8.3e-11
                     ABC1  13 efdeePiAaASiaqVhrAklk.s..geeVavKvqrpgvkkriksDlellkllakllkkflkelr....ldleelvdefskslleEl 91 
                              ++ e+P++++ iaqV +A++  +  ++ Va++  +pgv +r+k+D+++l+ ++   +k+l e+     + + +l+d ++k l  E+
  PHY93_12370|PHY93_12370 359 SIVEKPLGTGTIAQVNKATMVyDdiEKVVAMRFLKPGVGERCKEDIAILRHFVPDNEKILLEQGvkdlKMMGTLIDSVEKFLDDEV 444
                              67799***************965456689*********************9998888776555443544667899*********** PP

                     ABC1  92 dferEAknaek 102
                              d++   + ++k
  PHY93_12370|PHY93_12370 445 DLSVAVERQKK 455
                              *9876555554 PP

>> DUF4635  Domain of unknown function (DUF4635)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.0      0.74   6.6e+03      59      76 ..      21      38 ..      20      45 .. 0.82
   2 ?   10.7   0.0   3.2e-05      0.28      71     123 ..     391     443 ..     377     452 .. 0.87

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 0.74
                  DUF4635 59 eCnyyqnpvasqgleyqt 76
                              C  +qnpv s   ey  
  PHY93_12370|PHY93_12370 21 SCSTVQNPVGSTPTEYFD 38
                             5999*****999888865 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 3.2e-05
                  DUF4635  71 gleyqtkepseePikvlrkWlkenlhvflekleeevreleqlvrdleeWldal 123
                               l+  + e  +e i +lr+++ +n +++le+  ++++ +  l+  +e++ld  
  PHY93_12370|PHY93_12370 391 FLKPGVGERCKEDIAILRHFVPDNEKILLEQGVKDLKMMGTLIDSVEKFLDDE 443
                              5555667899****************************************975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (717 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       633  (0.0353059); expected 358.6 (0.02)
Passed bias filter:                      432  (0.024095); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.65u 0.23s 00:00:00.88 Elapsed: 00:00:00.40
# Mc/sec: 5377.61
//
Query:       PHY93_12375|PHY93_12375  [L=482]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (482 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       727  (0.0405488); expected 358.6 (0.02)
Passed bias filter:                      417  (0.0232584); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.41
# Mc/sec: 3567.81
//
Query:       PHY93_12380|PHY93_12380  [L=202]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.5e-23   81.5   0.4    7.3e-23   81.1   0.4    1.2  1  LpoB      Peptidoglycan-synthase activator LpoB
    2.5e-05   23.7   0.1     0.0002   20.7   0.0    2.1  2  CsgG      Curli production assembly/transport component CsgG
     0.0023   18.3   0.0     0.0066   16.9   0.0    1.8  1  DUF3280   Protein of unknown function (DUF2380)


Domain annotation for each model (and alignments):
>> LpoB  Peptidoglycan-synthase activator LpoB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   81.1   0.4   1.2e-26   7.3e-23       1     145 [.      47     191 ..      47     193 .. 0.96

  Alignments for each domain:
  == domain 1  score: 81.1 bits;  conditional E-value: 1.2e-26
                     LpoB   1 dlqlaaeemvqsllssplveqllkkdgkrpvlvvssvkNkTse.hidtesltkkirraLlksgkvrfvsgaqrerareelreqqes 85 
                              d ++++ e+++++ + + +++++ ++gk+  ++v++v+N T e ++ ++ + +++ +++ k+g + +v++++r+++ +e+ +q+ +
  PHY93_12380|PHY93_12380  47 DTEKVILEAMKEMGEHKGLKRYTMEHGKQLKMFVGEVQNLTAEaYFPINDINDELLNEISKQGDFVLVDAEARQALLKEITYQN-D 131
                              678999999**********************************99**************************************9.9 PP

                     LpoB  86 glvdqstaaklgrligAdysLsGkissivkaeggekqvyykitleLtdvetgeivWsgek 145
                              g+vd++ta+k g+++gAd+++ G++  + ++  g++ ++y+++l+ td+++g+ ++  ++
  PHY93_12380|PHY93_12380 132 GMVDPKTAKKVGKQTGADLMIFGNVYMKPETRDGRTIKQYSVNLRITDIQSGLEIFRTRT 191
                              9***************************999**********************9997666 PP

>> CsgG  Curli production assembly/transport component CsgG
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.7   0.0   3.4e-08    0.0002      40      98 ..      97     156 ..      94     158 .. 0.95
   2 ?    0.3   0.0     0.059   3.5e+02     127     147 ..     170     191 ..     162     202 .] 0.73

  Alignments for each domain:
  == domain 1  score: 20.7 bits;  conditional E-value: 3.4e-08
                              HHHHHHHHHHHTTSEEEEE-TTHHHHHHHHHHHHHHHTTT.T-----S----SEEEEEEE CS
                     CsgG  40 lsdmLvqaLvksgwFvvlERedLqnlltErelirsgrkka.taaqlgkllgAdllveGsi 98 
                              ++d L ++  k g Fv+++ e  q+ll+E    + g  ++ ta+++gk +gAdl++ G +
  PHY93_12380|PHY93_12380  97 INDELLNEISKQGDFVLVDAEARQALLKEITYQNDGMVDPkTAKKVGKQTGADLMIFGNV 156
                              67889*****************************************************88 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.059
                              EEEEEEEEEETTT-.BEEEEEE CS
                     CsgG 127 nvtvdlRlVdvstg.evlasvt 147
                              + +v+lR+ d+++g e++  +t
  PHY93_12380|PHY93_12380 170 QYSVNLRITDIQSGlEIFRTRT 191
                              568*********9966665554 PP

>> DUF3280  Protein of unknown function (DUF2380)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0   1.1e-06    0.0066      28      87 ..      94     156 ..      78     195 .. 0.79

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 1.1e-06
                  DUF3280  28 laavteqlreaLaesgryevvdlapaaaeie...kesnlrkCngceadiArklgAdlvlvgev 87 
                              ++ ++++l ++++++g++ +vd ++++a ++    +++       +++++++ gAdl+++g v
  PHY93_12380|PHY93_12380  94 INDINDELLNEISKQGDFVLVDAEARQALLKeitYQNDGMVDPKTAKKVGKQTGADLMIFGNV 156
                              67899*****************999999888665334444446788999************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (202 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       870  (0.0485247); expected 358.6 (0.02)
Passed bias filter:                      508  (0.028334); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.42u 0.18s 00:00:00.60 Elapsed: 00:00:00.33
# Mc/sec: 1835.01
//
Query:       PHY93_12385|PHY93_12385  [L=231]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.035   14.1   0.0      0.086   12.8   0.0    1.6  1  HTH_37      Helix-turn-helix domain
      0.082   13.1   0.1        1.3    9.2   0.0    2.4  2  MatP_C      MatP C-terminal ribbon-helix-helix domain
      0.085   13.2   1.4       0.15   12.4   0.2    2.0  2  LPP20       LPP20 lipoprotein
       0.26   11.8   2.2       0.61   10.6   0.0    2.3  3  Spore_II_R  Stage II sporulation protein R (spore_II_R)


Domain annotation for each model (and alignments):
>> HTH_37  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   1.9e-05     0.086      11      57 ..      93     139 ..      90     149 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 1.9e-05
                              HHHHHHHHHHHHHHHHHHHCT--HHHHHHHHT--HHHHHHHHTT--T CS
                   HTH_37  11 eelkaKaqlalaiaeliekrelsqseaaqllgiaqPkvsrllrgkls 57 
                              ++++a++++a++i+ +iek   + +e  +    + Pk+s l+ +  +
  PHY93_12385|PHY93_12385  93 AKANARVDIASEITTFIEKTLGTSQEGNASIDLNGPKLSPLKEYMEN 139
                              6789*************************************987655 PP

>> MatP_C  MatP C-terminal ribbon-helix-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   0.0    0.0003       1.3      15      48 ..     128     161 ..     121     170 .. 0.84
   2 ?    1.0   0.0      0.11     5e+02      33      55 ..     202     224 ..     197     227 .. 0.82

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.0003
                   MatP_C  15 qrLsklsqrrgsTLSetivqLieeaerkekyeeq 48 
                               +Ls l + +++TL e ++ +i  a+  ++y eq
  PHY93_12385|PHY93_12385 128 PKLSPLKEYMENTLAEKVQSMIHGASVVKTYWEQ 161
                              499***********************99999887 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.11
                   MatP_C  33 vqLieeaerkekyeeqvsslked 55 
                              v+ +e+ e ke++++ ++++ e+
  PHY93_12385|PHY93_12385 202 VKKVEDPEAKENVKKALQNVSEN 224
                              66699********9999987665 PP

>> LPP20  LPP20 lipoprotein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.2   3.4e-05      0.15      24      85 ..      88     161 ..      71     169 .. 0.76
   2 ?   -2.3   0.1       1.3   5.8e+03      49      49 ..     210     210 ..     185     227 .. 0.46

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 3.4e-05
                    LPP20  24 l..raAkqnAlrdiaeqiqvqvksssstqets........aavqnsettnesv.sqvvesvlrgieivev.eel 85 
                              +  + Ak+nA++dia++i + + ++  t+++          + +  +++ e +  ++v+s + g+ +v++ +e+
  PHY93_12385|PHY93_12385  88 VacDIAKANARVDIASEITTFIEKTLGTSQEGnasidlngPKLSPLKEYMENTlAEKVQSMIHGASVVKTyWEQ 161
                              35589***********8887776666554444679998887777777765555599999999999999997764 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 1.3
                    LPP20  49 t 49 
                               
  PHY93_12385|PHY93_12385 210 A 210
                              1 PP

>> Spore_II_R  Stage II sporulation protein R (spore_II_R)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0       1.4   6.2e+03      42      53 ..      55      66 ..      22      79 .. 0.53
   2 ?   10.6   0.0   0.00014      0.61      21     102 ..      97     178 ..      86     187 .. 0.86
   3 ?    0.5   0.1      0.18   8.1e+02      16      34 ..     205     223 ..     182     230 .. 0.57

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 1.4
               Spore_II_R 42 skeeaeeliken 53
                              +e+ae ++k+n
  PHY93_12385|PHY93_12385 55 WIEDAEVWAKQN 66
                             233444444444 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 0.00014
               Spore_II_R  21 lKlkvrdavleeleellkeakskeeaeelikenleeieeiaeevlekegvdykvkvelgkeyfpekeYgdltlpaGeYealr 102
                               ++++  ++++ +e++l ++++ +++ +l   +l+ ++e +e++l+++  ++   +++ k+y++++eY++    + +++a++
  PHY93_12385|PHY93_12385  97 ARVDIASEITTFIEKTLGTSQEGNASIDLNGPKLSPLKEYMENTLAEKVQSMIHGASVVKTYWEQREYKKSLGAKEDFKAFT 178
                              456677788888888888888889999999999************************************9888777777765 PP

  == domain 3  score: 0.5 bits;  conditional E-value: 0.18
               Spore_II_R  16 eeDqklKlkvrdavleele 34 
                               eD + K +v++a+ +  e
  PHY93_12385|PHY93_12385 205 VEDPEAKENVKKALQNVSE 223
                              3444555555555444443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (231 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       854  (0.0476323); expected 358.6 (0.02)
Passed bias filter:                      474  (0.0264376); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.45u 0.21s 00:00:00.66 Elapsed: 00:00:00.36
# Mc/sec: 1940.81
//
Query:       PHY93_12390|PHY93_12390  [L=322]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.4e-08   34.9   0.8    5.9e-08   33.0   0.1    2.2  2  LPP20         LPP20 lipoprotein
  ------ inclusion threshold ------
       0.05   13.5   0.3       0.13   12.2   0.1    1.8  2  Complex1_51K  Respiratory-chain NADH dehydrogenase 51 Kd subu


Domain annotation for each model (and alignments):
>> LPP20  LPP20 lipoprotein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.0   0.1   6.6e-12   5.9e-08       1      93 [.      20     127 ..      20     130 .. 0.81
   2 ?   -0.3   0.1      0.15   1.4e+03      21      40 ..     292     311 ..     266     320 .. 0.61

  Alignments for each domain:
  == domain 1  score: 33.0 bits;  conditional E-value: 6.6e-12
                    LPP20   1 pdw...gvsspp.psqkyllgvGeaeslraAkqnAlrdiae....qiqvqvksssstqets.......aavqnsettnesvsqvve 71 
                              pdw   +v+ +p  +++yl++vG + +l +A  +A+++ a     +i+ + + sss++e+s       ++++ +e tn ++s+ ++
  PHY93_12390|PHY93_12390  20 PDWfsdYVKVNPgCDKEYLCAVGVGATLPEALSDARSEVAKffqnKIKSKTQVSSSSEEKSnqlganaSTGSFDEWTNKTISEETS 105
                              677776444444157788***********************8888777777777777777799**999999999999999999999 PP

                    LPP20  72 svlrgieiveveeledgkyyvl 93 
                                ++g ei ++e+++d++y+ l
  PHY93_12390|PHY93_12390 106 EMISGLEIRKQEQAGDHTYVLL 127
                              999**********877777655 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.15
                    LPP20  21 aeslraAkqnAlrdiaeqiq 40 
                              a+ +++A+++A+ +i e +q
  PHY93_12390|PHY93_12390 292 ARNSDQAIEKAIPEIKETLQ 311
                              22336666666666666555 PP

>> Complex1_51K  Respiratory-chain NADH dehydrogenase 51 Kd subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.1   1.4e-05      0.13      27     128 ..      79     179 ..      62     199 .. 0.70
   2 ?   -1.9   0.0      0.31   2.7e+03     111     127 ..     279     297 ..     249     319 .. 0.65

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 1.4e-05
             Complex1_51K  27 kkkylivNaaEcEPgltkDrllmreepheileGlkiaaealgaekgvigvrdekpeaiealekalaeakaaglldievvklagkYp 112
                              k++ l +Na+ +    ++++++ +e+ +e++ Gl+i ++    +++++ +  +  +++ +l+++++e ++++++ +e+   + +Yp
  PHY93_12390|PHY93_12390  79 KSNQLGANASTGSFDEWTNKTISEET-SEMISGLEIRKQEQAGDHTYVLLTLDRAKTATSLKEKIEELDTEDFQLLELN-SRFAYP 162
                              44677777777766666666666555.99***************************************99764333332.344566 PP

             Complex1_51K 113 aGeek.aLiesltgrev 128
                                +++  Lie+l++r  
  PHY93_12390|PHY93_12390 163 KMMKNlILIEALNDRYT 179
                              55444146777777733 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 0.31
             Complex1_51K 111 YpaGeekaLiesltgr..e 127
                               ++G+++aL e++ ++  +
  PHY93_12390|PHY93_12390 279 QVMGKMSALSEQVARNsdQ 297
                              4678888888887776552 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (322 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1307  (0.0728987); expected 358.6 (0.02)
Passed bias filter:                      564  (0.0314574); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 2341.59
//
Query:       PHY93_12395|PHY93_12395  [L=313]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (313 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       506  (0.0282224); expected 358.6 (0.02)
Passed bias filter:                      447  (0.0249317); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.39
# Mc/sec: 2409.45
//
Query:       PHY93_05745|PHY93_05745  [L=458]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.5e-41  140.2   0.0    7.6e-41  139.5   0.0    1.4  1  Complex1_51K  Respiratory-chain NADH dehydrogenase 51 Kd subu
      2e-08   34.2   0.0    3.8e-08   33.3   0.0    1.5  1  NADH_4Fe-4S   NADH-ubiquinone oxidoreductase-F iron-sulfur bi
    1.3e-06   28.2   0.1    3.7e-06   26.7   0.0    1.8  2  SLBB          SLBB domain


Domain annotation for each model (and alignments):
>> Complex1_51K  Respiratory-chain NADH dehydrogenase 51 Kd subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  139.5   0.0   1.3e-44   7.6e-41       2     151 ..      42     217 ..      41     218 .. 0.94

  Alignments for each domain:
  == domain 1  score: 139.5 bits;  conditional E-value: 1.3e-44
             Complex1_51K   2 keagivGrGGagfPthvKlkakakkkk..kylivNaaEcEPgltkDrllmreepheileGlkiaaealgaekgvigvrdekpeaie 85 
                              k++g++GrGGagfPt+vK+++   +k+  ky++vNaaE+EPg++kDr ++r++p  ++eG+ iaa++l+ ++++i+++++  ++  
  PHY93_05745|PHY93_05745  42 KASGLRGRGGAGFPTGVKWETLYVDKSeqKYVVVNAAEGEPGTFKDRFILRKNPYALIEGALIAAHVLNTTEIYIAIKNSFNQERV 127
                              789*****************987655567********************************************************* PP

             Complex1_51K  86 alekalaeakaagl...........ldievvklagkYpaGeekaLiesltgr.evprg..kppadvgv..........vvnNveTl 147
                              +le+al+e k+++            ++i++v++++ Y  GeekaL++ ++g   +pr    pp ++g+          +v+NveT+
  PHY93_05745|PHY93_05745 128 RLEDALREFKEQNElqnelqgelqdIHIHIVAGPEDYLFGEEKALLNVIEGIgPLPREahYPPYEIGLfatpnsrnpaLVSNVETY 213
                              ********9998889********9999*************************98888733689*********************** PP

             Complex1_51K 148 aavy 151
                              a v+
  PHY93_05745|PHY93_05745 214 ARVP 217
                              *998 PP

>> NADH_4Fe-4S  NADH-ubiquinone oxidoreductase-F iron-sulfur binding region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.3   0.0   6.4e-12   3.8e-08       3      83 ..     328     408 ..     326     410 .. 0.92

  Alignments for each domain:
  == domain 1  score: 33.3 bits;  conditional E-value: 6.4e-12
                              HHHHHHHHHHH--S--HHHHIIIIHHHHHHHHHTBT---HHHHHHHHHHHHHHSS--SSTHHHHHHHHHHHHHHHHHHHHH CS
              NADH_4Fe-4S   3 arrllefyaaesCGkCtpCreGtkrllelleriaagegteedldlleelaetikgtslCalgdsaanpvlsalrkFreefe 83 
                              ++ +++f+ +esC +Ct C+ G+     +l+++ a++ ++  ++++    ++  ++  C+l+ +   ++ s+++ F+eef 
  PHY93_05745|PHY93_05745 328 TQVIAKFLYRESCNQCTACKTGLGIASSALDNLLANNTDKLLIEKIILGVKSAPQSNRCFLPVQGSILIPSLINSFKEEFS 408
                              56789*********************************98888888888888889************************97 PP

>> SLBB  SLBB domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0       1.4   8.2e+03       6      14 ..     231     239 ..     230     239 .. 0.84
   2 !   26.7   0.0   6.2e-10   3.7e-06       4      37 ..     243     276 ..     240     286 .. 0.87

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 1.4
                              SSBSS-EEE CS
                     SLBB   6 GeVkrPgny 14 
                              G V++Pg++
  PHY93_05745|PHY93_05745 231 GTVETPGAI 239
                              99****975 PP

  == domain 2  score: 26.7 bits;  conditional E-value: 6.2e-10
                              EESSBSS-EEEEEETT-BHHHHHHTTT-SBSS.. CS
                     SLBB   4 VtGeVkrPgnyevpigttlsdlieqaGGltddad 37 
                              + G++krPg+ye+++g+t+++li+++G ++++ +
  PHY93_05745|PHY93_05745 243 LFGDIKRPGVYEIQPGLTIRELIDLYGLGPKEFN 276
                              6699***********************8887766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (458 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       604  (0.0336884); expected 358.6 (0.02)
Passed bias filter:                      476  (0.0265492); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.57u 0.21s 00:00:00.77 Elapsed: 00:00:00.40
# Mc/sec: 3470.25
//
Query:       PHY93_12400|PHY93_12400  [L=170]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (170 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       333  (0.0185733); expected 358.6 (0.02)
Passed bias filter:                      150  (0.00836633); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.21s 00:00:00.60 Elapsed: 00:00:00.35
# Mc/sec: 1438.63
//
Query:       PHY93_12405|PHY93_12405  [L=317]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.024   13.9   0.4      0.065   12.4   0.0    1.8  2  DUF4953        Met-zincin
      0.048   13.6   0.0       0.09   12.7   0.0    1.6  1  Reprolysin_2   Metallo-peptidase family M12B Reprolysin-like
      0.053   13.3   0.1        9.3    6.0   0.0    2.3  2  Peptidase_M48  Peptidase family M48
       0.14   12.1   0.0        0.2   11.5   0.0    1.3  1  Peptidase_M43  Pregnancy-associated plasma protein-A
       0.18   11.7   0.5       0.46   10.3   0.4    1.6  1  Peptidase_M10  Matrixin


Domain annotation for each model (and alignments):
>> DUF4953  Met-zincin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.1      0.37   1.3e+03     220     275 ..      60      82 ..      36     111 .. 0.56
   2 ?   12.4   0.0   1.8e-05     0.065      11      36 ..     145     170 ..     139     175 .. 0.87

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.37
                  DUF4953 220 yepvpkekQkeAldfllkevfepdalatpewllnllektgldydpvdrvealqssv 275
                              +   +k++Q++A d   +                                 ++s++
  PHY93_12405|PHY93_12405  60 VLLYSKNRQQKATDIYSD---------------------------------IKSRA 82 
                              334444555555443333.................................22333 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 1.8e-05
                  DUF4953  11 allrfvvaHEvGhtLGLrhNfaASsa 36 
                              ++l  + aHEvGh++G +h f A  a
  PHY93_12405|PHY93_12405 145 EALSLLLAHEVGHVIGPTHSFLANLA 170
                              68999****************99765 PP

>> Reprolysin_2  Metallo-peptidase family M12B Reprolysin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   2.5e-05      0.09     126     148 ..     148     170 ..      50     178 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 2.5e-05
             Reprolysin_2 126 idvvaHEvGHaFGatHdndgssa 148
                               +++aHEvGH  G tH +  + a
  PHY93_12405|PHY93_12405 148 SLLLAHEVGHVIGPTHSFLANLA 170
                              4679************9877654 PP

>> Peptidase_M48  Peptidase family M48
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   0.1    0.0049        18      62      76 ..     145     159 ..     129     172 .. 0.85
   2 ?    6.0   0.0    0.0026       9.3     131     192 ..     255     316 ..     223     317 .] 0.77

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.0049
                              HHHHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxx RF
            Peptidase_M48  62 eelaaVlGHElGHik 76 
                              e l   l+HE+GH+ 
  PHY93_12405|PHY93_12405 145 EALSLLLAHEVGHVI 159
                              667789*******85 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.0026
                              HHHHHHHHHHHHHHHHTTT.HHHHHHHHHH.HHHHTT--S---HHHHHHS-SS--HHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48 131 alSRkrEyqADeagvellkrakdlvralik.lakdlerqdvsaslrsellstHPplleRiqal 192
                              +++R +E  AD ++ e+lk+++ ++++ i+ +a  +e+++v+++l       HP  + Ri++l
  PHY93_12405|PHY93_12405 255 PFQR-EEAFADIVAREILKDEDLTLKKSINsFAFFCENAEVEKKLGHREPDPHPEMTYRIENL 316
                              5555.6999**********99987777665166678999*********************998 PP

>> Peptidase_M43  Pregnancy-associated plasma protein-A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   5.7e-05       0.2      56      90 ..     135     169 ..      88     213 .. 0.66

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 5.7e-05
            Peptidase_M43  56 GaylaadststnksstLthelGhfLgLihtfeggC 90 
                              G   + d++ +  s+ L+he+Gh +g  h f  + 
  PHY93_12405|PHY93_12405 135 GWIELVDNYPEALSLLLAHEVGHVIGPTHSFLANL 169
                              43334499999********************7663 PP

>> Peptidase_M10  Matrixin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.4   0.00013      0.46     109     127 ..     147     165 ..     135     176 .. 0.86

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00013
                              HHHHHHHHHHHHTTBESXS CS
                              xxxxxxxxxxxxxxxxxxx RF
            Peptidase_M10 109 lflVaaHEiGHalGLeHss 127
                              l l+ aHE+GH++G +Hs 
  PHY93_12405|PHY93_12405 147 LSLLLAHEVGHVIGPTHSF 165
                              67889************95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (317 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       552  (0.0307881); expected 358.6 (0.02)
Passed bias filter:                      462  (0.0257683); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.37
# Mc/sec: 2567.61
//
Query:       PHY93_12410|PHY93_12410  [L=165]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.1e-08   32.5   0.1    8.4e-08   32.1   0.1    1.3  1  DUF455        Protein of unknown function (DUF455)
    4.6e-07   30.3   2.3     0.0027   18.1   0.6    2.1  2  Rubrerythrin  Rubrerythrin
     0.0047   16.9   0.2     0.0071   16.3   0.2    1.3  1  Ferritin      Ferritin-like domain


Domain annotation for each model (and alignments):
>> DUF455  Protein of unknown function (DUF455)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.1   0.1   1.4e-11   8.4e-08      57     194 ..      26     161 ..       5     165 .] 0.84

  Alignments for each domain:
  == domain 1  score: 32.1 bits;  conditional E-value: 1.4e-11
                   DUF455  57 lgteesraallHalahiElnAidlaldaiarf.eelpreffkDwlkvaedEakHfsllaerLeelgseYGdlpahdgLwesaekta 141
                              l++ e+ +  +   a  E +A    l+a+  f +e+p++ +k w ++a +EakH s+l +rL e++ +  +lp+  gL++s+ k +
  PHY93_12410|PHY93_12410  26 LNSIEGIVDRIRIAAFAERQAYYAFLEAARIFaDEVPEDLVKAWKRIAMEEAKHESWLLKRLVEINQNVAELPVGLGLYNSFGKCE 111
                              55666666666666777888888888888888899************************************************999 PP

                   DUF455 142 kdllarlavvplvlEArGLDvtpalieklraagdeesaeiLevIledEitHVa 194
                               + +++   ++   E +G  +  +++e l+ + d +sa+i   I  +E++H++
  PHY93_12410|PHY93_12410 112 -TAREFTFYISDS-EEKGRLAGLKFVEALK-TRDPKSAKIFSDIAFEELDHIS 161
                              .666666666665.5566668888999997.78******************97 PP

>> Rubrerythrin  Rubrerythrin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.6   4.5e-07    0.0027       4      61 ..      37      95 ..      34     121 .. 0.91
   2 !   12.3   0.0   2.9e-05      0.17       9      47 ..     123     161 ..     119     165 .] 0.88

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 4.5e-07
                             HHHHHHHHHHHHHHHHHHHCHH.TT-HHHHHHHHHHHHHHHHHHHHHHHHHHHCSTTHH CS
             Rubrerythrin  4 ekAiagEssarrlYkelaekak.egypqiaelFeelAeeEreHakilnklleklepele 61
                              +A  +E +a+  + e a+ +  e  +++ ++ +++A eE++H+ +l k l +++++  
  PHY93_12410|PHY93_12410 37 RIAAFAERQAYYAFLEAARIFAdEVPEDLVKAWKRIAMEEAKHESWLLKRLVEINQNVA 95
                             578899***************9888899*************************999876 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 2.9e-05
                              HHHHHHHHHHHHHHCHHTT-HHHHHHHHHHHHHHHHHHH CS
             Rubrerythrin   9 gEssarrlYkelaekakegypqiaelFeelAeeEreHak 47 
                              +E+++r     + e +k + p++a++F ++A eE +H  
  PHY93_12410|PHY93_12410 123 SEEKGRLAGLKFVEALKTRDPKSAKIFSDIAFEELDHIS 161
                              6788888888899999*99******************75 PP

>> Ferritin  Ferritin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.2   1.2e-06    0.0071      11     130 ..      43     161 ..      37     165 .] 0.93

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 1.2e-06
                              HHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS....SHHHHHHC-SSSSCSSHHHHHHHHHHHHHHHH CS
                 Ferritin  11 eltaayqylamawyvkgpgleglaeffdeqaeeerehadklaerilalGgtpvltraeleeieapkefgsveevleaalehekkvt 96 
                              e +a+y +l  a+ + ++  e+l +  +  a ee +h   l++r+ ++++++   ++ l+ +++  ++++++e+   + ++e+k  
  PHY93_12410|PHY93_12410  43 ERQAYYAFLEAARIFADEVPEDLVKAWKRIAMEEAKHESWLLKRLVEINQNVAELPVGLGLYNSFGKCETAREFTFYISDSEEKGR 128
                              789***********************************************8888888888888888889***************** PP

                              HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHH CS
                 Ferritin  97 eslrelielaeeegDpatadfledfleeqeehew 130
                               +  + +e  ++  Dp++a ++ d+  e+ +h+ 
  PHY93_12410|PHY93_12410 129 LAGLKFVEALKTR-DPKSAKIFSDIAFEELDHIS 161
                              ********99985.****************9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (165 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       494  (0.0275531); expected 358.6 (0.02)
Passed bias filter:                      429  (0.0239277); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.39u 0.22s 00:00:00.61 Elapsed: 00:00:00.35
# Mc/sec: 1395.37
//
Query:       PHY93_12415|PHY93_12415  [L=215]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.7e-19   70.2   0.1    5.9e-19   68.5   0.0    1.8  2  F420_oxidored   NADP oxidoreductase coenzyme F420-dependent
    4.3e-06   27.0   0.0    2.2e-05   24.7   0.0    1.9  2  NAD_binding_2   NAD binding domain of 6-phosphogluconate dehy
     0.0011   18.6   0.1     0.0019   17.8   0.1    1.4  1  IlvN            Acetohydroxy acid isomeroreductase, NADPH-bin
     0.0066   16.3   0.1     0.0091   15.9   0.1    1.2  1  3HCDH_N         3-hydroxyacyl-CoA dehydrogenase, NAD binding 
     0.0066   16.4   0.1      0.016   15.2   0.1    1.7  1  NAD_Gly3P_dh_N  NAD-dependent glycerol-3-phosphate dehydrogen
  ------ inclusion threshold ------
      0.016   14.8   0.0      0.026   14.1   0.0    1.4  1  UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family,
       0.04   14.0   0.0      0.063   13.3   0.0    1.3  1  Shikimate_DH    Shikimate / quinate 5-dehydrogenase
      0.049   13.0   0.0      0.067   12.5   0.0    1.2  1  2-Hacid_dh_C    D-isomer specific 2-hydroxyacid dehydrogenase
      0.061   13.2   0.0       0.11   12.4   0.0    1.4  1  Rossmann-like   Rossmann-like domain
      0.076   12.7   0.1       0.24   11.1   0.1    1.9  2  ApbA            Ketopantoate reductase PanE/ApbA
      0.099   12.5   0.0       0.14   12.1   0.0    1.2  1  NAD_binding_10  NAD(P)H-binding


Domain annotation for each model (and alignments):
>> F420_oxidored  NADP oxidoreductase coenzyme F420-dependent
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.5   0.0   3.6e-22   5.9e-19       2      97 .]       6      97 ..       5      97 .. 0.97
   2 ?   -0.8   0.0       1.5   2.4e+03      60      81 ..     150     171 ..     119     189 .. 0.71

  Alignments for each domain:
  == domain 1  score: 68.5 bits;  conditional E-value: 3.6e-22
                             EEEETTSHHHHHHHHHHHHTTS-GGCEEEEEESSCCCHHHHHHHHC-EEECECHHHHHHH-SEEEE-S-HHHHHHHHHHCGHHHHTTS CS
            F420_oxidored  2 igiiGaGnmgealasgllaagaqpheivvansrnpekaeelaeelgvkvtavdneeaaeeadvvvlavkpedveevlselakdalkgk 89
                             i++iG+G++g al +g+l++g   ++++ + sr+p+k+ e++++ g k+  ++ eeaa+  ++vvlavk +++ ++++    +++kgk
  PHY93_12415|PHY93_12415  6 IAVIGSGDVGTALSNGFLQHG---YHVMRG-SRDPQKLSEWKKKSGEKARIGTFEEAAKYGNIVVLAVKGTAALSAIKLCGLENFKGK 89
                             9********************...****66.*************************************************99****** PP

                             EEEEESSS CS
            F420_oxidored 90 lvisvlag 97
                             +vi+v+++
  PHY93_12415|PHY93_12415 90 TVIDVTNP 97
                             ******97 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 1.5
                              HH-SEEEE-S-HHHHHHHHHHC CS
            F420_oxidored  60 eeadvvvlavkpedveevlsel 81 
                              +     +++ k ed ++v++e+
  PHY93_12415|PHY93_12415 150 QGKPTMFICGKNEDSKNVVREI 171
                              4455567777777777777776 PP

>> NAD_binding_2  NAD binding domain of 6-phosphogluconate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.7   0.0   1.4e-08   2.2e-05       1      91 [.       5      96 ..       5     101 .. 0.89
   2 ?   -0.1   0.0      0.58   9.5e+02     129     156 ..     154     182 ..     146     184 .. 0.65

  Alignments for each domain:
  == domain 1  score: 24.7 bits;  conditional E-value: 1.4e-08
                             EEEEE--SHHHHHHHHHHHHTT-EEEEE-SSHHHHHHHHHTT..EEE-SSHHHHHHHCSEEEE-SSSHHHHHHHHHSHCCC--TT-EE CS
            NAD_binding_2  1 kigfiGlGvMGsnmalnllkagykvavynrtkekveelvaeg..akaaesieelvasldvvitmvkagkavdeviegllealkkgdil 86
                             +i++iG G  G+ + + +l++gy+v+   r+++k+ e+ ++      + + ee+++  ++v++ vk ++a  ++    le++ kg+++
  PHY93_12415|PHY93_12415  5 NIAVIGSGDVGTALSNGFLQHGYHVMRGSRDPQKLSEWKKKSgeKARIGTFEEAAKYGNIVVLAVKGTAALSAIKLCGLENF-KGKTV 91
                             69**************************************985555677999999999********9999999887777776.79999 PP

                             EE-S- CS
            NAD_binding_2 87 idgst 91
                             id+++
  PHY93_12415|PHY93_12415 92 IDVTN 96
                             99987 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.58
                              EEEEEE-.HHHHHHHHHHHHHHEEEEEEE CS
            NAD_binding_2 129 simvGGs.eeafervkpvleaigakvthv 156
                              ++++ G+ e++ + v+++l+++g ++  +
  PHY93_12415|PHY93_12415 154 TMFICGKnEDSKNVVREILNQFGWEIEDM 182
                              55555550555566799999999877655 PP

>> IlvN  Acetohydroxy acid isomeroreductase, NADPH-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.1   1.2e-06    0.0019       5      68 ..       4      69 ..       1      80 [. 0.90

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 1.2e-06
                             S-EEEES-SHHHHHHHHHHHHTT--EEEEE-TT-H..HHHHHHHTT-EEEEHHHHHHT-SEEEE-S CS
                     IlvN  5 kkiaviGyGsqGhaqalnlrdsgldvvvglregsk..svkkAkeegfevltvaeavkkadvvmili 68
                              +iaviG G  G a ++ + + g +v+ g r+ +k   +kk + e  ++ t +ea+k  ++v++ +
  PHY93_12415|PHY93_12415  4 MNIAVIGSGDVGTALSNGFLQHGYHVMRGSRDPQKlsEWKKKSGEKARIGTFEEAAKYGNIVVLAV 69
                             58*****************************98854489999999999*************98765 PP

>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.1   5.6e-06    0.0091       1      44 [.       5      48 ..       5      80 .. 0.83

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 5.6e-06
                             EEEEE--SCCHHHHHHHHHHTT-EEEEE-S-HHHHHHHHHHHHH CS
                  3HCDH_N  1 kvaviGaGtmGagiaavfasagleVvlvdiseealekalekiek 44
                             ++aviG+G +G+ + + f+++g++V    +++++l + ++k  +
  PHY93_12415|PHY93_12415  5 NIAVIGSGDVGTALSNGFLQHGYHVMRGSRDPQKLSEWKKKSGE 48
                             69*******************************99998888766 PP

>> NAD_Gly3P_dh_N  NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.1   9.5e-06     0.016       1      41 [.       5      45 ..       5      80 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 9.5e-06
                             -EEEE--SHHHHHHHHHHHTTT--EEEE-S-HHHHHHHHHH CS
           NAD_Gly3P_dh_N  1 kiavlGaGswGtalAkvlaenghevrlwvreeelieeinee 41
                             +iav+G+G  Gtal++ + ++g +v+  +r+++ + e +++
  PHY93_12415|PHY93_12415  5 NIAVIGSGDVGTALSNGFLQHGYHVMRGSRDPQKLSEWKKK 45
                             59********************8888877777766665554 PP

>> UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   1.6e-05     0.026       1      43 [.       4      46 ..       4      66 .. 0.94

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 1.6e-05
                             SEEEEE--STTHHHHHHHHHHCTSEEEEE-S-HHHHHHHCTTS CS
           UDPG_MGDP_dh_N  1 mkisviGlGYvGlvtaavlaeighevigvDideekvdklnsgk 43
                             m+i+viG+G vG   +  + ++g +v+    d +k +++++++
  PHY93_12415|PHY93_12415  4 MNIAVIGSGDVGTALSNGFLQHGYHVMRGSRDPQKLSEWKKKS 46
                             89*************************************9875 PP

>> Shikimate_DH  Shikimate / quinate 5-dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   3.9e-05     0.063      13     122 ..       4     105 ..       1     113 [. 0.76

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 3.9e-05
                              -EEEEES-SHHHHHHHHHHHCCT-CEEEEEESSHHHHHHHHHHHT.ET-EEEEGCGHHHHHHT-SEEEE-SSSSS-SB-HHHHHCC CS
             Shikimate_DH  13 kkvlliGaGemaelvakhLlakgvkkvvvaNRtlerakelaeelkgeeiealkleelkellaeadvvisataseepilekeeveea 98 
                               ++ +iG G +++ + + +l++g++ v+   R+ ++ +e  ++ +++     ++   +e+ +  ++v+ a++ + ++   +     
  PHY93_12415|PHY93_12415   4 MNIAVIGSGDVGTALSNGFLQHGYH-VMRGSRDPQKLSEWKKKSGEK----ARIGTFEEAAKYGNIVVLAVKGTAALSAIKLC--- 81 
                              6899********************9.99999******9999998555....66777777778899999999887766433332... PP

                              HHH.S..EEEEE--SS-SB-TTGG CS
             Shikimate_DH  99 lkkrkkplllvDiavPRdvepeva 122
                                ++ k + ++D+++P d +p v+
  PHY93_12415|PHY93_12415  82 GLENFKGKTVIDVTNPIDEAPPVN 105
                              222225678999999966665555 PP

>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   4.1e-05     0.067      37     103 ..       4      73 ..       1      86 [. 0.86

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 4.1e-05
                              SEEEEES-SHHHHHHHHHHHHTT-EEEEESSSHHHHH...CHHHHTCEECSHHHHHHH-SEEEE-S--ST CS
             2-Hacid_dh_C  37 ktvGiiGlGrIGqavakrlkafgmkviaydrskkkee...eeeelgvelvsleellaesDivslhlpltp 103
                              + +++iG G++G+a+ + + + g +v+  +r ++k +   +++ ++++  ++ee+ +   iv+l++  t+
  PHY93_12415|PHY93_12415   4 MNIAVIGSGDVGTALSNGFLQHGYHVMRGSRDPQKLSewkKKSGEKARIGTFEEAAKYGNIVVLAVKGTA 73 
                              6799*************************9999977755444445567789*************998876 PP

>> Rossmann-like  Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   6.6e-05      0.11       9      77 ..       2      70 ..       1      90 [. 0.77

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 6.6e-05
            Rossmann-like  9 arlsvGiisaGrvGtalgaaleraghvvvgisaisaasreraerrlPdvpvlevedvaaraellllavP 77
                             +++++ +i++G vGtal++ + + g++v+  s   +   e  ++   +  + + e+ a+  ++++lav 
  PHY93_12415|PHY93_12415  2 PKMNIAVIGSGDVGTALSNGFLQHGYHVMRGSRDPQKLSEWKKKSGEKARIGTFEEAAKYGNIVVLAVK 70
                             578999*************99888877776655555555555556666777788889999999999986 PP

>> ApbA  Ketopantoate reductase PanE/ApbA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.1   0.00015      0.24       1      40 [.       6      46 ..       6     108 .. 0.84
   2 ?   -3.0   0.0       3.2   5.2e+03      72      88 ..     155     171 ..     131     175 .. 0.70

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00015
                             EEEES-SHHHHHHHHHHHHHTHCEEEE-SCH.HHHHHHHHC CS
                     ApbA  1 iailGaGaiGsllaakLakagadvtlilrsr.rlealkknG 40
                             ia++G+G +G+ l     ++g++v    r++ +l ++kk+ 
  PHY93_12415|PHY93_12415  6 IAVIGSGDVGTALSNGFLQHGYHVMRGSRDPqKLSEWKKKS 46
                             89****************************99999987764 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 3.2
                              EEE-SSGGGHHHHHHHH CS
                     ApbA  72 vivtvKayqteealeei 88 
                              ++++ K+ + +++++ei
  PHY93_12415|PHY93_12415 155 MFICGKNEDSKNVVREI 171
                              46677777777776665 PP

>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   8.3e-05      0.14       2      53 ..      10      60 ..      10      96 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 8.3e-05
                             TTSHHHHHHHHHHHHC-T-EEEEEETTHHHCHHHHCTTTCEEEE--TT-CCH CS
           NAD_binding_10  2 AtGkvGrllvkellargghevtalvRnpeklaeleaeeglevvegdvtdved 53
                             ++G vG +l +  l++ g++v    R+p+kl+e ++++g ++  g ++++++
  PHY93_12415|PHY93_12415 10 GSGDVGTALSNGFLQH-GYHVMRGSRDPQKLSEWKKKSGEKARIGTFEEAAK 60
                             68**************.5**************99988888887777776554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (215 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       394  (0.0219756); expected 358.6 (0.02)
Passed bias filter:                      373  (0.0208043); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 1616.53
//
Query:       PHY93_12420|PHY93_12420  [L=227]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.7e-19   68.9   0.3    9.5e-18   64.9   0.3    2.0  1  Lactamase_B    Metallo-beta-lactamase superfamily
     0.0067   16.0   0.1     0.0097   15.4   0.1    1.4  1  Lactamase_B_2  Beta-lactamase superfamily domain


Domain annotation for each model (and alignments):
>> Lactamase_B  Metallo-beta-lactamase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.9   0.3   1.1e-21   9.5e-18       4     197 .]      11     171 ..       8     171 .. 0.90

  Alignments for each domain:
  == domain 1  score: 64.9 bits;  conditional E-value: 1.1e-21
                              CSSEEEEEE..ETTCEEEES--SCHHHHHHHHHHHHHTSGGGGEEEEE-SBSSHHHHTTGGGCTTHHCCEETCCEHHHHCCHCHHH CS
              Lactamase_B   4 dpvnsylie..gdggviLiDtGtsteaaraalelaalglkpkdvdavilTHlHlDHiGglgglveatdvpvgavaeeapalfmeea 87 
                              +++++yl+     ++++LiDt +++   +++l    +   ++ ++++i TH H+DHi g g+l+++t++++++ +e++ +  +  +
  PHY93_12420|PHY93_12420  11 TSTFTYLLAdeFTNEAVLIDTVLENVDRDLKL----ISEMGLILKYIIDTHVHADHITGSGELRKRTGAKTAISSEALVSCADISL 92 
                              6788999995555****************986....********************************************999888 PP

                              HHHHHHCCHHTTCHCGCCEEEEETTTEECCCTEEEEEHECTTSTSCCEEEEEETTCCEEEECTTTSSHHCCCCCC.TTCEEE-SHC CS
              Lactamase_B  88 ddaasrkglllagvsadkpdvdeeeldgnaggrralyvtggpghghghgvveygggkvlftGDallagetgridltlrgaevrdps 173
                                                      e+d++ +g  +l++  +pgh++++++++   ++++ftGD+ll++ tgr+d+     + +d++
  PHY93_12420|PHY93_12420  93 -----------------------KEGDEINFGKYSLKALKTPGHTNSCMSFTT--DGIVFTGDVLLIRGTGRTDF-----QEGDAQ 148
                              .......................889999999999999999999999888876..78******************.....999999 PP

                              HHHHHHHHHHHHHHHCHSEEEE.SS CS
              Lactamase_B 174 daekyldsllklaglkaevlvp.gH 197
                                 +++   +k+++l++e+ v+ +H
  PHY93_12420|PHY93_12420 149 KMYDSI--TKKIFTLPPETKVYpAH 171
                              999999..79999******776688 PP

>> Lactamase_B_2  Beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.1   1.1e-06    0.0097       3      57 ..      27      76 ..      26     135 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 1.1e-06
                             EEES--TTHHHHHTCGGS--SSS--..SEEEEE-SS--HHHHGGGGCCCCC--EE CS
            Lactamase_B_2  3 iLiDagpdlrqqalralqPvelrdelppidaVllthaHyDHlaglltlrelrpkk 57
                             +LiD++++ +   l++       +    ++ ++ th H+DH++g   lr++++ k
  PHY93_12420|PHY93_12420 27 VLIDTVLENVDRDLKLI-----SEMGLILKYIIDTHVHADHITGSGELRKRTGAK 76
                             56677776555533333.....112225789999****************65543 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (227 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       354  (0.0197445); expected 358.6 (0.02)
Passed bias filter:                      324  (0.0180713); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1723.71
//
Query:       PHY93_12425|PHY93_12425  [L=557]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.6e-41  142.1   1.9      3e-41  141.3   1.9    1.5  1  MS_channel  Mechanosensitive ion channel


Domain annotation for each model (and alignments):
>> MS_channel  Mechanosensitive ion channel
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  141.3   1.9   1.6e-45     3e-41       2     200 ..     335     532 ..     334     538 .. 0.93

  Alignments for each domain:
  == domain 1  score: 141.3 bits;  conditional E-value: 1.6e-45
                              .HHHHHHHHHHHHHHHHTTT--SCCHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTT-SS-TT-EEESS.SEEEEEEEE-SSEEEE CS
               MS_channel   2 kilkiliivvgilivlsllgvnvsallavlGalglalglalkdlisnlvaGiillfekpfkiGDlveig.dieGtVediglrttki 86 
                              k +k+ ++++g ++v ++l ++v+++la+lG++g+a++la+kd+isnl++++++++++pf+iGD+v ++ +ieGtVe++g+r+t++
  PHY93_12425|PHY93_12425 335 KTTKVFVVAFGAILVAHSLTFDVASILAGLGIGGVAVALAAKDTISNLFGSVTVIIDRPFQIGDYVSLEkNIEGTVEQVGFRSTRL 420
                              7899****************************************************************99**************** PP

                              EETTSEEEEEEHHHHHTS-EEESSS.SSEEEEEEEEEE-TTS-...HHHHHHHHHHHHHH-TTB-TTS-EEEEEEEE-SSSEEEEE CS
               MS_channel  87 rtfdgrivtiPnsslvtsnieNlsresgtrrikvsigvtyssdvkklekvleelkealkekpevlkdkellvvldefgdsslnfev 172
                              rt+ +++vt Pns l++ +i N+ + +  rr k+  +++y+++  k+e+ +e+++  ++ +p ++k ++  v l e+  ssl++ +
  PHY93_12425|PHY93_12425 421 RTPYNSLVTLPNSVLANMAIDNYGM-RRVRRYKTFLQLEYATPLVKIEEYCERIRYLIQLNPIIQK-ENAIVTLFEMNSSSLDIML 504
                              *************************.************************************9996.888899999********** PP

                              EEEEET...TTHHHHHHHHHHHHHHHHH CS
               MS_channel 173 rvfvktvvpeeylsvqseinlrikkile 200
                               vf  t +++  l+ +++++++i k  e
  PHY93_12425|PHY93_12425 505 IVFFVTDDYKTELAERHKFIYEILKLAE 532
                              9999997777777777777777766655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (557 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       707  (0.0394333); expected 358.6 (0.02)
Passed bias filter:                      388  (0.0216409); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.67u 0.27s 00:00:00.94 Elapsed: 00:00:00.49
# Mc/sec: 3419.53
//
Query:       PHY93_12430|PHY93_12430  [L=82]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (82 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       516  (0.0287802); expected 358.6 (0.02)
Passed bias filter:                      333  (0.0185733); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.24s 00:00:00.64 Elapsed: 00:00:00.42
# Mc/sec: 592.98
//
Query:       PHY93_12435|PHY93_12435  [L=350]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      8e-70  235.5   0.0    1.1e-69  235.0   0.0    1.2  1  Arginase      Arginase family
     0.0078   16.5   0.0      0.015   15.6   0.0    1.4  1  MetallophosN  N terminal of Calcineurin-like phosphoesterase
  ------ inclusion threshold ------
      0.024   14.9   0.0      0.048   13.9   0.0    1.5  1  UPF0489       UPF0489 domain
      0.027   15.0   1.5      0.065   13.8   1.5    1.6  1  FeoB_Cyto     FeoB cytosolic helical domain
        0.1   12.7   0.1       0.36   11.0   0.1    1.9  2  SpoIIID       Stage III sporulation protein D


Domain annotation for each model (and alignments):
>> Arginase  Arginase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  235.0   0.0   3.1e-73   1.1e-69       2     277 ..      29     338 ..      28     340 .. 0.83

  Alignments for each domain:
  == domain 1  score: 235.0 bits;  conditional E-value: 3.1e-73
                              EEEEEEEE--TTTSSSGGGGGHHHHHHHHHHTSBTHCHEETTTTESCCSEEE.......................EEEEEE--... CS
                 Arginase   2 dvallGvPfdaagsgrpGarfGPraireasarleealeynlelgvleelkiv.......................dlgdvavt... 61 
                              +v+ ++vP+d+++s+++G+++GP+ai+ as++++    ++l+  + +++ ++                       d      +   
  PHY93_12435|PHY93_12435  29 QVVYIPVPWDVTTSYQAGTSKGPSAILGASEQIDF---FDLDFVDAYQAGLFmkkesakikklntegrllakkiiD------Adde 105
                              68899*****************************7...44433323344444445555555777667776666663......0344 PP

                              ...............SSCHHHHHHHHHHHHHHHHHTTCEEEEEESSGGGHHHHHHHHHHHHSTTEEEEEESSS----SSCTTTBSS CS
                 Arginase  62 ...............pvdneevleqieeavaeilkagklpivlGGDHsialgilralaekygkplgvihfDAHaDlrtpetegsgn 132
                                              + +e++++++++++++il+++k+ +v+GGDH   +g+++a+aeky+ +lg++hfDAH D+r ++  g++n
  PHY93_12435|PHY93_12435 106 amkknkvlqknlakvNQICEDLNQEVYKETKSILDKNKISVVVGGDHATPFGAIKAYAEKYP-KLGILHFDAHSDTRIAY-MGFEN 189
                              4446676666654432344556**************************************98.5****************.9**** PP

                              STTSHHHHHHHHTSECGCEEEEEEE-STCSHHHHHH.HHTTSEEEEHHHHHHHHH.HHHHHHHHHHH.TCTTSEEEEEEEGGGBBT CS
                 Arginase 133 shGtpfrraaeegllkpkklvqiGirsvdneeyela.kelgirvitmreidelgl.kavveeilerv.gaeedpvylSfDiDvlDp 215
                              sh++++++++ e+++  +klvq+Gir++ ++e+ +   + +i+++ ++ i ++++  +  ++i + + ++ +++vy+SfDiD+lDp
  PHY93_12435|PHY93_12435 190 SHASIMHNVM-EKIPGVSKLVQVGIRDFCEQEFLYTqGNKKIEMYFDQTIARRKMsGESFQKIAREIvSHLPEHVYISFDIDGLDP 274
                              **********.99******************9999987789************99645666665555366899************* PP

                              TTSTSSSS-BSS-B-HHHHHHHHHH.HHCHSEEEEEEEE-B-GG.GSSTTTHHHHHHHHHHHHH CS
                 Arginase 216 avaPGtGtpepgGltlrellallre.laeklnlvgaDvvEvnPa.ldteaeqtarlaarlvrel 277
                               ++P tGtp+pgGl+++e++ +++e + + ++lvg+D+vEv+P+  d+++e++a++++rl++++
  PHY93_12435|PHY93_12435 275 RFCPNTGTPVPGGLDYQEVMLIINElVGSGKKLVGFDLVEVAPNpKDKSNEWDANVGMRLLYKM 338
                              *************************5566899**********96267778************94 PP

>> MetallophosN  N terminal of Calcineurin-like phosphoesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   4.1e-06     0.015      22      58 ..      11      47 ..       8      64 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 4.1e-06
             MetallophosN 22 tkTdakGrYeLk.sdkkakfVyistPagyevptedgll 58
                              +T ++G Y L+ ++++a++Vyi +P + +++++ g +
  PHY93_12435|PHY93_12435 11 KATSKDGIYGLPfKESEAQVVYIPVPWDVTTSYQAG-T 47
                             689*************************99999888.4 PP

>> UPF0489  UPF0489 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   1.3e-05     0.048       6      74 ..     151     222 ..     146     232 .. 0.64

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 1.3e-05
                  UPF0489   6 sHheaLeaiyraigskklpsdlslvHlDaHpDllipk....kmsaddvf.nallkil.ekl.aeelleelsidnwI 74 
                              +H   + ai  + ++k+  ++l ++H+DaH D+ i+     + s+  ++ n  +ki+  ++ ++  ++++++ +++
  PHY93_12435|PHY93_12435 151 DHATPFGAIKAY-AEKY--PKLGILHFDAHSDTRIAYmgfeN-SHASIMhNVMEKIPgVSKlVQVGIRDFCEQEFL 222
                              555555555555.4444..8999***********99877752.333333033344555444577777777776666 PP

>> FeoB_Cyto  FeoB cytosolic helical domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   1.5   1.8e-05     0.065      24      74 ..      89     139 ..      73     146 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 1.8e-05
                FeoB_Cyto  24 klppRwlAlklLegDeelleelkedpelraeveearkeleaelgedledvI 74 
                              + + R lA k+++ D+e++++ k  +++ a+v+++++ l++e  +++++++
  PHY93_12435|PHY93_12435  89 NTEGRLLAKKIIDADDEAMKKNKVLQKNLAKVNQICEDLNQEVYKETKSIL 139
                              555799*****************889****************999998875 PP

>> SpoIIID  Stage III sporulation protein D
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.1    0.0001      0.36      41      74 ..     121     154 ..     105     160 .. 0.86
   2 ?   -2.1   0.0       1.2   4.2e+03      28      57 ..     186     215 ..     175     220 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.0001
                  SpoIIID  41 terLkkinkklakqvkevLeknkaeRhiRGGeat 74 
                               ++ +++n++++k+ k++L+knk    + G +at
  PHY93_12435|PHY93_12435 121 NQICEDLNQEVYKETKSILDKNKISVVVGGDHAT 154
                              5667899****************98888777776 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 1.2
                  SpoIIID  28 vfgvskstvhkDvterLkkinkklakqvke 57 
                               f  s + + ++v e+++ + k +   +++
  PHY93_12435|PHY93_12435 186 GFENSHASIMHNVMEKIPGVSKLVQVGIRD 215
                              577788888888999998888877666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (350 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1012  (0.0564449); expected 358.6 (0.02)
Passed bias filter:                      612  (0.0341346); expected 358.6 (0.02)
Passed Vit filter:                        63  (0.00351386); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.38
# Mc/sec: 2762.76
//
Query:       PHY93_12440|PHY93_12440  [L=360]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.8e-28   97.7   1.6    1.4e-27   97.1   1.6    1.3  1  Ring_hydroxyl_A  Ring hydroxylating alpha subunit (catalytic 
    9.4e-14   51.1   0.2    1.7e-13   50.3   0.2    1.4  1  Rieske           Rieske [2Fe-2S] domain


Domain annotation for each model (and alignments):
>> Ring_hydroxyl_A  Ring hydroxylating alpha subunit (catalytic domain)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   97.1   1.6   1.6e-31   1.4e-27       4     213 ..     155     358 ..     142     359 .. 0.87

  Alignments for each domain:
  == domain 1  score: 97.1 bits;  conditional E-value: 1.6e-31
                              HHGGGHHHHHESS-HHHHHHHHHHCCCCCTTTHHHHHHCS-TTS---EEEEE-SSSS-EEEEEES-THHHHHHHHHHHHHHHHSHH CS
          Ring_hydroxyl_A   4 llrvaaetldikaNWKlaaEnflEsYHvpvlHpellrallpeeletaeaaeyagfgphgsgsyvgqpgdlrlepaaavreldaeaa 89 
                              +   + +t ++++NWK  ++ f E YHvp++Hp  + ++  +  +       +++ +h ++  +  + + +le+ + +++++ ++ 
  PHY93_12440|PHY93_12440 155 MVYSKTFTDKLNFNWKNYIDGFAEDYHVPFVHPGFAGFVELKSIS-------WIDHEHYTSQIFKLKDRNFLENHKTTPKYQLWVK 233
                              44555566679************************8888888888.......6666666666667777777888888888888888 PP

                              HHHHHGCHHHHCEEEEEEEETTTEEEE..TTTTEEEEEEESSTT-EEEEEEEEEETT...S-HHHHHHHHHHHHHHCSTTHHHHHH CS
          Ring_hydroxyl_A  90 apelegledeqdrgalhftifPnlsillapdhvvifrviPtgpettevelealvppdat.aseelkeelaavvdrtfgvveeeDae 174
                              + ++  +   +++g++ ++++Pn++i+++p ++ i +v+Ptgp+t+  +++++ ++d     +el+++++a++ +    +++eDae
  PHY93_12440|PHY93_12440 234 KFLEYYPSTLPKFGGILIMYYPNIMIEWYPLFMAISTVHPTGPDTCVNHIDFFHHQDVIeNHPELRDAAEAAYIE----TADEDAE 315
                              8888899**************************************************986678889999999999....9****** PP

                              HHHHHHHH...TTSTTT.SBSCCCSCSSHHHHHHHHHHHHHHT CS
          Ring_hydroxyl_A 175 lceevQqg...lrsrgy.epgpvlsrqEeavrhFhewvrdrvs 213
                              +ce++ +g   l  +g  e+gp++ + E+++  Fh+ + ++++
  PHY93_12440|PHY93_12440 316 MCERLAAGrkiLYDEGReEQGPYQAPYEDGLVMFHRYYHQMMK 358
                              ********55544455569**********************97 PP

>> Rieske  Rieske [2Fe-2S] domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.3   0.2   1.9e-17   1.7e-13       4      81 ..      32     108 ..      29     116 .. 0.89

  Alignments for each domain:
  == domain 1  score: 50.3 bits;  conditional E-value: 1.9e-17
                              EEEEGGGC-.TTCEEEEEETTEEEEEEE-TTS-EEEEESC-TTTT-BCGGSEEETT.EEE-TTT--EEETTSBEEE-TT CS
                   Rieske   4 avakesdvp.egdpltvkvggeplvvlrdedgevyAlsdvCtHrgaplsegkidekgvleCpcHgwaydadGkvikgPa 81 
                              ++  +s ++ e+d++ v++++++ ++ + ++g++  +++vC+Hr+a++ +g++ + ++++Cp+H w+yd +G ++++P 
  PHY93_12440|PHY93_12440  32 YIGTTSRLKkEDDYHVVERLHDAKILTK-KNGKINLIENVCSHRQAKMISGSG-NAQNITCPLHCWSYDGNGTCTNTPL 108
                              6778899998888999999999999999.5******************99999.5569******************996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (360 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       459  (0.025601); expected 358.6 (0.02)
Passed bias filter:                      315  (0.0175693); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.19s 00:00:00.65 Elapsed: 00:00:00.36
# Mc/sec: 2983.13
//
Query:       PHY93_12445|PHY93_12445  [L=261]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.8e-09   36.2   0.0    5.4e-09   35.7   0.0    1.2  1  Hydrolase_4    Serine aminopeptidase, S33
    2.5e-05   24.1   0.1    0.00051   19.8   0.1    2.0  1  Abhydrolase_1  alpha/beta hydrolase fold
    0.00032   21.4   0.0    0.00036   21.2   0.0    1.1  1  Abhydrolase_6  Alpha/beta hydrolase family
  ------ inclusion threshold ------
      0.064   12.8   0.0       0.12   11.8   0.0    1.6  1  DUF676         Putative serine esterase (DUF676)
       0.11   12.1   0.0        6.2    6.3   0.0    2.8  2  DLH            Dienelactone hydrolase family
       0.42   10.4   2.0         21    4.8   0.1    3.0  3  Abhydrolase_2  Phospholipase/Carboxylesterase


Domain annotation for each model (and alignments):
>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.7   0.0   1.8e-12   5.4e-09       2     237 ..       4     239 ..       3     241 .. 0.82

  Alignments for each domain:
  == domain 1  score: 35.7 bits;  conditional E-value: 1.8e-12
              Hydrolase_4   2 epkavvvlvHGlaehsgryaelaeaLaaqGfavyalDhrGhGrsegkrghvpsfddyvdDlaafvekvkeehpelplfllGhSmGG 87 
                              + +++v+l+HGl+     ++ l ++L ++Gf+v      GhG +     +  +++ + + +++ +e++ +e++     + G  +G+
  PHY93_12445|PHY93_12445   4 KKRHAVLLLHGLGGGLAEMSYLKKRLEEEGFHVEVPLLPGHGTH-FSDLKYIKWEVFAEAASQNFERLSKEYESV--SVSGLCLGA 86 
                              6799***************************************9.66666779****************887655..89******* PP

              Hydrolase_4  88 liallyllrypdkvaglilsaPalkik.aklk.appllklllkllgkllpklqvsnnlkadslsrdpevvaayeadplv.hgkitv 170
                              +++l ++ +  dkv+++  +++ l ++ ++l+ + +++ +++ +      +l+  ++   ++    ++v  ++ + + +   ki  
  PHY93_12445|PHY93_12445  87 VLSLYLGIKFGDKVRAISPISTTLFYDgWSLPyLGRFMTFFRYTPFYYTYNLPEGEPYGIKDERIRRWVASKMSDTSTThYSKIPF 172
                              ***************8887776665550444555555555444444444444445555555555566667777777777789**** PP

              Hydrolase_4 171 rlllelldamkrleeraakitlPllllhGeaDkvvdpeasrelyerlgskdktlklypglyHellnE 237
                              r +++++ + ++++++ +ki++P++ +h  +D v + +  + +  +l+s+     + +  yH    +
  PHY93_12445|PHY93_12445 173 RSFWQMHLLNNFVRANLHKISTPVFAIHPLEDDVSSIKSVEFMKTNLTSTTFDNLILHDSYHLATID 239
                              *************************************999999999***999999999999976655 PP

>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.8   0.1   1.7e-07   0.00051       2     106 ..       8     108 ..       7     241 .. 0.89

  Alignments for each domain:
  == domain 1  score: 19.8 bits;  conditional E-value: 1.7e-07
                              EEEEE-STTTCGGGGTTGHHHHHHHHTTSEEEEEEETTSTTSSSTTTGB.CHHSHHHHHHHHHHHHHHCTTSSEEEEEETHHHHHH CS
            Abhydrolase_1   2 vlvilhGlpgssdvwaerglapaLakdgfdvillDlrGvgySspapacinddygtasvaddldrildalgddkltlvGhSmGGmia 87 
                              ++++lhGl+g++       l + L+++gf+v ++ l+G+g     +  i   ++ ++ a++ ++ + +   +++ + G ++G  ++
  PHY93_12445|PHY93_12445   8 AVLLLHGLGGGLAEMSY--LKKRLEEEGFHVEVPLLPGHGTHFSDLKYIK--WEVFAEAASQNFERLSKEYESVSVSGLCLGAVLS 89 
                              79***********9999..***********************99999754..5554445555566********************* PP

                              HHHHHHHGGGEEEEEEESE CS
            Abhydrolase_1  88 layaaeyperVkalvllga 106
                              l++  ++ ++V+a+  +++
  PHY93_12445|PHY93_12445  90 LYLGIKFGDKVRAISPIST 108
                              *************976666 PP

>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.2   0.0   1.2e-07   0.00036       1     135 [.       9     155 ..       9     247 .. 0.51

  Alignments for each domain:
  == domain 1  score: 21.2 bits;  conditional E-value: 1.2e-07
                              EEEE--GC.....GC.HHHH.HHHHCCT.CEEEEE--TTSTS-GGCS--HHHCHHH.HHHHCCTT.........TTSEEEEEETCH CS
            Abhydrolase_6   1 vlllHGagssassWl.vapL.aallaag.vhvlapDlpGhGrsdpppldledladl.aalldelaa.......gggpvvlvGHSlG 75 
                              vlllHG+g++    + ++ L  +l     +hv +p lpGhG ++ ++l +   + + +a+     +        +  v + G +lG
  PHY93_12445|PHY93_12445   9 VLLLHGLGGG---LAeMSYLkKRLEE-EgFHVEVPLLPGHG-THFSDLKYIKWEVFaEAAS----QnferlskEYESVSVSGLCLG 85 
                              89****8854...3223455333333.36999*********.6666655533233322222....2222355567999******** PP

                              HHHHHHHHHCC..EE...EEES-..----TTTS----TTHHHHHHTT-C.CCCHCCH...........S-HSCCC CS
            Abhydrolase_6  76 Galalaaaplalvvg...vlldppptalpagllaaalelllallallrl.lawlsre...........plprlfl 135
                              ++l+l    l + +g    +++p +  + + +  + l++l ++++ +r  + + +++            + r+++
  PHY93_12445|PHY93_12445  86 AVLSLY---LGIKFGdkvRAISPIS--TTLFYDGWSLPYLGRFMTFFRYtPFYYTYNlpegepygikdERIRRWV 155
                              ******...9966666779999933..333335555555555555333321222221211111111112222222 PP

>> DUF676  Putative serine esterase (DUF676)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   4.2e-05      0.12       2      92 ..       3      88 ..       2     125 .. 0.70

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 4.2e-05
                   DUF676  2 skkdhLvVlvHGlqgnsaDlelikeqlekikeklpeekieflmsennesktfkgidvlgerlaee.vlevvkkkkdknkkiSfvghSl 88
                             skk h v l HGl g  a++ ++k+ le+   +  +  + +l  +++    f++++++   +  e   + +++ +++++ +S+ g  l
  PHY93_12445|PHY93_12445  3 SKKRHAVLLLHGLGGGLAEMSYLKKRLEE---EGFHVEVPLLPGHGT---HFSDLKYIKWEVFAEaASQNFERLSKEYESVSVSGLCL 84
                             7899************************9...333444444444443...45555555555544414456666666666777777777 PP

                   DUF676 89 Ggli 92
                             G + 
  PHY93_12445|PHY93_12445 85 GAVL 88
                             7665 PP

>> DLH  Dienelactone hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.3   0.0    0.0021       6.2      83     119 ..      61      96 ..       2     105 .. 0.55
   2 ?    0.7   0.0      0.11   3.2e+02     139     173 ..     188     222 ..     181     252 .. 0.84

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.0021
                      DLH  83 kaavaylksvpevstkkvgvvGfCmGGalalllaaev 119
                              +aa +  +  + ++ + v v G C+G+ l+l+l  + 
  PHY93_12445|PHY93_12445  61 EAASQNFERLS-KEYESVSVSGLCLGAVLSLYLGIKF 96 
                              33344444555.3336788999999999988876665 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.11
                      DLH 139 eaakikapilalfgeeDefipadevekleealkaa 173
                              + +ki++p++a++  eD +   ++ve ++ +l+  
  PHY93_12445|PHY93_12445 188 NLHKISTPVFAIHPLEDDVSSIKSVEFMKTNLTST 222
                              56799*************99999999998888554 PP

>> Abhydrolase_2  Phospholipase/Carboxylesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.1    0.0071        21      11      25 ..       3      17 ..       2      45 .. 0.85
   2 ?    2.8   0.0      0.03        90     105     140 ..      75     110 ..      57     116 .. 0.85
   3 ?    0.7   0.1      0.13   3.9e+02     151     184 ..     188     221 ..     157     239 .. 0.72

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.0071
                             S---EEEEEE--TT- CS
            Abhydrolase_2 11 dkaqavviflHGlGd 25
                             +k++++v++lHGlG 
  PHY93_12445|PHY93_12445  3 SKKRHAVLLLHGLGG 17
                             578899*******95 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.03
                              GGEEEEEETHHHHHHHHHHHT-SS--SEEEEES--- CS
            Abhydrolase_2 105 sriiigGFSqGaalalylaltlpkklggivafsgal 140
                              + + + G   Ga+l+lyl+++   k++ i  +s +l
  PHY93_12445|PHY93_12445  75 ESVSVSGLCLGAVLSLYLGIKFGDKVRAISPISTTL 110
                              5677889999***********999999998888776 PP

  == domain 3  score: 0.7 bits;  conditional E-value: 0.13
                              -GGGGG-EEEEEEETT-SSS-HHHHHHHHHHHHT CS
            Abhydrolase_2 151 tavtkklpilqiHgeeDpvvplalgkaakevlkk 184
                              ++    +p++ iH  eD v  +   + +k  l++
  PHY93_12445|PHY93_12445 188 NLHKISTPVFAIHPLEDDVSSIKSVEFMKTNLTS 221
                              3333469******999999777666655555544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (261 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       631  (0.0351944); expected 358.6 (0.02)
Passed bias filter:                      523  (0.0291706); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.36
# Mc/sec: 2147.27
//
Query:       PHY93_05750|PHY93_05750  [L=234]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.4e-12   47.4   2.0    2.2e-12   46.8   2.0    1.3  1  ADPrib_exo_Tox  ADP-ribosyltransferase exoenzyme
  ------ inclusion threshold ------
      0.073   13.0   0.1       0.11   12.4   0.1    1.2  1  Claudin_3       Tight junction protein, Claudin-like


Domain annotation for each model (and alignments):
>> ADPrib_exo_Tox  ADP-ribosyltransferase exoenzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.8   2.0   2.4e-16   2.2e-12      18     186 ..      47     208 ..      22     217 .. 0.73

  Alignments for each domain:
  == domain 1  score: 46.8 bits;  conditional E-value: 2.4e-16
                              HHHHHHHHHHCCTT...HHHHHHHHHC..TTTSGGGS-SCHHHHHHHHHHHHCCT-.B-SS-EEEEEEE-GGGG-HHHHTT-HHHH CS
           ADPrib_exo_Tox  18 ssekeaireYtgsg...ysdINnyLrq..nkgerndldkselekkiknldsaleks.ripeniivYRrvdeaelgleldskneekv 97 
                              ++e ++++ Y  ++   y++INnyLr    ++e ++ + ++ +  + n+d+ ++k  +ip+++i++R+v               k+
  PHY93_05750|PHY93_05750  47 EDEIQDLETYSSKEdnfYKEINNYLRIfpRPYEWTGTSPEKAKIIVANIDKIFTKIpSIPQELILFRGV-------------DLKY 119
                              67888888888654455********6511445555555467777799*********************9.............5567 PP

                              HHHHHHHTT-EEEESS-EEEESSSS.SCCCTTTSEEEEEEE-TTSBEEE-CCC......SSSGCG-EEEE-TTEEEEEEEEEEE.. CS
           ADPrib_exo_Tox  98 sefeakvkgkvfkergyvSTslvkdtaasfggreilleltvpkgsegayispl......slypgeaEvLlprgltykinkitlvea 177
                              ++ ++ + g +f ++gyvSTs + + a+ f   ei  e +v+k    +  ++l         ++e EvLl +g+ +k+ + +  + 
  PHY93_05750|PHY93_05750 120 RNNKSFTIGEEFVDKGYVSTSTSFKIANYF-ATEINGESSVSKKAIFVLYQNLpdqkgiLIDQNEDEVLLKHGQVLKVMSTRKTN- 203
                              777788899999999999999999866666.55699999998866666556655554425569***************6665544. PP

                              .SGGGTTSS CS
           ADPrib_exo_Tox 178 ndgtskgke 186
                                  s  ++
  PHY93_05750|PHY93_05750 204 ----SAYET 208
                              ....44444 PP

>> Claudin_3  Tight junction protein, Claudin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   1.2e-05      0.11      98     135 ..       2      37 ..       1      45 [. 0.88

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 1.2e-05
                Claudin_3  98 allslliviltviaviliavnvskfndsfndsslqLGY 135
                              ++ sl+i i++v+++ l+a +++   ++f+d s qLGY
  PHY93_05750|PHY93_05750   2 KFKSLIIFIFIVLSFDLYAFEYK--TYRFDDLSHQLGY 37 
                              6789*******************..667888889**** PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (234 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       697  (0.0388756); expected 358.6 (0.02)
Passed bias filter:                      410  (0.022868); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.20s 00:00:00.67 Elapsed: 00:00:00.39
# Mc/sec: 1822.42
//
Query:       PHY93_12450|PHY93_12450  [L=105]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      5e-29  100.8   3.9    6.6e-29  100.4   3.9    1.1  1  Multi_Drug_Res  Small Multidrug Resistance protein
    6.1e-05   23.2   9.4    8.6e-05   22.7   9.4    1.3  1  EamA            EamA-like transporter family
  ------ inclusion threshold ------
      0.031   14.3   0.3      0.044   13.8   0.3    1.4  2  TMEM234         Putative transmembrane family 234


Domain annotation for each model (and alignments):
>> Multi_Drug_Res  Small Multidrug Resistance protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  100.4   3.9   1.1e-32   6.6e-29       2      93 .]       3      94 ..       2      94 .. 0.98

  Alignments for each domain:
  == domain 1  score: 100.4 bits;  conditional E-value: 1.1e-32
                             X-HHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHH--------HHH CS
           Multi_Drug_Res  2 nwvllvlAillevvgailLklsegftkltpsllvivgygisfllLskalkslpvsvAYavwsGiGtvlivlvgillfgeslslkklig 89
                              w++l+ Ai +evvg++++kls+gftk+ p++ v++gyg++++lL+k++k +p+++AYavw+G+Gt+  + vg  lf+e+l l +l+g
  PHY93_12450|PHY93_12450  3 PWLILFFAITAEVVGTTSMKLSNGFTKAGPIVFVLIGYGLALVLLAKSMKDIPLGTAYAVWAGFGTICAAFVGKFLFHEQLGLPQLLG 90
                             59************************************************************************************** PP

                             HHHH CS
           Multi_Drug_Res 90 lali 93
                             + l+
  PHY93_12450|PHY93_12450 91 MLLV 94
                             *997 PP

>> EamA  EamA-like transporter family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.7   9.4   1.4e-08   8.6e-05      64     135 ..      29     101 ..       4     103 .. 0.83

  Alignments for each domain:
  == domain 1  score: 22.7 bits;  conditional E-value: 1.4e-08
                     EamA  64 wllllllgllgtvlafllffyalkktsasnasli.tslePvftlilsvlllgekltlkqllgivlillGvlli 135
                               +  +++ l+g  la +l+ +++k+++ ++a  +   +  +++++ + +l++e+l+l qllg++l+++G++++
  PHY93_12450|PHY93_12450  29 KAGPIVFVLIGYGLALVLLAKSMKDIPLGTAYAVwAGFGTICAAFVGKFLFHEQLGLPQLLGMLLVIAGIVIL 101
                              34459999**********************9888799*********************************986 PP

>> TMEM234  Putative transmembrane family 234
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0      0.47   2.8e+03     104     110 ..      32      38 ..       6      47 .. 0.47
   2 ?   13.8   0.3   7.3e-06     0.044      59     115 ..      45     101 ..      18     102 .. 0.90

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.47
                  TMEM234 104 gmllvvv 110
                               +++v++
  PHY93_12450|PHY93_12450  32 PIVFVLI 38 
                              2344444 PP

  == domain 2  score: 13.8 bits;  conditional E-value: 7.3e-06
                  TMEM234  59 vlfflllgkadlslavpiaNslafvfTvltelllgekvlkkktvlgmllvvvgialc 115
                              vl   +++ ++l +a ++      ++ + ++++l  ++l+  ++lgmllv++gi+++
  PHY93_12450|PHY93_12450  45 VLLAKSMKDIPLGTAYAVWAGFGTICAAFVGKFLFHEQLGLPQLLGMLLVIAGIVIL 101
                              55556788899999999999999*******************************985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (105 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       531  (0.0296168); expected 358.6 (0.02)
Passed bias filter:                      206  (0.0114898); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.39u 0.19s 00:00:00.58 Elapsed: 00:00:00.36
# Mc/sec: 868.82
//
Query:       PHY93_12455|PHY93_12455  [L=473]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.9e-22   79.9   0.1    4.2e-22   78.8   0.1    1.6  1  HATPase_c        Histidine kinase-, DNA gyrase B-, and HSP90-
    9.9e-10   38.7   0.5    9.9e-10   38.7   0.5    1.7  2  HAMP             HAMP domain
    7.1e-09   35.6   1.4    2.4e-08   33.9   0.1    2.6  2  HisKA            His Kinase A (phospho-acceptor) domain
      5e-07   29.6   0.0    1.1e-06   28.6   0.0    1.5  1  HATPase_c_3      Histidine kinase-, DNA gyrase B-, and HSP90-
    2.2e-06   27.5   0.5    7.4e-06   25.8   0.1    2.1  2  HATPase_c_5      GHKL domain
     0.0006   19.8   0.0     0.0013   18.7   0.0    1.5  1  HATPase_c_2      Histidine kinase-like ATPase domain
     0.0031   17.8   1.7       0.11   12.8   0.4    2.6  2  PG_binding_4     Putative peptidoglycan binding domain
  ------ inclusion threshold ------
      0.011   16.0   2.5      0.011   16.0   2.5    2.4  2  FlaC_arch        Flagella accessory protein C (FlaC)
      0.046   13.9   0.5       0.11   12.7   0.5    1.6  1  CHDCT2           CHDCT2 (NUC038) domain
      0.068   12.6   0.4       0.11   11.9   0.4    1.2  1  Peptidase_S10    Serine carboxypeptidase
       0.11   11.6   0.4        5.5    6.0   0.0    2.2  2  AI-2E_transport  AI-2E family transporter


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.8   0.1   2.6e-25   4.2e-22       2     108 ..     368     473 .]     367     473 .] 0.93

  Alignments for each domain:
  == domain 1  score: 78.8 bits;  conditional E-value: 2.6e-25
                              HHHHHHHHHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHHHHH CS
                HATPase_c   2 dekrLrqiisnlvdNavkfatkageieveikaseddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkklvel 87 
                              d k++rq++ nl+dNa+k++++ ++i+++  +++++ vi+v D GiGi++e+++++ +++++ ++++r+ +g GlGls+vk++ve 
  PHY93_12455|PHY93_12455 368 DRKKIRQALANLIDNAIKYSPEHTQIHLSYYKHNQQAVIRVCDQGIGINQEEIPHIWKRLYR-GENSRSEKGIGLGLSLVKSIVEA 452
                              67899**************7788888777776558***************************.*********************** PP

                              TTTEEEEEEETTTEEEEEEEE CS
                HATPase_c  88 mgGeiwvesepgrGttftftl 108
                              ++G++ ve  +g+G++f+++l
  PHY93_12455|PHY93_12455 453 HNGSVGVEMVEGGGSCFIIKL 473
                              *****************9976 PP

>> HAMP  HAMP domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.7   0.5   6.1e-13   9.9e-10       1      52 [.     195     247 ..     195     248 .. 0.97
   2 ?   -3.3   0.0       7.8   1.3e+04      14      28 ..     254     267 ..     252     275 .. 0.63

  Alignments for each domain:
  == domain 1  score: 38.7 bits;  conditional E-value: 6.1e-13
                              HHHHTTHHHHHHHHHHHHHHTTTBTSSTCCT.TSSSHHHHHHHHHHHHHHHHH CS
                     HAMP   1 llarrilrPLrrLaraarriaaGdldtrlpv.sgrDEiGeLarafNaMldrLr 52 
                              ll++rilrP+rrL  + ++i +Gd ++r+p     DE+ eL   fN+Mldr++
  PHY93_12455|PHY93_12455 195 LLSNRILRPVRRLINTLNNINKGDEKARVPLsGNEDELQELSILFNQMLDRIN 247
                              6899***************************99******************96 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 7.8
                              HHHHHHHTTTBTSST CS
                     HAMP  14 araarriaaGdldtr 28 
                              +++ + +a+ +l+t+
  PHY93_12455|PHY93_12455 254 RQTLDTVAH-ELRTP 267
                              556666665.55555 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.1       2.4     4e+03      38      59 ..     222     243 ..     198     246 .. 0.51
   2 !   33.9   0.1   1.5e-11   2.4e-08       2      31 ..     253     310 ..     252     346 .. 0.60

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 2.4
                              HHHHHHHHHHHHHHHHHHHHHH CS
                    HisKA  38 keyletiesearrldhlvedlL 59 
                              +  l   e+e + l+ l +++L
  PHY93_12455|PHY93_12455 222 RVPLSGNEDELQELSILFNQML 243
                              3333344455555555555555 PP

  == domain 2  score: 33.9 bits;  conditional E-value: 1.5e-11
                              HHHHHHHHHHHHHHHHHHHHHHHHH.HHC............................. CS
                    HisKA   2 lgrflagvaHELrtPLsailgnaea.Lkre...........................g 31 
                              +++ l +vaHELrtPL++i+g ae+ L+++                            
  PHY93_12455|PHY93_12455 253 MRQTLDTVAHELRTPLTSIRGLAEVnLQKKiigdkdarvvmencvegideilsefkmM 310
                              689999*******************888876654444333333333333333322221 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.6   0.0   6.5e-10   1.1e-06       4      82 ..     373     446 ..     370     453 .. 0.82

  Alignments for each domain:
  == domain 1  score: 28.6 bits;  conditional E-value: 6.5e-10
              HATPase_c_3   4 ekAlaelvdNsldAdaenvkievnknr.gktgeivieDdGkGmseeelkn.alrlatsskeakrkstslGkkGiGlklAsl 82 
                              ++Ala l+dN++  + e+ +i+++  + ++++ i++ D G G+++ee+   + rl + +++       +++kGiGl l+ +
  PHY93_12455|PHY93_12455 373 RQALANLIDNAIKYSPEHTQIHLSYYKhNQQAVIRVCDQGIGINQEEIPHiWKRLYRGENS-------RSEKGIGLGLSLV 446
                              68***********8888888888866657899****************9977677665555.......8999999876655 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       3.8   6.2e+03      13      25 ..     292     304 ..     291     318 .. 0.76
   2 !   25.8   0.1   4.6e-09   7.4e-06       6      89 ..     372     461 ..     367     471 .. 0.78

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 3.8
              HATPase_c_5  13 lLdNAieacskie 25 
                              +++N++e  ++i 
  PHY93_12455|PHY93_12455 292 VMENCVEGIDEIL 304
                              5899999988875 PP

  == domain 2  score: 25.8 bits;  conditional E-value: 4.6e-09
              HATPase_c_5   6 lcvilgnlLdNAieacskieeekrfIrltvrekkksliisieNsyeg...ek.....kkle..sskskkeehGiGlksireivkky 81 
                              +   l nl+dNAi  + + +     I+l+  +++++ +i++  +  g   e+     k+l   +++++++  G+Gl+ +++iv+ +
  PHY93_12455|PHY93_12455 372 IRQALANLIDNAIKYSPEHT----QIHLSYYKHNQQAVIRVCDQGIGinqEEiphiwKRLYrgENSRSEKGIGLGLSLVKSIVEAH 453
                              667899*******9887766....7***************99984443333346666444446667788899999*********** PP

              HATPase_c_5  82 kgnlsiea 89 
                              +g++ +e+
  PHY93_12455|PHY93_12455 454 NGSVGVEM 461
                              **998876 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   0.0   7.7e-07    0.0013      30     110 ..     370     451 ..     356     469 .. 0.80

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 7.7e-07
              HATPase_c_2  30 deirlaveEactNavehayleapegpvevrlesdeealtvevaDsGpgfdpetlpdpteeep....keslkegGrGlalikglvD 110
                              ++ir a++ ++ Na+++  ++ +   +++++   +++ +++v D+G g + e++p+  +  +    + s+k  G+Gl l+k++v+
  PHY93_12455|PHY93_12455 370 KKIRQALANLIDNAIKYSPEHTQ---IHLSYYKHNQQAVIRVCDQGIGINQEEIPHIWKRLYrgenSRSEKGIGLGLSLVKSIVE 451
                              58899999999999999998755...99**99****************9999988765544477445666666677777777776 PP

>> PG_binding_4  Putative peptidoglycan binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.3   0.0     0.057        93      35      69 ..     236     267 ..     207     273 .. 0.79
   2 !   12.8   0.4   6.6e-05      0.11      31      96 ..     347     418 ..     321     420 .. 0.80

  Alignments for each domain:
  == domain 1  score: 3.3 bits;  conditional E-value: 0.057
             PG_binding_4  35 setiaawkevdlrvsldeeklkeyldeiakeidte 69 
                              s+ ++   ++ +r++++ +++++ ld++a+e  t+
  PHY93_12455|PHY93_12455 236 SILFN---QMLDRINISNQAMRQTLDTVAHELRTP 267
                              33333...5779******************99887 PP

  == domain 2  score: 12.8 bits;  conditional E-value: 6.6e-05
             PG_binding_4  31 lerlsetiaawkevd.lrvsldeeklkeyldei...akeidtepkdasfkl.kggsvkvsp.ekyGwkidkd 96 
                              ++ +++++ +++++d ++v +d++k+++ l+++   a ++  e+++  +++ k+++ +v+   + G+ i+++
  PHY93_12455|PHY93_12455 347 QKEIQIILDPSSQIDqFKVFVDRKKIRQALANLidnAIKYSPEHTQIHLSYyKHNQQAVIRvCDQGIGINQE 418
                              3445566666667889******************99999999999******999999999558888888887 PP

>> FlaC_arch  Flagella accessory protein C (FlaC)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.1      0.88   1.4e+03       6      34 ..     229     261 ..     225     266 .. 0.77
   2 ?   16.0   2.5     7e-06     0.011      11      51 ..     308     348 ..     297     349 .. 0.83

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.88
                FlaC_arch   6 Enklsklst....eletvkkeneelsksveelk 34 
                              E +l++ls+    +l+ +  +n+ ++++++++ 
  PHY93_12455|PHY93_12455 229 EDELQELSIlfnqMLDRINISNQAMRQTLDTVA 261
                              677888887777788888888888888888775 PP

  == domain 2  score: 16.0 bits;  conditional E-value: 7e-06
                FlaC_arch  11 klsteletvkkeneelsksveelkenVkdllsLYEvVsnqv 51 
                              k+ t ++ v++ +++l+k+   l+   +d+++LYE+V++q+
  PHY93_12455|PHY93_12455 308 KMMTDITEVESGLQNLKKEEVSLQTICQDIIDLYEIVAEQK 348
                              334599*************99**9999***********996 PP

>> CHDCT2  CHDCT2 (NUC038) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.5   6.5e-05      0.11      66     154 ..     234     324 ..     227     339 .. 0.70

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 6.5e-05
                   CHDCT2  66 eqalvieeqlrraallnlqeekekvgslaqrfae.lellaeshqkllkesaagnknanavlekvLnqleelLsdmk..advsrlpa 148
                              e ++  ++ l r + +n+  ++++  ++a+++++ l+ +    +  l++   g+k a++v+e++++ ++e+Ls++k  +d++ + +
  PHY93_12455|PHY93_12455 234 ELSILFNQMLDRINISNQ-AMRQTLDTVAHELRTpLTSIRGLAEVNLQKKIIGDKDARVVMENCVEGIDEILSEFKmmTDITEVES 318
                              667777888888877665.344444555555544134444444444555678*********************8653389999999 PP

                   CHDCT2 149 tlsrlr 154
                               l+ l+
  PHY93_12455|PHY93_12455 319 GLQNLK 324
                              988776 PP

>> Peptidase_S10  Serine carboxypeptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.4   6.6e-05      0.11     184     325 ..     268     410 ..     248     418 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 6.6e-05
                              HHHHCCHHHHHHHTTSSHHHHHHHHHHHHEET.......HHHHHHHHHHHHHHHHHHHHHHHHHCHCEETTETTSEETTSSEEHHH CS
            Peptidase_S10 184 aeqvnsyvefayehgliseeeyeslkkacekk.......eeleqesekcanllekaskvavekenkglnvynileeccklkaelkk 262
                               ++++ ++e ++++++i +++ + + ++c +         ++  ++++ ++ l++++k++v+ ++ + ++ +++e +        +
  PHY93_12455|PHY93_12455 268 LTSIRGLAEVNLQKKIIGDKDARVVMENCVEGideilseFKMMTDITEVESGLQNLKKEEVSLQTICQDIIDLYEIV-------AE 346
                              56677888899999999999999999999777888888877777888888888888887755555555555555555.......33 PP

                              CTTCCCCTTTTTCHHHHHHHHTSHHHHHHTT--..TTSSS--SB-HHHHHHCTCCC-SBCHHHHH CS
            Peptidase_S10 263 sstdaqggedpydesyvekylnkkeVrkalhvn..asvkkweecndsvfeqleddisksveeile 325
                              +++ +   +   + ++ + ++++k++r+al  n  ++ +k++  ++++   ++++ ++ v+++ +
  PHY93_12455|PHY93_12455 347 QKEIQIILDPSSQIDQFKVFVDRKKIRQALA-NliDNAIKYSPEHTQIHLSYYKHNQQAVIRVCD 410
                              3455666777888999**************7.66999***********88888888888887765 PP

>> AI-2E_transport  AI-2E family transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.4   0.1     0.022        35      35      74 ..       3      42 ..       1      49 [. 0.75
   2 ?    6.0   0.0    0.0034       5.5      56     129 ..     181     264 ..     172     278 .. 0.76

  Alignments for each domain:
  == domain 1  score: 3.4 bits;  conditional E-value: 0.022
          AI-2E_transport 35 lnpvvkfLkkrgvkrvlavllvlllllvllvllvlllvpl 74
                             ln ++k++++ gvk +l  l +l++ + +l+l++++l+++
  PHY93_12455|PHY93_12455  3 LNKIKKIFRQVGVKMTLWHLGLLIISSCFLFLVFYFLYSQ 42
                             5667777788888888888888888888888888888765 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.0034
          AI-2E_transport  56 vlllllvllvllvlllvplliaqltqlvkslpayidslqnilnelpslleele.n.........liqalkqslskilsnilssi 129
                              vll +l+l  + ++ll + ++  +++l+++l +++++ ++    l+ +++el+            i+ ++q+++++l  +  ++
  PHY93_12455|PHY93_12455 181 VLLCALILGGIGGILLSNRILRPVRRLINTLNNINKGDEKARVPLSGNEDELQeLsilfnqmldRINISNQAMRQTLDTVAHEL 264
                              7788888888899999999*********************************85578777666655555555555555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (473 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1072  (0.0597914); expected 358.6 (0.02)
Passed bias filter:                      671  (0.0374254); expected 358.6 (0.02)
Passed Vit filter:                        69  (0.00384851); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.72u 0.29s 00:00:01.01 Elapsed: 00:00:00.54
# Mc/sec: 2616.46
//
Query:       PHY93_12460|PHY93_12460  [L=226]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.7e-29  100.5   0.1      9e-29   99.9   0.1    1.3  1  Response_reg  Response regulator receiver domain
    1.5e-25   89.1   0.0    2.7e-25   88.2   0.0    1.4  1  Trans_reg_C   Transcriptional regulatory protein, C terminal
    0.00032   20.7   0.0      0.032   14.1   0.0    2.2  2  AAA_31        AAA domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   99.9   0.1   1.5e-32     9e-29       2     112 .]       4     113 ..       3     113 .. 0.99

  Alignments for each domain:
  == domain 1  score: 99.9 bits;  conditional E-value: 1.5e-32
                              EEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHHHH CS
             Response_reg   2 livdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseeedav 87 
                              l+++Dd +++e l+  l+e+g+ ev++a+dg +ale+l+++++d+i+lD+++p+mdGl+ll+++r e+  +pv+il+a+++ e++v
  PHY93_12460|PHY93_12460   4 LVIEDDVKILEFLELGLNEAGF-EVDQASDGLAALEKLRKNSYDIIILDVMLPRMDGLTLLSTMRSEKIITPVLILSAKKTLEERV 88 
                              89********************.*************************************************************** PP

                              HHHHCTESEEEESSG-HHHHHHHHH CS
             Response_reg  88 ealkagaddflsKpfdpeeLlkale 112
                              ++l++g dd+l+Kpf+ +eLl++++
  PHY93_12460|PHY93_12460  89 QGLQLGGDDYLVKPFAFAELLARVQ 113
                              *********************9985 PP

>> Trans_reg_C  Transcriptional regulatory protein, C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.2   0.0   4.5e-29   2.7e-25       1      77 []     150     225 ..     150     225 .. 0.96

  Alignments for each domain:
  == domain 1  score: 88.2 bits;  conditional E-value: 4.5e-29
                              TEEEE-SHHHHHHHHHHHHTTTSEEEHHHHHHHHTTTTSTSHTHHHHHHHHHHHHHHHTTTTSSSSEEEETTTEEEE CS
              Trans_reg_C   1 geeveltpkefklLelLlenpgrvvsreeLleevwgededvddrtvdvhisrLRkkLeddekkprlIetvrgvGYrl 77 
                              g++++l+ kef+lL ++++npgrv++++ +le+vwg+d+d+++++vdv ++rLR+k+++  ++++ I+t+rgvGY+l
  PHY93_12460|PHY93_12460 150 GKKISLQVKEFSLLDYFMRNPGRVITKALILEKVWGYDFDPQTNVVDVLVCRLRNKVDK-DFNEKIIQTHRGVGYVL 225
                              6889*******************************************************.56788**********87 PP

>> AAA_31  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.1   0.0   5.4e-06     0.032     110     148 ..      36      76 ..      16      92 .. 0.81
   2 !    4.4   0.0    0.0054        32      32      65 ..     182     216 ..     175     225 .. 0.77

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 5.4e-06
                   AAA_31 110 llekvkde.YDyiiiDcp.PsLglltenaLvasdsviipvq 148
                              +lek++++ YD+ii+D++ P ++ lt  + + s+++i pv 
  PHY93_12460|PHY93_12460  36 ALEKLRKNsYDIIILDVMlPRMDGLTLLSTMRSEKIITPVL 76 
                              566665544*******855******************9986 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.0054
                   AAA_31  32 kvLlvDlDpQanattglgie.kneiektlyevlie 65 
                              kv   D+DpQ+n    l ++ +n+++k+++e +i+
  PHY93_12460|PHY93_12460 182 KVWGYDFDPQTNVVDVLVCRlRNKVDKDFNEKIIQ 216
                              78888********9987774377788877776654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (226 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       350  (0.0195214); expected 358.6 (0.02)
Passed bias filter:                      313  (0.0174578); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.39u 0.21s 00:00:00.60 Elapsed: 00:00:00.36
# Mc/sec: 1904.50
//
Query:       PHY93_12465|PHY93_12465  [L=669]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.6e-36  125.6   0.0    4.9e-36  124.7   0.0    1.5  1  Sulfatase     Sulfatase
    7.6e-05   22.5   0.0    0.00054   19.7   0.0    2.0  2  Phosphodiest  Type I phosphodiesterase / nucleotide pyrophosp


Domain annotation for each model (and alignments):
>> Sulfatase  Sulfatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  124.7   0.0   5.5e-40   4.9e-36       1     309 []     283     573 ..     283     573 .. 0.86

  Alignments for each domain:
  == domain 1  score: 124.7 bits;  conditional E-value: 5.5e-40
                              EEEEEEEESSE-TTGSGGGTTTSCSSHHHHHHHHTSEEESSEE-SSSSHHHHHHHHHHSS-HHHHTHSSCCSTTTHHCTTTS-HHH CS
                Sulfatase   1 pnvvliladdlgagdlglyggktattpnldrlaeeglrftnfysaaplcspsraalltgryphnsgvasntevgggglpqteatLp 86 
                              pnvv+i+++++g+ + gl g  ++ tpnld+la+e ++f+ fy+ + ++++s++a  t+++ ++    + t+   ++   ++++++
  PHY93_12465|PHY93_12465 283 PNVVVIIMESMGYYKTGLGGSMVNPTPNLDQLAKESILFRKFYTPTVATARSVFAAITSLPDISKV-KTGTR---NPFIVNQHSVI 364
                              9**********************99************************************88843.33333...66666666666 PP

                              HHHHHTT-EEEEEEES-SCCSGGGSHHC.CTTTSEEEETSSSCHHTCCCCCCCCCECTCCCTTTTCSHHHHHHHHHHHHH.HCCC. CS
                Sulfatase  87 ellkeaGYntaaigkwhlgwssrqsvyk.nrgfdrflgfptgsaalkdpekseyngevlrvppeggysddrlldealefl.larn. 169
                                +k+  Y+ +++ + + +w +  +  + n     + g +  ++  ++++++++           g sd  l++ea++ l   r  
  PHY93_12465|PHY93_12465 365 GEFKD--YEKYYFLGGSANWGNIRGILSyN-----IPGLHIFEEGSYKSPRVDVW----------GISDLNLFKEAADALnS-RGa 432
                              66766..69999999999999777743333.....99*9***********99997..........5**************54.555 PP

                              TSSEEEEEEE-TTSSSTCTCGGHTCCGSTTT.TCCCCCCH......HHHHHHHHHHHHHHHHHHHHHHHHHHTTTGGGEEEEEEES CS
                Sulfatase 170 dkpfflylatlapHappeapdeyakkyatff.ddgseaar......qlleaylnsveyvDdligrvlaaLeenglldntlvvftSD 248
                              +kpff ++  ++ H p++ p++  + ++t + +d se+ +      +++++y ++  + D+ +g++++ +++++ ++nt++++++D
  PHY93_12465|PHY93_12465 433 NKPFFTIIQSSGFHRPFTIPADSDG-FKTLTtKDISEK-EihdygfESMAEYNAMRLQ-DHSLGKFIEMAKKEKWYENTIFLVLGD 515
                              ***************9988877755.444440444444.3599999999998666665.*************************** PP

                              SSSCCCGHHTTSSSCTTCSSSHHHHBEEEEEEETTTSHCEEECSEEEGGGHHHHHHHHTTE CS
                Sulfatase 249 hgasleesngplrggkganayeggtrvPllvwwpgekaprvseelvshiDlfptildlagi 309
                              h    +++++++ ++k+     +g++vPl++++p+ ++p+++++++s +Dl+pti++lagi
  PHY93_12465|PHY93_12465 516 HSLPANNAKNVQNWEKS---LSNGFHVPLIIHSPKYIKPGIESKIASEMDLMPTIAGLAGI 573
                              *****887788888877...99*************************************97 PP

>> Phosphodiest  Type I phosphodiesterase / nucleotide pyrophosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.0     0.052   4.6e+02      18      42 ..     305     330 ..     285     335 .. 0.76
   2 !   19.7   0.0     6e-08   0.00054     187     251 ..     471     535 ..     467     557 .. 0.92

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 0.052
                              GSTSHHHHHHHHHSEEESE.EE-SSS CS
             Phosphodiest  18 aellpnlaaLakegvsapn.lrpvfP 42 
                               +++pnl++Lake++ +++  +p++ 
  PHY93_12465|PHY93_12465 305 VNPTPNLDQLAKESILFRKfYTPTVA 330
                              468************99987777665 PP

  == domain 2  score: 19.7 bits;  conditional E-value: 6e-08
                              HHHH-TTSHHHHHHHHHHHHHHHHHHHHHHHTTGTTTEEEEEEES---EEEHTTSEEEGGGTSTG CS
             Phosphodiest 187 gHkfGpdspevedalrrvDkaigdLlealderglsaetniilvSDHGmadvsddkvielndllee 251
                               H +G +s++  +a r  D+ +g+++e +++++ +++t +++++DH   ++++++v ++++ l +
  PHY93_12465|PHY93_12465 471 IHDYGFESMAEYNAMRLQDHSLGKFIEMAKKEKWYENTIFLVLGDHSLPANNAKNVQNWEKSLSN 535
                              6**************************************************98999999988876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (669 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       651  (0.0363099); expected 358.6 (0.02)
Passed bias filter:                      403  (0.0224776); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.63u 0.25s 00:00:00.88 Elapsed: 00:00:00.40
# Mc/sec: 5011.87
//
Query:       PHY93_12470|PHY93_12470  [L=589]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   2.9e-158  527.8   0.0   3.3e-158  527.6   0.0    1.0  1  G_glu_transpept  Gamma-glutamyltranspeptidase


Domain annotation for each model (and alignments):
>> G_glu_transpept  Gamma-glutamyltranspeptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  527.6   0.0  1.8e-162  3.3e-158       2     510 ..      75     584 ..      74     586 .. 0.98

  Alignments for each domain:
  == domain 1  score: 527.6 bits;  conditional E-value: 1.8e-162
                              HHHHTT--HHHHHHHHHHHHHHHSTTT-STTSEEEEEEEETTSCEEEEEEE--BB-TT--TTTT...TSCBCCHHHHSSGGG-BB- CS
          G_glu_transpept   2 evLrkGGnAvDAavAaalclgvvepqssGiGGGgfllvydaktkkvealdaretAPaaatkdmf...dkegdsklsktgalavgVP 84 
                              e+  kGGnA+DAa+Aa+++l+v  p+s+GiGGGgf+l+++ ktkk+ a+d+re+AP++  ++mf   d++  ++ls  g+la +VP
  PHY93_12470|PHY93_12470  75 EIFSKGGNAIDAAIAASFTLAVERPHSTGIGGGGFMLFREGKTKKIFAIDFRERAPLKSFENMFigaDGKVVPNLSIDGVLASAVP 160
                              7999********************************************************************************** PP

                              -HHHHHHHHHHHH-SS-HHHHHHHHHHHHHH-EE--HHHHHHHHHCHHHHHTSHHHHHHHEE.TTSE--TTSEE--HHHHHHHHHH CS
          G_glu_transpept  85 GevagleeahkkyGklpwadllepaiklareGfpvsealaralaeaeerlkkdpelaklFlp.egevlkagellkqpalAktLerl 169
                              G vagl e+h+k+G l+ + +l+pai+la +Gf +++ la+al ++ee l++dp+++k+Fl+ + +++ +g++l q++lA tLer+
  PHY93_12470|PHY93_12470 161 GLVAGLLEIHQKFGHLSRKSILKPAIDLATNGFAIYPSLAKALLQKEEILSHDPAASKIFLDaKLKAFPEGHILIQKDLAHTLERI 246
                              **************************************************************55666******************* PP

                              HHHTTHHHHSSHHHHHHHHHHHHTT-S--HHHHHH---EEES-EEEEETTCEEEEE-TTCSHHHHHHHHHHHHCTTTGGGCTTTCH CS
          G_glu_transpept 170 aeeGaeaFYkGelAeklvaelqkagGiltaeDLanykvevreplsadyrggytvyepppssggivllqiLnilegfdlkslssnsa 255
                              a+ G++ FY+G++A++ +a ++k+ G+l ++DL++y+v++r+pl+ dy+g + +++pppssggi+++q Ln+le+ +l++l+  s 
  PHY93_12470|PHY93_12470 247 AKLGRAGFYQGKVAKEYIALFKKEKGLLGLSDLTSYQVKWRTPLKGDYKGFEIYSMPPPSSGGIHVIQFLNMLEKDSLHDLGIFST 332
                              ************************************************88888889999************************99* PP

                              HHHHHHHHHHHHHHHHHHHH-SSTTTSSSGHCHHHHHT-HHHHHHHHTT.BTTB..SGGGCSCGGCSCG.TTEEEEEEEEETTS-E CS
          G_glu_transpept 256 etlhllvEamklayadRsrylgDpdfvknptelveellskeyakeraklIkdkaatpsseyykaaeaaeesggTthlsvvDregna 341
                              +++hl + +++ a+adR++ylgDpdf k p   v  l+skeya+ r++++ +++a +ss + +++ ++ e+++Tthls++D+ gna
  PHY93_12470|PHY93_12470 333 RSIHLAASSLQSAFADRAHYLGDPDFTKIP---VATLISKEYAQMRRNEFPKNSARKSSVVSAGDVSIFEHTETTHLSIMDNAGNA 415
                              ***************************966...*************************99************************** PP

                              EEEEEEESSTTTTSEBETTTTEBE--GGGGSBS..TS..TTSCSTTSTTB--TT----B----EEEEETTEEEEEEEEESGGGHHH CS
          G_glu_transpept 342 VSltstinllFGsgvvvpgtGilLnnemddfst..gvenafgldpspanaiePgkRplssmaPtivlkdgkpvlvlGaaGGsriis 425
                              V+ t+tin + G+++vvp tGi+Lnnemddf++  g++n fg    +an i P+k plssm+Pti++kdg+pvl lGa+GG+riis
  PHY93_12470|PHY93_12470 416 VATTQTINGYMGASIVVPHTGIVLNNEMDDFTAqvGASNLFGAIGGKANSIMPRKTPLSSMTPTIIVKDGSPVLSLGAPGGTRIIS 501
                              ********************************99**************************************************** PP

                              HHHHHHHHHHTT-S-HHHHHHS--EEESSSSTEEEEST.TS.HHHHHHHHHTTSEEEESSSTCCCEEEEEEEETTTEEEEEE-TTT CS
          G_glu_transpept 426 avlqvlvnvldlgldlqeavdaprihhqllpdkvevEe.gfseevveeLearGhkvkevedsssvvaavavakekgvleaasDprk 510
                               v+q+++n+l +  +l e+v+a r+hhq+lpd++++++ g ++ev+++L ++G++++ +++  +v+a+  +   ++ ++a++D r 
  PHY93_12470|PHY93_12470 502 CVAQTILNYLEFRIPLYESVAAIRYHHQWLPDVLDIDPpGPTKEVITDLLSMGYNLEIRPVPCNVMAVSKQ---ENIFHAVADQRD 584
                              **************************************9****************************9999...8********996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (589 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       311  (0.0173462); expected 358.6 (0.02)
Passed bias filter:                      289  (0.0161191); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.23s 00:00:00.79 Elapsed: 00:00:00.40
# Mc/sec: 4370.35
//
Query:       PHY93_12475|PHY93_12475  [L=208]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.021   15.2   0.0      0.047   14.1   0.0    1.6  1  DUF2554   Protein of unknown function (DUF2554)


Domain annotation for each model (and alignments):
>> DUF2554  Protein of unknown function (DUF2554)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   2.6e-06     0.047       7      55 ..      19      67 ..      11      77 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 2.6e-06
                  DUF2554  7 svvlltcalfsGqllakqkdhefvwvktvdhqlrheadsdelravaees 55
                             s v l   l   q++a +k   f+ +kt++ q+r +  s el+  +++s
  PHY93_12475|PHY93_12475 19 SCVSLNGQLDVKQMMAAKKKSGFLHLKTTEIQIRPDLYSAELKINSDKS 67
                             66777778888899****************************9888776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (208 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       747  (0.0416643); expected 358.6 (0.02)
Passed bias filter:                      479  (0.0267165); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.36
# Mc/sec: 1707.87
//
Query:       PHY93_12480|PHY93_12480  [L=385]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (385 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       492  (0.0274416); expected 358.6 (0.02)
Passed bias filter:                      420  (0.0234257); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.40
# Mc/sec: 2880.52
//
Query:       PHY93_12485|PHY93_12485  [L=155]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.5e-10   39.1  11.8    8.5e-10   39.1  11.8    1.6  2  DoxX      DoxX
     0.0061   16.5   4.2     0.0061   16.5   4.2    2.5  2  DoxD      TQO small subunit DoxD


Domain annotation for each model (and alignments):
>> DoxX  DoxX
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.1  11.8   9.5e-14   8.5e-10       1      82 [.      10      91 ..      10      95 .. 0.92
   2 ?   -1.5   0.0      0.44     4e+03       2      21 ..     122     141 ..     121     152 .. 0.74

  Alignments for each domain:
  == domain 1  score: 39.1 bits;  conditional E-value: 9.5e-14
                     DoxX  1 lllllRlllgvl.fiahGlqkltgfglegtaaslaalglpppellaylaalvElvgglllllGlltRlaAlalavtllvatlt 82
                             +ll+lR  +g++ fi hG  kl  +g e+++ +l  +g+ +p+l  + +a+++ +++l++++Gl+tR++A+ l++t+  ++l+
  PHY93_12485|PHY93_12485 10 GLLILRFTIGLMlFINHGMAKLSEIGTEAATHFLPIFGM-SPVLSHFTMACTQGIASLFIVFGLFTRFSAFCLILTMTLVALI 91
                             69********87377************************.9*********************************999777665 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.44
                     DoxX   2 llllRlllgvlfiahGlqkl 21 
                              ll + ++l+++f  +G  ++
  PHY93_12485|PHY93_12485 122 LLYGSVFLSLIFTGAGRYSI 141
                              56677889999988886665 PP

>> DoxD  TQO small subunit DoxD
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.1     0.094   8.4e+02       3      16 ..      12      25 ..      11      38 .. 0.69
   2 !   16.5   4.2   6.8e-07    0.0061      73     145 ..      59     146 ..      35     151 .. 0.71

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.094
                     DoxD  3 lilRlalgliflsa 16
                             lilR+++gl+ +  
  PHY93_12485|PHY93_12485 12 LILRFTIGLMLFIN 25
                             68999999985543 PP

  == domain 2  score: 16.5 bits;  conditional E-value: 6.8e-07
                     DoxD  73 lvEiivGlllliGlltRlsslvafalalgialsay........WlgstcedEyqi........glllvaaelvliltgsgklslDy 142
                                 +i+ l+++ Gl+tR+s++ ++ +   +al a         W+ s  + Ey++        +ll  ++ l li+tg+g++s+D 
  PHY93_12485|PHY93_12485  59 CTQGIASLFIVFGLFTRFSAFCLILTMTLVALIAIatntfyplWIPS-ALPEYKVvmspfkeySLLYGSVFLSLIFTGAGRYSIDE 143
                              247999**************988766555555442122334449999.8999998444444335788999999************8 PP

                     DoxD 143 lll 145
                               ++
  PHY93_12485|PHY93_12485 144 QIK 146
                              775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (155 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       711  (0.0396564); expected 358.6 (0.02)
Passed bias filter:                      289  (0.0161191); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.39u 0.21s 00:00:00.60 Elapsed: 00:00:00.36
# Mc/sec: 1287.99
//
Query:       PHY93_12490|PHY93_12490  [L=120]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.4e-19   70.3   0.2    1.7e-19   70.1   0.2    1.0  1  Response_reg  Response regulator receiver domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.1   0.2   9.3e-24   1.7e-19       1     111 [.       7     117 ..       7     118 .. 0.90

  Alignments for each domain:
  == domain 1  score: 70.1 bits;  conditional E-value: 9.3e-24
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHH..HHHHESEEEEESSCSSSEHHHHHHHHHHCT..TTSEEEEEESSTS CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealell..keekvdlillDinmpgmdGlellkeireed..pelpviiltahse 82 
                              +l+v+Dd ++ e+++++leee+y +v+ + +gkeal++l   e+++ lillDi+mp+m+G+e+ +   +++   ++p iil+a+++
  PHY93_12490|PHY93_12490   7 ILLVEDDLDISEAIQSILEEEKY-KVKCTFNGKEALDYLttAEKTPSLILLDIMMPQMNGYEFREAQLQDPriANIPTIILSAAGK 91 
                              89*********************.***************666677******************986655555899**********9 PP

                              HHHHHHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  83 eedavealkagaddflsKpfdpeeLlkal 111
                                  ++  k++ +++l Kp+d e L++ +
  PHY93_12490|PHY93_12490  92 Y---ENIEKLNFKECLKKPLDLETLIDVV 117
                              5...5566899**************9877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (120 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       606  (0.0338); expected 358.6 (0.02)
Passed bias filter:                      440  (0.0245412); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.24s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 894.37
//
Query:       PHY93_12495|PHY93_12495  [L=358]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      1e-53  182.1   0.0    1.5e-53  181.6   0.0    1.2  1  CHASE     CHASE domain
  ------ inclusion threshold ------
       0.41   11.0   2.1        6.3    7.1   0.1    3.0  3  Ost5      Oligosaccharyltransferase subunit 5


Domain annotation for each model (and alignments):
>> CHASE  CHASE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  181.6   0.0   1.6e-57   1.5e-53       2     188 .]      81     268 ..      80     268 .. 0.94

  Alignments for each domain:
  == domain 1  score: 181.6 bits;  conditional E-value: 1.6e-57
                    CHASE   2 svdreeFrryaeslllerp.pgiqglgwaprvpaaeraafeaevraegfpdftirpagerdeyfpivyiePlagnna.alGlDlls 85 
                              +++r++F++y+++++l ++ pgiqglg++ ++ ++++++++ae+++ g+++++++p+++rd y+ ivy+eP++++n+  +G+D+++
  PHY93_12495|PHY93_12495  81 KITRNQFHKYVQEINLVEKyPGIQGLGYTLKINPKDLKSHIAEIQKSGIKGYKVWPETPRDTYYSIVYLEPFDRRNQrTIGFDMFT 166
                              69************************************************************************************ PP

                    CHASE  86 eperrealerardtgrpvlsgpvrLvqe.dedgqagfllylPvyrkeg.petveerraallGfvyavfriddlleklllqlgaaea 169
                              ep rrea+e+ardtg p +++++ L+qe ++d+q g++l+lP+y+++   +t e r++al+Gfv+++fr++dl+++++    + + 
  PHY93_12495|PHY93_12495 167 EPIRREAMEKARDTGLPKITKKLFLMQEvENDRQLGLILFLPIYKPGAdISTRELRQKALTGFVSSIFRAKDLFNSIFA---DSKL 249
                              **********************************************6657777777779****************6665...3456 PP

                    CHASE 170 gldlaiyDgtsasaaelly 188
                              ++d++iyD  +  +++lly
  PHY93_12495|PHY93_12495 250 NVDFEIYDSMTIGDNNLLY 268
                              88899***98888888887 PP

>> Ost5  Oligosaccharyltransferase subunit 5
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.1   0.1   0.00071       6.3       9      35 ..      10      36 ..       7      53 .. 0.82
   2 ?   -0.0   0.0      0.12   1.1e+03      39      57 ..     216     234 ..     201     236 .. 0.78
   3 ?    1.0   0.1     0.057   5.1e+02      23      46 ..     324     347 ..     314     352 .. 0.56

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.00071
                     Ost5  9 pslqptlafvllligllltalfflyev 35
                             ++++p+l++  l++g+llt++  l+ +
  PHY93_12495|PHY93_12495 10 TTHFPILGWAVLILGILLTFTSSLKDY 36
                             679*****************9977655 PP

  == domain 2  score: -0.0 bits;  conditional E-value: 0.12
                     Ost5  39 kkkrslvkelllalvASlf 57 
                               ++r+l + +l+++v+S+f
  PHY93_12495|PHY93_12495 216 ISTRELRQKALTGFVSSIF 234
                              567889999********99 PP

  == domain 3  score: 1.0 bits;  conditional E-value: 0.057
                     Ost5  23 gllltalfflyevtstkkkrslvk 46 
                              gl++t+l +   v++++++ +l+k
  PHY93_12495|PHY93_12495 324 GLFVTFLITWIIVSTKRQTEDLLK 347
                              445555554444556555555655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (358 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       776  (0.0432818); expected 358.6 (0.02)
Passed bias filter:                      468  (0.026103); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.22s 00:00:00.75 Elapsed: 00:00:00.39
# Mc/sec: 2774.24
//
Query:       PHY93_05755|PHY93_05755  [L=270]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.6e-10   39.3   0.1    2.6e-07   31.3   0.0    2.7  3  HlyD_3           HlyD family secretion protein
    2.7e-08   33.3   0.0    2.6e-05   23.6   0.0    2.3  2  HlyD_D23         Barrel-sandwich domain of CusB or HlyD membr
      4e-06   26.6   0.0    2.1e-05   24.2   0.0    2.3  2  Biotin_lipoyl_2  Biotin-lipoyl like
    7.8e-05   21.6   0.0    0.00051   18.9   0.0    1.9  2  HlyD_2           HlyD family secretion protein
  ------ inclusion threshold ------
      0.093   12.6   0.0       0.52   10.2   0.0    2.3  1  Biotin_lipoyl    Biotin-requiring enzyme


Domain annotation for each model (and alignments):
>> HlyD_3  HlyD family secretion protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.9   0.0     0.012        41       7      30 ..      75      98 ..      70     100 .. 0.88
   2 !   31.3   0.0   7.3e-11   2.6e-07       3      76 ..     104     176 ..     102     178 .. 0.96
   3 ?   -1.9   0.0       1.5   5.4e+03      34      61 ..     213     243 ..     200     265 .. 0.56

  Alignments for each domain:
  == domain 1  score: 4.9 bits;  conditional E-value: 0.012
                   HlyD_3  7 dGvvvelnveegevvqagdellei 30
                             + ++  l v+eg+++ +gd+l+ i
  PHY93_05755|PHY93_05755 75 TSTIYNLYVKEGDFIHKGDKLANI 98
                             567899999************987 PP

  == domain 2  score: 31.3 bits;  conditional E-value: 7.3e-11
                   HlyD_3   3 rApvdGvvvelnveegevvqagdelleiippdtllveakvpaadlgsikkkgqkvtlkldqgsdytlkgkieri 76 
                              rAp+dGvv++ + ++ge v ++ ++  +++p++  + +++ ++ + +++ +gqk++l +d+  +++ +g i+++
  PHY93_05755|PHY93_05755 104 RAPFDGVVNYSPFKVGENVFSQLPVIVLTDPANRYLVVSLEQQGALRVR-VGQKAKLSFDSIRNQNFDGVIQSV 176
                              8******************************999999***********7.**********99999******997 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 1.5
                   HlyD_3  34 dtllveakvpaadlgsik...kkgqkvtlkl 61 
                              + llv a+  + d+ ++k    + ++v++kl
  PHY93_05755|PHY93_05755 213 NALLVPASAVDNDSVWVKrshRIPSRVSIKL 243
                              5566666666666666665444444444444 PP

>> HlyD_D23  Barrel-sandwich domain of CusB or HlyD membrane-fusion
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.7   0.0    0.0005       1.8      23      52 ..      71      99 ..      61     102 .. 0.87
   2 !   23.6   0.0   7.2e-09   2.6e-05     109     185 ..     101     177 ..      99     182 .. 0.96

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.0005
                             XXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                 HlyD_D23 23 sarveGwveklyvnatgdkVkkGqpLaely 52
                              + v++ + +lyv+ +gd ++kG++La+++
  PHY93_05755|PHY93_05755 71 RPGVTSTIYNLYVK-EGDFIHKGDKLANID 99
                             6778999*******.************996 PP

  == domain 2  score: 23.6 bits;  conditional E-value: 7.2e-09
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                 HlyD_D23 109 vtvkapisGvVteknvreGqyvqpgdtlftiadlstVWveaevyeqqlalvkvgqkvevtvealpgktfeGkvdyiy 185
                              v ++ap++GvV       G+ v  + +++ ++d  + ++++ + +q + +v+vgqk++++++++ +++f+G ++ +y
  PHY93_05755|PHY93_05755 101 VLYRAPFDGVVNYSPFKVGENVFSQLPVIVLTDPANRYLVVSLEQQGALRVRVGQKAKLSFDSIRNQNFDGVIQSVY 177
                              6689**********************************************************************998 PP

>> Biotin_lipoyl_2  Biotin-lipoyl like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.2   0.0   5.9e-09   2.1e-05       9      39 ..      74     104 ..      68     110 .. 0.88
   2 ?   -2.1   0.1         1   3.6e+03       9      24 ..     245     264 ..     237     264 .. 0.53

  Alignments for each domain:
  == domain 1  score: 24.2 bits;  conditional E-value: 5.9e-09
          Biotin_lipoyl_2   9 vsGrVaqlnVkdGqrVkaGdvLaelDsralq 39 
                              v  ++  l+Vk+G+ +++Gd La +D+  ++
  PHY93_05755|PHY93_05755  74 VTSTIYNLYVKEGDFIHKGDKLANIDHVLYR 104
                              6668889********************9886 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 1
          Biotin_lipoyl_2   9 v.sGrVaqln...VkdGqrV 24 
                              v +G+ a+++    k+G++V
  PHY93_05755|PHY93_05755 245 VvDGTMAEVLsgdLKEGDQV 264
                              44666666542223666665 PP

>> HlyD_2  HlyD family secretion protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.2     0.072   2.6e+02      72      95 ..      76      99 ..      11     105 .. 0.56
   2 !   18.9   0.0   1.4e-07   0.00051     253     350 ..     122     223 ..     107     227 .. 0.88

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 0.072
                   HlyD_2 72 egivkyfvkeGdkvkkgkkvaeiq 95
                               i + +vkeGd ++kg+k+a+i 
  PHY93_05755|PHY93_05755 76 STIYNLYVKEGDFIHKGDKLANID 99
                             345567889999999999998886 PP

  == domain 2  score: 18.9 bits;  conditional E-value: 1.4e-07
                   HlyD_2 253 vnkGdpifkivnnqkwYlvtlvekeevkslkegkkvkvkvddee...inakvykiykedeksvvifkieeenaeflkkrieeveIi 335
                              v +  p++ + +  + Ylv+++e++ +  +++g+k k+++d  +   ++++++ +y  ++++   + +++   e+l     +v Ii
  PHY93_05755|PHY93_05755 122 VFSQLPVIVLTDPANRYLVVSLEQQGALRVRVGQKAKLSFDSIRnqnFDGVIQSVYWYNSNFFARIDVSSLPPEILPDMTADVAII 207
                              556668999999****************************9876677*****************************9999999877 PP

                   HlyD_2 336 ykk.ieGlkiPkdsiv 350
                               ++ ++ l +P  ++ 
  PHY93_05755|PHY93_05755 208 IRElANALLVPASAVD 223
                              6552799****99985 PP

>> Biotin_lipoyl  Biotin-requiring enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0   0.00015      0.52      12      37 ..      74      99 ..      68     131 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00015
                             EEE.ECSESSSTTCEE-TTSEEEEEE CS
            Biotin_lipoyl 12 veegvvevlvkvGdkVkagqvlaeve 37
                             v++ + + +vk+Gd + +g+ la + 
  PHY93_05755|PHY93_05755 74 VTSTIYNLYVKEGDFIHKGDKLANID 99
                             34338899**************9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (270 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       492  (0.0274416); expected 358.6 (0.02)
Passed bias filter:                      392  (0.021864); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.35
# Mc/sec: 2280.67
//
Query:       PHY93_12500|PHY93_12500  [L=227]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    9.4e-23   80.9   0.5    1.8e-22   79.9   0.5    1.5  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    7.8e-13   48.3   1.1    1.7e-12   47.2   1.1    1.6  1  HisKA        His Kinase A (phospho-acceptor) domain
      0.005   16.7   0.2      0.005   16.7   0.2    1.7  2  HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like
  ------ inclusion threshold ------
      0.022   14.6   2.4      0.053   13.4   2.4    1.6  1  HATPase_c_5  GHKL domain
       0.13   12.3   0.0       0.27   11.2   0.0    1.4  1  HATPase_c_2  Histidine kinase-like ATPase domain


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.9   0.5   5.1e-26   1.8e-22       2     109 ..     122     227 .]     121     227 .] 0.90

  Alignments for each domain:
  == domain 1  score: 79.9 bits;  conditional E-value: 5.1e-26
                              HHHHHHHHHHHHHHHHHHHHSTTTEEEEEEEEEE..TEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHHH CS
                HATPase_c   2 dekrLrqiisnlvdNavkfatkageieveikase..ddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkklv 85 
                              d+ r+ q+i n++ Na+++ +k+++i ++ +  e  + ++ s+ D GiGi++ed++++fekf + +++++++ g GlGl i+k+++
  PHY93_12500|PHY93_12500 122 DKMRIGQVITNILMNAIRY-GKQKTIIIKAE--ElsVSVKNSIIDQGIGISEEDIERIFEKFER-ATSSNQSNGLGLGLFISKQII 203
                              67899*************9.88888888888..433666669**********************.78888889***********99 PP

                              HHTTTEEEEEEETTTEEEEEEEEE CS
                HATPase_c  86 elmgGeiwvesepgrGttftftlp 109
                              + ++G+iwves+ ++G+ f f++p
  PHY93_12500|PHY93_12500 204 NAHKGKIWVESKLNEGSIFCFEIP 227
                              99*****************99886 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.2   1.1   4.7e-16   1.7e-12       2      67 .]       3      75 ..       2      75 .. 0.91

  Alignments for each domain:
  == domain 1  score: 47.2 bits;  conditional E-value: 4.7e-16
                             HHHHHHHHHHHHHHHHHHHHHHHHHHHC.........T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH CS
                    HisKA  2 lgrflagvaHELrtPLsailgnaeaLkre.......gklteelkeyletiesearrldhlvedlLdlsrieag 67
                             + +fl+  +HELrtP++++++ +++Lk++       ++ + + +   ++i++++  l++lved+Ld++r+ +g
  PHY93_12500|PHY93_12500  3 RDEFLSIASHELRTPMTTLKLQSQILKKKisksddlNAHRVKMELIMNQIIEQVTSLNRLVEDMLDIARLRSG 75
                             679***********************9998888877666677777************************9986 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.2       2.3   8.2e+03       4      23 ..      83     102 ..      79     104 .. 0.71
   2 !   16.7   0.2   1.4e-06     0.005       6      70 ..     129     192 ..     124     208 .. 0.77

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 2.3
              HATPase_c_3   4 ekAlaelvdNsldAdaenvk 23 
                              e+ la+l+  s+   ae+v+
  PHY93_12500|PHY93_12500  83 EINLADLIHESVINLAEQVT 102
                              67788999888877777766 PP

  == domain 2  score: 16.7 bits;  conditional E-value: 1.4e-06
              HATPase_c_3   6 AlaelvdNsld.AdaenvkievnknrgktgeivieDdGkGmseeelknalrlatsskeakrkstsl 70 
                              +++ ++ N++  ++ +++ i++++    + + +i D G G+see++++ ++  + ++++ ++s+ l
  PHY93_12500|PHY93_12500 129 VITNILMNAIRyGKQKTIIIKAEELS-VSVKNSIIDQGIGISEEDIERIFEKFERATSS-NQSNGL 192
                              78899999998788899999999875.67899****************88655554442.344444 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   2.4   1.5e-05     0.053       6      91 ..     126     216 ..     121     226 .. 0.61

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 1.5e-05
              HATPase_c_5   6 lcvilgnlLdNAieacskieeekrfIrltvrekkksliisieNsyeg...........ek.kkle..sskskkeehGiGlksirei 77 
                              +  ++ n+L NAi   ++ +     I +++    + l +s++Ns+ +           ++ +k+e  +s+++++  G+Gl   ++i
  PHY93_12500|PHY93_12500 126 IGQVITNILMNAIRYGKQKT-----IIIKA----EELSVSVKNSIIDqgigiseedieRIfEKFEraTSSNQSNGLGLGLFISKQI 202
                              66788888888887665532.....33333....33444445544333333443333222455555577888899999******** PP

              HATPase_c_5  78 vkkykgnlsieaed 91 
                              ++ +kg++++e + 
  PHY93_12500|PHY93_12500 203 INAHKGKIWVESKL 216
                              *********98764 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   7.6e-05      0.27      32     104 ..     126     196 ..     117     207 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 7.6e-05
              HATPase_c_2  32 irlaveEactNavehayleapegpvevrlesdeealtvevaDsGpgfdpetlpdpteeep..keslkegGrGlal 104
                              i  +++ ++ Na++++++    +++ +++e  + +++ ++ D+G g   e++++  e+    + s++++G+Gl l
  PHY93_12500|PHY93_12500 126 IGQVITNILMNAIRYGKQ----KTIIIKAEELSVSVKNSIIDQGIGISEEDIERIFEKFEraTSSNQSNGLGLGL 196
                              555677789999999996....99*********************977766555443322446777777776654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (227 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       800  (0.0446204); expected 358.6 (0.02)
Passed bias filter:                      472  (0.0263261); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.42
# Mc/sec: 1641.74
//
Query:       PHY93_12505|PHY93_12505  [L=554]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.5e-11   43.6   0.1    8.2e-11   41.9   0.0    1.9  1  Thioredoxin_7  Thioredoxin-like
    1.2e-10   41.3   0.1    3.1e-10   40.0   0.1    1.7  1  Thioredoxin    Thioredoxin
    1.5e-07   31.8   0.7    5.8e-07   29.9   0.1    2.3  2  Thioredoxin_2  Thioredoxin-like domain
      1e-05   25.8   6.6    4.8e-05   23.6   0.4    3.4  4  Thioredoxin_8  Thioredoxin-like
    0.00099   19.4   3.8      0.011   16.0   0.4    3.5  3  TPR_12         Tetratricopeptide repeat
     0.0048   17.0   7.3        0.7   10.3   0.1    4.2  3  TPR_8          Tetratricopeptide repeat
     0.0073   16.1   0.9       0.05   13.4   0.2    2.7  2  Thioredoxin_9  Thioredoxin
  ------ inclusion threshold ------
       0.02   14.7   0.3        4.8    7.2   0.0    2.9  2  TPR_10         Tetratricopeptide repeat
       0.13   12.8   1.1        1.2    9.7   0.4    2.8  2  TPR_19         Tetratricopeptide repeat
       0.38   11.0   8.7        1.7    9.0   1.1    3.9  3  TPR_2          Tetratricopeptide repeat
        2.6    8.3   9.6        1.8    8.8   0.9    3.0  3  ANAPC3         Anaphase-promoting complex, cyclosome, subunit


Domain annotation for each model (and alignments):
>> Thioredoxin_7  Thioredoxin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.9   0.0     5e-14   8.2e-11       3      82 ..     143     223 ..     142     224 .. 0.83

  Alignments for each domain:
  == domain 1  score: 41.9 bits;  conditional E-value: 5e-14
                              -SSHHHHHHHHHHHT--EEEEE--TT-HHHHHHHHHHHH-HHHHH.HHHT-EEEEESS..--S-GGG.-TT-...--SSEEEEE- CS
            Thioredoxin_7   3 lsdldealakaaergkpvlvffgaswcftCqalerdflsdeevkaalaekfvllrvdv..terdanilelde...qgvPvvafld 82 
                              +++l++a+aka++++k ++v+f+a wc+ C +le+++  +++++   +++f+ ++++   +++++++   d+   + +P+ ++++
  PHY93_12505|PHY93_12505 143 TDNLEAAKAKAKKDKKLLFVDFSAPWCPACLRLETEVFGKKYFQD-KTKNFIKVTLNRdlDNNKESY---DKykvTVIPTMIIIN 223
                              5689*****************************************.99****999999445555544...442244599998876 PP

>> Thioredoxin  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.0   0.1   1.9e-13   3.1e-10      12     101 ..     151     245 ..     141     247 .. 0.77

  Alignments for each domain:
  == domain 1  score: 40.0 bits;  conditional E-value: 1.9e-13
                              HHHTTTSSEEEEEEE-TTSHHHHCHHHHH...HHHHHHCTT..TSEEEEEETTTSHHHHHHTT-SSSSEEEEEETTE.EEEEEESS CS
              Thioredoxin  12 eevakekklvlveFyApwCghCkalaPel...eklaeelkd..kvklakvdvdenedlakkyevegiPtlklfkngk.evkkyega 91 
                              ++ +k+kkl++v+F ApwC+ C +l+ e+   + +++++k+  kv+ ++ d d+n++  +ky+v+ iPt+++++++  e +++   
  PHY93_12505|PHY93_12505 151 AKAKKDKKLLFVDFSAPWCPACLRLETEVfgkKYFQDKTKNfiKVT-LNRDLDNNKESYDKYKVTVIPTMIIINSDGtELSRIIDF 235
                              56677899******************98755233445555543333.5679*******************9998655488888888 PP

                              -HHHHHHHHH CS
              Thioredoxin  92 rekeklaafl 101
                              re ++l+  +
  PHY93_12505|PHY93_12505 236 RETKDLVIDI 245
                              8888887655 PP

>> Thioredoxin_2  Thioredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.9   0.1   3.6e-10   5.8e-07       1      95 [.     153     231 ..     153     235 .. 0.83
   2 ?   -1.8   0.0       2.6   4.2e+03      31      42 ..     321     334 ..     247     367 .. 0.65

  Alignments for each domain:
  == domain 1  score: 29.9 bits;  conditional E-value: 3.6e-10
            Thioredoxin_2   1 akgngkpvlvvftdpdCpyCkklkkelkelddvtvrvllfplkpsfepkavaiwcakekkkafkdieenvelarkygvrgtPtivf 86 
                              ak+++k ++v+f++p+Cp C +l++e++  + ++++           + ++++  +++        + n+e  +ky+v+  Pt+++
  PHY93_12505|PHY93_12505 153 AKKDKKLLFVDFSAPWCPACLRLETEVFGKKYFQDK----------TKNFIKVTLNRDL-------DNNKESYDKYKVTVIPTMII 221
                              6899*************************9444444..........5567777777776.......47899**************9 PP

            Thioredoxin_2  87 ldgk.eivar 95 
                              ++ + +++ r
  PHY93_12505|PHY93_12505 222 INSDgTELSR 231
                              9999777665 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 2.6
            Thioredoxin_2  31 ddvtvrvllfp..l 42 
                              d+++++++ +p  +
  PHY93_12505|PHY93_12505 321 DSYKKYIAKYPesY 334
                              55555555555443 PP

>> Thioredoxin_8  Thioredoxin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6   0.0     0.024        40       2      19 ..     158     175 ..     156     179 .. 0.85
   2 !   23.6   0.4     3e-08   4.8e-05      47      94 ..     178     227 ..     175     228 .. 0.89
   3 ?   -3.3   0.0       7.5   1.2e+04      48      59 ..     321     332 ..     315     372 .. 0.66
   4 ?   -2.8   0.1       5.3   8.6e+03      37      78 ..     366     408 ..     344     412 .. 0.56

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.024
                              SEEEEEE--SSSHHHHHH CS
            Thioredoxin_8   2 kvvlLyfgaswcppckaf 19 
                              k++++ f+a wcp c + 
  PHY93_12505|PHY93_12505 158 KLLFVDFSAPWCPACLRL 175
                              8899***********875 PP

  == domain 2  score: 23.6 bits;  conditional E-value: 3e-08
                              HHHHHHHGGGS-TTSEE.EE-TT-..HHHHTT-S--TT-SEEEEE-TT-B CS
            Thioredoxin_8  47 eeefekylkknkkpwlsvpfddkk..rnklkkkynvkaiPtlvvldknge 94 
                              e   +ky+++  k+++ v+ + +   +++ ++ky+v+ iPt+++++++g+
  PHY93_12505|PHY93_12505 178 EVFGKKYFQDKTKNFIKVTLNRDLdnNKESYDKYKVTVIPTMIIINSDGT 227
                              66789***************9985548899******************96 PP

  == domain 3  score: -3.3 bits;  conditional E-value: 7.5
                              HHHHHHGGGS-T CS
            Thioredoxin_8  48 eefekylkknkk 59 
                              ++++ky++k ++
  PHY93_12505|PHY93_12505 321 DSYKKYIAKYPE 332
                              566677766633 PP

  == domain 4  score: -2.8 bits;  conditional E-value: 5.3
                              EEEEEE-S.S-HHHHHHHGGGS-TTSEE.EE-TT-.HHHHTT-S CS
            Thioredoxin_8  37 eivyvsld.kkeeefekylkknkkpwlsvpfddkk.rnklkkky 78 
                              +i+ ++    +++ ++k ++++  + l+  f++++  +kl + y
  PHY93_12505|PHY93_12505 366 NILLINKIiDDKKLQKKIFNET-AQGLFTNFESEElYSKLVDTY 408
                              4555555412334445555555.666666676665455665555 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.0      0.32   5.3e+02      54      70 ..     280     295 ..     268     296 .. 0.69
   2 ?    0.2   0.0      0.58   9.4e+02      21      47 ..     396     422 ..     393     425 .. 0.78
   3 !   16.0   0.4   6.9e-06     0.011       8      74 ..     477     536 ..     473     539 .. 0.91

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.32
                   TPR_12  54 lyralgryeeAlellee 70 
                              +y++  +++eAl+++++
  PHY93_12505|PHY93_12505 280 AYDMY-DHKEALSWFKK 295
                              34444.88999988886 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.58
                   TPR_12  21 eAlellekaleiarrllGpdhpltatt 47 
                              e++el+ k ++ ++ l ++ ++l+a+ 
  PHY93_12505|PHY93_12505 396 ESEELYSKLVDTYQLLKEKPSELAAIL 422
                              899**********99966666555554 PP

  == domain 3  score: 16.0 bits;  conditional E-value: 6.9e-06
                   TPR_12   8 nlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleealai 74 
                              +la  +++ ++y++Al + e a+ +      +++  + +++  L++++ +++  ee ++   +al++
  PHY93_12505|PHY93_12505 477 KLARYYLKEKNYAKALPIAELAVKLS-----GHY--LFWSYVLLAQVQKEMNLKEESIATASKALDL 536
                              69999*****************9999.....655..9***************************997 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.1       2.4   3.9e+03      16      27 ..     285     296 ..     276     298 .. 0.85
   2 !    7.9   0.8    0.0024         4       7      31 ..     478     502 ..     477     505 .. 0.93
   3 !   10.3   0.1   0.00043       0.7       3      31 ..     509     537 ..     509     540 .. 0.93

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 2.4
                              -HHHHHHHHHHH CS
                    TPR_8  16 dyeeAkeyyeka 27 
                              d++eA ++++k 
  PHY93_12505|PHY93_12505 285 DHKEALSWFKKL 296
                              899999999995 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.0024
                              HHHHHHHTT-HHHHHHHHHHHHHHH CS
                    TPR_8   7 lgsiylklgdyeeAkeyyekaleld 31 
                              l++ ylk ++y +A    e a++l+
  PHY93_12505|PHY93_12505 478 LARYYLKEKNYAKALPIAELAVKLS 502
                              89*********************97 PP

  == domain 3  score: 10.3 bits;  conditional E-value: 0.00043
                              HHHHHHHHHHHTT-HHHHHHHHHHHHHHH CS
                    TPR_8   3 ayynlgsiylklgdyeeAkeyyekaleld 31 
                              +y++l+++ ++++ +ee++++  kal+l 
  PHY93_12505|PHY93_12505 509 SYVLLAQVQKEMNLKEESIATASKALDLP 537
                              699***********************985 PP

>> Thioredoxin_9  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.4   0.2   3.1e-05      0.05      34     115 ..     149     233 ..     127     244 .. 0.67
   2 ?   -1.0   0.0      0.88   1.4e+03      79      92 ..     312     325 ..     300     355 .. 0.62

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 3.1e-05
                              H.HHHT--S-EEEEEE--TT-HHHHHHHHHHH..HHH..HH-TTEEEEEE-.HHHHHHHTTTTTT-SS--SSEEEEE-TT--EEEE CS
            Thioredoxin_9  34 e.kiksiekklkilvltedwCgDaavnvPvla..kia..elnpnievkill.rdenlelmdqyltngaraiPtliildeegeelgv 113
                              + + ++++kkl ++ + ++wC+ + +    ++  k    ++++ i+v++    d+n+e  d+y   +   iPt+ii++++g+el  
  PHY93_12505|PHY93_12505 149 AkAKAKKDKKLLFVDFSAPWCPACLRLETEVFgkKYFqdKTKNFIKVTLNRdLDNNKESYDKY---KVTVIPTMIIINSDGTELSR 231
                              224555677777777999******998776641133312333345555432146666666766...669************99977 PP

                              EE CS
            Thioredoxin_9 114 wg 115
                               +
  PHY93_12505|PHY93_12505 232 II 233
                              65 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.88
                              -HHHHHHHTTTTTT CS
            Thioredoxin_9  79 lrdenlelmdqylt 92 
                               rd+ ++l+d+y++
  PHY93_12505|PHY93_12505 312 ERDNSKNLLDSYKK 325
                              55555666555554 PP

>> TPR_10  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2   0.0     0.003       4.8       7      27 ..     275     295 ..     272     296 .. 0.92
   2 ?    4.5   0.1      0.02        33       8      30 ..     478     500 ..     476     502 .. 0.92

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.003
                   TPR_10   7 NLanalrqrgrydeAeallee 27 
                              +La++ +++++++eA+ ++++
  PHY93_12505|PHY93_12505 275 HLAMRAYDMYDHKEALSWFKK 295
                              69**************99875 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.02
                   TPR_10   8 LanalrqrgrydeAealleeala 30 
                              La+++ + ++y++A+ ++e a+ 
  PHY93_12505|PHY93_12505 478 LARYYLKEKNYAKALPIAELAVK 500
                              9******************9986 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.0      0.96   1.6e+03       2      17 ..     281     296 ..     280     311 .. 0.80
   2 ?    9.7   0.4   0.00075       1.2       2      52 ..     483     534 ..     482     541 .. 0.91

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.96
                   TPR_19   2 laegdyaeAlalleqa 17 
                              +++ d+ eAl+ ++++
  PHY93_12505|PHY93_12505 281 YDMYDHKEALSWFKKL 296
                              7899*********995 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.00075
                   TPR_19   2 laegdyaeAlalleqalqedpknaearl.lLAeallalgqldeAealLdalp 52 
                              l+e++ya Al++ e a + + +++   + lLA+++ +++  +e +a+ ++++
  PHY93_12505|PHY93_12505 483 LKEKNYAKALPIAELAVKLSGHYLFWSYvLLAQVQKEMNLKEESIATASKAL 534
                              799*******************999999788************999877766 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   0.3     0.046        75       5      26 ..     274     295 ..     271     298 .. 0.87
   2 ?    9.0   1.1     0.001       1.7       6      31 ..     477     502 ..     476     505 .. 0.90
   3 ?   -0.6   0.0       1.2     2e+03       4      30 ..     510     536 ..     509     536 .. 0.88

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.046
                    TPR_2   5 ynlGlayyklgdyeeAleafek 26 
                                l++ +y + d++eAl +f+k
  PHY93_12505|PHY93_12505 274 KHLAMRAYDMYDHKEALSWFKK 295
                              579999**************99 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.001
                    TPR_2   6 nlGlayyklgdyeeAleafekAleld 31 
                               l++ y+k ++y++Al   e A++l 
  PHY93_12505|PHY93_12505 477 KLARYYLKEKNYAKALPIAELAVKLS 502
                              599*************9999999986 PP

  == domain 3  score: -0.6 bits;  conditional E-value: 1.2
                    TPR_2   4 lynlGlayyklgdyeeAleafekAlel 30 
                              +  l+++  +++  ee ++   kAl l
  PHY93_12505|PHY93_12505 510 YVLLAQVQKEMNLKEESIATASKALDL 536
                              56799999999999**********986 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.4   0.4     0.027        44      18      56 ..     265     301 ..     245     309 .. 0.79
   2 ?   -2.9   0.1       5.1   8.4e+03      20      39 ..     331     353 ..     322     364 .. 0.65
   3 ?    8.8   0.9    0.0011       1.8      10      79 ..     459     530 ..     450     533 .. 0.78

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.027
                              HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCTSHHHC-H CS
                   ANAPC3  18 aetespedayllAlclylngqykrAyellrkaklnsksl 56 
                              a++ + e++  lA   y + ++k+A+ +++k+  n++sl
  PHY93_12505|PHY93_12505 265 ANNGNKEAIKHLAMRAYDMYDHKEALSWFKKL--NENSL 301
                              66777888888899999999**********99..54544 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 5.1
                              H--HHHHHH...HHHHHHHTT-H CS
                   ANAPC3  20 tespedayl...lAlclylngqy 39 
                              +es++++ +   lA+++  ++  
  PHY93_12505|PHY93_12505 331 PESYDSIVWrneLAKSHQAQNTT 353
                              66777777755567777666654 PP

  == domain 3  score: 8.8 bits;  conditional E-value: 0.0011
                              HHHHHHH.HHH--HHHHHH..HHHHHHHTT-HHHHHHHHHCT.SHHHC-H.HHHHHHHHHHHHTT-HHHHHHHH CS
                   ANAPC3  10 flaerllaaetespedayl..lAlclylngqykrAyellrka.klnsksl.gcrylfAqcllkLkkyeeAiaaL 79 
                               ++++l+  e++ ++d+y   lA  +++ ++y +A+ +++ a kl ++ l  + +l+Aq++ +++  ee ia+ 
  PHY93_12505|PHY93_12505 459 SWYSKLM--EQNPSSDLYPrkLARYYLKEKNYAKALPIAELAvKLSGHYLfWSYVLLAQVQKEMNLKEESIATA 530
                              5777888..6666777776768******************9988877777666677889888888888888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (554 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1095  (0.0610742); expected 358.6 (0.02)
Passed bias filter:                      349  (0.0194657); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.63u 0.20s 00:00:00.83 Elapsed: 00:00:00.41
# Mc/sec: 4047.76
//
Query:       PHY93_12510|PHY93_12510  [L=273]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.9e-09   35.7   1.8    0.00019   21.5   0.3    2.2  2  PRC       PRC-barrel domain


Domain annotation for each model (and alignments):
>> PRC  PRC-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.3     1e-08   0.00019       9      65 ..       8      63 ..       3      79 .. 0.76
   2 !   13.5   0.1   3.2e-06     0.057       9      59 ..     156     205 ..     154     222 .. 0.81

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 1e-08
                             -TT-EEEETT.SSEEEEEEEEEEETTTTEEEEEEEEETTT.....-EEEEEGG.CEEC CS
                      PRC  9 liGkeVyted.GeklGkVkDvvidekegrvralvvsvggflgigekevliPfdlavki 65
                             + + ++   d  +  G+VkD+++d++   vr+lvv++g++l+ ++ +++ P++ ++ +
  PHY93_12510|PHY93_12510  8 ITNFKILAKDcSDAFGRVKDIYFDDEKWGVRYLVVDTGRWLS-ESLTLVSPYN-VIEV 63
                             666677777777888*************************98.7888888888.3333 PP

  == domain 2  score: 13.5 bits;  conditional E-value: 3.2e-06
                              -TT-EEEETTSSEEEEEEEEEEETTTTEEEEEEEEETTT.....-EEEEEG CS
                      PRC   9 liGkeVytedGeklGkVkDvvidekegrvralvvsvggflgigekevliPf 59 
                              + G+ +    ++  G V+D++++e +  +r++v+++ +f+ +g+k++l+  
  PHY93_12510|PHY93_12510 156 IFGYHIQAVGDDDFGSVTDFILEESTWAIRYIVIDTHKFW-PGGKKILFSP 205
                              56666666677889**********************9885.5888887655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (273 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       330  (0.0184059); expected 358.6 (0.02)
Passed bias filter:                      291  (0.0162307); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.26s 00:00:00.79 Elapsed: 00:00:00.48
# Mc/sec: 1709.07
//
Query:       PHY93_12515|PHY93_12515  [L=187]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    9.6e-16   58.6   0.0    1.4e-15   58.0   0.0    1.2  1  NTP_transf_3  MobA-like NTP transferase domain
    0.00039   19.7   0.0    0.00055   19.2   0.0    1.3  1  CofC          Guanylyl transferase CofC like


Domain annotation for each model (and alignments):
>> NTP_transf_3  MobA-like NTP transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.0   0.0   1.5e-19   1.4e-15      25     143 ..      22     144 ..      16     160 .. 0.88

  Alignments for each domain:
  == domain 1  score: 58.0 bits;  conditional E-value: 1.5e-19
                              CHHHHHHHHHCTT.-CEEEEECSHC..HHHHHHTTCTS-EEE-TTSS-SHHHHHHHHHHHH..SSSCEEEEETT-TT--HHHHHHH CS
             NTP_transf_3  25 pllervldalraagvdevvvvggde..evlaalarlgvrvvededpgkgplaslaaalraaa.dadavlvlacDmPlltpelverl 107
                              p+++ +++ l  + ++ev+ v+g++  + +++l++l v+ v+++ +++g  +s++a+l ++  d+d ++++++ +Pll+++ +++l
  PHY93_12515|PHY93_12515  22 PVFKIAVNELLNSHFHEVIAVTGPHrvPMEQELKGLHVKSVHNKFYERGLHSSIKAGLMNIDlDSDFFAICLANQPLLKRKDYNQL 107
                              67777888888888*******9997445678999999***********************666*********************** PP

                              HHCHHHHT.SSEEEEESSSEEEECCEEEGGGHHHHHH CS
             NTP_transf_3 108 laaaaasg.advvvptyegerghpllfrarllsalaa 143
                              +aaa++++ a +++pty+g+rg+pl++++ l+++++ 
  PHY93_12515|PHY93_12515 108 IAAAKSTNeALIICPTYQGKRGYPLFISSLLIPEILD 144
                              ****86662567*******************999876 PP

>> CofC  Guanylyl transferase CofC like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.2   0.0   6.2e-08   0.00055      46     126 ..      40     126 ..       2     139 .. 0.76

  Alignments for each domain:
  == domain 1  score: 19.2 bits;  conditional E-value: 6.2e-08
                     CofC  46 vlvvsedeevleyaldelgvevvkek..ekdlntavekafeeie..ekeviiipsdiPlikkedvkdllelek..radvviaParg 125
                              + v +  ++ +e +l+ l v+ v++k  e++l ++++  +++i+   +  +i  ++ Pl+k++d ++l+  +k  +  ++i P+ +
  PHY93_12515|PHY93_12515  40 IAVTGPHRVPMEQELKGLHVKSVHNKfyERGLHSSIKAGLMNIDldSDFFAICLANQPLLKRKDYNQLIAAAKstNEALIICPTYQ 125
                              44556666778999999********9989*********988875216679******************98765226789****988 PP

                     CofC 126 G 126
                              G
  PHY93_12515|PHY93_12515 126 G 126
                              7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (187 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       359  (0.0200234); expected 358.6 (0.02)
Passed bias filter:                      331  (0.0184617); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.38
# Mc/sec: 1456.77
//
Query:       PHY93_12520|PHY93_12520  [L=407]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.4e-10   40.1   0.1    7.9e-10   38.9   0.1    1.7  1  Response_reg  Response regulator receiver domain
    7.5e-08   32.5   0.0    1.6e-07   31.4   0.0    1.5  1  HD_5          HD domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.9   0.1   8.8e-14   7.9e-10       1      83 [.       3      88 ..       3     115 .. 0.83

  Alignments for each domain:
  == domain 1  score: 38.9 bits;  conditional E-value: 8.8e-14
                             EEEESSSHHHHHHHHHHHHHTTEEEEE..EESSHHHHHHHH.HHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSH CS
             Response_reg  1 vlivdDdplvrellrqlleeegyeeva..eaedgkealell.keekvdlillDinmpgmdGlellkeireedpelpviiltahsee 83
                             +livdD+ ++ e+++ l++++   e++   a++g+ea++++ +++++d++++D nm +  G ++lk + e +++++ +++++   +
  PHY93_12520|PHY93_12520  3 ILIVDDESDISEIIEFLVKDNFPAETQtlLASSGNEAIKIIgENKDIDICICDHNMADGMGTDVLKYLIEVKSKIKFVLCSTVIPS 88
                             8******************65554444349***********55666**************************9****999976655 PP

>> HD_5  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.4   0.0   1.8e-11   1.6e-07       3      59 ..     337     393 ..     335     395 .. 0.93

  Alignments for each domain:
  == domain 1  score: 31.4 bits;  conditional E-value: 1.8e-11
                     HD_5   3 LtpeerellqehpeaaarlLsklprlpkdvaeiigqhhErldGsGyPrglkgeeIpl 59 
                              ++ ++ ++++ehp +a+++  + +++p+d+ +i + +hE  dG G+Pr+l ++++  
  PHY93_12520|PHY93_12520 337 FNRADVKKYNEHPFRASEIAVAFKEIPPDIDRILLEQHEMPDGNGFPRKLNANQLGP 393
                              6778899**********************************************9865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (407 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       638  (0.0355848); expected 358.6 (0.02)
Passed bias filter:                      475  (0.0264934); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.38
# Mc/sec: 3191.10
//
Query:       PHY93_00615|PHY93_00615  [L=116]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (116 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       312  (0.017402); expected 358.6 (0.02)
Passed bias filter:                      250  (0.0139439); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.34u 0.21s 00:00:00.55 Elapsed: 00:00:00.34
# Mc/sec: 1024.42
//
Query:       PHY93_00620|PHY93_00620  [L=463]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (463 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       618  (0.0344693); expected 358.6 (0.02)
Passed bias filter:                      396  (0.0220871); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.20s 00:00:00.73 Elapsed: 00:00:00.36
# Mc/sec: 3839.93
//
Query:       PHY93_00625|PHY93_00625  [L=190]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.6e-06   26.2   0.0    2.7e-05   24.4   0.0    1.8  1  PilZ      PilZ domain
  ------ inclusion threshold ------
       0.19   11.8   0.1       0.72   10.0   0.0    1.9  2  DUF220    Domain of unknown function DUF220


Domain annotation for each model (and alignments):
>> PilZ  PilZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.4   0.0     3e-09   2.7e-05       2      99 ..      10     131 ..       9     135 .. 0.82

  Alignments for each domain:
  == domain 1  score: 24.4 bits;  conditional E-value: 3e-09
                              SSSS-C..EEECEEEEEEETTEEEEEEEEEEESSEEEEEES....................T-SS-TTSEEEEEEECECEEEEEEE CS
                     PilZ   2 rRkekRlevpvsipvtleadegelkgrliDiSlgGlairlp....................deelalgdrvelklpldkdqelslp 67 
                              +Rk+ R   p++  + + ++e  +k+r+++iS+gG+ ++                       + l+l++   l++++ + + ++ +
  PHY93_00625|PHY93_00625  10 QRKFLR--APLKSVCLYVDGEHVFKARVLNISEGGILLSDLphipeinslplaidlvifprLQTLNLEQLKVLNIEEFPRTIMKTK 93 
                              79****..***************************777666599999999999999999998899999999999999999999999 PP

                              EEEEEEECTCTTE.....EE.EEEEEEECHHHHHHHHH CS
                     PilZ  68 grVvrvkpeedge.....rl.GveFldldeeqrellir 99 
                              +r vr+ + + +       + G+eF + + e +  + r
  PHY93_00625|PHY93_00625  94 ARMVRTFEGQSNVdrifvNFiGCEFYNPTSEFKMGVFR 131
                              99999988866668555533799997777665555555 PP

>> DUF220  Domain of unknown function DUF220
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.0      0.28   2.5e+03      40      51 ..      22      33 ..      11      36 .. 0.78
   2 ?   10.0   0.0     8e-05      0.72      18      56 ..      86     123 ..      72     127 .. 0.82

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.28
                   DUF220 40 plyvDserlckk 51
                              lyvD e++ k+
  PHY93_00625|PHY93_00625 22 CLYVDGEHVFKA 33
                             689**9988765 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 8e-05
                   DUF220  18 tvkykkekvmfmkvfeGsykveplyvDserlckkrkpks 56 
                                + +k+k+++ ++feG+  v+ ++v     c+  +p s
  PHY93_00625|PHY93_00625  86 PRTIMKTKARMVRTFEGQSNVDRIFVN-FIGCEFYNPTS 123
                              5567899*******************8.66777777766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (190 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       359  (0.0200234); expected 358.6 (0.02)
Passed bias filter:                      328  (0.0182944); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.40u 0.20s 00:00:00.60 Elapsed: 00:00:00.35
# Mc/sec: 1636.14
//
Query:       PHY93_00630|PHY93_00630  [L=434]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.4e-52  178.2   0.0    1.8e-52  177.8   0.0    1.1  1  PhoH             PhoH-like protein
    1.3e-29  103.2   0.0    1.9e-29  102.6   0.0    1.3  1  PIN_4            PIN domain
    3.4e-11   43.2   0.0    8.6e-11   41.9   0.0    1.6  1  AAA_30           AAA domain
    1.8e-05   25.0   0.1        0.4   10.9   0.0    3.3  3  AAA_22           AAA domain
    0.00016   22.0   0.0     0.0077   16.6   0.0    2.2  2  AAA_19           AAA domain
     0.0086   16.5   0.4        0.9   10.0   0.1    2.9  3  AAA              ATPase family associated with various cellul
  ------ inclusion threshold ------
       0.04   13.6   0.0      0.072   12.8   0.0    1.3  1  Viral_helicase1  Viral (Superfamily 1) RNA helicase
      0.054   12.7   0.0      0.085   12.0   0.0    1.2  1  NB-ARC           NB-ARC domain
      0.055   13.2   0.0       0.12   12.1   0.0    1.5  1  IstB_IS21        IstB-like ATP binding protein
       0.13   11.4   0.4       0.49    9.6   0.4    1.8  1  DUF2075          Uncharacterized conserved protein (DUF2075)
       0.19   11.3   0.0       0.67    9.5   0.0    1.9  2  AAA_25           AAA domain


Domain annotation for each model (and alignments):
>> PhoH  PhoH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  177.8   0.0   1.1e-55   1.8e-52       2     187 ..     225     421 ..     224     433 .. 0.91

  Alignments for each domain:
  == domain 1  score: 177.8 bits;  conditional E-value: 1.1e-55
                              ----SHHHHHHHHHHH..H-SEEEEE--TTSSTTHHHHHHHHHH.HHTTS-SEEEEEE-S--TT----SS---------TTTHHHH CS
                     PhoH   2 ikpktkeQkeylealk..kndivfaiGpaGtGKtylavalavea.lkkkkvkriiltrpaveageelGflpgdleekvdpylrply 84 
                              i pk+ eQ+ +l+al   +  +v  +G+aGtGKt+la+a+++e  + ++k++r++++rp+  +g++lGflpgd++ek++p+++p+ 
  PHY93_00630|PHY93_00630 225 IYPKNVEQQFALDALLndEIALVSLVGKAGTGKTLLAIAAGLEKtIAQGKYSRLLVSRPIQPMGRDLGFLPGDVNEKLAPWMQPIF 310
                              889************955556999******************8615679************************************* PP

                              HHHTTTS......-TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHHHTTB-TT-EEEEEE--------.-- CS
                     PhoH  85 daLkdll......gaekvekllekgkievaplaymRGrTlndafvilDEAQnttkeqmkmfltRlGenskvvvtGdvtqidlp.kg 163
                              d+++ l+         ++e+l+++g++++ pl+y+RGr++   ++i+DEAQn++++++k+++tR Ge++k+v+tGd +qid p  +
  PHY93_00630|PHY93_00630 311 DNMDFLFnqnrkqAGTSYEELINQGMLHIEPLTYIRGRSIPGQYLIVDEAQNLSPHEVKTIVTRAGEGTKIVLTGDCQQIDSPyLD 396
                              ******96666554557899***************************************************************944 PP

                              .----THHHHHHTTT-TTEEEEE-- CS
                     PhoH 164 .kksGlaealevlknvegieivelk 187
                               +++Gla ++++lk ++ i++++l+
  PHY93_00630|PHY93_00630 397 eTNNGLAYVVDRLKTEDIIGHTTLR 421
                              49*****************999984 PP

>> PIN_4  PIN domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  102.6   0.0   1.2e-32   1.9e-29       1     130 [.       5     140 ..       5     141 .. 0.86

  Alignments for each domain:
  == domain 1  score: 102.6 bits;  conditional E-value: 1.2e-32
                    PIN_4   1 fVlDTnvlLhdpealksfkeehdvviPitVleELdklKkgsserelarlarqanrlldelleke.........sgrlkvqtsaeel 77 
                              fVlDTnvlL dp+a+ +f +++ v+iP++V+eE+d++Kk+++  e +r ar+ +r++d+l ++          sg   + +++ ++
  PHY93_00630|PHY93_00630   5 FVLDTNVLLFDPTAFRKF-GKNTVFIPLIVIEEIDRFKKDQN--ENGRSARNFSRYIDDLRSRGslaqgvvldSGGTLIISVDRRV 87 
                              8*****************.**********************9..9***************88887777777773333444445555 PP

                    PIN_4  78 pee..eseseknDnrIlavalelkeekpdrkvvLvskDinlrikAkalgieaedy 130
                              +++  + + + nDn Il+ al++k e    +v L++kDinlr+kA++lg++aedy
  PHY93_00630|PHY93_00630  88 DSKnlPIDVSINDNLILSSALAFKMEG--VDVHLITKDINLRLKADILGVPAEDY 140
                              53313345679**************97..9************************9 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.9   0.0   5.3e-14   8.6e-11       3     130 ..     229     392 ..     227     394 .. 0.82

  Alignments for each domain:
  == domain 1  score: 41.9 bits;  conditional E-value: 5.3e-14
                   AAA_30   3 naeQaaavealltsgdrvavltGpAGtGKttalkal..reaweaaggrviglAptgkaAkvLaeelgi.eastiakllkrlk.... 81 
                              n eQ+ a++all+++  ++ l+G AGtGKt +  a+  ++++++ +++ ++++   +  + ++++lg+ +++  +kl  +++    
  PHY93_00630|PHY93_00630 229 NVEQQFALDALLNDEIALVSLVGKAGTGKTLLAIAAglEKTIAQGKYSRLLVS---RPIQPMGRDLGFlPGDVNEKLAPWMQpifd 311
                              689***************************86544432666666655444443...445567777775466777777766677889 PP

                   AAA_30  82 ...................................grarlepgtllivDEagmvdtkqlaallkaaekagakvilvGDerQlas 130
                                                                 g  r  pg+ livDEa  ++ +++++++++a + g+k++l GD +Q +s
  PHY93_00630|PHY93_00630 312 nmdflfnqnrkqagtsyeelinqgmlhiepltyirG--RSIPGQYLIVDEAQNLSPHEVKTIVTRAGE-GTKIVLTGDCQQIDS 392
                              999999999999999999999999********9643..78899***********************99.************876 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.6   0.0     0.047        76      92     118 ..      29      54 ..      17      69 .. 0.72
   2 !    6.2   0.1    0.0071        12       8      22 ..     247     261 ..     243     283 .. 0.86
   3 !   10.9   0.0   0.00025       0.4      92     129 ..     352     385 ..     317     391 .. 0.83

  Alignments for each domain:
  == domain 1  score: 3.6 bits;  conditional E-value: 0.047
                   AAA_22  92 ielliiDEaqhlrseealeeLrsllnl 118
                              i+l++i+E++++ ++++ e+ rs  n+
  PHY93_00630|PHY93_00630  29 IPLIVIEEIDRF-KKDQNENGRSARNF 54 
                              79**********.76666666555554 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.0071
                   AAA_22   8 lvvtGesGtGKTtll 22 
                              + ++G +GtGKT+l+
  PHY93_00630|PHY93_00630 247 VSLVGKAGTGKTLLA 261
                              5699*********97 PP

  == domain 3  score: 10.9 bits;  conditional E-value: 0.00025
                   AAA_22  92 ielliiDEaqhlrseealeeLrsllnlsrkgvqliLvG 129
                               + li+DEaq+l s+  ++++++++     g++++L G
  PHY93_00630|PHY93_00630 352 GQYLIVDEAQNL-SPHEVKTIVTRAG---EGTKIVLTG 385
                              4789********.*999999988877...888888887 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.3   0.0     0.058        95      12      26 ..     246     260 ..     232     282 .. 0.76
   2 !   16.6   0.0   4.7e-06    0.0077      98     141 ..     348     390 ..     310     394 .. 0.81

  Alignments for each domain:
  == domain 1  score: 3.3 bits;  conditional E-value: 0.058
                   AAA_19  12 vllvtaGpGtGKTrv 26 
                              ++ +++ +GtGKT +
  PHY93_00630|PHY93_00630 246 LVSLVGKAGTGKTLL 260
                              46789********64 PP

  == domain 2  score: 16.6 bits;  conditional E-value: 4.7e-06
                   AAA_19  98 kklqeeellivDEfqdvdelqyrLlkallgekkklllvGDpdQl 141
                              + +  +++livDE+q++++ +++ + + +ge++k++l GD +Q 
  PHY93_00630|PHY93_00630 348 RSI-PGQYLIVDEAQNLSPHEVKTIVTRAGEGTKIVLTGDCQQI 390
                              455.6789**********8888888888889999********96 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.0     0.056        91      60      98 ..      30      63 ..      17      88 .. 0.74
   2 !   10.0   0.1   0.00055       0.9       2      74 ..     248     320 ..     247     343 .. 0.61
   3 ?   -2.6   0.0       4.3     7e+03      27      52 ..     383     408 ..     353     415 .. 0.54

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.056
                             EEEEEETGGGHHHHHTTCCCHHHHHHHHHHHHHHHHTTT CS
                      AAA 60 silfiDEidalaksrsgseseeeervvnqLlteldgvkk 98
                               ++i+Eid++ k++     +e+ r +  + + +d++++
  PHY93_00630|PHY93_00630 30 PLIVIEEIDRFKKDQ-----NENGRSARNFSRYIDDLRS 63
                             6799*******8877.....4555555666666666555 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00055
                              EEESSTTSSHHHHHHHHHHHHTHEEEEEETTTCS.SSSTTHHHHHHHHHHHHHHHTSTS.EEEEEETGGGHHHHH CS
                      AAA   2 llyGppGtGKTllakavakelgvefleisgsell.skyvgesekkirelfkeakekakp.silfiDEidalaksr 74 
                               l+G  GtGKTlla a    l+ ++ + + s+ll s  ++ + +++  l  ++ ek +p    ++D++d l++++
  PHY93_00630|PHY93_00630 248 SLVGKAGTGKTLLAIA--AGLEKTIAQGKYSRLLvSRPIQPMGRDLGFLPGDVNEKLAPwMQPIFDNMDFLFNQN 320
                              599**********854..445566666666666655555555555555555555444344444556666665555 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 4.3
                              EEEETTTCSSSSTTHHHHHHHHHHHH CS
                      AAA  27 leisgsellskyvgesekkirelfke 52 
                              l+ ++ ++ s y+ e+++ ++ ++++
  PHY93_00630|PHY93_00630 383 LTGDCQQIDSPYLDETNNGLAYVVDR 408
                              33344555555555555555555555 PP

>> Viral_helicase1  Viral (Superfamily 1) RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   4.4e-05     0.072      59     103 ..     350     393 ..     342     421 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 4.4e-05
          Viral_helicase1  59 kstkgkililDEylllhaGyill.laalskaklvilfGDplQipfh 103
                               +  g++li+DE++ l + +++  + +  +   ++l+GD +Qi + 
  PHY93_00630|PHY93_00630 350 IP--GQYLIVDEAQNLSPHEVKTiVTRAGEGTKIVLTGDCQQIDSP 393
                              34..89*****************666666778899*******9765 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   5.2e-05     0.085      10      51 ..     237     275 ..     230     281 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 5.2e-05
                              HHHHCTTTSCSEEEEEEESTTSSHHHHHHHHCCSHCCCCCCB CS
                   NB-ARC  10 ekLlekdelqslvvalvGmgGvGKttlakqilnksdevegrF 51 
                              + Ll +de+   +v+lvG++G GKt la  +  +    +g++
  PHY93_00630|PHY93_00630 237 DALL-NDEIA--LVSLVGKAGTGKTLLAIAAGLEKTIAQGKY 275
                              5677.88888..***************987766645555566 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   7.2e-05      0.12      49      71 ..     246     268 ..     226     280 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 7.2e-05
                IstB_IS21  49 nivllGpsGvGKshlaialgvea 71 
                               + l+G +G+GK+ laia g e 
  PHY93_00630|PHY93_00630 246 LVSLVGKAGTGKTLLAIAAGLEK 268
                              4679***************9864 PP

>> DUF2075  Uncharacterized conserved protein (DUF2075)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   0.4    0.0003      0.49       7      36 ..     250     278 ..     244     413 .. 0.68

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.0003
                  DUF2075   7 tGvaGtGKtvvllnllaeleddeeertavy 36 
                               G+aGtGKt++++++  e  + ++++++ +
  PHY93_00630|PHY93_00630 250 VGKAGTGKTLLAIAAGLEK-TIAQGKYSRL 278
                              59***********998887.3333333333 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       1.5   2.5e+03     144     173 ..      30      62 ..      26      69 .. 0.68
   2 ?    9.5   0.0   0.00041      0.67      34      61 ..     245     274 ..     236     334 .. 0.74

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 1.5
                   AAA_25 144 rlvviDplsralgg.densnsdv..galveale 173
                               l+vi  ++r+    +en  s+   ++ +++l+
  PHY93_00630|PHY93_00630  30 PLIVIEEIDRFKKDqNENGRSARnfSRYIDDLR 62 
                              589999999999995555555533355555444 PP

  == domain 2  score: 9.5 bits;  conditional E-value: 0.00041
                   AAA_25  34 elallaGapgtGKttlaldlalava..tGk 61 
                              +l+ l+G  gtGKt la+  +l+ +  +Gk
  PHY93_00630|PHY93_00630 245 ALVSLVGKAGTGKTLLAIAAGLEKTiaQGK 274
                              6789**************999875544666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (434 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       348  (0.0194099); expected 358.6 (0.02)
Passed bias filter:                      339  (0.0189079); expected 358.6 (0.02)
Passed Vit filter:                        57  (0.00317921); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.59u 0.23s 00:00:00.82 Elapsed: 00:00:00.42
# Mc/sec: 3124.21
//
Query:       PHY93_00635|PHY93_00635  [L=380]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (380 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       232  (0.0129399); expected 358.6 (0.02)
Passed bias filter:                      202  (0.0112667); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.19s 00:00:00.64 Elapsed: 00:00:00.36
# Mc/sec: 3203.30
//
Query:       PHY93_05760|PHY93_05760  [L=414]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.9e-14   52.7   0.3    1.1e-13   52.0   0.3    1.3  1  MacB_PCD  MacB-like periplasmic core domain
    1.3e-11   44.8   6.6    6.8e-11   42.5   2.4    3.0  3  FtsX      FtsX-like permease family
  ------ inclusion threshold ------
       0.01   15.8   2.4       0.01   15.8   2.4    1.9  2  DUF5510   Family of unknown function (DUF5510)
      0.086   12.8   1.6         11    6.0   0.0    2.5  2  PsbY      Photosystem II protein Y (PsbY)


Domain annotation for each model (and alignments):
>> MacB_PCD  MacB-like periplasmic core domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.0   0.3   2.4e-17   1.1e-13       1     189 [.      16     250 ..      16     256 .. 0.71

  Alignments for each domain:
  == domain 1  score: 52.0 bits;  conditional E-value: 2.4e-17
                 MacB_PCD   1 slltvLGiaiGvaaviaivslgeglqasvlsqisdlgnlvtvtpgk.............gsges...................lsd 54 
                              ++lt+LG+ +G++a++++ ++  g+q ++ +q+ ++ + v++   +             g   s                   +  
  PHY93_05760|PHY93_05760  16 TILTLLGVFFGTMAFVSVSGYFLGFQGYLVQQLVNNNAQVHIEARQdyltdhdldqsffG---SknhhvfwnpppagvkgylyVQS 98 
                              89******************************9977666889888777777777766661...14445666666677666666333 PP

                 MacB_PCD  55 pdve..alrrevp.veavapvv.....tvrgggsg.eeevtvvgvdp....dyfkvfglklaeGrffteadlrggpnvvvigeela 127
                              p++   +l ++ p v+a +p++       + g  + + +++++g dp    +  ++ ++ + +G+f   ad+  g n +++g+el 
  PHY93_05760|PHY93_05760  99 PQMWykRL-TADPrVAAYSPILtaaalF-NIG--KiSVAANLIGCDPtkqsKVTTISDY-MIAGKF---ADIGVGGNRIILGNELM 176
                              33322222.3568899999998654321.333..13555899**555323355556777.788965...788877888******** PP

                 MacB_PCD 128 erlf.pvGdtirl.......kpftVvGvledppgsg.salgddavylplttl.....qrrsitvrlkdgadleaaa 189
                              +rl   + +t+ +       +pf+VvG +  ++gs   +l++  ++ +++++     q+++i vrlkd   +++++
  PHY93_05760|PHY93_05760 177 KRLGaGIQQTVLVsvgtnsaVPFKVVGRF--YTGSRgIDLQAYGALADVQRAnrtpnQVNEIGVRLKDYKEADTLS 250
                              **9999**********************9..444330233355677776665666767888*******88877765 PP

>> FtsX  FtsX-like permease family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.0      0.05   2.3e+02      17      50 ..      20      52 ..      12      83 .. 0.76
   2 ?   -0.6   0.1      0.44     2e+03      74      91 ..     285     300 ..     257     306 .. 0.55
   3 !   42.5   2.4   1.5e-14   6.8e-11       1      95 [.     309     407 ..     309     408 .. 0.92

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.05
                     FtsX 17 vlllllteillitlvalviGlglgllaaqllsdv 50
                             +l+++++ ++++++ ++++G   g+l+ ql+++ 
  PHY93_05760|PHY93_05760 20 LLGVFFGTMAFVSVSGYFLG-FQGYLVQQLVNNN 52
                             56667777777777777777.5588888888875 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.44
                     FtsX  74 vlllllallagllsiski 91 
                              +++++l+  ++ + i++i
  PHY93_05760|PHY93_05760 285 MIMTILI--VAGFGIYNI 300
                              1222222..222444444 PP

  == domain 3  score: 42.5 bits;  conditional E-value: 1.5e-14
                     FtsX   1 kreigilralGmkkkqvlllllteillitlvalviGlglgllaaqllsdvllssvfs....selkisidlitvliiivlllllall 82 
                              ++ i+ilralG+ + +++ l+++++l++++ ++v+Gl+ g+l+  ++++    ++      ++l+i + +++++ ++ l+ll +++
  PHY93_05760|PHY93_05760 309 RQDIAILRALGYDTFDIIILFFSQGLIVGVCGTVLGLICGYLFCRYIQTITFLQMTPsnpqGHLHIALTPLIYIQAATLALLSTSI 394
                              688*******************************************999888887756778************************* PP

                     FtsX  83 agllsiskilkke 95 
                              a++l+++ + k +
  PHY93_05760|PHY93_05760 395 ASILPARAAGKLT 407
                              *****99887765 PP

>> DUF5510  Family of unknown function (DUF5510)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.2       1.8     8e+03      33      41 ..     284     292 ..     274     298 .. 0.50
   2 ?   15.8   2.4   2.2e-06      0.01      19      54 ..     324     358 ..     308     364 .. 0.85

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 1.8
                  DUF5510  33 iviGtilGl 41 
                               +i til +
  PHY93_05760|PHY93_05760 284 SMIMTILIV 292
                              333333332 PP

  == domain 2  score: 15.8 bits;  conditional E-value: 2.2e-06
                  DUF5510  19 GivilifspakfriiviGtilGlacayftykyiipi 54 
                               i+il fs   + + v Gt+lGl c y+  +yi  i
  PHY93_05760|PHY93_05760 324 DIIILFFSQG-LIVGVCGTVLGLICGYLFCRYIQTI 358
                              5899999975.56889****************9877 PP

>> PsbY  Photosystem II protein Y (PsbY)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.8    0.0059        26      11      26 ..     117     130 ..     112     133 .. 0.84
   2 ?    6.0   0.0    0.0024        11      11      30 ..     288     307 ..     285     311 .. 0.88

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.0059
                              HHHHHHHHHHHHHHHH CS
                     PsbY  11 PillAagWAlfNIgka 26 
                              Pil Aa  AlfNIgk+
  PHY93_05760|PHY93_05760 117 PILTAA--ALFNIGKI 130
                              888888..8*****97 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.0024
                              HHHHHHHHHHHHHHHHHHHH CS
                     PsbY  11 PillAagWAlfNIgkaAlkQ 30 
                               il++ag  ++NI+   ++Q
  PHY93_05760|PHY93_05760 288 TILIVAGFGIYNILNMTVNQ 307
                              599***************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (414 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       785  (0.0437838); expected 358.6 (0.02)
Passed bias filter:                      502  (0.0279993); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.42
# Mc/sec: 2968.80
//
Query:       PHY93_00640|PHY93_00640  [L=312]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.035   14.4   0.1       0.42   10.8   0.0    2.1  2  VWA       von Willebrand factor type A domain


Domain annotation for each model (and alignments):
>> VWA  von Willebrand factor type A domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   0.0     0.022     4e+02     106     156 ..      11      69 ..       9      89 .. 0.66
   2 ?   10.8   0.0   2.4e-05      0.42      42     115 ..      96     170 ..      93     201 .. 0.82

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.022
                              EEEEEESS--CSS...HTHHHHHHHHGCTEEEEEEEE.....SSSHHHHHHHHHSSSSC CS
                      VWA 106 viilltdGksndg...dpkeaaneakeqgikvfavGv.....gnadekelLnkiasepg 156
                              +i+l++ Gk++d+   d    an a ++g    a+ +     + +d+++ L+++as  +
  PHY93_00640|PHY93_00640  11 LILLFSCGKTTDEktaDAILSANIALSKGSCQLAINIletngRVNDNAAYLKTLASAYA 69 
                              57788888888843776666777777777666677777777766666677777766544 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 2.4e-05
                              EEEESSS.EEEEEETTSHCHHHHHHHHHHTGSGGGGSSC-HHHHHHHHHHHHHHHHGTSSTTSEEEEEEEES.S-- CS
                      VWA  42 lvqfsse.vktefslndysskeellsalnnlkysgggttntgkalkyaleklfkssagaRenakkviilltd.Gks 115
                              +  +s++ v ++++l+++ s ++l++a+n l y+gg  + t + ++  + k+f++s+ a  n++ ++++++  Gk 
  PHY93_00640|PHY93_00640  96 MTLYSTSkVAVQIPLQNDPSFKDLQTAINILLYAGGIAS-TTDPTATERAKYFSASEAADINTQLFFMIMVQlGKY 170
                              67899888***********************99999999.888888888899999999888999998888765555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (312 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       540  (0.0301188); expected 358.6 (0.02)
Passed bias filter:                      379  (0.0211389); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.23s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 2287.10
//
Query:       PHY93_00645|PHY93_00645  [L=410]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.7e-45  153.5   0.0      1e-44  153.2   0.0    1.0  1  Aminotran_1_2    Aminotransferase class I and II
    4.7e-06   26.1   0.2    0.00022   20.6   0.0    2.2  2  DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
     0.0034   16.0   0.0     0.0052   15.4   0.0    1.2  1  Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
  ------ inclusion threshold ------
      0.064   13.2   0.0          8    6.5   0.0    2.8  2  ApoC-I           Apolipoprotein C-I (ApoC-1)


Domain annotation for each model (and alignments):
>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  153.2   0.0   2.2e-48     1e-44       2     362 ..      31     400 ..      30     401 .. 0.89

  Alignments for each domain:
  == domain 1  score: 153.2 bits;  conditional E-value: 2.2e-48
                              EEEESSSSSTTSTTSSHHHHHHHHHHHHHHHHHTSTTST-BTTHHHHHHHHHHHHHC...TCTTCHTTGGEGEEEESHHHHHHHHH CS
            Aminotran_1_2   2 dvinLgsneylgdsgkptlpevakaekegalaggtlneygpidglpeleealakflg...rseklklkreaavvvgsGagalieal 84 
                              +v nL+++++++     ++++ ++  +   l++ +  +y+p  g ++l++++++ +      +  +l+     vv++Ga++ i+ +
  PHY93_00645|PHY93_00645  31 QVYNLTAGQLPFR----PPQSFIESIRT-ELDFLKSYQYSPVGGFQDLRKKIMEHIEetrGVNFASLDEPFGCVVSNGAKHSISNI 111
                              688**********....**********9.****************************765555778888889************** PP

                              HHHHHHTTT-EEEEEESS-THHHHHHHHTTSEEEEEEBEETTTTEE-HHHHHHHHTTHHCTTETEEEEEEESS-TTT--B--HHHH CS
            Aminotran_1_2  85 ifllklnpgdeilvpdptyasyknilrlsggevvryplyseedfhldlealeealkeapegnkktkvilvesphNPtGtvatleel 170
                                ++ ++pgde+++ +p++ sy ++++ ++g  + +  +  + f+  l+++++a++e      ktk i+++sp+NP G  ++ e  
  PHY93_00645|PHY93_00645 112 LGAI-VDPGDEVIIIAPYWISYPEMIKFCRGIPIIVTSSIFDVFSPSLHEIKKAISE------KTKAIIINSPNNPAGIHYSDEWM 190
                              ****.9**************************888884444****************......*********************** PP

                              HHHHHHHHHT.TEEEEEEETTTTCBSSSSHTHHHHGGSTTSTT....EEEEEESSSTTSSGGG-EEEEEEEHHHHHHHHHHHHHHT CS
            Aminotran_1_2 171 eklldlakky.nlllfvDeaYagfvfgsldavatranveeepn....llivgslsKafGlaGeRvGyilgnaavvsqlrklsrpfl 251
                              +  +dl  +y ++ +++De+Y + ++ +++  +   + ++ p+    ++iv + sKaf+++G+R+Gy++g a++++ +++l+ +++
  PHY93_00645|PHY93_00645 191 QGFADLLMEYpHVSVISDEIYFEVCYYDPK--P-TYFYQKNPEllkrTIIVDGISKAFASTGLRIGYAIGPANICKGIENLQGQLT 273
                              ***************************775..4.7788888888899*************************************99 PP

                              SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS.TEEEECCS.CSSEEEEEETHH...............CHHHH CS
            Aminotran_1_2 252 sssllqaavaaalsdallkqseleemrqrlqkrrkelrdeLael.glkvlasq.sgmflltdlsae...............takel 320
                              ss+      a +  d+    ++l   + +l +++ ++r++L+e+   k++ ++ s+++++ d+s+                     
  PHY93_00645|PHY93_00645 274 SSANSLIQRAMMSYDFSSSHQFLVPVKNHLRDNANVIREKLKEAhLMKCWYQPvSAFYYMIDFSQTpvfekyaksrkdktdYS--- 356
                              955544444445555555567***********************9888888888************99988777665544444... PP

                              HHH.....HHHTCTEEEEEGGGGTSTTEEEEECTTS-HHHHHHHHHH CS
            Aminotran_1_2 321 skk.....LleevgvyvtpgtsftvpgrlRitvAglteeeleelvea 362
                                +     +l+e gv+++pgt f+++++ R+++  l +e   e++++
  PHY93_00645|PHY93_00645 357 --VqicedILQELGVVIVPGTDFGMTNSARLSL-VLHKEAFSEAMDK 400
                              ..155566************************9.8888777777765 PP

>> DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.6   0.0     5e-08   0.00022      44     117 ..     100     174 ..      89     177 .. 0.82
   2 !    3.5   0.0    0.0079        36     272     340 ..     288     364 ..     263     406 .. 0.74

  Alignments for each domain:
  == domain 1  score: 20.6 bits;  conditional E-value: 5e-08
                              ESSHHHHHHHHHHHTTTTTT-EEEEESSS-THHHHHHHHTT-EEEEE-B-T.TTSSB-GGGCGGG--TTEEEEEE CS
          DegT_DnrJ_EryC1  44 vssGtaAlhlaLralgvgpgdeVIvpsltFvatanavlelgakpvfvDvdp.dtynidpaaieaaitertkaIlp 117
                              vs+G +     +    v+pgdeVI+ +  +++  +++  +   p+ v   + d + ++ ++i++ai e+tkaI++
  PHY93_00645|PHY93_00645 100 VSNGAKHSISNILGAIVDPGDEVIIIAPYWISYPEMIKFCRGIPIIVTSSIfDVFSPSLHEIKKAISEKTKAIII 174
                              555544333333334589*****************************998747799*****************96 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.0079
                              S.EEESCEEEEEHCCHHHCHHHHHHHHHHC.......CEE-B-SGSCHGGGSCCHHHHHHCCCHC-HHHHHHHHHEE CS
          DegT_DnrJ_EryC1 272 k.hawhlyavlveeeaevkrdelvealkee.......gigtrvhypnplhrqpvyaerkeeasgdlpnaerlaervl 340
                              + ++ h+++v v+++   + + + e+lke+       +  +  +y + ++++pv+++++++ ++++  + +++e++l
  PHY93_00645|PHY93_00645 288 DfSSSHQFLVPVKNHLRDNANVIREKLKEAhlmkcwyQPVSAFYYMIDFSQTPVFEKYAKSRKDKTDYSVQICEDIL 364
                              3477888888887765444444555555553222354344566779999*********9999999999999999886 PP

>> Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   1.1e-06    0.0052      62     150 ..      90     181 ..      79     187 .. 0.83

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 1.1e-06
                              HHHHT-SEEEEESSHHHHHHHHHHTTS-TTEEEEEESTSSHHHHHHHHHTHHH.TTCEEEEEST..TSHHHHHHHCCTTEEEEEEE CS
          Cys_Met_Meta_PP  62 aaLeggeaalavssGmaAiaaailallkaGdeivvsddlYggtqrllkkvlkk.lgievkfvdt..sdleelekaikentklvylE 144
                              a L++   +++ +    +i++++ a++  Gde+++    + +  +++k +    + ++++++d+   +l+e++kai+e+tk++ + 
  PHY93_00645|PHY93_00645  90 ASLDEPFGCVVSNGAKHSISNILGAIVDPGDEVIIIAPYWISYPEMIKFCRGIpIIVTSSIFDVfsPSLHEIKKAISEKTKAIIIN 175
                              66777777777777788999999*************9988888888887766547778888898445678**************** PP

                              SS-TTT CS
          Cys_Met_Meta_PP 145 tptnpl 150
                              +p np 
  PHY93_00645|PHY93_00645 176 SPNNPA 181
                              ****95 PP

>> ApoC-I  Apolipoprotein C-I (ApoC-1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.5   0.0    0.0018         8       5      30 ..     148     173 ..     146     176 .. 0.90
   2 ?    3.5   0.0     0.015        67       8      60 ..     265     317 ..     259     318 .. 0.90

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.0018
                              TSSC....HHHCHHHHHHHHHHCCHC CS
                   ApoC-I   5 esafeslpdklkEfgktledKaraai 30 
                              +s f+ +   l E+ k + +K++a+i
  PHY93_00645|PHY93_00645 148 SSIFDVFSPSLHEIKKAISEKTKAII 173
                              577999999***************98 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.015
                              C....HHHCHHHHHHHHHHCCHCCCHCTTSSSSCCHHHHHHHHHHHHHHSSSX CS
                   ApoC-I   8 feslpdklkEfgktledKaraaieeIkqSelpaktrnWfsetfekvkeklket 60 
                              +e+l+ +l   ++ l  +a++     +  ++    +n + ++ + ++eklke+
  PHY93_00645|PHY93_00645 265 IENLQGQLTSSANSLIQRAMMSYDFSSSHQFLVPVKNHLRDNANVIREKLKEA 317
                              688999999999999999999999999999********************985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (410 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       623  (0.0347482); expected 358.6 (0.02)
Passed bias filter:                      565  (0.0315132); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.38
# Mc/sec: 3213.29
//
Query:       PHY93_00650|PHY93_00650  [L=207]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      1e-28  100.2   0.0    2.1e-28   99.2   0.0    1.4  1  Cons_hypoth95    Conserved hypothetical protein 95
    3.3e-05   23.7   0.8     0.0031   17.2   0.6    2.1  2  MethyltransfD12  D12 class N6 adenine-specific DNA methyltran
  ------ inclusion threshold ------
      0.044   14.5   0.0      0.063   14.0   0.0    1.3  1  Methyltransf_25  Methyltransferase domain
        0.1   11.8   0.0       0.14   11.4   0.0    1.3  1  RsmJ             Ribosomal RNA large subunit methyltransferas


Domain annotation for each model (and alignments):
>> Cons_hypoth95  Conserved hypothetical protein 95
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   99.2   0.0   4.6e-32   2.1e-28       1     136 [.       3     150 ..       3     156 .. 0.93

  Alignments for each domain:
  == domain 1  score: 99.2 bits;  conditional E-value: 4.6e-32
                              EEXXSCCCTTXEEEXTTXXXXXSSSHHHHHHHHHHHCCCHCC-EEEETT-TTSHHHHHHHHTT-SEEEEEES-HHHHHHHHHHHCC CS
            Cons_hypoth95   1 lriigGkakgrkLkvlegkstRPttdrvrealFnilaaeiegarvLDlfaGsGalglEAlSRgakkavlvekdkeavkilkenlee 86 
                              ++i+gG a+g+ L+v++++++RPt+   r  +++  + ++++  +LDl+aGsGa+g+EA SRga++++l e +k+++k+l++n e+
  PHY93_00650|PHY93_00650   3 IKILGGFARGQVLAVPKSDTIRPTSVMLRRRIYDFFQ-DLDEYYFLDLCAGSGAMGFEAWSRGAARVYLNEVSKHVLKTLEDNREN 87 
                              69**********************************9.899999****************************************** PP

                              CT--T.............TTEEEEES-HHHHCTS--SS-EEEEEEE--SSSTTCH.HHHHHHH CS
            Cons_hypoth95  87 lklee.............etaelkedaleallklakkkeefdivflDPPyakellieevlell 136
                              l +++             ++++++++ +++++k  +k+++  i+flDPPy  + ++ +v+++l
  PHY93_00650|PHY93_00650  88 LLIKNhhkkageikisniSAEKFIRQFKSEYQKFDEKQKKQTIIFLDPPYSLKSIYFDVIKEL 150
                              99988889999888887778889999999999999999999**********999988887776 PP

>> MethyltransfD12  D12 class N6 adenine-specific DNA methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.7   0.0    0.0046        21      12      50 ..      34      73 ..      29      87 .. 0.75
   2 !   17.2   0.6     7e-07    0.0031     141     196 ..      92     143 ..      84     162 .. 0.71

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.0046
                             HHCCS-..--SEEEETT-TTSCCHHCS....SSCEEEEES CS
          MethyltransfD12 12 IkelipkdkgktfvepFaGggaVffeakk.qgkkvlinDi 50
                             I + + + +++ f ++ aG+ga++fea +    +v++n +
  PHY93_00650|PHY93_00650 34 IYDFFQDLDEYYFLDLCAGSGAMGFEAWSrGAARVYLNEV 73
                             555555447889**************98855567777755 PP

  == domain 2  score: 17.2 bits;  conditional E-value: 7e-07
                              S-.....HHHHHHHHHHHHHCCEEEC-CHHHHTT--TTE.EEEE--S-T.S...TS- CS
          MethyltransfD12 141 kp.kkvaekelklrseklknakiecgdfdavllkakieddivYlDPPYnprqytany 196
                              ++ kk  e +++++s + +  +++ + ++++++k+k+++ i++lDPPY     ++ y
  PHY93_00650|PHY93_00650  92 NHhKKAGEIKISNISAEKFIRQFK-SEYQKFDEKQKKQT-IIFLDPPYSL---KSIY 143
                              555666666666666666666665.57999999998888.********97...4444 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   1.4e-05     0.063       2      59 ..      47     101 ..      46     130 .. 0.78

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.4e-05
                              EEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTTTEEEEESBCCGBS CS
          Methyltransf_25   2 LdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeeglnvefvqgdaedlp 59 
                              Ldl++G+G + +++  r g+a+v+  ++s+  l++ + + e  +l ++ ++++a +++
  PHY93_00650|PHY93_00650  47 LDLCAGSGAMGFEAWSR-GAARVYLNEVSKHVLKTLEDNRE--NLLIKNHHKKAGEIK 101
                              9****************.69****************99884..555666665555554 PP

>> RsmJ  Ribosomal RNA large subunit methyltransferase D, RlmJ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   3.1e-05      0.14     116     148 ..     118     150 ..      47     163 .. 0.65

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 3.1e-05
                              HHHS-S-TTS-EEEEE----SSCCHHHHHHHHH CS
                     RsmJ 116 lkaklppkekRglvliDPPyeakdeydrvvaal 148
                               +++  +++k +++++DPPy  k  y +v++ l
  PHY93_00650|PHY93_00650 118 YQKFDEKQKKQTIIFLDPPYSLKSIYFDVIKEL 150
                              34455567799*************999999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (207 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1181  (0.0658709); expected 358.6 (0.02)
Passed bias filter:                      772  (0.0430587); expected 358.6 (0.02)
Passed Vit filter:                        59  (0.00329076); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.36
# Mc/sec: 1709.69
//
Query:       PHY93_00655|PHY93_00655  [L=190]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.05   14.0   0.0       0.11   12.9   0.0    1.7  1  CBM77     Carbohydrate binding module 77


Domain annotation for each model (and alignments):
>> CBM77  Carbohydrate binding module 77
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   6.1e-06      0.11      42      86 ..     111     157 ..     103     189 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 6.1e-06
                    CBM77  42 KmeSktsisFtttekmtltlvfaesd.sekikvdgtki.tatsdgvi 86 
                               ++S+ +isF+++ +m+l l f+  + s+++ +d +k    t +gv 
  PHY93_00655|PHY93_00655 111 AINSSSEISFEAHGQMNLNLGFKIGEeSARLTIDPVKGlVVTMSGVE 157
                              589*******************999889*****98875344445554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (190 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1207  (0.0673211); expected 358.6 (0.02)
Passed bias filter:                      680  (0.0379274); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 1435.42
//
Query:       PHY93_00660|PHY93_00660  [L=937]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.026   13.9   0.0      0.055   12.8   0.0    1.5  1  ATPase    KaiC
      0.047   13.8   0.1       0.16   12.1   0.0    2.0  2  RasGAP_C  RasGAP C-terminus


Domain annotation for each model (and alignments):
>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   6.1e-06     0.055     140     221 ..     417     500 ..     393     504 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 6.1e-06
                   ATPase 140 aReilrqlvrvlkklgvTailvsekss..seeaaggygveefivdgvivLdlkeieeelvRtleivkmRgtkhskkehpfeIte 221
                              + +++   + v+kk g+  +++++k    s+++  ++ ++ef v+ ++ L+  + ++e+   + ++  R +++ +++h fe+++
  PHY93_00660|PHY93_00660 417 LVQQILAQKDVMKKDGMIFVFTNQKLFvpSHSERVEQLLKEFKVEAIFNLEELKGKGEIAHFIYVLTKRAAPTATNKHLFEVNK 500
                              5567777799**************87788999999999*************999999************************987 PP

>> RasGAP_C  RasGAP C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.1       0.8   7.1e+03       1      21 [.     455     475 ..     455     477 .. 0.86
   2 ?   12.1   0.0   1.8e-05      0.16       1      42 [.     495     536 ..     495     542 .. 0.94

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 0.8
                 RasGAP_C   1 lvelkkkalenlkeLeelgvi 21 
                              l+e+k +a+ nl+eL+ +g i
  PHY93_00660|PHY93_00660 455 LKEFKVEAIFNLEELKGKGEI 475
                              5789999*********99987 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 1.8e-05
                 RasGAP_C   1 lvelkkkalenlkeLeelgvisrennyqellneIakdirnkg 42 
                              l+e+ kk++e ++  e  g +sr n++++l++e+++ ir+k+
  PHY93_00660|PHY93_00660 495 LFEVNKKVKEACLSFEFNGNLSRFNKFNKLVEELQNFIRHKN 536
                              57899***********************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (937 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       613  (0.0341904); expected 358.6 (0.02)
Passed bias filter:                      352  (0.019633); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.75u 0.24s 00:00:00.99 Elapsed: 00:00:00.48
# Mc/sec: 5831.76
//
Query:       PHY93_00665|PHY93_00665  [L=477]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (477 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       782  (0.0436165); expected 358.6 (0.02)
Passed bias filter:                      458  (0.0255452); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.55u 0.21s 00:00:00.76 Elapsed: 00:00:00.39
# Mc/sec: 3680.86
//
Query:       PHY93_00670|PHY93_00670  [L=322]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (322 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1371  (0.0764683); expected 358.6 (0.02)
Passed bias filter:                      598  (0.0333538); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.20s 00:00:00.70 Elapsed: 00:00:00.36
# Mc/sec: 2671.86
//
Query:       PHY93_00675|PHY93_00675  [L=143]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
  ------ inclusion threshold ------
      0.024   14.4   0.0      0.033   13.9   0.0    1.3  1  DUF2225    Uncharacterized protein conserved in bacteria (DUF
      0.035   14.4   0.1      0.072   13.4   0.0    1.5  2  DUF424     Protein of unknown function (DUF424)
       0.13   12.3   5.0        0.2   11.7   2.8    2.4  2  zf-C2H2_6  C2H2-type zinc finger


Domain annotation for each model (and alignments):
>> DUF2225  Uncharacterized protein conserved in bacteria (DUF2225)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   5.5e-06     0.033       7      50 ..      46      93 ..      40     136 .. 0.80

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 5.5e-06
                  DUF2225  7 eCPvCeekfkkkkvkssslrli....krdsdlnakYeevnplfYevvv 50
                             +C vC+++f+k ++k+ + ++      +d+dl++ +e+  + +++v+ 
  PHY93_00675|PHY93_00675 46 NCTVCSKEFQKFQLKTAAAQVFipkvLMDRDLRQSFEREVVELFKVMN 93
                             7*******************98898899*********99999888875 PP

>> DUF424  Protein of unknown function (DUF424)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0       1.8   1.1e+04      46      53 ..       4      11 ..       2      26 .. 0.57
   2 ?   13.4   0.0   1.2e-05     0.072       3      73 ..      40     109 ..      38     116 .. 0.91

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 1.8
                             HHHHHHHH CS
                   DUF424 46 aikeLeka 53
                             +i+eL+++
  PHY93_00675|PHY93_00675  4 SIQELNNV 11
                             56666655 PP

  == domain 2  score: 13.4 bits;  conditional E-value: 1.2e-05
                              ETTE.EEEEEEEGGGTT-EEEETTEEEE--HHHH--EEE-HHHHHHHHHHH.EEEEEESHHHHHHHHHTTSS CS
                   DUF424   3 tddllklvavcdkellgktfkegelllnvsegfyggelaseeeaikeLeka.tiaNivgeeavvlavkaGlv 73 
                               +++l++  vc+ke   +++k   +++ + + + +  l   + + +e  ++  ++N+ ++e+ + +vk G+ 
  PHY93_00675|PHY93_00675  40 MNKHLENCTVCSKEFQKFQLKTAAAQVFIPKVLMDRDLR--QSFEREVVELfKVMNLNDREILKRNVKKGFL 109
                              67899*********99***********************..99999988888******************96 PP

>> zf-C2H2_6  C2H2-type zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.0       0.3   1.8e+03      12      21 ..      35      44 ..      35      45 .. 0.87
   2 ?   11.7   2.8   3.4e-05       0.2       3      15 ..      46      58 ..      46      58 .. 0.94

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 0.3
                zf-C2H2_6 12 pslqaLggHk 21
                             +s++ +++H+
  PHY93_00675|PHY93_00675 35 ESYKRMNKHL 44
                             599999**96 PP

  == domain 2  score: 11.7 bits;  conditional E-value: 3.4e-05
                zf-C2H2_6  3 eCsvCsksFpslq 15
                             +C+vCsk+F+++q
  PHY93_00675|PHY93_00675 46 NCTVCSKEFQKFQ 58
                             6*********998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (143 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       957  (0.0533772); expected 358.6 (0.02)
Passed bias filter:                      510  (0.0284455); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.41u 0.19s 00:00:00.60 Elapsed: 00:00:00.35
# Mc/sec: 1220.52
//
Query:       PHY93_00680|PHY93_00680  [L=163]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
  ------ inclusion threshold ------
      0.021   14.4   0.3        7.1    6.3   0.0    2.7  2  Spc110_C     Spindle pole body component 110 C-terminal domai
      0.043   13.8   0.3      0.086   12.9   0.1    1.6  2  RNA_GG_bind  PHAX RNA-binding domain


Domain annotation for each model (and alignments):
>> Spc110_C  Spindle pole body component 110 C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.4   0.1    0.0016        14      34      47 ..      80      93 ..      74      95 .. 0.86
   2 ?    6.3   0.0    0.0008       7.1      30      50 ..     104     124 ..     101     126 .. 0.89

  Alignments for each domain:
  == domain 1  score: 5.4 bits;  conditional E-value: 0.0016
                 Spc110_C 34 qrlrYLqrKialde 47
                              r rYLq Ki l +
  PHY93_00680|PHY93_00680 80 SRKRYLQLKISLSD 93
                             599*******9875 PP

  == domain 2  score: 6.3 bits;  conditional E-value: 0.0008
                 Spc110_C  30 rwdeqrlrYLqrKialdedri 50 
                              + de+ + YL++K  ld d+i
  PHY93_00680|PHY93_00680 104 DFDEKAILYLKEKANLDLDQI 124
                              6899************99987 PP

>> RNA_GG_bind  PHAX RNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.1   9.6e-06     0.086       4      49 ..      59     104 ..      56     108 .. 0.90
   2 ?   -3.1   0.0      0.95   8.5e+03      63      81 ..     112     130 ..     110     132 .. 0.73

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 9.6e-06
              RNA_GG_bind   4 eiarrLkEpkkdliervvkvlGkekalelleeteeieknGGlltad 49 
                              +i ++L E+ k  + ++v++l +++ l+l     ++e nGG++  d
  PHY93_00680|PHY93_00680  59 KIEKNLLEETKLNLIKIVYELSRKRYLQLKISLSDVEGNGGFFSLD 104
                              688999999999999**************************98665 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 0.95
              RNA_GG_bind  63 llknsesiskeekkeIfke 81 
                               lk++ +++ +++++I + 
  PHY93_00680|PHY93_00680 112 YLKEKANLDLDQIEFITST 130
                              5788888888888888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (163 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       819  (0.0456802); expected 358.6 (0.02)
Passed bias filter:                      443  (0.0247086); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.39u 0.21s 00:00:00.60 Elapsed: 00:00:00.36
# Mc/sec: 1356.82
//
Query:       PHY93_00685|PHY93_00685  [L=248]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (248 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       349  (0.0194657); expected 358.6 (0.02)
Passed bias filter:                      279  (0.0155614); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1866.70
//
Query:       PHY93_05765|PHY93_05765  [L=223]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    5.1e-31  108.0   0.0    6.4e-31  107.7   0.0    1.1  1  ABC_tran     ABC transporter
    1.7e-07   31.3   0.0      0.012   15.5   0.1    2.1  2  AAA_21       AAA domain, putative AbiEii toxin, Type IV TA sy
    9.1e-05   22.0   0.1     0.0024   17.4   0.1    2.1  1  SMC_N        RecF/RecN/SMC N terminal domain
    0.00018   21.1   0.2     0.0011   18.7   0.0    2.1  2  AAA_29       P-loop containing region of AAA domain
     0.0027   17.6   0.0     0.0046   16.9   0.0    1.3  1  RsgA_GTPase  RsgA GTPase
  ------ inclusion threshold ------
      0.012   15.2   0.0      0.069   12.7   0.0    1.9  2  AAA_25       AAA domain
      0.019   14.7   0.0       0.17   11.5   0.0    1.9  2  AAA_15       AAA ATPase domain
      0.047   14.3   0.0       0.37   11.3   0.0    2.1  2  AAA_18       AAA domain
      0.052   13.8   0.0       0.19   12.0   0.0    1.8  2  AAA_22       AAA domain
       0.11   12.2   0.0       0.18   11.5   0.0    1.5  1  PRK          Phosphoribulokinase / Uridine kinase family
       0.12   12.8   0.1       0.14   12.5   0.1    1.3  1  AAA_16       AAA ATPase domain
       0.13   12.4   0.0        0.2   11.7   0.0    1.5  1  MMR_HSR1     50S ribosome-binding GTPase
       0.16   12.3   0.4        3.8    7.8   0.0    2.6  2  SbcCD_C      Putative exonuclease SbcCD, C subunit


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  107.7   0.0   4.7e-34   6.4e-31       1     136 [.      20     167 ..      20     168 .. 0.88

  Alignments for each domain:
  == domain 1  score: 107.7 bits;  conditional E-value: 4.7e-34
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG....B-HHHCCHCEEEE-SS--S-TTSBHHHH... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxx... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke....qeleslrkeigvlpqepqlfpeltvren... 79 
                              l+++sl+++ ge + ++G++GaGKStLl +l+ l +p  G+i++ g+d+++    +  ++ ++++g+++q + l  elt+ +n   
  PHY93_05765|PHY93_05765  20 LSDISLEIRDGEFISLTGRSGAGKSTLLYVLSSLDNPSDGSIEISGQDVTKmpseELYRFRNQKMGFVFQFHYLIAELTAIQNvlm 105
                              689************************************************999777788899****************88888** PP

                              .......HHHTC...HHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              .......xxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 .......esdee...iekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                                     e +++   + ++l+++glk+    ++++ p++LSgG++qr+a+ar+l+  p+ l++DEpt
  PHY93_05765|PHY93_05765 106 pamkykeE-KKRrfrAVELLEQFGLKD----KIDRYPRQLSGGEQQRLAIARSLIMGPQYLFADEPT 167
                              ***98743.333344666677777666....556667*****************************9 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.1   8.6e-06     0.012       3      61 ..      34      89 ..      32      98 .. 0.64
   2 !   13.8   0.0   2.7e-05     0.037     223     300 ..     126     201 ..     100     203 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 8.6e-06
                   AAA_21  3 vliGpNgsGKSnLLdaldllarldrdvegltdelsggggirkipslldlydpeipfefe 61
                              l+G+ g+GKS+LL+ l+ l   d+ ++g+  +++  ++    + l+++++ ++ f+f+
  PHY93_05765|PHY93_05765 34 SLTGRSGAGKSTLLYVLSSL---DNPSDGSIEISGQDVTKMPSEELYRFRNQKMGFVFQ 89
                             699***************99...544444444444444444444444444444444444 PP

  == domain 2  score: 13.8 bits;  conditional E-value: 2.7e-05
                   AAA_21 223 flengdgqelparelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsr.ngaQviltTHSpl 300
                              ++  +d  ++ +r+lS G ++ la++ +l+  ++    l+ DEp  +L+    + ++ +l+++s   g  vi++TH+p 
  PHY93_05765|PHY93_05765 126 QFGLKDKIDRYPRQLSGGEQQRLAIARSLIMGPQ---YLFADEPTGSLDTVNAEIVMNILRDCSLkQGMTVIMVTHDPD 201
                              555677888999******************9995...5**********************9999999**********95 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.1   1.7e-06    0.0024     110     211 ..     107     212 ..      21     218 .. 0.64

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 1.7e-06
                              EEEETTEEE-HHHHHHHHHCTT-STT......CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHH..HHC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxx RF
                    SMC_N 110 eykingkevtkkevsellesagiske......lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellk..eks 187
                               +k ++++ ++    elle+ g++ +      +LSgGe++ +a+a  +    + p+ l+  De    LD  n ++v ++l+  + +
  PHY93_05765|PHY93_05765 107 AMKYKEEKKRRFRAVELLEQFGLKDKidryprQLSGGEQQRLAIARSL---IMGPQYLF-ADEPTGSLDTVNAEIVMNILRdcSLK 188
                              44555555566666677777777766888888*******988887442...24455444.4*******************955566 PP

                              TTSEEEEE-SSHHHCCC-SCEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 188 knaQfivislreemlekadklvgv 211
                              + + +i+++++ ++ + a + +++
  PHY93_05765|PHY93_05765 189 QGMTVIMVTHDPDFSKMAPRQIRL 212
                              6799*******9999998877765 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   0.0   7.7e-07    0.0011      17      39 ..      25      47 ..      18      58 .. 0.79
   2 ?   -0.5   0.0      0.75     1e+03      41      50 ..      99     108 ..      97     112 .. 0.83

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 7.7e-07
                   AAA_29 17 ieidlkg.atlltGpsGsGKSTll 39
                             +ei+  g ++ ltG+sG+GKSTll
  PHY93_05765|PHY93_05765 25 LEIRD-GeFISLTGRSGAGKSTLL 47
                             56654.45999************8 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.75
                   AAA_29  41 AiqalLvpak 50 
                              Aiq +L+pa 
  PHY93_05765|PHY93_05765  99 AIQNVLMPAM 108
                              99******87 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0   3.3e-06    0.0046      90     123 ..      20      54 ..      10      77 .. 0.81

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 3.3e-06
                              HHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT- CS
              RsgA_GTPase  90 leelkellkd.ktsvlvGqSGvGKStLinallpel 123
                              l++++ +++d +++ l G SG+GKStL+ +l + +
  PHY93_05765|PHY93_05765  20 LSDISLEIRDgEFISLTGRSGAGKSTLLYVLSSLD 54 
                              566777777779999*************9998754 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0     5e-05     0.069      31      54 ..      28      51 ..      14      52 .. 0.90
   2 ?   -0.2   0.0      0.47   6.5e+02     166     188 ..     176     198 ..     161     200 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 5e-05
                   AAA_25 31 pagelallaGapgtGKttlaldla 54
                             + ge++ l+G++g+GK+tl++ l+
  PHY93_05765|PHY93_05765 28 RDGEFISLTGRSGAGKSTLLYVLS 51
                             679****************99886 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.47
                   AAA_25 166 galvealeriarrtgaavllvhH 188
                              + +++ l++ + + g +v++v H
  PHY93_05765|PHY93_05765 176 EIVMNILRDCSLKQGMTVIMVTH 198
                              67788899999999*******99 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00013      0.17      14      68 ..      20      79 ..      19     137 .. 0.69
   2 ?    1.3   0.0      0.16   2.2e+02     327     367 ..     161     201 ..     105     202 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00013
                   AAA_15 14 lkdveidlsee.ltvliGkNnsGKSsilealdlFlnnkekkn.....kkvikiekedleif 68
                             l+d+++++ +  +  l G+ ++GKS++l++l  + n + + +     ++v+k  +e+l  f
  PHY93_05765|PHY93_05765 20 LSDISLEIRDGeFISLTGRSGAGKSTLLYVLSSLDNPS-DGSieisgQDVTKMPSEELYRF 79
                             67888899888899******************999988.2223454544444444444333 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.16
                   AAA_15 327 lliEEPEahLHpqaqkvlikllkelandnktQviitTHSph 367
                              l+ +EP  +L + + +++++ l++ + +  + vi+ TH p 
  PHY93_05765|PHY93_05765 161 LFADEPTGSLDTVNAEIVMNILRDCSLKQGMTVIMVTHDPD 201
                              6778888888889999999999999999999*******996 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00027      0.37       1      31 [.      33      71 ..      33     127 .. 0.77
   2 ?    0.8   0.0       0.5   6.8e+02      48      93 ..     166     209 ..     146     217 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00027
                   AAA_18  1 IlltGtpGvGKttlakeLskrlgf.........gvnlrdv 31
                             I ltG +G+GK+tl   Ls++  +         g+ ++++
  PHY93_05765|PHY93_05765 33 ISLTGRSGAGKSTLLYVLSSLD-NpsdgsieisGQDVTKM 71
                             679***************9984.44566655555555444 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.5
                   AAA_18  48 eskrldedkldklldaleenssaleegknlvidghlaeleseaakd 93 
                              ++  ld+ + + ++++l+ +s  l +g ++++  h  ++ ++a ++
  PHY93_05765|PHY93_05765 166 PTGSLDTVNAEIVMNILRDCS--LKQGMTVIMVTHDPDFSKMAPRQ 209
                              456677778888999999997..59999999999999888887776 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   0.00014      0.19       4      23 ..      29      48 ..      26      85 .. 0.85
   2 ?   -0.7   0.0       1.1   1.6e+03      95     126 ..     161     194 ..     103     205 .. 0.51

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00014
                   AAA_22  4 tagilvvtGesGtGKTtllr 23
                             +  ++ +tG sG+GK+tll 
  PHY93_05765|PHY93_05765 29 DGEFISLTGRSGAGKSTLLY 48
                             67899************985 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 1.1
                   AAA_22  95 liiDEaqh.lr..s.eealeeLrsllnlsrkgvqli 126
                              l  DE    l+  + e +++ Lr+++   ++g+++i
  PHY93_05765|PHY93_05765 161 LFADEPTGsLDtvNaEIVMNILRDCSL--KQGMTVI 194
                              333333322322211233344455555..4444444 PP

>> PRK  Phosphoribulokinase / Uridine kinase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00013      0.18       1      39 [.      32      69 ..      32     123 .. 0.63

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00013
                      PRK  1 vIgvagsSGaGkttvarklekifgrekvkaaeiegdsfl 39
                             +I+++g SGaGk+t+   l ++ +  +  + ei g+ ++
  PHY93_05765|PHY93_05765 32 FISLTGRSGAGKSTLLYVLSSLDN-PSDGSIEISGQDVT 69
                             69************9987766544.44444555555444 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.1    0.0001      0.14      23      47 ..      29      52 ..      17     164 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 0.0001
                   AAA_16 23 rpelvllsGesGvGKsslvrellra 47
                             ++e + l+G sG GKs+l+  l  +
  PHY93_05765|PHY93_05765 29 DGEFISLTGRSGAGKSTLLYVLS-S 52
                             44899*************94444.3 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00015       0.2       2      21 ..      33      52 ..      32     120 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00015
                             EEEEESTTSSHHHHHHHHHT CS
                 MMR_HSR1  2 vaivGrpNvGKStLinaltg 21
                             + + Gr+ +GKStL+  l+ 
  PHY93_05765|PHY93_05765 33 ISLTGRSGAGKSTLLYVLSS 52
                             7899***********99875 PP

>> SbcCD_C  Putative exonuclease SbcCD, C subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.1       8.1   1.1e+04      32      44 ..      37      49 ..      34      51 .. 0.80
   2 ?    7.8   0.0    0.0028       3.8      21      43 ..     128     150 ..     110     184 .. 0.57

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 8.1
                  SbcCD_C 32 tlSGGekqflayl 44
                             + SG  k++l+y+
  PHY93_05765|PHY93_05765 37 GRSGAGKSTLLYV 49
                             6799999999997 PP

  == domain 2  score: 7.8 bits;  conditional E-value: 0.0028
                  SbcCD_C  21 gkekelsrssgtlSGGekqflay 43 
                              g + +++r  ++lSGGe+q la 
  PHY93_05765|PHY93_05765 128 GLKDKIDRYPRQLSGGEQQRLAI 150
                              55556777778999999976542 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (223 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       457  (0.0254894); expected 358.6 (0.02)
Passed bias filter:                      438  (0.0244297); expected 358.6 (0.02)
Passed Vit filter:                        75  (0.00418317); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.53u 0.26s 00:00:00.79 Elapsed: 00:00:00.43
# Mc/sec: 1540.26
//
Query:       PHY93_00690|PHY93_00690  [L=314]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    6.6e-26   90.8   0.0    9.1e-26   90.3   0.0    1.2  1  GSH-S_ATP  Prokaryotic glutathione synthetase, ATP-grasp doma
    6.7e-20   71.4   0.0    1.1e-19   70.7   0.0    1.3  1  GSH-S_N    Prokaryotic glutathione synthetase, N-terminal dom
    0.00028   20.5   0.0    0.00039   20.1   0.0    1.2  1  RimK       RimK-like ATP-grasp domain


Domain annotation for each model (and alignments):
>> GSH-S_ATP  Prokaryotic glutathione synthetase, ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   90.3   0.0   1.5e-29   9.1e-26      17     171 ..     143     301 ..     128     305 .. 0.88

  Alignments for each domain:
  == domain 1  score: 90.3 bits;  conditional E-value: 1.5e-29
                              EES-HHHHHHHH.....HHHSSEEEEESS--TTTT-EEE-TT-TTHHHHHHHHTTTTTS-EEEEE--GGGGG-EEEEEEETTEE-S CS
                GSH-S_ATP  17 vskdkeeirafl.....eeqgdvilKPldgkgGegvfrvkksdpnlksilellteegkepviaqrylpeikeGDkRillvdGepig 97 
                              v ++++e  +f+     e+++++ilKPld   G gv +++ ++++lk  +el ++e++ pv+aq + +e+++G+ R l  +G  +g
  PHY93_00690|PHY93_00690 143 VGSSVSEFLNFAeilkkENHKELILKPLDLFQGIGVEKISINRADLKEKFELKIKENNGPVVAQPFCKEVTSGEIRALYFKGVELG 228
                              4455555555541111146788**************************************************************** PP

                              EEEEEE--SS-S---GGGTSCEEEEE--HHHHHHHHHHHHHHHHTT--EEEEEEETTEEEEEE-SS---HHHHH CS
                GSH-S_ATP  98 yalaRvpaegevRsnlaaggraeatelterdreiaeelapkLkekGllfvGlDvigdkltEinvtsPtgireie 171
                               ++ ++p++ge+ +n+a g+  +a elt++ ++ ++++   L  +G+  v  D++g++++Ein+t P+ + e++
  PHY93_00690|PHY93_00690 229 -SILKIPKHGEFLANIAQGADFHAIELTKNVKNECHRICADLLCDGVDWVAFDIMGEHVSEINITCPGLLVEVS 301
                              .*******************************************************************999986 PP

>> GSH-S_N  Prokaryotic glutathione synthetase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.7   0.0   1.9e-23   1.1e-19       1     118 [.       1     123 [.       1     123 [. 0.85

  Alignments for each domain:
  == domain 1  score: 70.7 bits;  conditional E-value: 1.9e-23
                  GSH-S_N   1 lklafvmdplesikikkDttfalmleaqarghevfvleaadLslregkatararkvevkedk.ed.....wyelgeeeelaleeld 80 
                              +k ++++dp+e++++kkD+t++l+  +++ g ev++l  +d++l+++ +  + + + + ++  +d      + lge++ +++++ d
  PHY93_00690|PHY93_00690   1 MKHILFIDPIENLTPKKDSTLMLAATMKKAGVEVYLLFEKDFYLSNK-MNPEFQVYDFMGEFyDDgyylkSFVLGERSLQKVNRED 85 
                              89999***************************************875.4444555554322211123344889************* PP

                  GSH-S_N  81 vvlmRkDPPfdmeylyatylLelaeregvlvvNdpral 118
                              ++ mR DPPfd++yl   ++L   +++g +vvN+p+++
  PHY93_00690|PHY93_00690  86 ILHMRIDPPFDTRYLRYLWMLRFYQEQGIRVVNSPDGI 123
                              ***********************************986 PP

>> RimK  RimK-like ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.1   0.0   6.6e-08   0.00039      43     185 ..     165     313 ..     145     314 .] 0.74

  Alignments for each domain:
  == domain 1  score: 20.1 bits;  conditional E-value: 6.6e-08
                              EEEEE-TTTT--EE.EEE-SHHHHHHHHHH....GGG--EEEEE--SS-SEEEEEEEETTEEEEEEEEE--SSS----TTTT-EEE CS
                     RimK  43 vvvKsvegsqGikv.vlakkeqklkqvlea....lkeailvqeyieeaenediRvlvvddevvaalrrvskeGdFRsnlhrGgvae 123
                              +++K +   qGi+v  ++ ++ +lk+ +e      +  ++ q + +e  + +iR l  ++   +++ ++ k G+F +n+ +G+   
  PHY93_00690|PHY93_00690 165 LILKPLDLFQGIGVeKISINRADLKEKFELkikeNNGPVVAQPFCKEVTSGEIRALYFKGVELGSILKIPKHGEFLANIAQGADFH 250
                              5666666667776632445555555555444332666789********************************************** PP

                              E----HHHHHHHHHHHHHCT-SEEEEE.EEEETTEEEEEEEE.SS--S.HHHHHHHT--HHHHHH CS
                     RimK 124 klqlseeekelAikaakamelvvaGvD.llrakrgllvlEvn.sspgl.ekiektlgidiakkli 185
                               ++l+++ k+   ++    +l   GvD +     g  v E+n + pgl  +++   + ++a++l+
  PHY93_00690|PHY93_00690 251 AIELTKNVKNECHRIC--ADLLCDGVDwVAFDIMGEHVSEINiTCPGLlVEVSFAHKKNLAIELL 313
                              *****99988655554..45677799944444578888888833466524566677777777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (314 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       461  (0.0257125); expected 358.6 (0.02)
Passed bias filter:                      410  (0.022868); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.19s 00:00:00.68 Elapsed: 00:00:00.37
# Mc/sec: 2539.38
//
Query:       PHY93_00695|PHY93_00695  [L=352]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.3e-55  188.2   9.1    2.8e-55  188.0   9.1    1.0  1  Aminopep       Putative aminopeptidase
  ------ inclusion threshold ------
      0.016   15.0   2.4      0.033   13.9   2.4    1.5  1  Tox-MPTase2    Metallopeptidase toxin 2
       0.15   10.5   0.2       0.28    9.6   0.2    1.4  1  ABC_export     Putative ABC exporter
       0.51    9.9   4.4        0.6    9.6   0.8    2.0  2  Y_phosphatase  Protein-tyrosine phosphatase


Domain annotation for each model (and alignments):
>> Aminopep  Putative aminopeptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  188.0   9.1   6.2e-59   2.8e-55       2     307 ..      25     332 ..      24     346 .. 0.89

  Alignments for each domain:
  == domain 1  score: 188.0 bits;  conditional E-value: 6.2e-59
                 Aminopep   2 YylqavkgqlkllqarepieevladpatdaalrerLelaqeireFaseeLaLpdnksYrrYadLerpavvwnvvaapefsLelktw 87 
                              Y++ +  gq++l ++++  +e+l++ +++a+++++++++q+++++  +  + ++++ Y++ + L+ +av++ vva+p  ++++++ 
  PHY93_00695|PHY93_00695  25 YLYEQSVGQISLQSSARDNQEMLKNVRIPAEQKDKIRKIQTLKKYFYSYWGKKETAIYSQTTMLQNKAVTYLVVASPFQEIKAEET 110
                              999*********************************************************************************** PP

                 Aminopep  88 cfpvvGcvaYrGyfseaaAkaeaaelkekgldtsvrgvpAYSTLGwfnDPllstflelseeelarlifHElaHqvlYvkgdtafnE 173
                              cfp++Gc++Y G+f+ ++Ak+ a++ +++++ t+vr v AYSTLG+f+D +ls+f +++++ela+lifHEl H+ ++++++ + nE
  PHY93_00695|PHY93_00695 111 CFPLMGCFPYLGFFNLSSAKDFAKKKEAEDFVTWVRPVYAYSTLGYFTDTILSSFFHYNDYELAELIFHELFHTIFFINNQVELNE 196
                              ************************************************************************************** PP

                 Aminopep 174 sfAtaVeregverwlaaegsaaareeaaaekarreqfralvkatrerLealYasdlsaeekraakaeileel.raeyaelkaeelk 258
                              ++A   ++e +e++++++ + +  + +++e+ +++++r++v ++ ++L++ Y+  l+++++++  + il+e+  ++++    ++ +
  PHY93_00695|PHY93_00695 197 NLANYFAKEMLEEYFTKTNQLDYLRIQQKEELEDKTLRKMVVNLTTELQEHYQALLPKTKEES--QVILDEFlEKKFRPSILKKCQ 280
                              ***************99887777888888889999******************9776554433..344444335666665555555 PP

                 Aminopep 259 g...lagydewvakplnNakllavaaYdelvpafealfeeegrdlerfyaav 307
                              +     +    +++++nNa+++a+ +Y+++   +e l ++ g dl+ +y+ +
  PHY93_00695|PHY93_00695 281 EiniPPKNCFPIERQWNNASFAAFLTYEKKSDDLEGLQKKLGLDLRGYYSFI 332
                              522222223336789***************************9999998765 PP

>> Tox-MPTase2  Metallopeptidase toxin 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   2.4   7.4e-06     0.033     102     158 ..     168     228 ..     159     262 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 7.4e-06
              Tox-MPTase2 102 dniynlkstLaHEsfHkkddqrgkyk..eellhvilrqlraeeFkkttq..efkdglagyl 158
                              +n y+l   ++HE fH+ + + ++++  e+l +   +++ +e F kt q   ++  ++++l
  PHY93_00695|PHY93_00695 168 YNDYELAELIFHELFHTIFFINNQVElnENLANYFAKEMLEEYFTKTNQldYLRIQQKEEL 228
                              799**********************99555666**************98222344444444 PP

>> ABC_export  Putative ABC exporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   0.2   6.2e-05      0.28     254     388 ..       4     133 ..       1     139 [. 0.74

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 6.2e-05
               ABC_export 254 lvLlllllvllilliykmkvDf.yEdal......esaedkeemikavk.eGkvseskkkkkkvkkvkgikrgkGAkaifyKqlley 331
                              l L +l+  ll l   ++k D+ yE+ +      +sa d++em+k+v+   +++++  k +  kk +  ++gk   ai++   +++
  PHY93_00695|PHY93_00695   4 LKLSVLSSLLLSLFGGCAKFDYlYEQSVgqislqSSARDNQEMLKNVRiPAEQKDKIRKIQTLKKYFYSYWGKKETAIYSQTTMLQ 89 
                              56677777777777778899******994444445788888888888875555444666666677777778888888887776666 PP

               ABC_export 332 krsskfifvglsslillvvaivislfkgsieanegfyilgivlylllflsgltgkws 388
                               +           +++lvva+ +  +   + +   f ++g++ yl++f+  ++++++
  PHY93_00695|PHY93_00695  90 NKA----------VTYLVVASPFQEI---KAEETCFPLMGCFPYLGFFNLSSAKDFA 133
                              554..........6678999999999...9999999999999999999987777765 PP

>> Y_phosphatase  Protein-tyrosine phosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.1     0.047   2.1e+02     104     148 ..      37      79 ..      24     100 .. 0.65
   2 ?    9.6   0.8   0.00013       0.6      61     130 ..     176     245 ..     174     265 .. 0.80

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.047
                              EEE.EEEEEESSEEEEEEEEEETTTTE..EEEEEEEEEESSS-SSSS CS
            Y_phosphatase 104 tlkekekedekeyvlrelevkkkkees..eerevkqlqytnWpdhgv 148
                              +      + +++ +l+++++  +++++  + +++k++ y  W ++++
  PHY93_00695|PHY93_00695  37 QSS----ARDNQEMLKNVRIPAEQKDKirKIQTLKKYFYSYWGKKET 79 
                              333....2344567777777777776665566779999999987764 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 0.00013
                              HHHHTT--EEEEESBSEETTEESS---S-SSTSSEEEETTEEEEEE..EEEEEESSEEEEEEEEEETTTTE CS
            Y_phosphatase  61 mvwqekvkvivmLtsleekgrekcaqYwpeeeeesleygkikvtlk.ekekedekeyvlrelevkkkkees 130
                              ++++e  ++i+ +++ +e+ +e+ a+Y+ +e+ e++ +++ ++ +   ++ke+ ++ +lr++ v+ ++e +
  PHY93_00695|PHY93_00695 176 LIFHELFHTIFFINNQVEL-NENLANYFAKEMLEEYFTKTNQLDYLrIQQKEELEDKTLRKMVVNLTTELQ 245
                              699999************9.89999****888777777777777777666667889999999998666654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (352 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1058  (0.0590105); expected 358.6 (0.02)
Passed bias filter:                      377  (0.0210274); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 2572.94
//
Query:       PHY93_00700|PHY93_00700  [L=202]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    0.00059   19.5   1.1    0.00064   19.4   0.6    1.3  1  Autotransporter  Autotransporter beta-domain


Domain annotation for each model (and alignments):
>> Autotransporter  Autotransporter beta-domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.4   0.6   3.6e-08   0.00064     148     254 ..      75     178 ..      58     179 .. 0.87

  Alignments for each domain:
  == domain 1  score: 19.4 bits;  conditional E-value: 3.6e-08
                              EEEEEE-SS.TTSEEEEEEEEEEEEEEEEEEEEEECCCTTECEEEEEEEEEEEECEE---EEEEEETTECCEEE...E-------B CS
          Autotransporter 148 kldgftesggaaaltvdsqdadsltgrlGlrlsydfdlgggkltpylraawqhefgddgktstasfagastags...ftvfgaelg 230
                              + d +t      +++v sq++  +t  +Gl l++ ++ +g ++tp ++a++++ef  ++ ++t+  ++     +   f+  +++++
  PHY93_00700|PHY93_00700  75 QNDRYTVAT---GTDVISQQNRVQTNVFGLGLKQMLAGRGARITPIISAGYAREFVTSSGDITVEDTTNL---TqrkFNLKESKQR 154
                              567777777...******************************************9999999999933333...23669******** PP

                              CEEEEEEEEEEEEECTTEEEEEEE CS
          Autotransporter 231 rdslelgaGleaqlsdnlslylny 254
                               +s+  +  l+++l++++sl +++
  PHY93_00700|PHY93_00700 155 YNSVFGSFILQIKLTERFSLKGSV 178
                              ********************9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (202 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       551  (0.0307323); expected 358.6 (0.02)
Passed bias filter:                      368  (0.0205254); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1479.88
//
Query:       PHY93_00705|PHY93_00705  [L=484]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.4e-25   89.2   0.1    2.6e-25   88.3   0.1    1.5  1  UPF0004      Uncharacterized protein family UPF0004
    1.7e-24   87.1   0.1    4.1e-24   85.8   0.0    1.7  2  Radical_SAM  Radical SAM superfamily
  ------ inclusion threshold ------
      0.026   14.8   0.0      0.075   13.3   0.0    1.8  1  Fer4_12      4Fe-4S single cluster domain


Domain annotation for each model (and alignments):
>> UPF0004  Uncharacterized protein family UPF0004
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.3   0.1   4.4e-29   2.6e-25       1      98 []      38     137 ..      38     137 .. 0.95

  Alignments for each domain:
  == domain 1  score: 88.3 bits;  conditional E-value: 4.4e-29
                              XEEEE--S-CCCCHHHHHHHHHTTTSSS----SSS--SEEEEEE--SSSSHHHHTHHHHHHHHTTS..T.--EEEEEEHHHHS-HH CS
                  UPF0004   1 kvaietlGCqmNevdseelaslLkkegyelvedeeeAdvvlvnTCavrekaekkviqalrelkalk..kpekkvvvlGCmaqreke 84 
                              kv ++t+GCqmN +ds+++a++L++ +++++e  eeAd+vl+nTCavr+ a++k++++l+e+k++k  k++  v++ GC+aq+e++
  PHY93_00705|PHY93_00705  38 KVWMKTFGCQMNYHDSDRIAAHLQDLNFKKTEILEEADLVLFNTCAVRDLANNKFYSQLGEIKHAKkkKNGLVVGIGGCVAQTEGR 123
                              7899***********************************************************9996557899999********** PP

                              HHHHH-TTS-EEE- CS
                  UPF0004  85 ellkeepevdlvlg 98 
                              el+++ ++ d+ +g
  PHY93_00705|PHY93_00705 124 ELVAKYKHLDFAFG 137
                              *******9999887 PP

>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0       1.1   6.6e+03      38      74 ..      99     133 ..      93     159 .. 0.71
   2 !   85.8   0.0   6.9e-28   4.1e-24       1     167 []     184     355 ..     184     355 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 1.1
                              HHHHHHHTTSEEEEEESSTGGGSTTHHHHHHHHHHTC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM  38 vkelkaekgvkevilgggepllypdfvellerlakla 74 
                              +k +  +k ++++++g g   ++ +  el++++++l+
  PHY93_00705|PHY93_00705  99 IKHA--KKKKNGLVVGIGGCVAQTEGRELVAKYKHLD 133
                              3334..3338888888888888888888888888874 PP

  == domain 2  score: 85.8 bits;  conditional E-value: 6.9e-28
                              EEEESEESS--TTTSCCTTHHHHHHHHHHHHHHHHHHHHHHHHHTTSEEEEEESSTGGGS.TTHHHHHHHHHHTC.....CCTEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxx.....xxxxxx RF
              Radical_SAM   1 vvvtrgCnlrCsfCarpetvrregrgrslsveeileevkelkaekgvkevilgggeplly.pdfvellerlakla.....vpgiri 80 
                              v++ +gCn  C++C++p+   ++g++rs+ ++e+++ v +l +++g+ ev+l+g++++ y ++  e l++l+ +       + ir 
  PHY93_00705|PHY93_00705 184 VNIIKGCNKYCTYCIVPY---TRGKERSRLMDEVVADVTKLVKYQGIQEVTLLGQNVNSYgKENGESLAMLITELdkidgLEIIRY 266
                              57899************9...7*******************88888*************986666666666666677755567777 PP

                              EEEECSSCHGHHHHHHHHHTT..-SEEEEEEBSSSHHHHHHHHTCTSHHHHHHHHHHHHHHTTSET...EEEEEEEBTTTSHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxx RF
              Radical_SAM  81 tvetngtlpdeeklerllelg..vdrvslgleaaddekvlklmnrghtfeevlealeklreagikr...vvdrivglpGendeele 161
                              t + ++ +  +e ++ +        +++l++++++   vl++m+r +t+e++l +l klr+a  ++   ++d+i g+ +e+dee++
  PHY93_00705|PHY93_00705 267 TTSHPYDVS-DELIAVHGSSKklSKHLHLPVQSGSAT-VLERMHREYTPEHYLGLLAKLRAA-QPEivlSTDIIAGFVNETDEEHQ 349
                              777777665.******99999999************9.************************.7888******************* PP

                              HHHHHH CS
                              xxxxxx RF
              Radical_SAM 162 ellell 167
                              ++l+ll
  PHY93_00705|PHY93_00705 350 ATLDLL 355
                              ***986 PP

>> Fer4_12  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   1.3e-05     0.075      12      93 ..     187     268 ..     176     300 .. 0.73

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.3e-05
                  Fer4_12  12 vsgCnlsCkgCfnketwsfksgkeftkelleeiiedlkkesiegltllGGEPllp..enaeallelvkevkeekpekdiwlytg 93 
                              ++gCn  C +C+ + t+  ++++ +++ + + + + +k + i+++tllG     +  en e l+ l+ e+ +     +i+ yt 
  PHY93_00705|PHY93_00705 187 IKGCNKYCTYCIVPYTRGKERSRLMDE-VVADVTKLVKYQGIQEVTLLGQNVNSYgkENGESLAMLITELDKIDG-LEIIRYTT 268
                              78**********999999999999985.55677899999999******965444311444666666666666555.34555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (484 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       589  (0.0328518); expected 358.6 (0.02)
Passed bias filter:                      474  (0.0264376); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.56u 0.27s 00:00:00.83 Elapsed: 00:00:00.43
# Mc/sec: 3362.92
//
Query:       PHY93_00710|PHY93_00710  [L=54]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (54 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      3517  (0.196163); expected 358.6 (0.02)
Passed bias filter:                      795  (0.0443416); expected 358.6 (0.02)
Passed Vit filter:                        86  (0.0047967); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.35u 0.24s 00:00:00.59 Elapsed: 00:00:00.35
# Mc/sec: 467.87
//
Query:       PHY93_00715|PHY93_00715  [L=780]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      5e-53  179.7   0.0    3.9e-49  167.0   0.0    2.8  2  AAA_2            AAA domain (Cdc48 subfamily)
    1.3e-26   93.5   0.9    1.1e-11   45.3   0.0    3.7  3  AAA              ATPase family associated with various cellul
      2e-24   85.5   1.4    4.5e-24   84.3   0.1    2.4  1  ClpB_D2-small    C-terminal, D2-small domain, of ClpB protein
    3.7e-23   81.4   1.2    1.2e-22   79.8   1.2    1.9  1  AAA_lid_9        AAA lid domain
      1e-18   67.6   0.1    2.8e-13   50.1   0.0    2.8  2  AAA_5            AAA domain (dynein-related subfamily)
    1.7e-12   48.0   2.9    5.6e-06   26.8   0.1    4.3  2  AAA_16           AAA ATPase domain
      3e-09   36.8   0.6    5.5e-05   22.9   0.0    2.9  2  Sigma54_activat  Sigma-54 interaction domain
    3.6e-09   36.6   1.2    1.3e-07   31.6   0.1    3.2  3  Clp_N            Clp amino terminal domain, pathogenicity isl
    5.5e-09   36.4   3.7    0.00036   20.8   0.1    4.1  2  AAA_22           AAA domain
    3.3e-08   33.6   0.1      0.022   14.8   0.0    3.5  2  AAA_14           AAA domain
    1.4e-07   31.1   0.0       0.14   11.5   0.0    3.4  3  Mg_chelatase     Magnesium chelatase, subunit ChlI
    7.9e-07   28.9   4.7     0.0026   17.5   0.2    5.3  4  RuvB_N           Holliday junction DNA helicase RuvB P-loop d
    2.2e-06   27.3   0.0      0.056   13.0   0.0    3.1  2  AAA_7            P-loop containing dynein motor region
    2.9e-06   27.9   0.8     0.0022   18.6   0.0    3.2  2  AAA_18           AAA domain
    5.9e-06   26.3   0.2       0.05   13.6   0.0    2.9  2  TsaE             Threonylcarbamoyl adenosine biosynthesis pro
    1.4e-05   25.1   0.1      0.035   14.0   0.0    2.7  2  NACHT            NACHT domain
    4.1e-05   23.9   0.1      0.021   15.2   0.0    3.1  2  RNA_helicase     RNA helicase
    4.2e-05   23.0   0.1       0.28   10.6   0.0    4.1  3  TniB             Bacterial TniB protein
    4.5e-05   23.2   0.0       0.26   11.0   0.0    2.4  2  IstB_IS21        IstB-like ATP binding protein
    4.6e-05   23.3   0.0    0.00071   19.4   0.0    2.7  2  AAA_3            ATPase family associated with various cellul
    0.00034   20.7   1.0          1    9.4   0.7    3.6  2  ResIII           Type III restriction enzyme, res subunit
    0.00062   19.8   2.3        1.5    8.7   0.1    4.4  4  ATPase_2         ATPase domain predominantly from Archaea
    0.00075   19.4   0.7        1.1    9.1   0.0    3.9  3  NTPase_1         NTPase
    0.00082   19.3   0.0        2.4    8.0   0.0    2.8  2  RsgA_GTPase      RsgA GTPase
    0.00092   18.5   0.7        4.6    6.3   0.1    3.5  3  TIP49            TIP49 P-loop domain
      0.001   18.1   0.0     0.0042   16.1   0.0    1.9  2  AAA_6            Hydrolytic ATP binding site of dynein motor 
      0.001   19.2   0.0       0.12   12.6   0.0    2.8  2  AAA_33           AAA domain
     0.0011   18.6   0.1        1.6    8.5   0.0    2.5  2  AAA_29           P-loop containing region of AAA domain
     0.0018   17.5   0.0        1.6    7.9   0.0    2.6  2  NB-ARC           NB-ARC domain
     0.0064   16.1   0.0        4.6    6.8   0.0    2.9  2  AAA_25           AAA domain
  ------ inclusion threshold ------
      0.013   15.2   0.0        3.5    7.3   0.0    2.5  2  AAA_24           AAA domain
       0.03   13.5   0.1        8.5    5.4   0.0    3.0  3  DUF815           Protein of unknown function (DUF815)
      0.031   14.2   0.1        2.3    8.1   0.0    2.8  2  Rad17            Rad17 P-loop domain
      0.043   13.3   0.0        5.2    6.5   0.0    2.5  2  PhoH             PhoH-like protein
      0.046   13.8   0.0       0.18   11.9   0.0    2.0  1  Torsin           Torsin
      0.048   13.4   0.0        3.1    7.5   0.0    3.4  3  DNA_pol3_delta2  DNA polymerase III, delta subunit
      0.053   13.1   0.1         11    5.5   0.0    2.6  2  SRP54            SRP54-type protein, GTPase domain
      0.054   12.8   0.0        5.1    6.3   0.0    2.5  2  Zeta_toxin       Zeta toxin
      0.063   13.5   0.0        0.4   10.9   0.0    2.2  2  AAA_28           AAA domain
      0.066   13.4   0.0         12    6.1   0.0    2.5  2  Roc              Ras of Complex, Roc, domain of DAPkinase
       0.12   12.1   0.1         10    5.7   0.0    3.0  3  AAA_30           AAA domain
       0.13   11.7   0.0        0.8    9.1   0.0    2.3  3  IPT              Isopentenyl transferase
       0.13   11.3   0.0         19    4.3   0.0    2.5  2  Parvo_NS1        Parvovirus non-structural protein NS1
       0.72   10.3  11.1        2.1    8.8   0.2    3.7  3  AAA_23           AAA domain


Domain annotation for each model (and alignments):
>> AAA_2  AAA domain (Cdc48 subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.7   0.0    0.0021      0.85       4      83 ..     235     325 ..     232     358 .. 0.65
   2 !  167.0   0.0   9.6e-52   3.9e-49       1     171 []     518     681 ..     518     681 .. 0.98

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.0021
                              --EEEE--TTSSHHHHHHHHHHHTT-..........-EEEEEGGG-------THHHHHHHHHTTT-HHHHTTS............. CS
                    AAA_2   4 isilllgptgvGktelakalaellfv......kkekkliradaselleeeevehlvsrligappgyvgaeegG............. 70 
                               + ll+g+ gvGkt +a+ la l+         k+ ++  +d  +ll            +   ++ ++ ++               
  PHY93_00715|PHY93_00715 235 NNPLLVGEAGVGKTAIAEGLAYLIVKgqvpdlLKNATIFSLDLASLLA---------GTKYRGDFEQRLKNVMnelmsfkdegkge 311
                              567899***************999734445444444444555555554.........33333333333333333444444444889 PP

                              .EEEEETGGG---- CS
                    AAA_2  71 .ivllDEidKihpk 83 
                               i+++DEi  i   
  PHY93_00715|PHY93_00715 312 aILFIDEIHTIMGA 325
                              9*******988774 PP

  == domain 2  score: 167.0 bits;  conditional E-value: 9.6e-52
                              -----EEEE--TTSSHHHHHHHHHHHTT-....-EEEEEGGG-------THHHHHHHHHTTT-HHHHTTS............EEEE CS
                    AAA_2   1 rpiisilllgptgvGktelakalaellfvkkekkliradaselleeeevehlvsrligappgyvgaeegG............ivll 74 
                              +pi+s+l++gptgvGktela++la+ + v    +l r+d+se++e    +h+v++ligappgyvg+e gG            ++ll
  PHY93_00715|PHY93_00715 518 KPIGSFLFTGPTGVGKTELARQLAREMGV----HLERFDMSEYME----KHSVAKLIGAPPGYVGHESGGiltdvmkkyphaVLLL 595
                              689*************************8....************....************************************* PP

                              ETGGG-------------HHHHHHHHHHHH--EE-------EE-TT-EEEEEE--TTHHHHTTTS-STTTTSGGG--HHHHHHTT- CS
                    AAA_2  75 DEidKihpkessgadvSregVqrdLLqileggtltdkqgrkvdtknilfImtgafgsskisdesrskeeeeekkkeeveeelkkgl 160
                              DEi+K+hp           +++++LLqi+++gtltd++gr  d++n+++Imt++ g+++ +  s   ++e+++++ + e+++k+++
  PHY93_00715|PHY93_00715 596 DEIEKAHP-----------DIFNILLQIMDHGTLTDSHGRATDFRNVVIIMTSNAGAKEMEGGSIGINKEANAQSFKREQRIKEFF 670
                              ********...........*******************************************77777999**************** PP

                              -HHHHTT--EE CS
                    AAA_2 161 ipEllgRlpei 171
                              +pE+ +Rl+ i
  PHY93_00715|PHY93_00715 671 SPEFRNRLDAI 681
                              ********975 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.4   0.0   1.1e-13   4.3e-11       2     111 ..     238     356 ..     237     378 .. 0.80
   2 ?    0.4   0.1         2     8e+02      57      96 ..     421     468 ..     395     511 .. 0.66
   3 !   45.3   0.0   2.6e-14   1.1e-11       2     111 ..     524     639 ..     523     645 .. 0.87

  Alignments for each domain:
  == domain 1  score: 43.4 bits;  conditional E-value: 1.1e-13
                              EEESSTTSSHHHHHHHHHHHH..........THEEEEEETTTCS..SSSTTHHHHHHHHHHHHHHHTS....TSEEEEEETGGGHH CS
                      AAA   2 llyGppGtGKTllakavakel..........gvefleisgsell..skyvgesekkirelfkeakeka....kpsilfiDEidala 71 
                              ll+G  G+GKT++a+ +a  +          +++++++++++ll   ky g+ e++++++++e+ + +    +  ilfiDEi+ ++
  PHY93_00715|PHY93_00715 238 LLVGEAGVGKTAIAEGLAYLIvkgqvpdllkNATIFSLDLASLLagTKYRGDFEQRLKNVMNELMSFKdegkGEAILFIDEIHTIM 323
                              89*****************976666666666699*********97778***************85444567556************ PP

                              HHHTTCCCHHHHHHHHHHHHHHHHTTTSSSTEEEEEEESS CS
                      AAA  72 ksrsgseseeeervvnqLlteldgvkkkeskvivigatnr 111
                              ++   ++s+ ++++ n L ++l+  +       +ig t++
  PHY93_00715|PHY93_00715 324 GAG--ATSGGSMDASNLLKPALSSGRL-----RCIGSTTY 356
                              *99..8888899999999888877655.....57777766 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 2
                              S......TSEEEEEETGGGHHHHH..TTCCCHHHHHHHHHHHHHHHHT CS
                      AAA  57 a......kpsilfiDEidalaksr..sgseseeeervvnqLlteldgv 96 
                                     ++si ++DE+ a+++    s+++ +++++ ++++++++ + 
  PHY93_00715|PHY93_00715 421 ItdrknpDKSIDVMDEVGAMIRIMpeSKRHINVSKKDIETIVAAMAKI 468
                              233333446888999999999988765556666666666666666555 PP

  == domain 3  score: 45.3 bits;  conditional E-value: 2.6e-14
                              EEESSTTSSHHHHHHHHHHHHTHEEEEEETTTCSSS............STTHHHHHH.HHHHHHHHHTSTS.EEEEEETGGGHHHH CS
                      AAA   2 llyGppGtGKTllakavakelgvefleisgsellsk............yvgesekki.relfkeakekakp.silfiDEidalaks 73 
                              l++Gp G+GKT la+++a+e+gv++ ++++se ++k            yvg+ +  i  +++k+      p  +l++DEi++ +++
  PHY93_00715|PHY93_00715 524 LFTGPTGVGKTELARQLAREMGVHLERFDMSEYMEKhsvakligappgYVGHESGGIlTDVMKK---Y--PhAVLLLDEIEKAHPD 604
                              89********************************999***********9998877651444433...3..338**********999 PP

                              HTTCCCHHHHHHHHHHHHHHHHTTTS........SSTEEEEEEESS CS
                      AAA  74 rsgseseeeervvnqLlteldgvkkk........eskvivigatnr 111
                                           n Ll+ +d  +           ++v++i+++n 
  PHY93_00715|PHY93_00715 605 I-----------FNILLQIMDHGTLTdshgratdFRNVVIIMTSNA 639
                              9...........**********9999999***99666999999996 PP

>> ClpB_D2-small  C-terminal, D2-small domain, of ClpB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   84.3   0.1   1.1e-26   4.5e-24       1      81 []     687     767 ..     687     767 .. 0.97

  Alignments for each domain:
  == domain 1  score: 84.3 bits;  conditional E-value: 1.1e-26
                              SCHHHHHHHHHHHHHHHHHHSCTTTEEEEEHHHHHHHHHHHTSBTTTBTCCHHHHHHHHTHHHHHHHHHTTSSSTTSEEEE CS
            ClpB_D2-small   1 LtkeelkkIvdlalkklekrlkergvelevtdealdalaekgydpeyGARpLrriiqreiedplaeeilsgelkegdtvrv 81 
                              L+ +++ kIvd++l +le++l+e++vel+++++a+ +la+ g+dp++GARpL rii  ei++pl+ eil+g+l++g+ v v
  PHY93_00715|PHY93_00715 687 LGSDQILKIVDKFLIQLETKLAEKNVELKIDESARLHLAKIGFDPQMGARPLARIIDTEIKKPLSHEILFGKLEKGGVVVV 767
                              7889***********************************************************************999875 PP

>> AAA_lid_9  AAA lid domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.8   1.2   2.9e-25   1.2e-22       1     100 [.     382     484 ..     382     488 .. 0.84

  Alignments for each domain:
  == domain 1  score: 79.8 bits;  conditional E-value: 2.9e-25
                AAA_lid_9   1 seeetieiLrglkekyekhHgvkisdealeaavklSkrYisdrflPdkAIDllDeaaarvrlkkeskpee...leklekelaklek 83 
                              s+++t++iL glk+k+e+hH+vk+s+++++ +v+l++++i+dr+ Pdk+ID++De++a +r+  esk++     +++e+ +a++ k
  PHY93_00715|PHY93_00715 382 SIDDTYKILLGLKPKFEEHHNVKYSNSIIRLIVDLAHKHITDRKNPDKSIDVMDEVGAMIRIMPESKRHInvsKKDIETIVAAMAK 467
                              689***********************************************************999987532336677777777777 PP

                AAA_lid_9  84 ekealekeeekekaerl 100
                                +  ++ +e+ek + l
  PHY93_00715|PHY93_00715 468 IPKMSVAGDEREKLRSL 484
                              77777776666666655 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.6   0.1   6.2e-05     0.025       3      76 ..     238     321 ..     236     325 .. 0.61
   2 !   50.1   0.0   6.8e-16   2.8e-13       2     124 ..     523     641 ..     522     648 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 6.2e-05
                              EEE--SSSSHHHHHHHGGGGB...S--EEEEE--T...T--HHHHH--B--............--------....G-SEEEEESGG CS
                    AAA_5   3 lLvGppGtgKselaerlaaal...nreveyvqltr...dtteedlkgrreik...ngttslvdsplvraar....egeilvlDEve 75 
                              lLvG+ G+gK+ +ae la ++   +  v   + ++   ++  + l+ +++++   +++ + v ++l+ +++      +il++DE++
  PHY93_00715|PHY93_00715 238 LLVGEAGVGKTAIAEGLAYLIvkgQ--VPDLLKNAtifSLDLASLLAGTKYRgdfEQRLKNVMNELM-SFKdegkGEAILFIDEIH 320
                              8********************9642..3333333301123344555556655555455555555555.222555466788888887 PP

                              G CS
                    AAA_5  76 r 76 
                              +
  PHY93_00715|PHY93_00715 321 T 321
                              6 PP

  == domain 2  score: 50.1 bits;  conditional E-value: 6.8e-16
                              EEEE--SSSSHHHHHHHGGGGBS--EEEEE--TT--HHHHH--B--..........--------..G-SEEEEESGGG--HHHHHH CS
                    AAA_5   2 vlLvGppGtgKselaerlaaalnreveyvqltrdtteedlkgrreikngttslvd.splvraar..egeilvlDEveraesevlns 84 
                              +l  Gp+G+gK+ela++la+ ++  +e   +++++++  +   +   +g   ++  ++l++ ++    ++l+lDE+e+a+++++n+
  PHY93_00715|PHY93_00715 523 FLFTGPTGVGKTELARQLAREMGVHLERFDMSEYMEKHSVAKLIGAPPGYVGHESgGILTDVMKkyPHAVLLLDEIEKAHPDIFNI 608
                              7899**************************************999876666666515666666698899***************** PP

                              HHHHHHSSEEE..-SSSEEE---......-EEEEEESS-- CS
                    AAA_5  85 Llslleerrllleeggelvkaknddllerfrviatanpld 124
                              Ll+++++ +l  ++ g+ ++++n      + +i+t+n   
  PHY93_00715|PHY93_00715 609 LLQIMDHGTLT-DSHGRATDFRN------VVIIMTSNAGA 641
                              **********9.77777777777......9******9765 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.8   0.1   1.4e-08   5.6e-06       2      47 ..     215     257 ..     214     345 .. 0.77
   2 !   16.0   0.0   2.9e-05     0.012      24      48 ..     514     544 ..     492     568 .. 0.73

  Alignments for each domain:
  == domain 1  score: 26.8 bits;  conditional E-value: 1.4e-08
                   AAA_16   2 lvGReeeleqLlsalervrsgrpelvllsGesGvGKsslvrellra 47 
                               +GR ee+e+++++l+r r++ p   ll+Ge+GvGK+++++ l+  
  PHY93_00715|PHY93_00715 215 IIGRTEEIERVAQILSRRRKNNP---LLVGEAGVGKTAIAEGLAYL 257
                              58**************9999887...999***********988833 PP

  == domain 2  score: 16.0 bits;  conditional E-value: 2.9e-05
                   AAA_16  24 p......elvllsGesGvGKsslvrellral 48 
                              +      ++ l++G+ GvGK+ l+r+l+r++
  PHY93_00715|PHY93_00715 514 GheqkpiGSFLFTGPTGVGKTELARQLAREM 544
                              333455899******************9854 PP

>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.9   0.1   0.00069      0.28       4     105 ..     218     322 ..     215     329 .. 0.63
   2 !   22.9   0.0   1.3e-07   5.5e-05      24     146 ..     522     642 ..     513     648 .. 0.88

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00069
                              -SHHHHHHHHHHHHHCTSSS-EEEECSTTSSHHHHHHHHHHHSTTTTS-EEEEETTTS-TTCHHHHHHEBS.SSSSTTTSS-BE.H CS
          Sigma54_activat   4 esealkelleqikkvaktdlsvlitGesGtGKellaraiheaskrkekpfvavncaaipeelleseLFGhe.kGaFtGAekekk.G 87 
                              ++e+++++ + +++    + + l++Ge G+GK+ +a+ +     + + p +  n + ++ +l +s L G++ +G F    k+ +  
  PHY93_00715|PHY93_00715 218 RTEEIERVAQILSRR--RKNNPLLVGEAGVGKTAIAEGLAYLIVKGQVPDLLKNATIFSLDL-ASLLAGTKyRGDFEQRLKNVMnE 300
                              555555555544443..4467899*************9988888777777777766665554.45666654367777766655523 PP

                              HHHHTTTS....EEEEETGGGS CS
          Sigma54_activat  88 lfekadgG....tlfLDeigel 105
                              l++  d+G    +lf+Dei+++
  PHY93_00715|PHY93_00715 301 LMSFKDEGkgeaILFIDEIHTI 322
                              3333333322336777777765 PP

  == domain 2  score: 22.9 bits;  conditional E-value: 1.3e-07
                              -EEEECSTTSSHHHHHHHHHHHSTTTTS-EEEEETTTS-TTCHHHHHHEBSSSSSTTTSS-BE..HHHHHTTTSEEEEETGGGS-H CS
          Sigma54_activat  24 svlitGesGtGKellaraiheaskrkekpfvavncaaipeelleseLFGhekGaFtGAekekk..GlfekadgGtlfLDeigelpl 107
                              s l tG +G+GK+ lar++ ++      ++ +++++++ e+   ++L G   G + G e+       ++k  + +l+LDei++  +
  PHY93_00715|PHY93_00715 522 SFLFTGPTGVGKTELARQLAREMG---VHLERFDMSEYMEKHSVAKLIGAPPG-YVGHESGGIltDVMKKYPHAVLLLDEIEKAHP 603
                              5699*************9987766...556689****************9998.999999887667899999************** PP

                              HHHHHHHHHHHHSEEESBTSSSEEE--EEEEEEESS-HH CS
          Sigma54_activat 108 elQekLlrvlqegevervGsskeikvdvriiaatnedle 146
                              ++ + Ll+++++g+++   ++++   +v ii+++n   +
  PHY93_00715|PHY93_00715 604 DIFNILLQIMDHGTLTDSHGRATDFRNVVIIMTSNAGAK 642
                              ***************998888888889999988887655 PP

>> Clp_N  Clp amino terminal domain, pathogenicity island component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.6   0.1   3.3e-10   1.3e-07       5      52 ..      17      62 ..      13      63 .. 0.96
   2 ?    1.8   0.0      0.64   2.6e+02      18      46 ..     132     160 ..     131     163 .. 0.88
   3 ?   -1.5   0.0       7.1   2.9e+03      29      41 ..     536     548 ..     533     551 .. 0.75

  Alignments for each domain:
  == domain 1  score: 31.6 bits;  conditional E-value: 3.3e-10
                             HHHTTCSSB-HHHHHHHHHHSCTSHHHHHHHHTTSSHHHHHHHHHHHH CS
                    Clp_N  5 AkslghqyistEHLLlALleeddGlaarlLkkaGvdldalrkaiekll 52
                             A +l+h+y++ E L+ A+l ++    +++L+ +G+dl +l+ +++k+l
  PHY93_00715|PHY93_00715 17 ANQLQHEYLTLEILFFAMLTDP--EVRSILEHCGADLVQLEVELNKFL 62
                             99********************..*********************997 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.64
                              HHHHHHHSCTSHHHHHHHHTTSSHHHHHH CS
                    Clp_N  18 LLlALleeddGlaarlLkkaGvdldalrk 46 
                              LL+AL++e +++   lL++ G+ + ++ k
  PHY93_00715|PHY93_00715 132 LLIALFSEQESFVNYLLAAHGIEKFDVVK 160
                              8************9999999998877766 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 7.1
                              HHHHHHHHTTSSH CS
                    Clp_N  29 laarlLkkaGvdl 41 
                              la++l +++Gv l
  PHY93_00715|PHY93_00715 536 LARQLAREMGVHL 548
                              7889999999865 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.0   0.00019     0.076       4     105 ..     233     328 ..     230     351 .. 0.67
   2 !   20.8   0.1   8.8e-07   0.00036       6     119 ..     521     624 ..     517     639 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 0.00019
                   AAA_22   4 tagilvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsstsskdllrellralglelkaerlsseellealeqalrar 89 
                              +++  +++Ge+G+GKT  ++ l++            +++v   l++ t  +  l  ll  ++ +++  +++++ +++ l    ++ 
  PHY93_00715|PHY93_00715 233 RKNNPLLVGEAGVGKTAIAEGLAYLI---------VKGQVPDLLKNATIFSLDLASLLAGTKYRGDF-EQRLKNVMNELMSFKDEG 308
                              5677799*****************98.........56666666666664455556666666656666.666666665555555555 PP

                   AAA_22  90 avielliiDEaqhlr....s 105
                              +  ++l iDE++ ++    +
  PHY93_00715|PHY93_00715 309 KGEAILFIDEIHTIMgagaT 328
                              55788888888886555441 PP

  == domain 2  score: 20.8 bits;  conditional E-value: 8.8e-07
                   AAA_22   6 gilvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsstsskdllrellralglelkaerlsseellealeqalrarav 91 
                              g+ + tG++G+GKT l+r+l+++          ++++ ++++++ ++  ++    ++ +g +  +     +e    l++ ++++  
  PHY93_00715|PHY93_00715 521 GSFLFTGPTGVGKTELARQLAREM---------GVHLERFDMSEYMEKHSV----AKLIGAPPGY---VGHESGGILTDVMKKYPH 590
                              56789******************8.........99999******9976655....7788888888...889999************ PP

                   AAA_22  92 ielliiDEaqhlrseealeeLrsllnl........s 119
                               ++l++DE+++  ++++++ L ++++         +
  PHY93_00715|PHY93_00715 591 -AVLLLDEIEKA-HPDIFNILLQIMDHgtltdshgR 624
                              .***********.********999995555555544 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.0   5.4e-05     0.022       7      77 ..     239     333 ..     234     384 .. 0.63
   2 !   14.6   0.0   6.3e-05     0.026       6      90 ..     524     616 ..     521     641 .. 0.69

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 5.4e-05
                   AAA_14   7 itGaRrvGKTtllkqlikell.......vkkesilyinldderd.kkla.dpe....kllelileklke...ekktylflDEiqev 76 
                              ++G   vGKT +++ l++           k+  i+ ++l +    +k++ d+e    ++++++++   +   +++ +lf+DEi+ +
  PHY93_00715|PHY93_00715 239 LVGEAGVGKTAIAEGLAYLIVkgqvpdlLKNATIFSLDLASLLAgTKYRgDFEqrlkNVMNELMSF--KdegKGEAILFIDEIHTI 322
                              6677789****9999984444888787666666666666665546333335553222444444443..1456999*********99 PP

                   AAA_14  77 ..........p 77 
                                         
  PHY93_00715|PHY93_00715 323 mgagatsggsM 333
                              44444444443 PP

  == domain 2  score: 14.6 bits;  conditional E-value: 6.3e-05
                   AAA_14   6 vitGaRrvGKTtllkqlikellvkkesilyinldderd......kkladpe............kllelileklkeekktylflDEi 73 
                              + tG+  vGKT l++ql++e      +   +++ +  +                          +l+ +++k+    + +l+lDEi
  PHY93_00715|PHY93_00715 524 LFTGPTGVGKTELARQLAREMG---VHLERFDMSEYMEkhsvakL-----IgappgyvghesgGILTDVMKKY---PHAVLLLDEI 598
                              579***************9999...34444444443331112221.....12233444433445666666664...4689****** PP

                   AAA_14  74 qev.pewekalkslvdeg 90 
                               ++ p+++++l +++d+g
  PHY93_00715|PHY93_00715 599 EKAhPDIFNILLQIMDHG 616
                              987689*****9999987 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.5   0.0   0.00034      0.14      22      64 ..     234     276 ..     214     296 .. 0.84
   2 !   10.4   0.0   0.00077      0.31      24      65 ..     522     564 ..     517     576 .. 0.83
   3 ?    5.0   0.0     0.034        14     107     202 ..     590     687 ..     582     692 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00034
             Mg_chelatase  22 gHnlllvGppGsGKtmlakrlpsllpplseeealevakiasva 64 
                              + n llvG +G GKt +a+ l+ l+ + +  + l+ a+i s+ 
  PHY93_00715|PHY93_00715 234 KNNPLLVGEAGVGKTAIAEGLAYLIVKGQVPDLLKNATIFSLD 276
                              56779*****************************999999986 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 0.00077
             Mg_chelatase  24 nlllvGppGsGKtmlakrlpsll.pplseeealevakiasvag 65 
                              ++l++Gp G GKt la++l+  +  +l++ ++ e  + +sva+
  PHY93_00715|PHY93_00715 522 SFLFTGPTGVGKTELARQLAREMgVHLERFDMSEYMEKHSVAK 564
                              579***************9865526788888999999998887 PP

  == domain 3  score: 5.0 bits;  conditional E-value: 0.034
             Mg_chelatase 107 nGvLfLDElpefkrkvlevLRePledgevtisrakakvefparfqlvaamNpc....pcgklkdkekectcsekeierYlsklsgp 188
                              + vL+LDE+ + + +++++L + +++g++t s  +  ++f  ++ ++++ N        g+++ ++++ + s k+ +r  +  s  
  PHY93_00715|PHY93_00715 590 HAVLLLDEIEKAHPDIFNILLQIMDHGTLTDSHGR-ATDFR-NVVIIMTSNAGakemEGGSIGINKEANAQSFKREQRIKEFFSPE 673
                              579************************98866554.45665.56667776654111156777777777777777788888888888 PP

             Mg_chelatase 189 lldRidlqvevkkl 202
                              + +R+d  v+ +kl
  PHY93_00715|PHY93_00715 674 FRNRLDAIVHFNKL 687
                              99999988887766 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.4   0.1       2.1   8.6e+02      18      99 ..       5      82 ..       2      88 .. 0.76
   2 ?    2.9   0.0       0.2        81      35      54 ..     236     255 ..     212     287 .. 0.82
   3 ?    3.7   0.0      0.11        46      83      96 ..     309     322 ..     288     326 .. 0.78
   4 !   17.5   0.2   6.4e-06    0.0026      30      63 ..     517     550 ..     491     636 .. 0.73

  Alignments for each domain:
  == domain 1  score: -0.4 bits;  conditional E-value: 2.1
                   RuvB_N 18 klkifieaakkreealdhvllyGpPGlGkttlakiiakelgvklkitsgPvlekagdlaalltnleekdvlfideihrlsra 99
                             +l+++i+aa  + ++l h  l+    l    +a++   e+ + l++  +  ++ + +l  +l + ++  +l + ei  ls++
  PHY93_00715|PHY93_00715  5 RLDLIINAAIVKANQLQHEYLT----LEILFFAMLTDPEVRSILEHCGADLVQLEVELNKFLEDKSNFSILSLSEIKELSEE 82
                             6778888888888888887774....55666777778888888888888888888888888888888888888888888765 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.2
                   RuvB_N  35 hvllyGpPGlGkttlakiia 54 
                                ll+G  G+Gkt++a+ +a
  PHY93_00715|PHY93_00715 236 NPLLVGEAGVGKTAIAEGLA 255
                              4599**********998666 PP

  == domain 3  score: 3.7 bits;  conditional E-value: 0.11
                   RuvB_N  83 eekdvlfideihrl 96 
                              + + +lfideih +
  PHY93_00715|PHY93_00715 309 KGEAILFIDEIHTI 322
                              56789*******87 PP

  == domain 4  score: 17.5 bits;  conditional E-value: 6.4e-06
                   RuvB_N  30 eealdhvllyGpPGlGkttlakiiakelgvklki 63 
                              ++++   l++Gp G+Gkt la+ +a+e+gv+l+ 
  PHY93_00715|PHY93_00715 517 QKPIGSFLFTGPTGVGKTELARQLAREMGVHLER 550
                              5677789***********************9864 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.9   0.0    0.0006      0.25      31      53 ..     232     254 ..     209     323 .. 0.74
   2 !   13.0   0.0   0.00014     0.056      36     115 ..     523     604 ..     515     649 .. 0.70

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.0006
                    AAA_7  31 knkkpvllvGptGtGKtviikdl 53 
                              ++k++ llvG++G+GKt+i++ l
  PHY93_00715|PHY93_00715 232 RRKNNPLLVGEAGVGKTAIAEGL 254
                              456688*************9874 PP

  == domain 2  score: 13.0 bits;  conditional E-value: 0.00014
                    AAA_7  36 vllvGptGtGKtviikdllkkldkekylsltinfsaqtsanqlqdiies...klekrrkgvygPpggk..klvvFvDDlnmpake 115
                              +l++GptG+GKt ++++l +++    +    + +s +++ +++ ++i +   ++   ++g++   ++k  + v+ +D++   +++
  PHY93_00715|PHY93_00715 523 FLFTGPTGVGKTELARQLAREMG---VHLERFDMSEYMEKHSVAKLIGAppgYVGHESGGILTDVMKKypHAVLLLDEIEKAHPD 604
                              79******************999...88899999999999999888864111455666666655555533455556666555555 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.3   0.0     0.033        13       3      34 ..     239     269 ..     238     326 .. 0.57
   2 !   18.6   0.0   5.3e-06    0.0022       3      36 ..     525     556 ..     524     581 .. 0.83

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.033
                   AAA_18   3 ltGtpGvGKttlakeLskrlgfgvnlrdvake 34 
                              l G +GvGKt +a+ L+ +  +  ++ d++k+
  PHY93_00715|PHY93_00715 239 LVGEAGVGKTAIAEGLAYLI-VKGQVPDLLKN 269
                              8899************8763.23344444444 PP

  == domain 2  score: 18.6 bits;  conditional E-value: 5.3e-06
                   AAA_18   3 ltGtpGvGKttlakeLskrlgfgvnlrdvakeng 36 
                               tG+ GvGKt+la+ L++++  gv+l      ++
  PHY93_00715|PHY93_00715 525 FTGPTGVGKTELARQLAREM--GVHLERFDMSEY 556
                              79*****************9..766665555444 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.5   0.0    0.0022      0.91       4      41 ..     219     256 ..     216     264 .. 0.85
   2 !   13.6   0.0   0.00012      0.05      22      46 ..     523     547 ..     495     554 .. 0.82

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.0022
                              HHHHHHHHHHHHHCHTEEEEEEESTTSSHHHHHHHHHH CS
                     TsaE   4 eeetealgkklakalgdvilLeGdLGaGKTtlvrglak 41 
                              +ee+e++++ l +  ++  lL G+ G+GKT+++ gla 
  PHY93_00715|PHY93_00715 219 TEEIERVAQILSRRRKNNPLLVGEAGVGKTAIAEGLAY 256
                              578899999999978999***************99975 PP

  == domain 2  score: 13.6 bits;  conditional E-value: 0.00012
                              EEEEESTTSSHHHHHHHHHHHTT-- CS
                     TsaE  22 ilLeGdLGaGKTtlvrglakalgve 46 
                              +l++G+ G+GKT l+r+la+++gv+
  PHY93_00715|PHY93_00715 523 FLFTGPTGVGKTELARQLAREMGVH 547
                              899*******************986 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.0   0.0   8.7e-05     0.035       4      33 ..     238     267 ..     237     288 .. 0.82
   2 !    8.3   0.0    0.0051       2.1       4      24 ..     524     544 ..     522     671 .. 0.95

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 8.7e-05
                              EEEC-TTTCHHHHHHHHHHHHCTS-SCCCC CS
                    NACHT   4 ilqGeaGsGKTtLlqklalawaegklpqga 33 
                              +l GeaG+GKT+ +++la ++ +g+ p   
  PHY93_00715|PHY93_00715 238 LLVGEAGVGKTAIAEGLAYLIVKGQVPDLL 267
                              589*********************999865 PP

  == domain 2  score: 8.3 bits;  conditional E-value: 0.0051
                              EEEC-TTTCHHHHHHHHHHHH CS
                    NACHT   4 ilqGeaGsGKTtLlqklalaw 24 
                              + +G+ G+GKT L+++la+++
  PHY93_00715|PHY93_00715 524 LFTGPTGVGKTELARQLAREM 544
                              568**************9986 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.2   0.0     0.068        28       3      23 ..     239     259 ..     238     316 .. 0.85
   2 !   15.2   0.0   5.2e-05     0.021       2      36 ..     524     573 ..     523     639 .. 0.57

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.068
             RNA_helicase   3 lyGpsgeGKStlakeLakall 23 
                              l+G++g+GK+ +a+ La  + 
  PHY93_00715|PHY93_00715 239 LVGEAGVGKTAIAEGLAYLIV 259
                              79************9987665 PP

  == domain 2  score: 15.2 bits;  conditional E-value: 5.2e-05
             RNA_helicase   2 wlyGpsgeGKStlakeLakallkkl...............klkkkdsvys 36 
                              +++Gp+g+GK+ la++La+++  +l               kl+ ++  y+
  PHY93_00715|PHY93_00715 524 LFTGPTGVGKTELARQLAREMGVHLerfdmseymekhsvaKLIGAPPGYV 573
                              689******************98886666666666666664444444444 PP

>> TniB  Bacterial TniB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.6   0.0   0.00069      0.28      21      56 ..     220     255 ..     211     381 .. 0.71
   2 ?    3.2   0.0      0.13        52      36      59 ..     521     544 ..     512     563 .. 0.84
   3 ?   -1.6   0.0       3.6   1.5e+03     113     130 ..     583     600 ..     579     602 .. 0.86

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00069
                     TniB  21 erLeeLleypkrkrmpnlllvGdsnnGKtmivekFa 56 
                              e++e++ +  +r r +n llvG+  +GKt+i+e  a
  PHY93_00715|PHY93_00715 220 EEIERVAQILSRRRKNNPLLVGEAGVGKTAIAEGLA 255
                              6788899999999******************98654 PP

  == domain 2  score: 3.2 bits;  conditional E-value: 0.13
                     TniB  36 pnlllvGdsnnGKtmivekFarlh 59 
                               + l+ G++ +GKt ++++ ar+ 
  PHY93_00715|PHY93_00715 521 GSFLFTGPTGVGKTELARQLAREM 544
                              67899************9998865 PP

  == domain 3  score: -1.6 bits;  conditional E-value: 3.6
                     TniB 113 rllrelkvrvLiiDEihn 130
                               +++++   vL++DEi++
  PHY93_00715|PHY93_00715 583 DVMKKYPHAVLLLDEIEK 600
                              68999999*******986 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.0   0.0   0.00063      0.26      45      74 ..     232     261 ..     217     305 .. 0.73
   2 !    9.5   0.0    0.0018      0.75      50      70 ..     523     543 ..     516     564 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00063
                IstB_IS21  45 ekkenivllGpsGvGKshlaialgveavra 74 
                              ++k+n +l+G +GvGK+ +a  l++  v+ 
  PHY93_00715|PHY93_00715 232 RRKNNPLLVGEAGVGKTAIAEGLAYLIVKG 261
                              7899*******************9877764 PP

  == domain 2  score: 9.5 bits;  conditional E-value: 0.0018
                IstB_IS21  50 ivllGpsGvGKshlaialgve 70 
                              ++++Gp+GvGK+ la  l++e
  PHY93_00715|PHY93_00715 523 FLFTGPTGVGKTELARQLARE 543
                              789************999876 PP

>> AAA_3  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.0       2.3   9.3e+02       3      23 ..     238     258 ..     237     280 .. 0.88
   2 !   19.4   0.0   1.7e-06   0.00071       3     111 ..     524     638 ..     522     649 .. 0.70

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 2.3
                    AAA_3   3 llegvPGlaktllvkalakal 23 
                              ll g  G++kt +++ la  +
  PHY93_00715|PHY93_00715 238 LLVGEAGVGKTAIAEGLAYLI 258
                              678899*********999765 PP

  == domain 2  score: 19.4 bits;  conditional E-value: 1.7e-06
                    AAA_3   3 llegvPGlaktllvkalakaldlefkriqftpdllP...sdilGte..vfeeke.kefefkkGpvfanllladeinrappktqsal 82 
                              l++g  G++kt l+++la+ ++++++r  +   +     + ++G+   ++ +++   ++       + +ll dei++a p +   l
  PHY93_00715|PHY93_00715 524 LFTGPTGVGKTELARQLAREMGVHLERFDMSEYMEKhsvAKLIGAPpgYVGHESgGILTDVMKKYPHAVLLLDEIEKAHPDIFNIL 609
                              677889**********************9987775511145556532122222213333333333456899*************** PP

                    AAA_3  83 leameerqvtvegethklpepflvlatqn 111
                              l++m+  ++t ++ + +  ++ +++ t n
  PHY93_00715|PHY93_00715 610 LQIMDHGTLTDSHGRATDFRNVVIIMTSN 638
                              ********997765555555566666666 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.4   0.7    0.0025         1      10      92 ..     220     308 ..     211     451 .. 0.69
   2 ?    6.3   0.0     0.021       8.7      23      47 ..     516     543 ..     491     550 .. 0.70

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.0025
                              HHHHHHT......TTSEEEEEESTTSTHHHHHHHHHHHH-S..........-EEEEESSHHHHHHHH..HHGGGGTGG....GEEE CS
                   ResIII  10 eaienlleklkskrdkrglikmaTGtGKTlvaaklierllkkgkee.....kflflvprkslleqtl..eefkkflseaykeigkk 88 
                              e ie++++ l+ +r+++ l++ + G+GKT +a  l++ + k +         ++f  +  sll  t+   +f++ l++  +e + +
  PHY93_00715|PHY93_00715 220 EEIERVAQILSRRRKNNPLLVGEAGVGKTAIAEGLAYLIVKGQV-PdllknATIFSLDLASLLAGTKyrGDFEQRLKNVMNELMSF 304
                              5577888888878888999*************999999888544.34888899999999999999888888988888877763333 PP

                              ESSS CS
                   ResIII  89 vsgd 92 
                              +++ 
  PHY93_00715|PHY93_00715 305 KDEG 308
                              3333 PP

  == domain 2  score: 6.3 bits;  conditional E-value: 0.021
                              TTS...EEEEEESTTSTHHHHHHHHHHH CS
                   ResIII  23 rdk...rglikmaTGtGKTlvaaklier 47 
                              ++k    +l+  +TG+GKT +a +l+++
  PHY93_00715|PHY93_00715 516 EQKpigSFLFTGPTGVGKTELARQLARE 543
                              334455789***********99888765 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.7   0.1    0.0036       1.5       4      37 ..     218     251 ..     215     261 .. 0.91
   2 ?    1.1   0.0      0.74     3e+02     103     134 ..     291     326 ..     265     340 .. 0.71
   3 ?    5.7   0.0     0.031        13      25      43 ..     525     543 ..     515     558 .. 0.86
   4 ?   -2.1   0.1       7.2   2.9e+03     113     151 ..     584     615 ..     580     697 .. 0.53

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 0.0036
                 ATPase_2   4 RekelkeleeilerepneiyfiYGpegsGKtaLl 37 
                              R +e++++ +il+r +++  ++ G  g+GKta+ 
  PHY93_00715|PHY93_00715 218 RTEEIERVAQILSRRRKNNPLLVGEAGVGKTAIA 251
                              99*************99999999********976 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.74
                 ATPase_2 103 fkaiellleki...kkkgkk.iiiiiDelqklidlg 134
                              ++ ++++++++   k++gk   i++iDe+  +   g
  PHY93_00715|PHY93_00715 291 EQRLKNVMNELmsfKDEGKGeAILFIDEIHTIMGAG 326
                              5555555544412166777689*******9998555 PP

  == domain 3  score: 5.7 bits;  conditional E-value: 0.031
                 ATPase_2  25 iYGpegsGKtaLlkeiien 43 
                               +Gp g+GKt L ++++ +
  PHY93_00715|PHY93_00715 525 FTGPTGVGKTELARQLARE 543
                              57*************9876 PP

  == domain 4  score: -2.1 bits;  conditional E-value: 7.2
                 ATPase_2 113 ikkkgkkiiiiiDelqklidlglngaellvkeLlnlies 151
                              + kk    ++++De+ k+         +  + Ll+++++
  PHY93_00715|PHY93_00715 584 VMKKYPHAVLLLDEIEKAH-------PDIFNILLQIMDH 615
                              5555555788888888877.......2233333333333 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.0      0.54   2.2e+02       4      24 ..     239     259 ..     236     264 .. 0.79
   2 ?    4.0   0.1       0.1        41      88     119 ..     420     452 ..     395     485 .. 0.72
   3 !    9.1   0.0    0.0028       1.1       2      32 ..     523     550 ..     522     562 .. 0.78

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.54
                              EE--TTSSHHHHHHHHHHHH. CS
                 NTPase_1   4 iTGppGvGKtTlvkkvlellk 24 
                              + G+ GvGKt + + ++ l+ 
  PHY93_00715|PHY93_00715 239 LVGEAGVGKTAIAEGLAYLIV 259
                              779********9998877665 PP

  == domain 2  score: 4.0 bits;  conditional E-value: 0.1
                              HHHHHHHHH-..EEEE---STTGGG-HHHHHHHH CS
                 NTPase_1  88 alrkalsead..viviDEiGkmElkskkfkeave 119
                               ++   +++d  + v+DE+G m   +++ k+ ++
  PHY93_00715|PHY93_00715 420 HITDR-KNPDksIDVMDEVGAMIRIMPESKRHIN 452
                              44332.34444599********888887777775 PP

  == domain 3  score: 9.1 bits;  conditional E-value: 0.0028
                              EEEE--TTSSHHHHHHHHHHHH...GGGEEE CS
                 NTPase_1   2 vfiTGppGvGKtTlvkkvlellkssgvkvgG 32 
                              ++ TGp GvGKt l +++++++   gv+++ 
  PHY93_00715|PHY93_00715 523 FLFTGPTGVGKTELARQLAREM---GVHLER 550
                              578*************999988...666655 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.0   0.0     0.006       2.4      72     119 ..     207     254 ..     192     261 .. 0.80
   2 !    7.9   0.0    0.0065       2.6     102     126 ..     523     547 ..     515     563 .. 0.81

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.006
                              HHHTTSEEEE--TTTHTTHHHHHHHCTTSEEEEECSTTSSHHHHHHHH CS
              RsgA_GTPase  72 lealgyevllvsaktkegleelkellkdktsvlvGqSGvGKStLinal 119
                              +e+  +++++ ++++ e ++++ ++ +++  +lvG+ GvGK+++ + l
  PHY93_00715|PHY93_00715 207 VEKNRIDPIIGRTEEIERVAQILSRRRKNNPLLVGEAGVGKTAIAEGL 254
                              5555566677777778888889999999999***********987655 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.0065
                              EEEECSTTSSHHHHHHHHCTT---- CS
              RsgA_GTPase 102 svlvGqSGvGKStLinallpelelk 126
                               ++ G++GvGK+ L  +l+ e+ ++
  PHY93_00715|PHY93_00715 523 FLFTGPTGVGKTELARQLAREMGVH 547
                              5799**************9987554 PP

>> TIP49  TIP49 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.3   0.1     0.011       4.6      54      93 ..     238     277 ..     223     286 .. 0.83
   2 ?    2.4   0.1      0.18        72     252     289 ..     288     321 ..     276     323 .. 0.75
   3 ?    5.8   0.0     0.017       6.8      52      78 ..     522     548 ..     492     562 .. 0.85

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.011
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                    TIP49  54 LlaGpsgtGktalaiaiskelgedvpfvalsgsevyslev 93 
                              Ll+G++g Gkta+a +++  + +      l+ + ++sl++
  PHY93_00715|PHY93_00715 238 LLVGEAGVGKTAIAEGLAYLIVKGQVPDLLKNATIFSLDL 277
                              899***************9988665556677777888775 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.18
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                    TIP49 252 teiteklreeinkkvakyveegkaeivpGvlfiDevhm 289
                              ++ +++l++ +n+ ++ +++egk e    +lfiDe+h 
  PHY93_00715|PHY93_00715 288 GDFEQRLKNVMNE-LMSFKDEGKGEA---ILFIDEIHT 321
                              5666677766665.678*******96...5******96 PP

  == domain 3  score: 5.8 bits;  conditional E-value: 0.017
                              XXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                    TIP49  52 avLlaGpsgtGktalaiaiskelgedv 78 
                              + L++Gp+g Gkt la  +++e+g ++
  PHY93_00715|PHY93_00715 522 SFLFTGPTGVGKTELARQLAREMGVHL 548
                              5799*******************9544 PP

>> AAA_6  Hydrolytic ATP binding site of dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0       3.1   1.3e+03     280     327 .]     199     248 ..     161     248 .. 0.51
   2 !   16.1   0.0     1e-05    0.0042      38      77 ..     526     565 ..     519     568 .. 0.94

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 3.1
                    AAA_6 280 leeaieevlkekklqle...ekfvekviqlyetlkvrhgvmlvGetgsgKt 327
                                 +++ +++++++++    ++ +e+v q+      ++  +lvGe+g gKt
  PHY93_00715|PHY93_00715 199 YCLNLNLEVEKNRIDPIigrTEEIERVAQILSRR-RKNNPLLVGEAGVGKT 248
                              3334444455555444311134444555544433.3345688999999997 PP

  == domain 2  score: 16.1 bits;  conditional E-value: 1e-05
                    AAA_6  38 aGpagtGKtEtvkdLakalakqvvvfncsdqldykslgki 77 
                              +Gp+g GKtE  ++La+++++++  f+ s+ ++ +s++k+
  PHY93_00715|PHY93_00715 526 TGPTGVGKTELARQLAREMGVHLERFDMSEYMEKHSVAKL 565
                              7***********************************9997 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.4   0.0      0.19        77       3      20 ..     238     255 ..     238     306 .. 0.86
   2 !   12.6   0.0   0.00028      0.12       3      25 ..     524     548 ..     523     570 .. 0.79

  Alignments for each domain:
  == domain 1  score: 3.4 bits;  conditional E-value: 0.19
                   AAA_33   3 llvGlpGsGKstlaerll 20 
                              llvG +G+GK+  ae+l+
  PHY93_00715|PHY93_00715 238 LLVGEAGVGKTAIAEGLA 255
                              589************986 PP

  == domain 2  score: 12.6 bits;  conditional E-value: 0.00028
                   AAA_33   3 llvGlpGsGKstlaerllkklg..a 25 
                              l+ G+ G+GK+ la++l+++ g   
  PHY93_00715|PHY93_00715 524 LFTGPTGVGKTELARQLAREMGvhL 548
                              799***************8766433 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.5   0.0     0.004       1.6      20      47 ..     232     259 ..     224     265 .. 0.82
   2 !    7.3   0.2    0.0098         4      19      36 ..     517     534 ..     511     537 .. 0.81

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.004
                   AAA_29  20 dlkgatlltGpsGsGKSTllDAiqalLv 47 
                              ++k++ ll+G+ G+GK+++   +++l+v
  PHY93_00715|PHY93_00715 232 RRKNNPLLVGEAGVGKTAIAEGLAYLIV 259
                              445589*************999999987 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.0098
                   AAA_29  19 idlkgatlltGpsGsGKS 36 
                               ++ g++l+tGp+G+GK+
  PHY93_00715|PHY93_00715 517 QKPIGSFLFTGPTGVGKT 534
                              4566889**********8 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.9   0.0    0.0038       1.6       2      38 ..     219     252 ..     218     256 .. 0.82
   2 !    6.8   0.0    0.0081       3.3      25      53 ..     525     553 ..     515     588 .. 0.86

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.0038
                              HHHHHHHHHHHHCTTTSCSEEEEEEESTTSSHHHHHH CS
                   NB-ARC   2 eksvekviekLlekdelqslvvalvGmgGvGKttlak 38 
                              ++++e+v++ L++  + +     lvG +GvGKt +a+
  PHY93_00715|PHY93_00715 219 TEEIERVAQILSRRRKNN---PLLVGEAGVGKTAIAE 252
                              578999*****9855555...4699*********996 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.0081
                              EEESTTSSHHHHHHHHCCSHCCCCCCBTE CS
                   NB-ARC  25 lvGmgGvGKttlakqilnksdevegrFds 53 
                              + G  GvGKt la+q  +++    +rFd+
  PHY93_00715|PHY93_00715 525 FTGPTGVGKTELARQLAREMGVHLERFDM 553
                              68****************97766678886 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.9   0.0     0.021       8.7      37      61 ..     238     262 ..     211     318 .. 0.87
   2 ?    6.8   0.0     0.011       4.6      37      57 ..     524     544 ..     519     558 .. 0.90

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.021
                   AAA_25  37 llaGapgtGKttlaldlalavatGk 61 
                              ll+G  g+GKt++a  la+ +++G+
  PHY93_00715|PHY93_00715 238 LLVGEAGVGKTAIAEGLAYLIVKGQ 262
                              89***************99998876 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.011
                   AAA_25  37 llaGapgtGKttlaldlalav 57 
                              l++G++g+GKt la +la ++
  PHY93_00715|PHY93_00715 524 LFTGPTGVGKTELARQLAREM 544
                              789**************9876 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3   0.0    0.0085       3.5       3      75 ..     235     320 ..     233     325 .. 0.76
   2 ?    5.2   0.0     0.039        16       6      24 ..     524     541 ..     522     564 .. 0.82

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0085
                   AAA_24   3 lkiliyGpsgiGKTtlakel............gpkplfidtek.GlksldadkfpdieswedfldevvelaaeladyktlviDtid 75 
                              ++ l++G++g+GKT +a  l             +++ ++ ++  +l +    +++  + ++++++e+ ++++e ++  +l+iD i 
  PHY93_00715|PHY93_00715 235 NNPLLVGEAGVGKTAIAEGLaylivkgqvpdlLKNATIFSLDLaSLLAGTKYRGDFEQRLKNVMNELMSFKDEGKGEAILFIDEIH 320
                              56689*************99888888888888777777777764555555555555558888888888888888888888888875 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.039
                   AAA_24   6 liyGpsgiGKTtlakelgp 24 
                              l +Gp g+GKT la++l  
  PHY93_00715|PHY93_00715 524 LFTGPTGVGKTELARQL-A 541
                              678************99.3 PP

>> DUF815  Protein of unknown function (DUF815)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.4   0.0     0.021       8.5      42      72 ..     223     253 ..     202     267 .. 0.84
   2 ?   -1.3   0.0       2.5     1e+03      54      77 ..     521     544 ..     515     553 .. 0.84
   3 ?    4.0   0.1     0.057        23     141     221 ..     629     713 ..     615     726 .. 0.80

  Alignments for each domain:
  == domain 1  score: 5.4 bits;  conditional E-value: 0.021
                   DUF815  42 enteqfleglpannvLLwGarGtGKSslvka 72 
                              e ++q l+ ++ nn LL+G+ G+GK ++   
  PHY93_00715|PHY93_00715 223 ERVAQILSRRRKNNPLLVGEAGVGKTAIAEG 253
                              556788999999*************998665 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 2.5
                   DUF815  54 nnvLLwGarGtGKSslvkallney 77 
                                 L++G  G+GK  l + l +e+
  PHY93_00715|PHY93_00715 521 GSFLFTGPTGVGKTELARQLAREM 544
                              56799***********99998876 PP

  == domain 3  score: 4.0 bits;  conditional E-value: 0.057
                   DUF815 141 envliyaTsNr..RhLlpeklsdneeleeeeihaseaveekls..LsdRFGlwlgFykldqeeYleiveklakklglelekeele 221
                               nv+i  TsN   +++   ++  n+e + +  ++++ ++e  s  + +R    + F+kl  ++ l+iv+k++ +l+++l+++++e
  PHY93_00715|PHY93_00715 629 RNVVIIMTSNAgaKEMEGGSIGINKEANAQSFKREQRIKEFFSpeFRNRLDAIVHFNKLGSDQILKIVDKFLIQLETKLAEKNVE 713
                              6888888888622445555666666678888899999999998667899999********************9999999887765 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.7   0.0      0.25     1e+02      36      67 ..     225     256 ..     202     307 .. 0.75
   2 ?    8.1   0.0    0.0057       2.3      47      75 ..     522     550 ..     505     561 .. 0.85

  Alignments for each domain:
  == domain 1  score: 2.7 bits;  conditional E-value: 0.25
                    Rad17  36 kadvLesrkkriLLisGPsGCgkstvvkvLsk 67 
                               a++L +r+k+  L+ G +G gk+ + + L+ 
  PHY93_00715|PHY93_00715 225 VAQILSRRRKNNPLLVGEAGVGKTAIAEGLAY 256
                              4899****999999*********998887764 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.0057
                    Rad17  47 iLLisGPsGCgkstvvkvLskelgiklre 75 
                                L +GP+G gk+   + L++e+g++l+ 
  PHY93_00715|PHY93_00715 522 SFLFTGPTGVGKTELARQLAREMGVHLER 550
                              5799********************98865 PP

>> PhoH  PhoH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.5   0.0     0.013       5.2       4      43 ..     217     258 ..     214     274 .. 0.79
   2 ?    4.1   0.0      0.07        28      24      43 ..     525     544 ..     518     554 .. 0.86

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.013
                              --SHHHHHHHHHHH..H-SEEEEE--TTSSTTHHHHHHHHHH CS
                     PhoH   4 pktkeQkeylealk..kndivfaiGpaGtGKtylavalavea 43 
                               +t+e ++++++l+  +++    +G+aG GKt +a  la  +
  PHY93_00715|PHY93_00715 217 GRTEEIERVAQILSrrRKNNPLLVGEAGVGKTAIAEGLAYLI 258
                              567777778888877666677899**********98877655 PP

  == domain 2  score: 4.1 bits;  conditional E-value: 0.07
                              EE--TTSSTTHHHHHHHHHH CS
                     PhoH  24 aiGpaGtGKtylavalavea 43 
                               +Gp+G GKt la +la e+
  PHY93_00715|PHY93_00715 525 FTGPTGVGKTELARQLAREM 544
                              68***********9998665 PP

>> Torsin  Torsin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   0.00045      0.18      14      77 ..     479     544 ..     471     563 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00045
                              --HHHHHHHHHHH--S-HHHHHHHHHHHH.HHHT-SS-SS-E.EEEEEE-TTSSHHHHHHHHHHHH CS
                   Torsin  14 anleeLekdlekklfGqhlvkklvvksvk.aylenekpkkpL.vlsfhGwtGtGknfvaeiiaenl 77 
                               +l++L+++l+  +fGq  + +lv  ++  +     + +kp+  + f G tG Gk  +a+++a ++
  PHY93_00715|PHY93_00715 479 EKLRSLKSNLRLMIFGQDQAVDLVADAILlSRSGLGHEQKPIgSFLFTGPTGVGKTELARQLAREM 544
                              57889********************9986266667899***9457899**************9876 PP

>> DNA_pol3_delta2  DNA polymerase III, delta subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.0       1.1   4.6e+02       9      44 ..     225     259 ..     217     266 .. 0.72
   2 ?    7.5   0.0    0.0076       3.1      20      43 ..     521     544 ..     511     562 .. 0.87
   3 ?   -0.5   0.0       2.3   9.3e+02     106     127 ..     592     613 ..     586     616 .. 0.89

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 1.1
          DNA_pol3_delta2   9 lskalksgrlahayLfeGdegigkkelalnlakall 44 
                                ++l++ r ++  L+ G++g+gk ++a  la  ++
  PHY93_00715|PHY93_00715 225 VAQILSRRR-KNNPLLVGEAGVGKTAIAEGLAYLIV 259
                              555554444.4556889***********99998776 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0076
          DNA_pol3_delta2  20 hayLfeGdegigkkelalnlakal 43 
                               ++Lf+G++g+gk ela +la+++
  PHY93_00715|PHY93_00715 521 GSFLFTGPTGVGKTELARQLAREM 544
                              579*****************9876 PP

  == domain 3  score: -0.5 bits;  conditional E-value: 2.3
          DNA_pol3_delta2 106 iiiiedaekmtksAaNalLktl 127
                              +++++++ek ++   N+lL+++
  PHY93_00715|PHY93_00715 592 VLLLDEIEKAHPDIFNILLQIM 613
                              8899***************986 PP

>> SRP54  SRP54-type protein, GTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.5   0.0     0.028        11       4      28 ..     237     261 ..     234     277 .. 0.82
   2 ?    4.9   0.0     0.044        18       4      24 ..     523     543 ..     521     550 .. 0.89

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.028
                              EEEEESTTSSHHHHHHHHHHHHHHT CS
                    SRP54   4 illvGlqGaGKTttlaKLaallkke 28 
                               llvG  G+GKT  +  La l+ k 
  PHY93_00715|PHY93_00715 237 PLLVGEAGVGKTAIAEGLAYLIVKG 261
                              58****************9988775 PP

  == domain 2  score: 4.9 bits;  conditional E-value: 0.044
                              EEEEESTTSSHHHHHHHHHHH CS
                    SRP54   4 illvGlqGaGKTttlaKLaal 24 
                              +l+ G++G+GKT  + +La+ 
  PHY93_00715|PHY93_00715 523 FLFTGPTGVGKTELARQLARE 543
                              699***********9999975 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.0     0.089        36      10      36 ..     228     254 ..     219     262 .. 0.81
   2 ?    6.3   0.0     0.013       5.1      19      41 ..     523     545 ..     508     565 .. 0.79

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.089
               Zeta_toxin  10 ypsqerPklillgGqpGAGKselaell 36 
                              + s++r+   ll+G  G GK+++ae l
  PHY93_00715|PHY93_00715 228 ILSRRRKNNPLLVGEAGVGKTAIAEGL 254
                              5678888899*************9876 PP

  == domain 2  score: 6.3 bits;  conditional E-value: 0.013
               Zeta_toxin  19 illgGqpGAGKselaellkdele 41 
                               l  G +G GK+ela+ l++e++
  PHY93_00715|PHY93_00715 523 FLFTGPTGVGKTELARQLAREMG 545
                              466899***************95 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.0       4.6   1.9e+03       4      20 ..     239     255 ..     238     268 .. 0.86
   2 ?   10.9   0.0   0.00097       0.4       3      24 ..     524     546 ..     522     565 .. 0.80

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 4.6
                   AAA_28   4 itGgestGKTtlleaLa 20 
                              ++G  + GKT ++e La
  PHY93_00715|PHY93_00715 239 LVGEAGVGKTAIAEGLA 255
                              678889********998 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.00097
                   AAA_28   3 vitGgestGKTtlleaLaar.gy 24 
                               +tG+ + GKT l+++La++ g+
  PHY93_00715|PHY93_00715 524 LFTGPTGVGKTELARQLAREmGV 546
                              79****************76454 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.1   0.0      0.03        12       3      19 ..     238     254 ..     237     264 .. 0.87
   2 ?    4.5   0.0     0.095        39       4      21 ..     525     542 ..     523     560 .. 0.88

  Alignments for each domain:
  == domain 1  score: 6.1 bits;  conditional E-value: 0.03
                              EEESSTTSSHHHHHHCH CS
                      Roc   3 vlvGdsgvGKtsllkrf 19 
                              +lvG++gvGKt +++ +
  PHY93_00715|PHY93_00715 238 LLVGEAGVGKTAIAEGL 254
                              69**********98765 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.095
                              EESSTTSSHHHHHHCHCT CS
                      Roc   4 lvGdsgvGKtsllkrfve 21 
                              + G +gvGKt l++++ +
  PHY93_00715|PHY93_00715 525 FTGPTGVGKTELARQLAR 542
                              679**********99976 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   0.0     0.026        10      20      41 ..     236     257 ..     221     326 .. 0.87
   2 ?    2.8   0.0      0.21        86      22      40 ..     524     542 ..     520     616 .. 0.82
   3 ?   -1.6   0.0       4.7   1.9e+03     132     168 ..     576     612 ..     553     633 .. 0.74

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.026
                   AAA_30  20 vavltGpAGtGKttalkalrea 41 
                                +l+G AG GKt + ++l+ +
  PHY93_00715|PHY93_00715 236 NPLLVGEAGVGKTAIAEGLAYL 257
                              4589**********99988766 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.21
                   AAA_30  22 vltGpAGtGKttalkalre 40 
                              + tGp G GKt + ++l++
  PHY93_00715|PHY93_00715 524 LFTGPTGVGKTELARQLAR 542
                              57999******99998854 PP

  == domain 3  score: -1.6 bits;  conditional E-value: 4.7
                   AAA_30 132 eaGgvlrdlveaagigtaeLtevvRqkeseeraaala 168
                              e Gg+l+d++++  + +  L+e+ + + + +  + + 
  PHY93_00715|PHY93_00715 576 ESGGILTDVMKKYPHAVLLLDEIEKAHPDIFNILLQI 612
                              5688888888877888888888877754444444444 PP

>> IPT  Isopentenyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0         8   3.3e+03       5      22 ..     238     255 ..     236     256 .. 0.88
   2 ?    9.1   0.0     0.002       0.8       4      27 ..     523     546 ..     520     555 .. 0.88
   3 ?   -2.1   0.0       4.9     2e+03      90     110 ..     639     659 ..     615     668 .. 0.73

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 8
                      IPT   5 lifGatttGKtaeaikla 22 
                              l++G  ++GKta a  la
  PHY93_00715|PHY93_00715 238 LLVGEAGVGKTAIAEGLA 255
                              799*********998776 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.002
                      IPT   4 ylifGatttGKtaeaiklaketga 27 
                              +l  G+t++GKt+ a +la+e g+
  PHY93_00715|PHY93_00715 523 FLFTGPTGVGKTELARQLAREMGV 546
                              6789*****************997 PP

  == domain 3  score: -2.1 bits;  conditional E-value: 4.9
                      IPT  90 eeglilEGGSiSLlkrmakde 110
                               ++  +EGGSi + k+   ++
  PHY93_00715|PHY93_00715 639 AGAKEMEGGSIGINKEANAQS 659
                              555569*****9877655544 PP

>> Parvo_NS1  Parvovirus non-structural protein NS1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   0.0     0.048        20     106     138 ..     228     258 ..     204     267 .. 0.85
   2 ?    4.3   0.0     0.046        19     112     138 ..     518     544 ..     412     547 .. 0.86

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.048
                Parvo_NS1 106 wlskqlgkrntvwfyGpantGktnlaeaIakav 138
                              +ls++  ++n  +++G+a  Gkt +ae +a+ +
  PHY93_00715|PHY93_00715 228 ILSRR--RKNNPLLVGEAGVGKTAIAEGLAYLI 258
                              56666..7899999*************999876 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.046
                Parvo_NS1 112 gkrntvwfyGpantGktnlaeaIakav 138
                               + +  +f+Gp   Gkt la+++a+ +
  PHY93_00715|PHY93_00715 518 KPIGSFLFTGPTGVGKTELARQLAREM 544
                              5556779****************9876 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   1.5       5.5   2.2e+03     103     130 ..      99     126 ..      36     237 .. 0.43
   2 ?    8.8   0.2    0.0052       2.1      23      55 ..     238     278 ..     233     489 .. 0.79
   3 ?    7.0   0.3     0.018       7.4      20      33 ..     521     534 ..     486     541 .. 0.82

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 5.5
                   AAA_23 103 ttkkaklelleideleqfisellgskki 130
                              t++ ++ e+l+   ++  i  + + kk+
  PHY93_00715|PHY93_00715  99 TYQPEISEGLQRVIQRAAIHVQSSGKKD 126
                              3333333333333333333322222222 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.0052
                   AAA_23  23 lItGpNGaGKTTildAiklaL.ygetprlsrks.......g 55 
                              l++G+ G GKT+i + + +    g++p+l ++         
  PHY93_00715|PHY93_00715 238 LLVGEAGVGKTAIAEGLAYLIvKGQVPDLLKNAtifsldlA 278
                              799***************98746898988776644444441 PP

  == domain 3  score: 7.0 bits;  conditional E-value: 0.018
                   AAA_23  20 gltlItGpNGaGKT 33 
                              g +l+tGp+G GKT
  PHY93_00715|PHY93_00715 521 GSFLFTGPTGVGKT 534
                              789**********9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (780 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       714  (0.0398237); expected 358.6 (0.02)
Passed bias filter:                      562  (0.0313459); expected 358.6 (0.02)
Passed Vit filter:                        96  (0.00535445); expected 17.9 (0.001)
Passed Fwd filter:                        44  (0.00245412); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              44  [number of targets reported over threshold]
# CPU time: 0.79u 0.26s 00:00:01.05 Elapsed: 00:00:00.40
# Mc/sec: 5856.99
//
Query:       PHY93_00720|PHY93_00720  [L=111]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.9e-32  110.9   0.0    2.4e-32  110.6   0.0    1.1  1  ClpS      ATP-dependent Clp protease adaptor protein ClpS
  ------ inclusion threshold ------
      0.028   14.6   0.1      0.038   14.1   0.1    1.1  1  RRP7      Ribosomal RNA-processing protein 7 (RRP7) C-termina
       0.11   12.9   0.0       0.55   10.6   0.0    1.8  2  DUF3662   Protein of unknown function (DUF2662)


Domain annotation for each model (and alignments):
>> ClpS  ATP-dependent Clp protease adaptor protein ClpS
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  110.6   0.0     4e-36   2.4e-32       3      80 .]      32     109 ..      30     109 .. 0.98

  Alignments for each domain:
  == domain 1  score: 110.6 bits;  conditional E-value: 4e-36
                              X--EEEEEES-S-S-HHHHHHHHHHHSSS-HHHHHHHHHHHHHHSEEEEEEE-HHHHHHHHHHHHH......TT--EE CS
                     ClpS   3 pkqYkvvLlNDdvttmefVvevLqkvfgkskeeAteimlevhreGravvgvgtreiaetkveqverlarreghpLkvt 80 
                              pk+Ykv+L+NDd+ttmefV+ +Lq vf+k+ eeA++im+evhr+G +++g++t+eiae+k ++verlar++ hpL+++
  PHY93_00720|PHY93_00720  32 PKKYKVLLHNDDYTTMEFVIFILQGVFHKTIEEAEKIMMEVHRTGIGLCGIYTFEIAESKSKKVERLAREHAHPLMCS 109
                              89**************************************************************************95 PP

>> RRP7  Ribosomal RNA-processing protein 7 (RRP7) C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.1   6.3e-06     0.038      34     100 ..      11     102 ..       3     104 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 6.3e-06
                     RRP7  34 kkeeevDeDGfvtVtrgkkaaakeea.........................aeekakkkekkkkkkkelldFYrFQirekkkeela 94 
                              ++++ ++e G  tV ++k++ +k+ +                          ee++k +++ ++    l + Y+F+i e+k ++++
  PHY93_00720|PHY93_00720  11 DNDDDEEEGGTSTVIKNKVELPKKYKvllhnddyttmefvifilqgvfhktIEEAEKIMMEVHRTGIGLCGIYTFEIAESKSKKVE 96 
                              4455567778888888776666666668888888888999999988888866777777777777777777**************** PP

                     RRP7  95 eLrkkF 100
                               L + +
  PHY93_00720|PHY93_00720  97 RLAREH 102
                              *99876 PP

>> DUF3662  Protein of unknown function (DUF2662)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   9.2e-05      0.55      43      68 ..      23      48 ..      16      65 .. 0.82
   2 ?    0.1   0.0      0.17   9.9e+02      36      73 ..      64     101 ..      59     107 .. 0.70

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 9.2e-05
                  DUF3662 43 vvsrgrvlaPneYtveLspeDyerla 68
                             +v +++v  P +Y+v L+++Dy  ++
  PHY93_00720|PHY93_00720 23 TVIKNKVELPKKYKVLLHNDDYTTME 48
                             566788999*************9986 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.17
                  DUF3662  36 emddnarvvsrgrvlaPneYtveLspeDyerlasleee 73 
                              e+++ +++v+r+ +     Yt e++++  +++++l++e
  PHY93_00720|PHY93_00720  64 EAEKIMMEVHRTGIGLCGIYTFEIAESKSKKVERLARE 101
                              55666677777777777788888888877777776655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (111 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       564  (0.0314574); expected 358.6 (0.02)
Passed bias filter:                      405  (0.0225891); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 854.81
//
Query:       PHY93_00725|PHY93_00725  [L=131]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    7.3e-21   74.4   0.1    8.3e-21   74.3   0.1    1.0  1  Response_reg  Response regulator receiver domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.3   0.1   4.6e-25   8.3e-21       1     111 [.      13     126 ..      13     127 .. 0.96

  Alignments for each domain:
  == domain 1  score: 74.3 bits;  conditional E-value: 4.6e-25
                              EEEESSSHHHHHHHHHHHHHTTE.EEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCT..TTSEEEEEESSTSH CS
             Response_reg   1 vlivdDdplvrellrqlleeegy.eevaeaedgkealellkeekvdlillDinmpgmdGlellkeireed..pelpviiltahsee 83 
                              vli+dDd  ++e+l+ ++e+ g+ +++  a dg+ a  +l+++k+ lillD++mp+ +Gl+ll+e+ +++  ++  +++++++ ++
  PHY93_00725|PHY93_00725  13 VLIIDDDASICEILKGYCEKMGCfRNILIAHDGSMASSKLRNQKFALILLDLKMPKKSGLDLLRELDDKSlnSKKSIVVISGTFDK 98 
                              8******************999879*****************************************887776999*********** PP

                              HHHHHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  84 edavealkagaddflsKpfdpeeLlkal 111
                              + +++ +  g++ fl Kpf++++  +++
  PHY93_00725|PHY93_00725  99 TAVEKIIATGIKSFLPKPFTEADFQEKI 126
                              *********************9998876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (131 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       589  (0.0328518); expected 358.6 (0.02)
Passed bias filter:                      475  (0.0264934); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.37u 0.20s 00:00:00.57 Elapsed: 00:00:00.35
# Mc/sec: 1128.02
//
Query:       PHY93_00730|PHY93_00730  [L=118]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.4e-13   51.5   0.1    1.7e-13   51.2   0.1    1.1  1  Ribosomal_S30AE  Sigma 54 modulation protein / S30EA ribosoma
  ------ inclusion threshold ------
      0.031   14.2   1.2       0.38   10.6   0.1    2.0  2  LMP              LMP repeated region
      0.036   14.2   1.3      0.046   13.9   1.3    1.1  1  MATH             MATH domain
       0.24   11.4   4.7       0.49   10.4   0.2    2.8  3  zf-CCHH          PBZ domain
       0.33   11.3   4.3       0.19   12.1   0.6    2.0  2  Dynein_light     Dynein light chain type 1
        1.7    9.5   7.3         14    6.6   2.6    2.2  2  KMP11            Kinetoplastid membrane protein 11


Domain annotation for each model (and alignments):
>> Ribosomal_S30AE  Sigma 54 modulation protein / S30EA ribosomal protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.2   0.1   5.6e-17   1.7e-13       1      85 [.       3      92 ..       3      93 .. 0.88

  Alignments for each domain:
  == domain 1  score: 51.2 bits;  conditional E-value: 5.6e-17
                             EEEEECTS---HHHHHHHHHHHCCGGGG......-EEEEEEE..EEEEEEEEEEECTTEEEEEEEEESSHHHHHHHHHHHHHHHHHHC CS
          Ribosomal_S30AE  1 ieitgrnievtdalkeyvekkleklekyf.....ieadVtls..kkkkvevtirlakgkviraeeesedlyaaidlavdklerqlrky 81
                             i+ ++ ++e+t+al + +++  ekl+k+f     i+  ++++  + + +e+   +a++   +a++ se+ly +id avdk+e+q  k 
  PHY93_00730|PHY93_00730  3 ITTSFLHLEHTPALDQKIKETTEKLSKFFqdkgtIKWSCYVKngE-HFAEIYY-HAPNCEYHAKAWSENLYHSIDMAVDKIEKQAFKK 88
                             677899**********************99778888888888541.6799999.566999***999********************** PP

                             HHTT CS
          Ribosomal_S30AE 82 kekl 85
                             k+k 
  PHY93_00730|PHY93_00730 89 KDKF 92
                             **95 PP

>> LMP  LMP repeated region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.1   0.00013      0.38      48      68 ..      15      35 ..       9      40 .. 0.91
   2 ?    2.7   0.1     0.035   1.1e+02      43      77 ..      68      98 ..      50     104 .. 0.68

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00013
                      LMP 48 sLdakvteitkkLekFnkdke 68
                             +Ld+k+ e t+kL kF +dk 
  PHY93_00730|PHY93_00730 15 ALDQKIKETTEKLSKFFQDKG 35
                             69*****************95 PP

  == domain 2  score: 2.7 bits;  conditional E-value: 0.035
                      LMP 43 qsakssLdakvteitkkLekFnkdkeakFkeLeqt 77
                             +++ +s+d+ v +i+k+   F+  k  kF+++++ 
  PHY93_00730|PHY93_00730 68 ENLYHSIDMAVDKIEKQ--AFK--KKDKFNKIHRE 98
                             55666777777777765..343..45677777665 PP

>> MATH  MATH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   1.3   1.5e-05     0.046       6      83 ..      19      97 ..      18     109 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 1.5e-05
                     MATH  6 klkegesrys.kveerfnipWrlkikrkngflglyLrcnkeeelerkwsieveftlklvssngksvkkkdthkfekekg 83
                             k+ke  +++s  +++ + i+W   +k  + f ++y +  + e  ++ ws +  + + +  ++ ++  +k++ kf+k + 
  PHY93_00730|PHY93_00730 19 KIKETTEKLSkFFQDKGTIKWSCYVKNGEHFAEIYYHAPNCEYHAKAWSENLYHSIDMAVDKIEKQAFKKKDKFNKIHR 97
                             789999999966677888*****9999999***********99999****99999999999999977777777777443 PP

>> zf-CCHH  PBZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.2   0.00016      0.49       9      23 ..      40      55 ..      40      58 .. 0.81
   2 ?    2.6   0.1     0.044   1.3e+02       2       9 ..      57      64 ..      56      64 .. 0.87
   3 ?   -1.5   0.1      0.87   2.6e+03      14      20 ..      93      99 ..      91     100 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00016
                  zf-CCHH  9 kCYRkNpqHfqe.fsH 23
                             +CY kN +Hf+e + H
  PHY93_00730|PHY93_00730 40 SCYVKNGEHFAEiYYH 55
                             7*********984555 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.044
                  zf-CCHH  2 PpCkYGkk 9 
                             P+C+Y +k
  PHY93_00730|PHY93_00730 57 PNCEYHAK 64
                             9****986 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 0.87
                  zf-CCHH 14 NpqHfqe 20
                             N+ H+++
  PHY93_00730|PHY93_00730 93 NKIHREQ 99
                             999*986 PP

>> Dynein_light  Dynein light chain type 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.6   6.3e-05      0.19      26      71 ..      17      60 ..       2      68 .. 0.83
   2 ?    0.8   0.3       0.2   6.1e+02      16      40 ..      72      95 ..      62     102 .. 0.66

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 6.3e-05
                             HH-SSHH..HHHHHHHHHHHHHH-S-EEEEE..EEEEEEEEEEETTEE CS
             Dynein_light 26 ekfkkekekdiaayikkeldkkygptWhciV..gksfgssvthekghf 71
                             ++    k k+  +++ k ++ k    W c V  g++f+  + h +++ 
  PHY93_00730|PHY93_00730 17 DQ----KIKETTEKLSKFFQDKGTIKWSCYVknGEHFAEIYYHAPNCE 60
                             32....447999*******************99999*99999999885 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.2
                             HHHHHHHHHHHH-SSHH..HHHHHH CS
             Dynein_light 16 eaielakealekfkkekekdiaayi 40
                             + i++a + +ek  ++k kd  ++i
  PHY93_00730|PHY93_00730 72 HSIDMAVDKIEKQAFKK-KDKFNKI 95
                             56788888887766655.4544444 PP

>> KMP11  Kinetoplastid membrane protein 11
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   0.3    0.0083        25      46      68 ..      11      33 ..       3      61 .. 0.67
   2 ?    6.6   2.6    0.0047        14      44      72 ..      74     102 ..      46     110 .. 0.82

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.0083
                    KMP11 46 ehyekfekmikehtekfnkkmre 68
                             eh   +++ ike tek+ k +++
  PHY93_00730|PHY93_00730 11 EHTPALDQKIKETTEKLSKFFQD 33
                             55556666666666666655443 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.0047
                    KMP11  44 mkehyekfekmikehtekfnkkmrehseh 72 
                              +    +k+ek   ++ +kfnk  re+se 
  PHY93_00730|PHY93_00730  74 IDMAVDKIEKQAFKKKDKFNKIHREQSEI 102
                              45567899**999**************95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (118 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1091  (0.0608511); expected 358.6 (0.02)
Passed bias filter:                      471  (0.0262703); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 863.68
//
Query:       PHY93_00735|PHY93_00735  [L=479]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.6e-64  214.9   0.2    1.2e-63  213.6   0.2    1.7  2  Sigma54_DBD      Sigma-54, DNA binding domain
    2.2e-53  180.8   0.1    5.3e-53  179.5   0.1    1.7  1  Sigma54_CBD      Sigma-54 factor, core binding domain
    6.8e-15   54.7   8.5    1.5e-14   53.6   8.5    1.6  1  Sigma54_AID      Sigma-54 factor, Activator interacting domai
  ------ inclusion threshold ------
      0.035   14.1   0.1        3.9    7.5   0.1    2.7  2  Phage_terminase  Phage terminase small subunit
      0.039   13.8   0.0       0.95    9.3   0.0    2.4  2  HTH_IclR         IclR helix-turn-helix domain
       0.29   10.9   1.8       0.97    9.3   0.1    2.5  2  LacI             Bacterial regulatory proteins, lacI family


Domain annotation for each model (and alignments):
>> Sigma54_DBD  Sigma-54, DNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0       1.7   5.2e+03      73      99 ..     262     288 ..     261     308 .. 0.72
   2 !  213.6   0.2   4.1e-67   1.2e-63       2     159 ..     320     478 ..     319     479 .] 0.98

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 1.7
                              XEEEXSSXEEECSCCXXXCSSTSSBHH CS
              Sigma54_DBD  73 kyiktprGvfelkafFsssvsseegge 99 
                              ++i+tp   + l  +F+ +vs e   +
  PHY93_00735|PHY93_00735 262 RLIATPETHYILPDIFVVEVSGEFVVQ 288
                              678999999999999999998765544 PP

  == domain 2  score: 213.6 bits;  conditional E-value: 4.1e-67
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHXSSXXXXXXXHHHHHTTSSSXHHHHHHHHHHXEEEXSSXEEECSCC CS
              Sigma54_DBD   2 eylkeklqeakwliksleqRketllkvaeeiverQkdflekgeealrpltlrevaealelhesTvSRvvsnkyiktprGvfelkaf 87 
                              e++kekl++a+wliks+++R++t+ kva++iv++Q+df++kg++ l+p++l++va+++++hesTvSRv++nky++tp G+felk+f
  PHY93_00735|PHY93_00735 320 EFVKEKLRSAEWLIKSIQNRQKTIEKVAKAIVAKQQDFFKKGPKLLKPMVLKDVANDIGMHESTVSRVTTNKYMHTPLGTFELKYF 405
                              689*********************************************************************************** PP

                              XXXCSSTSSBHH.THHHHCCTHHHHHHCTS-TTSS--CCHHHHHHHCTTS--HHHHHHHHHHHCT-STTCCCH CS
              Sigma54_DBD  88 Fsssvsseegge.asaeaikalikklieaEdkkkplSDdkivellkekgieiaRRtvaKYRealnipssserr 159
                              F++ +  ++gg+  ++e++k +ik++ eaE++ kplSD+k+ve+l+++++++aRRtv+KYRe+l+i +ss+r+
  PHY93_00735|PHY93_00735 406 FNTGIGGKDGGAdIASEVLKMKIKAIFEAENPLKPLSDQKVVEILAKENLTVARRTVTKYREMLGIMPSSKRK 478
                              *****99999988***********************************************************9 PP

>> Sigma54_CBD  Sigma-54 factor, core binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  179.5   0.1   1.8e-56   5.3e-53       2     179 .]     116     303 ..     115     303 .. 0.97

  Alignments for each domain:
  == domain 1  score: 179.5 bits;  conditional E-value: 1.8e-56
              Sigma54_CBD   2 leelaaaeeslqehLleQlallelseeereiaeylienLdedGYleesleeiaeel..eeeeveavlkliqsldPaGvgArdlqEc 85 
                              +e++++++ +l ehL++Ql+++ ls++e ++a+ +i+n+++dGYl+++ e++ +e   +++++ ++l++iq+ldP+G+g+ +lqEc
  PHY93_00735|PHY93_00735 116 YENIVSKSMTLAEHLEWQLKMEVLSDDEWKLAHLIIGNINDDGYLDANFEDLIAESglKRSDAFDILEVIQRLDPVGCGSINLQEC 201
                              68999**********************************************9988878999999********************** PP

              Sigma54_CBD  86 LllQlk........aealieehlellakkdlkklakklglseeelqealelIkkLnPkPgrefsseeaeyivPDvivekeegelev 163
                              Ll Q++         e++i++hle+l++k+++k++k+lg++ e++++   l+++++PkPgr +++ e++yi PD++v ++ ge++v
  PHY93_00735|PHY93_00735 202 LLAQARiaeersplLEKIIRDHLEDLQSKNYEKISKTLGVTSEQVKKTALLLQNFHPKPGRLIATPETHYILPDIFVVEVSGEFVV 287
                              *****667788999999********************************************************************* PP

              Sigma54_CBD 164 elndealpkLrineeY 179
                              ++nde +p+L+i++ Y
  PHY93_00735|PHY93_00735 288 QVNDEGIPRLKISKLY 303
                              *************988 PP

>> Sigma54_AID  Sigma-54 factor, Activator interacting domain (AID)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.6   8.5   4.9e-18   1.5e-14       1      46 []       6      51 ..       6      51 .. 0.97

  Alignments for each domain:
  == domain 1  score: 53.6 bits;  conditional E-value: 4.9e-18
              Sigma54_AID  1 klqlkqtQklkLtpqLqQaiklLqlstlELeeeieeeleeNPlLEi 46
                             ++ l+qtQ l++tpqLqQaiklL l+ lE++  i ee+ eNP+LE+
  PHY93_00735|PHY93_00735  6 SQGLRQTQNLAMTPQLQQAIKLLTLTHLEMTNVIAEEMVENPMLEE 51
                             588*****************************************96 PP

>> Phage_terminase  Phage terminase small subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   0.1    0.0013       3.9       3      41 ..     210     248 ..     208     250 .. 0.92
   2 ?    3.6   0.0     0.023        69      23      41 ..     368     386 ..     356     390 .. 0.89

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0013
          Phage_terminase   3 RqRsPdRDkAyelykEsggtlklkdIAkvLdvsestvrk 41 
                               +RsP  +k  + ++E  + ++  +I k L+v +++v+k
  PHY93_00735|PHY93_00735 210 EERSPLLEKIIRDHLEDLQSKNYEKISKTLGVTSEQVKK 248
                              5799999999999************************86 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.023
          Phage_terminase  23 lklkdIAkvLdvsestvrk 41 
                              + lkd+A+ +++ estv++
  PHY93_00735|PHY93_00735 368 MVLKDVANDIGMHESTVSR 386
                              568**************85 PP

>> HTH_IclR  IclR helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   0.0     0.082   2.5e+02      22      43 ..     165     186 ..     161     191 .. 0.76
   2 ?    9.3   0.0   0.00032      0.95      18      38 ..     367     387 ..     358     390 .. 0.90

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.082
                              HHHHHHHTS-HHHHHHHHHHHH CS
                 HTH_IclR  22 selArrtglpkStvhRlLqtLv 43 
                               +l +++gl +S ++ +L   +
  PHY93_00735|PHY93_00735 165 EDLIAESGLKRSDAFDILEVIQ 186
                              5788899999999988887655 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.00032
                              S-BHHHHHHHHTS-HHHHHHH CS
                 HTH_IclR  18 eltlselArrtglpkStvhRl 38 
                              ++ l+++A+ +g++ Stv+R 
  PHY93_00735|PHY93_00735 367 PMVLKDVANDIGMHESTVSRV 387
                              6889***************97 PP

>> LacI  Bacterial regulatory proteins, lacI family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.3      0.37   1.1e+03      28      38 ..     340     350 ..     336     355 .. 0.86
   2 ?    9.3   0.1   0.00032      0.97       2      23 ..     370     391 ..     369     394 .. 0.91

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.37
                              HHHHHHHHHHH CS
                     LacI  28 eetrerVeaam 38 
                              ++t e+V++a+
  PHY93_00735|PHY93_00735 340 QKTIEKVAKAI 350
                              8999***9997 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.00032
                              HHHHHHHCTS-HHHHHHHCTTS CS
                     LacI   2 ikDVArlAGVSkaTVSrvLnnk 23 
                              +kDVA   G   +TVSrv  nk
  PHY93_00735|PHY93_00735 370 LKDVANDIGMHESTVSRVTTNK 391
                              8*****************8776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (479 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       921  (0.0513693); expected 358.6 (0.02)
Passed bias filter:                      605  (0.0337442); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.59u 0.24s 00:00:00.83 Elapsed: 00:00:00.41
# Mc/sec: 3513.71
//
Query:       PHY93_05770|PHY93_05770  [L=244]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.3e-43  146.7   0.0    4.6e-43  146.2   0.0    1.2  1  TrmO      tRNA-methyltransferase O
    4.5e-08   33.1   0.0    8.5e-08   32.2   0.0    1.5  1  TrmO_C    TrmO C-terminal domain


Domain annotation for each model (and alignments):
>> TrmO  tRNA-methyltransferase O
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  146.2   0.0   5.1e-47   4.6e-43       1     119 []      21     144 ..      21     144 .. 0.97

  Alignments for each domain:
  == domain 1  score: 146.2 bits;  conditional E-value: 5.1e-47
                              TS-SSGGG--.-EEEEEE-HHH..HGGGTTGGG-SEEEEEEE-TTS...-.SS--E-TT-.SS-E.EGGGS--S-SSS-EEEEEEE CS
                     TrmO   1 giPrqpglaeeaeaeielepeynseealegleefshlwllfvfhenaekklkakvrpprlggnervGvfatRsphRpnpiglsvvk 86 
                              g+Prq+g+++ea+a ++l++  + + al+ le+fsh+w+lfvfh+++e k+k+++rppr++  +++Gvfa+RsphRpnpig+s+v+
  PHY93_05770|PHY93_05770  21 GVPRQSGMVTEARAILKLNDVPDYKLALSHLEDFSHIWVLFVFHKHTEMKWKPTIRPPRVDAPSKIGVFASRSPHRPNPIGMSAVR 106
                              79*****************88888**********************9*************************************** PP

                              EEEEE.....TTEEEEES----TT-EEEEEEE--HHHH CS
                     TrmO  87 lekve.....gnvlevsgvDlldgtpvlDiKPYvpyaD 119
                              l++++     g  +++sgvD+ld+tpvlDiKPY+py+D
  PHY93_05770|PHY93_05770 107 LDRIDwkakgGIEIHLSGVDFLDKTPVLDIKPYLPYTD 144
                              ******999889************************99 PP

>> TrmO_C  TrmO C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.2   0.0   9.5e-12   8.5e-08       3      65 .]     161     231 ..     159     231 .. 0.87

  Alignments for each domain:
  == domain 1  score: 32.2 bits;  conditional E-value: 9.5e-12
                   TrmO_C   3 leVeFseeaeaqlqql.qksapdlkqlIeevLaqDPRPaYkkskpe.e......riYgmrLydlnirwrve 65 
                               +V Fs+e e  ++++   ++p +++l+ e+L++DPRP  +k++   e        +g + +d++++wr+e
  PHY93_05770|PHY93_05770 161 YPVYFSKESELIIEEVaRTRHPGFEKLLFEMLQWDPRPTSQKRTHPiEdpknegLLFGFHCLDFDVKWRIE 231
                              589*************677789*****************999965433677777889************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (244 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       250  (0.0139439); expected 358.6 (0.02)
Passed bias filter:                      242  (0.0134977); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.20s 00:00:00.62 Elapsed: 00:00:00.36
# Mc/sec: 2056.26
//
Query:       PHY93_00740|PHY93_00740  [L=240]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    9.8e-36  123.3   0.0    1.5e-35  122.7   0.0    1.3  1  ABC_tran      ABC transporter
    3.3e-05   23.9   0.5       0.18   11.6   0.0    2.1  2  AAA_21        AAA domain, putative AbiEii toxin, Type IV TA s
      0.001   18.6   0.1       0.51    9.7   0.0    2.2  2  SMC_N         RecF/RecN/SMC N terminal domain
  ------ inclusion threshold ------
      0.015   15.5   0.2       0.41   10.9   0.2    2.3  1  SbcCD_C       Putative exonuclease SbcCD, C subunit
      0.061   13.8   0.1       0.12   12.9   0.1    1.4  1  AAA_23        AAA domain
      0.069   12.2   0.0      0.095   11.7   0.0    1.3  1  T2SSE         Type II/IV secretion system protein
       0.12   12.4   0.0       0.21   11.5   0.0    1.5  1  BCA_ABC_TP_C  Branched-chain amino acid ATP-binding cassette 
       0.18   11.5   0.1       0.45   10.2   0.1    1.6  2  AAA_30        AAA domain
       0.18   11.6   0.1       0.33   10.7   0.1    1.4  1  AAA_29        P-loop containing region of AAA domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  122.7   0.0   7.7e-39   1.5e-35       1     137 []      21     167 ..      21     167 .. 0.87

  Alignments for each domain:
  == domain 1  score: 122.7 bits;  conditional E-value: 7.7e-39
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG.B-HHHCCHCEEEE-SS--S-TTSBHHHH...... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxx...... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke.qeleslrkeigvlpqepqlfpeltvren...... 79 
                              +k+v++ +++ge+v+++G+nGaGK+t + ++ gl+k +eG+i+l+gkd++e   ++++ + ig+lpqe+++f++lt++en      
  PHY93_00740|PHY93_00740  21 VKDVNIAVSQGEIVGLLGPNGAGKTTCFYMMVGLVKADEGKITLNGKDITEePIHKRALNGIGYLPQEASVFRDLTIEENimavle 106
                              589************************************************66778899************************999 PP

                              ...HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              ...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ...esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                                  s++e  +++++l  + + d+v +s++s LSgG+++rv++aral+ +pk++llDEp+a
  PHY93_00740|PHY93_00740 107 nrnLSRRERLELMETLIHDFKLDHVRRSKGSALSGGERRRVEIARALALEPKFVLLDEPFA 167
                              997444444444444444444555556667*****************************85 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.6   0.0   9.1e-05      0.18       2      61 ..      34      93 ..      33     101 .. 0.69
   2 !   10.6   0.1   0.00018      0.36     180     295 ..     114     194 ..     103     199 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 9.1e-05
                   AAA_21  2 nvliGpNgsGKSnLLdaldllarldrdvegltdelsggggirkipslldlydpeipfefe 61
                              +l GpNg+GK++ ++ + +l  +d   + l+ ++    +i k +    +y p ++++f+
  PHY93_00740|PHY93_00740 34 VGLLGPNGAGKTTCFYMMVGLVKADEGKITLNGKDITEEPIHKRALNGIGYLPQEASVFR 93
                             689**********99888888555666666666666666666666666666666666665 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 0.00018
                   AAA_21 180 kekrllqrlvrslklveielsdlgegeeliasvderlrergvvflengdgqelparelSdGtkrllalltallralkkgsllliDE 265
                              ++++l++ l++ +kl++ + s+                                   lS G +r   ++ al+  +   +++l+DE
  PHY93_00740|PHY93_00740 114 ERLELMETLIHDFKLDHVRRSKGS--------------------------------ALSGGERRRVEIARALALEP---KFVLLDE 164
                              556666666666666666666663................................44888888878888888777...99***** PP

                   AAA_21 266 pEngLHPkllrrllellkelsrngaQvilt 295
                              p +g +P +++ +  l+  l+++++ v++t
  PHY93_00740|PHY93_00740 165 PFAGVDPLAVADIQSLIQGLKTRNIGVLIT 194
                              **********99988884444447888887 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.1   0.1    0.0017       3.3      11      41 ..      13      48 ..       1      52 [. 0.61
   2 !    9.7   0.0   0.00025      0.51     109     198 ..      60     197 ..      48     213 .. 0.73

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.0017
                             TTEECEEEEEET.....TSSEEEEEESTTSSHHHHH CS
                             xxxxxxxxxxxx.....xxxxxxxxxxxxxxxxxxx RF
                    SMC_N 11 ksyagktvilpf.....sksftaivGpNGSGKsnll 41
                             k+y g+tv+ ++     + ++  ++GpNG+GK+  +
  PHY93_00740|PHY93_00740 13 KTYGGRTVVKDVniavsQGEIVGLLGPNGAGKTTCF 48
                             5666666655441111134566789*******9765 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.00025
                              EEEEETTEEE-HHHHHH.HHHCTT-STT..................................................CS-HHHHH CS
                              xxxxxxxxxxxxxxxxx.xxxxxxxxxx..................................................xxxxxxxx RF
                    SMC_N 109 seykingkevtkkevse.llesagiske..................................................lLSgGekt 143
                               ++++ngk++t++ +++  l+  g  ++                                                  +LSgGe+ 
  PHY93_00740|PHY93_00740  60 GKITLNGKDITEEPIHKrALNGIGYLPQeasvfrdltieenimavlenrnlsrrerlelmetlihdfkldhvrrskgsALSGGERR 145
                              556666666666555431455555555566666666666666666777777777777777777777789999999999******** PP

                              HHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHH.HHCTTSEEEEE-SS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxx RF
                    SMC_N 144 LvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellk.eksknaQfivislr 198
                               v +a  +A++      ++llDe  a  D   v+ + +l++  k+ n  ++++ ++
  PHY93_00740|PHY93_00740 146 RVEIARALALEP----KFVLLDEPFAGVDPLAVADIQSLIQgLKTRNIGVLITDHN 197
                              *******99864....499******************9999444556777777665 PP

>> SbcCD_C  Putative exonuclease SbcCD, C subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.2   0.00021      0.41      33      85 ..     139     178 ..     107     183 .. 0.71

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00021
                  SbcCD_C  33 lSGGekqflaylalaaalaalyssaegrepalrlvfLDEAFsklDeesiatll 85 
                              lSGGe+   + +a a+al             +++v+LDE F+++D+  +a + 
  PHY93_00740|PHY93_00740 139 LSGGER-RRVEIARALAL------------EPKFVLLDEPFAGVDPLAVADIQ 178
                              555555.44444444333............4789***********98777665 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.1   5.9e-05      0.12      12      36 ..      23      48 ..       4      51 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 5.9e-05
                   AAA_23 12 dqeidFsk.gltlItGpNGaGKTTil 36
                             d++i  s+  ++ + GpNGaGKTT +
  PHY93_00740|PHY93_00740 23 DVNIAVSQgEIVGLLGPNGAGKTTCF 48
                             56666655358899**********65 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   4.8e-05     0.095     125     161 ..      27      63 ..       5     105 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 4.8e-05
                    T2SSE 125 avrerglilvsGgTgsGKttllyallkeinksderiv 161
                              av++  ++ + G+ g GKtt  y+++  +++++ +i 
  PHY93_00740|PHY93_00740  27 AVSQGEIVGLLGPNGAGKTTCFYMMVGLVKADEGKIT 63 
                              55555666688********************998886 PP

>> BCA_ABC_TP_C  Branched-chain amino acid ATP-binding cassette transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00011      0.21       2      23 .]     216     237 ..     215     237 .. 0.92

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00011
             BCA_ABC_TP_C   2 vIAeGtPaEvrndPrVieAYLG 23 
                              ++ +G+PaE  nd+r ++ YLG
  PHY93_00740|PHY93_00740 216 LLVSGKPAELINDERARKFYLG 237
                              6779**************9999 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.1   0.00022      0.45      13      49 ..      26      62 ..      22      69 .. 0.82
   2 ?   -3.5   0.0       3.6   7.1e+03     144     158 ..     121     135 ..     116     141 .. 0.74

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00022
                   AAA_30 13 lltsgdrvavltGpAGtGKttalkalreaweaaggrv 49
                             ++ s+  ++ l Gp G+GKtt    ++ +++a++g++
  PHY93_00740|PHY93_00740 26 IAVSQGEIVGLLGPNGAGKTTCFYMMVGLVKADEGKI 62
                             5566777999***********9999998888886665 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 3.6
                   AAA_30 144 agigtaeLtevvRqk 158
                              + i+  +L++v+R k
  PHY93_00740|PHY93_00740 121 TLIHDFKLDHVRRSK 135
                              567888999999986 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.1   0.00017      0.33      16      39 ..      25      48 ..      18      66 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00017
                   AAA_29 16 tieidlkgatlltGpsGsGKSTll 39
                              i +++ +++ l Gp+G+GK+T +
  PHY93_00740|PHY93_00740 25 NIAVSQGEIVGLLGPNGAGKTTCF 48
                             566664558999**********76 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (240 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       498  (0.0277762); expected 358.6 (0.02)
Passed bias filter:                      467  (0.0260472); expected 358.6 (0.02)
Passed Vit filter:                        82  (0.0045736); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.40
# Mc/sec: 1817.91
//
Query:       PHY93_00745|PHY93_00745  [L=336]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.3e-12   46.6   0.3    7.1e-06   26.2   0.0    2.2  2  OstA      OstA-like protein
    0.00077   19.1   4.4       0.35   10.4   0.2    2.7  3  LptC      Lipopolysaccharide-assembly, LptC-related


Domain annotation for each model (and alignments):
>> OstA  OstA-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.7   2.4e-07    0.0021       3      91 ..     109     192 ..     107     211 .. 0.80
   2 !   26.2   0.0   7.9e-10   7.1e-06       5     110 ..     211     318 ..     207     321 .. 0.91

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 2.4e-07
                     OstA   3 eAdkaelddkkkvavftGnVvvtqGnltlkAdkvtvtqdkkskkierleakgtatfrqkvdlvgeqirGkAerieydskkeiivLt 88 
                              +A++  +  kkk++ ++ +V+++  n++l+A+kv +  + +   + + ++k       +v+ ++ +i   ++r++y++k ++i+ +
  PHY93_00745|PHY93_00745 109 QAKNSRALIKKKEIFLENEVEIKMSNTNLRAQKVSILSEGE-ILYANRDVKT----LSTVEKTSDEIMVNSNRATYRPKLQTIEYQ 189
                              689999999****************************9999.3333333333....446666888999999999999999999988 PP

                     OstA  89 gna 91 
                              g++
  PHY93_00745|PHY93_00745 190 GSV 192
                              844 PP

  == domain 2  score: 26.2 bits;  conditional E-value: 7.9e-10
                     OstA   5 dkaelddkkkvavftGnVvvtqGnltlkAdkvtvtqdkkskkierleakgtatfrqkvdlvgeqi..rGkAerieydskkeiivLt 88 
                              d ++l+ +k+ + ++GnV  +++nl+  A++ +v+ ++ +k+ +++  ++ +  ++ + ++g+++  ++ Ae++e   ++++i+Lt
  PHY93_00745|PHY93_00745 211 DLLTLNAPKSLVEMKGNVAFKKDNLEAFANRGEVFLENYNKRLKYYALYDDVRLQERLLNDGKPLvrKAFAEKLEGLISEKKIILT 296
                              668999*********************************9**********888888888899986337889999999********* PP

                     OstA  89 gnatltqnsnsveGseitydik 110
                              g  ++ q+ ++++G++it+  +
  PHY93_00745|PHY93_00745 297 GLPKVFQERDVIKGNRITIREN 318
                              ******************8765 PP

>> LptC  Lipopolysaccharide-assembly, LptC-related
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.9   0.1   5.7e-05      0.51      77     143 ..      93     158 ..      86     164 .. 0.84
   2 !   10.4   0.2   3.9e-05      0.35      80     151 ..     164     237 ..     156     265 .. 0.81
   3 ?   -3.1   0.1      0.54   4.9e+03      99     120 ..     310     331 ..     308     334 .. 0.64

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 5.7e-05
                              EEE-TTS....EEEEEE-SEEEE-T.TSEEEEEEEEEEEE-SSS-SEEEEEEEEEEEETTT-EEEEEEEEE CS
                     LptC  77 iiydegt....qswkvtAkkAkltkkgqeleLegnVviqsltkksrlqtitTeeltvnlktkdittdqpVk 143
                              + y+++t    +++  +Ak  +   k++e+ Le++V+i++      ++ +++++ ++  + ++ + ++ Vk
  PHY93_00745|PHY93_00745  93 YRYEKETdkalEPVYFQAKNSRALIKKKEIFLENEVEIKMS-----NTNLRAQKVSILSEGEILYANRDVK 158
                              4556666778899999******9999***************.....7888888888888888888888887 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 3.9e-05
                              -TTSEEEEEE-SEEEE-T.TSEEEEEEEEE..EEE-SSS-SEEEEEEEEEEEETTT-EEEEEEEEEEEESS-EE CS
                     LptC  80 degtqswkvtAkkAkltkkgqeleLegnVv..iqsltkksrlqtitTeeltvnlktkdittdqpVkitgpnfst 151
                              ++++ ++ v++++A++  k q++e  g V+  i+++   ++++ ++T+ lt+n  +  ++ +  V +++ n + 
  PHY93_00745|PHY93_00745 164 EKTSDEIMVNSNRATYRPKLQTIEYQGSVNgvIKRKRVYEENISFKTDLLTLNAPKSLVEMKGNVAFKKDNLEA 237
                              55668899*********************633666666666****************99999999999998765 PP

  == domain 3  score: -3.1 bits;  conditional E-value: 0.54
                              TSEEEEEEEEEEEE-SSS-SEE CS
                     LptC  99 gqeleLegnVviqsltkksrlq 120
                              g+++++++nV+    +++++++
  PHY93_00745|PHY93_00745 310 GNRITIRENVETVEVDDANTNI 331
                              6777777777777666655555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (336 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       723  (0.0403257); expected 358.6 (0.02)
Passed bias filter:                      432  (0.024095); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.40
# Mc/sec: 2496.94
//
Query:       PHY93_00750|PHY93_00750  [L=881]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.1e-77  258.9   0.3    1.2e-76  256.9   0.2    2.0  2  MutS_V    MutS domain V
    6.2e-39  132.7   0.0    1.4e-38  131.6   0.0    1.6  1  MutS_I    MutS domain I
    4.3e-28   98.8   7.0    4.3e-28   98.8   7.0    1.7  2  MutS_III  MutS domain III
    3.4e-21   75.4   0.3    1.5e-20   73.3   0.3    2.2  1  MutS_IV   MutS family domain IV
  ------ inclusion threshold ------
      0.025   14.9   0.0      0.069   13.4   0.0    1.8  1  MutS_II   MutS domain II
      0.061   12.9   0.0       0.15   11.6   0.0    1.6  1  AAA_27    AAA domain
      0.088   12.8   0.0       0.39   10.8   0.0    2.1  2  AAA_14    AAA domain
       0.63   10.5   0.0       0.63   10.5   0.0    3.8  3  AAA_23    AAA domain


Domain annotation for each model (and alignments):
>> MutS_V  MutS domain V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.0      0.75   1.7e+03     114     140 ..     320     346 ..     312     389 .. 0.58
   2 !  256.9   0.2   5.5e-80   1.2e-76       2     188 .]     625     811 ..     624     811 .. 0.99

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.75
                              EEEEES-GGGGGHHHHSTTEEEEEEEE CS
                   MutS_V 114 tlfatHyheltklaekleevknlhlav 140
                              tlf+t   +l +++e+l+ +++l  + 
  PHY93_00750|PHY93_00750 320 TLFSTPLYDLKEINERLDIIQSLIAND 346
                              677777777777777766655443332 PP

  == domain 2  score: 256.9 bits;  conditional E-value: 5.5e-80
                              EEE-STTSSHHHHHHHHHHHHHHHHHT--BSSSEEEEE--SEEEEEE--------SS-HHHHHHHHHHHHHTT--TTSEEEEESTS CS
                   MutS_V   2 litGpnmaGkstylrqvalivllaqiGsfvpaekaeisivdkiftRvgasDdlakgkstFmvEmlEtasilknatekslvilDElG 87 
                              litGpnmaGk t +r+va+i+llaq+Gsfvpa+ a+++++d +f+R+gasDd+ kg+stFmvEm+Eta+il++at ksl+ilDE+G
  PHY93_00750|PHY93_00750 625 LITGPNMAGKTTVMREVAIIQLLAQMGSFVPAKVARLGLCDFLFSRLGASDDILKGQSTFMVEMAETAEILRHATGKSLIILDEVG 710
                              7************************************************************************************* PP

                              -SS-HHHHHHHHHHHHHHHHHTT--EEEEEES-GGGGGHHHHSTTEEEEEEEEEEETTEEEEEEEEEES--SS--HHHHHHHTT-- CS
                   MutS_V  88 RGtstydGlaialavaeyllekikaktlfatHyheltklaekleevknlhlavkeeeedivflykvkegaaeksyGikvaklaglP 173
                              RGtstydGl+ia+ ++e+++++++a tlfatHyhel ++a+k+++ knl++++ +++ +++fly++ e aa++s+Gi va+laglP
  PHY93_00750|PHY93_00750 711 RGTSTYDGLSIAWGLVEHFIDTTRALTLFATHYHELIDIADKNPAAKNLTVETISHKGNVQFLYRLIEQAASQSFGIYVASLAGLP 796
                              ************************************************************************************** PP

                              HHHHHHHHHHHHHTT CS
                   MutS_V 174 esvverArevlkele 188
                              +sv++r +e+l++le
  PHY93_00750|PHY93_00750 797 QSVLKRSQEILHQLE 811
                              ************996 PP

>> MutS_I  MutS domain I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  131.6   0.0   6.5e-42   1.4e-38       1     108 [.      17     124 ..      17     128 .. 0.96

  Alignments for each domain:
  == domain 1  score: 131.6 bits;  conditional E-value: 6.5e-42
                              HHHHHHHHCCCHH-TTCEEEEEETTEEEEECHHHHHHHHHCSSSSTT.ESSSSC.EEEEEEEHHHHHHHHHHHHHTT-EEEEEEE- CS
                   MutS_I   1 tplmkqylelkkkykdavlffrvGdfYelfgeDAviaareleitltkrkkssekeipmagvPehalekylrkLvekgykVavveqt 86 
                              tp+m+qy+++kk+y+d++l+fr+GdfYe+f+eDA   ar+l+itlt+r+k  +  ipmag+P+ha+++y++++ ++g kVa++eq 
  PHY93_00750|PHY93_00750  17 TPMMEQYFQIKKNYPDTLLLFRMGDFYEVFFEDARQTARILNITLTHRGKIGDTPIPMAGIPHHAASTYIDRITNRGLKVAICEQI 102
                              8*********************************************998766666******************************* PP

                              S-HHHHS.S--EEEEEEEBTTC CS
                   MutS_I  87 etpaekkgvvkrevvrviTpGt 108
                              e+p+ + g+vkr v++v++pG 
  PHY93_00750|PHY93_00750 103 EDPKDAVGIVKRGVTQVVSPGM 124
                              ********************95 PP

>> MutS_III  MutS domain III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   98.8   7.0   1.9e-31   4.3e-28       2     191 .]     284     572 ..     283     572 .. 0.90
   2 ?   -3.1   0.0       3.4   7.5e+03     110     110 ..     798     798 ..     725     860 .. 0.48

  Alignments for each domain:
  == domain 1  score: 98.8 bits;  conditional E-value: 1.9e-31
                              HHHHTTSSS-TTS.SSSS-HHHHH---SSHHHHHHHHHHHH--BS-HHHHHHHHHHHHH.T..TT.HHHHHHHHTT---HHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 MutS_III   2 TlrnLeilenlrggskegsLlgvldrTvTamGaRlLrewllqPltdleeInaRldaVee.leneelreelrellrrlpDleRllsr 86 
                              Tl+ Le+l  +r+ + + sLlg+ d+T TamGaRlL++ ++ Pl dl+eIn+Rld+++  + n++l +e r++l +++D+eR+l++
  PHY93_00750|PHY93_00750 284 TLTGLEVLPRSRE-TYKESLLGFFDKTETAMGARLLKTLFSTPLYDLKEINERLDIIQSlIANDSLIKEQRAELSKIRDIERILAK 368
                              8999***876665.6778****************************************9999999999999*************** PP

                              HHTT---HHHHHHHHHHHHHHHTTTTT---SSTHHHHH.........HHHHHHHHHHB-SS--SSGGGS--B-T............ CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.........xxxxxxxxxxxxxxxxxxxxxxxxxxx............ RF
                 MutS_III  87 islgkakardlkallealkaleelvallekeklaesee.........eslaelleeaideeplalekegedlra............ 151
                              +s +k++a+dl +l  a ka +el++l ++       e         ++lae +++++ +e  a+ ++g+ +r+            
  PHY93_00750|PHY93_00750 369 VSMNKGSASDLINLSVATKAYAELMDLSKSLPYRV--ElsvselkklTALAETITKTLNDEIGASLEKGNLIRTgihkerdrlakl 452
                              **********9887777777666666665444333..2346666544456688888888888888888888888999999999999 PP

                              ................................................................................HHHHHH CS
                              ................................................................................xxxxxx RF
                 MutS_III 152 ................................................................................iealeq 157
                                                                                                              +e+le+
  PHY93_00750|PHY93_00750 453 hlnvgdellkmetrlraesgiqklriksnnvtgffievskgstdkvpdnfdrrqtlvnaeryttpeltqleketitaqskLEKLER 538
                              99999**************************************************************************999999* PP

                              HHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 MutS_III 158 elfqelleeveealerlrrlaealaeLDvllSlA 191
                              e+f+el+ +v e +  + +++  +a +D + SlA
  PHY93_00750|PHY93_00750 539 EIFKELITTVHELSLSIMTMSGQIALIDSFQSLA 572
                              **********9999*******************9 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 3.4
                              T CS
                              x RF
                 MutS_III 110 l 110
                              +
  PHY93_00750|PHY93_00750 798 S 798
                              1 PP

>> MutS_IV  MutS family domain IV
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.3   0.3   6.6e-24   1.5e-20       1      91 [.     441     531 ..     441     532 .. 0.96

  Alignments for each domain:
  == domain 1  score: 73.3 bits;  conditional E-value: 6.6e-24
                              TTSHHHHHHHHHHHHHHHHHHHHHCCCCCCCT-TTBEECCCSSSEEEEEE-TCCCTTT--SEEEEEECTCEEEEECCCHHHHHHHH CS
                  MutS_IV   1 gfdeeLdelrdrleelekeleeleekereklgikslkveynkvlGyylevtrseakkvpkefirlqtlknseryttaelkkleael 86 
                              g+++e d l +++ ++ +el ++e ++r+++gi++l++++n+v G+++ev++  ++kvp++f r+qtl n+erytt+el++le+e 
  PHY93_00750|PHY93_00750 441 GIHKERDRLAKLHLNVGDELLKMETRLRAESGIQKLRIKSNNVTGFFIEVSKGSTDKVPDNFDRRQTLVNAERYTTPELTQLEKET 526
                              5778889999999************************************************************************9 PP

                              HHHHH CS
                  MutS_IV  87 leaee 91 
                               +a+ 
  PHY93_00750|PHY93_00750 527 ITAQS 531
                              99985 PP

>> MutS_II  MutS domain II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   3.1e-05     0.069       8     136 ..     144     266 ..     137     267 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 3.1e-05
                              EETTTSEEEEEEEETTTTEEEEEEEEE-HHHHHHHHHH-ESEEEEESS-SCCCHHHHHHCHCTTT-EEEEESCCC.CSHCCHHHHC CS
                  MutS_II   8 ekregrrvGlafiDlstgefvvsefedfeeleaeLsrlsPkElllpedlsestaeeessklrelrsrvgvretve.fesekaserl 92 
                              +  +g+   l+ +D +tg+f+  + + fe++   L  ++P+E +      e+    ++++l ++  +++   +ve f  ++++  +
  PHY93_00750|PHY93_00750 144 K--KGQVHFLVALDFTTGDFRGFKYQSFEDFIEGLRMIAPREFITFMGQWEE---CDIESLLSHYGVLKTHLSVEyFTPKFSEIYI 224
                              4..666667899********************************99887554...689*************998878888888888 PP

                              HHHB--STTTTTTTGGG-HHHHHHHHHHHHHCCCCCSCCCCT-C CS
                  MutS_II  93 eedfsvedldgfglekekklalaAlgalisYleetqkekelshl 136
                              e+   + + d++ l k+ +  l+A+gal  Y+  tq+ +++ h+
  PHY93_00750|PHY93_00750 225 EKLIPGFKRDKI-L-KLDEDILSAIGALAFYVCSTQLLESFMHI 266
                              777655555554.3.66788999*************99888887 PP

>> AAA_27  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   6.8e-05      0.15      17      46 ..     613     641 ..     609     651 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 6.8e-05
                   AAA_27  17 rsldfsaeeadlhliyGpNEAGKstalrAi 46 
                              + l+++ e+  + li GpN AGK+t++r +
  PHY93_00750|PHY93_00750 613 HDLHLD-EKVYFGLITGPNMAGKTTVMREV 641
                              567776.68899**************9843 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0       4.1   9.1e+03      50      75 ..     542     570 ..     515     592 .. 0.54
   2 ?   10.8   0.0   0.00017      0.39       6      76 ..     625     712 ..     622     741 .. 0.66

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 4.1
                   AAA_14  50 ekllelileklke.....ekktylflDEiqe 75 
                              ++l++ + e+  +        ++ ++D  q 
  PHY93_00750|PHY93_00750 542 KELITTVHEL--SlsimtMSGQIALIDSFQS 570
                              2222222222..0222223455566665555 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 0.00017
                   AAA_14   6 vitGaRrvGKTtllkqlikell......vkkesilyinldderdkkladpe.......kllelileklke.......ekktylflD 71 
                              +itG+  +GKTt++++++  +l        + ++  + l d  +++l  ++       +++ ++ e   +        +k++++lD
  PHY93_00750|PHY93_00750 625 LITGPNMAGKTTVMREVAIIQLlaqmgsFVPAKVARLGLCDFLFSRLGASDdilkgqsTFMVEMAE---TaeilrhaTGKSLIILD 707
                              79**************97766667777755566666666665554433332122222222222222...13445567899****** PP

                   AAA_14  72 Eiqev 76 
                              E+ + 
  PHY93_00750|PHY93_00750 708 EVGRG 712
                              *9765 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -8.7  11.9         8   1.8e+04     175     175 ..     427     427 ..     293     609 .. 0.56
   2 ?   10.5   0.0   0.00028      0.63      23      37 ..     625     639 ..     592     644 .. 0.83
   3 ?    0.4   0.1      0.36   8.1e+02     120     167 ..     795     861 ..     721     881 .] 0.48

  Alignments for each domain:
  == domain 1  score: -8.7 bits;  conditional E-value: 8
                   AAA_23 175 l 175
                              +
  PHY93_00750|PHY93_00750 427 E 427
                              1 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 0.00028
                   AAA_23  23 lItGpNGaGKTTild 37 
                              lItGpN aGKTT+++
  PHY93_00750|PHY93_00750 625 LITGPNMAGKTTVMR 639
                              9***********986 PP

  == domain 3  score: 0.4 bits;  conditional E-value: 0.36
                   AAA_23 120 fisellgskkiilnlilflgqer.......feefelkdkke.....................rleelekeleeled 167
                              + ++ l+++++il+++   +          +         +                      l+ele+el ++  
  PHY93_00750|PHY93_00750 795 LPQSVLKRSQEILHQLETSHHTPildqkayE---------KsqanssqlcflpdlkaevvpaYLKELEQELTKIDV 861
                              3333333333333332222222222211110.........011223334444444444333344444444333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (881 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       619  (0.0345251); expected 358.6 (0.02)
Passed bias filter:                      426  (0.0237604); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.70u 0.24s 00:00:00.94 Elapsed: 00:00:00.39
# Mc/sec: 6750.22
//
Query:       PHY93_00755|PHY93_00755  [L=224]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00012   21.8   0.2      0.003   17.4   0.1    2.9  3  DUF5633   Family of unknown function (DUF5633)
  ------ inclusion threshold ------
      0.079   11.7   0.0       0.17   10.6   0.0    1.5  1  DUF790    Protein of unknown function (DUF790)


Domain annotation for each model (and alignments):
>> DUF5633  Family of unknown function (DUF5633)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.1   3.4e-07     0.003      14      37 ..      18      41 ..      18      43 .. 0.89
   2 ?   -0.9   0.0      0.18   1.6e+03      20      36 ..     138     154 ..     134     156 .. 0.86
   3 ?   -0.1   0.0     0.096   8.6e+02      18      37 ..     179     200 ..     177     202 .. 0.75

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 3.4e-07
                  DUF5633 14 kkALendpiNnsYevaqgadGryy 37
                             kk++    +++sY+++++adG+++
  PHY93_00755|PHY93_00755 18 KKDIHPRTLKESYNISKQADGKWF 41
                             677777789**************9 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.18
                  DUF5633  20 dpiNnsYevaqgadGry 36 
                              + + + Y +++  +G +
  PHY93_00755|PHY93_00755 138 HRVEETYIISKTPNGEW 154
                              678899******9*999 PP

  == domain 3  score: -0.1 bits;  conditional E-value: 0.096
                  DUF5633  18 en..dpiNnsYevaqgadGryy 37 
                              +   ++iN+s  v++   Gr +
  PHY93_00755|PHY93_00755 179 KRlaNKINKSDPVFESNGGRVF 200
                              555589***9999888888866 PP

>> DUF790  Protein of unknown function (DUF790)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   1.9e-05      0.17     133     175 ..      10      54 ..       6      83 .. 0.83

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 1.9e-05
                   DUF790 133 eenkiLtefeeitpeeLlkrYNls.lvqtlLfkatelrirvsd.a 175
                              ee +iL   ++i+p++L + YN+s ++++  fkat+l +++++ +
  PHY93_00755|PHY93_00755  10 EEFRILGYKKDIHPRTLKESYNISkQADGKWFKATKLGLHAHStT 54 
                              6667888889*************8689*************99943 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (224 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       482  (0.0268838); expected 358.6 (0.02)
Passed bias filter:                      339  (0.0189079); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.19s 00:00:00.63 Elapsed: 00:00:00.36
# Mc/sec: 1861.99
//
Query:       PHY93_00760|PHY93_00760  [L=184]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.5e-13   50.5   8.3    3.3e-13   50.1   8.3    1.1  1  RDD       RDD family


Domain annotation for each model (and alignments):
>> RDD  RDD family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.1   8.3   1.8e-17   3.3e-13       5     141 .]       9     141 ..       7     141 .. 0.87

  Alignments for each domain:
  == domain 1  score: 50.1 bits;  conditional E-value: 1.8e-17
                      RDD   5 grRllAfliDlvllliislllallivall.....nakasaneavagslllllllvlllvllvyqllllsk.kgqTlGklllglkvv 84 
                               +R+ A+ +D++++++++++l++ ++  l          a+++  + l+++ +++l+ + ++y+ ++    +g T Gk  +glkvv
  PHY93_00760|PHY93_00760   9 KKRIYALTTDFFIVVVTNYFLMASFTNFLktvffHFPIHAQLFLVHKLAMMTSVSLVSLTFAYFSIFYFVtNGRTMGKTFFGLKVV 94 
                              79***********************9977888876677777888888888888888888888888887777*************** PP

                      RDD  85 dedgrklglaqaliRalllllllvlglslvlllllligflfvlfsrkrqalhDklag 141
                              ++dg +l+l+q++ Ra+          +l+ +++  + f++ +++++ ++l D+l+g
  PHY93_00760|PHY93_00760  95 SADG-ELTLKQSMQRAF---------AYLSCAMFGSFLFALSFIRKDDKSLADILSG 141
                              *888.59**********.........788888888888899999*********9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (184 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       725  (0.0404373); expected 358.6 (0.02)
Passed bias filter:                      264  (0.0147247); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.20s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 1408.93
//
Query:       PHY93_00765|PHY93_00765  [L=156]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.1e-28   98.5   1.1    3.5e-28   98.3   1.1    1.0  1  Ferritin  Ferritin-like domain


Domain annotation for each model (and alignments):
>> Ferritin  Ferritin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   98.3   1.1     2e-32   3.5e-28       3     136 ..      20     156 .]      18     156 .] 0.96

  Alignments for each domain:
  == domain 1  score: 98.3 bits;  conditional E-value: 2e-32
                              HHHHHHHHHHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS....SHHHHHHC-SSSS..CS.SHHHHH CS
                 Ferritin   3 aLneqladeltaayqylamawyvkgpgleglaeffdeqaeeerehadklaerilalGgtpvltraeleeieapke..fg.sveevl 85 
                               L + lad +t+++++++++w+v gp++++l+ +f+ q++e     d++aeri+alG +++++++e+ ++ ++ke   + s+ +++
  PHY93_00765|PHY93_00765  20 GLSHFLADSYTLYLKTHNFHWNVTGPMFQTLHTMFEGQYQELALAVDEIAERIRALGVKAPASYQEFMKLTTVKEniNElSAMQMV 105
                              578889***************************************************************98888888778****** PP

                              HHHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHHHHHHH CS
                 Ferritin  86 eaalehekkvteslrelielaeeegDpatadfledfleeqeeheweleall 136
                              +++++ +++v+++ r l  ++ e++D  tad+l + l+ +e+ +w+l+++l
  PHY93_00765|PHY93_00765 106 AELVHGHETVIKTARGLFSMVTEAHDEPTADILIQRLKVHEKTAWMLRSML 156
                              ***********************************************9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (156 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       736  (0.0410508); expected 358.6 (0.02)
Passed bias filter:                      499  (0.027832); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.38
# Mc/sec: 1217.84
//
Query:       PHY93_00770|PHY93_00770  [L=249]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.7e-07   30.8  17.2    1.7e-07   30.8  17.2    2.1  2  Zip       ZIP Zinc transporter
  ------ inclusion threshold ------
        3.3    8.0  12.2        3.3    8.0   0.2    3.3  3  DUF3119   Protein of unknown function (DUF3119)


Domain annotation for each model (and alignments):
>> Zip  ZIP Zinc transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   1.6     0.032   2.8e+02      11      64 ..      14      68 ..       4      96 .. 0.61
   2 !   30.8  17.2   1.9e-11   1.7e-07     185     291 ..     106     210 ..     100     213 .. 0.94

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.032
                      Zip 11 ililsllgllgpllvpkiskl.lsklllslllafavGvllgtaflhLlPealeal 64
                               i++++g ++ ++ ++ ++   +++l +l l f vG ll t   +L P  +e  
  PHY93_00770|PHY93_00770 14 ASIATVFGAFLIFFNDNFNFKfNKDSLSKLRLDFFVGLLLTTTAASLYPATFERN 68
                             3333333333333344444446666777777778889999999999999888865 PP

  == domain 2  score: 30.8 bits;  conditional E-value: 1.9e-11
                      Zip 185 raiilllglilHsfidGLAlG...vssssstgislfiAvllHelpeelglgaiLlkaglsrkkavllnllfaltaplGiliGilvr 267
                              rai+++l ++l +++ GLA G     s s  g sl++A+++H+l+ + +l+++ l+ g+++  a++ ++l++++++++ l+G +  
  PHY93_00770|PHY93_00770 106 RAILFILVVMLKNIPVGLAAGaamNLSHSGVGNSLLAALVFHNLFDGTALVLCFLSLGFDSLIAIMGAVLVSVVTIVASLFGSF-- 189
                              899******************8655566667889**************************************************.. PP

                      Zip 268 sisessgaeivsgillalsaGtfl 291
                                  s  ++++ ++++a+++G ++
  PHY93_00770|PHY93_00770 190 ---LSLESLNILPLIMAFAGGALM 210
                              ...9*****************997 PP

>> DUF3119  Protein of unknown function (DUF3119)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   0.2   0.00037       3.3      20      55 ..       6      41 ..       1      48 [. 0.82
   2 ?    2.7   0.7     0.016   1.5e+02       4      41 ..      44      85 ..      41      99 .. 0.79
   3 ?    4.4   1.0    0.0048        43      22      45 ..     168     197 ..     150     222 .. 0.75

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.00037
                  DUF3119 20 llllqlvlgllvallglfllvQtvrlrlqfteeale 55
                             l l+   ++ + +++g fl++   +  ++f++++l+
  PHY93_00770|PHY93_00770  6 LGLIGGAVASIATVFGAFLIFFNDNFNFKFNKDSLS 41
                             555556788999*********************997 PP

  == domain 2  score: 2.7 bits;  conditional E-value: 0.016
                  DUF3119  4 epsyrlplvllllglallll....qlvlgllvallglfllvQ 41
                             + ++ + l+l++++++l ++    ++ lg++  +lg+++l+ 
  PHY93_00770|PHY93_00770 44 RLDFFVGLLLTTTAASLYPAtferNINLGIAAFILGVLFLIL 85
                             567889999999998888887777677999999999988764 PP

  == domain 3  score: 4.4 bits;  conditional E-value: 0.0048
                  DUF3119  22 ll......qlvlgllvallglfllvQtvrl 45 
                              ++       +v++++ +l+g+fl + ++++
  PHY93_00770|PHY93_00770 168 IAimgavlVSVVTIVASLFGSFLSLESLNI 197
                              22223333567999*********9988776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (249 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1035  (0.0577277); expected 358.6 (0.02)
Passed bias filter:                      342  (0.0190752); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.18s 00:00:00.65 Elapsed: 00:00:00.37
# Mc/sec: 2020.68
//
Query:       PHY93_00775|PHY93_00775  [L=588]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-96  323.4   0.0    2.5e-96  322.5   0.0    1.4  1  tRNA-synt_2      tRNA synthetases class II (D, K and N)
    8.1e-14   51.6   0.1    1.6e-13   50.7   0.1    1.5  1  GAD              GAD domain
    1.1e-10   41.3   0.1    4.1e-10   39.5   0.0    2.0  2  tRNA_anti-codon  OB-fold nucleic acid binding domain
      9e-06   25.3   0.4     0.0076   15.8   0.1    3.0  3  tRNA-synt_2d     tRNA synthetases class II core domain (F)
  ------ inclusion threshold ------
      0.011   15.7   0.0       0.02   14.9   0.0    1.4  1  tRNA-synt_2b     tRNA synthetase class II core domain (G, H, 


Domain annotation for each model (and alignments):
>> tRNA-synt_2  tRNA synthetases class II (D, K and N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  322.5   0.0  6.9e-100   2.5e-96       2     313 ..     121     561 ..     120     562 .. 0.98

  Alignments for each domain:
  == domain 1  score: 322.5 bits;  conditional E-value: 6.9e-100
                              CCHHHHTHHHHCCSHHHHHHHHHHHHHHHHHHHHHHHTT-EE----SEESS--SSSS--EEEEETTT.TEEE-E-S-SHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              tRNA-synt_2   2 eelrlknryldlrtekvskvlrlrstvtkavrkyleengfieietPiLsksdteegarlFkvksrekekeffaLtqspqlylelli 87 
                              e+lrlk+ryldlrt+k++++l lrs+ ++ +r+ l++++f+e+etPiL ks t+egar++ v+sr+++++ +aL+qspq  ++ll+
  PHY93_00775|PHY93_00775 121 EDLRLKYRYLDLRTKKLQDILLLRSRTMNKIRSLLTDENFVEVETPILYKS-TPEGARDYIVPSRVHPGQVYALPQSPQTLKQLLM 205
                              789************************************************.********************************** PP

                              HCTHSEEEEEEEEE--S--BTTB-S-CEEEEEEEEET-SCHHHHHHHHHHHHHHHHHHHHCSCCCCCHTTTTTSEE-SSS-EEEEH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              tRNA-synt_2  88 vagidrvfqiaraFRaEdsrtdrhlaEFtqieaemsfieeedimqvleelikslvkevlessakdiefvirrnskdlkkpfkrlty 173
                              ++g d++fqi r+FR+Ed+r+dr++ EF q+++e+sf+++e + +++e+++k++++     s             +++  ++ +ty
  PHY93_00775|PHY93_00775 206 IGGTDKYFQICRCFRDEDLRADRQP-EFSQVDMEISFATQEYMKNLVEKMLKKIFDLE---S-------------NFT--LPMMTY 272
                              *************************.*****************************866...2.............233..899*** PP

                              HHHHHHHHTS-SS--HHHHHHHHH.............................................................. CS
                              xxxxxxxxxxxxxxxxxxxxxxxx.............................................................. RF
              tRNA-synt_2 174 keaieklneigkdldkaderalvk.............................................................. 197
                              k+a+++     +++dk+d r+ +k                                                              
  PHY93_00775|PHY93_00775 273 KDAMNI-----YGCDKPDVRFALKqiiatdifkdsdfatfatvananglikamfipesmgqfsrkdtdsfvevvkphggkgvafyk 353
                              ******.....*************************************************************************** PP

                              ...............................................................HS--SEEEEEEEB.......... CS
                              ...............................................................xxxxxxxxxxxxx.......... RF
              tRNA-synt_2 198 ...............................................................keknepvfvtdfP.......... 210
                                                                                               ++ +++v+dfP          
  PHY93_00775|PHY93_00775 354 lakgerstgiskfitdeiekklftlsevqgdgtwlffadnthsvahasadalrrnlghklnliGAGKAFLWVYDFPllewseeagr 439
                              ***************************************************************99********************* PP

                              ..GGGSTTCBBBSTTS................TTBBSEEEEEETTEEEEEEEEB--SHHHHHHHHHHCCHH.SSSGGGGHHHHHHH CS
                              ..xxxxxxxxxxxxxx................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxx RF
              tRNA-synt_2 211 ..aelkpFyarkeedd................kkltesyDllingvElvgGslRiedpeeleeklkskgld.eeaeekfswyleal 277
                                a ++pF+++++++                 k ++e+yD+++ng+E++gGs+Ri d+ ++ +++k  g++ ee++ +f++++eal
  PHY93_00775|PHY93_00775 440 ftACHHPFTMPSRDKLdvfmnadhkdpngplgKLTAEAYDVVCNGYEIGGGSIRIYDQSVQDRMFKVLGFTpEETKGQFGFFIEAL 525
                              *************9999********************************************************************* PP

                              HCT--SEEEEEEEHHHHHHHHCT-SSGGGCSSS-XX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              tRNA-synt_2 278 eyGapphgGlglGldRlvmlllgsesIrdviaFPkl 313
                              +yG+pphgGl++GldRl+m+l+g++sIrdviaFPk+
  PHY93_00775|PHY93_00775 526 KYGVPPHGGLAFGLDRLIMILTGTDSIRDVIAFPKT 561
                              **********************************97 PP

>> GAD  GAD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.7   0.1   4.4e-17   1.6e-13       1      94 [.     307     400 ..     307     401 .. 0.96

  Alignments for each domain:
  == domain 1  score: 50.7 bits;  conditional E-value: 4.4e-17
                              HHHHHHSTEEEEEEEETTG-TTTSHHHHHHHHHHHHHTTHSHCEEEEESSGGEETTTCCCS-HHHHHHHHHHCT--TTEEEEEEEE CS
                      GAD   1 fsealksggsvkalrvpggaaklsrkeideleefakelgakglawikvegegltgpiakflteeevkklleavgaeegDillfvAd 86 
                              f+ +++ +g +ka+ +p+ + ++srk+ d   e++k +g kg a+ k+ +++ + +i+kf+t e +kkl+   +++ + + lf Ad
  PHY93_00775|PHY93_00775 307 FATVANANGLIKAMFIPESMGQFSRKDTDSFVEVVKPHGGKGVAFYKLAKGERSTGISKFITDEIEKKLFTLSEVQGDGTWLFFAD 392
                              6778899******************************************************************************* PP

                              EHHHHHHH CS
                      GAD  87 kkktvnka 94 
                              ++ +v+ a
  PHY93_00775|PHY93_00775 393 NTHSVAHA 400
                              *9888765 PP

>> tRNA_anti-codon  OB-fold nucleic acid binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.5   0.0   1.1e-13   4.1e-10       1      76 []      18     101 ..      18     101 .. 0.90
   2 ?   -2.0   0.0         1   3.7e+03      13      25 ..     344     356 ..     306     375 .. 0.68

  Alignments for each domain:
  == domain 1  score: 39.5 bits;  conditional E-value: 1.1e-13
                              EEEEEEEEEEEEEEETTEEEEEEEETTEEEEEEEET.HHHHHHHTTS-TTSEEEEEEEEEEC.........TTSSEEEEEEEEEEE CS
          tRNA_anti-codon   1 VtvaGrvtsisdrsggkvifidlrDgtgriqvvlfr.eeatklaenlkeGdvvrvtGrvkrr.........pggelelkveeiell 76 
                              Vt++G+v ++  r+ g++ fidlrD+ g  q+ + + ++  + +++   ++v+++tG + +r         ++g +e++v+e+++l
  PHY93_00775|PHY93_00775  18 VTLCGWVNKY--RNLGSLHFIDLRDKYGVTQLGFVNfKGNIDELKKCSLESVIQITGVIVARppeaqnanmETGAIEVQVTELSIL 101
                              89********..************************99999999999***************7666555544449******99886 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 1
                              EEETTEEEEEEEE CS
          tRNA_anti-codon  13 rsggkvifidlrD 25 
                               +g++v+f++l  
  PHY93_00775|PHY93_00775 344 HGGKGVAFYKLAK 356
                              4566677766655 PP

>> tRNA-synt_2d  tRNA synthetases class II core domain (F)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.1   2.1e-06    0.0076      99     158 ..     207     264 ..     194     273 .. 0.77
   2 ?   -1.3   0.0      0.35   1.3e+03     160     174 ..     439     453 ..     421     467 .. 0.69
   3 !    6.0   0.0    0.0021       7.5     211     235 ..     534     556 ..     522     561 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 2.1e-06
                              -SSEEEEEEEEEEBSST-SSSB-SEEEEEEEEEEETT--HHHHHHHHHHHHHHHCTSTEE CS
             tRNA-synt_2d  99 kppikiisigrvfRrdavDathlaeFhqveglvvdenvsladlkgvleellkklfgaevk 158
                                  k++ i r+fR +++ a +++eF qv++ +     + + +k ++e++lkk+f+ e +
  PHY93_00775|PHY93_00775 207 GGTDKYFQICRCFRDEDLRADRQPEFSQVDMEISF--ATQEYMKNLVEKMLKKIFDLESN 264
                              55679***********************9975533..44556788899999999988755 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 0.35
                              EEEECEETTEEEEEE CS
             tRNA-synt_2d 160 rfrpsyfpftePsae 174
                              rf   + pft Ps +
  PHY93_00775|PHY93_00775 439 RFTACHHPFTMPSRD 453
                              666667777777754 PP

  == domain 3  score: 6.0 bits;  conditional E-value: 0.0021
                              EEEEEEEHHHHHHHHHT-SSGHHHH CS
             tRNA-synt_2d 211 gfafGlGveRlamlkygieDiRelv 235
                              g+af  G++Rl m+ +g + iR+++
  PHY93_00775|PHY93_00775 534 GLAF--GLDRLIMILTGTDSIRDVI 556
                              4555..67**************986 PP

>> tRNA-synt_2b  tRNA synthetase class II core domain (G, H, P, S and T)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.0   5.6e-06      0.02      38     106 ..     211     277 ..     210     412 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 5.6e-06
                              EEEEEEEEEBTTTSTBCTTTB-SEEEEEEEEEEES.GGGHHHHHHHHHHHHHHHHHHTT.SCEEEEEEGT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             tRNA-synt_2b  38 klyqiqtkyRdEksdsrGLlRvreFhqkdgyvfha.easlddslrdlikaisriferlglefraiielms 106
                              k++qi++++RdE        R+ eF q d ++  a ++ +++ +++++k+i ++ +++ l++   +  m+
  PHY93_00775|PHY93_00775 211 KYFQICRCFRDEDL-RAD--RQPEFSQVDMEISFAtQEYMKNLVEKMLKKIFDLESNFTLPMMTYKDAMN 277
                              689*********97.335..999*******986666999*******999988777777666554444455 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (588 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       434  (0.0242066); expected 358.6 (0.02)
Passed bias filter:                      412  (0.0229795); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.62u 0.23s 00:00:00.85 Elapsed: 00:00:00.44
# Mc/sec: 4005.54
//
Query:       PHY93_00780|PHY93_00780  [L=169]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-18   66.6   0.0    2.3e-18   66.2   0.0    1.2  1  DUF192    Uncharacterized ACR, COG1430


Domain annotation for each model (and alignments):
>> DUF192  Uncharacterized ACR, COG1430
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.2   0.0   1.3e-22   2.3e-18       2      95 ..      43     153 ..      42     154 .. 0.86

  Alignments for each domain:
  == domain 1  score: 66.2 bits;  conditional E-value: 1.3e-22
                              EEEEE-SHHHHHHTTTT..-----TTEEEEEEECCEEEEEE--TT--S-EEEEEE-TTSBEEEEEEEE-TT.....-......... CS
                   DUF192   2 tvevAdteeerarGLmg..reslpedegmlfvfdkerehsfwMkntripLdiifldadgriveieealkpq.....s......... 71 
                              ++ +A t +++ +GL+g   +++++++gmlfv ++   + fwM +t+++Ldiifld + +iv ie+++ p      +         
  PHY93_00780|PHY93_00780  43 ELDLALTRNQHTQGLSGlkSNDFKDSRGMLFVNPEVGLRRFWMPDTYFNLDIIFLDPNLKIVGIEKNV-PAhpgnsEppaiyktdt 127
                              578999**********95446899*******************************************9.66465550555555666 PP

                              ..ECEEEEEETTHHHHHT--TT-EEE CS
                   DUF192  72 ..vryvLElpaGaakklgikpGdrle 95 
                                +++vLE +aGaa   ++k+ d+l+
  PHY93_00780|PHY93_00780 128 ysAQFVLETKAGAAFGKKLKKNDQLK 153
                              66888******************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (169 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       205  (0.011434); expected 358.6 (0.02)
Passed bias filter:                      191  (0.0106531); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.18s 00:00:00.57 Elapsed: 00:00:00.34
# Mc/sec: 1473.09
//
Query:       PHY93_00785|PHY93_00785  [L=270]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.2e-07   31.4   0.0    1.2e-07   31.4   0.0    2.7  3  DivIC          Septum formation initiator
  ------ inclusion threshold ------
       0.22   11.9   0.1       0.22   11.9   0.1    3.4  3  DUF4124        Domain of unknown function (DUF4124)
       0.27    9.7   5.4        0.3    9.5   5.4    1.1  1  Peptidase_S64  Peptidase family S64
       0.31    9.8   4.9       0.39    9.4   4.9    1.4  1  Presenilin     Presenilin
        1.3    7.6   9.7        1.6    7.4   9.7    1.2  1  Ndc1_Nup       Nucleoporin protein Ndc1-Nup


Domain annotation for each model (and alignments):
>> DivIC  Septum formation initiator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.2       0.4   1.4e+03      35      50 ..      47      62 ..      34      72 .. 0.52
   2 ?   -4.5   7.2         5   1.8e+04      32      46 ..      77      91 ..      61     105 .. 0.54
   3 !   31.4   0.0   3.4e-11   1.2e-07       1      79 [.     189     267 ..     189     268 .. 0.96

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 0.4
                             HHHHHHHHHHHHHCC- CS
                    DivIC 35 klkaeneeLeaevkdL 50
                             + + +ne+L + +++ 
  PHY93_00785|PHY93_00785 47 TTTITNERLRKAIEKN 62
                             4444444444444443 PP

  == domain 2  score: -4.5 bits;  conditional E-value: 5
                             HHHHHHHHHHHHHHH CS
                    DivIC 32 elaklkaeneeLeae 46
                               a+ ++++++ +++
  PHY93_00785|PHY93_00785 77 AQAEAQQQQQQYTEQ 91
                             333333333333332 PP

  == domain 3  score: 31.4 bits;  conditional E-value: 3.4e-11
                              XXXXXXXXXXXXXXXXXHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC-XXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                    DivIC   1 llllfllllifgkkgllaykqlkqeiaalqaelaklkaeneeLeaevkdLksdedyieerARselglvkpgEtvyrvve 79 
                              ++++++l lif  +g+ +++++++   +   el+++k+en++L +e+++++ d ++ ++  R+ lg++  +E  + +++
  PHY93_00785|PHY93_00785 189 FCAVMILRLIFAQGGVTDFYSQRSLHSDRLTELERIKKENMQLVHEIERMQTDTAFQKKLVRDNLGFIAADEFLVLFPK 267
                              68999*********************************************99********************9988876 PP

>> DUF4124  Domain of unknown function (DUF4124)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   2.7       1.6   5.7e+03      51      55 ..      27      31 ..      15      43 .. 0.40
   2 ?   11.9   0.1   6.2e-05      0.22      19      56 .]      43      86 ..      41      86 .. 0.94
   3 ?   -0.1   5.9      0.33   1.2e+03      34      55 ..      97     118 ..      88     138 .. 0.90

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 1.6
                  DUF4124 51 paaaa 55
                             +++++
  PHY93_00785|PHY93_00785 27 ETPPQ 31
                             11111 PP

  == domain 2  score: 11.9 bits;  conditional E-value: 6.2e-05
                  DUF4124 19 DanGvvhysdqP......ppdgkqaeqvetapppsaaapaaaaa 56
                             D+ G+++ ++        + +++qae+  t+p++++a+++++++
  PHY93_00785|PHY93_00785 43 DEIGTTTITNERlrkaieKNRARQAERNRTHPQAAQAEAQQQQQ 86
                             788**********************************9999985 PP

  == domain 3  score: -0.1 bits;  conditional E-value: 0.33
                  DUF4124  34 gkqaeqvetapppsaaapaaaa 55 
                               +q+e+ ++++++++++p++++
  PHY93_00785|PHY93_00785  97 KQQQESPSSDKSAAQDPPPRPR 118
                              6899999999999999999886 PP

>> Peptidase_S64  Peptidase family S64
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   5.4   8.3e-05       0.3      18     128 ..      29     137 ..      11     251 .. 0.61

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 8.3e-05
            Peptidase_S64  18 ekkslepsksnskskesgesssslkelrpifesekaseeessaeedsstelaesssekssskqssSlfSksrktystkqssaksss 103
                                + +++++s  +++e g ++ + ++lr+ +e+++a++ e+++++ ++++ ae+++++++ +++ S f k+++ + +++ sa+++ 
  PHY93_00785|PHY93_00785  29 PPQPIQQAQSAPSNDEIGTTTITNERLRKAIEKNRARQAERNRTHPQAAQ-AEAQQQQQQYTEQASFFDKQQQESPSSDKSAAQDP 113
                              34455566666666666666667888888888877777666666666666.66777777777889****98888877777777776 PP

            Peptidase_S64 104 skakksssvakaedvgkplrvlete 128
                                  + ++     +++k   v++ +
  PHY93_00785|PHY93_00785 114 PPRPRAQER-AHASTSKTAAVVTRR 137
                              654444333.333334444444322 PP

>> Presenilin  Presenilin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4   4.9   0.00011      0.39     232     288 ..      61     113 ..      11     201 .. 0.54

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.00011
               Presenilin 232 vaeseeeeeaekkkeeasesskeeeseeesseksaqsse..seeeseeesseaessaee 288
                              ++ ++++e+++++ ++a+ + ++++++ +++       +  +++++e+ ss+++++++ 
  PHY93_00785|PHY93_00785  61 KNRARQAERNRTHPQAAQAEAQQQQQQYTEQA------SffDKQQQESPSSDKSAAQDP 113
                              11111111111111111111111111111111......111111111111111111111 PP

>> Ndc1_Nup  Nucleoporin protein Ndc1-Nup
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.4   9.7   0.00044       1.6     350     454 ..      14     137 ..       8     250 .. 0.53

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.00044
                 Ndc1_Nup 350 inergqpapkaaps...kapknkasapvkelprlsksplkkk.ddeifgn..............sltaeaspkssssskegvekal 417
                              +++ +qp+ +a+++   ++ ++++sap+++++ +++   +++ ++ i +n              +++  ++++++++ ++++ +++
  PHY93_00785|PHY93_00785  14 LRSGSQPTGPAKQEtppQPIQQAQSAPSNDEIGTTT-ITNERlRKAIEKNrarqaernrthpqaAQAEAQQQQQQYTEQASFFDKQ 98 
                              555555333333333332223333333333333331.1122222222222444445555555533333344444555555555555 PP

                 Ndc1_Nup 418 sslakspgqs..psptarlsprarkllekaksrllskeq 454
                              ++ ++s  +s  + p++r ++++r + +++k++++   +
  PHY93_00785|PHY93_00785  99 QQESPSSDKSaaQDPPPRPRAQERAHASTSKTAAVVTRR 137
                              555555555555444444334444444444444433222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (270 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2276  (0.126945); expected 358.6 (0.02)
Passed bias filter:                      717  (0.0399911); expected 358.6 (0.02)
Passed Vit filter:                        92  (0.00513135); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.59u 0.27s 00:00:00.86 Elapsed: 00:00:00.40
# Mc/sec: 2015.07
//
Query:       PHY93_05775|PHY93_05775  [L=40]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (40 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       364  (0.0203023); expected 358.6 (0.02)
Passed bias filter:                      230  (0.0128284); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.35u 0.23s 00:00:00.57 Elapsed: 00:00:00.38
# Mc/sec: 313.76
//
Query:       PHY93_00790|PHY93_00790  [L=306]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (306 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       425  (0.0237046); expected 358.6 (0.02)
Passed bias filter:                      376  (0.0209716); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.38
# Mc/sec: 2385.42
//
Query:       PHY93_00795|PHY93_00795  [L=293]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.7e-16   60.6  29.6    2.3e-16   60.2  29.6    1.2  1  Virul_fac_BrkB  Virulence factor BrkB
  ------ inclusion threshold ------
       0.77    9.7   2.3        1.2    9.0   1.2    1.9  1  NDUF_B4         NADH-ubiquinone oxidoreductase B15 subunit (N


Domain annotation for each model (and alignments):
>> Virul_fac_BrkB  Virulence factor BrkB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.2  29.6   2.5e-20   2.3e-16       3     258 .]      13     289 ..      11     289 .. 0.78

  Alignments for each domain:
  == domain 1  score: 60.2 bits;  conditional E-value: 2.5e-20
           Virul_fac_BrkB   3 ddlsllAaalayytllSlfPlllvllavlgl.lglddelqeqlldllaevlpegaaevvedilqrllnqa.....slgllglavll 82 
                              +++++lA++ ++y+l++++P+ l+++  +g+ lg+ d++q+ ++   ++++p+ +a +++  lq+l +++     ++++l +++l 
  PHY93_00795|PHY93_00795  13 KKGTTLASSASFYALITIVPFALLMVRGIGYfLGNLDKTQKYIFLIGSQFFPD-IAPQLMMRLQALIKGPlfagtNFTVLNFLFLA 97 
                              67899**************************8777889999999999999887.77777777777776655544589999999999 PP

           Virul_fac_BrkB  83 wsasggvsalrralnkiygveesrs...flrkrllsllllllllvllllslvlsvflqslllasa.................pllg 148
                              +s + +++++  ++  i + ++  s   +l+++++  + ll+++++++l  v++ ++++l+ + a                 ++l 
  PHY93_00795|PHY93_00795  98 VSTITFLNSIWMGIFFITDDKSILSlwrILKGFVIIGMTLLMFGLIFILPPVIIYIIKFLQSN-AlthffyanfeflrpvmnFFL- 181
                              999999999999999999887754522233444444444445555555544445555554444.359999999987775532222. PP

           Virul_fac_BrkB 149 lglelsellllqllrwlvallllvlafallYrvlpnvkvrlraalpGallaallwllvkilfslylsnfa.synaiYGslgaliil 233
                                 +l++  ++   ++ + + +l++ f++lYr+l   k +l++a+++a++ +l+++l+k +f +y+ ++  s    YG l + +  
  PHY93_00795|PHY93_00795 182 -KVNLKKS-YWLNSNI-LHITILIVYFTALYRWLFLWKIQLHEAFVAAMAFSLSVFLGKSIFWIYIYYVRtSLMRNYGDLYTTVMG 264
                              .2233333.6777777.78889999*******************************************994559************ PP

           Virul_fac_BrkB 234 llWlylsalilLlGaelnaelqerr 258
                              ++Wl++++ ++++Ga ++  ++err
  PHY93_00795|PHY93_00795 265 VIWLFYLMCFFFYGACVCHIYKERR 289
                              *****************99999875 PP

>> NDUF_B4  NADH-ubiquinone oxidoreductase B15 subunit (NDUFB4)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0   1.2   0.00014       1.2      34     103 ..     180     247 ..     174     259 .. 0.78

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.00014
                              HHHHHHHHHHHHHHH-TTT-S----.HHHHHHHHHTTTTHHHH----HHHHHHHHHHHHHHHHHHHHHHHH CS
                  NDUF_B4  34 alrarLKreYllqlndPkrkglied.PallrWvyarsanvypnfrptpktsllGalvgvvpllflyyvlkt 103
                               l+ +LK+ Y l+ n  + + li+   al rW++  + +  + f ++   sl  +++g    +f++y+  +
  PHY93_00795|PHY93_00795 180 FLKVNLKKSYWLNSNILHITILIVYfTALYRWLFLWKIQLHEAFVAAMAFSLS-VFLGKS--IFWIYIYYV 247
                              57899*************9888765389*****************99999988.555544..444444333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (293 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       937  (0.0522617); expected 358.6 (0.02)
Passed bias filter:                      267  (0.0148921); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.40
# Mc/sec: 2197.06
//
Query:       PHY93_00800|PHY93_00800  [L=767]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      1e-39  136.6   0.2    4.4e-39  134.5   0.2    2.1  1  DNA_pol_B       DNA polymerase family B
    1.4e-21   77.0   0.8    1.4e-19   70.4   0.8    2.6  1  DNA_pol_B_exo1  DNA polymerase family B, exonuclease domain
      9e-06   24.8   0.0      0.028   13.3   0.0    2.4  2  DNA_pol_B_2     DNA polymerase type B, organellar and viral
  ------ inclusion threshold ------
      0.014   14.8   0.0      0.054   12.9   0.0    1.7  2  RNase_E_G       Ribonuclease E/G family


Domain annotation for each model (and alignments):
>> DNA_pol_B  DNA polymerase family B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  134.5   0.2   9.9e-43   4.4e-39      19     406 ..     371     714 ..     360     751 .. 0.79

  Alignments for each domain:
  == domain 1  score: 134.5 bits;  conditional E-value: 9.9e-43
                              HHHHHHHTTBE-B-----.--SS.-S----BE----EEESS-EEEEEETTHHHHHHHHTT-STTTCE-HCCHCCT--BTT...TEE CS
                DNA_pol_B  19 LlrlakeegfilpdrtekkgkeeegYqGatVlePkkglydkpvlvlDFaSLYPsiiqahNlcyttlvaseeeakeleaedeyleve 104
                               l  ++e+g+++p+ ++ +  +  + +G++Vl+Pk g+++ +vlv+DF+SLYP +i  + + +  l + e+e++ l+  +      
  PHY93_00800|PHY93_00800 371 FLPPLHEYGYVAPNVADVSYLR--QAKGGFVLNPKVGIHE-NVLVMDFKSLYPTLIETFLIDP--LSRAEREVNPLKTPE------ 445
                              5667899******777773333..59************97.69*************8765544..667777766666533...... PP

                              E-TCC-EEE-TTS---HHHHHHHHHHHHHHHHHHHHHCS--HHHHHHHHHHHHHHHHHHHHHHHHHTSTTSTT--HHHHHHHHHHH CS
                DNA_pol_B 105 veprlvefvkksvregllpklLkdllakRkaikkelkeekdefekalldkqQlalKvtaNsvYGftGvansrlpclalAasvTtiG 190
                                    +f +++ ++ +lp  + +ll +R+++k+e +++ ++           a+K+++Ns+YG++G +  r++  +l a +T +G
  PHY93_00800|PHY93_00800 446 ------DFTFSR-DHHILPGKISELLGRRAKAKAEKNTNLSQ-----------AIKILMNSFYGVMGSSGCRFYQEDLPAAITGTG 513
                              ......444444.4569***************9875554444...........9******************************** PP

                              HHHHHHHHHHHHHT...SSGGGT-SS.....T-EEEEEBSSEEEEE-S-..SSHHHHHHHHHHHHHHHHT......TSTTT--EEE CS
                DNA_pol_B 191 RemLektkelvekkaellskllalpeeaeeeklkviYGDTDSvfielkv..kdveellkigkelaeevsek.....lfkkplklef 269
                              +  L+++ +++e+                  +++v YGDTDS+f++lk+    +ee  ++ k++++ + ek     ++ ++l++++
  PHY93_00800|PHY93_00800 514 QWLLKTVISFLEDL-----------------GFQVLYGDTDSIFVQLKTfeGYAEEGPALVKKVNHFLFEKlqkdfVVVSKLEIQY 582
                              ************87.................9***************98422355666666666666555411112346789**** PP

                              EEEEEEEEEEE........TTEEEEEEEEESSTTS..EEEEESSGGGSTTS-HHHHHHHHHHHHHHSSS....S-HHHHHHHHHHH CS
                DNA_pol_B 270 ekvykkllLis........KKkYaglkvektskan..klliKGvdlvRrdncklvkevikkvlelllkdeteersleeglealksi 345
                              +k +kkl+L+s        KK+Yaglk+ +ts+    +++  G++ vR d+++l+++   ++++++++            e+l+s 
  PHY93_00800|PHY93_00800 583 DKFFKKLILTStrgvgegaKKRYAGLKLLETSDGIkeEMVLTGMEYVRSDWSALARNFQFELIRRVFYG-----------ENLESF 657
                              *********9555555555********99887766435*******************************...........444444 PP

                              HHHHHHHHHTT-S-GGGG-EEEEESS.CCCSSGCCSHHHHHHHHHHHHCSS---TTCEEEE CS
                DNA_pol_B 346 lkdvleeleenkvplekfvlskelskepenyksknlphlevakrlkkrneeapevgdrisY 406
                              +++ l++l + k + + +vlsk+l+k+ e+y ++  ph+++ak l ++++    ++ r +Y
  PHY93_00800|PHY93_00800 658 INQTLKDLIDSKLD-QSLVLSKRLTKPIEEYIKNIPPHAKAAKILFEKKG---ILKKRPQY 714
                              44555777777777.679*************88888****9998877753...34445555 PP

>> DNA_pol_B_exo1  DNA polymerase family B, exonuclease domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.4   0.8   3.2e-23   1.4e-19      58     336 ..      57     287 ..      45     288 .. 0.73

  Alignments for each domain:
  == domain 1  score: 70.4 bits;  conditional E-value: 3.2e-23
                              CEECCTSSCCHHCEEEEEESSTCHHHHHHHHHHHCCCCCCCCSSS--HHHHHHHHCTS-TTCEEEEETEEEEGCC--C-.SEEEEE CS
           DNA_pol_B_exo1  58 kkslygyekkpvpylkvsvsnpnelkkirkelspleeivdvyeydvdylerflidnkivgfgwysvkkylvraegkisncdveidc 143
                              k+s++    + + + kv  +n+ +lk ++k++  ++++ +++e+d+ +ler+l+d+++     ++++       g+ +  d  ++ 
  PHY93_00800|PHY93_00800  57 KQSISMKSLDGIWVEKVLCRNQADLKALKKKF--EDQGLRTFEADIRPLERYLMDQGFYAQ--INIE-------GTSQMVDGILTF 131
                              5556666666666899****************..89*********************9877..7777.......666666666666 PP

                              ETTTSCEETTTCCS-EEEEEEEEEETEETTSEETTTT..--EEEEEEEECCTC.SS.SEEEEEEECCCTSS----EE--SSTCSTT CS
           DNA_pol_B_exo1 144 dvddliakpkesepplrvlsFDIeckskkgkfpdaensedpiiqIscvldglgekepearklftlrecaseeeedfeltpkpeypg 229
                              +++++++ +    p+++++sFDIe+ +k+g++    +        s+ + +       + k+f l+  +               + 
  PHY93_00800|PHY93_00800 132 YNPKIEKGYYY--PEYKIMSFDIET-GKDGRLYSLAY--------SFRSTNFI-----EDKVFMLGPES---------------ST 186
                              66666664433..************.44443444444........44443333.....34889998877...............34 PP

                              EEEEEESSHHHHHHHHHHHHHHH--SEEEESSTTTTHHHHHHHHHHHCCTCCHCG.SCCSCTCEECCCCESEEEEEECEEEETTSE CS
           DNA_pol_B_exo1 230 vkvlefdsEkelLqaflefikqydPdvitgYNidnFDlpYilnRakelykvklsklgrlnkggrskvseigfskqarekvkisgri 315
                               +v+++ +Ek++L+ f e  k+ dPd+ tg+N+  FD+ +++++ k+ +++    lgr   +++ + ++           ++ gr+
  PHY93_00800|PHY93_00800 187 AEVIFCSTEKKILESFQEATKRLDPDIFTGWNVIGFDFHFLEKKSKQFKSPL--YLGRG-NRPLDMYQNARGE----WTMNLEGRV 265
                              69********************************************666543..44544.4555555555444....666777777 PP

                              EEEHHHHHHHHSSSS.G-SHHH CS
           DNA_pol_B_exo1 316 hlDlyrvvkrklklp.sYkLna 336
                              ++D     k ++ +  s kLn 
  PHY93_00800|PHY93_00800 266 IIDGPWALKTNFFTYeSFKLND 287
                              7775433333333324666665 PP

>> DNA_pol_B_2  DNA polymerase type B, organellar and viral
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.0   0.0   0.00013      0.56     200     242 ..     382     422 ..     363     428 .. 0.81
   2 !   13.3   0.0   6.2e-06     0.028     352     384 ..     460     492 ..     438     496 .. 0.88

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.00013
              DNA_pol_B_2 200 apskeldkyiRkayrGGrc.ypsvlgiyeeniyvyDvnSlYPsa 242
                              ap+  + +y R+a  GG++ +p+  gi  en+ v D++SlYP+ 
  PHY93_00800|PHY93_00800 382 APNVADVSYLRQA-KGGFVlNPK-VGI-HENVLVMDFKSLYPTL 422
                              5666667788887.799998999.555.5*************86 PP

  == domain 2  score: 13.3 bits;  conditional E-value: 6.2e-06
              DNA_pol_B_2 352 vdklysaKekakkeknevkrsiaKlllNsLYGr 384
                              +++l  ++ kak ekn   ++ +K+l+Ns YG 
  PHY93_00800|PHY93_00800 460 ISELLGRRAKAKAEKNTNLSQAIKILMNSFYGV 492
                              7889999*************************6 PP

>> RNase_E_G  Ribonuclease E/G family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0      0.51   2.3e+03      48     137 ..     467     563 ..     466     596 .. 0.62
   2 ?   12.9   0.0   1.2e-05     0.054      51     132 ..     614     697 ..     593     712 .. 0.85

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 0.51
                RNase_E_G  48 Rtaaegaseeelekdleelkkkweeileka....kkrkapsllyeeedlllrvlrdllne.dieeivvddkelyeeikeyl..eev 126
                              R +a+ +++++l + ++ l++ +  ++ ++     ++  p+ +    + ll+++  +l++  ++ ++ d+++++ ++k++   +e 
  PHY93_00800|PHY93_00800 467 RAKAKAEKNTNLSQAIKILMNSFYGVMGSSgcrfYQEDLPAAITGTGQWLLKTVISFLEDlGFQVLYGDTDSIFVQLKTFEgyAEE 552
                              77788888888888888888888888877766553356677777777766666666554415666666777777777666433444 PP

                RNase_E_G 127 apeleekvely 137
                               p l +kv+++
  PHY93_00800|PHY93_00800 553 GPALVKKVNHF 563
                              55555555444 PP

  == domain 2  score: 12.9 bits;  conditional E-value: 1.2e-05
                RNase_E_G  51 aegaseeelekdleelkkkweeilekakkrkapsllyeee..dlllrvlrdllnedieeivvddkelyeeikeyleevapelee 132
                              + g +ee + + +e+++++w+ + ++++ +   ++ y e+  ++++++l+dl+++++++ +v +k+l + i+ey++++ p+++ 
  PHY93_00800|PHY93_00800 614 SDGIKEEMVLTGMEYVRSDWSALARNFQFELIRRVFYGENleSFINQTLKDLIDSKLDQSLVLSKRLTKPIEEYIKNIPPHAKA 697
                              6788999999*****************98888888888852269**********************************998876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (767 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       524  (0.0292264); expected 358.6 (0.02)
Passed bias filter:                      457  (0.0254894); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.69u 0.24s 00:00:00.93 Elapsed: 00:00:00.38
# Mc/sec: 5993.10
//
Query:       PHY93_00805|PHY93_00805  [L=310]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      2e-29  103.0   0.0    3.2e-29  102.4   0.0    1.2  1  Abhydrolase_1  alpha/beta hydrolase fold
    2.5e-13   49.9   0.0    1.7e-12   47.2   0.0    2.0  1  Hydrolase_4    Serine aminopeptidase, S33
    1.6e-11   45.2   0.0    2.2e-11   44.8   0.0    1.1  1  Abhydrolase_6  Alpha/beta hydrolase family
    0.00099   19.2   0.0     0.0017   18.5   0.0    1.3  1  Abhydrolase_4  TAP-like protein
  ------ inclusion threshold ------
      0.017   14.6   0.0       0.15   11.5   0.0    2.2  2  Peptidase_S9   Prolyl oligopeptidase family


Domain annotation for each model (and alignments):
>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  102.4   0.0   8.9e-33   3.2e-29       1     252 [.      35     296 ..      35     300 .. 0.78

  Alignments for each domain:
  == domain 1  score: 102.4 bits;  conditional E-value: 8.9e-33
                              SEEEEE-STTTCGGG..GTTGHHHHHHHHTTSEEEEEEETTSTTSSSTTTGB.CHHSHHHHHHHHHHHHHHCTTSSEEEEEETHHH CS
            Abhydrolase_1   1 pvlvilhGlpgssdv..waerglapaLakdgfdvillDlrGvgySspapacinddygtasvaddldrildalgddkltlvGhSmGG 84 
                              +++v+lhG+pg++ +  ++     ++++ ++++vil+D+rG+g+S+p  +   ++ +t+++ +d+++++d l + ++++ G+S+G+
  PHY93_00805|PHY93_00805  35 KPVVFLHGGPGGGIIpnYR-----RYFNPEKWRVILMDQRGCGKSTPFAEL--KENTTWDLVADIEALRDYLSINRWAVFGGSWGS 113
                              59*********77553233.....466666********************9..9******************************** PP

                              HHHHHHHHHHGGGEEEEEEESE...CSSCCHHHHHHHHHHHHHHCHHCHHHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHCHH CS
            Abhydrolase_1  85 mialayaaeyperVkalvllga...idpaaslieaqrqqaksfpdffdgyaadcarnpagplladelaaleqrhrlvdalkfpdks 167
                              ++alaya ++p  +  l l g        +++   q+   k +pd+++gy+a+  +     +++ +++ l++ +  + ++  + k+
  PHY93_00805|PHY93_00805 114 TLALAYAIKHPLQCTELFLRGIfllRKKEIDWFY-QEGCSKIYPDAWEGYVAPIPKEERHNFVEAYHKRLTSDDIKTRKK--AAKA 196
                              **********************665555555544.4456799*******************************7666666..5555 PP

                              HCCHH.HHHHHCHHHHHHHHHHHHHHHHCCHHHHHHHHHC..........THHHHS....EEEEEEETTCSSSCHHHHHHHHHCHT CS
            Abhydrolase_1 168 krfps.sgsdnasslatgalksieqwpttdsaklllrlre..........lknvla....ptlvisgtsDplvppkaledlaqllp 238
                              ++ ++ s+s     ++ +a +  +++++ + +  +  + +          l+nv +    pt++++g++D + p ++ +dl +++p
  PHY93_00805|PHY93_00805 197 WSVWEgSTSKLIPDTDIVARFGEDEFADAFARIECHYFVNkgfftednflLNNVDKirqiPTVIVQGRYDVVCPAESAWDLHRAFP 282
                              555552333333333333333333333333333333333366778888885555444559************************** PP

                              SEEEEEEETCSSSH CS
            Abhydrolase_1 239 kkrlvvisdagHla 252
                              +++ + i+dagH +
  PHY93_00805|PHY93_00805 283 EAEFHLIADAGHSL 296
                              ************87 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.2   0.0   4.6e-16   1.7e-12       7     234 ..      37     296 ..      30     299 .. 0.78

  Alignments for each domain:
  == domain 1  score: 47.2 bits;  conditional E-value: 4.6e-16
              Hydrolase_4   7 vvlvHGlaehsgryaelaeaLaaqGfavyalDhrGhGrse.gkrghvpsfddyvdDlaafvekvkeehpelplfllGhSmGGlial 91 
                              vv++HG     g   +  ++++ + + v+ +D+rG G+s   +  + + + d+v+D++a+ + +       +  ++G S+G+++al
  PHY93_00805|PHY93_00805  37 VVFLHGG-PGGGIIPNYRRYFNPEKWRVILMDQRGCGKSTpFAELKENTTWDLVADIEALRDYLS----INRWAVFGGSWGSTLAL 117
                              5555553.33556666678999999**************85566678888899999999977777....66789************ PP

              Hydrolase_4  92 lyllrypdkvaglilsaPalkikakl...................kappllklllkllgkllpklqv................... 139
                              +y+ ++p +++ l l + +l  k+++                                                            
  PHY93_00805|PHY93_00805 118 AYAIKHPLQCTELFLRGIFLLRKKEIdwfyqegcskiypdawegyV--------------------Apipkeerhnfveayhkrlt 183
                              ********************99988655555555555555555440....................35555555555555555555 PP

              Hydrolase_4 140 ...............snnlkadslsrdpevvaayeadplvhgkitvrlll....elldamkrleeraakit.lPllllhGeaDkvv 205
                                              ++  +++l  d++ va++ +d++     +++  +    ++++  ++l+++++ki+ +P+ +++G  D v+
  PHY93_00805|PHY93_00805 184 sddiktrkkaakawsVWEGSTSKLIPDTDIVARFGEDEFADAFARIECHYfvnkGFFTEDNFLLNNVDKIRqIPTVIVQGRYDVVC 269
                              57777777777777658889******************997666666555112256777799********99************** PP

              Hydrolase_4 206 dpeasrelyerlgskdktlklypglyHel 234
                              + e + +l+++ +  + +++l++ + H+l
  PHY93_00805|PHY93_00805 270 PAESAWDLHRAFP--EAEFHLIADAGHSL 296
                              *************..69********9987 PP

>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.8   0.0   6.2e-15   2.2e-11       1     210 [.      37     297 ..      37     302 .. 0.55

  Alignments for each domain:
  == domain 1  score: 44.8 bits;  conditional E-value: 6.2e-15
                              EEEE--GC.....GCHHHHHHHHCCT.CEEEEE--TTSTS-GGCS.....--HHHCHHHHHHHCCTT..TTSE.EEEEETCHHHHH CS
            Abhydrolase_6   1 vlllHGagssassWlvapLaallaag.vhvlapDlpGhGrsdppp.....ldledladlaalldelaagggpv.vlvGHSlGGala 79 
                              v++lHG+++++ +    + +++++   ++v+ +D +G+G s+p +     ++++ +ad++al d l     +   ++G S+G +la
  PHY93_00805|PHY93_00805  37 VVFLHGGPGGGIIP---NYRRYFNPEkWRVILMDQRGCGKSTPFAelkenTTWDLVADIEALRDYL---SINRwAVFGGSWGSTLA 116
                              8*****88764444...4433333334777*********6655556777799999***********...45557************ PP

                              HHHHHCC............EEEEES-.............----TTT............S----TTHHHHHHTT-C......CCCH. CS
            Abhydrolase_6  80 laaapla..........lvvgvlldp...........pptalpagl............laaalelllallallrl......lawl. 125
                              la   +a          +++g++l             ++ ++p+++             +++ +++++l++  ++       aw+ 
  PHY93_00805|PHY93_00805 117 LA---YAikhplqctelFLRGIFLLRkkeidwfyqegCSKIYPDAWegyvapipkeerHNFVEAYHKRLTSDDIKtrkkaaKAWSv 199
                              **...887777888887555555555565555555443345555552222222211112222222222222111123333333333 PP

                              ...CCHS-HSCCCCHHH..C...CCCHCHCCCGHH.........HHCCHHCHTTCCHHTT-TTGCEEECTT-CHHH...HCHHCCC CS
            Abhydrolase_6 126 ...sreplprlfladed..a...daawrarlarla.........allaglgllpaaawadlpvpllvlggeDplvp...rllerll 191
                                 s    +  +++d+d  a   + ++++++ar            + + + l++++ ++++p+ + v g  D ++p   ++  +l+
  PHY93_00805|PHY93_00805 200 wegS---TS-KLIPDTDivArfgEDEFADAFARIEchyfvnkgfFTEDNFLLNNVDKIRQIPTVI-VQGRYDVVCPaesAW--DLH 278
                              2120...22.3333333321122355555555555554444432222233355677777777666.446666655511133..555 PP

                              H.STTEEETCE...SSS-HH CS
            Abhydrolase_6 192 a.qagarlpvvlpgaGHlph 210
                              +  + a++ +++++aGH++ 
  PHY93_00805|PHY93_00805 279 RaFPEAEF-HLIADAGHSLS 297
                              56688999.********875 PP

>> Abhydrolase_4  TAP-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.5   0.0   4.6e-07    0.0017      33      77 ..     254     298 ..     225     307 .. 0.83

  Alignments for each domain:
  == domain 1  score: 18.5 bits;  conditional E-value: 4.6e-07
            Abhydrolase_4  33 gaapvLllqnerDpaTPyegakklakalggavlvtvegeGHgala 77 
                               ++p+ ++q+++D ++P e+a  l++a+++a+     ++GH  ++
  PHY93_00805|PHY93_00805 254 RQIPTVIVQGRYDVVCPAESAWDLHRAFPEAEFHLIADAGHSLSE 298
                              259****************************98888889998765 PP

>> Peptidase_S9  Prolyl oligopeptidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   4.3e-05      0.15      39      86 ..      79     124 ..      63     181 .. 0.87
   2 ?    0.8   0.0     0.078   2.8e+02     141     188 ..     251     296 ..     222     304 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 4.3e-05
                              GGGHHHHHHHHHHHHHHHHTTS--GGGEEEEEETHHHHHHHHHHHH-G CS
             Peptidase_S9  39 klgqnefdDfiaaaealakegyvdserlaitGgSyGGyltgaalnqrp 86 
                              +l++n+  D++a +eal  ++y + +r a++GgS G +l++a + ++p
  PHY93_00805|PHY93_00805  79 ELKENTTWDLVADIEAL--RDYLSINRWAVFGGSWGSTLALAYAIKHP 124
                              5899999*********9..889*******************9998776 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.078
                              -..---EEEEEEETT-SSS-THHHHHHHHHHH--S-SEEEEEETTS-SST CS
             Peptidase_S9 141 k..aypplLlihGlaDdrvppaealklvaaLqkkgknvlllifpdegHgv 188
                                 ++ p+ +++G  D  +p ++a  l +a  +    ++++   d+gH++
  PHY93_00805|PHY93_00805 251 DkiRQIPTVIVQGRYDVVCPAESAWDLHRAFPE----AEFHLIADAGHSL 296
                              345678999999999999999998887777654....6777788888865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (310 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       450  (0.025099); expected 358.6 (0.02)
Passed bias filter:                      430  (0.0239835); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.36
# Mc/sec: 2569.50
//
Query:       PHY93_00810|PHY93_00810  [L=117]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.3e-06   26.4   0.1    1.2e-05   25.5   0.1    1.5  1  Glyoxalase    Glyoxalase/Bleomycin resistance protein/Dioxyge
     0.0014   18.5   0.0     0.0023   17.9   0.0    1.4  1  Glyoxalase_2  Glyoxalase-like domain
  ------ inclusion threshold ------
      0.075   13.1   0.0        1.4    9.0   0.0    2.0  2  Glyoxalase_3  Glyoxalase-like domain


Domain annotation for each model (and alignments):
>> Glyoxalase  Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.5   0.1     2e-09   1.2e-05       1     124 [.       4     110 ..       4     114 .. 0.71

  Alignments for each domain:
  == domain 1  score: 25.5 bits;  conditional E-value: 2e-09
                              EEEEEEEEESHHHHHHHHHHHHHTSEEEEEEEEEESTEEEEEEEEETTTSEEEEEEEECCTTSCTHHCCBSCTSEEEEEEEEEHCH CS
               Glyoxalase   1 gidhvallvgdleksldFYtkvLGfklvkktdnteeteglriaffhaggghielvlneapsgaakhvkkieetvhhvafialdved 86 
                              ++ h +++v++l+++++FYt+ L+fk+    +     e   + +  + + ++ l   ea+s++  +             i++++e+
  PHY93_00810|PHY93_00810   4 KLSHPMMYVTNLDRAVKFYTDKLNFKVRFHHP-----EAFASLYNEEMNCRLDLHPTEADSKDIGFG----------PIIYFTTEN 74 
                              578*************************9999.....555555556666666677777777776666..........678888888 PP

                              HHHHHHHHHHTTGEEEEEEECHHCTEEEEEEEEETTSE CS
               Glyoxalase  87 vgkaldrlkeagvkvvaepgrhyfgalysfyfrDpdGi 124
                              +++ l  lk+ gvk  +  + ++ +a++   f D  G+
  PHY93_00810|PHY93_00810  75 LDRDLSLLKSIGVKTGEA-KSEGGSARFAT-FWDSEGN 110
                              888888888888776655.34444444433.6666665 PP

>> Glyoxalase_2  Glyoxalase-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.0   3.8e-07    0.0023       3      86 ..       7      88 ..       5     116 .. 0.74

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 3.8e-07
                             ----EES-HHHHHHHHHHTT---EEEE-SSEE..EETTS-EEEEHHHHHH-------S--SS-EEEEEES-HHHHHHHH..GGGS- CS
             Glyoxalase_2  3 lillvvkdieeskkFYedvlelkikldfGenv..sfetgfalkedlkelinldesiaeqsnnfeLyFevedvdaflqklkeaenie 86
                              ++++v +++++ kFY d l+ k++  + e     ++ +++ + dl+ +   +++i +      +yF  e++d  l+ lk+++ ++
  PHY93_00810|PHY93_00810  7 HPMMYVTNLDRAVKFYTDKLNFKVRFHHPEAFasLYNEEMNCRLDLHPTEADSKDIGFG---PIIYFTTENLDRDLSLLKSIG-VK 88
                             689*************************9875235888888888888776666677664...568999999999999888877.54 PP

>> Glyoxalase_3  Glyoxalase-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0   0.0   0.00023       1.4       1      27 [.       5      31 ..       5      47 .. 0.89
   2 ?    2.5   0.0     0.023   1.4e+02      81     119 ..      68     104 ..      50     112 .. 0.85

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.00023
             Glyoxalase_3  1 lDHvvlavpdleeaaarfarrlGftvt 27
                             l H +++v +l++a++ ++++l+f+v 
  PHY93_00810|PHY93_00810  5 LSHPMMYVTNLDRAVKFYTDKLNFKVR 31
                             679*********************986 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.023
             Glyoxalase_3  81 lalrtddidataarlraaGvdeagrrvrpdggdlrwrll 119
                              + ++t+++d++   l++ Gv  + ++ + +gg +r++++
  PHY93_00810|PHY93_00810  68 IYFTTENLDRDLSLLKSIGV--KTGEAKSEGGSARFATF 104
                              67999**************8..57778889999999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (117 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       289  (0.0161191); expected 358.6 (0.02)
Passed bias filter:                      282  (0.0157287); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 877.68
//
Query:       PHY93_00815|PHY93_00815  [L=237]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      5e-49  166.8   0.0    5.9e-49  166.5   0.0    1.1  1  Peptidase_S51  Peptidase family S51


Domain annotation for each model (and alignments):
>> Peptidase_S51  Peptidase family S51
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  166.5   0.0   3.3e-53   5.9e-49       1     203 [.      12     205 ..      12     208 .. 0.97

  Alignments for each domain:
  == domain 1  score: 166.5 bits;  conditional E-value: 3.3e-53
                              EEEES-........GGG-HHHHHHHS--TT-EEEEE-GGGGG-S--HHHHHHHHHHHHTT-EEEE--TTTS-HHHHHHHHHHSSEE CS
            Peptidase_S51   1 llllssgelsdeerlehiekalldflgksekkvlFiPtAsvsgdddeyvekvrkaleklglevdeLelskdpeeeieeklleadvi 86 
                              +l++++g++s+e+ +  +++ + ++++k++++v+Fi tA  sgd + y+e++++  +++++ +++L+l+k+p   +++++l++dv+
  PHY93_00815|PHY93_00815  12 ILAMGGGGFSMEPGNLLLDNFFFSLAKKKRPEVCFIGTA--SGDAQGYIERFYDYMKDHEVTPTHLSLFKAPVGSLRDYILSKDVL 95 
                              699************************************..********************************************* PP

                              EE--S-HHHHHHHHHHTTHHHHHHHHHHTT-EEEEETHHHHTTSSB-GGGTTTS-GGG-S---B----SSSEEETTT...T-TTSH CS
            Peptidase_S51  87 yvgGGntfrLlkllketgldkllreavqqglvyiGvSAGaivagesiettsysdspikapesfeaLgLvkfqivPHylghkeeere 172
                              yvgGGnt +L+ l+ke+gldk+++ea+++g+v+ G+SAG  +++e++ t+s+ +s+    +++++++L+ ++++PHy  ++ee+r+
  PHY93_00815|PHY93_00815  96 YVGGGNTRNLMVLWKEWGLDKIIIEAYNSGVVLGGLSAGGLCWFEEGVTDSIPGSL----TKLSCMNLISGSFCPHY--DGEEDRR 175
                              ***************************************************88887....89***************..******* PP

                              HHHHHHHHH-----EEE--TTEEEEEETTEE CS
            Peptidase_S51 173 erlaefvesneekpvigldegtalliegdka 203
                              + +++++ +  + p+++ d+  a+++e++k+
  PHY93_00815|PHY93_00815 176 PGYQKLILEGLK-PGYACDDSAAVYFENEKF 205
                              ******988766.***************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (237 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       299  (0.0166769); expected 358.6 (0.02)
Passed bias filter:                      289  (0.0161191); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1720.37
//
Query:       PHY93_00820|PHY93_00820  [L=282]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        1.4    9.4   8.9        4.5    7.7   0.2    3.6  4  TPR_8     Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   0.2   0.00025       4.5       1      30 [.     104     133 ..     104     136 .. 0.92
   2 ?   -2.1   0.0      0.36   6.5e+03       5      19 ..     153     167 ..     153     170 .. 0.81
   3 ?    5.2   0.2    0.0016        28       5      34 .]     198     227 ..     195     227 .. 0.93
   4 ?   -1.3   0.5      0.19   3.5e+03       2      20 ..     239     257 ..     238     258 .. 0.76

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.00025
                              CCHHHHHHHHHHHTT-HHHHHHHHHHHHHH CS
                    TPR_8   1 aeayynlgsiylklgdyeeAkeyyekalel 30 
                              a++y   +s++ +lg +++A+++++ a e+
  PHY93_00820|PHY93_00820 104 ARIYASTASALANLGGLKNAEKFLKLASEI 133
                              6889999********************998 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 0.36
                              HHHHHHHHHTT-HHH CS
                    TPR_8   5 ynlgsiylklgdyee 19 
                              +n++++ +++++ +e
  PHY93_00820|PHY93_00820 153 NNIACTQEDKKERNE 167
                              589999999988766 PP

  == domain 3  score: 5.2 bits;  conditional E-value: 0.0016
                              HHHHHHHHHTT-HHHHHHHHHHHHHHHHH. CS
                    TPR_8   5 ynlgsiylklgdyeeAkeyyekaleldpdn 34 
                              y+l+++yl+ g ++++    + +l+++ +n
  PHY93_00820|PHY93_00820 198 YRLSQTYLQAGLLNKSLLHAKNCLDINSQN 227
                              89**********************999875 PP

  == domain 4  score: -1.3 bits;  conditional E-value: 0.19
                              CHHHHHHHHHHHTT-HHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeA 20 
                              ea+ + ++++++  dy+ A
  PHY93_00820|PHY93_00820 239 EALAKASKALKNEADYNDA 257
                              6778888888888888766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (282 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       575  (0.0320709); expected 358.6 (0.02)
Passed bias filter:                      356  (0.0198561); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.39
# Mc/sec: 2170.06
//
Query:       PHY93_00825|PHY93_00825  [L=152]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.8e-13   50.7   0.1    2.1e-13   50.5   0.1    1.2  1  Acetyltransf_1   Acetyltransferase (GNAT) family
    3.2e-05   23.9   0.0      4e-05   23.6   0.0    1.2  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
      8e-05   22.8   0.1    9.3e-05   22.6   0.1    1.1  1  Acetyltransf_4   Acetyltransferase (GNAT) domain
    0.00016   22.0   0.1    0.00023   21.5   0.1    1.2  1  Acetyltransf_7   Acetyltransferase (GNAT) domain
     0.0029   17.5   0.0     0.0046   16.9   0.0    1.3  1  FR47             FR47-like protein


Domain annotation for each model (and alignments):
>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.5   0.1   5.8e-17   2.1e-13      28     116 ..      53     141 ..      11     142 .. 0.84

  Alignments for each domain:
  == domain 1  score: 50.5 bits;  conditional E-value: 5.8e-17
                              HHSTTCEEEEEEETTEEEEEEEEEEEETTSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHTTESEEEEEEETTEHHHHHHHH CS
           Acetyltransf_1  28 fsleaegllvaeedgeliGfisllkipdekggvayieslaVspeyrgkGlGsaLlealeerareegikkivlaveedndaairlYe 113
                                 ++ +++  ++ +el+Gf+ ++ +   ++++ay+ ++ + +  rg G+G++ +  lee+++  g+k i l+v+ +n++ai+lY+
  PHY93_00825|PHY93_00825  53 MKSIDQYIYTMKDSDELVGFLWFCERGSADNRKAYVLDIIIEEPKRGLGYGKKSMLLLEEKVKAMGLKHIGLHVFGHNQRAIGLYQ 138
                              44466678889999***********************************************************************7 PP

                              HTT CS
           Acetyltransf_1 114 klG 116
                               l 
  PHY93_00825|PHY93_00825 139 SLN 141
                              676 PP

>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.6   0.0   1.1e-08     4e-05      28     112 ..      55     148 ..      32     152 .] 0.82

  Alignments for each domain:
  == domain 1  score: 23.6 bits;  conditional E-value: 1.1e-08
          Acetyltransf_10  28 egealllvaeeggkivGviel.rdgs......hisllfVdpeyrgqGigkaLleaveeeaekdgikl.eltvnasp.yavpfYekl 104
                              + + +++ +++++++vG++   ++gs      ++  +++++  rg G+gk+ +  +ee+++ +g+k+  l+v  ++  a+++Y++l
  PHY93_00825|PHY93_00825  55 SIDQYIYTMKDSDELVGFLWFcERGSadnrkaYVLDIIIEEPKRGLGYGKKSMLLLEEKVKAMGLKHiGLHVFGHNqRAIGLYQSL 140
                              4567789999*********554444455666899999*****************************9*****99999********* PP

          Acetyltransf_10 105 GFkavgee 112
                               +++++ +
  PHY93_00825|PHY93_00825 141 NYQTTNLV 148
                              ***99765 PP

>> Acetyltransf_4  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.6   0.1   2.6e-08   9.3e-05      23     137 ..      31     145 ..       9     150 .. 0.84

  Alignments for each domain:
  == domain 1  score: 22.6 bits;  conditional E-value: 2.6e-08
           Acetyltransf_4  23 taitfeyevssveefekfleal.dsekeyvflvaesdrivGyaylgqfkkrakdwkaelsvylaerdnnkeglgrelidaleqvlk 107
                                 + e+++++  +f++ l +  +s  +y++ + +sd++vG +   +  +   +++  l + + e+ ++  g+g++ + +le+  k
  PHY93_00825|PHY93_00825  31 GLTEKEADEKATADFNRYLPDGmKSIDQYIYTMKDSDELVGFLWFCERGSADNRKAYVLDIII-EEPKRGLGYGKKSMLLLEEKVK 115
                              334489999**********99977999***************999877774567777788888.589*********999******* PP

           Acetyltransf_4 108 eqnienllaeiaspnensiqfhkalGFelv 137
                              +++++ +   ++  n+ +i ++++l ++ +
  PHY93_00825|PHY93_00825 116 AMGLKHIGLHVFGHNQRAIGLYQSLNYQTT 145
                              ***********************9988865 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.1   6.5e-08   0.00023       4      75 ..      59     143 ..      56     144 .. 0.74

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 6.5e-08
                              EEEEEEETTEEEEEEEEEEES......TCTEEEEE-GGGTTSSHHHHHHHH..TT...SEEEEE.EEEE..THHHHHHHHHHTTEE CS
           Acetyltransf_7   4 evfVaeddgkivGfialslld......aeitrlaVdpeyrgkGiGraLlea..ae...kgiile.qlel..naekaikfYeklGFe 75 
                              +++  +d ++ vGf+ +++++      a+   + + +  rg G+G++ + +  ++    g++ +  l++  ++++ai++Y++l ++
  PHY93_00825|PHY93_00825  59 YIYTMKDSDELVGFLWFCERGsadnrkAYVLDIIIEEPKRGLGYGKKSMLLleEKvkaMGLK-HiGLHVfgHNQRAIGLYQSLNYQ 143
                              577788899******99999998877666666**************9775433113345533.333444556669********997 PP

>> FR47  FR47-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0   1.3e-06    0.0046      27      80 ..      91     145 ..      81     150 .. 0.88

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 1.3e-06
                              EEE-GGG-SSSHHHHHHHHHHHHHHHS-.S-EEEEEETT-HHHHHHHHHHT-EEE CS
                     FR47  27 lqvlpehrrrGlgsrlvkalakeiaerg.ktvllvvvasNtpsirlyeklGfeki 80 
                              + +++  r+ G+g++    l +++ + g k++ l+v  +N+++i ly++l+++  
  PHY93_00825|PHY93_00825  91 IIIEEPKRGLGYGKKSMLLLEEKVKAMGlKHIGLHVFGHNQRAIGLYQSLNYQTT 145
                              66778889******************6648999*******************975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (152 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       423  (0.0235931); expected 358.6 (0.02)
Passed bias filter:                      326  (0.0181828); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.38u 0.23s 00:00:00.61 Elapsed: 00:00:00.37
# Mc/sec: 1230.65
//
Query:       PHY93_00830|PHY93_00830  [L=239]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.6e-21   76.7   0.0    2.5e-21   76.1   0.0    1.3  1  Methyltransf_11  Methyltransferase domain
    1.1e-18   67.8   0.0    1.7e-18   67.1   0.0    1.3  1  Methyltransf_25  Methyltransferase domain
      2e-17   63.4   0.0    2.7e-17   63.0   0.0    1.1  1  Methyltransf_31  Methyltransferase domain
    8.9e-17   61.4   0.0      1e-16   61.2   0.0    1.1  1  Methyltransf_23  Methyltransferase domain
    2.9e-15   56.8   0.0    4.2e-15   56.3   0.0    1.2  1  Methyltransf_12  Methyltransferase domain
    1.4e-08   34.4   0.0    2.1e-08   33.8   0.0    1.2  1  Ubie_methyltran  ubiE/COQ5 methyltransferase family
    9.5e-06   25.1   0.0    1.6e-05   24.4   0.0    1.3  1  CMAS             Mycolic acid cyclopropane synthetase
    2.7e-05   23.9   0.0    3.8e-05   23.4   0.0    1.2  1  NodS             Nodulation protein S (NodS)
    5.2e-05   22.8   0.0    7.5e-05   22.3   0.0    1.1  1  PrmA             Ribosomal protein L11 methyltransferase (Prm
    0.00037   20.3   0.0     0.0005   19.9   0.0    1.1  1  PCMT             Protein-L-isoaspartate(D-aspartate) O-methyl
    0.00083   18.0   0.0     0.0011   17.7   0.0    1.0  1  Methyltransf_29  Putative S-adenosyl-L-methionine-dependent m
  ------ inclusion threshold ------
       0.01   15.4   0.0      0.014   15.0   0.0    1.2  1  MetW             Methionine biosynthesis protein MetW
      0.011   15.7   0.0      0.016   15.2   0.0    1.2  1  Methyltransf_32  Methyltransferase domain
      0.022   14.4   0.0       0.13   11.9   0.0    2.0  1  TPMT             Thiopurine S-methyltransferase (TPMT)
      0.034   13.7   0.0      0.065   12.8   0.0    1.5  1  MTS              Methyltransferase small domain
      0.065   12.6   0.0      0.095   12.1   0.0    1.2  1  TehB             Tellurite resistance protein TehB
       0.12   12.7   0.0       0.22   11.9   0.0    1.3  1  AdoMet_MTase     Predicted AdoMet-dependent methyltransferase


Domain annotation for each model (and alignments):
>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.1   0.0   2.3e-24   2.5e-21       2      96 .]      51     146 ..      50     146 .. 0.92

  Alignments for each domain:
  == domain 1  score: 76.1 bits;  conditional E-value: 2.3e-24
                              EET-TTSHHHHHHHHTTSEEEEEES-HHHHHHHHHHCCHHT-EEEETTEECC.CTSS-TT...-EEEEEEES-CCC-CCHHHHHHH CS
          Methyltransf_11   2 dvGcGtGrlaealakrgarvvgvDlskemlklakekaseeglkvefvvadae.klpfedn...sfDlvvssevlhhvedpekalke 83 
                              +vGcG G+lae+l + ga+vvg+D+s++m++lak++++++    +f vad    lp+ ++   +fDlvvss ++++++d++  l+e
  PHY93_00830|PHY93_00830  51 EVGCGPGILAEYLIDEGAKVVGFDVSPKMIELAKNRNPKNA---TFFVADGAlPLPLGEEqnsQFDLVVSSLAIDYIKDWATPLSE 133
                              79********************************9999986...68888888358988866679********************** PP

                              HHHHEEEEEEEEE CS
          Methyltransf_11  84 iaRvLkpgGllvi 96 
                              ++R+Lkp G++++
  PHY93_00830|PHY93_00830 134 VHRLLKPKGRFIF 146
                              ***********97 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.1   0.0   1.6e-21   1.7e-18       1      97 []      49     142 ..      49     142 .. 0.89

  Alignments for each domain:
  == domain 1  score: 67.1 bits;  conditional E-value: 1.6e-21
                              EEEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTT.TEEEEESBC.CGBS...SSTTTEEEEEEESTGGGSSHHH CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeegl.nvefvqgda.edlp...fedgsfDlvvssgalhhlsded 81 
                              + ++GcG+G l+++l +++  akv+g+D+s++m+e a++r+    + n++f ++d    lp   +++++fDlvvss a+ +++  d
  PHY93_00830|PHY93_00830  49 IFEVGCGPGILAEYLIDEG--AKVVGFDVSPKMIELAKNRN----PkNATFFVADGaLPLPlgeEQNSQFDLVVSSLAIDYIK--D 126
                              689***************5..********************....4499**99998555874444777*******999***97..8 PP

                              HHHHHHHHHHHEEEEE CS
          Methyltransf_25  82 lekalkeiarvLkpgG 97 
                              +++ l+e++r+Lkp+G
  PHY93_00830|PHY93_00830 127 WATPLSEVHRLLKPKG 142
                              9999**********99 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.0   0.0   2.6e-20   2.7e-17       4     110 ..      46     147 ..      44     177 .. 0.92

  Alignments for each domain:
  == domain 1  score: 63.0 bits;  conditional E-value: 2.6e-20
          Methyltransf_31   4 glrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielArenaqklgldnveFeqgdiee.lekl.ledekfDlilsnevlnal 87 
                              gl++ ++GCG G l+  l +e   +a+vvG+D s+++ielA+++    + +n++F ++d    l+    + ++fDl++s  +++++
  PHY93_00830|PHY93_00830  46 GLKIFEVGCGPGILAEYLIDE---GAKVVGFDVSPKMIELAKNR----NPKNATFFVADGALpLPLGeEQNSQFDLVVSSLAIDYI 124
                              78999*******999999977...89*****************7....89***************777777*************** PP

          Methyltransf_31  88 adpdkileeiervlkpggillie 110
                              +d +  l e++r+lkp+g+++ +
  PHY93_00830|PHY93_00830 125 KDWATPLSEVHRLLKPKGRFIFT 147
                              ********************965 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.2   0.0   9.9e-20     1e-16       9     121 ..      15     150 ..       8     205 .. 0.79

  Alignments for each domain:
  == domain 1  score: 61.2 bits;  conditional E-value: 9.9e-20
          Methyltransf_23   9 lsdklerllpklragg.................rvLdiGcGtGillevlrengfsvtgvDlspeaveiae..kakkaqkdqfdeqe 75 
                              l++  +rl+p + +++                 ++ ++GcG Gil+e+l ++g++v+g+D sp+++e+a+  ++k+a +  +d   
  PHY93_00830|PHY93_00830  15 LAESFARLAPSKVQNAyieqpamrkavgvvrglKIFEVGCGPGILAEYLIDEGAKVVGFDVSPKMIELAKnrNPKNATFFVADGAL 100
                              555556666544444466666677777788778999********************************977766666666664442 PP

          Methyltransf_23  76 aae......pqgkfdlIvlrevlehvpdppellrqiatllkpgGylllsepl 121
                                +      ++ +fdl+v++  +  ++d++  l+ +++llkp G+++++ + 
  PHY93_00830|PHY93_00830 101 --PlplgeeQNSQFDLVVSSLAIDYIKDWATPLSEVHRLLKPKGRFIFTIQH 150
                              ..1335554888***********************************99863 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.3   0.0     4e-18   4.2e-15       2      99 .]      51     144 ..      50     144 .. 0.83

  Alignments for each domain:
  == domain 1  score: 56.3 bits;  conditional E-value: 4e-18
          Methyltransf_12   2 eiGcGtGsllralleklpdieytgvDispsaiedakeklakrennnnnnvelealdlldldggssfDlvvasnvlhhlkdirevld 87 
                              e+GcG G l+++l ++  +++++g D+sp++ie ak++  k+   +  + +      l ++++s+fDlvv+s ++ ++kd++  l+
  PHY93_00830|PHY93_00830  51 EVGCGPGILAEYLIDE--GAKVVGFDVSPKMIELAKNRNPKNATFF--VADGALPLPLGEEQNSQFDLVVSSLAIDYIKDWATPLS 132
                              9***************..**************88888888877533..3333333333334448********************** PP

          Methyltransf_12  88 nirklLkpgGrl 99 
                              ++++lLkp Gr+
  PHY93_00830|PHY93_00830 133 EVHRLLKPKGRF 144
                              **********86 PP

>> Ubie_methyltran  ubiE/COQ5 methyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.8   0.0     2e-11   2.1e-08      39     150 ..      37     145 ..      27     151 .. 0.85

  Alignments for each domain:
  == domain 1  score: 33.8 bits;  conditional E-value: 2e-11
                              HHHH--S--TTEEEEES-TT-HHHHHHHHHHHHHHEEEEEES-HHHHHHHHHHHHHHTSSTEEEEE--TTT-TTS-...T-EEEEE CS
          Ubie_methyltran  39 veklvavkrgakvlDvagGtgDlafklsdsvgekgkvvvlDinenmLkvgekklkeegkinieflqanaeeLpfed...dsfDvvt 121
                              + k v+v rg k+++v +G g la  l   ++e  kvv+ D++++m++ ++++  ++++    f+   a  Lp  +     fD+v 
  PHY93_00830|PHY93_00830  37 MRKAVGVVRGLKIFEVGCGPGILAEYL---IDEGAKVVGFDVSPKMIELAKNRNPKNATF---FVADGALPLPLGEeqnSQFDLVV 116
                              5688999**************999777...567789***************998777654...777778888753322367***** PP

                              EES-GGG-S-HHHHHHHHHHHEEEEEEEE CS
          Ubie_methyltran 122 vsfGlrnvtDklkaLkeayrvlkpGGrlv 150
                               s  +  + D  + L e++r lkp Gr++
  PHY93_00830|PHY93_00830 117 SSLAIDYIKDWATPLSEVHRLLKPKGRFI 145
                              **************************985 PP

>> CMAS  Mycolic acid cyclopropane synthetase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.4   0.0   1.5e-08   1.6e-05      57     220 ..      40     212 ..      25     224 .. 0.75

  Alignments for each domain:
  == domain 1  score: 24.4 bits;  conditional E-value: 1.5e-08
                              TTT--TT-EEEEES-TTSHHHHHHHHHH--EEEEEES-HHHHHHHHHHHHTS-S..SS-EEEEES-GGG-----SEEEEES-GGGT CS
                     CMAS  57 klelkpGmtlLdiGcGWGslvrraverydvkvvglTlSkeqaklakkrvdeldl..erkvevklldyedldekvdrvvsvgafehv 140
                               +++  G ++ ++GcG G l+ + +++ ++kvvg  +S +  +lak+r  +  +    +  + l   e+ + ++d vvs  a++ +
  PHY93_00830|PHY93_00830  40 AVGVVRGLKIFEVGCGPGILAEYLIDE-GAKVVGFDVSPKMIELAKNRNPKNATffVADGALPLPLGEEQNSQFDLVVSSLAIDYI 124
                              467889*********************.*****************999866654114566677777889999************98 PP

                              SGGGHHHHHHHHHHHS-TT-EEEEEEEEE--HHHHHCTTCCC...........HHHHHHTSTTS---BHHHHHHHHHHTT-EEEEE CS
                     CMAS 141 gkenydtffkklkkllkedGllllhtitslhkkelaerglkl...........kfidkeiFPgGelpsieeieeeiseagftvvdv 215
                                + ++t  +++++llk+ G+++  ti  +  +++  + + +            f ++ +    +  s ee+++   +agf++++v
  PHY93_00830|PHY93_00830 125 --KDWATPLSEVHRLLKPKGRFIF-TIQHPLGSWNWYKPTCAfgvqyvesswkGFNEEPVIMPDYYRSFEEVINPLIAAGFKILKV 207
                              ..589****************975.4555444444433322245555777666666665444446677777777788888888888 PP

                              EE-HH CS
                     CMAS 216 eslra 220
                              e l++
  PHY93_00830|PHY93_00830 208 EDLKP 212
                              88775 PP

>> NodS  Nodulation protein S (NodS)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.4   0.0   3.6e-08   3.8e-05       7     145 ..      13     147 ..       8     163 .. 0.75

  Alignments for each domain:
  == domain 1  score: 23.4 bits;  conditional E-value: 3.6e-08
                     NodS   7 ellerelaaedPwrldanefeqerlaqilrlslaqgsiadalevGcaaGalterlapyckrltvvdvveeaiararervkesshis 92 
                              ell   +a   P +++ +  eq      +r +++  +  +++evGc  G l+e l     ++   dv ++ i+ a++r  +  + +
  PHY93_00830|PHY93_00830  13 ELLAESFARLAPSKVQNAYIEQPA----MRKAVGVVRGLKIFEVGCGPGILAEYLIDEGAKVVGFDVSPKMIELAKNRNPK--NAT 92 
                              555555555555555555555543....34444444445789************************************988..556 PP

                     NodS  93 wivsdvq.qf....stdekfdlivvaevlyyiedvaelraavrnlvsllapdgqlvfG 145
                              + v+d    +    +++ +fdl+v +  + yi+d a   + + ++ +ll+p+g+++f 
  PHY93_00830|PHY93_00830  93 FFVADGAlPLplgeEQNSQFDLVVSSLAIDYIKDWA---TPLSEVHRLLKPKGRFIFT 147
                              666664312222226789***************987...577788899********96 PP

>> PrmA  Ribosomal protein L11 methyltransferase (PrmA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.3   0.0   7.1e-08   7.5e-05     162     258 ..      46     146 ..      36     147 .. 0.78

  Alignments for each domain:
  == domain 1  score: 22.3 bits;  conditional E-value: 7.1e-08
                     PrmA 162 geevlDvGtGSGiLaiaaakLgakkvvavDiDevAvkvakeNaelN...kveaklevalseellkeekadvivaNILaevliela. 243
                              g +++ vG+G GiLa      ga kvv+ D+ +  ++ ak+   +N    v++   + l+    +++++d++v+    + + + a 
  PHY93_00830|PHY93_00830  46 GLKIFEVGCGPGILAEYLIDEGA-KVVGFDVSPKMIELAKNRNPKNatfFVADGA-LPLPLGEEQNSQFDLVVSSLAIDYIKDWAt 129
                              56899*********987777776.699************9877777332233322.34555555679**************99863 PP

                     PrmA 244 ..edikklvkeggllil 258
                                +++ +l+k++g++i+
  PHY93_00830|PHY93_00830 130 plSEVHRLLKPKGRFIF 146
                              23578899******996 PP

>> PCMT  Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.9   0.0   4.7e-07    0.0005      53     172 ..      29     140 ..       9     151 .. 0.78

  Alignments for each domain:
  == domain 1  score: 19.9 bits;  conditional E-value: 4.7e-07
                              TEEE--HHHHHHHHHHTT--TT-EEEEES-TTSHHHHHHHHHHCTTCEEEEEESBHHHHHHHHHHHHHCTTCSEEEEES-GG.... CS
                     PCMT  53 natiSaphmvalalellelkkgarvLevGsGsGyltavlarlvgekgrvvsierikelveeakrnlkkldlenvivvvgDGr.... 134
                              na+i +p m     + + + +g ++ evG+G G+l+     l+ e ++vv+ + +++++e ak++    + +n ++ v+DG     
  PHY93_00830|PHY93_00830  29 NAYIEQPAMR----KAVGVVRGLKIFEVGCGPGILAE---YLIDEGAKVVGFDVSPKMIELAKNR----NPKNATFFVADGAlplp 103
                              5566666554....5577899************9875...5688999**************9875....677889999***83333 PP

                              GTTGGG-SEEEEEESSBBSS--HHHHHTEEEEEEEEEE CS
                     PCMT 135 kGyeekaPYdaihvgaaapeiPealidQLkeGGrlvvP 172
                               G e+++ +d ++ + a + i + + + L e  rl+ P
  PHY93_00830|PHY93_00830 104 LGEEQNSQFDLVVSSLAIDYI-KDWATPLSEVHRLLKP 140
                              599999999999998888877.5666666666666655 PP

>> Methyltransf_29  Putative S-adenosyl-L-methionine-dependent methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   0.0     1e-06    0.0011     120     218 ..      48     147 ..      25     153 .. 0.85

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 1e-06
          Methyltransf_29 120 tvlDvGCgvasfgayllsrdvltlslapkDeheaqvqfaLeRgvpailavlgtkrlpyP.....srsfdlihCsrCridwteedgi 200
                              ++++vGCg   ++ yl++++   + +   D+  + + +a +R        ++   lp P      + fdl+  s   id+ ++ ++
  PHY93_00830|PHY93_00830  48 KIFEVGCGPGILAEYLIDEGAKVVGF---DVSPKMIELAKNRNPKNATFFVADGALPLPlgeeqNSQFDLVV-SSLAIDYIKDWAT 129
                              5899***************9998887...788899********99999999*******965554468***96.5678********* PP

          Methyltransf_29 201 lllevdRvlRpgGyfvls 218
                               l ev+R+l+p+G f+++
  PHY93_00830|PHY93_00830 130 PLSEVHRLLKPKGRFIFT 147
                              ***************986 PP

>> MetW  Methionine biosynthesis protein MetW
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   0.0   1.4e-05     0.014      14     101 ..      46     137 ..      38     158 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 1.4e-05
                     MetW  14 gsrvldlGcGdGellellkeekqvdgrGleldeegvaecvak.....Glsviqgdldkdlenfedksfdyvvlsqtlqatrnpkev 94 
                              g +++++GcG G l e+l +  + +  G +++ + +  + ++        v +g l   l + ++++fd+vv s ++  +++ ++ 
  PHY93_00830|PHY93_00830  46 GLKIFEVGCGPGILAEYLID-EGAKVVGFDVSPKMIELAKNRnpknaTFFVADGALPLPLGEEQNSQFDLVVSSLAIDYIKDWATP 130
                              66899*************88.7889999999999998887762222257899*****************************99999 PP

                     MetW  95 ldellri 101
                              l+e+ r+
  PHY93_00830|PHY93_00830 131 LSEVHRL 137
                              9998876 PP

>> Methyltransf_32  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.2   0.0   1.5e-05     0.016      26      73 ..      46      89 ..      29      97 .. 0.87

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 1.5e-05
          Methyltransf_32 26 altvvDvGaGkgYLsfvlalkekeyklkvvgidakeelvekaekraek 73
                              l++ +vG+G g L+  l +   e + kvvg+d++ +++e a++r+ k
  PHY93_00830|PHY93_00830 46 GLKIFEVGCGPGILAEYLID---E-GAKVVGFDVSPKMIELAKNRNPK 89
                             57899***************...5.9*****************99876 PP

>> TPMT  Thiopurine S-methyltransferase (TPMT)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   0.00012      0.13      36      80 ..      44      85 ..      33     154 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00012
                             S--EEEEEET-TT-HHHHHH-BTTEEEEEE-S-HHHHHHHHHHHT CS
                     TPMT 36 kaglrvlvPlCGkaldlvwlAeqgrevvGvelselAvekffeean 80
                              +gl+++  +CG ++ +  l ++g +vvG ++s++ +e +   +n
  PHY93_00830|PHY93_00830 44 VRGLKIFEVGCGPGILAEYLIDEGAKVVGFDVSPKMIELA---KN 85
                             567888889**************************99984...33 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   6.2e-05     0.065      34     103 ..      48     117 ..      36     159 .. 0.71

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 6.2e-05
                              EEEEET-TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHTTGCEEEEE-ST.....TTTSTTS-EEEEEE CS
                      MTS  34 kvlDlGcGaGvlgaalakespeaevtlvdvdarAlesakenleanklevevvasdv.....leeveekkfdlivs 103
                              k+  +GcG G+l+  l +e  +  v+ +dv+ + +e+ak+   +n+    ++  d+     l e ++ +fdl+vs
  PHY93_00830|PHY93_00830  48 KIFEVGCGPGILAEYLIDEGAK--VVGFDVSPKMIELAKNRNPKNAT---FFVADGalplpLGEEQNSQFDLVVS 117
                              7899*************98877..9*************987777764...4444431111122333467777776 PP

>> TehB  Tellurite resistance protein TehB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0     9e-05     0.095      22     104 ..      37     120 ..      26     139 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 9e-05
                              HHHHCCCS-S-EEEEES-TTSHHHHHHHHTT-EEEEEES-HHHHHHHHHHHHHTT-TTEEEEE--GGG.----S-EEEEEEESS CS
                     TehB  22 vveavkivkpgkvldlgcgqgrnslylsllgydvtawdknensiafleeikekenlknistalydine.aklderydfilstvv 104
                              + +av +v+  k++++gcg g  + yl   g +v  +d   + i+  ++ + k++   +    + +    + + ++d+++s++ 
  PHY93_00830|PHY93_00830  37 MRKAVGVVRGLKIFEVGCGPGILAEYLIDEGAKVVGFDVSPKMIELAKNRNPKNATFFVADGALPLPLgEEQNSQFDLVVSSLA 120
                              5689**********************************9999998887777666655555444444331234456666666655 PP

>> AdoMet_MTase  Predicted AdoMet-dependent methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   0.00021      0.22      63      89 ..      50      76 ..      37      89 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00021
             AdoMet_MTase 63 vdvgcgngllvyvlaaegykgygidlr 89
                              +vgcg g+l   l  eg k  g+d+ 
  PHY93_00830|PHY93_00830 50 FEVGCGPGILAEYLIDEGAKVVGFDVS 76
                             68***********************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (239 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       323  (0.0180155); expected 358.6 (0.02)
Passed bias filter:                      321  (0.017904); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              17  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 1806.93
//
Query:       PHY93_00835|PHY93_00835  [L=282]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      2e-16   59.7   0.1    3.8e-16   58.8   0.1    1.4  1  HTH_1           Bacterial regulatory helix-turn-helix protein
    2.4e-09   36.9   0.0    3.3e-09   36.4   0.0    1.2  1  LysR_substrate  LysR substrate binding domain
     0.0043   16.6   0.1     0.0091   15.5   0.1    1.6  1  HTH_24          Winged helix-turn-helix DNA-binding
  ------ inclusion threshold ------
      0.054   13.3   0.0       0.12   12.3   0.0    1.5  1  HTH_AsnC-type   AsnC-type helix-turn-helix domain
      0.084   12.8   0.1       0.17   11.8   0.1    1.5  1  MarR_2          MarR family
        4.3    7.4   7.1       0.25   11.3   0.6    2.3  2  Pox_A_type_inc  Viral A-type inclusion protein repeat


Domain annotation for each model (and alignments):
>> HTH_1  Bacterial regulatory helix-turn-helix protein, lysR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.8   0.1   1.3e-19   3.8e-16       5      60 .]       9      64 ..       7      64 .. 0.96

  Alignments for each domain:
  == domain 1  score: 58.8 bits;  conditional E-value: 1.3e-19
                             HHHHHHHHHSSHHHHHHHHTS-HHHHHHHHHHHHHHHTS-SEEESSSEEEE-HHHH CS
                    HTH_1  5 rlfvavaeegsftrAAeeLglsqpavsrqikrLEeelgvpLfeRtgrglrLTeaGe 60
                              +f av++ +++  AA++ gl+q  v+++i++LE+el+ +Lf+R+ +g++LT++Ge
  PHY93_00835|PHY93_00835  9 IAFMAVVDRKTVQDAAKKIGLTQTGVTQRIRSLERELNKTLFIRSRKGMQLTPEGE 64
                             58******************************************999********7 PP

>> LysR_substrate  LysR substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.4   0.0   1.1e-12   3.3e-09       7     201 ..      90     280 ..      84     282 .] 0.92

  Alignments for each domain:
  == domain 1  score: 36.4 bits;  conditional E-value: 1.1e-12
                              EEEEEEECCCHHHHHHHHHHHHHHHSTTEEEEEEEESHHHHHHHHHTTSSSEEEEESSSCCTTEEEEEEEEEEEEEEEETTSGGGG CS
           LysR_substrate   7 rLrigapptlaryllppllarfraryPevelelvegdseelldllaegelDlairagppedsglearpLaeeplvlvaspdhpLar 92 
                               L i+ p++l r+++ p l   +++yP ++++    d ++ + +l++ge  ++i++ +    ++++  + +e+++lv + +    +
  PHY93_00835|PHY93_00835  90 ALQISGPSSLMRSRIIPSLIPVLKKYPFLRMQFDLLDLQSAIHKLKSGESQFVIVSHENVALEMDSKIIKTERYILVGPYEW--GK 173
                              5899999****999999999999**********************************************************6..33 PP

                              SSSECGGGGCTSEEEEESTTSTHHHHHHHHHHCTTEECEEEEEESSHHHHHHHHHTTS-BEEEEGGGHHCCCHTTTEEEEEESSTT CS
           LysR_substrate  93 gepvsledLadeplilleegsglrdlledalreaglkprvalevnsleallalvaaGlGiallprsavrdeladgrlvalplpepp 178
                              + ++  + +++e  i ++++  +   +++    ++l+ + ++ vn+++ l++ ++ G G++++ + ++ + ++  +l+   +p+  
  PHY93_00835|PHY93_00835 174 R-RI-KDIVKNEVIIDFDKNDQFTFDFLKMHNLYELAQKTRHFVNNTDGLASIISLGAGFSVVAEDIAVPLIEKKELS-NLMPGKY 256
                              2.33.566788999999***********9*************************************************.99***9* PP

                              CE.EEEEEEEETTCCCHHHHHHHH CS
           LysR_substrate 179 lp.relylvyrkgrelspavrafi 201
                              l   +l+l++ ++ +++  ++  i
  PHY93_00835|PHY93_00835 257 LDlKDLCLAWYPRPQMPNYMAEII 280
                              ************999988877766 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.1     3e-06    0.0091      18      44 ..      18      44 ..      16      44 .. 0.91

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 3e-06
                   HTH_24 18 isqreLAerlglSpstvnrrlkrLeee 44
                              + ++ A+++gl+++ v++r++ Le+e
  PHY93_00835|PHY93_00835 18 KTVQDAAKKIGLTQTGVTQRIRSLERE 44
                             588999*******************86 PP

>> HTH_AsnC-type  AsnC-type helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   3.9e-05      0.12      17      42 .]      17      42 ..      15      42 .. 0.95

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 3.9e-05
            HTH_AsnC-type 17 RisyaeLAervGlSestvlrRvrrLe 42
                             R ++++ A+++Gl+++ v +R+r Le
  PHY93_00835|PHY93_00835 17 RKTVQDAAKKIGLTQTGVTQRIRSLE 42
                             789999*****************998 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.1   5.6e-05      0.17      23      47 ..      19      43 ..       3      44 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 5.6e-05
                             EHHHHHHHHTSSHHHHHHHHHHHHH CS
                   MarR_2 23 tvgelarrlglsksavsrilkrLva 47
                             tv++ a++ gl++  v+++++ L++
  PHY93_00835|PHY93_00835 19 TVQDAAKKIGLTQTGVTQRIRSLER 43
                             9*********************986 PP

>> Pox_A_type_inc  Viral A-type inclusion protein repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.6   8.2e-05      0.25       9      19 ..      37      47 ..      36      49 .. 0.92
   2 ?   -2.6   1.0         2     6e+03       7      13 ..     173     179 ..     173     179 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 8.2e-05
           Pox_A_type_inc  9 RIsDLErqLse 19
                             RI++LEr+L++
  PHY93_00835|PHY93_00835 37 RIRSLERELNK 47
                             9********97 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 2
           Pox_A_type_inc   7 RsRIsDL 13 
                              ++RI D+
  PHY93_00835|PHY93_00835 173 KRRIKDI 179
                              89**995 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (282 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       556  (0.0310112); expected 358.6 (0.02)
Passed bias filter:                      478  (0.0266607); expected 358.6 (0.02)
Passed Vit filter:                        55  (0.00306766); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.39
# Mc/sec: 2168.32
//
Query:       PHY93_05250|PHY93_05250  [L=118]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    7.4e-10   39.3   5.5    7.4e-10   39.3   5.5    1.6  2  zf-ISL3        zinc-finger of transposase IS204/IS1001/IS1096
  ------ inclusion threshold ------
      0.011   15.4   0.3        1.1    8.9   0.1    2.1  2  TackOD1        Thaumarchaeal output domain 1
      0.016   15.2   0.2      0.038   14.0   0.0    1.7  2  Anti-TRAP      Tryptophan RNA-binding attenuator protein inhi
      0.045   13.2   0.0      0.085   12.3   0.0    1.4  1  HTH_Tnp_ISL3   Helix-turn-helix domain of transposase family 
       0.05   13.7   1.9        7.7    6.7   0.2    2.5  2  Zn-ribbon_8    Zinc ribbon domain
      0.066   13.2   0.7        2.8    8.0   0.4    2.1  2  HypA           Hydrogenase/urease nickel incorporation, metal
       0.11   11.8   0.1       0.16   11.3   0.1    1.1  1  DUF929         Domain of unknown function (DUF929)
       0.13   12.9   0.5       0.21   12.3   0.5    1.2  1  NDUFB11        NADH-ubiquinone oxidoreductase 11 kDa subunit
       0.37   10.8   8.5        3.2    7.8   8.5    2.2  1  Zn_Tnp_IS1595  Transposase zinc-ribbon domain
        1.7    9.2   9.6        3.8    8.2   2.2    3.3  3  zf-C2H2        Zinc finger, C2H2 type
        3.4    8.7   9.8         13    6.9   1.4    3.7  4  zf-C2H2_4      C2H2-type zinc finger


Domain annotation for each model (and alignments):
>> zf-ISL3  zinc-finger of transposase IS204/IS1001/IS1096/IS1165
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.3   5.5   4.6e-13   7.4e-10       4      47 .]      40      83 ..      37      83 .. 0.90
   2 ?   -2.3   0.0       4.5   7.3e+03      33      45 ..     100     112 ..      97     113 .. 0.64

  Alignments for each domain:
  == domain 1  score: 39.3 bits;  conditional E-value: 4.6e-13
                  zf-ISL3  4 rCPnCgsk..tvvkhgkkerrvrhlpiggkrvyLrlrkrRyrCkeC 47
                             +CP+C+ +    ++h   ++r+++ pi  + +yL+++krR++Ck+C
  PHY93_05250|PHY93_05250 40 VCPKCATRswAIYDHV--WVRIKDAPIRDRHIYLKIKKRRFYCKKC 83
                             7*******44446666..9*************************** PP

  == domain 2  score: -2.3 bits;  conditional E-value: 4.5
                  zf-ISL3  33 vyLrlrkrRyrCk 45 
                              ++ r+rk  + C+
  PHY93_05250|PHY93_05250 100 TTERFRKHIMWCS 112
                              5556777777776 PP

>> TackOD1  Thaumarchaeal output domain 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   0.1   0.00067       1.1      97     132 ..      11      47 ..       7      55 .. 0.82
   2 ?    5.0   0.0     0.011        17     146     163 ..      77      94 ..      67     106 .. 0.84

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.00067
                  TackOD1  97 dieeqelihhftCgnvgpeeeflkegkl.eCpkCktk 132
                              ++ e ++i++ + g++++e e  k++k  +CpkC+t+
  PHY93_05250|PHY93_05250  11 QLPELKIIKCLRTGKLDSEFELEKTSKFeVCPKCATR 47 
                              56677899*********9999977777626****985 PP

  == domain 2  score: 5.0 bits;  conditional E-value: 0.011
                  TackOD1 146 vykCnsCkslfsepevka 163
                               + C++Ck+ f+ep + +
  PHY93_05250|PHY93_05250  77 RFYCKKCKKPFTEPVTGI 94 
                              578999999999998765 PP

>> Anti-TRAP  Tryptophan RNA-binding attenuator protein inhibitory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   2.3e-05     0.038       8      42 ..      14      50 ..       7      54 .. 0.82
   2 ?   -2.0   0.1       2.3   3.7e+03      13      17 ..      80      84 ..      77      92 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 2.3e-05
                             HCEEE-TTTTTTSEETTE.........E.-TTTTTSSEE CS
                Anti-TRAP  8 eLEtkCdaCngsGkiepe...eprasle.CPkCsGkgli 42
                             eL  k  +C ++Gk ++e   e+ + +e CPkC  + ++
  PHY93_05250|PHY93_05250 14 EL--KIIKCLRTGKLDSEfelEKTSKFEvCPKCATRSWA 50
                             44..6689***********9988888877****999887 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 2.3
                             -TTTT CS
                Anti-TRAP 13 CdaCn 17
                             C++C+
  PHY93_05250|PHY93_05250 80 CKKCK 84
                             66665 PP

>> HTH_Tnp_ISL3  Helix-turn-helix domain of transposase family ISL3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   5.2e-05     0.085       1      22 [.      89     110 ..      89     111 .. 0.94

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 5.2e-05
             HTH_Tnp_ISL3   1 eelPwarrrsriTlrleayile 22 
                              e++  +r++ r T+r++  i++
  PHY93_05250|PHY93_05250  89 EPVTGIRKGFRTTERFRKHIMW 110
                              78999***************98 PP

>> Zn-ribbon_8  Zinc ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.7   0.2    0.0047       7.7      13      34 ..      28      46 ..      18      49 .. 0.71
   2 ?    6.3   0.1    0.0065        11       6      17 ..      78      89 ..      77     101 .. 0.83

  Alignments for each domain:
  == domain 1  score: 6.7 bits;  conditional E-value: 0.0047
              Zn-ribbon_8 13 hefevlqsisdapltaCPeCgs 34
                             +efe   + s  + ++CP+C  
  PHY93_05250|PHY93_05250 28 SEFELEKT-S--KFEVCPKCAT 46
                             46774443.3..3778****65 PP

  == domain 2  score: 6.3 bits;  conditional E-value: 0.0065
              Zn-ribbon_8  6 YrCeeCghefev 17
                             + C++C++ f++
  PHY93_05250|PHY93_05250 78 FYCKKCKKPFTE 89
                             88********84 PP

>> HypA  Hydrogenase/urease nickel incorporation, metallochaperone, hypA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.2   0.1    0.0061       9.9      78     101 ..      28      53 ..       8      64 .. 0.66
   2 ?    8.0   0.4    0.0017       2.8      87      98 ..      55      89 ..      27     101 .. 0.47

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.0061
                              -EEECHH.H.HHS-TTTSSS-EEEEE CS
                     HypA  78 kefelee.k.alrCpkCgsadveivs 101
                              +efele+ +  + CpkC +++  i +
  PHY93_05250|PHY93_05250  28 SEFELEKtSkFEVCPKCATRSWAIYD 53 
                              3555444323348****998877765 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.0017
                             H.......................S-TTTSSS-EE CS
                     HypA 87 l.......................rCpkCgsadve 98
                             +                        C+kC++  +e
  PHY93_05250|PHY93_05250 55 VwvrikdapirdrhiylkikkrrfYCKKCKKPFTE 89
                             12333444444444444444444444444444444 PP

>> DUF929  Domain of unknown function (DUF929)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.1   9.6e-05      0.16      68      82 ..      39      53 ..      37      55 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 9.6e-05
                   DUF929 68 egCPvgaaesWaLyi 82
                             e CP +a+ sWa+y 
  PHY93_05250|PHY93_05250 39 EVCPKCATRSWAIYD 53
                             78***********95 PP

>> NDUFB11  NADH-ubiquinone oxidoreductase 11 kDa subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.5   0.00013      0.21      16      65 ..      59     110 ..      51     116 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00013
                  NDUFB11  16 medPkerdrkarehvyevkekckklkelwslPlrP..yGfwtferhnaqlak 65 
                              + d   rdr++  ++ + +  ckk k+ ++ P+     Gf t+er+ +++++
  PHY93_05250|PHY93_05250  59 IKDAPIRDRHIYLKIKKRRFYCKKCKKPFTEPVTGirKGFRTTERFRKHIMW 110
                              456667999999999999999************86336*********99998 PP

>> Zn_Tnp_IS1595  Transposase zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   8.5     0.002       3.2      20      45 ..      40      85 ..      34      86 .. 0.82

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.002
            Zn_Tnp_IS1595 20 vCPhCgsrkayrikt.....................rglfqCkeCrk 45
                             vCP+C+ r ++ i +                      ++f Ck+C+k
  PHY93_05250|PHY93_05250 40 VCPKCATR-SWAIYDhvwvrikdapirdrhiylkikKRRFYCKKCKK 85
                             7*****55.44444447788888**********************97 PP

>> zf-C2H2  Zinc finger, C2H2 type
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.1      0.49     8e+02       6      11 ..      41      46 ..      39      55 .. 0.61
   2 ?    8.2   2.2    0.0023       3.8       1      12 [.      78      89 ..      78      92 .. 0.88
   3 ?    3.4   0.1     0.074   1.2e+02       8      21 ..      96     109 ..      95     110 .. 0.89

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.49
                             TTEEES CS
                  zf-C2H2  6 CgksFk 11
                             C+k+ +
  PHY93_05250|PHY93_05250 41 CPKCAT 46
                             555554 PP

  == domain 2  score: 8.2 bits;  conditional E-value: 0.0023
                             EEETTTTEEESS CS
                  zf-C2H2  1 ykCpdCgksFkr 12
                             ++C++C+k+F+ 
  PHY93_05250|PHY93_05250 78 FYCKKCKKPFTE 89
                             89********85 PP

  == domain 3  score: 3.4 bits;  conditional E-value: 0.074
                              EEESSHHHHHHHHH CS
                  zf-C2H2   8 ksFkrksnLkrHir 21 
                              k F++ + +++Hi+
  PHY93_05250|PHY93_05250  96 KGFRTTERFRKHIM 109
                              78**********96 PP

>> zf-C2H2_4  C2H2-type zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.0      0.23   3.8e+02       3      10 ..      41      49 ..      39      58 .. 0.64
   2 ?    6.9   1.4    0.0082        13       1      12 [.      78      89 ..      78      92 .. 0.87
   3 ?    2.9   0.2      0.15   2.5e+02       8      21 ..      96     109 ..      95     112 .. 0.86
   4 ?   -1.1   0.0       3.1     5e+03       5      12 ..     110     117 ..     109     118 .] 0.80

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.23
                zf-C2H2_4  3 CpiC.gksF 10
                             Cp C ++s+
  PHY93_05250|PHY93_05250 41 CPKCaTRSW 49
                             888855554 PP

  == domain 2  score: 6.9 bits;  conditional E-value: 0.0082
                zf-C2H2_4  1 fkCpiCgksFss 12
                             f+C+ C+k+F+ 
  PHY93_05250|PHY93_05250 78 FYCKKCKKPFTE 89
                             89********76 PP

  == domain 3  score: 2.9 bits;  conditional E-value: 0.15
                zf-C2H2_4   8 ksFsskkaLlrHlk 21 
                              k F++ +++++H+ 
  PHY93_05250|PHY93_05250  96 KGFRTTERFRKHIM 109
                              6899********85 PP

  == domain 4  score: -1.1 bits;  conditional E-value: 3.1
                zf-C2H2_4   5 iCgksFss 12 
                              +C+ +Fs+
  PHY93_05250|PHY93_05250 110 WCSDNFSN 117
                              59999976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (118 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       718  (0.0400469); expected 358.6 (0.02)
Passed bias filter:                      450  (0.025099); expected 358.6 (0.02)
Passed Vit filter:                        61  (0.00340231); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.38u 0.21s 00:00:00.59 Elapsed: 00:00:00.36
# Mc/sec: 989.71
//
Query:       PHY93_05780|PHY93_05780  [L=321]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.2e-11   42.8  51.5    1.7e-05   24.5   2.2    6.2  7  DUF346    Repeat of unknown function (DUF346)


Domain annotation for each model (and alignments):
>> DUF346  Repeat of unknown function (DUF346)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.8   0.9      0.66   1.2e+04      28      37 ..      58      70 ..      56      71 .. 0.75
   2 !   11.4   2.5   1.1e-05       0.2       4      38 ..      82     116 ..      81     117 .. 0.93
   3 !   13.4   2.9   2.7e-06     0.049       4      39 .]     127     162 ..     126     162 .. 0.87
   4 !   19.8   3.7   2.7e-08   0.00049       4      39 .]     172     207 ..     170     207 .. 0.87
   5 !   24.5   2.2   9.4e-10   1.7e-05       4      37 ..     217     250 ..     216     252 .. 0.89
   6 !    5.2   0.4   0.00096        17       4      13 ..     262     271 ..     260     297 .. 0.66
   7 ?   -3.6   0.0      0.57     1e+04       4      11 ..     307     314 ..     307     315 .. 0.88

  Alignments for each domain:
  == domain 1  score: -3.8 bits;  conditional E-value: 0.66
                   DUF346 28 dW...gGtiagdP 37
                             dW   gG  ++dP
  PHY93_05780|PHY93_05780 58 DWtsiGGIGTSDP 70
                             6888788888888 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 1.1e-05
                   DUF346   4 vFArgtdGtLyHwWWdpgdglkradW...gGtiagdPt 38 
                              vF rgtd++L   W+ +g+g++ + W   gG +++ P+
  PHY93_05780|PHY93_05780  82 VFVRGTDNAL---WFRTGKGTSWTPWtslGGILTSSPA 116
                              9*********...7787999***************995 PP

  == domain 3  score: 13.4 bits;  conditional E-value: 2.7e-06
                   DUF346   4 vFArgtdGtLyHwWWdpgdglkradWgGtiagdPtA 39 
                              vFArgtd++L  + +d++++ + ++ gG +++ P+A
  PHY93_05780|PHY93_05780 127 VFARGTDNALWQRSFDGSTWSNWQSLGGGLTSGPAA 162
                              9*********8888898888666666********98 PP

  == domain 4  score: 19.8 bits;  conditional E-value: 2.7e-08
                   DUF346   4 vFArgtdGtLyHwWWdpgdglkradW...gGtiagdPtA 39 
                              vF rgtd++L H+W ++g +     W   gG +++dP A
  PHY93_05780|PHY93_05780 172 VFVRGTDNALWHKWSTGGLW---SGWeslGGILTSDPGA 207
                              9***************9999...555555********65 PP

  == domain 5  score: 24.5 bits;  conditional E-value: 9.4e-10
                   DUF346   4 vFArgtdGtLyHwWWdpgdglkradWgGtiagdP 37 
                              vF rgtd++L H+W+++g++   ++ gG ++++P
  PHY93_05780|PHY93_05780 217 VFVRGTDNALWHKWFSEGTWSIWESLGGILTSAP 250
                              9*******************666666******99 PP

  == domain 6  score: 5.2 bits;  conditional E-value: 0.00096
                   DUF346   4 vFArgtdGtL 13 
                              vF rgtd++L
  PHY93_05780|PHY93_05780 262 VFVRGTDNAL 271
                              9********9 PP

  == domain 7  score: -3.6 bits;  conditional E-value: 0.57
                   DUF346   4 vFArgtdG 11 
                              vF +g d+
  PHY93_05780|PHY93_05780 307 VFVLGADN 314
                              899***99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (321 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       255  (0.0142228); expected 358.6 (0.02)
Passed bias filter:                      196  (0.010932); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.20s 00:00:00.65 Elapsed: 00:00:00.37
# Mc/sec: 2611.86
//
Query:       PHY93_00840|PHY93_00840  [L=227]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.033   14.1   0.0      0.071   13.0   0.0    1.5  1  Cas_csx3  CRISPR-associated protein (Cas_csx3)
       0.12   12.1   0.0       0.19   11.5   0.0    1.2  1  IL31      Interleukin 31


Domain annotation for each model (and alignments):
>> Cas_csx3  CRISPR-associated protein (Cas_csx3)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   7.9e-06     0.071      21      60 ..      19      59 ..      13      69 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 7.9e-06
                             .--TTSEEEEEESS-HHHHHH.HHHHTTTSSEEEEEETTT. CS
                 Cas_csx3 21 eidlkqgvvisGrgPiWlygy.lvhelhetawiavydprLe 60
                             +id ++g+vi G+  ++ y + + h++h++++i  +d+ L+
  PHY93_00840|PHY93_00840 19 AIDATHGMVIFGKDTLYAYHLpMFHKIHNKQMIFAFDVPLD 59
                             499**************9987589*************9995 PP

>> IL31  Interleukin 31
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   2.1e-05      0.19      35      88 ..     125     178 ..     115     192 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 2.1e-05
                     IL31  35 kekGvsesesyqlpcltsdreapnnin.ssailaylkaikplldnksdideiieq 88 
                                kGv ++e+y+l    +d+ a++ in s+ai   +k + ++   ++ id +i+ 
  PHY93_00840|PHY93_00840 125 ISKGVDNNEEYKLFGSKTDAYALHLINgSTAIDQIFKLVPTV-GSDASIDYVINS 178
                              459***********************9445777777777655.777888988875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (227 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       321  (0.017904); expected 358.6 (0.02)
Passed bias filter:                      265  (0.0147805); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.41u 0.17s 00:00:00.57 Elapsed: 00:00:00.34
# Mc/sec: 1989.02
//
Query:       PHY93_00845|PHY93_00845  [L=217]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.4e-48  164.2   0.0    2.8e-48  163.9   0.0    1.1  1  Methyltransf_3   O-methyltransferase
    4.4e-12   47.0   0.0    6.1e-12   46.5   0.0    1.2  1  Methyltransf_24  Methyltransferase domain
    5.1e-08   32.9   0.0    6.5e-08   32.5   0.0    1.2  1  Methyltransf_31  Methyltransferase domain
    1.4e-05   25.0   0.0    1.8e-05   24.6   0.0    1.1  1  PCMT             Protein-L-isoaspartate(D-aspartate) O-methyl
      2e-05   25.2   0.0    2.8e-05   24.7   0.0    1.3  1  Methyltransf_25  Methyltransferase domain
     0.0001   21.7   0.0    0.00014   21.3   0.0    1.1  1  Ubie_methyltran  ubiE/COQ5 methyltransferase family
     0.0012   19.4   0.0     0.0019   18.8   0.0    1.4  1  Methyltransf_11  Methyltransferase domain
     0.0032   17.0   0.0     0.0045   16.6   0.0    1.2  1  MTS              Methyltransferase small domain
  ------ inclusion threshold ------
      0.022   14.7   0.0       0.03   14.3   0.0    1.2  1  Methyltransf_18  Methyltransferase domain
      0.024   14.5   0.0      0.035   14.0   0.0    1.3  1  Methyltransf_23  Methyltransferase domain
       0.16   11.7   0.0       0.21   11.2   0.0    1.1  1  GCD14            tRNA methyltransferase complex GCD14 subunit


Domain annotation for each model (and alignments):
>> Methyltransf_3  O-methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  163.9   0.0   1.7e-51   2.8e-48      17     211 ..      27     217 .]      16     217 .] 0.93

  Alignments for each domain:
  == domain 1  score: 163.9 bits;  conditional E-value: 1.7e-51
                              HHHTTTST.TGGGS--HHHHHHHHHHHHHHT--EEEEE--TTSHHHHHHHTTS-TT-EEEEEES-HHHHHHHHHHHHHTT-GGGEE CS
           Methyltransf_3  17 reatakktdlsemevsvdegqfLslLvklvnakrvleiGvftGyslLatalalPeDGkilaididreayeialkfiqkagvaekie 102
                               + t  +   s+m +++ e+ f+++L++ ++akrvle+G+ftGys+L++a ++PeDG+i ++di++ ++++a++f+ k+  ++ki+
  PHY93_00845|PHY93_00845  27 EDYTRANVHGSQMLIGKMEASFIGFLLRSISAKRVLELGTFTGYSALTMAENIPEDGEIFTVDINESTVALAKEFWSKSQHGHKIK 112
                              56677888899*************************************************************************** PP

                              EEES-HHHHHHHHHTSSS---EEEEEE-S-GGGHHHHHHHHHHTEEEEEEEEEE-TTGGGGGG-S.S--SHHHHH.....HHHHHH CS
           Methyltransf_3 103 liegdalkvLeelvkdkklpefDfifvDaDkssyvnyyeklleLvkvGgliaiDntLWeGkvvee.ddeeakalreyravllelnk 187
                                 g++l ++  l+     + fDf+f+DaDk++y+ y + ++ ++   g+i+iDn+LW G vv   + + +++     +++  +n 
  PHY93_00845|PHY93_00845 113 SLLGNGLDIIPTLK-----APFDFVFIDADKRNYIDYLKLTVPMLSPRGIIVIDNALWSGRVVPGtELSGSDLHDRNTEFIRLVND 193
                              *********99885.....35******************************************985777777777788899999** PP

                              HHTT-TTEEEEEE-SBT-EEEEEE CS
           Methyltransf_3 188 klaeDprveisllsvgDGitLvrk 211
                               +a++p +  +ll+++DG++Lv k
  PHY93_00845|PHY93_00845 194 YIASEPTLYGTLLPIRDGMFLVTK 217
                              *********************976 PP

>> Methyltransf_24  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.5   0.0   3.7e-15   6.1e-12       1     105 [.      62     162 ..      62     163 .. 0.91

  Alignments for each domain:
  == domain 1  score: 46.5 bits;  conditional E-value: 3.7e-15
          Methyltransf_24   1 vEiGvysGvstlwllralrrngagrlvavdhdpgaeeaaalare....aglddrvrlikadseealaslaagsiDllfiDgghaae 82 
                              +E+G++ G+s+l +++ + + g+  +++vd ++    + ala+e    ++  + ++ + ++  + +++l+  ++D++fiD++  ++
  PHY93_00845|PHY93_00845  62 LELGTFTGYSALTMAENIPEDGE--IFTVDINE---STVALAKEfwskSQHGHKIKSLLGNGLDIIPTLK-APFDFVFIDAD--KR 139
                              7*******************996..********...54455554444499999*****************.*********87..9* PP

          Methyltransf_24  83 avledleallprlapggvvlfdD 105
                               ++++l++  p+l+p+g++++d+
  PHY93_00845|PHY93_00845 140 NYIDYLKLTVPMLSPRGIIVIDN 162
                              **********************8 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.5   0.0     4e-11   6.5e-08       3     110 ..      57     161 ..      55     186 .. 0.84

  Alignments for each domain:
  == domain 1  score: 32.5 bits;  conditional E-value: 4e-11
          Methyltransf_31   3 kglrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielAre..naqklgldnveFeqgdiee.leklledekfDlilsnevln 85 
                              +++rvl+lG+ tG+ ++ +ae++ +++e++ +Di+e  + lA+e    +++g + ++   g+  + +++l + ++fD+++ +   +
  PHY93_00845|PHY93_00845  57 SAKRVLELGTFTGYSALTMAENIPEDGEIFTVDINESTVALAKEfwSKSQHGHK-IKSLLGNGLDiIPTL-K-APFDFVFID---A 136
                              6899*****************9999*******************8777777776.**********9**85.4.89*****98...4 PP

          Methyltransf_31  86 aladpdkileeiervlkpggillie 110
                              +  +  ++l+     l+p gi++i+
  PHY93_00845|PHY93_00845 137 DKRNYIDYLKLTVPMLSPRGIIVID 161
                              5555555555555666666666655 PP

>> PCMT  Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.6   0.0   1.1e-08   1.8e-05      61     150 ..      44     136 ..      28     156 .. 0.86

  Alignments for each domain:
  == domain 1  score: 24.6 bits;  conditional E-value: 1.1e-08
                              HHHHHHHHTT.--TT-EEEEES-TTSHHHHHHHHHHCTTCEEEEEESBHHHHHHHHHHHHHCTTC.SEEEEES-GGGTTGG.G-SE CS
                     PCMT  61 mvalalelle.lkkgarvLevGsGsGyltavlarlvgekgrvvsierikelveeakrnlkkldle.nvivvvgDGrkGyee.kaPY 143
                              m a ++ +l      +rvLe+G+ +Gy +  +a+ + e+g + +++  ++ v+ ak+   k++   +++   g G    +  kaP+
  PHY93_00845|PHY93_00845  44 MEASFIGFLLrSISAKRVLELGTFTGYSALTMAENIPEDGEIFTVDINESTVALAKEFWSKSQHGhKIKSLLGNGLDIIPTlKAPF 129
                              6677776655455789****************************************99877665449*********9998747*** PP

                              EEEEESS CS
                     PCMT 144 daihvga 150
                              d +++ a
  PHY93_00845|PHY93_00845 130 DFVFIDA 136
                              **99987 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.7   0.0   1.7e-08   2.8e-05       1      71 [.      61     135 ..      61     156 .. 0.85

  Alignments for each domain:
  == domain 1  score: 24.7 bits;  conditional E-value: 1.7e-08
                              EEEET-TTSHHHHHHHCTST.SSEEEEEESSHHHHHHHHHHHHHTTT..TEEEEESBCCG.BSSSTTTEEEEEEE CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrlg.kakvtgvDiseemleaareraeeegl..nvefvqgdaed.lpfedgsfDlvvss 71 
                              vL+lG+ tG  +l +a++++ ++++  vDi+e+ ++ a+e  ++++   +++ + g+  d +p  ++ fD+v++ 
  PHY93_00845|PHY93_00845  61 VLELGTFTGYSALTMAENIPeDGEIFTVDINESTVALAKEFWSKSQHghKIKSLLGNGLDiIPTLKAPFDFVFID 135
                              8******************559*****************9999865566*********99679999******984 PP

>> Ubie_methyltran  ubiE/COQ5 methyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.0   8.5e-08   0.00014      47     135 ..      57     147 ..      40     160 .. 0.86

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 8.5e-08
                              -TTEEEEES-TT-HHHHHHHHHHHHHHEEEEEES-HHHHHHHHHHH.HHHTSSTEEEEE--TTT.-TTS-T-EEEEEEES-GGG-S CS
          Ubie_methyltran  47 rgakvlDvagGtgDlafklsdsvgekgkvvvlDinenmLkvgekkl.keegkinieflqanaee.LpfeddsfDvvtvsfGlrnvt 130
                              ++++vl++ + tg  a+++++++ e g++  +Dine+ +  +++   k +   +i+ l +n+ + +p  +  fD+v +    rn  
  PHY93_00845|PHY93_00845  57 SAKRVLELGTFTGYSALTMAENIPEDGEIFTVDINESTVALAKEFWsKSQHGHKIKSLLGNGLDiIPTLKAPFDFVFIDADKRNYI 142
                              567899************************************99761455556*********87369999**************** PP

                              -HHHH CS
          Ubie_methyltran 131 Dklka 135
                              D+lk 
  PHY93_00845|PHY93_00845 143 DYLKL 147
                              *9874 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.0   1.2e-06    0.0019       1      67 [.      62     134 ..      62     160 .. 0.92

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 1.2e-06
                              EEET-TTSHHHHHHHHTT...SEEEEEES-HHHHHHHHHHCCHHT-..EEEETTEECCCT.SS-TT-EEEEEE CS
          Methyltransf_11   1 LdvGcGtGrlaealakrg...arvvgvDlskemlklakekaseegl..kvefvvadaekl.pfednsfDlvvs 67 
                              L++G+ tG+ a  +a++    +++++vD+++ +++lake  s++++  k++ + ++  ++ p  ++ fD+v++
  PHY93_00845|PHY93_00845  62 LELGTFTGYSALTMAENIpedGEIFTVDINESTVALAKEFWSKSQHghKIKSLLGNGLDIiPTLKAPFDFVFI 134
                              799999*********8888999******************99999999999********77**********97 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   2.8e-06    0.0045      19      88 ..      36     117 ..      30     134 .. 0.78

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 2.8e-06
                              HHHHHHHHCHCC.........TCSEEEEET-TTSHHHHHHHHHTTC.E.EEEEESBHHHHHHHHHHHHHTTGC..EEEEE-S CS
                      MTS  19 GsklLletlpke.........lsgkvlDlGcGaGvlgaalakespeae.vtlvdvdarAlesakenleankle..vevvasd 88 
                              Gs++L+ +++++          +++vl lG+ +G+ ++++a++ pe   +  vd++   +++ake ++++++   ++ +  +
  PHY93_00845|PHY93_00845  36 GSQMLIGKMEASfigfllrsiSAKRVLELGTFTGYSALTMAENIPEDGeIFTVDINESTVALAKEFWSKSQHGhkIKSLLGN 117
                              7777777777777777776667789*******************98766****************99887765335555555 PP

>> Methyltransf_18  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0   1.8e-05      0.03      16      79 ..      59     123 ..      52     135 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.8e-05
          Methyltransf_18  16 srvaDiGtDHgylpiylvkegkak.kviasDinegplekakeniekagledkievrlsdGleklk 79 
                              +rv+  Gt  gy ++ ++++   + ++  +Dine+ ++ ake  +k+++ +ki+  l++Gl+ + 
  PHY93_00845|PHY93_00845  59 KRVLELGTFTGYSALTMAENIPEDgEIFTVDINESTVALAKEFWSKSQHGHKIKSLLGNGLDIIP 123
                              678888999999999998887654278899*******************************9885 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   2.1e-05     0.035      20      71 ..      55     107 ..      38     164 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 2.1e-05
          Methyltransf_23  20 lraggrvLdiGcGtGillevlrengf...svtgvDlspeaveiaekakkaqkdqf 71 
                                + +rvL++G+ tG+ +  ++en     ++  vD+++  v++a+   ++ k+q+
  PHY93_00845|PHY93_00845  55 SISAKRVLELGTFTGYSALTMAENIPedgEIFTVDINESTVALAK--EFWSKSQH 107
                              56789*******************877899********9999985..33333333 PP

>> GCD14  tRNA methyltransferase complex GCD14 subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   0.00013      0.21      16      86 ..      32     103 ..      26     120 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00013
                    GCD14  16 aLphrtqily.taDisliimkLelkpGsvvvesGtGsgslshaiartvaPtGhlftfefheqraekareefr 86 
                              a  h  q+l  +++ s+i + L+     +v+e Gt +g  + ++a  +   G +ft++  e+ +  a+e + 
  PHY93_00845|PHY93_00845  32 ANVHGSQMLIgKMEASFIGFLLRSISAKRVLELGTFTGYSALTMAENIPEDGEIFTVDINESTVALAKEFWS 103
                              5567778765367899***********************9*********************99999876554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (217 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       262  (0.0146132); expected 358.6 (0.02)
Passed bias filter:                      260  (0.0145016); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.42u 0.19s 00:00:00.61 Elapsed: 00:00:00.34
# Mc/sec: 1897.52
//
Query:       PHY93_00850|PHY93_00850  [L=362]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.2e-35  120.4   0.0    1.2e-34  119.5   0.0    1.3  1  DAHP_synth_1   DAHP synthetase I family
    6.9e-13   48.7   5.0    1.1e-12   48.2   4.0    1.9  2  CM_2           Chorismate mutase type II
  ------ inclusion threshold ------
      0.049   13.8   0.0       0.16   12.2   0.0    1.9  2  DUF2007        Putative prokaryotic signal transducing protei
      0.071   12.7   2.8       0.12   11.9   2.8    1.3  1  Fzo_mitofusin  fzo-like conserved region


Domain annotation for each model (and alignments):
>> DAHP_synth_1  DAHP synthetase I family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  119.5   0.0   2.7e-38   1.2e-34      18     267 ..      18     259 ..      13     266 .. 0.89

  Alignments for each domain:
  == domain 1  score: 119.5 bits;  conditional E-value: 2.7e-38
                              SEEEEEEESC-S-HHHHHHHHHHHHHHHHHHTTTEEEEEESSSC-S.SSTTS-SHTTHHHTHHHHHHHHHHHT-EEEEEESSCCTH CS
             DAHP_synth_1  18 rllviaGPCsiedpeaaleyAerlkklgeklkddleiimrayfeKpRrstvgfkGlindpdlkilsrikkelglpiatevldpisv 103
                                lviaGPCs e+ +++l++A++lk++ +  k   +++ ++   KpR+ +++f G+++   l +l ++kk+ gl + tev   ++v
  PHY93_00850|PHY93_00850  18 EPLVIAGPCSAESLDQMLTTANALKNIPAV-K---IFRAGIW--KPRTRPNNFEGVGEIA-LPWLTEVKKQSGLLTTTEVATAKHV 96 
                              569************************887.4...7777788..*************999.************************* PP

                              HHHHHH.ESEEEE-CTCTTB....HHHHHHHHTTSSEEEEEE-TTHHHHHHHHHHHHHHHTTEEE--EEEEEEEEEESTSSSSSCH CS
             DAHP_synth_1 104 qyladv.vdiiqiGArttes....qdllelasglskpvglKngtdvaidemkaaaekilflgvetkgiilcerglrggkktnrdve 184
                              + + ++ vdi+ iGArtt +    q+  ++  g++ pv +Kn  ++ ++ +  a e++ ++g+  ++ii  +rg +  +k  +  +
  PHY93_00850|PHY93_00850  97 ELCLKHgVDILWIGARTTANpfsvQEIADALKGVNIPVMIKNPINADLQLWIGAIERLNNAGI--NKIIAIHRGFSVADKLEFRND 180
                              *9877659**********99433344445556789***************************6..********************* PP

                              CHHHHHHHHHHC.TSS-EEEESCHHHTTCGGGGHHHHHHHHHHHHHTTESEEEEEBBSSCCC-SSTGGGGBBCTCBHHHHHHHH CS
             DAHP_synth_1 185 dvaavkilkeet.gklpvmvDvsHansrkdykrqkkvlklakaaiaaGiaGvmiEshlnpgkalsdgkqalkygksetdacilk 267
                               +  ++++++ +  +lp++ D+sH ++ ++      + k+ ++a+   + G++iE+h+ p++a sd++q+ ++++++t+ ++l 
  PHY93_00850|PHY93_00850 181 PLWRIPMELKVKfPELPLICDPSHITGDRE-----LIQKVCQKAMDLNMNGLIIETHPTPESAWSDAAQQVTPERLKTILSQLS 259
                              ****998877551466**************.....99999999******************************88888776654 PP

>> CM_2  Chorismate mutase type II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0       2.6   1.1e+04      39      50 ..     248     259 ..     244     268 .. 0.74
   2 !   48.2   4.0   2.4e-16   1.1e-12       1      74 [.     278     355 ..     278     356 .. 0.94

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 2.6
                              HHHHHHHHHHHH CS
                     CM_2  39 peReaevlerle 50 
                              peR + +l++l+
  PHY93_00850|PHY93_00850 248 PERLKTILSQLS 259
                              788888887765 PP

  == domain 2  score: 48.2 bits;  conditional E-value: 2.4e-16
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTSGSS-HHHHHHHHHHHHH.HH...S-HHHHHHHHHHHHHHHHHHH CS
                     CM_2   1 RkeIdeiDdeileLLaeRaelakevgeyKkeeglpvydpeReaevlerlee.ga...ldeeaierifreiisasralq 74 
                              R++Id++D+e+l+ L+ R +++++++ +K e++ + ++ +R +++++++ + g+   l+e +i++if +i++ s++lq
  PHY93_00850|PHY93_00850 278 RHQIDRLDNELLHTLKHRKDVVEKIANAKIEQKITALQRNRFDQLMKERIDaGKslgLEELFIKEIFDAIHDQSVKLQ 355
                              99***************************************9999999888644688********************9 PP

>> DUF2007  Putative prokaryotic signal transducing protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   3.5e-05      0.16       6      34 ..     113     141 ..     108     153 .. 0.86
   2 ?   -2.9   0.0       1.8     8e+03      18      29 ..     152     163 ..     150     164 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 3.5e-05
                  DUF2007   6 rtndpveaelikslLeeagIeavvkdeft 34 
                              +t++p+ ++ i ++L+  +I++++k+  +
  PHY93_00850|PHY93_00850 113 TTANPFSVQEIADALKGVNIPVMIKNPIN 141
                              89************************874 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 1.8
                  DUF2007  18 slLeeagIeavv 29 
                              ++L++agI+ ++
  PHY93_00850|PHY93_00850 152 ERLNNAGINKII 163
                              5799****8665 PP

>> Fzo_mitofusin  fzo-like conserved region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   2.8   2.8e-05      0.12      77     140 ..     248     311 ..     238     329 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 2.8e-05
            Fzo_mitofusin  77 tekLrlivsltsancshqvqqelsstfarlcqqvdetekeleeeikelekeiekleevqkkakl 140
                               e+L++i s+ s + +h+ + +++  +++l++q+d+ ++el + +k+ +  +ek+++++ + k+
  PHY93_00850|PHY93_00850 248 PERLKTILSQLSIKTEHSNNANFEAQLNNLRHQIDRLDNELLHTLKHRKDVVEKIANAKIEQKI 311
                              589**************************************************99887655543 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (362 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1143  (0.0637515); expected 358.6 (0.02)
Passed bias filter:                      625  (0.0348597); expected 358.6 (0.02)
Passed Vit filter:                        55  (0.00306766); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.57u 0.22s 00:00:00.78 Elapsed: 00:00:00.40
# Mc/sec: 2690.30
//
Query:       PHY93_00855|PHY93_00855  [L=314]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.1e-08   33.2   0.0    1.1e-07   32.0   0.0    1.5  2  WYL       WYL domain
  ------ inclusion threshold ------
      0.065   13.0   0.0       0.12   12.2   0.0    1.3  1  RRM       Putative RRM domain


Domain annotation for each model (and alignments):
>> WYL  WYL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0      0.69   6.2e+03      71      89 ..      67      86 ..      63     123 .. 0.62
   2 !   32.0   0.0   1.3e-11   1.1e-07      13     164 ..     149     299 ..     137     304 .. 0.86

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 0.69
                      WYL 71 detfepp.dfdlakylsksf 89
                             +++++++ +f+l+++l+ ++
  PHY93_00855|PHY93_00855 67 KDKCRIKmEFSLSEWLALQA 86
                             55666565677777776333 PP

  == domain 2  score: 32.0 bits;  conditional E-value: 1.3e-11
                      WYL  13 rrrvefrYrspagegeertvePyglvlkngrwYLvaydekrdeirtfrldRiselelldetfeppdf..dlakylsksfgvfkspv 96 
                              ++ ++++ ++  +  +e  v P++lv+ +g + +++++ + +++ +f ++ i+++     ++ep+    ++++++ +   +  +++
  PHY93_00855|PHY93_00855 149 KKSITIEFLN--N--KECVVFPHRLVFLDGILCVIGESVHDKSLVFFGVEDIKDVMDFNHEYEPNLSqiEVNEFICHLRLINGKEE 230
                              5666666666..4..6999********************************************99442489999999888888788 PP

                      WYL  97 evkvrf.speaarrvrerrfpdqkieeedddgsvrvelpvesleellswllsfgdeveVlePaeLreev 164
                              ++ +++ s+  a  ++ ++f     +++  +g+ ++ +++e  ++l +wl  + d++eVl+P ++r+ +
  PHY93_00855|PHY93_00855 231 RLILKIySQYEADLLPSHHFLGNPFVTSNTEGEMIWAATIEVCDDLFQWLYNMKDRAEVLDPGHVRKDF 299
                              88888746667777888888888888889*************************************987 PP

>> RRM  Putative RRM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   1.3e-05      0.12      13      32 ..     240     259 ..     238     267 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 1.3e-05
                      RRM  13 YgasLLPShLLvgSPFissP 32 
                              Y a LLPSh  +g PF++s 
  PHY93_00855|PHY93_00855 240 YEADLLPSHHFLGNPFVTSN 259
                              8899*************985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (314 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       809  (0.0451224); expected 358.6 (0.02)
Passed bias filter:                      434  (0.0242066); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.20s 00:00:00.68 Elapsed: 00:00:00.37
# Mc/sec: 2523.15
//
Query:       PHY93_00860|PHY93_00860  [L=306]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-22   80.7   0.2    1.6e-22   80.3   0.2    1.2  1  PseudoU_synth_2  RNA pseudouridylate synthase
  ------ inclusion threshold ------
      0.055   13.4   1.9       0.22   11.5   0.1    2.2  2  Endopep_inhib    IseA DL-endopeptidase inhibitor


Domain annotation for each model (and alignments):
>> PseudoU_synth_2  RNA pseudouridylate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   80.3   0.2   1.8e-26   1.6e-22       1     160 []     102     261 ..     102     261 .. 0.95

  Alignments for each domain:
  == domain 1  score: 80.3 bits;  conditional E-value: 1.8e-26
          PseudoU_synth_2   1 dlvvvnKPagvpvqpeak....dgsekekettatssraeeekkelklvhRLDkatsGllllAksseaanklakafeerkvrKkYla 82 
                              +++v+nKPa++ v+p       ++ +  + ++a++   ++++   +l  RLD +tsG+l++ k++ea + l++ f+    +K+Yl+
  PHY93_00860|PHY93_00860 102 NFLVMNKPANLFVHPLVYdeknNCLSFLRVNKAACLAVNTKNYDRGLLYRLDFETSGVLVYVKNEEAYQYLREHFKTIAKKKTYLC 187
                              689************998677777888888888888888*********************************************** PP

          PseudoU_synth_2  83 lvfgapeeeegaikkkiskdtekqegarrkaeeldgkkavtylkvlksgsseksakvslveleletGrkhQiRvhlaa 160
                              +v+ ++   +g + +++s +  k+++  ++ +e++g++ +  l++l+++   + + ++l+e+ l++G +hQiR++la+
  PHY93_00860|PHY93_00860 188 VVE-GECRLNGNFTHYFSSKEIKGKRVIVSDNESKGERGELSLRPLHYD---SRTSTTLMEVDLKSGLRHQIRAQLAH 261
                              **8.*********************************************...************************97 PP

>> Endopep_inhib  IseA DL-endopeptidase inhibitor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.9   0.2     0.045   4.1e+02      48      69 ..      43      70 ..      40      78 .. 0.65
   2 ?   11.5   0.1   2.4e-05      0.22      41      96 ..     165     229 ..     152     246 .. 0.87

  Alignments for each domain:
  == domain 1  score: 0.9 bits;  conditional E-value: 0.045
                             --TTSS.SHHHHHHHHTT.....TB-HH CS
            Endopep_inhib 48 lkddin.tkeklfnYLne.....yfTke 69
                             lk++++ + +kl +Y+ +     +fTk 
  PHY93_00860|PHY93_00860 43 LKSNFKaSGSKLKKYFDKsflnrSFTKH 70
                             6666652457888887773333366665 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 2.4e-05
                              TTEEEEE--TTSSSHHHHHHHHTT.........TB-HHHHHHHHHTTT-EEETTEEEEE------ CS
            Endopep_inhib  41 kgkeYaklkddintkeklfnYLne.........yfTkeaiekiikdlkfkeidgklavpvgdggs 96 
                              ++++Y++l + ++t +k   YL            fT+ +++k ik  +++++d++     g+++ 
  PHY93_00860|PHY93_00860 165 NEEAYQYLREHFKTIAKKKTYLCVvegecrlngNFTHYFSSKEIKGKRVIVSDNESKGERGELSL 229
                              7899*******************999***************************987766666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (306 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       546  (0.0304535); expected 358.6 (0.02)
Passed bias filter:                      432  (0.024095); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.19s 00:00:00.69 Elapsed: 00:00:00.37
# Mc/sec: 2465.85
//
Query:       PHY93_00865|PHY93_00865  [L=63]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (63 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       302  (0.0168442); expected 358.6 (0.02)
Passed bias filter:                      275  (0.0153383); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.34u 0.23s 00:00:00.57 Elapsed: 00:00:00.38
# Mc/sec: 503.37
//
Query:       PHY93_00870|PHY93_00870  [L=387]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.9e-54  183.9   0.0    4.8e-54  183.6   0.0    1.1  1  Chorismate_bind  chorismate binding enzyme


Domain annotation for each model (and alignments):
>> Chorismate_bind  chorismate binding enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  183.6   0.0   2.7e-58   4.8e-54       3     258 .]     122     379 ..     120     379 .. 0.90

  Alignments for each domain:
  == domain 1  score: 183.6 bits;  conditional E-value: 2.7e-58
                              CHHHHHHHHHHHHHHTTS-SEEEEEEEEEECESS-B-HHHHHHHHHCTBSSSEEEEE....EETTEEEEEEESSEEEEEETTSEEE CS
          Chorismate_bind   3 edYaeavekvkeeiragdlykvvlsrrlkaeleaavdplalyralrarnpapysfll....eledsellgaSPElllkveggrrie 84 
                              edY++++e+  ee+ +g++y+ +l+  + +++++ + p +++ +l + + +  ++       + ++ +l+ SPE+l++ +++ ++ 
  PHY93_00870|PHY93_00870 122 EDYKKSFETGYEELLKGNCYQFNLTYPYLYSFKEYLRPEDFLFSLWRDKASRGAYGSatyiPFFKKLFLSNSPECLFQHREK-TLS 206
                              89************************************999999988655544433322334434568************66.*** PP

                              EECEEEEEEHSSSHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCBSCCEEEEECCEEEEEETTEEEEEEEEEEEESTT--HH CS
          Chorismate_bind  85 tepiaGTrargktpeedealeeelledeKeraEhlmivdlirndLgkvakpgsvkvpelfkverysevlhlvstiegelkedvsll 170
                               +pi+GT +r +  e+ + l ++l++d+K +aE  mi dl+rndL+++ ++ + ++ +    + ++ +lh +s+i  el+ +v+l+
  PHY93_00870|PHY93_00870 207 AMPIKGTLKRID-SEDWKPLWKTLVNDKKSQAELYMISDLLRNDLSRI-EFPRAQIVKKKFPKLVPGLLHQYSQIDVELSASVNLW 290
                              ********8855.55788899***************************.7888888888889999********************* PP

                              HHHHHCSS-CCCSEESHHHHHHHHHHHSSS--TTTTSEEEEEETTS-EEEEEE-SEEEE..ETTEEEEEEEEEEETT--HHHHHHH CS
          Chorismate_bind 171 dllkalfPtgavtGaPkkrameiidelEearRgvYaGavgyldadgeaelavvIRtavv..kdkelrlgaGaGIvadSdpeaEyeE 254
                              +++++lfP+g++tGaPkkr+m++i+elE+++Rg+Y+G+ ++l ++    ++++IR+ vv  ++ ++ ++aG+GI+  S+ e+Ey+E
  PHY93_00870|PHY93_00870 291 KVIEKLFPGGSITGAPKKRSMRLIQELEKRERGFYCGSTLILYKEM-KSASINIRSSVVdfENYTMLYQAGGGITLLSEVEDEYKE 375
                              ******************************************9776.699*********88888999******************* PP

                              HHHH CS
          Chorismate_bind 255 tlaK 258
                              ++ K
  PHY93_00870|PHY93_00870 376 MTYK 379
                              9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (387 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       466  (0.0259914); expected 358.6 (0.02)
Passed bias filter:                      382  (0.0213063); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.20s 00:00:00.70 Elapsed: 00:00:00.37
# Mc/sec: 3137.21
//
Query:       PHY93_00875|PHY93_00875  [L=449]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      1e-98  329.8   0.0    1.6e-98  329.1   0.0    1.3  1  DnaB_C    DnaB-like helicase C terminal domain
    4.8e-25   87.6   0.2    1.7e-24   85.8   0.0    2.1  3  DnaB      DnaB-like helicase N terminal domain
    3.1e-14   53.0   0.0    4.7e-14   52.4   0.0    1.2  1  AAA_25    AAA domain
    1.3e-06   28.0   0.2    3.7e-06   26.5   0.0    1.8  2  ATPase    KaiC
     0.0084   15.7   0.0      0.016   14.8   0.0    1.4  1  PSY3      Shu complex component Psy3, DNA-binding description
  ------ inclusion threshold ------
       0.12   11.2   0.0       0.23   10.2   0.0    1.4  1  AAA_35    AAA-like domain


Domain annotation for each model (and alignments):
>> DnaB_C  DnaB-like helicase C terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  329.1   0.0  5.5e-102   1.6e-98       1     255 []     189     443 ..     189     443 .. 0.98

  Alignments for each domain:
  == domain 1  score: 329.1 bits;  conditional E-value: 5.5e-102
                              SBXSSTHHHHHHCTSBXTTXEEEEEEXTTSSHHHHHHHHHHHHHHCSTSEEEEEESSSXHHHHHHHHHHHHHTXXHHHHHHTTSXH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   DnaB_C   1 GlstgfkdLDkltsGlqkgdliiiAarpsmGktalalniaenaavkeklpvavfslemsaeqlvqRllsseaeidskklrtgklke 86 
                              Glstg+ +LD+l+ G+q+g+li++Aarp+mGkt+laln+a +a++++ lp+++fslem a++l +Rll+ +a++dsk++r+  + +
  PHY93_00875|PHY93_00875 189 GLSTGYPRLDELLLGMQPGQLIVLAARPAMGKTSLALNVAVSACIQSGLPCVIFSLEMLATELSMRLLTGRAKVDSKRVRKKAFLD 274
                              9*********************************************************************************9999 PP

                              HHHHHHHHHHHHHHHSEEEEEEXSSXCHHHHHHHHHHHHHHTTEEEEEEEEGGGTBTSCSSSCCCHHHHHHHHHHHHHHHHCTSXE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   DnaB_C  87 edweklteaieelseaklfiddtpaltvseirskarrlkkekglgliviDyLqlmegseekenreqevseisrsLkalakelnvpv 172
                              +d++++++a++els+++++i+d+ ++t+ +i+s+ r++k+++glgliviDyLqlm +++++ +req+++eisr+Lk++akel +pv
  PHY93_00875|PHY93_00875 275 TDLRSIAKATQELSSLPIYINDSGNTTILDIQSQSRKIKADQGLGLIVIDYLQLMGSTSKNIQREQQIAEISRGLKTMAKELGCPV 360
                              9*******************************************************876567************************ PP

                              EEEEEXSGGGCCSCCHSXXHHHHCCTTSCCCCXSEEEEEEECCHHHHHHCHHCEEEEEEEEETTSXXEEEEEEEETTTTEEEX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   DnaB_C 173 ialsqLsravesredkrPvlsDLreSgsieqdADvvlflyrdeyykedseekgkaeiiiaKhRnGptgtvklafekeytrFen 255
                              ialsqL+r vesr +krP  +DLreSg+ieqdAD+v+f+yrde+y +d++e g+aeii+ K+R G++gt kla+ + yt Fen
  PHY93_00875|PHY93_00875 361 IALSQLNRGVESRPNKRPSTADLRESGAIEQDADIVMFVYRDEVYYPDTKEPGIAEIIVGKNRAGEIGTAKLAWVGAYTSFEN 443
                              **********************************************99999******************************97 PP

>> DnaB  DnaB-like helicase N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.8   0.0   5.7e-28   1.7e-24       2     103 .]      13     115 ..      12     115 .. 0.97
   2 ?   -2.9   0.0       2.5   7.5e+03      33      66 ..     141     174 ..     139     188 .. 0.52
   3 ?   -3.4   0.0       3.6   1.1e+04      29      50 ..     266     287 ..     261     290 .. 0.77

  Alignments for each domain:
  == domain 1  score: 85.8 bits;  conditional E-value: 5.7e-28
                              HHHHHHHHHHHHHHHHHSTTHHHHHHC.C--GGGSSSHHHHHHHHHHHHHHHTTTS-SHHHHHHHSCSSS-GGHGT.HHHHHHHHH CS
                     DnaB   2 ppqsieaEqavLgalLldpeaidevad.ilkpedFyepahrliFeailelyekgepiDlvtvkeelekkgkledvggaaylaelva 86 
                              +p+++ aE+a +g+l++d + +de+++ ++++++Fy+p++ +iF++i +l  ++++iD vtv ++l++kgkle+vgg++++ +lv+
  PHY93_00875|PHY93_00875  13 LPHDLLAEKAMVGCLIIDGSVFDEISNlKITQDHFYDPRYGIIFDVIADLSLANRAIDYVTVCSKLQEKGKLEEVGGQSFVLSLVE 98 
                              79***********************983579******************************************************* PP

                              C-S-CCCHHHHHHHHHH CS
                     DnaB  87 avpsaanieeyaeivke 103
                              + +s+an+ +ya+ivk+
  PHY93_00875|PHY93_00875  99 DQASSANVYDYAKIVKD 115
                              ***************97 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 2.5
                              GGSSSHHHHHHHHHHHHHHHTTTS-SHHHHHHHS CS
                     DnaB  33 edFyepahrliFeailelyekgepiDlvtvkeel 66 
                              +dF ++     F+  ++ ++ +      t+k+ l
  PHY93_00875|PHY93_00875 141 DDFIQEVESSFFKLTNDAKTGSMVKLNATLKQNL 174
                              5666666666666555544443333334444444 PP

  == domain 3  score: -3.4 bits;  conditional E-value: 3.6
                              C--GGGSSSHHHHHHHHHHHHH CS
                     DnaB  29 ilkpedFyepahrliFeailel 50 
                               ++++ F ++  r i +a +el
  PHY93_00875|PHY93_00875 266 RVRKKAFLDTDLRSIAKATQEL 287
                              5778889888888888888777 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.4   0.0   1.6e-17   4.7e-14      11     190 ..     186     367 ..     177     371 .. 0.83

  Alignments for each domain:
  == domain 1  score: 52.4 bits;  conditional E-value: 1.6e-17
                   AAA_25  11 svadlaapppprrwlvkgllpagelallaGapgtGKttlaldlalava..tGkpwlgpvapeqgkVlyvsaEdsedelrrRlravg 94 
                              ++++l +  p+++ l+ g+   g l++la++p+ GKt lal++a++ +  +G            ++++ s+E+ + el  Rl   +
  PHY93_00875|PHY93_00875 186 EISGLSTGYPRLDELLLGMQ-PGQLIVLAARPAMGKTSLALNVAVSACiqSG-----------LPCVIFSLEMLATELSMRLLTGR 259
                              677888889999*******5.6**************************5444...........489*****************888 PP

                   AAA_25  95 eal..........rddarllvldlagv.eslpLfakdrggtlltadvdaleaaieevegvrlvviDplsralggdensnsd..vga 167
                              +++           d +   + ++ ++  slp++ +d+g+t++  d++   ++i++  g++l+viD l+ + + ++n +++  +++
  PHY93_00875|PHY93_00875 260 AKVdskrvrkkafLDTDLRSIAKATQElSSLPIYINDSGNTTI-LDIQSQSRKIKADQGLGLIVIDYLQLMGSTSKNIQREqqIAE 344
                              88888766666532223334555888899***********996.589999******99************99996666655337** PP

                   AAA_25 168 lvealeriarrtgaavllvhHvg 190
                              +   l+ +a+++g+ v+++ +++
  PHY93_00875|PHY93_00875 345 ISRGLKTMAKELGCPVIALSQLN 367
                              *****************998876 PP

>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0      0.57   1.7e+03     167     190 ..     135     157 ..     103     188 .. 0.51
   2 !   26.5   0.0   1.2e-09   3.7e-06       2     167 ..     191     371 ..     190     397 .. 0.75

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 0.57
                   ATPase 167 seeaaggygveefivdgvivLdlk 190
                              s+++     ++e + +  ++L+++
  PHY93_00875|PHY93_00875 135 SYSGDADDFIQE-VESSFFKLTND 157
                              333333333333.33333333333 PP

  == domain 2  score: 26.5 bits;  conditional E-value: 1.2e-09
                   ATPase   2 ktgIeglDeilkgGipegrvvlitGepGtGKtifalqFlikgaekygepgvfvtveepaedlrenak..slGwdlekleeegklai 85 
                              +tg + lDe+l  G+  g+ + ++  p  GKt +al+ +++ + + g p+v+ ++e  a++l  +    +  +d ++++++  +  
  PHY93_00875|PHY93_00875 191 STGYPRLDELL-LGMQPGQLIVLAARPAMGKTSLALNVAVSACIQSGLPCVIFSLEMLATELSMRLLtgRAKVDSKRVRKK-AFLD 274
                              7999******9.99*********************************************9998887644889999999999.4444 PP

                   ATPase  86 idasesaeesaee.......kdkedleelieelaeaikeika....krvviDsitgl....ayeekeavaReilrqlvrvlkklgv 156
                               d+ + a+   ++         +++ +  i ++++  ++ika      +viD ++ +    +++++e+++ ei r l+++ k+lg+
  PHY93_00875|PHY93_00875 275 TDLRSIAKA--TQelsslpiYINDSGNTTILDIQSQSRKIKAdqglGLIVIDYLQLMgstsKNIQREQQIAEISRGLKTMAKELGC 358
                              455444443..3346899995555555555566666666666444378****9987731122344555566666777777799999 PP

                   ATPase 157 Tailvsekss..s 167
                                i  s+ +   +
  PHY93_00875|PHY93_00875 359 PVIALSQLNRgvE 371
                              9999999877333 PP

>> PSY3  Shu complex component Psy3, DNA-binding description
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.0   5.2e-06     0.016     112     194 ..     295     382 ..     270     397 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 5.2e-06
                     PSY3 112 ldspleALkrcqq...edsldkqLsgilidNlSylssepks.....klklLlkllkklrktfgcwvittsygleyyeGienslstl 189
                              +ds  +++   q+   + ++d+ L  i+id l  + s +k+     +++++++ lk+++k++gc vi  s   + + G+e+  ++ 
  PHY93_00875|PHY93_00875 295 NDSGNTTILDIQSqsrKIKADQGLGLIVIDYLQLMGSTSKNiqreqQIAEISRGLKTMAKELGCPVIALS---QLNRGVESRPNKR 377
                              4444444443333233778999**********988666666677779*********************99...5677888866665 PP

                     PSY3 190 vrsss 194
                               ++ +
  PHY93_00875|PHY93_00875 378 PSTAD 382
                              55555 PP

>> AAA_35  AAA-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0   7.8e-05      0.23      29      70 ..     205     247 ..     201     256 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 7.8e-05
                   AAA_35  29 kpGalirikapkkmGKtSLlaril.akakqqgyktvsldlqla 70 
                              +pG+li + a   mGKtSL  ++  + + q+g   v ++l+ +
  PHY93_00875|PHY93_00875 205 QPGQLIVLAARPAMGKTSLALNVAvSACIQSGLPCVIFSLEML 247
                              8******************887751455566777777777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (449 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       585  (0.0326287); expected 358.6 (0.02)
Passed bias filter:                      479  (0.0267165); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.40
# Mc/sec: 3328.96
//
Query:       PHY93_00880|PHY93_00880  [L=202]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    5.9e-21   74.7   2.3    5.9e-21   74.7   2.3    2.1  2  Ribosomal_L9_C  Ribosomal protein L9, C-terminal domain
    4.4e-19   67.8   1.4      7e-19   67.1   0.2    2.1  2  Ribosomal_L9_N  Ribosomal protein L9, N-terminal domain


Domain annotation for each model (and alignments):
>> Ribosomal_L9_C  Ribosomal protein L9, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.7   2.3   6.5e-25   5.9e-21       2      85 ..      64     145 ..      63     146 .. 0.97
   2 ?   -0.9   0.7      0.26   2.3e+03      19      66 ..     168     181 ..     149     200 .. 0.41

  Alignments for each domain:
  == domain 1  score: 74.7 bits;  conditional E-value: 6.5e-25
                              HHHHHHHHHSS..-EEEE--B-TT-BBSS---HHHHHHHHHHHT-----GGGEE-TTT-SBSSEEEEEEESSSS-EEEEEEEEE CS
           Ribosomal_L9_C   2 eaealaekLeakvkvtikakagedgklFGsVtakdIaealkkklgieidkkkieleepiktlGeyevtvkLhkevtakikveVv 85 
                              +a++l+ k+e ++++++ +k+g++gklFG+Vt+++++++l++  g+e++++ i+le pik lG ++++ k+ ++v+a++k++V 
  PHY93_00880|PHY93_00880  64 AANELKVKIE-GMTIELIKKVGASGKLFGTVTNAELSKELESR-GVEVERRLIHLEAPIKGLGIFNAKAKIFQDVEATFKIKVS 145
                              79********.7888***************************9.**************************************95 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.26
                              E--B-TT-BBSS---HHHHHHHHHHHT-----GGGEE-TTT-SBSSEE CS
           Ribosomal_L9_C  19 kakagedgklFGsVtakdIaealkkklgieidkkkieleepiktlGey 66 
                               +ka+++                                  +k+ G +
  PHY93_00880|PHY93_00880 168 RKKAAAE----------------------------------LKASGAT 181
                              3333333..................................3333322 PP

>> Ribosomal_L9_N  Ribosomal protein L9, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.1   0.2   7.8e-23     7e-19       1      45 [.       1      45 [.       1      47 [. 0.97
   2 ?   -3.0   0.1      0.64   5.7e+03       4      13 ..      78      87 ..      75      89 .. 0.49

  Alignments for each domain:
  == domain 1  score: 67.1 bits;  conditional E-value: 7.8e-23
                             -EEEESSCBTTTBSSS-EEE--HHHHHHTTTTTTSEEE-SHHHHH CS
           Ribosomal_L9_N  1 MkVILlkdVkglGkkGdvveVkdGyaRNyLipqglAvyAtpenlk 45
                             MkVIL+++V+ lG+ G++v+V++G aRNyL+p+g+A+ A  +n++
  PHY93_00880|PHY93_00880  1 MKVILTEKVPALGNIGEIVNVSAGHARNYLVPNGFAMVADDSNKN 45
                             9******************************************98 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 0.64
                             EESSCBTTTB CS
           Ribosomal_L9_N  4 ILlkdVkglG 13
                              L+k+V   G
  PHY93_00880|PHY93_00880 78 ELIKKVGASG 87
                             4555554444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (202 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1885  (0.105137); expected 358.6 (0.02)
Passed bias filter:                      680  (0.0379274); expected 358.6 (0.02)
Passed Vit filter:                        57  (0.00317921); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.42
# Mc/sec: 1451.76
//
Query:       PHY93_00885|PHY93_00885  [L=335]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.4e-21   75.0  25.2    6.6e-21   74.7  25.2    1.1  1  DUF2232   Predicted membrane protein (DUF2232)
  ------ inclusion threshold ------
       0.91    8.9   9.9        0.2   11.1   0.5    2.2  2  DUF373    Domain of unknown function (DUF373)


Domain annotation for each model (and alignments):
>> DUF2232  Predicted membrane protein (DUF2232)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.7  25.2   7.4e-25   6.6e-21       6     290 .]      24     318 ..      21     318 .. 0.82

  Alignments for each domain:
  == domain 1  score: 74.7 bits;  conditional E-value: 7.4e-25
                  DUF2232   6 lfllslyiPvlgiilafllPlPiilltlrhgrkygllallvaa....vllllfggpllallllilfgllGlvlGyllkkkksaert 87 
                              l+++s+ +  +g +  +++P+P+il  l +gr ++l++  +++     +++ f+ pl+ + + ++  l +l++++ + ++ ++ + 
  PHY93_00885|PHY93_00885  24 LAVISVALCSFGPLS-VFAPVPLILAFLLYGRLTTLFIGGICTsalwFVSVKFAIPLVIAGMYLTAFLYALLIAEVILRNINPVKG 108
                              444455555555544.889***************99965554430135555566666666777777899****************9 PP

                  DUF2232  88 liagtlafllgillafallalllgvnllaqvekeikesveealklyeeaGm...sedelkelqk..lleee.vslllrllPallvi 167
                              li++ ++ +  +   ++++ ++++ ++ a+++ ++ + +  +++  ++ ++   +++e+ ++q+  +  ee ++ +  +lPa++++
  PHY93_00885|PHY93_00885 109 LIYAGIILVTLVGGSLIAYNQFSKTSVKAELKASVVKLMAMVKEQNKNNEAltsNGEEARAFQDfiSRPEElANEIYGVLPAAIFV 194
                              999999999999999***********7777777777777777777777766887555555554412333445999999******** PP

                  DUF2232 168 asllaaflnyllakkil..krlklk.vpklppfrewklPesliwlliiilllllllkkeegslatyiglnllvvlgfllfiqGlav 250
                              ++++  +++++ + + +   r+k++   +l+++ +++ P+ ++w li++l++++  ++   ++a++ig+nll+ lg+ +++qG+ v
  PHY93_00885|PHY93_00885 195 FAFFGLWISLYMTLRNSasWRFKHPySFSLKDLINFRAPDFFVWPLILSLVCVVGADYGLPKVAEVIGTNLLYSLGVFYLFQGFGV 280
                              **********9998876447999997789************************999999999************************ PP

                  DUF2232 251 isyylkrkklpkalrvlilvllillpfllllvailGliDl 290
                                 +lk +k+  +l+++++v+++++   + ++ailG++Dl
  PHY93_00885|PHY93_00885 281 YNAFLKYLKIGGFLKTMFVVFTLVMA--YKFLAILGMFDL 318
                              *********************99987..9999*******7 PP

>> DUF373  Domain of unknown function (DUF373)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.0   3.4     0.013   1.1e+02     160     238 ..      44     133 ..      23     229 .. 0.59
   2 ?   11.1   0.5   2.2e-05       0.2     163     240 ..     244     320 ..     231     333 .. 0.77

  Alignments for each domain:
  == domain 1  score: 2.0 bits;  conditional E-value: 0.013
                   DUF373 160 plGlllliyallll............lglpelalaiillllGlylllrGfgldelleelleklkesleegritfvtyvvallllli 233
                              pl l++l+y+ l++            + ++++a+ ++++ + l  +l+++ + e++ + ++ +k  +++g i +vt v + l+++ 
  PHY93_00885|PHY93_00885  44 PLILAFLLYGRLTTlfiggictsalwFVSVKFAIPLVIAGMYLTAFLYALLIAEVILRNINPVKGLIYAGII-LVTLVGGSLIAYN 128
                              455566667666666664444444332222333333333333333555666666665566666665555533.3344433333333 PP

                   DUF373 234 giisg 238
                               + ++
  PHY93_00885|PHY93_00885 129 QFSKT 133
                              33322 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 2.2e-05
                   DUF373 163 lllliyalllllglpelalaiillllGlylllrGfgldelleelleklkesleegritfvtyvvallllligiisgyi 240
                              l+ ++ a   l +++e++ + +l  lG++ l++Gfg+++++ ++l k+  +l++  ++f  +++  +l+++g++    
  PHY93_00885|PHY93_00885 244 LVCVVGADYGLPKVAEVIGTNLLYSLGVFYLFQGFGVYNAFLKYL-KIGGFLKTMFVVFTLVMAYKFLAILGMFDLWF 320
                              3333333334477778888899999**************988777.89999999999999999999999999987655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (335 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1195  (0.0666518); expected 358.6 (0.02)
Passed bias filter:                      640  (0.0356964); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.23s 00:00:00.80 Elapsed: 00:00:00.40
# Mc/sec: 2526.25
//
Query:       PHY93_05785|PHY93_05785  [L=185]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (185 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       478  (0.0266607); expected 358.6 (0.02)
Passed bias filter:                      381  (0.0212505); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.20s 00:00:00.61 Elapsed: 00:00:00.36
# Mc/sec: 1554.06
//
Query:       PHY93_00890|PHY93_00890  [L=211]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      2e-15   56.8   0.0    3.9e-15   55.9   0.0    1.5  1  Ribosomal_S6   Ribosomal protein S6
    4.1e-12   46.1   0.0      7e-12   45.4   0.0    1.4  1  Ribosomal_S18  Ribosomal protein S18
  ------ inclusion threshold ------
       0.12   12.4   0.0       0.15   12.0   0.0    1.3  1  CENP-O         Cenp-O kinetochore centromere component


Domain annotation for each model (and alignments):
>> Ribosomal_S6  Ribosomal protein S6
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.9   0.0   6.6e-19   3.9e-15       2      89 ..       3      91 ..       2      92 .. 0.98

  Alignments for each domain:
  == domain 1  score: 55.9 bits;  conditional E-value: 6.6e-19
                             EEEEEEE-TTS-HHHHHHHHHHHHHHHHHTTEEEEEEEEEEEEEEEEEETTE.EEEEEEEEEEEESCCHHHHHHHHHHCSTTEEEEEE CS
             Ribosomal_S6  2 YElvfilrpelseeevkelvekvgklilenggvvrkveswGkrkLaypikkk.teGyyvlmnfdaspevikelertlrldervlRyli 88
                             YEl ++++pel +e+ ++++e v+++++  +g++   ++wGk +La+p  +  ++G+++++ f+++ ++ +el r++ ++e v+R+++
  PHY93_00890|PHY93_00890  3 YELSVVTKPELGAEAHAQIAEIVKDTLKGFEGELLIADDWGKLHLAQPYANGaKHGHFHYFMFKSNTQANTELTRRFGINEGVMRSMV 90
                             ************************************************99877**********************************8 PP

                             E CS
             Ribosomal_S6 89 v 89
                             +
  PHY93_00890|PHY93_00890 91 F 91
                             5 PP

>> Ribosomal_S18  Ribosomal protein S18
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.4   0.0   1.2e-15     7e-12       1      51 [.     151     201 ..     151     201 .. 0.96

  Alignments for each domain:
  == domain 1  score: 45.4 bits;  conditional E-value: 1.2e-15
            Ribosomal_S18   1 kkekidYkdvelLsqFiterGkIlprriTGlcakhQrklakaIkrARhlaL 51 
                              kk+k d+kd+++    ++e GkI p r++G+++khQr    aIk AR+l++
  PHY93_00890|PHY93_00890 151 KKIKADWKDPQTWNWLVSEFGKISPARVSGISMKHQRFSNSAIKHARNLGI 201
                              57899*******************************************995 PP

>> CENP-O  Cenp-O kinetochore centromere component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   2.5e-05      0.15     128     204 ..     121     197 ..      60     202 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 2.5e-05
                   CENP-O 128 eeeeseer.eeelesrelkivslsaadleakqiriewadgrvgrlvisddGevekavvigesgkrdkeleeallggdg 204
                              +++e++e+  e+ e+ + k ++ +   + ak+i+ +w+d ++ +  +s+ G+++ a v+g s  ++++++++++++++
  PHY93_00890|PHY93_00890 121 NKREDDEEgFEDMEDDRRKFAKRKSCWFTAKKIKADWKDPQTWNWLVSEFGKISPARVSGISM-KHQRFSNSAIKHAR 197
                              2223333356778888899999999999**************************999999888.77788877777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (211 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       645  (0.0359752); expected 358.6 (0.02)
Passed bias filter:                      459  (0.025601); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.39u 0.21s 00:00:00.60 Elapsed: 00:00:00.34
# Mc/sec: 1838.12
//
Query:       PHY93_00895|PHY93_00895  [L=953]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.3e-42  146.1   0.0    2.4e-42  145.2   0.1    1.4  2  Peptidase_S8  Subtilase family


Domain annotation for each model (and alignments):
>> Peptidase_S8  Subtilase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  145.2   0.1   1.4e-46   2.4e-42       2     296 ..      75     353 ..      74     354 .. 0.80
   2 ?   -4.2   0.0      0.43   7.8e+03     195     224 ..     838     867 ..     822     871 .. 0.83

  Alignments for each domain:
  == domain 1  score: 145.2 bits;  conditional E-value: 1.4e-46
                              TT-EEEEECS-B-TT-TTTGGGEEE..EE.EE---TTSG.GGEETT-SS-TT-SC-SSS....HHHHHHHHHH-B..SSSSSB-SS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8   2 kgvlvavlDtGvdpshpdlsvttdgerkl.vdvideegagfngadsettstnwarddngnsieHGthvAGiaaanapeegekngva 86 
                              k+ +vavlD+G d +hpdl+  +  + kl ++  + ++  +ng +  ++++n a+d  g    HGthvAG++aan +  g +    
  PHY93_00895|PHY93_00895  75 KELIVAVLDSGMDIDHPDLKGRVWFNEKLcTNAPNAKILACNGFNFLDGNNNVADDV-G----HGTHVAGVIAANRNTIGIAGAAD 155
                              7789****************8776555541444445555555555555555555554.5....************66666666666 PP

                              TTSEEEEEE-SSTTSB-HH.......HHHHHHHHHHHHCT-SEEEE-EESCETTCHHCHHHHHH.HHHHHH.CCT-EEEEE--SS- CS
                              xxxxxxxxxxxxxxxxxxxxx.....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8  87 pgakilsvkvldtsggsmetg.....teliraieeaaedkvdvinmslgestslpktgrsieal.ainravnkkgvlvviSaGNng 166
                                +ki  +kvl+ + +    +     + +++a+  a++++++vin+slg    +pk  +  +   a++ a+ +++v+v++++GNn+
  PHY93_00895|PHY93_00895 156 SRIKIMPIKVLNSQVNGFVYNgklitDVIADAMVFAIKNGAEVINLSLG----WPKLIDTAKIRqAFQMAE-DQNVIVIAASGNNN 236
                              889********999876544410012334456888899***********....555555443334888888.99************ PP

                              T-HHEEE-TTCEECTTTSTTCEEEEEESTTSSB-TT--B-TT.......-EEEE-S-CCCCCCCCCHHHTTTHH.EEEE-SHHHCH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxx RF
             Peptidase_S8 167 ktgsslqagspvgtpstsknvitvgayttegkiapfSsrGpssdgklkpdivapGgnivstwsrqsnnsaglss.yqsmsGTSmAs 251
                              k+           +p+ ++nv+ vga+++ g++ +fS++G+++      d+vapG+ i+st++r+ ++   + s y+ + G+S+A+
  PHY93_00895|PHY93_00895 237 KDLP--------TFPCAYENVVCVGAIDNRGELTDFSNHGSKV------DLVAPGEYIISTIPRNLESRVLRISnYEVKRGSSQAA 308
                              4444........68***************************76......7****************998888778*********** PP

                              HHHHHHHHHHHHHHTT--HHHHHHHHHCCS-EE......SSSSSS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8 252 PnaagaaAlllsalpkltpetvraallntAqdlgkadniesfaqG 296
                              P +++a+A l+  +p lt+++vr++l ++A++l++a n    ++G
  PHY93_00895|PHY93_00895 309 PYVTAAVATLKLLNPGLTNDKVRSLLFKSARPLVMAHNNRFVKFG 353
                              *********************************999776665555 PP

  == domain 2  score: -4.2 bits;  conditional E-value: 0.43
                              TTSSB-TT--B-TT.......-EEEE-S-C CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8 195 tegkiapfSsrGpssdgklkpdivapGgni 224
                              + + i+  ++ G  sd ++  d ++pG+n 
  PHY93_00895|PHY93_00895 838 NRSTISFLTTEGVRSDLPVYRDSSFPGQNF 867
                              567788889999999999999999999994 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (953 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       363  (0.0202465); expected 358.6 (0.02)
Passed bias filter:                      322  (0.0179597); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.70u 0.24s 00:00:00.94 Elapsed: 00:00:00.43
# Mc/sec: 6682.32
//
Query:       PHY93_00900|PHY93_00900  [L=1009]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0045   17.2   0.0       0.32   11.3   0.0    3.2  3  YqaH      Uncharacterized YqaH-like
  ------ inclusion threshold ------
       0.01   15.9   0.6      0.046   13.8   0.5    2.3  2  RAP       RAP domain


Domain annotation for each model (and alignments):
>> YqaH  Uncharacterized YqaH-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.0     0.035   3.1e+02       5      73 ..     164     240 ..     161     244 .. 0.71
   2 ?   -1.8   0.0      0.46   4.1e+03      36      65 ..     261     289 ..     252     304 .. 0.84
   3 !   11.3   0.0   3.6e-05      0.32      17      49 ..     305     337 ..     293     346 .. 0.90

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.035
                     YqaH   5 hfLkaDrek.....aerliksaeeLvselLaealke...gDfegaielagsivvlskDlkrlehkekvvrLyeiask 73 
                              +fLk D++      a+r +k ++eL  el   a+ e    Df ++     +  ++s+ l+ l  +  ++ L+e   k
  PHY93_00900|PHY93_00900 164 QFLKKDVPEntlgaADRWVKNVNELTLELQDVAVTEpseTDFYNVAMGVPTQTINSRTLRSLLLPYSLLDLFESVNK 240
                              7999999844444499*********9998888997522267666555555667788888888888888888776655 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 0.46
                     YqaH  36 gDfegaielagsivvlskDlkrlehkekvv 65 
                              +Df  ++e a  ++ + + l+r+e ke vv
  PHY93_00900|PHY93_00900 261 NDFATTLEDAQWMIRRINKLSRIEIKE-VV 289
                              7999999999999999999***99999.55 PP

  == domain 3  score: 11.3 bits;  conditional E-value: 3.6e-05
                     YqaH  17 liksaeeLvselLaealkegDfegaielagsiv 49 
                              +i+s ++ vs l++e +ke Df++ i++  s++
  PHY93_00900|PHY93_00900 305 KIISRRNSVSRLFSEKVKEMDFNQKISIGESLK 337
                              7899************************99886 PP

>> RAP  RAP domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.5   5.1e-06     0.046      18      57 ..     127     168 ..     103     169 .. 0.79
   2 ?   -3.4   0.0       1.2   1.1e+04       7      14 ..     600     608 ..     596     612 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 5.1e-06
                      RAP  18 gktklKkriLsklGykvinIpyfeWnql..knkedkveylkk 57 
                               +  l+k++L+klGyk+  I y +   +  ++ e+++++lkk
  PHY93_00900|PHY93_00900 127 HTLLLRKNLLRKLGYKIPAIKYLKKVFIqfNSVEEREQFLKK 168
                              67789*****************98777666999999999987 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 1.2
                      RAP   7 shyykns.k 14 
                               h+yk+s k
  PHY93_00900|PHY93_00900 600 VHFYKKSpK 608
                              6****9944 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1009 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       783  (0.0436723); expected 358.6 (0.02)
Passed bias filter:                      500  (0.0278878); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.77u 0.23s 00:00:01.00 Elapsed: 00:00:00.41
# Mc/sec: 7429.50
//
Query:       PHY93_00905|PHY93_00905  [L=395]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (395 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       498  (0.0277762); expected 358.6 (0.02)
Passed bias filter:                      412  (0.0229795); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 2895.48
//
Query:       PHY93_00910|PHY93_00910  [L=282]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (282 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       554  (0.0308997); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.38
# Mc/sec: 2200.89
//
Query:       PHY93_00915|PHY93_00915  [L=1031]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.035   14.2   0.2        3.6    7.8   0.0    2.9  2  CtsR_C    CtsR C-terminal dimerization domain
       0.18   12.7   1.9       0.48   11.3   0.8    2.3  2  Vasculin  Vascular protein family Vasculin-like 1


Domain annotation for each model (and alignments):
>> CtsR_C  CtsR C-terminal dimerization domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   0.0   0.00041       3.6      11      36 ..     504     529 ..     499     530 .. 0.93
   2 ?    3.1   0.1     0.012     1e+02      23      67 ..     837     882 ..     816     884 .. 0.79

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.00041
                   CtsR_C  11 nsigdsiseqdaeaiiqrLleeglit 36 
                              ++i++++se+da+++++ ++e+++++
  PHY93_00915|PHY93_00915 504 KAIESKMSEADADKLVKTFVEQKFMN 529
                              689*******************9986 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.012
                   CtsR_C  23 eaiiqrLleegliterEakLmkaals...drvLdl..pleerdelRAriL 67 
                              +a+i+ L+++g +++    L+k++++   ++++d+  ++e+   lRA +L
  PHY93_00915|PHY93_00915 837 KALIDSLYNNGALDQ----LLKSMVRsevKNAFDKmaESELPKDLRAALL 882
                              789999999999986....5666666555599999999999999999998 PP

>> Vasculin  Vascular protein family Vasculin-like 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.8   5.3e-05      0.48      31      88 ..     328     385 ..     321     395 .. 0.80
   2 ?   -3.4   0.0         2   1.8e+04      12      25 ..     850     863 ..     838     873 .. 0.69

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 5.3e-05
                 Vasculin  31 lplTedElkEFkskseqlkknglgkngfllqsrsltlklsplrnstlkaavnedsdse 88 
                              + lT d ++ Fk   e  +kn+++k+g+l   ++ t  ++++   ++ +++ + ++ +
  PHY93_00915|PHY93_00915 328 AKLTTDKVQSFKECIEDQQKNNIRKDGMLDTAKCETAITNDITYKVVAKTLVQTANDS 385
                              789**************************99999999999998777766664444333 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 2
                 Vasculin  12 hrLlkemgwqeese 25 
                              ++Llk+m+ +e ++
  PHY93_00915|PHY93_00915 850 DQLLKSMVRSEVKN 863
                              56888888777643 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1031 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1068  (0.0595683); expected 358.6 (0.02)
Passed bias filter:                      512  (0.0285571); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.78u 0.29s 00:00:01.07 Elapsed: 00:00:00.46
# Mc/sec: 6747.88
//
Query:       PHY93_00920|PHY93_00920  [L=131]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.1e-11   44.9   0.0    1.2e-11   44.7   0.0    1.0  1  Response_reg  Response regulator receiver domain
  ------ inclusion threshold ------
      0.037   14.3   0.0      0.045   14.0   0.0    1.1  1  OKR_DC_1_N    Orn/Lys/Arg decarboxylase, N-terminal domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.7   0.0   1.4e-15   1.2e-11       1     110 [.      11     122 ..      11     124 .. 0.94

  Alignments for each domain:
  == domain 1  score: 44.7 bits;  conditional E-value: 1.4e-15
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHH.ESEEEEESSCSSSEHHHHHHHHHHCT..TTSEEEEEESSTSH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeek.vdlillDinmpgmdGlellkeireed..pelpviiltahsee 83 
                              ++ivd++  +r+ l++ l+ +g+ +v+ a+ g  +l++l+++k + l+++  +m +m+  e+++ +r+++   +lp+++++  ++e
  PHY93_00920|PHY93_00920  11 IFIVDENVQFRNTLASRLRLQGF-SVEFATGGFHLLHILEKHKdCSLVIMHEDMLDMSAEEIISLVRTTKnkTDLPILFISHGGNE 95 
                              89*********************.***************88888**********************98886688************ PP

                              HHHHHHHHCTESEEEESSG-HHHHHHH CS
             Response_reg  84 edavealkagaddflsKpfdpeeLlka 110
                              e++ e++  ga++++ K  + + ++++
  PHY93_00920|PHY93_00920  96 EEICEMIFNGANEYIIKTENFQPIVDR 122
                              *****************9998888776 PP

>> OKR_DC_1_N  Orn/Lys/Arg decarboxylase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   5.1e-06     0.045       8      94 ..      23     114 ..      18     126 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 5.1e-06
               OKR_DC_1_N   8 elaealekegfevvgvtstdDllsvieqnsriaavvlsvd...deaaelldeirern..edlPvFllaetrtsedvpadvlreidg 88 
                               la++l+ +gf+v  +t    ll+++e++ + + v++  d    +a+e+++ +r ++  +dlP+  +++  ++e++   +++ +++
  PHY93_00920|PHY93_00920  23 TLASRLRLQGFSVEFATGGFHLLHILEKHKDCSLVIMHEDmldMSAEEIISLVRTTKnkTDLPILFISHGGNEEEICEMIFNGANE 108
                              68999999*********9999***********9999998899889999****998862268*******999***********9999 PP

               OKR_DC_1_N  89 fielle 94 
                              +i   e
  PHY93_00920|PHY93_00920 109 YIIKTE 114
                              986554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (131 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       645  (0.0359752); expected 358.6 (0.02)
Passed bias filter:                      497  (0.0277205); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.39u 0.25s 00:00:00.64 Elapsed: 00:00:00.38
# Mc/sec: 1021.54
//
Query:       PHY93_00925|PHY93_00925  [L=406]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.8e-79  265.3   0.0    8.9e-79  265.1   0.0    1.0  1  Iso_dh    Isocitrate/isopropylmalate dehydrogenase


Domain annotation for each model (and alignments):
>> Iso_dh  Isocitrate/isopropylmalate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  265.1   0.0     5e-83   8.9e-79       1     347 [.       5     397 ..       5     398 .. 0.94

  Alignments for each domain:
  == domain 1  score: 265.1 bits;  conditional E-value: 5e-83
                              EEEEEEESTTHHHHHHHHHHHHHHHHHHHT-EEEEEE---THHHHHHHSSSS-HHHHHHHHHSSEEEEEE---CSSSSSSHHH.HH CS
                   Iso_dh   1 kiallegdgiGpevveaalkvlkaakekaglelefeevdvGgaaidetgeplpeetleaikeadvvllgavgtpkekevrpen.gL 85 
                              k+a++ ++ +G+e+++ ++k +k++   ++l+l+++++d+G + +det+++++ +++eaik+++v +++a++tp+  e+r+ +  L
  PHY93_00925|PHY93_00925   5 KVANPVVELDGDEMTRIIWKFIKDKLILPYLDLDIKYYDLGMEHRDETNDQVTIDAAEAIKKYNVGIKCATITPD--EARVTEfKL 88 
                              689999*********************************************************************..66766667* PP

                              HHHHHHTT.EEEEEEEEE-B.CCTTCCSSBTHHHHCT.-EEEEEEE-SSCGGCSSEEEEET...................TG.GGG CS
                   Iso_dh  86 laLrkeld.lfanlrpvkvf.eklkvksplkrevvee.vdlvivReltggiYfgeekekkg...................siftee 149
                              ++++k+++ +++n++ ++vf e++ +k+ ++  v+++ + ++i R+++g++Y +++ + kg                   + + + 
  PHY93_00925|PHY93_00925  89 KEMWKSPNgTIRNILDGTVFrEPIICKNVPR-LVPNWtKPIMIGRHAFGDQYKATDFVTKGpgkltltfegvngekiskeVYTFKG 173
                              *******99***********999*****999.6****899*************************************996334556 PP

                              EEEEEEEEEHHH.HHHHHHHHHHHHHHTTTSEEEEEESTTTTHHHH.HHHHHHHHHHCC......TTTTSEEEEEEHHHHHHHHHH CS
                   Iso_dh 150 vavdtklyseee.ieriaraafelAlkrgkkkvtlvdKanvlksse.lwrkiveevaee......eypdielehqlvDsaamqlvk 227
                               +v +++y+++e i+ +a+  f++Al++ k++++ + K+++lk+++ ++++i+++++e+      e  +i++eh+l+D++++ ++k
  PHY93_00925|PHY93_00925 174 DGVALAMYNTDEsIKGFAHSCFNMALTK-KWPLYFSSKNTILKKYDgRFKDIFQDIYENdykkkfESLGITYEHRLIDDMVASALK 258
                              79**********99**************.******************************8888888889***************** PP

                              SGGGGS.EEEE-HHHHHHHHHHHHHHTTSGCC-EEEEEET.SS-EEEEESS---CCCTTSS-......S-THHHHHHHHHHHHHTT CS
                   Iso_dh 228 spkqfd.VivtkNlfGDilSDeaaalvGslGllpSaslge.kkvaifEavHGsapdiagkdk......aNpiavilSaalmLrysl 305
                                   d ++++kN++GD++SD +a+ +GslGl++S+ + + +k++ +Ea+HG+++++++ ++      +Npia+i+++++ L ++ 
  PHY93_00925|PHY93_00925 259 WH--GDfIWACKNYDGDVQSDTVAQGFGSLGLMTSVLITPdGKTMEAEAAHGTVTRHFRMHQqgkptsTNPIASIFAWTRALGHRG 342
                              *9..666*********************************8999*****************99*********************99 PP

                              T-HHHH......HHHHHHHHHHHHHTSCCHHHCTTS.......TCCCHHHHHHHH CS
                   Iso_dh 306 gleeaA......dkiekAvekvleagivTkDlagea.......akevstsefgda 347
                              +l+++       + +ek + +++e+g++TkDla          +++++t++f da
  PHY93_00925|PHY93_00925 343 KLDNNPelihfcETLEKVCVETVESGKMTKDLAVCIygekittEQYLTTEKFLDA 397
                              99999899999999******************99877667777777777777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (406 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       574  (0.0320152); expected 358.6 (0.02)
Passed bias filter:                      481  (0.026828); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.41
# Mc/sec: 2988.61
//
Query:       PHY93_00930|PHY93_00930  [L=124]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
     0.0019   17.8   0.2     0.0045   16.6   0.1    1.6  2  Aconitase_2_N  Aconitate hydratase 2 N-terminus


Domain annotation for each model (and alignments):
>> Aconitase_2_N  Aconitate hydratase 2 N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.1   2.5e-07    0.0045       3      50 ..      12      59 ..      10      77 .. 0.87
   2 ?   -1.0   0.0     0.063   1.1e+03     128     144 ..      87     102 ..      64     121 .. 0.52

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 2.5e-07
                             EEEEEEEEEHHHHS-GGGGGGTTSHHHHHCCTT-S-BTTSHHHHHHHH CS
            Aconitase_2_N  3 vfkveGetntDdlsPasdAwsRsDiplHakamlkkkaeeelkaieelk 50
                              f+v+ etn Ddls a++A   + +++ ++  +k++ +++  a++e++
  PHY93_00930|PHY93_00930 12 AFNVKAETNSDDLSLADEAIQAPTMDIEGQYQVKEEVKAAPVAVKEIR 59
                             699*******************************99999777777765 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.063
                              -EEEEETTTTEEEETT- CS
            Aconitase_2_N 128 dvieikpkegkikkeeg 144
                              + i i+ k ++i+  ++
  PHY93_00930|PHY93_00930  87 NKIMIERKMEQIRF-QQ 102
                              33333333333333.22 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (124 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1259  (0.0702214); expected 358.6 (0.02)
Passed bias filter:                      429  (0.0239277); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.42
# Mc/sec: 889.13
//
Query:       PHY93_00935|PHY93_00935  [L=389]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
      0.065   13.3   0.8      0.065   13.3   0.8    3.3  3  NYD-SP28_assoc  Sperm tail C-terminal domain


Domain annotation for each model (and alignments):
>> NYD-SP28_assoc  Sperm tail C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.7     0.091   1.6e+03      20      34 ..      71      85 ..      54     108 .. 0.58
   2 ?   13.3   0.8   3.6e-06     0.065      30      56 ..     161     187 ..     159     189 .. 0.93
   3 ?    1.1   0.0     0.024   4.4e+02      46      59 ..     228     241 ..     213     242 .. 0.72

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.091
           NYD-SP28_assoc 20 alekaLekYhevLte 34
                             +le+ L+k   +L +
  PHY93_00935|PHY93_00935 71 QLEVDLQKKEDLLDQ 85
                             333334444444444 PP

  == domain 2  score: 13.3 bits;  conditional E-value: 3.6e-06
           NYD-SP28_assoc  30 evLteRaklieetesLekqNeeLrnlL 56 
                              ++L ++++++++++ L+k+N+eL+  L
  PHY93_00935|PHY93_00935 161 KLLDDKEEVLKRVDGLKKENDELKLKL 187
                              789*********************988 PP

  == domain 3  score: 1.1 bits;  conditional E-value: 0.024
           NYD-SP28_assoc  46 ekqNeeLrnlLkqy 59 
                              + +N+eL  l+ q+
  PHY93_00935|PHY93_00935 228 KSENSELMALMSQM 241
                              458********996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (389 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      3443  (0.192035); expected 358.6 (0.02)
Passed bias filter:                      512  (0.0285571); expected 358.6 (0.02)
Passed Vit filter:                        66  (0.00368119); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.77u 0.29s 00:00:01.06 Elapsed: 00:00:00.49
# Mc/sec: 2402.14
//
Query:       PHY93_05790|PHY93_05790  [L=457]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.7e-13   50.8   0.0    2.7e-13   50.1   0.0    1.3  1  rve       Integrase core domain


Domain annotation for each model (and alignments):
>> rve  Integrase core domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.1   0.0   1.5e-17   2.7e-13       4     117 ..      89     216 ..      86     218 .. 0.94

  Alignments for each domain:
  == domain 1  score: 50.1 bits;  conditional E-value: 1.5e-17
                      rve   4 pgelwqvDvt..vvripdggg....kayllvvvddfsrlilaealsdemdastvlalleravarfggvepervlsDngseytsk.. 81 
                              pg+ ++vD+   +++i +  +     a l+v+++ +s + +ae++ ++ + ++ l+  ++a+++ g v p+ ++sDn  + + k  
  PHY93_05790|PHY93_05790  89 PGQTMEVDYSgdKMEILNPSTgeilIAELFVATLSYSDYYYAEFTFTQ-KLPVFLNSCKNAFEHIGSV-PKFIVSDNCLTAVTKae 172
                              8889999999888888888878899999********************.*******************.*********9999999* PP

                      rve  82 ........afrefladlgirvsftrpgrpqdnGkvErfhrtlkd 117
                                      +fr+f+++++++ +++r+ rp+d+  vE+ ++++  
  PHY93_05790|PHY93_05790 173 khdvylnkSFRDFCHHYNVTADPARVFRPKDKPHVENSIGIIQG 216
                              ***************************************99875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (457 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       455  (0.0253779); expected 358.6 (0.02)
Passed bias filter:                      331  (0.0184617); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 3323.18
//
Query:       PHY93_00940|PHY93_00940  [L=80]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
     0.0058   16.6   1.0     0.0079   16.2   1.0    1.3  1  zf-C2HC5        Putative zinc finger motif, C2HC5-type
     0.0092   16.7   2.3      0.015   16.1   2.3    1.3  1  zf-3CxxC_2      Zinc-binding domain
  ------ inclusion threshold ------
      0.011   15.6   4.7       0.02   14.7   0.5    2.2  2  VATC            Vms1-associating treble clef domain
      0.019   15.2   1.5      0.025   14.8   1.5    1.4  1  IBR             IBR domain, a half RING-finger domain
      0.023   14.6   1.6      0.035   14.0   1.6    1.4  1  OrfB_Zn_ribbon  Putative transposase DNA-binding domain
      0.055   12.9   0.3      0.056   12.9   0.3    1.0  1  DUF1258         Protein of unknown function (DUF1258)
        0.2   12.0   7.3       0.29   11.5   7.3    1.4  1  Cytochrom_CIII  Class III cytochrome C family
       0.58   10.3   4.2        3.8    7.7   4.3    2.1  2  Zn-ribbon_8     Zinc ribbon domain


Domain annotation for each model (and alignments):
>> zf-C2HC5  Putative zinc finger motif, C2HC5-type
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   1.0   3.5e-06    0.0079      18      48 ..      17      46 ..      10      57 .. 0.88

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 3.5e-06
                 zf-C2HC5 18 pnClnCGkiiCakeglskpCsfCgspllsse 48
                               C  CG i+ + +++ ++C  C++++l+ +
  PHY93_00940|PHY93_00940 17 KKCHMCGHIMESGQEV-QKCGKCKKSFLPVN 46
                             68**************.********999865 PP

>> zf-3CxxC_2  Zinc-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   2.3   6.5e-06     0.015       9      62 ..      18      67 ..      16      76 .. 0.72

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 6.5e-06
               zf-3CxxC_2  9 kCekCgkeWsSanafaneaQeCkkCkekvepyklrekdkkkgaakkesdkeHes 62
                             kC+ Cg+   S+    +e+Q+C kCk++  p +   k ++k +++ e+  +H +
  PHY93_00940|PHY93_00940 18 KCHMCGHIMESG----QEVQKCGKCKKSFLPVNYFSKVHSKSQKEYEQLFAHGH 67
                             799999999998....69*************99888655555555443333333 PP

>> VATC  Vms1-associating treble clef domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.4     0.042        95       3      14 ..      16      27 ..      15      31 .. 0.82
   2 ?   14.7   0.5   9.1e-06      0.02       2      22 ..      31      51 ..      30      54 .. 0.89

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.042
                     VATC  3 vlrCsiCgesle 14
                             +++C +Cg+ +e
  PHY93_00940|PHY93_00940 16 IKKCHMCGHIME 27
                             589*****9776 PP

  == domain 2  score: 14.7 bits;  conditional E-value: 9.1e-06
                     VATC  2 nvlrCsiCgeslegkvyFekf 22
                             +v++C  C++s+++  yF k 
  PHY93_00940|PHY93_00940 31 EVQKCGKCKKSFLPVNYFSKV 51
                             6899**********99**995 PP

>> IBR  IBR domain, a half RING-finger domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   1.5   1.1e-05     0.025      17      48 ..      12      42 ..       1      56 [. 0.79

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 1.1e-05
                      IBR 17 n...lkwCprpdCeaiieksegcksvtCskCgfef 48
                             n   +k+C    C++i+e+ ++ ++  C kC+++f
  PHY93_00940|PHY93_00940 12 NkllIKKCH--MCGHIMESGQEVQK--CGKCKKSF 42
                             234599**9..******99999655..*****998 PP

>> OrfB_Zn_ribbon  Putative transposase DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   1.6   1.5e-05     0.035      29      54 ..      17      40 ..       1      42 [. 0.85

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.5e-05
           OrfB_Zn_ribbon 29 ktCseCgsknkealsgrtfkCpnCgf 54
                             k+C+ Cg++++    +++ kC +C+ 
  PHY93_00940|PHY93_00940 17 KKCHMCGHIMES--GQEVQKCGKCKK 40
                             79**********..999999999986 PP

>> DUF1258  Protein of unknown function (DUF1258)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.3   2.5e-05     0.056      16      60 ..      16      60 ..       3      75 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 2.5e-05
                  DUF1258 16 hkfcnkcGkvvaksekcelcggkvakfvrvgafsqlvelvdayld 60
                              k c  cG+++++ ++ + cg++  +f+ v+ fs++    ++  +
  PHY93_00940|PHY93_00940 16 IKKCHMCGHIMESGQEVQKCGKCKKSFLPVNYFSKVHSKSQKEYE 60
                             467*******************99**********99876666555 PP

>> Cytochrom_CIII  Class III cytochrome C family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   7.3   0.00013      0.29      31      75 ..      16      56 ..       1      76 [. 0.66

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00013
                             SHTHHHTSTTCTTSCSTS-CTCTS-SSSTTTSTTCHHHHHHCSST CS
           Cytochrom_CIII 31 vkeCeeCHhkeeekeeiekcstcHaeekekkekkslekavHkkka 75
                             +k+C+ C h +e+++e++kc +c ++        ++ + vH+k++
  PHY93_00940|PHY93_00940 16 IKKCHMCGHIMESGQEVQKCGKCKKSFL----PVNYFSKVHSKSQ 56
                             259********************99873....3344444444443 PP

>> Zn-ribbon_8  Zinc ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   4.3    0.0017       3.8       7      33 ..      18      39 ..      18      42 .. 0.78
   2 ?    3.6   0.5     0.034        75       7      18 ..      34      45 ..      33      69 .. 0.82

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.0017
              Zn-ribbon_8  7 rCeeCghefevlqsisdaplta.CPeCg 33
                             +C++Cgh  e  q      +++ C +C+
  PHY93_00940|PHY93_00940 18 KCHMCGHIMESGQ------EVQkCGKCK 39
                             7*********777......444499996 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.034
              Zn-ribbon_8  7 rCeeCghefevl 18
                             +C +C++ f ++
  PHY93_00940|PHY93_00940 34 KCGKCKKSFLPV 45
                             799999999754 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (80 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1091  (0.0608511); expected 358.6 (0.02)
Passed bias filter:                      511  (0.0285013); expected 358.6 (0.02)
Passed Vit filter:                        70  (0.00390429); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.41u 0.24s 00:00:00.64 Elapsed: 00:00:00.41
# Mc/sec: 589.53
//
Query:       PHY93_00945|PHY93_00945  [L=564]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.9e-26   90.8   0.1    1.7e-25   89.3   0.1    1.9  2  RecJ_OB   RecJ OB domain
    6.9e-21   75.1   0.1    1.3e-20   74.3   0.1    1.5  1  DHHA1     DHHA1 domain
    3.7e-10   39.9   0.1    7.9e-10   38.9   0.1    1.6  1  DHH       DHH family


Domain annotation for each model (and alignments):
>> RecJ_OB  RecJ OB domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       1.1   6.3e+03      46      75 ..     331     375 ..     320     400 .. 0.55
   2 !   89.3   0.1   2.9e-29   1.7e-25       1     107 [.     446     559 ..     446     560 .. 0.91

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 1.1
                  RecJ_OB  46 vgkeknhlklkledes...............gksleaiaFnlaek 75 
                              +g++ +hl   + +++                 + +ai+F ++e+
  PHY93_00945|PHY93_00945 331 LGQNLEHLITIVYQPHwhegvigivaskmvdTFKAPAIIFTDSEN 375
                              555555555555554444333333333333334455666665555 PP

  == domain 2  score: 89.3 bits;  conditional E-value: 2.9e-29
                  RecJ_OB   1 iDaeldlseiteelleelerlePfGkgnpePvfllknvkvesarivgkeknhlklkledesgksleaiaFnlaekleelekgd... 83 
                              +D+e+++ ei+++l+++l+ lePfG+gn++P+f +k+v+++s++i+++   h+++++++++ ++l++i Fn   k+e  ++ +   
  PHY93_00945|PHY93_00945 446 YDLEIEAGEINPQLMRDLDLLEPFGMGNEKPIFKIKGVHLDSFDIMKE--AHVRWNFSHQK-TKLKGISFNYIGKYEARAPSEift 528
                              7***********************************************..*********98.*********888888633333566 PP

                  RecJ_OB  84 .......kvdiaytleinefngretlqlrik 107
                                      +++++tl +n+fng+e++ql+i 
  PHY93_00945|PHY93_00945 529 tqnlkreDLSVYFTLGLNRFNGNESIQLMID 559
                              6667777**********************96 PP

>> DHHA1  DHHA1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.3   0.1   2.1e-24   1.3e-20       3     137 ..     304     431 ..     302     432 .. 0.88

  Alignments for each domain:
  == domain 1  score: 74.3 bits;  conditional E-value: 2.1e-24
                              HHCHHHHHHHHHHHCHHHHHHHHHHHHHHHTCEEECTCEEEEEECHCCHHHHHHHHHHHHHHTHGBTTCEEEEEEEECTEEEEEEE CS
                    DHHA1   3 slneerkelekeleelkealaklkaeellekaeevkgvkvlvaevgeewdagalgiaadklksklkkpvivfvakeegdkvkvsar 88 
                                n+erk +++e+ +  ++    ++++l +++    ++ + +++  + w+ g++gi+a+k+ +++k p i+f+ +e+   +k s+r
  PHY93_00945|PHY93_00945 304 TCNNERKFIQNEVSKEAREQVLRERKSLGQNL----EHLITIVYQ-PHWHEGVIGIVASKMVDTFKAPAIIFTDSENPGVIKASCR 384
                              579**********6555555555555555554....778888888.9****************************9988******* PP

                              ESSHSS-HHHHHHHHHHHTTCCEEEETCEEEEEEEHCHHHHHHHHHHHH CS
                    DHHA1  89 skkdgvdagelakeaaaklgggGGGHdlAaGagipaekleealealeea 137
                              s +  +d+ +l+k+  ++l+ ++GGH+ AaG++ ++e+l e+++ ++ +
  PHY93_00945|PHY93_00945 385 SAG-TLDMFNLLKK-NEHLFIKFGGHKAAAGLSMKKENLREFIANMNNL 431
                              ***.**********.****************************998865 PP

>> DHH  DHH family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.9   0.1   1.3e-13   7.9e-10       2      57 ..      59     161 ..      58     214 .. 0.77

  Alignments for each domain:
  == domain 1  score: 38.9 bits;  conditional E-value: 1.3e-13
                              EEEE-ECSSSHHHHHHHHHHHH.......................................CECS--TCGGCGCCHHCCCSEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxx.......................................xxxxxxxxxxxxxxxxxxxxxxxxx RF
                      DHH   2 ilivghknpDtDsigSaialan.......................................llvDhneksqavegeakeeaedvii 48 
                              i +  ++++D+D+ +S+ +l++                                       ++vD++++++++++ a++++ d+ii
  PHY93_00945|PHY93_00945  59 IGV--YGDYDVDGTTSCALLHHffkmfdveidivqpsrfiegyglhlssideavekdirvlITVDCGITNNEAADLARAKGLDLII 142
                              556..99*********9999997888888877777777777777777777777777777777************************ PP

                              EE-S---S..........S CS
                              xxxxxxxx..........x RF
                      DHH  49 iDHHrlge..........e 57 
                              +DHH+ ++          +
  PHY93_00945|PHY93_00945 143 TDHHKDARdtmpdafaviN 161
                              *****98655555555551 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (564 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       532  (0.0296726); expected 358.6 (0.02)
Passed bias filter:                      484  (0.0269954); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.59u 0.24s 00:00:00.83 Elapsed: 00:00:00.40
# Mc/sec: 4268.66
//
Query:       PHY93_00950|PHY93_00950  [L=361]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (361 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       322  (0.0179597); expected 358.6 (0.02)
Passed bias filter:                      244  (0.0136092); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.21s 00:00:00.66 Elapsed: 00:00:00.36
# Mc/sec: 2976.50
//
Query:       PHY93_00955|PHY93_00955  [L=175]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.7e-51  172.7   0.0    7.7e-51  172.5   0.0    1.0  1  Pro_isomerase  Cyclophilin type peptidyl-prolyl cis-trans iso


Domain annotation for each model (and alignments):
>> Pro_isomerase  Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  172.5   0.0   4.3e-55   7.7e-51       3     157 ..      21     174 ..      19     175 .] 0.92

  Alignments for each domain:
  == domain 1  score: 172.5 bits;  conditional E-value: 4.3e-55
            Pro_isomerase   3 dietsskGrivieLfadkaPktvenFlklvkeg.........fYdgttFhRvikgfmvqgGdptgktsageqekkggesiraipdE 79 
                               ++t+  G++++eL+a+++P+tv nF++l+ eg         fYdg++FhRvi++fm+qgG p+g+++       gg   ++++dE
  PHY93_00955|PHY93_00955  21 VFKTN-VGEFEVELYAKECPETVWNFVNLA-EGrqetkksgpFYDGLVFHRVIENFMIQGGCPEGSGR-------GG-PGYKFKDE 96 
                              68997.9***********************.56688999999********************999865.......33.2468**** PP

            Pro_isomerase  80 itsklkh.krGalamartgkepnsagsqFfItlkeaphldgkytvFGkVveGmdvvekiekvetde.erpkknvkivsae 157
                              +++ l+h ++G+l+ma++g  p ++gsqFfItl+++phldg++tvFGkV++Gmdvv ki k++t + +rp+k+++i++++
  PHY93_00955|PHY93_00955  97 FSPALRHtEAGILSMANAG--PGTNGSQFFITLAPTPHLDGRHTVFGKVTKGMDVVSKIGKTPTGNgDRPVKDIVIEKLT 174
                              **99999899*******98..8******************************************************9875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (175 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       220  (0.0122706); expected 358.6 (0.02)
Passed bias filter:                      210  (0.0117129); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.37u 0.18s 00:00:00.55 Elapsed: 00:00:00.33
# Mc/sec: 1581.64
//
Query:       PHY93_00960|PHY93_00960  [L=249]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.042   14.2   0.1      0.085   13.3   0.1    1.5  1  DUF2369   Uncharacterised conserved protein (DUF2369)


Domain annotation for each model (and alignments):
>> DUF2369  Uncharacterised conserved protein (DUF2369)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.1   4.7e-06     0.085      30      79 ..      86     135 ..      54     145 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 4.7e-06
                  DUF2369  30 krntssaytgttaqtreekkskpteLkdgkltqvklkgkkgkslfsfkvp 79 
                              + +  s +  +++q r+  k++ t+Lk+++l   k+++k ++++  f++p
  PHY93_00960|PHY93_00960  86 ALQVQSSFNEEFTQFRKSDKKHRTTLKEEELLFYKVSEKVSSKIIFFDPP 135
                              444555667777788**************************999999998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (249 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       833  (0.046461); expected 358.6 (0.02)
Passed bias filter:                      544  (0.0303419); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.20s 00:00:00.65 Elapsed: 00:00:00.36
# Mc/sec: 2077.08
//
Query:       PHY93_00965|PHY93_00965  [L=399]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    0.00046   19.5   0.0      0.015   14.5   0.0    2.2  2  Pyr_redox_2    Pyridine nucleotide-disulphide oxidoreductase
     0.0026   18.3   0.0     0.0061   17.1   0.0    1.7  1  Pyr_redox      Pyridine nucleotide-disulphide oxidoreductase
     0.0091   16.2   0.0      0.019   15.2   0.0    1.6  1  NAD_binding_8  NAD(P)-binding Rossmann-like domain
  ------ inclusion threshold ------
        0.2   10.3   1.4       0.32    9.6   0.0    1.9  2  HI0933_like    HI0933-like protein


Domain annotation for each model (and alignments):
>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.5   0.0   3.4e-06     0.015     144     173 ..       2      31 ..       1      89 [. 0.78
   2 ?    2.9   0.0     0.012        54     216     262 ..     333     376 ..     288     386 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 3.4e-06
                              EEEEES-SHHHHHHHHHHHHHT-EEEEEES CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 144 rivvvGgGyiGvElAaalaklgkevtlvea 173
                              +++++G+G+ ++ +A+++ ++g+evtl + 
  PHY93_00965|PHY93_00965   2 KLAIIGSGPLAIFCAQYFDQIGAEVTLFQK 31 
                              689999999999999999999999998775 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.012
                              EEEEETTSCEEEESEEEE-S-EEES-HHCSHCCT-EEEETTEEE--T CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 216 levvledgeeidadlvvvavGvrpstelleeklglelderggivvde 262
                              +  + +d ++++a+ ++v+ Gv p ++   ++lgl+  e g+ + + 
  PHY93_00965|PHY93_00965 333 YAKTPNDLKTLPAEAILVSCGVDPLDS---KALGLQAHEPGFYQLNA 376
                              445677888899999999999999974...56999988888887775 PP

>> Pyr_redox  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.0   1.4e-06    0.0061       1      30 [.       2      31 ..       2      66 .. 0.91

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 1.4e-06
                             EEEEECSSHHHHHHHHHHHHTTSEEEEEES CS
                Pyr_redox  1 kvvvvGgGyiglElAgalaelgkkVtvver 30
                             k++++G+G +++ +A+++ ++g++Vt+++ 
  PHY93_00965|PHY93_00965  2 KLAIIGSGPLAIFCAQYFDQIGAEVTLFQK 31
                             689************************976 PP

>> NAD_binding_8  NAD(P)-binding Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0   4.3e-06     0.019       1      36 [.       5      39 ..       5      59 .. 0.88

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 4.3e-06
                             EE--SHHHHHHHHHHHCCTEEEEEE-SSSSSSGGG- CS
            NAD_binding_8  1 IvGaGlsGlvaAylLakagfdvlllekrdrlGGraa 36
                             I+G+G  +  +A++  + g++v+l++k + lGG+++
  PHY93_00965|PHY93_00965  5 IIGSGPLAIFCAQYFDQIGAEVTLFQK-NALGGNVR 39
                             9************************88.59999976 PP

>> HI0933_like  HI0933-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   0.0   7.1e-05      0.32       2      33 ..       2      33 ..       1      40 [. 0.90
   2 ?   -1.5   0.4      0.17   7.7e+02     287     340 ..     228     280 ..     211     283 .. 0.79

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 7.1e-05
                             SEEEE--SHHHHHHHHHHHHTT--EEEE-SSS CS
              HI0933_like  2 dviviGgGaAGlmaAisaakrgkrVlllekak 33
                             ++++iG G+  +++A    + g++V+l+ k+ 
  PHY93_00965|PHY93_00965  2 KLAIIGSGPLAIFCAQYFDQIGAEVTLFQKNA 33
                             679*************************9984 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.17
                              HTTTSBHHHHHTTTS-HHHHHHHHHC..TTT-TTBGGG--HHHHHHHHHHHHSE CS
              HI0933_like 287 keskkslknalaellpkrlvevlleealieeedkklaqlskkelkklaealkal 340
                              +++k+sl+ +++  ++k+l + +l+  ++e+  +  + l +ke++++ ++++++
  PHY93_00965|PHY93_00965 228 SNPKHSLSWVTSASVNKKLKNNWLNI-ELEKLLHFSQALFNKEKSEFEKKMHDW 280
                              68899999999999999999999998.554666777888888888888888887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (399 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       729  (0.0406604); expected 358.6 (0.02)
Passed bias filter:                      546  (0.0304535); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.38
# Mc/sec: 3170.58
//
Query:       PHY93_00970|PHY93_00970  [L=151]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.1e-08   33.9   0.0    3.8e-08   33.6   0.0    1.1  1  PilZ      PilZ domain


Domain annotation for each model (and alignments):
>> PilZ  PilZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.6   0.0   2.1e-12   3.8e-08       2      91 ..      21     121 ..      19     135 .. 0.84

  Alignments for each domain:
  == domain 1  score: 33.6 bits;  conditional E-value: 2.1e-12
                              SSSS-C....EEECEEEEEEETTEEEEEEEEEEESSEEEEEES.....T-SS-TTSEEEEEEECECEEEEEEEEEEEEEECTCTTE CS
                     PilZ   2 rRkekR..levpvsipvtleadegelkgrliDiSlgGlairlp.....deelalgdrvelklpldkdqelslpgrVvrvkpeedge 80 
                              rR + R  ++  + +  ++ ++++ + ++l+Di + G+++++p     d++l+ g +v+++++  +   + +  +V+++k+   + 
  PHY93_00970|PHY93_00970  21 RRAFNRivFQNFLGAYSVIDDNGSIYPVTLVDIAGDGCSFQIPwnplrDKKLEQGFEVQMRMYFTNASYIPVIMEVRHTKEVIAQD 106
                              778889966666666777777777799999***************************************************98888 PP

                              .....EEEEEEEEECH CS
                     PilZ  81 .....rlGveFldlde 91 
                                   ++G+eF+  ++
  PHY93_00970|PHY93_00970 107 gtthiQYGCEFD-KSA 121
                              9999999***94.444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (151 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       489  (0.0272742); expected 358.6 (0.02)
Passed bias filter:                      381  (0.0212505); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.38u 0.19s 00:00:00.57 Elapsed: 00:00:00.34
# Mc/sec: 1320.75
//
Query:       PHY93_00975|PHY93_00975  [L=312]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      6e-35  120.6   0.0      9e-35  120.0   0.0    1.3  1  RsgA_GTPase  RsgA GTPase
      8e-05   22.7   0.0    0.00046   20.3   0.0    2.1  2  MMR_HSR1     50S ribosome-binding GTPase
  ------ inclusion threshold ------
      0.098   12.9   0.1       0.21   11.8   0.1    1.6  1  Roc          Ras of Complex, Roc, domain of DAPkinase
       0.13   11.8   0.1        3.6    7.2   0.0    2.2  2  Ras          Ras family


Domain annotation for each model (and alignments):
>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  120.0   0.0     2e-38     9e-35       2     166 ..      59     240 ..      58     241 .. 0.88

  Alignments for each domain:
  == domain 1  score: 120.0 bits;  conditional E-value: 2e-38
                              ---S-EETTTT.........EES--EEEEEEESTTTT--HHHHHHHHHHHHHTT-EEEEEEE-GGG--HHH.HHHHHHHHHHHTTS CS
              RsgA_GTPase   2 leRknelvrpk.........vaNvdqllivvslkepelslnlldrfLvlaeekgiepvivlnKiDlleeee.eleelkeelealgy 77 
                              l+R+ne++r           ++N+d l+iv+s+++pe++  ++drfLv a++ gi+p++v+nK+D ++ ++ +++   +++++lg+
  PHY93_00975|PHY93_00975  59 LPRTNEMYRLIireqkkkvtASNCDLLVIVSSVSKPEYKRGIVDRFLVRAHQWGIRPLMVFNKMDEYDLNNlDIQFEFDRMNNLGI 144
                              67777776665666689999***********************************************999888999999******* PP

                              EEEE--TTTHT........THHHHHHHCTTSEEEEECSTTSSHHHHHHHHCT.T-----S--------------SEEEEEETTTEE CS
              RsgA_GTPase  78 evllvsaktke........gleelkellkdktsvlvGqSGvGKStLinallp.elelktgevseklgrGkhTTtavellelaeggl 154
                              e++ vsa++++        g+++lk++l++kts+++GqSGvGKS Li ++   + +l  +ev  + g+GkhTTt +e+++ +    
  PHY93_00975|PHY93_00975 145 ECFEVSATEQNykprflklGIDDLKNRLEHKTSIFLGQSGVGKSKLISQVSDgKINLLSNEVG-RVGKGKHTTTWSEIVDSD-RMS 228
                              ******998743333444489*****************************9846677777775.58***************9.999 PP

                              EESS-SSSS--G CS
              RsgA_GTPase 155 liDtPGfreldl 166
                              liD+PG+r++++
  PHY93_00975|PHY93_00975 229 LIDSPGIRSFGV 240
                              *********987 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.0   0.0       0.2   8.9e+02      67      92 ..      73      98 ..      33     121 .. 0.63
   2 !   20.3   0.0     1e-07   0.00046       3      58 ..     178     236 ..     176     297 .. 0.74

  Alignments for each domain:
  == domain 1  score: -0.0 bits;  conditional E-value: 0.2
                             HHHHHHHHCTSEEEEEEETTTTCSHH CS
                 MMR_HSR1 67 gkaflaleeadlillvvdaseeklkp 92
                             +k+     ++dl+++v ++s+ ++k+
  PHY93_00975|PHY93_00975 73 QKKKVTASNCDLLVIVSSVSKPEYKR 98
                             33333345689999998877333433 PP

  == domain 2  score: 20.3 bits;  conditional E-value: 1e-07
                              EEEESTTSSHHHHHHHHHT........STEEESSSTTSSSSEEEEEEEETTEEEEEEECGGCSS CS
                 MMR_HSR1   3 aivGrpNvGKStLinaltg........ekaivsdkpgtTrdinegrvklkgkeielvDtpGlie 58 
                              +++G++ vGKS Li++ ++        e+ +v++ + tT+  +        +++ l+D pG i 
  PHY93_00975|PHY93_00975 178 IFLGQSGVGKSKLISQVSDgkinllsnEVGRVGKGKHTTTWSEIVDS----DRMSLIDSPG-IR 236
                              689*************9964444443257788888888887777755....489*******.53 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.1   4.8e-05      0.21       3      27 ..     178     202 ..     176     230 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 4.8e-05
                              EEESSTTSSHHHHHHCHCT-CCC-E CS
                      Roc   3 vlvGdsgvGKtsllkrfvedkfsek 27 
                              +++G+sgvGK++l++++ ++k++  
  PHY93_00975|PHY93_00975 178 IFLGQSGVGKSKLISQVSDGKINLL 202
                              78***************99998744 PP

>> Ras  Ras family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.0     0.023     1e+02     104     150 ..     112     157 ..      75     166 .. 0.82
   2 ?    7.2   0.0   0.00079       3.6       3      23 ..     178     198 ..     176     234 .. 0.87

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.023
                              TSEEEEEEETTTGGGG-SS-HHHHHHHHHHHTSEEEEEBTTTTCTHH CS
                      Ras 104 nvpivLvGnKvDleekravsteegeelakelglkfletSAktnenve 150
                               +  ++v nK+D  + ++++ +   +  ++lg++ +e+SA ++ n++
  PHY93_00975|PHY93_00975 112 GIRPLMVFNKMDEYDLNNLDIQFEFDRMNNLGIECFEVSATEQ-NYK 157
                              56678999****999999999999999999**********765.555 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.00079
                              EEEESTTSSHHHHHHHHHHSS CS
                      Ras   3 vlvGdsavGKtslllrfvkdk 23 
                              +++G+s+vGK+ l+ +  ++k
  PHY93_00975|PHY93_00975 178 IFLGQSGVGKSKLISQVSDGK 198
                              789***********9988776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (312 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       592  (0.0330191); expected 358.6 (0.02)
Passed bias filter:                      515  (0.0287244); expected 358.6 (0.02)
Passed Vit filter:                        62  (0.00345808); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.38
# Mc/sec: 2439.36
//
Query:       PHY93_00980|PHY93_00980  [L=436]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.7e-15   57.3   0.0    4.2e-15   56.1   0.0    1.6  1  FAD-oxidase_C  FAD linked oxidases, C-terminal domain
    0.00026   20.7   0.0    0.00041   20.1   0.0    1.3  1  FAD_binding_4  FAD binding domain


Domain annotation for each model (and alignments):
>> FAD-oxidase_C  FAD linked oxidases, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.1   0.0   4.7e-19   4.2e-15     139     245 ..     331     430 ..     214     433 .. 0.70

  Alignments for each domain:
  == domain 1  score: 56.1 bits;  conditional E-value: 4.7e-19
                              HHHHHHHHHHHHHHHHHHHEEEEEEEEEETTEEEEEEEEEEE..--TT--THHHHHHHHHHHHTT--------------------- CS
            FAD-oxidase_C 139 vsrladlvrdikalldkyglevvlfgHagdgnlhlyilfdladeaeeeraeklvdevvdlavelgGsisgEHGvGldkkaylerek 224
                                +l++++r    l     + + lfgH+gd++lh++++ ++++ + +++     +++ ++++e +Gs  +EHG+Gl kk+++  ++
  PHY93_00980|PHY93_00980 331 FRELLSFYRSYTHLG----VGYNLFGHFGDAHLHFNFMPTPDKNDFCNQE---LERLYRKVLEWNGSPFAEHGIGLLKKKFIAPFF 409
                              344444444444444....55559**************999765555555...66666669************************* PP

                              --THHHHHHHHHHHH-TT--B CS
            FAD-oxidase_C 225 geeglalmrriKaalDPkgiL 245
                              +e +  ++r +K+ +DPkg +
  PHY93_00980|PHY93_00980 410 TEHQKIVFRDLKKEFDPKGQF 430
                              ******************987 PP

>> FAD_binding_4  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.1   0.0   4.6e-08   0.00041      42     138 ..      46     140 ..      18     141 .. 0.79

  Alignments for each domain:
  == domain 1  score: 20.1 bits;  conditional E-value: 4.6e-08
                              SCCEEEEEETTS--EEEEETTTTEEEEETTSBHHHHHHHHHHHTTECSSGGGTTCGSBHHHTTTTT-EETTEEGG--HHGTEEEEE CS
            FAD_binding_4  42 atggvvldlsrlnrileideeegtatveaGvtlgdlvealaakglllglepgsgipgtvGGaiatnagGygsekyGlirdnvlgle 127
                              ++++++ +ls +++ le+ + ++ + + + vt++++ e+++ +g+ +   p+    g+++G iat   G +s   +++r+++++l+
  PHY93_00980|PHY93_00980  46 NDETILGNLSTIKGRLEFTS-NKDLLISGFVTWKEAKEFCRSHGREIMTSPTEELAGVLAG-IATSCTGERSFGFQNLRSQIVELQ 129
                              4455555777799999**97.9**************************9998876665555.5666668899999*********** PP

                              EEETTSEEEEE CS
            FAD_binding_4 128 vvladGevvrl 138
                               v+ +G+  +l
  PHY93_00980|PHY93_00980 130 YVDYQGNEKKL 140
                              ***99987665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (436 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       358  (0.0199677); expected 358.6 (0.02)
Passed bias filter:                      338  (0.0188521); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.22s 00:00:00.78 Elapsed: 00:00:00.42
# Mc/sec: 3081.72
//
Query:       PHY93_05795|PHY93_05795  [L=252]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.8e-47  159.0   0.1    1.4e-46  158.4   0.1    1.2  1  IstB_IS21        IstB-like ATP binding protein
      2e-08   34.4   0.3    6.3e-08   32.7   0.0    1.7  2  Bac_DnaA         Bacterial dnaA  protein
    0.00013   22.4   0.6      0.002   18.6   0.1    2.3  2  AAA              ATPase family associated with various cellul
     0.0005   19.6   0.1     0.0008   18.9   0.1    1.3  1  PhoH             PhoH-like protein
     0.0034   17.1   0.2      0.042   13.6   0.1    2.4  2  RuvB_N           Holliday junction DNA helicase RuvB P-loop d
     0.0059   16.6   0.9        0.1   12.6   0.1    2.2  2  ResIII           Type III restriction enzyme, res subunit
     0.0094   16.3   0.1      0.066   13.6   0.0    2.2  2  RNA_helicase     RNA helicase
     0.0095   16.0   0.8        0.1   12.6   0.0    2.3  2  AAA_14           AAA domain
  ------ inclusion threshold ------
      0.011   15.4   0.0      0.026   14.2   0.0    1.6  1  Sigma54_activat  Sigma-54 interaction domain
      0.076   12.9   0.8       0.33   10.9   0.3    2.0  2  NACHT            NACHT domain
      0.079   13.3   0.1       0.22   11.9   0.1    1.7  2  AAA_16           AAA ATPase domain
      0.089   12.9   0.1       0.19   11.8   0.1    1.5  1  Torsin           Torsin
        0.1   12.3   0.0        0.2   11.4   0.0    1.5  1  PduV-EutP        Ethanolamine utilisation - propanediol utili
       0.11   12.0   0.0        0.2   11.2   0.0    1.4  1  AAA_7            P-loop containing dynein motor region
       0.12   11.4   0.0       0.16   11.0   0.0    1.3  1  T2SSE            Type II/IV secretion system protein
       0.12   11.7   0.0        0.2   11.0   0.0    1.3  1  Mg_chelatase     Magnesium chelatase, subunit ChlI
       0.18   11.4   0.0        0.4   10.2   0.0    1.6  1  AAA_25           AAA domain
       0.19   12.0   1.1        0.5   10.7   0.2    2.2  2  AAA_22           AAA domain


Domain annotation for each model (and alignments):
>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  158.4   0.1   1.4e-49   1.4e-46       3     178 .]      53     228 ..      51     228 .. 0.98

  Alignments for each domain:
  == domain 1  score: 158.4 bits;  conditional E-value: 1.4e-49
                IstB_IS21   3 rletrlrlaklpaqktledidfraarsldkrkvkeLatlsfiekkenivllGpsGvGKshlaialgveavraglsvlfvrvedLve 88 
                              + e+ +++a ++    l d+d + +r+++k  +keL+tl+f++  eni+++G++GvGK++la a+g++a+ +g++ +f+ v+ L+e
  PHY93_05795|PHY93_05795  53 KAEKLRKRATFKDVVLLSDFDADVKRGVSKIMIKELQTLNFLRGFENIIFVGGTGVGKTFLAQAIGHAACMSGKESRFIHVNYLFE 138
                              66788999****************************************************************************** PP

                IstB_IS21  89 elkrarrdgklaralkrllkvdllilDdlgllpldqaeaellfeviekryerrsiiitsnlpfaewdevlgdatlatAilDRlvHh 174
                              + k+a+r g+  + lk++  +++lilDd+gl ++ ++ea ll+++i++ry++ s+iit+++      +++ d+++a+Ai+DRl+ +
  PHY93_05795|PHY93_05795 139 QYKAAERSGNTLTFLKKMSGFEVLILDDIGLRKFTHEEAILLYQIIDDRYQKGSTIITTQVRPPGLRDLFDDQVMAEAIIDRLTSN 224
                              ************************************************************************************** PP

                IstB_IS21 175 ahvv 178
                              ahv+
  PHY93_05795|PHY93_05795 225 AHVI 228
                              **96 PP

>> Bac_DnaA  Bacterial dnaA  protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.1      0.97   9.6e+02      74     107 ..      36      73 ..      20      96 .. 0.58
   2 !   32.7   0.0   6.4e-11   6.3e-08      34     152 ..      97     213 ..      88     221 .. 0.89

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 0.97
                              HHHHHHHHHHHT....T-HHHHHHHHTT-SEEEEE-GG CS
                 Bac_DnaA  74 eFlnelvkalrd....kkaeefkeklrkvDvLliDDiq 107
                              +Fl+ l++  +      kae+++++    Dv+l+ D  
  PHY93_05795|PHY93_05795  36 DFLKLLISDEKLhrinAKAEKLRKRATFKDVVLLSDFD 73 
                              55555554433311224455666666667777777654 PP

  == domain 2  score: 32.7 bits;  conditional E-value: 6.4e-11
                              S--EEEE-SSSSSHHHHHHHHHHHHHHHSSSS-EEEEEHHHHHHHHHHHHHTT-HHHHHHHHTT-SEEEEE-GGGGTT-HHHHHHH CS
                 Bac_DnaA  34 ynPlfiygevGlGktHLlkaignevlenapelrvvYltaeeFlnelvkalrdkkaeefkeklrkvDvLliDDiqflagkektqeel 119
                              +  +++ g++G+Gkt L +aig+++  + +e r  +++ ++  ++   a r+ ++ +f +k+   +vL++DDi   +  ++    l
  PHY93_05795|PHY93_05795  97 FENIIFVGGTGVGKTFLAQAIGHAACMSGKESR--FIHVNYLFEQYKAAERSGNTLTFLKKMSGFEVLILDDIGLRKFTHEEAILL 180
                              6667889******************99999988..678899999999999***********************8776666667789 PP

                              HHHHHHHHTTT-EEEEEESS-TTT-SS--HHHH CS
                 Bac_DnaA 120 fhtfnalleegkqvvlssDrsPkeleeledrlr 152
                              +++++  +++g  ++ +  r+P   + ++d++ 
  PHY93_05795|PHY93_05795 181 YQIIDDRYQKGSTIITTQVRPPGLRDLFDDQVM 213
                              999**************9999988888888775 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.1      0.24   2.4e+02      38      74 ..      42      79 ..       6      98 .. 0.74
   2 !   18.6   0.1     2e-06     0.002       1      68 [.     100     168 ..     100     221 .. 0.71

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.24
                             STTHHHHHHHHHHHHHHHTS.TSEEEEEETGGGHHHHH CS
                      AAA 38 yvgesekkirelfkeakeka.kpsilfiDEidalaksr 74
                             +  e+ ++i++  +++++ a  + ++++ ++da +k+ 
  PHY93_05795|PHY93_05795 42 ISDEKLHRINAKAEKLRKRAtFKDVVLLSDFDADVKRG 79
                             56677788888888888888644999999999988777 PP

  == domain 2  score: 18.6 bits;  conditional E-value: 2e-06
                              EEEESSTTSSHHHHHHHHHHHH.....THEEEEEETTTCSSSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGG CS
                      AAA   1 vllyGppGtGKTllakavakel.....gvefleisgsellskyvgesekkirelfkeakekakpsilfiDEid 68 
                              ++++G  G+GKT la+a+ + +     +++f+ ++   l+++y  +++++  ++++ +k++++  +l++D+i 
  PHY93_05795|PHY93_05795 100 IIFVGGTGVGKTFLAQAIGHAAcmsgkESRFIHVNY--LFEQY--KAAERSGNTLTFLKKMSGFEVLILDDIG 168
                              689******************766643356666655..66444..3444444555556777755999999996 PP

>> PhoH  PhoH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.1     8e-07    0.0008      11      69 ..      89     154 ..      80     163 .. 0.78

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 8e-07
                              HHHHHHHH-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--T.......T----SS- CS
                     PhoH  11 eylealkkndivfaiGpaGtGKtylavalavealkkkkvkriiltrpavea.......geelGflp 69 
                              ++l+ l+  + ++ +G +G GKt+la a++ +a++++k +r+i +   +e        g+ l+fl+
  PHY93_05795|PHY93_05795  89 QTLNFLRGFENIIFVGGTGVGKTFLAQAIGHAACMSGKESRFIHVNYLFEQykaaersGNTLTFLK 154
                              56677776666777899**************************88766654444555577777765 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.0      0.44   4.4e+02      21      58 ..      52      89 ..      31      96 .. 0.66
   2 !   13.6   0.1   4.2e-05     0.042      33     111 ..      97     187 ..      82     196 .. 0.75

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.44
                   RuvB_N 21 ifieaakkreealdhvllyGpPGlGkttlakiiakelg 58
                                e  +kr +  d vll+      k  ++ki+ kel+
  PHY93_05795|PHY93_05795 52 AKAEKLRKRATFKDVVLLSDFDADVKRGVSKIMIKELQ 89
                             23333445555667788887777777777777777776 PP

  == domain 2  score: 13.6 bits;  conditional E-value: 4.2e-05
                   RuvB_N  33 ldhvllyGpPGlGkttlakiiake..........lgvklkitsgPvlekagdlaalltnleekdvlfideihrlsravee..vlys 106
                               + ++++G  G+Gkt la+ i +           ++v+       + e++g+  ++l++++  +vl +d+i   + + ee  +ly+
  PHY93_05795|PHY93_05795  97 FENIIFVGGTGVGKTFLAQAIGHAacmsgkesrfIHVNYLFEQYKAAERSGNTLTFLKKMSGFEVLILDDIGLRKFTHEEaiLLYQ 182
                              56799**************99654221111122234555556778899**********************9755555555336898 PP

                   RuvB_N 107 amedf 111
                               ++d 
  PHY93_05795|PHY93_05795 183 IIDDR 187
                              88885 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.1      0.14   1.4e+02     125     150 ..      29      57 ..       6      74 .. 0.63
   2 !   12.6   0.1    0.0001       0.1      21      59 ..      90     132 ..      75     160 .. 0.83

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.14
                              ..HHHTTT-S.EEEEET.GGGTTS..TTT CS
                   ResIII 125 seellrdrfd.viiiDE.aHrlgak.ksw 150
                              +++l+ + f+ ++i DE  Hr++ak ++ 
  PHY93_05795|PHY93_05795  29 KTDLSYEDFLkLLISDEkLHRINAKaEKL 57 
                              333333333359*****55**99963233 PP

  == domain 2  score: 12.6 bits;  conditional E-value: 0.0001
                              ......TTSEEEEEESTTSTHHHHHHHHHHHH-S.....-EEE CS
                   ResIII  21 s....krdkrglikmaTGtGKTlvaaklierllkkgkeekflf 59 
                                   ++ ++++++  TG+GKT++a ++  +   +gke++f+ 
  PHY93_05795|PHY93_05795  90 TlnflRGFENIIFVGGTGVGKTFLAQAIGHAACMSGKESRFIH 132
                              2334478899***************999999999999998875 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.0       1.2   1.2e+03      45      73 ..      59      88 ..      27      92 .. 0.68
   2 !   13.6   0.0   6.6e-05     0.066       1      64 [.     100     173 ..     100     189 .. 0.77

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 1.2
             RNA_helicase 45 dgYtgqevvvidDfgqvkdee.npsdlael 73
                             +  t ++vv+  Df +++++  ++ +++el
  PHY93_05795|PHY93_05795 59 KRATFKDVVLLSDFDADVKRGvSKIMIKEL 88
                             555678999999999999886444466665 PP

  == domain 2  score: 13.6 bits;  conditional E-value: 6.6e-05
             RNA_helicase   1 iwlyGpsgeGKStlakeLakallkkl..........klkkkdsvysrnpeddfwdgYtgqevvvidDfgqvkde 64 
                              i+++G +g+GK+ la+ + +a + +            +++ +     +++ +f+++ +g ev++ dD+g +k +
  PHY93_05795|PHY93_05795 100 IIFVGGTGVGKTFLAQAIGHAACMSGkesrfihvnyLFEQYKAAERSGNTLTFLKKMSGFEVLILDDIGLRKFT 173
                              6899**************99999544667888888755555555557888999999999999999999987754 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.2       0.3     3e+02      15      53 ..      29      67 ..      26      95 .. 0.66
   2 !   12.6   0.0    0.0001       0.1       5      74 ..     100     168 ..      96     199 .. 0.72

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.3
                   AAA_14 15 KTtllkqlikellvkkesilyinldderdkkladpekll 53
                             KT l ++ + +ll+++e+   in + e+++k+a+++++ 
  PHY93_05795|PHY93_05795 29 KTDLSYEDFLKLLISDEKLHRINAKAEKLRKRATFKDVV 67
                             56666666666778999999*****99999999886332 PP

  == domain 2  score: 12.6 bits;  conditional E-value: 0.0001
                   AAA_14   5 lvitGaRrvGKTtllkqlikell..vkkesilyinldderdkkladpekllelileklkeekktylflDEiq 74 
                              ++ +G   vGKT+l++ + +      k+++++ +n   e++k+++ + + l+ +l+k+ + + ++l+lD i 
  PHY93_05795|PHY93_05795 100 IIFVGGTGVGKTFLAQAIGHAACmsGKESRFIHVNYLFEQYKAAERSGNTLT-FLKKM-S-GFEVLILDDIG 168
                              66778889******99998777799899999999977777766554434444.55543.3.6789****996 PP

>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   2.6e-05     0.026      23      57 ..      98     134 ..      78     142 .. 0.77

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 2.6e-05
                              S-EEEECSTTSSHHHHHHHH.HH.HSTTTTS-EEEEE CS
          Sigma54_activat  23 lsvlitGesGtGKellarai.he.askrkekpfvavn 57 
                               +++ +G +G+GK++la+ai h+   + ke++f++vn
  PHY93_05795|PHY93_05795  98 ENIIFVGGTGVGKTFLAQAIgHAaCMSGKESRFIHVN 134
                              689999**************66533455778999999 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.3   0.00033      0.33       3      32 ..     100     129 ..      98     156 .. 0.74
   2 ?    1.4   0.0      0.27   2.7e+02      56     134 ..     134     206 ..     123     230 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00033
                              EEEEC-TTTCHHHHHHHHHHHHCTS-SCCC CS
                    NACHT   3 vilqGeaGsGKTtLlqklalawaegklpqg 32 
                              +i  G  G+GKT L+q + +a+  +  ++ 
  PHY93_05795|PHY93_05795 100 IIFVGGTGVGKTFLAQAIGHAACMSGKESR 129
                              7899**************888766665554 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.27
                              HHHCCCCTS--SSS-CCHHHHCCSCCCEEEEEE-STT-SS-TCH.........HHHHHCTTTTT--EEEEE.EECCCHHH CS
                    NACHT  56 dllfsqlpepaapvsevwavllelperlLlilDglDelvtdlgqkekqpvrtlLselirkkllpeaslllt.vrpralrd 134
                              ++lf+q+++ ++  ++  ++l +     +lilD++   +   ++        lL ++i   + ++++++ t vrp +lrd
  PHY93_05795|PHY93_05795 134 NYLFEQYKAAERSGNT-LTFLKKMSGFEVLILDDIGLRKFTHEE------AILLYQIIDDRYQKGSTIITTqVRPPGLRD 206
                              5778888887777777.777888888888999998777665555......789999999999888888877678877776 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.1   0.00022      0.22      24      61 ..      97     128 ..      86     154 .. 0.76
   2 ?   -3.0   0.0       8.1   8.1e+03     138     146 ..     161     171 ..     149     195 .. 0.62

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00022
                   AAA_16  24 pelvllsGesGvGKsslvrellralekdggiflrgkcd 61 
                               e+++++G  GvGK+ l++++ +a++ +      gk  
  PHY93_05795|PHY93_05795  97 FENIIFVGGTGVGKTFLAQAIGHAACMS------GKES 128
                              38999****************9877744......4444 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 8.1
                   AAA_16 138 vlvlDdlq..w 146
                              vl+lDd+   +
  PHY93_05795|PHY93_05795 161 VLILDDIGlrK 171
                              78888876333 PP

>> Torsin  Torsin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.1   0.00019      0.19      57      89 ..     101     133 ..      97     147 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00019
                              EEEE-TTSSHHHHHHHHHHHHSTTGGGSTTEEE CS
                   Torsin  57 sfhGwtGtGknfvaeiiaenlyrdGlrsdyvkk 89 
                               f G tG Gk f+a+ i ++   +G +s +++ 
  PHY93_05795|PHY93_05795 101 IFVGGTGVGKTFLAQAIGHAACMSGKESRFIHV 133
                              589**************************9985 PP

>> PduV-EutP  Ethanolamine utilisation - propanediol utilisation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0    0.0002       0.2       3      23 ..      99     119 ..      97     133 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.0002
                PduV-EutP   3 killiGkvgsGKttLtqalkg 23 
                              +i+++G +g+GKt L+qa+ +
  PHY93_05795|PHY93_05795  99 NIIFVGGTGVGKTFLAQAIGH 119
                              79***************9965 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0    0.0002       0.2      33      57 ..      97     121 ..      82     154 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.0002
                    AAA_7  33 kkpvllvGptGtGKtviikdllkkl 57 
                                ++++vG tG+GKt +++ + ++ 
  PHY93_05795|PHY93_05795  97 FENIIFVGGTGVGKTFLAQAIGHAA 121
                              5789*************99855443 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   0.00016      0.16     120     151 ..      92     119 ..      30     138 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00016
                    T2SSE 120 evlrkavrerglilvsGgTgsGKttllyallk 151
                              ++lr       +i++ GgTg GKt l+ a+ +
  PHY93_05795|PHY93_05795  92 NFLRGF----ENIIFVGGTGVGKTFLAQAIGH 119
                              444444....89*************9998755 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0    0.0002       0.2      21      43 ..      96     118 ..      89     137 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.0002
             Mg_chelatase  21 GgHnlllvGppGsGKtmlakrlp 43 
                              G  n+++vG  G GKt la+++ 
  PHY93_05795|PHY93_05795  96 GFENIIFVGGTGVGKTFLAQAIG 118
                              889*****************985 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0   0.00041       0.4      35      62 ..      99     127 ..      87     143 .. 0.83

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00041
                   AAA_25  35 lallaGapgtGKttlaldlalava.tGkp 62 
                               ++++G +g+GKt+la  +++a + +Gk+
  PHY93_05795|PHY93_05795  99 NIIFVGGTGVGKTFLAQAIGHAACmSGKE 127
                              5799*************999988877774 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.1         1     1e+03      74     105 ..      45      81 ..      17     100 .. 0.55
   2 ?   10.7   0.2    0.0005       0.5       8      30 ..     100     122 ..      95     196 .. 0.81

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 1
                   AAA_22  74 sseellealeqalrarav.ielliiDEaqh.lr...s 105
                              ++ + ++a ++ lr+ra+ + ++++ +++  +    s
  PHY93_05795|PHY93_05795  45 EKLHRINAKAEKLRKRATfKDVVLLSDFDAdVKrgvS 81 
                              3444556666777777777677777666664434442 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 0.0005
                   AAA_22   8 lvvtGesGtGKTtllrrlleqld 30 
                              ++ +G +G+GKT+l++ + + ++
  PHY93_05795|PHY93_05795 100 IIFVGGTGVGKTFLAQAIGHAAC 122
                              7899************9998876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (252 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       637  (0.035529); expected 358.6 (0.02)
Passed bias filter:                      532  (0.0296726); expected 358.6 (0.02)
Passed Vit filter:                        85  (0.00474092); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              18  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.43
# Mc/sec: 1779.21
//
Query:       PHY93_00990|PHY93_00990  [L=84]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.9e-08   32.0   0.0    9.7e-08   31.9   0.0    1.1  1  FR47             FR47-like protein
  ------ inclusion threshold ------
      0.013   15.4   0.0      0.014   15.3   0.0    1.1  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
       0.08   13.0   0.0      0.089   12.9   0.0    1.1  1  Acetyltransf_9   Acetyltransferase (GNAT) domain


Domain annotation for each model (and alignments):
>> FR47  FR47-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.9   0.0   1.6e-11   9.7e-08      33      83 ..      25      76 ..       5      79 .. 0.88

  Alignments for each domain:
  == domain 1  score: 31.9 bits;  conditional E-value: 1.6e-11
                             G-SSSHHHHHHHHHHHHHHHS-S-.EEEEEETT-HHHHHHHHHHT-EEEEEE CS
                     FR47 33 hrrrGlgsrlvkalakeiaergkt.vllvvvasNtpsirlyeklGfekieet 83
                              +r+G+++++v+ l+ +i+  gk+ ++l +  +N +s ++y+k+Gf ki ++
  PHY93_00990|PHY93_00990 25 KKRKGYAISMVALLSDKIMSDGKKfASLFTDLTNPTSHSIYQKIGFVKIGQN 76
                             69******************8876368999****************999665 PP

>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.3   0.0   2.4e-06     0.014      64     115 ..      26      79 ..      10      82 .. 0.90

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 2.4e-06
          Acetyltransf_10  64 rgqGigkaLleaveeeaekdgikl.eltvnasp.yavpfYeklGFkavgeeqee 115
                              +++G++ +++  + +++  dg k  +l  + ++ +  ++Y+k+GF+++g++  +
  PHY93_00990|PHY93_00990  26 KRKGYAISMVALLSDKIMSDGKKFaSLFTDLTNpTSHSIYQKIGFVKIGQNIHF 79 
                              699*************99999999*999999988**************987665 PP

>> Acetyltransf_9  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   1.5e-05     0.089      85     125 ..      25      70 ..      10      73 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 1.5e-05
                              GTTS-HHHHHHHHHHHHHHHTT--EEEE--.....SSHHHHHTTT- CS
           Acetyltransf_9  85 hrgrgvlskLlaraleemreegqplsllfP.....ssipiYrrfGy 125
                              ++++g++ +++a + +++ ++g++++ lf      +s +iY++ G+
  PHY93_00990|PHY93_00990  25 KKRKGYAISMVALLSDKIMSDGKKFASLFTdltnpTSHSIYQKIGF 70 
                              579**************************77777799********9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (84 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       363  (0.0202465); expected 358.6 (0.02)
Passed bias filter:                      303  (0.0169); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.37u 0.18s 00:00:00.55 Elapsed: 00:00:00.34
# Mc/sec: 743.05
//
Query:       PHY93_00995|PHY93_00995  [L=93]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.016   15.3   0.0      0.025   14.6   0.0    1.4  1  HTH_3     Helix-turn-helix


Domain annotation for each model (and alignments):
>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.0   1.4e-06     0.025      10      55 .]      22      68 ..      14      68 .. 0.95

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 1.4e-06
                             HHHHHHHHHHT.SSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHHHH CS
                    HTH_3 10 lsqeeLAeklG.vsrstisriEnGernPsletlkklakaLgvsldel 55
                             +sq eLA +lG      i++iE  e n  l+++ kl+++L++++d++
  PHY93_00995|PHY93_00995 22 YSQIELANLLGfKCNKLIANIEEAECNVPLKIMTKLSQVLNIPPDDF 68
                             69999999999988999***************************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (93 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       465  (0.0259356); expected 358.6 (0.02)
Passed bias filter:                      314  (0.0175135); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.35u 0.19s 00:00:00.54 Elapsed: 00:00:00.34
# Mc/sec: 827.46
//
Query:       PHY93_01000|PHY93_01000  [L=378]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.6e-40  137.9  32.0    7.1e-40  137.5  32.0    1.0  1  NnrS      NnrS protein
  ------ inclusion threshold ------
          2    8.5   4.7         16    5.6   0.2    3.2  3  LisH      LisH


Domain annotation for each model (and alignments):
>> NnrS  NnrS protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  137.5  32.0   7.9e-44   7.1e-40       5     361 ..      17     376 ..      15     377 .. 0.81

  Alignments for each domain:
  == domain 1  score: 137.5 bits;  conditional E-value: 7.9e-44
                     NnrS   5 lgFRpfFllaalfaalavllWllvlagaavppllwHaheMlfGfalavvaGFLlTavpnWtgtppvkgrplallvllwlaarlall 90 
                              +++R++F+++ ++ ++a llWl  +++  + p+l+H + Ml Gf + ++aGFL+Tavp++ +t++++ ++++ ++ + l++ l+++
  PHY93_01000|PHY93_01000  17 EPYRILFPMGFIYLLWATLLWLPQIWNSGTYPVLAHRYLMLNGFSASFIAGFLMTAVPKFSQTETAHSKEIIFFISITLLG-LLFA 101
                              79********************7444443689*****************************************88888887.5556 PP

                     NnrS  91 llg..lalaavldlafllllalllarellaakqwrnlavlalllllalanllfhlallglatalasaglrl.alllvlllillvgg 173
                              +l+    l  ++ ++ ++l++++l r++l++k +  ++++++++ l+l  +     +l ++ + ++a  +l   ++++ +il vg+
  PHY93_01000|PHY93_01000 102 FLDkeN-LSYAASALQAGLILFFLSRRVLKRKVNPPYSFVFIFVGLVLWIIS----ALMGTFTVSEAFKNLhYEGAIASIILGVGS 182
                              565332.888899999999999999*****9987777777777665555555....3344555556677777889*********** PP

                     NnrS 174 Rvipfftanal..elkarpsprldrlalallllalllell......lllaa.alalaaallqlvrlarwrlwrtlrep..llwvLh 248
                              R+ip +  +a   + ++r +   d+  l+++  ++ ++++      +l++   +a+ a ++++v ++ w+l ++ +e+  l w ++
  PHY93_01000|PHY93_01000 183 RLIPGILGHAEiiQ-TQRAHYESDKPFLLTVPFHFYAMIFffvmsyFLTGPiGIAIRAVIVVCVGFFYWKLYQVPKEKtaLTWNIW 267
                              *********99853.444455555544444444444444444456556666778999999**************999888****** PP

                     NnrS 249 lgylwlplgllllglaalgaglvlesaalHaltvGalglmilavmtrvslgHtgrpl..vapklvvlaflllllaallRvlaplll 332
                              ++ +++ +++ll ++++         +a Ha++  ++ l++l ++trv   H+ ++   +  k++ ++ +l+++a ++Rv a +l+
  PHY93_01000|PHY93_01000 268 ISCWLILASFLLKAFWQD-----GLIHASHAFFFCGIVLLTLLIATRVLQSHGPKDKrlENLKILYVVTILIIFAGATRVSA-FLM 347
                              *************99973.....3378*************************77665215588889999*************.556 PP

                     NnrS 333 paalllllllaallWilafalfllryapi 361
                              p+++l  l  + ++ + a++l+  ry+++
  PHY93_01000|PHY93_01000 348 PENYLRHLGYSSIVLSFAVILWGHRYLRF 376
                              9999999*******************975 PP

>> LisH  LisH
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.0      0.01        91       8      20 ..      52      64 ..      50      66 .. 0.88
   2 ?    5.6   0.2    0.0018        16      10      24 ..     102     116 ..      95     117 .. 0.90
   3 ?   -1.2   0.2      0.25   2.3e+03       9      17 ..     350     358 ..     350     359 .. 0.88

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.01
                             HHHHHHCT-HHHH CS
                     LisH  8 ydYLvkeGyeetA 20
                             ++YL+ +G++ ++
  PHY93_01000|PHY93_01000 52 HRYLMLNGFSASF 64
                             89*******9986 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.0018
                              HHHHCT-HHHHHHHH CS
                     LisH  10 YLvkeGyeetAeaFe 24 
                              +L ke+++ +A+a++
  PHY93_01000|PHY93_01000 102 FLDKENLSYAASALQ 116
                              9************97 PP

  == domain 3  score: -1.2 bits;  conditional E-value: 0.25
                              HHHHHCT-H CS
                     LisH   9 dYLvkeGye 17 
                              +YL++ Gy+
  PHY93_01000|PHY93_01000 350 NYLRHLGYS 358
                              7****9997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (378 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       962  (0.0536561); expected 358.6 (0.02)
Passed bias filter:                      306  (0.0170673); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.64u 0.24s 00:00:00.88 Elapsed: 00:00:00.39
# Mc/sec: 2881.55
//
Query:       PHY93_01005|PHY93_01005  [L=114]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.9e-15   54.8   3.8    8.9e-15   54.8   3.8    1.5  2  HIPIP          High potential iron-sulfur protein
  ------ inclusion threshold ------
      0.017   15.1   0.0       0.03   14.4   0.0    1.4  1  CytB6-F_Fe-S   Cytochrome B6-F complex Fe-S subunit
          2    8.5   8.2          1    9.4   1.2    2.2  2  zinc_ribbon_6  Zinc-ribbon


Domain annotation for each model (and alignments):
>> HIPIP  High potential iron-sulfur protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0      0.74   4.4e+03      46      60 ..      34      50 ..      23      50 .. 0.58
   2 !   54.8   3.8   1.5e-18   8.9e-15       5      65 ..      54     112 ..      51     113 .. 0.94

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 0.74
                             EEETTST..TEBEETT- CS
                    HIPIP 46 gpCtlfa..gklVaakG 60
                               C+  +  gk+Va+ G
  PHY93_01005|PHY93_01005 34 DACPSTPpaGKAVAQAG 50
                             45654443477777765 PP

  == domain 2  score: 54.8 bits;  conditional E-value: 1.5e-18
                              HHHHT-BSSGGGSSHHHH--SSGG-SGGGBTTEESTSTT.SEEEETTSTTEBEETT-B-TT- CS
                    HIPIP   5 AkalgYvedaakadkakharyeegqhCanCalyqkkeea.ewgpCtlfagklVaakGWCsaw 65 
                              +k+l+Yv+da+ ++   + +y++g++C nC++y+ ++++ +++pCt++  k V + GWC+++
  PHY93_01005|PHY93_01005  54 GKTLEYVSDATSSK---NIKYKAGNNCGNCKFYNTAKADgGYAPCTMLGMKYVTNCGWCKSY 112
                              689**********8...66**************9999988*********************9 PP

>> CytB6-F_Fe-S  Cytochrome B6-F complex Fe-S subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0     5e-06      0.03       6      24 ..       5      23 ..       3      27 .. 0.91

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 5e-06
             CytB6-F_Fe-S  6 msrRqllNlllvGaialta 24
                             ++rR++  l+l+Ga+a++ 
  PHY93_01005|PHY93_01005  5 LNRRSFFQLALMGAVAVPF 23
                             79***************96 PP

>> zinc_ribbon_6  Zinc-ribbon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4   1.2   0.00017         1      41      58 ..      69      85 ..      60      86 .. 0.76
   2 ?    3.1   0.9     0.016        96      48      56 ..     104     112 ..      92     114 .] 0.80

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.00017
            zinc_ribbon_6 41 vkfhvlglkCkeCgSYNT 58
                             +k++ +g+ C +C+ YNT
  PHY93_01005|PHY93_01005 69 IKYK-AGNNCGNCKFYNT 85
                             4454.699********** PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.016
            zinc_ribbon_6  48 lkCkeCgSY 56 
                                C  C+SY
  PHY93_01005|PHY93_01005 104 TNCGWCKSY 112
                              46******* PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (114 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       469  (0.0261587); expected 358.6 (0.02)
Passed bias filter:                      292  (0.0162865); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.39u 0.21s 00:00:00.60 Elapsed: 00:00:00.38
# Mc/sec: 908.73
//
Query:       PHY93_01010|PHY93_01010  [L=469]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.6e-12   46.8   0.3    1.6e-08   34.6   0.1    2.4  2  Cu-oxidase_3     Multicopper oxidase
    2.4e-11   43.5   0.2    6.2e-05   22.7   0.1    3.2  2  Cu-oxidase_2     Multicopper oxidase
    7.8e-08   33.3   0.0    1.8e-07   32.2   0.0    1.6  1  Cytochrom_C      Cytochrome c
      2e-07   31.2   0.0    6.3e-07   29.6   0.0    1.9  1  Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
      2e-05   25.0   0.1      0.001   19.5   0.0    2.6  2  Copper-bind      Copper binding proteins, plastocyanin/azurin
    9.3e-05   22.5   0.0     0.0022   18.1   0.0    2.8  2  Cupredoxin_1     Cupredoxin-like domain
  ------ inclusion threshold ------
      0.019   14.7   0.0      0.076   12.7   0.0    1.9  2  Cytochrom_C550   Cytochrome c-550 domain


Domain annotation for each model (and alignments):
>> Cu-oxidase_3  Multicopper oxidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.6   0.1   6.3e-12   1.6e-08      10     117 ..      62     166 ..      54     168 .. 0.88
   2 !   10.1   0.0   0.00024      0.62      68     116 ..     268     316 ..     202     319 .. 0.77

  Alignments for each domain:
  == domain 1  score: 34.6 bits;  conditional E-value: 6.3e-12
                              TTEESEEEEEECTSSBS-EEEEETT-EEEEEEEE-S..SS-B-EEEET--S-GG.....GSCSGGG-B-TT-EEEEEEE--S-SEE CS
             Cu-oxidase_3  10 lggterevitvNgqfpgptievregdtvvvnvtNkl..dentsihwhGlqqrktswmDGvpgvtqcpiqpgesftyrftvkqqagt 93 
                              ++g++ +++t+ g++pg  i+vr gd+v+ +++N+   + +  i +h +  ++     G++     + +pg++ ++ f++ +  g 
  PHY93_01010|PHY93_01010  62 ADGVDYTFWTFGGSVPGKFIRVRHGDSVEFTLKNNGknKLPHNIDLHAVSGPGG----GAAV---TATAPGQKSKFIFKALN-PGL 139
                              56677899***************************9545568999999999999....6655...7899*************.*** PP

                              EEEEE--TT...HHHTT-EEEEEEE-H CS
             Cu-oxidase_3  94 lwYhshlsl...qqaaGlaGaiiiedk 117
                              + Yh  ++    + a+G++G+i ++++
  PHY93_01010|PHY93_01010 140 YVYHCATAPvgmHIANGMYGLIYVQPE 166
                              ****99887787888*********986 PP

  == domain 2  score: 10.1 bits;  conditional E-value: 0.00024
                              SCSGGG-B-TT-EEEEEEE--S-SEEEEEEE--TTHHH.TT-EEEEEEE- CS
             Cu-oxidase_3  68 pgvtqcpiqpgesftyrftvkqqagtlwYhshlslqqa.aGlaGaiiied 116
                              + v++  i++g s   +f+++   gt++  +h+ ++   +G  G++ +e 
  PHY93_01010|PHY93_01010 268 DNVQTTLIPSGGSTIVEFKLNT-VGTYLLVDHSIFRTFhKGTLGMLKVEG 316
                              4567799***************.************9999******99985 PP

>> Cu-oxidase_2  Multicopper oxidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.7   0.1   2.4e-08   6.2e-05      33     135 ..      79     165 ..      59     167 .. 0.85
   2 !   14.5   0.0   8.8e-06     0.022      23     115 ..     208     295 ..     190     305 .. 0.82

  Alignments for each domain:
  == domain 1  score: 22.7 bits;  conditional E-value: 2.4e-08
                              EEEEEETTEEEEEEEEE-SSS..-EEEEESS-EEEEEEEEECCCCCCTCCSSGCCGSSCBSEEEE-TTEEEEEEEES.S-EEEEEE CS
             Cu-oxidase_2  33 nvitlpkgevveiviqnntkl..pHPfHlHGhdfqvlgrgpgndpeedpksynlenpvrrdtvqvppggwvairfkadnpGvwllH 116
                              + i++++g+ ve++++nn+k   pH + lH +     g g+g                   ++++ pg++    fka npG +++H
  PHY93_01010|PHY93_01010  79 KFIRVRHGDSVEFTLKNNGKNklPHNIDLHAV----SGPGGGA-----------------AVTATAPGQKSKFIFKALNPGLYVYH 143
                              66889999999999999888877888888876....4555555.................7888899******************* PP

                              ESSH...HHHHTT-EEEEEEEC CS
             Cu-oxidase_2 117 CHil...wHldqGmalqfvvrp 135
                              C  +    H  +Gm++ ++v+p
  PHY93_01010|PHY93_01010 144 CATApvgMHIANGMYGLIYVQP 165
                              ****999*********999987 PP

  == domain 2  score: 14.5 bits;  conditional E-value: 8.8e-06
                              E....ETCCTT.TSSEEEEEETTEEEEEEEEE-SSS.-EEEEESS-EEEEEEEEECCCCCCTCCSSGCCGSSCBSEEEE-TTEEEE CS
             Cu-oxidase_2  23 t....ngeefs.entnvitlpkgevveiviqnntkl.pHPfHlHGhdfqvlgrgpgndpeedpksynlenpvrrdtvqvppggwva 102
                              t    ng++ s  ++n+++++ ge+v++ i n ++    +fH  G  f+ + +++g+         ++++     t+ +p+gg ++
  PHY93_01010|PHY93_01010 208 TyvvfNGSQGSlVGDNALKAKVGETVRFFIGNGGPNlISSFHVIGEIFDKVYTEGGS---------KFQDN--VQTTLIPSGGSTI 282
                              2455566644448899****************9999999************999999.........45444..46*********** PP

                              EEEES.S-EEEEE CS
             Cu-oxidase_2 103 irfkadnpGvwll 115
                              ++fk +  G +ll
  PHY93_01010|PHY93_01010 283 VEFKLNTVGTYLL 295
                              **********997 PP

>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.2   0.0   6.8e-11   1.8e-07       3      90 ..     356     444 ..     354     446 .. 0.61

  Alignments for each domain:
  == domain 1  score: 32.2 bits;  conditional E-value: 6.8e-11
                              -HHHHHHTTGGGTB-SSSBSSS....--HHHHHHHTTT-HHHHHHHHTTSS--S......SSHHHHHHHGGGGGGG.TT--HHHHH CS
              Cytochrom_C   3 rGkelftanCaaCHgvegggakqgggptlsgaaerasaasigasvanpaavsap......rddfekkkltaemparkerlteqeia 82 
                               Gk lf+anC aCHg eg+g++++  p+l++    +  +s +     ++  s p      +   ++k++ +emp     +t++e+a
  PHY93_01010|PHY93_01010 356 SGKDLFMANCSACHGEEGKGVEGA-FPPLAKSDFLKKLSSKKDR---SELISFPligkkgKIVVNNKEYDGEMPVI-ADITDKELA 436
                              7*****99*************976.6666554433332222222...22223332222223333444444555544.56******* PP

                              HHHHHHHT CS
              Cytochrom_C  83 dlaaYLks 90 
                              ++  Y+++
  PHY93_01010|PHY93_01010 437 KVFTYVSN 444
                              *****987 PP

>> Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.6   0.0   2.4e-10   6.3e-07       3      67 .]     354     442 ..     352     442 .. 0.72

  Alignments for each domain:
  == domain 1  score: 29.6 bits;  conditional E-value: 2.4e-10
          Cytochrome_CBB3   3 aaaGaalykknCasCHgkggag.....pslagr.dwep.......dalvd.........iiknGk...gaMpafggqlsdeelwal 63 
                              + +G+ l+ +nC++CHg++g+g     p+la++  +++       ++l +         i+ n k   g Mp ++ +++d+el+++
  PHY93_01010|PHY93_01010 354 VVSGKDLFMANCSACHGEEGKGvegafPPLAKSdFLKKlsskkdrSELISfpligkkgkIVVNNKeydGEMPVIA-DITDKELAKV 438
                              568**************88888888**9999773444366666775555556633344433333345579****9.5********* PP

          Cytochrome_CBB3  64 vaYl 67 
                               +Y+
  PHY93_01010|PHY93_01010 439 FTYV 442
                              **97 PP

>> Copper-bind  Copper binding proteins, plastocyanin/azurin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.5   0.0   3.9e-07     0.001      18      99 .]      80     164 ..      77     164 .. 0.85
   2 ?    2.5   0.0     0.076   1.9e+02      17      82 ..     223     293 ..     211     305 .. 0.75

  Alignments for each domain:
  == domain 1  score: 19.5 bits;  conditional E-value: 3.9e-07
                              EEEEETTEEEEEEEE....SSSSBEEEEETTSSTTTGGGTTSCTTCEEEEBSTTEEEEEEEE..SSEEEEEEET..T...TTTTTS CS
              Copper-bind  18 eitvkkgekvtfvnl....avmgHNvvldkdgvpagvdkdkvkaedetkliggGekdsvtfd..eagtYkffCs..P...HaaagM 92 
                               i+v  g++v+f+ +    ++ +HN+ l++ + p g ++   +a        +G+k++  f+  ++g Y ++C+  P   H a gM
  PHY93_01010|PHY93_01010  80 FIRVRHGDSVEFTLKnngkNKLPHNIDLHAVSGPGGGAAVTATA--------PGQKSKFIFKalNPGLYVYHCAtaPvgmHIANGM 157
                              689999999988655579999********988888776665555........8*********978888*****8899********* PP

                              EEEEEEE CS
              Copper-bind  93 kgkvtve 99 
                              +g + v+
  PHY93_01010|PHY93_01010 158 YGLIYVQ 164
                              ***9985 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.076
                              SEEEEETTEEEEEEEESSSSBEEEEETTSSTTTGGGTTSCTTC......EEEEBSTTEEEEEEEESSEEEEE CS
              Copper-bind  17 keitvkkgekvtfvnlavmgHNvvldkdgvpagvdkdkvkaed......etkliggGekdsvtfdeagtYkf 82 
                              ++++ k ge+v f   ++ g N+  +   + + +dk +++ +       +t+li +G ++ v+f+++   ++
  PHY93_01010|PHY93_01010 223 NALKAKVGETVRFFIGNG-GPNLISSFHVIGEIFDKVYTEGGSkfqdnvQTTLIPSGGSTIVEFKLNTVGTY 293
                              567788888888887554.55888888777777777777766666668889999999999999996554333 PP

>> Cupredoxin_1  Cupredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.0   8.6e-07    0.0022      37      94 ..      81     146 ..      73     157 .. 0.85
   2 ?    0.9   0.0       0.2     5e+02      68     101 ..     273     308 ..     223     309 .. 0.80

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 8.6e-07
             Cupredoxin_1  37 ievkagekvklkiknkdktp..eefesed......lgeekvlapgktttitiaplkpGeYeftcdm 94 
                              i v  g +v++++kn++k    +++  +           +  apg+++++ +++l+pG Y ++c  
  PHY93_01010|PHY93_01010  81 IRVRHGDSVEFTLKNNGKNKlpHNIDLHAvsgpggGAAVTATAPGQKSKFIFKALNPGLYVYHCAT 146
                              7899***************54588888888888865667999**********************85 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.2
             Cupredoxin_1  68 kvlapgktttitiaplkpGeYeftcd..mhmdakGk 101
                              + +++g +t ++++  + G+Y +++   +  + kG+
  PHY93_01010|PHY93_01010 273 TLIPSGGSTIVEFKLNTVGTYLLVDHsiFRTFHKGT 308
                              668899999999999999**9998876666666666 PP

>> Cytochrom_C550  Cytochrome c-550 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0     3e-05     0.076       7      42 ..     335     370 ..     328     387 .. 0.88
   2 ?   -1.6   0.0      0.79     2e+03     104     119 ..     427     442 ..     413     463 .. 0.62

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 3e-05
                              TTEEESSTTS-EEEEEHHHHHHHHHHHHHHTHHHHG CS
           Cytochrom_C550   7 trtvplneegetvtlseeqlkkgkklFeaeCaqCHv 42 
                              t++v+ +++ e + l + ++ +gk lF a+C+ CH 
  PHY93_01010|PHY93_01010 335 TKEVAPEKKVEVIKLEAPKVVSGKDLFMANCSACHG 370
                              66788888999999*********************5 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 0.79
                              GTTS-HHHHHHHHHHH CS
           Cytochrom_C550 104 lrnltdedlkaiagyi 119
                              + ++td++l+++ +y+
  PHY93_01010|PHY93_01010 427 IADITDKELAKVFTYV 442
                              5556666666665554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (469 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       386  (0.0215294); expected 358.6 (0.02)
Passed bias filter:                      337  (0.0187964); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.53u 0.21s 00:00:00.74 Elapsed: 00:00:00.39
# Mc/sec: 3648.08
//
Query:       PHY93_01015|PHY93_01015  [L=246]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.6e-26   92.3   0.0    4.7e-26   91.9   0.0    1.1  1  FGE-sulfatase  Sulfatase-modifying factor enzyme 1


Domain annotation for each model (and alignments):
>> FGE-sulfatase  Sulfatase-modifying factor enzyme 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   91.9   0.0   2.6e-30   4.7e-26      25     259 ..      37     245 ..      21     246 .] 0.75

  Alignments for each domain:
  == domain 1  score: 91.9 bits;  conditional E-value: 2.6e-30
                              CC-S-EEEEES-EEEESS--BHHHHHHHHHHH....HSSETTEEEEETSCTTBCCTTC-SSTT-TTSB--S--HHHHHHHHHHHCH CS
            FGE-sulfatase  25 eeapahevtvraFaidkteVTnaqyaafveatgyeteaasqwwaeveganvrhpegrksdikkradhPvvhVsweDavaYArwlgk 110
                               e+ +++  +++F++d ++VT++++++f++++          w + + a++   ++    ++   d Pvv Vsw+ a+aY++ +  
  PHY93_01015|PHY93_01015  37 IEKDQKDFLIKSFRMDIYPVTVNAFNDFLKKN--------PDWTREKIARIYADKNYLAIKNTVGDSPVVFVSWFAANAYCELKKG 114
                              5666777778*********************4........467777888887777777788899*******************999 PP

                              HHTS-EE---HHHHHHHHHTT-....SSSSCTTBSTTSCCGB...SSTTTTB--TTCGGS-SS.---TT-S-B-TTS-B-TTCSSE CS
            FGE-sulfatase 111 ktgegyrLPteaEweyAArggk....kgreypwgdelkpakniwqGslakfekeaaaadsqngrtspvgsfppnalGlyDmaGNvw 192
                                    r+P+  Ewey A +++    ++++ p  d+               +++ +a+d++      vg+ ++n +G++D++G +w
  PHY93_01015|PHY93_01015 115 ------RIPSTLEWEYVAAASEtlrdASKSAPVIDKIL------------SWYSSPAKDGEIL---VVGKDKANIYGIHDLHGLIW 179
                              ......**********9977542222222222223222............2455555566666...9******************* PP

                              EEEEEE--THCCH-SSCS----SS-SSEEEEC--TTS.T....TGGCTSTT-E.EEE-TT--BTTEEE--E CS
            FGE-sulfatase 193 EWtsdwykkyalapaeelsqeaekgelrvvkGgswlkae....lssllraafrasaetpdtaasdvGfRlv 259
                              EWtsd ++      ++  ++++ ++++ +  G   + a     +  ++r + r s+ ++ ++ +++GfR++
  PHY93_01015|PHY93_01015 180 EWTSD-FN---SVIMTSDNRDDGDKSKGLYCGAGSIGARtredYAGFARYSLR-SSLSANFTLTNMGFRCA 245
                              *****.54...355555556666666666666544444334679*********.5557************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (246 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       443  (0.0247086); expected 358.6 (0.02)
Passed bias filter:                      417  (0.0232584); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.35
# Mc/sec: 2082.35
//
Query:       PHY93_01020|PHY93_01020  [L=177]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    7.9e-19   67.9   0.0      1e-18   67.5   0.0    1.1  1  SCO1-SenC      SCO1/SenC
    1.8e-06   27.7   0.0    2.6e-06   27.2   0.0    1.2  1  Redoxin        Redoxin
    1.4e-05   25.0   0.2    2.2e-05   24.4   0.2    1.4  1  AhpC-TSA       AhpC/TSA family
    0.00038   19.7   0.3    0.00082   18.6   0.2    1.3  1  HDA2-3         Class II histone deacetylase complex subunits 
     0.0016   18.7   0.2     0.0023   18.2   0.2    1.3  1  Thioredoxin_8  Thioredoxin-like
  ------ inclusion threshold ------
      0.017   14.7   1.0      0.032   13.8   0.4    1.8  1  DUF1189        Protein of unknown function (DUF1189)
      0.038   13.3   0.0      0.072   12.4   0.0    1.4  2  T4_deiodinase  Iodothyronine deiodinase


Domain annotation for each model (and alignments):
>> SCO1-SenC  SCO1/SenC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.5   0.0     4e-22     1e-18       8     133 ..      36     162 ..      31     163 .. 0.92

  Alignments for each domain:
  == domain 1  score: 67.5 bits;  conditional E-value: 4e-22
                SCO1-SenC   8 dqdgeavteedlegkpslvffgFthCpdvCpttlanmaevldalgeeaekvqplfiTvDPerDtpev.lkeyleafdpriig...l 89 
                              d++ ++++ +d++gk +++ + +t+C+  Cp+ +++++++ + ++e++ kv++++iT DP+ Dtpe+    y e+++ +  +   l
  PHY93_01020|PHY93_01020  36 DEKNNTFSLSDMKGKKIVLAMAYTSCQGTCPMIVSKLKKIEKLFNEKNIKVDVIIITFDPKFDTPERnFSFYREKMSLNKDNwhfL 121
                              78899************************************************************97356667777766666777* PP

                SCO1-SenC  90 tGskeeiakaakefrvyvekvedeesdytvdHsssvyLvdpdgr 133
                               Gs++e++k++   +++++ +++++    + H   ++L+++ g+
  PHY93_01020|PHY93_01020 122 NGSENETRKMSMLLGIKYAVNPQSKA---IIHDNKIILINEAGE 162
                              ********************999999...***********9997 PP

>> Redoxin  Redoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.2   0.0     1e-09   2.6e-06      16     127 ..      37     163 ..      27     174 .. 0.70

  Alignments for each domain:
  == domain 1  score: 27.2 bits;  conditional E-value: 1e-09
                              TCEEEEEHHHHTTSEEEEEEESTTT-HHHHHTHHHHHTHHHHHHCSTTTEEEEEESSSHH..........HHHHHHH....TT-TS CS
                  Redoxin  16 tdgnsvslsefkgkkvvvnfvpgafcPtCsaehpyleklaellkekgvdvvavvadndaf..........vkefwgk....eglkf 87 
                              +++n++sls+ kgkk+v+    +   +tC   + +l+k+++l++ek+++v ++++  d+                 +    ++ ++
  PHY93_01020|PHY93_01020  37 EKNNTFSLSDMKGKKIVLAMAYTSCQGTCPMIVSKLKKIEKLFNEKNIKVDVIIITFDPKfdtpernfsfY----REkmslNKDNW 118
                              789***************88888666888776669999999999999988777777777667776533332....33566666677 PP

                              EEEE-...TTSHHHHHTT-TTEEE.GGG..EEE-EEEEEEETTEE CS
                  Redoxin  88 pvlsD...gsaaftkalGlrleedaseg..lrtpryavidedgkv 127
                              ++l     ++ +++  lG+++++  ++   +     ++i+e g +
  PHY93_01020|PHY93_01020 119 HFLNGsenETRKMSMLLGIKYAVNPQSKaiIHDNKIILINEAGEI 163
                              777666677888888888887755444444444555555555544 PP

>> AhpC-TSA  AhpC/TSA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.4   0.2   8.7e-09   2.2e-05       9      71 ..      33      97 ..      29     166 .. 0.76

  Alignments for each domain:
  == domain 1  score: 24.4 bits;  conditional E-value: 8.7e-09
                             EEESTTCEEEECHHHTTSEEEEEEESTST-CCHHHHHHHHHHCHHHCCCTTE..EEEEEESSSCH CS
                 AhpC-TSA  9 elknadgetvslsdykgkpvvlffypkdwcpvCttelpalaklyeefkergv..evigvsvdspe 71
                             + k+++ +t+slsd+kgk++vl +  +     C+  +++l+k  + f e+++  +vi+++ d+++
  PHY93_01020|PHY93_01020 33 KWKDEKNNTFSLSDMKGKKIVLAMAYTSCQGTCPMIVSKLKKIEKLFNEKNIkvDVIIITFDPKF 97
                             4578999***************9988856667999999999999999988752278888888877 PP

>> HDA2-3  Class II histone deacetylase complex subunits 2 and 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.2   3.2e-07   0.00082     131     221 ..      12     110 ..       4     117 .. 0.82

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 3.2e-07
                              HTTSSSEEEESSS--S--S---S-..........................-SEEEEEEESS---TTTS--TT-S-EEE.EEE-SST CS
                   HDA2-3 131 llGkklkikrysgeklydekkkkskdtkkns...rktkekl.....kkkihsltihllsttrqltkdksllenikfdl.iiafDss 207
                              l  k l++   s+ +ly+ ++k + d+k+n    +  k k+       + ++ t+ +++++ ++ ++    +nik+d+ ii fD++
  PHY93_01020|PHY93_01020  12 LFLKMLYLADASELSLYQSSAKWK-DEKNNTfslSDMKGKKivlamAYTSCQGTCPMIVSKLKKIEKLFNEKNIKVDViIITFDPK 96 
                              55678888999999*******999.8888888774444444689888899999***********************762679**** PP

                              --TTSHHHHHHH-- CS
                   HDA2-3 208 vdtsspsveslrtq 221
                              +dt + +++  r++
  PHY93_01020|PHY93_01020  97 FDTPERNFSFYREK 110
                              *****999998876 PP

>> Thioredoxin_8  Thioredoxin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.2   9.1e-07    0.0023       2      82 ..      51     139 ..      49     163 .. 0.76

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 9.1e-07
                              SEEEEEE--SSSHHHHHHHHHHHHHHHHHHH.TTSEEEEEEE-SS-....HHHHHHHGGGS...-TTSEE.EE-TT-HHHHTT-S- CS
            Thioredoxin_8   2 kvvlLyfgaswcppckaftpklkelyeklkk.kkkveivyvsldkk....eeefekylkkn...kkpwlsvpfddkkrnklkkkyn 79 
                              k+vl + ++s++  c  +++klk++++ +++ + kv ++ + +d k    e++f  y++k+   k +w+++  ++ ++ k+   ++
  PHY93_01020|PHY93_01020  51 KIVLAMAYTSCQGTCPMIVSKLKKIEKLFNEkNIKVDVIIITFDPKfdtpERNFSFYREKMslnKDNWHFLNGSENETRKMSMLLG 136
                              56666666666667****************9999*********7554445899999999997766689988888888888877776 PP

                              -TT CS
            Thioredoxin_8  80 vka 82 
                              +k 
  PHY93_01020|PHY93_01020 137 IKY 139
                              665 PP

>> DUF1189  Protein of unknown function (DUF1189)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.4   1.2e-05     0.032      82     136 ..      83     137 ..      70     158 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 1.2e-05
                  DUF1189  82 iiqedgitiifDtsgetdeedlekynngililkdkiviknggttqsysysdledq 136
                               i+ d i+i+fD++ +t e++ + y + + ++kd++ + ng+++++ + s+l  +
  PHY93_01020|PHY93_01020  83 NIKVDVIIITFDPKFDTPERNFSFYREKMSLNKDNWHFLNGSENETRKMSMLLGI 137
                              34678899*************************************9999998876 PP

>> T4_deiodinase  Iodothyronine deiodinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   2.8e-05     0.072     100     143 ..      49      94 ..      23      99 .. 0.83
   2 ?   -3.0   0.0       1.4   3.5e+03     196     221 ..     137     162 ..     130     170 .. 0.70

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 2.8e-05
            T4_deiodinase 100 qgnrPlvlnfGsa..tcPpflaklsafkrlveefssvadfliiyie 143
                                +  l + + s+  tcP  ++kl++ ++l +e + ++d +ii  +
  PHY93_01020|PHY93_01020  49 GKKIVLAMAYTSCqgTCPMIVSKLKKIEKLFNEKNIKVDVIIITFD 94 
                              4445677889998889**************************9765 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 1.4
            T4_deiodinase 196 saygalferlyvvqegkilykGgkGP 221
                              + y++ ++   ++ ++ki+   + G 
  PHY93_01020|PHY93_01020 137 IKYAVNPQSKAIIHDNKIILINEAGE 162
                              56788888888888888876666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (177 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       700  (0.0390429); expected 358.6 (0.02)
Passed bias filter:                      425  (0.0237046); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1306.02
//
Query:       PHY93_01025|PHY93_01025  [L=151]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.2e-08   34.3   0.2    1.9e-08   33.7   0.2    1.2  1  GerE      Bacterial regulatory proteins, luxR family
  ------ inclusion threshold ------
      0.014   15.2   0.1      0.034   14.0   0.1    1.7  1  HTH_5     Bacterial regulatory protein, arsR family
      0.056   14.0   1.7      0.088   13.4   1.7    1.3  1  Mga       Mga helix-turn-helix domain
       0.11   12.4   0.1       0.19   11.6   0.1    1.4  1  HTH_10    HTH DNA binding domain


Domain annotation for each model (and alignments):
>> GerE  Bacterial regulatory proteins, luxR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.7   0.2   4.1e-12   1.9e-08       3      45 ..     100     142 ..      98     144 .. 0.97

  Alignments for each domain:
  == domain 1  score: 33.7 bits;  conditional E-value: 4.1e-12
                              S-HHHHHHHHHHCTTS-HHHHHHHHTS-HHHHHHHHHHHHHHH CS
                     GerE   3 LskRErevLrllaeGksnkeIAeelniSekTVkvhksnimkKL 45 
                              Lsk E+ ++  + eG++n +I ++l+iS+ T k+h+ ni+kKL
  PHY93_01025|PHY93_01025 100 LSKSELIIFLKVLEGEKNSQIIKDLFISKSTLKTHLNNIYKKL 142
                              9999**************************************9 PP

>> HTH_5  Bacterial regulatory protein, arsR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.1   7.6e-06     0.034      17      41 ..     116     140 ..     101     141 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 7.6e-06
                              EHHHHHHHHTS-HHHHHHHHHHHHH CS
                    HTH_5  17 cvcelaeelglsqstvShHLkkLre 41 
                              + +++ ++l +s+st+  HL+  ++
  PHY93_01025|PHY93_01025 116 KNSQIIKDLFISKSTLKTHLNNIYK 140
                              579*****************99876 PP

>> Mga  Mga helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   1.7     2e-05     0.088       6      59 ..      93     143 ..      88     147 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 2e-05
                              HHHHHHHHHHSHHHHHHHHHHHHSEEEHHHHHHHCT--HHHHHHHHHHHHHHCH CS
                      Mga   6 eellqellkeslkyqllkflfeeeevsieelaqelyiSestlkrkikelnklLk 59 
                              e+ll++ l +s+ + +lk l  e   +  ++++ l+iS+stlk +++++ k L 
  PHY93_01025|PHY93_01025  93 EMLLSYELSKSELIIFLKVLEGE---KNSQIIKDLFISKSTLKTHLNNIYKKLP 143
                              66777778888888888876533...3457899****************99885 PP

>> HTH_10  HTH DNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.1   4.2e-05      0.19      31      51 ..     122     142 ..     116     144 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 4.2e-05
                   HTH_10  31 kelGIskstlsehLrkaeskl 51 
                              k+l Iskstl+ hL+++ +kl
  PHY93_01025|PHY93_01025 122 KDLFISKSTLKTHLNNIYKKL 142
                              7788***************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (151 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       763  (0.0425568); expected 358.6 (0.02)
Passed bias filter:                      353  (0.0196888); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.38u 0.21s 00:00:00.59 Elapsed: 00:00:00.35
# Mc/sec: 1300.36
//
Query:       PHY93_01030|PHY93_01030  [L=127]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    7.7e-19   67.8   0.0    9.9e-19   67.5   0.0    1.1  1  Rrf2            Transcriptional regulator
    6.3e-06   26.0   0.0    1.1e-05   25.2   0.0    1.3  1  MarR_2          MarR family
    1.2e-05   25.1   0.0    1.8e-05   24.6   0.0    1.3  1  HTH_11          HTH domain
    1.4e-05   24.7   0.0      2e-05   24.2   0.0    1.2  1  HrcA_DNA-bdg    Winged helix-turn-helix transcription repress
    0.00075   19.3   0.0     0.0011   18.7   0.0    1.3  1  HTH_IclR        IclR helix-turn-helix domain
     0.0008   18.9   0.1     0.0012   18.3   0.1    1.3  1  HTH_24          Winged helix-turn-helix DNA-binding
      0.002   18.3   0.0     0.0034   17.5   0.0    1.4  1  HTH_34          Winged helix DNA-binding domain
     0.0046   17.6   0.1     0.0062   17.2   0.1    1.2  1  RPA_C           Replication protein A C terminal
     0.0055   16.9   0.1      0.008   16.3   0.1    1.2  1  Fe_dep_repress  Iron dependent repressor, N-terminal DNA bind
  ------ inclusion threshold ------
      0.023   14.6   0.0      0.038   13.9   0.0    1.4  1  MarR            MarR family
      0.024   14.6   0.1      0.074   13.0   0.0    1.8  2  PuR_N           Bacterial purine repressor, N-terminal
      0.049   14.1   0.0      0.078   13.5   0.0    1.3  1  HTH_27          Winged helix DNA-binding domain
      0.053   13.7   0.0      0.083   13.1   0.0    1.2  1  SgrR_N          Sugar transport-related sRNA regulator N-term
      0.072   12.9   0.0       0.12   12.2   0.0    1.4  1  HTH_23          Homeodomain-like domain
      0.098   12.8   0.0       0.21   11.7   0.0    1.6  1  HTH_AraC        Bacterial regulatory helix-turn-helix protein


Domain annotation for each model (and alignments):
>> Rrf2  Transcriptional regulator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.5   0.0   8.2e-22   9.9e-19       1      82 [.       1      80 [.       1      81 [. 0.97

  Alignments for each domain:
  == domain 1  score: 67.5 bits;  conditional E-value: 8.2e-22
                             X---HHHHHHHHHHHHHHHSSTCC-B-HHHHHHHHTS-HHHHHHHHHHHHHTTSEEEETTT-TCEEESSHCCCSBHHHHHHH CS
                     Rrf2  1 MklsskteyalhallyLakeeeeepvsseeiaerqnispsylekilakLrkaglvksvrGkgGGyrLakppeeItlldvvra 82
                             Mkl+skt+yal++l+yL+k++++  v++++ia+++ +s+++l+ ++++L++ g++ s+ G++GG+  +++ ++ t++d +  
  PHY93_01030|PHY93_01030  1 MKLTSKTDYALRVLIYLQKNKSR--VKIQQIADEYHVSKNHLSVVVNTLSELGYIISTPGPHGGIEFNESFADHTVGDLISK 80
                             9*******************995..9****************************************************9875 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.2   0.0   9.1e-09   1.1e-05       8      58 ..      11      60 ..      10      62 .. 0.94

  Alignments for each domain:
  == domain 1  score: 25.2 bits;  conditional E-value: 9.1e-09
                             HHHHHHHHCTTTSEEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEEEESSS CS
                   MarR_2  8 arvLaaLgrrpgrdltvgelarrlglsksavsrilkrLvaaGLverrpgpe 58
                             +rvL +L  +  r + ++++a++ ++sk  +s +++ L++ G++  +pgp+
  PHY93_01030|PHY93_01030 11 LRVLIYLQKNKSR-VKIQQIADEYHVSKNHLSVVVNTLSELGYIISTPGPH 60
                             69*********86.9*********************************997 PP

>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.6   0.0   1.5e-08   1.8e-05       4      53 ..      12      61 ..      10      64 .. 0.92

  Alignments for each domain:
  == domain 1  score: 24.6 bits;  conditional E-value: 1.5e-08
                   HTH_11  4 qilelLleargpisgeeLAeeLnvSrrtvrrdIkaLeelgvpIesepgr.G 53
                              +l+ L ++++ + ++++A+e +vS+      + +L+elg  I+s+pg+ G
  PHY93_01030|PHY93_01030 12 RVLIYLQKNKSRVKIQQIADEYHVSKNHLSVVVNTLSELG-YIISTPGPhG 61
                             68999*9*********************************.9******973 PP

>> HrcA_DNA-bdg  Winged helix-turn-helix transcription repressor, HrcA DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.2   0.0   1.6e-08     2e-05       2      62 ..       3      62 ..       2      69 .. 0.87

  Alignments for each domain:
  == domain 1  score: 24.2 bits;  conditional E-value: 1.6e-08
             HrcA_DNA-bdg  2 LtsvqkeilqaLielyrkkkravKgeeiAevlkrneGtvRNqlqsLkalgLvegvpGPkGG 62
                             Lts     l+ Li l+++ k+ vK ++iA+  +  +  +  ++++L  lg + + pGP+GG
  PHY93_01030|PHY93_01030  3 LTSKTDYALRVLIYLQKN-KSRVKIQQIADEYHVSKNHLSVVVNTLSELGYIISTPGPHGG 62
                             677777778899988755.567*********9999999999*******************9 PP

>> HTH_IclR  IclR helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   0.0   9.6e-07    0.0011       5      48 ..      10      53 ..       8      57 .. 0.97

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 9.6e-07
                             HHHHHCT-CTTBSS-BHHHHHHHHTS-HHHHHHHHHHHHHTTSE CS
                 HTH_IclR  5 alaiLdalaeapqeltlselArrtglpkStvhRlLqtLvelGyv 48
                             al++L +l +   +++++++A++ +++k   +  ++tL elGy+
  PHY93_01030|PHY93_01030 10 ALRVLIYLQKNKSRVKIQQIADEYHVSKNHLSVVVNTLSELGYI 53
                             89*****************************************7 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.1     1e-06    0.0012       4      47 ..       9      53 ..       6      54 .. 0.92

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 1e-06
                   HTH_24  4 tdrkILelLqk.nprisqreLAerlglSpstvnrrlkrLeeeGlI 47
                             + +++L +Lqk ++r  ++++A++ ++S++ ++  ++ L e G+I
  PHY93_01030|PHY93_01030  9 YALRVLIYLQKnKSRVKIQQIADEYHVSKNHLSVVVNTLSELGYI 53
                             5689*******7777*****************************9 PP

>> HTH_34  Winged helix DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.0   2.8e-06    0.0034       3      45 ..      11      54 ..      10      64 .. 0.93

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 2.8e-06
                   HTH_34  3 lavlsyLas.vdeadfvelkealeatdgnLsvhlkkLekagYie 45
                             l vl yL + +++++ +++ ++  +++ +Lsv +++L + gYi 
  PHY93_01030|PHY93_01030 11 LRVLIYLQKnKSRVKIQQIADEYHVSKNHLSVVVNTLSELGYII 54
                             7899****97889*****************************96 PP

>> RPA_C  Replication protein A C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.1   5.2e-06    0.0062      53     100 ..      12      56 ..       1      57 [. 0.80

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 5.2e-06
                              HHHHHHHH.SXSTTTEEHHHHHHHSTSXHHHHHHHHHHHHHTTSEEES CS
                    RPA_C  53 qvlnlikqspeseeGvhvdeiaqklrlsvndvkqavdeLsneGiiYsT 100
                              +vl ++++   ++  v++++ia + ++s+n +  +v++Ls+ G+i sT
  PHY93_01030|PHY93_01030  12 RVLIYLQK---NKSRVKIQQIADEYHVSKNHLSVVVNTLSELGYIIST 56 
                              44445544...566699****************************998 PP

>> Fe_dep_repress  Iron dependent repressor, N-terminal DNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.1   6.7e-06     0.008       1      56 [.       2      57 ..       2      60 .. 0.93

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 6.7e-06
                             X--HHHHHHHHHHHHHHHHHSSB-HHHHHHHHTS-HHHHHHHHHHHHHTTSEEEET CS
           Fe_dep_repress  1 dLvestEdYLetIYtlseekkvvktkdlaerLnvspssVsemlkkLekdGyveyek 56
                             +L+++t+  L+++  l+++k+ vk +++a +  vs+   s  ++ L++ Gy++  +
  PHY93_01030|PHY93_01030  2 KLTSKTDYALRVLIYLQKNKSRVKIQQIADEYHVSKNHLSVVVNTLSELGYIISTP 57
                             689999999******************************************98765 PP

>> MarR  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   3.2e-05     0.038       9      53 ..      14      59 ..       7      60 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 3.2e-05
                             HHHHHHSTT.EEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEEET CS
                     MarR  9 Lrilyeqgp.lsvseLakklgvskstvtrvldrLekkGlieRsksp 53
                             L  l  + +  +++++a+  +vsk +++ v+ +L + G+i +++ p
  PHY93_01030|PHY93_01030 14 LIYLQKNKSrVKIQQIADEYHVSKNHLSVVVNTLSELGYIISTPGP 59
                             555555555599****************************988765 PP

>> PuR_N  Bacterial purine repressor, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   6.2e-05     0.074      14      68 ..      17      65 ..      11      66 .. 0.84
   2 ?   -3.1   0.0       6.5   7.7e+03      39      56 ..      82      99 ..      79     102 .. 0.62

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 6.2e-05
                    PuR_N 14 lenPnklisltyfaerfeaAKSsiSeDlaiikealekeglGkletvaGaaGGvky 68
                             l++ ++ ++++++a++++++K  +S    ++ ++l+  +lG++ +++G  GG+++
  PHY93_01030|PHY93_01030 17 LQKNKSRVKIQQIADEYHVSKNHLS----VVVNTLS--ELGYIISTPGPHGGIEF 65
                             5666778999***********8765....8888886..589************99 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 6.5
                    PuR_N 39 eDlaiikealekeglGkl 56
                             eD +i++   ++ ++++l
  PHY93_01030|PHY93_01030 82 EDFHIVECFDSNLNVCTL 99
                             777777655555555555 PP

>> HTH_27  Winged helix DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   6.6e-05     0.078      13      54 ..      18      59 ..       4      63 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 6.6e-05
                   HTH_27 13 rhrrrrkkladlcgrlnvedshisyslkkLtekGLvertgde 54
                             + +  r+k+ ++++ + v++ h s +++ L e G++ +t+ +
  PHY93_01030|PHY93_01030 18 QKNKSRVKIQQIADEYHVSKNHLSVVVNTLSELGYIISTPGP 59
                             4678899*****************************777665 PP

>> SgrR_N  Sugar transport-related sRNA regulator N-term
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   6.9e-05     0.083       8      52 ..      12      56 ..       6      62 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 6.9e-05
                   SgrR_N  8 rLlqhfegkevevtLqelAdvlfCsrRhartlLkkmqeegwleWq 52
                             r l + ++++++v++q++Ad  + s+ h  ++ + ++e g++  +
  PHY93_01030|PHY93_01030 12 RVLIYLQKNKSRVKIQQIADEYHVSKNHLSVVVNTLSELGYIIST 56
                             5666788999******************************99655 PP

>> HTH_23  Homeodomain-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0    0.0001      0.12      16      41 ..      19      47 ..      10      54 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 0.0001
                   HTH_23 16 e...GlsvreIAreLgvsrrTvyrwlkry 41
                             +   +  +++IA+e++vs+++++ ++++ 
  PHY93_01030|PHY93_01030 19 KnksRVKIQQIADEYHVSKNHLSVVVNTL 47
                             24458899************998877765 PP

>> HTH_AraC  Bacterial regulatory helix-turn-helix proteins, AraC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00017      0.21       7      26 ..      22      41 ..      18      44 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00017
                             CT--HHHHHHHTTSSHHHHH CS
                 HTH_AraC  7 tnltiediAdelgfSrsyFs 26
                             ++ +i +iAde+++S +++s
  PHY93_01030|PHY93_01030 22 SRVKIQQIADEYHVSKNHLS 41
                             6789***************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (127 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       889  (0.0495845); expected 358.6 (0.02)
Passed bias filter:                      575  (0.0320709); expected 358.6 (0.02)
Passed Vit filter:                        61  (0.00340231); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.38
# Mc/sec: 1004.50
//
Query:       PHY93_01035|PHY93_01035  [L=761]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.4e-65  221.8  51.3    1.4e-65  221.8  51.3    1.9  2  COX1          Cytochrome C and Quinol oxidase polypeptide I
  ------ inclusion threshold ------
       0.42   10.3   1.5       0.72    9.5   1.5    1.2  1  PA28_beta     Proteasome activator pa28 beta subunit
          3    7.0   5.5       0.69    9.1   0.2    2.4  2  Bac_export_2  FlhB HrpN YscU SpaS Family


Domain annotation for each model (and alignments):
>> COX1  Cytochrome C and Quinol oxidase polypeptide I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.1      0.12   6.9e+02     254     281 ..     210     237 ..     132     258 .. 0.52
   2 !  221.8  51.3   2.4e-69   1.4e-65       2     432 .]     276     721 ..     275     721 .. 0.85

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 0.12
                              GGGGTTTSSS-HHHHHHHHHHHHHTHHH CS
                     COX1 254 waHHlfttglpewlkalgsvfslliavP 281
                              w+H  +   +p+  +++ s++s++i + 
  PHY93_01035|PHY93_01035 210 WPHEPIINNVPTGNNVFWSIMSVVILLA 237
                              3333333333333333333333333222 PP

  == domain 2  score: 221.8 bits;  conditional E-value: 2.4e-69
                              HHHHHHHHHHHHHHHHHHHHHHHHHHCT.......CT..-HHCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHH.CTSS-S-HH CS
                     COX1   2 igllylilalvlllvggllgllirlqla.......fp..dletynqlrtlHgnlmiflfatpfilgfgnylvplll.gardlafpr 77 
                              + ++y +++++l++++++lg +i+++++       fp  + + y+ +rt+H+++++f++at+f l++g++l+p+++ g+++++++ 
  PHY93_01035|PHY93_01035 276 ALWKYWATVVLLFVIQITLGGIIAHYTVegqdfygFPlsKYLPYSLARTWHLQVALFWIATSF-LAAGLFLAPIINgGKDPKYQRL 360
                              5689**********************96333332233556699********************.************5555566666 PP

                              HHHHHHHHHHHHHHH.HHHHHH..CS..........S-STTTTTTTC.SHHHHHHHHHHHHHHHHH.HHHHHHHHHHHHHHHTT-C CS
                     COX1  78 lnalsfwlvvlgvvl.lllsll..ga..........attgwteYaplsevdlwllglllvvvssll.gainfivtilkrrapgmtv 149
                               ++++f ++++ v++ ++  +l  ++          + +g+ eY++   +++w++ ll ++++++l  ++  iv  lk  +   t 
  PHY93_01035|PHY93_01035 361 GVNILFGALLVVVAGsMIGEYLaiHQlmkldlsfwfGIQGY-EYVD--LGRVWQILLL-AGLGIWLtLMLRCIVPALKIASD--TK 440
                              699****6666666646666655522566778888899**6.****..9******666.55777765566666666664444..22 PP

                              CGS-HHHHHHHHHHHHHHHHCHHHHHHHHHCHHHHHCT-SSSCE-HHHHHHHHHHHHTHHH.HHHHHHHHHHHHHHHHHHHT..SC CS
                     COX1 150 aklplfvwavlatailillalpvlalalllllldrslgkffspgdplldqhlfWffgHpeV.yililpalgivyyilpkfag..rp 232
                              +   l+  ++++t+++++++  +l+++  +++               ++++++W+++H++V +++++++++ +++i++k+ g  + 
  PHY93_01035|PHY93_01035 441 Q---LLFLFTASTVAIATFYGGGLFYGARTHI--------------SIMEFWRWWVVHLWVeGFFEVFTTVSLAFIFVKL-GllKS 508
                              3...333569********************99..............89********************************.889** PP

                              CCTHHHHHHHHHHHHHHCCCCGGGGTTTSSS-HHHHHHHHHHHHHTHHHHHH...CCCHHHHCC...TTS-CH.C.HHHHHHHHHH CS
                     COX1 233 lfsyklsvlafililflsflvwaHHlfttglpewlkalgsvfslliavPsgl...kvfnwlatl...wrgsir.f.ktpmlfflgf 310
                                ++k+s+l++ l+l++++++++HHl+++g+p  ++a+g+ fs+l++vP++l        + t       s++   k+p+ ff+g+
  PHY93_01035|PHY93_01035 509 RSATKASLLSTSLFLLGGIPGTFHHLYFSGTPLPVMAIGACFSALEVVPLVLigmE---AFHTYrmqSLTSWTkNyKWPITFFVGV 591
                              ****************************************************6551...444443342334444448********* PP

                              HHHH.HHHHHHHHHHTSHHHHHHHTTBHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHH.SB--HHHHHHHHHHHHHHHHHHHHH.H CS
                     COX1 311 avlf.iigGltGvllalpsvnyvvhntywvvaHfHlvllgavvfllfaaiyyllpklt.grmlserlaklhfwllfiGlvlmfl.p 393
                              ++++ +++G++G+l++ p++ +++++ ++++ H+H +++g++++l +++i+ ++   +  r++++r + ++fw l+iGl+lm+l +
  PHY93_01035|PHY93_01035 592 SFWNlVGAGIFGFLINPPIALFYMQGINTTAVHAHGATFGVYGMLSLGLILVIVQTTFkERKWNNRFMGFAFWGLNIGLALMILlS 677
                              **********************************************************999***********************9* PP

                              HHHHHHTTHBSSSST...--..SCCCCHHHCHHHHHHHHHHHHH CS
                     COX1 394 mhilGllgmprraad...yk..sfletvpelqplnvlrtiggvl 432
                              ++++Gl+   + + +   y   s+l++ + +q l ++r++g+++
  PHY93_01035|PHY93_01035 678 LLPIGLIQAQASISTglwYArgSELMQSELIQKLRWARALGDIV 721
                              *******777777755555466899999*************975 PP

>> PA28_beta  Proteasome activator pa28 beta subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   1.5   0.00012      0.72      70     123 ..      99     152 ..      86     158 .. 0.89

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00012
                PA28_beta  70 dqiskyfleraklvskllkyphvedyrealeelDekqllslrlvlldlrnlYav 123
                              + ++k f + +++ + +lk   ++dyrea +  De ++  +r+ ++ l ++Y +
  PHY93_01035|PHY93_01035  99 KYFKKSFAQTSEMEKMILKSAILKDYREARAINDEVTFSVIRYEAFMLTKNYYI 152
                              5678999*************************************9999998864 PP

>> Bac_export_2  FlhB HrpN YscU SpaS Family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   0.2   0.00012      0.69      75     185 ..     226     336 ..     182     347 .. 0.76
   2 ?   -1.3   1.3      0.16   9.5e+02      34     104 ..     365     451 ..     352     514 .. 0.64

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.00012
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
             Bac_export_2  75 lllplllvlllaallanllqvgflfstkalkpklsklnplkglkrifslrslvellksllkvvlvgavaylvlkseleellalael 160
                              +  ++ +v+llaal a +    f    ++++ +l k +pl  +k   s+++l++   +++ ++++ +++  ++ ++  e   ++ +
  PHY93_01035|PHY93_01035 226 FWSIMSVVILLAALGALIWYYAFKKEEDEIESNLPKKDPLLEFKLTPSMKALWKYWATVVLLFVIQITLGGIIAHYTVEGQDFYGF 311
                              33344555566666666666699999*************************************************99999999999 PP

                              XXXXXXXXXXXXXXXXXXXXXXXXX CS
             Bac_export_2 161 dleaalelllslllkllllvllall 185
                              +l++ l + l  +++l ++++ +  
  PHY93_01035|PHY93_01035 312 PLSKYLPYSLARTWHLQVALFWIAT 336
                              9999988888777776655554443 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 0.16
                              XXXXXXXXXXXXXXXXXXX..XXXXXXXXX..............XXXXXXXXXXXX..XXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
             Bac_export_2  34 laglllllllgpslveela..ellrevlsa..............lelllelllall..llllplllvlllaallanllqvgflfst 101
                              l+g+ll++++g+++ e la  +l++  ls+              +  ++ llla l  +l+l+l  ++ ++ +++   q  flf++
  PHY93_01035|PHY93_01035 365 LFGALLVVVAGSMIGEYLAihQLMKLDLSFwfgiqgyeyvdlgrV--WQILLLAGLgiWLTLMLRCIVPALKIASDTKQLLFLFTA 448
                              444444444444444433211344444444777777776665331..222223333114455555555556667777777777766 PP

                              XXX CS
             Bac_export_2 102 kal 104
                              +++
  PHY93_01035|PHY93_01035 449 STV 451
                              655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (761 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       792  (0.0441742); expected 358.6 (0.02)
Passed bias filter:                      356  (0.0198561); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.68u 0.26s 00:00:00.94 Elapsed: 00:00:00.42
# Mc/sec: 5405.56
//
Query:       PHY93_05800|PHY93_05800  [L=143]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (143 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1039  (0.0579508); expected 358.6 (0.02)
Passed bias filter:                      463  (0.0258241); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.19s 00:00:00.59 Elapsed: 00:00:00.35
# Mc/sec: 1234.44
//
Query:       PHY93_01040|PHY93_01040  [L=635]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.7e-24   86.2   0.0    1.7e-22   79.6   0.0    2.1  2  Pyridoxal_deC    Pyridoxal-dependent decarboxylase conserved 
     0.0062   15.9   0.0      0.011   15.1   0.0    1.3  1  Beta_elim_lyase  Beta-eliminating lyase


Domain annotation for each model (and alignments):
>> Pyridoxal_deC  Pyridoxal-dependent decarboxylase conserved domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.4   0.0    0.0014        13      39     115 ..     103     175 ..      74     184 .. 0.84
   2 !   79.6   0.0   1.9e-26   1.7e-22     145     375 .]     271     530 ..     258     530 .. 0.81

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.0014
                              STTBHCSSH....HHHHHHHHHHHHHT-BTSSTTTSHHHHHHHHHHHHHHHHHTT--GGGTCCT-EEEEESSHHHHH CS
            Pyridoxal_deC  39 spefhkllpagnslisllgdlLadainkngftweesPaltelevvvldwlaellglpeeflekegggvlqvgssest 115
                              sp+  + +    sl+s++g + +     n +++e+sP++ + e+ v +  a l+g+ ++ +++   g +++g++ ++
  PHY93_01040|PHY93_01040 103 SPRYIAHMTPDISLPSIIGYYAGLLYHSNNVSVEASPVTLKYEIEVGKEFARLFGFDDQ-NSF---GHITSGGTVAN 175
                              588888999999*******************************************9843.333...44444444443 PP

  == domain 2  score: 79.6 bits;  conditional E-value: 1.9e-26
                              CEEEEEETTS-HHHHHHHHHHT-E...EEEE--BTTTBB-HHHHHHHHHHHHCTT.EEEEEEEEBS-TTT-BB--HHHHHHHHHH. CS
            Pyridoxal_deC 145 klvlytsdqahssvekaalvlgvk...lrvipldengklrgaalekaieedkekGlipffvvatlGttvlgaFddlkelgdicek. 226
                               +v+ + + +h+s+ ka++++g++   +  +++d+n  + + +l++ +  ++++   ++ +v  lGtt  g+Fd ++e+ +i+e  
  PHY93_01040|PHY93_01040 271 APVIIAPATSHYSWSKASNLFGIGrqnILQVKVDKNLVMDVTHLNEVLNYCHKNKIPIIQIVCVLGTTEFGSFDPIHEIIPILESw 356
                              58999999***************9888999***********************9555567999********************987 PP

                              ....CT-EEEEE-TTGG...GGGGSGGGGG......GGTTGGGESEEEEECCCCTS--SS-EEEEESSCCGCHHHH-EEECC.CT. CS
            Pyridoxal_deC 227 ....ydlwlHvDAAyaG...saficpeirh......llkgieradSitvnphKlllvlldcsalivkdkealqqalqleaeY.Leh 298
                                    ++lH DAAy+G   ++f +    +      ++k    adSit+ phKl+  + ++++++ k   a ++ ++  aeY L  
  PHY93_01040|PHY93_01040 357 rakkLYCPLHLDAAYGGyfkTMFTSTVSENdeylgeVFKYTSQADSITIDPHKLGHTPYGAGVFLTKHGFA-KEFVSETAEYcLAS 441
                              7777789**********4444454444333888888899999********************999886443.33334456773555 PP

                              TTTTTSEECCCGSSSSSG.HHTHHHHHHHHHH..HHHHHHHHHHHHHHHHHHHHHHHHHT.......TTTEEECS..TTBSSEEEE CS
            Pyridoxal_deC 299 edsdvaadlgtkaiplsr.rvrilklwfvlra..lGveglqnqirksvelakyleklirk.......derfeiva..evelglVcF 372
                              ++ d  +++g++ ++ s+    +  ++f  +   l ++g+ + ++   ++   ++++i +       +++feiv   +++  l+cF
  PHY93_01040|PHY93_01040 442 QSADEPVQIGKYILEGSKsGAIATSVYFTNKLitLDYQGYGKLLKSFNDITMSFYQKILNfnlidteNKQFEIVPiiKPQSNLICF 527
                              559999************5555567999877522679999999999999999998887532222221556***9889********* PP

                              EES CS
            Pyridoxal_deC 373 rlk 375
                               lk
  PHY93_01040|PHY93_01040 528 YLK 530
                              987 PP

>> Beta_elim_lyase  Beta-eliminating lyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0   1.2e-06     0.011      74     226 ..     274     438 ..     268     470 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.2e-06
                              EEEETT-HHHHSSTTHHHHCC--EEEEE-EBTTTBE-HHHHHHHS--S-T.TS-EEEEEEEESSBTTTTTB---HHHHHHHHHH.. CS
          Beta_elim_lyase  74 vivtepahihfdetgaiaelagvklrdlknkeaGkmdlekleaaikevga.heekiklisltvTnntagGqvvsleelrevaai.. 156
                              +i+  ++h+ +  + ++  ++  +  ++k +++  md+  l+++++   +   + i+++++  T++   G   ++ e+  + +   
  PHY93_01040|PHY93_01040 274 IIAPATSHYSWSKASNLFGIGRQNILQVKVDKNLVMDVTHLNEVLNYCHKnKIPIIQIVCVLGTTEF--GSFDPIHEIIPILESwr 357
                              66777889999999999899999999999999999**9999999998555556778889999****9..************99723 PP

                              HHHCT-EEEEEETT..HHHHH.........HHHTS-CHHHHTTSSEEEEESSSTT--SS-EEEEE-HH.....HHHHHHHHH CS
          Beta_elim_lyase 157 akkygiplhlDgAR..fanaa.........kslgeivkemfsyvDsvtmslkKdllanvGgvlafrdde.ledylaerveqr 226
                              akk   plhlD+A   ++  +           lg +v +++s +Ds+t+   K ++++ G+ +++ + + ++++++e  e +
  PHY93_01040|PHY93_01040 358 AKKLYCPLHLDAAYggYFKTMftstvsendEYLG-EVFKYTSQADSITIDPHKLGHTPYGAGVFLTKHGfAKEFVSETAEYC 438
                              555568******9533455556767654423333.34446688*****************6666655541578888777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (635 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       629  (0.0350828); expected 358.6 (0.02)
Passed bias filter:                      383  (0.021362); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.60u 0.23s 00:00:00.83 Elapsed: 00:00:00.39
# Mc/sec: 4909.63
//
Query:       PHY93_01045|PHY93_01045  [L=307]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    7.4e-18   64.4   0.0    1.9e-17   63.0   0.0    1.7  1  Radical_SAM_C  Radical_SAM C-terminal domain
    1.2e-14   55.0   0.1    1.7e-14   54.5   0.1    1.2  1  Radical_SAM    Radical SAM superfamily
  ------ inclusion threshold ------
       0.09   13.0   0.0       0.18   12.1   0.0    1.5  1  zf-4CXXC_R1    Zinc-finger domain of monoamine-oxidase A repr


Domain annotation for each model (and alignments):
>> Radical_SAM_C  Radical_SAM C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.0   0.0   3.2e-21   1.9e-17       1      74 [.     215     288 ..     215     298 .. 0.93

  Alignments for each domain:
  == domain 1  score: 63.0 bits;  conditional E-value: 3.2e-21
            Radical_SAM_C   1 pdgvKlypllvikgTeLaelyksgeykplsleeyvdlvadilellppdirvhRltgdipkelliagpwhknlre 74 
                              +d +K+++l+++k++ + ++y ++++++ls+ e +++va++l +l+p+i ++R+ gd +kell+a  w++   e
  PHY93_01045|PHY93_01045 215 IDYLKIHQLQIVKHSIMGNEYLNNPFQLLSKSEFLEIVAQFLIHLSPQIIIQRVAGDCSKELLLAAGWSESSNE 288
                              799*****************************************************************955544 PP

>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.5   0.1   2.8e-18   1.7e-14       9     164 ..      46     207 ..      34     210 .. 0.90

  Alignments for each domain:
  == domain 1  score: 54.5 bits;  conditional E-value: 2.8e-18
                              S--TTTSCCTTHHHHHHHHHHHHHHHHHHHHHHH.HHTT.SEEEEEESSTGGGSTTHHHHHHHHHHTCCCTEEEEEEECSSCHG.. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.. RF
              Radical_SAM   9 lrCsfCarpetvrregrgrslsveeileevkelk.aekg.vkevilgggepllypdfvellerlaklavpgiritvetngtlpd.. 90 
                              ++C++C++++     ++  +  +++i  +v+++k  +k+ +k+++ +    + y++++ l e + +   +   +   t gt+pd  
  PHY93_01045|PHY93_01045  46 GGCTYCNNNKFNPGSDKLGVTVTQQINTQVQRIKkRYKNaKKFIVYFQAYSNTYAPLQHLKELYLEA-LAYPDVIGLTIGTRPDci 130
                              35********9999999999999999999999998777789**************999999988888.599*************** PP

                              ....HHHHHHHHHTT-SEEEEEEBSSSHHHHHHHHTCTSHHHHHHHHHHHHHHTTSETEEEEEEEBTTTSHHHHHHHH CS
                              ....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM  91 ....eeklerllelgvdrvslgleaaddekvlklmnrghtfeevlealeklreagikrvvdrivglpGendeeleell 164
                                    +l +l++    +++ gle+ +de +l ++nrgh+++ +++a+ + +++gi  +++ ++g+p e+++++ +++
  PHY93_01045|PHY93_01045 131 teetLVFLSELAKQYYITIEYGLESMSDE-TLMRINRGHDYQCFKNAVNMTKNRGIYICTHLMIGFPWETKQDYIQTA 207
                              *77777888888888**************.******************************************998775 PP

>> zf-4CXXC_R1  Zinc-finger domain of monoamine-oxidase A repressor R1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0     3e-05      0.18      39      88 ..      16      76 ..       5      89 .. 0.73

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 3e-05
              zf-4CXXC_R1 39 ClknRygeeveevaakkeWvCPkCrg........iCncslcrk...kkglaptgqlikkak 88
                              + nR+ge++++++ +  ++CP+  g         Cn  +      k g++ t+q+ ++++
  PHY93_01045|PHY93_01045 16 YILNRFGERIQKITIDAGFTCPNRDGkiayggctYCNNNKFNPgsdKLGVTVTQQINTQVQ 76
                             5789*******************99888866655555543332444777777887777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (307 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       927  (0.0517039); expected 358.6 (0.02)
Passed bias filter:                      566  (0.031569); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.36
# Mc/sec: 2541.04
//
Query:       PHY93_01050|PHY93_01050  [L=820]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.1e-09   36.5   0.3      7e-07   28.2   0.2    3.2  1  Ribonuc_red_lgC  Ribonucleotide reductase, barrel domain


Domain annotation for each model (and alignments):
>> Ribonuc_red_lgC  Ribonucleotide reductase, barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.2   0.2   3.9e-11     7e-07      66     302 ..     346     560 ..     266     572 .. 0.74

  Alignments for each domain:
  == domain 1  score: 28.2 bits;  conditional E-value: 3.9e-11
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX..XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX......... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC  66 vadvvkqgGkRrGAamvylevwHpDiekfidaKekntgeeenrlsnlnisvgvpdlFmeavkedkdwtLfsPrtvvkleklygeef 151
                               a++v  gG+Rr+A m++       i++fi++K +  g     l + n+sv+v  +F++ v++ +  t ++ +     +k++    
  PHY93_01050|PHY93_01050 346 LAECVLVGGARRAARMATKTWRDSTIFEFINLK-R--G---GFLWSSNNSVTVDAEFWNYVRNPEIKTRIAKH----ARKVFNAIT 421
                              245677899************************.5..3...79*******************98877777766....567888889 PP

                              ..................XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX..XXXXXXXXXXXXXXXXXXXXXXX...XXXX CS
                              xxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC 152 eeeyeeleekakik..kkevkakeLfeeiaesawetgePgvlfkDtiNrrnvle..kakggkIratNlCgEiplleyesvavCnLa 233
                              e +y++   ++ i    k  + ++ f   +  +++  + + l  +t    ++l   +++++  + tN+CgEi+l+       C +a
  PHY93_01050|PHY93_01050 422 EAAYHDGTGEPGIInqDKLTQNETGFTGYLDGQFAESKKFKLDPETLELTKNLAliAKDMQYQQITNPCGEITLNLLGG--YCVIA 505
                              9*********88773344567888899***************99999887777511345777789**********9998..99999 PP

                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC 234 sinLakfvkkdeegkkefdwdelkkviqlvvraLdnvidvnkyplpeiekntkktRriGlGvmgladal 302
                               ++ +++           + d+  ++  ++++aL  v  ++ +     +k+  +t riG+G++g++++ 
  PHY93_01050|PHY93_01050 506 DVVPYHAQ----------NDDDACEAFATATKALMRVNLMDSM----YKKEVLRTNRIGVGITGFHEWA 560
                              99877776..........3344555666666666666555444....5667789999********9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (820 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       715  (0.0398795); expected 358.6 (0.02)
Passed bias filter:                      573  (0.0319594); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.70u 0.28s 00:00:00.98 Elapsed: 00:00:00.43
# Mc/sec: 5688.96
//
Query:       PHY93_01055|PHY93_01055  [L=445]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.5e-14   54.7   0.0    2.8e-14   53.8   0.0    1.4  1  Radical_SAM  Radical SAM superfamily
     0.0039   17.2   0.1      0.026   14.6   0.0    2.2  2  HemN_C       HemN C-terminal domain


Domain annotation for each model (and alignments):
>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.8   0.0   3.1e-18   2.8e-14       2     165 ..      54     223 ..      53     225 .. 0.89

  Alignments for each domain:
  == domain 1  score: 53.8 bits;  conditional E-value: 3.1e-18
                              EEESEESS--TTTSCCTT......HHHHHHHHHHHHHHHHHHHHHHHHHTTSEEEEEESSTGGGSTTHHHHHHHHHHTCCCTEEEE CS
                              xxxxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM   2 vvtrgCnlrCsfCarpet......vrregrgrslsveeileevkelkaekgvkevilgggepllypdfvellerlaklavpgirit 81 
                              v++++C   C +C +++t      v++ + ++ l   ei +e   +   k ++ +++ggg+p++ +++  + + +  l+ ++ + +
  PHY93_01055|PHY93_01055  54 VHVPFCESLCYYCGCNRTitknhdVEDFYLAALLKEWEIYKEKLGF-TLK-INSLHFGGGTPTFLSPKNLEKLIMTLLQ-NKSKSF 136
                              789***************7777777777777777777777777777.455.99************88877777777775.899999 PP

                              EEECSSCHG...HHHHHHHHHTT-SEEEEEEBSSSHHHHHHHHTCTSHHHHHHHHHHHHHHTTSET.EEEEEEEBTTTSHHHHHHH CS
                              xxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxx RF
              Radical_SAM  82 vetngtlpd...eeklerllelgvdrvslgleaaddekvlklmnrghtfeevlealeklreagikr.vvdrivglpGendeeleel 163
                              + + ++ p+   + +le l +  + rvslg++ +d++ v+k +nr +++  v  ++eklr +++ + ++d i+glp ++ + + ++
  PHY93_01055|PHY93_01055 137 IGSIEIDPRtcnDGHLEVLSRCDIKRVSLGIQDFDPD-VQKAINRDQSPTMVELLVEKLRLNDFTSiNFDLIYGLPKQSLDSISKT 221
                              999999999999*************************.****************************************99999888 PP

                              HH CS
                              xx RF
              Radical_SAM 164 le 165
                              +e
  PHY93_01055|PHY93_01055 222 IE 223
                              76 PP

>> HemN_C  HemN C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.0      0.23   2.1e+03       7      19 ..     186     198 ..     185     203 .. 0.87
   2 !   14.6   0.0   2.9e-06     0.026       9      62 ..     367     417 ..     360     419 .. 0.90

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.23
                   HemN_C   7 leEeiilgLRlre 19 
                              + E++++ LRl++
  PHY93_01055|PHY93_01055 186 MVELLVEKLRLND 198
                              7899******986 PP

  == domain 2  score: 14.6 bits;  conditional E-value: 2.9e-06
                   HemN_C   9 EeiilgLRlreGldlaafeqrfgldleellaaaleklqeqGLLeldggrlrltp 62 
                                iil ++++ ++ ++    + gl+++e+ +++l+ + ++G +e++++ +r tp
  PHY93_01055|PHY93_01055 367 QKIILEMMCHHEIAISN---KEGLPYWEEIEKELKGFLNDGIIEMENNQIRITP 417
                              5799*********9999...789******************************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (445 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       472  (0.0263261); expected 358.6 (0.02)
Passed bias filter:                      367  (0.0204696); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.20s 00:00:00.76 Elapsed: 00:00:00.39
# Mc/sec: 3424.02
//
Query:       PHY93_01060|PHY93_01060  [L=156]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.6e-25   88.8   0.0    2.9e-25   88.6   0.0    1.0  1  PTPS      6-pyruvoyl tetrahydropterin synthase


Domain annotation for each model (and alignments):
>> PTPS  6-pyruvoyl tetrahydropterin synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.6   0.0   1.6e-29   2.9e-25       4     119 ..      10     143 ..       7     147 .. 0.91

  Alignments for each domain:
  == domain 1  score: 88.6 bits;  conditional E-value: 1.6e-29
                              EEEEEEEEE--TTTTGGGGSTEEEEEEEEEEEEEC-.STCTTBSS-HHHHHHHHHH.HHHCTTTEEC.CCC-CCHHCCS....... CS
                     PTPS   4 kefeFdaaHrlrkhegkcrnlHGHnykvevtvegee.ldetgmvvdfgelkealke.ileelDhkfl.naddpeleell....... 79 
                              ++++F+++Hr+++he+kc++lHGHn  + v+v+    ld  g v+df+ +k+++   ++ ++Dh+++    +++l+++        
  PHY93_01060|PHY93_01060  10 RKIHFCYGHRVMNHESKCASLHGHNGIIWVHVTPIIdLDSLGRVIDFSVVKSVIGGwVDVNWDHTMIiC--KEDLKTIDllsvaps 93 
                              789****************************9998559999***************9**********53..45555544558**** PP

                              ..........--HHHHHHHHHHHHHHHH.GCCCGCEEEEEEEEETTEEEE CS
                     PTPS  80 .........spTaEnlaklifeelkerl.qekevklskvrvwEtpnswae 119
                                       +pTaEnla++++  + ++l ++k+v ++k+ +wEt+n+++e
  PHY93_01060|PHY93_01060  94 fkpifildkNPTAENLASYLLWSVCPKLlKGKGVIVHKIVFWETENCYVE 143
                              *******************9999999998*******************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (156 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       355  (0.0198003); expected 358.6 (0.02)
Passed bias filter:                      306  (0.0170673); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.23s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 1192.18
//
Query:       PHY93_01065|PHY93_01065  [L=167]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.8e-08   33.4   0.0    6.1e-08   32.7   0.0    1.4  1  Macro     Macro domain


Domain annotation for each model (and alignments):
>> Macro  Macro domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.7   0.0   3.4e-12   6.1e-08      13     117 ..      30     134 ..      19     135 .. 0.69

  Alignments for each domain:
  == domain 1  score: 32.7 bits;  conditional E-value: 3.4e-12
                              HHHHHHHHHHHHHHHHHHHHHHHHHHS--TTSEEEEE-TTSSSSEEEEEESE-TTTS...TSTTHHHHHHHHHHHHHHHHHHTT-S CS
                    Macro  13 gvagaihraagkalkeeckelekkqggcllGeavvtpaynlpakyvihtvgplftss...kskeeeellakayknalelaeekgik 95 
                              g a++++++ +  +k+  + +++ ++  + G++   ++   p+ + + t   + +++     k + ++l +a kn+l++   ++i 
  PHY93_01065|PHY93_01065  30 GLAAQLKEQWPALYKDFRHFCKT-ES-PKEGDVWAWKGPGTPVIFSLFT-QAQASHEgghPPKATFQNLNHAFKNLLKDLTAQKIS 112
                              66666666666555555555533.33.3566666666666662222222.22222224456677889******************* PP

                              EEEEE-TTSSTTSBTHHHHHHH CS
                    Macro  96 svafPaistGifgvpweeaarv 117
                              s+a+ +istG++g++w+e+  v
  PHY93_01065|PHY93_01065 113 SIAVTKISTGVGGLDWNEVKTV 134
                              ******************9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (167 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       662  (0.0369234); expected 358.6 (0.02)
Passed bias filter:                      604  (0.0336884); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.37
# Mc/sec: 1343.38
//
Query:       PHY93_01070|PHY93_01070  [L=103]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-13   51.8   0.0    1.2e-13   51.6   0.0    1.0  1  Ribosomal_S30AE  Sigma 54 modulation protein / S30EA ribosoma


Domain annotation for each model (and alignments):
>> Ribosomal_S30AE  Sigma 54 modulation protein / S30EA ribosomal protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.6   0.0   6.9e-18   1.2e-13       4      85 ..       6      92 ..       3      93 .. 0.91

  Alignments for each domain:
  == domain 1  score: 51.6 bits;  conditional E-value: 6.9e-18
                             EECTS---HHHHHHHHHHHCCGGGG......-EEEEEEE..EEEEEEEEEEECTTEEEEEEEEESSHHHHHHHHHHHHHHHHHHCHHT CS
          Ribosomal_S30AE  4 tgrnievtdalkeyvekkleklekyf.....ieadVtls..kkkkvevtirlakgkviraeeesedlyaaidlavdklerqlrkykek 84
                             ++ ++e+t+al e +++  +k++k+f     i+  ++++  + + +ev+  la++   +a+ +s+++y++id a++k+e+q  k+k+k
  PHY93_01070|PHY93_01070  6 SFLHFEHTPALDEKITEASSKMSKFFndngiIKWYCYVKngE-HCAEVNY-LASHCEYHATGSSDNMYESIDMALNKIEKQASKQKDK 91
                             677**********************77778899999999541.78*****.999999******************************9 PP

                             T CS
          Ribosomal_S30AE 85 l 85
                              
  PHY93_01070|PHY93_01070 92 F 92
                             6 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (103 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1335  (0.0744604); expected 358.6 (0.02)
Passed bias filter:                      622  (0.0346924); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.22s 00:00:00.61 Elapsed: 00:00:00.36
# Mc/sec: 847.68
//
Query:       PHY93_01075|PHY93_01075  [L=312]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      6e-16   59.0   0.0      7e-16   58.8   0.0    1.1  1  TauD      Taurine catabolism dioxygenase TauD, TfdA family
  ------ inclusion threshold ------
      0.068   12.3   0.0        0.2   10.7   0.0    1.9  1  CsiD      CsiD


Domain annotation for each model (and alignments):
>> TauD  Taurine catabolism dioxygenase TauD, TfdA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.8   0.0   7.8e-20     7e-16       5     256 ..      31     282 ..      27     310 .. 0.77

  Alignments for each domain:
  == domain 1  score: 58.8 bits;  conditional E-value: 7.8e-20
                     TauD   5 ltpkfgae......gvdlsdleslddelkeelrellaeygvvvfrgf.plspeqqlefarrfGplygtpgrgtntkygevld.... 79 
                              +t k+g+        ++ s+l+sl +e +   re+ +++++v+++ + +l+  + +++ + + +l g+   ++++ ++ v++    
  PHY93_01075|PHY93_01075  31 ITAKIGKHdfidqvIFETSTLSSLKKEIVNIQREVDQGQKFVIVKPIeGLNFYEIEALQWIISKLLGETIVQNEEGRHLVHIfdrd 116
                              55555555555545667777777777777777777799999999997456999999999999888888888889999999987776 PP

                     TauD  80 .vssvyesadianlayttllwHtDlsylesppgiqlLhcleapatGGetpfvDgraaynaLpeelpellegltavrvyyhyrgggl 164
                                   +++a  ++++ t++  HtD+   ++  +++l  c+ ++  GGe+++v+g+a+y+ L+e  p++le l++  +++ ++    
  PHY93_01075|PHY93_01075 117 pLRRIKDGARYHQTHETGA-IHTDNVNIPENYQYLLVGCVAPAMIGGENIIVNGQAVYEYLQENAPRELEILMEKFTWEYRGI--- 198
                              6555555666666444444.6*****888888888889999999**********************************98888... PP

                     TauD 165 rteqelpavdkhprtghpvvrthpvltgrkallvnppfatrieglgt.....peskelldaleelledpeftyrfqwqeGdlvifd 245
                                        ++  ++ p++  +   +g++++++ + ++ +  +l +     + + ++ldal++ l+  +f++  +++eG+++i +
  PHY93_01075|PHY93_01075 199 ----------SRELYEAPIITIDV--SGEAQFRHLRTYMESA-HLRSnrpltEGQVRALDALDATLNMSRFQLIYRLREGEILIAN 271
                              ..........99999*********..5555555443344444.2222233338999****************************** PP

                     TauD 246 NrrvlHgrtaf 256
                                 +lH r+ f
  PHY93_01075|PHY93_01075 272 DSKILHDRKCF 282
                              ********988 PP

>> CsiD  CsiD
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   2.3e-05       0.2     231     281 ..     235     285 ..     122     290 .. 0.74

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 2.3e-05
                              --SHHHHHHHHHHHHHHHT-TT-EEE---TT-EEEEETTTEEEEE--B--- CS
                     CsiD 231 PknleeglyLkelseslenskkklevkvpvGslllinnlfwlhGrdkfeen 281
                              P +  +   L  l ++l+ s+ +l  ++  G++l++n+   lh r+ f ++
  PHY93_01075|PHY93_01075 235 PLTEGQVRALDALDATLNMSRFQLIYRLREGEILIANDSKILHDRKCFVDS 285
                              444555667999***********************************9875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (312 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       655  (0.036533); expected 358.6 (0.02)
Passed bias filter:                      494  (0.0275531); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.39
# Mc/sec: 2394.77
//
Query:       PHY93_01080|PHY93_01080  [L=406]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.8e-59  199.6   0.0    5.4e-59  199.1   0.0    1.3  1  ThiI      Thiamine biosynthesis protein (ThiI)
    2.3e-11   44.0   0.9    4.5e-11   43.0   0.9    1.5  1  THUMP     THUMP domain
     0.0053   16.3   0.0       0.43   10.0   0.0    2.5  2  QueC      Queuosine biosynthesis protein QueC


Domain annotation for each model (and alignments):
>> ThiI  Thiamine biosynthesis protein (ThiI)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  199.1   0.0   9.1e-63   5.4e-59       1     186 [.     180     365 ..     180     376 .. 0.97

  Alignments for each domain:
  == domain 1  score: 199.1 bits;  conditional E-value: 9.1e-63
                     ThiI   1 gtqgkvlaLlSgGiDSpVaaylllkRGcrvvlvhlknepgtseeaiekveklaellaeyqtslevklvvvdfkevlkeilekvkek 86 
                              g+ g ++++lSgG+DSpVa+y+++kRG++  +v++  +p+ + e+ ek+++l ++la+yq   + +l++v+f +v++ i ++ ke+
  PHY93_01080|PHY93_01080 180 GSTGSAVTMLSGGFDSPVASYMMMKRGIKQSFVFFYAYPFVGTEVLEKIKNLSSVLAKYQR--QSHLYIVPFGNVQNLIAKNCKEE 263
                              6899********************************************************7..99********************* PP

                     ThiI  87 ltivllkrkmlriAekvaeeegakalvtGesLgqVaSqtleNlrvisavvnllilrPLigldKeeiiklAkeigtyeisieke.dk 171
                              +++++++r m+ i +++ ++ ga+al+tG+s+gqV+Sqt+ Nl +i++ +  li+rPLig++K+ei++l   igty+isi ++ d 
  PHY93_01080|PHY93_01080 264 YRTMFFRRFMVEITNMLCDRIGADALITGDSVGQVSSQTVGNLFLIDQSSRRLIMRPLIGFNKQEIMNLGEVIGTYDISILPHdDA 349
                              ***********************************************************************************9** PP

                     ThiI 172 Csvla.khPttkakle 186
                              Cs++a k+P +k++ +
  PHY93_01080|PHY93_01080 350 CSLFAsKNPIIKPNHD 365
                              *****9****999865 PP

>> THUMP  THUMP domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.0   0.9   7.5e-15   4.5e-11      28     141 ..      55     167 ..      40     170 .. 0.86

  Alignments for each domain:
  == domain 1  score: 43.0 bits;  conditional E-value: 7.5e-15
                              CTEEEEEETHHHHHHHHHTSTTECEEEEE...EEEEESSHHHHHHHHHHHHHHHHHHCT-EEEEEEEESSSTSSSHHHHHHHHHHH CS
                    THUMP  28 lkgekpeedeellkealekargiqrvipv...cevceadledileaakeivkkkfeeeketFaVrvkrrgkhfeftsreinrevGk 110
                              + ++      e+l +a+ k++g+ +++p     ++   ++e i+e + + v+  f+ e++tF+ +v++ +k++++ts ei++e+G 
  PHY93_01080|PHY93_01080  55 SETP----FSEELIQAILKVPGLASISPCriiKRNSDQNFENIYEEILKEVSF-FKTESKTFRATVRKNDKTISMTSPEIAKEIGH 135
                              4444....6788999**************777777788888999999998884.455566************************** PP

                              HHHCCTT.-EE-SSS-SEEEEEEEETTEEEEE CS
                    THUMP 111 aivektg.lkVdlenPdivvrveiikdkayis 141
                              +i  ++  ++Vd   P++vv v i++  + is
  PHY93_01080|PHY93_01080 136 RILIAYPlARVDIRTPEVVVDVRILETVVSIS 167
                              *************************9988887 PP

>> QueC  Queuosine biosynthesis protein QueC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.0   0.0   7.2e-05      0.43       2      29 ..     185     212 ..     184     246 .. 0.84
   2 !    3.9   0.0    0.0056        34     153     174 ..     316     337 ..     272     357 .. 0.86

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 7.2e-05
                              EEEE--SSHHHHHHHHHHHHH-SEEEEE CS
                     QueC   2 avvllSGGlDSttvlalakkegkeveal 29 
                              av++lSGG DS ++ ++++k+g +   +
  PHY93_01080|PHY93_01080 185 AVTMLSGGFDSPVASYMMMKRGIKQSFV 212
                              89*****************998765554 PP

  == domain 2  score: 3.9 bits;  conditional E-value: 0.0056
                              EEE-TTTT--HHHHHHHHHHTT CS
                     QueC 153 eieaPlidlsKaeivklgkelg 174
                               i+ Pli ++K+ei++lg+ +g
  PHY93_01080|PHY93_01080 316 LIMRPLIGFNKQEIMNLGEVIG 337
                              5899**************9888 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (406 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       715  (0.0398795); expected 358.6 (0.02)
Passed bias filter:                      574  (0.0320152); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.56u 0.21s 00:00:00.77 Elapsed: 00:00:00.39
# Mc/sec: 3154.03
//
Query:       PHY93_01085|PHY93_01085  [L=378]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      5e-56  190.2   0.0    5.8e-56  190.0   0.0    1.0  1  Aminotran_5      Aminotransferase class-V
    4.8e-07   29.3   0.0    2.3e-06   27.0   0.1    1.8  2  Aminotran_1_2    Aminotransferase class I and II
  ------ inclusion threshold ------
       0.01   15.4   0.3      0.079   12.6   0.2    2.1  2  SSXT             SSXT protein (N-terminal region)
      0.067   11.7   0.1      0.086   11.4   0.1    1.1  1  Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
       0.13   11.9   0.3       0.37   10.4   0.3    1.8  1  EF-hand_1        EF hand
        0.3   11.1   1.1        0.6   10.2   0.1    2.0  2  EF-hand_6        EF-hand domain


Domain annotation for each model (and alignments):
>> Aminotran_5  Aminotransferase class-V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  190.0   0.0   1.9e-59   5.8e-56       2     370 ..       5     362 ..       4     363 .. 0.96

  Alignments for each domain:
  == domain 1  score: 190.0 bits;  conditional E-value: 1.9e-59
                              EEBTTTS----HHHHHHHHHHHHCTCCSSSSSSSHHHHHHHHHHHHHHHHHHHHHT-STGGGEEEESSHHHHHHHHHHHCCCC-TT CS
              Aminotran_5   2 yldsaAttqkpqeVldalqeyytdynanvhrsvhhlgkeatkaveearekvaelinaeseeeiiftsGtteainlvalslarslkp 87 
                              y+d aA+t + +eVld l++ +++  an+ +s+h +g+++ k++e ar+ +  +++a++++  ifts++te++n+v+++l   lk+
  PHY93_01085|PHY93_01085   5 YFDHAASTFIYPEVLDLLSKSFKEDFANP-NSQHLFGANLLKKIEVARSYFLMILKASKDDSFIFTSSATESNNTVVRGL--DLKE 87 
                              9****************************.99************************************************..6*** PP

                              TSEEEEETTSHGGGTHHHHHHHHHHTEEEEEEEBETTSCBEGGGHHHH--TTEEEEEEESBETTTTEB--HHHHHHHHHHT.T-EE CS
              Aminotran_5  88 gdeivvteaehhanlvpwqelakrtgakvkvipldeegeldldelekllnektklvaithvsnvtGtiqpveeigklakkk.galv 172
                              gd i++++a+h + + p+++la ++++k+k i l+++g++d +e++kll+e++klv +thv+n +G+i++++ + kl+k++ +a +
  PHY93_01085|PHY93_01085  88 GDVILYSKADHPSLVGPIEKLAVDKKLKLKLIHLNKNGLIDNEEFKKLLDENVKLVVLTHVNNQSGVIHDIHFLSKLVKENtKAHL 173
                              ********************************************************************************66**** PP

                              EEE-TTTTTTS---HHHHTESEEEEETTTTTSSTT-EEEEEEHHHHHTS..SS.STTSEEEEETTEEEEHCTTGGGS.SS--HHHH CS
              Aminotran_5 173 lvDaaqavghipidvkklgvDflafsghKllgPtGiGvlyvrkellekleplllggemveevsleettfaeapskfeaGTpnvagi 258
                              ++Da+q++ +i+++v ++ +D +++++hK+ gP+Gi  ly +k   +k++plllgg+       +e +       f++ T   + i
  PHY93_01085|PHY93_01085 174 HIDAVQSFTKIKFEVFDT-IDSASITSHKVGGPKGIAGLYLKK--NHKVKPLLLGGG-------QEGG-------FRSSTQAYPLI 242
                              ***************995.999*********************..89999*******.......8988.......9999******* PP

                              HHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCTS.TTEEEES.-B-CTCBSEEEEEETTCSHHHHHHHHHHTTEEEEEE-TTT. CS
              Aminotran_5 259 iglgaaleyleeigleaiekhekelaeyllerlksl.pgvrlygpdkaerrasivsfnfkgvhaedvatlLdeegIavrsGhhca. 342
                              i++++a ++    + e + ++  +++e +++ l +l p+v++     ++ ++ i++f ++g+ ++ v + Ld +g +++s ++c+ 
  PHY93_01085|PHY93_01085 243 IAFAEASKIS-FNKCEDSLSKISQMREGVENSLTALePKVKF---PFENSSPYICTFILPGIPSDIVLRHLDARGFCLSSTSACSs 324
                              ******9988.6678889999999**********97357788...4789************************************9 PP

                              .....HHHHHHTT.S.....-EEEEE--TTS-HHHHHH CS
              Aminotran_5 343 .....qplmkrlale.....gtvRaSlyiynteeevdr 370
                                   +p ++ l+++     +++R+S+ + ++ + v+ 
  PHY93_01085|PHY93_01085 325 kqkgfNPTFAALNISeifhkNVLRLSFSHDTSVDSVNL 362
                              9999999999999999***9*********999999876 PP

>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.0   0.1   7.7e-10   2.3e-06      63     187 ..      58     176 ..      22     180 .. 0.84
   2 ?   -0.6   0.0      0.19   5.6e+02     250     296 ..     232     282 ..     228     307 .. 0.77

  Alignments for each domain:
  == domain 1  score: 27.0 bits;  conditional E-value: 7.7e-10
                              CHTTGGEGEEEESHHHHHHHHHHHHHHHTTT-EEEEEESS-TH....HHHHHHHTTSEEEEEEBEETTTTEE-HHHHHHHHTTHHC CS
            Aminotran_1_2  63 lklkreaavvvgsGagaliealifllklnpgdeilvpdptyas....yknilrlsggevvryplyseedfhldlealeealkeape 144
                              lk  ++++ +++s a++ ++++ + l+l  gd+il ++  ++s    +++ +   ++++  ++l+  ++  +d e+++++l+e   
  PHY93_01085|PHY93_01085  58 LKASKDDSFIFTSSATESNNTVVRGLDLKEGDVILYSKADHPSlvgpIEKLAVDKKLKLKLIHLN--KNGLIDNEEFKKLLDE--- 138
                              5566777999*******************************983333467777889999999988..****************... PP

                              TTETEEEEEEESS-TTT--B--HHHHHHHHHHHHHT.TEEEEEE CS
            Aminotran_1_2 145 gnkktkvilvesphNPtGtvatleeleklldlakky.nlllfvD 187
                                  +k+++++ ++N +G++ +   l kl   +k++ +++l +D
  PHY93_01085|PHY93_01085 139 ---NVKLVVLTHVNNQSGVIHDIHFLSKL---VKENtKAHLHID 176
                              ...88************************...555559999888 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.19
                              HTSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS....T CS
            Aminotran_1_2 250 flsssllqaavaaalsdallkqseleemrqrlqkrrkelrdeLael....g 296
                              f ss+++ +++ a +++++   ++ e++ +++ ++r+ + ++L++l     
  PHY93_01085|PHY93_01085 232 FRSSTQAYPLIIAFAEASKISFNKCEDSLSKISQMREGVENSLTALepkvK 282
                              55688888888888888887777999999********99999999876543 PP

>> SSXT  SSXT protein (N-terminal region)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.2   2.6e-05     0.079       6      45 ..     129     168 ..     125     169 .. 0.86
   2 ?   -0.1   0.0      0.24   7.2e+02      39      55 ..     339     355 ..     325     361 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 2.6e-05
                     SSXT   6 teqIqklLDENsqLIqtIielqnkGraeecdqyqqiLhrN 45 
                              +e+ +klLDEN +L++    +++ G +++++   ++ ++N
  PHY93_01085|PHY93_01085 129 NEEFKKLLDENVKLVVLTHVNNQSGVIHDIHFLSKLVKEN 168
                              67789************9999999*999998877777666 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.24
                     SSXT  39 qqiLhrNLvyLAtiADe 55 
                               +i+h+N + L+   D+
  PHY93_01085|PHY93_01085 339 SEIFHKNVLRLSFSHDT 355
                              6899****999866665 PP

>> Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1   2.9e-05     0.086     117     175 ..     119     178 ..      58     220 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 2.9e-05
                              CEEEEESTTSHHHHHHHCCTTEEEEEEESS-TTTT----HHHHHHHHHHTT.-EEEEEGT CS
          Cys_Met_Meta_PP 117 ievkfvdtsdleelekaikentklvylEtptnpllkvvDiekiaklakkag.vlvvvDnt 175
                              i+ +     d ee++k ++en+klv l  + n    ++Di+ ++kl+k++  + + +D++
  PHY93_01085|PHY93_01085 119 IHLNKNGLIDNEEFKKLLDENVKLVVLTHVNNQSGVIHDIHFLSKLVKENTkAHLHIDAV 178
                              333333346899*************************************98799999975 PP

>> EF-hand_1  EF hand
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.3   0.00012      0.37      12      26 ..     122     136 ..     121     138 .. 0.91

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00012
                              TSSSEEEHHHHHHHH CS
                EF-hand_1  12 DgdGkIdfeEfkell 26 
                              +++G Id eEfk+ll
  PHY93_01085|PHY93_01085 122 NKNGLIDNEEFKKLL 136
                              9***********997 PP

>> EF-hand_6  EF-hand domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.1    0.0002       0.6       7      27 ..     117     137 ..     115     143 .. 0.89
   2 ?   -3.2   0.1         4   1.2e+04       4      10 ..     187     193 ..     185     194 .. 0.59

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.0002
                EF-hand_6   7 klfDkdgdGkidaeElrkalr 27 
                              kl+  +++G id eE++k+l 
  PHY93_01085|PHY93_01085 117 KLIHLNKNGLIDNEEFKKLLD 137
                              67789*************996 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 4
                EF-hand_6   4 eaFklfD 10 
                              e+F+ +D
  PHY93_01085|PHY93_01085 187 EVFDTID 193
                              5666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (378 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       503  (0.0280551); expected 358.6 (0.02)
Passed bias filter:                      378  (0.0210832); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.50u 0.21s 00:00:00.71 Elapsed: 00:00:00.37
# Mc/sec: 3035.42
//
Query:       PHY93_05805|PHY93_05805  [L=55]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (55 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       138  (0.00769703); expected 358.6 (0.02)
Passed bias filter:                      120  (0.00669307); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.36u 0.20s 00:00:00.56 Elapsed: 00:00:00.38
# Mc/sec: 436.94
//
Query:       PHY93_01090|PHY93_01090  [L=97]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.017   15.2   0.1      0.048   13.7   0.1    1.8  1  HTH_3     Helix-turn-helix
        0.1   12.9   0.0       0.12   12.7   0.0    1.2  1  HTH_31    Helix-turn-helix domain


Domain annotation for each model (and alignments):
>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.1   5.4e-06     0.048       4      55 .]      14      68 ..      11      68 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 5.4e-06
                             HHH..HTTHHHHHHHHHHT.SSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHHHH CS
                    HTH_3  4 lRk..qlglsqeeLAeklG.vsrstisriEnGernPsletlkklakaLgvsldel 55
                             +R    + +sq+eLA +lG  s   i++iE       l+ + kl++ L++++d++
  PHY93_01090|PHY93_01090 14 KRTghHKSYSQAELALLLGlKSDYLIANIEEAGCGVPLKSMSKLSEILDIDPDDF 68
                             566667889**********999999*******999****************9986 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   1.4e-05      0.12      14      62 ..      21      69 ..       7      71 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 1.4e-05
                   HTH_31 14 GLsqeevAerlgv.sestlsrlEqGrrgrpspavlealaralgldpaera 62
                               sq+e+A +lg+ s   +  +E + +g +++    +l ++l+ dp++  
  PHY93_01090|PHY93_01090 21 SYSQAELALLLGLkSDYLIANIEEAGCG-VPLKSMSKLSEILDIDPDDFK 69
                             689*********8466668********9.88**************99865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (97 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       576  (0.0321267); expected 358.6 (0.02)
Passed bias filter:                      437  (0.0243739); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.39u 0.25s 00:00:00.64 Elapsed: 00:00:00.41
# Mc/sec: 713.89
//
Query:       PHY93_01095|PHY93_01095  [L=527]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.2e-39  134.6   0.4    8.8e-20   71.6   0.0    3.3  3  ABC_tran      ABC transporter
    1.7e-09   37.9  25.3    0.00036   20.4   2.0    4.8  5  AAA_21        AAA domain, putative AbiEii toxin, Type IV TA s
    4.7e-06   26.5   7.0    4.9e-06   26.5   1.8    2.7  3  ABC_tran_Xtn  ABC transporter
    1.4e-05   24.7   8.2       0.13   11.7   0.0    4.1  4  SMC_N         RecF/RecN/SMC N terminal domain
    0.00013   21.9   1.1      0.023   14.6   0.4    2.7  2  RsgA_GTPase   RsgA GTPase
    0.00013   21.6   0.8       0.61    9.9   0.1    2.4  2  AAA_29        P-loop containing region of AAA domain
    0.00048   20.2   0.0       0.48   10.5   0.0    2.6  2  MMR_HSR1      50S ribosome-binding GTPase
    0.00052   19.3   0.7      0.044   13.0   0.0    2.8  3  NB-ARC        NB-ARC domain
     0.0009   18.6   0.0     0.0086   15.4   0.0    2.3  2  KAP_NTPase    KAP family P-loop domain
     0.0015   19.1   0.0       0.99   10.0   0.0    3.1  3  AAA_18        AAA domain
     0.0015   18.4   0.5       0.22   11.4   0.0    2.8  2  NACHT         NACHT domain
     0.0022   18.2   0.1       0.13   12.5   0.1    2.6  2  Roc           Ras of Complex, Roc, domain of DAPkinase
     0.0023   16.9   1.9       0.44    9.5   0.0    2.7  3  MeaB          Methylmalonyl Co-A mutase-associated GTPase Mea
     0.0044   17.5   0.0      0.062   13.7   0.0    2.4  2  AAA           ATPase family associated with various cellular 
     0.0057   16.1   0.6        1.4    8.4   0.0    2.6  2  Arf           ADP-ribosylation factor family
     0.0065   16.7   0.0       0.23   11.7   0.0    3.0  3  AAA_22        AAA domain
     0.0084   16.2   6.5       0.97    9.5   0.2    3.5  3  DUF87         Helicase HerA, central domain
     0.0098   16.3   0.0      0.072   13.5   0.0    2.2  2  AAA_16        AAA ATPase domain
  ------ inclusion threshold ------
       0.01   16.2   0.0          2    8.8   0.0    2.6  2  RNA_helicase  RNA helicase
      0.012   15.6   0.2       0.56   10.2   0.2    2.4  2  TsaE          Threonylcarbamoyl adenosine biosynthesis protei
      0.034   14.1   3.6       0.14   12.1   0.3    2.9  3  NTPase_1      NTPase
      0.066   13.0   0.1        6.2    6.6   0.1    2.3  2  RuvB_N        Holliday junction DNA helicase RuvB P-loop doma
      0.071   12.9   0.0        9.2    6.0   0.2    2.3  2  PduV-EutP     Ethanolamine utilisation - propanediol utilisat
      0.072   13.1   0.0        2.8    8.0   0.1    2.9  2  AAA_14        AAA domain
      0.087   13.0   0.0        4.6    7.4   0.0    2.7  2  AAA_33        AAA domain
       0.11   12.5   1.0        2.8    7.9   0.1    3.1  3  AAA_5         AAA domain (dynein-related subfamily)
       0.16   11.6   2.9       0.54   10.0   0.2    2.7  2  AAA_24        AAA domain
       0.17   11.4   0.2        1.4    8.4   0.1    2.2  2  AAA_7         P-loop containing dynein motor region
       0.19   11.6   1.8       0.53   10.2   0.3    2.4  2  MobB          Molybdopterin guanine dinucleotide synthesis pr


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.6   0.0   1.5e-18   9.3e-16       2     137 .]      15     170 ..      14     170 .. 0.84
   2 ?    0.1   0.3       1.7     1e+03      79     120 ..     252     306 ..     200     312 .. 0.53
   3 !   71.6   0.0   1.4e-22   8.8e-20       2     137 .]     324     458 ..     323     458 .. 0.76

  Alignments for each domain:
  == domain 1  score: 58.6 bits;  conditional E-value: 1.5e-18
                              EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH........ CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx........ RF
                 ABC_tran   2 knvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren........ 79 
                              k+ +l+++ g +++++G nG GKStL+k+l  ++ p+  +  ++ ++ +   +   r ++ ++pqe  l  +  +  n        
  PHY93_01095|PHY93_01095  15 KKAQLTVNVGDRIGLLGLNGKGKSTLFKILNDEVVPDHTTPPFEFHKARG--EDNQRFSLFYVPQELPLEGNEDLSINdyffvfyp 98 
                              67899*******************************99999888776666..78888999******77777776666667****** PP

                              ...................HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              ...................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ...................esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                                                 e  ++ e +l+ ++l +  d++v    s+LSgG+++++ l   l + ++l+l+DEpt+
  PHY93_01095|PHY93_01095  99 elkimfendlekfeqhhgwELIQNYESFLKYFNLLD-LDKIV----SELSGGEQKKILLSLGLSSIANLILWDEPTN 170
                              888888878766555544444444888888888888.88888....******************************8 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 1.7
                              H............HHHTCHHHHHHHSTTGGTTCBGESTTS.GGS-HHHHHHHHHH CS
                              x............xxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxx RF
                 ABC_tran  79 n............esdeeiekalsklglkelkdtvvkssp.ssLSgGqkqrvala 120
                              +             s++++e++ +  + + + ++ +k++   +LS+  +q  +la
  PHY93_01095|PHY93_01095 252 QawmrqgvkarrtRSKKRVEDFNELKDKVTTIKSEAKRNLdLNLSKSNRQTKVLA 306
                              1233233443333455555444444444444444444333578888888777776 PP

  == domain 3  score: 71.6 bits;  conditional E-value: 1.4e-22
                              EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEET.TCEGGGB-HHHCCHCEEEE-SS.--S-TTSBHHHH..HHHT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxx..xxxx RF
                 ABC_tran   2 knvslklkegekvaivGenGaGKStLlkllagllkpteGeilld.gkdlkeqeleslrkeigvlpqe.pqlfpeltvren..esde 83 
                              +n+s ++++g+k++++G+nG GK+tLlkl++++l+p +G+i+   g ++++   ++ r e++v     + l +++   e       
  PHY93_01095|PHY93_01095 324 DNISGEIQKGNKIGLLGNNGVGKTTLLKLILEELQPVKGKIKTAdGLKSQY--FSQKRDELEVNRTPyQVLGDGSDFVELpdG--- 404
                              89***************************************6654666666..555555555555552355555555555442... PP

                              CHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  84 eiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                                +++ s ++   ++ + +++  +++SgG+k+r++la  l +  ++l++DEpt+
  PHY93_01095|PHY93_01095 405 SKKHVFSYFESFLFHRDDIHRPLKTFSGGEKSRLQLALNLTRVGDILIFDEPTN 458
                              34455555555556666666666******************************8 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.7   0.1    0.0044       2.7       3      36 ..      28      55 ..      27      73 .. 0.78
   2 !   20.4   2.0   5.8e-07   0.00036     234     303 .]     139     202 ..      59     202 .. 0.81
   3 ?   -1.4   0.2       2.6   1.6e+03     104     162 ..     241     299 ..     224     329 .. 0.64
   4 !   12.4   0.9   0.00016       0.1       3      26 ..     337     354 ..     336     390 .. 0.69
   5 !   13.3   0.3   8.7e-05     0.054     219     299 ..     393     486 ..     355     490 .. 0.69

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.0044
                   AAA_21  3 vliGpNgsGKSnLLdaldllarldrdvegltdel 36
                             +l G Ng GKS+L+++l      +++v ++++++
  PHY93_01095|PHY93_01095 28 GLLGLNGKGKSTLFKIL------NDEVVPDHTTP 55
                             689**************......55555555554 PP

  == domain 2  score: 20.4 bits;  conditional E-value: 5.8e-07
                   AAA_21 234 arelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQviltTHSpllld 303
                              ++elS G ++ + l + l + +    l+l+DEp n+L+ + +r + + l+++++    ++l TH+ +ll+
  PHY93_01095|PHY93_01095 139 VSELSGGEQKKILLSLGLSSIA---NLILWDEPTNHLDIETIRLFEDELSSTTK---AFMLITHDRYLLS 202
                              3578*******99999999999...89************999999999999999...********99985 PP

  == domain 3  score: -1.4 bits;  conditional E-value: 2.6
                   AAA_21 104 sleeedvfnpeargirggvsvfslkelsvsepndlqfgkaltditsrawsllllldglr 162
                               ++  ++   e    r gv+ ++ +++ + e++++ + k++t  ++ ++ l l+l ++ 
  PHY93_01095|PHY93_01095 241 LEKLKNNLEREQAWMRQGVKARRTRSKKRVEDFNELKDKVTTIKSEAKRNLDLNLSKSN 299
                              55555666666666677777777777777777777777777777776666666665544 PP

  == domain 4  score: 12.4 bits;  conditional E-value: 0.00016
                   AAA_21   3 vliGpNgsGKSnLLdaldllarld 26 
                              +l G Ng+GK++LL+++      +
  PHY93_01095|PHY93_01095 337 GLLGNNGVGKTTLLKLI------L 354
                              699*************9......3 PP

  == domain 5  score: 13.3 bits;  conditional E-value: 8.7e-05
                   AAA_21 219 r...................gvvflengdgqelparelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkel 285
                                                  +  fl + d+  +p+  +S G k+ l l++ l r     ++l++DEp n L+ + +  l e l + 
  PHY93_01095|PHY93_01095 393 GdgsdfvelpdgskkhvfsyFESFLFHRDDIHRPLKTFSGGEKSRLQLALNLTRVG---DILIFDEPTNDLDLETIQILEEKLGA- 474
                              044444555555555666668899999**************************999...*************9554444332222. PP

                   AAA_21 286 srngaQviltTHSp 299
                                  + vil +H+ 
  PHY93_01095|PHY93_01095 475 --FQGAVILISHDR 486
                              ..355777777775 PP

>> ABC_tran_Xtn  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.5   1.8   7.9e-09   4.9e-06       1      76 [.     209     283 ..     209     293 .. 0.84
   2 ?   -2.5   0.1       9.1   5.6e+03       7      30 ..     363     386 ..     361     390 .. 0.71
   3 ?    2.1   0.0      0.32     2e+02       3      17 ..     499     513 ..     497     526 .. 0.84

  Alignments for each domain:
  == domain 1  score: 26.5 bits;  conditional E-value: 7.9e-09
             ABC_tran_Xtn   1 velengklteYkGnYseyleekeerleqqqkayekqqkeikkleefIerfrakakkakqaqsrekaLekl.ekiekp 76 
                              ++++ng ++++ G Y++yl+  ee +  ++k  ek ++ ++++++++++  +  ++ ++ + r+  ++ l +k++  
  PHY93_01095|PHY93_01095 209 LHIQNGVIESFAGSYTDYLQFLEESEHSKMKLLEKLKNNLEREQAWMRQGVK--ARRTRSKKRVEDFNELkDKVTTI 283
                              69**********************************************9887..67777888888888775445444 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 9.1
             ABC_tran_Xtn   7 klteYkGnYseyleekeerleqqq 30 
                              k+++ +G  s+y+ +k+ +le  +
  PHY93_01095|PHY93_01095 363 KIKTADGLKSQYFSQKRDELEVNR 386
                              555556666899999999988766 PP

  == domain 3  score: 2.1 bits;  conditional E-value: 0.32
             ABC_tran_Xtn   3 lengklteYkGnYse 17 
                              le+gkl+ ++G Y++
  PHY93_01095|PHY93_01095 499 LEDGKLQNFEGGYEQ 513
                              89***********86 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   0.3       0.2   1.3e+02      21      42 ..      22      42 ..       2      45 .. 0.72
   2 !    9.4   0.0     0.001      0.63     127     206 ..     133     205 ..      81     216 .. 0.81
   3 ?    3.4   0.5     0.071        44      12      44 ..     321     353 ..     318     357 .. 0.74
   4 !   11.7   0.0   0.00021      0.13      91     206 ..     376     493 ..     358     503 .. 0.74

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.2
                             ETTSSEEEEEESTTSSHHHHHH CS
                             xxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 21 pfsksftaivGpNGSGKsnlld 42
                             ++ +    ++G NG GKs l+ 
  PHY93_01095|PHY93_01095 22 NVGD-RIGLLGLNGKGKSTLFK 42
                             4444.34689********9975 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.001
                              HHCTT-STTCS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTTSEEEEE-SSHHHCCC-S CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 127 lesagiskelLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkeksknaQfivislreemlekad 206
                              l   +i + +LSgGe++ + l+L ++    + a l l De   +LD + ++ + + l +++    f+ i++++ +l+k  
  PHY93_01095|PHY93_01095 133 LDLDKIVS-ELSGGEQKKILLSLGLS----SIANLILWDEPTNHLDIETIRLFEDELSSTT--KAFMLITHDRYLLSKLT 205
                              44444443.6******9888887765....56789**********************9999..67999999999998874 PP

  == domain 3  score: 3.4 bits;  conditional E-value: 0.071
                              TEECEEEEEETTSSEE.EEEESTTSSHHHHHHHH CS
                              xxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxx RF
                    SMC_N  12 syagktvilpfsksft.aivGpNGSGKsnlldAi 44 
                              s+  ++++++++k+ +  ++G+NG GK+ ll  i
  PHY93_01095|PHY93_01095 321 SLF-DNISGEIQKGNKiGLLGNNGVGKTTLLKLI 353
                              555.6677777776541599********998755 PP

  == domain 4  score: 11.7 bits;  conditional E-value: 0.00021
                              SSSSSCEEEEEEEETT.SEEEEEETTEEE-HHHHHHHHHCTT-STT.......CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTT CS
                              xxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxx.......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N  91 kiekeevsisrrvkrk.geseykingkevtkkevsellesagiske.......lLSgGektLvalaLlfAiqkvkpaplyllDeid 168
                              +++++e++++r+ ++  g+ + +++  + +kk v + +es  ++++       ++SgGek+ + laL       +   + ++De  
  PHY93_01095|PHY93_01095 376 SQKRDELEVNRTPYQVlGDGSDFVELPDGSKKHVFSYFESFLFHRDdihrplkTFSGGEKSRLQLALN----LTRVGDILIFDEPT 457
                              5555666666665543244455556666667777777777777766777777799*****97666665....56777899****** PP

                              TTS-HHHHHHHHHHHHHHCTTSEEEEE-SSHHHCCC-S CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 169 aaLDeknvkkvaellkeksknaQfivislreemlekad 206
                                LD + ++++ e l + +    +i is+++++l+ + 
  PHY93_01095|PHY93_01095 458 NDLDLETIQILEEKLGAFQ--GAVILISHDRTFLSTVT 493
                              **************99988..8899****999988764 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.9   0.0     0.035        22     103     123 ..      28      48 ..       9      77 .. 0.77
   2 !   14.6   0.4   3.6e-05     0.023      85     133 ..     318     367 ..     287     371 .. 0.77

  Alignments for each domain:
  == domain 1  score: 4.9 bits;  conditional E-value: 0.035
                              EEECSTTSSHHHHHHHHCTT- CS
              RsgA_GTPase 103 vlvGqSGvGKStLinallpel 123
                               l+G  G GKStL + l+ e 
  PHY93_01095|PHY93_01095  28 GLLGLNGKGKSTLFKILNDEV 48 
                              589************999875 PP

  == domain 2  score: 14.6 bits;  conditional E-value: 3.6e-05
                              TTHTTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT-----S----- CS
              RsgA_GTPase  85 ktkegleelkellkd.ktsvlvGqSGvGKStLinallpelelktgevsek 133
                              ++k+ +++++ ++++ + + l+G+ GvGK+tL++ +l+el+   g+++++
  PHY93_01095|PHY93_01095 318 TDKSLFDNISGEIQKgNKIGLLGNNGVGKTTLLKLILEELQPVKGKIKTA 367
                              45666778888888768889*****************9998888887765 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.7   0.1    0.0011      0.69      12      39 ..      14      41 ..      11      54 .. 0.86
   2 !    9.9   0.1   0.00098      0.61      14      39 ..     325     350 ..     320     361 .. 0.79

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.0011
                   AAA_29 12 fdghtieidlkgatlltGpsGsGKSTll 39
                             f++ ++++++ + + l G +G GKSTl+
  PHY93_01095|PHY93_01095 14 FKKAQLTVNVGDRIGLLGLNGKGKSTLF 41
                             77788889888888999*********97 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 0.00098
                   AAA_29  14 ghtieidlkgatlltGpsGsGKSTll 39 
                              + + ei+  + + l G++G+GK+Tll
  PHY93_01095|PHY93_01095 325 NISGEIQKGNKIGLLGNNGVGKTTLL 350
                              555566644478899**********8 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.9   0.0     0.011       6.5       1      22 [.      26      47 ..      26      58 .. 0.84
   2 !   10.5   0.0   0.00077      0.48       1      27 [.     335     361 ..     335     388 .. 0.80

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.011
                             EEEEEESTTSSHHHHHHHHHTS CS
                 MMR_HSR1  1 evaivGrpNvGKStLinaltge 22
                             +++++G    GKStL++ l +e
  PHY93_01095|PHY93_01095 26 RIGLLGLNGKGKSTLFKILNDE 47
                             699*************988665 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 0.00077
                              EEEEEESTTSSHHHHHHHHHTSTEEES CS
                 MMR_HSR1   1 evaivGrpNvGKStLinaltgekaivs 27 
                              +++++G+  vGK+tL++ +++e   v+
  PHY93_01095|PHY93_01095 335 KIGLLGNNGVGKTTLLKLILEELQPVK 361
                              689****************99865554 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.6   0.1     0.053        33      22      42 ..      26      45 ..      11      54 .. 0.80
   2 ?   -2.6   0.0         4   2.5e+03     157     171 ..     109     123 ..     104     145 .. 0.80
   3 !   13.0   0.0   7.1e-05     0.044      22      50 ..     335     363 ..     320     428 .. 0.71

  Alignments for each domain:
  == domain 1  score: 3.6 bits;  conditional E-value: 0.053
                             EEEEEESTTSSHHHHHHHHCC CS
                   NB-ARC 22 vvalvGmgGvGKttlakqiln 42
                              ++l G  G GK+tl+k  ln
  PHY93_01095|PHY93_01095 26 RIGLLGLNGKGKSTLFKI-LN 45
                             589************974.44 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 4
                              SS--HHHHHHHHHHC CS
                   NB-ARC 157 elLekdeawellenk 171
                              e +e+ ++wel++n+
  PHY93_01095|PHY93_01095 109 EKFEQHHGWELIQNY 123
                              678999999999997 PP

  == domain 3  score: 13.0 bits;  conditional E-value: 7.1e-05
                              EEEEEESTTSSHHHHHHHHCCSHCCCCCC CS
                   NB-ARC  22 vvalvGmgGvGKttlakqilnksdevegr 50 
                               ++l G  GvGKttl+k il++++ v+g+
  PHY93_01095|PHY93_01095 335 KIGLLGNNGVGKTTLLKLILEELQPVKGK 363
                              488*******************9999885 PP

>> KAP_NTPase  KAP family P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.0      0.24   1.5e+02      30      49 ..      34     105 ..      26     333 .. 0.43
   2 !   15.4   0.0   1.4e-05    0.0086       8      71 ..     322     425 ..     315     429 .. 0.89

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.24
               KAP_NTPase  30 GsGKssllnkledelkefa....................................................k 49 
                              G GKs+l + l de                                                         +
  PHY93_01095|PHY93_01095  34 GKGKSTLFKILNDEVVPDHttppfefhkargednqrfslfyvpqelplegnedlsindyffvfypelkimfE 105
                              667777777776665444333344444444443333333333333333333333333333333333333330 PP

  == domain 2  score: 15.4 bits;  conditional E-value: 1.4e-05
               KAP_NTPase   8 ladilseptlatpivvgLygkWGsGKssllnkledelkefa..........................................kpv 51 
                              l d +s    +++  +gL g+ G+GK++ll+++ +el+  +                                           ++
  PHY93_01095|PHY93_01095 322 LFDNISGE-IQKGNKIGLLGNNGVGKTTLLKLILEELQPVKgkiktadglksqyfsqkrdelevnrtpyqvlgdgsdfvelpdGSK 406
                              56666644.588889***********************99999****************************************999 PP

               KAP_NTPase  52 rflfaefnawsfkggddava 71 
                              +++f +f++++f   dd+++
  PHY93_01095|PHY93_01095 407 KHVFSYFESFLFHR-DDIHR 425
                              ***********965.87765 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.4   0.0     0.041        25       1      21 [.      27      47 ..      27     130 .. 0.78
   2 ?   -1.0   0.1       3.8   2.4e+03      50      88 ..     230     250 ..     200     289 .. 0.61
   3 !   10.0   0.0    0.0016      0.99       1      27 [.     336     360 ..     336     409 .. 0.74

  Alignments for each domain:
  == domain 1  score: 5.4 bits;  conditional E-value: 0.041
                   AAA_18  1 IlltGtpGvGKttlakeLskr 21
                             I+l G  G GK+tl k L+++
  PHY93_01095|PHY93_01095 27 IGLLGLNGKGKSTLFKILNDE 47
                             899***************876 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 3.8
                   AAA_18  50 krldedkldklldaleenssaleegknlvidghlaeles 88 
                              +++ e+  +kll++l++n +                   
  PHY93_01095|PHY93_01095 230 LEESEHSKMKLLEKLKNNLE------------------R 250
                              33333333333333333322..................2 PP

  == domain 3  score: 10.0 bits;  conditional E-value: 0.0016
                   AAA_18   1 IlltGtpGvGKttlakeLskrlgfgvn 27 
                              I+l G  GvGKttl k + ++l    +
  PHY93_01095|PHY93_01095 336 IGLLGNNGVGKTTLLKLILEEL--QPV 360
                              8999*************98887..333 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   0.1     0.054        33       4      23 ..      28      47 ..      25     102 .. 0.82
   2 !   11.4   0.0   0.00036      0.22       5      25 ..     338     358 ..     335     388 .. 0.86

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.054
                             EEEC-TTTCHHHHHHHHHHH CS
                    NACHT  4 ilqGeaGsGKTtLlqklala 23
                              l G +G+GK+tL + l ++
  PHY93_01095|PHY93_01095 28 GLLGLNGKGKSTLFKILNDE 47
                             58899********9877665 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 0.00036
                              EEC-TTTCHHHHHHHHHHHHC CS
                    NACHT   5 lqGeaGsGKTtLlqklalawa 25 
                              l G +G+GKTtLl+ + ++++
  PHY93_01095|PHY93_01095 338 LLGNNGVGKTTLLKLILEELQ 358
                              78*************999987 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.0      0.18   1.1e+02       2      25 ..      27      50 ..      26      66 .. 0.79
   2 !   12.5   0.1   0.00021      0.13       1      22 [.     335     356 ..     335     387 .. 0.75

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.18
                             EEEESSTTSSHHHHHHCHCT-CCC CS
                      Roc  2 vvlvGdsgvGKtsllkrfvedkfs 25
                             + l+G +g GK++l+k + ++ + 
  PHY93_01095|PHY93_01095 27 IGLLGLNGKGKSTLFKILNDEVVP 50
                             779***********9977665554 PP

  == domain 2  score: 12.5 bits;  conditional E-value: 0.00021
                              EEEEESSTTSSHHHHHHCHCT- CS
                      Roc   1 KvvlvGdsgvGKtsllkrfved 22 
                              K+ l+G++gvGKt+llk ++e+
  PHY93_01095|PHY93_01095 335 KIGLLGNNGVGKTTLLKLILEE 356
                              899*************977754 PP

>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.9   0.0    0.0088       5.4      29      51 ..      24      46 ..      10      51 .. 0.79
   2 ?   -1.2   0.1       1.3   7.8e+02     186     233 ..     237     288 ..     224     314 .. 0.53
   3 !    9.5   0.0   0.00071      0.44      15      54 ..     319     358 ..     305     365 .. 0.87

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.0088
                             SEEEEEEE-TTSSHHHHHHHHHH CS
                     MeaB 29 aqvvGltGvPGaGkstlvealgl 51
                               ++Gl G+ G Gkstl + l  
  PHY93_01095|PHY93_01095 24 GDRIGLLGLNGKGKSTLFKILND 46
                             579**************987765 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 1.3
                              HHHHHHHHHHCSTTBTTB--EEEEE....BCCCTBSHHHHHHHHHHHHHHHH CS
                     MeaB 186 arelraaleleeekekeWrpkvlkt....savegeGidelvdaieehrevlk 233
                              + +l   l+ + e+e+ W  + +k+    s ++ e  +el d+++  ++ +k
  PHY93_01095|PHY93_01095 237 KMKLLEKLKNNLEREQAWMRQGVKArrtrSKKRVEDFNELKDKVTTIKSEAK 288
                              4444444444455555565444333111133344455555555555555444 PP

  == domain 3  score: 9.5 bits;  conditional E-value: 0.00071
                              HHHHHHHHGGG-S-SEEEEEEE-TTSSHHHHHHHHHHHHH CS
                     MeaB  15 akellerllakaGraqvvGltGvPGaGkstlvealglelr 54 
                               k+l+++++ +  + +++Gl G  G+Gk tl++ + +el+
  PHY93_01095|PHY93_01095 319 DKSLFDNISGEIQKGNKIGLLGNNGVGKTTLLKLILEELQ 358
                              5789999999999*******************99888875 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.0         1   6.2e+02       3      22 ..      29      48 ..      27      70 .. 0.80
   2 !   13.7   0.0    0.0001     0.062       3      43 ..     338     379 ..     336     401 .. 0.73

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 1
                             EESSTTSSHHHHHHHHHHHH CS
                      AAA  3 lyGppGtGKTllakavakel 22
                             l G  G GK++l k +  e+
  PHY93_01095|PHY93_01095 29 LLGLNGKGKSTLFKILNDEV 48
                             7899*********9987775 PP

  == domain 2  score: 13.7 bits;  conditional E-value: 0.0001
                              EESSTTSSHHHHHHHHHHHHTHEEEEEETTTCS.SSSTTHHH CS
                      AAA   3 lyGppGtGKTllakavakelgvefleisgsell.skyvgese 43 
                              l G+ G+GKT+l k + +el+    +i+ ++ l s+y++++ 
  PHY93_01095|PHY93_01095 338 LLGNNGVGKTTLLKLILEELQPVKGKIKTADGLkSQYFSQKR 379
                              88*****************96333333333333255666555 PP

>> Arf  ADP-ribosylation factor family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.4   0.0    0.0022       1.4      12      47 ..      22      58 ..      10      74 .. 0.73
   2 ?    5.2   0.2      0.02        13      11      34 ..     330     353 ..     320     367 .. 0.77

  Alignments for each domain:
  == domain 1  score: 8.4 bits;  conditional E-value: 0.0022
                             TTEEEEEEEESTTSSHHHHHHHHHHSSCEE.CSSSSS CS
                      Arf 12 kkelrilllGLDnaGKtTilkklkleelvt.tvPTig 47
                             +   ri llGL + GK+T+ k l++e + + t+P   
  PHY93_01095|PHY93_01095 22 NVGDRIGLLGLNGKGKSTLFKILNDEVVPDhTTPPFE 58
                             5556899***********9999987766432555544 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.02
                              .TTEEEEEEEESTTSSHHHHHHHH CS
                      Arf  11 kkkelrilllGLDnaGKtTilkkl 34 
                               +k  +i llG  + GKtT+lk +
  PHY93_01095|PHY93_01095 330 IQKGNKIGLLGNNGVGKTTLLKLI 353
                              378899**************9754 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.0      0.74   4.6e+02      11      34 ..      30      51 ..      26      79 .. 0.73
   2 ?   -1.0   0.1       3.2     2e+03      54      66 ..     238     250 ..     197     306 .. 0.63
   3 !   11.7   0.0   0.00038      0.23      10      34 ..     338     362 ..     330     469 .. 0.82

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.74
                   AAA_22 11 tGesGtGKTtllrrlleqldeeak 34
                              G  G GK+tl + l ++ +  ++
  PHY93_01095|PHY93_01095 30 LGLNGKGKSTLFKILNDEVV--PD 51
                             68899********9998864..44 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 3.2
                   AAA_22  54 kdllrellralgl 66 
                               +ll++l ++l++
  PHY93_01095|PHY93_01095 238 MKLLEKLKNNLER 250
                              2233333333322 PP

  == domain 3  score: 11.7 bits;  conditional E-value: 0.00038
                   AAA_22  10 vtGesGtGKTtllrrlleqldeeak 34 
                              + G  G+GKTtll+ +le+l+ ++ 
  PHY93_01095|PHY93_01095 338 LLGNNGVGKTTLLKLILEELQPVKG 362
                              5799***************987654 PP

>> DUF87  Helicase HerA, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.0     0.052        32      22      48 ..      23      49 ..      16      55 .. 0.85
   2 ?    3.4   0.8      0.11        69     144     215 ..     238     301 ..     170     320 .. 0.65
   3 !    9.5   0.2    0.0016      0.97      26      48 ..     336     358 ..     333     366 .. 0.88

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.052
                    DUF87 22 vtrHlAilgsTGsGKSntvavLleell 48
                             v  +++ lg  G GKS++ ++L +e++
  PHY93_01095|PHY93_01095 23 VGDRIGLLGLNGKGKSTLFKILNDEVV 49
                             5678999**************999887 PP

  == domain 2  score: 3.4 bits;  conditional E-value: 0.11
                    DUF87 144 eklleelkkekeelrklknqaiarlldkledllrkggsfsnsstdliallleklekegkitiidlsgvdela 215
                               klle+lk   ++l++++   ++++++++++ +++ ++f n+ +d ++++   +++ ++   ++ls+ ++++
  PHY93_01095|PHY93_01095 238 MKLLEKLK---NNLEREQAWMRQGVKARRTRSKKRVEDF-NELKDKVTTI---KSEAKRNLDLNLSK-SNRQ 301
                              23334444...5555666666666666666666666666.4444444444...55555555555555.2222 PP

  == domain 3  score: 9.5 bits;  conditional E-value: 0.0016
                    DUF87  26 lAilgsTGsGKSntvavLleell 48 
                              ++ lg  G+GK+++ +++leel 
  PHY93_01095|PHY93_01095 336 IGLLGNNGVGKTTLLKLILEELQ 358
                              789******************95 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.4   0.0       2.1   1.3e+03      29      51 ..      29      51 ..      21      79 .. 0.77
   2 !   13.5   0.0   0.00012     0.072      27      69 ..     336     389 ..     321     446 .. 0.71

  Alignments for each domain:
  == domain 1  score: -0.4 bits;  conditional E-value: 2.1
                   AAA_16 29 lsGesGvGKsslvrellralekd 51
                             l G  G GKs+l + l +++  d
  PHY93_01095|PHY93_01095 29 LLGLNGKGKSTLFKILNDEVVPD 51
                             78999*******98887777666 PP

  == domain 2  score: 13.5 bits;  conditional E-value: 0.00012
                   AAA_16  27 vllsGesGvGKsslvrellralekd..........ggiflrgkcdqlesa.ipy 69 
                              + l G+ GvGK++l++ +l++l+            +  ++++k d+le + +py
  PHY93_01095|PHY93_01095 336 IGLLGNNGVGKTTLLKLILEELQPVkgkiktadglKSQYFSQKRDELEVNrTPY 389
                              5689***************98887655555555444444445555443334565 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6   0.0     0.068        42       3      23 ..      29      49 ..      27      75 .. 0.80
   2 ?    8.8   0.0    0.0033         2       3      43 ..     338     374 ..     336     384 .. 0.70

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.068
             RNA_helicase  3 lyGpsgeGKStlakeLakall 23
                             l G +g GKStl k L +++ 
  PHY93_01095|PHY93_01095 29 LLGLNGKGKSTLFKILNDEVV 49
                             67999**********998887 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.0033
             RNA_helicase   3 lyGpsgeGKStlakeLakallkklklkkkdsvys.rnpeddf 43 
                              l G++g+GK+tl k + ++l+     + k+++ +  + ++++
  PHY93_01095|PHY93_01095 338 LLGNNGVGKTTLLKLILEELQ-----PVKGKIKTaDGLKSQY 374
                              78*************888887.....4444444444444444 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.7   0.0       0.2   1.2e+02      14      54 ..      19      58 ..      10      92 .. 0.79
   2 ?   10.2   0.2    0.0009      0.56      14      44 ..     330     358 ..     318     367 .. 0.77

  Alignments for each domain:
  == domain 1  score: 2.7 bits;  conditional E-value: 0.2
                             HHHCHTEEEEEEESTTSSHHHHHHHHHHHTT------TTTT CS
                     TsaE 14 lakalgdvilLeGdLGaGKTtlvrglakalgveevkSPTFt 54
                             l+ ++gd i L G  G GK+tl + l  ++ v + + P F 
  PHY93_01095|PHY93_01095 19 LTVNVGDRIGLLGLNGKGKSTLFKILNDEV-VPDHTTPPFE 58
                             333347789999999*********998876.4455566665 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 0.0009
                              HHHCHTEEEEEEESTTSSHHHHHHHHHHHTT CS
                     TsaE  14 lakalgdvilLeGdLGaGKTtlvrglakalg 44 
                              ++k  g+ i L G+ G+GKTtl + ++++l+
  PHY93_01095|PHY93_01095 330 IQK--GNKIGLLGNNGVGKTTLLKLILEELQ 358
                              333..66799*****************9996 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   0.0      0.68   4.2e+02       2      22 ..      27      47 ..      26      64 .. 0.84
   2 ?   -0.3   0.1       1.5     9e+02      12      48 ..     237     274 ..     232     304 .. 0.67
   3 ?   12.1   0.3   0.00022      0.14       2      24 ..     336     358 ..     335     373 .. 0.85

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.68
                             EEEE--TTSSHHHHHHHHHHH CS
                 NTPase_1  2 vfiTGppGvGKtTlvkkvlel 22
                             + + G  G GK+Tl+k + ++
  PHY93_01095|PHY93_01095 27 IGLLGLNGKGKSTLFKILNDE 47
                             6677999*******9876655 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 1.5
                              HHHHHHHHHHHH...G.GGEEEEEEEEE-------EEE CS
                 NTPase_1  12 KtTlvkkvlellkssg.vkvgGfyteevreggrrigFk 48 
                              K  l++k+ ++l++++ +  +G+ +++ r+++r   F+
  PHY93_01095|PHY93_01095 237 KMKLLEKLKNNLEREQaWMRQGVKARRTRSKKRVEDFN 274
                              67788888888887651566899999998888776663 PP

  == domain 3  score: 12.1 bits;  conditional E-value: 0.00022
                              EEEE--TTSSHHHHHHHHHHHH. CS
                 NTPase_1   2 vfiTGppGvGKtTlvkkvlellk 24 
                              + + G+ GvGKtTl+k +le+l+
  PHY93_01095|PHY93_01095 336 IGLLGNNGVGKTTLLKLILEELQ 358
                              6788*****************96 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.9   0.0     0.067        41      19      57 ..      10      48 ..       4      57 .. 0.85
   2 ?    6.6   0.1      0.01       6.2      36      58 ..     336     358 ..     329     373 .. 0.80

  Alignments for each domain:
  == domain 1  score: 3.9 bits;  conditional E-value: 0.067
                   RuvB_N 19 lkifieaakkreealdhvllyGpPGlGkttlakiiakel 57
                             lk + + a+   +  d + l G  G Gk+tl ki+ +e+
  PHY93_01095|PHY93_01095 10 LKTVFKKAQLTVNVGDRIGLLGLNGKGKSTLFKILNDEV 48
                             56667778888888999******************9987 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.01
                   RuvB_N  36 vllyGpPGlGkttlakiiakelg 58 
                              + l G  G+Gkttl k+i +el+
  PHY93_01095|PHY93_01095 336 IGLLGNNGVGKTTLLKLILEELQ 358
                              5689***************9996 PP

>> PduV-EutP  Ethanolamine utilisation - propanediol utilisation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   0.0     0.049        30       3      37 ..      26      60 ..      24      63 .. 0.83
   2 ?    6.0   0.2     0.015       9.2       3      22 ..     335     354 ..     333     364 .. 0.84

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.049
                PduV-EutP  3 killiGkvgsGKttLtqalkgeelkYkktqaiefs 37
                             +i l+G  g GK tL + l++e +  + t   ef+
  PHY93_01095|PHY93_01095 26 RIGLLGLNGKGKSTLFKILNDEVVPDHTTPPFEFH 60
                             67899****************98887777666665 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.015
                PduV-EutP   3 killiGkvgsGKttLtqalk 22 
                              ki l+G+ g+GKttL + + 
  PHY93_01095|PHY93_01095 335 KIGLLGNNGVGKTTLLKLIL 354
                              7889***********98764 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   0.0      0.44   2.7e+02       7      43 ..      29      64 ..      25      91 .. 0.70
   2 ?    8.0   0.1    0.0046       2.8       6      28 ..     337     360 ..     332     394 .. 0.73

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.44
                   AAA_14  7 itGaRrvGKTtllkqlikellvkkesilyinldderd 43
                             + G+   GK+tl  ++++++ v++  +  +++ + r 
  PHY93_01095|PHY93_01095 29 LLGLNGKGKSTLF-KILNDEVVPDHTTPPFEFHKARG 64
                             7789999*****5.66666665666666666655554 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.0046
                   AAA_14   6 vitGaRrvGKTtllkqlikell.v 28 
                               + G   vGKTtllk +++el  v
  PHY93_01095|PHY93_01095 337 GLLGNNGVGKTTLLKLILEELQpV 360
                              6789999********999888752 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.0      0.25   1.6e+02       5      17 ..      30      42 ..      27      69 .. 0.88
   2 ?    7.4   0.0    0.0074       4.6       5      38 ..     339     375 ..     336     397 .. 0.73

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.25
                   AAA_33  5 vGlpGsGKstlae 17
                              Gl+G GKstl +
  PHY93_01095|PHY93_01095 30 LGLNGKGKSTLFK 42
                             7*********976 PP

  == domain 2  score: 7.4 bits;  conditional E-value: 0.0074
                   AAA_33   5 vGlpGsGKstlaerllkklg...avllssdtlrrrlf 38 
                               G +G+GK+tl++ +l++l+   + + + d l++++f
  PHY93_01095|PHY93_01095 339 LGNNGVGKTTLLKLILEELQpvkGKIKTADGLKSQYF 375
                              6999************999866655555555555555 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.0       1.1     7e+02       4      19 ..      29      44 ..      27      55 .. 0.87
   2 ?    0.2   0.0       1.1     7e+02      69     108 ..     228     267 ..     189     289 .. 0.81
   3 ?    7.9   0.1    0.0045       2.8       4      24 ..     338     358 ..     335     384 .. 0.85

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 1.1
                             EE--SSSSHHHHHHHG CS
                    AAA_5  4 LvGppGtgKselaerl 19
                             L+G  G gKs+l + l
  PHY93_01095|PHY93_01095 29 LLGLNGKGKSTLFKIL 44
                             89*********98876 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 1.1
                              EEEESGGG--HHHHHHHHHHHHSSEEE..-SSSEEE---. CS
                    AAA_5  69 lvlDEveraesevlnsLlslleerrllleeggelvkaknd 108
                               +l+E e+ + + l++L + le+++ ++ +g +  + +++
  PHY93_01095|PHY93_01095 228 QFLEESEHSKMKLLEKLKNNLEREQAWMRQGVKARRTRSK 267
                              5889999999999999999999999998888777666554 PP

  == domain 3  score: 7.9 bits;  conditional E-value: 0.0045
                              EE--SSSSHHHHHHHGGGGBS CS
                    AAA_5   4 LvGppGtgKselaerlaaaln 24 
                              L+G+ G+gK++l + +++ l+
  PHY93_01095|PHY93_01095 338 LLGNNGVGKTTLLKLILEELQ 358
                              99*************998874 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.0      0.56   3.4e+02       4      22 ..      26      44 ..      24      53 .. 0.82
   2 ?   10.0   0.2   0.00087      0.54       2      22 ..     333     353 ..     332     378 .. 0.81

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.56
                   AAA_24  4 kiliyGpsgiGKTtlakel 22
                             +i + G +g GK+tl k l
  PHY93_01095|PHY93_01095 26 RIGLLGLNGKGKSTLFKIL 44
                             78999**********9987 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00087
                   AAA_24   2 klkiliyGpsgiGKTtlakel 22 
                              ++ki + G +g+GKTtl+k +
  PHY93_01095|PHY93_01095 333 GNKIGLLGNNGVGKTTLLKLI 353
                              689**************9977 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.0      0.95   5.9e+02      28      58 ..      19      49 ..      14      61 .. 0.79
   2 ?    8.4   0.1    0.0022       1.4      30      60 ..     330     360 ..     324     374 .. 0.87

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.95
                    AAA_7 28 lllknkkpvllvGptGtGKtviikdllkkld 58
                             l ++ +  + l G  G GK+++ k l +++ 
  PHY93_01095|PHY93_01095 19 LTVNVGDRIGLLGLNGKGKSTLFKILNDEVV 49
                             567777888899*********9997776665 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.0022
                    AAA_7  30 lknkkpvllvGptGtGKtviikdllkkldke 60 
                              +++++++ l G+ G+GKt+++k +l++l++ 
  PHY93_01095|PHY93_01095 330 IQKGNKIGLLGNNGVGKTTLLKLILEELQPV 360
                              678889999****************999865 PP

>> MobB  Molybdopterin guanine dinucleotide synthesis protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.0       2.7   1.7e+03       2      19 ..      27      44 ..      26      50 .. 0.84
   2 ?   10.2   0.3   0.00085      0.53       2      30 ..     336     364 ..     335     373 .. 0.86

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 2.7
                     MobB  2 lgivgksgsGKTtLlekl 19
                             +g+ g +g GK tL + l
  PHY93_01095|PHY93_01095 27 IGLLGLNGKGKSTLFKIL 44
                             68999*********8765 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 0.00085
                     MobB   2 lgivgksgsGKTtLleklipelkarglrv 30 
                              +g+ g++g GKTtLl+ +++el+  + ++
  PHY93_01095|PHY93_01095 336 IGLLGNNGVGKTTLLKLILEELQPVKGKI 364
                              6899*****************98766555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (527 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1299  (0.0724525); expected 358.6 (0.02)
Passed bias filter:                      736  (0.0410508); expected 358.6 (0.02)
Passed Vit filter:                       108  (0.00602376); expected 17.9 (0.001)
Passed Fwd filter:                        31  (0.00172904); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              29  [number of targets reported over threshold]
# CPU time: 0.80u 0.28s 00:00:01.08 Elapsed: 00:00:00.45
# Mc/sec: 3511.46
//
Query:       PHY93_01100|PHY93_01100  [L=200]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.2e-59  200.1   0.0    3.7e-59  199.9   0.0    1.0  1  DUF938           Protein of unknown function (DUF938)
    2.2e-05   25.0   0.0    4.2e-05   24.2   0.0    1.5  1  Methyltransf_25  Methyltransferase domain
    9.1e-05   23.1   0.0    0.00016   22.3   0.0    1.4  1  Methyltransf_12  Methyltransferase domain
     0.0055   17.3   0.0      0.011   16.4   0.0    1.5  1  Methyltransf_11  Methyltransferase domain
     0.0077   16.1   0.0       0.01   15.7   0.0    1.2  1  Methyltransf_23  Methyltransferase domain
  ------ inclusion threshold ------
      0.028   14.6   0.0      0.043   13.9   0.0    1.3  1  Peptidase_C23    Carlavirus endopeptidase


Domain annotation for each model (and alignments):
>> DUF938  Protein of unknown function (DUF938)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  199.9   0.0   1.3e-62   3.7e-59       2     204 .]       4     197 ..       3     197 .. 0.96

  Alignments for each domain:
  == domain 1  score: 199.9 bits;  conditional E-value: 1.3e-62
                   DUF938   2 kfapaaernrepilevLksylakttervLEiasGtGqHAvffApalpnlkwqpsdqdeelresiaawadelalsnlkpPleldvta 87 
                              +++ a +rn++pil+vLk+++   + rvLE++sG+ qHAv+fA++++ + w +sd + e    i++ +d++ l+nl+ Pl+ ++ +
  PHY93_01100|PHY93_01100   4 EISSANDRNKDPILAVLKEVIIGDSIRVLEVGSGSAQHAVYFAKNFKDIIWTTSDIATEH-TRIRQVLDAAKLPNLRGPLAFEIGK 88 
                              67899****************999999*****************************9999.59*********************99 PP

                   DUF938  88 evapvereappapasidailsinllHispwsaveglfagagellkkkavlviYGPyaqdGeltsdsnrdFDesLrsrdaewGvRdi 173
                              +           + s+d ++++n++Hi +w++++ l++ +g+ l++++ ++iYGP+++dG++ts+sn++FD+ L+++d++ G+R  
  PHY93_01100|PHY93_01100  89 DDF--------PKYSYDIVFTANTFHILSWKQCKNLMKVLGNRLREGSQVIIYGPFNYDGKFTSESNAEFDKWLKQQDPQRGIRSF 166
                              933........3569*********************************************************************** PP

                   DUF938 174 edvealaaaqgLqleklvdmPannkllvfqk 204
                              ed+++   ++g +l k+++mPann++lvf +
  PHY93_01100|PHY93_01100 167 EDINKNMIKNGFVLFKDYEMPANNRMLVFTR 197
                              *****************************86 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.2   0.0   1.4e-08   4.2e-05       1      96 [.      31     127 ..      31     127 .. 0.84

  Alignments for each domain:
  == domain 1  score: 24.2 bits;  conditional E-value: 1.4e-08
                              EEEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTT.TEEE.EESBCCGBSSSTTTEEEEEEESTGGGSSHHHHHH CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeegl.nvef.vqgdaedlpfedgsfDlvvssgalhhlsdedlek 84 
                              vL++G G+ +++ ++ak++++  +t  Di+ e  ++ +  +++++l n++  +  ++ + +f++ s+D+v+ ++++h+ls ++ ++
  PHY93_01100|PHY93_01100  31 VLEVGSGSAQHAVYFAKNFKDIIWTTSDIATEHTRIRQ-VLDAAKLpNLRGpLAFEIGKDDFPKYSYDIVFTANTFHILSWKQCKN 115
                              9******************99999******99977544.4444444477744667778889999********999**********9 PP

                              HHHHHHHHEEEE CS
          Methyltransf_25  85 alkeiarvLkpg 96 
                              ++k + + L++g
  PHY93_01100|PHY93_01100 116 LMKVLGNRLREG 127
                              999998888876 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.3   0.0   5.5e-08   0.00016       1      98 [.      32     129 ..      32     130 .. 0.81

  Alignments for each domain:
  == domain 1  score: 22.3 bits;  conditional E-value: 5.5e-08
          Methyltransf_12   1 LeiGcGtGsllralleklpdieytgvDispsaiedakeklakrennnnnnvelealdlldldggssfDlvvasnvlhhl..kdire 84 
                              Le+G+G+++ + +++++++di  t +Di ++   + ++ l + +  n     l  +   d++++ s+D+v+ +n++h l  k+ + 
  PHY93_01100|PHY93_01100  32 LEVGSGSAQHAVYFAKNFKDIIWTTSDIATEHT-RIRQVLDAAKLPNLR-GPLAFEIGKDDFPKYSYDIVFTANTFHILswKQCKN 115
                              8********************************.777777777753333.333333334556679**************9999999 PP

          Methyltransf_12  85 vldnirklLkpgGr 98 
                              +++ + + L+ g +
  PHY93_01100|PHY93_01100 116 LMKVLGNRLREGSQ 129
                              99999999988865 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.0   3.5e-06     0.011       1      84 [.      32     120 ..      32     132 .. 0.66

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 3.5e-06
                              EEET-TTSHHHHHHHHTT..SEEEEEES-HHHHHHHHHHCCHHT-.....EEEETTEECCCTSS-TT-EEEEEEES-CCC-..CCH CS
          Methyltransf_11   1 LdvGcGtGrlaealakrg..arvvgvDlskemlklakekaseegl.....kvefvvadaeklpfednsfDlvvssevlhhv..edp 77 
                              L+vG+G+ ++a ++ak++     ++ D+++e + + ++    ++l         +  ++ k  f++ s+D+v+  +++h +  ++ 
  PHY93_01100|PHY93_01100  32 LEVGSGSAQHAVYFAKNFkdIIWTTSDIATEHT-RIRQVLDAAKLpnlrgP---LAFEIGKDDFPKYSYDIVFTANTFHILswKQC 113
                              89*************999665556667666665.33333333333322333...555666668*****************977444 PP

                              HHHHHHH CS
          Methyltransf_11  78 ekalkei 84 
                              + ++k +
  PHY93_01100|PHY93_01100 114 KNLMKVL 120
                              4444433 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   3.5e-06      0.01      21     160 ..      26     178 ..       3     182 .. 0.68

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 3.5e-06
          Methyltransf_23  21 raggrvLdiGcGtGillevlrengfsvt..gvDlspeaveiae.....kakkaqkdqfdeq.eaaepqgkfdlIvlrevlehvp.. 96 
                                + rvL++G G+   + ++++n+++++    D+  e   i++     k ++ +   ++e+ ++++p+ ++d++   ++++ +   
  PHY93_01100|PHY93_01100  26 GDSIRVLEVGSGSAQHAVYFAKNFKDIIwtTSDIATEHTRIRQvldaaKLPNLRGPLAFEIgKDDFPKYSYDIVFTANTFHILSwk 111
                              4456*********************9884567776554444336655533333333333333445577799988877777655443 PP

          Methyltransf_23  97 dppellrqiatllkpgGylllseplasl.....kedrllldwlylvpagrhisffsarslkelleeaGl 160
                                  l++ +++ l++g  +++  p +++     +++  +++wl + +  r i+ f   ++++ + ++G+
  PHY93_01100|PHY93_01100 112 QCKNLMKVLGNRLREGSQVIIYGPFNYDgkftsESNAEFDKWLKQQDPQRGIRSFE--DINKNMIKNGF 178
                              5679999999****999999999988888888778888999965555546665554..67777777777 PP

>> Peptidase_C23  Carlavirus endopeptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   1.5e-05     0.043       8      56 ..       4      52 ..       1      71 [. 0.86

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 1.5e-05
            Peptidase_C23  8 avskAlkrrkadilAvlekvaseelveevseGrGlsiedvesvleildi 56
                              +s+A +r k  ilAvl++v   + ++ ++ G G   + v  + +  di
  PHY93_01100|PHY93_01100  4 EISSANDRNKDPILAVLKEVIIGDSIRVLEVGSGSAQHAVYFAKNFKDI 52
                             699*******************************998888776666555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (200 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       571  (0.0318478); expected 358.6 (0.02)
Passed bias filter:                      498  (0.0277762); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.48u 0.25s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 1373.02
//
Query:       PHY93_01105|PHY93_01105  [L=214]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.3e-05   23.5   0.1    5.1e-05   22.9   0.1    1.3  1  SLT       Transglycosylase SLT domain


Domain annotation for each model (and alignments):
>> SLT  Transglycosylase SLT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.9   0.1   2.9e-09   5.1e-05       6      95 ..      88     181 ..      83     197 .. 0.76

  Alignments for each domain:
  == domain 1  score: 22.9 bits;  conditional E-value: 2.9e-09
                              HHHHHTS-HHHHHHHHHHHHTT-TT-B-TTSEBTTTTBETTTHHHHHHHHT....-SHHHHCSHHHHHHHHHHHHHHHHHTTTTHH CS
                      SLT   6 aekkygvepsllaaiaqvESgfnpkAvsksgavGLmQimpstakrlglrvk....lsedelldPeknisagakyLkslykqyngsl 87 
                              a kky++ep++++ai+ +ES f  + +s +g++   Qi+ +  ++   r++     +e+   d e ++   a++L+   k+y ++ 
  PHY93_01105|PHY93_01105  88 AIKKYKIEPQIIVAIIDTESDFRADKISITGDLSVAQINVEVWNKEFIRMRklpmIKEKIKMDQEYALMKMAEILNIIKKRYAKKD 173
                              679***********************************988777766666566665555556666666666677777777777666 PP

                              HHHHHHHH CS
                      SLT  88 llalaAYN 95 
                              ++ +a Y+
  PHY93_01105|PHY93_01105 174 RRWYARYH 181
                              66666565 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (214 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       860  (0.047967); expected 358.6 (0.02)
Passed bias filter:                      344  (0.0191868); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.39
# Mc/sec: 1652.83
//
Query:       PHY93_01110|PHY93_01110  [L=137]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (137 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       332  (0.0185175); expected 358.6 (0.02)
Passed bias filter:                      251  (0.0139997); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.21s 00:00:00.59 Elapsed: 00:00:00.36
# Mc/sec: 1151.95
//
Query:       PHY93_20150|PHY93_20150  [L=199]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.8e-15   57.0   0.8    4.4e-15   56.4   0.8    1.3  1  YkuD      L,D-transpeptidase catalytic domain


Domain annotation for each model (and alignments):
>> YkuD  L,D-transpeptidase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.4   0.8   2.4e-19   4.4e-15       4     134 ..      79     184 ..      77     198 .. 0.76

  Alignments for each domain:
  == domain 1  score: 56.4 bits;  conditional E-value: 2.4e-19
                              EEEETTTTEEEEEEETTEEEEEEE-BEBTTS.TTSE---EEEEECEEEEEEE..EEGGGGT--TTSTT.EEEEEEEECCCTTCECC CS
                     YkuD   4 ivvdlaeqrllvlyengklvlsfpvsvGgkkegdreTPlGtfrikskvrnptwnvppsiarkeiypklrkdpeyldkknskvalgk 89 
                                vd+++qr  +ly ng+l +++++s+G   + + +TP +   +++ v++ +          ++yp++ +             lg+
  PHY93_20150|PHY93_20150  79 ADVDKSAQRV-YLYINGSLSYTWKTSTG---KAGYRTPDMDRHPSGPVYDRY--------TSSKYPDGDY-----------NGLGN 141
                              579****776.99***************...669***********6666666........3333433332...........15899 PP

                              CCEEE-STTS-EEEE.ETCSS...CT.HHC.BSSSEEE-HHHHHHH CS
                     YkuD  90 vkfvfpngsgiyiHgtgapdlfergk.garrShGCirlseedakel 134
                              ++++   ++g++iHgt +  +f  gk g+++ShGCirl++++  ++
  PHY93_20150|PHY93_20150 142 MPYAVFVKGGYAIHGTTSG-NF--GKlGTPASHGCIRLHPDNGYTF 184
                              **************77444.44..4469**********86655444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (199 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       640  (0.0356964); expected 358.6 (0.02)
Passed bias filter:                      590  (0.0329076); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.20s 00:00:00.63 Elapsed: 00:00:00.35
# Mc/sec: 1683.22
//
Query:       PHY93_20155|PHY93_20155  [L=810]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   8.6e-117  390.1   0.0   1.3e-116  389.5   0.0    1.3  1  PPDK_N           Pyruvate phosphate dikinase, PEP/pyruvate bi
    7.2e-60  202.6   0.0    1.2e-59  201.9   0.0    1.2  1  PEP-utilizers_C  PEP-utilising enzyme, TIM barrel domain
    2.8e-25   87.8   0.1    6.5e-25   86.7   0.1    1.7  1  PEP-utilizers    PEP-utilising enzyme, mobile domain


Domain annotation for each model (and alignments):
>> PPDK_N  Pyruvate phosphate dikinase, PEP/pyruvate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  389.5   0.0  2.2e-120  1.3e-116       3     320 ..      20     351 ..      18     358 .. 0.97

  Alignments for each domain:
  == domain 1  score: 389.5 bits;  conditional E-value: 2.2e-120
                   PPDK_N   3 lvGGKganLael...lneagipvPpgfaitadafrefleengleekideelkeldvddvdelrkaskeirelilsaelPeeleeai 85 
                              +vGGK+a+L+e+   l  +gi++P+gfaita+ + +fl++n+le+ i +++++ld+++vd+lr+++k+ir+++l+a++P++l+++i
  PHY93_20155|PHY93_20155  20 TVGGKNASLGEMfqnLIPKGIRIPNGFAITAEGYFHFLKANKLEDVILDAMSSLDTQNVDSLRERGKKIRQYFLDAKIPDDLRSEI 105
                              79**********87766699****************************************************************** PP

                   PPDK_N  86 keayeelgkkfgdeelpvaVRSSataEDlpkasfaGqqdtyLnvggeeevleaikavfaSlfnerAilYrkekgldheevalavvv 171
                               +ay +lg+ + + + +vaVRSSataEDlp+asfaGqq+tyLnv+g++++l+++ ++faSlf++rAi+Yr++kg+dh +v+l+++v
  PHY93_20155|PHY93_20155 106 VSAYHQLGN-ARSVPMDVAVRSSATAEDLPDASFAGQQETYLNVQGDQALLDSCLRCFASLFTDRAISYRHDKGFDHMKVGLSIGV 190
                              *******97.77779*********************************************************************** PP

                   PPDK_N 172 qkmvnsdlgasGVafsldpetGfkdevlinasyGlGeaVVaGrvtpdefvvekstrk.....ilekkigekeikivydekeeg.tk 251
                              q+mv+sdl+asGV+fs+d+etGf+d+v+in+syGlGe++V+G v+pde++v+k t k     il+k++g+ke k+vyd  +++ +k
  PHY93_20155|PHY93_20155 191 QQMVRSDLAASGVMFSIDTETGFRDAVVINSSYGLGENIVQGSVNPDEYYVFKTTLKsglkpILQKHLGNKEFKLVYDLGGSKmVK 276
                              *********************************************************************************999** PP

                   PPDK_N 252 evevpeeereklaLsdeeveeLaeiakkiekhyg......tpmdiEfaideeegklyllQaRpetrtsekkekka 320
                              +++v +++r+++++sde+v +La++a  ie++y+       pmd+E+a+d+++g+l+++QaRpet++s+k + ka
  PHY93_20155|PHY93_20155 277 NIPVANDDRTRFSISDEDVLTLAKWACGIEDYYSkkkghhLPMDMEWAKDGRSGELFIVQARPETVQSQKDNLKA 351
                              **********************************9999999****************************987665 PP

>> PEP-utilizers_C  PEP-utilising enzyme, TIM barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  201.9   0.0     2e-63   1.2e-59      19     292 ..     490     798 ..     478     800 .. 0.88

  Alignments for each domain:
  == domain 1  score: 201.9 bits;  conditional E-value: 2e-63
                              BCEEEEEESSCHHHHHHHHCTXSSEEEEEHHHHCTTSCC..HHHHHH..............................HHHHHHHHH CS
          PEP-utilizers_C  19 kikvlaNidtpedaekalengaeGiGLlRtEflfmaree..lpteee..............................qaeaykkvl 72 
                              k+k+++N+++p++a +    +  G+GL R Ef++ ++ +  + ++ +                              +a+   k++
  PHY93_20155|PHY93_20155 490 KTKIMLNVGNPDEAFRLSFLPNSGVGLARMEFIISNSIKihPLALLKfdslkdenvkkqieqltlgynnkteffvdkLAQGVSKIA 575
                              899*********************************96633444455999************************************ PP

                              HHTTTSEEEEEXXXSSCCGGSGGC...HHHH.XSXGGGSSXTHHHHCCS..HHHHHHHHHHHHHHCCCC...EEEEEESSXXSHHH CS
          PEP-utilizers_C  73 eamngrpvvvRtlDiggdkelpel...keepeevNPmlGfRgirlglse..pelfetqlrAllrasaag...kleimlPmvasvee 150
                              +a+ ++ v+vR+ D+++++  + +     ep+e+NPmlGfRg +++ +    e f  + rA++++++++   ++ +m+P+ ++++e
  PHY93_20155|PHY93_20155 576 AAFFPKDVIVRMSDFKTNEYADLVggkPFEPHEENPMLGFRGASRYYDPkyLEGFALECRAMKKVREEMgltNVLLMIPFCRTLDE 661
                              ******************6544433334579****************9833566*************7656699999999999887 PP

                              HHHHHHHHHHH.HHHHHHCTCTXXTTXEEEEEEXSHHHHHTHHHHCTTSSEEEEXHHHHHHHHHTXXCCCHCHHHHSXTTTCHHCC CS
          PEP-utilizers_C 151 leeakkiieev.keelekegvkkkkkvkvGiMiEvpsaalladklakevdFfSiGtNDLtQytlavdRdneevaklydplepavlr 235
                               +   k+i+e+ k+ l++     ++++ v +M E+ps ++la+++    d+fSiG+NDLtQ++l+vdRd+e va+++d+ + av +
  PHY93_20155|PHY93_20155 662 GR---KVIAEMeKNGLKR----GENGLLVYVMCEIPSNVILAEEFSDIFDGFSIGSNDLTQLVLGVDRDSEIVAHVFDERNEAVEK 740
                              54...4555440334443....37899*********************************************************** PP

                              CHHHHHHHHHHCCXEEEEESCCCC.SCCCHHHHHHCTXSEEEEXGGGHHHHHHHHHCT CS
          PEP-utilizers_C 236 likevikaaeekglkvgiCGelag.dpsavellvglGldelSmsaasvpaaraalaqv 292
                              +i++vi+ a++kg k+giCG++++ +p+ +++lv+  +d++S++++ v ++ + + ++
  PHY93_20155|PHY93_20155 741 MISMVIRSAHSKGRKIGICGQAPSdYPEFARFLVENKIDSISLNPDVVVKTTKDILNI 798
                              ************************77*********************99988777665 PP

>> PEP-utilizers  PEP-utilising enzyme, mobile domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.7   0.1   1.1e-28   6.5e-25       4      73 .]     395     464 ..     392     464 .. 0.97

  Alignments for each domain:
  == domain 1  score: 86.7 bits;  conditional E-value: 1.1e-28
                              S-EEEEES---HHHHTTS-GEEEEEES--TTHHHHHHHHHHTT--EEE--SSHH.HH--TEEEEEETTTT CS
            PEP-utilizers   4 egvILvaeetspsdiagldkaaGivterGGmtSHaAivArelgiPaVvgvgeatielkegdlitvDgstG 73 
                              +g+ILv+++t+p++ +++++a++i+t+rGG+t+HaAiv+relg+Pa+vg+++at++lk+g+++tv +++G
  PHY93_20155|PHY93_20155 395 QGEILVTDKTDPDWEPAMKRASAIITNRGGRTCHAAIVSRELGLPAIVGTQNATETLKSGQMVTVSCAEG 464
                              689****************************************************************998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (810 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       522  (0.0291148); expected 358.6 (0.02)
Passed bias filter:                      490  (0.02733); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.65u 0.24s 00:00:00.89 Elapsed: 00:00:00.38
# Mc/sec: 6458.40
//
Query:       PHY93_20160|PHY93_20160  [L=190]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (190 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       741  (0.0413297); expected 358.6 (0.02)
Passed bias filter:                      425  (0.0237046); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.19s 00:00:00.58 Elapsed: 00:00:00.33
# Mc/sec: 1719.60
//
Query:       PHY93_20165|PHY93_20165  [L=313]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
     0.0098   16.1   0.0      0.018   15.3   0.0    1.4  1  Acetyltransf_1  Acetyltransferase (GNAT) family
  ------ inclusion threshold ------
      0.028   14.3   0.1       0.24   11.3   0.1    2.3  2  CBM39           Carbohydrate binding domain (family 32)


Domain annotation for each model (and alignments):
>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0     2e-06     0.018      14      87 ..     202     273 ..     181     299 .. 0.69

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 2e-06
                              HHHHHHHHHHHHHHHHSTTCEEEE.EEETTEEEEEEEEEEEET.TSTTEEEEEEEEESGGGTTSSHHHHHHHHHHH CS
           Acetyltransf_1  14 ppnedaseeefeesfsleaegllv.aeedgeliGfisllkipd.ekggvayieslaVspeyrgkGlGsaLlealee 87 
                               + +++s+e   +s     +gll+ ++ +g+ +G i +++ +    ++v+++e+l   +++rgkGlG  L +a + 
  PHY93_20165|PHY93_20165 202 SEVKTESLESLNDS---AKDGLLFkVQINGKCAGVIAGYIEDYyGQKEVCILEEL-LFESFRGKGLGVYLQKAFAI 273
                              33444455555555...44588889******************644555555555.5799*******999666554 PP

>> CBM39  Carbohydrate binding domain (family 32)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.1   2.7e-05      0.24       5      34 ..     121     150 ..     101     159 .. 0.90
   2 ?   -0.2   0.0       0.1     9e+02       6      27 ..     254     275 ..     250     281 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 2.7e-05
                    CBM39   5 vnvevlepkGlrvsipdepgiklFafelni 34 
                               ++e+++pk + v++p+ +gi++ +f++ +
  PHY93_20165|PHY93_20165 121 KEFEIFSPKSFNVTYPQGQGISTHDFQIDR 150
                              68*********************9999876 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.1
                    CBM39   6 nvevlepkGlrvsipdepgikl 27 
                               +e ++ kGl v+ ++   ik+
  PHY93_20165|PHY93_20165 254 LFESFRGKGLGVYLQKAFAIKM 275
                              5999*********998877776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (313 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       482  (0.0268838); expected 358.6 (0.02)
Passed bias filter:                      410  (0.022868); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.39
# Mc/sec: 2408.06
//
Query:       PHY93_12525|PHY93_12525  [L=693]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
      0.074   13.1   1.5       0.19   11.8   1.3    1.8  2  CagE_TrbE_VirB  CagE, TrbE, VirB family, component of type IV


Domain annotation for each model (and alignments):
>> CagE_TrbE_VirB  CagE, TrbE, VirB family, component of type IV transporter system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   1.3   1.1e-05      0.19      17     151 ..     236     383 ..     224     385 .. 0.87
   2 ?   -3.7   0.0      0.59   1.1e+04      17      49 ..     612     643 ..     608     651 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 1.1e-05
           CagE_TrbE_VirB  17 leflnflinGenepvklpsgsmlldeliat.....skvpfgkdk.......fiirtakdekfasilsikeY..peetrsslldsll 88 
                              l+f ++ +n +++++ + s   +l ++i       +++p+  ++         ++ + ++++ + +++ ++  ++ + + ll s +
  PHY93_12525|PHY93_12525 236 LSFFALSLNKNEKKFDPESATNSLNASIDRintklERIPIVAEQglfsdsvNLVNKETKKQYDRYVDLYAEevSKDSGPLLLTSAM 321
                              889999999555599999999999999998888897888777778888877778888889*******987778999999******* PP

           CagE_TrbE_VirB  89 sldieliitesfskiskqkalsklkkkqsrllsiedkaksqiteledlidevasgdvalGayh 151
                              + +   i+ ++++ + k+k    +k ++++   ++d++k+ i+e+ ++i+  a + + l + +
  PHY93_12525|PHY93_12525 322 KKKAGPIKSFNTDDVDKDKKSHDFK-FTKHNHVSSDDVKKSIDEAREKIQSQADSAIDLTYKK 383
                              *************************.*************************999999887765 PP

  == domain 2  score: -3.7 bits;  conditional E-value: 0.59
           CagE_TrbE_VirB  17 leflnflin.Genepvklpsgsmlldeliatskv 49 
                                fl +l+  Gen   k+  +  l d+ i+t+k+
  PHY93_12525|PHY93_12525 612 SHFLVLLVKgGENLLTKFLGC--LRDSTIPTAKI 643
                              579999999888889999999..88999998543 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (693 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       892  (0.0497518); expected 358.6 (0.02)
Passed bias filter:                      401  (0.022366); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.61u 0.23s 00:00:00.84 Elapsed: 00:00:00.39
# Mc/sec: 5351.08
//
Query:       PHY93_05810|PHY93_05810  [L=442]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    4.6e-39  133.9   0.0    6.1e-39  133.5   0.0    1.0  1  DDE_Tnp_1_4  Transposase DDE domain group 1
    6.7e-19   68.4   0.1    1.1e-18   67.7   0.1    1.3  1  DDE_Tnp_1    Transposase DDE domain
    0.00022   21.4   0.1    0.00049   20.3   0.1    1.6  1  DDE_Tnp_1_6  Transposase DDE domain


Domain annotation for each model (and alignments):
>> DDE_Tnp_1_4  Transposase DDE domain group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  133.5   0.0     1e-42   6.1e-39      15     417 ..      12     414 ..       3     426 .. 0.87

  Alignments for each domain:
  == domain 1  score: 133.5 bits;  conditional E-value: 1e-42
              DDE_Tnp_1_4  15 GgrlsSdaGllLlreldkklgltrrlaaalkdkrkpslveHslekllrqrvyalalGyedlndadkLradpalklalgkkealASq 100
                               +++sS aGl +   l +++++ + + ++l +k+++  v Hs  + +  ++++ ++G+e+l+d d   +dp+++  +    +  S 
  PHY93_05810|PHY93_05810  12 AKSISSFAGLKIYDDLIHRFEIRKFFGNFLPKKKRA--VGHSSWNKFYTLIMGFIAGFECLDDFDFHGQDPLFSKLT----NSPSS 91 
                              578**************************9988877..***********************************5555....57899 PP

              DDE_Tnp_1_4 101 ptlsRlentlaeealkalrelekalvdkflesyekapkeivlDlDstldpvhGeqegaafnayykeygyhPLvvFdgltgellaal 186
                               tl ++++ ++++++++++el  + + k+  + + + k+i++ +D+++   hG + +    +y+k  +    ++F + +g     +
  PHY93_05810|PHY93_05810  92 TTLGKFLKVFTQRDVEQIQELLPKHAFKMRMNLTPNLKKITMKIDASDHLQHGLKTEGVTFGYKKFPCLSSQMIF-DDKGFCYGFK 176
                              *****************99999999999999999*********************9999999*************.789999**** PP

              DDE_Tnp_1_4 187 LRpgnvdsskeaveaLarlvkrirerwpetkilvRgDSafarpellkwceergvdYviglakns...rlealiaelvekakteaae 269
                              LR+gn++s  +  e+L + ++ i ++ +    l+ +DSa+++ e++++c +++++++i l++n+    l+++  +l+ k  t +  
  PHY93_05810|PHY93_05810 177 LRSGNTHSVVDGPEMLYKALSVIPKDCK---KLLLADSAYSSMEMYNTCLNQDCNFIICLKENTwapILKNNHGHLKWKKTTLQFF 259
                              ********99999999999988877655...4789****************************83334555555555555554444 PP

              DDE_Tnp_1_4 270 kkekereyrefayqaes...WskerrVv...akaerpaeglnlrfv....vTsla..klspeelyeqlYcaRGemEnrIKeakldl 343
                              ++ k+ ++++  y  +     +k  rV+   +k   p++g ++ +     vT++   ++++e++  + Y++R ++En IK+ k+++
  PHY93_05810|PHY93_05810 260 ES-KKCQTASALYYPKGlagGKKCLRVIyirTKNLSPKKGDKHAYHyyavVTDIGesEMNNEKIL-KNYRKRSQVENNIKDLKNGM 343
                              43.46666666666664566888899994334677788999985433345****9999*******.99****************** PP

              DDE_Tnp_1_4 344 aadrtsshsfaaNqlrlllsalAynLlaalrelalaktelakaevktlrlkLlkiaarvvrsarrirlklassc 417
                              ++ ++++ +++aN+++ +   +AynL+       ++ +  +   +kt r k++ ia++++++ar+i ++l +++
  PHY93_05810|PHY93_05810 344 DFHHFPTGKLKANNVWGVAGIIAYNLMRYTS---FQVAGERGCFLKTTRRKIILIAGEIITHARSIEIRLMNYI 414
                              **************************87665...6666799****************************98764 PP

>> DDE_Tnp_1  Transposase DDE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.7   0.1   1.8e-22   1.1e-18      27     214 .]     154     369 ..     129     369 .. 0.93

  Alignments for each domain:
  == domain 1  score: 67.7 bits;  conditional E-value: 1.8e-22
                DDE_Tnp_1  27 ykggkykygyklhiavdtrsglilsvvitpgnvhdskglkqlldelrpr....kgklvlaDaGYasaelldtleekgvdyiirlkk 108
                              y   k+++++  ++++d++ g+ +++++ +gn+h +  ++++l  +        +kl+laD++Y+s e + t+  + +++ii lk 
  PHY93_05810|PHY93_05810 154 Y---KKFPCLSSQMIFDDK-GFCYGFKLRSGNTHSVVDGPEMLYKALSVipkdCKKLLLADSAYSSMEMYNTCLNQDCNFIICLKE 235
                              3...489999*********.9********************777777777999*******************************99 PP

                DDE_Tnp_1 109 ntklyrkgaeskrrgrlrkhdrnkiltksqkrrnk.................................skkekgdvyyvtntnsel 161
                              nt     +a+ +++++ + ++++ +l   ++++                                   +k++++++ +vt + +++
  PHY93_05810|PHY93_05810 236 NT-----WAPILKNNHGHLKWKKTTLQFFESKKCQtasalyypkglaggkkclrviyirtknlspkkgDKHAYHYYAVVTDIGESE 316
                              99.....99999************************************************************************** PP

                DDE_Tnp_1 162 lsaeevaelyrlRwqiErvFkwlkrkfgldrlryrglnrveaqllllllalnl 214
                              +  e++   yr+R+q+E+++k+lk+ + ++++ + +l ++  + ++ ++a+nl
  PHY93_05810|PHY93_05810 317 MNNEKILKNYRKRSQVENNIKDLKNGMDFHHFPTGKLKANNVWGVAGIIAYNL 369
                              ****************************************************8 PP

>> DDE_Tnp_1_6  Transposase DDE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.3   0.1   8.2e-08   0.00049      61     124 ..     310     372 ..     280     373 .. 0.87

  Alignments for each domain:
  == domain 1  score: 20.3 bits;  conditional E-value: 8.2e-08
              DDE_Tnp_1_6  61 aekarerikseegkaeykkRaitvEgvfaqikrnlglrrfrlrGlkkvklqfllvalalNlkkl 124
                              ++  + +++ e+  + y+kR+ +vE  + ++k+ + +  f++  lk ++++ +  ++a+Nl ++
  PHY93_05810|PHY93_05810 310 TDIGESEMNNEKILKNYRKRS-QVENNIKDLKNGMDFHHFPTGKLKANNVWGVAGIIAYNLMRY 372
                              4555677999**********9.***************************************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (442 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       503  (0.0280551); expected 358.6 (0.02)
Passed bias filter:                      363  (0.0202465); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.41
# Mc/sec: 3246.71
//
Query:       PHY93_12530|PHY93_12530  [L=131]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (131 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       541  (0.0301746); expected 358.6 (0.02)
Passed bias filter:                      453  (0.0252663); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.20s 00:00:00.59 Elapsed: 00:00:00.35
# Mc/sec: 1108.65
//
Query:       PHY93_12535|PHY93_12535  [L=305]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (305 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       674  (0.0375927); expected 358.6 (0.02)
Passed bias filter:                      491  (0.0273858); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.39
# Mc/sec: 2353.45
//
Query:       PHY93_12540|PHY93_12540  [L=710]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    6.5e-62  209.5  26.7      1e-61  208.8  26.7    1.3  1  Sulfate_transp  Sulfate permease family
      7e-11   41.4  13.8    0.00056   19.5   4.0    4.4  4  Hexapep         Bacterial transferase hexapeptide (six repeat
    9.6e-07   28.5  16.1     0.0047   16.7   0.1    5.6  5  Hexapep_2       Hexapeptide repeat of succinyl-transferase
     0.0047   17.3   2.6     0.0047   17.3   2.6    3.8  3  MFS_MOT1        Molybdate transporter of MFS superfamily
     0.0055   15.7   0.0      0.012   14.6   0.0    1.5  1  Fucokinase      L-fucokinase
  ------ inclusion threshold ------
       0.12   13.1   1.1       0.81   10.4   0.2    2.9  3  DUF1691         Protein of unknown function (DUF1691)


Domain annotation for each model (and alignments):
>> Sulfate_transp  Sulfate permease family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  208.8  26.7   3.4e-65     1e-61       3     378 ..      65     418 ..      63     422 .. 0.91

  Alignments for each domain:
  == domain 1  score: 208.8 bits;  conditional E-value: 3.4e-65
           Sulfate_transp   3 gDliaGitvallaiPqalayallaglppiygLyssvvpqlvyalfGtsrqlavGpvavlslivgeiiakvaeeepekgieiattlt 88 
                              +++iaG tva++a+P+ la+a+++glpp +gL +  +++ v+a+fG+   +++Gp a+lsl+v  i+++        g   a+ ++
  PHY93_12540|PHY93_12540  65 QEFIAGTTVAAVALPLNLALAVASGLPPSVGLLAGAIGGGVAAIFGGASLQVSGPAAALSLMVFGIVKDF-------GATGAAGAA 143
                              678*******************************************************************.......99999**** PP

           Sulfate_transp  89 llaGviqvllGllRLgflveflseavlsGfiaGaaivillsqikvllglervskkeslvsvlsslftnlekvnlakvvlgllllvv 174
                              l++G+iq++l l   g+l++f++ea+l+Gf++G+++ +l +qi +l+g++   k+ +l + ls  +  l++v+++++  gl++ ++
  PHY93_12540|PHY93_12540 144 LIVGIIQIILALAMAGKLIRFVPEAILAGFMSGIGLKLLDNQIPELFGVN--YKVVELAQ-LSLKPLWLHEVSWLAAFCGLFVAFL 226
                              *************************************************9..33333333.333334468899*********9999 PP

           Sulfate_transp 175 Llvtkellkklkkllvipapaelvavivatlvsaifelkreagvkivgeipsglpelslpkvdwsllsallpdalaialvglleai 260
                              +++++++          ++pa l+ +++  ++s+++      ++k vg ++s lp+l++p++  ++ s+l++ ++ ial+g++e++
  PHY93_12540|PHY93_12540 227 IITGQKY---------KRFPAGLAGIVIVSVLSVYL----GWDIKRVGVLDSVLPHLNFPNFGADQWSNLIIRCIPIALLGSAESL 299
                              9999996.........45788888888888888887....2345559999************************************ PP

           Sulfate_transp 261 avsksldk..kkgykvdsnkELvAlGfsNilsslfgglpatgafsrsavnikaGaktqlsglvsalvvllvllvltplleyiPkav 344
                              ++s+++d+  k + ++dsn EL+++G++N++s+lf+g+p+tg+++rs vni+aG+k+++s++v+++++ll  ++++  ++ iP a 
  PHY93_12540|PHY93_12540 300 LASSAIDRiiKAKKSHDSNLELIGQGLANTVSGLFSGMPVTGVIVRSSVNIQAGGKSKISSIVHSVILLLSFIFIADKIAIIPLAG 385
                              ********7667889*********************************************************************** PP

           Sulfate_transp 345 LaaiiivagkglLvelkelkklwklskldflill 378
                              La+++ v+g++ Lv+++ lk+l k sk+ +l ++
  PHY93_12540|PHY93_12540 386 LAGLLCVVGIR-LVDIEGLKHLYKESKILTLAFF 418
                              ***********.***********98888666655 PP

>> Hexapep  Bacterial transferase hexapeptide (six repeats)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.2   4.4e-07    0.0013       7      35 ..     508     536 ..     502     537 .. 0.90
   2 !    6.9   0.0    0.0019       5.6      21      35 ..     544     558 ..     538     559 .. 0.81
   3 ?    0.2   0.0      0.24   7.3e+02      20      36 .]     574     590 ..     573     590 .. 0.82
   4 !   19.5   4.0   1.9e-07   0.00056       2      32 ..     592     621 ..     591     625 .. 0.86

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 4.4e-07
                              TEEE-TTEEEETTEEE-TTEEEETTEEEE CS
                  Hexapep   7 nvlIgpfaviggnVkIGdnvkIgagvvig 35 
                               ++I++ a + g V++G+nv+I+ag+ ++
  PHY93_12540|PHY93_12540 508 SAFIHSQASVIGKVILGKNVHIAAGASVR 536
                              689**********************9886 PP

  == domain 2  score: 6.9 bits;  conditional E-value: 0.0019
                              EE-TTEEEETTEEEE CS
                  Hexapep  21 kIGdnvkIgagvvig 35 
                               IG+++ I  gvvi+
  PHY93_12540|PHY93_12540 544 YIGNDSNIQDGVVIH 558
                              689999999999986 PP

  == domain 3  score: 0.2 bits;  conditional E-value: 0.24
                              EEE-TTEEEETTEEEES CS
                  Hexapep  20 VkIGdnvkIgagvvigg 36 
                              V +G+nv  ++ + i+g
  PHY93_12540|PHY93_12540 574 VYVGKNVSMAHQALIHG 590
                              78999999999888875 PP

  == domain 4  score: 19.5 bits;  conditional E-value: 1.9e-07
                              EEEETTEEE-TTEEEETTEEE-TTEEEETTE CS
                  Hexapep   2 tvIGsnvlIgpfaviggnVkIGdnvkIgagv 32 
                              +++G+n++Ig  av+ ++ ++G+n++Ig g+
  PHY93_12540|PHY93_12540 592 CFVGDNTFIGFKAVV-HDSVVGPNCYIGIGA 621
                              9*********88888.9999*******9665 PP

>> Hexapep_2  Hexapeptide repeat of succinyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.1      0.14   4.3e+02      11      29 ..     332     353 ..     327     353 .. 0.81
   2 !   16.7   0.1   1.6e-06    0.0047       8      32 ..     509     535 ..     507     537 .. 0.87
   3 ?    1.0   0.0      0.12   3.7e+02      20      33 ..     545     558 ..     540     559 .. 0.83
   4 !    5.0   0.1    0.0069        21       4      16 ..     594     606 ..     591     611 .. 0.84
   5 !   10.6   2.4   0.00012      0.36       4      33 ..     611     641 ..     607     642 .. 0.89

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.14
                              -TT-EE...SEEE-TT-EE-TT CS
                Hexapep_2  11 Ganagi...GvslGdncvvgaG 29 
                              G ++g+   Gv+++  + ++aG
  PHY93_12540|PHY93_12540 332 GLFSGMpvtGVIVRSSVNIQAG 353
                              899995557*****99999998 PP

  == domain 2  score: 16.7 bits;  conditional E-value: 1.6e-06
                              -EE-TT.-EES.EEE-TT-EE-TT-EE CS
                Hexapep_2   8 CliGan.agiG.vslGdncvvgaGvvi 32 
                               +i++  ++iG v+lG+n++++aG  +
  PHY93_12540|PHY93_12540 509 AFIHSQaSVIGkVILGKNVHIAAGASV 535
                              59****5558**************887 PP

  == domain 3  score: 1.0 bits;  conditional E-value: 0.12
                              E-TT-EE-TT-EE- CS
                Hexapep_2  20 lGdncvvgaGvvit 33 
                              +G+++ ++ Gvvi 
  PHY93_12540|PHY93_12540 545 IGNDSNIQDGVVIH 558
                              89999999999995 PP

  == domain 4  score: 5.0 bits;  conditional E-value: 0.0069
                              E-TT-EE-TT-EE CS
                Hexapep_2   4 IGdnCliGanagi 16 
                              +Gdn++iG  a++
  PHY93_12540|PHY93_12540 594 VGDNTFIGFKAVV 606
                              8*******99886 PP

  == domain 5  score: 10.6 bits;  conditional E-value: 0.00012
                              E-TT-EE-TT-EE.SEEE-TT-EE-TT-EE- CS
                Hexapep_2   4 IGdnCliGanagi.GvslGdncvvgaGvvit 33 
                              +G nC iG  a++ Gv++ ++ +v +G vi+
  PHY93_12540|PHY93_12540 611 VGPNCYIGIGAIVvGVEIPEGKHVPNGMVID 641
                              7999*******955*******9999999997 PP

>> MFS_MOT1  Molybdate transporter of MFS superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0  19.5      0.18   5.4e+02      15     111 .]      78     181 ..      62     181 .. 0.66
   2 ?   -2.9   0.5       3.1   9.1e+03      77     105 ..     218     246 ..     212     251 .. 0.64
   3 !   17.3   2.6   1.6e-06    0.0047      33     111 .]     321     397 ..     288     397 .. 0.78

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.18
                 MFS_MOT1  15 lnlvialaalaslsltalllsvG....lmnlltglfggvPmc..hgAgglaaqyrf.......gartgaagillGlvllllgltgl 87 
                              l+l +ala+ ++l ++  ll  +    ++ +++g   +v  +  + + ++     f       +   ++a++++G++ ++l+l  +
  PHY93_12540|PHY93_12540  78 LPLNLALAVASGLPPSVGLLAGAigggVAAIFGGASLQVSGPaaALSLMV-----FgivkdfgATGAAGAALIVGIIQIILALA-M 157
                              66667777766544443333333111255555555555544433333333.....23444454455667889**********99.5 PP

                 MFS_MOT1  88 lerllrliPksvlgglllgaGleL 111
                                +l r++P+++l g + g Gl+L
  PHY93_12540|PHY93_12540 158 AGKLIRFVPEAILAGFMSGIGLKL 181
                              99*******************997 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 3.1
                 MFS_MOT1  77 lvllllgltgllerllrliPksvlgglll 105
                               + l+++++ +  +  + +P  + g++++
  PHY93_12540|PHY93_12540 218 FCGLFVAFLIITGQKYKRFPAGLAGIVIV 246
                              44455555556677888888877776655 PP

  == domain 3  score: 17.3 bits;  conditional E-value: 1.6e-06
                 MFS_MOT1  33 llsvGlmnlltglfggvPmc...hgAgglaaqyrfgartgaagillGlvllllgltgllerllrliPksvlgglllgaGleL 111
                              l+  Gl+n ++glf g+P+      +++ +     g ++  + i+ +++l ll++++ + +  ++iP + l gll+++G++L
  PHY93_12540|PHY93_12540 321 LIGQGLANTVSGLFSGMPVTgviVRSSVNIQ---AGGKSKISSIVHSVIL-LLSFIF-IADKIAIIPLAGLAGLLCVVGIRL 397
                              6778***************976444444444...5999999999888765.567776.566678***************987 PP

>> Fucokinase  L-fucokinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.6   0.0     4e-06     0.012     272     333 ..     584     643 ..     539     652 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 4e-06
               Fucokinase 272 esavvi.nSvlessvsvgegsviehsslkgnvsigsnsivsglelesseeslelpddtilqtl 333
                              ++a+++  +++  +  +g ++v+ +s +++n+ ig + iv+g+e+ ++++   +p+ +++ +l
  PHY93_12540|PHY93_12540 584 HQALIHgPCFVGDNTFIGFKAVVHDSVVGPNCYIGIGAIVVGVEIPEGKH---VPNGMVIDSL 643
                              334443136777788888899999***********************987...*****99877 PP

>> DUF1691  Protein of unknown function (DUF1691)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.2   0.00027      0.81      23      78 ..     398     452 ..     390     467 .. 0.78
   2 ?   -3.2   0.0       4.6   1.4e+04      13      37 ..     541     564 ..     539     573 .. 0.79
   3 ?   -2.9   0.0       3.9   1.2e+04      13      31 ..     590     608 ..     582     624 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00027
                  DUF1691  23 vgllyvahglarspplslleyaaLvgsgvlHivsGlakwlgllrilkkikkkkrrr 78 
                              v++  ++h  ++s +l l+ ++ ++g++++H++ Gl+   g++ ++++   kk++ 
  PHY93_12540|PHY93_12540 398 VDIEGLKHLYKESKILTLAFFISMIGTVTGHLMLGLI-TAGVIFFIRHQLTKKKKE 452
                              57777899999999***********************.888887777774344444 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 4.6
                  DUF1691  13 vPllvgdsskvgllyvahglarspp 37 
                              +P + g++s+++ ++v h+l+ + +
  PHY93_12540|PHY93_12540 541 TPFYIGNDSNIQDGVVIHALK-EKW 564
                              688889999999999999994.444 PP

  == domain 3  score: -2.9 bits;  conditional E-value: 3.9
                  DUF1691  13 vPllvgdsskvgllyvahg 31 
                               P  vgd++ +g+  v+h 
  PHY93_12540|PHY93_12540 590 GPCFVGDNTFIGFKAVVHD 608
                              5888999999999999996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (710 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       984  (0.0548832); expected 358.6 (0.02)
Passed bias filter:                      483  (0.0269396); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.68u 0.28s 00:00:00.96 Elapsed: 00:00:00.41
# Mc/sec: 5136.96
//
Query:       PHY93_12545|PHY93_12545  [L=281]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.6e-15   56.9   0.0    3.9e-15   56.3   0.0    1.2  1  Band_7    SPFH domain / Band 7 family
  ------ inclusion threshold ------
      0.091   12.5   0.0       0.16   11.7   0.0    1.4  1  Band_7_1  SPFH domain-Band 7 family


Domain annotation for each model (and alignments):
>> Band_7  SPFH domain / Band 7 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.3   0.0   4.4e-19   3.9e-15       2     176 ..      28     218 ..      27     219 .. 0.90

  Alignments for each domain:
  == domain 1  score: 56.3 bits;  conditional E-value: 4.4e-19
                   Band_7   2 iieegevgvvvrfGklsr.......vlepGlhfilPfgrsvtvvsvrvqtldvsv..sltvptkDglpvtidvtviy..rvpddap 76 
                              ++eeg+vg+++ fGk +         +  G h+++P+g  ++++s+  q++d  +    +++  Dg ++++++ ++y  ++ +++ 
  PHY93_12545|PHY93_12545  28 TVEEGHVGIITYFGKAELdseeklkLYFSGAHLKWPWG-NIYRISTMEQVFDLHDddGKSALAYDGTVLRLEAKLRYqaNI-ENIY 111
                              89********99***99999****************55.67889999999999999988999***************5566.**** PP

                   Band_7  77 klvaaveresanldnlirrvlesalrevisemtleell..........snreelaeelknelneqlr.kyGvevldvritdidppp 151
                               +++++    +n+ + i+ ++ s l  +i++++++e +          ++r  l+++l + + e+l+ +yG+e++++++ di pp+
  PHY93_12545|PHY93_12545 112 DYFFTL----KNPIDHIKGLFTSLLSYQIASFKGDEKNavvssyasirKERKILNDQLDRFCHENLQgRYGIELQSIDLIDILPPE 193
                              ******....9999999999999999999999998877666666665555***************99459**************** PP

                   Band_7 152 evaqalaakqaaeaeaqaeiaraea 176
                              e++qal+a+  a+ ea+a  +raea
  PHY93_12545|PHY93_12545 194 ELDQALNAVLSADVEAEAMYYRAEA 218
                              ******************9999997 PP

>> Band_7_1  SPFH domain-Band 7 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   1.8e-05      0.16     132     208 ..     123     204 ..     115     207 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 1.8e-05
                 Band_7_1 132 eiseqlkslivtrlsdvlaeskipvldlaa....kseelaeklkealkeel.aeyGlelekleienislpeevekaldkras 208
                              +i+  + sl+  +++++ +++k +v+   a    + + l ++l    +e+l  +yG+el+++ + +i  pee+++al++  s
  PHY93_12545|PHY93_12545 123 HIKGLFTSLLSYQIASFKGDEKNAVVSSYAsirkERKILNDQLDRFCHENLqGRYGIELQSIDLIDILPPEELDQALNAVLS 204
                              566666777777777777777776665444111145568889999999999789***********************97655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (281 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       495  (0.0276089); expected 358.6 (0.02)
Passed bias filter:                      375  (0.0209158); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.24s 00:00:00.72 Elapsed: 00:00:00.42
# Mc/sec: 2013.17
//
Query:       PHY93_12550|PHY93_12550  [L=292]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      2e-19   70.3   0.0    2.9e-19   69.8   0.0    1.2  1  Band_7        SPFH domain / Band 7 family
      0.001   18.9   0.1     0.0024   17.6   0.1    1.6  2  Band_7_1      SPFH domain-Band 7 family
  ------ inclusion threshold ------
       0.57   10.5   4.4       0.92    9.8   0.1    2.7  3  ABC_tran_CTD  ABC transporter C-terminal domain


Domain annotation for each model (and alignments):
>> Band_7  SPFH domain / Band 7 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.8   0.0   4.8e-23   2.9e-19       7     175 ..      33     198 ..      27     201 .. 0.91

  Alignments for each domain:
  == domain 1  score: 69.8 bits;  conditional E-value: 4.8e-23
                   Band_7   7 evgvvvrfGklsr.vlepGlhfilP...fgrsvtvvsvrvqtldvsvsltvptkDglpvtidvtviyrvpddapklvaaveresan 88 
                                 +v+ fGkl + ++epG hf +P    + ++++vs ++ +l  ++ l+v++  g  + id  + y++ +d+ k+ + v    +n
  PHY93_12550|PHY93_12550  33 TEVLVTSFGKLIKkITEPGMHF-YPhflPWVTIINVSKKTDHLHYTN-LQVNDVRGTTLVIDLWLEYKI-EDTVKALFHV----EN 111
                              3344557***9888*****999.7777778888899999********.*********************.**********....** PP

                   Band_7  89 ldnlirrvlesalrevisemtleellsnreelaeelknelneqlrkyGvevldvritdidpppevaqalaakqaaeaeaqaeiara 174
                               ++ ir+++ + + +++s +++  +  +r +l +e+k+el+e l+++G+ +  + i+++++  e+ +++   +aa  e++ ++ ++
  PHY93_12550|PHY93_12550 112 WEESIRSLTINLASSHLSGYDFHAIHTERLKLSQEIKKELQETLERWGINLNVIFIRKVSLTSEISHQMFNTIAAKLEKVKANIEE 197
                              *******************************************************************************6655555 PP

                   Band_7 175 e 175
                              e
  PHY93_12550|PHY93_12550 198 E 198
                              4 PP

>> Band_7_1  SPFH domain-Band 7 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0      0.72   4.3e+03      98     116 ..      34      52 ..      23      54 .. 0.78
   2 !   17.6   0.1     4e-07    0.0024     159     206 ..     136     183 ..      98     188 .. 0.76

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 0.72
                 Band_7_1  98 lvrvrafGtyslrvvdpak 116
                               v v++fG+   ++++p++
  PHY93_12550|PHY93_12550  34 EVLVTSFGKLIKKITEPGM 52 
                              5778999999999988875 PP

  == domain 2  score: 17.6 bits;  conditional E-value: 4e-07
                 Band_7_1 159 laakseelaeklkealkeelaeyGlelekleienislpeevekaldkr 206
                              ++++  +l++++k+ l+e+l++ G++l+ + i+++sl  e+ +++ ++
  PHY93_12550|PHY93_12550 136 IHTERLKLSQEIKKELQETLERWGINLNVIFIRKVSLTSEISHQMFNT 183
                              3456678**********************************9998765 PP

>> ABC_tran_CTD  ABC transporter C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.1   0.00015      0.92      18      64 ..     110     158 ..     107     159 .. 0.83
   2 ?    0.2   0.1      0.15   8.9e+02      43      59 ..     181     197 ..     173     200 .. 0.68
   3 ?    0.8   0.9       0.1     6e+02      19      47 ..     187     218 ..     179     254 .. 0.68

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00015
             ABC_tran_CTD  18 eaLEeeiaeleaeladpely.sdp.eklaelsaeleeleaeLeelyerW 64 
                              e  Ee i +l+  la+  l   d+ +  +e  +  +e+++eL+e +erW
  PHY93_12550|PHY93_12550 110 ENWEESIRSLTINLASSHLSgYDFhAIHTERLKLSQEIKKELQETLERW 158
                              77899999999999998887445566788888889************** PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.15
             ABC_tran_CTD  43 laelsaeleeleaeLee 59 
                              ++ + a+le+++a +ee
  PHY93_12550|PHY93_12550 181 FNTIAAKLEKVKANIEE 197
                              55666667777666665 PP

  == domain 3  score: 0.8 bits;  conditional E-value: 0.1
             ABC_tran_CTD  19 aLEeeiaelea..eladpelysdp.eklaels 47 
                              +LE+ +a++e+  +l  + l +d  +k+ael+
  PHY93_12550|PHY93_12550 187 KLEKVKANIEEegRLKVAILEADTnKKIAELT 218
                              45555555555444443333344445555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (292 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       941  (0.0524848); expected 358.6 (0.02)
Passed bias filter:                      519  (0.0289475); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.20s 00:00:00.68 Elapsed: 00:00:00.37
# Mc/sec: 2374.44
//
Query:       PHY93_12555|PHY93_12555  [L=320]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    5.5e-54  182.6  10.1    5.5e-54  182.6  10.1    1.6  2  TerC       Integral membrane protein TerC family


Domain annotation for each model (and alignments):
>> TerC  Integral membrane protein TerC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.3       0.3   5.4e+03     136     148 ..      17      29 ..       8      58 .. 0.55
   2 !  182.6  10.1   3.1e-58   5.5e-54       1     179 [.      77     279 ..      77     281 .. 0.97

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 0.3
                     TerC 136 tavilsilvlrfl 148
                              +++ l+il+l ++
  PHY93_12555|PHY93_12555  17 ISFTLGILILLLI 29 
                              3333444333333 PP

  == domain 2  score: 182.6 bits;  conditional E-value: 3.1e-58
                     TerC   1 ltlvlleivLsiDNlvviallvkk..lpeeqqkkalllGilgAlvlRillillavallelfdlilligglfLlytavkellekr.. 82 
                              lt++l+e++LsiDNl++i+l++++  +p++ q+++l++G++gA++lR ++il++++ll+ f+++l+i+gl+L++ta+k l+e +  
  PHY93_12555|PHY93_12555  77 LTGYLVEKSLSIDNLFIILLIFSSfrIPDSSQHRVLFYGVIGAIILRGVFILFGAHLLHTFHWVLYIFGLILIITAIKFLRETDek 162
                              589*********************9********************************************************98899 PP

                     TerC  83 ...lenklvkeekkkkkktkst.................llavviqielaDlvfslDSvlaavaitsdlfivitavilsilvlrfl 148
                                 +en  v+  k+  ++t++t                 l+++++ ie++Dlvf++DS++a++++t+d f+ ++++i++il+lr+l
  PHY93_12555|PHY93_12555 163 idvKENWSVRLLKRIIPTTDKTngshffikenglikatpLFLALVVIEVTDLVFAVDSIPAVFSVTRDAFVAFASNIFAILGLRAL 248
                              99544899999999999999999*************************************************************** PP

                     TerC 149 akllakllerfptlkylalalllligvklvl 179
                              +++la+++ r+++lk +++a+l++ig k+++
  PHY93_12555|PHY93_12555 249 YFVLADWVGRLRYLKPGLAAILGFIGAKMLF 279
                              *****************************86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (320 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       845  (0.0471303); expected 358.6 (0.02)
Passed bias filter:                      353  (0.0196888); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.43
# Mc/sec: 2245.81
//
Query:       PHY93_12560|PHY93_12560  [L=149]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
       0.15   12.5   0.4        3.2    8.1   0.0    2.1  2  U3snoRNP10  U3 small nucleolar RNA-associated protein 10


Domain annotation for each model (and alignments):
>> U3snoRNP10  U3 small nucleolar RNA-associated protein 10
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.8   0.1    0.0083   1.5e+02      47      88 ..       2      51 ..       1      78 [. 0.58
   2 ?    8.1   0.0   0.00018       3.2      32      56 ..     105     129 ..     101     140 .. 0.82

  Alignments for each domain:
  == domain 1  score: 2.8 bits;  conditional E-value: 0.0083
                             HHHHHHH--GGGHHHHHHHHHHHH.............HT-SS-S--HHHHHHHTT CS
               U3snoRNP10 47 lesilknlskelaksallcllvla.............qsqsakllpkkvlkallk 88
                             +++i+k+ + +  k++ +++++la             +    +++  +v+++l +
  PHY93_12560|PHY93_12560  2 TKKIIKTPK-TDSKKTNVTIMKLAdmpfktakalkdaE----DQIHLQVWRRLEE 51
                             677888744.4466777889999944444333332222....3355555555544 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.00018
                              HHHTT-S-HHHHHHHHHHHHHH--G CS
               U3snoRNP10  32 LaskvpLsdkvleallesilknlsk 56 
                              La+ +pL ++vl++l++++++++++
  PHY93_12560|PHY93_12560 105 LAVTAPLGETVLTQLVRAMSESFAT 129
                              899*****************99663 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (149 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       564  (0.0314574); expected 358.6 (0.02)
Passed bias filter:                      388  (0.0216409); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.24s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 1136.89
//
Query:       PHY93_12565|PHY93_12565  [L=505]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.1e-17   64.2   0.1    1.3e-14   54.4   0.0    2.6  2  PAS_9        PAS domain
      1e-16   61.4   0.0    2.5e-16   60.2   0.0    1.6  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    4.1e-13   49.4   0.1    1.8e-11   44.1   0.1    2.5  2  PAS_3        PAS fold
    1.9e-11   43.9   0.0    5.9e-09   35.9   0.0    3.1  2  PAS          PAS fold
    1.2e-09   37.9   0.0      0.004   17.2   0.0    3.2  3  PAS_8        PAS domain
    4.6e-09   36.5   0.0    2.4e-05   24.5   0.0    2.4  2  PAS_4        PAS fold
    3.1e-08   33.5   0.2    6.2e-08   32.6   0.2    1.5  1  HisKA        His Kinase A (phospho-acceptor) domain
  ------ inclusion threshold ------
      0.047   13.6   0.3       0.12   12.3   0.0    1.8  2  HATPase_c_5  GHKL domain


Domain annotation for each model (and alignments):
>> PAS_9  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.4   0.0   5.6e-18   1.3e-14       3     104 .]      28     129 ..      26     129 .. 0.96
   2 !    7.2   0.0    0.0027       6.1       3     103 ..     408     504 ..     406     504 .. 0.87

  Alignments for each domain:
  == domain 1  score: 54.4 bits;  conditional E-value: 5.6e-18
                    PAS_9   3 gilidnpdgrilyaNeaalrllGyspeevlgksitdlf..vtdpeanerlraaleqgrkkerevevvlirkngetfwvlltaspvk 86 
                              +++i+n++g+i+y+N++++++  y +ee++g++ + +   +++++  ++l++ + +g+   +++e+ ++ k+g+ +wv  t++p +
  PHY93_12565|PHY93_12565  28 SVAITNTKGEITYVNDKFCEISKYAREELIGQNHRLIKsgHHPDRFFKELWNTISSGQ--IWAGEIKNRAKDGGSYWVFNTITPCF 111
                              57899****************************88888999*****************..************************** PP

                    PAS_9  87 dddgelvgiivilrDite 104
                               +dg+  ++++i  Dite
  PHY93_12565|PHY93_12565 112 HEDGTPSLYVSIRFDITE 129
                              *****************8 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.0027
                    PAS_9   3 gili.dnpdgrilyaNeaalrllGyspeevlgksitdlfvtdpeanerlraaleqgrkkerevevvlirkngetfwvlltaspvkd 87 
                               i+i   p +r +++Nea ++ +G +     g s+++l  + +++   l+a++ +g   +r  +   i  +g+  + + t++p k+
  PHY93_12565|PHY93_12565 408 IIVIlSGPLHRFEFVNEAYIETFGIN---ATGMSVRELGPSWQNNLPILDAVYSSGL--PRKLTGNPIIIDGQFRYLNQTFVPRKN 488
                              5666688999*************965...7899999999888888899999999999..999999999999988898899****** PP

                    PAS_9  88 ddgelvgiivilrDit 103
                              ++g+++gi++i+  +t
  PHY93_12565|PHY93_12565 489 KSGNIIGILSISSEVT 504
                              ******9999887776 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.2   0.0   1.1e-19   2.5e-16       5     111 ..     266     374 ..     264     375 .. 0.91

  Alignments for each domain:
  == domain 1  score: 60.2 bits;  conditional E-value: 1.1e-19
                              HHHHHHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCH.HCSTCHTSTSSSHHHHHHHHHHHHTT CS
                HATPase_c   5 rLrqiisnlvdNavkfatkageieveikaseddlvisveDnGiGipkedlkklfekfsq.ddstkrggggtGlGlsivkklvelmg 89 
                              +L++i+ nl +Na+k+   ++ + ++ik  ++++v+sv + G  i+++d+k +f+ f++ ++++  ++ g GlGl+ vk+++  +g
  PHY93_12565|PHY93_12565 266 GLKRILENLATNAIKYGDATTPVIIKIKDINNQVVLSVHNQGNPISEADQKIIFDYFQRtASAELGTQDGWGLGLTAVKAMAMAHG 351
                              79**************6688899999995448***********************9999888888889************7777** PP

                              TEEEEEEET.TTEEEEEEEEESS CS
                HATPase_c  90 Geiwvesep.grGttftftlple 111
                              G+++v s p ++Gttft+tlp +
  PHY93_12565|PHY93_12565 352 GSVRVFSFPgDEGTTFTVTLPRD 374
                              *****9999888********975 PP

>> PAS_3  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.1   0.1   8.1e-15   1.8e-11       2      88 ..      39     123 ..      38     124 .. 0.90
   2 ?    2.6   0.0     0.073   1.6e+02      62      88 ..     473     499 ..     472     500 .. 0.93

  Alignments for each domain:
  == domain 1  score: 44.1 bits;  conditional E-value: 8.1e-15
                    PAS_3   2 iyvserveeilGyspeellgkveswldlvhpeDrervrealqealkkgepyegeyRirrkdGeyrwveararvirdengkpvrvig 87 
                              +yv+++++ei  y +eel+g+  +++ +      +r++++l++ +++g+ + ge++ r kdG+ +wv  ++++ + e+g p  +++
  PHY93_12565|PHY93_12565  39 TYVNDKFCEISKYAREELIGQ--NHRLIKSGHHPDRFFKELWNTISSGQIWAGEIKNRAKDGGSYWVFNTITPCFHEDGTPSLYVS 122
                              79*******************..5555555555669********************************************998877 PP

                    PAS_3  88 v 88 
                              +
  PHY93_12565|PHY93_12565 123 I 123
                              5 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.073
                    PAS_3  62 dGeyrwveararvirdengkpvrvigv 88 
                              dG+ r++  + ++ ++++g+++ ++++
  PHY93_12565|PHY93_12565 473 DGQFRYLNQTFVPRKNKSGNIIGILSI 499
                              8*******************9999875 PP

>> PAS  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.9   0.0   2.6e-12   5.9e-09      14     103 ..      29     117 ..      25     125 .. 0.90
   2 ?    4.0   0.0     0.021        48      79     107 ..     470     497 ..     397     501 .. 0.70

  Alignments for each domain:
  == domain 1  score: 35.9 bits;  conditional E-value: 2.6e-12
                              EEEEETTSBEEEECHHHHHHHSSTHHHCTTSB..GGGGBSTTHHHHHHHHHHHHHHHTT-ECCCCEEEECTTSSEEEEEEEEEEEE CS
                      PAS  14 ifvvDedgrilyvNaaaeellGlsreevlgks..lldliheeddaelaelleqlleqgeesrageisfklrdgrpihlevraspvr 97 
                              + +++ +g+i+yvN++++e+  ++ree++g++  l+ + h++d+  + ++l++ +++g+ + ++ +++ + dg+ +++  + +p +
  PHY93_12565|PHY93_12565  29 VAITNTKGEITYVNDKFCEISKYAREELIGQNhrLIKSGHHPDR--FFKELWNTISSGQIWAGEIKNRAK-DGGSYWVFNTITPCF 111
                              56789**************************9779999999999..***************997776666.*************** PP

                              ETTEEE CS
                      PAS  98 daggei 103
                              +++g++
  PHY93_12565|PHY93_12565 112 HEDGTP 117
                              999976 PP

  == domain 2  score: 4.0 bits;  conditional E-value: 0.021
                              EECTTSSEEEEEEEEEEEEETTEEEEEEE CS
                      PAS  79 fklrdgrpihlevraspvrdaggeilgfl 107
                              +   dg +++l ++ +p+ +++g+i+g+l
  PHY93_12565|PHY93_12565 470 III-DGQFRYLNQTFVPRKNKSGNIIGIL 497
                              344.9999999999999999999999998 PP

>> PAS_8  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0   3.4e-06    0.0077      13      54 ..      28      70 ..      25      83 .. 0.72
   2 !   17.2   0.0   1.8e-06     0.004       5      52 ..     400     446 ..     396     459 .. 0.81
   3 ?   -0.3   0.0      0.51   1.1e+03      13      30 ..     469     483 ..     467     484 .. 0.82

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 3.4e-06
                    PAS_8 13 giavvd.lgdrivdvNqaalellGys.adlkgellgqllpvlrp 54
                             ++a+++  g+ i++vN++++e+  y  ++l+g+  + +  +++p
  PHY93_12565|PHY93_12565 28 SVAITNtKGE-ITYVNDKFCEISKYArEELIGQNHRLIKSGHHP 70
                             5888886666.**************9888888877433333333 PP

  == domain 2  score: 17.2 bits;  conditional E-value: 1.8e-06
                    PAS_8   5 alfesspdgiavvdlgd...rivdvNqaalellGysadlkgellgqllpvl 52 
                               lf ++++ i+++   +   r+ +vN+a++e +G +    g+ +++l+p  
  PHY93_12565|PHY93_12565 400 RLFRHMSEIIVILS--GplhRFEFVNEAYIETFGIN--ATGMSVRELGPSW 446
                              69*********987..34689*************99..8888888777765 PP

  == domain 3  score: -0.3 bits;  conditional E-value: 0.51
                    PAS_8  13 giavvdlgdrivdvNqaa 30 
                              +i+ +d  +++++ Nq++
  PHY93_12565|PHY93_12565 469 PII-ID--GQFRYLNQTF 483
                              566.77..78******98 PP

>> PAS_4  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.5   0.0   1.1e-08   2.4e-05       7     109 ..      28     131 ..      26     132 .. 0.89
   2 !    9.7   0.0   0.00043      0.97       2     106 ..     403     504 ..     402     505 .] 0.86

  Alignments for each domain:
  == domain 1  score: 24.5 bits;  conditional E-value: 1.1e-08
                    PAS_4   7 alavldpdgrvlyaNaaaaelfgappeellGktlaellpeedaarleralrrvlegeepiefleelll.pgeerhyelrllPlrde 91 
                               +a+ ++ g ++y+N  ++e+ ++++eel+G+  + + + ++ +r+   l   +++++ +  ++  +  +g+  ++  +++P ++e
  PHY93_12565|PHY93_12565  28 SVAITNTKGEITYVNDKFCEISKYAREELIGQNHRLIKSGHHPDRFFKELWNTISSGQIWAGEIKNRAkDGGSYWVFNTITPCFHE 113
                              58899******************************7777779999887777777777777777766669999999999******** PP

                    PAS_4  92 sGevigvlvisrDiTerr 109
                              +G++  ++ i  DiTe +
  PHY93_12565|PHY93_12565 114 DGTPSLYVSIRFDITEKK 131
                              ***************975 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.00043
                    PAS_4   2 dslpdalavl.dpdgrvlyaNaaaaelfgappeellGktlaellpeedaarleralrrvlegeepiefleelll.pgeerhyelrl 85 
                               ++++++++l +p  r++++N+a+ e fg+    ++G++++el p  + ++  ++l++v +++ p + +  +   +g+ r+++ ++
  PHY93_12565|PHY93_12565 403 RHMSEIIVILsGPLHRFEFVNEAYIETFGI---NATGMSVRELGP--SWQNNLPILDAVYSSGLPRKLTGNPIIiDGQFRYLNQTF 483
                              567777777788888999999997775555...678999999755..7899999999999999999999988889*********** PP

                    PAS_4  86 lPlrdesGevigvlvisrDiT 106
                              +P ++ sG +ig+l is ++T
  PHY93_12565|PHY93_12565 484 VPRKNKSGNIIGILSISSEVT 504
                              *******************99 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.6   0.2   2.8e-11   6.2e-08       2      60 ..     154     212 ..     153     219 .. 0.92

  Alignments for each domain:
  == domain 1  score: 32.6 bits;  conditional E-value: 2.8e-11
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHC..T-HSSCHHHHHHHHHHHHHHHHHHHHHHH CS
                    HisKA   2 lgrflagvaHELrtPLsailgnaeaLkregklteelkeyletiesearrldhlvedlLd 60 
                              +++fl++++H+LrtPL+  +  a++++++++ t++ k +  +i ++++r+d l+  lLd
  PHY93_12565|PHY93_12565 154 REQFLSTLSHDLRTPLTIAKISAQIIEKKDSVTDKIKNLTIKITENINRVDTLIMGLLD 212
                              689***********************8888999*********************99998 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.7   0.1         5   1.1e+04      37      50 ..     180     193 ..     173     216 .. 0.55
   2 ?   12.3   0.0   5.5e-05      0.12       6      87 ..     267     356 ..     264     371 .. 0.74

  Alignments for each domain:
  == domain 1  score: -3.7 bits;  conditional E-value: 5
              HATPase_c_5  37 ekkksliisieNsy 50 
                              ekk+s++ +i+N +
  PHY93_12565|PHY93_12565 180 EKKDSVTDKIKNLT 193
                              44444444444432 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 5.5e-05
              HATPase_c_5   6 lcvilgnlLdNAieacskieeekrfIrltvrekkksliisieNsyeg......ek......kklesskskkeehGiGlksireivk 79 
                              l +il nl  NAi   ++++     + ++++  ++++++s++N+ +       ++      ++   +  +++  G+Gl+ ++ ++ 
  PHY93_12565|PHY93_12565 267 LKRILENLATNAIKYGDATT----PVIIKIKDINNQVVLSVHNQGNPiseadqKIifdyfqRTASAELGTQDGWGLGLTAVKAMAM 348
                              55678888888887777766....5889999************9666555554225543422233445678999************ PP

              HATPase_c_5  80 kykgnlsi 87 
                               ++g++++
  PHY93_12565|PHY93_12565 349 AHGGSVRV 356
                              **999874 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (505 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       743  (0.0414412); expected 358.6 (0.02)
Passed bias filter:                      527  (0.0293937); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.60u 0.22s 00:00:00.82 Elapsed: 00:00:00.40
# Mc/sec: 3823.20
//
Query:       PHY93_12570|PHY93_12570  [L=64]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.048   12.9   0.0      0.048   12.9   0.0    1.0  1  CitMHS    Citrate transporter
      0.049   13.3   0.0      0.049   13.3   0.0    1.0  1  DotU      Type VI secretion system protein DotU


Domain annotation for each model (and alignments):
>> CitMHS  Citrate transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   5.3e-06     0.048     208     226 ..      33      51 ..       1      55 [. 0.81

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 5.3e-06
                              xxxxxxxxxxxxxxxxxxx RF
                   CitMHS 208 ykkveWsvlllfaGvfllv 226
                               kk++W+v+++++Gv+l++
  PHY93_12570|PHY93_12570  33 QKKIPWKVIIFLVGVILVA 51 
                              69**************995 PP

>> DotU  Type VI secretion system protein DotU
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   5.5e-06     0.049     163     204 ..      18      58 ..       2      59 .. 0.69

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 5.5e-06
                     DotU 163 lsphwqagdeaarrllrrelplwvilalallvllllflglsy 204
                              ls +++ +d++++   ++++p+ vi++l+ ++l+++++++++
  PHY93_12570|PHY93_12570  18 LSGKNPVKDSKQELT-QKKIPWKVIIFLVGVILVAMWFWWNI 58 
                              444444333333333.5699*99***************9875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (64 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1241  (0.0692175); expected 358.6 (0.02)
Passed bias filter:                      655  (0.036533); expected 358.6 (0.02)
Passed Vit filter:                        65  (0.00362541); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.35u 0.23s 00:00:00.57 Elapsed: 00:00:00.35
# Mc/sec: 548.88
//
Query:       PHY93_12575|PHY93_12575  [L=178]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0015   19.0   0.1      0.008   16.7   0.1    2.0  1  YflT             Heat induced stress protein YflT
  ------ inclusion threshold ------
        2.1    8.7  13.7       0.39   11.0   6.5    2.5  2  DUF1269          Protein of unknown function (DUF1269)


Domain annotation for each model (and alignments):
>> YflT  Heat induced stress protein YflT
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.1   8.9e-07     0.008       1      94 [.      18     138 ..      18     144 .. 0.70

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 8.9e-07
                     YflT   1 igvyeneeellsaieelkaeGyneddiyvvakdkdrlerla...entdaetettse.......................eglwdsi 60 
                              i +++n e l + +++lk + ++++di +++ +k++l++      +t+a t  t+                          +++++
  PHY93_12575|PHY93_12575  18 IAFFKNLEHLEKTLDDLKMANFKNEDISILTVKKKDLDKNIlegVATGAITGATGGgilcwlaslgviaipgagifiaaGPFISAV 103
                              56899**************************9999999876544555555555555777777777777777755555554455555 PP

                     YflT  61 knlfrs.kgdelrekleslGltedeaeeyeeelde 94 
                              + +  + ++  ++ +l  +G++e ea+e+e+ +++
  PHY93_12575|PHY93_12575 104 AGAALGvNAGSIAGALIGFGVAEVEAKELEKYIKD 138
                              44444445555555777777777777777777766 PP

>> DUF1269  Protein of unknown function (DUF1269)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   2.5      0.15   1.4e+03      21      33 ..      61      73 ..      57      86 .. 0.75
   2 ?   11.0   6.5   4.4e-05      0.39      15      74 ..      99     158 ..      71     170 .. 0.78

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.15
                  DUF1269 21 GaavGAaaGAlvg 33
                             G+a+GA +GA  g
  PHY93_12575|PHY93_12575 61 GVATGAITGATGG 73
                             7788888888766 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 4.4e-05
                  DUF1269  15 flnPllGaavGAaaGAlvgalsdvgidddflkelgeklkpgtsalfllvekatvdkvlea 74 
                              f++ ++Gaa+G  aG+++gal   g+ +   kel++ +k     + + v++  ++ ++++
  PHY93_12575|PHY93_12575  99 FISAVAGAALGVNAGSIAGALIGFGVAEVEAKELEKYIKDKGLIVAVHVNDPGEQAMAKK 158
                              233355688888999***********************9998888888877666655555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (178 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       854  (0.0476323); expected 358.6 (0.02)
Passed bias filter:                      587  (0.0327403); expected 358.6 (0.02)
Passed Vit filter:                        69  (0.00384851); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.38
# Mc/sec: 1413.75
//
Query:       PHY93_21355|PHY93_21355  [L=108]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (108 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       167  (0.00931452); expected 358.6 (0.02)
Passed bias filter:                      160  (0.00892409); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.20s 00:00:00.58 Elapsed: 00:00:00.38
# Mc/sec: 853.85
//
Query:       PHY93_12580|PHY93_12580  [L=44]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.013   16.0   0.0      0.014   15.8   0.0    1.2  1  DUF2274   Protein of unknown function (DUF2274)
      0.018   14.9   0.1      0.018   14.9   0.1    1.0  1  CCDC24    Coiled-coil domain-containing protein 24 family


Domain annotation for each model (and alignments):
>> DUF2274  Protein of unknown function (DUF2274)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.8   0.0   1.5e-06     0.014      13      38 ..       3      28 ..       2      40 .. 0.88

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 1.5e-06
                  DUF2274 13 kpvkltvelpaalhrdLaaYaellar 38
                             kpv lt++l  + +r+L++Yae  ++
  PHY93_12580|PHY93_12580  3 KPVPLTISLASNKARELRDYAEKINK 28
                             8********************98776 PP

>> CCDC24  Coiled-coil domain-containing protein 24 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.1     2e-06     0.018     136     164 ..      12      40 ..       6      44 .] 0.90

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 2e-06
                   CCDC24 136 lssasaelealkdkLNvsdiDeVaehLre 164
                              +s+  +el   ++k+N ++iD+V+++L++
  PHY93_12580|PHY93_12580  12 ASNKARELRDYAEKINKIEIDKVLSQLKN 40 
                              689999*********************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (44 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       866  (0.0483016); expected 358.6 (0.02)
Passed bias filter:                      367  (0.0204696); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.38u 0.23s 00:00:00.61 Elapsed: 00:00:00.40
# Mc/sec: 333.75
//
Query:       PHY93_12585|PHY93_12585  [L=217]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.5e-12   46.6  15.0    5.4e-06   26.3   0.7    2.7  2  Cytochrome_C7    Cytochrome c7 and related cytochrome c
    1.7e-08   34.8  13.8     0.0006   20.2   6.4    2.4  2  Cytochrom_c3_2   Cytochrome c3
     0.0005   19.8  15.7      0.043   13.6   4.5    2.9  3  Paired_CXXCH_1   Doubled CXXCH motif (Paired_CXXCH_1)
    0.00058   18.9   4.4    0.00058   18.9   4.4    2.1  2  Cytochrom_C552   Cytochrome c552
  ------ inclusion threshold ------
      0.033   14.2   0.0       0.06   13.3   0.0    1.3  1  OppC_N           N-terminal TM domain of oligopeptide transpo
      0.034   14.6  13.1      0.061   13.8   0.5    2.8  3  zf-CHY           CHY zinc finger
       0.11   12.6  10.7       0.64   10.1   0.5    2.7  3  DZR              Double zinc ribbon
       0.78   10.7  16.9        1.7    9.6   0.6    4.2  5  Cytochrome_C554  Cytochrome c554 and c-prime
       0.78   10.4  13.4       0.58   10.8   4.1    3.2  2  CCP_MauG         Di-haem cytochrome c peroxidase
        1.1    9.4  10.8          3    8.0   1.2    2.9  3  Zn-ribbon_8      Zinc ribbon domain
        2.2    8.6  13.7        4.5    7.7   0.3    4.1  4  Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
        3.6    8.0  11.7       0.44   10.9   1.6    2.5  2  DnaJ_CXXCXGXG    DnaJ central domain
        7.9    6.9  13.8        6.8    7.1   3.5    3.5  4  DUF1924          Domain of unknown function (DUF1924)
        8.7    6.6  15.9        2.7    8.3   0.4    3.8  4  DUF3365          Protein of unknown function (DUF3365)


Domain annotation for each model (and alignments):
>> Cytochrome_C7  Cytochrome c7 and related cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.3   0.7   4.2e-09   5.4e-06       2      57 ..      52      94 ..      51     111 .. 0.79
   2 !   24.3   7.6   1.8e-08   2.3e-05       2      71 ..     127     217 .]     126     217 .] 0.62

  Alignments for each domain:
  == domain 1  score: 26.3 bits;  conditional E-value: 4.2e-09
            Cytochrome_C7  2 vfshkshlkatgykCtdCHsklfeskakkkmaemekgkskkaevesltCgaCHdgk 57
                              fshk+h++  g +C+ CHs++     k+k+a m + ++         C++CH + 
  PHY93_12585|PHY93_12585 52 PFSHKQHIQGLGLDCRFCHSAVE----KSKTAGMPSTEV---------CMSCHSQI 94
                             69********************2....122445555666.........*****875 PP

  == domain 2  score: 24.3 bits;  conditional E-value: 1.8e-08
            Cytochrome_C7   2 vfshkshlkatgykCtdCHsklfeskakkkmaemekgkskkaevesltCgaCHdgknaf........................... 60 
                               f+h+ h+++ g +C++CH+++       +m    +++sk +  + + C +CH + +++                           
  PHY93_12585|PHY93_12585 127 FFNHSIHVNK-GVSCQSCHGNVQ------EM----SQTSKVKPLTMKWCLECHAHPENNlvpinqvfsieklvntkadfiqqnnlm 201
                              69*******5.99*********2......12....2233223333344*******9997666666666665555555555555555 PP

            Cytochrome_C7  61 .....svakkaeCakC 71 
                                   ++ + ++C +C
  PHY93_12585|PHY93_12585 202 kiyriDRSRITNCYEC 217
                              5555544445555555 PP

>> Cytochrom_c3_2  Cytochrome c3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.2   0.8     1e-06    0.0013       5      37 ..      62      95 ..      55     113 .. 0.78
   2 !   20.2   6.4   4.7e-07    0.0006       2      38 ..     133     173 ..     132     217 .] 0.68

  Alignments for each domain:
  == domain 1  score: 19.2 bits;  conditional E-value: 1e-06
                             CT.TGGGTSSSST-SSTT.HHHHHHHHHHH--HH CS
           Cytochrom_c3_2  5 egvkCadCHtkekpkkdk.aveeekClsCHgkle 37
                              g++C+ CH+  +++k++   ++e C+sCH++  
  PHY93_12585|PHY93_12585 62 LGLDCRFCHSAVEKSKTAgMPSTEVCMSCHSQIL 95
                             589*******777555554889999*****9865 PP

  == domain 2  score: 20.2 bits;  conditional E-value: 4.7e-07
                              HHCCT.TGGGTSSSST....-SSTTHHHHHHHHHHH--HHH CS
           Cytochrom_c3_2   2 HakegvkCadCHtkek....pkkdkaveeekClsCHgklee 38 
                              H+++gv+C++CH++ +    ++k k  +++ Cl+CH + e+
  PHY93_12585|PHY93_12585 133 HVNKGVSCQSCHGNVQemsqTSKVKPLTMKWCLECHAHPEN 173
                              9***********9544222244445778999*****98764 PP

>> Paired_CXXCH_1  Doubled CXXCH motif (Paired_CXXCH_1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.6   4.1e-05     0.052       8      39 ..      65      93 ..      59      95 .. 0.76
   2 !   13.6   4.5   3.4e-05     0.043       4      39 ..     134     170 ..     133     173 .. 0.81
   3 ?   -1.9   0.1       2.4     3e+03      32      36 ..     213     217 .]     206     217 .] 0.79

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 4.1e-05
           Paired_CXXCH_1  8 eClsCHnphgs.dnpkllkkakgaalCysCHde 39
                             +C  CH++    + +++      +++C+sCH++
  PHY93_12585|PHY93_12585 65 DCRFCHSAVEKsKTAGM----PSTEVCMSCHSQ 93
                             799***87755144444....589*******85 PP

  == domain 2  score: 13.6 bits;  conditional E-value: 3.4e-05
           Paired_CXXCH_1   4 vaeg.eClsCHnphgs.dnpkllkkakgaalCysCHde 39 
                              v++g +C sCH   ++  +   + k  + + C++CH+ 
  PHY93_12585|PHY93_12585 134 VNKGvSCQSCHGNVQEmSQTSKV-KPLTMKWCLECHAH 170
                              667757*****888884566666.9***********85 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 2.4
           Paired_CXXCH_1  32 lCysC 36 
                               Cy+C
  PHY93_12585|PHY93_12585 213 NCYEC 217
                              59999 PP

>> Cytochrom_C552  Cytochrome c552
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.6      0.11   1.4e+02      85      96 ..      82      93 ..      58     110 .. 0.65
   2 !   18.9   4.4   4.5e-07   0.00058     231     304 ..     123     191 ..     112     209 .. 0.77

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 0.11
                             SSBGGGGTTT-T CS
           Cytochrom_C552 85 kqpaaCltCksp 96
                             +   +C++C+s 
  PHY93_12585|PHY93_12585 82 PSTEVCMSCHSQ 93
                             444445555554 PP

  == domain 2  score: 18.9 bits;  conditional E-value: 4.5e-07
                              -HHHHHHTSHHHHTT--HHHHHS-EEETTSEEEE----S-GGGGCCCTGGGT--S-HHHHH..HHHHHHHHHHHHH CS
           Cytochrom_C552 231 PefElysegvHakngvsCaDCHmPkvkegakkvtdHkvtsPlksiekaCksCHkqseeeLk..eqveaiqervael 304
                              P++ ++++++H ++gvsC  CH         ++++     Pl++  k C +CH++ e++L   +qv +i++ v+++
  PHY93_12585|PHY93_12585 123 PDHVFFNHSIHVNKGVSCQSCHGNVQ-----EMSQTSKVKPLTM--KWCLECHAHPENNLVpiNQVFSIEKLVNTK 191
                              9999******************6543.....3444444579976..59********99995336777777666555 PP

>> OppC_N  N-terminal TM domain of oligopeptide transport permease C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   4.7e-05      0.06      12      37 ..       9      35 ..       8      50 .. 0.72

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 4.7e-05
                   OppC_N 12 rNklAvvglvilll.llliaifaPlia 37
                             +NklA +gl+ +++ l+l+ai +    
  PHY93_12585|PHY93_12585  9 SNKLAHFGLIGFIAmLFLMAIAGHAYF 35
                             7*********99996777898875442 PP

>> zf-CHY  CHY zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.5   4.8e-05     0.061      21      50 ..      65      93 ..      59      99 .. 0.90
   2 ?    6.2   3.9     0.011        15      17      50 ..     135     170 ..     125     177 .. 0.62
   3 ?    1.5   1.4      0.33   4.2e+02      21      31 ..     163     173 ..     159     217 .] 0.62

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 4.8e-05
                   zf-CHY 21 aCreCHeeledhelerlevkevlcllCete 50
                             +Cr CH+++e+ ++  +  +ev c+ C+++
  PHY93_12585|PHY93_12585 65 DCRFCHSAVEKSKTAGMPSTEV-CMSCHSQ 93
                             7*****************9987.****975 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.011
                   zf-CHY  17 kklyaCreCH...eele.dhelerlevkevlcllCete 50 
                              +k  +C++CH   +e++ + +++    +   cl+C+++
  PHY93_12585|PHY93_12585 135 NKGVSCQSCHgnvQEMSqTSKVK--PLTMKWCLECHAH 170
                              56678*****6543322022333..3333469999875 PP

  == domain 3  score: 1.5 bits;  conditional E-value: 0.33
                   zf-CHY  21 aCreCHeeled 31 
                              +C eCH++ e+
  PHY93_12585|PHY93_12585 163 WCLECHAHPEN 173
                              69999963222 PP

>> DZR  Double zinc ribbon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.5    0.0005      0.64      15      40 ..      66      96 ..      62     101 .. 0.79
   2 ?    8.9   0.8    0.0012       1.5      14      38 ..     139     171 ..     130     175 .. 0.87
   3 ?   -2.4   0.1       3.9   4.9e+03      14      18 ..     213     217 .]     205     217 .] 0.58

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.0005
                      DZR 15 CseCgtklkavaa.....edrCpsCgekvdp 40
                             C  C +++++ ++      ++C+sC++++ +
  PHY93_12585|PHY93_12585 66 CRFCHSAVEKSKTagmpsTEVCMSCHSQILN 96
                             888888888666688999*********9544 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 0.0012
                      DZR  14 fCseCgtklkavaa........edrCpsCgekv 38 
                               C+ C  +++++++        ++ C +C++  
  PHY93_12585|PHY93_12585 139 SCQSCHGNVQEMSQtskvkpltMKWCLECHAHP 171
                              6*********9999***************9865 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 3.9
                      DZR  14 fCseC 18 
                               C+eC
  PHY93_12585|PHY93_12585 213 NCYEC 217
                              34444 PP

>> Cytochrome_C554  Cytochrome c554 and c-prime
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.3      0.97   1.2e+03      75      83 ..      62      70 ..      43      71 .. 0.66
   2 ?    1.8   3.2      0.37   4.7e+02      45      59 ..      81      95 ..      53     110 .. 0.64
   3 ?    9.6   0.6    0.0013       1.7      70      84 .]     131     145 ..     121     145 .. 0.80
   4 ?    5.2   0.2     0.032        41      40      57 ..     153     170 ..     146     192 .. 0.74
   5 ?    5.3   0.4     0.029        37       1      54 [.     163     217 .]     163     217 .] 0.76

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.97
                             BSS-HHHHH CS
          Cytochrome_C554 75 agVqCesCH 83
                              g  C  CH
  PHY93_12585|PHY93_12585 62 LGLDCRFCH 70
                             377899999 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.37
                             -TT-TTTGGGSBSTT CS
          Cytochrome_C554 45 aeeapeClkCHatga 59
                             + +++ C++CH    
  PHY93_12585|PHY93_12585 81 MPSTEVCMSCHSQIL 95
                             334566777776554 PP

  == domain 3  score: 9.6 bits;  conditional E-value: 0.0013
                              --GGGBSS-HHHHH- CS
          Cytochrome_C554  70 ktkllagVqCesCHg 84 
                              + ++ +gV+C+sCHg
  PHY93_12585|PHY93_12585 131 SIHVNKGVSCQSCHG 145
                              456789********9 PP

  == domain 4  score: 5.2 bits;  conditional E-value: 0.032
                              -TTS--TT-TTTGGGSBS CS
          Cytochrome_C554  40 dpakdaeeapeClkCHat 57 
                              + + ++ + + Cl+CHa 
  PHY93_12585|PHY93_12585 153 TSKVKPLTMKWCLECHAH 170
                              34556678899*****85 PP

  == domain 5  score: 5.3 bits;  conditional E-value: 0.029
                              HHHHHTHHHHHHHTTSTGGGTTGGGSTTSSHHHHHHTT--TT.S--TT-TTTGGG CS
          Cytochrome_C554   1 aCaeCHeeqyeswkkskhakaleslkkekkaeakkkakldpa.kdaeeapeClkC 54 
                              +C eCH++  ++    +   ++e+l + k+  ++++  ++    d ++  +C++C
  PHY93_12585|PHY93_12585 163 WCLECHAHPENNLVPINQVFSIEKLVNTKADFIQQNNLMKIYrIDRSRITNCYEC 217
                              6999**9999999999999999999988877766655443322667788999999 PP

>> CCP_MauG  Di-haem cytochrome c peroxidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   2.1      0.12   1.5e+02      20      39 ..      83     102 ..      53     121 .. 0.74
   2 ?   10.8   4.1   0.00045      0.58       9      43 ..     125     159 ..     118     206 .. 0.68

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.12
                              SS--HHHHSGCCCTTS-SSS CS
                 CCP_MauG  20 gkisCasCHdpaagftdglk 39 
                               +  C sCH++    +d l+
  PHY93_12585|PHY93_12585  83 STEVCMSCHSQILNNSDRLR 102
                              45569999998777777644 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 0.00045
                              HHHC-GGGSTTSS--HHHHSGCCCTTS-SSSSBBE CS
                 CCP_MauG   9 kLFfdkrLSgngkisCasCHdpaagftdglkvslg 43 
                              + Ff  ++  n+ +sC+sCH   + +++ +kv+  
  PHY93_12585|PHY93_12585 125 HVFFNHSIHVNKGVSCQSCHGNVQEMSQTSKVKPL 159
                              78******************666666555444433 PP

>> Zn-ribbon_8  Zinc ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   1.2    0.0024         3       8      34 ..      66      92 ..      63      95 .. 0.84
   2 ?    6.9   0.8    0.0055         7       8      34 ..     140     169 ..     130     174 .. 0.76
   3 ?   -2.3   0.0       3.9     5e+03      25      32 ..     209     217 .]     201     217 .] 0.61

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.0024
              Zn-ribbon_8  8 CeeCghefevlqsisdapltaCPeCgs 34
                             C+ C++  e+  ++  ++ ++C +C+s
  PHY93_12585|PHY93_12585 66 CRFCHSAVEKSKTAGMPSTEVCMSCHS 92
                             *********999877776666****99 PP

  == domain 2  score: 6.9 bits;  conditional E-value: 0.0055
              Zn-ribbon_8   8 CeeCghefevlqsis.daplta..CPeCgs 34 
                              C++C+    ++ + s  +plt   C eC++
  PHY93_12585|PHY93_12585 140 CQSCHGNVQEMSQTSkVKPLTMkwCLECHA 169
                              999988888777777666644448999987 PP

  == domain 3  score: -2.3 bits;  conditional E-value: 3.9
              Zn-ribbon_8  25 plta.CPeC 32 
                              + ++ C eC
  PHY93_12585|PHY93_12585 209 SRITnCYEC 217
                              344558888 PP

>> Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.3      0.17   2.2e+02      13      20 ..      65      73 ..      60      85 .. 0.69
   2 ?    3.3   0.3      0.08     1e+02      12      19 ..      85      92 ..      78     120 .. 0.83
   3 ?    7.7   0.3    0.0035       4.5      13      20 ..     139     148 ..     133     163 .. 0.67
   4 ?    3.6   0.0     0.064        82      11      20 ..     161     171 ..     152     197 .. 0.74

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.17
          Cytochrome_CBB3 13 nCasCHg.k 20
                             +C+ CH   
  PHY93_12585|PHY93_12585 65 DCRFCHSaV 73
                             6*****841 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.08
          Cytochrome_CBB3 12 knCasCHg 19
                             + C sCH 
  PHY93_12585|PHY93_12585 85 EVCMSCHS 92
                             68*****8 PP

  == domain 3  score: 7.7 bits;  conditional E-value: 0.0035
          Cytochrome_CBB3  13 nCasCHg..k 20 
                              +C+sCHg  +
  PHY93_12585|PHY93_12585 139 SCQSCHGnvQ 148
                              7******532 PP

  == domain 4  score: 3.6 bits;  conditional E-value: 0.064
          Cytochrome_CBB3  11 kknCasCHg.k 20 
                               k C  CH+ +
  PHY93_12585|PHY93_12585 161 MKWCLECHAhP 171
                              578*****942 PP

>> DnaJ_CXXCXGXG  DnaJ central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   0.3     0.045        58       1      22 [.      66      92 ..      57     107 .. 0.67
   2 ?   10.9   1.6   0.00035      0.44      14      49 ..     137     169 ..     129     174 .. 0.71

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.045
            DnaJ_CXXCXGXG  1 CkkCkGsgakkgk.....kktCktCkG 22
                             C+ C+   +k+++     ++ C +C+ 
  PHY93_12585|PHY93_12585 66 CRFCHSAVEKSKTagmpsTEVCMSCHS 92
                             666666665543334544445666664 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.00035
            DnaJ_CXXCXGXG  14 kktCktCkGsGvvreeqktlgpfvqqsqstCpeCeG 49 
                                +C++C+G+ ++++++++++p+++   + C eC+ 
  PHY93_12585|PHY93_12585 137 GVSCQSCHGNVQEMSQTSKVKPLTM---KWCLECHA 169
                              457*******976555545777664...57888876 PP

>> DUF1924  Domain of unknown function (DUF1924)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.2      0.63   8.1e+02      20      39 ..      57      76 ..      51      83 .. 0.71
   2 ?    4.6   0.6     0.033        42      23      42 ..      81     100 ..      70     108 .. 0.74
   3 ?    7.1   3.5    0.0053       6.8      19      40 ..     130     151 ..     123     196 .. 0.79
   4 ?   -0.5   0.2       1.2   1.6e+03      28      36 ..     163     171 ..     149     215 .. 0.68

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.63
                             SSS-TT-SSTHHHH-SSTTS CS
                  DUF1924 20 ktkkgkelsCasCHgedptk 39
                             ++ +g  l C  CH++  ++
  PHY93_12585|PHY93_12585 57 QHIQGLGLDCRFCHSAVEKS 76
                             455666789*****986554 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.033
                              -TT-SSTHHHH-SSTTS-EE CS
                  DUF1924  23 kgkelsCasCHgedptkegk 42 
                                ++  C sCH++ ++++ +
  PHY93_12585|PHY93_12585  81 MPSTEVCMSCHSQILNNSDR 100
                              445668******98887765 PP

  == domain 3  score: 7.1 bits;  conditional E-value: 0.0053
                              -SSS-TT-SSTHHHH-SSTTS- CS
                  DUF1924  19 vktkkgkelsCasCHgedptke 40 
                              ++ + +k +sC+sCHg+  + +
  PHY93_12585|PHY93_12585 130 HSIHVNKGVSCQSCHGNVQEMS 151
                              344556678*******865443 PP

  == domain 4  score: -0.5 bits;  conditional E-value: 1.2
                              STHHHH-SS CS
                  DUF1924  28 sCasCHged 36 
                               C  CH++ 
  PHY93_12585|PHY93_12585 163 WCLECHAHP 171
                              588888754 PP

>> DUF3365  Protein of unknown function (DUF3365)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.1       1.8   2.3e+03     118     129 ..      66      77 ..      62      83 .. 0.82
   2 ?    3.8   0.4     0.049        63     115     125 ..      84      94 ..      78     111 .. 0.80
   3 ?    4.3   0.6     0.035        45     115     130 ..     137     152 ..     122     156 .. 0.75
   4 ?    8.3   0.4    0.0021       2.7     109     127 ..     156     173 ..     152     195 .. 0.80

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 1.8
                              THHHHS-GGG-- CS
                  DUF3365 118 ClkCHgdpedap 129
                              C  CH++ e+++
  PHY93_12585|PHY93_12585  66 CRFCHSAVEKSK 77 
                              999**9998776 PP

  == domain 2  score: 3.8 bits;  conditional E-value: 0.049
                              -TTTHHHHS-G CS
                  DUF3365 115 eesClkCHgdp 125
                               e C++CH++ 
  PHY93_12585|PHY93_12585  84 TEVCMSCHSQI 94 
                              689*****985 PP

  == domain 3  score: 4.3 bits;  conditional E-value: 0.035
                              -TTTHHHHS-GGG--H CS
                  DUF3365 115 eesClkCHgdpedapk 130
                                sC +CHg+ +++++
  PHY93_12585|PHY93_12585 137 GVSCQSCHGNVQEMSQ 152
                              569*******987765 PP

  == domain 4  score: 8.3 bits;  conditional E-value: 0.0021
                              EEEEE--TTTHHHHS-GGG CS
                  DUF3365 109 arplrveesClkCHgdped 127
                              ++pl ++  Cl+CH  pe+
  PHY93_12585|PHY93_12585 156 VKPLTMK-WCLECHAHPEN 173
                              5788887.6*******976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (217 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       692  (0.0385967); expected 358.6 (0.02)
Passed bias filter:                      380  (0.0211947); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                        19  (0.00105974); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.55u 0.22s 00:00:00.77 Elapsed: 00:00:00.40
# Mc/sec: 1634.65
//
Query:       PHY93_12590|PHY93_12590  [L=995]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-15   57.9  19.5    7.4e-09   36.1   4.4    2.6  2  Fer4_7           4Fe-4S dicluster domain
    1.5e-08   34.6  11.8     0.0027   17.8   0.1    3.6  3  Fer4_10          4Fe-4S dicluster domain
    1.4e-07   31.5  16.5    2.5e-06   27.5   5.3    3.7  3  Fer4_11          4Fe-4S dicluster domain
      2e-05   24.6  15.6    0.00045   20.3   5.3    2.9  2  Fer4_9           4Fe-4S dicluster domain
    4.7e-05   23.4   0.0     0.0001   22.3   0.0    1.5  1  Molydop_binding  Molydopterin dinucleotide binding domain
     0.0039   17.0   0.2     0.0084   15.9   0.2    1.5  1  TAT_signal       TAT (twin-arginine translocation) pathway si
  ------ inclusion threshold ------
      0.012   15.7  26.1      0.018   15.1   2.3    4.0  4  Fer4_6           4Fe-4S binding domain
       0.13   12.8  16.6       0.63   10.6   0.4    3.5  5  Fer4_17          4Fe-4S dicluster domain
        0.3   11.3  24.6      0.068   13.3   6.7    3.2  3  Fer4_21          4Fe-4S dicluster domain
       0.34   11.1  27.7       0.25   11.5   1.9    4.5  4  Fer4_2           4Fe-4S binding domain
       0.48   10.9  22.2        2.1    8.9   5.1    3.7  3  Fer4_8           4Fe-4S dicluster domain
       0.69   10.6  21.4        1.9    9.2   3.1    3.8  3  Fer4_4           4Fe-4S binding domain
        7.7    7.5  22.2         78    4.3   0.0    4.6  4  Fer4_16          4Fe-4S double cluster binding domain


Domain annotation for each model (and alignments):
>> Fer4_7  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.3   7.2   2.9e-09     4e-06       2      52 .]     773     844 ..     772     844 .. 0.77
   2 !   36.1   4.4   5.4e-12   7.4e-09       1      52 []     859     947 ..     859     947 .. 0.83

  Alignments for each domain:
  == domain 1  score: 27.3 bits;  conditional E-value: 2.9e-09
                   Fer4_7   2 CigCgaCvaaC..................pvkaieldee.enekgtekveidpekClgCga..CvavCPtga 52 
                              C+gC+aCv  C                   ++++++d + e  + ++k++++p  C++C++  C+ vCP+ a
  PHY93_12590|PHY93_12590 773 CTGCNACVIGCqaennvpivgeaevirgrEMHWLRVDRYfEGVPDFAKLYFQPLACVHCEKapCEVVCPVAA 844
                              ***********77777777776666666556666665441444466889***********99*******986 PP

  == domain 2  score: 36.1 bits;  conditional E-value: 5.4e-12
                   Fer4_7   1 rCigCgaCvaaCpvkaieldeeenekgt.............ekveidpekClgC........................gaCvavCP 49 
                              rC+g+++C ++Cp+k+++++  e+++++              ++++++ekC++C                        +aC+++C 
  PHY93_12590|PHY93_12590 859 RCVGTRYCSNNCPYKVRRFNFLEYNDKKsefvkmrsnpdvsVRTRGVMEKCTYCiqrinesrveaelegrnikdgeikTACQQACA 944
                              8*******************88777744333333334333355599****************************999999*****9 PP

                   Fer4_7  50 tga 52 
                              t+a
  PHY93_12590|PHY93_12590 945 TKA 947
                              976 PP

>> Fer4_10  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.6   0.5     4e-05     0.055       2      23 ..     766     785 ..     765     805 .. 0.72
   2 !   13.2   9.1   5.4e-05     0.075       3      56 .]     822     871 ..     820     871 .. 0.92
   3 !   17.8   0.1   1.9e-06    0.0027       7      55 ..     858     943 ..     853     944 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 4e-05
                  Fer4_10   2 vvidddtCirCgkCvkaCPadl 23 
                              + id + C++C++Cv  C  ++
  PHY93_12590|PHY93_12590 766 MSIDLNVCTGCNACVIGC--QA 785
                              679***************..33 PP

  == domain 2  score: 13.2 bits;  conditional E-value: 5.4e-05
                  Fer4_10   3 vidddtCirCg..kCvkaCPadltsvgakgeaseeeavrkkvekCtgcgaCveaCP 56 
                              ++++  C++C+   C  +CP+      a    s e+ ++ ++ +C g  +C   CP
  PHY93_12590|PHY93_12590 822 YFQPLACVHCEkaPCEVVCPV------AATSHSTEGINQMVYNRCVGTRYCSNNCP 871
                              677889*****889*******......9999999999999***************9 PP

  == domain 3  score: 17.8 bits;  conditional E-value: 1.9e-06
                  Fer4_10   7 dtCirCgkCvkaCPadl.............tsvgakgeaseeeavrkkvekCtgc........................gaCveaC 55 
                              ++C++ + C + CP+++             + v+ +   + + + r+++ekCt c                        +aC++aC
  PHY93_12590|PHY93_12590 858 NRCVGTRYCSNNCPYKVrrfnfleyndkksEFVKMRSNPDVSVRTRGVMEKCTYCiqrinesrveaelegrnikdgeikTACQQAC 943
                              79*************99***********9888888888888999999*******99999999999999999998888878999999 PP

>> Fer4_11  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0       4.6   6.4e+03      48      75 ..     445     472 ..     436     477 .. 0.67
   2 !   27.5   5.3   1.8e-09   2.5e-06       2      69 ..     820     885 ..     819     897 .. 0.85
   3 !    7.5   1.7    0.0031       4.2      47      99 ..     902     952 ..     891     953 .. 0.57

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 4.6
                  Fer4_11  48 revveacPykivrkneetgkvekCdmcl 75 
                              ++  e + +++  +  +++++ekC+  l
  PHY93_12590|PHY93_12590 445 EKSLEKVAFSVCLTHVKNETSEKCTWAL 472
                              5555666666666777777788887665 PP

  == domain 2  score: 27.5 bits;  conditional E-value: 1.8e-09
                  Fer4_11   2 ewlflpeqCrhCleppCvasapseaivkdeetGaVlldektkkeevrevveacPykivrkneetgkve 69 
                              +++f p  C hC+++pC  ++p+ a  +   +G+  +  +++  ++r + + cPyk+ r n  + + +
  PHY93_12590|PHY93_12590 820 KLYFQPLACVHCEKAPCEVVCPVAATSHST-EGINQMVYNRCV-GTRYCSNNCPYKVRRFNFLEYNDK 885
                              57899*****************98777766.9**999999997.*************99986655555 PP

  == domain 3  score: 7.5 bits;  conditional E-value: 0.0031
                  Fer4_11  47 vrevveacPykivrkneetgkvekCdmcldrveaGl.lpacvescptgalnfgd 99 
                              +r v+e c y i r ne+  ++   +++   ++ G+ ++ac ++c+t+a+ fg+
  PHY93_12590|PHY93_12590 902 TRGVMEKCTYCIQRINESRVEA---ELEGRNIKDGEiKTACQQACATKAIVFGN 952
                              4445555555555555554432...33444444443257888888888888875 PP

>> Fer4_9  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.3   5.3   3.3e-07   0.00045       2      49 ..     773     843 ..     772     845 .. 0.87
   2 !    9.0   2.6    0.0011       1.6       1      51 []     859     948 ..     859     948 .. 0.77

  Alignments for each domain:
  == domain 1  score: 20.3 bits;  conditional E-value: 3.3e-07
                   Fer4_9   2 CtgCgaCveaCpagvvvedaaerkarlraase.....................eaCigCga..CveaCpkg 49 
                              CtgC+aCv  C+a+ +v+  +e ++   ++                        aC++C++  C+ +Cp  
  PHY93_12590|PHY93_12590 773 CTGCNACVIGCQAENNVPIVGEAEVIRGREMHwlrvdryfegvpdfaklyfqpLACVHCEKapCEVVCPVA 843
                              ************99999888777766544433699******************99**************86 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.0011
                   Fer4_9   1 kCtgCgaCveaCpagvvvedaaerkarlraase...............eaCigCga........................CveaCp 47 
                              +C+g ++C + Cp++v +    e+ ++  ++ +               e+C+ C +                        C +aC 
  PHY93_12590|PHY93_12590 859 RCVGTRYCSNNCPYKVRRFNFLEYNDKKSEFVKmrsnpdvsvrtrgvmEKCTYCIQrinesrveaelegrnikdgeiktaCQQACA 944
                              59999*******87776533333322222222234447889999999*9*******9****************************9 PP

                   Fer4_9  48 kgai 51 
                              ++ai
  PHY93_12590|PHY93_12590 945 TKAI 948
                              9987 PP

>> Molydop_binding  Molydopterin dinucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.3   0.0   7.3e-08    0.0001      31      82 ..     622     673 ..     610     695 .. 0.89

  Alignments for each domain:
  == domain 1  score: 22.3 bits;  conditional E-value: 7.3e-08
                              EEEEEHHHHHHHT--TT-EEEEEETTEEEEEEEEEESSB-TTEEEEESSHCC CS
          Molydop_binding  31 vveinpedAaalGikdGdlVevesrrGsvevrakvtervrpGvvfmpfgwwe 82 
                               v+i+p+ A   ++k+Gd++++ +  G++ +++++ +++++ v++++fg+++
  PHY93_12590|PHY93_12590 622 AVLISPALAVLKELKNGDEITIQTNVGKLDAPIWILPGLAENVLVIHFGHGR 673
                              89***********************************************998 PP

>> TAT_signal  TAT (twin-arginine translocation) pathway signal sequence
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.2   6.1e-06    0.0084       2      23 ..      57      78 ..      56      80 .. 0.95

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 6.1e-06
               TAT_signal  2 lSRRdFLKgsAAaaAAaalggc 23
                             +SRR+F K  +A +A+a+l gc
  PHY93_12590|PHY93_12590 57 VSRRHFFKIMGASMALAGLEGC 78
                             8******************998 PP

>> Fer4_6  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   3.0   0.00095       1.3       4      19 ..     768     783 ..     766     787 .. 0.89
   2 ?   15.1   2.3   1.3e-05     0.018       3      23 ..     822     844 ..     820     845 .. 0.89
   3 ?    6.6   0.5    0.0065         9       6      22 ..     857     873 ..     854     874 .. 0.89
   4 ?   -2.2   0.5       3.9   5.4e+03      14      24 .]     938     948 ..     937     948 .. 0.85

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.00095
                   Fer4_6   4 idpdkCigCgdCvrvC 19 
                              id + C+gC++Cv+ C
  PHY93_12590|PHY93_12590 768 IDLNVCTGCNACVIGC 783
                              89999*********99 PP

  == domain 2  score: 15.1 bits;  conditional E-value: 1.3e-05
                   Fer4_6   3 eidpdkCigCgd..CvrvCPega 23 
                               ++p +C++C++  C++vCP +a
  PHY93_12590|PHY93_12590 822 YFQPLACVHCEKapCEVVCPVAA 844
                              58999*****999*******987 PP

  == domain 3  score: 6.6 bits;  conditional E-value: 0.0065
                   Fer4_6   6 pdkCigCgdCvrvCPeg 22 
                              +++C+g + C ++CP++
  PHY93_12590|PHY93_12590 857 YNRCVGTRYCSNNCPYK 873
                              699************96 PP

  == domain 4  score: -2.2 bits;  conditional E-value: 3.9
                   Fer4_6  14 dCvrvCPegai 24 
                              +C  +C ++ai
  PHY93_12590|PHY93_12590 938 ACQQACATKAI 948
                              69999*99998 PP

>> Fer4_17  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.9   1.2    0.0067       9.2      20      58 ..     745     785 ..     738     788 .. 0.65
   2 ?    4.3   7.8     0.044        61       2      57 ..     773     841 ..     772     845 .. 0.65
   3 ?    1.0   2.1      0.47   6.5e+02       2      16 ..     828     844 ..     827     859 .. 0.69
   4 ?   10.6   0.4   0.00046      0.63      33      60 ..     848     874 ..     841     875 .. 0.77
   5 ?    9.7   2.6   0.00091       1.3       1      49 [.     859     912 ..     859     915 .. 0.67

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.0067
                  Fer4_17  20 nepkkllraaklg.lleeaekee.kaslCieCgeCerkCPq 58 
                              + pk+l+ +  ++ ++++a  ++   + C++C+ C+  C +
  PHY93_12590|PHY93_12590 745 SPPKSLIIDSPITpSKDYAWGMSiDLNVCTGCNACVIGCQA 785
                              5555555555553255666665447899*******999975 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.044
                  Fer4_17   2 CiqCgyClpeCpsyeaydne.pkkllraakl..........glleeaekeekaslCieCge..CerkCP 57 
                              C++C +C+  C   ++ +   +++++r  ++          g  + a+   +   C++C++  Ce +CP
  PHY93_12590|PHY93_12590 773 CTGCNACVIGCQAENNVPIVgEAEVIRGREMhwlrvdryfeGVPDFAKLYFQPLACVHCEKapCEVVCP 841
                              ************9888555324445544455333332222323333444478999****9777*****9 PP

  == domain 3  score: 1.0 bits;  conditional E-value: 0.47
                  Fer4_17   2 CiqCgy..ClpeCpsye 16 
                              C +C+   C+ +Cp  +
  PHY93_12590|PHY93_12590 828 CVHCEKapCEVVCPVAA 844
                              77777666777777654 PP

  == domain 4  score: 10.6 bits;  conditional E-value: 0.00046
                  Fer4_17  33 lleeaekeekaslCieCgeCerkCPqgl 60 
                              ++e+ +++++ ++C++ + C+  CP+++
  PHY93_12590|PHY93_12590 848 STEG-INQMVYNRCVGTRYCSNNCPYKV 874
                              4444.466899**************986 PP

  == domain 5  score: 9.7 bits;  conditional E-value: 0.00091
                  Fer4_17   1 rCiqCgyClpeCpsyea......ydnepkkllraaklglleeaekeekaslCieC 49 
                              rC + +yC ++Cp+  +      y++++ ++++  ++ ++  + ++ ++++C+ C
  PHY93_12590|PHY93_12590 859 RCVGTRYCSNNCPYKVRrfnfleYNDKKSEFVKMRSNPDVS-VRTRGVMEKCTYC 912
                              7************9444444343777666666555554443.4556799999988 PP

>> Fer4_21  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   1.1   0.00034      0.46       3      22 ..     768     787 ..     766     804 .. 0.74
   2 ?   13.3   6.7   4.9e-05     0.068       7      53 ..     827     872 ..     822     875 .. 0.89
   3 ?   -2.8   0.3       5.2   7.2e+03      13      21 ..     938     946 ..     929     952 .. 0.74

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00034
                  Fer4_21   3 idedkCigCgkCliaCedts 22 
                              id + C gC+ C+i C+ + 
  PHY93_12590|PHY93_12590 768 IDLNVCTGCNACVIGCQAEN 787
                              78888888888888888544 PP

  == domain 2  score: 13.3 bits;  conditional E-value: 4.9e-05
                  Fer4_21   7 kCigCgk..CliaCedtshqaieidaktvlkvvedeCvGCnlCssvCPv 53 
                               C++C+k  C ++C+   + a + +++ + ++v ++CvG   Cs+ CP 
  PHY93_12590|PHY93_12590 827 ACVHCEKapCEVVCP---VAATSHSTEGINQMVYNRCVGTRYCSNNCPY 872
                              7****9888******...67888889999999****************5 PP

  == domain 3  score: -2.8 bits;  conditional E-value: 5.2
                  Fer4_21  13 kCliaCedt 21 
                               C +aC ++
  PHY93_12590|PHY93_12590 938 ACQQACATK 946
                              688888753 PP

>> Fer4_2  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   1.9   0.00018      0.25       3      20 ..     766     783 ..     764     785 .. 0.85
   2 ?   10.6   2.8   0.00037       0.5       3      21 ..     821     841 ..     819     842 .. 0.85
   3 ?    5.2   0.7     0.018        25       7      22 .]     857     872 ..     853     872 .. 0.86
   4 ?   -1.8   1.2       3.2   4.4e+03      15      20 ..     938     943 ..     937     945 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00018
                   Fer4_2   3 vvvdtdrCigCgaCvsaC 20 
                              + +d + C+gC+aCv  C
  PHY93_12590|PHY93_12590 766 MSIDLNVCTGCNACVIGC 783
                              56899*********9888 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 0.00037
                   Fer4_2   3 vvvdtdrCigCg..aCvsaCP 21 
                               ++ + +C++C+  +C  +CP
  PHY93_12590|PHY93_12590 821 LYFQPLACVHCEkaPCEVVCP 841
                              5677889****889******* PP

  == domain 3  score: 5.2 bits;  conditional E-value: 0.018
                   Fer4_2   7 tdrCigCgaCvsaCPa 22 
                               +rC+g + C ++CP+
  PHY93_12590|PHY93_12590 857 YNRCVGTRYCSNNCPY 872
                              6799999********5 PP

  == domain 4  score: -1.8 bits;  conditional E-value: 3.2
                   Fer4_2  15 aCvsaC 20 
                              aC++aC
  PHY93_12590|PHY93_12590 938 ACQQAC 943
                              799999 PP

>> Fer4_8  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   2.0     0.015        21      46      63 ..     768     785 ..     716     787 .. 0.77
   2 ?    3.0  10.7       0.1   1.4e+02       2      63 ..     770     842 ..     769     844 .. 0.60
   3 ?    8.9   5.1    0.0015       2.1       3      54 ..     858     912 ..     856     947 .. 0.66

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.015
                   Fer4_8  46 ealwsCttcgaCtevCpv 63 
                                l+ Ct+c+aC+  C  
  PHY93_12590|PHY93_12590 768 IDLNVCTGCNACVIGCQA 785
                              467889999999999976 PP

  == domain 2  score: 3.0 bits;  conditional E-value: 0.1
                   Fer4_8   2 lekCieCgaCqsaCp............vlrrtkkhlldargeaaedvqeeqvlee...........eealwsCttcga..CtevCp 62 
                              l+ C++C aC   C             v+r + +h l                             +    +C++c++  C++vCp
  PHY93_12590|PHY93_12590 770 LNVCTGCNACVIGCQaennvpivgeaeVIRGREMHWLRVD--------------RyfegvpdfaklYFQPLACVHCEKapCEVVCP 841
                              678***********62222222222223333332222222..............22233455555567889******99******* PP

                   Fer4_8  63 v 63 
                              v
  PHY93_12590|PHY93_12590 842 V 842
                              8 PP

  == domain 3  score: 8.9 bits;  conditional E-value: 0.0015
                   Fer4_8   3 ekCieCgaCqsaCpvlrrtk.khlldargeaae..........dvqeeqvlee..eealwsCttc 54 
                              ++C++  +C ++Cp ++ ++ ++ l+ +++++e                      +  +++Ct c
  PHY93_12590|PHY93_12590 858 NRCVGTRYCSNNCP-YKVRRfNF-LEYNDKKSEfvkmrsnpdvS--------VrtRGVMEKCTYC 912
                              69***********9.45544233.33333333334344433332........1344558888877 PP

>> Fer4_4  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   3.1    0.0013       1.9       2      14 ..     771     783 ..     770     786 .. 0.88
   2 ?    6.7   2.9    0.0087        12       3      16 ..     827     842 ..     825     846 .. 0.92
   3 ?    4.3   0.9      0.05        69       1      16 [.     857     872 ..     857     876 .. 0.92

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.0013
                   Fer4_4   2 erCigCgsCvaaC 14 
                              + C+gC +Cv+ C
  PHY93_12590|PHY93_12590 771 NVCTGCNACVIGC 783
                              67*********** PP

  == domain 2  score: 6.7 bits;  conditional E-value: 0.0087
                   Fer4_4   3 rCigCgs..CvaaCPq 16 
                               C++C +  C+ +CP+
  PHY93_12590|PHY93_12590 827 ACVHCEKapCEVVCPV 842
                              5**************6 PP

  == domain 3  score: 4.3 bits;  conditional E-value: 0.05
                   Fer4_4   1 qerCigCgsCvaaCPq 16 
                              ++rC+g + C + CP+
  PHY93_12590|PHY93_12590 857 YNRCVGTRYCSNNCPY 872
                              58*************7 PP

>> Fer4_16  4Fe-4S double cluster binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.0   0.8     0.073     1e+02      53      64 ..     772     783 ..     754     788 .. 0.75
   2 ?    4.1   5.3     0.065        89       2      21 ..     828     849 ..     827     863 .. 0.79
   3 ?    3.6   1.8     0.098   1.3e+02       1      57 [.     859     912 ..     859     914 .. 0.73
   4 ?    4.3   0.0     0.056        78       6      33 ..     937     962 ..     936     973 .. 0.78

  Alignments for each domain:
  == domain 1  score: 4.0 bits;  conditional E-value: 0.073
                  Fer4_16  53 aitgCdiCqdvC 64 
                               +tgC++C+  C
  PHY93_12590|PHY93_12590 772 VCTGCNACVIGC 783
                              466666666666 PP

  == domain 2  score: 4.1 bits;  conditional E-value: 0.065
                  Fer4_16   2 CgtCgk..CaevCPtnaikekk 21 
                              C+ C+k  C  vCP++a ++ +
  PHY93_12590|PHY93_12590 828 CVHCEKapCEVVCPVAATSHST 849
                              *****************99873 PP

  == domain 3  score: 3.6 bits;  conditional E-value: 0.098
                  Fer4_16   1 rCgtCgkCaevCPtnaikekkekeiearecisyntaekkdlaedeekckkqeaitgC 57 
                              rC++ + C + CP ++ + +    +e+++++s+ ++++ +   + +++   e++t+C
  PHY93_12590|PHY93_12590 859 RCVGTRYCSNNCPYKVRRFN---FLEYNDKKSEFVKMRSNPDVSVRTRGVMEKCTYC 912
                              699999********998888...5666777777666666666666666666777777 PP

  == domain 4  score: 4.3 bits;  conditional E-value: 0.056
                  Fer4_16   6 gkCaevCPtnaikekkekeiearecisy 33 
                              ++C ++C t+ai     + ++++ ++s+
  PHY93_12590|PHY93_12590 937 TACQQACATKAIVFG--NLLDPQSEVSK 962
                              58**********988..66776666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (995 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       602  (0.0335769); expected 358.6 (0.02)
Passed bias filter:                      462  (0.0257683); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                        16  (0.000892409); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.75u 0.21s 00:00:00.96 Elapsed: 00:00:00.38
# Mc/sec: 7939.94
//
Query:       PHY93_12595|PHY93_12595  [L=442]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.8e-23   82.0  31.2    5.8e-23   82.0  31.2    1.6  2  NrfD      Polysulphide reductase, NrfD


Domain annotation for each model (and alignments):
>> NrfD  Polysulphide reductase, NrfD
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   82.0  31.2   3.2e-27   5.8e-23       5     309 ..      63     387 ..      59     389 .. 0.71
   2 ?   -4.5   0.7      0.72   1.3e+04     256     263 ..     415     422 ..     398     432 .. 0.46

  Alignments for each domain:
  == domain 1  score: 82.0 bits;  conditional E-value: 3.2e-27
                     NrfD   5 hsnsvvWglliavylFligis.Agalilaillklfkkkegkslkliirtgallaalavl.agllilvldlgrperflklll..... 83 
                              ++ ++ W + i ++++ igi+ Ag +i+aill l++k + +s+++++    l   +avl ag+ + +++lgrp+ f  l+      
  PHY93_12595|PHY93_12595  63 NNVPIAWAFDITNFVWWIGIGhAGTFISAILLLLRQKWR-TSINRFAEAMTL---IAVLcAGM-FPLIHLGRPWFFFWLFPypnnq 143
                              567899**************8678999999996666655.899999666666...55552444.4459******665555512222 PP

                     NrfD  84 ..yynfsSimswgvlllslyivvlvlyllvifekdlaakg....lpa.lgilaklisla...........ervakilaiialilav 151
                                 ++f+S++ w+v++  +y++v+ ++  + + +dla +       +  +i++ ++++            e+   +la +a++l v
  PHY93_12595|PHY93_12595 144 qvWPQFRSPLMWDVFAVLTYAFVSFIFWFIGLIPDLAVLRdkatT-KqGKIIYGILAMGwrgsarhwqryEKSYFLLAALAAPLVV 228
                              2234567*************9999987555455666666544432.2322444444444444456665554444499********* PP

                     NrfD 152 llgsytgfllsavlsrplwnspllpvlFlasaiasGlavlllasllaarfekesedagllkklellvilteagllv.....ilfvg 232
                              +++++    + av  +p w+s ++p+ F+a ai+sG a++l +  +  r+  + ed  +++ +e    + +a+ ++     ++  +
  PHY93_12595|PHY93_12595 229 SVHTIVSLDF-AVSIIPGWHSTIFPPYFVAGAIYSGFAMVLSL-AIPLRYFYKLEDFITIRHFENSAKILLAMGMFvaygyLMEAF 312
                              ****987666.34456*********************997755.344455557788888888877664444444442333323334 PP

                     NrfD 233 .laleggekiealeaalsggfltvlFwlgvvllglaiplllslavprlrenvavvviasilalvgvlllrfllliagq 309
                                +++g+   +++++  ++g++++++w  ++++ +++p +l  + +++r+n ++++i+s++ ++g+ l+rf+++++++
  PHY93_12595|PHY93_12595 313 mSWWSGDIFERYIAFNRISGPYAFVYWS-LIVANVIVPQVL--WFKKIRKNLKALFILSVIINIGMWLERFMIIVTSL 387
                              15556666677778878888******99.556668999995..*******************************9975 PP

  == domain 2  score: -4.5 bits;  conditional E-value: 0.72
                     NrfD 256 lFwlgvvl 263
                              lF l  ++
  PHY93_12595|PHY93_12595 415 LFFLLFLI 422
                              11111222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (442 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       647  (0.0360868); expected 358.6 (0.02)
Passed bias filter:                      215  (0.0119917); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.21s 00:00:00.77 Elapsed: 00:00:00.40
# Mc/sec: 3312.36
//
Query:       PHY93_12600|PHY93_12600  [L=175]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      3e-63  212.5   0.0    3.4e-63  212.3   0.0    1.0  1  DUF3341   Protein of unknown function (DUF3341)
  ------ inclusion threshold ------
        0.2   12.0   0.0       0.27   11.6   0.0    1.2  1  PFOR_II   Pyruvate:ferredoxin oxidoreductase core domain II


Domain annotation for each model (and alignments):
>> DUF3341  Protein of unknown function (DUF3341)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  212.3   0.0   3.8e-67   3.4e-63       1     168 [.       6     172 ..       6     174 .. 0.99

  Alignments for each domain:
  == domain 1  score: 212.3 bits;  conditional E-value: 3.8e-67
                              --B------SSHHHHHHHHHHHSS----EEB-SS--TT-TTTSS--SS-STHHHHHHHHHHHHHHHHHHHIIIIISS---STT--S CS
                  DUF3341   1 kgllaeFddedallkAakklreagykkldvysPfpvhgldealglkksrlpliallgGllGlalalllqvytsvvdyplnigGkPl 86 
                              +gl+aeF++++++l+A+kk+ +ag++k+d++sPfp+ gl+e lg   + +++ial +GllGl+++++lq+y s++ yp+nigG+Pl
  PHY93_12600|PHY93_12600   6 YGLMAEFKEPEEVLRAVKKVYSAGFRKIDAFSPFPIDGLAEELGQTCEVIGWIALSCGLLGLLTGIILQYYSSAIAYPMNIGGRPL 91 
                              699*********************************************************************************** PP

                              S-HHHHHHHHTHHHHHHHHHHHHHTTTTTT-S-----TTTT-TTGGG.TTTS---EE--S-SS---HHHHHHTTSS--S--- CS
                  DUF3341  87 fslpafipitFEltvLfaalatvlgllllnglprlyhpvfkaenfdrratdDkffllieatdpkfdeeelkalLkelgAeev 168
                              +s+p+f+p++FEl+vLfaa + vl ++lln+lp++yhpvf++++f+  +t+D+ffllie++dp fd ++++ +L++l+Ae+v
  PHY93_12600|PHY93_12600  92 NSWPSFVPVCFELMVLFAATGSVLSMFLLNRLPKPYHPVFNSPEFNF-VTRDRFFLLIEKNDPLFDLQNTRIFLESLNAEQV 172
                              ***********************************************.********************************99 PP

>> PFOR_II  Pyruvate:ferredoxin oxidoreductase core domain II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0     3e-05      0.27      19      68 ..      19      66 ..       5      92 .. 0.65

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 3e-05
                             HHHHHHTT--EEEEEES--BS--HHHHHHHSTT.-SEEEEEE-S--TT-G- CS
                  PFOR_II 19 vdelReegikvGllrlrtlrPFPeeelkellkk.vkkvvvldrnisfgseG 68
                              +++ ++ +++G+ ++ ++ PFP + l+e l + ++ +  + +++  g  G
  PHY93_12600|PHY93_12600 19 LRAV-KKVYSAGFRKIDAFSPFPIDGLAEELGQtCEVIGWIALSC--GLLG 66
                             4444.445899***************9887755055555666666..4444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (175 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       322  (0.0179597); expected 358.6 (0.02)
Passed bias filter:                      271  (0.0151152); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.41u 0.20s 00:00:00.61 Elapsed: 00:00:00.36
# Mc/sec: 1449.00
//
Query:       PHY93_12605|PHY93_12605  [L=160]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.8e-13   50.6   0.0    3.2e-13   49.8   0.0    1.4  1  Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
      1e-06   29.8   0.0      2e-06   28.8   0.0    1.5  1  Cytochrom_C      Cytochrome c


Domain annotation for each model (and alignments):
>> Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.8   0.0   3.6e-17   3.2e-13       2      67 .]      71     151 ..      70     151 .. 0.83

  Alignments for each domain:
  == domain 1  score: 49.8 bits;  conditional E-value: 3.6e-17
          Cytochrome_CBB3   2 aaaaGaalykknCasCHg..kggag..........pslagrdwep...dalvdiiknGkgaMpafggqlsdeelwalvaYl 67 
                               +++G+++y+ +C  CHg   +g g          ps + + +++   ++++ +i+nG g M   g++++++++wa++aY+
  PHY93_12605|PHY93_12605  71 LLKRGQERYEIYCMVCHGkfGDGEGivtqrgfshpPSYHTDFLREassAHFYYVITNGQGLMTRLGDRVNPKDRWAIIAYI 151
                              579***************6433444777777888777776644445669*******************************8 PP

>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.8   0.0   2.2e-10     2e-06       2      91 ..      73     154 ..      72     155 .. 0.78

  Alignments for each domain:
  == domain 1  score: 28.8 bits;  conditional E-value: 2.2e-10
                              --HHHHHHTTGGGTB-SSSBSSS....--HHHHHHHTTT-HHHHHHHHTTSS--SSSHHHHHHHGGGGGGG.TT--HHHHHHHHHH CS
              Cytochrom_C   2 arGkelftanCaaCHgvegggakqgggptlsgaaerasaasigasvanpaavsaprddfekkkltaemparkerlteqeiadlaaY 87 
                              +rG+e ++  C+ CHg  g g ++    t +g     s+  ++ +  +   ++  +++ +++ l++       r++++++++++aY
  PHY93_12605|PHY93_12605  73 KRGQERYEIYCMVCHGKFGDGEGIV---TQRGFSHPPSY--HTDFLREASSAHFYYVITNGQGLMTRLGD---RVNPKDRWAIIAY 150
                              79*****99************9864...55555555555..55555555557999999999997777665...6************ PP

                              HHTT CS
              Cytochrom_C  88 Lksl 91 
                              ++sl
  PHY93_12605|PHY93_12605 151 IRSL 154
                              **98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (160 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       531  (0.0296168); expected 358.6 (0.02)
Passed bias filter:                      484  (0.0269954); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 1193.69
//
Query:       PHY93_12610|PHY93_12610  [L=353]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        4.8    6.5   4.9          9    5.6   4.9    1.4  1  DUF373    Domain of unknown function (DUF373)


Domain annotation for each model (and alignments):
>> DUF373  Domain of unknown function (DUF373)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   4.9    0.0005         9     214     333 ..     134     272 ..     118     273 .. 0.84

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.0005
                   DUF373 214 leegritfvtyvvallllligiisgyislesvss.asvssglltlilafiygavewlalailtaslgkiideylkreekdiarlll 298
                              ++++++t   y++a  l +  ii +++s++  +s ++ +++++ + l++i++ v    +++l++ +  +i+   k++ ++++r   
  PHY93_12610|PHY93_12610 134 WRTKSLTRGPYMAAWGLCFYIIIMSFASIDWFMSrDPEWYSTV-YSLIWIMAQVSSAFAVVLLVKFPGFIQLPQKENIDQLNRDQG 218
                              5667777778999999999999999999888888444445554.45556888888888888888999999999989999******* PP

                   DUF373 299 lpflvlaiglvlygasaylls...................lsilalslvvgivv 333
                              ++f+v+ ++    +++++l+                    ++ilals++ g++v
  PHY93_12610|PHY93_12610 219 TIFFVFLMTWAYLSFMQFLIVwsgnlpkevnwylvrlnagWEILALSIIFGLLV 272
                              *******************77999*******99999999999999999999886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (353 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       631  (0.0351944); expected 358.6 (0.02)
Passed bias filter:                      220  (0.0122706); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.22s 00:00:00.73 Elapsed: 00:00:00.39
# Mc/sec: 2689.63
//
Query:       PHY93_12615|PHY93_12615  [L=176]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.9e-18   66.9   0.0    2.6e-18   66.5   0.0    1.1  1  HipA_C    HipA-like C-terminal domain


Domain annotation for each model (and alignments):
>> HipA_C  HipA-like C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.5   0.0   1.5e-22   2.6e-18      88     209 ..       8     137 ..       4     140 .. 0.83

  Alignments for each domain:
  == domain 1  score: 66.5 bits;  conditional E-value: 1.5e-22
                              --GGGCSCC..-.-HHHHHHHHCCCTTHH..HHHHHHHHHHHHHHHCTBTT--GGGSEEEECCCEEEE--B-S--BSGCCTTT... CS
                   HipA_C  88 ldpeekYek..g.syeelakllrqlsataseedleelfrrmvfniligNtDdHlKNfsllrgggrwrLaPaYDlvstaayedee.. 168
                               ++++kYe+  g ++++ +kl++ +s+ a+  dl++l+ +  +n++igN+D H KN+++++++g++rL+P+YDl+st +y++ +  
  PHY93_12615|PHY93_12615   8 FTSSKKYESdgGpTFASNFKLAKDVSN-APIPDLNQLLMWFWYNLIIGNNDCHSKNLAFVQSNGGLRLSPFYDLLSTSIYKEITpk 92 
                              56789***99658************64.679******************************8889***************433366 PP

                              ECCEECCSSSEEEE....HHHHHHHCT--HHHHHHHHHHHHHHHH CS
                   HipA_C 169 lalsiggekgrear....faelaeelglkekaaeeiieevveaav 209
                               + +igg   +++     + +la+e+g++e ++++ ++++ ++++
  PHY93_12615|PHY93_12615  93 FSYNIGGIYLWHKIqnkhLVNLAKEIGISEVTIKNPANKLFKEID 137
                              777777766665556666888999999998888888888777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (176 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       580  (0.0323498); expected 358.6 (0.02)
Passed bias filter:                      406  (0.0226449); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1317.72
//
Query:       PHY93_12620|PHY93_12620  [L=121]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.3e-23   81.1   0.0    7.1e-23   80.9   0.0    1.0  1  Response_reg  Response regulator receiver domain
  ------ inclusion threshold ------
      0.022   15.1   0.0      0.034   14.5   0.0    1.3  1  FleQ          Flagellar regulatory protein FleQ


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   80.9   0.0   7.9e-27   7.1e-23       1     111 [.       9     118 ..       9     119 .. 0.94

  Alignments for each domain:
  == domain 1  score: 80.9 bits;  conditional E-value: 7.9e-27
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHH.ESEEEEESSCSSSEHHHHHHHH.HHCTTTSEEEEEESSTSHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeek.vdlillDinmpgmdGlellkei.reedpelpviiltahseee 84 
                              +li++Dd ++  +++++l+ egy +v+ ae+g  alel+k++  ++l+llD++mp m+G ++++e   + d++ p+i++ta+++  
  PHY93_12620|PHY93_12620   9 ILIIEDDLDISFAVSSFLQGEGY-QVQIAENGFVALELIKKNGvPNLVLLDMMMPVMNGWQFATEFaAQFDNSSPIIVMTAAAD-- 91 
                              8**********************.***************88887**********************5555599*******9998.. PP

                              HHHHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  85 davealkagaddflsKpfdpeeLlkal 111
                                ++a ++ga + + Kpf  ++L++ +
  PHY93_12620|PHY93_12620  92 AEQRAKDIGATGWIEKPFGFSKLIALI 118
                              778999*****************9987 PP

>> FleQ  Flagellar regulatory protein FleQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0   3.8e-06     0.034       2     105 ..       9     119 ..       8     120 .. 0.77

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 3.8e-06
                     FleQ   2 iLvidddaerrrdletiLeFlgeeveavsseelsaaleesssealavilgsvs....sleealealaekdphlPvlllgesdea.e 82 
                              iL+i+dd + + +++  L+  g +v++ ++  ++ +l +++    +v+l+ +     + + a e  a+ d++ P+++++  ++a +
  PHY93_12620|PHY93_12620   9 ILIIEDDLDISFAVSSFLQGEGYQVQIAENGFVALELIKKNGVPNLVLLDMMMpvmnGWQFATEFAAQFDNSSPIIVMTAAADAeQ 94 
                              899999999999999999988888888888777555555555555555555545676667777778888999************55 PP

                     FleQ  83 elan..vigelelPlnYnqLtdlLh 105
                              ++++    g +e P+ +++L++l++
  PHY93_12620|PHY93_12620  95 RAKDigATGWIEKPFGFSKLIALIK 119
                              5555999999***********9997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (121 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       340  (0.0189637); expected 358.6 (0.02)
Passed bias filter:                      297  (0.0165653); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.41u 0.23s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 910.90
//
Query:       PHY93_12625|PHY93_12625  [L=455]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.9e-26   92.2   0.1    5.3e-26   91.3   0.1    1.5  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    5.5e-10   39.1   2.0    1.5e-09   37.8   1.3    2.1  2  HisKA        His Kinase A (phospho-acceptor) domain
      3e-05   24.2   0.0    0.00014   22.0   0.0    2.0  2  PAS_4        PAS fold
     0.0019   18.0   0.0     0.0035   17.2   0.0    1.4  1  HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like
  ------ inclusion threshold ------
      0.014   15.7   0.0       0.05   13.9   0.0    2.0  1  PAS_9        PAS domain
      0.035   14.1   0.6      0.084   12.8   0.0    1.9  2  HATPase_c_2  Histidine kinase-like ATPase domain


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   91.3   0.1   1.8e-29   5.3e-26       3     110 ..     345     452 ..     343     454 .. 0.93

  Alignments for each domain:
  == domain 1  score: 91.3 bits;  conditional E-value: 1.8e-29
                              HHHHHHHHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCH.HCSTCHTSTSSSHHHHHHHHHHHH CS
                HATPase_c   3 ekrLrqiisnlvdNavkfatkageieveikaseddlvisveDnGiGipkedlkklfekfsq.ddstkrggggtGlGlsivkklvel 87 
                                r+ q++ nl+dNavk+ t++geie+ ++   + +++sv+D G Gipke++ +lf++fs+ ++++++++ g GlGls+++ +++l
  PHY93_12625|PHY93_12625 345 LVRINQVLANLLDNAVKY-TSEGEIEIMLEEMPKVIRVSVTDHGDGIPKEQQALLFTAFSRgSSDATIRTTGLGLGLSVCQGIMDL 429
                              67999*************.99*********63379**************************9888888899*************** PP

                              TTTEEEEEEETTTEEEEEEEEES CS
                HATPase_c  88 mgGeiwvesepgrGttftftlpl 110
                              + G+i   s++g+G+tf+f+lp+
  PHY93_12625|PHY93_12625 430 HSGTIGHVSKEGQGSTFYFELPK 452
                              *******************9996 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       2.2   6.7e+03      51      64 ..     133     146 ..     130     148 .. 0.84
   2 !   37.8   1.3   4.9e-13   1.5e-09       4      65 ..     235     297 ..     232     298 .. 0.90

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 2.2
                              HHHHHHHHHHHCCH CS
                    HisKA  51 ldhlvedlLdlsri 64 
                              ++h ved+ +++++
  PHY93_12625|PHY93_12625 133 ILHHVEDVTEFEKL 146
                              7899****999987 PP

  == domain 2  score: 37.8 bits;  conditional E-value: 4.9e-13
                              HHHHHHHHHHHHHHHHHHHHHHHHHC...T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHH CS
                    HisKA   4 rflagvaHELrtPLsailgnaeaLkre.gklteelkeyletiesearrldhlvedlLdlsrie 65 
                              +fl   aHELrtP++a+++ +e+ + + +k  +   + +++++  ++rl +lv dlLd+sr+e
  PHY93_12625|PHY93_12625 235 KFLDIAAHELRTPITALSLLLELVEAQiEKGQPINVDTIARLRAPTDRLARLVVDLLDISRLE 297
                              79999*******************99875556888889999999999**************98 PP

>> PAS_4  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.0   0.0   4.8e-08   0.00014       5     109 ..      21     144 ..      17     145 .. 0.87
   2 ?   -1.0   0.0      0.68     2e+03       7      39 ..     199     233 ..     195     251 .. 0.68

  Alignments for each domain:
  == domain 1  score: 22.0 bits;  conditional E-value: 4.8e-08
                    PAS_4   5 pdalavl...dpdgrvlyaNaaaaelfgappeellGktlaellpee.......daarleralrrvlegeepiefleelll.....p 75 
                               ++++vl   +p ++++++N  + + +++ +e+ll k ++e +p+           +l++ l++v++g ++i+f+ + +      +
  PHY93_12625|PHY93_12625  21 RVPCLVLlpdNPKFTIIAVNDDFVSQVKINREDLLSKGVFEAFPHNpndptatGVFNLRASLNKVIKG-RVIDFMSVQKYdisrpE 105
                              56667777899*************************************999988899***********.6******99999***95 PP

                    PAS_4  76 geerhyelrl.....lPlrdesGevigvlvisrDiTerr 109
                               e+  +e r+     +P++d++G    +l ++ D+Te++
  PHY93_12625|PHY93_12625 106 SEGGGFEERYwspinSPIFDSHGVLTYILHHVEDVTEFE 144
                              555555555555555**********************86 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.68
                    PAS_4   7 alavldpdgrvlyaNaaaae..lfgappeellGkt 39 
                              a++v+++   +l a +aa+e  l++ ++e+l  ++
  PHY93_12625|PHY93_12625 199 AILVKNAAEEILLAKKAAEEaiLAKKAAEDLAERK 233
                              78899999999999999888645555555555555 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.0   1.2e-06    0.0035       4      54 ..     349     399 ..     346     443 .. 0.76

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 1.2e-06
              HATPase_c_3   4 ekAlaelvdNsld.AdaenvkievnknrgktgeivieDdGkGmseeelknal 54 
                              +++la l+dN++   +  +++i +++ + k+ +++++D G+G+++e+    +
  PHY93_12625|PHY93_12625 349 NQVLANLLDNAVKyTSEGEIEIMLEEMP-KVIRVSVTDHGDGIPKEQQALLF 399
                              789*********9667778*******98.79*************99644332 PP

>> PAS_9  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   1.7e-05      0.05       2     104 .]      24     142 ..      23     142 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 1.7e-05
                    PAS_9   2 dgili.dnpdgrilyaNeaalrllGyspeevlgksitdlf.....vtdpeanerlraaleqgrk.......kerevevvlirkng. 73 
                              + +l+ dnp+++i+ +N+ +      ++e++l k +++ f     ++ + +  +lra l+   k       +++ +++    ++g 
  PHY93_12625|PHY93_12625  24 CLVLLpDNPKFTIIAVNDDFVSQVKINREDLLSKGVFEAFphnpnDPTATGVFNLRASLNKVIKgrvidfmSVQKYDISRPESEGg 109
                              5567799*********************************8765533333444444444444448888888899999999999998 PP

                    PAS_9  74 ...etfwvlltaspvkdddgelvgiivilrDite 104
                                 e++w  ++  p++d++g l+ i+  ++D+te
  PHY93_12625|PHY93_12625 110 gfeERYWSPINS-PIFDSHGVLTYILHHVEDVTE 142
                              888888866765.999999999999999999997 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.2       1.4     4e+03      26      26 ..     175     175 ..     141     222 .. 0.61
   2 ?   12.8   0.0   2.8e-05     0.084      43     110 ..     355     428 ..     339     445 .. 0.69

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 1.4
              HATPase_c_2  26 e 26 
                              +
  PHY93_12625|PHY93_12625 175 Q 175
                              1 PP

  == domain 2  score: 12.8 bits;  conditional E-value: 2.8e-05
              HATPase_c_2  43 avehayleapegpvevrlesdeealtvevaDsGpgfdpetlpdpteeep........keslkegGrGlalikglvD 110
                                  a +  +eg++e+ le  ++ ++v+v+D+G g + e+++      +        +      G+Gl + +g++D
  PHY93_12625|PHY93_12625 355 LLDNAVKYTSEGEIEIMLEEMPKVIRVSVTDHGDGIPKEQQALLFT--AfsrgssdaTIRTTGLGLGLSVCQGIMD 428
                              444444445569***********************66655443332..1235777544444445666667777777 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (455 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       500  (0.0278878); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.40
# Mc/sec: 3441.99
//
Query:       PHY93_21360|PHY93_21360  [L=131]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (131 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       521  (0.0290591); expected 358.6 (0.02)
Passed bias filter:                      466  (0.0259914); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 999.20
//
Query:       PHY93_12630|PHY93_12630  [L=162]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.036   14.1   0.0      0.061   13.4   0.0    1.4  1  NLPC_P60  NlpC/P60 family


Domain annotation for each model (and alignments):
>> NLPC_P60  NlpC/P60 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   3.4e-06     0.061      16      74 ..      63     128 ..      55     160 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 3.4e-06
                              HHHHHHHHHHTTT----SSHHHHCCCSEE..EEGGG--TTEEEEESG..TGGESEEEEEE.....E CS
                 NLPC_P60  16 CsglvryafakagielprssgeqeaagkkkeiskselkrGDLvffkt..kkgisHvgiYl.....g 74 
                              C+ ++ +++ +ag   ++ +   +++ k  + + +++++GD +++ +   ++++H +i++     +
  PHY93_12630|PHY93_12630  63 CWDYINTVYDRAGFLENQRTTIFKSKLKGPYLKTTRIEPGDWLYYVNhsYSNTEHSAIFVawtdeE 128
                              ************999999888889999999***************998999*******99777551 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (162 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       690  (0.0384851); expected 358.6 (0.02)
Passed bias filter:                      509  (0.0283898); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.24s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1190.92
//
Query:       PHY93_12635|PHY93_12635  [L=122]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
     0.0064   16.7   0.0     0.0067   16.6   0.0    1.3  1  Glyoxalase    Glyoxalase/Bleomycin resistance protein/Dioxyge
     0.0097   15.8   0.1      0.021   14.7   0.1    1.6  1  Glyoxalase_2  Glyoxalase-like domain
  ------ inclusion threshold ------
      0.051   14.4   0.0      0.063   14.1   0.0    1.1  1  Glyoxalase_6  Glyoxalase-like domain
      0.098   12.6   0.0       0.15   12.0   0.0    1.4  1  Crystall_2    Beta/Gamma crystallin


Domain annotation for each model (and alignments):
>> Glyoxalase  Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   1.5e-06    0.0067       2      50 ..       6      57 ..       5     116 .. 0.76

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 1.5e-06
                             EEEEEEEESHHHHHHHHHHHHHTSEEEEEEEE.......EESTEEEEEEEEETTTS CS
               Glyoxalase  2 idhvallvgdleksldFYtkvLGfklvkktdn.......teeteglriaffhaggg 50
                             i+++ ++v+dl+++ +FY+  L+ k  k + +             +++  + agg 
  PHY93_12635|PHY93_12635  6 IGWFEIYVNDLARAKKFYETMLDTKFEKLSSDshlemwgF----PMDMQTMGAGGA 57
                             67899*******************9999888765533330....333444444444 PP

>> Glyoxalase_2  Glyoxalase-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.1   4.8e-06     0.021       6      85 ..      11      93 ..       7     120 .. 0.67

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 4.8e-06
                             -EES-HHHHHHHHHHTT---EEE.E-SSEEEETTS-EE....EEHHHHHH-------S--SS-EEEEEES-HHHHHHHH..GGGS CS
             Glyoxalase_2  6 lvvkdieeskkFYedvlelkikl.dfGenvsfetgfal....kedlkelinldesiaeqsnnfeLyFevedvdaflqklkeaeni 85
                             ++v+d+ ++kkFYe +l+ k ++    ++++   gf +         +l++++  +    n + +yF+ +d +   +k+ +a+ +
  PHY93_12635|PHY93_12635 11 IYVNDLARAKKFYETMLDTKFEKlSSDSHLE-MWGFPMdmqtMGAGGALVKME-GVEAGNNSVIVYFKSDDCNIEEKKVSSAGGV 93
                             79****************9986513333333.335544110022233444443.4455677788888888888888877776655 PP

>> Glyoxalase_6  Glyoxalase-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   1.4e-05     0.063       6     102 ..      13     116 ..       8     120 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 1.4e-05
             Glyoxalase_6   6 aadpaalaaFwaaalgweveree........aaledpegvgpaaedaatllfqrvpepaknrvHldlavedldaevarlvalGArv 83 
                              ++d a++ +F++++l+++ e+ +             p  ++  ++++a + ++ v+  ++n v + ++ +d   e +++ ++G+ v
  PHY93_12635|PHY93_12635  13 VNDLARAKKFYETMLDTKFEKLSsdshlemwG---FPMDMQTMGAGGALVKMEGVEA-GNNSVIVYFKSDDCNIEEKKVSSAGGVV 94 
                              679999*********99999999777774331...2333333345666666666666.8999************************ PP

             Glyoxalase_6  84 lreprdgthgr...vlaDPeGn 102
                               +++ + ++ +    ++D eGn
  PHY93_12635|PHY93_12635  95 FKPKFSIGNYGfisLVKDTEGN 116
                              ****99988889*99******9 PP

>> Crystall_2  Beta/Gamma crystallin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   3.3e-05      0.15      28      46 ..      62      80 ..      49     103 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 3.3e-05
               Crystall_2 28 dristGnNkvtyndangdl 46
                             + +++GnN v++++++ d 
  PHY93_12635|PHY93_12635 62 EGVEAGNNSVIVYFKSDDC 80
                             4589**********99875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (122 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       422  (0.0235373); expected 358.6 (0.02)
Passed bias filter:                      377  (0.0210274); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.39u 0.22s 00:00:00.61 Elapsed: 00:00:00.38
# Mc/sec: 963.84
//
Query:       PHY93_20170|PHY93_20170  [L=395]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.7e-22   78.7  35.2    3.6e-18   65.6  14.0    2.1  2  MFS_1          Major Facilitator Superfamily
  ------ inclusion threshold ------
       0.24   11.8   0.5         13    6.2   0.1    2.4  2  Ribosomal_S22  30S ribosomal protein subunit S22 family
       0.39   10.7   0.1       0.39   10.7   0.1    2.9  3  DUF1358        Protein of unknown function (DUF1358)


Domain annotation for each model (and alignments):
>> MFS_1  Major Facilitator Superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.6  14.0     6e-22   3.6e-18      10     232 ..      16     238 ..       9     274 .. 0.80
   2 !   19.2  13.2     8e-08   0.00048      67     172 ..     282     386 ..     279     390 .. 0.88

  Alignments for each domain:
  == domain 1  score: 65.6 bits;  conditional E-value: 6e-22
                    MFS_1  10 larsilgpalplalaedlgispseigllltlyalgaavaslplGrlsdrfGrrrvlllglllfalglllllfa.sslwlllvlrvl 94 
                              +++++++++++  l +d g+s  +i+l +++ ++  a++ +p+G+++d fG+++  ++g ++ a+gl+l+l++ +++ +++++  l
  PHY93_20170|PHY93_20170  16 YGAMLFSIVAS-PLLHDVGVSFKTISLGFGVLYVILALFEIPTGVWADLFGAKKSSIIGGIIQAIGLFLFLLSkNNSLIVIASFTL 100
                              55556666666.788***************************************************4444467566669******* PP

                    MFS_1  95 qGlgagalfpagaaliadwfpke.....ergraigllsagfslGailgpllggllasslgWravfyilaivsllafvlfllllpee 175
                               G+g++++  a  al+   ++ e     + +++++++  ++  ++il+ +  g+l+++lg  ++f ++++++l+a++++ + + ee
  PHY93_20170|PHY93_20170 101 YGIGSSFISGALSALLYSSTKNEdagkfDSNKYFSIIEKTSVSSYILASASVGFLSHWLGL-YSFAVAGLIYLFAVIIVSISVHEE 185
                              **********************989999999*************************99985.79*************999999999 PP

                    MFS_1 176 pperkrkspkeeekgtgpaplvpawkallkdpvlwillialllfffgfsg.lltllpl 232
                              +++ k+ ++  e    + ++++ ++k++ +++ l  +l+ + +   + s+    +lp 
  PHY93_20170|PHY93_20170 186 ATNDKPHKKLSE----FISKAILGLKYIISNNELK-ILLPIRMLNQVESIlGILWLPW 238
                              999999999999....7777777899999999774.3333333322333334444444 PP

  == domain 2  score: 19.2 bits;  conditional E-value: 8e-08
                    MFS_1  67 lglllfalglllllfasslw.lllvlrvlqGlgagalfpagaaliadwfpkeergraigllsagfslGailgpllggllasslgWr 151
                              ++ll+++ g+l+++++s+++ +l+ +++++G+  g+++pa +a+  d fp++ r+ ++++++ ++ + +++ + +++  ++ l   
  PHY93_20170|PHY93_20170 282 ISLLIMGGGTLICALTSNVYlALIGVWIMAGAR-GVFLPATQAIQHDAFPDDIRSTGLSMMNFSVEIMIAVSYFVSATWIDGLEAN 366
                              789999999777777799998888888888886.9*************************************************99 PP

                    MFS_1 152 avfyilaivsllafvlfllll 172
                               +++i  +++l++++ f++++
  PHY93_20170|PHY93_20170 367 IAWFISMGAFLISVL-FIIFF 386
                              998888888888855.44554 PP

>> Ribosomal_S22  30S ribosomal protein subunit S22 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.2   0.1    0.0022        13       1      13 [.       1      13 [.       1      15 [. 0.96
   2 ?    3.4   0.0     0.016        97       9      20 ..     202     213 ..     196     219 .. 0.80

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.0022
            Ribosomal_S22  1 mKSNrQARHlLGL 13
                             mKS  +AR +LGL
  PHY93_20170|PHY93_20170  1 MKSENKARLILGL 13
                             9***********9 PP

  == domain 2  score: 3.4 bits;  conditional E-value: 0.016
            Ribosomal_S22   9 HlLGLdyKlSrQ 20 
                               +LGL y +S+ 
  PHY93_20170|PHY93_20170 202 AILGLKYIISNN 213
                              69********96 PP

>> DUF1358  Protein of unknown function (DUF1358)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.1   6.6e-05      0.39      58      99 ..      25      67 ..      20      76 .. 0.87
   2 ?    0.9   0.4     0.071   4.2e+02      32      89 ..     106     165 ..      87     177 .. 0.73
   3 ?   -0.9   0.1      0.26   1.6e+03      58      97 ..     282     312 ..     246     317 .. 0.51

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 6.6e-05
                  DUF1358 58 asialkesGaslalralGWGslyallGvGllsfaiWk.llGvk 99
                             as  l++ G s+   +lG+G ly +l    +  ++W  l G+k
  PHY93_20170|PHY93_20170 25 ASPLLHDVGVSFKTISLGFGVLYVILALFEIPTGVWAdLFGAK 67
                             677899******************************5256766 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.071
                  DUF1358  32 salaGfsktl..alakkkdpkyfekGvaasialkesGaslalralGWGslyallGvGlls 89 
                              s + G  ++l  +++k +d+  f+     si+ k s +s  l +   G l  +lG   ++
  PHY93_20170|PHY93_20170 106 SFISGALSALlySSTKNEDAGKFDSNKYFSIIEKTSVSSYILASASVGFLSHWLGLYSFA 165
                              556665555522456788888999999999999999999999888888888888765444 PP

  == domain 3  score: -0.9 bits;  conditional E-value: 0.26
                  DUF1358  58 asialkesGaslalralGWGslyallGvG..llsfaiWkllG 97 
                               s+ +           +G G+l   l     l  +++W + G
  PHY93_20170|PHY93_20170 282 ISLLI-----------MGGGTLICALTSNvyLALIGVWIMAG 312
                              34333...........44455544333220022345555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (395 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       777  (0.0433376); expected 358.6 (0.02)
Passed bias filter:                      300  (0.0167327); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 2897.39
//
Query:       PHY93_20175|PHY93_20175  [L=80]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.015   15.8   0.0      0.051   14.1   0.1    1.8  3  RHS_repeat  RHS Repeat
      0.055   13.2   0.1       0.36   10.6   0.0    2.0  2  Spin-Ssty   Spin/Ssty Family


Domain annotation for each model (and alignments):
>> RHS_repeat  RHS Repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.1   5.7e-06     0.051      16      38 .]       5      27 ..       3      27 .. 0.92
   2 ?   -2.6   0.0      0.97   8.7e+03      11      36 ..      49      53 ..      47      59 .. 0.52
   3 ?   -2.5   0.0      0.93   8.4e+03      11      18 ..      70      77 ..      64      78 .. 0.67

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 5.7e-06
               RHS_repeat 16 rvttYtYDaqGrlttlTdpdGrt 38
                             ++t+Y  D++G++ ++T+  G+t
  PHY93_20175|PHY93_20175  5 LTTSYKHDGLGNVIETTNEKGET 27
                             5799*****************97 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 0.97
               RHS_repeat 11 tdpsGrvttYtYDaqGrlttlTdpdG 36
                              dp                      G
  PHY93_20175|PHY93_20175 49 IDP---------------------KG 53
                             455.....................44 PP

  == domain 3  score: -2.5 bits;  conditional E-value: 0.93
               RHS_repeat 11 tdpsGrvt 18
                              dp G+ t
  PHY93_20175|PHY93_20175 70 IDPKGVKT 77
                             47777665 PP

>> Spin-Ssty  Spin/Ssty Family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.0      0.06   5.4e+02       2      13 ..      15      26 ..      14      38 .. 0.67
   2 ?   10.6   0.0     4e-05      0.36      16      28 ..      59      71 ..      51      74 .. 0.82

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.06
                Spin-Ssty  2 Gkrvehtweegd 13
                             G+ +e t+e+g+
  PHY93_20175|PHY93_20175 15 GNVIETTNEKGE 26
                             777777777772 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 4e-05
                Spin-Ssty 16 ksqwkGtVLdQvp 28
                             + +w+G+V++Q+ 
  PHY93_20175|PHY93_20175 59 EHEWRGKVIYQID 71
                             579********85 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (80 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       456  (0.0254337); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.38u 0.21s 00:00:00.59 Elapsed: 00:00:00.37
# Mc/sec: 647.12
//
Query:       PHY93_20180|PHY93_20180  [L=144]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    3.8e-09   36.9   0.0     0.0002   21.8   0.0    4.1  4  RHS_repeat  RHS Repeat
  ------ inclusion threshold ------
      0.077   13.3   0.0       0.12   12.7   0.0    1.3  1  Psb28       Psb28 protein


Domain annotation for each model (and alignments):
>> RHS_repeat  RHS Repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.1   0.0    0.0038        34      16      34 ..      24      42 ..       4      46 .. 0.65
   2 ?    1.2   0.1     0.064   5.7e+02      27      37 ..      60      69 ..      56      74 .. 0.71
   3 !   21.8   0.0   2.3e-08    0.0002       2      35 ..      76     109 ..      76     112 .. 0.94
   4 !    9.0   0.0   0.00023         2       1      32 [.      96     128 ..      96     134 .. 0.88

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.0038
               RHS_repeat 16 rvttYtYDaqGrlttlTdp 34
                             ++t+  Y+++G + +++dp
  PHY93_20180|PHY93_20180 24 LITRMNYNERGEIISVIDP 42
                             3488888888888888888 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.064
               RHS_repeat 27 rlttlTdpdGr 37
                             r+t lTd+ G 
  PHY93_20180|PHY93_20180 60 RIT-LTDAEGG 69
                             444.7777774 PP

  == domain 3  score: 21.8 bits;  conditional E-value: 2.3e-08
               RHS_repeat   2 DaaGrLtevtdpsGrvttYtYDaqGrlttlTdpd 35 
                              D++G++++  d++G   t+ Y+ +G++++  +p+
  PHY93_20180|PHY93_20180  76 DPLGQVVASKDANGIESTFAYNTLGNIVSSSTPQ 109
                              899************9************999987 PP

  == domain 4  score: 9.0 bits;  conditional E-value: 0.00023
               RHS_repeat   1 YDaaGrLtevtdpsGrv.ttYtYDaqGrlttlT 32 
                              Y+ +G++++ ++p+  +  ++ YD  ++l ++ 
  PHY93_20180|PHY93_20180  96 YNTLGNIVSSSTPQAAIgQSFAYDKSNNLISVG 128
                              999*******9999888788*********8875 PP

>> Psb28  Psb28 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   1.3e-05      0.12      36      82 ..      47      96 ..      22     101 .. 0.70

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 1.3e-05
                             HHHCTS.-GCG---EEEEETTEEEEE--EE..EEEETTEEEE.EEEEEEE CS
                    Psb28 36 kalekesstkeitglyliDeEGeistrevk..akfvngkpea.leatyel 82
                              ++++  +t++ + ++l+D EG i+tre +   ++v  k+++ +e+t+  
  PHY93_20180|PHY93_20180 47 LTIARAINTDKSERITLTDAEGGIQTRELDplGQVVASKDANgIESTFAY 96
                             34455557888****************98633466665555458888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (144 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       368  (0.0205254); expected 358.6 (0.02)
Passed bias filter:                      303  (0.0169); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.20s 00:00:00.63 Elapsed: 00:00:00.38
# Mc/sec: 1140.41
//
Query:       PHY93_20185|PHY93_20185  [L=71]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (71 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1470  (0.0819901); expected 358.6 (0.02)
Passed bias filter:                      297  (0.0165653); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.35u 0.20s 00:00:00.55 Elapsed: 00:00:00.35
# Mc/sec: 606.96
//
Query:       PHY93_20190|PHY93_20190  [L=70]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.074   13.0   0.4      0.074   13.0   0.4    1.5  2  NdhL      NADH dehydrogenase transmembrane subunit


Domain annotation for each model (and alignments):
>> NdhL  NADH dehydrogenase transmembrane subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.4   4.1e-06     0.074      16      37 ..       6      27 ..       1      36 [. 0.79
   2 ?   -2.2   0.0      0.23   4.2e+03      63      66 ..      47      50 ..      39      64 .. 0.59

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 4.1e-06
                     NdhL 16 ylalsvlYllviPlilylwlrk 37
                             +++ + +Yll++P  +y ++++
  PHY93_20190|PHY93_20190  6 MAIAGWVYLLILPFGIYKYIKT 27
                             4566789************986 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 0.23
                     NdhL 63 llaP 66
                             lla 
  PHY93_20190|PHY93_20190 47 LLAV 50
                             3322 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (70 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       397  (0.0221429); expected 358.6 (0.02)
Passed bias filter:                      271  (0.0151152); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.36u 0.20s 00:00:00.56 Elapsed: 00:00:00.35
# Mc/sec: 598.73
//
Query:       PHY93_20195|PHY93_20195  [L=856]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (856 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       614  (0.0342462); expected 358.6 (0.02)
Passed bias filter:                      201  (0.0112109); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.65u 0.20s 00:00:00.85 Elapsed: 00:00:00.39
# Mc/sec: 6503.37
//
Query:       PHY93_12640|PHY93_12640  [L=840]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (840 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       754  (0.0420548); expected 358.6 (0.02)
Passed bias filter:                      520  (0.0290033); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.67u 0.27s 00:00:00.94 Elapsed: 00:00:00.41
# Mc/sec: 6159.87
//
Query:       PHY93_12645|PHY93_12645  [L=271]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (271 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       509  (0.0283898); expected 358.6 (0.02)
Passed bias filter:                      355  (0.0198003); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.39
# Mc/sec: 2105.17
//
Query:       PHY93_21365|PHY93_21365  [L=111]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (111 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       337  (0.0187964); expected 358.6 (0.02)
Passed bias filter:                      285  (0.015896); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.22s 00:00:00.62 Elapsed: 00:00:00.40
# Mc/sec: 840.85
//
Query:       PHY93_12650|PHY93_12650  [L=433]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    0.00019   22.1   0.0    0.00036   21.1   0.0    1.5  1  NFACT-R_1  NFACT protein RNA binding domain
    0.00074   18.4   2.6        0.2   10.3   3.1    2.2  2  FbpA       Fibronectin-binding protein A N-terminus (FbpA)


Domain annotation for each model (and alignments):
>> NFACT-R_1  NFACT protein RNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.1   0.0   4.1e-08   0.00036      14     108 ..     328     416 ..     318     417 .. 0.85

  Alignments for each domain:
  == domain 1  score: 21.1 bits;  conditional E-value: 4.1e-08
                NFACT-R_1  14 imGkDkqeneelikkyleesdvwfhvdkessahvylrlsegeleeipeelleeaaqlakanSiagnklssvdvvyvpasnlsktap 99 
                              ++G D+  n+ +  ++ ++  +wfh+++  ++h+++++++ +  +++ + l  ++ +  + S+ +    ++ + y++ +n++  + 
  PHY93_12650|PHY93_12650 328 VIGLDAIGNDWIRAQASKD-HYWFHIENYTGSHCIIKTDDLS--QLSFDDLGAIGSMLRDFSKLEIL--EIPILYTQLKNIKGIKG 408
                              6799999999988777666.9****************66655..9*****************98764..69**********99888 PP

                NFACT-R_1 100 ldtGsvgfk 108
                                +G+v++k
  PHY93_12650|PHY93_12650 409 -IKGAVTVK 416
                              .56777765 PP

>> FbpA  Fibronectin-binding protein A N-terminus (FbpA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.5   0.0   0.00069       6.2      22      92 ..      28      98 ..      15     115 .. 0.88
   2 !   10.3   3.1   2.3e-05       0.2     366     421 ..     224     290 ..     178     314 .. 0.69

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.00069
                             EEEEEEETTEEEEEEEETTEEEEEEEEXXTTTXEEEEXXX.XXXXXSSXXHHHHHHHHHHTTXEEEEEEEXT CS
                     FbpA 22 dkiyqpekdelvltlranrgrhkLllsahpsyarihltek.pkenpkeppnFcmlLRkyLkgarivsieqlg 92
                             +k y  +++ lvl +r+ +++  L +    +y+ i l +k p      +  ++  +RkyL gar+ + e  +
  PHY93_12650|PHY93_12650 28 QKAY-TTPHFLVLVVRFPGKTVALYIGRGNQYQGIFLADKlPPSFLRVQDRLLDYIRKYLVGARLGKMEVDD 98
                             5666.77899***********9****************99999999*******************9988765 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 2.3e-05
                              -...........---------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     FbpA 366 e...........evtIpLdprkspsenAqkyfkkykKlkraveaveeqieetkeeleylesveaale 421
                              +           + +I+L    sp    +  fkk kKlkra++ +++++ee + e e ++  e   e
  PHY93_12650|PHY93_12650 224 RldldtdelkvhGQKIKLFGLTSPWLKRDIVFKKIKKLKRAEAILTNRLEESHLEFENVKRGEFDFE 290
                              1444444444446678888888888888889************************999887766666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (433 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       585  (0.0326287); expected 358.6 (0.02)
Passed bias filter:                      320  (0.0178482); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.20s 00:00:00.73 Elapsed: 00:00:00.40
# Mc/sec: 3288.10
//
Query:       PHY93_12655|PHY93_12655  [L=790]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.2e-22   79.1   0.1    9.3e-22   78.0   0.1    1.6  1  MutS_V    MutS domain V
    1.1e-07   32.1   0.0    3.5e-07   30.5   0.0    1.9  1  Smr       Smr domain
    0.00031   20.8   1.8     0.0011   19.0   0.0    2.9  4  AAA_14    AAA domain
  ------ inclusion threshold ------
      0.014   15.3   0.0      0.055   13.4   0.0    2.0  1  Rad17     Rad17 P-loop domain


Domain annotation for each model (and alignments):
>> MutS_V  MutS domain V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.0   0.1   2.1e-25   9.3e-22       1     149 [.     339     487 ..     339     526 .. 0.90

  Alignments for each domain:
  == domain 1  score: 78.0 bits;  conditional E-value: 2.1e-25
                              EEEE-STTSSHHHHHHHHHHHHHHHHHT--BSSSEEEEE--SEEEEEE--------SS-HHHHHHHHHHHHHTT--TTSEEEEEST CS
                   MutS_V   1 llitGpnmaGkstylrqvalivllaqiGsfvpaekaeisivdkiftRvgasDdlakgkstFmvEmlEtasilknatekslvilDEl 86 
                              l+i Gpn +Gk + l++ +l vl+ ++G fvpa+ aei +++ +f     + +l++g s+F  E +   ++l+   ek l+++DE+
  PHY93_12655|PHY93_12655 339 LIISGPNTGGKTVALKSLCLSVLFVHMGLFVPASFAEIYPAKDLFYFSHDHQNLSEGLSSFASEAKYYLELLQILGEKNLIVIDEI 424
                              59********************************************999999********************************** PP

                              S-SS-HHHHHHHHHHHHHHHHHTT--EEEEEES-GGGGGHHHHSTTEEEEEEEEEEETTEEEE CS
                   MutS_V  87 GRGtstydGlaialavaeyllekikaktlfatHyheltklaekleevknlhlavkeeeedivf 149
                                 ts+++  a+a a +e ++++  +k +++tH++ l + +++  +  + h+  + e+++ ++
  PHY93_12655|PHY93_12655 425 FNSTSSEEASALAIAFLEEVHNRSASKIIISTHHQVLKTFMHARGDYVSAHVGFDFESNRPTY 487
                              *************************************99999888888888777766665555 PP

>> Smr  Smr domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.5   0.0   7.8e-11   3.5e-07       1      75 [.     719     786 ..     719     790 .] 0.86

  Alignments for each domain:
  == domain 1  score: 30.5 bits;  conditional E-value: 7.8e-11
                              EE-TT--HHHHHHHHHHHHHHHHHTT-SEEEEE--STTSTTHCHHHHHHHHHHHCSTTEEEEEE--CCCTGGGEE CS
                      Smr   1 lDLhglrraealnvletfldaasakglrsvevihGkGahagvgvLrpavmgwLagkeaveafreaekkeGgkGav 75 
                              +D +g+r +e ++  e+ +d+    ++  v++ihG+G+    g+L++ ++++L+++ + ++f++    eG++G +
  PHY93_12655|PHY93_12655 719 IDCRGMRLEEFQKSCEQAIDEVFCGEIPFVTIIHGHGN----GILKNWLRNYLKKEYKELHFENI---EGNDGCT 786
                              8*************************************....**************555555555...4666655 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0      0.68     3e+03      52      86 ..     254     289 ..     237     297 .. 0.68
   2 !   19.0   0.0   2.5e-07    0.0011       3      81 ..     337     432 ..     335     469 .. 0.82
   3 ?   -2.5   0.2       1.1   4.9e+03      24      53 ..     521     549 ..     513     598 .. 0.62
   4 ?   -3.3   0.0         2   8.7e+03      66      80 ..     628     642 ..     582     657 .. 0.56

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 0.68
                   AAA_14  52 llelilek.lke.ekktylflDEiqevpewekalksl 86 
                              ++  il++ + e +k   +f D ++ ++ew   l  l
  PHY93_12655|PHY93_12655 254 IEATILKLtI-ElSKVIHIFSDDVKSISEWILELDWL 289
                              4455555533.23566779999999999998877655 PP

  == domain 2  score: 19.0 bits;  conditional E-value: 2.5e-07
                   AAA_14   3 kilvitGaRrvGKTtllkqlikell...............vkkesilyinldderdkk.ladpekllelilek..lkeekktylfl 70 
                              k l+i+G+   GKT+ lk l  + l                ++++ +y++ d++++++ l+ +++  +++le+  +   +k+++++
  PHY93_12655|PHY93_12655 337 KGLIISGPNTGGKTVALKSLCLSVLfvhmglfvpasfaeiYPAKDLFYFSHDHQNLSEgLSSFASEAKYYLELlqIL-GEKNLIVI 421
                              5689****************9888889999********99999**********999664556666779999984444.59****** PP

                   AAA_14  71 DEiqevpewek 81 
                              DEi ++++ e+
  PHY93_12655|PHY93_12655 422 DEIFNSTSSEE 432
                              ***99865444 PP

  == domain 3  score: -2.5 bits;  conditional E-value: 1.1
                   AAA_14  24 kellvkkesilyinldderdkkladpekll 53 
                              k+ll +++++ y +l +e  +k+ d +kll
  PHY93_12655|PHY93_12655 521 KTLL-DEKHVTYESLLQELSQKKIDLDKLL 549
                              4444.6666666666665555544444332 PP

  == domain 4  score: -3.3 bits;  conditional E-value: 2
                   AAA_14  66 tylflDEiqevpewe 80 
                              + + lD  q++++++
  PHY93_12655|PHY93_12655 628 KTISLDVDQKYSHFR 642
                              223333333333333 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   1.2e-05     0.055      35     162 ..     326     467 ..     321     473 .. 0.62

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 1.2e-05
                    Rad17  35 lkadvLesrkkriLLisGPsGCgkstvvkvLskelgiklrewlnpvslkepdn......qksdfkgltekesrflsqiesfkele. 113
                              ++ + L  + ++ L+isGP   gk+ ++k L     +       p s+ e            d + l e  s+f s  + + el+ 
  PHY93_12655|PHY93_12655 326 VRNNLLLDQGHKGLIISGPNTGGKTVALKSLCLSVLFVHMGLFVPASFAEIYPakdlfyFSHDHQNLSEGLSSFASEAKYYLELLq 411
                              566778888999*******************9999888888999999987544112223455667777777777777777777632 PP

                    Rad17 114 Lkdakyl.klqk....lGddlrtdkklilvedlPnkfyrds..dalrevirkylrs 162
                              + + k+l +++        +  + + + ++e++ n+        + ++v++++++ 
  PHY93_12655|PHY93_12655 412 ILGEKNLiVIDEifnsTSSEEASALAIAFLEEVHNRSASKIiiSTHHQVLKTFMHA 467
                              23333331333311102334444556667777765544443346666666666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (790 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       894  (0.0498633); expected 358.6 (0.02)
Passed bias filter:                      500  (0.0278878); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.70u 0.25s 00:00:00.95 Elapsed: 00:00:00.41
# Mc/sec: 5802.65
//
Query:       PHY93_12660|PHY93_12660  [L=258]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.4e-22   77.3   1.6    7.8e-22   77.0   0.3    1.8  2  Peptidase_S24  Peptidase S24-like
    7.1e-13   48.5   0.2    1.1e-07   31.7   0.0    2.9  2  Peptidase_S26  Signal peptidase, peptidase S26


Domain annotation for each model (and alignments):
>> Peptidase_S24  Peptidase S24-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.0   0.3   8.7e-26   7.8e-22       1      70 []      51     143 ..      51     143 .. 0.98
   2 ?   -2.0   0.0       0.4   3.6e+03      49      59 ..     177     187 ..     152     199 .. 0.60

  Alignments for each domain:
  == domain 1  score: 77.0 bits;  conditional E-value: 8.7e-26
                              EXXSSTTCCTXXTTXEEEEECTS..........................---TTSEEEEEETTCE.-EEEEEEEEETTEEEEE.SS CS
            Peptidase_S24   1 rvpGdSMeptlldGdlilVdkfs..........................epkrGdivvfrlpgee.eayiKrviglpgdrvllasn 59 
                              r+p++SM ptl++Gd+ilV+kf+                          +pkrGd+vvf++p++   +yiKrviglpgd+++    
  PHY93_12660|PHY93_12660  51 RIPSGSMIPTLMIGDFILVNKFAyglkvpftdlvlgessfnpiyvagksDPKRGDVVVFKYPKDLsVNYIKRVIGLPGDTLE---- 132
                              79********************************************************************************.... PP

                              TT.STEEEECTC CS
            Peptidase_S24  60 ne.ypplyingk 70 
                                 ++ +yin+k
  PHY93_12660|PHY93_12660 133 -IrNKVIYINDK 143
                              .779******86 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.4
                              ETTEEEEE.SS CS
            Peptidase_S24  49 lpgdrvllasn 59 
                              ++++++++  +
  PHY93_12660|PHY93_12660 177 EHEHVIQQDND 187
                              33333332222 PP

>> Peptidase_S26  Signal peptidase, peptidase S26
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.0   5.8e-06     0.052      23      78 ..     102     145 ..      85     162 .. 0.71
   2 !   31.7   0.0   1.3e-11   1.1e-07      97     137 ..     196     236 ..     171     237 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 5.8e-06
            Peptidase_S26  23 evgdlvlvepPeelaalaaergylprgvpllKrVlalagqevcvadgavtidgvav 78 
                              ++gd+v+++ P++l             v  +KrV++l+g++ +++++ + i++ a+
  PHY93_12660|PHY93_12660 102 KRGDVVVFKYPKDL------------SVNYIKRVIGLPGDTLEIRNKVIYINDKAL 145
                              55555555555532............34679********************99654 PP

  == domain 2  score: 31.7 bits;  conditional E-value: 1.3e-11
            Peptidase_S26  97 crvlaegelfllskevadSfDsRYfGpvpassvigvarpvl 137
                              + ++++g++f+++++ + S+DsRY+G ++++++ g+a  v+
  PHY93_12660|PHY93_12660 196 KITIPAGKFFMMGDNRDFSYDSRYWGFISHEQIKGRAMFVW 236
                              679**********************************9998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (258 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       586  (0.0326845); expected 358.6 (0.02)
Passed bias filter:                      460  (0.0256568); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 2002.04
//
Query:       PHY93_12665|PHY93_12665  [L=457]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    5.7e-29  101.3   5.1    7.7e-29  100.9   5.1    1.1  1  Transpeptidase  Penicillin binding protein transpeptidase dom


Domain annotation for each model (and alignments):
>> Transpeptidase  Penicillin binding protein transpeptidase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  100.9   5.1   4.3e-33   7.7e-29       2     292 ..     118     407 ..     117     421 .. 0.79

  Alignments for each domain:
  == domain 1  score: 100.9 bits;  conditional E-value: 4.3e-33
                              EEEEEETTT-BEEEEEEESE-TTTHHCCTCGCCSTHHHH--BB-GGGGHHHHHHHHHHTTSSTTSEEEEETC.....CEETTSS.. CS
           Transpeptidase   2 aavvldaktgevlamaskpsydpnakvgkneplanravqsqyePGStfKvvtaaaaleagvikpdetlddsg.....gkiqggqs. 81 
                              ++ v+d++tg+vla ++ +  + n +++      n  ++s+ + +S +K+vt+a  l++  +k+++ +d  g     +k+q ++s 
  PHY93_12665|PHY93_12665 118 TVAVIDNETGRVLAAVGYE-GKANSFNK------NLIMTSTHPSASLIKMVTTAELLQNSQVKKETMFDFRGrsttlFKYQLNESr 196
                              6899**************7.56677777......*****************************77766644411111334433434 PP

                              ECTCCCC-SSSSEEEHHHHHHTT-HHHHHHHH.HHH-HHHHHHHHHHTTTTS...-SSSSSTT-B--B--SSHHHHHHHHHTTTSB CS
           Transpeptidase  82 ikdweqdnkgsegitlrealekSsntyfvkla.qklgadklrkylkkfglGn...ktgidlpgesaGvptrkwlegatisfgiGlt 163
                               + w++++      ++++a++kS n+ f k a +++  + +  +++ fg+ +   k    l++e+    ++++l    + + i + 
  PHY93_12665|PHY93_12665 197 SNRWDKTQ------NFETAFAKSNNVIFGKAAiKNTTSQGIVRMAEGFGFNQpimKEFGFLKSEIHQATDDFSLAELASGYNIATV 276
                              66666666......******************8899999*************55444444666666655556655554455555** PP

                              B-HHHHHHHHHHHHTTTEEE--BSEEEEEECTT.EEEESS-EEEEE-S-HHHHHHHHHHHHHHHHCTTTTGCG..TCTTS....-- CS
           Transpeptidase 164 vtplqlaqayaaiangGklvkPhlvkaivdpdg.vrkvkpkelnklpisketaekvkeglkgvvsrgsgtata..avegy....kv 242
                              ++p++ a +++++an+G+ ++P+l+++ivdp++ +  + +    +++is et+++++e++   v +g+++        +y    ++
  PHY93_12665|PHY93_12665 277 ISPIHAAAMASVVANDGVFRTPKLISKIVDPKTgENIWPEISNDRRAISLETSKEMHEMMGMTVDDGTARRSFrkMNNSYrdvlDI 362
                              *********************************8888888889999*********************66555587666668888** PP

                              EEEEEEEEECSSSTTSEEEEEEEEEEEEEE....STTS-SEEEEEEECTCSSSS CS
           Transpeptidase 243 agKTGTAevagkkgngkkegakiswfvgya....padnpkyavavlieqpkeaa 292
                               gKTG     ++ g+++       wf+++a    +++++ ++++v+  + k  +
  PHY93_12665|PHY93_12665 363 GGKTGSITGGTPYGKRD-------WFAAFAmpreKSKGKGISISVMNVNVK--K 407
                              *****999999887773.......999998655334888899999988888..2 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (457 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       643  (0.0358637); expected 358.6 (0.02)
Passed bias filter:                      379  (0.0211389); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.21s 00:00:00.71 Elapsed: 00:00:00.36
# Mc/sec: 3792.54
//
Query:       PHY93_12670|PHY93_12670  [L=196]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.2e-45  154.0   0.0    4.8e-45  153.8   0.0    1.0  1  FtsJ             FtsJ-like methyltransferase
    9.4e-06   25.6   0.0    1.4e-05   25.0   0.0    1.2  1  Methyltransf_23  Methyltransferase domain
    4.5e-05   23.3   0.1    0.00014   21.7   0.1    1.7  2  Methyltransf_31  Methyltransferase domain
    0.00019   20.8   0.0    0.00025   20.5   0.0    1.2  1  Ubie_methyltran  ubiE/COQ5 methyltransferase family
      0.002   17.3   0.0     0.0027   16.9   0.0    1.2  1  NSP16            Coronavirus NSP16
  ------ inclusion threshold ------
      0.013   16.2   0.0      0.045   14.5   0.0    2.0  2  Methyltransf_25  Methyltransferase domain
      0.043   13.6   0.0        0.1   12.3   0.0    1.6  1  PCMT             Protein-L-isoaspartate(D-aspartate) O-methyl


Domain annotation for each model (and alignments):
>> FtsJ  FtsJ-like methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  153.8   0.0   1.9e-48   4.8e-45       2     177 .]      20     196 .]      19     196 .] 0.95

  Alignments for each domain:
  == domain 1  score: 153.8 bits;  conditional E-value: 1.9e-48
                              CCCHHHHHHHHHHHHT-S-TT-EEEECT-TTSHHHHHHCCT.T.-SEEEEEESSSS..HHH..TTEEEECS-CCCSSHHHHHCHCH CS
                     FtsJ   2 rsRsayKLleidekfklfkpgktvvDlgaaPGgwsqvllqrlgakgkvvavDlqpm..apl..pgvttiqgditdpetiekikeal 83 
                               +Rs+yKL+eide+fk++++g++++Dlg+ PG+w+q+ ++++g++g v++ D++++  ++l  ++v+++q d+++ e++ ++    
  PHY93_12670|PHY93_12670  20 LARSVYKLEEIDERFKIINKGDQIIDLGYHPGSWIQYTSEKIGKNGIVIGSDIKEInnKLLnlSNVRLYQKDVFTIENMSELG--- 102
                              69*****************************************9************65333679************9999887... PP

                              HHSSEEEEEE--S-SS-CHHHHHHHHHCCCCHHHHCCHCCCCECCCEEEECCCHCCCHHHHHHHHHCCEEEEEEEE-SS--CCG-E CS
                     FtsJ  84 serkvdlvvsDgapdvsgvhdldeylqsqLllaalelalkllkpggtfvlkifrgeeteallkqlkkfFekvsvvkPkssrsesse 169
                                +++++v+sD+ap+++g++++d++++++L++  ++l  + lkpgg++v+k+f++ +++ +lk+ +k+Fe+++  +Pks rs s+e
  PHY93_12670|PHY93_12670 103 VSEQFNVVLSDMAPNTTGIQSVDQIRSLNLVEMVFSLLPRFLKPGGNLVIKVFESNDAQVFLKTQRKHFEEFHNLRPKSVRSVSKE 188
                              3569********************************************************************************** PP

                              EEEEEEEC CS
                     FtsJ 170 eflvcrgf 177
                               f++ ++f
  PHY93_12670|PHY93_12670 189 YFVIGKNF 196
                              *****998 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.0   0.0   5.3e-09   1.4e-05      11     135 ..      28     176 ..      13     188 .. 0.72

  Alignments for each domain:
  == domain 1  score: 25.0 bits;  conditional E-value: 5.3e-09
          Methyltransf_23  11 dklerllpklraggrvLdiGcGtGillevlren.gf..svtgvDlspeaveiae..kakkaqkdqfdeqeaaepqg.......... 81 
                              +++++ ++  ++g  ++d+G+  G++ ++ +e+ g+   v+g D+ +++++++   + + +qkd f  ++ +e             
  PHY93_12670|PHY93_12670  28 EEIDERFKIINKGDQIIDLGYHPGSWIQYTSEKiGKngIVIGSDIKEINNKLLNlsNVRLYQKDVFTIENMSE--Lgvseqfnvvl 111
                              66777788899999****************66559954477****9999999989988888888885554444..02344344553 PP

          Methyltransf_23  82 .....kfdlIvlrevlehvpdppellrqiatllkpgGylllseplasl......kedrllldwly 135
                                    +  I + + + ++  ++++++ + + lkpgG+l++ ++ +++       +++ +++ + 
  PHY93_12670|PHY93_12670 112 sdmapNTTGIQSVDQIRSLNLVEMVFSLLPRFLKPGGNLVIKVFESNDaqvflkTQRKHFEEFHN 176
                              3344456666666666666667899999999*************988877776435555655554 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.0     0.057   1.5e+02       2      37 ..      38      73 ..      11      77 .. 0.65
   2 !   21.7   0.1   5.4e-08   0.00014       2     114 ..      38     163 ..      37     192 .. 0.70

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.057
          Methyltransf_31  2 dkglrvlDlGCGtGeltfelaeelgpkaevvGiDis 37
                             +kg +++DlG   G  +    e++g+++ v+G Di+
  PHY93_12670|PHY93_12670 38 NKGDQIIDLGYHPGSWIQYTSEKIGKNGIVIGSDIK 73
                             456666666666666666666666666666666665 PP

  == domain 2  score: 21.7 bits;  conditional E-value: 5.4e-08
          Methyltransf_31   2 dkglrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielArenaqklgldnveFeqgdieeleklled....ekfDlilsnev 83 
                              +kg +++DlG   G  +    e++g+++ v+G Di+e        n + l+l+nv++ q d++++e+  ++    e+f+++ls+ +
  PHY93_12670|PHY93_12670  38 NKGDQIIDLGYHPGSWIQYTSEKIGKNGIVIGSDIKE-------INNKLLNLSNVRLYQKDVFTIENM-SElgvsEQFNVVLSDMA 115
                              6777888888888888888888888888888888876.......56678999**********997763.334778*********55 PP

          Methyltransf_31  84 l...........naladpdkileeiervlkpggilliedpr......l 114
                                            l+  + ++  ++r lkpgg l+i  +        
  PHY93_12670|PHY93_12670 116 PnttgiqsvdqiRSLNLVEMVFSLLPRFLKPGGNLVIKVFEsndaqvF 163
                              55555333333345555555555*************998874443332 PP

>> Ubie_methyltran  ubiE/COQ5 methyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.5   0.0   9.6e-08   0.00025      43     162 ..      35     163 ..      18     190 .. 0.73

  Alignments for each domain:
  == domain 1  score: 20.5 bits;  conditional E-value: 9.6e-08
                              --S--TTEEEEES-TT-HHHHHHHHHHHHHHEEEEEE...S-HHHHHHHHHHHHHHTSSTEEEEE--TTT-TTS-T-EEEEEEES- CS
          Ubie_methyltran  43 vavkrgakvlDvagGtgDlafklsdsvgekgkvvvlD...inenmLkvgekklkeegkinieflqanaeeLpfeddsfDvvtvsfG 125
                              +   +g +++D+    g +    s+++g++g v++ D   in+++L+ ++ +l ++ +  ie +   +   +f+    D+   + G
  PHY93_12670|PHY93_12670  35 KIINKGDQIIDLGYHPGSWIQYTSEKIGKNGIVIGSDikeINNKLLNLSNVRLYQKDVFTIENMSELGVSEQFNVVLSDMAPNTTG 120
                              5567899************************9988872235889********************9999999999888898888888 PP

                              GGG-S-HHH.HHHHHH.....HHEEEEEEEEEEEE----SHHH CS
          Ubie_methyltran 126 lrnvtDklk.aLkeay.....rvlkpGGrlvvlefskvelpll 162
                              ++ v  +    L e+      r lkpGG+lv+  f     +++
  PHY93_12670|PHY93_12670 121 IQSVDQIRSlNLVEMVfsllpRFLKPGGNLVIKVFESNDAQVF 163
                              87775543212333322344499******98755543333333 PP

>> NSP16  Coronavirus NSP16
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0     1e-06    0.0027     107     210 ..      91     196 .]      59     196 .] 0.80

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 1e-06
                              SEEEES-GGGEEESS-EEEEEE----TTS-SS-S------THHHHHHHHHHHHEEEEEEEEEEE-SSS--HHHHHHH.TTE.EEEE CS
                    NSP16 107 dvsvlgdcatlkledkfdllisdlydkrtkeidkenvskdgfftylsgfikeklalGGsiaikitefswnkelyelv.qkf.afwt 190
                              dv  + + ++l + ++f++++sd+  ++t   + ++    ++   + +++   l  GG + ik+ e    + + +   ++f +f  
  PHY93_12670|PHY93_12670  91 DVFTIENMSELGVSEQFNVVLSDMAPNTTGIQSVDQIRSLNLVEMVFSLLPRFLKPGGNLVIKVFESNDAQVFLKTQrKHFeEFHN 176
                              455677889999************97777666666666667888888999999999**********87766655554144545888 PP

                              EEEEGGGTTSS-EEEEEEEE CS
                    NSP16 191 vfctsvnassseafliGiny 210
                              +   sv + s e f+iG n+
  PHY93_12670|PHY93_12670 177 LRPKSVRSVSKEYFVIGKNF 196
                              8999*************997 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0       6.3   1.6e+04      49      66 ..      18      35 ..       8      37 .. 0.60
   2 ?   14.5   0.0   1.7e-05     0.045       1      97 []      43     148 ..      43     148 .. 0.63

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 6.3
                             EEEESBCCGBSSSTTTEE CS
          Methyltransf_25 49 efvqgdaedlpfedgsfD 66
                             +f+  ++ +l++ d++f 
  PHY93_12670|PHY93_12670 18 NFLARSVYKLEEIDERFK 35
                             466666666666666665 PP

  == domain 2  score: 14.5 bits;  conditional E-value: 1.7e-05
                              EEEET-TTSHHHHHHHCTST.SSEEEEEESSHHHHHHHHHHHHHTTTTEEEEESBC......CGBSSSTTTEEEEEEESTGG.... CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrlg.kakvtgvDiseemleaareraeeeglnvefvqgda......edlpfedgsfDlvvssgalh.... 75 
                              ++dlG  +G ++++ ++++g ++ v+g Di e   +  +        nv+++q+d+      ++l   +++f++v+s +a +    
  PHY93_12670|PHY93_12670  43 IIDLGYHPGSWIQYTSEKIGkNGIVIGSDIKEINNKLLNLS------NVRLYQKDVftienmSELG-VSEQFNVVLSDMAPNttgi 121
                              79*****************669********98766665544......4555555553330005555.556*******544221222 PP

                              .....GSSHHHHHHHHHHHHHHEEEEE CS
          Methyltransf_25  76 .....hlsdedlekalkeiarvLkpgG 97 
                                   + s + +e +++ + r LkpgG
  PHY93_12670|PHY93_12670 122 qsvdqIRSLNLVEMVFSLLPRFLKPGG 148
                              222211222233567888888888887 PP

>> PCMT  Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0     4e-05       0.1      71     195 ..      37     177 ..      24     187 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 4e-05
                              --TT-EEEEES-TTSHHHHHHHHHHCTTCEEEE..E.ESBHHHHHHHHHHHHHCTTC............SEEEEES-GGGTTGGG- CS
                     PCMT  71 lkkgarvLevGsGsGyltavlarlvgekgrvvs..i.erikelveeakrnlkkldle............nvivvvgDGrkGyeeka 141
                              ++kg++++++G   G     +++ +g++g v++  i e  ++l + ++ +l ++d+             +  vv +D         
  PHY93_12670|PHY93_12670  37 INKGDQIIDLGYHPGSWIQYTSEKIGKNGIVIGsdIkEINNKLLNLSNVRLYQKDVFtienmselgvseQFNVVLSDMAPNTTGIQ 122
                              78999999999999999999999999999999844323346888999988888887778899999999988889999888888888 PP

                              SEEEEEESSBBSS--HHHHHTEEEEEEEEEEESB.SSSEEEEEEEEETTTEEEEE CS
                     PCMT 142 PYdaihvgaaapeiPealidQLkeGGrlvvPvge.eeeQvlklvdkkadgkvvik 195
                                d+i     ++ +   l + Lk+GG lv+ v e +  Qv+ + ++k+ +++   
  PHY93_12670|PHY93_12670 123 SVDQIRSLNLVEMVFSLLPRFLKPGGNLVIKVFEsNDAQVFLKTQRKHFEEFHNL 177
                              8999999999999*9*****************99899999999988876666555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (196 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       647  (0.0360868); expected 358.6 (0.02)
Passed bias filter:                      433  (0.0241508); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.35
# Mc/sec: 1659.39
//
Query:       PHY93_12675|PHY93_12675  [L=109]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-12   47.2   0.0    1.9e-12   47.0   0.0    1.1  1  Barstar   Barstar (barnase inhibitor)
  ------ inclusion threshold ------
       0.02   14.8   0.4       0.15   12.0   0.1    2.2  2  RBD-FIP   FIP domain


Domain annotation for each model (and alignments):
>> Barstar  Barstar (barnase inhibitor)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.0   0.0   2.1e-16   1.9e-12       2      77 ..      26     104 ..      25     106 .. 0.91

  Alignments for each domain:
  == domain 1  score: 47.0 bits;  conditional E-value: 2.1e-16
                  Barstar   2 ldgakirdkadfldeiaealgfPdyfGrNlDALdDcLtd..aegyviviegsaalrkalpea.fetllevledaaeewa 77 
                              + g++i++++++++ +a++l+fP ++ + lD L+D L+       vi i++++ l+++l+ + ++++ + + daae+++
  PHY93_12675|PHY93_12675  26 ISGKEIKSREQLHAIFAKQLNFPRFYAKTLDSLYDNLSSdySGESVIKIKHVNLLKAKLGTDyIDAMIQAIMDAAEDNP 104
                              789***********************************9994456*************887769999999999999875 PP

>> RBD-FIP  FIP domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.0     0.072   6.4e+02       1      12 [.      33      44 ..      33      46 .. 0.91
   2 ?   12.0   0.1   1.7e-05      0.15      21      32 ..      87      98 ..      79     108 .. 0.84

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.072
                             THHHHHHHHHHH CS
                  RBD-FIP  1 srdeLiqalqkq 12
                             sr++L  ++ kq
  PHY93_12675|PHY93_12675 33 SREQLHAIFAKQ 44
                             8*****999998 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 1.7e-05
                             HHHHHHHHHHHH CS
                  RBD-FIP 21 dYiDnlLlrvmE 32
                             dYiD++++++m+
  PHY93_12675|PHY93_12675 87 DYIDAMIQAIMD 98
                             9**********7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (109 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       424  (0.0236488); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.36u 0.19s 00:00:00.55 Elapsed: 00:00:00.34
# Mc/sec: 971.55
//
Query:       PHY93_12680|PHY93_12680  [L=323]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.5e-55  185.9   0.3    6.1e-55  185.5   0.3    1.2  1  Sigma54_activat  Sigma-54 interaction domain
    1.8e-15   57.3   0.0    6.4e-15   55.5   0.0    1.8  1  Sigma54_activ_2  Sigma-54 interaction domain
    1.7e-08   34.6   0.0    2.9e-08   33.8   0.0    1.4  1  AAA_5            AAA domain (dynein-related subfamily)
    5.5e-06   26.8   0.0    1.3e-05   25.7   0.0    1.7  1  AAA              ATPase family associated with various cellul
      6e-06   25.9   0.1    1.1e-05   25.1   0.1    1.5  1  HTH_8            Bacterial regulatory protein, Fis family
    1.2e-05   24.9   0.0    3.3e-05   23.5   0.0    1.8  1  AAA_7            P-loop containing dynein motor region
    3.7e-05   23.8   0.6    6.9e-05   22.9   0.0    1.8  1  AAA_14           AAA domain
    4.4e-05   23.0   0.0    8.5e-05   22.1   0.0    1.5  1  HTH_50           Helix-turn-helix domain
    0.00013   21.5   0.1     0.0032   16.9   0.1    2.1  1  Mg_chelatase     Magnesium chelatase, subunit ChlI
     0.0013   19.1   0.1     0.0039   17.6   0.0    1.9  1  AAA_16           AAA ATPase domain
     0.0035   17.3   1.8       0.34   10.8   0.1    3.2  3  NTPase_1         NTPase
     0.0046   17.2   0.0      0.026   14.8   0.0    2.2  3  AAA_22           AAA domain
     0.0054   16.5   0.0      0.011   15.4   0.0    1.5  1  IstB_IS21        IstB-like ATP binding protein
  ------ inclusion threshold ------
      0.013   16.1   0.0      0.045   14.3   0.0    2.0  1  AAA_18           AAA domain
      0.014   15.4   0.2      0.054   13.4   0.0    2.1  3  ATPase_2         ATPase domain predominantly from Archaea
      0.017   15.2   0.0      0.036   14.2   0.0    1.6  1  AAA_2            AAA domain (Cdc48 subfamily)
      0.018   15.0   0.0      0.037   14.0   0.0    1.5  1  RWP-RK           RWP-RK domain
      0.024   13.8   0.0      0.047   12.9   0.0    1.5  1  NB-ARC           NB-ARC domain
      0.027   13.8   0.0       0.27   10.6   0.0    2.4  3  ATPase           KaiC
      0.041   13.7   0.0      0.091   12.6   0.0    1.6  1  AAA_3            ATPase family associated with various cellul
      0.052   13.9   0.3        1.3    9.4   0.1    2.5  1  AAA_19           AAA domain
      0.057   13.1   0.0       0.13   11.9   0.0    1.6  1  Guanylate_kin    Guanylate kinase
      0.072   12.9   0.1        0.2   11.4   0.1    1.7  1  AAA_29           P-loop containing region of AAA domain
      0.077   13.4   0.0       0.21   12.0   0.0    1.8  1  RNA_helicase     RNA helicase
      0.091   12.5   0.0       0.19   11.4   0.0    1.7  1  AAA_30           AAA domain
       0.12   12.0   0.0       0.44   10.1   0.0    2.0  3  CobU             Cobinamide kinase / cobinamide phosphate gua
       0.12   12.1   0.0       0.37   10.5   0.0    1.9  2  AAA_24           AAA domain
       0.13   12.1   0.1       0.51   10.2   0.0    1.9  2  DUF3872          Domain of unknown function, B. Theta Gene de
       0.15   11.6   0.0       0.32   10.5   0.0    1.5  1  Hpr_kinase_C     HPr Serine kinase C-terminal domain


Domain annotation for each model (and alignments):
>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  185.5   0.3   9.9e-58   6.1e-55      14     167 ..       5     158 ..       1     159 [. 0.98

  Alignments for each domain:
  == domain 1  score: 185.5 bits;  conditional E-value: 9.9e-58
                              HHHHHCTSSS-EEEECSTTSSHHHHHHHHHHHSTTTTS-EEEEETTTS-TTCHHHHHHEBSSSSSTTTSS-BEHHHHHTTTSEEEE CS
          Sigma54_activat  14 qikkvaktdlsvlitGesGtGKellaraiheaskrkekpfvavncaaipeelleseLFGhekGaFtGAekekkGlfekadgGtlfL 99 
                               i+k+++ ++++litG sGtGK+ +a++i+++s+ ++++f+ +  a+i+e+lleseLFGh+kG+FtGA++++ G+f++  +GtlfL
  PHY93_12680|PHY93_12680   5 LISKIININSPILITGPSGTGKSQMAQKIFNRSRINREQFLVLHLASIKEDLLESELFGHRKGSFTGANENRLGYFQAVGKGTLFL 90 
                              688999******************************************************************************** PP

                              ETGGGS-HHHHHHHHHHHHHSEEESBTSSSEEE--EEEEEEESS-HHHHHHTTSS-HHHHHHHTSEEE CS
          Sigma54_activat 100 DeigelplelQekLlrvlqegevervGsskeikvdvriiaatnedleeaveegkfredLyyrlnviei 167
                              Deigel+le Q+kLl+vl+e++++++Gs++  +++ r+i+atn+dl+++v++g+fredL++rl+v+++
  PHY93_12680|PHY93_12680  91 DEIGELSLESQKKLLYVLEEKKFTPIGSTTALEFQGRLIMATNKDLRAMVKAGSFREDLFFRLSVFHL 158
                              *****************************************************************987 PP

>> Sigma54_activ_2  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.5   0.0     1e-17   6.4e-15      14     136 ..       6     161 ..       2     163 .. 0.89

  Alignments for each domain:
  == domain 1  score: 55.5 bits;  conditional E-value: 1e-17
                              HHHHHT-SS-EEEEEETT--HHHHHHCC--TTS-EE--SSTTHHHH-HHHHHHH.......................TTTSEEEEE CS
          Sigma54_activ_2  14 LeqaaqsklpvfltGekGsgkelvArlLhknsgpwleifvverlaklpldlleq.......................akggtLylk 76 
                              + ++ + ++p+++tG+ G+gk+ +A+ + + s  + e f v +la++  dlle+                       +  gtL+l 
  PHY93_12680|PHY93_12680   6 ISKIININSPILITGPSGTGKSQMAQKIFNRSRINREQFLVLHLASIKEDLLESelfghrkgsftganenrlgyfqaVGKGTLFLD 91 
                              56778889***********************99999999999***999888888777777777777666666666657******** PP

                              E-TT--HHHHHHHHHHHHH..........HTTTT-EEEEEEEE-TTT..----HHHHHHHHSSSEEEEE- CS
          Sigma54_activ_2  77 diadlskaeqkeLlellak..........aeksslrlVstsskdleqlleagafdekLlkeLselrlhvP 136
                              +i +ls + qk+Ll +l++          a + + rl++++ kdl ++++ag+f e L+++Ls + l++ 
  PHY93_12680|PHY93_12680  92 EIGELSLESQKKLLYVLEEkkftpigsttALEFQGRLIMATNKDLRAMVKAGSFREDLFFRLSVFHLELD 161
                              **************************998558899*****************************999875 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.8   0.0   4.7e-11   2.9e-08       2     121 ..      16     133 ..      15     152 .. 0.78

  Alignments for each domain:
  == domain 1  score: 33.8 bits;  conditional E-value: 4.7e-11
                              EEEE--SSSSHHHHHHHGGGGB..S--EEEEE....--TT--HHHHH--B--..........--------G-SEEEEESGGG--HH CS
                    AAA_5   2 vlLvGppGtgKselaerlaaal..nreveyvq....ltrdtteedlkgrreik.ngttslvdsplvraaregeilvlDEveraese 80 
                              +l+ Gp+GtgKs++a+++  +   nre + v+    +++d+ e++l+g+r+ +  g  + + + +   a  + +l+lDE+ +++ e
  PHY93_12680|PHY93_12680  16 ILITGPSGTGKSQMAQKIFNRSriNREQFLVLhlasIKEDLLESELFGHRKGSfTGANENRLGYFQ--AVGKGTLFLDEIGELSLE 99 
                              799***************988877998888763333678888899999999655555555555444..3377799*********** PP

                              HHHHHHHHHHSSEEE..-SSSEEE---......-EEEEEES CS
                    AAA_5  81 vlnsLlslleerrllleeggelvkaknddllerfrviatan 121
                               +++Ll +lee+++ +  +++   ++        r+i+++n
  PHY93_12680|PHY93_12680 100 SQKKLLYVLEEKKFTPIGSTTALEFQG-------RLIMATN 133
                              ***************888888777765.......4555554 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.7   0.0   2.1e-08   1.3e-05       1     111 [.      16     134 ..      16     153 .. 0.69

  Alignments for each domain:
  == domain 1  score: 25.7 bits;  conditional E-value: 2.1e-08
                              EEEESSTTSSHHHHHHHHHHHHT...HEEEEEETTTCSSS.............STTHHHHHHHHHHHHHHHTSTSEEEEEETGGGH CS
                      AAA   1 vllyGppGtGKTllakavakelg...vefleisgsellsk.............yvgesekkirelfkeakekakpsilfiDEidal 70 
                              +l++Gp GtGK+ +a+ + + +     +fl + ++++ ++             + g++e+++ ++f+++    ++  lf+DEi +l
  PHY93_12680|PHY93_12680  16 ILITGPSGTGKSQMAQKIFNRSRinrEQFLVLHLASIKEDlleselfghrkgsFTGANENRL-GYFQAV----GKGTLFLDEIGEL 96 
                              699******************86323446666666666545444444444443333333333.344444....4578********* PP

                              HHHHTTCCCHHHHHHHHHHHHHHHHTTTS..........SSTEEEEEEESS CS
                      AAA  71 aksrsgseseeeervvnqLlteldgvkkk..........eskvivigatnr 111
                                ++           +++Ll +l++ k            +    +i+atn+
  PHY93_12680|PHY93_12680  97 SLES-----------QKKLLYVLEEKKFTpigsttalefQ--GRLIMATNK 134
                              9999...........9999999999887777777777443..477777776 PP

>> HTH_8  Bacterial regulatory protein, Fis family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.1   0.1   1.8e-08   1.1e-05       2      42 .]     264     304 ..     263     304 .. 0.96

  Alignments for each domain:
  == domain 1  score: 25.1 bits;  conditional E-value: 1.8e-08
                              HHHHHHHHHHHHHHHTTT-HHHHHHHHTS-HHHHHHHHHHT CS
                    HTH_8   2 leevEkelIeaALertgGnkskAArlLGisRrtLyrKLkkY 42 
                              le +E  +++a  er+ G + ++Ar LG+s +tL +K kkY
  PHY93_12680|PHY93_12680 264 LESFEEWYLKAMFERFSGKVNETARVLGMSKTTLINKAKKY 304
                              8999999********************************99 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.5   0.0   5.4e-08   3.3e-05      23      99 ..       3      74 ..       1      80 [. 0.69

  Alignments for each domain:
  == domain 1  score: 23.5 bits;  conditional E-value: 5.4e-08
                    AAA_7 23 syllelllknkkpvllvGptGtGKtviikdllkkldkekylsltinfsaqtsanqlqdiiesklekrrkgvygPpgg 99
                             + l++++++ + p+l++Gp+GtGK+ ++++++++   ++ ++l++ + +        d++es+l  +rkg +  +++
  PHY93_12680|PHY93_12680  3 QSLISKIININSPILITGPSGTGKSQMAQKIFNRSRINREQFLVLHLAS-----IKEDLLESELFGHRKGSFTGANE 74
                             568999************************8877664444444444433.....33456666666666666655555 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.9   0.0   1.1e-07   6.9e-05       3      90 ..      14     111 ..      12     138 .. 0.69

  Alignments for each domain:
  == domain 1  score: 22.9 bits;  conditional E-value: 1.1e-07
                   AAA_14   3 kilvitGaRrvGKTtllkqlikellvkkesilyinldderd.......kkladpe..........kllelileklke.......ek 64 
                               +++itG+  +GK+ +++++++++ +++e++l + l + ++                        +          +        +
  PHY93_12680|PHY93_12680  14 SPILITGPSGTGKSQMAQKIFNRSRINREQFLVLHLASIKEdlleselF-----GhrkgsftganE----------NrlgyfqaVG 84 
                              6899*****************9999***********9988844433331.....122221222111..........1222333458 PP

                   AAA_14  65 ktylflDEiqevp.ewekalkslvdeg 90 
                              k  lflDEi e++ e +k l ++++e+
  PHY93_12680|PHY93_12680  85 KGTLFLDEIGELSlESQKKLLYVLEEK 111
                              889******887424555555555544 PP

>> HTH_50  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.1   0.0   1.4e-07   8.5e-05       9      50 .]     265     307 ..     259     307 .. 0.75

  Alignments for each domain:
  == domain 1  score: 22.1 bits;  conditional E-value: 1.4e-07
                   HTH_50   9 eefErelikkayekYpS.tRklAkrLGvShtaianklrkYgIs 50 
                              e+fE   +k+++e++   +   A+ LG+S+t+ +nk++kY+I+
  PHY93_12680|PHY93_12680 265 ESFEEWYLKAMFERFSGkVNETARVLGMSKTTLINKAKKYQIN 307
                              556666666666666432456799******************7 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.1   5.2e-06    0.0032      25     157 ..      16     133 ..      10     140 .. 0.80

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 5.2e-06
             Mg_chelatase  25 lllvGppGsGKtmlakrlpsllpplseeealevakiasvagkkeeekllkrrpfraphhsaskaalvGggskpkpGeislahnGvL 110
                              +l++Gp+G+GK+ +a+++ +   +  ++e++ v ++as+++     +ll++  f + + s        g ++ + G      +G L
  PHY93_12680|PHY93_12680  16 ILITGPSGTGKSQMAQKIFN--RSRINREQFLVLHLASIKE-----DLLESELFGHRKGSF------TGANENRLGYFQAVGKGTL 88 
                              799************99865..3344555666777777777.....566666665444443......36788999*********** PP

             Mg_chelatase 111 fLDElpefkrkvlevLRePledgevtisrakakvefparfqlvaamN 157
                              fLDE+ e++ +  + L   le+++ t   +++ +ef  r  l++a+N
  PHY93_12680|PHY93_12680  89 FLDEIGELSLESQKKLLYVLEEKKFTPIGSTTALEFQGR--LIMATN 133
                              ************************999999999999876..566666 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.0   6.3e-06    0.0039      26      55 ..      15      46 ..       4     125 .. 0.74

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 6.3e-06
                   AAA_16 26 lvllsGesGvGKsslvrellr..alekdggif 55
                              +l++G+sG+GKs +++++++  +++++ +++
  PHY93_12680|PHY93_12680 15 PILITGPSGTGKSQMAQKIFNrsRINREQFLV 46
                             59******************833444443333 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.8   0.1   0.00054      0.34       2      21 ..      16      35 ..      15      41 .. 0.91
   2 ?    3.3   0.0      0.11        68      95     113 ..      84     102 ..      35     113 .. 0.75
   3 ?    0.6   0.1      0.74   4.5e+02       9      21 ..     291     303 ..     286     311 .. 0.86

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00054
                             EEEE--TTSSHHHHHHHHHH CS
                 NTPase_1  2 vfiTGppGvGKtTlvkkvle 21
                             ++iTGp+G+GK+ + +k+ +
  PHY93_12680|PHY93_12680 16 ILITGPSGTGKSQMAQKIFN 35
                             79***************987 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.11
                              HH-EEEE---STTGGG-HH CS
                 NTPase_1  95 eadviviDEiGkmElkskk 113
                              +++ + +DEiG++ l+s+k
  PHY93_12680|PHY93_12680  84 GKGTLFLDEIGELSLESQK 102
                              5667889*****9999986 PP

  == domain 3  score: 0.6 bits;  conditional E-value: 0.74
                              TSSHHHHHHHHHH CS
                 NTPase_1   9 GvGKtTlvkkvle 21 
                              G+ KtTl++k+ +
  PHY93_12680|PHY93_12680 291 GMSKTTLINKAKK 303
                              999******9865 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.0   4.2e-05     0.026       7      29 ..      15      37 ..      13      70 .. 0.85
   2 ?   -2.3   0.0         8     5e+03      91     115 ..      85     107 ..      72     127 .. 0.71
   3 ?   -2.3   0.0       7.8   4.8e+03      40      68 ..     167     196 ..     143     225 .. 0.58

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 4.2e-05
                   AAA_22  7 ilvvtGesGtGKTtllrrlleql 29
                              +++tG+sGtGK+  +++++++ 
  PHY93_12680|PHY93_12680 15 PILITGPSGTGKSQMAQKIFNRS 37
                             589****************9986 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 8
                   AAA_22  91 vielliiDEaqhlrseealeeLrsl 115
                              + + l +DE+  l s e  ++L   
  PHY93_12680|PHY93_12680  85 K-GTLFLDEIGEL-SLESQKKLLYV 107
                              4.67888888888.65555555444 PP

  == domain 3  score: -2.3 bits;  conditional E-value: 7.8
                   AAA_22  40 pevvfvtlpsst.sskdllrellralglel 68 
                              +e ++++l ++  + k+l+++   +lg e 
  PHY93_12680|PHY93_12680 167 KEKLLIDLRHQFeGMKNLYQKNHLKLGKEI 196
                              444455555555455555555444444443 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   1.8e-05     0.011      44     135 ..      10     109 ..       3     123 .. 0.66

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 1.8e-05
                IstB_IS21  44 iekkenivllGpsGvGKshlaial.gveavr.aglsvlfvrv..edLveelkrarrdgklaralk.r...llkv..dllilDdlgl 119
                              i+ +  i+++GpsG+GKs +a  +  ++ ++ +++ vl++    edL+e+    +r+g+++ a + r   +++v    l lD++g 
  PHY93_12680|PHY93_12680  10 ININSPILITGPSGTGKSQMAQKIfNRSRINrEQFLVLHLASikEDLLESELFGHRKGSFTGANEnRlgyFQAVgkGTLFLDEIGE 95 
                              6667789**************98624555653677788765323688887777777777765433131103333335689999998 PP

                IstB_IS21 120 lpldqaeaellfevie 135
                              l l++++  +l+ v+e
  PHY93_12680|PHY93_12680  96 LSLESQK--KLLYVLE 109
                              8887653..4444444 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0   7.3e-05     0.045       1      21 [.      16      36 ..      16      76 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 7.3e-05
                   AAA_18  1 IlltGtpGvGKttlakeLskr 21
                             Il+tG++G+GK+++a+ + +r
  PHY93_12680|PHY93_12680 16 ILITGPSGTGKSQMAQKIFNR 36
                             99**************99433 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   8.7e-05     0.054      20      62 ..      13      54 ..       6     116 .. 0.81
   2 ?   -2.0   0.0       4.3   2.7e+03      31      55 ..      83     108 ..      81     135 .. 0.73
   3 ?   -2.4   0.0       5.8   3.6e+03      87      87 ..     285     285 ..     235     313 .. 0.51

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 8.7e-05
                 ATPase_2 20 neiyfiYGpegsGKtaLlkeiienledkdkyviyyialreesi 62
                             n++++i+Gp g GK+++ ++i ++++  + + + +  l ++++
  PHY93_12680|PHY93_12680 13 NSPILITGPSGTGKSQMAQKIFNRSRI-NREQFLVLHLASIKE 54
                             899******************999843.445555555555544 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 4.3
                 ATPase_2  31 sGKtaLlkeiienl.edkdkyviyyi 55 
                              +GK +L+   i +l ++++k+ +y+ 
  PHY93_12680|PHY93_12680  83 VGKGTLFLDEIGELsLESQKKLLYVL 108
                              67777665555444377777777765 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 5.8
                 ATPase_2  87 p 87 
                              +
  PHY93_12680|PHY93_12680 285 E 285
                              2 PP

>> AAA_2  AAA domain (Cdc48 subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   5.9e-05     0.036       6     109 ..      16     114 ..      12     191 .. 0.74

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 5.9e-05
                              EEEE--TTSSHHHHHHHHHHHTT-....-EEEEEGGG---....----THHHHHHHHHTT...T-HHHHTTSEEEEETGGG----- CS
                    AAA_2   6 illlgptgvGktelakalaellfvkkekkliradaselle....eeevehlvsrligapp...gyvgaeegGivllDEidKihpke 84 
                              il++gp+g+Gk+ +a+++ +  ++ +++++ ++   ++ e    +e   h   +++ga++   gy +a  +G ++lDEi   +   
  PHY93_12680|PHY93_12680  16 ILITGPSGTGKSQMAQKIFNRSRI-NREQFLVLHLASIKEdlleSELFGHRKGSFTGANEnrlGYFQAVGKGTLFLDEIGELSL-- 98 
                              899********************7.89999999999888855554544555455555544111455555567*******99988.. PP

                              --------HHHHHHHHHHHH--EE- CS
                    AAA_2  85 ssgadvSregVqrdLLqileggtlt 109
                                       + q+ LL +le+ + t
  PHY93_12680|PHY93_12680  99 ---------ESQKKLLYVLEEKKFT 114
                              .........7788888888887776 PP

>> RWP-RK  RWP-RK domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0     6e-05     0.037       5      38 ..     273     306 ..     271     308 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 6e-05
                   RWP-RK   5 eelqqyFslplkeAAksLgvskttLKricRelgI 38 
                              +++ + Fs++++e A+ Lg+skttL +  ++++I
  PHY93_12680|PHY93_12680 273 KAMFERFSGKVNETARVLGMSKTTLINKAKKYQI 306
                              566678*******************988888887 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   7.6e-05     0.047      23      57 ..      16      50 ..       1      66 [. 0.75

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 7.6e-05
                             EEEEESTTSSHHHHHHHHCCSHCCCCC.CBTEEEEE CS
                   NB-ARC 23 valvGmgGvGKttlakqilnksdeveg.rFdsvawv 57
                             + + G  G GK+ +a++i+n  + +++ +F +++  
  PHY93_12680|PHY93_12680 16 ILITGPSGTGKSQMAQKIFNR-SRINReQFLVLHLA 50
                             6799*****************.55555488777655 PP

>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   0.00043      0.27      19      39 ..      13      33 ..       4      61 .. 0.79
   2 ?   -0.6   0.0       1.1   7.1e+02      60     112 ..     146     197 ..     133     215 .. 0.73
   3 ?   -1.6   0.0       2.2   1.4e+03     169     220 ..     246     307 ..     227     315 .. 0.57

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00043
                   ATPase 19 grvvlitGepGtGKtifalqF 39
                             ++ +litG +GtGK+ +a++ 
  PHY93_12680|PHY93_12680 13 NSPILITGPSGTGKSQMAQKI 33
                             6789**************984 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 1.1
                   ATPase  60 aedlrenakslGwdlekleeegklaiidasesaeesaeekdkedleelieela 112
                               edl  + + +  +l+ ++++ +  +id+ ++ e+ ++  ++++  +l +e++
  PHY93_12680|PHY93_12680 146 REDLFFRLSVFHLELDPINKNKEKLLIDLRHQFEGMKN-LYQKNHLKLGKEIE 197
                              56777778888999999999999999999999998554.33444444444443 PP

  == domain 3  score: -1.6 bits;  conditional E-value: 2.2
                   ATPase 169 eaaggygveefivdgvivLdlkeiee..........elvRtleivkmRgtkhskkehpfeIt 220
                               + +   +++f  d ++ L+  e+ +          ++  t ++++m  t+  +k   ++I+
  PHY93_12680|PHY93_12680 246 AQSENDFISHFPQDFNLALESFEEWYlkamferfsgKVNETARVLGMSKTTLINKAKKYQIN 307
                              55555555555555555555444444555555555566666666666666666666666665 PP

>> AAA_3  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   0.00015     0.091       2     111 ..      16     134 ..      15     145 .. 0.67

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 0.00015
                    AAA_3   2 vllegvPGlaktllvkalakaldlefkriqf........tpdllPsdilGtev...feekekefefkkGpvfanllladeinrapp 76 
                              +l++g  G++k ++++++ +   +  +r qf          dll s++ G++      ++e+++ +   +v +  l+ dei   + 
  PHY93_12680|PHY93_12680  16 ILITGPSGTGKSQMAQKIFNRSRI--NREQFlvlhlasiKEDLLESELFGHRKgsfTGANENRLGY-FQAVGKGTLFLDEIGELSL 98 
                              689999999999999998665433..3333311111111456666666665431102222222222.23566778999******** PP

                    AAA_3  77 ktqsalleameerqvtvegethklp.epflvlatqn 111
                               +q  ll ++ee++ t  g+t++l+ +  l++at+ 
  PHY93_12680|PHY93_12680  99 ESQKKLLYVLEEKKFTPIGSTTALEfQGRLIMATNK 134
                              *********************999845578888875 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4   0.1    0.0021       1.3      10      34 ..      13      37 ..       6     127 .. 0.83

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.0021
                   AAA_19 10 ekvllvtaGpGtGKTrvlkhivall 34
                             ++++l+t++ GtGK+++ ++i +  
  PHY93_12680|PHY93_12680 13 NSPILITGPSGTGKSQMAQKIFNRS 37
                             5789***********9998887654 PP

>> Guanylate_kin  Guanylate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   0.00021      0.13       3      27 ..      14      38 ..      12      54 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00021
                             SEEEEESTTTSSHHHHHHHHHHHST CS
            Guanylate_kin  3 rpvvlvgpsgaGksslkkaLlselp 27
                              p+ + gpsg+Gks++ ++++++  
  PHY93_12680|PHY93_12680 14 SPILITGPSGTGKSQMAQKIFNRSR 38
                             5899*****************9865 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1   0.00032       0.2      23      37 ..      14      28 ..       6      30 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00032
                   AAA_29 23 gatlltGpsGsGKST 37
                             + +l+tGpsG+GKS 
  PHY93_12680|PHY93_12680 14 SPILITGPSGTGKSQ 28
                             458***********5 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   0.00034      0.21       1      20 [.      16      35 ..      16      49 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00034
             RNA_helicase  1 iwlyGpsgeGKStlakeLak 20
                             i+++Gpsg+GKS++a+++ +
  PHY93_12680|PHY93_12680 16 ILITGPSGTGKSQMAQKIFN 35
                             689*************9765 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00031      0.19      21     114 ..      16     110 ..       3     183 .. 0.69

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00031
                   AAA_30  21 avltGpAGtGKttalkal..reaweaaggrviglAptgkaAkvLaeelgieastiakllkrlk...grarlepgtllivDEagmvd 101
                               ++tGp GtGK+ + +++  r  ++++++ v+ lA+     + L+ e  + +++  +++ +++   g  +   +  l  DE+g ++
  PHY93_12680|PHY93_12680  16 ILITGPSGTGKSQMAQKIfnRSRINREQFLVLHLASI--KEDLLESE--LFGHRKGSFTGANEnrlGYFQAVGKGTLFLDEIGELS 97 
                              589**************96555555556666666553..33444433..2233333333333333422333344556678888777 PP

                   AAA_30 102 tkqlaallkaaek 114
                               ++ ++ll  +e+
  PHY93_12680|PHY93_12680  98 LESQKKLLYVLEE 110
                              7777777776666 PP

>> CobU  Cobinamide kinase / cobinamide phosphate guanyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.0   0.00071      0.44       1      22 [.      16      37 ..      16      60 .. 0.83
   2 ?   -3.0   0.0       7.7   4.8e+03     124     148 ..      73      97 ..      72     103 .. 0.80
   3 ?   -2.8   0.0       6.4     4e+03      99     124 ..     199     224 ..     182     228 .. 0.69

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00071
                     CobU  1 ilvtGgarSGKSefAeklaees 22
                             il+tG++  GKS++A+k+ ++s
  PHY93_12680|PHY93_12680 16 ILITGPSGTGKSQMAQKIFNRS 37
                             79***************98654 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 7.7
                     CobU 124 nEvglgvvpenalgrlfrdllGrln 148
                              nE  lg  ++   g lf d++G+l 
  PHY93_12680|PHY93_12680  73 NENRLGYFQAVGKGTLFLDEIGELS 97 
                              6777788888888999999999986 PP

  == domain 3  score: -2.8 bits;  conditional E-value: 6.4
                     CobU  99 ekleeeveellealkelkatvvlVsn 124
                                l+++++  l+ lk++ + +v+Vs+
  PHY93_12680|PHY93_12680 199 LMLNATWRGNLRELKNCLEYMVVVSD 224
                              46677778888888888889999987 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0    0.0006      0.37       5      23 ..      16      41 ..      13     114 .. 0.87
   2 ?   -0.7   0.0       1.6   9.7e+02     107     152 ..     201     245 ..     118     301 .. 0.71

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.0006
                   AAA_24  5 iliyGpsgiGKTtlakel.......g 23
                             ili+Gpsg+GK+ +a ++        
  PHY93_12680|PHY93_12680 16 ILITGPSGTGKSQMAQKIfnrsrinR 41
                             89*************99855444444 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 1.6
                   AAA_24 107 laeefrrllkklqelrk.nvifiahektrkdedpegeakytrlepkl 152
                              l++ +r  l+ l+++ + +v++   ++ +k ++pe       l+p++
  PHY93_12680|PHY93_12680 201 LNATWRGNLRELKNCLEyMVVVSDGLELKKEDFPEWF--MSELKPNQ 245
                              4555556666666666666666666666666666444..34444444 PP

>> DUF3872  Domain of unknown function, B. Theta Gene description (DUF3872)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0   0.00083      0.51      54      99 ..      64     114 ..      53     134 .. 0.78
   2 ?   -1.3   0.0       2.8   1.7e+03      55      96 ..     205     231 ..     167     250 .. 0.51

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00083
                              E-SS--SS-.--EEEEE-SS---EEEETTS-EE....-TTS-EE-S-SEEE CS
                  DUF3872  54 kregeyedt.eYtirYfqldgkGelkledgtvl....lpndlyllekekFr 99 
                              +r+g+++++ e +++Yfq  gkG+l l++  +l    + + ly le++kF+
  PHY93_12680|PHY93_12680  64 HRKGSFTGAnENRLGYFQAVGKGTLFLDEIGELslesQKKLLYVLEEKKFT 114
                              5889999873579*************9985544111123346777788876 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 2.8
                              -SS--SS---EEEEE-SS---EEEETTS-EE-TTS-EE-S-S CS
                  DUF3872  55 regeyedteYtirYfqldgkGelkledgtvllpndlylleke 96 
                                g+ ++ +  + Y+ + ++G                +l+ke
  PHY93_12680|PHY93_12680 205 WRGNLRELKNCLEYMVVVSDG---------------LELKKE 231
                              444444444444444444444...............333333 PP

>> Hpr_kinase_C  HPr Serine kinase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   0.00052      0.32      21      42 ..      16      37 ..       3      46 .. 0.88

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00052
                             EEEEESTCHHHHHHHHHHHTTT CS
             Hpr_kinase_C 21 vLitGesgvGKselaleLikrg 42
                             +LitG sg GKs++a ++ +r 
  PHY93_12680|PHY93_12680 16 ILITGPSGTGKSQMAQKIFNRS 37
                             9**************9998886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (323 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       723  (0.0403257); expected 358.6 (0.02)
Passed bias filter:                      575  (0.0320709); expected 358.6 (0.02)
Passed Vit filter:                       109  (0.00607954); expected 17.9 (0.001)
Passed Fwd filter:                        29  (0.00161749); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              29  [number of targets reported over threshold]
# CPU time: 0.63u 0.23s 00:00:00.86 Elapsed: 00:00:00.43
# Mc/sec: 2237.56
//
Query:       PHY93_12685|PHY93_12685  [L=256]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    3.6e-20   72.6   0.0    2.1e-19   70.1   0.0    1.8  1  Inositol_P  Inositol monophosphatase family


Domain annotation for each model (and alignments):
>> Inositol_P  Inositol monophosphatase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.1   0.0   1.2e-23   2.1e-19      14     233 ..      14     212 ..       3     252 .. 0.73

  Alignments for each domain:
  == domain 1  score: 70.1 bits;  conditional E-value: 1.2e-23
                              HHHHHHHHHHTTTSEEEESTTTCCHHHHHHHHHHHHHHHHHHHH..HHHHSTTSEEEHHCHHHHCCCT.SSSSSEEEEEEEEETHH CS
               Inositol_P  14 akagevlreefsenelvieekskegeedlvtaadeaveelilea..laekfpshkilgeetlakgekseltedgltwivDPiDGTk 97 
                              +k+g++   ++s   ++++ k    ++ +vt++d  v+ li+++   + ++++ ++++ee+ ++          ++ i+DPiDGT+
  PHY93_12685|PHY93_12685  14 KKLGKLFGPKAS-GHIKVDLKD---DKSFVTEIDLFVSHLIKKKllEHSTYSQYAFFSEEDFQEYV-------FPCAILDPIDGTR 88 
                              444444444444.444455444...889****************6556789***********9999.......5888********* PP

                              HHHHT-SG-EEEEEEEE....TTEEEEEEEEETTTTEEECEETTTEEEETCEEEEECTTS.EGGGTEEEEEESSSSSSHHHHCHHH CS
               Inositol_P  98 nFvrgipqvaVsigllv....egkpvlGviaqPllgqlysaakgkGaflngeklplsrap.piseallvtlfavssrkdtseasll 178
                              + v+g p +aVs++l++    ++   ++++++P+           G  l+   +p + ++ ++ +++l     + sr+++++  ++
  PHY93_12685|PHY93_12685  89 ELVKGRPECAVSLALMKtpviDDPSNFAWLYNPFS----------GFSLDT-EIPFVPTTdKSIQKIL----TFVSRSEFHK-GHY 158
                              ***************98555555556666666643..........445566.3666666623333333....3455555555.677 PP

                              HHHHCCCCCHEEEBESSHHHHHHHHHHTSTSEEEEEC.EBHHHHHHHHHHHHHTT CS
               Inositol_P 179 ekvesavsaegvrsvgssalklaavaeGkadaylefgrekkWDhAAGeaileeaG 233
                              +k++   +   +   gs a+kl ++a+G +d+ ++ +  + WD+AAG +++   G
  PHY93_12685|PHY93_12685 159 NKYLDNIQID-ITPRGSIAFKLGLLASGACDFIISLEPKNVWDIAAGTILCAQRG 212
                              8998888888.77779********************9899********9997766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (256 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       432  (0.024095); expected 358.6 (0.02)
Passed bias filter:                      399  (0.0222544); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.38
# Mc/sec: 2036.72
//
Query:       PHY93_12690|PHY93_12690  [L=83]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.09   12.6   0.0      0.099   12.5   0.0    1.0  1  DUF4738   Domain of unknown function (DUF4738)


Domain annotation for each model (and alignments):
>> DUF4738  Domain of unknown function (DUF4738)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   5.5e-06     0.099      78     142 ..       9      75 ..       5      79 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 5.5e-06
                  DUF4738  78 kklfskdftKkdFaslvpaeflkqsiLsdivfdkvd..ekglhfaAsvgiPdsdeyvpveitisadG 142
                               ++f++ +tK+ ++s++++  l++s+L+   f  vd  + ++ f +s++   +  + +  + i   G
  PHY93_12690|PHY93_12690   9 VTMFRSGLTKAIYKSFLSSYQLDRSVLEITPFIYVDldSGEVKFLTSLMRTKEVGSEIYAVSIASGG 75 
                              5799***********************97665555432889******99998554444455555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (83 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       217  (0.0121033); expected 358.6 (0.02)
Passed bias filter:                      188  (0.0104858); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.34u 0.23s 00:00:00.57 Elapsed: 00:00:00.38
# Mc/sec: 657.05
//
Query:       PHY93_12695|PHY93_12695  [L=498]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (498 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       782  (0.0436165); expected 358.6 (0.02)
Passed bias filter:                      214  (0.011936); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.57u 0.26s 00:00:00.83 Elapsed: 00:00:00.42
# Mc/sec: 3569.19
//
Query:       PHY93_05255|PHY93_05255  [L=209]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.2e-08   34.6  29.0    1.7e-08   34.1  29.0    1.1  1  Collagen   Collagen triple helix repeat (20 copies)
  ------ inclusion threshold ------
      0.028   14.9   0.6      0.047   14.2   0.6    1.3  1  PROL5-SMR  Proline-rich submaxillary gland androgen-regulated


Domain annotation for each model (and alignments):
>> Collagen  Collagen triple helix repeat (20 copies)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.1  29.0   1.9e-12   1.7e-08       3      52 ..     159     208 ..     158     209 .] 0.65

  Alignments for each domain:
  == domain 1  score: 34.1 bits;  conditional E-value: 1.9e-12
                              XXXXXXXXXXXXXXXX-----XXXXEEEE-TTSS---------------- CS
                 Collagen   3 pGepGepGppGppGkrGepGeaGekGekGpaGekGppGaaGkpGapGekG 52 
                              +G++G++Gp+Gp+G++G++G++G++G++Gp+G++Gp+G++G++G++G +G
  PHY93_05255|PHY93_05255 159 KGKTGPQGPAGPQGPQGPQGDTGPQGPQGPQGDTGPQGPTGDTGPQGLTG 208
                              56667777777777777777777777777777777777777777777665 PP

>> PROL5-SMR  Proline-rich submaxillary gland androgen-regulated family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.6   5.3e-06     0.047       5      52 ..     142     193 ..     140     207 .. 0.70

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 5.3e-06
                PROL5-SMR   5 tlvlgLwvLigC.FlsgEcqRgprg.hdprrplapsPd..Pnkvqfgvpstl 52 
                               lvlg ++Li C  +   ++ gp+g   p++p+ p  d  P+++q  + +t 
  PHY93_05255|PHY93_05255 142 ALVLGVIILIVCcLTQHKGKTGPQGpAGPQGPQGPQGDtgPQGPQGPQGDTG 193
                              69******98651667789999999889999999995455555554444433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (209 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1700  (0.0948185); expected 358.6 (0.02)
Passed bias filter:                      969  (0.0540465); expected 358.6 (0.02)
Passed Vit filter:                        85  (0.00474092); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.25s 00:00:00.75 Elapsed: 00:00:00.40
# Mc/sec: 1580.41
//
Query:       PHY93_21370|PHY93_21370  [L=281]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.4e-12   46.9   1.8    5.3e-11   42.5   0.1    2.8  2  DUF4423          Domain of unknown function (DUF4423)
  ------ inclusion threshold ------
      0.016   14.8   1.0       0.23   11.1   0.0    2.3  2  Nbl1_Borealin_N  Nbl1 / Borealin N terminal
       0.15   12.1   0.0        0.8    9.8   0.0    2.1  2  HTH_3            Helix-turn-helix
       0.21   12.0   0.9        5.3    7.5   0.1    2.3  2  MitMem_reg       Maintenance of mitochondrial structure and f


Domain annotation for each model (and alignments):
>> DUF4423  Domain of unknown function (DUF4423)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.2     0.022        97      41      97 ..      69     121 ..      63     134 .. 0.62
   2 !   42.5   0.1   1.2e-14   5.3e-11      19     168 .]     133     281 .]     123     281 .] 0.79

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.022
                  DUF4423  41 elakrlrpkisaeevekalefLlklgllkkdedgkyrqtekslttssevkseavrsy 97 
                              ++ak ++  is  e +  +  Ll++++  ++ ++ ++q  + l+++ e++   +++y
  PHY93_21370|PHY93_21370  69 QIAKLFN--ISDFEHQYLIVMLLENQVKVQELKKHFKQVLTRLKMNDEIQD--LKKY 121
                              6677777..777777777777777666666666666666666665555543..3444 PP

  == domain 2  score: 42.5 bits;  conditional E-value: 1.2e-14
                  DUF4423  19 ssWyypvirellplkdfkadpeelakrlrpkisaeevekalefLlklgllkkdedgkyrqtekslttssevkseavrsyhkqmlel 104
                               +W++++i +l + +df++dp+++++++ ++is  ++++  + + + +++  ++d ky  ++++ + +  +  +  + y +  l+ 
  PHY93_21370|PHY93_21370 133 PDWLALTIGALTEFPDFSSDPKWISEKISGEISPRDISAKWNSMIDHKMISLEKD-KYYESSTHHS-PDPFEVKSYKRYLHGALK- 215
                              68****************************************************9.5555555555.444444444444444443. PP

                  DUF4423 105 AiealervpkeeRdissl..tlaiskedyekikkeirefrkkilaiaeeskeaerVyqLnlqlFpl 168
                               ie+l+    + R   ++   +aisked+ ki++   +f+++i++i ++s+++++V  ++ +lF++
  PHY93_21370|PHY93_21370 216 TIEVLNGEIEDHRPALFFngAIAISKEDFSKISESYYRFINEIIEIGKSSNNKDSVIFISNNLFSV 281
                              24444433333443333222579*****************************************96 PP

>> Nbl1_Borealin_N  Nbl1 / Borealin N terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   5.2e-05      0.23      18      54 ..      43      79 ..      41      82 .. 0.85
   2 ?    2.6   0.3     0.024   1.1e+02      11      34 ..      89     112 ..      76     119 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 5.2e-05
          Nbl1_Borealin_N 18 rrlraelelllktlrnrfelellriPkavRkmtmkel 54
                             r+l+++   l + +++r+ ++l+riP+  +  ++ ++
  PHY93_21370|PHY93_21370 43 RKLETSKSYLKQVFDKRIHVDLNRIPQIAKLFNISDF 79
                             89999999999***************97776666666 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.024
          Nbl1_Borealin_N  11 lEveeRirrlraelelllktlrnr 34 
                              lE + ++++l+++ ++ l+ l+++
  PHY93_21370|PHY93_21370  89 LENQVKVQELKKHFKQVLTRLKMN 112
                              459999*********999999886 PP

>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.0   0.00018       0.8       7      51 ..      33      77 ..      29      80 .. 0.92
   2 ?   -1.1   0.0      0.45     2e+03      30      46 ..     233     249 ..     232     251 .. 0.85

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00018
                             HTTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSE CS
                    HTH_3  7 qlglsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvs 51
                               g s e+ A+kl  s+s++ + +  + + +l ++  +ak +++s
  PHY93_21370|PHY93_21370 33 RPGFSYEYCARKLETSKSYLKQVFDKRIHVDLNRIPQIAKLFNIS 77
                             558999999**********************************98 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.45
                              HTTSSCSBHHHHHHHHH CS
                    HTH_3  30 EnGernPsletlkklak 46 
                              +nG  ++s e   k+++
  PHY93_21370|PHY93_21370 233 FNGAIAISKEDFSKISE 249
                              68989999999999997 PP

>> MitMem_reg  Maintenance of mitochondrial structure and function
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   0.1    0.0012       5.3      37      70 ..      42      75 ..      29      96 .. 0.83
   2 ?    3.0   0.3     0.029   1.3e+02      20      55 ..      96     130 ..      80     176 .. 0.77

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0012
               MitMem_reg 37 qerldlikdYlkkveegelpvnheilrnlqklln 70
                                l++ k+Ylk+v ++++ v+ + + +++kl+n
  PHY93_21370|PHY93_21370 42 ARKLETSKSYLKQVFDKRIHVDLNRIPQIAKLFN 75
                             56899***************************94 PP

  == domain 2  score: 3.0 bits;  conditional E-value: 0.029
               MitMem_reg  20 stlstglnrqyyslkilqerldlikdYlkkveegel 55 
                              ++l ++ ++ ++ lk +++ ++++k+Y ++++++ +
  PHY93_21370|PHY93_21370  96 QELKKHFKQVLTRLK-MNDEIQDLKKYRDQIQQEGV 130
                              366666666666666.56667999****99997754 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (281 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1174  (0.0654805); expected 358.6 (0.02)
Passed bias filter:                      576  (0.0321267); expected 358.6 (0.02)
Passed Vit filter:                        59  (0.00329076); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.51u 0.22s 00:00:00.73 Elapsed: 00:00:00.38
# Mc/sec: 2190.12
//
Query:       PHY93_12700|PHY93_12700  [L=461]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      2e-39  135.5   4.0      2e-39  135.5   4.0    2.0  2  FliD_C          Flagellar hook-associated protein 2 C-terminu
    3.1e-13   50.2   1.5    3.1e-13   50.2   1.5    2.8  3  FliD_N          Flagellar hook-associated protein 2 N-terminu
     0.0022   18.1   3.3     0.0038   17.4   0.8    2.6  2  Flagellin_IN    Flagellin hook IN motif
  ------ inclusion threshold ------
      0.015   14.9   1.4      0.024   14.3   0.0    1.9  2  PI3K_P85_iSH2   Phosphatidylinositol 3-kinase regulatory subu
      0.026   13.4   0.3      0.026   13.4   0.3    1.7  2  Fmp27_WPPW      RNA pol II promoter Fmp27 protein domain
      0.058   13.4   0.3      0.058   13.4   0.3    2.1  2  Sec2p           GDP/GTP exchange factor Sec2p
      0.089   12.8   9.9      0.058   13.4   4.1    2.5  2  Prefoldin_2     Prefoldin subunit
       0.11   12.5   0.1       0.11   12.5   0.1    3.0  3  DUF1664         Protein of unknown function (DUF1664)
       0.16   12.3   0.1       0.33   11.3   0.1    1.5  1  GHMP_kinases_C  GHMP kinases C terminal
       0.22   10.5   4.3       0.18   10.9   2.0    1.8  2  Atg14           Vacuolar sorting 38 and autophagy-related sub
       0.56    9.6   8.5      0.036   13.5   3.4    1.5  2  DUF3552         Domain of unknown function (DUF3552)
       0.71   10.3  10.3       0.49   10.8   5.1    2.3  2  DUF4200         Domain of unknown function (DUF4200)
        1.5    8.9   4.2          9    6.4   0.0    2.6  3  MCU             Mitochondrial calcium uniporter
        5.1    6.9   8.3         19    5.0   2.0    3.2  3  DUF724          Protein of unknown function (DUF724)
        5.9    5.7   9.5        1.1    8.0   2.4    2.1  2  Spc7            Spc7 kinetochore protein
        9.9    6.7  10.5        7.1    7.2   0.7    3.2  3  NPV_P10         Nucleopolyhedrovirus P10 protein


Domain annotation for each model (and alignments):
>> FliD_C  Flagellar hook-associated protein 2 C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   0.4      0.26   2.9e+02     162     199 ..      33      73 ..      14     112 .. 0.60
   2 !  135.5   4.0   1.8e-42     2e-39       1     239 [.     213     442 ..     213     443 .. 0.95

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.26
                              S.......SXSHHHHHHHHHHHHH...STT.SHHHHHHHHX CS
                   FliD_C 162 sqektvtsdsglatrlenllksyv...kssngtlqtasknl 199
                              +q++++ +++gl+++l +l++++    +++ ++ + ++ ++
  PHY93_12700|PHY93_12700  33 KQKSKISDKKGLVDQLLKLVEDVRgnlATNANARALRELKV 73 
                              57788889999999999999988743322222222222222 PP

  == domain 2  score: 135.5 bits;  conditional E-value: 1.8e-42
                              -B-EEEEETTEEEEESSSEEESSSTTEEEEE-S-E-CCE-EEEEEEC-SCCCCCCHCHHHHHHHHCCCCCCCCCS..-----XXXX CS
                   FliD_C   1 aqnAeftvdgiavtrstNtisdvldGvtlnLkkatedgeeltlsvetDtdkikealkeFVdaYNalvteinektkekedeikdeek 86 
                              a +A++++dg++++ ++N+i+d+++Gvt++Lkka +++e   +++++D+d++  ++ + +++ Na+++ ++ + +       d+++
  PHY93_12700|PHY93_12700 213 AHDAKIKLDGFDIEAPENKIKDMIPGVTIDLKKAKPGEE-FSINISEDVDAVGVKVSDLITKLNAVLKFVKDQNAI------DDKT 291
                              78*****************************88886666.***********************************5......5888 PP

                              XXXXTTTTXHHHHHHHHHHHHHHHSXXX.SSSXXSTGGGTEEEXTTTXXEEEXHHHHHHHHHHHHHHHHHHHTTTSS.......SX CS
                   FliD_C  87 aksGaLrgdstlrnilsqLrsslsseve.sgeilsladlGistnknkGkLelDeekLkkalkenpssveelFsgstsqektvtsds 171
                               +s +L gd +l++++ ++ + ++++v  ++ +    +lG+s+n++ G+Le+D++k+++ + +n +   ++++g+    ++  +++
  PHY93_12700|PHY93_12700 292 DTSRTLGGDIMLQSLEGRIHTAVFKDVMtDTGLHRVGELGLSFNRA-GTLEFDQKKFQALIGSNYNLASQILTGTFG--AEGGKTE 374
                              89999********************9998****************9.***************************655..66667** PP

                              SHHHHHHHHHHHHHSTT.SHHHHHHHHXXXXHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHH CS
                   FliD_C 172 glatrlenllksyvkssngtlqtasknltkqikdldkkiedldkrletleerlkkqfaalekavskln 239
                              g++++l+ ++ + +++++g++ +++k+l+ +i+++d++i + +k+le++e+ lk +fa+le ++sk++
  PHY93_12700|PHY93_12700 375 GFMDNLNAMVGTALRTPDGIIPSRKKTLQSNIEQIDRRISQKQKQLEEKEKNLKDKFARLEGTMSKIK 442
                              *****************************************************************987 PP

>> FliD_N  Flagellar hook-associated protein 2 N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.2   1.5   2.8e-16   3.1e-13       6      96 ..      14     104 ..      11     105 .. 0.85
   2 ?   -2.6   0.1       8.2   9.2e+03      43      60 ..     266     287 ..     257     297 .. 0.46
   3 ?    1.8   1.0      0.36     4e+02      19      39 ..     408     429 ..     396     449 .. 0.60

  Alignments for each domain:
  == domain 1  score: 50.2 bits;  conditional E-value: 2.8e-16
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXHHHHHHHHHHHHHHHHHHHHHXXGGGGGXEEEEECSTTTEEEEEETTS-SEEEEEEEE CS
                   FliD_N   6 dslvkqlmkaerakldkleqkktklewkqsayrelnsklsnlksalsalsksstfsakkatssdesvvtatassgaaagsysieVk 91 
                              +++vkqlm+ae+ +++++e++k+k++ k+  + +l + +++++ +l++ +++ ++++ k+ ++++ ++  t +s a++gsy++eV+
  PHY93_12700|PHY93_12700  14 KDIVKQLMAAEQVPVQNMEKQKSKISDKKGLVDQLLKLVEDVRGNLATNANARALRELKVDTNNDMIAVTTDKSRAVPGSYQLEVT 99 
                              58******************************************8853344677777788877775544555779*********** PP

                              E--BE CS
                   FliD_N  92 qlAta 96 
                              +lA++
  PHY93_12700|PHY93_12700 100 SLAQK 104
                              ***97 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 8.2
                              HHHHHHHHHHHH....XXGGGG CS
                   FliD_N  43 klsnlksalsal....sksstf 60 
                              k+s+l+++l+a+    ++++++
  PHY93_12700|PHY93_12700 266 KVSDLITKLNAVlkfvKDQNAI 287
                              5555555554221221223333 PP

  == domain 3  score: 1.8 bits;  conditional E-value: 0.36
                              XXXX.XXXXXXXXXXXHHHHHH CS
                   FliD_N  19 kldk.leqkktklewkqsayre 39 
                              ++d+ + qk+++le+k + +++
  PHY93_12700|PHY93_12700 408 QIDRrISQKQKQLEEKEKNLKD 429
                              4455577777777777665544 PP

>> Flagellin_IN  Flagellin hook IN motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.8   3.4e-06    0.0038      15      48 ..     137     171 ..     128     185 .. 0.82
   2 ?   -0.7   0.1       1.5   1.7e+03      22      33 ..     266     277 ..     250     279 .. 0.82

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 3.4e-06
                              EEECTT.TBCHHHHHHHHHHCCTTTEEEEEEEEC.E CS
             Flagellin_IN  15 isvkag.dtlddiadaINavssktGVsAsidadg.g 48 
                              i v+++ ++l+ +a+ IN + s++GVsA++ +dg g
  PHY93_12700|PHY93_12700 137 IYVDSDnSSLSGVAKLIN-KDSSLGVSANVINDGsG 171
                              6677776***********.**************752 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 1.5
                              BCHHHHHHHHHH CS
             Flagellin_IN  22 tlddiadaINav 33 
                               ++d+++++Nav
  PHY93_12700|PHY93_12700 266 KVSDLITKLNAV 277
                              578999999987 PP

>> PI3K_P85_iSH2  Phosphatidylinositol 3-kinase regulatory subunit P85 inter-SH2 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.3       1.6   1.7e+03      70     122 ..      22      74 ..      17      82 .. 0.70
   2 ?   14.3   0.0   2.1e-05     0.024      79     135 ..     376     448 ..     332     450 .. 0.70

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 1.6
            PI3K_P85_iSH2  70 lqekfskeaqehEieklqenleqlksrlkelhsskekLeedlkqqkeeerele 122
                                e++  +  e+ ++k+++   ++ + lk +++ + +L  + ++++ +e++++
  PHY93_12700|PHY93_12700  22 AAEQVPVQNMEKQKSKISDKKGLVDQLLKLVEDVRGNLATNANARALRELKVD 74 
                              45555555666777778888888888888888888888877777777777665 PP

  == domain 2  score: 14.3 bits;  conditional E-value: 2.1e-05
            PI3K_P85_iSH2  79 q...................ehEieklqenleqlksrlkelhsskekLeedlkqqkeeereleReinalkpellqL 135
                                                  +  +++lq+n+eq+ +r+    +++++Lee+ k+ k++   le  ++++k++   L
  PHY93_12700|PHY93_12700 376 FmdnlnamvgtalrtpdgiiPSRKKTLQSNIEQIDRRI---SQKQKQLEEKEKNLKDKFARLEGTMSKIKSQGAGL 448
                              0555555555555555555577789***********97...589**************************987666 PP

>> Fmp27_WPPW  RNA pol II promoter Fmp27 protein domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.2       1.2   1.4e+03     212     241 ..      28      57 ..      15     113 .. 0.54
   2 ?   13.4   0.3   2.3e-05     0.026     170     225 ..     389     444 ..     379     451 .. 0.91

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 1.2
               Fmp27_WPPW 212 ieelekeikelkeklefletlledlkesee 241
                              ++++ek+ +++ +k+ ++++ll+ ++  + 
  PHY93_12700|PHY93_12700  28 VQNMEKQKSKISDKKGLVDQLLKLVEDVRG 57 
                              344555555555555555555444443332 PP

  == domain 2  score: 13.4 bits;  conditional E-value: 2.3e-05
               Fmp27_WPPW 170 rvqkelleeRleeleeqiekleekleelelksekedeelkeeieelekeikelkek 225
                              r++  ++ +R+++l+++ie++++++++ +++ e+++++lk+++ +le +++++k++
  PHY93_12700|PHY93_12700 389 RTPDGIIPSRKKTLQSNIEQIDRRISQKQKQLEEKEKNLKDKFARLEGTMSKIKSQ 444
                              67888999***************************************999998865 PP

>> Sec2p  GDP/GTP exchange factor Sec2p
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.2       2.4   2.7e+03      55      68 ..      34      47 ..      20      86 .. 0.57
   2 ?   13.4   0.3   5.2e-05     0.058      32      84 ..     378     435 ..     373     443 .. 0.76

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 2.4
                             HHHHHTTHCHCCCH CS
                    Sec2p 55 lkeqLkeketlles 68
                              k+++++k+ l+++
  PHY93_12700|PHY93_12700 34 QKSKISDKKGLVDQ 47
                             33333333333332 PP

  == domain 2  score: 13.4 bits;  conditional E-value: 5.2e-05
                              HHHHHHHHHHHHH.HHHHHHHHHHHHHHHTTHCHCCCHCTSSS....SHHHHCTTTXX CS
                    Sec2p  32 eeANkmVaaarke.kealekkneklkeqLkeketlleslqeqL....keLkevlekme 84 
                              ++ N mV +a +     +  +++ l++++++ +  ++++q+qL    k+Lk++++++e
  PHY93_12700|PHY93_12700 378 DNLNAMVGTALRTpDGIIPSRKKTLQSNIEQIDRRISQKQKQLeekeKNLKDKFARLE 435
                              7779***99976615577899999*******************333335777777765 PP

>> Prefoldin_2  Prefoldin subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.0   0.3      0.18     2e+02       5      38 ..      26      59 ..      22      68 .. 0.84
   2 ?   13.4   4.1   5.2e-05     0.058      70     104 ..     398     432 ..     394     433 .. 0.94

  Alignments for each domain:
  == domain 1  score: 2.0 bits;  conditional E-value: 0.18
                             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
              Prefoldin_2  5 nkfqqlqqqlqqlaqqikqletqlkelelvleel 38
                                q+ ++q +++  ++  +++ lk +e+v  +l
  PHY93_12700|PHY93_12700 26 VPVQNMEKQKSKISDKKGLVDQLLKLVEDVRGNL 59
                             557999999*********9999999999998766 PP

  == domain 2  score: 13.4 bits;  conditional E-value: 5.2e-05
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCTS CS
              Prefoldin_2  70 rketlekeiktlekqleklekeleelkeelqkklq 104
                              rk+tl+ +i+++ +++++++k+lee +++l+ k+ 
  PHY93_12700|PHY93_12700 398 RKKTLQSNIEQIDRRISQKQKQLEEKEKNLKDKFA 432
                              89*****************************9996 PP

>> DUF1664  Protein of unknown function (DUF1664)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.4       1.1   1.3e+03      49      75 ..      30      59 ..      14     110 .. 0.55
   2 ?    0.6   0.1       0.5   5.5e+02      80     110 ..     251     281 ..     225     290 .. 0.70
   3 ?   12.5   0.1    0.0001      0.11      39     107 ..     377     442 ..     373     451 .. 0.67

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 1.1
                  DUF1664 49 qleqvseslaatk...rhLssridrvdkkl 75
                             ++e+ ++++++ k   ++L + ++ v  +l
  PHY93_12700|PHY93_12700 30 NMEKQKSKISDKKglvDQLLKLVEDVRGNL 59
                             333334444333322222333333333333 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.5
                  DUF1664  80 eiskeikeevtevredlseigedvesvkeav 110
                              e s +i+e+v++v  ++s++ +++++v + v
  PHY93_12700|PHY93_12700 251 EFSINISEDVDAVGVKVSDLITKLNAVLKFV 281
                              4555666666666666666666666666555 PP

  == domain 3  score: 12.5 bits;  conditional E-value: 0.0001
                  DUF1664  39 lsdavesvskqleqvseslaatkrhLssridrvdkkldeqkeiskeikeevtevredlseigedvesvk 107
                              + +  + v++ l +    + + k+ L+s+i+++d+++ + ++    ++e+ ++++++ ++++  ++++k
  PHY93_12700|PHY93_12700 377 MDNLNAMVGTALRTPDGIIPSRKKTLQSNIEQIDRRISQKQKQ---LEEKEKNLKDKFARLEGTMSKIK 442
                              667777889999999999999************9988765543...33333344444444444444444 PP

>> GHMP_kinases_C  GHMP kinases C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.1    0.0003      0.33       5      61 ..     401     459 ..     397     460 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.0003
           GHMP_kinases_C   5 lergdlellgellnlsqrs..elkavvgilppeleellealselGalgaklsGaGgGpt 61 
                               ++ ++e + + + + q +  e++  ++  + +le   +++++ Ga  a++ G GgGp 
  PHY93_12700|PHY93_12700 401 TLQSNIEQIDRRISQKQKQleEKEKNLKDKFARLEGTMSKIKSQGAGLAGMGGGGGGPV 459
                              5677888888999988888996777********************************95 PP

>> Atg14  Vacuolar sorting 38 and autophagy-related subunit 14
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.0      0.66   7.4e+02      78     112 ..      33      67 ..      14     194 .. 0.56
   2 ?   10.9   2.0   0.00016      0.18      80     126 ..     396     442 ..     386     448 .. 0.88

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.66
                    Atg14  78 dlrerlqelkdklsqlkkeieekkkklaklsdklk 112
                              +++++++  k  ++ql k +e+ + +la++ ++ +
  PHY93_12700|PHY93_12700  33 KQKSKISDKKGLVDQLLKLVEDVRGNLATNANARA 67 
                              44444444444444444444444444444444433 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.00016
                    Atg14  80 rerlqelkdklsqlkkeieekkkklaklsdklkkRrsdleslqnele 126
                               +r+++l+  ++q +++i +k+k+l+++ ++lk++ ++le + ++++
  PHY93_12700|PHY93_12700 396 PSRKKTLQSNIEQIDRRISQKQKQLEEKEKNLKDKFARLEGTMSKIK 442
                              58999****************************99999988877776 PP

>> DUF3552  Domain of unknown function (DUF3552)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.6   0.2       5.5   6.2e+03     116     131 ..      32      47 ..      28      75 .. 0.52
   2 ?   13.5   3.4   3.2e-05     0.036      77     120 ..     403     446 ..     397     451 .. 0.88

  Alignments for each domain:
  == domain 1  score: -3.6 bits;  conditional E-value: 5.5
                  DUF3552 116 kqkeqsleekeeelee 131
                              ++++++++ k+  +++
  PHY93_12700|PHY93_12700  32 EKQKSKISDKKGLVDQ 47 
                              2222222222222222 PP

  == domain 2  score: 13.5 bits;  conditional E-value: 3.2e-05
                  DUF3552  77 rnelqrlekRllqkeetLdrkeeslekkeesleekekelkqkeq 120
                              +++++++++R+ qk+++L++ke++l++k ++le + +++k++ +
  PHY93_12700|PHY93_12700 403 QSNIEQIDRRISQKQKQLEEKEKNLKDKFARLEGTMSKIKSQGA 446
                              68999****************************99999988765 PP

>> DUF4200  Domain of unknown function (DUF4200)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.0   0.2      0.24   2.7e+02      22      67 ..      17      62 ..      13      85 .. 0.78
   2 ?   10.8   5.1   0.00043      0.49      19      58 ..     403     442 ..     398     446 .. 0.88

  Alignments for each domain:
  == domain 1  score: 2.0 bits;  conditional E-value: 0.24
                  DUF4200 22 iqrleealkqreeelekkeqeleedllkfdkflkendakraralkk 67
                              ++l+ a +   +++ek+++++ ++   +d+ lk  ++ r +   +
  PHY93_12700|PHY93_12700 17 VKQLMAAEQVPVQNMEKQKSKISDKKGLVDQLLKLVEDVRGNLATN 62
                             5678888888889999999999999999999999888777655554 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 0.00043
                  DUF4200  19 keeiqrleealkqreeelekkeqeleedllkfdkflkend 58 
                              + +i+++ ++++q++++le+ke++l++++++++  + +++
  PHY93_12700|PHY93_12700 403 QSNIEQIDRRISQKQKQLEEKEKNLKDKFARLEGTMSKIK 442
                              67899**************************998888776 PP

>> MCU  Mitochondrial calcium uniporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.2     0.061        68      35      92 ..      13      71 ..       7      75 .. 0.77
   2 ?   -3.1   0.1       6.3   7.1e+03     135     170 ..     195     225 ..     191     227 .. 0.51
   3 ?    6.4   0.0     0.008         9      46      83 ..     402     444 ..     367     451 .. 0.80

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.061
                             XXXXXXXXX-SSSSSSTSSSSSHHHHHHHHHHHHH.-SHHHHHHHHTCCCGGGCHHHHG CS
                      MCU 35 vkqlvkalesalnveeeqlkkereleekleelree.lepleekkeeidekAerrtrrll 92
                             +k +vk+l +a +v+ ++++k++++ ++++ l ++ l+ +e+++ +++ +A++r+ r+l
  PHY93_12700|PHY93_12700 13 PKDIVKQLMAAEQVPVQNMEKQKSKISDKKGLVDQlLKLVEDVRGNLATNANARALREL 71
                             78999999999999988888887777766666655156678899999999999987665 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 6.3
                              HTTTHHHHGGCTTTCSSSSSSSSSTTT-SSS--SSH CS
                      MCU 135 yaYflltkqeysyedvkdrqflkkfhklakkrkfDv 170
                              y+Yf+   q+++ e  ++r++++    ++k  +fD+
  PHY93_12700|PHY93_12700 195 YFYFVDGDQDFQLE--FQREAHD---AKIKLDGFDI 225
                              66666666665554..3333332...2345556665 PP

  == domain 3  score: 6.4 bits;  conditional E-value: 0.008
                              S.....SSSSTSSSSSHHHHHHHHHHHHH-SHHHHHHHHTCCC CS
                      MCU  46 l.....nveeeqlkkereleekleelreelepleekkeeidek 83 
                              l     ++++  ++k+++leek+++l++++  le + ++i+++
  PHY93_12700|PHY93_12700 402 LqsnieQIDRRISQKQKQLEEKEKNLKDKFARLEGTMSKIKSQ 444
                              2333356777889999******************999999876 PP

>> DUF724  Protein of unknown function (DUF724)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.2       1.3   1.4e+03     144     178 ..      22      56 ..      13      86 .. 0.65
   2 ?    4.0   0.0     0.034        38      79     110 ..     217     248 ..     209     296 .. 0.72
   3 ?    5.0   2.0     0.017        19     124     171 ..     398     442 ..     396     448 .. 0.70

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 1.3
                   DUF724 144 rqlallkekkeaadkeiarlkseaekleeeledve 178
                                +++  +++e+++++i++ k  +++l + +edv+
  PHY93_12700|PHY93_12700  22 AAEQVPVQNMEKQKSKISDKKGLVDQLLKLVEDVR 56 
                              33344446666666666666666666555555554 PP

  == domain 2  score: 4.0 bits;  conditional E-value: 0.034
                   DUF724  79 eLekhGFdVkalqsrlnkLlslkdeqtkllee 110
                              +++ +GFd++a+++++++++   +   k+++ 
  PHY93_12700|PHY93_12700 217 KIKLDGFDIEAPENKIKDMIPGVTIDLKKAKP 248
                              56779***********9998655555555555 PP

  == domain 3  score: 5.0 bits;  conditional E-value: 0.017
                   DUF724 124 ekrkleeeidelekkilelerqlallkekkeaadkeiarlkseaekle 171
                              +k+ l+++i++++++i++ ++ql+   ek+++ + + arl+  ++k++
  PHY93_12700|PHY93_12700 398 RKKTLQSNIEQIDRRISQKQKQLE---EKEKNLKDKFARLEGTMSKIK 442
                              677788889999999998888886...555556666666666666665 PP

>> Spc7  Spc7 kinetochore protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.7     0.086        97     148     242 ..      28      65 ..      15     116 .. 0.47
   2 ?    8.0   2.4     0.001       1.1     210     251 ..     401     442 ..     395     447 .. 0.65

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.086
                     Spc7 148 legleedkelLekqeeeldellpeleeekaeleeeleklqeaaeelesidkeeLeelreelaelkaeieekkkelaelqeqleele 233
                              ++++e++k+++++++ ++d+ll+ +e  +                                                         
  PHY93_12700|PHY93_12700  28 VQNMEKQKSKISDKKGLVDQLLKLVEDVRG-------------------------------------------------------- 57 
                              444444444444444444444443333333........................................................ PP

                     Spc7 234 ekieelkeq 242
                               ++++ ++ 
  PHY93_12700|PHY93_12700  58 -NLATNANA 65 
                              .33333332 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.001
                     Spc7 210 elkaeieekkkelaelqeqleeleekieelkeqkseleeeia 251
                              +l+++ie+  ++++++q+qlee+e+++++  ++ + ++++i+
  PHY93_12700|PHY93_12700 401 TLQSNIEQIDRRISQKQKQLEEKEKNLKDKFARLEGTMSKIK 442
                              455666666677777777777777777666666666666665 PP

>> NPV_P10  Nucleopolyhedrovirus P10 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.4       1.7   1.9e+03      19      36 ..      44      61 ..      19      83 .. 0.72
   2 ?    7.2   0.7    0.0063       7.1       8      46 ..     255     293 ..     253     302 .. 0.88
   3 ?    4.6   0.2     0.041        46      11      36 ..     404     429 ..     400     448 .. 0.73

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 1.7
                  NPV_P10 19 kVdalqqqvddvqenlpd 36
                              Vd l + v+dv+ nl +
  PHY93_12700|PHY93_12700 44 LVDQLLKLVEDVRGNLAT 61
                             367777777777777765 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.0063
                  NPV_P10   8 vIradikavddkVdalqqqvddvqenlpdvtelnekLda 46 
                               I +d+ av  kV+ l ++++ v + ++d + + +k d 
  PHY93_12700|PHY93_12700 255 NISEDVDAVGVKVSDLITKLNAVLKFVKDQNAIDDKTDT 293
                              5899*************************8888888775 PP

  == domain 3  score: 4.6 bits;  conditional E-value: 0.041
                  NPV_P10  11 adikavddkVdalqqqvddvqenlpd 36 
                              ++i+++d +++  q+q+++ ++nl+d
  PHY93_12700|PHY93_12700 404 SNIEQIDRRISQKQKQLEEKEKNLKD 429
                              67899999999999999988888888 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (461 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1376  (0.0767472); expected 358.6 (0.02)
Passed bias filter:                      869  (0.048469); expected 358.6 (0.02)
Passed Vit filter:                       141  (0.00786435); expected 17.9 (0.001)
Passed Fwd filter:                        16  (0.000892409); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              16  [number of targets reported over threshold]
# CPU time: 0.68u 0.30s 00:00:00.98 Elapsed: 00:00:00.42
# Mc/sec: 3259.06
//
Query:       PHY93_12705|PHY93_12705  [L=133]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.4e-38  129.6   0.7    7.3e-38  129.4   0.7    1.0  1  FliS      Flagellar protein FliS
  ------ inclusion threshold ------
       0.11   12.6   0.0       0.15   12.1   0.0    1.3  1  PRC       PRC-barrel domain


Domain annotation for each model (and alignments):
>> FliS  Flagellar protein FliS
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  129.4   0.7   8.1e-42   7.3e-38       2     114 ..       6     118 ..       5     119 .. 0.98

  Alignments for each domain:
  == domain 1  score: 129.4 bits;  conditional E-value: 8.1e-42
                              GGCSHCCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHTCCTTTSCHHHHHHHHHHHHHHHHHHH CS
                     FliS   2 qaYkqnsvetaspeklvlmLydgalkflkrakeaieekdiekkgeaiskaqdIiseLrasLdlekggeiaknLaalYdyiirrlle 87 
                               aYk+++v+tas+e+++lmLy+ a+k++k+a+eai++k+i++kge+i+k qdI+ eL++sLd+e gg+iak+L++lYdyi+   ++
  PHY93_12705|PHY93_12705   6 GAYKKTAVSTASKEQILLMLYQAAIKNCKKAIEAIRDKKIAAKGEYIGKLQDIVIELNNSLDFEVGGDIAKELSSLYDYILFSSTQ 91 
                              69************************************************************************************ PP

                              HHHCT-HHHHHHHHHHHHHHHHHHHHH CS
                     FliS  88 anlkkdaekldeviklleelreaWkei 114
                              an+k dae l+ + ++l++l e+W+e+
  PHY93_12705|PHY93_12705  92 ANIKIDAEPLEGCLNVLNTLYEGWSEA 118
                              ************************997 PP

>> PRC  PRC-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   1.7e-05      0.15      16      34 ..      46      64 ..      37      96 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 1.7e-05
                             ETTSSEEEEEEEEEEETTT CS
                      PRC 16 tedGeklGkVkDvvideke 34
                               +Ge++Gk++D+vi+ ++
  PHY93_12705|PHY93_12705 46 AAKGEYIGKLQDIVIELNN 64
                             567************9854 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (133 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       575  (0.0320709); expected 358.6 (0.02)
Passed bias filter:                      440  (0.0245412); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 988.69
//
Query:       PHY93_12710|PHY93_12710  [L=133]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0025   18.6   0.5      0.006   17.4   0.5    1.7  1  FliT      Flagellar protein FliT


Domain annotation for each model (and alignments):
>> FliT  Flagellar protein FliT
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.5   3.3e-07     0.006       2      85 .]      28     129 ..      27     129 .. 0.87

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 3.3e-07
                              HHHHHCT-HHHHHHHHHHHHHHHHHHHCS-...........-ST--HHHHHHHHHHHH.......HHHHHHHHHHHHHHHHHHHHH CS
                     FliT   2 leaAragdWdelaaleaerqqlverlreld...........aaplspaereekrellr.......rilandaeirallqprldelq 69 
                               + Ar+ + + +++  ++r+++v+ +++++           +++ s+++   + + ++       r+l+ d+e+ +ll ++++   
  PHY93_12710|PHY93_12710  28 RNFARSTNLEGVVEETENRERIVNIVTQIQrrveeqinllnPSEISNDDILILKAWFQdlsvlseRMLTCDRETVELLGQQKEDTT 113
                              578999999*************999999999999998877777777777777777777**************************** PP

                              HHHCHTHHHHHHHHHH CS
                     FliT  70 kllgalrrqrkannaY 85 
                              k+++ + ++++  ++Y
  PHY93_12710|PHY93_12710 114 KEISLIYKNKEIFKSY 129
                              ***9999998888777 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (133 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       805  (0.0448993); expected 358.6 (0.02)
Passed bias filter:                      363  (0.0202465); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1006.07
//
Query:       PHY93_12715|PHY93_12715  [L=224]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (224 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       447  (0.0249317); expected 358.6 (0.02)
Passed bias filter:                      299  (0.0166769); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1695.03
//
Query:       PHY93_12720|PHY93_12720  [L=553]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.3e-05   23.9   0.0    4.6e-05   22.9   0.0    1.5  1  Glyco_transf_9  Glycosyltransferase family 9 (heptosyltransfe


Domain annotation for each model (and alignments):
>> Glyco_transf_9  Glycosyltransferase family 9 (heptosyltransferase)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.9   0.0   2.6e-09   4.6e-05       7     201 ..      86     293 ..      81     302 .. 0.71

  Alignments for each domain:
  == domain 1  score: 22.9 bits;  conditional E-value: 2.6e-09
                              HTTTTT-SEEEE-S--SGGGHHHHHTT..-SEEEEE-TTT-.TTT-TEEE---TTT--SHHH....HHHHTTS-GGGS-SS----- CS
           Glyco_transf_9   7 aLrekayDlvidlqgllkSAllvralk..apvriGldeesrelaslfysrkvdkakgqhaVe....rnraLfaqaldlpkpeskpe 86 
                               ++++++D +i+  + l  A l  +l   +++ iG   +    ++ + ++++  +   ++V+      ++  ++++++  ++  ++
  PHY93_12720|PHY93_12720  86 GIKNQKWDEIINYSNDLVGAYLCSYLRnsTEKVIGVHFNAQRSIITNSDWEMLFNDVLPIVKyapvHFVDCYHKMIGISHHSEGEK 171
                              56777777777777777777777666511345566554444466666666666666666665221133444444477777666666 PP

                              ----HHHHHHHHHHTT........--SSS-EEEEE---TTGGGS--HHHHHHHHHHHHHTT..-EEEE---GGGHHHHHHTTS-HH CS
           Glyco_transf_9  87 lalslkeraaaldaag........llaerpyivflpgaskdaKrWpeekyaelaealqekg..yqvvLfgsaeaeeeeiaeriaag 162
                              +  +   +a a++ ++          +  ++++++  +s  aK+ pe    el+  l+ +   + + L+++ ++ e+  a +i+++
  PHY93_12720|PHY93_12720 172 IITNPGHNATAFSNMStirknlpvAESATKIVGIQLKTSDTAKDIPEGIILELLSLLKGTPelIPILLIAPIDE-ERKYAIEINEK 256
                              666666666666666677777776556679***************************98875455556555555.9999******* PP

                              HHTTEEE-TTTS-HHHHHHHHHTSSEEEEESSHHHHHHH CS
           Glyco_transf_9 163 leekavnllgktsLeelaallakadlvvgnDSGlmHlAa 201
                              ++  +     + +L+++a +l ++dl +++D+++ H+A 
  PHY93_12720|PHY93_12720 257 FN--NQLAVVEADLQAIASVLMNIDLLITPDTAIKHIAD 293
                              99..55555689*************************95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (553 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       811  (0.045234); expected 358.6 (0.02)
Passed bias filter:                      371  (0.0206927); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.21s 00:00:00.77 Elapsed: 00:00:00.38
# Mc/sec: 4350.81
//
Query:       PHY93_12725|PHY93_12725  [L=46]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.051   13.6   0.2      0.054   13.5   0.2    1.1  1  Bcr-Abl_Oligo  Bcr-Abl oncoprotein oligomerisation domain


Domain annotation for each model (and alignments):
>> Bcr-Abl_Oligo  Bcr-Abl oncoprotein oligomerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.2     3e-06     0.054      26      58 ..       5      36 ..       1      42 [. 0.87

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 3e-06
            Bcr-Abl_Oligo 26 vedieqeLerCkaslrrLekelneekfkviyLq 58
                             ++di++eL r k+++ +    lnee  k+i L 
  PHY93_12725|PHY93_12725  5 LDDINRELSRIKEKIDKA-TALNEEDLKIILLS 36
                             589************985.68*********986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (46 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       906  (0.0505327); expected 358.6 (0.02)
Passed bias filter:                      450  (0.025099); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.35u 0.20s 00:00:00.55 Elapsed: 00:00:00.34
# Mc/sec: 403.70
//
Query:       PHY93_12730|PHY93_12730  [L=567]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.5e-18   67.0   0.1    3.4e-18   65.9   0.0    1.6  2  Glyco_transf_9  Glycosyltransferase family 9 (heptosyltransfe


Domain annotation for each model (and alignments):
>> Glyco_transf_9  Glycosyltransferase family 9 (heptosyltransferase)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0      0.24   4.3e+03       8      39 ..     103     134 ..     100     145 .. 0.85
   2 !   65.9   0.0   1.9e-22   3.4e-18     103     240 ..     189     332 ..     172     342 .. 0.80

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 0.24
                              TTTTT-SEEEE-S--SGGGHHHHHTT-SEEEE CS
           Glyco_transf_9   8 LrekayDlvidlqgllkSAllvralkapvriG 39 
                              L  +  +++i+l  + +S+ l+  +k  ++iG
  PHY93_12730|PHY93_12730 103 LSTETIEVLINLSFSKSSSYLSSLVKSVHKIG 134
                              66667788999999999999999999999998 PP

  == domain 2  score: 65.9 bits;  conditional E-value: 1.9e-22
                              --SSS-EEEEE---TTGGGS--HHHHHHHHHHHHHTT..-EEEE---GGGH..HHHHHTT.S-HHHHTTEEE-TTTS-HHHHHHHH CS
           Glyco_transf_9 103 llaerpyivflpgaskdaKrWpeekyaelaealqekg..yqvvLfgsaeae..eeeiaer.iaagleekavnllgktsLeelaall 183
                              +++    +v+ p as++ K W +ek+ e++ +  +++  y + ++g++++   ++ i e+ + + + + + nl gkt+L+el + l
  PHY93_12730|PHY93_12730 189 MSSRSSTVVIHPFASQERKAWKAEKWVEVIYRTLKENdsYIIQIVGAKNEIikSQMITENpLLKTFGNRIQNLTGKTTLAELSDEL 274
                              55667899*********************9765555544556666666655643333322245555556***************** PP

                              HTSSEEEEESSHHHHHHHHTT--EEEE.ESSS-TTSS----TTEEEEESS--.----- CS
           Glyco_transf_9 184 akadlvvgnDSGlmHlAaAldrpviaL.Ygptdpkrtgplsksativsleeeaspelk 240
                              +k +l+vg DS ++HlAa   +p++++  g+ +p++t p+ ++a ++   +++ p++ 
  PHY93_12730|PHY93_12730 275 KKSKLFVGHDSMVGHLAALTRTPTLTVsLGSVRPQETTPYHANAYNLAPRTKCFPCFP 332
                              **************************967******************99999999985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (567 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       567  (0.0316247); expected 358.6 (0.02)
Passed bias filter:                      409  (0.0228122); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.41
# Mc/sec: 4115.94
//
Query:       PHY93_12735|PHY93_12735  [L=141]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (141 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       572  (0.0319036); expected 358.6 (0.02)
Passed bias filter:                      310  (0.0172904); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 1095.62
//
Query:       PHY93_12740|PHY93_12740  [L=507]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.8e-15   57.4   0.1    3.7e-15   56.4   0.1    1.5  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    0.00016   21.6   0.2    0.00036   20.5   0.2    1.6  1  HisKA        His Kinase A (phospho-acceptor) domain
  ------ inclusion threshold ------
      0.031   14.2   0.0      0.067   13.2   0.0    1.5  1  HATPase_c_2  Histidine kinase-like ATPase domain
      0.098   12.5   0.0       0.27   11.1   0.0    1.8  1  HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.4   0.1   8.2e-19   3.7e-15       3     109 ..     399     507 .]     397     507 .] 0.87

  Alignments for each domain:
  == domain 1  score: 56.4 bits;  conditional E-value: 8.2e-19
                              HHHHHHHHHHHHHHHHHH.....HS.TTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHH CS
                HATPase_c   3 ekrLrqiisnlvdNavkf.....at.kageieveikaseddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivk 82 
                              ++ L+qii nl+ Na ++     +  ++++i +++ +++++l+i v D+G+G+  e +  +fe+f +     ++ +gtGlGlsi++
  PHY93_12740|PHY93_12740 399 STCLTQIIFNLIINAGQAiksanERvNKNSIIIKLIKEDKTLTIAVVDDGPGVKSEFVGDIFEPFFT-----TKDSGTGLGLSICQ 479
                              6679***********9998876522588899999996558***************************.....7889********** PP

                              HHHHHTTTEEEE.EEETTTEEEEEEEEE CS
                HATPase_c  83 klvelmgGeiwv.esepgrGttftftlp 109
                              +l++++g +i++ +++p  G tf ++lp
  PHY93_12740|PHY93_12740 480 NLARQLGSKIHFqNNSPFTGATFSINLP 507
                              ************5555588999999886 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.5   0.2     8e-08   0.00036       2      61 ..     290     348 ..     289     354 .. 0.90

  Alignments for each domain:
  == domain 1  score: 20.5 bits;  conditional E-value: 8e-08
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHC..T-HSSCHHHHHHHHHHHHHHHHHHHHHHHH CS
                    HisKA   2 lgrflagvaHELrtPLsailgnaeaLkregklteelkeyletiesearrldhlvedlLdl 61 
                              lg++l ++ HEL +PL ++ ++ ++L  e + + e ke l++i  +a+r + +++++  l
  PHY93_12740|PHY93_12740 290 LGELLNTLQHELSNPLFGLNLTGSLLTGE-AENLETKEVLQDICLNANRSQTIIKNFSNL 348
                              79************************664.6789*********************98665 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   1.5e-05     0.067      43     111 ..     416     484 ..     413     494 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.5e-05
              HATPase_c_2  43 avehayleapegpvevrlesdeealtvevaDsGpgfdpetlpdpteeepkeslkegGrGlalikglvDe 111
                              a++ a+++ ++ ++ ++l  ++++lt+ v D+Gpg + e   d  e+  ++++   G+Gl + ++l+ +
  PHY93_12740|PHY93_12740 416 AIKSANERVNKNSIIIKLIKEDKTLTIAVVDDGPGVKSEFVGDIFEPFFTTKDSGTGLGLSICQNLARQ 484
                              788899999999***********************99988877777777999999*****999999865 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0     6e-05      0.27       7      63 ..     406     469 ..     400     488 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 6e-05
              HATPase_c_3   7 laelvdNsldAdaen........vkievnknrgktgeivieDdGkGmseeelknalrlatsskea 63 
                              ++ l+ N+ +A            + i++ k++ kt +i + DdG G++ e + + +++  ++k++
  PHY93_12740|PHY93_12740 406 IFNLIINAGQAIKSAnervnknsIIIKLIKED-KTLTIAVVDDGPGVKSEFVGDIFEPFFTTKDS 469
                              56677777776444445666666899999976.79**************9999999988888774 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (507 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1210  (0.0674884); expected 358.6 (0.02)
Passed bias filter:                      420  (0.0234257); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.55u 0.21s 00:00:00.76 Elapsed: 00:00:00.37
# Mc/sec: 4090.97
//
Query:       PHY93_12745|PHY93_12745  [L=125]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    7.4e-16   58.3   0.1      9e-16   58.0   0.1    1.1  1  Response_reg  Response regulator receiver domain
  ------ inclusion threshold ------
      0.072   13.2   0.0        2.8    8.0   0.0    2.0  2  BRCT_3        BRCA1 C Terminus (BRCT) domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.0   0.1     1e-19     9e-16       1     104 [.       4     109 ..       4     117 .. 0.88

  Alignments for each domain:
  == domain 1  score: 58.0 bits;  conditional E-value: 1e-19
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCT....TTSEEEEEESSTS CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireed....pelpviiltahse 82 
                              +l+++D+pl+++ l++lle++g  ev + + g+ea++l+ ++k+d i++D+++++++G+++++e + +      +   ii+ta+s+
  PHY93_12745|PHY93_12745   4 ILLIEDEPLIQKSLKKLLEKRGA-EVVVESRGREAIQLILNQKFDRIICDLMLQDISGFDVIEEAKGRFtmaeISKLFIIITAYSS 88 
                              89*********************.99999************************************9999554333446999***** PP

                              HHHHHHHHHCTESEEEESSG-H CS
             Response_reg  83 eedavealkagaddflsKpfdp 104
                                ++++a  +g    +sKpf+ 
  PHY93_12745|PHY93_12745  89 PHVIEKATHYGCL-LISKPFEN 109
                              **********986.79999943 PP

>> BRCT_3  BRCA1 C Terminus (BRCT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   0.0   0.00032       2.8       7      54 ..       3      52 ..       1      58 [. 0.83
   2 ?    3.5   0.0    0.0085        77      29      74 ..      60     104 ..      53     106 .. 0.71

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.00032
                   BRCT_3  7 killvseqkefeelWseilklaGaavvkkekseaee..islgkldvvvtd 54
                             kill+ +++ +++  +++l+  Ga+vv + + ++    i  +k+d ++ d
  PHY93_12745|PHY93_12745  3 KILLIEDEPLIQKSLKKLLEKRGAEVVVESRGREAIqlILNQKFDRIICD 52
                             89************************887766555457778888888877 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.0085
                   BRCT_3  29 GaavvkkekseaeeislgkldvvvtdsscpeevlkkaeqlkipvvS 74 
                              G  v+++ k +  +++ +kl +++t  s p+   +ka++++  ++S
  PHY93_12745|PHY93_12745  60 GFDVIEEAKGRFTMAEISKLFIIITAYSSPHV-IEKATHYGCLLIS 104
                              66666666666666778888899998888765.5667777777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (125 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       549  (0.0306208); expected 358.6 (0.02)
Passed bias filter:                      495  (0.0276089); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.39u 0.25s 00:00:00.64 Elapsed: 00:00:00.38
# Mc/sec: 993.66
//
Query:       PHY93_21375|PHY93_21375  [L=142]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    8.6e-10   38.4   0.8    1.3e-09   37.8   0.8    1.3  1  zf-dskA_traR  Prokaryotic dksA/traR C4-type zinc finger
  ------ inclusion threshold ------
      0.027   14.3   0.2      0.035   13.9   0.2    1.1  1  CK_II_beta    Casein kinase II regulatory subunit
       0.15   10.7   0.4       0.17   10.5   0.4    1.1  1  FapA          Flagellar Assembly Protein A
       0.22   12.3   3.2       0.43   11.4   3.2    1.5  1  Rho_Binding   Rho Binding
       0.77   10.3   3.5        1.6    9.3   0.4    2.3  2  zf-C4pol      C4-type zinc-finger of DNA polymerase delta
        1.2    9.5   5.1        3.7    8.0   5.2    1.8  1  CENP-H        Centromere protein H (CENP-H)


Domain annotation for each model (and alignments):
>> zf-dskA_traR  Prokaryotic dksA/traR C4-type zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.8   0.8   4.4e-13   1.3e-09       1      35 [.      82     116 ..      82     117 .. 0.96

  Alignments for each domain:
  == domain 1  score: 37.8 bits;  conditional E-value: 4.4e-13
             zf-dskA_traR   1 giygsCeeCGEpIpeaRlralPgarlCveCqekae 35 
                              g++g C +CG+ I+ +Rl ++P a lCveCq+  e
  PHY93_21375|PHY93_21375  82 GSFGECTGCGDIIAAKRLLVQPSADLCVECQHQKE 116
                              79*****************************9887 PP

>> CK_II_beta  Casein kinase II regulatory subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.2   1.2e-05     0.035      29     101 ..      17      88 ..       6     100 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 1.2e-05
               CK_II_beta  29 ltgLseevpnykealelildveeeeeleeseksevessaelLYgliHaryiltkkglakmlekykkkefgrCp 101
                              l +L++++++++  l    + +++++l++s ++++e+++   +  + +ry  +++ + + l++++k++fg+C 
  PHY93_21375|PHY93_21375  17 LSELETSMTKMQAELTEASE-SQTNSLRDSFDHTIEQNEMSTHFEMYERYTHERRQILSALDRIEKGSFGECT 88 
                              55666666666666666666.556779999999***************************************6 PP

>> FapA  Flagellar Assembly Protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.4   5.7e-05      0.17     331     397 ..       9      79 ..       1      98 [. 0.66

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 5.7e-05
                     FapA 331 depelkeklkeleeeleeleeeleklkkk.ikklpklkaekqles....ekkeqlkklletkeklkeeleel 397
                              ++++l ++l+ele+ + ++++el++  ++  ++l++ + +  +e+    +++e+++++++++ ++ + l  +
  PHY93_21375|PHY93_21375   9 RRLQLSQRLSELETSMTKMQAELTEASESqTNSLRD-SFDHTIEQnemsTHFEMYERYTHERRQILSALDRI 79 
                              458899999**********99999988888666666.44444444000044455555555555555544444 PP

>> Rho_Binding  Rho Binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   3.2   0.00014      0.43       3      51 ..       8      54 ..       6      58 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00014
              Rho_Binding  3 kdvenlakekeelnkklkkleeelekakeeeeeieklkasyekqLktEr 51
                             ++  +l++   el+  + k++ el +a+  e+++++l+ s+++++++ +
  PHY93_21375|PHY93_21375  8 ERRLQLSQRLSELETSMTKMQAELTEAS--ESQTNSLRDSFDHTIEQNE 54
                             5667899999999999999999999998..9************998865 PP

>> zf-C4pol  C4-type zinc-finger of DNA polymerase delta
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   0.2       0.1   3.1e+02      25      44 ..      11      30 ..       6      75 .. 0.78
   2 ?    9.3   0.4   0.00053       1.6       1      24 [.      87     119 ..      87     132 .. 0.67

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.1
                 zf-C4pol 25 lkllsrlkelekklneletv 44
                             l+l +rl+ele+ +++++++
  PHY93_21375|PHY93_21375 11 LQLSQRLSELETSMTKMQAE 30
                             56777777777777777654 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.00053
                 zf-C4pol   1 ClvCk.....eklk......kalCkkCrsdkqesl 24 
                              C +C+     +  +      ++lC +C+++k++  
  PHY93_21375|PHY93_21375  87 CTGCGdiiaaK--RllvqpsADLCVECQHQKEADS 119
                              99999666541..045667799*****98887764 PP

>> CENP-H  Centromere protein H (CENP-H)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   5.2    0.0013       3.7       5      42 ..       7      44 ..       4      83 .. 0.67

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.0013
                   CENP-H  5 ieqrdelssellklsqelrelqeeltevekenlrlkrk 42
                              e+r +ls++l +l+++++++q+elte+ +++ +  r 
  PHY93_21375|PHY93_21375  7 SERRLQLSQRLSELETSMTKMQAELTEASESQTNSLRD 44
                             57788888888888888888888888887766655444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (142 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1717  (0.0957666); expected 358.6 (0.02)
Passed bias filter:                      934  (0.0520944); expected 358.6 (0.02)
Passed Vit filter:                       104  (0.00580066); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 1073.30
//
Query:       PHY93_12750|PHY93_12750  [L=300]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    5.6e-55  186.6   0.0    6.6e-55  186.4   0.0    1.1  1  NAD_kinase  ATP-NAD kinase
     0.0021   17.7   0.0     0.0076   15.9   0.0    1.8  2  DAGK_cat    Diacylglycerol kinase catalytic domain


Domain annotation for each model (and alignments):
>> NAD_kinase  ATP-NAD kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  186.4   0.0   7.4e-59   6.6e-55      72     290 ..      63     279 ..      18     281 .. 0.88

  Alignments for each domain:
  == domain 1  score: 186.4 bits;  conditional E-value: 7.4e-59
                              -TTTTTSSSEEEEEE-HHHHHHHHHHHHHCT-EEEEEESSS--SS-SEEGGGHHHHHHHHHHT-SEEEEEEEEEEEEEETTE.... CS
               NAD_kinase  72 eafadagvdliivvGGDGTaldvarllqkaeiPvlgvnaGvkgfltefepeaaaellekllegeirvekrevldavimrskgeedi 157
                              e+      dlii+ GGDGT   v r ++k ++P+ gvn G++gf tef  ++++ +le+ l+g+++++   + ++ ++ +k+e   
  PHY93_12750|PHY93_12750  63 ENDLHTVSDLIITMGGDGTLIGVCRNIKKSSPPIFGVNIGHLGFITEFAKSEFFDQLEATLKGDFKITPLCLYQVEVFSKKKE--- 145
                              333444569*************************************************************************7... PP

                              ..EEEEEEESSEEEEEESSSSS-EEEEEEETTEEEEEEEESEEEEE-TGGGGTHHHHTT--EE-TT---EEEEEESESSS----EE CS
               NAD_kinase 158 adiviensvlnevviirgpgstlielelyvdtelleadqldglivstPtGstayslsaGgplisPgvlailivpicPhslssrpiV 243
                               +   + + ln+vv+   ++s +++l ++ d+e + ++  dgli+s+P+Gstaysl+aGgp+i+P v+ai+++pic+hsl+ rp+V
  PHY93_12750|PHY93_12750 146 -KPTFKGYFLNDVVVNNNQISRMLTLSVESDGEHIYNLAGDGLIISSPIGSTAYSLAAGGPIIHPLVNAITLTPICAHSLTHRPLV 230
                              .45556678***************************************************************************** PP

                              E-TT-EEEEEE-.SS--EEEEETTTEEEEE-TT-EEEEEEESSE.EEEE CS
               NAD_kinase 244 vssssklrirva.srseallaldGseelelspgdevrvtasdkk.fkli 290
                              +++ s++ i+ a +++++ l ldG++++ l+p+d+++vt+ ++k ++li
  PHY93_12750|PHY93_12750 231 IPDHSNVVIKAArTDESIKLTLDGQQQVTLGPNDIIKVTKKKTKiVHLI 279
                              **********999999************************999866666 PP

>> DAGK_cat  Diacylglycerol kinase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.0   8.4e-07    0.0076      47      85 ..      60      96 ..      24     104 .. 0.70
   2 ?   -1.6   0.0      0.21   1.9e+03      43      68 ..     163     188 ..     150     190 .. 0.73

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 8.4e-07
                             HHHHHHHCC-.SEEEEEESHHHHHHHHHHHCTHHCTTSEE CS
                 DAGK_cat 47 lakeakeegv.dlivvaGGDGtvsevlnglleelatkppl 85
                             +++e + + v dli+ +GGDGt+  v+  + +   + pp+
  PHY93_12750|PHY93_12750 60 FIAENDLHTVsDLIITMGGDGTLIGVCRNIKK---SSPPI 96
                             34444444445*****************9999...44444 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 0.21
                              HHHHHHHHHHHCC-SEEEEEESHHHH CS
                 DAGK_cat  43 dakelakeakeegvdlivvaGGDGtv 68 
                              +  ++++   e++ + i  + GDG++
  PHY93_12750|PHY93_12750 163 QISRMLTLSVESDGEHIYNLAGDGLI 188
                              55555555566678899999999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (300 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       726  (0.0404931); expected 358.6 (0.02)
Passed bias filter:                      540  (0.0301188); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.21s 00:00:00.71 Elapsed: 00:00:00.38
# Mc/sec: 2352.74
//
Query:       PHY93_20200|PHY93_20200  [L=53]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        0.1   12.4   0.6       0.17   11.7   0.0    1.6  2  SinI      Anti-repressor SinI


Domain annotation for each model (and alignments):
>> SinI  Anti-repressor SinI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   9.5e-06      0.17      17      27 ..      26      36 ..      26      37 .. 0.93
   2 ?   -2.3   0.1      0.23   4.1e+03      11      14 ..      41      44 ..      40      45 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 9.5e-06
                             --SHHHHHHHH CS
                     SinI 17 lskeEfReFLe 27
                             l+keE+++FL+
  PHY93_20200|PHY93_20200 26 LTKEEVKKFLD 36
                             8*********8 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 0.23
                             HHHH CS
                     SinI 11 EAke 14
                             EAk+
  PHY93_20200|PHY93_20200 41 EAKN 44
                             9998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (53 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       549  (0.0306208); expected 358.6 (0.02)
Passed bias filter:                      328  (0.0182944); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.34u 0.20s 00:00:00.54 Elapsed: 00:00:00.35
# Mc/sec: 457.59
//
Query:       PHY93_20205|PHY93_20205  [L=243]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      9e-19   68.0  14.0      9e-19   68.0  14.0    1.4  2  Rhomboid  Rhomboid family
      1e-10   42.1   2.8      1e-10   42.1   2.8    2.0  2  DUF1751   Eukaryotic integral membrane protein (DUF1751)
  ------ inclusion threshold ------
       0.17   11.4   0.1       0.25   10.9   0.1    1.3  1  Spem1     Spermatid maturation protein 1


Domain annotation for each model (and alignments):
>> Rhomboid  Rhomboid family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.1       1.1   6.5e+03     109     134 ..      20      45 ..       6      48 .. 0.49
   2 !   68.0  14.0   1.5e-22     9e-19       4     148 ..      53     205 ..      50     206 .. 0.93

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 1.1
                              CCCCCCCCHHHCTSSSTTTHHHHHHH CS
                 Rhomboid 109 lfillnlvlgllpraggvsnlAHlgG 134
                              ++++  ++l ++ ++++  +l+++ G
  PHY93_20205|PHY93_20205  20 IIASSCFILEFILSKTSTIYLGNILG 45 
                              33333333333333344555555555 PP

  == domain 2  score: 68.0 bits;  conditional E-value: 1.5e-22
                              CC-TTHHHHGGG--SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-S..........-EESSHHHHHHH CS
                 Rhomboid   4 rgelwrlltsmflHagwlHllfNmlallvfGsplerrlGslrflllyllsglagsllsllfsaeses.......plvGaSGaifgl 82 
                              +g+l+ l+t+ fl  +++ +++N+l+l+++Gs++e ++G++r+l + l+++++g+ll+l +s    s       plvG+SG++++l
  PHY93_20205|PHY93_20205  53 HGHLYSLITYPFLSRSIIEVILNCLMLWLMGSEFEANWGTKRYLNFILSVVIGGGLLYLGVSILFFSttpiyqfPLVGLSGIVSSL 138
                              7899****************************************************999999998778999*************** PP

                              HHHHHHHHHCCCCGS----HC.....CCCCCCCCCCHHHCTSSSTTTHHHHHHHHHHHHHHHHHHCCH CS
                 Rhomboid  83 lgallvlvprnrkllrkliia..llllllfillnlvlgllpraggvsnlAHlgGllaGlllgllllrr 148
                              ++a++v +p +  ++  li++    ++l++++++l  gl +++ gv  ++ lgG+l  +l+ +l+++r
  PHY93_20205|PHY93_20205 139 CVAYAVIFPDRVFSFMMLIPIkaRYFCLILVAISLYQGLSGPM-GVGAWGQLGGILSAYLFMILVSNR 205
                              **********9988777777777999*************9997.****************99998765 PP

>> DUF1751  Eukaryotic integral membrane protein (DUF1751)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.1      0.58   3.4e+03      58      83 ..      18      43 ..      10      54 .. 0.50
   2 !   42.1   2.8   1.7e-14     1e-10       8      97 ..      56     142 ..      49     143 .. 0.92

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 0.58
                  DUF1751 58 tnllvvlltlllylvtkseelll.vpi 83
                               +++  + +l ++++k ++ ++  +i
  PHY93_20205|PHY93_20205 18 LIIIASSCFILEFILSKTST-IYlGNI 43
                             33444444444444444444.332444 PP

  == domain 2  score: 42.1 bits;  conditional E-value: 1.7e-14
                  DUF1751   8 pwtlltasfveqnvwkvlvslltlllggkylErlWgskEllkFilvvnvitnllvvlltlllylvtkseelllvpisGlagilagf 93 
                               ++l+t+ f   ++++v++++l l+l+g+  E +Wg k +l Fil v ++ +ll + + +l++ +t   +    p+ Gl gi++++
  PHY93_20205|PHY93_20205  56 LYSLITYPFLSRSIIEVILNCLMLWLMGSEFEANWGTKRYLNFILSVVIGGGLLYLGVSILFFSTTPIYQ---FPLVGLSGIVSSL 138
                              689***************************************************9999998887776555...89*********** PP

                  DUF1751  94 lval 97 
                              +va+
  PHY93_20205|PHY93_20205 139 CVAY 142
                              **98 PP

>> Spem1  Spermatid maturation protein 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.1   4.2e-05      0.25     201     225 ..     172     196 ..     166     221 .. 0.91

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 4.2e-05
                    Spem1 201 glYqqtglpsnvGlWGrqGgiLasl 225
                               lYq  + p  vG WG+ GgiL+++
  PHY93_20205|PHY93_20205 172 SLYQGLSGPMGVGAWGQLGGILSAY 196
                              69********************998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (243 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       691  (0.0385409); expected 358.6 (0.02)
Passed bias filter:                      341  (0.0190195); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.49
# Mc/sec: 1496.63
//
Query:       PHY93_20210|PHY93_20210  [L=139]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    7.2e-22   77.7   0.0    8.4e-22   77.5   0.0    1.1  1  Glyoxalase_4  Glyoxalase/Bleomycin resistance protein/Dioxyge
    1.7e-08   34.7   0.0    1.9e-08   34.5   0.0    1.1  1  Glyoxalase    Glyoxalase/Bleomycin resistance protein/Dioxyge
    1.2e-07   32.0   0.1    2.6e-07   30.9   0.1    1.6  1  Glyoxalase_3  Glyoxalase-like domain


Domain annotation for each model (and alignments):
>> Glyoxalase_4  Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.5   0.0   1.4e-25   8.4e-22       1     108 [.       9     119 ..       9     120 .. 0.93

  Alignments for each domain:
  == domain 1  score: 77.5 bits;  conditional E-value: 1.4e-25
                              EEEEEE-S-HHHHHHHHHH.TT-EES.S--E.EETTTTEEEEEEEETTEEEEEEEESSTT....-THHHTS-EEEEEEEEES-HHH CS
             Glyoxalase_4   1 dQigivVeDleaavarfsallGvgpw.qryrdepqevdlafallgsgsvqieLieplegp....eflaehgeglhhlaywvddlda 81 
                              d+++i+V +l++a + +++ lG+ ++  r  +e+q+v++afa+  + + ++eLi pl+g+    +f++++geg+hhl++ v d+++
  PHY93_20210|PHY93_20210   9 DHVAIAVSNLDRAQKVYED-LGLSFHgAREVVESQKVTTAFAHIDE-HAHVELICPLNGEgpvqKFIEKNGEGIHHLCFKVPDINK 92 
                              6*****************9.****99566779************88.59*********99889999999***************** PP

                              HHHHHCTTTEEEEEEEE-GGGTT-EEE CS
             Glyoxalase_4  82 avarleeqGfevvqkgvragaagrrfa 108
                              +++++++ G++++ ++++ ga+++ + 
  PHY93_20210|PHY93_20210  93 KCDEMKSLGYKLIYEHPFMGANNCMVN 119
                              *******************99887765 PP

>> Glyoxalase  Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.5   0.0   3.2e-12   1.9e-08       2     104 ..       8     107 ..       7     133 .. 0.76

  Alignments for each domain:
  == domain 1  score: 34.5 bits;  conditional E-value: 3.2e-12
                              EEEEEEEESHHHHHHHHHHHHHTSEEEEEEEEEESTEEEEEEEEETTTSEEEEEEEECCTTSCTHHCCBSCTSEEEEEEEEEHCHH CS
               Glyoxalase   2 idhvallvgdleksldFYtkvLGfklvkktdnteeteglriaffhaggghielvlneapsgaakhvkkieetvhhvafialdvedv 87 
                              +dhva++v++l+++ + Y++ LG+      +   e ++++ af h+++  +  ++ +  + ++++  +ie++++++++++++v d+
  PHY93_20210|PHY93_20210   8 LDHVAIAVSNLDRAQKVYED-LGLSFHGARE-VVESQKVTTAFAHIDEHAHVELICPLNGEGPVQK-FIEKNGEGIHHLCFKVPDI 90 
                              79******************.8888888888.7799*********998766655555555555554.35657************** PP

                              HHHHHHHHHTTGEEEEE CS
               Glyoxalase  88 gkaldrlkeagvkvvae 104
                               k +d++k+ g+k   e
  PHY93_20210|PHY93_20210  91 NKKCDEMKSLGYKLIYE 107
                              ***********997755 PP

>> Glyoxalase_3  Glyoxalase-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.9   0.1   4.4e-11   2.6e-07       1     102 [.       8     109 ..       8     136 .. 0.81

  Alignments for each domain:
  == domain 1  score: 30.9 bits;  conditional E-value: 4.4e-11
             Glyoxalase_3   1 lDHvvlavpdleeaaarfarrlGftvt.pggehpglgtaNalvmfgdg.YlEllav.dpeapaperprlfgldrlakgeglhtlal 83 
                              lDHv +av++l++a + + ++lG++++ ++ + ++     a ++++++  +El+ + + e p     + f  +  ++geg+h+l++
  PHY93_20210|PHY93_20210   8 LDHVAIAVSNLDRAQKVY-EDLGLSFHgAREVVESQKVTTAFAHIDEHaHVELICPlNGEGPV----QKFI-E--KNGEGIHHLCF 85 
                              8************77765.******996566666668888999998888*****962666666....3342.2..469******** PP

             Glyoxalase_3  84 rtddidataarlraaGvd.....e 102
                              +++di++  +++++ G++     +
  PHY93_20210|PHY93_20210  86 KVPDINKKCDEMKSLGYKliyehP 109
                              *************99987655542 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (139 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       339  (0.0189079); expected 358.6 (0.02)
Passed bias filter:                      300  (0.0167327); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.42u 0.24s 00:00:00.65 Elapsed: 00:00:00.41
# Mc/sec: 1025.23
//
Query:       PHY93_20215|PHY93_20215  [L=606]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (606 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       606  (0.0338); expected 358.6 (0.02)
Passed bias filter:                      264  (0.0147247); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.57u 0.21s 00:00:00.77 Elapsed: 00:00:00.39
# Mc/sec: 4690.89
//
Query:       PHY93_20220|PHY93_20220  [L=378]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-33  116.4   0.0    2.6e-33  115.5   0.0    1.5  1  FIST      FIST N domain
    2.2e-27   95.6   0.0    2.2e-26   92.4   0.0    2.1  2  FIST_C    FIST C domain


Domain annotation for each model (and alignments):
>> FIST  FIST N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  115.5   0.0   2.8e-37   2.6e-33       3     172 .]      29     217 ..      27     217 .. 0.90

  Alignments for each domain:
  == domain 1  score: 115.5 bits;  conditional E-value: 2.8e-37
                     FIST   3 vlvfasaeasdleallealrealpgapliGcstageiasegleledgvvalalasa...............da..ageelakal.. 69 
                              vl++a++++ + +a+++++ + +p+ ++iGcstagei + ++ le++++++ l+++               ++   g++la+ l  
  PHY93_20220|PHY93_20220  29 VLILAAPSYFNSPAIINEIISSYPNSHIIGCSTAGEINK-SELLEGSIICTLLQFNktklksislpissseNSfeSGKKLAETLla 113
                              7888887788***************************64.666******9999888999999999998765338899999997777 PP

                     FIST  70 ..pkllllladglssneeellegldealaspdvpivGGlagdgtlafk.tyvlfnggvledgvvvvllsgeslevgtavsqgyrpi 152
                                 k++++l++gl +n++ ll+g+++ l   +++++GGlagdg  +fk t++++n+ v ++ +v++ ++ge++ + +++  g++ +
  PHY93_20220|PHY93_20220 114 ddLKAIFILSEGLIINGSTLLDGVNSILPK-HIVVTGGLAGDG-NNFKqTWTIHNKSVKTNQIVAIGFYGENFNIFHGSYGGWDIF 197
                              77788********************88764.************.78955************************************* PP

                     FIST 153 gkpfvVTkaegnvileLdgk 172
                              g+++ VTk++gn+++e+d++
  PHY93_20220|PHY93_20220 198 GPERLVTKSKGNILYEFDNQ 217
                              ******************85 PP

>> FIST_C  FIST C domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.9   0.0     0.046   4.1e+02     111     128 ..      50      65 ..      39      67 .. 0.76
   2 !   92.4   0.0   2.4e-30   2.2e-26       1     130 []     219     357 ..     219     357 .. 0.92

  Alignments for each domain:
  == domain 1  score: 0.9 bits;  conditional E-value: 0.046
                   FIST_C 111 ealgdgvplaGfftyGEi 128
                              ++  ++ +++G+ t GEi
  PHY93_20220|PHY93_20220  50 SY--PNSHIIGCSTAGEI 65 
                              44..3488*********9 PP

  == domain 2  score: 92.4 bits;  conditional E-value: 2.4e-30
                   FIST_C   1 Alevylellgeedeelaqsal.fplgleel..ggdflvrhllgvdpedgslaladdveeGqrlqlmlrdaealiedlerl.....l 78 
                              Al+ y+ +lg++++el++s l fpl ++++  + + lvr++lg+d++ +sl++a+d++eG   qlm ++ e+li+++ ++     l
  PHY93_20220|PHY93_20220 219 ALQLYKMYLGQKSNELPASGLlFPLQIRKDldDHQPLVRTILGIDEKSQSLIFAGDIPEGYLAQLMSANFERLIDGAGKAssllnL 304
                              89*****************8869*****98**999****************************************99998777777 PP

                   FIST_C  79 eeaakeg.allfsCigRglglgedadeelqavrealgdgvplaGfftyGEigp 130
                              e++++      +sC+gR+l+lge++++el+a+ ++l++++ ++Gf++yGEi p
  PHY93_20220|PHY93_20220 305 ENITAPLyCCAISCVGRRLALGERVEDELEAAFNVLPKHALMTGFYAYGEISP 357
                              777552336789***************************************86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (378 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       366  (0.0204139); expected 358.6 (0.02)
Passed bias filter:                      335  (0.0186848); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.20s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 2841.33
//
Query:       PHY93_20225|PHY93_20225  [L=251]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.9e-08   32.2   0.0    2.7e-07   30.5   0.0    1.9  1  HisKA     His Kinase A (phospho-acceptor) domain
    0.00013   21.9   0.0    0.00026   20.9   0.0    1.6  1  PAS       PAS fold
    0.00014   22.0   0.1    0.00033   20.9   0.1    1.6  1  PAS_9     PAS domain


Domain annotation for each model (and alignments):
>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.5   0.0   4.6e-11   2.7e-07       2      30 ..     212     240 ..     211     250 .. 0.86

  Alignments for each domain:
  == domain 1  score: 30.5 bits;  conditional E-value: 4.6e-11
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHC. CS
                    HisKA   2 lgrflagvaHELrtPLsailgnaeaLkre 30 
                              lg+++a++aHE+++PL++i+  +e+ +r+
  PHY93_20225|PHY93_20225 212 LGEMAANIAHEINNPLTTIKIITELVRRS 240
                              79************************995 PP

>> PAS  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.9   0.0   4.4e-08   0.00026       3     111 ..      73     184 ..      71     186 .. 0.68

  Alignments for each domain:
  == domain 1  score: 20.9 bits;  conditional E-value: 4.4e-08
                              HHHHHHHSSSEEEEEETTSBEEEECHHHHHHHSSTHHHCTTSBGGGGBSTTHHH.....HHHHHHHHHHHHTT-ECCCCEEEEC.. CS
                      PAS   3 lraileslpdpifvvDedgrilyvNaaaeellGlsreevlgkslldliheedda.....elaelleqlleqgeesrageisfkl.. 81 
                               + i++s+ d  ++   dg i++ N +a   +++ +++ +gk++ ++i+ e ++          +  l+ +++ + ++++ fk   
  PHY93_20225|PHY93_20225  73 KQVIFDSALDSLVISKVDGTITEYNITAKNTFHWFQSDSVGKNIKEFISYENREldlteL----F--LAPVMNGKIDQKKIFKAem 152
                              6778888888888888*********************************98665422222....2..2333333333333344455 PP

                              ....TTSSEEEEEEEEEEEEETTEEEEEEEEEEE CS
                      PAS  82 ....rdgrpihlevraspvrdaggeilgflgvlr 111
                                  + ++++++e+  +p+ ++ ++   +l+ +r
  PHY93_20225|PHY93_20225 153 lgkkQTNEKFPIETYYVPINFKRET--VYLWYIR 184
                              5656777777777777777666443..5555555 PP

>> PAS_9  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.9   0.1   5.6e-08   0.00033       2     103 ..      82     187 ..      81     188 .. 0.77

  Alignments for each domain:
  == domain 1  score: 20.9 bits;  conditional E-value: 5.6e-08
                    PAS_9   2 dgilidnpdgrilyaNeaalrllG.yspeevlgksitdlfvtdpeanerlraaleqgrk.......kerevevvlirkngetfwvl 79 
                              d+ +i   dg+i+ +N +a++ +  ++++  +gk+i++++ + ++++ +l +++ +          k +  e+   + ++e+f+++
  PHY93_20225|PHY93_20225  82 DSLVISKVDGTITEYNITAKNTFHwFQSD-SVGKNIKEFI-SYENRELDLTELFLAPVMngkidqkKIFKAEMLGKKQTNEKFPIE 165
                              56788889**************9976655.5*********.44444444444444444445555999******************* PP

                    PAS_9  80 ltaspvkdddgelvgiivilrDit 103
                                 +p+  + +++  +++ +rD+t
  PHY93_20225|PHY93_20225 166 TYYVPINFKRETV--YLWYIRDLT 187
                              ******5444444..56*****99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (251 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       981  (0.0547158); expected 358.6 (0.02)
Passed bias filter:                      455  (0.0253779); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1824.80
//
Query:       PHY93_01115|PHY93_01115  [L=616]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0027   18.0  26.3      0.073   13.5   4.6    6.0  4  Glug      The GLUG motif


Domain annotation for each model (and alignments):
>> Glug  The GLUG motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    3.9   0.2    0.0046        82       3      20 ..     492     511 ..     490     514 .. 0.72
   2 !    3.1   1.6    0.0086   1.5e+02       1      12 [.     528     538 ..     525     556 .. 0.75
   3 !    8.6   0.8   0.00015       2.8       2      27 ..     562     585 ..     561     586 .. 0.85
   4 !   13.5   4.6   4.1e-06     0.073       2      25 ..     592     614 ..     591     614 .. 0.90

  Alignments for each domain:
  == domain 1  score: 3.9 bits;  conditional E-value: 0.0046
                     Glug   3 tavGGLvGgaggg..gsien 20 
                              ++vGG++G++  +  ++i+n
  PHY93_01115|PHY93_01115 492 MNVGGVAGTVVPTttANIKN 511
                              69******875445555555 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.0086
                     Glug   1 gatavGGLvGga 12 
                              g++++GG+vG +
  PHY93_01115|PHY93_01115 528 GGNNAGGIVG-S 538
                              5778888888.3 PP

  == domain 3  score: 8.6 bits;  conditional E-value: 0.00015
                     Glug   2 atavGGLvGgaggggsienctatgtv 27 
                              +++v GLvG+++  g ++ ++++gt+
  PHY93_01115|PHY93_01115 562 SNNVSGLVGINY--GMLTKSSFNGTI 585
                              56666******7..69*********9 PP

  == domain 4  score: 13.5 bits;  conditional E-value: 4.1e-06
                     Glug   2 atavGGLvGgaggggsienctatg 25 
                              +t++GGLvG++ ++g+i+n++++g
  PHY93_01115|PHY93_01115 592 GTSAGGLVGTN-NFGAITNSYSEG 614
                              799********.57*******987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (616 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       391  (0.0218082); expected 358.6 (0.02)
Passed bias filter:                      278  (0.0155056); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.23s 00:00:00.80 Elapsed: 00:00:00.40
# Mc/sec: 4631.36
//
Query:       PHY93_01120|PHY93_01120  [L=214]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.4e-22   80.5   0.1    3.2e-22   79.4   0.1    1.6  1  Nitroreductase  Nitroreductase family
  ------ inclusion threshold ------
      0.023   14.3   0.0      0.036   13.6   0.0    1.3  1  TM1586_NiRdase  Putative TM nitroreductase


Domain annotation for each model (and alignments):
>> Nitroreductase  Nitroreductase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.4   0.1   3.6e-26   3.2e-22       2     170 .]      14     192 ..      13     192 .. 0.85

  Alignments for each domain:
  == domain 1  score: 79.4 bits;  conditional E-value: 3.6e-26
                              HH--B---B-S--.--HHHHHHHHHHHHTS--GGG---EEEEEE.-CCCHHHHHHHHHHHHHHHHTT-SS-GGGGGGHHHHHHHHH CS
           Nitroreductase   2 rkRrSiRkFddep.vpkeelekileaarraPsagnlqpwrfvvvqdkelryklaeaalelllkaeaqaelaqryrkeelklkaqka 86 
                              ++R++++kFd+++ + + + e + +a   +Ps+ +lqpw+f+vvq+ e+++kl+  ++++ ++ + +   +++ +++ ++++   +
  PHY93_01120|PHY93_01120  14 EWRYATKKFDATKkINEKTWECLEQALILSPSSYGLQPWKFIVVQNPEIKEKLKAVSWNQSQVSDCSHHVVFVIKEKMDEEHITHF 99 
                              68***********9999998888777799********************************************9999666666666 PP

                              HHHSSEEEEE..........---TTS---HHHHHHHHHHHHHHHHHHHHHHHHHHHTT-EEEEE-GGGGGHHHHHHHHT-S...SE CS
           Nitroreductase  87 lagapvlivi..........vatldkserkaaerayryalldagaaaqnllLaAtalGlgscpiggfdeaaeevrkllglp.deee 161
                              +++ +++  +              d  +  ++   +++a  +a++a+ n+++aA+ +G+++cp++g+d ++   +++lgl  ++++
  PHY93_01120|PHY93_01120 100 INQTALVRGLdaesmegykkMMIGDLVTGPRSHVITEWATRQAYIALGNFMTAAAVIGVDTCPLEGIDPVK--YDEILGLTgSGWK 183
                              6666666666666666543333334444447888899**********************************..********999** PP

                              EEEEEEEE- CS
           Nitroreductase 162 ivvliavGy 170
                               vv+++ G+
  PHY93_01120|PHY93_01120 184 TVVACPAGH 192
                              ******997 PP

>> TM1586_NiRdase  Putative TM nitroreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0     4e-06     0.036     155     194 ..      27      67 ..      11      80 .. 0.74

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 4e-06
                              GS-HHHHHHHH.HHHTS--GGG----EEE.E-SSEE..... CS
           TM1586_NiRdase 155 elpewfkeile.aarlAPsAlNqqpwrfelkdddeikikas 194
                              +++e+  e le a +l+Ps+   qpw+f ++++ eik k +
  PHY93_01120|PHY93_01120  27 KINEKTWECLEqALILSPSSYGLQPWKFIVVQNPEIKEKLK 67 
                              355666666652668*****************999987553 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (214 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       479  (0.0267165); expected 358.6 (0.02)
Passed bias filter:                      375  (0.0209158); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1620.61
//
Query:       PHY93_01125|PHY93_01125  [L=442]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.2e-78  262.0   0.4    1.1e-77  261.8   0.4    1.0  1  p450      Cytochrome P450


Domain annotation for each model (and alignments):
>> p450  Cytochrome P450
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  261.8   0.4   5.9e-82   1.1e-77       4     459 ..      11     436 ..       7     440 .. 0.89

  Alignments for each domain:
  == domain 1  score: 261.8 bits;  conditional E-value: 5.9e-82
                              ESEHHCCHCHHHHTTTCCHHHHHHHHHHHH-SEEEEEETTEEEEEEESHHHHHHHHCTSTTTTCEESSHHHHHHHHHTTTTSSSTT CS
                     p450   4 ptplplvgnllqlgrkeelhevlrklqkkygpifrlklgskpvvvlsgpeavkevlikkgeefsgrpdeallatsrkpfkgkgvlf 89 
                              + +  + g++l l+  + + +++  + k+yg+++ ++lg+k++ ++++p   k vl ++   ++++p++   +++    +g+gv++
  PHY93_01125|PHY93_01125  11 FFWGLITGHALSLR--KSRLNYMYACLKQYGDFMEMYLGKKRTLLVNDPVGLKYVLFDH---SKNYPKNTPGYQRVAEVLGQGVFT 91 
                              44677899999999..889999***********************************99...5888888888888889******** PP

                              CGHHHHHHHHHHHHHHHTSHSTT.THHHHHHHHHHHHHHHHHCCCCHCSEEETHHHHHHHHHHHHHHHHHSSHHHTTTSSHHHHHH CS
                     p450  90 angekwkklRrfltptltsfgkl.sleelveeeaedlveklrkkagesselditellskaaldvigsilFgarfdlledeklselv 174
                              + ge+wk+ Rr + pt+  + k   + +lv +e+++ + +++ +++  ++++++ + +++al vig+ lF++    le++ +  + 
  PHY93_01125|PHY93_01125  92 DIGEEWKNGRRAIAPTFNPS-KFdHYFSLVSDETKNTILRMKNSRSVDGSINMSSWSTRYALHVIGRSLFNET---LENS-FDIIS 172
                              ******************99.8889***********************************************7...5555.77888 PP

                              HHHHHHHHHHHCHHHHCCCCCHHHTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHCHCHCSCSSCSHHHHHHHHCTTCTCTSSSSH CS
                     p450 175 kaveelssllskssvqllllfpllkylptkllrklkeavkklkdlldklieerretldsakksrrdfldalllakkekkgesklsd 260
                              k+  +l++l++k++  ++ +f+        ll++++   k+l++ ++k+i + + + ++    + ++++all++        +++d
  PHY93_01125|PHY93_01125 173 KKLSHLIDLTEKKM-TYITPFQ--TLSKRALLKDFNLTLKILDEEIEKIIAKEKIKERKP---KENMIHALLESP------LNFTD 246
                              88999988886655.5666666..334788999999999***********9887777777...89*********7......79*** PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHHHHHHHHCCTTTT-HHHHCCT-HHHHHHHHHHHHHSCSSTTEEEEES CS
                     p450 261 eelaatvlellfaGvdTtsstlswaLyeLaknPevqeklreEidevlgdkreptyddlqklpyldavikEtLRlhpvvplllpRev 346
                              + +  +v +++faG++Tt++++ w +y+La++P+ q+k++ E +      +   +ddl++    + ++kE+LR++p++  +  R++
  PHY93_01125|PHY93_01125 247 KKILSQVKTMIFAGHETTANVIIWSFYFLARYPQWQDKIYAEFRDRN--FSISGEDDLKNFLTINLFLKEVLRMRPPAW-SFGRVA 329
                              ******************************************54322..2245689***********************.****** PP

                              SSCEEETTEEE-TT-EEEEEHHHHHT-TTTSSSTTS--GGGGB-TTSCTESSCTT--TTEEGGGS-TTHHHHHHHHHHHHHHHHHH CS
                     p450 347 tkdvvirgylipkGtevivnlyalhrdpevfpnPeeFdpeRFldekgnskrksfaflPFGaGpRnCiGerlArmelklflatlLqn 432
                               ++  i g ++  G+ +++++  +h+ p++++nPe F p+RFl+e       ++ f+PFGaGpR+C GerlA +e+ +fl +++++
  PHY93_01125|PHY93_01125 330 ISEDRIHGEVVHPGDLISISPFLIHHHPDFWENPEAFEPDRFLKEPT-----PYTFIPFGAGPRICMGERLANLEMCMFLLQVIKE 410
                              *********************************************54.....9********************************* PP

                              EEEEESTSTSGGEEESSCSSEEESSSS CS
                     p450 433 Fevelqpetdpppileksglllppkpi 459
                              F+++  + ++++ +++ +  l+p + i
  PHY93_01125|PHY93_01125 411 FKLTN-SSKSINVQMNAQVSLRPDQDI 436
                              ****5.667777777765555555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (442 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       535  (0.0298399); expected 358.6 (0.02)
Passed bias filter:                      340  (0.0189637); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.43
# Mc/sec: 3088.96
//
Query:       PHY93_16880|PHY93_16880  [L=70]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (70 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       328  (0.0182944); expected 358.6 (0.02)
Passed bias filter:                      274  (0.0152825); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.20s 00:00:00.60 Elapsed: 00:00:00.39
# Mc/sec: 541.54
//
Query:       PHY93_01130|PHY93_01130  [L=171]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.6e-05   24.4   0.0     0.0074   16.0   0.0    3.0  3  Hexapep    Bacterial transferase hexapeptide (six repeats)
  ------ inclusion threshold ------
       0.15   11.9   0.0        2.7    7.8   0.0    2.6  3  Hexapep_2  Hexapeptide repeat of succinyl-transferase


Domain annotation for each model (and alignments):
>> Hexapep  Bacterial transferase hexapeptide (six repeats)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    3.2   0.0    0.0088        79       2      17 ..      72      87 ..      71      91 .. 0.81
   2 ?    1.2   0.0     0.037   3.4e+02      22      32 ..      94     104 ..      92     107 .. 0.57
   3 !   16.0   0.0   8.2e-07    0.0074       2      30 ..     125     153 ..     124     156 .. 0.81

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.0088
                             EEEETTEEE-TTEEEE CS
                  Hexapep  2 tvIGsnvlIgpfavig 17
                             ++IG+nv+  p++v+ 
  PHY93_01130|PHY93_01130 72 SQIGKNVFWTPGTVVN 87
                             6899999998888885 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.037
                              E-TTEEEETTE CS
                  Hexapep  22 IGdnvkIgagv 32 
                              +Gd v+ g+++
  PHY93_01130|PHY93_01130  94 VGDFVIFGHNT 104
                              55555555554 PP

  == domain 3  score: 16.0 bits;  conditional E-value: 8.2e-07
                              EEEETTEEE-TTEEEETTEEE-TTEEEET CS
                  Hexapep   2 tvIGsnvlIgpfaviggnVkIGdnvkIga 30 
                              ++IGs ++Ig+f++ g+++kI +++ + a
  PHY93_01130|PHY93_01130 125 IKIGSYSFIGAFTKMGPGTKISSGSQVQA 153
                              68999999999999999999977776665 PP

>> Hexapep_2  Hexapeptide repeat of succinyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.0     0.056   5.1e+02       4       9 ..      74      79 ..      72      91 .. 0.67
   2 ?   -1.7   0.0      0.29   2.6e+03       4      15 ..      94     105 ..      92     107 .. 0.79
   3 ?    7.8   0.0    0.0003       2.7       2      28 ..     125     153 ..     124     153 .. 0.87

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.056
                             E-TT-E CS
                Hexapep_2  4 IGdnCl 9 
                             IG+n++
  PHY93_01130|PHY93_01130 74 IGKNVF 79
                             666665 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 0.29
                              E-TT-EE-TT-E CS
                Hexapep_2   4 IGdnCliGanag 15 
                              +Gd +++G n +
  PHY93_01130|PHY93_01130  94 VGDFVIFGHNTY 105
                              688889999887 PP

  == domain 3  score: 7.8 bits;  conditional E-value: 0.0003
                              EEE-TT-EE-TT-EE..SEEE-TT-EE-T CS
                Hexapep_2   2 viIGdnCliGanagi..GvslGdncvvga 28 
                              ++IG  ++iGa+  +  G+++  ++ v+a
  PHY93_01130|PHY93_01130 125 IKIGSYSFIGAFTKMgpGTKISSGSQVQA 153
                              79***********9977899988888876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (171 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       238  (0.0132746); expected 358.6 (0.02)
Passed bias filter:                      195  (0.0108762); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.41u 0.19s 00:00:00.60 Elapsed: 00:00:00.36
# Mc/sec: 1406.64
//
Query:       PHY93_01135|PHY93_01135  [L=192]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.3e-08   34.7   0.1    2.3e-08   34.7   0.1    2.6  2  CDP-OH_P_transf  CDP-alcohol phosphatidyltransferase
     0.0088   16.4   1.5     0.0088   16.4   1.5    2.3  2  CstA_5TM         5TM C-terminal transporter carbon starvation


Domain annotation for each model (and alignments):
>> CDP-OH_P_transf  CDP-alcohol phosphatidyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.7   0.1   2.5e-12   2.3e-08       2      66 .]      27      93 ..      26      93 .. 0.91
   2 ?   -1.8   4.4      0.61   5.4e+03      13      27 ..     154     169 ..      99     188 .. 0.63

  Alignments for each domain:
  == domain 1  score: 34.7 bits;  conditional E-value: 2.5e-12
                             -HHHHHHHHHHHHHHHHHGGGS-H....HHHHHHHHHHHHHTTHHHHHHHHTT---HHHHHHHHHHH CS
          CDP-OH_P_transf  2 lPnaiTllrlllsvlailllltyyp..lvlailllliasltDalDGklARrlnqvstlGkllDslaD 66
                             +Pn+iT +  llsv+  l ll+++   +++  ++++i + ++a+DG+lA++ n +s +G++l+ + D
  PHY93_01135|PHY93_01135 27 TPNQITASTCLLSVAVGLWLLCSKNemFFILPVFFFIRMALNAIDGMLAKEHNLKSPIGAILNEVTD 93
                             8*************999989888889988888888899999*************999******9988 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 0.61
                              HHHHHHHGGGS-H...... CS
          CDP-OH_P_transf  13 lsvlailllltyyp....l 27 
                              +svlail +  + +    +
  PHY93_01135|PHY93_01135 154 FSVLAIL-I--SCHltsaF 169
                              3333332.2..22222331 PP

>> CstA_5TM  5TM C-terminal transporter carbon starvation CstA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   1.5   9.9e-07    0.0088      66     114 ..      18      67 ..       9      69 .. 0.88
   2 ?    0.5   1.3     0.083   7.5e+02      76      95 ..     171     190 ..     109     192 .] 0.79

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 9.9e-07
                 CstA_5TM  66 intlWplFGaaNQlLAalaLlvvtvwll.ktgrkalvtliPmvfmlvvtl 114
                              ++++W+l  + NQ+ A+ +Ll v+v l+   +++ +++++P++f + + l
  PHY93_01135|PHY93_01135  18 VKSIWKLGITPNQITASTCLLSVAVGLWlLCSKNEMFFILPVFFFIRMAL 67 
                              578****9999*************98887778899999******998876 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.083
                 CstA_5TM  76 aNQlLAalaLlvvtvwllkt 95 
                               N +L  +aLl+v ++l + 
  PHY93_01135|PHY93_01135 171 YNGILTLIALLLVKTILNRA 190
                              57788888888888888764 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (192 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       677  (0.0377601); expected 358.6 (0.02)
Passed bias filter:                      291  (0.0162307); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.41u 0.19s 00:00:00.60 Elapsed: 00:00:00.34
# Mc/sec: 1672.28
//
Query:       PHY93_01140|PHY93_01140  [L=115]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (115 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       490  (0.02733); expected 358.6 (0.02)
Passed bias filter:                      203  (0.0113224); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.21s 00:00:00.60 Elapsed: 00:00:00.37
# Mc/sec: 921.59
//
Query:       PHY93_01145|PHY93_01145  [L=101]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.062   12.6   0.2      0.062   12.6   0.2    1.5  2  CCB1      Cofactor assembly of complex C subunit B


Domain annotation for each model (and alignments):
>> CCB1  Cofactor assembly of complex C subunit B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.2   3.5e-06     0.062      84     119 ..       9      45 ..       3      54 .. 0.81
   2 ?   -2.6   0.6      0.17     3e+03       7      24 ..      80      97 ..      75     101 .] 0.62

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 3.5e-06
                     CCB1  84 LtllaalgllclaLVlsilvpelgnl.flllvllsPl 119
                              L l+ ++gl+c++L+ + +vp+l+++ +  ++ l+Pl
  PHY93_01145|PHY93_01145   9 LFLIQLVGLTCISLISTYTVPDLSEAsWDTVLFLTPL 45 
                              788999****************997514556667776 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 0.17
                     CCB1  7 LlLtlLllvGLfffiras 24
                             ++L +L l G+f  + + 
  PHY93_01145|PHY93_01145 80 MALIILFLFGIFLKLIQT 97
                             456777777777655555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (101 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       847  (0.0472419); expected 358.6 (0.02)
Passed bias filter:                      435  (0.0242624); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.22s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 778.55
//
Query:       PHY93_01150|PHY93_01150  [L=167]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (167 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       624  (0.0348039); expected 358.6 (0.02)
Passed bias filter:                      516  (0.0287802); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.38
# Mc/sec: 1309.73
//
Query:       PHY93_01155|PHY93_01155  [L=118]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    7.8e-05   23.0   7.7     0.0001   22.6   7.7    1.2  1  DMT_YdcZ        Putative inner membrane exporter, YdcZ
  ------ inclusion threshold ------
      0.011   16.0  16.2      0.025   14.8  16.2    1.6  1  EamA            EamA-like transporter family
       0.25   11.2   5.4       0.32   10.8   5.4    1.2  1  FA_desaturase   Fatty acid desaturase
       0.92    9.3   4.2       0.84    9.5   3.1    1.5  1  Phtf-FEM1B_bdg  Male germ-cell putative homeodomain transcrip


Domain annotation for each model (and alignments):
>> DMT_YdcZ  Putative inner membrane exporter, YdcZ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.6   7.7   2.2e-08    0.0001      45     138 ..      21     112 ..       5     113 .. 0.80

  Alignments for each domain:
  == domain 1  score: 22.6 bits;  conditional E-value: 2.2e-08
                 DMT_YdcZ  45 llllllllrks.aalaalksvpwwallGGllGavfvtlnillvpklGaaltvvlvllGq.llaslliDhfGlfgvekrplsltrll 128
                               +++  +++ +  ++ ++   + w++l+Gl+  + v++ +++  ++G  ++vv+   G   + +lli h+    ++k+p++l +++
  PHY93_01155|PHY93_01155  21 GACAQYFFKLGsLKIVEIPIYRNWFFLAGLVSFFWVLVLMTMSFRFGGLMMVVYPAYGTtYIWALLISHY----FDKSPVNLVQVT 102
                              2333333332236788888999********************************999972689******6....9*********** PP

                 DMT_YdcZ 129 GlllllaGvv 138
                              G++++++G+ 
  PHY93_01155|PHY93_01155 103 GVFCIILGIG 112
                              ********96 PP

>> EamA  EamA-like transporter family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8  16.2   5.5e-06     0.025      29     136 ..       5     115 ..       1     116 [. 0.76

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 5.5e-06
                     EamA  29 spltltfvrfl.iagillliiallkegkl...aklslkdwllllllgllgtvlafllffyalkktsas.naslitslePvftlils 109
                              +++t+  + +l +a+i  ++ +++k g+l   + + +++w+  +l gl++++ + +l++++++ ++   ++ ++  ++ +++l++s
  PHY93_01155|PHY93_01155   5 PSQTIPILLILvAAFIGACAQYFFKLGSLkivEIPIYRNWF--FLAGLVSFFWVLVLMTMSFRFGGLMmVVYPAYGTTYIWALLIS 88 
                              44444443333255566666677777776554566666655..588999*****************9934556699********** PP

                     EamA 110 vlllgekltlkqllgivlillGvllil 136
                              +++ + +++l q+ g+++i+lG+ l++
  PHY93_01155|PHY93_01155  89 HYFDKSPVNLVQVTGVFCIILGIGLVS 115
                              ***********************9997 PP

>> FA_desaturase  Fatty acid desaturase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   5.4   7.1e-05      0.32     117     187 ..      26      91 ..       5     110 .. 0.69

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 7.1e-05
            FA_desaturase 117 wlrrlarrrapsksrrrkwrllawlllllawlglwlalllllglalllwlvplllllfllalvlnyveHyg 187
                              +  +l+  +     + r+w +la l+ ++ w++++  +++ +g    l++v++ + ++++ +   +++Hy+
  PHY93_01155|PHY93_01155  26 YFFKLGSLKIVEIPIYRNWFFLAGLVSFF-WVLVLMTMSFRFGG---LMMVVYPAYGTTYIWA-LLISHYF 91 
                              44444444444455556699999999988.88888888888887...8899999999999888.99***99 PP

>> Phtf-FEM1B_bdg  Male germ-cell putative homeodomain transcription factor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   3.1   0.00019      0.84      70     147 ..      28     117 ..      18     117 .. 0.71

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00019
           Phtf-FEM1B_bdg  70 irkailrvlllplyakwwikqtsaaifllllllYllql....iavvlyvlasekek............eeeavslsevlvpillml 139
                               +++ l+++ +p+y +w++    ++ f +l+l+ ++ +    + +v+y  +    +            +++ v+l++v++ ++++l
  PHY93_01155|PHY93_01155  28 FKLGSLKIVEIPIYRNWFFLAGLVSFFWVLVLM-TMSFrfggLMMVVYPAYG---TtyiwallishyfDKSPVNLVQVTGVFCIIL 109
                              5789999***********877666655554444.444311112333333333...2456899999999999999999999999999 PP

           Phtf-FEM1B_bdg 140 llglvhsq 147
                               +glv  q
  PHY93_01155|PHY93_01155 110 GIGLVSLQ 117
                              99999765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (118 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       840  (0.0468515); expected 358.6 (0.02)
Passed bias filter:                      302  (0.0168442); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.36
# Mc/sec: 972.65
//
Query:       PHY93_01160|PHY93_01160  [L=330]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      4e-15   55.7   0.0    5.3e-15   55.3   0.0    1.2  1  Methyltransf_2   O-methyltransferase domain
    3.1e-11   43.3   0.0    8.9e-11   41.8   0.0    1.7  2  Methyltransf_31  Methyltransferase domain
    5.1e-11   43.1   0.0      1e-10   42.2   0.0    1.5  1  Methyltransf_25  Methyltransferase domain
    1.7e-09   38.2   0.0    3.2e-09   37.3   0.0    1.5  1  Methyltransf_11  Methyltransferase domain
    1.7e-07   30.9   0.0    5.9e-07   29.1   0.0    1.8  2  Ubie_methyltran  ubiE/COQ5 methyltransferase family
    2.6e-07   30.6   0.0    3.9e-07   30.0   0.0    1.2  1  Methyltransf_23  Methyltransferase domain
    2.4e-06   28.2   0.0    5.8e-06   27.0   0.0    1.7  1  Methyltransf_12  Methyltransferase domain
    3.6e-06   26.6   0.0    7.9e-06   25.5   0.0    1.6  1  MTS              Methyltransferase small domain
     0.0061   16.3   0.0      0.028   14.2   0.0    1.8  2  Methyltransf_16  Lysine methyltransferase
  ------ inclusion threshold ------
      0.011   15.2   0.0      0.017   14.6   0.0    1.2  1  PrmA             Ribosomal protein L11 methyltransferase (Prm
      0.024   14.6   0.2      0.063   13.3   0.1    1.8  2  Dimerisation2    Dimerisation domain
      0.087   13.5   0.0        2.3    8.9   0.0    2.5  2  Bin3             Bicoid-interacting protein 3 (Bin3)
       0.11   12.0   0.0       0.49    9.9   0.0    1.9  2  CheR             CheR methyltransferase, SAM binding domain


Domain annotation for each model (and alignments):
>> Methyltransf_2  O-methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.3   0.0   3.8e-18   5.3e-15      65     210 .]     163     311 ..     108     311 .. 0.88

  Alignments for each domain:
  == domain 1  score: 55.3 bits;  conditional E-value: 3.8e-18
                              EEEEET-TTSHHHHHHHHH-TT-EEEEEE-HHHHHHHHHHS.-----TTEEEEES-TTTS--..---SEEEEESSGGGS-HHHHHH CS
           Methyltransf_2  65 slvDvGGGtGalakaivsayPtikvivfDlpeVveaAkehl.sageeervefvgGdffkdsl..PeaDaillkrvlhDwsdekcvk 147
                              +++D+G G+G+   +   a P+ ++++ D p V + Ake   + + + rv++++G+f ++    P+ D   l +v h  + e+ ++
  PHY93_01160|PHY93_01160 163 NVLDIGAGSGVWSFNFLYANPKANCTLADWPAVLKVAKETSeKNKIDARVSYIEGNFHHSDFgaPRFDYATLGNVTHIQTPEENKR 248
                              578************************************98677889**********98874449********************* PP

                              HHHHHHHH--TT-EEEEEE----TTS---HHHHHHHHHHHHC.SS-----HHHHHHHHHHCT-E CS
           Methyltransf_2 148 lLkrvkkalpagGkvivveavlgadpsgeletelvdlimlvq.teGkeRteaeyeellseaGfs 210
                              + k++++al +gG++++ +a  +++ +g l+  l+++ + +   +Gk+  ++e e  l+eaGfs
  PHY93_01160|PHY93_01160 249 IFKKIYDALLPGGRLVILDAYGKVE-EGALARSLYQMGLTIRtVQGKVYGPSELEPWLKEAGFS 311
                              ********************98776.5667777777777776589******************6 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.0       1.1   1.5e+03      74      95 ..      12      35 ..       1     111 [. 0.66
   2 !   41.8   0.0   6.5e-14   8.9e-11       4     152 .]     161     309 ..     158     309 .. 0.84

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 1.1
          Methyltransf_31 74 kfDlilsnevl..naladpdkile 95
                              fDl+l+n++   + +    +il+
  PHY93_01160|PHY93_01160 12 YFDLMLANGASslYRIVQEMEILN 35
                             488888884433344444333333 PP

  == domain 2  score: 41.8 bits;  conditional E-value: 6.5e-14
          Methyltransf_31   4 glrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielArenaqklgld.nveFeqgdieeleklledekfDlilsnevl..na 86 
                              +++vlD+G+G+G  +f++   ++pka+ ++ D  + ++++A+e ++k+++d +v+  +g++++ +  +   +fD+ +  +v   ++
  PHY93_01160|PHY93_01160 161 AINVLDIGAGSGVWSFNFL-YANPKANCTLADW-PAVLKVAKETSEKNKIDaRVSYIEGNFHHSD--FGAPRFDYATLGNVThiQT 242
                              689****************.9***********7.899**************************99..9999****99999988777 PP

          Methyltransf_31  87 ladpdkileeiervlkpggilliedprllaelpakveeeskay.........evvegakigt..qkdelyelleeag 152
                                +++ i+++i ++l pgg+l+i d+       +kvee   a+         ++v    +g+  +  el+++l+eag
  PHY93_01160|PHY93_01160 243 PEENKRIFKKIYDALLPGGRLVILDAY------GKVEEGALARslyqmgltiRTV----QGKvyGPSELEPWLKEAG 309
                              788999*********************......6666655554332232333333....566668999999998887 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.2   0.0   7.3e-14     1e-10       1      97 []     164     261 ..     164     261 .. 0.93

  Alignments for each domain:
  == domain 1  score: 42.2 bits;  conditional E-value: 7.3e-14
                              EEEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTT..TEEEEESBCCGBSSSTTTEEEEEEEST.GGGSSHHHHH CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeegl..nvefvqgdaedlpfedgsfDlvvssga.lhhlsdedle 83 
                              vLd+G+G+G ++++++ + +ka+ t  D  ++ l+ a+e  e++++  +v++++g++++ +f + +fD+ ++ g+  h+ ++e+ +
  PHY93_01160|PHY93_01160 164 VLDIGAGSGVWSFNFLYANPKANCTLADW-PAVLKVAKETSEKNKIdaRVSYIEGNFHHSDFGAPRFDYATL-GNvTHIQTPEENK 247
                              9***************99779*******6.899********9999999************************.563777888999* PP

                              HHHHHHHHHEEEEE CS
          Methyltransf_25  84 kalkeiarvLkpgG 97 
                              +++k+i+++L pgG
  PHY93_01160|PHY93_01160 248 RIFKKIYDALLPGG 261
                              *************9 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.3   0.0   2.3e-12   3.2e-09       1      96 []     165     265 ..     165     265 .. 0.94

  Alignments for each domain:
  == domain 1  score: 37.3 bits;  conditional E-value: 2.3e-12
                              EEET-TTSHHHHHHHHTT..SEEEEEES-HHHHHHHHHHCCHHT-..EEEETTEECCCTSS-TT-EEEEEEES-CCC-..CCHHHH CS
          Methyltransf_11   1 LdvGcGtGrlaealakrg..arvvgvDlskemlklakekaseegl..kvefvvadaeklpfednsfDlvvssevlhhv..edpeka 80 
                              Ld+G+G+G  +  +  +   a+++  D ++++lk+ake ++++++  +v+++++++++  f    fD  ++ +v h    e+ +++
  PHY93_01160|PHY93_01160 165 LDIGAGSGVWSFNFLYANpkANCTLAD-WPAVLKVAKETSEKNKIdaRVSYIEGNFHHSDFGAPRFDYATLGNVTHIQtpEENKRI 249
                              8********999999444679999999.9*************999*******************************99999***** PP

                              HHHHHHHEEEEEEEEE CS
          Methyltransf_11  81 lkeiaRvLkpgGllvi 96 
                              +k+i+  L pgG+lvi
  PHY93_01160|PHY93_01160 250 FKKIYDALLPGGRLVI 265
                              **************96 PP

>> Ubie_methyltran  ubiE/COQ5 methyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.1   0.0   4.2e-10   5.9e-07      49     164 ..     162     279 ..     141     308 .. 0.78
   2 ?   -1.0   0.0      0.67   9.2e+02     203     221 ..     300     318 ..     294     322 .. 0.86

  Alignments for each domain:
  == domain 1  score: 29.1 bits;  conditional E-value: 4.2e-10
                              TEEEEES-TT-HHHHHHHHHHHHHHEEEEEES-HHHHHHHHHHHHHHTSS.TEEEEE--TTT-TTS-T-EEEEEEES..-GGG-S- CS
          Ubie_methyltran  49 akvlDvagGtgDlafklsdsvgekgkvvvlDinenmLkvgekklkeegki.nieflqanaeeLpfeddsfDvvtvsf..GlrnvtD 131
                               +vlD+ +G+g ++f+++  ++ k + +++D  + +Lkv+++  +++    ++ ++ +n  + +f    fD+ t++    ++   +
  PHY93_01160|PHY93_01160 162 INVLDIGAGSGVWSFNFLY-ANPKANCTLADW-PAVLKVAKETSEKNKIDaRVSYIEGNFHHSDFGAPRFDYATLGNvtHIQTPEE 245
                              499**************95.789999*****8.568999998876665545************************96224666667 PP

                              HHHHHHHHHHHEEEEEEEEEEEE.----SHHHHH CS
          Ubie_methyltran 132 klkaLkeayrvlkpGGrlvvlef.skvelpllsq 164
                               ++ +k++y  l pGGrlv+l+   kve   l  
  PHY93_01160|PHY93_01160 246 NKRIFKKIYDALLPGGRLVILDAyGKVEEGALAR 279
                              78899****************8525666655544 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.67
                              HHHHHHHHTTEEEEEEEEE CS
          Ubie_methyltran 203 tlkeliedaGfksveyesl 221
                              +l+  +++aGf+s e++sl
  PHY93_01160|PHY93_01160 300 ELEPWLKEAGFSSFEFHSL 318
                              678889*********9997 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.0   0.0   2.8e-10   3.9e-07      24     161 ..     156     311 ..     126     314 .. 0.67

  Alignments for each domain:
  == domain 1  score: 30.0 bits;  conditional E-value: 2.8e-10
          Methyltransf_23  24 g......rvLdiGcGtGillevl.rengf.svtgvDlspeaveiae..............kakkaqkdqfdeqeaaepqgkfdlIv 87 
                              +      +vLdiG+G+G ++  +  +n++ ++t+ D   +   +++               +  +++        ++ + +fd+++
  PHY93_01160|PHY93_01160 156 KikdiaiNVLDIGAGSGVWSFNFlYANPKaNCTLADWPAV--LKVAketseknkidarvsYIEGNFH------HSDFGAPRFDYAT 233
                              1444555**********9988885777767999***9543..3222245544444422222222222......3335777****** PP

          Methyltransf_23  88 lrevlehvpdpp...ellrqiatllkpgGylllseplaslkedrllldw.lylvpag.rhisffsarslkelleeaGle 161
                              l +v+ h++ p+   + +++i++ l pgG+l++++   + +e  l+++  ++  +     ++++  ++l+ +l+eaG++
  PHY93_01160|PHY93_01160 234 LGNVT-HIQTPEenkRIFKKIYDALLPGGRLVILDAYGKVEEGALARSLyQMGLTIRtVQGKVYGPSELEPWLKEAGFS 311
                              ***98.56666645599******************74444433333333244444431455*****************6 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.0   0.0   4.2e-09   5.8e-06       1      99 []     165     263 ..     165     263 .. 0.81

  Alignments for each domain:
  == domain 1  score: 27.0 bits;  conditional E-value: 4.2e-09
          Methyltransf_12   1 LeiGcGtGsllralleklpdieytgvDispsaiedakeklakrennnnnnvelealdlldldgg.ssfDlvvasnvlhhl..kdir 83 
                              L+iG+G+G  ++ +l ++p ++ t  D  p++++ ake   k++ +  ++v + + + + +d g   fD+ ++ nv h    ++ +
  PHY93_01160|PHY93_01160 165 LDIGAGSGVWSFNFLYANPKANCTLADW-PAVLKVAKETSEKNKID--ARVSYIEGNFHHSDFGaPRFDYATLGNVTHIQtpEENK 247
                              8**************************8.66664666665555543..355555555555555558************99999999 PP

          Methyltransf_12  84 evldnirklLkpgGrl 99 
                              +++++i+++L pgGrl
  PHY93_01160|PHY93_01160 248 RIFKKIYDALLPGGRL 263
                              **************97 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.5   0.0   5.7e-09   7.9e-06      31     137 ..     160     265 ..     144     296 .. 0.71

  Alignments for each domain:
  == domain 1  score: 25.5 bits;  conditional E-value: 5.7e-09
                              TCSEEEEET-TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHTTGC..EEEEE-STT.TTSTTS-EEEEEE---STTTCHC CS
                      MTS  31 lsgkvlDlGcGaGvlgaalakespeaevtlvdvdarAlesakenleankle..vevvasdvl.eeveekkfdlivsNPPfhagkat 113
                              ++ +vlD+G+G Gv + +++ ++p+a+ tl d  a  l++ake+ e+nk++  v++++ +   +++   +fd+       h ++  
  PHY93_01160|PHY93_01160 160 IAINVLDIGAGSGVWSFNFLYANPKANCTLADWPA-VLKVAKETSEKNKIDarVSYIEGNFHhSDFGAPRFDYATLGNVTHIQTP- 243
                              6778*********************9999988754.589************6655555554314455566666554443444333. PP

                              HHHHHHHHHHHHHHHEEEEEEEEE CS
                      MTS 114 elavaeeliaeAkeaLkegGeLli 137
                                +  ++++++  +aL +gG+L+i
  PHY93_01160|PHY93_01160 244 --EENKRIFKKIYDALLPGGRLVI 265
                              ..4556666666666666666665 PP

>> Methyltransf_16  Lysine methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0      0.73     1e+03      94     109 ..     122     137 ..     116     150 .. 0.75
   2 !   14.2   0.0     2e-05     0.028      44     101 ..     158     213 ..     139     223 .. 0.82

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.73
          Methyltransf_16  94 nalkskvkvevLdWge 109
                              +  + +v+v+ L+W+ 
  PHY93_01160|PHY93_01160 122 SEKEYQVQVKSLEWMM 137
                              356789********75 PP

  == domain 2  score: 14.2 bits;  conditional E-value: 2e-05
          Methyltransf_16  44 elsklsvlELGsGtGlvGlavaellpeakviltDleellellkknielnknalkskvk 101
                              +   ++vl++G+G+G+    +  + p+a+ +l+D + +l++ k+  e nk  ++ +v+
  PHY93_01160|PHY93_01160 158 KDIAINVLDIGAGSGVWSFNFLYANPKANCTLADWPAVLKVAKETSEKNK--IDARVS 213
                              445689**************99999********************99977..777776 PP

>> PrmA  Ribosomal protein L11 methyltransferase (PrmA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.0   1.2e-05     0.017     163     214 ..     161     213 ..     139     227 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 1.2e-05
                     PrmA 163 e.evlDvGtGSGiLaiaaakLgakkvvavDiDevAvkvakeNaelNkveakle 214
                              + +vlD+G+GSG+ +   +  + k  + +   +  +kvake  e+Nk++a+++
  PHY93_01160|PHY93_01160 161 AiNVLDIGAGSGVWSFNFLYANPKANCTLADWPAVLKVAKETSEKNKIDARVS 213
                              259*************998888777666655566679************9985 PP

>> Dimerisation2  Dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.1   4.6e-05     0.063      21      74 ..      31      79 ..      13      89 .. 0.81
   2 ?   -3.1   0.0       5.9   8.1e+03      40      59 ..     124     143 ..     114     145 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 4.6e-05
            Dimerisation2 21 LgvFdlLkeeeplsaeevaeelgasvkGterLldacvaLgLLerekkeekkalY 74
                             +++ +  k  e+ +ae++a + ++++  t+ Lld +v+LgL e+       + Y
  PHY93_01160|PHY93_01160 31 MEILNSYKLGEKFTAEDLALKHQFKLLPTKVLLDSLVTLGLVEKA--G---ESY 79
                             55666666678999****************************954..2...234 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 5.9
            Dimerisation2  40 eelgasvkGterLldacvaL 59 
                              +e +++vk++e ++  c+ L
  PHY93_01160|PHY93_01160 124 KEYQVQVKSLEWMMTPCAEL 143
                              57788889999999988877 PP

>> Bin3  Bicoid-interacting protein 3 (Bin3)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.0   0.0      0.23   3.2e+02      47      95 ..      77     125 ..      42     134 .. 0.73
   2 ?    8.9   0.0    0.0016       2.3      23      41 ..     247     265 ..     237     315 .. 0.87

  Alignments for each domain:
  == domain 1  score: 2.0 bits;  conditional E-value: 0.23
                     Bin3  47 ksYkkkkklseelkenykelklrpe.dfeevLleevgfesveeleekeee 95 
                              +sY  ++ + + l+ ny++l+ +   +++++L++ + f++++++e++e+e
  PHY93_01160|PHY93_01160  77 ESYTISNVM-NLLTGNYQNLSSEYWaHLPTLLKSGTPFKRMDTVENSEKE 125
                              666554444.678899999998876477888888999******9987764 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 0.0016
                     Bin3  23 krlfkkiyellkpgGvlil 41 
                              kr+fkkiy++l pgG+l++
  PHY93_01160|PHY93_01160 247 KRIFKKIYDALLPGGRLVI 265
                              79**************986 PP

>> CheR  CheR methyltransferase, SAM binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.0      0.99   1.4e+03      12      43 ..     140     172 ..     135     180 .. 0.69
   2 ?    9.9   0.0   0.00035      0.49     112     173 ..     204     265 ..     195     273 .. 0.92

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.99
                              HHHHHHCCH.HHHHHHHTS.SSEEEEEES-TTT CS
                     CheR  12 feelekevlepllakakne.krvriwsagcssG 43 
                               +el  e++++l  ++k +   ++++ +g++sG
  PHY93_01160|PHY93_01160 140 CAELTVEIISKLHPEKKIKdIAINVLDIGAGSG 172
                              5667777775555444444456999****9999 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 0.00035
                              E-HHHHTTEEEEE--TTT-SGGG--EEEEEE-SSGGGC-CHHHHHHHHHHHCCEEEEEEEEE CS
                     CheR 112 vkkeikelvkFeklnllekksvlgklDvifcrnvliYfdeetqekvlerfaeklkpgglLll 173
                               k++i  +v + + n  +++    ++D  ++ nv    ++e+ +++ ++++++l pgg+L++
  PHY93_01160|PHY93_01160 204 EKNKIDARVSYIEGNFHHSDFGAPRFDYATLGNVTHIQTPEENKRIFKKIYDALLPGGRLVI 265
                              57899999**********999999************************************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (330 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       647  (0.0360868); expected 358.6 (0.02)
Passed bias filter:                      604  (0.0336884); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.56u 0.21s 00:00:00.77 Elapsed: 00:00:00.38
# Mc/sec: 2625.33
//
Query:       PHY93_01165|PHY93_01165  [L=581]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   3.1e-101  338.6   0.0   4.3e-101  338.1   0.0    1.2  1  Methyltransf_20  Putative methyltransferase
    3.2e-57  193.6   0.0    4.5e-57  193.1   0.0    1.2  1  Hydrolase_4      Serine aminopeptidase, S33
    1.2e-10   41.4   0.0    1.9e-10   40.7   0.0    1.3  1  Methyltransf_31  Methyltransferase domain
    6.4e-09   35.8   0.2    5.7e-06   26.2   0.0    2.3  2  Abhydrolase_1    alpha/beta hydrolase fold
    1.6e-06   28.8   0.0    3.6e-06   27.6   0.0    1.7  1  Methyltransf_25  Methyltransferase domain
    0.00046   20.9   0.0     0.0007   20.3   0.0    1.4  1  Abhydrolase_6    Alpha/beta hydrolase family
     0.0007   19.5   0.0     0.0011   18.8   0.0    1.2  1  Methyltransf_23  Methyltransferase domain
  ------ inclusion threshold ------
       0.04   13.9   0.0      0.077   13.0   0.0    1.4  1  Methyltransf_32  Methyltransferase domain
      0.054   12.8   0.0      0.093   12.0   0.0    1.3  1  Ubie_methyltran  ubiE/COQ5 methyltransferase family
      0.096   13.4   0.0       0.21   12.3   0.0    1.6  1  Methyltransf_12  Methyltransferase domain
        0.1   12.4   0.0       0.26   11.1   0.0    1.6  1  Ser_hydrolase    Serine hydrolase
       0.11   12.0   0.0       0.21   11.1   0.0    1.4  1  Methyltransf_4   Putative methyltransferase
       0.17   12.5   0.0       0.37   11.5   0.0    1.6  1  Methyltransf_11  Methyltransferase domain


Domain annotation for each model (and alignments):
>> Methyltransf_20  Putative methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  338.1   0.0  3.1e-104  4.3e-101       1     308 [.     276     580 ..     276     581 .] 0.98

  Alignments for each domain:
  == domain 1  score: 338.1 bits;  conditional E-value: 3.1e-104
          Methyltransf_20   1 vrefilrefaekseradlldadragasadeaerlaaplkalslkklywaatraslklggllseGiklGletGfdsGstldyvyrnk 86 
                              +++fi++ fa++   +d++ ad+ g++++e++ ++++ ++  ++k+++a++  s+k+ g+lseGi++G++ GfdsG +ld+vy+nk
  PHY93_01165|PHY93_01165 276 IHRFIDKCFAAEAMSVDMVRADHEGYTFNEYKSIQSGDVS-FVNKINYAIQVLSMKTLGKLSEGIRIGYKHGFDSGISLDHVYKNK 360
                              689********************************99865.8899***************************************** PP

          Methyltransf_20  87 arglgplGrlidrqyldaiGWrGirqrkvhleellekaverlkaegrpvrildiaaGhGryvldalekaeervesillrdyselnv 172
                              arg  ++G++id  y++a+GW+Gir r+vh++e l+  ++ l +eg+pvri+di +G Gry+l++ +k e+    +llrdys+ n+
  PHY93_01165|PHY93_01165 361 ARGDLIIGQIIDFFYINAVGWKGIRARRVHMRESLNYCIDSLIKEGKPVRIMDIGSGPGRYLLETAKKYEKSDVLVLLRDYSDSNI 446
                              ************************************************************************************** PP

          Methyltransf_20 173 eqGraliaekglediarfekgdafdeeslaalePrptlaivsGlyelfpdndlvkrslaGlaeavepgglliytgqpWhPqlelia 258
                              ++ r+++++ g  +   f  +dafd+++ +  e +p++ ivsGl+elfp n++v +++ G +++++p ++++ytgqpWhPqle+ia
  PHY93_01165|PHY93_01165 447 NEAREIAKQIGCTNA-DFLVADAFDPKTYTDQEFKPNILIVSGLFELFPSNETVLKAVLGATSILDPESYIVYTGQPWHPQLEMIA 531
                              ************996.********************************************************************** PP

          Methyltransf_20 259 raltshregeaWvmrrrsqaemdelveaaGfrkleqridefGiftvslar 308
                              ++l + reg  Wvmrrr+q e+d+l ++ G +kl+++id++Giftv+ a+
  PHY93_01165|PHY93_01165 532 HTLPN-REGVNWVMRRRTQLEIDQLFAKHGANKLDMKIDQWGIFTVATAK 580
                              ****9.****************************************9986 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  193.1   0.0   3.3e-60   4.5e-57       4     239 .]      34     268 ..      31     268 .. 0.94

  Alignments for each domain:
  == domain 1  score: 193.1 bits;  conditional E-value: 3.3e-60
              Hydrolase_4   4 kavvvlvHGlaehsgryaelaeaLaaqGfavyalDhrGhGrsegkrghvpsfddyvdDlaafvekvkeehpel..plfllGhSmGG 87 
                              k++++++H+ +ehsgr  +l++   + +f  +++D rGhG+s g rg+ psf+++v+Dl++fv+ + +eh+ +  ++f+++ S+G+
  PHY93_01165|PHY93_01165  34 KKALIVIHRGHEHSGRLIDLINGVEEPEFWAFGYDSRGHGESTGPRGYAPSFSHIVKDLDTFVSFISKEHQIKieNIFIIANSVGA 119
                              78999******************************************************************9999*********** PP

              Hydrolase_4  88 liallyllrypdkvaglilsaPalkikaklk.appllklllkllgkllpklqvsnnlkadslsrdpevvaayeadplvhgkitvrl 172
                              +++ +++++y++k++g+ l+aPa++ik +++ a   +++l  + ++++ +    + +k+++l++d  ++++y++d+l++ +i v++
  PHY93_01165|PHY93_01165 120 VVTSTWVHDYAPKIRGMALAAPAFEIKLYVPgALLGCRILDAVKNPAYIS----SYVKSKFLTHDIVEQKKYDDDKLITPQIAVNI 201
                              ***************************99766666666555555555555....55599*************************** PP

              Hydrolase_4 173 llelldamkrleeraakitlPllllhGeaDkvvdpeasrelyerlgskdktlklypglyHellnEpd 239
                              l++l+d+ +r++++a +i++P +++++++D+vv++ ++++++++l+sk k++ + +g+yH +l E+d
  PHY93_01165|PHY93_01165 202 LVGLHDTSERVVNDAGAIHTPAIVFSAGSDWVVSNTPQKKFFNSLSSKMKEYIVLDGFYHGVLYEKD 268
                              *****************************************************************97 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.7   0.0   1.4e-13   1.9e-10       3     110 ..     407     519 ..     405     560 .. 0.82

  Alignments for each domain:
  == domain 1  score: 40.7 bits;  conditional E-value: 1.4e-13
          Methyltransf_31   3 kglrvlDlGCGtGeltfelaeelgpkae..vvGiDiseeaielArenaqklgldnveFeqgdiee.leklledekf..Dlilsnev 83 
                              k +r++D+G+G G++++e a + ++k++  v + D+s   i+ Are+a++ g +n+ F ++d+++ +   ++d+ f  ++++  ++
  PHY93_01165|PHY93_01165 407 KPVRIMDIGSGPGRYLLETA-KKYEKSDvlVLLRDYSDSNINEAREIAKQIGCTNADFLVADAFDpKT--YTDQEFkpNILIVSGL 489
                              6789****************.5566666659999*******************************555..9998884467888899 PP

          Methyltransf_31  84 lnaladpdkile...eiervlkpggillie 110
                              + ++++++ +l+   ++++ l p+++++ +
  PHY93_01165|PHY93_01165 490 FELFPSNETVLKavlGATSILDPESYIVYT 519
                              9*********99888889999999998854 PP

>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.2   0.0   4.1e-09   5.7e-06       3     106 ..      37     141 ..      35     153 .. 0.84
   2 !    7.7   0.0    0.0018       2.5     212     257 .]     218     268 ..     159     268 .. 0.75

  Alignments for each domain:
  == domain 1  score: 26.2 bits;  conditional E-value: 4.1e-09
                              EEEE-STTTCGGGGTTGHHHHHHHHTTSEEEEEEETTSTTSSSTTTGB.CHHSHHHHHHHHH....HH..HHHCTTSSEEEEEETH CS
            Abhydrolase_1   3 lvilhGlpgssdvwaerglapaLakdgfdvillDlrGvgySspapacinddygtasvaddld....ri..ldalgddkltlvGhSm 82 
                              l+++h + + s+  +   l+++ ++ +f  +++D+rG+g+S+ +    +   ++ ++ +dld    +i    + +++++ +++ S 
  PHY93_01165|PHY93_01165  37 LIVIHRGHEHSGRLID--LINGVEEPEFWAFGYDSRGHGESTGPRGYAP---SFSHIVKDLDtfvsFIskEHQIKIENIFIIANSV 117
                              5556656666666677..99999999999****************9765...6666888888755566*9999************* PP

                              HHHHHHHHHHHHGGGEEEEEEESE CS
            Abhydrolase_1  83 GGmialayaaeyperVkalvllga 106
                              G  + +++  +y  ++++++l ++
  PHY93_01165|PHY93_01165 118 GAVVTSTWVHDYAPKIRGMALAAP 141
                              *********************998 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.0018
                              S...EEEEEEETTCSSSCH.HHHHHHHHCHTS.EEEEEEETCSSSHHHHSH CS
            Abhydrolase_1 212 a...ptlvisgtsDplvpp.kaledlaqllpk.krlvvisdagHlaflegp 257
                              a   p++v+s+ sD++v++  ++ ++++l +k k+++v+++ +H +++e++
  PHY93_01165|PHY93_01165 218 AihtPAIVFSAGSDWVVSNtPQKKFFNSLSSKmKEYIVLDGFYHGVLYEKD 268
                              2444***************888888888866689**********9999875 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.6   0.0   2.6e-09   3.6e-06       1      81 [.     411     497 ..     411     513 .. 0.76

  Alignments for each domain:
  == domain 1  score: 27.6 bits;  conditional E-value: 2.6e-09
                              EEEET-TTSHHHHHHHCTS.T.SSEEEEEESSHHHHHHHHHHHHHTTT.TEEEEESBCCGBS.SSTTTEE..EEEEESTGGGSSHH CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrl.g.kakvtgvDiseemleaareraeeegl.nvefvqgdaedlp.fedgsfD..lvvssgalhhlsde 80 
                              ++d+G G+Gr++l+ ak++ + +  v+  D+s++ +++are a++ g+ n++f+++da d + + d++f   + ++sg +++++ +
  PHY93_01165|PHY93_01165 411 IMDIGSGPGRYLLETAKKYeKsDVLVLLRDYSDSNINEAREIAKQIGCtNADFLVADAFDPKtYTDQEFKpnILIVSGLFELFPSN 496
                              89*****************6347888889***************9999**********8855356666652244444568887644 PP

                              H CS
          Methyltransf_25  81 d 81 
                              +
  PHY93_01165|PHY93_01165 497 E 497
                              3 PP

>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.3   0.0   5.1e-07    0.0007      30      98 ..      63     147 ..      40     298 .. 0.75

  Alignments for each domain:
  == domain 1  score: 20.3 bits;  conditional E-value: 5.1e-07
                              EE..E--TTSTS-GGCS--HHH.....CHHH...HHHHCCTT...TTSEEEEEETCHHHHHHHHHHCC....EEEEES-......- CS
            Abhydrolase_6  30 la..pDlpGhGrsdpppldled.....ladl...aalldelaa.gggpvvlvGHSlGGalalaaapla..lvvgvlldppp....t 98 
                              +a  +D +GhG  ++ p ++++     + dl   + ++ ++ +    +++++++S G+++ + +++     ++g +l++p     +
  PHY93_01165|PHY93_01165  63 WAfgYDSRGHG-ESTGPRGYAPsfshiVKDLdtfVSFISKEHQiKIENIFIIANSVGAVVTSTWVHDYapKIRGMALAAPAfeikL 147
                              55559******.7888888866655565555222555555554999999**************66666688888555553333332 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.0   7.9e-07    0.0011      20     131 ..     405     531 ..     384     565 .. 0.70

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 7.9e-07
          Methyltransf_23  20 lraggrvLdiGcGtG.illevlrengf...svtgvDlspeaveiae.........kakkaqkdqfdeqeaaepqgkfdlIvlrevl 92 
                              + ++ r++diG G G +lle ++++ +    v + D s+ ++++a+         +a++ + d fd    ++++ k+++ + + ++
  PHY93_01165|PHY93_01165 405 EGKPVRIMDIGSGPGrYLLETAKKYEKsdvLVLLRDYSDSNINEAReiakqigctNADFLVADAFDPKTYTDQEFKPNILIVSGLF 490
                              445569*********6677777666555435669*********************99999999999999999999*********** PP

          Methyltransf_23  93 ehvpd...ppellrqiatllkpgGylllseplaslk.edrlll 131
                              e +p+   + +++  + ++l p+ y++ + +  +++ +++++ 
  PHY93_01165|PHY93_01165 491 ELFPSnetVLKAVLGATSILDPESYIVYTGQ--PWHpQLEMIA 531
                              ****734455666667779999999987765..3332444433 PP

>> Methyltransf_32  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   5.6e-05     0.077      13      81 ..     395     460 ..     388     491 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 5.6e-05
          Methyltransf_32  13 vakllkelakesgaltvvDvGaGkg.YLsfvlalkekeyklkvvgidakeelvekaekraeklgkkfnkr 81 
                              ++  +++l ke ++++++D+G+G g YL  + +   ++  + v+  d +++++++a+++a+++g    ++
  PHY93_01165|PHY93_01165 395 LNYCIDSLIKEGKPVRIMDIGSGPGrYLLETAKK-YEKSDVLVLLRDYSDSNINEAREIAKQIG--C-TN 460
                              444555566669************9888887777.33468999999*****************9..3.33 PP

>> Ubie_methyltran  ubiE/COQ5 methyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   6.7e-05     0.093      44     111 ..     404     472 ..     390     508 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 6.7e-05
                              -S--TTEEEEES-TT-HHHHHHHHHHHHHH.EEEEEES-HHHHHHHHHHHHHHTSSTEEEEE--TTT-T CS
          Ubie_methyltran  44 avkrgakvlDvagGtgDlafklsdsvgekg.kvvvlDinenmLkvgekklkeegkinieflqanaeeLp 111
                               + ++ +++D+ +G g + ++ +++ +++   v + D++++ ++++++ +k+ g +n +fl+a+a + +
  PHY93_01165|PHY93_01165 404 KEGKPVRIMDIGSGPGRYLLETAKKYEKSDvLVLLRDYSDSNINEAREIAKQIGCTNADFLVADAFDPK 472
                              4556779*****************999987355667***************************997643 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   0.00015      0.21       1      59 [.     412     472 ..     412     513 .. 0.73

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00015
          Methyltransf_12   1 LeiGcGtGsllrallekl..pdieytgvDispsaiedakeklakrennnnnnvelealdll 59 
                              ++iG+G G++l + ++k   +d+ ++  D+s s i+ a+e  ++++  n++++  +a d  
  PHY93_01165|PHY93_01165 412 MDIGSGPGRYLLETAKKYekSDVLVLLRDYSDSNINEAREIAKQIGCTNADFLVADAFDPK 472
                              69****************7777777799*******88888888888766666666655543 PP

>> Ser_hydrolase  Serine hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   0.00019      0.26      39      90 ..      92     142 ..      87     156 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00019
                              HHHHHHHHHHHHHC-STTEEEEEETCHHHHHHHHHHHTTSSSEEEEEEET-- CS
            Ser_hydrolase  39 ledWvaaleaaveaaeekvvlvAHSlgclavlhaaelqlakkvagalLVapa 90 
                              l++ v+ ++++ +   e++ ++A S+g++++  ++    a k++g+ L apa
  PHY93_01165|PHY93_01165  92 LDTFVSFISKEHQIKIENIFIIANSVGAVVTSTWV-HDYAPKIRGMALAAPA 142
                              678888899999999999*****************.999************8 PP

>> Methyltransf_4  Putative methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   0.00015      0.21       4      62 ..     410     470 ..     407     494 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00015
                              EEEEET-TTSHHHHHHHHHSTTSEEEEE..ES-HHHHHHHHHHHHHCTTSSEEEEES-CCC CS
           Methyltransf_4   4 vvleiGcGkGeflvalAkknPdknflGi..EirvkvvakvlkkiealelkNlrilrgdalk 62 
                               +++iG+G G+ l++ Akk  + ++l +  + + + ++++ + +++ +++N   l  da++
  PHY93_01165|PHY93_01165 410 RIMDIGSGPGRYLLETAKKYEKSDVLVLlrDYSDSNINEAREIAKQIGCTNADFLVADAFD 470
                              579***************976655555433899999******99*99********999954 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00027      0.37       2      62 ..     413     479 ..     412     517 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00027
                              EET-TTSHHHHHHHHTT....SEEEEEES-HHHHHHHHHHCCHHT-.EEEETTEECCCT.SS-TT-E CS
          Methyltransf_11   2 dvGcGtGrlaealakrg....arvvgvDlskemlklakekaseegl.kvefvvadaekl.pfednsf 62 
                              d+G+G Gr++ + ak++      v+  D+s+  ++ a+e a++ g  + +f+vada +   + d+ f
  PHY93_01165|PHY93_01165 413 DIGSGPGRYLLETAKKYeksdVLVLLRDYSDSNINEAREIAKQIGCtNADFLVADAFDPkTYTDQEF 479
                              9*************8888877778888**********999999888999*******99646888877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (581 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       438  (0.0244297); expected 358.6 (0.02)
Passed bias filter:                      385  (0.0214736); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.58u 0.22s 00:00:00.80 Elapsed: 00:00:00.38
# Mc/sec: 4588.15
//
Query:       PHY93_01170|PHY93_01170  [L=312]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.1e-59  200.9  15.8    3.1e-59  200.9  15.8    1.4  2  CTP_transf_1  Cytidylyltransferase family
    0.00086   19.3   1.7    0.00086   19.3   1.7    2.7  3  CarS-like     CDP-archaeol synthase
  ------ inclusion threshold ------
      0.076   12.4   2.0       0.25   10.7   2.0    1.8  1  DUF92         Integral membrane protein DUF92


Domain annotation for each model (and alignments):
>> CTP_transf_1  Cytidylyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.1      0.76   4.6e+03       5      20 ..      16      30 ..       8      36 .. 0.46
   2 !  200.9  15.8   5.2e-63   3.1e-59       1     264 [.      45     309 ..      45     311 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 0.76
                             HHHHHHHHHHHHTTTS CS
             CTP_transf_1  5 italvlilivliilll 20
                             it++ l ++++++l++
  PHY93_01170|PHY93_01170 16 ITTFSL-IFFFTLLFY 30
                             233322.233333333 PP

  == domain 2  score: 200.9 bits;  conditional E-value: 5.2e-63
                              HHHHHHHHHHHHHHHHTTTSH.HHHHHHHHHHHHHHHHHHHHTT--SHHHHHHHHH...HHHHHHHHHHTTTSSSHHHHHHHHHHH CS
             CTP_transf_1   1 kqRvitalvlilivliilllgglvflllvavvvilalkElirlvrlkkrekrllllllslvlllllllflylesliallklvlllv 86 
                              kqRv +++++++ivli++ + + ++  ++a+++i+ ++El++  + + + +++ l+   +++++ + +++++  l+ ++ +++ + 
  PHY93_01170|PHY93_01170  45 KQRVNSWWIIFIIVLIMIGIKREILFCMMAIISIISFRELTSKLNFNTSHRKTQLI---AYIAIPIQYYFAYSKLFIAFLTFIPVG 127
                              79******************************************999999999999...666666666666666666666666666 PP

                              HHHHHHH---...........HHHHHHHHHHHHHHHHHTHHHH.TTHHHHHHHHH.HHHHHHHHHHHHHHHHHHHHHHHCH---B- CS
             CTP_transf_1  87 lvllllvlkvl........kskskklervilallallyvvlllqslllienikeg.lllvllllalvvaaDigaYffGklfGktkl 163
                              +++ll ++ +l        k+ s+ +++++l+++ l++++++  sl  ie ++eg + ++++l+++++++D+ +++ GklfGk+k+
  PHY93_01170|PHY93_01170 128 MLILLPFRSILedlseesiKTFSQLHWALMLTVFSLSHIAYIA-SLPNIEFQREGaAGMIFFLIVITQLNDVSQFVSGKLFGKRKI 212
                              6666666666699999988999999******************.666666666661567888889999****************** PP

                              S-TTS---BHHHHHHHHHHHHHHHHHHHHHHHCTS---TTSHHHHHHHHHHHHHHHHHHHHHHHHHHT-SSS-S-SSSSS-HHHHH CS
             CTP_transf_1 164 lpkiSPkKTveGfigGlvaavvvglllalvlskalalsllhllllslllslvavfGDLveSglKRafgiKDsGkliPGhGGilDRl 249
                               p iSP+KT+ G+igG++++v++g+l+  +l+     ++ +++l+s+l++++++fGDL  S++KR+++iKD+G+liPGhGGilDR+
  PHY93_01170|PHY93_01170 213 SPLISPNKTWAGLIGGVLGSVMFGYLFKGLLPL----TTPQTILISMLIAIAGFFGDLNISAIKRDLKIKDMGDLIPGHGGILDRM 294
                              *******************************96....799********************************************** PP

                              HHHHHHHHHHHHHHH CS
             CTP_transf_1 250 Dsllfaapvvyllle 264
                              Dsl+f+  v+++l  
  PHY93_01170|PHY93_01170 295 DSLIFSNLVFFYLTY 309
                              ******999987754 PP

>> CarS-like  CDP-archaeol synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.4      0.58   3.5e+03     128     142 ..      55      69 ..      47      95 .. 0.49
   2 ?   -0.3   0.1      0.16   9.3e+02      58      93 ..     125     161 ..     108     173 .. 0.69
   3 !   19.3   1.7   1.4e-07   0.00086      43     137 ..     215     306 ..     185     311 .. 0.79

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 0.58
                CarS-like 128 fvlgalllaypvkll 142
                              f+++ ++++    +l
  PHY93_01170|PHY93_01170  55 FIIVLIMIGIKREIL 69 
                              333333333222221 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.16
                CarS-like  58 lvGvlvgl.iqglleklsilaldssgsvlefvilall 93 
                               vG+l+ l  + +le+ls  +++++ ++   ++l+++
  PHY93_01170|PHY93_01170 125 PVGMLILLpFRSILEDLSEESIKTFSQLHWALMLTVF 161
                              4555554326778888888888888877777666654 PP

  == domain 3  score: 19.3 bits;  conditional E-value: 1.4e-07
                CarS-like  43 liGdGvtyrGtvaGvlvGvlvgliqglleklsilaldssgsvlefvilalllafGallGdavGsfikrrlki.erGkpal....il 123
                              li   +t+ G+++Gvl+ v+ g +   l           ++  +++++++l+a+  ++Gd+  s ikr lki + G  ++    il
  PHY93_01170|PHY93_01170 215 LISPNKTWAGLIGGVLGSVMFGYLFKGL---------LPLTTPQTILISMLIAIAGFFGDLNISAIKRDLKIkDMGDLIPghggIL 291
                              788899**************99886655.........2556677888999*********************945677655555588 PP

                CarS-like 124 dqldfv.lgalllay 137
                              d++d + ++ l++ y
  PHY93_01170|PHY93_01170 292 DRMDSLiFSNLVFFY 306
                              888754145666655 PP

>> DUF92  Integral membrane protein DUF92
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   2.0   4.2e-05      0.25     145     185 ..     221     266 ..     216     271 .. 0.87

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 4.2e-05
                    DUF92 145 sllGllasllGalliallavlllllel.....lillltlaGllGsl 185
                              +++Gl+ ++lG+++ + l+  ll+l++     + +l+++aG++G l
  PHY93_01170|PHY93_01170 221 TWAGLIGGVLGSVMFGYLFKGLLPLTTpqtilISMLIAIAGFFGDL 266
                              899*************998888888888988777789999***987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (312 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       962  (0.0536561); expected 358.6 (0.02)
Passed bias filter:                      355  (0.0198003); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 2334.78
//
Query:       PHY93_01175|PHY93_01175  [L=41]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (41 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       385  (0.0214736); expected 358.6 (0.02)
Passed bias filter:                      244  (0.0136092); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.33u 0.23s 00:00:00.56 Elapsed: 00:00:00.37
# Mc/sec: 329.12
//
Query:       PHY93_16885|PHY93_16885  [L=211]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.71   10.0   8.5        3.2    7.9   8.4    2.0  1  DUF3671   Protein of unknown function


Domain annotation for each model (and alignments):
>> DUF3671  Protein of unknown function
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9   8.4   0.00018       3.2      46     111 ..      32     100 ..      19     145 .. 0.86

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.00018
                  DUF3671  46 lllilpvllpliglivpilfeaksk....kslkkkelevlatsieklytiffiilvviillvliYiliKv 111
                              l lil++l++++g+ ++++f  k+k     s+  ++   ++ +  ++  +f + lv i  ++ +Y+l+Kv
  PHY93_16885|PHY93_16885  32 LTLILFSLYFILGVALILFFFFKKKkqwtPSVLLQD-FPFNGKAAITLGLFAYSLVHILAFLEVYLLTKV 100
                              789**********99999888888867873333333.356778899999999999999999999999997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (211 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       880  (0.0490825); expected 358.6 (0.02)
Passed bias filter:                      366  (0.0204139); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1587.57
//
Query:       PHY93_01180|PHY93_01180  [L=359]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.2e-26   92.4   1.0    3.6e-26   92.2   1.0    1.0  1  DUF3419   Protein of unknown function (DUF3419)


Domain annotation for each model (and alignments):
>> DUF3419  Protein of unknown function (DUF3419)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   92.2   1.0     2e-30   3.6e-26       3     340 ..       3     326 ..       1     358 [. 0.82

  Alignments for each domain:
  == domain 1  score: 92.2 bits;  conditional E-value: 2e-30
                  DUF3419   3 eeqFkdeliYaftWEDprvdeeaLklepddrvlaItSaGdNaLsYllaspkrihaVDlNpaqnaLleLKlaairalsyedfwklfG 88 
                              +++F ++l+Y++ +ED+ v+ e+ +  +  +++++ ++G +aL ++  +++ +   Dl++ q++L  L+ a +++ls++df+ + G
  PHY93_01180|PHY93_01180   3 QKYF-TGLNYTLGNEDTSVEIELVSKFKPKSIFSVCGSGGRALPLC-GEAQDLSLSDLSKEQIHLAMLREATYKQLSHQDFLCFWG 86 
                              4667.78******************9999***************99.889999****************************99999 PP

                  DUF3419  89 egkhenfeellekk...lsphLsseafqyWekraekvFss.kgkglyetGgsgrairlarllfrllglrkdvkklleaktleeqre 170
                                  ++++    +k   l+ +L se + y+++    +F++ + ++l + G+++r ++++  + r+l l +d++++l+ ++l+ q++
  PHY93_01180|PHY93_01180  87 YFPYSDNNFCDARKnifLKLELASEVRFYFQN----IFDEiQYSSLLYLGKWERTFQVLAKINRAL-LGHDFDRILRFDDLNAQKK 167
                              98765444333333335899999998888864....466666679***************999877.668**************** PP

                  DUF3419 171 iwekkirplllsklvsklvlsneafllkalGvpknqlellekesgesvaeyvvdtldpvaeksllsedNyFyllaltgky.tkecl 255
                              ++++++    ++++++ ++l  +++l +al     ++e     s+es  +y ++ +d+++++  ++ + +F++l++ gk  + + +
  PHY93_01180|PHY93_01180 168 YYQNEFP---HKRWMAVIFLLGNKALFNALLYKGDFIEKN---SSESHFDYYYNAFDRLFTHDIAQ-KSFFLHLCFYGKInSLAGV 246
                              ****887...677777777778899999999988888854...4579*************987777.*************88899* PP

                  DUF3419 256 PeyLkeeafeklkkrakraldelrlhtdeleevlarlkkksltravllDhmDWledeeleeeiqelnralkpggrvllRsaaeep 340
                              P   + e ++++++++++     ++ ++ l  +l++  k s+++++l+D  ++++ +  e+ +q+++  l+pg+ ++ R   ++ 
  PHY93_01180|PHY93_01180 247 PVEASLETHQRISSSKTK----THYLNEDLITHLKSGVK-SYDFLSLSDVPSYFRGDLEENFMQNIRPGLNPGAIIVNRYYLRKA 326
                              ***************988....89999999999*98777.**************44555567899*********99776554333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (359 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       414  (0.0230911); expected 358.6 (0.02)
Passed bias filter:                      296  (0.0165096); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.20s 00:00:00.67 Elapsed: 00:00:00.37
# Mc/sec: 2881.79
//
Query:       PHY93_01185|PHY93_01185  [L=679]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    0.00078   19.5   0.1     0.0039   17.3   0.1    2.1  2  Shikimate_DH     Shikimate / quinate 5-dehydrogenase
     0.0035   17.8   0.0     0.0076   16.7   0.0    1.6  1  Semialdhyde_dh   Semialdehyde dehydrogenase, NAD binding doma
  ------ inclusion threshold ------
      0.012   14.7   0.0      0.021   14.0   0.0    1.3  1  Polysacc_synt_2  Polysaccharide biosynthesis protein


Domain annotation for each model (and alignments):
>> Shikimate_DH  Shikimate / quinate 5-dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0      0.56   3.3e+03     103     122 ..     220     240 ..     202     244 .. 0.66
   2 !   17.3   0.1   6.4e-07    0.0039       8     120 ..     463     571 ..     458     583 .. 0.76

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.56
                              S....EEEEE--SS-SB-TTGG CS
             Shikimate_DH 103 k..kplllvDiavPRdvepeva 122
                              +   + l++Di  P  +e++++
  PHY93_01185|PHY93_01185 220 HlkGKSLIIDIVTP-QLEQKLR 240
                              44256699999999.6776665 PP

  == domain 2  score: 17.3 bits;  conditional E-value: 6.4e-07
                              S..TT-EEEEES-.SHHHHHHHHHHHCCT-CEEEEEESSHHHHHHHHHHH..T.ET-EEEEGCGHHHHHHT-SEEEE-SSSSS-SB CS
             Shikimate_DH   8 eslkekkvlliGa.GemaelvakhLlakgvkkvvvaNRtlerakelaeel..kgeeiealkleelkellaeadvvisataseepil 90 
                              ++l + kv+++Ga G ++   ak L+ + v+ ++va R ++   el ee+   + e++++  ++ +++  e+d++i+ t+ +   +
  PHY93_01185|PHY93_01185 463 NNLFKGKVMVVGAtGSIGAVSAKILSFSWVDIIIVAPRAYK-LIELKEEIlkINPEAKVQISTDADSHSFECDLIITTTSGQGKTV 547
                              4677889*****889***********999999999999875.5677777732233467777899****************997655 PP

                              -HHHHHCCHHH.S..EEEEE--SS-SB-TT CS
             Shikimate_DH  91 ekeeveealkkrkkplllvDiavPRdvepe 120
                                  +++++       ++ D++ P d++++
  PHY93_01185|PHY93_01185 548 LD--IMKVK----PGCVICDVSRPFDISEK 571
                              43..23332....23699999999999865 PP

>> Semialdhyde_dh  Semialdehyde dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.0   1.3e-06    0.0076       1     104 [.     469     570 ..     469     603 .. 0.76

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 1.3e-06
                              EEEEETTTSHHHHHHHHHHHCTSSEEEEEEEESTTTTTSBHHHHSGGGTTTECEBEEE.GGGGGCTT-SEEEE-SCHHHHHHHHHH CS
           Semialdhyde_dh   1 kvaivGatGyvGqellrlLeehpevelvvllsssrsaGkklaeavkaleegkdlkved.vdeeelkevdivflalpagvskelapk 85 
                              kv +vGatG +G++ +++L+   +v+++ ++ ++  +  +l+e   +++ ++++++++ +d+ +  e+d++++ ++++    l   
  PHY93_01185|PHY93_01185 469 KVMVVGATGSIGAVSAKILSF-SWVDIIIVAPRAY-KLIELKEEILKINPEAKVQISTdADSHS-FECDLIITTTSGQGKTVLDIM 551
                              799****************86.7899999888888.4444444444455555555555345455.5******99987766666656 PP

                              HHHTTSEEEESSSTTTTST CS
           Semialdhyde_dh  86 laeagvkviDlssdfRlkd 104
                               ++ g+++ D s  f +++
  PHY93_01185|PHY93_01185 552 KVKPGCVICDVSRPFDISE 570
                              699********99887766 PP

>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   3.5e-06     0.021       1      54 [.     470     522 ..     470     530 .. 0.88

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 3.5e-06
                              EEEETTTSHHHHHHHHHHHHHB-SEEEEEES-HHHHHHHHHH......-TTEEE CS
          Polysacc_synt_2   1 vlvtGagGsiGselvrqilkkkpkkiillerdElklyeiekeleeelkkkklkv 54 
                              v+v Ga+GsiG  +  +il+++   ii++    +kl e+++e+ +   + k+++
  PHY93_01185|PHY93_01185 470 VMVVGATGSIGA-VSAKILSFSWVDIIIVAPRAYKLIELKEEILKINPEAKVQI 522
                              8**********6.7899*************************877777766654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (679 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       639  (0.0356406); expected 358.6 (0.02)
Passed bias filter:                      549  (0.0306208); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.64u 0.24s 00:00:00.88 Elapsed: 00:00:00.39
# Mc/sec: 5192.63
//
Query:       PHY93_01190|PHY93_01190  [L=332]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.5e-37  127.6   0.0    7.1e-35  120.4   0.0    2.1  1  NAD_binding_4    Male sterility protein
    1.9e-17   63.6   0.0    2.4e-17   63.2   0.0    1.1  1  Epimerase        NAD dependent epimerase/dehydratase family
      1e-16   60.8   0.1    1.8e-16   60.0   0.0    1.4  2  3Beta_HSD        3-beta hydroxysteroid dehydrogenase/isomeras
    4.2e-10   39.5   0.0    5.6e-10   39.1   0.0    1.1  1  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
    3.4e-09   36.2   0.0    9.5e-09   34.8   0.0    1.6  2  RmlD_sub_bind    RmlD substrate binding domain
    6.7e-09   35.3   0.0    9.4e-09   34.8   0.0    1.1  1  Polysacc_synt_2  Polysaccharide biosynthesis protein
    3.3e-08   33.6   0.0    4.4e-08   33.2   0.0    1.1  1  NAD_binding_10   NAD(P)H-binding
    0.00058   20.1   0.0    0.00091   19.5   0.0    1.3  1  Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding doma
     0.0011   18.5   0.0     0.0015   18.1   0.0    1.3  1  NmrA             NmrA-like family
     0.0051   17.2   0.0     0.0088   16.5   0.0    1.4  1  Semialdhyde_dh   Semialdehyde dehydrogenase, NAD binding doma
     0.0052   16.7   0.1      0.013   15.4   0.1    1.7  1  KR               KR domain
  ------ inclusion threshold ------
       0.09   12.8   0.1       0.27   11.2   0.0    1.7  2  Pallilysin       Pallilysin beta barrel domain


Domain annotation for each model (and alignments):
>> NAD_binding_4  Male sterility protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  120.4   0.0   4.7e-38   7.1e-35       1     256 [.       5     229 ..       5     230 .. 0.85

  Alignments for each domain:
  == domain 1  score: 120.4 bits;  conditional E-value: 4.7e-38
                              EE-TTSHHHHHHHHHHHHHS-.TEEEEEE-SSSHHHHHHHHHHHT-SS-HHHHHHHHHTTTEEEEE--TTSGGGG--HHHHHHHHH CS
            NAD_binding_4   1 lTGaTGFLGkvLlekLLrttpevkiyllvRaksgesaeeRleeelekkelfsallkelaerikvveGDlseprlGLseedlqelae 86 
                              +TGaTGFLG++L+++L ++ +   iy+l R++s     + l          +      + +++ v+GD+++ ++  +++ +++l +
  PHY93_01190|PHY93_01190   5 ITGATGFLGQYLVRELSSKFE--SIYILSRNSSF----QGL---------SD------LANVQLVKGDITQLEIIEDQKMRDQLLA 69 
                              8****************9999..8******9955....333.........22......247999*********999999999**** PP

                              H--EEEE--SS-S.STTSSEEHHHHHHHHHHHHHHHTSSS--.-EEEEEEGGGTTS-TTT--SSS-H......HHH--EEEETTTC CS
            NAD_binding_4  87 evdviihsaAtvnfdepykellrvNveGtrevlelakklkklkvllhvSTayvngeregeveekvyeegekeekldederaklkgl 172
                              e+d ++h aA +++++  ++++  Nv Gt++ + + kk+kklk++ ++ST +v ++++  +             l+ed +   k +
  PHY93_01190|PHY93_01190  70 ECDFVLHAAALYDLKACHSDCYLQNVVGTQNTIHFVKKMKKLKAFYYISTIAVGDDQSF-F-------------LEEDHLPLRKHF 141
                              **************************************************666666663.3.............789999****** PP

                              CCHHHHHHHHHHHHHHHHHHHH---EEEEEE-EEE--SSST---TTSHHHHHHHHHHHH.-EE....E..S-SB---TT--EEEHH CS
            NAD_binding_4 173 pntYeqsKalaEklvrearrrsglpvvivRpsiitgesktGwingsdlgirgllgliak.gvl....p..eilgdkeavldlvpvD 251
                               + Y+ +K+laE +vre +  s   v i+Rp+ii+g+s tG ++++d g++ ++ +++k  +l    p   +  +++ ++ l+pvD
  PHY93_01190|PHY93_01190 142 DDFYSETKYLAEIMVRELH--SMGAVRIIRPGIIIGDSLTGKMDKTD-GPYYFIHAMEKySTLlksiPfiPLSFNPRTKIPLIPVD 224
                              *******************..567799********************.6666666666413331111211234567777******* PP

                              HHHHH CS
            NAD_binding_4 252 yvana 256
                              ++a+ 
  PHY93_01190|PHY93_01190 225 HCARY 229
                              ***86 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.2   0.0   1.6e-20   2.4e-17       1     174 [.       3     175 ..       3     198 .. 0.82

  Alignments for each domain:
  == domain 1  score: 63.2 bits;  conditional E-value: 1.6e-20
                              EEEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHCEEEE--TT-HH......HHHHHHHHHT-SEEEE--S---HHHH CS
                Epimerase   1 ilVtGatGfiGsalvkallekgyevigldrlssasntarledlelveldltdrs......alerlfkeeqpdavihlAavggvaas 80 
                              il+tGatGf+G++lv++l +k   +  l+r+ss +  + l++++lv++d+t+ +        ++l++  ++d v+h+Aa  + +a 
  PHY93_01190|PHY93_01190   3 ILITGATGFLGQYLVRELSSKFESIYILSRNSSFQGLSDLANVQLVKGDITQLEiiedqkMRDQLLA--ECDFVLHAAALYDLKAC 86 
                              8******************************999999999999999999987775444424445555..8*********9999998 PP

                              HHSHHHHHHHHTHHHHHHHHHHHHH.TCTEEEEEEEGGGGTSCSSSSBSTCSTTS--..--SSHHHHHHHHHHHHHHHHHHHHT-E CS
                Epimerase  81 sedpadfieknlqgtlnlleaarka.gvkrllflsSsevYGkdaeqpkeettltgpl..kpnspYaaaKlageklveayaaqygln 163
                              ++d   ++ +n++gt+n ++ ++k  ++k ++++s+    G+d++   ee+    pl  +    Y+ +K+++e +v++++  +   
  PHY93_01190|PHY93_01190  87 HSD---CYLQNVVGTQNTIHFVKKMkKLKAFYYIST-IAVGDDQSFFLEEDH--LPLrkHFDDFYSETKYLAEIMVRELHSMGA-- 164
                              877...8889*************9977889999999.667888885445555..3776688999***************99885.. PP

                              EEEEEESEEES CS
                Epimerase 164 aiilrlfnlyG 174
                              + i+r+  ++G
  PHY93_01190|PHY93_01190 165 VRIIRPGIIIG 175
                              55556555555 PP

>> 3Beta_HSD  3-beta hydroxysteroid dehydrogenase/isomerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.0   0.0   1.2e-19   1.8e-16       1     159 [.       4     158 ..       4     176 .. 0.88
   2 ?   -3.6   0.0       2.8   4.2e+03     247     271 ..     248     270 ..     244     271 .. 0.82

  Alignments for each domain:
  == domain 1  score: 60.0 bits;  conditional E-value: 1.2e-19
                3Beta_HSD   1 vvtGgaGFlGralvkeLvrleelkevrvlDlrespelleelskvnvkk..viegDvtdkdkle.ealegvdvvihlaslvdvagkl 83 
                              ++tG++GFlG++lv+eL +    + + +l  + s + l++l +v+  k  + +  + + +k++ + l + d v+h a+l d++   
  PHY93_01190|PHY93_01190   4 LITGATGFLGQYLVRELSSKF--ESIYILSRNSSFQGLSDLANVQLVKgdITQLEIIEDQKMRdQLLAECDFVLHAAALYDLKA-C 86 
                              69**************98765..599999999999999******999888999999999999625789**************98.7 PP

                3Beta_HSD  84 tedeimkvnvkGTrnvleacvka.gvrvlvYtSsaevvgpnslgeeilngdEeleyeslhqdaypesKalaEklvlk 159
                              ++d ++  nv GT+n +   +k+  ++++ Y S++  vg+    + +   +++l++ + + d y+e+K laE +v +
  PHY93_01190|PHY93_01190  87 HSD-CYLQNVVGTQNTIHFVKKMkKLKAFYYISTIA-VGD---DQSFFLEEDHLPLRKHFDDFYSETKYLAEIMVRE 158
                              777.999***********998862689999999985.677...678887999*********************9965 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 2.8
                3Beta_HSD 247 fisddsPvesyddfnltllkelgle 271
                               +s++ P+   ++f+  l k++g++
  PHY93_01190|PHY93_01190 248 LVSNEIPTV--KEFLIDLNKAFGVK 270
                              478999998..99999999999986 PP

>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.1   0.0   3.8e-13   5.6e-10       1     169 [.       4     161 ..       4     171 .. 0.75

  Alignments for each domain:
  == domain 1  score: 39.1 bits;  conditional E-value: 3.8e-13
                              EEETTTSHHHHHHHHHHHHCT-CCEEEEEEESS-TTHHHHHCTTT...TTGCCEEEEE--TT......-HHHHHHHHHHHT-SEEE CS
            GDP_Man_Dehyd   1 LiTGiaGfiGsylaelLlekgyevhgivrrsssfntgriehlakdpkeeleenlklhkgDlt......Dssslerllaevqpdevy 80 
                              LiTG +Gf G+yl++ L +k   ++++ r+ss   ++ ++++            +l+kgD+t      D++  ++llae+  d v+
  PHY93_01190|PHY93_01190   4 LITGATGFLGQYLVRELSSKFESIYILSRNSSFQGLSDLANV------------QLVKGDITqleiieDQKMRDQLLAEC--DFVL 75 
                              9*******************7777766665555444444444............34444443111111666667888887..99** PP

                              E--S---HHHHTTSHHHHHHHHTHHHHHHHHHHHHCT..TTSEEEEEEEGGGG-S-SSSSB-TTS.--..---SHHHHHHHHHHHH CS
            GDP_Man_Dehyd  81 nLAAqshVdvsfekPeytaevnvlGtlrLLeairalglekkvrfyqaStsEvYGkvqevpqtEtt.pf..yPrsPYaaaKlyadwi 163
                              + AA    +   ++    +  nv+Gt++ +  +++++  k + fy +St  v G+ q+   +E++ p+  +    Y+ +K  a+ +
  PHY93_01190|PHY93_01190  76 HAAALYDLKACHSD---CYLQNVVGTQNTIHFVKKMK--KLKAFYYISTIAV-GDDQSFFLEEDHlPLrkHFDDFYSETKYLAEIM 155
                              ******99998776...666789***********985..5679*******99.9999999888753551155789*********** PP

                              HHHHHH CS
            GDP_Man_Dehyd 164 vvnyre 169
                              v++ + 
  PHY93_01190|PHY93_01190 156 VRELHS 161
                              *99876 PP

>> RmlD_sub_bind  RmlD substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.8   0.0   6.3e-12   9.5e-09       1     151 [.       1     173 [.       1     183 [. 0.85
   2 ?   -1.6   0.0      0.74   1.1e+03     188     223 ..     225     259 ..     221     279 .. 0.73

  Alignments for each domain:
  == domain 1  score: 34.8 bits;  conditional E-value: 6.3e-12
                              EEEEEESTTSHHHHHHHHHCTTTSEEEEEE-TT....................T--TTSHHHHHHHHHHH--SEEEE------HHH CS
            RmlD_sub_bind   1 mkilvtGanGqlGseLakqlaeeglevlaltre....................eldltdaeavaellkeakpdvvvnaAAytavDk 66 
                              mkil+tGa+G lG+ L+++l+++  +++ l+r+                    +l++ + +++++ l + ++d+v +aAA  +  +
  PHY93_01190|PHY93_01190   1 MKILITGATGFLGQYLVRELSSKFESIYILSRNssfqglsdlanvqlvkgditQLEIIEDQKMRDQLLA-ECDFVLHAAALYDLKA 85 
                              89********************9999999999999*************777777777777777766666.89************** PP

                              HHHSHHHHHHHHTHHHHHHHHHHHHCT-EEEEEEEGGGS-S-TTS-B-TTS--....--SSHHHHHHHHHHHHHHH..H-SSEEEE CS
            RmlD_sub_bind  67 aEseeeaayavnaeavealAeaaaavgalLihvStDyVFdGekkrpYeeddet....sPlnvYGrtKlaGEqavla..agkkaliv 146
                              + s+  +++ v  + + +  +  ++ +a + ++St  V  G+ ++ + e+d+     +   +Y +tK++ E +v++  ++  + i+
  PHY93_01190|PHY93_01190  86 CHSDCYLQNVVGTQNTIHFVKKMKKLKA-FYYISTIAV--GDDQSFFLEEDHLplrkHFDDFYSETKYLAEIMVRElhSMGAVRII 168
                              ************************9998.57****999..6666888888864111144579*************96666677888 PP

                              EE-SE CS
            RmlD_sub_bind 147 Rtswv 151
                              R + +
  PHY93_01190|PHY93_01190 169 RPGII 173
                              86655 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 0.74
                              HHHHHHHHHHHHCHH.GGG-EEEE---BS-EEHHHH CS
            RmlD_sub_bind 188 dlAevllqllekaaeekelagvyHlanegetswlef 223
                                A+++  l+++ +  +   ++yHl++++  +  ef
  PHY93_01190|PHY93_01190 225 HCARYISLLISRDTG-APELKTYHLVSNEIPTVKEF 259
                              556666666666664.555899***99988777666 PP

>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.8   0.0   6.3e-12   9.4e-09       1     128 [.       3     119 ..       3     123 .. 0.78

  Alignments for each domain:
  == domain 1  score: 34.8 bits;  conditional E-value: 6.3e-12
                              EEEETTTSHHHHHHHHHHHHHB-SEEEEEES-HHHHHHHHHH......-TTEEEE....E--TT-HHHHHHHTT..T-SEEEE--- CS
          Polysacc_synt_2   1 vlvtGagGsiGselvrqilkkkpkkiillerdElklyeiekeleeelkkkklkveivpvigdvrdkerlekaleelkvdvvfhaAA 86 
                              +l+tGa+G +G+ lvr++ ++k ++i++l+r+   +   +  + + +k  ++     + +  ++d++  +++l   ++d+v+haAA
  PHY93_01190|PHY93_01190   3 ILITGATGFLGQYLVREL-SSKFESIYILSRNSSFQGLSDLANVQLVKG-DI-----TQLEIIEDQKMRDQLLA--ECDFVLHAAA 79 
                              89**************96.568999*****9876665544444334444.33.....34566777777777777..9********* PP

                              ---HHHHHHSHHHHHHHHHHHHHHHHHHHHHT.T-SEEEEEEE CS
          Polysacc_synt_2  87 lKhVPlveenpleaiktNvlgtenvieaaiea.gvkkvvliSt 128
                              l  + ++ +   ++  +Nv+gt+n+i+  +++ + k++ +iSt
  PHY93_01190|PHY93_01190  80 LYDLKACHS---DCYLQNVVGTQNTIHFVKKMkKLKAFYYIST 119
                              ***999875...68899**********9887526899999998 PP

>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.2   0.0     3e-11   4.4e-08       1     153 [.       7     181 ..       7     192 .. 0.69

  Alignments for each domain:
  == domain 1  score: 33.2 bits;  conditional E-value: 3e-11
                              TTTSHHHHHHHHHHHHC-T-EEEEEETTHHHCHHHHCTTTCEEEE--TT-......CCHHHHHHTT-SEEEES-......--TCC. CS
           NAD_binding_10   1 GAtGkvGrllvkellargghevtalvRnpeklaeleaeeglevvegdvtd......vedlaealkgadaVvsal......ggggk. 73 
                              GAtG  G++lv+el ++  +e   +  + ++++ l++ +++++v+gd+t+      ++   + l+ +d V+ a+      +     
  PHY93_01190|PHY93_01190   7 GATGFLGQYLVRELSSK--FESIYILSRNSSFQGLSDLANVQLVKGDITQleiiedQKMRDQLLAECDFVLHAAalydlkA---Ch 87 
                              9*************998..6766666666777779999**********97222211333446779*****99995555542...03 PP

                              ......HHHH..HHHHHHHHHH.CT--EEEEEEETTTTSGCGCHHHH...HHHHCCHHHH.HHHHHHHHHHHH..SSSEEEEEEE- CS
           NAD_binding_10  74 ......deeg..aknivdaake.agvkRfvlvsaigvgdevpgefge...wnkellkayl.aakraaeellra..sgldwTivrpg 144
                                    +  +  ++n++  +k+ ++ k f ++s+i vgd++   ++e     ++ + + + + k+ ae ++r+  s     i+rpg
  PHY93_01190|PHY93_01190  88 sdcylqN--VvgTQNTIHFVKKmKKLKAFYYISTIAVGDDQSFFLEEdhlPLRKHFDDFYsETKYLAEIMVRElhSMGAVRIIRPG 171
                              3355332..2677777776666456999**********975544443111234566666635577788889988888889999999 PP

                              CEE-ST.--S CS
           NAD_binding_10 145 gLtdep.ttk 153
                               +  +  t+k
  PHY93_01190|PHY93_01190 172 IIIGDSlTGK 181
                              9877764555 PP

>> Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.5   0.0   6.1e-07   0.00091       1      80 [.       3      81 ..       3     108 .. 0.86

  Alignments for each domain:
  == domain 1  score: 19.5 bits;  conditional E-value: 6.1e-07
                             EEEE--.SHHHHHHHHHHHCTCCT-GEEEEEESSHHHHHHHHCHH..TTTCEEEEE--TTTHHHHHHHHHTTSSEEEE-SSGG CS
          Sacchrp_dh_NADP  1 vliiGa.GsvGqavaellarhfdvdaeitvadrskeklealaaka..lgvrfeaialdaenyeavLaallkegdlvvnlsppi 80
                             +li Ga G+ Gq ++++l+ +f+    i + +r+ +  + l + a  + v+ ++++l + +++++ ++ll+e d+v++++  +
  PHY93_01190|PHY93_01190  3 ILITGAtGFLGQYLVRELSSKFES---IYILSRNSSF-QGLSDLAnvQLVKGDITQLEIIEDQKMRDQLLAECDFVLHAAALY 81
                             7999*****************986...*******998.444333355888999999999999999*************98655 PP

>> NmrA  NmrA-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.0     1e-06    0.0015       1      69 [.       3      75 ..       3     142 .. 0.85

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 1e-06
                             EEESSTTSHHHHHHHHHHHHHT-EEEEEES-S-SHHHHHHHHSTTEEEES-TT......-HHHHHHHHTT-SEEE CS
                     NmrA  1 IlviGaTGrqGksvvrallkaghkvralvRdtkselakslkeaGvelvkgdld......dkeslvealkgvdvvf 69
                             Il++GaTG +G+++vr l ++  ++ +l R+++ + +  l++  v+lvkgd+       d+++ +++l + d v 
  PHY93_01190|PHY93_01190  3 ILITGATGFLGQYLVRELSSKFESIYILSRNSSFQGLSDLAN--VQLVKGDITqleiieDQKMRDQLLAECDFVL 75
                             89********************************99999987..99*****995555555555556666666665 PP

>> Semialdhyde_dh  Semialdehyde dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   5.9e-06    0.0088       1      74 [.       2      78 ..       2     101 .. 0.75

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 5.9e-06
                             EEEEETTTSHHHHHHHHHHHCTSSEEEEEEEESTTTTTSBHHHHSG.........GGTTTECEBEEEGGGGGCTT-SEEEE-S CS
           Semialdhyde_dh  1 kvaivGatGyvGqellrlLeehpevelvvllsssrsaGkklaeavk.........aleegkdlkvedvdeeelkevdivflal 74
                             k+ i GatG  Gq l+r L++  ++e +++ls+++   + l+++++         +le ++d k++d   + l+e+d+v+ a+
  PHY93_01190|PHY93_01190  2 KILITGATGFLGQYLVRELSS--KFESIYILSRNS-SFQGLSDLANvqlvkgditQLEIIEDQKMRD---QLLAECDFVLHAA 78
                             67899**************99..568888888877.5555555555556656544455555555555...778******9997 PP

>> KR  KR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.1   8.9e-06     0.013       4      93 ..       4      82 ..       2     123 .. 0.68

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 8.9e-06
                             EEETTTSHHHHHHHHHHHHHHS-EEEEE-SS..--HHHHHHHHHHHHTT-EEEE----TT-HHHHHHHHHHHHHHS.S---EEEE--- CS
                       KR  4 litGGlGgLGlelarwlaekgarhlvllsRsaaadedskaliaelealgaevevvaaDvsdkdavealleeikaee.ppikGvihaAg 90
                             litG++G LG+ l+r l +k  +++ +lsR+        + ++ l++  a+v++v+ D+++ + +e    +++++  ++   v+haA 
  PHY93_01190|PHY93_01190  4 LITGATGFLGQYLVRELSSKF-ESIYILSRN--------SSFQGLSD-LANVQLVKGDITQLEIIEDQ--KMRDQLlAECDFVLHAAA 79
                             9****************9885.78*******........34556655.57899999999988766542..222222255677777776 PP

                             --- CS
                       KR 91 vlr 93
                             + +
  PHY93_01190|PHY93_01190 80 LYD 82
                             665 PP

>> Pallilysin  Pallilysin beta barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   0.00018      0.27      58     105 ..      17      64 ..      13      72 .. 0.89
   2 ?   -2.4   0.0         3   4.5e+03       3      20 ..     313     330 ..     311     331 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00018
               Pallilysin  58 wensslrrnGiylstknksitnlkrrldielesldeirvkvidDvrlk 105
                              +++ s++ + iy+ ++n+s + l+   +++l++ d  ++++i+D +++
  PHY93_01190|PHY93_01190  17 VRELSSKFESIYILSRNSSFQGLSDLANVQLVKGDITQLEIIEDQKMR 64 
                              5566777889**********************************9885 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 3
               Pallilysin   3 elaklqdGtvesfakfln 20 
                              el ++q+ t ++f++ l 
  PHY93_01190|PHY93_01190 313 ELPEIQESTYSTFKSILF 330
                              78899999*999999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (332 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       534  (0.0297841); expected 358.6 (0.02)
Passed bias filter:                      448  (0.0249875); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.35
# Mc/sec: 2807.72
//
Query:       PHY93_01195|PHY93_01195  [L=316]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.1e-17   63.8   0.1    3.5e-17   62.2   0.1    1.8  2  DAGK_cat     Diacylglycerol kinase catalytic domain
    4.8e-05   22.7   0.0    7.7e-05   22.0   0.0    1.3  1  NAD_kinase   ATP-NAD kinase
  ------ inclusion threshold ------
      0.014   15.7   0.0       0.04   14.3   0.0    1.8  1  DAGK_acc     Diacylglycerol kinase accessory domain
      0.026   13.9   0.3      0.037   13.3   0.3    1.3  1  PFK          Phosphofructokinase
       0.26   11.4   0.9       0.46   10.6   0.1    1.8  2  Lambda_CIII  Lambda Phage CIII


Domain annotation for each model (and alignments):
>> DAGK_cat  Diacylglycerol kinase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.2   0.1   9.8e-21   3.5e-17      21     125 ..      18     121 ..       6     122 .. 0.85
   2 ?   -2.4   0.0      0.92   3.3e+03      63      80 ..     131     147 ..     127     151 .. 0.76

  Alignments for each domain:
  == domain 1  score: 62.2 bits;  conditional E-value: 9.8e-21
                              HCHHHHHHCTCEEEEEE--STTHHHHHHHHHHHC...C-SEEEEEESHHHHHHHHHHHCTHHCTTSEEEEEE-SS--HHHHHCT-- CS
                 DAGK_cat  21 kvrelleeagvelelieteepgdakelakeakee...gvdlivvaGGDGtvsevlnglleelatkpplgiiPlGtgNdlaralgig 103
                                + ++++a ++ ++ + + p+d +el ++++ +   +vd+i+ +GGDGtv+ +++ l++   t++ l ++P+Gt+Nd+ar lg +
  PHY93_01195|PHY93_01195  18 DWQGQINNALFRSNIEY-QTPKDLDELYEKLELDvvnNVDAILSVGGDGTVNTIIQRLAG---TEIGLLVVPGGTANDFARVLGSS 99 
                              45566666666555544.559999***999999766578*********************...*********************** PP

                              SSHHHHHHCHHCTBEEEEEEEE CS
                 DAGK_cat 104 kdieealesiikgetrkvdvgk 125
                               +i+  +++i+++ ++k+d+++
  PHY93_01195|PHY93_01195 100 SNIKRITQTIRQNVKKKIDLIS 121
                              *******************987 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 0.92
                              ESHHHHHHHHHHHCTHHC CS
                 DAGK_cat  63 GGDGtvsevlnglleela 80 
                              GG G +sev+n + e l+
  PHY93_01195|PHY93_01195 131 GGIGFASEVANEINE-LR 147
                              788999999999887.44 PP

>> NAD_kinase  ATP-NAD kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.0   0.0   2.1e-08   7.7e-05      59     128 ..      35     109 ..      12     128 .. 0.77

  Alignments for each domain:
  == domain 1  score: 22.0 bits;  conditional E-value: 2.1e-08
                              .......EEECCC-TTTTTSSSEEEEEE-HHHHHHHHHHHHHCT-EEEEEESSS--SS-SE.....EGGGHHHHH CS
               NAD_kinase  59 kkvkttddtrkaleafadagvdliivvGGDGTaldvarllqkaeiPvlgvnaGvkgfltef.....epeaaaell 128
                              +++k  d  +++le  + + vd+i+ vGGDGT+  + + l+  ei +l v+ G+++  + +     +++ +++++
  PHY93_01195|PHY93_01195  35 QTPKDLDELYEKLELDVVNNVDAILSVGGDGTVNTIIQRLAGTEIGLLVVPGGTANDFARVlgsssNIKRITQTI 109
                              4556666777777777889***********************************986666667333344444444 PP

>> DAGK_acc  Diacylglycerol kinase accessory domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0   1.1e-05      0.04       7      63 ..     132     189 ..     127     285 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.1e-05
                 DAGK_acc   7 SiGvDAkialgFhkaReenpe.lfnsrllnklvYlklglkkllkkslknleekvelev 63 
                              +iG+ +++a+++++ R++ p+ +   +l  k vY  + +kkll++++k+++ kv+   
  PHY93_01195|PHY93_01195 132 GIGFASEVANEINELRTSLPQfKSFMKLSGKSVYSLFLAKKLLNREIKSYKFKVQSAE 189
                              7******************9845678999**************999999988877663 PP

>> PFK  Phosphofructokinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.3     1e-05     0.037      88     156 ..      51     111 ..       9     150 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1e-05
                              HHHT--EEEEEESHHHHHHH.HHHHHT..T....--EEEEEEETT---TT-S--EEHHHHHHHHHHHHHH CS
                      PFK  88 kklgidaLvviGGdgslkga.nklseerkglleelkivgiPkTidNDipgtdytiGfdTAlntiveaidk 156
                              + +++da++ +GGdg+++++ ++l+    +    + + ++P+   ND++     +G+++ +++i+++i++
  PHY93_01195|PHY93_01195  51 VVNNVDAILSVGGDGTVNTIiQRLAGT--E----IGLLVVPGGTANDFAR---VLGSSSNIKRITQTIRQ 111
                              3579************98751555533..4....99***********986...58**********99975 PP

>> Lambda_CIII  Lambda Phage CIII
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.1   0.00013      0.46      10      36 ..      96     120 ..      93     124 .. 0.86
   2 ?   -3.1   0.1       2.4   8.6e+03      34      38 ..     281     285 ..     281     286 .. 0.90

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00013
              Lambda_CIII  10 aGvpqESlLdRitrklRegwkrlidiL 36 
                               G +  S + Rit+ +R+  k+ id++
  PHY93_01195|PHY93_01195  96 LGSS--SNIKRITQTIRQNVKKKIDLI 120
                              4555..99*****************96 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 2.4
              Lambda_CIII  34 diLNQ 38 
                              +iLNQ
  PHY93_01195|PHY93_01195 281 EILNQ 285
                              7***9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (316 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       741  (0.0413297); expected 358.6 (0.02)
Passed bias filter:                      526  (0.0293379); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.50u 0.21s 00:00:00.71 Elapsed: 00:00:00.37
# Mc/sec: 2531.74
//
Query:       PHY93_01200|PHY93_01200  [L=339]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
      0.026   14.8   0.0      0.055   13.7   0.0    1.6  1  Acetyltransf_1  Acetyltransferase (GNAT) family
       0.12   12.5   0.0       0.19   11.9   0.0    1.2  1  Acetyltransf_6  Acetyltransferase (GNAT) domain
       0.14   12.6   0.4          9    6.9   0.0    2.6  2  LRR_4           Leucine Rich repeats (2 copies)


Domain annotation for each model (and alignments):
>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   9.3e-06     0.055      31     101 ..     244     311 ..     206     325 .. 0.74

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 9.3e-06
                              TTC.EEEEEEETTEEEEEEEEEEEETTSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHTTESEEEEEE CS
           Acetyltransf_1  31 eae.gllvaeedgeliGfisllkipdekggvayieslaVspeyrgkGlGsaLlealeerareegikkivlav 101
                              +   +l++ +  ge iG+  ++ + +   +++++  + ++++yrg+Gl    +   +++a + gi+k+v+a 
  PHY93_01200|PHY93_01200 244 DFTfSLFIKSSTGERIGYF-INFVEH---DYCVVKTIGIDRNYRGSGLSNGSMYLSLKKAADMGIHKMVAAM 311
                              2223555566669999999.566666...79**********************************9987654 PP

>> Acetyltransf_6  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   3.1e-05      0.19      27     130 ..     203     306 ..     182     312 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 3.1e-05
           Acetyltransf_6  27 dpedleallelfraqwarrpdvfadpltraflrdllaalaargalr..lyvlrldgrpvAvalglrsgdrlyywlggydpelakls 110
                              + ed+  l++l  + +     + a p   + +r l+aa +++++    l+  +  g+ ++++++++ +d +    +g+d+ +++ +
  PHY93_01200|PHY93_01200 203 NLEDMKDLHRLSLNIFDDN--YLATPIDFETFRTLYAAQSKKDDFTfsLFIKSSTGERIGYFINFVEHDYCVVKTIGIDRNYRGSG 286
                              4566666777776666666..778899999999***9999987755115555568****************************999 PP

           Acetyltransf_6 111 pgllllweliedaaeeGlrr 130
                              +    ++  ++ aa+ G+++
  PHY93_01200|PHY93_01200 287 LSNGSMYLSLKKAADMGIHK 306
                              99999999999999999875 PP

>> LRR_4  Leucine Rich repeats (2 copies)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.9   0.0    0.0015         9       4      27 ..      26      54 ..      26      58 .. 0.82
   2 ?    3.1   0.1     0.023   1.4e+02      19      36 ..     204     223 ..     196     232 .. 0.67

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.0015
                             -EEE--SS---E-S-.HH....H-TT--E CS
                    LRR_4  4 evLdLsnNqltdipl.le....klpnLke 27
                             ++L+  nN+++++p+ le    kl +L++
  PHY93_01200|PHY93_01200 26 KKLYADNNKVKKLPFeLEalyfKLHHLTH 54
                             68999**********96656677888875 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.023
                              HHH-TT--EEE-....-S--- CS
                    LRR_4  19 leklpnLkeLdL...sgNnli 36 
                              le +++L+ L+L    + n++
  PHY93_01200|PHY93_01200 204 LEDMKDLHRLSLnifDD-NYL 223
                              4569******9932222.455 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (339 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       571  (0.0318478); expected 358.6 (0.02)
Passed bias filter:                      480  (0.0267723); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.50u 0.21s 00:00:00.71 Elapsed: 00:00:00.38
# Mc/sec: 2658.50
//
Query:       PHY93_01205|PHY93_01205  [L=285]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.027   14.2   0.5       0.48   10.1   0.0    2.2  2  DUF3394   Domain of unknown function (DUF3394)


Domain annotation for each model (and alignments):
>> DUF3394  Domain of unknown function (DUF3394)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.0   2.7e-05      0.48      14      60 ..      21      64 ..      12      73 .. 0.81
   2 ?    2.1   0.1    0.0073   1.3e+02     152     175 ..     233     256 ..     226     261 .. 0.86

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 2.7e-05
                  DUF3394 14 lfaAatqgyfltrsrlyEsvlLLlvaftLfrPgffldlisppyeele 60
                             ++  at gy l+ +r y s+ L +++f Lf   f+l +++++y++++
  PHY93_01205|PHY93_01205 21 TMGPATSGYALANNRNYLSLCLAFIGFFLF---FLLLRMMDEYKDYD 64
                             44569************************9...67777777777665 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.0073
                  DUF3394 152 adrppkelvyipAllllalvallQ 175
                              +d++++ ++yip +ll+a +++l 
  PHY93_01205|PHY93_01205 233 QDNYNQYFFYIPIILLFASLMALS 256
                              6889999**********9998875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (285 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       735  (0.040995); expected 358.6 (0.02)
Passed bias filter:                      252  (0.0140554); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 2159.31
//
Query:       PHY93_01210|PHY93_01210  [L=467]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    6.5e-32  110.6   0.0      1e-31  110.0   0.0    1.3  1  AMP-binding     AMP-binding enzyme
  ------ inclusion threshold ------
       0.04   13.8   0.0       0.11   12.5   0.0    1.7  1  CobW_C          Cobalamin synthesis protein cobW C-terminal d
      0.099   12.5   0.0         21    5.0   0.0    2.4  2  Ribosomal_L21e  Ribosomal protein L21e


Domain annotation for each model (and alignments):
>> AMP-binding  AMP-binding enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  110.0   0.0   1.7e-35     1e-31       9     416 ..      15     386 ..       7     390 .. 0.75

  Alignments for each domain:
  == domain 1  score: 110.0 bits;  conditional E-value: 1.7e-35
                              TTSEEEEECCSTEEEEHHHHHHHHHHHHHHHHHTTSSTT-EEEEEESSSHHHHHHHHHHHHTT-EEEEEETTS-HHHHHHHHHHHT CS
              AMP-binding   9 pdkvalvdsgegqtlTYreldervnrlAagLrslGvkkgdrVaillpnspewvvallailkaGavvvplnptltaeelayiledse 94 
                              +d+ a+v+   g+ +++++l+erv r+ ++L+ ++ k+gd V+i+ + s++++ +++a++ +G++++ + p ++ + ++ +++++ 
  PHY93_01210|PHY93_01210  15 KDQLAFVS-PYGTAFSFSDLRERVMRVQSYLLDKNFKSGDSVLIAIDVSIDLYSTVIAVMGLGGTIILVEPWMPIKKISEVIKSVS 99 
                              57788887.55899******************98**************************************************** PP

                              ESEEEE.TCTCCCHHHHHHHHSCC-EECEEEEESCCS-HCCHCCCHCCCCSCTTS-TSCCCS-BTTSEEEEEEE--SSSS-EEEEE CS
              AMP-binding  95 akvlia.tvdselleklleaaakleavklvivldadellkeeelkeeeeseekaekpeeeeelkpddlayiiYTSGTTGkPKGVml 179
                              +k++++          + ++ + l+++++  + +   + + + l + +++e         e+++++++ +i +TSGT G+PKGV+ 
  PHY93_01210|PHY93_01210 100 PKFFVSsL--------VGNIWG-LRVPEIRSIPH---WIRPSSLLSGQKNEL----I--CEAVDEKTPGVITFTSGTSGTPKGVVR 167
                              *****222........233343.33333322222...333333444443332....3..44599********************** PP

                              EHHHHHHHHHHHHHHHCSCCTTT-EEEESS-TTSCHHHHHHHHHHHHTT-EEEE-TTCGC.CHHHHHHHHHHHHT-SEEEEEHHHH CS
              AMP-binding 180 shrnlvanvaslkletrfklkeddvvlsilplahifglilelllallsGatvvllpkdaa.ldpklllelieklkvtviagvPrvl 264
                              ++++l+ + + lk  +   +      ++  +l+  + +    ll l++G   v++p +    + + l ++ +++++ ++++ P+++
  PHY93_01210|PHY93_01210 168 EQGYLLRQFSVLK--KSLHF----DQYAGSDLCIFANW---ALLNLAQGRPTVFFPAKWSkKNFNWLEQASKTYNIETLTCGPAFI 244
                              ********66654..33222....22566676555554...56666666666666655553778888899999************* PP

                              HHHHHCCCHHCHHHHCCGTT-SEEEEESS-EBHHHHHHHHHHHTC.EEEEEEEEGGGSSECEE........CHCTTTCTSTTS-.. CS
              AMP-binding 265 eallesgalkaakkakdlsslrlvllggeplspellrffralfge.evlegYGlTEttgvvtv........lpleedkkklgsv.. 339
                              + +l++          +l  ++ + +gg+  + +l + + +++++ +v+++YG +E  +v+t+            ++++   +   
  PHY93_01210|PHY93_01210 245 KNILQET---------KLHNIKDIHIGGALTPCKLFEDVFKTYPDvQVSQVYGSSEVEPVCTIdarpavtkS---KERNFYHTLyl 318
                              *****62.........4668999999*****************99****************97655553221...22122222122 PP

                              BEE-TTEEEEEE-TTTSCBEETTSEEEEEEEETTS-SEBTT-HHHHH.HHEEET.CC.EEEEEEEEEEETTSEEEEEEEC CS
              AMP-binding 340 GkplpgvevkivDeetgepvpdgeeGellvrgpgvmkgYlkkpeata.eafdse.gr.wlrTGDlgrldedGyleivgRk 416
                              Gkp+ ++  + + +             ++v gp+v + Yl+++++++  + ++e +r w   GD   +d d   ++ gR+
  PHY93_01210|PHY93_01210 319 GKPIEEISFENKSD------------GMWVTGPHVCPFYLNNQKENElNKRKDEqNRvWHFMGDRIQIDSDQDWWYSGRS 386
                              55554444433333............39*************85433302222345899*********************7 PP

>> CobW_C  Cobalamin synthesis protein cobW C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   1.8e-05      0.11      41      86 ..     359     430 ..     354     435 .. 0.92

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 1.8e-05
                   CobW_C  41 kpdalvlqgvggrlrlepagawwaa..........................ededrrseLVfIGrdldkeal 86 
                              +++  v+++ g+r+++++ ++ww +                           + +  +++ +IG++l+  ++
  PHY93_01210|PHY93_01210 359 DEQNRVWHFMGDRIQIDSDQDWWYSgrsqmsmddffmeqnlynilgndlafIHRNSNNQIMLIGENLKSTQI 430
                              34589*********************************************999999***********98776 PP

>> Ribosomal_L21e  Ribosomal protein L21e
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.9   0.0     0.004        24      20      48 ..      34      63 ..      25      82 .. 0.81
   2 ?    5.0   0.0    0.0036        21      13      59 ..     269     315 ..     264     322 .. 0.89

  Alignments for each domain:
  == domain 1  score: 4.9 bits;  conditional E-value: 0.004
                             GG-SS--SHHHH..----TT-EEEE---TT- CS
           Ribosomal_L21e 20 rkkgvpplstyl..reykkGdkVdikidpsv 48
                             r+ +v++++ yl  +++k+Gd V i id s+
  PHY93_01210|PHY93_01210 34 RE-RVMRVQSYLldKNFKSGDSVLIAIDVSI 63
                             44.4667777777899***********9887 PP

  == domain 2  score: 5.0 bits;  conditional E-value: 0.0036
                              TTTS--GGG-SS--SHHHH----TT-EEEE---TT--SS---GGGTT CS
           Ribosomal_L21e  13 klfskkfrkkgvpplstylreykkGdkVdikidpsvqkgmphkryhG 59 
                              klf+  f+    +++s++    ++   + i++ p+v k +  ++yh 
  PHY93_01210|PHY93_01210 269 KLFEDVFKTYPDVQVSQVYGSSEVEPVCTIDARPAVTKSKERNFYHT 315
                              6677777777788999999999***********************95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (467 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       485  (0.0270511); expected 358.6 (0.02)
Passed bias filter:                      381  (0.0212505); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.54u 0.21s 00:00:00.75 Elapsed: 00:00:00.38
# Mc/sec: 3699.82
//
Query:       PHY93_01215|PHY93_01215  [L=897]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.7e-78  262.8   0.0    7.5e-78  262.1   0.0    1.3  1  PPDK_N         Pyruvate phosphate dikinase, PEP/pyruvate bind
    4.1e-21   74.5   0.0      1e-20   73.2   0.0    1.7  1  PEP-utilizers  PEP-utilising enzyme, mobile domain


Domain annotation for each model (and alignments):
>> PPDK_N  Pyruvate phosphate dikinase, PEP/pyruvate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  262.1   0.0   8.4e-82   7.5e-78       5     316 ..      23     319 ..      19     324 .. 0.97

  Alignments for each domain:
  == domain 1  score: 262.1 bits;  conditional E-value: 8.4e-82
                   PPDK_N   5 GGKganLaellneagipvPpgfaitadafrefleengleekideelkeldvddvdelrkaskeirelilsaelPeeleeaikeaye 90 
                              GGKg+nL  l n +g++vPp+++ t + f++f e++++++ id+++ +    +  +l ++s++ir+ i+++++ +ele++++ +y+
  PHY93_01215|PHY93_01215  23 GGKGFNLFLL-NANGVNVPPFVTLTPQFFEKFKEATKINDYIDNIFVD----QHLSLLDVSEKIRTKIVETPFTPELEKQLALIYK 103
                              **********.88***********************999999888886....77889***************************** PP

                   PPDK_N  91 elgkkfgdeelpvaVRSSataEDlpkasfaGqqdtyLnvggeeevleaikavfaSlfnerAilYrkekgldheevalavvvqkmvn 176
                              el k      ++++VRSSa  ED++  sfaGq  +yL +++ +++l+a+++++aS+++er++ Yr+ ++l+ ++++++v+ q+m++
  PHY93_01215|PHY93_01215 104 ELDK------SLISVRSSAHDEDSALHSFAGQLSSYLYISDFQNTLKAVRECWASAYSERSLHYRTINKLELKNIRVSVIWQEMID 183
                              **87......9*************************************************************************** PP

                   PPDK_N 177 sdlgasGVafsldpetGfkdevlinasyGlGeaVVaGrvtpdefvvekstrkilekkigekeikivydekeegtkevevpeeerek 262
                              +d  +sGV f+++p tG+ d+v+in++yG Ge  V+G ++ d+fv++k +  +lek+i ek +k+++d+++++  evev++  ++ 
  PHY93_01215|PHY93_01215 184 PD--ISGVFFTCNPVTGNTDQVFINSVYGVGEGLVSGLLDADTFVISKIDGLVLEKTIVEKTKKLIRDTAKQQCLEVEVENTLQNT 267
                              **..********************************************************************************** PP

                   PPDK_N 263 laLsdeeveeLaeiakkiekhygtpmdiEfaideeegklyllQaRpetrtsekk 316
                               ++s +++++L  ia kie  yg+p+d+E+ai+  + +ly+lQ+Rp t+  e++
  PHY93_01215|PHY93_01215 268 ESISANDIKRLHAIAAKIELFYGRPQDVEWAIK--DSELYILQSRPVTTATENN 319
                              *********************************..*************988765 PP

>> PEP-utilizers  PEP-utilising enzyme, mobile domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.2   0.0   1.1e-24     1e-20       5      73 .]     825     893 ..     821     893 .. 0.98

  Alignments for each domain:
  == domain 1  score: 73.2 bits;  conditional E-value: 1.1e-24
                              -EEEEES---HHHHTTS-GEEEEEES--TTHHHHHHHHHHTT--EEE--SSHH.HH--TEEEEEETTTT CS
            PEP-utilizers   5 gvILvaeetspsdiagldkaaGivterGGmtSHaAivArelgiPaVvgvgeatielkegdlitvDgstG 73 
                              g+ILv++ t+p +i+ ++ ++++++erGG  SH+AivAre+g+P++vg++++t++lk+g  + ++g+tG
  PHY93_01215|PHY93_01215 825 GEILVTDRTDPGWIPLYPSVSALLVERGGLLSHSAIVAREMGLPTIVGIKGLTKKLKSGMKVKMNGETG 893
                              79******************************************************************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (897 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       658  (0.0367003); expected 358.6 (0.02)
Passed bias filter:                      436  (0.0243181); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.70u 0.28s 00:00:00.98 Elapsed: 00:00:00.45
# Mc/sec: 5977.76
//
Query:       PHY93_01220|PHY93_01220  [L=455]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      2e-25   89.7   3.7    5.4e-25   88.3   3.7    1.7  1  Peptidase_S8  Subtilase family


Domain annotation for each model (and alignments):
>> Peptidase_S8  Subtilase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.3   3.7     3e-29   5.4e-25       5     282 ..      23     381 ..      20     399 .. 0.71

  Alignments for each domain:
  == domain 1  score: 88.3 bits;  conditional E-value: 3e-29
                              EEEEECS-B-TT-TTTGGGEEE..EEEE---TTSG.................................................GG CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx................................................xx RF
             Peptidase_S8   5 lvavlDtGvdpshpdlsvttdgerklvdvideegag................................................fn 42 
                              ++av+D+G d +h+dl v+         v + e+ g                                                  
  PHY93_01220|PHY93_01220  23 TIAVVDSGNDFKHKDLAVKAW-------VNPLEIPGndrdedrngypddvngwnfaegnnilvdysyaktntedarrffdiqlkS- 100
                              799999999999999996632.......222222222233455667777777777777777555555555555555555555551. PP

                              EETT-SS-TT-SC-S.......................SS..........HHHHHHHHHH-B....SSSSSB-SSTTSEEE..... CS
                              xxxxxxxxxxxxxxx.......................xxxxxx......xxxxxxxxxxxx..xxxxxxxxxxxxxxxxx..... RF
             Peptidase_S8  43 gadsettstnwardd.......................ngnsie......HGthvAGiaaan..apeegekngvapgakil..... 92 
                                                                    n+   +      HGthv Gi + n  +++  +++ + +++k+      
  PHY93_01220|PHY93_01220 101 --------------FlgtitqadrdwanakfkdeafvkNL---QlfgnwmHGTHVTGITVKNspDAKAVGIKLIPTEIKLPgkkvv 169
                              ..............05555555555554445555555433...1445889************444444455556666666655555 PP

                              .............EEE-SSTTSB-HH..HHHHHHHHHHHH.CT-SEEEE-EESCETTCHHCHHHHHH................... CS
                              .............xxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxx................... RF
             Peptidase_S8  93 .............svkvldtsggsmetgteliraieeaae.dkvdvinmslgestslpktgrsieal................... 145
                                            +k+  t + +++  t+++  i   ++  k+dv+n s+g  ts +  + +i++l                   
  PHY93_01220|PHY93_01220 170 etmlaekgavkdaLLKAALTALAQQQ--TKVYVEIGGYINgTKADVMNGSFG--TSYEAMSGVISQLyktffkkdptadelklytt 251
                              66666655554443333333333332..55555588888888899*******..66666677777777788888888889999*** PP

                              ........HHHHHH.CC.T-EEEEE--SS-T-HHEEE-TTCEE.CTTTSTTCEEEEEESTTSSB-TT--B-TT.......-EEEE- CS
                              ........xxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8 146 ........ainravnkk.gvlvviSaGNngktgsslqagspvg.tpstsknvitvgayttegkiapfSsrGpssdgklkpdivapG 221
                                      + +++  +  ++l+v++aGN+g +++      p + t+ +++n i+v+a+  ++ +a fS +G +      ++++apG
  PHY93_01220|PHY93_01220 252 hfftvnleETKKFLSSApNTLFVFAAGNEGSNND----EIPSSpTNVQAENKISVAATLGDQALANFSCYGVKN-----VEVAAPG 328
                              ********8888887778************4444....3332203444459*****************999985.....8****** PP

                              S-CCCCCCCCCHHHTTTHHEEEE-SHHHCHHHHHHHHHHHHHHHTT--HHHHHHHHHCCS- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8 222 gnivstwsrqsnnsaglssyqsmsGTSmAsPnaagaaAlllsalpkltpetvraallntAq 282
                              + i+st++ ++        y ++sGTS+AsP +a++a  +++ +pkl  ++++++++ t +
  PHY93_01220|PHY93_01220 329 VGILSTIPMNN--------YLAVSGTSQASPYVANIAGRIKDVNPKLGFREIKKIIMETVD 381
                              ***********........***************************************984 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (455 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       432  (0.024095); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.25s 00:00:00.82 Elapsed: 00:00:00.44
# Mc/sec: 3125.82
//
Query:       PHY93_01225|PHY93_01225  [L=460]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.9e-27   96.3   2.6    4.1e-27   95.2   2.6    1.5  1  Peptidase_S8  Subtilase family


Domain annotation for each model (and alignments):
>> Peptidase_S8  Subtilase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   95.2   2.6   2.3e-31   4.1e-27       4     281 ..      19     386 ..      16     404 .. 0.72

  Alignments for each domain:
  == domain 1  score: 95.2 bits;  conditional E-value: 2.3e-31
                              -EEEEECS-B-TT-TTTGGGEEE..EEEE---TTSG.................................................. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx................................................. RF
             Peptidase_S8   4 vlvavlDtGvdpshpdlsvttdgerklvdvideegag................................................. 40 
                               lv+++D+G d +h+dl      ++  +++ ++   g                                                 
  PHY93_01225|PHY93_01225  19 SLVGIMDSGTDITHKDLA-----PKAWFNRNEKA--Gslrdldndglpgdihgwdftensakvfnddhndlitadvktfynyysmy 97 
                              58****************.....33444444444..34588999999999999777777777777777776666666666666666 PP

                              ....GGEETT-SS-TT-SC-S...................SS............HHHHHHHHHH-B..SSSSSB-SSTTSEEE... CS
                              ....xxxxxxxxxxxxxxxxx...................xxxxxx........xxxxxxxxxxxxxxxxxxxxxxxxxxxxx... RF
             Peptidase_S8  41 ....fngadsettstnwardd...................ngnsie........HGthvAGiaaanapeegekngvapgakil... 92 
                                  +               +                   n    +        HGthvAGi   n + + ++  + +  +++   
  PHY93_01225|PHY93_01225  98 elgkL---------------NqtsaelvwlkshtqdqelmN----KvnfvggyiHGTHVAGISSLN-NAQVKILSLKIIPTVYqel 163
                              66662...............033334444444333333330....245666888************.3333333333333333445 PP

                              ...........................EEE-SSTTSB-HH..HHHHHHHHHHHH.CT-SEEEE-EE..........SCETTCHHCH CS
                              ...........................xxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxx..........xxxxxxxxxx RF
             Peptidase_S8  93 ...........................svkvldtsggsmetgteliraieeaae.dkvdvinmslg..........estslpktgr 140
                                                          +++ld   ++     + + ++   ++ +kvdv+n s+g          ++  +++++r
  PHY93_01225|PHY93_01225 164 ktanhstpktviknavlevptktvdeyTAEILDSATQQ----VDQMVGFHALINfHKVDVVNQSFGigygdacsfiKAGFVEEVKR 245
                              55555555554445555566665554444444332222....33334699999999999*********999999997777777777 PP

                              HHHHH................HHHHHH.CCT-EEEEE--SS-T-HHEEE-TTCEEC..TTTSTTCEEEEEESTTSSB-TT--B-TT CS
                              xxxxx................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8 141 sieal................ainravnkkgvlvviSaGNngktgsslqagspvgt..pstsknvitvgayttegkiapfSsrGps 208
                              ++ ++                  + +    ++++ i+aGN+      l++     +  + +++n i v+a++  ++ia+fS++G +
  PHY93_01225|PHY93_01225 246 DPTDAemaflvkayfsqllkdGRRMFAAAPNTIFTIAAGNDA-----LNNDLFPDYpaDVQAENKIVVAATVGYKSIADFSNYGAT 326
                              7777788889*******9999666666667************.....3333433440245556**********************8 PP

                              .......-EEEE-S-CCCCCCCCCHHHTTTHHEEEE-SHHHCHHHHHHHHHHHHHHHTT--HHHHHHHHHCCS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8 209 sdgklkpdivapGgnivstwsrqsnnsaglssyqsmsGTSmAsPnaagaaAlllsalpkltpetvraallntA 281
                                   k+d++apG++i st++++         y + sGTS+A+P +++++A +++ +p+l++++++a++l t 
  PHY93_01225|PHY93_01225 327 -----KVDVAAPGVAITSTAPTNV--------YIALSGTSQATPYVTNIIAAMKDLNPALSARDLKAIILGTV 386
                              .....79*****************........*************************************9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (460 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       477  (0.0266049); expected 358.6 (0.02)
Passed bias filter:                      321  (0.017904); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.43
# Mc/sec: 3192.97
//
Query:       PHY93_16890|PHY93_16890  [L=253]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (253 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       362  (0.0201908); expected 358.6 (0.02)
Passed bias filter:                      343  (0.019131); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.38
# Mc/sec: 1976.08
//
Query:       PHY93_01230|PHY93_01230  [L=322]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.9e-59  199.4   0.0    4.2e-59  198.9   0.0    1.2  1  2-Hacid_dh_C     D-isomer specific 2-hydroxyacid dehydrogenas
    5.8e-27   94.0   0.0    6.6e-27   93.8   0.0    1.0  1  2-Hacid_dh       D-isomer specific 2-hydroxyacid dehydrogenas
    6.3e-06   26.4   0.5    2.3e-05   24.6   0.2    1.9  2  NAD_binding_2    NAD binding domain of 6-phosphogluconate deh
     0.0013   19.2   0.1     0.0037   17.8   0.1    1.8  1  F420_oxidored    NADP oxidoreductase coenzyme F420-dependent
  ------ inclusion threshold ------
      0.027   14.7   0.0      0.068   13.4   0.0    1.7  1  Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding doma


Domain annotation for each model (and alignments):
>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  198.9   0.0   1.2e-62   4.2e-59       1     178 []     110     286 ..     110     286 .. 0.97

  Alignments for each domain:
  == domain 1  score: 198.9 bits;  conditional E-value: 1.2e-62
                              HHHHHHHHTTHHHHHHHHHTTCC..HTTCCGSBS-GTTSEEEEES-SHHHHHHHHHHH.HTT-EEEEESSSHHHHHCHHHHTCEEC CS
             2-Hacid_dh_C   1 lalllallrrlaeadeevregew..ksekallgkelsgktvGiiGlGrIGqavakrlk.afgmkviaydrskkkeeeeeelgvelv 83 
                              l+l++a++r++  a+++ ++g w  + ++++ g  lsgkt+GiiGlGrIGq++a +++ af+mk+i+   s+k++    +l +++v
  PHY93_01230|PHY93_01230 110 LGLMIAASRNFLSAERSAENGLWknWHPTEHIGFALSGKTLGIIGLGRIGQRLAGMCAhAFNMKIIYLANSEKEN----SLSATKV 191
                              589********************999999**************************9998************8844....5777999 PP

                              SHHHHHHH-SEEEE-S--STTTTTSBSHHHHHCSTTTEEEEESS-GGGB-HHHHHHHHHTTSCCEEEES--SSSSSGTCHHHHHST CS
             2-Hacid_dh_C  84 sleellaesDivslhlpltpetrhlinaeelakmkkgailiNtaRGglvdeeaLleaLksgkiagaalDvfeeeplpedspllelp 169
                              +l ella+sD++slh+pl+++t+++i+++e+++mkk+a+l+Nt+RG+++d++aL++aLk++ i +a+lDv+++eplp+d++l++l+
  PHY93_01230|PHY93_01230 192 ELSELLANSDFISLHVPLNNSTKKMIGKAEFKSMKKNAVLVNTSRGEIIDQAALINALKENLIFAAGLDVTDPEPLPKDNELFQLK 277
                              ************************************************************************************** PP

                              TEEE-SS-T CS
             2-Hacid_dh_C 170 nviltPHia 178
                              n i+ PHi+
  PHY93_01230|PHY93_01230 278 NAIVLPHIG 286
                              *******98 PP

>> 2-Hacid_dh  D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   93.8   0.0   1.8e-30   6.6e-27       1     133 [.       5     317 ..       5     318 .. 0.98

  Alignments for each domain:
  == domain 1  score: 93.8 bits;  conditional E-value: 1.8e-30
                              EEEEST.CHHHHHHHHHTTEEEEEES...CSSHHHCHHHHTTESEEEE-TTS-BSHHHHHHHTT--EEEESSSSCTTB-HHHHHHT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
               2-Hacid_dh   1 vlileplreeelellkeegvevevkd...ellteellekakdadalivrsntkvtaevlealpkLkviaragvGvDnvDldaaker 83 
                              v+i++++ +++ +l+++eg+ v++ +   +++ eel++ka+ +dali+  ++++++++l   + Lkvi++++vG++n+D+  a+++
  PHY93_01230|PHY93_01230   5 VFITRSILPDGADLMRAEGLIVDISEldrPMTYEELKSKAHSYDALITMLTDQIDEAFLHDNSHLKVISNYAVGFNNIDVLKASAL 90 
                              67899999999******787999999999********************************************************* PP

                              T-EEEE-TTTTHHHHHHHH................................................................... CS
                              xxxxxxxxxxxxxxxxxxx................................................................... RF
               2-Hacid_dh  84 GilVtnvpgystesvAElt................................................................... 102
                               i + n+p++ te++AE++                                                                   
  PHY93_01230|PHY93_01230  91 KIPIGNTPNVLTEATAEVAlglmiaasrnflsaersaenglwknwhptehigfalsgktlgiiglgrigqrlagmcahafnmkiiy 176
                              ************************************************************************************** PP

                              ...................................................................................... CS
                              ...................................................................................... RF
               2-Hacid_dh 103 ...................................................................................... 102
                                                                                                                    
  PHY93_01230|PHY93_01230 177 lansekenslsatkvelsellansdfislhvplnnstkkmigkaefksmkknavlvntsrgeiidqaalinalkenlifaagldvt 262
                              ************************************************************************************** PP

                              ........................T-BHHHHHHHHHHHHHHHHHHHTTCCGTTBC CS
                              ........................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
               2-Hacid_dh 103 ........................aaTeeaqeniaeeaaenlvaflkgespanav 133
                                                      +aT ea++++   aa+n++a lkg +++  v
  PHY93_01230|PHY93_01230 263 dpeplpkdnelfqlknaivlphigSATYEARRAMSVLAAKNIIAGLKGLPLEAWV 317
                              ************************************************8776666 PP

>> NAD_binding_2  NAD binding domain of 6-phosphogluconate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.0      0.45   1.6e+03      46      66 ..      37      57 ..      16      86 .. 0.76
   2 !   24.6   0.2   6.3e-09   2.3e-05       2     109 ..     150     254 ..     149     262 .. 0.91

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 0.45
                             -SSHHHHHHHCSEEEE-SSSH CS
            NAD_binding_2 46 aesieelvasldvvitmvkag 66
                             +e++++ ++s d+ itm++++
  PHY93_01230|PHY93_01230 37 YEELKSKAHSYDALITMLTDQ 57
                             556667777888888888874 PP

  == domain 2  score: 24.6 bits;  conditional E-value: 6.3e-09
                              EEEE--SHHHHHHHHHHHHTT-EEEEE-SSHHHHHHHHHTTEEE-SSHHHHHHHCSEEEE-SSSHHHHHHHHHS.HCCC--TT-EE CS
            NAD_binding_2   2 igfiGlGvMGsnmalnllkagykvavynrtkekveelvaegakaaesieelvasldvvitmvkagkavdevieg.llealkkgdil 86 
                              +g+iGlG +G+ +a  +++a    ++y  ++ek ++l a+++    +++el+a+ d++ + v+ ++ ++++i +  ++++kk+++l
  PHY93_01230|PHY93_01230 150 LGIIGLGRIGQRLAGMCAHAFNMKIIYLANSEKENSLSATKV----ELSELLANSDFISLHVPLNNSTKKMIGKaEFKSMKKNAVL 231
                              79***************9999999999999999999999888....6788999********************9778********* PP

                              EE-S---HHHHHHHHHHHHHTT- CS
            NAD_binding_2  87 idgstsspedtrelakelkekgl 109
                              +++s  ++ d+  l ++lke+ +
  PHY93_01230|PHY93_01230 232 VNTSRGEIIDQAALINALKENLI 254
                              **********9999999998755 PP

>> F420_oxidored  NADP oxidoreductase coenzyme F420-dependent
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.1     1e-06    0.0037       2      67 ..     150     205 ..     149     237 .. 0.72

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 1e-06
                              EEEETTSHHHHHHHHHHHHTTS-GGCEEEEEESSCCCHHHHHHHHC-EEECECHHHHHHH-SEEEE CS
            F420_oxidored   2 igiiGaGnmgealasgllaagaqpheivvansrnpekaeelaeelgvkvtavdneeaaeeadvvvl 67 
                              +giiG G++g+ la  +++a ++ + i++ans +++++ +++ el+         e+++++d++ l
  PHY93_01230|PHY93_01230 150 LGIIGLGRIGQRLAGMCAHA-FNMKIIYLANSEKENSLSATKVELS---------ELLANSDFISL 205
                              8**************99999.7999999998888888877766655.........44444555545 PP

>> Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   1.9e-05     0.068       2      58 ..     151     211 ..     150     236 .. 0.68

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 1.9e-05
                              EEE--SHHHHHHHHHHHCTCCT-GEEEEEESSHHHHHHHHCHH.......TTTCEEEEE--TTT CS
          Sacchrp_dh_NADP   2 liiGaGsvGqavaellarhfdvdaeitvadrskeklealaaka.......lgvrfeaialdaen 58 
                               iiG G++Gq +a ++a  f+++  i +a  +ke+   l a++       ++++f++  +  +n
  PHY93_01230|PHY93_01230 151 GIIGLGRIGQRLAGMCAHAFNMK-IIYLANSEKEN--SLSATKvelsellANSDFISLHVPLNN 211
                              69*******************94.55555555555..554444556665544444444444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (322 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       564  (0.0314574); expected 358.6 (0.02)
Passed bias filter:                      470  (0.0262145); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.50u 0.20s 00:00:00.70 Elapsed: 00:00:00.37
# Mc/sec: 2577.88
//
Query:       PHY93_01235|PHY93_01235  [L=295]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.8e-17   63.6   0.5    7.1e-17   62.7   0.5    1.5  1  Trypsin_2      Trypsin-like peptidase domain
    2.4e-10   40.6   2.4    3.9e-09   36.6   2.4    2.1  1  Trypsin        Trypsin
    0.00023   20.0   0.5    0.00023   20.0   0.5    2.7  3  Peptidase_S46  Peptidase S46
  ------ inclusion threshold ------
      0.047   13.5   0.0      0.074   12.9   0.0    1.3  1  Vint           Hint-domain


Domain annotation for each model (and alignments):
>> Trypsin_2  Trypsin-like peptidase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.7   0.5   1.6e-20   7.1e-17       1     150 []     102     253 ..     102     253 .. 0.82

  Alignments for each domain:
  == domain 1  score: 62.7 bits;  conditional E-value: 1.6e-20
                Trypsin_2   1 GsGflvgsdglilTnaHvv...dsadgaav.........kaikkkveeagadgrevpakvvaadpel....DlAllkvssderagl 70 
                              +sGflv++d  ++T+ H++   +   + +          ++ +k ++  ++d  ++ +k++a++ ++    D+ +lk+ +++  g 
  PHY93_01235|PHY93_01235 102 CSGFLVSADT-LVTAGHCIntvS---DCSNhawvfdfanTTEEKTSFTFTKDQVFHCTKIIAREKNSttmnDYSVLKL-DHPVPGR 182
                              79********.********6553...444334478888666666666777777777788999998767889*******.******* PP

                Trypsin_2  71 pplplgpsealkggepvyvvGyplggeksgsvssGivsgvvesesaasgegesflqtdaatspGsSGGplfd.sdGrvvGl 150
                              ++l++++s +++ +   +v+G+p g + +  +++  +++ ++         + f++t+a+t++G+SG++++d ++G v G+
  PHY93_01235|PHY93_01235 183 AALKFRTSGKAADDAVFTVIGHPTGLPTK-ITAAADMRDNTN---------PVFFRTNADTYGGNSGSAVVDsRTGVVEGI 253
                              **************99************7.555555655555.........8999*****************888988775 PP

>> Trypsin  Trypsin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.6   2.4   8.8e-13   3.9e-09      25     199 ..     100     257 ..      88     274 .. 0.66

  Alignments for each domain:
  == domain 1  score: 36.6 bits;  conditional E-value: 8.8e-13
                              EEEEEEEEETTEEEEEGGGTTT.....GGGEEE....EESESBTTSCTTTEEEEEEEEEEEETTEBTTTTTTTEEEEEESSSSTSB CS
                  Trypsin  25 hlCgGslisenwvlTAaHCvsn.....asdvkv....vlgehnlkksegkeqklkvekvivhpnynpstldnDiallklkepvklg 101
                                C+G+l+s+++++TA+HC++      ++++       +  ++++ + +k q+++  k+ ++++ n+ t  nD+ +lkl+ pv +g
  PHY93_01235|PHY93_01235 100 ANCSGFLVSADTLVTAGHCINTvsdcsNHAWVFdfanTTE-EKTSFTFTKDQVFHCTKI-IAREKNSTT-MNDYSVLKLDHPV-PG 181
                              45********************776652222223321222.344444444799999995.557777776.7***********4.44 PP

                              SSBHCCBBCSTTHTTSTTTEEEEEESSBSSTSSBSSBEEEEEEEEEEHHHHHHHTTTTSTTTEEEEESTTSSSBCTTTTTTSEEEE CS
                  Trypsin 102 dtvrpiclpaassslpvgttclvsGwgrtkekgksdtlqevevpvvsretcksaykgkvtenmlcagakeggkdacqGDSGGPlvc 187
                               +   +++     +++  +  +v+G ++              ++++  ++++ +    +++ ++ + a     d+  G+SG+++v 
  PHY93_01235|PHY93_01235 182 RAALKFRTSG---KAADDAVFTVIGHPTGLP-----------TKITAAADMRDN----TNPVFFRTNA-----DTYGGNSGSAVVD 244
                              4444444444...224555556666655322...........445566666664....6788999999.....9999*****9999 PP

                              TTT.EEEEEEEEE CS
                  Trypsin 188 sdg.elvGivswg 199
                              s +  + Gi+  g
  PHY93_01235|PHY93_01235 245 SRTgVVEGILVRG 257
                              9997777776666 PP

>> Peptidase_S46  Peptidase S46
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.9     0.017        77      46      68 ..      99     120 ..      80     128 .. 0.79
   2 ?    0.1   0.0     0.054   2.4e+02     223     251 ..     177     206 ..     167     221 .. 0.79
   3 !   20.0   0.5     5e-08   0.00023     615     648 ..     217     250 ..     205     261 .. 0.84

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.017
                              TTTEE-EE-STT-EEEE-HHHHH CS
            Peptidase_S46  46 lggCtasfVSpeGLvlTNHHCay 68 
                              +  C++ +VS++ Lv T  HC+ 
  PHY93_01235|PHY93_01235  99 AANCSGFLVSADTLV-TAGHCIN 120
                              467**********98.7888864 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.054
                              EE---S----EESS---TT-EEE.EEE--- CS
            Peptidase_S46 223 vPlkpkkflkvslkGvkegdlvf.vlGyPG 251
                               P+  +  lk+ ++G  ++d+vf v+G+P+
  PHY93_01235|PHY93_01235 177 HPVPGRAALKFRTSGKAADDAVFtVIGHPT 206
                              677888889*************9568***6 PP

  == domain 3  score: 20.0 bits;  conditional E-value: 5e-08
                              .-BTTB-EEEEEES----TT-TT-EEE-TTS-EE CS
            Peptidase_S46 615 aeelgsvpvnflstnDitGGNSGSPvlngkgelv 648
                              ++++++ pv f +++D+ GGNSGS+v++++  +v
  PHY93_01235|PHY93_01235 217 DMRDNTNPVFFRTNADTYGGNSGSAVVDSRTGVV 250
                              4567999*********************987766 PP

>> Vint  Hint-domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   1.6e-05     0.074     103     164 ..     104     166 ..      88     169 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 1.6e-05
                     Vint 103 ailvegvwgvtlgHgltegedvraHeffGdykavvkslakLgvkkdgvvlseg.vkrdkatgl 164
                               +lv+  + vt gH + + +d  +H++  d+++ +++ ++++++kd+v+++++ + r+k++  
  PHY93_01235|PHY93_01235 104 GFLVSADTLVTAGHCINTVSDCSNHAWVFDFANTTEEKTSFTFTKDQVFHCTKiIAREKNSTT 166
                              577888899*******************************************98889888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (295 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       451  (0.0251548); expected 358.6 (0.02)
Passed bias filter:                      341  (0.0190195); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.37
# Mc/sec: 2362.09
//
Query:       PHY93_01240|PHY93_01240  [L=429]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.8e-06   26.9   0.0      7e-05   22.3   0.0    2.3  1  Amidohydro_1  Amidohydrolase family


Domain annotation for each model (and alignments):
>> Amidohydro_1  Amidohydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.3   0.0   3.9e-09     7e-05       2     343 ..      53     427 ..      52     428 .. 0.77

  Alignments for each domain:
  == domain 1  score: 22.3 bits;  conditional E-value: 3.9e-09
                              EEE-EEEEEEECETTECSSSGHHHHHSTTHHHHHHHHHHHHHHHHTTEEEEEEEEHSSTH......HHHHHHHHHHT.SSSEEEEE CS
             Amidohydro_1   2 vlPGlIDaHvHleqsllrgatledwlvppetaaealesgiktalksGtttvadmgattst......giealleaaee.lplglril 80 
                              +++G+ D+H+H++ +             ++ ++e ++s++ +al++G   vadm+++ ++      +++ ++ a++  lp+ +++ 
  PHY93_01240|PHY93_01240  53 LFAGMGDIHIHAREDI----------SGKNNYKEDFNSVCCAALNGGLVHVADMPNNPVPpiddesYLSKVILASKGqLPILMYAG 128
                              789999*******885..........67899*************************987788777755555555555354443333 PP

                              EESSEGGSGCCCSHHHHHHHHHHHHHHHHHHCTTTCEEEEEEECGTCCSHHHHHHHHHHHHHHHTTEEEEEETSSCHHHHHHHHHH CS
             Amidohydro_1  81 ggkvsldrgsaetskasreklkagaaetikgkadgvvkvalapheapafsdeelkealkeakkrdlpvaiHaletkgevedaeaaf 166
                              +       g +  ++  ++  ka++             + +++      s++el+++lk  + r  +v++H+ e++++ e+ +++ 
  PHY93_01240|PHY93_01240 129 I-------GPTTRPLSFTVPYKAYM------------GPSIGDLYFK--SNSELENVLK--HYRHQWVSFHC-EDPEILEQNKNKS 190
                              3.......56667788899999997............2333333334..4459999995..55589******.9999999999999 PP

                              TTTEEEETTTTSTCC...HHTTTHCCEEEHCTCEEEHH..HHHHHHHHHHHHCEE........HHHHHHHH............... CS
             Amidohydro_1 167 getiehgthlevaes...lglldeiklilahgvhltpt..eaellkerlkeagva........hcpfsnsi............... 224
                              ++  +++   e +     l+l++++ l  + + +   +  +a++ +   +++gv         h+ fs++                
  PHY93_01240|PHY93_01240 191 DHFKQRPLEAELMATdfaLALIEKYELKGKLCHYSAGAglDAIRAA---RKKGVDvtcevtpqHLFFSEEGiramkpseqvlfqmn 273
                              9999998888887769999999995555555555555555555544...44555555899999888888888999999999***** PP

                              ....SEHHHHHHHHHHHHTSCEEEEEECT....................TSSCCGGHHHHHHHHHHHHHHCCTTTTHCHCHHHHHH CS
             Amidohydro_1 225 ....lrsgrealrkaldeGvkvglgtDga....................asgnslnlleelrlalklqrgllyedeegglslkeal 286
                                    s++ +l +al+++ +  l+tD+a                    a+  +  l+++++ a  ++r+ +    + g   +++l
  PHY93_01240|PHY93_01240 274 ppirELSDSKKLLEALRNNEIDYLATDHAphspeekakgmsglpgldtyAAFVTWLLIDQGIAAETVARVTAE---NPGRFFNQFL 356
                              *9988899999*******99********9******98888888777777777777888888888877775544...7777789999 PP

                              HHHTHHHHHHTT-TTTSSSS-TTSB--EEEECCCT..............CGGGTTTCTSEEEEEEEETTEE CS
             Amidohydro_1 287 rmaTingAkalglddkvGsievGkdADlvvvdldi..............laafvglkkdgnvkkvivkGkl 343
                              +    ++  + ++ +  G +e+ + A ++v++l++               ++f +++ +g+   v+++G++
  PHY93_01240|PHY93_01240 357 EGLNEKTGLYKRWGKGMGFLEPDFSASFTVINLHKahtvttaniktkarWSPFLNITFPGSLEAVFIGGNI 427
                              99999999999999999999999999999999933455677788888888889999999999999999987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (429 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       351  (0.0195772); expected 358.6 (0.02)
Passed bias filter:                      344  (0.0191868); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.37
# Mc/sec: 3432.66
//
Query:       PHY93_01245|PHY93_01245  [L=112]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.013   15.8   0.0      0.014   15.7   0.0    1.1  1  D5_N      D5 N terminal like
      0.027   14.4   0.1      0.038   13.9   0.1    1.2  1  fn3_4     Fibronectin-III type domain


Domain annotation for each model (and alignments):
>> D5_N  D5 N terminal like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.7   0.0   1.5e-06     0.014      51     104 ..      55     108 ..      13     109 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 1.5e-06
                     D5_N  51 eaeeaksalkalkkfakssrskkkvdnvlreaaelprldleideldadplllaf 104
                              ++ee+k+++++++ f+ +  +++++ + l+ +++  + +l+i ++d++ +++ f
  PHY93_01245|PHY93_01245  55 SEEELKEIISKYNFFLYRKSNSNNIAEKLELIQNGTKKVLTISDIDQRLWRFEF 108
                              33899*******************************************999988 PP

>> fn3_4  Fibronectin-III type domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.1   4.3e-06     0.038      14      52 ..      43      81 ..      37      97 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 4.3e-06
                    fn3_4 14 vpkgivlsWnveeldkkaaevesYelyayqeeeektest 52
                             +++g+v s++v+++++  + +++Y+ ++y+++++++  +
  PHY93_01245|PHY93_01245 43 NNNGVVFSFKVKSEEELKEIISKYNFFLYRKSNSNNIAE 81
                             899**************************9888877664 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (112 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       808  (0.0450667); expected 358.6 (0.02)
Passed bias filter:                      464  (0.0258799); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.38u 0.20s 00:00:00.58 Elapsed: 00:00:00.35
# Mc/sec: 958.09
//
Query:       PHY93_01250|PHY93_01250  [L=301]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.2e-15   58.7   0.0    1.9e-15   58.1   0.0    1.3  1  Trypsin_2      Trypsin-like peptidase domain
    6.8e-12   45.7   0.1      4e-10   39.9   0.1    2.3  1  Trypsin        Trypsin
      9e-06   24.6   3.6    2.1e-05   23.4   0.4    2.6  3  Peptidase_S46  Peptidase S46


Domain annotation for each model (and alignments):
>> Trypsin_2  Trypsin-like peptidase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.1   0.0   3.1e-19   1.9e-15       1     148 [.     105     254 ..     105     257 .. 0.80

  Alignments for each domain:
  == domain 1  score: 58.1 bits;  conditional E-value: 3.1e-19
                Trypsin_2   1 GsGflvgsdglilTnaHvv.....................dsadgaavkaikkkveeagadgrevpakvvaadpel..DlAllkvs 63 
                              +s+flvg+d+ +lT+ H+v                     ++ +            + ++++ +  a+++ ++++   D+Al+k+ 
  PHY93_01250|PHY93_01250 105 CSAFLVGEDL-LLTAGHCVkdkyqcqknywvldynnasgfEGPN---------GTVVFKKENIVTCAQILSWSENPklDYALIKI- 179
                              699******9.********6666666666666664432222222.........2333566677777778888864456*******. PP

                Trypsin_2  64 sderaglpplplgpsealkggepvyvvGyplggeksgsvssGivsgvvesesaasgegesflqtdaatspGsSGGplfdsdGrvv 148
                              ++  ++  pl+++   a+++ +++ v+G+p+g +k  ++ + ++++ +          ++ + t+a+t +G+SG+p+++ + ++v
  PHY93_01250|PHY93_01250 180 NRKITDRTPLKIRRNGAVDKNDSLLVIGHPMGLPKI-MADQARIRDNSL---------TYTFVTNADTFSGNSGSPVINPNTKLV 254
                              ****************999999*************8.999999999999.........777799999999*********766665 PP

>> Trypsin  Trypsin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.9   0.1   6.8e-14     4e-10      26     199 ..     104     261 ..      97     268 .. 0.67

  Alignments for each domain:
  == domain 1  score: 39.9 bits;  conditional E-value: 6.8e-14
                              EEEEEEEETTEEEEEGGGTTT....GGGEEEEESE.SBTTSCTTT..EEEEEEEE.EEEETTEBTTTT.TTTEEEEEESSSSTSBS CS
                  Trypsin  26 lCgGslisenwvlTAaHCvsn....asdvkvvlge.hnlkksegk..eqklkvek.vivhpnynpstl.dnDiallklkepvklgd 102
                               C+++l++e+ +lTA+HCv++    ++++ v   + +n++  eg     ++k e+ v+ ++  + s+  + D+al+k++++  ++d
  PHY93_01250|PHY93_01250 104 SCSAFLVGEDLLLTAGHCVKDkyqcQKNYWV--LDyNNASGFEGPngTVVFKKENiVTCAQILSWSENpKLDYALIKINRK--ITD 185
                              5********************7766555544..44255555554422344444444444444444442599**********..666 PP

                              SBHCCBBCSTTHTTSTTTEEEEEESSBSSTSSBSSBEEEEEEEEEEHHHHHHHTTTTSTTTEEEEESTTSSSBCTTTTTTSEEEET CS
                  Trypsin 103 tvrpiclpaassslpvgttclvsGwgrtkekgksdtlqevevpvvsretcksaykgkvtenmlcagakeggkdacqGDSGGPlvcs 188
                              ++ p++++++++ +  +++ lv+G +         +++ ++ ++ +++         +t + + + a     d+  G+SG+P+++ 
  PHY93_01250|PHY93_01250 186 RT-PLKIRRNGA-VDKNDSLLVIGHPM--GLP---KIMADQARIRDNS---------LTYT-FVTNA-----DTFSGNSGSPVINP 249
                              65.999999554.55555555555555..344...4566666666662.........3333.45566.....89************ PP

                              TT.EEEEEEEEE CS
                  Trypsin 189 dg.elvGivswg 199
                              ++  + Gi+  g
  PHY93_01250|PHY93_01250 250 NTkLVEGILVRG 261
                              *97777887665 PP

>> Peptidase_S46  Peptidase S46
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0      0.15   9.1e+02     242     305 ..      26      88 ..      14      99 .. 0.75
   2 ?    0.7   0.1     0.025   1.5e+02      46      72 ..     102     127 ..      94     132 .. 0.84
   3 !   23.4   0.4   3.6e-09   2.1e-05     618     648 ..     224     254 ..     208     261 .. 0.88

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 0.15
                              -EEEEEE------TT--HHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHH CS
            Peptidase_S46 242 dlvfvlGyPGstsRyltsaeleerrdvalparievleeriallkeemkkdpeirikyasklagl 305
                              d+ f  G  G  +R  +++el++++dv+  ++ + + ++   ++  ++++++i+i+++s + g+
  PHY93_01250|PHY93_01250  26 DYSFDKGIYGDDNRR-LIEELDKQIDVEQIEQSKAVLAQVPKWRVSSEDTTTISIQTKSLISGM 88 
                              556666666666664.467888888888888888888888888888888888888888877776 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.025
                              TTTEE-EE-STT-EEEE-HHHHHHHHH CS
            Peptidase_S46  46 lggCtasfVSpeGLvlTNHHCaygaiq 72 
                               + C+a +V ++ L+lT  HC+ +  q
  PHY93_01250|PHY93_01250 102 ISSCSAFLVGED-LLLTAGHCVKDKYQ 127
                              568***999987.99******987655 PP

  == domain 3  score: 23.4 bits;  conditional E-value: 3.6e-09
                              TTB-EEEEEES----TT-TT-EEE-TTS-EE CS
            Peptidase_S46 618 lgsvpvnflstnDitGGNSGSPvlngkgelv 648
                              ++s+  +f++++D+  GNSGSPv+n + +lv
  PHY93_01250|PHY93_01250 224 DNSLTYTFVTNADTFSGNSGSPVINPNTKLV 254
                              688999***********************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (301 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       548  (0.030565); expected 358.6 (0.02)
Passed bias filter:                      469  (0.0261587); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.37
# Mc/sec: 2428.23
//
Query:       PHY93_01255|PHY93_01255  [L=293]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.9e-24   86.1   0.0    4.1e-24   85.6   0.0    1.3  1  Pterin_bind  Pterin binding enzyme
  ------ inclusion threshold ------
       0.26   11.1   1.2         30    4.5   0.6    2.6  2  DBD_HTH      Putative DNA-binding domain


Domain annotation for each model (and alignments):
>> Pterin_bind  Pterin binding enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.6   0.0   4.6e-28   4.1e-24       2     229 ..      14     262 ..      13     279 .. 0.86

  Alignments for each domain:
  == domain 1  score: 85.6 bits;  conditional E-value: 4.6e-28
                              EEEETTTTTCHCCHHCTHHHHHHHHHHHHHHTT-SEEEEESS-TSTT--CCHHHHHHHHHHHHHHHHHH.HC.TSEEEEE-S-HHH CS
              Pterin_bind   2 gilNvtpdsfsdggkfedldkalaqarkmveeGAdilDiggestrPgaervdeeeelervvpvlealrd.ea.dvpisiDttkaev 85 
                              g++N+tp+sfs + + ++ ++  ++ +  ++    ++D g est P+   +++eee  r+  + + ++d  + + +is Dt+k++ 
  PHY93_01255|PHY93_01255  14 GVINITPNSFSGQNILLNSETLKSTLNHFLAIPSLVIDFGFESTAPMNLAISKEEERLRFDSFFDTIKDmDLsNRWISFDTYKPQN 99 
                              9********************************************************************866699*********97 PP

                              H...HHHHHT....TSEEEEETTTTSSSTTHHHHHHHHT-E......EEEESECSSTTTHCCCC.CCCSSHHHHHHHHHHHHHHHH CS
              Pterin_bind  86 a...eaAlka....gadivNdvsgeerdpkmlelvaeagaa......vvvmhmrgtpktmqeee.gqyedvveeveaflearveaa 157
                                  e+  k        i Ndvsg   d ++l+l++  + +      +   h+ ++ +  ++ + ++  d+++     +++ ++++
  PHY93_01255|PHY93_01255 100 YlyfEEKFKTryhdCGFIFNDVSGVL-DSEVLQLLKSKQYQenfyylYSSTHIPSRNNVLDHMKfINDGDIIQMSFEHFTKGHAQF 184
                              5112555555643333599*******.*******9987766444333456788899999*****9*********999********* PP

                              HHTT--GGGEEEETTTTSSTTHHHHHHHHHTHHHHHHTTS.....SEBEEEGTTGHHHHHHH..CTTCHGHHHHHHHHH CS
              Pterin_bind 158 eeaGvaperillDpgigfgkteehnlellrrldelreale.....vpvllGvSrksflgrll..elgkaeeRdagtaaf 229
                              +e G+ + +il+Dp +gf+k+ ++n++l++r+del  +l+     vp+l+G+S+ksfl + l  +++ +++ ++++a +
  PHY93_01255|PHY93_01255 185 REIGFLD-KILFDPCFGFSKSYQQNWDLINRFDELVLKLKnnkinVPWLIGISKKSFLRKSLpdSIDPFNDSEILHAQI 262
                              *****87.9**************************77777999****************99865555577777777655 PP

>> DBD_HTH  Putative DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.6    0.0034        30       5      21 ..      70      86 ..      69      86 .. 0.95
   2 ?    4.4   0.0    0.0036        32       1      27 [.     238     267 ..     238     269 .. 0.77

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.0034
                  DBD_HTH  5 RrqLdklLDsldDkeLs 21
                             R++ d+ +D+  D +Ls
  PHY93_01255|PHY93_01255 70 RLRFDSFFDTIKDMDLS 86
                             99**************7 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.0036
                  DBD_HTH   1 KSTrRrqLdklLDsldDkeL...siieata 27 
                              KS +R+ L  ++D ++D+e     iie+++
  PHY93_01255|PHY93_01255 238 KSFLRKSLPDSIDPFNDSEIlhaQIIEDLV 267
                              8889**************963333666666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (293 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       424  (0.0236488); expected 358.6 (0.02)
Passed bias filter:                      278  (0.0155056); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.20s 00:00:00.62 Elapsed: 00:00:00.35
# Mc/sec: 2497.73
//
Query:       PHY93_01260|PHY93_01260  [L=631]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.1e-68  228.0   0.0    1.3e-67  227.4   0.0    1.3  1  Peptidase_M41  Peptidase family M41
    9.4e-46  155.5   0.0    3.4e-45  153.7   0.0    1.9  2  AAA            ATPase family associated with various cellular
    8.8e-13   47.8   0.0    1.8e-12   46.8   0.0    1.5  1  AAA_lid_3      AAA+ lid domain
    2.8e-05   24.1   0.0    0.00018   21.5   0.0    2.3  1  AAA_5          AAA domain (dynein-related subfamily)
    0.00014   21.2   0.2    0.00039   19.7   0.0    1.8  2  TIP49          TIP49 P-loop domain
    0.00029   20.6   0.0     0.0041   16.9   0.0    2.4  2  RuvB_N         Holliday junction DNA helicase RuvB P-loop dom
    0.00035   20.9   0.0      0.022   15.1   0.0    2.7  2  AAA_22         AAA domain
    0.00036   20.9   0.3      0.005   17.2   0.1    2.3  2  FtsH_ext       FtsH Extracellular
    0.00067   20.1   0.4     0.0075   16.7   0.2    2.3  2  AAA_16         AAA ATPase domain
    0.00099   19.3   0.1      0.034   14.2   0.0    2.7  2  AAA_2          AAA domain (Cdc48 subfamily)
     0.0038   17.0   0.2      0.012   15.4   0.0    1.9  2  IstB_IS21      IstB-like ATP binding protein
     0.0064   16.7   0.0      0.016   15.3   0.0    1.7  1  AAA_33         AAA domain
  ------ inclusion threshold ------
       0.02   14.3   0.2      0.047   13.1   0.2    1.6  1  Mg_chelatase   Magnesium chelatase, subunit ChlI
      0.058   13.9   0.2       0.32   11.6   0.0    2.2  2  AAA_18         AAA domain
      0.076   12.3   0.1       0.22   10.8   0.0    1.8  2  Zeta_toxin     Zeta toxin
      0.076   12.5   2.0       0.21   11.0   0.3    2.2  2  PhoH           PhoH-like protein
      0.083   13.3   0.2       0.44   11.0   0.0    2.3  2  AAA_17         AAA domain
       0.11   12.7   0.0       0.25   11.6   0.0    1.6  1  AAA_28         AAA domain
       0.13   12.3   0.0       0.36   10.9   0.0    1.7  1  AAA_14         AAA domain


Domain annotation for each model (and alignments):
>> Peptidase_M41  Peptidase family M41
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  227.4   0.0   1.4e-70   1.3e-67       2     191 .]     408     594 ..     407     594 .. 0.97

  Alignments for each domain:
  == domain 1  score: 227.4 bits;  conditional E-value: 1.4e-70
                              X--HHHHHHHHHHHHHHHHHHCCSSS-S-B--EES--TTS-----------TSS--BHHHHHHHHHHHHHHHHHHHHHHHS-BGGG CS
            Peptidase_M41   2 visekekklvAyHEaGHalvglllkeadpveKvtiiPRgqalGltlslPeedklsltkeellarlavllGGraaEelifgevttGa 87 
                              vis+kek ++AyHEaGH+lvg+ l+++dp++Kv+i+PRg alG+t++lP+ed lslt+++  + +a+l+GGr aEe+++g++t+Ga
  PHY93_01260|PHY93_01260 408 VISDKEKLMTAYHEAGHTLVGMNLPHTDPIHKVSIMPRGGALGVTQTLPNEDLLSLTNDRAENFIAFLMGGRCAEEIVYGQMTSGA 493
                              79************************************************************************************ PP

                              HHHHHHHHHHHHHHHHTS---TTT-S--------..----.------SS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHH CS
            Peptidase_M41  88 snDlekatkiarkmvtefGmsdklGpvsleeeeeeevflgkelkkekelseetaeeideevkelveeayerakeileekreeleal 173
                              snD+e+at +ar+mv+++Gms k+Gp++++++++ ++f+  ++  + ++se+ta+eidee++++ve++y++a +il+++r+ l++l
  PHY93_01260|PHY93_01260 494 SNDIERATGLARNMVCKWGMSVKMGPINYNKSST-SPFS--GMGDNTDYSEKTAQEIDEEINRIVEKNYKQAINILKSNRDGLDRL 576
                              *******************************998.6787..688999*************************************** PP

                              HHHHHHHSEE-HHHHHHH CS
            Peptidase_M41 174 aeaLlekEtldaeeieel 191
                              a+aL+  Et+d ++++++
  PHY93_01260|PHY93_01260 577 AKALMAWETIDFQQVKDV 594
                              *************99875 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  153.7   0.0   3.6e-48   3.4e-45       1     130 [.     194     325 ..     194     327 .. 0.97
   2 ?   -1.9   0.0       4.6   4.3e+03      88     121 ..     546     582 ..     531     591 .. 0.57

  Alignments for each domain:
  == domain 1  score: 153.7 bits;  conditional E-value: 3.6e-48
                              EEEESSTTSSHHHHHHHHHHHHTHEEEEEETTTCSSSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGHHHHH...TTCCCHHHH CS
                      AAA   1 vllyGppGtGKTllakavakelgvefleisgsellskyvgesekkirelfkeakekakpsilfiDEidalaksr...sgseseeee 83 
                              v+l+GppGtGKTlla+ava e++v+f++isgs++++++vg +++++r+lf++ k++a p+i+fiDEida++++r    g+ ++e+e
  PHY93_01260|PHY93_01260 194 VILVGPPGTGKTLLARAVAGEADVPFFSISGSDFVEMFVGVGASRVRDLFEQGKKHA-PCIIFIDEIDAVGRHRgqgMGGGHDERE 278
                              68******************************************************9.****************998889****** PP

                              HHHHHHHHHHHHTTTSSSTEEEEEEESSGGGSTHHHHS.TTSSEEEET CS
                      AAA  84 rvvnqLlteldgvkkkeskvivigatnrpdkldpallr.gRfdrkiei 130
                              +++nqLl e+dg++++e+ vi+i+atnr+d ldpallr gRfdr++ +
  PHY93_01260|PHY93_01260 279 QTLNQLLVEMDGFESNEG-VILIAATNRIDVLDPALLRpGRFDRRVMV 325
                              ***************866.*************************9977 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 4.6
                              HHHHHHHHTTTS.SSTEEEEEEESS..GGGSTHHHHS CS
                      AAA  88 qLlteldgvkkk.eskvivigatnr..pdkldpallr 121
                              ++ +e+++  +k  ++ i i+ +nr   d+l +al+ 
  PHY93_01260|PHY93_01260 546 EIDEEINRIVEKnYKQAINILKSNRdgLDRLAKALMA 582
                              4444444432222234677777777777777777774 PP

>> AAA_lid_3  AAA+ lid domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.8   0.0   1.9e-15   1.8e-12       1      44 [.     349     392 ..     349     393 .. 0.97

  Alignments for each domain:
  == domain 1  score: 46.8 bits;  conditional E-value: 1.9e-15
                AAA_lid_3   1 dvdlkeLAerTeGySGADlaalcreAallAlrrgikeitmedfe 44 
                              ++dl+ +A+ T+G++GADla+l++eAal+A r + k+++ edfe
  PHY93_01260|PHY93_01260 349 NIDLEVIAKGTPGFTGADLANLVNEAALNAARLNKKKLSNEDFE 392
                              79*****************************************8 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.0     2e-07   0.00018       1     135 [.     193     314 ..     193     316 .. 0.79

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 2e-07
                              EEEEE--SSSSHHHHHHHGGGGBS--EEEEE--TT--HHHHH--B--.........--------..G-SEEEEESGGG--HHHHHH CS
                    AAA_5   1 dvlLvGppGtgKselaerlaaalnreveyvqltrdtteedlkgrreikngttslvdsplvraar..egeilvlDEveraesevlns 84 
                              +v+LvGppGtgK+ la+ +a     +++ + ++++ +    +g  ++           l ++++   ++i+++DE++ + ++  + 
  PHY93_01260|PHY93_01260 193 GVILVGPPGTGKTLLARAVAGEADVPFFSISGSDFVEMFVGVGASRV---------RDLFEQGKkhAPCIIFIDEIDAVGRHRGQG 269
                              59******************************999877666666666.........777778887789999999999999888888 PP

                              HHHHHHSSEEE..-SSSEEE---......-EEEEEESS--.-TT-TTHHHH CS
                    AAA_5  85 Llslleerrllleeggelvkaknddllerfrviatanpldrslnelspalr 135
                              +    +er+  l+++  +++  +    e + +ia++n+ d     l+pal+
  PHY93_01260|PHY93_01260 270 MGGGHDEREQTLNQLLVEMDGFE--SNEGVILIAATNRID----VLDPALL 314
                              88888888888777766665433..234588888888888....7777776 PP

>> TIP49  TIP49 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.7   0.0   4.2e-07   0.00039      48      88 ..     190     227 ..     150     233 .. 0.78
   2 ?   -3.3   0.1       4.1   3.8e+03     250     274 ..     535     559 ..     530     564 .. 0.67

  Alignments for each domain:
  == domain 1  score: 19.7 bits;  conditional E-value: 4.2e-07
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                    TIP49  48 laGravLlaGpsgtGktalaiaiskelgedvpfvalsgsev 88 
                              +  ++v+l+Gp+gtGkt la a++ e  +dvpf ++sgs++
  PHY93_01260|PHY93_01260 190 IP-KGVILVGPPGTGKTLLARAVAGE--ADVPFFSISGSDF 227
                              33.79*******************98..57*********86 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 4.1
                              XXXXXXXXXXXXXXXXXXXXXXXXX CS
                    TIP49 250 kkteiteklreeinkkvakyveegk 274
                              ++t+  ek+ +ei++ +++ ve+  
  PHY93_01260|PHY93_01260 535 DNTDYSEKTAQEIDEEINRIVEKNY 559
                              5666777777777777777777654 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0   4.4e-06    0.0041      34      68 ..     192     226 ..     156     267 .. 0.69
   2 ?    0.6   0.0      0.43   4.1e+02       2      56 ..     315     374 ..     314     396 .. 0.69

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 4.4e-06
                   RuvB_N  34 dhvllyGpPGlGkttlakiiakelgvklkitsgPv 68 
                                v+l+GpPG Gkt la+ +a e +v + + sg  
  PHY93_01260|PHY93_01260 192 KGVILVGPPGTGKTLLARAVAGEADVPFFSISGSD 226
                              5699**********************998888753 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.43
                   RuvB_N   2 rPkslee..yigqekvkeklkifieaakkr..eeald.hvllyGpPGlGkttlakiiake 56 
                              rP +++    +g  +v+ +l i+   +kk   e+++d  v+  G PG+  + la+++ + 
  PHY93_01260|PHY93_01260 315 RPGRFDRrvMVGAPDVRGRLGILKVHTKKTplEDNIDlEVIAKGTPGFTGADLANLVNEA 374
                              5655554225677888888877544443322255666468889***********999764 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0   2.3e-05     0.022       8      30 ..     194     216 ..     191     245 .. 0.82
   2 ?    3.1   0.0      0.11     1e+02      84     113 ..     244     285 ..     233     309 .. 0.57

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 2.3e-05
                   AAA_22   8 lvvtGesGtGKTtllrrlleqld 30 
                              ++++G++GtGKT+l+r ++ ++d
  PHY93_01260|PHY93_01260 194 VILVGPPGTGKTLLARAVAGEAD 216
                              589**************998875 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.11
                   AAA_22  84 qalraravielliiDEaqhlr..s...........eealeeLr 113
                              ++ +++a + ++ iDE++ +   +           e+ l++L 
  PHY93_01260|PHY93_01260 244 EQGKKHA-PCIIFIDEIDAVGrhRgqgmggghderEQTLNQLL 285
                              2333444.48*********976614456666666666777763 PP

>> FtsH_ext  FtsH Extracellular
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.1   5.3e-06     0.005       3      68 ..      10      67 ..       8      98 .. 0.75
   2 ?    1.0   0.0      0.58   5.4e+02       3      23 ..     114     131 ..     112     156 .. 0.67

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 5.3e-06
                 FtsH_ext  3 lwlllallllllllslfggsgtgstkeisyseFledleqgnvekvvvq.estisalirrptgdgvst 68
                             lw++++ll+ l++     +  +  +k i y +F++ ++++n+e+vv++  +ti+       g++ ++
  PHY93_01260|PHY93_01260 10 LWIVVILLMALVAKVA--TVDKVNHKFIKYPDFVKAVQEKNIEEVVFKgKDTIM-------GKFKAG 67
                             6777777777777766..78888*************************656666.......333333 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.58
                 FtsH_ext   3 lwlllallllllllslfggsg 23 
                               +++l++++++++l      +
  PHY93_01260|PHY93_01260 114 GPMILLIVIFYFFLR---QIQ 131
                              566677777776664...333 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.2   7.9e-06    0.0075      24      48 ..     189     215 ..     167     245 .. 0.74
   2 ?    1.0   0.0      0.53     5e+02     125     147 ..     241     262 ..     234     290 .. 0.73

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 7.9e-06
                   AAA_16  24 p..elvllsGesGvGKsslvrellral 48 
                                   v+l+G++G+GK+ l+r+++ ++
  PHY93_01260|PHY93_01260 189 KipKGVILVGPPGTGKTLLARAVAGEA 215
                              14699****************998644 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.53
                   AAA_16 125 rllallsrderplvlvlDdlqwa 147
                              +l+++ ++ + p ++++D+++ +
  PHY93_01260|PHY93_01260 241 DLFEQGKK-HAPCIIFIDEIDAV 262
                              44555566.668*******9954 PP

>> AAA_2  AAA domain (Cdc48 subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.0      0.27   2.5e+02      13      56 ..     133     177 ..     125     186 .. 0.82
   2 !   14.2   0.0   3.7e-05     0.034       6      84 ..     194     268 ..     190     296 .. 0.73

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.27
                              TSSHHH.HHHHHHHHTT-....-EEEEEGGG---.----THHHHHH CS
                    AAA_2  13 gvGkte.lakalaellfvkkekkliradaselle.eeevehlvsrl 56 
                              g Gk +   k+ a++l+  +ekk++  d s ++e +ee+e++v+ l
  PHY93_01260|PHY93_01260 133 GGGKAMsFGKSRARMLS-PHEKKITFGDVSGVQEaKEELEEVVDFL 177
                              5677776789999***9.8***************889999998865 PP

  == domain 2  score: 14.2 bits;  conditional E-value: 3.7e-05
                              EEEE--TTSSHHHHHHHHHHHTT-....-EEEEEGGG-------THHHHHHHHHTTT-HHHHTTS.....EEEEETGGG----..- CS
                    AAA_2   6 illlgptgvGktelakalaellfvkkekkliradaselleeeevehlvsrligappgyvgaeegG.....ivllDEidKihpk..e 84 
                              ++l+gp g+Gkt+la+a+a   +v    ++  +  s++ e   +       +ga+     +e+g      i+++DEid + ++  +
  PHY93_01260|PHY93_01260 194 VILVGPPGTGKTLLARAVAGEADV----PFFSISGSDFVE---MFV----GVGASRVRDLFEQGKkhapcIIFIDEIDAVGRHrgQ 268
                              4567*******************8....************...333....44555555555555566669********99886441 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   1.3e-05     0.012      49      71 ..     193     215 ..     189     253 .. 0.89
   2 ?   -2.9   0.1         5   4.7e+03     124     148 ..     545     569 ..     536     571 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 1.3e-05
                IstB_IS21  49 nivllGpsGvGKshlaialgvea 71 
                              +++l+Gp+G+GK+ la a++ ea
  PHY93_01260|PHY93_01260 193 GVILVGPPGTGKTLLARAVAGEA 215
                              79****************99876 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 5
                IstB_IS21 124 qaeaellfeviekryerrsiiitsn 148
                              q+  e++ +++ek y+++  i+ sn
  PHY93_01260|PHY93_01260 545 QEIDEEINRIVEKNYKQAINILKSN 569
                              5556778899999999998888888 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   1.7e-05     0.016       2      30 ..     194     224 ..     194     283 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 1.7e-05
                   AAA_33   2 vllvGlpGsGKstlaerllkklg..avllss 30 
                              v+lvG+pG+GK+ la+ ++ + +  ++ +s 
  PHY93_01260|PHY93_01260 194 VILVGPPGTGKTLLARAVAGEADvpFFSISG 224
                              79****************9887765555555 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.2     5e-05     0.047      25      43 ..     194     212 ..     182     215 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 5e-05
             Mg_chelatase  25 lllvGppGsGKtmlakrlp 43 
                              ++lvGppG+GKt+la++++
  PHY93_01260|PHY93_01260 194 VILVGPPGTGKTLLARAVA 212
                              89*************9875 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00034      0.32       1      21 [.     194     214 ..     194     245 .. 0.84
   2 ?   -1.1   0.1       2.8   2.6e+03      47      69 ..     549     571 ..     536     596 .. 0.68

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00034
                   AAA_18   1 IlltGtpGvGKttlakeLskr 21 
                              ++l G+pG+GKt la++++ +
  PHY93_01260|PHY93_01260 194 VILVGPPGTGKTLLARAVAGE 214
                              79**************98755 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 2.8
                   AAA_18  47 deskrldedkldklldaleenss 69 
                              +e +r++e++ ++++++l+ n++
  PHY93_01260|PHY93_01260 549 EEINRIVEKNYKQAINILKSNRD 571
                              56777777777888888877765 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   0.00024      0.22      14      40 ..     189     215 ..     176     231 .. 0.82
   2 ?   -2.9   0.0       3.6   3.4e+03      70      98 ..     537     565 ..     534     567 .. 0.66

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00024
               Zeta_toxin  14 erPklillgGqpGAGKselaellkdel 40 
                              + Pk ++l+G pG GK+ la++++ e 
  PHY93_01260|PHY93_01260 189 KIPKGVILVGPPGTGKTLLARAVAGEA 215
                              779*******************99886 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 3.6
               Zeta_toxin  70 kkaseltqkdaselvekllqeaiengyni 98 
                              +++se t +++ e  ++++++ +++ +ni
  PHY93_01260|PHY93_01260 537 TDYSEKTAQEIDEEINRIVEKNYKQAINI 565
                              56677777777777777777777776666 PP

>> PhoH  PhoH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.3   0.00023      0.21      22      40 ..     194     212 ..     182     216 .. 0.89
   2 ?   -0.1   0.1      0.57   5.4e+02     144     189 ..     548     592 ..     542     596 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00023
                              EEEE--TTSSTTHHHHHHH CS
                     PhoH  22 vfaiGpaGtGKtylavala 40 
                              v+ +Gp GtGKt+la a+a
  PHY93_01260|PHY93_01260 194 VILVGPPGTGKTLLARAVA 212
                              789************9998 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.57
                              -TT-EEEEEE--------.------THHHHHHTTT-TTEEEEE--GG CS
                     PhoH 144 GenskvvvtGdvtqidlp.kgkksGlaealevlknvegieivelkkk 189
                              +e+   +v  + +q  +  k++++Gl  + ++l  +e+i++ ++  k
  PHY93_01260|PHY93_01260 548 DEEINRIVEKNYKQAINIlKSNRDGLDRLAKALMAWETIDFQQV--K 592
                              5666677888888866664779****************999887..4 PP

>> AAA_17  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   0.00047      0.44       1      50 [.     197     247 ..     197     293 .. 0.81
   2 ?   -1.4   0.0       3.1   2.9e+03      40      67 ..     534     561 ..     528     592 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00047
                              EE-TTSSHHHHHHHHHHHHTEEEEEH.HHHHHHHHHTTTSHSSHHHHCTSH CS
                   AAA_17   1 lGgPGsGKgtqceklvekygfthlsa.Gdllreeakrgglakardemrklp 50 
                              +G+PG GK+ +++ ++ + +++++s  G+ + e+    g+++ rd +++++
  PHY93_01260|PHY93_01260 197 VGPPGTGKTLLARAVAGEADVPFFSIsGSDFVEMFVGVGASRVRDLFEQGK 247
                              7******************99999875666667777777666666666555 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 3.1
                              HSSHHHHCTSHHHHHHHHHHHHHHHHHH CS
                   AAA_17  40 akardemrklpleekkelqkeaaekiae 67 
                              +++ d+ +k  +e+++e+ ++++++ ++
  PHY93_01260|PHY93_01260 534 GDNTDYSEKTAQEIDEEINRIVEKNYKQ 561
                              5566777777777777777777766554 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00027      0.25       2      26 ..     194     219 ..     193     248 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00027
                   AAA_28   2 ivitGgestGKTtlleaLa.argypv 26 
                              ++++G+++tGKT l++a a + ++p 
  PHY93_01260|PHY93_01260 194 VILVGPPGTGKTLLARAVAgEADVPF 219
                              799**************994335555 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   0.00038      0.36       5      76 ..     194     262 ..     191     303 .. 0.68

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00038
                   AAA_14   5 lvitGaRrvGKTtllkqlikellvkkesilyinldderdkkla...dpekllelileklkeekktylflDEiqev 76 
                              ++++G+  +GKT l++ ++ e       + ++++   ++ ++      +++ +l+ +  k++   ++f+DEi  v
  PHY93_01260|PHY93_01260 194 VILVGPPGTGKTLLARAVAGEAD-----VPFFSISGSDFVEMFvgvGASRVRDLFEQG-KKHAPCIIFIDEIDAV 262
                              899***************98877.....444444444443333111122455555554.4447899******988 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (631 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       919  (0.0512577); expected 358.6 (0.02)
Passed bias filter:                      816  (0.0455129); expected 358.6 (0.02)
Passed Vit filter:                       114  (0.00635841); expected 17.9 (0.001)
Passed Fwd filter:                        19  (0.00105974); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              19  [number of targets reported over threshold]
# CPU time: 0.74u 0.29s 00:00:01.03 Elapsed: 00:00:00.43
# Mc/sec: 4414.00
//
Query:       PHY93_01265|PHY93_01265  [L=433]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.7e-41  140.9   0.1    8.1e-41  139.8   0.1    1.6  1  ATP_bind_3     PP-loop family
     0.0027   16.6   0.1      0.031   13.1   0.1    2.3  2  tRNA_Me_trans  tRNA methyl transferase
     0.0034   16.9   0.0       0.04   13.4   0.1    2.3  2  QueC           Queuosine biosynthesis protein QueC
  ------ inclusion threshold ------
       0.15   11.2   0.0       0.27   10.3   0.0    1.4  1  NAD_synthase   NAD synthase


Domain annotation for each model (and alignments):
>> ATP_bind_3  PP-loop family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  139.8   0.1   1.8e-44   8.1e-41       2     181 ..      31     200 ..      30     201 .. 0.96

  Alignments for each domain:
  == domain 1  score: 139.8 bits;  conditional E-value: 1.8e-44
                              EEEE--SCHHHHHHHHHHHHHCTTTTTEEEEEEEE-SSSTCHHHHHHHHHHHHHHTT-EEEEEE--HHHCTTSTCCCHHHHHHHHH CS
               ATP_bind_3   2 vlvAvSgGlDSmaLllllaklkkklgiklvaihvdhglreeskeeaelvkelckklnikleiekvdvakkkgknleeaARelRYev 87 
                              vlvAvSgG+DS+aL+++la+  k    +l+++h++hg+r e  +e++lv + ck l++++ i k++++ + ++n+e+ AR+lR ev
  PHY93_01265|PHY93_01265  31 VLVAVSGGVDSIALMYVLADIFK---GQLRVLHINHGTRVENIDEENLVIKHCKILGLEVDIVKFTLNLD-QNNFEAVARNLRAEV 112
                              89******************955...69**************************************8765.9************** PP

                              HHHCHHCCT.CEEE---BHHHHHHHHHHHHCCT--CCHHH-S-SEEEETTCCEE-CCCT--HHHHHHHHHHTT---B--CGGGCTT CS
               ATP_bind_3  88 lkealkkegievlllAhhadDqaEtfllrlargsglaglagikeaseiasirlvRPlLkvskeeleeylkekkikwveDesNadek 173
                               k++++k+    + +Ahh dD +E+ +++ +++s+la+ +gi+  +      lvRP++  sk+++++y+k  +++w+eD+sN+d++
  PHY93_01265|PHY93_01265 113 YKQYIQKN--YWVHTAHHLDDSFEWSMIQSFKQSSLASTLGIPVFN----RGLVRPFMCASKNQIRAYAKSLGLTWAEDSSNRDTR 192
                              *****999..899******************************988....99********************************** PP

                              SHHHHHHH CS
               ATP_bind_3 174 yeRnriRk 181
                              +eRn++R+
  PHY93_01265|PHY93_01265 193 FERNFFRA 200
                              *******7 PP

>> tRNA_Me_trans  tRNA methyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.1   0.1   6.9e-06     0.031       2      77 ..      30     124 ..      29     135 .. 0.66
   2 ?    0.7   0.0     0.041   1.8e+02     166     194 ..     161     189 ..     156     223 .. 0.80

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 6.9e-06
            tRNA_Me_trans   2 kvvvalSgGVDSsvaaallkeqgyevigvflklwee....edeeg...............keccaeedlkdaervaeklgiplevv 68 
                               v+va+SgGVDS    ++l++ ++   +v   ++ +     dee+                + + + d ++ e+va++l  ++++ 
  PHY93_01265|PHY93_01265  30 SVLVAVSGGVDSIALMYVLADIFKGQLRVLHINHGTrvenIDEENlvikhckilglevdiVKFTLNLDQNNFEAVARNLRAEVYKQ 115
                              79***********9999999998777776655555423333333355555555555555555566667777777777777777777 PP

            tRNA_Me_trans  69 dfekeykek 77 
                               ++k+y+ +
  PHY93_01265|PHY93_01265 116 YIQKNYWVH 124
                              777777766 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.041
            tRNA_Me_trans 166 fPlgeltKeevrkiAkeaglavaekkdSq 194
                               P  +  K+++r+ Ak+ gl+ ae    +
  PHY93_01265|PHY93_01265 161 RPFMCASKNQIRAYAKSLGLTWAEDSSNR 189
                              5888999*************998866555 PP

>> QueC  Queuosine biosynthesis protein QueC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.4   0.1   8.9e-06      0.04       2      62 ..      31      93 ..      30     129 .. 0.74
   2 ?    0.8   0.0     0.065   2.9e+02     155     179 ..     160     184 ..     135     190 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 8.9e-06
                             EEEE--SSHHHHHHHHHHHHH-S.EEEEEEEESS-T..TSHHHHHHHHHHHHT--.-EEEEE-G CS
                     QueC  2 avvllSGGlDSttvlalakkegk.evealtfdYgqr..hkkeleaakkiakelgveehkildld 62
                             ++v +SGG+DS +++++  + +k ++ +l+++ g r  +  e + + k +k lg+ e  i++ +
  PHY93_01265|PHY93_01265 31 VLVAVSGGVDSIALMYVLADIFKgQLRVLHINHGTRveNIDEENLVIKHCKILGL-EVDIVKFT 93
                             6899************99999964899*********7333566778888888888.77776655 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.065
                              E-TTTT--HHHHHHHHHHTTHHHHH CS
                     QueC 155 eaPlidlsKaeivklgkelgvplee 179
                              + P++  sK++i + +k+lg+++ e
  PHY93_01265|PHY93_01265 160 VRPFMCASKNQIRAYAKSLGLTWAE 184
                              67******************87765 PP

>> NAD_synthase  NAD synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0   6.1e-05      0.27      13      87 ..      22      95 ..      11     128 .. 0.63

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 6.1e-05
                             HHHCTT.SEEEEEE-SSHHHHHHHHHHHHHH.TCGEEEEEE--SSSTTHHHHHHHHHHHHHHTSEEEE---HHHHHH CS
             NAD_synthase 13 vkkaga.kgvvlGlSGGvDSslvaalavkal.gkenvlalllPssvsseedvedalalaenlgievktidikpivra 87
                             ++  ++ k+v++ +SGGvDS    ++  +++ g+ +vl +   + v++ ++ +  ++ ++ lg+e   +di + +  
  PHY93_01265|PHY93_01265 22 MQLINFdKSVLVAVSGGVDSIALMYVLADIFkGQLRVLHINHGTRVENIDEENLVIKHCKILGLE---VDIVKFTLN 95
                             556677588999********877777777773666666665555555555555555555555555...444444433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (433 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       464  (0.0258799); expected 358.6 (0.02)
Passed bias filter:                      309  (0.0172346); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 3138.61
//
Query:       PHY93_01275|PHY93_01275  [L=94]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.4e-07   30.6   2.9    4.4e-07   29.8   2.9    1.5  1  Kazal_1   Kazal-type serine protease inhibitor domain
    9.6e-07   28.8   4.2    1.7e-06   28.0   4.2    1.5  1  Kazal_2   Kazal-type serine protease inhibitor domain


Domain annotation for each model (and alignments):
>> Kazal_1  Kazal-type serine protease inhibitor domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.8   2.9   4.9e-11   4.4e-07       7      35 ..      53      84 ..      41      92 .. 0.78

  Alignments for each domain:
  == domain 1  score: 29.8 bits;  conditional E-value: 4.9e-11
                             T..S-TSSS--EEETTSEEESSHHHH.HHHHH CS
                  Kazal_1  7 k..aCpreyepvCGtDgkTYsneCll.Caeng 35
                             k  +C + + pvCG +gkTYsn+C+  Ca  +
  PHY93_01275|PHY93_01275 53 KkcICVQLWMPVCGENGKTYSNSCFAkCAGVK 84
                             145899******************98887665 PP

>> Kazal_2  Kazal-type serine protease inhibitor domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.0   4.2   1.9e-10   1.7e-06       3      34 ..      54      81 ..      52      90 .. 0.81

  Alignments for each domain:
  == domain 1  score: 28.0 bits;  conditional E-value: 1.9e-10
                             CCGCCT-----EEETTTEEESSHHHHHHHCCC CS
                  Kazal_2  3 eckCpeleydpVCGsDgktYtseCkLqaagCl 34
                             +c+C    + pVCG++gktY++ C   +a+C 
  PHY93_01275|PHY93_01275 54 KCICV-QLWMPVCGENGKTYSNSC---FAKCA 81
                             68888.78889*************...9**93 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (94 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       450  (0.025099); expected 358.6 (0.02)
Passed bias filter:                      230  (0.0128284); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.40u 0.22s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 718.82
//
Query:       PHY93_16895|PHY93_16895  [L=282]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (282 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       488  (0.0272185); expected 358.6 (0.02)
Passed bias filter:                      370  (0.020637); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.18s 00:00:00.62 Elapsed: 00:00:00.35
# Mc/sec: 2398.50
//
Query:       PHY93_01280|PHY93_01280  [L=340]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.5e-07   29.2   0.0    1.1e-06   28.5   0.0    1.3  1  DAO       FAD dependent oxidoreductase
  ------ inclusion threshold ------
      0.051   13.7   2.1       0.11   12.6   2.1    1.5  1  RPN5_C    26S proteasome regulatory subunit RPN5 C-terminal d
      0.065   14.0   0.2       0.24   12.1   0.1    2.0  2  RecG_N    RecG N-terminal helical domain


Domain annotation for each model (and alignments):
>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.5   0.0   1.9e-10   1.1e-06       1     349 [.       4     336 ..       4     339 .. 0.66

  Alignments for each domain:
  == domain 1  score: 28.5 bits;  conditional E-value: 1.9e-10
                              EEEEECTSHHHHHHHHHH......HHTT...EEEEESSSSTTSSGGGSSEEEEESSSSTHHSTHHHHHHHHHHHHHHHHHHHHHSS CS
                      DAO   1 dvviiGGGiiGlstAyeL......arrg...VtllekgdiagsgaSgrnsgllhsglrylpeaselarlslealeelreleeelgi 77 
                              d++++G Gi+  +  +eL       +r    V+ + +++ia+  +S r+++ ++ +  ++   s+l    +e++ +++++++++++
  PHY93_01280|PHY93_01280   4 DLIVVGNGIAAQTFLFELftkldvKKRQnfsVAQIYSEEIAA-SCSLRTTATVSLSGIEKG-VSDLGNELRESFFLFEDFQKNHNP 87 
                              789999999999999999766664333369999999996777.999999999977553222.224555566777777999999997 PP

                              TTSEEEEEEEEEESSHHHHHHHHHHHHHHHHTTTTEEEEEHHHHHHHSTTSTTTSEEEEETTEEEEEHHHHHHHHHHHHHHTT-EE CS
                      DAO  78 didyrrtGllslaadeeelealdkllallleagldaelldaeevrelepalpgllgalfypdtgqvdpakltaalaraaealGvei 163
                               i++++   ++ ++++++++++ +++++l++  + ++l+ +e   e+e           + ++  v p+ + +++ +++   G+  
  PHY93_01280|PHY93_01280  88 -IGVEKISQIVGFSSPKDRAKMIRRYKELKK--V-NHLILKE---EMEG---------TELNSYLVKPHLYHRWFNEQLSPYGIVP 157
                              .999999999998888777777677777643..2.3454444...4553.........2333355566666666666666666655 PP

                              EESECEEEEEEEETCEEEEE...EECTEEEEEEEEEEE--GGGHHHH.HTTCTTTSEEEEEEEEEEEEEECCTHSTGSGCSEEEEE CS
                      DAO 164 legtevtgleeedgkvwgve...rttpgendaadavVnaaGawsdll.gllkeldlpispvrgqvlvlkplseklvspaailpvpe 245
                               ++   +++ +++g++ + e   r   ++++  +++V+++Ga+++l+ + ++e     + ++ ++ v     ++  s ++  p + 
  PHY93_01280|PHY93_01280 158 KKN-FLKKITKNNGGIIECEllsR---EIIK-TKKIVLCTGAYAKLFsEFCGET----EFLKNTYTVA-GSFLER-SINLFRPSFY 232
                              555.55555444444444433222...4433.478*********9873333434....7788888888.444433.3335555554 PP

                              EEETTTTEEEEEETTSEEEEEESSEEETTCSSTSCSHHHHHHHHHHHHHHSGG.GCGEEE.EEE.EEEEE.TTSSEEEEEEETEEE CS
                      DAO 246 tdddgrgvyvtprkdgrvlvGgtadeesgdddpevdeedidellealrklfPq.lgdvlr.kwa.Glrpl.pdglpligetpgvkg 327
                               + d++ ++++   ++++++G+      +d+   +d   ++e+l +  + +   +gd++  k + Glr +   + p+       k+
  PHY93_01280|PHY93_01280 233 LTIDDHNLIYRSN-EQQLILGSAS---MNDGIIMADHIILAEILAKFTQQCNFsIGDLSDfKIVtGLRHKgAKRRPIARALDLEKN 314
                              5554555455554.5779999853...44444777777777777777777744469999555555****7578899999966789* PP

                              EEEEEECTTTHHHHHHHHHHHH CS
                      DAO 328 lylatGhsghGltlapatGkll 349
                              +++  G + +G+t++ +++k +
  PHY93_01280|PHY93_01280 315 IFMINGLYKNGYTFSHLCAKKV 336
                              *******************965 PP

>> RPN5_C  26S proteasome regulatory subunit RPN5 C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   2.1   1.9e-05      0.11      17      30 ..     114     127 ..     113     127 .. 0.92

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 1.9e-05
                   RPN5_C  17 lvekttHLInKEeM 30 
                              +++k++HLI KEeM
  PHY93_01280|PHY93_01280 114 ELKKVNHLILKEEM 127
                              589**********9 PP

>> RecG_N  RecG N-terminal helical domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.1     4e-05      0.24      21      83 ..      62     124 ..      53     126 .. 0.93
   2 ?   -3.2   0.0       2.5   1.5e+04       4      21 ..     207     224 ..     206     233 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 4e-05
                              T........HHHHHHH---GGGG-HHHH.HHHHHHHHHHTTSSSS-HHHHHHHHHHHHHHHHH CS
                   RecG_N  21 leteelieeikkkleliddplleneevlkeklskfldYikpiasLpeeRkikRlknglemiek 83 
                              + +++l +e+++ + l +d  ++++++  ek+s+++++ +p +  +  R+ k lk++  +i k
  PHY93_01280|PHY93_01280  62 KGVSDLGNELRESFFLFEDFQKNHNPIGVEKISQIVGFSSPKDRAKMIRRYKELKKVNHLILK 124
                              66889****************************************************999965 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 2.5
                              HHHHHHHHHHTS---TTT CS
                   RecG_N   4 eFLeelekllkkvlsgkl 21 
                              eFL + ++++ ++l+ + 
  PHY93_01280|PHY93_01280 207 EFLKNTYTVAGSFLERSI 224
                              788888888888877654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (340 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       389  (0.0216967); expected 358.6 (0.02)
Passed bias filter:                      315  (0.0175693); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.40
# Mc/sec: 2520.75
//
Query:       PHY93_01285|PHY93_01285  [L=771]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    7.2e-52  175.7   3.2    1.3e-51  174.9   3.2    1.4  1  Tex_N          Tex-like protein N-terminal domain
    1.2e-45  155.0   0.1    2.7e-45  153.9   0.1    1.6  1  Tex_YqgF       Tex protein YqgF-like domain
      6e-27   93.7   0.0    2.4e-26   91.8   0.0    2.2  1  HHH_3          Helix-hairpin-helix motif
    4.6e-19   68.5   0.0    1.2e-18   67.2   0.0    1.8  1  S1             S1 RNA binding domain
    7.4e-17   62.0   0.2    3.8e-16   59.7   0.0    2.4  1  HHH_9          HHH domain
    2.4e-10   40.7   0.0    5.4e-10   39.5   0.0    1.5  1  HHH_7          Helix-hairpin-helix motif
    3.7e-09   36.5   0.0    8.1e-09   35.4   0.0    1.6  1  YqgF           Holliday-junction resolvase-like of SPT6
    0.00047   19.7   0.0    0.00084   18.8   0.0    1.3  1  T2SSK          Type II secretion system (T2SS), protein K
  ------ inclusion threshold ------
      0.013   15.5   0.0      0.035   14.0   0.0    1.7  1  CsrA           Global regulator protein family
      0.028   14.9   0.2        1.7    9.1   0.0    3.0  2  HTH_44         Helix-turn-helix DNA-binding domain of SPT6
      0.084   12.0   0.1       0.15   11.2   0.1    1.4  1  DUF1464        Protein of unknown function (DUF1464)
       0.11   12.4   0.6       0.58   10.0   0.1    2.2  2  RuvC           Crossover junction endodeoxyribonuclease RuvC
       0.16   12.0   0.0       0.36   10.8   0.0    1.6  1  RNase_II_C_S1  RNase II-type exonuclease C-terminal S1 domain


Domain annotation for each model (and alignments):
>> Tex_N  Tex-like protein N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  174.9   3.2   9.4e-55   1.3e-51       2     181 ..      12     198 ..      11     199 .. 0.92

  Alignments for each domain:
  == domain 1  score: 174.9 bits;  conditional E-value: 9.4e-55
                    Tex_N   2 aeelslkekqveavveLl.degatvPFIARYRkeatggldeeqlreieerleylrelekrkeevlksieeqgklteeLkkkieaak 86 
                              a+e+++++++v +v++Ll  e++tvPF+ARYRke+tgg+de+q+r+i+e+++++ e ekr+e +l+++++ + lt++L+kki+aa+
  PHY93_01285|PHY93_01285  12 AQETNINARSVLSVLNLLiTEQSTVPFVARYRKEVTGGMDEVQIRAIHESYDNYIEREKRREFILDAVKKMELLTPDLEKKIKAAD 97 
                              799************986379***************************************************************** PP

                    Tex_N  87 tleeledlylpYkpkrkTkatiArekGLeplAelileqk...sl.aeeeaakyvn..kevksaeealegardIiaeeisedaelrk 166
                              t+++ledly+p+k k+k+k + A+e+GL+plA++il ++   ++ ++e   k+ n   ++++ eea +ga dIi+e++++d+e+++
  PHY93_01285|PHY93_01285  98 TINQLEDLYAPFKAKKKSKGMLAIEAGLQPLADVILVTPktkQQlKDEYGDKFNNpeLKITTFEEAYAGAFDIIIEMMAHDPETKE 183
                              ************************************98854322233444555449999*************************** PP

                    Tex_N 167 klrellkkegvivsk 181
                               lr+ ++k++v++s+
  PHY93_01285|PHY93_01285 184 ILRKDYWKDAVVKST 198
                              **********99986 PP

>> Tex_YqgF  Tex protein YqgF-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  153.9   0.1   1.9e-48   2.7e-45       1     126 []     330     456 ..     330     456 .. 0.98

  Alignments for each domain:
  == domain 1  score: 153.9 bits;  conditional E-value: 1.9e-48
                              .-EEEEE--STT-EEEEEE-TTS-EEEEEEE--STTT--HHHHHHHHHHHHHHTT--EEEEESSTTHHHHHHHHHHHHHH.GGG-- CS
                 Tex_YqgF   1 kvvlglDPgyrtGcKlavvdetgkvletaviyphepkkkveeakkklkklvkkykveliaiGnGtasreteklvaelike.eelkv 85 
                              k v+g+DPg+rtGcK+++vd+tgk+l+  viyphep+ +v+e+++ l+++++++kve iaiG Gt +ret +++++ +k+ +e +v
  PHY93_01285|PHY93_01285 330 KSVIGVDPGVRTGCKIVIVDNTGKFLADCVIYPHEPRMQVRESAAILDAIIEQFKVEHIAIGSGTYGRETLTFIQQNVKKvKEGSV 415
                              579***************************************************************************9966679* PP

                              EEEEE--TTHHHHHHSHHHHHH-TTS-HHHHHHHHHHHHHH CS
                 Tex_YqgF  86 kyvivsEaGaSvYSaselaaeEfpdldvslrgavsiarrlq 126
                              +++++sEaGaSvYSas++a++Efpd d ++rg++siarr+q
  PHY93_01285|PHY93_01285 416 NATLISEAGASVYSASDIARAEFPDKDPTVRGSISIARRFQ 456
                              ***************************************98 PP

>> HHH_3  Helix-hairpin-helix motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   91.8   0.0   1.8e-29   2.4e-26       1      65 []     496     560 ..     496     560 .. 0.99

  Alignments for each domain:
  == domain 1  score: 91.8 bits;  conditional E-value: 1.8e-29
                    HHH_3   1 vnavgvdiNtAsaeeLqklpGlgpklAknIvayReknGpfksreeLlkvkglgpktfeqlagflr 65 
                              vn vgvd+NtAsa++L++++G+gp+lA+n+++yRe+nG+fk+r e lkv+++++k feq+agflr
  PHY93_01285|PHY93_01285 496 VNFVGVDLNTASAPLLAYVSGIGPTLAQNVIKYREQNGGFKNRTEILKVPRFSAKIFEQAAGFLR 560
                              799************************************************************97 PP

>> S1  S1 RNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.2   0.0   8.6e-22   1.2e-18       3      74 ..     654     724 ..     652     725 .. 0.96

  Alignments for each domain:
  == domain 1  score: 67.2 bits;  conditional E-value: 8.6e-22
                              TTTCEEEEEEEEEETTEEEEEETTTEEEEEEGGGSSSSCEESCHHHCEETTEEEEEEEEEEETTTTEEEEEE CS
                       S1   3 ekgevveGeVtsvtkgGafVelgngvegfvpaselsrdarvedpdevlkvGdevkvkvlkvdkdrrriilsi 74 
                              ++ge + G Vt++t++GafV++g +  g++++s++s+   ve+  + lkvG+e+kv+vl++d+dr+ri+l+ 
  PHY93_01285|PHY93_01285 654 KIGEWYPGLVTNITQFGAFVDIGIKENGLLHVSQISDT-FVENAMTALKVGQEIKVQVLEIDYDRGRISLTA 724
                              7899*********************************9.******************************986 PP

>> HHH_9  HHH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.7   0.0   2.7e-19   3.8e-16       1      70 []     566     635 ..     566     635 .. 0.98

  Alignments for each domain:
  == domain 1  score: 59.7 bits;  conditional E-value: 2.7e-19
                    HHH_9   1 npLDnTavHPEsYalakkllkklgldlkeligeeallkkldkkklaeeevgeptleDIleeLakPgrDpR 70 
                              +pLD T +HPE Y++   ++ k+  +lk+li++++l+ kl+k++  ++evge t++DI+++L++P +DpR
  PHY93_01285|PHY93_01285 566 EPLDGTFIHPERYEVLSSWARKNATQLKDLITNKDLIMKLEKDHDFKAEVGEFTFNDIVKSLKAPSQDPR 635
                              7****************************************9999999*********************9 PP

>> HHH_7  Helix-hairpin-helix motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.5   0.0     4e-13   5.4e-10       5     103 ..     469     561 ..     466     562 .. 0.92

  Alignments for each domain:
  == domain 1  score: 39.5 bits;  conditional E-value: 4e-13
                              TS---TTGGGS-HHHHHHHHHHHHHHHHHHH-EEHHHHCT-HHHHGGGGGSTT--HHHHHHHHHHHHHC-S----TTHHHHTTSS- CS
                    HHH_7   5 slsfhPlqellskeellkaletalvdivnlvgvdvnkavankyeaallkyiaGlGprkatdllkklkrlnerlearsqlitkqils 90 
                              s+ +  +q+ + + +l k le  +   vn vgvd+n a     +a ll y++G+Gp  a++++k   ++n+ +++r++++    +s
  PHY93_01285|PHY93_01285 469 SIGVGQYQHDVNQARLKKSLEGVVESCVNFVGVDLNTA-----SAPLLAYVSGIGPTLAQNVIKYR-EQNGGFKNRTEILKVPRFS 548
                              5666789*****************************99.....689*****************975.567789************* PP

                              HHHHHHHCCCEE- CS
                    HHH_7  91 kkvflncagflki 103
                               k+f  +agfl i
  PHY93_01285|PHY93_01285 549 AKIFEQAAGFLRI 561
                              ***********98 PP

>> YqgF  Holliday-junction resolvase-like of SPT6
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.4   0.0   5.9e-12   8.1e-09      24     147 ..     346     463 ..     332     466 .. 0.86

  Alignments for each domain:
  == domain 1  score: 35.4 bits;  conditional E-value: 5.9e-12
                              EEE-TTS-EEEEEEE-S-TT-SS-SHHHHHHHHHHHHHH--SEEEE--SSTHHHHHHHHHHHHHHHTTB-TTS-B--EEE---TTH CS
                     YqgF  24 vlvngeGevvdslklaareedrekkakfvetlkkfllskkPdvigvsGenrdaqkliedvkevlhekeqdsrlstvgvilvddeva 109
                              v+v++ G ++ +  +   +e r +  + +  l+ ++++ k + i++ G  +  +  +  +++ +++ +      +v+  l+ +  a
  PHY93_01285|PHY93_01285 346 VIVDNTGKFLADCVI-YPHEPRMQVRESAAILDAIIEQFKVEHIAI-GSGTYGRETLTFIQQNVKKVK----EGSVNATLISEAGA 425
                              789999999999988.667777888888889**************9.556666777778888888877....4679999******* PP

                              HHHHTSHHHHHHSTT--HHHHHHHHHHHHHH-HHHHHH CS
                     YqgF 110 ilYqnskkaeaefrdkPpllkyavalaRkiqdPLleya 147
                                Y  s+ a aef+dk p ++ ++++aR+ qdPL e  
  PHY93_01285|PHY93_01285 426 SVYSASDIARAEFPDKDPTVRGSISIARRFQDPLAELV 463
                              **********************************9976 PP

>> T2SSK  Type II secretion system (T2SS), protein K
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.0   6.1e-07   0.00084     184     233 ..     500     549 ..     495     560 .. 0.86

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 6.1e-07
                    T2SSK 184 kiNiNtasaevLaAlveglslsqaqrllaaRpea.gfrsvadflaasalsg 233
                               +++Ntasa++La  v+g+    aq++++ R+++ gf++  ++l+ + +s+
  PHY93_01285|PHY93_01285 500 GVDLNTASAPLLA-YVSGIGPTLAQNVIKYREQNgGFKNRTEILKVPRFSA 549
                              589*******995.6677*************8888*********9977665 PP

>> CsrA  Global regulator protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   2.6e-05     0.035      12      46 ..     700     734 ..     697     739 .. 0.92

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 2.6e-05
                              EEETTTEEEEEEEEETTEEEEEEE--TTS-EEEHH CS
                     CsrA  12 IvIgddIeitvlevegnqvrlgIeAPkevkIlReE 46 
                              +++g++I+++vle++ ++ r+ ++A k  ++ R+ 
  PHY93_01285|PHY93_01285 700 LKVGQEIKVQVLEIDYDRGRISLTAKKGEQVNRSN 734
                              6899************************9999986 PP

>> HTH_44  Helix-turn-helix DNA-binding domain of SPT6
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   0.0    0.0013       1.7      36      64 ..      19      47 ..       3      86 .. 0.85
   2 ?    2.3   0.0      0.16   2.2e+02      51      95 ..     568     613 ..     536     620 .. 0.78

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.0013
                             HHHHHHHHHHHHTS---HHHHHHH-GGGS CS
                   HTH_44 36 keavkkvleFlvkdelEvPfifqhRkdyl 64
                              ++v +vl+ l++++  vPf++ +Rk+  
  PHY93_01285|PHY93_01285 19 ARSVLSVLNLLITEQSTVPFVARYRKEVT 47
                             57899*********************975 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.16
                              --HHHHHHH-GGGSB-SSTTS-.....B--HHHHHHHHHHHHHHHH CS
                   HTH_44  51 lEvPfifqhRkdyllhaekeek.kaeklLneddLwriveldikfrs 95 
                              l   fi   R + l++  +++  + ++l++++dL   +e d +f++
  PHY93_01285|PHY93_01285 568 LDGTFIHPERYEVLSSWARKNAtQLKDLITNKDLIMKLEKDHDFKA 613
                              44569999*****99877766659999*******988888888875 PP

>> DUF1464  Protein of unknown function (DUF1464)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.1   0.00011      0.15       1      57 [.     334     396 ..     334     423 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00011
                  DUF1464   1 GiDPGtks.ydvvvvddlgkvvlekei....ptdevekdpsvlvkaieearadivalpSG.yG 57 
                              G+DPG ++  ++v vd++gk + +  i    p+ +v++++ +l ++ie+++++ +a+ SG yG
  PHY93_01285|PHY93_01285 334 GVDPGVRTgCKIVIVDNTGKFLADCVIyphePRMQVRESAAILDAIIEQFKVEHIAIGSGtYG 396
                              9****998579999***99976655443333999***********************999566 PP

>> RuvC  Crossover junction endodeoxyribonuclease RuvC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.1   0.00042      0.58       1      65 [.     332     392 ..     332     432 .. 0.76
   2 ?   -0.6   0.0      0.77   1.1e+03      68      90 ..     692     714 ..     681     746 .. 0.73

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.00042
                              EEEEE--SSE.EEEEEEEEETTEEEEEEEEEEE---S-HHHHHHHHHHHHHHHHHHH--SEEEEEE CS
                     RuvC   1 ilGiDPGsrk.tGygvieeagrklslltsgvirtksdplserlkavfdaveelldayepdalaieq 65 
                              ++G+DPG r+ +   +++++g+ l    ++++  + +p + ++++  + ++ ++++++++++ai +
  PHY93_01285|PHY93_01285 332 VIGVDPGVRTgCKIVIVDNTGKFL----ADCVIYPHEP-RMQVRESAAILDAIIEQFKVEHIAIGS 392
                              79*****98624555556666543....5787777765.4578899999**************964 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.77
                              ----HHHHHHHHHHHHHHHHHHH CS
                     RuvC  68 faknvdsvlklaqarGvvilaal 90 
                              f +n+ ++lk++q   v +l + 
  PHY93_01285|PHY93_01285 692 FVENAMTALKVGQEIKVQVLEID 714
                              457999*******9888777764 PP

>> RNase_II_C_S1  RNase II-type exonuclease C-terminal S1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   0.00026      0.36      18      57 ..     687     723 ..     684     725 .. 0.84

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00026
            RNase_II_C_S1  18 qladPaVeArveggaglplGervrVrLveADvatrrvrFe 57 
                              q++d  Ve  + +  +l++G+++ V++ e D +++r+ ++
  PHY93_01285|PHY93_01285 687 QISDTFVENAM-T--ALKVGQEIKVQVLEIDYDRGRISLT 723
                              56666677666.4..7*********************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (771 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       655  (0.036533); expected 358.6 (0.02)
Passed bias filter:                      489  (0.0272742); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.71u 0.21s 00:00:00.92 Elapsed: 00:00:00.40
# Mc/sec: 5821.55
//
Query:       PHY93_01290|PHY93_01290  [L=382]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.067   13.0   0.1       0.21   11.4   0.1    1.9  1  Adeno_E3_CR2  Adenovirus E3 region protein CR2


Domain annotation for each model (and alignments):
>> Adeno_E3_CR2  Adenovirus E3 region protein CR2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1   1.2e-05      0.21       4      19 ..     304     319 ..     303     322 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 1.2e-05
             Adeno_E3_CR2   4 stiaIivaVvvGlaiI 19 
                              s ++Ii++V++Gl+ +
  PHY93_01290|PHY93_01290 304 SFVSIIAGVLSGLVFL 319
                              78***********976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (382 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       768  (0.0428356); expected 358.6 (0.02)
Passed bias filter:                      338  (0.0188521); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.20s 00:00:00.65 Elapsed: 00:00:00.34
# Mc/sec: 3388.91
//
Query:       PHY93_01295|PHY93_01295  [L=708]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      2e-53  181.0   0.9    7.2e-53  179.1   0.0    2.2  2  3HCDH_N   3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
    1.6e-35  121.6   0.1    2.6e-26   92.0   0.0    3.4  3  3HCDH     3-hydroxyacyl-CoA dehydrogenase, C-terminal domain
    1.9e-35  122.4   0.1    6.3e-35  120.7   0.0    1.8  2  ECH_1     Enoyl-CoA hydratase/isomerase
    6.9e-24   84.9   0.0    1.5e-23   83.8   0.0    1.5  1  ECH_2     Enoyl-CoA hydratase/isomerase
  ------ inclusion threshold ------
       0.17   12.4   0.0       0.41   11.3   0.0    1.5  1  TNT       Tuberculosis necrotizing toxin


Domain annotation for each model (and alignments):
>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.3      0.43   1.5e+03     106     118 ..     123     135 ..     117     137 .. 0.81
   2 !  179.1   0.0     2e-56   7.2e-53       3     179 ..     315     491 ..     314     492 .. 0.99

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.43
                              TTSEEEE--SSS- CS
                  3HCDH_N 106 pdailasnTSsls 118
                               ++i+asn+S+ s
  PHY93_01295|PHY93_01295 123 CNTIIASNSSKTS 135
                              589*******876 PP

  == domain 2  score: 179.1 bits;  conditional E-value: 2e-56
                              EEE--SCCHHHHHHHHHHTT-EEEEE-S-HHHHHHHHHHHHHHHHCCTTTTSS-HHHHCCCHHCEEEES-HHHHHC-SEEEE-S-S CS
                  3HCDH_N   3 aviGaGtmGagiaavfasagleVvlvdiseealekalekieksleklvekgklkeeeveaalarisfttdleeavdadlviEavvE 88 
                              a +GaGtmG gia ++a ag++  + d + +al+ +l++ +++++ + +++k++ +e+e+    i+++ d++ ++++dlviEavvE
  PHY93_01295|PHY93_01295 315 AALGAGTMGGGIAWLMADAGMHPIMKDLTVDALNLGLKQSSQNFAGALKRKKISPDEFERKQRSITAQLDYSGFKKVDLVIEAVVE 400
                              569*********************************************************************************** PP

                              SHHHHHHHHHHHHCCS-TTSEEEE--SSS-HHHHCCCSSSGGGEEEEEE-SSTTT--EEEEEE-TT--HHHHHHHHHHHHHTT-EE CS
                  3HCDH_N  89 nlelKrkvfaelekiakpdailasnTSslsiselaealkrperviglHFfnPpplmkLvEvvrgekTseetvatvvelakkigktp 174
                               +++K+kvf e+ek +++d++l+snTSslsi+e+++al+ p r++glHFfnP++lm+LvE++ ++k ++etv+++++++ +++ktp
  PHY93_01295|PHY93_01295 401 IMDVKKKVFSEVEKNVHQDCLLTSNTSSLSIEEMSKALEYPGRFAGLHFFNPVHLMPLVEIIVHSKVDPETVEALYKWVLRVKKTP 486
                              ************************************************************************************** PP

                              EEECS CS
                  3HCDH_N 175 vvvkd 179
                              v vkd
  PHY93_01295|PHY93_01295 487 VIVKD 491
                              ***98 PP

>> 3HCDH  3-hydroxyacyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.0      0.35   1.3e+03      31      67 ..     236     272 ..     224     290 .. 0.83
   2 !   92.0   0.0   7.3e-30   2.6e-26       1      97 []     494     587 ..     494     587 .. 0.97
   3 !   24.5   0.0   8.4e-09     3e-05       6      84 ..     619     701 ..     617     706 .. 0.92

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 0.35
                              HHHHHHHHHSSCHHHHHHHHHHHHHHHHHHHHHHHTT CS
                    3HCDH  31 aamrlglGlpmGpfelldlvgldvakkilevlaeelg 67 
                              +++++  G+  +p+++ld+++ +++k  +++la+e +
  PHY93_01295|PHY93_01295 236 SVLKKTNGFYQAPLKILDVMDSGMMKGRTSYLAAEAQ 272
                              678888899999********99999999998777754 PP

  == domain 2  score: 92.0 bits;  conditional E-value: 7.3e-30
                              TTTHHHHHHHHHHHHHHHHHTTSS-HHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHHHHHHHTTTHGGHH-HHHHHHHHTT-- CS
                    3HCDH   1 GFvvnRvlapllneavrlveegvaspediDaamrlglGlpmGpfelldlvgldvakkilevlaeelgerayapsplleklveagrl 86 
                              GF vnR+l+p+lnea  l+eeg +s++d+D+a+ + +G+pmGp +lld+vg+dva k+++v++e+lgera+ ps++ + l+e++ l
  PHY93_01295|PHY93_01295 494 GFLVNRILMPYLNEAGYLIEEG-VSVKDLDQAALN-FGMPMGPCRLLDEVGIDVAVKVAKVMHEGLGERAH-PSKFSSILAEKKFL 576
                              9*********************.************.*********************************65.69************ PP

                              BGGGTBSSSBC CS
                    3HCDH  87 grktgkgfyky 97 
                              g+k+ kgfy y
  PHY93_01295|PHY93_01295 577 GKKSAKGFYLY 587
                              *********77 PP

  == domain 3  score: 24.5 bits;  conditional E-value: 8.4e-09
                              HHHHHHHHHHHHHHHTTSS.-HHHHHHHHHHHHHHS...SCHHHHHHHHHHHHHHHHHHHHHHHTTTHGGHH-HHHHHHHHTT CS
                    3HCDH   6 Rvlapllneavrlveegva.spediDaamrlglGlp...mGpfelldlvgldvakkilevlaeelgerayapsplleklveag 84 
                              R++ p++nea +++++g++ s+e++D  +  g+G+p    G ++ +d  gld  +++l+++ e+  +++y +s  le+lv ++
  PHY93_01295|PHY93_01295 619 RLFLPMINEAAAILKDGIVrSAEEVDLGLIFGIGFPpfrGGLLRYADSEGLDKILAALKHFSETVDKERYLASTYLEELVANK 701
                              99***************984699***********997767*********************9999999999999999999765 PP

>> ECH_1  Enoyl-CoA hydratase/isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  120.7   0.0   1.8e-38   6.3e-35      15     207 ..      25     217 ..      11     244 .. 0.84
   2 ?   -2.7   0.1      0.84     3e+03     175     227 ..     368     420 ..     363     430 .. 0.78

  Alignments for each domain:
  == domain 1  score: 120.7 bits;  conditional E-value: 1.8e-38
                              GCTTEE-HHHHHHHHHHHHHHHHS.TTECEEEEEE.BTSEEEEEB-HHHHHHHHC.HHHHHHHCCHHHHHHHHHHSSSEEEEEE-S CS
                    ECH_1  15 eavNalsaelltEliqalekledd.ksvravvLtG.gdkaFaaGadlkemaeeek.akqallkeevlelwtklytvpkpviaavnG 97 
                              + + al+ e+++El+   e+l +  +++ +++  +  ++ F aGad++ +    + a++a+ +e+ ++l++++ ++ +p++a v G
  PHY93_01295|PHY93_01295  25 KSMTALDIETMNELASIVEELHTKsNELIGAIFFShIENCFLAGADINLISSLVTeAEAADKSEQGQNLYNRIEDLSIPTVACVDG 110
                              67889*************999864134455555555************9999887799999************************* PP

                              EEETHHHHHHHHSSEEEEETTTE..EE-GGGGGTS--CTTCHHHHHHHHHHHHHHHHHHHT-EEEHHHHHHCTSSSEEESGGGHHH CS
                    ECH_1  98 aaigGGlelalacDiviaadnas..fglnelklGlipgaggtqilarkvGkskAeeilllgkkisaqealkvGlvdkvvpeeqlle 181
                               ++gGGlel lac  +ia+++++   gl+e+klG+ipg+ggt +l+rk+G   A  ++l+gk ++a+ a++ Glv +v  +e+ll+
  PHY93_01295|PHY93_01295 111 ICLGGGLELSLACNTIIASNSSKtsLGLPEVKLGIIPGFGGTYRLPRKIGLPNALDMILTGKTLRADKAKRLGLVTEVYHRENLLS 196
                              *******************9998889*********************************************************998 PP

                              HHHHHHHHHHHSCHHHHHHHHHHHHH CS
                    ECH_1 182 ealelaeklaekspaalrqlkealna 207
                               a +  +k       +  +lke+l++
  PHY93_01295|PHY93_01295 197 MAPKFFNKKE-----SHHTLKESLKE 217
                              8877766533.....33444444444 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 0.84
                              SGGGHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                    ECH_1 175 peeqlleealelaeklaekspaalrqlkealnakledalaeqleaeaklfest 227
                              + ++++++ +++ ++l  ++ + +  + ea+ + ++ +++  +e+e++++++ 
  PHY93_01295|PHY93_01295 368 SPDEFERKQRSITAQLDYSGFKKVDLVIEAVVEIMDVKKKVFSEVEKNVHQDC 420
                              45788999999999999888888888888888888877777778888777765 PP

>> ECH_2  Enoyl-CoA hydratase/isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   83.8   0.0   4.2e-27   1.5e-23       7     208 ..      22     224 ..      19     262 .. 0.85

  Alignments for each domain:
  == domain 1  score: 83.8 bits;  conditional E-value: 4.2e-27
                              --GGGTT-B-HHHHHHHHHHHHHHCC-TT..-SEEEEEESSSSECE--B--HHHHHHHHCS-THHHHHHHHHHHHHHHHHC-SS-E CS
                    ECH_2   7 nrpkalNaLslemvralkealkewekdde..vklvvlkgagekafCAGgDvralyeaakegkkeeeeffreeYklnyliatypkpv 90 
                              n  k++ aL+ e +++l+++++e +++++  + +++ + + e++f AG D++ + +  +e +++  +  ++  +l ++i++++ p+
  PHY93_01295|PHY93_01295  22 NSTKSMTALDIETMNELASIVEELHTKSNelIGAIFFS-HIENCFLAGADINLISSLVTEAEAA--DKSEQGQNLYNRIEDLSIPT 104
                              78899*****************9865544115666655.578************9999997644..68899999************ PP

                              EEEE-BEEETHHHHHHTTSSEEEE-T..T-EEE--GGGGT----TTHHHHHHCSST.THHHHHHHH---B-HHHHHHTTS--EE-- CS
                    ECH_2  91 valmdGivmGgGvGlsvhgsfrvvte..rtvfAmPEtaIGlfPDvGgsyfLsrlpg.elGlylalTGarlkgadalaaglathyvp 173
                              va +dGi++GgG+ ls+ ++  ++++  +t +  PE+++G++P  Gg+y L+r  g   +l + lTG++l++  a  +gl t + +
  PHY93_01295|PHY93_01295 105 VACVDGICLGGGLELSLACNTIIASNssKTSLGLPEVKLGIIPGFGGTYRLPRKIGlPNALDMILTGKTLRADKAKRLGLVTEVYH 190
                              ************************8722567889*******************76657788899********************** PP

                              GGGHHHHHHHHHTT........--------..... CS
                    ECH_2 174 seklealeeaLaelessdeeaveevleelaeeaee 208
                              +e+l +++ ++ + ++s +++++e l+ela+e   
  PHY93_01295|PHY93_01295 191 RENLLSMAPKFFNKKES-HHTLKESLKELATENFV 224
                              ***********996555.88888888888876554 PP

>> TNT  Tuberculosis necrotizing toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00011      0.41      16      72 ..     264     331 ..     253     347 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00011
                              -S-EEEGG---GGGT--GGGGG...........S-EEEEEE.----EEEEEB--BTTB----EEEEEE CS
                      TNT  16 GrflapagtpyeeRaLppsnln...........knyhvYevlkpleveaGeiapwfgqpGgGvqyelv 72 
                               ++la++ +++ e a+ ++++n           k+y+  + +kpl+v    +a   g  GgG+ + + 
  PHY93_01295|PHY93_01295 264 TSYLAAEAQAFGELAISEQSKNlqhiffmsesvKKYNGPKSTKPLPVLDRGAALGAGTMGGGIAWLMA 331
                              589***************************99999999999***********************9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (708 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       555  (0.0309554); expected 358.6 (0.02)
Passed bias filter:                      442  (0.0246528); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.61u 0.22s 00:00:00.83 Elapsed: 00:00:00.36
# Mc/sec: 5830.83
//
Query:       PHY93_01300|PHY93_01300  [L=429]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.4e-68  231.1   0.0    3.3e-68  229.9   0.0    1.6  2  Thiolase_N     Thiolase, N-terminal domain
    1.4e-43  147.4   0.3    5.9e-43  145.4   0.1    2.2  2  Thiolase_C     Thiolase, C-terminal domain
    1.1e-05   25.2   0.2    2.4e-05   24.1   0.2    1.5  1  ketoacyl-synt  Beta-ketoacyl synthase, N-terminal domain


Domain annotation for each model (and alignments):
>> Thiolase_N  Thiolase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  229.9   0.0   5.5e-72   3.3e-68       1     260 []       6     283 ..       6     283 .. 0.93
   2 ?   -1.9   0.0       0.3   1.8e+03     144     170 ..     338     364 ..     307     366 .. 0.69

  Alignments for each domain:
  == domain 1  score: 229.9 bits;  conditional E-value: 5.5e-72
                              EEEEEEEEE--EETTSTTTTS-HHHHHHHHHHHHHHHHTS-GGGCCEEEEEHSSCTTSTSCHHHHHHHHTTS-TTSEEEEEEHGGG CS
               Thiolase_N   1 vvivsaartpigkfggslkdlsaeeLlaealkallekagvdpeevdevivGnvlqagegqniarqaalkagipeevpavtvnkvcs 86 
                              v+iv+++rtp  k+g  lkd++a  L+a ++k+l+++++++++ vdevi+Gn  + ++  n+ar +al+ag+ +++ a  v + c+
  PHY93_01300|PHY93_01300   6 VYIVDGKRTPQAKSGLDLKDVQAPYLGAYLVKHLIDNTEIPTDMVDEVIFGNTGAPAKYPNVARVIALEAGLHKKTSAYSVHRNCA 91 
                              89************************************************************************************ PP

                              HHHHHHHHHHHHHHTTSHSEEEEEEEEESTTS-EEETCTTT.................TGGSSSSEEEEEHHHHH.HTEETTTTSE CS
               Thiolase_N  87 SglkavalaaqsiaageadvvvagGvEsmsnaptaestdvr.................sglklgdekakdllipd.gladafneeh 154
                              Sg++a  +a  +ia+g++d++vagGvE ms+ p  +++++                  + + +  +++  ++  + gl+d f +  
  PHY93_01300|PHY93_01300  92 SGMEAASQAFIKIASGRSDIIVAGGVECMSQMPLIYNKEMTalfaklmkakslgeklsALTAFRPNYLTPIVAVEqGLTDPFCGLN 177
                              ************************************999999************6554333334444444443336********** PP

                              HHHHHHHHHHHHT--HHHHHHHHHHHHHHHHHHHHTTTTTTTBE-EEEEESSSEEEE-S-TTS-TT--HHHHHTS-BSSSTT.SS- CS
               Thiolase_N 155 mGltaenlakkykisReeqdefAvkshqkaaaaqkagkFkdeivPvkvkgkkgkktvdkdeairsevtaekLaklkpaFkke.Gtv 239
                              mG ta+ la++ ki+Re+qd++A +sh ka+aa+k+g+Fkdei+P+++ g+ +k  + +d ++r+++t+e Lak++p F+k+ Gtv
  PHY93_01300|PHY93_01300 178 MGQTADLLARELKITREMQDAYANNSHMKAVAAIKEGRFKDEILPITIGGNLNK-LLINDVGPRENSTVEGLAKMRPYFDKKsGTV 262
                              *************************************************97755.8899*************************** PP

                              BTTSB--BEEEEEEEEEEEHH CS
               Thiolase_N 240 tAgnasqisDGaaavllmses 260
                              t gn+++++DG +a+l++se+
  PHY93_01300|PHY93_01300 263 TVGNSCPLTDGGSALLFVSED 283
                              ******************996 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 0.3
                              HHTEETTTTSEHHHHHHHHHHHHT--H CS
               Thiolase_N 144 dgladafneehmGltaenlakkykisR 170
                              ++ a +   + +Gl  + +a+k++++R
  PHY93_01300|PHY93_01300 338 EAFAAQILAVSIGLKDKAVAAKFNVDR 364
                              455556666778888889999999888 PP

>> Thiolase_C  Thiolase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0      0.37   2.2e+03      92     118 ..      72      98 ..      65     103 .. 0.77
   2 !  145.4   0.1   9.9e-47   5.9e-43       1     122 [.     290     427 ..     290     428 .. 0.97

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 0.37
                              HHHHHHHHCTTSEEEEEEEETTTEEEE CS
               Thiolase_C  92 tllselkkeggklgvaalCigggqgva 118
                              +l   l+k+ + ++v   C++g ++++
  PHY93_01300|PHY93_01300  72 ALEAGLHKKTSAYSVHRNCASGMEAAS 98 
                              5566789999999***99*99877765 PP

  == domain 2  score: 145.4 bits;  conditional E-value: 9.9e-47
                              ---SEEEEEEEEEE--GGGGGGHHHHHHHHHHHHHT--GGGESEEEE--SBHHHHHHHHHHHT--G................GGBS CS
               Thiolase_C   1 lkplakirsyaevgvdpeilglgPayaikkvlkkagltvedidlfEinEAFaaqaLavakaldldl................ekvN 70 
                              lkp+ak+++y   g +pe +g+gP  a+  v+k++glt++d dl+E+nEAFaaq+Lav   l+ ++                +kvN
  PHY93_01300|PHY93_01300 290 LKPMAKLTDYHFHGLEPERMGMGPLLAMDGVMKRTGLTLSDFDLLELNEAFAAQILAVSIGLKDKAvaakfnvdrawgeldwSKVN 375
                              589*******************************************************9888877788999*************** PP

                              TT--HHHH-B-TTTHHHHHHHHHHHHHHHCTTSEEEEEEEETTTEEEEEEEE CS
               Thiolase_C  71 vnGGaialGHPlGasGaRivvtllselkkeggklgvaalCigggqgvalvie 122
                              vnGGaialGHP+G +G+R++vtl++el++++g++g+a+lCigggqg a++ie
  PHY93_01300|PHY93_01300 376 VNGGAIALGHPVGSTGSRLIVTLMHELRRRNGRYGLASLCIGGGQGGAVIIE 427
                              **************************************************98 PP

>> ketoacyl-synt  Beta-ketoacyl synthase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.1   0.2     4e-09   2.4e-05     166     212 ..      81     126 ..      59     146 .. 0.80

  Alignments for each domain:
  == domain 1  score: 24.1 bits;  conditional E-value: 4e-09
                              SSEEEEESGGGHHHHHHHHHHHHHHTTS-SEEEEEEEE---SHHHHH CS
            ketoacyl-synt 166 GpsvtvdtACsSslvavhaavqslrsgeadvalaGGvellltpeava 212
                                +++v+  C+S+  a  +a  ++ sg++d+++aGGve +++++ ++
  PHY93_01300|PHY93_01300  81 TSAYSVHRNCASGMEAASQAFIKIASGRSDIIVAGGVE-CMSQMPLI 126
                              567899999****99999999*****************.55555544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (429 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       287  (0.0160076); expected 358.6 (0.02)
Passed bias filter:                      276  (0.0153941); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.43
# Mc/sec: 2974.11
//
Query:       PHY93_01305|PHY93_01305  [L=362]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    5.4e-09   36.4   6.2    8.9e-09   35.7   6.2    1.3  1  OMP_b-brl  Outer membrane protein beta-barrel domain
     0.0041   17.0   0.6      0.015   15.2   0.6    1.8  1  OmpW       OmpW family
  ------ inclusion threshold ------
       0.13   12.4   3.0        1.7    8.7   2.0    2.4  2  Opacity    Opacity family porin protein


Domain annotation for each model (and alignments):
>> OMP_b-brl  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.7   6.2   1.5e-12   8.9e-09      29     160 ..     164     331 ..     155     360 .. 0.81

  Alignments for each domain:
  == domain 1  score: 35.7 bits;  conditional E-value: 1.5e-12
                OMP_b-brl  29 glskvkvdgvgsdsgfgfgvgagyefndnvgvegglsysgdkdysgs..............gktdikinllsvpvnagyafnlsds 100
                              g+ ++k+d v++ s+ ++gv ++ ++ + ++v++g++y++ + + +                + +++++  ++ +n +y   + +s
  PHY93_01305|PHY93_01305 164 GAQSIKGDKVDFESKLNIGVNLETMVLPQLSVGLGVGYTSLDITDVAntylpsgsvlpvnyIGRKMSSSKVTIEANSKYF-LIEES 248
                              56689999999999**************************9999998888988888866443333344444566666663.45555 PP

                OMP_b-brl 101 .vlpyggaGlgytkvevdvsgng..............asdsdtdfglglgaGveyaladnwslkaeYrytdlks........d 160
                               ++p++ga l+y++ ++++++ng              +++s+t+ g ++ +G+e+ ++  + l+++  yt++ s        +
  PHY93_01305|PHY93_01305 249 rIKPFVGAALSYNRSNLKYDDNGngysynnnggnfgnEGYSSTAMGATAKLGAEIDFNATVGLNIDLSYTKTLSsgissnadT 331
                              7**********99999999988899**********************************999999999998866666444332 PP

>> OmpW  OmpW family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.6   2.4e-06     0.015      28     158 ..     167     319 ..     150     338 .. 0.71

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 2.4e-06
                              E-TTSCCECSSCECEEEEEEEECTTTEEEEE......EEES.ECCCEEEC...SSTTCEECCCEEE-EEE..EEEEETSTTSSEEE CS
                     OmpW  28 avsgsevavgsdvqltlsvtyfftdnvavEl......laat.tahnirvsg..lgsngkvgkikvlPptl..tlqYhgeasskvrP 102
                                +g +v+++s+ + +++++ ++ ++++v l      l +t  a  +  sg  l  n +  k+     t+    +Y++ ++s ++P
  PHY93_01305|PHY93_01305 167 SIKGDKVDFESKLNIGVNLETMVLPQLSVGLgvgytsLDITdVANTYLPSGsvLPVNYIGRKMSSSKVTIeaNSKYFLIEESRIKP 252
                              456788999999999999999999999999998888866665566666666666677777776655555511569*********** PP

                              EEEEEEEEEEC...CECCCHHC..........TCCEEEE-SECEEEEEEEEEEECSSSEEEEEEEEEEC CS
                     OmpW 103 YvGaGvnyttf...fdeklgst..........gltdlklkdslgaagqiGvDikvkddwllnldvkklf 158
                              +vGa ++y  +   +d++ g+           g ++   +  +ga +++G +i  +  ++ln+d  +++
  PHY93_01305|PHY93_01305 253 FVGAALSYNRSnlkYDDN-GNGysynnnggnfGNEGY-SSTAMGATAKLGAEIDFNATVGLNIDLSYTK 319
                              ******998652223332.222466666764333332.2456899999999999999999999999986 PP

>> Opacity  Opacity family porin protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.0   0.0     0.035   2.1e+02      48      97 ..     156     207 ..     154     240 .. 0.62
   2 ?    8.7   2.0   0.00029       1.7      46     110 ..     245     319 ..     227     333 .. 0.73

  Alignments for each domain:
  == domain 1  score: 2.0 bits;  conditional E-value: 0.035
                  Opacity  48 gskvkPyvGvrvasngakvsasaklpkkeaf....asetrvGlGvlaGvkyklt 97 
                              +skv Py+G++ +  g kv  ++kl+           + +vGlGv    + ++t
  PHY93_01305|PHY93_01305 156 KSKVIPYLGAQ-SIKGDKVDFESKLNIGVNLetmvLPQLSVGLGV-GYTSLDIT 207
                              689999**997.566788888888753333222235566777775.23344555 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 0.00029
                  Opacity  46 dtgskvkPyvGvrva...........sngakvsasaklpkkeafasetrvGlGvlaGvkykltpnltldtgvrynr 110
                                +s++kP+vG+ ++            ng  ++++      e   s+t +G  +  G++ + +  + l+ ++ y +
  PHY93_01305|PHY93_01305 245 IEESRIKPFVGAALSynrsnlkyddnGNGYSYNNNGGNFGNEG-YSSTAMGATAKLGAEIDFNATVGLNIDLSYTK 319
                              5679***********8887777775555555555555555555.66677777777788888888888888887765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (362 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       709  (0.0395449); expected 358.6 (0.02)
Passed bias filter:                      361  (0.020135); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.42
# Mc/sec: 2600.90
//
Query:       PHY93_01310|PHY93_01310  [L=461]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.081   13.4   0.5       0.17   12.4   0.5    1.4  1  Fungal_lectin_2  Alpha-galactosyl-binding fungal lectin


Domain annotation for each model (and alignments):
>> Fungal_lectin_2  Alpha-galactosyl-binding fungal lectin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.5   9.3e-06      0.17      12      55 ..     127     170 ..     121     186 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 9.3e-06
          Fungal_lectin_2  12 rlnenykdFCkevkekepekevgwskektYeegTpdehefvvql 55 
                                n+ny+dFC++v++   +++   + +k +e+  p e ++  q 
  PHY93_01310|PHY93_01310 127 DFNTNYNDFCSKVTSAIFQEKNSSKVSKLFETSIPSELQYHFQH 170
                              5699***********9999999***************9998775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (461 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       459  (0.025601); expected 358.6 (0.02)
Passed bias filter:                      323  (0.0180155); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.22s 00:00:00.78 Elapsed: 00:00:00.42
# Mc/sec: 3279.96
//
Query:       PHY93_01315|PHY93_01315  [L=440]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    0.00031   20.4   0.0    0.00081   19.1   0.0    1.7  1  Glycos_transf_N  3-Deoxy-D-manno-octulosonic-acid transferase


Domain annotation for each model (and alignments):
>> Glycos_transf_N  3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   4.5e-08   0.00081      16     160 ..      60     201 ..      35     209 .. 0.70

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 4.5e-08
          Glycos_transf_N  16 kliwiHaaSvGEveaalpLiealrerkpelkillTttTptGaevakklla......ervdhv.ylPlDlpaavrrfldavkPdlli 94 
                                  +   S GE+e+++pLie+ ++++++++il+ + + + + +  +          r  +  ++P+ +  + ++ +  v+  ++i
  PHY93_01315|PHY93_01315  60 ADYCFEVSSEGELEQVRPLIEHYLNHNKKIEILFASPSVETKCLKLAWDYkdqiriMRLPIAsFAPMSF-LFFQSPWSWVSAPVII 144
                              34788899**************************99998877643332223244442222222555555.334444555666679* PP

          Glycos_transf_N  95 lvetElWpnllaaakkrgipvilvnArlserslrryrrfkallrsllskfdlilaqseedaerlra 160
                              +  +++ p+ll + k  + ++il++A  ++ s      f     +  s f+li+a +e++a+ +r+
  PHY93_01315|PHY93_01315 145 FCRYDFFPELL-SFKFFKKKLILLSAASKNPSW-----F---KTQSHSLFNLIVAANETEARYFRE 201
                              **********9.566667799999998777777.....4...444555566688888888888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (440 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       414  (0.0230911); expected 358.6 (0.02)
Passed bias filter:                      321  (0.017904); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.42
# Mc/sec: 3154.83
//
Query:       PHY93_01320|PHY93_01320  [L=376]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
  ------ inclusion threshold ------
      0.035   14.2   0.7      0.035   14.2   0.7    2.7  2  OMP_b-brl  Outer membrane protein beta-barrel domain
       0.35   10.5  10.4      0.017   14.8   4.8    1.7  2  KdgM       Oligogalacturonate-specific porin protein (KdgM)


Domain annotation for each model (and alignments):
>> OMP_b-brl  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   0.8     0.024   2.1e+02      79     139 ..     122     193 ..      94     250 .. 0.55
   2 ?   14.2   0.7   3.9e-06     0.035      32     101 ..     275     343 ..     268     362 .. 0.75

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.024
                OMP_b-brl  79 dikinllsvpvnagyafnlsdsvlpyggaGlgytkvevd.vsgng..........asdsdtdfglglgaGve 139
                              d +i    ++ n  ++f  s+++l  +++ + y++     + +n+          + ++++++gl++ aG++
  PHY93_01320|PHY93_01320 122 DRSIQDIKIMHNPTVTFKPSNNWLYLATGEFKYSDMPSVaYPNNFyralftatrkNLFTEKENGLQVDAGIG 193
                              334444446666666666666655555555553322111122222355555555556666666666666654 PP

  == domain 2  score: 14.2 bits;  conditional E-value: 3.9e-06
                OMP_b-brl  32 kvkvdgvgsdsgfgfgvgag.yefndnvgvegglsysgdkdysgsgktdikinllsvpvnagyafnlsdsv 101
                              k+++++ +++++  +++ +  y+++d+++ ++++ y+ ++d ++     ++ + ++ +v +gyafn + +v
  PHY93_01320|PHY93_01320 275 KYQNTARDFSTSHEMNLAYIsYQWTDKISTYYQFKYYHTDDFTK--APQTQDDWFEHYVGVGYAFNPKATV 343
                              555555566666777766655***************88877777..3466678889*********965443 PP

>> KdgM  Oligogalacturonate-specific porin protein (KdgM)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.3      0.41   3.7e+03     168     193 ..     118     145 ..      92     156 .. 0.54
   2 ?   14.8   4.8   1.9e-06     0.017     139     199 ..     286     348 ..     228     359 .. 0.83

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 0.41
                              ------..---EEEEEEEEEE--SSSEE CS
                     KdgM 168 fklsdg..kdtnyehnvklaykidkswk 193
                               +  d   +d ++ hn ++++k  ++w+
  PHY93_01320|PHY93_01320 118 PNHNDRsiQDIKIMHNPTVTFKPSNNWL 145
                              3322221134556677777777777764 PP

  == domain 2  score: 14.8 bits;  conditional E-value: 1.9e-06
                              EEEEE.EEEEEEETTTEEEEEEEEEEEE----.-------EEEEEEEEEE--SSSEEEEEEEE CS
                     KdgM 139 tyrld.tyidykildefkltyeleykkaddfk.lsdgkdtnyehnvklaykidkswkPyvEvg 199
                              +++++ +yi y+++d+ +  y+++y ++ddf    + +d+ +eh v + y ++ + +  +Evg
  PHY93_01320|PHY93_01320 286 SHEMNlAYISYQWTDKISTYYQFKYYHTDDFTkAPQTQDDWFEHYVGVGYAFNPKATVTFEVG 348
                              3344327************************94556677777***********9999999998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (376 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       568  (0.0316805); expected 358.6 (0.02)
Passed bias filter:                      338  (0.0188521); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.44
# Mc/sec: 2586.06
//
Query:       PHY93_01325|PHY93_01325  [L=384]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    8.9e-05   22.2   0.0    0.00032   20.4   0.0    2.0  2  GYF_2      GYF domain 2
  ------ inclusion threshold ------
       0.26   10.1   1.3       0.25   10.2   0.1    1.5  2  LptF_LptG  Lipopolysaccharide export system permease LptF/Lpt


Domain annotation for each model (and alignments):
>> GYF_2  GYF domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0      0.35   3.1e+03      32      46 ..      66      80 ..      36      82 .. 0.60
   2 !   20.4   0.0   3.6e-08   0.00032       2      50 .]     106     154 ..     105     154 .. 0.95

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 0.35
                    GYF_2 32 lVWreGmddWkpase 46
                             +V     d+Wk + e
  PHY93_01325|PHY93_01325 66 YVKNIDSDEWKNIYE 80
                             555556678887765 PP

  == domain 2  score: 20.4 bits;  conditional E-value: 3.6e-08
                    GYF_2   2 yyadngqqqGPfsleeLkelaasgeitpdtlVWreGmddWkpasevpeL 50 
                              ++ +ngq+ GPf + +L e+++++ei  +++V  +G   W+++ +v+++
  PHY93_01325|PHY93_01325 106 FILQNGQKNGPFEKYKLMEMVEKREILLSDMVSFNGGHVWIKLFQVDGF 154
                              8999**************************************9999865 PP

>> LptF_LptG  Lipopolysaccharide export system permease LptF/LptG
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.1   2.7e-05      0.25     119     213 ..      24     119 ..       6     196 .. 0.81
   2 ?   -2.4   0.1      0.18   1.6e+03     305     319 ..     231     245 ..     220     253 .. 0.69

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 2.7e-05
                LptF_LptG 119 wankkaesllseirqkspsl......likpgvfikdgdgyiiyvgsmddeggelqdvtiydltegkgltsiitAksgvlvksadel 198
                               an ++++ + ei+ ++++l      ++k +vf  + d  ++yv+++d++  e+++++ + +  ++++++ i++++ +    +d +
  PHY93_01325|PHY93_01325  24 TANVEMREHIFEIKDEEKTLgfislyDLKAYVFEHEEDAKNYYVKNIDSD--EWKNIYEHPF-FQRRKPQLISSENLKEA--NDLE 104
                              4899999999****************************************..89***88888.78889999999987666..6699 PP

                LptF_LptG 199 qlrLfngeiyevgdd 213
                               ++L+ng+   + ++
  PHY93_01325|PHY93_01325 105 FFILQNGQKNGPFEK 119
                              999999997655554 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 0.18
                LptF_LptG 305 lliaillfvlyyvll 319
                              llia +++++y++++
  PHY93_01325|PHY93_01325 231 LLIASVFGIVYFLFS 245
                              677777777777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (384 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       549  (0.0306208); expected 358.6 (0.02)
Passed bias filter:                      420  (0.0234257); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.20s 00:00:00.74 Elapsed: 00:00:00.39
# Mc/sec: 2972.13
//
Query:       PHY93_16900|PHY93_16900  [L=183]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        0.1   13.2   0.1       0.17   12.5   0.1    1.4  1  FMN_bind  FMN-binding domain


Domain annotation for each model (and alignments):
>> FMN_bind  FMN-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.1   9.3e-06      0.17       3      69 .]     102     177 ..     100     177 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 9.3e-06
                              SSEEEEEEEEETTTSBEEEEEEEESSS-TTTGGG........CTTHHHH...SSEEETCTTBHHHHHHHHHHHHHHHC CS
                 FMN_bind   3 ggtikvlvtvkdgdgtItgievlehsETpglgsk........avkkdgg...dqevDaiSGATissravkdavnaale 69 
                              +g ++++v++  +dg+ ++i + eh E   ++++        + +kd     +++ + +  A+  s+a+ +av++al+
  PHY93_16900|PHY93_16900 102 NGLMEISVAM-GSDGKTKKIDLWEHTENSLIAKDdflkqflgKTSKD-TfiaNKDYQLVPNASKASEAMARAVEKALK 177
                              5778999999.66899***********77777745887766545555.13557899********************95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (183 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       504  (0.0281109); expected 358.6 (0.02)
Passed bias filter:                      410  (0.022868); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.20s 00:00:00.64 Elapsed: 00:00:00.37
# Mc/sec: 1484.83
//
Query:       PHY93_01330|PHY93_01330  [L=236]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.6e-42  145.3   0.0    1.8e-42  145.1   0.0    1.0  1  Thymidylate_kin  Thymidylate kinase
     0.0019   18.5   0.0     0.0035   17.6   0.0    1.4  1  AAA_28           AAA domain
     0.0042   17.3   0.0     0.0066   16.6   0.0    1.2  1  AAA_33           AAA domain
  ------ inclusion threshold ------
      0.012   15.4   0.1      0.044   13.6   0.1    1.8  1  dNK              Deoxynucleoside kinase
      0.031   14.6   0.0      0.054   13.8   0.0    1.4  1  AAA_22           AAA domain
      0.085   12.2   0.0       0.14   11.5   0.0    1.3  1  MCR_alpha_N      Methyl-coenzyme M reductase alpha subunit, N
       0.11   11.5   0.0       0.17   10.8   0.0    1.3  1  MeaB             Methylmalonyl Co-A mutase-associated GTPase 


Domain annotation for each model (and alignments):
>> Thymidylate_kin  Thymidylate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  145.1   0.0     7e-46   1.8e-42       1     185 []      25     216 ..      25     216 .. 0.96

  Alignments for each domain:
  == domain 1  score: 145.1 bits;  conditional E-value: 7e-46
                              EEESTTSSHHHHHHHHHHHHHHTTE..EEEESSSTTSHHHHHHHHHHH.TCS---HHHHHHHHHHHHHHTTHHHHHHHHHTT-E.E CS
          Thymidylate_kin   1 iEGlDGaGKttqaellkerlkeegik.vvltrepggteiGekirelll.keeeleeqteallfaadriehleekikpalkqgkt.v 83 
                              +EG++GaGK+tq+  lk+ l+ee+   v++ repggt++Gek+r+++l  ++e+++++ea lfaa+r++ l+e+i  +l+   t +
  PHY93_01330|PHY93_01330  25 FEGIEGAGKSTQITRLKKFLEEEKNFrVLVLREPGGTPFGEKLRQAILeTKTEISPLAEAHLFAASRSQLLTEVILTELSIPNTvI 110
                              8***********************999*******************9999*****************************9766516 PP

                              EEES-HHHHHHHHHTTTTTTCHHHHHHGGGTTS..E-SEEEEEESSHHHHHTSCCTTSS.TTTSHHHHHHHHHHHHHHHHHHHH.T CS
          Thymidylate_kin  84 ivdRylfSslaYqgakegvdldlvlslnedvll..kPdltflldvdpevalkRlakrde.ldeeeeeqldflrkvrerylelak.e 165
                              i+dRy++Ss++Yqg+++g++++ vl++++ ++l   P+ltf+l + +e++ kR + r+  +d +e++ ++f++k+  +y+ + + +
  PHY93_01330|PHY93_01330 111 ICDRYIDSSVVYQGHARGLGVAEVLEIHDIFPLnlVPHLTFYLRIGVETSEKRQKIRNApKDYFEARGIEFYKKLVVGYDLMHElF 196
                              8******************************************************999999***************9999999999 PP

                              TSTEEEEETTS-HHHHHHHH CS
          Thymidylate_kin 166 deriliidasksieevheeI 185
                              ++ril +da+ s+++v + I
  PHY93_01330|PHY93_01330 197 PNRILKLDAEGSLDDVTKLI 216
                              ***************98876 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.0   1.4e-06    0.0035       5     100 ..      26     134 ..      23     185 .. 0.59

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 1.4e-06
                   AAA_28   5 tGgestGKTtlleaLa.....argypvv..pEaareileekl.....akgedalpwvedllafaervleeqleeeaaa..aankvl 76 
                               G e++GK+t + +L+     +++++v+  +E++ + + ekl     +++++++p + ++  fa+ + +   e        +n v+
  PHY93_01330|PHY93_01330  26 EGIEGAGKSTQITRLKkfleeEKNFRVLvlREPGGTPFGEKLrqailETKTEISPLA-EAHLFAASRSQLLTEVILTElsIPNTVI 110
                              6889************77764346664446********9999443333333444442.444444444433333332224469**** PP

                   AAA_28  77 fcDrglldtlaYarayggeaeael 100
                              +cDr +  +++Y  +  g   ae+
  PHY93_01330|PHY93_01330 111 ICDRYIDSSVVYQGHARGLGVAEV 134
                              ******999999966555423333 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   2.6e-06    0.0066       4     128 ..      25     176 ..      23     184 .. 0.81

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 2.6e-06
                   AAA_33   4 lvGlpGsGKstlaerl...lkklg...avllssdt.......lrrrlfgtdqq.sktdytr.vldrlyqilnelarkalsagrnvi 74 
                              + G  G+GKst ++rl   l++++   + +l+++        lr+++ +t+ + s+   ++ ++ +  q l e++   ls  ++vi
  PHY93_01330|PHY93_01330  25 FEGIEGAGKSTQITRLkkfLEEEKnfrVLVLREPGgtpfgekLRQAILETKTEiSPLAEAHlFAASRSQLLTEVILTELSIPNTVI 110
                              89**************777545547789999999999*999999988886554466666663445567789999999********* PP

                   AAA_33  75 l.....datnlsr.rer.......arflklarrlgvpvrivvvetdeetlkeRlakRaangddrsev 128
                              +     d+  + + ++r        ++  +++   vp++  +++   et ++R + R+a++d  +e+
  PHY93_01330|PHY93_01330 111 IcdryiDSSVVYQgHARglgvaevLEIHDIFPLNLVPHLTFYLRIGVETSEKRQKIRNAPKD-YFEA 176
                              *999999999998788887775556777789999999**********************865.5665 PP

>> dNK  Deoxynucleoside kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.1   1.7e-05     0.044       2     170 ..      24     209 ..      23     235 .. 0.72

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 1.7e-05
                              EEEESTTSSHHHHHHHHHCCST......CEEEE-HHHHCCSSSS.....HHHHHHHHSHHHHHHHHHHHHHHHHHHHHHCHHSSS- CS
                      dNK   2 vveGnIgaGKstlvklLskklg......vkvfeEpvdkwtnvqk.....nlLekfYkdpsrwsfalqtyvllsrlkqqlealatkq 76 
                              + eG  gaGKst +++L+k l+      v v++Ep        +     +l + + + +++ s   + ++++    q l+ +  ++
  PHY93_01330|PHY93_01330  24 SFEGIEGAGKSTQITRLKKFLEeeknfrVLVLREPG-------GtpfgeKLRQAILETKTEISPLAEAHLFAASRSQLLTEVILTE 102
                              779999******999988877542222233344443.......0344435555666777778888888888777777777779999 PP

                              EEEEES-HHHHHHTHHHHHHHTTSS-HHHHHHHHHHHHHHHHHCCH-SEEEEEE--HHHHHHHHHHCTTCCCT..TS-HHHHHHHH CS
                      dNK  77 vvvleRsiysdryiFakalaekgtlseeelkiykelldnlleelakpdlliYLkasletclerikkRgreeek..kieldYlekLh 160
                               ++ +  i  dryi  ++ + +g++    ++   e++d    +l  p+l  YL++ +et ++r k R+  ++      +++++kL 
  PHY93_01330|PHY93_01330 103 LSIPNTVIICDRYIDSSV-VYQGHARGLGVAEVLEIHDIFPLNLV-PHLTFYLRIGVETSEKRQKIRNAPKDYfeARGIEFYKKLV 186
                              999999999999998885.55799999999999999**9999999.9****************99999998877777889999999 PP

                              HHHHHHHTS.............G CS
                      dNK 161 ekyeewlkk.............l 170
                                y  + +              l
  PHY93_01330|PHY93_01330 187 VGYDLMHELfpnrilkldaegsL 209
                              88876655433344444444444 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   2.1e-05     0.054      11      87 ..      26      95 ..      21     113 .. 0.67

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 2.1e-05
                   AAA_22 11 tGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsst.sskdllrellralglelkaerlsseellealeqalr 87
                              G  G+GK+t + rl++ l+ee     ++ +v+    p++t   ++l++++l+  + e +   l + +l++a + +l 
  PHY93_01330|PHY93_01330 26 EGIEGAGKSTQITRLKKFLEEE-----KNFRVLVLREPGGTpFGEKLRQAILETKT-EISP--LAEAHLFAASRSQLL 95
                             5899***************866.....59999999999999555555666665544.3333..455555555555444 PP

>> MCR_alpha_N  Methyl-coenzyme M reductase alpha subunit, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   5.3e-05      0.14      23      97 ..     150     221 ..     145     229 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 5.3e-05
                              --S-S-GGGG-HHHHHHHHHHHHHHHHH-S----TTS...S--S-SS---EEEBTTS--EEEGGGSSGGG-HHHH CS
              MCR_alpha_N  23 kfykfeGlkqserkrefveaakkiakkrgislynpdilhlGvplGqrklmpykvsgtdvlvegddlhfvnnaalq 97 
                              +fy + G++ se+++++ +a k+  ++rgi +y++  l +G  l   +l p ++ + d+    dd+  +  +++ 
  PHY93_01330|PHY93_01330 150 TFYLRIGVETSEKRQKIRNAPKDYFEARGIEFYKK--LVVGYDLM-HELFPNRILKLDAEGSLDDVTKLILTTME 221
                              79*******************************99..56898885.46777777777777777776655555555 PP

>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   6.7e-05      0.17      32      83 ..      23      69 ..       5      85 .. 0.73

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 6.7e-05
                             EEEEE-TTSSHHHHHHHHHHHHHCT.T--EEEEEE------------------ CS
                     MeaB 32 vGltGvPGaGkstlvealglelrrr.GkrvavlavDPsspftGGsilGDklRl 83
                             + + G+ GaGkst + +l   l ++   rv vl         GG+ +G+klR 
  PHY93_01330|PHY93_01330 23 LSFEGIEGAGKSTQITRLKKFLEEEkNFRVLVLR------EPGGTPFGEKLRQ 69
                             6788***************999865145666653......3355556666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (236 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       377  (0.0210274); expected 358.6 (0.02)
Passed bias filter:                      358  (0.0199677); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.44u 0.26s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 1766.98
//
Query:       PHY93_01335|PHY93_01335  [L=234]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.5e-13   49.3   0.3    8.2e-13   48.5   0.3    1.4  1  DNA_pol3_delta2  DNA polymerase III, delta subunit


Domain annotation for each model (and alignments):
>> DNA_pol3_delta2  DNA polymerase III, delta subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.5   0.3   4.6e-17   8.2e-13      66     161 ..      48     145 ..      41     147 .. 0.93

  Alignments for each domain:
  == domain 1  score: 48.5 bits;  conditional E-value: 4.6e-17
          DNA_pol3_delta2  66 gkhpDvivieteekersikld..qirelieelsrkpreskkkiiiiedaekmtksAaNalLktlEEPsenaifiLitsdtnklLkt 149
                               +hpDv+ i++ eke + k+d  qir++ ++++ +p + +kk i + da+ +++  +N+lLk++EE   n  ++L+  d+  lL+t
  PHY93_01335|PHY93_01335  48 ADHPDVLKIHKAEKETEYKVDsiQIRDFLKFINYRPLQLEKKFIFLFDAQDISTILSNKLLKVFEELGPNFCLFLMVPDNAPLLPT 133
                              57*********999999999933467************************************************************ PP

          DNA_pol3_delta2 150 irSRcqelkfsp 161
                              + SR  +l++ +
  PHY93_01335|PHY93_01335 134 VLSRAIKLQIPN 145
                              ********9975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (234 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       849  (0.0473534); expected 358.6 (0.02)
Passed bias filter:                      495  (0.0276089); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.20s 00:00:00.66 Elapsed: 00:00:00.37
# Mc/sec: 1888.10
//
Query:       PHY93_01340|PHY93_01340  [L=484]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    2.2e-20   72.7   1.2    2.2e-20   72.7   1.2    2.3  3  PSP1        PSP1 C-terminal conserved region


Domain annotation for each model (and alignments):
>> PSP1  PSP1 C-terminal conserved region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0      0.41   7.3e+03      32      53 ..      13      34 ..       6      45 .. 0.71
   2 !   72.7   1.2   1.2e-24   2.2e-20       2      86 .]     133     217 ..     132     217 .. 0.98
   3 ?   -3.7   0.0      0.86   1.5e+04      15      50 ..     285     322 ..     278     323 .. 0.51

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 0.41
                     PSP1 32 klkelnlnmklldaefqfdrkk 53
                              + e  l+++++d +  +d k 
  PHY93_01340|PHY93_01340 13 TVLEEVLEIEIIDNKSELDDKE 34
                             5556668999999998888876 PP

  == domain 2  score: 72.7 bits;  conditional E-value: 1.2e-24
                     PSP1   2 qvlrlatpedvstnlenkqdeekalhiaqeklkelnlnmklldaefqfdrkkltfyYvaeervDFreLvkeLfkfyktRIwLcai 86 
                              ++ ++a+ped++ + e ++ e+ka  i+ + + +++l+m l ++ef+  +kk +fy+ a+ rvDFr+Lvk+L   +k+RI+L++i
  PHY93_01340|PHY93_01340 133 SIAKVASPEDIQAQVEFRDSEKKAEVICIRLIDRHQLDMILTHVEFTQFGKKAVFYFNAPARVDFRDLVKDLVYDLKMRIELRQI 217
                              6899********************************************************************************8 PP

  == domain 3  score: -3.7 bits;  conditional E-value: 0.86
                     PSP1  15 nlenkq.deekalhiaq.eklkelnlnmklldaefqfd 50 
                               ++++  +e + ++ ++  k k  +ln+ + + e+  d
  PHY93_01340|PHY93_01340 285 DKRKNLpREGTFIRAINgDKGKVQKLNILIEQFEMLTD 322
                              44444444444444333135555667777777666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (484 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1489  (0.0830498); expected 358.6 (0.02)
Passed bias filter:                      459  (0.025601); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.62u 0.25s 00:00:00.87 Elapsed: 00:00:00.44
# Mc/sec: 3332.73
//
Query:       PHY93_01345|PHY93_01345  [L=468]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-79  267.5   0.1    1.7e-79  267.2   0.1    1.1  1  tRNA-synt_2      tRNA synthetases class II (D, K and N)
    1.6e-11   44.0   0.2    3.5e-11   42.9   0.2    1.6  1  tRNA_anti-codon  OB-fold nucleic acid binding domain
     0.0034   16.9   0.0      0.034   13.6   0.0    2.2  2  tRNA-synt_2d     tRNA synthetases class II core domain (F)


Domain annotation for each model (and alignments):
>> tRNA-synt_2  tRNA synthetases class II (D, K and N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  267.2   0.1   2.8e-83   1.7e-79       3     313 ..     114     464 ..     112     465 .. 0.95

  Alignments for each domain:
  == domain 1  score: 267.2 bits;  conditional E-value: 2.8e-83
                              CHHHHTHHHHCCSHHHHHHHHHHHHHHHHHHHHHHHTT-EE----SEESS--SSSS--EEEEETTT........T........EEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.......xx........xxx RF
              tRNA-synt_2   3 elrlknryldlrtekvskvlrlrstvtkavrkyleengfieietPiLsksdteegarlFkvksrek.......ek........eff 73 
                              e+++++ +l++rt+   +++r+r+++++a++++++++gf+  + Pi+s  d e++++ F++ + +        +k        ++f
  PHY93_01345|PHY93_01345 114 EFLREQAHLRIRTNTFGAIMRVRHHLAMATHEFFSKRGFFYLNSPIISGVDAEGAGEMFTISTLASditkapkTKdgkldfskDYF 199
                              678999*******************************************************7766677777651156776666888 PP

                              ....-E-S-SHHHHHHHHHCTHSEEEEEEEEE--S--BTTB-S-CEEEEEEEEET-SCHHHHHHHHHHHHHHHHHHHHCSCCCCCH CS
                              ....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              tRNA-synt_2  74 ....aLtqspqlylellivagidrvfqiaraFRaEdsrtdrhlaEFtqieaemsfieeedimqvleelikslvkevlessakdief 155
                                  +L++ +ql  e ++++ ++ +++++++FR E+s+t+rhl+EF++ie e++f++ ++i +++ + ik l++  le+ a+++ef
  PHY93_01345|PHY93_01345 200 gkevFLAVTGQLEGECYAMG-LGSIYTFGPTFRSENSNTTRHLSEFWMIEPEVAFADLDEIASLATDYIKFLISYSLEHAADELEF 284
                              9*******************.***************************************************************** PP

                              TTTTTS...........EE-SSS.-EEEEHHHHHHHHHTS.............-SS--HHHHHHHHHHS--SEEEEEEEBGGGSTT CS
                              xxxxxx...........xxxxxx.xxxxxxxxxxxxxxxx.............xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              tRNA-synt_2 156 virrns...........kdlkkp.fkrltykeaieklnei.............gkdldkaderalvkkeknepvfvtdfPaelkpF 216
                                +r+            k+++++ f+r+ty+eaie+l++              g +l++++er+l +++ + pv vtd+P+e k F
  PHY93_01345|PHY93_01345 285 LFSREDstaskdhmevlKHVRDSkFIRITYTEAIEILSKVdpavkkfeypttwGHELQTEHERFLAEEHFKMPVIVTDYPKEFKAF 370
                              99998889*********8888777*************999*************999****************************** PP

                              CBBBSTTSTTBBSEEEEEETTE.EEEEEEEB--SHHHHHHHHHHCCHHSSSGGGGHHHHHHHHCT--SEEEEEEEHHHHHHHHCT- CS
                              xxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              tRNA-synt_2 217 yarkeeddkkltesyDllingv.ElvgGslRiedpeeleeklkskgldeeaeekfswylealeyGapphgGlglGldRlvmlllgs 301
                              y++ ++d  k+++++D+l++g+ E++gGs+R+++ e+le+++++ +++   ++++ wyl+++++G +ph+G+glG++R +m+++g 
  PHY93_01345|PHY93_01345 371 YMKLNTD-GKTVKAMDILVPGIgEIIGGSQREDNLERLEKRMDEMNMN---KDPLWWYLDLRRFGPVPHAGFGLGFERALMYITGV 452
                              *******.8***************************************...*********************************** PP

                              SSGGGCSSS-XX CS
                              xxxxxxxxxxxx RF
              tRNA-synt_2 302 esIrdviaFPkl 313
                              ++Irdvi+FP++
  PHY93_01345|PHY93_01345 453 NNIRDVIPFPRT 464
                              **********97 PP

>> tRNA_anti-codon  OB-fold nucleic acid binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.9   0.2   5.9e-15   3.5e-11       2      76 .]      20      97 ..      19      97 .. 0.93

  Alignments for each domain:
  == domain 1  score: 42.9 bits;  conditional E-value: 5.9e-15
                             EEEEEEEEEEEEEETTEEEEEEEETT..EEEEEEEET.HHHHHHHTTS-TTSEEEEEEEEEECTTS..SEEEEEEEEEEE CS
          tRNA_anti-codon  2 tvaGrvtsisdrsggkvifidlrDgt..griqvvlfr.eeatklaenlkeGdvvrvtGrvkrrpgg..elelkveeiell 76
                             tv+G+++++  r+++k++fi+l+Dg+   ++q+v++     ++    l  G+ v +tGr+ +  g+   +e++++++e++
  PHY93_01345|PHY93_01345 20 TVKGWIRTV--RNSKKFSFIVLNDGSsqNSLQIVVDEvLPNYAEVAGLLSGSAVAITGRLVKGGGKvqSIEMQASSVEII 97
                             8********..***************888********877777777799**************88899*********997 PP

>> tRNA-synt_2d  tRNA synthetases class II core domain (F)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   0.0     0.068   4.1e+02     106     137 ..     225     252 ..     221     269 .. 0.67
   2 !   13.6   0.0   5.6e-06     0.034     211     234 ..     435     458 ..     427     461 .. 0.89

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 0.068
                              EEEEEEBSST-SSS.B-SEEEEEEEEEEETT-- CS
             tRNA-synt_2d 106 sigrvfRrdavDat.hlaeFhqveglvvdenvs 137
                              ++g +fR+++ + t hl eF  +e      +v 
  PHY93_01345|PHY93_01345 225 TFGPTFRSENSNTTrHLSEFWMIE-----PEVA 252
                              67889****955552666666555.....4444 PP

  == domain 2  score: 13.6 bits;  conditional E-value: 5.6e-06
                              EEEEEEEHHHHHHHHHT-SSGHHH CS
             tRNA-synt_2d 211 gfafGlGveRlamlkygieDiRel 234
                               ++fGlG+eR  m  +g+++iR++
  PHY93_01345|PHY93_01345 435 HAGFGLGFERALMYITGVNNIRDV 458
                              578*******************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (468 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       486  (0.0271069); expected 358.6 (0.02)
Passed bias filter:                      444  (0.0247643); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.53u 0.20s 00:00:00.73 Elapsed: 00:00:00.36
# Mc/sec: 3875.29
//
Query:       PHY93_01350|PHY93_01350  [L=329]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.5e-50  170.1   3.6    8.5e-50  169.8   3.6    1.1  1  PfkB      pfkB family carbohydrate kinase


Domain annotation for each model (and alignments):
>> PfkB  pfkB family carbohydrate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  169.8   3.6   4.8e-54   8.5e-50      27     297 ..      52     318 ..      31     322 .. 0.93

  Alignments for each domain:
  == domain 1  score: 169.8 bits;  conditional E-value: 4.8e-54
                              EESEEEEEEESHHHHHHHHHHHTT-EEEEEEEEESSHHHHHHHHHHHHTTEEETTEEE.ESSSEEEEEEEEETTTSEEEEEEEEGG CS
                     PfkB  27 evktveksaGGagaNvAvalarlgadvafigavGdDnfGeflleelkkegvdtdyvki.dedtrtglalivvdedgertivfnrga 111
                              ++ + ++s GG++aN++ a+++ g+++++ ++v  D+ G+f+ + l ++gv+t+      e   tg+++++++ d++rt+++++g 
  PHY93_01350|PHY93_01350  52 HGIQHKRSCGGSAANTMIAVSQFGGKSFYSCKVASDETGDFYFKDLMDNGVETNLSTSsLESGVTGKCIVLITPDADRTMNTFLGI 137
                              666778999********************************************9765505669*********************** PP

                              GGGHHHHHHHHHHHHHGCTSEEEEES.EECTTSHHHHHHHHHHHHHHTTE.EEEEECESSSHH.HHHHHHHHH.CTESEEEEEHHH CS
                     PfkB 112 aadltkeeleededlleeadllyisg.llsselpeavleelaeaaknggt.fdpnlldplgaq.fkeallell.aladllkpneeE 193
                              +  ++ +el   ed ++++ ++yi+g l+ s+  +++  +++++a++++      ++d      f e l e++ +++dll++ne+E
  PHY93_01350|PHY93_01350 138 TQTISSKEL--IEDSIKNSNYVYIEGyLVASPTGKEAAIKARKLAEANNVkTAITFSDVNMVTyFNEGLVEMVgPGVDLLFCNEAE 221
                              *******99..****************9999999**************9999999999999999********************** PP

                              HHHHHTSCTHSHHHHHHHHHHHHHTTSSEEEEEEGGGEEEEEETTEEEEEEE.SSSS-SBGTTHHHHHHHHHHHHHHTTHHHHHHH CS
                     PfkB 194 lealtgekledieealaalhklkakgaktvvvtlGkeGalvvekdgelkvpavpkvkvvDttGAGDsfvggflaallegksleeal 279
                              + a t+ +  ++ +a++al+k     ak++ +tlG++Ga+v+++++e++v +  +v+++Dt+GAGD ++g+fl+a+ +g  ++ea+
  PHY93_01350|PHY93_01350 222 AYAYTKTN--NVVDAAKALKK----IAKVFSITLGAKGAFVYDGEKEIYVVT-TPVEAIDTNGAGDLYAGAFLYAINSGICYAEAA 300
                              ********..99999999998....78*************************.55******************************* PP

                              HHHHHHHHHHHTSSSSST CS
                     PfkB 280 rfanavAalvvqkkgaia 297
                              ++++++++l v++ ga+ 
  PHY93_01350|PHY93_01350 301 KLGCTASSLLVTQFGARL 318
                              ***************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (329 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       617  (0.0344135); expected 358.6 (0.02)
Passed bias filter:                      427  (0.0238162); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.39
# Mc/sec: 2511.41
//
Query:       PHY93_01355|PHY93_01355  [L=142]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.3e-15   55.7   0.1    9.7e-15   54.9   0.1    1.4  1  SUI1      Translation initiation factor SUI1
     0.0083   16.2   0.3      0.013   15.7   0.3    1.2  1  Fer4_11   4Fe-4S dicluster domain


Domain annotation for each model (and alignments):
>> SUI1  Translation initiation factor SUI1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.9   0.1   1.1e-18   9.7e-15       4      73 ..      64     134 ..      61     137 .. 0.89

  Alignments for each domain:
  == domain 1  score: 54.9 bits;  conditional E-value: 1.1e-18
                     SUI1   4 kihirleqrgg.rKkvTtvsgleafgidlkklakelkkkfacsgsvvkdggeeiqvQGdqrkkvaelLtek 73 
                              +++i+le+ ++ +K vT+++ l  +   +++l k+lk+ ++++g+  +dg+++i++QGdqr+k + +L + 
  PHY93_01355|PHY93_01355  64 TLKIKLEKNQRgGKLVTVIHELPYNPAYFEDLTKKLKNHCGTGGTFKNDGNTQIELQGDQREKAEAYLLKL 134
                              5688888888889*********888999*****************9668889****************985 PP

>> Fer4_11  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.3   1.4e-06     0.013       8      69 ..      36     100 ..      34     117 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 1.4e-06
                  Fer4_11   8 eqCrhCleppCvasapse...aivkdeetGaVlldektkkeevrevveacPykivrkneetgkve 69 
                              ++C++C e pC      +    i+ d++t  + l++++   ++ +v++ +Py+  + ++ t+k++
  PHY93_01355|PHY93_01355  36 KICKKCGEDPCECPTSLQnikEITPDKTTLKIKLEKNQRGGKLVTVIHELPYNPAYFEDLTKKLK 100
                              58*********76555545569999**999999999999899***************99998875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (142 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       810  (0.0451782); expected 358.6 (0.02)
Passed bias filter:                      394  (0.0219756); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.47
# Mc/sec: 912.11
//
Query:       PHY93_01360|PHY93_01360  [L=204]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (204 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       906  (0.0505327); expected 358.6 (0.02)
Passed bias filter:                      521  (0.0290591); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.37
# Mc/sec: 1665.11
//
Query:       PHY93_01365|PHY93_01365  [L=330]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0091   15.2   1.4      0.021   14.1   0.7    1.8  1  DUF1682   Protein of unknown function (DUF1682)


Domain annotation for each model (and alignments):
>> DUF1682  Protein of unknown function (DUF1682)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.1   0.7   1.2e-06     0.021     100     170 ..      83     156 ..      72     159 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 1.2e-06
                  DUF1682 100 vlslffesv.aapkDrveievyledgk...amdgfVfavvkKkemkklrkdrydlesltktkdnsklpeelvvms 170
                              v s+  +++ +++k+++e++  +e+ k   +m +f+++v +Kk+  k++k+   + +l k+k++++lpee++++s
  PHY93_01365|PHY93_01365  83 VESFRLSNLvSNKKEKIEFVKIFEE-KnvgKMVDFILSVDEKKRPAKTEKELKVILNLIKQKKSDELPEEVAIFS 156
                              44555555558899*****965655.55***************************9************9998887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (330 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1018  (0.0567795); expected 358.6 (0.02)
Passed bias filter:                      453  (0.0252663); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.36
# Mc/sec: 2779.45
//
Query:       PHY93_01370|PHY93_01370  [L=250]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-49  168.7   0.0    2.2e-49  168.0   0.0    1.3  1  SAM_MT    Putative SAM-dependent methyltransferase


Domain annotation for each model (and alignments):
>> SAM_MT  Putative SAM-dependent methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  168.0   0.0   1.2e-53   2.2e-49      32     229 ..      59     249 ..      38     250 .] 0.91

  Alignments for each domain:
  == domain 1  score: 168.0 bits;  conditional E-value: 1.2e-53
                   SAM_MT  32 ekklgavlvdfvsgaaahRrkfgggrgeaiakavglkkgvlptvlDaTaGlGrDafvlaslGckvtliErhpvvaaLLedglkRak 117
                              +  lg ++ df ++   h r++    +e++aka+g+k+  +p v+D+T G G+D+ ++  +G+k++ +Erhp ++ LL+d+++R  
  PHY93_01370|PHY93_01370  59 SVDLGIMCFDFEETYRYHQRQQYAISREPLAKALGIKGIERPFVWDTTCGTGKDSLLINYFGAKLRTFERHPAIYLLLADAIRRYP 144
                              44577899****************************************************************************** PP

                   SAM_MT 118 qdaeigellaerlkLlaasslealakleee.kpdvvYlDPmyPh...kkksalvKKemrvfqqlvGadedadeLleaalalakkRv 199
                               d ei            a++ +++++++ee +pdv+Y DPmyP+    kksal +Kemr+f+++vG+d d++e+le al++ak+Rv
  PHY93_01370|PHY93_01370 145 LDFEIV----------FADASQLFSTITEEnRPDVIYYDPMYPEktgSKKSALPRKEMRIFKEVVGEDFDSAEFLEWALKTAKSRV 220
                              999854..........4666777777766669************55558************************************* PP

                   SAM_MT 200 vVKrPkkaevlaekkpsasietkkhRfDiY 229
                              vVKr  +a ++ +++p+as+++k++R+D+Y
  PHY93_01370|PHY93_01370 221 VVKRSLSAVPI-KENPTASYNGKSTRYDMY 249
                              ***********.779*************** PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (250 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       408  (0.0227564); expected 358.6 (0.02)
Passed bias filter:                      390  (0.0217525); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.17s 00:00:00.59 Elapsed: 00:00:00.34
# Mc/sec: 2185.39
//
Query:       PHY93_01375|PHY93_01375  [L=1006]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.5e-85  286.9   0.1    1.3e-77  261.5   0.0    2.6  2  GDC-P        Glycine cleavage system P-protein
    1.3e-09   37.5   1.3    4.2e-06   26.0   0.2    2.2  2  Aminotran_5  Aminotransferase class-V
  ------ inclusion threshold ------
       0.12   11.1   0.5       0.91    8.3   0.1    2.2  2  GD_AH_C      D-galactarate dehydratase / Altronate hydrolase,


Domain annotation for each model (and alignments):
>> GDC-P  Glycine cleavage system P-protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  261.5   0.0   2.2e-81   1.3e-77       3     424 ..      28     477 ..      26     483 .. 0.88
   2 !   22.5   0.0   7.6e-09   4.5e-05      29     297 ..     497     787 ..     488     793 .. 0.70

  Alignments for each domain:
  == domain 1  score: 261.5 bits;  conditional E-value: 2.2e-81
                              H-SS-HHHHHHHHHHHT-SSHHHHHHHHS-GGGB--S---------HHHHHHHHHHHHTTB---EE--BTTB------HHHHHHTT CS
                    GDC-P   3 higpsekdqkemLetlGlkslddliekavPkeiklkkelkleapksEeellaelekiasknkvvksfiGaGyydtilPaviqrnil 88 
                              +i  ++ +q emL+++ lk+l dl  +++P+++k+ +   +++  s ++l+a++e++a+kn+v + fiG G  + ++ +++   + 
  PHY93_01375|PHY93_01375  28 YISSTKPEQAEMLSSIKLKTLSDLY-AHIPDDVKFDQVPFVTEELSYNDLIAHVEEVAAKNNVKTCFIGDGLKNYKVNEIVPY-VC 111
                              8999*********************.9*****************************************************999.** PP

                              T-HHHHS--S-SSGGG-HHHHHHHHHHHHHHHHHHT-SEE-S-BS-HHHHHHHHHHHHHHH-SSS--EEEEETTS-HHHHHHHHHH CS
                    GDC-P  89 enpewytaYtPYqaEisqGrLeallnfqtlvadltGldianasllDegtAaaEAvllaaraskkkakkvvvdkkvhpqtlevlktr 174
                                 +  taYtPYq+E sqG+L++l  + + ++ ltG++  nas++D +t + EA++ a+r+ k+  ++ ++ ++++p  +evlkt 
  PHY93_01375|PHY93_01375 112 GLRGLTTAYTPYQPERSQGTLNTLWIYSSALSMLTGFEAVNASMYDRSTTLFEAIQAAMRIVKHT-NTALICESIYPGDIEVLKTL 196
                              **************************************************************999.999***************** PP

                              HGGGT-EEEEE-GGG--S-..............S-EEEEEEEES-TTSB----HHHHHHHHHTT-EEEEEE-TTGGGT..B--HHH CS
                    GDC-P 175 akglgieivevdlteekvtd...........kekevagvlvqypnteGriedlkelvekakkkkslvvvaadllaLtl..lkpPge 247
                              a+++g++i++ ++  e+                +++a++++ ++n +G++ed++el++ + + ++  ++  d++ L+   l pP e
  PHY93_01375|PHY93_01375 197 AQETGLKIITIPTDPETGITnieiarelalkIGSNLAAIAFPQVNNFGNLEDVHELTDLCTELNVQSIALFDPILLATdgLIPPVE 282
                              *********99876554433489999999988899*************************************88776544999987 PP

                              H.....T-SEEEEE-TTTT---GGG----EEEEE-GG.....GGGG--S-EEEEEEBTTS-EEEEEE-CCGSHHCCHHHCS-S--S CS
                    GDC-P 248 l.....gaDivvGsaqrfGvPlgyGGPhagffAvkek.....lkRkiPGRlvGvskDaegkralrlalqtREqHirRdkAtsniCt 323
                              +     ga+++vG++q++ +   +GGP  g f ++ +       R+ PGR++G +kD++gk  l ++l tREqHirRdkAtsniC+
  PHY93_01375|PHY93_01375 283 YgsqkqGANMIVGEGQHLAIAPNFGGPGLGIFGIRYNeknklDIRSTPGRFIGRAKDSDGKSCLCMVLSTREQHIRRDKATSNICS 368
                              622222689***********************99754345555799**************************************** PP

                              --HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT...T-EE--SSBSSEEEEE--TTTHHHHHHHHHHTT.......E CS
                    GDC-P 324 aqaLlAnlaalyavyhGkeglkeiarrihkkteilakelkkk..leeelkkkkffdtllieveekaaekvlkkaekeg.......l 400
                              +q  +A +a  ++ + G+eg++e a      +  +a+ l +   ++ ++    f++  + e+   +++++ k+a k++        
  PHY93_01375|PHY93_01375 369 NQSFIATAAGAAILARGEEGMTESALLGRDYALQMAQVLTQYkgVNLAFPSTPFYNEFTLELP-ITVSEIQKRASKANlqvgvdvS 453
                              **************************9999999999999887567778889999999999887.7888999999888723232211 PP

                              E-EEESTTEEEEE--TT--HHHHH CS
                    GDC-P 401 nlrkvelktvgialdEtvtkedie 424
                              n+ k   + ++++  +  t+ed+e
  PHY93_01375|PHY93_01375 454 NRLKDGRNLLLLSFFDVHTDEDLE 477
                              222233334556666666666665 PP

  == domain 2  score: 22.5 bits;  conditional E-value: 7.6e-09
                              HHS-GGGB--S---------H.HHHHHHHHHHHTTB--.-EE--BTTB------HHHHHHTTT-HHHHS--S-SSG.GG-HHHHHH CS
                    GDC-P  29 kavPkeiklkkelkleapksE.eellaelekiasknkv.vksfiGaGyydtilPaviqrnilenpewytaYtPYqa.EisqGrLea 111
                               ++P++    ++ k+  p+ E eel +  +k+a+ n     +    G   ++  + i+    + p++ t   P  + E  qG L+ 
  PHY93_01375|PHY93_01375 497 PEIPENFL--RTSKVGLPTLEmEELKTYYKKLADLNVSpDDNIYPLGSCTMKYNPYINDYAASLPGF-TDIHPQAPiEDVQGCLKI 579
                              56777663..444455554441345566777888777744445567777777777777777777776.444554433778****** PP

                              HHHHHHHHHHHHT-SEE-S-BS-HHHHHHHHHHHHHHH-SSS.....--EEEEETTS-HH.....HHHHHHHHH...GGGT-EEEE CS
                    GDC-P 112 llnfqtlvadltGldianasllDegtAaaEAvllaaraskkk.....akkvvvdkkvhpq.....tlevlktra...kglgieive 184
                              l+  q +   +tGl+   +  + ++      + l ++ ++++     ++ +++ ++ h       t++  +t++     +gi i+e
  PHY93_01375|PHY93_01375 580 LFSIQEMFKSITGLPAVTTQPVAGAQGELLGLKLFQAYHRNNgesesRNIILIPRSAHGTnpasaTMAGFETKTvdgTDYGIVIIE 665
                              **************988877665554444455555555554422222456778777774311111444456654222346666666 PP

                              E-GGG--S-...........S-EEEEEEEES-TTSB---.-HHHHHHHHHTT-EEEE.EE-TTGGGTB--HHHHT-SEEEEE-.TT CS
                    GDC-P 185 vdlteekvtd........kekevagvlvqypnteGried.lkelvekakkkkslvvv.aadllaLtllkpPgelgaDivvGsa.qr 259
                              ++ + +   d         ++ +agv+v  pnt+G  e  + +l++ ++    lv +  a++ a++      ++g+D v  +  + 
  PHY93_01375|PHY93_01375 666 ANKKGQIDFDqmkaaiekYNNRIAGVMVTNPNTSGIFETcFCDLSKLIHAVGGLVYMdGANMNAIAGWIDLDKMGVDAVHNNLhKT 751
                              6654444334788999878999*************9998799*********99998835788899999999******999885156 PP

                              TT---GGG----EEEEE-GGGGGG--S-EEEEEEBTTS CS
                    GDC-P 260 fGvPlgyGGPhagffAvkeklkRkiPGRlvGvskDaeg 297
                                +P g GGP  g +Av+++l   +PG  + v+kD++g
  PHY93_01375|PHY93_01375 752 WAIPHGGGGPGDGIVAVSHRLIDYLPG--IQVTKDSAG 787
                              89*************************..788999887 PP

>> Aminotran_5  Aminotransferase class-V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.2   0.1   4.4e-05      0.26      78     167 ..     166     258 ..     155     270 .. 0.81
   2 !   26.0   0.2     7e-10   4.2e-06     113     221 ..     658     776 ..     643     846 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 4.4e-05
                              HHHCCCC-TTTSEEEEETTSHGGGTHHHHHHHHHHTEEEEEEEBETTSCBE....GGGHHHH--TTEEEEEEESBETTTTEB--HH CS
              Aminotran_5  78 alslarslkpgdeivvteaehhanlvpwqelakrtgakvkvipldeegeld....ldelekllnektklvaithvsnvtGtiqpve 159
                              +++++r +k+ +++++ e+ + + +   + la++tg+k+  ip d+e  ++      el+ ++  + +++a+ +v+n  G++++v+
  PHY93_01375|PHY93_01375 166 IQAAMRIVKHTNTALICESIYPGDIEVLKTLAQETGLKIITIPTDPETGITnieiARELALKIGSNLAAIAFPQVNN-FGNLEDVH 250
                              33333447999999999999*************************99999865555666777899999999999988.7******* PP

                              HHHHHHHH CS
              Aminotran_5 160 eigklakk 167
                              e+++l+ +
  PHY93_01375|PHY93_01375 251 ELTDLCTE 258
                              ***99987 PP

  == domain 2  score: 26.0 bits;  conditional E-value: 7e-10
                              TEEEEEEEBETTSCBEGGGHHHH-...-TTEEEEEEESBETTTTE.B--HHHHHHHHHHTT-EEEEE-TT.TTTTS---HHHHTES CS
              Aminotran_5 113 gakvkvipldeegeldldelekll...nektklvaithvsnvtGt.iqpveeigklakkkgalvlvDaaq.avghipidvkklgvD 193
                               + +++i+++++g++d d++++++   n++++ v++t + n++G+    + ++ kl++++g lv +D+a  ++    id++k+gvD
  PHY93_01375|PHY93_01375 658 DYGIVIIEANKKGQIDFDQMKAAIekyNNRIAGVMVT-NPNTSGIfETCFCDLSKLIHAVGGLVYMDGANmNAIAGWIDLDKMGVD 742
                              67799*******************4444455555544.56899**667789******************8368899********** PP

                              EEEEETTT.TTSSTT-.....EEEEEEHHHHHTS CS
              Aminotran_5 194 flafsghK.llgPtGi.....Gvlyvrkellekl 221
                               +    hK    P G      G++ v+++l+  l
  PHY93_01375|PHY93_01375 743 AVHNNLHKtWAIPHGGggpgdGIVAVSHRLIDYL 776
                              ********76777653111115666666666555 PP

>> GD_AH_C  D-galactarate dehydratase / Altronate hydrolase, C terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.0     0.043   2.6e+02     320     360 ..      39      79 ..      32      91 .. 0.82
   2 ?    8.3   0.1   0.00015      0.91       3      86 ..     614     701 ..     612     707 .. 0.67

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.043
                  GD_AH_C 320 vvPviKvatntelaermsddiDvdagrilegeetieelgee 360
                              +  +iK+ t ++l+ +++dd+ +d  + +++e + ++l  +
  PHY93_01375|PHY93_01375  39 MLSSIKLKTLSDLYAHIPDDVKFDQVPFVTEELSYNDLIAH 79 
                              5678*************************998887766544 PP

  == domain 2  score: 8.3 bits;  conditional E-value: 0.00015
                  GD_AH_C   3 fkGYrradgrvGtrNyvlilptvecvnkvaeaiaeavkeelklpnvdgvvalthqygcgqlg...edaelllrtLag.lakhPNva 84 
                              f++Y+r++g+   rN +li  + + +n ++ ++a   +++++ +    v+  ++++g   ++   +  e   + +ag ++++PN  
  PHY93_01375|PHY93_01375 614 FQAYHRNNGESESRNIILIPRSAHGTNPASATMAGFETKTVDGTDYGIVIIEANKKGQIDFDqmkAAIEKYNNRIAGvMVTNPNTS 699
                              9******************9999999998888887644444444444444444555555333333444444444444267899988 PP

                  GD_AH_C  85 gv 86 
                              g+
  PHY93_01375|PHY93_01375 700 GI 701
                              86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1006 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       545  (0.0303977); expected 358.6 (0.02)
Passed bias filter:                      513  (0.0286129); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.80u 0.27s 00:00:01.07 Elapsed: 00:00:00.44
# Mc/sec: 6907.68
//
Query:       PHY93_16905|PHY93_16905  [L=386]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.1e-26   92.9  17.4    2.7e-16   59.9   5.8    2.0  2  OEP       Outer membrane efflux protein
  ------ inclusion threshold ------
        5.6    7.5  10.7       0.24   11.8   0.4    3.3  4  DUF4208   Domain of unknown function (DUF4208)


Domain annotation for each model (and alignments):
>> OEP  Outer membrane efflux protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.9   5.8     3e-20   2.7e-16       5     186 ..       8     182 ..       6     183 .. 0.91
   2 !   38.7   3.7   9.6e-14   8.6e-10      15     182 ..     213     381 ..     207     384 .. 0.89

  Alignments for each domain:
  == domain 1  score: 59.9 bits;  conditional E-value: 3e-20
                      OEP   5 lalalennpdlkaaeaeieaaeanlkaakaeflPtlslsgsygyegngsegggddggtgttsvgltlsqplfdggkrrarvkaaka 90 
                              +++ +enn++lk  ++ +++++a +k   + f P++sl +   +e++   g++ +       +g+ ++++lf+g k + + k+a +
  PHY93_16905|PHY93_16905   8 IQQLAENNLELKVTQQWVASSQAKIKSTGSHFIPEVSLYAKTENENAHKIGKNTS-------AGIFANINLFNGFKDIEQNKIASL 86 
                              68999***************************************99998777654.......************************ PP

                      OEP  91 qleaaeaqleqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislld.vlqaqvrllqaraelaeaeqq 175
                              ++e  +++++++ ++l++ ++  y+q l+++e ++ +ee+++ ++++  l+ ++   Gli +++ +++ +v+  +   e ++a+ +
  PHY93_16905|PHY93_16905  87 DYEVKKLTRKKSYNDLIFLAKLDYWQALKTQEYIKMLEEYQAINKSNRSLISKKVLGGLIPKSEeLNSKKVEF-NISEEMVKAKDE 171
                              ***************************************************************9677777764.455578888888 PP

                      OEP 176 lqlaraqLeyl 186
                              l++ ++ L++l
  PHY93_16905|PHY93_16905 172 LNILKSDLRKL 182
                              88888777765 PP

  == domain 2  score: 38.7 bits;  conditional E-value: 9.6e-14
                      OEP  15 lkaaeaeieaaeanlkaakaeflPtlslsgsygyegngsegggddggtgttsvgltlsqplfdggkrrarvk..aakaqleaaeaq 98 
                              l+  +ae e  +a++  +  +++P+++l +  ++ +  + ++  + +++ + +g+++ +pl    k++ +v+  a k +lea  ++
  PHY93_16905|PHY93_16905 213 LALVKAEEERGQAEKLSSSLWRMPKVNLYADQSFTDLRDGEFLIKTDNQPRVFGIKVILPLIG-EKNNDSVEeqAKKRELEALTLK 297
                              5555666677788888999999************************99999**********96.6666666511667778888888 PP

                      OEP  99 leqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislld.vlqaqvrllqaraelaeaeqqlqlaraq 182
                              +++++ + ++e ++ +  + ++k++++  ++ ++l++++l+ + a +k G   + d +++    + +a+++l+  + +++la  q
  PHY93_16905|PHY93_16905 298 RKAQLIERENEDEKKLITINYLKNSIDRSKNKVDLSKEILTKITAEFKMGVKEA-DsLNDSAEKYIEAQKDLLDHKIEYILAIEQ 381
                              999999999*********************************************.*99999999****************99766 PP

>> DUF4208  Domain of unknown function (DUF4208)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.1      0.44   3.9e+03      33      63 ..      18      48 ..       6      59 .. 0.62
   2 ?   11.8   0.4   2.7e-05      0.24      10      75 ..     167     234 ..     158     251 .. 0.84
   3 ?   -1.7   0.0      0.47   4.2e+03      35      67 ..     259     289 ..     242     298 .. 0.69
   4 ?    0.8   0.2     0.073   6.5e+02      22      63 ..     313     353 ..     308     367 .. 0.74

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.44
                  DUF4208 33 llskkerakilkkeLlkiGdfIdellkekke 63
                             l+ ++++++  + ++ + G++   ++  + +
  PHY93_16905|PHY93_16905 18 LKVTQQWVASSQAKIKSTGSHFIPEVSLYAK 48
                             4567888888888888888887666666655 PP

  == domain 2  score: 11.8 bits;  conditional E-value: 2.7e-05
                  DUF4208  10 eckellrpvkksLkrLkkltkekllskkerakilkkeLlkiGdfIdellkekke..ekkeklkkhlWe 75 
                              + k+ l+ +k++L++L   ++++  + k  ++  k+ Ll  G++Id  l + +e   + ekl ++lW+
  PHY93_16905|PHY93_16905 167 KAKDELNILKSDLRKLFTIKRDEPIEFKGSIETNKMNLLVSGNKIDLALVKAEEerGQAEKLSSSLWR 234
                              457889999********99888669*********************8877766667888********8 PP

  == domain 3  score: -1.7 bits;  conditional E-value: 0.47
                  DUF4208  35 skkerakilkkeLlkiGdfIdellkekkeekke 67 
                              +++ r+  +k  L  iG++ ++ ++e+ +  k+
  PHY93_16905|PHY93_16905 259 DNQPRVFGIKVILPLIGEKNNDSVEEQAK--KR 289
                              55566777788888899988888888754..22 PP

  == domain 4  score: 0.8 bits;  conditional E-value: 0.073
                  DUF4208  22 LkrLkkltkekllskkerakilkkeLlkiGdfIdellkekke 63 
                              L +++ l k+++ ++k+++   k+ L+ki  + +  +ke ++
  PHY93_16905|PHY93_16905 313 LITINYL-KNSIDRSKNKVDLSKEILTKITAEFKMGVKEADS 353
                              5556655.4557889999999999999998888888877655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (386 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1415  (0.0789224); expected 358.6 (0.02)
Passed bias filter:                      387  (0.0215851); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.66u 0.25s 00:00:00.91 Elapsed: 00:00:00.49
# Mc/sec: 2377.96
//
Query:       PHY93_01380|PHY93_01380  [L=546]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.9e-11   44.5   0.0    3.6e-11   43.5   0.0    1.4  1  5_nucleotid_C  5'-nucleotidase, C-terminal domain
      2e-09   38.2   1.6      2e-09   38.2   1.6    1.6  2  Metallophos    Calcineurin-like phosphoesterase


Domain annotation for each model (and alignments):
>> 5_nucleotid_C  5'-nucleotidase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.5   0.0     4e-15   3.6e-11      23     154 ..     363     493 ..     345     497 .. 0.85

  Alignments for each domain:
  == domain 1  score: 43.5 bits;  conditional E-value: 4e-15
                              HHHHHHHHHTGSTT--EEEEEGGG---.-BTTTEEEHHHHHHHS-..S--E......EEEEEEEHHHHHHHHHH.HTTTTTS--TT CS
            5_nucleotid_C  23 lgnliadalraaagadialangggira.dlpaGditvkdlltvlp..fgnt......lvvveltGaqlkeaLenesvsaskaasgr 99 
                               + +i+d+++++a+adia+ +++ +++ d+p G+++++dl++ +p  f+ t      +++ +++G  l  ++e      + ++ g+
  PHY93_01380|PHY93_01380 363 WAYFITDSMKEKAKADIAIHTPF-MNGeDFPVGNVSRRDLFNSIPrvFDLTekygwtIYTTKIKGVWLHLVFE------ALTHFGQ 441
                              5679*******************.555499***********9998663322556666****************......4678999 PP

                              -EEEESEEEEE-TTS-TT--EEEESSS-BEEE--TTSEEEEEEEHHHHTTGGG-H CS
            5_nucleotid_C 100 flqvsGlrytydlskpagervtslsvtvngkpldddktYkvatnsylasggdgfs 154
                               l +sG++++y  +    + ++s ++ +ngk++ + k+Y+va +  + +g +g s
  PHY93_01380|PHY93_01380 442 PLTFSGITMEYKQT---EHGIKSKRLLINGKAISPYKYYTVAFTEGIVKGAEGVS 493
                              999*******9976...6788888889*********************9999964 PP

>> Metallophos  Calcineurin-like phosphoesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.2   1.6   2.3e-13     2e-09       2     203 ..      52     263 ..      51     264 .. 0.71
   2 ?   -3.4   0.0       1.2   1.1e+04      89     110 ..     336     357 ..     320     382 .. 0.61

  Alignments for each domain:
  == domain 1  score: 38.2 bits;  conditional E-value: 2.3e-13
                              EEEEEESBTB..........TTCCTHHHHHHHHHHHHHHHTTESEEEEE.STSSSSS.....HHHHHHHHH.HHHHHHHTSEEEEE CS
              Metallophos   2 rilvigDlHl..........algggqlddllkllddllreekpdlvlla.GDlvdrg.....dlekellel.laalvkypipvyll 70 
                               il+++D+H             g ++l +l++++++  ++e++  +++  GD+ +++     d   ++ +   +  ++     + +
  PHY93_01380|PHY93_01380  52 QILHTNDTHSyldssdhdstRGGAARLKSLIDFYKNKMSDEGVKTLVMDaGDFSEGNlyymaDQGRKVFDVhNEMGYD-----VGA 132
                              69***************555545555555555554444446887777777**77777666554444444442223333.....9** PP

                              C-TTS.......................CHHHHHHHHHHHHHHHHHHHEHHHCEEETSEEEEEETTE...EEEEEEESECEEETHH CS
              Metallophos  71 lGNHe.......................gfeeellnkygylgifsepwrsdaevfnnlplaslgsgs...lkvlllhGgspellvs 130
                              lGNH+                       +   +l+  y++++i ++++  +    +++ +  lg ++   ++ + ++Gg       
  PHY93_01380|PHY93_01380 133 LGNHDylmgthdldkilgemdlkfslvaA---NLQMNYEFKNIRAKIKPFKEFEIDGIKIGILGLTTneiFYKWRIDGG------- 208
                              *********99999999999999977664...67777777777777777778888889999988888889999999999....... PP

                              HHHHHHHHHSCHHHHCCHHHHHHHHHHTTCSEEEEEESSESSCSSSCSCCHHHHHHH.HHHTTESEEEEESSSS CS
              Metallophos 131 ldklgslnleleapepgdewlkdlekrekadwvivlgHsplyrgsgylfgdealedl.lkkygvdlvisGHtHv 203
                                  +  n ++ a++  +++lk+    +k+d++++l+H+++          + + +l ++ + +dl+i+GH+H+
  PHY93_01380|PHY93_01380 209 ----RITNPYKAAKHY-EQILKQ----RKNDFILALTHIGVL---------NDI-KLaERTKYIDLIIGGHSHT 263
                              ....222222222222.899999....***************.........333.34255556**********6 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 1.2
                              HHHHHHHEHHHCEEETSEEEEE CS
              Metallophos  89 gifsepwrsdaevfnnlplasl 110
                              ++++++w +++  f+ l +++ 
  PHY93_01380|PHY93_01380 336 NTYGKDWLDEHVGFSDLKSNDK 357
                              3345556666666655555553 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (546 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       353  (0.0196888); expected 358.6 (0.02)
Passed bias filter:                      295  (0.0164538); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.60u 0.25s 00:00:00.85 Elapsed: 00:00:00.47
# Mc/sec: 3500.32
//
Query:       PHY93_01385|PHY93_01385  [L=561]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.7e-44  151.1   0.0    4.1e-44  150.5   0.0    1.3  1  GTP_EFTU     Elongation factor Tu GTP binding domain
    3.1e-43  146.7   0.1    5.4e-43  146.0   0.1    1.4  1  RF3_C        Class II release factor RF3, C-terminal domain
    7.4e-08   32.7   0.0    1.4e-07   31.8   0.0    1.5  1  GTP_EFTU_D2  Elongation factor Tu domain 2
    4.1e-07   30.0   0.0    9.3e-07   28.9   0.0    1.5  1  EFG_II       Elongation Factor G, domain II
    0.00018   21.6   0.0    0.00049   20.2   0.0    1.7  1  MMR_HSR1     50S ribosome-binding GTPase
  ------ inclusion threshold ------
       0.19   11.2   0.5        1.1    8.7   0.1    2.4  2  SRPRB        Signal recognition particle receptor beta subuni


Domain annotation for each model (and alignments):
>> GTP_EFTU  Elongation factor Tu GTP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  150.5   0.0   1.4e-47   4.1e-44       4     191 ..      38     298 ..      35     301 .. 0.90

  Alignments for each domain:
  == domain 1  score: 150.5 bits;  conditional E-value: 1.4e-47
                              EEEEEEESTTSSHHHHHHHHHHHTTSSCHHHHHH...HHHSTHCHSHHHHHHTSCSSCEEEEEETTCSSEEEEEEEESSSGGGHHH CS
                 GTP_EFTU   4 rnigiighvDhGKtTLtdrLlyktgaiskkgeka...eeervlDtlkeErergiTiksaaisleketkkylinliDtPGHvdFske 86 
                               +++ii+h D+GKtT+t++Ll+  + i++ g+++   ++ +  D+++ E+ergi+i+s+++s+   ++++ ++l+DtPGH+dFs++
  PHY93_01385|PHY93_01385  38 CTFAIISHPDAGKTTMTEKLLWFGQVIRDVGKVKakdGNYAKSDWMQLEQERGISISSSVMSFP--YADRAMHLLDTPGHKDFSED 121
                              5799*************************9999976444777**********************..******************** PP

                              HHHHHHT-SEEEEEEETTTBSTHHHHHHHHHHHHTTTEEEEEEESCGSTHHHHHHHHHHHHHHHHHH................... CS
                 GTP_EFTU  87 virglrvlDgavlvvdaveGvepqteevlrlalkegvpiivfiNKmDrlkaelkeiveevkqklsrk................... 153
                              ++r+l +++ +++++d+++Gve+qt +++++++ +++pi+ f+NK Dr   +   + e++++ l+ +                   
  PHY93_01385|PHY93_01385 122 TYRTLTAVESVLMMIDSAKGVEAQTIKLMEVCRMRDTPIVAFMNKYDREAMDPFALLENIEKILNIQcvpmtwpigsgvdfkgvyd 207
                              *************************************************************999777******************* PP

                              ......................................................HHHHHHHHHTTT.........TTEEEEEEBTT CS
                 GTP_EFTU 154 ......................................................eeklekygekge.........kevpvvfgSal 176
                                                                                               e          ++pv+fgSal
  PHY93_01385|PHY93_01385 208 lrtkqimsfknakdpfnpividasdlnspnvllfigeslqtilkdelemvttviG----------EfseeeflagIQTPVFFGSAL 283
                              **99999999999999999999999999999999988888888777666655531..........033344455579********* PP

                              TTBTHHHHHHHHHHH CS
                 GTP_EFTU 177 kgegvktllealvel 191
                              +++gvk+ l+++   
  PHY93_01385|PHY93_01385 284 NNFGVKETLDMIALA 298
                              ***********9865 PP

>> RF3_C  Class II release factor RF3, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  146.0   0.1   1.8e-46   5.4e-43       1     130 [.     420     547 ..     420     548 .. 0.97

  Alignments for each domain:
  == domain 1  score: 146.0 bits;  conditional E-value: 1.8e-46
                              B---EEE--SEEEEEEESSGGGHHHHHHHHHHHHHCTSSEEEEET.TSS-EEEEESSTHHHHHHHHHHHHHH---EEEEE-S--EE CS
                    RF3_C   1 FegiPsFaPElfarvrlkdplkrkqlrkgleqLaeEGavqvfkeeeageelilgaVGqLQfeVveeRlknEYgvevrleslpysla 86 
                              F+giP+FaPE+f++v lkdp+k+kql+kgl+qL+eEG+vq+f+++ +++e ilgaVG+LQfeVv++Rl++EY+v++++e +++  +
  PHY93_01385|PHY93_01385 420 FTGIPNFAPEIFNKVVLKDPMKAKQLEKGLQQLSEEGTVQLFTRH-STSEKILGAVGALQFEVVKYRLEDEYNVNADYEGYSFIGV 504
                              99*****************************************99.899************************************* PP

                              EEEE-SSH.HHHHHHHHHCGGGEEEETTS-EEEEESSHHHHHHH CS
                    RF3_C  87 rwvesedekkkleelkkkseselvkdkkgrpvlLfenewelelv 130
                              rw++ ++ek +  +++++++s++v+d+k+r ++ +++ew+l+lv
  PHY93_01385|PHY93_01385 505 RWLKFASEK-DQGTFMANNSSNIVYDHKNRICFSVRSEWDLKLV 547
                              ***998885.579***************************9976 PP

>> GTP_EFTU_D2  Elongation factor Tu domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.8   0.0   4.8e-11   1.4e-07       2      74 .]     347     413 ..     346     413 .. 0.96

  Alignments for each domain:
  == domain 1  score: 31.8 bits;  conditional E-value: 4.8e-11
                              EEEEEEEEESEEETTEEEEEECTCTTSEEEEEEEEEEEEETEEESEEETTSEEEEEEEESSCCSGSSTTCEEE CS
              GTP_EFTU_D2   2 tvalgrvysGtlkkGdevrilgndtskkeivtrissletfhededeavaganaGvivaikgledaiivGdtlt 74 
                              ++a+ rv sG++ ++++++   ++t+k+    +i   ++f+++ +e  ++a+ G+i+++ +  +  ++Gdt+t
  PHY93_01385|PHY93_01385 347 RIAFLRVCSGKFLRNQKIYH--VRTGKE---LKIATPLMFQAQDREITEEAYPGDIIGLHDNGK-FQIGDTFT 413
                              689*****************..99*999...*********************************.8*****85 PP

>> EFG_II  Elongation Factor G, domain II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.9   0.0   3.1e-10   9.3e-07       7      72 ..     431     495 ..     427     497 .. 0.90

  Alignments for each domain:
  == domain 1  score: 28.9 bits;  conditional E-value: 3.1e-10
                   EFG_II   7 slaiepkskadedklskaLarlleEDptlrverdeeTketilsGmGelHleivverlkreykveve 72 
                              +  +  k+  ++++l+k L++l+eE  t+++ +   T e il ++G l++e+v+ rl+ ey+v+++
  PHY93_01385|PHY93_01385 431 FNKVVLKDPMKAKQLEKGLQQLSEE-GTVQLFTRHSTSEKILGAVGALQFEVVKYRLEDEYNVNAD 495
                              556777888999*********9877.69***********************************986 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.2   0.0   1.6e-07   0.00049       2     114 .]      40     166 ..      39     166 .. 0.64

  Alignments for each domain:
  == domain 1  score: 20.2 bits;  conditional E-value: 1.6e-07
                              EEEEESTTSSHHHHHHHHH......TSTEEESSSTTSSSSEEEEEEE...............ETTEEEEEEECGGCSSHHHHHHHH CS
                 MMR_HSR1   2 vaivGrpNvGKStLinalt......gekaivsdkpgtTrdinegrvk...............lkgkeielvDtpGliegaseekgl 66 
                              +ai+ +p +GK+t+  +l+      +++ +v++k g   +  + +++               + ++ ++l+DtpG  +        
  PHY93_01385|PHY93_01385  40 FAIISHPDAGKTTMTEKLLwfgqviRDVGKVKAKDGNYAKSDWMQLEqergisisssvmsfpYADRAMHLLDTPG-HK-----DFS 119
                              589999************8554444123344444443333333333322222222222222244667********.33.....346 PP

                              HHHHHHHHCTSEEEEEEETTTTCSHHHHHHHHHHHHHTTSEEEEEEES CS
                 MMR_HSR1  67 gkaflaleeadlillvvdaseeklkpldeeleelleeakkplilvlnk 114
                              +++++ l  ++ +l+++d++ ++++++  +l e+ + ++ p++  +nk
  PHY93_01385|PHY93_01385 120 EDTYRTLTAVESVLMMIDSA-KGVEAQTIKLMEVCRMRDTPIVAFMNK 166
                              67777777789*******66.679888888888887788998888887 PP

>> SRPRB  Signal recognition particle receptor beta subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.7   0.1   0.00035       1.1      34      86 ..      92     139 ..      35     150 .. 0.64
   2 ?   -3.4   0.0       1.9   5.6e+03     135     155 ..     443     463 ..     436     472 .. 0.66

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 0.00035
                              -S.S-EEETTG...GGTT-SEEEETT-GCCSHHHHHHHHHHGGEEEEEEEEETT CS
                    SRPRB  34 Sq.essaalkvksekgskltliDfPGheklrqklleklkaksslkglvfvvDSt 86 
                              S+  s ++       +  ++l+D PGh+ +  +   +    + + +++ ++DS+
  PHY93_01385|PHY93_01385  92 SIsSSVMSFP---YADRAMHLLDTPGHKDFSEDTYRT---LTAVESVLMMIDSA 139
                              3322222333...478999***********9987777...67788899999997 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 1.9
                              HHHHHHHHHHHHCHHHHHH-- CS
                    SRPRB 135 daLEkElnkiierrskalkel 155
                              ++LEk l+++ e    +l + 
  PHY93_01385|PHY93_01385 443 KQLEKGLQQLSEEGTVQLFTR 463
                              578888888877666555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (561 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       390  (0.0217525); expected 358.6 (0.02)
Passed bias filter:                      342  (0.0190752); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.64u 0.25s 00:00:00.89 Elapsed: 00:00:00.47
# Mc/sec: 3602.29
//
Query:       PHY93_01390|PHY93_01390  [L=175]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.3e-35  122.7   0.0    4.3e-32  111.2   0.0    2.0  2  YecM        YecM protein
  ------ inclusion threshold ------
      0.092   12.5   0.0       0.13   12.0   0.0    1.2  1  Cactin_mid  Conserved mid region of cactin


Domain annotation for each model (and alignments):
>> YecM  YecM protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  111.2   0.0   4.8e-36   4.3e-32       3     141 ..       6     145 ..       4     146 .. 0.92
   2 !   11.5   0.0   1.9e-05      0.17     154     180 .]     139     165 ..     135     165 .. 0.89

  Alignments for each domain:
  == domain 1  score: 111.2 bits;  conditional E-value: 4.8e-36
                              HHHHHHHHHHHHHHHHHHHHHT---TT-EEEEEEEE-S-HHHHHHHHHHHTTTEEEEEEEEETTEEEEEEEEEEEEEETTEEEEEE CS
                     YecM   3 kelledlkeFeqkiqqlakklgldlsqleiDHialRvneeetaeawkeallqegellseneiNGRpIllfkLeqplqveeqkidvv 88 
                              +e+++d   F+++i++ +++++l+++++e+DHi++Rv++ + ++ +ke+l++ gell e+++NGR I++fkL  p++++++ki +v
  PHY93_01390|PHY93_01390   6 AEVIGDPLVFLENIFSKIADIELKVDNYELDHICYRVQSVSEYKIKKEELSSLGELLIESMVNGRLISTFKLYGPIVYKNRKIFLV 91 
                              567888889***************************************************************************** PP

                              EEE---SS--SS-EEEEEEEE--S-GGGHHHHHHHTS-HHHHHST....T-EEE CS
                     YecM  89 ELPypkekkypqegwEHielVlpseaqeleeealallekeallkkele.gikvk 141
                              ELP+pk+ +    g+EH+e+V++   q+++++  +   + + ++k+++ +i++k
  PHY93_01390|PHY93_01390  92 ELPSPKSMHSYPSGLEHVEFVTKDPLQKIVDRYPQYSFEVFGIHKKINaDITLK 145
                              *******888889**************999999988888877777665566665 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 1.9e-05
                              ---EEEESSS-EEEEESS-HHHHHHH- CS
                     YecM 154 nptlaikkneitiKlHphslkeivesE 180
                              n  + +k +e++i++H +sl+e+++ E
  PHY93_01390|PHY93_01390 139 NADITLKLGEYCIRFHNQSLEEVINLE 165
                              66788999****************976 PP

>> Cactin_mid  Conserved mid region of cactin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   1.5e-05      0.13     106     169 ..     108     174 ..     102     175 .] 0.84

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 1.5e-05
               Cactin_mid 106 allvvckdeleklkkkeeekeaaeeaeesgihasveadikkilk.......gksleeLeelekqikekLes 169
                               + +v+kd l+k+ ++  +     + e  gih++++adi+  l        ++slee  +lek+ ++kL+s
  PHY93_01390|PHY93_01390 108 HVEFVTKDPLQKIVDRYPQ----YSFEVFGIHKKINADITLKLGeycirfhNQSLEEVINLEKKLNTKLKS 174
                              5778999999997665333....3456779**********99999999999******************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (175 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       451  (0.0251548); expected 358.6 (0.02)
Passed bias filter:                      306  (0.0170673); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.20s 00:00:00.62 Elapsed: 00:00:00.38
# Mc/sec: 1376.94
//
Query:       PHY93_01395|PHY93_01395  [L=310]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.4e-21   76.9   0.1    1.8e-21   76.6   0.1    1.1  1  Methyltrans_SAM  S-adenosylmethionine-dependent methyltransfe
    4.4e-11   42.7   0.5    9.1e-11   41.7   0.0    1.7  2  Cons_hypoth95    Conserved hypothetical protein 95
    1.5e-07   32.0   0.0    7.2e-07   29.8   0.0    2.1  2  Methyltransf_25  Methyltransferase domain
    2.9e-06   27.8   0.0    9.2e-06   26.2   0.0    1.9  1  Methyltransf_11  Methyltransferase domain
    9.5e-06   25.3   0.0    1.5e-05   24.6   0.0    1.3  1  MTS              Methyltransferase small domain
     0.0047   17.7   0.1       0.11   13.2   0.0    2.5  2  Methyltransf_12  Methyltransferase domain
      0.008   17.2   0.0      0.026   15.6   0.0    1.8  1  Methyltransf_24  Methyltransferase domain
  ------ inclusion threshold ------
       0.08   12.3   0.0       0.16   11.3   0.0    1.4  1  PrmA             Ribosomal protein L11 methyltransferase (Prm
        0.1   12.2   0.0       0.18   11.4   0.0    1.5  1  Methyltransf_15  RNA cap guanine-N2 methyltransferase


Domain annotation for each model (and alignments):
>> Methyltrans_SAM  S-adenosylmethionine-dependent methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.6   0.1   8.9e-25   1.8e-21      62     253 ..      86     281 ..      52     301 .. 0.84

  Alignments for each domain:
  == domain 1  score: 76.6 bits;  conditional E-value: 8.9e-25
          Methyltrans_SAM  62 slvlqhryadgaasev.lvgeldespvvvesglkyqldigrnqnfglfldmrlgrdwvqenakdknvlnlfaytcgfsvaaiagga 146
                              ++v++ r +++ a+++    e +e+  v+e    + +++    ++glfld r  r+ + ++a+ k+ lnlf+yt   sv a  gga
  PHY93_01395|PHY93_01395  86 KIVIKSRKKQKGATQYeRLEERNETITVKEYQAEFLVNLHDYLDTGLFLDHRPMRQLIFNEARAKKFLNLFSYTGTVSVMAALGGA 171
                              678888877766655515678999************************************************************** PP

          Methyltrans_SAM 147 skvvnvdmargslnkgrdnhrlnghdlrrvsflgydifkswgkikksgpydlviidppsfqkg.....sfaltkdykkilrrlpel 227
                              ++v  vd++ +  +  r+n   n+  l++ +f+ +  +    k     ++dl+ +dpp+f +       f + kd   +++    l
  PHY93_01395|PHY93_01395 172 THVTSVDLSSTYQDWARKNFEHNKISLKEHNFIVQSALDYLEK--AVNKFDLIFLDPPTFSNSkkmeeDFEVEKDQVVLIKNCLRL 255
                              *********************************9998887665..4678***********75422222799*************** PP

          Methyltrans_SAM 228 lveggevlacvnspavspdflieema 253
                              l +gg++    n+     d +i ema
  PHY93_01395|PHY93_01395 256 LNPGGTLYFSNNKRKFKLDPIIAEMA 281
                              *******9998876655555555543 PP

>> Cons_hypoth95  Conserved hypothetical protein 95
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.1       1.3   2.5e+03     133     170 ..      73     109 ..      65     117 .. 0.60
   2 !   41.7   0.0   4.6e-14   9.1e-11      38     145 ..     145     251 ..     137     289 .. 0.79

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 1.3
                              HHHHHHTT-EEEEEEEEEEEECCSSS--.-TTEEEEEE CS
            Cons_hypoth95 133 lelleekkllkenalvvvetekekelpespenlelvke 170
                              ++++++  +l ++  +v+++ k+++  ++ e le  +e
  PHY93_01395|PHY93_01395  73 ISAVKNVLHL-PEEKIVIKSRKKQKGATQYERLEERNE 109
                              5555533333.445556666666677777777766555 PP

  == domain 2  score: 41.7 bits;  conditional E-value: 4.6e-14
                              CCHCC-EEEETT-TTSHHHHHHHHTT-SEEEEEES-HHHHHHHHHHHCCCT--T.TTEEEEES-HHHHCTS--SS-EEEEEEE--S CS
            Cons_hypoth95  38 aeiegarvLDlfaGsGalglEAlSRgakkavlvekdkeavkilkenleelklee.etaelkedaleallklakkkeefdivflDPP 122
                              +e + +++L+lf+ +G++++ A+  ga +++ v+ +++ +   ++n e+ k++  e++ ++++al+ l+k     ++fd++flDPP
  PHY93_01395|PHY93_01395 145 NEARAKKFLNLFSYTGTVSVMAALGGATHVTSVDLSSTYQDWARKNFEHNKISLkEHNFIVQSALDYLEKA---VNKFDLIFLDPP 227
                              4567889********************************************99955555566666555555...457********* PP

                              .SSTTCH.HHHHHHHHHTT-EEEE CS
            Cons_hypoth95 123 .yakellieevlelleekkllken 145
                               + +++ +ee +e  +++ +l +n
  PHY93_01395|PHY93_01395 228 tFSNSKKMEEDFEVEKDQVVLIKN 251
                              777777778877765555555444 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.0       2.3   4.6e+03      61      79 ..      65      84 ..      18      89 .. 0.65
   2 !   29.8   0.0   3.6e-10   7.2e-07       8      97 .]     159     260 ..     153     260 .. 0.80

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 2.3
                             STTTEEEEEEEST.GGGSSH CS
          Methyltransf_25 61 edgsfDlvvssga.lhhlsd 79
                             + ++f++++s+   + hl++
  PHY93_01395|PHY93_01395 65 KFEHFNYIISAVKnVLHLPE 84
                             33467777765555555554 PP

  == domain 2  score: 29.8 bits;  conditional E-value: 3.6e-10
                              TSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTT...TEEEEESBCCG.BSSSTTTEEEEEE.........ESTGGG.SS. CS
          Methyltransf_25   8 tGrltlalakrlgkakvtgvDiseemleaareraeeegl...nvefvqgdaed.lpfedgsfDlvvs.........sgalhh.ls. 78 
                              tG+++ ++a   g+ +vt vD+s+++ + ar+++e++++   + +f++++a d l+ + ++fDl+++            ++  ++ 
  PHY93_01395|PHY93_01395 159 TGTVSVMAALG-GATHVTSVDLSSTYQDWARKNFEHNKIslkEHNFIVQSALDyLEKAVNKFDLIFLdpptfsnskK--MEEdFEv 241
                              67777666644.79**********************999999999*999997758999********98887765330..4433331 PP

                              HHHHHHHHHHHHHHEEEEE CS
          Methyltransf_25  79 dedlekalkeiarvLkpgG 97 
                              ++d+  ++k++ r+L+pgG
  PHY93_01395|PHY93_01395 242 EKDQVVLIKNCLRLLNPGG 260
                              4677889***********9 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.2   0.0   4.6e-09   9.2e-06      10      96 .]     164     264 ..     157     264 .. 0.78

  Alignments for each domain:
  == domain 1  score: 26.2 bits;  conditional E-value: 4.6e-09
                              HHHHHHHTT.SEEEEEES-HHHHHHHHHHCCHHT-...EEEETTEECCC.TSS-TT-EEEEEEES.-CCC-C..........CHHH CS
          Methyltransf_11  10 laealakrg.arvvgvDlskemlklakekaseegl...kvefvvadaek.lpfednsfDlvvsse.vlhhve..........dpek 79 
                              +++al   g ++v+ vDls +  ++a+++ + +++   + +f+v++a + l  + n+fDl+++   ++ + +          d+  
  PHY93_01395|PHY93_01395 164 VMAALG--GaTHVTSVDLSSTYQDWARKNFEHNKIslkEHNFIVQSALDyLEKAVNKFDLIFLDPpTFSNSKkmeedfevekDQVV 247
                              333333..479**********************9999966788888888579999*******98864444423334444545**** PP

                              HHHHHHHHEEEEEEEEE CS
          Methyltransf_11  80 alkeiaRvLkpgGllvi 96 
                              ++k++ R+L pgG+l++
  PHY93_01395|PHY93_01395 248 LIKNCLRLLNPGGTLYF 264
                              **************987 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.6   0.0   7.8e-09   1.5e-05      30     142 ..     147     269 ..     125     288 .. 0.75

  Alignments for each domain:
  == domain 1  score: 24.6 bits;  conditional E-value: 7.8e-09
                              CTCSEEEEET-TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHTTGC...EEEEE-...STTTTSTTS-EEEEEE---.ST CS
                      MTS  30 elsgkvlDlGcGaGvlgaalakespeaevtlvdvdarAlesakenleankle...vevvas...dvleeveekkfdlivsNPP.fh 108
                              ++++k l l + +G +++++a     ++vt vd +    + a++n+e+nk++    +++ +   d le++  +kfdli   PP f 
  PHY93_01395|PHY93_01395 147 ARAKKFLNLFSYTGTVSVMAAL-GGATHVTSVDLSSTYQDWARKNFEHNKISlkeHNFIVQsalDYLEKAV-NKFDLIFLDPPtFS 230
                              4677888888889999998776.55669***********************98885555551115555555.9**********666 PP

                              TTCHCHHHHHHH.....HHHHHHHHEEEEEEEEEEEETT CS
                      MTS 109 agkatelavaee.....liaeAkeaLkegGeLliVanrk 142
                              ++k++e++   e     li++  + L++gG+L++  n+ 
  PHY93_01395|PHY93_01395 231 NSKKMEEDFEVEkdqvvLIKNCLRLLNPGGTLYFSNNKR 269
                              666655544322234459**************9977653 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.0       0.2     4e+02      53      79 ..      54      83 ..      45     112 .. 0.74
   2 !   13.2   0.0   5.6e-05      0.11      19      99 .]     170     262 ..     158     262 .. 0.72

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.2
          Methyltransf_12 53 lealdlldldgg.ssfDlvvas..nvlhhl 79
                             +e++d++ ++++ ++f +++++  nvlh  
  PHY93_01395|PHY93_01395 54 FEKRDDEIDAEKfEHFNYIISAvkNVLHLP 83
                             44455444444459****996556999975 PP

  == domain 2  score: 13.2 bits;  conditional E-value: 5.6e-05
          Methyltransf_12  19 pdieytgvDispsaiedakeklakrennnnnnvelealdlldldgg..ssfDlvvas.nvlhhl..........kdirevldnirk 91 
                                +++t vD+s+   + a++ + +++  + ++ ++ ++++ld  ++  ++fDl+++   ++++           kd   +++n+ +
  PHY93_01395|PHY93_01395 170 GATHVTSVDLSSTYQDWARKNFEHNKI-SLKEHNFIVQSALDYLEKavNKFDLIFLDpPTFSNSkkmeedfeveKDQVVLIKNCLR 254
                              5689999***99999667766666665.445555555555555555689******66677777777778888889*********** PP

          Methyltransf_12  92 lLkpgGrl 99 
                              lL+pgG l
  PHY93_01395|PHY93_01395 255 LLNPGGTL 262
                              ******86 PP

>> Methyltransf_24  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   1.3e-05     0.026      20     103 ..     168     264 ..     156     266 .. 0.71

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 1.3e-05
          Methyltransf_24  20 rngagrlvavdhdpgaeeaaalareaglddr......vrlikadseealaslaagsiDllfiDgghaa.............eavle 86 
                                ga+++++vd      +++ +ar+ +++++       ++i++ + ++l++    ++Dl+f+D + +              ++   
  PHY93_01395|PHY93_01395 168 LGGATHVTSVDLSS---TYQDWARK-NFEHNkislkeHNFIVQSALDYLEKAV-NKFDLIFLDPP-TFsnskkmeedfeveKDQVV 247
                              345689********...88888887.333333333347888888899999888.89*******65.55577677777666556666 PP

          Methyltransf_24  87 dleallprlapggvvlf 103
                               ++++l++l+pgg++ f
  PHY93_01395|PHY93_01395 248 LIKNCLRLLNPGGTLYF 264
                              67999999999999876 PP

>> PrmA  Ribosomal protein L11 methyltransferase (PrmA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0     8e-05      0.16     172     230 ..     159     222 ..     145     224 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 8e-05
                     PrmA 172 SGiLaiaaakLgakkvvavDiDevAvkvakeNaelNkvea...klevalseellk..eekadvi 230
                              +G  ++ aa+ ga +v+ vD+ +   + a++N+e Nk++    ++ v+ + + l+   +k+d+i
  PHY93_01395|PHY93_01395 159 TGTVSVMAALGGATHVTSVDLSSTYQDWARKNFEHNKISLkehNFIVQSALDYLEkaVNKFDLI 222
                              68899*******************************9986212343433344443344567776 PP

>> Methyltransf_15  RNA cap guanine-N2 methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   9.1e-05      0.18       4     107 ..     152     253 ..     149     277 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 9.1e-05
          Methyltransf_15   4 ilDlfsGaGGnviqfalv.fekviaieinleklacaqhNaevYgvsdkitlvlgdv..fellaklklekikvdlvflSpPwGGpsY 86 
                               l lfs +G  ++  al   ++v +++ +      a +N e      ki l+  ++  +++l  l+ ++ k+dl+fl pP+   s 
  PHY93_01395|PHY93_01395 152 FLNLFSYTGTVSVMAALGgATHVTSVDLSSTYQDWARKNFEHN----KISLKEHNFivQSALDYLEKAVNKFDLIFLDPPTFSNSK 233
                              5677777766665555554567899999999999999999976....5555555541145677777777799************** PP

          Methyltransf_15  87 kkqekfdlkkklkplkleqll 107
                              k +e+f++ +k + + ++++l
  PHY93_01395|PHY93_01395 234 KMEEDFEV-EKDQVVLIKNCL 253
                              ********.555666666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (310 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       946  (0.0527637); expected 358.6 (0.02)
Passed bias filter:                      505  (0.0281667); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.41
# Mc/sec: 2263.83
//
Query:       PHY93_01400|PHY93_01400  [L=395]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    2.1e-45  154.6   0.1    4.9e-45  153.4   0.1    1.6  1  DEAD        DEAD/DEAH box helicase
    1.6e-28   99.2   0.3    1.7e-25   89.5   0.0    3.3  3  Helicase_C  Helicase conserved C-terminal domain
    9.6e-08   32.2   0.3    2.6e-07   30.8   0.0    1.8  2  ResIII      Type III restriction enzyme, res subunit
  ------ inclusion threshold ------
      0.019   14.6   0.0      0.036   13.7   0.0    1.4  1  SWI2_SNF2   SWI2/SNF2 ATPase
       0.71   10.4   2.4         24    5.4   0.0    2.6  2  FidL_like   FidL-like putative membrane protein


Domain annotation for each model (and alignments):
>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  153.4   0.1   1.4e-48   4.9e-45       1     175 [.      24     190 ..      24     191 .. 0.95

  Alignments for each domain:
  == domain 1  score: 153.4 bits;  conditional E-value: 1.4e-48
                              -HHHHHHHHHHHTTCEEEEEESTTSSHHHHHHHHHHHHHHHSTTSTS-EEEEEESSHHHHHHHHHHHHHHTTTSTSEEEEEETTSS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD   1 tdiQaeaiplilgggdvlvaaeTGsGKTlaflipvlqivyetkgktgpkalivePtreLaeqtlnnlkkfkkyidlrvlliiggva 86 
                              t+iQ +++p+i++g+++++  eTGsGKTl f++p++++++    k+ +k+li++Pt+eL eq+l  +kk++ +++l  ++++gg++
  PHY93_01400|PHY93_01400  24 TEIQTRCMPIIMEGKNLIGVSETGSGKTLSFVLPLIDKIIG-SPKRPTKILIITPTKELSEQILAVVKKVCRHTNLISMSLYGGTS 108
                              79*************************************98.667777*****************************9******** PP

                              HHHHHHHHHTTCSEEEEEHHHHHHHHHCTSSHCTTEEEEEEETHHHHHHTTTHHHHHHHHHHSHHHCTTSTTTSEEEEEESSBSHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  87 ardqlskldngvdivvgtpgrlddllstgklnlsqvrflVlDEadrlldqgfsdfinrilnqlpqitcdgklqrqvivlSATlpkd 172
                              +++q+++l+ngv+i+v+ pgrl d++++g+++l+ +++lVlDEad+l+d+gf + +   ln++   t   +  +q++++SAT++ +
  PHY93_01400|PHY93_01400 109 YDSQVRDLKNGVHIIVACPGRLKDHIDKGSIDLKGIEYLVLDEADQLMDMGFLPALTVALNAT---T---N-RKQTLLFSATVSPE 187
                              *************************************************************99...2...2.345********988 PP

                              HHH CS
                              xxx RF
                     DEAD 173 vkk 175
                              +++
  PHY93_01400|PHY93_01400 188 IQE 190
                              876 PP

>> Helicase_C  Helicase conserved C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.5   0.0      0.05   1.8e+02      11      56 ..      64     113 ..      54     127 .. 0.73
   2 ?    3.5   0.0     0.025        89       9      58 ..     167     216 ..     160     229 .. 0.76
   3 !   89.5   0.0   4.8e-29   1.7e-25       9     110 ..     232     332 ..     223     333 .. 0.87

  Alignments for each domain:
  == domain 1  score: 2.5 bits;  conditional E-value: 0.05
                              HHTTTTSEEEEEESSHHHHHH....HHHHHHHTTSTEEEESTTSTHHHHH CS
               Helicase_C  11 kleeeggkilifvntidrlek....vklllekkgikvavlhgelpqnere 56 
                               + ++  kili+++t++  e+    vk ++++ ++ +  l+g ++ +++ 
  PHY93_01400|PHY93_01400  64 GSPKRPTKILIITPTKELSEQilavVKKVCRHTNLISMSLYGGTSYDSQV 113
                              5568899**********777665565555555578888888888887775 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.025
                              HHHHTTTTSEEEEEESSHH.HHHHHHHHHHHT..TSTEEEESTTSTHHHHHHH CS
               Helicase_C   9 llkleeeggkilifvntid.rlekvklllekk..gikvavlhgelpqnereei 58 
                               l+ + +++++l+f+ t++ +++  +l+ + +  + + + lh + p++  +ei
  PHY93_01400|PHY93_01400 167 ALNATTNRKQTLLFSATVSpEIQ--ELI-KDFmpESTLVQLHDTKPKEVIQEI 216
                              4577899************9996..555.344567888888887777766666 PP

  == domain 3  score: 89.5 bits;  conditional E-value: 4.8e-29
                              HHHHTTTTSEEEEEESSHHHHHH..HHHHHHHTTSTEEEESTTSTHHHHHHHHHHHHTTSSSEEEESGGGTSSSTSTTESEEEESS CS
               Helicase_C   9 llkleeeggkilifvntidrlek..vklllekkgikvavlhgelpqnereeileqfnkgesdvLiatdvaerGidipkvnlVinfd 92 
                              ll ++++ + +lif++t+d+++   ++l     ++++++l+g++++ +r+++l++ + ++  vL+atdv++rGidip v++Vinf 
  PHY93_01400|PHY93_01400 232 LL-KHKKIKACLIFTRTKDEANAlgAQLA--LDNYQAVTLQGDMTTHQRKKALDALKLKSAMVLVATDVVSRGIDIPHVTHVINFT 314
                              34.67888999********9965433333..558**********************988888************************ PP

                              SSSSHHHHHHHHTTSSST CS
               Helicase_C  93 lprnvtsyiqriGRtgRa 110
                              +p++++ y++riGRt+R 
  PHY93_01400|PHY93_01400 315 PPESLEAYVHRIGRTARH 332
                              *****************6 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.8   0.0   7.2e-11   2.6e-07      25     169 ..      38     184 ..      10     186 .. 0.83
   2 ?   -2.1   0.2      0.95   3.4e+03     122     138 ..     365     381 ..     332     393 .. 0.51

  Alignments for each domain:
  == domain 1  score: 30.8 bits;  conditional E-value: 7.2e-11
                              SEEEEEESTTSTHHHHH.HHHHHHH-S......-EEEEESSHHHHHHHHHHGGGGTGG....GEEEESSS-B--........-SEE CS
                   ResIII  25 krglikmaTGtGKTlva.aklierllkkgkee.kflflvprkslleqtleefkkflseaykeigkkvsgdkkka.kekdstnkkil 107
                              k+++ + +TG+GKTl   + li+++  + k+  k+l++ p+k+l eq l  +kk+   ++   +  + g ++++  +  ++  +i+
  PHY93_01400|PHY93_01400  38 KNLIGVSETGSGKTLSFvLPLIDKIIGSPKRPtKILIITPTKELSEQILAVVKKVCRHTNLISMSLYGGTSYDSqVRDLKNGVHII 123
                              56666889*******9999********988889************************99999888888888888566678999*** PP

                              EEEHHHHHHTH........HHHTTT-SEEEEETGGGTTS....TTTHHHHHT-.--SEEEEEESS- CS
                   ResIII 108 vttiqsldadseeeeeeseellrdrfdviiiDEaHrlgak...kswreilekf.keavllglTATp 169
                              v+   +l+ ++     ++ + + + +++++ DEa  l ++    + + +l++  +++  l ++AT 
  PHY93_01400|PHY93_01400 124 VACPGRLKDHI-----DKGSIDLKGIEYLVLDEADQLMDMgflPALTVALNATtNRKQTLLFSATV 184
                              ***********.....88999999999**********99955424444344432568888899996 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 0.95
                              .....HHHTTT-SEEEE CS
                   ResIII 122 eeeseellrdrfdviii 138
                              +e + +l+ ++++++ii
  PHY93_01400|PHY93_01400 365 KEFNYQLKIEKKKLVII 381
                              33333333333333333 PP

>> SWI2_SNF2  SWI2/SNF2 ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0     1e-05     0.036      27      75 ..      46      95 ..      24     137 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1e-05
                SWI2_SNF2 27 qGSGKsltmvf.lakklleeelknpkvvvvtDRkdLdkQlsktfakagee 75
                             +GSGK+l+ v+ l  k++ + ++  k++++t  k+L +Q+ + ++k+ ++
  PHY93_01400|PHY93_01400 46 TGSGKTLSFVLpLIDKIIGSPKRPTKILIITPTKELSEQILAVVKKVCRH 95
                             8*******987578888886778899***************999987544 PP

>> FidL_like  FidL-like putative membrane protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.4   0.0    0.0068        24      53      86 ..     153     186 ..     135     188 .. 0.88
   2 ?    3.6   0.9     0.026        95       5      47 ..     354     393 ..     351     395 .] 0.80

  Alignments for each domain:
  == domain 1  score: 5.4 bits;  conditional E-value: 0.0068
                FidL_like  53 dkflremsdskdslllevkklndntlLlsslySP 86 
                              d+++   +    ++ l+++   ++tlL+s   SP
  PHY93_01400|PHY93_01400 153 DQLMDMGFLPALTVALNATTNRKQTLLFSATVSP 186
                              777877778888999******************9 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.026
                FidL_like   5 skakrlylqrkvkfsYsskresadedtYrlsisqssissiDet 47 
                              s++k+  +q+ ++f+   ++ ++++++  + +++++ +  D++
  PHY93_01400|PHY93_01400 354 SNGKKHPTQKFKEFN---YQLKIEKKKLVIIKEKEKENKQDDS 393
                              6899999********...6778888888888888777777766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (395 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       821  (0.0457917); expected 358.6 (0.02)
Passed bias filter:                      479  (0.0267165); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.42
# Mc/sec: 2837.88
//
Query:       PHY93_01405|PHY93_01405  [L=247]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.2e-10   41.1   0.0    5.3e-07   29.1   0.0    2.7  2  Hydrolase_4    Serine aminopeptidase, S33
    7.9e-06   25.7   0.2     0.0026   17.4   0.0    2.1  2  Abhydrolase_1  alpha/beta hydrolase fold
      0.002   18.0   0.0     0.0087   15.9   0.0    2.0  1  Ser_hydrolase  Serine hydrolase
  ------ inclusion threshold ------
      0.011   16.3   0.0      0.011   16.3   0.0    1.2  1  Abhydrolase_6  Alpha/beta hydrolase family


Domain annotation for each model (and alignments):
>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.1   0.0   1.2e-10   5.3e-07       5     135 ..      19     133 ..      15     169 .. 0.68
   2 !    9.6   0.0   0.00011       0.5     186     238 ..     171     228 ..     143     229 .. 0.67

  Alignments for each domain:
  == domain 1  score: 29.1 bits;  conditional E-value: 1.2e-10
              Hydrolase_4   5 avvvlvHGlaehsgryaelaeaLaaqGfavyalDhrGhGrsegkrghvpsfddyvdDlaafvekvkeehpelplfllGhSmGGlia 90 
                              avv++++Gl+   +++++la+ ++ +  +v+ +     G  ++   + ++f+d +d + ++ e ++     +pl+ lG S+G+li 
  PHY93_01405|PHY93_01405  19 AVVLIAPGLNLLPSKMDQLAKFFTSKKCDVLRISL---G--PNSDSWTDKFSDSYDAALEHAEIIQ-----RPLYFLGFSLGALIG 94 
                              67777777777777777777777777777777754...2..2345566777777776666666665.....8************** PP

              Hydrolase_4  91 llyllrypd.kvaglilsaPalkikaklkappllklllkllgkllp 135
                              ++y+ r+p  ++++ il+aPa   k+++ +p+ll       ++++p
  PHY93_01405|PHY93_01405  95 VHYIIRHPFqQFKKCILMAPATHTKTYTIIPALL-------ASIFP 133
                              ****999965899********9999774233333.......33333 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 0.00011
              Hydrolase_4 186 raakitlPllllhGeaDkvvdpeasrelyerl.....gskdktlklypglyHellnEp 238
                              ++++i++P+ll+   +D++vd ++  +++++      +s   +  l p+ yH l+ ++
  PHY93_01405|PHY93_01405 171 KKNNINIPTLLITNPKDELVDSSKLTKFAASNalwknRSIANQESLLPKKYHHLMIDS 228
                              345677*****************99666654311110333566678888888888876 PP

>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.0   5.8e-07    0.0026      56     107 ..      61     117 ..      52     132 .. 0.81
   2 !    6.5   0.1    0.0013       5.8     183     255 ..     140     227 ..     126     229 .. 0.67

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 5.8e-07
                              HHHHHHHHHHH..HHHCTTSSEEEEEETHHHHHHHHHHHHH.GGGEEEEEEESE..C CS
            Abhydrolase_1  56 tasvaddldri..ldalgddkltlvGhSmGGmialayaaey.perVkalvllga..i 107
                              t+ + d++d++   +   +++l+ +G+S+G +i+ +y  ++  +  k+++l+++  +
  PHY93_01405|PHY93_01405  61 TDKFSDSYDAAleHAEIIQRPLYFLGFSLGALIGVHYIIRHpFQQFKKCILMAPatH 117
                              45678888855477788899*********************7699********9543 PP

  == domain 2  score: 6.5 bits;  conditional E-value: 0.0013
                              HHHHHHHHHHHHCCHHHHHHHHHC........THHHHSEEEEEEETTCSSSCHHHHHHHHHC........HTSEEEEEEETCSSSH CS
            Abhydrolase_1 183 tgalksieqwpttdsaklllrlre........lknvlaptlvisgtsDplvppkaledlaql........lpkkrlvvisdagHla 252
                              ++  +++e + tt+  ++  +  +         +n+++ptl+i   +D lv+ + l ++a+         +   ++  +++ +H +
  PHY93_01405|PHY93_01405 140 FNLENYREKPHTTLAEYKKMNSLQkeikhslkKNNINIPTLLITNPKDELVDSSKLTKFAASnalwknrsIA-NQESLLPKKYHHL 224
                              55555555555555555555544446666655567777***************9999999888885444444.4777777777777 PP

                              HHH CS
            Abhydrolase_1 253 fle 255
                               ++
  PHY93_01405|PHY93_01405 225 MID 227
                              665 PP

>> Ser_hydrolase  Serine hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.0   1.9e-06    0.0087      37     138 ..      55     200 ..      36     244 .. 0.72

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 1.9e-06
                              --HHHHHHHHHHHHHC-STT.......EEEEEETCHHHHHHHHHHHTTSSSEEEEEEET--SGG...................... CS
            Ser_hydrolase  37 PdledWvaaleaaveaaeek.......vvlvAHSlgclavlhaaelqlakkvagalLVapadve...................... 93 
                              P+ ++W+++ +   +aa e+       ++ +  Slg+l+ +h++ ++  ++ ++ +L apa  +                      
  PHY93_01405|PHY93_01405  55 PNSDSWTDKFSDSYDAALEHaeiiqrpLYFLGFSLGALIGVHYIIRHPFQQFKKCILMAPATHTktytiipallasifpkgslpsf 140
                              6666666666554444333323333339****************99999************9888888888888888888888888 PP

                              ...............S..TT.GGGCGCTTS-SSHHCCHCEEEEETTBTTC-HHHHHHHHH CS
            Ser_hydrolase  94 ...............eeaaklaelaefaplpreklpfpslvvaSenDpyvsfeeaeelae 138
                                              ++ ++ + +  + l++++ ++p+l++    D++v+ ++  ++a+
  PHY93_01405|PHY93_01405 141 nlenyrekphttlaeYKKMNSLQKEIKHSLKKNNINIPTLLITNPKDELVDSSKLTKFAA 200
                              888888877766643222222233345566777777888888888888888888877775 PP

>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   16.3   0.0   2.5e-06     0.011      43      96 ..      56     125 ..      20     240 .. 0.69

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 2.5e-06
                              CS--HHH..CHHHHHHHCCTT..TTSEEEEEETCHHHHHHHHHHCC.........EEEEES-........... CS
            Abhydrolase_6  43 ppldled..ladlaalldelaagggpvvlvGHSlGGalalaaapla.......lvvgvlldp..........p 96 
                                ++++d   + ++a+l++     +p + +G SlG++++ +   +        +  ++l++p          p
  PHY93_01405|PHY93_01405  56 NSDSWTDkfSDSYDAALEHAEIIQRPLYFLGFSLGALIGVH---YIirhpfqqFKKCILMAPathtktytiiP 125
                              335666664455555444444345557**************...7777789976666*****54444433321 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (247 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       771  (0.043003); expected 358.6 (0.02)
Passed bias filter:                      552  (0.0307881); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.50u 0.24s 00:00:00.74 Elapsed: 00:00:00.40
# Mc/sec: 1856.81
//
Query:       PHY93_01410|PHY93_01410  [L=168]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.6e-15   54.5   2.2    1.1e-14   54.0   2.2    1.3  1  HNH_5     HNH endonuclease
    5.3e-14   52.1   2.6    8.9e-14   51.4   2.6    1.4  1  HNH       HNH endonuclease
    6.3e-07   29.2   0.1      1e-06   28.5   0.1    1.4  1  HNH_4     HNH endonuclease


Domain annotation for each model (and alignments):
>> HNH_5  HNH endonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.0   2.2   1.9e-18   1.1e-14       1      55 [.      81     135 ..      81     136 .. 0.97

  Alignments for each domain:
  == domain 1  score: 54.0 bits;  conditional E-value: 1.9e-18
                    HNH_5   1 CiyCgkeiaekelseeHIiPeslGGkltisnlvtlCkkCNqkkgqkvdaalskqf 55 
                              C+yC+ + a +el+ +HIiP s  G + ++n+vt+Ck CN +kg+k+ +a+ +++
  PHY93_01410|PHY93_01410  81 CQYCEIQLAASELTFDHIIPVSQKGATNWENVVTCCKSCNTHKGSKTLKAANMKL 135
                              ***********************************************99999876 PP

>> HNH  HNH endonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.4   2.6   1.5e-17   8.9e-14       1      46 [.      81     125 ..      81     126 .. 0.97

  Alignments for each domain:
  == domain 1  score: 51.4 bits;  conditional E-value: 1.5e-17
                      HNH   1 CeyCgrkfhksealevdHiipisqggaddieNlqllCksCHnkkhd 46 
                              C+yC  +   s +l+ dHiip+sq+ga+++eN+++ CksC+++k++
  PHY93_01410|PHY93_01410  81 CQYCEIQLAAS-ELTFDHIIPVSQKGATNWENVVTCCKSCNTHKGS 125
                              *******9998.********************************97 PP

>> HNH_4  HNH endonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.5   0.1   1.8e-10     1e-06       1      53 [.      81     127 ..      81     128 .. 0.90

  Alignments for each domain:
  == domain 1  score: 28.5 bits;  conditional E-value: 1.8e-10
                              -SSSSSB--GGGGGG...SEEEESSTTTT---BSGGGEEEES-GGGGTSSSSS CS
                    HNH_4   1 clYsgekIsiedlsdtkeydiDHilPrsrskdDsvsNkVLvlrdaNqeKsnrt 53 
                              c Y+  ++ +++l+       DHi+P s      + N V +++++N +K+++t
  PHY93_01410|PHY93_01410  81 CQYCEIQLAASELT------FDHIIPVSQKGATNWENVVTCCKSCNTHKGSKT 127
                              77787777777775......7*****************************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (168 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       935  (0.0521501); expected 358.6 (0.02)
Passed bias filter:                      502  (0.0279993); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.27s 00:00:00.75 Elapsed: 00:00:00.46
# Mc/sec: 1090.58
//
Query:       PHY93_01415|PHY93_01415  [L=348]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
      5e-19   68.6   0.1    7.9e-19   68.0   0.1    1.3  1  SBP_bac_3  Bacterial extracellular solute-binding proteins, f
  ------ inclusion threshold ------
      0.022   14.7   0.3        2.2    8.3   0.1    2.6  2  Imm51      Immunity protein 51


Domain annotation for each model (and alignments):
>> SBP_bac_3  Bacterial extracellular solute-binding proteins, family 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.0   0.1   8.8e-23   7.9e-19      11     222 ..     132     344 ..     123     347 .. 0.83

  Alignments for each domain:
  == domain 1  score: 68.0 bits;  conditional E-value: 8.8e-23
                              TTBEE-TTS-EESHHHHHHHHHHHHCT-EEEEEE-SGGGHHHHHHTTSSSEEESSEB--HHHHTTEEEES.ESEEEEEEEEEEETT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxx RF
                SBP_bac_3  11 PfsykdengeltGfdvdlakaiakrlgvkvefvpvswdelipalksgkvDiaiaaititpeReekvdFsq.pyfsagqvllvrkkd 95 
                              Pf+   +     G+ +++ak i +r g +++++ +sw   i+++++ k+  ++   + t+  +  + F q ++ +++  ++vr+kd
  PHY93_01415|PHY93_01415 132 PFNCD-PHSARMGYMIEVAKIIFERKGHNIDYQVNSWIKSIENVRNSKATGLV---ATTKLDAPDFIFPQkSMGTNKDCFYVRAKD 213
                              55554.477788*********************88************976555...355666679999996777779999999887 PP

                              SHGTCCHSSCGCGTTSEEEEETTSHHHHHHHHHHHC...TSEEEE.ESSHHHHHHHHHTTSSSEEEEEHHHHHHHHHHCCGCCEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                SBP_bac_3  96 askissiksladLkgkkvgvqagstaeellkeelkk...gaeive.fdtleealqaLkngrvdavvadspvlaylvkknpdkkvvl 177
                                ++++i+   dLk+++++++ g++++++l+ +  +   +++i +  +tl   l++L +grvd +v +  v +y+vk+ +  ++++
  PHY93_01415|PHY93_01415 214 LWEFNEIS---DLKNRQLATSEGYAYSATLTAYINEnpkKVQIASgKNTLIVNLKKLDEGRVDTIVENPFVFNYMVKEGKSRDKYE 296
                              77666665...**************999987755555558888774688888899******************************* PP

                              EECGGCECEEEEEEETTT...HHHHHHHHHHHHHHHHTTHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                SBP_bac_3 178 veeplsseeyaiavrkgd...seLrkainkalaelkadgtlakisekW 222
                               ++  ++++++ia+ +++   +e+ k + ++++el++dgtl+ki  k+
  PHY93_01415|PHY93_01415 297 EAGCTEENDLYIAFSPKNprsKEFAKILTEGIEELRKDGTLDKIISKY 344
                              977788888888887765222699***********************9 PP

>> Imm51  Immunity protein 51
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   0.0    0.0066        60      22      54 ..     217     249 ..     197     254 .. 0.74
   2 ?    8.3   0.1   0.00024       2.2      44      91 ..     281     329 ..     280     344 .. 0.82

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.0066
                    Imm51  22 veeveerfeeegaegnGydWaalaeayleekap 54 
                              + e+++  + + a+ +Gy + a + ay++e+  
  PHY93_01415|PHY93_01415 217 FNEISDLKNRQLATSEGYAYSATLTAYINENPK 249
                              44555555558899**************99865 PP

  == domain 2  score: 8.3 bits;  conditional E-value: 0.00024
                    Imm51  44 laeayle.ekapelleklefDpEagmFvaysedkealkelaellkelle 91 
                              +++++++  k+ + +e+     E+++++a+s  + + ke+a++l+e +e
  PHY93_01415|PHY93_01415 281 VFNYMVKeGKSRDKYEEAGCTEENDLYIAFSPKNPRSKEFAKILTEGIE 329
                              577777744667788889999**********999999****99998776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (348 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       873  (0.0486921); expected 358.6 (0.02)
Passed bias filter:                      387  (0.0215851); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.26s 00:00:00.79 Elapsed: 00:00:00.44
# Mc/sec: 2379.05
//
Query:       PHY93_01420|PHY93_01420  [L=148]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.3e-57  192.6   0.2    3.6e-57  192.4   0.2    1.0  1  EVE       EVE domain


Domain annotation for each model (and alignments):
>> EVE  EVE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  192.4   0.2     2e-61   3.6e-57       1     143 [.       2     147 ..       2     148 .] 0.99

  Alignments for each domain:
  == domain 1  score: 192.4 bits;  conditional E-value: 2e-61
                              -EEEEEEBHHTSHHHHHCHHHCEEE-EE-GHHHHHHHC.C--TT-EEEEEETSSSS-EEEEEEEEECEEEE-GGGG-TTSTT--TT CS
                      EVE   1 ayWllksepdefsiddlkrkkeegWdgvrnyqarnllr.amkkGDlvlfYhsgeklqaivgiaeVvseaypdetqfdpkskyydpk 85 
                              +yWl+ksepd+fsid lk+kk+ gWdgvrnyqarn++r +mkkGD vlfYhs+++ ++++g+a+V++e +pd+tqfdpks+yydpk
  PHY93_01420|PHY93_01420   2 NYWLMKSEPDVFSIDILKTKKKSGWDGVRNYQARNFMRdDMKKGDMVLFYHSSCEVPGVAGLAQVSKESHPDPTQFDPKSDYYDPK 87 
                              7************************************************************************************* PP

                              TBTTS-.-EEEEEEEEEEEEEEEEHHHHTTHGTCTTSHHHHCC.T-SEEEE-HHHHHHHH CS
                      EVE  86 skkekp.wlrvdvkpvkklkrplslkelkaepelegmkllrkg.rlsvrpvteedwelil 143
                              ++ke+p w++v+v++v+k++  ++l+++k+ ++le+m l++kg rls+ pv+e+++++il
  PHY93_01420|PHY93_01420  88 ATKENPrWFMVEVEFVEKFNSVVTLHTIKSIKSLENMPLVKKGsRLSINPVSEKEYKTIL 147
                              **********************************************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (148 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       384  (0.0214178); expected 358.6 (0.02)
Passed bias filter:                      313  (0.0174578); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.19s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 1149.44
//
Query:       PHY93_01425|PHY93_01425  [L=381]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (381 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       657  (0.0366445); expected 358.6 (0.02)
Passed bias filter:                      444  (0.0247643); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.41
# Mc/sec: 2766.85
//
Query:       PHY93_16910|PHY93_16910  [L=127]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.011   14.9   0.1      0.013   14.6   0.1    1.1  1  RACo_C_ter    C-terminal domain of RACo the ASKHA domain
      0.039   13.9   0.5      0.065   13.2   0.2    1.6  2  RepB-RCR_reg  Replication regulatory protein RepB


Domain annotation for each model (and alignments):
>> RACo_C_ter  C-terminal domain of RACo the ASKHA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.1   1.4e-06     0.013      79     152 ..       6      79 ..       5      96 .. 0.78

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 1.4e-06
                              HHHHHHHHHHTTSB-TTS-B-GGG-TTTEEEETTCEEEEEE-GGGSSSS-EEEEHHHHHHHHHHHHHHHHHHHH CS
               RACo_C_ter  79 iidliaelleagiidkkgklnkelkserireeeetleyvlakaeetetkdivitekDieelikakaAiyagikt 152
                              +++++a+ l+ +i+ ++g+ +++lks +    ++t +  +   +e+++++i++t +D ++++++k Ai a ++t
  PHY93_16910|PHY93_16910   6 LVAFVAATLSLNIMAHEGHSDTSLKSLHGGIVKKTSNSFIEVVQEEGKTEIFVTGHDYKNIVDSKLAIKASAET 79 
                              68899999999*******9999987665555444444444444455667*********************9987 PP

>> RepB-RCR_reg  Replication regulatory protein RepB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0      0.44   3.9e+03      51      63 ..      41      53 ..      27      59 .. 0.60
   2 ?   13.2   0.2   7.2e-06     0.065      30      54 ..      97     121 ..      63     126 .. 0.78

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 0.44
             RepB-RCR_reg 51 kdslvqlCeeeGi 63
                              +s+ ++ +eeG 
  PHY93_16910|PHY93_16910 41 SNSFIEVVQEEGK 53
                             3444455555554 PP

  == domain 2  score: 13.2 bits;  conditional E-value: 7.2e-06
             RepB-RCR_reg  30 lsvsrkklthkeikvfiknelkdsl 54 
                              ++   kk  h +++vfikn  k++ 
  PHY93_16910|PHY93_16910  97 VTTDLKKEKHFKLNVFIKNAAKEDK 121
                              344569****************985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (127 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       685  (0.0382063); expected 358.6 (0.02)
Passed bias filter:                      383  (0.021362); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.41u 0.19s 00:00:00.60 Elapsed: 00:00:00.36
# Mc/sec: 1062.26
//
Query:       PHY93_01430|PHY93_01430  [L=143]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    8.9e-27   93.8   1.9      1e-26   93.7   1.9    1.0  1  ExbD            Biopolymer transport protein ExbD/TolR
     0.0025   18.0   0.8      0.004   17.4   0.6    1.5  1  DUF2149         Uncharacterized conserved protein (DUF2149)
  ------ inclusion threshold ------
      0.039   14.3   0.3      0.052   13.9   0.3    1.2  1  Ribosomal_L18p  Ribosomal L18 of archaea, bacteria, mitoch. a


Domain annotation for each model (and alignments):
>> ExbD  Biopolymer transport protein ExbD/TolR
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   93.7   1.9   1.7e-30     1e-26       5     128 ..      17     138 ..      13     140 .. 0.97

  Alignments for each domain:
  == domain 1  score: 93.7 bits;  conditional E-value: 1.7e-30
                     ExbD   5 saeinltpmiDvvflLLifFlvtaklkkpeplevdlPsssstqkeveekelirisisadgsiyldkkavsveelaqklkerkakpp 90 
                              ++ein+tp+iD++++LLi+F+vt++ + ++ l+++lP+ + t  e++++e ++i++++dg++++ +k++  ++l +++    ++ +
  PHY93_01430|PHY93_01430  17 MSEINMTPLIDIMLVLLIIFMVTSTAALESGLDIELPKTQITN-EKKQDEILIITLDKDGKVAIAGKTIADADLGASIASSLKSLK 101
                              789****************************************.6***************************************** PP

                     ExbD  91 dkltvaikadkdvsygklvevldtlkkagiekvslvtt 128
                              ++  v++++d ++  gk v+ +d +k ag +++s++ +
  PHY93_01430|PHY93_01430 102 TE-SVILEGDTKAFLGKAVQLMDLAKSAGAKNFSIAAE 138
                              **.********************************976 PP

>> DUF2149  Uncharacterized conserved protein (DUF2149)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.6   6.8e-07     0.004       6      57 ..      24      76 ..      20     107 .. 0.78

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 6.8e-07
                  DUF2149  6 NLfDvalVlavallvalvsslnlqellsseedvtvvkkpgkekmeiiv..kege 57
                              L+D++lVl + ++v+   +l+    ++   +++++++++++++ ii+  k+g+
  PHY93_01430|PHY93_01430 24 PLIDIMLVLLIIFMVTSTAALESGLDIE-LPKTQITNEKKQDEILIITldKDGK 76
                             59**************999986666666.5688888888888888877544465 PP

>> Ribosomal_L18p  Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.3   8.6e-06     0.052      39     113 ..      56     129 ..      38     132 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 8.6e-06
                              EEE-TTT--EEEEECS-SCCCTS-SSSCHHHHHHHHHHHHHHHCHHCHTC-EE--TTSSS-CHHHHHHHHHHCTS CS
           Ribosomal_L18p  39 QviddvkgktlasastlekelklkstknkeaakkvgeliAerakekgiekvvfDrggykYhGrvaalAdaaReaG 113
                              Q+ +++k+  +  + tl+k+ k+  ++++ a + +g+ iA  +k  + e+v+ +   + + G+   l d a+ aG
  PHY93_01430|PHY93_01430  56 QITNEKKQDEIL-IITLDKDGKVAIAGKTIADADLGASIASSLKSLKTESVILEGDTKAFLGKAVQLMDLAKSAG 129
                              777777777765.559******99999999999*******************************99999999988 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (143 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       636  (0.0354733); expected 358.6 (0.02)
Passed bias filter:                      426  (0.0237604); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.41u 0.17s 00:00:00.57 Elapsed: 00:00:00.34
# Mc/sec: 1266.64
//
Query:       PHY93_01435|PHY93_01435  [L=201]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.6e-34  116.0   0.1    1.1e-33  115.7   0.1    1.2  1  MotA_ExbB      MotA/TolQ/ExbB proton channel family
  ------ inclusion threshold ------
        3.2    7.1   9.6        2.9    7.3   3.2    2.1  2  ABC2_membrane  ABC-2 type transporter


Domain annotation for each model (and alignments):
>> MotA_ExbB  MotA/TolQ/ExbB proton channel family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  115.7   0.1   1.2e-37   1.1e-33      19     125 ..      81     187 ..      53     189 .. 0.91

  Alignments for each domain:
  == domain 1  score: 115.7 bits;  conditional E-value: 1.2e-37
                              -HHHHHHHHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSSGGCTHHHHHHHHHHHHHHHHHH CS
                MotA_ExbB  19 vdgaepeelrraleealsreeerlekglsilatigslaPllGLlGTVlGlieafqaladagsadlakvapgiaeALiaTalGlvvA 104
                              +d +++ee +  +++ l+++++ l+k+l +l tigs aP++GL+GTV+G++ +f+a++ ag++ +a+va+ i+eAL+aTa+G++vA
  PHY93_01435|PHY93_01435  81 EDTNSQEEWDARMQRRLNETTQGLKKNLWVLGTIGSSAPFVGLFGTVWGIMGSFKAIGVAGKSGFAVVAGTISEALVATAAGILVA 166
                              688999*****************************************************9*99*********************** PP

                              HHHHHHHHHHHHHHHHHHHHH CS
                MotA_ExbB 105 ipavlaynklkrkverlvlel 125
                              ++av++yn+l+ kv +  +++
  PHY93_01435|PHY93_01435 167 VFAVMFYNYLQVKVTETLNDF 187
                              **************9988876 PP

>> ABC2_membrane  ABC-2 type transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   0.4    0.0036        32     165     188 ..      10      33 ..       1      44 [. 0.81
   2 ?    7.3   3.2   0.00032       2.9      97     163 ..     110     177 ..      99     180 .. 0.89

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.0036
            ABC2_membrane 165 aslvllpllllsGffipidsmpkw 188
                              ++++++pll++s +++++   + w
  PHY93_01435|PHY93_01435  10 GGFIMYPLLIFSVALWTVAIQKIW 33 
                              7899************99877634 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.00032
            ABC2_membrane  97 vlakvlvelpvsllqalifll.ivyflvgldlsrfflflllllltalaasslgllisalapsfedasq 163
                              vl+ + +++p+  l+++++ +  ++  +g+  +++f +++ ++  al+a++ g+l++++a+ f ++ q
  PHY93_01435|PHY93_01435 110 VLGTIGSSAPFVGLFGTVWGImGSFKAIGVAGKSGFAVVAGTISEALVATAAGILVAVFAVMFYNYLQ 177
                              7899999**************55555789999899*************************99988766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (201 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1058  (0.0590105); expected 358.6 (0.02)
Passed bias filter:                      571  (0.0318478); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 1541.33
//
Query:       PHY93_01440|PHY93_01440  [L=435]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (435 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       601  (0.0335211); expected 358.6 (0.02)
Passed bias filter:                      371  (0.0206927); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.36
# Mc/sec: 3647.55
//
Query:       PHY93_01445|PHY93_01445  [L=274]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (274 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       312  (0.017402); expected 358.6 (0.02)
Passed bias filter:                      265  (0.0147805); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.20s 00:00:00.63 Elapsed: 00:00:00.36
# Mc/sec: 2250.87
//
Query:       PHY93_01450|PHY93_01450  [L=723]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.9e-75  252.8   0.0    7.9e-75  252.1   0.0    1.3  1  YcaO      YcaO cyclodehydratase, ATP-ad Mg2+-binding
    1.4e-67  226.9   2.4    2.4e-67  226.2   2.4    1.4  1  YcaO_C    YcaO cyclodehydratase C-terminal domain
    1.7e-09   38.0   0.0    3.4e-09   37.1   0.0    1.5  1  OsmC      OsmC-like protein


Domain annotation for each model (and alignments):
>> YcaO  YcaO cyclodehydratase, ATP-ad Mg2+-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  252.1   0.0   1.3e-78   7.9e-75       1     322 [.     205     536 ..     205     537 .. 0.92

  Alignments for each domain:
  == domain 1  score: 252.1 bits;  conditional E-value: 1.3e-78
                     YcaO   1 nGkGateeaArasalgEalErysaegffr................gdekrvr.asyrelegegaldpeelglyse..eekdaadfv 67 
                              nGkGat++aA++salgE+lEr s+++f++                ++ek+++ +  + l +eg++d + l++y++  e k+++  +
  PHY93_01450|PHY93_01450 205 NGKGATKDAALCSALGEYLERISNNYFYNdhylgedisngdfvhyPNEKWFKpGPKDSL-PEGLMDARLLEFYNPdnELKASHLID 289
                              8************************9999******************************.*************9999999999999 PP

                     YcaO  68 lepfdpdrpidwvpgwsltdgeevlvPanlvylyeppegearlfletsnGlAaGntleeAilhGllEliERdafalawyerlplpr 153
                              +++ + +r i+++p+++++d+e v++P+nl+ +           l +snG++aGnt  eA++++l+E++ER +++ ++ e+++lp+
  PHY93_01450|PHY93_01450 290 TNSGNIKRGICAIPFTRQSDKESVYIPVNLIGN-----------LFVSNGMSAGNTKYEARVQCLSEIFERAVKNQIILEEITLPD 364
                              *********************************...........****************************************** PP

                     YcaO 154 id...lasdpeirellerlreagievrlldatldlgipvvaavlvdpk.lllvagaGahldpevAlerAltElaqsrltlisgar. 234
                              ++   l+++p+i e +++l+++g+ ++++da+l++++pv++++l++pk   ++a++Gah+++evAler+ltEl+q+r     g + 
  PHY93_01450|PHY93_01450 365 VPknvLEKYPNILEGIKKLESEGFPIVVKDASLGGKFPVMCVTLMNPKnGGVFASFGAHPKFEVALERSLTELLQGRSFE--GFNv 448
                              **99999***************************************66455568***********************555..3223 PP

                     YcaO 235 .edpdfd.eeladvatleradreallwlpeaaakrldfll......faewassgdleedletllerlkaagldvlvvdltrpdlgl 312
                               ++p+f+ ++l++++++     + +++ +++   +++f+       f+ew++sg++ee+ ++l+++l ++  +v+++d++  +lg+
  PHY93_01450|PHY93_01450 449 lSPPTFNqNALSEHNNI-----IDHFV-DSTGVISWKFFSekadfaFVEWDFSGTTEEENNYLMNILSQMEKEVYIADYE--ELGV 526
                              49999964444444444.....66776.66666688886678888889********************************..9*** PP

                     YcaO 313 pvvkvivPgl 322
                              ++++++vPg 
  PHY93_01450|PHY93_01450 527 KACRILVPGY 536
                              *********7 PP

>> YcaO_C  YcaO cyclodehydratase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  226.2   2.4     4e-71   2.4e-67       1     171 [.     553     723 .]     553     723 .] 0.99

  Alignments for each domain:
  == domain 1  score: 226.2 bits;  conditional E-value: 4e-71
                   YcaO_C   1 alefRedllnLheldeeqleellerLeeeelddytrvaeLiGiefdentvWgqLrigELklliaLalgdleeAlelvewtlqfnds 86 
                              a++fR d+lnLh+ld++ql++l+ +L+e+e+d+yt++aeLiG++fdentvWgqL+igELk+l  Lal+++eeA+elve++++fnd+
  PHY93_01450|PHY93_01450 553 AISFRSDILNLHSLDDKQLSKLVYKLDESEIDNYTKIAELIGVAFDENTVWGQLNIGELKCLSLLALQRFEEAKELVEMFITFNDN 638
                              689*********************************************************************************** PP

                   YcaO_C  87 taeralfYraLkavLelaldeeleledyeenfermyGeetveavlasvegevrfygLtatdekLegldaHqkllesYkkLqaaka 171
                              +++r+++Y+a++++L+++l+eele+edy  n+++m+G+e ++++l++++ge+rf+gLt+t++kLegl++H kl++sY+kLqaak+
  PHY93_01450|PHY93_01450 639 SNDRRRYYQAVNTILDITLNEELEIEDYVPNMTKMFGAEILNNALGTITGEIRFFGLTKTSMKLEGLEKHLKLIASYQKLQAAKR 723
                              ***********************************************************************************96 PP

>> OsmC  OsmC-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.1   0.0   5.6e-13   3.4e-09       1     100 []      32     127 ..      32     127 .. 0.89

  Alignments for each domain:
  == domain 1  score: 37.1 bits;  conditional E-value: 5.6e-13
                              TTXSSB-HHHHHHHHHHHHHHHHHHHHTCCCT---SCEEEEEEEEEECCECTCEEEEEEEEEEE-SS-H..HHHHHHHHHHHHHSH CS
                     OsmC   1 gdgsgpsPeelllaalasCfaitlravakkkgikledleveveaerdpegakgiteirlkvevkipgadseeklkkllekaekrCp 86 
                              g+g++p P +++la+ a C+a  ++ ++ +++i+ ed++++     dpe  + ++++ ++++v++p++ s e  ++ + k+ +rC+
  PHY93_01450|PHY93_01450  32 GNGTAPGPFDYFLASSALCAAYFVKVYCLARNIPTEDIKLTQNNIVDPEN-R-YKQL-FNIQVELPESIS-EHDREGILKSIDRCT 113
                              6899***************************************9999984.3.6666.899999999996.67777777788**** PP

                              HHHHHCT-SSSEEE CS
                     OsmC  87 vsntlkngvkvele 100
                              v++++++++++++e
  PHY93_01450|PHY93_01450 114 VKKVIQQSPEFKVE 127
                              *********99985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (723 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       500  (0.0278878); expected 358.6 (0.02)
Passed bias filter:                      399  (0.0222544); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.62u 0.22s 00:00:00.84 Elapsed: 00:00:00.39
# Mc/sec: 5601.47
//
Query:       PHY93_01455|PHY93_01455  [L=385]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      1e-56  192.7   0.0    1.2e-56  192.4   0.0    1.0  1  Aminotran_1_2    Aminotransferase class I and II
    6.7e-11   42.1   0.0    1.1e-10   41.4   0.0    1.3  1  DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
    2.6e-07   29.5   0.1    3.8e-07   29.0   0.1    1.1  1  Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
    3.5e-06   26.2   0.1    5.1e-06   25.7   0.1    1.1  1  Aminotran_5      Aminotransferase class-V
    0.00039   19.3   0.0    0.00047   19.0   0.0    1.1  1  Aminotran_MocR   Alanine-glyoxylate amino-transferase
  ------ inclusion threshold ------
      0.042   13.1   0.0      0.069   12.4   0.0    1.3  1  Beta_elim_lyase  Beta-eliminating lyase


Domain annotation for each model (and alignments):
>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  192.4   0.0   4.1e-60   1.2e-56       5     356 ..      31     372 ..      27     378 .. 0.92

  Alignments for each domain:
  == domain 1  score: 192.4 bits;  conditional E-value: 4.1e-60
                              ESSSSSTTSTTSSHHHHHHHHHHHHHHHHHTSTTST-BTTHHHHHHHHHHHHHCTCTTCHTTGGEGEEEESHHHHHHHHHHHHHHH CS
            Aminotran_1_2   5 nLgsneylgdsgkptlpevakaekegalaggtlneygpidglpeleealakflgrseklklkreaavvvgsGagaliealifllkl 90 
                               + s+++++       p+++  +++  + +++ + y p+ g pel+eala  l+ ++kl+++ +  v v++Ga +++ +l +++ +
  PHY93_01455|PHY93_01455  31 RFESGDPSFP----IYPAIKASMNK--ALNEDKTHYIPNNGIPELREALANKLKIQNKLNIDSK-HVSVTNGAMHALYVLYQCI-V 108
                              5678888887....88877777776..88899999*****************************.*******************.9 PP

                              TTT-EEEEEESS-THHHHHHHHTTSEEEEEEBEETTTTEE-HHHHHHHHTTHHCTTETEEEEEEESS-TTT--B--HHHHHHHHHH CS
            Aminotran_1_2  91 npgdeilvpdptyasyknilrlsggevvryplyseedfhldlealeealkeapegnkktkvilvesphNPtGtvatleeleklldl 176
                              ++gde++vpdp +++  +++rl+g++ + ++l++e ++   +e++e+++++      ktkvi+++sp+NPtG++++++el+k++dl
  PHY93_01455|PHY93_01455 109 EAGDEVIVPDPMWTEAVENARLAGAKTIGVELKPEYSYVYRAEDIEAKITS------KTKVIFINSPQNPTGAIIPKAELQKIADL 188
                              ***************************************************......***************************** PP

                              HHHTTEEEEEEETTTTCBSSSSHTHHHHGGSTTSTTEEEEEESSSTTSSGGG-EEEEEE.EHHHHHHHHHHHHHHTS..SHHHHHH CS
            Aminotran_1_2 177 akkynlllfvDeaYagfvfgsldavatranveeepnllivgslsKafGlaGeRvGyilg.naavvsqlrklsrpfls..ssllqaa 259
                              a k+n++l++DeaY++  f+  +++++ +++ ++++++ v+s+sK++++ G+R+Gy+++ n+ + + + kl r       s++q+ 
  PHY93_01455|PHY93_01455 189 AVKNNFWLVSDEAYEHVLFDGGEHISIGSLIPDYDKVISVYSYSKSYAMSGLRLGYFACrNELFNDRAGKLLRCTVNgiNSVTQWG 274
                              ********************9999999999999999***********************77777777877777655579******* PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS.TEEEECCSCSSEEEEEETHH.CHHHHHHHHHHTCTEEEEEGGGGTS... CS
            Aminotran_1_2 260 vaaalsdallkqseleemrqrlqkrrkelrdeLael.glkvlasqsgmflltdlsae.takelskkLleevgvyvtpgtsftv... 340
                              + +al +++    + +em +++ krr  + ++L     l+ ++++++++l+ +++   +  +ls+++++  g+   pg +f+    
  PHY93_01455|PHY93_01455 275 AITALANPES---WYTEMNKEYLKRRNLFLEALSGQdILIPYIPHGAFYLWCRVKDGiDVAALSEAMAQA-GIGNAPGDCFGEcss 356
                              *********6...********************988778999999******9998888889999999999.**********99999 PP

                              .TTEEEEECTTS-HHHH CS
            Aminotran_1_2 341 .pgrlRitvAglteeel 356
                                +++R+ + ++++e++
  PHY93_01455|PHY93_01455 357 tVQSIRFAF-SCSTEMI 372
                              867799999.6666655 PP

>> DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.4   0.0   3.6e-14   1.1e-10      38     146 ..      87     201 ..      46     217 .. 0.82

  Alignments for each domain:
  == domain 1  score: 41.4 bits;  conditional E-value: 3.6e-14
                              -SEEEEESSHHHHHHHHHHHTTTTTT-EEEEESSS-THHHHHHHHTT-EEEEE-B-TT.TSSB-GGGCGGG--TTEEEEE...EB- CS
          DegT_DnrJ_EryC1  38 vkhaiavssGtaAlhlaLralgvgpgdeVIvpsltFvatanavlelgakpvfvDvdpd.tynidpaaieaaitertkaIl...pVh 119
                              +kh+  ++ + +Al  +L  + v++gdeVIvp   ++  ++ ++ +gak++ v+ +p+ +y   +++iea+it++tk I+   p +
  PHY93_01455|PHY93_01455  87 SKHVSVTNGAMHALY-VLYQCIVEAGDEVIVPDPMWTEAVENARLAGAKTIGVELKPEySYVYRAEDIEAKITSKTKVIFinsPQN 171
                              455544444555555.556677999*******************************984688999**************9333356 PP

                              GGGB--...-HHHHHHHHHHCT-EEEEE-T CS
          DegT_DnrJ_EryC1 120 lyGqva...dmdalkaiaakhglkvieDaA 146
                                G++    +++++ ++a k + ++++D A
  PHY93_01455|PHY93_01455 172 PTGAIIpkaELQKIADLAVKNNFWLVSDEA 201
                              678764334999999999*********987 PP

>> Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.0   0.1   1.3e-10   3.8e-07      68     175 ..      88     201 ..      72     207 .. 0.83

  Alignments for each domain:
  == domain 1  score: 29.0 bits;  conditional E-value: 1.3e-10
                              SEEEEESSHHHHHHHHHHTTS-TTEEEEEESTSSHHHHHHHHHTHHH.TTCEEE..EESTTSHHHHHHHCCTTEEEEEEESS-TTT CS
          Cys_Met_Meta_PP  68 eaalavssGmaAiaaailallkaGdeivvsddlYggtqrllkkvlkk.lgievk..fvdtsdleelekaikentklvylEtptnpl 150
                              +++ +++  m A+ +  + +++aGde++v d ++  + +  +    k +g+e k  +  +  +e++e++i+++tk++++ +p np+
  PHY93_01455|PHY93_01455  88 KHVSVTNGAMHALYVLYQCIVEAGDEVIVPDPMWTEAVENARLAGAKtIGVELKpeYSYVYRAEDIEAKITSKTKVIFINSPQNPT 173
                              5667788889999999999***************9988777665544467765422777899************************ PP

                              T---...-HHHHHHHHHHTT-EEEEEGT CS
          Cys_Met_Meta_PP 151 lkvv...DiekiaklakkagvlvvvDnt 175
                                ++    ++kia+la k++  +v D +
  PHY93_01455|PHY93_01455 174 GAIIpkaELQKIADLAVKNNFWLVSDEA 201
                              9985444899999999999999988876 PP

>> Aminotran_5  Aminotransferase class-V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.7   0.1   1.7e-09   5.1e-06      50     176 ..      77     200 ..      69     205 .. 0.83

  Alignments for each domain:
  == domain 1  score: 25.7 bits;  conditional E-value: 1.7e-09
                              HHHHHHHT-STGGGEEEESSHHHHHHHHHHHCCCC-TTTSEEEEETTSHGGGTHHHHHHHHHHTEEEEEEEBETTSCBEGGGHHHH CS
              Aminotran_5  50 ekvaelinaeseeeiiftsGtteainlvalslarslkpgdeivvteaehhanlvpwqelakrtgakvkvipldeegeldldelekl 135
                               k+++ +n++s + + +t G+ +a+ +  +++   +++gde++v +   + + v  ++la ++++ v  ++ +    ++ +++e++
  PHY93_01455|PHY93_01455  77 LKIQNKLNIDS-KHVSVTNGAMHALYVLYQCI---VEAGDEVIVPD-PMWTEAVENARLAGAKTIGV-ELKPEYSYVYRAEDIEAK 156
                              5789999***8.********************...******99976.57888888888888888888.57888999999******* PP

                              --TTEEEEEEESBETTTTEB--HHHHHH...HHHHTT-EEEEE- CS
              Aminotran_5 136 lnektklvaithvsnvtGtiqpveeigk...lakkkgalvlvDa 176
                              ++ ktk+++i+  +n tG i p +e+ k   la k++ +++ D 
  PHY93_01455|PHY93_01455 157 ITSKTKVIFINSPQNPTGAIIPKAELQKiadLAVKNNFWLVSDE 200
                              *******************9986665550005556677777665 PP

>> Aminotran_MocR  Alanine-glyoxylate amino-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.0   0.0   1.6e-07   0.00047      69     296 ..      64     279 ..      47     348 .. 0.77

  Alignments for each domain:
  == domain 1  score: 19.0 bits;  conditional E-value: 1.6e-07
                              T--HHHHHHHHHHTTS-GGGEEE-SS-HHHHHHHHHHHHHHC--TT-SS-GGGG.--EEEEEES--HHHHHHHHHHT-EEEEEEEE CS
           Aminotran_MocR  69 aGlpelralfaelldvkaenvlvqnnsslelqglvltlallhGvrdsegpwvkeekvkllvtvpGydrhfllleelGielltvdlq 154
                              +G+pelr  +a+ l+       +qn   ++ ++  +t   +h +    +  v+     ++v+ p +       +  G + + v+l+
  PHY93_01455|PHY93_01455  64 NGIPELREALANKLK-------IQNKLNIDSKHVSVTNGAMHALYVLYQCIVEA-GDEVIVPDPMWTEAVENARLAGAKTIGVELK 141
                              566666666665555.......56667778889999999999999888887776.889**************************** PP

                              TTEE-HHHHHHHHHC-TTEEEEEE-SSS-TTT-----HHHHHHHHT---SSTT-EEEEE-TTSS-BS.SSSS----HHHHHHHHT- CS
           Aminotran_MocR 155 ddGpdvdaveklvaedasvkGilavpkysnptGetiseevarrlaalkaaapdfrifaddayavhdlvaeedkdanivalardaGh 240
                              ++   v   e + a+ +s   ++++    nptG +i +   +++a l     +f +  d+ay  h l+  + ++  i +l  d   
  PHY93_01455|PHY93_01455 142 PEYSYVYRAEDIEAKITSKTKVIFINSPQNPTGAIIPKAELQKIADLA-VKNNFWLVSDEAYE-HVLFD-GGEHISIGSLIPD--- 221
                              *********************************************995.5689*********7.77764.4445556555554... PP

                              TTSEEEEEESTT.TS-TTSS-EEEEE-HHHHHH.HHHHHHHC-S---HHHHHHHHHHH CS
           Aminotran_MocR 241 pdrafvlastsk.itfaGaGvafvassedniaw.lkkylGlqsiGpdkveqlrhvkfl 296
                               d+ + + s sk  +++G  ++++a+ ++  ++ ++k l  +  G + v q   +  l
  PHY93_01455|PHY93_01455 222 YDKVISVYSYSKsYAMSGLRLGYFACRNELFNDrAGKLLRCTVNGINSVTQWGAITAL 279
                              3555555555551345555567777777766552567777777777777776655555 PP

>> Beta_elim_lyase  Beta-eliminating lyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   2.3e-05     0.069      13     169 ..      44     201 ..      40     202 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 2.3e-05
                              HHHHHHHCS----C.CCT--HHHHHHHHHHHHHTT-SEEEE.......ES-HHH.HHHHHHHHH--TTEEEEEETT-HHHHSSTTH CS
          Beta_elim_lyase  13 amsdaqaaamlGde.sYgedktvnrLedavaelfgkeaalf.......vpqGta.Ansillkillqrgeevivtepahihfdetga 89 
                              a+ + + +a  +d+  Y  ++++ +L +a+a+ +  +  l        v++G + A  +l++ +++ g+eviv +p  ++  e+  
  PHY93_01455|PHY93_01455  44 AIKASMNKALNEDKtHYIPNNGIPELREALANKLKIQNKLNidskhvsVTNGAMhALYVLYQCIVEAGDEVIVPDPMWTEAVENAR 129
                              66667755555554268888888888888888777777776666776688887746678889999999999999997666666655 PP

                              HHHCC--EEEEE-EBTTTBE-HHHHHHHS--S-TTS-EEEEEEEESSBTTTTTB---HHHHHHHHHHHHHCT-EEEEEET CS
          Beta_elim_lyase  90 iaelagvklrdlknkeaGkmdlekleaaikevgaheekiklisltvTnntagGqvvsleelrevaaiakkygiplhlDgA 169
                              +a  + +  ++lk +      +e++ea+i+       k+k+i +    n   G +++ +el+++a++a k++  l+ D A
  PHY93_01455|PHY93_01455 130 LAGAKTI-GVELKPEYSYVYRAEDIEAKITS------KTKVIFINSPQNP-TGAIIPKAELQKIADLAVKNNFWLVSDEA 201
                              5444433.44444444477899999999999......699****999995.9*********************9999976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (385 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       503  (0.0280551); expected 358.6 (0.02)
Passed bias filter:                      474  (0.0264376); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.38
# Mc/sec: 3018.81
//
Query:       PHY93_01460|PHY93_01460  [L=175]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-36  126.2   8.2    1.7e-36  125.8   8.2    1.2  1  DUF4337   Domain of unknown function (DUF4337)
     0.0016   17.8   1.7      0.076   12.3   0.0    2.0  2  MSP1a     Major surface protein 1a (MSP1a)
  ------ inclusion threshold ------
      0.014   15.7   3.8       0.63   10.4   3.8    2.1  1  DUF4064   Protein of unknown function (DUF4064)
       0.15   11.5   1.7       0.18   11.3   1.7    1.1  1  Tfb4      Transcription factor Tfb4


Domain annotation for each model (and alignments):
>> DUF4337  Domain of unknown function (DUF4337)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  125.8   8.2   3.8e-40   1.7e-36       3     161 .]      27     174 ..      25     174 .. 0.93

  Alignments for each domain:
  == domain 1  score: 125.8 bits;  conditional E-value: 3.8e-40
                  DUF4337   3 kvAlliailAvllAisslkggnaqteailaqaeasdqWafYQAksikehlaeleleqlelllkakaeelaaavdkkiakykkkiar 88 
                              kvAl++a +Av++Ais+l++g+ ++ea+++q ++sd W++YQAksik+++++l+ + l            +  ++ +++  kk ++
  PHY93_01460|PHY93_01460  27 KVALSTAMIAVIAAISALMAGHHSNEALISQIQSSDNWSHYQAKSIKSSIMSLKNDLL-----------VEMGKTPKEQDLKKSEE 101
                              79***************************************************44433...........344556667778899** PP

                  DUF4337  89 ykkekkeikkkAkeleaerdeaneasdkfdlasalLqiaIvlaaialltkkklllylslvlglvGlvlflagf 161
                              yk e++ei++kA+e  ae++++ + +   + a++l+qiaI+++aia+ltk+k ++y+sl+++ +G+++f+ g+
  PHY93_01460|PHY93_01460 102 YKIEQEEISEKAREKAAESEHHLKSHVILAKAVTLFQIAIAISAIAVLTKRKSFWYVSLGFAGIGFIFFMQGW 174
                              *********************************************************************9997 PP

>> MSP1a  Major surface protein 1a (MSP1a)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.1   0.4    0.0026        12     137     182 ..      19      63 ..      15      83 .. 0.76
   2 !   12.3   0.0   1.7e-05     0.076      80     149 ..      93     163 ..      82     173 .. 0.70

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.0026
                    MSP1a 137 akrGtWqGsilfLaalvLfaisaavvvatrdessaltvsavPasdq 182
                              a+ G+W G +  L++ ++ +i+a+   ++ ++s    +s++ +sd+
  PHY93_01460|PHY93_01460  19 AHLGGWIGKVA-LSTAMIAVIAAISALMAGHHSNEALISQIQSSDN 63 
                              6789*****99.7777778888877777777777777777766664 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 1.7e-05
                    MSP1a  80 sedkaagdaarvvkeessrelsrelseDrsklkamaaLaalsvlaliaaivaCicv.dakrGtWqGsilfL 149
                               +d   +++ ++ +ee s +   +  e + +lk+ ++La    l  ia+ ++ i+v   ++  W  s+ f 
  PHY93_01460|PHY93_01460  93 EQDLKKSEEYKIEQEEISEKAREKAAESEHHLKSHVILAKAVTLFQIAIAISAIAVlTKRKSFWYVSLGFA 163
                              566777788888888888777777889999********977777667666655655055566788887764 PP

>> DUF4064  Protein of unknown function (DUF4064)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   3.8   0.00014      0.63      42     102 ..      56     169 ..      17     170 .. 0.68

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00014
                  DUF4064  42 e.....................................................qalsgedasavleflstllivlgvialiaivl 74 
                              +                                                     ++ + e+a+++++ l + +i++  + l+ i++
  PHY93_01460|PHY93_01460  56 SqiqssdnwshyqaksikssimslkndllvemgktpkeqdlkkseeykieqeeiSEKAREKAAESEHHLKSHVILAKAVTLFQIAI 141
                              4555555555555555555555555555555555555555555566666677779999**************************** PP

                  DUF4064  75 givgalllkknkkvsGilfiiaailslf 102
                               i ++ +l k k ++ + + +a+i  +f
  PHY93_01460|PHY93_01460 142 AISAIAVLTKRKSFWYVSLGFAGIGFIF 169
                              *********8888888877777777665 PP

>> Tfb4  Transcription factor Tfb4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   1.7     4e-05      0.18      21     124 ..      27     135 ..      12     153 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 4e-05
                     Tfb4  21 kltlsevlasllvflNahLalnaaNkvaviashsqkakflYpseek.......ekeaskkkdvelskssknkyrefrlvdelvvee 99 
                              k+ ls+++ ++++ + a +a +++N+  +   +s+++   Y+ ++        +++   +  +++++++ +k +e+++ +e ++e+
  PHY93_01460|PHY93_01460  27 KVALSTAMIAVIAAISALMAGHHSNEALISQIQSSDNWSHYQAKSIkssimslKNDLLVEMGKTPKEQDLKKSEEYKIEQEEISEK 112
                              478999*******************9766555555555556665556666655445555555566666668899999999999999 PP

                     Tfb4 100 lkellsetskaeekaeksllagals 124
                              ++e  +e++++ +++   +la a++
  PHY93_01460|PHY93_01460 113 AREKAAESEHHLKSH--VILAKAVT 135
                              888777766655544..46666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (175 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1718  (0.0958224); expected 358.6 (0.02)
Passed bias filter:                      586  (0.0326845); expected 358.6 (0.02)
Passed Vit filter:                        64  (0.00356964); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.37
# Mc/sec: 1435.76
//
Query:       PHY93_01465|PHY93_01465  [L=157]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0025   17.6   0.1     0.0068   16.2   0.0    1.8  2  HNH_5     HNH endonuclease


Domain annotation for each model (and alignments):
>> HNH_5  HNH endonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0      0.46   8.3e+03       3       8 ..      51      56 ..      50      62 .. 0.66
   2 !   16.2   0.0   3.8e-07    0.0068       8      32 ..      79     103 ..      76     109 .. 0.87

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 0.46
                    HNH_5  3 yCgkei 8 
                             yC++++
  PHY93_01465|PHY93_01465 51 YCDRDV 56
                             899884 PP

  == domain 2  score: 16.2 bits;  conditional E-value: 3.8e-07
                    HNH_5   8 iaekelseeHIiPeslGGkltisnl 32 
                               + ++++++H iP   GG+++++nl
  PHY93_01465|PHY93_01465  79 LNRADFKIDHFIPLCAGGSNDVTNL 103
                              66789*******************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (157 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       435  (0.0242624); expected 358.6 (0.02)
Passed bias filter:                      382  (0.0213063); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.22s 00:00:00.61 Elapsed: 00:00:00.37
# Mc/sec: 1256.09
//
Query:       PHY93_01470|PHY93_01470  [L=275]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.9e-36  123.4  10.7    6.9e-36  123.4  10.7    2.5  2  Flagellin_N      Bacterial flagellin N-terminal helical regio
    2.6e-24   85.4   9.0    2.6e-24   85.4   9.0    2.7  3  Flagellin_C      Bacterial flagellin C-terminal helical regio
  ------ inclusion threshold ------
      0.016   15.4   2.5        0.3   11.3   0.4    3.3  3  WXG100           Proteins of 100 residues with WXG
       0.02   15.1   0.9       0.02   15.1   0.9    2.0  2  ArlS_N           ArlS sensor domain
      0.094   13.2   0.9       0.93   10.0   0.3    2.4  2  CCDC74_C         Coiled coil protein 74, C terminal
        0.1   12.8   4.8       0.27   11.4   0.6    2.3  2  Tropomyosin_1    Tropomyosin like
       0.14   12.6   0.2       0.26   11.7   0.2    1.4  1  Pox_polyA_pol_N  Poxvirus poly(A) polymerase N-terminal domai
       0.54   10.6   8.8        0.9    9.9   0.6    4.3  6  V-SNARE_C        Snare region anchored in the vesicle membran


Domain annotation for each model (and alignments):
>> Flagellin_N  Bacterial flagellin N-terminal helical region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  123.4  10.7   3.1e-39   6.9e-36       1     137 [.       5     141 ..       5     143 .. 0.99
   2 ?    2.6   8.5      0.06   1.3e+02      45      88 ..     210     253 ..     185     274 .. 0.67

  Alignments for each domain:
  == domain 1  score: 123.4 bits;  conditional E-value: 3.1e-39
                              --SS-STTHHHHHHHHHHHHHHHHHHHHTTSBTTSSTTS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
              Flagellin_N   1 istnalalaarsnlnknqaelqkaqeelstGlridsalddaaglaisvslrsqiaglsqlvrnnslgisrlqtaqgalselsdilq 86 
                              i+tn+ +laa+++l  n+ e ++++ +ls+G ri +a+ddaaglais++l++qi+g +q+ rn+++gis++qta+g+l+e s+il 
  PHY93_01470|PHY93_01470   5 INTNVTSLAAQRTLGANNLEQASTLGKLSSGSRIVKAADDAAGLAISEKLKAQIRGTGQAERNANDGISLIQTAEGGLNESSNILV 90 
                              9************************************************************************************* PP

                              HHHHHHHHHT-TTTS-SHHHHHHHHHHHHHHHHHHHHHH-EETTEE-SSGG CS
              Flagellin_N  87 rlkelavaasndsnsdedrqslqaelqqLtdelnrianttsfNGekLlagt 137
                              rl+elav++++d+  d++r+  + e q+L++e++ri++ t+fNG+kLl+g+
  PHY93_01470|PHY93_01470  91 RLRELAVQSASDTVGDSERKFTDVEYQNLKQEMERISQVTEFNGKKLLNGS 141
                              *************************************************97 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.06
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
              Flagellin_N  45 aisvslrsqiaglsqlvrnnslgisrlqtaqgalselsdilqrl 88 
                              ai ++l+s i++l++ ++n s + sr+  ++ a ++ +++  ++
  PHY93_01470|PHY93_01470 210 AIQNRLTSTINNLQSSSENLSAANSRIRDTDFAAESAKNTKMNI 253
                              67788888888888888888888888888888888777765553 PP

>> Flagellin_C  Bacterial flagellin C-terminal helical region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.2         1   2.3e+03      10      41 ..      11      41 ..       4      45 .. 0.50
   2 ?   -1.7   0.1       1.7   3.7e+03      45      63 ..     110     128 ..      96     133 .. 0.51
   3 !   85.4   9.0   1.2e-27   2.6e-24       2      85 ..     192     275 .]     191     275 .] 0.97

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 1
                             HHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHH CS
              Flagellin_C 10 dldkvrselGavqnRlesaitnlkaqsenlka 41
                             +l+++r +lGa+     s+  +l+  s ++ka
  PHY93_01470|PHY93_01470 11 SLAAQR-TLGANNLEQASTLGKLSSGSRIVKA 41
                             333333.3555555555555555555555555 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 1.7
                              HHCCHHHHHHHHHHHHHHH CS
              Flagellin_C  45 rledvDpaeestrvtklqi 63 
                              +  dv + + + +++++ +
  PHY93_01470|PHY93_01470 110 KFTDVEYQNLKQEMERISQ 128
                              4444444444444444433 PP

  == domain 3  score: 85.4 bits;  conditional E-value: 1.2e-27
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHCHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHCTCCHHHHHHH CS
              Flagellin_C   2 divdeaitdldkvrselGavqnRlesaitnlkaqsenlkaaesrledvDpaeestrvtklqiliqasyallaqanqlpqsllnl 85 
                              ++vd ai++++ +r+elGa+qnRl+s+i+nl+  senl+aa sr++d+D+a+es++ tk +il+qa++++l+qan++ q +l+l
  PHY93_01470|PHY93_01470 192 AKVDMAIQNVSGQRAELGAIQNRLTSTINNLQSSSENLSAANSRIRDTDFAAESAKNTKMNILTQAGTSVLSQANSQGQAALKL 275
                              689****************************************************************************99986 PP

>> WXG100  Proteins of 100 residues with WXG
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.0      0.14     3e+02      42      65 ..     104     128 ..      73     140 .. 0.63
   2 ?   11.3   0.4   0.00014       0.3       3      39 ..     188     224 ..     186     227 .. 0.91
   3 ?    7.6   0.1     0.002       4.4      55      85 ..     210     240 ..     206     240 .. 0.87

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.14
                              THHHCHHHHH.HHHHHHHHHHHHHH CS
                   WXG100  42 sGaaadafqa.efeewkqaaqklvd 65 
                               G++  +f + e++++kq+++++ +
  PHY93_01470|PHY93_01470 104 VGDSERKFTDvEYQNLKQEMERISQ 128
                              5666666655356677777777665 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 0.00014
                              CSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCGC CS
                   WXG100   3 kvdpeelrqaaarfqkqaeeledelqrlkaevdalqs 39 
                              +++ ++++ a++++++q++el ++++rl +++++lqs
  PHY93_01470|PHY93_01470 188 QASLAKVDMAIQNVSGQRAELGAIQNRLTSTINNLQS 224
                              567788999**************************87 PP

  == domain 3  score: 7.6 bits;  conditional E-value: 0.002
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                   WXG100  55 ewkqaaqklvdaLeeisealkqaanafedaD 85 
                               +++ ++  +++L++ se+l +a+++ +d+D
  PHY93_01470|PHY93_01470 210 AIQNRLTSTINNLQSSSENLSAANSRIRDTD 240
                              5677788999******************998 PP

>> ArlS_N  ArlS sensor domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.1      0.88     2e+03       9      30 ..     115     136 ..     108     163 .. 0.68
   2 ?   15.1   0.9   9.1e-06      0.02       9      69 ..     207     267 ..     202     274 .. 0.91

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.88
                   ArlS_N   9 Eeeeversltevttyleekkls 30 
                              E ++++++++ +++  e ++++
  PHY93_01470|PHY93_01470 115 EYQNLKQEMERISQVTEFNGKK 136
                              6677788888777755544444 PP

  == domain 2  score: 15.1 bits;  conditional E-value: 9.1e-06
                   ArlS_N   9 Eeeeversltevttyleekklslteeelqesdsllekinekdqtirildkdgkevlevsnd 69 
                              E  ++++ lt + ++l++ +++l++++ +++d+++ +   k+ +++il + g  vl+ +n+
  PHY93_01470|PHY93_01470 207 ELGAIQNRLTSTINNLQSSSENLSAANSRIRDTDFAAESAKNTKMNILTQAGTSVLSQANS 267
                              566899**************************************************98664 PP

>> CCDC74_C  Coiled coil protein 74, C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.0      0.25   5.6e+02      32      58 ..      52      78 ..      21     131 .. 0.76
   2 ?   10.0   0.3   0.00042      0.93      25      76 ..     202     256 ..     194     274 .. 0.73

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.25
                 CCDC74_C 32 qrlKslLeevlnskkatseayllaksy 58
                             ++lK+ ++++ + ++ ++++ +l+++ 
  PHY93_01470|PHY93_01470 52 EKLKAQIRGTGQAERNANDGISLIQTA 78
                             479999999999999999988777654 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00042
                 CCDC74_C  25 slQaqElqrlKslLeevlnskkatseayllaksyvkdee...daiqlpkvalknl 76 
                              s Q  El  +   L  ++n+ + +se+ ++a+s+++d++   ++++  k+ + ++
  PHY93_01470|PHY93_01470 202 SGQRAELGAIQNRLTSTINNLQSSSENLSAANSRIRDTDfaaESAKNTKMNILTQ 256
                              56889*********************************86554444444444333 PP

>> Tropomyosin_1  Tropomyosin like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.3     0.045     1e+02      81     128 ..      74     122 ..      12     134 .. 0.68
   2 ?   11.4   0.6   0.00012      0.27      52     114 ..     185     247 ..     176     260 .. 0.82

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.045
            Tropomyosin_1  81 kiqlLEeeleesdkkLkettek.LretdvkaeelERkvkaLeqerdewe 128
                               iq  E  l+es++ L    e   + ++ + +++ERk +++e ++ + e
  PHY93_01470|PHY93_01470  74 LIQTAEGGLNESSNILVRLRELaVQSASDTVGDSERKFTDVEYQNLKQE 122
                              4777777777777766666554145567778899999999998877666 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 0.00012
            Tropomyosin_1  52 ekleeklkeakekaeesekkktnnealtrkiqlLEeeleesdkkLkettekLretdvkaeelE 114
                              e  +++l ++  + ++ + ++++  a++ ++    ++l +s+++L  ++ ++r+td +ae   
  PHY93_01470|PHY93_01470 185 ESSQASLAKVDMAIQNVSGQRAELGAIQNRLTSTINNLQSSSENLSAANSRIRDTDFAAESAK 247
                              55666777777777777777777779*********************************9864 PP

>> Pox_polyA_pol_N  Poxvirus poly(A) polymerase N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.2   0.00011      0.26      19      78 ..     113     169 ..     107     176 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00011
                              HHHHHHHGGGHHHHHHHHHS-HHHHHHHHHHHHHHH-TTSSS-THHHHHHHHHHTTGGGC CS
          Pox_polyA_pol_N  19 leeyvvlksqvrniqkilnfdkdiflsLlkknkkkffkdlklseseikkrileyfskqkk 78 
                                ey+ lk+++++i++++ f+ +   +Ll+ + +kf  +++  +++ ++ri+   +kq++
  PHY93_01470|PHY93_01470 113 DVEYQNLKQEMERISQVTEFNGK---KLLNGSGDKFDFQIGINNDDFQDRIKYDAAKQNA 169
                              569******************98...79999********************988888875 PP

>> V-SNARE_C  Snare region anchored in the vesicle membrane C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       2.3   5.2e+03      22      34 ..      45      57 ..      25      58 .. 0.64
   2 ?   -1.0   0.0      0.99   2.2e+03       8      26 ..      80      98 ..      74     109 .. 0.75
   3 ?   -1.6   0.0       1.5   3.3e+03       6      21 ..     100     115 ..      96     120 .. 0.78
   4 ?    9.9   0.6    0.0004       0.9      29      61 ..     199     231 ..     196     236 .. 0.84
   5 ?    8.9   0.1   0.00078       1.8      26      49 ..     217     240 ..     216     243 .. 0.94
   6 ?   -1.5   0.1       1.4   3.1e+03      17      36 ..     251     270 ..     245     271 .. 0.78

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 2.3
                V-SNARE_C 22 siGaailedLhsQ 34
                             + G ai e+L+ Q
  PHY93_01470|PHY93_01470 45 AAGLAISEKLKAQ 57
                             3467777777776 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.99
                V-SNARE_C  8 drlknShrivdetisiGaa 26
                               l++S++i+ ++ + +++
  PHY93_01470|PHY93_01470 80 GGLNESSNILVRLRELAVQ 98
                             5689999999888877765 PP

  == domain 3  score: -1.6 bits;  conditional E-value: 1.5
                V-SNARE_C   6 esdrlknShrivdeti 21 
                              +sd + +S+r  ++++
  PHY93_01470|PHY93_01470 100 ASDTVGDSERKFTDVE 115
                              6788999999988887 PP

  == domain 4  score: 9.9 bits;  conditional E-value: 0.0004
                V-SNARE_C  29 edLhsQretLkrarsklhnvanrlgksnsiLrs 61 
                              ++ + Qr  L+ ++++l  + n+l  s+  L++
  PHY93_01470|PHY93_01470 199 QNVSGQRAELGAIQNRLTSTINNLQSSSENLSA 231
                              67899*******************999876665 PP

  == domain 5  score: 8.9 bits;  conditional E-value: 0.00078
                V-SNARE_C  26 ailedLhsQretLkrarsklhnva 49 
                              +++++L+s  e+L+ a+s++++++
  PHY93_01470|PHY93_01470 217 STINNLQSSSENLSAANSRIRDTD 240
                              899******************997 PP

  == domain 6  score: -1.5 bits;  conditional E-value: 1.4
                V-SNARE_C  17 vdetisiGaailedLhsQre 36 
                              ++ + + G+++l++  sQ +
  PHY93_01470|PHY93_01470 251 MNILTQAGTSVLSQANSQGQ 270
                              56677889999999988876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (275 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       921  (0.0513693); expected 358.6 (0.02)
Passed bias filter:                      365  (0.0203581); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.38
# Mc/sec: 2182.74
//
Query:       PHY93_01475|PHY93_01475  [L=230]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00025   21.3   0.0     0.0018   18.6   0.0    2.3  2  PilZ      PilZ domain


Domain annotation for each model (and alignments):
>> PilZ  PilZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0      0.31   5.5e+03      62      80 ..      23      41 ..       4      55 .. 0.73
   2 !   18.6   0.0   9.8e-08    0.0018      13      89 ..     131     219 ..     116     226 .. 0.73

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 0.31
                             EEEEEEEEEEEEECTCTTE CS
                     PilZ 62 qelslpgrVvrvkpeedge 80
                               ++ ++  ++++++++++
  PHY93_01475|PHY93_01475 23 IHIESSAVLIWQNEDGKRN 41
                             5566677888888887665 PP

  == domain 2  score: 18.6 bits;  conditional E-value: 9.8e-08
                              CEEEEEEETTEE......EEEEEEEEESSEEEEEES...T-SS-TTSEEEEEEECECEEEEEEEEEEEEEECTCTTE...EEEEEE CS
                     PilZ  13 sipvtleadege......lkgrliDiSlgGlairlp...deelalgdrvelklpldkdqelslpgrVvrvkpeedge...rlGveF 86 
                              ++++++++++        +++ l+++Sl+G++++l+   +  +  +d++++    + + +  + g++v ++ e+++    r+G++F
  PHY93_01475|PHY93_01475 131 KATAEIYPGGLIdistkaIEVDLHNVSLSGMGFFLEkklSRLFFEKDKIKIIRIGNHGFPRPIYGEIVYTSTEQNNIdrvRIGIRF 216
                              45555555555555555588899****************5566666665555445******************9999*9999**** PP

                              EEE CS
                     PilZ  87 ldl 89 
                               ++
  PHY93_01475|PHY93_01475 217 GEI 219
                              544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (230 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       372  (0.0207485); expected 358.6 (0.02)
Passed bias filter:                      270  (0.0150594); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.19s 00:00:00.61 Elapsed: 00:00:00.35
# Mc/sec: 1963.61
//
Query:       PHY93_16915|PHY93_16915  [L=1041]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
   1.8e-258  860.2  25.9   2.1e-258  860.0  25.9    1.0  1  ACR_tran   AcrB/AcrD/AcrF family
    0.00015   21.2  29.3      0.023   14.1   7.3    2.7  2  SecD_SecF  Protein export membrane protein
  ------ inclusion threshold ------
      0.022   13.7  19.1      0.026   13.4   9.0    2.4  2  MMPL       MMPL family


Domain annotation for each model (and alignments):
>> ACR_tran  AcrB/AcrD/AcrF family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  860.0  25.9  3.4e-262  2.1e-258       1    1020 [.       5    1027 ..       5    1028 .. 0.97

  Alignments for each domain:
  == domain 1  score: 860.0 bits;  conditional E-value: 3.4e-262
                               -HHHHHTSHHHHHHHHHHHHHHHHHHHCTSSBESSSS-S--EEEEEEE-TTC-HHHHHHHTHHHHHCTCTS-TTEEEEEEEETT CS
                 ACR_tran    1 iikffikrpifalvlaliilllGilsilslPvdalPeiapptvqvstsypGaspevvesevtqplEqalngldglkyvsSqSse 84  
                               iikf++k ++f++ l++++l+ G + + +lPvd +P+++ ptv++ t++ G++pe+ve+ +t plE+alngl+g++ v+S+S  
  PHY93_16915|PHY93_16915    5 IIKFSLKNRLFVVALSVVVLIYGGFILTKLPVDVFPDLNRPTVNIMTEAEGMAPEEVETLITMPLENALNGLPGVNRVRSTSGV 88  
                               689********************************************************************************* PP

                               SEEEEEEEESTTS-HHHHHHHHHHHHHHHGGGS-HHHHHH-EEEEEEECCECEEEEEEES.SSSS-HHHHHHHHHHHTHHHHHT CS
                 ACR_tran   85 glssitltFedgtdidiArqqvqnrlqeaknkLPeevqepgiskiktssseilvlavtsk.dgsltktelrdlaetnikdqLsr 167 
                               gls i ++F+ gtd+   rq v ++l e+k++LP++   p + +i++  +ei  ++++ + ++  ++ +lr++a+++ik+ L +
  PHY93_16915|PHY93_16915   89 GLSVIYVEFDWGTDVFRNRQLVSEKLIETKEHLPKNT-IPVMGPISSIMGEIQLIGLSLEsNSVFNPIDLRTYADWVIKPRLLN 171 
                               ************************************9.9************9999998883466799***************** PP

                               STTEEEEEESS.-SEEEEEEE-HHHHHCTT--HHHHHHHHHHHSSB-EEEEETT-SB-EEEEESB---SHHHHHTSEEEETTSC CS
                 ACR_tran  168 veGVgdvqliGgsekavriwldpqklaklgltltdvvsalkeqnvnvaaGqlegqeeelliraqgqlqsaediekiivknqdgs 251 
                               ++GV++v  iGg  k+++i++++ kl+ ++l l++v + l+   +n  +G+l+++++e+lir  ++ ++++die+  v+++ g+
  PHY93_16915|PHY93_16915  172 IPGVSQVISIGGGVKQYQIKISASKLNFYQLNLEEVEKNLNLLSQNTTGGYLDKEGQEYLIRNLARAENIADIEQTAVGKHLGK 255 
                               ************************************************************************************ PP

                               EEEHHHCEEEEEEESSSSSEEEETTEEEEEEEEEEETTSBHHHHHHHHHHHHHCCGGGSSTTEEEE.EEEESHHHHHHHHHHHH CS
                 ACR_tran  252 kvrlrDvAkVelgaeeerlaatfngkpavllevkklpganaievakavkekleeLkeslPegveiv.vvydrtefvrasieeVv 334 
                                ++++D+AkVe+ ++ +r+ a +n kp+v+l++ k+pga +ie +++++  l++++++lP+g++++  ++ ++ f+++si++V+
  PHY93_16915|PHY93_16915  256 TILVKDIAKVEIDSQIKRGDAGINAKPGVILSIMKQPGASTIELTEKIDIVLKSIETTLPKGMKLHgHLFKQADFIKSSINNVE 339 
                               ****************************************************************984689************** PP

                               HHHHHHHHHHHHHHHHHHSSHHHHHHHHHHHHHHHHHHHHHHHHTT--BCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH.HT CS
                 ACR_tran  335 ktLleaivLvvlvvflFLqnlratlipaiavPlsllgtfavlkalgfslNlltLfgLvlAiGlvvDdAiVvvEnierklee.eg 417 
                               + L  a + +++v++lFL+n+r+t+i+++a+Pls ++tf++lk++g+s+N++tL+gL++AiG +vDdAiV vEn+ r+l+e ++
  PHY93_16915|PHY93_16915  340 EALRDAGIFIIIVLILFLMNFRTTVITLTAIPLSFVATFIILKMFGLSINTMTLGGLAIAIGELVDDAIVDVENVLRRLKEnSH 423 
                               ********************************************************************************9544 PP

                               S-H....HHHHHHHHHHHHHHHHHHHHHHHHHCTGGGGSBHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHS---STT- CS
                 ACR_tran  418 ekp....leaalksmkeiqgalvaialvllavflPilflgGveGklfrqfaltivlaillsvlvaltltPalcallLkerkeek 497 
                               +      l  ++++++e++ ++v+ +++++ vflP++flgG+eG+lf ++++++++++l+s++++lt+tP+lc+llL  ++  +
  PHY93_16915|PHY93_16915  424 AATkksvLTIIFEASSEVRNSIVFATVIVVLVFLPLFFLGGLEGRLFIPLGISYIVSLLASLVISLTVTPVLCSLLLGRSEILE 507 
                               433678888999*****************************************************************9888766 PP

                               CTSHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHHHHHHHHHHHHHHCS-BESS----TSEEEEEEE-STTB-HHHHHHHHH CS
                 ACR_tran  498 ekkffrefnrlfealeraYakllekvlrhravvllvalvllvlsvllfvripkeflPeedegvlvtsvqlppgvsleqtqkvlk 581 
                               +        +l+++l++  +k+le+ l h+ v+l+++ v+l+ s++l++ ++k flP+++eg +v+ +  +pg+sl++++ + +
  PHY93_16915|PHY93_16915  508 K-----PDGFLVRFLKKYDQKILERTLDHPYVLLSIVGVMLIFSLSLIPGLGKDFLPKFNEGTAVIGLLSQPGISLSESNIIGQ 586 
                               4.....67889999999999**************************************************************** PP

                               HHHHHHHTTTTEEEEEEEECECS.SE..ECCCEEEEEEEES-GCGS-SGGGSHHHHHHHHHHHCTTSTSSEEEEEETTSSCCCS CS
                 ACR_tran  582 qvekilkekpevesvfavtGfae.sgdtagpnsakvfisLkpekerkeeeksvealierlrkelkkipganvellapiqlrele 664 
                               + e+i+   pev sv  +tG+ae +   +g+ s+++ + +k  +   +++ +++ +++++rk+l+ + g+ v++ +pi++r + 
  PHY93_16915|PHY93_16915  587 KAEEIILSVPEVLSVSRRTGRAEqDEHAEGVHSSEIDVDFKKASIG-NKTRDKALVLAEIRKKLQTLDGVVVNIGQPISHRLDH 669 
                               ***********************9999**************99955.7888999999*************************** PP

                               SSSCEEEEEEE.SSSSHHHHHHHHHHHHHHHHCCSTTEEEEEESS-S-EEEEEEEE-HHHHHHCTCSHHHHHHHHHHHHTTEEE CS
                 ACR_tran  665 tlsgvrselqvklfgddleaLseaaeqllaalkelpelsdvrseqqedqpqlqveidrekaarlGvsisdindtletalggsyv 748 
                                lsgv+++++ kl g dl++L++   ++++ l+ +++l d+++eqq   pq++++  re a++l + + +i ++le al g++v
  PHY93_16915|PHY93_16915  670 LLSGVKAAIAIKLYGPDLNTLRKKGFEIKSRLEDVKGLVDLQVEQQVLIPQIKIQLKREMASKLSLPVGEITQILEKALKGEVV 753 
                               ************************************************************************************ PP

                               EEEEETTEEEEEEEEE-GGGSSSGGGGCCSEEE.ETTSCEEEGGGTEEEEEEEE-SEEEEETTCEEEEEEEEESTTS-HHHHHH CS
                 ACR_tran  749 ndfieegrrvkvvvrleedlrsspedlkklkvr.nkkgkmvplsavakieeekgpnsierengsrsvvisgnvaegdslseaee 831 
                                +++e+ + ++v +r +++ r +++++++  ++  ++g  ++ls+va++ e++gpn i+ren +r++v+++n a++d+ s + +
  PHY93_16915|PHY93_16915  754 AQLYEGPKSFNVFMRFDDNSRADIDKIQNTIIKiLPDGSKIRLSEVAEVYEATGPNVINRENAQRRIVVLANTANRDIESVVTD 837 
                               ****************************9999726999********************************************99 PP

                               HHHHHCTT..SSTTEEEEEEHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHTSSSTCHHHHTTHHHHHHHHHHHHHHTT--BS CS
                 ACR_tran  832 avekiakkvklpegvtiewtgqaeqeqeasnsllilvalalllvflvLaalyeslsepllilltvPlalvGallalllrglels 915 
                               ++ ++++  +l eg+ i++ gq e++++ +n + +l al+++ vf+vL++ ++s + +l i++++Plal+G ++a++l+++++s
  PHY93_16915|PHY93_16915  838 IETRLKSL-ELKEGYFIQYDGQLESQKKGMNLIYLLGALSVVGVFIVLFMHFKSSMMALQIMINIPLALIGSIIAVYLTDKSFS 920 
                               99998876.*************************************************************************** PP

                               HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTCH.HHHHHHHHHHCHHHHHHHHHHHHHHHHHHHCT-ST.THHHHHHHHHH CS
                 ACR_tran  916 viaqvGlilliGlavkNaillvefakelrekegksl.eeaileaakeRLrPiLMTalaailGvlPLalstga.Gselqqplgiv 997 
                               ++++v +++l+G+a++N+i++++ + +l e+eg +  ++ i+++++eRL P+LMTal+ail ++P++ls+g+ G e+  pl +v
  PHY93_16915|PHY93_16915  921 LASMVAFVTLCGIASRNGIMMLTHYIHLVEHEGEKFnKKMIIRGSLERLVPVLMTALTAILALIPILLSKGEpGKEILYPLSVV 1004
                               *************************999999998762689*******************************77*********** PP

                               HHHHHHHHHHHHHHHHHHHHHHH CS
                 ACR_tran  998 vlgGlvtstvLtLllvPvlYvlv 1020
                               ++gGl++st+L + ++Pv+++ +
  PHY93_16915|PHY93_16915 1005 IIGGLLSSTLLDIIITPVIFYNF 1027
                               *******************9865 PP

>> SecD_SecF  Protein export membrane protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.0  14.0   1.6e-05     0.097      35     171 ..     343     484 ..     326     500 .. 0.73
   2 !   14.1   7.3   3.8e-06     0.023      38     179 ..     874    1016 ..     856    1029 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 1.6e-05
                              HHHHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHHHHHHHHHHTT----HHHHHHHHHHTTSSSHHHHH....HHHHHHHHHHH-- CS
                SecD_SecF  35 lallialvliliyvalrFewrvalaaiialvhDviitvgvlsllgievdlatvaalLtiiGYSvndtvv....vfdrvrenlrkkk 116
                                 +i+++++li   + F+  v +   +a+    + t  +l ++g+ ++  t+++l   iG  v+d +v    v  r++en +  +
  PHY93_16915|PHY93_16915 343 RDAGIFIIIVLILFLMNFRTTVITL--TAIPLSFVATFIILKMFGLSINTMTLGGLAIAIGELVDDAIVdvenVLRRLKENSHAAT 426
                              4455666666666666666655444..4444455666678999**************************77777778888888999 PP

                              SS-HHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHT...TTTHHHHHHHHHHTSTT CS
                SecD_SecF 117 ratlkeiinlslnqtLtrtiltslttllvvvallllgg...dslkdfalallvGlivg 171
                              ++++ +ii ++ ++     + ++++++lv + l++lgg   +    + ++ +v l++ 
  PHY93_16915|PHY93_16915 427 KKSVLTIIFEASSEVRNSIVFATVIVVLVFLPLFFLGGlegRLFIPLGISYIVSLLAS 484
                              999999999999999888899***************9854433444444444444444 PP

  == domain 2  score: 14.1 bits;  conditional E-value: 3.8e-06
                               HHHHHHHHHHHHHHT-HHH.HHHHHHHHHHHHHHHHHHHHHTT----HHHHHHHHHHTTSSSHHHHHHHHHHHHHHHH--SS-H CS
                SecD_SecF   38 lialvliliyvalrFewrv.alaaiialvhDviitvgvlsllgievdlatvaalLtiiGYSvndtvvvfdrvrenlrkkkratl 120 
                               ++++v+++i++++ F+ ++ al ++i +   +i  + ++ l+   ++la+++a  t+ G    + +++ +     ++++ ++  
  PHY93_16915|PHY93_16915  874 ALSVVGVFIVLFMHFKSSMmALQIMINIPLALIGSIIAVYLTDKSFSLASMVAFVTLCGIASRNGIMMLTHYIHLVEHEGEKFN 957 
                               4567889999999**987527777777888899888899999******************999999999998888777766655 PP

                               HHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHTTTTHHHHHHHHHHTSTTTTTHHHHH CS
                SecD_SecF  121 keiinlslnqtLtrtiltslttllvvvallllggdslkdfalallvGlivgtyssifia 179 
                               k++i ++  + L+  ++t lt++l+++ +ll  g+  k++   l v +i g +ss ++ 
  PHY93_16915|PHY93_16915  958 KKMIIRGSLERLVPVLMTALTAILALIPILLSKGEPGKEILYPLSVVIIGGLLSSTLLD 1016
                               55555555566777*****************9997777777777777777777776553 PP

>> MMPL  MMPL family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   9.0   4.4e-06     0.026     154     309 ..     347     508 ..     297     517 .. 0.80
   2 ?    5.5   2.4    0.0011       6.7     140     194 ..     864     918 ..     778    1035 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 4.4e-06
                     MMPL 154 vvilviLlivyrSlvaallplltvvvsllaalglvlilalllglelstfvlgllvvlliavGtDYall....LvsRyreelaaged 235
                              + i+++L++ + ++ + ++ l  + +s++a++ +     ++ gl ++t++lg   +++i+  +D a+     ++ R++e ++a  +
  PHY93_16915|PHY93_16915 347 IFIIIVLILFLMNFRTTVITLTAIPLSFVATFII----LKMFGLSINTMTLG-GLAIAIGELVDDAIVdvenVLRRLKENSHAATK 427
                              568889999999*****************99988....34445555555544.4566777778888875555669****9999999 PP

                     MMPL 236 ree..aviravastgkvvtaaGltvaiamlgLvva...rlpvlaqvGvaialGvlvdvlivlTllPAllvl.lGraa.lak 309
                              +     + +a   + + +++a+++v++ +l L ++   + + +  +G+   +++l ++ i+lT++P l++l lGr+  l k
  PHY93_16915|PHY93_16915 428 KSVltIIFEASSEVRNSIVFATVIVVLVFLPLFFLgglEGRLFIPLGISYIVSLLASLVISLTVTPVLCSLlLGRSEiLEK 508
                              8322234568888999*************998885222689****************************874799975555 PP

  == domain 2  score: 5.5 bits;  conditional E-value: 0.0011
                     MMPL 140 asdrdlklievvtlvvilviLlivyrSlvaallplltvvvsllaalglvlilall 194
                               +++ + l++++++v ++++L++ ++S ++al +++ + + l+ ++  v+++ + 
  PHY93_16915|PHY93_16915 864 KGMNLIYLLGALSVVGVFIVLFMHFKSSMMALQIMINIPLALIGSIIAVYLTDKS 918
                              4566667889999************************999998777666555444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1041 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1157  (0.0645323); expected 358.6 (0.02)
Passed bias filter:                      597  (0.033298); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.82u 0.28s 00:00:01.10 Elapsed: 00:00:00.39
# Mc/sec: 7955.40
//
Query:       PHY93_01480|PHY93_01480  [L=152]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      0.006   16.7   0.2      0.011   15.9   0.2    1.4  1  DUF4148          Domain of unknown function (DUF4148)
     0.0097   16.2   0.0      0.067   13.5   0.0    2.1  2  RNA_pol_Rpb2_45  RNA polymerase beta subunit external 1 domai
  ------ inclusion threshold ------
      0.051   13.3   0.3       0.12   12.1   0.1    1.6  2  Pilus_CpaD       Pilus biogenesis CpaD protein (pilus_cpaD)


Domain annotation for each model (and alignments):
>> DUF4148  Domain of unknown function (DUF4148)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.2   1.8e-06     0.011       7      40 ..       4      33 ..       1      34 [. 0.68

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 1.8e-06
                  DUF4148  7 aaalaaavaaaaalaahskspkTRAqVraELaqa 40
                             +++  +++++a++ a    + kT A+V++E aqa
  PHY93_01480|PHY93_01480  4 LILSSLLLLIATGCA----TKKTKAEVKQEMAQA 33
                             333333445666666....89************8 PP

>> RNA_pol_Rpb2_45  RNA polymerase beta subunit external 1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.0      0.13   7.6e+02      20      55 ..      25      60 ..      21      68 .. 0.67
   2 !   13.5   0.0   1.1e-05     0.067       9      42 ..     115     149 ..      99     152 .] 0.85

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.13
                             HTTSEEE-SSS.-BETTSCBSSSEEEEECSSCEEEEE CS
          RNA_pol_Rpb2_45 20 EekyviAqAna.pldeegrfveerVlaRrkgevelve 55
                             E k   AqA + + d + +++e+++l+   ++ + v+
  PHY93_01480|PHY93_01480 25 EVKQEMAQAPVvKSDSDLYLIENKILVNS-DKLTSVQ 60
                             56666788865256888899999998875.4444555 PP

  == domain 2  score: 13.5 bits;  conditional E-value: 1.1e-05
                              EEEEEE.EEHHHHTTSEEE-SSS-BETTSCBSSSE CS
          RNA_pol_Rpb2_45   9 tdevvY.LtAdeEekyviAqAnapldeegrfveer 42 
                               ++v+Y L+A  E k ++ ++n+pld++ +++++r
  PHY93_01480|PHY93_01480 115 RKKVRYsLSAYREAKNIVGKSNVPLDKTLQMIDNR 149
                              5789999********************98888765 PP

>> Pilus_CpaD  Pilus biogenesis CpaD protein (pilus_cpaD)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.1     2e-05      0.12       3      71 ..       9      74 ..       7      93 .. 0.78
   2 ?   -1.4   0.0      0.28   1.7e+03      34      71 ..      93     128 ..      77     132 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 2e-05
               Pilus_CpaD  3 alalllagCastaasnrettgsidyrsrhpivveeaeasldl..kvasgdggLtaaqrarlealaeeyrre 71
                             +l+l+ +gCa+++ +++  +    ++  +++vv+++++ + +  k+  ++ +Lt+ q+++l+ l++++r++
  PHY93_01480|PHY93_01480  9 LLLLIATGCATKKTKAEV-K----QEMAQAPVVKSDSDLYLIenKILVNSDKLTSVQKNKLNTLMQKMRNQ 74
                             5788999**977766432.3....4568999999988766552256679******************9975 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.28
               Pilus_CpaD  34 vveeaeasldlkvasgdggLtaaqrarlealaeeyrre 71 
                               + e++++++l v   +++L + +r++++  +++yr+ 
  PHY93_01480|PHY93_01480  93 LIDEDNSKIKLGV--LENQLIKLNRKKVRYSLSAYREA 128
                              5677777777777..77778888888888888888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (152 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1530  (0.0853366); expected 358.6 (0.02)
Passed bias filter:                      477  (0.0266049); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.39u 0.20s 00:00:00.59 Elapsed: 00:00:00.33
# Mc/sec: 1369.46
//
Query:       PHY93_01485|PHY93_01485  [L=158]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (158 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       556  (0.0310112); expected 358.6 (0.02)
Passed bias filter:                      413  (0.0230353); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.20s 00:00:00.60 Elapsed: 00:00:00.35
# Mc/sec: 1347.82
//
Query:       PHY93_01490|PHY93_01490  [L=311]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.1e-28   98.3   0.4    5.6e-28   97.9   0.4    1.2  1  DnaJ_C        DnaJ C terminal domain
      1e-24   86.4   0.4    1.7e-24   85.7   0.4    1.3  1  DnaJ          DnaJ domain
  ------ inclusion threshold ------
       0.13   12.5   0.0        6.6    7.1   0.0    2.7  3  PHA_gran_rgn  Putative polyhydroxyalkanoic acid system protei


Domain annotation for each model (and alignments):
>> DnaJ_C  DnaJ C terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   97.9   0.4   9.3e-32   5.6e-28       2     148 .]     130     272 ..     129     272 .. 0.95

  Alignments for each domain:
  == domain 1  score: 97.9 bits;  conditional E-value: 9.3e-32
                              EEEEEE-HHHHHH-.EEE.EEEE.......TEEEEEE-TT--TT-EEEETT-SSSS....S---EEEEEEE---SS-EEETTEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   DnaJ_C   2 eveleisleelykGktkkikikrnvikkekktlevkipaGikdgqkirlegeGdeeg..gepGDlivtikvkphpvFkrkgndlyv 85 
                              +++++is++e + G +k i++ +       k+l++kip+Gi +g+k+r++++G ++     pGD +++i+v+p + + r+g dl +
  PHY93_01490|PHY93_01490 130 HYQMDISFRESILGEEKVITLAN------GKNLKIKIPPGIISGTKLRFKNMGTQGSdeLAPGDAYIEITVRPLEGWARHGLDLET 209
                              699*****************964......578*********************966678*************************** PP

                              EEEEEHHHHHHTEEEEEE-SS-EEEEEE...--TT-EEEETT-S-EET...TEE--EEEEEEEE-- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   DnaJ_C  86 eveislaeallGgklevptldgkvklki...tqpgevlrikgkGmpklkkpgkrGdlyvevkvefP 148
                              ev+is+ e ++G ++++pt+ g v+lki   +++g++lrikgkG+++     + G+++v++kv++P
  PHY93_01490|PHY93_01490 210 EVPISFIEGIMGVEISIPTMYGPVMLKIpsgVNNGSKLRIKGKGVKQG---LETGNQIVQLKVMLP 272
                              *********************************************776...7************99 PP

>> DnaJ  DnaJ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.7   0.4   2.8e-28   1.7e-24       1      63 []       3      65 ..       3      65 .. 0.99

  Alignments for each domain:
  == domain 1  score: 85.7 bits;  conditional E-value: 2.8e-28
                             HHHHHHTSSTTG-HHHHHHHHHHHHHHHSTTTSCCHHHHHHHHHHHHHHHHHHTSHHHHHHHH CS
                     DnaJ  1 dyYeiLgvskdasedeIkkaYrklalkyHPDknpkdpeaeekFkeineAyevLsdpekRkqYD 63
                             ++YeiLgvsk+as+deIkkaYr l++kyHPD np++++aeekFkei++Ay+   +p++R ++D
  PHY93_01490|PHY93_01490  3 NPYEILGVSKTASQDEIKKAYRSLVKKYHPDLNPGNKKAEEKFKEISHAYDLIGTPTERTKFD 65
                             68***********************************************************99 PP

>> PHA_gran_rgn  Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.7   0.0       2.6   1.5e+04      16      30 ..      39      53 ..      33      56 .. 0.71
   2 ?    2.4   0.0     0.033     2e+02      36      63 ..     166     193 ..     149     197 .. 0.87
   3 ?    7.1   0.0    0.0011       6.6      37      69 ..     244     276 ..     235     285 .. 0.89

  Alignments for each domain:
  == domain 1  score: -3.7 bits;  conditional E-value: 2.6
             PHA_gran_rgn 16 eraeelaekleeefg 30
                             ++aee +++++ +++
  PHY93_01490|PHY93_01490 39 KKAEEKFKEISHAYD 53
                             677777777777776 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.033
             PHA_gran_rgn  36 egdtlkfkrsgvdGqlevepdkvrleak 63 
                              +g +l+fk  g++G+ e++p++  +e++
  PHY93_01490|PHY93_01490 166 SGTKLRFKNMGTQGSDELAPGDAYIEIT 193
                              5899***********9999998877775 PP

  == domain 3  score: 7.1 bits;  conditional E-value: 0.0011
             PHA_gran_rgn  37 gdtlkfkrsgvdGqlevepdkvrleakLglllk 69 
                              g +l++k++gv+  le +++ v+l+++L+   +
  PHY93_01490|PHY93_01490 244 GSKLRIKGKGVKQGLETGNQIVQLKVMLPKVVS 276
                              889*************************97765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (311 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       552  (0.0307881); expected 358.6 (0.02)
Passed bias filter:                      415  (0.0231469); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.38
# Mc/sec: 2457.94
//
Query:       PHY93_01495|PHY93_01495  [L=89]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.7e-13   47.9   2.0    1.1e-12   47.7   2.0    1.0  1  MerR_2    MerR HTH family regulatory protein
     0.0041   17.2   0.0     0.0066   16.5   0.0    1.4  1  MerR_1    MerR HTH family regulatory protein


Domain annotation for each model (and alignments):
>> MerR_2  MerR HTH family regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.7   2.0   1.2e-16   1.1e-12       2      80 ..       8      85 ..       7      88 .. 0.95

  Alignments for each domain:
  == domain 1  score: 47.7 bits;  conditional E-value: 1.2e-16
                   MerR_2  2 tieelcertgieeeflieLvelgliepeieeeewyfdesqlarlekavRLqrDLeinleGiavildLLdrieqLqrele 80
                             +i e  + +gi++e +i+ +++++i+p+    + ++d++++ar++ +  L+  L++n e i +il+L d++++L++el 
  PHY93_01495|PHY93_01495  8 EIAEAAHECGINQEAIIQFINFEWIQPVDPI-NLLLDKDDIARIQLISELKDNLGVNDESIPIILHLIDQLNHLHQELI 85
                             789999*********************8877.789******************************************86 PP

>> MerR_1  MerR HTH family regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   7.3e-07    0.0066       2      59 ..       8      64 ..       7      73 .. 0.89

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 7.3e-07
                             EHHHHHHHHTS-HHHHHHHHHHTT-S-EE-TTS-EEEEHHHHHHHHHHHHHHH.TT--G CS
                   MerR_1  2 sigevakilgvtthtlrywekegllkpkrteggrryYtdedierLklikyLlk.rGltl 59
                              i e+a ++g+++  +  + +   ++p     +  + +++di+r++li +L++  G++ 
  PHY93_01495|PHY93_01495  8 EIAEAAHECGINQEAIIQFINFEWIQPVD-PIN-LLLDKDDIARIQLISELKDnLGVND 64
                             699*************************9.444.9******************999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (89 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       441  (0.024597); expected 358.6 (0.02)
Passed bias filter:                      274  (0.0152825); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.40u 0.20s 00:00:00.60 Elapsed: 00:00:00.37
# Mc/sec: 714.52
//
Query:       PHY93_01500|PHY93_01500  [L=80]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0028   17.5   0.0     0.0045   16.9   0.0    1.3  1  PLD_C     Phospholipase D C terminal


Domain annotation for each model (and alignments):
>> PLD_C  Phospholipase D C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0   2.5e-07    0.0045      15      39 ..      12      36 ..       9      40 .. 0.95

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 2.5e-07
                    PLD_C 15 kvnkiaeenWkayaseeveelkghL 39
                             +v+++ + nW+++ +ee+++l+ghL
  PHY93_01500|PHY93_01500 12 EVREMIKMNWDRFEDEEIDSLRGHL 36
                             6999********************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (80 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       855  (0.0476881); expected 358.6 (0.02)
Passed bias filter:                      480  (0.0267723); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.37u 0.19s 00:00:00.56 Elapsed: 00:00:00.35
# Mc/sec: 690.67
//
Query:       PHY93_01505|PHY93_01505  [L=64]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (64 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       990  (0.0552178); expected 358.6 (0.02)
Passed bias filter:                      620  (0.0345808); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.36u 0.24s 00:00:00.60 Elapsed: 00:00:00.38
# Mc/sec: 502.09
//
Query:       PHY93_01510|PHY93_01510  [L=67]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (67 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1848  (0.103073); expected 358.6 (0.02)
Passed bias filter:                      662  (0.0369234); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.21s 00:00:00.59 Elapsed: 00:00:00.35
# Mc/sec: 577.75
//
Query:       PHY93_01515|PHY93_01515  [L=310]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      1e-16   60.9   0.0    1.5e-16   60.4   0.0    1.2  1  LysR_substrate  LysR substrate binding domain
    1.2e-13   50.8   0.0    2.3e-13   49.9   0.0    1.5  1  HTH_1           Bacterial regulatory helix-turn-helix protein
  ------ inclusion threshold ------
      0.087   12.7   0.8       0.16   11.8   0.8    1.4  1  HTH_5           Bacterial regulatory protein, arsR family


Domain annotation for each model (and alignments):
>> LysR_substrate  LysR substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.4   0.0   2.4e-20   1.5e-16       6     206 ..      92     303 ..      89     306 .. 0.90

  Alignments for each domain:
  == domain 1  score: 60.4 bits;  conditional E-value: 2.4e-20
                              EEEEEEEECCCHHHHHHHHHHHHHHHSTT...EEEEEEEESHHHHHHHHHTTSSSEEEEESSSCCTTEEEEEEEEEEEEEEEETTS CS
           LysR_substrate   6 grLrigapptlaryllppllarfraryPe...velelvegdseelldllaegelDlairagppedsglearpLaeeplvlvaspdh 88 
                              ++++ig+++++ r++++++++ f+++y      ++ +v++++++ll++l+  e+D++++     ds+++  + ae p+vl +s + 
  PHY93_01515|PHY93_01515  92 RKICIGVSEHVDRSFVAEVVSLFLKKYDSekrPKVTVVSATQAQLLEKLRFKEFDAVVTDSGMVDSNFIDLEKAEFPVVLTCSTNW 177
                              789************************988889****************************************************9 PP

                              ...........GGGGSSSECGGGGCT...SEEEEESTTSTHHHHHHHHHHCTTEECEEEEEESSHHHHHHHHHTTS-BEEEEGGGH CS
           LysR_substrate  89 ...........pLargepvsledLad...eplilleegsglrdlledalreaglkprvalevnsleallalvaaGlGiallprsav 160
                                         p        ++++ +    ++i+ ++ + +r +++++++ +++k ++a+e++ + +l+++v   +G+a+ p ++v
  PHY93_01515|PHY93_01515 178 kvpnqvknldaP------AVFQQILEddeVQWIMPSPKFKFRGEIDKFFETNKVKKKIAFESDAMGSLVHAVTDEIGLAFFPLLYV 257
                              666655544431......333333333336******************************************************** PP

                              HCCCHTTTEEEEEESSTTCE.EEEEEEEETTCCCHHHHHHHHHHHHH CS
           LysR_substrate 161 rdeladgrlvalplpepplp.relylvyrkgrelspavrafidflre 206
                              +++++d  l+++  +e  +   +++l ++++   + +v++f + ++e
  PHY93_01515|PHY93_01515 258 NQFIRDKSLQMIGPKE-GYWkYQVSLTCHSQNKDDLLVQQFSNSFKE 303
                              **********888888.8888********************988877 PP

>> HTH_1  Bacterial regulatory helix-turn-helix protein, lysR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.9   0.0   3.8e-17   2.3e-13       2      59 ..       5      62 ..       4      63 .. 0.97

  Alignments for each domain:
  == domain 1  score: 49.9 bits;  conditional E-value: 3.8e-17
                             HHHHHHHHHHHHSSHHHHHHHHTS-HHHHHHHHHHHHHHHTS-SEEESSSEEEE-HHH CS
                    HTH_1  2 rqlrlfvavaeegsftrAAeeLglsqpavsrqikrLEeelgvpLfeRtgrglrLTeaG 59
                             ++l +f   a++g +t A  +L++sqp++s q+k LE+ l+ +Lf++ gr ++LT  G
  PHY93_01515|PHY93_01515  5 NHLYYFYVTAKAGGVTSASSHLRISQPSLSSQLKVLEQSLDLKLFQKAGRTIELTTSG 62
                             79*****************************************************988 PP

>> HTH_5  Bacterial regulatory protein, arsR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.8   2.7e-05      0.16      22      41 ..      23      42 ..      19      43 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 2.7e-05
                             HHHHTS-HHHHHHHHHHHHH CS
                    HTH_5 22 aeelglsqstvShHLkkLre 41
                             + +l++sq+ +S +Lk+L++
  PHY93_01515|PHY93_01515 23 SSHLRISQPSLSSQLKVLEQ 42
                             789***************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (310 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       612  (0.0341346); expected 358.6 (0.02)
Passed bias filter:                      458  (0.0255452); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.46u 0.20s 00:00:00.66 Elapsed: 00:00:00.35
# Mc/sec: 2623.62
//
Query:       PHY93_01520|PHY93_01520  [L=50]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (50 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       362  (0.0201908); expected 358.6 (0.02)
Passed bias filter:                      240  (0.0133861); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.37u 0.18s 00:00:00.55 Elapsed: 00:00:00.35
# Mc/sec: 429.14
//
Query:       PHY93_01525|PHY93_01525  [L=157]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.6e-17   62.0   0.9    6.1e-17   61.3   0.9    1.4  1  CsbD      CsbD-like
    1.7e-05   25.3   0.2     0.0003   21.3   0.1    2.2  2  DUF883    Bacterial protein of unknown function (DUF883)


Domain annotation for each model (and alignments):
>> CsbD  CsbD-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.3   0.9   6.9e-21   6.1e-17       3      51 ..       6      54 ..       4      55 .. 0.97

  Alignments for each domain:
  == domain 1  score: 61.3 bits;  conditional E-value: 6.9e-21
                     CsbD  3 ikgkaeqvkGkvKeaaGkaTgdekleaeGkadqlkGkaqqkygdakdaa 51
                             +kg+++++kG++K+ +Gk+T+d+ +++eG+ad+ k  +q++yg++k++a
  PHY93_01525|PHY93_01525  6 VKGNINELKGQIKQMWGKLTDDDLTRIEGNADEIKSIIQKTYGYTKERA 54
                             89*********************************************98 PP

>> DUF883  Bacterial protein of unknown function (DUF883)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.3   0.0      0.03   2.7e+02      28      48 ..      35      55 ..       6      87 .. 0.55
   2 !   21.3   0.1   3.3e-08    0.0003      27      93 ..      90     157 .]      75     157 .] 0.80

  Alignments for each domain:
  == domain 1  score: 2.3 bits;  conditional E-value: 0.03
                   DUF883 28 eaeelRerleerlerarerlr 48
                             +a+e+++ ++++   ++er++
  PHY93_01525|PHY93_01525 35 NADEIKSIIQKTYGYTKERAQ 55
                             333333333333333333333 PP

  == domain 2  score: 21.3 bits;  conditional E-value: 3.3e-08
                   DUF883  27 eeaeelRerleerler.arerlrdaeeavaerakeaaeaaddyVrenPwqavGiAagvGlllGlLlar 93 
                               +++++++r++  le+   e +++   +++e  ++a+e+  d V+enP  ++  Aa+vG+l+G+ ++r
  PHY93_01525|PHY93_01525  90 MDTNKMKNRAQHILEEdIVEPAQQYLSRAREFGSRAVERGSDLVKENPGYTILGAAAVGFLAGAYFSR 157
                              5667777888877764255667777778999999999999***********************97776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (157 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1226  (0.0683808); expected 358.6 (0.02)
Passed bias filter:                      630  (0.0351386); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1137.45
//
Query:       PHY93_05260|PHY93_05260  [L=421]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-17   64.0   1.3    2.7e-17   62.9   0.1    2.2  2  OmpA      OmpA family
      4e-05   24.1  11.7     0.0025   18.4   0.8    3.9  4  DUF4398   Domain of unknown function (DUF4398)


Domain annotation for each model (and alignments):
>> OmpA  OmpA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.1      0.56     5e+03      18      25 ..     284     291 ..     270     317 .. 0.48
   2 !   62.9   0.1     3e-21   2.7e-17       2      95 .]     320     415 ..     319     415 .. 0.93

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 0.56
                              HHHHHHHH CS
                     OmpA  18 dkiaellk 25 
                              ++i e lk
  PHY93_05260|PHY93_05260 284 KSIDEKLK 291
                              44444444 PP

  == domain 2  score: 62.9 bits;  conditional E-value: 3e-21
                              B-TTS--B-GGGHHHHHHHHHHHH.S-S--EEEEE---S---HHHHHHHHHHHHHHHHHHHHH.TTSSGGGEEEEE-TT------- CS
                     OmpA   2 FapgsseLtpkaksaldkiaellk.kpeqkitveGhtdaagseernweLSqkRAeaVanylqn.egvppsrisvsgyGaerpitan 85 
                              F + ++ L+++    l k+ ++++ + +  ++veGhtd+ g+ + n++LS+kRA++V++yl +   +p++ri++ g G+++pi++n
  PHY93_05260|PHY93_05260 320 FPISQAVLKDSNFPILGKVRRVIEeFGRSAVVVEGHTDSSGTVALNEKLSKKRAQTVREYLLSaDVIPEKRIKAIGSGEQNPIASN 405
                              777888899999999999999999766777*********************************888999***************** PP

                              -------EE. CS
                     OmpA  86 ntaekkarnr 95 
                              +t++++a+nr
  PHY93_05260|PHY93_05260 406 KTPSGRAQNR 415
                              ********98 PP

>> DUF4398  Domain of unknown function (DUF4398)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.3   0.2   0.00038       3.4       9      57 ..      46     102 ..      39     128 .. 0.67
   2 !   18.4   0.8   2.8e-07    0.0025       2      50 ..     179     226 ..     178     249 .. 0.81
   3 ?    3.0   0.2     0.018   1.6e+02      19      46 ..     276     303 ..     250     309 .. 0.72
   4 ?   -3.7   0.0         2   1.8e+04      41      55 ..     369     383 ..     365     388 .. 0.67

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.00038
                  DUF4398   9 aleaAraagaeeyApaeleeAreaLaqAeaamaekdyee........AdhlaylAer 57 
                              ++++A a++ + + p  ++ A+e+L+ A++  +++ + +        A+ ++ +A  
  PHY93_05260|PHY93_05260  46 DMNTALANQVDVLSPRNFHVANEYLEDARKSLEKQIDPKetlnqiatARTYLNRANG 102
                              67888888889999999*************553333332356666666666666654 PP

  == domain 2  score: 18.4 bits;  conditional E-value: 2.8e-07
                  DUF4398   2 eladAraaleaAraagaeeyApaeleeAreaLaqAeaamaekdyeeAdh 50 
                              +la+Ar+ +++A  +ga +yAp+ le A    + A      +++e +d+
  PHY93_05260|PHY93_05260 179 NLAQARSTIAMAIKDGAKKYAPKSLETAINDYQNASVYIDSNRHE-VDQ 226
                              79*******************************999977555555.444 PP

  == domain 3  score: 3.0 bits;  conditional E-value: 0.018
                  DUF4398  19 eeyApaeleeAreaLaqAeaamaekdye 46 
                               ++  +  ++  e+L+qA+++ ++++ e
  PHY93_05260|PHY93_05260 276 KKETRESEKSIDEKLKQARRQFSNNEAE 303
                              5555555677889999999976666665 PP

  == domain 4  score: -3.7 bits;  conditional E-value: 2
                  DUF4398  41 aekdyeeAdhlaylA 55 
                              ++k+ ++++++++ A
  PHY93_05260|PHY93_05260 369 SKKRAQTVREYLLSA 383
                              466666677777766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (421 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1724  (0.0961571); expected 358.6 (0.02)
Passed bias filter:                      606  (0.0338); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.55u 0.20s 00:00:00.75 Elapsed: 00:00:00.36
# Mc/sec: 3526.52
//
Query:       PHY93_16920|PHY93_16920  [L=113]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.6e-21   76.4   3.1    1.6e-21   76.4   3.1    2.0  2  Trns_repr_metal  Metal-sensitive transcriptional repressor
  ------ inclusion threshold ------
       0.35   11.3   3.1         11    6.5   0.8    2.2  2  PSII_Pbs31       Photosystem II Psb31 protein


Domain annotation for each model (and alignments):
>> Trns_repr_metal  Metal-sensitive transcriptional repressor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.8   0.2     0.017   1.5e+02      40      62 ..       6      28 ..       3      37 .. 0.74
   2 !   76.4   3.1   1.8e-25   1.6e-21       6      76 ..      35     112 ..      30     113 .] 0.92

  Alignments for each domain:
  == domain 1  score: 2.8 bits;  conditional E-value: 0.017
                             HHHHHHHHHHHHHHHHHHHHHHH CS
          Trns_repr_metal 40 rsalnkvglelledhlkhcvaea 62
                             ++ +nk+++++++ h  h  ++ 
  PHY93_16920|PHY93_16920  6 KKIINKTNKKIIKAHQCHDTEQH 28
                             57899*********988877744 PP

  == domain 2  score: 76.4 bits;  conditional E-value: 1.8e-25
                              HHHHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH.......HHHHHHHHHHH CS
          Trns_repr_metal   6 lnrLkrieGQvrgiqrmieedryCidiltQlaAvrsalnkvglelledhlkhcvaeaiee.......ekieeliellk 76 
                                +Lk+++GQ+++i  mie+  yC dil+Q+ A++sal +v++++l++hl++cv+eai++       +kiee+i+l+ 
  PHY93_16920|PHY93_16920  35 AIKLKKAKGQIEAILGMIEKRLYCPDILIQVRAAKSALSSVEQSILKTHLDSCVSEAIKNkdealasKKIEEIIKLIG 112
                              568****************************************************999667899999********996 PP

>> PSII_Pbs31  Photosystem II Psb31 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.5   0.8    0.0013        11      56      91 ..       5      40 ..       2      50 .. 0.88
   2 ?    5.2   0.1    0.0032        29      55      88 ..      75     109 ..      58     112 .. 0.73

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.0013
               PSII_Pbs31 56 kkkeavaltkeileaakagdaaalksaykeyvkvak 91
                             kkk + + +k+i++a +  d ++  +  ke +k  k
  PHY93_16920|PHY93_16920  5 KKKIINKTNKKIIKAHQCHDTEQHPDHSKEAIKLKK 40
                             6778888999*************9999999998876 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.0032
               PSII_Pbs31  55 akkkeaval.tkeileaakagdaaalksaykeyvk 88 
                               +++ ++++    + ea+k +d a ++++++e +k
  PHY93_16920|PHY93_16920  75 VEQSILKTHlDSCVSEAIKNKDEALASKKIEEIIK 109
                              4555555440445779*************999987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (113 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1118  (0.0623571); expected 358.6 (0.02)
Passed bias filter:                      465  (0.0259356); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 839.38
//
Query:       PHY93_01530|PHY93_01530  [L=178]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
     0.0012   18.7   0.4      0.025   14.5   0.0    2.7  3  SAYSvFN        Uncharacterized conserved domain (SAYSvFN)
  ------ inclusion threshold ------
       0.01   15.1   0.2      0.012   14.9   0.2    1.1  1  MIG-14_Wnt-bd  Wnt-binding factor required for Wnt secretion
      0.011   15.0   0.1      0.013   14.7   0.1    1.1  1  ArsP_2         Putative, 10TM heavy-metal exporter
      0.031   13.6   0.0      0.036   13.4   0.0    1.1  1  DUF3810        Protein of unknown function (DUF3810)
       0.04   13.1   1.9      0.071   12.3   1.9    1.5  1  Zip            ZIP Zinc transporter
      0.041   12.7   0.1      0.053   12.3   0.1    1.2  1  DUF2207        Predicted membrane protein (DUF2207)


Domain annotation for each model (and alignments):
>> SAYSvFN  Uncharacterized conserved domain (SAYSvFN)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.0      0.15   4.6e+02      20      35 ..       4      19 ..       1      28 [. 0.78
   2 ?   -0.7   0.1      0.47   1.4e+03      22      35 ..      53      66 ..      38      72 .. 0.66
   3 !   14.5   0.0   8.5e-06     0.025      12      48 ..      80     118 ..      73     119 .. 0.84

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.15
                  SAYSvFN 20 vfvilsllvliftnlr 35
                             +++i+s+lv  ft++ 
  PHY93_01530|PHY93_01530  4 LYLIISMLVKRFTHTG 19
                             799*****99999993 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.47
                  SAYSvFN 22 vilsllvliftnlr 35
                             +++s+ v+ ++nl 
  PHY93_01530|PHY93_01530 53 LLVSGVVITIVNLT 66
                             57788888888884 PP

  == domain 3  score: 14.5 bits;  conditional E-value: 8.5e-06
                  SAYSvFN  12 aaelefgavfvilsllvl.iftnlrs.gerkegelSAYS 48 
                              +  +++g   v+ls++++ i++ +   +e+k++e+ AYS
  PHY93_01530|PHY93_01530  80 VTVAGLGITLVCLSIFAVgIYYTTAEkREEKREEKAAYS 118
                              567899**********754999998778899999****9 PP

>> MIG-14_Wnt-bd  Wnt-binding factor required for Wnt secretion
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.2   3.9e-06     0.012     167     259 ..       3     102 ..       1     130 [. 0.69

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 3.9e-06
            MIG-14_Wnt-bd 167 wlvllvlalyerleqlkdpfysiwss....al..ilkilaiilavlyflyLlyl.ifrsfseirskrvkegdiRfkflilltllvl 245
                              wl+l++++l++r++++  p  ++ ++    ++  ++kil +++a+  + +Ll+  ++ ++ ++ ++  +  +++f+ + ++ l + 
  PHY93_01530|PHY93_01530   3 WLYLIISMLVKRFTHTGRPESNPMEKikefIKenAIKILLAFSAASALGTLLVSgVVITIVNLTAQHDAGLQLKFTAVTVAGLGIT 88 
                              99999999999999999999999988666511668888888887777776666515666777777554444557777776666666 PP

            MIG-14_Wnt-bd 246 avlvifiilglvse 259
                              +v++  + +g++++
  PHY93_01530|PHY93_01530  89 LVCLSIFAVGIYYT 102
                              66666666666444 PP

>> ArsP_2  Putative, 10TM heavy-metal exporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.1   4.4e-06     0.013     164     243 ..      45     125 ..       6     133 .. 0.62

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 4.4e-06
                   ArsP_2 164 lakvlWllllvpalivalllafqvdveallsleeksiellgavlavlslllwaltreleeekev..vsedekiksakelqka 243
                               a  +  +llv+++++++++ +  + +a l+l+ ++++++g+ +++++l ++a++  +++ ++    +e++++ s ++l++a
  PHY93_01530|PHY93_01530  45 SAASALGTLLVSGVVITIVN-LTAQHDAGLQLKFTAVTVAGLGITLVCLSIFAVGIYYTTAEKReeKREEKAAYSRHPLENA 125
                              33344456778888877764.344445555679999******************9887765544004444555556666665 PP

>> DUF3810  Protein of unknown function (DUF3810)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   1.2e-05     0.036      18     119 ..      40     138 ..      28     172 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 1.2e-05
                  DUF3810  18 glfpFSvgellivllillvilylvlaiklkkrkkkkkrllkvllrvllvllvvyflftllwglnYyreplserlglkkeeyseeel 103
                               l+ FS +  l +ll+  v++ +v       + +   +l+ + ++v+ + +++++l +++ g+ Y + +  e+   +k++ys   l
  PHY93_01530|PHY93_01530  40 ILLAFSAASALGTLLVSGVVITIVNLT---AQHDAGLQLKFTAVTVAGLGITLVCLSIFAVGIYYTTAEKREEKREEKAAYSRHPL 122
                              578999999999999999999999888...56777789999999999999999***************999999999*****9999 PP

                  DUF3810 104 aelaeklveklnelre 119
                              ++ +  lv++  + re
  PHY93_01530|PHY93_01530 123 ENALMLLVNDFIQERE 138
                              9999999888776644 PP

>> Zip  ZIP Zinc transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   1.9   2.4e-05     0.071       4     135 ..       3     174 ..       1     178 [] 0.56

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 2.4e-05
                      Zip   4 kilaiiaililsllgllgpllvpkiskl.......lsklllslllafavGvllgtaflhLlPealealeesqleeehth.plagll 81 
                              ++++ii++l+  +  +  p   p  +k+       + k ll++  a a G+ll  + +  +   +++++   + + +t  ++agl 
  PHY93_01530|PHY93_01530   3 WLYLIISMLVKRFTHTGRPESNPM-EKIkefikenAIKILLAFSAASALGTLLVSGVVITIVNLTAQHDAGLQLK-FTAvTVAGLG 86 
                              677777777777777777766653.33357844445555566666667799999999999999999988865433.4435555555 PP

                      Zip  82 vllGflllllveklltmivek..................................ksshkektpkkasssssesaakksvsndkve 133
                              + l +l ++ v  + t + ++                                  + +++++  +++s+++++++++++++ + + 
  PHY93_01530|PHY93_01530  87 ITLVCLSIFAVGIYYTTAEKReekreekaaysrhplenalmllvndfiqerefkrEFKREHPRAQPTSHHHPHPQPHEEMNVEDFR 172
                              55555555555555555444433355555555555555555555555555555555555555555555555555555555555555 PP

                      Zip 134 es 135
                              +s
  PHY93_01530|PHY93_01530 173 SS 174
                              55 PP

>> DUF2207  Predicted membrane protein (DUF2207)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.1   1.8e-05     0.053     367     447 ..      28     112 ..       6     124 .. 0.66

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 1.8e-05
                  DUF2207 367 kergyfdkkgkkklkklsalglgliilglilillallllvll.........lvfllilllillliaiivlllfsrllgrrteeGae 443
                              k +++++++  k+l  +sa++ ++++l+  +++ ++     l         l f ++++ +l++ ++++ +++ ++ +  t+e +e
  PHY93_01530|PHY93_01530  28 KIKEFIKENAIKILLAFSAASALGTLLVSGVVITIVN----LtaqhdaglqLKFTAVTVAGLGITLVCLSIFAVGIYYT-TAEKRE 108
                              5777888887777766666666666555555544433....12346899997777777777777777777777666666.777777 PP

                  DUF2207 444 llak 447
                              ++++
  PHY93_01530|PHY93_01530 109 EKRE 112
                              7655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (178 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       951  (0.0530426); expected 358.6 (0.02)
Passed bias filter:                      603  (0.0336327); expected 358.6 (0.02)
Passed Vit filter:                        64  (0.00356964); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.43
# Mc/sec: 1249.57
//
Query:       PHY93_01535|PHY93_01535  [L=88]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (88 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       826  (0.0460706); expected 358.6 (0.02)
Passed bias filter:                      448  (0.0249875); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.22s 00:00:00.62 Elapsed: 00:00:00.38
# Mc/sec: 687.65
//
Query:       PHY93_01540|PHY93_01540  [L=210]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (210 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1088  (0.0606838); expected 358.6 (0.02)
Passed bias filter:                      450  (0.025099); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1554.56
//
Query:       PHY93_01545|PHY93_01545  [L=205]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.3e-10   41.2   0.5    3.4e-10   40.7   0.5    1.3  1  Hemerythrin  Hemerythrin HHE cation binding domain


Domain annotation for each model (and alignments):
>> Hemerythrin  Hemerythrin HHE cation binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.7   0.5   1.9e-14   3.4e-10       2     130 ..      20     140 ..      19     141 .. 0.90

  Alignments for each domain:
  == domain 1  score: 40.7 bits;  conditional E-value: 1.9e-14
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHCCHHHHHHHHHHHHHHHHHHHHHHCHHHHH.CCC.HHHHHHHHHHHHHHHHHH CS
              Hemerythrin   2 ivealdeeHralrallerlraladaaaevhgalrklaelldelvdeleaHhaaEEellfPlledrpggravldvlereHdeirell 87 
                              i+++l+++H +l++ ++ l   +++        +  +++++ + d++++H a E + l+  le++ ++r+++ + e eH+ +++++
  PHY93_01545|PHY93_01545  20 IIDLLTLDHSYLVECINVLKNKNAD-------KKIKLKYAKTFLDAFKKHSAGEKKALYAPLEEVTAFRSTILEYEIEHAIVDSKV 98 
                              799****************777777.......678899999********************************************* PP

                              HHHHHHCHTCGGSTCHHHHHHHHHHHHHHHHHHHHHHHTHHHH CS
              Hemerythrin  88 eelrellkgleepsaaafaelleeladllreHiakEesilfpl 130
                              + l   l+++  + +++++ ++++la+ +++Hi +Ee++lfp+
  PHY93_01545|PHY93_01545  99 KILTSKLASIR-SMSEELEAEMTVLAAIVEHHIGEEEKVLFPK 140
                              ****7777777.455666669*********************7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (205 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1071  (0.0597356); expected 358.6 (0.02)
Passed bias filter:                      449  (0.0250432); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.35
# Mc/sec: 1732.27
//
Query:       PHY93_01550|PHY93_01550  [L=343]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.9e-17   62.2   0.1    1.2e-16   61.2   0.1    1.5  1  DUF748    Domain of Unknown Function (DUF748)


Domain annotation for each model (and alignments):
>> DUF748  Domain of Unknown Function (DUF748)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.2   0.1   6.9e-21   1.2e-16       3     118 ..     139     258 ..     138     282 .. 0.89

  Alignments for each domain:
  == domain 1  score: 61.2 bits;  conditional E-value: 6.9e-21
                   DUF748   3 vsidrlaltdgsvafaD.rslsppfkltlselnltlsnlsslpeqpadve..lsgavnkggplqisGtlnplplase..lelslkg 83 
                              ++i+r  l+++s+af+  +sl+  ++l+ls++n++++n+s+ +++p ++    +  v+++++l++ G+ln+l++  +  l++ +++
  PHY93_01550|PHY93_01550 139 LKIERADLNNASIAFENyKSLADGSSLKLSNINGRITNISPSEKSPLSYFnlTAILVDQTSELKMVGELNLLKRPPTwnLDAEVRN 224
                              689**************778888*****************8888887776544899**************99988877799999** PP

                   DUF748  84 ldLaplspYlakylglelesGkLsldlryklakgd 118
                              l+La+l+pY++k+l+l+ ++G++++ +++k  +++
  PHY93_01550|PHY93_01550 225 LQLAALNPYFKKHLPLTFTKGTVDIYSEVK-SEDG 258
                              *************************99988.5433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (343 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       528  (0.0294495); expected 358.6 (0.02)
Passed bias filter:                      340  (0.0189637); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.36
# Mc/sec: 2853.63
//
Query:       PHY93_01555|PHY93_01555  [L=204]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.7e-05   25.1   1.1    3.1e-05   24.3   1.0    1.6  1  OmpA        OmpA family
     0.0037   17.0   1.4       0.38   10.5   0.3    2.3  2  Pilus_CpaD  Pilus biogenesis CpaD protein (pilus_cpaD)
  ------ inclusion threshold ------
      0.023   14.1   0.5      0.028   13.8   0.5    1.1  1  GCS         Glutamate-cysteine ligase
       0.11   12.4   3.3       0.19   11.6   3.3    1.5  1  CemA        CemA family


Domain annotation for each model (and alignments):
>> OmpA  OmpA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.3   1.0     7e-09   3.1e-05       2      78 ..      68     154 ..      67     175 .. 0.81

  Alignments for each domain:
  == domain 1  score: 24.3 bits;  conditional E-value: 7e-09
                              B-TTS--B-GGGHHHHHHHHHHHH.S-S--..EEEEE---S.......---HHHHHHHHHHHHHHHHHHHHH.TTSSGGGEEEEE- CS
                     OmpA   2 FapgsseLtpkaksaldkiaellk.kpeqk..itveGhtda.......agseernweLSqkRAeaVanylqn.egvppsrisvsgy 76 
                              F  gs eL+p++k++l+++++    + +    i+v+  +d+       ++ +e +++L++kR e+++nyl++ +   +  i++ ++
  PHY93_01555|PHY93_01555  68 FRKGSEELSPTSKKQLEEVSKKALtRGK-IemIKVITWADQeypsaikNKLSEKQQNLAKKRNEKIKNYLKKiHPDASGEIELISM 152
                              999*****************77773333.257******9998777776777777*****************988777778888877 PP

                              TT CS
                     OmpA  77 Ga 78 
                              ++
  PHY93_01555|PHY93_01555 153 AQ 154
                              76 PP

>> Pilus_CpaD  Pilus biogenesis CpaD protein (pilus_cpaD)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.5   0.3   8.5e-05      0.38       3      74 ..      14      96 ..      12     115 .. 0.75
   2 !    5.6   0.1    0.0026        11      45     115 ..     116     187 ..     105     203 .. 0.77

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 8.5e-05
               Pilus_CpaD  3 alalllagCastaasnrettgsi...........dyrsrhpivveeaeasldlkvasgdggLtaaqrarlealaeeyrregag 74
                             ++ l l++Cas + +++++t ++           ++++++    +e++++ ++++ +g+++L+++++++le++ ++   +g+ 
  PHY93_01555|PHY93_01555 14 IIILGLGACASHKTKKSSETVTTtqsvkqvpptpSMEAKQLASEQETSYVAEFSFRKGSEELSPTSKKQLEEVSKKALTRGKI 96
                             567899***987776655444444545666666666666666677889999**********************9998888764 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.0026
               Pilus_CpaD  45 kvasgdggLtaaqrarlealaeeyrregagaivisvpsgssne..aaaaaaaaeiravlaaaGvpaseisvra 115
                              k+++++++L+++  +++++ ++++  + +g+i +   +++++   +  ++  a+i+++l +aG+p se s ++
  PHY93_01555|PHY93_01555 116 KLSEKQQNLAKKRNEKIKNYLKKIHPDASGEIELISMAQRPSFmkNLLSSDDARIKRSLESAGIPDSE-STTK 187
                              66788999************************9988777776633456777889**********9998.3333 PP

>> GCS  Glutamate-cysteine ligase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.5   6.1e-06     0.028     240     332 ..      53     152 ..      32     176 .. 0.70

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 6.1e-06
                      GCS 240 krAhkrdavleekfyfrkniakkeeaaekak........eieemtideiingkegefpglipliesylesvevdvetrkklekylk 317
                              + A ++++    +f frk  ++ + +++k+         +  ++ + ++i+  ++e+p+ i+   s+ ++ +  +++++k+++ylk
  PHY93_01555|PHY93_01555  53 QLASEQETSYVAEFSFRKGSEELSPTSKKQLeevskkalTRGKIEMIKVITWADQEYPSAIKNKLSEKQQ-NLAKKRNEKIKNYLK 137
                              5677888888899****96665554433222445555444455555556666688888888877777666.678899********* PP

                      GCS 318 liskrasgelltaAk 332
                               i+  asge+   + 
  PHY93_01555|PHY93_01555 138 KIHPDASGEIELISM 152
                              ********9754433 PP

>> CemA  CemA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   3.3   4.2e-05      0.19      31     121 ..      60     150 ..       2     159 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 4.2e-05
                     CemA  31 veplvdrflekeqaelflnkeleeealeelkefeekleleeligeapelseeeieeelkekaeelakeyreesseaiknifadlvs 116
                              ++++ +  ++k ++el  +++ + e +++ + ++ k+e+ ++i+ a++  ++ i+++l+ek ++lak+ +e+ ++ +k+i  d   
  PHY93_01555|PHY93_01555  60 TSYVAEFSFRKGSEELSPTSKKQLEEVSKKALTRGKIEMIKVITWADQEYPSAIKNKLSEKQQNLAKKRNEKIKNYLKKIHPDASG 145
                              444444334567777777777777888888889999********************************************999877 PP

                     CemA 117 liafv 121
                               i ++
  PHY93_01555|PHY93_01555 146 EIELI 150
                              66655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (204 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2055  (0.114619); expected 358.6 (0.02)
Passed bias filter:                      823  (0.0459033); expected 358.6 (0.02)
Passed Vit filter:                        89  (0.00496402); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.39
# Mc/sec: 1552.59
//
Query:       PHY93_01560|PHY93_01560  [L=155]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    3.2e-15   55.8   0.2    5.2e-15   55.1   0.2    1.4  1  DUF421     Protein of unknown function (DUF421)
  ------ inclusion threshold ------
      0.041   14.3   3.3      0.095   13.1   3.3    1.6  1  Tmemb_170  Putative transmembrane protein 170


Domain annotation for each model (and alignments):
>> DUF421  Protein of unknown function (DUF421)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.1   0.2   5.9e-19   5.2e-15       1      62 [.      92     153 ..      92     155 .] 0.97

  Alignments for each domain:
  == domain 1  score: 55.1 bits;  conditional E-value: 5.9e-19
                   DUF421   1 klidgkpvvlienGkldeknlkklrltvddLleqLRqqgifslsdVkyailEtnGqlsvllk 62 
                              kli g p v+i nGk+++  lkk++++  +L e LR++++ + +dVk ailEt+G++sv+++
  PHY93_01560|PHY93_01560  92 KLIIGIPEVVILNGKVHKRILKKEKISEAELFEALREHEVMKTEDVKCAILETDGKISVIKY 153
                              5899*******************************************************986 PP

>> Tmemb_170  Putative transmembrane protein 170
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   3.3   1.1e-05     0.095       3      94 ..       2     103 ..       1     114 [. 0.80

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 1.1e-05
                Tmemb_170   3 skfeemwlaiflWalvssllvhlvAalialvtlrkhkfgrfvpilillvgvlepltag........aitsaviaa..vyraaslem 78 
                              ++++  w++ ++ a+v++l+v++v  li   +l+k +   f+ ili+++++  +++ g        ++ +a+ a+  +++   +++
  PHY93_01560|PHY93_01560   2 WHLNSPWYNLVFRAFVIYLFVFFVIRLIGKKQLSKLSSFDFALILIMSLSIQNGVMEGdhsipavlIVIGALAAFnyIMNELTYRF 87 
                              677888****************************************9999998887664433333355666666633557778899 PP

                Tmemb_170  79 stlyalvwGvgqtill 94 
                              ++++ l++G+  +++l
  PHY93_01560|PHY93_01560  88 NWFEKLIIGIPEVVIL 103
                              9999999999888876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (155 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       964  (0.0537676); expected 358.6 (0.02)
Passed bias filter:                      552  (0.0307881); expected 358.6 (0.02)
Passed Vit filter:                        57  (0.00317921); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.23s 00:00:00.72 Elapsed: 00:00:00.42
# Mc/sec: 1108.48
//
Query:       PHY93_01565|PHY93_01565  [L=88]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      3e-07   30.6   0.0    4.4e-07   30.1   0.0    1.2  1  Hpt             Hpt domain
  ------ inclusion threshold ------
      0.035   13.9   1.4       0.29   10.9   0.1    2.0  2  SpoVIF          Stage VI sporulation protein F
      0.087   12.7   2.3       0.22   11.5   2.3    1.7  1  Pox_A_type_inc  Viral A-type inclusion protein repeat
      0.095   13.0   1.2         11    6.3   0.1    2.0  2  FliS            Flagellar protein FliS


Domain annotation for each model (and alignments):
>> Hpt  Hpt domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.1   0.0   9.7e-11   4.4e-07       6      82 ..      11      83 ..       8      87 .. 0.79

  Alignments for each domain:
  == domain 1  score: 30.1 bits;  conditional E-value: 9.7e-11
                             HHHHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHHHTTBHHHHHHHHHHHHHHHHCTSCHHHHHHHHHHHHHHHHH CS
                      Hpt  6 fleeaeelleqleqaldqedlqelaraaHtLKGsagmlGltelaelahelEdlldragelelepellealkalleal 82
                             +l++   ++e+l+q+l+ +d++ +  + H+LKG   ++G++ +++l  +lE+    ag +++ ++l e++++l  ++
  PHY93_01565|PHY93_01565 11 YLDRRKSEIEELKQSLNNNDFDIAINIGHRLKGNGETFGYPVISALGISLEQ----AGIVKDKEKLREVIEQLAKNV 83
                             566666789*******************************************....344444444444555554444 PP

>> SpoVIF  Stage VI sporulation protein F
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.5   0.1     0.028   1.3e+02       7      27 ..      10      31 ..       5      34 .. 0.81
   2 ?   10.9   0.1   6.5e-05      0.29      27      46 ..      66      85 ..      53      88 .] 0.83

  Alignments for each domain:
  == domain 1  score: 2.5 bits;  conditional E-value: 0.028
                   SpoVIF  7 Kt.nvkkedilkLansvqkadl 27
                             K    +k +i +L +s++++d+
  PHY93_01565|PHY93_01565 10 KYlDRRKSEIEELKQSLNNNDF 31
                             445668999***********98 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 6.5e-05
                   SpoVIF 27 lkdektlRqlikqvsklank 46
                              kd+++lR++i+q++k + +
  PHY93_01565|PHY93_01565 66 VKDKEKLREVIEQLAKNVEQ 85
                             69*************97665 PP

>> Pox_A_type_inc  Viral A-type inclusion protein repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   2.3   4.8e-05      0.22       3      18 ..      12      27 ..      12      28 .. 0.94

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 4.8e-05
           Pox_A_type_inc  3 msrlRsRIsDLErqLs 18
                             ++r +s+I++L+++L+
  PHY93_01565|PHY93_01565 12 LDRRKSEIEELKQSLN 27
                             69*************9 PP

>> FliS  Flagellar protein FliS
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.3   0.1    0.0024        11      41      73 ..       5      36 ..       2      41 .. 0.86
   2 ?    6.0   0.1    0.0032        14      85     106 ..      60      81 ..      52      85 .. 0.88

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.0024
                             HHHHHHHHHHHHHHHHHHHHTCCTTTSCHHHHH CS
                     FliS 41 iekkgeaiskaqdIiseLrasLdlekggeiakn 73
                             +e+k++++ +  + i+eL++sL+ ++  +ia n
  PHY93_01565|PHY93_01565  5 VEHKKKYLDRRKSEIEELKQSLNNNDF-DIAIN 36
                             68899999**************99875.88766 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.0032
                              HHHHHHCT-HHHHHHHHHHHHH CS
                     FliS  85 lleanlkkdaekldevikllee 106
                              l +a + kd+ekl+evi++l++
  PHY93_01565|PHY93_01565  60 LEQAGIVKDKEKLREVIEQLAK 81 
                              78999************99975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (88 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1361  (0.0759105); expected 358.6 (0.02)
Passed bias filter:                      736  (0.0410508); expected 358.6 (0.02)
Passed Vit filter:                        73  (0.00407162); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.38u 0.21s 00:00:00.59 Elapsed: 00:00:00.35
# Mc/sec: 758.62
//
Query:       PHY93_01570|PHY93_01570  [L=468]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-69  233.3   0.1    1.9e-69  232.7   0.1    1.3  1  Sigma54_activat  Sigma-54 interaction domain
      1e-26   93.3   0.2      3e-26   91.8   0.1    1.8  2  Response_reg     Response regulator receiver domain
    7.7e-22   77.9   0.0      4e-21   75.6   0.0    2.1  1  Sigma54_activ_2  Sigma-54 interaction domain
    1.1e-08   34.7   0.1    2.5e-08   33.6   0.1    1.6  1  HTH_8            Bacterial regulatory protein, Fis family
    0.00044   20.7   0.0    0.00088   19.7   0.0    1.5  1  AAA              ATPase family associated with various cellul
    0.00051   19.5   0.2       0.28   10.5   0.1    2.2  2  Mg_chelatase     Magnesium chelatase, subunit ChlI
     0.0012   18.9   0.0     0.0041   17.1   0.0    2.0  1  AAA_5            AAA domain (dynein-related subfamily)
     0.0024   17.9   0.0     0.0066   16.5   0.0    1.7  1  HTH_7            Helix-turn-helix domain of resolvase
     0.0056   17.2   0.2      0.017   15.7   0.1    1.9  1  Mga              Mga helix-turn-helix domain
     0.0086   16.2   0.0      0.018   15.1   0.0    1.6  1  AAA_2            AAA domain (Cdc48 subfamily)
     0.0089   15.8   0.0      0.024   14.4   0.0    1.6  1  HTH_30           PucR C-terminal helix-turn-helix domain
  ------ inclusion threshold ------
      0.055   13.6   0.1       0.15   12.2   0.1    1.8  1  HTH_Tnp_1_2      Helix-turn-helix of insertion element transp
      0.067   13.6   0.0       0.15   12.4   0.0    1.6  1  AAA_16           AAA ATPase domain
       0.11   11.5   0.1       0.68    8.9   0.0    2.2  3  T2SSE            Type II/IV secretion system protein


Domain annotation for each model (and alignments):
>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  232.7   0.1   1.5e-72   1.9e-69       1     168 []     151     318 ..     151     318 .. 0.99

  Alignments for each domain:
  == domain 1  score: 232.7 bits;  conditional E-value: 1.5e-72
                              ----SHHHHHHHHHHHHHCTSSS-EEEECSTTSSHHHHHHHHHHHSTTTTS-EEEEETTTS-TTCHHHHHHEBSSSSSTTTSS-BE CS
          Sigma54_activat   1 ligesealkelleqikkvaktdlsvlitGesGtGKellaraiheaskrkekpfvavncaaipeelleseLFGhekGaFtGAekekk 86 
                              +ig+s+ +k+++e +++v +++++++i GesG+GKe++a+a+he  +rk++pfva+nc+aipe+lleseLFG++kGaFtGA ++k 
  PHY93_01570|PHY93_01570 151 VIGKSPGFKKAMELARRVSSSQANIIIFGESGSGKEVIAKAVHELGDRKSGPFVAINCSAIPENLLESELFGYAKGAFTGAVASKI 236
                              5899********************************************************************************** PP

                              HHHHHTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEESBTSSSEEE--EEEEEEESS-HHHHHHTTSS-HHHHHHHTSEEEE CS
          Sigma54_activat  87 GlfekadgGtlfLDeigelplelQekLlrvlqegevervGsskeikvdvriiaatnedleeaveegkfredLyyrlnvieie 168
                              Glfe+a++GtlfLDeig+l l lQ+kLlrvlqe++v+r+G++++++++ r+i+at++dl+++ve+g+fredLy+rlnvi+i+
  PHY93_01570|PHY93_01570 237 GLFEEANKGTLFLDEIGDLALPLQAKLLRVLQERKVKRIGENQTRDITARVICATHKDLKKEVEKGNFREDLYFRLNVIPIH 318
                              *******************************************************************************995 PP

>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   91.8   0.1   2.4e-29     3e-26       2     109 ..      10     118 ..       9     121 .. 0.95
   2 ?   -2.6   0.0       4.7     6e+03      61      86 ..     160     188 ..     153     196 .. 0.56

  Alignments for each domain:
  == domain 1  score: 91.8 bits;  conditional E-value: 2.4e-29
                              EEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHH..ESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHH CS
             Response_reg   2 livdDdplvrellrqlleeegyeevaeaedgkealellkeek..vdlillDinmpgmdGlellkeireedpelpviiltahseeed 85 
                              +i+dDd +++ell+++++++gy +v + ed++ al+ ++ +k   d+++ D+++p m+Gl+++k+ir+ +  lp+i++ta+++ e+
  PHY93_01570|PHY93_01570  10 VIIDDDVDLLELLSSFFRQRGY-NVSSYEDARVALAEIEVKKvtADVVISDLKLPVMSGLDFIKRIRTFNAVLPIILMTAEGSLEV 94 
                              79********************.***************666666****************************************** PP

                              HHHHHHCTESEEEESSG-HHHHHH CS
             Response_reg  86 avealkagaddflsKpfdpeeLlk 109
                              avea++aga+df+ Kp++  +Ll 
  PHY93_01570|PHY93_01570  95 AVEAIEAGAYDFVLKPLHVPQLLI 118
                              *****************9999975 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 4.7
                              HHHHHHHCT..TTSEEEEEESSTS.HHHH CS
             Response_reg  61 llkeireed..pelpviiltahse.eeda 86 
                               + e+ ++   ++ ++ii+   ++ +e++
  PHY93_01570|PHY93_01570 160 KAMELARRVssSQANIIIFGESGSgKEVI 188
                              55555333224678888887555524443 PP

>> Sigma54_activ_2  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   75.6   0.0   3.1e-24     4e-21      12     138 .]     163     322 ..     152     322 .. 0.87

  Alignments for each domain:
  == domain 1  score: 75.6 bits;  conditional E-value: 3.1e-24
                              HHHHHHHT-SS-EEEEEETT--HHHHHHCC--TTS-EE--SSTTHHHH-H.......................HHHHHHTTTSEEE CS
          Sigma54_activ_2  12 erLeqaaqsklpvfltGekGsgkelvArlLhknsgpwleifvverlaklp.......................ldlleqakggtLy 74 
                              e    +++s++++ + Ge Gsgke++A++ h+ + +++ +fv ++++++p                         l+e+a+ gtL+
  PHY93_01570|PHY93_01570 163 ELARRVSSSQANIIIFGESGSGKEVIAKAVHELGDRKSGPFVAINCSAIPenlleselfgyakgaftgavaskIGLFEEANKGTLF 248
                              3334567999****************************************777777777777777777777666677779****** PP

                              EEE-TT--HHHHHHHHHHHHH..........HTTTT-EEEEEEEE-TTT..----HHHHHHHHSSSEEEEE--- CS
          Sigma54_activ_2  75 lkdiadlskaeqkeLlellak..........aeksslrlVstsskdleqlleagafdekLlkeLselrlhvPpL 138
                              l +i dl   +q++Ll +l++               +r+++++ kdl++++e+g+f e L+++L  + +h+PpL
  PHY93_01570|PHY93_01570 249 LDEIGDLALPLQAKLLRVLQErkvkrigenqTRDITARVICATHKDLKKEVEKGNFREDLYFRLNVIPIHMPPL 322
                              ***************************997544789*************************************9 PP

>> HTH_8  Bacterial regulatory protein, Fis family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.6   0.1   1.9e-11   2.5e-08       2      42 .]     422     462 ..     421     462 .. 0.93

  Alignments for each domain:
  == domain 1  score: 33.6 bits;  conditional E-value: 1.9e-11
                              HHHHHHHHHHHHHHHTTT-HHHHHHHHTS-HHHHHHHHHHT CS
                    HTH_8   2 leevEkelIeaALertgGnkskAArlLGisRrtLyrKLkkY 42 
                              leev k++Ie   +r+g+ k ++A++LGi R+tLyrKLk++
  PHY93_01570|PHY93_01570 422 LEEVCKKYIEFIFKRNGFAKEQTAKELGIDRKTLYRKLKEL 462
                              7888899999999**************************95 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.7   0.0   6.9e-07   0.00088       1     111 [.     175     293 ..     175     312 .. 0.77

  Alignments for each domain:
  == domain 1  score: 19.7 bits;  conditional E-value: 6.9e-07
                              EEEESSTTSSHHHHHHHHHHHH...THEEEEEETTTCSSS.............STTHHHHHHHHHHHHHHHTSTSEEEEEETGGGH CS
                      AAA   1 vllyGppGtGKTllakavakel...gvefleisgsellsk.............yvgesekkirelfkeakekakpsilfiDEidal 70 
                              ++++G  G GK  +akav +     + +f+ i++s + ++             + g+ ++ki +lf+ea +      lf+DEi  l
  PHY93_01570|PHY93_01570 175 IIIFGESGSGKEVIAKAVHELGdrkSGPFVAINCSAIPENlleselfgyakgaFTGAVASKI-GLFEEANK----GTLFLDEIGDL 255
                              5799*************98774333488*********9778999988887776666666665.56666654....66********* PP

                              HHHHTTCCCHHHHHHHHHHHHHHHHTTTS........SSTEEEEEEESS CS
                      AAA  71 aksrsgseseeeervvnqLlteldgvkkk........eskvivigatnr 111
                              a              +++Ll++l++ k k        + +  vi+at++
  PHY93_01570|PHY93_01570 256 ALPL-----------QAKLLRVLQERKVKrigenqtrDITARVICATHK 293
                              9888...........9999999999999989988877444578888876 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.5   0.1   0.00022      0.28       5      45 ..     151     195 ..     147     200 .. 0.77
   2 !    6.8   0.0     0.003       3.8      95     136 ..     232     273 ..     223     293 .. 0.74

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00022
             Mg_chelatase   5 vkGqee.akraleia...aaGgHnlllvGppGsGKtmlakrlpsl 45 
                              v+G++   k+a+e+a    + + n++++G +GsGK ++ak++++l
  PHY93_01570|PHY93_01570 151 VIGKSPgFKKAMELArrvSSSQANIIIFGESGSGKEVIAKAVHEL 195
                              55654314788888844346789*****************99875 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.003
             Mg_chelatase  95 skpkpGeislahnGvLfLDElpefkrkvlevLRePledgevt 136
                                 k G    a++G LfLDE+ ++       L + l++++v+
  PHY93_01570|PHY93_01570 232 VASKIGLFEEANKGTLFLDEIGDLALPLQAKLLRVLQERKVK 273
                              4566788889***********999988888777777777765 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.0   3.2e-06    0.0041       1      98 [.     174     276 ..     174     306 .. 0.70

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 3.2e-06
                              EEEEE--SSSSHHHHHHHGGGGB...S--EEEEE--...TT--HHHHH--B--.........--------.........G-SEEEE CS
                    AAA_5   1 dvlLvGppGtgKselaerlaaal...nreveyvqlt...rdtteedlkgrreikngttslvdsplvraar.........egeilvl 71 
                              ++++ G++G+gK  +a+ + ++      +++ ++++   +++ e++l+g  +          ++++ a+          ++ +l+l
  PHY93_01570|PHY93_01570 174 NIIIFGESGSGKEVIAKAVHELGdrkSGPFVAINCSaipENLLESELFGYAK----------GAFTGAVAskiglfeeaNKGTLFL 249
                              5899*******************96544555554441113455555555555..........4444444444444666678899** PP

                              ESGGG--HHHHHHHHHHHHSSEEE..- CS
                    AAA_5  72 DEveraesevlnsLlslleerrlllee 98 
                              DE+  +    +++Ll++l er++    
  PHY93_01570|PHY93_01570 250 DEIGDLALPLQAKLLRVLQERKVKRIG 276
                              *********************998544 PP

>> HTH_7  Helix-turn-helix domain of resolvase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   5.1e-06    0.0066      20      44 ..     437     461 ..     435     462 .. 0.90

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 5.1e-06
                              TT--STTTSSSS---SSSS--SS-- CS
                    HTH_7  20 eGisiskIAkevnisRsTvYRylad 44 
                              +G ++ ++Ake++i R T+YR+l +
  PHY93_01570|PHY93_01570 437 NGFAKEQTAKELGIDRKTLYRKLKE 461
                              688999****************975 PP

>> Mga  Mga helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.1   1.4e-05     0.017      22      56 ..     430     464 ..     423     465 .. 0.94

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 1.4e-05
                              HHHHHHHSEEEHHHHHHHCT--HHHHHHHHHHHHH CS
                      Mga  22 lkflfeeeevsieelaqelyiSestlkrkikelnk 56 
                              ++f+f+++ +  e+ a+el i + tl+rk+kel++
  PHY93_01570|PHY93_01570 430 IEFIFKRNGFAKEQTAKELGIDRKTLYRKLKELEN 464
                              799*****************************986 PP

>> AAA_2  AAA domain (Cdc48 subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0   1.4e-05     0.018       3     113 ..     172     277 ..     170     332 .. 0.77

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.4e-05
                              ---EEEE--TTSSHHHHHHHHHHHTT-....-EEEEEGGG---.......----THHHHHHHHHTTT-HHHHTTSEEEEETGGG-- CS
                    AAA_2   3 iisilllgptgvGktelakalaellfvkkekkliradaselle.......eeevehlvsrligappgyvgaeegGivllDEidKih 81 
                              +++i++ g++g+Gk+ +aka+ el + +k+ +++ +++s++ e          ++   +  + ++ g  + +++G ++lDEi   +
  PHY93_01570|PHY93_01570 172 QANIIIFGESGSGKEVIAKAVHELGD-RKSGPFVAINCSAIPEnlleselFGYAKGAFTGAVASKIGLFEEANKGTLFLDEIGDLA 256
                              689***********************.9*************9966643332335556666666677777888889*******8888 PP

                              -----------HHHHHHHHHHHH--EE----- CS
                    AAA_2  82 pkessgadvSregVqrdLLqileggtltdkqg 113
                                            q  LL++l + +++   +
  PHY93_01570|PHY93_01570 257 L-----------PLQAKLLRVLQERKVKRIGE 277
                              7...........78888888888888875444 PP

>> HTH_30  PucR C-terminal helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.0   1.9e-05     0.024      10      37 ..     436     463 ..     433     465 .. 0.90

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 1.9e-05
                              HTTT-HHHHHHHHTS-HHHHHHHHHHHH CS
                   HTH_30  10 enggnisatAkaLhvHrnTlryRLrrie 37 
                              +ng+ +++tAk+L++ r Tl+  L+ +e
  PHY93_01570|PHY93_01570 436 RNGFAKEQTAKELGIDRKTLYRKLKELE 463
                              79999*******************9987 PP

>> HTH_Tnp_1_2  Helix-turn-helix of insertion element transposase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.1   0.00012      0.15      14      51 ..     428     463 ..     417     468 .] 0.72

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 0.00012
                              HHHHHHHHHHH--S-HHHHHHHHTS-HHHHHHHHH-HH CS
              HTH_Tnp_1_2  14 kaaellvendyekltldeiaeevgvsrsTlykWkkkke 51 
                              k +e++ +++    ++++ a+e+g++r+Tly+ +k+ e
  PHY93_01570|PHY93_01570 428 KYIEFIFKRNG--FAKEQTAKELGIDRKTLYRKLKELE 463
                              55555544332..4899**************9887655 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   0.00012      0.15      15      66 ..     164     214 ..     152     297 .. 0.72

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.00012
                   AAA_16  15 alervrsgrpelvllsGesGvGKsslvrellralekdg.giflrgkcdqlesa 66 
                              + +rv+s++  ++++ GesG+GK  ++++++ +l +++ g f++ +c   +++
  PHY93_01570|PHY93_01570 164 LARRVSSSQ-ANIIIFGESGSGKEVIAKAVH-ELGDRKsGPFVAINCSAIPEN 214
                              567888887.6888*****************.566665488888888777444 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   0.0   0.00053      0.68      97     150 ..     128     193 ..      85     207 .. 0.73
   2 ?   -1.5   0.0      0.78     1e+03      36     111 ..     269     338 ..     261     367 .. 0.66
   3 ?   -1.7   0.0      0.92   1.2e+03     237     263 ..     353     379 ..     350     383 .. 0.83

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.00053
                    T2SSE  97 kksakeltlddlgaeealk............ekiaevlrkavrerglilvsGgTgsGKttllyall 150
                              + ++++ +l++l  e+++             +k  e+ r+  +++ +i++ G  gsGK +++ a+ 
  PHY93_01570|PHY93_01570 128 QVQVENTNLKNLFNEQDFLglkgvigkspgfKKAMELARRVSSSQANIIIFGESGSGKEVIAKAVH 193
                              55555666666666666667777777776664444555555578***************9998765 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.78
                    T2SSE  36 lreveelekaalerlisriaalakldiseerplqdarlpekgvrlrvvllPvvagealviRkksakeltlddlgae 111
                               r+v+++ +++++ +++r+  ++++d+++e  +  +++  +   +r++++P++  +   +R++++  + l+++  +
  PHY93_01570|PHY93_01570 269 ERKVKRIGENQTRDITARVICATHKDLKKE--VEKGNFR-EDLYFRLNVIPIHMPP---LRERKEDIIPLSEYFLK 338
                              567778888888888888888888888654..6678888.7777888887776543...55555555555555544 PP

  == domain 3  score: -1.7 bits;  conditional E-value: 0.92
                    T2SSE 237 agalerLeqlgaeveaaelkssilavv 263
                              ++a++rLe+l+ + +  el++ i  +v
  PHY93_01570|PHY93_01570 353 KQAIKRLETLAWKGNVRELENAIERAV 379
                              689********9999999999988875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (468 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       654  (0.0364772); expected 358.6 (0.02)
Passed bias filter:                      507  (0.0282782); expected 358.6 (0.02)
Passed Vit filter:                        76  (0.00423894); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.59u 0.28s 00:00:00.87 Elapsed: 00:00:00.43
# Mc/sec: 3242.13
//
Query:       PHY93_01575|PHY93_01575  [L=57]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    4.4e-08   33.2  15.7    5.8e-08   32.8  15.7    1.2  1  DUF1328      Protein of unknown function (DUF1328)
  ------ inclusion threshold ------
       0.45   10.4   4.5       0.47   10.4   4.5    1.1  1  Fig1         Ca2+ regulator and membrane fusion protein Fig1
       0.46   11.0   8.8       0.66   10.5   8.8    1.2  1  DUF202       Domain of unknown function (DUF202)
        1.5    7.8   6.6        1.6    7.7   6.6    1.1  1  FUSC-like    FUSC-like inner membrane protein yccS
          4    7.4   7.8        0.4   10.6   0.6    2.0  2  DUF4389      Domain of unknown function (DUF4389)
        4.3    5.1   4.4        4.6    5.0   4.4    1.0  1  DUF4175      Domain of unknown function (DUF4175)
        9.6    6.7   8.2        2.1    8.8   0.8    2.0  2  COX7a        Cytochrome c oxidase subunit VII
        9.7    6.2   6.9        9.7    6.2   6.9    1.0  1  RseC_MucC    Positive regulator of sigma(E), RseC/MucC
        9.9    5.8   7.7         11    5.6   7.7    1.1  1  Tetraspanin  Tetraspanin family


Domain annotation for each model (and alignments):
>> DUF1328  Protein of unknown function (DUF1328)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.8  15.7   2.9e-11   5.8e-08       1      39 []       6      44 ..       6      44 .. 0.97

  Alignments for each domain:
  == domain 1  score: 32.8 bits;  conditional E-value: 2.9e-11
                  DUF1328  1 liFLviAliAgvLGFgGiagaaagiAkiLFfiFlvlfvi 39
                             + F+v+Al A ++G+ Giag ++++ kiL+++Fl+l+v+
  PHY93_01575|PHY93_01575  6 IAFFVLALLAVLFGAYGIAGLSVEVGKILLMVFLALAVL 44
                             78***********************************95 PP

>> Fig1  Ca2+ regulator and membrane fusion protein Fig1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   4.5   0.00024      0.47      81     137 ..       1      52 [.       1      57 [] 0.85

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00024
                     Fig1  81 llmvaiiLtlllfllllyfplgseipllPfkskavskvalvlsflllllwlvgalwq 137
                              ++ +ai++++l +l +l+      +  +++ s +v k++l++  +l++l +vg+l +
  PHY93_01575|PHY93_01575   1 MIRAAIAFFVLALLAVLFG-----AYGIAGLSVEVGKILLMVFLALAVLSFVGSLVT 52 
                              6779999999999999773.....3578888888*******************9987 PP

>> DUF202  Domain of unknown function (DUF202)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   8.8   0.00033      0.66      14      64 ..       2      55 ..       2      57 .] 0.85

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00033
                   DUF202 14 lRtslalialglallrffl...tgepsalgkilglilivlgiltllvglvrylr 64
                             +R ++a+++l+l+ + f      g    +gkil +++++l++l+++ +lv+ ++
  PHY93_01575|PHY93_01575  2 IRAAIAFFVLALLAVLFGAygiAGLSVEVGKILLMVFLALAVLSFVGSLVTGRK 55
                             7999***********987777766667789*****************9998665 PP

>> FUSC-like  FUSC-like inner membrane protein yccS
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   6.6   0.00081       1.6      27      64 ..       5      42 ..       2      52 .. 0.89

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.00081
                FUSC-like 27 vlglllstflftmlgalGqryatiafatLlvaiytmlg 64
                             +++ +++++l++++ga+G    ++ ++ +l++++  l 
  PHY93_01575|PHY93_01575  5 AIAFFVLALLAVLFGAYGIAGLSVEVGKILLMVFLALA 42
                             67889****************************97765 PP

>> DUF4389  Domain of unknown function (DUF4389)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   1.4      0.17   3.4e+02      16      26 ..       6      16 ..       1      27 [. 0.48
   2 ?   10.6   0.6    0.0002       0.4      17      42 ..      30      55 ..      26      57 .] 0.88

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.17
                  DUF4389 16 ivlslaslvlw 26
                             i++ ++ l+++
  PHY93_01575|PHY93_01575  6 IAFFVLALLAV 16
                             33333222222 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 0.0002
                  DUF4389 17 vlslaslvlwvvvvvqflivLvtgrp 42
                             v  ++ +v+++++v+ f+  Lvtgr+
  PHY93_01575|PHY93_01575 30 VGKILLMVFLALAVLSFVGSLVTGRK 55
                             5678999*****************97 PP

>> DUF4175  Domain of unknown function (DUF4175)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.0   4.4    0.0023       4.6       2      51 ..       3      52 ..       3      57 .] 0.88

  Alignments for each domain:
  == domain 1  score: 5.0 bits;  conditional E-value: 0.0023
                  DUF4175  2 rlwpalwpllsvlalflalsllglwqllpdllrlalllafalallaalvl 51
                             r++ a+  l+ +++lf a  ++gl  ++ + l +++l++++l ++ +lv+
  PHY93_01575|PHY93_01575  3 RAAIAFFVLALLAVLFGAYGIAGLSVEVGKILLMVFLALAVLSFVGSLVT 52
                             566788999999********************************999984 PP

>> COX7a  Cytochrome c oxidase subunit VII
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.5   1.4     0.095   1.9e+02      34      48 ..       7      21 ..       1      28 [. 0.56
   2 ?    8.8   0.8     0.001       2.1      25      45 ..      31      51 ..      26      55 .. 0.91

  Alignments for each domain:
  == domain 1  score: 2.5 bits;  conditional E-value: 0.095
                    COX7a 34 alfavgllgslygmy 48
                             a f+ +ll+ l+g+y
  PHY93_01575|PHY93_01575  7 AFFVLALLAVLFGAY 21
                             444444444444444 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.001
                    COX7a 25 sklylypyyalfavgllgsly 45
                              k++l  ++al++ +++gsl+
  PHY93_01575|PHY93_01575 31 GKILLMVFLALAVLSFVGSLV 51
                             699****************96 PP

>> RseC_MucC  Positive regulator of sigma(E), RseC/MucC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.2   6.9    0.0049       9.7      64     110 ..       2      46 ..       1      57 [] 0.65

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.0049
                RseC_MucC  64 lkaallvYllPllllilgallgsallgssellaalgallglvlgfli 110
                              ++aa+ +++l ll++++ga  +  l+   e+  +l++++++++ + +
  PHY93_01575|PHY93_01575   2 IRAAIAFFVLALLAVLFGAYGIAGLS--VEVGKILLMVFLALAVLSF 46 
                              799****************9999996..4444444444333333222 PP

>> Tetraspanin  Tetraspanin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   7.7    0.0058        11      51      96 ..       6      52 ..       2      56 .. 0.68

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.0058
                             ..XXXXXXXXXXXXXXXXXX.XXXXXXXXXXXXXXXXXXXXXXXXXX CS
                             xxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Tetraspanin 51 illivvGvllfllgflGcig.alkenkcllltfsllllvlfllelaa 96
                             i+++v+  l +l+g  G+ g ++   k+ll++f+ l ++ f+  l+ 
  PHY93_01575|PHY93_01575  6 IAFFVLALLAVLFGAYGIAGlSVEVGKILLMVFLALAVLSFVGSLVT 52
                             45777777888888888888455555677777777777777777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (57 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       972  (0.0542138); expected 358.6 (0.02)
Passed bias filter:                      410  (0.022868); expected 358.6 (0.02)
Passed Vit filter:                        65  (0.00362541); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.40u 0.23s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 440.72
//
Query:       PHY93_16925|PHY93_16925  [L=127]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
       0.12   12.3   1.8       0.25   11.3   1.8    1.5  1  SVM_signal  SVM protein signal sequence


Domain annotation for each model (and alignments):
>> SVM_signal  SVM protein signal sequence
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   1.8   1.4e-05      0.25      12      27 ..       2      17 ..       1      21 [. 0.87

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 1.4e-05
               SVM_signal 12 nIiLFifLGLfLItNn 27
                             +I+L +fLG ++ItN 
  PHY93_16925|PHY93_16925  2 KILLVTFLGTLFITNS 17
                             799************7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (127 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       627  (0.0349713); expected 358.6 (0.02)
Passed bias filter:                      468  (0.026103); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.19s 00:00:00.60 Elapsed: 00:00:00.36
# Mc/sec: 1056.10
//
Query:       PHY93_01580|PHY93_01580  [L=279]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0045   16.7   0.0      0.066   12.9   0.0    2.3  2  RPN7      26S proteasome subunit RPN7
  ------ inclusion threshold ------
      0.016   15.8   1.4         25    5.8   0.0    4.1  3  TPR_6     Tetratricopeptide repeat
      0.038   14.2   0.6        1.8    9.0   0.0    3.3  4  TPR_8     Tetratricopeptide repeat
      0.039   14.8   0.1         35    5.6   0.0    3.4  4  TPR_14    Tetratricopeptide repeat
      0.055   13.6   0.3         13    6.1   0.0    4.1  4  TPR_2     Tetratricopeptide repeat
      0.062   13.8   0.1         11    6.6   0.0    2.5  2  TPR_19    Tetratricopeptide repeat
       0.71    9.8   3.4        7.1    6.6   0.0    3.8  4  TPR_1     Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> RPN7  26S proteasome subunit RPN7
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   0.0     0.099   2.5e+02      45     142 ..      43      63 ..       3      78 .. 0.60
   2 !   12.9   0.0   2.6e-05     0.066      41     122 ..      80     161 ..      76     194 .. 0.80

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.099
                              HHHHCT-HHHHHHHHHTCCCC--SHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHCSSS---.HHHHHHHHHHHHHHHHHTT-HH CS
                     RPN7  45 hYlkigdleeAlkaysrireyctslkhkidmllnlirvaiffndwdlvskylekakellekggdwerknrlkvyeGlallairkfk 130
                                                                                                            +++ + + 
  PHY93_01580|PHY93_01580  43 L-----------------------------------------------------------------------------EISRGSYD 51 
                              3.............................................................................33444444 PP

                              HHHHHHCTS-GG CS
                     RPN7 131 eAaellldilst 142
                              +A +ll+d   t
  PHY93_01580|PHY93_01580  52 TALKLLIDYRKT 63 
                              444444444444 PP

  == domain 2  score: 12.9 bits;  conditional E-value: 2.6e-05
                              HHHHHHHHCT.-HHHHHHHHHTCCCC--SHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHCSSS---.HHHHHHHHHHHHHH CS
                     RPN7  41 dlaehYlkig.dleeAlkaysrireyctslkhkidmllnlirvaiffndwdlvskylekakellekggdwerknrlkvyeGla 122
                               +++ Yl+i  d + A+k +s+++++ + +++ +d++ +++  ai++++ +l+ k+++  ++l e  g++ ++  +k  + + 
  PHY93_01580|PHY93_01580  80 SIGRIYLRIKqDPDAAIKFFSEALNDPSLTDSEFDIIRAWLGRAIEWKNLGLLPKNIKGPEKLFEL-GKKYYEHGIKSQKYIM 161
                              567888888537899******************************************999999988.4555555555555555 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.1       1.2   3.1e+03       4      23 ..      38      57 ..      31      62 .. 0.69
   2 ?    5.8   0.0    0.0099        25       6      28 ..      81     104 ..      80     106 .. 0.86
   3 ?    5.1   0.3     0.016        42       1      25 [.     191     235 ..     191     239 .. 0.66

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 1.2
                             HHHHHHHHHHHHHHHHHHHH CS
                    TPR_6  4 yklalsyrklgdtdkAleal 23
                             +  a++ ++ g +d+Al++l
  PHY93_01580|PHY93_01580 38 LEKAKLEISRGSYDTALKLL 57
                             44455666656788888766 PP

  == domain 2  score: 5.8 bits;  conditional E-value: 0.0099
                              HHHHHHH.HHHHHHHHHHHHHHHH CS
                    TPR_6   6 lalsyrk.lgdtdkAlealerlik 28 
                              +++ y++  +d+d+A++ + + ++
  PHY93_01580|PHY93_01580  81 IGRIYLRiKQDPDAAIKFFSEALN 104
                              7899999778*********98876 PP

  == domain 3  score: 5.1 bits;  conditional E-value: 0.016
                              HHHHHHHHHHHHH....................HHHHHHHHHHHH CS
                    TPR_6   1 dAlyklalsyrkl....................gdtdkAlealer 25 
                              +Aly++++ +r+                      +t+ A +a++ 
  PHY93_01580|PHY93_01580 191 EALYMMGEIRRRSwhkndywtenfylmevirrfPNTELASRAYQA 235
                              689999999887777766666666666666666666666666665 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       3.5     9e+03       7      22 ..      40      55 ..      37      57 .. 0.62
   2 ?    9.0   0.0   0.00071       1.8       7      28 ..      81     103 ..      77     104 .. 0.93
   3 ?    1.4   0.0      0.19   4.8e+02      17      31 ..     143     157 ..     138     159 .. 0.82
   4 ?   -3.5   0.0         7   1.8e+04       2      10 ..     191     199 ..     191     200 .. 0.81

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 3.5
                             HHHHHHHTT-HHHHHH CS
                    TPR_8  7 lgsiylklgdyeeAke 22
                             ++++ ++ g y+ A +
  PHY93_01580|PHY93_01580 40 KAKLEISRGSYDTALK 55
                             5566666677777654 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.00071
                              HHHHH.HHTT-HHHHHHHHHHHH CS
                    TPR_8   7 lgsiy.lklgdyeeAkeyyekal 28 
                              +g+iy + ++d ++A++++ +al
  PHY93_01580|PHY93_01580  81 IGRIYlRIKQDPDAAIKFFSEAL 103
                              899**9**************998 PP

  == domain 3  score: 1.4 bits;  conditional E-value: 0.19
                              HHHHHHHHHHHHHHH CS
                    TPR_8  17 yeeAkeyyekaleld 31 
                              +e  k+yye+ ++ +
  PHY93_01580|PHY93_01580 143 FELGKKYYEHGIKSQ 157
                              68889****999865 PP

  == domain 4  score: -3.5 bits;  conditional E-value: 7
                              CHHHHHHHH CS
                    TPR_8   2 eayynlgsi 10 
                              ea+y++g i
  PHY93_01580|PHY93_01580 191 EALYMMGEI 199
                              689999976 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   0.0     0.019        49       5      30 ..      38      63 ..      34      70 .. 0.84
   2 ?    5.6   0.0     0.014        35      10      29 ..      84     104 ..      80     128 .. 0.78
   3 ?   -3.0   0.0         7   1.8e+04      34      43 ..     189     198 ..     185     201 .. 0.61
   4 ?   -2.4   0.0       5.1   1.3e+04      29      37 ..     221     229 ..     215     238 .. 0.48

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.019
                   TPR_14  5 lalaeallalGdpdeAiallrralal 30
                             l+ a+++  +G +d+A++ll ++ ++
  PHY93_01580|PHY93_01580 38 LEKAKLEISRGSYDTALKLLIDYRKT 63
                             677899999***********998766 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.014
                   TPR_14  10 alla.lGdpdeAiallrrala 29 
                              ++l+  +dpd+Ai+ + +al 
  PHY93_01580|PHY93_01580  84 IYLRiKQDPDAAIKFFSEALN 104
                              55442789**********985 PP

  == domain 3  score: -3.0 bits;  conditional E-value: 7
                   TPR_14  34 daeawlllaq 43 
                                ea++++++
  PHY93_01580|PHY93_01580 189 IGEALYMMGE 198
                              5566666665 PP

  == domain 4  score: -2.4 bits;  conditional E-value: 5.1
                   TPR_14  29 alaPddaea 37 
                              +++P+ + a
  PHY93_01580|PHY93_01580 221 RRFPNTELA 229
                              445544333 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.0       1.2   3.1e+03      14      30 ..      47      56 ..      36      57 .. 0.54
   2 ?    6.1   0.0    0.0052        13      11      28 ..      85     103 ..      79     104 .. 0.74
   3 ?    1.0   0.0      0.23   5.8e+02       2      15 ..     140     153 ..     139     156 .. 0.85
   4 ?   -0.1   0.0      0.52   1.3e+03       7      16 ..     189     198 ..     188     204 .. 0.68

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 1.2
                    TPR_2 14 lgdyeeAleafekAlel 30
                             +g        ++ Al+l
  PHY93_01580|PHY93_01580 47 RGS-------YDTALKL 56
                             444.......5555554 PP

  == domain 2  score: 6.1 bits;  conditional E-value: 0.0052
                    TPR_2  11 yyklgdy.eeAleafekAl 28 
                              y++ ++  + A+++f +Al
  PHY93_01580|PHY93_01580  85 YLRIKQDpDAAIKFFSEAL 103
                              55555444**********9 PP

  == domain 3  score: 1.0 bits;  conditional E-value: 0.23
                    TPR_2   2 ealynlGlayyklg 15 
                              e l++lG+ yy+ g
  PHY93_01580|PHY93_01580 140 EKLFELGKKYYEHG 153
                              67999***999987 PP

  == domain 4  score: -0.1 bits;  conditional E-value: 0.52
                    TPR_2   7 lGlayyklgd 16 
                              +G+a+y +g+
  PHY93_01580|PHY93_01580 189 IGEALYMMGE 198
                              6777777775 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.1     0.017        43      21      56 ..      28      65 ..      20      69 .. 0.83
   2 ?    6.6   0.0    0.0044        11       4      33 ..      89     122 ..      86     125 .. 0.76

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.017
                   TPR_19 21 dpknaearllL..AeallalgqldeAealLdalpeedp 56
                             +p n+ ++ lL  A++ ++ g +d A +lL ++ + ++
  PHY93_01580|PHY93_01580 28 SPSNQQLQKLLekAKLEISRGSYDTALKLLIDYRKTTA 65
                             78888888888889999999999999999988877665 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.0044
                   TPR_19   4 egdyaeAlalleqalqe....dpknaearllLAe 33 
                               +d+++A++++++al +    d + + +r++L +
  PHY93_01580|PHY93_01580  89 KQDPDAAIKFFSEALNDpsltDSEFDIIRAWLGR 122
                              68************97766566666666666665 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.0      0.84   2.2e+03      14      22 ..      47      55 ..      37      57 .. 0.66
   2 ?    6.6   0.0    0.0028       7.1      14      28 ..      89     103 ..      84     104 .. 0.88
   3 ?   -0.2   0.1      0.41   1.1e+03       2       9 ..     124     131 ..     116     132 .. 0.62
   4 ?    0.3   0.0      0.28   7.3e+02       6      17 ..     188     199 ..     188     201 .. 0.86

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 0.84
                             TT-HHHHHH CS
                    TPR_1 14 lgkydeAle 22
                              g yd Al+
  PHY93_01580|PHY93_01580 47 RGSYDTALK 55
                             566777765 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.0028
                              TT-HHHHHHHHHHHH CS
                    TPR_1  14 lgkydeAleyyekAL 28 
                              ++++d A++++++AL
  PHY93_01580|PHY93_01580  89 KQDPDAAIKFFSEAL 103
                              689***********9 PP

  == domain 3  score: -0.2 bits;  conditional E-value: 0.41
                              HHHHHHHH CS
                    TPR_1   2 kalynlGn 9  
                                ++nlG+
  PHY93_01580|PHY93_01580 124 IEWKNLGL 131
                              45667765 PP

  == domain 4  score: 0.3 bits;  conditional E-value: 0.28
                              HHHHHHHHTT-H CS
                    TPR_1   6 nlGnayfklgky 17 
                              n+G a++ +g+ 
  PHY93_01580|PHY93_01580 188 NIGEALYMMGEI 199
                              899999999985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (279 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       583  (0.0325172); expected 358.6 (0.02)
Passed bias filter:                      507  (0.0282782); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.38
# Mc/sec: 2203.11
//
Query:       PHY93_01585|PHY93_01585  [L=146]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.7e-23   82.8   0.1    4.1e-12   46.3   0.0    2.1  2  CBS       CBS domain
  ------ inclusion threshold ------
      0.066   13.0   0.0       0.12   12.2   0.0    1.4  1  MTH865    MTH865-like family


Domain annotation for each model (and alignments):
>> CBS  CBS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.5   0.1   2.2e-12     2e-08       5      52 ..       7      53 ..       3      55 .. 0.85
   2 !   46.3   0.0   4.6e-16   4.1e-12       1      53 [.      68     120 ..      68     123 .. 0.96

  Alignments for each domain:
  == domain 1  score: 34.5 bits;  conditional E-value: 2.2e-12
                             SBSSCEEEETTSBHHHHHHHHHHHTSSEEEEEETTTBEEEEEEHHHHH CS
                      CBS  5 mtrdvvtvppdttleealelmrekgvsrlPVVdedgklvGivtlrDll 52
                             mt++v   +p+++l ea+++mr+ +++ lP+ +++++l+G++t+rD++
  PHY93_01585|PHY93_01585  7 MTTKVELGNPNMSLFEAAKKMRDGDFGILPI-EDNDRLIGVITDRDIA 53
                             666666779************8888*77799.6899**********97 PP

  == domain 2  score: 46.3 bits;  conditional E-value: 4.6e-16
                              HHHHSBSSCEEEETTSBHHHHHHHHHHHTSSEEEEEETTTBEEEEEEHHHHHH CS
                      CBS   1 VgdimtrdvvtvppdttleealelmrekgvsrlPVVdedgklvGivtlrDllr 53 
                              V++imt++v+++ +d++l e+++ + e++++rlPV++ +++lvGi++l Dl++
  PHY93_01585|PHY93_01585  68 VSQIMTDRVLYCFEDQSLDEVAQNLGENRIRRLPVLNRQKRLVGILSLGDLAQ 120
                              89***********************9899**********************86 PP

>> MTH865  MTH865-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   1.3e-05      0.12      32      69 ..       8      48 ..       5      49 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 1.3e-05
                             -----BTTB---TTTTGGGS-GGGS...B-SHHHHHHHHHH CS
                   MTH865 32 ettceagdvevtagelgkklkdsdF...Pyksaedladdiv 69
                              t++e g+ ++++ e++kk++d dF   P+++ + l+  i+
  PHY93_01585|PHY93_01585  8 TTKVELGNPNMSLFEAAKKMRDGDFgilPIEDNDRLIGVIT 48
                             6999*********************9999999999988776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (146 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       354  (0.0197445); expected 358.6 (0.02)
Passed bias filter:                      342  (0.0190752); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.40u 0.23s 00:00:00.63 Elapsed: 00:00:00.38
# Mc/sec: 1143.49
//
Query:       PHY93_01590|PHY93_01590  [L=246]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.9e-07   29.5   0.0    2.9e-05   24.4   0.0    2.3  2  DUF5602   Domain of unknown function (DUF5602)


Domain annotation for each model (and alignments):
>> DUF5602  Domain of unknown function (DUF5602)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.4   0.0   1.6e-09   2.9e-05       6      52 .]      49      91 ..      45      91 .. 0.96
   2 !    2.8   0.0    0.0092   1.6e+02       3      17 ..     182     196 ..     181     229 .. 0.88

  Alignments for each domain:
  == domain 1  score: 24.4 bits;  conditional E-value: 1.6e-09
                  DUF5602  6 ptsiGvtiteaaLeglpaaddgpaekyeLalPaeaketafdHveldW 52
                             p ++G+ ++++aL++lpa d+     y L+lP  +  ++++ + ++W
  PHY93_01590|PHY93_01590 49 PSAVGIILSKEALDALPAVDQA----YSLKLPSSVLVPPYNEIIINW 91
                             899*****************99....***************999999 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.0092
                  DUF5602   3 dGkptsiGvtiteaa 17 
                              +++ ++++++it++ 
  PHY93_01590|PHY93_01590 182 NAEIIFLEPMITREF 196
                              7899********975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (246 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       391  (0.0218082); expected 358.6 (0.02)
Passed bias filter:                      362  (0.0201908); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.38
# Mc/sec: 1920.00
//
Query:       PHY93_01595|PHY93_01595  [L=509]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.6e-12   47.2   1.1      7e-12   46.3   1.1    1.5  1  Metallophos    Calcineurin-like phosphoesterase
    7.3e-07   29.5   0.0    2.8e-05   24.4   0.0    2.9  2  5_nucleotid_C  5'-nucleotidase, C-terminal domain


Domain annotation for each model (and alignments):
>> Metallophos  Calcineurin-like phosphoesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.3   1.1   7.8e-16     7e-12       2     203 ..      25     236 ..      24     237 .. 0.72

  Alignments for each domain:
  == domain 1  score: 46.3 bits;  conditional E-value: 7.8e-16
                              EEEEEESBTB.......TTCCTHHHHHHHHHHHHHHH....TTESEEEEESTSSSSSHHHHHHHHHHHHHHHHTSEE...EEEC-T CS
              Metallophos   2 rilvigDlHl.......algggqlddllkllddllre....ekpdlvllaGDlvdrgdlekellellaalvkypipv...ylllGN 73 
                               il+++D+H        +   g++++l++l+d+ ++e    +   +vl aGD+ +++++  + +   ++ +++   +   +++lGN
  PHY93_01595|PHY93_01595  25 QILHTNDTHSylshsthNINQGGMARLKALIDQYKEEasqnNIKSIVLDAGDFLEGNVYYLADQGKKSFQIHN--EIgydVTTLGN 108
                              69***************88889999999***9995555543556899999******96666555554555553..34446****** PP

                              TSCHHHHHHHHHHHHHHHHHHHEHHHCEEETSEEEEEETTEEEEEEEESE...CEEETHHHHHHHHHHHSCHHHHCC......... CS
              Metallophos  74 HegfeeellnkygylgifsepwrsdaevfnnlplaslgsgslkvlllhGg...spellvsldklgslnleleapepg......... 147
                              H+ + ++ + +        ++  s    f++l +++++++  k++ l++    ++el+v   k+g + l ++++  +         
  PHY93_01595|PHY93_01595 109 HD-YLMGTEKL-------DQLVASTELNFSFLASNVFINN--KFHALKNKlapYAELNVDGIKIGIIGLTTDEILYKwslndceit 184
                              **.55555555.......3344444677788888888888..88888888654333344444555555555444444555555555 PP

                              .....HHHHHHHHHHTTCSEEEEEESSESSCSSSCSCCHHHHHHHHHHTTESEEEEESSSS CS
              Metallophos 148 .....dewlkdlekrekadwvivlgHsplyrgsgylfgdealedllkkygvdlvisGHtHv 203
                                    ++++d  k +++d vi+l+H ++          + l+ +++  ++dl+++GH+H+
  PHY93_01595|PHY93_01595 185 spikaAQFYEDELKNRGNDAVIALTHLGVL---------NDLKLVKETSKIDLIVGGHSHT 236
                              5666699999999999**************.........6666669**************6 PP

>> 5_nucleotid_C  5'-nucleotidase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0      0.36   3.2e+03      19      48 ..     179     215 ..     165     226 .. 0.66
   2 !   24.4   0.0   3.1e-09   2.8e-05      25     154 ..     338     458 ..     285     461 .. 0.87

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 0.36
                              S--HHHHHHHHHH.......TGSTT--EEEEEGGG-- CS
            5_nucleotid_C  19 getnlgnliadal.......raaagadialangggir 48 
                               ++ +   i  a+       ++ ++a ial+  g ++
  PHY93_01595|PHY93_01595 179 NDCEITSPIKAAQfyedelkNRGNDAVIALTHLGVLN 215
                              4455555555555555555899999999999988554 PP

  == domain 2  score: 24.4 bits;  conditional E-value: 3.1e-09
                              HHHHHHHTGSTT--EEEEEGGG---.-BTTTEEEHHHHHHHS-S-.-E.......EEEEEEEHHHHHHHHHH.HTTTTTS--TT-E CS
            5_nucleotid_C  25 nliadalraaagadialangggira.dlpaGditvkdlltvlpfg.nt.......lvvveltGaqlkeaLenesvsaskaasgrfl 101
                               +iad l+++a+adi++ ++  +++ ++p G  t+ dl++ +p   n        + + e++G  +k+++e       +++ ++  
  PHY93_01595|PHY93_01595 338 YFIADTLKESADADISIHSPA-MNSeNFPTGAFTRLDLFNSIPRIfNPkdmggwkIFTAEVKGIWIKALIEI------QKKISEQI 416
                              69*****************99.555277***********999955455699********************4......45666666 PP

                              EEESEEEEE-TTS-TT--EEEESSS-BEEE--TTSEEEEEEEHHHHTTGGG-H CS
            5_nucleotid_C 102 qvsGlrytydlskpagervtslsvtvngkpldddktYkvatnsylasggdgfs 154
                               +sGl+ + d          ++  t+ng+++++ k Ykva +  + +g +g+s
  PHY93_01595|PHY93_01595 417 VFSGLKEDKD---------GKI--TINGQKINPFKNYKVAFTEGMIKGAGGIS 458
                              7899987555.........345..559*********************99975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (509 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       621  (0.0346366); expected 358.6 (0.02)
Passed bias filter:                      460  (0.0256568); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.40
# Mc/sec: 3839.78
//
Query:       PHY93_01600|PHY93_01600  [L=250]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.7e-11   43.2   0.0      1e-10   42.6   0.0    1.3  1  Methyltransf_24  Methyltransferase domain
    0.00012   21.4   0.0    0.00042   19.6   0.0    1.7  1  Methyltransf_3   O-methyltransferase


Domain annotation for each model (and alignments):
>> Methyltransf_24  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.6   0.0   1.1e-14     1e-10       2     106 .]     117     218 ..     116     218 .. 0.82

  Alignments for each domain:
  == domain 1  score: 42.6 bits;  conditional E-value: 1.1e-14
          Methyltransf_24   2 EiGvysGvstlwllralrrngagrlvavdhdpg...aeeaaalareaglddrvrlikads..eealaslaagsiDllfiDgghaae 82 
                              E G+y+G++   l + +  + +  ++++d  ++   +++ ++++++    ++v+ +++ds  ++  + +  g+iD++fiD++h+ +
  PHY93_01600|PHY93_01600 117 EFGSYKGWTVSNLIQNIPLASQ--IYTLDILEResgDSKIDEILER----KNVHRLSGDSlkFDFSPYF--GKIDFIFIDACHSES 194
                              99****************9986..8888875543447777888876....7788888888333344444..69************* PP

          Methyltransf_24  83 avledleallprlapggvvlfdDi 106
                              av++d e++l++l++ gv++++D+
  PHY93_01600|PHY93_01600 195 AVRKDTENALKMLSKTGVIVWHDF 218
                              ***********************5 PP

>> Methyltransf_3  O-methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   0.0   4.7e-08   0.00042      15     155 ..      81     215 ..      72     220 .. 0.80

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 4.7e-08
                              HHHHHTTTST.TGGGS--HHHHHHHHHHHHHHT--EEEEE--TTSHHHHHHHTTS-TT-EEEEEES-HHHHHHHHHHHHHTT-GGG CS
           Methyltransf_3  15 eLreatakktdlsemevsvdegqfLslLvklvnakrvleiGvftGyslLatalalPeDGkilaididreayeialkfiqkagvaek 100
                               L + t++k   ++  vs++e   L+ Lvk  n    +e G ++G+++  + +++P   +i ++di +   e + + i+     + 
  PHY93_01600|PHY93_01600  81 SLFHGTYNKE--NHYLVSTKELFTLTALVKYLNPSIFFEFGSYKGWTVSNLIQNIPLASQIYTLDILE--RESGDSKIDEILERKN 162
                              5666677776..788999999999*****************************************854..3457777888777788 PP

                              EEEEES-HHHHHHHHHTSSS---EEEEEE-S-GGG..HHHHHHHHHHTEEEEEEEEE CS
           Methyltransf_3 101 ieliegdalkvLeelvkdkklpefDfifvDaDkss..yvnyyeklleLvkvGgliai 155
                              ++   gd+lk           ++ Dfif+Da  s+    +  e++l+++ + g+i++
  PHY93_01600|PHY93_01600 163 VHRLSGDSLKF----DFSPYFGKIDFIFIDACHSEsaVRKDTENALKMLSKTGVIVW 215
                              88889999885....233346789*******87641156778999*99999888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (250 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       506  (0.0282224); expected 358.6 (0.02)
Passed bias filter:                      349  (0.0194657); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.27s 00:00:00.81 Elapsed: 00:00:00.48
# Mc/sec: 1559.29
//
Query:       PHY93_01605|PHY93_01605  [L=280]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.3e-06   25.9   0.0    1.5e-05   24.9   0.0    1.5  1  Phage_integrase  Phage integrase family
  ------ inclusion threshold ------
      0.019   15.4   0.4       0.29   11.6   0.0    2.7  3  Phage_int_SAM_4  Phage integrase, N-terminal SAM-like domain


Domain annotation for each model (and alignments):
>> Phage_integrase  Phage integrase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.9   0.0   1.7e-09   1.5e-05      18     118 ..     156     261 ..     130     267 .. 0.87

  Alignments for each domain:
  == domain 1  score: 24.9 bits;  conditional E-value: 1.7e-09
                              HHHHHHHHHHHHHHHHT--HHHHTT-BGGGEECTTTEEEEE...EEECSSSSEEEEECTHHHHHHHHHHHHHH..CHCCTTTSBSS CS
          Phage_integrase  18 slkirdklllellyetGlRisEllsLrvkdldlengvilvh...eregKgskeravplseealellkellska..leeaeksellf 98 
                              ++ +r+++++ ++ e+ lR+ E+l L+++dl ++   i       ++g g+++r+  +++ a  ++  +l+k   l +  ++++lf
  PHY93_01605|PHY93_01605 156 ASTARNYTMAVIAAESELRADEILHLELSDLFFKSHKIQTRyakGTRGPGKRARTTLFTSLARDSVNFYLKKYrpLITSVSNNYLF 241
                              45689**************************9999988886555666667777******999999999999999999999****** PP

                              BETTSSB--HHHHHHHHHHH CS
          Phage_integrase  99 askrgkplsrqtvrkafkra 118
                              ++++g pl  ++++ka+ ++
  PHY93_01605|PHY93_01605 242 LNRQGTPLDYSSAYKALGEI 261
                              ***********999998765 PP

>> Phage_int_SAM_4  Phage integrase, N-terminal SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.0   0.0      0.14   1.2e+03      46      65 ..      28      46 ..      21      57 .. 0.77
   2 ?   11.6   0.0   3.2e-05      0.29      43      82 ..      75     113 ..      70     114 .. 0.92
   3 ?   -2.1   0.0      0.63   5.7e+03      15      23 ..     155     163 ..     144     168 .. 0.50

  Alignments for each domain:
  == domain 1  score: 0.0 bits;  conditional E-value: 0.14
          Phage_int_SAM_4 46 ieaYlnyLanerklsastqk 65
                             i+ Yln+ +  r+ s++t+ 
  PHY93_01605|PHY93_01605 28 INNYLNSHI-IRNHSPKTIT 46
                             678999888.5556999985 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 3.2e-05
          Phage_int_SAM_4  43 kedieaYlnyLanerklsastqknalnalsffykkvlere 82 
                              ++ i++Y n L+ +  ++ +t++  +++ls +++ vle +
  PHY93_01605|PHY93_01605  75 RQVIIDYTNGLI-KSGVTSKTVRSQIRILSRYFSFVLEHP 113
                              66799*******.************************975 PP

  == domain 3  score: -2.1 bits;  conditional E-value: 0.63
          Phage_int_SAM_4  15 serTiksYl 23 
                              + +T ++Y+
  PHY93_01605|PHY93_01605 155 AASTARNYT 163
                              234444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (280 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       391  (0.0218082); expected 358.6 (0.02)
Passed bias filter:                      340  (0.0189637); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.46
# Mc/sec: 1841.00
//
Query:       PHY93_01610|PHY93_01610  [L=130]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.5e-16   61.0   0.0    1.9e-16   60.7   0.0    1.0  1  HAD_2            Haloacid dehalogenase-like hydrolase
    1.3e-11   44.4   0.0    1.6e-11   44.1   0.0    1.2  1  Hydrolase_like   HAD-hyrolase-like
    3.3e-07   30.8   0.0    4.2e-07   30.5   0.0    1.1  1  Hydrolase        haloacid dehalogenase-like hydrolase
     0.0034   17.0   0.0     0.0047   16.6   0.0    1.2  1  PGP_phosphatase  Mitochondrial PGP phosphatase


Domain annotation for each model (and alignments):
>> HAD_2  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.7   0.0   4.1e-20   1.9e-16      87     178 .]      11     104 ..       2     104 .. 0.93

  Alignments for each domain:
  == domain 1  score: 60.7 bits;  conditional E-value: 4.1e-20
                    HAD_2  87 lLeeLkeagyklgivTsk..sreaveekleqlgiesyFdvivtsedvekkKPdpeviekaleklklkkeeviyvGDsp.tDieaak 169
                               L +L + +y++g+++++    e+  +++++l++++++d+ + s   +  KP++++++ka e + +++e+++++GDs   Die+a+
  PHY93_01610|PHY93_01610  11 SLRSL-KSKYRIGVISNSpsYPEVNINHFKHLELDQFIDHYIFSYSLTIAKPQTAIFKKATELFVTDPEQCVMIGDSLvADIEGAQ 95 
                              68899.88*********975678899************************************************************ PP

                    HAD_2 170 kagikviav 178
                              k+ +k+i++
  PHY93_01610|PHY93_01610  96 KLKMKTIWL 104
                              *******95 PP

>> Hydrolase_like  HAD-hyrolase-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.1   0.0   3.6e-15   1.6e-11       3      49 ..      59     105 ..      57     126 .. 0.90

  Alignments for each domain:
  == domain 1  score: 44.1 bits;  conditional E-value: 3.6e-15
                              STTSSHHHHHHHHHH---GGGEEEEES-TTTHHHHHHHCT-EEEEES CS
           Hydrolase_like   3 gKPepemydfalevlgsdpeevlmiGDrlatDiagAnnaGwksvLVl 49 
                               KP+  +++ a e +  dpe+++miGD+l +Di+gA++ ++k++   
  PHY93_01610|PHY93_01610  59 AKPQTAIFKKATELFVTDPEQCVMIGDSLVADIEGAQKLKMKTIWLN 105
                              7******************************************9865 PP

>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.5   0.0   9.3e-11   4.2e-07     127     207 ..      12      95 ..       9      98 .. 0.81

  Alignments for each domain:
  == domain 1  score: 30.5 bits;  conditional E-value: 9.3e-11
                              HHHHHHTTEEEEEEESSEHHHHHHHHHHTT...GGGESEEEEHHCESSTTTSHHHHHHHHHHHTSTGGGEEEEESSHH.HHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxx RF
                Hydrolase 127 vasLkaagievvlltgdnpetaeraanqlG...ddyfdaviasdietvakpspegkvaaireLqgkpeevamVGDgvn.Daaala 207
                              ++sLk++ +++++++++ + +   + +      d+++d+ i s+  t+akp   ++++a + +  +pe+++m+GD++  D+++++
  PHY93_01610|PHY93_01610  12 LRSLKSK-YRIGVISNSPSYPEVNINHFKHlelDQFIDHYIFSYSLTIAKPQTAIFKKATELFVTDPEQCVMIGDSLVaDIEGAQ 95 
                              6788866.77899998877444444433334555555****************************************99**9987 PP

>> PGP_phosphatase  Mitochondrial PGP phosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0     1e-06    0.0047      69     164 ..      10     105 ..       2     108 .. 0.70

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 1e-06
          PGP_phosphatase  69 eelrevypeksilivSNsaGssd.dkdaekaealekktg..ipVlrhkekKPgcaeevleyfkerkv..veeadeiavvgDRllTd 149
                                lr+  ++ +i ++SNs    + + ++ k  +l++ ++  i  + ++  KP++a      fk+ ++  v+++++ +++gD l+ d
  PHY93_01610|PHY93_01610  10 PSLRSLKSKYRIGVISNSPSYPEvNINHFKHLELDQFIDhyIFSYSLTIAKPQTA-----IFKKATElfVTDPEQCVMIGDSLVAD 90 
                              56677777778999***98655555555555555666664455555568899764.....233333334999************** PP

          PGP_phosphatase 150 vllanmmGslgvwlr 164
                              +  a++    ++wl+
  PHY93_01610|PHY93_01610  91 IEGAQKLKMKTIWLN 105
                              ***999988888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (130 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       378  (0.0210832); expected 358.6 (0.02)
Passed bias filter:                      340  (0.0189637); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.41u 0.23s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 980.57
//
Query:       PHY93_01615|PHY93_01615  [L=112]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.4e-28   98.2   0.0    2.9e-28   97.9   0.0    1.1  1  ORF6N        ORF6N domain
  ------ inclusion threshold ------
       0.12   12.5   0.0       0.16   12.1   0.0    1.2  1  S10_plectin  Plectin/S10 domain


Domain annotation for each model (and alignments):
>> ORF6N  ORF6N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   97.9   0.0   3.2e-32   2.9e-28       2      84 .]      11      99 ..      10      99 .. 0.91

  Alignments for each domain:
  == domain 1  score: 97.9 bits;  conditional E-value: 3.2e-32
                    ORF6N  2 kiyeirgqrVmldkdlAelYevetkrlnqavkrnkeRFpedfmfqLtkeele..rsqiatl....krgskskylpylfTEqGvlmlak 83
                             +iy+irg rVmld+dlA+lY+vetkrl+++vkrn++RFp+df ++ +   l+  rsqiatl     ++   k+ pylfTE+Gv+ml++
  PHY93_01615|PHY93_01615 11 MIYTIRGHRVMLDSDLAKLYGVETKRLKEQVKRNIDRFPQDFLIKPNLSALAtlRSQIATLnkssLENYAFKHVPYLFTENGVAMLSS 98
                             69******************************************99998888899******775533445999*************98 PP

                    ORF6N 84 v 84
                             v
  PHY93_01615|PHY93_01615 99 V 99
                             6 PP

>> S10_plectin  Plectin/S10 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   1.7e-05      0.16      36      82 ..      56     104 ..      38     110 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 1.7e-05
                              -HHHHHHHHHHC..CCCTSEEEEEETTEEEEEE-HHHHHHHHHHHXXXX CS
              S10_plectin  36 pnlqvikalqSL..ksrgyvkeqfaWrhyYytLtneGieylreylhlpe 82 
                              pnl  + +l+S   +  +   e++a++h+ y+ t++G+++l ++l+ ++
  PHY93_01615|PHY93_01615  56 PNLSALATLRSQiaTLNKSSLENYAFKHVPYLFTENGVAMLSSVLQSKQ 104
                              56666666666411334556699******************99998665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (112 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       526  (0.0293379); expected 358.6 (0.02)
Passed bias filter:                      381  (0.0212505); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.37
# Mc/sec: 897.27
//
Query:       PHY93_20230|PHY93_20230  [L=559]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
       0.17   11.2   7.6       0.54    9.6   7.6    1.8  1  SF-assemblin  SF-assemblin/beta giardin
        1.8    9.3   0.0        1.8    9.3   0.0    3.2  4  RNA_polI_A14  Yeast RNA polymerase I subunit RPA14
        4.6    7.3   8.3          6    6.9   1.7    3.4  4  DUF1664       Protein of unknown function (DUF1664)
        4.9    8.1  11.3        3.9    8.4   0.1    3.5  3  CSN5_C        Cop9 signalosome subunit 5 C-terminal domain


Domain annotation for each model (and alignments):
>> SF-assemblin  SF-assemblin/beta giardin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   7.6   0.00012      0.54      89     177 ..     258     342 ..     241     369 .. 0.82

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.00012
             SF-assemblin  89 elkkaveelnekinnveanvenekakrrdaieklakelvkelneleaaideEkaerkkkedqlnkkveEdlkklsakidtEkniRd 174
                               ++  + ++n +i n+++nv+n+ +  +  ++++  e+ k+ ++ ++ + e  +   k+ ++ nk  ++   kls +    +n+ d
  PHY93_20230|PHY93_20230 258 GINTNMGNMNTNIGNINTNVNNNWNNSNTIMDRQGAEANKNWADTNTKLGEATNVMDKQATEANKNWADTNTKLSEA----TNVMD 339
                              56778889**********************************************9999*******999998888865....34444 PP

             SF-assemblin 175 sev 177
                              ++ 
  PHY93_20230|PHY93_20230 340 KQA 342
                              444 PP

>> RNA_polI_A14  Yeast RNA polymerase I subunit RPA14
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.2       3.4   1.5e+04      34      55 ..     261     282 ..     241     288 .. 0.53
   2 ?   -1.6   0.6         1   4.6e+03      26      36 ..     325     335 ..     297     369 .. 0.52
   3 ?   -1.1   0.0      0.73   3.3e+03      18      31 ..     442     455 ..     434     481 .. 0.78
   4 ?    9.3   0.0   0.00041       1.8      44      72 ..     519     548 ..     501     549 .. 0.74

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 3.4
             RNA_polI_A14  34 selageesstkeaatglsvdte 55 
                              +++  ++++  +++t+++++ +
  PHY93_20230|PHY93_20230 261 TNMGNMNTNIGNINTNVNNNWN 282
                              3333444444444454444444 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 1
             RNA_polI_A14  26 IdekEssasel 36 
                               d++++ +++ 
  PHY93_20230|PHY93_20230 325 ADTNTKLSEAT 335
                              22222222222 PP

  == domain 3  score: -1.1 bits;  conditional E-value: 0.73
             RNA_polI_A14  18 vekfLteFIdekEs 31 
                               e++++eFI++ + 
  PHY93_20230|PHY93_20230 442 LEQIVDEFISAFDF 455
                              58999****98655 PP

  == domain 4  score: 9.3 bits;  conditional E-value: 0.00041
             RNA_polI_A14  44 keaa.tglsvdtelssvlsQLkRiqRdlrG 72 
                              + aa  ++s +++ +   sQLk +qR l G
  PHY93_20230|PHY93_20230 519 QFAAkHNISGNKNENYFCSQLKELQRKLLG 548
                              3233589999****************9976 PP

>> DUF1664  Protein of unknown function (DUF1664)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   0.0     0.077   3.4e+02      82     110 ..     249     277 ..     222     291 .. 0.53
   2 ?    6.9   1.7    0.0013         6      35     103 ..     302     370 ..     296     378 .. 0.90
   3 ?   -2.5   0.0       1.1     5e+03      63      81 ..     424     442 ..     393     452 .. 0.49
   4 ?    0.4   0.1      0.14   6.4e+02      61     118 ..     497     554 ..     473     557 .. 0.73

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.077
                  DUF1664  82 skeikeevtevredlseigedvesvkeav 110
                                + ++++t ++ ++ ++++++ ++++ v
  PHY93_20230|PHY93_20230 249 LGDFNSNLTGINTNMGNMNTNIGNINTNV 277
                              33333444444444444444444444444 PP

  == domain 2  score: 6.9 bits;  conditional E-value: 0.0013
                  DUF1664  35 TkrslsdavesvskqleqvseslaatkrhLssridrvdkkldeqkeiskeikeevtevredlseigedv 103
                              T+  l +a + + kq ++  ++ a+t  +Ls+  + +dk+  + ++  +++++ v++   + ++i  ++
  PHY93_20230|PHY93_20230 302 TNTKLGEATNVMDKQATEANKNWADTNTKLSEATNVMDKQATAANANWAKTNDVVNTNWAESNKIAAQM 370
                              788999**********************************************99998888888887776 PP

  == domain 3  score: -2.5 bits;  conditional E-value: 1.1
                  DUF1664  63 hLssridrvdkkldeqkei 81 
                              ++++ i + d++l +  ++
  PHY93_20230|PHY93_20230 424 DFQKAISSWDDQLSDLVKL 442
                              3455555666665555555 PP

  == domain 4  score: 0.4 bits;  conditional E-value: 0.14
                  DUF1664  61 krhLssridrvdkkldeqkeiskeikeevtevredlseigedvesvkeavegleskle 118
                              +r L +  d++d+kl++ ++i++  +++  + +++ + + ++++++++   g e++++
  PHY93_20230|PHY93_20230 497 RRVLYNAADELDQKLKDYEKITQFAAKHNISGNKNENYFCSQLKELQRKLLGAETQMQ 554
                              6777788888999999988888876666666666667777777777777766666665 PP

>> CSN5_C  Cop9 signalosome subunit 5 C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   4.1     0.094   4.2e+02      15      77 ..     262     323 ..     252     378 .. 0.78
   2 ?   -3.4   0.0         4   1.8e+04      59      71 ..     506     518 ..     501     523 .. 0.66
   3 ?    8.4   0.1   0.00088       3.9       7      32 ..     530     555 ..     529     558 .. 0.91

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.094
                   CSN5_C  15 qisDLaeKlekaessvsrsrsaagtlseeaseaeekkkkkkedsqLakvvkdstkiaseaqhG 77 
                               +  ++  + +++++v+++ ++++t +++ ++ae++k+   ++++L  +++ ++k a+ea++ 
  PHY93_20230|PHY93_20230 262 NMGNMNTNIGNINTNVNNNWNNSNTIMDR-QGAEANKNWADTNTKLGEATNVMDKQATEANKN 323
                              56667777888888888888888777754.456666667778888888888888888888765 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 4
                   CSN5_C  59 qLakvvkdstkia 71 
                              +L++  kd +ki+
  PHY93_20230|PHY93_20230 506 ELDQKLKDYEKIT 518
                              5666666766665 PP

  == domain 3  score: 8.4 bits;  conditional E-value: 0.00088
                   CSN5_C   7 tNrdYatkqisDLaeKlekaessvsr 32 
                              +N++Y  +q+++L++Kl  ae++++ 
  PHY93_20230|PHY93_20230 530 KNENYFCSQLKELQRKLLGAETQMQD 555
                              599******************99975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (559 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1136  (0.063361); expected 358.6 (0.02)
Passed bias filter:                      338  (0.0188521); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.73u 0.25s 00:00:00.98 Elapsed: 00:00:00.50
# Mc/sec: 3340.52
//
Query:       PHY93_20235|PHY93_20235  [L=234]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.1e-22   79.8   0.0    2.8e-22   79.4   0.0    1.2  1  UDG       Uracil DNA glycosylase superfamily
  ------ inclusion threshold ------
       0.12   12.5   0.0       0.22   11.6   0.0    1.3  1  DUF2750   Protein of unknown function (DUF2750)
       0.14   11.8   0.0        1.2    8.7   0.0    2.1  1  DUF4821   Domain of unknown function (DUF4821)


Domain annotation for each model (and alignments):
>> UDG  Uracil DNA glycosylase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.4   0.0   4.7e-26   2.8e-22       5     151 ..      62     217 ..      58     221 .. 0.87

  Alignments for each domain:
  == domain 1  score: 79.4 bits;  conditional E-value: 4.7e-26
                              CTT-SEEEEESSTCHH.HHHHSSSS.-STT.--HHHHHHH.CCCCCCCHHG............CTEEEEESSS....S.ECGCTTC CS
                      UDG   5 ppdakvvivGeaPgae.edatglpFsgrag.nllrkllne.aglkrdlese............qgvyitnvvkcrppg.nrdtpts 74 
                               ++ k vi+G++P++  ++a+gl+Fs+++g +++++l n+  +l+ dl  +            +gv+++n+ +    + + ++p +
  PHY93_20235|PHY93_20235  62 FEHIKAVIIGQDPYHGpGQAHGLCFSVQPGvKIPPSLKNIyKELESDLGIQtpnhgclkawalNGVLLLNAHL----TvEASNPMA 143
                              57899*************************5555566666667777666669999******************....64447**** PP

                              CCCTCCHH.HHHHHHHHHH....SSEEEEESHHHHHH..HHHHSCESCCCSCT..SEEEEES-SSTTTTT..TTTSHHHHHHHHH CS
                      UDG  75 aeikacap.lleeeiellk....prlivllGktaakallgeklgklrgklleak.irvlplphPsplnrn..ffksnpelkaeaw 151
                              ++ k +++ ++++ iel++    +++++l+G  a+ +           k ++ +  ++l++ hPspl+ +  ff++++++k +++
  PHY93_20235|PHY93_20235 144 HK-KYGWDqFTDRVIELINekkeNTVFMLWGSPAHAK----------AKNVNSEkNCILKSVHPSPLSSYrgFFGCKHFSKCNEY 217
                              **.*******************999************..........566666559**************************998 PP

>> DUF2750  Protein of unknown function (DUF2750)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   3.6e-05      0.22      25      60 ..     157     194 ..     144     199 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 3.6e-05
                  DUF2750  25 v..leeeededvlpvWsseefAkawakeewadykpkei 60 
                              +  ++e+++++v+++W s++ Aka +++  +++ +k++
  PHY93_20235|PHY93_20235 157 IelINEKKENTVFMLWGSPAHAKAKNVNSEKNCILKSV 194
                              445899999***********************999987 PP

>> DUF4821  Domain of unknown function (DUF4821)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.7   0.0   0.00021       1.2      57     154 ..       4     115 ..       1     137 [. 0.72

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 0.00021
                  DUF4821  57 sdyPnielldeaeWeawleekfdldkpitplnt.LFlnff...vakseyaeaa.........lkeil..revFaalpelefillvl 127
                               d P i+ l+ + W++ l+++fd ++ +  l++ L + +    v+ + ++            +k ++  +  ++   + + +++ +
  PHY93_20235|PHY93_20235   4 LDNPLIDYLHDSTWKNLLKSEFD-KPYMHELEAkLRVDYQekmVYPQPADIFTafnltpfehIKAVIigQDPYHGPGQAHGLCFSV 88 
                              68889999999999999999999.55544444326666644434444333333677777777666555788888888999999999 PP

                  DUF4821 128 ppdvelepaleelFekleklgtskypk 154
                              +p v++ p+l++++++le+  ++++p+
  PHY93_20235|PHY93_20235  89 QPGVKIPPSLKNIYKELESDLGIQTPN 115
                              999999999999999998876666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (234 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       382  (0.0213063); expected 358.6 (0.02)
Passed bias filter:                      364  (0.0203023); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.27s 00:00:00.78 Elapsed: 00:00:00.46
# Mc/sec: 1515.82
//
Query:       PHY93_16930|PHY93_16930  [L=165]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0022   18.4   8.9      0.042   14.3   1.4    2.1  2  DUF2231          Predicted membrane protein (DUF2231)
  ------ inclusion threshold ------
      0.016   15.1   3.6      0.053   13.4   0.3    2.1  2  DUF2955          Protein of unknown function (DUF2955)
      0.019   14.3   0.2      0.023   14.0   0.2    1.0  1  EpsG             EpsG family
      0.024   14.1   2.0       0.03   13.8   2.0    1.1  1  DUF373           Domain of unknown function (DUF373)
      0.028   14.2   1.7      0.035   13.9   1.7    1.1  1  Cytochrom_C_asm  Cytochrome C assembly protein
      0.068   12.8   0.2        5.7    6.6   0.0    2.0  2  DUF4131          Domain of unknown function (DUF4131)
       0.26   10.6   7.1        2.5    7.3   6.6    1.9  2  DUF4401          Domain of unknown function (DUF4401)
       0.33   11.4   5.8        1.6    9.2   0.5    2.2  2  DUF3624          Protein of unknown function (DUF3624)
       0.45   10.7   7.7       0.52   10.4   0.8    2.5  2  Myco_arth_vir_N  Mycoplasma virulence signal region (Myco_art
        1.3    8.9   3.7        6.5    6.7   0.1    2.1  2  DUF3754          Protein of unknown function (DUF3754)
        1.4    9.2   6.9        2.8    8.2   1.5    2.2  2  DUF3784          Domain of unknown function (DUF3784)
        1.7    9.4   8.1         67    4.3   8.1    2.1  1  Tmemb_14         Transmembrane proteins 14C
        1.9    8.6   6.4       0.19   11.8   0.3    2.3  3  CrgA             Cell division protein CrgA
          2    6.9   8.8        0.8    8.2   1.1    2.0  2  DUF2339          Predicted membrane protein (DUF2339)
        3.4    7.3  10.8    2.1e+02    1.5  10.8    2.1  1  Wzy_C            O-Antigen ligase
        3.6    7.6   5.0        3.6    7.6   0.0    3.0  3  Gram_pos_anchor  LPXTG cell wall anchor motif
        4.6    7.6  12.9        9.4    6.6   5.8    2.2  2  DUF4064          Protein of unknown function (DUF4064)
        6.2    7.6   7.4       0.57   10.9   0.5    2.2  2  DUF751           Protein of unknown function (DUF751)


Domain annotation for each model (and alignments):
>> DUF2231  Predicted membrane protein (DUF2231)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.3   1.4   4.2e-05     0.042      36      96 ..       5      62 ..       1      70 [. 0.77
   2 !    9.2   1.0    0.0017       1.7      44      97 ..      86     139 ..      60     142 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 4.2e-05
                  DUF2231 36 akktallHavggvlllalivaltvWrfvlrlreeeqvsplylalslvvvvlllvqgwlGae 96
                             + + al H+ ++ ++lal+v+  vW f++++++ + v ++ +++s+++ ++++ +g  Gae
  PHY93_16930|PHY93_16930  5 QIHLALNHFPIAGTMLALVVL--VWGFLVKKDQIKIVGITLMIISALAGIVVAQTG-DGAE 62
                             556778899999999999999..********9999998888888888777666555.4554 PP

  == domain 2  score: 9.2 bits;  conditional E-value: 0.0017
                  DUF2231  44 avggvlllalivaltvWrfvlrlreee..qvsplylalslvvvvlllvqgwlGaeL 97 
                              a++++ ++a++ +  +W +++rl++++  ++ +l+l+++l+ +vl++ ++ +G+++
  PHY93_16930|PHY93_16930  86 AMIAIQITAVLGI--AWLIMYRLKKNHleKIFALMLVTNLASAVLVADAAHKGGQI 139
                              4455556666666..79666666666556************************997 PP

>> DUF2955  Protein of unknown function (DUF2955)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.3   5.3e-05     0.053      65     108 ..       8      50 ..       1      67 [. 0.77
   2 ?    2.9   0.3      0.09        89      74     106 ..      92     124 ..      87     136 .. 0.73

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 5.3e-05
                  DUF2955  65 ellqhyPvlmtllvflllllkfrlmsrgskflfgamlvislsil 108
                                l h+P+ +t+l++++l++ f  +++ +  ++g++l+i+ ++ 
  PHY93_16930|PHY93_16930   8 LALNHFPIAGTMLALVVLVWGFL-VKKDQIKIVGITLMIISALA 50 
                              5799******************6.56777788888888876664 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.09
                  DUF2955  74 mtllvflllllkfrlmsrgskflfgamlvisls 106
                              +t ++++  l+++rl ++  + +f++mlv +l+
  PHY93_16930|PHY93_16930  92 ITAVLGIAWLIMYRLKKNHLEKIFALMLVTNLA 124
                              566777777777777788888888888887654 PP

>> EpsG  EpsG family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.2   2.3e-05     0.023     148     258 ..      21     129 ..       3     134 .. 0.58

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 2.3e-05
                     EpsG 148 aiiflplyfllk.lklklkllllllafillllllldlilsllslllliseryesYlesdeysggtig..gvqlaillfilfllllk 230
                              a+++l+  fl+k +++k ++ + l++++ l+ +++ +  + ++ ++  +  +++ l  +++ + +++   +q++++l i++ l+++
  PHY93_16930|PHY93_16930  21 ALVVLVWGFLVKkDQIK-IVGITLMIISALAGIVVAQTGDGAEEIVEHKPLVTKNLIHQHEEAADTAmiAIQITAVLGIAW-LIMY 104
                              35666667777746666.333334444444444444444444544433335666555555555555545788888888888.4444 PP

                     EpsG 231 kileekkkeklklflnllliglalllll 258
                              +++++  +   k+f  +l+  la+ +l+
  PHY93_16930|PHY93_16930 105 RLKKNHLE---KIFALMLVTNLASAVLV 129
                              44444444...88888888777777665 PP

>> DUF373  Domain of unknown function (DUF373)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   2.0     3e-05      0.03     160     272 ..      19     130 ..      13     151 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 3e-05
                   DUF373 160 plGlllliyallll...lglpelalaiillllGlylllrGfgldelleelleklkesleegritfvtyvvallllligiisgyisl 242
                              +l+l++l+ ++l+    +++++++l+ii++l G+++   G g +e++e+ +  +k+ +++ +    t+++a+ ++++  i+ +i+ 
  PHY93_16930|PHY93_16930  19 MLALVVLVWGFLVKkdqIKIVGITLMIISALAGIVVAQTGDGAEEIVEHKPLVTKNLIHQHEEAADTAMIAIQITAVLGIAWLIM- 103
                              5677888888888799999999**************************************************9988888777666. PP

                   DUF373 243 esvssasvssglltlilafiygavewlala 272
                               ++++     + + +++  + ++   +++a
  PHY93_16930|PHY93_16930 104 YRLKK--NHLEKIFALML-VTNLASAVLVA 130
                              33333..22333333333.33333333333 PP

>> Cytochrom_C_asm  Cytochrome C assembly protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   1.7   3.5e-05     0.035      10     115 ..      19     118 ..      12     136 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 3.5e-05
          Cytochrom_C_asm  10 llawilsllgllleylarklnlsllaavaliaalillgfalflllaelqesadlnpalqspilmiHvplallsYatliigallsia 95 
                              +la++++++g+l+    +k ++++++ +++i+++ l g++++       e+ + +p+ +++ +  H  +a +++ +  i+a+l ia
  PHY93_16930|PHY93_16930  19 MLALVVLVWGFLV----KKDQIKIVGITLMIISA-LAGIVVAQTGDGAEEIVEHKPLVTKNLIHQHEEAADTAMIAIQITAVLGIA 99 
                              5778888899999....44556666666555555.455666678899999999********************************* PP

          Cytochrom_C_asm  96 lliierqlkkkkklklsanl 115
                              +li+ r + k++  k+ a +
  PHY93_16930|PHY93_16930 100 WLIMYRLK-KNHLEKIFALM 118
                              **776665.54444444333 PP

>> DUF4131  Domain of unknown function (DUF4131)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.0     0.025        25      11      49 ..      17      56 ..       8      73 .. 0.52
   2 ?    6.6   0.0    0.0057       5.7      10      56 ..      93     137 ..      86     151 .. 0.74

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.025
                  DUF4131 11 alllllllllllllrrrprrrv..llllllllllallgfal 49
                             +++l+l +l + +l  ++ +     ++l+++ +la++++a+
  PHY93_16930|PHY93_16930 17 GTMLALVVLVWGFLV-KKDQIKivGITLMIISALAGIVVAQ 56
                             333333333333333.4444441145555555555554444 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.0057
                  DUF4131  10 lalllllllllllllrrrprrrvllllllllllallgfalrapqpna 56 
                               a+l+++ l+ + l+  +++   +++l+l+  la++++++ a++++ 
  PHY93_16930|PHY93_16930  93 TAVLGIAWLIMYRLK--KNHLEKIFALMLVTNLASAVLVADAAHKGG 137
                              344444444444444..9******************99998887765 PP

>> DUF4401  Domain of unknown function (DUF4401)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.7    0.0064       6.4     237     275 ..       8      46 ..       3      50 .. 0.77
   2 ?    7.3   6.6    0.0025       2.5      17     110 ..      17     134 ..      16     135 .. 0.82

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.0064
                  DUF4401 237 lallslfaPglaaalllLllgfargsrvllglallalll 275
                              lal  +++ g ++al++L++gf +++  + ++++ +++ 
  PHY93_16930|PHY93_16930   8 LALNHFPIAGTMLALVVLVWGFLVKKDQIKIVGITLMII 46 
                              556667788888999999999999999999998887765 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.0025
                  DUF4401  17 lfllgflalllssllrseigalvvGllllaaAvallr.......................qkkeglfldqlalalslaGqalllfg 79 
                              +++l++++l+ + l++ + ++ +vG+ l+++++++                          +++ + +d   +a+ +++ +++++ 
  PHY93_16930|PHY93_16930  17 GTMLALVVLVWGFLVK-KDQIKIVGITLMIISALAGIvvaqtgdgaeeivehkplvtknlIHQHEEAADTAMIAIQITAVLGIAWL 101
                              5677777777667777.567777888888877776666788999999999999999999988899999999999999999999999 PP

                  DUF4401  80 laesldsssas..llllallslalavlfpdall 110
                              +   l+ + ++  ++l+++ +la avl+ da++
  PHY93_16930|PHY93_16930 102 IMYRLKKNHLEkiFALMLVTNLASAVLVADAAH 134
                              888888888777899999999******999987 PP

>> DUF3624  Protein of unknown function (DUF3624)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   0.5    0.0016       1.6      29      60 ..      20      50 ..      15      57 .. 0.79
   2 ?    4.9   0.6     0.036        36      27      61 ..      94     127 ..      85     134 .. 0.49

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.0016
                  DUF3624 29 svlswlvWwllfkdtpksvesialllaafafs 60
                               l+ lvW +l+k++  ++  i+l++++ a +
  PHY93_16930|PHY93_16930 20 LALVVLVWGFLVKKDQIKIVGITLMIIS-ALA 50
                             456789*****************98865.444 PP

  == domain 2  score: 4.9 bits;  conditional E-value: 0.036
                  DUF3624  27 vlsvlswlvWwllfkdtpksvesi.alllaa.fafsg 61 
                               +     ++W+++++ + +++e i al+l++ +a+++
  PHY93_16930|PHY93_16930  94 AVLG---IAWLIMYRLKKNHLEKIfALMLVTnLASAV 127
                              3333...455555555555555552333333034443 PP

>> Myco_arth_vir_N  Mycoplasma virulence signal region (Myco_arth_vir_N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   1.0     0.077        77       5      21 ..      32      50 ..      30      53 .. 0.86
   2 ?   10.4   0.8   0.00052      0.52       1      24 [.     103     127 ..     103     130 .. 0.92

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.077
          Myco_arth_vir_N  5 KKKKikI..ltlalvaaLl 21
                             KK  ikI  +tl ++ aL+
  PHY93_16930|PHY93_16930 32 KKDQIKIvgITLMIISALA 50
                             9999999667999999997 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 0.00052
          Myco_arth_vir_N   1 MsflKKKK.ikIltlalvaaLlaal 24 
                              M+ lKK+   kI  l lv+ L+ a+
  PHY93_16930|PHY93_16930 103 MYRLKKNHlEKIFALMLVTNLASAV 127
                              *******857************997 PP

>> DUF3754  Protein of unknown function (DUF3754)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.7   0.1    0.0065       6.5      67     130 ..      18      78 ..       8      84 .. 0.75
   2 ?    3.4   0.5      0.07        70      60     111 ..      87     138 ..      83     148 .. 0.75

  Alignments for each domain:
  == domain 1  score: 6.7 bits;  conditional E-value: 0.0065
                  DUF3754  67 aivglvavllkll.kaeklknklssliaaliavlalggfafrqyvkyknkkiryqklvaktLyfk 130
                              ++++lv++++ +l k++++    +++ ++l++++al+g+++ q     +  + ++ lv+k+L+ +
  PHY93_16930|PHY93_16930  18 TMLALVVLVWGFLvKKDQI----KIVGITLMIISALAGIVVAQTGDGAEEIVEHKPLVTKNLIHQ 78 
                              4556666666664455555....577777777788889999999999999999999999999876 PP

  == domain 2  score: 3.4 bits;  conditional E-value: 0.07
                  DUF3754  60 klllgvpaivglvavllkllkaeklknklssliaaliavlalggfafrqyvk 111
                              ++ ++++a++g++ +++  lk++ l++++  ++ + +a + l++ a+ +  +
  PHY93_16930|PHY93_16930  87 MIAIQITAVLGIAWLIMYRLKKNHLEKIFALMLVTNLASAVLVADAAHKGGQ 138
                              577899*******999998899999887777777777777776666655555 PP

>> DUF3784  Domain of unknown function (DUF3784)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.2   1.5    0.0028       2.8      52      93 ..      19      58 ..      10      59 .. 0.84
   2 ?    4.0   0.3     0.058        57      50      83 ..      93     126 ..      81     135 .. 0.68

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.0028
                  DUF3784 52 ligilflllgllsaiesealliialiviiiiviylivyankk 93
                             +++++ l+ g+l  ++++++ i+++ ++ii+++  iv+a++ 
  PHY93_16930|PHY93_16930 19 MLALVVLVWGFL--VKKDQIKIVGITLMIISALAGIVVAQTG 58
                             445667777777..9************************986 PP

  == domain 2  score: 4.0 bits;  conditional E-value: 0.058
                  DUF3784  50 llligilflllgllsaiesealliialiviiiiv 83 
                              + ++gi++l+++ l++ + e+++++ l+  ++++
  PHY93_16930|PHY93_16930  93 TAVLGIAWLIMYRLKKNHLEKIFALMLVTNLASA 126
                              5678888888888866666666665555544444 PP

>> Tmemb_14  Transmembrane proteins 14C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   8.1     0.067        67      28      88 ..      15     127 ..      14     130 .. 0.58

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.067
                 Tmemb_14  28 iaGlllGallllagyllsknkka.kelsl.................................................vislvlll 63 
                              iaG++l++++l+ g+l++k++ + + + l                                                  + l +++
  PHY93_16930|PHY93_16930  15 IAGTMLALVVLVWGFLVKKDQIKiVGITLmiisalagivvaqtgdgaeeivehkplvtknlihqheeaadtamiaiqiTAVLGIAW 100
                              68888888888888887766666644444445555555555555555555555555556666666666666655554344444555 PP

                 Tmemb_14  64 vmgkrllktr..kfmpaglvavlsalm 88 
                                ++rl k +  k++  +lv+ l+ ++
  PHY93_16930|PHY93_16930 101 LIMYRLKKNHleKIFALMLVTNLASAV 127
                              556666555566777777776555554 PP

>> CrgA  Cell division protein CrgA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   1.3         2   1.9e+03      36      36 ..      38      38 ..      12      58 .. 0.58
   2 ?   -0.4   0.2       1.2   1.2e+03      37      47 ..      39      50 ..      31      75 .. 0.65
   3 ?   11.8   0.3   0.00019      0.19      35      65 ..      87     117 ..      59     130 .. 0.71

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 2
                     CrgA 36 p 36
                             +
  PHY93_16930|PHY93_16930 38 I 38
                             1 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 1.2
                     CrgA 37 vmlglmllG.ll 47
                             v ++lm++  l+
  PHY93_16930|PHY93_16930 39 VGITLMIISaLA 50
                             334444443133 PP

  == domain 3  score: 11.8 bits;  conditional E-value: 0.00019
                     CrgA  35 vpvmlglmllGllwlvvyYlageeipfmael 65 
                              ++ +    +lG++wl++y l +++++ + +l
  PHY93_16930|PHY93_16930  87 MIAIQITAVLGIAWLIMYRLKKNHLEKIFAL 117
                              334445679*************987755444 PP

>> DUF2339  Predicted membrane protein (DUF2339)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.2   1.1    0.0008       0.8     595     627 ..      15      47 ..      12      54 .. 0.92
   2 ?    3.1   1.4     0.029        29     598     634 ..      94     130 ..      68     141 .. 0.47

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.0008
                  DUF2339 595 vlwlllavallllglrrgsralrlaGlaLlllv 627
                              ++ ++la+++l++g+++++ ++ ++G  L+++ 
  PHY93_16930|PHY93_16930  15 IAGTMLALVVLVWGFLVKKDQIKIVGITLMIIS 47 
                              57799*************************986 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.029
                  DUF2339 598 lllavallllglrrgsralrlaGlaLlllvvaKlFlv 634
                              ++l++a l+++++++++   + +l+L+   +  +++ 
  PHY93_16930|PHY93_16930  94 AVLGIAWLIMYRLKKNHLEKIFALMLVTNLASAVLVA 130
                              2333333333333333333333333333333333333 PP

>> Wzy_C  O-Antigen ligase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.5  10.8      0.21   2.1e+02      18      59 ..      14      71 ..       7     159 .. 0.70

  Alignments for each domain:
  == domain 1  score: 1.5 bits;  conditional E-value: 0.21
                    Wzy_C 18 giigllvalivlliifykrripfllllg.ilvgvilliilfv...............l 59
                             +i g ++al+vl++ f+ ++   +++ + ++++ +l+ i+++               +
  PHY93_16930|PHY93_16930 14 PIAGTMLALVVLVWGFLVKKDQIKIVGItLMIISALAGIVVAqtgdgaeeivehkplV 71
                             5788999999999999999998888888556655666666555555555555555442 PP

>> Gram_pos_anchor  LPXTG cell wall anchor motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.6   0.0    0.0036       3.6      18      40 ..      11      33 ..       9      35 .. 0.80
   2 ?   -1.6   1.9       2.9   2.9e+03      23      34 ..      39      50 ..      38      55 .. 0.60
   3 ?   -0.6   0.0       1.3   1.3e+03      26      39 ..      93     108 ..      83     110 .. 0.73

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.0036
                             XXXXXXXXXXXXXXXXXXXXXXX CS
          Gram_pos_anchor 18 ifltaaGllallggllLlvkrRK 40
                             + +++aG +++l+ l++++  +K
  PHY93_16930|PHY93_16930 11 NHFPIAGTMLALVVLVWGFLVKK 33
                             679************99665444 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 2.9
                             XXXXXXXXXXXX CS
          Gram_pos_anchor 23 aGllallggllL 34
                             +G+++++ ++l 
  PHY93_16930|PHY93_16930 39 VGITLMIISALA 50
                             676666666654 PP

  == domain 3  score: -0.6 bits;  conditional E-value: 1.3
                              XXXXXXXXX..XXXXX CS
          Gram_pos_anchor  26 lallggllL..lvkrR 39 
                              +a+lg + L  +  ++
  PHY93_16930|PHY93_16930  93 TAVLGIAWLimYRLKK 108
                              7888888888644444 PP

>> DUF4064  Protein of unknown function (DUF4064)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.6   5.8    0.0094       9.4      66     102 ..      15      53 ..       7      54 .. 0.84
   2 ?    4.0   9.2      0.06        60      10      98 ..      38     123 ..      36     128 .. 0.66

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.0094
                  DUF4064  66 vialiaivlgivgalllkknkk..vsGilfiiaailslf 102
                              +++  ++++ +v  +l+kk+    v+  l+ii+a+++++
  PHY93_16930|PHY93_16930  15 IAGTMLALVVLVWGFLVKKDQIkiVGITLMIISALAGIV 53 
                              5677889999999*****999998888899999988765 PP

  == domain 2  score: 4.0 bits;  conditional E-value: 0.06
                  DUF4064  10 lIGgilgillglllllflfllssgefsqelteeqalsgedasavleflstllivlgvialiaivlgivgalllkknkk...vsGil 92 
                              ++G+ l i+++l+++++    ++g+ ++e  e       ++++  +  ++   +++++  i++vlgi+ +++ + +k+   +  +l
  PHY93_16930|PHY93_16930  38 IVGITLMIISALAGIVV---AQTGDGAEEIVE---HKPLVTKNLIHQHEEAADTAMIAIQITAVLGIAWLIMYRLKKNhleKIFAL 117
                              77887777777777777...555555555544...445677778888888888888888888888888877776555555766666 PP

                  DUF4064  93 fiiaai 98 
                              ++++ +
  PHY93_16930|PHY93_16930 118 MLVTNL 123
                              666655 PP

>> DUF751  Protein of unknown function (DUF751)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.4   1.4       1.9   1.9e+03      37      48 ..      38      49 ..      15      57 .. 0.46
   2 ?   10.9   0.5   0.00057      0.57      13      49 ..      92     128 ..      91     130 .. 0.93

  Alignments for each domain:
  == domain 1  score: -0.4 bits;  conditional E-value: 1.9
                   DUF751 37 aialigllvggl 48
                              + ++++++++l
  PHY93_16930|PHY93_16930 38 IVGITLMIISAL 49
                             223333333333 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.00057
                   DUF751  13 itillGiflalfeplkpllknpvtaialigllvggla 49 
                              it++lGi++ ++ +lk+   +++ a +l+  l+++++
  PHY93_16930|PHY93_16930  92 ITAVLGIAWLIMYRLKKNHLEKIFALMLVTNLASAVL 128
                              9****************************99999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (165 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1177  (0.0656478); expected 358.6 (0.02)
Passed bias filter:                      594  (0.0331307); expected 358.6 (0.02)
Passed Vit filter:                        63  (0.00351386); expected 17.9 (0.001)
Passed Fwd filter:                        20  (0.00111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              18  [number of targets reported over threshold]
# CPU time: 0.53u 0.26s 00:00:00.79 Elapsed: 00:00:00.42
# Mc/sec: 1187.60
//
Query:       PHY93_20240|PHY93_20240  [L=471]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.1e-30  105.0  45.0    6.7e-30  104.6  45.0    1.1  1  Glyco_transf_22  Alg9-like mannosyltransferase family
    5.9e-06   26.6  12.4    5.9e-06   26.6  12.4    2.9  2  PMT_2            Dolichyl-phosphate-mannose-protein mannosylt


Domain annotation for each model (and alignments):
>> Glyco_transf_22  Alg9-like mannosyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  104.6  45.0   7.5e-34   6.7e-30       7     404 ..      14     385 ..       9     396 .. 0.87

  Alignments for each domain:
  == domain 1  score: 104.6 bits;  conditional E-value: 7.5e-34
          Glyco_transf_22   7 lalrlllalltqtsfdpDEffqslEva.hkl.vfgkgtltWEyspkygiRSylfllllalpyrllaelvadskiavlyapRlllal 90 
                              ++++ll ++++  +f  DE    l+++ ++l ++ + +l + +     +R++l +ll  +  ++++ +++ +  ++ ++ R + +l
  PHY93_20240|PHY93_20240  14 IIFHLLAVIFSIGFFRHDEQRELLQTVgYQLgFYDSSYLSFQF--HAHLRPWLQPLLYVWCSKIYSIFFDLNPNHLATLFRFVSSL 97 
                              689999999998899************6444377888999999..***************************************** PP

          Glyco_transf_22  91 lsalidyylfravcrky......gseiakialllslsswglfvfstrtfsnslemlltsialyllsellsrenksssnekylvavl 170
                              + +++ y+l++  ++++       +  +++ +++  + w+l +   rt    l+  +++  ly+l +        +++ + +++  
  PHY93_20240|PHY93_20240  98 FGISSLYVLYKTFEERFqetkndTK-NQEYYFFFAATLWFLPFLHARTSNENLCSSFFIFGLYYLAK--------KISMRDAFIAG 174
                              ****************999988544.489*************************************7........45667889999 PP

          Glyco_transf_22 171 liavlavliRptsallwlplvlflllrlvkkrsktflfliialvllvlllvlvlviliDslfYgkfvftplnflkyNvlsnlssly 256
                              ++  ++++ R  ++++++  vl +l  +++k s+  l    +++++ +ll+ +++ ++Ds++Yg+f+ftp+n +  N++++  +++
  PHY93_20240|PHY93_20240 175 MLLGISFILRFQMIVMISTSVLWFL--FFRKYSIKNL----LVLIFGFLLAGAISTALDSHYYGQFTFTPYNYFNVNIIQKYVDQF 254
                              99999******99999999999999..8887555552....222334444456789****************************** PP

          Glyco_transf_22 257 GvhPwyfYllqnlpnilgvlllavllgllvllsrkvsrlllllltilltLlvysllpHKElRFllpvlPlillsaavlltrlsres 342
                              G+ Pwy Y++q++   + +l l++++++l l  +k+ + +ll++++l ++lv sl+ HKE+RF++p + ++ ++ ++l+ +l+   
  PHY93_20240|PHY93_20240 255 GSSPWYAYFIQAFKDGVPPLSLFFIFTFLLL-WIKFPK-SLLTWITLPFFLVHSLIAHKEFRFIFPMVFFLPMIFTFLIMELN--- 335
                              ******************************9.345665.899**************************99999*******995... PP

          Glyco_transf_22 343 akvskklsllvllllfnvvlalllglvhqagvillvevmseleetkrknrkekketssvyvl 404
                               +v kk s ++l+ +fn+ l ++++l+  ++ +   ++ ++l ++k       + +++vyv+
  PHY93_20240|PHY93_20240 336 -LVVKK-SWVILFQVFNIPLLIYFSLIPASNLM---KYYEHLYYKK-------DLVEKVYVT 385
                              .55555.6999***************9999999...7777766666.......334555555 PP

>> PMT_2  Dolichyl-phosphate-mannose-protein mannosyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.6  12.4   6.6e-10   5.9e-06       9     150 ..      75     220 ..      65     226 .. 0.79
   2 ?   -2.3   6.1       0.5   4.5e+03      55     114 ..     292     355 ..     246     366 .. 0.58

  Alignments for each domain:
  == domain 1  score: 26.6 bits;  conditional E-value: 6.6e-10
                    PMT_2   9 llalftklfgf.selairlvsalagvltilllyllarrlfgkraallaalllavvplfvalsa..lftpdaplvllwalalylllr 91 
                              + ++f++l  +   + +r+vs l+g+ ++++ly++++++f+++   +    + +++  + + +  l    +   l+ +++++ l+ 
  PHY93_20240|PHY93_20240  75 IYSIFFDLNPNhLATLFRFVSSLFGISSLYVLYKTFEERFQETKNDTKNQEYYFFFAATLWFLpfLHARTSNENLCSSFFIFGLYY 160
                              67889999877788999************************999988888888888888888854333366677888888888888 PP

                    PMT_2  92 aleknklkywllagvlfGlgflsKytaallliaall.yllisarrilkekkpyl.alllal 150
                              +++k ++++ ++ag+l+G++f  ++ +++++ + +l +l+++ +  +k+  +++ + lla 
  PHY93_20240|PHY93_20240 161 LAKKISMRDAFIAGMLLGISFILRFQMIVMISTSVLwFLFFR-KYSIKNLLVLIfGFLLAG 220
                              8889999999***********************988455555.569999888885555554 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 0.5
                    PMT_2  55 aalllavvplfvalsa....lftpdaplvllwalalylllraleknklkywllagvlfGlgfls 114
                              + l + ++p+f++ s+    +f+   p+v+++ ++  +l++ l     k w+++  +f + +l+
  PHY93_20240|PHY93_20240 292 SLLTWITLPFFLVHSLiahkEFRFIFPMVFFLPMIFTFLIMELNLVVKKSWVILFQVFNIPLLI 355
                              3344444444444443334666666777777777777777777766666777776666655555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (471 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       990  (0.0552178); expected 358.6 (0.02)
Passed bias filter:                      295  (0.0164538); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.25s 00:00:00.83 Elapsed: 00:00:00.43
# Mc/sec: 3294.06
//
Query:       PHY93_20245|PHY93_20245  [L=555]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (555 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       321  (0.017904); expected 358.6 (0.02)
Passed bias filter:                      155  (0.00864521); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.62u 0.23s 00:00:00.85 Elapsed: 00:00:00.48
# Mc/sec: 3491.92
//
Query:       PHY93_20250|PHY93_20250  [L=301]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    2.6e-85  286.3   4.4    3.1e-85  286.0   4.4    1.0  1  S_4TM      SMODS-associating 4TM effector domain
     0.0066   15.3   0.5      0.019   13.7   0.1    1.8  2  DUF2207    Predicted membrane protein (DUF2207)
  ------ inclusion threshold ------
      0.099   11.8   0.2        1.5    8.0   0.1    2.0  2  CobD_Cbib  CobD/Cbib protein
       0.32   11.3   6.3        4.6    7.6   0.5    2.2  2  DUF1772    Domain of unknown function (DUF1772)


Domain annotation for each model (and alignments):
>> S_4TM  SMODS-associating 4TM effector domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  286.0   4.4   6.8e-89   3.1e-85       1     289 [.       2     288 ..       2     289 .. 0.98

  Alignments for each domain:
  == domain 1  score: 286.0 bits;  conditional E-value: 6.8e-89
                    S_4TM   1 neIrerQneeenlellaAqrqlYsrakrlqalrvilsvvlaivlsvlavlvpslktylallgllwllldvlvldrlqkkekekAAk 86 
                              n+I+ +Qn+e++l+ l AqrqlYs ak++ +++ ++s++l i l+v+a++  ++k+y al+g+ ++++d+++l++++k+ +++AA+
  PHY93_20250|PHY93_20250   2 NNIPLNQNKERHLQQLEAQRQLYSTAKKIFGFHSFVSLPLTISLAVIAAWCADIKPYTALWGIAVSFMDLIWLTPWTKRLRTRAAR 87 
                              79************************************************************************************ PP

                    S_4TM  87 iQeqFDtkvfdlpwneilagskideeeiarlakkykkkkkdeerlkdWYpeevedlprplavllCqrqNlsWdsrlrrryaklllf 172
                              iQe FD++v+++p +e++ g+++d+e i+++++ky++++++   +++WY   v++lp +la+l+Cqr+N++Wds++rr+ya++ ++
  PHY93_20250|PHY93_20250  88 IQEVFDCEVLEIPQDELRTGNPPDPELIKEQSEKYQRWASEIHPITNWYAVGVGELPMYLARLICQRSNCWWDSKQRRSYANTFMA 173
                              ************************************************************************************** PP

                    S_4TM 173 alvlwillvlvvgliknlslsdlllsvivpllpllllalkeyreqresakelerlkeeiesllndaasgkleeeelkeelrklQde 258
                               ++++++++l+v++++n s+++++  ++  llp++++  ++y ++ e+a++le++k  ie+ +++a ++k ++ e + ++r lQ e
  PHY93_20250|PHY93_20250 174 SAIFIFFVILIVAIAMNSSINSFI-LAFNTLLPVFIFSSRQYLDNIEAAERLENIKTYIERSWDRALKNK-NDVEATAMSRTLQGE 257
                              ************************.678899*************************************88.56679********** PP

                    S_4TM 259 iyqhRkssplipdwlYkrlrkkdeedmnaaa 289
                              iy++Rk+spl++d+++krlr+++e++mn++a
  PHY93_20250|PHY93_20250 258 IYDSRKRSPLVFDFIFKRLRNDYESQMNHGA 288
                              ****************************976 PP

>> DUF2207  Predicted membrane protein (DUF2207)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0     0.099   4.5e+02     194     226 ..      19      52 ..       4      90 .. 0.50
   2 !   13.7   0.1   4.3e-06     0.019     353     467 ..     118     246 ..     101     250 .. 0.62

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.099
                  DUF2207 194 qk.ntreraarlslallillilllilllllllll 226
                              ++ + ++ a++++  + ++++ l+i l++++ ++
  PHY93_20250|PHY93_20250  19 AQrQLYSTAKKIFGFHSFVSLPLTISLAVIAAWC 52 
                              3322233444444444444444444444444333 PP

  == domain 2  score: 13.7 bits;  conditional E-value: 4.3e-06
                  DUF2207 353 fkkalkkwksavkk......................kergyfdkkgkkklkklsalglgliilglilillallllvlllvfllill 416
                               ++++++w+s+++                       +++ ++d+k+++   + +++   +i+++++++++a+ +++  +++ +++l
  PHY93_20250|PHY93_20250 118 QSEKYQRWASEIHPitnwyavgvgelpmylarlicqRSNCWWDSKQRRS--YANTFMASAIFIFFVILIVAI-AMN--SSINSFIL 198
                              5677788888777778888888888888888888866677888775333..344444444444444333333.222..33333333 PP

                  DUF2207 417 lillliaiivlllfsrllgrrteeGaellakwkgFkkyLe...Dfsefkerppe 467
                               +  l+    +++f    +r   +  e+++++++ k y+e   D++  +++++e
  PHY93_20250|PHY93_20250 199 AFNTLLP---VFIF---SSRQYLDNIEAAERLENIKTYIErswDRALKNKNDVE 246
                              3333332...2222...1233456699999999999999999999988887665 PP

>> CobD_Cbib  CobD/Cbib protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   0.0     0.024   1.1e+02      38     100 ..      25      91 ..       9     105 .. 0.62
   2 ?    8.0   0.1   0.00033       1.5      29      99 ..     145     223 ..     124     253 .. 0.61

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.024
                CobD_Cbib  38 akkerlaGvllalllvllallvalllllla..laall..glvle.alllkltlalrsLleevrkvaka 100
                              ++++++ G+   + l+l++ l+++++  +     +++  g++++ + l++lt  ++ L++ + ++++ 
  PHY93_20250|PHY93_20250  25 STAKKIFGFHSFVSLPLTISLAVIAAWCADikP-YTAlwGIAVSfMDLIWLTPWTKRLRTRAARIQEV 91 
                              467888999888888888877666666544432.2223455555244677777777888877777665 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.00033
                CobD_Cbib  29 salekrl.rk.......akkerlaGvllalllvllallvalllllla.laallglvlealllkltlalrsLleevrkvak 99 
                                l +++ ++       ++++  a +++a ++ ++++++++++++ + ++++  l++++ll  ++++ r+ l+++++ ++
  PHY93_20250|PHY93_20250 145 MYLARLIcQRsncwwdsKQRRSYANTFMASAIFIFFVILIVAIAMNSsINSF-ILAFNTLLPVFIFSSRQYLDNIEAAER 223
                              4444444322344544222333344444443333333333333332223333.46999***********99999887654 PP

>> DUF1772  Domain of unknown function (DUF1772)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.6   0.5     0.001       4.6      24      81 ..      16      78 ..       3     127 .. 0.64
   2 ?    7.3   0.6    0.0012       5.4      52      96 ..     146     213 ..     104     252 .. 0.58

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.001
                  DUF1772 24 llkqwrrlfkrgkavfpp.....lallsalafaylaaraasrgarllylaaaallllsivpyT 81
                              l++ r+l++++k++f++     l l+++la+++++  + ++ ++l+ +a++ + l+ + p+T
  PHY93_20250|PHY93_20250 16 QLEAQRQLYSTAKKIFGFhsfvsLPLTISLAVIAAWCADIKPYTALWGIAVSFMDLIWLTPWT 78
                             456667889999999999777555566666665333333333333333333333223455555 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.0012
                  DUF1772  52 yla...........araasrgarllylaaaallllsivpyTllvmvPtNnkLaal............k 96 
                              yla            ++++r+ ++ ++a+a+ ++++i+++ ++++  +N+ ++a             +
  PHY93_20250|PHY93_20250 146 YLArlicqrsncwwDSKQRRSYANTFMASAIFIFFVILIVAIAMNSSINSFILAFntllpvfifssrQ 213
                              45566666776664444455555555454444666666677777777884333333444445555551 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (301 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1140  (0.0635841); expected 358.6 (0.02)
Passed bias filter:                      637  (0.035529); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.62u 0.25s 00:00:00.87 Elapsed: 00:00:00.47
# Mc/sec: 1931.00
//
Query:       PHY93_20255|PHY93_20255  [L=289]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      7e-14   52.3   0.0    1.3e-13   51.4   0.0    1.4  1  SMODS           Second Messenger Oligonucleotide or Dinucleot
  ------ inclusion threshold ------
       0.12   11.2   0.0       0.17   10.8   0.0    1.1  1  Cobalamin_bind  Eukaryotic cobalamin-binding protein


Domain annotation for each model (and alignments):
>> SMODS  Second Messenger Oligonucleotide or Dinucleotide Synthetase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.4   0.0   1.5e-17   1.3e-13       4     160 ..       6     157 ..       4     160 .. 0.87

  Alignments for each domain:
  == domain 1  score: 51.4 bits;  conditional E-value: 1.5e-17
                    SMODS   4 ssqFkeflsnielsqttkdsissrvkaitkrLnkdfrelkskiaesllvGSyardTaikpvsdkdmlfeldvdllvvvnevegdep 89 
                               + F++fl+++++ + + d ++s  ++i++rL+ df     ++++ +  GS++ +T+i + sd d l+ l+ d l + + +     
  PHY93_20255|PHY93_20255   6 DEGFRDFLTKLTPTTAESDAAKSHRNSIETRLKLDF----GAVKRFVRIGSFGNGTSISGYSDVDYLASLPTDKLSQNSGY----- 82 
                              678*********************************....578899999************************55554443..... PP

                    SMODS  90 sdlleklkkalkktyksseirqdrqvvvvel...neikidvvPavenkd....gsyeipdrnsgeWkktnPkeetewl 160
                                 l+k++++l+++ +s+ +r++ + vv  +      + ++vPa +  +    + yeipd ++g W+ ++P+++++ +
  PHY93_20255|PHY93_20255  83 --SLTKVRDSLDARFPSTGVRVNCPAVVCPFgtsASETTEIVPADYVGEsngfKIYEIPDCADG-WMRASPDAHNDYV 157
                              ..799*************************975556689****855444446679*******99.*********9876 PP

>> Cobalamin_bind  Eukaryotic cobalamin-binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   1.9e-05      0.17      21     107 ..     160     248 ..     154     276 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 1.9e-05
                              -----HHHHHHHHHHHGGGGG--STT-HHHHHHHHTSSEE-TCHHHHHHHHHHHHHHHHHS-SSS-...-HHHHHHHHHHHHHTT- CS
           Cobalamin_bind  21 vpeenselvesLqktllnsvetssienpsvllalrLsgaqnlekekellqklkeslqekllsslss...stGqLALyilALkssCe 103
                              ++++ +  v++L++ l  +++ ++++  s +l lr ++  ++e   ++   +k+ lq+ +++sl     ++G  A yi A ks   
  PHY93_20255|PHY93_20255 160 IDAKLNGKVKPLIRYLKAWKYYRQVPISSFYLELRIAKYAQTESSIDYAIDIKSVLQSLMNNSLADmqdPMGG-AGYIKACKSDAF 244
                              566667789****************************************999999998887777665556665.455666666555 PP

                              ---H CS
           Cobalamin_bind 104 dlde 107
                              ++d 
  PHY93_20255|PHY93_20255 245 KVDA 248
                              5555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (289 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       414  (0.0230911); expected 358.6 (0.02)
Passed bias filter:                      373  (0.0208043); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.21s 00:00:00.74 Elapsed: 00:00:00.43
# Mc/sec: 2010.62
//
Query:       PHY93_20260|PHY93_20260  [L=309]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.9e-15   56.8   0.0    7.4e-15   55.5   0.0    1.7  1  SMODS     Second Messenger Oligonucleotide or Dinucleotide Sy


Domain annotation for each model (and alignments):
>> SMODS  Second Messenger Oligonucleotide or Dinucleotide Synthetase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.5   0.0   4.2e-19   7.4e-15       4     164 .]       4     178 ..       1     178 [. 0.80

  Alignments for each domain:
  == domain 1  score: 55.5 bits;  conditional E-value: 4.2e-19
                    SMODS   4 ssqFkeflsnielsqttkdsissrvkaitkrLnkdfrelkskia.esl.lvGSyardTaikpvsdkdmlfeldvdllvvvnevegd 87 
                              ++   +flsn+el + + + +  r +a+++rL+++   ++ +++ es+ l GSy+rd  i+p+ d +    ldvd lvv+++++++
  PHY93_20260|PHY93_20260   4 EDSVLNFLSNLELTNRESTLVVARNNALRDRLRQNA-PFTLDTSkESVpLYGSYERDSQIRPKPDAK--WALDVDALVVLESSKKN 86 
                              667789*******999999***************99.55554440443268**************95..99*********998876 PP

                    SMODS  88 eps.........dlleklkkalkktyksseirqdrqvvvvel..neikidvvPavenkdgsyeipdrnsg.....eWkktnPkeet 157
                                s         +ll +++k+lk  y+  e++ d ++v+++    ++ki++ Pa++ k+g++ ip+++++     +W  tnP +  
  PHY93_20260|PHY93_20260  87 LDSfyhigdggwSLLGEVEKILK-GYQGLEVTLDAPCVTTKWstLKMKIEITPAFNAKGGGFLIPSSSAEwvwgnKWVHTNPLGDS 171
                              44322222222278999998875.6777799999999999885578999******************986655568999****999 PP

                    SMODS 158 ewlkekN 164
                              ++l++ N
  PHY93_20260|PHY93_20260 172 KALSDGN 178
                              9998877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (309 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       292  (0.0162865); expected 358.6 (0.02)
Passed bias filter:                      286  (0.0159518); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 2073.10
//
Query:       PHY93_20265|PHY93_20265  [L=80]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (80 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       607  (0.0338558); expected 358.6 (0.02)
Passed bias filter:                      414  (0.0230911); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.44
# Mc/sec: 551.17
//
Query:       PHY93_20270|PHY93_20270  [L=68]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.12   13.0   2.7       0.15   12.7   2.7    1.1  1  DUF3892   Protein of unknown function (DUF3892)


Domain annotation for each model (and alignments):
>> DUF3892  Protein of unknown function (DUF3892)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   2.7   8.3e-06      0.15       7      71 ..      10      68 .]       5      68 .] 0.80

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 8.3e-06
                  DUF3892  7 kdggnsherItevkgsntlstgekyskeeaislikngkkagVevvrskdGekYlrtkadgtetdN 71
                             k  ++s++r ++++   +++t ++ ++ + +s+ik+g+ + + +++  dG+    +++d++e++N
  PHY93_20270|PHY93_20270 10 K--ESSSGRNERFR---DNKTDKNMTRTDFVSEIKKGNYESYHIRKI-DGKDTPVSNPDKSESNN 68
                             4..67777777888...44444579**************76666655.8***************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (68 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       471  (0.0262703); expected 358.6 (0.02)
Passed bias filter:                      224  (0.0124937); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.24s 00:00:00.63 Elapsed: 00:00:00.42
# Mc/sec: 487.43
//
Query:       PHY93_20275|PHY93_20275  [L=160]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.073   13.7   0.1        0.1   13.2   0.1    1.3  1  AKNA      AT-hook-containing transcription factor


Domain annotation for each model (and alignments):
>> AKNA  AT-hook-containing transcription factor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.1   5.8e-06       0.1      42      73 ..      32      65 ..      16      85 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 5.8e-06
                     AKNA 42 releaeIyqlgqr..leeLkdqtdqlkqkveefs 73
                              ++++e+ q+++r  + eL+++++q+k ++e  s
  PHY93_20275|PHY93_20275 32 EKIFTELTQGRIRrsYPELSEHMNQHKYNTELPS 65
                             579********995567**********9987544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (160 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       565  (0.0315132); expected 358.6 (0.02)
Passed bias filter:                      471  (0.0262703); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.28s 00:00:00.71 Elapsed: 00:00:00.43
# Mc/sec: 1120.42
//
Query:       PHY93_20280|PHY93_20280  [L=373]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.4e-14   54.1   0.0    2.7e-14   53.1   0.0    1.5  1  Peptidase_M78  IrrE N-terminal-like domain
    1.1e-10   41.3   0.2      7e-10   38.8   0.0    2.4  2  HTH_19         Helix-turn-helix domain
    1.2e-09   38.1   0.2    4.9e-09   36.1   0.0    2.3  2  HTH_3          Helix-turn-helix
    1.3e-08   35.1   0.0    4.6e-08   33.3   0.0    2.0  1  HTH_31         Helix-turn-helix domain
    2.5e-05   24.6   0.0    8.7e-05   22.9   0.0    1.9  2  HTH_26         Cro/C1-type HTH DNA-binding domain
  ------ inclusion threshold ------
       0.15   12.6   0.0       0.33   11.5   0.0    1.5  1  Reprolysin_3   Metallo-peptidase family M12B Reprolysin-like


Domain annotation for each model (and alignments):
>> Peptidase_M78  IrrE N-terminal-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.1   0.0   9.1e-18   2.7e-14       3     120 ..     170     293 ..     168     296 .. 0.88

  Alignments for each domain:
  == domain 1  score: 53.1 bits;  conditional E-value: 9.1e-18
            Peptidase_M78   3 rlgidvlaldlgakdldgfrfdnsetkvivlnsn.hsptrqrftlaHElgHlllhherdkfreegdskaqerlereanafAaelll 87 
                              +l+i++l +dlg+++   ++ d  + + iv+n n + + r+rftlaHElgH++lh e  +      + ++   er  +afA ell+
  PHY93_20280|PHY93_20280 170 KLNIPILGTDLGESMWGFYSKDVYGFPLIVINVNnKFEGRKRFTLAHELGHYFLHNEFLE---IDTDGEKSNGERVVDAFAQELLV 252
                              68999999*****99888888888*********999*********************954...4444444555677899******* PP

            Peptidase_M78  88 Peeaflalaatqrkdlee........rlaeyfgVSkeavav 120
                              P   f++   + +  l +         la++f+VS+ ++ +
  PHY93_20280|PHY93_20280 253 PSNYFRKYYDEIGFSLLDkikpshvaMLASKFKVSFLMIVY 293
                              *****99999998888889*****************99976 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.8   0.0   2.4e-13     7e-10       2      60 ..       6      64 ..       6      68 .. 0.96
   2 ?   -2.9   0.0       2.3     7e+03      38      55 ..     299     316 ..     290     321 .. 0.65

  Alignments for each domain:
  == domain 1  score: 38.8 bits;  conditional E-value: 2.4e-13
                   HTH_19  2 erLkeaReelgltqeelaerlgis.rskisaiEngkkdvpsaelllkiaealgidleyll 60
                             e+Lk++R+ +gl+ +e+a+rlg s  + is iE+g++ ++s e+++k+++++++++  l+
  PHY93_20280|PHY93_20280  6 EKLKQLRIGKGLSGDEVAKRLGKSgNHVISRIESGET-KLSLEVFNKLCKIYEVSPGSLF 64
                             78**********************999**********.*****************98887 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 2.3
                   HTH_19  38 dvpsaelllkiaealgid 55 
                              ++++ ++++k+ ++++  
  PHY93_20280|PHY93_20280 299 KKITWDDYRKLDQYCKEK 316
                              367767777777777765 PP

>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.1   0.0   1.6e-12   4.9e-09       1      53 [.       8      61 ..       8      63 .. 0.96
   2 ?   -3.1   0.0       2.8   8.3e+03      39      52 ..     162     175 ..     161     176 .. 0.82

  Alignments for each domain:
  == domain 1  score: 36.1 bits;  conditional E-value: 1.6e-12
                             HHHHHHHTTHHHHHHHHHHT.SSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHH CS
                    HTH_3  1 lkelRkqlglsqeeLAeklG.vsrstisriEnGernPsletlkklakaLgvsld 53
                             lk+lR  +gls  e+A++lG      isriE+Ge++ sle+  kl+k + vs+ 
  PHY93_20280|PHY93_20280  8 LKQLRIGKGLSGDEVAKRLGkSGNHVISRIESGETKLSLEVFNKLCKIYEVSPG 61
                             89******************999999*************************986 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 2.8
                              HHHHHHHHHHTSEH CS
                    HTH_3  39 etlkklakaLgvsl 52 
                              +++ ++++ L++++
  PHY93_20280|PHY93_20280 162 DIVDLISNKLNIPI 175
                              678899999*9986 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.3   0.0   1.5e-11   4.6e-08       4      59 ..       6      61 ..       4      66 .. 0.91

  Alignments for each domain:
  == domain 1  score: 33.3 bits;  conditional E-value: 1.5e-11
                   HTH_31  4 alLralReraGLsqeevAerlgvsest.lsrlEqGrrgrpspavlealaralgldpa 59
                             + L++lR   GLs +evA+rlg s  + +sr+E+G+    s++v ++l+ ++ ++p 
  PHY93_20280|PHY93_20280  6 EKLKQLRIGKGLSGDEVAKRLGKSGNHvISRIESGET-KLSLEVFNKLCKIYEVSPG 61
                             679*******************9998747********.6***************874 PP

>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.9   0.0   2.9e-08   8.7e-05       1      59 [.       7      65 ..       7      67 .. 0.91
   2 ?   -2.8   0.0       2.9   8.8e+03      46      53 ..     360     367 ..     351     373 .] 0.45

  Alignments for each domain:
  == domain 1  score: 22.9 bits;  conditional E-value: 2.9e-08
                   HTH_26  1 kLrelmadrgitkseLargtgisaa.tlsrlvkgkpervsldtLdkiCdaLgctpgDLle 59
                             kL++l + +g++  e+a+++g s +  +sr+ +g+ + +sl++ +k+C++ +++pg L++
  PHY93_20280|PHY93_20280  7 KLKQLRIGKGLSGDEVAKRLGKSGNhVISRIESGE-TKLSLEVFNKLCKIYEVSPGSLFV 65
                             79999999*************8876267*******.6*******************9975 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 2.9
                   HTH_26  46 iCdaLgct 53 
                              + +  +++
  PHY93_20280|PHY93_20280 360 LSKLTEMD 367
                              33333333 PP

>> Reprolysin_3  Metallo-peptidase family M12B Reprolysin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00011      0.33      41     119 ..     136     222 ..     114     225 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00011
             Reprolysin_3  41 kdatealdelaevtae..aergqagyDlvhlftarde....sgvgGlAyvgsvcnsskkagvnsgssvlgkvga...dtvaHEiGH 117
                              + ++e+ + +a++ +      ++++ D+v l++++ +    ++ +G    g  ++  +++ ++ + +v++k++     t+aHE+GH
  PHY93_20280|PHY93_20280 136 NRQKEIAKDFAQSLRVrlGLDEEDELDIVDLISNKLNipilGTDLGESMWGFYSKDVYGFPLI-VINVNNKFEGrkrFTLAHELGH 220
                              344677777777777756345789999999999988899999999998889999999996666.3345566555567********* PP

             Reprolysin_3 118 nf 119
                               f
  PHY93_20280|PHY93_20280 221 YF 222
                              88 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (373 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       632  (0.0352502); expected 358.6 (0.02)
Passed bias filter:                      460  (0.0256568); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.57u 0.26s 00:00:00.83 Elapsed: 00:00:00.45
# Mc/sec: 2483.92
//
Query:       PHY93_20285|PHY93_20285  [L=303]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.057   12.7   0.2       0.22   10.7   0.1    1.9  2  DUF2357   Domain of unknown function (DUF2357)
      0.088   11.1   0.2       0.11   10.8   0.2    1.2  1  OATP      Organic Anion Transporter Polypeptide (OATP) family


Domain annotation for each model (and alignments):
>> DUF2357  Domain of unknown function (DUF2357)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.1   2.5e-05      0.22      11      73 ..      95     164 ..      91     181 .. 0.76
   2 ?   -1.4   0.0      0.12   1.1e+03      23      58 ..     199     234 ..     188     245 .. 0.74

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 2.5e-05
                  DUF2357  11 Gkstleieydrk.....kllkltveVfpt..Kldykedykalldeiddeyaelifellkkteqsarkska 73 
                              Gk+++ ie ++      k  ++ + V  +  Kldy+  ++++ ++i+++  e  f++l+   q + +s a
  PHY93_20285|PHY93_20285  95 GKLSFVIEGKKSlfsidKNGRMDIVVGDKkiKLDYAMTFEQMTNKISETLGEKHFSFLNFFIQDLHASLA 164
                              777777776666777776666666666541278************************9988888877744 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.12
                  DUF2357  23 kllkltveVfptKldykedykalldeiddeyaelif 58 
                                 k+ + V     + ++++k ++d++ d y ++ +
  PHY93_20285|PHY93_20285 199 IAKKVCAGVGVDGVTTQQQLKDIHDQLFDNYINICM 234
                              555666666666677889999999999999998877 PP

>> OATP  Organic Anion Transporter Polypeptide (OATP) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.2   1.2e-05      0.11     275     343 ..     143     211 ..      72     216 .. 0.84

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 1.2e-05
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     OATP 275 eelkslkdfpkalkrllknpifllvilssvfeillvaGfitFlpkylEtqFslsaseAnlltGvvvipg 343
                              +  ++  +f++ + + l   + +  +l+ ++++l+++G+++   kyl  +F  s+  A+ + + v + g
  PHY93_20285|PHY93_20285 143 TLGEKHFSFLNFFIQDLHASLAVAATLAIITTALIASGVYVLYGKYLKLEFTSSTEIAKKVCAGVGVDG 211
                              5677778899999999999**************************************999888877765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (303 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       894  (0.0498633); expected 358.6 (0.02)
Passed bias filter:                      526  (0.0293379); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.27s 00:00:00.84 Elapsed: 00:00:00.47
# Mc/sec: 1944.34
//
Query:       PHY93_16935|PHY93_16935  [L=50]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (50 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       365  (0.0203581); expected 358.6 (0.02)
Passed bias filter:                      308  (0.0171789); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.26s 00:00:00.65 Elapsed: 00:00:00.42
# Mc/sec: 356.98
//
Query:       PHY93_20290|PHY93_20290  [L=448]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (448 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       608  (0.0339115); expected 358.6 (0.02)
Passed bias filter:                      273  (0.0152267); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.58u 0.26s 00:00:00.84 Elapsed: 00:00:00.48
# Mc/sec: 2834.98
//
Query:       PHY93_20295|PHY93_20295  [L=289]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (289 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       429  (0.0239277); expected 358.6 (0.02)
Passed bias filter:                      409  (0.0228122); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 1929.62
//
Query:       PHY93_20300|PHY93_20300  [L=462]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
   2.1e-104  349.5   2.6   2.8e-104  349.1   2.6    1.1  1  Glyco_hydro_1   Glycosyl hydrolase family 1
    0.00086   18.7   0.4     0.0042   16.5   0.0    2.1  3  Glyco_hydro_42  Beta-galactosidase
     0.0062   16.1   1.0       0.12   11.9   0.1    2.8  3  Glyco_hydro_cc  Glycosyl hydrolase catalytic core
  ------ inclusion threshold ------
      0.039   13.6   0.0      0.064   12.9   0.0    1.3  1  Endonuclease_1  Endonuclease I


Domain annotation for each model (and alignments):
>> Glyco_hydro_1  Glycosyl hydrolase family 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  349.1   2.6  6.2e-108  2.8e-104       4     452 ..      40     458 ..      38     459 .. 0.92

  Alignments for each domain:
  == domain 1  score: 349.1 bits;  conditional E-value: 6.2e-108
                              GS-TT-EEEEE--HHHHH--TTSTT---BHHHHHHHH.GGGSTTS---SSTT-HHHHHHHHHHHHHHTT-SEEEEE--HHHHSTTS CS
            Glyco_hydro_1   4 tfpedFlwgaataayqiEGawnedGkgesiwDtftet.pgkvlegsngdvacdsYhrykeDvallkelgvkayrfSisWpRilPkG 88 
                              +fp +F w +ataa+qiEG+ ++       w ++ ++ p k+ +++n+ +a+d+++r++eD +ll++lgvk+yrfSi W+Ri P+ 
  PHY93_20300|PHY93_20300  40 HFPRNFKWCVATAAHQIEGGNEN-----NDWWEWEHIrPSKIKNEENSGLATDHWNRVPEDTKLLNDLGVKQYRFSIEWSRIEPEE 120
                              6*****************97654.....456668887699999*****************************************96 PP

                              TT---HHHHHHHHHHHHHHHHTT-EEEEEEESS--BHHHHHH-GGG-SHHHHHHHHHHHHHHHHHTTT--EEEEEE-HHHHHHHHH CS
            Glyco_hydro_1  89 egeinekGlayYerLidelleagieplvTlyHwdlPqaLqdeGgwenrsiidafkeyaevvfkrfgdkvklwlTfnEpnvvallgy 174
                               g  n + +++Y++ ++el ++gi p+vTl+H+  P ++ + Ggw+n +  ++f ++ ++v +++g+ ++ w+TfnEp+v+   gy
  PHY93_20300|PHY93_20300 121 -GVFNLEAINHYKNELNELRKYGIAPMVTLHHFTSPLWFAKMGGWSNADSPNKFLNFVKFVNQKLGKNIEQWITFNEPMVMIGGGY 205
                              .************************************************************************************* PP

                              TSS-STT-S-TTTHHHHHHHHHHHHHHHHHHHHHHHTTT-EEEEEEEEEEEEESSSSHHHHHHHHHHHHHHTHH.HHHHHHHSS-- CS
            Glyco_hydro_1 175 ltgefaPgkkdleaayeaaHnlllaharavklykevaqkgkigivlnlslaeplseseedkeaaeraleflngw.fldpvvkGdYp 259
                              +tg+f+Pg kd+++++    n+l+ah+ a+k  ++ ++k+ +gi+++l+ ++++++ ++ +  ++++l+++ +w fl+++ +G+ +
  PHY93_20300|PHY93_20300 206 VTGVFPPGIKDWNQTILPLRNILIAHSLAYKELHK-NKKALVGIAHHLRIMDAYNKFNPIECFMAKKLSLAFNWtFLNALKTGKIS 290
                              *******************************9976.57999*************9988877666666666666747888888***9 PP

                              HHHHHHHGGG..S----HHHHHHHTT--SEEEEEEEEEEEEEE--...-STT---SSGGGGG-SBSS-B-SSSS-B-HHHHHHHHH CS
            Glyco_hydro_1 260 eemkellrergalpeiteedkellkgkadflglnyYtsrlvknkeseeaslskteekkleeevdpslpktdigwiiepeglrklle 345
                               ++ ++++          e+  +lk+++df+g+nyYt++lvk ++ +++ ++           +++ p +d +w+i+pegl+++l+
  PHY93_20300|PHY93_20300 291 LYIPTKIEYV--------EEIPQLKDTQDFIGVNYYTRDLVKFNPLSKEPFTV--------VANNKSPASDLHWEIYPEGLYSILK 360
                              9999999888........788899*********************44433333........33344689***************** PP

                              HHHHTS----EEEEE----EE-BSSSHHH--HHHHHHHHHHHHHHHHHHHTT--EEEEEEE-SB----GGGTTSEE--SEEEETTT CS
            Glyco_hydro_1 346 llkkeYqklpiyiteNGlgakdeieegkveDdkRidYlkehlnevkkaiedgvdlkgYvawsllDnfewaegyskrfGlvyvdrne 431
                               ++k+++klpiyiteNG++++         D+ R ++lk+hl+++ +ai++g++++gY+ wsl+Dnfewaeg++ rfGl+ vd ++
  PHY93_20300|PHY93_20300 361 EVNKKFKKLPIYITENGIADHS--------DSLRSNFLKTHLQKIYRAINEGINVQGYCHWSLIDNFEWAEGFTPRFGLYEVD-YK 437
                              ******************9876........99***************************************************.9* PP

                              TTEEEE-HHHHHHHHHHH-SS CS
            Glyco_hydro_1 432 tleRtpkkSakwykeviekng 452
                              + +Rtp++Sa  yke+i+kng
  PHY93_20300|PHY93_20300 438 SFKRTPRESALLYKEIIAKNG 458
                              ******************997 PP

>> Glyco_hydro_42  Beta-galactosidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   9.5e-07    0.0042      10      78 ..      90     160 ..      84     162 .. 0.84
   2 ?   -0.7   0.0      0.16   7.1e+02     199     299 ..     231     341 ..     197     353 .. 0.52
   3 ?   -2.8   0.0      0.69   3.1e+03     113     165 ..     356     403 ..     343     419 .. 0.59

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 9.5e-07
                              CHHHHHHHHHHHHT--EEEE-TT-HHHH-SBTTB---HH...HHHHHHHHHCTT-EEEEE-STTS--HHHHH CS
           Glyco_hydro_42  10 eaweedirlmkeagvnvvrlgefaWaklePeegkydFew...LdevldllekagikviLatptaapPaWlvk 78 
                              +++ ed +l++ +gv+  r  ++ W+++ePeeg ++ e     ++ l+ l k gi  ++     + P W++k
  PHY93_20300|PHY93_20300  90 NRVPEDTKLLNDLGVKQYR-FSIEWSRIEPEEGVFNLEAinhYKNELNELRKYGIAPMVTLHHFTSPLWFAK 160
                              45789**************.5678**************9444556699999999999999999999999976 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.16
                              HHHHHHHHHH.HHHHHHHHHHHHHHHHHSTT-EEE-EE-TT.......--SS-HHHHGG.GSSSEEEEE-HH..---HHHHH-TTH CS
           Glyco_hydro_42 199 kildykrFss.dqilefvkaeaeilreyspdipvttnfmgs......afkdldyvklak.eldivswdsYpt..rskeekeeklde 274
                              ++l yk  ++ ++ l  + ++ +i+ +y++  p+   fm++      ++++l++ k +k  l i +  +Y+    + +++++    
  PHY93_20300|PHY93_20300 231 HSLAYKELHKnKKALVGIAHHLRIMDAYNKFNPIE-CFMAKklslafNWTFLNALKTGKiSLYIPTKIEYVEeiPQLKDTQDFIGV 315
                              44555443320333333444555555555555554.44444344444444444444443233444444555544344444445555 PP

                              HHHHHHHHHHH.TTT-.EEEEEE--S CS
           Glyco_hydro_42 275 lalkhdlyrsl.kkgkpflvmEqqps 299
                               ++  dl++    +++pf+v+ ++ s
  PHY93_20300|PHY93_20300 316 NYYTRDLVKFNpLSKEPFTVVANNKS 341
                              56666666665556666666655544 PP

  == domain 3  score: -2.8 bits;  conditional E-value: 0.69
                              HHHHHHHHHHHTT-TTEEEEE-SSSTTTTS--SHHHHHHH.HHHHHHHHSSHHH CS
           Glyco_hydro_42 113 akivealaerYkdhpavilwhidnEygchecycetceeaF.rkwlkekYgtide 165
                              + i +++ +++k+ p  i   ++n     ++++++ +++F ++ l++ Y+ i+e
  PHY93_20300|PHY93_20300 356 YSILKEVNKKFKKLPIYI---TENG--I-ADHSDSLRSNFlKTHLQKIYRAINE 403
                              555555555555544332...3333..3.5677777777755677777776665 PP

>> Glyco_hydro_cc  Glycosyl hydrolase catalytic core
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.0     0.043   1.9e+02      54      77 ..     174     197 ..     153     226 .. 0.80
   2 ?   -1.5   0.0      0.33   1.5e+03      17      47 ..     268     307 ..     256     319 .. 0.67
   3 !   11.9   0.1   2.8e-05      0.12     143     211 ..     346     414 ..     331     423 .. 0.84

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.043
           Glyco_hydro_cc  54 tdalanvksaakenskylLgFNeP 77 
                               ++++ v++   +n++  ++FNeP
  PHY93_20300|PHY93_20300 174 LNFVKFVNQKLGKNIEQWITFNEP 197
                              35666677778999*********9 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.33
           Glyco_hydro_cc  17 ksskisWyYnwsskpsselssaa.........lefvPmlw 47 
                              + +k+s ++nw+  +  ++ + +         +e +P l 
  PHY93_20300|PHY93_20300 268 MAKKLSLAFNWTFLNALKTGKISlyiptkieyVEEIPQLK 307
                              7789999999999887777666655666655555555554 PP

  == domain 3  score: 11.9 bits;  conditional E-value: 2.8e-05
           Glyco_hydro_cc 143 vHwYkgdfeelkehieelheayn.kpiWvTEfalqsesgdasqeetkeflnevlawldsqeyVeryawfg 211
                              +Hw     e+l + ++e++++++ +pi++TE ++ ++s++  ++  k+ l+++ + +++  +V+ y+  +
  PHY93_20300|PHY93_20300 346 LHWE-IYPEGLYSILKEVNKKFKkLPIYITENGIADHSDSLRSNFLKTHLQKIYRAINEGINVQGYCHWS 414
                              5665.557889999*********9*********9988888888889999999999999999999998765 PP

>> Endonuclease_1  Endonuclease I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   1.4e-05     0.064      57     108 ..      49      99 ..      23     132 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 1.4e-05
           Endonuclease_1  57 sftygtnqcgstkqegecynrEHivPasvfgeqrqpmesDahhvvptdgevN 108
                               +t +++  g  +++++ +++EHi P  + +e+++ + +D ++ vp d +  
  PHY93_20300|PHY93_20300  49 VATAAHQIEG-GNENNDWWEWEHIRPSKIKNEENSGLATDHWNRVPEDTKLL 99 
                              4444444444.5677788***************************9998864 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (462 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       471  (0.0262703); expected 358.6 (0.02)
Passed bias filter:                      373  (0.0208043); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.61u 0.27s 00:00:00.88 Elapsed: 00:00:00.47
# Mc/sec: 2958.99
//
Query:       PHY93_20305|PHY93_20305  [L=100]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.04   13.7   0.0      0.045   13.5   0.0    1.1  1  DUF1028   Family of unknown function (DUF1028)


Domain annotation for each model (and alignments):
>> DUF1028  Family of unknown function (DUF1028)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   2.5e-06     0.045     120     169 ..      10      62 ..       1      76 [. 0.81

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 2.5e-06
                              -TCHHHHHHHHH........S-HHHHHHHHHHHHHHT--------EEEEEEEE CS
                  DUF1028 120 geevleamaeafeateg...epLaerLlaALeaGeaaGGDkrgrqSAallVvr 169
                              +++vle++ ++f++ ++   ++ a ++l+ L+   + GG+k++  SA +++ +
  PHY93_20305|PHY93_20305  10 EAQVLEKTLDEFHQVSAqseKETACKMLEILNYITKIGGEKKQFSSAQIVIDS 62 
                              57999*******77444456899**************************9988 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (100 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       948  (0.0528752); expected 358.6 (0.02)
Passed bias filter:                      606  (0.0338); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.45
# Mc/sec: 662.45
//
Query:       PHY93_12755|PHY93_12755  [L=372]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.5e-07   30.0   0.1      0.031   14.3   0.0    2.5  2  AAA_14    AAA domain
    1.2e-06   28.7   0.3    2.2e-06   27.8   0.3    1.4  1  ATPase_2  ATPase domain predominantly from Archaea
    0.00062   20.2   0.0      0.002   18.6   0.0    1.9  1  AAA_16    AAA ATPase domain
     0.0046   16.1   0.0      0.018   14.1   0.0    1.8  2  T2SSE     Type II/IV secretion system protein
     0.0077   16.6   0.1      0.028   14.8   0.0    1.9  2  AAA_19    AAA domain
  ------ inclusion threshold ------
      0.029   14.6   0.1       0.19   12.0   0.0    2.3  2  AAA_22    AAA domain
       0.11   12.8   0.0       0.23   11.7   0.0    1.6  1  Roc       Ras of Complex, Roc, domain of DAPkinase
       0.11   12.6   0.0       0.32   11.1   0.0    1.8  2  MMR_HSR1  50S ribosome-binding GTPase
       0.15   11.7   0.0       0.27   10.9   0.0    1.4  1  AAA_24    AAA domain


Domain annotation for each model (and alignments):
>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.3   0.0   1.6e-05     0.031       5      80 ..      35     128 ..      31     135 .. 0.64
   2 !   13.8   0.0   2.2e-05     0.044      47     107 ..     138     200 ..     125     227 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.6e-05
                   AAA_14   5 lvitGaRrvGKTtllkqlikell...vkkesilyinldderd................kkladpe.....kllelileklkeekkt 66 
                              +vi G R +GKT l+k+ i   +    kk+ +l+++l + +d                +     +     +ll++ +e++  + + 
  PHY93_12755|PHY93_12755  35 VVIYGRRNSGKTSLVKNAIIPWFetkNKKSFVLFVDLMEVKDvvsiherirvgferafS-----KyfpakSLLKAAMEMVG-SFRP 114
                              89****************98888875566667778888877766665554444332221.....12222244555555433.3667 PP

                   AAA_14  67 ylflDEiqevpewe 80 
                              ++ lDE   +p+++
  PHY93_12755|PHY93_12755 115 MVNLDELTGAPQLS 128
                              77777777776665 PP

  == domain 2  score: 13.8 bits;  conditional E-value: 2.2e-05
                   AAA_14  47 adpekllelileklkeekktylflDEiqev...pewekalkslvdegknldvivtGSnskllsk 107
                              + + ++ ++i +k++  ++ +++lDE q v   +e++   +++++e + + +i+ GS++ +l  
  PHY93_12755|PHY93_12755 138 S-FVDIFSIIVKKISLTHQVLIVLDEFQDValvSEAQGLFRQVFQEFEAGALIIMGSKQHMLAD 200
                              3.336788888886556899********986668899999999999999**********99965 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.8   0.3   1.1e-09   2.2e-06      23     150 ..      35     184 ..      26     198 .. 0.68

  Alignments for each domain:
  == domain 1  score: 27.8 bits;  conditional E-value: 1.1e-09
                 ATPase_2  23 yfiYGpegsGKtaLlkeiienl.edkdk..yviyyialreesiskldefie...eeeekkklekal.................... 82 
                              ++iYG+++sGKt+L+k++i    e k+k   v++++ ++ ++  ++ e i+   e   +k++  +                     
  PHY93_12755|PHY93_12755  35 VVIYGRRNSGKTSLVKNAIIPWfETKNKksFVLFVDLMEVKDVVSIHERIRvgfERAFSKYFPAKSllkaamemvgsfrpmvnlde 120
                              79**************9886543444333378999999999999999988877744444433333367777899999999777644 PP

                 ATPase_2  83 giavpkaeleeilkeksklvfkaielllekikkkgkkiiiiiDelqklidlglngaellvkeLlnlie 150
                              ++  p+ +l ei+k+++      ++ + +ki+ +  ++ i++De+q +    + +a+ l  + ++ +e
  PHY93_12755|PHY93_12755 121 LTGAPQLSL-EISKQRTISFVDIFSIIVKKISLT-HQVLIVLDEFQDVA--LVSEAQGLFRQVFQEFE 184
                              333333333.343333334344444444555444.67**********99..66667878777777665 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.0   9.9e-07     0.002      27     151 ..      35     170 ..      25     191 .. 0.64

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 9.9e-07
                   AAA_16  27 vllsGesGvGKsslvrellralekd................ggiflrgkcdql.esaipy...salaqalareellrqlldeaesa 92 
                              v+++G + +GK+slv+ +  ++ ++                +        + + ++ i+     a+ +++ +++ll++  ++  s 
  PHY93_12755|PHY93_12755  35 VVIYGRRNSGKTSLVKNAIIPWFETknkksfvlfvdlmevkD--------VVSiHERIRVgfeRAFSKYFPAKSLLKAAMEMVGS- 111
                              89*************665555555556644333333332221........11122222224433388888888888888777444. PP

                   AAA_16  93 eleawrekleealaavpelagaea....srllellkrllallsrderplvlvlDdlqwadeas 151
                                   +   +++l+ +p+l+ +++     ++ + ++ +++++s   +++++vlD++q++   s
  PHY93_12755|PHY93_12755 112 ---FRPMVNLDELTGAPQLSLEISkqrtISFVDIFSIIVKKISL-THQVLIVLDEFQDVALVS 170
                              ...33333344455677788888888889**********99999.566*********765533 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.1   0.0   9.2e-06     0.018     119     182 ..      22      83 ..       2     110 .. 0.72
   2 ?   -0.8   0.0      0.31   6.2e+02      31      73 ..     245     287 ..     235     354 .. 0.62

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 9.2e-06
                    T2SSE 119 aevlrkavrerglilvsGgTgsGKttll.yallkeinks.derivtvEDpvEiqleganqvqlnak 182
                              + +l+ka+ ++  +++ G   sGKt l+ +a++ +++++ ++ +v+  D +E++     +v+++++
  PHY93_12755|PHY93_12755  22 KIFLEKAILAHEKVVIYGRRNSGKTSLVkNAIIPWFETKnKKSFVLFVDLMEVKD----VVSIHER 83 
                              459**********************9998********9978999**99*999975....3333333 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 0.31
                    T2SSE  31 vdgielreveelekaalerlisriaal.akldiseerplqdarl 73 
                              v   el+++ + +++a++ + ++++al + ++is+e + ++  l
  PHY93_12755|PHY93_12755 245 VCT-ELQDLLFRDPEAINIVCQNLQALgTVKKISSEMVRLQIDL 287
                              444.5566666666666666666655412344555443333333 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.0   1.4e-05     0.028       8     136 ..      30     192 ..      25     198 .. 0.68
   2 ?   -2.5   0.0       2.9   5.8e+03      31      61 ..     246     276 ..     241     311 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 1.4e-05
                   AAA_19   8 lkekvllvtaGpGtGKTrvlkhivallvelggvkpeeillvaftgrAakelrerlaalgae.......atTiHrlal......... 77 
                              l+++ +++ +   +GKT ++k ++  + e+++ k   + +  +  + +  ++er+++  ++       a+ + + a+         
  PHY93_12755|PHY93_12755  30 LAHEKVVIYGRRNSGKTSLVKNAIIPWFETKNKKSFVLFVDLMEVKDVVSIHERIRVGFERafskyfpAKSLLKAAMemvgsfrpm 115
                              56667788888889999999999888888888776666666677788888999885544447888888777777777888888888 PP

                   AAA_19  78 .............ldfddlltealelle..............eaeeekklqeeellivDEfqdvd..elqyrLlkallgekkk..l 132
                                           l             e                 ++  l+++ l++ DEfqdv     ++ L++++++e +   l
  PHY93_12755|PHY93_12755 116 vnldeltgapqlsL-------------EiskqrtisfvdifsIIVKKISLTHQVLIVLDEFQDVAlvSEAQGLFRQVFQEFEAgaL 188
                              66666666666441.............2333333333336653345667767779*********98778899*****965443347 PP

                   AAA_19 133 llvG 136
                              +++G
  PHY93_12755|PHY93_12755 189 IIMG 192
                              7766 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 2.9
                   AAA_19  31 vallvelggvkpeeillvaftgrAakelrer 61 
                              +++l++l  ++pe i +v+ + +A   +++ 
  PHY93_12755|PHY93_12755 246 CTELQDLLFRDPEAINIVCQNLQALGTVKKI 276
                              5667777778888888888888887776653 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   9.6e-05      0.19       8     105 ..      35     170 ..      32     196 .. 0.79
   2 ?   -1.7   0.0       1.6   3.2e+03      38      80 ..     255     298 ..     226     313 .. 0.54

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 9.6e-05
                   AAA_22   8 lvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsstsskdllrellralglelka....................... 70 
                              +v++G   +GKT l+++       + + +++++ v+fv+l + ++  ++ +++   +++  ++                       
  PHY93_12755|PHY93_12755  35 VVIYGRRNSGKTSLVKNAIIP---WFETKNKKSFVLFVDLMEVKDVVSIHERIRVGFERAFSKyfpaksllkaamemvgsfrpmvn 117
                              589***********9986653...445666899999**********************9888899999999999999999999999 PP

                   AAA_22  71 ..............erlsseellealeqalrarav..ielliiDEaqhlr..s 105
                                            + +++  +++ +   +++ +   ++l+++DE+q +   s
  PHY93_12755|PHY93_12755 118 ldeltgapqlsleiSKQRTISFVDIFSIIVKKISLthQVLIVLDEFQDVAlvS 170
                              9999999888888855555555555555555555566699999**99985442 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 1.6
                   AAA_22  38 erpevvfvtlpsst...sskdl.lrellralglelkaerlsseelle 80 
                              ++pe + + ++++    + k++  +++  +++l  +a   +s+++ +
  PHY93_12755|PHY93_12755 255 RDPEAINIVCQNLQalgTVKKIsSEMVRLQIDLTIEA---RSSRFEQ 298
                              5566665555555444477777555555555555555...4444444 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00012      0.23       1      32 [.      34      65 ..      34      86 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00012
                             EEEEESSTTSSHHHHHHCHCT-CCC-EEETTT CS
                      Roc  1 KvvlvGdsgvGKtsllkrfvedkfsekeksti 32
                             Kvv+ G  ++GKtsl+k+ +   f++k+k+ +
  PHY93_12755|PHY93_12755 34 KVVIYGRRNSGKTSLVKNAIIPWFETKNKKSF 65
                             99****************99999998877654 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   0.00016      0.32       1      19 [.      34      52 ..      34      94 .. 0.86
   2 ?   -2.0   0.0       1.9   3.7e+03      45      71 ..     134     157 ..      99     187 .. 0.65

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00016
                             EEEEEESTTSSHHHHHHHH CS
                 MMR_HSR1  1 evaivGrpNvGKStLinal 19
                             +v+i+Gr N+GK++L++  
  PHY93_12755|PHY93_12755 34 KVVIYGRRNSGKTSLVKNA 52
                             699************9754 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 1.9
                              TEEEEEEECGGCSSHHHHHHHHHHHHH CS
                 MMR_HSR1  45 gkeielvDtpGliegaseekglgkafl 71 
                              ++ i +vD+  +i    ++ +l++++l
  PHY93_12755|PHY93_12755 134 QRTISFVDIFSIIV---KKISLTHQVL 157
                              35677777766554...2224444433 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   0.00013      0.27       4      23 ..      34      63 ..      31      89 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00013
                   AAA_24  4 kiliyGpsgiGKTtlakel..........g 23
                             k++iyG   +GKT+l+k++          +
  PHY93_12755|PHY93_12755 34 KVVIYGRRNSGKTSLVKNAiipwfetknkK 63
                             89***************9966666655433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (372 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       511  (0.0285013); expected 358.6 (0.02)
Passed bias filter:                      385  (0.0214736); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.61u 0.28s 00:00:00.89 Elapsed: 00:00:00.48
# Mc/sec: 2331.90
//
Query:       PHY93_12760|PHY93_12760  [L=586]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.1e-09   38.2   0.0    1.8e-09   37.6   0.0    1.3  1  Hepar_II_III  Heparinase II/III-like protein
     0.0067   15.0   9.7      0.063   11.8   9.7    2.2  1  DUF4962       Domain of unknown function (DUF4962)


Domain annotation for each model (and alignments):
>> Hepar_II_III  Heparinase II/III-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.6   0.0     2e-13   1.8e-09       8     174 ..     351     518 ..     344     566 .. 0.77

  Alignments for each domain:
  == domain 1  score: 37.6 bits;  conditional E-value: 2e-13
                              EETTTTEEEEES.....T-EEEEEEEECTCTTB.CTTS-S-TTEEEEEETTEESS---C-SSTTT........HHHHHHHTSGGGS CS
             Hepar_II_III   8 afpdsGyavlra.....gatvlvvdagppgpgdlsghaHaDtLsfelssggqrlivdcGtytygg........pewrnaarstaaH 80 
                              +f+++ +  +r+     +a ++ ++ g       ++h+H D +sf+   +gqr+  d G  +y+         ++w+        H
  PHY93_12760|PHY93_12760 351 LFKSIDVSFFRSswtdsEAQFVGFKGGDNK----ANHSHLDLGSFVYDLAGQRWAFDLGPDDYNLpgyfdrkkGRWNYLKLINSGH 432
                              556666666666666556677778888888....*****************************9999999**999*********** PP

                              SSEEETTBS--HCCCHHSCCEEEEEEEEEESSSEEEEEEEEEEET.TTTEEEEEEEEEETTTEEEEEEEEECSEEEEEEEEEEEES CS
             Hepar_II_III  81 NTlvvdgksssrfagkfrlgrraevereeeeggvellaaehdgyaapfgvvhrRtllsldgeslrveDslegsgehepfalrfhlh 166
                              NTl+++++++     + ++++ +++  +e +  + ++    ++y   +  +  R +  l+  +++++D++ +++++  +++ +++ 
  PHY93_12760|PHY93_12760 433 NTLTINDENQK----TTAAAPILKFSEVEPNPFAVVD--LKEAY-GAHVESAKRGIKILSAAQILIQDEIIPKTGES-LDIKWNML 510
                              ********855....3333444455555344444444..35666.5577778888888999***************9.******98 PP

                              TTECEEEE CS
             Hepar_II_III 167 pdvevslg 174
                              ++ +++  
  PHY93_12760|PHY93_12760 511 TKAKIKIA 518
                              77755544 PP

>> DUF4962  Domain of unknown function (DUF4962)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.8   9.7     7e-06     0.063     136     448 ..      28     322 ..      15     341 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 7e-06
                  DUF4962 136 eHPrvlllkkewedfikknkdnpeakaylekaekllkkplkklereidttgvkklknevqkkslltresrkivdkeeanvealvra 221
                              +HPr+++++++ +++ +   +++  k + e+ ek  kk l++++ e +  g + l    q +++l+             + +l+  
  PHY93_12760|PHY93_12760  28 QHPRLYIHQEDLDNLKNLVIKDTSVKSWYEQLEKESKKILQEPSVEYKLVGPRLL---TQSRNALK------------RISTLAGL 98 
                              5677777776666666666666666666666666666666666444444443333...33333333............46678899 PP

                  DUF4962 222 ylLtkDkkyakeaikrllellswdkskavkgDFnaatllsllalaYDsfYdllseeekkllkkaikergkkiyeefvnrlenhiad 307
                              yl+  D+k a+ a+  ll  +++ k+++     + a + +++a+ YD  + +ls+++kk++++ai ++g +   +   + e  +  
  PHY93_12760|PHY93_12760  99 YLIDGDRKKAERAKVELLAAARL-KDWNPSHFLDVAEMTHAMAIGYDWLFSYLSNDDKKIIREAIITHGLNEGIKAYAKPEWWVKS 183
                              ********999999888877776.57777888889999***************************999865444444566888888 PP

                  DUF4962 308 nHvW.qmtlRiltlaalavvge.lpeAdkWldyvYevWlaRfPgLnkDGgWHngdsYfkvnlrtlie.vpalysklsGvdfFsdpW 390
                                 W q+    l+l+a+av+ +  ++  k l+y  +     +    +DGg  +g  Y++  +   i+ + al + +   +  +d  
  PHY93_12760|PHY93_12760 184 TTNWnQVCNAGLSLGAMAVAEDnWDQSFKILTYAKNSLPIAMSKYATDGGDPEGVNYWRYGTSYNIYfLDALKTAFDNKEKVDDST 269
                              88884566678********98736889999*******9999999**************9988766652667777888888888999 PP

                  DUF4962 391 yqnnalyvlyqqppfsksggnGdshenllkpnkkrvgyadALarkvnnpyaaayvkei 448
                              ++++ ++ +y+  p  k     d  ++    ++ ++++   La + nn   +++ k+i
  PHY93_12760|PHY93_12760 270 LKDTGYFRIYSLGPINKPFNFSDANDDR--GTSPQMLW---LASRFNNNNFSNFEKKI 322
                              9999999999988888777666654443..33344443...45555555555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (586 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       586  (0.0326845); expected 358.6 (0.02)
Passed bias filter:                      368  (0.0205254); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.67u 0.27s 00:00:00.94 Elapsed: 00:00:00.48
# Mc/sec: 3645.32
//
Query:       PHY93_12765|PHY93_12765  [L=250]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    7.6e-35  120.4   0.0    8.9e-35  120.2   0.0    1.1  1  ThiJ_like  ThiJ/PfpI family-like
    2.3e-15   56.8   0.0    1.2e-12   48.0   0.0    2.4  2  DJ-1_PfpI  DJ-1/PfpI family
  ------ inclusion threshold ------
      0.023   14.5   0.0      0.056   13.3   0.0    1.6  2  SNO        SNO glutamine amidotransferase family


Domain annotation for each model (and alignments):
>> ThiJ_like  ThiJ/PfpI family-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  120.2   0.0   1.5e-38   8.9e-35       1     187 [.       8     191 ..       8     205 .. 0.86

  Alignments for each domain:
  == domain 1  score: 120.2 bits;  conditional E-value: 1.5e-38
                ThiJ_like   1 ladeGydvtevaipwkvlkdagfsveFvtekgkvpkadekllsgi.kakllg..askeakdiYkelstleeFkeplslssesFsle 83 
                              l++  +d+te+aipwk+l+++  +v F t+ g ++ ad ++l+g  ++ + g  a++ a ++Y+e+   ++F++p+++++     +
  PHY93_12765|PHY93_12765   8 LPNLDFDPTETAIPWKILTKNSHQVVFGTPDGSSALADIRMLEGHgLGPFQGlrANATAREAYSEMLMDKNFQNPKTWQDI--RAQ 91 
                              577789************************************886467777633666899******************985..689 PP

                ThiJ_like  84 eydlvllpGGsdkavrelleserlhsllveylklvkrekepskvlgaicqgvlalafakpe.......ldlktttlPlwmertsil 162
                              ++ ++ lpGG+ k++r +les+ l++l+++++        ++k++gaic+gv+ ++ ak +          ktt+lP wme ++ +
  PHY93_12765|PHY93_12765  92 DFHAIILPGGHAKGMRPYLESQVLQNLITNFF-------LEKKLVGAICHGVVLVSRAKIAdtgrsvlYGKKTTALPKWMELSA-W 169
                              ********************************.......579*****************9999*9999999************9.7 PP

                ThiJ_like 163 lgstaeklgyyYktyliseaveadv 187
                              l +    lg+yY+ty    +v+ +v
  PHY93_12765|PHY93_12765 170 LMTC-LWLGNYYRTYPQ--SVQDEV 191
                              5555.6789******98..444444 PP

>> DJ-1_PfpI  DJ-1/PfpI family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.0   0.0     2e-16   1.2e-12       2     116 ..       3     148 ..       2     168 .. 0.83
   2 !    6.7   0.0     0.001       5.9     139     163 ..     219     243 ..     177     245 .. 0.83

  Alignments for each domain:
  == domain 1  score: 48.0 bits;  conditional E-value: 2e-16
                              EEEEEEE.TTBEHHHHHHHHHHHHHTTEEEEEEESS............................TSEE.EETTSEEEE-SEEGGGC CS
                DJ-1_PfpI   2 kvlvlla.dgvedvElivpvdvlkragikvdvvsvd............................keev.kgsrGlkvtvdaslddv 57 
                              kvl+ l   +++ +E+ +p+++l +++++v+  ++d                            +e + ++  + ++   ++++d+
  PHY93_12765|PHY93_12765   3 KVLIPLPnLDFDPTETAIPWKILTKNSHQVVFGTPDgssaladirmleghglgpfqglranataREAYsEMLMDKNFQNPKTWQDI 88 
                              78888775689999**************************99999999999999999998888755553667788888888899** PP

                              TCCG-SEEEE--BHHHHHHHHTSH.HHHHHHHHHHHTT-EEEEETTTHHHHHHTTTTTTS CS
                DJ-1_PfpI  58 kaaeyDalvlpGGragperlrene.kvvelvkefaekgklvaaICagpqlLaaagvlkgr 116
                              +a+++ a++lpGG+a+  r   ++ ++++l+ +f+ ++klv+aIC+g +l ++a++ +  
  PHY93_12765|PHY93_12765  89 RAQDFHAIILPGGHAKGMRPYLESqVLQNLITNFFLEKKLVGAICHGVVLVSRAKIADTG 148
                              **************988876654428889******************9999999876543 PP

  == domain 2  score: 6.7 bits;  conditional E-value: 0.001
                              SEEEETTEEEESSGGGHHHHHHHHH CS
                DJ-1_PfpI 139 rvvvdgnlvTsrgpgaaiefalell 163
                               v+ dgn++++r pg+a  fa+ + 
  PHY93_12765|PHY93_12765 219 FVIEDGNFISARWPGDAHRFAEVIC 243
                              5899****************98775 PP

>> SNO  SNO glutamine amidotransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0      0.56   3.4e+03      64      77 ..      26      39 ..      22      47 .. 0.80
   2 ?   13.3   0.0   9.4e-06     0.056      32      84 ..      91     142 ..      63     152 .. 0.81

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 0.56
                             HHTT.--EEEETHH CS
                      SNO 64 vknsekvvlGtCaG 77
                              kns++vv+Gt  G
  PHY93_12765|PHY93_12765 26 TKNSHQVVFGTPDG 39
                             589999****9877 PP

  == domain 2  score: 13.3 bits;  conditional E-value: 9.4e-06
                              CC-SEEEE-SS-HHHHHHHHHHTT-HHHHHHHHHTT.--EEEETHHHHHHCCE CS
                      SNO  32 aevdaliiPGGestamskliertglyedllefvknsekvvlGtCaGlillske 84 
                              ++  a+i+PGG +  m+  +e   l + + +f  +  k v   C G++l+s+ 
  PHY93_12765|PHY93_12765  91 QDFHAIILPGGHAKGMRPYLESQVLQNLITNFFLEK-KLVGAICHGVVLVSRA 142
                              45679****************999888888888776.888899*******975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (250 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       375  (0.0209158); expected 358.6 (0.02)
Passed bias filter:                      364  (0.0203023); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1649.64
//
Query:       PHY93_12770|PHY93_12770  [L=266]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.1e-11   42.0   0.0    1.3e-06   27.9   0.0    2.2  2  Hydrolase_4    Serine aminopeptidase, S33
  ------ inclusion threshold ------
      0.084   12.5   0.0        1.7    8.2   0.0    2.6  2  Abhydrolase_1  alpha/beta hydrolase fold


Domain annotation for each model (and alignments):
>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.9   0.0   1.4e-10   1.3e-06      53     131 ..      72     148 ..      31     184 .. 0.83
   2 !   12.2   0.0   8.6e-06     0.077     188     237 ..     202     252 ..     192     253 .. 0.86

  Alignments for each domain:
  == domain 1  score: 27.9 bits;  conditional E-value: 1.4e-10
              Hydrolase_4  53 psfddyvdDlaafvekvkeehpelplfllGhSmGGliallyllrypdkvaglilsaPalkikaklkappllklllkllg 131
                              ++++  +d l +++ek+ ++h + p++++ +S G +ia+++l r+  k+++  l++P++ki++ +k+  +  ++++++ 
  PHY93_12770|PHY93_12770  72 KEVSNSLDALTTLLEKILQQHLKGPVIIWSQSFGNVIATRILSRKNIKINKHLLMSPFVKIPK-IKL-FFGMIIMRWTP 148
                              6778889999**************************************************984.322.22222333333 PP

  == domain 2  score: 12.2 bits;  conditional E-value: 8.6e-06
              Hydrolase_4 188 akitlPllllhGeaDkvvdpeasrelyerlgsk.dktlklypglyHellnE 237
                              +  t+P  + +G++Dk+++p a+ +++++ + +   ++k+ ++  H+l+ E
  PHY93_12770|PHY93_12770 202 SYSTFPRAVWIGKDDKLINPIAQINFFKTNQGDaAMEIKVLKNTGHMLFPE 252
                              5567999****************999997666559*************977 PP

>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.2   0.0   0.00019       1.7      55     131 ..      77     155 ..      30     171 .. 0.68
   2 ?    0.9   0.0     0.033   2.9e+02     212     253 ..     202     250 ..     159     252 .. 0.64

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.00019
                              SHHHHHHHHHHHHHHCTTSSEEEEEETHHHHHHHHHHHHHGGGEEEEEEESE..CSSCCHHHHHHHHHHHHHHCHHCHH CS
            Abhydrolase_1  55 gtasvaddldrildalgddkltlvGhSmGGmialayaaeyperVkalvllga..idpaaslieaqrqqaksfpdffdgy 131
                              +++++   l++il+++  ++++++ +S+G  ia+  +++ + ++++  l+++    p+++l   +   ++++  + +++
  PHY93_12770|PHY93_12770  77 SLDALTTLLEKILQQHLKGPVIIWSQSFGNVIATRILSRKNIKINKHLLMSPfvKIPKIKLFFGMIIMRWTPRAWYRRF 155
                              5667777899************************************999999665555555555555555555555555 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.033
                              S....EEEEEEETTCSSSCHHHHHHHHHCHTS....EEEEEEETCSSSHH CS
            Abhydrolase_1 212 a....ptlvisgtsDplvppkaledlaqllpk....krlvvisdagHlaf 253
                              +    p  v++g +D+l+ p a+ ++ +  ++     + +v+ ++gH++f
  PHY93_12770|PHY93_12770 202 SystfPRAVWIGKDDKLINPIAQINFFKT-NQgdaaMEIKVLKNTGHMLF 250
                              1344588999999****999666665444.33356567788889999887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (266 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       533  (0.0297284); expected 358.6 (0.02)
Passed bias filter:                      488  (0.0272185); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.27s 00:00:00.85 Elapsed: 00:00:00.48
# Mc/sec: 1675.76
//
Query:       PHY93_12775|PHY93_12775  [L=103]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      2e-06   27.9   3.9    2.2e-06   27.8   3.9    1.0  1  Y1_Tnp         Transposase IS200 like
  ------ inclusion threshold ------
       0.14   12.5   0.1         15    6.0   0.0    2.2  2  Peptidase_S74  Chaperone of endosialidase


Domain annotation for each model (and alignments):
>> Y1_Tnp  Transposase IS200 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.8   3.9   2.4e-10   2.2e-06      12     117 ..       5     103 .]       1     103 [] 0.81

  Alignments for each domain:
  == domain 1  score: 27.8 bits;  conditional E-value: 2.4e-10
                   Y1_Tnp  12 tkyRrkvltgeveerlkeiikeiaekkevkilelelmpDHvHllvelppklsiskivkalkgassrlinkefpelkkkklkkeslW 97 
                               +++ ++ ++++ ++l++ ik  a+ k+ +i+++ l+ +HvHllve+ ++  ++k ++al  + s+ +n      k ++lk +  +
  PHY93_12775|PHY93_12775   5 RENKANIKNKRILKSLHHAIK-RARLKKLRIIHYTLEYNHVHLLVEASSNEILHKGMQALGISLSKAVN------KISQLK-GGVY 82 
                              556667777779999999995.578899*****************************************......444455.4489 PP

                   Y1_Tnp  98 qrgYfvstvgea.sletvkrY 117
                              +++Y+   + +  +l++  +Y
  PHY93_12775|PHY93_12775  83 KHRYHFRKINSRcELKNAIHY 103
                              999999988877666666555 PP

>> Peptidase_S74  Chaperone of endosialidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.1    0.0041        36       6      30 ..      14      40 ..       5      62 .. 0.73
   2 ?    6.0   0.0    0.0017        15      12      30 ..      67      85 ..      64     102 .. 0.80

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.0041
                             BSS-EC-HHH..HHHHCT---EEE-BC CS
            Peptidase_S74  6 KtnIrpleda..lakvlklrpvtYryk 30
                             K+ +++l+ a   a+++klr+ +Y   
  PHY93_12775|PHY93_12775 14 KRILKSLHHAikRARLKKLRIIHYTLE 40
                             445566644477899*********764 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.0017
                             -HHHHHHHCT---EEE-BC CS
            Peptidase_S74 12 ledalakvlklrpvtYryk 30
                             l++a +k+ +l++  Y+ +
  PHY93_12775|PHY93_12775 67 LSKAVNKISQLKGGVYKHR 85
                             78999***********764 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (103 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       945  (0.0527079); expected 358.6 (0.02)
Passed bias filter:                      483  (0.0269396); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.45
# Mc/sec: 695.10
//
Query:       PHY93_12780|PHY93_12780  [L=130]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (130 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       473  (0.0263818); expected 358.6 (0.02)
Passed bias filter:                      382  (0.0213063); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 940.52
//
Query:       PHY93_16940|PHY93_16940  [L=132]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.4e-10   40.1   3.1    5.3e-10   39.9   3.1    1.1  1  Cytochrom_B562  Cytochrome b562
     0.0072   15.7   0.3     0.0083   15.5   0.3    1.1  1  NAD_binding_5   Myo-inositol-1-phosphate synthase


Domain annotation for each model (and alignments):
>> Cytochrom_B562  Cytochrome b562
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.9   3.1   5.9e-14   5.3e-10       1     100 [.      31     132 .]      31     132 .] 0.90

  Alignments for each domain:
  == domain 1  score: 39.9 bits;  conditional E-value: 5.9e-14
           Cytochrom_B562   1 dlkeeMkqmkkalkqva....kaddaeelkkalkelraaaedakeatpsklekdseeqkdYqeGldklidqldkaealakagklee 82 
                              +l+++M q +  lkqv+     a+  +e+++++++++a ++ a+++ p++++  +  ++dYq+ +d+ i++ ++++ +  ++++ +
  PHY93_16940|PHY93_16940  31 NLQNNMRQTGIILKQVSasinDASKNQENAASVAKMIAYFQTARTQSPDSVT--NGSFADYQALIDQEIQNFKDLQDAFLKNDNVA 114
                              5899*****99999999844455666677778999*************8877..999***************************** PP

           Cytochrom_B562  83 akaalkelkdlrkeyHkk 100
                              a +++ +l++++ke+H+k
  PHY93_16940|PHY93_16940 115 ALSIVHKLNTVKKEGHDK 132
                              ****************97 PP

>> NAD_binding_5  Myo-inositol-1-phosphate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.3   9.2e-07    0.0083      80     161 ..      22     103 ..       6     116 .. 0.90

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 9.2e-07
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            NAD_binding_5  80 fgGwDisslnlaeamerakvldkdlqeqlkpelekikplksvydk.dfiaanqeeradnvlkgkskleqleqirkdireFkkk 161
                              +++ D+s lnl++ m++  ++ k++  ++++  ++ ++  sv +   + ++ ++++ d v++g+  ++    i ++i++Fk+ 
  PHY93_16940|PHY93_16940  22 LSAQDVSPLNLQNNMRQTGIILKQVSASINDASKNQENAASVAKMiAYFQTARTQSPDSVTNGS-FADYQALIDQEIQNFKDL 103
                              5788***********************************9*99988999999999999999888.888888999*******75 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (132 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1263  (0.0704445); expected 358.6 (0.02)
Passed bias filter:                      576  (0.0321267); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.46
# Mc/sec: 861.69
//
Query:       PHY93_12785|PHY93_12785  [L=129]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.065   12.7   0.1      0.077   12.5   0.1    1.1  1  DUF3512   Domain of unknown function (DUF3512)


Domain annotation for each model (and alignments):
>> DUF3512  Domain of unknown function (DUF3512)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.1   4.3e-06     0.077      15      87 ..      18      91 ..      12     104 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 4.3e-06
                  DUF3512 15 esleDslteeevleqvekaakeardrlsrklpnsklgFlrkkkdGtttlnvlnpadp.eaeeageerpvtlgsl 87
                             +   D+lt e     ++kaa+ a++       + k+gF   k d  t ln  n++    +++  +  +v++  +
  PHY93_12785|PHY93_12785 18 ANTPDNLTDEAGERCIDKAARIAKQYFDVAETQEKIGFVISKDDTVTALNFKNTTPGsYNQDFVSDLKVKIDRT 91
                             567899**9999999***************************99999999877765422333344555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (129 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       723  (0.0403257); expected 358.6 (0.02)
Passed bias filter:                      550  (0.0306766); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 855.08
//
Query:       PHY93_12790|PHY93_12790  [L=61]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (61 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       239  (0.0133304); expected 358.6 (0.02)
Passed bias filter:                      229  (0.0127726); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.27s 00:00:00.68 Elapsed: 00:00:00.45
# Mc/sec: 409.06
//
Query:       PHY93_12795|PHY93_12795  [L=123]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.054   13.6   0.2       0.11   12.6   0.1    1.6  2  RsbU_N    Phosphoserine phosphatase RsbU, N-terminal domain


Domain annotation for each model (and alignments):
>> RsbU_N  Phosphoserine phosphatase RsbU, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.6   0.0       0.7   1.3e+04      43      53 ..       5      15 ..       3      20 .. 0.57
   2 ?   12.6   0.1   6.2e-06      0.11       5      55 ..      44     102 ..      43     119 .. 0.75

  Alignments for each domain:
  == domain 1  score: -3.6 bits;  conditional E-value: 0.7
                             HHHHHHHH-TT CS
                   RsbU_N 43 Hkevleelskd 53
                             H++ le+  +d
  PHY93_12795|PHY93_12795  5 HFDKLENALED 15
                             56555555544 PP

  == domain 2  score: 12.6 bits;  conditional E-value: 6.2e-06
                              HHHHHHHHH--HHHHHHHHHHHHHHHH.....TT--HH..HHHHHHHHHHHHH-TTS.- CS
                   RsbU_N   5 kiLkeyletqdeqsLyeaeelsrelle.....kgispe..eivelHkevleelskdl.p 55 
                              ++Lk++ e+ +e  L++ ++++ + ++     k+isp   ei+ +H ++l +   ++ +
  PHY93_12795|PHY93_12795  44 AALKNFYEKINEYDLEKNKQFGLTKMKrasffKRISPRqaEIILMHLDLLFQTIRTAdE 102
                              6899*************99999555543333389***6449*********999888532 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (123 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       554  (0.0308997); expected 358.6 (0.02)
Passed bias filter:                      378  (0.0210832); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.26s 00:00:00.72 Elapsed: 00:00:00.45
# Mc/sec: 826.14
//
Query:       PHY93_12800|PHY93_12800  [L=128]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-30  105.6   3.4    1.3e-30  105.6   3.4    1.4  2  DUF4399   Domain of unknown function (DUF4399)
     0.0021   18.0   0.0       0.12   12.4   0.0    2.1  1  BiPBP_C   Penicillin-Binding Protein C-terminus Family
     0.0071   16.5   1.5      0.013   15.7   1.5    1.6  1  Big_3_5   Bacterial Ig-like domain (group 3)
  ------ inclusion threshold ------
      0.012   15.9   0.1      0.015   15.6   0.1    1.2  1  CBM_6     Carbohydrate binding module (family 6)
      0.018   15.0   0.0      0.034   14.1   0.0    1.5  1  CE2_N     Carbohydrate esterase 2 N-terminal
      0.026   14.9   0.1      0.049   14.1   0.1    1.5  1  CBM60     Ca-dependent carbohydrate-binding module xylan-bind


Domain annotation for each model (and alignments):
>> DUF4399  Domain of unknown function (DUF4399)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0       3.7   1.1e+04      40      50 ..      19      29 ..      12      35 .. 0.64
   2 !  105.6   3.4   4.5e-34   1.3e-30       1      89 [.      41     128 .]      41     128 .] 0.98

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 3.7
                  DUF4399 40 addqvlHfgkg 50
                             a ++ +Hf k 
  PHY93_12800|PHY93_12800 19 AAPSKVHFVKP 29
                             55667777664 PP

  == domain 2  score: 105.6 bits;  conditional E-value: 4.5e-34
                  DUF4399   1 vkfglegmgvapageetentGhhhllvdeeapeagepipaddqvlHfgkgqtetelelppGkhtLqlqlgdaahvplkpsvlskki 86 
                              v+f +egm+va+age++++tGhhhl++d +++++g+++p+d+++ Hfg++ t+++++l+pG+htL++q++d+ah++l+++ ++ +i
  PHY93_12800|PHY93_12800  41 VEFAVEGMTVAKAGEMKSGTGHHHLIIDGKPVAKGQVVPKDENHKHFGDAATTATVSLKPGTHTLTMQFADGAHKSLGEE-YATTI 125
                              89****************************************************************************99.99999 PP

                  DUF4399  87 tvt 89 
                              tv+
  PHY93_12800|PHY93_12800 126 TVE 128
                              985 PP

>> BiPBP_C  Penicillin-Binding Protein C-terminus Family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.4   0.0   4.1e-05      0.12       6      83 ..      18     113 ..      14     118 .. 0.67

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 4.1e-05
                  BiPBP_C   6 ssaasplrIafPadGailaldpdip.krqrlqlkargg.ea...plrWlldgeplaet............krgrelawqp.epGrh 73 
                              ++a s ++++ P+d +++ ++ +++ + + +++  +g  +    ++++++dg+p+a++            ++++++a  + +pG+h
  PHY93_12800|PHY93_12800  18 AAAPSKVHFVKPHDKEVVPPTFQVEfAVEGMTVAKAGEmKSgtgHHHLIIDGKPVAKGqvvpkdenhkhfGDAATTATVSlKPGTH 103
                              55678899999999999999999999999999999988766888999999777775431111111111113333333333599999 PP

                  BiPBP_C  74 rLtvvDaaGr 83 
                              +Lt + a+G+
  PHY93_12800|PHY93_12800 104 TLTMQFADGA 113
                              9998888886 PP

>> Big_3_5  Bacterial Ig-like domain (group 3)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   1.5   4.2e-06     0.013      15      85 ..      49     127 ..      27     128 .] 0.72

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 4.2e-06
                              E--CCCC.TTS--EEEEEETTEE-SS-EE--TT......S.EEEEEEE-SS-EEEEEEEEEE-TTS---S--EEEEEEE CS
                  Big_3_5  15 tVtaasg.gtptGtVtftdggttlgtavllsan......G.tAtltvsalaaGthsitAtYsGdanyaastssavtvtV 85 
                              tV+ a++ ++ tG   + ++g++++  +++ ++      G  At  + +l++Gth++t ++++ a  +     a+t+tV
  PHY93_12800|PHY93_12800  49 TVAKAGEmKSGTGHHHLIIDGKPVAKGQVVPKDenhkhfGdAATTATVSLKPGTHTLTMQFADGAHKSLGEEYATTITV 127
                              56666555668899999999999977776664333555543666667889***********966554444444455776 PP

>> CBM_6  Carbohydrate binding module (family 6)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.6   0.1   4.9e-06     0.015      58     112 ..      59     113 ..      38     121 .. 0.77

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 4.9e-06
                              SEEEEEEEESSTTSSEEEEEEE.---SSTTEE..EEEEEEEEE-SEEEEEEEEEECSS CS
                    CBM_6  58 aggsielrldsatgtlvgtvsv.pstggwqty..vtvsanvtlptGvhdlylvftgga 112
                              ++g   l +d+   ++v++ +v p++++ +++    ++a+v+l+ G+h+l ++f  ga
  PHY93_12800|PHY93_12800  59 GTGHHHLIIDG---KPVAKGQVvPKDENHKHFgdAATTATVSLKPGTHTLTMQFADGA 113
                              33777778888...8888888879999*****7778999**************98765 PP

>> CE2_N  Carbohydrate esterase 2 N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   1.1e-05     0.034      15      81 ..      34     106 ..      23     118 .. 0.70

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 1.1e-05
                              E-STT-EEEEEEEEEEEEEEEEE..SSS-EEEEEEETTS--EEEEE...-SS-E.....EEEEEEEEEEEEEEEE CS
                    CE2_N  15 fawpGtsvefrftGtslsvrlkdkedkgknrlaviiDgkrvkdlkl...dgeek.....tytlaeglepgehtvr 81 
                              +  p  +vef+++G +++ + +   ++g+ + ++iiDgk+v++ ++   d+++k     + t   +l+pg+ht++
  PHY93_12800|PHY93_12800  34 VVPPTFQVEFAVEGMTVAKAGEM--KSGTGHHHLIIDGKPVAKGQVvpkDENHKhfgdaATTATVSLKPGTHTLT 106
                              55677899999999999877666..99*************88877765444333111112344457777777776 PP

>> CBM60  Ca-dependent carbohydrate-binding module xylan-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.1   1.6e-05     0.049       4      64 ..      50     116 ..      47     126 .. 0.64

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 1.6e-05
                    CBM60   4 VrAagdqa.gdeppefrllvdGqkvg.......eadvasteaktytftadltagahklqirylNDlyvg 64 
                              V  ag+   g+   +  l++dG+ v        + + +    ++ t t+ l++g+h+l+ ++++ +++ 
  PHY93_12800|PHY93_12800  50 VAKAGEMKsGT--GHHHLIIDGKPVAkgqvvpkDENHKHFGDAATTATVSLKPGTHTLTMQFADGAHKS 116
                              55556655344..899**********4444432111122222334444555599*********988765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (128 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       460  (0.0256568); expected 358.6 (0.02)
Passed bias filter:                      375  (0.0209158); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.42
# Mc/sec: 909.02
//
Query:       PHY93_12805|PHY93_12805  [L=168]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (168 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       798  (0.0445089); expected 358.6 (0.02)
Passed bias filter:                      521  (0.0290591); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 1140.03
//
Query:       PHY93_12810|PHY93_12810  [L=683]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
   1.1e-202  674.8   2.8   1.3e-202  674.7   2.8    1.0  1  SpecificRecomb  Site-specific recombinase
  ------ inclusion threshold ------
       0.12   12.8   0.8        1.2    9.6   0.2    2.8  2  DUF2583         Protein of unknown function (DUF2583)
       0.16   11.8   0.0       0.27   11.0   0.0    1.3  1  G6B             G6B family
       0.42   10.8   1.6        3.6    7.8   0.4    2.9  2  Gal4_dimer      Gal4-like dimerisation domain
        1.1    9.2   3.7         47    4.0   0.0    3.6  4  Orthoreo_P10    Orthoreovirus membrane fusion protein p10


Domain annotation for each model (and alignments):
>> SpecificRecomb  Site-specific recombinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  674.7   2.8  3.5e-206  1.3e-202       2     641 .]      40     680 ..      39     680 .. 0.98

  Alignments for each domain:
  == domain 1  score: 674.7 bits;  conditional E-value: 3.5e-206
           SpecificRecomb   2 eraellielvkwlrpakas..deeeaaerlraLlellernpelrealrellrallseadqlslftdaGllsrsgffselaerleek 85 
                              er+e++++l+kw+r+++    de+  + +++ Ll llern++++e +r++++++l+e + +++f+++Gl+++  f++el e++ +k
  PHY93_12810|PHY93_12810  40 ERIEWIQQLFKWIRSDSYFehDEKIPVVKIKFLLMLLERNKNWQEDVRKIFKETLTELSAIEFFCEVGLPNQIDFIGELGEKIMDK 125
                              799************99773355559************************************************************ PP

           SpecificRecomb  86 llPeapdeedlsdllsllfpkeeDaewlealddetlarLlelleeeeeeeeeaaeklreellealevlsvqiaalglepelrrrlp 171
                              +lP+ p +++l ++l  lfp++eDaew+e++d++tl+++++++   +++e+ +  +l++++ eal +l++qi a+gl+p +r+r p
  PHY93_12810|PHY93_12810 126 ILPRRPIDNQLGEFLLVLFPDREDAEWIESIDEDTLEQIFNIF---QTNENISFPHLQNDIEEALIYLVSQIVAIGLSPLVRKRIP 208
                              *******************************************...899999********************************** PP

           SpecificRecomb 172 eleeeespFlalqrelealleayeaaledeeeaeedlkhlr.....vlldqcreavdrvrkhleenGvsvslvfllerlrqrleRl 252
                              ++++++ pF++l  +l+ +l+  +++l++ +e +++lk++       +l++  +av++v+ hl+++Gvsv+lv++lerl++ l+R 
  PHY93_12810|PHY93_12810 209 HTQMKTLPFFSLPVKLSFYLKIKNETLKNGNEVNKELKNILyaeliNILQDTARAVKEVYFHLDKYGVSVHLVYQLERLNHYLSRT 294
                              ********************9999977777777777777666666699************************************** PP

           SpecificRecomb 253 eeLldllleeeeeeraralveLlkelveaeaekrsvrellrenielLarkvveraaetGehYItrdrkeYlkmlrsAaggGliial 338
                              ++Ll++ +  ++  ++ +++ ++++l++++  +rs+++l++ n++lLa+k+ver+++ GehYI++d +eY++m++sA+ggGli+a+
  PHY93_12810|PHY93_12810 295 NALLEINH--SDIIAKDKIAYFTADLIKQSLIQRSIKSLISGNVTLLAQKIVERNSKMGEHYIAQDIHEYWAMFKSAVGGGLITAF 378
                              *******8..8999999********************************************************************* PP

           SpecificRecomb 339 tallKillaklhlapfvegllaslnYalsFvlihllhftvATKQPAmTAaalAaklddekksaeleklvelvvallRsqlaAvlGN 424
                              t+++K+ + +l + +f+ g + slnYa+sF+li++++ft+ TKQPA TA alA+kl++ +k +++ek+++++v + R+q++Av+GN
  PHY93_12810|PHY93_12810 379 TVYIKNSIITLPFTRFIIGAFGSLNYAGSFLLIQFAGFTLGTKQPAATATALAQKLESLEKIEQVEKVTDEIVMVSRTQFVAVIGN 464
                              ************************************************************************************** PP

           SpecificRecomb 425 vlvvipvalliallilallgapliseekaeallesldplgslallyAaitGvlLFlssLiaGyadNlavynriderlaenrrlrrl 510
                              +++vipv+lli++++++++++ +i++++ae+ l+s+d+lg+ a++yA +tG+lL+lss+++G+ +N++++n+++  la+n+  + l
  PHY93_12810|PHY93_12810 465 IIAVIPVVLLINFIYHYATHRWIINAHSAEHNLHSTDLLGP-AIIYAVFTGFLLWLSSVASGWTENWFAFNDLHYLLANNKKCKLL 549
                              *****************************************.******************************************** PP

           SpecificRecomb 511 lgeeraerlAdyveknlgalagNislGllLGltpaigkllglpldiRHvtlssgnlgaalvalglealklqalllavagvlligll 596
                              lg+++a++lA ++e+n++++a+NislGllLGl+p++++++g+pl++RHvtls+g+++a++ +lg  ++++  ++ ++ag++++g++
  PHY93_12810|PHY93_12810 550 LGNAGAKKLAYFLEHNISGIAANISLGLLLGLAPEFLAFVGIPLEVRHVTLSTGSIAASIPTLGFGVFQTVVFWRCIAGLMVVGFI 635
                              ************************************************************************************** PP

           SpecificRecomb 597 NllVSFalAllvAlrsrkvrfkerrrllkavlrrllkrplsfllP 641
                              N++VSFalA++vA+r++k++ ++rr ++++vl+r+ +rp+sf++P
  PHY93_12810|PHY93_12810 636 NIFVSFALAFFVAVRAKKISSRKRRLIYRSVLKRFAQRPISFFIP 680
                              ********************************************9 PP

>> DUF2583  Protein of unknown function (DUF2583)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   0.2   0.00035       1.2       6      63 ..     459     524 ..     454     545 .. 0.71
   2 ?   -0.1   0.0      0.34   1.2e+03      12      30 ..     628     646 ..     618     659 .. 0.79

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.00035
                  DUF2583   6 alllGnvlmglGlllmvasla.ys.....vlnql..pelelpellaeaallgifiGallWlaGarv 63 
                              ++++Gn++ ++ ++l++  +  y+     + ++    +l+ ++ll  a + ++f G llWl+    
  PHY93_12810|PHY93_12810 459 VAVIGNIIAVIPVVLLINFIYhYAthrwiINAHSaeHNLHSTDLLGPAIIYAVFTGFLLWLSSVAS 524
                              678899999999888887664133111113233211467888999999999**********87654 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.34
                  DUF2583  12 vlmglGlllmvaslaysvl 30 
                               lm++G++ +++s a +  
  PHY93_12810|PHY93_12810 628 GLMVVGFINIFVSFALAFF 646
                              59******99999776544 PP

>> G6B  G6B family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   7.6e-05      0.27     135     203 ..     190     259 ..     176     270 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 7.6e-05
                      G6B 135 lalglgalGvawwlrrrsppallrplprfaplvkaeaqrevkeeepkeagdldqe.ksllyadldhialr 203
                              l+  ++a+G+    r+r p +++++lp f+  vk +   ++k+e  k+ ++ ++e k++lya+l +i   
  PHY93_12810|PHY93_12810 190 LVSQIVAIGLSPLVRKRIPHTQMKTLPFFSLPVKLSFYLKIKNETLKNGNEVNKElKNILYAELINILQD 259
                              77788999**********************************9999**9999997589*****9776544 PP

>> Gal4_dimer  Gal4-like dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   0.0     0.073   2.6e+02      16      32 ..     120     136 ..     116     138 .. 0.92
   2 ?    7.8   0.4     0.001       3.6      14      49 ..     135     171 ..     134     175 .. 0.89

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.073
               Gal4_dimer  16 EqlLrrllpeeDiDnlL 32 
                              E+++ ++lp+  iDn L
  PHY93_12810|PHY93_12810 120 EKIMDKILPRRPIDNQL 136
                              9*************987 PP

  == domain 2  score: 7.8 bits;  conditional E-value: 0.001
               Gal4_dimer  14 qLEqlLrrllpeeDiDnlLknkhnnflkeilt.gktd 49 
                              qL  +L+ l+p+  + + ++ +++  l +i   ++t+
  PHY93_12810|PHY93_12810 135 QLGEFLLVLFPDREDAEWIESIDEDTLEQIFNiFQTN 171
                              7889********9999**************8877776 PP

>> Orthoreo_P10  Orthoreovirus membrane fusion protein p10
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.0   0.0     0.013        47      15      86 ..      28      99 ..      17     106 .. 0.89
   2 ?    2.8   0.0     0.032   1.2e+02      25      54 ..     346     377 ..     327     387 .. 0.79
   3 ?   -2.8   0.3       1.8   6.5e+03      42      61 ..     456     475 ..     449     486 .. 0.63
   4 ?    0.3   0.3      0.19   6.9e+02      48      82 ..     631     667 ..     614     673 .. 0.64

  Alignments for each domain:
  == domain 1  score: 4.0 bits;  conditional E-value: 0.013
             Orthoreo_P10 15 vfgnvhcqaakntaggdlqatssliaywpylaagggliviilllallycckakvkadavrsvfrrelvalss 86
                             ++ n h q +++     +q     i    y+ +   + v+ + + l+   + k  ++ vr++f+  l  ls 
  PHY93_12810|PHY93_12810 28 ILSNAHTQRSQEERIEWIQQLFKWIRSDSYFEHDEKIPVVKIKFLLMLLERNKNWQEDVRKIFKETLTELSA 99
                             7789999999999999999999999999***********9999*********************99988875 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.032
             Orthoreo_P10  25 kntaggdlqatssliaywpyl..aaggglivi 54 
                              +n+  g+   +  +  yw  +  a+gggli  
  PHY93_12810|PHY93_12810 346 RNSKMGEHYIAQDIHEYWAMFksAVGGGLITA 377
                              688888889999999***9986689***9965 PP

  == domain 3  score: -2.8 bits;  conditional E-value: 1.8
             Orthoreo_P10  42 wpylaagggliviilllall 61 
                                ++a+ g +i +i ++ l+
  PHY93_12810|PHY93_12810 456 TQFVAVIGNIIAVIPVVLLI 475
                              55777778877766544443 PP

  == domain 4  score: 0.3 bits;  conditional E-value: 0.19
             Orthoreo_P10  48 gggliviill..lallycckakvkadavrsvfrrelv 82 
                                g+i i +   la+++  +ak  +++ r   +r ++
  PHY93_12810|PHY93_12810 631 VVGFINIFVSfaLAFFVAVRAKKISSRKRRLIYRSVL 667
                              3466655555236667778888778888887777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (683 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       893  (0.0498076); expected 358.6 (0.02)
Passed bias filter:                      413  (0.0230353); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.73u 0.27s 00:00:01.00 Elapsed: 00:00:00.48
# Mc/sec: 4263.77
//
Query:       PHY93_12815|PHY93_12815  [L=814]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    8.5e-79  263.8   0.2    1.5e-78  263.1   0.2    1.4  1  Lon_C           Lon protease (S16) C-terminal proteolytic dom
    6.5e-25   88.1   0.0    6.3e-24   84.9   0.0    2.5  2  AAA             ATPase family associated with various cellula
    3.4e-23   82.6   0.2    6.3e-23   81.7   0.2    1.5  1  LON_substr_bdg  ATP-dependent protease La (LON) substrate-bin
      3e-08   33.6   0.1    6.9e-08   32.4   0.1    1.7  1  ChlI            Subunit ChlI of Mg-chelatase
    4.4e-08   33.2   0.0    2.2e-07   31.0   0.0    2.2  2  AAA_5           AAA domain (dynein-related subfamily)
    0.00013   21.7   0.1     0.0011   18.8   0.0    2.5  2  RuvB_N          Holliday junction DNA helicase RuvB P-loop do
    0.00017   22.0   4.8    0.00031   21.2   0.0    3.2  4  AAA_16          AAA ATPase domain
    0.00055   19.0   0.0     0.0011   18.0   0.0    1.4  1  AAA_PrkA        PrkA AAA domain
      0.001   19.1   0.0     0.0023   17.9   0.0    1.5  1  Rad17           Rad17 P-loop domain
     0.0014   18.9   0.0      0.054   13.8   0.0    2.8  1  AAA_22          AAA domain
     0.0015   18.7   0.0     0.0041   17.3   0.0    1.8  1  AAA_2           AAA domain (Cdc48 subfamily)
     0.0025   17.7   0.0       0.01   15.8   0.0    1.9  2  RsgA_GTPase     RsgA GTPase
     0.0036   17.7   0.0      0.013   15.9   0.0    2.0  1  RNA_helicase    RNA helicase
     0.0048   16.6   0.0      0.014   15.1   0.0    1.9  1  IstB_IS21       IstB-like ATP binding protein
      0.008   16.3   0.0       0.02   15.0   0.0    1.7  1  AAA_33          AAA domain
     0.0085   16.1   0.0      0.031   14.3   0.0    2.0  1  AAA_14          AAA domain
  ------ inclusion threshold ------
      0.011   16.3   0.3      0.066   13.8   0.0    2.3  2  AAA_18          AAA domain
      0.015   15.4   0.8       0.32   11.1   0.1    2.7  2  ClpB_D2-small   C-terminal, D2-small domain, of ClpB protein
      0.024   15.1   4.1       0.37   11.2   0.0    2.4  2  AAA_23          AAA domain
      0.035   13.9   0.1      0.063   13.1   0.1    1.3  1  Birna_VP4       Birnavirus VP4 protein
      0.042   13.7   0.0       0.31   10.9   0.0    2.5  1  AAA_3           ATPase family associated with various cellula
      0.054   13.4   0.1       0.66    9.9   0.0    2.4  2  NACHT           NACHT domain
      0.068   13.3   0.1       0.17   12.0   0.1    1.7  1  SKI             Shikimate kinase
      0.093   12.7   0.1       0.24   11.4   0.1    1.7  1  TsaE            Threonylcarbamoyl adenosine biosynthesis prot
       0.12   11.9   0.0       0.31   10.6   0.0    1.7  1  AAA_7           P-loop containing dynein motor region
       0.13   11.4   0.9       0.35   10.0   0.1    2.2  2  NB-ARC          NB-ARC domain
       0.14   11.9   0.3       0.37   10.5   0.1    1.7  1  Raco_middle     RACo middle region


Domain annotation for each model (and alignments):
>> Lon_C  Lon protease (S16) C-terminal proteolytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  263.1   0.2   2.2e-81   1.5e-78       2     201 ..     583     781 ..     582     785 .. 0.97

  Alignments for each domain:
  == domain 1  score: 263.1 bits;  conditional E-value: 2.2e-81
                              E-TTTTHHHH-S-SS--SSSSS--BSSEEEEEEEETTEEEEEEEEEEEESS-S-EEEEES--HHHHHHHHHHHHHHTSS-GGGSS- CS
                    Lon_C   2 vtakeleellGkkrfrseeaekedqvGvvtGlawtevGGdlltieavllpgkgklkltGklgdvmkesaqaalsyvrsraeelgid 87 
                              +t +++ee+lG ++ ++e a+++++ GvvtGlawt vGGd+l+ie+ ++pg+gk++ltGklg+vm esa+++ls+vrs+ +++   
  PHY93_12815|PHY93_12815 583 ITPDDVEEVLGLNKNSYELAQTTSSPGVVTGLAWTPVGGDILFIESLMMPGTGKIQLTGKLGEVMSESAHIGLSLVRSKLSTMLPG 668
                              7899***************************************************************************9988666 PP

                              SS-TTT-EEEEEE-S-B-GGGGGGGHHHHHHHHHHHHTS--B-TTBEE--EE-TT-BEE--S-HHHHHHHHHHTT-SBEEEEGGGG CS
                    Lon_C  88 kevfekkdihihvPeGavPkdGPsaGvtlatalvslltgkkvrkdvamtGeitLrGrvlpiGGlkekllaakragikkvilPkene 173
                                +f k+d h+hvP+G++PkdGPsaG+t++tal sl+ gk+v++++amtGeitLrG v+p+GG+kek++aa+ragik+v++ k+ne
  PHY93_12815|PHY93_12815 669 -FNFAKTDFHVHVPSGSIPKDGPSAGITIFTALCSLVLGKAVDSKLAMTGEITLRGAVMPVGGIKEKMIAAHRAGIKRVVMSKKNE 753
                              .5789********************************************************************************* PP

                              GGTTTS-HHHHTS-B--EESBHHHHHHH CS
                    Lon_C 174 kdlediPeevreeleiilveevdevlka 201
                              +dl+++P++v++e+e++++++++e+l  
  PHY93_12815|PHY93_12815 754 RDLRELPDSVKKEMEFHFIDNINELLVY 781
                              ************************9865 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   84.9   0.0   9.5e-27   6.3e-24       1     128 [.     364     502 ..     364     506 .. 0.96
   2 ?   -0.3   0.0         2   1.3e+03      38      70 ..     748     778 ..     701     781 .. 0.84

  Alignments for each domain:
  == domain 1  score: 84.9 bits;  conditional E-value: 9.5e-27
                              EEEESSTTSSHHHHHHHHHHHHTHEEEEEETTTCSSS.........STTHHHHHHHHHHHHHHHTSTSEEEEEETGGGHHHHHTTC CS
                      AAA   1 vllyGppGtGKTllakavakelgvefleisgsellsk.........yvgesekkirelfkeakekakpsilfiDEidalaksrsgs 77 
                              +l++GppG+GKT+l +++ak lg++f++ s+  ++++         y+g+++ +i e +k+akek+  +++++DEid+l+k     
  PHY93_12815|PHY93_12815 364 LLFVGPPGVGKTSLGQSIAKALGRKFVRASLGGVRDDseirghrrtYIGAMPGRIIEGIKRAKEKN--TVFVLDEIDKLGKGY--- 444
                              69*********************************7789**************************9..***********7777... PP

                              CCHHHHHHHHHHHHHHHHTTTS............SSTEEEEEEESSGGGSTHHHHSTTSSEEE CS
                      AAA  78 eseeeervvnqLlteldgvkkk............eskvivigatnrpdkldpallrgRfdrki 128
                                  + + +++Ll++ld ++++             skv++i+++n+ d+++ +ll +R+++++
  PHY93_12815|PHY93_12815 445 ----GGDPAAALLEVLDPEQNStfmdhyldmpfdLSKVFFIATANSLDTIPAPLL-DRMEVVQ 502
                              ....99****************************999******************.***9986 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 2
                              STTHHHHHHHHHHHHHHHTSTSEEEEEETGGGH CS
                      AAA  38 yvgesekkirelfkeakekakpsilfiDEidal 70 
                              + +++e+++rel +++k++      fiD+i +l
  PHY93_12815|PHY93_12815 748 MSKKNERDLRELPDSVKKEM--EFHFIDNINEL 778
                              5678999*******999886..99999999887 PP

>> LON_substr_bdg  ATP-dependent protease La (LON) substrate-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   81.7   0.2   9.5e-26   6.3e-23       2     207 ..      13     208 ..      12     209 .. 0.81

  Alignments for each domain:
  == domain 1  score: 81.7 bits;  conditional E-value: 9.5e-26
           LON_substr_bdg   2 lpllpldnkvlfPgitlpltvsrpksiaaierlldk.dkp.yigvflvkesqkdaide.esiselysvGtvarIvqilrlddgrik 84 
                              +p+l+l+n+vlfP++ lp+ +s+   ++ai r+++  + + +i++ l+    +++  e ++ s++ysvGt++ I +i+++d+g+  
  PHY93_12815|PHY93_12815  13 IPTLVLKNTVLFPNVALPVLISKTVGLNAIHRAVEMgKDKlFIAITLK----EGVQIErATPSDFYSVGTLCTIERIEKNDKGETI 94 
                              8*********************************77444436666555....556566699************************* PP

           LON_substr_bdg  85 vvlegleRvkikkl.ekekeegylvaeveiieddsepedsdslqkelkalvqeiiekikkslarellkllleielllkyedlenpy 169
                                +++l R++  ++  + +  g   a+ e++ d     d d       al++++ +        +l +l+ + e + +++++++ +
  PHY93_12815|PHY93_12815  95 AFIKALYRFRALQIqFE-EAFGTWAARGEPVPD---IMDLDGP--TEVALLRSLKDISV----EILTSLNASSEFKRTLDQFDSAA 170
                              ***********999544.445556999988843...3334433..44444444444444....45666666778899********* PP

           LON_substr_bdg 170 rLadlvaailpfsneekqelLeeldvedRlkkvlelLk 207
                              ++ +l+a+ lp+  e+kqe+Le  +v++R  kvlelL 
  PHY93_12815|PHY93_12815 171 DFTNLAAQNLPLILEKKQEILEIASVKARALKVLELLV 208
                              ************************************96 PP

>> ChlI  Subunit ChlI of Mg-chelatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.4   0.1     1e-10   6.9e-08       5     121 .]     630     752 ..     626     752 .. 0.89

  Alignments for each domain:
  == domain 1  score: 32.4 bits;  conditional E-value: 1e-10
                     ChlI   5 vskglpkftivGlpdtavkeskervrsalkn......sgfefpakkitvnLaPadlkkeGsafDLpiAigilaaleqieaeeetlf 84 
                              +  g  k++++G + + + es +   s +++       gf+f ++   v + + +++k+G++  ++i  ++ + +  +++++++ +
  PHY93_12815|PHY93_12815 630 MMPGTGKIQLTGKLGEVMSESAHIGLSLVRSklstmlPGFNFAKTDFHVHVPSGSIPKDGPSAGITIFTALCSLVLGKAVDSKLAM 715
                              56788889999999999999987655555554444778************************************************ PP

                     ChlI  85 lGeLsldGslrpvkgvlpialaakkegikkvivpken 121
                               Ge+ l G + pv g+ + ++aa+++gik+v+++k+n
  PHY93_12815|PHY93_12815 716 TGEITLRGAVMPVGGIKEKMIAAHRAGIKRVVMSKKN 752
                              *********************************9987 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.0   0.0   3.3e-10   2.2e-07       2     138 .]     364     498 ..     363     498 .. 0.81
   2 ?   -2.3   0.0       6.2   4.1e+03       8      23 ..     632     647 ..     631     653 .. 0.82

  Alignments for each domain:
  == domain 1  score: 31.0 bits;  conditional E-value: 3.3e-10
                              EEEE--SSSSHHHHHHHGGGGBS--EEEEE--TT--HHHHH--B--..........--------G-SEEEEESGGG--H....HHH CS
                    AAA_5   2 vlLvGppGtgKselaerlaaalnreveyvqltrdtteedlkgrreik.ngttslvdsplvraaregeilvlDEveraes....evl 82 
                              +l vGppG+gK++l +++a+al+r+++   l      ++++g+r++  +    +    ++ra ++  ++vlDE++++ +    + +
  PHY93_12815|PHY93_12815 364 LLFVGPPGVGKTSLGQSIAKALGRKFVRASLGGVRDDSEIRGHRRTYiGAMPGRIIEGIKRAKEKNTVFVLDEIDKLGKgyggDPA 449
                              789******************************************8765555555666777888************9864444779 PP

                              HHHHHHHHSSEEE...-SSSEEE---......-EEEEEESS--.-TT-TTHHHHTT- CS
                    AAA_5  83 nsLlslleerrlll.eeggelvkaknddllerfrviatanpldrslnelspalrsRf 138
                              ++Ll +l+ ++ ++ ++    + ++     +++ +iatan+ld     + ++l++R+
  PHY93_12815|PHY93_12815 450 AALLEVLDPEQNSTfMDHYLDMPFDL----SKVFFIATANSLD----TIPAPLLDRM 498
                              99*****9887663145555555554....4499********9....7788888886 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 6.2
                              SSSSHHHHHHHGGGGB CS
                    AAA_5   8 pGtgKselaerlaaal 23 
                              pGtgK +l+ +l +++
  PHY93_12815|PHY93_12815 632 PGTGKIQLTGKLGEVM 647
                              9*******99998877 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.0   1.6e-06    0.0011       8      65 ..     335     393 ..     331     406 .. 0.74
   2 ?   -1.7   0.0       3.2   2.2e+03     127     156 ..     472     501 ..     468     503 .. 0.85

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 1.6e-06
                   RuvB_N   8 eyigqekvkeklkifieaakkreealdh.vllyGpPGlGkttlakiiakelgvklkits 65 
                              ++ g ek+k+++   ++  k   ++    +l++GpPG+Gkt+l + iak lg k+  +s
  PHY93_12815|PHY93_12815 335 DHFGLEKIKKHIVQHLAVMKLSPNKKGSiLLFVGPPGVGKTSLGQSIAKALGRKFVRAS 393
                              566777777777766666665555444405779******************99876665 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 3.2
                   RuvB_N 127 kldlpkftlvgattragllssPlrdrfgiv 156
                               +dl+k  +++++    ++ +Pl dr+ +v
  PHY93_12815|PHY93_12815 472 PFDLSKVFFIATANSLDTIPAPLLDRMEVV 501
                              57889999999999999*********9886 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.3       2.2   1.5e+03      72     149 ..      96     171 ..      84     217 .. 0.48
   2 ?   -2.4   0.7         8   5.3e+03      73      73 ..     233     233 ..     148     335 .. 0.60
   3 !   21.2   0.0   4.7e-07   0.00031      22      57 ..     359     391 ..     337     430 .. 0.70
   4 ?    0.4   0.0       1.1   7.6e+02     132     148 ..     425     441 ..     413     462 .. 0.74

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 2.2
                   AAA_16  72 laqalareellrqlldeaesaeleawrekleealaavpelagaea....srllellkrllallsrderplvlvlDdlqwade 149
                              +++al r + l+   +e    +++ w+++ e +   + +l+g  +    ++l +   ++l  l   ++ +  +lD+++ a +
  PHY93_12815|PHY93_12815  96 FIKALYRFRALQIQFEE----AFGTWAARGEPVPD-IMDLDGPTEvallRSLKDISVEILTSLNASSE-FKRTLDQFDSAAD 171
                              55566555555555555....55555555444444.33333333334444444444444433333222.4445555553333 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 8
                   AAA_16  73 a 73 
                               
  PHY93_12815|PHY93_12815 233 R 233
                              2 PP

  == domain 3  score: 21.2 bits;  conditional E-value: 4.7e-07
                   AAA_16  22 grpelvllsGesGvGKsslvrellralekdggiflr 57 
                                ++++l++G++GvGK+sl +++++al ++   f+r
  PHY93_12815|PHY93_12815 359 KKGSILLFVGPPGVGKTSLGQSIAKALGRK---FVR 391
                              2339**********************9999...322 PP

  == domain 4  score: 0.4 bits;  conditional E-value: 1.1
                   AAA_16 132 rderplvlvlDdlqwad 148
                               +e+ +v+vlD+++++ 
  PHY93_12815|PHY93_12815 425 AKEKNTVFVLDEIDKLG 441
                              335669********875 PP

>> AAA_PrkA  PrkA AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.0   1.6e-06    0.0011      58     114 ..     331     387 ..     322     397 .. 0.89

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 1.6e-06
                 AAA_PrkA  58 afeedffGleetiekiveyfraaaqrleerkqilyllGPvggGksslverlkkllea 114
                              +++ d fGle+  ++iv+++       +++  il+++GP g Gk+sl +++ k+l  
  PHY93_12815|PHY93_12815 331 ILDADHFGLEKIKKHIVQHLAVMKLSPNKKGSILLFVGPPGVGKTSLGQSIAKALGR 387
                              56789*************99888888888999*******************999865 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.0   3.5e-06    0.0023      29      75 ..     344     391 ..     335     405 .. 0.80

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 3.5e-06
                    Rad17  29 eevkewlkadvLesrkkr.iLLisGPsGCgkstvvkvLskelgiklre 75 
                              +++ + l  + L  +kk  iLL  GP+G gk+   + ++k lg k+  
  PHY93_12815|PHY93_12815 344 KHIVQHLAVMKLSPNKKGsILLFVGPPGVGKTSLGQSIAKALGRKFVR 391
                              4577888888886554444************************98754 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.8   0.0   8.1e-05     0.054       4      44 ..     360     391 ..     356     467 .. 0.74

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 8.1e-05
                   AAA_22   4 tagilvvtGesGtGKTtllrrlleqldeeakaeeerpevvf 44 
                              + +il+ +G++G+GKT l + +++ l         ++++v+
  PHY93_12815|PHY93_12815 360 KGSILLFVGPPGVGKTSLGQSIAKAL---------GRKFVR 391
                              6899****************999998.........455444 PP

>> AAA_2  AAA domain (Cdc48 subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   0.0   6.2e-06    0.0041       5     128 ..     363     485 ..     358     519 .. 0.79

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 6.2e-06
                              -EEEE--TTSSHHHHHHHHHHHTT-....-EEEEEGGG-------THHHHHHHHHTTT-H......HHHTTSEEEEETGGG----- CS
                    AAA_2   5 silllgptgvGktelakalaellfvkkekkliradaselleeeevehlvsrligappgyv......gaeegGivllDEidKihpke 84 
                               +l++gp gvGkt l +++a+ l     +k++ra    +  + e++      iga pg +      ++e++ +  lDEidK  +  
  PHY93_12815|PHY93_12815 363 ILLFVGPPGVGKTSLGQSIAKALG----RKFVRASLGGVRDDSEIRGHRRTYIGAMPGRIiegikrAKEKNTVFVLDEIDKLGK-- 442
                              4589*******************9....79999999999998888888888899888754222221455556999*******99.. PP

                              --------HHHHHHHHHHHH...--EE-----.--EE-TT-EEEEEE- CS
                    AAA_2  85 ssgadvSregVqrdLLqile...ggtltdkqg.rkvdtknilfImtga 128
                                     + +   +LL +l+   ++t  d++   + d +++ fI+t +
  PHY93_12815|PHY93_12815 443 -----GYGGDPAAALLEVLDpeqNSTFMDHYLdMPFDLSKVFFIATAN 485
                              .....3344667889999985555666677765888888888888887 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.0   1.5e-05      0.01      49     122 ..     309     384 ..     296     406 .. 0.78
   2 ?   -2.2   0.0         5   3.3e+03      68     100 ..     734     766 ..     729     769 .. 0.76

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 1.5e-05
                              EEEEEE-GGG--HHH..HHHHHHHHHHHTTSEEEE--TTTHTTHHHHHHHCTTSEEEEECSTTSSHHHHHHHHCTT CS
              RsgA_GTPase  49 pvivlnKiDlleeee..eleelkeelealgyevllvsaktkegleelkellkdktsvlvGqSGvGKStLinallpe 122
                              ++++l   D+  +e   ++ +   +  ++g+e ++ +  ++ ++ +l+++ k+++ ++vG+ GvGK++L  +++  
  PHY93_12815|PHY93_12815 309 LILALPWNDVEPHEInlDAAQAILDADHFGLEKIKKHIVQHLAVMKLSPNKKGSILLFVGPPGVGKTSLGQSIAKA 384
                              555666666655555334445555667888888988899999999************************9888765 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 5
                              HHHHHHHTTSEEEE--TTTHTTHHHHHHHCTTS CS
              RsgA_GTPase  68 lkeelealgyevllvsaktkegleelkellkdk 100
                               + + +++g++ +++s+k++++l+el + +k++
  PHY93_12815|PHY93_12815 734 KMIAAHRAGIKRVVMSKKNERDLRELPDSVKKE 766
                              556677888999999999999999998888776 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.0   1.9e-05     0.013       2     106 ..     365     485 ..     364     486 .. 0.79

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 1.9e-05
             RNA_helicase   2 wlyGpsgeGKStlakeLakallkkl............klkkkdsvysrnpeddfwdgYt....gqevvvidDfgqvkdeenpsdla 71 
                              +++Gp+g+GK++l +++akal +k+            +   + ++y++++   + +g +    +++v v d++ +  +++  +  a
  PHY93_12815|PHY93_12815 365 LFVGPPGVGKTSLGQSIAKALGRKFvraslggvrddsEIRGHRRTYIGAMPGRIIEGIKrakeKNTVFVLDEIDKLGKGYGGDPAA 450
                              789*******************9999999999999998888999999999999999998554556788888888888887666777 PP

             RNA_helicase  72 elirlvsstpyplnmasleekgtlftSkvvivtsN 106
                               l+++ +  +  + m++  +     + ++ i+t+N
  PHY93_12815|PHY93_12815 451 ALLEVLDPEQNSTFMDHYLDMPFDLSKVFFIATAN 485
                              77777777777777777777655555666666666 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0   2.2e-05     0.014      19      73 ..     331     387 ..     321     457 .. 0.77

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 2.2e-05
                IstB_IS21  19 ledidfraarsldkrkvkeLatlsfiekk..enivllGpsGvGKshlaialgveavr 73 
                              + d d+   ++++k++v++La ++   +k    ++++Gp+GvGK+ l  +++++  r
  PHY93_12815|PHY93_12815 331 ILDADHFGLEKIKKHIVQHLAVMKLSPNKkgSILLFVGPPGVGKTSLGQSIAKALGR 387
                              4455555556888999999877666555400557789********986555544333 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0     3e-05      0.02       2      27 ..     364     391 ..     363     428 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 3e-05
                   AAA_33   2 vllvGlpGsGKstlaerllkklg..avl 27 
                              +l+vG+pG+GK+ l ++++k+lg  +v+
  PHY93_12815|PHY93_12815 364 LLFVGPPGVGKTSLGQSIAKALGrkFVR 391
                              79********************966444 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.3   0.0   4.6e-05     0.031       3      77 ..     362     446 ..     360     510 .. 0.68

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 4.6e-05
                   AAA_14   3 kilvitGaRrvGKTtllkqlikellvkkesilyinldderdkk.ladpe.....kllelileklke..ekktylflDEiqev.... 76 
                               il+ +G+  vGKT l + ++k l    ++++  +l   rd++ ++  +      ++  i e +k+  ek+t+++lDEi ++    
  PHY93_12815|PHY93_12815 362 SILLFVGPPGVGKTSLGQSIAKALG---RKFVRASLGGVRDDSeIRGHRrtyigAMPGRIIEGIKRakEKNTVFVLDEIDKLgkgy 444
                              68999***********999999988...99***999887774312222123455444444444333446999*******9985555 PP

                   AAA_14  77 .p 77 
                                
  PHY93_12815|PHY93_12815 445 gG 446
                              51 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   9.9e-05     0.066       3      24 ..     366     387 ..     364     442 .. 0.81
   2 ?   -1.2   0.0       4.1   2.8e+03       6      22 ..     631     647 ..     631     675 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 9.9e-05
                   AAA_18   3 ltGtpGvGKttlakeLskrlgf 24 
                                G+pGvGKt+l++ ++k lg 
  PHY93_12815|PHY93_12815 366 FVGPPGVGKTSLGQSIAKALGR 387
                              68****************9843 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 4.1
                   AAA_18   6 tpGvGKttlakeLskrl 22 
                              +pG+GK +l+  L + +
  PHY93_12815|PHY93_12815 631 MPGTGKIQLTGKLGEVM 647
                              69*******99996543 PP

>> ClpB_D2-small  C-terminal, D2-small domain, of ClpB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   0.1      0.43   2.8e+02       7      31 ..     234     258 ..     229     270 .. 0.86
   2 ?   11.1   0.1   0.00049      0.32      24      62 ..     530     567 ..     508     583 .. 0.76

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.43
                              HHHHHHHHHHHHHHSCTTTEEEEEH CS
            ClpB_D2-small   7 kkIvdlalkklekrlkergvelevt 31 
                              + I++++lk +++ l e+g +l+v 
  PHY93_12815|PHY93_12815 234 EAILREQLKAIKEELGEEGSDLTVG 258
                              689************9999888875 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 0.00049
                              TTEEEEEHHHHHHHHHHHTSBTTTBTCCHHHHHHHHTHH CS
            ClpB_D2-small  24 rgvelevtdealdalaekgydpeyGARpLrriiqreied 62 
                               + +++++d++l+ +a++ y +e G R L+r i + + +
  PHY93_12815|PHY93_12815 530 TDEQVHLSDDILKMIADE-YTREAGVRDLQRKIAKVLRT 567
                              445799*********997.9*************998765 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   4.0      0.46     3e+02     137     199 ..     166     248 ..      81     292 .. 0.60
   2 ?   11.2   0.0   0.00056      0.37      21     143 ..     363     509 ..     339     593 .. 0.62

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.46
                   AAA_23 137 flgqerfeefelkdkkerleelekeleeledekkllekl...................eqekekek.eleeleeeleeilkel 199
                              f  + +f +++ ++ +  le+ ++ le ++ +++ l+ l                   + ek  ++ +   l+e+l+ i++el
  PHY93_12815|PHY93_12815 166 FDSAADFTNLAAQNLPLILEKKQEILEIASVKARALKVLellveqremikvnnemgakISEKTSKAyREAILREQLKAIKEEL 248
                              22222222222222222333333333333333333333321211113333333333323222222244444455555444443 PP

  == domain 2  score: 11.2 bits;  conditional E-value: 0.00056
                   AAA_23  21 ltlItGpNGaGKTTildAiklaLygetprlsrksgrgfeksdveiese.......gkvkayveltfenkdgrytrsiererelskk 99 
                              + l++Gp G GKT++ + i  aL+ ++ r s   g+   +s+++ + +       g   + +++  e+++        +   +++k
  PHY93_12815|PHY93_12815 363 ILLFVGPPGVGKTSLGQSIAKALGRKFVRASL--GGVRDDSEIRGHRRtyigampGRIIEGIKRAKEKNTV-------FVLDEIDK 439
                              779**********************9877666..3333344444333344433333333334444443333.......33444444 PP

                   AAA_23 100 kgkttkka....klelleideleqfisellgskkiilnlilflgqer.......................f 143
                               gk + ++     le l+++++  f++++l+  ++ +++++ ++  +                       +
  PHY93_12815|PHY93_12815 440 LGKGYGGDpaaaLLEVLDPEQNSTFMDHYLDMPFDLSKVFF-IATANsldtipaplldrmevvqlngytsE 509
                              44444333333378888889999999999998888555554.44444366666555555555555555442 PP

>> Birna_VP4  Birnavirus VP4 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.1   9.4e-05     0.063     183     238 ..     689     745 ..     674     750 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 9.4e-05
                Birna_VP4 183 GsssqLaiaaddllksdvdekvPi..vaftGevvdd.avgeiegvdlklaaahelGlpL 238
                              G+s  + i     l s v++k+    +a+tGe++   av ++ g++ k++aah+ G++ 
  PHY93_12815|PHY93_12815 689 GPSAGITI--FTALCSLVLGKAVDskLAMTGEITLRgAVMPVGGIKEKMIAAHRAGIKR 745
                              67777776..33344446666543359******8767********************85 PP

>> AAA_3  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   0.00047      0.31       3     113 ..     365     487 ..     363     498 .. 0.58

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00047
                    AAA_3   3 llegvPGlaktllvkalakaldlefkriqftpdllPsdilGtevfeeke...kefe.fkkGpvfanllladeinrapp....ktqs 80 
                              l+ g PG++kt l +++akal+ +f r  +      s+i G++     +   + +e +k+    + +++ dei++          +
  PHY93_12815|PHY93_12815 365 LFVGPPGVGKTSLGQSIAKALGRKFVRASLGGVRDDSEIRGHRRTYIGAmpgRIIEgIKRAKEKNTVFVLDEIDKLGKgyggDPAA 450
                              67899**********************98887777777777654433331222222133334444566667776643211114456 PP

                    AAA_3  81 alleame.erqvtvegethklp...epflvlatqnPi 113
                              alle+++ e++ t+ ++  ++p   ++ + +at n +
  PHY93_12815|PHY93_12815 451 ALLEVLDpEQNSTFMDHYLDMPfdlSKVFFIATANSL 487
                              7777776344445544443333212222345666665 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.0     0.001      0.66       3      26 ..     364     387 ..     362     393 .. 0.88
   2 ?    0.5   0.0      0.74   4.9e+02      80      99 ..     427     446 ..     405     518 .. 0.80

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.001
                              EEEEC-TTTCHHHHHHHHHHHHCT CS
                    NACHT   3 vilqGeaGsGKTtLlqklalawae 26 
                              ++  G++G+GKT L q++a a+ +
  PHY93_12815|PHY93_12815 364 LLFVGPPGVGKTSLGQSIAKALGR 387
                              6789***************99876 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.74
                              CCCEEEEEE-STT-SS-TCH CS
                    NACHT  80 perlLlilDglDelvtdlgq 99 
                              ++ ++++lD +D+l +  g 
  PHY93_12815|PHY93_12815 427 EKNTVFVLDEIDKLGKGYGG 446
                              56788********9987666 PP

>> SKI  Shikimate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.1   0.00026      0.17       1      21 [.     370     390 ..     370     392 .. 0.95

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00026
                              TTSSHHHHHHHHHHHHTSEEE CS
                      SKI   1 mGaGKstvGkllAkklglefi 21 
                              +G+GK+++G+ +Ak+lg++f+
  PHY93_12815|PHY93_12815 370 PGVGKTSLGQSIAKALGRKFV 390
                              69*****************97 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1   0.00036      0.24      18      46 ..     354     388 ..     337     393 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00036
                              H......TEEEEEEESTTSSHHHHHHHHHHHTT-- CS
                     TsaE  18 l......gdvilLeGdLGaGKTtlvrglakalgve 46 
                                     g+++l+ G+ G+GKT l +++akalg +
  PHY93_12815|PHY93_12815 354 KlspnkkGSILLFVGPPGVGKTSLGQSIAKALGRK 388
                              14454456779*********************976 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   0.00046      0.31      31      61 ..     359     388 ..     344     394 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00046
                    AAA_7  31 knkkpvllvGptGtGKtviikdllkkldkek 61 
                              k++  +l+vGp G+GKt++ +++ k+l  +k
  PHY93_12815|PHY93_12815 359 KKGSILLFVGPPGVGKTSLGQSIAKALG-RK 388
                              4556689**************9999887.44 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.1   0.00052      0.35      11      43 ..     354     384 ..     339     392 .. 0.73
   2 ?   -2.8   0.1       4.2   2.8e+03      63     102 ..     531     567 ..     508     572 .. 0.59

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.00052
                              HHHCTTTSCSEEEEEEESTTSSHHHHHHHHCCS CS
                   NB-ARC  11 kLlekdelqslvvalvGmgGvGKttlakqilnk 43 
                              kL  + + +  ++ +vG +GvGKt l ++i + 
  PHY93_12815|PHY93_12815 354 KL--SPNKKGSILLFVGPPGVGKTSLGQSIAKA 384
                              33..3555557999***************9886 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 4.2
                              XHHHHHHHXXHHHHHCCCTTSSSS-STTSHHHHHHHHCCC CS
                   NB-ARC  63 dkseeiletilkeLslseddleekeeveslkrklvrlLlt 102
                              d++ ++ ++ilk + ++       + v +l+rk+ ++L+t
  PHY93_12815|PHY93_12815 531 DEQVHLSDDILKMIADE---YTREAGVRDLQRKIAKVLRT 567
                              44445555555555333...22223333388888888875 PP

>> Raco_middle  RACo middle region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.1   0.00055      0.37      24      84 ..     523     583 ..     520     590 .. 0.90

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00055
              Raco_middle  24 elaeasalNpQikyGeDvlsRiayakeeeegleklqkavveeinelieelleeagiekeei 84 
                              +++e+  + +Q+++ +D+l  ia + ++e g+++lq+++ + ++++ e++++++g  k +i
  PHY93_12815|PHY93_12815 523 QMKEHGLTDEQVHLSDDILKMIADEYTREAGVRDLQRKIAKVLRTVSEKVVRTEGKVKVDI 583
                              6778888999****************************************99988766665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (814 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       782  (0.0436165); expected 358.6 (0.02)
Passed bias filter:                      574  (0.0320152); expected 358.6 (0.02)
Passed Vit filter:                        80  (0.00446204); expected 17.9 (0.001)
Passed Fwd filter:                        27  (0.00150594); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              27  [number of targets reported over threshold]
# CPU time: 0.84u 0.33s 00:00:01.17 Elapsed: 00:00:00.50
# Mc/sec: 4913.81
//
Query:       PHY93_12820|PHY93_12820  [L=142]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.12   12.9   3.3       0.26   11.9   3.3    1.6  1  TMC       TMC domain


Domain annotation for each model (and alignments):
>> TMC  TMC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   3.3   1.5e-05      0.26      10      84 ..       4      87 ..       2     100 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 1.5e-05
                      TMC 10 lykLvildllvtllvtllveflrkllvrkl..ssa......llkllgkqefdiaknvldlvy.nqtlvwlGlffsPlLplinvl 84
                             l+k++i+ l++++++t+l++++   + ++   s++       ++l+++ ++ ++  +++ +  +  l wlG+ff+P + + +v 
  PHY93_12820|PHY93_12820  4 LFKIIIIFLVISVVSTILYNYTDIDFGKIDffSKHgwiflfSIALFPRLTLLVSGLIVGSIEfGGLLWWLGFFFAPRILVATVA 87
                             789999999999999999999876555443213337778777788889999999988876651666789*******98765554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (142 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       757  (0.0422221); expected 358.6 (0.02)
Passed bias filter:                      327  (0.0182386); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.26s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 941.98
//
Query:       PHY93_12825|PHY93_12825  [L=151]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.2e-18   67.4   0.0    1.5e-18   67.1   0.0    1.1  1  OsmC      OsmC-like protein


Domain annotation for each model (and alignments):
>> OsmC  OsmC-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.1   0.0   8.6e-23   1.5e-18       2      98 ..      47     147 ..      46     149 .. 0.91

  Alignments for each domain:
  == domain 1  score: 67.1 bits;  conditional E-value: 8.6e-23
                              TXSSB-HHHHHHHHHHHHHHHHHHHHTCCCT---SCE..EEEEEEEEECCECTCEEEEEEEEEEE-SS..-H..HHHHHHHHHHHH CS
                     OsmC   2 dgsgpsPeelllaalasCfaitlravakkkgikledl..eveveaerdpegakgiteirlkvevkipg..adseeklkkllekaek 83 
                              +++  +Peell++alasC+++t+  +a+k g+ ++ +  ++ +++++++eg   it i+l++ ++++g  ++++++lk l++ka++
  PHY93_12825|PHY93_12825  47 NADMANPEELLASALASCHMLTFLVIASKSGYIVDTYndQAIATLDKNEEGKLAITVIDLRPAIEFSGekIPDDDQLKSLHDKAHR 132
                              56678***************************9999999999999999999889*************9664445************ PP

                              HSHHHHHHCT-SSSE CS
                     OsmC  84 rCpvsntlkngvkve 98 
                              +C+++n++k+ v++ 
  PHY93_12825|PHY93_12825 133 NCFIANSIKTKVNIH 147
                              *********999985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (151 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       462  (0.0257683); expected 358.6 (0.02)
Passed bias filter:                      378  (0.0210832); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.25s 00:00:00.73 Elapsed: 00:00:00.46
# Mc/sec: 980.98
//
Query:       PHY93_12830|PHY93_12830  [L=597]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.7e-50  169.8   1.5    1.1e-49  169.3   1.5    1.1  1  tRNA-synt_1d     tRNA synthetases class I (R)
    1.7e-28   99.1   0.4    1.7e-28   99.1   0.4    1.8  2  DALR_1           DALR anticodon binding domain
    7.9e-12   45.6   0.0    2.2e-11   44.2   0.0    1.8  1  Arg_tRNA_synt_N  Arginyl tRNA synthetase N terminal domain
     0.0032   15.8   1.7        0.3    9.3   0.4    2.1  2  tRNA-synt_1      tRNA synthetases class I (I, L, M and V)
     0.0055   16.1   0.7      0.042   13.2   0.2    2.3  2  tRNA-synt_1e     tRNA synthetases class I (C) catalytic domai
  ------ inclusion threshold ------
      0.062   13.2   0.3       0.45   10.5   0.4    2.4  2  SUV3_C           Mitochondrial degradasome RNA helicase subun


Domain annotation for each model (and alignments):
>> tRNA-synt_1d  tRNA synthetases class I (R)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  169.3   1.5   3.6e-53   1.1e-49      16     348 ..     131     466 ..     120     467 .. 0.88

  Alignments for each domain:
  == domain 1  score: 169.3 bits;  conditional E-value: 3.6e-53
                              -SST-EEEEE----BTTS--BHHHHHHHHHHHHHHHHHHHCT-EEEEEE--B-SSTCHHHHHHHHHHHTTTTTTS-..----SCCC CS
             tRNA-synt_1d  16 srekkkvvvdfssPniakemhvGhLrstiiGdavsrlleflGydvirlnhvGDWGtqfGlLiaylekkqdekllqe..qelqdLea 99 
                               ++k kv+++fs Pn  ke+hvGh r   +Gd++ r++ + G++vi +n++GD Gt     +  +e+++ e+l++   ++ + L +
  PHY93_12830|PHY93_12830 131 INNKTKVMIEFSQPNTHKEFHVGHGRNVCLGDSLCRIFSYNGFKVIPVNYIGDEGTHIAKCLWAVEHYKGEQLTEAivNKAEWLGQ 216
                              57899******************************************************999999999999977432145566889 PP

                              HHHHHHHHCCC..SHC...CCHHHHHHHHHHHCT-HHHHHHHHHHHHHHHHHHHHHHHHCT---EC.--CCCCCCCHHHHHHHHHC CS
             tRNA-synt_1d 100 fykeakkdyde..eei...faerarnyvvkLqsgdedirklwkllvditrtelqklydrldvtlie.rGeslykeslneivkelkk 179
                               y+ea+ ++ e  +e    ++ +   +++ ++++  ++ + wk   ++  ++++++y+ ldv   +   es   e  +eiv+e+ +
  PHY93_12830|PHY93_12830 217 RYVEANAKLKEanDETkiiYNTEISTILKAIENKSGKYYESWKITRQYCLEDFDRIYKWLDVHFEHlFYESEVSEASQEIVDEYIA 302
                              9***99988652145477688899999***********************************9977789**889999********* PP

                              TT-EEECTTCEEEEECCCTSSCCE.ECC-TTS-B-HHHHHHHHHHHHHHTT--SEEEEEEECCCHHHHHHHHHHHHCTTSSTTTSE CS
             tRNA-synt_1d 180 kglvkesdGalvvfldefgkrlgv.vvqksDGgylytttDiaaakerkeelkadkvlyvidsrqslhlqqiflilkkigyvpeskd 264
                              k+l +e+ Ga   +++   k+lg  + +ksDG++ y t+D+a ak + ++  +d+ +yv+ s+q  h++q+f +l ++g+  ++k+
  PHY93_12830|PHY93_12830 303 KSLFVEDKGAFGFDMS--DKKLGFfMARKSDGSTPYITKDLALAKVKFNDFDIDRSIYVVGSEQIFHFKQLFYALEQMGF-EQAKQ 385
                              ***********99999..9****98899****************************************************.67*** PP

                              EEEEEE--EE-TTSSBSBCSSSTC-BHHHHHHHHHHHHHHHHCCCCCCTS-CCCCHCHHHHHHHHHHHHCCCCTS-TTS-EE-- CS
             tRNA-synt_1d 265 lehanfGmvlgkdkkkfktrkGetvkLadlLdealeralqlikeknkdkvlqadelekvaeavgvgaikyaDlsknrindyifd 348
                                h ++G+v+  +  k++ r+G+t+ + +l++  ++   q + +k kd   +a+ l+  a+ ++vgaiky  l+ +  ++ +fd
  PHY93_12830|PHY93_12830 386 CYHLSYGLVVRPE-GKMSSRAGNTITFLQLINLVVDEINQYL-DKYKDEWDKAQMLD-TAHKLAVGAIKYGMLQADPNKEIVFD 466
                              *********6555.579***************9999999955.66666455555544.56779*******99988877777775 PP

>> DALR_1  DALR anticodon binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.1       3.8   1.1e+04      11      39 ..     207     235 ..     205     249 .. 0.66
   2 !   99.1   0.4   5.8e-32   1.7e-28       1     117 [.     481     597 .]     481     597 .] 0.99

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 3.8
                              HHHHTTCTTCCCCHCCHCCS-SHHHHHHH CS
                   DALR_1  11 ilrkaeeegekleeealalleeeeekeLl 39 
                              i +kae  g+++ e++++l e ++e +++
  PHY93_12830|PHY93_12830 207 IVNKAEWLGQRYVEANAKLKEANDETKII 235
                              66777777777777777773333555544 PP

  == domain 2  score: 99.1 bits;  conditional E-value: 5.8e-32
                              HHHHHHHHHHHHHHTTCTTCCCCHCCHCCS-SHHHHHHHHHHHTHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHHHHCTSTTSCT CS
                   DALR_1   1 vqyahaRiksilrkaeeegekleeealalleeeeekeLlkalaqfpevleeaaeelephklaeylyeLaatfhkfYnkervlkeee 86 
                              ++y++aR++sil+ka+e+g +l+ ++l+ll++e+e++L+++l +f++++  a+e+++ +++a++l+  ++++++fYn+++v+k+e 
  PHY93_12830|PHY93_12830 481 LMYSYARTQSILTKAREQGLELSLDHLDLLTHEAERDLMRHLYDFNQTVLYACENYKHSTIANHLFFTCKAYNRFYNEVSVMKAET 566
                              68************************************************************************************ PP

                              HHH.HHHHHHHHHHHHHHHHHHHHTT----S CS
                   DALR_1  87 eelaaaRLaLvkavrqvLangLdlLGieape 117
                              e+l+ aRLaL++a  ++L++gL lLGi++pe
  PHY93_12830|PHY93_12830 567 EDLRGARLALLNAFGNTLKKGLYLLGITPPE 597
                              *****************************97 PP

>> Arg_tRNA_synt_N  Arginyl tRNA synthetase N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.2   0.0   7.3e-15   2.2e-11       4      84 ..      17     103 ..      15     104 .. 0.92

  Alignments for each domain:
  == domain 1  score: 44.2 bits;  conditional E-value: 7.3e-15
                              HHHHHHHHHHHH......SS-HHHHGGG-E-.SSGGG-SEEEEGGGG--TT-..-HHHHHHHHHHT---TTT..EEEEEEETT.EE CS
          Arg_tRNA_synt_N   4 keaiaealkkaa......gadleeeeiviekpknpkfGDyatnvamqlakklkknPreiAeeiaekleksei..iekvevagpGFi 81 
                              ++++ +al+k+a      ++dl +   ++e+p+++  GDya++ ++++ak+lkk P+  Aee++ +l++s++  ie+v   g+ F+
  PHY93_12830|PHY93_12830  17 ATSLYAALEKTAggalptDIDLLVCFKALEQPPEKTLGDYALP-CFRFAKALKKIPNAMAEELKRELDASNNpwIESVILKGA-FL 100
                              566778888888888888888999999****************.8*************************999*********9.** PP

                              EEE CS
          Arg_tRNA_synt_N  82 Nff 84 
                              N+f
  PHY93_12830|PHY93_12830 101 NIF 103
                              *98 PP

>> tRNA-synt_1  tRNA synthetases class I (I, L, M and V)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.8   0.0    0.0011       3.4      21      63 ..     133     175 ..     119     192 .. 0.87
   2 !    9.3   0.4    0.0001       0.3     390     600 ..     224     464 ..     197     466 .. 0.75

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.0011
              tRNA-synt_1  21 ekkefilvdgPPyvtGslHiGhalaktlkdivirykrmkGkev 63 
                              +k + ++    P+   + H+Gh  +  l d ++r+ + +G++v
  PHY93_12830|PHY93_12830 133 NKTKVMIEFSQPNTHKEFHVGHGRNVCLGDSLCRIFSYNGFKV 175
                              47778888999*****************************997 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.0001
              tRNA-synt_1 390 aalkavekvqfvpkskekryaswleni.....qdWciSRqrwWG..hriplfvsketeevvvreelkelvagreeeeaekkaleke 468
                              ++ +a+++++++ +++ +++ + +en      + W i Rq       ri  + + ++e +  ++e++e  ++++ e  +k+ +  e
  PHY93_12830|PHY93_12830 224 KLKEANDETKIIYNTEISTILKAIENKsgkyyESWKITRQYCLEdfDRIYKWLDVHFEHLFYESEVSEASQEIVDEYIAKSLFV-E 308
                              455666688888888888888888886222225799999977652269999999999999998888888876665555555544.3 PP

              tRNA-synt_1 469 akdklkkekgelekdedvlDvWFsSgswpfstlgypeedteelkkf.fpadmlleGlDiirgWvarlillslaltgsePfkevlvh 553
                               k  +  + +   k+   +    s gs+p+ t +     + ++++f    ++++ G+ +i+   +    l    ++++     l  
  PHY93_12830|PHY93_12830 309 DKGAF--GFDMSDKKLGFFMARKSDGSTPYITKDLALA-KVKFNDFdIDRSIYVVGSEQIFHFKQLFYALEQMGFEQAKQCYHLSY 391
                              33344..7778888888898999999999999998877.555554326789********987654444333333344433445789 PP

              tRNA-synt_1 554 glvrdeeGrKmSKslgNvidpldvik...........................kygadalRltlilsdvgrdin 600
                              glv+  eG KmS + gN+i  l++i+                           k+++ a+++ ++++d  ++i 
  PHY93_12830|PHY93_12830 392 GLVVRPEG-KMSSRAGNTITFLQLINlvvdeinqyldkykdewdkaqmldtahKLAVGAIKYGMLQADPNKEIV 464
                              ********.7****************999999999999999999999999999999999999999888888775 PP

>> tRNA-synt_1e  tRNA synthetases class I (C) catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.2   0.2   1.4e-05     0.042       8      94 ..     135     280 ..     128     354 .. 0.68
   2 ?    0.6   0.0     0.094   2.8e+02     211     271 ..     358     418 ..     342     440 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.4e-05
                              TEEEEEEEEEBTTS--BHHHHHHHHHHHHHHHHHHHTT-EEEEEEEBB--SHHHHHH..HHHTTS-.................... CS
             tRNA-synt_1e   8 kkvtlYvCGptvydashlGhaRslvafDilrrilqalgYdvqfvqnvtDidDkiikr..areeeks.................... 71 
                               kv +    p  + + h+Gh+R++   D l ri+ + g++v  v+ + D    i k   a+e++k                     
  PHY93_12830|PHY93_12830 135 TKVMIEFSQPNTHKEFHVGHGRNVCLGDSLCRIFSYNGFKVIPVNYIGDEGTHIAKClwAVEHYKGeqlteaivnkaewlgqryve 220
                              566777777888999********************************998888876422555555466666666666666666666 PP

                              .....................................HHHHHHHHHHHHHHHHHHTT--- CS
             tRNA-synt_1e  72 .....................................vkelaekfieefkkdleaLnvlk 94 
                                                                   +k   ++  e+f + ++ L+v+ 
  PHY93_12830|PHY93_12830 221 anaklkeandetkiiynteistilkaienksgkyyesWKITRQYCLEDFDRIYKWLDVHF 280
                              666666666666666666666666666666666666444444455566666666666654 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.094
                              EEEEGGGTTTHHHHHHHHHHHHSSS--EEEEEEE--EEETTBE--TTTT---BHHHHHTTS CS
             tRNA-synt_1e 211 hsGGiDLafPhhenelaqseaafdkqlvkyflhnghlkiegekmsksLknfitikdvlkkf 271
                              ++ G++ +f   +   a ++  f++    y+l  g +   + kms   +n it  ++++ +
  PHY93_12830|PHY93_12830 358 YVVGSEQIFHFKQLFYALEQMGFEQAKQCYHLSYGLVVRPEGKMSSRAGNTITFLQLINLV 418
                              55666666766666777788888888889999*****999************998887765 PP

>> SUV3_C  Mitochondrial degradasome RNA helicase subunit C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0       1.7   5.1e+03      16      24 ..     213     221 ..     213     235 .. 0.75
   2 ?   10.5   0.4   0.00015      0.45      14      46 ..     273     305 ..     272     306 .. 0.96

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 1.7
                              HHHHH---- CS
                   SUV3_C  16 WLSyRfpev 24 
                              WL++R+ e+
  PHY93_12830|PHY93_12830 213 WLGQRYVEA 221
                              9****9765 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 0.00015
                              HHHHHHH-------HHHHHHHHHHHHHHHHHHH CS
                   SUV3_C  14 YlWLSyRfpevFpdrelaeelkkeveekIeeaL 46 
                              Y WL  +f++ F + e  e+ ++ v+e+I ++L
  PHY93_12830|PHY93_12830 273 YKWLDVHFEHLFYESEVSEASQEIVDEYIAKSL 305
                              88***************************9998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (597 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       718  (0.0400469); expected 358.6 (0.02)
Passed bias filter:                      473  (0.0263818); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.68u 0.25s 00:00:00.93 Elapsed: 00:00:00.47
# Mc/sec: 3826.20
//
Query:       PHY93_16945|PHY93_16945  [L=189]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.5e-46  156.0   9.1      1e-45  155.8   9.1    1.1  1  DUF4337          Domain of unknown function (DUF4337)
  ------ inclusion threshold ------
      0.044   14.0   4.7      0.087   13.1   4.7    1.4  1  Ribosomal_L30_N  Ribosomal L30 N-terminal domain


Domain annotation for each model (and alignments):
>> DUF4337  Domain of unknown function (DUF4337)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  155.8   9.1   1.1e-49     1e-45       1     161 []      21     176 ..      21     176 .. 0.97

  Alignments for each domain:
  == domain 1  score: 155.8 bits;  conditional E-value: 1.1e-49
                  DUF4337   1 nkkvAlliailAvllAisslkggnaqteailaqaeasdqWafYQAksikehlaeleleqlelllkakaeelaaavdkkiakykkki 86 
                              n+k+A+++a+ A+++Ai+++k+gn+++++ +aqa++ d W+++QAks+k+++ae++le l++      +++++ v ++ +++++ki
  PHY93_16945|PHY93_16945  21 NSKIAIMVAVSATIMAICNIKDGNIVQAMSQAQAHSIDSWSYFQAKSTKQSIAENSLELLKIS-----PQKDQVVVNQEKRLEDKI 101
                              579****************************************************99988885.....6777788899******** PP

                  DUF4337  87 arykkekkeikkkAkeleaerdeaneasdkfdlasalLqiaIvlaaialltkkklllylslvlglvGlvlflagf 161
                               +y+kek+eik+kA+++e+e++++n+ +d+fd+ +a++ iaI++  +++lt+kk+l+y++  + + G++++la+f
  PHY93_16945|PHY93_16945 102 IKYEKEKTEIKNKAEAFEKEYEDLNVFDDQFDMTEAFISIAIAMLGVTALTQKKWLFYFASTVSISGVLMGLAAF 176
                              *************************************************************************98 PP

>> Ribosomal_L30_N  Ribosomal L30 N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   4.7   9.7e-06     0.087       5      50 ..      79     124 ..      78     126 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 9.7e-06
          Ribosomal_L30_N   5 llKKrkrneklkakrakkaaakkkankkkrklifkRaekYvkEYrq 50 
                              llK   ++ +  +++ k+ ++k  + +k++ +i+ +ae+++kEY++
  PHY93_16945|PHY93_16945  79 LLKISPQKDQVVVNQEKRLEDKIIKYEKEKTEIKNKAEAFEKEYED 124
                              677777888889999999999999********************85 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (189 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2132  (0.118913); expected 358.6 (0.02)
Passed bias filter:                      572  (0.0319036); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.28s 00:00:00.80 Elapsed: 00:00:00.47
# Mc/sec: 1216.26
//
Query:       PHY93_12835|PHY93_12835  [L=312]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    9.2e-33  113.4   0.0    1.2e-32  113.0   0.0    1.1  1  LysR_substrate  LysR substrate binding domain
    6.1e-15   54.9   0.0    9.8e-15   54.3   0.0    1.4  1  HTH_1           Bacterial regulatory helix-turn-helix protein
  ------ inclusion threshold ------
       0.18   11.6   0.0        0.4   10.5   0.0    1.5  1  HTH_30          PucR C-terminal helix-turn-helix domain


Domain annotation for each model (and alignments):
>> LysR_substrate  LysR substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  113.0   0.0     2e-36   1.2e-32       2     189 ..      87     277 ..      86     295 .. 0.95

  Alignments for each domain:
  == domain 1  score: 113.0 bits;  conditional E-value: 2e-36
                              TTSCEEEEEEEECCCHHHHHHHHHHHHHHHSTTEEEEEEEESHHHHHHHHHTTSSSEEEEESSSCCTTEEEEEEEEEEEEEEEETT CS
           LysR_substrate   2 gglrgrLrigapptlaryllppllarfraryPevelelvegdseelldllaegelDlairagppedsglearpLaeeplvlvaspd 87 
                              ++ +g +r+g++ptla+y++p +  +f ++yP v l ++e  +ee+++ll+  elD +++  p+  ++++ r+L++ep+ ++as++
  PHY93_12835|PHY93_12835  87 DEVGGDFRLGVIPTLAPYVIPLFAGAFVKKYPLVNLTIEEFKTEEIIELLNIDELDSGLLVTPLVGESFIERVLFHEPFSVFASKN 172
                              6789********************************************************************************** PP

                              SGGGGSSSECGGGGCTSEEEEESTTSTHHHHHHHHHHCT...TEECEEEEEESSHHHHHHHHHTTS-BEEEEGGGHHCCCHTTTEE CS
           LysR_substrate  88 hpLargepvsledLadeplilleegsglrdlledalrea...glkprvalevnsleallalvaaGlGiallprsavrdeladgrlv 170
                              h L ++ ++   dL + +  ll+eg+++r+++++++  +   gl+ +  +e+ +le+l+++v++  G +llp++av +  ++++  
  PHY93_12835|PHY93_12835 173 HSLLKKSKIKDKDLDRADVWLLNEGHCFRQQVLNLCNFSkniGLHDNLKFESGNLETLKNMVLHSQGYTLLPELAVLNLSNEDKKH 258
                              ************************************9888778888**********************************888888 PP

                              EEEESSTTCE.EEEEEEEET CS
           LysR_substrate 171 alplpepplp.relylvyrk 189
                              ++++++ p+p re++lv+++
  PHY93_12835|PHY93_12835 259 VREFQN-PIPtREVSLVHNR 277
                              8*****.8888******987 PP

>> HTH_1  Bacterial regulatory helix-turn-helix protein, lysR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.3   0.0   1.6e-18   9.8e-15       2      59 ..       4      61 ..       3      62 .. 0.97

  Alignments for each domain:
  == domain 1  score: 54.3 bits;  conditional E-value: 1.6e-18
                             HHHHHHHHHHHHSSHHHHHHHHTS-HHHHHHHHHHHHHHHTS-SEEESSSEEEE-HHH CS
                    HTH_1  2 rqlrlfvavaeegsftrAAeeLglsqpavsrqikrLEeelgvpLfeRtgrglrLTeaG 59
                              ql++ +av + ++f +AA+++ ++qp++s+q+++ Eeelgv Lf+R+++ +  T++G
  PHY93_12835|PHY93_12835  4 TQLEYILAVEKFRHFGKAAKACSVTQPTLSMQLQKAEEELGVVLFDRSKNPIITTDEG 61
                             79*********************************************9999*****99 PP

>> HTH_30  PucR C-terminal helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   6.7e-05       0.4      15      45 ..      18      48 ..      11      52 .. 0.87

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 6.7e-05
                             HHHHHHHHTS-HHHHHHHHHHHHHHHS--TT CS
                   HTH_30 15 isatAkaLhvHrnTlryRLrrieellgldld 45
                               ++Aka  v   Tl+  L+++ee lg+ l 
  PHY93_12835|PHY93_12835 18 FGKAAKACSVTQPTLSMQLQKAEEELGVVLF 48
                             569************************8765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (312 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       489  (0.0272742); expected 358.6 (0.02)
Passed bias filter:                      354  (0.0197445); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.53u 0.27s 00:00:00.80 Elapsed: 00:00:00.47
# Mc/sec: 2016.71
//
Query:       PHY93_12840|PHY93_12840  [L=241]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (241 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       655  (0.036533); expected 358.6 (0.02)
Passed bias filter:                      268  (0.0149478); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.25s 00:00:00.72 Elapsed: 00:00:00.43
# Mc/sec: 1678.63
//
Query:       PHY93_12845|PHY93_12845  [L=453]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.6e-49  166.2   0.0    4.8e-23   82.2   0.0    2.3  2  ABC_tran         ABC transporter
    2.4e-18   67.0  16.6    8.4e-07   29.1   0.1    4.1  4  AAA_21           AAA domain, putative AbiEii toxin, Type IV T
    1.7e-09   37.3   1.4    1.3e-05   24.8   0.1    2.6  2  AAA_29           P-loop containing region of AAA domain
    1.6e-08   35.1   0.2    0.00014   22.3   0.2    2.8  2  AAA_16           AAA ATPase domain
    2.1e-07   30.6   9.6    7.4e-05   22.3   0.2    4.0  3  SMC_N            RecF/RecN/SMC N terminal domain
    3.1e-07   30.4   2.4      0.013   15.4   0.0    2.8  3  RsgA_GTPase      RsgA GTPase
    4.5e-07   30.2   2.9      4e-05   23.9   0.1    3.5  3  AAA_22           AAA domain
    6.3e-07   29.5   1.5     0.0027   17.6   0.0    2.8  2  Rad17            Rad17 P-loop domain
      2e-06   27.7   0.2     0.0095   15.7   0.0    2.7  2  AAA_30           AAA domain
    2.1e-06   27.3   0.1     0.0044   16.4   0.0    2.4  2  Mg_chelatase     Magnesium chelatase, subunit ChlI
    5.1e-06   25.7   0.5     0.0011   18.0   0.1    2.2  2  T2SSE            Type II/IV secretion system protein
    8.6e-06   26.1   0.1       0.13   12.7   0.0    2.8  2  RNA_helicase     RNA helicase
    1.7e-05   25.5  11.6    0.00089   19.8   3.6    3.0  2  AAA_23           AAA domain
    0.00014   21.9   6.7      0.033   14.1   0.1    3.0  3  NACHT            NACHT domain
     0.0028   17.6   2.5       0.17   11.8   0.1    2.8  2  ATPase_2         ATPase domain predominantly from Archaea
     0.0036   16.6   0.9        1.2    8.3   0.2    2.9  2  KAP_NTPase       KAP family P-loop domain
     0.0049   16.9   2.3       0.55   10.2   0.1    3.1  2  AAA_5            AAA domain (dynein-related subfamily)
     0.0053   16.2   0.2       0.25   10.7   0.0    2.7  3  PhoH             PhoH-like protein
     0.0058   17.2   4.9     0.0095   16.5   0.9    3.3  2  AAA_18           AAA domain
     0.0068   16.3   0.0        2.2    8.1   0.0    2.5  2  dNK              Deoxynucleoside kinase
     0.0069   15.6   0.1        1.8    7.7   0.0    2.5  2  PIF1             PIF1-like helicase
     0.0081   16.3   2.0       0.17   12.0   0.2    2.9  3  AAA_33           AAA domain
     0.0081   15.6   0.8       0.46    9.9   0.0    2.7  3  TniB             Bacterial TniB protein
     0.0089   15.7   0.1        0.3   10.8   0.0    2.3  2  Sigma54_activat  Sigma-54 interaction domain
      0.009   15.4   0.1      0.085   12.2   0.0    2.1  2  FtsK_SpoIIIE     FtsK/SpoIIIE family
  ------ inclusion threshold ------
      0.019   14.7   0.0        4.3    7.0   0.0    2.9  3  RuvB_N           Holliday junction DNA helicase RuvB P-loop d
      0.021   13.8   0.3       0.14   11.0   0.1    2.0  2  AAA_PrkA         PrkA AAA domain
      0.021   14.3   0.1       0.14   11.6   0.1    2.2  2  AAA_7            P-loop containing dynein motor region
      0.023   13.7   0.1        5.4    5.9   0.0    2.3  2  MeaB             Methylmalonyl Co-A mutase-associated GTPase 
      0.028   14.2   0.2       0.73    9.5   0.0    2.9  3  IstB_IS21        IstB-like ATP binding protein
       0.03   13.9   0.2       0.11   12.1   0.0    1.9  1  AAA_25           AAA domain
      0.032   13.8   0.8        3.8    7.0   0.0    2.7  3  AAA_27           AAA domain
      0.035   13.3   0.0        6.8    5.8   0.0    2.4  2  DUF815           Protein of unknown function (DUF815)
      0.039   14.2   2.1       0.18   12.1   0.0    2.6  2  AAA_28           AAA domain
      0.042   13.7   0.2       0.45   10.4   0.0    2.5  2  APS_kinase       Adenylylsulphate kinase
      0.042   13.6   0.1        4.4    7.0   0.0    2.3  2  VirE             Virulence-associated protein E
      0.043   13.9   4.2        1.9    8.6   0.1    3.5  3  MMR_HSR1         50S ribosome-binding GTPase
      0.045   13.5   0.2       0.96    9.2   0.0    2.3  2  AAA_11           AAA domain
      0.053   13.5   0.3        4.7    7.2   0.0    2.3  2  TsaE             Threonylcarbamoyl adenosine biosynthesis pro
      0.054   12.8   0.7       0.55    9.5   0.0    2.5  2  Zeta_toxin       Zeta toxin
      0.055   12.6   0.4       0.98    8.5   0.0    2.2  2  MCM              MCM P-loop domain
      0.055   13.2   2.7       0.22   11.2   0.1    2.5  2  AAA_24           AAA domain
      0.055   12.2   1.6       0.61    8.8   0.1    2.3  2  ABC_ATPase       Predicted ATPase of the ABC class
      0.063   12.9   3.6       0.24   11.0   0.2    2.8  2  cobW             CobW/HypB/UreG, nucleotide-binding domain
      0.066   12.4   0.1       0.48    9.6   0.0    2.1  2  DUF2075          Uncharacterized conserved protein (DUF2075)
      0.084   12.0   0.6        1.2    8.2   0.1    2.4  2  NB-ARC           NB-ARC domain
      0.086   13.2   0.6       0.83   10.0   0.1    2.3  2  AAA_19           AAA domain
        0.1   13.0   1.0        8.9    6.7   0.5    3.1  2  AAA              ATPase family associated with various cellul
       0.12   12.1   0.1       0.77    9.5   0.0    2.3  2  PRK              Phosphoribulokinase / Uridine kinase family
       0.15   11.8   1.3       0.59    9.9   0.1    2.3  2  PduV-EutP        Ethanolamine utilisation - propanediol utili
       0.15   11.9   0.0        7.6    6.3   0.0    2.4  2  CPT              Chloramphenicol phosphotransferase-like prot
       0.17   11.0   4.8       0.15   11.2   0.7    2.0  2  G-alpha          G-protein alpha subunit
       0.21   11.5   0.2       0.21   11.5   0.2    2.9  2  NTPase_1         NTPase
       0.32   11.0   7.6       0.36   10.8   0.1    3.5  3  AAA_14           AAA domain
       0.36   10.5  21.8       0.35   10.5   4.2    3.0  3  AAA_15           AAA ATPase domain
       0.39   10.0   2.3       0.71    9.2   0.0    2.5  3  ATPase           KaiC
       0.57    9.5   3.2         11    5.3   0.0    3.2  4  AAA_8            P-loop containing dynein motor region D4
          1    9.6   2.9         28    5.0   0.1    3.3  3  Roc              Ras of Complex, Roc, domain of DAPkinase


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   81.9   0.0   1.9e-25     6e-23       8     137 .]      26     170 ..      21     170 .. 0.85
   2 !   82.2   0.0   1.6e-25   4.8e-23       1     136 [.     266     401 ..     266     402 .. 0.89

  Alignments for each domain:
  == domain 1  score: 81.9 bits;  conditional E-value: 1.9e-25
                              EETTSEEEEEESTTSSHHHHHHHHTTSS--.....SEEEEEETTCEGGGB-HHHCCHCEEEE-SS..--S-TTSBHHHH....... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxx....... RF
                 ABC_tran   8 lkegekvaivGenGaGKStLlkllagllkp.....teGeilldgkdlkeqeleslrkeigvlpqe..pqlfpeltvren....... 79 
                              ++e e+v i+G++G+GKStLl++l g   +      +G+il++gk+l+ ++ ++  k i +l+q+  +ql + + v+e+       
  PHY93_12845|PHY93_12845  26 INEKEVVLITGPSGSGKSTLLQMLKGIIPKytsgeFKGQILYKGKSLDGESFQQNLKDILFLFQNpfAQLIYPH-VAEEfffsmen 110
                              8999**********************9988877777999**************************777777777.66667*****9 PP

                              ..HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              ..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ..esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                                   e+++k +++l+ +   d  +++++++LS+G+ q+++la +l+ +p++lllDEpta
  PHY93_12845|PHY93_12845 111 fnFTHEQMDKKREELESSFNLDAFWRKKTTELSHGECQKLVLASLLAIDPQVLLLDEPTA 170
                              99444556666666666666666666666*****************************97 PP

  == domain 2  score: 82.2 bits;  conditional E-value: 1.6e-25
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEET.TCEGGGB-HHHCCHCEEEE-SS..--S-TTSBHHHH.HHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxx.xxx RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilld.gkdlkeqeleslrkeigvlpqe..pqlfpeltvren.esd 82 
                              l++vslk + ge+++i G+nG GKS+Llk+lag  kp +G+i+l+ ++ +   +l+   keig+++q+  +++f+++ ++e+ ++ 
  PHY93_12845|PHY93_12845 266 LEDVSLKASSGEILVIKGKNGKGKSSLLKILAGIIKPLSGTIELKkNNRIV--PLKNHFKEIGFIFQNpeSHFFYDT-IEEElKAF 348
                              689***************************************999444444..6**************877888888.77776888 PP

                              TCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  83 eeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                              ++ +++   lgl   kd  +k+sp  LS+G+k+r+++ ++++ ++++ll DEpt
  PHY93_12845|PHY93_12845 349 ANRDDLKILLGLFF-KDIDLKRSPFLLSEGEKRRLSILMTVFLNKSILLYDEPT 401
                              88888888888777.778889999*****************************9 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.7   3.4e-06    0.0011       2     120 ..      32     120 ..      31     133 .. 0.77
   2 !   29.1   0.1   2.7e-09   8.4e-07     174     294 ..     103     194 ..      99     195 .. 0.84
   3 !   18.3   1.8   5.3e-06    0.0016       2      94 ..     279     356 ..     278     369 .. 0.86
   4 !   12.2   0.5   0.00037      0.11     220     302 ..     357     436 ..     338     437 .. 0.82

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 3.4e-06
                   AAA_21   2 nvliGpNgsGKSnLLdaldllarldrdvegltdelsggggirkipslldlydpeipfefeieeflsqgvryryglrlersqveekl 87 
                               +++Gp gsGKS+LL+ l+++                   i+k++s  + +++ ++++  + e ++q+ +   +l ++ ++     
  PHY93_12845|PHY93_12845  32 VLITGPSGSGKSTLLQMLKGI-------------------IPKYTSGEFKGQILYKGKSLDGESFQQNLKDILFLFQNPFAQ---- 94 
                              689***************987...................899999999999999999999999999988888888888888.... PP

                   AAA_21  88 ssvetllesgllldkrsleeedvfnpeargirg 120
                                     ++++ + ++  +++ +fn +++  ++
  PHY93_12845|PHY93_12845  95 -------LIYPHVAEEFFFSMENFNFTHEQMDK 120
                              .......66666666666666666665555554 PP

  == domain 2  score: 29.1 bits;  conditional E-value: 2.7e-09
                   AAA_21 174 dyfgfakekrllqrlvrslklveielsdlgegeeliasvderlrergvvflengdgqelparelSdGtkrllalltallralkkgs 259
                              ++f+ +++ +++ + +++ ++      +l++++++ ++                        elS G  +   +l++ll+ ++   
  PHY93_12845|PHY93_12845 103 EFFFSMENFNFTHEQMDKKREELESSFNLDAFWRKKTT------------------------ELSHGECQK-LVLASLLAIDP--Q 161
                              66777777788888888888888888888877777774........................77*******.99999999888..9 PP

                   AAA_21 260 llliDEpEngLHPkllrrllellkelsrngaQvil 294
                              +ll+DEp ++L+P++ + ++ +lk+ +   +Q+i+
  PHY93_12845|PHY93_12845 162 VLLLDEPTAFLDPEARADFYNWLKKIKG--SQIII 194
                              ***********************99977..***98 PP

  == domain 3  score: 18.3 bits;  conditional E-value: 5.3e-06
                   AAA_21   2 nvliGpNgsGKSnLLdaldllarldrdvegltdelsggggirkipslldlydpeipfefeieeflsqgvryryglrlersqveekl 87 
                               v+ G+Ng GKS+LL++l      ++ +++l  +   ++++r++p +  ++++   f+   ++f+ + ++ +  +  +r+++    
  PHY93_12845|PHY93_12845 279 LVIKGKNGKGKSSLLKIL------AGIIKPLSGTIELKKNNRIVPLKNHFKEIGFIFQNPESHFFYDTIEEELKAFANRDDL---- 354
                              699***************......66689*************************************9999999999999998.... PP

                   AAA_21  88 ssvetll 94 
                                   + 
  PHY93_12845|PHY93_12845 355 -----KI 356
                              .....44 PP

  == domain 4  score: 12.2 bits;  conditional E-value: 0.00037
                   AAA_21 220 gvvflengdgqelparelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQv.iltTHSplll 302
                               + ++ ++ + +++++ lS+G kr l +l  ++      s+ll DEp  g + + ++ + e++ +l++  +++ il +H+  ++
  PHY93_12845|PHY93_12845 357 LLGLFFKDIDLKRSPFLLSEGEKRRLSILMTVFLNK---SILLYDEPTFGQDQESISIIREMILQLKN-TGKIqILISHDDNFI 436
                              5667788889999************99999999877...************************88888.777778888887665 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.8   0.1   4.3e-08   1.3e-05      12      39 ..      19      46 ..      16      53 .. 0.87
   2 !   10.6   0.2    0.0011      0.35      17      39 ..     271     293 ..     264     304 .. 0.78

  Alignments for each domain:
  == domain 1  score: 24.8 bits;  conditional E-value: 4.3e-08
                   AAA_29 12 fdghtieidlkgatlltGpsGsGKSTll 39
                             f +++i i++k+++l+tGpsGsGKSTll
  PHY93_12845|PHY93_12845 19 FCDEKIIINEKEVVLITGPSGSGKSTLL 46
                             556778899999***************8 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 0.0011
                   AAA_29  17 ieidlkg.atlltGpsGsGKSTll 39 
                              ++ +  g + ++ G++G GKS+ll
  PHY93_12845|PHY93_12845 271 LKASS-GeILVIKGKNGKGKSSLL 293
                              45554.449999**********98 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.3   0.2   4.6e-07   0.00014      22      61 ..      27      62 ..      20     249 .. 0.85
   2 !   10.2   0.0    0.0024      0.73      12      49 ..     265     301 ..     260     383 .. 0.70

  Alignments for each domain:
  == domain 1  score: 22.3 bits;  conditional E-value: 4.6e-07
                   AAA_16 22 grpelvllsGesGvGKsslvrellralekdggiflrgkcd 61
                             ++ e+vl++G+sG+GKs+l+++l+  + k     ++g+++
  PHY93_12845|PHY93_12845 27 NEKEVVLITGPSGSGKSTLLQMLKGIIPKY----TSGEFK 62
                             56799*****************99766655....555544 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 0.0024
                   AAA_16  12 LlsalervrsgrpelvllsGesGvGKsslvrellrale 49 
                              Ll+ ++ ++++++e++++ G  G GKssl++ l+  ++
  PHY93_12845|PHY93_12845 265 LLEDVS-LKASSGEILVIKGKNGKGKSSLLKILAGIIK 301
                              444443.5556669****************88875433 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.3   0.2   2.4e-07   7.4e-05      11     211 ..      17     213 ..      10     221 .. 0.68
   2 ?    5.8   0.5     0.026       7.9      25      42 ..     277     294 ..     266     301 .. 0.83
   3 ?    4.1   0.2     0.087        27     136     205 ..     373     439 ..     306     450 .. 0.76

  Alignments for each domain:
  == domain 1  score: 22.3 bits;  conditional E-value: 2.4e-07
                              TTEECEEEEEETTSSEEEEEESTTSSHHHHHHHHHHHCTT.TTTTTTCHCCCCCC--BTTCSSTTEEEEEEEEEETTEESSSSSSC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N  11 ksyagktvilpfsksftaivGpNGSGKsnlldAilFvLGersakklrseklsdlihkskekasvkkaeveitfdnedkklkiekee 96 
                              k + ++++i+  +k++  i+Gp GSGKs ll+ ++ ++ + ++ +++ + l +  +   e+ +++  ++  +f+n+ ++l   +  
  PHY93_12845|PHY93_12845  17 KVFCDEKIII-NEKEVVLITGPSGSGKSTLLQMLKGIIPKYTSGEFKGQILYKGKSLDGESFQQNLKDILFLFQNPFAQLIYPHVA 101
                              4455445544.56779**********************999998888877766555455666677778999999999994444333 PP

                              EEEEEEEETTSEEEEEETTEEE-HHHHHHHHHCTT-...STTCS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N  97 vsisrrvkrkgeseykingkevtkkevsellesagi...skelLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkv 179
                               +   ++   ++ +++ ++ + +++e+++ ++   +   + ++LS Ge + + la l+Ai   +p+ + llDe  a LD + ++ +
  PHY93_12845|PHY93_12845 102 EEFFFSM---ENFNFTHEQMDKKREELESSFNLDAFwrkKTTELSHGECQKLVLASLLAI---DPQ-VLLLDEPTAFLDPEARADF 180
                              3333333...334444444444555555555555542115568*****988888888887...465.5689*************** PP

                              HHHHHHHCTTSEEEEE-..SSHHHCCC-SCEEEE CS
                              xxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxx RF
                    SMC_N 180 aellkeksknaQfivis..lreemlekadklvgv 211
                               + lk+ +  +Q+i++   + +e+l  +d+++ v
  PHY93_12845|PHY93_12845 181 YNWLKKIK-GSQIIIVVdhHLDEILPLVDQVLHV 213
                              *****987.8888876422344555555555555 PP

  == domain 2  score: 5.8 bits;  conditional E-value: 0.026
                              SEEEEEESTTSSHHHHHH CS
                              xxxxxxxxxxxxxxxxxx RF
                    SMC_N  25 sftaivGpNGSGKsnlld 42 
                              ++ +i G+NG GKs+ll 
  PHY93_12845|PHY93_12845 277 EILVIKGKNGKGKSSLLK 294
                              577999*********986 PP

  == domain 3  score: 4.1 bits;  conditional E-value: 0.087
                              CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTT..SEEEEE-SSHHHCCC- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxx RF
                    SMC_N 136 lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkekskn..aQfivislreemleka 205
                              lLS Gek    l++l+ +  +  +++ l De     D++ ++++ e++ + +++   Q i is++++++e  
  PHY93_12845|PHY93_12845 373 LLSEGEKRR--LSILMTV--FLNKSILLYDEPTFGQDQESISIIREMILQLKNTgkIQ-ILISHDDNFIESL 439
                              688888874..4455444..445577888*******************9888774244.6789999999876 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   4.3e-05     0.013      98     121 ..      28      51 ..       7      66 .. 0.81
   2 !   13.8   0.2   0.00013      0.04      68     122 ..     243     299 ..     191     313 .. 0.72
   3 ?   -1.4   0.0       6.1   1.9e+03      13      72 ..     348     409 ..     340     436 .. 0.65

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 4.3e-05
                              TTSEEEEECSTTSSHHHHHHHHCT CS
              RsgA_GTPase  98 kdktsvlvGqSGvGKStLinallp 121
                              +++++++ G+SG GKStL+ +l++
  PHY93_12845|PHY93_12845  28 EKEVVLITGPSGSGKSTLLQMLKG 51 
                              34889999************9987 PP

  == domain 2  score: 13.8 bits;  conditional E-value: 0.00013
                              HHHHHHHTT.SEEEE--TTTHTTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT CS
              RsgA_GTPase  68 lkeelealg.yevllvsaktkegleelkellkd.ktsvlvGqSGvGKStLinallpe 122
                              +k+e  +l  +++++   ++ + le+++ + ++ ++ v+ G+ G GKS+L++ l++ 
  PHY93_12845|PHY93_12845 243 QKNEAVQLTlTQIYFHYPDQAQLLEDVSLKASSgEILVIKGKNGKGKSSLLKILAGI 299
                              3333333331455666666778888888777666******************99875 PP

  == domain 3  score: -1.4 bits;  conditional E-value: 6.1
                              EES--EEEEEEESTTTT--HHHHHHHHHHHHHTT-..EEEEEEE-GGG--HHHHHHHHHHHH CS
              RsgA_GTPase  13 vaNvdqllivvslkepelslnlldrfLvlaeekgi..epvivlnKiDlleeeeeleelkeel 72 
                               aN d l i+++l  ++++l++   +L + e++++   +++ lnK  ll +e ++ + +e +
  PHY93_12845|PHY93_12845 348 FANRDDLKILLGLFFKDIDLKRSPFLLSEGEKRRLsiLMTVFLNKSILLYDEPTFGQDQESI 409
                              57777777777777777777776666777776665115677889988887777444444444 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.9   0.1   1.3e-07     4e-05       4     136 ..      28     203 ..      26     204 .. 0.72
   2 ?    3.9   0.2       0.2        61       4      25 ..     275     296 ..     272     316 .. 0.90
   3 ?   -1.4   0.0       8.3   2.6e+03     101     127 ..     335     358 ..     332     359 .. 0.81

  Alignments for each domain:
  == domain 1  score: 23.9 bits;  conditional E-value: 1.3e-07
                   AAA_22   4 tagilvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsst..sskdllrellralglelka................. 70 
                              ++ ++++tG+sG+GK+tll++l+   +++ + e   +++++++ +s+   s ++ l+++l  ++++                    
  PHY93_12845|PHY93_12845  28 EKEVVLITGPSGSGKSTLLQMLKGIIPKYTSGEF--KGQILYKGKSLDgeSFQQNLKDILFLFQNPFAQliyphvaeefffsmenf 111
                              56789********************986655544..55555555555555777777777777776666677777788888888888 PP

                   AAA_22  71 ............................erlsseellealeqalraravielliiDEaqh.lr...seealeeLrsllnlsrkgvq 124
                                                           +ls  e+ +++   l a +  ++l++DE    l+   +++ +++L++      kg q
  PHY93_12845|PHY93_12845 112 nftheqmdkkreelessfnldafwrkktTELSHGECQKLVLASLLAIDP-QVLLLDEPTAfLDpeaRADFYNWLKK-----IKGSQ 191
                              8888888888888887777777877777777777777777777777777.*******9996755444777777744.....45566 PP

                   AAA_22 125 liLvGtpelrkl 136
                              +i+v  ++l+++
  PHY93_12845|PHY93_12845 192 IIIVVDHHLDEI 203
                              666666666665 PP

  == domain 2  score: 3.9 bits;  conditional E-value: 0.2
                   AAA_22   4 tagilvvtGesGtGKTtllrrl 25 
                              +  ilv+ G  G GK+ ll+ l
  PHY93_12845|PHY93_12845 275 SGEILVIKGKNGKGKSSLLKIL 296
                              6789**************9976 PP

  == domain 3  score: -1.4 bits;  conditional E-value: 8.3
                   AAA_22 101 qhlrseealeeLrsllnlsrkgvqliL 127
                              +++  +++ eeL+ ++n  r++++++L
  PHY93_12845|PHY93_12845 335 HFF-YDTIEEELKAFAN--RDDLKILL 358
                              555.5778899******..***99987 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.0   8.9e-06    0.0027      44      68 ..      28      52 ..      14      89 .. 0.82
   2 !    9.1   0.3    0.0036       1.1      33      68 ..     264     299 ..     233     320 .. 0.81

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 8.9e-06
                    Rad17 44 kkriLLisGPsGCgkstvvkvLske 68
                             +k+++Li+GPsG gkst +++L  +
  PHY93_12845|PHY93_12845 28 EKEVVLITGPSGSGKSTLLQMLKGI 52
                             4789****************99654 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.0036
                    Rad17  33 ewlkadvLesrkkriLLisGPsGCgkstvvkvLske 68 
                              + l+  +L+    +iL+i G  G gks  +k+L+ +
  PHY93_12845|PHY93_12845 264 QLLEDVSLKASSGEILVIKGKNGKGKSSLLKILAGI 299
                              55666778888888*******************976 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   3.1e-05    0.0095      13      43 ..      24      54 ..      20      65 .. 0.84
   2 !    9.0   0.0    0.0033         1       5      44 ..     261     302 ..     258     313 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 3.1e-05
                   AAA_30 13 lltsgdrvavltGpAGtGKttalkalreawe 43
                             ++ +++ v+++tGp G+GK+t+l+ l+ ++ 
  PHY93_12845|PHY93_12845 24 IIINEKEVVLITGPSGSGKSTLLQMLKGIIP 54
                             5667788*****************9988765 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.0033
                   AAA_30   5 eQaaaveal..ltsgdrvavltGpAGtGKttalkalreawea 44 
                              +Qa+++e +   +s+  + v++G  G GK+ +lk l+ +++ 
  PHY93_12845|PHY93_12845 261 DQAQLLEDVslKASSGEILVIKGKNGKGKSSLLKILAGIIKP 302
                              77777776522355667*****************99988765 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.0   1.4e-05    0.0044      24      54 ..      31      61 ..      22      87 .. 0.85
   2 !    8.4   0.0    0.0042       1.3      16      55 ..     270     309 ..     260     335 .. 0.74

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 1.4e-05
             Mg_chelatase 24 nlllvGppGsGKtmlakrlpsllpplseeea 54
                              +l++Gp+GsGK+ l + l++++p+ ++ e 
  PHY93_12845|PHY93_12845 31 VVLITGPSGSGKSTLLQMLKGIIPKYTSGEF 61
                             5899*********************998775 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.0042
             Mg_chelatase  16 eiaaaGgHnlllvGppGsGKtmlakrlpsllpplseeeal 55 
                               + a+ g  l++ G  G GK+ l k l++++ pls +  l
  PHY93_12845|PHY93_12845 270 SLKASSGEILVIKGKNGKGKSSLLKILAGIIKPLSGTIEL 309
                              566777778999*********************9865333 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.1   3.7e-06    0.0011     126     156 ..      26      56 ..       8      60 .. 0.86
   2 ?    5.9   0.0     0.019       5.8      97     154 ..     244     301 ..     191     309 .. 0.86

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 3.7e-06
                    T2SSE 126 vrerglilvsGgTgsGKttllyallkeinks 156
                              ++e+ ++l++G+ gsGK+tll +l  +i+k+
  PHY93_12845|PHY93_12845  26 INEKEVVLITGPSGSGKSTLLQMLKGIIPKY 56 
                              56799******************99999987 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.019
                    T2SSE  97 kksakeltlddlgaeealkekiaevlrkavrerglilvsGgTgsGKttllyallkein 154
                              k++a +ltl ++ ++  +++++ e ++   ++  ++++ G  g GK+ ll +l  +i+
  PHY93_12845|PHY93_12845 244 KNEAVQLTLTQIYFHYPDQAQLLEDVSLKASSGEILVIKGKNGKGKSSLLKILAGIIK 301
                              56778899999988888888777777777688889999************99988886 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.4   0.1    0.0022      0.67       1      30 [.      32      61 ..      32      80 .. 0.74
   2 !   12.7   0.0   0.00041      0.13       2      63 ..     280     345 ..     279     361 .. 0.77

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.0022
             RNA_helicase  1 iwlyGpsgeGKStlakeLakallkklklkk 30
                             ++++Gpsg GKStl + L   + k    + 
  PHY93_12845|PHY93_12845 32 VLITGPSGSGKSTLLQMLKGIIPKYTSGEF 61
                             6799***********997665555554444 PP

  == domain 2  score: 12.7 bits;  conditional E-value: 0.00041
             RNA_helicase   2 wlyGpsgeGKStlakeLakall...kklklkkkdsvys.rnpeddfwdgYtgqevvvidDfgqvkd 63 
                              ++ G++g GKS+l k La  +    ++++lkk+++++  +n  +++   ++++e + + D  + + 
  PHY93_12845|PHY93_12845 280 VIKGKNGKGKSSLLKILAGIIKplsGTIELKKNNRIVPlKNHFKEIGFIFQNPESHFFYDTIEEEL 345
                              799************976544433399999999999999999999999999999998888777664 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.8   3.6   2.9e-06   0.00089      18      55 ..      28      74 ..       7     255 .. 0.62
   2 !    9.6   1.1    0.0039       1.2      19      42 ..     276     299 ..     253     445 .. 0.70

  Alignments for each domain:
  == domain 1  score: 19.8 bits;  conditional E-value: 2.9e-06
                   AAA_23 18 skgltlItGpNGaGKTTildAiklaLygetprlsrks.........g 55
                             +k ++lItGp G+GK+T+l+ +k +    t+++ ++          g
  PHY93_12845|PHY93_12845 28 EKEVVLITGPSGSGKSTLLQMLKGIIPKYTSGEFKGQilykgksldG 74
                             67899*****************9998877777766555665444442 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 0.0039
                   AAA_23  19 kgltlItGpNGaGKTTildAikla 42 
                                + +I G+NG GK+++l  +  +
  PHY93_12845|PHY93_12845 276 GEILVIKGKNGKGKSSLLKILAGI 299
                              46889*************988766 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.1   0.1   0.00011     0.033       2      20 ..      31      49 ..      30      87 .. 0.87
   2 ?   -1.0   0.2       4.6   1.4e+03     113     113 ..     200     200 ..      92     245 .. 0.61
   3 !   10.4   0.3    0.0015      0.45       2      21 ..     278     297 ..     277     302 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 0.00011
                             CEEEEC-TTTCHHHHHHHH CS
                    NACHT  2 lvilqGeaGsGKTtLlqkl 20
                             +v+++G++GsGK+tLlq l
  PHY93_12845|PHY93_12845 31 VVLITGPSGSGKSTLLQML 49
                             89**************987 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 4.6
                              H CS
                    NACHT 113 i 113
                              +
  PHY93_12845|PHY93_12845 200 L 200
                              1 PP

  == domain 3  score: 10.4 bits;  conditional E-value: 0.0015
                              CEEEEC-TTTCHHHHHHHHH CS
                    NACHT   2 lvilqGeaGsGKTtLlqkla 21 
                              +++++G++G+GK+ Ll+ la
  PHY93_12845|PHY93_12845 278 ILVIKGKNGKGKSSLLKILA 297
                              589*************9876 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.8   0.1   0.00055      0.17      19      38 ..      28      47 ..      22      56 .. 0.87
   2 ?    4.8   0.1     0.077        24      17      39 ..     273     295 ..     264     305 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00055
                 ATPase_2 19 pneiyfiYGpegsGKtaLlk 38
                             ++e+++i+Gp gsGK++Ll+
  PHY93_12845|PHY93_12845 28 EKEVVLITGPSGSGKSTLLQ 47
                             5899**************97 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.077
                 ATPase_2  17 repneiyfiYGpegsGKtaLlke 39 
                               ++ ei++i G  g GK++Llk 
  PHY93_12845|PHY93_12845 273 ASSGEILVIKGKNGKGKSSLLKI 295
                              56689****************95 PP

>> KAP_NTPase  KAP family P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.3   0.2    0.0039       1.2      19      42 ..      28      51 ..      11     205 .. 0.81
   2 ?    5.7   0.0     0.023       7.2      11      43 ..     265     299 ..     261     344 .. 0.74

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0039
               KAP_NTPase 19 tpivvgLygkWGsGKssllnkled 42
                             ++ vv ++g+ GsGKs+ll++l+ 
  PHY93_12845|PHY93_12845 28 EKEVVLITGPSGSGKSTLLQMLKG 51
                             56699***************9985 PP

  == domain 2  score: 5.7 bits;  conditional E-value: 0.023
               KAP_NTPase  11 ilseptl..atpivvgLygkWGsGKssllnklede 43 
                              +l + +l  + + +++++gk G GKssll+ l   
  PHY93_12845|PHY93_12845 265 LLEDVSLkaSSGEILVIKGKNGKGKSSLLKILAGI 299
                              5555555446677899**************98755 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.2   0.1    0.0018      0.55       2      23 ..      32      53 ..      31      62 .. 0.87
   2 ?    5.0   0.1     0.072        22       2      23 ..     279     300 ..     278     320 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.0018
                             EEEE--SSSSHHHHHHHGGGGB CS
                    AAA_5  2 vlLvGppGtgKselaerlaaal 23
                             vl+ Gp+G+gKs+l + l+  +
  PHY93_12845|PHY93_12845 32 VLITGPSGSGKSTLLQMLKGII 53
                             799*************998776 PP

  == domain 2  score: 5.0 bits;  conditional E-value: 0.072
                              EEEE--SSSSHHHHHHHGGGGB CS
                    AAA_5   2 vlLvGppGtgKselaerlaaal 23 
                              ++++G+ G gKs+l + la  +
  PHY93_12845|PHY93_12845 279 LVIKGKNGKGKSSLLKILAGII 300
                              6899*************99888 PP

>> PhoH  PhoH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.7   0.0   0.00082      0.25      15      56 ..      25      68 ..      12     103 .. 0.78
   2 ?   -1.5   0.0       4.6   1.4e+03     167     199 ..     218     250 ..     190     259 .. 0.71
   3 ?    2.5   0.0      0.28        86       8      59 ..     261     322 ..     254     358 .. 0.64

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00082
                             HHHH-SEEEEE--TTSST.THHHHHHHH.HHHHTTS-SEEEEEE CS
                     PhoH 15 alkkndivfaiGpaGtGK.tylavalav.ealkkkkvkriiltr 56
                             +++++++v ++Gp+G+GK t+l +  ++   ++++++k  il +
  PHY93_12845|PHY93_12845 25 IINEKEVVLITGPSGSGKsTLLQMLKGIiPKYTSGEFKGQILYK 68
                             366999************55667776652456666666666655 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 4.6
                              -THHHHHHTTT-TTEEEEE--GGG----HHHHH CS
                     PhoH 167 GlaealevlknvegieivelkkkdvvRhplvkk 199
                               +++a ++l++ ++i++v+l + +  ++++v+ 
  PHY93_12845|PHY93_12845 218 EVTQASQQLEEAQKINTVNLFAPQAQKNEAVQL 250
                              366777888888888888777766666666654 PP

  == domain 3  score: 2.5 bits;  conditional E-value: 0.28
                              HHHHHHHHHH....H-SEEEEE--TTSSTTHH.HHHHHHH.....HHHTTS-SEEEEEE-S- CS
                     PhoH   8 eQkeylealk....kndivfaiGpaGtGKtyl.avalave.....alkkkkvkriiltrpav 59 
                               Q+++le ++    + +i+++ G+ G GK+ l  + +++       ++ kk +ri+ +++++
  PHY93_12845|PHY93_12845 261 DQAQLLEDVSlkasSGEILVIKGKNGKGKSSLlKILAGIIkplsgTIELKKNNRIVPLKNHF 322
                              67777776665555667************855155555531111123335555666666655 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.9   3.1e-05    0.0095       1      30 [.      32      83 ..      32     280 .. 0.79
   2 ?    0.4   0.2       2.9   9.1e+02       3      19 ..     281     297 ..     279     353 .. 0.80

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 3.1e-05
                   AAA_18  1 IlltGtpGvGKttlakeLskrl.gf.....................gvnlrd 30
                             +l+tG++G+GK+tl + L+    ++                      +nl+d
  PHY93_12845|PHY93_12845 32 VLITGPSGSGKSTLLQMLKGIIpKYtsgefkgqilykgksldgesfQQNLKD 83
                             79****************6555555774444444455555554445444444 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 2.9
                   AAA_18   3 ltGtpGvGKttlakeLs 19 
                              + G+ G GK++l k L+
  PHY93_12845|PHY93_12845 281 IKGKNGKGKSSLLKILA 297
                              7799999******9995 PP

>> dNK  Deoxynucleoside kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.1   0.0    0.0071       2.2       3      22 ..      34      53 ..      32     121 .. 0.86
   2 ?    6.0   0.0     0.031       9.6       1      32 [.     279     311 ..     279     358 .. 0.73

  Alignments for each domain:
  == domain 1  score: 8.1 bits;  conditional E-value: 0.0071
                             EEESTTSSHHHHHHHHHCCS CS
                      dNK  3 veGnIgaGKstlvklLskkl 22
                             + G+ g+GKstl+++L+  +
  PHY93_12845|PHY93_12845 34 ITGPSGSGKSTLLQMLKGII 53
                             89**************9766 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.031
                              EEEEESTTSSHHHHHHHHHCCST.CEEEE-HHH CS
                      dNK   1 ivveGnIgaGKstlvklLskklg.vkvfeEpvd 32 
                              +v+ G+ g GKs+l+k+L+  ++      E+ +
  PHY93_12845|PHY93_12845 279 LVIKGKNGKGKSSLLKILAGIIKpLSGTIELKK 311
                              689***************987754444444444 PP

>> PIF1  PIF1-like helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   0.0     0.034        10      16      47 ..      23      54 ..      11      60 .. 0.81
   2 !    7.7   0.0    0.0057       1.8       5      48 ..     261     302 ..     259     310 .. 0.89

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.034
                             ....HCTS-EEEEESTTSSCHHHHHHHHHHCH CS
                     PIF1 16 avlnekgklfFvtGsgGtgKtflwkallkklr 47
                              ++ ++ +++ +tG +G+gK+ l++ l  ++ 
  PHY93_12845|PHY93_12845 23 KIIINEKEVVLITGPSGSGKSTLLQMLKGIIP 54
                             5677888999***************9988876 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.0057
                              HHHHHHHHH......HCTS-EEEEESTTSSCHHHHHHHHHHCHC CS
                     PIF1   5 eQkkvfdaiieavlnekgklfFvtGsgGtgKtflwkallkklrs 48 
                              +Q++ ++ +  ++++++g+++ ++G  G gK+ l+k l  ++++
  PHY93_12845|PHY93_12845 261 DQAQLLEDV--SLKASSGEILVIKGKNGKGKSSLLKILAGIIKP 302
                              788899999..9999***********************999986 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.0   0.2   0.00055      0.17       1      17 [.      31      47 ..      31      54 .. 0.91
   2 ?    1.8   0.0      0.77   2.4e+02      73     105 ..     163     197 ..     101     204 .. 0.73
   3 ?   -0.2   0.1       3.4     1e+03       2      19 ..     279     296 ..     278     312 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00055
                   AAA_33  1 lvllvGlpGsGKstlae 17
                             +vl+ G++GsGKstl++
  PHY93_12845|PHY93_12845 31 VVLITGPSGSGKSTLLQ 47
                             899************87 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.77
                   AAA_33  73 vildat..nlsrrerarflklarrlgvpvrivvve 105
                              ++ld +  +l++++ra+f +++++++    i+vv+
  PHY93_12845|PHY93_12845 163 LLLDEPtaFLDPEARADFYNWLKKIKGSQIIIVVD 197
                              34466666999**********99877665655554 PP

  == domain 3  score: -0.2 bits;  conditional E-value: 3.4
                   AAA_33   2 vllvGlpGsGKstlaerl 19 
                              +++ G +G GKs l++ l
  PHY93_12845|PHY93_12845 279 LVIKGKNGKGKSSLLKIL 296
                              56789********99866 PP

>> TniB  Bacterial TniB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.0      0.19        57      37      53 ..      31      47 ..      26      62 .. 0.85
   2 !    9.9   0.0    0.0015      0.46      91     154 ..     131     192 ..     120     208 .. 0.87
   3 ?   -2.5   0.0       9.1   2.8e+03      37      53 ..     278     294 ..     263     298 .. 0.80

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.19
                     TniB 37 nlllvGdsnnGKtmive 53
                              +l+ G+s  GK+++++
  PHY93_12845|PHY93_12845 31 VVLITGPSGSGKSTLLQ 47
                             689***********987 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 0.0015
                     TniB  91 LealgaplkararvskleqqvlrllrelkvrvLiiDEihnllagsarkqreflnalksLgnelk 154
                              L+a++ +  ++ +  + ++ vl+ l +++++vL++DE   +l    +++  f n lk+++    
  PHY93_12845|PHY93_12845 131 LDAFWRKKTTELSHGECQKLVLASLLAIDPQVLLLDEPTAFL--DPEARADFYNWLKKIKGSQI 192
                              67788887788888999*************************..7888999******9976554 PP

  == domain 3  score: -2.5 bits;  conditional E-value: 9.1
                     TniB  37 nlllvGdsnnGKtmive 53 
                               l++ G+   GK+++++
  PHY93_12845|PHY93_12845 278 ILVIKGKNGKGKSSLLK 294
                              5778899999**99876 PP

>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.8   0.0   0.00097       0.3       7      42 ..      14      49 ..      10      61 .. 0.82
   2 ?    2.4   0.0      0.36   1.1e+02       9      40 ..     263     294 ..     255     306 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00097
                             HHHHHHHHHHHHCTSSS-EEEECSTTSSHHHHHHHH CS
          Sigma54_activat  7 alkelleqikkvaktdlsvlitGesGtGKellarai 42
                             ++k+++   k +++ +  vlitG sG+GK++l +++
  PHY93_12845|PHY93_12845 14 NTKKVFCDEKIIINEKEVVLITGPSGSGKSTLLQML 49
                             566777777888999999************998776 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.36
                              HHHHHHHHHHCTSSS-EEEECSTTSSHHHHHH CS
          Sigma54_activat   9 kelleqikkvaktdlsvlitGesGtGKellar 40 
                              ++lle ++  a++   ++i+G++G GK+ l +
  PHY93_12845|PHY93_12845 263 AQLLEDVSLKASSGEILVIKGKNGKGKSSLLK 294
                              567778888888888899*********98765 PP

>> FtsK_SpoIIIE  FtsK/SpoIIIE family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.2   0.0   0.00027     0.085      22      59 ..      15      49 ..       8      62 .. 0.76
   2 ?    0.7   0.0      0.91   2.8e+02      42      58 ..     279     295 ..     242     297 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 0.00027
                             EEEETTS-EEEEEGGGS-.SEEEE--TTSSHHHHHHHH CS
             FtsK_SpoIIIE 22 lgkeisgnplvldlkkmashllvaGatgsGKStalntL 59
                               k++ ++++++++k++    l+ G +gsGKSt l+ L
  PHY93_12845|PHY93_12845 15 TKKVFCDEKIIINEKEVV---LITGPSGSGKSTLLQML 49
                             556677888888888887...*************9854 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.91
                              EEEE--TTSSHHHHHHH CS
             FtsK_SpoIIIE  42 llvaGatgsGKStalnt 58 
                              l++ G  g GKS  l+ 
  PHY93_12845|PHY93_12845 279 LVIKGKNGKGKSSLLKI 295
                              6788********99975 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.0   0.0     0.014       4.3      34     112 ..      30     112 ..      14     132 .. 0.71
   2 ?    3.6   0.0      0.16        49      35     114 ..     278     355 ..     265     381 .. 0.75
   3 ?   -0.6   0.0       3.2   9.9e+02      35      66 ..     393     424 ..     378     441 .. 0.85

  Alignments for each domain:
  == domain 1  score: 7.0 bits;  conditional E-value: 0.014
                   RuvB_N  34 dhvllyGpPGlGkttlakiiakelgv.klkitsgPvlekagdlaalltnleekdvlfi..deihr.lsraveevlysamedfr 112
                              + vl++Gp G Gk+tl +++   +   +     g +l k + l +   + + kd+lf+  +   + + ++v e ++ +me+f+
  PHY93_12845|PHY93_12845  30 EVVLITGPSGSGKSTLLQMLKGIIPKyTSGEFKGQILYKGKSLDGESFQQNLKDILFLfqNPFAQlIYPHVAEEFFFSMENFN 112
                              679*************9988765543023344567788877777666666666666651134444145667777777777775 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.16
                   RuvB_N  35 hvllyGpPGlGkttlakiiakelgvklkitsgPv.lekagdlaalltnleekdvlfid.eihrlsraveevlysamedfrld 114
                               +++ G  G Gk++l ki+a      +k  sg + l+k++ ++ l ++++e   +f + e h +  ++ee l +  +   l 
  PHY93_12845|PHY93_12845 278 ILVIKGKNGKGKSSLLKILAGI----IKPLSGTIeLKKNNRIVPLKNHFKEIGFIFQNpESHFFYDTIEEELKAFANRDDLK 355
                              46789*************9964....45555554388888899999999998888875588888888888876544444444 PP

  == domain 3  score: -0.6 bits;  conditional E-value: 3.2
                   RuvB_N  35 hvllyGpPGlGkttlakiiakelgvklkitsg 66 
                               +lly  P +G+   +  i +e+  +lk t  
  PHY93_12845|PHY93_12845 393 SILLYDEPTFGQDQESISIIREMILQLKNTGK 424
                              58999999999999999999999999999865 PP

>> AAA_PrkA  PrkA AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.1   0.00046      0.14      87     114 ..      28      55 ..      21      64 .. 0.89
   2 ?    0.4   0.0      0.77   2.4e+02      87     109 ..     275     297 ..     182     311 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00046
                 AAA_PrkA  87 rkqilyllGPvggGksslverlkkllea 114
                              +k+++++ GP g+Gks+l ++lk ++ +
  PHY93_12845|PHY93_12845  28 EKEVVLITGPSGSGKSTLLQMLKGIIPK 55 
                              69999******************88765 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.77
                 AAA_PrkA  87 rkqilyllGPvggGksslverlk 109
                              + +il + G  g Gkssl + l 
  PHY93_12845|PHY93_12845 275 SGEILVIKGKNGKGKSSLLKILA 297
                              45799999999999999988775 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.1   0.00047      0.14      28      53 ..      24      49 ..      13      73 .. 0.85
   2 ?   -0.4   0.0       2.3     7e+02      31      51 ..     274     294 ..     249     302 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00047
                    AAA_7 28 lllknkkpvllvGptGtGKtviikdl 53
                              ++++k  vl++Gp+G+GK+++++ l
  PHY93_12845|PHY93_12845 24 IIINEKEVVLITGPSGSGKSTLLQML 49
                             578889999************99865 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 2.3
                    AAA_7  31 knkkpvllvGptGtGKtviik 51 
                              +++  +++ G+ G GK++++k
  PHY93_12845|PHY93_12845 274 SSGEILVIKGKNGKGKSSLLK 294
                              556667788********9986 PP

>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.4   0.1     0.025       7.9      30      49 ..      30      49 ..      23      55 .. 0.87
   2 ?    5.9   0.0     0.018       5.4       5      49 ..     252     296 ..     248     302 .. 0.87

  Alignments for each domain:
  == domain 1  score: 5.4 bits;  conditional E-value: 0.025
                             EEEEEEE-TTSSHHHHHHHH CS
                     MeaB 30 qvvGltGvPGaGkstlveal 49
                             +vv +tG  G+Gkstl++ l
  PHY93_12845|PHY93_12845 30 EVVLITGPSGSGKSTLLQML 49
                             6888************9987 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.018
                              HHHHH--SHHHHHHHHHHGGG-S-SEEEEEEE-TTSSHHHHHHHH CS
                     MeaB   5 itlveserpeakellerllakaGraqvvGltGvPGaGkstlveal 49 
                              +t +  ++p+  +lle ++ ka   + + + G  G Gks l++ l
  PHY93_12845|PHY93_12845 252 LTQIYFHYPDQAQLLEDVSLKASSGEILVIKGKNGKGKSSLLKIL 296
                              566667889999****************************99866 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.0    0.0024      0.73      44      63 ..      26      45 ..       7      50 .. 0.85
   2 ?   -0.4   0.0       2.7   8.2e+02     107     145 ..     158     195 ..     138     203 .. 0.75
   3 ?   -0.1   0.0       2.1   6.6e+02      47      63 ..     276     292 ..     261     298 .. 0.83

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.0024
                IstB_IS21 44 iekkenivllGpsGvGKshl 63
                             i++ke ++++GpsG GKs l
  PHY93_12845|PHY93_12845 26 INEKEVVLITGPSGSGKSTL 45
                             7899*************987 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 2.7
                IstB_IS21 107 lkvdllilDdlgllpldqaeaellfeviekryerrsiii 145
                              + +++l+lD+  +  ld ++++++++ ++k  + + ii+
  PHY93_12845|PHY93_12845 158 IDPQVLLLDEP-TAFLDPEARADFYNWLKKIKGSQIIIV 195
                              34589999996.467999999999999998877766665 PP

  == domain 3  score: -0.1 bits;  conditional E-value: 2.1
                IstB_IS21  47 kenivllGpsGvGKshl 63 
                               e +v+ G  G GKs l
  PHY93_12845|PHY93_12845 276 GEILVIKGKNGKGKSSL 292
                              5778999*******987 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   0.00035      0.11      30      51 ..      26      47 ..      22      51 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00035
                   AAA_25 30 lpagelallaGapgtGKttlal 51
                             + ++e++l++G++g+GK+tl+ 
  PHY93_12845|PHY93_12845 26 INEKEVVLITGPSGSGKSTLLQ 47
                             7899***************985 PP

>> AAA_27  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.0   0.0     0.012       3.8      14      47 ..      19      50 ..      18      60 .. 0.83
   2 ?   -2.3   0.1       9.1   2.8e+03     151     180 ..     214     245 ..     207     255 .. 0.46
   3 ?    4.2   0.1     0.095        29      19      44 ..     269     294 ..     265     300 .. 0.83

  Alignments for each domain:
  == domain 1  score: 7.0 bits;  conditional E-value: 0.012
                   AAA_27 14 ftdrsldfsaeeadlhliyGpNEAGKstalrAis 47
                             f d+++ ++  e+++ li Gp  +GKst+l+ ++
  PHY93_12845|PHY93_12845 19 FCDEKIIIN--EKEVVLITGPSGSGKSTLLQMLK 50
                             556666666..8999**************98765 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 9.1
                   AAA_27 151 asaGlaslrevleaLea....eadelfkprkskk 180
                              +++G  ++++  ++Le+    +  +lf+p+++k+
  PHY93_12845|PHY93_12845 214 SRSG--EVTQASQQLEEaqkiNTVNLFAPQAQKN 245
                              4444..2333333333200013346666666666 PP

  == domain 3  score: 4.2 bits;  conditional E-value: 0.095
                   AAA_27  19 ldfsaeeadlhliyGpNEAGKstalr 44 
                              ++++a++ ++ +i G N  GKs++l+
  PHY93_12845|PHY93_12845 269 VSLKASSGEILVIKGKNGKGKSSLLK 294
                              56677788999************997 PP

>> DUF815  Protein of unknown function (DUF815)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.0   0.0     0.037        11      54      73 ..      30      49 ..       9      58 .. 0.81
   2 ?    5.8   0.0     0.022       6.8      55      74 ..     278     297 ..     230     324 .. 0.83

  Alignments for each domain:
  == domain 1  score: 5.0 bits;  conditional E-value: 0.037
                   DUF815 54 nnvLLwGarGtGKSslvkal 73
                             + vL++G  G+GKS+l++ l
  PHY93_12845|PHY93_12845 30 EVVLITGPSGSGKSTLLQML 49
                             4599***********99865 PP

  == domain 2  score: 5.8 bits;  conditional E-value: 0.022
                   DUF815  55 nvLLwGarGtGKSslvkall 74 
                               +++ G+ G GKSsl+k l 
  PHY93_12845|PHY93_12845 278 ILVIKGKNGKGKSSLLKILA 297
                              45578***********9876 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   0.00058      0.18       2      21 ..      32      51 ..      31      87 .. 0.81
   2 ?    0.6   0.2       1.9   5.7e+02       3      20 ..     280     297 ..     278     312 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00058
                   AAA_28  2 ivitGgestGKTtlleaLaa 21
                             + itG++++GK+tll+ L+ 
  PHY93_12845|PHY93_12845 32 VLITGPSGSGKSTLLQMLKG 51
                             78**************9975 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 1.9
                   AAA_28   3 vitGgestGKTtlleaLa 20 
                              vi G  + GK++ll+ La
  PHY93_12845|PHY93_12845 280 VIKGKNGKGKSSLLKILA 297
                              788999*********998 PP

>> APS_kinase  Adenylylsulphate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0    0.0014      0.45       4      24 ..      31      51 ..      28      87 .. 0.78
   2 ?    0.4   0.1       1.7   5.3e+02      65      98 ..     221     254 ..     207     302 .. 0.63

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.0014
                             EEEEESSTTSSHHHHHHHHHH CS
               APS_kinase  4 vvwltGlsgsGKstianalek 24
                             vv++tG sgsGKst+ ++l+ 
  PHY93_12845|PHY93_12845 31 VVLITGPSGSGKSTLLQMLKG 51
                             89*************998875 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 1.7
                              HHHHHHHHTT-EEEEE----SHHHHHHHHHHHHC CS
               APS_kinase  65 evaklladaglivlvafisPyreeReaarellee 98 
                              + +++l +a  i  v + +P +++ ea++ +l +
  PHY93_12845|PHY93_12845 221 QASQQLEEAQKINTVNLFAPQAQKNEAVQLTLTQ 254
                              4456777777777777777777766666544442 PP

>> VirE  Virulence-associated protein E
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   0.0     0.098        30      53      73 ..      30      51 ..      10      63 .. 0.86
   2 ?    7.0   0.0     0.014       4.4      53      73 ..     277     297 ..     264     356 .. 0.90

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.098
                     VirE 53 fvlvLvGkqgsgKstflekl.g 73
                             +v+ ++G+ gsgKst+l+ l g
  PHY93_12845|PHY93_12845 30 EVVLITGPSGSGKSTLLQMLkG 51
                             68899************99944 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.014
                     VirE  53 fvlvLvGkqgsgKstfleklg 73 
                              ++lv++Gk g+gKs++l++l+
  PHY93_12845|PHY93_12845 277 EILVIKGKNGKGKSSLLKILA 297
                              799****************95 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   0.1    0.0062       1.9       2      21 ..      32      51 ..      31      69 .. 0.84
   2 ?    0.6   0.0       1.8   5.6e+02      73     101 ..     203     230 ..     135     251 .. 0.60
   3 ?    3.8   0.3      0.19        59       3      21 ..     280     298 ..     278     322 .. 0.84

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.0062
                             EEEEESTTSSHHHHHHHHHT CS
                 MMR_HSR1  2 vaivGrpNvGKStLinaltg 21
                             v+i G + +GKStL++ l g
  PHY93_12845|PHY93_12845 32 VLITGPSGSGKSTLLQMLKG 51
                             789************99876 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 1.8
                              HHC.TSEEEEEEETTTTCSHHHHHHHHHHH CS
                 MMR_HSR1  73 lee.adlillvvdaseeklkpldeeleell 101
                              +   +d +l+v + s +++++  ++lee +
  PHY93_12845|PHY93_12845 203 ILPlVDQVLHVSR-S-GEVTQASQQLEEAQ 230
                              2223455555555.2.34666666666554 PP

  == domain 3  score: 3.8 bits;  conditional E-value: 0.19
                              EEEESTTSSHHHHHHHHHT CS
                 MMR_HSR1   3 aivGrpNvGKStLinaltg 21 
                              +i G+   GKS+L++ l g
  PHY93_12845|PHY93_12845 280 VIKGKNGKGKSSLLKILAG 298
                              6789999*******99987 PP

>> AAA_11  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   0.0    0.0031      0.96      13      61 ..      25      69 ..      13      73 .. 0.74
   2 ?    1.7   0.0      0.61   1.9e+02      12      41 ..     271     303 ..     261     323 .. 0.70

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.0031
                   AAA_11 13 alseseitliqGPPGtgKTktivellsqllsrrkseeeksakpriLvCa 61
                             +++e+e++li GP G+gK++  +++l+ +++   + ++++ k +iL+ +
  PHY93_12845|PHY93_12845 25 IINEKEVVLITGPSGSGKSTL-LQMLKGIIP---KYTSGEFKGQILYKG 69
                             678899************865.556665544...355777777777755 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.61
                   AAA_11  12 salseseitliqGPPGtgKT...ktivellsql 41 
                                 s+ ei +i+G+ G gK+   k ++++++ l
  PHY93_12845|PHY93_12845 271 LKASSGEILVIKGKNGKGKSsllKILAGIIKPL 303
                              445667799***********6666666666666 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2   0.0     0.015       4.7      19      39 ..      29      49 ..      11      69 .. 0.79
   2 ?    3.9   0.0      0.16        49      18      40 ..     273     297 ..     259     307 .. 0.77

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.015
                             TEEEEEEESTTSSHHHHHHHH CS
                     TsaE 19 gdvilLeGdLGaGKTtlvrgl 39
                             ++v+l++G+ G+GK+tl + l
  PHY93_12845|PHY93_12845 29 KEVVLITGPSGSGKSTLLQML 49
                             789**************9976 PP

  == domain 2  score: 3.9 bits;  conditional E-value: 0.16
                              H..TEEEEEEESTTSSHHHHHHHHH CS
                     TsaE  18 l..gdvilLeGdLGaGKTtlvrgla 40 
                              +  g++++++G+ G GK+ l + la
  PHY93_12845|PHY93_12845 273 AssGEILVIKGKNGKGKSSLLKILA 297
                              134889**************99886 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.0    0.0018      0.55      15      38 ..      28      51 ..      16      58 .. 0.86
   2 ?    0.6   0.1      0.95   2.9e+02      17      42 ..     277     302 ..     262     324 .. 0.77

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.0018
               Zeta_toxin 15 rPklillgGqpGAGKselaellkd 38
                             ++ ++l+ G +G+GKs+l+++lk 
  PHY93_12845|PHY93_12845 28 EKEVVLITGPSGSGKSTLLQMLKG 51
                             5679****************9985 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.95
               Zeta_toxin  17 klillgGqpGAGKselaellkdeler 42 
                               ++++ G  G GKs+l++ l+  +++
  PHY93_12845|PHY93_12845 277 EILVIKGKNGKGKSSLLKILAGIIKP 302
                              577899***********998876655 PP

>> MCM  MCM P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.5   0.0    0.0032      0.98      52      89 ..      24      59 ..      10      65 .. 0.69
   2 ?    2.0   0.1       0.3        93      19      81 ..     235     300 ..     218     309 .. 0.64

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.0032
                             SBBCSS-EEEEEESSTSTHHHHHHHHHHHSSSEEEEES CS
                      MCM 52 tklrgdinvllvgdpgtaKsqlLkyveklapravytsg 89
                             + +  +  vl+ g +g +Ks+lL++++ ++p+  ytsg
  PHY93_12845|PHY93_12845 24 IIINEKEVVLITGPSGSGKSTLLQMLKGIIPK--YTSG 59
                             33444445666777799**********99996..5555 PP

  == domain 2  score: 2.0 bits;  conditional E-value: 0.3
                              HHHSSTTSSS-HHHHHHHHHHHH---E.BBBSSSSBBC.SS-EEEEE.ESSTSTHHHHHHHHHHHS CS
                      MCM  19 vksiapsiyghedvkkaillqlfggvk.kkledktklr.gdinvllv.gdpgtaKsqlLkyvekla 81 
                              v+ +ap+   +e+v+ +++   f   +  +l ++++l+ ++ ++l++ g  g +Ks lLk ++ ++
  PHY93_12845|PHY93_12845 235 VNLFAPQAQKNEAVQLTLTQIYFHYPDqAQLLEDVSLKaSSGEILVIkGKNGKGKSSLLKILAGII 300
                              566677777777777776666665433033333344441344555544999*********988765 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.1   0.00073      0.22       3      22 ..      30      49 ..      28      57 .. 0.86
   2 ?    1.3   0.3       0.8   2.5e+02       5      22 ..     279     296 ..     275     312 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00073
                   AAA_24  3 lkiliyGpsgiGKTtlakel 22
                               +li+Gpsg+GK+tl+ +l
  PHY93_12845|PHY93_12845 30 EVVLITGPSGSGKSTLLQML 49
                             5799************9988 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.8
                   AAA_24   5 iliyGpsgiGKTtlakel 22 
                              ++i G++g GK++l+k l
  PHY93_12845|PHY93_12845 279 LVIKGKNGKGKSSLLKIL 296
                              6899**********9876 PP

>> ABC_ATPase  Predicted ATPase of the ABC class
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   0.1     0.002      0.61     244     265 ..      29      50 ..      22      59 .. 0.84
   2 ?    2.0   0.1      0.23        71     245     265 ..     276     297 ..     266     302 .. 0.87

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.002
                              SSEEEEEE-TTSSHHHHHHHHH CS
               ABC_ATPase 244 kGvtlIvGggfhGKsTLLeAle 265
                              k v+lI+G+   GKsTLL+ l+
  PHY93_12845|PHY93_12845  29 KEVVLITGPSGSGKSTLLQMLK 50 
                              459***************9886 PP

  == domain 2  score: 2.0 bits;  conditional E-value: 0.23
                              S.EEEEEE-TTSSHHHHHHHHH CS
               ABC_ATPase 245 G.vtlIvGggfhGKsTLLeAle 265
                              G + +I G + +GKs LL+ l+
  PHY93_12845|PHY93_12845 276 GeILVIKGKNGKGKSSLLKILA 297
                              5599**************9775 PP

>> cobW  CobW/HypB/UreG, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.2   0.00077      0.24       2      20 ..      31      49 ..      30      57 .. 0.91
   2 ?    1.8   0.1       0.5   1.6e+02       2      22 ..     278     308 ..     277     327 .. 0.67

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00077
                             EEEEEESTTCCHHHHHHHH CS
                     cobW  2 vtvltGflGsGKTtLlnhl 20
                             v+++tG+ GsGK+tLl+ l
  PHY93_12845|PHY93_12845 31 VVLITGPSGSGKSTLLQML 49
                             789*************865 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.5
                              EEEEEESTTCCHHHHHHHHH..........C CS
                     cobW   2 vtvltGflGsGKTtLlnhll..........e 22 
                              ++v+ G  G GK++Ll+ l           e
  PHY93_12845|PHY93_12845 278 ILVIKGKNGKGKSSLLKILAgiikplsgtiE 308
                              6799************977655555555554 PP

>> DUF2075  Uncharacterized conserved protein (DUF2075)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   0.0    0.0016      0.48       1      55 [.      29     104 ..      29     147 .. 0.72
   2 ?    0.4   0.1      0.98     3e+02       2      23 ..     277     298 ..     276     323 .. 0.70

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.0016
                  DUF2075   1 kavvlVtGvaGtGKtvvllnllael.....................eddeeertavylsvNhplvlvlrealakke 55 
                              k+vvl+tG +G+GK+ +l  l   +                     e+ +++ + ++++  +p+ + ++ ++a++ 
  PHY93_12845|PHY93_12845  29 KEVVLITGPSGSGKSTLLQMLKGIIpkytsgefkgqilykgksldgESFQQNLKDILFLFQNPFAQLIYPHVAEEF 104
                              689************9987776666766666666666666666666666666666666666666666666666655 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.98
                  DUF2075   2 avvlVtGvaGtGKtvvllnlla 23 
                              ++++++G+ G GK+ +l  l+ 
  PHY93_12845|PHY93_12845 277 EILVIKGKNGKGKSSLLKILAG 298
                              5899**********98755544 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.2   0.1     0.004       1.2      17      38 ..      28      47 ..      19      64 .. 0.85
   2 ?    1.4   0.1      0.47   1.5e+02      18      38 ..     275     294 ..     262     302 .. 0.79

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.004
                             TSCSEEEEEEESTTSSHHHHHH CS
                   NB-ARC 17 elqslvvalvGmgGvGKttlak 38
                             e +  vv + G  G+GK+tl++
  PHY93_12845|PHY93_12845 28 EKE--VVLITGPSGSGKSTLLQ 47
                             444..99*************97 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.47
                              SCSEEEEEEESTTSSHHHHHH CS
                   NB-ARC  18 lqslvvalvGmgGvGKttlak 38 
                              ++  ++ + G+ G GK+ l+k
  PHY93_12845|PHY93_12845 275 SG-EILVIKGKNGKGKSSLLK 294
                              34.5999**********9986 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.1    0.0027      0.83       7      29 ..      26      48 ..      21      63 .. 0.82
   2 ?    0.8   0.1       1.8   5.6e+02       7      31 ..     273     297 ..     267     312 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.0027
                   AAA_19  7 alkekvllvtaGpGtGKTrvlkh 29
                               +++v+l+t++ G+GK+++l++
  PHY93_12845|PHY93_12845 26 INEKEVVLITGPSGSGKSTLLQM 48
                             567899*************9986 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 1.8
                   AAA_19   7 alkekvllvtaGpGtGKTrvlkhiv 31 
                              a++ ++l++ +  G GK+ +lk   
  PHY93_12845|PHY93_12845 273 ASSGEILVIKGKNGKGKSSLLKILA 297
                              567788999999******9998655 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.7   0.5     0.029       8.9       1      21 [.      32      52 ..      32     207 .. 0.84
   2 ?    3.3   0.0      0.34   1.1e+02       3      23 ..     281     301 ..     279     348 .. 0.83

  Alignments for each domain:
  == domain 1  score: 6.7 bits;  conditional E-value: 0.029
                             EEEESSTTSSHHHHHHHHHHH CS
                      AAA  1 vllyGppGtGKTllakavake 21
                             vl++Gp G GK++l + +   
  PHY93_12845|PHY93_12845 32 VLITGPSGSGKSTLLQMLKGI 52
                             799***********9887655 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.34
                              EESSTTSSHHHHHHHHHHHHT CS
                      AAA   3 lyGppGtGKTllakavakelg 23 
                              + G  G GK++l k +a  ++
  PHY93_12845|PHY93_12845 281 IKGKNGKGKSSLLKILAGIIK 301
                              6799************99865 PP

>> PRK  Phosphoribulokinase / Uridine kinase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.0    0.0025      0.77       2      24 ..      32      54 ..      31      70 .. 0.86
   2 ?   -1.6   0.0         6   1.9e+03       3      24 ..     280     301 ..     278     325 .. 0.77

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.0025
                      PRK  2 IgvagsSGaGkttvarklekifg 24
                             + ++g+SG+Gk+t+ + l+ i+ 
  PHY93_12845|PHY93_12845 32 VLITGPSGSGKSTLLQMLKGIIP 54
                             669*************9998876 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 6
                      PRK   3 gvagsSGaGkttvarklekifg 24 
                               + g+ G Gk+++ + l  i++
  PHY93_12845|PHY93_12845 280 VIKGKNGKGKSSLLKILAGIIK 301
                              688999******9999988887 PP

>> PduV-EutP  Ethanolamine utilisation - propanediol utilisation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.1    0.0019      0.59       4      29 ..      32      57 ..      28      65 .. 0.83
   2 ?   -0.4   0.1       2.9   8.8e+02       5      23 ..     280     298 ..     276     315 .. 0.81

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.0019
                PduV-EutP  4 illiGkvgsGKttLtqalkgeelkYk 29
                             +l+ G++gsGK tL q lkg   kY+
  PHY93_12845|PHY93_12845 32 VLITGPSGSGKSTLLQMLKGIIPKYT 57
                             6777***************9766665 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 2.9
                PduV-EutP   5 lliGkvgsGKttLtqalkg 23 
                              ++ Gk g GK +L + l g
  PHY93_12845|PHY93_12845 280 VIKGKNGKGKSSLLKILAG 298
                              4459*********999876 PP

>> CPT  Chloramphenicol phosphotransferase-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.3   0.0     0.025       7.6       2      25 ..      30      53 ..      29      56 .. 0.89
   2 ?    3.0   0.0      0.25        78       1      79 [.     276     348 ..     276     357 .. 0.74

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.025
                             -EEEEEE-TTSSHHHHHHHHHHHS CS
                      CPT  2 riilLnGgsssGKsslaralqevl 25
                             +++l+ G s sGKs+l + l+ ++
  PHY93_12845|PHY93_12845 30 EVVLITGPSGSGKSTLLQMLKGII 53
                             699***************998776 PP

  == domain 2  score: 3.0 bits;  conditional E-value: 0.25
                              --EEEEEE-TTSSHHHHHHHHHHHSSS-EEEEEHHHHHHHS-GGGGTSTTSEEEETTSEEE-HHHHHHHHHHHHHHHHH CS
                      CPT   1 ariilLnGgsssGKsslaralqevldepwlhlgvDafvealppkrqdeadglefeteleeigpeldlllaalyeavaam 79 
                              ++i++++G    GKssl ++l  +++     +++ +    +p k   +++g+ f+      +pe + +++++ e ++a+
  PHY93_12845|PHY93_12845 276 GEILVIKGKNGKGKSSLLKILAGIIKPLSGTIELKKNNRIVPLKNHFKEIGFIFQ------NPESHFFYDTIEEELKAF 348
                              68999***************99998877777777777777777777777777666......455555555555555555 PP

>> G-alpha  G-protein alpha subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.7   0.00048      0.15      25      54 ..      31      64 ..      12     150 .. 0.63
   2 ?    0.1   0.2       1.1   3.5e+02      26      89 ..     279     345 ..     262     447 .. 0.59

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00048
                             EEEEEESTTSSHHHHHHHHHHHCS--....--HH CS
                  G-alpha 25 kllllGqseSGKsTilkqlkllykkg....fsee 54
                              +l+ G s+SGKsT+l+ lk +  k     f+ +
  PHY93_12845|PHY93_12845 31 VVLITGPSGSGKSTLLQMLKGIIPKYtsgeFKGQ 64
                             489*****************54432212335544 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 1.1
                              EEEEESTTSSHHHHHHHHHHHCS----HHHH.HCCHHHHHHHHHHHHHHHHHHHHH..TT....... CS
                  G-alpha  26 llllGqseSGKsTilkqlkllykkgfseeel.atwraviqlnivrsiktileales..leselsesf 89 
                              l++ G+++ GKs++lk l  + k+   + el ++ r v  +n  + i  i+++ es  + ++++e++
  PHY93_12845|PHY93_12845 279 LVIKGKNGKGKSSLLKILAGIIKPLSGTIELkKNNRIVPLKNHFKEIGFIFQNPEShfFYDTIEEEL 345
                              5566888999999999999777776666666344777888888888888887777643233333333 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.2   0.00069      0.21       2      20 ..      32      50 ..      31      59 .. 0.86
   2 ?    0.1   0.4       2.2   6.8e+02       3      23 ..     280     300 ..     278     307 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00069
                             EEEE--TTSSHHHHHHHHH CS
                 NTPase_1  2 vfiTGppGvGKtTlvkkvl 20
                             v+iTGp+G+GK+Tl++ + 
  PHY93_12845|PHY93_12845 32 VLITGPSGSGKSTLLQMLK 50
                             89************99765 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 2.2
                              EEE--TTSSHHHHHHHHHHHH CS
                 NTPase_1   3 fiTGppGvGKtTlvkkvlell 23 
                              +i G+ G GK+ l+k ++  +
  PHY93_12845|PHY93_12845 280 VIKGKNGKGKSSLLKILAGII 300
                              789**********98877666 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.1    0.0012      0.36       2      22 ..      29      49 ..      28      90 .. 0.82
   2 ?   -1.0   0.0       5.3   1.6e+03      50      76 ..     143     171 ..      94     194 .. 0.54
   3 ?    2.9   0.4      0.34   1.1e+02       2      23 ..     276     297 ..     275     355 .. 0.85

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.0012
                   AAA_14  2 rkilvitGaRrvGKTtllkql 22
                             +++++itG+  +GK+tll+ l
  PHY93_12845|PHY93_12845 29 KEVVLITGPSGSGKSTLLQML 49
                             679**************9654 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 5.3
                   AAA_14  50 e..kllelilek.lkeekktylflDEiqev 76 
                              +  +  +l+l++ l   + ++l+lDE    
  PHY93_12845|PHY93_12845 143 ShgECQKLVLASlLA-IDPQVLLLDEPTAF 171
                              123444444444222.35677888876655 PP

  == domain 3  score: 2.9 bits;  conditional E-value: 0.34
                   AAA_14   2 rkilvitGaRrvGKTtllkqli 23 
                              ++ilvi+G    GK+ llk l+
  PHY93_12845|PHY93_12845 276 GEILVIKGKNGKGKSSLLKILA 297
                              579**************98775 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   4.2    0.0011      0.35      17     115 ..      22     125 ..      17     150 .. 0.56
   2 ?   -2.2   0.0       8.5   2.6e+03     323     351 ..     159     187 ..     150     196 .. 0.82
   3 ?    4.8   9.1     0.062        19      15      71 ..     267     351 ..     264     435 .. 0.71

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.0011
                   AAA_15  17 veidlsee.ltvliGkNnsGKSsilealdlFlnnkekkn...kkvikiekedleifeniseskdikIdvef........aek.eka 89 
                               +i ++e+ + ++ G+ +sGKS++l++l+ ++ + ++ +   +   k ++ d e f+++ +++ +  +  f        ae+  ++
  PHY93_12845|PHY93_12845  22 EKIIINEKeVVLITGPSGSGKSTLLQMLKGIIPKYTSGEfkgQILYKGKSLDGESFQQNLKDILFLFQNPFaqliyphvAEEfFFS 107
                              55666666599999**************9988855333376755555555556666555666666666666444333331112222 PP

                   AAA_15  90 keyektlkskekkkadlllkkkesdl 115
                               e+         +++  +++kk+++l
  PHY93_12845|PHY93_12845 108 MEN--------FNFTHEQMDKKREEL 125
                              222........222222233333322 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 8.5
                   AAA_15 323 knvilliEEPEahLHpqaqkvlikllkel 351
                              ++ +ll++EP a L p+a   +++ lk++
  PHY93_12845|PHY93_12845 159 DPQVLLLDEPTAFLDPEARADFYNWLKKI 187
                              568999************99999999987 PP

  == domain 3  score: 4.8 bits;  conditional E-value: 0.062
                   AAA_15  15 kdveidlsee.ltvliGkNnsGKSsilealdlFlnnkekkn..............................kkvikiekedleife 69 
                              +dv+++ s+  + v+ GkN+ GKSs+l++l  +++     +                              +++ ++ +e+l+ f 
  PHY93_12845|PHY93_12845 267 EDVSLKASSGeILVIKGKNGKGKSSLLKILAGIIKPL---SgtielkknnrivplknhfkeigfifqnpesHFFYDTIEEELKAFA 349
                              5666666665688999**************9888876...2223344446666666666666666666666444444444444444 PP

                   AAA_15  70 ni 71 
                              n+
  PHY93_12845|PHY93_12845 350 NR 351
                              44 PP

>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   0.0    0.0023      0.71      16      35 ..      26      45 ..      21      50 .. 0.88
   2 ?   -1.5   0.1       4.2   1.3e+03      18      34 ..     275     291 ..     273     295 .. 0.86
   3 ?   -2.7   0.0       9.9   3.1e+03     142     164 ..     410     432 ..     404     450 .. 0.72

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.0023
                   ATPase 16 ipegrvvlitGepGtGKtif 35
                             i e++vvlitG +G+GK+++
  PHY93_12845|PHY93_12845 26 INEKEVVLITGPSGSGKSTL 45
                             67899************997 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 4.2
                   ATPase  18 egrvvlitGepGtGKti 34 
                              +g++  i G+ G GK+ 
  PHY93_12845|PHY93_12845 275 SGEILVIKGKNGKGKSS 291
                              578999*********95 PP

  == domain 3  score: -2.7 bits;  conditional E-value: 9.9
                   ATPase 142 eilrqlvrvlkklgvTailvsek 164
                              +i+r+++ +lk++g   il+s  
  PHY93_12845|PHY93_12845 410 SIIREMILQLKNTGKIQILISHD 432
                              57888888888889888988874 PP

>> AAA_8  P-loop containing dynein motor region D4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.0      0.17        53      18      45 ..      23      50 ..      10      89 .. 0.69
   2 ?   -2.2   0.1       6.5     2e+03     100     137 ..     208     245 ..     186     259 .. 0.56
   3 ?    5.3   0.0     0.035        11      21      72 ..     272     324 ..     270     349 .. 0.84
   4 ?   -1.6   0.1       4.4   1.4e+03      98     120 ..     412     434 ..     399     444 .. 0.79

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.17
                    AAA_8 18 RvlrqprghaLlvGvgGsGrqsltkLAa 45
                              ++ +++  +L+ G  GsG+ +l ++  
  PHY93_12845|PHY93_12845 23 KIIINEKEVVLITGPSGSGKSTLLQMLK 50
                             6888889999***********9988643 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 6.5
                    AAA_8 100 edinnlLntGevpnLfskeekeeiieelrkeakkqgve 137
                              +++ ++  +Gev++  ++ e+++ i++++  a +++++
  PHY93_12845|PHY93_12845 208 DQVLHVSRSGEVTQASQQLEEAQKINTVNLFAPQAQKN 245
                              34444445778877776666666566655444444333 PP

  == domain 3  score: 5.3 bits;  conditional E-value: 0.035
                    AAA_8  21 rqprghaLlv.GvgGsGrqsltkLAafiaelelfqievtkkykekefredlkk 72 
                              +  +g++L++ G +G G+ sl k+ a i +    +ie++k+      ++  k+
  PHY93_12845|PHY93_12845 272 KASSGEILVIkGKNGKGKSSLLKILAGIIKPLSGTIELKKNNRIVPLKNHFKE 324
                              6678899988899**********999999999999999999877766666665 PP

  == domain 4  score: -1.6 bits;  conditional E-value: 4.4
                    AAA_8  98 fledinnlLntGevpnLfskeek 120
                              + e i +l ntG+++ L s++++
  PHY93_12845|PHY93_12845 412 IREMILQLKNTGKIQILISHDDN 434
                              56889999999**9999999874 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.0   0.1     0.091        28       2      19 ..      32      49 ..      31      81 .. 0.90
   2 ?    0.6   0.0       2.1   6.4e+02      91     119 ..     176     201 ..     161     202 .. 0.67
   3 ?    1.8   0.3      0.87   2.7e+02       2      18 ..     279     295 ..     278     302 .. 0.86

  Alignments for each domain:
  == domain 1  score: 5.0 bits;  conditional E-value: 0.091
                             EEEESSTTSSHHHHHHCH CS
                      Roc  2 vvlvGdsgvGKtsllkrf 19
                             v++ G sg+GK++ll+ +
  PHY93_12845|PHY93_12845 32 VLITGPSGSGKSTLLQML 49
                             6789**********9865 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 2.1
                              HHHCHHHHHHHHHHHCSSS-EEEEEE-TT CS
                      Roc  91 ssenlkeWlkelkkvagkspvilvgnkiD 119
                                +++ +Wlk+     g++++i+v  ++D
  PHY93_12845|PHY93_12845 176 ARADFYNWLKK---IKGSQIIIVVDHHLD 201
                              44445556555...557888999999988 PP

  == domain 3  score: 1.8 bits;  conditional E-value: 0.87
                              EEEESSTTSSHHHHHHC CS
                      Roc   2 vvlvGdsgvGKtsllkr 18 
                              +v+ G++g GK+sllk 
  PHY93_12845|PHY93_12845 279 LVIKGKNGKGKSSLLKI 295
                              57779*********985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (453 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       734  (0.0409393); expected 358.6 (0.02)
Passed bias filter:                      529  (0.0295053); expected 358.6 (0.02)
Passed Vit filter:                       119  (0.00663729); expected 17.9 (0.001)
Passed Fwd filter:                        58  (0.00323498); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              58  [number of targets reported over threshold]
# CPU time: 0.85u 0.31s 00:00:01.15 Elapsed: 00:00:00.48
# Mc/sec: 2819.00
//
Query:       PHY93_12850|PHY93_12850  [L=192]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    5.2e-30  104.1  16.7    5.2e-30  104.1  16.7    1.5  2  ABC_cobalt  ABC-type cobalt transport system, permease compon
  ------ inclusion threshold ------
      0.093   12.5   1.5       0.19   11.5   0.2    2.1  2  Flavi_M     Flavivirus envelope glycoprotein M


Domain annotation for each model (and alignments):
>> ABC_cobalt  ABC-type cobalt transport system, permease component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  104.1  16.7   5.8e-34   5.2e-30       2     120 ..      15     132 ..      14     133 .. 0.98
   2 ?   -3.1   0.1      0.89     8e+03     110     112 ..     163     165 ..     147     174 .. 0.51

  Alignments for each domain:
  == domain 1  score: 104.1 bits;  conditional E-value: 5.8e-34
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-GGG.GGGGGGGGGHHHHHHHHHH-STTHHHHHHHHHHHHHHHTT-TTTTHHHHHH CS
               ABC_cobalt   2 diilvavigvvfGviflawglvynalsaaltPlgaealllGlWllagvlaaliirkpgaallaellaAlvemllgsqwGastllsg 87 
                              +i+l++v++v+ Gv f++w+++y++ + +l   g++ l+ G+W+++ v+   i+rkpg al+a+++aA+ve+ll ++wG++ +l+g
  PHY93_12850|PHY93_12850  15 EIVLTTVVAVALGVSFWGWTFIYEIAKPVLKVSGLSYLVAGFWIFSSVFLSQIVRKPGIALIASIIAAFVESLL-THWGIMSVLWG 99 
                              79*************************9999999****************************************.9********** PP

                              HHHHHHHHHHHHHTTT---SHHHHHHHHHHHHH CS
               ABC_cobalt  88 lvqGlgaElafaltrYrrftllvlllsgalaai 120
                              +vqGlgaE++f+l+ Yr+++l vl+l++a++ai
  PHY93_12850|PHY93_12850 100 IVQGLGAEVIFMLFLYRKWDLKVLILASAMSAI 132
                              *****************************9988 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 0.89
                              HHH CS
               ABC_cobalt 110 vll 112
                              +++
  PHY93_12850|PHY93_12850 163 SVF 165
                              222 PP

>> Flavi_M  Flavivirus envelope glycoprotein M
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.2   2.1e-05      0.19      35      66 ..      67      98 ..      64     103 .. 0.91
   2 ?   -2.1   0.1      0.37   3.3e+03      40      52 ..     158     170 ..     153     182 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 2.1e-05
                  Flavi_M 35 alrnPffavialtlaylvGssitqkvvialll 66
                             ++r+P+ a+ia ++a  v s +t  +++ +l 
  PHY93_12850|PHY93_12850 67 IVRKPGIALIASIIAAFVESLLTHWGIMSVLW 98
                             69*************************99985 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 0.37
                  Flavi_M  40 ffavialtlaylv 52 
                              ff v +++la ++
  PHY93_12850|PHY93_12850 158 FFIVSSVFLAGVL 170
                              7888888888655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (192 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       879  (0.0490267); expected 358.6 (0.02)
Passed bias filter:                      251  (0.0139997); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.25s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1243.20
//
Query:       PHY93_12855|PHY93_12855  [L=232]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
      0.046   13.8   0.1       0.89    9.7   0.0    2.2  2  DUF3791         Protein of unknown function (DUF3791)
      0.094   13.2   0.6       0.94   10.0   0.6    2.3  1  FumaraseC_C     Fumarase C C-terminus
       0.13   12.2   0.3        0.3   11.0   0.3    1.6  1  MF_alpha_N      Mating factor alpha precursor N-terminus
       0.29   11.1  43.6        0.4   10.6  43.6    1.3  1  Merozoite_SPAM  Merozoite surface protein (SPAM)
        1.1    9.0  26.4        1.4    8.7  26.4    1.4  1  RR_TM4-6        Ryanodine Receptor TM 4-6
        2.1    7.3  14.5        2.3    7.1  14.5    1.3  1  SLC12           Solute carrier family 12
        8.3    5.1  16.5         11    4.7  16.5    1.1  1  ALMT            Aluminium activated malate transporter


Domain annotation for each model (and alignments):
>> DUF3791  Protein of unknown function (DUF3791)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.0       0.1   2.6e+02       7      24 ..      68      85 ..      66      89 .. 0.79
   2 ?    9.7   0.0   0.00035      0.89       4      29 ..      95     120 ..      94     125 .. 0.91

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.1
                  DUF3791  7 Ieeyarklglsgkevykl 24
                             I    +k++ls+++++k+
  PHY93_12855|PHY93_12855 68 IKMIEDKFNLSAEDIAKY 85
                             555678999999999887 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.00035
                  DUF3791   4 vfcIeeyarklglsgkevykllkksg 29 
                              +++++e+a++ g s ++v+ llk+ +
  PHY93_12855|PHY93_12855  95 IMLMAEFAKASGKSMDDVVSLLKEKK 120
                              799********************876 PP

>> FumaraseC_C  Fumarase C C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.6   0.00037      0.94      22      46 ..     116     139 ..      87     143 .. 0.94

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.00037
                              HHHT--HHHHHHHTT-.-HHHHHHH CS
              FumaraseC_C  22 lkegktlreavlelgllteeeldel 46 
                              lke+k++ e++ el+l t+e+ld++
  PHY93_12855|PHY93_12855 116 LKEKKSVAEVTKELKL-TKEDLDKI 139
                              799************6.******98 PP

>> MF_alpha_N  Mating factor alpha precursor N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.3   0.00012       0.3       1      36 [.       1      37 [.       1      40 [. 0.94

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00012
               MF_alpha_N  1 Mkfssilsavallassalaapvstedee.eeaaevPa 36
                             Mkf+ +l +++l+++ ++a++ s ++++ +++a+vPa
  PHY93_12855|PHY93_12855  1 MKFALLLLTISLFSTHSFAQDASVTATTgADTATVPA 37
                             9**********************999988999****8 PP

>> Merozoite_SPAM  Merozoite surface protein (SPAM)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6  43.6   0.00016       0.4      15     127 ..     118     229 ..     103     232 .] 0.81

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00016
           Merozoite_SPAM  15 enkkkenlLeevkitsedkediakEnedvveeeeeedleekedeeeEteeeeteekneeeieeetedeedE..eeveEeeekeeee 98 
                              e k    +  e+k+t+ed ++i k+   v  ee+++ +++ked++e+   ee  + +e+  ee +ed ++E  ee   e+ kee  
  PHY93_12855|PHY93_12855 118 EKKSVAEVTKELKLTKEDLDKIKKDMKPV-REERKDRKDKKEDKKEDKK-EERKDRKEDRKEERKEDRKEErkEER-REDRKEERR 200
                              55556667889*****************9.8888889999888776666.88888888888889999999974444.459999999 PP

           Merozoite_SPAM  99 dkkkekeeeqsnentdtsekkqkldsekD 127
                              +++ke  +e+ +e  ++++k+   + +kD
  PHY93_12855|PHY93_12855 201 EDRKEARREDRKEERREDRKDDRREDQKD 229
                              99999999999999999977777777777 PP

>> RR_TM4-6  Ryanodine Receptor TM 4-6
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.7  26.4   0.00056       1.4      35     157 ..     100     217 ..      40     229 .. 0.60

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 0.00056
                              ..XXXXXXXXXXXXXXXXXXXXXXXX...XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.XXXXXXXXX CS
                 RR_TM4-6  35 ageeeeedllsdvfgldlkkeggqykvvakkseagLgDlseteaeesptpelkkklaeeeeaeeekeeeeepeaeaeekadaenge 120
                              + ++++   + dv++l  k++++  + v+k+ +    Dl++ +   +  p+ ++++ +++++e++ke+++e++++++e++++e++e
  PHY93_12855|PHY93_12855 100 EFAKASGKSMDDVVSLL-KEKKS-VAEVTKELKLTKEDLDKIKKDMK--PVREERKDRKDKKEDKKEDKKEERKDRKEDRKEERKE 181
                              45556666777777763.33333.34556666644455555554444..6666666666667777777766666665555555555 PP

                              XXXXXXX..........XXXXXXXXXXXXXXXXXXXX CS
                 RR_TM4-6 121 keekekekeeeekeseeeeeekkkkkkakskkkeeae 157
                               +++e++ ee +++++ee  e +k+++++ +k+e  e
  PHY93_12855|PHY93_12855 182 DRKEERK-EERREDRKEERREDRKEARREDRKEERRE 217
                              4443333.33333333333333333333333333322 PP

>> SLC12  Solute carrier family 12
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.1  14.5   0.00091       2.3     139     210 ..     140     211 ..      44     231 .. 0.48

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.00091
                    SLC12 139 ekekkeaeesekeeeekkkakkkklleekskekeekekleekdsnlslseekk.eeekekkkekkkkkekkek 210
                              +k+ k ++e++k ++++kk++kk+ ++e++k ++e++k e+k+++++ ++e++ e++ke+++e++k+++++++
  PHY93_12855|PHY93_12855 140 KKDMKPVREERK-DRKDKKEDKKEDKKEERKDRKEDRKEERKEDRKEERKEERrEDRKEERREDRKEARREDR 211
                              111111111111.111111111111111111111111111111111111111101111111111111111111 PP

>> ALMT  Aluminium activated malate transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7  16.5    0.0043        11     304     425 ..     103     219 ..      81     230 .. 0.42

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.0043
                     ALMT 304 lesakvlrelaesvkkmkklskveellkevkvaaeeLqskldskskLlvnsekweaakkke.kaeeveekkeeekeseskkeeaea 388
                              ++s+k + ++   +k++k      e+ ke+k   e+L  k+++ +k  v  e+++ + kke k+e ++e+ + +ke++++++++++
  PHY93_12855|PHY93_12855 103 KASGKSMDDVVSLLKEKKSVA---EVTKELKLTKEDLD-KIKKDMKP-VREERKDRKDKKEdKKEDKKEERKDRKEDRKEERKEDR 183
                              455555555555555544444...45555555555554.33333322.33444333333330333333333333333333333333 PP

                     ALMT 389 veeaeseseksllkeskrslklskkesapaeesleek 425
                              +ee+++e  ++ +ke++r+  ++ +++  +ee++e++
  PHY93_12855|PHY93_12855 184 KEERKEER-REDRKEERREDRKEARREDRKEERREDR 219
                              33333333.3333333333333222222222322222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (232 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      3043  (0.169725); expected 358.6 (0.02)
Passed bias filter:                      840  (0.0468515); expected 358.6 (0.02)
Passed Vit filter:                       363  (0.0202465); expected 17.9 (0.001)
Passed Fwd filter:                        99  (0.00552178); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 1.28u 0.34s 00:00:01.62 Elapsed: 00:00:00.54
# Mc/sec: 1299.07
//
Query:       PHY93_12860|PHY93_12860  [L=177]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.3e-12   45.9   0.0    5.8e-12   45.1   0.0    1.4  1  Sigma70_r4_2  Sigma-70, region 4
    5.2e-11   42.2   0.2      1e-10   41.2   0.2    1.5  1  Sigma70_r2    Sigma-70 region 2
    1.1e-05   24.9   0.0    2.2e-05   23.9   0.0    1.5  1  Sigma70_r4    Sigma-70, region 4
     0.0044   16.6   0.0     0.0088   15.6   0.0    1.5  1  HTH_24        Winged helix-turn-helix DNA-binding
  ------ inclusion threshold ------
       0.14   12.8   0.1       0.43   11.2   0.1    1.8  2  MgtE_N        MgtE intracellular N domain


Domain annotation for each model (and alignments):
>> Sigma70_r4_2  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.1   0.0   1.6e-15   5.8e-12       2      54 .]     117     169 ..     116     169 .. 0.97

  Alignments for each domain:
  == domain 1  score: 45.1 bits;  conditional E-value: 1.6e-15
                              HHHHHHHTTS-HHHHHHHHHHHTS---HHHHHHHHT--HHHHHHHHHHHHHHH CS
             Sigma70_r4_2   2 qalrealaeLperqreifllryleglsykEIAellgisegtVksrlsRArkkL 54 
                              ++l+++++eLp +q+ei+  +   +l+ +EIA l +is+g+Vks l+R ++kL
  PHY93_12860|PHY93_12860 117 RQLEDCINELPVDQKEIVFCHVQSELTNQEIADLSNISVGAVKSILFRSKEKL 169
                              689************************************************98 PP

>> Sigma70_r2  Sigma-70 region 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.2   0.2   2.9e-14     1e-10       1      67 [.      15      78 ..      15      81 .. 0.94

  Alignments for each domain:
  == domain 1  score: 41.2 bits;  conditional E-value: 2.9e-14
                             HHHHHHHHHHHHHHHCT-THHHHHHHHHHHHHHHHHHGGGTSTTTCHHHHHHHHHHHHHHHHHHHHT CS
               Sigma70_r2  1 lverylplvkrlarrllgsgadaeDlvQeaflrlwraverfdpergvsfsawllriarnaaidrlRk 67
                             l++ry+  ++ + + l gs   ae+l+Q++f++++ ++ +f+ e +  +++w+  ia+n++ d++R+
  PHY93_12860|PHY93_12860 15 LYSRYRVPLYTYFHGLIGST-LAEELMQDTFIKVLNKRMSFRFESK--VKTWIWAIAKNTLRDHWRS 78
                             7999**************98.*********************6666..******************7 PP

>> Sigma70_r4  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.9   0.0   6.2e-09   2.2e-05       2      48 ..     123     169 ..     122     170 .. 0.95

  Alignments for each domain:
  == domain 1  score: 23.9 bits;  conditional E-value: 6.2e-09
                              HHHS-HHHHHHHHHHHTTT--HHHHHHHHTS-HHHHHHHHHHHHHHH CS
               Sigma70_r4   2 LasLpererevlelrfgeglTleEIgerlgiSrerVrqiekrAlrkL 48 
                              +++Lp +++e++ +    +lT +EI++  +iS ++V++i++r  +kL
  PHY93_12860|PHY93_12860 123 INELPVDQKEIVFCHVQSELTNQEIADLSNISVGAVKSILFRSKEKL 169
                              789***************************************99998 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   2.5e-06    0.0088      17      38 ..     141     162 ..     138     164 .. 0.89

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 2.5e-06
                   HTH_24  17 risqreLAerlglSpstvnrrl 38 
                               ++++e+A+ +++S+++v+  l
  PHY93_12860|PHY93_12860 141 ELTNQEIADLSNISVGAVKSIL 162
                              79****************9876 PP

>> MgtE_N  MgtE intracellular N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       2.4   8.7e+03      34      34 ..      36      36 ..       9      50 .. 0.52
   2 ?   11.2   0.1   0.00012      0.43      21      65 ..      86     130 ..      73     153 .. 0.84

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 2.4
                             H CS
                   MgtE_N 34 l 34
                              
  PHY93_12860|PHY93_12860 36 A 36
                             2 PP

  == domain 2  score: 11.2 bits;  conditional E-value: 0.00012
                              HHHHS-HHHHHHHHCTS-CCCCCHHHHCS-HHHHHHHHCCS-HHH CS
                   MgtE_N  21 llrllpkeeaaevleeldedlqeeliealsdeelaelleeldsDd 65 
                               +  l + e  e++e   ++    +++++++++l++ ++el++D+
  PHY93_12860|PHY93_12860  86 SFDSLVTTEGNEIFEAPLDSAETLILKKVTQRQLEDCINELPVDQ 130
                              567777888899*******************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (177 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       655  (0.036533); expected 358.6 (0.02)
Passed bias filter:                      447  (0.0249317); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.53u 0.22s 00:00:00.75 Elapsed: 00:00:00.45
# Mc/sec: 1169.27
//
Query:       PHY93_12865|PHY93_12865  [L=109]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (109 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       516  (0.0287802); expected 358.6 (0.02)
Passed bias filter:                      378  (0.0210832); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.26s 00:00:00.75 Elapsed: 00:00:00.47
# Mc/sec: 701.54
//
Query:       PHY93_12870|PHY93_12870  [L=76]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (76 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1309  (0.0730102); expected 358.6 (0.02)
Passed bias filter:                      310  (0.0172904); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.26s 00:00:00.69 Elapsed: 00:00:00.45
# Mc/sec: 511.54
//
Query:       PHY93_12875|PHY93_12875  [L=173]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.8e-15   56.6  13.4    2.8e-15   56.6  13.4    1.7  2  DUF3106          Protein of unknown function (DUF3106)
     0.0028   18.2   3.6       0.52   10.9   0.6    2.1  2  FliG_N           FliG N-terminal domain
     0.0073   16.7   7.9      0.011   16.0   7.9    1.4  1  Gp-FAR-1         Nematode fatty acid retinoid binding protein
  ------ inclusion threshold ------
      0.063   13.6   1.2      0.063   13.6   1.2    3.0  4  TcdB_N           TcdB toxin N-terminal helical domain
        1.2    9.8   6.8         32    5.1   6.8    2.3  1  YtxH             YtxH-like protein
        1.9    9.1   6.3        6.1    7.5   0.5    2.6  2  Arg_decarbox_C   Arginine decarboxylase C-terminal helical ex
          2    7.7   9.0          5    6.4   1.5    2.1  2  DctP             Bacterial extracellular solute-binding prote
        3.1    6.5   6.0        1.4    7.7   0.3    2.0  2  PEPCK_GTP        Phosphoenolpyruvate carboxykinase C-terminal
        8.9    5.1   8.9    2.6e+02    0.3   8.9    2.0  1  GDE_C            Amylo-alpha-1,6-glucosidase


Domain annotation for each model (and alignments):
>> DUF3106  Protein of unknown function (DUF3106)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.6  13.4   1.4e-18   2.8e-15      11     101 ..      27     117 ..      21     121 .. 0.95
   2 ?    1.6   0.8       0.2     4e+02      39      69 ..     109     137 ..     108     160 .. 0.54

  Alignments for each domain:
  == domain 1  score: 56.6 bits;  conditional E-value: 1.4e-18
                  DUF3106  11 aLaplaeewnelspeqreklleiaerykkltpeeqkrlqermeewakLspeqreqarenyqklkqLppeereelrekweeyqkLpp 96 
                               L++ ++ewn+ls  q+ +l+e  ++++++ ++++krl er+e+++kLsp ++e++re ++k+kq ppe +e++++++   +kL+p
  PHY93_12875|PHY93_12875  27 GLNQNQQEWNKLSTIQKDELRERYKEFSSMAEDQKKRLSERYEDFKKLSPLKKEKIREAFKKFKQQPPEVQERIKKRFADLNKLSP 112
                              588999*******************************************************************************9 PP

                  DUF3106  97 eerkk 101
                              +e+++
  PHY93_12875|PHY93_12875 113 QEQEE 117
                              98865 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.2
                  DUF3106  39 kltpeeqkrlqermeewakLspeqreqaren 69 
                              kl+p+eq++  +++++  +L++++++ a ++
  PHY93_12875|PHY93_12875 109 KLSPQEQEEKLQKIKD--ALQDHNKKDAHNR 137
                              4556666555555553..4555555554444 PP

>> FliG_N  FliG N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.9   0.6   0.00026      0.52      11      89 ..       7      83 ..       2      92 .. 0.76
   2 !    9.1   0.5   0.00092       1.8      20      65 ..      85     130 ..      74     144 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00026
                             HHHHCXHHHHHHHHTTSXHHHHHHHHHHHHCHTTXXHHHHHHHHHHHHHHHHCC.CCHHCHHHHHHHHHHHHHHSHHHHH CS
                   FliG_N 11 lllaLgeeeaaevlkhLdeeeiekltkeiaslksvskeeveaVleefleeleaq.eylseggeeyarelLekalgeekae 89
                             +l+a+   ++    + Ld++ + +  +e  +l +++k+e+ +  +ef +++e q + lse  e++ +  L+  l +ek++
  PHY93_12875|PHY93_12875  7 FLIAILTIASIHTASALDDKGLNQNQQEWNKLSTIQKDELRERYKEFSSMAEDQkKRLSERYEDFKK--LSP-LKKEKIR 83
                             6777777778888899999999999**************************6662667777777766..433.5555555 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.00092
                              HHHHHTTSXHHHHHHHHHHHHCHTTXXHHHHHHHHHHHHHHHHCCC CS
                   FliG_N  20 aaevlkhLdeeeiekltkeiaslksvskeeveaVleefleeleaqe 65 
                              a + +k+ ++e +e++ k+ a l+++s++e e+ l++  + l+ ++
  PHY93_12875|PHY93_12875  85 AFKKFKQQPPEVQERIKKRFADLNKLSPQEQEEKLQKIKDALQDHN 130
                              3344566678999********************9999999887765 PP

>> Gp-FAR-1  Nematode fatty acid retinoid binding protein (Gp-FAR-1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   7.9   5.7e-06     0.011      59     145 ..      34     119 ..      25     129 .. 0.84

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 5.7e-06
                 Gp-FAR-1  59 klqaklkekvdkLspeakeFvkkliakgrkleaqvlagekpdlselkkvaktifnkykslseeakaelekaFpeivkflenekiqa 144
                              + ++  + + d+L++  keF     ++ + l +++ + +k++    k+ +++ f+k+k++++e ++ ++k F  + k+  +e+ ++
  PHY93_12875|PHY93_12875  34 EWNKLSTIQKDELRERYKEFSSMAEDQKKRLSERYEDFKKLS-PLKKEKIREAFKKFKQQPPEVQERIKKRFADLNKLSPQEQEEK 118
                              555556667799**********99999999999988888888.556889****************************998777665 PP

                 Gp-FAR-1 145 l 145
                              l
  PHY93_12875|PHY93_12875 119 L 119
                              4 PP

>> TcdB_N  TcdB toxin N-terminal helical domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.1      0.93   1.8e+03      15      19 ..      36      40 ..      19      56 .. 0.53
   2 ?   -0.2   0.3      0.62   1.2e+03      19      33 ..      61      75 ..      48      84 .. 0.78
   3 ?    1.1   0.6      0.25     5e+02      10      33 ..      68      90 ..      58      92 .. 0.63
   4 ?   13.6   1.2   3.2e-05     0.063       8      44 ..      98     134 ..      96     141 .. 0.85

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.93
                             HTTTT CS
                   TcdB_N 15 nklse 19
                             nkls+
  PHY93_12875|PHY93_12875 36 NKLST 40
                             23333 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.62
                             TS-HHHHHHHHHHHH CS
                   TcdB_N 19 eeqskkkyellkklk 33
                              +++ ++ye +kkl+
  PHY93_12875|PHY93_12875 61 KKRLSERYEDFKKLS 75
                             566778899999885 PP

  == domain 3  score: 1.1 bits;  conditional E-value: 0.25
                             HHHHHHTTTTS-HHHHHHHHHHHH CS
                   TcdB_N 10 leeklnklseeqskkkyellkklk 33
                             +e  + kls   ++k +e +kk k
  PHY93_12875|PHY93_12875 68 YE-DFKKLSPLKKEKIREAFKKFK 90
                             33.346777777778888877766 PP

  == domain 4  score: 13.6 bits;  conditional E-value: 3.2e-05
                              HHHHHHHHTTTTS-HHHHHHHHHHHHHHHHHHHHHST CS
                   TcdB_N   8 enleeklnklseeqskkkyellkklkkeidnYnnlyk 44 
                              e ++ ++++l+  + ++ +e+l+k+k++++ +n+++ 
  PHY93_12875|PHY93_12875  98 ERIKKRFADLNKLSPQEQEEKLQKIKDALQDHNKKDA 134
                              5688999999999999999***************943 PP

>> YtxH  YtxH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   6.8     0.016        32      34      74 ..      57     100 ..      36     154 .. 0.62

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.016
                     YtxH  34 addlkekakelleeakeka...kekaedlkekvkekadelkekv 74 
                              a+d k+++ e +e++k+ +   kek+ ++ +k+k++  e++e +
  PHY93_12875|PHY93_12875  57 AEDQKKRLSERYEDFKKLSplkKEKIREAFKKFKQQPPEVQERI 100
                              44444444444444444446665555555555555544444433 PP

>> Arg_decarbox_C  Arginine decarboxylase C-terminal helical extension
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   0.8     0.034        67      11      43 ..      42      70 ..      40      71 .. 0.84
   2 ?    7.5   0.5    0.0031       6.1      13      46 ..      94     127 ..      77     129 .. 0.86

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.034
           Arg_decarbox_C 11 dpeeLlerlrrqveaagrLtpeerqalleelea 43
                             +++eL+er+++    a    ++++++l e++e+
  PHY93_12875|PHY93_12875 42 QKDELRERYKEFSSMA----EDQKKRLSERYED 70
                             578999***9998888....8888888888886 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0031
           Arg_decarbox_C  13 eeLlerlrrqveaagrLtpeerqalleeleagLk 46 
                               e +er++++ +  ++L+p+e+++ l++ ++ L+
  PHY93_12875|PHY93_12875  94 PEVQERIKKRFADLNKLSPQEQEEKLQKIKDALQ 127
                              566778888887779*************999997 PP

>> DctP  Bacterial extracellular solute-binding protein, family 7
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   1.3    0.0034       6.7     207     253 ..      26      72 ..      15      88 .. 0.75
   2 ?    6.4   1.5    0.0025         5     214     256 ..      87     129 ..      86     150 .. 0.89

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.0034
                              EEEEEEHHHHHHS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     DctP 207 llvlvnkktwdsLpedlqaileeaakeatelqrklveeleeealqkl 253
                                +  n++ w++L+  +++ l+e  ke + +  ++ + l e++ ++ 
  PHY93_12875|PHY93_12875  26 KGLNQNQQEWNKLSTIQKDELRERYKEFSSMAEDQKKRLSERYEDFK 72 
                              556679*********************99888777777776665544 PP

  == domain 2  score: 6.4 bits;  conditional E-value: 0.0025
                              HHHHHS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT CS
                     DctP 214 ktwdsLpedlqaileeaakeatelqrklveeleeealqklkea 256
                              k++++ p+++q+ +++ ++  ++l  +++ee+ ++++++l+++
  PHY93_12875|PHY93_12875  87 KKFKQQPPEVQERIKKRFADLNKLSPQEQEEKLQKIKDALQDH 129
                              6899***********************************9984 PP

>> PEPCK_GTP  Phosphoenolpyruvate carboxykinase C-terminal P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   0.3   0.00068       1.4     296     346 ..      17      67 ..      10      75 .. 0.85
   2 ?    2.1   1.2     0.034        67     304     357 ..      71     125 ..      64     126 .. 0.83

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.00068
                              EE-BTTC--TT-..TT--HHHHS---HHHHHHHHHHHHHHHHHTGGGS-HH CS
                PEPCK_GTP 296 vPkkedldlkgldlskedleellsvdkeewkeeveeieelfeklgeklPke 346
                              + ++ +ld kgl+ +++++++l +++k+e +e+ +e +++ e+ +++l ++
  PHY93_12875|PHY93_12875  17 IHTASALDDKGLNQNQQEWNKLSTIQKDELRERYKEFSSMAEDQKKRLSER 67 
                              667889999***************************999998878777665 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.034
                              -TT-...TT--HHHHS---HHHHHHHHHHHHHHHHHTGGGS-HHHHHHHHHHHHH CS
                PEPCK_GTP 304 lkgl.dlskedleellsvdkeewkeeveeieelfeklgeklPkelleeleelekr 357
                              +k+l  l+ke+++e+++  k++  e  e+i++ f++l++  P+e  e+l++++++
  PHY93_12875|PHY93_12875  71 FKKLsPLKKEKIREAFKKFKQQPPEVQERIKKRFADLNKLSPQEQEEKLQKIKDA 125
                              4555457899999999999999999999999999999999999999999999876 PP

>> GDE_C  Amylo-alpha-1,6-glucosidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   8.9      0.13   2.6e+02     218     242 ..      67     137 ..       7     141 .. 0.51

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 0.13
                    GDE_C 218 a..............................................aavakreilaDvlksseekdlslR 242
                                                                             +  +k + ++D l+ +++kd++ R
  PHY93_12875|PHY93_12875  67 RyedfkklsplkkekireafkkfkqqppevqerikkrfadlnklspqEQEEKLQKIKDALQDHNKKDAHNR 137
                              04444444444444444444444444444444444444444445555666777788888888888887766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (173 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2894  (0.161414); expected 358.6 (0.02)
Passed bias filter:                      645  (0.0359752); expected 358.6 (0.02)
Passed Vit filter:                       115  (0.00641419); expected 17.9 (0.001)
Passed Fwd filter:                        27  (0.00150594); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.73u 0.30s 00:00:01.03 Elapsed: 00:00:00.48
# Mc/sec: 1084.60
//
Query:       PHY93_20310|PHY93_20310  [L=141]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.066   13.4   0.1       0.35   11.1   0.0    2.0  2  ANAPC3      Anaphase-promoting complex, cyclosome, subunit 3
       0.13   12.6   0.1       0.19   12.0   0.1    1.3  1  Phi-29_GP4  Phi-29-like late genes activator (early protein G
       0.15   11.5   0.0       0.19   11.2   0.0    1.1  1  AflR        Aflatoxin regulatory protein


Domain annotation for each model (and alignments):
>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.0       0.2   1.2e+03      39      54 ..      23      38 ..       7      46 .. 0.63
   2 ?   11.1   0.0   5.9e-05      0.35      26      54 ..     106     132 ..      88     138 .. 0.74

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.2
                             HHHHHHHHHCTSHHHC CS
                   ANAPC3 39 ykrAyellrkaklnsk 54
                              k A+el ++ k+++k
  PHY93_20310|PHY93_20310 23 AKAAFELSQNDKSKDK 38
                             4555555555555554 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 5.9e-05
                              HHHHHHHHHHTT-HHHHHHHHHCTSHHHC CS
                   ANAPC3  26 ayllAlclylngqykrAyellrkaklnsk 54 
                              ++ l+  l++ +qy++Aye+l++    ++
  PHY93_20310|PHY93_20310 106 SLILGTRLFNKEQYEKAYEILSRI--PET 132
                              4568999**************998..444 PP

>> Phi-29_GP4  Phi-29-like late genes activator (early protein GP4)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.1   3.1e-05      0.19      21      65 ..      46      90 ..      30      99 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 3.1e-05
                             -SSEEEEESSHHHHHHHHHHHHHHHHHHHHHHHTT---S---HHH CS
               Phi-29_GP4 21 ntdvtfffsselylnkfldgyqeyrkkfnkkiervavtpwnmdml 65
                               d  f+fs+  y+n++l+ + e   ++++ ie + v    m +l
  PHY93_20310|PHY93_20310 46 LIDGGFYFSAIPYINNYLEDHVEIDAQLENDIETLVVKTGTMAVL 90
                             46889******************************9999888776 PP

>> AflR  Aflatoxin regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   3.2e-05      0.19     233     269 ..       2      37 ..       1      45 [. 0.83

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 3.2e-05
                     AflR 233 eYllslvsLivlKVlgwYaAAArdaasaasegsessr 269
                              +Yl++++ L+ l V+g Ya A  +aa + s++++s+ 
  PHY93_20310|PHY93_20310   2 KYLVTIILLATL-VMGNYAHATAKAAFELSQNDKSKD 37 
                              6******99998.******999999988777766654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (141 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       766  (0.0427241); expected 358.6 (0.02)
Passed bias filter:                      490  (0.02733); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.26s 00:00:00.75 Elapsed: 00:00:00.47
# Mc/sec: 909.61
//
Query:       PHY93_16950|PHY93_16950  [L=559]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.6e-42  144.4   0.0    9.6e-42  143.8   0.0    1.2  1  Phosphodiest  Type I phosphodiesterase / nucleotide pyrophosp
    0.00064   19.2   0.0       0.29   10.5   0.0    3.2  2  Sulfatase     Sulfatase
  ------ inclusion threshold ------
      0.049   13.7   0.1       0.17   11.9   0.1    1.9  1  S1_2          S1 domain


Domain annotation for each model (and alignments):
>> Phosphodiest  Type I phosphodiesterase / nucleotide pyrophosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  143.8   0.0   1.6e-45   9.6e-42       2     346 ..      35     500 ..      34     508 .. 0.74

  Alignments for each domain:
  == domain 1  score: 143.8 bits;  conditional E-value: 1.6e-45
                              EEEEETT-BTTHHHHHG.S.........TSHHHHHHHHHSEEESE.EE-SSS-SHHHHHHHHHHSS-HHHHS--SSSEEETTTTEE CS
             Phosphodiest   2 lvislDGlradlldrla.e.........llpnlaaLakegvsapn.lrpvfPtlTfpnhaslvTGlyPgeHGivgNtfydrktgey 76 
                              +v+++D++rad+l r++ +         +  ++++L+++g ++p+  + +  ++T p+ha+l+TG+yP + Gi  N++yd+k+g++
  PHY93_16950|PHY93_16950  35 VVLIIDQFRADYLTRFKeRflpaknsngAVGGFNYLISNGAYFPYaQYDILQSMTGPGHATLLTGSYPYQSGIPLNDWYDSKLGKN 120
                              89**************9666665555555679*****************************************************8 PP

                              EEEETTTTGG................GGGCTT............S-HHHHHHHTH......TTCEEEESE..TTTTSEBTTCT.SC CS
             Phosphodiest  77 vvfvtededa................prwwqg............epiwdtaakar......glkaaalfw..pgsevdystyyylv 126
                                +++ede +                ++++++            ++++++a k+r      g++a+   w  p s   +s++yyl 
  PHY93_16950|PHY93_16950 121 -IYCVEDEGSpivglpenkdlrgmspKNLIGStvgdelknagypSKVISIALKDRaailmgGHRADLSLWfdPKSFQWISSRYYLP 205
                              .*******99999999998888888544444488888888999999********************99999*99999999999998 PP

                              ......................TBHHSBTCT.CSTTS..............CHHHHHHHHHHHHH...................HH CS
             Phosphodiest 127 s.....................etppryleddfnakv..............pledkvdkavlqtw...................ld 158
                                                    +         ++ak+              p ++k++ ++ +t+                   l+
  PHY93_16950|PHY93_16950 206 EgnlpswvtklneevkikkspmK--------VWSAKLqetmksyfattssyPNDKKLTGKIGPTFnhgiaacspeelsspygneLT 283
                              87555555555555533322221........3333334444555555554444445554455566999999999999999988855 PP

                              CHTHSHHHHHCT......SSESEEEEEECCCHHHHHHH-TTSHHHHHHHHHHHHHHHHHHHHHHHT..TGTTTEEEEEEES---EE CS
             Phosphodiest 159 aafakvvlekel......ekpdlllvyleetDtvgHkfGpdspevedalrrvDkaigdLlealder..glsaetniilvSDHGmad 236
                              a++a ++++          +pdll+v++++ D+vgH fGp+s+e+ed   + D++i  +l+ l+ +  g  +e+ ++l++DHG+a+
  PHY93_16950|PHY93_16950 284 AQAALRAID--FydlgknITPDLLAVSFSSHDYVGHAFGPNSKEIEDMTVSEDRVISTFLNNLKNKipGGLKEVVVVLSADHGVAP 367
                              555554444..1346667889*********************************************99999*************** PP

                              EHT...TSEEE............GGGTSTGGHGEEEEECBHHS.SSE...EEEEESTEE.E.CCCTTHHHHHHHHHHTCHHCCHST CS
             Phosphodiest 237 vsd...dkvie............lndlleekgllhlkdegkggakal...iainpkare.lnrvaeaeaeevyaelkakleelrkk 303
                              +sd   ++++             +++ l++k   ++++++ +  +++   ++in    + +n ++    ++++++  +k+++  ++
  PHY93_16950|PHY93_16950 368 NSDwllKNKMAsgrvdigalqakIEERLNQK-FGKIDSGKGWITYSIdfnYYINR---DgINSKKLS--KSDVENEIKKVLQMEDG 447
                              *977885555546655555444444444444.66666666555555533333333...322222222..33333334444555566 PP

                              .HTTTEEEEEGG.GS-GGGCH........STTS-SEEEEE-TTEEEESSTTCS CS
             Phosphodiest 304 .egealavylke.aipkrlhy........kkrapdlvlvadpgwsitskdkpd 346
                                ++++  ++++  +p ++h         ++r++d++++++p ++  ++++++
  PHY93_16950|PHY93_16950 448 fVHVFTHTDYENrLLPPGMHErqilktyfSGRSGDVIAIPKPFFVHGDDNSTT 500
                              677788888888778888888666654444***********988766666555 PP

>> Sulfatase  Sulfatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.8   0.0    0.0027        16      31      71 ..      69     111 ..      32     168 .. 0.62
   2 !   10.5   0.0   4.8e-05      0.29     221     308 ..     333     543 ..     226     544 .. 0.86

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.0027
                              HHHHTSEEESSEE..-SSSSHHHHHHHHHHSS-HHHHTHSSCC CS
                Sulfatase  31 rlaeeglrftnfy..saaplcspsraalltgryphnsgvasnt 71 
                              +l  +g  f  +     ++++ p  a+lltg yp +sg+  n 
  PHY93_16950|PHY93_16950  69 YLISNGAYFPYAQydILQSMTGPGHATLLTGSYPYQSGIPLND 111
                              55555555543333345679****************9965544 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 4.8e-05
                              HHHHHHHHHHHHHHT..TTGGGEEEEEEESSSSCCCG................................................. CS
                Sulfatase 221 vDdligrvlaaLeen..glldntlvvftSDhgaslee................................................. 255
                               D +i+ +l+ L+ +  g l++++vv  +Dhg + +                                                  
  PHY93_16950|PHY93_16950 333 EDRVISTFLNNLKNKipGGLKEVVVVLSADHGVAPNSdwllknkmasgrvdigalqakieerlnqkfgkidsgkgwitysidfnyy 418
                              38999999999976455999************999889999999999999999999999999999999999999999999999999 PP

                              .........................................................................HHTTSSSCTTCSS CS
                Sulfatase 256 .........................................................................sngplrggkgana 268
                                                                                                         g+   + +++ 
  PHY93_16950|PHY93_16950 419 inrdginskklsksdveneikkvlqmedgfvhvfthtdyenrllppgmherqilktyfsgrsgdviaipkpffVHGDDNSTTHMTG 504
                              99999999999999999999999999999999999999999999999999999999999999999999999997888889999999 PP

                              SHHHHBEEEEEEETTTSHCEEECSEEEGGGHHHHHHHHTT CS
                Sulfatase 269 yeggtrvPllvwwpgekaprvseelvshiDlfptildlag 308
                              y  +  vPl++++ g k+  +  + v+++D++pt+  l+g
  PHY93_16950|PHY93_16950 505 YSYDRTVPLIIAGAGFKHG-IIPKMVDVVDIAPTLTILTG 543
                              9999********9999888.**************988887 PP

>> S1_2  S1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.1   2.9e-05      0.17       9      56 ..     409     461 ..     400     462 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 2.9e-05
                     S1_2   9 vlretdfgyfLqkdesgevlLpkkevpeele.....iGdeveVFvYtDsedrl 56 
                              ++   df y+++ d+ +   L k++v++e++     ++  v VF  tD e+rl
  PHY93_16950|PHY93_16950 409 ITYSIDFNYYINRDGINSKKLSKSDVENEIKkvlqmEDGFVHVFTHTDYENRL 461
                              666789*********************999855555699************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (559 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       390  (0.0217525); expected 358.6 (0.02)
Passed bias filter:                      357  (0.0199119); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.62u 0.29s 00:00:00.90 Elapsed: 00:00:00.47
# Mc/sec: 3598.36
//
Query:       PHY93_20315|PHY93_20315  [L=241]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    0.00055   20.1   3.5    0.00083   19.5   3.5    1.4  1  OMP_b-brl  Outer membrane protein beta-barrel domain


Domain annotation for each model (and alignments):
>> OMP_b-brl  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.5   3.5   4.6e-08   0.00083      21     131 ..      61     187 ..      49     239 .. 0.66

  Alignments for each domain:
  == domain 1  score: 19.5 bits;  conditional E-value: 4.6e-08
                OMP_b-brl  21 gfyvggglglskvkvdgvgsdsgfgfgvgagyefndnvgvegglsysgdkdysgs........gktdikinllsvpvnagya.... 94 
                              ++++g+glgls++        +++ f++  gy++n+ ++ve+ ++ +++kd++              i+ +  +++v a+++    
  PHY93_20315|PHY93_20315  61 YANLGVGLGLSSTF------QDTSLFHGNIGYYLNEEWAVEALYTSYSNKDNEALenlkrlngSIPFIRKTKSNYGVLAKWSpfyg 140
                              33445555544333......26789********************99988888866777766633344455555888877776544 PP

                OMP_b-brl  95 .fnlsds...vlpyggaGlgytkvevdvsgng......asdsdtdfg 131
                               +n+ ++   + + +g+Glg+ ++e +   +g      + +s++ ++
  PHY93_20315|PHY93_20315 141 kINTFNKifyFDWSFGLGLGKLNTESNAATVGnpamanNYNSESYTS 187
                              44333336667777777777666665544443556665444444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (241 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       467  (0.0260472); expected 358.6 (0.02)
Passed bias filter:                      332  (0.0185175); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.65u 0.33s 00:00:00.98 Elapsed: 00:00:00.65
# Mc/sec: 1118.64
//
Query:       PHY93_20320|PHY93_20320  [L=422]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.5e-05   24.9   0.0    3.2e-05   23.9   0.0    1.5  1  VWA_3     von Willebrand factor type A domain
     0.0011   19.3   5.6     0.0014   18.9   5.3    1.3  1  VWA       von Willebrand factor type A domain
  ------ inclusion threshold ------
       0.14   11.0   0.1        0.2   10.4   0.1    1.1  1  CHGN      Chondroitin N-acetylgalactosaminyltransferase


Domain annotation for each model (and alignments):
>> VWA_3  von Willebrand factor type A domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.9   0.0   5.4e-09   3.2e-05       2     123 ..     157     295 ..     156     317 .. 0.85

  Alignments for each domain:
  == domain 1  score: 23.9 bits;  conditional E-value: 5.4e-09
                    VWA_3   2 evvivvDvsssmsaenklvkdaLsvalrq.Lptndkiavllfgtkprplfpgsravsaaelqealqkike..........lelslg 76 
                              ++  vvD s sm +++k+++  +s+++ q L +n  ++ ++  t++ + + g ++ ++++l  a +  +           +++  +
  PHY93_20320|PHY93_20320 157 DILWVVDDSGSMADNQKALALNFSNFINQfLVKNIDFKMAITTTDATSIHNGKMVGDSSKLTSASAIGNRtaftqnfskwIKVGTS 242
                              6888*************************999********************99999999988876544466666688888999** PP

                    VWA_3  77 asnlegaLkeal.......rqpakpgevrsvilltDgssaqgeervsdlisrar 123
                              +s  e+ Lk+a+       +++ ++    +++ ++D++ +q++++vs++i r +
  PHY93_20320|PHY93_20320 243 GSGIEQGLKTAStfldrysSSFLRNDAYLAIVFVSDEN-DQSDKKVSEYIARYQ 295
                              *********9994444333355999999**********.***********8865 PP

>> VWA  von Willebrand factor type A domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   5.3   2.3e-07    0.0014       1     151 [.     157     323 ..     157     352 .. 0.71

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 2.3e-07
                              EEEEEEE-STTSCHHHHH...HHHHHHHHHHHHHT...BTTTTEEEEEEEESSSEEEEEETTSHC...HHHHHHHHHHTG.SGGGG CS
                      VWA   1 DivfvlDgSgsmgeenfe...kvkefikklvekle...vgpegtrvglvqfssevktefslndys...skeellsalnnl.kysgg 76 
                              Di  v+D Sgsm +++     ++ +fi++++ k +      ++t    ++ ++ v    +l++ s   +++++ ++ ++  k+ ++
  PHY93_20320|PHY93_20320 157 DILWVVDDSGSMADNQKAlalNFSNFINQFLVKNIdfkMAITTTDATSIHNGKMVGDSSKLTSASaigNRTAFTQNFSKWiKVGTS 242
                              8999********5555442355555555554444433225555555555555669999999998889899*********7578888 PP

                              SSC-HHHHHHHHHHHHHHHHGT.SSTTSEEEEEEEESS--CSS......HTHHHHHHHHGCTEEEEEEEESSSHHHHHHHHH CS
                      VWA  77 gttntgkalkyaleklfkssag.aRenakkviilltdGksndg......dpkeaaneakeqgikvfavGvgnadekelLnki 151
                              g+  ++++lk a + l + s++  R++a   i++++d +++++        + ++++ak+  +k++++  +    +++ ++i
  PHY93_20320|PHY93_20320 243 GSG-IEQGLKTASTFLDRYSSSfLRNDAYLAIVFVSDENDQSDkkvseyIARYQSAKAKKGMVKTYSIVTQTKRPAAQAETI 323
                              888.********9988888888999999999999999888774467744444444555566777777766555555545555 PP

>> CHGN  Chondroitin N-acetylgalactosaminyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.1   3.4e-05       0.2     275     346 ..     250     317 ..     246     332 .. 0.73

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 3.4e-05
                     CHGN 275 vetferFlenyekvcleqkenvlllvvlykakekdedefkkikellkelekkykkae.iavisvksgefsrga 346
                               +t++ Fl++y +++l++ +  l +v++ ++   ++++ kk+ e + ++++   k++ ++  s+  ++ +r a
  PHY93_20320|PHY93_20320 250 LKTASTFLDRYSSSFLRN-DAYLAIVFVSDE---NDQSDKKVSEYIARYQSAKAKKGmVKTYSIV-TQTKRPA 317
                              78999***********86.666777777777...3566778888888888766666557777776.5555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (422 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       698  (0.0389313); expected 358.6 (0.02)
Passed bias filter:                      469  (0.0261587); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.68u 0.27s 00:00:00.95 Elapsed: 00:00:00.54
# Mc/sec: 2339.17
//
Query:       PHY93_20325|PHY93_20325  [L=76]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (76 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1290  (0.0719505); expected 358.6 (0.02)
Passed bias filter:                      507  (0.0282782); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.44
# Mc/sec: 518.76
//
Query:       PHY93_20330|PHY93_20330  [L=483]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   6.2e-137  457.2   0.2   7.9e-137  456.8   0.2    1.0  1  UPF0061   Uncharacterized ACR, YdiU/UPF0061 family


Domain annotation for each model (and alignments):
>> UPF0061  Uncharacterized ACR, YdiU/UPF0061 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  456.8   0.2  4.4e-141  7.9e-137       3     458 ..      10     446 ..       8     456 .. 0.93

  Alignments for each domain:
  == domain 1  score: 456.8 bits;  conditional E-value: 4.4e-141
                  UPF0061   3 lkleyepaleslgsdfydeveaaefpkkilrvrndalleelgldeeevkdeelieifgkekgiep..flalrYhGyQFGeynpqLG 86 
                                l+++++l++   + + ev+ + +++ +l+++n +ll++l+ld++e++++++++ +++  g+e   f ++ Y+G+QFG y p+LG
  PHY93_20330|PHY93_20330  10 ADLNFSNRLKKVCPHLFVEVSSTPLKNPVLLHTNLDLLNRLELDPRELEKSSFTRFLNGDLGFEGliFSSTYYSGHQFGYYVPRLG 95 
                              6799*******************************************************9666551155999************** PP

                  UPF0061  87 DGRgfllgqvrdkdgelydfglKGsGlTPySRsaDGrlvLksgvREvlasealhklgvrtsralslietgekllRedePspersav 172
                              DGR+++lg+v+++ ge+++++lKG+GlTP+SR++DG++v +s++RE+las  l++l+++t+ al +i+  ++++Re   + e++a+
  PHY93_20330|PHY93_20330  96 DGRAIMLGEVENRAGEHFELQLKGAGLTPFSRMGDGKAVVRSSIREYLASAHLKALNIPTTEALAIIHGSDDVYRE---EVEKAAI 178
                              ****************************************************************************...9****** PP

                  UPF0061 173 vvRlarshiRfGtferlkylkrldllkkLldyvieeyypeladeeekyaqfyaelvervAelvAqWmaaGFchgVlNTDNmsilGe 258
                              v+R+++s++RfG+f+ +  +++ ++lkkL+d++ie+y+++ ad++++y +f++++v+++A+l A W+++GF+hgVlNTDNmsilG+
  PHY93_20330|PHY93_20330 179 VLRVSESFLRFGHFQYYASTNQDAELKKLVDFTIENYFKDFADHSNRYVLFFQSVVKKTAKLFAAWQSVGFAHGVLNTDNMSILGL 264
                              ************************************************************************************** PP

                  UPF0061 259 slDYGPyaFldkydpkftaayfDyagrYsyanQpsiilwNLeqlaeplallieaeeleealeeykevyttkYaqlmlkkLGlekls 344
                              ++DYGP++F+d++d +++++++D++grYs++nQp i +wNLeql  +l+ li+ e+l+++l++y + ++ +Y++l++ kLGl k  
  PHY93_20330|PHY93_20330 265 TIDYGPFGFIDEFDLDHVCNHSDHEGRYSFGNQPPIGMWNLEQLGIALKGLITEEDLKRTLDTYPQLFHVEYRRLIKDKLGLYKSL 350
                              **********************************************************************************3332 PP

                  UPF0061 345 ekekefdselleellelLqetqvdYneffveLaeskskkwrdeaesileesekeleeekleeWrelYkklleeleedeleeraerl 430
                                    d+++l+++l++L +t++dY++ff+eL++++++k+     s+       + + +l+e+  lY+++l+ lee++  +r++++
  PHY93_20330|PHY93_20330 351 ----APDEDFLKKTLNMLVSTKLDYTQFFRELSHYQTSKTL----SF-------TATPELTEFLILYEERLS-LEETSSIDRKNNM 420
                              ....23568**************************888765....23.......3456899**********9.5566777888999 PP

                  UPF0061 431 kkvNpktvllrplieeviekiaeeddls 458
                                +Npk++l+++l++ +ie+   +++ +
  PHY93_20330|PHY93_20330 421 LAINPKFILRNYLAQIAIENY--DNNPQ 446
                              9*****************994..44444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (483 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       489  (0.0272742); expected 358.6 (0.02)
Passed bias filter:                      385  (0.0214736); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.65u 0.26s 00:00:00.91 Elapsed: 00:00:00.49
# Mc/sec: 2965.57
//
Query:       PHY93_20335|PHY93_20335  [L=108]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.3e-13   51.5   0.0    1.7e-13   51.1   0.0    1.2  1  CoA_binding_2  CoA binding domain
  ------ inclusion threshold ------
      0.028   14.3   0.0      0.034   14.0   0.0    1.1  1  VirB8          VirB8 protein


Domain annotation for each model (and alignments):
>> CoA_binding_2  CoA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.1   0.0   1.9e-17   1.7e-13       2     115 ..       2     105 ..       1     106 [. 0.95

  Alignments for each domain:
  == domain 1  score: 51.1 bits;  conditional E-value: 1.9e-17
                              -EEEET--S-TTSHHHHHHHHHHHHT--EEEESSS-SEETTEES----T....T--EEEE-S-HHHHGGGHHHHHHH--SEEEE-T CS
            CoA_binding_2   2 tiaVvGasdnpgkfgykvlryllehglpvvpVnpkeeeilgekvyaslaedpepvdlvdvftppeatpeivkealalgakavwlqp 87 
                              +++V+G sdnp+++++ +++ l++ +++ +  np+ +        ++l +  ++ d+v++++ p ++ +  + +l l+ k+v+++p
  PHY93_20335|PHY93_20335   2 KVLVFGYSDNPDRYSNIAANLLQDYKHETIKFNPRVD---D----PKLLD--KNFDTVTLYVSPPVADQFQDLLLGLNFKRVIFNP 78 
                              589*********************999********55...5....99994..79******************************** PP

                              T---HHHHHHHHHTT-EEE.ES-HHHHH CS
            CoA_binding_2  88 gsedeeaaelaeeagirvvgdrCilveg 115
                              g+e+ ++ e+++++g++vv  +C+lv++
  PHY93_20335|PHY93_20335  79 GTENFQLEEKLKNKGVEVV-RGCTLVML 105
                              *******************.*****986 PP

>> VirB8  VirB8 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   3.8e-06     0.034      91     122 ..      35      66 ..      22      76 .. 0.90

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 3.8e-06
                              H-B-TTTH.HHHHHHHHHTB-HHHHHHHHHHH CS
                    VirB8  91 eiyddaalvqdnydkvyllstgsaakelneya 122
                               ++dd++l+ +n+d+v l+ ++++a++++++ 
  PHY93_20335|PHY93_20335  35 PRVDDPKLLDKNFDTVTLYVSPPVADQFQDLL 66 
                              6789*************************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (108 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       327  (0.0182386); expected 358.6 (0.02)
Passed bias filter:                      293  (0.0163422); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.25s 00:00:00.69 Elapsed: 00:00:00.44
# Mc/sec: 735.54
//
Query:       PHY93_20340|PHY93_20340  [L=208]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.7e-34  117.8   0.0    3.5e-34  117.5   0.0    1.1  1  VanY      D-alanyl-D-alanine carboxypeptidase


Domain annotation for each model (and alignments):
>> VanY  D-alanyl-D-alanine carboxypeptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  117.5   0.0   1.9e-38   3.5e-34       2     132 ..      23     178 ..      22     179 .. 0.91

  Alignments for each domain:
  == domain 1  score: 117.5 bits;  conditional E-value: 1.9e-38
                              GEEEHHHHHHHHHHHHHHHHTT--EEEEE----HHHHHHHH.HHHHH...................HHHHHHHHHHS--TTT-GGG CS
                     VanY   2 iklrkeaaealeellaaakkegielalvsgfRsverQeelfekksvk...................eeklkeilrvsalpGaSeHh 68 
                              + +++e+ ++l +l++aak++g++la+ s+fRs+e+Q+ ++++ks                     ee l  ilr+sa pG S+Hh
  PHY93_20340|PHY93_20340  23 HLVHREMNQSLVNLFNAAKNDGFDLAITSTFRSYETQKIIWNEKSLGlravldsnsipvdlstkssEEILFLILRWSAIPGGSRHH 108
                              789**************************************44444469***************9999999*************** PP

                              GTSEEEEEEGGGTT.--.........SCGGGHCHHHHHHHHHGGGGTEEESS-TTGHHHHSS---TTEEEE-G CS
                     VanY  69 tGlaiDisdkeaeetkl.........eesfeetkafkwlqknaakygFvlrypkgkeqetgvsyEpWHlrYvg 132
                              +G+++D++dk+a +++          e+++   +++kwl++n++++gF+ +y    ++  g++ EpWHl+Y +
  PHY93_20340|PHY93_20340 109 WGTDLDVYDKKAVSADYkvqlvpseyESQGPFYQSTKWLNENMERFGFFRPYS---RDCGGIAPEPWHLSYRP 178
                              **********998844344559999999************************9...67789**********97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (208 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       456  (0.0254337); expected 358.6 (0.02)
Passed bias filter:                      408  (0.0227564); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.26s 00:00:00.75 Elapsed: 00:00:00.45
# Mc/sec: 1400.23
//
Query:       PHY93_20345|PHY93_20345  [L=253]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.7e-24   86.0   0.0    4.1e-24   85.8   0.0    1.1  1  AbiEii    Nucleotidyl transferase AbiEii toxin, Type IV TA sy
  ------ inclusion threshold ------
      0.037   13.7   0.0         12    5.6   0.0    2.5  2  Prok_Ub   Prokaryotic Ubiquitin
       0.13   11.8   0.0       0.23   10.9   0.0    1.3  1  DUF1155   Protein of unknown function (DUF1155)


Domain annotation for each model (and alignments):
>> AbiEii  Nucleotidyl transferase AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.8   0.0   6.9e-28   4.1e-24       4     193 ..      37     234 ..      34     253 .] 0.85

  Alignments for each domain:
  == domain 1  score: 85.8 bits;  conditional E-value: 6.9e-28
                   AbiEii   4 fa.lslsaladklvFkGGTaLslayglipRfSeDIDlsllrgdrkellealkealeeiaaalaeeglkvklaasigegedyeglrl 88 
                              ++  ++++l+++l+F GG+ L +  + ++Rf++D+D  + + ++++l+ ++++ l+   ++ +  g   +++ s+++  +y+g+r+
  PHY93_20345|PHY93_20345  37 ARlVNNPFLKERLIFGGGFVLFKDSD-SHRFTKDVDAIINDISKEHLIIEVNKSLSLDLEDGFWFGDAMDEEISTEN--GYGGYRF 119
                              5556689**************99998.************99********************9998888777777766..9****** PP

                   AbiEii  89 rypaef.......ggyarqkikieigfreav.ppaerreippyleelggpafevpvysleellaeKllalldrgrdrsraRDlyDl 166
                              ++ ++        + +   ++ ++i+++ ++ + a+  +i++ l+ +   +fe +vy++e ++ eK++ lldrg+ ++r++D+yDl
  PHY93_20345|PHY93_20345 120 KILSKIgiapgplELKNLKRVHLDISIGVDLkDVAQSSNINSVLDIF--SPFEWKVYPPEFIASEKIHCLLDRGDLNTRGKDVYDL 203
                              ************96666668999999999998999999999999999..************************************* PP

                   AbiEii 167 alLleaeldaealaeallaylasrgr.....p 193
                               ++l+ e+  e+la a++++++ r+      +
  PHY93_20345|PHY93_20345 204 SQVLN-EIPIEKLASAIKRTFKNRKFelsdfY 234
                              ****9.77777777*********998655542 PP

>> Prok_Ub  Prokaryotic Ubiquitin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   0.0    0.0021        13       3      34 ..     135     168 ..     133     175 .. 0.82
   2 ?    5.6   0.0     0.002        12       4      24 ..     218     239 ..     216     242 .. 0.83

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.0021
                  Prok_Ub   3 ttlkRvF..kyngirLaDpnpklspeeVrdfYaa 34 
                              ++lkRv   +  g++L+D+ ++ +++ V d++++
  PHY93_20345|PHY93_20345 135 KNLKRVHldISIGVDLKDVAQSSNINSVLDIFSP 168
                              5666665334568******************996 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.002
                  Prok_Ub   4 tlkRvFkyngirLaDp.npkls 24 
                               +kR+Fk  + +L+D+ n + +
  PHY93_20345|PHY93_20345 218 AIKRTFKNRKFELSDFyNTASK 239
                              58*************9776655 PP

>> DUF1155  Protein of unknown function (DUF1155)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   3.9e-05      0.23      15      32 ..      90     107 ..      86     116 .. 0.88

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 3.9e-05
                  DUF1155  15 LSLLAEPGTWFADTmDFr 32 
                              LSL  E G WF D mD +
  PHY93_20345|PHY93_20345  90 LSLDLEDGFWFGDAMDEE 107
                              89999***********65 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (253 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       583  (0.0325172); expected 358.6 (0.02)
Passed bias filter:                      451  (0.0251548); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1670.88
//
Query:       PHY93_20350|PHY93_20350  [L=193]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00028   21.0   0.0    0.00053   20.1   0.0    1.4  1  AbiEi_4   Transcriptional regulator, AbiEi antitoxin
  ------ inclusion threshold ------
      0.027   14.6   0.1       0.04   14.0   0.1    1.3  1  PglZ      PglZ domain


Domain annotation for each model (and alignments):
>> AbiEi_4  Transcriptional regulator, AbiEi antitoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.1   0.0   5.9e-08   0.00053      12      46 ..      14      48 ..      11      49 .. 0.95

  Alignments for each domain:
  == domain 1  score: 20.1 bits;  conditional E-value: 5.9e-08
                  AbiEi_4 12 GlfttreleaaGispsalrrLvrkGwLvrlrrGvY 46
                              +f+++++ ++G+ +  l+ Lv +G++ +l rG+Y
  PHY93_20350|PHY93_20350 14 NTFSSKDALKCGLNYHDLNVLVAEGKISKLERGIY 48
                             78********************************* PP

>> PglZ  PglZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.1   4.5e-06      0.04     107     160 ..     123     176 ..      99     180 .. 0.88

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 4.5e-06
                     PglZ 107 ellkdkevvyivhnkvDalgd.kasteqksfeaveeslkelkelvkslleengyk 160
                              e++++ +v  i    vDal d k+++e +sf+ + ++lke k ++k+l e+ + k
  PHY93_20350|PHY93_20350 123 ETVEGIRVTDISRTLVDALYDkKHISEAESFNMALQALKEKKTTIKKLNEM-AHK 176
                              56788899999999*******7789***********************999.555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (193 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1063  (0.0592894); expected 358.6 (0.02)
Passed bias filter:                      623  (0.0347482); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.27s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 1300.21
//
Query:       PHY93_20355|PHY93_20355  [L=92]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (92 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       465  (0.0259356); expected 358.6 (0.02)
Passed bias filter:                      367  (0.0204696); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.27s 00:00:00.70 Elapsed: 00:00:00.45
# Mc/sec: 618.42
//
Query:       PHY93_20360|PHY93_20360  [L=106]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.1e-10   40.8   0.0    3.1e-10   40.2   0.0    1.3  1  HTH_31          Helix-turn-helix domain
    7.7e-10   38.7   0.2    1.2e-09   38.1   0.0    1.4  2  HTH_3           Helix-turn-helix
    8.8e-05   22.5   0.1     0.0002   21.3   0.0    1.6  2  HTH_19          Helix-turn-helix domain
     0.0021   17.5   0.0      0.004   16.7   0.0    1.5  1  HTH_24          Winged helix-turn-helix DNA-binding
     0.0058   16.1   0.1      0.032   13.7   0.0    2.0  2  Sigma70_r4      Sigma-70, region 4
  ------ inclusion threshold ------
      0.051   13.4   0.0      0.074   12.9   0.0    1.4  1  HTH_25          Helix-turn-helix domain
      0.058   13.3   0.0       0.11   12.4   0.0    1.5  1  YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitox
      0.093   12.7   0.0       0.15   12.0   0.0    1.4  1  HTH_37          Helix-turn-helix domain
       0.12   12.3   0.0       0.21   11.5   0.0    1.4  1  MarR_2          MarR family
       0.15   12.0   0.0       0.23   11.4   0.0    1.3  1  MarR            MarR family
       0.15   11.7   0.0       0.25   11.0   0.0    1.3  1  Sigma70_r4_2    Sigma-70, region 4


Domain annotation for each model (and alignments):
>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.2   0.0   1.9e-13   3.1e-10       2      51 ..      24      72 ..      23      80 .. 0.93

  Alignments for each domain:
  == domain 1  score: 40.2 bits;  conditional E-value: 1.9e-13
                   HTH_31  2 LGalLralReraGLsqeevAerlgvsestlsrlEqGrrgrpspavleala 51
                             ++ lL  +Re++GLsq e+A+ lg+s+  + + E Gr  +pspa  ea+a
  PHY93_20360|PHY93_20360 24 FAKLLYSYREAEGLSQVELAAKLGLSKGNICDFEKGRK-IPSPAKAEAMA 72
                             7889999*******************************.7********98 PP

>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.1       6.6   1.1e+04       1       9 [.      12      20 ..      12      20 .. 0.78
   2 !   38.1   0.0   7.1e-13   1.2e-09       1      51 [.      28      79 ..      28      83 .. 0.91

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 6.6
                             HHHHHHHTT CS
                    HTH_3  1 lkelRkqlg 9 
                             lk lRk +g
  PHY93_20360|PHY93_20360 12 LKNLRKDRG 20
                             788999776 PP

  == domain 2  score: 38.1 bits;  conditional E-value: 7.1e-13
                             HHHHHHHTTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHT.SE CS
                    HTH_3  1 lkelRkqlglsqeeLAeklGvsrstisriEnGernPsletlkklakaLg.vs 51
                             l  +R++ glsq eLA+klG+s+  i + E+G+ +Ps+ +++++a  Lg ++
  PHY93_20360|PHY93_20360 28 LYSYREAEGLSQVELAAKLGLSKGNICDFEKGRKIPSPAKAEAMAISLGdLP 79
                             5789*****************************************9988555 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.1         3   4.8e+03       4      12 ..      12      20 ..      12      20 .. 0.85
   2 !   21.3   0.0   1.2e-07    0.0002       2      53 ..      26      76 ..      25      86 .. 0.86

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 3
                   HTH_19  4 LkeaReelg 12
                             Lk +R+ +g
  PHY93_20360|PHY93_20360 12 LKNLRKDRG 20
                             799999987 PP

  == domain 2  score: 21.3 bits;  conditional E-value: 1.2e-07
                   HTH_19  2 erLkeaReelgltqeelaerlgisrskisaiEngkkdvpsaelllkiaealg 53
                             + L  +Re  gl+q ela +lg s++ i  +E+g+k  ps+ +  + a  lg
  PHY93_20360|PHY93_20360 26 KLLYSYREAEGLSQVELAAKLGLSKGNICDFEKGRK-IPSPAKAEAMAISLG 76
                             568899*****************************9.**9887766665555 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.0   2.5e-06     0.004       9      33 ..      28      52 ..      26      53 .. 0.84

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 2.5e-06
                   HTH_24  9 LelLqknprisqreLAerlglSpst 33
                             L   ++  ++sq eLA +lglS+++
  PHY93_20360|PHY93_20360 28 LYSYREAEGLSQVELAAKLGLSKGN 52
                             566678899*************997 PP

>> Sigma70_r4  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.1      0.56   9.1e+02      41      50 .]       8      17 ..       5      17 .. 0.83
   2 !   13.7   0.0     2e-05     0.032      17      38 ..      31      54 ..      26      58 .. 0.82

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.56
                             HHHHHHHHHH CS
               Sigma70_r4 41 ekrAlrkLRk 50
                             +k++l++LRk
  PHY93_20360|PHY93_20360  8 IKYGLKNLRK 17
                             799*****97 PP

  == domain 2  score: 13.7 bits;  conditional E-value: 2e-05
                             H..TTT--HHHHHHHHTS-HHHHH CS
               Sigma70_r4 17 f..geglTleEIgerlgiSrerVr 38
                             +   egl++ E++++lg+S++ + 
  PHY93_20360|PHY93_20360 31 YreAEGLSQVELAAKLGLSKGNIC 54
                             34589****************986 PP

>> HTH_25  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   4.5e-05     0.074       4      42 ..      30      66 ..      27      78 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 4.5e-05
                             HHHHTTT--HHHHHHHSS--HHHHHHHHCT--TTSS-HH CS
                   HTH_25  4 aaRearglsleevaketkIrkdylealEeddfdalpepv 42
                               Rea gls  e+a+++ ++k  +  +E++   ++p+p+
  PHY93_20360|PHY93_20360 30 SYREAEGLSQVELAAKLGLSKGNICDFEKG--RKIPSPA 66
                             56**********************999999..5666555 PP

>> YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   6.6e-05      0.11      10      35 ..      38      64 ..      33      73 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 6.6e-05
           YdaS_antitoxin 10 gqkaLAealgvsqqaVsqWlkgkkq.v 35
                             +q++LA +lg s+ +++++ kg+k   
  PHY93_20360|PHY93_20360 38 SQVELAAKLGLSKGNICDFEKGRKIpS 64
                             89*****************99866543 PP

>> HTH_37  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   9.1e-05      0.15      20      55 ..      25      60 ..      13      62 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 9.1e-05
                             HHHHHHHHHHCT--HHHHHHHHT--HHHHHHHHTT- CS
                   HTH_37 20 alaiaeliekrelsqseaaqllgiaqPkvsrllrgk 55
                             a+ ++  +e+++lsq e+a++lg ++ ++ + ++g+
  PHY93_20360|PHY93_20360 25 AKLLYSYREAEGLSQVELAAKLGLSKGNICDFEKGR 60
                             667999******************999998888876 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00013      0.21      11      38 ..      28      53 ..      21      55 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00013
                             HHHHHCTTTSEEEHHHHHHHHTSSHHHH CS
                   MarR_2 11 LaaLgrrpgrdltvgelarrlglsksav 38
                             L+  + ++g  l++ ela++lglsk+++
  PHY93_20360|PHY93_20360 28 LYSYREAEG--LSQVELAAKLGLSKGNI 53
                             555567778..**************987 PP

>> MarR  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00014      0.23       7      34 ..      26      53 ..      21      56 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00014
                             HHHHHHHHSTTEEHHHHHHHHTS-HHHH CS
                     MarR  7 viLrilyeqgplsvseLakklgvskstv 34
                             ++L++ +e ++ls+ eLa klg+sk+++
  PHY93_20360|PHY93_20360 26 KLLYSYREAEGLSQVELAAKLGLSKGNI 53
                             6899999******************997 PP

>> Sigma70_r4_2  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   0.00015      0.25      21      43 ..      31      53 ..      26      53 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00015
                             HHHTS---HHHHHHHHT--HHHH CS
             Sigma70_r4_2 21 lryleglsykEIAellgisegtV 43
                              r+ egls+ E A++lg+s g++
  PHY93_20360|PHY93_20360 31 YREAEGLSQVELAAKLGLSKGNI 53
                             6889***************9985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (106 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       252  (0.0140554); expected 358.6 (0.02)
Passed bias filter:                      239  (0.0133304); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.42u 0.27s 00:00:00.69 Elapsed: 00:00:00.44
# Mc/sec: 725.16
//
Query:       PHY93_16955|PHY93_16955  [L=85]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.7e-05   22.6   0.0    0.00015   22.0   0.0    1.3  1  HD_5      HD domain
  ------ inclusion threshold ------
      0.064   12.3   0.1        1.4    8.0   0.1    2.1  2  RELT      Tumour necrosis factor receptor superfamily member 


Domain annotation for each model (and alignments):
>> HD_5  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.0   0.0   1.6e-08   0.00015      28      59 ..       2      33 ..       1      35 [. 0.89

  Alignments for each domain:
  == domain 1  score: 22.0 bits;  conditional E-value: 1.6e-08
                     HD_5 28 lpkdvaeiigqhhErldGsGyPrglkgeeIpl 59
                             +p+d+ +i + +hE  dG G+Pr+l ++++  
  PHY93_16955|PHY93_16955  2 IPPDIDRILLEQHEMPDGNGFPRKLNANQLGP 33
                             56799***********************9965 PP

>> RELT  Tumour necrosis factor receptor superfamily member 19
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   0.1   0.00016       1.4      11      27 ..      36      52 ..      30      53 .. 0.85
   2 ?    2.2   0.0    0.0097        87      20      29 ..      60      69 ..      59      77 .. 0.87

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.00016
                     RELT 11 flmGLlGvLiChvLkkK 27
                             ++  L+G+L  hvLk K
  PHY93_16955|PHY93_16955 36 CVFILTGILARHVLKEK 52
                             777799*********98 PP

  == domain 2  score: 2.2 bits;  conditional E-value: 0.0097
                     RELT 20 iChvLkkKGY 29
                             +C +L  +GY
  PHY93_16955|PHY93_16955 60 FCTLLEEQGY 69
                             6********* PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (85 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       249  (0.0138881); expected 358.6 (0.02)
Passed bias filter:                      245  (0.013665); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.24s 00:00:00.67 Elapsed: 00:00:00.43
# Mc/sec: 587.95
//
Query:       PHY93_20365|PHY93_20365  [L=194]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (194 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       714  (0.0398237); expected 358.6 (0.02)
Passed bias filter:                      550  (0.0306766); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.25s 00:00:00.78 Elapsed: 00:00:00.46
# Mc/sec: 1258.87
//
Query:       PHY93_20370|PHY93_20370  [L=245]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.1e-12   46.5   0.0      4e-12   46.2   0.0    1.1  1  DDE_Tnp_IS66  Transposase IS66 family
  ------ inclusion threshold ------
      0.067   13.3   0.1       0.28   11.3   0.1    2.2  1  VHP           Villin headpiece domain


Domain annotation for each model (and alignments):
>> DDE_Tnp_IS66  Transposase IS66 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.2   0.0   4.5e-16     4e-12     109     281 ..      46     210 ..      32     211 .. 0.80

  Alignments for each domain:
  == domain 1  score: 46.2 bits;  conditional E-value: 4.5e-16
             DDE_Tnp_IS66 109 spsRggevaealLag...fkG.vlvsDgyagYnklaeeqvthalCwaHlrRkfvdaeeakkk.sqaaaealarigklyaiereare 189
                              ++ R+g +  a+ ag   ++G  l+sD+ + +n ++   ++h lCw H +R+++ +e  +++ + ++++ l+   +l+++ +++  
  PHY93_20370|PHY93_20370  46 HDLRTGMYLAAFRAGdlgYNGtSLMSDDAGQFNYIY---ADHGLCWIHELRHYKLIEAFYGEnKVKLDNFLTSAWNLFRLIKSV-- 126
                              66677777777766667788757**********997...************988777766544677788888888888877777.. PP

             DDE_Tnp_IS66 190 aeaeerlalrqeesrpllaeleawleeqlkkvlpksklgkairyllkrweallrfledgrvpidNNaaERaiRpvvlgRKnslfag 275
                                   r +l +e+++ +l+++e+++  ++++ ++ +  ++a++yl  + ++ll  l ++ +p+ NN aE ++R  v++RK+slf +
  PHY93_20370|PHY93_20370 127 -----RGNLNNERAALVLEDFEKVFGGTKTGFKELD-KQRALSYL--KIDKLLAPLWNKILPLHNNEAELDVRGKVIKRKISLFNK 204
                              .....7789999999********8875543333333.34556665..6799*********************************** PP

             DDE_Tnp_IS66 276 seeGae 281
                              + +Ga+
  PHY93_20370|PHY93_20370 205 TLKGAN 210
                              ****97 PP

>> VHP  Villin headpiece domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.1   3.2e-05      0.28       5      22 ..     140     157 ..     137     160 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 3.2e-05
                      VHP   5 edFeevFgmtreeFykLP 22 
                              edFe+vFg t++ F+ L 
  PHY93_20370|PHY93_20370 140 EDFEKVFGGTKTGFKELD 157
                              9*************9985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (245 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       534  (0.0297841); expected 358.6 (0.02)
Passed bias filter:                      390  (0.0217525); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.25s 00:00:00.78 Elapsed: 00:00:00.46
# Mc/sec: 1590.39
//
Query:       PHY93_20375|PHY93_20375  [L=296]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      8e-07   28.8   0.0    1.5e-06   27.9   0.0    1.4  2  DDE_Tnp_IS66  Transposase IS66 family
    0.00042   19.3   2.2    0.00055   18.9   2.2    1.1  1  CALCOCO1      Calcium binding and coiled-coil domain (CALCOCO
    0.00061   20.2   1.8     0.0015   18.9   1.8    1.7  1  ZapB          Cell division protein ZapB
     0.0018   17.9   1.4     0.0037   16.9   1.4    1.6  1  DUF4795       Domain of unknown function (DUF4795)
     0.0026   17.6   0.1     0.0076   16.1   0.1    1.8  1  WD40_alt      Alternative WD40 repeat motif
  ------ inclusion threshold ------
       0.37   11.1   4.6        6.5    7.1   0.3    3.1  3  TSC22         TSC-22/dip/bun family


Domain annotation for each model (and alignments):
>> DDE_Tnp_IS66  Transposase IS66 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.1       1.4   4.1e+03     236     255 ..      70      89 ..      32     110 .. 0.55
   2 !   27.9   0.0   5.1e-10   1.5e-06       4      84 ..     179     260 ..     176     293 .. 0.82

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 1.4
             DDE_Tnp_IS66 236 krweallrfledgrvpidNN 255
                              k ++ + rf e ++v  d N
  PHY93_20375|PHY93_20375  70 KGEKPVPRFTESKDVTSDEN 89 
                              33333344444444444433 PP

  == domain 2  score: 27.9 bits;  conditional E-value: 5.1e-10
             DDE_Tnp_IS66   4 agpsllAeilvlkyadhlPlyRqeeilarlGvelsrgtlanwvkraaellep.lvealkaallasevihaDETtlrvlkpgr 84 
                              +gp l + i+ + ++  +   +++++l+  ++++s++++ n + +++el++  l +  +aal ++++ h+D+T++++lk+++
  PHY93_20375|PHY93_20375 179 FGPTLRSFIVAQYFESDCTHSKIKNLLTGIDIDISKSQINNILLKSSELFKDeLSDLREAALIKDPHQHIDDTSWKILKRNS 260
                              89***********************************************76538888888999***************9433 PP

>> CALCOCO1  Calcium binding and coiled-coil domain (CALCOCO1) like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   2.2   1.8e-07   0.00055     104     191 ..      32     120 ..      23     142 .. 0.86

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 1.8e-07
                 CALCOCO1 104 kelerlseelaeeksalleakeesearirELEeDiktl.tqralekEteLeRlkerakkalaqrkeeeaerkqlqakleqseeelr 188
                              k+l+    +l ++++ l  ++e+++ ri+ELE+ i++l +++ + + te + ++   +k++ + k+++++r+  ++k++ s + + 
  PHY93_20375|PHY93_20375  32 KNLQGRISALIDQNENLYGESEKNKMRIQELEDQIRILkGEKPVPRFTESKDVTSDENKTTDKNKNKKKDRSPRRKKIDLSIDKTI 117
                              6666666778889999**********************56999*****************************99999998877666 PP

                 CALCOCO1 189 sls 191
                               l 
  PHY93_20375|PHY93_20375 118 DLK 120
                              655 PP

>> ZapB  Cell division protein ZapB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   1.8   4.9e-07    0.0015       6      55 ..      31     102 ..      28     115 .. 0.83

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 4.9e-07
                     ZapB   6 LeqLEskiqkaidtitlLqmeieeLkeeneelkeenrele......................eeneqlkeer 55 
                               + L+ +i+++id+ + L  e e+ k++ +el++++r l+                       +n++ k++r
  PHY93_20375|PHY93_20375  31 IKNLQGRISALIDQNENLYGESEKNKMRIQELEDQIRILKgekpvprfteskdvtsdenkttDKNKNKKKDR 102
                              679*********************************************999999995555555555555555 PP

>> DUF4795  Domain of unknown function (DUF4795)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   1.4   1.3e-06    0.0037      11      75 ..      26      95 ..      14     127 .. 0.89

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 1.3e-06
                  DUF4795 11 klqeaieklqeelekleekvkelekrledkekklealkkqieelekvk.....adkeeveeelaekadke 75
                              l++ i++lq +++ l ++ ++l +++e+ +  ++ l++qi+ l+ +k      ++++v+  ++   dk+
  PHY93_20375|PHY93_20375 26 GLKDIIKNLQGRISALIDQNENLYGESEKNKMRIQELEDQIRILKGEKpvprfTESKDVTSDENKTTDKN 95
                             58899*******************************************9999977777777777777776 PP

>> WD40_alt  Alternative WD40 repeat motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.1   2.6e-06    0.0076       6      31 ..      45      70 ..      41      71 .. 0.93

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 2.6e-06
                 WD40_alt  6 eKnvlGdqeqlkvrvseLeeEVrtLr 31
                             + n+ G+ e+ k+r+ eLe+ +r+L+
  PHY93_20375|PHY93_20375 45 NENLYGESEKNKMRIQELEDQIRILK 70
                             569*********************98 PP

>> TSC22  TSC-22/dip/bun family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.1   0.3    0.0022       6.5      19      41 ..      27      49 ..      25      58 .. 0.85
   2 ?    4.3   0.2     0.017        51      18      37 ..      54      73 ..      50      90 .. 0.78
   3 ?   -0.0   0.0      0.38   1.1e+03      29      42 ..     211     224 ..     195     239 .. 0.59

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.0022
                    TSC22 19 LkekIkeLeernseleeENslLk 41
                             Lk+ Ik+L+ r+s+l  +N+ L 
  PHY93_20375|PHY93_20375 27 LKDIIKNLQGRISALIDQNENLY 49
                             9*****************99886 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.017
                    TSC22 18 vLkekIkeLeernseleeEN 37
                               k +I+eLe++++ l+ E 
  PHY93_20375|PHY93_20375 54 KNKMRIQELEDQIRILKGEK 73
                             55889********9999886 PP

  == domain 3  score: -0.0 bits;  conditional E-value: 0.38
                    TSC22  29 rnseleeENslLka 42 
                              ++s+ +  N lLk+
  PHY93_20375|PHY93_20375 211 DISKSQINNILLKS 224
                              45666666666663 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (296 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1322  (0.0737353); expected 358.6 (0.02)
Passed bias filter:                      606  (0.0338); expected 358.6 (0.02)
Passed Vit filter:                        69  (0.00384851); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.60u 0.28s 00:00:00.88 Elapsed: 00:00:00.48
# Mc/sec: 1858.02
//
Query:       PHY93_20380|PHY93_20380  [L=60]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (60 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       170  (0.00948185); expected 358.6 (0.02)
Passed bias filter:                      129  (0.00719505); expected 358.6 (0.02)
Passed Vit filter:                         3  (0.000167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.26s 00:00:00.64 Elapsed: 00:00:00.42
# Mc/sec: 424.10
//
Query:       PHY93_12880|PHY93_12880  [L=77]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (77 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       291  (0.0162307); expected 358.6 (0.02)
Passed bias filter:                      156  (0.00870099); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.26s 00:00:00.67 Elapsed: 00:00:00.45
# Mc/sec: 514.90
//
Query:       PHY93_12885|PHY93_12885  [L=193]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (193 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       622  (0.0346924); expected 358.6 (0.02)
Passed bias filter:                      318  (0.0177366); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.45
# Mc/sec: 1289.11
//
Query:       PHY93_12890|PHY93_12890  [L=473]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.2e-11   44.5   0.0    1.9e-09   37.4   0.0    2.4  2  Sulfatase     Sulfatase
     0.0041   15.8   0.2     0.0054   15.4   0.2    1.3  1  DUF229        Protein of unknown function (DUF229)
  ------ inclusion threshold ------
      0.037   13.6   0.0      0.056   13.0   0.0    1.3  1  Phosphodiest  Type I phosphodiesterase / nucleotide pyrophosp
      0.095   12.4   0.4       0.28   10.8   0.1    2.0  2  MAF_flag10    Protein of unknown function DUF115
       0.52   10.7   0.1       0.52   10.7   0.1    2.8  4  HTH_WhiA      WhiA C-terminal HTH domain


Domain annotation for each model (and alignments):
>> Sulfatase  Sulfatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.9   0.0    0.0042        15       2      46 ..      34      77 ..      33      86 .. 0.87
   2 !   37.4   0.0   5.2e-13   1.9e-09     146     295 ..     125     364 ..      79     376 .. 0.76

  Alignments for each domain:
  == domain 1  score: 4.9 bits;  conditional E-value: 0.0042
                             EEEEEEESSE-TTGSGGGTTTSCSSHHHHHHHHTSEEESSEE-SS CS
                Sulfatase  2 nvvliladdlgagdlglyggktattpnldrlaeeglrftnfysaa 46
                             n++++ + +l+a+ lg+ +gk    p++d++a++ ++f+n+++  
  PHY93_12890|PHY93_12890 34 NILILSTCSLRANRLGYASGKNT-SPYIDKVAQKSFVFKNAFTDK 77
                             78888888999999999999775.9****************9865 PP

  == domain 2  score: 37.4 bits;  conditional E-value: 5.2e-13
                              C..............TTTTCSHHHHHHHHHHHHHHCCCTSSEEEEEEE-TTSSST.CTCGGHTCCGSTTTTCCCCCCH........ CS
                Sulfatase 146 v..............ppeggysddrlldealefllarndkpfflylatlapHapp.eapdeyakkyatffddgseaar........ 208
                                             p +++ ++d+l +  +++ l++ + pf++ ++   +H p+ + +d+y+   +    +     +        
  PHY93_12890|PHY93_12890 125 GdfflrlpglnyqlsPIDYFDYSDDLKKIKERL-LDTSKYPFYIEIHNKVMHLPYgNQFDKYHRPVRYLISPE----Svkyiqeye 205
                              134444566666777778888888875555555.788899************854444444444433222222....144557777 PP

                              ..........................................................................HHHHHHHHHHHH CS
                Sulfatase 209 ..........................................................................qlleaylnsvey 220
                                                                                                           e y+  ++ 
  PHY93_12890|PHY93_12890 206 anylstpdrlpfsfflgnigknnvpqvlkvlnineiqtkkmlnklgvpffvgmlnnkkvierwkntkyfsrdleVIKEMYDYRLKM 291
                              8888888889999999999999999999999999999999******************************9998888899999*** PP

                              HHHHHHHHHHHHHHTTTGGGEEEEEEESSSSCCCGHHTTSSSCTTCSSSHHHHBEEEEEEETTTSHC.EEECSEEE CS
                Sulfatase 221 vDdligrvlaaLeenglldntlvvftSDhgasleesngplrggkganayeggtrvPllvwwpgekap.rvseelvs 295
                               D+ ++++++    + l dnt+++ft+Dhg++  e  + l ++ + +  ++ ++ Pl+v +pg+ ++ ++++++  
  PHY93_12890|PHY93_12890 292 FDESLKDLINLYGNKDLVDNTVIIFTGDHGEAFFE--HGLMIHGE-TVFDEMLNFPLFVKFPGQVKRlEINQQFFQ 364
                              *********************************77..66666666.99******************9988888865 PP

>> DUF229  Protein of unknown function (DUF229)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.2   1.5e-06    0.0054     306     347 ..     276     325 ..     217     418 .. 0.76

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 1.5e-06
                   DUF229 306 dkfnlleal........DedllkylkklekkgllentlvlllsDHGlrfg 347
                              +++++++ +        De+l +++  + +k+l +nt++++ +DHG  f 
  PHY93_12890|PHY93_12890 276 RDLEVIKEMydyrlkmfDESLKDLINLYGNKDLVDNTVIIFTGDHGEAFF 325
                              444444444555555569999999999*******************6554 PP

>> Phosphodiest  Type I phosphodiesterase / nucleotide pyrophosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   1.5e-05     0.056     201     253 ..     289     341 ..     276     468 .. 0.70

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 1.5e-05
                              HHHHHHHHHHHHHHHHHTTGTTTEEEEEEES---EEEHTTS.EEEGGGTSTGGH CS
             Phosphodiest 201 lrrvDkaigdLlealderglsaetniilvSDHGmadvsddk.vielndlleekg 253
                              l+  D+ ++dL+++   + l ++t ii ++DHG a     + +i+ +++++e  
  PHY93_12890|PHY93_12890 289 LKMFDESLKDLINLYGNKDLVDNTVIIFTGDHGEAFFEH-GlMIHGETVFDEML 341
                              7899*****************************998843.23666777777665 PP

>> MAF_flag10  Protein of unknown function DUF115
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.1   7.9e-05      0.28      85     130 ..     242     293 ..     230     315 .. 0.74
   2 ?   -2.8   0.0       1.2   4.4e+03      86     108 ..     385     407 ..     376     434 .. 0.63

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 7.9e-05
               MAF_flag10  85 vfkeaekkgdiplvfasgvnpellkkykgpkiflvtgstqa......lelle 130
                              + k++ +k  +p++ +   n+++++++k++k+f+++  ++       l++++
  PHY93_12890|PHY93_12890 242 QTKKMLNKLGVPFFVGMLNNKKVIERWKNTKYFSRDLEVIKemydyrLKMFD 293
                              467777877***********************98886554355444544444 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 1.2
               MAF_flag10  86 fkeaekkgdiplvfasgvnpell 108
                               ++++++++ p++++ +++++l 
  PHY93_12890|PHY93_12890 385 NDKIKQNFSYPFIYSRTCSNDLR 407
                              34555555888888877777654 PP

>> HTH_WhiA  WhiA C-terminal HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.8   0.0       4.9   1.7e+04      22      44 ..     137     159 ..     136     162 .. 0.71
   2 ?   -2.8   0.1       2.3   8.2e+03      20      38 ..     232     250 ..     222     251 .. 0.65
   3 ?   10.7   0.1   0.00015      0.52      24      65 ..     263     304 ..     258     311 .. 0.89
   4 ?   -1.2   0.0      0.74   2.7e+03      23      59 ..     406     441 ..     400     450 .. 0.54

  Alignments for each domain:
  == domain 1  score: -3.8 bits;  conditional E-value: 4.9
                              HHHHHHHHHHHT-GGGS-HHHHH CS
                 HTH_WhiA  22 qieaielieekkgleklpeklke 44 
                              q+  i +++ +++l+k++e+l +
  PHY93_12890|PHY93_12890 137 QLSPIDYFDYSDDLKKIKERLLD 159
                              56667777778888888877765 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 2.3
                              HHHHHHHHHHHHHT-GGGS CS
                 HTH_WhiA  20 akqieaielieekkglekl 38 
                              + ++ +i+ i+ kk l+kl
  PHY93_12890|PHY93_12890 232 VLKVLNINEIQTKKMLNKL 250
                              4556678888888777765 PP

  == domain 3  score: 10.7 bits;  conditional E-value: 0.00015
                              HHHHHHHHHT-GGGS-HHHHHHHHHHHH-TTS-HHHHHHTT. CS
                 HTH_WhiA  24 eaielieekkgleklpeklkevaelRlenpdaSLkeLgelle 65 
                              + ie+ +++k++++  e +ke+ ++Rl+  d SLk+L +l++
  PHY93_12890|PHY93_12890 263 KVIERWKNTKYFSRDLEVIKEMYDYRLKMFDESLKDLINLYG 304
                              56999999999999999********************99984 PP

  == domain 4  score: -1.2 bits;  conditional E-value: 0.74
                              HHHHHHHHHHT-GGGS-HHHHHHHHHHHH-TTS-HHH CS
                 HTH_WhiA  23 ieaielieekkgleklpeklkevaelRlenpdaSLke 59 
                              +++i++ +e k++ +l+++ k + +l+++ p+ SL  
  PHY93_12890|PHY93_12890 406 LRSIRYNNEWKYIIDLKKDKKYLYDLKKD-PNESLDL 441
                              55555555555666666666666666543.4444443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (473 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       664  (0.037035); expected 358.6 (0.02)
Passed bias filter:                      386  (0.0215294); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.66u 0.25s 00:00:00.91 Elapsed: 00:00:00.48
# Mc/sec: 2993.37
//
Query:       PHY93_12895|PHY93_12895  [L=317]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
   8.1e-104  346.3   0.0   9.4e-104  346.1   0.0    1.0  1  MeaB         Methylmalonyl Co-A mutase-associated GTPase MeaB
    0.00016   21.3   0.7     0.0069   16.0   0.7    2.7  1  cobW         CobW/HypB/UreG, nucleotide-binding domain
    0.00017   21.5   0.1     0.0017   18.2   0.0    2.2  2  ATP_bind_1   Conserved hypothetical ATP binding protein
    0.00064   19.7   0.2       0.17   11.8   0.1    2.4  2  Rad17        Rad17 P-loop domain
     0.0034   17.4   0.0     0.0053   16.8   0.0    1.4  1  CbiA         CobQ/CobB/MinD/ParA nucleotide binding domain
     0.0034   16.6   1.0     0.0045   16.2   0.1    1.6  2  ArsA_ATPase  Anion-transporting ATPase
  ------ inclusion threshold ------
       0.01   15.6   0.0       0.02   14.6   0.0    1.6  1  AAA_24       AAA domain
      0.013   15.4   0.1      0.035   14.0   0.1    1.7  1  NTPase_1     NTPase
      0.013   14.9   0.2      0.064   12.7   0.0    1.9  2  ParA         NUBPL iron-transfer P-loop NTPase
      0.023   14.3   0.0        0.2   11.3   0.0    2.2  2  SRP54        SRP54-type protein, GTPase domain
      0.041   13.1   0.0      0.076   12.2   0.0    1.4  1  KAP_NTPase   KAP family P-loop domain
      0.046   13.4   0.0      0.092   12.5   0.0    1.5  1  IstB_IS21    IstB-like ATP binding protein
      0.049   14.0   0.2       0.87    9.9   0.0    2.2  2  AAA_16       AAA ATPase domain
      0.054   13.6   0.7       0.58   10.3   0.0    2.6  2  MMR_HSR1     50S ribosome-binding GTPase
      0.066   12.9   0.0       0.12   12.1   0.0    1.4  1  AAA_30       AAA domain
       0.08   12.7   0.0       0.29   10.9   0.0    1.9  2  CLP1_P       mRNA cleavage and polyadenylation factor CLP1 P-
       0.12   12.9   0.9       0.28   11.7   0.2    1.9  2  AAA_18       AAA domain
       0.16   11.9   0.0       0.96    9.4   0.0    2.0  2  DUF4888      Domain of unknown function (DUF4888)


Domain annotation for each model (and alignments):
>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  346.1   0.0  9.4e-107  9.4e-104       1     265 [.      15     285 ..      15     287 .. 0.98

  Alignments for each domain:
  == domain 1  score: 346.1 bits;  conditional E-value: 9.4e-107
                              HHHHHHHHH--SH....HHHHHHHHHGGG-S-SEEEEEEE-TTSSHHHHHHHHHHHHHCTT--EEEEEE----------------- CS
                     MeaB   1 Laraitlveserp....eakellerllakaGraqvvGltGvPGaGkstlvealglelrrrGkrvavlavDPsspftGGsilGDklR 82 
                              La+aitlves+rp    ea++lle++l+++G++ ++G+tGvPG+Gkst++e +gl l+++G++vavla+DPssp++GGsilGDk+R
  PHY93_12895|PHY93_12895  15 LAKAITLVESSRPedniEAQKLLEKVLPHSGNSIRLGITGVPGVGKSTFIESFGLYLISKGHKVAVLAIDPSSPISGGSILGDKTR 100
                              89************************************************************************************ PP

                              -HCCCTSTTEEEEEE-----HHHHHHHHHHHHHHHHHTT-SEEEEEEESSTTHHHHHHTT-SEEEEEEESSTTTTTTT--CCCHHH CS
                     MeaB  83 leelavdegvfiRslpsrGalGGlaaktrevvllleaaGfDvvlietvGvGqsevdvaevvdtfvvlllpeaGDelqgikkGilei 168
                              +e+l+++e +fiR++ps G lGG+a+ktre +ll+eaaGfD vlietvGvGqse +va++vd f+vl+lp+aGDelqgikkGile+
  PHY93_12895|PHY93_12895 101 MENLSQHEKAFIRPSPSLGFLGGVAQKTRESILLCEAAGFDYVLIETVGVGQSEFEVADMVDFFLVLMLPNAGDELQGIKKGILEL 186
                              ************************************************************************************** PP

                              -SEEEEE---...HHHHHHHHHHHHHHHHHCSTTBTTB--EEEEEBCCCTBSHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH CS
                     MeaB 169 aDiivvnkaD...kkeaekaarelraaleleeekekeWrpkvlktsavegeGidelvdaieehrevlkktGllekrrrerakeelr 251
                              aD +++nkaD   +++a+ + +++++a++l ++ +++W++kvl +sa+e++ +d +   +ee+++  k+tG ++++r ++++++ +
  PHY93_12895|PHY93_12895 187 ADAVIINKADgdiLPQANLTLAQYSSAMTLMRH-HSHWKAKVLSCSALEKKNLDLIYVMVEEYKTSTKATGYFAQKRLAQNQQWFK 271
                              ***********999**************99875.678************************************************* PP

                              HHHHHHHHHHHHC- CS
                     MeaB 252 elvedellkrvkaa 265
                              +l+ + l +++ ++
  PHY93_12895|PHY93_12895 272 KLIGELLERKIIHN 285
                              ***99999888765 PP

>> cobW  CobW/HypB/UreG, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.7     7e-06    0.0069       3     151 ..      50     196 ..      48     221 .. 0.71

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 7e-06
                              EEEEESTTCCHHHHHHHHH..CT--SS-EEEEESS-SSCHCCCCCCHCCCT.EEEETTTTECCHCTT-HHHHHHHHHHHH...... CS
                     cobW   3 tvltGflGsGKTtLlnhll..enraglklavivNefgevsiDaellretgveivelenGciCctlredllkelealeere...... 80 
                              +++tG +G GK+t++++      ++g k+av+  + ++    +++l ++ + + +l++        +  l  l  ++++       
  PHY93_12895|PHY93_12895  50 LGITGVPGVGKSTFIESFGlyLISKGHKVAVLAIDPSSPISGGSILGDK-TRMENLSQHEKAFIRPSPSLGFLGGVAQKTresill 134
                              579*************987778899***********9544555555444.444444444444443344444444444444344788 PP

                              ...TT-SEEEEEECTTTTHHHHHTTSHHHHHCCCECEEEEEEETTTH.CCHCCHHHHHHHHHHTSSEEEEE-HH CS
                     cobW  81 ...erldviliEttGlaePapvafteeelksdltldavvavvDaknleaeeekieekaedqlaaadllvlnKtD 151
                                 + +d++liEt+G+ +  +          +  +d+ ++++      +++++ +   +  l+ ad +++nK+D
  PHY93_12895|PHY93_12895 135 ceaAGFDYVLIETVGVGQSEFE--------VADMVDFFLVLMLP----NAGDELQGIKKGILELADAVIINKAD 196
                              8787899999999999988776........35556666666655....66889999999999**********98 PP

>> ATP_bind_1  Conserved hypothetical ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.0   1.7e-06    0.0017       1      36 [.      52      87 ..      52      90 .. 0.95
   2 ?    0.6   0.0      0.39   3.9e+02     106     144 ..     221     260 ..     216     279 .. 0.78

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 1.7e-06
               ATP_bind_1  1 vvGpaGsGKttfvgalseilelrgrsvavvNLDPAa 36
                             ++G++G+GK+tf++++  +l ++g +vav+ +DP +
  PHY93_12895|PHY93_12895 52 ITGVPGVGKSTFIESFGLYLISKGHKVAVLAIDPSS 87
                             68********************************75 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.39
               ATP_bind_1 106 thseslakiveeLes.efalvvvyLvDsqrltdptkfisg 144
                               h+++ +  + +Le+ +  l+ v++ + +++t++t ++ +
  PHY93_12895|PHY93_12895 221 SHWKAKVLSCSALEKkNLDLIYVMVEEYKTSTKATGYFAQ 260
                              6777777778889888899999999999999998888876 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   0.0     0.014        14      33      64 ..      34      66 ..      28      82 .. 0.80
   2 !   11.8   0.1   0.00018      0.17       4      41 ..     264     301 ..     261     308 .. 0.91

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.014
                    Rad17 33 ewlkadvLesrkkri.LLisGPsGCgkstvvkv 64
                             + l  +vL++  + i L i+G +G gkst ++ 
  PHY93_12895|PHY93_12895 34 QKLLEKVLPHSGNSIrLGITGVPGVGKSTFIES 66
                             567778899888887355***********9975 PP

  == domain 2  score: 11.8 bits;  conditional E-value: 0.00018
                    Rad17   4 denelWfekykPekaeelavhkkkieevkewlkadvLe 41 
                               +n++Wf k + e +e   +h k ++e ke l+ +vL+
  PHY93_12895|PHY93_12895 264 AQNQQWFKKLIGELLERKIIHNKTLREAKERLEGSVLK 301
                              689******************************99997 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   5.3e-06    0.0053       9      55 ..      57     206 ..      52     308 .. 0.73

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 5.3e-06
                              TSSHHHHHHHHHHHHHHTT--EEEEEEEESSCCCCH.HTTEB-HHHH....................................... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxx....................................... RF
                     CbiA   9 GvGKTtlaanLaralarrglrVllvDaDpqannlai.leglendiep....................................... 54 
                              GvGK+t+  +++ +l  +g++V+++  Dp ++ +   + g++ + e+                                       
  PHY93_12895|PHY93_12895  57 GVGKSTFIESFGLYLISKGHKVAVLAIDPSSPISGGsILGDKTRMENlsqhekafirpspslgflggvaqktresillceaagfdy 142
                              9*****************************99987677788777777899999999999999999999999998888888888888 PP

                              ...............................................................C CS
                              ...............................................................x RF
                     CbiA  55 ...............................................................d 55 
                                                                                             +
  PHY93_12895|PHY93_12895 143 vlietvgvgqsefevadmvdfflvlmlpnagdelqgikkgileladaviinkadgdilpqanlT 206
                              8888888888888888888887777777777766655555555555555555555555555440 PP

>> ArsA_ATPase  Anion-transporting ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.1   4.6e-06    0.0045       6      44 ..      52      90 ..      49     107 .. 0.92
   2 ?   -3.1   0.1       3.5   3.5e+03     230     273 ..     233     276 ..     229     292 .. 0.53

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 4.6e-06
                             EEESTTSSHHHHHHHHHHHHHHTTS-EEEEE-STTTHHH CS
              ArsA_ATPase  6 vgGKGGVGKttvsaatavklsekgkkvllistDPAhsls 44
                             ++G  GVGK+t   +++++l  kg+kv +++ DP   +s
  PHY93_12895|PHY93_12895 52 ITGVPGVGKSTFIESFGLYLISKGHKVAVLAIDPSSPIS 90
                             68999*****************************98776 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 3.5
                              HHHTT-EEEEEEEEEE-TTCSSSTSHHHHHHHHH.HHHHHHHHHH CS
              ArsA_ATPase 230 LkkygikvdavivNkllpeeeqenCeflearkki.qkkylkeiee 273
                              L+k +++   v+v ++   +++    f ++r +  q+ + k i e
  PHY93_12895|PHY93_12895 233 LEKKNLDLIYVMVEEYKTSTKAT-GYFAQKRLAQnQQWFKKLIGE 276
                              56666666666666665555553.455555544303333444444 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.0   2.1e-05      0.02       2      34 ..      47      86 ..      46     150 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 2.1e-05
                   AAA_24  2 klkiliyGpsgiGKTtlakel.......gpkplfidtekG 34
                             ++++ i+G +g+GK+t++ ++       g k++++ ++ +
  PHY93_12895|PHY93_12895 47 SIRLGITGVPGVGKSTFIESFglyliskGHKVAVLAIDPS 86
                             67899****************8888888778877777765 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.1   3.5e-05     0.035       2      30 ..      50      78 ..      49      82 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 3.5e-05
                             EEEE--TTSSHHHHHHHHHHHH...GGGE CS
                 NTPase_1  2 vfiTGppGvGKtTlvkkvlellkssgvkv 30
                             + iTG pGvGK+T+++     l s+g kv
  PHY93_12895|PHY93_12895 50 LGITGVPGVGKSTFIESFGLYLISKGHKV 78
                             67*************99888888888777 PP

>> ParA  NUBPL iron-transfer P-loop NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   6.4e-05     0.064      12      43 ..      55      86 ..      48     118 .. 0.79
   2 ?   -0.5   0.0      0.71     7e+02     111     143 ..     160     193 ..     153     202 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 6.4e-05
                     ParA 12 KGGVGKStvavnlAlaLakkglkvgllDaDiy 43
                               GVGKSt+  ++ l L +kg+kv++l +D  
  PHY93_12895|PHY93_12895 55 VPGVGKSTFIESFGLYLISKGHKVAVLAIDPS 86
                             56**************************9943 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.71
                     ParA 111 elDyLiiDlPPGtgDeqltvaqkl.plagaviVt 143
                               +D++++ + P  gDe   + + + +la+avi+ 
  PHY93_12895|PHY93_12895 160 MVDFFLVLMLPNAGDELQGIKKGIlELADAVIIN 193
                              589999**********999998877999999985 PP

>> SRP54  SRP54-type protein, GTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0    0.0002       0.2       6      38 ..      52      84 ..      48      88 .. 0.94
   2 ?   -0.2   0.0      0.64   6.3e+02      75      99 ..     131     155 ..     122     164 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.0002
                             EEESTTSSHHHHHHHHHHHHHHTTS-EEEEEES CS
                    SRP54  6 lvGlqGaGKTttlaKLaallkkegkkvllvaaD 38
                             + G+ G+GK t +     +l ++g+kv++ a D
  PHY93_12895|PHY93_12895 52 ITGVPGVGKSTFIESFGLYLISKGHKVAVLAID 84
                             689****************************99 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.64
                              HHHHHHHTTSSEEEEEE--SSTTHH CS
                    SRP54  75 avekakeekidvvlvDTaGrlqndk 99 
                              ++   ++ ++d+vl+ T G  q++ 
  PHY93_12895|PHY93_12895 131 SILLCEAAGFDYVLIETVGVGQSEF 155
                              5555678899*******99877765 PP

>> KAP_NTPase  KAP family P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   7.6e-05     0.076       8      64 ..      36      89 ..      30     107 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 7.6e-05
               KAP_NTPase  8 ladilseptlatpivvgLygkWGsGKssllnkledelkefakpvrflfaefnawsfk 64
                             l + +  p+++++i +g++g  G+GKs++++++  +l ++    ++++  +++ s+ 
  PHY93_12895|PHY93_12895 36 LLEKVL-PHSGNSIRLGITGVPGVGKSTFIESFGLYLISK--GHKVAVLAIDPSSPI 89
                             444444.5669********************999888888..677777777776665 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   9.2e-05     0.092      51      80 ..      51      80 ..      25      85 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 9.2e-05
                IstB_IS21 51 vllGpsGvGKshlaialgveavraglsvlf 80
                              ++G +GvGKs +  ++g   + +g++v  
  PHY93_12895|PHY93_12895 51 GITGVPGVGKSTFIESFGLYLISKGHKVAV 80
                             589************************975 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.0   0.00087      0.87      26      45 ..      49      68 ..      31      89 .. 0.72
   2 ?    1.8   0.0      0.28   2.8e+02      41     106 ..     245     300 ..     243     316 .. 0.64

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00087
                   AAA_16 26 lvllsGesGvGKsslvrell 45
                              + ++G +GvGKs+ ++++ 
  PHY93_12895|PHY93_12895 49 RLGITGVPGVGKSTFIESFG 68
                             3459***********99885 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.28
                   AAA_16  41 vrellralekdggiflrgkcdqlesaipysalaqalareellrqlldeaesaeleawrekleeala 106
                              v+e +++ +++ g+f++ +  q+      +++ + l  e l r++  +   + l++++e+le+++ 
  PHY93_12895|PHY93_12895 245 VEEYKTSTKAT-GYFAQKRLAQN------QQWFKKLIGELLERKIIHN---KTLREAKERLEGSVL 300
                              66677555555.99********9......6666666564554555444...456777777776655 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0   0.00058      0.58       2      18 ..      50      66 ..      49      85 .. 0.90
   2 ?    1.1   0.1      0.39   3.9e+02      75      75 ..     188     188 ..     119     286 .. 0.57

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00058
                             EEEEESTTSSHHHHHHH CS
                 MMR_HSR1  2 vaivGrpNvGKStLina 18
                              +i G p vGKSt+i +
  PHY93_12895|PHY93_12895 50 LGITGVPGVGKSTFIES 66
                             699***********976 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.39
                              C CS
                 MMR_HSR1  75 e 75 
                              +
  PHY93_12895|PHY93_12895 188 D 188
                              2 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   0.00012      0.12      22      54 ..      51      83 ..      32      87 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00012
                   AAA_30 22 vltGpAGtGKttalkalreaweaaggrviglAp 54
                              +tG++G GK+t +++    + ++g++v++lA 
  PHY93_12895|PHY93_12895 51 GITGVPGVGKSTFIESFGLYLISKGHKVAVLAI 83
                             589***************************995 PP

>> CLP1_P  mRNA cleavage and polyadenylation factor CLP1 P-loop
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   0.00029      0.29       4      33 ..      57      86 ..      54     111 .. 0.93
   2 ?   -1.5   0.0       1.8   1.8e+03      56      90 ..     246     280 ..     227     293 .. 0.68

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00029
                   CLP1_P  4 dsGKSTlarlLlNyalrkgrkpvyvDlDvG 33
                              +GKST++     y+++kg+k++++ +D+ 
  PHY93_12895|PHY93_12895 57 GVGKSTFIESFGLYLISKGHKVAVLAIDPS 86
                             79**************************96 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 1.8
                   CLP1_P  56 egfsldaplvyffGdtspsdnpslylalvkelare 90 
                              e++++  + + +f ++   +n + +++l+ el+++
  PHY93_12895|PHY93_12895 246 EEYKTSTKATGYFAQKRLAQNQQWFKKLIGELLER 280
                              44555556677788888888888888888877764 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.2   0.00028      0.28       2      16 ..      51      65 ..      50      80 .. 0.91
   2 ?   -2.1   0.0       5.3   5.3e+03      47      68 ..     253     274 ..     230     299 .. 0.54

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00028
                   AAA_18  2 lltGtpGvGKttlak 16
                             ++tG+pGvGK+t+ +
  PHY93_12895|PHY93_12895 51 GITGVPGVGKSTFIE 65
                             59**********976 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 5.3
                   AAA_18  47 deskrldedkldklldaleens 68 
                              + +  + +++l+++++ +++ +
  PHY93_12895|PHY93_12895 253 KATGYFAQKRLAQNQQWFKKLI 274
                              3444444444444444444443 PP

>> DUF4888  Domain of unknown function (DUF4888)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4   0.0   0.00096      0.96      94     122 ..      68      96 ..      60     113 .. 0.80
   2 ?   -0.3   0.0      0.95   9.5e+02      23      56 ..     234     267 ..     219     289 .. 0.79

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.00096
                  DUF4888  94 glgllqngqkvsiyssdssspvsgkvgeg 122
                              gl l+ +g+kv++ + d ssp+sg    g
  PHY93_12895|PHY93_12895  68 GLYLISKGHKVAVLAIDPSSPISGGSILG 96 
                              8999*******************976555 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.95
                  DUF4888  23 eyetinvtyllsngysssvsapgnddgghltqsi 56 
                              e + +++ y++ + y +s  a g      l+q  
  PHY93_12895|PHY93_12895 234 EKKNLDLIYVMVEEYKTSTKATGYFAQKRLAQNQ 267
                              5566788999999999999999988888887765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (317 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       656  (0.0365888); expected 358.6 (0.02)
Passed bias filter:                      524  (0.0292264); expected 358.6 (0.02)
Passed Vit filter:                        78  (0.00435049); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              18  [number of targets reported over threshold]
# CPU time: 0.64u 0.25s 00:00:00.89 Elapsed: 00:00:00.47
# Mc/sec: 2022.25
//
Query:       PHY93_12900|PHY93_12900  [L=715]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
     5e-236  784.2   0.1   5.8e-236  784.0   0.1    1.0  1  MM_CoA_mutase  Methylmalonyl-CoA mutase
    1.2e-15   57.6   0.0    2.9e-15   56.4   0.0    1.6  1  B12-binding    B12 binding domain
  ------ inclusion threshold ------
      0.018   14.0   0.0      0.034   13.1   0.0    1.4  1  IMPDH          IMP dehydrogenase / GMP reductase domain
      0.057   13.6   0.2        0.2   11.8   0.0    2.0  2  HisG_C         HisG, C-terminal domain
      0.092   13.1   0.3       0.27   11.6   0.3    1.8  1  PfUIS3         Plasmodium falciparum UIS3 membrane protein
       0.18   12.0   0.2        4.8    7.5   0.0    2.7  2  DUF2795        Protein of unknown function (DUF2795)


Domain annotation for each model (and alignments):
>> MM_CoA_mutase  Methylmalonyl-CoA mutase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  784.0   0.1  1.9e-239  5.8e-236       3     513 .]      36     547 ..      34     547 .. 0.99

  Alignments for each domain:
  == domain 1  score: 784.0 bits;  conditional E-value: 1.9e-239
            MM_CoA_mutase   3 aegievkplYtaedleek.klgeslPGefPftRGvkatmyrgrpWtirqyagfstaeetnerykklLeaGqtglsvafdlptlrgy 87 
                               egi+vkplYt+ed+ +k k+ +++PG  Pf+RG+katmy+grpWtirqyagfstae++n++y+k+L+aG +g+svafdl+t+rgy
  PHY93_12900|PHY93_12900  36 LEGIDVKPLYTKEDT-DKlKYANTMPGLEPFIRGPKATMYAGRPWTIRQYAGFSTAEDSNAFYRKALAAGGQGVSVAFDLATHRGY 120
                              69************8.7779****************************************************************** PP

            MM_CoA_mutase  88 DsdhpraegevGkaGvaidsledmetlldgidldkvsvsmtinaaalpllamylaaaeeqgvdleklsgtiqnDiLkellargtyi 173
                              Dsdhpr++g+vGkaGvaids+edm++l+++i+ldkvsvsmt+n+a+lp+la y++aaeeqgv+++klsgtiqnDiLke+++r+tyi
  PHY93_12900|PHY93_12900 121 DSDHPRVSGDVGKAGVAIDSVEDMKILFNEIPLDKVSVSMTMNGAVLPVLASYIVAAEEQGVAPDKLSGTIQNDILKEFMVRNTYI 206
                              ************************************************************************************** PP

            MM_CoA_mutase 174 yppepslrliadiieyaakevpkfntisvsgyhireaGatavqElAftladGveYvralleaGldvdefaprlsFffaigsdffee 259
                              ypp+ps+r++adi++y++k +pkfn+is+sgyh++eaGa+av ElA+tladG eY++++l++Gl++d+faprlsFff+ig++f++e
  PHY93_12900|PHY93_12900 207 YPPKPSMRIVADIFAYTSKYMPKFNSISISGYHMQEAGADAVLELAYTLADGKEYIETALSSGLSIDSFAPRLSFFFGIGMNFYME 292
                              ************************************************************************************** PP

            MM_CoA_mutase 260 iAklRAaRrlWarivkekfgakeekslklrvhaqTsgvsltaqdpyvNilRttlealaAvlggtqslhtnsfDealalPtefsari 345
                              iAklRAaR lW riv+ k+++ke +s  lr+h+qTsg+slt+qdpy+N++Rtt+ea+aA++ggtqslhtn+fDea+alPtefsari
  PHY93_12900|PHY93_12900 293 IAKLRAARLLWDRIVS-KYDPKEVNSKVLRTHCQTSGWSLTEQDPYNNVIRTTIEAMAAIFGGTQSLHTNAFDEAIALPTEFSARI 377
                              ****************.88******************************************************************* PP

            MM_CoA_mutase 346 ArntqlilaeEsgvakvvDPlgGSyyvEaLTdelaekawklfqeieeaGGmlkaiesGlvqeeiaesaarrqkaiesrkevivGvN 431
                              Arntq++l+eE++++kvvDP+gGSy++E+LT+e+a+kaw+++ ++e++GGm kaie+G+++ +i++saa++q++i+++ +vivGvN
  PHY93_12900|PHY93_12900 378 ARNTQIVLQEETQITKVVDPWGGSYMMESLTQEMADKAWSIILDVEKQGGMSKAIETGIPKLNIEKSAAAKQARIDKGLDVIVGVN 463
                              ************************************************************************************** PP

            MM_CoA_mutase 432 kfrpneeekelevlkide.eveerqaerlealraerdeaavkaaLaalgeaarse..nllaraveaaralatlGeisdaleevfg 513
                              k+ + ++e+e+++l+id+ +v+ +q+++l++lr +rd+++v  aL+al+e a+++  n l +av+aar++a++Gei+ ale+v+g
  PHY93_12900|PHY93_12900 464 KY-KLQKEDEIDILEIDNeKVRLSQIKHLDHLRTNRDDQKVMDALDALTEYAKTGegNSLDLAVKAARLRASVGEITYALEQVWG 547
                              **.677789*********9*******************************999889****************************8 PP

>> B12-binding  B12 binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.4   0.0   9.7e-19   2.9e-15       2     115 ..     589     700 ..     588     702 .. 0.93

  Alignments for each domain:
  == domain 1  score: 56.4 bits;  conditional E-value: 9.7e-19
              B12-binding   2 kvllatvggdlhplGlavlaaalrdagfeVqllganvenedivaairaekpdvvglSalltsqleavkelvel.lkrirprvkvvv 86 
                              ++l+a+ g+d h++G++v+a  l d gf+V+l  +  ++++++++++++++++v+ S+l   + + + el+++ ++   +++ v++
  PHY93_12900|PHY93_12900 589 RILIAKMGQDGHDRGAKVVATGLADLGFDVDLSPLFSTPKEVAKQAIENDVHFVASSSLAAGHKTLIPELIKElKAHGADDILVIA 674
                              789**********************************************************************65555579***** PP

              B12-binding  87 GGahpsldpeetleaklgiddvvvgeged 115
                              GG++p  d+e++ +   g +  ++g g++
  PHY93_12900|PHY93_12900 675 GGVIPKQDYEFLFK--AG-VSRIFGPGTT 700
                              ***********776..89.999***9985 PP

>> IMPDH  IMP dehydrogenase / GMP reductase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   1.1e-05     0.034     108     170 ..     630     694 ..     623     701 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 1.1e-05
                              HHHHHHHTT-SEEEEE-.STSSSHHHHHHHHHHHHHTTT.SEEEEEEE-SHHHHHHHHHTT-SEE CS
                              xxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxx RF
                    IMPDH 108 rvkalveagvdvlvvds.ahghsekvleavkeikkkvee.veviaGnvataegakaLieagadav 170
                               +k+ +e++v +++  s a gh++ + e +ke+k++  + + viaG v  ++  + L++ag+  +
  PHY93_12900|PHY93_12900 630 VAKQAIENDVHFVASSSlAAGHKTLIPELIKELKAHGADdILVIAGGVIPKQDYEFLFKAGVSRI 694
                              56677777777776543399***************99877*********************9876 PP

>> HisG_C  HisG, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.0       4.2   1.3e+04      58      69 ..     240     251 ..     239     252 .. 0.83
   2 ?   11.8   0.0   6.8e-05       0.2      48      69 ..     652     673 ..     647     674 .. 0.90

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 4.2
                              HHCTT-EEEEEE CS
                   HisG_C  58 LkaaGAsdIlvl 69 
                              +++aGA ++l+l
  PHY93_12900|PHY93_12900 240 MQEAGADAVLEL 251
                              6899***99986 PP

  == domain 2  score: 11.8 bits;  conditional E-value: 6.8e-05
                              CCCHHHHHHHHHCTT-EEEEEE CS
                   HisG_C  48 ekevaevideLkaaGAsdIlvl 69 
                              ++ + e+i+eLka GA dIlv+
  PHY93_12900|PHY93_12900 652 KTLIPELIKELKAHGADDILVI 673
                              77899***************97 PP

>> PfUIS3  Plasmodium falciparum UIS3 membrane protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.3   9.1e-05      0.27      28     100 ..     480     554 ..     459     555 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 9.1e-05
                              HHHHHHHHHHHHHHS-HHHHHHHTT-.HHHHHHHHHHHH.HHTT----HHHHHHHHHHHHHHHHHHHHHHHHHH- CS
                   PfUIS3  28 vdivklaiqkhfedlsndqkdslvnd.yeylrkivqtld.esrdvslskaqedkavldlkyflkkvyanylsqee 100
                               ++v+l+  kh+++l  ++ d++v d ++ l  + +t + +s d+++  a+   +v ++ y l++v+  y +q +
  PHY93_12900|PHY93_12900 480 NEKVRLSQIKHLDHLRTNRDDQKVMDaLDALTEYAKTGEgNSLDLAVKAARLRASVGEITYALEQVWGRYNAQSQ 554
                              4689***********9888887775538*****9998772567999999999999*************9999876 PP

>> DUF2795  Protein of unknown function (DUF2795)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   0.0    0.0016       4.8      14      33 ..     491     510 ..     491     513 .. 0.93
   2 ?    1.4   0.0      0.13   3.7e+02      12      38 ..     657     683 ..     656     684 .. 0.74

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0016
                  DUF2795  14 veyArrngApdevleaLeaL 33 
                              ++++r n  +++v++aL+aL
  PHY93_12900|PHY93_12900 491 LDHLRTNRDDQKVMDALDAL 510
                              59****************98 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.13
                  DUF2795  12 eLveyArrngApdevleaLeaLPdreY 38 
                              eL++ ++ +gA+d ++ a   +P+++Y
  PHY93_12900|PHY93_12900 657 ELIKELKAHGADDILVIAGGVIPKQDY 683
                              89*********9977655555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (715 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       463  (0.0258241); expected 358.6 (0.02)
Passed bias filter:                      384  (0.0214178); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.70u 0.28s 00:00:00.98 Elapsed: 00:00:00.48
# Mc/sec: 4482.95
//
Query:       PHY93_12905|PHY93_12905  [L=174]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (174 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       317  (0.0176809); expected 358.6 (0.02)
Passed bias filter:                      235  (0.0131073); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.45
# Mc/sec: 1173.45
//
Query:       PHY93_16960|PHY93_16960  [L=305]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.8e-62  210.9   0.0    2.2e-62  210.6   0.0    1.0  1  T2SSE            Type II/IV secretion system protein
      0.002   18.5   0.0     0.0049   17.3   0.0    1.6  1  AAA_16           AAA ATPase domain
     0.0033   18.0   0.0     0.0062   17.1   0.0    1.5  1  ABC_tran         ABC transporter
     0.0043   17.0   0.0      0.007   16.3   0.0    1.3  1  RsgA_GTPase      RsgA GTPase
     0.0044   16.5   0.1     0.0092   15.5   0.1    1.5  1  Pox_A32          Poxvirus A32 protein
     0.0062   16.1   0.0      0.011   15.3   0.0    1.3  1  AAA_7            P-loop containing dynein motor region
     0.0074   15.7   0.0      0.013   14.8   0.0    1.4  1  FtsK_SpoIIIE     FtsK/SpoIIIE family
     0.0083   16.2   0.6      0.017   15.2   0.6    1.7  1  MMR_HSR1         50S ribosome-binding GTPase
  ------ inclusion threshold ------
      0.013   14.7   0.0      0.037   13.3   0.0    1.6  2  Zeta_toxin       Zeta toxin
      0.015   14.6   0.0      0.023   13.9   0.0    1.4  1  KAP_NTPase       KAP family P-loop domain
      0.016   14.5   0.1      0.023   14.0   0.1    1.2  1  Septin           Septin
      0.018   15.4   0.0      0.043   14.2   0.0    1.7  1  RNA_helicase     RNA helicase
       0.02   15.2   0.0      0.036   14.4   0.0    1.4  1  AAA_19           AAA domain
      0.028   14.2   0.0      0.046   13.4   0.0    1.4  1  AAA_30           AAA domain
      0.029   14.4   0.2      0.055   13.6   0.2    1.4  1  DUF87            Helicase HerA, central domain
      0.035   14.0   0.1      0.067   13.1   0.1    1.6  1  NTPase_1         NTPase
      0.036   13.7   0.3      0.073   12.7   0.1    1.6  1  cobW             CobW/HypB/UreG, nucleotide-binding domain
      0.036   14.0   0.0       0.06   13.3   0.0    1.3  1  NACHT            NACHT domain
      0.046   12.6   0.1      0.093   11.6   0.1    1.4  1  TrwB_AAD_bind    Type IV secretion-system coupling protein DN
      0.075   12.8   0.0          3    7.6   0.0    2.2  2  RuvB_N           Holliday junction DNA helicase RuvB P-loop d
      0.081   12.7   0.1       0.62    9.8   0.1    2.1  1  ATP_bind_1       Conserved hypothetical ATP binding protein
      0.085   12.9   0.3        0.2   11.7   0.4    1.6  1  CbiA             CobQ/CobB/MinD/ParA nucleotide binding domai
      0.086   12.5   0.0       0.17   11.5   0.0    1.5  1  Sigma54_activat  Sigma-54 interaction domain
      0.092   12.5   0.0       0.14   11.9   0.0    1.3  1  DEAD             DEAD/DEAH box helicase
       0.12   12.6   0.1        0.2   11.9   0.1    1.4  1  AAA_28           AAA domain
       0.13   12.5   0.0       0.24   11.7   0.0    1.5  1  AAA_22           AAA domain
       0.13   12.3   0.0       0.23   11.5   0.0    1.4  1  AAA_14           AAA domain
       0.16   11.7   0.0       0.32   10.8   0.0    1.5  1  CLP1_P           mRNA cleavage and polyadenylation factor CLP
       0.17   10.9   0.1       0.28   10.2   0.1    1.3  1  IIGP             Interferon-inducible GTPase (IIGP)
       0.21   11.6   0.1       0.41   10.7   0.1    1.4  1  TsaE             Threonylcarbamoyl adenosine biosynthesis pro


Domain annotation for each model (and alignments):
>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  210.6   0.0   3.7e-65   2.2e-62       9     272 ..      13     283 ..       7     284 .. 0.95

  Alignments for each domain:
  == domain 1  score: 210.6 bits;  conditional E-value: 3.7e-65
                    T2SSE   9 lddekvsdihvekpervkvrervdgielreveelekaalerlisriaalakldiseerplqdarlpekgvrlrvvllPvvag.eal 93 
                               +++++++i+++ p +v+v er ++  ++  ++l+++ ++ +i+++a l ++  ++++p++d++lp +g r+++++ P v+g +a+
  PHY93_16960|PHY93_16960  13 NKKSGITEILINGPKHVFV-ERGGQ-FIQLNANLPAHDISVFIKEVADLNQKVCDQDNPIMDGNLP-DGSRINIIHEPFVQGsPAI 95 
                              46899**************.99999.66667788899999**************************.***************9*** PP

                    T2SSE  94 viRkksakeltlddlgaeealkekiaevlrkavrerglilvsGgTgsGKttllyallkeinksderivtvEDpvEiqleganqvql 179
                              +iRk  ++  ++d+   +  l++k  e+ ++ +++r +++vsGgTg GKtt+l+ l++ei+k+ er++t+ED+ E+ ++ +n v+l
  PHY93_16960|PHY93_16960  96 SIRKYLKSISSFDNNPTAFGLTPKWIEFFKALMSARLNVVVSGGTGVGKTTFLNLLINEIAKT-ERVITIEDTLELSINLPNIVRL 180
                              ***888888899999999999******************************************.********************** PP

                    T2SSE 180 nak......kakvtfadllraaLRlrPDrimvGEiRdketleilkAvnTGHlgslsTlHansaagalerLeqlgae....veaael 255
                              ++       k ++ ++dl++++LR+rPDri++GE R+ e +++l+A+nTGH+gs++++Hans  + l+r+e+l       ++   +
  PHY93_16960|PHY93_16960 181 ESGakslqsKCNLSTRDLVKNTLRMRPDRIIIGETRGPELFDLLQAMNTGHEGSMTSVHANSGGECLSRMETLFLLagfeIPLVVV 266
                              *9889999999**************************************************************9778999****** PP

                    T2SSE 256 kssilavvdivvrlvrk 272
                              +++++++++ +v+l r+
  PHY93_16960|PHY93_16960 267 RKQMASAINFIVQLGRD 283
                              *************9885 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   0.0   8.2e-06    0.0049      23      63 ..     130     171 ..     122     210 .. 0.81

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 8.2e-06
                   AAA_16  23 rpelvllsGesGvGKsslvrellralekdg.giflrgkcdql 63 
                                 +v++sG  GvGK++ ++ l +++ k++ +i+++ + + +
  PHY93_16960|PHY93_16960 130 ARLNVVVSGGTGVGKTTFLNLLINEIAKTErVITIEDTLELS 171
                              3479********************999996588788776665 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.0     1e-05    0.0062      13      47 ..     133     167 ..     126     255 .. 0.75

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 1e-05
                              EEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  13 kvaivGenGaGKStLlkllagllkpteGeilldgk 47 
                               v++ G +G GK+t+l+ll+++  +te  i+++++
  PHY93_16960|PHY93_16960 133 NVVVSGGTGVGKTTFLNLLINEIAKTERVITIEDT 167
                              57899**********************99999854 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0   1.2e-05     0.007      93     127 ..     124     158 ..      94     169 .. 0.73

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 1.2e-05
                              HHHHCTTSE.EEEECSTTSSHHHHHHHHCTT----- CS
              RsgA_GTPase  93 lkellkdkt.svlvGqSGvGKStLinallpelelkt 127
                               k+l++ ++ +v+ G +GvGK+t++n l++e   kt
  PHY93_16960|PHY93_16960 124 FKALMSARLnVVVSGGTGVGKTTFLNLLINEIA-KT 158
                              55566664415778**************99843.33 PP

>> Pox_A32  Poxvirus A32 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.1   1.5e-05    0.0092       7      42 ..     125     160 ..     121     168 .. 0.87

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.5e-05
                  Pox_A32   7 esLlkkpFrlalvGgsGsGktvyLlsLlrtlvkkyk 42 
                              + L+ +  ++++ Gg+G Gkt++L  L++++ k  +
  PHY93_16960|PHY93_16960 125 KALMSARLNVVVSGGTGVGKTTFLNLLINEIAKTER 160
                              57899999*******************999987655 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   1.8e-05     0.011      25      61 ..     123     159 ..     117     173 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 1.8e-05
                    AAA_7  25 llelllknkkpvllvGptGtGKtviikdllkkldkek 61 
                              +++ l++++ +v++ G tG+GKt+ ++ l++++ k++
  PHY93_16960|PHY93_16960 123 FFKALMSARLNVVVSGGTGVGKTTFLNLLINEIAKTE 159
                              6899************************999988544 PP

>> FtsK_SpoIIIE  FtsK/SpoIIIE family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.0   2.2e-05     0.013      40      65 ..     132     157 ..     111     161 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 2.2e-05
                              .SEEEE--TTSSHHHHHHHHHHHHHT CS
             FtsK_SpoIIIE  40 shllvaGatgsGKStalntLilSlat 65 
                               +++v G+tg GK+t+ln Li  +a 
  PHY93_16960|PHY93_16960 132 LNVVVSGGTGVGKTTFLNLLINEIAK 157
                              59*******************88775 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.6   2.9e-05     0.017       1      28 [.     133     160 ..     133     217 .. 0.92

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 2.9e-05
                              EEEEEESTTSSHHHHHHHHHTSTEEESS CS
                 MMR_HSR1   1 evaivGrpNvGKStLinaltgekaivsd 28 
                              +v++ G + vGK+t++n l++e a++++
  PHY93_16960|PHY93_16960 133 NVVVSGGTGVGKTTFLNLLINEIAKTER 160
                              58999****************9888764 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   6.1e-05     0.037      19      50 ..     134     165 ..     127     175 .. 0.92
   2 ?   -2.8   0.0       5.2   3.1e+03     118     142 ..     255     279 ..     246     290 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 6.1e-05
               Zeta_toxin  19 illgGqpGAGKselaellkdelerqgnvvrld 50 
                              ++++G++G GK++ ++ll +e++++++v++++
  PHY93_16960|PHY93_16960 134 VVVSGGTGVGKTTFLNLLINEIAKTERVITIE 165
                              799**************************996 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 5.2
               Zeta_toxin 118 kkaGYevevvvvavkkelSrlgvld 142
                                aG+e+ +vvv  + + ++ ++ +
  PHY93_16960|PHY93_16960 255 LLAGFEIPLVVVRKQMASAINFIVQ 279
                              5689999999999888888887765 PP

>> KAP_NTPase  KAP family P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   3.9e-05     0.023      19      53 ..     130     161 ..     123     261 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 3.9e-05
               KAP_NTPase  19 tpivvgLygkWGsGKssllnkledelkefakpvrf 53 
                                + v+++g  G+GK+++ln+l++e+ +    +r+
  PHY93_16960|PHY93_16960 130 ARLNVVVSGGTGVGKTTFLNLLINEIAKT---ERV 161
                              56779999******************998...443 PP

>> Septin  Septin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.1   3.8e-05     0.023       4      35 ..     131     162 ..     128     193 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 3.8e-05
                              EEEEEEEEBTTSSCCCCCCTTSSSS------- CS
                   Septin   4 eftlmvvGesglGkttlintlfetdlieeekl 35 
                               ++++v G  g+Gktt++n l+++  ++e+ +
  PHY93_16960|PHY93_16960 131 RLNVVVSGGTGVGKTTFLNLLINEIAKTERVI 162
                              699****************9999877776543 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   7.3e-05     0.043       1      26 [.     134     159 ..     134     173 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 7.3e-05
             RNA_helicase   1 iwlyGpsgeGKStlakeLakallkkl 26 
                              ++++G +g+GK+t+ + L+++++k+ 
  PHY93_16960|PHY93_16960 134 VVVSGGTGVGKTTFLNLLINEIAKTE 159
                              689*******************9764 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0     6e-05     0.036      10      40 ..     131     161 ..     125     206 .. 0.88

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 6e-05
                   AAA_19  10 ekvllvtaGpGtGKTrvlkhivallvelggv 40 
                              + +++v +G G GKT+ l+  ++++ ++++v
  PHY93_16960|PHY93_16960 131 RLNVVVSGGTGVGKTTFLNLLINEIAKTERV 161
                              56799*****************999988765 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   7.8e-05     0.046      13      46 ..     126     159 ..     119     214 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 7.8e-05
                   AAA_30  13 lltsgdrvavltGpAGtGKttalkalreaweaag 46 
                              +l+s ++ +v+ G+ G GKtt l+ l + +++ +
  PHY93_16960|PHY93_16960 126 ALMSARLNVVVSGGTGVGKTTFLNLLINEIAKTE 159
                              677888999***************9955554443 PP

>> DUF87  Helicase HerA, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.2   9.2e-05     0.055      28      51 ..     136     159 ..     131     167 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 9.2e-05
                    DUF87  28 ilgsTGsGKSntvavLleellekk 51 
                              + g TG+GK+++  +L++e++++ 
  PHY93_16960|PHY93_16960 136 VSGGTGVGKTTFLNLLINEIAKTE 159
                              6799****************9644 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.1   0.00011     0.067       1      26 [.     133     158 ..     133     200 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 0.00011
                              EEEEE--TTSSHHHHHHHHHHHH... CS
                 NTPase_1   1 kvfiTGppGvGKtTlvkkvlellkss 26 
                              +v+++G  GvGKtT+++ +++++++ 
  PHY93_16960|PHY93_16960 133 NVVVSGGTGVGKTTFLNLLINEIAKT 158
                              589*****************999765 PP

>> cobW  CobW/HypB/UreG, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   0.00012     0.073       3      43 ..     134     174 ..     132     220 .. 0.73

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 0.00012
                              EEEEESTTCCHHHHHHHHHCT--SS-EEEEESS-SSCHCCC CS
                     cobW   3 tvltGflGsGKTtLlnhllenraglklavivNefgevsiDa 43 
                              +v++G  G GKTt+ln l+++ a+ +  + + +  e+si+ 
  PHY93_16960|PHY93_16960 134 VVVSGGTGVGKTTFLNLLINEIAKTERVITIEDTLELSINL 174
                              799****************7776666666666766677765 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0    0.0001      0.06       3      27 ..     134     158 ..     132     162 .. 0.91

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 0.0001
                              EEEEC-TTTCHHHHHHHHHHHHCTS CS
                    NACHT   3 vilqGeaGsGKTtLlqklalawaeg 27 
                              v++ G  G+GKTt+l  l+ ++a+ 
  PHY93_16960|PHY93_16960 134 VVVSGGTGVGKTTFLNLLINEIAKT 158
                              899*****************99985 PP

>> TrwB_AAD_bind  Type IV secretion-system coupling protein DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.1   0.00016     0.093      17      50 ..     133     166 ..     127     169 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00016
            TrwB_AAD_bind  17 hilivGttGsGKtqalekllrairargdraivlD 50 
                               +++ G+tG GKt+ l+ l+++i + +  + + D
  PHY93_16960|PHY93_16960 133 NVVVSGGTGVGKTTFLNLLINEIAKTERVITIED 166
                              67899******************88766555555 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.9   0.0      0.13        79      68     102 ..      30      65 ..      15      84 .. 0.86
   2 ?    7.6   0.0    0.0051         3      35      63 ..     133     161 ..     121     182 .. 0.78

  Alignments for each domain:
  == domain 1  score: 2.9 bits;  conditional E-value: 0.13
                   RuvB_N  68 vlekagdlaalltnleekdv.lfideihrlsravee 102
                               +e+ g+++ l +nl ++d+ +fi e+  l+++v +
  PHY93_16960|PHY93_16960  30 FVERGGQFIQLNANLPAHDIsVFIKEVADLNQKVCD 65 
                              5899999************978********999865 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0051
                   RuvB_N  35 hvllyGpPGlGkttlakiiakelgvklki 63 
                               v+++G  G+Gktt+ +++ +e+  + ++
  PHY93_16960|PHY93_16960 133 NVVVSGGTGVGKTTFLNLLINEIAKTERV 161
                              5899**************99999766554 PP

>> ATP_bind_1  Conserved hypothetical ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.1     0.001      0.62       1      25 [.     136     160 ..     136     211 .. 0.58

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.001
               ATP_bind_1   1 vvGpaGsGKttfvgalseilelrgr 25 
                              v G+ G+GKttf + l++ + +++r
  PHY93_16960|PHY93_16960 136 VSGGTGVGKTTFLNLLINEIAKTER 160
                              78**********9988655444433 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.4   0.00033       0.2       2      34 ..     134     165 ..     133     233 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00033
                              EEEESSTTSSHHHHHHHHHHHHHHTT--EEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     CbiA   2 aiastkGGvGKTtlaanLaralarrglrVllvD 34 
                              +++s+  GvGKTt++  L+  +a+   rV+ + 
  PHY93_16960|PHY93_16960 134 VVVSGGTGVGKTTFLNLLINEIAK-TERVITIE 165
                              699***********9999999999.77777664 PP

>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00029      0.17      12      50 ..     121     159 ..     116     174 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00029
                              HHHHHHHCTSSS-EEEECSTTSSHHHHHHHHHHHSTTTT CS
          Sigma54_activat  12 leqikkvaktdlsvlitGesGtGKellaraiheaskrke 50 
                              +e  k++++ +l+v++ G +G+GK+++ +++ ++  ++e
  PHY93_16960|PHY93_16960 121 IEFFKALMSARLNVVVSGGTGVGKTTFLNLLINEIAKTE 159
                              66778999999****************999988776555 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   0.00024      0.14      10      61 ..     126     172 ..     120     229 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00024
                              HHHTTC.EEEEEESTTSSHHHHHHHHHHHHHHHSTTSTS-EEEEEESSHHHHH CS
                              xxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  10 lilggg.dvlvaaeTGsGKTlaflipvlqivyetkgktgpkalivePtreLae 61 
                              ++++ + +v+v++ TG GKT+   + + +i       ++ +++ +e t eL  
  PHY93_16960|PHY93_16960 126 ALMSARlNVVVSGGTGVGKTTFLNLLINEIA------KTERVITIEDTLELSI 172
                              55555559************98777666554......4557777777777755 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.1   0.00034       0.2       1      22 [.     133     154 ..     133     170 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00034
                   AAA_28   1 kivitGgestGKTtlleaLaar 22 
                              ++v++Gg + GKTt l+ L ++
  PHY93_16960|PHY93_16960 133 NVVVSGGTGVGKTTFLNLLINE 154
                              59**************998654 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00041      0.24       6      31 ..     132     157 ..     128     212 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00041
                   AAA_22   6 gilvvtGesGtGKTtllrrlleqlde 31 
                                +vv G +G+GKTt l+ l ++  +
  PHY93_16960|PHY93_16960 132 LNVVVSGGTGVGKTTFLNLLINEIAK 157
                              5689****************999743 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00038      0.23       5      37 ..     134     165 ..     130     205 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00038
                   AAA_14   5 lvitGaRrvGKTtllkqlikellvkkesilyin 37 
                              +v++G   vGKTt+l+ li+e   k e+++ i+
  PHY93_16960|PHY93_16960 134 VVVSGGTGVGKTTFLNLLINEIA-KTERVITIE 165
                              899****************7776.555555543 PP

>> CLP1_P  mRNA cleavage and polyadenylation factor CLP1 P-loop
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   0.00054      0.32       1      24 [.     138     161 ..     138     174 .. 0.84

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00054
                   CLP1_P   1 GpkdsGKSTlarlLlNyalrkgrk 24 
                              G++ +GK+T+  lL+N++++ +r 
  PHY93_16960|PHY93_16960 138 GGTGVGKTTFLNLLINEIAKTERV 161
                              899**************8766654 PP

>> IIGP  Interferon-inducible GTPase (IIGP)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.1   0.00046      0.28      29      55 ..     125     151 ..     119     165 .. 0.89

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00046
                              HHHHT--EEEEEEESTTSSHHHHHHHH CS
                     IIGP  29 keiesaklkiavtGdsGnGkssFinaL 55 
                              k++ sa+l+++v G +G Gk +F+n L
  PHY93_16960|PHY93_16960 125 KALMSARLNVVVSGGTGVGKTTFLNLL 151
                              677899*******************87 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.1   0.00068      0.41      14      45 ..     127     157 ..     116     163 .. 0.73

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00068
                              HHHCHTEEEEEEESTTSSHHHHHHHHHHHTT- CS
                     TsaE  14 lakalgdvilLeGdLGaGKTtlvrglakalgv 45 
                              l + ++  ++ +G  G+GKTt+   l++++  
  PHY93_16960|PHY93_16960 127 LMS-ARLNVVVSGGTGVGKTTFLNLLINEIAK 157
                              332.244599**************99998754 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (305 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       488  (0.0272185); expected 358.6 (0.02)
Passed bias filter:                      456  (0.0254337); expected 358.6 (0.02)
Passed Vit filter:                        92  (0.00513135); expected 17.9 (0.001)
Passed Fwd filter:                        30  (0.00167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              30  [number of targets reported over threshold]
# CPU time: 0.60u 0.25s 00:00:00.85 Elapsed: 00:00:00.46
# Mc/sec: 1987.54
//
Query:       PHY93_12910|PHY93_12910  [L=332]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (332 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       585  (0.0326287); expected 358.6 (0.02)
Passed bias filter:                      451  (0.0251548); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.54u 0.26s 00:00:00.80 Elapsed: 00:00:00.45
# Mc/sec: 2216.73
//
Query:       PHY93_12915|PHY93_12915  [L=171]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.9e-15   55.1   3.3    9.2e-15   54.2   3.3    1.4  1  Biotin_lipoyl    Biotin-requiring enzyme
    6.5e-05   22.7   0.5      0.013   15.3   0.0    2.7  3  Biotin_lipoyl_2  Biotin-lipoyl like
     0.0087   16.7   0.1      0.011   16.3   0.1    1.2  1  HsdM_N           HsdM N-terminal domain
  ------ inclusion threshold ------
      0.078   12.2   0.3        1.8    7.7   0.1    2.2  2  HlyD_D23         Barrel-sandwich domain of CusB or HlyD membr


Domain annotation for each model (and alignments):
>> Biotin_lipoyl  Biotin-requiring enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.2   3.3     2e-18   9.2e-15       7      72 ..     106     166 ..      97     167 .. 0.90

  Alignments for each domain:
  == domain 1  score: 54.2 bits;  conditional E-value: 2e-18
                              SSEEEEEE.ECSESSSTTCEE-TTSEEEEEECTTEEEEEEBSSSEEEEEESSTTTEEE-TTCEEEE CS
            Biotin_lipoyl   7 miGesveegvvevlvkvGdkVkagqvlaeveamKmemeieapkaGvvkeilvkeGdtvevgdllak 72 
                              m+G+     +v+++   G+ V++gq+l+++eamKme+ei+  + G+vk i+vk Gdt++ g l+++
  PHY93_12915|PHY93_12915 106 MPGK-----IVKIMAIIGERVEKGQTLIILEAMKMENEIKCGAGGIVKAIHVKAGDTLDNGILMME 166
                              4444.....555*************************************************99986 PP

>> Biotin_lipoyl_2  Biotin-lipoyl like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0       0.7   3.1e+03      18      26 ..      35      43 ..      34      43 .. 0.88
   2 !   15.3   0.0     3e-06     0.013       8      42 ..     105     139 ..     102     141 .. 0.89
   3 !    4.8   0.1    0.0056        25      11      23 ..     145     157 ..     139     161 .. 0.76

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 0.7
          Biotin_lipoyl_2 18 VkdGqrVka 26
                             +kd+ +V++
  PHY93_12915|PHY93_12915 35 IKDNTEVHK 43
                             89*****87 PP

  == domain 2  score: 15.3 bits;  conditional E-value: 3e-06
          Biotin_lipoyl_2   8 pvsGrVaqlnVkdGqrVkaGdvLaelDsralqlal 42 
                              + +G+++++    G rV++G++L++l+  + ++++
  PHY93_12915|PHY93_12915 105 QMPGKIVKIMAIIGERVEKGQTLIILEAMKMENEI 139
                              5689999999999**************99988876 PP

  == domain 3  score: 4.8 bits;  conditional E-value: 0.0056
          Biotin_lipoyl_2  11 GrVaqlnVkdGqr 23 
                              G V++++Vk G+ 
  PHY93_12915|PHY93_12915 145 GIVKAIHVKAGDT 157
                              6888888888874 PP

>> HsdM_N  HsdM N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.1   2.5e-06     0.011      17      99 ..       6      87 ..       1     106 [. 0.77

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 2.5e-06
                             SHHHHHHHHHHHHHHHHHHHHHHHHHHCC........--..--------....S-CCCSHHHHHHS--HHHHHHHHHHCHHHHC CS
                   HsdM_N 17 daseykeyilgLlFlKrlddveeereeklleeyken.aleeleeklkskeafyipeelrWkelakkkdddelgenlnkafpale 99
                              +se  eyi  L+  + +++++ e e +++++++e  +++  ++kl++ ++f  +++ +W++la++ d+ +++ n++k++++++
  PHY93_12915|PHY93_12915  6 IDSEKNEYIVDLIKTRTISAEMVEFEFRTIKDNTEVhKEKVYIRKLAD-QYFASTDGVKWNKLARQ-DSPSIMLNVDKVYKFYQ 87
                             567888999999999999999999999997775544322334555544.67**************9.77789999999888765 PP

>> HlyD_D23  Barrel-sandwich domain of CusB or HlyD membrane-fusion
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   0.1   0.00041       1.8      25      55 ..     105     134 ..     101     139 .. 0.82
   2 ?    3.0   0.0     0.011        49     110     139 ..     138     167 ..     131     170 .. 0.72

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.00041
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                 HlyD_D23  25 rveGwveklyvnatgdkVkkGqpLaelyspe 55 
                              ++ G + k+ +  +g++V+kGq+L+ l++ +
  PHY93_12915|PHY93_12915 105 QMPGKIVKIMAI-IGERVEKGQTLIILEAMK 134
                              678999999988.999999999999887765 PP

  == domain 2  score: 3.0 bits;  conditional E-value: 0.011
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                 HlyD_D23 110 tvkapisGvVteknvreGqyvqpgdtlfti 139
                              ++k  + G+V + +v  G+++++g  ++++
  PHY93_12915|PHY93_12915 138 EIKCGAGGIVKAIHVKAGDTLDNGILMMEV 167
                              566667788888888888888888777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (171 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       444  (0.0247643); expected 358.6 (0.02)
Passed bias filter:                      299  (0.0166769); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.48u 0.24s 00:00:00.72 Elapsed: 00:00:00.44
# Mc/sec: 1170.70
//
Query:       PHY93_12920|PHY93_12920  [L=479]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.5e-71  240.3   0.2    2.5e-71  239.5   0.2    1.3  1  CPSase_L_D2      Carbamoyl-phosphate synthase L chain, ATP bi
    1.1e-35  122.5   0.0    2.4e-35  121.4   0.0    1.6  1  Biotin_carb_N    Biotin carboxylase, N-terminal domain
    7.4e-29  100.0   0.0    2.1e-28   98.6   0.0    1.8  2  Biotin_carb_C    Biotin carboxylase C-terminal domain
    1.7e-07   30.9   0.1    3.1e-07   30.1   0.1    1.4  1  ATP-grasp        ATP-grasp domain
    2.6e-07   30.4   0.0    5.8e-07   29.2   0.0    1.6  1  Dala_Dala_lig_C  D-ala D-ala ligase C-terminus
    1.4e-06   28.4   0.2    2.8e-06   27.5   0.2    1.5  1  ATP-grasp_3      ATP-grasp domain
      8e-06   25.6   0.3    6.5e-05   22.6   0.3    2.1  1  RimK             RimK-like ATP-grasp domain
     0.0017   17.7   0.1     0.0079   15.5   0.0    1.9  2  ATPgrasp_ST      Sugar-transfer associated ATP-grasp
  ------ inclusion threshold ------
      0.015   14.7   0.0      0.032   13.7   0.0    1.6  1  ATP-grasp_5      ATP-grasp domain
      0.018   14.8   0.0      0.038   13.7   0.0    1.5  1  ATPgrasp_Ter     ATP-grasp in the biosynthetic pathway with T
      0.041   13.5   0.1      0.079   12.6   0.1    1.5  1  ATP-grasp_4      ATP-grasp domain
       0.12   11.3   0.0       0.21   10.5   0.0    1.3  1  DUF3182          Protein of unknown function (DUF3182)
       0.13   12.3   0.0         28    4.7   0.0    3.0  3  DNA_primase_S    DNA primase small subunit


Domain annotation for each model (and alignments):
>> CPSase_L_D2  Carbamoyl-phosphate synthase L chain, ATP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  239.5   0.2   1.8e-74   2.5e-71       1     208 [.     121     329 ..     121     331 .. 0.97

  Alignments for each domain:
  == domain 1  score: 239.5 bits;  conditional E-value: 1.8e-74
                              SHHHHHHHHHHTT-BBSSEECSSBSSHHHHHHHHHHH-SSEEEEETTCCTTTTEEEESSHHHHHHHHHHHHHHHHHHHSTS-EEEE CS
              CPSase_L_D2   1 DkesakealkkinvpvvpssaapvetleealaiakeigyPviikaafglGGkGmrvarneeelaelvkkalaeakaafgnkqvlve 86 
                              Dk  +ke +kk+++pvvp+s+++v t+eea++ia++i+yP+++ka +g+GG+Gmrv++ne+++++ ++  ++ea++af n  +lve
  PHY93_12920|PHY93_12920 121 DKAVSKEFAKKVGMPVVPGSTGAVPTIEEAIKIADQIKYPILLKAVAGGGGRGMRVCHNEQDVRNNFEPVQREAASAFKNGDLLVE 206
                              89999********************************************************************************* PP

                              E--SSSEEEEEEEEEETTS-EEEEEEEEECCECTCCCCEEEES-SS--H..HHHHHHHHHHHHHHHHHT-EEEEEEEEEEETTTTE CS
              CPSase_L_D2  87 kslkgpkeiEvevlrDakgnvitvcerenslqlrtqkvievAPsqtLtd..eerqalreaavkvvrevgvvgagtveflldpkske 170
                              k++ +p++iEv++l+D+kgnv + +ere+s+q+r+qk++e+APs+++ d  e rq++ ++av++++++++ +agtve ++ + +ke
  PHY93_12920|PHY93_12920 207 KYIVNPHHIEVQILADKKGNVFHFFERECSIQRRHQKIVEEAPSPFIGDdeELRQRVCNSAVNLAKAIKYDSAGTVELIMGE-NKE 291
                              ***********************************************6511569***************************7.*** PP

                              EEEEEEESS--CCHHHHHHHHS--HHHHHHHHHTT--G CS
              CPSase_L_D2 171 yyviEvNtRlsvesalaekaTGldlvkeaakialgekL 208
                              +y++E+NtR++ve++++e++TG+dl++ +++ a ge+L
  PHY93_12920|PHY93_12920 292 FYFLEMNTRIQVEHPITEEITGIDLIVCMIQSAFGEDL 329
                              ***********************************998 PP

>> Biotin_carb_N  Biotin carboxylase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  121.4   0.0   1.7e-38   2.4e-35       3     109 ..       9     115 ..       7     116 .. 0.98

  Alignments for each domain:
  == domain 1  score: 121.4 bits;  conditional E-value: 1.7e-38
                              -EEEE---HHHHHHHHHHHHHTT-EEEEEEEGGGTTSHHHHHSSEEEEEESSTTCCGGG-HHHHHHHHHHTT-SEEE--SSTTTT- CS
            Biotin_carb_N   3 kkvlianrGeiAvriiravrelgietvavyseedanslhvreadeavelgpasasesYlniekivkaakesgadavhpGyGflsEn 88 
                              k++li nrGeiA ri++a+relg+++v v ++++ +++h++  de v+l++++++e+Ylni +i++++k+ ++d vhpGyGflsEn
  PHY93_12920|PHY93_12920   9 KRILIINRGEIAARIAKACRELGYTAVGVWTDNEVQAKHLEVCDEWVRLPGSTNQETYLNIPNILEVCKKYQIDGVHPGYGFLSEN 94 
                              89************************************************************************************ PP

                              HHHHHHHHHTT-EESSS-HHH CS
            Biotin_carb_N  89 aefaeaveeagivfiGPsaea 109
                              +ef++a+ ++gi++iGP++ea
  PHY93_12920|PHY93_12920  95 TEFSQALVDNGITWIGPHPEA 115
                              ******************997 PP

>> Biotin_carb_C  Biotin carboxylase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0       7.5     1e+04      72      89 ..      76      93 ..      69     102 .. 0.75
   2 !   98.6   0.0   1.5e-31   2.1e-28       1     107 [.     345     450 ..     345     451 .. 0.99

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 7.5
                             HHT-EEESS-BSHHHHHH CS
            Biotin_carb_C 72 LaelrieGvktnieflra 89
                              ++++i+Gv+    fl++
  PHY93_12920|PHY93_12920 76 CKKYQIDGVHPGYGFLSE 93
                             578899999888777764 PP

  == domain 2  score: 98.6 bits;  conditional E-value: 1.5e-31
                              EEEEESEETTTTTEE--CE-SEEE---STTEEEEE---TT-EE-TTS-SEEEEEEEEESSHHHHHHHHHHHHHT-EEESS-BSHHH CS
            Biotin_carb_C   1 eaRinaEdpeknflpssGkvtelelpegpgvRvdsgveegsevspyyDsllaKlivhgetreealarlrraLaelrieGvktnief 86 
                              e+Ri+aEdp + ++p++G vt +e++  +g+R+d+ +++g  v+p++D++++Kl+++g  re a++++r aL+ l +eG+ktni++
  PHY93_12920|PHY93_12920 345 ECRICAEDPIT-MMPAPGLVTGCETNFPQGIRFDNCLYKGLVVTPDFDPMVGKLVAKGILREVAIRKMRAALDGLLVEGLKTNIPL 429
                              8*********9.************************************************************************** PP

                              HHHHHH-HHHHHT---TTTCC CS
            Biotin_carb_C  87 lrailedeefakgeldtkfle 107
                              ++ i+++e f kg+++t+f+ 
  PHY93_12920|PHY93_12920 430 HKVIMKNEVFLKGKYSTNFIT 450
                              *******************96 PP

>> ATP-grasp  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.1   0.1   2.2e-10   3.1e-07      13     159 ..     143     300 ..     129     302 .. 0.82

  Alignments for each domain:
  == domain 1  score: 30.1 bits;  conditional E-value: 2.2e-10
                              EECCHHHHHHHHHHH-SCEEEEESSS-CTTTTEEEECTCCGHHCHHHHC........GTTCEEEEE----SEEEEEEEEEETTC-. CS
                ATP-grasp  13 aveskeeleeaaeelglpvvvKarrlgydGkGqsvvrseedleqaleal........keekvivEefvpfekElsvlvvrsaeGe. 89 
                              av + ee+ ++a+++++p+++K ++ g  G+G  v+++e+d+++ +e +        k++ ++vE+++     + v +  +++G+ 
  PHY93_12920|PHY93_12920 143 AVPTIEEAIKIADQIKYPILLK-AVAGGGGRGMRVCHNEQDVRNNFEPVqreaasafKNGDLLVEKYIVNPHHIEVQILADKKGNv 227
                              567788999*************.788889*************999888888889999***********877777777777888885 PP

                              EEE--EEEEEEETTEEEEEEECEE-SCH...HHHHHHHHHHHHHHHHTSSEEEEEEEEEETTCTEEEEEEESS CS
                ATP-grasp  90 tafypvvetvqedgilrlsvapaevsek...aqkkaeeiakkiveeLggvGvfavElFvledgellvnElapR 159
                              ++f++    +q++    +  ap+++  +     +++ + a ++++++ +    +vEl + e++e ++ E+  R
  PHY93_12920|PHY93_12920 228 FHFFERECSIQRRHQKIVEEAPSPFIGDdeeLRQRVCNSAVNLAKAIKYDSAGTVELIMGENKEFYFLEMNTR 300
                              7899999999998888888888888666122555666667789999999999999999999999888888777 PP

>> Dala_Dala_lig_C  D-ala D-ala ligase C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.2   0.0   4.2e-10   5.8e-07      28     174 ..     150     299 ..     128     300 .. 0.81

  Alignments for each domain:
  == domain 1  score: 29.2 bits;  conditional E-value: 4.2e-10
                              HHHHHHHC-SSEEEEESSSSTTTTEEEESSGGGHHHHHH....HHHT..T-SCEEEEE--.ESEEEEEEEEETSSCEEEEEEEEE- CS
          Dala_Dala_lig_C  28 lekveeelgypvfVKpareGSSvGvskveseeelkeaie....eafk..ydekvlvEeai.egreievavlgneklevsevgeivv 106
                                k+ ++++yp++ K++  G   G+  +++e+++++ +e    ea++  ++ + lvE++i + + iev +l + k +v++  e+  
  PHY93_12920|PHY93_12920 150 AIKIADQIKYPILLKAVAGGGGRGMRVCHNEQDVRNNFEpvqrEAASafKNGDLLVEKYIvNPHHIEVQILADKKGNVFHFFEREC 235
                              348999************************99998877522222222225679*******9***********99999999998876 PP

                              SSSSS-HHHHHC.TT-EEESS----HHHHHHHHHHHHHHHHHTT--SEEEEEEEEETTTEEEEEEEES CS
          Dala_Dala_lig_C 107 kkgfydyeakysddkaqlevpaklekeveekiqelalkaykaldlrGlaRvDfflteegeivlnEvNt 174
                              +  + + ++k ++++ + ++    ++e ++++ + a++  ka++    + v +++ e+ e+++ E+Nt
  PHY93_12920|PHY93_12920 236 S--IQRRHQKIVEEAPSPFI--GDDEELRQRVCNSAVNLAKAIKYDSAGTVELIMGENKEFYFLEMNT 299
                              5..66888999855554444..568999***************************************9 PP

>> ATP-grasp_3  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.5   0.2   2.1e-09   2.8e-06      21     159 ..     148     302 ..     119     304 .. 0.79

  Alignments for each domain:
  == domain 1  score: 27.5 bits;  conditional E-value: 2.1e-09
                              ...-EESS--SSSEEEEESS-------B--SS--TTE...................EEEE--.-SEEEEEEEEE.SSSEEEEEEEE CS
              ATP-grasp_3  21 kleaeeleeeekklvvKprdGaggesvrvveekeeaeaaieeve............lvqefi.eGkplSvsllsdgekvlvlavnr 93 
                              +   + +++ ++++ +K + G+gg ++rv +++++  + +e v+            lv ++i + +++ v++l+d++ +++  + r
  PHY93_12920|PHY93_12920 148 EEAIKIADQIKYPILLKAVAGGGGRGMRVCHNEQDVRNNFEPVQreaasafkngdlLVEKYIvNPHHIEVQILADKKGNVFHFFER 233
                              33344556679**********************99999999888999*********888776367899****************** PP

                              EEEET....TEEEEEEES----H...HHHHHHHHHHHHTTSTT--EEEEEEEEESS..SEEEEEEESS-- CS
              ATP-grasp_3  94 qliekaekefvyaGnvtpietel...keevvelaeevvekleglaGyvGvDlvlkd.eepyviEvNPRlt 159
                              +   +++++ +     +p+  ++   +++v + a ++ +++ +  +   v+l++ + +e y++E N R++
  PHY93_12920|PHY93_12920 234 ECSIQRRHQKIVEEAPSPFIGDDeelRQRVCNSAVNLAKAI-KYDSAGTVELIMGEnKEFYFLEMNTRIQ 302
                              99888888877777777775433223889999999999999.77788889****9989**********98 PP

>> RimK  RimK-like ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.6   0.3   4.7e-08   6.5e-05      24     186 ..     144     322 ..     120     324 .. 0.74

  Alignments for each domain:
  == domain 1  score: 22.6 bits;  conditional E-value: 4.7e-08
                              ESS-S-HHHHHHTT-.-SSEEEEE-TTTT--EEEEE-SHHHHHHHHHH.........GGG--EEEEE--SS-SEEEEEEEET.TEE CS
                     RimK  24 ardeedaekliekiklrfPvvvKsvegsqGikvvlakkeqklkqvlea.........lkeailvqeyieeaenediRvlvvd.dev 99 
                              +   e+a k+ ++i  + P+++K v g  G ++ ++++eq++++ +e           +  +lv +yi + +  ++ +l  + ++v
  PHY93_12920|PHY93_12920 144 VPTIEEAIKIADQI--KYPILLKAVAGGGGRGMRVCHNEQDVRNNFEPvqreaasafKNGDLLVEKYIVNPHHIEVQILADKkGNV 227
                              55667888888999..69**************************999865555555555566**********99999998641567 PP

                              EEEEEEE--SSS--.....--TTTT-EEEE----HHHHHHHHHHHHHCT-SEEE.EE.EEEETTEEEEEEEESS--SHH..HHHHH CS
                     RimK 100 vaalrrvskeGdFR.....snlhrGgvaeklqlseeekelAikaakamelvvaG.vD.llrakrgllvlEvnsspglek..iektl 176
                                 ++r +   + R            +++  +l +   + A++ aka++ + aG v+ ++ +++++++lE+n+  ++e+   e  +
  PHY93_12920|PHY93_12920 228 FHFFERECSI-QRRhqkivEEAPSPFIGDDEELRQRVCNSAVNLAKAIKYDSAGtVElIMGENKEFYFLEMNTRIQVEHpiTEEIT 312
                              7666666433.23300000333334456666777777789*************966788999**************9964367888 PP

                              T--HHHHHHH CS
                     RimK 177 gidiakklie 186
                              gid+   +i+
  PHY93_12920|PHY93_12920 313 GIDLIVCMIQ 322
                              9998877776 PP

>> ATPgrasp_ST  Sugar-transfer associated ATP-grasp
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   5.8e-06    0.0079      15     128 ..     115     210 ..     112     217 .. 0.71
   2 ?   -1.0   0.0       0.6   8.2e+02     232     269 ..     267     304 ..     261     314 .. 0.72

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 5.8e-06
              ATPgrasp_ST  15 efplvddKlkfkelalraglkvpkllgvikeqaeiseleafvkeleegvviKpakgsgGkGilviteredqdylkssgksalldel 100
                              ++ ++ dK + ke+a++ g++v    g+     +i+e+ ++  +++  +++K++ g gG+G++v+ +++d + + ++ ++  ++ +
  PHY93_12920|PHY93_12920 115 AVRVMGDKAVSKEFAKKVGMPVVP--GSTGAVPTIEEAIKIADQIKYPILLKAVAGGGGRGMRVCHNEQDVRNNFEPVQREAASAF 198
                              678999**************9755..5555556677777777777555*****************876655555555555555555 PP

              ATPgrasp_ST 101 erhvsnilagLyslggkpdvalveelik 128
                              +                +  +lve++i+
  PHY93_12920|PHY93_12920 199 K----------------NGDLLVEKYIV 210
                              4................55555555555 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.6
              ATPgrasp_ST 232 aakaaeklpglgylGwDivldeekgplllElNarpgla 269
                              a+++a+ + +  +  + + + e+k+ + lE+N+r  ++
  PHY93_12920|PHY93_12920 267 AVNLAKAIKYDSAGTVELIMGENKEFYFLEMNTRIQVE 304
                              5555555555555567888999999********97765 PP

>> ATP-grasp_5  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   2.3e-05     0.032      13      55 ..     123     167 ..     114     220 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 2.3e-05
              ATP-grasp_5  13 aeakelleaygipvvetrl..assaeeaveaaeeigypvvlKivs 55 
                              a +ke  + +g+pvv+     + + eea+++a++i+yp+ lK v 
  PHY93_12920|PHY93_12920 123 AVSKEFAKKVGMPVVPGSTgaVPTIEEAIKIADQIKYPILLKAVA 167
                              56899999*******98777799*******************986 PP

>> ATPgrasp_Ter  ATP-grasp in the biosynthetic pathway with Ter operon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   2.8e-05     0.038      17     111 ..     216     327 ..     199     344 .. 0.68

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 2.8e-05
             ATPgrasp_Ter  17 SvDvlae.kgevl......aavpRrKekgglq.............elekdeelielaerlaeefgldglvnvQvrededg.pkLLE 81 
                               v +la+ kg+v       + ++Rr      q               e ++++++ a +la++++ d    v + ++e++  + LE
  PHY93_12920|PHY93_12920 216 EVQILADkKGNVFhffereCSIQRRH-----QkiveeapspfigdDEELRQRVCNSAVNLAKAIKYDSAGTVELIMGENKeFYFLE 296
                              56666666666662222223344443.....2222344455333333445667889999*********************9***** PP

             ATPgrasp_Ter  82 iNpRasGGlgysa.laGvnlpylalklllgl 111
                              +N+R++    ++   +G++l+  +++ + g+
  PHY93_12920|PHY93_12920 297 MNTRIQVEHPITEeITGIDLIVCMIQSAFGE 327
                              ******9999986268*********999995 PP

>> ATP-grasp_4  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.1   5.7e-05     0.079       1      94 [.     157     241 ..     157     305 .. 0.68

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 5.7e-05
              ATP-grasp_4   1 islPvviKPsvgffSlGVykinneeewkaavaaieeeleqakeeykeevveeesflvEeyi.eGeEfavdayfdeeGepvilnilk 85 
                              i++P+ +K + g + +G+++++ne++ ++ ++ +++e+        +++ ++++ lvE+yi + + + v ++ d++G+  + ++++
  PHY93_12920|PHY93_12920 157 IKYPILLKAVAGGGGRGMRVCHNEQDVRNNFEPVQREA--------ASAFKNGDLLVEKYIvNPHHIEVQILADKKGN--VFHFFE 232
                              689*******************************9883........34456788999999735667788888888876..445555 PP

              ATP-grasp_4  86 kefaseedv 94 
                              +e + ++  
  PHY93_12920|PHY93_12920 233 RECSIQRRH 241
                              555555555 PP

>> DUF3182  Protein of unknown function (DUF3182)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   0.00015      0.21      99     172 ..     122     195 ..     104     217 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00015
                  DUF3182  99 egwseelaaavrdvvlpGft..vFsredarraaarllkegkvRlKeveatgGrgQrvvedaaeldaaLaaldeeel 172
                              ++ s+e+a++v   v+pG t  v ++e+a + a ++  + ++ lK+v++ gGrg rv ++++++++  + ++ e+ 
  PHY93_12920|PHY93_12920 122 KAVSKEFAKKVGMPVVPGSTgaVPTIEEAIKIADQI--KYPILLKAVAGGGGRGMRVCHNEQDVRNNFEPVQREAA 195
                              45789*************98657899*******998..679***********************999988876654 PP

>> DNA_primase_S  DNA primase small subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.0      0.64   8.9e+02      37      76 ..      28      68 ..      17     157 .. 0.58
   2 ?    4.7   0.0      0.02        28      50     122 ..     170     265 ..     121     311 .. 0.81
   3 ?    4.1   0.0     0.032        44      24      64 ..     314     354 ..     310     444 .. 0.88

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.64
                             ----GG.GEEEEE--SEEEEEEE--TTEEES-HHHHHHHHH CS
            DNA_primase_S 37 edfgfk.dilwvfsgrrGfHcwvsdkdarpltdeeraaivn 76
                              ++g+  + +w+ +     H+ v+d+++r  ++ ++    n
  PHY93_12920|PHY93_12920 28 RELGYTaVGVWTDNEVQAKHLEVCDEWVRLPGSTNQETYLN 68
                             56666656666666666778889999999444433333222 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.02
                              -SEEEEEEE--TTEE....ES-HHHHHHHHHH...................................................... CS
            DNA_primase_S  50 grrGfHcwvsdkdar....pltdeeraaivnylnly...................rplhpflsrsmlkivkpvveeiileeqdpf. 111
                              g+rG+++     d+r    p  +e ++a++n   l+                   +++++f++r  + i +++  +i+ e+  pf 
  PHY93_12920|PHY93_12920 170 GGRGMRVCHNEQDVRnnfePVQREAASAFKNGDLLVekyivnphhievqiladkkGNVFHFFERE-CSIQRRH-QKIVEEAPSPFi 253
                              589999999999999888888888888888855555699999998889999998888*******9.7777666.899999999999 PP

                              .HCHHHHCT--- CS
            DNA_primase_S 112 .eikkllrllpd 122
                               + ++l++++ +
  PHY93_12920|PHY93_12920 254 gDDEELRQRVCN 265
                              955555555444 PP

  == domain 3  score: 4.1 bits;  conditional E-value: 0.032
                              HHHHHHHHHHHH-----GGGEEEEE--SEEEEEEE--TTEE CS
            DNA_primase_S  24 vsvavkvldellredfgfkdilwvfsgrrGfHcwvsdkdar 64 
                              ++++v +++++++ed+g++   w+ +++  + c ++ +d  
  PHY93_12920|PHY93_12920 314 IDLIVCMIQSAFGEDLGIPSQEWIKRTGHAIECRICAEDPI 354
                              6788999************9999999888999999988765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (479 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       459  (0.025601); expected 358.6 (0.02)
Passed bias filter:                      417  (0.0232584); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.64u 0.29s 00:00:00.93 Elapsed: 00:00:00.48
# Mc/sec: 3025.24
//
Query:       PHY93_12925|PHY93_12925  [L=518]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
   1.3e-183  611.1   0.4   1.5e-183  611.0   0.4    1.0  1  Carboxyl_trans  Carboxyl transferase domain
    0.00018   21.1   0.7    0.00049   19.7   0.1    1.9  2  MdcE            Malonate decarboxylase gamma subunit (MdcE)


Domain annotation for each model (and alignments):
>> Carboxyl_trans  Carboxyl transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  611.0   0.4  1.7e-187  1.5e-183       1     494 []      30     518 .]      30     518 .] 0.99

  Alignments for each domain:
  == domain 1  score: 611.0 bits;  conditional E-value: 1.7e-187
                              SSCTTCEEEEEEEEHTTSGGGEBEHHHHHHHHHHHHHHH.HHT..EEEEEEEESBETTEEHHHHTTEEEEESSTTSGGGCEEECHH CS
           Carboxyl_trans   1 kehprGkltareridllldpgsFgeledlffhrvtelgr.kkklprdgvvtgsGaviGravevvaqdktvlggslgpakgekllka 85 
                              k+h++G+ tareri+ l+dpgsF+e+++++ h++++lg+ ++k+ +dgvvtg+ +++ ++ ++++qd+t+lggslg a+++k++k+
  PHY93_12925|PHY93_12925  30 KQHEQGRYTARERIERLVDPGSFLEFDRFVVHKSNSLGMdQNKFLGDGVVTGIATINSQKIALYSQDFTFLGGSLGAAHAKKICKI 115
                              69**************************************99******************************************** PP

                              HHHHHHHTEEEEEEEEE-ESSSGHHSSHHHHHHHHHHHHHHHHHHHCS-EEEEESSEEETHHHHHHHHTSEEEEETTEEEEESSTH CS
           Carboxyl_trans  86 qeeaikagepligindsgGaegriqegveslrgsGkifgenskasgeIpqislvtgrcaGggaYlpalgdrvimveetskifltGp 171
                              ++ a++++ p+igindsgGa  riqegve l+g+G+if++n+k sg+Ipqisl++g+caGg++Y+pal+d+++mv++ts++f+tGp
  PHY93_12925|PHY93_12925 116 MDFALENRIPMIGINDSGGA--RIQEGVEGLAGYGEIFYRNVKCSGVIPQISLIMGPCAGGAVYSPALTDFIFMVDKTSYMFVTGP 199
                              ********************..**************************************************************** PP

                              HHHHHHHSSCC-SSCHHHHSHHHHTTTTSSSEEESSHHHHHHHHHHHHTTS-SSTTSGGSS----ECSSGSSSH.....HCS-CTT CS
           Carboxyl_trans 172 dvikkvlgreevtseelgGatqhmtksGvahltaeddeealelirkllsylPkkasnnresaPivetadepdrd...lieivPdna 254
                              +vik+v+  eevt+e+lgGa +h++ksGva++   +++e++e +r+llsy+P   + n+++a +  t+d + rd   ++e vP+n+
  PHY93_12925|PHY93_12925 200 EVIKTVTH-EEVTKEQLGGALAHAEKSGVAQFKCINEDECFERVRELLSYIP---PANFTKATLKYTSDIVYRDnvkIKETVPANP 281
                              ********.*******************************************...99999*************987666******* PP

                              TS---HHHHHHCEECTTC-EEESTTSSTTEEEEEEEETTEEEEEEEE--SEEETTEE-HHHHHHHHHHHHHHHHTT--EEEEE-BS CS
           Carboxyl_trans 255 kkpyDvreviarlvdegeFlEikegyAktvVvGfArlgGipvGvvAnetrveaGqvlfidsavKaarfirlcdaenlPlviladvr 340
                              kkpyD++e+i  +vd+ +FlE++++yAk+++vGfA +gGi +G+vAn+++  aG vl+i s++Kaarf+r+cda+++P+++l+dv+
  PHY93_12925|PHY93_12925 282 KKPYDMKEIIFDIVDDAQFLEVHKDYAKNIIVGFASVGGIKIGIVANQPAILAG-VLDIASSEKAARFVRFCDAFDIPILTLVDVP 366
                              ******************************************************.******************************* PP

                              EE--SHHHHHTTHHHHHHHHHHHHHT--S-EEEEE-TEEEHHHHHTTTGGGSTTTTEEETTT-EEESS-HHHHHHHHSHHHHHHHH CS
           Carboxyl_trans 341 GflvGqrqeyggilkhGaklvdalaeakvPkitvilrkayGGayvvmdskingadlvaawptariaVlgpegaveilfrkekaaae 426
                              Gfl+G++qe+ggi+khG+kl++a++ea+vP i++i+rk+yGGay+vm sk+++ d+++a pta+iaV+g+egav+i+ r +++  +
  PHY93_12925|PHY93_12925 367 GFLPGTEQEFGGIIKHGSKLLYAYSEATVPLISIITRKSYGGAYLVMASKHIKTDVNLAYPTAEIAVMGAEGAVNIISRGDLEGLA 452
                              *********************************************************************************88776 PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSHHHHHHTTSSSEEEHGGGHHHHHHHHHHHH CS
           Carboxyl_trans 427 merkdlaaerkkklkeyeeellnpyvaaargfaDavidpsetraklvialelewkkarklparkrrni 494
                                +k  + ++++ +++ye++++npy+aa++gf+Da+i p+etr+++   l ++++k++++p+rk++ni
  PHY93_12925|PHY93_12925 453 --GKAFDDKKAQLIADYEDKFANPYRAAELGFMDAIILPEETRKRVYEYLMALKNKKQEKPKRKHGNI 518
                              ..88899999********************************************************97 PP

>> MdcE  Malonate decarboxylase gamma subunit (MdcE)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.0      0.13   1.2e+03      43     123 ..     104     178 ..      74     186 .. 0.56
   2 !   19.7   0.1   5.5e-08   0.00049      65     153 ..     357     445 ..     316     459 .. 0.87

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 0.13
                              B-HHHHHHHHHHHHHHHTSSS--EEEEEEEE--B--SHHHHHH.THHHHHHHHHHHHHHHHHHT.--EEEEEEEEEEHHHHHH CS
                     MdcE  43 vGvdealaLaaaVleaieraekrpilvlvDvasQrlgrrdEll.GihealahlakalarArlaG.hpvigllvGkavsGafla 123
                              +G  +a ++ +  + a+  +++ p++ + D+ + r+  + E l G  e +      + + +  G  p i+l++G  + Ga  +
  PHY93_12925|PHY93_12925 104 LGAAHAKKICKIMDFAL--ENRIPMIGINDSGGARIQEGVEGLaGYGEIF------YRNVKCSGvIPQISLIMGPCAGGAVYS 178
                              55555555555544444..5566666676766666655544221222222......333344442377777777777777665 PP

  == domain 2  score: 19.7 bits;  conditional E-value: 5.5e-08
                              -EEEEEEEE--B--SHHHHHHTHHHHHHHHHHHHHHHHHHT--EEEEEEEEEEHHHHHHTT...TT-SEEEEEET-EEESS-HHHH CS
                     MdcE  65 rpilvlvDvasQrlgrrdEllGihealahlakalarArlaGhpvigllvGkavsGaflahg...lqanrlialpgvqvavmdkasa 147
                               pil lvDv++   g  +E  Gi +  + l  a+  A +   p+i+++  k+  Ga+l ++   +++++ +a p +++avm+   a
  PHY93_12925|PHY93_12925 357 IPILTLVDVPGFLPGTEQEFGGIIKHGSKLLYAYSEATV---PLISIITRKSYGGAYLVMAskhIKTDVNLAYPTAEIAVMGAEGA 439
                              59********************************99986...9**************9766333789999************9988 PP

                              HHHHT- CS
                     MdcE 148 ArvTkr 153
                                +  r
  PHY93_12925|PHY93_12925 440 VNIISR 445
                              877655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (518 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       519  (0.0289475); expected 358.6 (0.02)
Passed bias filter:                      464  (0.0258799); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.68u 0.27s 00:00:00.95 Elapsed: 00:00:00.49
# Mc/sec: 3193.30
//
Query:       PHY93_12930|PHY93_12930  [L=519]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.1e-69  232.5   0.3    3.2e-69  231.9   0.3    1.3  1  Sigma54_activat  Sigma-54 interaction domain
    2.6e-23   82.7   0.0    7.3e-23   81.2   0.0    1.8  1  Sigma54_activ_2  Sigma-54 interaction domain
    6.5e-10   38.6   0.2    1.4e-09   37.6   0.2    1.6  1  HTH_8            Bacterial regulatory protein, Fis family
    3.5e-07   30.1   0.2    1.3e-06   28.3   0.1    2.0  2  PocR             Sensory domain found in PocR
    1.6e-06   28.1   0.0    3.6e-06   27.0   0.0    1.6  1  AAA_5            AAA domain (dynein-related subfamily)
    0.00061   20.2   0.0     0.0017   18.8   0.0    1.8  1  AAA              ATPase family associated with various cellul
     0.0017   17.9   0.0     0.0047   16.5   0.0    1.8  1  HTH_50           Helix-turn-helix domain
     0.0035   16.9   0.1     0.0067   16.0   0.1    1.4  1  AAA_7            P-loop containing dynein motor region
     0.0057   16.8   0.2      0.043   13.9   0.0    2.3  2  AAA_2            AAA domain (Cdc48 subfamily)
  ------ inclusion threshold ------
      0.016   15.6   0.0      0.036   14.5   0.0    1.6  1  AAA_16           AAA ATPase domain
      0.025   14.0   0.2       0.92    8.9   0.1    3.0  2  Mg_chelatase     Magnesium chelatase, subunit ChlI
      0.026   14.6   0.1      0.056   13.5   0.1    1.6  1  UPF0242          Uncharacterised protein family (UPF0242) N-t


Domain annotation for each model (and alignments):
>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  231.9   0.3   2.1e-72   3.2e-69       1     167 [.     202     368 ..     202     369 .. 0.99

  Alignments for each domain:
  == domain 1  score: 231.9 bits;  conditional E-value: 2.1e-72
                              ----SHHHHHHHHHHHHHCTSSS-EEEECSTTSSHHHHHHHHHHHSTTTTS-EEEEETTTS-TTCHHHHHHEBSSSSSTTTSS-BE CS
          Sigma54_activat   1 ligesealkelleqikkvaktdlsvlitGesGtGKellaraiheaskrkekpfvavncaaipeelleseLFGhekGaFtGAekekk 86 
                              +ig+s++++++++ ++k+ ++++sv+i+Ge+GtGKel+a+aih  s+rkek f+avnc+a++++ll+seLFGh kG+FtGA k+kk
  PHY93_12930|PHY93_12930 202 MIGKSKKMQAIYSLLEKISNSESSVMIQGENGTGKELVAKAIHFYSPRKEKMFLAVNCSAFNDNLLDSELFGHMKGSFTGAVKDKK 287
                              699*********************************************************************************** PP

                              HHHHHTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEESBTSSSEEE--EEEEEEESS-HHHHHHTTSS-HHHHHHHTSEEE CS
          Sigma54_activat  87 GlfekadgGtlfLDeigelplelQekLlrvlqegevervGsskeikvdvriiaatnedleeaveegkfredLyyrlnviei 167
                              Glfe+a+gGtlfLDeig+ +l++Q+kLlrvlqeg++ +vG+++++kvdvri+aatn++l+e++++g+fredLyyr+nvi++
  PHY93_12930|PHY93_12930 288 GLFETANGGTLFLDEIGDTSLSMQVKLLRVLQEGTYLPVGATAPKKVDVRIVAATNKNLKEMMAKGEFREDLYYRINVINV 368
                              ******************************************************************************987 PP

>> Sigma54_activ_2  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   81.2   0.0   4.9e-26   7.3e-23       1     137 [.     203     372 ..     203     373 .. 0.96

  Alignments for each domain:
  == domain 1  score: 81.2 bits;  conditional E-value: 4.9e-26
                              X---HHHHHHHHHHHHHHT-SS-EEEEEETT--HHHHHHCC--TTS-EE--SSTTHHHH-H.......................HH CS
          Sigma54_activ_2   1 lgasaaiqelkerLeqaaqsklpvfltGekGsgkelvArlLhknsgpwleifvverlaklp.......................ld 63 
                              +g+s+++q++ + Le++++s++ v + Ge+G+gkelvA+++h  s ++ ++f   ++++ +                       + 
  PHY93_12930|PHY93_12930 203 IGKSKKMQAIYSLLEKISNSESSVMIQGENGTGKELVAKAIHFYSPRKEKMFLAVNCSAFNdnlldselfghmkgsftgavkdkKG 288
                              79*************************************************99999998666688999999999999999999999 PP

                              HHHHTTTSEEEEEE-TT--HHHHHHHHHHHHH..........HTTTT-EEEEEEEE-TTT..----HHHHHHHHSSSEEEEE-- CS
          Sigma54_activ_2  64 lleqakggtLylkdiadlskaeqkeLlellak..........aeksslrlVstsskdleqlleagafdekLlkeLselrlhvPp 137
                              l+e+a+ggtL+l +i d s + q +Ll +l++           +k ++r+V+++ k+l++++++g+f e L++++  + +++Pp
  PHY93_12930|PHY93_12930 289 LFETANGGTLFLDEIGDTSLSMQVKLLRVLQEgtylpvgataPKKVDVRIVAATNKNLKEMMAKGEFREDLYYRINVINVNLPP 372
                              9***************************************98779**************************************8 PP

>> HTH_8  Bacterial regulatory protein, Fis family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.6   0.2   9.4e-13   1.4e-09       2      42 .]     472     512 ..     471     512 .. 0.97

  Alignments for each domain:
  == domain 1  score: 37.6 bits;  conditional E-value: 9.4e-13
                              HHHHHHHHHHHHHHHTTT-HHHHHHHHTS-HHHHHHHHHHT CS
                    HTH_8   2 leevEkelIeaALertgGnkskAArlLGisRrtLyrKLkkY 42 
                              le++E ++I + L+r+++nksk A++L+isR +L  K +kY
  PHY93_12930|PHY93_12930 472 LEQLEVMMIREGLKRCNFNKSKLAKELDISRASLIMKVEKY 512
                              8************************************9999 PP

>> PocR  Sensory domain found in PocR
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.3   0.1   8.6e-10   1.3e-06      21     158 ..      26     173 ..       9     177 .. 0.75
   2 ?   -1.4   0.0       1.2   1.8e+03     111     155 ..     176     221 ..     170     224 .. 0.68

  Alignments for each domain:
  == domain 1  score: 28.3 bits;  conditional E-value: 8.6e-10
                     PocR  21 laivivdtdgepltepsnf.....tdfCklvrstpegrkrCrksdarggeeav.ksgkpyiykChaGLvd.vavPIivegkllGai 99 
                              + +  +d +g+  +e+ n      ++f k+  +t  g +   +  +++ ++    +++++iy+ h+  v+ va+PI +eg++ Ga+
  PHY93_12930|PHY93_12930  26 VEMFYTDAHGKLWSEHANKdyafkSHFMKVQMQTAVGHEFLSEDIEKMVDQLSsGKDEVVIYQSHFKSVKgVAFPIKFEGEFAGAV 111
                              55666666666666665333333444445555555555555555555555544255599*****9887764789************ PP

                     PocR 100 ilGqvllee...pdeeefreqakelgldeeellealekvpvvseeklraiaelleilanylv 158
                              ++ +++l+     + +e++ q  e+g +e+++l+a+ek++++ +++++++ el   la+ +v
  PHY93_12930|PHY93_12930 112 FVYPFVLDTatsAEMDELKMQMIECGSSESDALAACEKIKKMWPREMEYVKELTGLLAEEMV 173
                              *********77666889999999999******************************999887 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 1.2
                     PocR 111 eeefreqakelgldeeellealekv.pvvseeklraiaelleilan 155
                              +ee+ + +++++   +++ e+++    + + +k++ai +lle+++n
  PHY93_12930|PHY93_12930 176 HEEITKREHQIHELSSQVGEKYRYHsMIGKSKKMQAIYSLLEKISN 221
                              4666666777776666666666665134456789999999999887 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.0   0.0   2.4e-09   3.6e-06       2     124 ..     226     346 ..     225     362 .. 0.77

  Alignments for each domain:
  == domain 1  score: 27.0 bits;  conditional E-value: 2.4e-09
                              EEEE--SSSSHHHHHHHGGGGB...S--EEEEE-...-TT--HHHHH--B--.........--------G-SEEEEESGGG--HHH CS
                    AAA_5   2 vlLvGppGtgKselaerlaaal...nreveyvql...trdtteedlkgrreikngttslvdsplvraaregeilvlDEveraesev 81 
                              v+++G+ GtgK  +a+ +       ++ ++ v++   ++++  ++l+g+++ +  +++  ++ l  +  +g +l+lDE+   + ++
  PHY93_12930|PHY93_12930 226 VMIQGENGTGKELVAKAIHFYSprkEKMFLAVNCsafNDNLLDSELFGHMKGSFTGAVKDKKGLF-ETANGGTLFLDEIGDTSLSM 310
                              89**************9999988865555666551115678899******953333333333333.566***************** PP

                              HHHHHHHHHSSEEE..-SSSEEE---......-EEEEEESS-- CS
                    AAA_5  82 lnsLlslleerrllleeggelvkaknddllerfrviatanpld 124
                              + +Ll++l e ++l  + g    +k d     +r++a++n++ 
  PHY93_12930|PHY93_12930 311 QVKLLRVLQEGTYL--PVGATAPKKVD-----VRIVAATNKNL 346
                              **************..55555555554.....9******9875 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.0   1.1e-06    0.0017       1     111 [.     226     344 ..     226     363 .. 0.80

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 1.1e-06
                              EEEESSTTSSHHHHHHHHHHHH...THEEEEEETTTCSSS.....STTHHHHHHHHHHHHHHHTS....TSEEEEEETGGGHHHHH CS
                      AAA   1 vllyGppGtGKTllakavakel...gvefleisgsellsk.....yvgesekkirelfkeakeka....kpsilfiDEidalaksr 74 
                              v++ G  GtGK l+aka+   +   +  fl +++s + ++     ++g+++ ++ + +k+  +      +   lf+DEi     s 
  PHY93_12930|PHY93_12930 226 VMIQGENGTGKELVAKAIHFYSprkEKMFLAVNCSAFNDNlldseLFGHMKGSFTGAVKDK-KGLfetaNGGTLFLDEIGDTSLSM 310
                              5788****************98554466999999999866777777777777777777773.33357644599*******998888 PP

                              TTCCCHHHHHHHHHHHHHHHHTTTS........SSTEEEEEEESS CS
                      AAA  75 sgseseeeervvnqLlteldgvkkk........eskvivigatnr 111
                                         + +Ll++l++ +          + +v +++atn+
  PHY93_12930|PHY93_12930 311 -----------QVKLLRVLQEGTYLpvgatapkKVDVRIVAATNK 344
                              ...........9999999999999999999998777999999997 PP

>> HTH_50  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   3.2e-06    0.0047       1      49 [.     465     514 ..     465     515 .. 0.89

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 3.2e-06
                   HTH_50   1 egsLkeyveefErelikkayekYpStR.klAkrLGvShtaianklrkYgI 49 
                              eg+L+e++e+ E  +i + +++      klAk L +S +  + k+ kYg+
  PHY93_12930|PHY93_12930 465 EGTLREALEQLEVMMIREGLKRCNFNKsKLAKELDISRASLIMKVEKYGL 514
                              689***************99987643339********************7 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.1   4.5e-06    0.0067       8      72 ..     198     262 ..     192     287 .. 0.85

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 4.5e-06
                    AAA_7   8 kfseilVptvdtvrysyllelllknkkpvllvGptGtGKtviikdllkkldkekylsltinfsaq 72 
                              ++++++ +  +   +  lle++ +++ +v++ G+ GtGK +++k +    ++++ ++l +n+sa 
  PHY93_12930|PHY93_12930 198 RYHSMIGKSKKMQAIYSLLEKISNSESSVMIQGENGTGKELVAKAIHFYSPRKEKMFLAVNCSAF 262
                              566666666677778889***************************88888889999999999986 PP

>> AAA_2  AAA domain (Cdc48 subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.0      0.66   9.8e+02      35      64 ..      52      85 ..      28      91 .. 0.64
   2 !   13.9   0.0   2.9e-05     0.043       2     107 ..     222     322 ..     221     365 .. 0.83

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.66
                             EEEEEGGG---....----THHHHHHHHHTTT-H CS
                    AAA_2 35 liradaselle....eeevehlvsrligappgyv 64
                             ++ + +++       +e++e++v++l   ++  v
  PHY93_12930|PHY93_12930 52 FMKVQMQTAVGheflSEDIEKMVDQLSSGKDEVV 85
                             4444444333333444999999999887766665 PP

  == domain 2  score: 13.9 bits;  conditional E-value: 2.9e-05
                              ----EEEE--TTSSHHHHHHHHHHHTT-....-EEEEEGGG---.......----THHHHHHHHHTTT-HHHHTTSEEEEETGGG- CS
                    AAA_2   2 piisilllgptgvGktelakalaellfvkkekkliradaselle.......eeevehlvsrligappgyvgaeegGivllDEidKi 80 
                              +++s+++ g++g+Gk+++aka+  +   +kek +  +++s++            ++ + +  +  ++g  + ++gG ++lDEi   
  PHY93_12930|PHY93_12930 222 SESSVMIQGENGTGKELVAKAIHFYSP-RKEKMFLAVNCSAFNDnlldselFGHMKGSFTGAVKDKKGLFETANGGTLFLDEIGDT 306
                              5789**********************9.9*************9988875444566777777788899999999999*******887 PP

                              ------------HHHHHHHHHHHH--E CS
                    AAA_2  81 hpkessgadvSregVqrdLLqileggt 107
                              +              q  LL++l +gt
  PHY93_12930|PHY93_12930 307 SL-----------SMQVKLLRVLQEGT 322
                              77...........77777777776665 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0   2.4e-05     0.036       3      63 ..     203     262 ..     201     288 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 2.4e-05
                   AAA_16   3 vGReeeleqLlsalervrsgrpelvllsGesGvGKsslvrellralekdggiflrgkcdql 63 
                              +G+ + ++++ s+le+++ ++ ++v++ Ge G+GK  ++++++ +  +++  fl+ +c  +
  PHY93_12930|PHY93_12930 203 IGKSKKMQAIYSLLEKISNSE-SSVMIQGENGTGKELVAKAIHFYSPRKEKMFLAVNCSAF 262
                              6889999********998777.9***************99999777777788888888776 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   0.1   0.00061      0.92      23     122 ..     224     310 ..     203     344 .. 0.73
   2 ?   -1.8   0.0       1.1   1.6e+03     125     141 ..     467     483 ..     459     499 .. 0.82

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.00061
             Mg_chelatase  23 HnlllvGppGsGKtmlakrlpsllpplseeealevakiasvagkkeeekllkrrpfraphhsaskaalvGggskpkpGeislahnG 108
                               ++++ G  G+GK ++ak+++   p+    e +  a    v+ +  +++ll++  f + + s +      g  k k+G    a+ G
  PHY93_12930|PHY93_12930 224 SSVMIQGENGTGKELVAKAIHFYSPRK---EKMFLA----VNCSAFNDNLLDSELFGHMKGSFT------GAVKDKKGLFETANGG 296
                              578999999999999999998776653...222222....222334567777777876555543......6678899999999999 PP

             Mg_chelatase 109 vLfLDElpefkrkv 122
                               LfLDE+ + + ++
  PHY93_12930|PHY93_12930 297 TLFLDEIGDTSLSM 310
                              99999998766554 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 1.1
             Mg_chelatase 125 vLRePledgevtisrak 141
                              +LRe le+ ev++ r  
  PHY93_12930|PHY93_12930 467 TLREALEQLEVMMIREG 483
                              79*******99998875 PP

>> UPF0242  Uncharacterised protein family (UPF0242) N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.1   3.7e-05     0.056     124     179 ..     138     193 ..      37     197 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 3.7e-05
                  UPF0242 124 ekleaiaedfeelkleleeqLaekqellqeyqetieeqrsvlekrqdqieqLeskV 179
                              +  +++ +  e+ k+    ++++ +el   ++e+++  ++++ kr+ qi++L s+V
  PHY93_12930|PHY93_12930 138 SSESDALAACEKIKKMWPREMEYVKELTGLLAEEMVTFHEEITKREHQIHELSSQV 193
                              445556668899999999************************************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (519 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       975  (0.0543812); expected 358.6 (0.02)
Passed bias filter:                      674  (0.0375927); expected 358.6 (0.02)
Passed Vit filter:                        68  (0.00379274); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.70u 0.30s 00:00:01.00 Elapsed: 00:00:00.48
# Mc/sec: 3256.27
//
Query:       PHY93_12935|PHY93_12935  [L=175]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.5e-14   53.3   0.0    3.3e-14   52.9   0.0    1.1  1  AhpC-TSA       AhpC/TSA family
    5.7e-13   48.8   0.0    6.9e-13   48.5   0.0    1.1  1  Redoxin        Redoxin
    9.8e-08   32.2   0.0    1.8e-07   31.4   0.0    1.3  1  Thioredoxin_8  Thioredoxin-like
    3.9e-05   23.6   0.1    0.00017   21.5   0.1    1.8  2  Thioredoxin    Thioredoxin
  ------ inclusion threshold ------
      0.038   14.4   0.0      0.059   13.8   0.0    1.2  1  Thioredoxin_2  Thioredoxin-like domain
      0.079   12.7   0.0        0.5   10.2   0.0    1.9  2  Thioredoxin_9  Thioredoxin


Domain annotation for each model (and alignments):
>> AhpC-TSA  AhpC/TSA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.9   0.0   1.1e-17   3.3e-14       3     120 ..      24     140 ..      22     142 .. 0.90

  Alignments for each domain:
  == domain 1  score: 52.9 bits;  conditional E-value: 1.1e-17
                              SB----EEE.STTCEEEECHHH.TT.SEEEEEEESTST-CCHHHHHHHHHHCHHHCCCTTEEEEEEESSSCH.HHHHHHHH-H... CS
                 AhpC-TSA   3 dkapdfelk.nadgetvslsdy.kg.kpvvlffypkdwcpvCttelpalaklyeefkergvevigvsvdspe.shkkfiekes..l 82 
                              ++ p+f+    + g+++s  ++ kg + v + ++ + wc +C++e+p++ k++e  k +gv+ + v v+++e ++kkf+ + s   
  PHY93_12935|PHY93_12935  24 KQLPSFNSVeVGTGKKISSIEFlKGtSGVFVHIWGS-WCAPCEKEMPEFLKYAESVKGKGVKFLLVAVNDEEmKIKKFMGRFSipQ 108
                              577888766356789999988889989999999999.*******************************77777*******999888 PP

                              SSEEEE-TTSHHHHHTT-EETTTTECSCEEEEE-TTSB CS
                 AhpC-TSA  83 nfpllsDeegkvakaygvlkeekglalratfvidkegk 120
                              n++++ D+e+ v++ +g l       ++ +f++d++gk
  PHY93_12935|PHY93_12935 109 NVTIVMDKENIVMDLFGTL------KVPESFLFDSNGK 140
                              9******************......9*********997 PP

>> Redoxin  Redoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.5   0.0   2.3e-16   6.9e-13       5     137 ..      25     151 ..      22     160 .. 0.86

  Alignments for each domain:
  == domain 1  score: 48.5 bits;  conditional E-value: 2.3e-16
                              BB---ECCEETTCEEEEEHHH.HTTSE.EEEEEESTTT-HHHHHTHHHHHTHHHHHHCSTTTEEEEEESSSHH.HHHHHHH...TT CS
                  Redoxin   5 kaPdftlplaatdgnsvslse.fkgkk.vvvnfvpgafcPtCsaehpyleklaellkekgvdvvavvadndaf.vkefwgk...eg 84 
                              ++P+f+  +    g+++s  e +kg + v+v ++ + +c +C +e+p++ k+ae  k kgv+++ v +++++   k+f+g+     
  PHY93_12935|PHY93_12935  25 QLPSFNSVE-VGTGKKISSIEfLKGTSgVFVHIWGS-WCAPCEKEMPEFLKYAESVKGKGVKFLLVAVNDEEMkIKKFMGRfsiP- 107
                              578888767.45567777777799999788888988.**************************9999999999********9854. PP

                              -TSEEEE-TTSHHHHHTT-TTEEE.GGGEEE-EEEEEEETTEEEEEEESSSCH CS
                  Redoxin  85 lkfpvlsDgsaaftkalGlrleedaseglrtpryavidedgkvvylevepepe 137
                               +++++ D +  ++  +G             p ++++d +gk + ++ +p ++
  PHY93_12935|PHY93_12935 108 QNVTIVMDKENIVMDLFGTL---------KVPESFLFDSNGKHINKFIGPQEW 151
                              489***************44.........89*************999999876 PP

>> Thioredoxin_8  Thioredoxin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.4   0.0     6e-11   1.8e-07       4      94 ..      52     140 ..      50     141 .. 0.91

  Alignments for each domain:
  == domain 1  score: 31.4 bits;  conditional E-value: 6e-11
                              EEEEE--SSSHHHHHHHHHHHHHHHHHHHTTSEEEEEEE-SS-HHHHHHHGGGS-TTSEE.EE-TT-HHHHTT-S--TT-SEEEEE CS
            Thioredoxin_8   4 vlLyfgaswcppckaftpklkelyeklkkkkkveivyvsldkkeeefekylkknkkpwlsvpfddkkrnklkkkynvkaiPtlvvl 89 
                              v++ ++ swc+pc++ +p+  ++ e++k +k+v+++ v +  +e + +k++   +  + +v+   +k n + + +++ ++P  ++ 
  PHY93_12935|PHY93_12935  52 VFVHIWGSWCAPCEKEMPEFLKYAESVK-GKGVKFLLVAVNDEEMKIKKFMGRFSI-PQNVTIVMDKENIVMDLFGTLKVPESFLF 135
                              67899**********************9.9************9***********44.55666666678999*************** PP

                              -TT-B CS
            Thioredoxin_8  90 dknge 94 
                              d+ng+
  PHY93_12935|PHY93_12935 136 DSNGK 140
                              ***97 PP

>> Thioredoxin  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.1   5.6e-08   0.00017      18      66 ..      49      98 ..      38     118 .. 0.83
   2 ?   -0.7   0.0      0.46   1.4e+03      62      93 ..     118     150 ..     106     154 .. 0.67

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 5.6e-08
                             SSEEEEEEE-TTSHHHHCHHHHHHHHHHHCTT.TSEEEEEETTTSHHHHH CS
              Thioredoxin 18 kklvlveFyApwCghCkalaPeleklaeelkd.kvklakvdvdenedlak 66
                              + v+v  + +wC++C +  Pe+ k ae +k+  vk++ v v+++e   k
  PHY93_12935|PHY93_12935 49 TSGVFVHIWGSWCAPCEKEMPEFLKYAESVKGkGVKFLLVAVNDEEMKIK 98
                             56799**************************9978877777766665554 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.46
                              HHHHHHTT-SSSSE.EEEEETTEEEEEEESS-H CS
              Thioredoxin  62 edlakkyevegiPt.lklfkngkevkkyegare 93 
                              + + + ++   +P+ +++  ngk+++k+ g +e
  PHY93_12935|PHY93_12935 118 NIVMDLFGTLKVPEsFLFDSNGKHINKFIGPQE 150
                              555555556667762555567889999988765 PP

>> Thioredoxin_2  Thioredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0     2e-05     0.059       7      93 ..      51     142 ..      47     152 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 2e-05
            Thioredoxin_2   7 pvlvvftdpdCpyCkklkkelkel.ddvtvrvllfplkpsfepkavaiwcakekkkafkd...........ieenvelarkygvrg 80 
                               v+v+++ ++C  C+k + e+ ++ ++v+        ++ +++  va+  ++ k k+f +           +++++ +++ +g   
  PHY93_12935|PHY93_12935  51 GVFVHIWGSWCAPCEKEMPEFLKYaESVK--------GKGVKFLLVAVNDEEMKIKKFMGrfsipqnvtivMDKENIVMDLFGTLK 128
                              5899999*********999*****66664........45788888888888888877777888888999999999999******** PP

            Thioredoxin_2  81 tPtivfldgk.eiv 93 
                              +P  +++d + + +
  PHY93_12935|PHY93_12935 129 VPESFLFDSNgKHI 142
                              ***99999996544 PP

>> Thioredoxin_9  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0   0.00017       0.5      50     109 ..      58     117 ..      37     125 .. 0.84
   2 ?    2.8   0.0     0.031        93      78     115 ..     112     146 ..     108     155 .. 0.87

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00017
                              -TT-HHHHHHHHHHHHHHHH-TTEEEEEE-HHHHHHHTTTTTT-SS--SSEEEEE-TT-- CS
            Thioredoxin_9  50 edwCgDaavnvPvlakiaelnpnievkillrdenlelmdqyltngaraiPtliildeege 109
                                wC  +   +P + k ae  ++  vk+ll   n e m+  + +g+ +iP  + +  + e
  PHY93_12935|PHY93_12935  58 GSWCAPCEKEMPEFLKYAESVKGKGVKFLLVAVNDEEMKIKKFMGRFSIPQNVTIVMDKE 117
                              58************************************98877*******7666554433 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.031
                              E-HHHHHHHTTTTTT-SS--SSEEEEE-TT--EEEEEE CS
            Thioredoxin_9  78 llrdenlelmdqyltngaraiPtliildeegeelgvwg 115
                              +++d+++ +md +   g+ ++P  +++d++g+ +++++
  PHY93_12935|PHY93_12935 112 IVMDKENIVMDLF---GTLKVPESFLFDSNGKHINKFI 146
                              6788999999999...779************9999885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (175 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       435  (0.0242624); expected 358.6 (0.02)
Passed bias filter:                      359  (0.0200234); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.46u 0.26s 00:00:00.72 Elapsed: 00:00:00.44
# Mc/sec: 1191.46
//
Query:       PHY93_12940|PHY93_12940  [L=116]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      4e-27   94.9   0.3    4.6e-27   94.7   0.3    1.1  1  Ribosomal_L17  Ribosomal protein L17


Domain annotation for each model (and alignments):
>> Ribosomal_L17  Ribosomal protein L17
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   94.7   0.3   2.6e-31   4.6e-27       2      92 ..      21     115 ..      20     116 .] 0.94

  Alignments for each domain:
  == domain 1  score: 94.7 bits;  conditional E-value: 2.6e-31
                              HHHHHHHHHHHSEEEEEHHHHHHHHHHHHHHHHHHHH-SHHHHHHHHHHS-...HHHHHHHTHHHHTSS--S--EEEEEEEE.-TT CS
            Ribosomal_L17   2 lrnlvtsLleherIetTlakAkelrklaeklitlakkgelaarrkalayla...lvkkLfeelapryadrngGYtRilklgp.rrg 83 
                              ++nl+ +++eh +I+tT+a++ +lr +++klitlak++++++rr+a ++l+   +v++Lf+++ap  ++rngGYtR++k++  r g
  PHY93_12940|PHY93_12940  21 IKNLAIEVFEHRQIKTTHARCMALRTFVDKLITLAKEDTVHNRRTAYSKLNskdAVTNLFTKVAPMCKTRNGGYTRVIKIADgRVG 106
                              79************************************************55568*************************888*** PP

                              TH-EEEEEE CS
            Ribosomal_L17  84 Daaemaile 92 
                              D+a+m++  
  PHY93_12940|PHY93_12940 107 DSAKMSFFS 115
                              *****9865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (116 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       463  (0.0258241); expected 358.6 (0.02)
Passed bias filter:                      338  (0.0188521); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.47
# Mc/sec: 743.86
//
Query:       PHY93_12945|PHY93_12945  [L=340]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.8e-24   85.3   0.9    3.5e-24   84.3   0.9    1.5  1  RNA_pol_A_CTD  Bacterial RNA polymerase, alpha chain C termin
    3.8e-20   72.3   0.1    7.8e-20   71.3   0.1    1.5  1  RNA_pol_A_bac  RNA polymerase Rpb3/RpoA insert domain
    2.6e-18   65.2   0.0    4.3e-18   64.5   0.0    1.4  1  RNA_pol_L      RNA polymerase Rpb3/Rpb11 dimerisation domain


Domain annotation for each model (and alignments):
>> RNA_pol_A_CTD  Bacterial RNA polymerase, alpha chain C terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   84.3   0.9   5.9e-28   3.5e-24       8      66 ..     258     316 ..     254     317 .. 0.94

  Alignments for each domain:
  == domain 1  score: 84.3 bits;  conditional E-value: 5.9e-28
                              XXXX--BHHHHT--HHHHHHHHHTT--BHHHHHHS-HHHHTTSSS-SSHHHHHHHHHHH CS
            RNA_pol_A_CTD   8 lkklsisIeeLeLSvRslNcLkragiktvgeLvklseeeLlkikNlGkKSleEIkekLe 66 
                              ++ l +++ eLeLSvRs NcL++a+ik++ eLv+++e e+l +kN+G+KSl+EIke L+
  PHY93_12945|PHY93_12945 258 NNALLKPVSELELSVRSANCLQNANIKYIYELVSKTEGEMLRTKNFGRKSLNEIKEILT 316
                              578999**************************************************996 PP

>> RNA_pol_A_bac  RNA polymerase Rpb3/RpoA insert domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   71.3   0.1   1.3e-23   7.8e-20      13     109 ..      68     160 ..      63     181 .. 0.90

  Alignments for each domain:
  == domain 1  score: 71.3 bits;  conditional E-value: 1.3e-23
                              HHHHCHHHCSTCBSSCHHHHHHHHCTT-ETSSSSTTCSEEEEEEEEESSECEEGGGCBESSSSCEESSTTSEEEEEETT-EEEEEE CS
            RNA_pol_A_bac  13 EvvaHrlgliplvsedvleillnlkelveeeeegeeeksvelkLnvkgpgevtagdlkledadveivnpdilIakLrkgqelelea 98 
                              E v H++g+i+ v+e+v ei+lnlke+++ +  g+e+   +l L+++g+g v  +d+++ +++vei+np+++Ia++++g +l++e+
  PHY93_12945|PHY93_12945  68 EGVDHEFGTINNVKEEVSEIILNLKEVRF-KISGKEDT--VLVLEKSGEGPVRGSDIVT-NSNVEILNPNHVIANISSGGSLKIEL 149
                              559************************73.34566666..9******************.9************************* PP

                              EEEEESSEECT CS
            RNA_pol_A_bac  99 kvkkGiGkeha 109
                              k+ +G G++ a
  PHY93_12945|PHY93_12945 150 KIARGKGYVTA 160
                              ********987 PP

>> RNA_pol_L  RNA polymerase Rpb3/Rpb11 dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.5   0.0   7.3e-22   4.3e-18       1      69 []      35     231 ..      35     231 .. 0.94

  Alignments for each domain:
  == domain 1  score: 64.5 bits;  conditional E-value: 7.3e-22
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx........................................................ RF
                RNA_pol_L   1 efllrgvdhtlgNaLRrillsevpgvaiea........................................................ 30 
                              ++l+rg++ tlgN+LRr+ll +++g+ i+a                                                        
  PHY93_12945|PHY93_12945  35 KPLERGYGQTLGNSLRRVLLGSLQGAGIVAirvegvdhefgtinnvkeevseiilnlkevrfkisgkedtvlvleksgegpvrgsd 120
                              69******************************************************************************999999 PP

                              .............................................................xxxxxx...........xxxxxxxx RF
                RNA_pol_L  31 .............................................................pvvkvn...........tdkdklil 44 
                                                                                           pv +vn           td+dkl+l
  PHY93_12945|PHY93_12945 121 ivtnsnveilnpnhvianissggslkielkiargkgyvtavdnkeeydlpvgwvyldtlfsPVYRVNysvtntrvgkrTDFDKLTL 206
                              999999999999999999999999999999999999999999999999988888888888888888888999999999******** PP

                              xxxxxxxxxxxxxxxxxxxxxxxxx RF
                RNA_pol_L  45 evetdgslkPeealkeAlkiLkekl 69 
                              ev+t+  ++P + ++ A+kiL+++l
  PHY93_12945|PHY93_12945 207 EVWTNSGINPADSIAFAAKILRDQL 231
                              **********************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (340 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       357  (0.0199119); expected 358.6 (0.02)
Passed bias filter:                      296  (0.0165096); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.28s 00:00:00.80 Elapsed: 00:00:00.46
# Mc/sec: 2208.65
//
Query:       PHY93_12950|PHY93_12950  [L=125]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.1e-44  148.5   0.3    9.5e-44  148.3   0.3    1.1  1  Ribosomal_S11    Ribosomal protein S11
     0.0088   15.2   0.1      0.095   11.8   0.0    2.0  2  PEP-utilizers_C  PEP-utilising enzyme, TIM barrel domain
  ------ inclusion threshold ------
      0.064   13.0   0.0       0.13   12.0   0.0    1.4  2  ELFV_dehydrog    Glutamate/Leucine/Phenylalanine/Valine dehyd


Domain annotation for each model (and alignments):
>> Ribosomal_S11  Ribosomal protein S11
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  148.3   0.3   1.6e-47   9.5e-44       1     109 [.      17     125 .]      17     125 .] 0.99

  Alignments for each domain:
  == domain 1  score: 148.3 bits;  conditional E-value: 1.6e-47
            Ribosomal_S11   1 GvahiqasfnntiititdlkGaevlvksaGglgvkasrkssPyaaqlaaekaaekvldkGikavevkvkgpGpGreaalralaraG 86 
                              G+ hiqasfnnti+t td +G++++++saG lg+++s+ks+P+aaq+a+ +aa+++ ++G+++vev+vkgpG+Gre a+ral  aG
  PHY93_12950|PHY93_12950  17 GICHIQASFNNTIVTFTDPQGNALAWASAGQLGFRGSKKSTPFAAQTASLEAAKRASEHGLNSVEVRVKGPGAGRENAIRALLGAG 102
                              89************************************************************************************ PP

            Ribosomal_S11  87 lkigriedvtPiPhdgirrpkkr 109
                              ++i  + d  PiPh+g+r+pk+r
  PHY93_12950|PHY93_12950 103 IRIVSVSDRSPIPHNGCRAPKRR 125
                              *********************97 PP

>> PEP-utilizers_C  PEP-utilising enzyme, TIM barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.5   0.0     0.022   1.3e+02     236     259 ..       1      24 [.       1      37 [. 0.79
   2 !   11.8   0.0   1.6e-05     0.095     240     280 ..      68     111 ..      54     116 .. 0.86

  Alignments for each domain:
  == domain 1  score: 1.5 bits;  conditional E-value: 0.022
                              CHHHHHHHHHHCCXEEEEESCCCC CS
          PEP-utilizers_C 236 likevikaaeekglkvgiCGelag 259
                              ++k+v+k+  +k++  giC   a+
  PHY93_12950|PHY93_12950   1 MVKKVVKKKVKKNVSHGICHIQAS 24 
                              6999***************87777 PP

  == domain 2  score: 11.8 bits;  conditional E-value: 1.6e-05
                              HHHHHHHCC...XEEEEESCCCCSCCCHHHHHHCTXSEEEEXGG CS
          PEP-utilizers_C 240 vikaaeekg...lkvgiCGelagdpsavellvglGldelSmsaa 280
                                k a e+g   ++v++ G  ag ++a++ l+g+G++ +S+s +
  PHY93_12950|PHY93_12950  68 AAKRASEHGlnsVEVRVKGPGAGRENAIRALLGAGIRIVSVSDR 111
                              56778888888899***************************976 PP

>> ELFV_dehydrog  Glutamate/Leucine/Phenylalanine/Valine dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0      0.62   3.7e+03      45      66 ..      16      37 ..       5      39 .. 0.63
   2 ?   12.0   0.0   2.1e-05      0.13       5      65 ..      52     112 ..      49     117 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 0.62
                             HHHHHHHHHCT-EEEEEEESSE CS
            ELFV_dehydrog 45 syaallltelgakvvavsDssG 66
                             +  + + ++ ++++v+  D +G
  PHY93_12950|PHY93_12950 16 HGICHIQASFNNTIVTFTDPQG 37
                             4444444556677777777666 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 2.1e-05
                              TTTTHHHHHHHHHHHHHHHHTTTS-STTEEEEEE--SHHHHHHHHHHHHCT-EEEEEEESS CS
            ELFV_dehydrog   5 drpeaTglGvvyyveemlkklkldslegkrvaisGsGnvgsyaallltelgakvvavsDss 65 
                              + +++T + + ++  e++k+++ + l+  +v + G+G    +a++ l  +g ++v+vsD s
  PHY93_12950|PHY93_12950  52 GSKKSTPFAAQTASLEAAKRASEHGLNSVEVRVKGPGAGRENAIRALLGAGIRIVSVSDRS 112
                              6677788888888889999988889999*******************************86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (125 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       555  (0.0309554); expected 358.6 (0.02)
Passed bias filter:                      475  (0.0264934); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 848.99
//
Query:       PHY93_12955|PHY93_12955  [L=125]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.8e-31  107.0   4.1    3.7e-29  101.7   4.1    2.0  1  Ribosomal_S13  Ribosomal protein S13/S18
     0.0015   19.1   0.0     0.0032   18.0   0.0    1.5  1  HHH_5          Helix-hairpin-helix domain
      0.003   16.4   0.0     0.0032   16.3   0.0    1.1  1  FbpA           Fibronectin-binding protein A N-terminus (FbpA
     0.0034   17.3   0.0     0.0051   16.8   0.0    1.2  1  H2TH           Formamidopyrimidine-DNA glycosylase H2TH domai


Domain annotation for each model (and alignments):
>> Ribosomal_S13  Ribosomal protein S13/S18
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  101.7   4.1   8.2e-33   3.7e-29       1     128 []       3     109 ..       3     109 .. 0.99

  Alignments for each domain:
  == domain 1  score: 101.7 bits;  conditional E-value: 8.2e-33
            Ribosomal_S13   1 RilgtdidgkkkveialtaikGiGrrkakiilkkadvdedkrigelteeeiekieeivenkaqykipnwinrqkdikdGkdshvve 86 
                              Rilg+di+++k ++ial++++G+G + a+ +l+k +++ +k  ++++eee+++i++++e+                      hvve
  PHY93_12955|PHY93_12955   3 RILGVDIPRNKAMRIALQSVYGVGPKVAMDVLTKSGISPEKSSNDISEEEVQTIRKYLEE---------------------GHVVE 67 
                              9**********************************************************9.....................7**** PP

            Ribosomal_S13  87 ndlrrklredieRlkkirsyrGlRHkrGlkvRGQrTkttgRt 128
                              +dlrr++  +i+Rlk++ +yrG+RH+r l+vRGQrT+t++Rt
  PHY93_12955|PHY93_12955  68 GDLRREIGLNIKRLKDMACYRGVRHRRSLPVRGQRTHTNART 109
                              *****************************************8 PP

>> HHH_5  Helix-hairpin-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.0   7.2e-07    0.0032       4      39 ..      19      58 ..      17      61 .. 0.89

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 7.2e-07
                             HHTSTT--HHHHHHHHTT.T--...SHHHHHHS-HHHHHT CS
                    HHH_5  4 LlsvsGiGpktAlallsa.Gie...svedlaaadveeLak 39
                             L+sv G+Gpk+A+ +l + Gi+   s  d+ +++v+++ k
  PHY93_12955|PHY93_12955 19 LQSVYGVGPKVAMDVLTKsGISpekSSNDISEEEVQTIRK 58
                             99****************8998777778***999999876 PP

>> FbpA  Fibronectin-binding protein A N-terminus (FbpA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0   7.1e-07    0.0032     188     237 ..      14      62 ..       4      95 .. 0.88

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 7.1e-07
                              XXHHHHHHHBTTXXHHHHHHHHTTXSSSH...............HHHHHH CS
                     FbpA 188 dlvkaLvkafqGlspllaeelleragldketsakelseedlerlyealqe 237
                               ++ aL++ + G++p +a ++l++ g+ +e+s +++see+++++++ l+e
  PHY93_12955|PHY93_12955  14 AMRIALQSVY-GVGPKVAMDVLTKSGISPEKSSNDISEEEVQTIRKYLEE 62 
                              4555777777.*********************************998875 PP

>> H2TH  Formamidopyrimidine-DNA glycosylase H2TH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   1.1e-06    0.0051      35      73 ..      21      59 ..      12      68 .. 0.90

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 1.1e-06
                             TSCS--HHHHHHHHHHTT--TTSBGGGS-HHHHHHHHHH CS
                     H2TH 35 lvaGlGNiyadEvLfrakihPerlakslskeelellhqe 73
                              v G+G   a +vL +++i+Pe++++ +s+ee++++ + 
  PHY93_12955|PHY93_12955 21 SVYGVGPKVAMDVLTKSGISPEKSSNDISEEEVQTIRKY 59
                             689*******************************99775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (125 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       652  (0.0363657); expected 358.6 (0.02)
Passed bias filter:                      556  (0.0310112); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.45
# Mc/sec: 838.85
//
Query:       PHY93_16965|PHY93_16965  [L=228]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (228 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       461  (0.0257125); expected 358.6 (0.02)
Passed bias filter:                      383  (0.021362); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1492.47
//
Query:       PHY93_12960|PHY93_12960  [L=36]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.6e-16   59.5  13.6    2.8e-16   59.4  13.6    1.0  1  Ribosomal_L36  Ribosomal protein L36


Domain annotation for each model (and alignments):
>> Ribosomal_L36  Ribosomal protein L36
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.4  13.6   1.5e-20   2.8e-16       1      36 [.       1      36 []       1      36 [] 1.00

  Alignments for each domain:
  == domain 1  score: 59.4 bits;  conditional E-value: 1.5e-20
            Ribosomal_L36  1 MKVrssvkkmcegCkvvrRkgrvyviCkknPrhKqR 36
                             MKVr+svk +c++Ckv++Rkg+++v+Ck+ P+hKqR
  PHY93_12960|PHY93_12960  1 MKVRASVKVICKDCKVIKRKGVLRVVCKSSPKHKQR 36
                             ***********************************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (36 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       594  (0.0331307); expected 358.6 (0.02)
Passed bias filter:                      259  (0.0144459); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.38u 0.26s 00:00:00.64 Elapsed: 00:00:00.42
# Mc/sec: 254.96
//
Query:       PHY93_12965|PHY93_12965  [L=70]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.8e-28   98.1   0.1      2e-28   98.0   0.1    1.0  1  eIF-1a         Translation initiation factor 1A / IF-1
  ------ inclusion threshold ------
      0.014   15.1   0.0      0.016   14.9   0.0    1.3  1  RsgA_N         RsgA N-terminal domain
      0.016   15.5   0.1      0.044   14.1   0.1    1.6  1  S1             S1 RNA binding domain
      0.024   14.8   0.1       0.24   11.6   0.0    2.4  2  CSD2           Cold shock domain
      0.074   13.0   0.1      0.091   12.7   0.1    1.3  1  Peptidase_S24  Peptidase S24-like
       0.15   11.8   0.2       0.39   10.4   0.0    1.8  3  OB_RNB         Ribonuclease B OB domain


Domain annotation for each model (and alignments):
>> eIF-1a  Translation initiation factor 1A / IF-1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   98.0   0.1   6.7e-32     2e-28       1      64 []       7      70 .]       7      70 .] 0.98

  Alignments for each domain:
  == domain 1  score: 98.0 bits;  conditional E-value: 6.7e-32
                             EEEEEEEEEEETTTEEEEEE.SSSSBEEEEE-HHHH.CT----TT-EEEEEE-TT-TTEEEEES- CS
                   eIF-1a  1 gevigkViealgnnlfrVelpdngkevlaeipgkfR.nkiwikrGdyVlVelspydltkGrIvyr 64
                             +ev+g V+e+l+n +frV+lp ng+ ++a+i+gk+R ++i+i++Gd+VlVe+s+ydltkGrI+yr
  PHY93_12965|PHY93_12965  7 IEVEGEVTELLPNTKFRVKLP-NGHIIIAHISGKMRmHFIKILPGDKVLVEISKYDLTKGRITYR 70
                             69******************9.9*****************************************8 PP

>> RsgA_N  RsgA N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.0   5.4e-06     0.016      12      48 ..      22      59 ..      10      67 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 5.4e-06
                   RsgA_N 12 YyVk.eegeiyecRaRGkFRkkkisplVGDrVefelee 48
                             + Vk ++g+i+ + + Gk R + i++l GD+V +e  +
  PHY93_12965|PHY93_12965 22 FRVKlPNGHIIIAHISGKMRMHFIKILPGDKVLVEISK 59
                             567668899**********************9988654 PP

>> S1  S1 RNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.1   1.5e-05     0.044       8      70 ..       9      67 ..       7      69 .. 0.83

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 1.5e-05
                             EEEEEEEEET.TEEEEEETTTEEEEEEGGGSSSSCEESCHHHCEETTEEEEEEEEEEETTTTEE CS
                       S1  8 veGeVtsvtk.gGafVelgngvegfvpaselsrdarvedpdevlkvGdevkvkvlkvdkdrrri 70
                             veGeVt++ +   ++V l ng+ +  ++s  +r         ++ +Gd+v v++ k d +++ri
  PHY93_12965|PHY93_12965  9 VEGEVTELLPnTKFRVKLPNGHIIIAHISGKMRM-----HFIKILPGDKVLVEISKYDLTKGRI 67
                             99*****99989*******666665555554444.....6889*******************98 PP

>> CSD2  Cold shock domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.0      0.24   7.1e+02      42      50 ..       9      17 ..       2      22 .. 0.76
   2 ?   11.6   0.0     8e-05      0.24      24      46 ..      48      67 ..      16      69 .. 0.80

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.24
                     CSD2 42 peGevievL 50
                             +eGev+e L
  PHY93_12965|PHY93_12965  9 VEGEVTELL 17
                             799999988 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 8e-05
                     CSD2 24 kdGdkVvveiteypdkknpeGev 46
                               GdkV+vei +y+  k   G++
  PHY93_12965|PHY93_12965 48 LPGDKVLVEISKYDLTK---GRI 67
                             57***********8433...666 PP

>> Peptidase_S24  Peptidase S24-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1     3e-05     0.091      14      60 ..       4      59 ..       1      69 [. 0.78

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 3e-05
                             TXEEEEECTS...........---TTSEEEEEETTCE-EEEEEEEEETTEEEEE.SST CS
            Peptidase_S24 14 GdlilVdkfs...........epkrGdivvfrlpgeeeayiKrviglpgdrvllasnn 60
                              d+i V+ ++           ++ +G+i+++++ g+     + ++ lpgd+vl++ ++
  PHY93_12965|PHY93_12965  4 KDIIEVEGEVtellpntkfrvKLPNGHIIIAHISGK--MRMHFIKILPGDKVLVEISK 59
                             666777755556666667778899************..799999999******98775 PP

>> OB_RNB  Ribonuclease B OB domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.1       2.4   7.2e+03      35      41 ..       4      10 ..       3      14 .. 0.66
   2 ?   -1.8   0.0      0.86   2.6e+03      34      45 ..      28      39 ..      25      44 .. 0.69
   3 ?   10.4   0.0   0.00013      0.39      31      46 ..      46      61 ..      40      68 .. 0.81

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 2.4
                             T-EEEEE CS
                   OB_RNB 35 GDrVlvr 41
                             +D+++v+
  PHY93_12965|PHY93_12965  4 KDIIEVE 10
                             6777665 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 0.86
                             TT-EEEEEEEES CS
                   OB_RNB 34 hGDrVlvritkg 45
                             +G +++++i+++
  PHY93_12965|PHY93_12965 28 NGHIIIAHISGK 39
                             566777877773 PP

  == domain 3  score: 10.4 bits;  conditional E-value: 0.00013
                             TS-TT-EEEEEEEESS CS
                   OB_RNB 31 kamhGDrVlvritkgd 46
                             k++ GD+Vlv+i+k+d
  PHY93_12965|PHY93_12965 46 KILPGDKVLVEISKYD 61
                             6788*********965 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (70 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       280  (0.0156172); expected 358.6 (0.02)
Passed bias filter:                      266  (0.0148363); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.42u 0.25s 00:00:00.67 Elapsed: 00:00:00.43
# Mc/sec: 489.71
//
Query:       PHY93_12970|PHY93_12970  [L=210]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-39  135.7   0.0    1.5e-39  135.5   0.0    1.0  1  ADK              Adenylate kinase
    6.7e-21   75.1   0.0    1.3e-20   74.2   0.0    1.4  1  AAA_17           AAA domain
    4.5e-11   42.5   3.1    8.2e-11   41.7   3.1    1.5  1  ADK_lid          Adenylate kinase, active site lid
    5.6e-05   23.7   0.0    8.9e-05   23.0   0.0    1.3  1  AAA_18           AAA domain
     0.0019   17.9   0.3       0.21   11.3   0.0    2.5  3  Thymidylate_kin  Thymidylate kinase
     0.0056   16.8   0.1      0.028   14.6   0.1    2.0  1  AAA_33           AAA domain
  ------ inclusion threshold ------
      0.077   13.0   0.1       0.12   12.4   0.1    1.4  1  HypA             Hydrogenase/urease nickel incorporation, met
       0.13   11.6   0.1        0.2   11.0   0.1    1.3  1  FtsK_SpoIIIE     FtsK/SpoIIIE family
       0.14   12.2   0.5       0.24   11.4   0.5    1.4  1  DZR              Double zinc ribbon
       0.15   12.1   1.4       0.58   10.3   0.0    2.5  2  FeoC             FeoC like transcriptional regulator


Domain annotation for each model (and alignments):
>> ADK  Adenylate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  135.5   0.0   8.6e-43   1.5e-39       1     150 [.       7     189 ..       7     190 .. 0.97

  Alignments for each domain:
  == domain 1  score: 135.5 bits;  conditional E-value: 8.6e-43
                              EEESTTSSHHHHHHHHHHHHTSEEEEHHHHHHHHHHCT-HHHHHHHHHHHTTSS--HHHHHHHHHHHHHCHGTTTEEEEESB-SSH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                      ADK   1 llGaPgaGKGtqaeklvkkyglahlstGdllRaevksgtelGkeakevmdkgelvpdevvvklvkeelekedkkkgfllDGfPRtv 86 
                              +lGaPg+GKGtqa+klv+k g++h+stGdllR+e+++g+elG++++ ++ +g+lv d+ v++l+k + + +  k  +++DGfPR++
  PHY93_12970|PHY93_12970   7 ILGAPGSGKGTQAAKLVEK-GFKHISTGDLLRSEIAKGSELGQKVSGIISRGDLVDDNTVMALLKANCDVD--KVSYIFDGFPRNI 89 
                              79***************98.89*********************************************9977..999********** PP

                              HHHHHHHHHHHHHTSEESEEEEEE--HHHHHHHHHT......................................GSHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......................................xxxxxxxxxxxx RF
                      ADK  87 eqaealeelleeekvkldlvleldvpeevlveRltg......................................DneetvkkRlet 134
                              +qae+le+  e  ++k +l ++++++  vl++R+++                                      D++e v++Rl+ 
  PHY93_12970|PHY93_12970  90 AQAEMLEA--ELLQKKKTLAVYFKIDLGVLINRVVNrrtcgscgeiynlttkpprvadvcdrcgsvgtikqrkdDTQEVVANRLKI 173
                              ********..55778888999***************************************************************** PP

                              HHHHHHHHHHHHHHTT CS
                              xxxxxxxxxxxxxxxx RF
                      ADK 135 ykkqtkplidyykkkg 150
                              + ++++p++ +y++kg
  PHY93_12970|PHY93_12970 174 FADTVEPMLAFYRSKG 189
                              ************9986 PP

>> AAA_17  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.2   0.0     7e-24   1.3e-20       1     124 [.       8     126 ..       8     135 .. 0.85

  Alignments for each domain:
  == domain 1  score: 74.2 bits;  conditional E-value: 7e-24
                              EE-TTSSHHHHHHHHHHHHTEEEEEHHHHHHHHHHTT.TS.HSSHHHHCTSHHHHHHHHHHHHHHHHHHHHHSSEEEEEE-SEEEE CS
                   AAA_17   1 lGgPGsGKgtqceklvekygfthlsaGdllreeakrg.gl.akardemrklpleekkelqkeaaekiaeeakkkgvlvdghprike 84 
                              lG PGsGKgtq++klvek gf+h+s+Gdllr+e+++g +l +k  + +++++l++++ +++++++++  +  k  +++dg+pr+ +
  PHY93_12970|PHY93_12970   8 LGAPGSGKGTQAAKLVEK-GFKHISTGDLLRSEIAKGsELgQKVSGIISRGDLVDDNTVMALLKANCDVD--KVSYIFDGFPRNIA 90 
                              7***************99.************999888567344456666999999999999999888774..788*********** PP

                              TTEEEESSHHHHHHHH..SEEEEEE--HHHHHHHHHHHTT CS
                   AAA_17  85 qagfldglpkevleelkpdaiilleadpeeilerrlkdrt 124
                              qa++l   ++e l++ k ++ +++++d  ++++r+ ++rt
  PHY93_12970|PHY93_12970  91 QAEML---EAELLQK-KKTLAVYFKIDLGVLINRVVNRRT 126
                              99986...4566666.46899****************998 PP

>> ADK_lid  Adenylate kinase, active site lid
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.7   3.1   4.6e-14   8.2e-11       1      36 []     124     161 ..     124     161 .. 0.96

  Alignments for each domain:
  == domain 1  score: 41.7 bits;  conditional E-value: 4.6e-14
                              EEE-TTT--EEETTTB--SSTTB-TTT--...-B--GG CS
                  ADK_lid   1 RrvCpkCGrsYhvvfnpPkveglCDkCGe..pLvqRsD 36 
                              Rr+C +CG++Y+++++pP+v  +CD CG+  +  qR+D
  PHY93_12970|PHY93_12970 124 RRTCGSCGEIYNLTTKPPRVADVCDRCGSvgTIKQRKD 161
                              9***********999*************9888999999 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.0   0.0     5e-08   8.9e-05       2     114 ..       6     125 ..       5     129 .. 0.74

  Alignments for each domain:
  == domain 1  score: 23.0 bits;  conditional E-value: 5e-08
                   AAA_18   2 lltGtpGvGKttlakeLskrlgf.....gvnlrdvake.nglllevdpealdeskrldedkldklldaleenssaleegknlvidg 81 
                              ++ G+pG+GK t a  L ++ gf     g+ lr+ +++ ++l   v    +++ + +d++    ++ +l++n++   +  ++++dg
  PHY93_12970|PHY93_12970   6 IILGAPGSGKGTQAAKLVEK-GFkhistGDLLRSEIAKgSELGQKVSG-IISRGDLVDDNT---VMALLKANCD--VDKVSYIFDG 84 
                              799*****************.688566644444444330333333333.356666666666...7777777765..556888**** PP

                   AAA_18  82 hlaeleseaakdikk........vvLtaspeelleRlekRg 114
                              ++ +  ++++ ++          v+ + +  +l+ R+ +R+
  PHY93_12970|PHY93_12970  85 FPRNIAQAEMLEAELlqkkktlaVYFKIDLGVLINRVVNRR 125
                              ***99999999988899999999999999999999999997 PP

>> Thymidylate_kin  Thymidylate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.3   0.0   0.00011      0.21       3      64 ..       9      72 ..       7      83 .. 0.80
   2 ?   -2.0   0.0       1.4   2.5e+03     116     138 ..     101     124 ..      78     127 .. 0.55
   3 ?    4.2   0.0     0.017        31     138     183 ..     160     205 ..     152     207 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00011
                             ESTTSSHHHHHHHHHHH.HHHTTE..EEEESSSTTSHHHHHHHHHHHTCS---HHHHHHHHHHH CS
          Thymidylate_kin  3 GlDGaGKttqaellker.lkeegik.vvltrepggteiGekirelllkeeeleeqteallfaad 64
                             G  G+GK tqa++l+e+ +k       +++   +g+e+G+k+ +++++   +++ t+  l+ a+
  PHY93_12970|PHY93_12970  9 GAPGSGKGTQAAKLVEKgFKHISTGdLLRSEIAKGSELGQKVSGIISRGDLVDDNTVMALLKAN 72
                             667********99999835555555667777789*************99999999976666665 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 1.4
                              S.E-SEEEEEESSHHHHHTSCCTT CS
          Thymidylate_kin 116 l.kPdltflldvdpevalkRlakr 138
                                k  l +++++d  v ++R+  r
  PHY93_12970|PHY93_12970 101 QkKKTLAVYFKIDLGVLINRVVNR 124
                              234445566666666666666655 PP

  == domain 3  score: 4.2 bits;  conditional E-value: 0.017
                              TSSTTTSHHHHHHHHHHHHHHHHHHHHTTSTEEEEETTS-HHHHHH CS
          Thymidylate_kin 138 rdeldeeeeeqldflrkvrerylelakederiliidasksieevhe 183
                              +d  +e ++ +l+++  + e +l+ +++++ ++ idas + + v +
  PHY93_12970|PHY93_12970 160 KDDTQEVVANRLKIFADTVEPMLAFYRSKGALVEIDASMQEKVVFS 205
                              3334678999****************************99998865 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.6   0.1   1.5e-05     0.028       3     118 ..       6     124 ..       5     131 .. 0.55

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 1.5e-05
                   AAA_33   3 llvGlpGsGKstlaerllkklgavllssdtlrr.rlfg..tdqqsktdytrvldrlyq.ilnelar.kalsagrnvildatnlsrr 83 
                              ++ G+pGsGK t a +l+ + g+ ++s+ +l+r  +++  +  q+ +  +   d + + ++ +l++  +   + ++i+d ++ ++ 
  PHY93_12970|PHY93_12970   6 IILGAPGSGKGTQAAKLV-EKGFKHISTGDLLRsEIAKgsELGQKVSGIISRGDLVDDnTVMALLKaNCDVDKVSYIFD-GFPRNI 89 
                              678***************.779999999887764555544333333322332222222111122220233445555555.344444 PP

                   AAA_33  84 erarflklarrlgvpvrivvvetdeetlkeRlakR 118
                              ++a++l++   ++ + ++v+++ d  +l  R+  R
  PHY93_12970|PHY93_12970  90 AQAEMLEAELLQKKKTLAVYFKIDLGVLINRVVNR 124
                              44455444333344566666666666666666666 PP

>> HypA  Hydrogenase/urease nickel incorporation, metallochaperone, hypA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   6.5e-05      0.12      63      96 ..     107     154 ..      68     168 .. 0.72

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 6.5e-05
                              E..........EEEE--EEEETTTS-EEECHH...H.HHS-TTTSSS- CS
                     HypA  63 e..........ieevpvkvrCreCgkefelee...k.alrCpkCgsad 96 
                              +          i++v  + +C +Cg+ ++l++   + a  C +Cgs +
  PHY93_12970|PHY93_12970 107 AvyfkidlgvlINRVVNRRTCGSCGEIYNLTTkppRvADVCDRCGSVG 154
                              1333344556688999999**********77644436569*****975 PP

>> FtsK_SpoIIIE  FtsK/SpoIIIE family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.1   0.00011       0.2      40      55 ..       3      18 ..       1      24 [. 0.83

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00011
                             .SEEEE--TTSSHHHH CS
             FtsK_SpoIIIE 40 shllvaGatgsGKSta 55
                             +hl+++Ga+gsGK t 
  PHY93_12970|PHY93_12970  3 PHLIILGAPGSGKGTQ 18
                             5************886 PP

>> DZR  Double zinc ribbon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.5   0.00014      0.24      12      39 ..     124     155 ..     119     160 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00014
                      DZR  12 arfCseCgtklkavaa....edrCpsCgekvd 39 
                               r+C+ Cg+  + +++    +d+C++Cg+  +
  PHY93_12970|PHY93_12970 124 RRTCGSCGEIYNLTTKpprvADVCDRCGSVGT 155
                              689*****9976555577899******99755 PP

>> FeoC  FeoC like transcriptional regulator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   1.6       1.6   2.9e+03      46      61 ..     135     151 ..     119     157 .. 0.55
   2 ?   10.3   0.0   0.00032      0.58      20      49 ..     167     196 ..     154     202 .. 0.82

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 1.6
                     FeoC  46 kvaatacc.sgsCkkCg 61 
                              +++++ +  ++ C +Cg
  PHY93_12970|PHY93_12970 135 NLTTKPPRvADVCDRCG 151
                              33333333455566665 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 0.00032
                     FeoC  20 LsrhfkaspealeamLeqwvrkGrvekvaa 49 
                               + ++k+ ++++e+mL++   kG + + +a
  PHY93_12970|PHY93_12970 167 VANRLKIFADTVEPMLAFYRSKGALVEIDA 196
                              68999******************9987665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (210 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       750  (0.0418317); expected 358.6 (0.02)
Passed bias filter:                      651  (0.0363099); expected 358.6 (0.02)
Passed Vit filter:                        85  (0.00474092); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.53u 0.30s 00:00:00.83 Elapsed: 00:00:00.48
# Mc/sec: 1313.92
//
Query:       PHY93_12975|PHY93_12975  [L=435]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.5e-93  312.2  14.2    4.3e-93  311.9  14.2    1.1  1  SecY      SecY translocase
     0.0083   15.6   0.7     0.0083   15.6   0.7    2.5  3  SieB      Super-infection exclusion protein B
  ------ inclusion threshold ------
       0.02   15.2   0.1        1.4    9.3   0.0    2.7  2  YWFCY     YWFCY protein


Domain annotation for each model (and alignments):
>> SecY  SecY translocase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  311.9  14.2   7.2e-97   4.3e-93       1     306 []      69     408 ..      69     408 .. 0.93

  Alignments for each domain:
  == domain 1  score: 311.9 bits;  conditional E-value: 7.2e-97
                              BTTSSTCHHHHHHHHHHHHHHHHSSSSSSTS-SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC................HH.HH CS
                     SecY   1 sifaLGImPyitasIilqLltvvipkleelkkegeegrkkinqitryltvvlalvqalgialslg................lalll 70 
                              s++aLGImPyit sIi+ Ll+ v+p+++e++ e+ eg kki+++try++v+l++vq++g+a+ ++                l+ ++
  PHY93_12975|PHY93_12975  69 SVLALGIMPYITTSIIFSLLGEVVPQIQEMQ-EDSEGYKKIQKWTRYASVLLCCVQGYGMAAVFEsfksptgvpvindpglLFRIT 153
                              89******************888********.7788***********************997778899*************889** PP

                              HHHHHHHHHHHHHHHHHHHHHHSSTTHHHHHHHHHHHHHHCCHSS-HHHHSS.....THHHHHHHHHHHHHHHHHCHHHHBEEEEC CS
                     SecY  71 ivlqltagtvllmwLgEqitekGiGnGisllifagivarlpkalsglielale...gilallllllvtllvillvvyveeaerrip 153
                              ++++l  gt++l+wLgE+ite G+ nG+sl+if+gi+ +lp++l + i+l+++   + ++l++ ll+++l +++v ++e++ r+ip
  PHY93_12975|PHY93_12975 154 TMITLAGGTMFLLWLGERITEFGLENGVSLIIFTGIAVELPSELFQKITLFRNgelSGFSLFVGLLIICLSLYIVSFIESSFRNIP 239
                              *****************************************8888856665556675589999999999***************** PP

                              BBBSTT.......S.S-EEEEETTCCCSCHHHHHHHHHHHHHCCCCS..............TCCCS....THHHHHHHHHHHHHHH CS
                     SecY 154 vqyakr..grk.ggqssylPlklnyagviPiIfassllalpstiaqfl.............lalls....psvlyvvlyvlliifF 219
                              vqyak+  ++k  g  ++lPl+l + gv+P I+asslla p+tia+f+                 +    +++l ++l+++lii +
  PHY93_12975|PHY93_12975 240 VQYAKKvvNNKvYGGAQNLPLRLDTGGVMPPILASSLLAAPATIANFVpktsalkpfvdviH---QslmpGQMLFNLLFAFLIIYM 322
                              ****999777798889********************************99988887755552...144558899************ PP

                              HHHHHTCTTHHHHHHHCCHHTBSSSCTTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS.TT.TTHHHHHHHHHHHHHH CS
                     SecY 220 ayfyteitfnpkevaenlkksggfipgirpgketakyLekvlsritliGalflaliavlpdllgasligafggtslLivVgvalet 305
                              ++fy+ i+f++k+vae l+k+++fipgirpg +t++yL+ vl+r+t++Galfl+++++lp++++ s    f gtslLi+V+va+++
  PHY93_12975|PHY93_12975 323 SFFYAPIQFKTKKVAEMLQKNNAFIPGIRPGAKTQDYLDFVLNRVTFFGALFLIVVCILPSVITGS-HSRFEGTSLLIMVSVAMRV 407
                              ****************************************************************94.3589************987 PP

                              H CS
                     SecY 306 v 306
                              +
  PHY93_12975|PHY93_12975 408 M 408
                              5 PP

>> SieB  Super-infection exclusion protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0      0.34     2e+03      45      86 ..      78     119 ..      69     121 .. 0.74
   2 !   15.6   0.7   1.4e-06    0.0083       4      70 ..     183     250 ..     181     258 .. 0.89
   3 ?   -3.5   0.5       1.1   6.4e+03      33      46 ..     368     381 ..     360     385 .. 0.78

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 0.34
                     SieB  45 yllaqvvskllaeikekikkkreqkkvekklknLteeekavL 86 
                              y+ ++++++ll+e+  +i++ +e  +  kk+++ t+  + +L
  PHY93_12975|PHY93_12975  78 YITTSIIFSLLGEVVPQIQEMQEDSEGYKKIQKWTRYASVLL 119
                              667778888888888888888888888888887777766666 PP

  == domain 2  score: 15.6 bits;  conditional E-value: 1.4e-06
                     SieB   4 LiiasglllllPdslleklnlgkfleeyglwiglvflis.iayllaqvvskllaeikekikkkreqkk 70 
                              Lii++g+ + lP +l++k+ l    e  g+ +++++li+ +++ +++++ + +  i  +++kk  ++k
  PHY93_12975|PHY93_12975 183 LIIFTGIAVELPSELFQKITLFRNGELSGFSLFVGLLIIcLSLYIVSFIESSFRNIPVQYAKKVVNNK 250
                              9*********************************9887659********9999999999998766655 PP

  == domain 3  score: -3.5 bits;  conditional E-value: 1.1
                     SieB  33 lwiglvflisiayl 46 
                               ++g  fli++++l
  PHY93_12975|PHY93_12975 368 TFFGALFLIVVCIL 381
                              68899999999986 PP

>> YWFCY  YWFCY protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.3   0.0   0.00023       1.4       3      31 ..      99     127 ..      97     137 .. 0.88
   2 ?    2.5   0.2      0.03   1.8e+02      15      52 ..     212     249 ..     211     251 .. 0.90

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.00023
                    YWFCY   3 eedlraLrKIlDftRliSilllvihfYwy 31 
                               ed ++ +KI   tR++S+ll +++ Y +
  PHY93_12975|PHY93_12975  99 QEDSEGYKKIQKWTRYASVLLCCVQGYGM 127
                              599**********************9965 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.03
                    YWFCY  15 ftRliSilllvihfYwyCyeafeewgltaevvdrilsn 52 
                              f  ++ +l++++ +Y++ +   +  ++ +++++++++n
  PHY93_12975|PHY93_12975 212 FSLFVGLLIICLSLYIVSFIESSFRNIPVQYAKKVVNN 249
                              5667899************9999999999999999987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (435 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       603  (0.0336327); expected 358.6 (0.02)
Passed bias filter:                      323  (0.0180155); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.57u 0.25s 00:00:00.82 Elapsed: 00:00:00.46
# Mc/sec: 2851.24
//
Query:       PHY93_12980|PHY93_12980  [L=148]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.4e-24   85.9   1.7    4.4e-24   85.6   1.7    1.1  1  Ribosomal_L27A  Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27


Domain annotation for each model (and alignments):
>> Ribosomal_L27A  Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.6   1.7   2.5e-28   4.4e-24       1     124 [.      28     147 ..      28     148 .] 0.92

  Alignments for each domain:
  == domain 1  score: 85.6 bits;  conditional E-value: 2.5e-28
                              GGGGTSSTTTTTTTTT-S--......S--.........---GGG..---EEEEHHHHHHTTTTGTTS------EEEGGGTTTTSSS CS
           Ribosomal_L27A   1 kGktgGrGhkGqkkrsgvkkkpgfeGGqmplyrrlpkrGfknskfkkeykvvnlkdLdelideerleladeaeeidleelaeagli 86 
                              +G ++G+GhkGqk+r+ + ++ gfeG + ply+rlpkrGf+n++f++ y+vv l++++      ++   +++e+++ e+l+ +gl+
  PHY93_12980|PHY93_12980  28 QGTQAGKGHKGQKARKSGHVRSGFEGNNLPLYMRLPKRGFNNTRFAEAYAVVTLENIE-----MKF---NKSETVNRETLIVKGLL 105
                              599*******************************************************.....566...45699******999999 PP

                              .......SEEEE--S---.--EEE.ESEE-HHHHHHHHHTT- CS
           Ribosomal_L27A  87 kk...kdgvKvlgkgeltkklkvk.askfSkkAkekIeaaGG 124
                              ++   + ++Kv+g   ltk l+++ +skfSkkA e I++  G
  PHY93_12980|PHY93_12980 106 SGankSLKIKVIGCIPLTKTLNFEeVSKFSKKALESIKNSSG 147
                              889856677**************549************9888 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (148 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       411  (0.0229238); expected 358.6 (0.02)
Passed bias filter:                      285  (0.015896); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.26s 00:00:00.74 Elapsed: 00:00:00.46
# Mc/sec: 972.16
//
Query:       PHY93_12985|PHY93_12985  [L=60]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.1e-17   61.2   1.0    6.8e-17   61.1   1.0    1.0  1  Ribosomal_L30  Ribosomal protein L30p/L7e


Domain annotation for each model (and alignments):
>> Ribosomal_L30  Ribosomal protein L30p/L7e
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.1   1.0   3.8e-21   6.8e-17       2      50 ..       9      57 ..       8      58 .. 0.96

  Alignments for each domain:
  == domain 1  score: 61.1 bits;  conditional E-value: 3.8e-21
                             EEEE-S-STTS-HHHHHHHHHTT-SSTTEEEE--SSHHHHHHHHHCCCG CS
            Ribosomal_L30  2 fVtrirsiigvppkvrktLqlLgLrkingtvvklntpsirGmLkkVkhl 50
                              V++++s +g+++kv++ +++LgLrki+++ +++ntps+rGm+kk+ h+
  PHY93_12985|PHY93_12985  9 TVKLVKSMNGTTEKVKANVRGLGLRKIGQSSELENTPSVRGMIKKILHM 57
                             69********************************************886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (60 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       415  (0.0231469); expected 358.6 (0.02)
Passed bias filter:                      287  (0.0160076); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.43
# Mc/sec: 418.28
//
Query:       PHY93_12990|PHY93_12990  [L=156]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.2e-31  107.1   3.7    6.7e-31  106.1   2.3    2.0  2  Ribosomal_S5    Ribosomal protein S5, N-terminal domain
    4.5e-28   96.5   0.3    7.9e-28   95.7   0.1    1.5  2  Ribosomal_S5_C  Ribosomal protein S5, C-terminal domain


Domain annotation for each model (and alignments):
>> Ribosomal_S5  Ribosomal protein S5, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  106.1   2.3   7.5e-35   6.7e-31       1      65 []       1      65 [.       1      65 [. 0.99
   2 ?    0.1   0.0      0.09   8.1e+02      50      65 .]     126     141 ..     121     141 .. 0.85

  Alignments for each domain:
  == domain 1  score: 106.1 bits;  conditional E-value: 7.5e-35
                             XEEEEEEEEEEEEEETTEEEEEEEEEEEEEETTTEEEEEEEEESSHHHHHHHHHHHHHHTEEE-- CS
             Ribosomal_S5  1 lkekvlkikrvqkvtkgGrrtsfsalvvvGdgnGlvGlGvgkakevatAirkAiekAkknlvpvp 65
                             l+e+v++++rv+kv+kgGrr+sfsal++vGd++G+vG+G+gkakev++AirkA++ A kn++ vp
  PHY93_12990|PHY93_12990  1 LEERVVAVNRVAKVVKGGRRFSFSALMIVGDKKGKVGYGLGKAKEVPEAIRKATQEAYKNMITVP 65
                             79*************************************************************97 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.09
                              HHHHHHHHHHTEEE-- CS
             Ribosomal_S5  50 irkAiekAkknlvpvp 65 
                              i kA+ kA + l +v+
  PHY93_12990|PHY93_12990 126 IVKATFKALRELRSVE 141
                              789999**99999885 PP

>> Ribosomal_S5_C  Ribosomal protein S5, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0      0.69   6.2e+03      53      62 ..      52      61 ..      46      64 .. 0.71
   2 !   95.7   0.1   8.8e-32   7.9e-28       2      72 .]      77     147 ..      76     147 .. 0.98

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 0.69
                             HHHHHHHHHT CS
           Ribosomal_S5_C 53 kAtfeALkkl 62
                             kAt eA k++
  PHY93_12990|PHY93_12990 52 KATQEAYKNM 61
                             7888887776 PP

  == domain 2  score: 95.7 bits;  conditional E-value: 8.8e-32
                              EEETTEEEEEEE--TT--EES-HHHHHHHHHHT--SEE---BS-SSHHHHHHHHHHHHHHTTTT-.-GGGG CS
           Ribosomal_S5_C   2 gkfgavkvllkpaprGtGiiaggavravlelaGikDvlakslgsrnpinvvkAtfeALkklrspeevaalR 72 
                              g+f+a+k+l kpa+ GtG+ a+ga r++lelaG++++l+ksl+ +np+n+vkAtf+AL++lrs+e++aa+R
  PHY93_12990|PHY93_12990  77 GEFDAGKILFKPASNGTGVKAAGACRSILELAGVHNILTKSLRGNNPHNIVKATFKALRELRSVEQIAASR 147
                              89******************************************************************998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (156 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       449  (0.0250432); expected 358.6 (0.02)
Passed bias filter:                      398  (0.0221987); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 1058.80
//
Query:       PHY93_12995|PHY93_12995  [L=122]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      1e-32  112.9   1.9    1.2e-32  112.7   1.9    1.0  1  Ribosomal_L18p  Ribosomal L18 of archaea, bacteria, mitoch. a


Domain annotation for each model (and alignments):
>> Ribosomal_L18p  Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  112.7   1.9   6.9e-37   1.2e-32       2     114 ..      11     122 .]      10     122 .] 0.97

  Alignments for each domain:
  == domain 1  score: 112.7 bits;  conditional E-value: 6.9e-37
                              -CCHHHCHHHHHHTTT--TTSSS-EEEEEE-SS-EEEEEE-TTT--EEEEECS-SCCCTS-SSSCHHHHHHHHHHHHHHHCHHCHT CS
           Ribosomal_L18p   2 kkkearkrRhkRirkklsgtaerprlvvfrsnrhiyaQviddvkgktlasastlekelklkstknkeaakkvgeliAerakekgie 87 
                              kk ++r++R++ ir+k+sgt+erpr++ ++sn+hi++Q+idd+k+  l ++st  k+     + n e akkvg+++A   k+k+++
  PHY93_12995|PHY93_12995  11 KKDQRRQKRRLSIRNKISGTTERPRICAMKSNKHISVQLIDDTKSVSLFTVSTFGKDAA-ADSCNVEGAKKVGAKVATIMKQKNLN 95 
                              68999*****************************************************9.78899********************* PP

                              C-EE--TTSSS-CHHHHHHHHHHCTSS CS
           Ribosomal_L18p  88 kvvfDrggykYhGrvaalAdaaReaGl 114
                               +vfDr gykY G++aal +++Re G+
  PHY93_12995|PHY93_12995  96 CAVFDRAGYKYTGVIAALVQSIRESGI 122
                              *************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (122 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       887  (0.0494729); expected 358.6 (0.02)
Passed bias filter:                      469  (0.0261587); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.28s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 831.70
//
Query:       PHY93_13000|PHY93_13000  [L=178]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.9e-32  110.4   8.2    1.9e-16   60.5   0.1    2.1  2  Ribosomal_L6  Ribosomal protein L6
  ------ inclusion threshold ------
        0.1   12.7   0.2          4    7.6   0.1    2.5  2  RuvA_N        RuvA N terminal domain
        0.2   12.6   1.6        1.4    9.9   0.7    2.3  2  Pilin         Pilin (bacterial filament)


Domain annotation for each model (and alignments):
>> Ribosomal_L6  Ribosomal protein L6
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.6   3.8     9e-18   5.4e-14       1      76 []      11      82 ..      11      82 .. 0.95
   2 !   60.5   0.1   3.2e-20   1.9e-16       2      75 ..      91     163 ..      90     164 .. 0.98

  Alignments for each domain:
  == domain 1  score: 52.6 bits;  conditional E-value: 9e-18
                             CSTTEEEEEETTTEEEEEESSEEEEEE-CTTSEEEEEECSTEEEEEECSESCHHHHHHHHHHHHHHHHHHHHHHTC CS
             Ribosomal_L6  1 iPvgvrvsikggqlvlvlGpkgeltreipegvtvevkvegnkvtvivvsgidkekvAligtvrslinnmikGVteg 76
                             iP++v+vsi +  lv v+G kg+lt++++++v  e  + gn ++v + +++  +++ ++gt+r+ +nnm++GV+ g
  PHY93_13000|PHY93_13000 11 IPEKVEVSITN-GLVVVKGVKGTLTAKLNSNVVAE--MSGNIINVKPKDDSTVARA-QWGTARTQVNNMVVGVSTG 82
                             8*********5.*******************9999..559***************9.****************987 PP

  == domain 2  score: 60.5 bits;  conditional E-value: 3.2e-20
                              STTEEEEEETTTEEEEEESSEEEEEE-CTTSEEEEEECSTEEEEEECSESCHHHH....HHHHHHHHHHHHHHHHHHT CS
             Ribosomal_L6   2 PvgvrvsikggqlvlvlGpkgeltreipegvtvevkvegnkvtvivvsgidkekv....AligtvrslinnmikGVte 75 
                              +vg+++ + g+ l+l+lG+++++ + +p g+t +v      ++vi ++g++ke v    A+++++r ++++++kG+++
  PHY93_13000|PHY93_13000  91 GVGYKAAVAGSTLNLSLGYSHTIDYVLPAGITAKVN-----KNVIDIEGSNKELVgqvaAKVRSFREPEPYKGKGIRY 163
                              89********************************99.....9**********************************98 PP

>> RuvA_N  RuvA N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   0.0     0.018   1.1e+02       5      28 ..      29      52 ..      26      73 .. 0.82
   2 ?    7.6   0.1   0.00067         4      19      36 ..      87     104 ..      75     133 .. 0.84

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.018
                             EEEEEEEESSCEEEEEETTEEEEE CS
                   RuvA_N  5 lkGkvvekepdsivvevggvGYev 28
                             +kG++++k ++++v e +g    v
  PHY93_13000|PHY93_13000 29 VKGTLTAKLNSNVVAEMSGNIINV 52
                             79******9999*99998865555 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.00067
                              EEETTEEEEEEE-HHHHC CS
                   RuvA_N  19 vevggvGYevfvplstls 36 
                              +e +gvGY+  v  stl+
  PHY93_13000|PHY93_13000  87 LEFNGVGYKAAVAGSTLN 104
                              899**********99985 PP

>> Pilin  Pilin (bacterial filament)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.7   0.00023       1.4      55      86 ..      19      60 ..       4     110 .. 0.78
   2 ?    2.0   0.1     0.064   3.8e+02      37      52 ..     119     133 ..      61     170 .. 0.51

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00023
                             CEEC........CEEEEEECCCSSTCCTTEEEEEEEECT..T CS
                    Pilin 55 aatg........gtitatfggnaaakikgktltltrtad..s 86
                              ++g        gt+ta++++n +a+++g+ + +++++d   
  PHY93_13000|PHY93_13000 19 ITNGlvvvkgvkGTLTAKLNSNVVAEMSGNIINVKPKDDstV 60
                             333344666666************************988442 PP

  == domain 2  score: 2.0 bits;  conditional E-value: 0.064
                              TTBSTCSCCTCEEEEE CS
                    Pilin  37 iGlasstaicgvisvt 52 
                              +G++++ ++ +vi+++
  PHY93_13000|PHY93_13000 119 AGITAKVNK-NVIDIE 133
                              333333332.234433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (178 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       400  (0.0223102); expected 358.6 (0.02)
Passed bias filter:                      269  (0.0150036); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.27s 00:00:00.76 Elapsed: 00:00:00.47
# Mc/sec: 1148.45
//
Query:       PHY93_13005|PHY93_13005  [L=125]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.9e-40  137.7   0.1    2.1e-40  137.6   0.1    1.0  1  Ribosomal_S8  Ribosomal protein S8


Domain annotation for each model (and alignments):
>> Ribosomal_S8  Ribosomal protein S8
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  137.6   0.1   1.2e-44   2.1e-40       1     124 [.       4     124 ..       4     125 .] 0.96

  Alignments for each domain:
  == domain 1  score: 137.6 bits;  conditional E-value: 1.2e-44
                              -HHHHHHHHHHHHHHTT-SEEEEE--HHHHHHHHHHHHCTSEEEEEEECCCCCCEEEEE-BSSS-SBSSSEEEE-SBTTC--EE-C CS
             Ribosomal_S8   1 DpiadmltrirNaekakkeevevpasklkeeilkvLkeeGyikdfeveeekkkkikielkynkkkksvikklkrvskpgrrvYakv 86 
                              Dpi++mlt irN+ +a++e+ve+pask++++i+kvLk+eG+ik+f+++ ++ + iki++  ++   +++ +l+rvs+pg+r Y ++
  PHY93_13005|PHY93_13005   4 DPISNMLTVIRNGVSAGHEKVEFPASKIQAAICKVLKDEGFIKSFKIVAKAPNDIKIKVALKE---GALVGLSRVSRPGLRRYNGY 86 
                              9**********************************************8777888999888877...89****************** PP

                              CC---CGGGTSEEEEEETTEEEEHHHHHHCT--EEEEE CS
             Ribosomal_S8  87 kelpkvlnglGiaivsTskGvmtdkeArkkkvGGevla 124
                              ++  +v++glG+ ivsTskGvm+ +eA+k+kvGGevl+
  PHY93_13005|PHY93_13005  87 DSFARVMSGLGVSIVSTSKGVMSSREAKKNKVGGEVLC 124
                              *************************************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (125 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       424  (0.0236488); expected 358.6 (0.02)
Passed bias filter:                      368  (0.0205254); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.25s 00:00:00.73 Elapsed: 00:00:00.46
# Mc/sec: 819.42
//
Query:       PHY93_05265|PHY93_05265  [L=156]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.13   12.3   1.6         13    5.9   0.1    2.2  2  SH3_14    Dda helicase SH3 domain


Domain annotation for each model (and alignments):
>> SH3_14  Dda helicase SH3 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.9   0.1    0.0007        13      95     122 ..      27      55 ..      17      67 .. 0.80
   2 ?    5.7   0.2   0.00082        15      81     113 ..      75     107 ..      63     113 .. 0.88

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.0007
                              HHHHHHHH.HHHS--SSSS--THHHHHHH CS
                   SH3_14  95 lflakaae.tykslrkgtkaywsdfwdlk 122
                               f++ +a+  y s+ k+t   wsdf   k
  PHY93_05265|PHY93_05265  27 NFISLSAGkNYLSFPKNTNIEWSDFCYDK 55 
                              5777776537***************6443 PP

  == domain 2  score: 5.7 bits;  conditional E-value: 0.00082
                              EEE--SHHHHHHHHHHHHHHHHHHHS--SSSS- CS
                   SH3_14  81 ikvlsddeekekfalflakaaetykslrkgtka 113
                              ikv+sd  e++kf+ +     e  ks   + k+
  PHY93_05265|PHY93_05265  75 IKVVSDKIERKKFKNYCKEVFELSKSTDTNLKN 107
                              89***************9999999999988876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (156 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       885  (0.0493614); expected 358.6 (0.02)
Passed bias filter:                      513  (0.0286129); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.43
# Mc/sec: 1077.24
//
Query:       PHY93_16970|PHY93_16970  [L=162]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (162 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       836  (0.0466284); expected 358.6 (0.02)
Passed bias filter:                      429  (0.0239277); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 1091.19
//
Query:       PHY93_13010|PHY93_13010  [L=59]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.3e-20   71.6   3.2    3.7e-20   71.4   3.2    1.1  1  Ribosomal_S14  Ribosomal protein S14p/S29e


Domain annotation for each model (and alignments):
>> Ribosomal_S14  Ribosomal protein S14p/S29e
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   71.4   3.2     2e-24   3.7e-20       4      53 ..      12      59 .]       9      59 .] 0.96

  Alignments for each domain:
  == domain 1  score: 71.4 bits;  conditional E-value: 2e-24
                             ----SS..CTTT---SSS--SSSEE-GGG-EHHHHHHHTTT...TT-EE- CS
            Ribosomal_S14  4 klprnssptrirnrCrvtGrprGvirkfgLsRicfRelAlkgelpGvkKa 53
                             k p++   +r rnrC+ +Grpr++ir f+L+R+cfR+l lkg +pGv+K+
  PHY93_13010|PHY93_13010 12 KKPKFL--VRHRNRCEHCGRPRAFIRMFKLCRVCFRNLSLKGMVPGVTKS 59
                             789999..*****************************************7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (59 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       551  (0.0307323); expected 358.6 (0.02)
Passed bias filter:                      329  (0.0183502); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.25s 00:00:00.65 Elapsed: 00:00:00.42
# Mc/sec: 418.73
//
Query:       PHY93_13015|PHY93_13015  [L=177]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    8.3e-39  131.7   0.0    1.5e-38  130.9   0.0    1.4  1  Ribosomal_L5_C  ribosomal L5P family C-terminus
    2.5e-22   79.0   1.3    3.9e-22   78.3   1.3    1.3  1  Ribosomal_L5    Ribosomal protein L5


Domain annotation for each model (and alignments):
>> Ribosomal_L5_C  ribosomal L5P family C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  130.9   0.0   1.7e-42   1.5e-38       1      94 []      84     177 .]      84     177 .] 0.99

  Alignments for each domain:
  == domain 1  score: 130.9 bits;  conditional E-value: 1.7e-42
           Ribosomal_L5_C   1 piGvkvtLrgekmyefldkllevvlprlrdFkGiskssfdgrGnvsfGikeqiifpeieydkdkgifGmditivttaktdeearal 86 
                              p+G++vtLrgekmyefld+l+++ lpr+rdF+G+s++ fdg+Gn+++G+keqi+fpei+ydk+++i+G+ i+ivtta+t++e r+l
  PHY93_13015|PHY93_13015  84 PLGASVTLRGEKMYEFLDRLISISLPRVRDFRGVSSKGFDGKGNYTLGLKEQIMFPEINYDKIDKIRGLGISIVTTAETNDEGREL 169
                              78************************************************************************************ PP

           Ribosomal_L5_C  87 lkelgipf 94 
                              l+ +g+pf
  PHY93_13015|PHY93_13015 170 LTLIGMPF 177
                              *******9 PP

>> Ribosomal_L5  Ribosomal protein L5
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.3   1.3   4.4e-26   3.9e-22       1      57 []      24      80 ..      24      80 .. 0.99

  Alignments for each domain:
  == domain 1  score: 78.3 bits;  conditional E-value: 4.4e-26
                             SCTTS-EEEEEEEEEE-SSSSSCHHHHHCCHHHHCCCHSS--EECC--TTCTTTCSC CS
             Ribosomal_L5  1 NvMqvPrleKivinmgvGeagedkkllekaakeLaeItGQkPvvtkakksianFkiR 57
                             Nv+ +P++eKiv+n+ +++a++++k++++ +++La+ItGQ+Pvv +ak sia+Fk+R
  PHY93_13015|PHY93_13015 24 NVHMIPKIEKIVVNCVTKDAVSNSKVVDSIVNDLAAITGQRPVVARAKTSIASFKVR 80
                             9*******************************************************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (177 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       400  (0.0223102); expected 358.6 (0.02)
Passed bias filter:                      348  (0.0194099); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.43
# Mc/sec: 1229.65
//
Query:       PHY93_13020|PHY93_13020  [L=101]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.6e-23   82.2   3.2    4.9e-23   81.3   3.2    1.4  1  ribosomal_L24  Ribosomal proteins 50S L24/mitochondrial 39S L
    3.6e-08   33.1   1.3    3.6e-08   33.1   1.3    1.7  2  KOW            KOW motif
  ------ inclusion threshold ------
       0.33   10.8   3.0       0.32   10.9   1.4    1.8  2  YajC           Preprotein translocase subunit


Domain annotation for each model (and alignments):
>> ribosomal_L24  Ribosomal proteins 50S L24/mitochondrial 39S L24
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   81.3   3.2   8.2e-27   4.9e-23       1      63 [.      39     101 .]      39     101 .] 0.97

  Alignments for each domain:
  == domain 1  score: 81.3 bits;  conditional E-value: 8.2e-27
            ribosomal_L24   1 vnvvkkhvkpsqqneqGgiiekEapIhvSnVmlvdpkcgkptrvgfrlkedgkkvRvskksge 63 
                              vn vk+ +kpsq+n++Gg+++k  pI+ SnV l+ pk++kpt+v+f + +d+kkvR skk+g+
  PHY93_13020|PHY93_13020  39 VNEVKRATKPSQANPEGGFVTKNLPIDSSNVSLISPKTKKPTKVKFVVGKDNKKVRTSKKCGA 101
                              8*********************************************8879***********96 PP

>> KOW  KOW motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.1   1.3   6.1e-12   3.6e-08       2      32 .]       7      37 ..       6      37 .. 0.96
   2 ?   -2.8   0.4       1.2   7.1e+03      19      28 ..      85      94 ..      85      94 .. 0.74

  Alignments for each domain:
  == domain 1  score: 33.1 bits;  conditional E-value: 6.1e-12
                             TSEEEESSSTTTTCEEEEEEEETTTTEEEEE CS
                      KOW  2 GdhVkVvsGphkGktGkVvkvdqhkvrVfvd 32
                              d+V+V+ G+++Gk Gk+v+ ++++++V+vd
  PHY93_13020|PHY93_13020  7 NDEVIVTTGKNAGKLGKIVSLNRKTNKVTVD 37
                             79***************************98 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 1.2
                             EEEEETTTTE CS
                      KOW 19 Vvkvdqhkvr 28
                             Vv  d +kvr
  PHY93_13020|PHY93_13020 85 VVGKDNKKVR 94
                             7778888876 PP

>> YajC  Preprotein translocase subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   1.4   5.3e-05      0.32      33      64 ..       2      37 ..       1      47 [. 0.66
   2 ?   -1.4   0.0      0.37   2.2e+03      22      24 ..      76      78 ..      55      97 .. 0.57

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 5.3e-05
                     YajC 33 asLkkGdeVvti.g...GivGkvvkvdddevtveig 64
                             ++Lk++deV+ + g   G +Gk+v+++ ++ +v+++
  PHY93_13020|PHY93_13020  2 KKLKVNDEVIVTtGknaGKLGKIVSLNRKTNKVTVD 37
                             78******976523344789*******555444442 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.37
                     YajC 22 qkk 24
                              kk
  PHY93_13020|PHY93_13020 76 TKK 78
                             222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (101 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       677  (0.0377601); expected 358.6 (0.02)
Passed bias filter:                      376  (0.0209716); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.44u 0.24s 00:00:00.68 Elapsed: 00:00:00.43
# Mc/sec: 704.26
//
Query:       PHY93_13025|PHY93_13025  [L=120]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.4e-49  167.2   2.4    1.6e-49  167.0   2.4    1.0  1  Ribosomal_L14  Ribosomal protein L14p/L23e
  ------ inclusion threshold ------
      0.081   12.8   0.0       0.18   11.7   0.0    1.6  1  LBP_C          Lacto-N-biose phosphorylase C-terminal domain


Domain annotation for each model (and alignments):
>> Ribosomal_L14  Ribosomal protein L14p/L23e
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  167.0   2.4   1.8e-53   1.6e-49       1     120 [.       1     120 []       1     120 [] 0.99

  Alignments for each domain:
  == domain 1  score: 167.0 bits;  conditional E-value: 1.8e-53
                              ..CSS-EEE--SSSSBSEEEEEEETT-.---EE-SSSEEEEEESSS-T...TTSSCEEEEEEEE-SS-EE-TTS-EEEESS-EEEE CS
            Ribosomal_L14   1 miqlktrlkvaDNsgakevecikvlggkkrkaasvGdiivvsvkkakpkgkvkkgdvvkavvvrtkkevrrkdGsvirfddnaaVl 86 
                              miq++++l+vaDNsgak v+c kvlgg+kr++a vGdi+vv+v++a + gk+kkgdv kav+vrt  +vrr+dGs+i+fd n +V+
  PHY93_13025|PHY93_13025   1 MIQMQSNLDVADNSGAKIVTCFKVLGGSKRTSAGVGDIVVVAVQQAVTGGKIKKGDVKKAVIVRTVYPVRREDGSYIQFDTNSVVI 86 
                              9************************************************************************************* PP

                              B-TTS-BSS-.B-SBEEHHHHHH.-HHHHHTBSB CS
            Ribosomal_L14  87 lnkkgeplGtrifgpvarelrekkflkivslApe 120
                              +n+ +ep+Gtrifgpvarelr k+f+ki+slApe
  PHY93_13025|PHY93_13025  87 INNANEPVGTRIFGPVARELRAKNFTKICSLAPE 120
                              ********************************96 PP

>> LBP_C  Lacto-N-biose phosphorylase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0     2e-05      0.18      16      36 ..      81     101 ..      79     109 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 2e-05
                    LBP_C  16 sgklvViNNsdeeqtTtvytg 36 
                              ++  v+iNN++e+  T +  +
  PHY93_13025|PHY93_13025  81 TNSVVIINNANEPVGTRIFGP 101
                              6889************99766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (120 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       455  (0.0253779); expected 358.6 (0.02)
Passed bias filter:                      327  (0.0182386); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.26s 00:00:00.73 Elapsed: 00:00:00.46
# Mc/sec: 788.94
//
Query:       PHY93_13030|PHY93_13030  [L=80]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.7e-26   90.7   4.6    6.1e-26   90.3   4.6    1.2  1  Ribosomal_S17  Ribosomal protein S17


Domain annotation for each model (and alignments):
>> Ribosomal_S17  Ribosomal protein S17
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   90.3   4.6   3.4e-30   6.1e-26       1      67 [.      13      79 ..      13      80 .] 0.98

  Alignments for each domain:
  == domain 1  score: 90.3 bits;  conditional E-value: 3.4e-30
                             EEEEE--STTEEEEEEEEEEEETTTTEEEEEEEEEEEE-TTTS--TT-EEEEEEECECSSSEEEEEE CS
            Ribosomal_S17  1 GvVvsdkmdkTvvVrverlvkhpkykkyvkrrkkylahdennsvkvGDiVrieecrPlSktkrfvvv 67
                             G+Vvsdk++kT+vV+v+r++k+  y k+v+ +kky++hde  ++k+GD V+i e+rP Sk k++++ 
  PHY93_13030|PHY93_13030 13 GIVVSDKNEKTIVVKVTRRFKDAVYSKFVSTSKKYHVHDETSKAKMGDAVTIIESRPYSKLKKWELF 79
                             99**************************************************************996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (80 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1043  (0.0581739); expected 358.6 (0.02)
Passed bias filter:                      489  (0.0272742); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.25s 00:00:00.69 Elapsed: 00:00:00.43
# Mc/sec: 554.99
//
Query:       PHY93_13035|PHY93_13035  [L=61]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.6e-13   49.2   3.6      4e-13   49.1   3.6    1.0  1  Ribosomal_L29  Ribosomal L29 protein
  ------ inclusion threshold ------
      0.024   14.7   0.2      0.031   14.4   0.2    1.0  1  THUMP          THUMP domain


Domain annotation for each model (and alignments):
>> Ribosomal_L29  Ribosomal L29 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.1   3.6   4.5e-17     4e-13       2      54 ..       6      58 ..       5      60 .. 0.95

  Alignments for each domain:
  == domain 1  score: 49.1 bits;  conditional E-value: 4.5e-17
                             HHHHS-HHHHHHHHHHHHHHHHHHHHHHHHTSSS-CHHHHHHHHHHHHHHHHH CS
            Ribosomal_L29  2 elrelsdeeLkeklkelkkeLfnLrfqkatgqlenpsrirkvRkdIARikTvl 54
                             ++++l+++e  +kl elkk L++ r+q +++  e+p+r   ++k+IAR++T  
  PHY93_13035|PHY93_13035  6 DVKKLNEKEVSKKLLELKKDLLTFRIQSSVSGAEKPHRKQLIKKEIARLLTFS 58
                             899************************************************76 PP

>> THUMP  THUMP domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.2   3.4e-06     0.031      63     111 ..       3      54 ..       2      56 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 3.4e-06
                              SHHHHHHHHHHHHHHHHHHCT-...EEEEEEEESSSTSSSHHHHHHHHHHHH CS
                    THUMP  63 dledileaakeivkkkfeeeke...tFaVrvkrrgkhfeftsreinrevGka 111
                              +l+d++++ ++ v+kk+ e k+   tF++++ + g +  + ++ i++e++++
  PHY93_13035|PHY93_13035   3 TLDDVKKLNEKEVSKKLLELKKdllTFRIQSSVSGAEKPHRKQLIKKEIARL 54 
                              6899999999999999999988999************977777788887766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (61 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       865  (0.0482459); expected 358.6 (0.02)
Passed bias filter:                      400  (0.0223102); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.24s 00:00:00.67 Elapsed: 00:00:00.43
# Mc/sec: 422.62
//
Query:       PHY93_13040|PHY93_13040  [L=137]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    7.3e-47  158.7   0.2    8.1e-47  158.5   0.2    1.0  1  Ribosomal_L16  Ribosomal protein L16p/L10e


Domain annotation for each model (and alignments):
>> Ribosomal_L16  Ribosomal protein L16p/L10e
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  158.5   0.2   4.5e-51   8.1e-47       1     132 []       4     132 ..       4     132 .. 0.98

  Alignments for each domain:
  == domain 1  score: 158.5 bits;  conditional E-value: 4.5e-51
                              HXSSXXBSSSX.XSSTSXXXSXXXXXESXEEEEESSXEEEEHHHHHHHHHHHCTCCCCTSXCEEXXSXXXXEEEEE-SS-TTTSSS CS
            Ribosomal_L16   1 pkrkkyrKsrk.ryirgvstkgtklefgdygLvalekgqltaealeaariainrylkkkrgkklwirvfphhpvtkkagedRmgkG 85 
                              pkr+++rK++k r+  g++t+g++++fg+ygL+a+  g++t++++eaariai+r++k  rg++lwi++fp++ + +k++e+Rmg G
  PHY93_13040|PHY93_13040   4 PKRVRFRKQQKgRM-MGAATRGNTVTFGEYGLQATTCGYITNRQIEAARIAISRKIK--RGGNLWIKIFPDKSLSRKPAEVRMGGG 86 
                              79*********766.9*****************************************..*************************** PP

                              SXEEEEEEEEEXSSCEEEEETTXXXSHHHHHHHHHHHHTSSSXEEEE CS
            Ribosomal_L16  86 kGkpegwvarvkigqiifeikagvneeiakealrraasKlpiktkiv 132
                              kG+pe wva++++g+i+fe+ +g++ e   ealr+a +Klpiktk+v
  PHY93_13040|PHY93_13040  87 KGSPETWVAVIRPGRILFEV-GGLDSELSVEALRLAMYKLPIKTKVV 132
                              ********************.999*********************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (137 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       236  (0.013163); expected 358.6 (0.02)
Passed bias filter:                      218  (0.0121591); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 927.31
//
Query:       PHY93_13045|PHY93_13045  [L=206]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    8.2e-38  128.8   2.2    8.2e-38  128.8   2.2    1.8  2  Ribosomal_S3_C  Ribosomal protein S3, C-terminal domain
    2.4e-16   59.3   1.3    2.4e-16   59.3   1.3    1.7  2  KH_2            KH domain
     0.0032   17.3   0.2     0.0069   16.2   0.2    1.5  1  KH_4            KH domain
  ------ inclusion threshold ------
      0.065   12.7   0.1        0.1   12.1   0.1    1.3  1  AAA_7           P-loop containing dynein motor region
      0.079   13.7   0.2       0.16   12.7   0.2    1.6  1  Hep_59          Hepatocellular carcinoma-associated antigen 5


Domain annotation for each model (and alignments):
>> Ribosomal_S3_C  Ribosomal protein S3, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0       1.6   5.6e+03      62      70 ..      41      49 ..      32      70 .. 0.57
   2 !  128.8   2.2   2.3e-41   8.2e-38       1      83 []     119     201 ..     119     201 .. 0.99

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 1.6
                             H-EEEEEEE CS
           Ribosomal_S3_C 62 didyavaea 70
                             +i++ +++a
  PHY93_13045|PHY93_13045 41 YIEKNMKSA 49
                             222222222 PP

  == domain 2  score: 128.8 bits;  conditional E-value: 2.3e-41
                              HHHHHHTT--HHHHHHHHHHHHHHCC-SEEEEEEEC-SS.TTT--EEEEEEC----TCHHHH-EEEEEEEEETTEEEEEEEEE CS
           Ribosomal_S3_C   1 iaeqlekrvsfRramkkairramkagakGikiqvsGrLggaeiarsekykeGrvplhtlradidyavaeaktkyGiiGvkVwI 83 
                              ia+qlekrv+fRramkk++++a++ag+kGik++ sGrLggae+ar+e y+e +vplhtlradidy +aea t+yGiiGvkVw+
  PHY93_13045|PHY93_13045 119 IAQQLEKRVAFRRAMKKVMQSAFRAGVKGIKVRTSGRLGGAEMARTEGYAERKVPLHTLRADIDYNTAEAMTTYGIIGVKVWV 201
                              8*********************************************************************************8 PP

>> KH_2  KH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.3   1.3   6.8e-20   2.4e-16       1      77 [.      37     109 ..      37     110 .. 0.95
   2 ?   -2.3   0.0       1.2   4.2e+03      50      58 ..     119     127 ..     115     152 .. 0.61

  Alignments for each domain:
  == domain 1  score: 59.3 bits;  conditional E-value: 6.8e-20
                              HHHHHHHHHTECETEEEEEEECCSCEEEEEEEESCHHHHHTGGGHHHHHHHHHHHHHHHHHHTTCEEEEEEEETTTG CS
                     KH_2   1 eipeslaveikkagvskveIertanrviiviresqpgivIGkgGsnikkigkelrkdieklegkkVklnivkVkkpe 77 
                              +++ ++++++k+a v++++I rt ++v++++ +++pgi+IGk+G  i+ki+ +l+k +    g+ ++ ni +Vk+p+
  PHY93_13045|PHY93_13045  37 KMRAYIEKNMKSAAVASIDISRTSDQVKVTVNTAKPGIAIGKKGTGIEKIRNDLKKMTS---GTLIF-NIAEVKRPD 109
                              6799******************************************************4...88888.999****97 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 1.2
                              HHHHHHHHH CS
                     KH_2  50 igkelrkdi 58 
                              i ++l+k++
  PHY93_13045|PHY93_13045 119 IAQQLEKRV 127
                              445555544 PP

>> KH_4  KH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.2   1.9e-06    0.0069      10      52 ..      44      84 ..      37      91 .. 0.74

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 1.9e-06
                     KH_4 10 alvddpeevevteeeeeeeveielnvegedlGrvIGkrGrtld 52
                             + +++++  +++  +++++++++++v++ + G+ IGk+G  + 
  PHY93_13045|PHY93_13045 44 KNMKSAAVASID--ISRTSDQVKVTVNTAKPGIAIGKKGTGIE 84
                             433444444444..568899*******************8776 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.1   2.9e-05       0.1       7      90 ..      44     127 ..      39     137 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 2.9e-05
                    AAA_7   7 akfseilVptvdtvrysyllelllknkkpvllvGptGtGKtviikdllkkldkekylsltinfsa.qtsanqlqdiiesklekrr 90 
                               ++++  V  +d  r+s  ++  ++  kp + +G++GtG   i +dl  k+ + ++++++ +++    +a+ + + i ++lekr 
  PHY93_13045|PHY93_13045  44 KNMKSAAVASIDISRTSDQVKVTVNTAKPGIAIGKKGTGIEKIRNDLK-KMTSGTLIFNIAEVKRpDADAKLIAENIAQQLEKRV 127
                              5788999********************************888777755.444466666666665425778888999999999985 PP

>> Hep_59  Hepatocellular carcinoma-associated antigen 59
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.2   4.5e-05      0.16      10      88 ..      33     108 ..      27     128 .. 0.60

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 4.5e-05
                   Hep_59  10 dvdkhMekYIeeeLakrkgk.skqeqeeeeekeseassksedaedelyevpehlkv..sskkeeeealsnqmlggIpEVdLg 88 
                               +d +M +YIe++++ ++ +        + +++s++ + + ++++   ++ ++ +   +++++ ++++s +++  I+EV+ +
  PHY93_13045|PHY93_13045  33 HEDLKMRAYIEKNMKSAAVAsI------DISRTSDQVKVTVNTAKPGIAIGKKGTGieKIRNDLKKMTSGTLIFNIAEVKRP 108
                              5899************654321......222222222222222223333333333333455677777888888888888755 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (206 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       906  (0.0505327); expected 358.6 (0.02)
Passed bias filter:                      592  (0.0330191); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.47u 0.26s 00:00:00.73 Elapsed: 00:00:00.42
# Mc/sec: 1465.46
//
Query:       PHY93_20385|PHY93_20385  [L=390]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
   1.2e-124  415.9   6.1   1.3e-124  415.7   6.1    1.0  1  IMPDH         IMP dehydrogenase / GMP reductase domain
    4.1e-18   65.6   8.6    2.2e-09   37.6   0.4    3.8  4  CBS           CBS domain
    4.7e-10   39.4  11.5      5e-07   29.4   5.5    2.4  2  NMO           Nitronate monooxygenase
    2.7e-09   36.5   4.3    2.7e-09   36.5   4.3    2.3  2  FMN_dh        FMN-dependent dehydrogenase
      2e-05   24.1   0.8    0.00061   19.3   0.0    2.3  2  His_biosynth  Histidine biosynthesis protein
      5e-05   22.6   2.4    0.00012   21.4   2.4    1.6  1  Glu_synthase  Conserved region in glutamate synthase
    0.00012   21.4   0.1    0.00012   21.4   0.1    2.4  3  DHO_dh        Dihydroorotate dehydrogenase
     0.0015   17.8   0.2     0.0097   15.1   0.1    2.1  2  DUF561        Protein of unknown function (DUF561)
     0.0023   17.3   5.0     0.0081   15.5   0.9    2.6  2  ThiG          Thiazole biosynthesis protein ThiG
     0.0055   15.8   0.3      0.075   12.1   0.0    2.3  2  Dus           Dihydrouridine synthase (Dus)
     0.0062   16.0   3.8      0.032   13.6   0.0    2.8  3  G3P_antiterm  Glycerol-3-phosphate responsive antiterminator
  ------ inclusion threshold ------
      0.061   12.7   2.9       0.68    9.2   0.8    2.7  2  TMP-TENI      Thiamine monophosphate synthase


Domain annotation for each model (and alignments):
>> IMPDH  IMP dehydrogenase / GMP reductase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  415.7   6.1  8.9e-128  1.3e-124       1     264 [.       9     390 .]       9     390 .] 1.00

  Alignments for each domain:
  == domain 1  score: 415.7 bits;  conditional E-value: 8.9e-128
                              E--GGGEEEE---B-S-GGGSB--EESSTTEEESSSEEE-SSTTT-SHHHHHHHHHTTSEEEE-SSS-HHHHHHHHHHHHTS.... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.... RF
                    IMPDH   1 gltfddvllvpaksevlpkevdlktkltkkiklniPlvsaamdtvtesemAialareGgigvihknlsieeqaeevkkvkrs.... 82 
                              +lt+ddvl+ pa+sevlp+e++++tk++k+i lniP+vsaamdtvte++ Ai la+eGgigv+hknl++ +qaeev+kvk++    
  PHY93_20385|PHY93_20385   9 ALTYDDVLIKPAYSEVLPSETRTETKFSKNIPLNIPIVSAAMDTVTEASSAIVLAEEGGIGVVHKNLTPYRQAEEVEKVKKFeagm 94 
                              69************************************************************************************ PP

                              ...................................................................................... CS
                              ...................................................................................... RF
                    IMPDH  83 ...................................................................................... 82 
                                                                                                                    
  PHY93_20385|PHY93_20385  95 ilnpvsvdeettlrfvmdlkqqkkitgvlvvdknkrlvgiltnrdlqlesnfdqkvkdvmtkkeklvtaephisiedakkilhkhr 180
                              ************************************************************************************** PP

                              ............................TTSXBXTTSXB-EEEEE-SSTTHHHHHHHHHHTT-SEEEEE-STSSSHHHHHHHHHHH CS
                              ............................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    IMPDH  83 ............................pnaakdekgrllvgaavgvkedalervkalveagvdvlvvdsahghsekvleavkeik 140
                                                          pna+kd+ grl+v+aa+gv+e+++er+k lvea+vd+lvvd+ahghs++v+e+v+ +k
  PHY93_20385|PHY93_20385 181 ieklplitndgiikglitvkdilktisfPNANKDSLGRLRVAAAIGVSEKEFERAKILVEAQVDALVVDTAHGHSKGVIEMVRMLK 266
                              ************************************************************************************** PP

                              HHTTTSEEEEEEE-SHHHHHHHHHTT-SEEEE-SS-STTBHHHHHCSB---HHHHHHHHHHHHCTCT-EEEEES---SHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    IMPDH 141 kkveeveviaGnvataegakaLieagadavkvGiGpGsiCttrvvagvGvpqltAvaevaeaakkagvpviaDGGikysgdivkAl 226
                              k++++v+++aGnvata+++k+Lieag+d++kvGiGpGsiCttrvvag+Gvpq++A++e+ae+++k+++p+iaDGGik sgd+vkAl
  PHY93_20385|PHY93_20385 267 KTFPHVDIVAGNVATAKACKDLIEAGVDGIKVGIGPGSICTTRVVAGIGVPQFSAILECAEFCRKMNIPIIADGGIKLSGDVVKAL 352
                              ************************************************************************************** PP

                              HTT-SEEEESCCCTTBTTSSSEEEEETTEEEEEEEETT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    IMPDH 227 aaGadavmlGsllagteEspgeviliegrkyKeyrGmg 264
                              aaGa++vm+Gsl+agt+E+pge++l++gr yK yrGmg
  PHY93_20385|PHY93_20385 353 AAGASSVMIGSLFAGTDEAPGEMVLYQGRAYKIYRGMG 390
                              *************************************8 PP

>> CBS  CBS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.0      0.52   7.8e+02      16      47 ..      43      72 ..      37      74 .. 0.72
   2 !   29.7   0.1   4.3e-10   6.4e-07       7      51 ..      96     140 ..      85     143 .. 0.90
   3 !   37.6   0.4   1.5e-12   2.2e-09       1      55 [.     150     206 ..     150     207 .. 0.92
   4 ?   -1.7   0.1       2.9   4.3e+03      23      40 ..     236     252 ..     235     265 .. 0.68

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.52
                             SB.HHHHHHHHHHHTSSEEEEEETTTBEEEEEE CS
                      CBS 16 tt.leealelmrekgvsrlPVVdedgklvGivt 47
                              + ++ a+++ +e+  s++ V+ e+g  +G+v+
  PHY93_20385|PHY93_20385 43 IPiVSAAMDTVTEA-SSAI-VLAEEG-GIGVVH 72
                             55588899999443.4677.988899.788886 PP

  == domain 2  score: 29.7 bits;  conditional E-value: 4.3e-10
                              SSCEEEETTSBHHHHHHHHHHHTSSEEEEEETTTBEEEEEEHHHH CS
                      CBS   7 rdvvtvppdttleealelmrekgvsrlPVVdedgklvGivtlrDl 51 
                               ++v+v+++ttl+ +++l  +k++++++VVd++++lvGi+t rDl
  PHY93_20385|PHY93_20385  96 LNPVSVDEETTLRFVMDLKQQKKITGVLVVDKNKRLVGILTNRDL 140
                              489***************77899*********************8 PP

  == domain 3  score: 37.6 bits;  conditional E-value: 1.5e-12
                              HHHHSBS..SCEEEETTSBHHHHHHHHHHHTSSEEEEEETTTBEEEEEEHHHHHHHH CS
                      CBS   1 Vgdimtr..dvvtvppdttleealelmrekgvsrlPVVdedgklvGivtlrDllral 55 
                              V+d+mt+  ++vt+ p  ++e+a +++ ++++  lP + +dg + G++t +D+l+ +
  PHY93_20385|PHY93_20385 150 VKDVMTKkeKLVTAEPHISIEDAKKILHKHRIEKLPLITNDGIIKGLITVKDILKTI 206
                              89*****8899****************8888*****8878**888*********976 PP

  == domain 4  score: -1.7 bits;  conditional E-value: 2.9
                              HHHHHHTSSEEEEEETTT CS
                      CBS  23 elmrekgvsrlPVVdedg 40 
                              ++++e+ v++l VVd  +
  PHY93_20385|PHY93_20385 236 KILVEAQVDAL-VVDTAH 252
                              56667779999.996544 PP

>> NMO  Nitronate monooxygenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.4   0.3   2.5e-05     0.038       6      79 ..      37     113 ..      32     195 .. 0.63
   2 !   29.4   5.5   3.3e-10     5e-07      86     234 ..     215     374 ..     196     380 .. 0.69

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 2.5e-05
                      NMO   6 ellkikppvvqpgmggiskarLaaavsnaGgLGvlasgyltaDrlakeirkvkaltdk....Pfgvnlflpkkdaadr 79 
                              + ++ + p+v + m  +++a  a   +++Gg+Gv+    lt+ r a+e++kvk+  +     P+ v        ++d 
  PHY93_20385|PHY93_20385  37 KNIPLNIPIVSAAMDTVTEASSAIVLAEEGGIGVVH-KNLTPYRQAEEVEKVKKFEAGmilnPVSVDEETTLRFVMDL 113
                              5667889****************************9.89999999999999998655311225555554444455555 PP

  == domain 2  score: 29.4 bits;  conditional E-value: 3.3e-10
                      NMO  86 eleeaalelnieegvr..fyrkvevvldekvevvsfgfglpte..evvarlkea...gvvliptissvkearkvearGaDalivqG 164
                               l+   + ++i ++ +     k++v +++ + vv ++ g  +   e+v  lk+      ++ + ++++k+ + ++++G D +   G
  PHY93_20385|PHY93_20385 215 SLGRLRVAAAIGVSEKefERAKILVEAQVDALVVDTAHGHSKGviEMVRMLKKTfphVDIVAGNVATAKACKDLIEAGVDGIK-VG 299
                              5555555555555555544567777777788888888777643112333333321113367788999***********99854.47 PP

                      NMO 165 peaGGhqGtpevgd..kglfaLvpqvldavd...iPviAaGGiidrrgvaaaLalGAsgvqigtrfLltkesdak 234
                                 G    t+ v++  + +f+ + + ++      iP+iA GGi    +v  aLa+GAs v ig+ f +t+e++ +
  PHY93_20385|PHY93_20385 300 IGPGSICTTRVVAGigVPQFSAILECAEFCRkmnIPIIADGGIKLSGDVVKALAAGASSVMIGSLFAGTDEAPGE 374
                              7777777777777745444444444444333677*************************************9865 PP

>> FMN_dh  FMN-dependent dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.0   0.9      0.23   3.4e+02     200     233 ..     164     205 ..      77     256 .. 0.66
   2 !   36.5   4.3   1.8e-12   2.7e-09     218     303 ..     273     365 ..     259     375 .. 0.83

  Alignments for each domain:
  == domain 1  score: 0.0 bits;  conditional E-value: 0.23
                              -TC--HHHHHHHHHHHS...SEE.....EEEEE-SHHHHHHH CS
                   FMN_dh 200 dpsltwddikwlreqtk...lpl.....vvKGvltaedakra 233
                              +p+++ +d k++  + +   lpl     ++KG++t++d+ + 
  PHY93_20385|PHY93_20385 164 EPHISIEDAKKILHKHRiekLPLitndgIIKGLITVKDILKT 205
                              455555555555443322224552222257777777777655 PP

  == domain 2  score: 36.5 bits;  conditional E-value: 1.8e-12
                              EEEEEEE-SHHHHHHHHHTTESEEEE--GGG.....TSSTT-.--HHHCHHHHHHHH...SS-EEEESS--SHHHHHHHHHTT-SE CS
                   FMN_dh 218 plvvKGvltaedakraveaGvdgivvSNHGG.....Rqldga.patidvLpeiveavgg.rievlvDgGirrGsDvlkAlalGAda 296
                               +v   v ta+ +k ++eaGvdgi v    G     R + g  ++ ++++ e++e +++ +i++++DgGi+   Dv+kAla GA+ 
  PHY93_20385|PHY93_20385 273 DIVAGNVATAKACKDLIEAGVDGIKVGIGPGsicttRVVAGIgVPQFSAILECAEFCRKmNIPIIADGGIKLSGDVVKALAAGASS 358
                              556666999*****************988887777787776426778999999****9867************************* PP

                              EEESHHH CS
                   FMN_dh 297 vllGRpf 303
                              v++G  f
  PHY93_20385|PHY93_20385 359 VMIGSLF 365
                              ****877 PP

>> His_biosynth  Histidine biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.2     0.041        61      32     101 ..     232     298 ..     222     313 .. 0.63
   2 !   19.3   0.0   4.1e-07   0.00061     185     223 ..     327     365 ..     317     374 .. 0.66

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.041
                              HHHHHHHHHHT-SEEEEEEHHHHCTTHHHHHHHHHHHHHH-SSEEEEESSSSSHHHHHHHHHCT-SEEEE CS
             His_biosynth  32 velakryeeegadelhvvDldaakegreanldlveeiaeevfipvqvGGGIrsledveelleagadkvii 101
                              +e ak + e+++d l+v    + ++g  ++  +++++  +v+    v G + + ++ ++l+eag+d + +
  PHY93_20385|PHY93_20385 232 FERAKILVEAQVDALVVDTAHGHSKGVIEMVRMLKKTFPHVD---IVAGNVATAKACKDLIEAGVDGIKV 298
                              566777777777777654444444444444444444444422...3555588888888888888884433 PP

  == domain 2  score: 19.3 bits;  conditional E-value: 4.1e-07
                              HHHHHHSSEEEEESS--SHHHHHHHHHTTCSEEEESHHH CS
             His_biosynth 185 elaeavkipviasGGvgsledlkelksegvdavivgsal 223
                              e++++++ip+ia GG++   d+ ++ ++g+++v++gs++
  PHY93_20385|PHY93_20385 327 EFCRKMNIPIIADGGIKLSGDVVKALAAGASSVMIGSLF 365
                              556666666666666666666666666666666666655 PP

>> Glu_synthase  Conserved region in glutamate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.4   2.4   7.7e-08   0.00012     218     304 ..     278     363 ..     256     366 .. 0.76

  Alignments for each domain:
  == domain 1  score: 21.4 bits;  conditional E-value: 7.7e-08
                              HHHHHHHHTT-SEEE..EE-TT---SSEE...HHHHHHB---HHHHHHHHHHHHHHTT-GGG-EEEEESS--SHHHHHHHHHHT-S CS
             Glu_synthase 218 tiaagvakanadiil..idGleGGTGAsp...kssikhaGlPlelalaevdqtlkeeglrdrvsliadGglktgadvvkalalGAd 298
                               +a   aka  d+i   +dG++ G G      + ++   G+P   a+ e  +  ++     ++ +iadGg+k + dvvkala GA 
  PHY93_20385|PHY93_20385 278 NVA--TAKACKDLIEagVDGIKVGIGPGSictTRVVAGIGVPQFSAILECAEFCRK----MNIPIIADGGIKLSGDVVKALAAGAS 357
                              222..466777888655899998888754111456667789999999999887765....5789********************** PP

                              EEE-SH CS
             Glu_synthase 299 avgigt 304
                              +v ig+
  PHY93_20385|PHY93_20385 358 SVMIGS 363
                              ****97 PP

>> DHO_dh  Dihydroorotate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.1         1   1.6e+03     168     212 ..      74     118 ..      42     124 .. 0.60
   2 ?   -2.0   0.1       1.1   1.6e+03     232     268 ..     260     294 ..     251     302 .. 0.62
   3 !   21.4   0.1     8e-08   0.00012     238     276 ..     329     365 ..     318     372 .. 0.84

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 1
                              EE-SSSSHHHHHHHHHHHH.HHTECEEEE...BSEE--CTTCCGCC CS
                   DHO_dh 168 KlaPdltdeekkdiadvll.elkldgiivtNttvqrlaidlksekn 212
                               l+P + + e+ +++++    + l+ + v   t+ r  +dlk++k+
  PHY93_20385|PHY93_20385  74 NLTP-YRQAEEVEKVKKFEaGMILNPVSVDEETTLRFVMDLKQQKK 118
                              3555.45555555554444355556666666666666666666655 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 1.1
                              HHHHHHHHHTTT.S-EEEESS--SHHHHHHHHHHTEC CS
                   DHO_dh 232 kvirelykrlkkeipiIgvGGiesgeDalekieaGAs 268
                              +++r l+k++  ++ i+  G + +++   + ieaG  
  PHY93_20385|PHY93_20385 260 EMVRMLKKTFP-HVDIV-AGNVATAKACKDLIEAGVD 294
                              44444444333.55555.4778888877777777765 PP

  == domain 3  score: 21.4 bits;  conditional E-value: 8e-08
                              HHHTTT.S-EEEESS--SHHHHHHHHHHTECEEEESHHH CS
                   DHO_dh 238 ykrlkkeipiIgvGGiesgeDalekieaGAslvqvytal 276
                               ++++  ipiI+ GGi+ + D++  + aGAs v +++ +
  PHY93_20385|PHY93_20385 329 CRKMN--IPIIADGGIKLSGDVVKALAAGASSVMIGSLF 365
                              44555..****************************9965 PP

>> DUF561  Protein of unknown function (DUF561)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.0      0.27   4.1e+02     185     225 ..      41      83 ..      27      97 .. 0.62
   2 !   15.1   0.1   6.5e-06    0.0097     108     218 ..     261     366 ..     232     384 .. 0.76

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 0.27
                   DUF561 185 vslPvicasGlsdvtvplals.lgasGiGi.gsavsklndeee 225
                              +++P+++a+  +   ++ a+  +   GiG+  ++++ +++ ee
  PHY93_20385|PHY93_20385  41 LNIPIVSAAMDTVTEASSAIVlAEEGGIGVvHKNLTPYRQAEE 83 
                              4789988874444444455441456789972456666665554 PP

  == domain 2  score: 15.1 bits;  conditional E-value: 6.5e-06
                   DUF561 108 lvkevrkLlPktdlsvtiPyiLkleeqvkLakkLeslgvdliqteGkitsiskakkvndliekslstlastyeiskkvslPvicas 193
                              +v+ ++k  P++d+              k +k+L ++gvd i+   +  si  ++ v ++     s++    e  +k+++P+i+  
  PHY93_20385|PHY93_20385 261 MVRMLKKTFPHVDIVAG------NVATAKACKDLIEAGVDGIKVGIGPGSICTTRVVAGIGVPQFSAILECAEFCRKMNIPIIADG 340
                              55555555555444322......22334678999999******99889999999999998777888887788999*********** PP

                   DUF561 194 Glsdvt.vplalslgasGiGigsavs 218
                              G++ +  v  al++gas + igs   
  PHY93_20385|PHY93_20385 341 GIKLSGdVVKALAAGASSVMIGSLFA 366
                              **977525669***********9765 PP

>> ThiG  Thiazole biosynthesis protein ThiG
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.2     0.054        80     189     223 ..     234     268 ..     219     285 .. 0.76
   2 !   15.5   0.9   5.4e-06    0.0081     169     212 ..     327     370 ..     284     378 .. 0.83

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.054
                              HHHHHHHTT-SEEEESHHHHTSSSHHHHHHHHHHH CS
                     ThiG 189 daaqamelGadavllntavaeakdpvamArafkla 223
                               a   +e  +da++++ta  ++k  ++m r +k++
  PHY93_20385|PHY93_20385 234 RAKILVEAQVDALVVDTAHGHSKGVIEMVRMLKKT 268
                              466778999*******************9998865 PP

  == domain 2  score: 15.5 bits;  conditional E-value: 5.4e-06
                              HHHHH-SS-BEEES---SHHHHHHHHHTT-SEEEESHHHHTSSS CS
                     ThiG 169 iiieeakvPvivDAGigspsdaaqamelGadavllntavaeakd 212
                               +++++++P+i D Gi  + d+++a+  Ga++v++ +  a +++
  PHY93_20385|PHY93_20385 327 EFCRKMNIPIIADGGIKLSGDVVKALAAGASSVMIGSLFAGTDE 370
                              467899*****************************998887665 PP

>> Dus  Dihydrouridine synthase (Dus)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.1      0.12   1.7e+02     172     213 ..     259     299 ..     228     304 .. 0.85
   2 !   12.1   0.0     5e-05     0.075     176     213 ..     326     362 ..     319     372 .. 0.92

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 0.12
                              CHHHHHHHHH-SS-EEEESS--SHHHHHHHHHHH--SEEEES CS
                      Dus 172 weaIkevkqavsipviaNGdIkdaedaqaileetGadgvmig 213
                              +e ++ +k+ ++ + i+ G++ +a++ ++ +e  G+dg+ +g
  PHY93_20385|PHY93_20385 259 IEMVRMLKKTFPHVDIVAGNVATAKACKDLIEA-GVDGIKVG 299
                              567889999999666677******999999998.99999887 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 5e-05
                              HHHHHH-SS-EEEESS--SHHHHHHHHHHH--SEEEES CS
                      Dus 176 kevkqavsipviaNGdIkdaedaqaileetGadgvmig 213
                              +e +++++ip+ia G+Ik   d+ ++l+  Ga  vmig
  PHY93_20385|PHY93_20385 326 AEFCRKMNIPIIADGGIKLSGDVVKALAA-GASSVMIG 362
                              67899***********************9.*******9 PP

>> G3P_antiterm  Glycerol-3-phosphate responsive antiterminator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.1       2.4   3.6e+03      32      41 ..     172     181 ..     144     205 .. 0.42
   2 ?    2.5   0.2     0.058        87      42      75 ..     264     296 ..     229     300 .. 0.64
   3 !   13.6   0.0   2.2e-05     0.032     132     167 ..     326     361 ..     317     364 .. 0.91

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 2.4
                              HHHHHHHHHH CS
             G3P_antiterm  32 lkeiveklkk 41 
                               k+i++k + 
  PHY93_20385|PHY93_20385 172 AKKILHKHRI 181
                              3333333222 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.058
                              TT-EEEEEGGGEET--SSHHHHHHHHH.TT-SEE CS
             G3P_antiterm  42 agkkvfvhiDlieGlskdeaaveflkkeikvdGi 75 
                                kk+f h+D++ G  +  +a + l + ++vdGi
  PHY93_20385|PHY93_20385 264 MLKKTFPHVDIVAGNVATAKACKDLIE-AGVDGI 296
                              334556666666666555555555555.555555 PP

  == domain 3  score: 13.6 bits;  conditional E-value: 2.2e-05
                              CTSTTS...EEEEESS--SHHHHHHHCTT.SSEEEE CS
             G3P_antiterm 132 keikkelkipiiaGGLietkedveealkaGaiavst 167
                              +e++++++ipiia G i+ + dv +al+aGa++v+ 
  PHY93_20385|PHY93_20385 326 AEFCRKMNIPIIADGGIKLSGDVVKALAAGASSVMI 361
                              578999***************************986 PP

>> TMP-TENI  Thiamine monophosphate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.4     0.032        48      96     176 ..     222     297 ..     210     301 .. 0.73
   2 ?    9.2   0.8   0.00046      0.68     135     177 ..     312     361 ..     261     365 .. 0.63

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.032
                 TMP-TENI  96 dliiGlSvhsleeaeeaealgadYigvGpifpTdtKkdaeplgleglkelaeale.iPvvaiGGitlenvaevleagadgva 176
                               + iG+S ++ e a+ + ++++d ++v +       ++ +   +e ++ l++++  + +va    t++  ++++eag+dg+ 
  PHY93_20385|PHY93_20385 222 AAAIGVSEKEFERAKILVEAQVDALVVDTA------HGHSKGVIEMVRMLKKTFPhVDIVAGNVATAKACKDLIEAGVDGIK 297
                              578999999999999999999998887544......3334444666777777777667777777777888888899988885 PP

  == domain 2  score: 9.2 bits;  conditional E-value: 0.00046
                 TMP-TENI 135 eplgleglkelaeale......iPvvaiGGitle.nvaevleagadgvav 177
                              + +g+ +++++ e +e      iP++a GGi+l+ +v ++l+aga++v +
  PHY93_20385|PHY93_20385 312 AGIGVPQFSAILECAEfcrkmnIPIIADGGIKLSgDVVKALAAGASSVMI 361
                              4555555555555555555555**********875899999999999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (390 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       693  (0.0386525); expected 358.6 (0.02)
Passed bias filter:                      456  (0.0254337); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.62u 0.29s 00:00:00.90 Elapsed: 00:00:00.46
# Mc/sec: 2530.71
//
Query:       PHY93_20390|PHY93_20390  [L=360]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (360 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       740  (0.0412739); expected 358.6 (0.02)
Passed bias filter:                      316  (0.0176251); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 2426.60
//
Query:       PHY93_16975|PHY93_16975  [L=124]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (124 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1127  (0.0628591); expected 358.6 (0.02)
Passed bias filter:                      369  (0.0205812); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.25s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 826.55
//
Query:       PHY93_20395|PHY93_20395  [L=250]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.3e-05   25.5   0.2      0.031   14.9   0.1    3.5  3  TPR_6         Tetratricopeptide repeat
    2.8e-05   24.0   7.7     0.0003   20.6   0.3    2.6  3  YfiO          Outer membrane lipoprotein
     0.0018   18.2   0.1        0.5   10.6   0.0    3.5  3  TPR_2         Tetratricopeptide repeat
     0.0019   18.3   1.7       0.35   11.0   0.1    2.3  2  TPR_18        Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.042   13.5   0.1        0.1   12.3   0.0    1.6  1  Cytomega_US3  Cytomegalovirus US3 protein
        0.2   11.5   5.2       0.71    9.7   1.0    3.1  3  DUF1965       Domain of unknown function (DUF1965)
       0.31   10.6   3.8        0.3   10.7   2.8    1.4  1  NRBF2         Nuclear receptor-binding factor 2, autophagy re
       0.41   10.9   6.3        6.4    7.1   0.2    3.5  4  ANAPC3        Anaphase-promoting complex, cyclosome, subunit 
       0.64    9.8   8.3       0.27   11.0   5.7    1.6  2  KASH_CCD      Coiled-coil region of CCDC155 or KASH
        0.9   10.0   5.1       0.48   10.9   2.3    2.1  2  ZapB          Cell division protein ZapB
        7.8    6.8  13.0        1.3    9.3   1.7    2.9  3  MapZ_EC1      MapZ extracellular domain 1


Domain annotation for each model (and alignments):
>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.1   1.9e-05     0.031      11      32 ..     135     156 ..     127     157 .. 0.84
   2 ?    5.5   0.0     0.018        30       3      33 .]     165     196 ..     163     196 .. 0.87
   3 ?    0.9   0.0      0.54   8.8e+02       3      32 ..     203     232 ..     201     233 .. 0.78

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 1.9e-05
                              HHHHHHHHHHHHHHHHHHH-TT CS
                    TPR_6  11 rklgdtdkAlealerlikeYPd 32 
                              +k ++++kA + + +l+++YP+
  PHY93_20395|PHY93_20395 135 FKEKNYEKAAQFYTSLVNNYPT 156
                              6778*****************7 PP

  == domain 2  score: 5.5 bits;  conditional E-value: 0.018
                              HHHHHHHHHH.HHHHHHHHHHHHHHHHH-TT- CS
                    TPR_6   3 lyklalsyrk.lgdtdkAlealerlikeYPdS 33 
                              ++k++ + ++ ++ +d  l+ +e l ++YP+S
  PHY93_20395|PHY93_20395 165 YFKAGIAAFEsGDHHDWTLTHFEALMSKYPTS 196
                              68889888987778889999**********98 PP

  == domain 3  score: 0.9 bits;  conditional E-value: 0.54
                              HHHHHHHHHHHHHHHHHHHHHHHHHHH-TT CS
                    TPR_6   3 lyklalsyrklgdtdkAlealerlikeYPd 32 
                               ++ al + klgd+ k  ++ e+++k+Y +
  PHY93_20395|PHY93_20395 203 KLWVALTHMKLGDKKKFYATVEEFRKKYRN 232
                              588999999999999877777788887755 PP

>> YfiO  Outer membrane lipoprotein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.1       2.2   3.6e+03     180     200 ..      29      49 ..      23      51 .. 0.69
   2 !   10.1   0.4    0.0003       0.5      46      90 ..     128     173 ..     116     182 .. 0.72
   3 !   20.6   0.3   1.9e-07    0.0003       8      76 ..     165     234 ..     160     243 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 2.2
                              HHHHHHHHHHHTT-HHHHHHH CS
                     YfiO 180 aLaimveayralgleaaaeea 200
                                a+m++ y+++ l+ a +++
  PHY93_20395|PHY93_20395  29 EKAAMINHYEQVSLKLARDNR 49 
                              457788888888887776655 PP

  == domain 2  score: 10.1 bits;  conditional E-value: 0.0003
                              HHHHHHHHHTT-HHHHHHHHHHHHHH-SSSTTHHHHHHH.HHHHHH CS
                     YfiO  46 ldliyAyykdadyaealasaerFlrlyPthknvdyvlYl.rglsal 90 
                              +++++  +k+++y++a++ + + +++yPt k+++  +Y  +g++a+
  PHY93_20395|PHY93_20395 128 MKIADKEFKEKNYEKAAQFYTSLVNNYPTNKSINDEFYFkAGIAAF 173
                              5677778888888888888888888888888876555541455555 PP

  == domain 3  score: 20.6 bits;  conditional E-value: 1.9e-07
                              HHHHHHHHHHHT-HHH.HHHHHHHHHHHSTTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-SSST CS
                     YfiO   8 lYekgqealqkgdyae.AikklealdsryPfspyaeqaqldliyAyykdadyaealasaerFlrlyPthk 76 
                              ++++g  a ++gd ++   +++eal s+yP+s+y  +a+l ++   +k +d  +  a++e+F ++y + +
  PHY93_20395|PHY93_20395 165 YFKAGIAAFESGDHHDwTLTHFEALMSKYPTSHYFRSAKLWVALTHMKLGDKKKFYATVEEFRKKYRNTN 234
                              67888999999998874679********************************************997765 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.6   0.0   0.00031       0.5       5      34 .]     128     157 ..     124     157 .. 0.87
   2 ?    2.8   0.0     0.095   1.5e+02       2      32 ..     163     194 ..     162     196 .. 0.73
   3 ?    0.1   0.0      0.69   1.1e+03       7      19 ..     206     218 ..     202     218 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00031
                    TPR_2   5 ynlGlayyklgdyeeAleafekAleldPnn 34 
                              + +++  +k ++ye+A++++   +  +P+n
  PHY93_20395|PHY93_20395 128 MKIADKEFKEKNYEKAAQFYTSLVNNYPTN 157
                              56777889*************999999987 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.095
                    TPR_2   2 ealynlGlayyklgdy.eeAleafekAleldP 32 
                              e ++  G a++++gd+ +  l +fe+  + +P
  PHY93_20395|PHY93_20395 163 EFYFKAGIAAFESGDHhDWTLTHFEALMSKYP 194
                              679999********986665666666655555 PP

  == domain 3  score: 0.1 bits;  conditional E-value: 0.69
                    TPR_2   7 lGlayyklgdyee 19 
                               +l ++klgd ++
  PHY93_20395|PHY93_20395 206 VALTHMKLGDKKK 218
                              6899*****9875 PP

>> TPR_18  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.7   0.2    0.0043       7.1      13      42 ..     127     156 ..     116     159 .. 0.83
   2 !   11.0   0.1   0.00022      0.35      10      78 ..     162     231 ..     156     243 .. 0.81

  Alignments for each domain:
  == domain 1  score: 6.7 bits;  conditional E-value: 0.0043
                   TPR_18  13 lyqeaqkaldegnyltaieqLealdtryPf 42 
                              l + a k+++e+ny +a++  ++l + yP+
  PHY93_20395|PHY93_20395 127 LMKIADKEFKEKNYEKAAQFYTSLVNNYPT 156
                              566788999999999999999999999997 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.00022
                   TPR_18  10 eaelyqeaqkaldegnylt.aieqLealdtryPfGaYaeqaqLDLiYakykskdyelavasidrfirlnP 78 
                              ++ +++++  a+++g++     ++ eal ++yP+ +Y   a+L +  ++ k  d +   a+++ f + + 
  PHY93_20395|PHY93_20395 162 DEFYFKAGIAAFESGDHHDwTLTHFEALMSKYPTSHYFRSAKLWVALTHMKLGDKKKFYATVEEFRKKYR 231
                              5556777788888887665267899999999999999999999999999999999999999999988764 PP

>> Cytomega_US3  Cytomegalovirus US3 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   6.2e-05       0.1      87     149 ..     177     241 ..     152     246 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 6.2e-05
             Cytomega_US3  87 yhhdergaylkwnvggypvsrtldvvdi..tla.lrlGdpkkylacvpelrvdysssainwylqrs 149
                               hhd   ++++  ++ yp s+     ++  +l+ ++lGd kk+ a v e r  y  ++  w++  s
  PHY93_20395|PHY93_20395 177 DHHDWTLTHFEALMSKYPTSHYFRSAKLwvALThMKLGDKKKFYATVEEFRKKYR-NTNEWKILSS 241
                              4899999**************9999888433332567*****************7.4677877655 PP

>> DUF1965  Domain of unknown function (DUF1965)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.9   0.1      0.24   3.9e+02      18      44 ..     176     202 ..     162     216 .. 0.80
   2 ?    9.7   1.0   0.00043      0.71      32      48 ..     217     233 ..     211     241 .. 0.84
   3 ?    2.6   0.2     0.073   1.2e+02      18      32 ..     231     245 ..     229     247 .. 0.89

  Alignments for each domain:
  == domain 1  score: 0.9 bits;  conditional E-value: 0.24
                              S-GGG-EEEEEEETTEEESSHHHHHHH CS
                  DUF1965  18 RdpskWkvlGwlyngifYetteeFRaa 44 
                               d ++W+++ +      Y+t + FR+a
  PHY93_20395|PHY93_20395 176 GDHHDWTLTHFEALMSKYPTSHYFRSA 202
                              588899999998888899999999988 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.00043
                              TEEESSHHHHHHHHTST CS
                  DUF1965  32 gifYetteeFRaaiksp 48 
                               +fY+t+eeFR+ + ++
  PHY93_20395|PHY93_20395 217 KKFYATVEEFRKKYRNT 233
                              68**********99875 PP

  == domain 3  score: 2.6 bits;  conditional E-value: 0.073
                              S-GGG-EEEEEEETT CS
                  DUF1965  18 RdpskWkvlGwlyng 32 
                              R+ ++Wk+l  +y+ 
  PHY93_20395|PHY93_20395 231 RNTNEWKILSSYYEK 245
                              899*********985 PP

>> NRBF2  Nuclear receptor-binding factor 2, autophagy regulator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   2.8   0.00019       0.3      77     122 ..      23      68 ..      18      74 .. 0.92

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00019
                    NRBF2  77 DktkleeqatkiadLkrlvelLlaenerLrkenkqLkaekaRLqke 122
                              D  k+ee+a  i++ ++    L  +n  L++e k+L  e  +L++e
  PHY93_20395|PHY93_20395  23 DMKKIEEKAAMINHYEQVSLKLARDNRELHAEVKRLEFEVEKLKQE 68 
                              6789************************************999986 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.8   0.0     0.082   1.3e+02      56      74 ..      11      29 ..       2      37 .. 0.78
   2 ?   -2.8   0.0       4.7   7.6e+03      12      39 ..      62      86 ..      53      90 .. 0.64
   3 ?    2.7   0.2     0.093   1.5e+02      25      56 ..     126     158 ..     117     180 .. 0.78
   4 ?    7.1   0.2    0.0039       6.4      13      54 ..     187     232 ..     177     248 .. 0.77

  Alignments for each domain:
  == domain 1  score: 2.8 bits;  conditional E-value: 0.082
                             HHHHHHHHHHHHHTT-HHH CS
                   ANAPC3 56 lgcrylfAqcllkLkkyee 74
                             + ++ l+A c++++kk+ee
  PHY93_20395|PHY93_20395 11 ILVLPLLASCSVDMKKIEE 29
                             5566799**********99 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 4.7
                             HHHHH.HHH--HHHHHHHHHHHHHTT-H CS
                   ANAPC3 12 aerllaaetespedayllAlclylngqy 39
                              e+l    +e +++a  ++++  + +++
  PHY93_20395|PHY93_20395 62 VEKLK---QEKSYSAVVHGEVATHENKH 86
                             55555...66677777777776666665 PP

  == domain 3  score: 2.7 bits;  conditional E-value: 0.093
                              HHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-H CS
                   ANAPC3  25 dayllAlclylngqykrAyellrka.klnsksl 56 
                              d++  A   ++ ++y++A +++ ++ + +++++
  PHY93_20395|PHY93_20395 126 DLMKIADKEFKEKNYEKAAQFYTSLvNNYPTNK 158
                              555556666899999999999999877777665 PP

  == domain 4  score: 7.1 bits;  conditional E-value: 0.0039
                              HHHH....HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC CS
                   ANAPC3  13 erlla...aetespedayllAlclylngqykrAyellrka.klnsk 54 
                              e l++   ++++  ++ ++ Al++ ++g+ k+ y  ++++ k++ +
  PHY93_20395|PHY93_20395 187 EALMSkypTSHYFRSAKLWVALTHMKLGDKKKFYATVEEFrKKYRN 232
                              55552233888899999********************999555544 PP

>> KASH_CCD  Coiled-coil region of CCDC155 or KASH
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   5.7   0.00017      0.27      76     142 ..      24      93 ..      17     100 .. 0.83
   2 ?   -3.9   0.0       6.4     1e+04      75      87 ..     219     231 ..     213     237 .. 0.44

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00017
                 KASH_CCD  76 vkeleEkrarlkaqnk...qlekenqsLiakiesLqeenikllaekdelkkklkeLlkekaeLkkqlhel 142
                              +k++eEk+a ++ +++   +l ++n  L a+++ L+ e +kl++ek+ ++    e ++++++  +++he+
  PHY93_20395|PHY93_20395  24 MKKIEEKAAMINHYEQvslKLARDNRELHAEVKRLEFEVEKLKQEKSYSAVVHGEVATHENKHEENNHEA 93 
                              688999999888776544489**************************99999999888887777777766 PP

  == domain 2  score: -3.9 bits;  conditional E-value: 6.4
                 KASH_CCD  75 lvkeleEkrarlk 87 
                              +  ++eE r++  
  PHY93_20395|PHY93_20395 219 FYATVEEFRKKYR 231
                              3333333333333 PP

>> ZapB  Cell division protein ZapB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   2.3   0.00029      0.48      21      61 ..      49      97 ..      28     101 .. 0.75
   2 ?   -2.5   0.0       4.5   7.3e+03      29      39 ..     134     144 ..     128     153 .. 0.68

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00029
                     ZapB 21 tlLqmeieeLkeeneelkeenrele........eeneqlkeereawqer 61
                             ++L  e+++L+ e+e+lk+e+            +en+++++++ea  + 
  PHY93_20395|PHY93_20395 49 RELHAEVKRLEFEVEKLKQEKSYSAvvhgevatHENKHEENNHEAHGRT 97
                             6677777777777777777776666777777789999999999886665 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 4.5
                     ZapB  29 eLkeeneelke 39 
                              e ke+n+e + 
  PHY93_20395|PHY93_20395 134 EFKEKNYEKAA 144
                              56677766554 PP

>> MapZ_EC1  MapZ extracellular domain 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   0.3     0.016        26      39      64 ..      48      74 ..      25      88 .. 0.88
   2 ?    9.3   1.7   0.00079       1.3      45      85 ..     124     164 ..     109     170 .. 0.88
   3 ?   -1.5   0.3       1.7   2.7e+03      53      73 ..     228     248 ..     213     250 .] 0.66

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.016
                 MapZ_EC1 39 nsef.aklseLekkLeklkgskeYkkl 64
                             n e  a+++ Le ++eklk++k+Y+++
  PHY93_20395|PHY93_20395 48 NRELhAEVKRLEFEVEKLKQEKSYSAV 74
                             66777999****************985 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.00079
                 MapZ_EC1  45 lseLekkLeklkgskeYkklkkkldslkkqisaieavNsqF 85 
                              +++L+k  +k  ++k+Y+k+ + + sl +++ + +++N+ F
  PHY93_20395|PHY93_20395 124 VDDLMKIADKEFKEKNYEKAAQFYTSLVNNYPTNKSINDEF 164
                              6788888888789999***********************99 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 1.7
                 MapZ_EC1  53 eklkgskeYkklkkkldslkk 73 
                              +k+ +++e+k l++ ++++++
  PHY93_20395|PHY93_20395 228 KKYRNTNEWKILSSYYEKIEE 248
                              466677777777777776666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (250 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1782  (0.099392); expected 358.6 (0.02)
Passed bias filter:                      637  (0.035529); expected 358.6 (0.02)
Passed Vit filter:                        76  (0.00423894); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.60u 0.24s 00:00:00.84 Elapsed: 00:00:00.46
# Mc/sec: 1636.53
//
Query:       PHY93_20400|PHY93_20400  [L=263]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.9e-25   89.9   0.0    2.4e-25   89.5   0.0    1.0  1  Peripla_BP_2  Periplasmic binding protein


Domain annotation for each model (and alignments):
>> Peripla_BP_2  Periplasmic binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   89.5   0.0   1.3e-29   2.4e-25       1     234 [.      10     235 ..      10     238 .. 0.94

  Alignments for each domain:
  == domain 1  score: 89.5 bits;  conditional E-value: 1.3e-29
                              EEE-SHHHHHHHHHTT-GGGEEEB-GGG--GGGGGGT..TS-BSBESSSB-HHHHHHH--SEEEE-GGG...GGGHHHHHHHS-EE CS
             Peripla_BP_2   1 iaslspsvteillalGatdkvvgvdtttsdpldadkleeaivevgadgeidvEklaalkPDlvilskglgltdedeellksgiptv 86 
                              i++l+ +++e++ a+G +d +vgv+ ++++p + +    + ++++a + +++ k++ lkPDlvi+ +++ + d + +l  +gi+++
  PHY93_20400|PHY93_20400  10 IICLTEESVEFFHAIGRSDLIVGVSVYAVRPPEVK----NHPVISAFTHANIKKIIGLKPDLVIGFSDI-QKDIARDLIGEGINVY 90 
                              89********************************9....899***************************.**************** PP

                              E----TTSHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHHTS-TT.-EEEEEEEETTE..EEEE-TTSTTTHHHHTS--EES CS
             Peripla_BP_2  87 ivessntgeslkeqiralgellgledeaeklvaeidsklaaaksaidsekpkpvlvfggadeggyvvagsnsyigdlldalgieni 172
                              i ++++  +++   +  lg+++g+ ++ +++  e+++k+  a s +++ k+ p +   ++de  +++     ++++l++  g+ +i
  PHY93_20400|PHY93_20400  91 ISNQRSL-DEILAYLWSLGHMVGEGEKTKEFLLELEEKMKWAASVASNFKKHPKVFIEEWDE--PKIV-GIRWFSELVELCGGIDI 172
                              *****96.*****************************************8888888888888..3333.467************** PP

                              TTT--....STT-EEE-HHHHHHH--SEEEEEEHHHHT-S--HHHHT-SHHHHTSHHHHTT-EEEE CS
             Peripla_BP_2 173 aaesk....kseyeeisaEqilasdpdvifvsgraeadnktgleflkenpllaelpAvkngrVyal 234
                              + e        +   ++ E+++a++pd+i+  ++    +k + + +k++p ++e+  vkng+V++l
  PHY93_20400|PHY93_20400 173 FRERShaggLASERLVNSEEVVAANPDIILACWC---GKKVDIDSIKARPNYSEISGVKNGQVIEL 235
                              9998889876666679******************...***************************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (263 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       447  (0.0249317); expected 358.6 (0.02)
Passed bias filter:                      434  (0.0242066); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.43
# Mc/sec: 1855.67
//
Query:       PHY93_20405|PHY93_20405  [L=436]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.7e-18   67.2   0.0    3.4e-18   66.2   0.0    1.5  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    1.3e-07   31.5   0.1    2.8e-07   30.5   0.1    1.6  1  HisKA        His Kinase A (phospho-acceptor) domain
    1.8e-06   27.8   0.0    3.6e-06   26.8   0.0    1.5  1  HATPase_c_5  GHKL domain
    0.00081   19.2   0.0      0.011   15.5   0.0    2.4  3  HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like
  ------ inclusion threshold ------
       0.15   12.0   0.0       0.26   11.2   0.0    1.3  1  HATPase_c_2  Histidine kinase-like ATPase domain


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.2   0.0   9.4e-22   3.4e-18       4     109 ..     332     435 ..     329     436 .] 0.84

  Alignments for each domain:
  == domain 1  score: 66.2 bits;  conditional E-value: 9.4e-22
                              HHHHHHHHHHHHHHHHH..HSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHHHHH CS
                HATPase_c   4 krLrqiisnlvdNavkf..atkageieveikaseddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkklvel 87 
                              +++ q+i nl+ Na+++  +++ ++iev+  +++++++i ++D+G G+pke  kk+f++f +   tk+ g+gtGlGlsi+k lve 
  PHY93_20405|PHY93_20405 332 SFISQVILNLINNAIDAleTASVKKIEVRAFVEKKWIHIIISDTGAGVPKEFEKKIFDPFFT---TKTFGKGTGLGLSISKGLVEV 414
                              6899************9532244455555555567***************************...89999**************** PP

                              TTTEEEEEEETTTEEEEEEEEE CS
                HATPase_c  88 mgGeiwvesepgrGttftftlp 109
                              ++Ge+ + ++ g  + f+++lp
  PHY93_20405|PHY93_20405 415 HEGELLY-ERVGNVSNFIVRLP 435
                              ****999.77777777887776 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.5   0.1   7.8e-11   2.8e-07       1      66 [.     217     286 ..     217     287 .. 0.79

  Alignments for each domain:
  == domain 1  score: 30.5 bits;  conditional E-value: 7.8e-11
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHC..T-HSSCHH.......HHHHHHHHHHHHHHHHHHHHHHCCHHH CS
                    HisKA   1 slgrflagvaHELrtPLsailgnaeaLkregklteelke.......yletiesearrldhlvedlLdlsriea 66 
                              slg++++++aH++++PL +i+g ++ +++      + +         +e++e     l+++v+ + +++r++ 
  PHY93_20405|PHY93_20405 217 SLGQMASNLAHDINNPLFTIQGKLHQMRNL---LSRDQLdldkcdqIVESVEATLLKLSQIVKGISTFAREGR 286
                              79*************************884...33333323434457777777777*********99999876 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.8   0.0   9.9e-10   3.6e-06       6      90 ..     334     424 ..     330     435 .. 0.83

  Alignments for each domain:
  == domain 1  score: 26.8 bits;  conditional E-value: 9.9e-10
              HATPase_c_5   6 lcvilgnlLdNAieacskieeekrfIrltvrekkksliisieNsyeg.....ek...kklesskskkeehGiGlksireivkkykg 83 
                              ++ ++ nl++NAi+a ++ +   ++I++ +  +kk + i+i+ + +g     ek   + ++++k+ ++  G+Gl+  + +v+ ++g
  PHY93_20405|PHY93_20405 334 ISQVILNLINNAIDALETAS--VKKIEVRAFVEKKWIHIIISDTGAGvpkefEKkifDPFFTTKTFGKGTGLGLSISKGLVEVHEG 417
                              577999************99..8*********************88855544222356667*********************9999 PP

              HATPase_c_5  84 nlsieae 90 
                              +l +e  
  PHY93_20405|PHY93_20405 418 ELLYERV 424
                              9887765 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.0      0.17     6e+02      68      90 ..     106     127 ..      86     145 .. 0.83
   2 ?   -2.6   0.0       1.2   4.4e+03      73     112 ..     276     314 ..     271     325 .. 0.72
   3 !   15.5   0.0   3.1e-06     0.011       4      58 ..     335     392 ..     332     407 .. 0.76

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.17
              HATPase_c_3  68 tslGkkGiGlklAslslgkkltv 90 
                              t+ ++kG+G ++  ++l  ++ +
  PHY93_20405|PHY93_20405 106 TCFSEKGMG-FFGLIWLIPTFLM 127
                              6789*****.9999988766655 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 1.2
              HATPase_c_3  73 kGiGlklAslslgkkltvitkkegesstltldvdkidken 112
                              kGi   +A    g+++  i+ +e  +s l l +d i++++
  PHY93_20405|PHY93_20405 276 KGIS-TFAREGRGDQMVSISVAELIESDLALAIDRIKNSG 314
                              5666.67777778888888888888888888888887654 PP

  == domain 3  score: 15.5 bits;  conditional E-value: 3.1e-06
              HATPase_c_3   4 ekAlaelvdNsld....AdaenvkievnknrgktgeivieDdGkGmseeelknalrlat 58 
                               ++++ l++N++d    A+ +++++ +  ++ k   i i D G+G+++e  k+ + +  
  PHY93_20405|PHY93_20405 335 SQVILNLINNAIDaletASVKKIEVRAFVEK-KWIHIIISDTGAGVPKEFEKKIFDPFF 392
                              5789*********666667777888777654.689***********9985555666554 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   7.4e-05      0.26      41     113 ..     343     416 ..     337     431 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 7.4e-05
              HATPase_c_2  41 tNavehayleapegpvevrlesdeealtvevaDsGpgfdpe..tlpdpteeepkeslkegGrGlalikglvDeve 113
                              +Na+ +       +++evr+ ++++++++ ++D G+g + e  ++  ++  + k+ +k  G+Gl + kglv+  e
  PHY93_20405|PHY93_20405 343 NNAIDALETAS-VKKIEVRAFVEKKWIHIIISDTGAGVPKEfeKKIFDPFFTTKTFGKGTGLGLSISKGLVEVHE 416
                              56666666544.499********************994443223333333344899**************98764 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (436 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       937  (0.0522617); expected 358.6 (0.02)
Passed bias filter:                      379  (0.0211389); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.62u 0.27s 00:00:00.89 Elapsed: 00:00:00.47
# Mc/sec: 2804.52
//
Query:       PHY93_20410|PHY93_20410  [L=68]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (68 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       338  (0.0188521); expected 358.6 (0.02)
Passed bias filter:                      216  (0.0120475); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.27s 00:00:00.68 Elapsed: 00:00:00.44
# Mc/sec: 463.42
//
Query:       PHY93_20415|PHY93_20415  [L=184]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.7e-17   62.0   0.0    3.7e-16   59.6   0.0    1.9  1  PseudoU_synth_2  RNA pseudouridylate synthase
  ------ inclusion threshold ------
      0.023   14.7   0.1       0.52   10.4   0.0    2.2  2  La               La domain


Domain annotation for each model (and alignments):
>> PseudoU_synth_2  RNA pseudouridylate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.6   0.0   4.1e-20   3.7e-16       2     160 .]       6     151 ..       5     151 .. 0.81

  Alignments for each domain:
  == domain 1  score: 59.6 bits;  conditional E-value: 4.1e-20
          PseudoU_synth_2   2 lvvvnKPagvpvqpeakdgsekekettatssraeeekkelklvhRLDkatsGllllAksseaanklakafeerkvrKkYlalvfga 87 
                              ++++nKP+g+ +q +         e+ ++   + + +k +++++RLDk+++Gllll++++++ ++l +  +++   K+Y++ v+  
  PHY93_20415|PHY93_20415   6 YLAFNKPYGILSQFTS--------EKMEETLSNFNLPKDIYACGRLDKDSEGLLLLTNDGALIDRLLN--PKNDKIKTYWVQVE-- 79 
                              789*************........77777778889999******************************..*************6.. PP

          PseudoU_synth_2  88 peeeegaikkkiskdtekqegarrkaeeldgkkavtylkvlksgs..........seksakvslveleletGrkhQiRvhlaa 160
                               +++++ +kk            +  +   d + + +++++l+             +    ++ ++elel +G+++Q+R++ aa
  PHY93_20415|PHY93_20415  80 KIPTADDLKK-----------LSAGVLIGDYQTKPCKVHILDPVFeipernppirTRLTVPTCWLELELTEGKNRQVRRMTAA 151
                              3333333322...........3334556666666666666666556667777777779999*******************986 PP

>> La  La domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0   5.8e-05      0.52       6      32 ..      25      51 ..      21      55 .. 0.86
   2 ?    2.1   0.0     0.023   2.1e+02      17      48 ..      61      92 ..      59     102 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 5.8e-05
                             HHHHHTT-TTT-HHHHHHHTTSTTS-- CS
                       La  6 EfYFSdeNLpkDkFLrkkmdkdpegwV 32
                             E  +S+ NLpkD +   ++dkd+eg  
  PHY93_20415|PHY93_20415 25 EETLSNFNLPKDIYACGRLDKDSEGLL 51
                             55689******************9975 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.023
                             -HHHHHHHTTSTTS---HHHHHTSSHHHHHHS CS
                       La 17 DkFLrkkmdkdpegwVplsliasfkrmkkltk 48
                             D+ L+ k dk +  wV+++ i +   +kkl++
  PHY93_20415|PHY93_20415 61 DRLLNPKNDKIKTYWVQVEKIPTADDLKKLSA 92
                             55566666777789*******99999999984 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (184 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       266  (0.0148363); expected 358.6 (0.02)
Passed bias filter:                      260  (0.0145016); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.42
# Mc/sec: 1313.82
//
Query:       PHY93_20420|PHY93_20420  [L=830]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.3e-90  300.4   0.0    1.7e-74  249.9   0.0    2.2  2  Peptidase_U32  Peptidase family U32
      1e-15   58.3   0.5    5.4e-15   55.9   0.2    2.3  2  DUF3656        Collagenase
  ------ inclusion threshold ------
      0.061   13.6   0.0       0.29   11.5   0.0    2.1  2  DUF1958        Domain of unknown function (DUF1958)


Domain annotation for each model (and alignments):
>> Peptidase_U32  Peptidase family U32
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  249.9   0.0   2.8e-78   1.7e-74       3     229 ..      80     302 ..      78     306 .. 0.96
   2 !   48.4   0.0     1e-16   6.3e-13      10     228 ..     608     821 ..     601     826 .. 0.87

  Alignments for each domain:
  == domain 1  score: 249.9 bits;  conditional E-value: 2.8e-78
            Peptidase_U32   3 klrkyleklaelgvdavivqDpgvlelareeapelelhlStqanitnseavrflkelGasrvvlaRElsleeikaikekvpdvelE 88 
                              ++ k+l+++  l +da+ivqD+g++ l+r + p++ +h Stq+++tn+ea+ +l +l ++r vl RE+s+ e+kaikek+ d elE
  PHY93_20420|PHY93_20420  80 EVVKLLTQVLPLAPDALIVQDVGLAVLVRAMDPNQIIHGSTQMTVTNHEAMTLLDDLSIKRFVLGREVSIPEMKAIKEKT-DRELE 164
                              67889999999*********************************************************************.***** PP

            Peptidase_U32  89 vfvhGalcvaysGrcllssylsgrsanrgecaqpcrldyrlieekekgeeepieedekgtyllspkdlclieelpelleaGvdslK 174
                              vfvhGalcvaysG+c++s+ ++grsanrg+caq+cr++y li ++++ ++ +++      yl+spkdlc+i+++pel++ G+ds+K
  PHY93_20420|PHY93_20420 165 VFVHGALCVAYSGQCFTSESIGGRSANRGQCAQSCRFEYDLIVDGKNHDLGDKK------YLVSPKDLCGISQIPELVDLGIDSFK 244
                              **************************************************9888......************************** PP

            Peptidase_U32 175 IeGRmkspeyvatvvrvYreaidallagr...eevkeelkeeleklanrgltsgfllg 229
                              +eGR+k+peyva+ ++ Y eaid+ l+++   ++  e+ k+e+  +++rg+ sg+l+g
  PHY93_20420|PHY93_20420 245 VEGRLKTPEYVASAAKNYSEAIDKKLNKKtftQKNIEDAKREMGLTYSRGFFSGWLDG 302
                              ****************************998777789999**************9987 PP

  == domain 2  score: 48.4 bits;  conditional E-value: 1e-16
            Peptidase_U32  10 klaelgvdavivqDpgvlelareeapelelhlStqanitnseavrflkelGasrvvlaRElsleeikaikekvpdvelEvfvhGal 95 
                               ++++++d + +  +g++++ ++    +el  +   n+tns +++++   + + v+++ +l+  ++ ++ +++++  +Ev +h  +
  PHY93_20420|PHY93_20420 608 VIERANPDVILCRNLGAVQYFKDS--AFELRGDFSLNVTNSLTANYFLTKNLKSVCASYDLNDSQLSDLLKNTESGSIEVTIHQYM 691
                              567899******************..889999999*************************************************** PP

            Peptidase_U32  96 cvaysGrcllssylsgrsanrgecaqpcrl.dyrlieekekgeeepieedekgtyllspkdlclieelpelleaGvdslKIeGRmk 180
                                ++  +c++ ++ls  s    +c +pc + + +l ++  + ++++++ +e  + ++++   ++ + +p+  + G++ ++ e  + 
  PHY93_20420|PHY93_20420 692 PSFHMEHCVFAAFLSTGS-SFRDCGKPCEKhRVELKDQFGN-THQIKADQECRNTMFNSTSQSAAKLVPDWKKLGLTEFRFEALYE 775
                              *************99866.4678******988887777764.4555555666668999999***********************99 PP

            Peptidase_U32 181 speyvatvvrvYreaidallagreevkeelkeeleklanrgltsgfll 228
                              +    +  +  Y ++i++  ++    ++ l+ +l    + gl++  ++
  PHY93_20420|PHY93_20420 776 KGAELKDKIMGYAHLIKDNSSNS--YNQTLMTKLGVHEKYGLSDKAFD 821
                              98888888899999999988777..77788887776666666666655 PP

>> DUF3656  Collagenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.9   0.2   9.1e-19   5.4e-15       1     106 [.     393     511 ..     393     512 .. 0.94
   2 ?   -1.1   0.0      0.49   2.9e+03      56      76 ..     752     772 ..     712     780 .. 0.74

  Alignments for each domain:
  == domain 1  score: 55.9 bits;  conditional E-value: 9.1e-19
                  DUF3656   1 vyrtsdkklteelekslek.seerkipvdlelaakegeplkltvtde...........leeAkkrplteenirkqLsklGgtpFel 74 
                              vy ++d++++++l++s+++ + ++++p+ l+++a  g pl+l vtd            +e++++rp+t e+++++L+ l  t F l
  PHY93_20420|PHY93_20420 393 VYFNHDATVEKALTQSYTDkNLKKRLPLHLTVKACIGMPLELAVTDGehqlsfksessVEASRERPTTIEDLKAELGALSATCFIL 478
                              799****9999******99777888*******************977999************************************ PP

                  DUF3656  75 eeieidldgl.fiPvseLnelRRealekLeear 106
                              +e e++ d+  fi  +eL+ lRR++ e+L + r
  PHY93_20420|PHY93_20420 479 SEFEFSGDKKfFIHQKELKTLRRKFTEELMKVR 511
                              *****999555******************9876 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.49
                  DUF3656  56 teenirkqLsklGgtpFelee 76 
                              +++++    +klG t F++e 
  PHY93_20420|PHY93_20420 752 SAAKLVPDWKKLGLTEFRFEA 772
                              45667777799******9986 PP

>> DUF1958  Domain of unknown function (DUF1958)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0      0.68   4.1e+03      11      23 ..     326     338 ..     324     348 .. 0.76
   2 ?   11.5   0.0   4.8e-05      0.29      10      36 ..     351     377 ..     338     382 .. 0.88

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 0.68
                  DUF1958  11 tIdGkkvtlekDl 23 
                               I+ k +++++D 
  PHY93_20420|PHY93_20420 326 SINSKSIKIKSDY 338
                              5999******994 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 4.8e-05
                  DUF1958  10 qtIdGkkvtlekDlYdvvkkgaeptlk 36 
                               tI+G+k++l   lYdv  kg+e +l 
  PHY93_20420|PHY93_20420 351 STINGRKIELGGMLYDVATKGSELELF 377
                              59********************98875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (830 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       730  (0.0407162); expected 358.6 (0.02)
Passed bias filter:                      555  (0.0309554); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.79u 0.28s 00:00:01.07 Elapsed: 00:00:00.49
# Mc/sec: 5045.21
//
Query:       PHY93_20425|PHY93_20425  [L=194]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.9e-53  180.3   4.7    2.3e-53  180.1   4.7    1.0  1  LemA        LemA family
  ------ inclusion threshold ------
      0.041   14.5   0.1      0.073   13.7   0.1    1.5  1  Phostensin  Phostensin PP1-binding and SH3-binding region
      0.056   13.1   0.9      0.066   12.8   0.9    1.1  1  UPF0160     Uncharacterised protein family (UPF0160)
      0.065   13.8   0.1        0.1   13.2   0.1    1.3  1  YbaJ        Biofilm formation regulator YbaJ
       0.16   11.5   4.4        2.5    7.5   1.8    2.1  2  FAP206      Domain of unknown function


Domain annotation for each model (and alignments):
>> LemA  LemA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  180.1   4.7   6.4e-57   2.3e-53       1     147 [.      36     194 .]      36     194 .] 0.95

  Alignments for each domain:
  == domain 1  score: 180.1 bits;  conditional E-value: 6.4e-57
                     LemA   1 awsqidvqlkrRaDlipnLvetvkgyakhEketleevteaRaka.........aeaesveekaeaenqlssalsrllavaEnYPdL 77 
                              +w+++++q+krR+DlipnLve+vkgyakhE+etl++v+eaR++a          ++e+++++++a+++ls+als+l++v+E+YPdL
  PHY93_20425|PHY93_20425  36 SWAEVQNQYKRRSDLIPNLVEVVKGYAKHEQETLTKVIEARSNAtkvnftadqLNEETMQKFQKAQANLSGALSKLMVVVEKYPDL 121
                              6*******************************************9*****99999******************************* PP

                     LemA  78 kanenfleLqeelegtEnriavaRrrYneavreyntkiesfpsnivaklf.gfkekelfeaee.ae.reapkV 147
                              kanenf++Lq++legtEnri+vaR+rY ea++e+n+ ++  p++++ ++f ++++k+ f +e+ +e ++ap+V
  PHY93_20425|PHY93_20425 122 KANENFRDLQSQLEGTENRITVARNRYIEAIKEFNNLVTVPPTSWYNGIFlHLTKKPQFAVENlEEvQKAPSV 194
                              ************************************************7626999******764566788876 PP

>> Phostensin  Phostensin PP1-binding and SH3-binding region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.1     2e-05     0.073      70     126 ..      32      90 ..      19     117 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 2e-05
               Phostensin  70 elseadaalkttlKkryptvee.IeViGGYlaLekscLvkagssr.KklKisFneksLe 126
                              +++ + a++++  K+r   + + +eV+ GY + e+ +L+k    r   +K+ F   +L+
  PHY93_20425|PHY93_20425  32 QVEASWAEVQNQYKRRSDLIPNlVEVVKGYAKHEQETLTKVIEARsNATKVNFTADQLN 90 
                              334467888999999987665438*****************99886889****988885 PP

>> UPF0160  Uncharacterised protein family (UPF0160)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.9   1.9e-05     0.066     100     184 ..      26     112 ..      14     160 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 1.9e-05
                  UPF0160 100 leldeeevellyeklyeefveaiDaiDnGisvyee.vekkykikt.slssrvgrlnpewneeekeedederFekAselvgeeflek 183
                              +++ +++ve+ + ++ +++ +  D i n ++v++   ++++++ t  +++r ++ + +++ ++ +e++ ++F+kA + ++  + + 
  PHY93_20425|PHY93_20425  26 IPTANNQVEASWAEVQNQYKRRSDLIPNLVEVVKGyAKHEQETLTkVIEARSNATKVNFTADQLNEETMQKFQKAQANLSGALSKL 111
                              457899*************************999653333333334778888888889999**************99888777765 PP

                  UPF0160 184 v 184
                              +
  PHY93_20425|PHY93_20425 112 M 112
                              5 PP

>> YbaJ  Biofilm formation regulator YbaJ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.1   2.8e-05       0.1      59     113 ..      58     110 ..      23     115 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 2.8e-05
                     YbaJ  59 vlnfkikykeesdlseqideylddtyalfssygineadlrkwqkskkrlfnilae 113
                              v  +    +e++ l++ i+   + t + f+++++ne+ ++k+qk++++l + l++
  PHY93_20425|PHY93_20425  58 VKGYA--KHEQETLTKVIEARSNATKVNFTADQLNEETMQKFQKAQANLSGALSK 110
                              44442..356678************************************998875 PP

>> FAP206  Domain of unknown function
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   1.8    0.0007       2.5       5      97 ..      25     116 ..      23     127 .. 0.91
   2 ?    4.8   0.0    0.0049        17      64      96 ..     127     159 ..     121     165 .. 0.90

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0007
                   FAP206   5 aipatreaiekeleeaqelasrytallekl..veeseaevaeeqlerlkqalinvrqyeaylrilledveksaeeveellkrfeae 88 
                              +ip++++++e++  e+q++ +r   l+ +l  v +  a++++e l ++ +a  n++  +   + l+e+     +++++ + +++ +
  PHY93_20425|PHY93_20425  25 SIPTANNQVEASWAEVQNQYKRRSDLIPNLveVVKGYAKHEQETLTKVIEARSNATKVNFTADQLNEET---MQKFQKAQANLSGA 107
                              7999***********************9999999999*****************************998...89999999999999 PP

                   FAP206  89 leklketvk 97 
                              l+kl  +v+
  PHY93_20425|PHY93_20425 108 LSKLMVVVE 116
                              999877776 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.0049
                   FAP206  64 lrilledveksaeeveellkrfeaeleklketv 96 
                               r l++++e +++++++ ++r+ +++++ +++v
  PHY93_20425|PHY93_20425 127 FRDLQSQLEGTENRITVARNRYIEAIKEFNNLV 159
                              5779************************99998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (194 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1584  (0.0883485); expected 358.6 (0.02)
Passed bias filter:                      764  (0.0426125); expected 358.6 (0.02)
Passed Vit filter:                        87  (0.00485247); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.59u 0.26s 00:00:00.85 Elapsed: 00:00:00.46
# Mc/sec: 1257.27
//
Query:       PHY93_20430|PHY93_20430  [L=241]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.5e-27   95.5   0.1      3e-27   95.3   0.1    1.1  1  TPM_phosphatase  TPM domain
  ------ inclusion threshold ------
        1.7    9.4  31.6        4.9    7.9  31.6    1.9  1  GRP              Glycine rich protein family


Domain annotation for each model (and alignments):
>> TPM_phosphatase  TPM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   95.3   0.1   3.3e-31     3e-27       1     121 [.      30     149 ..      30     153 .. 0.97

  Alignments for each domain:
  == domain 1  score: 95.3 bits;  conditional E-value: 3.3e-31
                              EEE-SS-S-HHHHHHHHHHHHHHHHTT--EEEEEEESB-TT--HHHHHHHHHHHHSTTTTS-SSEEEEEEETTTTEEEEEE-STTT CS
          TPM_phosphatase   1 vvDeaglLsdeeeaeleeklaalekktgvqivvvtvdsldgediedyadelfdkwglgkkkkdngvllliavddrkvrietgygle 86 
                              vvD+a +Lsd    ++ ++l +l++++g+q+ v+++++l++e+ie y+ ++ d+w++gkk++d  +l+li  dd+k+rie+g+gle
  PHY93_20430|PHY93_20430  30 VVDQARFLSDPAHLAIANALYNLQQQQGIQFQVLIISKLKDESIEGYSIKVVDAWKIGKKGDDRAALFLIVADDHKMRIEVGRGLE 115
                              89********************************************************************999************* PP

                              TT--HHHHHHHHHHTHHHHHHHT-HHHHHHHHHHH CS
          TPM_phosphatase  87 galtdaraesildetilpalkdgdyaggilaavda 121
                              g ltd ++ +il+e + p +k+gd + g++ ++  
  PHY93_20430|PHY93_20430 116 GQLTDLKTRRILEE-VRPLFKKGDNDNGVALGLSL 149
                              **************.*************9988765 PP

>> GRP  Glycine rich protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9  31.6   0.00055       4.9      46      90 ..     197     238 ..     174     241 .] 0.61

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.00055
                      GRP  46 ggggkhggGgygggggggngGGGykgggGgygggggggeggyGgG 90 
                              gg g  ggGg+gg gggg gGGG+   gGg+ ggggg +gg   G
  PHY93_20430|PHY93_20430 197 GGRGGFGGGGFGGFGGGGFGGGGGGSSGGGWSGGGGGFSGG---G 238
                              23333355555555555555555555555555555555443...3 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (241 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       559  (0.0311785); expected 358.6 (0.02)
Passed bias filter:                      407  (0.0227007); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.44
# Mc/sec: 1662.79
//
Query:       PHY93_20435|PHY93_20435  [L=204]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.1e-11   44.1   0.2    3.7e-10   40.1   0.1    2.0  2  TPM_phosphatase  TPM domain
     0.0084   16.3   0.0      0.012   15.8   0.0    1.3  1  DUF5130          Domain of unknown function (DUF5130)


Domain annotation for each model (and alignments):
>> TPM_phosphatase  TPM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.0     0.021   1.9e+02       8      39 ..       3      34 ..       1      46 [. 0.81
   2 !   40.1   0.1   4.1e-14   3.7e-10      35     124 ..      95     182 ..      89     183 .. 0.90

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.021
                             S-HHHHHHHHHHHHHHHHTT--EEEEEEESB- CS
          TPM_phosphatase  8 Lsdeeeaeleeklaalekktgvqivvvtvdsl 39
                             +s++++  + + ++++e++t+ +iv ++++  
  PHY93_20435|PHY93_20435  3 ISNKDKLLIKNLITQAENRTQSEIVPMITHHS 34
                             67777778899*************98887754 PP

  == domain 2  score: 40.1 bits;  conditional E-value: 4.1e-14
                              EESB-TT--HHHHHHHHHHHHSTTTTS-SSEEEEEEETTTTEEEEEE-STTTTT--HHHHHHHHHHTHHHHHHHT-HHHHHHHHHH CS
          TPM_phosphatase  35 tvdsldgediedyadelfdkwglgkkkkdngvllliavddrkvrietgyglegaltdaraesildetilpalkdgdyaggilaavd 120
                              t d + +++ e+ a+e+f +++l  +k++ gvl+li+v ++k+ i  ++g+ +++ ++++++i+ + +++++kdg++ gg+++ ++
  PHY93_20435|PHY93_20435  95 TQDEM-NKEVEQKAYEAFFHHNLHLTKHHTGVLILISVMEKKIKIISDSGISKKVEQKIWDEIIFQ-FTQKIKDGNFIGGLTDSIE 178
                              55555.46688999999999999999999********99***************************.******************9 PP

                              HHHH CS
          TPM_phosphatase 121 aiea 124
                               +++
  PHY93_20435|PHY93_20435 179 SVAN 182
                              9987 PP

>> DUF5130  Domain of unknown function (DUF5130)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.0   1.3e-06     0.012      74     134 ..     119     179 ..      92     181 .. 0.88

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 1.3e-06
                  DUF5130  74 pepenavLiavsPnqraievvsGaevadrvadrvaqlGvtaavssfreGdLidglvsavrv 134
                               + +++vLi +s  +++i+++s + ++++v++++ +  +   ++ +++G++i gl+ +++ 
  PHY93_20435|PHY93_20435 119 TKHHTGVLILISVMEKKIKIISDSGISKKVEQKIWDEIIFQFTQKIKDGNFIGGLTDSIES 179
                              456789*************************************************999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (204 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       952  (0.0530983); expected 358.6 (0.02)
Passed bias filter:                      504  (0.0281109); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.44
# Mc/sec: 1398.37
//
Query:       PHY93_13050|PHY93_13050  [L=375]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.6e-23   81.7   0.2    2.2e-22   79.5   0.0    2.2  2  AAA_14        AAA domain
    7.8e-15   55.1   0.0    5.3e-13   49.2   0.0    2.5  1  DUF4143       Domain of unknown function (DUF4143)
     0.0015   18.3   0.1     0.0036   17.0   0.1    1.6  1  HTH_23        Homeodomain-like domain
     0.0048   16.5   0.0     0.0099   15.5   0.0    1.5  1  Sigma70_r4_2  Sigma-70, region 4
     0.0092   16.1   0.0      0.018   15.1   0.0    1.4  1  HTH_28        Helix-turn-helix domain
  ------ inclusion threshold ------
      0.013   15.4   0.2      0.022   14.7   0.2    1.4  1  HSDR_N        Type I restriction enzyme R protein N terminus 
      0.016   15.1   0.0      0.043   13.8   0.0    1.8  1  HTH_36        Helix-turn-helix domain
      0.023   14.1   0.0      0.042   13.3   0.0    1.4  1  HTH_Tnp_ISL3  Helix-turn-helix domain of transposase family I
       0.03   14.3   0.0      0.065   13.2   0.0    1.6  1  ResIII        Type III restriction enzyme, res subunit
      0.048   13.4   0.0       0.11   12.2   0.0    1.6  2  AAA_24        AAA domain
      0.082   13.3   0.0       0.95    9.9   0.0    2.6  2  AAA           ATPase family associated with various cellular 
       0.09   12.7   0.1        0.3   11.1   0.1    1.9  1  HTH_11        HTH domain
       0.12   12.7   0.0         14    5.9   0.0    2.5  2  AAA_22        AAA domain


Domain annotation for each model (and alignments):
>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.5   0.0   1.6e-25   2.2e-22       2     130 ..      19     135 ..      18     136 .. 0.86
   2 ?   -0.9   0.1       1.2   1.6e+03      69      90 ..     259     279 ..     233     327 .. 0.58

  Alignments for each domain:
  == domain 1  score: 79.5 bits;  conditional E-value: 1.6e-25
                   AAA_14   2 rkilvitGaRrvGKTtllkqlikellvkkesilyinldderdkkladpekllelileklkeekktylflDEiqevpewekalkslv 87 
                              +k+++i+G+R+vGKT+l k l        ++++y+n d+ + ++         +i e+  +++k ++++DE +++++w+++lk+++
  PHY93_13050|PHY93_13050  19 KKLVLISGPRQVGKTYLSKSLS-------SDYIYLNYDNIDSQR---------EITERSWPRNKDLIIFDELHKMTNWKQWLKGIY 88 
                              6899*************98886.......4567******88853.........344442234799********************* PP

                   AAA_14  88 d....egknldvivtGSnskllskeiatslagrvaeielyplsfaEf 130
                              d    +++  +++vtGS+ ++  +++ +slagr+  ++l pls++E+
  PHY93_13050|PHY93_13050  89 DvegvKSPSPKILVTGSARLDTFRKMGDSLAGRYYLLHLLPLSVNEV 135
                              *766544778**********************************996 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 1.2
                   AAA_14  69 flDEiqevpewekalkslvdeg 90 
                              f+D i +++++e  l +lv ++
  PHY93_13050|PHY93_13050 259 FFD-IGQIKKIELRLENLVANH 279
                              333.333333333333333332 PP

>> DUF4143  Domain of unknown function (DUF4143)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.2   0.0   3.8e-16   5.3e-13       2     122 .]     179     327 ..     178     327 .. 0.90

  Alignments for each domain:
  == domain 1  score: 49.2 bits;  conditional E-value: 3.8e-16
                              xxxxxxxxxxxxxxxxx.......................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                  DUF4143   2 rDirklagvrdpeelrk.......................................glverlppwsespnskkrlrkspKlyfvDt 48 
                              +D+ +l++v +++++++                                       ++++ ++p+  s+ ++k + k pK+yf D 
  PHY93_13050|PHY93_13050 179 QDLLDLENVSSIKKIERlvqlladrvgsgisyaniardlevsaptikswiqileelYVIYLVRPF--SKTLAKSILKEPKIYFFDI 262
                              6888888888888888899999999****************************************..******************9 PP

                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                  DUF4143  49 GLlvallgldkeelledsenkGallEnlVaqeLlky......sekegaklyyyrdkngaEvDfvielkggkivpiEvKss 122
                              G +         e           lEnlVa++L k+      +   +++l+y+rdk+++EvDf++++++  +  iEvK s
  PHY93_13050|PHY93_13050 263 GQIKK------IE---------LRLENLVANHLYKKvqflndTMGLNYELMYFRDKEKREVDFILTEDNLPVQIIEVKTS 327
                              96433......22.........449***************9966679*******************99**********75 PP

>> HTH_23  Homeodomain-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.1   2.6e-06    0.0036      10      40 ..     196     230 ..     189     233 .. 0.85

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 2.6e-06
                   HTH_23  10 illllae....GlsvreIAreLgvsrrTvyrwlkr 40 
                               ++lla+    G+s++ IAr L vs  T+  w++ 
  PHY93_13050|PHY93_13050 196 LVQLLADrvgsGISYANIARDLEVSAPTIKSWIQI 230
                              57777777899*********************986 PP

>> Sigma70_r4_2  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   7.2e-06    0.0099      26      48 ..     207     229 ..     203     229 .. 0.92

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 7.2e-06
                              ---HHHHHHHHT--HHHHHHHHH CS
             Sigma70_r4_2  26 glsykEIAellgisegtVksrls 48 
                              g sy+ IA+ l++s  t+ks+++
  PHY93_13050|PHY93_13050 207 GISYANIARDLEVSAPTIKSWIQ 229
                              88*******************96 PP

>> HTH_28  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0   1.3e-05     0.018       5      38 ..     196     233 ..     194     234 .. 0.83

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.3e-05
                   HTH_28   5 iikllaa....GhsvreaArelgisrrtvyrWikryee 38 
                               ++lla+    G s++ +Ar l +s  t+++Wi+ +ee
  PHY93_13050|PHY93_13050 196 LVQLLADrvgsGISYANIARDLEVSAPTIKSWIQILEE 233
                              57888875644559999*****************9987 PP

>> HSDR_N  Type I restriction enzyme R protein N terminus (HSDR_N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.2   1.6e-05     0.022      90     143 ..     263     327 ..     211     373 .. 0.72

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1.6e-05
                              S-EEEEESS-SSSGGGS-EEEEE----S............SSS---EEEEEEETTEEEEEEEE--T CS
                   HSDR_N  90 grkknikLiDkknlenNrfqvvnQvtvt............gnqkrrpDivlfvnglplvviElKrp 143
                              g++k+i+L   +nl +N+     Q+  +            +++kr +D++l ++ lp+ +iE+K +
  PHY93_13050|PHY93_13050 263 GQIKKIEL-RLENLVANHLYKKVQFLNDtmglnyelmyfrDKEKREVDFILTEDNLPVQIIEVKTS 327
                              44444444.234555555555555555555666778888899**********************97 PP

>> HTH_36  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   3.1e-05     0.043      27      52 ..     209     234 ..     189     237 .. 0.91

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 3.1e-05
                   HTH_36  27 sqetlakrlglsknTvsraikeLeql 52 
                              s++ +a++l++s  T+ ++i+ Le+l
  PHY93_13050|PHY93_13050 209 SYANIARDLEVSAPTIKSWIQILEEL 234
                              9***********************97 PP

>> HTH_Tnp_ISL3  Helix-turn-helix domain of transposase family ISL3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0     3e-05     0.042      15      48 ..     195     228 ..     194     231 .. 0.93

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 3e-05
             HTH_Tnp_ISL3  15 rleayilelllesrsvkavArqlgvSwtTVwril 48 
                              rl +  + ++ +++s + +Ar+l vS+ T++ ++
  PHY93_13050|PHY93_13050 195 RLVQLLADRVGSGISYANIARDLEVSAPTIKSWI 228
                              88899999***********************998 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   4.7e-05     0.065     100     150 ..      37      83 ..       6     103 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 4.7e-05
                              ....-SEEEEEHHHHHHTH........HHHTTT-SEEEEETGGGTTS.TTT CS
                   ResIII 100 dstnkkilvttiqsldadseeeeeeseellrdrfdviiiDEaHrlgakksw 150
                              +s +++++  +++ +d+++    e +e+  + ++d+ii+DE H+++  k+w
  PHY93_13050|PHY93_13050  37 KSLSSDYIYLNYDNIDSQR----EITERSWPRNKDLIIFDELHKMTNWKQW 83 
                              5556667777888888888....99********************996665 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0     8e-05      0.11       3      59 ..      20      72 ..      18     111 .. 0.77
   2 ?   -3.1   0.0       3.9   5.4e+03      43      59 ..     221     237 ..     217     261 .. 0.69

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 8e-05
                   AAA_24  3 lkiliyGpsgiGKTtlakelgpkplfidtekGlksldadkfpdieswedfldevvel 59
                             + +li Gp  +GKT+l k+l  + ++++ ++    +d  +  + +sw+  +d + ++
  PHY93_13050|PHY93_13050 20 KLVLISGPRQVGKTYLSKSLSSDYIYLNYDN----IDSQREITERSWPRNKDLIIFD 72
                             558999***********************99....5555544445676666666655 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 3.9
                   AAA_24  43 fpdieswedfldevvel 59 
                               p+i+sw+++l+e+  +
  PHY93_13050|PHY93_13050 221 APTIKSWIQILEELYVI 237
                              67888999999887665 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.0   0.00069      0.95       1      71 [.      22      78 ..      22      95 .. 0.75
   2 ?   -2.2   0.0       3.8   5.2e+03      13      29 ..     246     262 ..     245     288 .. 0.77

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00069
                             EEEESSTTSSHHHHHHHHHHHHTHEEEEEETTTCSSSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGHH CS
                      AAA  1 vllyGppGtGKTllakavakelgvefleisgsellskyvgesekkirelfkeakekakpsilfiDEidala 71
                             vl++Gp  +GKT+l k++ ++    ++ ++  ++       s+++i e        + +  +++DE+++++
  PHY93_13050|PHY93_13050 22 VLISGPRQVGKTYLSKSLSSD----YIYLNYDNID------SQREITERSW---PRN-KDLIIFDELHKMT 78
                             799***********9999887....7777777777......4444444443...333.4678888888876 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 3.8
                              HHHHHHHHHHTHEEEEE CS
                      AAA  13 llakavakelgveflei 29 
                              +lak++ ke +++f+ i
  PHY93_13050|PHY93_13050 246 TLAKSILKEPKIYFFDI 262
                              57899999988887766 PP

>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.1   0.00021       0.3       4      43 ..     195     235 ..     192     241 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00021
                   HTH_11   4 qilelLleargp.isgeeLAeeLnvSrrtvrrdIkaLeelg 43 
                               +++lL +  g  is + +A+ L+vS  t+   I++Leel 
  PHY93_13050|PHY93_13050 195 RLVQLLADRVGSgISYANIARDLEVSAPTIKSWIQILEELY 235
                              6777777777778*************************984 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.9   0.0      0.01        14       5      26 ..      19      40 ..      16      46 .. 0.87
   2 ?    3.6   0.0     0.052        72      92     125 ..      66     100 ..      45     110 .. 0.65

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.01
                   AAA_22  5 agilvvtGesGtGKTtllrrll 26
                             ++++++ G+  +GKT+l + l 
  PHY93_13050|PHY93_13050 19 KKLVLISGPRQVGKTYLSKSLS 40
                             7899*************99876 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.052
                   AAA_22  92 ielliiDEaqhlrseealeeLrsllnl...srkgvql 125
                              + l+i DE +++   +  ++L+ ++++   ++ + ++
  PHY93_13050|PHY93_13050  66 KDLIIFDELHKM--TNWKQWLKGIYDVegvKSPSPKI 100
                              47**********..56666666666655544555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (375 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       580  (0.0323498); expected 358.6 (0.02)
Passed bias filter:                      436  (0.0243181); expected 358.6 (0.02)
Passed Vit filter:                        57  (0.00317921); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.64u 0.26s 00:00:00.90 Elapsed: 00:00:00.47
# Mc/sec: 2398.18
//
Query:       PHY93_16980|PHY93_16980  [L=582]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (582 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       610  (0.0340231); expected 358.6 (0.02)
Passed bias filter:                      322  (0.0179597); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.68u 0.24s 00:00:00.92 Elapsed: 00:00:00.46
# Mc/sec: 3773.28
//
Query:       PHY93_13055|PHY93_13055  [L=397]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.09   12.7   0.3         31    4.4   0.0    2.9  3  DUF2490   Protein of unknown function (DUF2490)


Domain annotation for each model (and alignments):
>> DUF2490  Protein of unknown function (DUF2490)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   0.0    0.0019        35      23      60 ..      34      75 ..      23      99 .. 0.76
   2 ?    0.7   0.1     0.025   4.5e+02     145     175 ..     258     288 ..     223     290 .. 0.71
   3 ?    4.4   0.0    0.0017        31       7      82 ..     288     366 ..     265     375 .. 0.74

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.0019
                  DUF2490 23 aqyRlrddlsefnqillrpglgyklnkklsvslgyay....e 60
                             ++y + ++++ +    +rp  + ++nk++s+ + ya     +
  PHY93_13055|PHY93_13055 34 IDYPYSNSADGMVSNTFRPKFTLAPNKWFSLNVAYALsanmQ 75
                             56666677777777889*******************954431 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.025
                  DUF2490 145 argngfdqnRlyaglgyklnkkltlelgYmn 175
                              +r  + d  R ++gl+ykl+ ++   + Y +
  PHY93_13055|PHY93_13055 258 NRDRSQDYFRGTIGLDYKLTSSIYSYCEYHY 288
                              4466667778888999998888876666655 PP

  == domain 3  score: 4.4 bits;  conditional E-value: 0.0017
                  DUF2490   7 vevkgkikkkwsvsleaqyRlrddlsefnqi.llrpglgyklnkklsvslgyay..eeekekkknn..tedriwqqflitl 82 
                              ++  g+i++k  + l++q  +++ +  +  + +l pg++y++++ ++++  +++  +  +    nn   e+ + q++ i+l
  PHY93_13055|PHY93_13055 288 YNGAGTIDPKKYFLLATQVPYTEGSVSLKGVhYLIPGMSYEISPIWKLTGQFLFnaN--DLSILNNllVEHSFAQDVFIDL 366
                              556666777777777777766665555544435679**************9999542..3333333358999999988875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (397 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       415  (0.0231469); expected 358.6 (0.02)
Passed bias filter:                      335  (0.0186848); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.26s 00:00:00.83 Elapsed: 00:00:00.46
# Mc/sec: 2605.66
//
Query:       PHY93_13060|PHY93_13060  [L=227]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    3.6e-37  127.9   0.0    4.6e-37  127.6   0.0    1.1  1  ABC_tran     ABC transporter
    9.7e-11   42.0   0.3     0.0001   22.2   0.0    2.1  2  AAA_21       AAA domain, putative AbiEii toxin, Type IV TA sy
    4.7e-08   32.7   1.1     0.0021   17.5   0.0    2.2  2  SMC_N        RecF/RecN/SMC N terminal domain
     0.0003   20.7   0.0    0.00074   19.5   0.0    1.6  1  RsgA_GTPase  RsgA GTPase
    0.00055   19.6   0.1    0.00099   18.8   0.1    1.4  1  AAA_29       P-loop containing region of AAA domain
    0.00058   19.7   0.3       0.13   11.9   0.2    2.1  2  AAA_15       AAA ATPase domain
     0.0045   17.4   0.0      0.011   16.1   0.0    1.6  1  AAA_16       AAA ATPase domain
     0.0053   17.0   0.1       0.11   12.8   0.1    2.1  1  AAA_22       AAA domain
  ------ inclusion threshold ------
       0.01   15.4   0.4          2    8.0   0.0    2.2  2  PPS_PS       Phosphopantothenate/pantothenate synthetase
      0.013   16.0   0.3      0.024   15.1   0.3    1.4  1  AAA_23       AAA domain
      0.015   15.4   0.1      0.055   13.5   0.0    1.8  2  Dynamin_N    Dynamin family
      0.024   14.7   0.5       0.27   11.3   0.1    2.2  2  MMR_HSR1     50S ribosome-binding GTPase
      0.052   13.1   0.7        0.3   10.7   0.1    2.2  2  AAA_25       AAA domain
       0.11   12.5   0.0       0.17   11.8   0.0    1.4  1  Rad17        Rad17 P-loop domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  127.6   0.0   3.6e-40   4.6e-37       1     137 []      24     173 ..      24     173 .. 0.97

  Alignments for each domain:
  == domain 1  score: 127.6 bits;  conditional E-value: 3.6e-40
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG....B-HHHCCHCEEEE-SS--S-TTSBHHHH... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxx... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke....qeleslrkeigvlpqepqlfpeltvren... 79 
                              lk ++l++k+ge +ai G++G+GKS++l+l++gl +pt+G++ l+++++++    q   + r +ig+++q  +l p ltv+en   
  PHY93_13060|PHY93_13060  24 LKGINLSIKKGEFTAIAGPSGSGKSSFLNLISGLDRPTSGTVYLNETPISNmsgnQLSDFRRDHIGFIFQSYNLIPVLTVKENiey 109
                              789************************************************9*988889999************************ PP

                              ..........HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              ..........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ..........esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                                        e+ ++++++l+ +gl ++ d++     ++LSgGq+qrva+ara++++p+++l+DEpta
  PHY93_13060|PHY93_13060 110 imliqgipedERHARVNEVLKDVGLANMGDRRP----AQLSGGQQQRVAIARAVVSRPDIILADEPTA 173
                              *******99888999************999999....*****************************97 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.6   2.4e-06     0.003       1      42 [.      36      74 ..      36     101 .. 0.65
   2 !   22.2   0.0   7.9e-08    0.0001     233     303 .]     141     209 ..     136     209 .. 0.91

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 2.4e-06
                   AAA_21  1 lnvliGpNgsGKSnLLdaldllarldrdvegltdelsggggi 42
                             ++++ Gp gsGKS++L ++++l   dr   g+ + +    ++
  PHY93_13060|PHY93_13060 36 FTAIAGPSGSGKSSFLNLISGL---DRPTSGTVYLNETPISN 74
                             89*******************9...44444444444444444 PP

  == domain 2  score: 22.2 bits;  conditional E-value: 7.9e-08
                   AAA_21 233 parelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsr.ngaQviltTHSpllld 303
                               +++lS G+++  a++ a+ +++   +++l DEp ++L+      l++++k+l++ +g+ ++++TH+  ++d
  PHY93_13060|PHY93_13060 141 RPAQLSGGQQQRVAIARAVVSRP---DIILADEPTANLDSTTANNLIDMMKSLNEtKGITFVFSTHDKRIMD 209
                              67899999999989999999999...9***********************8888889*********988876 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.1   0.2   1.8e-05     0.023      24      44 ..      34      54 ..       6      57 .. 0.81
   2 !   17.5   0.0   1.6e-06    0.0021     120     209 ..     122     215 ..      86     220 .. 0.78

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 1.8e-05
                             SSEEEEEESTTSSHHHHHHHH CS
                             xxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 24 ksftaivGpNGSGKsnlldAi 44
                              +ftai Gp GSGKs++l+ i
  PHY93_13060|PHY93_13060 34 GEFTAIAGPSGSGKSSFLNLI 54
                             469*************99765 PP

  == domain 2  score: 17.5 bits;  conditional E-value: 1.6e-06
                              HHHHHHHHHCTT-STT......CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHH..HHCTTSEEEEE-S CS
                              xxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxx RF
                    SMC_N 120 kkevsellesagiske......lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellk..eksknaQfivisl 197
                               + v+e+l+++g+         +LSgG+++ va+a       v++  + l De  a+LD +  +++ +++k  +++k   f+  ++
  PHY93_13060|PHY93_13060 122 HARVNEVLKDVGLANMgdrrpaQLSGGQQQRVAIARA----VVSRPDIILADEPTANLDSTTANNLIDMMKslNETKGITFVFSTH 203
                              45566666666665545556669*******9998754....5666679999********************444555689999999 PP

                              SHHHCCC-SCEE CS
                              xxxxxxxxxxxx RF
                    SMC_N 198 reemlekadklv 209
                              +++++  +++l+
  PHY93_13060|PHY93_13060 204 DKRIMDLSKRLI 215
                              999999988876 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.5   0.0   5.8e-07   0.00074      86     122 ..      20      57 ..       3      72 .. 0.79

  Alignments for each domain:
  == domain 1  score: 19.5 bits;  conditional E-value: 5.8e-07
                              THTTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT CS
              RsgA_GTPase  86 tkegleelkellkd.ktsvlvGqSGvGKStLinallpe 122
                              + e+l+ ++  +k+ ++++++G+SG GKS+++n + + 
  PHY93_13060|PHY93_13060  20 KVEALKGINLSIKKgEFTAIAGPSGSGKSSFLNLISGL 57 
                              4567777777888779*****************99875 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.1   7.7e-07   0.00099      16      40 ..      28      52 ..      22      69 .. 0.80

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 7.7e-07
                   AAA_29 16 tieidlkgatlltGpsGsGKSTllD 40
                              ++i+  ++t ++GpsGsGKS++l 
  PHY93_13060|PHY93_13060 28 NLSIKKGEFTAIAGPSGSGKSSFLN 52
                             56777555**************985 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.9   0.2    0.0001      0.13      15      44 ..      25      55 ..      18     108 .. 0.85
   2 !    6.2   0.0    0.0055         7     323     368 ..     162     207 ..     149     208 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.0001
                   AAA_15 15 kdveidlsee.ltvliGkNnsGKSsileald 44
                             k + +++++  +t + G+ +sGKSs+l+++ 
  PHY93_13060|PHY93_13060 25 KGINLSIKKGeFTAIAGPSGSGKSSFLNLIS 55
                             44455555557*****************996 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.0055
                   AAA_15 323 knvilliEEPEahLHpqaqkvlikllkelandnktQviitTHSphi 368
                              +++i+l +EP a+L     + li+ +k+l +++    +++TH   i
  PHY93_13060|PHY93_13060 162 RPDIILADEPTANLDSTTANNLIDMMKSLNETKGITFVFSTHDKRI 207
                              689**************************9999889******8765 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   8.9e-06     0.011      23     107 ..      33     161 ..      20     200 .. 0.64

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 8.9e-06
                   AAA_16  23 rpelvllsGesGvGKsslvrellralekd..........................ggiflrgkcdql.....esaipysalaqala 77 
                               +e + + G+sG+GKss ++ +   l +                           ++ f+ + +        +++i+y++l+q + 
  PHY93_13060|PHY93_13060  33 KGEFTAIAGPSGSGKSSFLNLIS-GLDRPtsgtvylnetpisnmsgnqlsdfrrdHIGFIFQSYNLIpvltvKENIEYIMLIQGIP 117
                              347899**************999.57766665566666666666666666666654444444444444455555688888888888 PP

                   AAA_16  78 reellrqlldeaesaeleawrekleeala..............a 107
                              ++e  + +++ +++  l+   ++ +++l+              +
  PHY93_13060|PHY93_13060 118 EDERHARVNEVLKDVGLANMGDRRPAQLSggqqqrvaiaravvS 161
                              87777777777777667666666666666444444444444440 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.8   0.1   8.4e-05      0.11       4     127 ..      33     200 ..      29     207 .. 0.49

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 8.4e-05
                   AAA_22   4 tagilvvtGesGtGKTtllrrlleqldeeakaee........................................erpevv.fvtlp 48 
                              +  ++++ G+sG+GK+  l+ +   +   +   +                                        e+ e++ +++  
  PHY93_13060|PHY93_13060  33 KGEFTAIAGPSGSGKSSFLNLISGLDR--PTSGTvylnetpisnmsgnqlsdfrrdhigfifqsynlipvltvkENIEYImLIQGI 116
                              67799***********99988777652..222123444455555555555554444444444444444444333333333333333 PP

                   AAA_22  49 sstsskdllrellralglelka.....erlsseellealeqalraravielliiDEaqh.lrseealeeLrsllnl..srkgvqli 126
                               + ++    +e+l+++gl + +     +    ++ + a+++a+ +r  + +++ DE    l   +  ++L ++++   ++kg++++
  PHY93_13060|PHY93_13060 117 PEDERHARVNEVLKDVGLANMGdrrpaQLSGGQQQRVAIARAVVSR--PDIILADEPTAnL-DSTTANNLIDMMKSlnETKGITFV 199
                              3333333344444444433333333332333333333333333333..4477777765557.555555555555555556666666 PP

                   AAA_22 127 L 127
                              +
  PHY93_13060|PHY93_13060 200 F 200
                              6 PP

>> PPS_PS  Phosphopantothenate/pantothenate synthetase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   0.1    0.0069       8.8      43      92 ..     119     167 ..     116     188 .. 0.86
   2 ?    8.0   0.0    0.0015         2      44      91 ..     181     227 .]     171     227 .] 0.71

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.0069
                   PPS_PS  43 eeRvekiaellkeagaeevlgleedaripeleseRakvskeGiysaDvvl 92 
                              +eR ++++e+lk+ g  ++ g ++ a++++ +++R  + +  + + D++l
  PHY93_13060|PHY93_13060 119 DERHARVNEVLKDVGLANM-GDRRPAQLSGGQQQRVAIARAVVSRPDIIL 167
                              79**************997.888889999999999888888888888887 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.0015
                   PPS_PS  44 eRvekiaellkeagaeevlgleedaripeleseRakvskeGiysaDvv 91 
                              +    + + l+e++  +++ +++d+ri +l+ +R ++ k+Gi+++Dvv
  PHY93_13060|PHY93_13060 181 NNLIDMMKSLNETKGITFVFSTHDKRIMDLS-KRLIILKDGIIDSDVV 227
                              4444455555555555555566889****95.79*************8 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.1   0.3   1.9e-05     0.024      18      39 ..      33      54 ..      11      57 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.9e-05
                   AAA_23 18 skgltlItGpNGaGKTTildAi 39
                             +  +t+I Gp G+GK+++l+ i
  PHY93_13060|PHY93_13060 33 KGEFTAIAGPSGSGKSSFLNLI 54
                             44699**************988 PP

>> Dynamin_N  Dynamin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   4.3e-05     0.055       2      36 ..      38      72 ..      37      95 .. 0.84
   2 ?   -0.7   0.0      0.99   1.3e+03      44     140 ..     151     174 ..     135     204 .. 0.51

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 4.3e-05
                             EEEEBTTTTHHHHHHHHHTS--S---SSS---S-E CS
                Dynamin_N  2 avvGsqSsGKSSvlnaLlgedilprgpnptTrrpl 36
                             a+ G   sGKSS+ln + g d   +g+     +p+
  PHY93_13060|PHY93_13060 38 AIAGPSGSGKSSFLNLISGLDRPTSGTVYLNETPI 72
                             5779999************9976677777666665 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.99
                              ---CCS...SSEEEET-EB--CHHHHHHHHHHHHHHHTSSSS--SS-EEEEEEETTS-SEEEEE---B-SSSGTTSHHHHHHHSTT CS
                Dynamin_N  44 eeaseravkeelkekekkledfsevreeieketekiagankgiskkvillkilsllvkgltlvDlPGldsvnkrdqelvkeyikka 129
                              +                                                                         + ++++  + + 
  PHY93_13060|PHY93_13060 151 Q-------------------------------------------------------------------------RVAIARAVVSRP 163
                              2.........................................................................335555555666 PP

                              EEEEEEEETTS CS
                Dynamin_N 130 diilavtsanh 140
                              diila  +  +
  PHY93_13060|PHY93_13060 164 DIILADEPTAN 174
                              66666554333 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.1   0.00021      0.27       3      22 ..      38      57 ..      36      81 .. 0.82
   2 ?    1.7   0.0      0.21   2.7e+02      43      90 ..     160     207 ..     115     221 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00021
                             EEEESTTSSHHHHHHHHHTS CS
                 MMR_HSR1  3 aivGrpNvGKStLinaltge 22
                             ai+G + +GKS+++n ++g 
  PHY93_13060|PHY93_13060 38 AIAGPSGSGKSSFLNLISGL 57
                             89*************99983 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.21
                              ETTEEEEEEECGGCSS.HHHHHHHHHHHHHHHHCTSEEEEEEETTTTCS CS
                 MMR_HSR1  43 lkgkeielvDtpGlie.gaseekglgkaflaleeadlillvvdaseekl 90 
                              +++++i+l+D p   + ++ + ++l + +++l+e++ i +v++ +++ +
  PHY93_13060|PHY93_13060 160 VSRPDIILADEPT-ANlDSTTANNLIDMMKSLNETKGITFVFSTHDKRI 207
                              3467788888888.44345555678888888888999999997443333 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.1   0.00023       0.3      30      50 ..      31      51 ..      25      55 .. 0.90
   2 ?    0.4   0.0      0.32   4.2e+02     161     182 ..     176     197 ..     110     205 .. 0.49

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00023
                   AAA_25 30 lpagelallaGapgtGKttla 50
                             + +ge++++aG++g+GK+ ++
  PHY93_13060|PHY93_13060 31 IKKGEFTAIAGPSGSGKSSFL 51
                             679***************986 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.32
                   AAA_25 161 snsdvgalvealeriarrtgaa 182
                              +++ ++ l+++++++ + +g++
  PHY93_13060|PHY93_13060 176 DSTTANNLIDMMKSLNETKGIT 197
                              2222344444444444444444 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   0.00013      0.17      33      99 ..      22      90 ..      10     130 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00013
                    Rad17 33 ewlkadvLesrkkriLLisGPsGCgkstvvkvLskelgi.klrewlnpvslke.pdnqksdfkglteke 99
                             e+lk   L  +k +   i+GPsG gks  ++ +s    + +   +ln + + + + nq sdf+ + + +
  PHY93_13060|PHY93_13060 22 EALKGINLSIKKGEFTAIAGPSGSGKSSFLNLISGLDRPtSGTVYLNETPISNmSGNQLSDFRRDHIGF 90
                             57888888888889999*************999976554144556676665551557999999877655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (227 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       494  (0.0275531); expected 358.6 (0.02)
Passed bias filter:                      439  (0.0244855); expected 358.6 (0.02)
Passed Vit filter:                        72  (0.00401584); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.58u 0.28s 00:00:00.86 Elapsed: 00:00:00.46
# Mc/sec: 1493.69
//
Query:       PHY93_13065|PHY93_13065  [L=406]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.7e-12   48.1   0.6    1.7e-12   48.1   0.6    1.9  2  MacB_PCD  MacB-like periplasmic core domain
    4.5e-09   36.7  12.6    4.6e-09   36.6   5.5    3.1  3  FtsX      FtsX-like permease family
  ------ inclusion threshold ------
        6.7    6.9  13.0       0.57   10.4   7.9    1.7  2  EI24      Etoposide-induced protein 2.4 (EI24)


Domain annotation for each model (and alignments):
>> MacB_PCD  MacB-like periplasmic core domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.1   0.6   2.8e-16   1.7e-12       1     181 [.      19     228 ..      19     235 .. 0.65
   2 ?   -4.6   2.3         3   1.8e+04       4      14 ..     330     340 ..     324     345 .. 0.72

  Alignments for each domain:
  == domain 1  score: 48.1 bits;  conditional E-value: 2.8e-16
                 MacB_PCD   1 slltvLGiaiGvaavi....aivslgeglqasvlsqisdlgnlvtvtpgkgsges......lsdpdvealrr...evp.veavapv 72 
                              +ll+ L+i +G a+++    +i+slge++ ++ ++++s  gn +++  + g+  +      +s +d ++l     + + +++ ap+
  PHY93_13065|PHY93_13065  19 TLLSGLAIGVGLASLMfadaVIFSLGETMVRAATENFS--GN-AQIHQK-GFVKNfevekvISNADNKLL-IdlgKEDaIKSFAPR 99 
                              566667777776666433337899*************9..64.556554.55555222222333333222.12333356******8 PP

                 MacB_PCD  73 v......tvrgggsgeeevtvvgvdpdyfk.vfgl..klaeGrffteadlrggpnvvvigeelaerlf.pvGdtirl......... 139
                              v      t++++   + ++ v+g +p + k + ++  ++ +G +++++d    ++ ++ig++lae+l   vGd++ l         
  PHY93_13065|PHY93_13065 100 VvgygmlTSTFD---ANNILVYGINPVMEKnISKIsdNMIKGNYLDAQD----DKKILIGKKLAENLNiNVGDKVVLtvaragsgd 178
                              755554333333...34599***88755444555552347899886654....457**********88*******99*9*****99 PP

                 MacB_PCD 140 ...kpftVvGvledppgsgsalgddavylplttlqrrs........itvrlkd 181
                                 + f++ Gv+ ++ g    ++++ ++l++t++q  +        i++  kd
  PHY93_13065|PHY93_13065 179 lsqEMFRIGGVF-SF-GIR-EMDENVIFLNITSAQKVFnvgndiheIAINFKD 228
                              98777******9.44.544.558999****88874322344444447776666 PP

  == domain 2  score: -4.6 bits;  conditional E-value: 3
                 MacB_PCD   4 tvLGiaiGvaa 14 
                              +v+Gi++Gv +
  PHY93_13065|PHY93_13065 330 AVIGITLGVIV 340
                              67788888765 PP

>> FtsX  FtsX-like permease family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.0      0.15   9.2e+02      29      50 ..      22      43 ..       3      69 .. 0.62
   2 ?    2.5   0.1     0.035   2.1e+02      58      78 ..     267     287 ..     208     296 .. 0.67
   3 !   36.6   5.5   7.7e-13   4.6e-09       3      94 ..     300     399 ..     298     401 .. 0.93

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.15
                     FtsX 29 tlvalviGlglgllaaqllsdv 50
                             + +a+ +Gl+ + +a  +++++
  PHY93_13065|PHY93_13065 22 SGLAIGVGLASLMFADAVIFSL 43
                             2333333333333333334444 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.035
                     FtsX  58 selkisidlitvliiivllll 78 
                              ++ ++si  ++++ ii+l+++
  PHY93_13065|PHY93_13065 267 TQFSLSILALILFSIIALGIM 287
                              333444444444444444444 PP

  == domain 3  score: 36.6 bits;  conditional E-value: 7.7e-13
                     FtsX   3 eigilralGmkkkqvlllllteillitlvalviGlglgllaaqllsdvllss........vfsselkisidlitvliiivllllla 80 
                              e+g+lra+G + + v  ++l e+l+++l+++viG+ lg+++++++s+++  +        vf + + + + li++++    l+l+ 
  PHY93_13065|PHY93_13065 300 EFGVLRAVGTRPGIVGAIILFEALMLALISAVIGITLGVIVIYFSSHYGIDYrgieyahvVFRDKIYPHFRLIQFILYPPCLILFS 385
                              9*************************************************9977777666556*********************** PP

                     FtsX  81 llagllsiskilkk 94 
                              +++g+++++ ++k+
  PHY93_13065|PHY93_13065 386 MIVGIYPAIYAAKI 399
                              *********99997 PP

>> EI24  Etoposide-induced protein 2.4 (EI24)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.1       1.5   8.9e+03      19      26 ..      24      31 ..       5      51 .. 0.49
   2 ?   10.4   7.9   9.6e-05      0.57      47     135 ..     268     352 ..     237     366 .. 0.81

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 1.5
                             HHHHHHHH CS
                     EI24 19 lllpllln 26
                             l++ + l+
  PHY93_13065|PHY93_13065 24 LAIGVGLA 31
                             12222222 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 9.6e-05
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH.HHCCTTSHHHHHHHHHHHHHHHHHHHHHHHTTHHH....HHHHHHHHHHHHH CS
                     EI24  47 vllllllplwlfplvalllaapfygllaekvekrhlglvkslaeslkslllllllllvllplliPvvglilsplllswltayfycf 132
                               ++l +l+l+lf+++al ++ +++  l+e+  +  +g+++++++    + +++l+ +++l+l+  v+g++l +++ ++ ++y  ++
  PHY93_13065|PHY93_13065 268 QFSLSILALILFSIIALGIMNTIFMSLYERMFE--FGVLRAVGTRPGIVGAIILFEALMLALISAVIGITLGVIVIYFSSHY--GI 349
                              466778889999**********99999999975..589999999999999999999999999669***99999887776666..88 PP

                              HHH CS
                     EI24 133 eyl 135
                              +y 
  PHY93_13065|PHY93_13065 350 DYR 352
                              885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (406 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1010  (0.0563333); expected 358.6 (0.02)
Passed bias filter:                      498  (0.0277762); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.66u 0.27s 00:00:00.93 Elapsed: 00:00:00.47
# Mc/sec: 2582.77
//
Query:       PHY93_13070|PHY93_13070  [L=388]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.5e-08   33.8   5.8    3.5e-08   33.8   5.8    3.0  4  FtsX      FtsX-like permease family


Domain annotation for each model (and alignments):
>> FtsX  FtsX-like permease family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.1      0.24   4.3e+03      75      88 ..       9      20 ..       1      41 [. 0.55
   2 ?   -2.5   0.0      0.41   7.3e+03      39      56 ..     133     150 ..     131     176 .. 0.72
   3 ?    0.6   0.4     0.046   8.2e+02      64      80 ..     255     271 ..     230     278 .. 0.58
   4 !   33.8   5.8   1.9e-12   3.5e-08       2      94 ..     281     381 ..     280     383 .. 0.87

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 0.24
                     FtsX 75 lllllallagllsi 88
                              +++l++la  lsi
  PHY93_13070|PHY93_13070  9 GGFVLFSLA--LSI 20
                             222222222..333 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 0.41
                     FtsX  39 lgllaaqllsdvllssvf 56 
                              +g+ +a+ll+ +++ +v+
  PHY93_13070|PHY93_13070 133 VGAGLAELLNLKIGDEVV 150
                              788999999999998866 PP

  == domain 3  score: 0.6 bits;  conditional E-value: 0.046
                     FtsX  64 idlitvliiivllllla 80 
                              i l+ +++i+++++l +
  PHY93_13070|PHY93_13070 255 ICLLVIVFIVAIGVLNT 271
                              33333333443333333 PP

  == domain 4  score: 33.8 bits;  conditional E-value: 1.9e-12
                     FtsX   2 reigilralGmkkkqvlllllteillitlvalviGlglgllaaqllsdvllss....vfs.....selkisidlitvliiivllll 78 
                               e+g+lralG +   v+ l+++e+ +++++++++G++l++++ + +s  +  +            + +   i++ ++ + +++ ++
  PHY93_13070|PHY93_13070 281 TEYGVLRALGTRPIMVFNLIVLESSMLACLSIIVGFVLSFILNYWVSVHGIDYpapmD-IggftiTTMYGLIYPGAFTTPAIVTFF 365
                              69*********************************99999999887777777755540.144567999****************** PP

                     FtsX  79 lallagllsiskilkk 94 
                              +a +++++++++++k+
  PHY93_13070|PHY93_13070 366 TAFIVSIFPAIRAMKI 381
                              ************9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (388 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       877  (0.0489152); expected 358.6 (0.02)
Passed bias filter:                      453  (0.0252663); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.60u 0.24s 00:00:00.84 Elapsed: 00:00:00.45
# Mc/sec: 2609.73
//
Query:       PHY93_13075|PHY93_13075  [L=252]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    2.9e-47  160.8   0.7    3.5e-47  160.5   0.7    1.1  1  LolA_like  Outer membrane lipoprotein-sorting protein
      2e-05   24.3   0.1    3.2e-05   23.7   0.1    1.3  1  DUF4292    Domain of unknown function (DUF4292)


Domain annotation for each model (and alignments):
>> LolA_like  Outer membrane lipoprotein-sorting protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  160.5   0.7   3.9e-51   3.5e-47       3     183 .]      72     252 .]      70     252 .] 0.97

  Alignments for each domain:
  == domain 1  score: 160.5 bits;  conditional E-value: 3.9e-51
                              TEEEEEEEESTTTTT-EEEEESSSTTEEEEEETTTTCEEEE-GGGTTSECCTTC.EHHHHC..--SCCCEEEEEEEE.EEETTEEE CS
                LolA_like   3 dkslivftePadvkGtafLtlkekdddlWlYlPalkrvrrisssdksqsfmGsdfsyeDls..srevedythellge.eevggkdc 85 
                              +k++i++++P+++kG a+L++   ++d+W + P+++++ ++++s++++s+mGsdf+++Dl   s+ ++dy+ +l+   ++    dc
  PHY93_13075|PHY93_13075  72 EKTFIRILSPQKDKGVATLRI---QNDMWNFFPKIDKTMKVPPSMMMGSWMGSDFTNDDLVkeSTLLNDYDSKLVDAaAKAADGDC 154
                              79*******************...************************************878***********99856778999* PP

                              EEEEEEESS.TTSSECEEEEEEETTT--EEEEEEEETTS-EEEEEEEEEEEEETTEEEEEEEEEEE.TTT--EEEEEEEEEEE--. CS
                LolA_like  86 yvleltpkdaadvsYskivlwvdketylplkvefydksgkllKtltvsdiekidgrwtptkmtmed.lkkghkTvleisevefdkg 170
                              y +el+pk +  + ++ki+++++k++  p++ e+yd +g +l+++ ++di++++++ +p  m+++   k+ghkT++e++++ef+  
  PHY93_13075|PHY93_13075 155 YYIELKPKAKTATVWGKIIVVIKKDNSQPVRQEYYDDNGVKLREIVFKDIKTFGNKTIPAIMELTPfNKPGHKTIIEYKKLEFEH- 239
                              *********99**************************************************************************. PP

                              --GGGCSCGGCT- CS
                LolA_like 171 lpdklFtkryLer 183
                              +++++F++ +L++
  PHY93_13075|PHY93_13075 240 VDESIFSQMNLQK 252
                              **********985 PP

>> DUF4292  Domain of unknown function (DUF4292)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.7   0.1   3.5e-09   3.2e-05     114     199 ..     153     243 ..      87     248 .. 0.85

  Alignments for each domain:
  == domain 1  score: 23.7 bits;  conditional E-value: 3.5e-09
                  DUF4292 114 gvvvltvkk......gnlkkefvidpsnrrleslevndpsgrrklevtYsnFksvdsvllPaeielqaeegkketkivleysevef 193
                              +++++++k         +k  +vi+++n +  ++e++d +g +  e+ +++ k+++++++Pa +el+  + k  +k  +ey+++ef
  PHY93_13075|PHY93_13075 153 DCYYIELKPkaktatVWGKIIVVIKKDNSQPVRQEYYDDNGVKLREIVFKDIKTFGNKTIPAIMELTPFN-KPGHKTIIEYKKLEF 237
                              5555555554455544567889*********************************************999.7888888******** PP

                  DUF4292 194 ndedls 199
                              +  d s
  PHY93_13075|PHY93_13075 238 EHVDES 243
                              776655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (252 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       503  (0.0280551); expected 358.6 (0.02)
Passed bias filter:                      392  (0.021864); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.44
# Mc/sec: 1716.80
//
Query:       PHY93_13080|PHY93_13080  [L=391]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.8e-38  131.8   0.2      4e-38  130.6   0.2    1.6  1  Glycos_transf_1  Glycosyl transferases group 1
    2.7e-31  108.7   0.1      5e-30  104.7   0.0    2.4  2  Glyco_trans_1_4  Glycosyl transferases group 1
    3.4e-24   85.8   0.0    4.9e-24   85.2   0.0    1.3  1  Glyco_transf_4   Glycosyltransferase Family 4
    1.7e-09   38.4   0.0    2.7e-09   37.6   0.0    1.5  1  Glyco_trans_4_4  Glycosyl transferase 4-like domain
     0.0001   22.3   0.2    0.00018   21.5   0.2    1.5  1  Glyco_trans_4_2  Glycosyl transferase 4-like
  ------ inclusion threshold ------
      0.014   15.1   0.1        2.5    7.7   0.0    2.2  2  Glyco_transf_5   Starch synthase catalytic domain
       0.02   14.9   0.0        1.5    8.8   0.0    2.5  2  UDG              Uracil DNA glycosylase superfamily
      0.062   13.7   0.0       0.17   12.3   0.0    1.7  1  Glyco_trans_1_2  Glycosyl transferases group 1


Domain annotation for each model (and alignments):
>> Glycos_transf_1  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  130.6   0.2   1.8e-41     4e-38      13     160 ..     214     364 ..     210     375 .. 0.93

  Alignments for each domain:
  == domain 1  score: 130.6 bits;  conditional E-value: 1.8e-41
                              TT-EEEEEESS-TTTTTHHHHHHHHHCCCCCHCSCEEEEEES.STTHHHHHHHHHHHCTTCGGGEEECCHSSSHHHHHHCESEEEE CS
          Glycos_transf_1  13 ekkkiilsvgrlekeKgvdllikafallkkqlnpnvklviaGngeeekelkklaeelelsdnviflgevsredleellknadifvl 98 
                              +++k++l+vgr+ keK+++ li+a+++l  + n+++klvi+G+g+ ++el++ a +l+l+d+vif+g+v+r++l e++++a++f +
  PHY93_13080|PHY93_13080 214 KDRKVLLYVGRIGKEKNIKFLIDALHQLLPN-NKDAKLVIVGEGPAKEELEDYALQLGLQDHVIFTGFVERDKLAEFYSMAHVFTF 298
                              799***************************9.****************************************************** PP

                              EESSBSS-HHHHHHHHTT--EEEETTTTHCHHCHTTTSEEEE-TT-HHHHHHHHHHHHHSH.....H CS
          Glycos_transf_1  99 psisEgfGivllEAmaaglpviasnaggpaevvkdgetGllvkpnnaealaeairkllede.....e 160
                               s  E+ G+v+lE+m++g+pv+a    g +e+      G+ v+ n    ++e+++ ll+d      +
  PHY93_13080|PHY93_13080 299 ASKVESQGLVILESMTCGTPVVAIGEMGTKELMGGDFGGFMVEDN-LNLFVEKVELLLSDYqlhklK 364
                              *******************************************99.99************9444333 PP

>> Glyco_trans_1_4  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.0       0.2   4.4e+02      66      82 ..     149     168 ..     137     191 .. 0.79
   2 !  104.7   0.0   2.2e-33     5e-30       1     134 []     216     357 ..     216     357 .. 0.87

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.2
                              HHHHHHH-SEEEE--...-- CS
          Glyco_trans_1_4  66 laellaaadvfvaPs...eg 82 
                              l++++++adv++aP+   +g
  PHY93_13080|PHY93_13080 149 LQRIFNKADVLIAPTkmmQG 168
                              788999********943333 PP

  == domain 2  score: 104.7 bits;  conditional E-value: 2.2e-33
                              SEEEEEES---GG.GTHHHHHHHHHHHH.H..HEEEEEES---...HHHHHHHT..T-T.TEEEE---..THHHHHHHH-SEEEE- CS
          Glyco_trans_1_4   1 rpvilfvGrleenvkgvdllleavpllrkk..dvrlvivGdgp.rpeeleelaa..gleerveftGfv..edlaellaaadvfvaP 79 
                              r+v+l+vGr+  ++k++++l++a+++l+ +  d++lvivG+gp + eele++a   gl+++v+ftGfv  ++lae+++ a+vf + 
  PHY93_13080|PHY93_13080 216 RKVLLYVGRI-GKEKNIKFLIDALHQLLPNnkDAKLVIVGEGPaK-EELEDYALqlGLQDHVIFTGFVerDKLAEFYSMAHVFTFA 299
                              689*******.556**********777744235**********55.6***988459************8555************** PP

                              -..---SHHHHHHHHTT-EEEE-TGGGTTT--.T.TSSEE--TT-HHHHHHHHHHHHH- CS
          Glyco_trans_1_4  80 s..egfglkllEamaaglpvVatdvggiaevv.g.engllvppgdpealaeailrLled 134
                              s  e+ gl++lE+m +g+pvVa    g++e++ g   g++v+ ++ + ++e+++ Ll+d
  PHY93_13080|PHY93_13080 300 SkvESQGLVILESMTCGTPVVAIGEMGTKELMgGdFGGFMVE-DNLNLFVEKVELLLSD 357
                              *999*******************76699****862456***8.469********99987 PP

>> Glyco_transf_4  Glycosyltransferase Family 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.2   0.0   2.2e-27   4.9e-24       2     169 ..      15     189 ..      14     190 .. 0.91

  Alignments for each domain:
  == domain 1  score: 85.2 bits;  conditional E-value: 2.2e-27
           Glyco_transf_4   2 GGverhvleLaraLarrGheVtvvtpgddgpleeev....elvvrvprvplpllkrllrslaf.lrrlrrllkrekpDvvHahspa 82 
                               Gv +++  + + + ++Ghe+ +++p+++ + e       +++ r+++  ++++k ++r  ++  +++ + l+  kpD++H+h+++
  PHY93_13080|PHY93_13080  15 SGVPVSMDSFKNKFTEKGHEIFLLVPDYPNAVEWDKenkiKNIFRFKSTGIFFNKENRRVCSSeKKKVFETLDSIKPDIIHIHTEF 100
                              69999999999****************9998777777899999*****9999999988887652789******************* PP

           Glyco_transf_4  83 algaallalrrrlgiplVltvHglye....krllkarlkplsrllralerrllrradrviavSeatadelrerygvppekitVipn 164
                              +l   ++  +++++ip+V t+H+ +e     +l    +++++ ++r +++r++++ad +ia+++ ++  l + y ++   + Vip+
  PHY93_13080|PHY93_13080 101 SLAKIVISYAKKKNIPIVMTAHTNWEelvnAYLAFVPQRLGRMYIRFMLQRIFNKADVLIAPTKMMQGILSK-YYIQ-TAVQVIPT 184
                              **************************99998888888888999999999999********************.6667.78****** PP

           Glyco_transf_4 165 GvDle 169
                              G+D +
  PHY93_13080|PHY93_13080 185 GIDEN 189
                              ***75 PP

>> Glyco_trans_4_4  Glycosyl transferase 4-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.6   0.0   1.2e-12   2.7e-09      67     160 .]      86     185 ..      16     185 .. 0.84

  Alignments for each domain:
  == domain 1  score: 37.6 bits;  conditional E-value: 1.2e-12
          Glyco_trans_4_4  67 lrqrrerpdvvhahs..ptaglaarlarrrrgiplvvtlhgll...lrrg....sgavrrly.ralerrllrradavlvvseaeae 142
                              l  ++ +pd++h+h+  ++a +++  a+ +++ip+v t+h+++   ++ +      +++r+y r + +r+++ ad++++++  +  
  PHY93_13080|PHY93_13080  86 L--DSIKPDIIHIHTefSLAKIVISYAK-KKNIPIVMTAHTNWeelVNAYlafvPQRLGRMYiRFMLQRIFNKADVLIAPTKMMQG 168
                              4..7889*******9855799*******.***********877454222233443355666657888899999************* PP

          Glyco_trans_4_4 143 elralgvpadrvvvvpng 160
                               l  ++++ + v+v+p g
  PHY93_13080|PHY93_13080 169 ILSKYYIQ-TAVQVIPTG 185
                              *******9.899****87 PP

>> Glyco_trans_4_2  Glycosyl transferase 4-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.2   8.1e-08   0.00018      18     130 ..      26     150 ..       2     163 .. 0.62

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 8.1e-08
          Glyco_trans_4_2  18 keLakrgyeVhvitpkkga.kdeleaegi.hvhrlkvd.rkg.pleylka.....fklkklikkikPDvvhahyakpygllgslaa 94 
                              +++ ++g+e+ ++ p+ +   + +++++i ++ r+k+  + +   e+ ++     +k+++ ++ ikPD++h+h+  +++ +    a
  PHY93_13080|PHY93_13080  26 NKFTEKGHEIFLLVPDYPNaVEWDKENKIkNIFRFKSTgI-FfNKENRRVcssekKKVFETLDSIKPDIIHIHTEFSLAKIVISYA 110
                              6678889999999997776667677777756777775532.223333333344546999999************988854444556 PP

          Glyco_trans_4_2  95 rlsgvipvvlsvwGldv.......lkfpkksk....lkklllklalk 130
                              ++++ ip+v++++ +         l+     +    l +++++++l+
  PHY93_13080|PHY93_13080 111 KKKN-IPIVMTAH-TNWeelvnayLA-----FvpqrLGRMYIRFMLQ 150
                              7777.****9998.444442243233.....2333455554444444 PP

>> Glyco_transf_5  Starch synthase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   0.0    0.0011       2.5       1      60 [.       2      61 ..       2      83 .. 0.76
   2 ?    5.1   0.2    0.0071        16     124     170 ..      84     122 ..      67     137 .. 0.71

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.0011
           Glyco_transf_5  1 kilfvasEvaplaktGGLadvvgaLpkaLaklghdvrvilPry.gaikeek.keleevaels 60
                             ki++++  + p   + G+   ++++ ++  ++gh++ +++P+y +a++ +k ++++++++++
  PHY93_13080|PHY93_13080  2 KIVYASDQYWP--SVSGVPVSMDSFKNKFTEKGHEIFLLVPDYpNAVEWDKeNKIKNIFRFK 61
                             67777777777..888999999999999***************8777776678888888764 PP

  == domain 2  score: 5.1 bits;  conditional E-value: 0.0071
           Glyco_transf_5 124 elleklgwkpdvihahDWhtalvpallkelykerglfkkiktvftiH 170
                              e+l     kpd+ih+h    +l+ +++  ++      k+i++v+t H
  PHY93_13080|PHY93_13080  84 ETLDS--IKPDIIHIHT-EFSLAKIVISYAK-----KKNIPIVMTAH 122
                              33333..48******97.4456666666654.....357******99 PP

>> UDG  Uracil DNA glycosylase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.0     0.029        65      52     120 ..     165     239 ..     137     244 .. 0.68
   2 ?    8.8   0.0   0.00065       1.5       5      23 ..     245     263 ..     242     328 .. 0.77

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.029
                              G.....CTEEEEESSS.......SEC...GCTTCCCCTCCHHHHHHHHHHHH.SSEEEEESHHHHHH..HHHHSCESCCCS CS
                      UDG  52 e.....qgvyitnvvkcrpp...gnr...dtptsaeikacaplleeeiellk.prlivllGktaakallgeklgklrgkll 120
                              +      ++yi ++v   p    +n+   ++++sa    +   le + +++k  ++++ +G+++ ++    ++++l ++l+
  PHY93_13080|PHY93_13080 165 MmqgilSKYYIQTAVQVIPTgidENKffkEKSNSAA--SHNFVLEGLADKIKdRKVLLYVGRIGKEK----NIKFLIDALH 239
                              255777889999999999973323558543444444..5555999999999988899******9999....5666555555 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.00065
                              CTT-SEEEEESSTCHHHHH CS
                      UDG   5 ppdakvvivGeaPgaeeda 23 
                              ++dak+vivGe P +ee +
  PHY93_13080|PHY93_13080 245 NKDAKLVIVGEGPAKEELE 263
                              789*************944 PP

>> Glyco_trans_1_2  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   7.4e-05      0.17       6      68 ..     300     363 ..     289     375 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 7.4e-05
          Glyco_trans_1_2   6 srsespnlrlfEaaacGafaltddaegleelftpgkevilfe.dleelaekiryllanpeerra 68 
                              s  es  l+++E + cG+++++    g  el   +  ++++e +l+ ++ek++ ll++ ++ + 
  PHY93_13080|PHY93_13080 300 SKVESQGLVILESMTCGTPVVAIGEMGTKELMGGDFGGFMVEdNLNLFVEKVELLLSDYQLHKL 363
                              455778899**************99******9999999999999********999887666555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (391 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       653  (0.0364214); expected 358.6 (0.02)
Passed bias filter:                      462  (0.0257683); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.64u 0.24s 00:00:00.88 Elapsed: 00:00:00.45
# Mc/sec: 2631.56
//
Query:       PHY93_13085|PHY93_13085  [L=381]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.9e-31  107.8   0.2    8.7e-31  107.2   0.2    1.3  1  FIST      FIST N domain
    5.8e-23   81.3   0.0    4.1e-22   78.5   0.0    2.0  2  FIST_C    FIST C domain
  ------ inclusion threshold ------
       0.15   12.7   0.0       0.76   10.4   0.0    2.0  2  EST1      Telomerase activating protein Est1


Domain annotation for each model (and alignments):
>> FIST  FIST N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  107.2   0.2   1.5e-34   8.7e-31       2     172 .]      31     218 ..      30     218 .. 0.84

  Alignments for each domain:
  == domain 1  score: 107.2 bits;  conditional E-value: 1.5e-34
                     FIST   2 lvlvfasaeasdleallealrealpgapliGcstageiasegleledgvvalalasa...............da..ageelak... 67 
                              l +vf+  e++  ++ l++l++++p++ ++G++t+g i+ ++ ++++++v++a++++               ++  +g ++ak   
  PHY93_13085|PHY93_13085  31 LFFVFINKERDFWKNHLQQLSKEFPNCSIVGATTSGHIG-DEFIYDSECVITAIKFNkakflvktfekisssSSfeVGMQIAKvgn 115
                              7899*998898999************************7.6999**********98865555555555543211444444444444 PP

                     FIST  68 al.pkllllladglssneeellegldealaspdvpivGGlagdgtlafk.tyvlfnggvledgvvvvllsgeslevgtavsqgyrp 151
                              +l  k+ +++++gl++n+++l+eg++   ++++  + GGl+gdg ++fk t v+ +++++++++vv+++++  +++ +  + g++ 
  PHY93_13085|PHY93_13085 116 ELnFKSGFIISEGLNVNGSKLVEGIN--STNNRMIFSGGLSGDG-ADFKeTLVFTKDKFISNSLVVIFFDEF-VSFSASCAGGWKS 197
                              3355559999***************9..34459999********.9**6599999999**9*******9777.9************ PP

                     FIST 152 igkpfvVTkaegnvileLdgk 172
                              +g +++VTk+e+n+++e+dg+
  PHY93_13085|PHY93_13085 198 FGIERTVTKSENNIVYEIDGR 218
                              *******************97 PP

>> FIST_C  FIST C domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   0.0      0.11   6.5e+02     106     129 ..      47      69 ..      42      70 .. 0.83
   2 !   78.5   0.0   6.9e-26   4.1e-22       1     129 [.     220     358 ..     220     359 .. 0.83

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 0.11
                   FIST_C 106 lqavrealgdgvplaGfftyGEig 129
                              lq++++ + +++ ++G+ t G ig
  PHY93_13085|PHY93_13085  47 LQQLSKEF-PNCSIVGATTSGHIG 69 
                              78899995.56**********997 PP

  == domain 2  score: 78.5 bits;  conditional E-value: 6.9e-26
                   FIST_C   1 Alevylellgeedeelaqsal.fplgleel...ggdflvrhllgvdpedgslaladdveeGqrlqlmlrdaealiedlerl....l 78 
                              A + y+e+lg ++  l++  l fp+ l+      +  lvr+llgvd+ +gsl++a+dv+eG  ++lm+ +  +li++++++    +
  PHY93_13085|PHY93_13085 220 AINLYKEYLGNKSTLLPSYGLhFPICLTSKinnVESELVRTLLGVDEPNGSLIFAGDVNEGAMIKLMKSSTRELINAAQEMykkeI 305
                              7889******999999999997699998778995567********************************************64442 PP

                   FIST_C  79 eeaak.......egallfsCigRglglgedadeelqavrealgdgvplaGfftyGEig 129
                                  k       +  l++sC+gR+l++g++++ee+ +  +  +  v  aGf++yGEi 
  PHY93_13085|PHY93_13085 306 ---DKmtdingdALSLIVSCLGRRLVMGQNTEEEFVLSPRG-F-TVVQAGFYSYGEIS 358
                              ...223224333359************99998866665555.4.4***********96 PP

>> EST1  Telomerase activating protein Est1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0   0.00013      0.76      32      69 ..      17      56 ..       2     144 .. 0.75
   2 ?   -0.2   0.0      0.23   1.4e+03      40      64 ..     285     309 ..     219     360 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00013
                             --H.HHHHHHH..HHHHHHHHHHHHHHHHHHHHHHHH-B- CS
                     EST1 32 kkkpvekrklk..lklvkflksaigfYqsliqrllsefel 69
                             ++ ++++++ +  + +  f++++  f+++ +q+l +ef +
  PHY93_13085|PHY93_13085 17 ERLKTDFMEFNsdSLFFVFINKERDFWKNHLQQLSKEFPN 56
                             566789999999999**********************885 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.23
                              HHHHHHHHHHHHHHHHHHHHHHHHH CS
                     EST1  40 klklklvkflksaigfYqsliqrll 64 
                               +k+  +++++ a++ Y++ i ++ 
  PHY93_13085|PHY93_13085 285 LMKSSTRELINAAQEMYKKEIDKMT 309
                              4667777788888888877776665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (381 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       578  (0.0322383); expected 358.6 (0.02)
Passed bias filter:                      475  (0.0264934); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.60u 0.27s 00:00:00.87 Elapsed: 00:00:00.46
# Mc/sec: 2484.04
//
Query:       PHY93_13090|PHY93_13090  [L=402]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    6.2e-21   75.0   0.1    1.5e-20   73.8   0.1    1.7  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    1.7e-12   47.2   0.7    4.3e-12   45.9   0.0    2.0  2  HisKA        His Kinase A (phospho-acceptor) domain
    1.4e-10   41.0   0.9    4.4e-10   39.4   0.2    2.3  2  HATPase_c_5  GHKL domain
    0.00019   21.4   0.0    0.00055   19.9   0.0    1.8  1  PAS          PAS fold
     0.0016   18.7   0.0     0.0025   18.0   0.0    1.3  1  PAS_4        PAS fold
  ------ inclusion threshold ------
      0.014   15.2   0.0      0.034   14.0   0.0    1.7  1  HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like
      0.016   14.4   0.0      0.027   13.6   0.0    1.3  1  TAP42        TAP42-like family
       0.06   13.2   0.1       0.21   11.4   0.0    2.0  2  DUF4268      Domain of unknown function (DUF4268)
      0.084   12.8   0.0          1    9.3   0.0    2.3  2  HATPase_c_2  Histidine kinase-like ATPase domain


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.8   0.1   7.3e-24   1.5e-20       4     107 ..     300     401 ..     297     402 .] 0.90

  Alignments for each domain:
  == domain 1  score: 73.8 bits;  conditional E-value: 7.3e-24
                              HHHHHHHHHHHHHHHHH..HSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHHHHH CS
                HATPase_c   4 krLrqiisnlvdNavkf..atkageieveikaseddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkklvel 87 
                                L+q++ nl+ Na+++  + +++ i++ ik+++ +++i+v+D+G+G+p e+++klf +f +   tk  g gtGlGlsi+kk++e 
  PHY93_13090|PHY93_13090 300 GELTQVLFNLINNAIEAikNLEEKWISIDIKVTKLNYEIRVTDSGKGVPLEIQDKLFSPFFT---TKPVGDGTGLGLSICKKIIEN 382
                              579**************754488889999998889***************************...9999***************** PP

                              TTTEEEEEEETTTEEEEEEE CS
                HATPase_c  88 mgGeiwvesepgrGttftft 107
                              ++G+i++ +++ + t+f+++
  PHY93_13090|PHY93_13090 383 HKGNISI-DNKCINTCFIVS 401
                              *******.444588888876 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.3       1.9   3.8e+03      34      60 ..      30      56 ..      16      58 .. 0.65
   2 !   45.9   0.0   2.2e-15   4.3e-12       2      64 ..     181     252 ..     180     255 .. 0.93

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 1.9
                             HSSCHHHHHHHHHHHHHHHHHHHHHHH CS
                    HisKA 34 teelkeyletiesearrldhlvedlLd 60
                              e++   +e+  +e    +++v+++L+
  PHY93_13090|PHY93_13090 30 EERQNLIIEINDEELTLKNKQVNEILE 56
                             466666667666666655777777764 PP

  == domain 2  score: 45.9 bits;  conditional E-value: 2.2e-15
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHC...........T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCH CS
                    HisKA   2 lgrflagvaHELrtPLsailgnaeaLkre.........gklteelkeyletiesearrldhlvedlLdlsri 64 
                              lg+ +agvaHE+++P++++lg + a+ r+         ++ t++l e +e+i+  a+r++++v+ l  lsr 
  PHY93_13090|PHY93_13090 181 LGEITAGVAHEINNPMTVVLGQSRAILRKykgknkvvgPEETPDLIERVEKIITMANRVSKIVQSLKLLSRD 252
                              7899*********************87777*******9888999999********************99997 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0         2     4e+03      43      68 ..     232     257 ..     227     267 .. 0.65
   2 !   39.4   0.2   2.2e-13   4.4e-10       5      90 ..     301     392 ..     297     402 .] 0.84

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 2
              HATPase_c_5  43 iisieNsyegekkklesskskkeehG 68 
                              ii++ N +++  ++l+  ++++++  
  PHY93_13090|PHY93_13090 232 IITMANRVSKIVQSLKLLSRDTDKDD 257
                              78899999987766665555555444 PP

  == domain 2  score: 39.4 bits;  conditional E-value: 2.2e-13
              HATPase_c_5   5 dlcvilgnlLdNAieacskieeekrfIrltvrekkksliisieNsyeg.....ek...kklesskskkeehGiGlksireivkkyk 82 
                              +l+ +l nl++NAiea +++e  ++ I++ ++ +k ++ i+++ s +g     +      ++++k  ++  G+Gl+  ++i++++k
  PHY93_13090|PHY93_13090 301 ELTQVLFNLINNAIEAIKNLE--EKWISIDIKVTKLNYEIRVTDSGKGvpleiQDklfSPFFTTKPVGDGTGLGLSICKKIIENHK 384
                              7999*****************..8*********************9996664321234445599********************** PP

              HATPase_c_5  83 gnlsieae 90 
                              gn+si+++
  PHY93_13090|PHY93_13090 385 GNISIDNK 392
                              ****9876 PP

>> PAS  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.9   0.0   2.7e-07   0.00055       2      53 ..      50     101 ..      49     122 .. 0.87

  Alignments for each domain:
  == domain 1  score: 19.9 bits;  conditional E-value: 2.7e-07
                              HHHHHHHHSSSEEEEEETTSBEEEECHHHHHHHSSTHHHCTTSBGGGGBSTT CS
                      PAS   2 dlraileslpdpifvvDedgrilyvNaaaeellGlsreevlgkslldlihee 53 
                              ++ +ileslp  +  +D d + +++N++ e l G + + ++gk++ d+ +  
  PHY93_13090|PHY93_13090  50 QVNEILESLPGYVSWIDSDLNYVGMNRNLENLIGVEDKGLMGKNIADESPQH 101
                              5789*******************************************98753 PP

>> PAS_4  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.0   1.3e-06    0.0025       1     107 [.      55     157 ..      55     159 .. 0.79

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 1.3e-06
                    PAS_4   1 ldslpdalavldpdgrvlyaNaaaaelfgappeellGktlaellpeedaarleralrrvlegeepiefleelll.pgeerhyelrl 85 
                              l+slp ++  +d+d++++ +N++ + l+g++++ l+Gk  a+  p+ + + l +++++   +e++ +++ +    + +e+++++ l
  PHY93_13090|PHY93_13090  55 LESLPGYVSWIDSDLNYVGMNRNLENLIGVEDKGLMGKNIADESPQ-HFQKLIPIVEAFRGSEKVSDQCSYSANyGVGEKFFNVYL 139
                              799**************************************86665.888888888877777777777776666777777777777 PP

                    PAS_4  86 lPlrdesGevigvlvisrDiTe 107
                                +  ++G    +++ s+D+Te
  PHY93_13090|PHY93_13090 140 QKI--SEGS--KIIINSIDVTE 157
                              777..4566..66666677666 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   1.7e-05     0.034       4      54 ..     303     356 ..     300     372 .. 0.79

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.7e-05
              HATPase_c_3   4 ekAlaelvdNsldAdaen......vkievnknrgktgeivieDdGkGmseeelknal 54 
                              +++l+ l++N+++A  +       ++i+v k    + ei+++D GkG++ e  ++ +
  PHY93_13090|PHY93_13090 303 TQVLFNLINNAIEAIKNLeekwisIDIKVTKL---NYEIRVTDSGKGVPLEIQDKLF 356
                              6899**********766577997777777775...48***********987555555 PP

>> TAP42  TAP42-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   1.3e-05     0.027       9      73 ..     207     271 ..     202     274 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 1.3e-05
                              HHHHHH.HHC-S-TTSHHHHHHHHHHHHHHHHHHHHHHHHTTT-SSS-CCCS-TTTGGGGGHHHH CS
                    TAP42   9 lklyeeslessapsnseeyqekvkkaiaalekaaklvsqlslFSsNEsledistsdLkyLlvpyy 73 
                              l++y+ + +   p+++++  e+v+k+i + ++++k+v++l+l+S+  + +d + ++L+ +++p++
  PHY93_13090|PHY93_13090 207 LRKYKGKNKVVGPEETPDLIERVEKIITMANRVSKIVQSLKLLSRDTDKDDFEMENLERIIIPAI 271
                              56666544444499999*******************************************99985 PP

>> DUF4268  Domain of unknown function (DUF4268)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0       4.2   8.3e+03      32      71 ..     125     164 ..     115     170 .. 0.57
   2 ?   11.4   0.0   0.00011      0.21      18      59 ..     312     353 ..     301     362 .. 0.88

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 4.2
                  DUF4268  32 nystgisgvslklvaskkkarvelyIskkdeeenkeifek 71 
                              +++ g+ +  ++++++k +   ++ I+  d  en  + ++
  PHY93_13090|PHY93_13090 125 SANYGVGEKFFNVYLQKISEGSKIIINSIDVTENVLLQRQ 164
                              5555555555555555555555555555555555555555 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 0.00011
                  DUF4268  18 kefsnrkpsprhWlnystgisgvslklvaskkkarvelyIsk 59 
                              + ++++k  +++W++++++++++++++ +++++  v l+I++
  PHY93_13090|PHY93_13090 312 NAIEAIKNLEEKWISIDIKVTKLNYEIRVTDSGKGVPLEIQD 353
                              46777888999*****************************65 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.0      0.26   5.2e+02       4      44 ..      98     138 ..      96     158 .. 0.90
   2 ?    9.3   0.0   0.00051         1      40     109 ..     310     380 ..     299     394 .. 0.79

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.26
              HATPase_c_2   4 dpehvrtvrevaeavlrraglseelldeirlaveEactNav 44 
                               p+h ++++ ++ea+     +s+++ +  +  v+E + N++
  PHY93_13090|PHY93_13090  98 SPQHFQKLIPIVEAFRGSEKVSDQCSYSANYGVGEKFFNVY 138
                              58899999999****888******************99987 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.00051
              HATPase_c_2  40 ctNavehayleapegpvevrlesdeealtvevaDsGpgfdpetlpdpteeep....keslkegGrGlalikglv 109
                              ++Na+e+ ++  +e+ +++ +++++   +++v+DsG+g ++e +++     p    k  ++  G+Gl + k++ 
  PHY93_13090|PHY93_13090 310 INNAIEAIKN-LEEKWISIDIKVTKLNYEIRVTDSGKGVPLEIQDKLFS--PffttKPVGDGTGLGLSICKKII 380
                              6788888776.566999*********************99885444332..34566777888888888888776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (402 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       989  (0.055162); expected 358.6 (0.02)
Passed bias filter:                      577  (0.0321825); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.66u 0.25s 00:00:00.91 Elapsed: 00:00:00.46
# Mc/sec: 2611.23
//
Query:       PHY93_13095|PHY93_13095  [L=507]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    5.8e-17   61.9   0.0    8.9e-17   61.3   0.0    1.1  1  Beta-lactamase  Beta-lactamase
  ------ inclusion threshold ------
      0.055   13.7   0.6        0.2   11.8   0.6    2.0  2  Methylase_S     Type I restriction modification DNA specifici


Domain annotation for each model (and alignments):
>> Beta-lactamase  Beta-lactamase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.3   0.0   9.9e-21   8.9e-17      19     306 ..      82     366 ..      72     373 .. 0.85

  Alignments for each domain:
  == domain 1  score: 61.3 bits;  conditional E-value: 9.9e-21
                              EEEEETTEEEEEEEEEEEETTTTEEESTTSBEEEGGGHHHHHHHHHHHHHHTTSSCTTSBGGGTST.TCTTGGGTTEBHHHHHTTH CS
           Beta-lactamase  19 vavvrdgkvvldkggGvadleggrpvtadtlfriaSvtKtftaaavlqlveeGkldLddpVskylP.efagpgkgkiTlrdLltHt 103
                              ++v+r+g++ ++ +          ++  + ++ ++S++Kt+t+a++   +++Gk++Ld+++ +  P ++a++ ++ki +++L    
  PHY93_13095|PHY93_13095  82 LVVIRKGTIEYEGYD--------SKYGINAPHVLWSISKTITGALLGVAIRDGKITLDQKLNEFYPrPDASDNYQKIKIENLFYLD 159
                              678999999988773........49999********************************************************** PP

                              SSCSSSSTSTTCTSHHHTH.........HHHHHHHHHSBSSSS.TTSCEE-SHHHHHHHHHHHHHHHTSHHHHHHHHHTTTTTTST CS
           Beta-lactamase 104 sGlpdlfasdlleeaaada.........aellralatlppkya.pGtkwgYsntgygllgellekvtgrsleqllreeilrpLgmk 179
                               G+ ++  ++    +++           a++ ++ ++ +  ++ pG kw+Ys  +  +   +l  v g+ +++   + ++ pL  +
  PHY93_13095|PHY93_13095 160 TGFLWN-EYYSGNVRQSPVlnmlygtghADVADFASRKEIISEgPGYKWNYSTGTPAITMGVLKSVYGKEYDEMPWKLFFNPLSIN 244
                              ***999.5555555555558****************99999999*************77777************************ PP

                              TEESSTTGGGGGGBEEEEEEETCEEECSCETTHHHHCTTTBEEEEHHHHHHHH......HHHHHCCSSSSHHHHHHH..HHHHTSE CS
           Beta-lactamase 180 dtelgppesgdprdaagytgngpearappanlpaeaegagglistardlarfl......glalegglllsaetlaql..taklssg 257
                                ++  +  g ++  +++                        ++t+r +a+ +      g+ +++++l ++++ ++l  ++   s+
  PHY93_13095|PHY93_13095 245 RASFERDHRGVFNGGSSA------------------------FATPREMAKIGylylnrGMWNGEEILTEDWIEKTLkvSPGYISN 306
                              ******************........................****************9999999999999999999663333333 PP

                              EEECTTEEEEC..ECSSEEEEECCH............TEEEEEEESTEEEEEEEECGGTEEEE CS
           Beta-lactamase 258 ttrpagiragl..glGwvladktga............pgtfghtGggygtyvfvdpeanlvva 306
                               t    i++    g   +l+ +               + +f   G  yg++++v p +++v+a
  PHY93_13095|PHY93_13095 307 GTVIRDITDDGvyGGSIWLNRS--VkkgfgkpyptspEDMFLALG-HYGQMIIVLPSQDMVIA 366
                              3333333333322333333333..2446777777777999*****.**************998 PP

>> Methylase_S  Type I restriction modification DNA specificity domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.6   2.3e-05       0.2      33      97 ..      66     145 ..       7     172 .. 0.81
   2 ?   -3.6   0.0       1.3   1.1e+04     116     131 ..     208     223 ..     188     230 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 2.3e-05
                              EEE-HHHCCT...........EE-HHHHCCTT---B-TT-EEEE-S....SSTT-EEEESS-BEE-TTEEEEEESTTT-- CS
              Methylase_S  33 pyiragilnn...........kvvkdglgykkkyilpkgdilissr....atiGkvayrdkkyylnqsvivlipknkkki 97 
                              ++++ +++n+           k++++++gy++ky ++   +l+s++    +    va+rd k++l q+++++ p+++  +
  PHY93_13095|PHY93_13095  66 DFFKFSTKNKkflteglvvirKGTIEYEGYDSKYGINAPHVLWSISktitGALLGVAIRDGKITLDQKLNEFYPRPDASD 145
                              56666655556666677777899**********************98877666679*****************9984433 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 1.3
                              CCSSTTT---HHHHCC CS
              Methylase_S 116 svgstqpkltkenlkk 131
                              + ++++p +t+  lk+
  PHY93_13095|PHY93_13095 208 NYSTGTPAITMGVLKS 223
                              5678888888888876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (507 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       502  (0.0279993); expected 358.6 (0.02)
Passed bias filter:                      422  (0.0235373); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.65u 0.25s 00:00:00.90 Elapsed: 00:00:00.46
# Mc/sec: 3291.24
//
Query:       PHY93_13100|PHY93_13100  [L=288]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
       0.16   11.6   0.4       0.39   10.3   0.2    1.8  1  Reprolysin_4   Metallo-peptidase family M12B Reprolysin-like
       0.22   11.3   0.1       0.51   10.1   0.0    1.6  2  Peptidase_M48  Peptidase family M48


Domain annotation for each model (and alignments):
>> Reprolysin_4  Metallo-peptidase family M12B Reprolysin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.2   4.3e-05      0.39     100     152 ..      78     133 ..      69     186 .. 0.68

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 4.3e-05
             Reprolysin_4 100 dtrasqqnvgvawvgalclsarqnkkasgvaas...rdeydi.fAHEiGHtfGaaHd 152
                              +   s ++v+++++  +  +   n+ ++ ++      d++   + HE GH++G a  
  PHY93_13100|PHY93_13100  78 KNHWSDDEVNASALRSGS-NWVVNMYGGLARHPmttDDGFALvVCHELGHHIGGAPR 133
                              444678889999998888.333377665555445756699666*********97644 PP

>> Peptidase_M48  Peptidase family M48
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.0   5.7e-05      0.51      32      78 ..      83     130 ..      74     170 .. 0.83
   2 ?   -1.4   0.0      0.18   1.6e+03     136     154 ..     141     159 ..     136     239 .. 0.73

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 5.7e-05
                              GGGT-EEEEESSS-EEEEEEHHHH.-SSB-HHHHHHHHHHHHHHHHTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48  32 spkrNAFalgggknkrivltdgLl.kqllseeelaaVlGHElGHikhr 78 
                              ++++NA al  g n  + ++ gL  + + +++  a V  HElGH+  +
  PHY93_13100|PHY93_13100  83 DDEVNASALRSGSNWVVNMYGGLArHPMTTDDGFALVVCHELGHHIGG 130
                              6778********888999*****94457889999**********9765 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.18
                              HHHHHHHHHHHTTT.HHHH CS
                              xxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48 136 rEyqADeagvellkrakdl 154
                              +E qAD +g   + r+   
  PHY93_13100|PHY93_13100 141 NEGQADYFGSMKCLRRVFE 159
                              6888888886555444333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (288 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       413  (0.0230353); expected 358.6 (0.02)
Passed bias filter:                      368  (0.0205254); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.28s 00:00:00.85 Elapsed: 00:00:00.48
# Mc/sec: 1804.66
//
Query:       PHY93_16985|PHY93_16985  [L=90]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (90 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       348  (0.0194099); expected 358.6 (0.02)
Passed bias filter:                      268  (0.0149478); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.46
# Mc/sec: 587.49
//
Query:       PHY93_13105|PHY93_13105  [L=233]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (233 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       335  (0.0186848); expected 358.6 (0.02)
Passed bias filter:                      194  (0.0108205); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.25s 00:00:00.77 Elapsed: 00:00:00.47
# Mc/sec: 1484.88
//
Query:       PHY93_13110|PHY93_13110  [L=516]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-37  129.2  35.7    1.6e-34  119.2  17.7    4.2  3  MCPsignal        Methyl-accepting chemotaxis protein (MCP) si
     0.0022   18.2   3.2     0.0022   18.2   3.2    3.2  4  ATG16            Autophagy protein 16 (ATG16)
  ------ inclusion threshold ------
      0.016   15.1   0.9       0.52   10.1   0.2    2.2  2  GCSF             Granulocyte colony-stimulating factor
      0.075   13.3   4.6        4.7    7.6   0.3    2.6  2  DUF4064          Protein of unknown function (DUF4064)
      0.076   13.3   5.1       0.37   11.1   1.7    2.7  2  DUF3365          Protein of unknown function (DUF3365)
       0.13   12.5  31.0       0.13   12.5   4.6    6.3  6  DUF948           Bacterial protein of unknown function (DUF94
       0.14   11.4   1.4        9.9    5.4   0.1    2.5  2  NicO             High-affinity nickel-transport protein
       0.19   10.9   8.1      0.059   12.6   2.7    2.3  2  DUF2232          Predicted membrane protein (DUF2232)
       0.26   10.6   7.8        0.1   11.9   1.7    2.5  2  DUF3810          Protein of unknown function (DUF3810)
        1.3    9.0  11.5        1.8    8.6   1.3    3.0  3  Chlorosome_CsmC  Chlorosome envelope protein C
        1.4    8.8   7.7        4.1    7.2   7.7    1.8  1  Folliculin       Vesicle coat protein involved in Golgi to pl
        1.8    9.0  12.3       0.49   10.8   5.0    3.0  3  DUF4199          Protein of unknown function (DUF4199)
        2.2    8.6   7.5        8.2    6.8   0.1    3.2  3  DUF5616          Domain of unknown function (DUF5616)
        5.7    7.0   9.5         20    5.3   0.6    2.9  2  DUF3671          Protein of unknown function
        8.5    4.7   9.9         12    4.2   4.4    2.1  2  SID-1_RNA_chan   dsRNA-gated channel SID-1


Domain annotation for each model (and alignments):
>> MCPsignal  Methyl-accepting chemotaxis protein (MCP) signalling domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.2      0.25     3e+02     110     137 ..      71      98 ..      39     123 .. 0.45
   2 !   15.8   4.7   7.6e-06     0.009     125     171 ..     222     268 ..     208     269 .. 0.87
   3 !  119.2  17.7   1.4e-37   1.6e-34       3     171 ..     282     479 ..     280     480 .. 0.88

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 0.25
                              HHHHHHHHHHHHHHHHHCCHHHHHHHHH CS
                MCPsignal 110 eetrqrveegselveetgealkeiveav 137
                               + +++ +e++++ +e +++++e    v
  PHY93_13110|PHY93_13110  71 AQINHNLDESLKELSEIKKKMHESIFIV 98 
                              2233333333333333333333333333 PP

  == domain 2  score: 15.8 bits;  conditional E-value: 7.6e-06
                              HHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal 125 etgealkeiveavaevadlvqeiaaaseeqsasieevnqaveevakv 171
                              e  +++ +ive+ ++va+  ++++ ++++q+++i+e++ ++ee++++
  PHY93_13110|PHY93_13110 222 ELVKTFDQIVENSSRVAKAAEQLSESTNQQASAIQETSASMEEMNSM 268
                              44689***************************************986 PP

  == domain 3  score: 119.2 bits;  conditional E-value: 1.4e-37
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHH.....................HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCCC CS
                MCPsignal   3 laeeaseeAeeggkevanvvkqmeeieks.....................skeisdiieVideiadQTNlLALNAaiEAARAGeqG 67 
                              l++++ e+A +g ++ ++ ++ ++ei+++                      +ei   ++Vi++i +QT lL  NA++EAARAGeqG
  PHY93_13110|PHY93_13110 282 LSRSSAENAFKGRETSEHLMRSVNEIDENnksimievqrgnekigeivglINEIGTKTKVINDIVFQTKLLSFNASVEAARAGEQG 367
                              678888999999999999999999999888999999999999999999999999999***************************** PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHHHH......................HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHH CS
                MCPsignal  68 rGFaVVAdEVrkLAersaqaakeiealiieiqkeindsv........esleetrqrveegselveetgealkeiveavaevadlvq 145
                              +GFaVVA+EV +LA+ s +aa ei+al+++ ++++++++        ++l++ +q v +g++ ++et++ lk i   v+ v++ ++
  PHY93_13110|PHY93_13110 368 KGFAVVAEEVGNLAQMSGKAAMEISALLEDSTHKVKSVIdetqkgvgDILTKGNQVVRQGLSVADETAKILKIIDGDVKIVDSNIS 453
                              ***************************98766555544411111112467888999****************************** PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal 146 eiaaaseeqsasieevnqaveevakv 171
                              ei+ as+eqs+++++v+qa++++++ 
  PHY93_13110|PHY93_13110 454 EISIASDEQSKGADQVAQALHQLDQA 479
                              *********************99986 PP

>> ATG16  Autophagy protein 16 (ATG16)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.2       3.1   3.7e+03     113     140 ..      42      69 ..      38      95 .. 0.52
   2 ?   -1.8   0.2       2.6   3.1e+03     132     148 ..     136     152 ..     125     162 .. 0.51
   3 !   18.2   3.2   1.9e-06    0.0022      14     125 ..     217     314 ..     205     345 .. 0.83
   4 ?    5.4   0.7     0.016        19      70     126 ..     456     512 ..     385     516 .] 0.80

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 3.1
                    ATG16 113 kleeklkedeerlaeleaeraaletklk 140
                              ++ +   +d+e++a++  e+a++    +
  PHY93_13110|PHY93_13110  42 DKGSDRVKDTEKIAQILLEVAQVYAVAA 69 
                              5555555555555555555555443333 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 2.6
                    ATG16 132 raaletklkdreeelre 148
                               ++l++k kd++ ++ +
  PHY93_13110|PHY93_13110 136 TEQLNQKTKDLDGKIDG 152
                              23333333333333333 PP

  == domain 3  score: 18.2 bits;  conditional E-value: 1.9e-06
                    ATG16  14 ekafaeliqaynrLldrtsaleaenaklekaaasakssksskksakekeasasqsnskqsakiqsleqklaqlreelaelyksrge 99 
                              +++ +el++++ ++ +++s  ++ +++l              + ++ ++asa q++s++ ++++s+ +k+a+  +e + l +s +e
  PHY93_13110|PHY93_13110 217 NNVKSELVKTFDQIVENSSRVAKAAEQL--------------SESTNQQASAIQETSASMEEMNSMIKKTAESASESTRLSRSSAE 288
                              78899***********************..............33444555555556667788999999999999************ PP

                    ATG16 100 laqrllelneelqkleeklkedeerl 125
                              +a + +e++e l +  +++ e+++++
  PHY93_13110|PHY93_13110 289 NAFKGRETSEHLMRSVNEIDENNKSI 314
                              ************99999999999887 PP

  == domain 4  score: 5.4 bits;  conditional E-value: 0.016
                    ATG16  70 skqsakiqsleqklaqlreelaelyksrgelaqrllelneelqkleeklkedeerla 126
                              s  s++ ++ ++++aq  ++l ++   ++ l+q+l   ++el  + +klk    +l+
  PHY93_13110|PHY93_13110 456 SIASDEQSKGADQVAQALHQLDQATHVNSSLSQQLFGYSKELTHQTDKLKLAVHELQ 512
                              556667777788999999999999999999999999999999999999987766665 PP

>> GCSF  Granulocyte colony-stimulating factor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.0     0.058        70      70     130 ..     214     275 ..     198     291 .. 0.82
   2 ?   10.1   0.2   0.00044      0.52      45      93 ..     463     511 ..     446     515 .. 0.87

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.058
                              HHTTTSSTTTHHHHHHHHHHHHHHHHHHHHHHHHC.T-S-SS--SSS--S---SHHHHHHHH CS
                     GCSF  70 qalegispelaptldtlqldvadfattiwqqmeel.gvapavqptqgampaftsafqrragg 130
                               al+ +  el  t+d +  + +  a +  q  e     a a+q t ++m  + s +++ a  
  PHY93_13110|PHY93_13110 214 TALNNVKSELVKTFDQIVENSSRVAKAAEQLSESTnQQASAIQETSASMEEMNSMIKKTAES 275
                              68999999*******9999999999888777776525799************9999988765 PP

  == domain 2  score: 10.1 bits;  conditional E-value: 0.00044
                              STTTSSHHHHHHHHHHHHHHHHHHHHHTTTSSTTTHHHHHHHHHHHHHH CS
                     GCSF  45 ssqalqltsclsqlhsglflyqgllqalegispelaptldtlqldvadf 93 
                              s  a q ++ l ql     +   l q l g s el+   d l+l v ++
  PHY93_13110|PHY93_13110 463 SKGADQVAQALHQLDQATHVNSSLSQQLFGYSKELTHQTDKLKLAVHEL 511
                              4457899*************************************99876 PP

>> DUF4064  Protein of unknown function (DUF4064)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.6   0.3    0.0039       4.7      13      67 ..      14      68 ..      11      73 .. 0.79
   2 ?    6.8   0.5    0.0068       8.1       7      43 ..     188     242 ..     184     269 .. 0.69

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.0039
                  DUF4064 13 gilgillglllllflfllssgefsqelteeqalsgedasavleflstllivlgvi 67
                             +++ +l++l++l+++fll+s+++  +l  +++  ++d++ ++ +l ++  v++v+
  PHY93_13110|PHY93_13110 14 ASFLFLIFLFALIIVFLLNSQYKLGALQDKGSDRVKDTEKIAQILLEVAQVYAVA 68
                             5788999999999999999999998888777777778887777777777777665 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.0068
                  DUF4064   7 iLglIGgilgillglllllflfllssgefsqeltee..................q 43 
                               L++ G+++  +++++l++f+++  s+   +  +e                   +
  PHY93_13110|PHY93_13110 188 SLSIAGAVFVTIISVFLAIFISFKTSTALNNVKSELvktfdqivenssrvakaaE 242
                              5899999999999999999988877777666666657777766666555555553 PP

>> DUF3365  Protein of unknown function (DUF3365)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.1      0.13   1.6e+02       3     101 ..      20     140 ..      18     174 .. 0.50
   2 ?   11.1   1.7   0.00031      0.37       7      98 ..     201     318 ..     195     356 .. 0.56

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.13
                              XXXXXXXXXXXXXXX......XXX--HHHHHHHHHHHHHHHHHHHHHHTTS-S....--GGGGS--SHHHHHHH...........H CS
                  DUF3365   3 vvllglllalslrsq......krqaeeealekarllaeqleavreyvakslkpti..vpayaareiaeefsekr...........k 69 
                              ++l++l++++ l+sq      +    ++ ++  + +a+ l +v +++a   + +i  +   + +e++e+ ++ +            
  PHY93_13110|PHY93_13110  20 IFLFALIIVFLLNSQyklgalQD-KGSDRVKDTEKIAQILLEVAQVYAVAADAQInhNLDESLKELSEIKKKMHesifivakiadT 104
                              66666666666666654554322.33444444555566666665544444442122322233333333333333333333333333 PP

                              T-EEEEE-SS-SSGGGS--SHHHHHHHHHEE..... CS
                  DUF3365  70 gysyketslnprnprnkpdefEkealeefkk....e 101
                              g + k +++  +n  n   +fE+e+l e+kk    +
  PHY93_13110|PHY93_13110 105 GEEAKWAQDFKTNYINYVGAFENEMLPELKKteqlN 140
                              447777777778888888888888888884444441 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 0.00031
                              XXXXXXXXXXXXXX...........--HHHHHHHHHHHHHHHHHHHHHHTTS-S.................--GGGGS--SHHHHH CS
                  DUF3365   7 glllalslrsqkrq...........aeeealekarllaeqleavreyvakslkpti...............vpayaareiaeefse 66 
                              +++la++++ ++++           + ++++e++  +a+ +e++ e ++++    i                        ae  se
  PHY93_13110|PHY93_13110 201 SVFLAIFISFKTSTalnnvkselvkTFDQIVENSSRVAKAAEQLSESTNQQASA-IqetsasmeemnsmikK-------TAESASE 278
                              444444444443330111122244444445555555555555554444444442.13333444544333341.......3333333 PP

                              HH........HT-EEEEE-SS-SSGGGS--SHHHHHHHHH CS
                  DUF3365  67 kr........kgysyketslnprnprnkpdefEkealeef 98 
                              ++        + ++ +ets + ++  n+ de  k ++ e 
  PHY93_13110|PHY93_13110 279 STrlsrssaeNAFKGRETSEHLMRSVNEIDENNKSIMIEV 318
                              333334445667******************9999988777 PP

>> DUF948  Bacterial protein of unknown function (DUF948)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.0   0.5     0.051        61      10      68 ..      23      78 ..      15     109 .. 0.71
   2 ?   -0.1   0.0      0.97   1.2e+03      58      72 ..     135     148 ..     122     180 .. 0.62
   3 ?   12.5   4.6   0.00011      0.13       6      82 ..     191     274 ..     187     281 .. 0.49
   4 ?    5.4   0.2     0.019        22      43      88 ..     298     343 ..     288     355 .. 0.76
   5 ?    3.9   0.7     0.052        62      23      64 ..     401     442 ..     372     464 .. 0.55
   6 ?    1.3   1.5      0.36   4.3e+02      28      49 ..     466     487 ..     422     516 .] 0.52

  Alignments for each domain:
  == domain 1  score: 4.0 bits;  conditional E-value: 0.051
                   DUF948 10 FvvLviflivvllklkktldeaaatieelekqvdpilkevedllakvnelledvnekle 68
                             F+++++fl     kl+ + d+ +++++++ek + +il ev+++ a + +  +++n+ l+
  PHY93_13110|PHY93_13110 23 FALIIVFLLNSQYKLGALQDKGSDRVKDTEK-IAQILLEVAQVYAVAAD--AQINHNLD 78
                             7888888888889999999999999999875.66777788888877777..44544433 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.97
                   DUF948  58 elledvneklekvdp 72 
                              + +e++n+k++++d 
  PHY93_13110|PHY93_13110 135 K-TEQLNQKTKDLDG 148
                              3.3333333333332 PP

  == domain 3  score: 12.5 bits;  conditional E-value: 0.00011
                   DUF948   6 aAiAFvvLviflivvllkl.......kktldeaaatieelekqvdpilkevedllakvnelledvneklekvdplteavadlge 82 
                              +A+A+ v +i ++ +++         +++ +e+ +t +++ ++   + k +e+l + +n+ ++ ++e +++++++ + +++++e
  PHY93_13110|PHY93_13110 191 IAGAVFVTIISVFLAIFISfktstalNNVKSELVKTFDQIVENSSRVAKAAEQLSESTNQQASAIQETSASMEEMNSMIKKTAE 274
                              455555555555555544401111115555555555555555555555555555555555555555555555555555555555 PP

  == domain 4  score: 5.4 bits;  conditional E-value: 0.019
                   DUF948  43 dpilkevedllakvnelledvneklekvdplteavadlgesvseln 88 
                              + +++ v+++ ++ + ++ +v++  ek+ +++  ++++g++ + +n
  PHY93_13110|PHY93_13110 298 EHLMRSVNEIDENNKSIMIEVQRGNEKIGEIVGLINEIGTKTKVIN 343
                              5567777888888888888888888888888888888887766554 PP

  == domain 5  score: 3.9 bits;  conditional E-value: 0.052
                   DUF948  23 klkktldeaaatieelekqvdpilkevedllakvnelledvn 64 
                              k+k+++de+++ + ++  + ++++++   + +++ ++l+ + 
  PHY93_13110|PHY93_13110 401 KVKSVIDETQKGVGDILTKGNQVVRQGLSVADETAKILKIID 442
                              334444444444444444444444444444444444444444 PP

  == domain 6  score: 1.3 bits;  conditional E-value: 0.36
                   DUF948  28 ldeaaatieelekqvdpilkev 49 
                              +d++a+++++l + ++  +  +
  PHY93_13110|PHY93_13110 466 ADQVAQALHQLDQATHVNSSLS 487
                              3333333333333333222222 PP

>> NicO  High-affinity nickel-transport protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.1     0.013        15      82     107 ..      12      38 ..       4      99 .. 0.73
   2 ?    5.4   0.1    0.0083       9.9      36      76 ..     182     221 ..     177     301 .. 0.87

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.013
                     NicO  82 i.asFllvilllnllllrklrklfrkl 107
                              i asFl++i+l +l++++ l ++++  
  PHY93_13110|PHY93_13110  12 IvASFLFLIFLFALIIVFLLNSQYKLG 38 
                              559**************9999999644 PP

  == domain 2  score: 5.4 bits;  conditional E-value: 0.0083
                     NicO  36 alkrGillslgsslvvvlvavllvvaavlvlrltslsetga 76 
                              + krGi ls++ ++ v++++v+l++++ + +  t l++ ++
  PHY93_13110|PHY93_13110 182 TFKRGISLSIAGAVFVTIISVFLAIFISFKTS-TALNNVKS 221
                              67999999999999999999999998876554.55555555 PP

>> DUF2232  Predicted membrane protein (DUF2232)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   0.3       0.2   2.3e+02     261     278 ..      14      30 ..       4     101 .. 0.51
   2 ?   12.6   2.7   4.9e-05     0.059      83     158 ..     186     270 ..     176     273 .. 0.71

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.2
                  DUF2232 261 pkalrvlilvllillpfl 278
                              +++l  li+++ ++++fl
  PHY93_13110|PHY93_13110  14 ASFL-FLIFLFALIIVFL 30 
                              2222.1111111111111 PP

  == domain 2  score: 12.6 bits;  conditional E-value: 4.9e-05
                  DUF2232  83 saertliagtlafllgillafallalllg.........vnllaqvekeikesveealklyeeaGmsedelkelqklleeevslll 158
                              +++ +++ ++ ++++++ la++++++ +          v++++q++++ + + + a++l e ++++++  +e   ++ee+ s++ 
  PHY93_13110|PHY93_13110 186 GISLSIAGAVFVTIISVFLAIFISFKTSTalnnvkselVKTFDQIVENSSRVAKAAEQLSESTNQQASAIQETSASMEEMNSMIK 270
                              4555666777777777777777777777777667766777777777777777777778888887766666888888888888776 PP

>> DUF3810  Protein of unknown function (DUF3810)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.3      0.14   1.7e+02      56     130 ..      13      89 ..       3     137 .. 0.56
   2 ?   11.9   1.7   8.5e-05       0.1      55     147 ..     191     284 ..     158     303 .. 0.79

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.14
                  DUF3810  56 llkvllrvllvllvvyflftllwglnYyreplserlglkkeeyseeelaelaeklveklnelreqverde.....eevrk 130
                              + ++l  ++l++l+++fl    + l   + + s+r+  k +e+ ++ l e+a+ ++  + +  ++ + de     +e++k
  PHY93_13110|PHY93_13110  13 VASFLFLIFLFALIIVFLLNSQYKLGALQDKGSDRV--KDTEKIAQILLEVAQVYAVAADAQINH-NLDEslkelSEIKK 89 
                              233333333333333333333333333333333333..556666666666666666666655443.22223333322333 PP

  == domain 2  score: 11.9 bits;  conditional E-value: 8.5e-05
                  DUF3810  55 rllkvllrvllvllvvyflftllwglnYyreplserlglkkeeyseeelaelaeklveklnelreqverde...eevrkeakkayk 137
                               +  v+++++ v+l++++ f    +ln  +++l +++  ++  ++++++a+ ae+l e++n+ ++ +++++   ee+++ +kk  +
  PHY93_13110|PHY93_13110 191 IAGAVFVTIISVFLAIFISFKTSTALNNVKSELVKTF--DQIVENSSRVAKAAEQLSESTNQQASAIQETSasmEEMNSMIKKTAE 274
                              445589999**************************99..5666678899******************9999998888888888888 PP

                  DUF3810 138 klgeeyplls 147
                                +e+  l +
  PHY93_13110|PHY93_13110 275 SASESTRLSR 284
                              8777765544 PP

>> Chlorosome_CsmC  Chlorosome envelope protein C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   0.9     0.011        14      57     137 ..     206     260 ..     181     287 .. 0.60
   2 ?    8.6   1.3    0.0015       1.8      69     127 ..     368     426 ..     341     438 .. 0.73
   3 ?   -1.1   0.1       1.5   1.7e+03      63     107 ..     437     480 ..     429     485 .. 0.74

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.011
          Chlorosome_CsmC  57 lidatGiskllgstsgvvgetidrvaitvkdvsraaGelysdavknvenvtdnaakavGdvgvsasevvknvagsfqktaa 137
                              +  +                            s a  ++ s+ vk+ +++ +n ++ v  ++ + se  ++ a+++q+t+a
  PHY93_13110|PHY93_13110 206 IFISFKT-------------------------STALNNVKSELVKTFDQIVENSSR-VAKAAEQLSESTNQQASAIQETSA 260
                              3333333.........................444455566666666666666544.455666666666666666666543 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0015
          Chlorosome_CsmC  69 stsgvvgetidrvaitvkdvsraaGelysdavknvenvtdnaakavGdvgvsasevvkn 127
                              +  +vv+e +  +a     ++     l +d+ ++v+ v d+  k+vGd+ ++  +vv++
  PHY93_13110|PHY93_13110 368 KGFAVVAEEVGNLAQMSGKAAMEISALLEDSTHKVKSVIDETQKGVGDILTKGNQVVRQ 426
                              55567777777777777777777777888888888888888888888888888888775 PP

  == domain 3  score: -1.1 bits;  conditional E-value: 1.5
          Chlorosome_CsmC  63 iskllgstsgvvgetidrvaitvkdvsraaGelysdavknvenvt 107
                              i k+++    +v   i  ++i+  + s+ a ++  +a ++++++t
  PHY93_13110|PHY93_13110 437 ILKIIDGDVKIVDSNISEISIASDEQSKGADQV-AQALHQLDQAT 480
                              556677777889999999999999999999876.45677777777 PP

>> Folliculin  Vesicle coat protein involved in Golgi to plasma membrane transport
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2   7.7    0.0035       4.1      77     165 ..     220     308 ..     207     320 .. 0.70

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.0035
               Folliculin  77 kerlllkawsfiveafeklaaeiqalaeaelereskeeeassaassssalkadgsglsrregssfslskekylrrsksklk.arsL 161
                              k + l+k+++ ive+ +++a+  ++l+e++++++s+ +e+s+++++++++ +++ + ++++++ ++ s e+ ++ ++++ +  rs 
  PHY93_13110|PHY93_13110 220 K-SELVKTFDQIVENSSRVAKAAEQLSESTNQQASAIQETSASMEEMNSMIKKTAESASESTRLSRSSAENAFKGRETSEHlMRSV 304
                              4.889**********************99999999988888888888874444443333334444444444444433333238888 PP

               Folliculin 162 aelv 165
                               e+ 
  PHY93_13110|PHY93_13110 305 NEID 308
                              8875 PP

>> DUF4199  Protein of unknown function (DUF4199)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.2      0.34     4e+02      34      84 ..      15      28 ..       2      45 .. 0.47
   2 ?    4.4   0.3     0.037        44     139     166 ..     162     208 ..     110     209 .. 0.50
   3 ?   10.8   5.0   0.00041      0.49      60     141 ..     179     258 ..     159     293 .. 0.77

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.34
                  DUF4199 34 gllallllllvpflvylalkkyrkknlgGfisfgqafgfgflislvaglls 84
                             ++l+                                     li+l+a +++
  PHY93_13110|PHY93_13110 15 SFLF-------------------------------------LIFLFALIIV 28
                             2222.....................................1222222211 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.037
                  DUF4199 139 s..................piiv.alqsflgnliiGlilsliiAlil 166
                              +                  +++   ++  +   ++ +i+s+++A+++
  PHY93_13110|PHY93_13110 162 KfiyasiikeshesdkvfdETFKrGISLSIAGAVFVTIISVFLAIFI 208
                              23333333344444444442233355666666666677777777664 PP

  == domain 3  score: 10.8 bits;  conditional E-value: 0.00041
                  DUF4199  60 lgGfisfgqafgfgflislvagllsavfqyiyfnfidpdfienyiaeilekleeakeesae.eenaemseeeikealeslspi 141
                              +++  +f++++++ ++ +++ +++s+ +  i+++f   ++++n++ e+ +++ +  e+s+  +++ae+  e +++++++++++
  PHY93_13110|PHY93_13110 179 FDE--TFKRGISLSIAGAVFVTIISVFL-AIFISFKTSTALNNVKSELVKTFDQIVENSSRvAKAAEQLSESTNQQASAIQET 258
                              444..88888888888888888888777.666669999*********************999999999999998877755422 PP

>> DUF5616  Domain of unknown function (DUF5616)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.8   0.1    0.0068       8.2      80     119 ..      48      87 ..      26      95 .. 0.92
   2 ?    4.6   0.5     0.032        39      71     112 ..     222     261 ..     207     276 .. 0.72
   3 ?   -2.0   0.1       3.5   4.2e+03      44      98 ..     425     481 ..     413     488 .. 0.63

  Alignments for each domain:
  == domain 1  score: 6.8 bits;  conditional E-value: 0.0068
                  DUF5616  80 vSnSgelaklireileeaglegevelvknvDkeLkeseei 119
                              v  + ++a+++ e+++ + +  ++++ +n D+ Lke++ei
  PHY93_13110|PHY93_13110  48 VKDTEKIAQILLEVAQVYAVAADAQINHNLDESLKELSEI 87 
                              6677899****************************99884 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.032
                  DUF5616  71 kvifllDkpvSnSgelaklireileeaglegevelvknvDke 112
                              +++  +D+ v nS ++ak+ ++++e+++ + ++   +++ + 
  PHY93_13110|PHY93_13110 222 ELVKTFDQIVENSSRVAKAAEQLSESTNQQASAI--QETSAS 261
                              445579****************999866655554..444444 PP

  == domain 3  score: -2.0 bits;  conditional E-value: 3.5
                  DUF5616  44 rgkyklveeteealelile..llkelkvkkvifllDkpvSnSgelaklireileeag 98 
                              r+  + ++et ++l++i     + + +++++ +  D++     ++a+++ ++ ++++
  PHY93_13110|PHY93_13110 425 RQGLSVADETAKILKIIDGdvKIVDSNISEISIASDEQSKGADQVAQALHQLDQATH 481
                              555566677777777775411234566777777777777777777777666665555 PP

>> DUF3671  Protein of unknown function
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.9   2.8     0.022        27      31      71 ..       3      52 ..       1     102 [. 0.52
   2 ?    5.3   0.6     0.017        20      25      88 ..     168     231 ..     156     271 .. 0.76

  Alignments for each domain:
  == domain 1  score: 4.9 bits;  conditional E-value: 0.022
                  DUF3671 31 ndkkkfkkkvlkkyglllilpvllpliglivpilfeaksk..............k 71
                              ++ +fkkk++  +  l++l++l+     iv++l ++++               +
  PHY93_13110|PHY93_13110  3 LESMSFKKKIVASFLFLIFLFALI-----IVFLLNSQYKLgalqdkgsdrvkdtE 52
                             455556665555544444444443.....34444443333444333333333330 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.017
                  DUF3671  25 lakkknndkkkfkkkvlkkyglllilpvllpliglivpilfeakskkslkkkelevlatsiekl 88 
                              + k+   ++k f +++ +   l++   v + +i++ ++i+ + k +  l++ + e ++t ++++
  PHY93_13110|PHY93_13110 168 IIKESHESDKVFDETFKRGISLSIAGAVFVTIISVFLAIFISFKTSTALNNVKSELVKTFDQIV 231
                              5666778899999988888999999999999999999999998888555555555555544444 PP

>> SID-1_RNA_chan  dsRNA-gated channel SID-1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.6   0.3     0.015        18     120     215 ..      12     103 ..       2     124 .. 0.56
   2 ?    4.2   4.4    0.0097        12     106     196 ..     179     274 ..     157     325 .. 0.46

  Alignments for each domain:
  == domain 1  score: 3.6 bits;  conditional E-value: 0.015
           SID-1_RNA_chan 120 vvavllvllvllsfllltllvvivekvresseekrvkessssesaseslesvssavrsesessveeesdydtleeiesdknvirtk 205
                              +va +l l++l+++++++ll    +++  + ++k  ++ +++e+ ++ l +v++ +    + +++++ d +  e  e +k   +++
  PHY93_13110|PHY93_13110  12 IVASFLFLIFLFALIIVFLLN--SQYKLGALQDKGSDRVKDTEKIAQILLEVAQVYAVAADAQINHNLDESLKELSEIKK--KMHE 93 
                              333333333333333333333..333344556666677888999999999999999999999997777766555544333..3344 PP

           SID-1_RNA_chan 206 kvlvvsdlsr 215
                              ++ +v++++ 
  PHY93_13110|PHY93_13110  94 SIFIVAKIAD 103
                              4555566663 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.0097
           SID-1_RNA_chan 106 vtvevkklikksvyvvavllvllv.llsfllltllvvivekvre...........................sseekrvkesssses 163
                              ++ ++k+ i+ s  + av++++++ +l++++ + + + +++v++                           +      +++s+ ++
  PHY93_13110|PHY93_13110 179 FDETFKRGISLS-IAGAVFVTIISvFLAIFISFKTSTALNNVKSelvktfdqivenssrvakaaeqlsestN------QQASAIQE 257
                              455555555555.34444444433033333333444444444446665555544444444433332221110......11111112 PP

           SID-1_RNA_chan 164 aseslesvssavrsesessveeesdydtleeie 196
                              +s+s e+++s+++                + +e
  PHY93_13110|PHY93_13110 258 TSASMEEMNSMIK----------------KTAE 274
                              2222222222111................1111 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (516 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      3155  (0.175972); expected 358.6 (0.02)
Passed bias filter:                      947  (0.0528195); expected 358.6 (0.02)
Passed Vit filter:                       130  (0.00725082); expected 17.9 (0.001)
Passed Fwd filter:                        41  (0.0022868); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 1.07u 0.32s 00:00:01.39 Elapsed: 00:00:00.55
# Mc/sec: 2841.42
//
Query:       PHY93_13115|PHY93_13115  [L=388]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.8e-24   84.9   1.2    2.1e-23   83.3   1.2    1.8  1  Bac_DnaA      Bacterial dnaA  protein
    5.7e-20   71.1   0.2    1.6e-19   69.7   0.2    1.8  1  Bac_DnaA_C    Bacterial dnaA protein helix-turn-helix
     0.0025   17.8   0.3      0.013   15.5   0.1    2.3  2  AAA_14        AAA domain
      0.006   16.3   0.0      0.012   15.3   0.0    1.5  1  RuvB_N        Holliday junction DNA helicase RuvB P-loop doma
  ------ inclusion threshold ------
      0.013   16.0   0.3      0.052   14.0   0.1    2.2  2  AAA           ATPase family associated with various cellular 
      0.024   14.9   0.1      0.078   13.3   0.1    1.8  1  AAA_22        AAA domain
       0.12   12.8   0.0       0.38   11.2   0.0    1.8  1  RNA_helicase  RNA helicase


Domain annotation for each model (and alignments):
>> Bac_DnaA  Bacterial dnaA  protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   83.3   1.2   8.2e-27   2.1e-23       2     217 ..      67     270 ..      66     272 .. 0.92

  Alignments for each domain:
  == domain 1  score: 83.3 bits;  conditional E-value: 8.2e-27
                              -SS-SGGG----TTTHHHHHHHHHHHHSTTT.S--EEEE-SSSSSHHHHHHHHHHHHHHHSSSS-EEEEEHHHHHHHHHHHHHTT- CS
                 Bac_DnaA   2 nkrytFetFviGasnrlAlaaalkvaeapgkkynPlfiygevGlGktHLlkaignevlenapelrvvYltaeeFlnelvkalrdkk 87 
                              +k  tF +F  G+sn++A +a+++   + ++ ++ +++ +++GlGk H+l+a++ne++ +   ++  Yl++   ++ l++ l+   
  PHY93_13115|PHY93_13115  67 DKSKTFLNFCLGNSNQFAVEAVKRFIFNEKSDFDMIYLKASSGLGKSHILHAVANEMILR---KKSFYLSSPFTMSLLIDNLNA-- 147
                              57789**************************************************99865...5668**998777777776643.. PP

                              HHHHHHHHTT-SEEEEE-GGGGTT-HHHHHHHHHHHHHHHTTT-EEEEEESS-TTT-SS--HHHHHHHHSSEEEE-----HHHHHH CS
                 Bac_DnaA  88 aeefkeklrkvDvLliDDiqflagkektqeelfhtfnalleegkqvvlssDrsPkeleeledrlrsrfeaGlvvdieppdletrla 173
                                     l+  +++liDDi+ ++g  ++ + ++++++     + +++++  + Pk+l+  +dr++ +++a l+ +i + +  ++ +
  PHY93_13115|PHY93_13115 148 -------LKFYEIILIDDIEEIEGNVEILKVFCQLIDYAQSGKIKLIITGSKLPKDLNGCDDRFKGKLSAALIHNIFEMNSVLAYD 226
                              .......334679***********************99999999****************************************** PP

                              HHHHHHHHTT----TTHHHHHHHH--S-HHHHHHHHHHHHHHHH CS
                 Bac_DnaA 174 ilkkkieaeklevpeevlefiaervtdnvRelegalnrlkayas 217
                              i++ k +  +l +pe+v e+++++++ nv  le+ l + k  ++
  PHY93_13115|PHY93_13115 227 IVNLKCQGLNLILPENVKELVSNQLDFNVYGLESLLYKFKSTSD 270
                              *********************************99999887665 PP

>> Bac_DnaA_C  Bacterial dnaA protein helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.7   0.2   6.3e-23   1.6e-19       6      69 .]     302     364 ..     300     364 .. 0.96

  Alignments for each domain:
  == domain 1  score: 69.7 bits;  conditional E-value: 6.3e-23
                              HTHHHHTT--HHHHHS----CSSHHHHHHHHHHHHHTS---HHHHHHHHT-STTHHHHHHHHHH CS
               Bac_DnaA_C   6 eaVaeyfgvsvedlkskkRkkeiveaRqiamylareltdlslpeIGkefggrdHsTVihaikki 69 
                              ++Va++f+vs edl+s+ R+ke++ aR++amy+++e t+l+l +I k f  +dHs+Vi+a+ +i
  PHY93_13115|PHY93_13115 302 KVVASHFQVSFEDLISTGRRKELALARHVAMYILKEKTGLNLMRISKLF-DKDHSSVIYAVIRI 364
                              89***********************************************.9*********9665 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.1   5.2e-06     0.013      14     118 ..     111     209 ..     100     221 .. 0.70
   2 ?   -1.7   0.0         1   2.7e+03      82     122 ..     242     280 ..     239     283 .. 0.68

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 5.2e-06
                   AAA_14  14 GKTtllkqlikellvkkesilyinldderdkkladpekllelilek.lkeekktylflDEiqevpewekalkslvd.....egknl 93 
                              GK+ +l+ +++e +  +++ +y++        ++        + ++ ++    +++++D i e+++  ++lk +++     ++ ++
  PHY93_13115|PHY93_13115 111 GKSHILHAVANEMI-LRKKSFYLSSPFTMSLLID-------NLNALkFY----EIILIDDIEEIEGNVEILKVFCQlidyaQSGKI 184
                              77777777776666.4444444443322221112.......22222122....47*****************99988877644689 PP

                   AAA_14  94 dvivtGSnskllskeiatslagrva 118
                              ++i+tGS++   ++   +++ g+ +
  PHY93_13115|PHY93_13115 185 KLIITGSKLPKDLNGCDDRFKGKLS 209
                              ********99999999999888765 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 1
                   AAA_14  82 alkslvdegknldvivtGSnskllskeiatslagrvaeiel 122
                               +k+lv ++ +++v+   S+++    + +++  g++ ++e+
  PHY93_13115|PHY93_13115 242 NVKELVSNQLDFNVYGLESLLYKF--KSTSDIKGQEITLEM 280
                              578888888555555555555554..557888888888877 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   4.8e-06     0.012      30     103 ..      96     169 ..      79     189 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 4.8e-06
                   RuvB_N  30 eealdhvllyGpPGlGkttlakiiakelgvklki..tsgPvlekagdlaalltnleekdvlfideihrlsraveev 103
                              ++  d + l  + GlGk+ + + +a+e+  + k+   s+P     + l+  l+ l+  ++++id+i  ++ +ve +
  PHY93_13115|PHY93_13115  96 KSDFDMIYLKASSGLGKSHILHAVANEMILRKKSfyLSSPF--TMSLLIDNLNALKFYEIILIDDIEEIEGNVEIL 169
                              56689999********************8877752246665..45668889999999************9999854 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0       4.1   1.1e+04      10      25 ..      45      60 ..      44      80 .. 0.68
   2 ?   14.0   0.1     2e-05     0.052       2     111 ..     103     192 ..     102     209 .. 0.74

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 4.1
                             SHHHHHHHHHHHHTHE CS
                      AAA 10 GKTllakavakelgve 25
                             G+T++ak  + +++++
  PHY93_13115|PHY93_13115 45 GRTSIAKNNIAKTSAY 60
                             8999998755555433 PP

  == domain 2  score: 14.0 bits;  conditional E-value: 2e-05
                              EEESSTTSSHHHHHHHHHHHHTHEEEEEETTTCSSSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGHHHHHTTCCCHHHHHHHH CS
                      AAA   2 llyGppGtGKTllakavakelgvefleisgsellskyvgesekkirelfkeakekakpsilfiDEidalaksrsgseseeeervvn 87 
                              +l    G GK+ + +ava+e+  +  ++ +s+ +      +++ + + ++++k      i++iD+i+++ ++          ++++
  PHY93_13115|PHY93_13115 103 YLKASSGLGKSHILHAVANEMILRKKSFYLSSPF------TMSLLIDNLNALKFY---EIILIDDIEEIEGNV---------EILK 170
                              666788**************86555555555555......556666666665554...6**********8888.........8999 PP

                              HHHHHHHHTTTSSSTEEEEEEESS CS
                      AAA  88 qLlteldgvkkkeskvivigatnr 111
                              ++ + +d  ++  +k+ +i+++ +
  PHY93_13115|PHY93_13115 171 VFCQLIDYAQS--GKIKLIITGSK 192
                              99999999988..56777777665 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.1     3e-05     0.078      38     130 ..      97     191 ..      66     193 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 3e-05
                   AAA_22  38 erpevvfvtlpsstsskdllrellralglelkaerlsseellealeqalraravielliiDEaqhlrseealeeLrsllnl....s 119
                               + + ++ +++s+ + + +l+++++++ l++k+  lss   +++l ++l+a +  e+++iD+++ +  e ++e L+ +  l    +
  PHY93_13115|PHY93_13115  97 SDFDMIYLKASSGLGKSHILHAVANEMILRKKSFYLSSPFTMSLLIDNLNALKFYEIILIDDIEEI--EGNVEILKVFCQLidyaQ 180
                              56777788888888**************99999666666666************************..444444444444334366 PP

                   AAA_22 120 rkgvqliLvGt 130
                              + +++li+ G 
  PHY93_13115|PHY93_13115 181 SGKIKLIITGS 191
                              99999999885 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   0.00015      0.38       1      79 [.     102     178 ..     102     185 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00015
             RNA_helicase   1 iwlyGpsgeGKStlakeLakallkklklkkkdsvysrnpeddfwdgYtgqevvvidDfgqvkdeenpsdlaelirlvss 79 
                              i+l  +sg GKS++ + +a+++  + k+   +s ++ +   d ++  +  e+++idD+ +++ +   ++l+ +++l++ 
  PHY93_13115|PHY93_13115 102 IYLKASSGLGKSHILHAVANEMILRKKSFYLSSPFTMSLLIDNLNALKFYEIILIDDIEEIEGN--VEILKVFCQLIDY 178
                              6888899**********999998555455555556666667778888899**********9855..7899999999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (388 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       609  (0.0339673); expected 358.6 (0.02)
Passed bias filter:                      361  (0.020135); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.64u 0.25s 00:00:00.89 Elapsed: 00:00:00.49
# Mc/sec: 2359.56
//
Query:       PHY93_13120|PHY93_13120  [L=281]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.2e-20   72.2   0.0    6.7e-20   71.8   0.0    1.2  1  Abhydrolase_1  alpha/beta hydrolase fold
    7.1e-12   45.1   0.0    4.6e-11   42.4   0.0    2.2  2  Hydrolase_4    Serine aminopeptidase, S33
    1.6e-07   32.2   0.0    2.7e-07   31.4   0.0    1.4  1  Abhydrolase_6  Alpha/beta hydrolase family
    2.6e-06   27.4   0.1       0.28   10.9   0.0    3.1  3  Abhydrolase_2  Phospholipase/Carboxylesterase
     0.0035   16.8   0.0       0.04   13.4   0.0    2.1  2  Peptidase_S9   Prolyl oligopeptidase family
     0.0046   16.4   0.2       0.95    8.8   0.0    2.7  2  Peptidase_S10  Serine carboxypeptidase
     0.0079   16.0   0.0        2.9    7.6   0.0    2.4  2  Abhydrolase_5  Alpha/beta hydrolase family
  ------ inclusion threshold ------
      0.034   13.5   0.0        4.6    6.5   0.0    2.6  2  DUF915         Alpha/beta hydrolase of unknown function (DUF9
      0.036   13.7   0.0      0.051   13.2   0.0    1.2  1  Peptidase_S15  X-Pro dipeptidyl-peptidase (S15 family)
      0.062   13.4   0.0       0.11   12.6   0.0    1.4  1  Abhydrolase_4  TAP-like protein
        0.1   12.4   0.0       0.16   11.8   0.0    1.6  1  Abhydrolase_3  alpha/beta hydrolase fold


Domain annotation for each model (and alignments):
>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   71.8   0.0   4.1e-23   6.7e-20       2     253 ..      26     267 ..      25     271 .. 0.80

  Alignments for each domain:
  == domain 1  score: 71.8 bits;  conditional E-value: 4.1e-23
                              EEEEE-STTTCGGGGTTGHHHHHHHHTTSEEEEEEETTSTTSSSTTTGB.CHHSHHHHHHHHHHHHHHCTTSSEEEEEETHHHHHH CS
            Abhydrolase_1   2 vlvilhGlpgssdvwaerglapaLakdgfdvillDlrGvgySspapacinddygtasvaddldrildalgddkltlvGhSmGGmia 87 
                              ++++lhG+pg+ ++ +     + Lak + d++++D+ G g Ss       + + + ++ + l  +    ++d+++l+G S+G+++a
  PHY93_13120|PHY93_13120  26 PIIFLHGGPGGTHLSFL--PLKSLAK-DRDIYMYDQIGGGASSITAP---KLWMIETFVEELSVLIKTWKLDRFVLMGASWGTTLA 105
                              89********9999555..6889999.***************99998...445555666666677********************* PP

                              HHHHHHH.GGGEEEEEEESECSSCCHHHHHHHHHHHHHHCHHCHHHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHH.......HC CS
            Abhydrolase_1  88 layaaey.perVkalvllgaidpaaslieaqrqqaksfpdffdgyaadcarnpagplladelaaleqrhrlvdalkf.......pd 165
                              l+y++   ++r+ ++++ +++ +  +++ ++ + +k +pd  +++++ c +  a ++   ++a  +++++ v ++k+       p 
  PHY93_13120|PHY93_13120 106 LEYFLATkDSRIERIIFQSPLFSTKDWENDANHLIKELPDKTQKIINYCHEIEATDSKVYQAAVFDYYLKHVLRNKKlltkprkP- 190
                              ***99999************************************************99999999999999887775544433222. PP

                              HHHCCHHHHHHHCHHHHHHHHHHHHHHHHCCHHHHHHHHHCTHHHHSEEEEEEETTCSSSCHHHHHHHHHCHTSEEEEEEETCSSS CS
            Abhydrolase_1 166 kskrfpssgsdnasslatgalksieqwpttdsaklllrlrelknvlaptlvisgtsDplvppkaledlaqllpkkrlvvisdagHl 251
                                        +++ ++ + +    +++++t + k++ r   lk+ ++p+l+i+g++D ++p     ++ + +++++  +i +a H 
  PHY93_13120|PHY93_13120 191 ----------NINGNKIYAHMWGPSEFKATGTLKKYERVSHLKKLNIPVLLICGEHDEATP-VTVKKYHKIIKNSEFQIIKNASHS 265
                              ..........2222233333333444555555555544444555555*************9.5566677799999*********98 PP

                              HH CS
            Abhydrolase_1 252 af 253
                              + 
  PHY93_13120|PHY93_13120 266 IS 267
                              76 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0       1.3   2.1e+03     186     200 ..      19      33 ..      15      34 .. 0.79
   2 !   42.4   0.0   2.8e-14   4.6e-11      30     238 ..      49     270 ..      21     271 .. 0.68

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 1.3
              Hydrolase_4 186 raakitlPllllhGe 200
                              ++++ ++P+++lhG+
  PHY93_13120|PHY93_13120  19 KTKNKKTPIIFLHGG 33 
                              5667789****9996 PP

  == domain 2  score: 42.4 bits;  conditional E-value: 2.8e-14
              Hydrolase_4  30 qGfavyalDhrGhGrsegkrghvpsfddyvdDlaafvekvkeehpelplfllGhSmGGliallyl.lrypdkvaglilsaPalkik 114
                              ++ ++y++D+ G G s     ++  ++++v+ l+ ++++    ++  +++l+G S+G ++al+y+ +++ ++++++i+ +P+++ k
  PHY93_13120|PHY93_13120  49 KDRDIYMYDQIGGGASSITAPKLWMIETFVEELSVLIKT----WKLDRFVLMGASWGTTLALEYFlATKDSRIERIIFQSPLFSTK 130
                              5789************988888889********999855....557789****************555555899*********998 PP

              Hydrolase_4 115 aklk.appllklllkllgkllpklqv..................snnlkadslsrdpevvaayeadplvhgkitvrll.......l 174
                                 + a+ l k l   ++k++   +                   +       + r+++ + + ++  + ++ki ++++       +
  PHY93_13120|PHY93_13120 131 DWENdANHLIKELPDKTQKIINYCHEieatdskvyqaavfdyylK------HVLRNKKLLTKPRKPNINGNKIYAHMWgpsefkaT 210
                              544344444444444444444333335556666666564444444......55555555555555444455555554411110004 PP

              Hydrolase_4 175 elldamkrleeraakitlPllllhGeaDkvvdpeasrelyerlgskdktlklypglyHellnEp 238
                              + l+  +r+ ++ +k+++P+ll++Ge+D+ ++    +++++ ++  + ++++++++ H++ +E+
  PHY93_13120|PHY93_13120 211 GTLKKYERV-SHLKKLNIPVLLICGEHDEATPVT-VKKYHKIIK--NSEFQIIKNASHSISREN 270
                              444444443.3556677*************9944.456777777..899**********99885 PP

>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.4   0.0   1.7e-10   2.7e-07       1     217 [.      27     274 ..      27     277 .. 0.61

  Alignments for each domain:
  == domain 1  score: 31.4 bits;  conditional E-value: 1.7e-10
                              EEEE--GC......GCHHHHHHHHCCT.CEEEEE--TTST.S-GGCS--HHHCHHHHHHHCCTT....TTSEEEEEETCHHHHHHH CS
            Abhydrolase_6   1 vlllHGagss.assWlvapLaallaag.vhvlapDlpGhG.rsdpppldledladlaalldelaa..gggpvvlvGHSlGGalala 81 
                              +++lHG++++ + s+l  pL  l+ ++ +  +++D  G G +s ++p  +   +++++ l  l++    +++vl+G S+G++lal+
  PHY93_13120|PHY93_13120  27 IIFLHGGPGGtHLSFL--PLKSLAKDRdI--YMYDQIGGGaSSITAPKLWMI-ETFVEELSVLIKtwKLDRFVLMGASWGTTLALE 107
                              79****8866678888..99888888878..******999555666655533.4443333333334667999************** PP

                              HHHCC.....EE.EEES-..----TTT.S----TTHHHHHH.....................TT-CCCCHCCHS-HSCCCCHHH.C CS
            Abhydrolase_6  82 aapla...lvvg.vlldppptalpagl.laaalelllalla.....................llrllawlsreplprlfladed.a 140
                              ++ ++   ++++ ++ +p    + + +  ++a  l++ l++                     +++++++l+  ++++ +l ++  +
  PHY93_13120|PHY93_13120 108 YFLATkdsRIERiIFQSP---LFSTKDwENDANHLIKELPDktqkiinycheieatdskvyqAAVFDYYLKHVLRNKKLLTKPRkP 190
                              444446666666888888...33333323333333333333333444444443332222222333344443223444555544431 PP

                              ....CCCHCHCCCGHHHHCCHHC..HTTCCHHTT-TTGCEEEC.TT-CHHHHCHHCCCH.STTEEETCE...SSS-HHHHSHHHH CS
            Abhydrolase_6 141 ....daawrarlarlaallaglg..llpaaawadlpvpllvlg.geDplvprllerlla.qagarlpvvlpgaGHlphleepdev 217
                                    +++ ++ +    ++g    + ++++++ l  p+l+++ + D++ p ++++++  +   ++ +++++a+H++  e+p+e+
  PHY93_13120|PHY93_13120 191 ningNKIYAHMWGPSEFKATGTLkkYERVSHLKKLNIPVLLICgEHDEATPVTVKKYHKiIKNSEF-QIIKNASHSISRENPKEL 274
                              233334444444333333332223355788999999999888658888888889999999999999.*********999999876 PP

>> Abhydrolase_2  Phospholipase/Carboxylesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.1     0.034        55       8      31 ..      18      41 ..      10      56 .. 0.63
   2 !   10.9   0.0   0.00017      0.28     102     158 ..      88     144 ..      52     180 .. 0.81
   3 !    9.6   0.1   0.00043      0.71     148     211 ..     220     276 ..     209     280 .. 0.78

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.034
                             --SS---EEEEEE--TT--S.HHHH CS
            Abhydrolase_2  8 spkdkaqavviflHGlGdsg.hawa 31
                             s+ ++++  +iflHG    g h+ +
  PHY93_13120|PHY93_13120 18 SKTKNKKTPIIFLHGG-PGGtHLSF 41
                             4556666779999983.32324444 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.00017
                              --GGGEEEEEETHHHHHHHHHHHT-SS.--SEEEEES---TTGGGTTTTS-GGGGG-E CS
            Abhydrolase_2 102 ipssriiigGFSqGaalalylaltlpk.klggivafsgalplsqklessatavtkklp 158
                               + +r +++G S G+ lal+  l+++  ++ + ++f + l + + +e+ a+++ k+lp
  PHY93_13120|PHY93_13120  88 WKLDRFVLMGASWGTTLALEYFLATKDsRIER-IIFQSPLFSTKDWENDANHLIKELP 144
                              567899**************999998835555.56888899999********999888 PP

  == domain 3  score: 9.6 bits;  conditional E-value: 0.00043
                              TTS-GGGGG-EEEEEEETT-SSS-HHHHHHHHHHHHTTS-GEEEEEETT--SS--HHHHHHHHH CS
            Abhydrolase_2 148 ssatavtkklpilqiHgeeDpvvplalgkaakevlkkllkkvelksyeglaHsideeemqdike 211
                              s+  +++  +p+l+i ge D+  p+ +     + + k++k+ e++++++ +Hsi+ e  +++ +
  PHY93_13120|PHY93_13120 220 SHLKKLN--IPVLLICGEHDEATPVTV-----KKYHKIIKNSEFQIIKNASHSISRENPKELLK 276
                              4566666..***************965.....4466778889************9887665555 PP

>> Peptidase_S9  Prolyl oligopeptidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.0      0.12     2e+02      62     107 ..      89     135 ..      76     178 .. 0.72
   2 !   13.4   0.0   2.5e-05      0.04     130     192 ..     212     270 ..     189     281 .] 0.70

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.12
                              -GGGEEEEEETHHHHHHHHHHH.H-GGG-SEEEEESE---CCCHHCS CS
             Peptidase_S9  62 dserlaitGgSyGGyltgaaln.qrpdlFkaavaevpvvdvlrydsd 107
                              + +r +++G+S G +l++      ++++ + ++ + p +    +  d
  PHY93_13120|PHY93_13120  89 KLDRFVLMGASWGTTLALEYFLaTKDSRIERIIFQSPLFSTKDWEND 135
                              568999*******9998765443666666777777777666666666 PP

  == domain 2  score: 13.4 bits;  conditional E-value: 2.5e-05
                              HHHHH-CGGG--.---EEEEEEETT-SSS-THHHHHHHHHHH--S-SEEEEEETTS-SSTTSSH CS
             Peptidase_S9 130 elspyspldnvk.aypplLlihGlaDdrvppaealklvaaLqkkgknvlllifpdegHgvgkpr 192
                              +l++y+ + ++k  + p+Lli+G++D+ +p+  ++k +++  k   n++++i +++ H++++++
  PHY93_13120|PHY93_13120 212 TLKKYERVSHLKkLNIPVLLICGEHDEATPV--TVKKYHKIIK---NSEFQIIKNASHSISREN 270
                              344444444444699*************976..4455555554...799999999999888554 PP

>> Peptidase_S10  Serine carboxypeptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.8   0.0   0.00058      0.95      24      52 ..       9      36 ..       1      41 [. 0.83
   2 ?    3.6   0.0     0.022        36     383     416 ..     244     281 .]     234     281 .] 0.79

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.00058
                             EEEEEEEEE-SSGTTTS-EEEEE--TTTB CS
            Peptidase_S10 24 kslFYwfveseknpeedplvlWLnGGPGC 52
                              ++F++  +s+ +++++p+++ L GGPG 
  PHY93_13120|PHY93_13120  9 GKTFFVKHKSKTKNKKTPIIF-LHGGPGG 36
                             589***********9999875.******7 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.022
                              EEEE....TTEEEEEETT--SSHHHHSHHHHHHHHHHH CS
            Peptidase_S10 383 vkey....enltfltvkgaGHmvPedkpeealqllerf 416
                              vk+y    +n +f  +k+a+H     +p+e l+ ++ f
  PHY93_13120|PHY93_13120 244 VKKYhkiiKNSEFQIIKNASHSISRENPKELLKAIKGF 281
                              555544456789999****************9998865 PP

>> Abhydrolase_5  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.8   0.0    0.0066        11      50      90 ..      84     126 ..      75     162 .. 0.77
   2 !    7.6   0.0    0.0018       2.9      88     141 ..     214     265 ..     201     267 .. 0.83

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.0066
            Abhydrolase_5  50 ikeapklekfvvgGhslGGvvasrf..aaeeekiegvvflasY 90 
                              + ++ kl++fv+ G s G  +a ++  a+++++ie ++f +  
  PHY93_13120|PHY93_13120  84 LIKTWKLDRFVLMGASWGTTLALEYflATKDSRIERIIFQSPL 126
                              4457789*************999874456788******97654 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0018
            Abhydrolase_5  88 asYPekdelselskkvlsivgteDgvlnvkslekakkflpkdtkvvsieGgnha 141
                                Y    +l++l+++vl i g++D+  +v+   k+ +++ k++++  i+   h+
  PHY93_13120|PHY93_13120 214 KKYERVSHLKKLNIPVLLICGEHDEATPVT--VKKYHKIIKNSEFQIIKNASHS 265
                              567777889****************98875..4566678899999999999886 PP

>> DUF915  Alpha/beta hydrolase of unknown function (DUF915)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.5   0.0    0.0028       4.6       3      25 ..      16      38 ..      14      52 .. 0.78
   2 ?    4.3   0.0     0.013        21      93     128 ..      81     116 ..      74     166 .. 0.83

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.0028
                   DUF915  3 klksekkkeiPtifihGyggtae 25
                             ++++ k+k++P+if+hG  g ++
  PHY93_13120|PHY93_13120 16 HKSKTKNKKTPIIFLHGGPGGTH 38
                             788999**********9765444 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.013
                   DUF915  93 lseLkkkYnikkfnavGhSmGglaltsYleeyaddk 128
                              ls L k++++++f ++G S G + ++ Y  +++d++
  PHY93_13120|PHY93_13120  81 LSVLIKTWKLDRFVLMGASWGTTLALEYFLATKDSR 116
                              67899***********************99988775 PP

>> Peptidase_S15  X-Pro dipeptidyl-peptidase (S15 family)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   3.1e-05     0.051      96     267 ..      86     264 ..      64     266 .. 0.70

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 3.1e-05
                              CTTEEEEEEEEEECHHHHHHH.HHCTT--TTEEEEEEECE-S-TCCCCSECTTEEBCCHHHHHHHHHCCCCHHTSSS-STTHHHHH CS
            Peptidase_S15  96 qpwsnGkVgmtGiSYlGttql.laaatgvpalkaivpeaaisdlyddyyregGlvrapgglswedldllaealtsrradegdalka 180
                              ++w  ++   +G S++ t++l + +at++ +++ i+ ++++++  d   +e+ + ++ + l+  +++   + +++ +a +++ ++a
  PHY93_13120|PHY93_13120  86 KTWKLDRFVLMGASWGTTLALeYFLATKDSRIERIIFQSPLFSTKD---WENDANHLIKELPD-KTQKIINYCHEIEATDSKVYQA 167
                              5788899999********997467889*******************...56666555555555.4577788888888888888888 PP

                              HHH.........HHCHCCCCCCTTHHHTHHHHCCCC--SSSHHHHTT-HHH..HHCT--S-EEEEEECCSSTTCCHHHHHHHHHCC CS
            Peptidase_S15 181 aar.........yeaasdellaeldrqtpveselletgdydafWkdrnlse..dadkvkapvllvgGwnDwnvkngaiklyealka 255
                              a            +++  ++++   + +++   ++  ++++a  + +++++  +++k+++pvll+ G +D + +  ++k y+++ +
  PHY93_13120|PHY93_13120 168 AVFdyylkhvlrNKKLLTKPRKPNINGNKIYAHMWGPSEFKATGTLKKYERvsHLKKLNIPVLLICGEHD-EATPVTVKKYHKIIK 252
                              8774555443333333333333333335555555555555555555555434367***************.888777787877777 PP

                              TT-EEEEECECT CS
            Peptidase_S15 256 pgvklilgpwtH 267
                              + +  i+ +++H
  PHY93_13120|PHY93_13120 253 NSEFQIIKNASH 264
                              766667777777 PP

>> Abhydrolase_4  TAP-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0     7e-05      0.11      29      77 ..     221     268 ..     199     279 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 7e-05
            Abhydrolase_4  29 stakgaapvLllqnerDpaTPyegakklakalggavlvtvegeGHgala 77 
                                +k ++pvLl+ +e+D aTP    kk +k +++++  + +++ H  ++
  PHY93_13120|PHY93_13120 221 HLKKLNIPVLLICGEHDEATPVT-VKKYHKIIKNSEFQIIKNASHSISR 268
                              3334479**************86.6789999999999888888888775 PP

>> Abhydrolase_3  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0    0.0001      0.16      68     109 ..      88     140 ..      72     265 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.0001
                              ETTCEEEEEEETHHHHHHHHHHHHHHHTT---EEEEEEESE..............- CS
            Abhydrolase_3  68 adpsrivlaGdSaGGnlaaavalrardegepkvagqvliyP..............v 109
                               + +r vl+G S G +la+   l+ +d+   +++ ++  +P               
  PHY93_13120|PHY93_13120  88 WKLDRFVLMGASWGTTLALEYFLATKDS---RIERIIFQSPlfstkdwendanhlI 140
                              57799**********************9...7888888888554444332222211 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (281 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       593  (0.0330749); expected 358.6 (0.02)
Passed bias filter:                      420  (0.0234257); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.60u 0.26s 00:00:00.86 Elapsed: 00:00:00.46
# Mc/sec: 1854.57
//
Query:       PHY93_13125|PHY93_13125  [L=201]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.1e-06   27.4   0.0    4.6e-06   26.8   0.0    1.3  1  Acetyltransf_1   Acetyltransferase (GNAT) family
  ------ inclusion threshold ------
      0.039   14.4   0.0      0.074   13.5   0.0    1.6  1  Acetyltransf_7   Acetyltransferase (GNAT) domain
       0.12   12.6   0.0       0.23   11.6   0.0    1.5  1  Acetyltransf_CG  GCN5-related N-acetyl-transferase


Domain annotation for each model (and alignments):
>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.8   0.0   7.7e-10   4.6e-06      17     104 ..      47     147 ..      25     155 .. 0.80

  Alignments for each domain:
  == domain 1  score: 26.8 bits;  conditional E-value: 7.7e-10
                              HHHHHHHHHHHHHSTTCEEEEEEETTEEEEEEEEEEEET..............TSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHH CS
           Acetyltransf_1  17 edaseeefeesfsleaegllvaeedgeliGfisllkipd..............ekggvayieslaVspeyrgkGlGsaLlealeer 88 
                              e++ +e +++s   e +++l+ +++++ iG  ++ + +d                ++ +y  +     eyrg+GlG+   ++ e++
  PHY93_13125|PHY93_13125  47 EKKYLETYFNS---EYSFILLLQHNEKFIGATTAIWAQDegqefrdpfekyglDPKNICYFGESILLQEYRGQGLGKVFFKEREDF 129
                              33333444444...555666699*********9999999999***9*******66888888888899******************* PP

                              HHHTTE.SEE.EEEEETT CS
           Acetyltransf_1  89 areegi.kki.vlaveed 104
                              ar+ g+ k+i ++av  +
  PHY93_13125|PHY93_13125 130 ARSLGFiKYIaFCAVIRP 147
                              ******999999999776 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   1.2e-05     0.074      27      74 ..     104     169 ..      58     171 .. 0.53

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 1.2e-05
                              TEEEEE-GGGTTSSHHHHHHHHTT.....SEEE...............EEEEEETHH...HHHH.HHHHTTE CS
           Acetyltransf_7  27 itrlaVdpeyrgkGiGraLleaae.....kgii...............leqlelnae...kaik.fYeklGF 74 
                               ++   ++eyrg+G+G+   + +e      g+i               l+      +   + ++ f+++ GF
  PHY93_13125|PHY93_13125 104 FGESILLQEYRGQGLGKVFFKEREdfarsLGFIkyiafcavirpedhpLK------PvnyRPLDdFWKSQGF 169
                              33345789************972233334442233344444333322211......1222222249999998 PP

>> Acetyltransf_CG  GCN5-related N-acetyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   3.8e-05      0.23      20      61 ..      97     139 ..      83     147 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 3.8e-05
          Acetyltransf_CG  20 rkegvldfthTeVpeelrGkGiAkkLvkaalddareegl.kvv 61 
                              +++++  f   +  +e+rG+G++k + k+  d+ar+ g+ k +
  PHY93_13125|PHY93_13125  97 DPKNICYFGESILLQEYRGQGLGKVFFKEREDFARSLGFiKYI 139
                              556666777777789*******************998764555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (201 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       496  (0.0276647); expected 358.6 (0.02)
Passed bias filter:                      367  (0.0204696); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.22s 00:00:00.77 Elapsed: 00:00:00.44
# Mc/sec: 1358.45
//
Query:       PHY93_13130|PHY93_13130  [L=131]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.3e-12   46.9   0.0    3.8e-12   46.7   0.0    1.0  1  SnoaL_2          SnoaL-like domain
      8e-11   41.8   0.0    8.9e-11   41.7   0.0    1.0  1  SnoaL            SnoaL-like polyketide cyclase
    0.00011   22.4   0.0    0.00025   21.3   0.0    1.4  1  SnoaL_3          SnoaL-like domain
     0.0048   17.0   0.0     0.0059   16.7   0.0    1.1  1  SnoaL_4          SnoaL-like domain
     0.0086   16.6   0.1      0.013   16.1   0.1    1.3  1  NTF2             Nuclear transport factor 2 (NTF2) domain
  ------ inclusion threshold ------
      0.012   15.7   0.4       0.18   11.9   0.4    2.1  1  LEH              Limonene-1,2-epoxide hydrolase catalytic dom
      0.018   15.4   0.0      0.022   15.1   0.0    1.2  1  DUF4440          Domain of unknown function (DUF4440)
      0.054   14.3   0.1       0.07   13.9   0.1    1.2  1  DUF4829          Domain of unknown function (DUF4829)
      0.087   13.6   0.0       0.15   12.9   0.0    1.3  1  CDP-OH_P_transf  CDP-alcohol phosphatidyltransferase


Domain annotation for each model (and alignments):
>> SnoaL_2  SnoaL-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.7   0.0   1.9e-15   3.8e-12       2     101 ..       9     118 ..       8     119 .. 0.88

  Alignments for each domain:
  == domain 1  score: 46.7 bits;  conditional E-value: 1.9e-15
                              HHHHHHHHTTCHHHHHHTEEEEEEEEET.TSEEESHHHHHHHHHHHHHHEEEEEEEEEEE..EEETTEEEEEEEEEEE........ CS
                  SnoaL_2   2 raflaalnagdldalaalfapdvvwedp.ggelrGreairaffralfaafpdlrfeihdv..vadgdrvavewtvtgt........ 76 
                              r +++a+n++++d +++l+ +dv++    g ++ G++++  f++++ a f d + +   v    +g r+ +e+ ++g         
  PHY93_13130|PHY93_13130   9 RSYYQAFNDKNIDLMLDLLVEDVTHDTNqGERTIGKKEFVNFMEEMDA-FYDEHLDQITVmtNPEGLRASAEFVCHGVykntcpgl 93 
                              88***********************999466699************76.8888888878734455668888888888899****** PP

                              EETTSSEEEEEEEEEEEEETTEEEE CS
                  SnoaL_2  77 ipatgrgvtvrgvdvfrvrdGkive 101
                                a g+++ +++  +f++rdGki++
  PHY93_13130|PHY93_13130  94 PAARGQKYVLPVGCFFDIRDGKIAR 118
                              ***********************98 PP

>> SnoaL  SnoaL-like polyketide cyclase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.7   0.0   4.5e-14   8.9e-11       3     125 ..       7     131 .]       5     131 .] 0.88

  Alignments for each domain:
  == domain 1  score: 41.7 bits;  conditional E-value: 4.5e-14
                              HHHHHHHHHHTT-HHHHHGTEEEEEEETCCTTTCECHHHHHHHHHHHHHHHCTTCEE.EEEEEEE.ETTEEEEEEEEEEEESSEBT CS
                    SnoaL   3 vlrfyeevwnsgdldaldelvaedvvdhnpeeeparGlegfrafveelfkafPDlkv.evedlva.egdkvaarltftGthtgefl 86 
                              ++r y +++n +++d + +l+ edv + +++ e++ G+++f +f+ee+ +af D ++ +++ +   eg ++ a+ ++ G  + ++ 
  PHY93_13130|PHY93_13130   7 LIRSYYQAFNDKNIDLMLDLLVEDVTHDTNQGERTIGKKEFVNFMEEM-DAFYDEHLdQITVMTNpEGLRASAEFVCHGVYKNTCP 91 
                              678899999*******************8888**************98.7999****5566655435677777777888889**** PP

                              TBE-.TT-EEEEEEEEEEEEETTEEEEEEEEECHHHHHHH CS
                    SnoaL  87 Gipp.tGkkvkfeeitllrvedGkIveewdviDllgllrQ 125
                              G+p+  G+k  +   +++ ++dGkI+    ++++ + l+Q
  PHY93_13130|PHY93_13130  92 GLPAaRGQKYVLPVGCFFDIRDGKIARITNYYNMNDWLKQ 131
                              **9989**************************99888887 PP

>> SnoaL_3  SnoaL-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.0   1.2e-07   0.00025       3      51 ..       6      53 ..       5      58 .. 0.93

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 1.2e-07
                  SnoaL_3  3 alldafyeaaaegdfdalfalwaddivfigtgadelltgreevrrslkq 51
                             +l++++y+a+ ++++d +++l+ +d+++  t ++e+ +g++e++ ++++
  PHY93_13130|PHY93_13130  6 KLIRSYYQAFNDKNIDLMLDLLVEDVTH-DTNQGERTIGKKEFVNFMEE 53
                             7899***********************9.88999*********999875 PP

>> SnoaL_4  SnoaL-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.0   2.9e-06    0.0059      10      93 ..       5      85 ..       2     112 .. 0.74

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 2.9e-06
                             HHHHHHHHHHHHTT-HHHHHTTEEEEEEEEETTS..--EESHHHHHHHHHSHHHHHH-EEEEE---EEEE..ETTEEEEEEEEEEE CS
                  SnoaL_4 10 rdlvarygyylDtkdweeladlFtedavvdytgvgegvlegrdairaalrealdgfaltqHllsnpliel..dgdtAtgrayllat 93
                              +l+  y ++ ++k+ +++ dl +ed+++d++++   +  g+ +++++++e+    a ++ +l++ ++    +g +A++++ + ++
  PHY93_13130|PHY93_13130  5 EKLIRSYYQAFNDKNIDLMLDLLVEDVTHDTNQG--ERTIGKKEFVNFMEEM---DAFYDEHLDQITVMTnpEGLRASAEFVCHGV 85
                             68999***************************86..5566999999999997...3334444455444443466677777777666 PP

>> NTF2  Nuclear transport factor 2 (NTF2) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.1   6.4e-06     0.013       3      69 ..       5      71 ..       3      89 .. 0.79

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 6.4e-06
                             HHHHHHHHHHHHHHGGGGGGGGEEEEEEEEEETTEEEEESHHHHHHHHHHSSCSCE.EEEEEEEEEEE CS
                     NTF2  3 kafvqqYYaaldagdregllalyaadaslltpegsspvkgreaIteffrslpftri.elkittvdaqp 69
                             ++++++YY+a++ ++ +  l+l  +d ++ t +g+  + g+++ ++f+++ ++    +l+  tv ++p
  PHY93_13130|PHY93_13130  5 EKLIRSYYQAFNDKNIDLMLDLLVEDVTHDTNQGE-RTIGKKEFVNFMEEMDAFYDeHLDQITVMTNP 71
                             5789*******************788888888888.99**********99998766566666666665 PP

>> LEH  Limonene-1,2-epoxide hydrolase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.4   9.1e-05      0.18       5     121 ..       6     130 ..       2     131 .] 0.68

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 9.1e-05
                              HHHHHHHHHHHHT-HHHHHHHEEEEE.EEEETTTEEEE-HHHHHHHHHTT...TTT-EEEEEEE......EEEE..ETTEEEEEEE CS
                      LEH   5 rvVeaFlaalqeddydaavrrlatdlevyeneglstihGraeaiallerl..sadilavevkil......riaa..dgsaVltERl 80 
                              + ++ + +a++++++d     l +d +  +n+g  ++ G++e + ++e++  + d    ++ ++      r +a  +   V+    
  PHY93_13130|PHY93_13130   6 KLIRSYYQAFNDKNIDLMLDLLVEDVTHDTNQGE-RTIGKKEFVNFMEEMdaFYDEHLDQITVMtnpeglRASAefVCHGVYKNTC 90 
                              5678899999999999999999999999999995.566999999999999553333333333331111112222112334555555 PP

                              EEEEE..TTEEEEEEEEEEEEEETTEEEEEEEE--HHHHHH CS
                      LEH  81 DrliladGplivqltvmGvfeVedgrivlWRdYfDvndllk 121
                                l  a G +   l+v   f++ dg+i+   +Y+ +nd lk
  PHY93_13130|PHY93_13130  91 PGLPAARG-QKYVLPVGCFFDIRDGKIARITNYYNMNDWLK 130
                              56666777.55668999999****************99987 PP

>> DUF4440  Domain of unknown function (DUF4440)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.1   0.0   1.1e-05     0.022       3      51 ..       6      55 ..       4      86 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.1e-05
                             HHHHHHHHHHHCT-HHHHHHCEEEEEEEE-TTS-EE.EHHHHHHHHHCCH CS
                  DUF4440  3 aleealeeafvagdaealaallapdavlvgpsgtvl.dkeellealeagf 51
                             +l++ +++af+ ++++ + +ll +d++  +  g+++ +k+e+++ +e++ 
  PHY93_13130|PHY93_13130  6 KLIRSYYQAFNDKNIDLMLDLLVEDVTHDTNQGERTiGKKEFVNFMEEMD 55
                             78999*********************99877766644*********9854 PP

>> DUF4829  Domain of unknown function (DUF4829)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.1   3.5e-05      0.07       2      51 ..       6      54 ..       5      77 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 3.5e-05
                  DUF4829  2 evieeYFkalnkkdaeaakallskeslkkslnidfenlensklinisees 51
                             + i++Y++a n+k+++ ++ ll+++   + ++ +   + +++++n  ee 
  PHY93_13130|PHY93_13130  6 KLIRSYYQAFNDKNIDLMLDLLVEDVTHDTNQGE-RTIGKKEFVNFMEEM 54
                             679*********************7777777666.777788887777665 PP

>> CDP-OH_P_transf  CDP-alcohol phosphatidyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   7.4e-05      0.15      35      52 ..     104     121 ..      65     126 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 7.4e-05
                              HHHHHHTTHHHHHHHHTT CS
          CDP-OH_P_transf  35 liasltDalDGklARrln 52 
                               + +++D+ DGk+AR +n
  PHY93_13130|PHY93_13130 104 PVGCFFDIRDGKIARITN 121
                              3889***********997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (131 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       677  (0.0377601); expected 358.6 (0.02)
Passed bias filter:                      569  (0.0317363); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.52u 0.26s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 866.16
//
Query:       PHY93_13135|PHY93_13135  [L=280]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.1e-07   31.5   0.0    1.5e-07   31.0   0.0    1.1  1  CN_hydrolase  Carbon-nitrogen hydrolase


Domain annotation for each model (and alignments):
>> CN_hydrolase  Carbon-nitrogen hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.0   0.0   8.4e-12   1.5e-07      22     214 ..      22     206 ..       3     223 .. 0.81

  Alignments for each domain:
  == domain 1  score: 31.0 bits;  conditional E-value: 8.4e-12
                              HHHHHHHHHT...TESEEEEETTTTTBS......SSHHHHHHHHB.........HSSSHHHHHHHHHHHHHTEEEEEEEEEEECCT CS
             CN_hydrolase  22 leliaeAark...gadLivlPElfitgy......keeahfleaAe.........aglgetlallaalarkngiavvigliereltn 89 
                              ++l++e+++    g ++i+ PElf++g                            ++  +l  l  ++  ++i++v+g+ +r   n
  PHY93_13135|PHY93_13135  22 EDLCNEIKSFisnGSEVILYPELFLMGLsdyfkaG---------PkeqlakistYIEKDLLPSLESILIGHNILLVLGTGPR-FFN 97 
                              5677776666666***************5555441.........344455556677889*******************8888.499 PP

                              TEEEEEEEEEEEETTSEEEEEEE-SS--EECTTSCECCGHHTSCS-SSS-EEEETTEEEEEEEGGGGGSHHHHHHHHHTT-SEEEE CS
             CN_hydrolase  90 gklqayntavlldldgklvgkyrKlhLfpgeprpptaverelfepgdgipvfdtpvgkiGaaiCyeigfpellralalkgaeilvn 175
                               ++  yn+a l  ++  +   ++KlhL        t +e+e   pg++i+ ++ ++ k  + iC +i  p l+++l+ +g+ +++ 
  PHY93_13135|PHY93_13135  98 ENY--YNSAPLWIDGRWI--FQDKLHL--------TPWEKEFI-PGNSIQLISFKGLKTAVIICFDIEQPGLTLKLKEQGVHFVLV 170
                              999..****999888886..89****7........67988865.567799************************************ PP

                              ...BH.GCCCTCHHHHHHHHHHHHHHHHHHTSEEEEEEBEEE CS
             CN_hydrolase 176 ...lserapvpksmgppqwellgraralengcfviaanqvgg 214
                                 +        + g    +  + ar++e+g  v+ +  vg 
  PHY93_13135|PHY93_13135 171 psaT------INKNGNQRVNRCASARSVELGAAVLTVPLVGD 206
                              5542......45888889999999******999998877765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (280 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       346  (0.0192983); expected 358.6 (0.02)
Passed bias filter:                      310  (0.0172904); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.27s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 1874.75
//
Query:       PHY93_13140|PHY93_13140  [L=262]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      7e-18   64.8   0.0    2.4e-11   43.3   0.0    2.1  2  Hydrolase_4    Serine aminopeptidase, S33
    2.2e-12   47.2   0.1    7.4e-08   32.4   0.0    2.3  2  Abhydrolase_1  alpha/beta hydrolase fold
     0.0001   21.7   0.0     0.0087   15.4   0.0    2.4  2  LIP            Secretory lipase
    0.00016   21.6   0.2     0.0029   17.4   0.0    2.3  2  Abhydrolase_2  Phospholipase/Carboxylesterase
    0.00051   19.1   0.0    0.00088   18.4   0.0    1.3  1  Asp2           Accessory Sec system GspB-transporter
    0.00073   19.1   0.0     0.0029   17.1   0.0    1.9  1  Peptidase_S9   Prolyl oligopeptidase family
     0.0014   18.3   0.0     0.0024   17.6   0.0    1.4  1  FSH1           Serine hydrolase (FSH1)
  ------ inclusion threshold ------
      0.019   15.6   0.0       0.11   13.1   0.0    1.9  2  Abhydrolase_6  Alpha/beta hydrolase family
       0.02   14.6   0.0      0.044   13.6   0.0    1.5  1  Abhydrolase_5  Alpha/beta hydrolase family
      0.054   12.5   0.0       0.11   11.6   0.0    1.4  1  DUF1057        Alpha/beta hydrolase of unknown function (DUF1
      0.054   13.4   0.0       0.45   10.4   0.0    2.1  1  UPF0227        Uncharacterised protein family (UPF0227)
      0.056   13.0   0.0      0.083   12.4   0.0    1.4  1  DLH            Dienelactone hydrolase family


Domain annotation for each model (and alignments):
>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.3   0.0   1.6e-14   2.4e-11       2     116 ..      71     179 ..      70     202 .. 0.87
   2 !   19.5   0.0   3.1e-07   0.00047     189     233 ..     204     247 ..     201     253 .. 0.91

  Alignments for each domain:
  == domain 1  score: 43.3 bits;  conditional E-value: 1.6e-14
              Hydrolase_4   2 epkavvvlvHGlaehsgryaelaeaLaaqGfavyalDhrGhGrsegkrghvpsfddyvdDlaafvekvkeehpelplfllGhSmGG 87 
                               pk+v++ +HG a + +   ++++ L   +++v+++D+rG+G+s g+       + +  D + +++++ + ++e +++l+G S G+
  PHY93_13140|PHY93_13140  71 TPKGVIFYFHGNAGSLSSWGHIGDMLSVYNYDVLIWDYRGYGKSTGEVT----EENIFSDSEFIYKELSKIYSEDRIILYGRSIGS 152
                              69******************************************77766....678899*************************** PP

              Hydrolase_4  88 liallyllrypdkvaglilsaPalkikak 116
                                a  ++ + ++  ++lil  P++++ + 
  PHY93_13140|PHY93_13140 153 GPASFLASKFKP--KALILETPFYNLIEL 179
                              ****99999999..9*******9987644 PP

  == domain 2  score: 19.5 bits;  conditional E-value: 3.1e-07
              Hydrolase_4 189 kitlPllllhGeaDkvvdpeasrelyerlgskdktlklypglyHe 233
                              +++ P++++hG++D++++ ++s++l+++l+   k++   +g+ H 
  PHY93_13140|PHY93_13140 204 NYQGPIFIIHGTDDEIIPIAQSEKLFKNLTT-VKSFIRVEGGHHN 247
                              5678**************************5.**********997 PP

>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.4   0.0   4.9e-11   7.4e-08       2     124 ..      75     187 ..      74     198 .. 0.84
   2 !   12.8   0.0   4.5e-05     0.068     199     251 ..     200     246 ..     193     252 .. 0.70

  Alignments for each domain:
  == domain 1  score: 32.4 bits;  conditional E-value: 4.9e-11
                              EEEEE-STTTCGGGGTTGHHHHHHHHTTSEEEEEEETTSTTSSSTTTGB.CHHSHHHHHHHHH.HHHHHCTTSSEEEEEETHHHHH CS
            Abhydrolase_1   2 vlvilhGlpgssdvwaerglapaLakdgfdvillDlrGvgySspapacinddygtasvaddld.rildalgddkltlvGhSmGGmi 86 
                              v+ ++hG +gs+ +w    +++ L+   +dv++ D rG+g+S+   +    + +++s  ++++  +   +  d+++l G S G+  
  PHY93_13140|PHY93_13140  75 VIFYFHGNAGSLSSWGH--IGDMLSVYNYDVLIWDYRGYGKSTGEVT----EENIFSDSEFIYkELSKIYSEDRIILYGRSIGSGP 154
                              7899*************..***************************5....678899999999788******************** PP

                              HHHHHHHHGGGEEEEEEESECSSCCHHHHHHHHHHHHH CS
            Abhydrolase_1  87 alayaaeyperVkalvllgaidpaaslieaqrqqaksf 124
                              a+ +a++++   kal+l  +   ++ lie+++  ++ +
  PHY93_13140|PHY93_13140 155 ASFLASKFKP--KALILETP---FYNLIELAKIHLPLV 187
                              ********66..57777766...555555555555554 PP

  == domain 2  score: 12.8 bits;  conditional E-value: 4.5e-05
                              HHHHHHHCTHHHHSEEEEEEETTCSSSCHHHHHHHHHCHTSEEEEEEETCSSS CS
            Abhydrolase_1 199 klllrlrelknvlaptlvisgtsDplvppkaledlaqllpkkrlvvisdagHl 251
                               ++ ++++      p+++i+gt+D ++p+ ++e+l + l  ++ ++ + +gH 
  PHY93_13140|PHY93_13140 200 LYIKNYQG------PIFIIHGTDDEIIPIAQSEKLFKNLTTVKSFIRVEGGHH 246
                              56778899......***************666666555555455555555554 PP

>> LIP  Secretory lipase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   0.0      0.02        30      62      93 ..     132     164 ..     100     167 .. 0.79
   2 !   15.4   0.0   5.8e-06    0.0087     215     242 ..     206     233 ..     188     251 .. 0.85

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.02
                      LIP  62 ekvtgiksdakvalwGYSgGsl.AsawAaelqp 93 
                              ++++ i s+ ++ l+G S Gs  As  A++ +p
  PHY93_13140|PHY93_13140 132 KELSKIYSEDRIILYGRSIGSGpASFLASKFKP 164
                              5778999*************8657878887776 PP

  == domain 2  score: 15.4 bits;  conditional E-value: 5.8e-06
                      LIP 215 qiPvlvyhgvidelipikdakklaknwc 242
                              q P++++hg+ de+ipi +++kl kn +
  PHY93_13140|PHY93_13140 206 QGPIFIIHGTDDEIIPIAQSEKLFKNLT 233
                              78*********************99876 PP

>> Abhydrolase_2  Phospholipase/Carboxylesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.0      0.12   1.8e+02      81     115 ..     117     151 ..      93     161 .. 0.81
   2 !   17.4   0.0   1.9e-06    0.0029     141     201 ..     191     247 ..     186     262 .] 0.74

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.12
                              HHHHHHHHHHHHHHHHHHHTT--GGGEEEEEETHH CS
            Abhydrolase_2  81 agikksaekleelidaelkkgipssriiigGFSqG 115
                              + +++++ + +e+i +el+k   ++rii+ G S G
  PHY93_13140|PHY93_13140 117 EVTEENIFSDSEFIYKELSKIYSEDRIILYGRSIG 151
                              5666677777899******************9988 PP

  == domain 2  score: 17.4 bits;  conditional E-value: 1.9e-06
                              TTGGGTTTTS-GGGGG-EEEEEEETT-SSS-HHHHHHHHHHHHTTS-GEEEEEETT--SS- CS
            Abhydrolase_2 141 plsqklessatavtkklpilqiHgeeDpvvplalgkaakevlkkllkkvelksyeglaHsi 201
                              +l+ k+e++    + + pi+ iHg++D+++p+a ++++ + l+++     +  +e ++H  
  PHY93_13140|PHY93_13140 191 LLQFKFENNLYIKNYQGPIFIIHGTDDEIIPIAQSEKLFKNLTTVKS---FIRVE-GGHHN 247
                              56778898888888899*****************9999999988876...55555.33333 PP

>> Asp2  Accessory Sec system GspB-transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0   5.9e-07   0.00088     341     395 ..     128     181 ..     104     190 .. 0.86

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 5.9e-07
                     Asp2 341 kiikekleeLgfeeeqlilsGlSMGtfgalyYgaklnphaivvgKPlvnlGtiaa 395
                              ++i ++l+++ ++e+ +il G S+G+ +a + ++k++p+a+++  P+ nl ++a+
  PHY93_13140|PHY93_13140 128 EFIYKELSKI-YSEDRIILYGRSIGSGPASFLASKFKPKALILETPFYNLIELAK 181
                              5677778776.78999*********************************988886 PP

>> Peptidase_S9  Prolyl oligopeptidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.0     2e-06    0.0029     136     171 ..     201     234 ..     100     260 .. 0.73

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 2e-06
                              CGGG-----EEEEEEETT-SSS-THHHHHHHHHHH- CS
             Peptidase_S9 136 pldnvkaypplLlihGlaDdrvppaealklvaaLqk 171
                              + +n   + p+++ihG+ D+ +p+a+++kl+++L+ 
  PHY93_13140|PHY93_13140 201 YIKN--YQGPIFIIHGTDDEIIPIAQSEKLFKNLTT 234
                              3445..678************************984 PP

>> FSH1  Serine hydrolase (FSH1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.0   1.6e-06    0.0024     153     201 ..     199     246 ..     144     251 .. 0.79

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 1.6e-06
                     FSH1 153 eyyeedkiqtptLhvlGelDtvvdeerseaLaeafknsskvlkHpggHf 201
                              ++y  ++ q p++ ++G++D++++ ++se+L ++ +  + ++  +ggH+
  PHY93_13140|PHY93_13140 199 NLY-IKNYQGPIFIIHGTDDEIIPIAQSEKLFKNLTTVKSFIRVEGGHH 246
                              355.445699***************************9**********6 PP

>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   7.3e-05      0.11       4      96 ..      79     172 ..      76     216 .. 0.64
   2 ?    0.5   0.0      0.51   7.6e+02     170     213 ..     206     251 ..     188     258 .. 0.57

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 7.3e-05
                              E--GC.....G.CHHHHHHHHCCTCEEEEE--TTSTS-GGCS--HHHCHHHHHHHCCTT.....TTSEEEEEETCHHHHHHHHHHC CS
            Abhydrolase_6   4 lHGagssassW.lvapLaallaagvhvlapDlpGhGrsdpppldledladlaalldelaa...gggpvvlvGHSlGGalalaaapl 85 
                               HG  +s ssW + + ++  ++ +v  l+ D++G+G s++   + e++  +++++ ++ +   + ++++l G S G   a++   l
  PHY93_13140|PHY93_13140  79 FHGNAGSLSSWgHIGDMLSVYNYDV--LIWDYRGYGKSTG-EVTEENIFSDSEFIYKELSkiySEDRIILYGRSIGSGPASF---L 158
                              5999999999*76777777777788..*********5533.333333333334333333346666679********998888...5 PP

                              C.....EEEEES-. CS
            Abhydrolase_6  86 a...lvvgvlldpp 96 
                              a      +++l++p
  PHY93_13140|PHY93_13140 159 AskfKPKALILETP 172
                              54433344666662 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.51
                              TTGCEEE.CTT-CHHHHCHHCCCH..STTEEET..CE...SSS-HHHHS CS
            Abhydrolase_6 170 pvpllvl.ggeDplvprllerlla..qagarlp..vvlpgaGHlphlee 213
                                p++++ g++D+++p  +++     ++  +++  + ++ +GH+  le+
  PHY93_13140|PHY93_13140 206 QGPIFIIhGTDDEIIP--IAQSEKlfKNLTTVKsfIRVE-GGHHNDLEN 251
                              4566666467777666..333333232333333326666.555544433 PP

>> Abhydrolase_5  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   2.9e-05     0.044      96     143 ..     202     249 ..     189     256 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 2.9e-05
            Abhydrolase_5  96 lselskkvlsivgteDgvlnvkslekakkflpkdtkvvsieGgnhagf 143
                              +++ + +++ i gt+D+++++ + ek  k l+    ++ +eGg h + 
  PHY93_13140|PHY93_13140 202 IKNYQGPIFIIHGTDDEIIPIAQSEKLFKNLTTVKSFIRVEGGHHNDL 249
                              46778899*************************************875 PP

>> DUF1057  Alpha/beta hydrolase of unknown function (DUF1057)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   7.1e-05      0.11      30     132 ..      68     169 ..      41     174 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 7.1e-05
                  DUF1057  30 asgsplGtvvalhGsPGshnDfkYirskleelkiRligvnyPGfefvtgylgqkytnaeRnsyskalleelelkgklillghsRGc 115
                              ++  p+G +  +hG  Gs     +i + l   +  ++  +y G+ + tg   ++ +  + + +    l ++  ++++il g s G+
  PHY93_13140|PHY93_13140  68 KKETPKGVIFYFHGNAGSLSSWGHIGDMLSVYNYDVLIWDYRGYGKSTGEVTEENIFSDSE-FIYKELSKIYSEDRIILYGRSIGS 152
                              57789*****************************************999999998888765.555557889999************ PP

                  DUF1057 116 enaLqlavtleahGlvl 132
                                a  la+++++  l+l
  PHY93_13140|PHY93_13140 153 GPASFLASKFKPKALIL 169
                              *********99988876 PP

>> UPF0227  Uncharacterised protein family (UPF0227)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0    0.0003      0.45     130     168 ..     201     243 ..     117     257 .. 0.73

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.0003
                  UPF0227 130 rlkr.perilvllskqDevldyrravaefr...aaaeiveddg 168
                              ++k+ + +i+++++++De++++ ++ + f+    ++  +  +g
  PHY93_13140|PHY93_13140 201 YIKNyQGPIFIIHGTDDEIIPIAQSEKLFKnltTVKSFIRVEG 243
                              45543789**************666555550005555565555 PP

>> DLH  Dienelactone hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   5.6e-05     0.083     138     175 ..     200     237 ..     114     247 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 5.6e-05
                      DLH 138 eeaakikapilalfgeeDefipadevekleealkaanv 175
                               ++++ ++pi++++g+ De+ip ++ ekl ++l++ + 
  PHY93_13140|PHY93_13140 200 LYIKNYQGPIFIIHGTDDEIIPIAQSEKLFKNLTTVKS 237
                              567899**********************9999977665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (262 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       592  (0.0330191); expected 358.6 (0.02)
Passed bias filter:                      455  (0.0253779); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.60u 0.26s 00:00:00.86 Elapsed: 00:00:00.45
# Mc/sec: 1765.16
//
Query:       PHY93_13145|PHY93_13145  [L=381]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.7e-05   24.6   0.0       0.04   14.5   0.0    2.5  2  Ank_2     Ankyrin repeats (3 copies)
     0.0042   17.4   0.0        2.6    8.5   0.0    3.4  2  Ank_5     Ankyrin repeats (many copies)
  ------ inclusion threshold ------
      0.016   15.7   0.0         22    6.1   0.0    4.0  4  Ank_3     Ankyrin repeat


Domain annotation for each model (and alignments):
>> Ank_2  Ankyrin repeats (3 copies)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.5   0.0   6.7e-06      0.04      29      77 ..      49     104 ..      29     110 .. 0.74
   2 !    7.4   0.0    0.0011       6.6       9      57 ..     196     254 ..     188     262 .. 0.67

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 6.7e-06
                    Ank_2  29 aLhyAakngnl.eivklLle.h.....adndgrtpLhyAarsghleivklLlekga 77 
                               L+++++++++ e+ k+L   h      d+dg  pL +A  s +++iv+lL++ ga
  PHY93_13145|PHY93_13145  49 KLMTSIRENDVtEVSKILKTeHvdpnfYDEDGLLPLGLATLSCNTQIVELLVNAGA 104
                              58888998866355566664346655555889999999999999999999997665 PP

  == domain 2  score: 7.4 bits;  conditional E-value: 0.0011
                    Ank_2   9 nlelvklLl.egadpnkngktaLhyAakngnleivklLleh.............adndgrtpL 57 
                                +lv+++l +g+dp+ + ++++ y+ +n    i  lLl++               ++  tpL
  PHY93_13145|PHY93_13145 196 RADLVEFFLkNGVDPK-F-QNPIAYSLSNE--TIFVLLLNAgvnpksmiscpygRSSQEGTPL 254
                              4579999999999998.4.69999999997..7889999855344444433332114455666 PP

>> Ank_5  Ankyrin repeats (many copies)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.5   0.0   0.00043       2.6      20      55 ..      50      86 ..      30      87 .. 0.92
   2 !    4.9   0.0    0.0059        35      28      45 ..     196     213 ..     188     219 .. 0.87

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.00043
                    Ank_5 20 LhvAakygaadvvrlLl.argadlnltdsrGltaldl 55
                             L+++++ +  + v ++l  +++d+n +d++Gl++l l
  PHY93_13145|PHY93_13145 50 LMTSIRENDVTEVSKILkTEHVDPNFYDEDGLLPLGL 86
                             99********************************965 PP

  == domain 2  score: 4.9 bits;  conditional E-value: 0.0059
                    Ank_5  28 aadvvrlLlargadlnlt 45 
                              +ad+v+++l++g+d++ +
  PHY93_13145|PHY93_13145 196 RADLVEFFLKNGVDPKFQ 213
                              79************9865 PP

>> Ank_3  Ankyrin repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.0   0.0      0.33     2e+03       5      30 ..      49      74 ..      47      75 .. 0.86
   2 ?    6.1   0.0    0.0036        22       1      26 [.      79     103 ..      79     106 .. 0.89
   3 ?    3.6   0.0     0.024   1.4e+02      10      29 ..     192     210 ..     188     212 .. 0.80
   4 ?   -2.0   0.0       1.5     9e+03      13      29 ..     221     236 ..     216     237 .. 0.63

  Alignments for each domain:
  == domain 1  score: 0.0 bits;  conditional E-value: 0.33
                    Ank_3  5 pLhlAarsgnleivkfLlenkgadvn 30
                              L++ +r ++++ v  +l+  ++d+n
  PHY93_13145|PHY93_13145 49 KLMTSIRENDVTEVSKILKTEHVDPN 74
                             79999999999879999998899998 PP

  == domain 2  score: 6.1 bits;  conditional E-value: 0.0036
                    Ank_3   1 nGetpLhlAarsgnleivkfLlenkg 26 
                              +G  pL lA +s+n+ iv++L++  g
  PHY93_13145|PHY93_13145  79 DGLLPLGLATLSCNTQIVELLVN-AG 103
                              5889*****************99.55 PP

  == domain 3  score: 3.6 bits;  conditional E-value: 0.024
                    Ank_3  10 arsgnleivkfLlenkgadv 29 
                              ++  + ++v+f+l+ +g+d+
  PHY93_13145|PHY93_13145 192 VKMERADLVEFFLK-NGVDP 210
                              56677899******.8**98 PP

  == domain 4  score: -2.0 bits;  conditional E-value: 1.5
                    Ank_3  13 gnleivkfLlenkgadv 29 
                               n +i  +Ll+  g+++
  PHY93_13145|PHY93_13145 221 SNETIFVLLLN-AGVNP 236
                              56666666776.78876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (381 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       513  (0.0286129); expected 358.6 (0.02)
Passed bias filter:                      439  (0.0244855); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.60u 0.26s 00:00:00.86 Elapsed: 00:00:00.47
# Mc/sec: 2452.44
//
Query:       PHY93_13150|PHY93_13150  [L=312]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      6e-15   54.8   0.1    1.2e-14   53.8   0.1    1.4  1  Sigma70_r2    Sigma-70 region 2
    2.4e-12   46.3   0.0    1.2e-11   44.1   0.0    2.1  2  Sigma70_r4_2  Sigma-70, region 4
    0.00094   18.7   0.0     0.0031   17.0   0.0    1.8  2  Sigma70_r4    Sigma-70, region 4


Domain annotation for each model (and alignments):
>> Sigma70_r2  Sigma-70 region 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.8   0.1     2e-18   1.2e-14       3      68 ..      24      88 ..      23      90 .. 0.93

  Alignments for each domain:
  == domain 1  score: 53.8 bits;  conditional E-value: 2e-18
                             HHHHHHHHHHHHHCT-THHHHHHHHHHHHHHHHHHGGGTSTTTCHHHHHHHHHHHHHHHHHHHHTS CS
               Sigma70_r2  3 erylplvkrlarrllgsgadaeDlvQeaflrlwraverfdpergvsfsawllriarnaaidrlRkr 68
                             ++y++ +++++r+l+++++daeDlvQe+++ ++ ++++   + + + +a+l+r+a+n++id+ R+ 
  PHY93_13150|PHY93_13150 24 TDYRNDLFKYCRKLTNNPWDAEDLVQETLVQAYGKLADKHSGIN-NIKAYLFRMATNQWIDWCRRS 88
                             78********************************9998777777.9******************96 PP

>> Sigma70_r4_2  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.1   0.0     2e-15   1.2e-11       3      54 .]     113     164 ..     111     164 .. 0.93
   2 ?   -0.8   0.0      0.21   1.2e+03      31      42 ..     295     306 ..     293     311 .. 0.85

  Alignments for each domain:
  == domain 1  score: 44.1 bits;  conditional E-value: 2e-15
                              HHHHHHTTS-HHHHHHHHHHHTS---HHHHHHHHT--HHHHHHHHHHHHHHH CS
             Sigma70_r4_2   3 alrealaeLperqreifllryleglsykEIAellgisegtVksrlsRArkkL 54 
                              a++ ++  L +++r +f+l++ ++++ +EIAe+lg++eg+Vks+l R r kL
  PHY93_13150|PHY93_13150 113 AIDSMIYFLAPKERVAFVLSEAFESKNEEIAEILGTTEGAVKSALNRSRVKL 164
                              6667777799***************************************998 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 0.21
                              HHHHHHT--HHH CS
             Sigma70_r4_2  31 EIAellgisegt 42 
                              EIA l+g ++++
  PHY93_13150|PHY93_13150 295 EIATLIGKKVNS 306
                              9******99986 PP

>> Sigma70_r4  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.0   5.2e-07    0.0031       9      49 ..     125     165 ..     121     166 .. 0.75
   2 ?   -2.3   0.0      0.54   3.2e+03      16      30 ..     286     300 ..     283     302 .. 0.76

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 5.2e-07
                              HHHHHHHHH.TTT--HHHHHHHHTS-HHHHHHHHHHHHHHHH CS
               Sigma70_r4   9 erevlelrf.geglTleEIgerlgiSrerVrqiekrAlrkLR 49 
                              er  ++l+  +e    eEI+e+lg ++++V++ ++r + kL+
  PHY93_13150|PHY93_13150 125 ERVAFVLSEaFES-KNEEIAEILGTTEGAVKSALNRSRVKLK 165
                              5544444443333.359***********************98 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 0.54
                              HHTTT--HHHHHHHH CS
               Sigma70_r4  16 rfgeglTleEIgerl 30 
                              ++  +  l+EI+   
  PHY93_13150|PHY93_13150 286 YYCCPEVLSEIATLI 300
                              67788889***9865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (312 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       801  (0.0446762); expected 358.6 (0.02)
Passed bias filter:                      600  (0.0334653); expected 358.6 (0.02)
Passed Vit filter:                        64  (0.00356964); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.25s 00:00:00.80 Elapsed: 00:00:00.42
# Mc/sec: 2244.73
//
Query:       PHY93_16990|PHY93_16990  [L=394]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.017   15.2   0.9        4.9    7.5   0.0    3.6  3  TPR_2     Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.0    0.0052        93      11      30 ..     111     130 ..     109     131 .. 0.90
   2 ?    7.5   0.0   0.00028       4.9       6      28 ..     164     186 ..     163     189 .. 0.89
   3 ?   -0.6   0.1      0.11   1.9e+03      17      29 ..     216     228 ..     211     229 .. 0.83

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.0052
                    TPR_2  11 yyklgdyeeAleafekAlel 30 
                              ++k+++   A++ f++Al l
  PHY93_16990|PHY93_16990 111 LFKNNHKPLARAKFNAALNL 130
                              8999999***********98 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.00028
                    TPR_2   6 nlGlayyklgdyeeAleafekAl 28 
                              + +++y+   d+e A+++++k +
  PHY93_16990|PHY93_16990 164 EKAELYFITRDFEMAVKLYDKFI 186
                              6799****************976 PP

  == domain 3  score: -0.6 bits;  conditional E-value: 0.11
                    TPR_2  17 yeeAleafekAle 29 
                              + eA+ +fe+ l+
  PHY93_16990|PHY93_16990 216 FPEAKSHFEAYLK 228
                              789*****98765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (394 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       924  (0.0515366); expected 358.6 (0.02)
Passed bias filter:                      486  (0.0271069); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.23s 00:00:00.80 Elapsed: 00:00:00.42
# Mc/sec: 2799.64
//
Query:       PHY93_13155|PHY93_13155  [L=200]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.4e-11   44.6   0.0      2e-11   44.1   0.0    1.2  1  GST_N_3   Glutathione S-transferase, N-terminal domain
    2.2e-11   43.9   0.0    3.9e-11   43.1   0.0    1.4  1  GST_N     Glutathione S-transferase, N-terminal domain
    5.1e-10   39.4   0.0    8.6e-10   38.7   0.0    1.4  1  GST_C     Glutathione S-transferase, C-terminal domain
    2.5e-07   30.9   0.0    4.3e-07   30.1   0.0    1.3  1  GST_N_2   Glutathione S-transferase, N-terminal domain
      4e-06   26.9   0.1    8.4e-06   25.9   0.1    1.5  1  GST_C_3   Glutathione S-transferase, C-terminal domain
    9.7e-05   22.3   0.0    0.00019   21.4   0.0    1.5  1  GST_C_2   Glutathione S-transferase, C-terminal domain
  ------ inclusion threshold ------
      0.066   13.0   0.0       0.26   11.1   0.0    2.0  1  GST_C_6   Glutathione S-transferase, C-terminal domain


Domain annotation for each model (and alignments):
>> GST_N_3  Glutathione S-transferase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.1   0.0   7.8e-15     2e-11      12      74 ..      14      79 ..       4      80 .. 0.92

  Alignments for each domain:
  == domain 1  score: 44.1 bits;  conditional E-value: 7.8e-15
                             HHHHHHHHHT--EEEE---TTTT...HHHHHHH-TT--SSEEETTS-EEESHHHHHHHHHHHH-GG CS
                  GST_N_3 12 rvrlaLnekglpvevvevtpgeh...deellaknplgkvPvLeddgealtdSlaIidyLeelypgp 74
                             ++ ++  e+g+  e+++v ++     de++++++p g vP+L+d++  l++S+aIi yL e++p++
  PHY93_13155|PHY93_13155 14 KCIWMASELGITLEEENVQYTGDgfgDENYRKIHPFGLVPALQDGDFTLFESQAIINYLGEKFPEK 79
                             899999************97776678*************************************987 PP

>> GST_N  Glutathione S-transferase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.1   0.0   1.5e-14   3.9e-11       3      75 ..       2      73 ..       1      74 [. 0.89

  Alignments for each domain:
  == domain 1  score: 43.1 bits;  conditional E-value: 1.5e-14
                             EEEESSSTSHTHHHHHHHHHHTT-EEEEEEECSTTTCGGCHHHHHHCTTS-SSEEEETTEEEESHHHHHHHHH CS
                    GST_N  3 ltlysirgsprahrirlllaakgveyevvpldfeageekspellklnplgkvPaLedngkkltESraIleYia 75
                             ++ly++ +  r  ++ +++ ++g+  e+ +++ +     ++ + k++p+g vPaL+d++++l+ES aI +Y+ 
  PHY93_13155|PHY93_13155  2 IKLYGYGP-TRWSKCIWMASELGITLEEENVQYTGDGFGDENYRKIHPFGLVPALQDGDFTLFESQAIINYLG 73
                             58999988.7889***************888875444456*******************************97 PP

>> GST_C  Glutathione S-transferase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.7   0.0   3.4e-13   8.6e-10      10      92 ..     114     193 ..      99     194 .. 0.89

  Alignments for each domain:
  == domain 1  score: 38.7 bits;  conditional E-value: 3.4e-13
                              HHHHSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSSSSTTSSCHHHHHHHHHHHHHHHHTTTTTTTTSHHHHHHHHHHHTS CS
                    GST_C  10 llfyvkaeekkeelvdealekvaevlsaleeelkkqdylvGdkltlADialvpilnwlqrlglafgqekfpnlkawlerimar 92 
                              + f++ +++k++ + d a+e+++++l +l+ +l+++ +lvG+++t ADi ++  lnw+  +g++f+ e+  nlk ++e+   r
  PHY93_13155|PHY93_13155 114 HSFIFDEKTKNQVEIDRASEELKKQLIILNSVLENKSFLVGNRFTAADISMTYTLNWA--TGFGFL-EGNNNLKNYTETHLKR 193
                              56777777999**********************************************8..577788.9999999999987766 PP

>> GST_N_2  Glutathione S-transferase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.1   0.0   1.7e-10   4.3e-07       7      69 ..      14      74 ..      12      75 .. 0.93

  Alignments for each domain:
  == domain 1  score: 30.1 bits;  conditional E-value: 1.7e-10
                             HHHHHHHHCT--EEEEEEH...-TTSHHHHHHHHCTTTSSSEEE-CTTEEEESHHHHHHHHHH CS
                  GST_N_2  7 RvlialalkglediisvvvlepkgfekseefprlnprgtVPvLwdkdgqvineSseIlrylet 69
                             ++ ++  ++g++ + + v  + +gf + e + +++p+g VP+L+d +   + eS +I+ yl++
  PHY93_13155|PHY93_13155 14 KCIWMASELGITLEEENVQYTGDGFGD-ENYRKIHPFGLVPALQD-GDFTLFESQAIINYLGE 74
                             788999************99******8.7***************9.668************87 PP

>> GST_C_3  Glutathione S-transferase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.9   0.1   3.3e-09   8.4e-06      11      71 ..     115     180 ..     108     199 .. 0.77

  Alignments for each domain:
  == domain 1  score: 25.9 bits;  conditional E-value: 3.3e-09
                              CC..SHCHHHHHHHHHHHHHHHCHHHHHHHHHHCHGTSSSSTTS--HHHHHHHHHHHHHHHH.....T CS
                  GST_C_3  11 ly..dqkeeaekkkefleerlpkflkyfekvlkkkgggylvgdklTyADlalfqvldgleea.....e 71 
                               +  d+k++ + + +   e+l+k l  ++ vl+  ++ +lvg+++T AD+++   l+  + +     +
  PHY93_13155|PHY93_13155 115 SFifDEKTKNQVEIDRASEELKKQLIILNSVLE--NKSFLVGNRFTAADISMTYTLNWATGFgflegN 180
                              3335888888999********************..899************999888877766444431 PP

>> GST_C_2  Glutathione S-transferase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.4   0.0   7.4e-08   0.00019       2      51 ..     126     175 ..     125     189 .. 0.86

  Alignments for each domain:
  == domain 1  score: 21.4 bits;  conditional E-value: 7.4e-08
                              HHHCHHHHHCCHCHHHCTTT---SS.CTTCS--HHHHHHHHHHHHHHHHH CS
                  GST_C_2   2 aaveraleqldaaldaleahLadspflfGdqptlaDialapflvrlraag 51 
                               +++ra e+l++ l  l++ L+ ++fl G+++t+aDi+ + +l +++  g
  PHY93_13155|PHY93_13155 126 VEIDRASEELKKQLIILNSVLENKSFLVGNRFTAADISMTYTLNWATGFG 175
                              689999************************************99987655 PP

>> GST_C_6  Glutathione S-transferase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0    0.0001      0.26       2      30 ..     136     164 ..     135     190 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.0001
                  GST_C_6   2 kkdleaLselLgdkkyFfGdkPtslDAlv 30 
                              kk l  L ++L++k ++ G++ t +D ++
  PHY93_13155|PHY93_13155 136 KKQLIILNSVLENKSFLVGNRFTAADISM 164
                              677889*************99*****975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (200 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       577  (0.0321825); expected 358.6 (0.02)
Passed bias filter:                      484  (0.0269954); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 1375.27
//
Query:       PHY93_13160|PHY93_13160  [L=141]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.4e-05   24.1   0.6    5.9e-05   23.3   0.6    1.4  1  AHSA1     Activator of Hsp90 ATPase homolog 1-like protein


Domain annotation for each model (and alignments):
>> AHSA1  Activator of Hsp90 ATPase homolog 1-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.3   0.6   3.3e-09   5.9e-05       3     125 .]      14     133 ..      12     133 .. 0.73

  Alignments for each domain:
  == domain 1  score: 23.3 bits;  conditional E-value: 3.3e-09
                              -HHHHHHHHH-HHHHHHHEEEEEEEE--STTEEEEEEETTTSEEEEEEEE..EEEEETTTEEEEEEEEE.TSET.....EEEEEEE CS
                    AHSA1   3 pperVfraltdpellkrWftlteaemdlrpGgkfrlrdspdgkefgnege..ylevvpperlvytwrle.depe.....eeestvt 80 
                               p+ V  al + e++++W+t ++  ++    g fr+      +e+g+ +     +  +++ +  tw+   + ++     e  st++
  PHY93_13160|PHY93_13160  14 EPNAVLSALIKVEHIQNWWTKDASFIEG--KGVFRW------REYGWVVDllLDKSNDDRVV--TWKCLrSNMQntdawE-GSTIS 88 
                              5888999***********8777666666..579999......56888888534444444444..4444433333456644.8**** PP

                              EEEEEETTEEEEEEEEEEEEHCHHHHHHHHHHHHHHH.HHHHHHHH CS
                    AHSA1  81 ieleeegggTrltlthtglprkqkeeegveeGweqsl.dqLkalle 125
                              +el++e++gT+l l+h + ++   ++  + +Gw  +  +++k++le
  PHY93_13160|PHY93_13160  89 FELTKEETGTELKLRHFNYKNSPCYDI-CFDGWAFVVgNSMKHYLE 133
                              ****************88888887774.999999998888888886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (141 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       388  (0.0216409); expected 358.6 (0.02)
Passed bias filter:                      296  (0.0165096); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.28s 00:00:00.72 Elapsed: 00:00:00.43
# Mc/sec: 977.30
//
Query:       PHY93_13165|PHY93_13165  [L=115]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.1e-10   40.2   0.0    3.5e-10   40.0   0.0    1.1  1  DUF1428   Protein of unknown function (DUF1428)


Domain annotation for each model (and alignments):
>> DUF1428  Protein of unknown function (DUF1428)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.0   0.0     2e-14   3.5e-10       4      92 ..       4      93 ..       1     101 [. 0.91

  Alignments for each domain:
  == domain 1  score: 40.0 bits;  conditional E-value: 2e-14
                  DUF1428  4 dgfvlaVpkankeaYrelaekaaevfkehGalrvvecwgddvpegklt.sfpravkakedEtvvfswiewpskatrdaanakvmaDpr 90
                             + +   Vpk+n + + ++ +k++e++k++Ga++ +    d+++e+  + sf + + + ++E + fs+  ++ k++ d++ a + +D++
  PHY93_13165|PHY93_13165  4 SLYFYRVPKKNVDLFLNIQKKSSEIYKKYGAIDDWTFGPDNLKEKYGCsSFLKEISLLPNEELFFSLSLFETKDEHDRIIALIDSDKE 91
                             567889**************************************965527************************************99 PP

                  DUF1428 91 mk 92
                             ++
  PHY93_13165|PHY93_13165 92 IS 93
                             87 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (115 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       562  (0.0313459); expected 358.6 (0.02)
Passed bias filter:                      398  (0.0221987); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.26s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 798.96
//
Query:       PHY93_13170|PHY93_13170  [L=120]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.8e-08   33.0   0.0    6.7e-08   32.8   0.0    1.1  1  Glyoxalase    Glyoxalase/Bleomycin resistance protein/Dioxyge
    1.3e-05   25.9   0.0    1.8e-05   25.5   0.0    1.1  1  Glyoxalase_6  Glyoxalase-like domain


Domain annotation for each model (and alignments):
>> Glyoxalase  Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.8   0.0   7.5e-12   6.7e-08       3     126 ..       9     116 ..       7     118 .. 0.96

  Alignments for each domain:
  == domain 1  score: 32.8 bits;  conditional E-value: 7.5e-12
                              EEEEEEESHHHHHHHHHHHHHTSEEEEEEEEEESTEEEEEEEEETTTSEEEEEEEECCTTSCTHHCCBSCTSEEEEEEEEEHCHHH CS
               Glyoxalase   3 dhvallvgdleksldFYtkvLGfklvkktdnteeteglriaffhaggghielvlneapsgaakhvkkieetvhhvafialdvedvg 88 
                               +v ++++d+ek+  FY   ++++++  +      + ++++ f  g+++++  l +++s ++++v           +++l+ve ++
  PHY93_13170|PHY93_13170   9 CYVEIPAPDIEKARIFYSSLFNWEILQSEL-----TDQKYYMFKTGENSLMGGLDSTKSVSDQGV-----------LLYLKVEKII 78 
                              5799**************************.....9*****************************...........********** PP

                              HHHHHHHHTTGEEEEEEECHHCTEEEEEEEEETTSEEE CS
               Glyoxalase  89 kaldrlkeagvkvvaepgrhyfgalysfyfrDpdGill 126
                               +l+ +++ g+kvv++    + g ++s++f Dp+G+ l
  PHY93_13170|PHY93_13170  79 STLEMIEKSGGKVVRTKFEIGGGYGFSAVFADPNGNHL 116
                              *****************99999999999*******975 PP

>> Glyoxalase_6  Glyoxalase-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.5   0.0     2e-09   1.8e-05       5     103 ..      14     115 ..      10     118 .. 0.76

  Alignments for each domain:
  == domain 1  score: 25.5 bits;  conditional E-value: 2e-09
             Glyoxalase_6   5 daadpaalaaFwaaalgwevereeaaledpegvgpaaedaatllfqrvpe...........paknrvHldlavedldaevarlval 79 
                               a+d +++  F++ ++ we  + e  l d++             f++ ++              + v l l+ve++  + + +++ 
  PHY93_13170|PHY93_13170  14 PAPDIEKARIFYSSLFNWEILQSE--LTDQKYYM----------FKTGENslmggldstksVSDQGVLLYLKVEKIISTLEMIEKS 87 
                              5789999999**************..33333333..........3333333333333335444558******************** PP

             Glyoxalase_6  80 GArvlreprdgthgr....vlaDPeGne 103
                              G++v+r++ + ++g     v+aDP Gn 
  PHY93_13170|PHY93_13170  88 GGKVVRTKFEIGGGYgfsaVFADPNGNH 115
                              ********998766699*********97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (120 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       392  (0.021864); expected 358.6 (0.02)
Passed bias filter:                      356  (0.0198561); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.22s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 809.24
//
Query:       PHY93_13175|PHY93_13175  [L=514]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.2e-15   54.5   1.3    1.7e-14   53.7   0.3    2.0  2  MerR_1           MerR HTH family regulatory protein
    6.7e-14   51.6   0.1    8.4e-11   41.5   0.0    2.6  2  DNA_pol3_finger  Bacterial DNA polymerase III alpha subunit f
    2.1e-13   49.8   2.9    3.7e-13   49.0   2.9    1.4  1  MerR             MerR family regulatory protein
    2.3e-08   33.9   0.2    7.5e-08   32.3   0.0    1.8  2  DNA_pol3_alpha   Bacterial DNA polymerase III alpha NTPase do
    6.5e-06   26.6   0.0    1.3e-05   25.6   0.0    1.5  1  MerR-DNA-bind    MerR, DNA binding
    0.00079   19.9   1.3      0.002   18.7   1.3    1.6  1  Syntaxin-6_N     Syntaxin 6, N-terminal


Domain annotation for each model (and alignments):
>> MerR_1  MerR HTH family regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.7   0.3   5.5e-18   1.7e-14       1      67 [.       2      69 ..       2      71 .. 0.97
   2 ?   -3.9   0.0       5.1   1.5e+04       9      26 ..     431     448 ..     429     451 .. 0.65

  Alignments for each domain:
  == domain 1  score: 53.7 bits;  conditional E-value: 5.5e-18
                             EEHHHHHHHHTS-HHHHHHHHHHTT-S-EE.-TTS-EEEEHHHHHHHHHHHHHHHTT--GGG---XXX CS
                   MerR_1  1 ysigevakilgvtthtlrywekegllkpkr.teggrryYtdedierLklikyLlkrGltlkgikklln 67
                             y+i+e  k++++t++tlr++e+ gl+ p+r  ++g+ryY+++ +  +  ik+ +  +++l++i   ln
  PHY93_13175|PHY93_13175  2 YTISEIGKLTELTPRTLRHYEEVGLITPSRrGSNGYRYYSKDVLTKILEIKKYKIMDFSLEEINSFLN 69
                             9*****************************9999*****************************98887 PP

  == domain 2  score: -3.9 bits;  conditional E-value: 5.1
                              HHTS-HHHHHHHHHHTT- CS
                   MerR_1   9 ilgvtthtlrywekegll 26 
                              i++  +  lr + +e ++
  PHY93_13175|PHY93_13175 431 ITEEQKNDLRQYVTEEVI 448
                              555566678888777654 PP

>> DNA_pol3_finger  Bacterial DNA polymerase III alpha subunit finger domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.1   0.0     0.001       3.1       7      47 ..     264     304 ..     259     311 .. 0.89
   2 !   41.5   0.0   2.8e-14   8.4e-11      50     153 ..     328     437 ..     326     449 .. 0.80

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.001
                              HHHHHHHHHH-----GGG--S--HHHHHHHHHT--TTSTT- CS
          DNA_pol3_finger   7 ralklikekkgkeidleeipleDkkvykllskgdtlGvfql 47 
                              +++++++++ g+++d ++i+ +D+ +++ ++kgd+  +f +
  PHY93_13175|PHY93_13175 264 DIIENVHARVGSDVDYDSINDSDPLILDQFRKGDIDKIFSF 304
                              56777888889***********************9999976 PP

  == domain 2  score: 41.5 bits;  conditional E-value: 2.8e-14
                              HHHHHHHHHH---SHHHHHHHHHHSSHHHHHTTH.HHHHHHHHTTSS----SSH.....HHTTTTTTTTT---BHHHHHHHHHHHH CS
          DNA_pol3_finger  50 rgmrqllkrlkPktfeDlvalvaLyRpgpvqggn.vddyikrkngeekveyihp.....eleeiLketygvivyQEqvmqiaqvla 129
                              ++m ++lk  +  +f+Dl+ + a++Rp +++++  ++++i+r    +k++  h      +++e Lk+ +gvi+yQE +++i+q++ 
  PHY93_13175|PHY93_13175 328 KMMSDYLKSQEIFNFQDLLNIEAIFRPDNLDTKPfMREFIDRYP-IAKINGFHYnclsaSINEYLKPNFGVIIYQEDIVHIIQEYT 412
                              5788999999999*****************97655788888854.33455555466666*************************** PP

                              ---HHHHHHHHHHHHH.--HHHHHH CS
          DNA_pol3_finger 130 gfslgeAdllrramgk.kkeeelek 153
                                + ++ +l+r+a++  k +ee ++
  PHY93_13175|PHY93_13175 413 SWEFEKCNLFRKALSFgKITEEQKN 437
                              *************998655444443 PP

>> MerR  MerR family regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.0   2.9   1.2e-16   3.7e-13       1      38 []       3      40 ..       3      40 .. 0.99

  Alignments for each domain:
  == domain 1  score: 49.0 bits;  conditional E-value: 1.2e-16
                             EHHHHHHHHTTTHHHHHHHHHTTSSTSEEETTTSSEEE CS
                     MerR  1 tIgevAeltGvsprtLRyYEreGLipppeRtegGyRlY 38
                             tI+e+ +lt ++prtLR+YE+ GLi p++R ++GyR+Y
  PHY93_13175|PHY93_13175  3 TISEIGKLTELTPRTLRHYEEVGLITPSRRGSNGYRYY 40
                             8************************************9 PP

>> DNA_pol3_alpha  Bacterial DNA polymerase III alpha NTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.1      0.67     2e+03     158     199 ..      64     100 ..      39     117 .. 0.45
   2 !   32.3   0.0   2.5e-11   7.5e-08      10     132 ..     135     255 ..     126     260 .. 0.79

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 0.67
                              HHHHHHTS---SS--GGGG-----SHHHHHHH-HHHHHHHHH CS
           DNA_pol3_alpha 158 vdklaklipkelgitlekaleeekelkelieedeevkrlvel 199
                              ++++ +   +el    e++l++ k  ++l++ +eev+rl++ 
  PHY93_13175|PHY93_13175  64 INSFLNFKGSEL----EEILNT-KLNAKLQSIEEEVQRLTKS 100
                              333333333332....222222.2222222222333333222 PP

  == domain 2  score: 32.3 bits;  conditional E-value: 2.5e-11
                              HHHHHS..TT---TTHHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHHTT--B-S--GGGGG-HHHHHTTS----HHHHT--HHHH CS
           DNA_pol3_alpha  10 glkerl..keelpeevkerlekElevIekmgfadyflivadlvkaakkkgilvGpgRGSaagslvayllgiTeidPlkydllFerF 93 
                              ++ e+l  k++++++  + l++E  + +  +  ++f ++++  k+a+++gi +G+ RG a + l  y+lg ++ dP k++l  erF
  PHY93_13175|PHY93_13175 135 EVLEQLkkKRPVNHDDLKYLKREDILFDTAEKREFFEVLKKCLKFANEEGIKLGSTRGTAPALLSLYALGWSDFDPSKFNLSPERF 220
                              44444422344777888888889888889999999*********************************************988888 PP

                              S-TTS-------..EEEEGGGHHHHHHHHHHHH-TTTEEEE CS
           DNA_pol3_alpha  94 lnpervsmPDiD..idfekerreevidyvkekyGkenvaqi 132
                              +      m D+D  id+e ++ ++ idy++++ ++ ++ +i
  PHY93_13175|PHY93_13175 221 V------MTDFDlhIDVEFKNGKKFIDYCRKLTSNLKIGRI 255
                              7......5555533688888889999999987666665555 PP

>> MerR-DNA-bind  MerR, DNA binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.6   0.0   4.5e-09   1.3e-05       7      62 ..      51     104 ..      45     106 .. 0.88

  Alignments for each domain:
  == domain 1  score: 25.6 bits;  conditional E-value: 4.5e-09
                              HHHHHHTT--HHHHHHHHHHHHSTTTBHHHHH.HHHHHHHHHHHHHHHHHHHHHHHH CS
            MerR-DNA-bind   7 IrrarrlGFsLdeIrelLalyddrappcqdvr.allarklaeleeriaeLqalraeL 62 
                              I++++  +FsL+eI ++L++   ++++ ++ + + l +kl+++ee  ++L++ + e 
  PHY93_13175|PHY93_13175  51 IKKYKIMDFSLEEINSFLNF---KGSELEEILnTKLNAKLQSIEEEVQRLTKSKNEV 104
                              99******************...7777888777******************998875 PP

>> Syntaxin-6_N  Syntaxin 6, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   1.3   6.6e-07     0.002      42      95 ..      79     136 ..      44     139 .. 0.84

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 6.6e-07
             Syntaxin-6_N  42 trteLrkalrsiewdledLeetvriveknp...sk.fkidekelsrrrafveevreev 95 
                              ++t+L+++l+sie++++ L ++ + ve +    ++ fk ++ el++rr+fve +++ev
  PHY93_13175|PHY93_13175  79 LNTKLNAKLQSIEEEVQRLTKSKNEVETQLfatKNfFKGQPLELNQRRSFVEVIKSEV 136
                              6899**********************9944442447********************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (514 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1390  (0.077528); expected 358.6 (0.02)
Passed bias filter:                      727  (0.0405488); expected 358.6 (0.02)
Passed Vit filter:                        83  (0.00462937); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.73u 0.28s 00:00:01.01 Elapsed: 00:00:00.47
# Mc/sec: 3274.08
//
Query:       PHY93_13180|PHY93_13180  [L=543]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      8e-20   71.4   0.1    1.7e-19   70.4   0.1    1.5  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    5.7e-06   26.2   0.0    1.4e-05   24.9   0.0    1.7  1  HATPase_c_5  GHKL domain
    7.7e-05   22.7   0.1    0.00075   19.5   0.0    2.7  3  HisKA        His Kinase A (phospho-acceptor) domain
     0.0027   17.6   0.0     0.0064   16.3   0.0    1.7  1  HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like
  ------ inclusion threshold ------
      0.043   13.8   0.6        1.6    8.9   0.9    2.4  2  Pox_I5       Poxvirus protein I5
       0.18   12.1   1.3         27    5.1   0.0    2.8  2  DUF2524      Protein of unknown function (DUF2524)
       0.95    9.6   5.4       0.91    9.6   0.3    2.5  2  MpPF26       M penetrans paralogue family 26


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.4   0.1   6.5e-23   1.7e-19       4     109 ..     432     539 ..     430     542 .. 0.89

  Alignments for each domain:
  == domain 1  score: 70.4 bits;  conditional E-value: 6.5e-23
                              HHHHHHHHHHHHHHHHHHSTTTEEEEEEEE....EE..TEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHH CS
                HATPase_c   4 krLrqiisnlvdNavkfatkageieveika....se..ddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkk 83 
                              + L+q+++n+v Na+++  + +e +++i +    +e  +++vi+++D+G Gi ke lk++f++f++   tk +g+gtGlGlsi+ k
  PHY93_13180|PHY93_13180 432 IELEQVLINIVNNAIDAIEPLSERWIKILPalveKEgeQWIVIRITDSGTGIKKEVLKNMFDSFYT---TKPSGKGTGLGLSISLK 514
                              679*************96688888999997776522568***************************...9**************** PP

                              HHHHTTTEEEEEEETTTEEEEEEEEE CS
                HATPase_c  84 lvelmgGeiwvesepgrGttftftlp 109
                              ++e ++G+i++ +e  + t+f++++p
  PHY93_13180|PHY93_13180 515 IIENHRGKIYY-DEHSEHTSFVVEIP 539
                              ***********.55567999999887 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.9   0.0   5.6e-09   1.4e-05       4      93 ..     432     531 ..     429     539 .. 0.73

  Alignments for each domain:
  == domain 1  score: 24.9 bits;  conditional E-value: 5.6e-09
              HATPase_c_5   4 ldlcvilgnlLdNAieacskieeekrfIrl...tvrekk.ksliisieNsyeg...ek.....kklesskskkeehGiGlksirei 77 
                              ++l  +l n+ +NAi+a + ++  +r I++    v+++  + ++i+i+ s +g   e      +++ ++k +++  G+Gl+   +i
  PHY93_13180|PHY93_13180 432 IELEQVLINIVNNAIDAIEPLS--ERWIKIlpaLVEKEGeQWIVIRITDSGTGikkEVlknmfDSFYTTKPSGKGTGLGLSISLKI 515
                              578899****************..566665221344333356999999997775442244455667799***************** PP

              HATPase_c_5  78 vkkykgnlsieaedgl 93 
                              ++++ g++ ++ +++ 
  PHY93_13180|PHY93_13180 516 IENHRGKIYYDEHSEH 531
                              *******999887653 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0       2.5   6.4e+03      18      29 ..     159     170 ..     158     189 .. 0.61
   2 ?   -0.9   0.0       0.7   1.8e+03      18      40 ..     284     303 ..     283     313 .. 0.76
   3 !   19.5   0.0   2.9e-07   0.00075       3      59 ..     320     380 ..     318     388 .. 0.73

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 2.5
                              HHHHHHHHHHHC CS
                    HisKA  18 sailgnaeaLkr 29 
                               +il+na+  ++
  PHY93_13180|PHY93_13180 159 YSILANAHEGEE 170
                              578999998766 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.7
                              HHHHHHHHHHHC..T-HSSCHHH CS
                    HisKA  18 sailgnaeaLkregklteelkey 40 
                              s+  +++++Lk+    +e+lk+y
  PHY93_13180|PHY93_13180 284 SGFFLFVKILKD---QREMLKRY 303
                              556678999999...68888887 PP

  == domain 3  score: 19.5 bits;  conditional E-value: 2.9e-07
                              HHHHHHHHHHHHHHHHHHHHHHHHHHC........T-HSSCHHHHHHHHHHHHHHHHHHHHHH CS
                    HisKA   3 grflagvaHELrtPLsailgnaeaLkre......gklteelkeyletiesearrldhlvedlL 59 
                              g++++++aHE ++PL+ i + a+  ++       +k  e+    l +i + + r++++ + + 
  PHY93_13180|PHY93_13180 320 GQLASSIAHEVKNPLTIIDFEASSVRKNlnseqfDK--ERAFSRLTKISEMSARINKISNLIT 380
                              89**********************988555443322..4444488888888888888877665 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0   2.5e-06    0.0064       2      60 ..     433     499 ..     432     516 .. 0.73

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 2.5e-06
              HATPase_c_3   2 slekAlaelvdNsldAdaen....vkie...vnknrgktgeivieDdGkGmseeelknalr.latss 60 
                              +le++l+ +v+N++dA        +ki    v+k+ ++   i+i+D G+G+++e lkn++  + t++
  PHY93_13180|PHY93_13180 433 ELEQVLINIVNNAIDAIEPLserwIKILpalVEKEGEQWIVIRITDSGTGIKKEVLKNMFDsFYTTK 499
                              7799***********96544566788852213344455599*****************996244444 PP

>> Pox_I5  Poxvirus protein I5
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   0.9   0.00061       1.6      38      71 ..       5      38 ..       1      40 [. 0.89
   2 ?    2.1   0.0     0.081   2.1e+02      15      46 ..     277     308 ..     264     323 .. 0.79

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.00061
                   Pox_I5 38 tlrsatanrvvrvlelvailifiPGtiiLYaaYv 71
                             t++ + a++v++ + lv +++ iP    LY++++
  PHY93_13180|PHY93_13180  5 TTSFISAKKVITSFSLVCLVLSIPIFYLLYVSFI 38
                             6778899*****************9999999987 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.081
                   Pox_I5  15 LmllmvisggalvvkeiaPyrlltlrsatanr 46 
                                l+ +isg+ l vk ++ +r +  r+   n+
  PHY93_13180|PHY93_13180 277 FWLFGIISGFFLFVKILKDQREMLKRYSYQNK 308
                              568889************99888888877666 PP

>> DUF2524  Protein of unknown function (DUF2524)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   0.0     0.011        27      40      73 ..     174     207 ..     163     210 .. 0.86
   2 ?    4.6   0.2     0.015        39      62      80 ..     294     312 ..     289     315 .. 0.91

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.011
                  DUF2524  40 teAqlkLEeavneLeklaksandqQreqLeRarl 73 
                              ++ + +L  ++ e++  +k+a ++ +e+L+R r 
  PHY93_13180|PHY93_13180 174 KKSLRELRSVFSEIDYSLKTAVAENKERLYRTRY 207
                              56778899999********************996 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.015
                  DUF2524  62 dqQreqLeRarlqlqqLqn 80 
                              ++Qre L+R   q +qL++
  PHY93_13180|PHY93_13180 294 KDQREMLKRYSYQNKQLEE 312
                              69***************86 PP

>> MpPF26  M penetrans paralogue family 26
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.8      0.13   3.2e+02       7      34 ..      14      41 ..       6      70 .. 0.71
   2 ?    9.6   0.3   0.00035      0.91      96     130 .]     260     294 ..     256     294 .. 0.89

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.13
                   MpPF26  7 kikklsltiiilyllatvlllvsllayi 34
                              i   sl+ ++l ++ + ll vs+++y 
  PHY93_13180|PHY93_13180 14 VITSFSLVCLVLSIPIFYLLYVSFIDYE 41
                             4666777888888888888888888775 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 0.00035
                   MpPF26  96 fkkvklhtvLliigifilpifsiidcfilvskikk 130
                               +k++ h+ + ++g++ +++f+ii+ f+l +ki k
  PHY93_13180|PHY93_13180 260 NQKLQQHKNFILMGTLGFWLFGIISGFFLFVKILK 294
                              477888**********99**************965 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (543 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       736  (0.0410508); expected 358.6 (0.02)
Passed bias filter:                      441  (0.024597); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.65u 0.25s 00:00:00.90 Elapsed: 00:00:00.44
# Mc/sec: 3713.57
//
Query:       PHY93_13185|PHY93_13185  [L=264]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.9e-46  157.3   0.2    5.7e-46  156.8   0.2    1.2  1  DUF3494          Protein of unknown function (DUF3494)
  ------ inclusion threshold ------
      0.048   13.5   0.0      0.076   12.8   0.0    1.2  1  Pectate_lyase_3  Pectate lyase superfamily protein


Domain annotation for each model (and alignments):
>> DUF3494  Protein of unknown function (DUF3494)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  156.8   0.2   6.3e-50   5.7e-46       1     209 []      63     262 ..      63     262 .. 0.91

  Alignments for each domain:
  == domain 1  score: 156.8 bits;  conditional E-value: 6.3e-50
                              EEESSEEE-TT-EEESSEEEESSS-.GGEES--B-STTBTTEES--.......EE-TT--HH...HHHHHHHHHHHHHHHHHSSS- CS
                  DUF3494   1 ilaksgvtntGstvitGdiGvspas.taitGfadelatgtestsglvltG..kvyaadaaaatpatltqAvadletAynalagrsl 83 
                              i+a +++t+++++ i+G++G++p++ + i+  +          s++v  G  +vya+d    ++  l+ A++dl +Ay ++ +r++
  PHY93_13185|PHY93_13185  63 IMAYTSITSAPTSNISGKVGLKPGTrSLINLNP----------STEVAGGliEVYAGDDIGDPADYLNIAREDLIAAYRDAVARPT 138
                              67899*******************977776666..........33443333379******99999*******************88 PP

                              TT.-EEE--SB-TTEEEESEEEEESS-EEE-SS-EEEE-TT-TT--EEEEESS-EEE-TT--EEEETT--GGGEEEEESS-EEE-T CS
                  DUF3494  84 pd.itelgagelggrtLapGvYkstsavtittgdltLDaqGdanavwiFqiagtLtvasgssvvLinGAqaknvfWqvggsatlgt 168
                              ++   e  +g  gg++L pG+Y+++ ++ti ++d+tL  +G+ ++v+iFqi+g++ va + ++vL +GA+aknvfWqv+g++tl+ 
  PHY93_13185|PHY93_13185 139 DRdKVEAYKGMPGGKILPPGIYRWSNGATI-SSDVTL--EGNDTDVFIFQITGDMIVAPKVRIVLSGGARAKNVFWQVSGKVTLES 221
                              774445555999******************.66****..*********************************************** PP

                              T-EEEEEEEESS-EEE-TT-EEEEEEEESSSEEEESS-EEE CS
                  DUF3494 169 gstfeGtilaqtsitlstgatvnGrllaqtgaVtLdnntit 209
                              +s + Gti++q   ++++ a++nGr+l ++g++ L +n+it
  PHY93_13185|PHY93_13185 222 TSVVPGTIMSQLTFEMKSLAQLNGRALVKNGKLLLSQNVIT 262
                              **************************************996 PP

>> Pectate_lyase_3  Pectate lyase superfamily protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   8.5e-06     0.076      39     117 ..     155     228 ..     153     251 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 8.5e-06
                              E-SEEEEESS-EEE-SSEEEEES-TTTEEEEE-TT-SS--SEEES-TT..T-..-EEEEEEEEEEEGGGG-SS---SSEEE CS
          Pectate_lyase_3  39 fPaGtYlvsspiilksgvqLvGdgngrpvlkaaaafvgaglidgdpyv..sggsealiatnnfyrqirnlkiditavapga 117
                              +P+G Y+ s++  + s v+L G+ +++++ + ++++    ++  +     sg   +  a+n+f++   ++++ +t+v pg+
  PHY93_13185|PHY93_13185 155 LPPGIYRWSNGATISSDVTLEGNDTDVFIFQITGDM----IVAPKVRIvlSG---GARAKNVFWQVSGKVTLESTSVVPGT 228
                              7*****************************997755....333222222344...44778888888888888888886665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (264 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       376  (0.0209716); expected 358.6 (0.02)
Passed bias filter:                      337  (0.0187964); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.25s 00:00:00.79 Elapsed: 00:00:00.46
# Mc/sec: 1736.42
//
Query:       PHY93_13190|PHY93_13190  [L=153]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.055   14.0   0.6      0.081   13.5   0.6    1.4  1  ETM       ECORI-T site


Domain annotation for each model (and alignments):
>> ETM  ECORI-T site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.6   4.5e-06     0.081      23      72 ..      49     102 ..      25     132 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 4.5e-06
                      ETM  23 eydncstsftfdcahdnrkvncleivglrrneyvcmgkiin....gdkiicvhe 72 
                               +dn +  +   +++d  k+ cl+++g +  e   m k +n      k+ c+h+
  PHY93_13190|PHY93_13190  49 YFDNRALGICAAVTFDSNKISCLNVIGDKAYEEYEMDKCVNetfeSKKLDCLHK 102
                              57899999999999**************99887777777762222578889887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (153 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       479  (0.0267165); expected 358.6 (0.02)
Passed bias filter:                      340  (0.0189637); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 1038.70
//
Query:       PHY93_13195|PHY93_13195  [L=179]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.2e-05   24.1   0.0    4.6e-05   23.0   0.0    1.7  1  SLT       Transglycosylase SLT domain
  ------ inclusion threshold ------
       0.04   13.2   0.0      0.044   13.0   0.0    1.2  1  SLT_2     Transglycosylase SLT domain


Domain annotation for each model (and alignments):
>> SLT  Transglycosylase SLT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.0   0.0   5.2e-09   4.6e-05       5      52 ..      62     109 ..      58     156 .. 0.85

  Alignments for each domain:
  == domain 1  score: 23.0 bits;  conditional E-value: 5.2e-09
                              HHHHHHTS-HHHHHHHHHHHHTT-TT-B-TTSEBTTTTBETTTHHHHH CS
                      SLT   5 kaekkygvepsllaaiaqvESgfnpkAvsksgavGLmQimpstakrlg 52 
                              k ++ky+++p+l+ ai+ +ES f  + vs +g++ L Qi+ +  ++  
  PHY93_13195|PHY93_13195  62 KTTRKYKLDPKLMIAIIGTESDFINEKVSTTGDLSLAQINTEVWNKEF 109
                              67899***********************************87666654 PP

>> SLT_2  Transglycosylase SLT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   4.9e-06     0.044      66     109 ..      49      92 ..       3     150 .. 0.66

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 4.9e-06
                    SLT_2  66 GraflkehaallariekeyGVpaeiivAiwgvEtryGkntgkfr 109
                                ++ ++ a+ l +  ++y  ++++++Ai+g E+++ +++ ++ 
  PHY93_13195|PHY93_13195  49 NEKAKSRIAKSLYKTTRKYKLDPKLMIAIIGTESDFINEKVSTT 92 
                              344455667889999*********************77666554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (179 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       692  (0.0385967); expected 358.6 (0.02)
Passed bias filter:                      341  (0.0190195); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.44
# Mc/sec: 1211.34
//
Query:       PHY93_13200|PHY93_13200  [L=341]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.6e-05   24.4   0.5       0.07   12.5   0.1    2.7  3  Arylsulfotran_2  Arylsulfotransferase (ASST)
    1.7e-05   23.9   1.4    0.00031   19.8   0.1    2.4  2  Arylsulfotrans   Arylsulfotransferase (ASST)


Domain annotation for each model (and alignments):
>> Arylsulfotran_2  Arylsulfotransferase (ASST)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.3   0.0   7.1e-05      0.64     100     178 ..     119     216 ..      71     220 .. 0.77
   2 ?    1.7   0.0     0.015   1.3e+02     266     294 ..     233     260 ..     231     267 .. 0.63
   3 !   12.5   0.1   7.9e-06      0.07     233     292 ..     247     307 ..     243     313 .. 0.84

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 7.1e-05
          Arylsulfotran_2 100 eidietnevlfrwSalehvdeiple....eskaplgdfgrdeskpedyfHlNsv...............ekfedgdyLiSlrelss 166
                              +i+   +  + rw   eh+de + +     +++++   + de++p++ f +++                 ++++g++L+ ++ l s
  PHY93_13200|PHY93_13200 119 NISDRDGVLIERWDLFEHLDELNQKlgvgPFEKAIPAKRSDENFPDNKFVFSNLnaiyeipkndlekkfSYMKEGNLLVTFNGLGS 204
                              44445588899***********99966663335555556677777777655444444999************************** PP

          Arylsulfotran_2 167 lflirpkegkvl 178
                              ++++ p+ +k+ 
  PHY93_13200|PHY93_13200 205 VVVFDPELKKIE 216
                              ******999986 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.015
          Arylsulfotran_2 266 qllpnghvlveegsigrveeydan.gkivl 294
                              q+lpngh+l+  ++++ + e+d++ +k v+
  PHY93_13200|PHY93_13200 233 QILPNGHLLL--FKNASIHEVDMQeDKTVW 260
                              6777777776..456667777654134444 PP

  == domain 3  score: 12.5 bits;  conditional E-value: 7.9e-06
          Arylsulfotran_2 233 lildvdlqnkevtllrklkdaedeissvsqGsyqllpnghvlveeg..sigrveeydangki 292
                               i +vd+q+ ++    +lk  +  is +  G +qll+n++ l+++   +igr +e++ +g+i
  PHY93_13200|PHY93_13200 247 SIHEVDMQEDKTVWSFDLK-GAGIISNPEGGAVQLLSNNNFLITDNsnNIGRMLEVNRKGEI 307
                              5778999999999999999.77788889999************9862268********9998 PP

>> Arylsulfotrans  Arylsulfotransferase (ASST)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.8   0.1   3.5e-08   0.00031      73     153 ..      62     144 ..      38     183 .. 0.75
   2 !    2.7   0.1    0.0053        48      57     153 ..     236     323 ..     228     337 .. 0.63

  Alignments for each domain:
  == domain 1  score: 19.8 bits;  conditional E-value: 3.5e-08
           Arylsulfotrans  73 dllGrvikeyrlpggy.....idlhHdivelpngnllvlvaeenykrkdgkkvktveDtiievdktGkvvkewdlakiLdpyrdal 153
                              +++G+vi  ++ ++++        hH+i   ++++ +   +  ++  ++ k+++t  D+i   d++G +++ wdl+++Ld+ +++l
  PHY93_13200|PHY93_13200  62 SITGKVIDLHSKTNQLrvhfpQMGHHEIRLSKDEKKIFFLS--SD-IREFKGKNTRFDVINISDRDGVLIERWDLFEHLDELNQKL 144
                              67778766655555555555445588888888766655555..23.334788888888888888****************998744 PP

  == domain 2  score: 2.7 bits;  conditional E-value: 0.0053
           Arylsulfotrans  57 kngkllilsgqklaefdllGr.vikeyrlpggyidlhHdivelpngnllvlvaeenykrkdgkkvktveDtiievdktGkvvkewd 141
                               ng+ll+ ++ ++ e+d+    ++ + +l+g+       i+  p+g  + l +++n     +++++ ++  ++ev+++G+++k + 
  PHY93_13200|PHY93_13200 236 PNGHLLLFKNASIHEVDMQEDkTVWSFDLKGAG------IISNPEGGAVQLLSNNNFLI--TDNSNNIG-RMLEVNRKGEILK-IH 311
                              566666666666666666543245556666644......55555555555555555544..34444443.6899999999986.78 PP

           Arylsulfotrans 142 lakiLdpyrdal 153
                              l++iLd + ++ 
  PHY93_13200|PHY93_13200 312 LNDILDSRTKKP 323
                              999999887754 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (341 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       426  (0.0237604); expected 358.6 (0.02)
Passed bias filter:                      331  (0.0184617); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.44
# Mc/sec: 2311.83
//
Query:       PHY93_16995|PHY93_16995  [L=408]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.1e-30  106.8  44.7      2e-29  102.6  30.8    2.0  2  MFS_1           Major Facilitator Superfamily
    8.1e-17   60.9  20.6      3e-16   59.0  10.7    3.6  3  Acatn           Acetyl-coenzyme A transporter 1
  ------ inclusion threshold ------
        0.1   12.6   0.1       0.47   10.5   0.1    2.0  2  TMEM213         TMEM213 family
       0.54    9.2  24.8     0.0066   15.5   9.0    2.6  3  PUCC            PUCC protein
          2    8.8  12.3       0.18   12.0   4.3    3.2  3  Transgly_assoc  Transglycosylase associated protein


Domain annotation for each model (and alignments):
>> MFS_1  Major Facilitator Superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  102.6  30.8   5.7e-33     2e-29       1     348 [.      16     361 ..      16     366 .. 0.82
   2 !   18.0   5.9   3.1e-07    0.0011      83     167 ..     311     395 ..     309     403 .. 0.94

  Alignments for each domain:
  == domain 1  score: 102.6 bits;  conditional E-value: 5.7e-33
                    MFS_1   1 lllaaflsalarsilgpalplalaedlgispseigllltlyalgaavaslplGrlsdrf.....Grrr.vlllglllfalglllll 80 
                              +l+++f s+l  ++++ +l  +++++ +i+  +igl ++l++l    + +++++++dr+     Grrr +++l+ +++++++++l 
  PHY93_16995|PHY93_16995  16 ILILGFTSGLPLGLTAGTLQAWMKTE-NIDIGTIGL-FSLVGL-PYTLKFIWSPIMDRYvppllGRRRgWIFLTQIGLIITITALG 98 
                              5789999999*********9888888.99****997.888887.5678*********9999999*****************88888 PP

                    MFS_1  81 fa..sslw.lllvlrvlqGlgagalfpagaaliadwfpkeergraigllsagfslGailgpllggllasslgWravfyilaivsll 163
                              f+     + +++++ v  ++++++   a+ a+  ++  ++e g + ++  +g+ +++i+  +l+ +l++++ W++v++i+a+ +l+
  PHY93_16995|PHY93_16995  99 FSdpKVTPqYMAFFAVCVAFFSASQDIAIDAYRIEVLDENELGAGASINVMGYRIAMIVSSALALILSDHIPWSSVYLIMAACMLV 184
                              9776446679**************************************************************************** PP

                    MFS_1 164 afvlfllllpeepperkrkspkeeekgtgpaplvpawkallkdpvlw...illialllfffgfsglltllplylqevlgls....g 242
                              + v+  + ++ ++p++   +pk++     +a  +p +++++++       +l+++l++   + +++  ++p+  +++lg++    g
  PHY93_16995|PHY93_16995 185 G-VF--ASIFGPEPKETEAAPKTL----REAVYKP-FTEFFSRA--GsieVLIFILIYKLDVAFAMALTTPF--MMDLGFTktdiG 258
                              9.43..555556666666666677....6677777.88888888..22233555555554344445555555..9******76665 PP

                    MFS_1 243 lllaglllallalvgailallagrlsdrlgrrrrlllallllllaalglallavtssavllllvlvliGf.glgfvfpsllalasd 327
                              ++l g  +++++ +g  +al++g+l+ ++g ++ l++++++ +l+ +++++la   ++  +++  v++   ++g+++++++a++++
  PHY93_16995|PHY93_16995 259 AVLKG--VGMFSTIG--GALMGGALLSKWGIKKSLWIFGIIQALSGFSFFMLAKLGHNYPMMVTAVCVENiCSGLATAAFTAFMMN 340
                              45555..44444444..577****************************99999995555555555555555*************** PP

                    MFS_1 328 lappeeagtasglfntagslg 348
                              l+ +++++t+++l +++ ++ 
  PHY93_16995|PHY93_16995 341 LCDKRYTATQFALLTSFMAFT 361
                              *************99887765 PP

  == domain 2  score: 18.0 bits;  conditional E-value: 3.1e-07
                    MFS_1  83 sslwlllvlrvlqGlgagalfpagaaliadwfpkeergraigllsagfslGailgpllggllasslgWravfyilaivsllafvl 167
                              +++++++ + ++  +++g++++a  a++  +  k+  +  ++ll++++++   l    +g+++ slgW+  f++  ++s+ +++l
  PHY93_16995|PHY93_16995 311 HNYPMMVTAVCVENICSGLATAAFTAFMMNLCDKRYTATQFALLTSFMAFTRTLVQTPSGFIMKSLGWEMYFIVSILISIPGLML 395
                              7999****************************************************************************99664 PP

>> Acatn  Acetyl-coenzyme A transporter 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.0  10.7   8.4e-20     3e-16       2     179 ..      13     167 ..      12     178 .. 0.85
   2 ?   -0.1   0.0     0.069   2.5e+02     269     320 ..     208     259 ..     194     289 .. 0.78
   3 ?   -1.4   0.4      0.17     6e+02     408     458 ..     313     362 ..     290     386 .. 0.73

  Alignments for each domain:
  == domain 1  score: 59.0 bits;  conditional E-value: 8.4e-20
                    Acatn   2 fylLvvLyllqGiPvGLafgtiPflLkslaketsftelgvfslatyPyslkilWsPivDslyskkiGrrrsWiiPvqlvsgilllv 87 
                              ++++++L +  G+P+GL+ gt+   +k+  +++   ++g+fsl+ +Py+lk +WsPi+D      +Grrr Wi  +q+   i + +
  PHY93_16995|PHY93_16995  13 MFIILILGFTSGLPLGLTAGTLQAWMKT--ENIDIGTIGLFSLVGLPYTLKFIWSPIMDRYVPPLLGRRRGWIFLTQIGLIITITA 96 
                              6888999********************9..89999***************************************999855444444 PP

                    Acatn  88 lglaiskglifegvddafhgeasekvlkvnilsLtlvflvLvllcatqDiavDgWaltiLskkslsyastaqtvGlnlGyflsftv 173
                              lg   s+ ++                   +   ++++ +++ ++ a qDia+D++ +++L ++ l+  +  +++G  +  ++s ++
  PHY93_16995|PHY93_16995  97 LG--FSDPKVT----------------PQY---MAFFAVCVAFFSASQDIAIDAYRIEVLDENELGAGASINVMGYRIAMIVSSAL 161
                              44..3333322................222...334444567999*************************************9998 PP

                    Acatn 174 flslns 179
                               l l++
  PHY93_16995|PHY93_16995 162 ALILSD 167
                              888875 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.069
                    Acatn 269 svyrllikvlkL.ksvrllalihlisklafqcneaatnlkLLekGlkreDlav 320
                              +vy+ +++ +    s+++l++i li kl  + + a t+  +++ G+++ D+  
  PHY93_16995|PHY93_16995 208 AVYKPFTEFFSRaGSIEVLIFI-LIYKLDVAFAMALTTPFMMDLGFTKTDIGA 259
                              6888888887541567777666.78999999999999999*********9954 PP

  == domain 3  score: -1.4 bits;  conditional E-value: 0.17
                    Acatn 408 yfllviiqhllgsflstvqfvgisafhtriaDpvlgGtymtllntlsnlGg 458
                              y ++ ++   + ++ s +   +++af  +++D  ++ t ++ll  +  +  
  PHY93_16995|PHY93_16995 313 YPMM-VTAVCVENICSGLATAAFTAFMMNLCDKRYTATQFALLTSFMAFTR 362
                              4443.3344455566666667788999999999999999999988777665 PP

>> TMEM213  TMEM213 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       1.2   4.2e+03      49      79 .]     169     200 ..     166     200 .. 0.70
   2 ?   10.5   0.1   0.00013      0.47      42      70 ..     369     397 ..     363     403 .. 0.91

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 1.2
                  TMEM213  49 vGWslwfltl.illcvgklvkltpdepkdlqa 79 
                              + Ws  +l +   + vg +  +   epk+++a
  PHY93_16995|PHY93_16995 169 IPWSSVYLIMaACMLVGVFASIFGPEPKETEA 200
                              56876665541467789899999999998765 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 0.00013
                  TMEM213  42 yGWiaaavGWslwfltlillcvgklvklt 70 
                               G+i  ++GW ++f+  il+ +  l+ lt
  PHY93_16995|PHY93_16995 369 SGFIMKSLGWEMYFIVSILISIPGLMLLT 397
                              69999*****************9999987 PP

>> PUCC  PUCC protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.4       1.1   3.9e+03     307     328 ..      16      40 ..       9      50 .. 0.75
   2 ?    5.1   1.4    0.0026       9.4     277     318 ..     149     192 ..     139     195 .. 0.81
   3 ?   15.5   9.0   1.8e-06    0.0066     197     336 ..     210     349 ..     193     366 .. 0.80

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 1.1
                     PUCC 307 vlllGlasGl...favaaltlmldl 328
                              +l+lG++sGl   +++++l + +++
  PHY93_16995|PHY93_16995  16 ILILGFTSGLplgLTAGTLQAWMKT 40 
                              5788999988666688888888876 PP

  == domain 2  score: 5.1 bits;  conditional E-value: 0.0026
                     PUCC 277 aslgvllgllsflllilaall..envallvagvlllGlasGlfa 318
                               ++ +++++ s+l+lil+  +  ++v l++a+ +l+G+++ +f+
  PHY93_16995|PHY93_16995 149 MGYRIAMIVSSALALILSDHIpwSSVYLIMAACMLVGVFASIFG 192
                              456688999999****99876225699*************9997 PP

  == domain 3  score: 15.5 bits;  conditional E-value: 1.8e-06
                     PUCC 197 leawlklvaekqalaflaflllgtlaffmqdviLEpYgGevlgLtvgeT.TkLtalfalGtlvGlllaglvlsrglkkarlaslgv 281
                               + ++++ ++   + +l+f+l++ l   ++ ++  p+  + lg+t ++    L ++  + t+ G l++g +ls+   k++l  +g+
  PHY93_16995|PHY93_16995 210 YKPFTEFFSRAGSIEVLIFILIYKLDVAFAMALTTPFMMD-LGFTKTDIgAVLKGVGMFSTIGGALMGGALLSKWGIKKSLWIFGI 294
                              4556677788888888888888888888888888888533.444444432456666667788899999*****988899******* PP

                     PUCC 282 llgllsflllilaallenvallvagvlllGlasGlfavaaltlmldlaaeeragl 336
                              + +l +f++ +la l +n  ++v++v++  + sGl+++a ++ m++l  +  +++
  PHY93_16995|PHY93_16995 295 IQALSGFSFFMLAKLGHNYPMMVTAVCVENICSGLATAAFTAFMMNLCDKRYTAT 349
                              ***********************************************98877665 PP

>> Transgly_assoc  Transglycosylase associated protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.6   0.0       3.9   1.4e+04      22      36 ..      40      55 ..      34      55 .. 0.69
   2 ?   12.0   4.3   5.2e-05      0.18       5      34 ..     270     298 ..     270     300 .. 0.93
   3 ?    0.1   0.2      0.27   9.7e+02      12      34 ..     370     390 ..     369     392 .. 0.71

  Alignments for each domain:
  == domain 1  score: -3.6 bits;  conditional E-value: 3.9
           Transgly_assoc 22 vgggelasl.ivaiiG 36
                             ++ ++++++ +++++G
  PHY93_16995|PHY93_16995 40 TENIDIGTIgLFSLVG 55
                             5667788888888887 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 5.2e-05
           Transgly_assoc   5 ivGAfvGgfllgllgigvgggelaslivai 34 
                              i GA+ Gg+ll+++gi  ++ ++ ++i a+
  PHY93_16995|PHY93_16995 270 IGGALMGGALLSKWGI-KKSLWIFGIIQAL 298
                              78**************.**********997 PP

  == domain 3  score: 0.1 bits;  conditional E-value: 0.27
           Transgly_assoc  12 gfllgllgigvgggelaslivai 34 
                              gf++ +lg+  +  ++ s++++i
  PHY93_16995|PHY93_16995 370 GFIMKSLGW--EMYFIVSILISI 390
                              799999999..666666666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (408 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       778  (0.0433934); expected 358.6 (0.02)
Passed bias filter:                      330  (0.0184059); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.65u 0.28s 00:00:00.93 Elapsed: 00:00:00.47
# Mc/sec: 2588.19
//
Query:       PHY93_13205|PHY93_13205  [L=264]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.1e-42  144.1   0.1    3.8e-23   81.9   0.0    2.0  2  DAP_epimerase  Diaminopimelate epimerase


Domain annotation for each model (and alignments):
>> DAP_epimerase  Diaminopimelate epimerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   81.9   0.0   2.1e-27   3.8e-23       1     104 [.       8     112 ..       8     125 .. 0.92
   2 !   60.5   0.0   9.3e-21   1.7e-16       2     120 ..     145     260 ..     144     261 .. 0.94

  Alignments for each domain:
  == domain 1  score: 81.9 bits;  conditional E-value: 2.1e-27
                              EEEECSSEEEEEEECCTTCSSHHH.HHHHHHHHTTTTSTT-SEEEEEEEEETTEEEEEEEETTTEEESTTHCCHHHHHHHHHCTTS CS
            DAP_epimerase   1 fakshGnpndvvvvddveaelvle.aelvaalcdreagpgadgvlfvkpsgeediklryfnrdgseaemCGnGvrvfaaylreggl 85 
                              f+k+ +++nd++v+d++++ +     e  ++lc+ ++g+gadgvl+ ++s ++d+++ry n+dg+e emCGnG r++ a++ +   
  PHY93_13205|PHY93_13205   8 FTKMNATGNDFIVIDNRNQIVSADnREHWKKLCSLKTGIGADGVLLLEKSAKADFRMRYINADGGEVEMCGNGGRAITAFAHDLLE 93 
                              89****************966665699************************************************99999999999 PP

                              -S-SEEEEEETTEEEEEEE CS
            DAP_epimerase  86 etkkevtvetlgGeleiev 104
                               +k+++++et +G  e ++
  PHY93_13205|PHY93_13205  94 PKKNTYQFETMNGIYECSI 112
                              9************988776 PP

  == domain 2  score: 60.5 bits;  conditional E-value: 9.3e-21
                              EEECSSEEEEEEECCTTCSSHHHHHHHHHHHTTTTSTT-SEEEEEEEEETTEEEEE.EEETTTEEESTTHCC.HHHHHHHHHCTTS CS
            DAP_epimerase   2 akshGnpndvvvvddveaelvleaelvaalcdreagpgadgvlfvkpsgeediklr.yfnrdgseaemCGnG.vrvfaaylreggl 85 
                              + ++G+p++v+ v+++ +  v+e   ++++   + +p++ + +f ++ g +++++r y+++++ e+ +CG+G +++++a+++ ++ 
  PHY93_13205|PHY93_13205 145 YMNTGVPHCVFEVENILEYPVFE--HGKSVRYSPIFPKGSNANFFEVIGTKHLRVRtYERGVENETLSCGTGvTAAAIAAAKFYN- 227
                              5799*******************..*******************************77777899********************9. PP

                              -S-SEEEEEETTEEEEEEEECTTSSEEEEEE--EE CS
            DAP_epimerase  86 etkkevtvetlgGeleievkddgekvkvdmGkasl 120
                                 +e+  etlgG l ++ ++d ++ ++  Gk+++
  PHY93_13205|PHY93_13205 228 -WSDEIILETLGGRLAVQFNSDFSE-VYLCGKVEK 260
                              .56********************95.899999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (264 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       454  (0.0253221); expected 358.6 (0.02)
Passed bias filter:                      404  (0.0225333); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.46
# Mc/sec: 1738.01
//
Query:       PHY93_13210|PHY93_13210  [L=422]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.07   13.6   0.1       0.51   10.8   0.1    2.2  2  CBM60     Ca-dependent carbohydrate-binding module xylan-bind


Domain annotation for each model (and alignments):
>> CBM60  Ca-dependent carbohydrate-binding module xylan-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.1   2.8e-05      0.51       2      45 ..     105     145 ..     104     154 .. 0.89
   2 ?   -0.3   0.0     0.082   1.5e+03       2      45 ..     232     272 ..     231     295 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 2.8e-05
                    CBM60   2 ivVrAagdqagdeppefrllvdGqkvgeadvasteaktytftad 45 
                              i++ A+ +q ++   +  l+++Gq +++ +v +++++ ytf +d
  PHY93_13210|PHY93_13210 105 ITIVASTEQGQG---QAFLVLNGQSIESSKVVARQMASYTFRVD 145
                              899999999977...67788*********************987 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.082
                    CBM60   2 ivVrAagdqagdeppefrllvdGqkvgeadvasteaktytftad 45 
                              ++V A+++   +   +  l+++ q++++ +  + +++++tf++ 
  PHY93_13210|PHY93_13210 232 VTVLARSARGMG---QGSLMINNQQASSSQNIGFDSTRLTFELS 272
                              566677666644...57899999999988878888888888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (422 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       577  (0.0321825); expected 358.6 (0.02)
Passed bias filter:                      455  (0.0253779); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.60u 0.27s 00:00:00.87 Elapsed: 00:00:00.45
# Mc/sec: 2787.53
//
Query:       PHY93_13215|PHY93_13215  [L=335]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (335 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       800  (0.0446204); expected 358.6 (0.02)
Passed bias filter:                      501  (0.0279436); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.59u 0.26s 00:00:00.85 Elapsed: 00:00:00.45
# Mc/sec: 2222.43
//
Query:       PHY93_13220|PHY93_13220  [L=129]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-21   76.3   0.5    1.5e-21   75.8   0.5    1.2  1  DUF309    Domain of unknown function (DUF309)


Domain annotation for each model (and alignments):
>> DUF309  Domain of unknown function (DUF309)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   75.8   0.5   8.4e-26   1.5e-21       2      59 .]      13      70 ..      12      70 .. 0.96

  Alignments for each domain:
  == domain 1  score: 75.8 bits;  conditional E-value: 8.4e-26
                   DUF309  2 eeaielfnegeffeaHEvlEelWkeageperkllqglIqlAvAlyhlrrgnvrgakrl 59
                              e+i+lfn+++++e+HE lE++W+e++ p r+++ ++Iq+A+A+ h+r+gn  gak l
  PHY93_13220|PHY93_13220 13 TEGIRLFNAQKYWECHEDLEDHWREEPGPVRNVYWAVIQVAAAMIHYREGNIVGAKGL 70
                             69*************************9***************************975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (129 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       552  (0.0307881); expected 358.6 (0.02)
Passed bias filter:                      485  (0.0270511); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.26s 00:00:00.73 Elapsed: 00:00:00.43
# Mc/sec: 890.95
//
Query:       PHY93_13225|PHY93_13225  [L=380]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.8e-53  182.1   0.0    2.2e-53  181.7   0.0    1.0  1  Aminotran_1_2    Aminotransferase class I and II
    1.6e-08   34.0   0.0    2.5e-08   33.3   0.0    1.2  1  Aminotran_5      Aminotransferase class-V
    1.3e-06   28.0   0.0    1.9e-06   27.4   0.0    1.2  1  DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
    0.00018   20.2   0.0    0.00029   19.5   0.0    1.3  1  Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
     0.0011   17.9   0.1     0.0019   17.2   0.1    1.3  1  Alliinase_C      Allinase


Domain annotation for each model (and alignments):
>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  181.7   0.0   6.1e-57   2.2e-53       2     357 ..      39     361 ..      38     365 .. 0.94

  Alignments for each domain:
  == domain 1  score: 181.7 bits;  conditional E-value: 6.1e-57
                              EEEESSSSSTTSTTSSHHHHHHHHHHHHHHHHHTSTTST-BTTHHHHHHHHHHHHHCTCTTCHTTGGEGEEEESHHHHHHHHHHHH CS
            Aminotran_1_2   2 dvinLgsneylgdsgkptlpevakaekegalaggtlneygpidglpeleealakflgrseklklkreaavvvgsGagaliealifl 87 
                              ++ +L+sne++ +    ++p +++++    +a  ++++y+++  +++l++ la++++      lk+e ++++g+G+  + + ++++
  PHY93_13225|PHY93_13225  39 KISKLASNENPLG----PSPFAIQKMT---NALWDTHRYPDMN-AYALKSSLARLYK------LKKE-NIILGNGSEGIMAYIARA 109
                              5679*********....********95...6************.*************......****.****************** PP

                              HHHTTT-EEEEEESS-THHHHHHHHTTSEEEEEEBEETTTTEE-HHHHHHHHTTHHCTTETEEEEEEESS-TTT--B--HHHHHHH CS
            Aminotran_1_2  88 lklnpgdeilvpdptyasyknilrlsggevvryplyseedfhldlealeealkeapegnkktkvilvesphNPtGtvatleelekl 173
                              + ++pg eil ++ t+  +  i+r  g+ + ++pl+  +d++ d+eal   +++      ktkvi++++p+NPtGt ++++e   l
  PHY93_13225|PHY93_13225 110 F-VQPGHEILTSANTFIGFYIIARSVGANLKTVPLT--PDYRFDVEALASNITK------KTKVIYICNPNNPTGTYINKKEFDYL 186
                              *.9*******************************99..****************......************************** PP

                              HHHHHHTTEEEEEEETTTTCBSSSSHTHHHHGGSTTSTT..EEEEEESSSTTSSGGG-EEEEEEEHHHHHHHHHHHHHHTSSHHHH CS
            Aminotran_1_2 174 ldlakkynlllfvDeaYagfvfgsldavatranveeepn..llivgslsKafGlaGeRvGyilgnaavvsqlrklsrpflsssllq 257
                              ++ + + ++l+++DeaY +f++g++d    ++n +++    +++++++sKa+Gl G+R+Gy +g+++++  l+k++ pf   +++q
  PHY93_13225|PHY93_13225 187 MSYVPS-HVLVILDEAYFEFAMGKED----YPNSMDYRYdnVITLRTFSKAYGLSGIRIGYGFGHEDLIANLTKVKLPFEPGTIAQ 267
                              *****7.9***************888....55555554444*************************************999***** PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSTEEEECCSCSSEEEEEETHHCHHHHHHHHHHTCTEEEEEGGGGTSTTE CS
            Aminotran_1_2 258 aavaaalsdallkqseleemrqrlqkrrkelrdeLaelglkvlasqsgmflltdlsaetakelskkLleevgvyvtpgtsftvpgr 343
                                +a a++d++  ++ + ++++r+++  ++l+++     ++ ++s ++++ +  +s+e+   +++kLl++ gv++++ +  ++p  
  PHY93_13225|PHY93_13225 268 MGAAGAIHDKPHLRRTIINNQRRYIETFDFLTKH----QFNPIKSVANFIAYKTGSEEASRYMFDKLLDH-GVIIRQLKANEMPDY 348
                              ***********99999999999999999999999....6*******************************.*************** PP

                              EEEECTTS-HHHHH CS
            Aminotran_1_2 344 lRitvAglteeele 357
                              +R+++ g+++e++ 
  PHY93_13225|PHY93_13225 349 VRVSL-GTKREMNH 361
                              *****.55555544 PP

>> Aminotran_5  Aminotransferase class-V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.3   0.0     7e-12   2.5e-08      50     175 ..      80     199 ..      72     202 .. 0.77

  Alignments for each domain:
  == domain 1  score: 33.3 bits;  conditional E-value: 7e-12
                              HHHHHHHT-STGGGEEEESSHHHHHHHHHHHCCCC-TTTSEEEEETTSHGGGTHHHHHHHHHHTEEEEEEEBETTSCBEGGGHHHH CS
              Aminotran_5  50 ekvaelinaeseeeiiftsGtteainlvalslarslkpgdeivvteaehhanlvpwqelakrtgakvkvipldeegeldldelekl 135
                              + +a+l++ ++ e+ii   G+   ++ +a+++   ++pg ei+++++   +       +a+  ga++k +pl+++ + d+++l+++
  PHY93_13225|PHY93_13225  80 SSLARLYKLKK-ENIILGNGSEGIMAYIARAF---VQPGHEILTSANTFIGFY----IIARSVGANLKTVPLTPDYRFDVEALASN 157
                              66778888885.66665555444566677777...***********9888877....6777789********************** PP

                              --TTEEEEEEESBETTTTEB--HHHHHHHHHH..TT-EEEEE CS
              Aminotran_5 136 lnektklvaithvsnvtGtiqpveeigklakk..kgalvlvD 175
                              +++ktk+++i+  +n tGt    +e+  l+    +++lv++D
  PHY93_13225|PHY93_13225 158 ITKKTKVIYICNPNNPTGTYINKKEFDYLMSYvpSHVLVILD 199
                              *******************77666665444442225666666 PP

>> DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.4   0.0   5.4e-10   1.9e-06      26     117 ..      76     167 ..      56     173 .. 0.86

  Alignments for each domain:
  == domain 1  score: 27.4 bits;  conditional E-value: 5.4e-10
                              HHHHHHHHHHHT.-SEEEEESSHHHHHHHHHHHTTTTTT-EEEEESSS-THHHHHHHHTT-EEEEE-B-TTTSSB-GGGCGGG--T CS
          DegT_DnrJ_EryC1  26 eeFEkafaaylg.vkhaiavssGtaAlhlaLralgvgpgdeVIvpsltFvatanavlelgakpvfvDvdpdtynidpaaieaaite 110
                               ++ + +a+  + +k  i + +G+++++  +    v+pg e+++ ++tF++    ++ +ga+   v  +  +y  d++a+++ it+
  PHY93_13225|PHY93_13225  76 YALKSSLARLYKlKKENIILGNGSEGIMAYIARAFVQPGHEILTSANTFIGFYIIARSVGANLKTVPLT-PDYRFDVEALASNITK 160
                              5566777777777899999**********************************************9999.579************* PP

                              TEEEEEE CS
          DegT_DnrJ_EryC1 111 rtkaIlp 117
                              +tk I +
  PHY93_13225|PHY93_13225 161 KTKVIYI 167
                              ****976 PP

>> Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.5   0.0   8.2e-08   0.00029      47     155 ..      68     179 ..      54     204 .. 0.79

  Alignments for each domain:
  == domain 1  score: 19.5 bits;  conditional E-value: 8.2e-08
                              TTT--HHHHHHHHHHHHHHT-.SEEEEESSHHHHHHHHH.HTTS-TTEEEEEESTSSHHHHHHHHHTHHHTTCEEEEEST.TSHHH CS
          Cys_Met_Meta_PP  47 sRsgnptrsvleeriaaLegg.eaalavssGmaAiaaai.lallkaGdeivvsddlYggtqrllkkvlkklgievkfvdt.sdlee 129
                               R+   +  +l++++a L++  ++ +++  G   i+a i +a+++ G ei++s + + g + + ++v  +l+      d   d+e+
  PHY93_13225|PHY93_13225  68 HRYPDMNAYALKSSLARLYKLkKENIILGNGSEGIMAYIaRAFVQPGHEILTSANTFIGFYIIARSVGANLKTVPLTPDYrFDVEA 153
                              5777777889999999999984567888888888877662679999*********************99987776666653699** PP

                              HHHHCCTTEEEEEEESS-TTTT---- CS
          Cys_Met_Meta_PP 130 lekaikentklvylEtptnpllkvvD 155
                              l++ i+++tk++y+  p np+   + 
  PHY93_13225|PHY93_13225 154 LASNITKKTKVIYICNPNNPTGTYIN 179
                              ********************976655 PP

>> Alliinase_C  Allinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.1   5.3e-07    0.0019     119     214 ..     145     251 ..      87     257 .. 0.66

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 5.3e-07
                              TTEEEEEESTT-.--S..S-EEEEEESS-TTT--.------......-TT-EEEEEE-TT-.....STTT.S---S-B--SEEEEE CS
              Alliinase_C 119 klykweGdaaayvkkknpeefielvtsPnnPdgl.lreavv......kgseakviyDlayY.....WPhy.tpitskadedimLft 191
                                y+++ +a a  + ++++++i  +  PnnP g+ + ++          s++ vi D ay+       +y   + ++ d+ i L t
  PHY93_13225|PHY93_13225 145 PDYRFDVEALAS-NITKKTKVI-YICNPNNPTGTyINKKEFdylmsyVPSHVLVILDEAYFefamgKEDYpNSMDYRYDNVITLRT 228
                              468888888777.444445555.6789*****9834443322334555678889******932222133424688999999***** PP

                              HHHHHS-GGG-EEEEEES-HHHH CS
              Alliinase_C 192 lskltGhaGsrlGWalvkdkeva 214
                              +sk  G +G+r+G+++ ++  +a
  PHY93_13225|PHY93_13225 229 FSKAYGLSGIRIGYGFGHEDLIA 251
                              **************987776665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (380 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       446  (0.0248759); expected 358.6 (0.02)
Passed bias filter:                      408  (0.0227564); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.61u 0.25s 00:00:00.86 Elapsed: 00:00:00.46
# Mc/sec: 2496.19
//
Query:       PHY93_13230|PHY93_13230  [L=335]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.7e-52  175.9   0.0    1.1e-51  175.6   0.0    1.1  1  FAA_hydrolase  Fumarylacetoacetate (FAA) hydrolase family


Domain annotation for each model (and alignments):
>> FAA_hydrolase  Fumarylacetoacetate (FAA) hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  175.6   0.0   6.1e-56   1.1e-51       3     217 ..     117     329 ..     115     330 .. 0.94

  Alignments for each domain:
  == domain 1  score: 175.6 bits;  conditional E-value: 6.1e-56
                              EEEEEE--SHHHHHTTT....-SS-EEEEEEGGGE.EETTE..EE-TTSSSS-EE......EEEEEEEESS-B--T--HHHHHTTE CS
            FAA_hydrolase   3 vcdglnyaehvreagka...aeeppdrhiplepvfflkrasslvgpgdpirrPagsekldyEvELavvigkplrevlsveeAedai 85 
                              + d++++++hv+   k    + +  +++ip    ++ + ++ ++g++++i++P+ +  ldyE+EL++vig +  ++ +  +A+++i
  PHY93_13230|PHY93_13230 117 YRDFYAHEKHVEVGFKKrgeKIPEAWYEIPA---YYKGATAGFIGHETEILWPSYTDILDYELELGMVIGLDGFNI-KERDAHKHI 198
                              7899999999987655577777888888888...******************************************.9******** PP

                              EEEEEEEEEE-SBGGG---..HHHHHHTGGGEEEEEE-B--B-.STT--.-SS-EEEEEETTEEEEEEEGGGTTTSHHHHHHHHHH CS
            FAA_hydrolase  86 aGytllnDvsaRdlqaeek.aplgwflgksfdtftpiGpwivtpdeled.pedlelrlrvngeevqdsntkdmifspaeliahlsa 169
                              +G+t+lnD+saRd+q++e+ ++lg+++gk f   + iGp+i+t de+++   +l +++ vng+e ++++  d  f+ a++iah+++
  PHY93_13230|PHY93_13230 199 FGFTILNDISARDIQRKEMqIRLGPAKGKDF--CSIIGPVITTIDEFDNcEPNLLMTAKVNGVEWSRGQSGDSHFTWAQMIAHVAQ 282
                              *******************9999********..***************9756********************************** PP

                              HH-B-TT-EEEEEES.......S--EE--TT-EEEEEETTTEEEEEEE CS
            FAA_hydrolase 170 gltLepGdliltGTpsgvgaeeeslkflkdgDeveveieglGelrnrV 217
                                 +++Gdl+++GT+ g g++ e +k++k+gD +e+eie++G l+nrV
  PHY93_13230|PHY93_13230 283 DEWVKAGDLFGSGTV-GTGCGLELDKWIKPGDILELEIEKIGILKNRV 329
                              ***************.7788899***********************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (335 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       337  (0.0187964); expected 358.6 (0.02)
Passed bias filter:                      320  (0.0178482); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.58u 0.22s 00:00:00.80 Elapsed: 00:00:00.46
# Mc/sec: 2209.65
//
Query:       PHY93_13235|PHY93_13235  [L=363]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.9e-24   84.6   0.8    6.9e-24   84.3   0.8    1.0  1  HgmA      homogentisate 1,2-dioxygenase
     0.0016   18.1   0.0     0.0042   16.8   0.0    1.6  1  Cupin_2   Cupin domain
     0.0085   16.3   0.6      0.022   14.9   0.2    1.9  2  ARD       ARD/ARD' family


Domain annotation for each model (and alignments):
>> HgmA  homogentisate 1,2-dioxygenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   84.3   0.8   1.2e-27   6.9e-24     127     419 ..      84     362 ..      44     363 .] 0.87

  Alignments for each domain:
  == domain 1  score: 84.3 bits;  conditional E-value: 1.2e-27
                              EEEEEE-S---SEEEEESSEEEEEEEEES-EEEEETTEEEEE-TTEEEEE-TT--EEEE-S.SSEEEEEEEEES--EE----GGGT CS
                     HgmA 127 ihlylanksmedkafynadGellivpqkGelelvtelGrlkvepgeiaviprGvrfkveledeearGyilevygakfklPdlGPiG 212
                              i +  +++s  ++ + +ad + l+  + G+ ++ t  G+l+   g+ ++iprG ++k+ l+  e++  +    +++f+ Pd+G +G
  PHY93_13235|PHY93_13235  84 INIGFFTESF-KNFYRSADYDELLFIHDGTGRFETSYGHLEYVKGDYIIIPRGTTYKLYLT-TETKI-VKVESNSEFEQPDRGMLG 166
                              5555566666.5567789999999999*********************************9.55654.44456899********** PP

                              TS-BS-GGGEEEE-------EE.EEEEEEEEETTEEEEEEEEE-S--EEEEEES---EEEEGGG-B----SSSS---GGGGEEEEE CS
                     HgmA 213 anglanprdfkaPvaayedkes.keltviskfqgklfaakldhspldvvaWhGnyvPykydlkkfnvinsvsfdhpdPsiftvlta 297
                               n+l +   +k+P aa   ++  +e+++  k  gk+ ++++ + pl v +W G  +P+k  +  f+++ s  + h+ Ps +t + +
  PHY93_13235|PHY93_13235 167 PNALYDQTALKVPEAAIGSEQDkSEYKIEIKRLGKITTVTYPYNPLCVSGWKGSVYPFKLSIYDFCPVMSHRY-HMPPSAHTTFVC 251
                              *************99997655439**********************************************988.999*****9999 PP

                              E-SSTT-EEEEEEEE-SEEE--TTS--S---B--S.SEEEEEEEE-----------TT-EEEE-TT--B---HHHHHHHHHS---- CS
                     HgmA 298 psekeGvaivdfvifpPrWlvaektfrPPyyhrnv.msefmGlieGaydakeeGfvpgGaslhslmtahGPdaesfekaskaelkP 382
                              +       ++ fv  p   + ++  ++ P+yh n+  +e +   +G++ ++ +   +g  ++h     hGP  ++f+++ ++    
  PHY93_13235|PHY93_13235 252 KN----FVVCSFVERPLEDSETHGVLKVPFYHSNIdYDEVLFYHQGNFFSR-DNIDAGALTFHPQGIHHGPHPKAFKNSDSKT--- 329
                              76....5678999999999999999*********95689999999**9876.66999******************99765543... PP

                              EEEST-EEEEEEESS--EE-HHHHH------------ CS
                     HgmA 383 ekiddtlafmfesslvlavtelaaelealdedylecW 419
                                  d  a m +++  l+ te+   +++ ++dy++ W
  PHY93_13235|PHY93_13235 330 --YTDEYAVMIDTKSPLRPTEWF--SKNENKDYWKSW 362
                              ..45669***************9..5667899***99 PP

>> Cupin_2  Cupin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   7.1e-07    0.0042      19      63 ..     102     146 ..      93     151 .. 0.86

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 7.1e-07
                              EEEEEEEEESEEEEEECTEEEEEETTEEEEE-TT-EEEEEE-SSS CS
                  Cupin_2  19 edeffyVleGegeltvdgeeveleaGdsvyfpagtpHrfrNtgde 63 
                               de++++ +G+g+++      e+ +Gd++++p+gt  ++  t+++
  PHY93_13235|PHY93_13235 102 YDELLFIHDGTGRFETSYGHLEYVKGDYIIIPRGTTYKLYLTTET 146
                              57*************99888***************9998777654 PP

>> ARD  ARD/ARD' family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.2   3.7e-06     0.022      77     144 ..      89     149 ..      49     152 .. 0.87
   2 ?   -2.1   0.0      0.65   3.9e+03     113     133 ..     295     315 ..     291     316 .. 0.83

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 3.7e-06
                      ARD  77 fdeklekFfeEhlhedeeirliveGtgyFdvrskdeawirvlvekGDLivlPagiyhrFtltednkvk 144
                              f e  ++F++  + + +e+ +i +Gtg F       +++     kGD i++P g+ +   lt++ k++
  PHY93_13235|PHY93_13235  89 FTESFKNFYR--SADYDELLFIHDGTGRFETSYGHLEYV-----KGDYIIIPRGTTYKLYLTTETKIV 149
                              5566677776..4577999**********9999999999.....**************9999999887 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 0.65
                      ARD 113 awirvlvekGDLivlPagiyh 133
                               + r  + +G L + P+gi h
  PHY93_13235|PHY93_13235 295 FFSRDNIDAGALTFHPQGIHH 315
                              567778899**********99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (363 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       329  (0.0183502); expected 358.6 (0.02)
Passed bias filter:                      268  (0.0149478); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.58u 0.25s 00:00:00.83 Elapsed: 00:00:00.46
# Mc/sec: 2353.88
//
Query:       PHY93_13240|PHY93_13240  [L=134]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.037   14.1   9.6      0.042   14.0   9.6    1.0  1  DUF2052          Coiled-coil domain containing protein (DUF20
       0.38    9.6  13.4       0.41    9.5  13.4    1.0  1  DUF936           Plant protein of unknown function (DUF936)
          4    6.1   8.4        4.4    6.0   8.4    1.1  1  Presenilin       Presenilin
        6.6    6.8   8.1        7.6    6.6   8.1    1.1  1  DDHD             DDHD domain


Domain annotation for each model (and alignments):
>> DUF2052  Coiled-coil domain containing protein (DUF2052)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   9.6   9.3e-06     0.042      38     137 ..      18     113 ..       6     127 .. 0.58

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 9.3e-06
                  DUF2052  38 lteeerkkardksdskeeslseiLlrreeeaaaaerleaqqeeleeeeeeeeeeeeeeeeeeeeeeedekekaeadeedeeeeeek 123
                              ++++e ++ ++k +s+ ++  + Llr++ ++ ++e+ e  +++ ee e+e+ e+++     e ++ ++ek+k+++d ++++++e+k
  PHY93_13240|PHY93_13240  18 INAQEGNNPETKPESDISASTKKLLRKVGRKSMDETCELTKSK-EECEKEKLEHQKG---AEADKLDTEKRKSAKDAQERASKEAK 99 
                              55555444444444455778889************99999999.3433333344444...33333344444444444444444444 PP

                  DUF2052 124 eekeeeeekeeeae 137
                              ++k++++++ee++ 
  PHY93_13240|PHY93_13240 100 TKKKAKQKIEEKEC 113
                              44555555555443 PP

>> DUF936  Plant protein of unknown function (DUF936)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5  13.4   9.1e-05      0.41     262     349 ..      29     121 ..      12     134 .] 0.59

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 9.1e-05
                   DUF936 262 setssnsvksissslkalRksWdesaevk.keeskek.kakkdkkselrsqsarrsssvssekssskddskkqtsakkskes...s 342
                              + +s  s++ +++  k+ Rks+de+ e++ ++e+ ek k +++k +e+ +  +++++s+++ + + +++ k++++ak++ e+    
  PHY93_13240|PHY93_13240  29 KPESDISASTKKLLRKVGRKSMDETCELTkSKEECEKeKLEHQKGAEADKLDTEKRKSAKDAQERASKEAKTKKKAKQKIEEkecH 114
                              444444555668889999*********95355544444566888888888888555566655555555556665555555552233 PP

                   DUF936 343 sseekek 349
                              +++ k +
  PHY93_13240|PHY93_13240 115 EVDGKLQ 121
                              3333333 PP

>> Presenilin  Presenilin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   8.4   0.00099       4.4     250     310 ..      47     107 ..       6     131 .. 0.32

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.00099
               Presenilin 250 esskeeeseeesseksaqsseseeeseeesseaessaeesseeke...seessesseeeeeeee 310
                              ++s +e+ e    +ks+++ e+e+ ++++ +ea++ ++e++++++   +++s+e++++++ +++
  PHY93_13240|PHY93_13240  47 RKSMDETCEL---TKSKEECEKEKLEHQKGAEADKLDTEKRKSAKdaqERASKEAKTKKKAKQK 107
                              1111111111...111111111111111111111111111111110001111111111111111 PP

>> DDHD  DDHD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.6   8.1    0.0017       7.6      88     162 ..      36     110 ..      10     132 .. 0.44

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.0017
                     DDHD  88 lelkesltsigaalkqkvsglvsslsallnrslelaeeesaslaessksherasesskasqeskaaesstasssa 162
                              ++ k+ l ++g+++ +++ +l++s +   ++ le++++ +a++ +++k+++++ +++ as+e k++++ +++ ++
  PHY93_13240|PHY93_13240  36 ASTKKLLRKVGRKSMDETCELTKSKEECEKEKLEHQKGAEADKLDTEKRKSAKDAQERASKEAKTKKKAKQKIEE 110
                              333444444444444444444444433333333444444443333333333333333333332222222222222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (134 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2872  (0.160187); expected 358.6 (0.02)
Passed bias filter:                      658  (0.0367003); expected 358.6 (0.02)
Passed Vit filter:                       106  (0.00591221); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.59u 0.27s 00:00:00.86 Elapsed: 00:00:00.45
# Mc/sec: 894.19
//
Query:       PHY93_13245|PHY93_13245  [L=261]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-17   63.7   0.0    2.2e-17   63.0   0.0    1.3  1  Acyltransferase  Acyltransferase


Domain annotation for each model (and alignments):
>> Acyltransferase  Acyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.0   0.0   1.2e-21   2.2e-17       9     133 ..      70     185 ..      61     187 .. 0.90

  Alignments for each domain:
  == domain 1  score: 63.0 bits;  conditional E-value: 1.2e-21
          Acyltransferase   9 nlpekgpailvaNHqsylDvlllwlllyksngprnvviiakkellsipllgflmrllgfifidRksnaraagsleniselleegkl 94 
                              ++ + +++++v+NH sylD+++++  +       +  ++  ke++++ +lg+l+ l+g+if+dRk+ ++ +  +++++++le g  
  PHY93_13245|PHY93_13245  70 RIDPLENYLIVSNHLSYLDIMVISRFF-------PSCFVTSKEMKDTFFLGHLCLLGGCIFVDRKNHKNLHREVKELTKALEDGLN 148
                              4555789******************99.......4556666777****************************************99 PP

          Acyltransferase  95 vviFPEGtrsregellpfkkGlvrlaakakkgvpivPva 133
                              + iFPE   +  +++ +f++ l+++a++      ++P++
  PHY93_13245|PHY93_13245 149 IAIFPEAASTDGTSVIRFRRPLFQAAIDS--HSKVLPIC 185
                              *****************************..77777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (261 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       920  (0.0513135); expected 358.6 (0.02)
Passed bias filter:                      623  (0.0347482); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.58u 0.25s 00:00:00.83 Elapsed: 00:00:00.45
# Mc/sec: 1734.65
//
Query:       PHY93_13250|PHY93_13250  [L=206]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    7.5e-21   74.8   0.0    9.9e-21   74.4   0.0    1.1  1  Flavin_Reduct  Flavin reductase like domain


Domain annotation for each model (and alignments):
>> Flavin_Reduct  Flavin reductase like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.4   0.0   5.5e-25   9.9e-21       4     140 ..      22     168 ..      19     181 .. 0.88

  Alignments for each domain:
  == domain 1  score: 74.4 bits;  conditional E-value: 5.5e-25
                              S-EE-EEEEE.EETTEEEEEEESSEEEEETTTTEEEEEEETTSHHHHHHHHHSE.......EEEEEEBCCGHHHHHHTCS...SCC CS
            Flavin_Reduct   4 vaqpvavvttsvpptsplgatlssftslsldPplvafslrlpsstadalkeage.......fvinllsesqealadafsqksgprt 82 
                              +++p+av++t + ++s++ a++s+ft++s++P ++af+   +sst  alk++         fv+n++se   + ++ +s+  +  +
  PHY93_13250|PHY93_13250  22 LPRPIAVISTRNLDGSNNVAPFSFFTAVSASPMIIAFCPMIRSST-GALKDTPInifrekeFVVNIVSEGIIEKINLTSTELP-YG 105
                              799*******999***************************86443.444444444444444*******************998.** PP

                              CCCCCCCCCEEECT.CCCSEEETTCSEEEEEEEEEEECCTT....EEEEEEEEEEEEESTTEC CS
            Flavin_Reduct  83 ddksifagltwees.ptgapallgalasleCqvvgsvelgd....helfigeVvavkvgddad 140
                              +d+++faglt+ +s  ++a +++++l+++eC   +++ +gd     +++ geVv+v++ ++  
  PHY93_13250|PHY93_13250 106 EDEFTFAGLTPIDSvVVKAKRIQESLIHFECVFRDRLSYGDqpgaGQIITGEVVRVHIAEELL 168
                              **************999************************9999*************99865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (206 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       331  (0.0184617); expected 358.6 (0.02)
Passed bias filter:                      315  (0.0175693); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.25s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 1396.45
//
Query:       PHY93_17000|PHY93_17000  [L=204]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.8e-15   55.7   0.0    6.8e-15   54.9   0.0    1.4  1  cNMP_binding  Cyclic nucleotide-binding domain
    2.4e-08   33.8   0.0    5.5e-08   32.7   0.0    1.6  1  HTH_Crp_2     Crp-like helix-turn-helix domain
  ------ inclusion threshold ------
      0.074   12.6   1.3       0.31   10.6   0.1    2.0  2  DDRGK         DDRGK domain
       0.13   12.2   0.0       0.25   11.3   0.0    1.4  1  HTH_1         Bacterial regulatory helix-turn-helix protein, 


Domain annotation for each model (and alignments):
>> cNMP_binding  Cyclic nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.9   0.0   1.5e-18   6.8e-15       3      87 ..      28     112 ..      26     114 .. 0.95

  Alignments for each domain:
  == domain 1  score: 54.9 bits;  conditional E-value: 1.5e-18
                              EE-TT-EEE-TTSB-SEEEEEEES-EEEEEEETTS.EEEEEEE-TTEEESHHHHHHTS--SSEEEESSTEEEEEEEHHHHHHHHH CS
             cNMP_binding   3 sfkagevifrqGdpadslyivlsGevrvyrlsedgkevvlavlgpGdlfGelalltgeprtatvvAltdsellalprddflellq 87 
                              ++++g++i+ q +  + +y++ +Gev++++ls++gke +l+v ++ + +G  ++++ ++++  ++Al+d++ll++p+++fl ll 
  PHY93_17000|PHY93_17000  28 QIERGSIIYDQEQDSEAFYVISKGEVKLSKLSSQGKELILKVAHSPEALGCYSFFGAGKYSERAEALSDVTLLRVPKKEFLLLLP 112
                              689****************************************************99***********************98775 PP

>> HTH_Crp_2  Crp-like helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.7   0.0   1.2e-11   5.5e-08       1      57 [.     146     203 ..     146     204 .] 0.78

  Alignments for each domain:
  == domain 1  score: 32.7 bits;  conditional E-value: 1.2e-11
                              HHHHHHHHHHHCTTT.C.EEEEEHHHHHHHHHTTSSHHHHHHHHHHHHHTTSEE.ETEEE CS
                HTH_Crp_2   1 qRlArfLlrlaerag.g.eielpltqeelAsmlGltretvsrilseLkreglis.rgrri 57 
                              +R+ +f+ +  ++++ + e+ + + + e+A++l++++et+sr+l+ L++++ i+ ++++i
  PHY93_17000|PHY93_17000 146 ERVLSFFEQ--QDQPwKkELVFTMKKNEMAALLNMRPETFSRALKTLEEHNKIQlTEKGI 203
                              577777743..22233367889*******************************9655435 PP

>> DDRGK  DDRGK domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.1   6.9e-05      0.31     149     187 ..      30      66 ..      16      67 .. 0.87
   2 ?    0.8   0.1     0.072   3.2e+02     117     144 ..     170     197 ..     160     202 .. 0.89

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 6.9e-05
                              TT--EEE---XXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                    DDRGK 149 drGkyiyitdeEleavakyikkkGrvsiselveesnklI 187
                              +rG  iy  d+E ++ a+y+ +kG v+ s l ++  +lI
  PHY93_17000|PHY93_17000  30 ERGSIIY--DQEQDSEAFYVISKGEVKLSKLSSQGKELI 66 
                              8999988..8999999******************99998 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.072
                              HHHHHHH-S-HHHHHHHHHHHHHHSSS- CS
                    DDRGK 117 eelavkfklktqevierikeLeeqgslt 144
                              +e+a+ ++++ +     +k+Lee+++++
  PHY93_17000|PHY93_17000 170 NEMAALLNMRPETFSRALKTLEEHNKIQ 197
                              699999*****************99986 PP

>> HTH_1  Bacterial regulatory helix-turn-helix protein, lysR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   5.7e-05      0.25      20      48 ..     173     201 ..     170     203 .. 0.92

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 5.7e-05
                              HHHHTS-HHHHHHHHHHHHHHHTS-SEEE CS
                    HTH_1  20 AeeLglsqpavsrqikrLEeelgvpLfeR 48 
                              A  L++ + + sr++k+LEe+ + +L e+
  PHY93_17000|PHY93_17000 173 AALLNMRPETFSRALKTLEEHNKIQLTEK 201
                              789******************99999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (204 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       810  (0.0451782); expected 358.6 (0.02)
Passed bias filter:                      606  (0.0338); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.45
# Mc/sec: 1365.72
//
Query:       PHY93_13255|PHY93_13255  [L=405]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.1e-56  191.4   0.0    1.4e-27   96.4   0.0    2.0  2  EPSP_synthase  EPSP synthase (3-phosphoshikimate 1-carboxyvin


Domain annotation for each model (and alignments):
>> EPSP_synthase  EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   93.8   0.0     5e-31     9e-27       5     203 ..      13     213 ..      10     215 .. 0.85
   2 !   96.4   0.0   7.9e-32   1.4e-27     225     414 ..     215     404 ..     212     405 .] 0.90

  Alignments for each domain:
  == domain 1  score: 93.8 bits;  conditional E-value: 5e-31
                              S--EEEEE--B-HHHHHHHHHHHGGGBSSEEEES---SHHHHHHHHHHHHTT.EEEEEECTSEEEEEGT..T..--EE-HHHHTT- CS
            EPSP_synthase   5 krlegevkvpGsksisnralllAaLaegestitnlLdseDvrsmlealreLgaeiikldeekevviveg..lggsfeapeelvldl 88 
                              ++ ++++ +p sks snral+++a+  +  +i+nl +s Dv+s l ++ ++g +i+ +++  +v+ +++    +s +a+  + l++
  PHY93_13255|PHY93_13255  13 TPFNKDILLPTSKSHSNRALIIGAIRGNSFQIQNLSRSTDVLSLLSCFEKIGLKIKHVND--SVIFTNSfpACESDTAEDTIDLKT 96 
                              6789999*********************************************99988843..444433300233333335788999 PP

                              GGGGGGHHHHHHHHSEESSEEEEE-SBTTCGS--HHHHHHHHHTT-EEEEETTEEEEEESEET..SS-BEEEEETSSTTHHHHHHH CS
            EPSP_synthase  89 gnsgtalrlLtallalasgevvLtGdesirkRPidrlldaLrqlGaeieveegenkaplkvkg..lklkgveikaevsSqqvtsll 172
                              g  gt+ r+L+all+l ++ + L   e++ +RP+++ll +Lr+l + i+ +  +  +++k  +   + ++ ei+ ++s+q++++++
  PHY93_13255|PHY93_13255  97 GDGGTTNRFLLALLSLGKKTYRLIPTEKMSERPMEDLLIPLRKLMVSIDTNPADAWLSVKGPAqmINTGKLEIDCKLSTQFASAMM 182
                              ****************99*******************************887777777765559999***************9988 PP

                              HHHHTTSBS.EEEEES.-TTHHHHHHHHHHHHH CS
            EPSP_synthase 173 llaallaeg.ttelee.lasepsiddtlkmlkk 203
                              l+ ++l      el++  ase + ++t+ +lk+
  PHY93_13255|PHY93_13255 183 LAFSAL--PiSFELKNiQASETYLKMTEFILKE 213
                              887744..4499999999**********99985 PP

  == domain 2  score: 96.4 bits;  conditional E-value: 7.9e-32
                              B--EEEE--B-HHHHHHHHHHHHHTT-EEEEES-.-GGGGHHH..HHHHHHHHTTEEEEEESTSEEEEEETTS--BEEEEEBGSTT CS
            EPSP_synthase 225 lpgteyvvegDassAayflvaAaitggevtvenv.ginslqGdiealdeilekmgaeitqeedasivvgpsglklkdvdietlpde 309
                              l++  y+++ D ss +y+ + ++i g +v+++n+ ++++lq+d  +++  ++++g +i+++++  +v+++++l + +vd ++ pd+
  PHY93_13255|PHY93_13255 215 LNKNSYTIPVDFSSLSYPFALGLIRG-RVLIKNClRLDPLQADSGLIQ-LMKDAGGDIEWTPNGLLVSSKNKLLPFSVDGSQFPDL 298
                              55669*******************99.9*****83579*****99998.************************************* PP

                              SBHGGGHHHHHHHHHTSBSEEEEEGSSSTTCCHHHHHHHTTT-EE..EEETTEEEEEEEEE.EB-.EEEE-TTSTTTTHHHHHHHH CS
            EPSP_synthase 310 aptlavlaafaegttviegiaelrvketdrlaamateLrklGaev..eeeedgliiipaekqlkg.aevesydDhRiamalalagl 392
                              +ptla  aa +egt+++++ + lr ke+drl  + t L+ l  +   +e++d +ii++   ql +   +++  DhR+ m   l   
  PHY93_13255|PHY93_13255 299 VPTLAFIAAHIEGTSTLSNLSVLRHKESDRLDEILTLLKTLSIDFifNENNDEIIIHGKG-QLYPnMSLKTARDHRMVMTAYLFL- 382
                              *****************************************9985337888998866655.67652689**********999885. PP

                              HSBSEEEEETTHHHHHHSSSHH CS
            EPSP_synthase 393 vaegeveiddiectdksfpefe 414
                              +a++     +++c++ksfp+f+
  PHY93_13255|PHY93_13255 383 RANSGGLLAEVDCVEKSFPDFF 404
                              8888899999***********8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (405 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       385  (0.0214736); expected 358.6 (0.02)
Passed bias filter:                      363  (0.0202465); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.58u 0.25s 00:00:00.83 Elapsed: 00:00:00.44
# Mc/sec: 2796.29
//
Query:       PHY93_13260|PHY93_13260  [L=142]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (142 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       270  (0.0150594); expected 358.6 (0.02)
Passed bias filter:                      147  (0.00819901); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.25s 00:00:00.72 Elapsed: 00:00:00.44
# Mc/sec: 966.22
//
Query:       PHY93_01620|PHY93_01620  [L=593]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (593 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       466  (0.0259914); expected 358.6 (0.02)
Passed bias filter:                      140  (0.00780858); expected 358.6 (0.02)
Passed Vit filter:                         3  (0.000167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.62u 0.23s 00:00:00.85 Elapsed: 00:00:00.46
# Mc/sec: 3860.90
//
Query:       PHY93_01625|PHY93_01625  [L=68]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.4e-17   61.7   0.3    5.3e-17   61.5   0.3    1.1  1  RNA_pol_Rpb6  RNA polymerase Rpb6


Domain annotation for each model (and alignments):
>> RNA_pol_Rpb6  RNA polymerase Rpb6
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.5   0.3   2.9e-21   5.3e-17       1      48 [.       8      58 ..       8      59 .. 0.93

  Alignments for each domain:
  == domain 1  score: 61.5 bits;  conditional E-value: 2.9e-21
                             HHTTSS--HHHHHHHHHHHHHHH........HTSS-SSSSTTCHHHHTT-S- CS
             RNA_pol_Rpb6  1 rltskvltrYelvriaakRArQieeg.e...sletqkpvviAlrEiaegkip 48
                             ++++kv +rYelv++a kR +Q+++g +   + +++k vv AlrEia+gki+
  PHY93_01625|PHY93_01625  8 DCLEKVENRYELVHLAIKRVKQLRNGaDplvK-SKNKEVVTALREIAAGKIK 58
                             7*************************997852.489**************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (68 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       499  (0.027832); expected 358.6 (0.02)
Passed bias filter:                      360  (0.0200792); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.43
# Mc/sec: 478.72
//
Query:       PHY93_01630|PHY93_01630  [L=608]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    6.3e-84  282.0   0.0    7.5e-84  281.8   0.0    1.1  1  AMP-binding  AMP-binding enzyme
  ------ inclusion threshold ------
       0.18   11.6   0.1         25    4.7   0.0    2.7  2  DRTGG        DRTGG domain


Domain annotation for each model (and alignments):
>> AMP-binding  AMP-binding enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  281.8   0.0   8.3e-88   7.5e-84      17     422 ..      29     475 ..      11     476 .. 0.84

  Alignments for each domain:
  == domain 1  score: 281.8 bits;  conditional E-value: 8.3e-88
                              CCSTEEEEHHHHHHHHHHHHHHHHHTTSSTT-EEEEEESSSHHHHHHHHHHHHTT-EEEEEETTS-HHHHHHHHHHHTESEEEETC CS
              AMP-binding  17 sgegqtlTYreldervnrlAagLrslGvkkgdrVaillpnspewvvallailkaGavvvplnptltaeelayiledseakvliatv 102
                              +ge + +T +++ ++v+ + +gL +l ++++d+Vail  +s ew + +la+l a ++v+p++pt+ a+e++yil+dse k+li   
  PHY93_01630|PHY93_01630  29 GGELHFFTNEDYLQKVKIYFHGLIKLSIQPQDKVAILGNTSKEWHFFDLATLAARGIVIPVYPTYMAHEIEYILNDSETKFLI--L 112
                              66677788889999999999***************************************************************..9 PP

                              TCCC.HHHHHHHHSCC-EECEEEEESCCS-HCCHCCCHCCCCSCTTS...................-TSCCCS-BTTSEEEEEEE- CS
              AMP-binding 103 dsel.leklleaaakleavklvivldadellkeeelkeeeeseekae...................kpeeeeelkpddlayiiYTS 168
                              ++e  ++k+le+++kl+  k++i +++ + + ++ l ++       +                    +e ++e + dd+a iiYTS
  PHY93_01630|PHY93_01630 113 ENEGqMQKILETQEKLPLLKHIIGIKDISEESKKSLRSDIIF----YtfqeftemgmkelrhspklFEESVSESEGDDIASIIYTS 194
                              99999***********99999998885444444333333322....145568889999*******94446778999********** PP

                              -SSSS-EEEEEEHHHHHHHHHHHH..HHHCSCCTTT-EEEESS-TTSCHHHHHHHHHHHHTT-EEEE-TTCGCCHHHHHHHHHHHH CS
              AMP-binding 169 GTTGkPKGVmlshrnlvanvaslk..letrfklkeddvvlsilplahifglilelllallsGatvvllpkdaaldpkllleliekl 252
                              GTTG PKG+++++++++a++ +++  l    ++ ++d++l +lpl+h++g  ++ ll l+  ++ v+++  ++     +++ +   
  PHY93_01630|PHY93_01630 195 GTTGDPKGAVITQKAFCAMLDNVNssL--KTNILPTDRFLIFLPLSHVLGR-CDSLLNLIFDSESVYAESLDK-----VIDNLLVA 272
                              **********************97433..344448***************6.***************995544.....46788889 PP

                              T-SEEEEEHHHHHHH.............HHCCCHHCHHHHC...........................................CG CS
              AMP-binding 253 kvtviagvPrvleal.............lesgalkaakkak...........................................dl 282
                              k+t++ +vPr++e++             l++         k                                           ++
  PHY93_01630|PHY93_01630 273 KPTILISVPRIFEKVyskvmdtiqkesnLKK---------KvfewalaasnayyekinqdksptpfqiiqknlayklvfekiynRF 349
                              ***************8777666444333222.........1344444444566667888888888888888888888888888888 PP

                              TT.-SEEEEESS-EBHHHHHHHHHHHTCEEEEEEEEGGGSSECEECHCTTTCTSTTS-BEE-TTEEEEEE-TTTSCBEETTSEEEE CS
              AMP-binding 283 ss.lrlvllggeplspellrffralfgeevlegYGlTEttgvvtvlpleedkkklgsvGkplpgvevkivDeetgepvpdgeeGel 367
                              ++ +r++++gg+plsp++++f+++   + +legYGlTEt + ++ +++  + + +g++G pl +v+vk +++           Ge+
  PHY93_01630|PHY93_01630 350 GGrIRFLVSGGAPLSPDIMTFLQNANLT-ILEGYGLTETIAPCI-MNPVVR-QIPGTIGLPLGDVQVKFAED-----------GEI 421
                              888**********************886.**************9.774555.799**************887...........9** PP

                              EEEETTS-SEBTT-HHHHHHHEEETCCEEEEEEEEEEETTSEEEEEEECCCEEEE CS
              AMP-binding 368 lvrgpgvmkgYlkkpeataeafdsegrwlrTGDlgrldedGyleivgRkkdlikl 422
                              +++ + +++ Y+k+++ataeaf+ +++w+ TGD+g+l++dGy++i++Rkkd+i++
  PHY93_01630|PHY93_01630 422 MLKTHALFSYYYKNEAATAEAFN-QEGWFLTGDIGELTTDGYVKITDRKKDIIIT 475
                              **********************9.657**************************97 PP

>> DRTGG  DRTGG domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.0    0.0028        25      66      90 ..     356     380 ..     353     393 .. 0.88
   2 ?    3.8   0.0    0.0054        49      27      59 ..     482     514 ..     467     523 .. 0.85

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.0028
                              EEETT----HHHHHHHHHHT--EEE CS
                    DRTGG  66 ilTgglepseevlklaeeaglpvls 90 
                              ++ gg+++s+++++++++a+l++l+
  PHY93_01630|PHY93_01630 356 LVSGGAPLSPDIMTFLQNANLTILE 380
                              789********************97 PP

  == domain 2  score: 3.8 bits;  conditional E-value: 0.0054
                              -SS-HHHHHHHHHT.SEEEEEETT-HHHHHHHTT CS
                    DRTGG  27 gamsvenmlerlke.gdlvivpGDRediqlaale 59 
                              +  ++en+l+  k   ++++v GDR   ++a+++
  PHY93_01630|PHY93_01630 482 APQKIENILKLQKHiSNAMVV-GDRRKFLVAVIS 514
                              556788999888888889999.*******99986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (608 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       646  (0.036031); expected 358.6 (0.02)
Passed bias filter:                      440  (0.0245412); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.69u 0.29s 00:00:00.98 Elapsed: 00:00:00.47
# Mc/sec: 3900.71
//
Query:       PHY93_01635|PHY93_01635  [L=84]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (84 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       267  (0.0148921); expected 358.6 (0.02)
Passed bias filter:                      196  (0.010932); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.43
# Mc/sec: 582.84
//
Query:       PHY93_01640|PHY93_01640  [L=76]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (76 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       744  (0.041497); expected 358.6 (0.02)
Passed bias filter:                      558  (0.0311228); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.24s 00:00:00.68 Elapsed: 00:00:00.42
# Mc/sec: 541.96
//
Query:       PHY93_01645|PHY93_01645  [L=331]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.7e-16   60.5   0.0    4.3e-16   59.2   0.0    1.6  2  Glycos_transf_2  Glycosyl transferase family 2
    9.4e-08   32.2   0.0    2.2e-07   31.0   0.0    1.6  1  Glyco_tranf_2_3  Glycosyltransferase like family 2
     0.0021   17.6   0.6      0.007   15.9   0.1    2.0  2  Glyco_tranf_2_2  Glycosyltransferase like family 2
  ------ inclusion threshold ------
      0.011   15.0   0.0      0.016   14.5   0.0    1.2  1  Glyco_transf_64  Glycosyl transferase family 64 domain
      0.068   12.8   0.6          1    9.0   0.6    2.2  1  Glyco_tranf_2_5  Glycosyltransferase like family


Domain annotation for each model (and alignments):
>> Glycos_transf_2  Glycosyl transferase family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.2   0.0   1.2e-19   4.3e-16       1      98 [.       4      96 ..       4      98 .. 0.95
   2 ?   -2.0   0.0      0.73   2.6e+03     113     130 ..     187     204 ..     123     235 .. 0.68

  Alignments for each domain:
  == domain 1  score: 59.2 bits;  conditional E-value: 1.2e-19
                             EEEEEESS-TTTHHHHHHHHHHHGGCCEEEEEEEEES-SSCHHHHHGGGCHC-TTEEEEEESSS-HHHHHHHHHHHH--SSEEEEEES CS
          Glycos_transf_2  1 svviptyNeektlletlesllaqdpypdfeiivvDDgStDetveileelakedprvrvirreenvGkagalnaglraatgdyilflDa 88
                             s++i+t+N++k l e+l s+++q  +  +e+iv+ +g+    +  le++ +++ ++++++ ++    a+a+n ++++a+g+y+lfl +
  PHY93_01645|PHY93_01645  4 SIIIVTFNRKKALTECLQSICSQSLKIPYEVIVILNGD----RGYLEKYKASFRQFTFMHISQT-TSANARNIAIKKAQGEYVLFLED 86
                             8**********************9999***********....999999999999********88.*********************** PP

                             SEEE-TTHHH CS
          Glycos_transf_2 89 Ddepdpdwle 98
                             D++++ ++++
  PHY93_01645|PHY93_01645 87 DCIMPTNYFQ 96
                             ****998776 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.73
                              EEEEEEEECCCCCCCHC- CS
          Glycos_transf_2 113 lgqrprifgetdeiernk 130
                              l + + ++ +t+++++n+
  PHY93_01645|PHY93_01645 187 LLKEMSKNNKTFHYNPNL 204
                              333334444444444443 PP

>> Glyco_tranf_2_3  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.0   0.0   6.1e-11   2.2e-07       4     215 ..       3     212 ..       2     223 .. 0.61

  Alignments for each domain:
  == domain 1  score: 31.0 bits;  conditional E-value: 6.1e-11
          Glyco_tranf_2_3   4 lavlVptfneedvlgevlesllaqey.prvevvvvvdesdaetlevaeelaaalpdvrvrvvvnarnlgstgksralnealravks 88 
                              ++++++tfn+ + l+e+l s+ +q+  +++ev+v+ ++++ + le  ++  +++  ++++     +    t+ ++a n a++ +++
  PHY93_01645|PHY93_01645   3 FSIIIVTFNRKKALTECLQSICSQSLkIPYEVIVILNGDR-GYLEKYKASFRQFTFMHIS-----Q----TTSANARNIAIKKAQG 78 
                              89**********************955********98765.3344444433334444322.....3....4455889********* PP

          Glyco_tranf_2_3  89 dlvllvDdDtvvePdtlkrllqffltpkvgavgtpvfl.lnrstl........vsal...gal.efaerhlrflaarralgvltln 161
                              ++vl+++dD++   ++++ ++ f  +  ++++g+p  + l+ s+l         s+l    a+ +  ++ +++  a+++  v++  
  PHY93_01645|PHY93_01645  79 EYVLFLEDDCIMPTNYFQNIN-F--DLPWDVLGGPDQTpLYASSLqtligralASPLcmgPAFkRHSRNSFSNHNATEESLVIC-- 159
                              *************99999854.3..45777777777663234433333444432222222222111122222222233333443.. PP

          Glyco_tranf_2_3 162 Gsgslirrevlkelegldp.lfllt.dDyelglrlrragfrtayvpgaavrevfps 215
                                 + +  +++ +  g+++ ++l+  +D +l  ++ +++   +y p ++v++++ +
  PHY93_01645|PHY93_01645 160 --NLWFKKTLFINE-GFHFnKKLFRnEDHFLLKEMSKNNKTFHYNPNLFVYHLRQP 212
                              ..555666666666.55554333335666666666666666666666666666555 PP

>> Glyco_tranf_2_2  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.1     2e-06     0.007      48     101 ..      46      97 ..       4     100 .. 0.66
   2 ?   -1.1   0.0       0.3   1.1e+03       1      43 [.     155     197 ..     155     217 .. 0.65

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 2e-06
          Glyco_tranf_2_2  48 ssiidlnllvylkdeddkayslaaarNrGaskaesdlvlFlDaDcfissDkfek 101
                              ++ ++   +  + +  +++   a arN  ++ka++++vlFl+ Dc + ++ f++
  PHY93_01645|PHY93_01645  46 EKYKASFRQFTFMHISQTT--SANARNIAIKKAQGEYVLFLEDDCIMPTNYFQN 97 
                              4445555555556665554..6899********************998888876 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.3
          Glyco_tranf_2_2   1 svviplraseerhyieervlqkakyydeeielivvddgSsekf 43 
                              s+vi+    +++ +i+e    ++k + +e ++++ +    +k+
  PHY93_01645|PHY93_01645 155 SLVICNLWFKKTLFINEGFHFNKKLFRNEDHFLLKEMSKNNKT 197
                              5677777777777777777666666666666665555444444 PP

>> Glyco_transf_64  Glycosyl transferase family 64 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0   4.5e-06     0.016       1      91 [.       3      93 ..       3     100 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 4.5e-06
          Glyco_transf_64  1 ftvviltsekrkelllklvkrv..akspslkkilvlWnnekpppek.kkwpstsvpvtvirqkkkslnnRflpykeieTdavlslDdd 85
                             f+++i+t  +rk++l + ++++  +++++  +++v+ n ++   ek k + ++   +++ +++  s n+R   +k+ + + vl l+dd
  PHY93_01645|PHY93_01645  3 FSIIIVT-FNRKKALTECLQSIcsQSLKIPYEVIVILNGDRGYLEKyKASFRQFTFMHISQTT--SANARNIAIKKAQGEYVLFLEDD 87
                             899****.**************87778888999999999887777624444444666665554..4589******************* PP

          Glyco_transf_64 86 illstd 91
                              +++t+
  PHY93_01645|PHY93_01645 88 CIMPTN 93
                             999876 PP

>> Glyco_tranf_2_5  Glycosyltransferase like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0   0.6   0.00029         1      34      71 ..      59      95 ..       5     101 .. 0.79

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.00029
          Glyco_tranf_2_5 34 airnaksiaeaynkalsasdakykvYlhqDvliinkdf 71
                             +i++ +  a+a n a+++++ +y+++l++D ++ ++ f
  PHY93_01645|PHY93_01645 59 HISQTT-SANARNIAIKKAQGEYVLFLEDDCIMPTNYF 95
                             444444.48999******************98766555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (331 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       942  (0.0525406); expected 358.6 (0.02)
Passed bias filter:                      464  (0.0258799); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.65u 0.26s 00:00:00.91 Elapsed: 00:00:00.47
# Mc/sec: 2103.79
//
Query:       PHY93_01650|PHY93_01650  [L=132]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00028   21.3   0.1    0.00047   20.6   0.1    1.3  1  FlgT_C    Flagellar assembly protein T, C-terminal domain


Domain annotation for each model (and alignments):
>> FlgT_C  Flagellar assembly protein T, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.6   0.1   2.6e-08   0.00047       3      61 ..      48     107 ..      47     117 .. 0.80

  Alignments for each domain:
  == domain 1  score: 20.6 bits;  conditional E-value: 2.6e-08
                   FlgT_C   3 rvvinlGrkhGvkkGDklqlvrsasfidqlget.raelnkseatltVeqVyeetavltlv 61 
                              +++i++G+++Gv kG  l+++r  s++d+  +  r   + + ++++V +  e ++++ l+
  PHY93_01650|PHY93_01650  48 NFYIDMGKNQGVAKGSVLDVFRVISVLDPYENKkRFNHKIKIGEVKVLHSEEGSSIGVLN 107
                              689**************************6655044557888888888877777777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (132 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       551  (0.0307323); expected 358.6 (0.02)
Passed bias filter:                      438  (0.0244297); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.25s 00:00:00.72 Elapsed: 00:00:00.43
# Mc/sec: 916.10
//
Query:       PHY93_01655|PHY93_01655  [L=573]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.4e-64  218.4   5.2    1.8e-64  218.1   5.2    1.1  1  SBP_bac_5  Bacterial extracellular solute-binding proteins, f
  ------ inclusion threshold ------
       0.17   11.8   3.2        1.4    8.9   1.1    2.7  2  DUF4898    Domain of unknown function (DUF4898)


Domain annotation for each model (and alignments):
>> SBP_bac_5  Bacterial extracellular solute-binding proteins, family 5 Middle
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  218.1   5.2     2e-68   1.8e-64       1     372 [.      73     491 ..      73     495 .. 0.94

  Alignments for each domain:
  == domain 1  score: 218.1 bits;  conditional E-value: 2e-68
                              SEEESSEEEEEEEETTTTEEEEEE-TT-B-TTSS.......B-SHHHHHHHHHHHHTGGGHCTTHHHHHC................ CS
                SBP_bac_5   1 evvpaLAeswwevsdDgktytfkLRkgvkFsDGt.......pltAeDvvfsferlldpdtasgyasllee................ 63 
                              e++p LAes + ++  gk y +kL+k+++++D          + AeD++  ++rl   + +s+  + ++                 
  PHY93_01655|PHY93_01655  73 ELRPLLAESQPLMENQGKRYVIKLKKNIRYHDHPafkgkvrFVKAEDYITQIKRLSYTPLNSTGWWIIDGvilgvnefkktvgsdf 158
                              679******999********************97688889999************************999**************** PP

                              ....TCTEEEEEEEETTEEEEEESSETTTTTTHCHHHHHHHGCCHTCTCTTTTTGTTTSE-BSSSEEEEEEETTTEEEEEE-TTST CS
                SBP_bac_5  64 ....dqdikkveavddytvrftlkkpnalfltllaavpasiakkaaekeddkdkdtnekpvgtGPYklkefkpgqkivlernpdYw 145
                                  ++ ik+v a+ddyt+ f l+++ + f + la+  +s+     e  + +++d   +pvgtGP+ l++++p ++++l ++ +Y 
  PHY93_01655|PHY93_01655 159 skfkTTAIKGVSAPDDYTLIFDLTQASPQFVYKLAMSFISPI--PLEVIEYEKNDLSLHPVGTGPFYLTKIDPAKELILNKFNQYH 242
                              *****************************9999999999999..78999999*********************************9 PP

                              .....................TTSCSSSSEEEEEE-.SHHHHHHHHHTTSSSEEESTTCCTHCHHHHHTTEEE........EEEEE CS
                SBP_bac_5 146 .....................gggkpkldriefkvipdsdaraaalqsGeiddvaepppsdieqlkeakglkv........lyesp 202
                                                   g + p +d+i+fk+++d+++r + + ++e+d+++ p++ + + +++  +lk         l++ p
  PHY93_01655|PHY93_01655 243 esfypsegdryansrgllkdsGEKIPFVDSINFKIVKDNNNRYDLFIKNELDFIVLPQEFYSQVFDDVGNLKEkikatdirLQTMP 328
                              999*****************888****************************88876666555555444444448888999****** PP

                              EEEEEEEEETTTSTGG.GSHHHHHHHHHHS-HHHHHHHCTTTSSEEESSSSTTTSTTCCSCHCCCSHHSHHHHHHHHHHHTT-BCS CS
                SBP_bac_5 203 gggvtylafNtkkppf.ddkrvRqAlsyAiDreeivkavlegyatpansllppsspgadeeykpaykaydpekAkklLkeaGykdg 287
                              +++++ lafN++ p   ++ ++R A+++AiD +++++ + ++++++ans+lpp++ g+d++ + +y +y+ e Ak lL++aGy++g
  PHY93_01655|PHY93_01655 329 TLTYWWLAFNMRDPLVgKNLNLRAAIAHAIDMNKYIQLFTNNTGQKANSILPPGIFGYDPSATLPY-EYNREVAKDLLAKAGYPNG 413
                              ************8877799******************************************99987.69***************** PP

                              STSCEETCEEEEEEEEETTSHHHHHHHHHHHHHHHHTTEEEEEEEECHHHHHHHHHHCTTESEEEEEEECTTSTTHHHHHHHHST CS
                SBP_bac_5 288 dggglrekklkltlllasgspaekaiaeliqqqlkkiGikvevktvdwaatylervkdgdfdmillgwgadypdpdnflnpflss 372
                              ++       ++l++ + ++s  + + ae++++ql +iGikv++    + ++yle+++ g +++++ gw+ dypd++n l+ + s+
  PHY93_01655|PHY93_01655 414 KN------MPELVYDTRAESKISNDQAEFFKEQLSQIGIKVKIVKNNF-KQYLEKSRTGRLQFFQDGWTLDYPDAENVLQLLVST 491
                              87......589***********************************99.*****************************9998775 PP

>> DUF4898  Domain of unknown function (DUF4898)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   1.1   0.00016       1.4      11      52 ..     265     304 ..     259     319 .. 0.84
   2 ?    1.8   0.0     0.027   2.4e+02      41      63 ..     513     535 ..     507     547 .. 0.77

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.00016
                  DUF4898  11 kkikfvkkislkiIsdyekffnfilPkdkkivvvvpsdlede 52 
                              +ki fv +i++ki++d ++ + +++ k++  ++v+p++   +
  PHY93_01655|PHY93_01655 265 EKIPFVDSINFKIVKDNNNRYDLFI-KNELDFIVLPQEFY-S 304
                              5899*********************.78888899999876.4 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.027
                  DUF4898  41 ivvvvpsdledekvikesvkkar 63 
                               +v++p+ +e++k+i ++ k++ 
  PHY93_01655|PHY93_01655 513 RLVILPDGIEKKKIITNMEKEVN 535
                              58999999999999988766655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (573 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       511  (0.0285013); expected 358.6 (0.02)
Passed bias filter:                      380  (0.0211947); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.67u 0.26s 00:00:00.93 Elapsed: 00:00:00.46
# Mc/sec: 3716.37
//
Query:       PHY93_17005|PHY93_17005  [L=83]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.4e-24   84.5   0.0    3.7e-24   84.4   0.0    1.0  1  DUF2249   Uncharacterized conserved protein (DUF2249)


Domain annotation for each model (and alignments):
>> DUF2249  Uncharacterized conserved protein (DUF2249)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   84.4   0.0   2.1e-28   3.7e-24       2      70 .]       6      74 ..       5      74 .. 0.99

  Alignments for each domain:
  == domain 1  score: 84.4 bits;  conditional E-value: 2.1e-28
                  DUF2249  2 lDvRelppperhaaIfeafeaLapGetlelvndhdPkpLlyqLearrpgffsweylergpgewrvlitk 70
                             +D++++p+p rha+If++f++L+ G +l+++n+hdP+pLl+q+ ++ pg+f+ eyl +gp ew+v+itk
  PHY93_17005|PHY93_17005  6 IDAQKIPGPVRHATIFQTFAELQIGSSLVIINNHDPRPLLNQFTEQMPGQFTQEYLAQGPIEWKVKITK 74
                             8******************************************************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (83 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       265  (0.0147805); expected 358.6 (0.02)
Passed bias filter:                      204  (0.0113782); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.25s 00:00:00.69 Elapsed: 00:00:00.43
# Mc/sec: 574.98
//
Query:       PHY93_01660|PHY93_01660  [L=870]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
   1.8e-194  647.3   0.4   2.6e-194  646.8   0.4    1.2  1  tRNA-synt_2c  tRNA synthetases class II (A)
    1.3e-16   60.4   2.2    1.4e-16   60.3   0.4    2.1  2  tRNA_SAD      Threonyl and Alanyl tRNA synthetase second addi
    1.5e-14   54.6   3.2    1.5e-14   54.6   3.2    3.8  4  DHHA1         DHHA1 domain
  ------ inclusion threshold ------
        0.1   12.6   0.0       0.21   11.6   0.0    1.5  1  DUF1521       Domain of Unknown Function (DUF1521)
       0.19   11.0   0.5       0.84    8.8   0.0    2.1  2  VSG_B         Trypanosomal VSG domain
        9.9    6.6  14.4        1.5    9.3   3.6    3.0  3  DUF4200       Domain of unknown function (DUF4200)


Domain annotation for each model (and alignments):
>> tRNA-synt_2c  tRNA synthetases class II (A)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  646.8   0.4  8.7e-198  2.6e-194       1     551 [.       9     558 ..       9     559 .. 0.94

  Alignments for each domain:
  == domain 1  score: 646.8 bits;  conditional E-value: 8.7e-198
                              HHHHHHHHHHHCTT-EEE----SS-SSSTTCSS--SGGGGGHHHHTTSSCGGSSSEEEEEEEEE-EETTEEGGGGTTTSSS--SEE CS
             tRNA-synt_2c   1 eirekFldfFekkgHtvvksssvvpendptllfvnAgmaqfkpiflgkeakpklkravnsQkciRagGkhnDlenVGktarHhTfF 86 
                              eire+F ++F+k gH+ v+sss++p+nd tllf nAgm+qfk++f+gk  +p+ +rav++Qkc+RagGkhnDlenVG+t+rHhTfF
  PHY93_01660|PHY93_01660   9 EIRETFAQYFKKSGHEKVASSSLIPHNDKTLLFCNAGMNQFKDYFTGKS-TPSNRRAVSIQKCVRAGGKHNDLENVGHTSRHHTFF 93 
                              8************************************************.************************************ PP

                              EEEEEEESSSS-HHHHHHHHHHHHHTTTT--GGGEEEEEETTEHHHHHHHHHTTTTEGGGEEEE-HHHHEEESSSSEEEEEEEEEE CS
             tRNA-synt_2c  87 eMlGnfsfgdYfkeeaiefawelltkelgldkerlyvtvfeeddeaveiweklvgvpeerilrfgekdnfwemgdtgpcgpcseiy 172
                              eMlGnfsfgdYfke+ai+fawe+lt el+++k+ lyvtv+++ddea++iw++ +g+p eri+  g+kdnfwemg+ gpcgpcsei+
  PHY93_01660|PHY93_01660  94 EMLGNFSFGDYFKEDAIKFAWEFLTVELKIPKDLLYVTVHHSDDEARKIWNEKIGLPLERIFTKGDKDNFWEMGEFGPCGPCSEIF 179
                              ************************************************************************************** PP

                              EECETTSHHCHCCC.CTT...CTCCHEEEEEEEEEEEEEESTTSHEEEEEEEEEEEEEEHHHHHHHHTTHSSGGGSCCTHHHHHHH CS
             tRNA-synt_2c 173 ydrgeeigkrkaas.eve...adddrvleiwnlvfmqfnreedgtlkpLpkksidtGmglerlvavLqevrsnydtdlfvpvieai 254
                              +d+ge++ +++    +++    d++r++eiwnlvfmqf+++ +g +  Lpk+sidtG gler++a Lq   +ny+td+f++++++i
  PHY93_01660|PHY93_01660 180 FDHGEQYTDKELVRiDPNdllEDEKRYIEIWNLVFMQFEKTPEG-RFSLPKPSIDTGAGLERVAAALQGCYNNYNTDIFTSIMKKI 264
                              ******998654321222455799*****************666.568************************************** PP

                              HHHHT--T....CSTCCHHHHHHHHHHHHHHHHHHHHTT--SSSSHHHHHHHHHHHHHHHHHHHTT-SSTHHHHHHHHHHHHHTTT CS
             tRNA-synt_2c 255 eeisgaty....edkdetdealrviaDHvralafaladGvvpsnegrgYvlRrllRravrhakkLglkekflaklvavvvevlgdv 336
                              e +sg++y     ++     a+rv+aDH+r+++++++dGv+psnegrgYvlRr++Rra++++++Lg+ke  ++kl+++v e lg+ 
  PHY93_01660|PHY93_01660 265 EDLSGKKYlaadGSELPHTAAFRVVADHIRSATMLITDGVIPSNEGRGYVLRRIIRRAIKYLNELGVKEISFYKLIPAVFESLGKE 350
                              ********987655556789****************************************************************** PP

                              GCCHHCCHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCSEEXHHHHHHHHHCHXXXHHHHHHHHHCTTXEEXHHHHHHHHH CS
             tRNA-synt_2c 337 ypelkekeekveeiieeEeerFakTlerGlklleelikklkkkkelsgedafkLydtyGfPvdltkeiaeekglkvdiegfekame 422
                              yp+  ++ e  ++++e Ee++F++Tle+Glk l+e+i+k  k k l g+ afkLydtyGfPvdlt+  +e+ glk d+ gfekam+
  PHY93_01660|PHY93_01660 351 YPQNANNAELATKLLELEEKKFRETLENGLKFLHEAIAKEVKDKILAGSAAFKLYDTYGFPVDLTQMFLEDLGLKLDHGGFEKAMQ 436
                              ************************************************************************************** PP

                              HHHHHHCCHHSXSS.XXXXXXXXTTSHCHHCCTSTTTXXXXXXTSXXXXXXSEEEEEEEEEETTEEEESEEXXXXSSSSCSXXXE. CS
             tRNA-synt_2c 423 eqrerskkekkekk.likkdvealkelkkteeflgyeeleaeakvlallkdkefveeveegeevgvvLdrTpfYaesGGqigDeG. 506
                              eq+e s+k++k+   + +k ++a+ke + +++f+gye+ +a+ k++         +  + g+++++v+d TpfY+e+GGq gD G 
  PHY93_01660|PHY93_01660 437 EQKEMSRKSWKGAMdNSDKVFHAIKEKHGATNFVGYENYKAHVKLV---------AIEAFGDQKALVFDATPFYGEGGGQVGDIGv 513
                              ***********998889999******************55555555.........4445588999********************5 PP

                              EEEESSEEEEESEEEEET.TEEEEEXSS.XSXXXTTSEEEEEEXHH CS
             tRNA-synt_2c 507 liekegaefrvkdvqkak.gvvlhkgkleegklkvgdkvkaevdee 551
                              ++++++  +++ d+qk   g+++h  +   + l vg++ +++vde+
  PHY93_01660|PHY93_01660 514 VMSGKNIIAHIDDTQKPVdGLFVHLSSDA-DALIVGETYTLAVDEH 558
                              5666778899******998******9996.99*********99986 PP

>> tRNA_SAD  Threonyl and Alanyl tRNA synthetase second additional domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.8   0.1       5.1   1.5e+04      16      21 ..     582     587 ..     582     589 .. 0.81
   2 !   60.3   0.4   4.7e-20   1.4e-16       1      44 []     656     699 ..     656     699 .. 0.99

  Alignments for each domain:
  == domain 1  score: -3.8 bits;  conditional E-value: 5.1
                              S---SB CS
                 tRNA_SAD  16 GtHvpn 21 
                              G+Hv+ 
  PHY93_01660|PHY93_01660 582 GPHVKQ 587
                              9***86 PP

  == domain 2  score: 60.3 bits;  conditional E-value: 4.7e-20
                              EEEEEETT.EEEEESS---SBGGGC-SEEEECCECCCTCEEEEE CS
                 tRNA_SAD   1 vrvvsiGdisvelCgGtHvpnTgeIgafkilseesiakglrRIy 44 
                              vrv ++G++s elCgGtHv+nTgeIg++ ilse s a g+rRI+
  PHY93_01660|PHY93_01660 656 VRVLTMGEFSRELCGGTHVHNTGEIGLITILSEASLATGVRRIE 699
                              9******************************************7 PP

>> DHHA1  DHHA1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   0.0     0.039   1.2e+02      27      85 ..     257     314 ..     249     335 .. 0.80
   2 ?    0.6   0.2      0.23   6.9e+02      18      60 ..     360     400 ..     349     409 .. 0.62
   3 ?   -2.5   0.2       2.2   6.4e+03      11      58 ..     437     484 ..     431     486 .. 0.61
   4 !   54.6   3.2     5e-18   1.5e-14       4     122 ..     738     852 ..     735     865 .. 0.88

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.039
                              HHHHHHTCEEECTCEEEEEECHCCHHHHHHHHHHHHHHTHGBTTCEEEEEEEECTEEEE CS
                    DHHA1  27 aeellekaeevkgvkvlvaevgeewdagalgiaadklksklkkpvivfvakeegdkvkv 85 
                              + ++ +k+e+++g+k+l+a  +e  ++ a + +ad ++s  +  +  ++ ++eg + +v
  PHY93_01660|PHY93_01660 257 FTSIMKKIEDLSGKKYLAADGSELPHTAAFRVVADHIRSATMLITDGVIPSNEG-RGYV 314
                              567788889999***************************666566666666666.5555 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.23
                              HHHHHHHHHHHHHHHTCEEECTCEEEEEECHCCHHHHHHHHHH CS
                    DHHA1  18 lkealaklkaeellekaeevkgvkvlvaevgeewdagalgiaa 60 
                              l ++l +l+++++ e++e+  g k+l  ++++e++ ++l++ a
  PHY93_01660|PHY93_01660 360 LATKLLELEEKKFRETLEN--GLKFLHEAIAKEVKDKILAGSA 400
                              3333333333333333222..9999999999999999987665 PP

  == domain 3  score: -2.5 bits;  conditional E-value: 2.2
                              HHHHHHCHHHHHHHHHHHHHHHTCEEECTCEEEEEECHCCHHHHHHHH CS
                    DHHA1  11 lekeleelkealaklkaeellekaeevkgvkvlvaevgeewdagalgi 58 
                               +ke+ +++ + a+ + +++++ ++e +g + +v + + +++ + ++i
  PHY93_01660|PHY93_01660 437 EQKEMSRKSWKGAMDNSDKVFHAIKEKHGATNFVGYENYKAHVKLVAI 484
                              455555555555555566666666666688888888877777777665 PP

  == domain 4  score: 54.6 bits;  conditional E-value: 5e-18
                              HCHHHHHHHHHHHCHHHHHHHHHHHHHHHTCEEECTCEEEEEECHCCHHHHHHHHHHHHHHTHGBTTCEEEEEEEECTEEEEEEEE CS
                    DHHA1   4 lneerkelekeleelkealaklkaeellekaeevkgvkvlvaevgeewdagalgiaadklksklkkpvivfvakeegdkvkvsars 89 
                              l  + ke +ke+e+lk+++++ + +el++ +e++ g  v++ e        +l+ + d + sk+++  +v+  k++    ++ +r+
  PHY93_01660|PHY93_01660 738 LLRDMKEKQKEIESLKDKIQASESKELFSVVEKIGGIDVAIIEA---PTDSDLRKLSDLFISKFQNGAVVLYNKNG----SILVRA 816
                              66799*****************************9999999999...55689999999999999999888888754....588888 PP

                              SSH..SS-HHHHHHHHHHHTTCCEEEE.TCEEEEEE CS
                    DHHA1  90 kkd..gvdagelakeaaaklgggGGGH.dlAaGagi 122
                              +k+  +++age++ke+ + ++g+GGG+ dlA+G+g 
  PHY93_01660|PHY93_01660 817 SKGvsKLNAGEVLKEILTVVNGKGGGKpDLAQGSGE 852
                              87788****************************987 PP

>> DUF1521  Domain of Unknown Function (DUF1521)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   7.2e-05      0.21      12      92 ..     545     634 ..     536     668 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 7.2e-05
                  DUF1521  12 idlGdkytitldekdgtilirnektgevtr...ik.GdPhvdanGd....gkadfdfkkdmtfqlddGtkit.vdtvdyGkgktva 88 
                              + +G+ yt+ +de+  ++++rn+ + ++ +   ik   Phv   G      k  fdf +  +++ ++  ++  + + ++ kg  va
  PHY93_01660|PHY93_01660 545 LIVGETYTLAVDEHTRKLTMRNHSATHLLQaalIKvLGPHVKQAGSlvtpEKLRFDFTHLQALTKEEIQQVEdLVNAEIQKGMDVA 630
                              458********************999875422243236***999963333588899999998888888877435566777777777 PP

                  DUF1521  89 sklt 92 
                              s++ 
  PHY93_01660|PHY93_01660 631 SNVM 634
                              7764 PP

>> VSG_B  Trypanosomal VSG domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   0.0   0.00028      0.84     110     198 ..     595     678 ..     537     683 .. 0.82
   2 ?   -1.0   0.3      0.27     8e+02     122     152 ..     730     760 ..     717     774 .. 0.77

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.00028
                    VSG_B 110 eltrpantrararanekiqqiaeka.aeiyseikkekekakkaraeklkkklnkAiyGegaeeatkevkegaasraraCgqsgtgg 194
                              e+ r   t+++a+++e+iqq+ + + aei++ ++ ++++++    e+++k  + A++Ge+ ++ +  v + +   ++ Cg+  t++
  PHY93_01660|PHY93_01660 595 EKLRFDFTHLQALTKEEIQQVEDLVnAEIQKGMDVASNVMN---MEEATKLGAMALFGEKYGN-EVRVLTMGEFSRELCGG--THV 674
                              66677779999**********99983579999999999999...88999**************.88899999999999***..788 PP

                    VSG_B 195 nnag 198
                              +n g
  PHY93_01660|PHY93_01660 675 HNTG 678
                              7777 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.27
                    VSG_B 122 ranekiqqiaekaaeiyseikkekekakkar 152
                               a  ki+ +++ ++e ++ei+ +k k ++++
  PHY93_01660|PHY93_01660 730 KALAKIEILLRDMKEKQKEIESLKDKIQASE 760
                              5678888888888888888888888877554 PP

>> DUF4200  Domain of unknown function (DUF4200)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.6   0.6     0.027        82      20      63 ..     349     392 ..     342     398 .. 0.88
   2 ?   -2.1   0.1       1.7   4.9e+03      46      74 ..     427     455 ..     420     467 .. 0.68
   3 ?    9.3   3.6   0.00049       1.5      58      95 ..     725     762 ..     707     764 .. 0.90

  Alignments for each domain:
  == domain 1  score: 3.6 bits;  conditional E-value: 0.027
                  DUF4200  20 eeiqrleealkqreeelekkeqeleedllkfdkflkendakrar 63 
                              +e+ +  ++++ + + le +e++++e+l++  kfl e  ak ++
  PHY93_01660|PHY93_01660 349 KEYPQNANNAELATKLLELEEKKFRETLENGLKFLHEAIAKEVK 392
                              5777778888899999*********************9999876 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 1.7
                  DUF4200  46 dllkfdkflkendakraralkkaeeerkl 74 
                              d   f+k ++e ++ +++  k a + +++
  PHY93_01660|PHY93_01660 427 DHGGFEKAMQEQKEMSRKSWKGAMDNSDK 455
                              56667888888887777777777666665 PP

  == domain 3  score: 9.3 bits;  conditional E-value: 0.00049
                  DUF4200  58 dakraralkkaeeerklkkekeaeikklkaeietlkse 95 
                              ++k  +al k+e+  +  kek++ei+ lk++i++ +s+
  PHY93_01660|PHY93_01660 725 NDKEDKALAKIEILLRDMKEKQKEIESLKDKIQASESK 762
                              67999****************************98876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (870 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       921  (0.0513693); expected 358.6 (0.02)
Passed bias filter:                      562  (0.0313459); expected 358.6 (0.02)
Passed Vit filter:                        59  (0.00329076); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.89u 0.26s 00:00:01.14 Elapsed: 00:00:00.48
# Mc/sec: 5458.14
//
Query:       PHY93_01665|PHY93_01665  [L=157]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.6e-17   63.4   1.2    3.8e-17   62.9   0.7    1.4  2  RecX      RecX family
     0.0056   16.8   1.1       0.16   12.1   0.2    2.4  2  cwf21     cwf21 domain


Domain annotation for each model (and alignments):
>> RecX  RecX family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.0     0.027   2.4e+02      36      55 ..      14      33 ..       8      34 .. 0.80
   2 !   62.9   0.7   4.3e-21   3.8e-17       1     117 [.      30     148 ..      30     155 .. 0.92

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.027
                             HHHHH----HHHHHHHHHTT CS
                     RecX 36 srlrsrgyGprrikqeLkqk 55
                             + ++sr+y++ +++++L++k
  PHY93_01665|PHY93_01665 14 KIISSRDYSEHKLREKLREK 33
                             5567899**********998 PP

  == domain 2  score: 62.9 bits;  conditional E-value: 4.3e-21
                              SGGGT--HHHHHHHHHHHHHTTSS-HHHHHHHHHHHHHHH----HHHHHHHHHTTT..--HHHHHHHHT..TS-HHHHHHHHHHHH CS
                     RecX   1 LakkgfpeevieavierlkeeglldDerfAesfvrsrlrsrgyGprrikqeLkqkG..iseelieqale..eldeeeqarelaekk 82 
                              L++k++p+e+i+++i++ k++g+l +e +Ae+ v+  +  rgy+p  i+q L q    + ++ ie++ +  +l+ ++q+ +l++kk
  PHY93_01665|PHY93_01665  30 LREKNHPAEEIDSAINEIKARGFLREEVYAEARVKGFMD-RGYSPDYIRQRLAQEHltVTDAEIEAVFTeyRLTPKDQIDRLIRKK 114
                              899*9*********************************8.*************9763378888998888677889999******** PP

                              HHHTTTS-HHHHHHHHHHHHHHTT--HHHHHHHHH CS
                     RecX  83 lkklkkeedekekqklvrfLarrGFssevirevlk 117
                               + ++ e d + ++k+ r+L+++G++++ +++vlk
  PHY93_01665|PHY93_01665 115 IQGKT-EFDYAGENKILRYLLSKGHDFGDAKKVLK 148
                              ***95.789************************99 PP

>> cwf21  cwf21 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.1   0.2   1.8e-05      0.16      15      39 ..      25      49 ..      24      50 .. 0.90
   2 ?    2.9   0.0     0.014   1.3e+02      17      38 ..      77     100 ..      74     102 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 1.8e-05
                    cwf21 15 elrdeLEeeglseeeIeervdelRe 39
                             +lr++L e++ + eeI+  ++e ++
  PHY93_01665|PHY93_01665 25 KLREKLREKNHPAEEIDSAINEIKA 49
                             69*******99*******9999876 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.014
                    cwf21  17 rdeLEeeg..lseeeIeervdelR 38 
                              r++L  e   ++++eIe+   e+R
  PHY93_01665|PHY93_01665  77 RQRLAQEHltVTDAEIEAVFTEYR 100
                              7788776533599***99888888 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (157 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       798  (0.0445089); expected 358.6 (0.02)
Passed bias filter:                      570  (0.0317921); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 1040.07
//
Query:       PHY93_01670|PHY93_01670  [L=374]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
   4.7e-138  459.0   2.1   5.6e-138  458.7   2.1    1.1  1  RecA       recA bacterial DNA recombination protein
      1e-12   47.9   0.4    2.6e-12   46.6   0.4    1.6  1  Rad51      Rad51
      8e-09   35.2   0.4    1.3e-06   27.9   0.4    2.7  1  ATPase     KaiC
    3.5e-05   23.8   0.0    6.8e-05   22.9   0.0    1.5  1  ATPase_2   ATPase domain predominantly from Archaea
    9.1e-05   22.1   0.1    0.00067   19.3   0.1    2.0  1  AAA_25     AAA domain
      0.001   18.8   0.0     0.0018   18.0   0.0    1.5  1  AAA_24     AAA domain
     0.0011   19.4   0.0     0.0033   18.0   0.0    1.8  2  ABC_tran   ABC transporter
     0.0017   18.8   0.0     0.0028   18.0   0.0    1.3  1  AAA_16     AAA ATPase domain
     0.0047   17.3   0.0     0.0097   16.3   0.0    1.5  1  AAA        ATPase family associated with various cellular act
  ------ inclusion threshold ------
       0.01   15.7   0.0      0.019   14.8   0.0    1.4  1  CLP1_P     mRNA cleavage and polyadenylation factor CLP1 P-lo
      0.011   15.8   0.0      0.019   15.0   0.0    1.4  1  CbiA       CobQ/CobB/MinD/ParA nucleotide binding domain
      0.017   14.0   0.0      0.027   13.3   0.0    1.2  1  AAA_35     AAA-like domain
      0.025   14.8   0.0      0.044   14.0   0.0    1.4  1  AAA_28     AAA domain
       0.03   13.6   0.0       0.12   11.6   0.0    1.7  2  DnaB_C     DnaB-like helicase C terminal domain
      0.047   13.3   0.0       0.08   12.5   0.0    1.3  1  CobU       Cobinamide kinase / cobinamide phosphate guanyltra
      0.054   13.2   0.1       0.44   10.2   0.1    2.1  1  IstB_IS21  IstB-like ATP binding protein
      0.093   12.6   0.0       0.18   11.7   0.0    1.4  1  MobB       Molybdopterin guanine dinucleotide synthesis prote
       0.16   12.0   0.0       0.27   11.2   0.0    1.4  1  AAA_14     AAA domain


Domain annotation for each model (and alignments):
>> RecA  recA bacterial DNA recombination protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  458.7   2.1  5.6e-141  5.6e-138       1     263 []      16     278 ..      16     278 .. 1.00

  Alignments for each domain:
  == domain 1  score: 458.7 bits;  conditional E-value: 5.6e-141
                              HHHHHHHHHHHHHH-TTSS--TTS--.-----EE--S-HHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTT--EEE CS
                     RecA   1 kaleaalkqiekkfGkgsimklgdekeklkvetissGslaldialGiGGlpkGriieiyGpessGkttlalhaiaeaqkkggvaaf 86 
                              kal+ al+ iek+fGkg+imkl +++  +k+  i++G ++ld+alGiGG+p+GriieiyGpessGkttl+lh+ ae+q++gg++af
  PHY93_01670|PHY93_01670  16 KALDLALSAIEKQFGKGAIMKLDSKSVVEKIAIIPAGCMSLDLALGIGGIPQGRIIEIYGPESSGKTTLTLHIAAECQRQGGTVAF 101
                              799*********************************************************************************** PP

                              EESS----HHHHHHTT--GGG-EEE--SSHHHHHHHHHHHHTTT--SEEEEE-TTT---STT-----------HHHHHHHHHHHHH CS
                     RecA  87 idaehaldpkyakklGvdidellvsqpdtGeqaleiadalvrsgaidlivvdsvaalvpkaeieGemgdskvglqarlmsqalrkl 172
                              +daehald++ya++lG+di + l+sqpd+Geqalei+d+lvrsga++l+++dsvaal+pkae+eG+mgds++glqarlmsqalrkl
  PHY93_01670|PHY93_01670 102 VDAEHALDTAYAARLGMDIPNTLISQPDSGEQALEITDMLVRSGAVNLLIIDSVAALTPKAELEGDMGDSHMGLQARLMSQALRKL 187
                              ************************************************************************************** PP

                              HHHHTTT--EEEEEEE-----------------HHHHHHH-SEEEEEEEES---------EEEEEEEEEEESSS----EEEEEEET CS
                     RecA 173 tgaisksntvvifinqirekiGvmfgnpetttGGralkfyasvrldvrrieeikekeevignktkvkvvknkvappfkeaeldily 258
                              tg+is+sn++vifinq+r+kiGvmfgnpetttGG+alkfyasvrld+r+i++ik+++ +ig++tkvkvvknkva+pfkeae+di+y
  PHY93_01670|PHY93_01670 188 TGSISRSNCTVIFINQLRMKIGVMFGNPETTTGGNALKFYASVRLDIRKIAAIKDGDVHIGSRTKVKVVKNKVASPFKEAEFDIMY 273
                              ************************************************************************************** PP

                              TTEE- CS
                     RecA 259 geGis 263
                              g+Gis
  PHY93_01670|PHY93_01670 274 GTGIS 278
                              ***97 PP

>> Rad51  Rad51
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.6   0.4   2.6e-15   2.6e-12      14     247 ..      44     271 ..      29     280 .. 0.77

  Alignments for each domain:
  == domain 1  score: 46.6 bits;  conditional E-value: 2.6e-15
                              HSS-EE--S-HHHHHHHT.SSEESSSEEEEEESTTSSHHHHHHHHHHHTTS-TTTS--SSEEEEEESSS---GGGGHHHHHHTT-- CS
                    Rad51  14 sellqlttGskklDelLg.GGietgsiteifGefrsGktqlchtlcvtvqlplelgGgegkavyidtegtfrperlveiaerykld 98 
                              +++  +  G+ +lD  Lg GGi+ g i ei+G   sGkt l+  ++  +q         g ++++d+e ++ +      a r ++d
  PHY93_01670|PHY93_01670  44 EKIAIIPAGCMSLDLALGiGGIPQGRIIEIYGPESSGKTTLTLHIAAECQRQ------GGTVAFVDAEHALDTA----YAARLGMD 119
                              45666999******99955****************************99964......4679*********985....799***** PP

                              HHHHGGGEEEEE--STTHHHHHHHHTHHHHHHS-EEEEEEETTTGGG.CH-----...--THHHHHHHHHHHHHHHHHHHHH--EE CS
                    Rad51  99 keevlenvayaRaytiehqeellqqaaallaedkfallivDsvtaly.Rtdfsgr...gelakRqqklgkllrtLrkladefevav 180
                                ++l+  +       ++ e+ l+ + +l+ +  ++lli+Dsv+al  +++ +g      +    + +++ lr+L+    + + +v
  PHY93_01670|PHY93_01670 120 IPNTLISQP-------DSGEQALEITDMLVRSGAVNLLIIDSVAALTpKAELEGDmgdSHMGLQARLMSQALRKLTGSISRSNCTV 198
                              888887654.......778888888888899999***********86477766431103444555556677777777778899*** PP

                              EEEEE-------.------------HHHHHHHH-SEEEEEEE-ST..........TEEEEEEES-SSS-S-EEEEEE CS
                    Rad51 181 vitnqvvaqvdgqaalfsadpkkPigGlvlahasttRlalrkgkg..........eeRivkvvdsPnlpeleavfai 247
                              +  nq   +++     + ++p+   gG+ l   +++Rl +rk             ++++  v +   +p +ea f i
  PHY93_01670|PHY93_01670 199 IFINQLRMKIGV----MFGNPETTTGGNALKFYASVRLDIRKIAAikdgdvhigsRTKVKVVKNKVASPFKEAEFDI 271
                              ******999988....55899********************976555567777643333333344566667777666 PP

>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.9   0.4   1.3e-09   1.3e-06       2     178 ..      50     226 ..      49     277 .. 0.70

  Alignments for each domain:
  == domain 1  score: 27.9 bits;  conditional E-value: 1.3e-09
                   ATPase   2 ktgIeglDeil.kgGipegrvvlitGepGtGKtifalqFlikgaekygepgvfvtveepaedlrenakslGwdlekleeegklaii 86 
                              + g   lD  l  gGip+gr++ i+G   +GKt++ l+ + +  ++ g  + fv  e         a++lG+d+ +   +      
  PHY93_01670|PHY93_01670  50 PAGCMSLDLALgIGGIPQGRIIEIYGPESSGKTTLTLHIAAEC-QRQGGTVAFVDAEHALDT--AYAARLGMDIPNTLIS----QP 128
                              6788889999988************************977776.666999999988765553..4577999999764433....34 PP

                   ATPase  87 dasesaeesaee.kdkedleel.ieelaeaikeikakrvviDsitglayeekeavaReilrqlvrvlkklgvTailvsekss.... 166
                              d  e+a e++    ++ +++ l i+++a    + + +  + Ds  gl    ++ ++ + lr+l+  ++  ++T i++++ ++    
  PHY93_01670|PHY93_01670 129 DSGEQALEITDMlVRSGAVNLLiIDSVAALTPKAELEGDMGDSHMGL----QARLMSQALRKLTGSISRSNCTVIFINQLRMkigv 210
                              44444444333333344444441344444444555555555665555....77788888999999999999999999998876666 PP

                   ATPase 167 ....seeaaggygvee 178
                                   e+++gg++++ 
  PHY93_01670|PHY93_01670 211 mfgnPETTTGGNALKF 226
                              6655445555555554 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.9   0.0   6.9e-08   6.8e-05      21      67 ..      69     115 ..      65     212 .. 0.76

  Alignments for each domain:
  == domain 1  score: 22.9 bits;  conditional E-value: 6.9e-08
                 ATPase_2  21 eiyfiYGpegsGKtaLlkeiienledkdkyviyyialreesisklde 67 
                              +i+ iYGpe+sGKt+L  +i+ + + ++  v +++a +  +++++ +
  PHY93_01670|PHY93_01670  69 RIIEIYGPESSGKTTLTLHIAAECQRQGGTVAFVDAEHALDTAYAAR 115
                              6889******************************9988877777665 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.3   0.1   6.7e-07   0.00067      30     157 ..      65     161 ..      59     206 .. 0.63

  Alignments for each domain:
  == domain 1  score: 19.3 bits;  conditional E-value: 6.7e-07
                   AAA_25  30 lpagelallaGapgtGKttlaldlalavatGkpwlgpvapeqgkVlyvsaEdsedelrrRlravgealrddarllvldlagveslp 115
                              +p g ++ ++G++ +GKttl+l++a+++ +          + g+V +v+aE +       ++a++  ++ + +l  ++        
  PHY93_01670|PHY93_01670  65 IPQGRIIEIYGPESSGKTTLTLHIAAECQR----------QGGTVAFVDAEHAL----DTAYAARLGMDIPNTL--IS-------- 126
                              69999**********************996..........66899999999998....5666666666545555..22........ PP

                   AAA_25 116 LfakdrggtlltadvdaleaaieevegvrlvviDplsralgg 157
                                ++d+g+++l     ++ + + +   v l++iD+++++++ 
  PHY93_01670|PHY93_01670 127 --QPDSGEQAL-----EITDMLVRSGAVNLLIIDSVAALTPK 161
                              ..123333332.....22222223244677777777777666 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.0   1.9e-06    0.0018       5      77 ..      71     158 ..      67     208 .. 0.75

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 1.9e-06
                   AAA_24   5 iliyGpsgiGKTtlakel.......gpkplfidtekGlksldadkf.pdie........swedfldevvelaaeladyktlviDti 74 
                              i iyGp+ +GKTtl +++       g +++f+d e+ l+  +a+++  di+        s e+ l+  + l +  a  + l+iD++
  PHY93_01670|PHY93_01670  71 IEIYGPESSGKTTLTLHIaaecqrqGGTVAFVDAEHALDTAYAARLgMDIPntlisqpdSGEQALEITDMLVRSGA-VNLLIIDSV 155
                              679*********************************9999988875145556666555555555555555555555.666666666 PP

                   AAA_24  75 del 77 
                                l
  PHY93_01670|PHY93_01670 156 AAL 158
                              655 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.0   3.3e-06    0.0033       8      46 ..      65     103 ..      63     150 .. 0.87
   2 ?   -1.9   0.0       4.5   4.5e+03      54      71 ..     201     218 ..     177     312 .. 0.56

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 3.3e-06
                              EETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran   8 lkegekvaivGenGaGKStLlkllagllkpteGeilldg 46 
                              + +g+++ i G+  +GK+tL   +a + + + G++ + +
  PHY93_01670|PHY93_01670  65 IPQGRIIEIYGPESSGKTTLTLHIAAECQRQGGTVAFVD 103
                              789********************************7654 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 4.5
                              HHHCCHCEEEE-SS--S- CS
                              xxxxxxxxxxxxxxxxxx RF
                 ABC_tran  54 leslrkeigvlpqepqlf 71 
                              +++lr +igv++ +p+  
  PHY93_01670|PHY93_01670 201 INQLRMKIGVMFGNPETT 218
                              455555555555553322 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.0   2.8e-06    0.0028      22     141 ..      66     201 ..      56     205 .. 0.58

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 2.8e-06
                   AAA_16  22 grpelvllsGesGvGKsslvrellralekdggiflrgkcdqlesaipysa.laqalareellrqlldeaesaeleawrekleeala 106
                              ++++++ ++G+  +GK++l  +++ + +++gg ++  ++++   +++y+a l   +  ++l+ q ++ +++ e  +         +
  PHY93_01670|PHY93_01670  66 PQGRIIEIYGPESSGKTTLTLHIAAECQRQGGTVAFVDAEHA-LDTAYAArLGMDI-PNTLISQPDSGEQALEITDMLV------R 143
                              4568999*****************999999766655555555.3455544444444.2244444444433322222222......1 PP

                   AAA_16 107 ..........avpelagaea..............srllellkrllallsrderplvlvl 141
                                        +v++l+++++              + + ++l++l   +sr    +v+++
  PHY93_01670|PHY93_01670 144 sgavnlliidSVAALTPKAElegdmgdshmglqaRLMSQALRKLTGSISRSNC-TVIFI 201
                              33455577774444444444444444777777755555555555566666333.77776 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0   9.7e-06    0.0097       3     106 ..      73     199 ..      71     208 .. 0.64

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 9.7e-06
                              EESSTTSSHHHHHHHHHHHHTHE...EEEEETTTCSSS..................STTHHHHHHHHHHHHHHHTSTSEEEEEETG CS
                      AAA   3 lyGppGtGKTllakavakelgve...fleisgsellsk..................yvgesekkirelfkeakekakpsilfiDEi 67 
                              +yGp   GKT+l   +a e++++   +  +++   l+                     ge++ +i +++  +++ a    l+iD +
  PHY93_01670|PHY93_01670  73 IYGPESSGKTTLTLHIAAECQRQggtVAFVDAEHALDTayaarlgmdipntlisqpDSGEQALEITDML--VRSGA-VNLLIIDSV 155
                              79*****************96333335555555555445666666666666665445555555555555..56666.79******* PP

                              GGHHHHH..TTCCCHHHHHHHHHHHHH....HHHTTTSSSTEEEE CS
                      AAA  68 dalaksr..sgseseeeervvnqLlte....ldgvkkkeskvivi 106
                               al+++   +g+  ++++ +++ L+++    l g  + +s+++vi
  PHY93_01670|PHY93_01670 156 AALTPKAelEGDMGDSHMGLQARLMSQalrkLTGSIS-RSNCTVI 199
                              *******996666666665555555541000444333.3445555 PP

>> CLP1_P  mRNA cleavage and polyadenylation factor CLP1 P-loop
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   0.0   1.9e-05     0.019       1      30 [.      75     104 ..      75     107 .. 0.96

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 1.9e-05
                   CLP1_P   1 GpkdsGKSTlarlLlNyalrkgrkpvyvDl 30 
                              Gp  sGK+Tl+  ++ ++ r+g ++++vD+
  PHY93_01670|PHY93_01670  75 GPESSGKTTLTLHIAAECQRQGGTVAFVDA 104
                              899**************************7 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   0.0   1.9e-05     0.019      10      55 ..      79     155 ..      73     288 .. 0.69

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 1.9e-05
                              SSHHHHHHHHHHHHHHTT--EEEEEEEESSCCCCHHTTEB-HHHH................................C CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx................................x RF
                     CbiA  10 vGKTtlaanLaralarrglrVllvDaDpqannlaileglendiep................................d 55 
                              +GKTtl++++a+  +r+g  V+ vDa      +a++  l +di +                                 
  PHY93_01670|PHY93_01670  79 SGKTTLTLHIAAECQRQGGTVAFVDAEHA-LDTAYAARLGMDIPNtlisqpdsgeqaleitdmlvrsgavnlliidsV 155
                              8************************8766.555556666666655666666655555555555555555555555550 PP

>> AAA_35  AAA-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   2.7e-05     0.027      30      70 ..      67     107 ..      65     114 .. 0.91

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 2.7e-05
                   AAA_35  30 pGalirikapkkmGKtSLlarilakakqqgyktvsldlqla 70 
                              +G +i i +p+  GKt L  +i a++++qg  ++ +d ++a
  PHY93_01670|PHY93_01670  67 QGRIIEIYGPESSGKTTLTLHIAAECQRQGGTVAFVDAEHA 107
                              699***************************99999998776 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   4.4e-05     0.044       3      25 ..      72      99 ..      70     139 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 4.4e-05
                   AAA_28  3 vitGgestGKTtlleaLaar.....gyp 25
                              i G+es+GKTtl+ ++aa+     g++
  PHY93_01670|PHY93_01670 72 EIYGPESSGKTTLTLHIAAEcqrqgGTV 99
                             589***************6655565554 PP

>> DnaB_C  DnaB-like helicase C terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00012      0.12       8      58 ..      55     106 ..      49     120 .. 0.79
   2 ?   -1.0   0.0      0.88   8.8e+02     128     179 ..     145     205 ..     118     209 .. 0.59

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00012
                              HHH..HHCTSBXTTXEEEEEEXTTSSHHHHHHHHHHHHHHCSTSEEEEEESSS CS
                              xxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   DnaB_C   8 dLD..kltsGlqkgdliiiAarpsmGktalalniaenaavkeklpvavfslem 58 
                              +LD    ++G+ +g +i i +  s Gkt+l+l+ia+++   +  +va++  e 
  PHY93_01670|PHY93_01670  55 SLDlaLGIGGIPQGRIIEIYGPESSGKTTLTLHIAAECQR-QGGTVAFVDAEH 106
                              55521346899*************************9886.556899998886 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.88
                              TTEEEEEEEEGGGTBTSCS.........SSCCCHHHHHHHHHHHHHHHHCTSXEEEEEEXS CS
                              xxxxxxxxxxxxxxxxxxx.........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   DnaB_C 128 kglgliviDyLqlmegsee.........kenreqevseisrsLkalakelnvpvialsqLs 179
                              + ++l++iD +  ++ ++e            + + +s+  r+L       n+ vi + qL 
  PHY93_01670|PHY93_01670 145 GAVNLLIIDSVAALTPKAElegdmgdshMGLQARLMSQALRKLTGSISRSNCTVIFINQLR 205
                              5677777777777774322233332111112222344444444444455678888888875 PP

>> CobU  Cobinamide kinase / cobinamide phosphate guanyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   8.1e-05      0.08       3     123 ..      73     202 ..      71     217 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 8.1e-05
                     CobU   3 vtGgarSGKSefAekla...eeskekvvYiATaealDeemaeRiarHrerR.paeWetveepldlaealkeeekkevvLvDcltlw 84 
                              + G+  SGK ++  ++a   ++++++v ++ + +alD+ +a+R+     +   ++ +  e+ l+++++l ++ + + +++D+++ +
  PHY93_01670|PHY93_01670  73 IYGPESSGKTTLTLHIAaecQRQGGTVAFVDAEHALDTAYAARLGMDIPNTlISQPDSGEQALEITDMLVRSGAVNLLIIDSVAAL 158
                              78**************96666677999*****************99987775888999999********9998899********99 PP

                     CobU  85 ltnllleeeaek.....veekleeeveellealkelkatvvlVs 123
                              + ++ le +  +     + + +++++++l+ +++++++tv+++ 
  PHY93_01670|PHY93_01670 159 TPKAELEGDMGDshmglQARLMSQALRKLTGSISRSNCTVIFIN 202
                              9887766554446888777788999999999****999999985 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.1   0.00044      0.44      50      89 ..      71     110 ..      62     167 .. 0.85

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00044
                IstB_IS21  50 ivllGpsGvGKshlaialgveavraglsvlfvrvedLvee 89 
                              i + Gp   GK+ l+  ++ e  r+g  v fv +e  + +
  PHY93_01670|PHY93_01670  71 IEIYGPESSGKTTLTLHIAAECQRQGGTVAFVDAEHALDT 110
                              6689****************************99876655 PP

>> MobB  Molybdopterin guanine dinucleotide synthesis protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00018      0.18       1      37 [.      70     106 ..      70     115 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00018
                     MobB   1 vlgivgksgsGKTtLleklipelkarglrvgtiKhah 37 
                              ++ i g + sGKTtL  ++ +e +++g +v+ +  +h
  PHY93_01670|PHY93_01670  70 IIEIYGPESSGKTTLTLHIAAECQRQGGTVAFVDAEH 106
                              68999**************************996544 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   0.00028      0.27       2      47 ..      68     113 ..      67     163 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00028
                   AAA_14   2 rkilvitGaRrvGKTtllkqlikellvkkesilyinldderdkkla 47 
                              ++i+ i G+  +GKTtl  +++ e   +   + +++ ++  d+++a
  PHY93_01670|PHY93_01670  68 GRIIEIYGPESSGKTTLTLHIAAECQRQGGTVAFVDAEHALDTAYA 113
                              67999****************9998877788888888887776555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (374 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       408  (0.0227564); expected 358.6 (0.02)
Passed bias filter:                      364  (0.0203023); expected 358.6 (0.02)
Passed Vit filter:                        67  (0.00373696); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              18  [number of targets reported over threshold]
# CPU time: 0.70u 0.28s 00:00:00.98 Elapsed: 00:00:00.50
# Mc/sec: 2230.50
//
Query:       PHY93_01675|PHY93_01675  [L=158]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.7e-40  138.3   3.6    1.9e-40  138.2   3.6    1.0  1  PgpA      Phosphatidylglycerophosphatase A


Domain annotation for each model (and alignments):
>> PgpA  Phosphatidylglycerophosphatase A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  138.2   3.6   1.1e-44   1.9e-40       5     142 ..      17     156 ..      13     157 .. 0.93

  Alignments for each domain:
  == domain 1  score: 138.2 bits;  conditional E-value: 1.1e-44
                              HHHHHTT......--HHHHHHHHHHHTT.HHHHH.HHH.HHHHHHHHHHHHHHHHHHT-S-HHT-TT--HHHHTTHHHHH...... CS
                     PgpA   5 atlfgsGllpvaPgtvgslaalllalllllleslslll.llilllflvGiwackktekelgekDpgeiviDEvvgqwiallllpat 89 
                                +fgsG+lp+aPgt+g+la+l++ + + +++ + +l+ +l+l++++++ +++++++kel+ +Dp++iviDEv+g+  a l+++++
  PHY93_01675|PHY93_01675  17 LSFFGSGYLPKAPGTWGTLATLPFLYGIGRFNPPYFLFvPLLLIVTIISSFVAESVQKELKLHDPQWIVIDEVLGMTTAWLFIQTH 102
                              579*******************************7666899999************************************999885 PP

                              ..TT.HHHHHHHHHHHHS--THHHHTSSS.-S---TTHHHHHHHHHHHHHHHHH CS
                     PgpA  90 llal.llafilFrlfDivKpgpigwldrklkgglgvmlDDllAgiaaalvlali 142
                               l   ++ filFr+fDivK++p +++d+k+++g g++lDD+++g++a+l+  +i
  PHY93_01675|PHY93_01675 103 NLLHlTILFILFRFFDIVKIWPASYFDKKVHHGAGTILDDIVSGLFAGLTYLVI 156
                              55554999****************************************998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (158 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       615  (0.034302); expected 358.6 (0.02)
Passed bias filter:                      347  (0.0193541); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.26s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 1070.60
//
Query:       PHY93_01680|PHY93_01680  [L=411]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
  ------ inclusion threshold ------
      0.065   13.5   0.1      0.065   13.5   0.1    2.7  3  RelA_SpoT  Region found in RelA / SpoT proteins


Domain annotation for each model (and alignments):
>> RelA_SpoT  Region found in RelA / SpoT proteins
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.1       0.2   3.6e+03      46      73 ..     124     151 ..     114     165 .. 0.65
   2 ?   13.5   0.1   3.6e-06     0.065       4      64 ..     188     245 ..     185     313 .. 0.81
   3 ?   -0.7   0.1     0.092   1.7e+03      90     115 ..     365     392 ..     346     394 .. 0.75

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 0.2
                              HHHHHHT-SSSEEEEEEETSTSHCTTCC CS
                RelA_SpoT  46 vlelikklwdvkpkrfkdyiaepkengY 73 
                              +l++i++ ++  ++   +y+++ +++ +
  PHY93_01680|PHY93_01680 124 ILKVIHTIMHTDKDLRSNYFNIVQTQIF 151
                              5667777777777766666666555554 PP

  == domain 2  score: 13.5 bits;  conditional E-value: 3.6e-06
                              --HHHHHHHHHHCT--CCCCCCCSSTSEEEEEEESSHHHHHHHHHHHHT-SSSEEEEEEET CS
                RelA_SpoT   4 KslysiieKlerkgikveekfeeitDligiRvivefkddvyevlelikklwdvkpkrfkdy 64 
                              K+ +s+i Kl +k    e+  ee+ D ig+R ++++  d+ +v++++ +++ v+p++ k  
  PHY93_01680|PHY93_01680 188 KTRESTIIKLLHKA---ENVAEELFDRIGVRFVTNSRFDTLRVIRFLLEKNIVIPHNNKPS 245
                              78899999999998...479**************************998888888766544 PP

  == domain 3  score: -0.7 bits;  conditional E-value: 0.092
                              EEEEEEEEHHHHHHHH..HHHHHHHHCT CS
                RelA_SpoT  90 lvEiQiRtiamdawae..iehhlrYkek 115
                              ++EiQi   +  +  +   ++h +Yk++
  PHY93_01680|PHY93_01680 365 PYEIQIVDNDAYRENSqgEASHQEYKRQ 392
                              6899997655544444567888899987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (411 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1079  (0.0601818); expected 358.6 (0.02)
Passed bias filter:                      527  (0.0293937); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.64u 0.26s 00:00:00.90 Elapsed: 00:00:00.46
# Mc/sec: 2664.77
//
Query:       PHY93_01685|PHY93_01685  [L=50]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (50 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       257  (0.0143343); expected 358.6 (0.02)
Passed bias filter:                      214  (0.011936); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.24s 00:00:00.65 Elapsed: 00:00:00.41
# Mc/sec: 362.58
//
Query:       PHY93_01690|PHY93_01690  [L=267]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.2e-09   36.4   4.9    4.2e-09   36.4   4.9    2.7  3  PqiA             Paraquat-inducible protein A
    0.00046   19.8   1.3    0.00046   19.8   1.3    2.0  2  Exosortase_EpsH  Transmembrane exosortase (Exosortase_EpsH)


Domain annotation for each model (and alignments):
>> PqiA  Paraquat-inducible protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    3.8   0.5     0.005        45       5      45 ..      83     123 ..      80     131 .. 0.84
   2 !   36.4   4.9   4.7e-13   4.2e-09      33     123 ..     130     220 ..     124     226 .. 0.83
   3 ?   -1.9   0.0      0.29   2.6e+03     125     144 ..     242     261 ..     239     266 .. 0.75

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.005
                     PqiA   5 lalalaalillipAnllpimslsllgstseatllsgvlalw 45 
                              + l+l+ +illi  ++ p++ +++  s+ +  l++  +++ 
  PHY93_01690|PHY93_01690  83 ILLVLSLIILLIAGVTTPMIDMDAKISQMNFVLMGHPVHFE 123
                              67999******************999999888888777765 PP

  == domain 2  score: 36.4 bits;  conditional E-value: 4.7e-13
                     PqiA  33 seatllsgvlalwee...gswlvAllvflasilvPllklllllllllslklgrrprgsrrllrlleflgrWsMldVfvvgilvalv 115
                              +++++l+  + ++++   ++ lv++l++++si++Pl+k+++ +  ++  +   ++++ + +  l+ + g+WsM+dV v++i++a++
  PHY93_01690|PHY93_01690 130 QSKSILDVFWIMITNkaiQMKLVGILMITFSIFIPLFKIVSSVGYYYNFQ---QAKENAVIKFLVLKSGKWSMADVMVIAIFMAYI 212
                              5678888888888873335889************************9993...345567777778899****************** PP

                     PqiA 116 klgdlasi 123
                               ++++ + 
  PHY93_01690|PHY93_01690 213 GFNGIITS 220
                              99988765 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 0.29
                     PqiA 125 pgpgllafallvlltmlaas 144
                              ++pg ++f+ ++ll +++++
  PHY93_01690|PHY93_01690 242 LQPGYYLFLTYTLLALFLSE 261
                              67888899999998888775 PP

>> Exosortase_EpsH  Transmembrane exosortase (Exosortase_EpsH)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.8   1.3   5.2e-08   0.00046      85     159 ..      57     132 ..      35     138 .. 0.85
   2 ?    0.0   0.2     0.055   4.9e+02     168     187 ..     194     213 ..     142     263 .. 0.73

  Alignments for each domain:
  == domain 1  score: 19.8 bits;  conditional E-value: 5.2e-08
          Exosortase_EpsH  85 lillglvllllGlralrlllf.pllllllalPlpavlvaqlslpLqllvaavagfllsllgipvereGnviqlptg 159
                              ++l+ l ++l+G  +l+   + p  ++ll+l l+  l+a ++ p++ + a++++  + l+g pv +e++v+++++ 
  PHY93_01690|PHY93_01690  57 ILLILLSVFLFGMTGLKKQPLiPSQYILLVLSLIILLIAGVTTPMIDMDAKISQMNFVLMGHPVHFENQVLYFQSK 132
                              889999******9999988777*************************************************99544 PP

  == domain 2  score: 0.0 bits;  conditional E-value: 0.055
          Exosortase_EpsH 168 sGlrsllallalglllallf 187
                              sG  s+   +++++++a++ 
  PHY93_01690|PHY93_01690 194 SGKWSMADVMVIAIFMAYIG 213
                              44445555555555555544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (267 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1345  (0.0750181); expected 358.6 (0.02)
Passed bias filter:                      561  (0.0312901); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.42
# Mc/sec: 1902.83
//
Query:       PHY93_01695|PHY93_01695  [L=210]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.4e-21   76.9  11.9    1.6e-21   76.6  11.9    1.0  1  LysE            LysE type translocator
  ------ inclusion threshold ------
       0.73   10.1  16.5       0.47   10.7  12.7    2.5  2  ABC_trans_CmpB  Putative ABC-transporter type IV


Domain annotation for each model (and alignments):
>> LysE  LysE type translocator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.6  11.9   1.8e-25   1.6e-21       5     190 ..      17     203 ..      13     206 .. 0.94

  Alignments for each domain:
  == domain 1  score: 76.6 bits;  conditional E-value: 1.8e-25
                     LysE   5 lspGpqnllvlkqgikrgfkggilvalgvligdavlillgllGlalLlkaapivlsilrllGgayLlwlgvlalrdakekkveaek 90 
                              +++Gp+n+ v+++ ikr f  ++++alg  ++d ++++++l+Gl++L   +p +  + +++G+++L+ +g++ l  + ++ ++ e 
  PHY93_01695|PHY93_01695  17 IPIGPVNVWVVNTLIKRDFNSAFAIALGGCLMDFIYFMIVLTGLSFLHF-SPKIILFFKIVGVVFLFLFGLKELIVKTRNFNLDEH 101
                              68********************************************999.**********************99888887766655 PP

                     LysE  91 sve..aslvkpflkglllslsNPkailfwlsvisallaka.eqygdagrlilaaglvvasliwfsllaflaarlsrrlsskkvlri 173
                              s    ++l+ +fl g+++  sNP  i+ + ++ +a+ + +   y+  ++l l +g+ ++s +wf+ll  +++ + +++ ++ ++  
  PHY93_01695|PHY93_01695 102 SETnkTTLIGFFLLGVVIYSSNPALIVSMSALAAAIKSWNlFNYNLRSYLSLSIGISLGSAFWFYLLLRIVKKYENKIPERFYA-N 186
                              544469***************************************************************************988.9 PP

                     LysE 174 invvvgvlligfavkll 190
                               + v+gvl++++ ++++
  PHY93_01695|PHY93_01695 187 FSRVCGVLIVIISLYMA 203
                              9*********9999876 PP

>> ABC_trans_CmpB  Putative ABC-transporter type IV
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.0   1.0     0.025   2.2e+02      94     146 ..       3      52 ..       2      56 .. 0.74
   2 ?   10.7  12.7   5.3e-05      0.47       5     142 ..      40     197 ..      37     206 .. 0.63

  Alignments for each domain:
  == domain 1  score: 2.0 bits;  conditional E-value: 0.025
           ABC_trans_CmpB  94 iclefsllwgllglllvklihpllekllskipkkvlkilliillvlflvdlvv 146
                              i+l + l++g+l+++ +  ++ ++ +   +i++   + +++i l+ +l+d+++
  PHY93_01695|PHY93_01695   3 IALSIGLIIGFLSCIPIGPVNVWVVNT--LIKRD-FNSAFAIALGGCLMDFIY 52 
                              678888999999999999999999995..45555.555666667777888876 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 5.3e-05
           ABC_trans_CmpB   5 iysflGwilEviycsvk.ekk.fvsnrgflygPflpiYGfgavllllll.....ll.....................flvsavlat 62 
                               +++ G+++++iy ++  ++  f+ + +  +  f  i G+  ++l   +     ++                     fl+++v+ +
  PHY93_01695|PHY93_01695  40 AIALGGCLMDFIYFMIVlTGLsFL-HFSPKIILFFKIVGVVFLFL---FglkelIVktrnfnldehsetnkttligfFLLGVVIYS 121
                              667889999999988441333233.22222222222333333333...13355411455555566666666655565777777776 PP

           ABC_trans_CmpB  63 vlEyitgllleklfgaklWDYsdkplningriclefsllwgllglllvklihpllekllskipkkvlkilliillvlflv 142
                                  ++  +      +k+W+     +n+n r  l  s+ + l+++++++l+  +++k  +kip+++   ++ ++ vl+++
  PHY93_01695|PHY93_01695 122 SNPALIVSMSALAAAIKSWN----LFNYNLRSYLSLSIGISLGSAFWFYLLLRIVKKYENKIPERFYANFSRVCGVLIVI 197
                              66666666667777888886....799******************************999*****885544444444433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (210 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       988  (0.0551063); expected 358.6 (0.02)
Passed bias filter:                      363  (0.0202465); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.43
# Mc/sec: 1463.34
//
Query:       PHY93_01700|PHY93_01700  [L=141]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.2e-28   99.3   0.1    1.3e-28   99.1   0.1    1.0  1  DUF2141   Uncharacterized protein conserved in bacteria (DUF2


Domain annotation for each model (and alignments):
>> DUF2141  Uncharacterized protein conserved in bacteria (DUF2141)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   99.1   0.1   7.4e-33   1.3e-28       3     108 ..      30     136 ..      28     140 .. 0.94

  Alignments for each domain:
  == domain 1  score: 99.1 bits;  conditional E-value: 7.4e-33
                  DUF2141   3 veglksdkGkvlvalydseegfpk..kkkkaikkkvkkaeagkvtvtfenlppGtYAvavfhDengngkldknllgiPkEgyGfSn 86 
                              v+gl sd+G++ ++l + +++f+   + k+a++k+  ++++++v+ tf+++p G+YA++++hD n n++ldkn+l iPkE+yGfSn
  PHY93_01700|PHY93_01700  30 VTGLDSDEGQIKFDLDKAADTFKPkeNGKQAFTKGRSPIKDKRVEYTFKDIPCGEYAIKLYHDANMNQTLDKNFLNIPKEQYGFSN 115
                              89********************766678899999**************************************************** PP

                  DUF2141  87 nakillgpPkfekaafevedke 108
                               + + ++pPk+eka+f +++k+
  PHY93_01700|PHY93_01700 116 CK-GCIRPPKWEKAKFVFDKKH 136
                              *9.888***********97765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (141 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       409  (0.0228122); expected 358.6 (0.02)
Passed bias filter:                      338  (0.0188521); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.24s 00:00:00.74 Elapsed: 00:00:00.45
# Mc/sec: 942.06
//
Query:       PHY93_01705|PHY93_01705  [L=296]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.6e-17   62.5   0.0      7e-15   55.4   0.0    2.1  1  Abhydrolase_1  alpha/beta hydrolase fold
    3.4e-13   49.4   0.0    2.7e-12   46.5   0.0    1.9  1  Hydrolase_4    Serine aminopeptidase, S33
    1.7e-07   32.1   0.0    2.4e-07   31.6   0.0    1.3  1  Abhydrolase_6  Alpha/beta hydrolase family
    1.2e-05   24.2   0.0     0.0001   21.1   0.0    2.0  1  Ndr            Ndr family
    0.00046   20.1   0.2     0.0022   17.8   0.0    2.0  2  Abhydrolase_2  Phospholipase/Carboxylesterase
     0.0034   17.1   0.1     0.0056   16.4   0.1    1.4  1  FSH1           Serine hydrolase (FSH1)
  ------ inclusion threshold ------
      0.024   14.2   0.0      0.034   13.7   0.0    1.3  1  LIDHydrolase   Lipid-droplet associated hydrolase


Domain annotation for each model (and alignments):
>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.4   0.0   2.7e-18     7e-15       1     254 [.      34     278 ..      34     281 .. 0.74

  Alignments for each domain:
  == domain 1  score: 55.4 bits;  conditional E-value: 2.7e-18
                              SEEEEE-STTTCGGGGTTGHHHHHHHHTTSEEEEEEETTSTTSSSTTTGB.CHHSHHHHHHHHHHHHHHCTTSSEEEEEETHHHHH CS
            Abhydrolase_1   1 pvlvilhGlpgssdvwaerglapaLakdgfdvillDlrGvgySspapacinddygtasvaddldrildalgddkltlvGhSmGGmi 86 
                              pvlv++ Gl+ s +  ++ + +p +++ gf++++ D r + +Ss   +   ++ ++ ++ +dl+ +l+ l+++k + vGhSmG  i
  PHY93_01705|PHY93_01705  34 PVLVLIYGLLCSNNH-FK-FQIPFFEELGFQILIHDYRFHYSSSQEGDV--ETCNFPNITKDLHELLADLNIKKSIFVGHSMGVNI 115
                              799999999985554.44.588888888*******************96..677777899999999******************** PP

                              HHHHHHHHGGGEEEEEEESE...CSSCCHHHHHHHHHHHHHHCHHCHHHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHCHHHC CS
            Abhydrolase_1  87 alayaaeyperVkalvllga...idpaaslieaqrqqaksfpdffdgyaadcarnpagplladelaaleqrhrlvdalkfpdkskr 169
                              +l+   +ype +++ vl+++   ++  +++++ +  ++  + ++f    ++ ++     ++ ++ a +  +               
  PHY93_01705|PHY93_01705 116 CLEHSRRYPEDMQGQVLISGtvvPPQDIMFDSNMVDIITPYLKAFTEKKPALFKSFWKNSYKNPIAQYMIF--------------- 186
                              ********************555555555555555555555555555555555555555555555555555............... PP

                              CHHHHHHHCHHHHHHHHHHHHHHHHCCHHHHHHHHHC.........THHHHSEEEEEEETTCSSSCHHHHHHHHHCHTSEEEEEEE CS
            Abhydrolase_1 170 fpssgsdnasslatgalksieqwpttdsaklllrlre.........lknvlaptlvisgtsDplvppkaledlaqllpkkrlvvis 246
                               + ++ +  +    + +++++ ++++++  ++  l +         l  +++ptlvi+g++D+++p+  ++ l+ +lp ++l+++ 
  PHY93_01705|PHY93_01705 187 -DGGF-NKKQVEMEFIQLYMKKISELPEILFFHLLKImhdhdvinhLESIKIPTLVIGGDKDKIIPNYLQRILTTHLPMSELYIVK 270
                              .4422.44444444444555555555555555555555555555558889************************************ PP

                              TCSSSHHH CS
            Abhydrolase_1 247 dagHlafl 254
                              d+ H  + 
  PHY93_01705|PHY93_01705 271 DGSHVPQA 278
                              ****8775 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.5   0.0   1.1e-15   2.7e-12       3     232 ..      32     274 ..      30     279 .. 0.72

  Alignments for each domain:
  == domain 1  score: 46.5 bits;  conditional E-value: 1.1e-15
              Hydrolase_4   3 pkavvvlvHGlaehsgryaelaeaLaaqGfavyalDhrGhGrsegkrghvp..sfddyvdDlaafvekvkeehpelplfllGhSmG 86 
                               + v+vl+ Gl  + + ++  +  + + Gf+++++D+r h  s  + g+v+  +f  +++Dl++++  +      ++ + +GhSmG
  PHY93_01705|PHY93_01705  32 TRPVLVLIYGLLCSNNHFKFQIPFFEELGFQILIHDYRFHYSS-SQEGDVEtcNFPNITKDLHELLADLN----IKKSIFVGHSMG 112
                              67899999999999999999999***************99777.666655522899*********97776....7778999***** PP

              Hydrolase_4  87 GliallyllrypdkvaglilsaPalkikakl.......k.appllklllkllgkllpklqv.......snnlkadslsr....dpe 153
                                i l++  ryp++++g +l++  + +++++       + ++p+lk++ +    l++++                ++ +    +++
  PHY93_01705|PHY93_01705 113 VNICLEHSRRYPEDMQGQVLISGTVVPPQDImfdsnmvDiITPYLKAFTEKKPALFKSFWKnsyknpiA----QYMIFDggfnKKQ 194
                              ********************9999999999967776664444555554444444444444367644442....4444332220222 PP

              Hydrolase_4 154 vvaayeadplv.hgkitvrlllelldamk..rleeraakitlPllllhGeaDkvvdpeasrelyerlgskdktlklypglyH 232
                              v  ++ +  +  + ++   l+ +ll++m   ++ ++ ++i++P+l++ G++Dk++++  +r l  +l+    +l + + + H
  PHY93_01705|PHY93_01705 195 VEMEFIQLYMKkISELPEILFFHLLKIMHdhDVINHLESIKIPTLVIGGDKDKIIPNYLQRILTTHLPM--SELYIVKDGSH 274
                              222333333333444555677778888852268999************************999999995..66666666666 PP

>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.6   0.0   9.4e-11   2.4e-07      20     218 ..      56     285 ..      36     287 .. 0.57

  Alignments for each domain:
  == domain 1  score: 31.6 bits;  conditional E-value: 9.4e-11
                              HHHHCCTCEEEEE--TTS..TS-GGCS--HHH...CHHHHHHHCCTT..TTSEEEEEETCHHHHHHHHHHCC.......EE.EEES CS
            Abhydrolase_6  20 aallaagvhvlapDlpGh..Grsdpppldled...ladlaalldelaagggpvvlvGHSlGGalalaaapla.....lvvg.vlld 94 
                               + l+ ++  l+ D++ h   +++++  + +      dl++ll++l    ++ + vGHS+G  + l+   +      +  g vl++
  PHY93_01705|PHY93_01705  56 FEELGFQI--LIHDYRFHysSSQEGDVETCNFpniTKDLHELLADLN--IKKSIFVGHSMGVNICLE---HSrrypeDMQGqVLIS 134
                              44555555..8888887753222333333333334489999999996..9999********999999...4444479777789999 PP

                              -..----TTT.......S----TTHHHHHH..TT-C...CCCHCCH........S-HSCCCCHHHC...CCCHCHCCCGHH..... CS
            Abhydrolase_6  95 ppptalpagl.......laaalelllalla..llrl...lawlsre........plprlfladeda...daawrarlarla..... 152
                              +  t++p+ +       ++ + ++l+a++   +  +     w + +        +++ +f ++  +    + +    ++l+     
  PHY93_01705|PHY93_01705 135 G--TVVPPQDimfdsnmVDIITPYLKAFTEkkP--AlfkSFWKNSYknpiaqymIFDGGFNKKQVEmefIQLYMKKISELPeilff 216
                              9..333333333322223333333333333221..122345553223432332322223333222123333333333333344333 PP

                              HHCCHHC.HTTCCHHTT-TTGCEEE.CTT-CHHHHCHHCCCH..STTEEETCE...SSS-HHHHSHHHHH CS
            Abhydrolase_6 153 allaglg.llpaaawadlpvpllvl.ggeDplvprllerlla..qagarlpvvlpgaGHlphleepdeva 218
                              +ll+ +       +++ +  p+lv+ g++D+++p +l+r+l+  ++  +l  ++++++H+p+ + p+ ++
  PHY93_01705|PHY93_01705 217 HLLKIMHdHDVINHLESIKIPTLVIgGDKDKIIPNYLQRILTthLPMSEL-YIVKDGSHVPQADFPELIN 285
                              2222222222355999999999999669999***********77666666.**********998887765 PP

>> Ndr  Ndr family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.1   0.0     4e-08    0.0001      82     274 ..      85     290 ..      73     294 .. 0.67

  Alignments for each domain:
  == domain 1  score: 21.1 bits;  conditional E-value: 4e-08
                              HHHHHTTHHHHHHHHT---EEEEEETHHHHHHHHHHHHSGGGEEEEEEES--..-S---HHHHHHHHHH................. CS
                      Ndr  82 lddladqllavldhfklksviglGvgaGAyilarfalkhperveglvLinit..skaagwvewakeKlsskllk..........kv 155
                                +++++l ++l  +++k+ i +G   G +i + ++ ++pe ++g vLi+ t  + ++ + ++    +++ +lk          k+
  PHY93_01705|PHY93_01705  85 FPNITKDLHELLADLNIKKSIFVGHSMGVNICLEHSRRYPEDMQGQVLISGTvvPPQDIMFDSNMVDIITPYLKaftekkpalfKS 170
                              55799********************************************8551144545555555444444443111100000022 PP

                              TTTS-HHHHHHHHHS-HHHHHH............T-HHHHHHHHHHHT-TTHHHHHHHHHHHHT-------TTSSSS-EEEEEETT CS
                      Ndr 156 gltdllkdlllahkFgkeekse............nsdlvreyrkllkerlnsknlelyleaynkRrdleierkklevkvllvvGdk 229
                               + ++ k+ + +                      + + ++ y k+++e ++   l  +l  +++ +d+  ++++ ++++l++ Gdk
  PHY93_01705|PHY93_01705 171 FWKNSYKNPIAQ---------YmifdggfnkkqvEMEFIQLYMKKISELPE--ILFFHLLKIMHDHDVINHLESIKIPTLVIGGDK 245
                              233333333322.........022223333333488999999999999988..67777889999999999************9999 PP

                              STTHHHHHHHHHHS-TTTEEEEEETT-TT-HHHH-HHHHHHHHHH CS
                      Ndr 230 spfvdevvevnskldkkkttllkvadsgglvleeqPdklaeslkl 274
                                   + ++   +     ++l  v+d +  ++++ P+ + + l  
  PHY93_01705|PHY93_01705 246 DKIIPNYLQRILTTHLPMSELYIVKDGSHVPQADFPELINQRLLR 290
                              877766666555555555666666666666666666666666655 PP

>> Abhydrolase_2  Phospholipase/Carboxylesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.0   8.6e-07    0.0022     102     179 ..      99     176 ..      70     208 .. 0.78
   2 ?   -0.3   0.1       0.3   7.7e+02     155     183 ..     234     258 ..     221     284 .. 0.71

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 8.6e-07
                              --GGGEEEEEETHHHHHHHHHHHT-SS--SEEEEES---TTGGGTTTTS-GGGGG-EEEEEEETT-SSS-HHHHHHHH CS
            Abhydrolase_2 102 ipssriiigGFSqGaalalylaltlpkklggivafsgalplsqklessatavtkklpilqiHgeeDpvvplalgkaak 179
                              ++ ++ i++G S+G  + l+ +  +p+ ++g v +sg+++++q ++   + v   +p+l+ + e+ p +  ++ k+++
  PHY93_01705|PHY93_01705  99 LNIKKSIFVGHSMGVNICLEHSRRYPEDMQGQVLISGTVVPPQDIMFDSNMVDIITPYLKAFTEKKPALFKSFWKNSY 176
                              56677899************************************99999999999*****999998876555555544 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.3
                              GG-EEEEEEETT-SSS-HHHHHHHHHHHH CS
            Abhydrolase_2 155 kklpilqiHgeeDpvvplalgkaakevlk 183
                               k+p l i g++D+++p  l+     +l+
  PHY93_01705|PHY93_01705 234 IKIPTLVIGGDKDKIIPNYLQR----ILT 258
                              479999999*******987654....333 PP

>> FSH1  Serine hydrolase (FSH1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.1   2.2e-06    0.0056     131     205 ..     177     278 ..     147     280 .. 0.72

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 2.2e-06
                     FSH1 131 shpslkfailvsGfkleepk..........................yeeyy..eedkiqtptLhvlGelDtvvdeerseaLaeafk 188
                              ++p  + +i+  Gf+ ++ +                          +++ +  + ++i++ptL + G++D+++++   + L ++  
  PHY93_01705|PHY93_01705 177 KNPIAQYMIFDGGFNKKQVEmefiqlymkkiselpeilffhllkimHDHDVinHLESIKIPTLVIGGDKDKIIPNYLQRILTTHLP 262
                              5555566666677766666666666666666666666666665555333223467889****************999999999999 PP

                     FSH1 189 nsskvlkHpggHfvPnk 205
                                s+++  + g +vP+ 
  PHY93_01705|PHY93_01705 263 M-SELYIVKDGSHVPQA 278
                              9.888888888889975 PP

>> LIDHydrolase  Lipid-droplet associated hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   1.3e-05     0.034      83     135 ..     100     155 ..      86     234 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1.3e-05
             LIDHydrolase  83 kdvklilvGHSvGaYialevlkrlsersikkvvlLfPtied....iakSpngkkltk 135
                              + +k i+vGHS G  i le  +r++e+ +++ vl+ +t++     + +S+   ++t+
  PHY93_01705|PHY93_01705 100 NIKKSIFVGHSMGVNICLEHSRRYPED-MQGQVLISGTVVPpqdiMFDSNMVDIITP 155
                              557889********************8.99999999999875555555555555444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (296 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       476  (0.0265492); expected 358.6 (0.02)
Passed bias filter:                      399  (0.0222544); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.62u 0.27s 00:00:00.89 Elapsed: 00:00:00.47
# Mc/sec: 1881.17
//
Query:       PHY93_17010|PHY93_17010  [L=362]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.2e-38  132.6  45.6    2.8e-38  132.3  45.6    1.0  1  NnrS           NnrS protein


Domain annotation for each model (and alignments):
>> NnrS  NnrS protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  132.3  45.6   1.5e-42   2.8e-38       7     362 ..      10     359 ..       9     361 .. 0.75

  Alignments for each domain:
  == domain 1  score: 132.3 bits;  conditional E-value: 1.5e-42
                     NnrS   7 FRpfFllaalfaalavllWllvlaga.avppllwHaheMlfGfalavvaGFLlTavpnWtgt..ppvkgrplallvllwlaarlal 89 
                              +R+fF++++l++ +  +lW+l ++ +    p ++H   M+ Gf+l++v GFL+Ta+p++t+   p+++  +l +++  +l   l+ 
  PHY93_17010|PHY93_17010  10 YRFFFPMGWLMGFWGAFLWIL-FSLNfVEYPGALHPEIMMGGFLLCFVSGFLTTAAPKFTDSypPTITDLRLSVIFTSLLFISLM- 93 
                              8*******************7.4444336789*****************************844556666666666666665555. PP

                     NnrS  90 lllg....lalaavldlafllllalllarellaakqwrn...lavlalllllalanllfhlall.glatalasaglrl.alllvll 166
                                +     + la++l+++f   la++++ + +++k++     l++ + ll ++++n+l    l+ g+     + g  l + +++l 
  PHY93_17010|PHY93_17010  94 --FHdtiyFRLAVLLEFLF---LAWFVGNRFYKRKSNPPvvfLFIGFGLLSGVAGNIL----LItGQF---VELGRLLfLHAYILS 167
                              ..33343224677777766...777788888998875553334444555555666666....442333...2345555499999** PP

                     NnrS 167 lillvggRvipfftanalelkarpsprldr..lalallllalllell...lllaaalalaaallqlvrlarwrlwrtlrep..llw 245
                              ++l +g+R++p++  + +    ++++      +a++++   +++e++   +l     +l   ++ l+ ++ w+ ++  ++     w
  PHY93_17010|PHY93_17010 168 FVLGIGSRLVPALLGAEV----TNFKIKTVlaVAIIFF-SSFFIEVFissYLG---SMLRSLIILLIAIFAWKIHQLPKRNafQSW 245
                              ***************999....3333333321333333.34455665343333...34555667777778888888877776689* PP

                     NnrS 246 vLhlgylwlplgllllglaalgaglvlesaalHaltvGalglmilavmtrvslgHtgrplva...pklvvlaflllllaallRvla 328
                               L+++ + l++g l ++l      + ++ + lH+++v +l +++l+++trvsl H+++++     ++ +++a+ l++laal+Rv a
  PHY93_17010|PHY93_17010 246 GLWISCWSLVIGSLGASLF-----PDYRIHLLHLVFVSGLSMLTLMIATRVSLSHGKHDMSLeikSRHLQAAIFLFILAALARVSA 326
                              *************998665.....3599******************************9954488********************* PP

                     NnrS 329 plllpaalllllllaallWilafalfllryapil 362
                                ++p+ +   l++aal+Wi++++l+ ++++p +
  PHY93_17010|PHY93_17010 327 -GFFPSFYEGHLTCAALIWIAGLFLWGWAFLPKI 359
                              .55689999999*******************975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (362 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       773  (0.0431145); expected 358.6 (0.02)
Passed bias filter:                      212  (0.0118244); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.62u 0.27s 00:00:00.89 Elapsed: 00:00:00.47
# Mc/sec: 2321.33
//
Query:       PHY93_01710|PHY93_01710  [L=139]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.9e-07   30.7   0.0    3.7e-07   30.4   0.0    1.2  1  Yop-YscD_cpl  Inner membrane component of T3SS, cytoplasmic d
    1.6e-05   25.2   0.0    2.3e-05   24.7   0.0    1.2  1  FHA           FHA domain


Domain annotation for each model (and alignments):
>> Yop-YscD_cpl  Inner membrane component of T3SS, cytoplasmic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.4   0.0   4.1e-11   3.7e-07      16      88 ..      22      95 ..      16      99 .. 0.92

  Alignments for each domain:
  == domain 1  score: 30.4 bits;  conditional E-value: 4.1e-11
                             TEEEEEES-TT-SEE---TTS-TT-EEEEEETTEEEEEE-CESS--EETTEE-S.ECC--TTSEEEETTEEEEE CS
             Yop-YscD_cpl 16 egevviGsdedcDivLsDkevsrkhlkLeveeesvrledlgsrngllvngerve.elelrpgdvlelGttelal 88
                              +++ iG+++++D++  D+e++ ++l +++ + ++ +++l+     +vng++++ +l+l+++d ++ G  ++++
  PHY93_01710|PHY93_01710 22 FDQISIGRSKKNDLIFLDRELPLQYLLIKLAQGQLIVQSLNRSPFFFVNGKKISgTLKLKANDTVAFGENQIRI 95
                             57899*************************************************8999*********9877665 PP

>> FHA  FHA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.7   0.0   2.5e-09   2.3e-05       1      69 []      25      89 ..      25      89 .. 0.97

  Alignments for each domain:
  == domain 1  score: 24.7 bits;  conditional E-value: 2.5e-09
                             EEEESSTTSSEETTSTTSTTTEEEEEEETTCEEEEEEEESSSSSEEETTEEESTTSEEEE-TTEEEEET CS
                      FHA  1 vtiGRssdcdivlddpsiSrkHalikfdkgsgkvyleDlgSknGtfvNgqrigkgepveLksgdvielG 69
                             ++iGRs+++d+++ d+++  + +lik  +g  ++ ++ l+ +   fvNg++i+   + +Lk +d++ +G
  PHY93_01710|PHY93_01710 25 ISIGRSKKNDLIFLDRELPLQYLLIKLAQG--QLIVQSLNRSPFFFVNGKKISG--TLKLKANDTVAFG 89
                             58****************************..*********************9..***********98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (139 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       309  (0.0172346); expected 358.6 (0.02)
Passed bias filter:                      261  (0.0145574); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 979.39
//
Query:       PHY93_01715|PHY93_01715  [L=719]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.9e-21   74.3   2.1    4.3e-16   59.2   0.1    2.8  3  Helicase_C     Helicase conserved C-terminal domain
    5.1e-17   62.2   0.6    5.5e-16   58.8   0.2    2.4  2  DEAD           DEAD/DEAH box helicase
    1.3e-06   28.5   2.6    2.1e-05   24.6   0.0    3.1  3  ResIII         Type III restriction enzyme, res subunit
    0.00021   21.0   0.2    0.00047   19.8   0.2    1.6  1  RecG_wedge     RecG wedge domain
     0.0083   15.9   0.1      0.016   15.0   0.1    1.5  1  AAA_30         AAA domain
  ------ inclusion threshold ------
      0.011   15.6   0.0      0.022   14.6   0.0    1.5  1  Helicase_RecD  Helicase
      0.056   13.2   0.0       0.17   11.6   0.0    1.8  1  DUF2572        Protein of unknown function (DUF2572)
       0.15   12.1   0.0        1.8    8.6   0.0    2.3  2  TsaE           Threonylcarbamoyl adenosine biosynthesis prote


Domain annotation for each model (and alignments):
>> Helicase_C  Helicase conserved C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.9   0.1   2.3e-05     0.052      13      75 ..     344     410 ..     333     438 .. 0.75
   2 !   59.2   0.1   1.9e-19   4.3e-16      12     109 ..     504     614 ..     492     616 .. 0.82
   3 ?   -4.1   0.0         8   1.8e+04      12      27 ..     686     701 ..     673     709 .. 0.54

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 2.3e-05
                              TTTTSEEEEEESSHH.HHHH.....HHHHHHHTTSTEEEESTTSTHHHHHHHHHHHHTTSSSEEEESGG CS
               Helicase_C  13 eeeggkilifvntid.rlek.....vklllekkgikvavlhgelpqnereeileqfnkgesdvLiatdv 75 
                               e++ ++ ++++t    + +      +l+   k+++v  + g++p++e+++i ++  +g++d+++ t  
  PHY93_01715|PHY93_01715 344 IENDAQVALMCPTEAlAM-QhflscSELF-DAKDYNVRLILGSTPAKEKKQIQKELEDGTIDFIVGTHS 410
                              567788888999999522.2345534555.5668****************************9999864 PP

  == domain 2  score: 59.2 bits;  conditional E-value: 1.9e-19
                              HTTTTSEEEEEESSHH...HHHH.....HHHHHHHT.....TSTEEEESTTSTHHHHHHHHHHHHTTSSSEEEESGGGTSSSTSTT CS
               Helicase_C  12 leeeggkilifvntid...rlek.....vklllekk.....gikvavlhgelpqnereeileqfnkgesdvLiatdvaerGidipk 84 
                              + + +++i+++v+ i+   ++e+     v++l e++     +  v  lhg+++++e+ +i+++f+++++++L++t+v+e Gi++ +
  PHY93_01715|PHY93_01715 504 RLSLHEQIYVVVPAINesvEVEQdfhnlVDIL-ERFkkyfpDHVVEGLHGKMKSDEKAKIFSAFKNHKVNILVSTSVIEVGINVLN 588
                              45668999999999998664444666653333.44444559999****************************************** PP

                              ESEEEESSSS.SSHHHHHHHHTTSSS CS
               Helicase_C  85 vnlVinfdlp.rnvtsyiqriGRtgR 109
                              ++++ ++++  ++++s++q +GR+gR
  PHY93_01715|PHY93_01715 589 ATVMAIMNPErFGLSSLHQLRGRVGR 614
                              **********778************9 PP

  == domain 3  score: -4.1 bits;  conditional E-value: 8
                              HTTTTSEEEEEESSHH CS
               Helicase_C  12 leeeggkilifvntid 27 
                              l e +++++ f++++d
  PHY93_01715|PHY93_01715 686 LYEAREDAINFIQNQD 701
                              3345555555555554 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.8   0.2   2.5e-19   5.5e-16      18     170 ..     323     457 ..     303     463 .. 0.82
   2 ?    0.6   0.0      0.19   4.2e+02      66     105 ..     534     578 ..     521     603 .. 0.70

  Alignments for each domain:
  == domain 1  score: 58.8 bits;  conditional E-value: 2.5e-19
                              EEEESTTSSHHHHHHHHHHHHHHHSTTSTS-EEEEEESSHHHHHHHHHHHHHHTTTSTSEEEEEET...TSSHHHHHHHHHTT.CS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxx.xx RF
                     DEAD  18 lvaaeTGsGKTlaflipvlqivyetkgktgpkalivePtreLaeqtlnnlkkfkkyidlrvlliig...gvaardqlskldng.vd 99 
                              l+++++G GKT++++++++  +     ++  ++ +++Pt++La q++  ++++++  d++v li+g    +++++ +++l+ g +d
  PHY93_01715|PHY93_01715 323 LIQGDVGCGKTTIAMLAAMVVI-----ENDAQVALMCPTEALAMQHFLSCSELFDAKDYNVRLILGstpAKEKKQIQKELEDGtID 403
                              7999***************666.....68889***********************99999999999444455555666776557** PP

                              EEEEEHHHHHHHHHCTSSHCTTEEEEEEETHHHHHHTTTHHHHHHHHHHSHHHCTTSTTTSEEEEEESSBS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD 100 ivvgtpgrlddllstgklnlsqvrflVlDEadrlldqgfsdfinrilnqlpqitcdgklqrqvivlSATlp 170
                              ++vgt++ ++d ++     ++q+ + ++DE +++  +++ +  ++   +            +++++SAT+ 
  PHY93_01715|PHY93_01715 404 FIVGTHSLIQDTIQ-----FKQLGLAIIDEQHKFGVDQRIRLTSKSTGT------------HCLIMSATPI 457
                              ***********665.....***************998444444442222............2888888876 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.19
                              HHHHHTTTSTSEEEEEETTSSHHHHHHHH....HTT.CSEEEEEH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxx.xxxxxxxx RF
                     DEAD  66 nlkkfkkyidlrvlliiggvaardqlskl....dng.vdivvgtp 105
                               l++fkky    v+  ++g+ ++d+++k+    +n+ v+i+v+t 
  PHY93_01715|PHY93_01715 534 ILERFKKYFPDHVVEGLHGKMKSDEKAKIfsafKNHkVNILVSTS 578
                              3455555533344445555666666666655555556*****995 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.6   0.0   9.6e-09   2.1e-05       8     169 ..     303     456 ..     296     458 .. 0.77
   2 ?    2.4   0.2     0.062   1.4e+02      71     110 ..     528     577 ..     485     580 .. 0.60
   3 ?   -2.6   0.0       2.1   4.8e+03      56      97 ..     619     667 ..     611     701 .. 0.62

  Alignments for each domain:
  == domain 1  score: 24.6 bits;  conditional E-value: 9.6e-09
                              HHHHHHHHT......TTSEEEEEESTTSTHHHHHHHHHHHH-S.....-EEEEESSHHHHHHHHHHGGGGTGG.........GEEE CS
                   ResIII   8 QeeaienlleklkskrdkrglikmaTGtGKTlvaaklierllkkgkeekflflvprkslleqtleefkkflseayke.....igkk 88 
                              Q + + ++++ l +++    li+   G+GKT +a+ ++  + ++    ++ +++p+++l  q     +++++ ++ +      ++ 
  PHY93_01715|PHY93_01715 303 QLKTMGDVRADLGATHPMMRLIQGDVGCGKTTIAMLAAMVVIENDA--QVALMCPTEALAMQHFLSCSELFDAKDYNvrlilGSTP 386
                              5555555555555455556689999*********888888888755..9***************9999999998888788653333 PP

                              ESSS-B--.......-SEEEEEHHHHHHTH........HHHTTT-SEEEEETGGGTTS.TTTHHHHHT---SEEEEEESS- CS
                   ResIII  89 vsgdkkkakekdstnkkilvttiqsldadseeeeeeseellrdrfdviiiDEaHrlgakkswreilekfkeavllglTATp 169
                               +++k+++ke ++ +++++v t + ++  +          + ++  + iiDE H++g ++ +r    k      l ++ATp
  PHY93_01715|PHY93_01715 387 AKEKKQIQKELEDGTIDFIVGTHSLIQDTI----------QFKQLGLAIIDEQHKFGVDQRIRL-TSKSTGTHCLIMSATP 456
                              555566667888999999999988888777..........5667779***********666665.666677999999***9 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.062
                              H.......HHGGGGTGG......GEEEESSS-B--........-SEEEEE CS
                   ResIII  71 l.......eefkkflseayke..igkkvsgdkkka.kekdstnkkilvtt 110
                                      e+fkk++++++ e  +gk +s++k k+ ++ ++++ +ilv+t
  PHY93_01715|PHY93_01715 528 FhnlvdilERFKKYFPDHVVEglHGKMKSDEKAKIfSAFKNHKVNILVST 577
                              03444444777999999988896555555555555778888889999987 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 2.1
                              -EEEEESSHHHHHHHHHHGGGGTGG........GEEEESSS-B--.... CS
                   ResIII  56 kflflvprkslleqtleefkkflseayke....igkkvsgdkkka...k 97 
                               f flv+ k +    +e++k + ++++ +    +  k++g+++ +   +
  PHY93_01715|PHY93_01715 619 GFCFLVNDKLIAATSMERLKVIENNTDGFkiaeEDLKIRGEGDLFgtdQ 667
                              6888888888888888888777777654343222222333333334443 PP

>> RecG_wedge  RecG wedge domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.8   0.2   2.1e-07   0.00047      10     132 ..      38     168 ..      32     204 .. 0.73

  Alignments for each domain:
  == domain 1  score: 19.8 bits;  conditional E-value: 2.1e-07
               RecG_wedge  10 ekrekiLkklgietiedllyyfPrdyedrrkivpiseikedekvtvkgklvnvekk........kissltiisavlsdgis.qvl. 85 
                              +k  ++L+ +gi+ ++dll+ fP    +   +     ++e++  + ++k+ nv++k        ++  l  is  ++d +s ++l 
  PHY93_01715|PHY93_01715  38 HKSTEKLNAVGINEVRDLLWIFPLRVLELPPLRSFDFVEEGRIFIGRAKILNVQAKpnfrargrDKVMLYNISVHVQDILSdKILt 123
                              5677899****************99988999999999999999999*******998333322222334556788888887625668 PP

               RecG_wedge  86 LkWfnqeyikkklktlkekevlvtGlvkkgef.GaleiknPeieeitg 132
                              LkWfn  y + + k  ++k v++  +   + + G+ +++nP++ ++++
  PHY93_01715|PHY93_01715 124 LKWFNS-YGSVTQK--ISKCVYIEFMGEASIYnGQSQFTNPDFFQLES 168
                              9****6.5444434..67999998888777776999*****9865443 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.1     7e-06     0.016      18     111 ..     319     443 ..     298     452 .. 0.70

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 7e-06
                   AAA_30  18 drvavltGpAGtGKttalkalreaweaaggrviglAptgkaAkv..La..........eelgieastiakllkrlk.......... 81 
                               ++ +++G  G GKtt+   ++ ++ ++  +v+++ pt++ A +  L+          +        +  +l ++           
  PHY93_01715|PHY93_01715 319 PMMRLIQGDVGCGKTTIAMLAAMVVIENDAQVALMCPTEALAMQhfLScselfdakdyN--------VRLILGSTPakekkqiqke 396
                              36899************9999999999999**********9988666655444442220........2222222223333333355 PP

                   AAA_30  82 .................grarlepgtllivDEagmvdtkqlaallka 111
                                               ++ ++++  l i+DE    + +q  +l+++
  PHY93_01715|PHY93_01715 397 ledgtidfivgthsliqDTIQFKQLGLAIIDEQHKFGVDQRIRLTSK 443
                              55667777777777998777888889999999999998888887765 PP

>> Helicase_RecD  Helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.0   9.9e-06     0.022       2      99 ..     324     429 ..     323     455 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 9.9e-06
            Helicase_RecD   2 ltAdRGRGKSaalGlalaaliaegksnilvtapskenvktlfeflakglealglke.....eekkkkaekaelrvrkqrieyiapd 82 
                              +++d G GK+++ ++++a ++ e+++++ +  p+++ + + f ++ + ++a +++      ++ +k++++++ + ++ +i++i  +
  PHY93_01715|PHY93_01715 324 IQGDVGCGKTTI-AMLAAMVVIENDAQVALMCPTEALAMQHFLSCSELFDAKDYNVrlilgSTPAKEKKQIQKELEDGTIDFIVGT 408
                              78999****876.5666666666688****************************999**995555555556777889999999877 PP

            Helicase_RecD  83 ellklkeqa....dllvvDEA 99 
                              + l +++ +     l ++DE 
  PHY93_01715|PHY93_01715 409 HSLIQDTIQfkqlGLAIIDEQ 429
                              655443221344477888885 PP

>> DUF2572  Protein of unknown function (DUF2572)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   7.7e-05      0.17     151     177 ..     639     665 ..     626     677 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 7.7e-05
                  DUF2572 151 tldgdinaviiAegdLkieGkGkisGa 177
                               +++++++  iAe+dLki+G G ++G+
  PHY93_01715|PHY93_01715 639 VIENNTDGFKIAEEDLKIRGEGDLFGT 665
                              58999********************98 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   0.0      0.29   6.4e+02      93     109 ..      19      35 ..       5      50 .. 0.70
   2 ?    8.6   0.0   0.00079       1.8      11      41 ..     311     341 ..     300     379 .. 0.68

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 0.29
                              CEEEEETGGGGCCCS-S CS
                     TsaE  93 avvlvEWpekleellpe 109
                              ++ ++EW++ le+ll +
  PHY93_01715|PHY93_01715  19 KTKIIEWSSSLENLLGK 35 
                              4789******9998744 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.00079
                              HHHHHHCHTEEEEEEESTTSSHHHHHHHHHH CS
                     TsaE  11 gkklakalgdvilLeGdLGaGKTtlvrglak 41 
                               ++l+++   + l++Gd+G+GKTt++   a 
  PHY93_01715|PHY93_01715 311 RADLGATHPMMRLIQGDVGCGKTTIAMLAAM 341
                              44555544556899**********9765444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (719 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       586  (0.0326845); expected 358.6 (0.02)
Passed bias filter:                      417  (0.0232584); expected 358.6 (0.02)
Passed Vit filter:                        55  (0.00306766); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.75u 0.27s 00:00:01.02 Elapsed: 00:00:00.47
# Mc/sec: 4636.09
//
Query:       PHY93_01720|PHY93_01720  [L=156]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.5e-27   93.1   2.8    1.2e-26   92.6   2.8    1.2  1  GreA_GreB_N    Transcription elongation factor, N-terminal
    2.8e-26   91.2   1.0    5.3e-26   90.3   1.0    1.4  1  GreA_GreB      Transcription elongation factor, GreA/GreB, C-
     0.0036   17.3   1.3     0.0097   15.9   1.3    1.8  1  DDR_swiveling  DD-reactivating factor swiveling domain


Domain annotation for each model (and alignments):
>> GreA_GreB_N  Transcription elongation factor, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   92.6   2.8   2.1e-30   1.2e-26       1      71 []       4      74 ..       4      74 .. 0.98

  Alignments for each domain:
  == domain 1  score: 92.6 bits;  conditional E-value: 2.1e-30
                             EEE-HHHHHHHHHHHHHHHHXHHHHHHHHHHHHHHHSSSTSSHHHHHHHHHHHHHHHHHHHHHHHHHTEEE CS
              GreA_GreB_N  1 iylTkegyekleeeLeelktverpeiaeaikeareeGDlsENaeYdaAkeeqaeiearIreLedkLanaev 71
                             +++T +g  +l++eL++l +ver+ei  ai+eare GDl+ENaeY+aAke+q+ ie+rI +L+ +La+ +v
  PHY93_01720|PHY93_01720  4 VPITLAGQTRLQAELDQLVKVEREEIKIAISEARELGDLKENAEYHAAKEKQGIIEGRIMQLQGILARSRV 74
                             689*****************************************************************987 PP

>> GreA_GreB  Transcription elongation factor, GreA/GreB, C-term
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   90.3   1.0   8.9e-30   5.3e-26       4      76 ..      83     155 ..      80     156 .] 0.97

  Alignments for each domain:
  == domain 1  score: 90.3 bits;  conditional E-value: 8.9e-30
                              SS--TT-EEEEE-.SS--EEEE----TTT-BS-SSB--TTSHHHHHHTT--TT-EE---BTTB---EEEEEEX CS
                GreA_GreB   4 dvVtfGstVtledldtgeeetytiVgpdeadpskgkiSveSPlGkaLlgkkvGdevevkapsgkikveIlkie 76 
                              ++V fG+tV + d+ ++ +++ytiVg+de++ +++kiS++SPlG+aL+gk++Gd+v vkap+g++++eI + e
  PHY93_01720|PHY93_01720  83 QRVVFGATVVVLDTVKDIRHKYTIVGEDESNSKENKISYTSPLGRALIGKEEGDTVVVKAPKGDVEYEIESFE 155
                              79*******************************************************************9876 PP

>> DDR_swiveling  DD-reactivating factor swiveling domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   1.3   1.6e-06    0.0097     114     162 .]      95     147 ..       9     147 .. 0.69

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 1.6e-06
            DDR_swiveling 114 kvietlsnpygiatlfelsaeetk..kivPvaraliGnrs..avviktPkGdv 162
                               +++ +   y i    e +++e k     P+ raliG+    +vv+k+PkGdv
  PHY93_01720|PHY93_01720  95 DTVKDIRHKYTIVGEDESNSKENKisYTSPLGRALIGKEEgdTVVVKAPKGDV 147
                              46777788888888888888877632578********985237*********8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (156 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       696  (0.0388198); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.20s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 1067.99
//
Query:       PHY93_01725|PHY93_01725  [L=171]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (171 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       471  (0.0262703); expected 358.6 (0.02)
Passed bias filter:                      402  (0.0224218); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.25s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 1290.77
//
Query:       PHY93_01730|PHY93_01730  [L=574]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.9e-28   97.2   0.0    1.3e-27   96.3   0.0    1.5  1  ABC1      ABC1 family


Domain annotation for each model (and alignments):
>> ABC1  ABC1 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   96.3   0.0   7.4e-32   1.3e-27       2     119 .]     131     252 ..     130     252 .. 0.96

  Alignments for each domain:
  == domain 1  score: 96.3 bits;  conditional E-value: 7.4e-32
                     ABC1   2 elgkkleeiFaefdeePiAaASiaqVhrAklksgeeVavKvqrpgvkkriksDlellkllakllkkflkelr.ldleelvdefsks 86 
                              +lgkk++++F+  d+ +i++ASi+ V+rA+l +g  V++Kv+rpg++k+i++D++++ +la+ +++++kelr l +++++++f+ +
  PHY93_01730|PHY93_01730 131 SLGKKIDQVFSYVDPIAIGTASIGVVYRAVLLDGTPVVIKVRRPGIEKEIETDFSIIMFLATQAERVSKELRyLGVTRVLNDFAFT 216
                              79**********************************************************************99************ PP

                     ABC1  87 lleEldferEAknaekfrenfaklk...evkvPkvy 119
                              l++El+f+ EA n e++++n++k +    +++Pkvy
  PHY93_01730|PHY93_01730 217 LQRELNFNIEALNCERLKKNLEKHDekkLYYIPKVY 252
                              *********************9988553489***98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (574 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       550  (0.0306766); expected 358.6 (0.02)
Passed bias filter:                      407  (0.0227007); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.68u 0.27s 00:00:00.95 Elapsed: 00:00:00.49
# Mc/sec: 3512.96
//
Query:       PHY93_01735|PHY93_01735  [L=1196]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1196 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1389  (0.0774723); expected 358.6 (0.02)
Passed bias filter:                      420  (0.0234257); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.92u 0.29s 00:00:01.21 Elapsed: 00:00:00.49
# Mc/sec: 7292.67
//
Query:       PHY93_01740|PHY93_01740  [L=372]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (372 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       674  (0.0375927); expected 358.6 (0.02)
Passed bias filter:                      220  (0.0122706); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.54u 0.25s 00:00:00.79 Elapsed: 00:00:00.47
# Mc/sec: 2402.60
//
Query:       PHY93_01745|PHY93_01745  [L=354]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    5.6e-16   58.7   0.0    9.8e-16   57.9   0.0    1.4  1  AdoMet_dc  S-adenosylmethionine decarboxylase


Domain annotation for each model (and alignments):
>> AdoMet_dc  S-adenosylmethionine decarboxylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.9   0.0   5.5e-20   9.8e-16      27     106 .]      28     108 ..      25     108 .. 0.89

  Alignments for each domain:
  == domain 1  score: 57.9 bits;  conditional E-value: 5.5e-20
                              HHHHCT-EEEEEEEEE-SSS-EEEEEEETTEEEEEEEEGGGTEEEEEEEEEST.HHHHHHHHHHHHHHT-SEEEEEEEEEE CS
                AdoMet_dc  27 aaeaigatvlsvafhkfepeGvsvvvliaeShlsiHtwpetgyaaiDvftcge.ispekaleylieafkadrvtvdelkRG 106
                              a+ + ++tv++ + hkf+p+G + v++++eSh++iHt+pe++y+++D+++c+  ++  k+l+ ++     ++++ + l RG
  PHY93_01745|PHY93_01745  28 AVIEKELTVIKKVEHKFTPHGETTVFILSESHFAIHTYPENRYLSMDIYVCNLeTNLGKILDEIKGIIPFEKTDSRILLRG 108
                              6667789**********************************************9**9999999887777777777666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (354 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1034  (0.0576719); expected 358.6 (0.02)
Passed bias filter:                      321  (0.017904); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.23s 00:00:00.80 Elapsed: 00:00:00.45
# Mc/sec: 2352.82
//
Query:       PHY93_01750|PHY93_01750  [L=569]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.1e-30  104.3   0.0    7.9e-30  103.7   0.0    1.2  1  Spermine_synth   Spermine/spermidine synthase domain
     0.0028   18.3   0.0     0.0052   17.5   0.0    1.5  1  Methyltransf_25  Methyltransferase domain
     0.0064   17.2   0.0      0.014   16.1   0.0    1.7  1  Methyltransf_12  Methyltransferase domain
  ------ inclusion threshold ------
      0.037   13.2   0.2       0.53    9.5   0.0    2.1  2  RsmJ             Ribosomal RNA large subunit methyltransferas
      0.039   13.5   0.0       0.06   12.9   0.0    1.2  1  MTS              Methyltransferase small domain
       0.21   10.3   2.0       0.38    9.5   2.0    1.3  1  DUF2254          Predicted membrane protein (DUF2254)


Domain annotation for each model (and alignments):
>> Spermine_synth  Spermine/spermidine synthase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  103.7   0.0   2.7e-33   7.9e-30       1     155 [.     319     473 ..     319     489 .. 0.91

  Alignments for each domain:
  == domain 1  score: 103.7 bits;  conditional E-value: 2.7e-33
                              THHHHHHHHHHHHCCSS.ST-EEEEESSTTSHHHHHHTTSTT-SEEEEEES-HHHHHHHHHHSHHHHTTCGGCTTEEEEESTCHHH CS
           Spermine_synth   1 efaykemiahvplmlhk.npkevLiiGGgDGgvlrevvkhntvekitlvdiDqkvidfskkflpslaisafndarvklvlgdgfkf 85 
                              ef y+++ ahv    +k  pk++L +GGgDG +lre++k++ +e+i  +++Dqk+i++ k  + +l+  +++d+rv+  ++dgf +
  PHY93_01750|PHY93_01750 319 EFYYHQAFAHVSIIMNKkVPKKILLLGGGDGLLLRELLKYKEIESIKHIELDQKMIELAKTRFAELNKHSLDDPRVHSEINDGFYY 404
                              689********97555439******************************************************************* PP

                              HCTCSS-EEEEEEECCSTTCSSCG.CSSHHHHHHHHHTEEEEEEEEEEEEETTTCHHHHHHHHHHHHTTSS CS
           Spermine_synth  86 lkayekkfdvvivdsldpvgpaen.lFskeffdllkkvlkedGviilqaekpelekelvinvdksgkqvfa 155
                              ++++ +k+d++  d   p +   + l+s ef+  + + l+++G ++l    p+++ke+ ++ + +g+ v  
  PHY93_01750|PHY93_01750 405 VRNTTDKYDAIFIDFPYPNSYDLArLYSLEFYTYVRRTLNPGGFVVLD--APFYNKEDYTKNKYQGRAVLT 473
                              *****************98887777*******************9996..588888888888877777765 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.0   1.7e-06    0.0052       1      97 []     341     447 ..     341     447 .. 0.74

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 1.7e-06
                              EEEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHH...TTT....TEEEEESBC.CGBSSSTTTEEEEEEESTGGGSS CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrlgkakvtgvDiseemleaareraee...egl....nvefvqgda.edlpfedgsfDlvvssgalhhls 78 
                              +L lG G G l+++l+k  + +++  ++++++m+e a++r++e   +      +v+ +  d    +    +++D++++ +   + +
  PHY93_01750|PHY93_01750 341 ILLLGGGDGLLLRELLKYKEIESIKHIELDQKMIELAKTRFAElnkH-SlddpRVHSEINDGfYYVRNTTDKYDAIFIDFP--YPN 423
                              7889************996699******************9996541.145558888887774557788999****99544..433 PP

                              HHHH.....HHHHHHHHHHEEEEE CS
          Methyltransf_25  79 dedl.....ekalkeiarvLkpgG 97 
                                dl      +++  ++r L+pgG
  PHY93_01750|PHY93_01750 424 SYDLarlysLEFYTYVRRTLNPGG 447
                              333311122457788888888887 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   4.7e-06     0.014       3      72 ..     344     417 ..     342     449 .. 0.78

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 4.7e-06
          Methyltransf_12   3 iGcGtGsllralleklpdieyt.gvDispsaiedakeklakrennnnnnvelealdlldldgg.......ssfDlvva 72 
                              +G+G+G llr+ll++ ++ie +  +++++++ie ak+++a+ ++++ +  ++  +     dg        +++D++++
  PHY93_01750|PHY93_01750 344 LGGGDGLLLRELLKY-KEIESIkHIELDQKMIELAKTRFAELNKHSLDDPRVHSEI---NDGFyyvrnttDKYDAIFI 417
                              8**************.7777777*******************99888877776544...3344567888888888875 PP

>> RsmJ  Ribosomal RNA large subunit methyltransferase D, RlmJ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.0   0.00018      0.53      84     144 ..     373     430 ..     347     442 .. 0.88
   2 ?    1.8   0.0     0.039   1.2e+02     113     142 ..     436     462 ..     427     465 .. 0.76

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00018
                              EE---TTHHHHHHHHTTT-TTEEEESS-HHHHHHHS-S-TTS-EEEEE----SSCCHHHHH CS
                     RsmJ  84 lteLhpkdaalLkaelakdkrvrvkkadGfaalkaklppkekRglvliDPPyeakdeydrv 144
                              ++eL     a L+++  +d rv  + +dGf  ++ +  + +    ++iD Py ++ ++ r+
  PHY93_01750|PHY93_01750 373 MIELAKTRFAELNKHSLDDPRVHSEINDGFYYVRNTTDKYD---AIFIDFPYPNSYDLARL 430
                              68999999999***********************9988777...8*******998888776 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.039
                              HHHHHHS-S-TTS-EEEEE----SSCCHHH CS
                     RsmJ 113 faalkaklppkekRglvliDPPyeakdeyd 142
                              ++ ++ +l p    g+v++D P+ +k++y+
  PHY93_01750|PHY93_01750 436 YTYVRRTLNPG---GFVVLDAPFYNKEDYT 462
                              66666666665...59***********997 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0     2e-05      0.06      27     136 ..     333     450 ..     312     484 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 2e-05
                              CHCCTCSEEEEET-TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHTTGC......EEEEE-STTTTST..TS-EEEEEE- CS
                      MTS  27 lpkelsgkvlDlGcGaGvlgaalakespeaevtlvdvdarAlesakenleankle......vevvasdvleeve..ekkfdlivsN 104
                              ++k+  +k+l lG G G+l  +l+k ++  +++ ++ d + +e+ak+ +++ + +      v+   +d++  v    +k+d+i   
  PHY93_01750|PHY93_01750 333 MNKKVPKKILLLGGGDGLLLRELLKYKEIESIKHIELDQKMIELAKTRFAELNKHslddprVHSEINDGFYYVRntTDKYDAIFID 418
                              445566789****************999999***************87655333336688877777777655442269******** PP

                              --STTTCHCHHHHHHHHHHHHHHHEEEEEEEE CS
                      MTS 105 PPfhagkatelavaeeliaeAkeaLkegGeLl 136
                               P+ ++ +       e+ +  ++ L++gG  +
  PHY93_01750|PHY93_01750 419 FPYPNSYDLARLYSLEFYTYVRRTLNPGGFVV 450
                              ********9999999***********999544 PP

>> DUF2254  Predicted membrane protein (DUF2254)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   2.0   0.00013      0.38      95     141 ..     171     213 ..     169     219 .. 0.95

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00013
                  DUF2254  95 vLGtfigtfvYsllvlrairteeevpqlsvlvalllaivsvllLiyF 141
                               LGt +gt+ ++ + l +++    v + sv+vall ++v+v++L+ F
  PHY93_01750|PHY93_01750 171 YLGTLVGTICFAYFLLPKLD----VIKTSVVVALLNLLVCVYCLVKF 213
                              69******************....99*******************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (569 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       807  (0.0450109); expected 358.6 (0.02)
Passed bias filter:                      347  (0.0193541); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.66u 0.25s 00:00:00.91 Elapsed: 00:00:00.47
# Mc/sec: 3672.58
//
Query:       PHY93_01755|PHY93_01755  [L=349]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    5.6e-13   49.1   0.0    1.1e-12   48.2   0.0    1.4  1  Acetyltransf_9  Acetyltransferase (GNAT) domain
    1.3e-05   25.4   0.1      3e-05   24.2   0.1    1.6  1  Acetyltransf_1  Acetyltransferase (GNAT) family
     0.0041   17.5   0.0     0.0087   16.5   0.0    1.6  1  Acetyltransf_7  Acetyltransferase (GNAT) domain
  ------ inclusion threshold ------
       0.17   11.5   0.0       0.28   10.8   0.0    1.3  1  NodA            Nodulation protein A (NodA)
       0.28   11.3   0.6       0.94    9.6   0.1    2.1  3  TetR_C_27       Tetracyclin repressor-like, C-terminal domain


Domain annotation for each model (and alignments):
>> Acetyltransf_9  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.2   0.0     3e-16   1.1e-12       6     125 ..      14     135 ..      11     138 .. 0.86

  Alignments for each domain:
  == domain 1  score: 48.2 bits;  conditional E-value: 3e-16
                              -GGGHHHHHHHHHHHTT----H..HHHHHHHHHHT....TSEEEEEEETTEEEEEEEEEEEEEEE.TTEEEEEEEEEEEEE-CCGT CS
           Acetyltransf_9   6 teedldevlellkyaFqdeespleeireyfrklle....esrvlgaedngelvgqlallplelnv.pGktlkaagvtgVavapehr 86 
                              ++e ++ev++l ++ F+++e++   +++ f +l++    e+ ++ + ++  +v+   +++++  v  ++++k+a ++g+ ++ ++r
  PHY93_01755|PHY93_01755  14 NPEYFEEVIRLIEEEFHYSEEYS--YEKDFAPLVDplnfENCYFYIDRDSNIVAAHLAISMRTLVkTDAEIKIALIGGIVTHKKYR 97 
                              5789******************7..5667777777444467777777899999999999999999456****************** PP

                              TS-HHHHHHHHHHHHHHHTT--EEEE--SSHHHHHTTT- CS
           Acetyltransf_9  87 grgvlskLlaraleemreegqplsllfPssipiYrrfGy 125
                              g+ +++ L+++ ++  + e++ l +l+   +++Y++f +
  PHY93_01755|PHY93_01755  98 GKNLFKNLMTHIIQTHQ-EDVALFILWSDLEGLYEKFSF 135
                              ***********999877.59********99*****9975 PP

>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.2   0.1   8.3e-09     3e-05       5     117 .]      22     135 ..      16     135 .. 0.65

  Alignments for each domain:
  == domain 1  score: 24.2 bits;  conditional E-value: 8.3e-09
                              HHHHHHHTHHHHHHHHHHHHHHH....HHSTTCEEEEEEETTEEEEEEEEEEEET....TSTTEEEEEEEEESGGGTTSSHHHHHH CS
           Acetyltransf_1   5 vellvesffppnedaseeefees....fsleaegllvaeedgeliGfisllkipd....ekggvayieslaVspeyrgkGlGsaLl 82 
                               +l +e+f+   e+ s+e  +      +  e++++++ ++ + +++++ +++++      + + a i +++ +++yrgk+l + L+
  PHY93_01755|PHY93_01755  22 IRLIEEEFHY-SEEYSYEKDFAPlvdpLNFENCYFYIDRDSNIVAAHLAISMRTLvktdAEIKIALIGGIVTHKKYRGKNLFKNLM 106
                              5555555443.444444443333232222255555555555668888888888888888788999999****************** PP

                              HHHHHHHHHTTESEEEEEEETTEHHHHHHHHHTTE CS
           Acetyltransf_1  83 ealeerareegikkivlaveedndaairlYeklGF 117
                              +++++   e  +  i +   +d     +lYek+ F
  PHY93_01755|PHY93_01755 107 THIIQTHQEDVALFILW---SDL---EGLYEKFSF 135
                              *****888772223333...455...777777765 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   2.4e-06    0.0087      24      74 ..      72     135 ..      51     137 .. 0.54

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 2.4e-06
                              S............TCTEEEEE-GGGTTSSHHHHHHHHTT....SEEEEE..EEEETHHHHHHHHHHTTE CS
           Acetyltransf_7  24 d............aeitrlaVdpeyrgkGiGraLleaae....kgiile..qlelnaekaikfYeklGF 74 
                                           a i++++++++yrgk + + L+++++    + + l+   +       +++Yek+ F
  PHY93_01755|PHY93_01755  72 MrtlvktdaeikiALIGGIVTHKKYRGKNLFKNLMTHIIqthqEDVALFilWSD-----LEGLYEKFSF 135
                              233445554444445556******************943332211222211233.....377***9977 PP

>> NodA  Nodulation protein A (NodA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   7.9e-05      0.28      57     112 ..      57     113 ..      54     151 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 7.9e-05
                     NodA  57 igydergvaahlgvlrrfikvgevdllvaelGlyavrpdleglgighs.ievllpvl 112
                              i  d++ vaahl++  r +  +++++ +a +G    ++ ++g+ + ++ ++ ++++ 
  PHY93_01755|PHY93_01755  57 IDRDSNIVAAHLAISMRTLVKTDAEIKIALIGGIVTHKKYRGKNLFKNlMTHIIQTH 113
                              78899*********9999999**********************99987444444443 PP

>> TetR_C_27  Tetracyclin repressor-like, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   0.1   0.00026      0.94      18      45 ..       9      36 ..       5      40 .. 0.89
   2 ?   -2.1   0.0       1.1     4e+03      23      46 ..      46      69 ..      44      75 .. 0.86
   3 ?   -4.0   0.0       4.3   1.5e+04       9      27 ..     102     120 ..     100     122 .. 0.63

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.00026
                             HHHHH-HHHHHHHHHHHHH-HHHHHHHH CS
                TetR_C_27 18 rkarddpelFatyvvlieeelevvekhi 45
                             +++ ++pe+F+ +++lieee+++ e++ 
  PHY93_01755|PHY93_01755  9 TTLSQNPEYFEEVIRLIEEEFHYSEEYS 36
                             67899*******************9995 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 1.1
                             -HHHHHHHHHHHHH-HHHHHHHHH CS
                TetR_C_27 23 dpelFatyvvlieeelevvekhie 46
                             dp  F+     i++++++v++h++
  PHY93_01755|PHY93_01755 46 DPLNFENCYFYIDRDSNIVAAHLA 69
                             788899999999999****99986 PP

  == domain 3  score: -4.0 bits;  conditional E-value: 4.3
                              HHHHHHHHHHHHHH-HHHH CS
                TetR_C_27   9 laalfeakrrkarddpelF 27 
                              +++l++   ++ ++d  lF
  PHY93_01755|PHY93_01755 102 FKNLMTHIIQTHQEDVALF 120
                              5566666666666666666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (349 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       565  (0.0315132); expected 358.6 (0.02)
Passed bias filter:                      347  (0.0193541); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.57u 0.25s 00:00:00.82 Elapsed: 00:00:00.47
# Mc/sec: 2228.88
//
Query:       PHY93_17015|PHY93_17015  [L=108]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.011   15.9  94.9      0.011   15.8  94.9    1.0  1  HC2         Histone H1-like nucleoprotein HC2


Domain annotation for each model (and alignments):
>> HC2  Histone H1-like nucleoprotein HC2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.8  94.9   6.4e-07     0.011      19     132 ..       2     103 ..       1     108 [] 0.85

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 6.4e-07
                      HC2  19 avrKpa.AkKaaakktvvrKvaaKKtaarKtvakktvakkkvaakkaaakkaavkkavakkvvakkkvakKavAKKaaakKvvakk 103
                              av+K++  kK+aakk+v  K aaKK+aa+K+ +k   a k+vaakka+ kk+a kka   k+va+kk+ kK vAKKa+ kKv+akk
  PHY93_17015|PHY93_17015   2 AVKKATtTKKTAAKKVV--KSAAKKPAAKKATKK---ATKTVAAKKAT-KKVAAKKA--TKKVAAKKATKKVVAKKAT-KKVAAKK 78 
                              899*9989********9..***********6555...56899999988.89999986..5677788889*******86.99***** PP

                      HC2 104 vvakKtvakkaaaakKpaakkavakkaaa 132
                              ++ kK+vakk  a+kK aakka+ kk aa
  PHY93_17015|PHY93_17015  79 AT-KKVVAKK--ATKKVAAKKAT-KKVAA 103
                              99.*******..99********5.55443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (108 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      3610  (0.20135); expected 358.6 (0.02)
Passed bias filter:                      620  (0.0345808); expected 358.6 (0.02)
Passed Vit filter:                       177  (0.00987227); expected 17.9 (0.001)
Passed Fwd filter:                        38  (0.00211947); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.70u 0.28s 00:00:00.98 Elapsed: 00:00:00.46
# Mc/sec: 698.61
//
Query:       PHY93_01760|PHY93_01760  [L=280]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.2e-39  135.5   7.0    1.2e-39  135.5   7.0    2.5  2  Flagellin_N    Bacterial flagellin N-terminal helical region
    2.8e-21   75.7   8.3    2.8e-21   75.7   8.3    2.9  4  Flagellin_C    Bacterial flagellin C-terminal helical region
      0.009   16.2   0.4      0.051   13.7   0.0    2.2  2  Tropomyosin_1  Tropomyosin like
  ------ inclusion threshold ------
        0.1   12.4   5.2      0.085   12.6   0.7    2.8  4  Lectin_N       Hepatic lectin, N-terminal domain
       0.36    9.9   4.7       0.26   10.3   2.7    1.6  2  AIP3           Actin interacting protein 3


Domain annotation for each model (and alignments):
>> Flagellin_N  Bacterial flagellin N-terminal helical region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  135.5   7.0   3.5e-43   1.2e-39       1     137 [.       5     141 ..       5     143 .. 0.99
   2 ?    3.4   8.7     0.021        74       6      74 ..     211     279 ..     208     280 .] 0.90

  Alignments for each domain:
  == domain 1  score: 135.5 bits;  conditional E-value: 3.5e-43
                              --SS-STTHHHHHHHHHHHHHHHHHHHHTTSBTTSSTTS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
              Flagellin_N   1 istnalalaarsnlnknqaelqkaqeelstGlridsalddaaglaisvslrsqiaglsqlvrnnslgisrlqtaqgalselsdilq 86 
                              i+tn+++l+a++nl ++  +++k++e+ls+G ri++a ddaaglais++l++qi+gl+q+ rn+++g s++q+a+gal e+s+il 
  PHY93_01760|PHY93_01760   5 INTNVASLNAQRNLGSTRINMNKSLEKLSSGQRINRAGDDAAGLAISENLKAQIKGLGQAERNAEDGVSLVQIAEGALGEVSNILI 90 
                              9************************************************************************************* PP

                              HHHHHHHHHT-TTTS-SHHHHHHHHHHHHHHHHHHHHHH-EETTEE-SSGG CS
              Flagellin_N  87 rlkelavaasndsnsdedrqslqaelqqLtdelnrianttsfNGekLlagt 137
                              rl+el v+a++d+   ++r+ l+ e++qLt+e++rian+t+fN   Ll+gt
  PHY93_01760|PHY93_01760  91 RLRELSVQAASDTIGGTERKFLNVEFEQLTSEVDRIANSTEFNRVPLLNGT 141
                              *************************************************98 PP

  == domain 2  score: 3.4 bits;  conditional E-value: 0.021
                              STTHHHHHHHHHHHHHHHHHHHHTTSBTTSSTTS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
              Flagellin_N   6 lalaarsnlnknqaelqkaqeelstGlridsalddaaglaisvslrsqiaglsqlvrnnslgisrlqta 74 
                              l++ ++s++n+ q ++++ ++  s  +  d+a+++a  + +   +++ ++ lsq++++++ + +++q+a
  PHY93_01760|PHY93_01760 211 LQNRLQSTVNNIQVSIENLSSANSRVRDTDVAAETAELTKQNILMQAGTSVLSQANSSTNSALALIQAA 279
                              67888888888888888888888888999*************************************997 PP

>> Flagellin_C  Bacterial flagellin C-terminal helical region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.2      0.83     3e+03      31      41 ..      11      21 ..       4      42 .. 0.52
   2 ?   -1.9   0.0       1.3   4.5e+03      30      45 ..      52      67 ..      48      71 .. 0.61
   3 ?   -1.8   0.0       1.2   4.2e+03      27      59 ..     121     133 ..      98     142 .. 0.68
   4 !   75.7   8.3   7.8e-25   2.8e-21       2      86 .]     192     276 ..     191     276 .. 0.97

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 0.83
                             HHHHHHCHHHH CS
              Flagellin_C 31 nlkaqsenlka 41
                             +l+aq ++ ++
  PHY93_01760|PHY93_01760 11 SLNAQRNLGST 21
                             44444333222 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 1.3
                             HHHHHHHCHHHHHHCH CS
              Flagellin_C 30 tnlkaqsenlkaaesr 45
                             +nlkaq++ l +ae++
  PHY93_01760|PHY93_01760 52 ENLKAQIKGLGQAERN 67
                             5666666666666555 PP

  == domain 3  score: -1.8 bits;  conditional E-value: 1.2
                              HHHHHHHHHHCHHHHHHCHHCCHHHHHHHHHHH CS
              Flagellin_C  27 saitnlkaqsenlkaaesrledvDpaeestrvt 59 
                              s                    +vD  + st+++
  PHY93_01760|PHY93_01760 121 S--------------------EVDRIANSTEFN 133
                              3....................455555555555 PP

  == domain 4  score: 75.7 bits;  conditional E-value: 7.8e-25
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHCHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHCTCCHHHHHHHH CS
              Flagellin_C   2 divdeaitdldkvrselGavqnRlesaitnlkaqsenlkaaesrledvDpaeestrvtklqiliqasyallaqanqlpqsllnlL 86 
                              + +d+ai +++  r+++Ga qnRl+s+++n++  +enl++a sr +d+D+a+e +++tk +il+qa++++l+qan+   s+l l+
  PHY93_01760|PHY93_01760 192 TSIDQAIISVSGIRADFGALQNRLQSTVNNIQVSIENLSSANSRVRDTDVAAETAELTKQNILMQAGTSVLSQANSSTNSALALI 276
                              679**************************************************************************99999885 PP

>> Tropomyosin_1  Tropomyosin like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.1      0.27   9.7e+02      17      38 ..      52      73 ..      43     129 .. 0.57
   2 !   13.7   0.0   1.4e-05     0.051      69     118 ..     202     251 ..     164     258 .. 0.80

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 0.27
            Tropomyosin_1 17 eeleekvKeleqenlekeqeik 38
                             e+l++++K l q + + e+ ++
  PHY93_01760|PHY93_01760 52 ENLKAQIKGLGQAERNAEDGVS 73
                             5666666666666666665543 PP

  == domain 2  score: 13.7 bits;  conditional E-value: 1.4e-05
            Tropomyosin_1  69 ekkktnnealtrkiqlLEeeleesdkkLkettekLretdvkaeelERkvk 118
                              +  +++  al+ ++q   +++  s ++L +++ + r+tdv+ae+ E   +
  PHY93_01760|PHY93_01760 202 SGIRADFGALQNRLQSTVNNIQVSIENLSSANSRVRDTDVAAETAELTKQ 251
                              445556669***********************************996655 PP

>> Lectin_N  Hepatic lectin, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.4   0.0      0.26   9.2e+02      67      92 ..      50      75 ..      48      99 .. 0.70
   2 ?   -3.8   0.0       2.7   9.7e+03      53      71 ..     112     130 ..     106     137 .. 0.60
   3 ?   -1.4   0.0      0.51   1.8e+03      68      94 ..     164     190 ..     155     200 .. 0.71
   4 ?   12.6   0.7   2.4e-05     0.085      51     110 ..     202     262 ..     195     265 .. 0.86

  Alignments for each domain:
  == domain 1  score: -0.4 bits;  conditional E-value: 0.26
                 Lectin_N 67 fssstlaeiqalssqggslsekvtsl 92
                             +s++ +a+i+ l  + +++++ v+ +
  PHY93_01760|PHY93_01760 50 ISENLKAQIKGLGQAERNAEDGVSLV 75
                             57888888999988888888887654 PP

  == domain 2  score: -3.8 bits;  conditional E-value: 2.7
                 Lectin_N  53 LqreLetLketfsnfssst 71 
                              L  e+e L  +++ +++st
  PHY93_01760|PHY93_01760 112 LNVEFEQLTSEVDRIANST 130
                              5555555555555555555 PP

  == domain 3  score: -1.4 bits;  conditional E-value: 0.51
                 Lectin_N  68 ssstlaeiqalssqggslsekvtslea 94 
                              +ss  +++ al  +  s+s+k++  ++
  PHY93_01760|PHY93_01760 164 ASSADVNVAALGLNLASVSDKISAQNS 190
                              566777888888888888888765544 PP

  == domain 4  score: 12.6 bits;  conditional E-value: 2.4e-05
                 Lectin_N  51 sqLqreLetLketfsnfssstlaeiqalssqggslse.kvtsleaklekkqqdlkadhsel 110
                              s ++ ++ +L++ ++ + +++++ i++lss+++++ +  v+   a+l k++  ++a  s l
  PHY93_01760|PHY93_01760 202 SGIRADFGALQNRLQSTVNNIQVSIENLSSANSRVRDtDVAAETAELTKQNILMQAGTSVL 262
                              5689**************************9777655168999999**9999999988865 PP

>> AIP3  Actin interacting protein 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.1      0.16   5.8e+02     153     203 ..      80     126 ..       5     132 .. 0.49
   2 ?   10.3   2.7   7.3e-05      0.26     122     199 ..     186     265 ..     110     273 .. 0.75

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.16
                              XXXXXXXXXXXXXXXXXXXXXXXXX.XXXXXXHHHHHHHHHHHHHHHHHHH CS
                     AIP3 153 efkseikeslselrekakkvkeaslastkkssnrayiekgkkkLseesdkl 203
                                  e++++l  lre   +v+  + ++t ++++r++++   ++L +e+d++
  PHY93_01760|PHY93_01760  80 GALGEVSNILIRLREL--SVQ--AASDTIGGTERKFLNVEFEQLTSEVDRI 126
                              3333333333333222..222..3345555677777777777777776666 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 7.3e-05
                              XXXXX.........XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX...XXXXXXHHHHHHHHHHHHHHH CS
                     AIP3 122 seslakkelkaqlkevqslrrdLavlrqlysefkseikeslselrekakkvkeasla..stkkssnrayiekgkkkLsee 199
                              s +++ ++ ++ + +v+ +r d+++l++  ++  ++i+ s+++l++  ++v+++++a  +++ ++++ ++++g + Ls+ 
  PHY93_01760|PHY93_01760 186 SAQNSLTSIDQAIISVSGIRADFGALQNRLQSTVNNIQVSIENLSSANSRVRDTDVAaeTAELTKQNILMQAGTSVLSQA 265
                              223336677888999*************************************6666410455578888999999999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (280 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       605  (0.0337442); expected 358.6 (0.02)
Passed bias filter:                      315  (0.0175693); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 1826.69
//
Query:       PHY93_01765|PHY93_01765  [L=276]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.8e-37  127.9   6.2    2.8e-37  127.9   6.2    2.9  3  Flagellin_N    Bacterial flagellin N-terminal helical region
    9.3e-24   83.6   3.5    9.3e-24   83.6   3.5    2.3  4  Flagellin_C    Bacterial flagellin C-terminal helical region
    2.8e-06   27.5   1.4    5.8e-06   26.5   0.2    2.0  2  Tropomyosin_1  Tropomyosin like
  ------ inclusion threshold ------
      0.016   14.6   1.0      0.022   14.1   0.2    1.6  2  Tropomyosin    Tropomyosin
       0.46   11.2   1.7        6.3    7.6   0.3    2.4  2  DUF2203        Uncharacterized conserved protein (DUF2203)


Domain annotation for each model (and alignments):
>> Flagellin_N  Bacterial flagellin N-terminal helical region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  127.9   6.2   7.8e-41   2.8e-37       1     137 [.       5     141 ..       5     143 .. 0.99
   2 ?   -0.7   0.0      0.39   1.4e+03     105     124 ..     184     203 ..     175     211 .. 0.74
   3 ?    0.6   2.9      0.15   5.5e+02      11      68 ..     219     273 ..     211     276 .] 0.75

  Alignments for each domain:
  == domain 1  score: 127.9 bits;  conditional E-value: 7.8e-41
                              --SS-STTHHHHHHHHHHHHHHHHHHHHTTSBTTSSTTS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
              Flagellin_N   1 istnalalaarsnlnknqaelqkaqeelstGlridsalddaaglaisvslrsqiaglsqlvrnnslgisrlqtaqgalselsdilq 86 
                              i+tn+++l+a+++l  n ++ ++++++ls+G+ri +a ddaaglais++l++ i+g+ q++rn++++is+lq+a+g+++e+s+++ 
  PHY93_01765|PHY93_01765   5 INTNIPSLSAQRSLGINTRAQNDNLRKLSSGERITRAGDDAAGLAISENLKASIRGMRQAKRNAGDAISMLQVAEGGMNEISSMII 90 
                              9************************************************************************************* PP

                              HHHHHHHHHT-TTTS-SHHHHHHHHHHHHHHHHHHHHHH-EETTEE-SSGG CS
              Flagellin_N  87 rlkelavaasndsnsdedrqslqaelqqLtdelnrianttsfNGekLlagt 137
                              rl+el v+a++d+  +++r   + e+q+L++e++ri+++t+fNG kLl+gt
  PHY93_01765|PHY93_01765  91 RLRELSVQAASDTVGTTERGFSDIEFQNLKEEIDRISKSTEFNGIKLLDGT 141
                              **************************************************8 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.39
                              HHHHHHHHHHHHHHHHHHHH CS
              Flagellin_N 105 rqslqaelqqLtdelnrian 124
                              ++ +qa+l++L d+l +i  
  PHY93_01765|PHY93_01765 184 KEGAQAALKKLDDALVHING 203
                              56788888888888877765 PP

  == domain 3  score: 0.6 bits;  conditional E-value: 0.15
                              HHHHHHHHHHHHHHHHHHTTSBTTSSTTS-HHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
              Flagellin_N  11 rsnlnknqaelqkaqeelstGlridsalddaaglaisvslrsqiaglsqlvrnnslgi 68 
                               +nl+ + ++l++a++++   + +d+a+++a  +     l++ ++ lsq++++ + + 
  PHY93_01765|PHY93_01765 219 TNNLEVSDENLSAANSRI---RDVDVASETAELAKNNILLQAGVSVLSQANQSPNSAL 273
                              456666667777777777...6789999999999999999999999999988877665 PP

>> Flagellin_C  Bacterial flagellin C-terminal helical region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0         2   7.3e+03      10      22 ..      11      22 ..       4      43 .. 0.52
   2 ?   -2.5   0.0       1.9   6.9e+03      36      49 ..      51      64 ..      47      76 .. 0.73
   3 ?   -3.7   0.0       4.7   1.7e+04      40      47 ..     120     127 ..     114     136 .. 0.53
   4 !   83.6   3.5   2.6e-27   9.3e-24       2      86 .]     192     276 .]     191     276 .] 0.98

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 2
                             HHHHHHHHHHHHH CS
              Flagellin_C 10 dldkvrselGavq 22
                             +l+++rs lG++ 
  PHY93_01765|PHY93_01765 11 SLSAQRS-LGINT 22
                             4444443.44433 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 1.9
                             HCHHHHHHCHHCCH CS
              Flagellin_C 36 senlkaaesrledv 49
                             senlka+++ ++++
  PHY93_01765|PHY93_01765 51 SENLKASIRGMRQA 64
                             67777777777664 PP

  == domain 3  score: -3.7 bits;  conditional E-value: 4.7
                              HHHHCHHC CS
              Flagellin_C  40 kaaesrle 47 
                              k+++ r+ 
  PHY93_01765|PHY93_01765 120 KEEIDRIS 127
                              33333332 PP

  == domain 4  score: 83.6 bits;  conditional E-value: 2.6e-27
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHCHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHCTCCHHHHHHHH CS
              Flagellin_C   2 divdeaitdldkvrselGavqnRlesaitnlkaqsenlkaaesrledvDpaeestrvtklqiliqasyallaqanqlpqsllnlL 86 
                              +++d+a+  ++ +r+++Ga qnRl+s ++nl+   enl+aa sr++dvD+a e ++++k++il+qa++++l+qanq p s+l+lL
  PHY93_01765|PHY93_01765 192 KKLDDALVHINGTRANFGALQNRLQSVTNNLEVSDENLSAANSRIRDVDVASETAELAKNNILLQAGVSVLSQANQSPNSALKLL 276
                              789********************************************************************************98 PP

>> Tropomyosin_1  Tropomyosin like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0       0.8   2.9e+03     102     126 ..      91     120 ..      76     131 .. 0.58
   2 !   26.5   0.2   1.6e-09   5.8e-06      52     115 ..     185     248 ..     180     255 .. 0.93

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.8
            Tropomyosin_1 102 kLretdvka.....eelERkvkaLeqerde 126
                              +Lre +v+a     +++ER   ++e ++ +
  PHY93_01765|PHY93_01765  91 RLRELSVQAasdtvGTTERGFSDIEFQNLK 120
                              555555544222224556666666654444 PP

  == domain 2  score: 26.5 bits;  conditional E-value: 1.6e-09
            Tropomyosin_1  52 ekleeklkeakekaeesekkktnnealtrkiqlLEeeleesdkkLkettekLretdvkaeelER 115
                              e ++++lk+  +++ + + +++n  al+ ++q + ++le sd++L  ++ ++r++dv++e+ E 
  PHY93_01765|PHY93_01765 185 EGAQAALKKLDDALVHINGTRANFGALQNRLQSVTNNLEVSDENLSAANSRIRDVDVASETAEL 248
                              66899999999999999999****************************************9995 PP

>> Tropomyosin  Tropomyosin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0      0.62   2.2e+03     179     179 ..     112     112 ..      54     131 .. 0.57
   2 ?   14.1   0.2   6.3e-06     0.022      12      77 ..     182     247 ..     176     253 .. 0.91

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 0.62
              Tropomyosin 179 r 179
                               
  PHY93_01765|PHY93_01765 112 S 112
                              2 PP

  == domain 2  score: 14.1 bits;  conditional E-value: 6.3e-06
              Tropomyosin  12 eaeerlekakkkleeaekkaekaeaEvaalnrriqlleeelerteerleealekLeeaekaadese 77 
                              +++e +++a kkl+ a  +++ + a+  al++r+q + ++le ++e+l  a +++ ++  a++  e
  PHY93_01765|PHY93_01765 182 STKEGAQAALKKLDDALVHINGTRANFGALQNRLQSVTNNLEVSDENLSAANSRIRDVDVASETAE 247
                              578999*************************************************99988877654 PP

>> DUF2203  Uncharacterized conserved protein (DUF2203)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.7   0.1     0.057     2e+02      27      92 ..      90     153 ..      48     157 .. 0.66
   2 ?    7.6   0.3    0.0017       6.3       4      76 ..     183     255 ..     181     264 .. 0.81

  Alignments for each domain:
  == domain 1  score: 2.7 bits;  conditional E-value: 0.057
                  DUF2203  27 keleeleeeleeakaeaekseaaeleaeleeleaeieelveeieelGvevkdleaglvDFpakldg 92 
                               +l+el  ++++a+++  ++e+     e+++l++ei+++ +  e  G+++ d   g ++F   +++
  PHY93_01765|PHY93_01765  90 IRLREL--SVQAASDTVGTTERGFSDIEFQNLKEEIDRISKSTEFNGIKLLDGTGGKLEFQVGIKN 153
                              333333..2333333333333555566788888899999888888898888888888888766665 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0017
                  DUF2203   4 tleeAnalLpllkelleelralrkeleeleeeleeakaeaekseaaeleaeleeleaeieelveeieelGvev 76 
                              t e A+a L +l++ l +++ +r+++  l+++l++ +++ e s+++  +a+ +  +  + + ++e+ +  + +
  PHY93_01765|PHY93_01765 183 TKEGAQAALKKLDDALVHINGTRANFGALQNRLQSVTNNLEVSDENLSAANSRIRDVDVASETAELAKNNILL 255
                              6789*********************************999999977666666666666666666666666555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (276 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       531  (0.0296168); expected 358.6 (0.02)
Passed bias filter:                      356  (0.0198561); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.52u 0.26s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 1836.89
//
Query:       PHY93_01770|PHY93_01770  [L=330]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.6e-25   89.1   0.0    6.4e-25   87.8   0.0    1.5  1  RmlD_sub_bind   RmlD substrate binding domain
    7.6e-16   58.3   0.0    1.7e-15   57.1   0.0    1.5  2  Epimerase       NAD dependent epimerase/dehydratase family
    2.6e-06   27.1   0.0    1.2e-05   24.9   0.0    1.8  1  GDP_Man_Dehyd   GDP-mannose 4,6 dehydratase
    0.00081   18.5   0.0     0.0022   17.1   0.0    1.8  2  3Beta_HSD       3-beta hydroxysteroid dehydrogenase/isomerase
  ------ inclusion threshold ------
      0.016   15.1   0.0      0.022   14.6   0.0    1.2  1  NAD_binding_10  NAD(P)H-binding


Domain annotation for each model (and alignments):
>> RmlD_sub_bind  RmlD substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   87.8   0.0   1.8e-28   6.4e-25       2     283 ..      14     310 ..      13     313 .. 0.80

  Alignments for each domain:
  == domain 1  score: 87.8 bits;  conditional E-value: 1.8e-28
                              EEEEESTTSHHHHHHHHHCTTTSEEEEEE-TT...........T--TTSHHHHHHHHHHH--SEEEE------HHHHHHSHHHHHH CS
            RmlD_sub_bind   2 kilvtGanGqlGseLakqlaeeglevlaltre...........eldltdaeavaellkeakpdvvvnaAAytavDkaEseeeaaya 76 
                              ++l++G n  +Gs+La+ +++ ++ v+++               +d+ ++e+v+ +l ++kpd+v  +A       + + ++   a
  PHY93_01770|PHY93_01770  14 TVLIIGVNSFVGSNLAEFFRK-DYRVVGTYHLkhhplpgiltlPCDVLNKEEVQLVLYAFKPDFVLYCAGLVSLKDCAERPNVCDA 98 
                              689*************99995.5677777433478***************************************999999****** PP

                              HHTHHHHHHHHHHHHCT-EEEEEEEGGGS-S-TTS-B-TTS----SSHHHHHHHHHHHHHHHH-SSEEEEEE-SEESSSSS-HHHH CS
            RmlD_sub_bind  77 vnaeavealAeaaaavgalLihvStDyVFdGekkrpYeeddetsPlnvYGrtKlaGEqavlaagkkalivRtswvygekgknfvkt 162
                              +n+++  ++Ae+a ++ga +++ S+ +VF G++k+ Y+e d+++ ++ YG++++  E   ++++ ++li+R   +yg+    + +t
  PHY93_01770|PHY93_01770  99 LNSTGLFNVAELAPRYGARIVYFSSQFVFAGANKN-YNEMDNPDVITQYGKAQASSEFYLQKSSLNYLIFRCNKLYGRGLTPLRNT 183
                              ********************************665.******************************************55444444 PP

                              HHHHH...HH-SEEEEESS-EE-.-EEHHHHHHHHHHHHHHCHH.GGG-EEEE---BS-EEHHHHHHHHHHHHCHTT......SEE CS
            RmlD_sub_bind 163 mlrla...kereelkvvaDqlgs.PTsardlAevllqllekaaeekelagvyHlanegetswlefArailkeagads......eev 238
                              +++l+    ++++    +D + +       l  +l   ++k ++    +++ H++++++++ +ef +   + ++++       +  
  PHY93_01770|PHY93_01770 184 FFELLqknIKNNQGAAYDDFVHQgFLDIYYLGMILKMCIDKNVS----NRLVHFSSQDTMTYYEFSKLYCEIFNETDglvnkgKWH 265
                              44444110344444445554433023344444444444444444....99***************986555555444344666667 PP

                              EEE-CCCS--SS---SBE-B--HHHHHCCT----BHHHHHHHHHH CS
            RmlD_sub_bind 239 kpistaeyptpAkRPanSvLdtekleatfgiklrewrealkevlk 283
                               pi++ ++ ++ ++  + +Ld  ++e    ik+++ re+++ ++k
  PHY93_01770|PHY93_01770 266 FPIAKGANREKLEEHLHFKLDILNIEGLLKIKMPTIRESIEFTYK 310
                              799999999999999999999999999999999999998876665 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.1   0.0   4.8e-19   1.7e-15       1     196 [.      15     195 ..      15     215 .. 0.88
   2 ?   -2.2   0.0      0.63   2.3e+03      98     116 ..     217     236 ..     211     243 .. 0.83

  Alignments for each domain:
  == domain 1  score: 57.1 bits;  conditional E-value: 4.8e-19
                              EEEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHCEEEE--TT-HHHHHHHHHHHT-SEEEE--S---HHHHHHSHHH CS
                Epimerase   1 ilVtGatGfiGsalvkallekgyevigldrlssasntarledlelveldltdrsalerlfkeeqpdavihlAavggvaassedpad 86 
                              +l++G++ f+Gs+l++ +  k+y+v+g  +l    ++  l+ +    +d++++++++ ++  ++pd v+ +A+  + ++ +e+p+ 
  PHY93_01770|PHY93_01770  15 VLIIGVNSFVGSNLAEFFR-KDYRVVGTYHL----KHHPLPGILTLPCDVLNKEEVQLVLYAFKPDFVLYCAGLVSLKDCAERPNV 95 
                              79*************9998.58*********....44444555779***************************999********** PP

                              HHHHHTHHHHHHHHHHHHHTCTEEEEEEEGGGGTSCSSSSBSTCSTTS----SSHHHHHHHHHHHHHHHHHHHHT-EEEEEEESEE CS
                Epimerase  87 fieknlqgtlnlleaarkagvkrllflsSsevYGkdaeqpkeettltgplkpnspYaaaKlageklveayaaqyglnaiilrlfnl 172
                              +   n  g  n++e a ++g+ r++++sS  v+   ++   +e+    +    + Y+ a + +e ++++      ln++i+r+  l
  PHY93_01770|PHY93_01770  96 CDALNSTGLFNVAELAPRYGA-RIVYFSSQFVFAGANKN-YNEMD---NPDVITQYGKAQASSEFYLQKS----SLNYLIFRCNKL 172
                              *********************.***********988874.88888...88999********999999975....6888******** PP

                              ESTTS-TTSTTSHHHHHHHHHHTT CS
                Epimerase 173 yGprngegevsrvipalirkileg 196
                              yG +  ++ ++ ++  l ++i+++
  PHY93_01770|PHY93_01770 173 YGRG-LTPLRNTFFELLQKNIKNN 195
                              ***9.5555666666666666665 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 0.63
                              HHHHHHHHTCT.EEEEEEEG CS
                Epimerase  98 lleaarkagvk.rllflsSs 116
                              +l+++ +++v  rl+++sS 
  PHY93_01770|PHY93_01770 217 ILKMCIDKNVSnRLVHFSSQ 236
                              678888888888******96 PP

>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.9   0.0   3.4e-09   1.2e-05       1     190 [.      16     183 ..      16     198 .. 0.87

  Alignments for each domain:
  == domain 1  score: 24.9 bits;  conditional E-value: 3.4e-09
                              EEETTTSHHHHHHHHHHHHCT-CCEEEEEEESS-TTHHHHHCTTT...TTGCCEEEEE--TT-HHHHHHHHHHHT-SEEEE--S-- CS
            GDP_Man_Dehyd   1 LiTGiaGfiGsylaelLlekgyevhgivrrsssfntgriehlakdpkeeleenlklhkgDltDssslerllaevqpdevynLAAqs 86 
                              Li G++ f+Gs+lae++  k+y+v+g+ +++ +            p     + +    +D+ ++++++ +l   +pd v+  A+  
  PHY93_01770|PHY93_01770  16 LIIGVNSFVGSNLAEFFR-KDYRVVGTYHLKHH------------PL----PGILTLPCDVLNKEEVQLVLYAFKPDFVLYCAGLV 84 
                              899************975.67****97544333............22....33455789*************************** PP

                              -HHHHTTSHHHHHHHHTHHHHHHHHHHHHCT..TTSEEEEEEEGGGG-S-SSSSB-TTS-----SHHHHHHHHHHHHHHHHHHHH- CS
            GDP_Man_Dehyd  87 hVdvsfekPeytaevnvlGtlrLLeairalglekkvrfyqaStsEvYGkvqevpqtEttpfyPrsPYaaaKlyadwivvnyreayg 172
                                +   e P      n +G +++ e++ ++g    +r++  S+  v+  ++   ++E    +    Y+ a +++++  ++   +y 
  PHY93_01770|PHY93_01770  85 SLKDCAERPNVCDALNSTGLFNVAELAPRYG----ARIVYFSSQFVFAGAN-KNYNEMDNPDVITQYGKAQASSEFYLQKSSLNYL 165
                              *****************************98....59**********7775.57899999999*********************** PP

                              --EEEEEE-EEESTTS-T CS
            GDP_Man_Dehyd 173 lfavngilfnhesprrge 190
                              +f +n  +     p r+ 
  PHY93_01770|PHY93_01770 166 IFRCNKLYGRGLTPLRNT 183
                              *****9998888888743 PP

>> 3Beta_HSD  3-beta hydroxysteroid dehydrogenase/isomerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.0   6.1e-07    0.0022      49     161 ..      54     170 ..      16     182 .. 0.80
   2 ?   -1.9   0.0      0.35   1.3e+03      99     119 ..     217     238 ..     211     248 .. 0.84

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 6.1e-07
                3Beta_HSD  49 viegDvtdkdkleealegv..dvvihlaslvdvag.kltedeimkvnvkGTrnvleacvkagvrvlvYtSsaevvgpnslgeeiln 131
                              ++ +Dv++k++++ +l     d v++ a+lv ++    + + ++  n  G  nv e + + g r++ + S    +g n++ +e+ n
  PHY93_01770|PHY93_01770  54 TLPCDVLNKEEVQLVLYAFkpDFVLYCAGLVSLKDcAERPNVCDALNSTGLFNVAELAPRYGARIVYFSSQFVFAGANKNYNEMDN 139
                              567***********998652279**********99788999*********************998777777777999*******99 PP

                3Beta_HSD 132 gdEeleyesl.hqdaypesKalaEklvlkaN 161
                               d  ++y +   ++ +   K+    l+ + N
  PHY93_01770|PHY93_01770 140 PDVITQYGKAqASSEFYLQKSSLNYLIFRCN 170
                              9988888765344455555655555555555 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 0.35
                3Beta_HSD  99 vleacvkagv.rvlvYtSsaev 119
                              +l++c++++v ++lv+ Ss + 
  PHY93_01770|PHY93_01770 217 ILKMCIDKNVsNRLVHFSSQDT 238
                              8999**9999558999999886 PP

>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.0   6.2e-06     0.022      47     147 ..      58     173 ..      33     192 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 6.2e-06
                              -TT-CCHHHHHHTT-..SEEEES-........--TCC.....HHHHHHHHHHHHHHCT--EEEEEEETTTTSGCGCHHHHHHH.HC CS
           NAD_binding_10  47 dvtdvedlaealkga..daVvsal........ggggk.....deegaknivdaakeagvkRfvlvsaigvgdevpgefgewnk.el 116
                              dv+++e+++ +l     d V+ ++        + + +     +++g  n+++ a + g  R+v+ s+  v   ++++ +e+++ ++
  PHY93_01770|PHY93_01770  58 DVLNKEEVQLVLYAFkpDFVLYCAglvslkdcAERPNvcdalNSTGLFNVAELAPRYGA-RIVYFSSQFVFAGANKNYNEMDNpDV 142
                              66666665555553322455444435555555444445655566668889999999988.99999999998888888888766479 PP

                              CHHHHHHHHHHHHHHHHSSSEEEEEEE-CEE CS
           NAD_binding_10 117 lkaylaakraaeellrasgldwTivrpggLt 147
                              + +y +a++ +e +l++s l++ i r   L 
  PHY93_01770|PHY93_01770 143 ITQYGKAQASSEFYLQKSSLNYLIFRCNKLY 173
                              9*************************99885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (330 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       507  (0.0282782); expected 358.6 (0.02)
Passed bias filter:                      412  (0.0229795); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.59u 0.28s 00:00:00.87 Elapsed: 00:00:00.48
# Mc/sec: 2075.54
//
Query:       PHY93_01775|PHY93_01775  [L=176]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (176 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       356  (0.0198561); expected 358.6 (0.02)
Passed bias filter:                      266  (0.0148363); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 1229.54
//
Query:       PHY93_01780|PHY93_01780  [L=480]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (480 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       754  (0.0420548); expected 358.6 (0.02)
Passed bias filter:                      299  (0.0166769); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.65u 0.24s 00:00:00.89 Elapsed: 00:00:00.48
# Mc/sec: 3004.72
//
Query:       PHY93_01785|PHY93_01785  [L=60]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.6e-06   26.4   0.1    5.1e-06   26.2   0.1    1.1  1  Flp_Fap          Flp/Fap pilin component
      2e-05   23.9   0.0    2.5e-05   23.6   0.0    1.2  1  Flp1_like        Putative Flagellin, Flp1-like, domain
    4.6e-05   23.2   0.6    6.4e-05   22.8   0.6    1.2  1  Class_IIIsignal  Class III signal peptide
  ------ inclusion threshold ------
       0.08   12.9   0.0       0.28   11.2   0.0    1.8  2  Sec2p            GDP/GTP exchange factor Sec2p


Domain annotation for each model (and alignments):
>> Flp_Fap  Flp/Fap pilin component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.2   0.1   1.1e-09   5.1e-06       2      36 ..       8      42 ..       7      55 .. 0.76

  Alignments for each domain:
  == domain 1  score: 26.2 bits;  conditional E-value: 1.1e-09
                  Flp_Fap  2 lkDesGATAIEYgLIaaliAvvii.ayvttlgtaLk 36
                             lkDesG T+ EY L++a++A +++ +  tt g++L 
  PHY93_01785|PHY93_01785  8 LKDESGQTSTEYILLVAVVAMIVFkF-KTTAGSKLD 42
                             8***********************53.444444443 PP

>> Flp1_like  Putative Flagellin, Flp1-like, domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.6   0.0   5.6e-09   2.5e-05       3      47 ..       8      52 ..       6      57 .. 0.78

  Alignments for each domain:
  == domain 1  score: 23.6 bits;  conditional E-value: 5.6e-09
                Flp1_like  3 lkeEdGvgvVEiiLIivVligLvliFKkqitslvnsifkkitska 47
                             lk+E+G    E+iL+++V+ ++v  FK+   s ++ + + +  ka
  PHY93_01785|PHY93_01785  8 LKDESGQTSTEYILLVAVVAMIVFKFKTTAGSKLDGLTQAVFGKA 52
                             89*************************865555555544444443 PP

>> Class_IIIsignal  Class III signal peptide
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.8   0.6   1.4e-08   6.4e-05       3      20 ..      13      30 ..      12      31 .. 0.94

  Alignments for each domain:
  == domain 1  score: 22.8 bits;  conditional E-value: 1.4e-08
          Class_IIIsignal  3 GQiSlEyiLLilavlvia 20
                             GQ+S EyiLL+++v +i+
  PHY93_01785|PHY93_01785 13 GQTSTEYILLVAVVAMIV 30
                             9**************998 PP

>> Sec2p  GDP/GTP exchange factor Sec2p
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.1      0.23     1e+03      77      90 ..       2      15 ..       1      17 [. 0.79
   2 ?   11.2   0.0   6.2e-05      0.28      20      39 ..      38      57 ..      30      60 .] 0.85

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.23
                             HHCTTTXXXXXXXX CS
                    Sec2p 77 kevlekmeeeseeq 90
                             k+v++ +++es ++
  PHY93_01785|PHY93_01785  2 KKVMAYLKDESGQT 15
                             89999999998775 PP

  == domain 2  score: 11.2 bits;  conditional E-value: 6.2e-05
                             HHHHHHHHHHHHHHHHHHHH CS
                    Sec2p 20 ekEledLtasLFeeANkmVa 39
                              + l+ Lt+++F  A kmV 
  PHY93_01785|PHY93_01785 38 GSKLDGLTQAVFGKADKMVE 57
                             56799*************95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (60 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       720  (0.0401584); expected 358.6 (0.02)
Passed bias filter:                      486  (0.0271069); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.41u 0.24s 00:00:00.64 Elapsed: 00:00:00.42
# Mc/sec: 431.79
//
Query:       PHY93_01790|PHY93_01790  [L=67]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (67 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       437  (0.0243739); expected 358.6 (0.02)
Passed bias filter:                      255  (0.0142228); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.25s 00:00:00.68 Elapsed: 00:00:00.44
# Mc/sec: 454.49
//
Query:       PHY93_01795|PHY93_01795  [L=111]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
       0.53   10.7   7.7       0.68   10.4   7.3    1.7  1  Peptidase_A24  Type IV leader peptidase family


Domain annotation for each model (and alignments):
>> Peptidase_A24  Type IV leader peptidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   7.3   3.8e-05      0.68      55     100 ..       6      52 ..       1     104 [. 0.79

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 3.8e-05
            Peptidase_A24  55 vgalvlllislvdeqamGgGDvklaavlgaflg...werlllavlvail 100
                              ++++v ++  l+  + mGgGD k +  l ++++    e ++l +l++ +
  PHY93_01795|PHY93_01795   6 AFLIVGFA--LFVVNIMGGGDSKYLSSLYLLIPlgfQEIVFLYLLYTTV 52 
                              34444444..8888************99999885532333344443333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (111 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       537  (0.0299515); expected 358.6 (0.02)
Passed bias filter:                      239  (0.0133304); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.45
# Mc/sec: 744.21
//
Query:       PHY93_01800|PHY93_01800  [L=110]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0028   17.6   0.1     0.0044   17.0   0.1    1.3  1  Class_IIIsignal  Class III signal peptide
  ------ inclusion threshold ------
      0.012   15.4   0.0      0.017   14.9   0.0    1.3  1  Flp_Fap          Flp/Fap pilin component


Domain annotation for each model (and alignments):
>> Class_IIIsignal  Class III signal peptide
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.1   4.9e-07    0.0044       2      16 ..      14      28 ..      13      36 .. 0.91

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 4.9e-07
          Class_IIIsignal  2 KGQiSlEyiLLilav 16
                              GQ+++EyiLL++++
  PHY93_01800|PHY93_01800 14 LGQTAVEYILLLAVI 28
                             6**********9986 PP

>> Flp_Fap  Flp/Fap pilin component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.0   1.9e-06     0.017       2      23 ..      10      31 ..       9      45 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 1.9e-06
                  Flp_Fap  2 lkDesGATAIEYgLIaaliAvv 23
                             l++  G TA+EY L++a+i+ +
  PHY93_01800|PHY93_01800 10 LRNNLGQTAVEYILLLAVISSL 31
                             6888899*************86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (110 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       505  (0.0281667); expected 358.6 (0.02)
Passed bias filter:                      306  (0.0170673); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.45
# Mc/sec: 730.26
//
Query:       PHY93_01805|PHY93_01805  [L=171]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.099   12.1   0.0       0.18   11.3   0.0    1.4  1  DUF4244          Protein of unknown function (DUF4244)
       0.16   12.0   0.7       0.42   10.7   0.7    1.7  1  Class_IIIsignal  Class III signal peptide
       0.21   10.3   0.9       0.31    9.7   0.9    1.1  1  Presenilin       Presenilin


Domain annotation for each model (and alignments):
>> DUF4244  Protein of unknown function (DUF4244)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0     3e-05      0.18       8      31 ..       4      27 ..       1      32 [. 0.84

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 3e-05
                  DUF4244  8 redaGmsTaEYAvgtlAAvafAav 31
                             ++ +G sT+E+ +   AAv+f  +
  PHY93_01805|PHY93_01805  4 KNNKGQSTIEFILTFTAAVGFIFL 27
                             6789*****************666 PP

>> Class_IIIsignal  Class III signal peptide
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.7     7e-05      0.42       1      17 [.       6      22 ..       6      29 .. 0.86

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 7e-05
          Class_IIIsignal  1 kKGQiSlEyiLLilavl 17
                             +KGQ ++E+iL + a++
  PHY93_01805|PHY93_01805  6 NKGQSTIEFILTFTAAV 22
                             8**********888876 PP

>> Presenilin  Presenilin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   0.9   5.2e-05      0.31     125     163 ..      11      49 ..       8      53 .. 0.93

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 5.2e-05
               Presenilin 125 tlllllwnfgvvGviaifwkgplllqqaYlilisalmAl 163
                              t+ ++l+  ++vG+i +f k++l  +++Y++  +++mA 
  PHY93_01805|PHY93_01805  11 TIEFILTFTAAVGFIFLFLKMALNYTNGYMVHHATFMAS 49 
                              778999999****************************95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (171 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       431  (0.0240393); expected 358.6 (0.02)
Passed bias filter:                      342  (0.0190752); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.43
# Mc/sec: 1196.14
//
Query:       PHY93_05270|PHY93_05270  [L=591]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.18   11.5   9.9      0.051   13.3   0.7    3.2  3  SPECT1    Plasmodium host cell traversal SPECT1
        1.5    8.9   9.6      0.071   13.2   0.6    2.9  3  OSCP      ATP synthase delta (OSCP) subunit
        4.8    6.3  10.1       0.23   10.7   0.9    3.1  3  ISG65-75  Invariant surface glycoprotein
        5.9    7.0   6.3         12    6.0   0.1    3.5  3  DUF3461   Protein of unknown function (DUF3461)


Domain annotation for each model (and alignments):
>> SPECT1  Plasmodium host cell traversal SPECT1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.4     0.022        97     113     158 ..     119     164 ..      98     179 .. 0.85
   2 ?   -0.4   0.1      0.17   7.7e+02      55      95 ..     345     387 ..     304     421 .. 0.69
   3 ?   13.3   0.7   1.1e-05     0.051      34      99 ..     453     518 ..     433     581 .. 0.77

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.022
                   SPECT1 113 kgdrkkeildkvknddsisdelkeellkyeevenkdanvsslvnfi 158
                              ++++kk + d++kn  s +  l++ l    e  n   +vss+ n +
  PHY93_05270|PHY93_05270 119 NDEQKKALEDNLKNAVSATSGLRSMLEAQCEFGNSSEEVSSISNNL 164
                              689999*******************999999999888888876644 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 0.17
                   SPECT1  55 lleefvenskGvifnsseek..kkvekdkfkkvcdlilkkvkk 95 
                               l+     + G i+n  e++  +k    kf  + d++++ v++
  PHY93_05270|PHY93_05270 345 NLSAIESMTEGDIYNKCEKEdfQKAASAKFINLSDILFRSVQE 387
                              4554445567888888766533678888999999998888864 PP

  == domain 3  score: 13.3 bits;  conditional E-value: 1.1e-05
                   SPECT1  34 vaksvskysydteeklnileGlleefvenskGvifnsseekkkvekdkfkkvcdlilkkvkklvel 99 
                              v  s+   s+d ee  ++l+ l+++  e + G  f   ++   ++ +  k +cd   + +++l   
  PHY93_05270|PHY93_05270 453 VKSSLKSASIDFEEASDVLDDLVDQKKELNEGSFFSWGKKDDSEKAKIQKEICDNASQVIRQLATA 518
                              344567789**************************9988777766666688***999988887654 PP

>> OSCP  ATP synthase delta (OSCP) subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.6   1.6e-05     0.071      47     131 ..      40     136 ..      21     146 .. 0.81
   2 ?   -1.7   0.1      0.61   2.8e+03      15      71 ..     256     269 ..     206     303 .. 0.57
   3 ?    0.2   0.3      0.16     7e+02      70     123 ..     450     502 ..     384     520 .. 0.61

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.6e-05
                     OSCP  47 avsaeekkdlleelfke.............klseavknflkllaenkRlalLpeiaeefeellaeargiveaeVtsavpLtdeqle 119
                              + + ++k+dl++el ++               s++  n+ + l+++kR +     ++ f++ l++ +gi+++      +++deq++
  PHY93_05270|PHY93_05270  40 ERDPAKKEDLIKELGSKcpfnetnsqlaalIPSSTSLNLSANLSDQKRAECT-THLQGFNQSLDKTKGIQDMVADPSLKINDEQKK 124
                              4456678999999998899999999887655588999***********7765.56799**************************** PP

                     OSCP 120 kleaalakklgk 131
                              +le++l++ +++
  PHY93_05270|PHY93_05270 125 ALEDNLKNAVSA 136
                              ******998877 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 0.61
                     OSCP  15 ekgaleeveeelealeavlaedkklaellsnpavsaeekkdlleelfkeklseavkn 71 
                              +k+a                                            +++sea+kn
  PHY93_05270|PHY93_05270 256 RKNAR-------------------------------------------DRASEATKN 269
                              22222...........................................222222222 PP

  == domain 3  score: 0.2 bits;  conditional E-value: 0.16
                     OSCP  70 knflkllaenkRlalLpeiaeefeellaeargiveaeVtsavpLtdeqleklea 123
                               +f+k  ++   +  ++e  +   +l++++++  e +  s  + +d++++k+++
  PHY93_05270|PHY93_05270 450 DKFVKSSLKSASI-DFEEASDVLDDLVDQKKELNEGSFFSWGKKDDSEKAKIQK 502
                              4444444444333.2445555555555555555555555555555555555555 PP

>> ISG65-75  Invariant surface glycoprotein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.9   5.1e-05      0.23      78     178 ..      64     163 ..      44     179 .. 0.87
   2 ?   -0.8   0.2      0.16   7.3e+02     101     134 ..     247     281 ..     216     321 .. 0.50
   3 ?   -0.4   0.2      0.12   5.4e+02      90     114 ..     489     514 ..     450     525 .. 0.67

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 5.1e-05
                 ISG65-75  78 ekleslleeakekgtltesdaeklkkaceeAkaknkkarekakkalekaekaskkakeaakkAlGeeleeensnstGLlkvLqwhc 163
                              ++l +l+ +  +  +l+++ +++ + +c+  ++  +++ +k k   +  ++ s k  +  kkAl ++l++  s ++GL+  L+ +c
  PHY93_05270|PHY93_05270  64 SQLAALIPS-STSLNLSANLSDQKRAECTTHLQGFNQSLDKTKGIQDMVADPSLKINDEQKKALEDNLKNAVSATSGLRSMLEAQC 148
                              556666665.4666777888888999****************************************999888************** PP

                 ISG65-75 164 kgkksegkeknvstn 178
                              +  +s+++ +++s+n
  PHY93_05270|PHY93_05270 149 EFGNSSEEVSSISNN 163
                              *99999999999887 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 0.16
                 ISG65-75 101 lkkaceeAkaknkka.rekakkalekaekaskkak 134
                              l+++ + A++kn+ +  ++a+k l++ +++ k ++
  PHY93_05270|PHY93_05270 247 LNREKQLAERKNARDrASEATKNLQVCAEQLKSSV 281
                              34444444443332202344444444444333333 PP

  == domain 3  score: -0.4 bits;  conditional E-value: 0.12
                 ISG65-75  90 kgtltesdaekl.kkaceeAkaknkk 114
                               g++++s++ k+ k++c++A +++++
  PHY93_05270|PHY93_05270 489 WGKKDDSEKAKIqKEICDNASQVIRQ 514
                              45666666666679999999998876 PP

>> DUF3461  Protein of unknown function (DUF3461)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.0   0.1       0.2     9e+02      78     104 ..      26      53 ..      21      55 .. 0.87
   2 ?    1.1   0.3     0.091   4.1e+02      42     114 ..     243     315 ..     232     324 .. 0.77
   3 ?    6.0   0.1    0.0028        12      38      93 ..     354     409 ..     351     426 .. 0.87

  Alignments for each domain:
  == domain 1  score: -0.0 bits;  conditional E-value: 0.2
                  DUF3461  78 kvleeLdklte.kkkeekdikekllkdl 104
                              ++lee ++lt  k++ + + ke+l+k+l
  PHY93_05270|PHY93_05270  26 QILEENKRLTAlKTERDPAKKEDLIKEL 53 
                              7999*****99788889999999**998 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.091
                  DUF3461  42 laksvkfkfprqrkkvlvdsgseeykevseisavlrkvleeLdkltekkkeekdikekllkdlkhlekvvnsk 114
                              ++ks+  +    ++k   d  se  k+++  +++l++ ++ L+  + + ++++d+ +   + l  l+k ++ k
  PHY93_05270|PHY93_05270 243 FEKSLNREKQLAERKNARDRASEATKNLQVCAEQLKSSVDKLQAFSLELTTSSDLPSSQRQCLSLLNKYIDTK 315
                              6666666666667778889999999******************999999888888776666666666666655 PP

  == domain 3  score: 6.0 bits;  conditional E-value: 0.0028
                  DUF3461  38 kgellaksvkfkfprqrkkvlvdsgseeykevseisavlrkvleeLdkltekkkee 93 
                              +g++++k  k  f +  +    +     +++v+e    +  + +eL+++ + +++e
  PHY93_05270|PHY93_05270 354 EGDIYNKCEKEDFQKAASAKFINLSDILFRSVQEDVIRISPITDELQRIRDAEENE 409
                              699**********************************************8765544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (591 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1095  (0.0610742); expected 358.6 (0.02)
Passed bias filter:                      484  (0.0269954); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.72u 0.26s 00:00:00.98 Elapsed: 00:00:00.48
# Mc/sec: 3695.93
//
Query:       PHY93_17020|PHY93_17020  [L=59]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (59 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       558  (0.0311228); expected 358.6 (0.02)
Passed bias filter:                      349  (0.0194657); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.25s 00:00:00.64 Elapsed: 00:00:00.42
# Mc/sec: 425.01
//
Query:       PHY93_01810|PHY93_01810  [L=173]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        0.1   13.0   0.1       0.18   12.3   0.1    1.3  1  PEN-2     Presenilin enhancer-2 subunit of gamma secretase


Domain annotation for each model (and alignments):
>> PEN-2  Presenilin enhancer-2 subunit of gamma secretase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.1   9.9e-06      0.18      17      58 ..      21      62 ..      10      71 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 9.9e-06
                    PEN-2 17 falLPflWlvNvvyffkeaflkeafeeqkeirkyvilSaiGa 58
                             +++LPfl ++ ++y+      + ++++qk +r y ++ + G 
  PHY93_01810|PHY93_01810 21 ILFLPFLMFLYTIYYTAGNSISGSINQQKAVRGYFYALVKGN 62
                             579*******************************88766665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (173 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       421  (0.0234815); expected 358.6 (0.02)
Passed bias filter:                      336  (0.0187406); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.25s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 1159.75
//
Query:       PHY93_01815|PHY93_01815  [L=273]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.7e-24   85.0   0.1    6.2e-24   84.3   0.1    1.4  1  RcpC             Flp pilus assembly protein RcpC/CpaB
    9.2e-05   23.0   1.0    0.00019   22.0   0.3    1.9  2  SAF              SAF domain
  ------ inclusion threshold ------
      0.022   15.0   0.2       0.23   11.8   0.0    2.4  3  HV_small_capsid  Small capsid protein of Herpesviridae
       0.13   12.4   0.0       0.33   11.1   0.0    1.6  1  zf-NOSIP         Zinc-finger of nitric oxide synthase-interac


Domain annotation for each model (and alignments):
>> RcpC  Flp pilus assembly protein RcpC/CpaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   84.3   0.1   1.4e-27   6.2e-24       2     116 .]     108     232 ..     107     232 .. 0.84

  Alignments for each domain:
  == domain 1  score: 84.3 bits;  conditional E-value: 1.4e-27
                     RcpC   2 glaavlppgkrAvaievdevtgvaglirpGdrVDVlltesekedsesektvaelllqnvrVLavgq...........eeakkreee 76 
                              gl+++++ gkrAvai+++e  +v+ li+pGdrVDVl+  + +++s+++ ++++++lq+v VL++g            e   + +  
  PHY93_01815|PHY93_01815 108 GLSRQVSIGKRAVAINITERDAVGRLIKPGDRVDVLAAIDISQGSRRDLQKSRTILQDVLVLSTGMsmtnsipiygvE---TPKVI 190
                              799***********************************9999************************877777664322...33333 PP

                     RcpC  77 deekkkeaetastvtLevtpeqaekLalaesaG..kLslaLR 116
                              +  + +++++++t+tLe++p +++kL   ++ G  +LslaLR
  PHY93_01815|PHY93_01815 191 RTMNLNTYTSYNTITLELDPYDVQKLSFIQAYGggTLSLALR 232
                              3333344677888*************777766555******9 PP

>> SAF  SAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.0   0.3   4.1e-08   0.00019       3      60 ..      41      98 ..      39     101 .. 0.95
   2 ?   -2.2   0.0       1.5   6.9e+03      10      16 ..     134     140 ..     115     152 .. 0.70

  Alignments for each domain:
  == domain 1  score: 22.0 bits;  conditional E-value: 4.1e-08
                             EEEESSTB-TT-BEBTTTEEEECECGG.CCTSCCCGGHHHHTTEEESS-B-TT-B-BGG CS
                      SAF  3 VvvAardikaGeviteddltlkrpias.hkigllpiaygeviGkratrdikaGepvhah 60
                             V+vA+ di+  + i++++++++ ++   + +g + +  +++ + +at +i +Ge +++ 
  PHY93_01815|PHY93_01815 41 VIVAKVDIQELDLIDDSKIQVITVPENfLAPGHFKS-VKDLENTIATVPIIKGEQITKP 98
                             9***********************************.7****************99975 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 1.5
                              B-TT-BE CS
                      SAF  10 ikaGevi 16 
                              ik+G+++
  PHY93_01815|PHY93_01815 134 IKPGDRV 140
                              5555555 PP

>> HV_small_capsid  Small capsid protein of Herpesviridae
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.0      0.23     1e+03      43      67 ..      29      54 ..      27      58 .. 0.85
   2 ?   11.8   0.0   5.1e-05      0.23       7      56 ..     147     196 ..     143     205 .. 0.86
   3 ?   -4.1   0.0         4   1.8e+04      47      53 ..     264     270 ..     261     272 .. 0.73

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 0.23
          HV_small_capsid 43 avlLskYakqsslfvDktafk.LDLl 67
                             a ++  Y  qss  v k+  + LDL+
  PHY93_01815|PHY93_01815 29 AAMIRDYGTQSSVIVAKVDIQeLDLI 54
                             679999*********99976448887 PP

  == domain 2  score: 11.8 bits;  conditional E-value: 5.1e-05
          HV_small_capsid   7 qisvaskkeeekkkrqvltvvLeLqteise.ashPvLavlLskYakqsslf 56 
                              +is  s+++  +k r +l+ vL L t +s   s P+ +v  +k  +   l+
  PHY93_01815|PHY93_01815 147 DISQGSRRDL-QKSRTILQDVLVLSTGMSMtNSIPIYGVETPKVIRTMNLN 196
                              6889999999.99***************962689******99999877666 PP

  == domain 3  score: -4.1 bits;  conditional E-value: 4
          HV_small_capsid  47 skYakqs 53 
                               kY+k +
  PHY93_01815|PHY93_01815 264 DKYTKEN 270
                              6899877 PP

>> zf-NOSIP  Zinc-finger of nitric oxide synthase-interacting protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   7.4e-05      0.33       9      40 ..      19      51 ..      14      61 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 7.4e-05
                 zf-NOSIP  9 avytyhekkkdtaasgygtqs.vrlikdavkdf 40
                              vyty e +k +    ygtqs v ++k  ++++
  PHY93_01815|PHY93_01815 19 MVYTYIEDQKAAMIRDYGTQSsVIVAKVDIQEL 51
                             59******************7255556566655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (273 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       432  (0.024095); expected 358.6 (0.02)
Passed bias filter:                      331  (0.0184617); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.43
# Mc/sec: 1907.71
//
Query:       PHY93_01820|PHY93_01820  [L=465]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.7e-19   70.1   3.1    3.6e-19   69.0   3.1    1.6  1  Secretin         Bacterial type II and III secretion system p
    4.7e-09   35.9   2.6    7.1e-09   35.3   0.3    2.3  2  T2SS-T3SS_pil_N  Pilus formation protein N terminal region
  ------ inclusion threshold ------
       0.18   11.7   0.0       0.32   10.9   0.0    1.3  1  DUF5519          Family of unknown function (DUF5519)


Domain annotation for each model (and alignments):
>> Secretin  Bacterial type II and III secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.0   3.1   6.1e-23   3.6e-19       3     169 ..     296     448 ..     294     449 .. 0.87

  Alignments for each domain:
  == domain 1  score: 69.0 bits;  conditional E-value: 6.1e-23
                 Secretin   3 eqegkakvlstPklltldneeAeievgqevpvqvtsetgsstgatttatevefkevglsLkvtPqvtedgsirlkidvevssiass 88 
                              ++ g+a+++ +  +++++n +++i+ ++++p+q     g++++a+++        +g  +++tP++ ++++i+lki + vss ++ 
  PHY93_01820|PHY93_01820 296 KSAGHARIVESGVVVVKENVAGSIKKTTTIPYQ----IGNTDNAKAG-----AAVAGFDMNITPTMLQEEKINLKIVIHVSSASG- 371
                              6789*****************************....4444433333.....4579***************************87. PP

                 Secretin  89 qavtaegnsvptisrrelkttvrvkdgetlviGGliqdeese..seskvP..lLgdiPllGaLFksttkskektellifitPriv 169
                                     ++ p++  + ++ttv+vk++e+ viGG++ +++s+  ++++vP  +   +Pl   + ks++ s+++t+ ++f+tP+++
  PHY93_01820|PHY93_01820 372 -------DNPPQTLDNTVDTTVIVKSQESAVIGGVVTNKTSTdfDKDGVPlaIADGVPLF-SFVKSKKYSTSRTQFVMFVTPELI 448
                              .......789**************************998888335889**5445679987.689*******************98 PP

>> T2SS-T3SS_pil_N  Pilus formation protein N terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.3   0.3   1.2e-12   7.1e-09       4      72 .]       3      73 ..       2      73 .. 0.92
   2 ?   -0.6   0.1      0.19   1.1e+03      29      48 ..     126     145 ..     103     146 .. 0.74

  Alignments for each domain:
  == domain 1  score: 35.3 bits;  conditional E-value: 1.2e-12
          T2SS-T3SS_pil_N  4 tlelevgksrllrlpepver.vavgnpkiadvtvl.sprevlltGksvGtTnlivwdaggrelltldvrVs 72
                             ++++ vg  ++++l+  + + v  +n++ a+++++ s++evlltG ++G+T+l++ d +g+ ++++ v+V+
  PHY93_01820|PHY93_01820  3 EIDVVVGLEKIIKLDFVPNSvVKLANENLASYQIVpSKKEVLLTGLKAGETTLTLRDTAGDIRARYLVKVT 73
                             689999*********99999566**********995666******************************96 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.19
          T2SS-T3SS_pil_N  29 pkiadvtvlsprevlltGks 48 
                              p+++  + lsp++ l+++++
  PHY93_01820|PHY93_01820 126 PDVLRLVELSPQTQLIIARK 145
                              89999999999999999987 PP

>> DUF5519  Family of unknown function (DUF5519)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   5.4e-05      0.32      41      89 ..     139     188 ..     134     211 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 5.4e-05
                  DUF5519  41 dLaltkraierlvad.gessairlvpgsgWvtvrldteaDvdlllsLvrl 89 
                               L +++++ e++++   +   +r+v+gs Wv+  + +e+D++++ + v  
  PHY93_01820|PHY93_01820 139 QLIIARKMQEEIQKSnFKDVTVRVVNGSFWVEGVVGSEDDIKRVEQIVNA 188
                              577888999999999888889*********************99888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (465 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       534  (0.0297841); expected 358.6 (0.02)
Passed bias filter:                      372  (0.0207485); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.59u 0.24s 00:00:00.83 Elapsed: 00:00:00.45
# Mc/sec: 3126.17
//
Query:       PHY93_01825|PHY93_01825  [L=747]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.7e-74  249.7   0.1    4.2e-74  249.0   0.1    1.3  1  T2SSE         Type II/IV secretion system protein
    5.3e-12   45.9   0.2    3.6e-09   36.7   0.2    2.7  2  CbiA          CobQ/CobB/MinD/ParA nucleotide binding domain
    1.1e-10   41.7   0.4    1.1e-10   41.7   0.4    2.2  2  AAA_31        AAA domain
    4.3e-06   26.4   1.2    4.3e-06   26.4   1.2    2.1  1  ParA          NUBPL iron-transfer P-loop NTPase
    1.6e-05   25.5   0.2     0.0017   18.9   0.0    2.8  2  ABC_tran      ABC transporter
     0.0004   20.2   1.5       0.83    9.3   0.0    3.2  3  AAA_24        AAA domain
     0.0014   17.9   5.9      0.029   13.6   0.1    3.2  3  ArsA_ATPase   Anion-transporting ATPase
     0.0041   16.4   1.1       0.28   10.4   0.0    3.1  3  Zeta_toxin    Zeta toxin
     0.0068   16.8   0.1        0.5   10.7   0.0    2.9  3  AAA_16        AAA ATPase domain
     0.0079   15.9   0.5        3.9    7.2   0.1    2.5  2  PduV-EutP     Ethanolamine utilisation - propanediol utilisat
  ------ inclusion threshold ------
      0.012   15.1   0.1      0.012   15.1   0.1    2.1  3  Fer4_NifH     4Fe-4S iron sulfur cluster binding proteins, Ni
      0.017   15.4   0.5       0.12   12.7   0.0    2.3  2  AAA_28        AAA domain
      0.022   14.5   0.1       0.69    9.6   0.0    2.5  2  AAA_30        AAA domain
      0.022   14.3   0.2       0.19   11.2   0.0    2.3  2  AAA_7         P-loop containing dynein motor region
      0.035   13.4   0.6      0.094   12.1   0.0    2.0  2  FtsK_SpoIIIE  FtsK/SpoIIIE family
      0.049   14.0   1.5       0.17   12.2   0.1    2.5  3  AAA_19        AAA domain
      0.049   13.5   0.5       0.33   10.9   0.0    2.2  2  RsgA_GTPase   RsgA GTPase
      0.055   13.0   3.2       0.27   10.8   0.1    2.7  3  AAA_25        AAA domain
      0.081   12.7   0.9        1.4    8.6   0.0    2.5  2  IstB_IS21     IstB-like ATP binding protein
      0.093   12.2   2.0       0.84    9.1   0.4    2.7  1  CBP_BcsQ      Cellulose biosynthesis protein BcsQ
       0.11   11.9   0.3       0.38   10.1   0.0    2.0  2  Mg_chelatase  Magnesium chelatase, subunit ChlI
       0.13   12.5   0.1        1.6    9.0   0.0    2.5  2  AAA_22        AAA domain
       0.15   11.8   0.1       0.15   11.8   0.1    2.1  2  AAA_29        P-loop containing region of AAA domain
       0.19   12.3   1.8        1.8    9.1   0.0    2.9  3  AAA_18        AAA domain
       0.23   11.3   2.9        3.7    7.4   0.4    2.7  2  NACHT         NACHT domain
        1.8    9.0   4.6       0.68   10.4   0.3    2.4  2  AAA_23        AAA domain


Domain annotation for each model (and alignments):
>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  249.0   0.1   6.1e-77   4.2e-74       3     271 ..     353     629 ..     351     631 .. 0.98

  Alignments for each domain:
  == domain 1  score: 249.0 bits;  conditional E-value: 6.1e-77
                    T2SSE   3 illeallddekvsdihvekpervkvrervdgielreveelekaalerlisriaalakldiseerplqdarlpekgvrlrvvllPvv 88 
                               +le ll+d++vs+++v  p ++   e+ ++i+l++v + +++++  +i+ri a  +++i+e+ p +darl  +g r++++++P++
  PHY93_01825|PHY93_01825 353 GPLEDLLRDKTVSEVMVVGPYKIYY-EQNGKIKLSDVTFTNDRQVLNVIERIVAPIGRRIDEKTPYVDARLR-DGSRVHAIIPPSS 436
                              57899*****************999.999*******************************************.************* PP

                    T2SSE  89 ag.ealviRkksakeltlddlgaeealkekiaevlrkavrerglilvsGgTgsGKttllyallkeinksderivtvEDpvEiqleg 173
                               +  +++iRk  +k+lt++d ++ ++++e +a++lr av+++ +i+vsGgTgsGKttl+++l  +i+++ eri+t ED++E++  +
  PHY93_01825|PHY93_01825 437 IDgCTITIRKFPEKRLTYKDAVKFGSMTESMADFLRIAVEAHRNIIVSGGTGSGKTTLINILGGFIQSN-ERIITCEDSAELNFPQ 521
                              99677**************************************************************99.**************** PP

                    T2SSE 174 anqvqlnak......kakvtfadllraaLRlrPDrimvGEiRdketleilkAvnTGHlgslsTlHansaagalerLeqlgae.... 249
                              ++ v+l+++      ++ ++++ l++++LR+rPDri+vGE R+ etl++l+A+ TGH+gs++T+H+n++ + + rLe+l++     
  PHY93_01825|PHY93_01825 522 EHIVRLETRppslegDGAIDIRCLVKQTLRMRPDRIVVGECRGGETLDMLQAMGTGHDGSMTTVHSNNPRECIGRLETLVQYagts 607
                              **************99****************************************************************779999 PP

                    T2SSE 250 veaaelkssilavvdivvrlvr 271
                              ++a ++k++i+ +v++++++ r
  PHY93_01825|PHY93_01825 608 ISARAIKEMIAGAVHLIIQQSR 629
                              *****************99877 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.7   0.2   5.3e-12   3.6e-09       1     126 [.       6     217 ..       6     220 .. 0.91
   2 ?    6.5   0.0     0.012       8.2       2      21 ..     481     500 ..     480     565 .. 0.89

  Alignments for each domain:
  == domain 1  score: 36.7 bits;  conditional E-value: 5.3e-12
                              EEEEESSTTSSHHHHHHHHHHHHHH.TT--EEEEEEEESSCCCCH.HTTEB-HHHH.............................. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxx.xxxxxxxxxx.............................. RF
                     CbiA   1 iaiastkGGvGKTtlaanLaralar.rglrVllvDaDpqannlai.leglendiep.............................. 54 
                              i+i+++kGG GK+ +aanLa+a a  ++ ++ll+D+D  a+ +   + g +++++                               
  PHY93_01825|PHY93_01825   6 ISIIGGKGGLGKSQVAANLAFAYAIeGKVKTLLLDFDQKASGDQDfITGMKGKKNIkelaefkgaidpnsiqqfvsmnqnvyyigm 91 
                              789*********************96789**********88877677777777777888*************************** PP

                              ............................................................CCHCCCHHHHHHCHCHHHH...EEEE CS
                              ............................................................xxxxxxxxxxxxxxxxxxx.xxxxxx RF
                     CbiA  55 ............................................................dlkrllellealgkkkall.lkiagv 79 
                                                                                           l + +++ ++l++    +  +++ +
  PHY93_01825|PHY93_01825  92 psdpmassgievealgrtlkavtniypvtiidagneltplaikaleystlilvvvtpdilALNQTKRMYSDLVTM--MFpKDMIQF 175
                              *********************************************************999999999999999965..45699**** PP

                              EEEEESS...-TTCHHHHHHHHHHCTS-EEEEEE--CCHCCCCHHTS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     CbiA  80 vlnrvdgeneetllkealeelkqrygvpvlgviprdeavaeaparge 126
                              ++n  +    +   ++ +++++   g pv+  + +d++   ++ +++
  PHY93_01825|PHY93_01825 176 IVNQAQQG--HPVTNDVIAKTL---GKPVFSAVAKDDQNCTLALNQK 217
                              ****9999..9*********99...******9999988777666655 PP

  == domain 2  score: 6.5 bits;  conditional E-value: 0.012
                              EEEESSTTSSHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxx RF
                     CbiA   2 aiastkGGvGKTtlaanLar 21 
                              +i+s+  G+GKTtl   L+ 
  PHY93_01825|PHY93_01825 481 IIVSGGTGSGKTTLINILGG 500
                              699**********9776665 PP

>> AAA_31  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.7   0.4   1.6e-13   1.1e-10       2     163 ..       4     162 ..       3     170 .. 0.80
   2 ?   -2.9   0.0       7.9   5.4e+03      12      31 ..     488     506 ..     484     514 .. 0.65

  Alignments for each domain:
  == domain 1  score: 41.7 bits;  conditional E-value: 1.6e-13
                   AAA_31   2 kvIaianqKGGvGKTTtsvnlaaala.klgkkvLlvDlDpQanattglgiekneiektlyevlieeknikeaiiktkvenldlips 86 
                              ++I+i+  KGG GK+  + nla a a + + k+Ll D+D  a+  + + i+  + +k++ e+    ++ k ai  +++++   +  
  PHY93_01825|PHY93_01825   4 HIISIIGGKGGLGKSQVAANLAFAYAiEGKVKTLLLDFDQKASGDQDF-ITGMKGKKNIKEL----AEFKGAIDPNSIQQFVSMNQ 84 
                              69************************55556********887766655.4566667788888....46666666555555555555 PP

                   AAA_31  87 sidLaeae.ielvelekkeeilkellekvkdeYDyiiiDcpPsLglltenaLvasdsviipvqaeayaleGleqllkt 163
                              ++  +++  + +++   + e+l ++l++v + Y + iiD+  +L  l+++aL  s  ++++v ++ +al+  +++++ 
  PHY93_01825|PHY93_01825  85 NVYYIGMPsDPMASSGIEVEALGRTLKAVTNIYPVTIIDAGNELTPLAIKALEYSTLILVVVTPDILALNQTKRMYSD 162
                              5555555414456666667889***********************************************999988765 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 7.9
                   AAA_31  12 GvGKTTtsvnlaaalaklgk 31 
                              G GKTT    l+ ++ ++++
  PHY93_01825|PHY93_01825 488 GSGKTTLINILGGFI-QSNE 506
                              889999866555444.4444 PP

>> ParA  NUBPL iron-transfer P-loop NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.4   1.2   6.2e-09   4.3e-06       4      57 ..       4      59 ..       2     169 .. 0.67

  Alignments for each domain:
  == domain 1  score: 26.4 bits;  conditional E-value: 6.2e-09
                     ParA  4 kviavlSgKGGVGKStvavnlAlaLakkg.lkvgllDaDiyGp.siprllgveeek 57
                             ++i ++ gKGG GKS va+nlA+a a +g +k+ llD D     +   ++g++++k
  PHY93_01825|PHY93_01825  4 HIISIIGGKGGLGKSQVAANLAFAYAIEGkVKTLLLDFDQKASgDQDFITGMKGKK 59
                             89************************7762688899*9965431334445555543 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.1      0.14        94      11      43 ..       3      35 ..       1      89 [. 0.77
   2 !   18.9   0.0   2.4e-06    0.0017       6      51 ..     473     519 ..     469     536 .. 0.79

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.14
                             TSEEEEEE.STTSSHHHHHHHHTTSS--SEEEEE CS
                             xxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran 11 gekvaivG.enGaGKStLlkllagllkpteGeil 43
                             g+++ i+G + G GKS +++ la  +   eG+++
  PHY93_01825|PHY93_01825  3 GHIISIIGgKGGLGKSQVAANLAFAYA-IEGKVK 35
                             6677777527789********999886.799984 PP

  == domain 2  score: 18.9 bits;  conditional E-value: 2.4e-06
                              EEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEET.TCEGGG CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxx RF
                 ABC_tran   6 lklkegekvaivGenGaGKStLlkllagllkpteGeilld.gkdlke 51 
                              + +++ + + + G +G+GK+tL+++l g  + +e  i+++ +++l+ 
  PHY93_01825|PHY93_01825 473 IAVEAHRNIIVSGGTGSGKTTLINILGGFIQSNERIITCEdSAELNF 519
                              56788889999********************9999998885555554 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.3   0.0    0.0012      0.83       7      78 ..       9     129 ..       5     139 .. 0.63
   2 ?    0.3   0.2      0.71   4.9e+02      73     166 ..     248     348 ..     233     353 .. 0.64
   3 !    7.2   0.0    0.0053       3.7       3      35 ..     479     515 ..     477     525 .. 0.84

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.0012
                   AAA_24   7 iyGpsgiGKTtlakel........gpkplfidtekGlksldadkfpdie.......swedfldevvel.................. 59 
                              i G+ g GK+ +a++l        + k+l++d+++  k+  + +f +          +++f+ +++ +                  
  PHY93_01825|PHY93_01825   9 IGGKGGLGKSQVAANLafayaiegKVKTLLLDFDQ--KASGDQDFITGMkgkknikELAEFKGAIDPNsiqqfvsmnqnvyyigmp 92 
                              6799******************************9..4444444432223445555333333333333444444444444666666 PP

                   AAA_24  60 ..................aaeladyktlviDtidele 78 
                                                +a  + y + +iD  +el 
  PHY93_01825|PHY93_01825  93 sdpmassgievealgrtlKAVTNIYPVTIIDAGNELT 129
                              6666666666666666666666666666666666555 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.71
                   AAA_24  73 tideleelclaevirqnekaeskedkgdgkG.ygelaeefrrllkklqelrk......nvifiahektrkdedpegeakytrlepk 151
                              t+++l +  +a +++   k  s   ++ gk  + el+ ++ ++l    +l+k         +i +e+t+k+  +  +++ t+  ++
  PHY93_01825|PHY93_01825 248 TLEKLSKPSDASAKKEEAKDASGAPIKGGKSpWTELKSRIHKALVEEMDLKKtdendpKAQIILKEQTKKVVVDLLGKEDTKAVLN 333
                              66666666666665555553333446677777999999988888765555555557775666666666666555555555666666 PP

                   AAA_24 152 lgkktanelkeevDl 166
                               ++   + +ke+ D+
  PHY93_01825|PHY93_01825 334 SREDMNQIVKEIIDE 348
                              666666666666665 PP

  == domain 3  score: 7.2 bits;  conditional E-value: 0.0053
                   AAA_24   3 lkiliyGpsgiGKTtlakel....gpkplfidtekGl 35 
                              ++i++ G  g+GKTtl++ l    + +  +i +e+++
  PHY93_01825|PHY93_01825 479 RNIIVSGGTGSGKTTLINILggfiQSNERIITCEDSA 515
                              68999*************9988888888888888765 PP

>> ArsA_ATPase  Anion-transporting ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.6   0.1   4.2e-05     0.029       5      38 ..       8      42 ..       4      86 .. 0.86
   2 !    6.0   0.1    0.0084       5.8     206     244 ..     139     179 ..     131     191 .. 0.86
   3 ?   -1.8   0.7         2   1.4e+03       2      17 ..     479     494 ..     478     502 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 4.2e-05
                             EEEESTTSSHHHHHHHHHHHHHHTTS.-EEEEE-S CS
              ArsA_ATPase  5 lvgGKGGVGKttvsaatavklsekgk.kvllistD 38
                             ++gGKGG GK+ v+a +a   + +gk k+ll+  D
  PHY93_01825|PHY93_01825  8 IIGGKGGLGKSQVAANLAFAYAIEGKvKTLLLDFD 42
                             79****************99886665489998777 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.0084
                              TEEEEEEEESSHHHHHHHHHHHHHHHHTT-EEEEE..EEEE CS
              ArsA_ATPase 206 rtsfrlVvipEklslkEteRaikeLkkygikvdav..ivNk 244
                               t + +Vv+p+ l+l+ t+R+ ++L  + +  d++  ivN+
  PHY93_01825|PHY93_01825 139 STLILVVVTPDILALNQTKRMYSDLVTMMFPKDMIqfIVNQ 179
                              45677899**********************99987779998 PP

  == domain 3  score: -1.8 bits;  conditional E-value: 2
                              EEEEEEESTTSSHHHH CS
              ArsA_ATPase   2 kvilvgGKGGVGKttv 17 
                              + i+v+G  G GKtt+
  PHY93_01825|PHY93_01825 479 RNIIVSGGTGSGKTTL 494
                              7899**********96 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.7   0.1     0.092        63      18      37 ..       6      25 ..       4      42 .. 0.83
   2 ?   -1.0   0.0       1.2   8.6e+02      63      93 ..     321     351 ..     284     367 .. 0.77
   3 !   10.4   0.0   0.00041      0.28      19      47 ..     481     509 ..     472     517 .. 0.86

  Alignments for each domain:
  == domain 1  score: 2.7 bits;  conditional E-value: 0.092
               Zeta_toxin 18 lillgGqpGAGKselaellk 37
                             + ++gG  G GKs++a+ l+
  PHY93_01825|PHY93_01825  6 ISIIGGKGGLGKSQVAANLA 25
                             569************99876 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 1.2
               Zeta_toxin  63 eilkadpkkaseltqkdaselvekllqeaie 93 
                              ++l ++++ka+ + ++d+ ++v+++++ea+ 
  PHY93_01825|PHY93_01825 321 DLLGKEDTKAVLNSREDMNQIVKEIIDEALG 351
                              5667889999999999999999999999975 PP

  == domain 3  score: 10.4 bits;  conditional E-value: 0.00041
               Zeta_toxin  19 illgGqpGAGKselaellkdelerqgnvv 47 
                              i+++G++G+GK++l++ l   ++++++++
  PHY93_01825|PHY93_01825 481 IIVSGGTGSGKTTLINILGGFIQSNERII 509
                              89**************9988888777776 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.3   0.0      0.29     2e+02      28      63 ..       8      44 ..       5      99 .. 0.76
   2 ?   -1.3   0.0       3.7   2.5e+03     116     123 ..     278     291 ..     178     351 .. 0.56
   3 !   10.7   0.0   0.00072       0.5      16      44 ..     471     498 ..     463     542 .. 0.77

  Alignments for each domain:
  == domain 1  score: 2.3 bits;  conditional E-value: 0.29
                   AAA_16 28 llsGesGvGKsslvrellralekdg.giflrgkcdql 63
                             ++ G  G GKs ++  l+ a+  +g + +l  ++dq 
  PHY93_01825|PHY93_01825  8 IIGGKGGLGKSQVAANLAFAYAIEGkVKTLLLDFDQK 44
                             57899*********77775555443366677777776 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 3.7
                   AAA_16 116 a......srllell 123
                              +      sr++ +l
  PHY93_01825|PHY93_01825 278 SpwtelkSRIHKAL 291
                              22322333333333 PP

  == domain 3  score: 10.7 bits;  conditional E-value: 0.00072
                   AAA_16  16 le.rvrsgrpelvllsGesGvGKsslvrel 44 
                              l+ +v ++  +++++sG  G+GK++l++ l
  PHY93_01825|PHY93_01825 471 LRiAVEAH--RNIIVSGGTGSGKTTLINIL 498
                              55344444..79**************9866 PP

>> PduV-EutP  Ethanolamine utilisation - propanediol utilisation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.5   0.1    0.0093       6.4      49     102 ..     155     209 ..     136     251 .. 0.80
   2 !    7.2   0.1    0.0057       3.9       2      22 ..     479     499 ..     478     514 .. 0.88

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.0093
                PduV-EutP  49 enrklysalivtsaeadvialvqdatee.esvfppgfasvfnkeviGiitkidla 102
                              + +++ys l+++ +  d+i ++++  ++ + v  + +a+++ k+v   + k d  
  PHY93_01825|PHY93_01825 155 QTKRMYSDLVTMMFPKDMIQFIVNQAQQgHPVTNDVIAKTLGKPVFSAVAKDDQN 209
                              56899**************97766555505566778999*******999998876 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.0057
                PduV-EutP   2 kkilliGkvgsGKttLtqalk 22 
                              ++i++ G +gsGKttL + l 
  PHY93_01825|PHY93_01825 479 RNIIVSGGTGSGKTTLINILG 499
                              689*************98775 PP

>> Fer4_NifH  4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.1   0.1   1.7e-05     0.012       5      65 ..       9      71 ..       5      92 .. 0.79
   2 ?   -2.8   0.1       5.1   3.5e+03      45     186 ..     309     331 ..     298     370 .. 0.55
   3 ?   -3.2   0.2       6.5   4.5e+03       2      32 ..     480     509 ..     479     512 .. 0.76

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.7e-05
                Fer4_NifH  5 iyGkGGiGksttsqnlsaalaemgk.kvlivGCDPkaDstrlllgg.kaqetvldtlrekgav 65
                             i GkGG Gks  ++nl+ a a  gk k l++  D ka   +  ++g k ++ + ++++ kga 
  PHY93_01825|PHY93_01825  9 IGGKGGLGKSQVAANLAFAYAIEGKvKTLLLDFDQKASGDQDFITGmKGKKNIKELAEFKGAI 71
                             679*******************997699********987765555515566677777666664 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 5.1
                Fer4_NifH  45 lllggkaqetvldtlrekgavedvkvedvvkkGyggvkcvesGGPepGvGCaGrgvitaielleelgayddlDfvlyDvLGDvvCG 130
                              ++l+ ++++ v+d+l +++++                                                                 
  PHY93_01825|PHY93_01825 309 IILKEQTKKVVVDLLGKEDTKA---------------------------------------------------------------- 330
                              4455555555555554444432................................................................ PP

                Fer4_NifH 131 GfalPiredkaqevyivtsgelmalyaanniakgiekyaksggvrlgGliinsrkv 186
                                                                                     v
  PHY93_01825|PHY93_01825 331 -------------------------------------------------------V 331
                              .......................................................2 PP

  == domain 3  score: -3.2 bits;  conditional E-value: 6.5
                Fer4_NifH   2 kiaiyGkGGiGksttsqnlsaalaemgkkvl 32 
                              +i + G  G+Gk tt+ n++  + + +++++
  PHY93_01825|PHY93_01825 480 NIIVSGGTGSGK-TTLINILGGFIQSNERII 509
                              677888889998.577888888888887776 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.2       1.2   8.1e+02       2      20 ..       6      25 ..       5      38 .. 0.81
   2 ?   12.7   0.0   0.00017      0.12       1      20 [.     480     499 ..     480     543 .. 0.84

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 1.2
                   AAA_28  2 ivitGgest.GKTtlleaLa 20
                             i i+Gg ++ GK+ ++++La
  PHY93_01825|PHY93_01825  6 ISIIGGKGGlGKSQVAANLA 25
                             6799999766*********9 PP

  == domain 2  score: 12.7 bits;  conditional E-value: 0.00017
                   AAA_28   1 kivitGgestGKTtlleaLa 20 
                              +i+++Gg ++GKTtl++ L 
  PHY93_01825|PHY93_01825 480 NIIVSGGTGSGKTTLINILG 499
                              599**************997 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.0       0.2   1.4e+02      17      58 ..       3      45 ..       1      82 [. 0.79
   2 ?    9.6   0.0     0.001      0.69      13      45 ..     473     505 ..     465     515 .. 0.79

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.2
                   AAA_30 17 gdrvavltGpAGtGKttalkalreaweaag.grviglAptgka 58
                             g+ ++++ G  G GK+ + + l+ a++ +g  + ++l   +ka
  PHY93_01825|PHY93_01825  3 GHIISIIGGKGGLGKSQVAANLAFAYAIEGkVKTLLLDFDQKA 45
                             567899*****************99999952566565555555 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 0.001
                   AAA_30  13 lltsgdrvavltGpAGtGKttalkalreaweaa 45 
                              ++ + +r  ++ G+ G+GKtt+++ l   ++++
  PHY93_01825|PHY93_01825 473 IAVEAHRNIIVSGGTGSGKTTLINILGGFIQSN 505
                              5556667899*************9987777655 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.0      0.93   6.4e+02      38      74 ..       9      46 ..       3      60 .. 0.73
   2 ?   11.2   0.0   0.00027      0.19      21      52 ..     466     497 ..     457     515 .. 0.85

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.93
                    AAA_7 38 lvGptGtGKtviikd.llkkldkekylsltinfsaqts 74
                             + G+ G GK+ ++ +  +    + k+++l + f ++ s
  PHY93_01825|PHY93_01825  9 IGGKGGLGKSQVAANlAFAYAIEGKVKTLLLDFDQKAS 46
                             56899*********954444446777777777766554 PP

  == domain 2  score: 11.2 bits;  conditional E-value: 0.00027
                    AAA_7  21 rysyllelllknkkpvllvGptGtGKtviikd 52 
                              ++  +l+  +++++++++ G tG+GKt++i+ 
  PHY93_01825|PHY93_01825 466 SMADFLRIAVEAHRNIIVSGGTGSGKTTLINI 497
                              566689999********************985 PP

>> FtsK_SpoIIIE  FtsK/SpoIIIE family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.1       5.5   3.8e+03      43      64 ..       8      29 ..       1      42 [. 0.67
   2 ?   12.1   0.0   0.00014     0.094      35      59 ..     475     498 ..     449     504 .. 0.79

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 5.5
                             EEE--TTSSHHHHHHHHHHHHH CS
             FtsK_SpoIIIE 43 lvaGatgsGKStalntLilSla 64
                             ++ G  g GKS +  +L  + a
  PHY93_01825|PHY93_01825  8 IIGGKGGLGKSQVAANLAFAYA 29
                             57788899***98877765554 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 0.00014
                              GGGS-.SEEEE--TTSSHHHHHHHH CS
             FtsK_SpoIIIE  35 lkkmashllvaGatgsGKStalntL 59 
                                 +  +++v G+tgsGK+t +n L
  PHY93_01825|PHY93_01825 475 VEAHR-NIIVSGGTGSGKTTLINIL 498
                              44455.**************99865 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.0       3.3   2.3e+03      13      54 ..       6      45 ..       2      68 .. 0.72
   2 ?   -2.3   0.0       7.5   5.2e+03     105     105 ..     317     317 ..     208     371 .. 0.54
   3 ?   12.2   0.1   0.00024      0.17       8      30 ..     476     498 ..     471     512 .. 0.79

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 3.3
                   AAA_19 13 llvtaG.pGtGKTrvlkhivallvelggvkpeeillvaftgrA 54
                             + +++G  G GK++v       +  +g+v   + ll+ f ++A
  PHY93_01825|PHY93_01825  6 ISIIGGkGGLGKSQVAANLAFAYAIEGKV---KTLLLDFDQKA 45
                             4556652679**99987766666555555...46666666665 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 7.5
                   AAA_19 105 l 105
                               
  PHY93_01825|PHY93_01825 317 K 317
                              1 PP

  == domain 3  score: 12.2 bits;  conditional E-value: 0.00024
                   AAA_19   8 lkekvllvtaGpGtGKTrvlkhi 30 
                               ++++++v +G G+GKT++++  
  PHY93_01825|PHY93_01825 476 EAHRNIIVSGGTGSGKTTLINIL 498
                              457899************99865 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.4   0.2       1.3   9.2e+02     101     119 ..       6      24 ..       2      34 .. 0.83
   2 ?   10.9   0.0   0.00047      0.33      88     121 ..     466     500 ..     446     515 .. 0.75

  Alignments for each domain:
  == domain 1  score: -0.4 bits;  conditional E-value: 1.3
                              EEEEECSTTSSHHHHHHHH CS
              RsgA_GTPase 101 tsvlvGqSGvGKStLinal 119
                              +s++ G+ G GKS +  +l
  PHY93_01825|PHY93_01825   6 ISIIGGKGGLGKSQVAANL 24 
                              68899********887666 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.00047
                              TTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCT CS
              RsgA_GTPase  88 egleelkellkd.ktsvlvGqSGvGKStLinallp 121
                              + ++ l+ +++  + +++ G +G GK+tLin l +
  PHY93_01825|PHY93_01825 466 SMADFLRIAVEAhRNIIVSGGTGSGKTTLINILGG 500
                              4555566666665778899************9976 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.1    0.0004      0.27      33      61 ..       4      33 ..       1      47 [. 0.83
   2 ?   -3.0   0.1       6.5   4.5e+03     134     170 ..     307     343 ..     282     349 .. 0.50
   3 ?    1.9   0.0      0.21   1.4e+02      32      50 ..     477     495 ..     463     504 .. 0.87

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.0004
                   AAA_25 33 gelallaGapgtGKttlaldlalava.tGk 61
                             + ++++ G +g GK+ +a +la+a+a +Gk
  PHY93_01825|PHY93_01825  4 HIISIIGGKGGLGKSQVAANLAFAYAiEGK 33
                             56799*********************8776 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 6.5
                   AAA_25 134 eaaieevegvrlvviDplsralgg.densnsdvgalve 170
                              ++ i + e+ + vv+D l +       ns +d++++v+
  PHY93_01825|PHY93_01825 307 AQIILK-EQTKKVVVDLLGKEDTKaVLNSREDMNQIVK 343
                              333334.4445555555554333334455555555554 PP

  == domain 3  score: 1.9 bits;  conditional E-value: 0.21
                   AAA_25  32 agelallaGapgtGKttla 50 
                              a+  +++ G +g+GKttl 
  PHY93_01825|PHY93_01825 477 AHRNIIVSGGTGSGKTTLI 495
                              5667899**********95 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   0.2      0.29     2e+02      51      72 ..       8      29 ..       3      41 .. 0.77
   2 ?    8.6   0.0    0.0021       1.4      44      68 ..     475     499 ..     462     509 .. 0.88

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.29
                IstB_IS21 51 vllGpsGvGKshlaialgveav 72
                             ++ G  G GKs +a+ l+ + +
  PHY93_01825|PHY93_01825  8 IIGGKGGLGKSQVAANLAFAYA 29
                             5668899********9997643 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0021
                IstB_IS21  44 iekkenivllGpsGvGKshlaialg 68 
                              +e++ ni++ G++G GK+ l   lg
  PHY93_01825|PHY93_01825 475 VEAHRNIIVSGGTGSGKTTLINILG 499
                              789***************9987776 PP

>> CBP_BcsQ  Cellulose biosynthesis protein BcsQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   0.4    0.0012      0.84       3     218 ..       5     225 ..       3     237 .. 0.70

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.0012
                 CBP_BcsQ   3 vlalqGvRGGvGttsllaaLawalhelge.svlviDlspdnlLrlhFnvdieqregwa.raeldgapwrqaaleyapgldllPfGe 86 
                              ++ + G +GG+G++ ++a La a    g+ + l++D+  +      F + ++ ++     ae++ga   +++ ++ +  + + +  
  PHY93_01825|PHY93_01825   5 IISIIGGKGGLGKSQVAANLAFAYAIEGKvKTLLLDFDQKASGDQDFITGMKGKKNIKeLAEFKGAIDPNSIQQFVSMNQNVYYIG 90 
                              67788889999999999999999987765378999998888888888888777666541477777766677777777766676666 PP

                 CBP_BcsQ  87 lnveekenlqqlaekaeallaalkelkeqyrwillDlpagasaltrellaladlvllvvepdanc...hvr....Lhqqalpaa.e 164
                              + ++  +   ++  + eal ++lk++++ y   ++D  ++ ++l+ ++l+ ++l l vv+pd  +     r    L    +p+   
  PHY93_01825|PHY93_01825  91 MPSDPMA---SSGIEVEALGRTLKAVTNIYPVTIIDAGNELTPLAIKALEYSTLILVVVTPDILAlnqTKRmysdLVTMMFPKDmI 173
                              6655544...3455677888888899999999999999999999999999999999999999744111222111144455554414 PP

                 CBP_BcsQ 165 llLiNqfeaasqlqqDllqlWlqslrrllPlvihrDealaEalaakqPlgeyrp 218
                              ++++Nq +    + +D++   ++  + +   v + D+  + al +k+P+   + 
  PHY93_01825|PHY93_01825 174 QFIVNQAQQGHPVTNDVIA--KTLGKPVFSAVAKDDQNCTLALNQKKPVMLVAR 225
                              6888888888888888875..344566666777777777778888888776655 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.1       4.1   2.8e+03      26      42 ..       8      24 ..       2      28 .. 0.72
   2 ?   10.1   0.0   0.00055      0.38      12      46 ..     468     502 ..     461     530 .. 0.85

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 4.1
             Mg_chelatase 26 llvGppGsGKtmlakrl 42
                             ++ G  G GK+ +a+ l
  PHY93_01825|PHY93_01825  8 IIGGKGGLGKSQVAANL 24
                             45578899****99887 PP

  == domain 2  score: 10.1 bits;  conditional E-value: 0.00055
             Mg_chelatase  12 kraleiaaaGgHnlllvGppGsGKtmlakrlpsll 46 
                                 l+ia+  + n+++ G  GsGKt l++ l + +
  PHY93_01825|PHY93_01825 468 ADFLRIAVEAHRNIIVSGGTGSGKTTLINILGGFI 502
                              56799**********************99887766 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.0   0.1       1.4   9.8e+02       9      29 ..       8      28 ..       3      59 .. 0.79
   2 ?    9.0   0.0    0.0023       1.6       5      28 ..     478     501 ..     475     551 .. 0.83

  Alignments for each domain:
  == domain 1  score: -0.0 bits;  conditional E-value: 1.4
                   AAA_22  9 vvtGesGtGKTtllrrlleql 29
                             ++ G  G GK+ ++++l+  +
  PHY93_01825|PHY93_01825  8 IIGGKGGLGKSQVAANLAFAY 28
                             6668889*******9998665 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.0023
                   AAA_22   5 agilvvtGesGtGKTtllrrlleq 28 
                              ++ ++v G +G+GKTtl++ l   
  PHY93_01825|PHY93_01825 478 HRNIIVSGGTGSGKTTLINILGGF 501
                              57799************9877655 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.7       6.6   4.6e+03      25      36 ..       7      18 ..       2      21 .. 0.78
   2 ?   11.8   0.1   0.00022      0.15      17      39 ..     473     495 ..     466     499 .. 0.82

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 6.6
                   AAA_29 25 tlltGpsGsGKS 36
                              ++ G+ G GKS
  PHY93_01825|PHY93_01825  7 SIIGGKGGLGKS 18
                             567789999**9 PP

  == domain 2  score: 11.8 bits;  conditional E-value: 0.00022
                   AAA_29  17 ieidlkgatlltGpsGsGKSTll 39 
                              i ++ + +++++G +GsGK+Tl+
  PHY93_01825|PHY93_01825 473 IAVEAHRNIIVSGGTGSGKTTLI 495
                              455555689*************8 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.9   0.0       0.9   6.2e+02       2      19 ..       8      25 ..       8      77 .. 0.80
   2 ?   -1.8   0.1       6.1   4.2e+03      27      70 ..     287     333 ..     274     350 .. 0.63
   3 ?    9.1   0.0    0.0026       1.8       1      18 [.     481     498 ..     481     548 .. 0.81

  Alignments for each domain:
  == domain 1  score: 0.9 bits;  conditional E-value: 0.9
                   AAA_18  2 lltGtpGvGKttlakeLs 19
                             ++ G+ G GK+++a +L+
  PHY93_01825|PHY93_01825  8 IIGGKGGLGKSQVAANLA 25
                             689999*********996 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 6.1
                   AAA_18  27 nlrdvakenglllevdpealdeskrldedkldklldaleenss.....a 70 
                              +++ ++ e +l  +++++  ++ +++ +++++k++  l +  +     +
  PHY93_01825|PHY93_01825 287 IHKALVEEMDLKKTDEND--PKAQIILKEQTKKVVVDLLGKEDtkavlN 333
                              456677777777777777..77777777777666655555544455442 PP

  == domain 3  score: 9.1 bits;  conditional E-value: 0.0026
                   AAA_18   1 IlltGtpGvGKttlakeL 18 
                              I+++G  G+GKttl + L
  PHY93_01825|PHY93_01825 481 IIVSGGTGSGKTTLINIL 498
                              99*************999 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.3   0.1       0.1        71       3      25 ..       7      29 ..       6      46 .. 0.86
   2 ?    7.4   0.4    0.0054       3.7       2      18 ..     480     496 ..     479     504 .. 0.89

  Alignments for each domain:
  == domain 1  score: 3.3 bits;  conditional E-value: 0.1
                             EEEEC-TTTCHHHHHHHHHHHHC CS
                    NACHT  3 vilqGeaGsGKTtLlqklalawa 25
                             +i+ G+ G GK+  ++ la+a a
  PHY93_01825|PHY93_01825  7 SIIGGKGGLGKSQVAANLAFAYA 29
                             6899**************99877 PP

  == domain 2  score: 7.4 bits;  conditional E-value: 0.0054
                              CEEEEC-TTTCHHHHHH CS
                    NACHT   2 lvilqGeaGsGKTtLlq 18 
                               +i+ G  GsGKTtL+ 
  PHY93_01825|PHY93_01825 480 NIIVSGGTGSGKTTLIN 496
                              689************75 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.5       3.9   2.7e+03     166     166 ..     299     299 ..     214     363 .. 0.54
   2 ?   10.4   0.3   0.00098      0.68      22      39 ..     481     498 ..     459     503 .. 0.81

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 3.9
                   AAA_23 166 e 166
                              +
  PHY93_01825|PHY93_01825 299 K 299
                              1 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 0.00098
                   AAA_23  22 tlItGpNGaGKTTildAi 39 
                               +++G +G+GKTT+++ +
  PHY93_01825|PHY93_01825 481 IIVSGGTGSGKTTLINIL 498
                              5789***********865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (747 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       723  (0.0403257); expected 358.6 (0.02)
Passed bias filter:                      581  (0.0324056); expected 358.6 (0.02)
Passed Vit filter:                       101  (0.00563333); expected 17.9 (0.001)
Passed Fwd filter:                        26  (0.00145016); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              26  [number of targets reported over threshold]
# CPU time: 0.82u 0.30s 00:00:01.11 Elapsed: 00:00:00.47
# Mc/sec: 4735.78
//
Query:       PHY93_01830|PHY93_01830  [L=294]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    2.7e-16   59.7   0.0    2.7e-16   59.7   0.0    3.1  3  T2SSF      Type II secretion system (T2SS), protein F
  ------ inclusion threshold ------
        3.6    6.9   7.1       0.23   10.8   0.8    2.0  2  DUF4191    Domain of unknown function (DUF4191)


Domain annotation for each model (and alignments):
>> T2SSF  Type II secretion system (T2SS), protein F
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   3.5         1   9.3e+03     107     121 ..      85      99 ..      64     102 .. 0.66
   2 !   59.7   0.0     3e-20   2.7e-16       2     123 ..     129     253 ..     128     255 .. 0.96
   3 ?    0.2   2.1     0.078     7e+02     102     122 ..     260     280 ..     259     283 .. 0.85

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 1
                              XXXXXXXXXXXXXXX CS
                    T2SSF 107 lllvvallvllilla 121
                              + +++++++l++++a
  PHY93_01830|PHY93_01830  85 IGAWIIGIILGVIFA 99 
                              344444455554444 PP

  == domain 2  score: 59.7 bits;  conditional E-value: 3e-20
                              HHHHHHHHHTT--HHHHHHHHHHHHSSHHHHHHHHHHHHHHHTTSSHHHHHC....T-TT.TS-HHHHHHHHHHHHHT-HHHHHHH CS
                    T2SSF   2 lrqlatllsaGvplveaLellaeeaengplaeelkriarrlraGgslseale....rtpssefpelvvqlirageeggnLaevLer 83 
                              l++la  ++aG+++ ++L ++ +e+ + p+++e++ i+++ r G +l+e +e    r p+++ +++v+++  + e+ggnLae+++ 
  PHY93_01830|PHY93_01830 129 LQLLANGIRAGLSVPQSLGMIVDEM-PAPISQEFNIILQQNRIGVPLEECFEnlakRVPTEDNDMFVSSINILRETGGNLAETFDT 213
                              899**********************.***************************9999999777*********************** PP

                              HHHHHHHHHHHHHHHHHHHHTTXXXXXXXXXXXXXXXXXX CS
                    T2SSF  84 laeyleeerelrrkllaallepllllvvallvllillail 123
                              + + ++e+ +l++k+ + +++ ++  +v+++++ +l +i+
  PHY93_01830|PHY93_01830 214 IVDVIRERVRLQQKIDTFTASGMFQGMVIGAMPYALGLIY 253
                              *********************************9998887 PP

  == domain 3  score: 0.2 bits;  conditional E-value: 0.078
                              HHTTXXXXXXXXXXXXXXXXX CS
                    T2SSF 102 llepllllvvallvllillai 122
                              ++ pl++ v+++++l++ +++
  PHY93_01830|PHY93_01830 260 SMTPLFTTVIGFIMLFFAVLF 280
                              78899********99999876 PP

>> DUF4191  Domain of unknown function (DUF4191)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.8   2.5e-05      0.23      18      63 ..      56     101 ..      37     110 .. 0.79
   2 ?   -1.1   0.8      0.11   9.8e+02      21      45 ..     256     280 ..     214     293 .. 0.60

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 2.5e-05
                  DUF4191  18 trkedkkllwlllaaflvvvvvfvvlglllgslilllilgillgll 63 
                               + ++ +l+++ll+  ++  + +++l+ ++g +i+ +ilg++++++
  PHY93_01830|PHY93_01830  56 IEISQDRLTYILLGSSVGLGAFIFILCGIIGAWIIGIILGVIFAFI 101
                              5556778899999999999888777777779999999999999876 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.11
                  DUF4191  21 edkkllwlllaaflvvvvvfvvlgl 45 
                              +d++ +  l++++++ +++f+++ +
  PHY93_01830|PHY93_01830 256 QDPASMTPLFTTVIGFIMLFFAVLF 280
                              3444444444444444444444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (294 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       939  (0.0523733); expected 358.6 (0.02)
Passed bias filter:                      441  (0.024597); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.25s 00:00:00.83 Elapsed: 00:00:00.46
# Mc/sec: 1932.76
//
Query:       PHY93_01835|PHY93_01835  [L=540]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.3e-21   76.6   5.9    1.6e-07   31.7   1.0    8.0 10  RHS_repeat  RHS Repeat
     0.0054   16.7   0.9        2.7    8.0   0.1    3.4  2  Nup35_RRM   Nup53/35/40-type RNA recognition motif
  ------ inclusion threshold ------
      0.018   14.4   0.2        0.8    9.0   0.0    2.7  3  Corona_M    Coronavirus M matrix/glycoprotein
      0.089   13.0   0.2       0.66   10.2   0.0    2.5  3  PAS_7       PAS fold
       0.11   13.1  17.3         64    4.1   7.6    4.9  3  FlaE        Flagellar basal body protein FlaE


Domain annotation for each model (and alignments):
>> RHS_repeat  RHS Repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.3   0.0    0.0084        30       1      22 [.     185     206 ..     185     219 .. 0.81
   2 !   13.4   0.0   2.4e-05     0.086       3      36 ..     228     261 ..     226     262 .. 0.85
   3 !   31.7   1.0   4.4e-11   1.6e-07       1      35 [.     247     281 ..     247     284 .. 0.96
   4 ?    1.7   0.0      0.11     4e+02       8      22 ..     296     310 ..     289     313 .. 0.81
   5 ?   -3.4   0.0       4.3   1.5e+04      13      22 ..     330     341 ..     325     341 .. 0.54
   6 ?   -1.6   0.0       1.2   4.1e+03      13      20 ..     347     354 ..     344     355 .. 0.79
   7 !   12.0   0.0   6.6e-05      0.23      16      37 ..     384     405 ..     378     405 .. 0.89
   8 !   14.6   0.0     1e-05     0.036       6      36 ..     417     446 ..     411     448 .. 0.86
   9 !   16.6   0.0   2.3e-06    0.0082       1      33 [.     432     464 ..     432     468 .. 0.96
  10 ?    2.4   0.0     0.068   2.4e+02       1      28 [.     453     486 ..     453     489 .. 0.53

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.0084
               RHS_repeat   1 YDaaGrLtevtdpsGrvttYtY 22 
                              +D +G Lt +td +G    ++Y
  PHY93_01835|PHY93_01835 185 FDNDGKLTKITDKNGYAILFEY 206
                              5889999999999999888888 PP

  == domain 2  score: 13.4 bits;  conditional E-value: 2.4e-05
               RHS_repeat   3 aaGrLtevtdpsGrvttYtYDaqGrlttlTdpdG 36 
                              ++G + + + +    t YtYD+ G+l +  d +G
  PHY93_01835|PHY93_01835 228 PDGKIKSASSAGDKKTNYTYDPKGNLIQSVDVGG 261
                              6788888888888889**********99999888 PP

  == domain 3  score: 31.7 bits;  conditional E-value: 4.4e-11
               RHS_repeat   1 YDaaGrLtevtdpsGrvttYtYDaqGrlttlTdpd 35 
                              YD+ G+L++ +d  G+++ Y YD+ ++ltt+T+ d
  PHY93_01835|PHY93_01835 247 YDPKGNLIQSVDVGGNSYKYDYDGNHNLTTITYVD 281
                              9*******************************987 PP

  == domain 4  score: 1.7 bits;  conditional E-value: 0.11
               RHS_repeat   8 tevtdpsGrvttYtY 22 
                              tev+  +G +t Y Y
  PHY93_01835|PHY93_01835 296 TEVVERNGESTKYKY 310
                              89999********99 PP

  == domain 5  score: -3.4 bits;  conditional E-value: 4.3
               RHS_repeat  13 psGrv..ttYtY 22 
                              ++G     +Y+Y
  PHY93_01835|PHY93_01835 330 ADGPEsvSRYEY 341
                              444333248998 PP

  == domain 6  score: -1.6 bits;  conditional E-value: 1.2
               RHS_repeat  13 psGrvttY 20 
                              p+G+++tY
  PHY93_01835|PHY93_01835 347 PDGQQYTY 354
                              89*99888 PP

  == domain 7  score: 12.0 bits;  conditional E-value: 6.6e-05
               RHS_repeat  16 rvttYtYDaqGrlttlTdpdGr 37 
                              +vtt++Y+a G lt+ T + G+
  PHY93_01835|PHY93_01835 384 DVTTFEYNAKGLLTKKTSTKGE 405
                              579**************99996 PP

  == domain 8  score: 14.6 bits;  conditional E-value: 1e-05
               RHS_repeat   6 rLtevtdpsGrvttYtYDaqGrlttlTdpdG 36 
                               +t v++ +G++ t++YD  G+l ++ + +G
  PHY93_01835|PHY93_01835 417 KITKVVNNEGWT-TFQYDKTGNLSKAVNSSG 446
                              579999******.8*********99888877 PP

  == domain 9  score: 16.6 bits;  conditional E-value: 2.3e-06
               RHS_repeat   1 YDaaGrLtevtdpsGrvttYtYDaqGrlttlTd 33 
                              YD  G+L   ++ sG ++ + YD +G +t+++d
  PHY93_01835|PHY93_01835 432 YDKTGNLSKAVNSSGKSVLLIYDRAGKITKMID 464
                              9****************************9877 PP

  == domain 10  score: 2.4 bits;  conditional E-value: 0.068
               RHS_repeat   1 YDaaGrLtev.....tdp.sGrvttYtYDaqGrl 28 
                              YD+aG +t        d+ s r+ ++ Y+++G +
  PHY93_01835|PHY93_01835 453 YDRAGKITKMidqekNDEkSRRTLSFKYNSMGKP 486
                              8888888777433334442222235666666655 PP

>> Nup35_RRM  Nup53/35/40-type RNA recognition motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.1     0.028     1e+02      49      76 ..     269     303 ..     208     307 .. 0.69
   2 !    8.0   0.1   0.00075       2.7      45      75 ..     394     425 ..     382     451 .. 0.50

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.028
                              -.......---EETTEEEEEBS-HHHHHHHHTTTT CS
                Nup35_RRM  49 k.......piptgenwvkltYksessaskAlqeng 76 
                              +        ++ +++ ++++Y+++s a+  +++ng
  PHY93_01835|PHY93_01835 269 DgnhnlttITYVDNSKMHIKYDKNSFATEVVERNG 303
                              1555555556788899****************999 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.00075
                              --------EETTEEEEEBS-HHHHH.HHHTTT CS
                Nup35_RRM  45 glnpkpiptgenwvkltYksessas.kAlqen 75 
                              gl +k+++t++++v+l Y+ ++++  k ++++
  PHY93_01835|PHY93_01835 394 GLLTKKTSTKGEFVQLDYDDKINKItKVVNNE 425
                              55555555555555555555544420222222 PP

>> Corona_M  Coronavirus M matrix/glycoprotein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.1      0.75   2.7e+03     173     206 ..     182     215 ..     179     222 .. 0.77
   2 ?    2.3   0.0     0.025        89     104     134 ..     242     272 ..     232     295 .. 0.84
   3 ?    9.0   0.0   0.00022       0.8     178     209 ..     414     446 ..     408     452 .. 0.81

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 0.75
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.XX CS
                 Corona_M 173 tiiyskvgkslksgtktgfaayvrakaGdysave 206
                              t  +   gk +k + k+g+a+  ++ka +  a++
  PHY93_01835|PHY93_01835 182 TDFFDNDGKLTKITDKNGYAILFEYKANQVYAIK 215
                              5566677899999*******99999988776665 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.025
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                 Corona_M 104 rslWsfnPetnailsvlllGqsvvlpleeap 134
                              ++ ++++P  n i sv + G+s++   ++  
  PHY93_01835|PHY93_01835 242 KTNYTYDPKGNLIQSVDVGGNSYKYDYDGNH 272
                              77899*****************998776654 PP

  == domain 3  score: 9.0 bits;  conditional E-value: 0.00022
                              XXXXXXXXXXXXXXXXXXXXXXXXXX..XXXXX CS
                 Corona_M 178 kvgkslksgtktgfaayvrakaGdys.avetdt 209
                              k++k +k+ +++g++++ + k+G++s av++++
  PHY93_01835|PHY93_01835 414 KINKITKVVNNEGWTTFQYDKTGNLSkAVNSSG 446
                              78999*******************972455544 PP

>> PAS_7  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0      0.76   2.7e+03      92     107 ..      20      35 ..      15      36 .. 0.83
   2 ?   10.2   0.0   0.00018      0.66      12      89 ..      75     157 ..      71     165 .. 0.75
   3 ?   -3.5   0.0       3.1   1.1e+04      49      80 ..     401     432 ..     396     440 .. 0.73

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.76
                    PAS_7  92 gnplpdgGfVttytDi 107
                              g  l +g f +tytDi
  PHY93_01835|PHY93_01835  20 GVNLKNGNFYITYTDI 35 
                              66789999*******9 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 0.00018
                    PAS_7  12 DadlrLvaw.Nrrylelldlpeelvqvgvpleellrynaergefgagdveaeverrlaaara....gkphsfererpdgrvie 89 
                              +ad+ +v++ N    +   +p+e v+vg   +++++ +++++ +++++v+a ++r  + a+      k++++e + +dg+++ 
  PHY93_01835|PHY93_01835  75 SADGSVVVIeNGSGAQTRFVPKEAVNVGSASKKIVEAMKKKEPMSESAVQALINRLNNDAEIrqaySKKYNVETKLADGTTLY 157
                              55555444326666666779********************************9999966554224556677888888888875 PP

  == domain 3  score: -3.5 bits;  conditional E-value: 3.1
                    PAS_7  49 aergefgagdveaeverrlaaaragkphsfer 80 
                              +++gef + d +++++++++ ++++  ++f+ 
  PHY93_01835|PHY93_01835 401 STKGEFVQLDYDDKINKITKVVNNEGWTTFQY 432
                              67788888888888888888887776666665 PP

>> FlaE  Flagellar basal body protein FlaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.1      0.84     3e+03      90     114 ..     106     163 ..      43     173 .. 0.49
   2 ?    1.3   6.5      0.14     5e+02      30      91 ..     214     281 ..     132     316 .. 0.57
   3 ?    4.1   7.6     0.018        64      34      80 ..     419     470 ..     262     530 .. 0.46

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 0.84
                     FlaE  90 t.................................ntqtitldfgllkgstqyasafsv 114
                              +                                  +++ +++ +l++g+t y+++ ++
  PHY93_01835|PHY93_01835 106 KkiveamkkkepmsesavqalinrlnndaeirqaYSKKYNVETKLADGTTLYSNDRGI 163
                              1334444444444444444445444444444434222233333223466666665555 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.14
                     FlaE  30 vktgtpntWevyvtvDgkevdaaatalstgtltFdssGkltsvsaetlasessleaaasst......n 91 
                               k++++++  +  + Dgk  +a +++ ++++ t+d++G+l+++ +  ++s + +++++++       +
  PHY93_01835|PHY93_01835 214 IKDTQAKQILLEWYPDGKIKSASSAGDKKTNYTYDPKGNLIQSVDVGGNSYKYDYDGNHNLttityvD 281
                              22222222333333366555555777777777777777777755555544421222222222344442 PP

  == domain 3  score: 4.1 bits;  conditional E-value: 0.018
                     FlaE  34 t...pnt.Wevyvt.vDgkevdaa...atalstgtltFdssGkltsvsaetlase 80 
                              t   +n+ W+++ + + g+        +++ +++ l +d +Gk+t++ +++ ++e
  PHY93_01835|PHY93_01835 419 TkvvNNEgWTTFQYdKTGNL---SkavNSSGKSVLLIYDRAGKITKMIDQEKNDE 470
                              01223333444444222222...02335566666666666666666544444443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (540 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1281  (0.0714485); expected 358.6 (0.02)
Passed bias filter:                      599  (0.0334096); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.69u 0.28s 00:00:00.97 Elapsed: 00:00:00.47
# Mc/sec: 3447.67
//
Query:       PHY93_01840|PHY93_01840  [L=85]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.011   15.5   1.7      0.023   14.5   1.7    1.6  1  CRAM_rpt  Cysteine-rich acidic integral membrane protein prec


Domain annotation for each model (and alignments):
>> CRAM_rpt  Cysteine-rich acidic integral membrane protein precursor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   1.7   1.3e-06     0.023       1      16 [.      19      34 ..      19      39 .. 0.91

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 1.3e-06
                 CRAM_rpt  1 adDCllTGdCslTddC 16
                             a+DC l GdC    dC
  PHY93_01840|PHY93_01840 19 AGDCKLGGDCKVEADC 34
                             8*********999999 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (85 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       489  (0.0272742); expected 358.6 (0.02)
Passed bias filter:                      247  (0.0137766); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.28s 00:00:00.74 Elapsed: 00:00:00.48
# Mc/sec: 527.51
//
Query:       PHY93_01845|PHY93_01845  [L=58]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (58 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       348  (0.0194099); expected 358.6 (0.02)
Passed bias filter:                      276  (0.0153941); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.27s 00:00:00.70 Elapsed: 00:00:00.46
# Mc/sec: 382.23
//
Query:       PHY93_01850|PHY93_01850  [L=59]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00049   20.0   0.3     0.0006   19.7   0.3    1.1  1  PetL      Cytochrome B6-F complex subunit VI (PetL)


Domain annotation for each model (and alignments):
>> PetL  Cytochrome B6-F complex subunit VI (PetL)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.7   0.3   3.4e-08    0.0006      14      28 ..       3      17 ..       1      18 [. 0.95

  Alignments for each domain:
  == domain 1  score: 19.7 bits;  conditional E-value: 3.4e-08
                             HHHHHHHHHHHHHTS CS
                     PetL 14 alaiAlgLffGLrai 28
                             al+iA++Lff+Lrai
  PHY93_01850|PHY93_01850  3 ALVIASVLFFSLRAI 17
                             8*************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (59 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       322  (0.0179597); expected 358.6 (0.02)
Passed bias filter:                      245  (0.013665); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.24s 00:00:00.64 Elapsed: 00:00:00.42
# Mc/sec: 417.40
//
Query:       PHY93_01855|PHY93_01855  [L=108]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (108 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1266  (0.0706119); expected 358.6 (0.02)
Passed bias filter:                      458  (0.0255452); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.27s 00:00:00.73 Elapsed: 00:00:00.46
# Mc/sec: 712.17
//
Query:       PHY93_17025|PHY93_17025  [L=229]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    7.1e-42  143.1   0.1      9e-42  142.7   0.1    1.0  1  adh_short       short chain dehydrogenase
    4.2e-36  124.7   0.1    5.1e-36  124.4   0.1    1.0  1  adh_short_C2    Enoyl-(Acyl carrier protein) reductase
    1.6e-10   41.2   0.1    2.1e-10   40.8   0.1    1.1  1  KR              KR domain
    6.9e-05   22.4   0.1    0.00011   21.8   0.1    1.3  1  Epimerase       NAD dependent epimerase/dehydratase family
    9.4e-05   22.4   0.0    0.00013   21.9   0.0    1.3  1  NAD_binding_10  NAD(P)H-binding
      0.009   15.4   0.3      0.048   13.0   0.3    1.8  1  DUF1776         Fungal family of unknown function (DUF1776)
  ------ inclusion threshold ------
       0.02   14.0   0.1      0.032   13.3   0.1    1.3  1  RmlD_sub_bind   RmlD substrate binding domain
       0.13   11.8   0.2       0.17   11.4   0.2    1.2  1  NmrA            NmrA-like family


Domain annotation for each model (and alignments):
>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  142.7   0.1     4e-45     9e-42       2     188 ..       5     195 ..       4     199 .. 0.96

  Alignments for each domain:
  == domain 1  score: 142.7 bits;  conditional E-value: 4e-45
                              EEEEESTTSHHHHHHHHHHHHTT-EEEEEESCHHHHHHHHHHHHHTTSEEEEEE-TTTSHHHHHHHHHHHHHHHSSESEEEE---S CS
                adh_short   2 vvlvtGassGIGraiakelakeGakvvvvdrseekleevakelkeegakalaiqvDvtdreevealvekavkklgkldvLvnNAGi 87 
                              ++lvtGa +GIG ++ ++la++G+ v++ +r+ ++ ++++ el+   ++++a+++Dvt+ ++ve++ ++++kk+ +ldv++nNA+i
  PHY93_17025|PHY93_17025   5 IALVTGANRGIGFEVTRQLANRGYIVFLGSRNLKNGQAAVRELNFSPEQVIALELDVTSGTSVENAKSEIQKKFNHLDVIINNAAI 90 
                              69*******************************************9**************************************** PP

                              ..S--SSGGGCSHHHHHHHHHHHTHHHHHHHHHHHHHHHHCTTEEEEEEEEGGG..TSB-TTBHHHHHHHHHHHHHHHHHHHHHGG CS
                adh_short  88 ..tgsgpfselseeewervievNltgvflltravlpamlkqssGrIvnvsSvag..kvpvagvaaYsAsKaavagltrslakelap 169
                                   +++  ++ + + + +e+N  g++ ++ ++l  +l+++ GrIvnvsS ag     ++ ++aY  sK a+++lt+  a+ l+p
  PHY93_17025|PHY93_17025  91 hyDDWETVTTVDLNIVHEALETNTYGAIRIINTMLSLLLQSKHGRIVNVSSGAGslATMSPDTPAYNLSKVALNALTKMYAEKLRP 176
                              876778888999999***************************************55566899************************ PP

                              GTEEEEEEEESSBSSHHHH CS
                adh_short 170 tgirvnavaPGlvdTdmak 188
                                i vn+v+PG + Tdm k
  PHY93_17025|PHY93_17025 177 NDILVNSVCPGWTFTDMGK 195
                              *****************76 PP

>> adh_short_C2  Enoyl-(Acyl carrier protein) reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  124.4   0.1   2.3e-39   5.1e-36       1     182 [.      10     197 ..      10     215 .. 0.91

  Alignments for each domain:
  == domain 1  score: 124.4 bits;  conditional E-value: 2.3e-39
                              TTTTSHHHHHHHHHHHTT-EEEEEESSGGH.HHHHHHHHHHTTSEE.EE--TTSHHHHHHHHHHHHHHHSSEEEEEE-----EGCS CS
             adh_short_C2   1 GaasgIGraiAkalaeeGaevvltdlneea.kkrveelaeelgaev.lecDVtdeeqvealveevvekfgklDilvnnagiapklk 84 
                              Ga +gIG+++ ++la++G+ v l  +n ++ +++v+el  + ++ + le+DVt+ ++ve++ +e+++kf++lD+++nna+i  +  
  PHY93_17025|PHY93_17025  10 GANRGIGFEVTRQLANRGYIVFLGSRNLKNgQAAVRELNFSPEQVIaLELDVTSGTSVENAKSEIQKKFNHLDVIINNAAIHYDDW 95 
                              899***************************99999999998666646***********************************9967 PP

                              S-GGGH-HHHHHHHHHHHTHHHHHHHHHHHH.HCTSC.CEEEEEEEGGGTSB..STTTTHHHHHHHHHHHHHHHHHHHHGGGTEEE CS
             adh_short_C2  85 gpfletsreefdraldvnlyslfllakaalp.lmkeg.gsivnlssvgaerv..vpnynaygaaKaalealtrylAvelgpkgiRv 166
                              + +++++ + +++al++n+y+++++++ +l  l++++ g+ivn+ss +++ +   p++ ay+ +K al+alt+  A +l p+ i v
  PHY93_17025|PHY93_17025  96 ETVTTVDLNIVHEALETNTYGAIRIINTMLSlLLQSKhGRIVNVSSGAGSLAtmSPDTPAYNLSKVALNALTKMYAEKLRPNDILV 181
                              778888*************************7566557*********998764477888*************************** PP

                              EEEEE--BHCTGGGGS CS
             adh_short_C2 167 NavspgpikTlaasgi 182
                              N+v+pg++ T++ +g 
  PHY93_17025|PHY93_17025 182 NSVCPGWTFTDMGKGG 197
                              ************9875 PP

>> KR  KR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.8   0.1   9.2e-14   2.1e-10       4     159 ..       7     166 ..       5     182 .. 0.80

  Alignments for each domain:
  == domain 1  score: 40.8 bits;  conditional E-value: 9.2e-14
                              EEETTTSHHHHHHHHHHHHHHS-EEEEE-SS..--HHHHHHHHHHHHTT-EEEE----TT-HHHHHHHHHHHHHHSS---EEEE-- CS
                       KR   4 litGGlGgLGlelarwlaekgarhlvllsRsaaadedskaliaelealgaevevvaaDvsdkdavealleeikaeeppikGvihaA 89 
                              l+tG+  g+G e++r+la++g   +v+l+ +  + ++ +a ++el+ +  +v ++++Dv++ ++ve++ +ei+++++ +  +i+ A
  PHY93_17025|PHY93_17025   7 LVTGANRGIGFEVTRQLANRG--YIVFLGSR--NLKNGQAAVRELNFSPEQVIALELDVTSGTSVENAKSEIQKKFNHLDVIINNA 88 
                              9*******************9..68888888..45666779******************************************999 PP

                              -----..--TTT--HHHHHHHHTTTTHHHHHHHHHTTT....S--SEEEEEEEHHHHH-..-TT-HHHHHHHHHHHHH CS
                       KR  90 gvlrd..klleemtaedleqvlapKvkGawnLhelled....esldffvlfSSiagllg..sagqanYaaaNaflDal 159
                               +  d  +++++++ + ++++l+    Ga  + +++ +    ++   +v +SS ag l   s+   +Y      l+al
  PHY93_17025|PHY93_17025  89 AIHYDdwETVTTVDLNIVHEALETNTYGAIRIINTMLSlllqSKHGRIVNVSSGAGSLAtmSPDTPAYNLSKVALNAL 166
                              888762457889999999999999999997766555443444777888999999886541144555566555555555 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.8   0.1   4.8e-08   0.00011       1     156 [.       6     170 ..       6     182 .. 0.64

  Alignments for each domain:
  == domain 1  score: 21.8 bits;  conditional E-value: 4.8e-08
                              EEEETTTSHHHHHHHHHHHHCTSE.EEEEES-STTTTCHHCHHC.......EEEE--TT-HHHHHHHHHH....H.T-SEEEE--S CS
                Epimerase   1 ilVtGatGfiGsalvkallekgye.vigldrlssasntarledl.......elveldltdrsalerlfke....e.qpdavihlAa 73 
                              +lVtGa+  iG  ++++l+++gy   +g  +l+++++  r+  l          eld+t ++++e++ +e    + + d++i+ Aa
  PHY93_17025|PHY93_17025   6 ALVTGANRGIGFEVTRQLANRGYIvFLGSRNLKNGQAAVRE--LnfspeqvIALELDVTSGTSVENAKSEiqkkFnHLDVIINNAA 89 
                              59********************9944555555444444433..346999999999****9997776654322223489******** PP

                              ---HHHHHHSHHHH......HHHHTHHHHHHHHHHH....HHTCTEEEEEEEGGGGTSCSSSSBSTCSTTS----SSHHHHHHHHH CS
                Epimerase  74 vggvaassedpadf......ieknlqgtlnlleaar....kagvkrllflsSsevYGkdaeqpkeettltgplkpnspYaaaKlag 149
                              +   +++  +  d+      +e+n+ g+ ++++ +     +++  r++++sS    G  a++  +        + + +Y ++K+a 
  PHY93_17025|PHY93_17025  90 IHYDDWETVTTVDLnivheaLETNTYGAIRIINTMLslllQSKHGRIVNVSSG--AGSLATM--S--------PDTPAYNLSKVAL 163
                              99999988777665222222667777777777776644433344488888883..3333331..1........2233455555555 PP

                              HHHHHHH CS
                Epimerase 150 eklveay 156
                                l++ y
  PHY93_17025|PHY93_17025 164 NALTKMY 170
                              5554444 PP

>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.9   0.0   5.9e-08   0.00013       1     150 [.      10     193 ..      10     215 .. 0.65

  Alignments for each domain:
  == domain 1  score: 21.9 bits;  conditional E-value: 5.9e-08
                              TTTSHHHHHHHHHHHHC-T-EEEEEETT....HHHCHHHH.CTTTCEEEE--TT-.......CCHHHHHHTT-SEEEES---TCCH CS
           NAD_binding_10   1 GAtGkvGrllvkellargghevtalvRn....peklaele.aeeglevvegdvtd.......vedlaealkgadaVvsalggggkd 74 
                              GA+ ++G +++++l++rg + v +  Rn    ++ + el  + e++ ++e+dvt+       ++++++ +++ d+++ +++ + +d
  PHY93_17025|PHY93_17025  10 GANRGIGFEVTRQLANRG-YIVFLGSRNlkngQAAVRELNfSPEQVIALELDVTSgtsvenaKSEIQKKFNHLDVIINNAAIHYDD 94 
                              9****************5.*********654444445555567888888999987333322335666777799*******888883 PP

                              HHH...................HHHHHHHH....HHCT--EEEEEEE.TTTTSGCGCHHHHHHHHCCHHHHHHHHHHHHH.HHHSS CS
           NAD_binding_10  75 eeg...................aknivdaa....keagvkRfvlvsa.igvgdevpgefgewnkellkaylaakraaeel.lrasg 135
                               e+                   a++i++ +     +++  R+v vs+ +g+      +++  +++l k +l a +++ ++ lr  +
  PHY93_17025|PHY93_17025  95 WETvttvdlnivhealetntygAIRIINTMlsllLQSKHGRIVNVSSgAGSLATMSPDTP--AYNLSKVALNALTKMYAEkLRPND 178
                              333344566667777788888977777666222268999*****9984566543333333..334445555555554443366677 PP

                              SEEEEEEE-CEE-ST CS
           NAD_binding_10 136 ldwTivrpggLtdep 150
                              +    v+pg+   + 
  PHY93_17025|PHY93_17025 179 ILVNSVCPGWTFTDM 193
                              777777777764443 PP

>> DUF1776  Fungal family of unknown function (DUF1776)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.0   0.3   2.1e-05     0.048      22     192 ..      21     181 ..       6     187 .. 0.69

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 2.1e-05
                  DUF1776  22 lDLerrGFiVfvtvesaee.eklvesed.red.Irplsvdd.dpssieasleefaqslesphvalpgakphvlrLkgvilvPslsy 103
                                L  rG+iVf+ +++ ++ +++v++ + +++ + +l +d  + +s+e++ +e++++++              +L  +i      y
  PHY93_17025|PHY93_17025  21 RQLANRGYIVFLGSRNLKNgQAAVRELNfSPEqVIALELDVtSGTSVENAKSEIQKKFN--------------HLDVIINNAAIHY 92 
                              57889***********9873567888887666677888777445555555555555555..............7888888888888 PP

                  DUF1776 104 .ptgpietiplsswaselnerllspiltlqallplltsrakqkakiivvnpsissslnlpfhapEa.lvssalsalfevLkrelrp 187
                                   ++t+ l+ ++++l+++    i +++ +l+ll +  +++ +i+ v+ +  s   +    p   l   al+al+++ +++lrp
  PHY93_17025|PHY93_17025  93 dDWETVTTVDLNIVHEALETNTYGAIRIINTMLSLLLQ--SKHGRIVNVSSGAGSLATMSPDTPAYnLSKVALNALTKMYAEKLRP 176
                              87778888888888888888888888888888888877..4677777776655444433333333303344677777777777777 PP

                  DUF1776 188 hnidv 192
                               +i v
  PHY93_17025|PHY93_17025 177 NDILV 181
                              66655 PP

>> RmlD_sub_bind  RmlD substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.1   1.4e-05     0.032       4      68 ..       7      96 ..       4     114 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.4e-05
                             EEESTTSHHHHHHHHHCTTTSEEEEEE-TT.....................T--TTSHHHHHHHHHHH--S.....EEEE------HH CS
            RmlD_sub_bind  4 lvtGanGqlGseLakqlaeeglevlaltre.....................eldltdaeavaellkeakpd.....vvvnaAAytavD 65
                             lvtGan  +G e+++qla++g+ v   +r+                     eld+t  ++v+++ +e++++     v++n AA +  D
  PHY93_17025|PHY93_17025  7 LVTGANRGIGFEVTRQLANRGYIVFLGSRNlkngqaavrelnfspeqvialELDVTSGTSVENAKSEIQKKfnhldVIINNAAIH-YD 93
                             89*******************8888778889********************************99888765444449***99975.34 PP

                             HHH CS
            RmlD_sub_bind 66 kaE 68
                               E
  PHY93_17025|PHY93_17025 94 DWE 96
                             445 PP

>> NmrA  NmrA-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.2   7.8e-05      0.17       2      77 ..       7      97 ..       6     114 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 7.8e-05
                             EESSTTSHHHHHHHHHHHHHT-EEEEEES-S..-SHHHHHHHHSTTEEEES-TT.........-HHHHHHHHTT-SEEEE---GG... CS
                     NmrA  2 lviGaTGrqGksvvrallkaghkvralvRdt..kselakslkeaGvelvkgdld.........dkeslvealkgvdvvfsvtgfy... 75
                             lv+Ga   +G  v+r l+++g+ v+   R++   + ++++l+ ++ ++++ +ld          k+ +++ ++  dv++ + ++    
  PHY93_17025|PHY93_17025  7 LVTGANRGIGFEVTRQLANRGYIVFLGSRNLknGQAAVRELNFSPEQVIALELDvtsgtsvenAKSEIQKKFNHLDVIINNAAIHydd 94
                             79999999***********************55567889************9999999999988889999999999999887765554 PP

                             .S- CS
                     NmrA 76 .sk 77
                              ++
  PHY93_17025|PHY93_17025 95 wET 97
                             444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (229 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       551  (0.0307323); expected 358.6 (0.02)
Passed bias filter:                      472  (0.0263261); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.52u 0.27s 00:00:00.79 Elapsed: 00:00:00.45
# Mc/sec: 1526.40
//
Query:       PHY93_01860|PHY93_01860  [L=133]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.5e-26   92.8   0.2    1.7e-26   92.6   0.2    1.0  1  Response_reg  Response regulator receiver domain
  ------ inclusion threshold ------
       0.21   12.1   1.3        2.2    8.8   0.1    2.2  2  zf-H2C2_2     Zinc-finger double domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   92.6   0.2   1.9e-30   1.7e-26       1     112 []      12     124 ..      12     124 .. 0.96

  Alignments for each domain:
  == domain 1  score: 92.6 bits;  conditional E-value: 1.9e-30
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCT.TTSEEEEEESSTSHHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireed.pelpviiltahseeed 85 
                              +livdD+  +r+ ++++l++egy++ ++a ++++a+++++++k +li++D+ mp+++Glel+k+ +e++  e  +i++++ + ++ 
  PHY93_01860|PHY93_01860  12 ILIVDDSDFNRRSMAEILTNEGYNVAGQAGSAEDAIQIAHSSKANLIFIDVVMPDISGLELTKHFQEKHtGERFIIMMSSLNIDSI 97 
                              8**********************7777**************************************887768899************ PP

                              HHHHHHCTESEEEESSG-HHHHHHHHH CS
             Response_reg  86 avealkagaddflsKpfdpeeLlkale 112
                              ++e ++ ga dfl+Kpf+ ++Llka+e
  PHY93_01860|PHY93_01860  98 VIESISNGAIDFLQKPFECDDLLKAVE 124
                              ************************985 PP

>> zf-H2C2_2  Zinc-finger double domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   0.1   0.00025       2.2       2      13 ..      72      84 ..      71      87 .. 0.83
   2 ?    2.1   0.1     0.034   3.1e+02      12      18 ..     111     117 ..     111     118 .. 0.86

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.00025
                zf-H2C2_2  2 LrrHir.kHtgek 13
                             L++H+  kHtge+
  PHY93_01860|PHY93_01860 72 LTKHFQeKHTGER 84
                             99****55****7 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.034
                zf-H2C2_2  12 ekpyeCp 18 
                              +kp+eC+
  PHY93_01860|PHY93_01860 111 QKPFECD 117
                              69****7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (133 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       356  (0.0198561); expected 358.6 (0.02)
Passed bias filter:                      301  (0.0167884); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.26s 00:00:00.74 Elapsed: 00:00:00.46
# Mc/sec: 868.10
//
Query:       PHY93_01865|PHY93_01865  [L=803]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.4e-87  291.8   0.9    2.4e-87  291.8   0.9    2.1  3  Lon_C           Lon protease (S16) C-terminal proteolytic dom
    3.4e-38  131.6   0.3    3.4e-38  131.6   0.3    2.1  2  LON_substr_bdg  ATP-dependent protease La (LON) substrate-bin
    7.3e-23   81.4   0.0    3.1e-22   79.4   0.0    2.1  2  AAA             ATPase family associated with various cellula
    2.6e-09   36.9   0.1    5.8e-09   35.8   0.1    1.6  1  ChlI            Subunit ChlI of Mg-chelatase
    2.5e-06   27.5   0.0    6.7e-06   26.2   0.0    1.8  1  AAA_5           AAA domain (dynein-related subfamily)
    2.9e-05   24.2   0.3    0.00025   21.2   0.0    2.4  2  AAA_2           AAA domain (Cdc48 subfamily)
    0.00068   20.1   1.0      0.011   16.2   0.1    3.1  4  AAA_16          AAA ATPase domain
     0.0046   16.7   0.0        0.1   12.3   0.0    2.5  2  RuvB_N          Holliday junction DNA helicase RuvB P-loop do
      0.005   17.4   1.0       0.26   11.8   0.0    2.8  2  AAA_18          AAA domain
     0.0054   17.0   1.4      0.044   14.0   0.1    2.8  2  AAA_22          AAA domain
     0.0069   16.4   0.0      0.023   14.8   0.0    2.0  1  AAA_14          AAA domain
     0.0076   14.5   0.7      0.014   13.6   0.7    1.4  1  RAB3GAP2_C      Rab3 GTPase-activating protein regulatory sub
  ------ inclusion threshold ------
      0.012   15.5   0.0      0.064   13.1   0.0    2.2  3  AAA_3           ATPase family associated with various cellula
       0.11   12.7   0.0        0.2   11.8   0.0    1.4  1  AAA_33          AAA domain
       0.13   11.9   0.0       0.32   10.7   0.0    1.6  1  IstB_IS21       IstB-like ATP binding protein
       0.78   10.0   2.3        1.4    9.1   0.0    2.2  2  AAA_28          AAA domain


Domain annotation for each model (and alignments):
>> Lon_C  Lon protease (S16) C-terminal proteolytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0       3.7   4.2e+03     174     196 ..     484     506 ..     477     514 .. 0.78
   2 ?   -3.2   0.0       4.4     5e+03     150     179 ..     527     556 ..     523     563 .. 0.81
   3 !  291.8   0.9   2.2e-90   2.4e-87       2     204 ..     581     782 ..     580     783 .. 0.98

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 3.7
                              GGTTTS-HHHHTS-B--EESBHH CS
                    Lon_C 174 kdlediPeevreeleiilveevd 196
                              + l++iP  +r+ +eii ++ + 
  PHY93_01865|PHY93_01865 484 NVLDQIPAPLRDRMEIINLSGYT 506
                              45899**********99887655 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 4.4
                              -HHHHHHHHHHTT-SBEEEEGGGGGGTTTS CS
                    Lon_C 150 GlkekllaakragikkvilPkenekdledi 179
                              G+ ek +a +  g+ +vi    +e  l+++
  PHY93_01865|PHY93_01865 527 GINEKHIAFTDDGVASVIKGYTAEAGLRNL 556
                              999***********9999877777777666 PP

  == domain 3  score: 291.8 bits;  conditional E-value: 2.2e-90
                              E-TTTTHHHH-S-SS--SSSSS--BSSEEEEEEEETTEEEEEEEEEEEESS-S-EEEEES--HHHHHHHHHHHHHHTSS-GGGSS- CS
                    Lon_C   2 vtakeleellGkkrfrseeaekedqvGvvtGlawtevGGdlltieavllpgkgklkltGklgdvmkesaqaalsyvrsraeelgid 87 
                              + ++++ +llG ++++++ ++  d+vGv+tGlawt+ GG++l+iea++++g+g l+ltG+lgdvmkesaq a+ y+rs+a+e++id
  PHY93_01865|PHY93_01865 581 IMTETVFKLLGPPVYTKDDEKDVDEVGVATGLAWTSHGGEVLYIEATKMKGRG-LTLTGQLGDVMKESAQTAIGYIRSQAAEFHID 665
                              6678999********************************************97.9******************************* PP

                              SS-TTT-EEEEEE-S-B-GGGGGGGHHHHHHHHHHHHTS--B-TTBEE--EE-TT-BEE--S-HHHHHHHHHHTT-SBEEEEGGGG CS
                    Lon_C  88 kevfekkdihihvPeGavPkdGPsaGvtlatalvslltgkkvrkdvamtGeitLrGrvlpiGGlkekllaakragikkvilPkene 173
                              +e+fek++ihih+P+Ga+PkdGPsaG+tlat++vsllt+++++++vamtGeitL+G+vlpiGGlkek laa r +ik++i+P +n+
  PHY93_01865|PHY93_01865 666 EEIFEKNEIHIHLPAGATPKDGPSAGITLATTIVSLLTNTPISREVAMTGEITLTGKVLPIGGLKEKALAAMRMNIKTIIIPWKNR 751
                              ************************************************************************************** PP

                              GGTTTS-HHHHTS-B--EESBHHHHHHHHB- CS
                    Lon_C 174 kdlediPeevreeleiilveevdevlkaalv 204
                              kdle+iPee r +l++i+v++ devl++al 
  PHY93_01865|PHY93_01865 752 KDLEEIPEEYRAKLTFIPVKTFDEVLDVALL 782
                              ****************************995 PP

>> LON_substr_bdg  ATP-dependent protease La (LON) substrate-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  131.6   0.3     3e-41   3.4e-38       2     208 .]      16     210 ..      15     210 .. 0.93
   2 ?   -0.9   0.8       1.1   1.2e+03      97     143 ..     227     270 ..     212     304 .. 0.54

  Alignments for each domain:
  == domain 1  score: 131.6 bits;  conditional E-value: 3e-41
           LON_substr_bdg   2 lpllpldnkvlfPgitlpltvsrpksiaaierlldk.dkpyigvflvkesqkdaide.esiselysvGtvarIvqilrlddgrikv 85 
                              lpllp+++ v++P ++lp  v+r++si+a++ +l+k d+    ++l   sqkd ++e ++ +e+y+ Gt+a I ++++l+dgr+k+
  PHY93_01865|PHY93_01865  16 LPLLPIRDIVVYPFMILPFFVGRDSSIQAVDHALNKsDRL---ILLA--SQKDMKAEaPTPDEIYETGTIAMIMRMRKLPDGRVKI 96 
                              9***********************************5555...6666..9************************************ PP

           LON_substr_bdg  86 vlegleRvkikklekekeegylvaeveiieddsepedsdslqkelkalvqeiiekikkslarellkllleielllkyedlenpyrL 171
                              +++gl++++i+++  ++e +y+++++ ++     +    +++++ +al+++i e+++k    +++ ++l+ ++l  +ed+++ +rL
  PHY93_01865|PHY93_01865  97 LVQGLSKARITEF--TQEAPYFMCKLMKV----SDMAIPENNVAANALMRNIREQLEK---VINMGKVLSPDILMILEDIKDAGRL 173
                              *************..88*********888....5666667778999999999999996...478888889**************** PP

           LON_substr_bdg 172 adlvaailpfsneekqelLeeldvedRlkkvlelLkr 208
                              adlva+ l++   e q +Le+ld+ +Rl +++++L+r
  PHY93_01865|PHY93_01865 174 ADLVASNLNLHVGEAQTILETLDPMERLHRINDILSR 210
                              **********************************975 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 1.1
           LON_substr_bdg  97 kl.ekekeegylvaeveiieddsepedsdslqkelkalvqeiiekikk 143
                              +  +k+++e +l+ +++ i    ++e  d+ qk  ++ + ei ekikk
  PHY93_01865|PHY93_01865 227 EEiSKTQKEYFLREQIKAI----KSELGDETQKDPDDEFGEIKEKIKK 270
                              2334555555555555555....3444444444444444446666665 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       4.6   5.1e+03      39      64 ..     139     163 ..     107     200 .. 0.69
   2 !   79.4   0.0   2.8e-25   3.1e-22       1     127 [.     363     500 ..     363     505 .. 0.95

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 4.6
                              TTHHHHHHHHHHHHHHHTSTSEEEEE CS
                      AAA  39 vgesekkirelfkeakekakpsilfi 64 
                              + +  ++++++++  k  + p il+i
  PHY93_01865|PHY93_01865 139 MRNIREQLEKVINMGKVLS-PDILMI 163
                              3444555566666666665.766655 PP

  == domain 2  score: 79.4 bits;  conditional E-value: 2.8e-25
                              EEEESSTTSSHHHHHHHHHHHHTHEEEEEETTTCSSS.........STTHHHHHHHHHHHHHHHTSTSEEEEEETGGGHHHHHTTC CS
                      AAA   1 vllyGppGtGKTllakavakelgvefleisgsellsk.........yvgesekkirelfkeakekakpsilfiDEidalaksrsgs 77 
                              ++++GppG+GKT+l k +a+  g+ef++is+  + ++         yvg+++ ++ + +k++k+++   ++++DE+d+l+++    
  PHY93_01865|PHY93_01865 363 LCFSGPPGVGKTSLGKTIAQARGREFVRISLGGVKDEaeirghrrtYVGAMPGRFIQALKQVKTNN--PVILLDEVDKLGGDF--- 443
                              589********************************889**************************99..9**********7776... PP

                              CCHHHHHHHHHHHHHHHHTTTS............SSTEEEEEEESSGGGSTHHHHSTTSSEE CS
                      AAA  78 eseeeervvnqLlteldgvkkk............eskvivigatnrpdkldpallrgRfdrk 127
                                  + +  ++Ll++ld +++              s+v++i+++n  d+++ +l+ +R++++
  PHY93_01865|PHY93_01865 444 ----KGDPSSALLEVLDPEQNGafrdhylnipfdLSNVMFIATANVLDQIPAPLR-DRMEII 500
                              ....999***************************888******************.***986 PP

>> ChlI  Subunit ChlI of Mg-chelatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.8   0.1   5.2e-12   5.8e-09      11     121 .]     633     750 ..     624     750 .. 0.87

  Alignments for each domain:
  == domain 1  score: 35.8 bits;  conditional E-value: 5.2e-12
                     ChlI  11 kftivGlpdtavkeskervrsalkn.......sgfefpakkitvnLaPadlkkeGsafDLpiAigilaaleqieaeeetlflGeLs 89 
                              ++t++G +   +kes +     +++        +  f++++i + L     +k+G++  +++A  i++ l +++ ++e+ + Ge+ 
  PHY93_01865|PHY93_01865 633 GLTLTGQLGDVMKESAQTAIGYIRSqaaefhiDEEIFEKNEIHIHLPAGATPKDGPSAGITLATTIVSLLTNTPISREVAMTGEIT 718
                              47888888889999988888888775544443444578899********************************************* PP

                     ChlI  90 ldGslrpvkgvlpialaakkegikkvivpken 121
                              l+G++ p+ g+ + alaa + +ik++i+p +n
  PHY93_01865|PHY93_01865 719 LTGKVLPIGGLKEKALAAMRMNIKTIIIPWKN 750
                              *****************************987 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.2   0.0   5.9e-09   6.7e-06       2     138 .]     363     497 ..     362     497 .. 0.76

  Alignments for each domain:
  == domain 1  score: 26.2 bits;  conditional E-value: 5.9e-09
                              EEEE--SSSSHHHHHHHGGGGBS--EEEEE--TT--HHHHH--B--.........--------....G-SEEEEESGGG--HHHHH CS
                    AAA_5   2 vlLvGppGtgKselaerlaaalnreveyvqltrdtteedlkgrreikngttslvdsplvraar....egeilvlDEveraesevln 83 
                              ++  GppG+gK++l + +a+a +re++ + l     e++++g+r++        ++ + +a +    +  +++lDEv+++  +  +
  PHY93_01865|PHY93_01865 363 LCFSGPPGVGKTSLGKTIAQARGREFVRISLGGVKDEAEIRGHRRTY---VGAMPGRFIQALKqvktNNPVILLDEVDKLGGDFKG 445
                              6899*****************************************84...3334555555555666799***********988877 PP

                              HHHHHHHSSEEE..-SSSEEE---.......-EEEEEESS--.-TT-TTHHHHTT- CS
                    AAA_5  84 sLlslleerrllleeggelvkakndd.llerfrviatanpldrslnelspalrsRf 138
                                 s l e   +  +g ++ +  n    l+++++iatan ld    ++ ++lr+R+
  PHY93_01865|PHY93_01865 446 DPSSALLEVLDPEQNGAFRDHYLNIPfDLSNVMFIATANVLD----QIPAPLRDRM 497
                              6555554443333444444444443333555***********....9999999997 PP

>> AAA_2  AAA domain (Cdc48 subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   1.1       1.8   2.1e+03      48      92 ..     259     297 ..     211     308 .. 0.58
   2 !   21.2   0.0   2.2e-07   0.00025       7     136 ..     364     492 ..     361     524 .. 0.81

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 1.8
                              --THHHHHHHHHTTT-HHHHTTSEEEEETGGG------------- CS
                    AAA_2  48 evehlvsrligappgyvgaeegGivllDEidKihpkessgadvSr 92 
                              +    +++ i ++++  +ae++ i  +  ++K hp      d S+
  PHY93_01865|PHY93_01865 259 DEFGEIKEKIKKAKMSEEAEKESIKQIGRLEKMHP------DSSE 297
                              33445666777777777777777777777777777......4444 PP

  == domain 2  score: 21.2 bits;  conditional E-value: 2.2e-07
                              EEE--TTSSHHHHHHHHHHHTT-....-EEEEEGGG-------THHHHHHHHHTTT-HHHHTTS......EEEEETGGG------- CS
                    AAA_2   7 lllgptgvGktelakalaellfvkkekkliradaselleeeevehlvsrligappgyvgaeegG......ivllDEidKihpkess 86 
                               + gp gvGkt l k++a+       ++++r+    +  e e++      +ga pg   ++ +       ++llDE+dK       
  PHY93_01865|PHY93_01865 364 CFSGPPGVGKTSLGKTIAQARG----REFVRISLGGVKDEAEIRGHRRTYVGAMPGRFIQALKQvktnnpVILLDEVDKLGG--DF 443
                              589*****************98....79*****9999998888888888899988876555555677888***********9..44 PP

                              ------HHHHHHHHHHHH...--EE-----.--EE-TT-EEEEEE--TTHHHHT CS
                    AAA_2  87 gadvSregVqrdLLqile...ggtltdkqg.rkvdtknilfImtgafgsskisd 136
                              +      +   +LL +l+   +g  +d++   + d +n++fI+t ++  + ++ 
  PHY93_01865|PHY93_01865 444 KG-----DPSSALLEVLDpeqNGAFRDHYLnIPFDLSNVMFIATANVLDQIPAP 492
                              44.....55689*****977789999**98799999**********98777665 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.0       1.7   1.9e+03       2      18 ..      35      51 ..      35      59 .. 0.84
   2 ?   -1.4   0.0       2.3   2.6e+03     106     129 ..     178     214 ..     122     221 .. 0.56
   3 !   16.2   0.1   9.4e-06     0.011      24      56 ..     357     391 ..     341     429 .. 0.62
   4 ?   -1.0   0.0       1.7   1.9e+03     122     147 ..     416     439 ..     394     463 .. 0.69

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 1.7
                   AAA_16  2 lvGReeeleqLlsaler 18
                             +vGR+  ++++ +al++
  PHY93_01865|PHY93_01865 35 FVGRDSSIQAVDHALNK 51
                             89***********9985 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 2.3
                   AAA_16 106 a............avpelagaea.srllellkrllal 129
                              a            +   l++ e+ +r+++ l+r l+ 
  PHY93_01865|PHY93_01865 178 AsnlnlhvgeaqtILETLDPMERlHRINDILSRELEI 214
                              0222232223333444566666678888888888733 PP

  == domain 3  score: 16.2 bits;  conditional E-value: 9.4e-06
                   AAA_16  24 p...elvllsGesGvGKsslvrellralekdggifl 56 
                              +   +++ +sG++GvGK+sl +++++a  ++ ++ +
  PHY93_01865|PHY93_01865 357 GmkgPILCFSGPPGVGKTSLGKTIAQARGRE-FVRI 391
                              235599*******************654444.3322 PP

  == domain 4  score: -1.0 bits;  conditional E-value: 1.7
                   AAA_16 122 llkrllallsrderplvlvlDdlqwa 147
                               + ++l++ ++     v++lD+++++
  PHY93_01865|PHY93_01865 416 RFIQALKQVKT-NN-PVILLDEVDKL 439
                              45555555555.33.7999**99955 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.3   0.0   9.3e-05       0.1      37      62 ..     364     389 ..     334     405 .. 0.81
   2 ?    1.2   0.0      0.25   2.8e+02     126     156 ..     470     500 ..     462     502 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 9.3e-05
                   RuvB_N  37 llyGpPGlGkttlakiiakelgvklk 62 
                               ++GpPG+Gkt+l k ia+  g ++ 
  PHY93_01865|PHY93_01865 364 CFSGPPGVGKTSLGKTIAQARGREFV 389
                              589***************99887754 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.25
                   RuvB_N 126 ikldlpkftlvgattragllssPlrdrfgiv 156
                              i +dl++  +++++     + +Plrdr+ i+
  PHY93_01865|PHY93_01865 470 IPFDLSNVMFIATANVLDQIPAPLRDRMEII 500
                              567888999999999999*********9886 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.2      0.11   1.2e+02      11      69 ..     222     281 ..     222     330 .. 0.77
   2 !   11.8   0.0   0.00023      0.26       2      22 ..     364     384 ..     363     428 .. 0.83

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.11
                   AAA_18  11 KttlakeLskrl.gf..gvnlrdvakenglllevdpealdeskrldedkldklldaleenss 69 
                              K+t  +e+sk   ++   ++++ + +e g ++  dp+  de+ +++e+  ++ +++  e  s
  PHY93_01865|PHY93_01865 222 KSTAKEEISKTQkEYflREQIKAIKSELGDETQKDPD--DEFGEIKEKIKKAKMSEEAEKES 281
                              9*********998889999******************..99999999987777776666555 PP

  == domain 2  score: 11.8 bits;  conditional E-value: 0.00023
                   AAA_18   2 lltGtpGvGKttlakeLskrl 22 
                              + +G+pGvGKt+l+k +++  
  PHY93_01865|PHY93_01865 364 CFSGPPGVGKTSLGKTIAQAR 384
                              679************997765 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.1       6.1   6.8e+03      70     103 ..     170     201 ..     138     226 .. 0.55
   2 !   14.0   0.1   3.9e-05     0.044       6     104 ..     361     440 ..     357     460 .. 0.82

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 6.1
                   AAA_22  70 aerlsseell.ealeqalraravielliiDEaqhl 103
                              a  +++ +l+ + l+ ++ ++++  l  +D +++l
  PHY93_01865|PHY93_01865 170 A--GRLADLVaSNLNLHVGEAQT-ILETLDPMERL 201
                              3..44444444444444444444.44444444444 PP

  == domain 2  score: 14.0 bits;  conditional E-value: 3.9e-05
                   AAA_22   6 gilvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsstsskdllrellralglelkaerlsseellealeqalrarav 91 
                               il+  G++G+GKT l +++++           ++e+v++ l + ++ ++++ +    +g           ++  ++ qal++ ++
  PHY93_01865|PHY93_01865 361 PILCFSGPPGVGKTSLGKTIAQAR---------GREFVRISLGGVKDEAEIRGHRRTYVG-----------AMPGRFIQALKQVKT 426
                              578899*****************9.........999999999999999999888777777...........466788888888888 PP

                   AAA_22  92 .ielliiDEaqhlr 104
                                +++++DE+++l 
  PHY93_01865|PHY93_01865 427 nNPVILLDEVDKLG 440
                              88899999999984 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.0     2e-05     0.023       2      76 ..     360     439 ..     359     510 .. 0.66

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 2e-05
                   AAA_14   2 rkilvitGaRrvGKTtllkqlikellvkkesilyinldderdkk.ladpe.........kllelileklkeekktylflDEiqev 76 
                              ++il+ +G+  vGKT l k++++ +    ++++ i+l   +d++ ++  +         ++++++++ +k  ++ +++lDE+ ++
  PHY93_01865|PHY93_01865 360 GPILCFSGPPGVGKTSLGKTIAQARG---REFVRISLGGVKDEAeIRGHRrtyvgampgRFIQALKQ-VK-TNNPVILLDEVDKL 439
                              578999****************9999...9******9887774312212133456333344444444.44.48999******998 PP

>> RAB3GAP2_C  Rab3 GTPase-activating protein regulatory subunit C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.6   0.7   1.3e-05     0.014     197     280 ..     253     331 ..     207     340 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 1.3e-05
               RAB3GAP2_C 197 kkeeeeeeellaekelaaeekeeeeeekeeleqvlellsllkrrFPlSLesdvLlahlcweyvvqWnkdpeelelLkaalevlk 280
                              ++++ +     +  e++ e+ ++++ ++e++++  +++ +l+++ P S e+++L  +l w +   Wn+   e   L aale+l+
  PHY93_01865|PHY93_01865 253 TQKDPD----DEFGEIK-EKIKKAKMSEEAEKESIKQIGRLEKMHPDSSEASILRTYLEWMCDLPWNNSSPEHIDLDAALEILD 331
                              222222....2223333.3344455555567778899*******************************99998899****9997 PP

>> AAA_3  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0       3.6   4.1e+03      99     129 ..     207     237 ..     184     238 .. 0.78
   2 ?   13.1   0.0   5.7e-05     0.064       5     115 ..     366     488 ..     362     493 .. 0.68
   3 ?   -3.5   0.0         8   8.9e+03      24      62 ..     527     564 ..     512     570 .. 0.65

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 3.6
                    AAA_3  99 klpepflvlatqnPieqeGtyplpeaqldrf 129
                               l++ + +la qn i+++   ++ ++q + f
  PHY93_01865|PHY93_01865 207 ILSRELEILAMQNKIKSTAKEEISKTQKEYF 237
                              5677788999999999988888888877766 PP

  == domain 2  score: 13.1 bits;  conditional E-value: 5.7e-05
                    AAA_3   5 egvPGlaktllvkalakaldlefkriqftpdllPsdilGtevfeeke..kefe..fkkGpvfanllladeinrapp....ktqsal 82 
                               g PG++kt l k++a+a + ef ri +      ++i G++     +   +f   +k+    + ++l de+++          sal
  PHY93_01865|PHY93_01865 366 SGPPGVGKTSLGKTIAQARGREFVRISLGGVKDEAEIRGHRRTYVGAmpGRFIqaLKQVKTNNPVILLDEVDKLGGdfkgDPSSAL 451
                              689*************************9999999999986433333246664114445555669999999996541111456999 PP

                    AAA_3  83 leameerqv.tvegethklp...epflvlatqnPieq 115
                              le+++ +q  +++++  ++p   ++ + +at n ++q
  PHY93_01865|PHY93_01865 452 LEVLDPEQNgAFRDHYLNIPfdlSNVMFIATANVLDQ 488
                              9999855541455555555422234567788887765 PP

  == domain 3  score: -3.5 bits;  conditional E-value: 8
                    AAA_3  24 dlefkriqftpdllPsdilGtevfeekekefefkkGpvf 62 
                              +++ k i ft d + s i G +  e+  +++e k G++ 
  PHY93_01865|PHY93_01865 527 GINEKHIAFTDDGVASVIKGYT-AEAGLRNLERKIGAIC 564
                              5667889999999888888865.3444556666666655 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   0.00018       0.2       3      29 ..     364     392 ..     362     426 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00018
                   AAA_33   3 llvGlpGsGKstlaerllkklg..avlls 29 
                               + G+pG+GK+ l + +++++g  +v++s
  PHY93_01865|PHY93_01865 364 CFSGPPGVGKTSLGKTIAQARGreFVRIS 392
                              689*******************8888887 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   0.00028      0.32      50     134 ..     363     455 ..     330     460 .. 0.71

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00028
                IstB_IS21  50 ivllGpsGvGKshlaialgveavraglsvlfvrvedLveelkrarrd......gklaralkrllkv.dllilDdlgll..pldqae 126
                              +++ Gp+GvGK+ l  +++++  r+ ++++   v+d   e++ +rr       g++ +alk++     +++lD++  l  +++ + 
  PHY93_01865|PHY93_01865 363 LCFSGPPGVGKTSLGKTIAQARGREFVRISLGGVKDEA-EIRGHRRTyvgampGRFIQALKQVKTNnPVILLDEVDKLggDFKGDP 447
                              7899****************999999999888888743.44444432222222677777777665535677777765422455555 PP

                IstB_IS21 127 aellfevi 134
                              ++ l+ev+
  PHY93_01865|PHY93_01865 448 SSALLEVL 455
                              56666665 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.7       1.1   1.3e+03      12      71 ..     222     280 ..     222     285 .. 0.79
   2 ?    9.1   0.0    0.0013       1.4       3      27 ..     364     389 ..     362     426 .. 0.90

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 1.1
                   AAA_28  12 KTtlleaLaargypvv.pEaareileeklakgedalpwvedllafaervleeqleeeaaaa 71 
                              K+t  e++++++ +++ +E    i +e++++++++ ++  ++ +++e++ +++++eea+ +
  PHY93_01865|PHY93_01865 222 KSTAKEEISKTQKEYFlREQIKAIKSELGDETQKDPDD--EFGEIKEKIKKAKMSEEAEKE 280
                              89999999998666665999999999988888876654..799999999999999998875 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.0013
                   AAA_28   3 vitGgestGKTtlleaLaar.gypvv 27 
                              +++G+++ GKT+l + +a+  g + v
  PHY93_01865|PHY93_01865 364 CFSGPPGVGKTSLGKTIAQArGREFV 389
                              89****************64387766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (803 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1165  (0.0649785); expected 358.6 (0.02)
Passed bias filter:                      656  (0.0365888); expected 358.6 (0.02)
Passed Vit filter:                        82  (0.0045736); expected 17.9 (0.001)
Passed Fwd filter:                        16  (0.000892409); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              16  [number of targets reported over threshold]
# CPU time: 0.87u 0.31s 00:00:01.18 Elapsed: 00:00:00.51
# Mc/sec: 4771.80
//
Query:       PHY93_01870|PHY93_01870  [L=464]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.1e-21   73.3   4.7    7.5e-07   28.6   0.1    5.1  6  Hexapep          Bacterial transferase hexapeptide (six repea
    3.1e-16   59.7   0.0    4.4e-16   59.2   0.0    1.2  1  NTP_transferase  Nucleotidyl transferase
    2.5e-12   46.3   8.2    4.5e-07   29.5   0.1    4.4  5  Hexapep_2        Hexapeptide repeat of succinyl-transferase
    6.7e-10   39.6   0.0    9.4e-10   39.1   0.0    1.2  1  NTP_transf_3     MobA-like NTP transferase domain
     0.0062   15.5   0.2       0.27   10.1   0.0    2.4  2  Fucokinase       L-fucokinase
  ------ inclusion threshold ------
      0.013   15.2   0.0       0.02   14.6   0.0    1.4  1  IspD             2-C-methyl-D-erythritol 4-phosphate cytidyly
      0.055   11.6   1.9       0.12   10.5   0.7    2.1  2  DUF4954          Domain of unknown function (DUF4954)


Domain annotation for each model (and alignments):
>> Hexapep  Bacterial transferase hexapeptide (six repeats)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.3   0.0   0.00018      0.46      13      36 .]     268     291 ..     263     291 .. 0.87
   2 !   22.2   0.2   3.2e-08   8.1e-05       2      36 .]     275     309 ..     274     309 .. 0.94
   3 !   12.0   0.1   5.1e-05      0.13       2      32 ..     293     322 ..     292     326 .. 0.77
   4 !   18.6   0.0   4.2e-07    0.0011       4      36 .]     329     361 ..     326     361 .. 0.87
   5 ?    0.1   0.1      0.29   7.3e+02       2      11 ..     379     388 ..     363     390 .. 0.70
   6 !   28.6   0.1   2.9e-10   7.5e-07       2      36 .]     404     438 ..     403     438 .. 0.97

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00018
                              TEEEETTEEE-TTEEEETTEEEES CS
                  Hexapep  13 faviggnVkIGdnvkIgagvvigg 36 
                               ++i + V++G++++I +++ ++g
  PHY93_01870|PHY93_01870 268 HCYIDSEVEVGEGSVIYPNTFLTG 291
                              6899999************99886 PP

  == domain 2  score: 22.2 bits;  conditional E-value: 3.2e-08
                              EEEETTEEE-TTEEEETTEEE-TTEEEETTEEEES CS
                  Hexapep   2 tvIGsnvlIgpfaviggnVkIGdnvkIgagvvigg 36 
                              + +G++++I p++ + g ++IG+nv+I+ g+ i++
  PHY93_01870|PHY93_01870 275 VEVGEGSVIYPNTFLTGKTQIGKNVVIEMGAQITN 309
                              579****************************9986 PP

  == domain 3  score: 12.0 bits;  conditional E-value: 5.1e-05
                              EEEETTEEE-TTEEEETTEEE-TTEEEETTE CS
                  Hexapep   2 tvIGsnvlIgpfaviggnVkIGdnvkIgagv 32 
                              t+IG+nv+I ++a+i  n ++ d +k+ a++
  PHY93_01870|PHY93_01870 293 TQIGKNVVIEMGAQI-TNSIVDDSAKVLAYT 322
                              789999999999999.777787777776655 PP

  == domain 4  score: 18.6 bits;  conditional E-value: 4.2e-07
                              EETTEEE-TTEEEETTEEE-TTEEEETTEEEES CS
                  Hexapep   4 IGsnvlIgpfaviggnVkIGdnvkIgagvvigg 36 
                              ++ ++  gpfa +++++ IG+ +kIg++v i++
  PHY93_01870|PHY93_01870 329 LHTKASAGPFARLRPGADIGPEAKIGNFVEIKK 361
                              55677789**********************975 PP

  == domain 5  score: 0.1 bits;  conditional E-value: 0.29
                              EEEETTEEE- CS
                  Hexapep   2 tvIGsnvlIg 11 
                              ++IG+ + Ig
  PHY93_01870|PHY93_01870 379 AFIGEETNIG 388
                              5666666666 PP

  == domain 6  score: 28.6 bits;  conditional E-value: 2.9e-10
                              EEEETTEEE-TTEEEETTEEE-TTEEEETTEEEES CS
                  Hexapep   2 tvIGsnvlIgpfaviggnVkIGdnvkIgagvvigg 36 
                              t+IG+n++Ig+ ++  ++V+IGd++ +++ ++i++
  PHY93_01870|PHY93_01870 404 TKIGKNSFIGSDSQTIAPVVIGDDCFVASSSTITK 438
                              79*******************************86 PP

>> NTP_transferase  Nucleotidyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.2   0.0   1.7e-19   4.4e-16       2     211 ..       7     218 ..       6     230 .. 0.83

  Alignments for each domain:
  == domain 1  score: 59.2 bits;  conditional E-value: 1.7e-19
                              EEEE--S--GGGTTCCTTSSGGGSEETTETETTHHHHHHHHH....TT-SEEEEEEETTTHHHHHHHHTTSGGGTSEEEEEEESS- CS
          NTP_transferase   2 avILaGGsGtRLwPLtrtlakklvpvlgkerliqatlsrlan....sgieeiivvltqehsflveeqlkegskfgvevlialepeg 83 
                              avILa G+G+RL     + +k+l p+l+k +li++++++l n    ++i+  i  +  ++++lv+ ++++      ++++a+++e+
  PHY93_01870|PHY93_01870   7 AVILAAGEGKRLK---LNAPKPLAPCLDK-KLIDFPIKALKNffsqNKIDGKITAVIGHQRELVRPYIEKHH---PDIAFAIQEEQ 85 
                              79*********97...89***********.*********9988877899999999999***********886...57********* PP

                              -BGGHHHHHTHHHHTTSSE.....EEEEETTEEEEST..THHHHHHHHHTHSSTTSEEEEEEESS-CTTSEEEEECTTS.BEEEEE CS
          NTP_transferase  84 kgtAdAvalaaelledeks...delvlvLggDhlikd..ayeeavkkaiekaakgtvtfgivpveeateyGvieadeeg.rverfv 163
                              kgtAdA++      e+++     ++ lv+++D  +    +++e+++  ++++ +g ++ +i  ++++++yG i ++++g  ++  +
  PHY93_01870|PHY93_01870  86 KGTADALRSYFISHENNHItnqFQYTLVICADTPVVSakELTEMLTLITNENLDGVAASFI--EKNPKGYGRIVREKKGfHIT--E 167
                              ******997654444433334456999999997554446**************87554444..6789*********7765777..6 PP

                              CS-SSHSH..CSEECCSEEEEETTHHHHHHH.CCHHHTTSSCHHHHHHHHH CS
          NTP_transferase 164 EKPkeaka..selassGiYvfnsevllflak.dleelkrgedeitdilpka 211
                              EK ++++    + ++sG+Y+ ++++ll+ +k   ++ k+ge  +td+++  
  PHY93_01870|PHY93_01870 168 EKDATDEIrkITEVNSGLYILKTSYLLEHLKaIDSNNKSGEFYLTDVFKDG 218
                              99999988668889***************9977777777777777777655 PP

>> Hexapep_2  Hexapeptide repeat of succinyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.2   0.0   0.00018      0.47      14      33 ..     269     290 ..     266     291 .. 0.87
   2 !    9.3   0.1   0.00037      0.94      18      33 ..     293     308 ..     290     309 .. 0.88
   3 ?   -3.5   0.0       3.7   9.6e+03      19      28 ..     346     355 ..     339     357 .. 0.72
   4 ?   -2.8   0.4       2.2   5.7e+03       4      11 ..     381     388 ..     380     389 .. 0.90
   5 !   29.5   0.1   1.8e-10   4.5e-07       2      34 .]     404     438 ..     403     438 .. 0.92

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00018
                              -EES..EEE-TT-EE-TT-EE- CS
                Hexapep_2  14 agiG..vslGdncvvgaGvvit 33 
                              ++i   v++G+++v++++ ++t
  PHY93_01870|PHY93_01870 269 CYIDseVEVGEGSVIYPNTFLT 290
                              999446*************998 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.00037
                              EEE-TT-EE-TT-EE- CS
                Hexapep_2  18 vslGdncvvgaGvvit 33 
                              +++G+n+v+++G  it
  PHY93_01870|PHY93_01870 293 TQIGKNVVIEMGAQIT 308
                              89**********8887 PP

  == domain 3  score: -3.5 bits;  conditional E-value: 3.7
                              EE-TT-EE-T CS
                Hexapep_2  19 slGdncvvga 28 
                              ++G ++++g+
  PHY93_01870|PHY93_01870 346 DIGPEAKIGN 355
                              6666666665 PP

  == domain 4  score: -2.8 bits;  conditional E-value: 2.2
                              E-TT-EE- CS
                Hexapep_2   4 IGdnCliG 11 
                              IG+ ++iG
  PHY93_01870|PHY93_01870 381 IGEETNIG 388
                              99999999 PP

  == domain 5  score: 29.5 bits;  conditional E-value: 1.8e-10
                              EEE-TT-EE-TT-E.E.SEEE-TT-EE-TT-EE-S CS
                Hexapep_2   2 viIGdnCliGanag.i.GvslGdncvvgaGvvita 34 
                              ++IG+n++iG+++  i +v +Gd+c v++ ++it+
  PHY93_01870|PHY93_01870 404 TKIGKNSFIGSDSQtIaPVVIGDDCFVASSSTITK 438
                              79***********9769***********9999986 PP

>> NTP_transf_3  MobA-like NTP transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.1   0.0   3.7e-13   9.4e-10       1     123 [.       7     145 ..       7     204 .. 0.84

  Alignments for each domain:
  == domain 1  score: 39.1 bits;  conditional E-value: 3.7e-13
                              EEEEEESS-TTTTT..THHHHCCCCCCHHHHHHHHHCTT.-C......EEEEECSH..CHHHHHHTTCTS-EEE-TTS.S-SHHHH CS
             NTP_transf_3   1 aviLAGGrSsRmgg..dKallplggkpllervldalraagvd......evvvvggd..eevlaalarlgvrvvededp.gkgplas 75 
                              aviLA+G+++R++   +K+l+p  +k l++  ++al+   ++      +++ v g+  e v+++++++  +++   ++ +kg++ +
  PHY93_01870|PHY93_01870   7 AVILAAGEGKRLKLnaPKPLAPCLDKKLIDFPIKALKNF-FSqnkidgKITAVIGHqrELVRPYIEKHHPDIAFAIQEeQKGTADA 91 
                              79**********8446********************999.66678888777776664478999999988776666444279***** PP

                              HHHHH.....HHH....SSSCEEEEETT-TT--HHHHHHHHHCHHHHTSSEEEEES CS
             NTP_transf_3  76 laaal.....raaa...dadavlvlacDmPlltpelverllaaaaasgadvvvpty 123
                              l++       +      + ++ lv+ +D+P ++++ + ++l  +++++ d v++++
  PHY93_01870|PHY93_01870  92 LRSYFishenN--HitnQFQYTLVICADTPVVSAKELTEMLTLITNENLDGVAASF 145
                              ***99666553..044599************************9999877777665 PP

>> Fucokinase  L-fucokinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.1   0.0   0.00011      0.27     277     338 ..     267     332 ..     235     346 .. 0.73
   2 ?    3.1   0.0     0.014        37     276     330 ..     359     412 ..     331     447 .. 0.64

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00011
               Fucokinase 277 inSvlessvsvgegsviehsslk.gnvsigsnsiv.sglelessee..slelpddtilqtlslkls 338
                               ++ ++s+v+vgegsvi+  ++  g+++ig+n ++  g ++++s    s ++  +til + +l ++
  PHY93_01870|PHY93_01870 267 SHCYIDSEVEVGEGSVIYPNTFLtGKTQIGKNVVIeMGAQITNSIVddSAKVLAYTILDGAHLHTK 332
                              4789999999*******9555444888899998883355555543366667777777777777665 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.014
               Fucokinase 276 vinSvlessvsvgegsviehsslkgnvsigsnsivsglelesseeslelpddtil 330
                              + +Svl+ +v+v+  s++ +  ++++++ig + i  + +  +++   ++ +++++
  PHY93_01870|PHY93_01870 359 IKKSVLDRGVKVSHLSYVGDAFIGEETNIGCGFITCNFDGLNKHI-TKIGKNSFI 412
                              667888888888888888866666666666655555544444432.333333332 PP

>> IspD  2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.0   7.9e-06      0.02       3      45 ..       7      52 ..       5     143 .. 0.83

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 7.9e-06
                             EEEECTTSSCTT-SSS-GGGSEETTEEHHHHHHHHHH...CTTTEE CS
                     IspD  3 vvipAAGsGkRmkaglpKqflelkgqtllehtvdall...askavd 45
                             +vi AAG+GkR+k + pK +    ++ l+   ++al    +++++d
  PHY93_01870|PHY93_01870  7 AVILAAGEGKRLKLNAPKPLAPCLDKKLIDFPIKALKnffSQNKID 52
                             89***************************87766665111455554 PP

>> DUF4954  Domain of unknown function (DUF4954)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.7   4.7e-05      0.12     174     258 ..     293     391 ..     282     396 .. 0.80
   2 ?   -1.7   0.0      0.22   5.7e+02     174     204 ..     404     435 ..     396     440 .. 0.60

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 4.7e-05
                  DUF4954 174 GeigekvkilnaglikNvkigdyatiegasklengtinSskea.......p.......veiGegViledfiissGskikdgavisr 245
                               +ig++v+i+   +i+N  ++d a++   + l+ + ++ +++a       p        +iG+ V+++ +++  G k+++ + + +
  PHY93_01870|PHY93_01870 293 TQIGKNVVIEMGAQITNSIVDDSAKVLAYTILDGAHLHTKASAgpfarlrPgadigpeAKIGNFVEIKKSVLDRGVKVSHLSYVGD 378
                              5799*****************999999999999888888776533333332333333368999*********************** PP

                  DUF4954 246 cfvGqavklkkqf 258
                              +f+G+ ++++ +f
  PHY93_01870|PHY93_01870 379 AFIGEETNIGCGF 391
                              ******9999887 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 0.22
                  DUF4954 174 Geigekvki.lnaglikNvkigdyatiegask 204
                               +ig+++ i  ++++i  v igd + +  +s+
  PHY93_01870|PHY93_01870 404 TKIGKNSFIgSDSQTIAPVVIGDDCFVASSST 435
                              45566665533566666666666666665554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (464 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       439  (0.0244855); expected 358.6 (0.02)
Passed bias filter:                      374  (0.0208601); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.66u 0.27s 00:00:00.93 Elapsed: 00:00:00.49
# Mc/sec: 2867.04
//
Query:       PHY93_01875|PHY93_01875  [L=607]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.2e-46  157.8   0.0    5.4e-25   87.8   0.0    2.4  2  SIS       SIS domain
    2.8e-16   59.9   0.0    5.2e-16   59.1   0.0    1.4  1  GATase_6  Glutamine amidotransferase domain
    4.2e-11   42.8   0.0      1e-10   41.6   0.0    1.6  1  GATase_7  Glutamine amidotransferase domain
     0.0051   15.7   0.0      0.012   14.5   0.0    1.7  2  GATase_4  Glutamine amidotransferases class-II
  ------ inclusion threshold ------
       0.11   12.6   0.0        0.3   11.1   0.0    1.8  1  SIS_2     SIS domain


Domain annotation for each model (and alignments):
>> SIS  SIS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   87.8   0.0   1.5e-28   5.4e-25       2     126 ..     292     415 ..     291     420 .. 0.97
   2 !   67.7   0.0   2.4e-22   8.5e-19       2     128 ..     462     589 ..     461     591 .. 0.92

  Alignments for each domain:
  == domain 1  score: 87.8 bits;  conditional E-value: 1.5e-28
                              HCTSSEEEEEESHHHHHHHHHHHHHHHHHHTSEEEEEEHHHHHHTGGGG-STTCEEEEEESSSHHHHHHHHHHHHHHTTSEEEEEE CS
                      SIS   2 LakakriyvlGaGtsyaiakelalkleeiggivvevedaselkhgvlalideddlvilisfsgetkdlvaaaelakergakiiaIT 87 
                              L+k k+iy+ ++Gt + +++ ++  le i+ i++ ve+ase++++  + ++e+d+ i++s+sget+d++aa  l+k+ g+k+++I 
  PHY93_01875|PHY93_01875 292 LYKPKHIYISACGTAAYAGLVIRDFLEGINRIPANVELASEFRYR-EPILREGDVGIFVSQSGETADTLAAQSLCKKAGVKTLSIV 376
                              89*******************************************.**************************************** PP

                              SSTTSHHHHHSSEEEEEEEECHCSSSHCHHHHHHHHHHH CS
                      SIS  88 dskgsplareadlalyinaepetlvastksltaqlaald 126
                              + +gs+l+re+d +l i+a+ e++vastk++t q + + 
  PHY93_01875|PHY93_01875 377 NVDGSTLYRECDDNLLIRAGIEIGVASTKAFTQQALTGR 415
                              ********************************9987765 PP

  == domain 2  score: 67.7 bits;  conditional E-value: 2.4e-22
                              HCTSSEEEEEESHHHHHHHHHHHHHHHHHHTSEEEEEEHHHHHHTGGGG-STTCEEEEEESSSHHHHHHHHHHHHHHTTSEEEEEE CS
                      SIS   2 LakakriyvlGaGtsyaiakelalkleeiggivvevedaselkhgvlalideddlvilisfsgetkdlvaaaelakergakiiaIT 87 
                              ++++k  +++G+G+ ++ia+e+alkl+ei+++++e+++a+elkhg++alide+++ i++   +   ++v ++++ k+r++ i++I 
  PHY93_01875|PHY93_01875 462 IYNKKGFFYTGRGAYFPIALEGALKLKEIAYVHAEGYAAGELKHGPIALIDEEMVNIALVGPELFEKTVSNVQEIKARKGIIVGIG 547
                              7999999*****************************************************8888888888888************* PP

                              SSTTSHHHHHSSEEEEEEEECHC.SSSHCHHHHHHHHHHHHH CS
                      SIS  88 dskgsplareadlalyinaepet.lvastksltaqlaaldal 128
                                ++  l   +d+ + +  +    l +++ +++ ql+a++++
  PHY93_01875|PHY93_01875 548 PRNNEELMGLSDYYIPLDFDGLDeLSPLYVNVVNQLLAYYMA 589
                              ***********9999888887778899999999999998875 PP

>> GATase_6  Glutamine amidotransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.1   0.0   1.5e-19   5.2e-16      13     132 ..      68     193 ..      52     195 .. 0.83

  Alignments for each domain:
  == domain 1  score: 59.1 bits;  conditional E-value: 1.5e-19
                 GATase_6  13 evalaHvRlaivglaeeegaqPfpsedgrlllvhNGeiynykelreelpalkglafrsrsDtevllall.....eelG.......e 86 
                              ++ ++H+R+a++g  +++ a+P   ++++l+++hNG i+n++e+++el   +g++f+s++D+e  l l+     +  G       +
  PHY93_01875|PHY93_01875  68 RACIGHTRWATHGGVTDANAHPH--YNETLSIIHNGIIENANEIKKELMG-HGVKFKSETDSESFLELAtfelkQ--GkpileaiA 148
                              588***********966666***..*************************.****************88788653..345876667 PP

                 GATase_6  87 evlerlrGmfafaiwdkrentlilardrlgvkplyyavd..esglafa 132
                              + ++r+ G  af+i   ++++++ +  + g +pl+ +++   s ++++
  PHY93_01875|PHY93_01875 149 DSFKRIHGNSAFVILYPKTGEIFAI--KRG-APLVCGINdiTSEALVS 193
                              7778**********99999999998..334.78887777555555555 PP

>> GATase_7  Glutamine amidotransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.6   0.0   2.8e-14     1e-10      10     118 ..      84     196 ..      73     200 .. 0.83

  Alignments for each domain:
  == domain 1  score: 41.6 bits;  conditional E-value: 2.8e-14
                 GATase_7  10 eagaQPmvssedgrlvivfnGeiyNykelreeLeakghrfrtksDtevllallea.........ewgeealerlnGmfAfaiwdee 86 
                              +a+a P +   +++l i++nG i N +e+++eL  +g++f++++D+e  l+l +          e +++ ++r++G  Af+i+  +
  PHY93_01875|PHY93_01875  84 DANAHPHY---NETLSIIHNGIIENANEIKKELMGHGVKFKSETDSESFLELATFelkqgkpilEAIADSFKRIHGNSAFVILYPK 166
                              55666666...47899*********************************999877999**************************** PP

                 GATase_7  87 ekrlllaRDrlGikPLyygedk.gdallfaSel 118
                              ++++++++      PL  g ++  ++ l++S +
  PHY93_01875|PHY93_01875 167 TGEIFAIKR---GAPLVCGINDiTSEALVSSDP 196
                              ***999876...367776666665566666655 PP

>> GATase_4  Glutamine amidotransferases class-II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.5   0.0   3.4e-06     0.012      67     133 ..      63     129 ..       1     173 [. 0.72
   2 ?   -3.3   0.0      0.93   3.4e+03      89     118 ..     402     432 ..     398     439 .. 0.68

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 3.4e-06
                 GATase_4  67 ypiksknvvaHiRkatqGevklenthpFvRelwgrewifAHnGdlke...ykpkl.egrfePvGsTDsEla 133
                               +i ++  + H R at+G v+++n+hp   e    +  + HnG +++   +k++l  +  +   +TDsE  
  PHY93_01875|PHY93_01875  63 KNIIARACIGHTRWATHGGVTDANAHPHYNE----TLSIIHNGIIENaneIKKELmGHGVKFKSETDSESF 129
                              46889999*******************8765....556789999966333555654333444567888865 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 0.93
                 GATase_4  89 enthpFvR.elwgrewifAHnGdlkeykpkl 118
                              + t+ F+   l gr +  A  Gdlk+ ++k+
  PHY93_01875|PHY93_01875 402 ASTKAFTQqALTGRLMSAAMAGDLKDEAKKV 432
                              5677786515889999999999998766554 PP

>> SIS_2  SIS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   8.3e-05       0.3      99     137 ..     338     376 ..     316     377 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 8.3e-05
                              TT--TT-EEEEE-SS--SHHHHHHHHHHHHHT-EEEEEE CS
                    SIS_2  99 vrlkpgDvLlviSnsGnnavvveaaeaakergmkviAlt 137
                                l++gDv + +S+sG+ a  ++a   +k+ g+k+  ++
  PHY93_01875|PHY93_01875 338 PILREGDVGIFVSQSGETADTLAAQSLCKKAGVKTLSIV 376
                              34599*****************************99886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (607 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       399  (0.0222544); expected 358.6 (0.02)
Passed bias filter:                      367  (0.0204696); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.64u 0.28s 00:00:00.92 Elapsed: 00:00:00.47
# Mc/sec: 3873.66
//
Query:       PHY93_01880|PHY93_01880  [L=761]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.4e-71  239.2   3.9    1.4e-70  238.5   3.9    1.3  1  UvrD_C           UvrD-like helicase C-terminal domain
    1.2e-69  235.3   4.7    1.3e-69  235.2   0.5    2.8  2  UvrD-helicase    UvrD/REP helicase N-terminal domain
    5.7e-32  111.1   0.0    1.3e-31  109.9   0.0    1.6  1  AAA_19           AAA domain
    5.9e-10   39.3   0.0     0.0037   17.0   0.0    3.3  3  Viral_helicase1  Viral (Superfamily 1) RNA helicase
    1.5e-09   37.5   0.1    5.8e-09   35.7   0.1    2.0  1  UvrD_C_2         UvrD-like helicase C-terminal domain
      2e-08   34.2   0.0    0.00015   21.5   0.0    2.3  2  AAA_30           AAA domain
     0.0036   17.1   0.2       0.01   15.6   0.0    1.8  2  AAA_11           AAA domain
       0.01   15.5   1.2        8.6    5.9   0.0    3.4  4  AAA_12           AAA domain
  ------ inclusion threshold ------
      0.039   13.4   0.1       0.42   10.0   0.0    2.3  2  PhoH             PhoH-like protein


Domain annotation for each model (and alignments):
>> UvrD_C  UvrD-like helicase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  238.5   3.9   6.9e-74   1.4e-70       2     348 ..     277     627 ..     276     628 .. 0.86

  Alignments for each domain:
  == domain 1  score: 238.5 bits;  conditional E-value: 6.9e-74
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   UvrD_C   2 vLekNyRStksLlkaankflenilnrralekek...ktvekgekivvleaeteeeEaekiaatikallekneklediavLvRsnkd 84 
                              +Le+NyRS+k++++aa+ ++e+++ r    k k   +++ +g+ i++ e+ ++++Eae+ia++  +l +    ++++av +Rsn++
  PHY93_01880|PHY93_01880 277 KLEQNYRSSKTIIEAASCVIEKNTLR----KGKhmwTENPEGDAIEIVECFNDRDEAEFIAKETYKLSKAGVSYKEMAVFYRSNAQ 358
                              79******************999998....3334689************************************************* PP

                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx... RF
                   UvrD_C  85 adkiskaLkkegipfnvvdeekfFkreeikdilaylkllankqdkialkrilkrlvlgigkatveriseelkklglsltDfik... 167
                              a++i+++L+k +i+++v+++ kf++r+eikd+l y++l++n +d++al+ri++ + +g+g ++++++  e  ++  sl D i+   
  PHY93_01880|PHY93_01880 359 ARLIEDSLRKYKINYRVIGGVKFYERKEIKDMLSYMRLIINSKDSLALSRIINVPARGVGATSLRKLEMEAVNANTSLWDIIEriv 444
                              *******************************************************************8888899999999987333 PP

                              xxxxxxxxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   UvrD_C 168 edtleygeeFieliraleeknl......elllkkiektaeerqalvskyadlfke.laeklaelkekseskrkkeeklenlreLys 246
                              +++ + geeF++  ++l++k +        l++++++  e+r +    y++  +e  +  + + ++  e+ +    +lenl+eL++
  PHY93_01880|PHY93_01880 445 DNQRKSGEEFSH--IKLSAKIKsslsefVTLINELRHLDENRIKPSVIYEKVLHEsGYYSFLKANKDYETLA----RLENLDELLN 524
                              5788999***94..3333333345667655677788888888888888877654413444555555555555....9********* PP

                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxx RF
                   UvrD_C 247 llkelekkeeeeeveeklneileiatLseseleeskkk...ekipiiTiHqAKGlEFdvVflagleegtfPsyrskk..ekrleEE 327
                              +l ++e+     +++++l  +le++tL  s++ +++      ++ ++T+H AKGlEF   f++g+ee+ fPsyrs +  e+ +eEE
  PHY93_01880|PHY93_01880 525 ALTQFED----GNPNASLGTFLETITLDTSTEFDEDAIpnqGEVSLMTVHGAKGLEFTHAFVVGAEENVFPSYRSVDggENAMEEE 606
                              *******....344567**********9998766665555699************************************99***** PP

                              xxxxxxxxxxxxxxxxxxxxx RF
                   UvrD_C 328 kRlfYVaiTRAkkrLfisysk 348
                              +RlfYVa+TRA  +L+i +++
  PHY93_01880|PHY93_01880 607 RRLFYVAMTRAMIKLYICFAQ 627
                              *****************8765 PP

>> UvrD-helicase  UvrD/REP helicase N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  235.2   0.5   6.4e-73   1.3e-69       1     314 [.       7     270 ..       7     271 .. 0.96
   2 ?   -0.7   0.3      0.41   8.2e+02     175     203 ..     633     661 ..     313     698 .. 0.61

  Alignments for each domain:
  == domain 1  score: 235.2 bits;  conditional E-value: 6.4e-73
                              SSHHHHHHHHS-SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHHHHHCCHHCTT-HHHHHHH CS
            UvrD-helicase   1 lnpeqreaiaslggpilveAsAGsGKTfvlaerilrlikeeeiepdrilvvTFTnkAaeElkeRieealkkaeqessdderlrlal 86 
                              lnp q++a+ ++ gp++++A+AGsGKT++l+ ri +l++e++ +p+++l++TF nkAa+E++eRi++ +                 
  PHY93_01880|PHY93_01880   7 LNPVQKQAVLQTDGPVMILAGAGSGKTKTLVTRITYLLDEKNLSPHQLLALTFSNKAAREMRERIAHEIATI-------------- 78 
                              6899***************************************************************99886.............. PP

                              HHCTTSEEEEHHHHHHHHHHHHHGGTTSHTTTEEECHHHHHHCCHHHHHHHHHSCHSHTTTTHHHHHHHHHHHHHHCCCCCHHHHC CS
            UvrD-helicase  87 qnlseanisTlHsfcqkilkkeanrigldpnfrildeedeedlkqqellkelleksaddslnldkkkleklikelsksrnikkeel 172
                                +  ++i T+H+fc k+l+ ean +gl +nf+i+de +     ++++ k+lle     +  +++k++++                
  PHY93_01880|PHY93_01880  79 -DIGALQITTFHAFCAKTLRSEANFLGLSRNFTIYDEGE-----SKAIAKALLE-----RRGISTKEINPY--------------- 138
                              .499***********************************.....7888888886.....789999999955............... PP

                              CCHHHHHCHHHHHHHHHHHTTCCTTHHCHSSTSCSHHHHHHHHHHHHHHHHHHHHTCEEHHHHHHHHHHHHHHCHHHHHHHHHHSS CS
            UvrD-helicase 173 slskskaeelrelvskakekqlspkelkkafekasdlqkkiaeflkeyqeqkkeenalDfsdllhallelleeneelaealreryk 258
                                      e+  +++ +k++   p +  +  e   d +++    ++ey++++ + na+Df  l+ a+++l+e+ ++++ ++++ry+
  PHY93_01880|PHY93_01880 139 --------EILSYIDSLKNNGYYPGRVMS--EGGADPSDEYFGYFEEYESELHRANAVDFGGLITAVIQLFEKFPDVLLRYQNRYQ 214
                              ........9******************99..889999999999******************************************* PP

                              EEEESSGGG-BHHHHHHHHHHHTTTTTEEEEE-GGG--GGGGTB-THHHHHHHHHS CS
            UvrD-helicase 259 eiliDEyQDTnkiQyrilkllasgheelfmvGDpkQsIYgFRgAdielflkkkkdf 314
                              ++l+DEyQDTn++Q++++++l+ +++++++vGD++QsIY++RgAdi+++l ++k f
  PHY93_01880|PHY93_01880 215 YVLVDEYQDTNRAQFELITMLCGKRRNICVVGDEDQSIYSWRGADIRNILDFEKVF 270
                              ****************************************************9977 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.41
                              HHHHHCHHHHHHHHHHHTTCCTTHHCHSS CS
            UvrD-helicase 175 skskaeelrelvskakekqlspkelkkaf 203
                               + k++  + ++++++ek+++ k+l++a+
  PHY93_01880|PHY93_01880 633 GQVKFNGPSRFIDEIPEKLFTWKKLNNAP 661
                              34444444556666666666666666666 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  109.9   0.0   6.5e-35   1.3e-31       1     144 [.      11     254 ..      11     256 .. 0.93

  Alignments for each domain:
  == domain 1  score: 109.9 bits;  conditional E-value: 6.5e-35
                   AAA_19   1 qreavealkekvllvtaGpGtGKTrvlkhivallvelggvkpeeillvaftgrAakelrerlaalgae..........atTiHrla 76 
                              q++av   ++++++++aG+G+GKT++l++++++l+++++++p+++l+++f ++Aa+e+rer+a    e          +tT+H++ 
  PHY93_01880|PHY93_01880  11 QKQAV-LQTDGPVMILAGAGSGKTKTLVTRITYLLDEKNLSPHQLLALTFSNKAAREMRERIAH---EiatidigalqITTFHAFC 92 
                              88999.89999***************************************************44...33469999999*****997 PP

                   AAA_19  77 l..................................................................................... 77 
                                                                                                                    
  PHY93_01880|PHY93_01880  93 Aktlrseanflglsrnftiydegeskaiakallerrgistkeinpyeilsyidslknngyypgrvmseggadpsdeyfgyfeeyes 178
                              79************************************************************************************ PP

                   AAA_19  78 .......ldfddlltealelle......eaeeekklqeee.llivDEfqdvdelqyrLlkallgekkklllvGDpdQliyv 144
                                     +df +l+t   +l+e              q+++ +++vDE+qd++  q++L+  l+g++ ++++vGD+dQ+iy+
  PHY93_01880|PHY93_01880 179 elhranaVDFGGLITAVIQLFEkfpdvlL-----RYQNRYqYVLVDEYQDTNRAQFELITMLCGKRRNICVVGDEDQSIYS 254
                              *******9999999888888876543330.....3356677*************************99************8 PP

>> Viral_helicase1  Viral (Superfamily 1) RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.4   0.0     0.027        54       2      21 ..      23      42 ..      22     103 .. 0.73
   2 !   15.0   0.0   7.5e-06     0.015      60     213 ..     209     363 ..     194     369 .. 0.74
   3 !   17.0   0.0   1.9e-06    0.0037     161     233 ..     538     624 ..     501     625 .. 0.81

  Alignments for each domain:
  == domain 1  score: 3.4 bits;  conditional E-value: 0.027
          Viral_helicase1  2 vvhGvpGcGKStlirkllrt 21
                             ++ + +G+GK++ +++ +  
  PHY93_01880|PHY93_01880 23 MILAGAGSGKTKTLVTRITY 42
                             67889******999987754 PP

  == domain 2  score: 15.0 bits;  conditional E-value: 7.5e-06
          Viral_helicase1  60 s.tkgkililDEylllhaGyilllaalskaklvi.lfGDplQipfhsrnasfll.ahlpsslshrvgrrttyllpsdvaeilsakv 142
                                 +++++++DEy+  ++++++l+  l + + +i ++GD+ Q+ ++ r a++ +  ++++ + +++  +  + ++s  + i+ a++
  PHY93_01880|PHY93_01880 209 YqNRYQYVLVDEYQDTNRAQFELITMLCGKRRNIcVVGDEDQSIYSWRGADIRNiLDFEKVFPDVTILKLEQNYRSSKTIIEAASC 294
                              335699*****************87777766555168*********9988875514555555566666666666666666666666 PP

          Viral_helicase1 143 gteveversgelkvetepkgqekvlvyltftqalkealgvrevttvhevqGltfdkVtlvllketdlelis 213
                                e+++ r+g+   +  p+g  ++ ++++f  ++ ++  ++e++  + + G ++++  ++++++ +  li+
  PHY93_01880|PHY93_01880 295 VIEKNTLRKGKHMWTENPEGD-AIEIVECFNDRDEAEFIAKETYKLSKA-GVSYKEMAVFYRSNAQARLIE 363
                              788888888999778888888.999999999999999999999999999.777777776666666655555 PP

  == domain 3  score: 17.0 bits;  conditional E-value: 1.9e-06
          Viral_helicase1 161 kgqe..kvlvyltftqalkealgvr...evttvhevqGltfdkVtlvllketdlelis..........esrenllvAlTRhrkslv 231
                               g +  ++++++t t+ +  a   +   + +tvh++ Gl+f +  +v  +e+    ++          e+r  ++vA+TR+  +l+
  PHY93_01880|PHY93_01880 538 LG-TflETITLDTSTEFDEDAIPNQgevSLMTVHGAKGLEFTHAFVVGAEENVFPSYRsvdggenameEERRLFYVAMTRAMIKLY 622
                              33.24578999999999888888889999********************9987666669*********88************9999 PP

          Viral_helicase1 232 il 233
                              i+
  PHY93_01880|PHY93_01880 623 IC 624
                              98 PP

>> UvrD_C_2  UvrD-like helicase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.7   0.1   2.9e-12   5.8e-09       4      52 .]     566     624 ..     563     624 .. 0.88

  Alignments for each domain:
  == domain 1  score: 35.7 bits;  conditional E-value: 2.9e-12
                 UvrD_C_2   4 altihkaQGsefpaVivfdpdlaaarmgel..........rrrlLYtavTRAreklilv 52 
                               +t+h a+G+ef + +v+ +++  ++ ++            rrl+Y+a+TRA  kl+++
  PHY93_01880|PHY93_01880 566 LMTVHGAKGLEFTHAFVVGAEENVFPSYRSvdggenameeERRLFYVAMTRAMIKLYIC 624
                              69****************999666665666689999********************996 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.0   7.6e-08   0.00015       2      74 ..       7      79 ..       6     139 .. 0.83
   2 !   10.4   0.0    0.0002       0.4      85     173 ..     208     300 ..     172     311 .. 0.80

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 7.6e-08
                   AAA_30  2 lnaeQaaavealltsgdrvavltGpAGtGKttal.kalreaweaag...grviglAptgkaAkvLaeelgieastia 74
                             ln+ Q++av  l t+g   +++ ++AG+GKt +l + ++ ++++++   +++++l+ ++kaA++++e +  e +ti+
  PHY93_01880|PHY93_01880  7 LNPVQKQAV--LQTDG--PVMILAGAGSGKTKTLvTRITYLLDEKNlspHQLLALTFSNKAAREMRERIAHEIATID 79
                             778888888..44555..5788899******776155677777766889******************9998888875 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 0.0002
                   AAA_30  85 rlepg.tllivDEagmvdtkqlaallkaaekagakvilvGDerQlasVeaGgvlrdlvea....agigtaeLtevvRqkeseeraa 165
                              r++++ + ++vDE   ++ +q++ ++  + k    + +vGDe+Q     +G+ +r +++      + +  +L++++R +++ ++aa
  PHY93_01880|PHY93_01880 208 RYQNRyQYVLVDEYQDTNRAQFELITMLCGK-RRNICVVGDEDQSIYSWRGADIRNILDFekvfPDVTILKLEQNYRSSKTIIEAA 292
                              5566669********9999999877777777.99**********999999999999987633333458899999999999999999 PP

                   AAA_30 166 alalregd 173
                              +  +++++
  PHY93_01880|PHY93_01880 293 SCVIEKNT 300
                              88777665 PP

>> AAA_11  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   5.2e-06      0.01       8      76 ..      13      73 ..       6      98 .. 0.79
   2 ?   -3.5   0.0       3.5     7e+03      92     117 ..     442     467 ..     421     511 .. 0.58

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 5.2e-06
                   AAA_11  8 eaiksalseseitliqGPPGtgKTktivellsqllsrrkseeeksakpriLvCapSNaAvDellerllr 76
                             +a+   l++++ ++i    G+gKTkt+v  + +l      +e++  ++++L+ + SN+A  e+ er++ 
  PHY93_01880|PHY93_01880 13 QAV---LQTDGPVMILAGAGSGKTKTLVTRITYL-----LDEKNLSPHQLLALTFSNKAAREMRERIAH 73
                             444...3444434455555***************.....56789**********************998 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 3.5
                   AAA_11  92 Rvgneeeriseavksvsleekvekrl 117
                              R++ ++++++e+ + ++l+ k++++l
  PHY93_01880|PHY93_01880 442 RIVDNQRKSGEEFSHIKLSAKIKSSL 467
                              33333333333333333333333333 PP

>> AAA_12  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.0     0.029        58      17      53 ..     275     311 ..     265     321 .. 0.84
   2 ?    2.3   0.1     0.054   1.1e+02      88     135 ..     325     370 ..     317     402 .. 0.88
   3 !    5.9   0.0    0.0043       8.6     142     194 ..     560     623 ..     517     627 .. 0.72
   4 ?   -4.1   0.1         5     1e+04      30      59 ..     644     673 ..     643     695 .. 0.68

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.029
                   AAA_12  17 vvlLdtqYRmhpeIsrfpsklfYkgkLkdaesvkkre 53 
                              +  L+++YR+ ++I + +s  + k++L++++++ +++
  PHY93_01880|PHY93_01880 275 ILKLEQNYRSSKTIIEAASCVIEKNTLRKGKHMWTEN 311
                              56799***********************999876665 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.054
                   AAA_12  88 NeeEaelvvklvekllkkgseeerkkigvitpYraqvellkkklkeke 135
                               + Eae+++k   kl k+g++   k+ +v    +aq++l+++ l++ +
  PHY93_01880|PHY93_01880 325 DRDEAEFIAKETYKLSKAGVSY--KEMAVFYRSNAQARLIEDSLRKYK 370
                              578**************99998..9*****999**********99754 PP

  == domain 3  score: 5.9 bits;  conditional E-value: 0.0043
                   AAA_12 142 e...ievntvdgfQGrekdviilslVRsn........ekkeigflkderrlNValTRAksklii 194
                              +   ++  tv g  G e    ++     n        + +e ++ +++r + Va+TRA  kl+i
  PHY93_01880|PHY93_01880 560 NqgeVSLMTVHGAKGLEFTHAFVVGAEENvfpsyrsvDGGENAMEEERRLFYVAMTRAMIKLYI 623
                              1444788888888888888888777777777766654444455555666668*******99998 PP

  == domain 4  score: -4.1 bits;  conditional E-value: 5
                   AAA_12  30 IsrfpsklfYkgkLkdaesvkkreleaqea 59 
                              I ++p+klf  +kL++a++ ++++ +++++
  PHY93_01880|PHY93_01880 644 IDEIPEKLFTWKKLNNAPRKEEYNPSWKQN 673
                              567888888889999999888888773332 PP

>> PhoH  PhoH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.0      0.19   3.7e+02      16      35 ..      16      35 ..       5      50 .. 0.73
   2 ?   10.0   0.0   0.00021      0.42     122     158 ..     215     251 ..     212     290 .. 0.83

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.19
                             HHH-SEEEEE--TTSSTTHH CS
                     PhoH 16 lkkndivfaiGpaGtGKtyl 35
                             l++   v++++ aG+GKt  
  PHY93_01880|PHY93_01880 16 LQTDGPVMILAGAGSGKTKT 35
                             556667899999*****965 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00021
                              EEEE-SGGG--HHHHHHHHTTB-TT-EEEEEE----- CS
                     PhoH 122 fvilDEAQnttkeqmkmfltRlGenskvvvtGdvtqi 158
                              +v++DE Q+t+++q + + +  G+   + v+Gd  q 
  PHY93_01880|PHY93_01880 215 YVLVDEYQDTNRAQFELITMLCGKRRNICVVGDEDQS 251
                              89*******************************9996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (761 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       579  (0.032294); expected 358.6 (0.02)
Passed bias filter:                      467  (0.0260472); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.78u 0.25s 00:00:01.03 Elapsed: 00:00:00.51
# Mc/sec: 4523.74
//
Query:       PHY93_01885|PHY93_01885  [L=449]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.6e-17   62.3   0.0    7.1e-17   61.4   0.0    1.5  1  DUF2064          Uncharacterized protein conserved in bacteri
    1.2e-06   28.5   0.0    0.00018   21.3   0.0    2.3  2  Glycos_transf_2  Glycosyl transferase family 2
  ------ inclusion threshold ------
       0.05   13.6   0.1       0.23   11.5   0.0    1.9  2  SecA_SW          SecA Wing and Scaffold domain
      0.082   12.4   0.0       0.26   10.7   0.0    1.9  1  Glyco_tranf_2_2  Glycosyltransferase like family 2


Domain annotation for each model (and alignments):
>> DUF2064  Uncharacterized protein conserved in bacteria (DUF2064)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.4   0.0   1.6e-20   7.1e-17      30     123 .]     297     389 ..     270     389 .. 0.87

  Alignments for each domain:
  == domain 1  score: 61.4 bits;  conditional E-value: 1.6e-20
                              HH-TTSEEEE--SSSHHHHHHHHHHHHHHTT-SEEEEE-SS-TT--HHHHHHHHHHTTT-SE.EEEEBTTSSEEEEEEEG-G...G CS
                  DUF2064  30 alakglevlpQqggdlgeRlarafdrafeageepvlliGsDcpqltaalleqAfeaLeeada.VlgpaeDGGYyllGlkkrlapae 114
                               l ++++ ++Q++g+lgeRla + ++  ++++++v liG+D+p+l+ ++l +A  +L+++   Vlg ++DGG+yl+G +  + +++
  PHY93_01885|PHY93_01885 297 PLWNSFNTIYQGHGELGERLATVYSKL-QKKHKRVFLIGADLPHLNYKTLLRAQYKLNSSSGfVLGETQDGGFYLFGGR-GIIERA 380
                              66678999*******************.99999*************************99555****************.799999 PP

                              GGTT--TTT CS
                  DUF2064 115 lFegvpwst 123
                              + +++p+s+
  PHY93_01885|PHY93_01885 381 IWTSIPYSS 389
                              999999995 PP

>> Glycos_transf_2  Glycosyl transferase family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.8   0.0    0.0049        22       1      34 [.       5      36 ..       5      37 .. 0.97
   2 !   21.3   0.0   4.1e-08   0.00018      58     131 ..      50     123 ..      38     156 .. 0.77

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.0049
                             EEEEEESS-TTTHHHHHHHHHHHGGCCEEEEEEE CS
          Glycos_transf_2  1 svviptyNeektlletlesllaqdpypdfeiivv 34
                             s++ip+   e+  + +++ ll+     dfeiivv
  PHY93_01885|PHY93_01885  5 SIIIPVKSQENSWQDLVTELLSH--QGDFEIIVV 36
                             8*********************9..********8 PP

  == domain 2  score: 21.3 bits;  conditional E-value: 4.1e-08
                              EEEESSS-HHHHHHHHHHHH--SSEEEEEESSEEE-TTHHHHHHHHHHH.TTCEEEEEEEEEECCCCCCCHC-S CS
          Glycos_transf_2  58 virreenvGkagalnaglraatgdyilflDaDdepdpdwleklvealekdgadvvlgqrprifgetdeiernkr 131
                              v     + G a   n+g++ at  +i+fl aD+  +   l+k+ e+l++ ++++++    + +++++ +  n+ 
  PHY93_01885|PHY93_01885  50 VRFEFSKLGRAHQQNRGAQIATKSFIWFLHADSRLSNRPLQKIEEKLKEKPEAIFFFDLNFLSDGPRLMILNTL 123
                              4444445699******************************************9988888777777777776655 PP

>> SecA_SW  SecA Wing and Scaffold domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   5.1e-05      0.23     104     151 ..      65     134 ..      10     136 .. 0.75
   2 ?   -0.7   0.0      0.28   1.2e+03      70      79 ..     267     276 ..     189     350 .. 0.52

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 5.1e-05
                              T.................HHHHHHHHHHHHHHHHHHHHC.....HHHHHHHHHHHHHHHHHHHHHHHHHH CS
                  SecA_SW 104 e.................elaeellekaekayekkeeei.....ellrelervvlLevlDkaWkehLdam 151
                              +                  l+++ l+k+e+++++k e+i     + l++  r ++L++l  +W+ hL +m
  PHY93_01885|PHY93_01885  65 RgaqiatksfiwflhadsRLSNRPLQKIEEKLKEKPEAIfffdlNFLSDGPRLMILNTLGAYWRSHLLKM 134
                              033333666777777777899999999*********99999998889999*****************999 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.28
                              HHHHCHHHHS CS
                  SecA_SW  70 veeiveesvp 79 
                               e++v e ++
  PHY93_01885|PHY93_01885 267 TEAVVMEAIK 276
                              2222222221 PP

>> Glyco_tranf_2_2  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   5.8e-05      0.26      66     147 ..      56     132 ..       5     195 .. 0.74

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 5.8e-05
          Glyco_tranf_2_2  66 ayslaaarNrGaskaesdlvlFlDaDcfissDkfekilklitikklrenidaavvlpvvdlnkedsevlkdvedltassrvl 147
                                + a  +NrGa+ a   ++ Fl aD   s   ++ki +     kl+e ++a   + +  l +    ++ ++   +++s++l
  PHY93_01885|PHY93_01885  56 KLGRAHQQNRGAQIATKSFIWFLHADSRLSNRPLQKIEE-----KLKEKPEAIFFFDLNFLSDGPRLMILNTLGAYWRSHLL 132
                              45789999****************************998.....99999999888887777776666666666666666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (449 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       497  (0.0277205); expected 358.6 (0.02)
Passed bias filter:                      407  (0.0227007); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.62u 0.26s 00:00:00.88 Elapsed: 00:00:00.48
# Mc/sec: 2802.91
//
Query:       PHY93_01890|PHY93_01890  [L=317]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      2e-55  186.5   0.1    5.6e-55  185.1   0.1    1.8  2  DUF3641      Protein of unknown function (DUF3641)
    2.2e-12   47.6   0.1    7.4e-12   46.0   0.0    1.7  2  Radical_SAM  Radical SAM superfamily
    3.6e-05   24.0   0.3    8.1e-05   22.9   0.1    1.7  2  Fer4_12      4Fe-4S single cluster domain
  ------ inclusion threshold ------
        5.1    7.7   6.1       0.37   11.3   0.5    2.0  2  SPASM        Iron-sulfur cluster-binding domain


Domain annotation for each model (and alignments):
>> DUF3641  Protein of unknown function (DUF3641)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       1.3   5.8e+03      47      67 ..      80     100 ..      63     115 .. 0.75
   2 !  185.1   0.1   1.2e-58   5.6e-55       1     135 []     183     317 .]     183     317 .] 0.98

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 1.3
                  DUF3641  47 kleeYlellkeafneetvekl 67 
                              +++ Y+++l++a ++ ++e +
  PHY93_01890|PHY93_01890  80 EMNPYFKKLVSAARSMNLEVI 100
                              678899999998888887644 PP

  == domain 2  score: 185.1 bits;  conditional E-value: 1.2e-58
                  DUF3641   1 lppeqealekeykeelkeefgieFneLftitnlpikrfkevLeskgkleeYlellkeafneetveklmCrsllsvdwdGklydCdf 86 
                              lp +qe+l+++yk+elk+ f++eFn+L+titn+pikrf e L++ gk++eY++ll ++fn+++v+++mC+sl+s++wdG++ydCdf
  PHY93_01890|PHY93_01890 183 LPGPQEKLQADYKHELKHLFNLEFNQLYTITNMPIKRFLEDLNRLGKYDEYMDLLLNNFNPHAVDSVMCKSLISIGWDGQIYDCDF 268
                              799*********************************************************************************** PP

                  DUF3641  87 nqmlelklkkkekltikdlleee.lekreiavaehCygCtaGaGssCgGa 135
                              nqmle+++ + +++t++++++ +  ++++iava+hCygCtaGaGssCgGa
  PHY93_01890|PHY93_01890 269 NQMLEIPT-HPQTTTLWNIEKLDdFKNKKIAVANHCYGCTAGAGSSCGGA 317
                              ********.88899*****99887999**********************7 PP

>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.0   0.0   1.6e-15   7.4e-12       1     145 [.      26     165 ..      26     177 .. 0.89
   2 ?   -0.9   0.0      0.43   1.9e+03      83     115 ..     212     244 ..     183     305 .. 0.55

  Alignments for each domain:
  == domain 1  score: 46.0 bits;  conditional E-value: 1.6e-15
                              EEEESEESS--TTTSCCTTHHHHHHHHHHHHHHHHHHHHHHHHHTTSEEEEEESSTGGGSTTHHHHHHHHHHTCCCTEEEEEEECS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM   1 vvvtrgCnlrCsfCarpetvrregrgrslsveeileevkelkaekgvkevilgggepllypdfvellerlaklavpgiritvetng 86 
                              ++v++ Cn++C++C++        r +++s   i ++++ +++++  k++ ++gg p ++p f +l+ +++     ++++   +n 
  PHY93_01890|PHY93_01890  26 INVGKMCNQACHHCHVEA---GPNRTEMMSEKTIDRLIELMSQSPYLKTIDITGGAPEMNPYFKKLVSAARSM---NLEVIDRCNL 105
                              678999***********8...8*******************99989*****************9999999998...9999999999 PP

                              SCHG....HHHHHHHHHTT-SEEEEEEBSSSHHHHHHHHTCTSHHHHHHHHHHHHHHTTSETE CS
                              xxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM  87 tlpd....eeklerllelgvdrvslgleaaddekvlklmnrghtfeevlealeklreagikrv 145
                              t+ +    e+  + l+e    +v  +   +++e v k   +++ f++ +eal++l++ g+  v
  PHY93_01890|PHY93_01890 106 TVFYekgfEDLPRFLKEQK-VHVVASMPCYTKENVDKQR-GRGVFDKSIEALKLLNSMGFG-V 165
                              9998999677777777766.99999999999999*****.77*****************98.3 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.43
                              EECSSCHGHHHHHHHHHTT..-SEEEEEEBSSSHH CS
                              xxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxx RF
              Radical_SAM  83 etngtlpdeeklerllelg..vdrvslgleaadde 115
                              +tn +   +++le l +lg    ++ l l+ +++ 
  PHY93_01890|PHY93_01890 212 ITNMPI--KRFLEDLNRLGkyDEYMDLLLNNFNPH 244
                              444444..333333333333334444545444444 PP

>> Fer4_12  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.9   0.1   1.8e-08   8.1e-05      14     114 ..      31     126 ..      26     146 .. 0.74
   2 ?   -2.7   0.0       1.4   6.3e+03      87     104 ..     280     296 ..     276     307 .. 0.68

  Alignments for each domain:
  == domain 1  score: 22.9 bits;  conditional E-value: 1.8e-08
                  Fer4_12  14 gCnlsCkgCfnketwsfksgkeftkelleeiiedlkk.esiegltllGGEPllpenaeallelvkevkeekpekdiwlytgytlee 98 
                               Cn +C  C+      +++ + +++++++++ie +++ ++ + + ++GG P +   ++ + +lv   ++ ++e +i   + + + e
  PHY93_01890|PHY93_01890  31 MCNQACHHCHV--EAGPNRTEMMSEKTIDRLIELMSQsPYLKTIDITGGAPEM---NPYFKKLVSAARSMNLE-VIDRCNLTVFYE 110
                              5*********4..4568899999************976999***********9...77777777777777764.454555554444 PP

                  Fer4_12  99 lskkekeellkeidvl 114
                                 ++  ++lke +v 
  PHY93_01890|PHY93_01890 111 KGFEDLPRFLKEQKVH 126
                              4433555666666654 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 1.4
                  Fer4_12  87 diwlytgytleelskkek 104
                              + +l++  +l+++++k k
  PHY93_01890|PHY93_01890 280 TTTLWNIEKLDDFKNK-K 296
                              5677888888888875.2 PP

>> SPASM  Iron-sulfur cluster-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.6   0.8       3.7   1.7e+04      61      68 .]      33      40 ..      25      40 .. 0.74
   2 ?   11.3   0.5   8.3e-05      0.37       6      67 ..     253     306 ..     250     307 .. 0.78

  Alignments for each domain:
  == domain 1  score: -3.6 bits;  conditional E-value: 3.7
                    SPASM 61 ielCrnCp 68
                             ++ C++C+
  PHY93_01890|PHY93_01890 33 NQACHHCH 40
                             56799995 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 8.3e-05
                    SPASM   6 rslfInsdGdVvpCcvdkktyveelklGnireesleeIwnseeyqefrkskkfplielCrnC 67 
                              + + I +dG ++ C     ++++ l +    ++    +wn e++ +f+ +kk +  + C  C
  PHY93_01890|PHY93_01890 253 SLISIGWDGQIYDC-----DFNQMLEIPTHPQT--TTLWNIEKLDDFK-NKKIAVANHCYGC 306
                              5689**********.....47666777777554..489**********.6666667889999 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (317 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       688  (0.0383736); expected 358.6 (0.02)
Passed bias filter:                      537  (0.0299515); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.55u 0.25s 00:00:00.80 Elapsed: 00:00:00.45
# Mc/sec: 2129.55
//
Query:       PHY93_01895|PHY93_01895  [L=390]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.4e-09   38.0   0.0    4.8e-09   37.0   0.0    1.5  1  Metallophos  Calcineurin-like phosphoesterase


Domain annotation for each model (and alignments):
>> Metallophos  Calcineurin-like phosphoesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.0   0.0   2.7e-13   4.8e-09       1     202 [.     163     330 ..     163     332 .. 0.62

  Alignments for each domain:
  == domain 1  score: 37.0 bits;  conditional E-value: 2.7e-13
                              EEEEEEESBTB..TTCCTHHHHHHHHHHHHHHHTTESEEEEESTSSSSS..HHHHHHHHHHHHHHHHTSEEEEEC-TTSCHHHHHH CS
              Metallophos   1 lrilvigDlHl..algggqlddllkllddllreekpdlvllaGDlvdrg..dlekellellaalvkypipvylllGNHegfeeell 82 
                              l+i++++D+H+   l  +  + l++ ++ l    kpdl+ ++GD vd+    l  ell +l++  ++++  y++ GNHe  ++ + 
  PHY93_01895|PHY93_01895 163 LKIVQLSDIHIgpTLKKEFCEMLVTKVNAL----KPDLIAITGDMVDGRvaYLKDELLPFLNFQSRLGT--YFITGNHE--YYWYA 240
                              69********77766667777777777676....***************77444446666666666444..********..22222 PP

                              HHHHHHHHHHHHHEHHHCEEETSEEEE...EETTEEEEEEEESECEEE..THHHHHHHHHHHSCHHHHCCHHHHHHHHHHTTCSEE CS
              Metallophos  83 nkygylgifsepwrsdaevfnnlplas...lgsgslkvlllhGgspel..lvsldklgslnleleapepgdewlkdlekrekadwv 163
                                              +e++ +  +++   l++   +v l h+++  +   v+  + ++l++   ++ + +  l          ++
  PHY93_01895|PHY93_01895 241 ----------------NEWVAWARSSGmtpLMNE--NVKLSHNNTDFFlaGVTDPSSNRLDKKNASDPK-KAVLGI----PTEAYK 303
                              ................344444444443333333..444444442222322233333333333333332.333333....556899 PP

                              EEEESSESSCSSSCSCCHHHHHHHHHHTTESEEEEESSS CS
              Metallophos 164 ivlgHsplyrgsgylfgdealedllkkygvdlvisGHtH 202
                              i+l+H p+           +++    k g +  +sGHtH
  PHY93_01895|PHY93_01895 304 ILLAHQPNA----------CFR--ACKAGFHTQLSGHTH 330
                              999999999..........666..8899999*******9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (390 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       678  (0.0378158); expected 358.6 (0.02)
Passed bias filter:                      379  (0.0211389); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.60u 0.25s 00:00:00.85 Elapsed: 00:00:00.47
# Mc/sec: 2476.19
//
Query:       PHY93_01900|PHY93_01900  [L=342]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.7e-33  115.5   0.0    5.2e-32  111.3   0.0    2.2  1  Pyr_redox_3    Pyridine nucleotide-disulphide oxidoreductase
    7.6e-12   44.4   0.8    2.5e-07   29.5   0.1    2.8  2  FMO-like       Flavin-binding monooxygenase-like
    2.6e-09   36.7   0.0    2.5e-08   33.5   0.0    2.1  1  Pyr_redox_2    Pyridine nucleotide-disulphide oxidoreductase
    5.8e-07   29.7   0.0    1.1e-06   28.7   0.0    1.6  1  NAD_binding_8  NAD(P)-binding Rossmann-like domain
    2.7e-05   23.5   0.0      0.039   13.1   0.0    3.0  3  K_oxygenase    L-lysine 6-monooxygenase (NADPH-requiring)
    3.1e-05   23.7   0.0      0.017   14.7   0.0    3.0  3  DAO            FAD dependent oxidoreductase
    4.3e-05   22.9   0.0    6.6e-05   22.3   0.0    1.2  1  FAD_binding_3  FAD binding domain
    4.9e-05   22.7   0.0    0.00013   21.3   0.0    1.7  2  Thi4           Thi4 family
    5.1e-05   22.1   0.0      0.019   13.7   0.0    2.5  3  HI0933_like    HI0933-like protein
     0.0021   17.2   0.0     0.0029   16.7   0.0    1.2  1  Lycopene_cycl  Lycopene cyclase protein
     0.0084   16.6   0.0       0.05   14.2   0.0    2.1  2  Pyr_redox      Pyridine nucleotide-disulphide oxidoreductase
  ------ inclusion threshold ------
       0.01   15.0   0.0      0.034   13.2   0.0    1.7  2  FAD_binding_2  FAD binding domain
      0.016   15.2   0.1       0.18   11.7   0.0    2.5  2  NAD_binding_9  FAD-NAD(P)-binding


Domain annotation for each model (and alignments):
>> Pyr_redox_3  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  111.3   0.0   3.8e-35   5.2e-32       1     277 [.      10     294 ..      10     317 .. 0.78

  Alignments for each domain:
  == domain 1  score: 111.3 bits;  conditional E-value: 3.8e-35
              Pyr_redox_3   1 iIiGaGPaGlaaaielkkagledylilEkg.nignsiyrypkemtfispsftsekleipdlnaiseetspafslkeeklsrkeale 85 
                              +IiGaGPaGl+ ++ l+k ++ dylilE+  ++g s+++ p +  +i+  ++s+ l   dl+ + +++           s+k++++
  PHY93_01900|PHY93_01900  10 LIIGAGPAGLTLGYYLNKYNV-DYLILEQSdKVGSSWTQMPDHLHLIT-YWKSNCLLDEDLKLFDPDKI---------HSAKDFAQ 84 
                              6********************.8******99*****************.69**********99987766.........4899**** PP

              Pyr_redox_3  86 YlrevaksfelpiklfeeVesvkkedegfevetsketyeAkkviiAtGefdkPnk..lnipGeeklvkhyskvkefhkya.gqkvv 168
                              Yl+   + ++l+ik++++V +++ke+++f+v+t+ ++y+A  v+   G+f++P+   l+i+G     +h++ +k++++++ ++k++
  PHY93_01900|PHY93_01900  85 YLEDFSSIHQLKIKTHNKVLDIAKENNQFIVRTQIDEYKAVLVVDCRGYFSFPYIplLKINGNAPFMMHFKDYKNCTQLNqHKKIL 170
                              *****************************************************9722588899889************986899** PP

              Pyr_redox_3 169 ViGgknSavDaAlelvrkgaeVtvvtrgseiekee.....s......dpsyslkpdienrleelvke...ekikvlfnaevkeik. 239
                              V+G+  Sa    +el   g++   +  +s+i+ ++     +      d+   +    + rl+e+ +     + k + +++vk    
  PHY93_01900|PHY93_01900 171 VVGKRLSAGQLLCELSISGKHQLFLSARSSIRFSSplflfKhflrhlDFYEGIIKKFNLRLKEAREVpmhISAKTIIKKQVKVFGd 256
                              *******************9999888888888765222222111111233333334444555554435542233344444443221 PP

              Pyr_redox_3 240 .ekeeeykvktedgkkvevkddvvlatGykpdlsflkks 277
                                k e+ kv+++ g ++++ d +v+atG++p++  l++ 
  PHY93_01900|PHY93_01900 257 iVKIENKKVHFTCG-TIQEIDAIVFATGFSPTAINLRDD 294
                              11223346777776.567779999999999998887754 PP

>> FMO-like  Flavin-binding monooxygenase-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.5   0.1   1.8e-10   2.5e-07      86     215 ..      82     199 ..       6     205 .. 0.72
   2 !   12.0   0.1   3.8e-05     0.052     289     331 ..     244     285 ..     215     299 .. 0.88

  Alignments for each domain:
  == domain 1  score: 29.5 bits;  conditional E-value: 1.8e-10
                 FMO-like  86 lleylklfakefdllkyiqfkttvcsvkkrpdfstsGqwevvtekegkkesavfdavmvctGhhvnphlplesfpGiekfkGqyfh 171
                              + +yl+ f+   +l   i+ + +v+ + k     +  q+ v t+ ++ k + v d    c G++  p++pl    G   f   ++h
  PHY93_01900|PHY93_01900  82 FAQYLEDFSSIHQL--KIKTHNKVLDIAK-----ENNQFIVRTQIDEYKAVLVVD----CRGYFSFPYIPLLKINGNAPF---MMH 153
                              44444444433332..1333334444444.....356899999999888776666....*************99999988...79* PP

                 FMO-like 172 srdykepevf.kgkrvlviGlGnsggdiavelsrtae.qvllstrs 215
                               +dyk+   + + k++lv+G   s+g++ +els + + q++ls+rs
  PHY93_01900|PHY93_01900 154 FKDYKNCTQLnQHKKILVVGKRLSAGQLLCELSISGKhQLFLSARS 199
                              ******98762579*******************8764389999987 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 3.8e-05
                 FMO-like 289 arilaGavkvkssvkeltetsaifedgtveedidvvifatGyt 331
                              ++i+  +vkv +++ +++++ + f  gt++ +id+++fatG++
  PHY93_01900|PHY93_01900 244 KTIIKKQVKVFGDIVKIENKKVHFTCGTIQ-EIDAIVFATGFS 285
                              5799999******************99986.5*********98 PP

>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.5   0.0   1.8e-11   2.5e-08       2     243 ..       8     290 ..       7     301 .. 0.72

  Alignments for each domain:
  == domain 1  score: 33.5 bits;  conditional E-value: 1.8e-11
                              SEEEE--SHHHHHHHHHHHHHTS-EEEEE.TTHCHHHCSHHHHCHHHHHHHHHHHHH......................HHHHCHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxx......................xxxxxxx RF
              Pyr_redox_2   2 dvvviGgGpAGlaaaltlaqagakvtlve.legtclnggcllskallgvaedaeias......................evvkkln 64 
                              +v++iG+GpAGl++  +l++++++ +++e +++    ++ ++ +  l +  + + ++                      e ++++ 
  PHY93_01900|PHY93_01900   8 RVLIIGAGPAGLTLGYYLNKYNVDYLILEqSDKVGSSWTQMPDHLHLITYWKSNCLLdedlklfdpdkihsakdfaqylEDFSSIH 93 
                              79**************************8855555555555544444444444333355667777888888889998887777777 PP

                              HH.CCCCHCCTCEEEEESCEEEEETEEECTCEEEEEESEEEE---..EEE-BC..TCTTC.TTBEECCSECHHHHHHCCSS-TSEE CS
                              xx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2  65 qg.ielllgeevvkidpgkkkvklekkkegdeekiaydklvlAtG..ssprdl..gipGvaenvgklvrtldsaealklkllpkri 145
                              q  i++ ++  v++i +++ ++ ++++ +    ++++  +v + G  s p ++  +i G a+   ++ + ++++ +l+++++   i
  PHY93_01900|PHY93_01900  94 QLkIKTHNK--VLDIAKENNQFIVRTQID----EYKAVLVVDCRGyfSFPYIPllKINGNAPFMMHF-KDYKNCTQLNQHKK---I 169
                              774666666..****99999999966553....57777777799*7668888888999**9999999.99999999988876...8 PP

                              EEES-SHHHHHHHHHHHHHT-.............EEE..EEESSSSSSTTS-HHHHHHHHHHHHHT.TEEEEESCEEEEEEETTE. CS
                              xxxxxxxxxxxxxxxxxxxxx.............xxx..xxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxx. RF
              Pyr_redox_2 146 vvvGgGyiGvElAaalaklgk.............evt..lveardrllraldkelsaaleealeke.Gvevklgtsvkeidgnge. 214
                              +vvG  + +  l ++l+  gk               +  l ++  r l  + + + +  + +l++   v ++   s+k+i++++  
  PHY93_01900|PHY93_01900 170 LVVGKRLSAGQLLCELSISGKhqlflsarssirfSSPlfLFKHFLRHL-DFYEGIIKKFNLRLKEArEVPMH--ISAKTIIKKQVk 252
                              ****99999999999999999555555555554422222444444444.34477777777777776588877..666778888877 PP

                              ......EEE...EEETTSCEEEESEEEE-S-EEES-HH CS
                              ......xxx...xxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 215 ......kle...vvledgeeidadlvvvavGvrpstel 243
                                    k+e   v+ + g+  + d +v+a+G++p    
  PHY93_01900|PHY93_01900 253 vfgdivKIEnkkVHFTCGTIQEIDAIVFATGFSPTAIN 290
                              77777633344577777777*************98655 PP

>> NAD_binding_8  NAD(P)-binding Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.7   0.0   8.3e-10   1.1e-06       1      36 [.      11      46 ..      11      86 .. 0.89

  Alignments for each domain:
  == domain 1  score: 28.7 bits;  conditional E-value: 8.3e-10
                             EE--SHHHHHHHHHHHCCTEEEEEE-SSSSSSGGG- CS
            NAD_binding_8  1 IvGaGlsGlvaAylLakagfdvlllekrdrlGGraa 36
                             I+GaG +Gl++ y+L k+++d l+le++d++G  ++
  PHY93_01900|PHY93_01900 11 IIGAGPAGLTLGYYLNKYNVDYLILEQSDKVGSSWT 46
                             9******************************97766 PP

>> K_oxygenase  L-lysine 6-monooxygenase (NADPH-requiring)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   0.0     0.015        20       5      38 ..       9      40 ..       7      48 .. 0.87
   2 !   13.1   0.0   2.8e-05     0.039      94     223 ..      78     197 ..      70     207 .. 0.76
   3 ?    2.5   0.0     0.047        65     313     341 ..     257     285 ..     219     286 .. 0.68

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.015
              K_oxygenase  5 ligiGiGpsnLsLailleevkkelkalflerqpe 38
                             + +iG+Gp+ L+L   l++ +  ++ l le++++
  PHY93_01900|PHY93_01900  9 VLIIGAGPAGLTLGYYLNKYN--VDYLILEQSDK 40
                             579***************999..99999999876 PP

  == domain 2  score: 13.1 bits;  conditional E-value: 2.8e-05
              K_oxygenase  94 sRkefedYlrWvasqleeqvrfgeeveevepdeeeeeelltveskdaegeeeelearnlvlgvG..tepkiPevleklegkervvH 177
                              s k+f++Yl+  +s  + +++  ++v ++  +++     + v++     + +e++a  +v   G  + p+iP +  + +  + ++H
  PHY93_01900|PHY93_01900  78 SAKDFAQYLEDFSSIHQLKIKTHNKVLDIAKENN----QFIVRT-----QIDEYKAVLVVDCRGyfSFPYIPLLKINGN-APFMMH 153
                              5678888888887776666777777777776664....478887.....56788888887777766889**97766554.799*** PP

              K_oxygenase 178 sseylerkeellakkriaVvGsGqSaaeifedllrrqkkvelklvt 223
                               ++y + + +l+++k+i+VvG   Sa++++ +l  + k  +l l +
  PHY93_01900|PHY93_01900 154 FKDYKNCT-QLNQHKKILVVGKRLSAGQLLCELSISGK-HQLFLSA 197
                              *****999.8******************9999876654.3455544 PP

  == domain 3  score: 2.5 bits;  conditional E-value: 0.047
              K_oxygenase 313 eveltlrneesgeeetlevdavvlATGYr 341
                               v+++ ++ +    + +e+da+v+ATG++
  PHY93_01900|PHY93_01900 257 IVKIENKKVHFTCGTIQEIDAIVFATGFS 285
                              556666666666678899*********96 PP

>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.0   1.3e-05     0.017       1      34 [.       8      43 ..       8      48 .. 0.87
   2 ?    3.2   0.0      0.04        55     135     204 ..      70     135 ..      58     168 .. 0.74
   3 ?    2.2   0.0     0.078   1.1e+02     158     203 ..     248     285 ..     238     305 .. 0.67

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1.3e-05
                             EEEEECTSHHHHHHHHHHHHTT..EEEEESSSSTTS CS
                      DAO  1 dvviiGGGiiGlstAyeLarrg..Vtllekgdiags 34
                             +v+iiG+G +Gl+  y+L + +   ++le++d +gs
  PHY93_01900|PHY93_01900  8 RVLIIGAGPAGLTLGYYLNKYNvdYLILEQSDKVGS 43
                             59****************888889******988773 PP

  == domain 2  score: 3.2 bits;  conditional E-value: 0.04
                              EEETTEEEEEHHHHHHHHHHHHHHTT-EEEESECEEEEEEEETCEEEEEEECT.EEEEEEEE..EEE--GGGH CS
                      DAO 135 lfypdtgqvdpakltaalaraaealGveilegtevtgleeedgkvwgverttp.gendaada..vVnaaGaws 204
                              lf+pd  +  +  ++++l +    +  +i ++ +v ++ +e+++   v   t+  e   ++a  vV + G +s
  PHY93_01900|PHY93_01900  70 LFDPD-KIHSAKDFAQYLEDFSSIHQLKIKTHNKVLDIAKENNQ-FIV--RTQiDE---YKAvlVVDCRGYFS 135
                              56666.555677777777777777789***********665544.777..555444...56677****99986 PP

  == domain 3  score: 2.2 bits;  conditional E-value: 0.078
                              HTT-EEEESECEEEEEEEETCEEEEEEECTEEEEEEEEEEE--GGG CS
                      DAO 158 alGveilegtevtgleeedgkvwgverttpgendaadavVnaaGaw 203
                              ++ v+++    ++++e++  k   v + t g+++++da+V a+G  
  PHY93_01900|PHY93_01900 248 KKQVKVFGD--IVKIENK--K---V-HFTCGTIQEIDAIVFATGFS 285
                              455555543..6666543..2...2.2233777778********54 PP

>> FAD_binding_3  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.3   0.0   4.8e-08   6.6e-05       3      34 ..       8      39 ..       6      43 .. 0.93

  Alignments for each domain:
  == domain 1  score: 22.3 bits;  conditional E-value: 4.8e-08
                             EEEEE--SHHHHHHHHHHHHTTHHEEEEESSS CS
            FAD_binding_3  3 dVlIVGaGpaGlmlallLseaGvrvvlvekrs 34
                              VlI+GaGpaGl+l+  L ++ v+ +++e+ +
  PHY93_01900|PHY93_01900  8 RVLIIGAGPAGLTLGYYLNKYNVDYLILEQSD 39
                             69***************************876 PP

>> Thi4  Thi4 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.0   9.3e-08   0.00013      16      55 ..       5      43 ..       1     105 [. 0.86
   2 ?   -2.0   0.1       1.3   1.7e+03      93     119 ..     231     257 ..     223     267 .. 0.70

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 9.3e-08
                             TEEEEEEE--SHHHHHHHHHHHHCTTS-EEEEESSSS--T CS
                     Thi4 16 aesDvvivGaGssGLtaayylakkpdlkvailersvspGG 55
                             +++ v+i+GaG++GLt +yyl k  ++  +ile+s  +G 
  PHY93_01900|PHY93_01900  5 INQRVLIIGAGPAGLTLGYYLNKY-NVDYLILEQSDKVGS 43
                             56789******************9.********9977654 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 1.3
                              ESEHHHHHHHHHHHHHTSTTEEEEESE CS
                     Thi4  93 vkdaalftstllskvlqlanvkllnav 119
                               k+a ++   + +k++ + +vk++  +
  PHY93_01900|PHY93_01900 231 LKEAREVPMHISAKTIIKKQVKVFGDI 257
                              566777777777777777777777543 PP

>> HI0933_like  HI0933-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.7   0.0   1.4e-05     0.019       2      37 ..       8      43 ..       7      45 .. 0.95
   2 !    5.7   0.0    0.0038       5.2     106     168 ..      77     137 ..      55     139 .. 0.82
   3 ?   -2.3   0.0         1   1.4e+03     214     359 ..     258     283 ..     224     307 .. 0.47

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1.4e-05
                             SEEEE--SHHHHHHHHHHHHTT--EEEE-SSSSS-H CS
              HI0933_like  2 dviviGgGaAGlmaAisaakrgkrVlllekakklgr 37
                             +v++iG+G+AGl     ++k + + l+le+ +k+g+
  PHY93_01900|PHY93_01900  8 RVLIIGAGPAGLTLGYYLNKYNVDYLILEQSDKVGS 43
                             699******************************995 PP

  == domain 2  score: 5.7 bits;  conditional E-value: 0.0038
                              .-CHHHHHHHHHHHHHHT-EEE-S--EEEEECETTE.EEEEE.TTEEEEESEEEE----SS-G CS
              HI0933_like 106 dkaedivdallkelkeagvklrletevksvekeedgkfrvktkseeeleadklvlAtGGlSiP 168
                              ++a+d  + l+   +  + k++++++v +++ke+++ f v+t + +e++a  +v   G  S+P
  PHY93_01900|PHY93_01900  77 HSAKDFAQYLEDFSSIHQLKIKTHNKVLDIAKENNQ-FIVRT-QIDEYKAVLVVDCRGYFSFP 137
                              4799999999999999**************997777.*****.89999988887777777766 PP

  == domain 3  score: -2.3 bits;  conditional E-value: 1
                              EEEEEE...ECTTEEEEEEEEE-SSEEESHHHHHHTTT-......-TT--EEEECSTTS-...HHHHHHHHHHHTTTSBHHHHHTT CS
              HI0933_like 214 lkavvlslkkkkkatekgellfThrGlsGpailqlSsyvakalekkeeetleidllPdldaeelkaalekekekeskkslknalae 299
                              +k ++ +++ ++++ ++ ++                                                                  
  PHY93_01900|PHY93_01900 258 VKIENKKVHFTCGTIQEIDA------------------------------------------------------------------ 277
                              33333333223333333333.................................................................. PP

                              TS-HHHHHHHHHC..TTT-TTBGGG--HHHHHHHHHHHHSEEE--SEE--TTT-SEEEEE CS
              HI0933_like 300 llpkrlvevlleealieeedkklaqlskkelkklaealkaltvkvngteglrkaevTaGG 359
                                                                                    +v a G
  PHY93_01900|PHY93_01900 278 ------------------------------------------------------IVFATG 283
                              ......................................................333333 PP

>> Lycopene_cycl  Lycopene cyclase protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.0   2.1e-06    0.0029       2     144 ..       9     136 ..       8     163 .. 0.79

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 2.1e-06
            Lycopene_cycl   2 vvviGaGpAglslAarlteakpglkvvlieaspsllfpnnyvWsdefedlgaleecvehsWsgtivylddgkkillgraYgrvssk 87 
                              v++iGaGpAgl l   l  +k+++  +++e s+++      +W      l      + + W+  ++  +d k  + +   +  s k
  PHY93_01900|PHY93_01900   9 VLIIGAGPAGLTLGYYL--NKYNVDYLILEQSDKV----GSSWTQMPDHLH-----LITYWKSNCLLDEDLKLFDPD---KIHSAK 80 
                              89***************..***************9....568888888887.....556799999877776666666...555567 PP

            Lycopene_cycl  88 rlkeellerlv.engvklleakvesveeeeageslvvleggrkirarlvvdarglasl 144
                              ++++ l+     ++  + ++ kv  +++e++  + +v     + +a lvvd rg +s 
  PHY93_01900|PHY93_01900  81 DFAQYLEDFSSiHQLKIKTHNKVLDIAKENN--QFIVRTQIDEYKAVLVVDCRGYFSF 136
                              7877777644446777788889999999888..5666666667899999999998775 PP

>> Pyr_redox  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.2   0.0   3.6e-05      0.05       1      35 [.       8      42 ..       8      51 .. 0.93
   2 ?   -0.9   0.0       1.8   2.5e+03      41      72 ..      81     112 ..      77     121 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 3.6e-05
                             EEEEECSSHHHHHHHHHHHHTTSEEEEEESSSSSS CS
                Pyr_redox  1 kvvvvGgGyiglElAgalaelgkkVtvversdkll 35
                             +v+++G+G  gl l+ +l++++ +  ++e sdk+ 
  PHY93_01900|PHY93_01900  8 RVLIIGAGPAGLTLGYYLNKYNVDYLILEQSDKVG 42
                             79******************************997 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 1.8
                              HHHHHHHHHHHHTTEEEECSEEEEEEEEETTS CS
                Pyr_redox  41 easkilqeklekngievllntkveeiegsedg 72 
                              +++++l++  + +  ++ +++kv  i +++++
  PHY93_01900|PHY93_01900  81 DFAQYLEDFSSIHQLKIKTHNKVLDIAKENNQ 112
                              56666777667778889999999999988876 PP

>> FAD_binding_2  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   2.4e-05     0.034       2      36 ..       9      43 ..       8      48 .. 0.93
   2 ?   -1.3   0.0      0.63   8.7e+02     157     200 ..     236     283 ..     215     300 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 2.4e-05
                             EEEE--SHHHHHHHHHHHHTTT-EEEEESSSGGGS CS
            FAD_binding_2  2 viViGsGlAGLaAAleaaeaGlkvavvekeqefgg 36
                             v++iG+G AGL+ ++ +++ + + +++e+ +++g+
  PHY93_01900|PHY93_01900  9 VLIIGAGPAGLTLGYYLNKYNVDYLILEQSDKVGS 43
                             9*****************************99887 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 0.63
                              EEEESEEEEEEEECTTEEEEEEEEETTTTCEE...EEEES.EEEE--- CS
            FAD_binding_2 157 dfqerteadeLivedgrvtGavvenpesgrev...rirak.avvlatg 200
                              ++  +++a+++i ++ +v G++v+ ++++  +   +i+ + a+v atg
  PHY93_01900|PHY93_01900 236 EVPMHISAKTIIKKQVKVFGDIVKIENKKVHFtcgTIQEIdAIVFATG 283
                              555567888999988899999999666665557877888877777776 PP

>> NAD_binding_9  FAD-NAD(P)-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00013      0.18       2      99 ..      11     122 ..      10     127 .. 0.78
   2 ?   -0.2   0.0      0.63   8.7e+02     133     154 ..     262     283 ..     232     285 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00013
            NAD_binding_9   2 ivGaGprGlavlerLlarakkkspleitlfdpsepgagrvwrtdqseelllNvpasemslftddp..........ptfaeWlrerg 77 
                              i+GaGp+Gl++   L +      +++  + ++s    g+ w +  ++ +l+ +  s+  l +d +          ++fa++l++ +
  PHY93_01900|PHY93_01900  11 IIGAGPAGLTLGYYLNKY-----NVDYLILEQSDKV-GSSWTQMPDHLHLITYWKSNCLLDEDLKlfdpdkihsaKDFAQYLEDFS 90 
                              9***********999887.....69*******9999.9*******9*****99999999988888999999999999999999887 PP

            NAD_binding_9  78 a........lee...aeeldpddfvpRalyGrY 99 
                                       + +     + + ++f+ R  + +Y
  PHY93_01900|PHY93_01900  91 SihqlkiktH-NkvlDIAKENNQFIVRTQIDEY 122
                              7555554331.1333223345566666655555 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.63
            NAD_binding_9 133 gqavlladgaslaadaVvLAlG 154
                              + +v+ + g+  ++da+v A+G
  PHY93_01900|PHY93_01900 262 NKKVHFTCGTIQEIDAIVFATG 283
                              346888999999*********9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (342 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       568  (0.0316805); expected 358.6 (0.02)
Passed bias filter:                      412  (0.0229795); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.60u 0.31s 00:00:00.90 Elapsed: 00:00:00.47
# Mc/sec: 2178.63
//
Query:       PHY93_01905|PHY93_01905  [L=327]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.8e-29  101.0  13.6    1.1e-28  100.6  13.6    1.1  1  LPG_synthase_TM  Lysylphosphatidylglycerol synthase TM region


Domain annotation for each model (and alignments):
>> LPG_synthase_TM  Lysylphosphatidylglycerol synthase TM region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  100.6  13.6   6.4e-33   1.1e-28       3     301 .]      16     292 ..      11     292 .. 0.85

  Alignments for each domain:
  == domain 1  score: 100.6 bits;  conditional E-value: 6.4e-33
          LPG_synthase_TM   3 lglalsalllalllrgvdlaalaaalrsldpwwlllalllallsvllralrWrlllrslgarislrrllrayliglfvnnvtPgal 88 
                              l+ al+++l +++      +a ++ ++s+   ++ l +++++l +ll ++   + lr+ +  ++l   + + ++++++n+++P++ 
  PHY93_01905|PHY93_01905  16 LSAALLVGLGYYV---QKNSASFEKIKSIKLSLIFLLIGIHALNYLLLGITHFYPLRKHNIFLKLKEWYGLCTVSELFNMLLPAKG 98 
                              4556666677777...444888888999999999999999**********999********************************7 PP

          LPG_synthase_TM  89 gGevvrayllkrkegvslskalasvvverlldllalvllgllallllggllaegaavllllalallllavlalllllllrr.rlar 173
                               G ++r++++++k+g++  + l++ ++  l +   l+++g +   ++++++      l+++al  l++a+++  ++l++    l+r
  PHY93_01905|PHY93_01905  99 -GTAIRMMYINEKKGLPIREFLSMALAVVLTGFSLLGIVGTIYCHFFLQKH-----NLVFVALESLFIALTISSFILIFASeLLTR 178
                              .*************************9999999999999999998888887.....455555555555555555555555404445 PP

          LPG_synthase_TM 174 larvlkrlarllarfarklasakrklvlasprrlllafllslliwllealtlylllralgvdvslallllillaltlvgalpplPg 259
                              l +  ++  ++               +l++++ +l+++++++++++l+   +yl ++a+g++++l  ++ i l+l++ +   +lPg
  PHY93_01905|PHY93_01905 179 LFKMERKYSPK--------------KYLTDKKIVLISLFCYMGMFVLYPIKIYLSFKAIGIHIHLIDSFEISLILLASSFFQVLPG 250
                              55555555443..............35889999***************************************************** PP

          LPG_synthase_TM 260 GlGvrEaalalllallGvsaaealaaallyrlitlylllllG 301
                              ++Gv E+a+a + + +G+  ++al+a+l++r+i l++l ++G
  PHY93_01905|PHY93_01905 251 NIGVKEVATAYIAQQYGIQFETALLASLVDRAILLLFLFPFG 292
                              ***********************************9988776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (327 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       849  (0.0473534); expected 358.6 (0.02)
Passed bias filter:                      345  (0.0192426); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.27s 00:00:00.84 Elapsed: 00:00:00.47
# Mc/sec: 2097.92
//
Query:       PHY93_17030|PHY93_17030  [L=178]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (178 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       671  (0.0374254); expected 358.6 (0.02)
Passed bias filter:                      256  (0.0142785); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.26s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 1208.13
//
Query:       PHY93_01910|PHY93_01910  [L=206]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (206 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       675  (0.0376485); expected 358.6 (0.02)
Passed bias filter:                      556  (0.0310112); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.26s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1389.91
//
Query:       PHY93_01915|PHY93_01915  [L=323]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.12   12.6   0.1       0.25   11.5   0.1    1.5  1  DUF4119   Domain of unknown function, B. Theta Gene descripti


Domain annotation for each model (and alignments):
>> DUF4119  Domain of unknown function, B. Theta Gene description (DUF4119)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   1.4e-05      0.25      32      75 ..     272     314 ..     244     320 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 1.4e-05
                  DUF4119  32 ekRtgltGdekelltvyLrkfeegdvhvkyskkLkdLakyiydk 75 
                              +kR    Gd+ +++ v Lrk  +g+ + + skkL ++a+ +++k
  PHY93_01915|PHY93_01915 272 NKRVLARGDKGNMFFVDLRKLSQGYKFDP-SKKLPNIADRLMEK 314
                              6788889********************87.799****9988876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (323 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       486  (0.0271069); expected 358.6 (0.02)
Passed bias filter:                      406  (0.0226449); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.27s 00:00:00.77 Elapsed: 00:00:00.44
# Mc/sec: 2226.92
//
Query:       PHY93_01920|PHY93_01920  [L=395]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    9.3e-62  209.3  28.6    9.3e-62  209.3  28.6    2.0  2  Voltage_CLC  Voltage gated chloride channel
  ------ inclusion threshold ------
      0.054   13.4   4.5        0.9    9.4   0.4    3.1  2  EptA_B_N     Phosphoethanolamine transferase EptA/EptB


Domain annotation for each model (and alignments):
>> Voltage_CLC  Voltage gated chloride channel
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.1   1.2    0.0013        12     162     212 ..       7      54 ..       2      55 .. 0.74
   2 !  209.3  28.6     1e-65   9.3e-62       2     353 ..      50     381 ..      49     382 .. 0.95

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.0013
                              GGHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHCHHHHHHH.HHHHHHHH CS
              Voltage_CLC 162 lelilfvllGilgGllgalfvrlllkverlfrkleklkikkrl.epalvgll 212
                              ++ +l +l+G+++G ++++f  ++ ++ +++r      ++ +l +p++++l+
  PHY93_01920|PHY93_01920   7 KWTLLSILVGVMAGTASYAFLISVNAAIEYRRAH----QWIVLfLPIAGVLV 54 
                              567899**************99999888866654....56566355555443 PP

  == domain 2  score: 209.3 bits;  conditional E-value: 1e-65
                              HHHHHHHCCCCC-GGGSC-SHHHHHHHCTTSS---HHHHHHHHHHHHHHHHCTT-S-BTHHHHHHHHHHHHHHHHHHTT.--SHHH CS
              Voltage_CLC   2 ggllagllvklvapeaagsGipevkaalngvkgplslrvllvkflasvltvgsGlslGreGplvqiGAavgsglsrllklsrndrd 87 
                              +g+l+++++ ++    +  G + + + ++ +k++++lr++++ f + v+++ +G+s+GreG++vq++A +  ++s+ +  + n+ +
  PHY93_01920|PHY93_01920  50 AGVLVAWFYSRF-GVDVDGGNNLILDEIHDPKKHIPLRMAPMIFASAVISHFFGASVGREGAAVQMSAGLSDQFSKYFGGYFNN-R 133
                              7899********.99**************************************************************9877788.8 PP

                              HHHHHHHHHHHHHHHHT-HHHHHHHHCTT.TSTSS--TTHHHHHHHHHHHHHHHHHHCTTS-S-.T---...--GGGHHHHHHHHH CS
              Voltage_CLC  88 rrlvaaGaAAGiAAaFnaPlgGvlfalEe.vsrefslrallpvfvasvvaalvlrlllgeepafgeveslfalsllelilfvllGi 172
                              ++++++G++AG+A++F++P++G++f++E+  +++++++al+p++vas+++++++  l  +++++g   ++++lsl  ++ +++ Gi
  PHY93_01920|PHY93_01920 134 KIILMMGMSAGFASIFGTPIAGTIFGMEIlFLGSVTYEALFPCLVASIIGYFTAMTLGISYAHYGP-IEIPSLSLVRILSAAAAGI 218
                              99***************************7779************************999999995.45678************** PP

                              HHHHHHHHHHHHHHHHHHHHHCHHCHHHHHHHHHHHHHHHHHHHCCCSCC..CSSSSCCHHHHHCTT-S-HHHHHH...HHHHHHH CS
              Voltage_CLC 173 lgGllgalfvrlllkverlfrkleklkikkrlepalvgllvgllglllpa.svlgggyeliasllegstlllsllllllllllkll 257
                              ++Gl++ +f++ll++v+ ++ k+     +++++p+++g++v+l  +++ + ++++ g+e i++ + ++       +l + ++ k++
  PHY93_01920|PHY93_01920 219 CFGLVARFFIWLLHFVKDFLAKK---CPNPIYRPFFGGVIVILFFYIFGTdRYQSLGEEIINASFIKH-------ILPWDFIGKIF 294
                              ******************99987...445788****************9889*999999999988774.......78899****** PP

                              HHHHHHCTT-CSBSHHHHHHHHHHHHHHHHHHHHHH-CTSSC...HHHHHHCCTHHHHHCCS-HHHHHHHHHHCC--GCCHHHHHH CS
              Voltage_CLC 258 ataltlgsgvpgGifaPsLviGAalGrlvglvlalllpgaassdpgafalvGmaaflagvtrapltaiviviEltgdlelllplml 343
                              +t++++gsg+ gG ++ +++iGA+lG++++++l l +p        ++a++G+++++ag++++p+++i++++ l+g  e+ ++  +
  PHY93_01920|PHY93_01920 295 MTTMSVGSGFRGGEVMSLFYIGATLGNALSFILPLSIP--------LLAALGFVSVFAGASNTPIACIFLALKLFG-SEIGVYAGI 371
                              *********************************99955........9*****************************.9******** PP

                              HHHHHHHHHC CS
              Voltage_CLC 344 avliAkavad 353
                              a+++++++++
  PHY93_01920|PHY93_01920 372 AIVVSYLFSG 381
                              ******9985 PP

>> EptA_B_N  Phosphoethanolamine transferase EptA/EptB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4   0.4    0.0001       0.9       3      44 ..      25      66 ..       6      69 .. 0.93
   2 ?    4.2   0.3     0.004        36      68     144 ..     214     293 ..     205     299 .. 0.85

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.0001
                             HHHHHHHHHH--TTTHHHHHHHHHHHHHHHHHHHHHS----S CS
                 EptA_B_N  3 aalllllsllslryllkpllilllllsaaasYfmdtYgvvid 44
                             a+l+ + + + +r+ +++++++l + ++++++f +++gv +d
  PHY93_01920|PHY93_01920 25 AFLISVNAAIEYRRAHQWIVLFLPIAGVLVAWFYSRFGVDVD 66
                             67777888999****************************887 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.004
                              HHHHHHHTHHHHHHHHH-EE----HHHHHHHHH.HHHHHHHHHHHHHHHTTHHHHHHHHHH..-TTGGGGSTTHHHHHHH CS
                 EptA_B_N  68 llyllllgvlPallllrvkikrksllkellkrl.alllvallvivlvallfykdyaslfRn..nkelrylinPtnyiysl 144
                              ++  +++g++  +++++++  +  l k+  + +   ++ +++vi++++++ +  y sl+ +  n +  ++i+P+ +i  +
  PHY93_01920|PHY93_01920 214 AAAGICFGLVARFFIWLLHFVKDFLAKKCPNPIyRPFFGGVIVILFFYIFGTDRYQSLGEEiiNASFIKHILPWDFIGKI 293
                              5667899*************988888888888889999999999999999999999999985567899999999998766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (395 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       691  (0.0385409); expected 358.6 (0.02)
Passed bias filter:                      299  (0.0166769); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.62u 0.25s 00:00:00.87 Elapsed: 00:00:00.47
# Mc/sec: 2514.29
//
Query:       PHY93_01925|PHY93_01925  [L=91]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0088   16.1   0.0      0.014   15.5   0.0    1.2  1  HemN_C    HemN C-terminal domain
  ------ inclusion threshold ------
      0.026   14.5   0.0      0.043   13.8   0.0    1.3  1  DUF3042   Protein of unknown function (DUF3042)


Domain annotation for each model (and alignments):
>> HemN_C  HemN C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   1.5e-06     0.014       9      52 ..       7      49 ..       5      51 .. 0.92

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.5e-06
                   HemN_C  9 EeiilgLRlreGldlaafeqrfgldleellaaaleklqeqGLLe 52
                             E ++l +  + +l  +a++q++  +l ++ +++le+++e+G+L+
  PHY93_01925|PHY93_01925  7 EKVMLSIFIHGELHASAIAQQHKTSLDPI-KKQLERFEEAGFLT 49
                             7889999999999************9999.************97 PP

>> DUF3042  Protein of unknown function (DUF3042)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   4.8e-06     0.043      20      43 ..      21      44 ..      18      50 .. 0.92

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 4.8e-06
                  DUF3042 20 agavfvfKkkviePiEekeakiee 43
                             a+a +  +k+ ++Pi+++ +++ee
  PHY93_01925|PHY93_01925 21 ASAIAQQHKTSLDPIKKQLERFEE 44
                             7888999****************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (91 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       455  (0.0253779); expected 358.6 (0.02)
Passed bias filter:                      365  (0.0203581); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.27s 00:00:00.72 Elapsed: 00:00:00.46
# Mc/sec: 599.07
//
Query:       PHY93_01930|PHY93_01930  [L=765]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
      0.014   15.2   0.0        3.1    7.6   0.0    3.1  3  SnoaL           SnoaL-like polyketide cyclase
      0.088   13.3   0.1       0.35   11.4   0.1    2.0  2  Chloroa_b-bind  Chlorophyll A-B binding protein


Domain annotation for each model (and alignments):
>> SnoaL  SnoaL-like polyketide cyclase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0      0.72   6.5e+03      65     102 ..     362     399 ..     344     401 .. 0.69
   2 ?    7.6   0.0   0.00035       3.1      68     102 ..     453     487 ..     435     500 .. 0.88
   3 ?    3.7   0.0    0.0056        50      77     111 ..     559     596 ..     556     603 .. 0.90

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 0.72
                              EEETTEEEEEEEEEEEESSEBTTBE-TT-EEEEEEEEE CS
                    SnoaL  65 vaegdkvaarltftGthtgeflGipptGkkvkfeeitl 102
                              v ++d  +a  +++G ++g  + ++++  +++ + +t+
  PHY93_01930|PHY93_01930 362 VYSKDGLVASSSVSGDFKGSEISVKVKTEAMDGQINTF 399
                              44568899999999999998887777777777766665 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.00035
                              TTEEEEEEEEEEEESSEBTTBE-TT-EEEEEEEEE CS
                    SnoaL  68 gdkvaarltftGthtgeflGipptGkkvkfeeitl 102
                               +k+aa + ++G +t++ +G+pp+  +v+++ i++
  PHY93_01930|PHY93_01930 453 SKKAAAAAIVKGEPTKASMGLPPSSVNVEWSSINI 487
                              479999***********************999876 PP

  == domain 3  score: 3.7 bits;  conditional E-value: 0.0056
                              EEEEESSEBTTBE-...TT-EEEEEEEEEEEEETTEEE CS
                    SnoaL  77 ftGthtgeflGipp...tGkkvkfeeitllrvedGkIv 111
                              ftGt+tg++ G++    +Gk+  +  +++   + G+I+
  PHY93_01930|PHY93_01930 559 FTGTFTGKVNGTATmfkNGKPALYDVNVVADAKKGEIK 596
                              9**********777777******************997 PP

>> Chloroa_b-bind  Chlorophyll A-B binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0      0.51   4.6e+03      80     116 ..       9      48 ..       4      86 .. 0.69
   2 ?   11.4   0.1   3.9e-05      0.35      76     156 ..      90     162 ..      54     165 .. 0.73

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.51
                              HHHHH.HHHHHHHHHHHHHHHHHHSTTCSS....-SSSSSS CS
           Chloroa_b-bind  80 ptllalqillligflelareqelkapeseg....eeekrgy 116
                               ++++++il+l g l ++ +++lk +e  +    e++k+ +
  PHY93_01930|PHY93_01930   9 LGIVLAVILVLLGGLLYYASTKLKPSEI-KritiEQTKKVF 48 
                              5666778899999998887777754332.246665555554 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 3.9e-05
                              SS-HHHHHH.HHHHHHHHHHHHHHHHHHSTTCSS-SSSSSSSSHCHHSTTSTT.TSHHHHHHHHHHHHHHHHHHHHHHHHH CS
           Chloroa_b-bind  76 alsvptllalqillligflelareqelkapesegeeekrgypGglgfdplglakkdeeekaelkekEiknGRlAMiaflgf 156
                               + v+ + +++il+  g++e+++ + l++  +          G+++   +g +kk++eek+  +ekE k GR A  a+  f
  PHY93_01930|PHY93_01930  90 DQLVVKVPVWAILTGSGVIEVKLDAPLVNYHE-------FAEGNNWTYAMG-DKKTPEEKKAEEEKEKKEGRGASSALGIF 162
                              44566777889999999999998888876544.......446777666666.679******************98777655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (765 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       823  (0.0459033); expected 358.6 (0.02)
Passed bias filter:                      470  (0.0262145); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.72u 0.29s 00:00:01.01 Elapsed: 00:00:00.47
# Mc/sec: 4856.93
//
Query:       PHY93_01935|PHY93_01935  [L=346]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.2e-63  214.9   0.0    1.4e-63  214.7   0.0    1.0  1  IF-2B     Initiation factor 2 subunit family


Domain annotation for each model (and alignments):
>> IF-2B  Initiation factor 2 subunit family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  214.7   0.0   8.1e-68   1.4e-63       2     282 .]      47     335 ..      46     335 .. 0.95

  Alignments for each domain:
  == domain 1  score: 214.7 bits;  conditional E-value: 8.1e-68
                              S-SHHHHHHHHHHHHHHHHHHCCCSTHHHHHHHHHHHHHHHHTSSTS-HHHHHHHHHHHHHHHCCTTTSSHHHHHHHHHHHHHHHH CS
                    IF-2B   2 vrGspaiaiaalevllevikdaktskvaeLkeelrkaidlLkkarPtavslgnairrllkeiselksssdvkeakksliekikeli 87 
                              vrG+p i+ +++ +++ ++k       a+  e+ ++a+++Lk+arPtav+l   i+r+ +       ++++++   +l++++k+ +
  PHY93_01935|PHY93_01935  47 VRGAPLIGFTGIWGMALFVKHNP---KAT-FEQFERAAEYLKSARPTAVNLAFEIDRCVE---MARLETHMSALYPKLVQHAKTEM 125
                              79999999999999999999887...444.47899************************9...55788999999999999999999 PP

                              HHHHHHHHHHHHHHHTTC.....-TTEEEEEES--SH........HHHHHHHHHHTTEEEEEEEEEXTTTTHH.HTHHHHHHHTTX CS
                    IF-2B  88 keieeadekigdiaaeli.....kdgdtilTicnskt........vlevlraaakekkkfkVivvEsrPrlqG.rltakeLvqagi 159
                              ++  e++  ++++a+  +         +++Ticn+++        +l+v++++ ++kk   V++ E+rP+lqG rlt  eL ++gi
  PHY93_01935|PHY93_01935 126 NNLYEKNLSMAKFAEAELqkiygDRPLNVMTICNTGVlacgvlgtALGVIIHLNNQKKVKMVYASETRPYLQGsRLTSFELLKEGI 211
                              9999999999999999997778777899********************************************************** PP

                              EEEEEEGGGHHHHHHC.TESEEEEEXSEEETTSEEEEETTHHHHHHHHHHTTXEEEEEXXGGGBESTSSSGGGSSXXBEXTHHHHE CS
                    IF-2B 160 pvtlitdsavayvmse.evdkvivGAdrilenGaiankiGTsslAvlAkefnipvlvvaeslkfservqldedifieerdpeelln 244
                              +  +++  a++y+m++  vd+++ GAdri+enG++ankiGTssl+++Ak   ip++ va+++ f+ +++++++i ie+rd+ e+l 
  PHY93_01935|PHY93_01935 212 DHRIVVEGAASYLMRNkLVDAIFAGADRIVENGDTANKIGTSSLSIIAKYYGIPFYIVAPTSSFDLNLKTGDQIEIELRDQSEILK 297
                              ****************99******************************************************************** PP

                              ETTEESSTTTEEEEEBSEEEEEGGGXSEEEETTEEEXC CS
                    IF-2B 245 itgeriaeeelkvvnpafDvtPpelItliITevGvlpp 282
                              +++++ia+ + k +np fDvt +  It+iI+e Gv++p
  PHY93_01935|PHY93_01935 298 FKEHNIAHPDAKALNPSFDVTDHTCITGIICENGVIAP 335
                              ***********************************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (346 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       531  (0.0296168); expected 358.6 (0.02)
Passed bias filter:                      472  (0.0263261); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.25s 00:00:00.80 Elapsed: 00:00:00.45
# Mc/sec: 2329.39
//
Query:       PHY93_01940|PHY93_01940  [L=304]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.5e-37  129.6   0.1      3e-37  128.6   0.1    1.4  1  Ppx-GppA  Ppx/GppA phosphatase family


Domain annotation for each model (and alignments):
>> Ppx-GppA  Ppx/GppA phosphatase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  128.6   0.1   1.7e-41     3e-37      13     279 ..      31     295 ..      16     298 .. 0.88

  Alignments for each domain:
  == domain 1  score: 128.6 bits;  conditional E-value: 1.7e-41
                              EEEEEEE--CCCCCHCCSSC-HHHHHHHHHHHHHHHHHCCCTTG..CCEEEEEEHHHHHSTTHHHHHHHHCCCCSS-EEEE-HHHH CS
                 Ppx-GppA  13 varekrkvrLaeglnesgrlqeeaiertisaLkefaellqkfkv..envrvVATsalRdavNadeFlarvkkevglkveiisgeeE 96 
                              + +   +++L++ l+++ ++ ++ ++ t++aL+++++ l+k+k+     +v AT+a R a Na+eF a++kke+g  v +i+ + E
  PHY93_01940|PHY93_01940  31 ILNLSYITSLGKDLDKTKKFHPDSMKATYEALADYKNQLEKIKInpRDTIVTATEASRVATNATEFYAKIKKELGFSVRLITSKGE 116
                              566677899*******************************999887999************************************* PP

                              HHHHHHHHHHHT.---SSEEEEEEETTEEEEEEEET..TEEEEEEEES--CCHHHHHHSGCCC--HHHHHHHHHHHHHHCTTTHHH CS
                 Ppx-GppA  97 arliylgvvssl.lekgrglviDiGGGStElvlgee..kevsklvSlplGavrlterfltddpltkeeveaarkavekeleevkde 179
                              a +++lgvvs + +++ + ++ DiGG+StEl+ ++   +++ + vSlp+G vr t +++ +   ++++ + + +      + +  +
  PHY93_01940|PHY93_01940 117 AHYTALGVVSGIeSSDSELVIMDIGGASTELIRIQIdpFKILSTVSLPVGSVRGT-DWRVELSFDEKMESLLNQ----DFSSYFTK 197
                              *******************************98755569**************77.455555555555444444....45555444 PP

                              HCCCE.HHCCCCCCCHCCHHCHHHHHHCT.SSCEEEHHHHHHHHHHHCTSSCHHHHHSTTS-CCHHCTHHHHHHHHHHHHHHCT-S CS
                 Ppx-GppA 180 vkkeg.ewtrlvgtsgtisalaeltelhgekgyeitaeeleeliekllqlkkeeelklagvsdeRadvivagalilsavlealeie 264
                                + +    + ++++ +++ +++ ++  g    +i+   ++e+++ l +   e+ l l++   +Ra ++ aga i++ + e l+ie
  PHY93_01940|PHY93_01940 198 SLICVaGSMTSLAAMFMGHNVYDDKKIDG---LTISFSSFKEFSKDLQNTSVENLLLLFPHLGKRAPMVAAGATIAEMISEKLKIE 280
                              44444448899999999999999999999...*******************999******************************** PP

                              EEEEES--HHHHHHH CS
                 Ppx-GppA 265 aviisegalrEGvly 279
                               ++is ++lr G l+
  PHY93_01940|PHY93_01940 281 NIKISTRGLRYGTLI 295
                              ***********9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (304 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       741  (0.0413297); expected 358.6 (0.02)
Passed bias filter:                      594  (0.0331307); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.60u 0.28s 00:00:00.88 Elapsed: 00:00:00.48
# Mc/sec: 1894.77
//
Query:       PHY93_01945|PHY93_01945  [L=154]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.7e-16   58.1   0.0      1e-15   57.6   0.0    1.2  1  cNMP_binding  Cyclic nucleotide-binding domain
  ------ inclusion threshold ------
      0.046   14.1   0.1       0.17   12.2   0.0    1.9  2  DUF4258       Domain of unknown function (DUF4258)


Domain annotation for each model (and alignments):
>> cNMP_binding  Cyclic nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.6   0.0   1.1e-19     1e-15       4      87 ..      16      98 ..      13      99 .. 0.92

  Alignments for each domain:
  == domain 1  score: 57.6 bits;  conditional E-value: 1.1e-19
                             E-TT-EEE-TTSB-SEEEEEEES-EEEEEEETTS.EEEEEEE-TTEEESHHHHHHTS--SSEEEESSTEEEEEEEHHHHHHHHH CS
             cNMP_binding  4 fkagevifrqGdpadslyivlsGevrvyrlsedgkevvlavlgpGdlfGelalltgeprtatvvAltdsellalprddflellq 87
                             fkag+vif  G+pa++lyi+++Ge+r+ ++++   + v++  ++++++ e+++lt++p+   ++A+td+el+ ++ +d+l++++
  PHY93_01945|PHY93_01945 16 FKAGTVIFDSGEPAKYLYILKKGEIRLLKVNGPHLS-VIKLCREKEILNEVSVLTHKPSEFAAIAKTDVELVLVEEKDILSVIK 98
                             9**************************655555555.*****************************************999886 PP

>> DUF4258  Domain of unknown function (DUF4258)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.0      0.26   2.4e+03      21      35 ..      33      40 ..      17      66 .. 0.62
   2 ?   12.2   0.0     2e-05      0.17      16      43 ..      90     145 ..      88     154 .] 0.81

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.26
                  DUF4258 21 evlenGeiieeyslv 35
                             ++l++Ge       +
  PHY93_01945|PHY93_01945 33 YILKKGE-------I 40
                             4555555.......2 PP

  == domain 2  score: 12.2 bits;  conditional E-value: 2e-05
                  DUF4258  16 eedieevlenG...................eiieeys.........lvlgktsegr 43 
                              e+di++v++nG                   +iiee++          +l k++e  
  PHY93_01945|PHY93_01945  90 EKDILSVIKNGaswipqifetlcdrlkstqDIIEEHNlsageknsdMILAKDEEKG 145
                              79***************************98******7777777775566665555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (154 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       438  (0.0244297); expected 358.6 (0.02)
Passed bias filter:                      344  (0.0191868); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 1050.53
//
Query:       PHY93_01950|PHY93_01950  [L=140]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.8e-16   57.9   1.5    1.3e-15   57.5   1.0    1.4  1  FliG_C    FliG C-terminal domain
     0.0013   19.3   1.1       0.94   10.1   0.2    2.3  2  MgtE_N    MgtE intracellular N domain
  ------ inclusion threshold ------
      0.027   14.9   1.0      0.047   14.1   0.1    1.9  2  Enkurin   Calmodulin-binding


Domain annotation for each model (and alignments):
>> FliG_C  FliG C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.5   1.0   2.1e-19   1.3e-15       2     106 ..      36     140 .]      35     140 .] 0.97

  Alignments for each domain:
  == domain 1  score: 57.5 bits;  conditional E-value: 2.1e-19
                              HHHHH-HHHHHHHHHHHS-GGGGGGS-HHHHHHHHTTS-HHHHHHHHCTS-HHHHHHHHTTS-HHHHHHHHHHHHHC-S--HHHHH CS
                   FliG_C   2 sLeeedpelaeeirkkmftfedlvrlddraiqrllrevdkedLalaLkgaseelrekilsnmSkraaemlreelealgpvrlsdve 87 
                              +L+ ++p+laee+ ++ ftf dl +l d+++  +++ v++  L +aLk+ ++++++++ls   +  ae+    l++  + +++d++
  PHY93_01950|PHY93_01950  36 NLKVRNPQLAEELTEQCFTFSDLDNLADNDLMMIFQYVTAPILGMALKNIERAFQRRLLSLAGRDYAEEAFRVLKTSYATEKRDIK 121
                              7999********************************************************************************** PP

                              HHHHHHHHHHHHHHCTTSS CS
                   FliG_C  88 eaqkeivaiirrleeeGeI 106
                               aq++iv+i+  l+++ +I
  PHY93_01950|PHY93_01950 122 RAQNKIVEILVSLKKRKQI 140
                              ***********99998776 PP

>> MgtE_N  MgtE intracellular N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.1   0.2   0.00016      0.94       5      86 ..      17      38 ..      14      53 .. 0.58
   2 !    8.2   0.2   0.00064       3.8      11      68 ..      59     116 ..      44     140 .] 0.85

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00016
                             HHHHCHCCS-HHHHHHHHHHS-HHHHHHHHCTS-CCCCCHHHHCS-HHHHHHHHCCS-HHHHHHHHCCCHHHHHHHHHHCS- CS
                   MgtE_N  5 diaelleelpeeeraallrllpkeeaaevleeldedlqeeliealsdeelaelleeldsDdaadlleelpeekveellsald 86
                             +i e+l+++p eer +ll++l                                                            +
  PHY93_01950|PHY93_01950 17 QIIEMLQHMPREERSRLLKNL------------------------------------------------------------K 38
                             566666666666666666665............................................................3 PP

  == domain 2  score: 8.2 bits;  conditional E-value: 0.00064
                              CCS-HHHHHHHHHHS-HHHHHHHHCTS-CCCCCHHHHCS-HHHHHHHHCCS-HHHHHH CS
                   MgtE_N  11 eelpeeeraallrllpkeeaaevleeldedlqeeliealsdeelaelleeldsDdaad 68 
                              ++l +++   ++++++   ++ +l++++  +q++l++   +++++e++  l +  a++
  PHY93_01950|PHY93_01950  59 DNLADNDLMMIFQYVTAPILGMALKNIERAFQRRLLSLAGRDYAEEAFRVLKTSYATE 116
                              567778888899**********************************999999887776 PP

>> Enkurin  Calmodulin-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.1   7.9e-06     0.047      29      68 ..      16      55 ..       1      65 [. 0.81
   2 ?   -1.3   0.1       0.5     3e+03      40      52 ..     124     136 ..     100     139 .. 0.55

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 7.9e-06
                  Enkurin 29 keappgmrllseeerqellegLkkkweelnkeyqslplli 68
                             +++ + ++ +++eer +ll++Lk +  +l +e+ + ++++
  PHY93_01950|PHY93_01950 16 AQIIEMLQHMPREERSRLLKNLKVRNPQLAEELTEQCFTF 55
                             444578899***********************99888765 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 0.5
                  Enkurin  40 eeerqellegLkk 52 
                              +++  e+l +Lkk
  PHY93_01950|PHY93_01950 124 QNKIVEILVSLKK 136
                              2333344444544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (140 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       846  (0.0471861); expected 358.6 (0.02)
Passed bias filter:                      468  (0.026103); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.45u 0.25s 00:00:00.70 Elapsed: 00:00:00.42
# Mc/sec: 989.75
//
Query:       PHY93_01955|PHY93_01955  [L=137]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0021   18.0   3.3     0.0021   18.0   3.3    2.3  3  SWIRM-assoc_1    SWIRM-associated region 1
     0.0059   16.7   1.8       0.01   15.9   1.7    1.4  1  ChapFlgA         Chaperone for flagella basal body P-ring for
  ------ inclusion threshold ------
      0.028   14.2  20.1      0.035   13.9  20.1    1.1  1  FAM184           Family with sequence similarity 184, A and B
      0.078   13.1   9.8       0.18   11.9   1.7    2.4  2  AcylCoA_dehyd_C  Acyl-CoA dehydrogenase C terminal
       0.27   11.5  27.8        3.3    8.0  27.8    2.1  1  OmpH             Outer membrane protein (OmpH-like)
       0.33   10.9  18.0      0.046   13.7   3.6    2.0  2  Sds3             Sds3-like
       0.55   10.3   5.1          1    9.4   0.8    2.1  2  DUF1870          Domain of unknown function (DUF1870)
       0.73   10.0  27.1       0.59   10.3   7.7    2.6  2  PKK              Polo kinase kinase
       0.96    9.6  11.7       0.49   10.5   3.0    3.3  4  DUF5595          Domain of unknown function (DUF5595)
        1.2    9.3  15.7       0.11   12.7   6.5    3.1  3  Cnn_1N           Centrosomin N-terminal motif 1
        1.5    9.4   4.8        5.4    7.6   0.2    2.4  3  SRCR_2           Scavenger receptor cysteine-rich domain
          2    8.8  22.8        2.9    8.3   7.7    2.1  2  YlqD             YlqD protein
        4.9    7.8  12.0        2.8    8.6   2.9    2.4  3  DUF883           Bacterial protein of unknown function (DUF88
        9.2    6.4  15.4       0.84    9.8   1.9    3.0  3  MYO10_CC         Unconventional myosin-X coiled coil domain


Domain annotation for each model (and alignments):
>> SWIRM-assoc_1  SWIRM-associated region 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0       3.4   4.4e+03      12      22 ..      10      20 ..       4      30 .. 0.51
   2 ?   -0.6   0.4         1   1.3e+03      57      57 ..      78      78 ..      43     102 .. 0.56
   3 !   18.0   3.3   1.6e-06    0.0021      36      72 ..     101     137 .]      76     137 .] 0.86

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 3.4
            SWIRM-assoc_1 12 kvlasqeerei 22
                             + + ++e ++ 
  PHY93_01955|PHY93_01955 10 QKFMEAESKRY 20
                             44444444433 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 1
            SWIRM-assoc_1 57 e 57
                             +
  PHY93_01955|PHY93_01955 78 S 78
                             2 PP

  == domain 3  score: 18.0 bits;  conditional E-value: 1.6e-06
            SWIRM-assoc_1  36 KlelKLkqfeelEklleaerrelekqrqqLlleRlal 72 
                                e+K++q +e+E +++  ++++++++q+ + e+ ++
  PHY93_01955|PHY93_01955 101 VAEIKMSQQQEIEGMVQSHKKTIDNAKQKFVKEKNKF 137
                              469*****************************99775 PP

>> ChapFlgA  Chaperone for flagella basal body P-ring formation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   1.7   8.2e-06      0.01      65     118 ..      68     120 ..      57     123 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 8.2e-06
                 ChapFlgA  65 lVkkgqkVtiiarggglsitteGkAlenGaegdqIrVknlqSgrivkarVtgsg 118
                              lV+  ++ +  +  ++++++te++ l++++++++ ++k++q ++++++ V++ +
  PHY93_01955|PHY93_01955  68 LVEIRDRQSKSVGDENMRLQTEVENLKKAHQDQVAEIKMSQ-QQEIEGMVQSHK 120
                              555556666667789************************77.********9876 PP

>> FAM184  Family with sequence similarity 184, A and B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9  20.1   2.7e-05     0.035      70     188 ..       9     134 ..       2     137 .] 0.69

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 2.7e-05
                   FAM184  70 rqalaefeqykrrveerelkl..eaehsqkvvelsreveevkrkFeeklrqfaqlqeqle......qekekaLeelrkkhreevee 147
                               q  +e+e+ + ++e ++l +     +++   + + e++ ++ ++e k+ ++++ qeq+       q k+   e++r +   eve+
  PHY93_01955|PHY93_01955   9 AQKFMEAESKRYTTEIKQLRTdnDRGYETEAKSKESEIKRMRDDYETKIANLKNEQEQKLveirdrQSKSVGDENMRLQ--TEVEN 92 
                              5667777777777776666651156799999**********************99999877785444444445555555..99999 PP

                   FAM184 148 Llkeqeaqsekllke.qekleekhkaeveklkeeveelekek 188
                              L+k++++q ++++ + q+++e +++ + + + ++ +++ kek
  PHY93_01955|PHY93_01955  93 LKKAHQDQVAEIKMSqQQEIEGMVQSHKKTIDNAKQKFVKEK 134
                              999999999988755145665444444444444445555555 PP

>> AcylCoA_dehyd_C  Acyl-CoA dehydrogenase C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   1.7   0.00014      0.18       6      56 ..      24      74 ..      17      76 .. 0.86
   2 ?    7.8   1.2    0.0028       3.5       8      51 ..      70     113 ..      68     120 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00014
                             HHHHHTGGGS---GGGHHHHHHHHHHHHHHHHHHHHHHTT--HHHHHHHHH CS
          AcylCoA_dehyd_C  6 laqikeyeaeevseeleelkarlkemtekyeeavakVkeakdqelldflAR 56
                             ++q+++ +++ ++ e ++ ++++k+m + ye+ +a+ k++++q+l++   R
  PHY93_01955|PHY93_01955 24 IKQLRTDNDRGYETEAKSKESEIKRMRDDYETKIANLKNEQEQKLVEIRDR 74
                             5667777788899******************************99987666 PP

  == domain 2  score: 7.8 bits;  conditional E-value: 0.0028
                              HHHTGGGS---GGGHHHHHHHHHHHHHHHHHHHHHHTT--HHHH CS
          AcylCoA_dehyd_C   8 qikeyeaeevseeleelkarlkemtekyeeavakVkeakdqell 51 
                               i++ ++++v +e   l+++++++ +  ++ va++k +++qe+ 
  PHY93_01955|PHY93_01955  70 EIRDRQSKSVGDENMRLQTEVENLKKAHQDQVAEIKMSQQQEIE 113
                              68999999********************************9975 PP

>> OmpH  Outer membrane protein (OmpH-like)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0  27.8    0.0026       3.3      14     109 ..      17     134 ..       7     136 .. 0.61

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.0026
                              SHHHHHHHHHHHHHH.HHHHHHHHHHHHHHHHHHHHHHHHTTTS.-HHHHHH..................HHHHHHHHHHHHHHHH CS
                     OmpH  14 spegkaaqeqlekkf.kklqaeleakekelqklqeelqkkakklekeekeqe..................lqkkeqelqqkqqqka 80 
                              s+ + +  +ql ++  + +++e ++ke e++++++++++k ++l k+e+eq+                  lq+++++l++ + q++
  PHY93_01955|PHY93_01955  17 SKRYTTEIKQLRTDNdRGYETEAKSKESEIKRMRDDYETKIANL-KNEQEQKlveirdrqsksvgdenmrLQTEVENLKK-AHQDQ 100
                              55555555555555554566666666666666666666555555.333333333344444447889999***********.66666 PP

                              .HHHHHHHHHHHH....HHHHHHHHHHHHHHHHT CS
                     OmpH  81 .qelqkkqqellk....pildkinkaikevakek 109
                                e++  qq++++    +  + i++a +++ kek
  PHY93_01955|PHY93_01955 101 vAEIKMSQQQEIEgmvqSHKKTIDNAKQKFVKEK 134
                              6998888888666222245566666667777776 PP

>> Sds3  Sds3-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   8.5     0.066        85      34     110 ..      12      88 ..       6      89 .. 0.89
   2 ?   13.7   3.6   3.6e-05     0.046      50     100 ..      83     133 ..      74     136 .. 0.89

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.066
                     Sds3  34 lqqGthpellrklrdleeerDaeLkrlrlreeyqlkriekefkadiekakqeheklvkllkeklyeelekkikrLke 110
                               +++  +++ +++++l +  D   +  ++ +e ++kr++  ++ +i   k+e e+++ +++++  +++  +  rL+ 
  PHY93_01955|PHY93_01955  12 FMEAESKRYTTEIKQLRTDNDRGYETEAKSKESEIKRMRDDYETKIANLKNEQEQKLVEIRDRQSKSVGDENMRLQT 88 
                              56788999****************************************************99988888777777765 PP

  == domain 2  score: 13.7 bits;  conditional E-value: 3.6e-05
                     Sds3  50 eeerDaeLkrlrlreeyqlkriekefkadiekakqeheklvkllkeklyee 100
                              + + + e + l++ +++q+ +i+++ +++ie + q+h+k ++ +k+k ++e
  PHY93_01955|PHY93_01955  83 NMRLQTEVENLKKAHQDQVAEIKMSQQQEIEGMVQSHKKTIDNAKQKFVKE 133
                              5677899999***********************************998875 PP

>> DUF1870  Domain of unknown function (DUF1870)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4   0.8   0.00078         1      37      93 ..      43      99 ..      31     102 .. 0.88
   2 ?    4.2   0.3     0.032        41      49      87 ..      99     137 .]      95     137 .] 0.86

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.00078
                             HTTSS---HHHHHHHHHHHHHHHHHHHHHHHHHCCS-S--EEE--SSHHHHHTTSTT CS
                  DUF1870 37 esgalpipdeivaelkelkklrkkkieeiveklndrignstlryystlteflkvype 93
                             es+   + d  ++++ +lk+ +++k+ ei ++  +++g++ +r  ++ ++ +k +++
  PHY93_01955|PHY93_01955 43 ESEIKRMRDDYETKIANLKNEQEQKLVEIRDRQSKSVGDENMRLQTEVENLKKAHQD 99
                             666667788899***********************************9999998887 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.032
                              HHHHHHHHHHHHHHHHHHHHHCCS-S--EEE--SSHHHH CS
                  DUF1870  49 aelkelkklrkkkieeiveklndrignstlryystltef 87 
                              +++ e+k  ++++ie +v++ ++ i+n+  ++ +++++f
  PHY93_01955|PHY93_01955  99 DQVAEIKMSQQQEIEGMVQSHKKTIDNAKQKFVKEKNKF 137
                              67889999999999999*999999999999988887776 PP

>> PKK  Polo kinase kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.4  14.9      0.06        77      16     106 ..      13      95 ..       4      97 .. 0.71
   2 ?   10.3   7.7   0.00046      0.59       2      50 ..      87     135 ..      86     137 .] 0.72

  Alignments for each domain:
  == domain 1  score: 3.4 bits;  conditional E-value: 0.06
                      PKK  16 rtqlkkrydkeleqlerqqkqqiEkleqeqaqelrelpkriraEqkkelakFkesLkqekkelkqevreklkkfqrkeklrqkkee 101
                              +++  kry +e++ql+  +++ +E      a+ + +++kr+r + +++ a+ k+++ q+  e     r++ +k+   e +r + e 
  PHY93_01955|PHY93_01955  13 MEAESKRYTTEIKQLRTDNDRGYET----EAKSKESEIKRMRDDYETKIANLKNEQEQKLVE----IRDRQSKSVGDENMRLQTEV 90 
                              4556789*********999888875....566778889999*****9999877777666654....24555666666666666655 PP

                      PKK 102 leqeq 106
                               ++++
  PHY93_01955|PHY93_01955  91 ENLKK 95 
                              55554 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 0.00046
                      PKK   2 qlqkeqlkrrfeqertqlkkrydkeleqlerqqkqqiEkleqeqaqelr 50 
                              q++ e lk+ ++ +  ++k+  ++e+e + + +k++i++++q+  +e+ 
  PHY93_01955|PHY93_01955  87 QTEVENLKKAHQDQVAEIKMSQQQEIEGMVQSHKKTIDNAKQKFVKEKN 135
                              5666777777777777788888888888888888888888777777765 PP

>> DUF5595  Domain of unknown function (DUF5595)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.5   0.1      0.12   1.6e+02      54      70 ..      11      27 ..       3      30 .. 0.83
   2 ?    4.5   1.7      0.03        38      31      70 ..      35      74 ..      31      77 .. 0.80
   3 ?   10.5   3.0   0.00038      0.49      27      72 ..      49      95 ..      46      96 .. 0.91
   4 ?    0.6   0.2      0.48   6.1e+02      48      63 ..     107     122 ..      94     132 .. 0.74

  Alignments for each domain:
  == domain 1  score: 2.5 bits;  conditional E-value: 0.12
                  DUF5595 54 esleeeekrLeeEierl 70
                             + +e+e+kr ++Ei++l
  PHY93_01955|PHY93_01955 11 KFMEAESKRYTTEIKQL 27
                             5699**********987 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.03
                  DUF5595 31 FeeedaeleskLkelynvdeaqlesleeeekrLeeEierl 70
                             +e e +  es++k++   +e+++++l+ e++    Ei++ 
  PHY93_01955|PHY93_01955 35 YETEAKSKESEIKRMRDDYETKIANLKNEQEQKLVEIRDR 74
                             566666778999**************99988777777665 PP

  == domain 3  score: 10.5 bits;  conditional E-value: 0.00038
                  DUF5595 27 geDtFeeedaeleskLk.elynvdeaqlesleeeekrLeeEierlek 72
                             ++D++e   a+l+++ + +l+++ ++q +s   e+ rL++E+e+l+k
  PHY93_01955|PHY93_01955 49 MRDDYETKIANLKNEQEqKLVEIRDRQSKSVGDENMRLQTEVENLKK 95
                             79**********9998725899**********************998 PP

  == domain 4  score: 0.6 bits;  conditional E-value: 0.48
                  DUF5595  48 vdeaqlesleeeekrL 63 
                               +++++e +++ +k+ 
  PHY93_01955|PHY93_01955 107 SQQQEIEGMVQSHKKT 122
                              4678888888888875 PP

>> Cnn_1N  Centrosomin N-terminal motif 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   4.0      0.64   8.2e+02      36      66 ..      41      71 ..      11      75 .. 0.60
   2 ?   12.7   6.5   8.2e-05      0.11      25      70 ..      63     108 ..      56     112 .. 0.86
   3 ?   -0.2   0.5      0.86   1.1e+03      47      63 ..     111     127 ..      96     136 .. 0.48

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 0.64
                   Cnn_1N 36 eqkeellkenielkveveslqkelkekkkll 66
                             ++  e+ + + + ++++++l++e ++k  ++
  PHY93_01955|PHY93_01955 41 SKESEIKRMRDDYETKIANLKNEQEQKLVEI 71
                             3444455555566667777777766655555 PP

  == domain 2  score: 12.7 bits;  conditional E-value: 8.2e-05
                   Cnn_1N  25 fLeerleklseeqkeellkenielkveveslqkelkekkkllreae 70 
                              + e++l +++++q++++ +en+ l++eve+l+k  +    +++ ++
  PHY93_01955|PHY93_01955  63 EQEQKLVEIRDRQSKSVGDENMRLQTEVENLKKAHQDQVAEIKMSQ 108
                              45899999999**********************9998877777665 PP

  == domain 3  score: -0.2 bits;  conditional E-value: 0.86
                   Cnn_1N  47 elkveveslqkelkekk 63 
                              e++  v+s +k++++ k
  PHY93_01955|PHY93_01955 111 EIEGMVQSHKKTIDNAK 127
                              33333333444443333 PP

>> SRCR_2  Scavenger receptor cysteine-rich domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0       4.6   5.9e+03      58      70 ..      10      23 ..       2      34 .. 0.46
   2 ?    7.6   0.2    0.0042       5.4      37      81 ..      34      78 ..      28      88 .. 0.84
   3 ?    3.5   0.9     0.081     1e+02      47      81 ..      88     122 ..      75     132 .. 0.75

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 4.6
                   SRCR_2 58 kefvkl.ssklekl 70
                             ++f++  s++++++
  PHY93_01955|PHY93_01955 10 QKFMEAeSKRYTTE 23
                             44544422222223 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0042
                   SRCR_2 37 GyssltesksvnlsdlslnsskefvklsskleklleealqssesC 81
                             Gy+++ +sk+ +++ ++ ++++++++l++++e++l e   ++++ 
  PHY93_01955|PHY93_01955 34 GYETEAKSKESEIKRMRDDYETKIANLKNEQEQKLVEIRDRQSKS 78
                             9**************************999998888777666555 PP

  == domain 3  score: 3.5 bits;  conditional E-value: 0.081
                   SRCR_2  47 vnlsdlslnsskefvklsskleklleealqssesC 81 
                              +++++l++  ++++++++ ++++++e ++qs++++
  PHY93_01955|PHY93_01955  88 TEVENLKKAHQDQVAEIKMSQQQEIEGMVQSHKKT 122
                              56677777778888888888888888888876654 PP

>> YlqD  YlqD protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   7.7    0.0022       2.9      21      92 ..       9      80 ..       5      89 .. 0.85
   2 ?    5.2   9.2      0.02        26      20      71 ..      85     136 ..      82     137 .] 0.86

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0022
                     YlqD 21 lqqqlqaqieqldkelqqLefqakrlikeikkqsaqqieeiqeqvekekserlekkkqllqqleqvqkLelg 92
                             +q+ ++a+ ++  +e++qL+++  r  +  +k ++++i+++++ +e ++++++++++q l ++++ q+  +g
  PHY93_01955|PHY93_01955  9 AQKFMEAESKRYTTEIKQLRTDNDRGYETEAKSKESEIKRMRDDYETKIANLKNEQEQKLVEIRDRQSKSVG 80
                             6777899999****************9999999999***************999999988877766655555 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.02
                     YlqD  20 elqqqlqaqieqldkelqqLefqakrlikeikkqsaqqieeiqeqvekekse 71 
                              +lq+++++ +++ + +++++++ +++ i+ + + ++++i+++++++ kek++
  PHY93_01955|PHY93_01955  85 RLQTEVENLKKAHQDQVAEIKMSQQQEIEGMVQSHKKTIDNAKQKFVKEKNK 136
                              5788889999999999999999999999999888888999999999999987 PP

>> DUF883  Bacterial protein of unknown function (DUF883)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   0.1      0.64   8.2e+02      14      35 ..       9      30 ..       7      40 .. 0.79
   2 ?    8.6   2.9    0.0022       2.8       4      60 ..      21      77 ..      18      84 .. 0.84
   3 ?    4.1   8.7     0.056        72       4      62 ..      43     101 ..      40     135 .. 0.79

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.64
                   DUF883 14 leellkeaadeageeaeelRer 35
                             +++++++ +++   e+++lR  
  PHY93_01955|PHY93_01955  9 AQKFMEAESKRYTTEIKQLRTD 30
                             6788899999999999999976 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0022
                   DUF883  4 eaeleslladleellkeaadeageeaeelRerleerlerarerlrdaeeavaerake 60
                             + e+++l++d +   ++ a++ ++e++++R+  e ++++++++ ++   ++++r ++
  PHY93_01955|PHY93_01955 21 TTEIKQLRTDNDRGYETEAKSKESEIKRMRDDYETKIANLKNEQEQKLVEIRDRQSK 77
                             679999999999999999999999999999999999999999988887777776655 PP

  == domain 3  score: 4.1 bits;  conditional E-value: 0.056
                   DUF883   4 eaeleslladleellkeaadeageeaeelRerleerlerarerlrdaeeavaerakeaa 62 
                              e+e++ +++d e  + + ++e ++++ e+R+r ++++ +   rl+   e++++  ++ +
  PHY93_01955|PHY93_01955  43 ESEIKRMRDDYETKIANLKNEQEQKLVEIRDRQSKSVGDENMRLQTEVENLKKAHQDQV 101
                              68999***************************999998766666555554444443333 PP

>> MYO10_CC  Unconventional myosin-X coiled coil domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.0   1.0     0.041        52      15      44 ..      23      52 ..      10      63 .. 0.85
   2 ?    3.4   3.2     0.065        84      13      45 ..      43      75 ..      41      82 .. 0.90
   3 ?    9.8   1.9   0.00065      0.84       8      39 ..      82     113 ..      76     119 .. 0.89

  Alignments for each domain:
  == domain 1  score: 4.0 bits;  conditional E-value: 0.041
                 MYO10_CC 15 EIerLqrqkedqvsslceesrqelqrlRde 44
                             EI +L+   + +  +  ++   e++r+Rd+
  PHY93_01955|PHY93_01955 23 EIKQLRTDNDRGYETEAKSKESEIKRMRDD 52
                             999999999999999999999999999985 PP

  == domain 2  score: 3.4 bits;  conditional E-value: 0.065
                 MYO10_CC 13 ErEIerLqrqkedqvsslceesrqelqrlRdee 45
                             E EI r++   e+++  l +e  q+l + Rd +
  PHY93_01955|PHY93_01955 43 ESEIKRMRDDYETKIANLKNEQEQKLVEIRDRQ 75
                             789***************************987 PP

  == domain 3  score: 9.8 bits;  conditional E-value: 0.00065
                 MYO10_CC   8 EILRLErEIerLqrqkedqvsslceesrqelq 39 
                              E +RL  E+e+L++  +dqv  +  + +qe++
  PHY93_01955|PHY93_01955  82 ENMRLQTEVENLKKAHQDQVAEIKMSQQQEIE 113
                              668*****************999988888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (137 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2985  (0.16649); expected 358.6 (0.02)
Passed bias filter:                      432  (0.024095); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                        22  (0.00122706); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.66u 0.29s 00:00:00.95 Elapsed: 00:00:00.51
# Mc/sec: 802.06
//
Query:       PHY93_17035|PHY93_17035  [L=210]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.5e-15   56.6   0.0      5e-15   55.6   0.0    1.5  1  GST_N     Glutathione S-transferase, N-terminal domain
    1.6e-11   44.4   0.0    2.7e-11   43.7   0.0    1.3  1  GST_N_3   Glutathione S-transferase, N-terminal domain
    5.5e-10   39.4   0.0    3.4e-09   36.9   0.0    2.0  2  GST_N_2   Glutathione S-transferase, N-terminal domain
      5e-08   33.1   0.0    7.6e-08   32.5   0.0    1.4  1  GST_C     Glutathione S-transferase, C-terminal domain
      4e-06   26.9   0.1    6.6e-06   26.2   0.1    1.3  1  GST_C_3   Glutathione S-transferase, C-terminal domain
     0.0027   17.7   0.1     0.0056   16.7   0.1    1.5  1  GST_C_2   Glutathione S-transferase, C-terminal domain


Domain annotation for each model (and alignments):
>> GST_N  Glutathione S-transferase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.6   0.0   1.7e-18     5e-15       5      76 .]       4      81 ..       2      81 .. 0.92

  Alignments for each domain:
  == domain 1  score: 55.6 bits;  conditional E-value: 1.7e-18
                             EESSSTSHTHHHHHHHHHHTT-EEEEEEECSTTTCGGCHHHHHHCTTS-SSEEEET.......TEEEESHHHHHHHHHH CS
                    GST_N  5 lysirgsprahrirlllaakgveyevvpldfeageekspellklnplgkvPaLedn.......gkkltESraIleYiar 76
                             ly + + p+ h+i ++l+++++ey++ p+d ++g + +pe+lk+ p+ k+Pa +dn        + l+ES+aIl Y+a+
  PHY93_17035|PHY93_17035  4 LYYWTT-PNGHKISIFLEEAKAEYKIYPIDITKGDQFQPEFLKISPNNKIPAIVDNdpfdglgPLSLFESGAILIYLAE 81
                             455555.779*************************************************999889************95 PP

>> GST_N_3  Glutathione S-transferase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.7   0.0   9.1e-15   2.7e-11       1      71 [.       4      83 ..       4      87 .. 0.90

  Alignments for each domain:
  == domain 1  score: 43.7 bits;  conditional E-value: 9.1e-15
                             EES-TTSHHHHHHHHHHHHHT--EEEE--..-TTTT.HHHHHHH-TT--SSEEETTS-.......EEESHHHHHHHHHHHH CS
                  GST_N_3  1 LygfpaSpyarrvrlaLnekglpvevvev..tpgeh.deellaknplgkvPvLeddge.......altdSlaIidyLeely 71
                             Ly++++ p+  ++ ++L+e + +++++++  t+g+   +e+l+++p++k+P+++d++        +l++S aI+ yL e++
  PHY93_17035|PHY93_17035  4 LYYWTT-PNGHKISIFLEEAKAEYKIYPIdiTKGDQfQPEFLKISPNNKIPAIVDNDPfdglgplSLFESGAILIYLAEKA 83
                             899999.******************9877336899899****************9977777899*************9987 PP

>> GST_N_2  Glutathione S-transferase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.9   0.0   1.1e-12   3.4e-09       3      69 ..      10      81 ..       8      82 .. 0.87
   2 ?    0.0   0.0      0.36   1.1e+03      53      68 ..     175     190 ..     165     192 .. 0.79

  Alignments for each domain:
  == domain 1  score: 36.9 bits;  conditional E-value: 1.1e-12
                             HHHHHHHHHHHHCT--EEEEEEH...-TTSHHHHHHHHCTTTSSSEEE-..C.TTE...EEESHHHHHHHHHH CS
                  GST_N_2  3 PwahRvlialalkglediisvvvlepkgfekseefprlnprgtVPvLwd..k.dgq...vineSseIlrylet 69
                             P  h++ i+l++ + e++i ++ + +kg++  +ef++++p+ ++P+++d  + dg     + eS +Il yl++
  PHY93_17035|PHY93_17035 10 PNGHKISIFLEEAKAEYKIYPI-DITKGDQFQPEFLKISPNNKIPAIVDndPfDGLgplSLFESGAILIYLAE 81
                             788*******************.557999999*****************4425555977788*********87 PP

  == domain 2  score: 0.0 bits;  conditional E-value: 0.36
                              TTEEEESHHHHHHHHH CS
                  GST_N_2  53 dgqvineSseIlryle 68 
                              ++q +n++ eI r+++
  PHY93_17035|PHY93_17035 175 QSQDLNDFPEIKRWFD 190
                              5567899999999998 PP

>> GST_C  Glutathione S-transferase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.5   0.0   2.5e-11   7.6e-08      29      93 .]     135     196 ..     110     196 .. 0.92

  Alignments for each domain:
  == domain 1  score: 32.5 bits;  conditional E-value: 2.5e-11
                              HHHHHHHHHHHHHHHTSSSSSTTSSCHHHHHHHHHHHHHHHHTTTTTTTTSHHHHHHHHHHHTSH CS
                    GST_C  29 ekvaevlsaleeelkkqdylvGdkltlADialvpilnwlqrlglafgqekfpnlkawlerimarp 93 
                              +++a+ + +l+  lk++d+++Gd +++AD a++p++  +q    ++   +fp++k+w++ i+ r+
  PHY93_17035|PHY93_17035 135 KETARLYGVLNSALKDRDFVAGD-YSIADMAIYPWIVPYQDQSQDLN--DFPEIKRWFDQISKRE 196
                              7899******************9.9*********************6..************9986 PP

>> GST_C_3  Glutathione S-transferase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.2   0.1   2.2e-09   6.6e-06      23      95 ..     132     202 ..     115     206 .. 0.80

  Alignments for each domain:
  == domain 1  score: 26.2 bits;  conditional E-value: 2.2e-09
                              HHHHHHHHCHHHHHHHHHHCHGTSSSSTTS--HHHHHHHHHHHHHHHHTCC.CC-HHHHHHHHHHHTSHH.HHHH CS
                  GST_C_3  23 efleerlpkflkyfekvlkkkgggylvgdklTyADlalfqvldgleeaeal.kkfpklkalyervearpk.ikaY 95 
                               ++ ++  + +++++ +lk    ++++gd  ++AD+a++ ++  ++ ++++ ++fp++k++ +++++r++ i+aY
  PHY93_17035|PHY93_17035 132 RYI-KETARLYGVLNSALK--DRDFVAGD-YSIADMAIYPWIVPYQDQSQDlNDFPEIKRWFDQISKREAvIAAY 202
                              344.445678899999999..889****9.******************4455*************9999625666 PP

>> GST_C_2  Glutathione S-transferase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.1   1.9e-06    0.0056       6      68 ..     132     190 ..     127     191 .. 0.80

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 1.9e-06
                              HHHHHCCHCHHHCTTT---SS.CTTCS--HHHHHHHHHHHHHHHHHHS----TT-HHHHHHHH CS
                  GST_C_2   6 raleqldaaldaleahLadspflfGdqptlaDialapflvrlraagpgfdireaypnlraWle 68 
                              r  ++  +   +l++ L+d++ +  +  ++aD a +p++v      ++     ++p +++W++
  PHY93_17035|PHY93_17035 132 RYIKETARLYGVLNSALKDRD-FVAGDYSIADMAIYPWIVPYQDQSQD---LNDFPEIKRWFD 190
                              556777888899********9.666789************99666654...347888888876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (210 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       423  (0.0235931); expected 358.6 (0.02)
Passed bias filter:                      382  (0.0213063); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.52u 0.26s 00:00:00.78 Elapsed: 00:00:00.47
# Mc/sec: 1351.84
//
Query:       PHY93_01960|PHY93_01960  [L=390]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.2e-69  234.6   0.1    2.3e-69  233.7   0.0    1.4  2  Thiolase_N   Thiolase, N-terminal domain
    9.2e-45  151.3   0.3    9.2e-45  151.3   0.3    1.7  2  Thiolase_C   Thiolase, C-terminal domain
     0.0035   17.2   1.1      0.055   13.3   0.1    2.4  2  ACP_syn_III  3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase 


Domain annotation for each model (and alignments):
>> Thiolase_N  Thiolase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  233.7   0.0   3.8e-73   2.3e-69       1     260 []       8     262 ..       8     262 .. 0.97
   2 ?   -2.7   0.0      0.49   2.9e+03      45      61 ..     315     331 ..     295     385 .. 0.60

  Alignments for each domain:
  == domain 1  score: 233.7 bits;  conditional E-value: 3.8e-73
                              EEEEEEEEE--EETTSTTTTS-HHHHHHHHHHHHHHHHTS-GGGCCEEEEEHSSCTTSTSC.HHHHHHHHTTS-TTSEEEEEEHGG CS
               Thiolase_N   1 vvivsaartpigkfggslkdlsaeeLlaealkallekagvdpeevdevivGnvlqagegqn.iarqaalkagipeevpavtvnkvc 85 
                              v++v+++rtp+gkfggslkd++ ++L+  a kal+++ ++d++++++ i+Gnv+ +  + +   r++alk+g  +e+p   +n++c
  PHY93_01960|PHY93_01960   8 VFLVQGKRTPFGKFGGSLKDITPVDLAVLASKALISEIKLDSSKIEQAILGNVVPSSTDTMyGGRHLALKLGCRQETPGLVLNRLC 93 
                              789*****************************************************7777769*********************** PP

                              GHHHHHHHHHHHHHHTTSHSEEEEEEEEESTTS-EEETCTTTTGGSSSSEEEEEHHHHHHTEETTTTSEHHHHHHHHHHHHT--HH CS
               Thiolase_N  86 sSglkavalaaqsiaageadvvvagGvEsmsnaptaestdvrsglklgdekakdllipdgladafneehmGltaenlakkykisRe 171
                              +Sg++a+  aa+ i+ gea +v+a G+E+ms +p+ +   +r g+k+g+ k +d+l+   l d++ ++ mG+taenla+k++i+R 
  PHY93_01960|PHY93_01960  94 GSGIEAILSAARLIKLGEAHCVLAAGTENMSMVPHLTY-GARFGTKYGALKSVDMLLDA-LIDQYAQVPMGMTAENLAEKFEITRG 177
                              *************************************8.99*************99665.************************** PP

                              HHHHHHHHHHHHHHHHHHTTTTTTTBE-EEEEESSSEEEE-S-TTS-TT--HHHHHTS-BSSSTTSS-BTTSB--BEEEEEEEEEE CS
               Thiolase_N 172 eqdefAvkshqkaaaaqkagkFkdeivPvkvkgkkgkktvdkdeairsevtaekLaklkpaFkkeGtvtAgnasqisDGaaavllm 257
                              ++de+  +sh + ++a k+g ++ eivPv + +     ++d+de+ r ++++ ++++lk  Fk +G vtA+ as+i DGaaav+++
  PHY93_01960|PHY93_01960 178 QCDEYSYNSHVRVSKAYKEGLLQGEIVPVALRK----GVCDRDEHFRDDASLAEMNSLKSTFKTDGVVTAASASGIVDGAAAVIIA 259
                              ******************************987....57*********************************************** PP

                              EHH CS
               Thiolase_N 258 ses 260
                              ses
  PHY93_01960|PHY93_01960 260 SES 262
                              996 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 0.49
                              CCEEEEEHSSCTTSTSC CS
               Thiolase_N  45 vdevivGnvlqagegqn 61 
                              ++e + G+ l+  ++ n
  PHY93_01960|PHY93_01960 315 INEAFAGQTLSCIKDTN 331
                              44444444444433333 PP

>> Thiolase_C  Thiolase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.1      0.75   4.5e+03      95     121 ..     229     257 ..     225     259 .. 0.65
   2 !  151.3   0.3   1.5e-48   9.2e-45       2     122 ..     270     390 .]     269     390 .] 0.98

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 0.75
                              HHHHHCTTSEEEEEEEETTT..EEEEEEE CS
               Thiolase_C  95 selkkeggklgvaalCiggg..qgvalvi 121
                              ++lk   ++ gv+++ +++g   g+a+vi
  PHY93_01960|PHY93_01960 229 NSLKSTFKTDGVVTAASASGivDGAAAVI 257
                              66777777888888888877333555554 PP

  == domain 2  score: 151.3 bits;  conditional E-value: 1.5e-48
                              --SEEEEEEEEEE--GGGGGGHHHHHHHHHHHHHT--GGGESEEEE--SBHHHHHHHHHHHT--GGGBSTT--HHHH-B-TTTHHH CS
               Thiolase_C   2 kplakirsyaevgvdpeilglgPayaikkvlkkagltvedidlfEinEAFaaqaLavakaldldlekvNvnGGaialGHPlGasGa 87 
                              +p+a+i +  +vgvdp+i+g+gP +aik ++ k+ +t+++idlfEinEAFa+q+L+++k+ ++ +ek+N++GGa+alGHPlGasG+
  PHY93_01960|PHY93_01960 270 NPIAEIIDGFVVGVDPKIMGIGPSPAIKGLIAKNNMTMDQIDLFEINEAFAGQTLSCIKDTNIPYEKLNIWGGALALGHPLGASGV 355
                              6899********************************************************************************** PP

                              HHHHHHHHHHHHCTTSEEEEEEEETTTEEEEEEEE CS
               Thiolase_C  88 RivvtllselkkeggklgvaalCigggqgvalvie 122
                              Ri  tl+++l +++ ++g+a++Cigggqg+a++i+
  PHY93_01960|PHY93_01960 356 RISHTLARQLVHHKLNYGIASACIGGGQGIAILIK 390
                              ********************************985 PP

>> ACP_syn_III  3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.1   9.3e-06     0.055       3      39 ..      89     125 ..      87     133 .. 0.92
   2 ?    2.1   0.1      0.03   1.8e+02      54      64 ..     251     261 ..     242     274 .. 0.80

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 9.3e-06
                              EE-GGGHHHHHHHHHHHHHHTTS-SEEEEEEEEEGGG CS
              ACP_syn_III   3 lnaaCsgfvyalsvAdaliesgaakrvLvigaetlsk 39 
                              ln  C + + a+  A++li+ g+a++vL  g+e++s 
  PHY93_01960|PHY93_01960  89 LNRLCGSGIEAILSAARLIKLGEAHCVLAAGTENMSM 125
                              6788*******************************96 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.03
                              EEEEEEEEEEE CS
              ACP_syn_III  54 DGAgAvvleas 64 
                              DGA+Av++  +
  PHY93_01960|PHY93_01960 251 DGAAAVIIASE 261
                              9******9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (390 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       364  (0.0203023); expected 358.6 (0.02)
Passed bias filter:                      333  (0.0185733); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.26s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 2631.91
//
Query:       PHY93_01965|PHY93_01965  [L=431]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        0.2   11.1   0.0       0.36   10.3   0.0    1.3  1  DUF4349   Domain of unknown function (DUF4349)


Domain annotation for each model (and alignments):
>> DUF4349  Domain of unknown function (DUF4349)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0     2e-05      0.36       9      83 ..     344     416 ..     339     420 .. 0.85

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 2e-05
                  DUF4349   9 ltlevedvdaavaairelveeagGyvesssersgtegdersasltlRvPaarldafldelaelgkvtsrstsaeD 83 
                              l ++ ++  aa ++i+ lve+++G    +s  + + + +   ++++ vP++++++f++e  ++ +++  ++++++
  PHY93_01965|PHY93_01965 344 LMMNSANTYAARDKINLLVEKYKGEAVGDS--TPGMDVPGGVYYNVYVPKKDFKEFMTETMKVDQAKLFESNTSN 416
                              6677788999********************..99*************************9887666644444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (431 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       540  (0.0301188); expected 358.6 (0.02)
Passed bias filter:                      305  (0.0170115); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.64u 0.24s 00:00:00.88 Elapsed: 00:00:00.50
# Mc/sec: 2608.80
//
Query:       PHY93_01970|PHY93_01970  [L=179]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
     0.0088   15.3   4.3      0.013   14.7   4.3    1.2  1  CitMHS     Citrate transporter
  ------ inclusion threshold ------
       0.15   12.3   0.0       0.19   11.9   0.0    1.3  1  DUF2407_C  DUF2407 C-terminal domain
       0.42   10.5   1.2        3.4    7.6   0.0    2.1  2  SLATT_1    SMODS and SLOG-associating 2TM effector domain 1
        6.5    6.7   7.1        3.2    7.7   4.4    1.9  2  PIG-P      PIG-P
        6.7    7.1   6.7        2.8    8.3   0.1    2.2  2  DUF2663    Protein of unknown function (DUF2663)


Domain annotation for each model (and alignments):
>> CitMHS  Citrate transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   4.3   3.6e-06     0.013     146     258 ..      11     151 ..       2     157 .. 0.50

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 3.6e-06
                              xxxxxxxxxxxxxxxx.............xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx........... RF
                   CitMHS 146 lslpnllllalllvgl.............lplvllfmfgvalalpvnapkvkkqkaiieaiarsllpvatillla........... 207
                              l+++ +ll+all+  +             ++++++f                              ++ +++ ++           
  PHY93_01970|PHY93_01970  11 LMIFSILLTALLALKIihlpfshiqiaipAFIYTIF-----------------------------AQAFVMFYFIgvsrltnnvys 67 
                              233333333332222233333333333332222222.............................222222222244455555555 PP

                              .....................................xxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxx.xxx RF
                   CitMHS 208 .....................................ykkveWsvlllfaGvfll.vgaleqtGilealadllgaggplval.alv 254
                                                                   +++++W +l+l+ G++ +  g+  +tG+++   ++       v+l +++
  PHY93_01970|PHY93_01970  68 ivnsgtnlnelfdnppkdltpyiektkkfveeadrckRQTIPWTILMLILGMIAFlLGGAHDTGLVQKTTHSG------VVLgFMM 147
                              55555555555555555555556666666666666667777788888*****999777888888888887777......2222333 PP

                              xxxx RF
                   CitMHS 255 lgli 258
                              +  i
  PHY93_01970|PHY93_01970 148 AMTI 151
                              3333 PP

>> DUF2407_C  DUF2407 C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   5.3e-05      0.19     100     140 .]     114     155 ..      69     155 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 5.3e-05
                DUF2407_C 100 Gfflglfalllllkee.gllnkrqkmaviaGvlvnlvlglvr 140
                               ++lg++a+ll  +++ gl++k ++  v++G+++ +++g++r
  PHY93_01970|PHY93_01970 114 MLILGMIAFLLGGAHDtGLVQKTTHSGVVLGFMMAMTIGFFR 155
                              37899999777777667**********************987 PP

>> SLATT_1  SMODS and SLOG-associating 2TM effector domain 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.4     0.063   2.2e+02      35      64 ..      12      49 ..       3      78 .. 0.50
   2 ?    7.6   0.0   0.00094       3.4      14      61 ..      97     145 ..      89     171 .. 0.75

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.063
                  SLATT_1 35 ellalllaalr.......afgelsv.dlvgvlaavaaa 64
                              ++++ll+al         f+ +++  ++ + + +a a
  PHY93_01970|PHY93_01970 12 MIFSILLTALLalkiihlPFSHIQIaIPAFIYTIFAQA 49
                             33333333333000100124455553333333444444 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.00094
                  SLATT_1  14 rkkaeeneraakrwrlllillellalllaalrafgelsv.dlvgvlaav 61 
                               + a++++r++  w++l+++l+++a ll  ++ +g ++     gv+  +
  PHY93_01970|PHY93_01970  97 VEEADRCKRQTIPWTILMLILGMIAFLLGGAHDTGLVQKtTHSGVVLGF 145
                              568999**********************999966655554555555444 PP

>> PIG-P  PIG-P
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   4.4   0.00089       3.2      14      78 ..       7      68 ..       1     111 [. 0.73
   2 ?   -1.6   0.0      0.67   2.4e+03      47      63 ..     107     123 ..     101     131 .. 0.78

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.00089
                    PIG-P 14 tlafllyllwallPeevlhalgityypnryWalavpayllmlvlyiyvalaslnlevltppldsl 78
                             tl  ++ ++ ++l +  l al+i  +p  +  +a+pa++  +++ ++v++ ++ ++ lt+++ s+
  PHY93_01970|PHY93_01970  7 TL--IVLMIFSILLTA-LLALKIIHLPFSHIQIAIPAFIYTIFAQAFVMFYFIGVSRLTNNVYSI 68
                             33..333344444444.557788899****************************99999887764 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 0.67
                    PIG-P  47 avpayllmlvlyiyval 63 
                              ++p  +lml+l ++ +l
  PHY93_01970|PHY93_01970 107 TIPWTILMLILGMIAFL 123
                              57888888888776665 PP

>> DUF2663  Protein of unknown function (DUF2663)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   3.4      0.25   9.1e+02      22      65 ..      11      59 ..       1      74 [. 0.54
   2 ?    8.3   0.1   0.00079       2.8      10      78 ..      98     163 ..      86     169 .. 0.75

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.25
                  DUF2663 22 lsllallvlllfliyvlik.....ssslssllsallessvlllllllva 65
                             l+++++l+++l+++ ++       + ++ +++ +++++ +++++ + v 
  PHY93_01970|PHY93_01970 11 LMIFSILLTALLALKIIHLpfshiQIAIPAFIYTIFAQAFVMFYFIGVS 59
                             3333333333333333333655555556666666666666666655554 PP

  == domain 2  score: 8.3 bits;  conditional E-value: 0.00079
                  DUF2663  10 kkweklekrllllsllallvlllfliyvlikssslssllsallessvlllllllvallyvavkllkkKa 78 
                              ++ ++ ++++  +++l+l++ ++ +++      + + l++   +s v+l +++++++ ++   ++  K+
  PHY93_01970|PHY93_01970  98 EEADRCKRQTIPWTILMLILGMIAFLLG---GAHDTGLVQKTTHSGVVLGFMMAMTIGFFRQWYYLGKS 163
                              3457778888888888777777777666...88889999999999999999999988888877777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (179 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1001  (0.0558313); expected 358.6 (0.02)
Passed bias filter:                      437  (0.0243739); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.53u 0.28s 00:00:00.81 Elapsed: 00:00:00.48
# Mc/sec: 1121.57
//
Query:       PHY93_01975|PHY93_01975  [L=288]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.3e-15   56.8   0.4    3.4e-09   37.0   0.7    2.3  2  HEAT_2    HEAT repeats
    1.5e-06   28.3   1.8       0.15   12.8   0.0    3.6  3  HEAT_PBS  PBS lyase HEAT-like repeat
      3e-05   23.9   0.1        2.1    8.8   0.0    3.9  4  HEAT      HEAT repeat


Domain annotation for each model (and alignments):
>> HEAT_2  HEAT repeats
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.0   8.5e-07    0.0051      18      87 ..      63     141 ..      48     144 .. 0.64
   2 !   37.0   0.7   5.6e-13   3.4e-09       3      72 ..     154     222 ..     153     232 .. 0.93

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 8.5e-07
                   HEAT_2  18 raairaLg.rignpea........lpaLvell.ededpavRraaaeaLgaigdpealpaLkellddddddvvReaAaeaL 87 
                              + a+ +L  +i++ ++        +  L+++  ++ dp++R  ++ aLga++++ +lp L++ l+ d+d +v+  A+ ++
  PHY93_01975|PHY93_01975  63 WVAAYELSkQINSSQIpkeeypwlVVNLTQAYkQSIDPRTRGFIIAALGALKTDITLPTLQMGLN-DSDLDVKFHAIVSI 141
                              55556666434444333333344455566666455688888888888888888888888888884.67777788887665 PP

  == domain 2  score: 37.0 bits;  conditional E-value: 5.6e-13
                   HEAT_2   3 aLlqalendpdpevrraairaLgrignpealpaLvellededpavRraaaeaLgaigdpealpaLkelld 72 
                              +Ll +l + p+p +r+a i aL++ + p+a++ +  ll+d++  v +aaa+aL  ++d++a+++Lke+l+
  PHY93_01975|PHY93_01975 154 KLLTLL-EAPEPILRQASILALATHAVPQAQAPIKTLLNDPSFIVKYAAATALITYKDESAISVLKEILL 222
                              689999.9***********************************************************986 PP

>> HEAT_PBS  PBS lyase HEAT-like repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.4   0.0    0.0014       8.3       2      27 .]     103     128 ..     102     128 .. 0.88
   2 !    5.6   0.2    0.0054        33       2      27 .]     167     192 ..     166     192 .. 0.94
   3 !   12.8   0.0   2.4e-05      0.15       1      25 [.     197     221 ..     197     222 .. 0.94

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.0014
                              HHHHHHHHHHCTSGGGHHHHHHHCTC CS
                 HEAT_PBS   2 RraAakaLgqlgdeeaipaLleaLqd 27 
                              R   + aLg+l+++  +p+L+  L+d
  PHY93_01975|PHY93_01975 103 RGFIIAALGALKTDITLPTLQMGLND 128
                              566789***************99987 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.0054
                              HHHHHHHHHHCTSGGGHHHHHHHCTC CS
                 HEAT_PBS   2 RraAakaLgqlgdeeaipaLleaLqd 27 
                              R a + aL++   ++a ++++ +L+d
  PHY93_01975|PHY93_01975 167 RQASILALATHAVPQAQAPIKTLLND 192
                              8899*******************997 PP

  == domain 3  score: 12.8 bits;  conditional E-value: 2.4e-05
                              HHHHHHHHHHHCTSGGGHHHHHHHC CS
                 HEAT_PBS   1 vRraAakaLgqlgdeeaipaLleaL 25 
                              v +aAa aL + +de ai +L+e L
  PHY93_01975|PHY93_01975 197 VKYAAATALITYKDESAISVLKEIL 221
                              78********************987 PP

>> HEAT  HEAT repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0         2   1.2e+04      14      27 ..     100     113 ..      99     113 .. 0.73
   2 ?    4.2   0.0     0.011        67       2      24 ..     119     141 ..     119     144 .. 0.82
   3 !    5.9   0.0     0.003        18       5      25 ..     155     175 ..     153     176 .. 0.92
   4 !    8.8   0.0   0.00035       2.1       5      24 ..     186     205 ..     184     208 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 2
                              HHHHHHHHHHHHHH CS
                     HEAT  14 peVReaAakaLgal 27 
                              p+ R   + aLgal
  PHY93_01975|PHY93_01975 100 PRTRGFIIAALGAL 113
                              66777778899986 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.011
                              HHHHHHHHT-SSHHHHHHHHHHH CS
                     HEAT   2 lPlllkllsDpspeVReaAakaL 24 
                              lP+l+  l+D++ +V   A+ ++
  PHY93_01975|PHY93_01975 119 LPTLQMGLNDSDLDVKFHAIVSI 141
                              7999999*******988777665 PP

  == domain 3  score: 5.9 bits;  conditional E-value: 0.003
                              HHHHHT-SSHHHHHHHHHHHH CS
                     HEAT   5 llkllsDpspeVReaAakaLg 25 
                              ll+ll+ p+p  R+a+++aL+
  PHY93_01975|PHY93_01975 155 LLTLLEAPEPILRQASILALA 175
                              899****************97 PP

  == domain 4  score: 8.8 bits;  conditional E-value: 0.00035
                              HHHHHT-SSHHHHHHHHHHH CS
                     HEAT   5 llkllsDpspeVReaAakaL 24 
                              + +ll+Dps  V +aAa aL
  PHY93_01975|PHY93_01975 186 IKTLLNDPSFIVKYAAATAL 205
                              56789**************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (288 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       543  (0.0302861); expected 358.6 (0.02)
Passed bias filter:                      407  (0.0227007); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.44
# Mc/sec: 1976.52
//
Query:       PHY93_01980|PHY93_01980  [L=165]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-12   47.7   0.0    1.6e-12   47.2   0.0    1.2  1  Rieske    Rieske [2Fe-2S] domain


Domain annotation for each model (and alignments):
>> Rieske  Rieske [2Fe-2S] domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.2   0.0   8.9e-17   1.6e-12      26      88 ..      74     133 ..      47     134 .. 0.82

  Alignments for each domain:
  == domain 1  score: 47.2 bits;  conditional E-value: 8.9e-17
                              EEEEE-TTS-EEEEESC-TTTT-BCGGSEEETT.EEE-TTT--EEETTSBEEE-TTHHHEEEE CS
                   Rieske  26 lvvlrdedgevyAlsdvCtHrgaplsegkidekgvleCpcHgwaydadGkvikgPaprplaty 88 
                              + +++ ++g+++Als++CtH+g+++  + +  + +++CpcHg+ y  +G   +gP+prpl+ +
  PHY93_01980|PHY93_01980  74 VWMVK-QEGKLVALSNICTHLGCIP--NWLPAELKFKCPCHGSGYYMSGINFEGPTPRPLERF 133
                              45566.4*****************8..44445569************************9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (165 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       460  (0.0256568); expected 358.6 (0.02)
Passed bias filter:                      412  (0.0229795); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.23s 00:00:00.72 Elapsed: 00:00:00.44
# Mc/sec: 1117.27
//
Query:       PHY93_01985|PHY93_01985  [L=258]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-37  129.7  13.0    2.2e-35  122.2  13.0    2.1  1  Cytochrome_B     Cytochrome b/b6/petB
    3.7e-32  111.7  10.4    3.7e-32  111.7  10.4    2.6  2  Cytochrom_B_N_2  Cytochrome b(N-terminal)/b6/petB
    4.1e-06   27.3   4.3    4.1e-06   27.3   4.3    2.9  3  DUF4405          Domain of unknown function (DUF4405)
  ------ inclusion threshold ------
       0.01   15.4   5.8       0.01   15.4   5.8    2.7  2  Ni_hydr_CYTB     Prokaryotic cytochrome b561
       0.37   10.9   3.2         12    6.0   3.2    2.3  1  DHHC             DHHC palmitoyltransferase
       0.62    9.2   9.6       0.12   11.6   4.9    2.1  2  7tm_7            7tm Chemosensory receptor
        5.4    7.8  10.6         10    6.9   0.1    3.1  3  DUF4282          Domain of unknown function (DUF4282)


Domain annotation for each model (and alignments):
>> Cytochrome_B  Cytochrome b/b6/petB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  122.2  13.0   8.8e-39   2.2e-35       8     188 ..      53     253 ..      46     254 .. 0.87

  Alignments for each domain:
  == domain 1  score: 122.2 bits;  conditional E-value: 8.8e-39
             Cytochrome_B   8 snlsiiynlGsllllvlvlqiltGvalafyytptvtlaflsvqyilrdvnfGwlirsvhangasllflllylhifrglllgglkkt 93 
                               +l +++++G+l++++++   +tG++l fyy+pt + a+  ++ + + v +G ++r +h++ga  +++ ++lh+fr++++g++k +
  PHY93_01985|PHY93_01985  53 VQLGYTWCMGGLTFFIFLALTVTGLLLMFYYRPTAEYAYNDIVALREHVPLG-IMREIHRWGAHAMVITVWLHMFRVFMTGSYKPP 137
                              568899**********************************************.68******************************* PP

             Cytochrome_B  94 relvWviGvillllvivtafiGyvLpwdqmsyWavtvitnllsaiPviGst.............lve.......llwgsvsvddat 159
                              re  W +Gvill+l++  +f+Gy Lpwdq++ Wa+tv +++++a P++G++             +v+        l g+ +v++ +
  PHY93_01985|PHY93_01985 138 REFNWGVGVILLVLTLLLSFTGYLLPWDQLAIWAITVGSGMAKATPFMGNAgpgamlarigdfvMVSdkndvrfQLLGGRFVGEPA 223
                              ***********************************************9864333332222221122122222224789******** PP

             Cytochrome_B 160 Ltrffslh.fllPflllillllhllllhkt 188
                              L rf+ lh + +P+++ +l+ +h+  ++k 
  PHY93_01985|PHY93_01985 224 LLRFYILHcVFIPLVVGVLIAVHFWRVRKD 253
                              ********989*************999886 PP

>> Cytochrom_B_N_2  Cytochrome b(N-terminal)/b6/petB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.6      0.44   1.1e+03      27      49 ..      58      80 ..      55      96 .. 0.82
   2 !  111.7  10.4   1.4e-35   3.7e-32       2     120 ..     116     254 ..     115     258 .] 0.97

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 0.44
          Cytochrom_B_N_2 27 nWiiGvllllltllegflGysLp 49
                             +W++G l +++ l+  ++G +L+
  PHY93_01985|PHY93_01985 58 TWCMGGLTFFIFLALTVTGLLLM 80
                             68888888888888888888776 PP

  == domain 2  score: 111.7 bits;  conditional E-value: 1.4e-35
          Cytochrom_B_N_2   2 imiiliyvHmlrvfftGaYkkpRelnWiiGvllllltllegflGysLpddllsvtalrvgagiissvPvvgtwlvellfG...... 81 
                              +m+i + +Hm+rvf tG+Yk pRe+nW +Gv+ll+ltll +f+Gy+Lp+d+l+++a++vg+g+++++P++g+    ++++      
  PHY93_01985|PHY93_01985 116 AMVITVWLHMFRVFMTGSYKPPREFNWGVGVILLVLTLLLSFTGYLLPWDQLAIWAITVGSGMAKATPFMGNAGPGAMLArigdfv 201
                              8**********************************************************************999999998999*** PP

          Cytochrom_B_N_2  82 ..............gelpgeallsrlyalHilllpalllalivahlllvekkg 120
                                            g ++ge  l r+y+lH++++p ++++li++h+  v+k g
  PHY93_01985|PHY93_01985 202 mvsdkndvrfqllgGRFVGEPALLRFYILHCVFIPLVVGVLIAVHFWRVRKDG 254
                              **********************************************9999876 PP

>> DUF4405  Domain of unknown function (DUF4405)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.3   4.3   1.6e-09   4.1e-06       5      62 ..      64     125 ..      61     128 .. 0.87
   2 ?    3.1   0.8     0.054   1.4e+02       3      23 ..     145     165 ..     143     189 .. 0.79
   3 ?   -2.7   0.7       3.5     9e+03      56      62 ..     241     247 ..     227     250 .. 0.58

  Alignments for each domain:
  == domain 1  score: 27.3 bits;  conditional E-value: 1.6e-09
                  DUF4405   5 llllsflvlaiSGillsfavlpsgrgaywa.......flglskhqwrdiHeilgllflilvvlHl 62 
                              l+++ fl+l+++G+ll f + p   +ay+              + +r+iH++ +++++i v lH+
  PHY93_01985|PHY93_01985  64 LTFFIFLALTVTGLLLMFYYRPTAEYAYNDivalrehV---PLGIMREIHRWGAHAMVITVWLHM 125
                              789*******************9999998877655440...6678*******************7 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.054
                  DUF4405   3 dlllllsflvlaiSGillsfa 23 
                               ++ll++ l+l ++G ll + 
  PHY93_01985|PHY93_01985 145 GVILLVLTLLLSFTGYLLPWD 165
                              57899**********998665 PP

  == domain 3  score: -2.7 bits;  conditional E-value: 3.5
                  DUF4405  56 ilvvlHl 62 
                              +l+++H+
  PHY93_01985|PHY93_01985 241 VLIAVHF 247
                              4444444 PP

>> Ni_hydr_CYTB  Prokaryotic cytochrome b561
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.4   5.8     4e-06      0.01     103     169 ..      55     132 ..      11     137 .. 0.75
   2 ?    2.5   4.9     0.037        95     103     143 ..     141     195 ..     132     256 .. 0.68

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 4e-06
                              T.....THHHHHHHHHHHHHHHHHHHT.....HHHHHHHH.........HTS-THHHHHHH.HHHHHHHHHHHHHHHHHHHHH CS
             Ni_hydr_CYTB 103 l.....vhlllyvllvvliltGlllsf.....aatagfpll......lddkggaqlarelHellaaallafvvlHiaaallhg 169
                              l     +++l ++ +++l +tGlll+f     a     + +      l+ +    ++re+H + a a+++ v lH + +++ g
  PHY93_01985|PHY93_01985  55 LgytwcMGGLTFFIFLALTVTGLLLMFyyrptA-----EYAyndivaLREHVPLGIMREIHRWGAHAMVITVWLHMFRVFMTG 132
                              14667788899999999********99654321.....2225577889999999**********************9999876 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.037
                              T..THHHHHHHHHHHHHHHHHHHT............HHHHHHHH...HTS-THHH CS
             Ni_hydr_CYTB 103 l..vhlllyvllvvliltGlllsf............aatagfplllddkggaqla 143
                                 v+++l+vl+++l +tG+ll +             +++  p++++ + ga+la
  PHY93_01985|PHY93_01985 141 NwgVGVILLVLTLLLSFTGYLLPWdqlaiwaitvgsGMAKATPFMGNAGPGAMLA 195
                              345889999************9777776665555553333333334444444444 PP

>> DHHC  DHHC palmitoyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   3.2    0.0048        12      42     111 ..      60     132 ..      57     254 .. 0.84

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.0048
                     DHHC  42 ciGerNykyFllfllylllllilalvlllialvklveeekkseflavtllkk...llsilllvlsllfllllg 111
                              c G  ++ +Fl++ ++ lll++++  ++ +a+ ++v  ++     +++ ++    +  ++++ l ++ ++++g
  PHY93_01985|PHY93_01985  60 CMGGLTFFIFLALTVTGLLLMFYYRPTAEYAYNDIVALREHVPLGIMREIHRwgaHAMVITVWLHMFRVFMTG 132
                              8888889999999999999999999999999999999999999999999988887344444444444444443 PP

>> 7tm_7  7tm Chemosensory receptor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   4.9   4.7e-05      0.12      69     168 ..      61     155 ..      54     178 .. 0.82
   2 ?   -2.5   0.1      0.89   2.3e+03     123     141 ..     225     243 ..     206     251 .. 0.44

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 4.7e-05
                    7tm_7  69 vynlqlvlglltvlvillsllfqrrrlarllnellkldrrlkrlgnrrnkrrfnrllllllvliillllvtllgylllsqyftlvl 154
                              +++l ++++l+ ++  ll +++ r+     +n++++l+ ++    +r+ +r+  + + ++++l+++ + +t     + ++ f++ +
  PHY93_01985|PHY93_01985  61 MGGLTFFIFLALTVTGLLLMFYYRPTAEYAYNDIVALREHVPLGIMREIHRWGAHAMVITVWLHMFRVFMTGS--YKPPREFNWGV 144
                              57889999**********************************************************9999999..44444444444 PP

                    7tm_7 155 llllyllpylvlql 168
                               ++l++l  l   l
  PHY93_01985|PHY93_01985 145 GVILLVLTLL---L 155
                              4444444444...2 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 0.89
                    7tm_7 123 rllllllvliillllvtll 141
                              +++++l++++i l++ +l+
  PHY93_01985|PHY93_01985 225 LRFYILHCVFIPLVVGVLI 243
                              3333333333333332222 PP

>> DUF4282  Domain of unknown function (DUF4282)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.6      0.38   9.8e+02      48      71 ..      64      88 ..      32     101 .. 0.56
   2 ?    0.7   6.0      0.36   9.1e+02      20      62 ..     113     159 ..      64     163 .. 0.81
   3 ?    6.9   0.1     0.004        10       6      39 ..     217     250 ..     209     257 .. 0.85

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.38
                  DUF4282 48 gllllllaviaf.llmilllRivlE 71
                             +++++ la+++  ll ++  R + E
  PHY93_01985|PHY93_01985 64 LTFFIFLALTVTgLLLMFYYRPTAE 88
                             2222222222223555555666666 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.36
                  DUF4282  20 givlialvllslivgafaal....seslsagggllllllaviafllm 62 
                              g+ +++++++  ++++f++      +++++g+g++ll+l+++  +++
  PHY93_01985|PHY93_01985 113 GAHAMVITVWLHMFRVFMTGsykpPREFNWGVGVILLVLTLLLSFTG 159
                              55566777777777777776898889999999999999999887765 PP

  == domain 3  score: 6.9 bits;  conditional E-value: 0.004
                  DUF4282   6 rfitpkllkvlYilgivlialvllslivgafaal 39 
                              rf+ +  l  +Yil  v+i+lv+ +li   f+ +
  PHY93_01985|PHY93_01985 217 RFVGEPALLRFYILHCVFIPLVVGVLIAVHFWRV 250
                              67777788889************99999888876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (258 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       714  (0.0398237); expected 358.6 (0.02)
Passed bias filter:                      395  (0.0220313); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.55u 0.28s 00:00:00.83 Elapsed: 00:00:00.45
# Mc/sec: 1723.24
//
Query:       PHY93_01990|PHY93_01990  [L=358]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.6e-05   25.1   2.9    1.6e-05   25.1   2.9    3.4  3  Cytochrom_B_C  Cytochrome b(C-terminal)/b6/petD


Domain annotation for each model (and alignments):
>> Cytochrom_B_C  Cytochrome b(C-terminal)/b6/petD
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.8     0.034   6.1e+02      19      50 ..      22      54 ..       1      98 [. 0.50
   2 !   25.1   2.9   8.9e-10   1.6e-05       2      80 ..     149     227 ..     148     251 .. 0.83
   3 ?   -0.2   1.1     0.068   1.2e+03      47      80 ..     300     333 ..     239     353 .. 0.59

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.034
                             HHHHHHHCS....SSHHHHHHHHHHHHHGGGCHHHH CS
            Cytochrom_B_C 19 pfYaiLrai....pakllGvvamgaaivilfllpwl 50
                              fY +L+ +     +k+       +ai+i +++ +l
  PHY93_01990|PHY93_01990 22 CFYLMLKHYkivgTKKF---AYWSVAILIPVVVWFL 54
                             35555555411111111...1222233333333333 PP

  == domain 2  score: 25.1 bits;  conditional E-value: 8.9e-10
                              --TTC--TT----GGGHHHHHHHHCSSSHHHHHHHHHHHHHGGGCHHHH---SSSSSTT-.HHHHHHHHHHHHHHHHHH CS
            Cytochrom_B_C   2 anplktPahIaPeWYflpfYaiLraipakllGvvamgaaivilfllpwldrskvksiryrkplakvllallvvsfvvLg 80 
                              anp   P+  +  WYfl   ++L +++  ++Gvv+ g  ++ l+++p++d+++  +  y  +  k++++++++  +vL 
  PHY93_01990|PHY93_01990 149 ANPTWAPNPAKAPWYFLGLQEMLVYFDPWMAGVVLPGLIVAGLIAVPYIDTNPKGNGYYTFKERKMAITAFLFGWLVLW 227
                              899999***********************************************99888876666666666666655553 PP

  == domain 3  score: -0.2 bits;  conditional E-value: 0.068
                              HHHH---SSSSSTT-.HHHHHHHHHHHHHHHHHH CS
            Cytochrom_B_C  47 lpwldrskvksiryrkplakvllallvvsfvvLg 80 
                               pw  + +    +  + l  + + ++++ +++++
  PHY93_01990|PHY93_01990 300 PPWAAKATKAGRNLIQNLGPTRYYIFMFLVLMMT 333
                              3454444433333333333333333333333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (358 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       706  (0.0393775); expected 358.6 (0.02)
Passed bias filter:                      265  (0.0147805); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.28s 00:00:00.83 Elapsed: 00:00:00.46
# Mc/sec: 2318.33
//
Query:       PHY93_01995|PHY93_01995  [L=934]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.2e-36  124.9   8.7    1.8e-08   35.4   0.0    8.7  8  Cytochrom_C      Cytochrome c
    1.6e-15   57.1  11.3     0.0041   17.4   0.0    8.4  8  Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
    3.5e-09   36.5  17.0    0.00098   19.1   4.8    6.8  6  Cytochrome_C7    Cytochrome c7 and related cytochrome c
    1.8e-08   34.1  26.3      5e-05   22.8   1.5    6.9  9  FixO             Cytochrome C oxidase, mono-heme subunit/FixO
    1.4e-06   28.7  11.6       0.26   11.8   0.3    6.2  6  Cytochrom_c3_2   Cytochrome c3
    6.9e-06   26.9  17.7      0.033   15.1   5.7    6.6  6  Cytochrome_C554  Cytochrome c554 and c-prime
    2.4e-05   24.0  19.7       0.11   12.3   0.5    7.7  8  Paired_CXXCH_1   Doubled CXXCH motif (Paired_CXXCH_1)
     0.0049   16.6  10.1        6.4    6.4   0.2    6.1  6  Cytochrom_NNT    NapC/NirT cytochrome c family, N-terminal re
      0.009   16.3  11.2       0.42   10.9   0.0    6.4  7  PSCyt3           Protein of unknown function (DUF1588)
  ------ inclusion threshold ------
       0.12   12.8  18.8        2.5    8.5   5.5    6.1  6  Cytochrom_CIII   Class III cytochrome C family
       0.12   12.0   4.8        0.2   11.3   4.8    1.3  1  DUF4085          Protein of unknown function (DUF4085)
       0.83    8.9  14.5       0.59    9.4  11.7    1.9  2  DUF4407          Domain of unknown function (DUF4407)
        1.2    9.7  14.8    2.4e+02    2.3   0.0    5.5  5  zf-CHY           CHY zinc finger
        1.5    9.3   4.0        4.7    7.7   1.2    2.5  2  DUF4094          Domain of unknown function (DUF4094)
        1.8    9.3   4.9        3.3    8.4   0.3    2.9  2  SlyX             SlyX
        3.6    7.7   6.4        4.5    7.4   0.2    2.5  2  COG2             COG (conserved oligomeric Golgi) complex com
        4.5    7.3  13.0       0.34   11.0   0.8    2.2  2  UPF0242          Uncharacterised protein family (UPF0242) N-t
        5.6    5.5  15.4         11    4.5  15.4    1.3  1  AAA_13           AAA domain


Domain annotation for each model (and alignments):
>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.2       1.1   1.1e+03      10      22 ..     252     264 ..     245     290 .. 0.70
   2 !    8.6   0.4    0.0041       4.1      10      40 ..     294     328 ..     286     341 .. 0.68
   3 ?    2.1   0.1      0.45   4.5e+02       9      17 ..     349     357 ..     344     367 .. 0.80
   4 !   26.5   0.0   1.1e-08   1.1e-05       3      90 ..     370     459 ..     368     461 .. 0.89
   5 !   35.4   0.0   1.8e-11   1.8e-08       1      91 [.     475     559 ..     475     560 .. 0.89
   6 !    8.9   0.1    0.0034       3.4       4      41 ..     611     649 ..     608     705 .. 0.72
   7 !   14.7   0.0   5.2e-05     0.052       3      80 ..     725     809 ..     723     832 .. 0.76
   8 !   23.1   0.0   1.3e-07   0.00013       6      58 ..     845     897 ..     841     932 .. 0.69

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 1.1
                              TTGGGTB-SSSBS CS
              Cytochrom_C  10 anCaaCHgveggg 22 
                              + C +CH+  ++ 
  PHY93_01995|PHY93_01995 252 DRCITCHTFIDQP 264
                              58*****765554 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0041
                              TTGGGTB-SSSBSSS........--HHHHHHHTTT CS
              Cytochrom_C  10 anCaaCHgvegggakqgg....gptlsgaaerasa 40 
                              ++C++CHg eg+ +   +     p+  ++++++ +
  PHY93_01995|PHY93_01995 294 TGCTSCHGGEGQRVVDFNsvahMPDSEKQEKEWIQ 328
                              69**********99988654444444444444433 PP

  == domain 3  score: 2.1 bits;  conditional E-value: 0.45
                              HTTGGGTB- CS
              Cytochrom_C   9 tanCaaCHg 17 
                              +a+C++CH+
  PHY93_01995|PHY93_01995 349 EAGCVKCHS 357
                              479*****6 PP

  == domain 4  score: 26.5 bits;  conditional E-value: 1.1e-08
                              -HHHHH.HTTGGGTB-SSSBSSS.....--HHHHHHHTTT-HHHHHHHHTTSS--SSSHHHHHHHGGGGGGG.TT--HHHHHHHHH CS
              Cytochrom_C   3 rGkelf.tanCaaCHgvegggakqgg.gptlsgaaerasaasigasvanpaavsaprddfekkkltaemparkerlteqeiadlaa 86 
                              +G++   + +C aCH+++g g +  + gp l ++a++ ++++ +++v +p+   +  ++++      ++++ + r++ +e++++a+
  PHY93_01995|PHY93_01995 370 EGRQSIeKYGCYACHKIAGWGENRRKpGPSLLKIASKVDKEWFKSWVWEPRSFNKHSKMPAFFRQSNNSKPEFVRMNMAEVNAIAE 455
                              6788886779*******99999888889**********************999999888888888888888789************ PP

                              HHHT CS
              Cytochrom_C  87 YLks 90 
                              Y+++
  PHY93_01995|PHY93_01995 456 YIWD 459
                              **96 PP

  == domain 5  score: 35.4 bits;  conditional E-value: 1.8e-11
                              X--HHHHH.HTTGGGTB-SSSBSSS.........--HHHHHHHTTT-HHHHHHHHTTSS--SSSHHHHHHHGGGGGGG.TT--HHH CS
              Cytochrom_C   1 aarGkelf.tanCaaCHgvegggakqgg.....gptlsgaaerasaasigasvanpaavsaprddfekkkltaemparkerlteqe 80 
                              a++Gk++  + +C +CHgv+g +++ ++     gp l+g++++   ++++ + ++p       +    ++  + mp   +rl++ e
  PHY93_01995|PHY93_01995 475 ADNGKKIIsQVGCLGCHGVDGLEDQSNKvkayaGPWLTGLGSKVQPDWLVTWLKKP------SH----YQEDTIMPS--LRLSDTE 548
                              579*****999*************9999************************9999......44....444555666..49***** PP

                              HHHHHHHHHTT CS
              Cytochrom_C  81 iadlaaYLksl 91 
                              ++d+a YL sl
  PHY93_01995|PHY93_01995 549 ANDIATYLLSL 559
                              ********997 PP

  == domain 6  score: 8.9 bits;  conditional E-value: 0.0034
                              HHHHH.HTTGGGTB-SSSBSSS....--HHHHHHHTTT- CS
              Cytochrom_C   4 Gkelf.tanCaaCHgvegggakqgggptlsgaaerasaa 41 
                              Gk+   + +C +CH +eg    +  gp l++++++  ++
  PHY93_01995|PHY93_01995 611 GKRSIgKYGCYSCHNLEGFDGYAPIGPELTKEGSKPLTQ 649
                              788887789*******99876665589999999887655 PP

  == domain 7  score: 14.7 bits;  conditional E-value: 5.2e-05
                              -HHHHHHT........TGGGTB-SSSBSSS.............--HHHHHHHTTT-HHHHHHHHTTSS--SSSHHHHHHHGGGGGG CS
              Cytochrom_C   3 rGkelfta........nCaaCHgvegggakqgg.........gptlsgaaerasaasigasvanpaavsaprddfekkkltaempa 71 
                              +G++l+++        nC++CH+++g    +            p+l++++ r  ++++  + ++p         + + +lt  mp+
  PHY93_01995|PHY93_01995 725 AGETLYNNamkvagkyNCMGCHQIDGLRGDILRayaddinqgPPRLANEGHRVQTNWLYHFLQAP--------VPIRPWLTIRMPT 802
                              6888884448888888**********988776688888888888888888888888887777666........4555555555555 PP

                              G.TT--HHH CS
              Cytochrom_C  72 rkerlteqe 80 
                              +  +l+ +e
  PHY93_01995|PHY93_01995 803 F--NLSTEE 809
                              5..555555 PP

  == domain 8  score: 23.1 bits;  conditional E-value: 1.3e-07
                              HHH.HTTGGGTB-SSSBSSS....--HHHHHHHTTT-HHHHHHHHTTSS--SSS CS
              Cytochrom_C   6 elf.tanCaaCHgvegggakqgggptlsgaaerasaasigasvanpaavsaprd 58 
                              +l+ + nC++CH+++ +++++  +p+l +a +r   ++i+ +++np+    ++ 
  PHY93_01995|PHY93_01995 845 KLWaAYNCVSCHSMGFTKDAPL-APDLHKASARLRPSWIKLWITNPQTILPGTT 897
                              677667*************988.***********************65444433 PP

>> Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.0      0.64   6.4e+02      13      20 ..     253     261 ..     247     282 .. 0.73
   2 ?    5.9   0.2     0.016        16      14      28 ..     296     314 ..     292     338 .. 0.59
   3 ?   -0.1   0.5       1.2   1.2e+03      12      21 ..     350     358 ..     346     370 .. 0.77
   4 !    8.6   0.0    0.0024       2.4       6      67 .]     371     457 ..     366     457 .. 0.59
   5 !   17.4   0.0   4.2e-06    0.0041       2      67 .]     474     556 ..     473     556 .. 0.78
   6 ?    3.5   0.0     0.093        93      13      34 ..     619     646 ..     607     703 .. 0.71
   7 !    8.8   0.0     0.002         2       3      63 ..     723     813 ..     721     815 .. 0.67
   8 !    9.9   0.0   0.00092      0.92       8      51 ..     845     901 ..     840     908 .. 0.65

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.64
          Cytochrome_CBB3  13 nCasCHg.k 20 
                               C +CH+  
  PHY93_01995|PHY93_01995 253 RCITCHTfI 261
                              7*****862 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.016
          Cytochrome_CBB3  14 CasCHgkggag....psla 28 
                              C sCHg +g+     +s+a
  PHY93_01995|PHY93_01995 296 CTSCHGGEGQRvvdfNSVA 314
                              ******4433366663333 PP

  == domain 3  score: -0.1 bits;  conditional E-value: 1.2
          Cytochrome_CBB3  12 knCasCHgkg 21 
                              + C+ CH  g
  PHY93_01995|PHY93_01995 350 AGCVKCHS-G 358
                              67*****7.3 PP

  == domain 4  score: 8.6 bits;  conditional E-value: 0.0024
          Cytochrome_CBB3   6 Gaalykk.nCasCHg.kggag.............pslagrdwep............dalvdiiknGkgaMpafggqlsdeelwalv 64 
                              G++  +k  C +CH+ +g  g             +s+ +++w +            +++ ++ ++ ++  p f  +++ +e++a++
  PHY93_01995|PHY93_01995 371 GRQSIEKyGCYACHKiAG-WGenrrkpgpsllkiASKVDKEWFKswvweprsfnkhSKMPAFFRQSNNSKPEFV-RMNMAEVNAIA 454
                              666666657******744.2234555664444442222333332333333444444555557777788888888.69999999999 PP

          Cytochrome_CBB3  65 aYl 67 
                              +Y+
  PHY93_01995|PHY93_01995 455 EYI 457
                              997 PP

  == domain 5  score: 17.4 bits;  conditional E-value: 4.2e-06
          Cytochrome_CBB3   2 aaaaGaalykk.nCasCHgkggag...........psla..grdwepdalvdiiknGk.....gaMpafggqlsdeelwalvaYl 67 
                              +a++G+++  +  C +CHg +g+            p l+  g++++pd lv+ +k+       + Mp+ +  lsd e++++++Yl
  PHY93_01995|PHY93_01995 474 NADNGKKIISQvGCLGCHGVDGLEdqsnkvkayagPWLTglGSKVQPDWLVTWLKKPShyqedTIMPSLR--LSDTEANDIATYL 556
                              7899******999******6655555566666666777755668889999999998864444347***96..8***********7 PP

  == domain 6  score: 3.5 bits;  conditional E-value: 0.093
          Cytochrome_CBB3  13 nCasCHgkggag......pslagrdwep 34 
                               C sCH  +g        p+l++++ +p
  PHY93_01995|PHY93_01995 619 GCYSCHNLEGFDgyapigPELTKEGSKP 646
                              6*****9444433666778888877666 PP

  == domain 7  score: 8.8 bits;  conditional E-value: 0.002
          Cytochrome_CBB3   3 aaaGaalykk........nCasCHg.kggag..............psla..grdwepdalvdiiknGkg.......aMpafggqls 56 
                              ++aG+ ly++        nC +CH  +g  g              p la  g+ +++  l+++++  +        +Mp f  +ls
  PHY93_01995|PHY93_01995 723 YDAGETLYNNamkvagkyNCMGCHQiDGLRGdilrayaddinqgpPRLAneGHRVQTNWLYHFLQAPVPirpwltiRMPTF--NLS 806
                              6778888887788888889*****977766677777777777777777733335556777777777652224444578887..467 PP

          Cytochrome_CBB3  57 deelwal 63 
                               ee++ l
  PHY93_01995|PHY93_01995 807 TEERNIL 813
                              7777666 PP

  == domain 8  score: 9.9 bits;  conditional E-value: 0.00092
          Cytochrome_CBB3   8 alykk.nCasCHgkggag......pslagr..dwepdalvdiiknGk.....gaMpaf 51 
                              +l+++ nC+sCH  g         p+l++    ++p+ ++  i+n       + Mp+f
  PHY93_01995|PHY93_01995 845 KLWAAyNCVSCHSMG-FTkdaplaPDLHKAsaRLRPSWIKLWITNPQtilpgTTMPSF 901
                              5777789*****933.333445558888554577788877777777533332367766 PP

>> Cytochrome_C7  Cytochrome c7 and related cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.9   0.4      0.11   1.1e+02      49      55 ..     251     259 ..     231     278 .. 0.69
   2 !   19.1   4.8   9.8e-07   0.00098       8      73 .]     289     385 ..     283     385 .. 0.68
   3 ?    0.7   0.0      0.55   5.4e+02      12      55 ..     483     492 ..     458     506 .. 0.62
   4 ?    5.1   0.0     0.023        23      49      56 ..     609     626 ..     585     642 .. 0.57
   5 ?    3.6   0.0     0.066        65      61      73 .]     735     747 ..     720     751 .. 0.67
   6 ?    5.1   0.0     0.023        22      12      24 ..     848     860 ..     835     878 .. 0.70

  Alignments for each domain:
  == domain 1  score: 2.9 bits;  conditional E-value: 0.11
            Cytochrome_C7  49 t..CgaCHd 55 
                              +  C++CH+
  PHY93_01995|PHY93_01995 251 AdrCITCHT 259
                              023666664 PP

  == domain 2  score: 19.1 bits;  conditional E-value: 9.8e-07
            Cytochrome_C7   8 hlkatgykCtdCHskl.feskak....kk...maemekgkskkaeveslt.................CgaCHdgknaf........ 60 
                              h   + + Ct+CH++   +   +    ++    ++ ek++++k  ++  +                 C +CH g +          
  PHY93_01995|PHY93_01995 289 HPM-KVTGCTSCHGGEgQRVV-DfnsvAHmpdSEKQEKEWIQKYGWK--EphhvaspmlrlsqteagCVKCHSGVELIkgatvlne 370
                              333.4689*******943222.2334422233333344444444454..2455999******************999667777788 PP

            Cytochrome_C7  61 ..svakkaeCakCHt 73 
                                ++ +k  C  CH+
  PHY93_01995|PHY93_01995 371 grQSIEKYGCYACHK 385
                              87777899******6 PP

  == domain 3  score: 0.7 bits;  conditional E-value: 0.55
            Cytochrome_C7  12 tgykCtdCHsklfeskakkkmaemekgkskkaevesltCgaCHd 55 
                              ++                                    C  CH 
  PHY93_01995|PHY93_01995 483 SQVG----------------------------------CLGCHG 492
                              2334..................................555554 PP

  == domain 4  score: 5.1 bits;  conditional E-value: 0.023
            Cytochrome_C7  49 t..........CgaCHdg 56 
                              +          C++CH+ 
  PHY93_01995|PHY93_01995 609 DlgkrsigkygCYSCHNL 626
                              022223444569999975 PP

  == domain 5  score: 3.6 bits;  conditional E-value: 0.066
            Cytochrome_C7  61 svakkaeCakCHt 73 
                              +va+k +C+ CH+
  PHY93_01995|PHY93_01995 735 KVAGKYNCMGCHQ 747
                              3445555555553 PP

  == domain 6  score: 5.1 bits;  conditional E-value: 0.023
            Cytochrome_C7  12 tgykCtdCHsklf 24 
                              ++y+C +CHs  f
  PHY93_01995|PHY93_01995 848 AAYNCVSCHSMGF 860
                              4678888887664 PP

>> FixO  Cytochrome C oxidase, mono-heme subunit/FixO
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.1       4.6   4.6e+03     148     168 ..      63      83 ..      49     133 .. 0.49
   2 ?   -2.8   1.0       3.6   3.6e+03     147     167 ..     139     159 ..      96     211 .. 0.52
   3 !   22.8   1.5   5.1e-08     5e-05      60     151 ..     350     444 ..     346     484 .. 0.70
   4 !   14.8   0.0   1.5e-05     0.015     102     193 ..     507     598 ..     504     616 .. 0.78
   5 ?   -2.5   0.3       2.9   2.8e+03      59      66 ..     617     624 ..     592     626 .. 0.75
   6 ?   -3.0   0.0         4     4e+03     115     127 ..     663     675 ..     660     679 .. 0.85
   7 ?    1.5   0.0      0.17   1.7e+02     104     139 ..     768     805 ..     764     819 .. 0.81
   8 ?   -2.4   0.0       2.8   2.8e+03      48      67 ..     837     857 ..     821     859 .. 0.70
   9 !    9.0   0.0   0.00089      0.89     103     137 ..     867     901 ..     864     903 .. 0.96

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 4.6
                     FixO 148 seiekklkalktlgvpyeeee 168
                              ++++k+++a k  + + +  +
  PHY93_01995|PHY93_01995  63 KAAQKEIDAKKLAELNTSLGK 83 
                              344444444333222222222 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 3.6
                     FixO 147 lseiekklkalktlgvpyeee 167
                               +e++kkl+ lk +  ++++ 
  PHY93_01995|PHY93_01995 139 EKEAAKKLEELKIITDQFNQG 159
                              333334444444443333333 PP

  == domain 3  score: 22.8 bits;  conditional E-value: 5.1e-08
                     FixO  60 egCyaCHsq..miRplrdeveRyGeys..kagEsvydhPflWgskRt..GPDlaRvGgkysdeWhvkHlldPrsvvpesimPaykw 139
                               gC++CHs   +i+     v   G+ s  k g ++  +   Wg  R   GP l ++  k  +eW  + +++Prs  ++s mPa+  
  PHY93_01995|PHY93_01995 350 AGCVKCHSGveLIKGAT--VLNEGRQSieKYGCYACHKIAGWGENRRkpGPSLLKIASKVDKEWFKSWVWEPRSFNKHSKMPAFFR 433
                              69*****9611455443..3444444411556666677889*9876445**********************************955 PP

                     FixO 140 llekkldlseie 151
                                + + + + ++
  PHY93_01995|PHY93_01995 434 QSN-NSKPEFVR 444
                              444.34444444 PP

  == domain 4  score: 14.8 bits;  conditional E-value: 1.5e-05
                     FixO 102 tGPDlaRvGgkysdeWhvkHlldPrsvvpesimPaykwllekkldlseiekklkalktlgvpyeeeeieeakadlkkqakeiaeel 187
                               GP l+  G k + +W v+ l++P + ++++imP+ +   +++ d+++   +l+  +  g ++ + +++  ++ l++  ++  ++ 
  PHY93_01995|PHY93_01995 507 AGPWLTGLGSKVQPDWLVTWLKKPSHYQEDTIMPSLRLSDTEANDIATYLLSLRNKSFEGLTFAKFDLKARDELLSDYLSAFDTKA 592
                              69***********************************9999999999999999988888888888766666655555555444444 PP

                     FixO 188 keeelk 193
                              ++++  
  PHY93_01995|PHY93_01995 593 SATAKV 598
                              433333 PP

  == domain 5  score: -2.5 bits;  conditional E-value: 2.9
                     FixO  59 regCyaCH 66 
                              + gCy+CH
  PHY93_01995|PHY93_01995 617 KYGCYSCH 624
                              779***** PP

  == domain 6  score: -3.0 bits;  conditional E-value: 4
                     FixO 115 deWhvkHlldPrs 127
                              d W ++Hl++Pr 
  PHY93_01995|PHY93_01995 663 DGWITAHLQNPRM 675
                              78*********95 PP

  == domain 7  score: 1.5 bits;  conditional E-value: 0.17
                     FixO 104 PDlaRvGgkysdeWhvkHlldPrsvvp..esimPaykw 139
                              P la +G++ +++W ++ l+ P  + p     mP+++ 
  PHY93_01995|PHY93_01995 768 PRLANEGHRVQTNWLYHFLQAPVPIRPwlTIRMPTFNL 805
                              789*******************9998833445888775 PP

  == domain 8  score: -2.4 bits;  conditional E-value: 2.8
                     FixO  48 pleleGr.diyiregCyaCHs 67 
                              p e eG  +++   +C++CHs
  PHY93_01995|PHY93_01995 837 PGEREGAvKLWAAYNCVSCHS 857
                              555555336788889*****9 PP

  == domain 9  score: 9.0 bits;  conditional E-value: 0.00089
                     FixO 103 GPDlaRvGgkysdeWhvkHlldPrsvvpesimPay 137
                               PDl++   +   +W    +++P+++ p++ mP++
  PHY93_01995|PHY93_01995 867 APDLHKASARLRPSWIKLWITNPQTILPGTTMPSF 901
                              5********************************97 PP

>> Cytochrom_c3_2  Cytochrome c3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.8   0.3   0.00026      0.26      22      67 ..     247     302 ..     238     316 .. 0.72
   2 !   10.7   0.4   0.00055      0.55      21      66 ..     344     385 ..     328     392 .. 0.79
   3 ?    1.7   0.0      0.36   3.5e+02      25      36 ..     483     494 ..     462     508 .. 0.58
   4 ?    2.2   0.0      0.25   2.5e+02      38      66 ..     597     625 ..     588     629 .. 0.66
   5 ?    1.6   0.0       0.4   3.9e+02      54      66 ..     735     747 ..     718     754 .. 0.66
   6 ?    1.3   0.0      0.49   4.9e+02       8      14 ..     851     857 ..     837     869 .. 0.68

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00026
                              THHHHHHHHHHH--HHHCHTTSST..........TSSBTTSSC.TSSS-GGGTS-T CS
           Cytochrom_c3_2  22 kaveeekClsCHgkleelakktkea.........keanphksh.ekeleCteCHke 67 
                              ++ ++++C++CH   ++   +++++           +  +++h +k + Ct+CH +
  PHY93_01995|PHY93_01995 247 QTPKADRCITCHTFIDQPGYEKEKQpfrthpkldLMVGIESKHpMKVTGCTSCHGG 302
                              5678999******8888777666656777777765566666773466669999976 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 0.00055
                              TTHHHHHHHHHHH--HHHCHTTSST.TSSBTTSSCTSSS-GGGTS- CS
           Cytochrom_c3_2  21 dkaveeekClsCHgkleelakktkeakeanphkshekeleCteCHk 66 
                              + + +e+ C++CH+ +e ++ +t      n+ ++  ++  C +CHk
  PHY93_01995|PHY93_01995 344 RLSQTEAGCVKCHSGVELIKGATV----LNEGRQSIEKYGCYACHK 385
                              445667889999999999999887....588888889999999998 PP

  == domain 3  score: 1.7 bits;  conditional E-value: 0.36
                              HHHHHHHHH--H CS
           Cytochrom_c3_2  25 eeekClsCHgkl 36 
                              ++  Cl CHg  
  PHY93_01995|PHY93_01995 483 SQVGCLGCHGVD 494
                              444455555533 PP

  == domain 4  score: 2.2 bits;  conditional E-value: 0.25
                              HCHTTSST.TSSBTTSSCTSSS-GGGTS- CS
           Cytochrom_c3_2  38 elakktkeakeanphkshekeleCteCHk 66 
                              ++ak ++++k+ +  k+  ++  C +CH+
  PHY93_01995|PHY93_01995 597 KVAKMNDREKTLDLGKRSIGKYGCYSCHN 625
                              44444444456666666678888888886 PP

  == domain 5  score: 1.6 bits;  conditional E-value: 0.4
                              SCTSSS-GGGTS- CS
           Cytochrom_c3_2  54 shekeleCteCHk 66 
                              + +++ +C  CH+
  PHY93_01995|PHY93_01995 735 KVAGKYNCMGCHQ 747
                              4455666666665 PP

  == domain 6  score: 1.3 bits;  conditional E-value: 0.49
                              TGGGTSS CS
           Cytochrom_c3_2   8 kCadCHt 14 
                              +C +CH+
  PHY93_01995|PHY93_01995 851 NCVSCHS 857
                              3444443 PP

>> Cytochrome_C554  Cytochrome c554 and c-prime
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.5   1.5     0.033        33      46      84 .]     249     301 ..     229     301 .. 0.65
   2 !   15.1   5.7   3.3e-05     0.033       2      83 ..     296     384 ..     295     385 .. 0.70
   3 ?    3.9   0.0       0.1     1e+02      67      84 .]     475     492 ..     457     493 .. 0.83
   4 ?    2.0   0.0      0.39   3.9e+02      22      56 ..     593     625 ..     581     633 .. 0.58
   5 ?   -0.0   0.0       1.7   1.7e+03      44      55 ..     735     746 ..     720     752 .. 0.67
   6 ?    4.3   0.0     0.077        76      45      63 ..     846     864 ..     821     876 .. 0.78

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.033
                              TT-TTTGGGSB....STTTSTT--..........-SSS--GGGBSS-HHHHH- CS
          Cytochrome_C554  46 eeapeClkCHa....tgagkdkgf..........vlkektkllagVqCesCHg 84 
                               +a +C++CH+    +g++k+k+           v  e+++ ++  +C sCHg
  PHY93_01995|PHY93_01995 249 PKADRCITCHTfidqPGYEKEKQPfrthpkldlmVGIESKHPMKVTGCTSCHG 301
                              46789999997444467777666534444333322225566688889****98 PP

  == domain 2  score: 15.1 bits;  conditional E-value: 3.3e-05
                              HHHHTH...HHHHHHTTSTGGGTTGGGSTTSSHHHHHHTT--TT....S--TT-TTTGGGSBSTTTSTT---SSS--GGGBSS-HH CS
          Cytochrome_C554   2 CaeCHe...eqyeswkkskhakaleslkkekkaeakkkakldpa....kdaeeapeClkCHatgagkdkgfvlkektkllagVqCe 80 
                              C++CH    + +  +++ +h    e+ +ke  +++  k   + a    + +++++ C+kCH      ++++vl+e  + ++  +C 
  PHY93_01995|PHY93_01995 296 CTSCHGgegQRVVDFNSVAHMPDSEKQEKEWIQKYGWKEPHHVAspmlRLSQTEAGCVKCHSGVELIKGATVLNEGRQSIEKYGCY 381
                              *****73335677888888887777666554444433322222233333367899*******888888999999************ PP

                              HHH CS
          Cytochrome_C554  81 sCH 83 
                              +CH
  PHY93_01995|PHY93_01995 382 ACH 384
                              *** PP

  == domain 3  score: 3.9 bits;  conditional E-value: 0.1
                              SSS--GGGBSS-HHHHH- CS
          Cytochrome_C554  67 lkektkllagVqCesCHg 84 
                               ++ +k++++V+C  CHg
  PHY93_01995|PHY93_01995 475 ADNGKKIISQVGCLGCHG 492
                              4667889999*******8 PP

  == domain 4  score: 2.0 bits;  conditional E-value: 0.39
                              TGGGSTTSSHHHHHHTT--TTS--TT-TTTGGGSB CS
          Cytochrome_C554  22 leslkkekkaeakkkakldpakdaeeapeClkCHa 56 
                               ++ k  k +   ++++ld  k++  +  C++CH 
  PHY93_01995|PHY93_01995 593 SATAKVAKMND--REKTLDLGKRSIGKYGCYSCHN 625
                              33333322222..2233555566667888999984 PP

  == domain 5  score: -0.0 bits;  conditional E-value: 1.7
                              --TT-TTTGGGS CS
          Cytochrome_C554  44 daeeapeClkCH 55 
                              ++  + +C++CH
  PHY93_01995|PHY93_01995 735 KVAGKYNCMGCH 746
                              444566788887 PP

  == domain 6  score: 4.3 bits;  conditional E-value: 0.077
                              -TT-TTTGGGSBSTTTSTT CS
          Cytochrome_C554  45 aeeapeClkCHatgagkdk 63 
                                 a +C++CH  g+ kd 
  PHY93_01995|PHY93_01995 846 LWAAYNCVSCHSMGFTKDA 864
                              456789999**99998875 PP

>> Paired_CXXCH_1  Doubled CXXCH motif (Paired_CXXCH_1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.6   0.0     0.054        54      29      38 ..     250     259 ..     240     278 .. 0.72
   2 !   12.3   0.5   0.00011      0.11       3      38 ..     290     357 ..     289     361 .. 0.88
   3 ?    4.5   3.0     0.028        28       7      38 ..     350     385 ..     346     389 .. 0.73
   4 ?    2.4   0.4      0.13   1.3e+02       8      14 ..     379     385 ..     372     399 .. 0.74
   5 ?    1.9   0.0      0.19   1.9e+02       8      14 ..     486     492 ..     480     505 .. 0.71
   6 ?    4.2   0.0     0.036        36      32      38 ..     619     625 ..     605     632 .. 0.73
   7 ?    2.3   0.0      0.14   1.4e+02       8      14 ..     741     747 ..     729     752 .. 0.64
   8 ?    2.6   0.1      0.11   1.1e+02       8      14 ..     851     857 ..     847     872 .. 0.79

  Alignments for each domain:
  == domain 1  score: 3.6 bits;  conditional E-value: 0.054
           Paired_CXXCH_1  29 gaalCysCHd 38 
                              +a+ C +CH+
  PHY93_01995|PHY93_01995 250 KADRCITCHT 259
                              4455555553 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 0.00011
           Paired_CXXCH_1   3 PvaegeClsCH.................................nphgsdnpkllkkakgaalCysCHd 38 
                              P++  +C+sCH                                 +ph  + p l   +++ a C++CH+
  PHY93_01995|PHY93_01995 290 PMKVTGCTSCHggegqrvvdfnsvahmpdsekqekewiqkygwkEPHHVASPMLR-LSQTEAGCVKCHS 357
                              899999*****************99999999999999999999888888888888.79999*******8 PP

  == domain 3  score: 4.5 bits;  conditional E-value: 0.028
           Paired_CXXCH_1   7 geClsCHnphgs.dnpkll...kkakgaalCysCHd 38 
                               +C +CH+     + +  l   +++ ++  Cy CH+
  PHY93_01995|PHY93_01995 350 AGCVKCHSGVELiKGATVLnegRQSIEKYGCYACHK 385
                              459999988877444555577766777888999996 PP

  == domain 4  score: 2.4 bits;  conditional E-value: 0.13
           Paired_CXXCH_1   8 eClsCHn 14 
                              +C +CH+
  PHY93_01995|PHY93_01995 379 GCYACHK 385
                              4666665 PP

  == domain 5  score: 1.9 bits;  conditional E-value: 0.19
           Paired_CXXCH_1   8 eClsCHn 14 
                              +Cl CH 
  PHY93_01995|PHY93_01995 486 GCLGCHG 492
                              3777774 PP

  == domain 6  score: 4.2 bits;  conditional E-value: 0.036
           Paired_CXXCH_1  32 lCysCHd 38 
                               CysCH+
  PHY93_01995|PHY93_01995 619 GCYSCHN 625
                              3555554 PP

  == domain 7  score: 2.3 bits;  conditional E-value: 0.14
           Paired_CXXCH_1   8 eClsCHn 14 
                              +C  CH+
  PHY93_01995|PHY93_01995 741 NCMGCHQ 747
                              3555554 PP

  == domain 8  score: 2.6 bits;  conditional E-value: 0.11
           Paired_CXXCH_1   8 eClsCHn 14 
                              +C sCH+
  PHY93_01995|PHY93_01995 851 NCVSCHS 857
                              5888885 PP

>> Cytochrom_NNT  NapC/NirT cytochrome c family, N-terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.4   0.2    0.0064       6.4     124     166 ..     250     302 ..     235     310 .. 0.81
   2 ?    2.8   0.1     0.085        85     151     167 ..     343     359 ..     329     363 .. 0.71
   3 ?   -1.2   0.0       1.4   1.4e+03     122     144 ..     481     503 ..     441     507 .. 0.67
   4 ?    3.8   0.0     0.042        42      85     136 ..     574     628 ..     562     633 .. 0.78
   5 ?    0.2   0.0      0.53   5.3e+02     119     134 ..     733     748 ..     717     758 .. 0.70
   6 ?    1.6   0.0       0.2     2e+02      39      46 ..     852     859 ..     840     876 .. 0.73

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.0064
            Cytochrom_NNT 124 dsreCrnCHseeamdlekqkkkaakahkkaa..........eeektCidCHkg 166
                              +   C +CH++++    +++k+  ++h k             + + C +CH g
  PHY93_01995|PHY93_01995 250 KADRCITCHTFIDQPGYEKEKQPFRTHPKLDlmvgieskhpMKVTGCTSCHGG 302
                              5678********99999999999999999888889987765555689999977 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.085
            Cytochrom_NNT 151 kkaaeeektCidCHkgi 167
                               +  ++e+ C+ CH g+
  PHY93_01995|PHY93_01995 343 LRLSQTEAGCVKCHSGV 359
                              44456677888888886 PP

  == domain 3  score: -1.2 bits;  conditional E-value: 1.4
            Cytochrom_NNT 122 andsreCrnCHseeamdlekqkk 144
                                    C  CH  +  + +++k 
  PHY93_01995|PHY93_01995 481 IISQVGCLGCHGVDGLEDQSNKV 503
                              44456899999888666655554 PP

  == domain 4  score: 3.8 bits;  conditional E-value: 0.042
            Cytochrom_NNT  85 iqaskevlaklvgkidtkekfeakrlelaerewarmkands...reCrnCHseea 136
                              ++a  e+l+ ++  +dtk +  ak  ++++re++    + s     C +CH+ e 
  PHY93_01995|PHY93_01995 574 LKARDELLSDYLSAFDTKASATAKVAKMNDREKTLDLGKRSigkYGCYSCHNLEG 628
                              4588999999999***********9999999998765555522268*****9875 PP

  == domain 5  score: 0.2 bits;  conditional E-value: 0.53
            Cytochrom_NNT 119 rmkandsreCrnCHse 134
                               mk     +C+ CH+ 
  PHY93_01995|PHY93_01995 733 AMKVAGKYNCMGCHQI 748
                              4555555666666665 PP

  == domain 6  score: 1.6 bits;  conditional E-value: 0.2
            Cytochrom_NNT  39 CvsCHeme 46 
                              CvsCH+m 
  PHY93_01995|PHY93_01995 852 CVSCHSMG 859
                              88888875 PP

>> PSCyt3  Protein of unknown function (DUF1588)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.9   0.0   0.00042      0.42      57      85 ..     240     268 ..     222     271 .. 0.77
   2 ?   -2.7   0.3       7.4   7.4e+03      68      75 ..     293     300 ..     286     302 .. 0.75
   3 ?    1.2   0.2      0.45   4.5e+02      62      78 ..     343     359 ..     314     366 .. 0.78
   4 ?   -0.9   0.2         2     2e+03      64      77 ..     373     386 ..     363     388 .. 0.74
   5 ?    0.6   0.0      0.71   7.1e+02      57      77 ..     602     626 ..     577     634 .. 0.57
   6 ?    2.3   0.0       0.2     2e+02      56      77 ..     727     748 ..     700     759 .. 0.71
   7 ?    0.4   0.0      0.81   8.1e+02      58      77 ..     839     858 ..     813     861 .. 0.74

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00042
                   PSCyt3  57 ttrerleahrsaeaCasCHelidplGfal 85 
                              t  + ++++ +a++C +CH++id++G+  
  PHY93_01995|PHY93_01995 240 TDDRYFRQTPKADRCITCHTFIDQPGYEK 268
                              44555667779999************875 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 7.4
                   PSCyt3  68 aeaCasCH 75 
                               + C sCH
  PHY93_01995|PHY93_01995 293 VTGCTSCH 300
                              456***** PP

  == domain 3  score: 1.2 bits;  conditional E-value: 0.45
                   PSCyt3  62 leahrsaeaCasCHeli 78 
                              l+  ++++ C +CH+ +
  PHY93_01995|PHY93_01995 343 LRLSQTEAGCVKCHSGV 359
                              555677888*****865 PP

  == domain 4  score: -0.9 bits;  conditional E-value: 2
                   PSCyt3  64 ahrsaeaCasCHel 77 
                              +  ++  C +CH++
  PHY93_01995|PHY93_01995 373 QSIEKYGCYACHKI 386
                              4456778*****85 PP

  == domain 5  score: 0.6 bits;  conditional E-value: 0.71
                   PSCyt3  57 ttrerlea....hrsaeaCasCHel 77 
                              + re++         +  C sCH+l
  PHY93_01995|PHY93_01995 602 NDREKTLDlgkrSIGKYGCYSCHNL 626
                              444443331200224455*****85 PP

  == domain 6  score: 2.3 bits;  conditional E-value: 0.2
                   PSCyt3  56 lttrerleahrsaeaCasCHel 77 
                               t+ ++  +   + +C++CH++
  PHY93_01995|PHY93_01995 727 ETLYNNAMKVAGKYNCMGCHQI 748
                              466666667778899*****84 PP

  == domain 7  score: 0.4 bits;  conditional E-value: 0.81
                   PSCyt3  58 trerleahrsaeaCasCHel 77 
                               re   +  +a +C sCH++
  PHY93_01995|PHY93_01995 839 EREGAVKLWAAYNCVSCHSM 858
                              5666666778889*****85 PP

>> Cytochrom_CIII  Class III cytochrome C family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   0.2      0.36   3.6e+02      46      85 ..     250     260 ..     237     277 .. 0.58
   2 ?    8.5   5.5    0.0025       2.5      26     102 .]     287     384 ..     266     384 .. 0.64
   3 ?    0.2   0.0      0.96   9.6e+02      77      89 ..     485     497 ..     460     507 .. 0.69
   4 ?   -0.9   0.0       2.1     2e+03      78      84 ..     619     625 ..     590     632 .. 0.69
   5 ?    3.9   0.0     0.067        67      64      84 ..     728     747 ..     719     752 .. 0.73
   6 ?    0.9   0.0       0.6     6e+02      77      85 ..     850     858 ..     840     872 .. 0.75

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.36
                              STS-CTCTS-SSSTTTSTTCHHHHHHCSSTTTCHHHHHHH CS
           Cytochrom_CIII  46 eiekcstcHaeekekkekkslekavHkkkaaksCvgCHkk 85 
                              +                               +C+ CH+ 
  PHY93_01995|PHY93_01995 250 KA-----------------------------DRCITCHTF 260
                              33.............................455555543 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.0025
                              HHHT.TSHTHHHTSTTCTTSCSTS-CTC.TS-SSSTTTSTTCH......HHHHHCSSTT.......TCHHHHHHHHHHTSHH.... CS
           Cytochrom_CIII  26 kaHa.evkeCeeCHhkeeekeeiekcst.cHaeekekkekksl......ekavHkkkaa.......ksCvgCHkkkkkekke.... 92 
                              ++H  +v+ C++CH    e++++  +++ +H  + ++k++k++      ++  H ++ +       + Cv+CH+  +  k      
  PHY93_01995|PHY93_01995 287 SKHPmKVTGCTSCHGG--EGQRVVDFNSvAHMPD-SEKQEKEWiqkygwKEPHHVASPMlrlsqteAGCVKCHSGVELIKGAtvln 369
                              355547889******9..5566666666488766.444444443444546666666666999988899*****9776554444555 PP

                              .....HCHHSHHHHC CS
           Cytochrom_CIII  93 .....keptkCaech 102
                                    e+ +C +ch
  PHY93_01995|PHY93_01995 370 egrqsIEKYGCYACH 384
                              555544555566665 PP

  == domain 3  score: 0.2 bits;  conditional E-value: 0.96
                              TCHHHHHHHHHHT CS
           Cytochrom_CIII  77 ksCvgCHkkkkke 89 
                                C+gCH     e
  PHY93_01995|PHY93_01995 485 VGCLGCHGVDGLE 497
                              5688888655444 PP

  == domain 4  score: -0.9 bits;  conditional E-value: 2.1
                              CHHHHHH CS
           Cytochrom_CIII  78 sCvgCHk 84 
                               C +CH+
  PHY93_01995|PHY93_01995 619 GCYSCHN 625
                              4666665 PP

  == domain 5  score: 3.9 bits;  conditional E-value: 0.067
                              TCHHHHHHCSSTTTCHHHHHH CS
           Cytochrom_CIII  64 kslekavHkkkaaksCvgCHk 84 
                              + +++a+  + +  +C+gCH+
  PHY93_01995|PHY93_01995 728 TLYNNAMKVAGKY-NCMGCHQ 747
                              5567777775555.9*****8 PP

  == domain 6  score: 0.9 bits;  conditional E-value: 0.6
                              TCHHHHHHH CS
           Cytochrom_CIII  77 ksCvgCHkk 85 
                               +Cv+CH+ 
  PHY93_01995|PHY93_01995 850 YNCVSCHSM 858
                              478888865 PP

>> DUF4085  Protein of unknown function (DUF4085)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   4.8    0.0002       0.2      28     154 ..      77     209 ..      54     215 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.0002
                  DUF4085  28 laeekeegedleellkeeleelKedLLkfLPkeilpyiqditlnsevaseevkkevdkwsreyekrfeqv..ldsyveyfnsiakk 111
                              l+    +ge++ + +k e+e++ ++L  +L k   + i++++ln ++ +   + ++    ++  +  +++  l+  +++fn+ +++
  PHY93_01995|PHY93_01995  77 LNTSLGKGEEIVASRKAEIEKAEKELKVILTKIKAQTIKNGVLNGDFSAATFQYQAAGAEHNEKEAAKKLeeLKIITDQFNQGKDN 162
                              445566899****************88889999999************9999988776554433333332113446899*****99 PP

                  DUF4085 112 lp..envkelfkkslHDa..vikkieresedlvleldcsggfseidk 154
                              l   ++  ++ ++ l D    +++ ++e +dl ++l+   + + +++
  PHY93_01995|PHY93_01995 163 LKgfQAEEKIIRAKLADLnkEVTSTQKEIKDLNMKLNLLQTAKATTD 209
                              97333455677888988522689999999999999997666555555 PP

>> DUF4407  Domain of unknown function (DUF4407)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4  11.7   0.00059      0.59     150     251 ..      52     174 ..      45     187 .. 0.89
   2 ?    3.5   0.3     0.038        38     131     173 ..     166     208 ..     164     213 .. 0.80

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.00059
                  DUF4407 150 daaearldalraeaqkeldgtkgtgttgvaGkgpaake.kkaqldaaqaelaelkakld....................atarlaa 214
                              + +++++++  ++aqke+d +k ++ +   Gkg++  + +ka++++a++el+ + +k++                    ++a  ++
  PHY93_01995|PHY93_01995  52 QIKRRHIEQDIKAAQKEIDAKKLAELNTSLGKGEEIVAsRKAEIEKAEKELKVILTKIKaqtikngvlngdfsaatfqyQAAGAEH 137
                              56788899999999999999996667777888877655489****************99*************************** PP

                  DUF4407 215 lraelaeleaerakeraasqaaaaaddGllarleald 251
                              +++e+a+  +e++ +++++++ +++ +G+ a+++++ 
  PHY93_01995|PHY93_01995 138 NEKEAAKKLEELKIITDQFNQGKDNLKGFQAEEKIIR 174
                              ********************************99964 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.038
                  DUF4407 131 ltaelaeleaqiaalqaeidaaearldalraeaqkeldgtkgt 173
                              ++ae + ++a++a+l++e+++ ++++++l+ +++   + + +t
  PHY93_01995|PHY93_01995 166 FQAEEKIIRAKLADLNKEVTSTQKEIKDLNMKLNLLQTAKATT 208
                              6788899999999999999999999999999988666655454 PP

>> zf-CHY  CHY zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   8.8      0.75   7.5e+02       9      73 ..     283     384 ..     243     386 .. 0.73
   2 ?    1.7   0.1      0.37   3.7e+02      18      27 ..     376     385 ..     362     394 .. 0.80
   3 ?    1.5   0.0      0.43   4.3e+02      20      27 ..     618     625 ..     609     638 .. 0.84
   4 ?    0.9   0.0      0.66   6.5e+02      19      27 ..     739     747 ..     727     763 .. 0.78
   5 ?    2.3   0.0      0.24   2.4e+02      19      28 ..     849     858 ..     844     876 .. 0.75

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.75
                   zf-CHY   9 vairapcCkklyaCreCH...................eeledhelerlevkev..lcllCeteqekavlCkkCkk........... 62 
                              v i+ +   k+  C +CH                   e++e++ ++++  ke   +++   +  +++  C kC++           
  PHY93_01995|PHY93_01995 283 VGIESKHPMKVTGCTSCHggegqrvvdfnsvahmpdsEKQEKEWIQKYGWKEPhhVASPMLRLSQTEAGCVKCHSgvelikgatvl 368
                              45566666677789999999999999999888888763344555666544443003333334445666688888788888888888 PP

                   zf-CHY  63 .....efaeyfCpiCk 73 
                                   ++++y C  C+
  PHY93_01995|PHY93_01995 369 negrqSIEKYGCYACH 384
                              8888789999999997 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.37
                   zf-CHY  18 klyaCreCHe 27 
                              + y C+ CH+
  PHY93_01995|PHY93_01995 376 EKYGCYACHK 385
                              5689999996 PP

  == domain 3  score: 1.5 bits;  conditional E-value: 0.43
                   zf-CHY  20 yaCreCHe 27 
                              y C++CH+
  PHY93_01995|PHY93_01995 618 YGCYSCHN 625
                              88999996 PP

  == domain 4  score: 0.9 bits;  conditional E-value: 0.66
                   zf-CHY  19 lyaCreCHe 27 
                               y+C  CH+
  PHY93_01995|PHY93_01995 739 KYNCMGCHQ 747
                              589999996 PP

  == domain 5  score: 2.3 bits;  conditional E-value: 0.24
                   zf-CHY  19 lyaCreCHee 28 
                              +y+C +CH+ 
  PHY93_01995|PHY93_01995 849 AYNCVSCHSM 858
                              79******53 PP

>> DUF4094  Domain of unknown function (DUF4094)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.1      0.43   4.3e+02       5      82 ..      22     102 ..      17     105 .. 0.42
   2 ?    7.7   1.2    0.0047       4.7      34      83 ..     141     199 ..     126     204 .. 0.78

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.43
                  DUF4094   5 vllLcvasflagllftnRl..wtvpsdiirqskeelkl....vsedcds..kdaesrskdilg.evskthkaiqtLdktissLeme 81 
                              +l + ++ + +++++ + +  w   + i+    e+l++    +++d +   k+   ++  +l+   +k+++ + + +  i + e e
  PHY93_01995|PHY93_01995  22 ILSFIFFVTTVWMFLDDYIkpW---KAIQV---ESLQIkrrhIEQDIKAaqKEIDAKKLAELNtSLGKGEEIVASRKAEIEKAEKE 101
                              4444455555667776665223...21111...22222111144444432222222233344444555555555556666666665 PP

                  DUF4094  82 L 82 
                              L
  PHY93_01995|PHY93_01995 102 L 102
                              5 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.0047
                  DUF4094  34 s..k..eelklvsedcds.kdaesr...skdilg.evskthkaiqtLdktissLemeLa 83 
                              +  k  eelk++++++++ kd  +    +++i++ +  + +k++++ +k i  L m+L 
  PHY93_01995|PHY93_01995 141 EaaKklEELKIITDQFNQgKDNLKGfqaEEKIIRaKLADLNKEVTSTQKEIKDLNMKLN 199
                              33325799999******985554446788899999**********************97 PP

>> SlyX  SlyX
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   0.6      0.58   5.8e+02      23      50 ..      85     112 ..      47     120 .. 0.82
   2 ?    8.4   0.3    0.0033       3.3      19      44 ..     177     202 ..     172     210 .. 0.90

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.58
                              HHHHHHHHHHHHHHHHHHHHHHHT-XXX CS
                     SlyX  23 ndvvaeqqqqidrlqrqlrllaerlkel 50 
                               ++va    +i++ +++l+ +  ++k+ 
  PHY93_01995|PHY93_01995  85 EEIVASRKAEIEKAEKELKVILTKIKAQ 112
                              5788999999999999999999998765 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.0033
                              HHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     SlyX  19 ieeLndvvaeqqqqidrlqrqlrlla 44 
                              + +Ln++v+  q++i+ l  +l+ll+
  PHY93_01995|PHY93_01995 177 LADLNKEVTSTQKEIKDLNMKLNLLQ 202
                              789*******************9997 PP

>> COG2  COG (conserved oligomeric Golgi) complex component, COG2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   1.9      0.23   2.3e+02      66     120 ..      50     106 ..      45     118 .. 0.62
   2 ?    7.4   0.2    0.0046       4.5      62     100 ..     161     199 ..     152     211 .. 0.84

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.23
                     COG2  66 glqeeleevesplaaarkkvesvr.eklsereeeveskleeak.eleekrellklll 120
                              +lq + + +e++++aa+k++++ + ++l+    + e+ ++ +k e+e++++ lk++l
  PHY93_01995|PHY93_01995  50 SLQIKRRHIEQDIKAAQKEIDAKKlAELNTSLGKGEEIVASRKaEIEKAEKELKVIL 106
                              566677777777777777777654356666666666666654414555555555544 PP

  == domain 2  score: 7.4 bits;  conditional E-value: 0.0046
                     COG2  62 ghLvglqeeleevesplaaarkkvesvreklsereeeve 100
                              ++L+g+q+e + ++ +la + k+v+s+++++++   +++
  PHY93_01995|PHY93_01995 161 DNLKGFQAEEKIIRAKLADLNKEVTSTQKEIKDLNMKLN 199
                              68999**********************999998877765 PP

>> UPF0242  Uncharacterised protein family (UPF0242) N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   5.4      0.45   4.4e+02     120     179 ..      49     109 ..      43     116 .. 0.86
   2 ?   11.0   0.8   0.00034      0.34      66     130 ..     138     202 ..     117     240 .. 0.75

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.45
                  UPF0242 120 qqLqekleaiaedfeelklelee.qLaekqellqeyqetieeqrsvlekrqdqieqLeskV 179
                              ++Lq+k  +i +d+++ ++e+++ +Lae ++ l + +e + + ++++ek +++ + + +k+
  PHY93_01995|PHY93_01995  49 ESLQIKRRHIEQDIKAAQKEIDAkKLAELNTSLGKGEEIVASRKAEIEKAEKELKVILTKI 109
                              68999999999****9999998537999999999999999999999999988877766666 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.00034
                  UPF0242  66 ekskleekeaklteld...eglktkeealeelqeeeeeLkeeldakeeelerlkeenqqLqekleaia 130
                              ++   +e  +kl el+   +++++ +++l+  q+ee+  + +l+  ++e+   ++e + L++kl+  +
  PHY93_01995|PHY93_01995 138 NE---KEAAKKLEELKiitDQFNQGKDNLKGFQAEEKIIRAKLADLNKEVTSTQKEIKDLNMKLNLLQ 202
                              22...23334455555555899**********************************999999987544 PP

>> AAA_13  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5  15.4     0.011        11     351     468 ..      58     199 ..      40     204 .. 0.69

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.011
                   AAA_13 351 pfksvelesvkakiesikklvaeineliakhNekvanleeekeeakkklelhlv............................eele 408
                              + +  +++ ++++i+   k++ae+n++  k  e+va+ ++e e+a+k+l+  l                             e+ e
  PHY93_01995|PHY93_01995  58 IEQ--DIKAAQKEID--AKKLAELNTSLGKGEEIVASRKAEIEKAEKELKVILTkikaqtikngvlngdfsaatfqyqaagaEHNE 139
                              222..3333344444..455666666666666666666666666666666655555666666666666666666666666655555 PP

                   AAA_13 409 seldeykkkykklekaieklekelkeeeaelkkleeeikeLekqlrdekpaaeeinkeLk 468
                              +e  +  +++k ++++ ++ +++lk  +ae k ++++ ++L k++++ ++ ++++n +L+
  PHY93_01995|PHY93_01995 140 KEAAKKLEELKIITDQFNQGKDNLKGFQAEEKIIRAKLADLNKEVTSTQKEIKDLNMKLN 199
                              555555578899********************************************9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (934 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1127  (0.0628591); expected 358.6 (0.02)
Passed bias filter:                      631  (0.0351944); expected 358.6 (0.02)
Passed Vit filter:                        97  (0.00541023); expected 17.9 (0.001)
Passed Fwd filter:                        30  (0.00167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              18  [number of targets reported over threshold]
# CPU time: 1.04u 0.30s 00:00:01.34 Elapsed: 00:00:00.51
# Mc/sec: 5510.41
//
Query:       PHY93_02000|PHY93_02000  [L=205]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.2e-22   78.9  13.0    7.1e-22   78.5  13.0    1.2  1  COX3      Cytochrome c oxidase subunit III
  ------ inclusion threshold ------
      0.049   13.0   0.1      0.064   12.6   0.1    1.1  1  RNB       RNB domain
        1.2    8.8   5.4        7.2    6.2   1.3    2.4  2  DUF1673   Protein of unknown function (DUF1673)


Domain annotation for each model (and alignments):
>> COX3  Cytochrome c oxidase subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.5  13.0   1.2e-25   7.1e-22      77     254 ..      25     205 .]      11     205 .] 0.91

  Alignments for each domain:
  == domain 1  score: 78.5 bits;  conditional E-value: 1.2e-25
                              HHHHHHHHHHHHHHHHHHHHHHHH.HHHS--GGGTSSSS-TT-----TTSHHHHHHHHHHHHHHHHHHHHHHHHTTBHHHHHHHHH CS
                     COX3  77 klGlilfiisevllflalfwaffh.salsPtvelGatwpPvGikavnPlevPllntiillssGvtvtyahhsliegnrkkalkgll 161
                              k+G+ lf++++++ f ++++a+    a sP       w Pv  +a+  + +  + t +l++s v++  +  +  ++nrk +l+ ll
  PHY93_02000|PHY93_02000  25 KIGMWLFLVTDAMSFSGFLIAYAVlRATSP------NW-PVPSHALGGVGLSGFMTFLLICSSVSMVLTIDACKQRNRKAMLNWLL 103
                              79*******************943133344......57.6899******************************************* PP

                              HHHHHHHHHHHHHHHHHHH.........-SS-TTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--BSSB-HHHHHHHHH CS
                     COX3 162 ltillavlftllqaveyle.........asftisdgvyGsvfylatGlhglhviigtillavallrllkyhltknhhlGfeaaily 238
                              +ti+ ++ f+ +q++ey++          s+t   + + s+f+  tG+hglhv+ g i+l+  + +  +  + +  ++ +e+a l+
  PHY93_02000|PHY93_02000 104 FTIFGGASFLSIQMYEYSHlighmgmsfNSYTHGTSLFASTFFSITGFHGLHVLSGVIYLITMYVHAQRGDFDNGEYNQLEIAGLF 189
                              *****************754444443335789999*************************************************** PP

                              HHHHHHHHHHHHHHTT CS
                     COX3 239 whfvdvvwlflyvsvy 254
                              whfvd+vw++++ +vy
  PHY93_02000|PHY93_02000 190 WHFVDLVWILVFTFVY 205
                              ************9998 PP

>> RNB  RNB domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.1   1.1e-05     0.064     259     306 ..      85     139 ..      69     139 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 1.1e-05
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.......xxxxxxxxxxxxxxxx RF
                      RNB 259 eslekleeeeaeqllselllrllkeakyssep.......vgHfgLaleeYthfTS 306
                                ++++++++ + +l+ ll  ++  a++ s +       +gH+g++++ Yth TS
  PHY93_02000|PHY93_02000  85 LTIDACKQRNRKAMLNWLLFTIFGGASFLSIQmyeyshlIGHMGMSFNSYTHGTS 139
                              567889999999999999999888887765556777888***************9 PP

>> DUF1673  Protein of unknown function (DUF1673)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.2   1.3    0.0012       7.2     137     195 ..      89     148 ..      26     158 .. 0.70
   2 ?    4.5   0.2    0.0041        25     163     205 ..     159     201 ..     153     205 .] 0.79

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.0012
                  DUF1673 137 ievtenenpvlrwllrlll.lviflliavllillsyvesiagelqlge.vvssfisgllll 195
                              +   +n++ +l+wll +++    fl+i  ++ +   +  ++  +   +  +s+f s ++++
  PHY93_02000|PHY93_02000  89 ACKQRNRKAMLNWLLFTIFgGASFLSI-QMYEYSHLIGHMGMSFNSYThGTSLFASTFFSI 148
                              334567777888876543314455555.566666666666666654446666666664443 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.0041
                  DUF1673 163 avllillsyvesiagelqlgevvssfisgllllllwliylqvi 205
                               v++ +++yv+++ g++ +ge   + i+gl+  ++ l++++v+
  PHY93_02000|PHY93_02000 159 GVIYLITMYVHAQRGDFDNGEYNQLEIAGLFWHFVDLVWILVF 201
                              579999***************9999999988777666665554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (205 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       674  (0.0375927); expected 358.6 (0.02)
Passed bias filter:                      326  (0.0181828); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.25s 00:00:00.80 Elapsed: 00:00:00.48
# Mc/sec: 1284.99
//
Query:       PHY93_02005|PHY93_02005  [L=67]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.03   14.8   0.1      0.034   14.6   0.1    1.1  1  DUF2367   Uncharacterized conserved protein (DUF2367)


Domain annotation for each model (and alignments):
>> DUF2367  Uncharacterized conserved protein (DUF2367)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.1   1.9e-06     0.034      57      99 ..      21      65 ..       5      66 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 1.9e-06
                  DUF2367 57 gCpaCrvgvLeddft..clGilcaifffPlGilcClalrerrCsn 99
                             +Cp+C      d++    +G+++ +++fP+  l+   ++++  +n
  PHY93_02005|PHY93_02005 21 ACPMCSGQDPRDKYYiyVVGVFILLIYFPMFYLFKTSMKHKNVNN 65
                             89***99999998852369*********************99887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (67 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       664  (0.037035); expected 358.6 (0.02)
Passed bias filter:                      395  (0.0220313); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.43
# Mc/sec: 466.19
//
Query:       PHY93_17040|PHY93_17040  [L=137]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (137 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       332  (0.0185175); expected 358.6 (0.02)
Passed bias filter:                      135  (0.0075297); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.26s 00:00:00.70 Elapsed: 00:00:00.44
# Mc/sec: 936.11
//
Query:       PHY93_02010|PHY93_02010  [L=184]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.9e-44  149.3  10.9    6.9e-44  149.3  10.9    1.5  2  DUF420    Protein of unknown function (DUF420)
  ------ inclusion threshold ------
       0.11   12.6   0.9        0.6   10.3   0.0    2.3  2  CCSMST1   CCSMST1 family
       0.14   12.3  11.0       0.18   12.0   3.0    2.6  2  DUF2306   Predicted membrane protein (DUF2306)


Domain annotation for each model (and alignments):
>> DUF420  Protein of unknown function (DUF420)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.3       1.1   6.4e+03      43     118 ..      28      33 ..      16      40 .. 0.49
   2 !  149.3  10.9   1.1e-47   6.9e-44       1     132 []      53     181 ..      53     181 .. 0.98

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 1.1
                   DUF420  43 alFlvlYllkhalagetkfggpeeegvirpvYlaiLitHivLavvvvplvlvtlvlalkgkfekHrkiaritvpiw 118
                              ++Fl                                                                      +w
  PHY93_02010|PHY93_02010  28 IAFL----------------------------------------------------------------------VW 33 
                              1222......................................................................22 PP

  == domain 2  score: 149.3 bits;  conditional E-value: 1.1e-47
                   DUF420   1 lpalnavlnalaavllllglvaikkgkieaHrklmllafvlsalFlvlYllkhalagetkfggpeeegvirpvYlaiLitHivLav 86 
                              lpalna+ln+l+ ++l++gl +ik++ki++H+++m++a+++salFl++Y+++h ++g+tkf    ++g+irp+Y+ iLi+Hi+L++
  PHY93_02010|PHY93_02010  53 LPALNAFLNTLTSFFLITGLTFIKQNKIDWHKRAMFAATGTSALFLASYITYHNFHGDTKFI---ATGIIRPIYFGILISHILLSA 135
                              799***********************************************************...679****************** PP

                   DUF420  87 vvvplvlvtlvlalkgkfekHrkiaritvpiwlyvavtGvvvYllL 132
                              + vpl+l tl+lal++kf +H+k+arit+piwlyv+vtGv+++++L
  PHY93_02010|PHY93_02010 136 IQVPLILSTLYLALTKKFIRHKKVARITFPIWLYVSVTGVLIFIIL 181
                              *******************************************987 PP

>> CCSMST1  CCSMST1 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0    0.0001       0.6      24      55 ..      11      42 ..       1      52 [. 0.74
   2 ?    0.2   0.4      0.15   8.7e+02      27      51 ..     163     182 ..     149     184 .] 0.53

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.0001
                  CCSMST1 24 qkeerpwykvlvislslaaflvYFcilReend 55
                             ++++ +   + ++s+s++aflv+ +++    d
  PHY93_02010|PHY93_02010 11 SDDKNVFIVIGILSFSVIAFLVWLIYFKPGAD 42
                             4445666666789**********999976655 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.15
                  CCSMST1  27 erpwykvlvislslaaflvYFcilR 51 
                              + p++  ++++     +l++ +ilR
  PHY93_02010|PHY93_02010 163 TFPIWLYVSVT----GVLIF-IILR 182
                              45555544444....44444.4444 PP

>> DUF2306  Predicted membrane protein (DUF2306)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   3.0     3e-05      0.18      62     120 ..      53     109 ..      16     124 .. 0.77
   2 ?    4.6   1.2    0.0057        34       3      52 ..     129     177 ..     127     181 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 3e-05
                  DUF2306  62 lllgflllallwlvftvlalvairrrdfaaHrawmirsYalalaavtlrlvllvlillv 120
                              l +++++l+ l+ +f++ +l+ i++ +++ H+++m  +     +a +l+ ++   ++  
  PHY93_02010|PHY93_02010  53 LPALNAFLNTLTSFFLITGLTFIKQNKIDWHKRAMFAA--TGTSALFLASYITYHNFHG 109
                              4567899****************************865..4588888888766666544 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.0057
                  DUF2306   3 lHialalvalllGalqlvkrlrakrpklHrlaGrvyvlavllaalsglfl 52 
                               Hi+l+ + ++l + +l  +l +k +  H+ + r++++  l + ++g+ +
  PHY93_02010|PHY93_02010 129 SHILLSAIQVPLILSTLYLALTKKFI-RHKKVARITFPIWLYVSVTGVLI 177
                              69*******************99966.7*************999999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (184 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       803  (0.0447878); expected 358.6 (0.02)
Passed bias filter:                      304  (0.0169558); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.27s 00:00:00.76 Elapsed: 00:00:00.46
# Mc/sec: 1205.82
//
Query:       PHY93_02015|PHY93_02015  [L=383]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.5e-16   60.3   0.0    1.9e-16   60.0   0.0    1.1  1  Aminotran_5      Aminotransferase class-V
  ------ inclusion threshold ------
      0.025   14.4   0.3      0.064   13.0   0.1    1.8  2  Methyltransf_31  Methyltransferase domain
       0.16   12.0   0.0       0.46   10.5   0.0    1.7  2  B12-binding      B12 binding domain
       0.16   12.4   1.2        7.8    7.0   0.2    3.2  3  Propep_M14       Carboxypeptidase activation peptide


Domain annotation for each model (and alignments):
>> Aminotran_5  Aminotransferase class-V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.0   0.0   4.3e-20   1.9e-16      39     302 ..      52     319 ..      27     363 .. 0.82

  Alignments for each domain:
  == domain 1  score: 60.0 bits;  conditional E-value: 4.3e-20
                              HHHHHHHHHHHHHHHHHHT-STGGGEEEESSHHHHHHHHHHHCCCC-TTTSEEEEETTSHGGGTHHHHHHHHHHTEEEEEEEBETT CS
              Aminotran_5  39 keatkaveearekvaelinaeseeeiiftsGtteainlvalslarslkpgdeivvteaehhanlvpwqelakrtgakvkvipldee 124
                              + +t+++ e+++ +a++++ ++  +i+f  +t e +   + ++     +++++++t++e  +     ++l+++  ++++++++d+ 
  PHY93_02015|PHY93_02015  52 HIFTNKLPETQKLIADVLKLSTPTQIVFAPNTHEFVYRLLSCFD--PLKKTSVLTTDSEFYSFDRQVNRLSEASIIEIDKVQVDPF 135
                              558999*************************9988777777773..7899************************************ PP

                              SCBEGGGHHHH--TTEEEEEEESBETTTTE.B--HHHHHHHHHHTT-EEEEE-TTTTTTS---HHHHTES.EEEEETTT.TTSSTT CS
              Aminotran_5 125 geldldelekllnektklvaithvsnvtGt.iqpveeigklakkkgalvlvDaaqavghipidvkklgvD.flafsghK.llgPtG 207
                               + +   +ek  n+ ++++++++v   +G+ i+ +++i++++k+ + ++++D+  +++  p d+++++   f+ +++ K   g +G
  PHY93_02015|PHY93_02015 136 DNFEERFIEKIKNNSYDMIFFSQVFFNSGMaIKNLKAIVDAVKDPQTMIVIDGYHGFMALPTDLSEIESRvFYLSGSYKyAQGGEG 221
                              ****888888888*****************************************************9976155566789888999* PP

                              -EEEEEEHHHHHTS..SS.STTSEEEEETTEEE....EHCTTGGGS.SS--HHHHHHHHHHHHHH..HCHHHHHHHHHHHHHHHHH CS
              Aminotran_5 208 iGvlyvrkellekleplllggemveevsleett....faeapskfeaGTpnvagiiglgaaleyl..eeigleaiekhekelaeyl 287
                                +l v k    k +pl++g     + +l +++    + ++ ++f + T    +++ l+a+l+++  +++ +e i++h ++l++  
  PHY93_02015|PHY93_02015 222 CCFLHVPK--NSKHRPLYTGWF-AGHSELSGAGgsvnYPDNGFRFAGSTMDFTALYRLNAVLNLFkkDNLTVEIIHAHVQKLQQNF 304
                              *****999..667777777644.33333333333444999999**999*****************7778999************** PP

                              HHHHCTSTTEEEES. CS
              Aminotran_5 288 lerlkslpgvrlygp 302
                              +e l s+++ +l ++
  PHY93_02015|PHY93_02015 305 REHLLSIDHHYLTEK 319
                              ********9998443 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0       1.2   5.5e+03      70      99 ..      45      70 ..      37      80 .. 0.61
   2 ?   13.0   0.1   1.4e-05     0.064      25      97 ..     103     177 ..      85     212 .. 0.78

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 1.2
          Methyltransf_31 70 ledekfDlilsnevlnaladpdkileeier 99
                             + d+k D i++n +    ++ +k +  + +
  PHY93_02015|PHY93_02015 45 FVDDKWDHIFTNKL----PETQKLIADVLK 70
                             56788888888644....444444444444 PP

  == domain 2  score: 13.0 bits;  conditional E-value: 1.4e-05
          Methyltransf_31  25 lgpkaevvGiDiseeaielAre.naqklgld.nveFeqgdieeleklledekfDlilsnevl....naladpdkileei 97 
                              l +++e++++D++ + ++ A   + +k ++d   +Fe+  ie++++    +++D+i+  +v+    +a++++++i   +
  PHY93_02015|PHY93_02015 103 LTTDSEFYSFDRQVNRLSEASIiEIDKVQVDpFDNFEERFIEKIKN----NSYDMIFFSQVFfnsgMAIKNLKAIVDAV 177
                              45799***************99767777777555788999999884....89**********77776666666665543 PP

>> B12-binding  B12 binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0    0.0001      0.46      37      90 ..     131     190 ..     118     204 .. 0.72
   2 ?   -2.7   0.0       1.2   5.6e+03      17      40 ..     276     299 ..     275     310 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.0001
              B12-binding  37 nven.....edivaairaekpdvvglSal...ltsqleavkelvellkrirprvkvvvGGah 90 
                              +v++     e+++++i+ + +d++ +S++   ++  + + k++v+++  ++p++ +v+ G h
  PHY93_02015|PHY93_02015 131 QVDPfdnfeERFIEKIKNNSYDMIFFSQVffnSGMAIKNLKAIVDAV--KDPQTMIVIDGYH 190
                              4444556779*******************544444444555555555..4567777777766 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 1.2
              B12-binding  17 lavlaaalrdagfeVqllganven 40 
                              l+++ + +++++  V+++ a v++
  PHY93_02015|PHY93_02015 276 LNAVLNLFKKDNLTVEIIHAHVQK 299
                              678889999999999999888865 PP

>> Propep_M14  Carboxypeptidase activation peptide
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   0.0     0.065   2.9e+02      31      53 ..      70      92 ..      36      95 .. 0.85
   2 ?    7.0   0.2    0.0017       7.8      45      70 ..     276     301 ..     269     303 .. 0.90
   3 ?   -0.5   0.0      0.39   1.7e+03      41      57 ..     339     355 ..     328     358 .. 0.88

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.065
               Propep_M14 31 klgepvdilVppekledfeelLe 53
                             kl++p++i+ +p+ +e++++lL+
  PHY93_02015|PHY93_02015 70 KLSTPTQIVFAPNTHEFVYRLLS 92
                             57789**************9995 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.0017
               Propep_M14  45 ledfeelLeslgisyevlieDvqkli 70 
                              l+++++l+++ ++++e++++ vqkl 
  PHY93_02015|PHY93_02015 276 LNAVLNLFKKDNLTVEIIHAHVQKLQ 301
                              67899*******************85 PP

  == domain 3  score: -0.5 bits;  conditional E-value: 0.39
               Propep_M14  41 ppekledfeelLeslgi 57 
                              +pe+ +++ + L+s++i
  PHY93_02015|PHY93_02015 339 SPEHAKKLHDELRSHKI 355
                              7999**********998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (383 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       722  (0.04027); expected 358.6 (0.02)
Passed bias filter:                      504  (0.0281109); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.59u 0.29s 00:00:00.87 Elapsed: 00:00:00.48
# Mc/sec: 2407.98
//
Query:       PHY93_02020|PHY93_02020  [L=364]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   8.5e-100  334.5   3.1   9.5e-100  334.3   3.1    1.0  1  Trp_dioxygenase  Tryptophan 2,3-dioxygenase


Domain annotation for each model (and alignments):
>> Trp_dioxygenase  Tryptophan 2,3-dioxygenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  334.3   3.1  5.3e-104  9.5e-100      12     346 .]       5     345 ..       1     345 [. 0.93

  Alignments for each domain:
  == domain 1  score: 334.3 bits;  conditional E-value: 5.3e-104
          Trp_dioxygenase  12 ksGllYgdYlkldkllsaqrlls....eadgkkvhdEhlFivihqayElWfkqivfeldsvrrllseeivdeertlkilkrlkRvv 93 
                              ++ + YgdYl+l+kll+ q +ls    +a + + hdE lFiv+hq+yElWfkqi+++l+++ + ++++ v+e+++  ++++l+R+ 
  PHY93_02020|PHY93_02020   5 RGSVYYGDYLQLEKLLDSQLPLSrkyaDATNGECHDETLFIVVHQVYELWFKQILHDLNAILNTFNQTFVPESELSSVVQKLSRIK 90 
                              56699************99877722225667789****************************************99********** PP

          Trp_dioxygenase  94 rilelLvaqvtvLetltpldfldfReylspasGFqslqfRllEnklGvksesrvkynrk.ykevfedddlelllvteeekslldlv 178
                              +i+ lL  q++vLet+tp+dfl+fR+ l pasGFqs qfR +E klG   + r + +r+ +   ++++d ++l   e  +sll+lv
  PHY93_02020|PHY93_02020  91 KIQGLLIGQFDVLETMTPMDFLEFRDLLIPASGFQSVQFREIEIKLGLTTDGRQHVDREfFLGRLNESDRKKLTDLESAPSLLKLV 176
                              ***********************************************************99999********************** PP

          Trp_dioxygenase 179 eawlertPGlesdgfnfwgkfeksvekllaellaka...aaekdeevlerdltaeyekakevlaslldekrhdalvakGerrlshk 261
                              e wler P  + ++fnfw  ++ks+   l++ ++ +    a+  e+ ++ +l ++ e ++  ++sl+dek h +lv+  +r ls k
  PHY93_02020|PHY93_02020 177 EGWLERVPFTNMTNFNFWEEYQKSIDSILQDDEKIIlknSAHLAEAAKNIQL-ENLEGTRSTFKSLFDEKAHSELVQSKQRTLSQK 261
                              **************************99998876551004445566666777.899****************************** PP

          Trp_dioxygenase 262 alkGalmiyvYrdeprfselyqlleaLmDidelltkWRynHvvlvqRmlGskaGtGGssGyayLrstvsdrykvFldLfnlstyl 346
                              a+  al+i +Yrde     ++q+l+a+mDide++t WRy H +l qRmlG+k GtGGssG +yL+   +d+++vF+dLfnlst+l
  PHY93_02020|PHY93_02020 262 AILNALFILLYRDESMLALPFQVLTAMMDIDENFTTWRYRHALLAQRMLGTKIGTGGSSGHQYLKR-AADNNRVFIDLFNLSTFL 345
                              *****************************************************************9.89**************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (364 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       595  (0.0331865); expected 358.6 (0.02)
Passed bias filter:                      422  (0.0235373); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.45
# Mc/sec: 2407.72
//
Query:       PHY93_02025|PHY93_02025  [L=610]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    4.1e-45  154.0  20.5    4.1e-45  154.0  20.5    3.7  3  UbiA        UbiA prenyltransferase family
    3.1e-35  121.8  21.7      6e-29  101.1  17.1    3.5  4  COX15-CtaA  Cytochrome oxidase assembly protein


Domain annotation for each model (and alignments):
>> UbiA  UbiA prenyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.7   4.8      0.65   5.9e+03     175     175 ..      88      88 ..       3     157 .. 0.51
   2 ?   -5.3   7.4         2   1.8e+04     198     227 ..     269     305 ..     216     321 .. 0.50
   3 !  154.0  20.5   4.6e-49   4.1e-45       2     247 ..     345     593 ..     344     598 .. 0.90

  Alignments for each domain:
  == domain 1  score: -3.7 bits;  conditional E-value: 0.65
                     UbiA 175 g 175
                               
  PHY93_02025|PHY93_02025  88 L 88 
                              1 PP

  == domain 2  score: -5.3 bits;  conditional E-value: 2
                     UbiA 198 vllla.......llllllalllllylllalllaalal 227
                              +l+++       l+++l + + + +l la ++++la 
  PHY93_02025|PHY93_02025 269 FLFISfqvligiLTVALNLSVVPTTLHLAGAALSLAA 305
                              2222223332222222222222222222222222222 PP

  == domain 3  score: 154.0 bits;  conditional E-value: 4.6e-49
                     UbiA   2 lipalvglalaaggspdlllllllllgtllaaaaanalNdyfDreiDadmertpnRPlvsGrispkealifaivllilgllllall 87 
                              ++++lvg ++a      ++ ll ++l+t+++++aa alN+y++re Da+m rt++RPl++ r+ pk+al+f+++ll++++   +++
  PHY93_02025|PHY93_02025 345 MVTVLVGTLIAPEKIYFFKALLSFFLITMVVIGAA-ALNCYIEREGDAKMIRTKDRPLPAKRMRPKTALWFGLLLLLISIPSICIF 429
                              799********888777777777777776666655.*******************************************99999** PP

                     UbiA  88 lnpltallgllallly.vvYtglrlKrrtllgtvvggiafglppllgwaavtgslsllalllalavflltwaialandlrdregDr 172
                              +n lt +l++la +ly ++Yt  ++K+ + l+  +g+i ++lpp++gw+avtg ++l+a+ l+l++f+++++++la +l   e++ 
  PHY93_02025|PHY93_02025 430 INGLTGFLAFLAAALYlYAYT--PMKKKSELAVYIGAIPGALPPVMGWTAVTGKIDLMAITLFLILFIWQLPHFLAISLYHAEDYG 513
                              *********************..*************************************************************** PP

                     UbiA 173 kagiktlpvvl.Grkaarillalllavllla...llllllalllllylllalllaalallraarlvrrrdakkaakff...l 247
                              +agik  p +  G + ++i   ++ + lll+   ll   + + + +y+ +a++l +l+l++a r +  +++ + ++++    
  PHY93_02025|PHY93_02025 514 AAGIKVYPNLKrGLQLTKIG--IFFFTLLLFgasLLPSIFSHASFIYTRAAFILSSLFLIYAGRGFFLKTDVASQRRWaknY 593
                              **********9999999985..33333333344777999******************************9999999984444 PP

>> COX15-CtaA  Cytochrome oxidase assembly protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.5   0.1     1e-11   9.3e-08       3      44 ..       6      47 ..       4      52 .. 0.88
   2 !  101.1  17.1   6.7e-33     6e-29      76     323 ..      51     306 ..      47     307 .. 0.82
   3 ?   -3.4   0.2      0.42   3.8e+03       6      19 ..     365     378 ..     342     388 .. 0.66
   4 ?    0.6   1.8     0.026   2.4e+02      89     137 ..     434     483 ..     429     545 .. 0.67

  Alignments for each domain:
  == domain 1  score: 31.5 bits;  conditional E-value: 1e-11
               COX15-CtaA  3 wlllvlllvllvvvlGgltRltdsGlsitdWppctGalpplt 44
                             + l++++ +++++++G+++  t+s l ++dWp c+++  p+ 
  PHY93_02025|PHY93_02025  6 LSLVAVITTFVLIIWGAVVHNTESSLACPDWPLCYDRFFPKM 47
                             77999*******************************966654 PP

  == domain 2  score: 101.1 bits;  conditional E-value: 6.7e-33
               COX15-CtaA  76 awiEwiHRllgrllGllilvpllyfl...akkrisrelkkllllllllvglQGllGwwmVksgLsekprvspyrlaaHLllaflll 158
                               +iE  HRll+ l+G++ + +++++    +k +++++l k  +l+l+lv++QG+lG ++V  +L       +++ + HL+l++l +
  PHY93_02025|PHY93_02025  51 ILIEHGHRLLATLVGIFSIGLVVLSSferKKSEAHTRLFKMSCLALFLVIAQGALGGITVIYRL------PTIVSTSHLGLSLLFF 130
                              589*****************999999554444457888899***********************......99999*********** PP

               COX15-CtaA 159 alllwlalrllake...........ae..saeeeaaakklrllallllallllqialGalvagldAglayntfplmggelipdklp 231
                              a l+++ + +  k+           +e  +  + + ++  r  +ll+l+ll++qi+lGa++++  Ag a+        ++ p++  
  PHY93_02025|PHY93_02025 131 ATLIYIHHLAGSKAitnndrfknisEEtkNYIQTNWRPVTRHGILLALTLLYMQILLGAFMRHAGAGAAC--------GIGPNNSL 208
                              9999988776666677777665432112222233333444555678999*********************........66677777 PP

               COX15-CtaA 232 lceldwrnlfenpatv.....qfaHRllAilvllvllllailllrkarspklarlavll.aallllQvalGistvllavplslava 311
                              lc  + +++++++ +      +++HRl+Ai+v++v+ ++ i++ +  +  k  r+a ll ++++ +Qv++Gi+tv l++ +    +
  PHY93_02025|PHY93_02025 209 LCMDFETQGLTFWPNFaqaqlHMIHRLFAIVVFVVVSFFSIRTRHFFKDVKFIRFASLLpFLFISFQVLIGILTVALNLSVVPTTL 294
                              775555566666655555566******************999999988899999999999************************** PP

               COX15-CtaA 312 Hqlgaallllal 323
                              H +gaal l+al
  PHY93_02025|PHY93_02025 295 HLAGAALSLAAL 306
                              *******99886 PP

  == domain 3  score: -3.4 bits;  conditional E-value: 0.42
               COX15-CtaA   6 lvlllvllvvvlGg 19 
                              l+++ ++ +vv+G+
  PHY93_02025|PHY93_02025 365 LLSFFLITMVVIGA 378
                              34445555555555 PP

  == domain 4  score: 0.6 bits;  conditional E-value: 0.026
               COX15-CtaA  89 lGll.ilvpllyflakkrisrelkkllllllllvglQGllGwwmVksgLs 137
                              +G+l +l+ +ly  a   ++++    + + ++ ++l  ++Gw  V+ +++
  PHY93_02025|PHY93_02025 434 TGFLaFLAAALYLYAYTPMKKKSELAVYIGAIPGALPPVMGWTAVTGKID 483
                              444404444444445445555555556666667889999******99983 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (610 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       804  (0.0448435); expected 358.6 (0.02)
Passed bias filter:                      314  (0.0175135); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.72u 0.27s 00:00:00.99 Elapsed: 00:00:00.48
# Mc/sec: 3795.17
//
Query:       PHY93_02030|PHY93_02030  [L=269]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.5e-19   68.9   1.1    2.1e-17   63.1   1.1    2.3  1  COX2          Cytochrome C oxidase subunit II, periplasmic do
     0.0031   17.6   0.0     0.0059   16.7   0.0    1.4  1  Cupredoxin_1  Cupredoxin-like domain
  ------ inclusion threshold ------
      0.014   15.5   0.6      0.029   14.5   0.6    1.6  1  COX2_TM       Cytochrome C oxidase subunit II, transmembrane 
      0.065   13.7   1.6        1.3    9.6   0.3    2.3  2  DFRP_C        DRG Family Regulatory Proteins, Tma46


Domain annotation for each model (and alignments):
>> COX2  Cytochrome C oxidase subunit II, periplasmic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.1   1.1   4.8e-21   2.1e-17       3     115 ..     130     229 ..     128     233 .. 0.82

  Alignments for each domain:
  == domain 1  score: 63.1 bits;  conditional E-value: 4.8e-21
                     COX2   3 ikaiGhqwywsyeytdfedlefdsylvpeedleegelrllevdnrvvlpvetkirllvtaedvlhsfavpslgvkvdavpGrlnqv 88 
                              ++ +G+qw w+++y+    + f+    +++ ++          n + lp  +ki ++vta+dv+hsf++p   +kvda+pGr++++
  PHY93_02030|PHY93_02030 130 VQVLGQQWAWNFRYAGKDGI-FN---TEDDIVT---------LNDLRLPTGKKIVFQVTAKDVIHSFSLPNTRLKVDAMPGRVSKM 202
                              66778888888888776543.33...2333332.........345668************************************** PP

                     COX2  89 sllidreGvfyGqcselcGvnhssmpi 115
                              ++  +++Gv+   c+++cG+ h  m  
  PHY93_02030|PHY93_02030 203 WTELTKTGVYDVVCAQICGTFHYRMQA 229
                              **********************99865 PP

>> Cupredoxin_1  Cupredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.0   1.3e-06    0.0059      29     104 .]     154     233 ..     146     233 .. 0.88

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 1.3e-06
             Cupredoxin_1  29 dggfePskievkagekvklkiknkdktpeefesedlgeekvlapgktttitiaplkpGeYeftcd.....mhmdakGkliV 104
                              d+ ++ + + +++g+k+ +++++kd   ++f+ ++ + + + +pg  ++++ +  k G Y+ +c      +h  +++k++V
  PHY93_02030|PHY93_02030 154 DDIVTLNDLRLPTGKKIVFQVTAKD-VIHSFSLPNTRLKVDAMPGRVSKMWTELTKTGVYDVVCAqicgtFHYRMQAKMTV 233
                              666778999******9999999887.46************************************88777777778888887 PP

>> COX2_TM  Cytochrome C oxidase subunit II, transmembrane domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.6   6.5e-06     0.029      10      81 ..      29     100 ..      20     105 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 6.5e-06
                  COX2_TM  10 qdaasplmeeleelhdyilliltlililVlyilvlilvefrrrknkitakylvhgqe...iEiiWTiiPalilil 81 
                              ++  s + + ++ l++ + +++++ ++lV+  l+     ++++k++i+  y vhg+    i  i  +i a++ i+
  PHY93_02030|PHY93_02030  29 PVDISTNGHLIDSLFNLTTMLILFFFSLVCIGLFGFSYLYQKKKHPIA--YYVHGTSkkhIA-IVAAIGAMVFIM 100
                              5566777888999***************************9***9999..678887632232.334555555555 PP

>> DFRP_C  DRG Family Regulatory Proteins, Tma46
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.0     0.033   1.5e+02      24      35 ..     114     125 ..     103     138 .. 0.86
   2 ?    9.6   0.3   0.00029       1.3      15      45 ..     227     257 ..     224     261 .. 0.78

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.033
                   DFRP_C  24 letFakWKkkrl 35 
                              +e+FakW k+ +
  PHY93_02030|PHY93_02030 114 MESFAKWPKEDK 125
                              79*****77654 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 0.00029
                   DFRP_C  15 LdkklTpvtletFakWKkkrlekkeaeeeke 45 
                              ++ k+T  t+e+F kW ++  e+ + + ek+
  PHY93_02030|PHY93_02030 227 MQAKMTVYTPEEFEKWQNEMSERTKYAMEKD 257
                              56799999********998877777666654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (269 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       828  (0.0461822); expected 358.6 (0.02)
Passed bias filter:                      485  (0.0270511); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.58u 0.22s 00:00:00.80 Elapsed: 00:00:00.46
# Mc/sec: 1771.13
//
Query:       PHY93_02035|PHY93_02035  [L=571]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   6.8e-133  443.7  74.9   6.8e-133  443.7  74.9    1.5  2  COX1      Cytochrome C and Quinol oxidase polypeptide I
  ------ inclusion threshold ------
       0.18   11.5   0.1       0.18   11.5   0.1    2.6  2  DUF4534   Protein of unknown function (DUF4534)


Domain annotation for each model (and alignments):
>> COX1  Cytochrome C and Quinol oxidase polypeptide I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  443.7  74.9  7.6e-137  6.8e-133       2     431 ..      28     496 ..      27     497 .. 0.96
   2 ?    0.7   0.1     0.021   1.8e+02     118     145 ..     492     519 ..     482     533 .. 0.68

  Alignments for each domain:
  == domain 1  score: 443.7 bits;  conditional E-value: 7.6e-137
                              HHHHHHHHHHHHHHHHHHHHHHHHHHCTCT...................-HHCHHHHHHHHHHHHHHHHHHHH.CHHHHHHHHHHH CS
                     COX1   2 igllylilalvlllvggllgllirlqlafp...................dletynqlrtlHgnlmiflfatpf.ilgfgnylvpll 67 
                              ig+++l+ ++++l +gg+++++ir+ lafp                    ++ty  l+tlHg++mif+ +tp+ i++fgn+ +pll
  PHY93_02035|PHY93_02035  28 IGKQFLWYGIAFLGLGGMMAMMIRWTLAFPgepfplvghflfpdtngvvPPDTYAMLFTLHGTIMIFYAITPIlIGAFGNFCIPLL 113
                              89*************************988766667666666665555555*********************************** PP

                              HCTSS-S-HHHHHHHHHHHHHHHHHHHHHHH...CSS-STTTTTTTC.........SHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     COX1  68 lgardlafprlnalsfwlvvlgvvllllsll...gaattgwteYapls........evdlwllglllvvvssllgainfivtilkr 142
                              +gard++fp ln+lsfwl+vl++v+ll+sl+   g+a+ gw+ Y+ ls        +++lw l+++++++ss++gain+i+ti++ 
  PHY93_02035|PHY93_02035 114 IGARDMVFPTLNMLSFWLAVLSAVILLASLFtplGGAAGGWVSYPTLStligspgiGQTLWCLAIFVLGISSTMGAINYIATIITL 199
                              *******************************99999************************************************** PP

                              HHHTT-CCGS-HHHHHHHHHHHHHHHHCHHHHHHHHHCHHHHHCT.-SSSC........E-HHHHHHHHHHHHTHHHHHHHHHHHH CS
                     COX1 143 rapgmtvaklplfvwavlatailillalpvlalalllllldrslg.kffsp........gdplldqhlfWffgHpeVyililpalg 219
                              rapgm  + +pl++w+++ ta+l +l+lpvl +++lll++dr++g +ff +        gdp+l+qh+fW+fgHpeVyililpa+g
  PHY93_02035|PHY93_02035 200 RAPGMGYFDMPLTIWGLWLTAVLNALFLPVLGAGVLLLTFDRVFGtTFFLAgaaattgsGDPVLFQHVFWIFGHPEVYILILPAWG 285
                              *************************************************7678899****************************** PP

                              HHHHHHHHHHTSCCCTHHHHHHHHHHHHHHCCCCGGGGTTTSSS-HHHHHHHHHHHHHTHHHHHHCCCHHHHCCTTS-CHCHHHHH CS
                     COX1 220 ivyyilpkfagrplfsyklsvlafililflsflvwaHHlfttglpewlkalgsvfslliavPsglkvfnwlatlwrgsirfktpml 305
                              iv+ +l+ f+++p f+ k+ +l++ +i++ls+lv++HH++tt++++ l   ++++++ i +Ps++ + nwl+tlw+gsirf tpml
  PHY93_02035|PHY93_02035 286 IVSDLLSFFSRKPAFGAKATALSMTTITVLSTLVYGHHMYTTQMSPLLTQSFMMLTMTISIPSAVFFANWLGTLWKGSIRFATPML 371
                              ************************************************************************************** PP

                              HHHHHHHHHHHHHHHHHHHTSHHHHHHHTTBHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHSB--HHHHHHHHHHHHHHHHHHHH CS
                     COX1 306 fflgfavlfiigGltGvllalpsvnyvvhntywvvaHfHlvllgavvfllfaaiyyllpkltgrmlserlaklhfwllfiGlvlmf 391
                              f+lg++++f++gGltG+ la++s+++++h+ty+vv+HfH+++   v+++ faa+y+++pk++grml+e+l+k+hfw+ +iGl+ +f
  PHY93_02035|PHY93_02035 372 FALGVVFVFGLGGLTGLYLATVSTDLYLHDTYFVVGHFHYTMAASVLLGGFAATYFWFPKMFGRMLNETLGKIHFWISIIGLNGVF 457
                              ************************************************************************************** PP

                              HHHHHHHHTTHBSSSST--SCCCCHHHCHHHHHHHHHHHH CS
                     COX1 392 lpmhilGllgmprraadyksfletvpelqplnvlrtiggv 431
                              + m+++G++gm rr+++    ++ + +l pln++ t+ ++
  PHY93_02035|PHY93_02035 458 MGMMVIGYAGMHRRIYNP-FVYDFLHKLIPLNMFITYSAI 496
                              ****************72.445667899*****9998876 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.021
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     COX1 118 llglllvvvssllgainfivtilkrrap 145
                                + +++++++l++++nf+  i+k  + 
  PHY93_02035|PHY93_02035 492 TYSAIFMGFGQLFFVYNFVYSIWKGPKA 519
                              4566778899999******999994433 PP

>> DUF4534  Protein of unknown function (DUF4534)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   1.1      0.14   1.2e+03      59      78 ..     305     324 ..     302     346 .. 0.84
   2 ?   11.5   0.1     2e-05      0.18     114     153 ..     482     521 ..     472     524 .. 0.89

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 0.14
                  DUF4534  59 illsliTilvscllLysvya 78 
                              + ls++Ti v  +l+y  ++
  PHY93_02035|PHY93_02035 305 TALSMTTITVLSTLVYGHHM 324
                              679*******9999998665 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 2e-05
                  DUF4534 114 kelrvlrlfglisrillhffwlpfvikyayilykdkkqgs 153
                              ++l  l++f+  s i++ f  l+fv +++y+++k +k+++
  PHY93_02035|PHY93_02035 482 HKLIPLNMFITYSAIFMGFGQLFFVYNFVYSIWKGPKATQ 521
                              5677899****************************99875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (571 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       643  (0.0358637); expected 358.6 (0.02)
Passed bias filter:                      223  (0.0124379); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.66u 0.25s 00:00:00.91 Elapsed: 00:00:00.47
# Mc/sec: 3679.20
//
Query:       PHY93_02040|PHY93_02040  [L=188]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (188 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       927  (0.0517039); expected 358.6 (0.02)
Passed bias filter:                      290  (0.0161749); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1221.61
//
Query:       PHY93_02045|PHY93_02045  [L=292]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.7e-20   70.7   0.0    1.3e-08   35.0   0.0    2.8  2  Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
    2.6e-15   57.3   0.1    3.6e-06   28.0   0.0    2.8  2  Cytochrom_C      Cytochrome c
     0.0011   18.8   0.1       0.15   11.7   0.0    2.2  2  Cytochrom_C1     Cytochrome C1 family
  ------ inclusion threshold ------
       0.11   12.3   0.5        8.6    6.2   0.1    2.5  2  Paired_CXXCH_1   Doubled CXXCH motif (Paired_CXXCH_1)


Domain annotation for each model (and alignments):
>> Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.0   0.0   2.9e-12   1.3e-08       3      67 .]      41     129 ..      39     129 .. 0.75
   2 !   32.6   0.0   1.6e-11   7.2e-08       2      67 .]     163     274 ..     162     274 .. 0.78

  Alignments for each domain:
  == domain 1  score: 35.0 bits;  conditional E-value: 2.9e-12
          Cytochrome_CBB3   3 aaaGaalykknCasCHg..kggagpslagrdwep.....................dalvdiiknGk..gaMpafggqlsdeelwal 63 
                              + +G+++y+++C  CHg   +g+g s +g  ++p                     + +++i+++G   +aM +++ +lsd++  +l
  PHY93_02045|PHY93_02045  41 LNDGKSTYTEYCMPCHGvnGDGNGTSAKGLSVPPrnfklgqykfgrvvsgelphdEDFYKILREGLagTAMLPWK-ELSDKQMFNL 125
                              679**************64334454444444444555555555666666677778**********96559****8.7********* PP

          Cytochrome_CBB3  64 vaYl 67 
                              v+Y+
  PHY93_02045|PHY93_02045 126 VQYI 129
                              ***8 PP

  == domain 2  score: 32.6 bits;  conditional E-value: 1.6e-11
          Cytochrome_CBB3   2 aaaaGaalykk..nCasCHg...kggag...................pslagrdwep.......................dalvdi 40 
                              a+++G+++y +  +C +CH    +                       p+++  +++p                       ++l+  
  PHY93_02045|PHY93_02045 163 AIQRGKEVYHAvaQCWTCHRayvS---HaefsaisqkingkpvtefdPDMFHIKLQPndygyssippeftydsvrsaktvEELYIR 245
                              6899******999******85641...12356677777788888888666666666577777777788888888888888888888 PP

          Cytochrome_CBB3  41 iknGkg..aMpafggqlsdeelwalvaYl 67 
                              +  G+g  aMp+++g+l d+e+wa++ Y+
  PHY93_02045|PHY93_02045 246 LSAGVGgsAMPSWKGTLQDDEIWAVAHYV 274
                              899996568*******************7 PP

>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.0   0.0   7.9e-10   3.6e-06       3      90 ..      43     131 ..      41     133 .. 0.75
   2 !   26.2   0.2     3e-09   1.4e-05       2      91 ..     165     277 ..     164     278 .. 0.90

  Alignments for each domain:
  == domain 1  score: 28.0 bits;  conditional E-value: 7.9e-10
                              -HHHHHHTTGGGTB-SSSBSSS.......--HHHHHHHTTT-HHHHHHHHTTSS--SSSHHHHHHHGGGGGGG.TT--HHHHHHHH CS
              Cytochrom_C   3 rGkelftanCaaCHgvegggakqgg...gptlsgaaerasaasigasvanpaavsaprddfekkkltaemparkerlteqeiadla 85 
                              +Gk  +t+ C+ CHgv+g g++      + + ++    + ++  + s + p+     +  +e+   ++ m ++ ++l+++++ +l+
  PHY93_02045|PHY93_02045  43 DGKSTYTEYCMPCHGVNGDGNGTSAkglSVPPRNFKLGQYKFGRVVSGELPHDEDFYKILREGLA-GTAMLPW-KELSDKQMFNLV 126
                              79******************986558887777777777777777777777765555555555555.5555555.59********** PP

                              HHHHT CS
              Cytochrom_C  86 aYLks 90 
                               Y+ks
  PHY93_02045|PHY93_02045 127 QYIKS 131
                              ***98 PP

  == domain 2  score: 26.2 bits;  conditional E-value: 3e-09
                              --HHHHH.H.TTGGGTB-SSSBSSS..........................--HHHHHHHTTT-HHHHHHHHTTSS--SSSHHHHH CS
              Cytochrom_C   2 arGkelf.t.anCaaCHgvegggakqgg......................gptlsgaaerasaasigasvanpaavsaprddfekk 63 
                              +rGke++ + a+C++CH++    a+                         +p+  g  +  +++  +++++++  v++++     +
  PHY93_02045|PHY93_02045 165 QRGKEVYhAvAQCWTCHRAYVSHAEFSAisqkingkpvtefdpdmfhiklQPNDYGYSSIPPEFTYDSVRSAK-TVEELYIRLSAG 249
                              79*****8778*******9999988766999******************999999999988888888888877.688899999999 PP

                              HHGGGGGGG.TT--HHHHHHHHHHHHTT CS
              Cytochrom_C  64 kltaemparkerlteqeiadlaaYLksl 91 
                                ++ mp +k  l ++ei+++a+Y+ksl
  PHY93_02045|PHY93_02045 250 VGGSAMPSWKGTLQDDEIWAVAHYVKSL 277
                              999***********************97 PP

>> Cytochrom_C1  Cytochrome C1 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.9   0.0    0.0041        19      15      33 ..      41      59 ..      37      60 .. 0.86
   2 !   11.7   0.0   3.4e-05      0.15       9      68 ..     158     221 ..     151     242 .. 0.68

  Alignments for each domain:
  == domain 1  score: 4.9 bits;  conditional E-value: 0.0041
             Cytochrom_C1 15 lqRGlqvykevcsaCHslk 33
                             l  G   y+e c+ CH+++
  PHY93_02045|PHY93_02045 41 LNDGKSTYTEYCMPCHGVN 59
                             5668899*********986 PP

  == domain 2  score: 11.7 bits;  conditional E-value: 3.4e-05
             Cytochrom_C1   9 kfDkaqlqRGlqvykev..csaCHslklvafrnLae..lglteeevkalaaey.evkdgpddege 68 
                               + ++++qRG +vy+ v  c +CH   +v++ +++    +++ + v ++  ++ ++k +p+d g 
  PHY93_02045|PHY93_02045 158 AHKESAIQRGKEVYHAVaqCWTCHR-AYVSHAEFSAisQKINGKPVTEFDPDMfHIKLQPNDYGY 221
                              466789*********998899***7.456655555533355666666665554456666666665 PP

>> Paired_CXXCH_1  Doubled CXXCH motif (Paired_CXXCH_1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   0.0     0.011        51      30      38 ..      49      57 ..      36      70 .. 0.73
   2 ?    6.2   0.1    0.0019       8.6       7      22 ..     175     190 ..     171     199 .. 0.75

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.011
           Paired_CXXCH_1 30 aalCysCHd 38
                             ++ C+ CH 
  PHY93_02045|PHY93_02045 49 TEYCMPCHG 57
                             555666663 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.0019
           Paired_CXXCH_1   7 geClsCHnphgsdnpk 22 
                               +C +CH+++ s+ ++
  PHY93_02045|PHY93_02045 175 AQCWTCHRAYVSHAEF 190
                              5799999998887665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (292 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       404  (0.0225333); expected 358.6 (0.02)
Passed bias filter:                      365  (0.0203581); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.47
# Mc/sec: 1860.20
//
Query:       PHY93_02050|PHY93_02050  [L=239]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    8.2e-27   93.7   0.0    1.1e-26   93.3   0.0    1.2  1  SCO1-SenC       SCO1/SenC
  ------ inclusion threshold ------
      0.017   15.0   0.0      0.039   13.9   0.0    1.8  1  AhpC-TSA        AhpC/TSA family
      0.097   11.6   0.0       0.14   11.0   0.0    1.2  1  Arylsulfotrans  Arylsulfotransferase (ASST)
       0.15   11.8   0.4       0.74    9.5   0.4    1.9  1  Redoxin         Redoxin


Domain annotation for each model (and alignments):
>> SCO1-SenC  SCO1/SenC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   93.3   0.0   2.6e-30   1.1e-26       2     134 .]      57     201 ..      56     201 .. 0.87

  Alignments for each domain:
  == domain 1  score: 93.3 bits;  conditional E-value: 2.6e-30
                SCO1-SenC   2 gpFelvdqdgeavteedlegkpslvffgFthCpdvCpttlanmaevldalgeeaekvqplfiTvDPerDtpevlkeyleafdprii 87 
                               +F+l+++  +++ ++dl+gk+++++f+Ft+Cp+ Cp  + +m+ +++++   + k  ++++TvDP++Dtp+vl +y+ + + +  
  PHY93_02050|PHY93_02050  57 PEFTLTNEFNKPFGSKDLKGKFYIANFMFTSCPSSCPGLMDKMDVIQKRIRGLGTKAAIVTFTVDPTTDTPAVLFKYARKRNTNPY 142
                              68****************************************************************************97666554 PP

                SCO1-SenC  88 g...ltGskeeiakaake.frvyvekvedees........dytvdHsssvyLvdpdgrv 134
                                  ltGsk e++k++   f+v + ++e+ ++           + Hs +v+L+d++g++
  PHY93_02050|PHY93_02050 143 IwnfLTGSKRELEKIVIDgFKVPMGNKETVTKkledktitLMDIAHSDRVVLIDAQGQI 201
                              4559**********99888***96555444433664444445688************96 PP

>> AhpC-TSA  AhpC/TSA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   8.7e-06     0.039       4      67 ..      55     118 ..      52     203 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 8.7e-06
                              B----EEESTTCEEEECHHHTTSEEEEEEESTST-C.CHHHHHHHHHHCHHHCCCTTEEEEEEES CS
                 AhpC-TSA   4 kapdfelknadgetvslsdykgkpvvlffypkdwcp.vCttelpalaklyeefkergvevigvsv 67 
                               +p+f+l+n+  +++  +d+kgk  + +f+ + +cp  C+  + ++    ++++ +g +  +v+ 
  PHY93_02050|PHY93_02050  55 TVPEFTLTNEFNKPFGSKDLKGKFYIANFMFT-SCPsSCPGLMDKMDVIQKRIRGLGTKAAIVTF 118
                              58********99*****************888.77635888888888888888877777666654 PP

>> Arylsulfotrans  Arylsulfotransferase (ASST)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   3.1e-05      0.14       7      52 ..     171     214 ..     166     236 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 3.1e-05
           Arylsulfotrans   7 tsakkfedrLylvnnlewdekknnlivDtkGevrWyldqdkisdnk 52 
                              t++kk+ed+ + ++    + +++++ +D++G++r y++ +k+ +++
  PHY93_02050|PHY93_02050 171 TVTKKLEDKTITLMD--IAHSDRVVLIDAQGQIRGYYSTEKVEMDR 214
                              455666665555554..577999******************99988 PP

>> Redoxin  Redoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.4   0.00016      0.74       6     128 ..      56     202 ..      54     214 .. 0.65

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00016
                              B---ECCEETTCEEEEEHHHHTTSEEEEEEESTTT-HH.HHHTHHHHHTHHHHHHCSTTTEEEE...................EES CS
                  Redoxin   6 aPdftlplaatdgnsvslsefkgkkvvvnfvpgafcPt.Csaehpyleklaellkekgvdvvav...................vad 71 
                              +P+ftl  +++ ++++  +++kgk  + nf  +  cP  C   + +++ ++++++  g +  +v                      
  PHY93_02050|PHY93_02050  56 VPEFTL--TNEFNKPFGSKDLKGKFYIANFMFT-SCPSsCPGLMDKMDVIQKRIRGLGTKAAIVtftvdpttdtpavlfkyarK-- 136
                              89***8..5699*************999*****.99986777777999999999999999988844444433333333332221.. PP

                              SSHHHHHHHHH......................TT-TSEEEE-TTSHHHHHTT-TTEEE.GGG..EEE-EEEEEEETTEEE CS
                  Redoxin  72 ndafvkefwgk......................eglkfpvlsDgsaaftkalGlrleedaseg..lrtpryavidedgkvv 128
                                        +                      +g  f+v    +  +tk+l  ++      +    + r+++id++g+++
  PHY93_02050|PHY93_02050 137 ----------RntnpyiwnfltgskrelekiviDG--FKVPMGNKETVTKKLEDKTI--TL-MdiAHSDRVVLIDAQGQIR 202
                              ..........2444444444444555555464444..66666677777777774422..22.2346777777777777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (239 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       526  (0.0293379); expected 358.6 (0.02)
Passed bias filter:                      438  (0.0244297); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.50u 0.27s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 1612.62
//
Query:       PHY93_02055|PHY93_02055  [L=93]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      8e-13   48.6   7.2      1e-12   48.3   7.2    1.1  1  COX4_pro  Prokaryotic Cytochrome C oxidase subunit IV
  ------ inclusion threshold ------
       0.19   11.2   2.6       0.24   10.9   2.6    1.2  1  DUF1129   Protein of unknown function (DUF1129)
        9.5    6.4   6.9        9.6    6.4   0.2    2.3  2  PufQ      PufQ cytochrome subunit


Domain annotation for each model (and alignments):
>> COX4_pro  Prokaryotic Cytochrome C oxidase subunit IV
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.3   7.2   1.7e-16     1e-12       1      72 []      16      87 ..      16      87 .. 0.95

  Alignments for each domain:
  == domain 1  score: 48.3 bits;  conditional E-value: 1.7e-16
                 COX4_pro  1 livfvlllilTaiefalviiklgkllaiiiilvlalvKavlillyFMHLkeekkglrllaliflvflilllv 72
                             +ivfv+l++lT +e a+  ++ ++ l +i ++ la+ Ka+++++++MHLkee+ +l+++a+++++ +++ +v
  PHY93_02055|PHY93_02055 16 IIVFVVLSLLTGLELAIPGLNVEYYLKAISLVGLAFGKAAIVAYFYMHLKEERGWLKFIAMLPIAAVVFAIV 87
                             69****************888889999999999*******************99*************99886 PP

>> DUF1129  Protein of unknown function (DUF1129)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   2.6     4e-05      0.24      87     166 ..      17      90 ..       4      93 .] 0.83

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 4e-05
                  DUF1129  87 lllalfallfgilalfskkkqtasiGlitlllvalvgGlamvlvyrlltrekkkkkrpplwkrllilllllvvwlvlftl 166
                              +++++++ll+g+  ++   + + +  l ++ lv+l +G a ++ y ++      k+ ++++k +++l ++ vv+ ++++l
  PHY93_02055|PHY93_02055  17 IVFVVLSLLTGLELAIPGLNVEYY--LKAISLVGLAFGKAAIVAYFYMHL----KEERGWLKFIAMLPIAAVVFAIVIIL 90 
                              788999999999999998666666..999999999999999888888864....67779999999999999998888776 PP

>> PufQ  PufQ cytochrome subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.4   0.2    0.0016       9.6      11      37 ..       4      31 ..       1      48 [. 0.77
   2 ?    3.2   1.7     0.016        98      30      46 ..      73      89 ..      70      92 .. 0.85

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.0016
                     PufQ 11 tarehrapkaEFavYFaii.lvaalPlA 37
                             +++ h+   +E+++ F ++ l++ l lA
  PHY93_02055|PHY93_02055  4 HTHVHKSHTTEYIIVFVVLsLLTGLELA 31
                             45788*********99987355556666 PP

  == domain 2  score: 3.2 bits;  conditional E-value: 0.016
                     PufQ 30 lvaalPlAlltWvlaai 46
                             ++a lP+A++ +++ +i
  PHY93_02055|PHY93_02055 73 FIAMLPIAAVVFAIVII 89
                             99********9998877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (93 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       822  (0.0458475); expected 358.6 (0.02)
Passed bias filter:                      360  (0.0200792); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.44u 0.26s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 649.41
//
Query:       PHY93_05815|PHY93_05815  [L=396]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
      0.062   11.6   0.0      0.078   11.2   0.0    1.1  1  Pox_VERT_large  Poxvirus early transcription factor (VETF), l


Domain annotation for each model (and alignments):
>> Pox_VERT_large  Poxvirus early transcription factor (VETF), large subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   4.4e-06     0.078     121     190 ..      94     163 ..      52     195 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 4.4e-06
           Pox_VERT_large 121 dacdflviwvaraadtslaelGsyeevdanilkfeerllevfke...ldlelsveskfnnifrtnlkatglkn 190
                              +a+ +l+   a+++dt l+elG+  + +++i kf+ rl +v ++   l   +s++s+fn+    ++ +t  ++
  PHY93_05815|PHY93_05815  94 SASHGLLPTFANSSDTLLSELGIVGQRINEIRKFKDRLHDVGNDysrLSELISITSNFNK---KEISETSWSQ 163
                              56778888899****************************997762113335899999984...4555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (396 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       874  (0.0487478); expected 358.6 (0.02)
Passed bias filter:                      643  (0.0358637); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.64u 0.25s 00:00:00.89 Elapsed: 00:00:00.47
# Mc/sec: 2558.27
//
Query:       PHY93_02060|PHY93_02060  [L=80]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (80 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       346  (0.0192983); expected 358.6 (0.02)
Passed bias filter:                      301  (0.0167884); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.25s 00:00:00.65 Elapsed: 00:00:00.42
# Mc/sec: 570.30
//
Query:       PHY93_02065|PHY93_02065  [L=189]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.1e-41  141.8   0.1    2.8e-41  141.4   0.1    1.1  1  Pro_isomerase  Cyclophilin type peptidyl-prolyl cis-trans iso


Domain annotation for each model (and alignments):
>> Pro_isomerase  Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  141.4   0.1   1.5e-45   2.8e-41       3     141 ..      53     180 ..      51     187 .. 0.92

  Alignments for each domain:
  == domain 1  score: 141.4 bits;  conditional E-value: 1.5e-45
            Pro_isomerase   3 dietsskGrivieLfadkaPktvenFlklvkegfYdgttFhRvikgfmvqgGdptgktsageqekkggesiraipdEitsklkhkr 88 
                              +i+t  +G+iv++ +++ aP+t +++++l++++fYdg++FhR+i++f++q+Gdptg++  g        s  ++++E+ ++l+h +
  PHY93_02065|PHY93_02065  53 TIKTV-HGDIVFRFYTKAAPQTSARIMELIQNKFYDGLVFHRAIPNFIIQTGDPTGTGVGG--------SGTKLKAEF-NELQHIK 128
                              68885.**************************************************96633........234799***.999**** PP

            Pro_isomerase  89 GalamartgkepnsagsqFfItlkeaphldgkytvFGkVveGmdvvekiekve 141
                              G++amar   ++nsa sqF+I+l++ +hldgk+t+FG+VveG+dv+ k++k++
  PHY93_02065|PHY93_02065 129 GTIAMARG-TDKNSADSQFYICLTTLSHLDGKNTIFGQVVEGLDVLPKLSKGD 180
                              *******7.79**************************************9985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (189 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       395  (0.0220313); expected 358.6 (0.02)
Passed bias filter:                      351  (0.0195772); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.26s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 1287.27
//
Query:       PHY93_13265|PHY93_13265  [L=449]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
     0.0001   22.0   0.0     0.0002   21.0   0.0    1.5  1  TPP_enzyme_N  Thiamine pyrophosphate enzyme, N-terminal TPP b
    0.00084   19.2   0.1     0.0012   18.6   0.1    1.2  1  POR_N         Pyruvate flavodoxin/ferredoxin oxidoreductase, 


Domain annotation for each model (and alignments):
>> TPP_enzyme_N  Thiamine pyrophosphate enzyme, N-terminal TPP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.0   0.0   2.2e-08    0.0002       2      73 ..      23     100 ..      22     158 .. 0.88

  Alignments for each domain:
  == domain 1  score: 21.0 bits;  conditional E-value: 2.2e-08
                              EHHHHHHHHHHHCT--EEEE---CCCHHHHCCHHCT.......TSEEEE-SSHHHHHHHHHHHHHHHTS-EEEEE-CH CS
             TPP_enzyme_N   2 tvaealvraLkalgvehvfgvpGsrilplldalseeq......girvvlarhEqgaafaAdgyaratgkpgvvlvtsg 73 
                              ++ e++++   ++g   + g+pGs + + ++ l e +      g+rvv a +E +aa++A+g  +a ++  v++ + g
  PHY93_13265|PHY93_13265  23 NGNELIIQGALEAGFHLYTGYPGSPLADYFNILYEKKdefhkkGLRVVIANSEANAAAMASGAKQANKNALVAMKSMG 100
                              6778888888899********************999999***************************988887776666 PP

>> POR_N  Pyruvate flavodoxin/ferredoxin oxidoreductase, thiamine diP-bdg
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.1   1.4e-07    0.0012       2      79 ..      31     108 ..      30     123 .. 0.93

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 1.4e-07
                              HHHHCTEEEEEE--BTTTCCHHHHHCHCCCCCTTEE.EEEE-SSHHHHHHHHHHHHCTT-EEEEEEECCHHHHCCCCH CS
                    POR_N   2 aaiaagvdviaaYPITPsseiaeelaellakgevgdvevvqmesEigaisaviGAaaaGaraaTaTSgqGllLmienl 79 
                              +a++ag   +++YP +P  + ++ l e  +++ ++  +vv + sE+ a++++ GA +a   a++a  + Gl  + ++l
  PHY93_13265|PHY93_13265  31 GALEAGFHLYTGYPGSPLADYFNILYEKKDEFHKKGLRVVIANSEANAAAMASGAKQANKNALVAMKSMGLHVAADAL 108
                              8999*****************************9899****************************9999998887776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (449 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       375  (0.0209158); expected 358.6 (0.02)
Passed bias filter:                      353  (0.0196888); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.45
# Mc/sec: 3010.88
//
Query:       PHY93_13270|PHY93_13270  [L=356]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.4e-16   60.1   0.0    6.8e-15   55.4   0.0    2.1  2  Glyoxalase    Glyoxalase/Bleomycin resistance protein/Dioxyge
    2.9e-13   50.2   0.0    2.4e-12   47.2   0.0    2.0  2  Glyoxalase_5  Hydroxyphenylpyruvate dioxygenase, HPPD, N-term
    3.3e-12   46.6   0.0    1.7e-07   31.5   0.0    2.3  2  Glyoxalase_4  Glyoxalase/Bleomycin resistance protein/Dioxyge
  ------ inclusion threshold ------
       0.06   13.5   0.0       0.49   10.5   0.0    2.3  2  Glyoxalase_3  Glyoxalase-like domain
       0.12   11.7   1.5       0.31   10.4   0.4    2.0  2  Delta_lysin   Delta lysin family


Domain annotation for each model (and alignments):
>> Glyoxalase  Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.7   0.0     0.039   1.4e+02      48     114 ..      53     119 ..      12     143 .. 0.76
   2 !   55.4   0.0   1.9e-18   6.8e-15       1     110 [.     165     279 ..     165     287 .. 0.94

  Alignments for each domain:
  == domain 1  score: 2.7 bits;  conditional E-value: 0.039
                              TTSEEEEEEEECCTTSCTHHCCBSCTSEEEEEEEEEHCHHHHHHHHHHHTTGEEEEEEECHHCTEEE CS
               Glyoxalase  48 ggghielvlneapsgaakhvkkieetvhhvafialdvedvgkaldrlkeagvkvvaepgrhyfgaly 114
                              ++g++ +v    p+   ++vk  + ++++v  i + ve+ + al ++ ++g +  +++++   ++++
  PHY93_13270|PHY93_13270  53 SQGQVRFVVVAHPDQTHPSVKYFKAHGEGVSKISFLVENAEYALTEALRRGAELREPLTTIESEHGI 119
                              5566666666666666666633444899999999999999999999999999999998887777665 PP

  == domain 2  score: 55.4 bits;  conditional E-value: 1.9e-18
                              EEEEEE..EEESHHHHHHHHHHHHHTSEEEEEEEEEESTEEEEEEEEETTTSEEEEEEEECCTTSCTHHCC..BSC..TSEEEEEE CS
               Glyoxalase   1 gidhva..llvgdleksldFYtkvLGfklvkktdnteeteglriaffhaggghielvlneapsgaakhvkk..iee..tvhhvafi 80 
                              +idh++  ++ g++ ++++FY++++G+++++ +d+++ ++gl + +++  +g++ +++ne++++  k++ +  + +  ++ +v++i
  PHY93_13270|PHY93_13270 165 RIDHLTnnVAKGEMRRWVNFYKQIFGMEVTRYFDIKGQKTGLESEVVQLPNGSVIIPINEPAENNSKSQIQefL-DlhKGPGVQHI 249
                              699999999999*********************************************************77442.36699****** PP

                              EEEHCHHHHHHHHHHHTTGEEEEEEECHHC CS
               Glyoxalase  81 aldvedvgkaldrlkeagvkvvaepgrhyf 110
                              al + dv+ ++  l+e+g+k+  +p ++y 
  PHY93_13270|PHY93_13270 250 ALMTADVITTVGDLQERGIKFLNIPSTYYQ 279
                              **************************9996 PP

>> Glyoxalase_5  Hydroxyphenylpyruvate dioxygenase, HPPD, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.2   0.0   6.6e-16   2.4e-12       2     126 ..       7     138 ..       6     142 .. 0.82
   2 ?    0.3   0.0       0.2     7e+02      56      99 ..     227     271 ..     210     282 .. 0.78

  Alignments for each domain:
  == domain 1  score: 47.2 bits;  conditional E-value: 6.6e-16
             Glyoxalase_5   2 enPlGldGfefvefaape..aealeelfeklGftavarhrskdvtlyrqGginfilneepdsa..aakfarehGpsacalafrvkd 83 
                              +nPlG++  + +ef++++  ++++++l  k+Gf++     + + ++y qG++ f++ ++pd +    k+ ++hG +++ ++f v++
  PHY93_13270|PHY93_13270   7 KNPLGIEAIDHLEFCTDSlnTATIDTL-YKFGFEKTYIDPKMNAEVYSQGQVRFVVVAHPDQThpSVKYFKAHGEGVSKISFLVEN 91 
                              69*************998634555555.579*************************998876522578999*************** PP

             Glyoxalase_5  84 akkayeralekGak...pve.ketgvmelkiPaikGiGgsllylvdr 126
                              a+ a+++al +Ga+   p++ +e++    k  +i+G G+ l  +++r
  PHY93_13270|PHY93_13270  92 AEYALTEALRRGAElrePLTtIESEHGIYKFGCIQGFGDVLNEFIER 138
                              *************8222333134555567889999999998888877 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.2
             Glyoxalase_5  56 neepdsaaakfareh.GpsacalafrvkdakkayeralekGakpv 99 
                              +++++s++++f   h Gp++  +a+   d  ++   + e+G k +
  PHY93_13270|PHY93_13270 227 ENNSKSQIQEFLDLHkGPGVQHIALMTADVITTVGDLQERGIKFL 271
                              567899999999877699**9999999888777777777776655 PP

>> Glyoxalase_4  Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.8   0.0     3e-05      0.11      17      93 ..      33     106 ..      16     118 .. 0.67
   2 !   31.5   0.0   4.7e-11   1.7e-07      12      95 ..     180     272 ..     175     283 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 3e-05
                              HHH.TT-EESS--E.EETTTTEEEEEEEETTEEEEEEEESSTT...-THHHTS-EEEEEEEEES-HHHHHHHHCTTTEEE CS
             Glyoxalase_4  17 fsallGvgpwqryrdepqevdlafallgsgsvqieLieplegp...eflaehgeglhhlaywvddldaavarleeqGfev 93 
                              + + +G++++++  d++ ++++     g+    + + +p+++    + +++hgeg+  + + v++ + a+ ++  +G+e+
  PHY93_13270|PHY93_13270  33 LYK-FGFEKTYI--DPKMNAEV--YSQGQV-RFVVVAHPDQTHpsvKYFKAHGEGVSKISFLVENAEYALTEALRRGAEL 106
                              333.55444444..44444433..233332.34555677777667788899**************************985 PP

  == domain 2  score: 31.5 bits;  conditional E-value: 4.7e-11
                              HHHHHHHH.TT-EESS--E.EET..TTTEEEEEEEETTEEEEEEEESSTT......-THHH.TS-EEEEEEEEES-HHHHHHHHCT CS
             Glyoxalase_4  12 aavarfsallGvgpwqryrdepq..evdlafallgsgsvqieLieplegp......eflae.hgeglhhlaywvddldaavarlee 88 
                              + v+++++++G+++++ +  + q  + +  +++l +gsv i   ep e++      efl+  +g+g++h+a+ + d+  +v +l+e
  PHY93_13270|PHY93_13270 180 RWVNFYKQIFGMEVTRYFDIKGQktGLESEVVQLPNGSVIIPINEPAENNsksqiqEFLDLhKGPGVQHIALMTADVITTVGDLQE 265
                              66889*******9997776665511677899******9999999****998855555555499*********************** PP

                              TTEEEEE CS
             Glyoxalase_4  89 qGfevvq 95 
                              +G+++++
  PHY93_13270|PHY93_13270 266 RGIKFLN 272
                              ****985 PP

>> Glyoxalase_3  Glyoxalase-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.0      0.17     6e+02      65      97 ..      73     101 ..      15     138 .. 0.62
   2 ?   10.5   0.0   0.00014      0.49      36     102 ..     205     273 ..     166     308 .. 0.63

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.17
             Glyoxalase_3  65 rlfgldrlakgeglhtlalrtddidataarlra 97 
                              + f+    a+geg++++ + +++++ +  ++ +
  PHY93_13270|PHY93_13270  73 KYFK----AHGEGVSKISFLVENAEYALTEALR 101
                              2221....2455555555555555554444444 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 0.00014
             Glyoxalase_3  36 gtaNalvmfgdg.YlEllavdpeapaperprlfgldrlakgeglhtlalrtddidataarlraaGvd...e 102
                              g +  +v++++g  +  + +++ a+ +++++  ++ +l kg+g+ ++al t+d+  t+ +l+++G++    
  PHY93_13270|PHY93_13270 205 GLESEVVQLPNGsVI--IPINEPAENNSKSQIQEFLDLHKGPGVQHIALMTADVITTVGDLQERGIKflnI 273
                              456666666444222..23333333334444444447889*************************986541 PP

>> Delta_lysin  Delta lysin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0      0.25     9e+02      17      23 ..      30      36 ..      29      37 .. 0.91
   2 ?   10.4   0.4   8.7e-05      0.31       1      12 [.     252     263 ..     252     264 .. 0.96

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.25
              Delta_lysin 17 IDTVNKF 23
                             IDT  KF
  PHY93_13270|PHY93_13270 30 IDTLYKF 36
                             9*****9 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 8.7e-05
              Delta_lysin   1 MAaDIISTIGDL 12 
                              M aD+I T+GDL
  PHY93_13270|PHY93_13270 252 MTADVITTVGDL 263
                              99*********9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (356 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       335  (0.0186848); expected 358.6 (0.02)
Passed bias filter:                      325  (0.0181271); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.45
# Mc/sec: 2375.06
//
Query:       PHY93_13275|PHY93_13275  [L=119]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.5e-38  131.2   7.9    1.7e-38  131.0   7.9    1.0  1  DUF1304          Protein of unknown function (DUF1304)
  ------ inclusion threshold ------
       0.16   12.1   0.0        0.2   11.7   0.0    1.1  1  Bile_Hydr_Trans  Acyl-CoA thioester hydrolase/BAAT N-terminal


Domain annotation for each model (and alignments):
>> DUF1304  Protein of unknown function (DUF1304)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  131.0   7.9   1.9e-42   1.7e-38       2     109 ..      11     117 ..      10     118 .. 0.97

  Alignments for each domain:
  == domain 1  score: 131.0 bits;  conditional E-value: 1.9e-42
                  DUF1304   2 lvallhlyilvlEmflwtsprarkvfgltkeeaakttkvlaanqGlYNgfLAagliwglllgseavglalvlfflgcvvvaglyga 87 
                              ++a+lhl +l++Emflw++p++ k+f+++ ++a k+ ++laanqGlYNgfLAagliw+l+++ ++  ++l++ffl+cv+vag+yg+
  PHY93_13275|PHY93_13275  11 FIAFLHLGFLYMEMFLWSRPQGLKIFKIDAAFALKS-ATLAANQGLYNGFLAAGLIWSLCATVPEQRFQLKIFFLVCVLVAGIYGG 95 
                              79**************************99999999.**********************999999********************* PP

                  DUF1304  88 ltaskkillvQglpallAlvll 109
                              +tas++il++Q++pallAl l+
  PHY93_13275|PHY93_13275  96 MTASRNILFLQAIPALLALTLV 117
                              *******************987 PP

>> Bile_Hydr_Trans  Acyl-CoA thioester hydrolase/BAAT N-terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   2.2e-05       0.2      44      79 ..      43      77 ..      33      90 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 2.2e-05
          Bile_Hydr_Trans 44 evdlsrdaplgGsYtgvepmGLfwsmkpekekkrrl 79
                              ++ ++ a+ +G Y+g  + GL+ws+  + +++ r+
  PHY93_13275|PHY93_13275 43 ALKSATLAANQGLYNGFLAAGLIWSLCATVPEQ-RF 77
                             5666777899****************8888777.34 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (119 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       543  (0.0302861); expected 358.6 (0.02)
Passed bias filter:                      226  (0.0126053); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 805.36
//
Query:       PHY93_13280|PHY93_13280  [L=101]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-08   36.1   0.1    2.1e-08   35.2   0.1    1.4  1  EthD      EthD domain
      0.001   19.6   0.1     0.0012   19.4   0.1    1.1  1  Dabb      Stress responsive A/B Barrel Domain
  ------ inclusion threshold ------
      0.059   13.8   0.1       0.49   10.9   0.1    2.0  1  MmlI      Methylmuconolactone methyl-isomerase


Domain annotation for each model (and alignments):
>> EthD  EthD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.2   0.1   3.5e-12   2.1e-08       6      86 ..      15      81 ..      11      88 .. 0.85

  Alignments for each domain:
  == domain 1  score: 35.2 bits;  conditional E-value: 3.5e-12
                             HHHHHHHHHTHHHHHCTSTT............--EEEEEEEEEBTTC--SEEEEEEEEESSHHHHHHHHCSHHHHH.HHHH CS
                     EthD  6 eeFrdyweevHaplvkdllggirryvlratktrpateagvalagpgsdadyDgiaelwfdsleaflaafadpeyaavlaaD 86
                             e+F +++ + H++l+k++++                +   +  gp + +d  +iael+f+s e+f++a+++pe +a  ++D
  PHY93_13280|PHY93_13280 15 EAFDQWYKN-HTELAKKVPK------------VLEFRFSKVTGGPRGASDLHFIAELVFASKEDFKTAMSSPENMA-AGKD 81
                             788888888.**********............3345555668899*****************************99.6666 PP

>> Dabb  Stress responsive A/B Barrel Domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.4   0.1   2.1e-07    0.0012      19      93 ..      18      92 ..       5      96 .. 0.84

  Alignments for each domain:
  == domain 1  score: 19.4 bits;  conditional E-value: 2.1e-07
                             HHHHHHHHHHHHGSTTTSEEEEEEESSSSSTSTT-SEEEEEEESSHHHHHHHHTSHHHHHHHHHHHHTEEEEEEE CS
                     Dabb 19 aevlealeaLkdkipgiksievgrnvspeklakgydvvliseFeseedlkaYlehpahvefvelvkplvekrvvv 93
                             ++  ++ ++L +k+p++ ++ +++   + + a++ +++ +  F+s+ed k+ ++ p+ +++ +++ +  +++v v
  PHY93_13280|PHY93_13280 18 DQWYKNHTELAKKVPKVLEFRFSKVTGGPRGASDLHFIAELVFASKEDFKTAMSSPENMAAGKDAFTNYKDIVSV 92
                             4457888999****************99998******************************97777777777776 PP

>> MmlI  Methylmuconolactone methyl-isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.1   8.3e-05      0.49      17      92 ..      15      80 ..       1      96 [. 0.71

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 8.3e-05
                     MmlI 17 eqflahwrevhaplvhavtGlrryqqnrvvderftqfvPvveydgypvdgivelWfedlasleksfaspaakllaa 92
                             e+f  +w + h +l+  v+ +  ++ ++v + +           + ++  i+el f+  ++++ ++ sp+  +  +
  PHY93_13280|PHY93_13280 15 EAF-DQWYKNHTELAKKVPKVLEFRFSKVTGGPR---------GASDLHFIAELVFASKEDFKTAMSSPENMAAGK 80
                             444.568888888888888877777777776543.........333466799999999999999999999876554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (101 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       521  (0.0290591); expected 358.6 (0.02)
Passed bias filter:                      415  (0.0231469); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.43u 0.26s 00:00:00.69 Elapsed: 00:00:00.43
# Mc/sec: 699.69
//
Query:       PHY93_13285|PHY93_13285  [L=257]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.4e-82  276.8   0.1    1.6e-82  276.6   0.1    1.0  1  ECH_1     Enoyl-CoA hydratase/isomerase
    1.9e-40  139.4   0.6    1.6e-36  126.4   0.1    2.0  2  ECH_2     Enoyl-CoA hydratase/isomerase


Domain annotation for each model (and alignments):
>> ECH_1  Enoyl-CoA hydratase/isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  276.6   0.1   1.7e-86   1.6e-82       3     249 ..      13     257 .]      11     257 .] 0.98

  Alignments for each domain:
  == domain 1  score: 276.6 bits;  conditional E-value: 1.7e-86
                              ETTEEEEEE--CGCTTEE-HHHHHHHHHHHHHHHHSTTECEEEEEEBTSEEEEEB-HHHHHHHHCHHHHHHHCCHHHHHHHHHHSS CS
                    ECH_1   3 eagvaviklnrPeavNalsaelltEliqalekleddksvravvLtGgdkaFaaGadlkemaeeekakqallkeevlelwtklytvp 88 
                              ++ +a+++lnrP+++Nals  l++El++ +  l+++++vr+++LtG d+aFaaGad+ +m+e   +  ++++ + +  w+ l+ + 
  PHY93_13285|PHY93_13285  13 HEHIALVRLNRPKVLNALSTDLMQELVDCFLSLDKNPQVRVIILTGNDRAFAAGADIAQMVEA--SPVDQINDQRFRTWEMLRLIT 96 
                              5789**********************************************************8..67888899999********** PP

                              SEEEEEE-SEEETHHHHHHHHSSEEEEETTTEEE-GGGGGTS--CTTCHHHHHHHHHHHHHHHHHHHT-EEEHHHHHHCTSSSEEE CS
                    ECH_1  89 kpviaavnGaaigGGlelalacDiviaadnasfglnelklGlipgaggtqilarkvGkskAeeilllgkkisaqealkvGlvdkvv 174
                              kpviaavnG+a+gGG+ela+ cD++ia+d+a+f+++e+k+G+ipgaggtq+l+r++GkskA+ ++l+g+ i a+ a ++Glv kvv
  PHY93_13285|PHY93_13285  97 KPVIAAVNGFALGGGCELAMSCDLIIAGDDARFSQPEIKIGTIPGAGGTQRLTRAIGKSKAMMMVLTGDMIDAKTACEWGLVAKVV 182
                              ************************************************************************************** PP

                              SGGGHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTSHHHHHHHHHHHTCSH---- CS
                    ECH_1 175 peeqlleealelaeklaekspaalrqlkealnakledalaeqleaeaklfestfskddikeGlqaflEkrkpefe 249
                              p+++ll+e+ ela+ + + +p a+r +kea+n+ +e+ l+ ++++e+++f+ tfs++d keG++af+Ekr p+++
  PHY93_13285|PHY93_13285 183 PANTLLQETFELAKTISDRAPVAVRLAKEAVNKSFEMSLKDGMDFERRNFYLTFSSADQKEGMKAFMEKRSPNYK 257
                              ************************************************************************996 PP

>> ECH_2  Enoyl-CoA hydratase/isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  126.4   0.1   1.8e-40   1.6e-36       2     177 ..      17     187 ..      16     195 .. 0.94
   2 !   12.0   0.0   1.2e-05       0.1     252     316 ..     194     255 ..     188     257 .] 0.89

  Alignments for each domain:
  == domain 1  score: 126.4 bits;  conditional E-value: 1.8e-40
                              EEEEE--GGGTT-B-HHHHHHHHHHHHHHCC-TT-SEEEEEESSSSECE--B--HHHHHHHHCS-THHHHHHHHHHHHHHHHHC-S CS
                    ECH_2   2 gvitLnrpkalNaLslemvralkealkewekddevklvvlkgagekafCAGgDvralyeaakegkkeeeeffreeYklnyliatyp 87 
                              +++ Lnrpk lNaLs++++++l +++ + +k+++v++++l+g +++af AG D+++++ea   ++ +      + ++   ++  ++
  PHY93_13285|PHY93_13285  17 ALVRLNRPKVLNALSTDLMQELVDCFLSLDKNPQVRVIILTG-NDRAFAAGADIAQMVEASPVDQIN-----DQRFRTWEMLRLIT 96 
                              6799**************************************.56**************99997655.....79999999****** PP

                              S-EEEEE-BEEETHHHHHHTTSSEEEE-TT-EEE--GGGGT----TTHHHHHHCSST.THHHHHHHH---B-HHHHHHTTS--EE- CS
                    ECH_2  88 kpvvalmdGivmGgGvGlsvhgsfrvvtertvfAmPEtaIGlfPDvGgsyfLsrlpg.elGlylalTGarlkgadalaaglathyv 172
                              kpv+a ++G+++GgG+ l++++ + ++ ++++f+ PE++IG +P  Gg+  L+r+ g + ++++ lTG+ ++++ a++ gl  ++v
  PHY93_13285|PHY93_13285  97 KPVIAAVNGFALGGGCELAMSCDLIIAGDDARFSQPEIKIGTIPGAGGTQRLTRAIGkSKAMMMVLTGDMIDAKTACEWGLVAKVV 182
                              ******************************************************966478************************** PP

                              -GGGH CS
                    ECH_2 173 psekl 177
                              p++ l
  PHY93_13285|PHY93_13285 183 PANTL 187
                              99876 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 1.2e-05
                              HHHHHHHS-HHHHHHHHHHHHHHTTT--HHHHHHHHHHHHHHHHHHSSHHHHHHHHTTS------ CS
                    ECH_2 252 tletlkkrsPtslkvtleqlrrgrklsslaevlrmElrlalrllaekDfveGvrallvdkdkkPk 316
                               ++t++ r+P++++++ e+++++ ++s l++ ++ E r    ++++ D  eG +a + +  ++P+
  PHY93_13285|PHY93_13285 194 LAKTISDRAPVAVRLAKEAVNKSFEMS-LKDGMDFERRNFYLTFSSADQKEGMKAFMEK--RSPN 255
                              689***********************5.**************************98644..4555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (257 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       459  (0.025601); expected 358.6 (0.02)
Passed bias filter:                      420  (0.0234257); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.29s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 1702.97
//
Query:       PHY93_13290|PHY93_13290  [L=261]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-57  194.7   0.2    1.8e-57  194.5   0.2    1.0  1  ECH_1     Enoyl-CoA hydratase/isomerase
    8.9e-28   97.7   0.5    4.3e-23   82.4   0.2    2.0  2  ECH_2     Enoyl-CoA hydratase/isomerase


Domain annotation for each model (and alignments):
>> ECH_1  Enoyl-CoA hydratase/isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  194.5   0.2   2.1e-61   1.8e-57       1     249 [.      11     261 .]      11     261 .] 0.95

  Alignments for each domain:
  == domain 1  score: 194.5 bits;  conditional E-value: 2.1e-61
                              EEETTEEEEEE--CGCTTEE-HHHHHHHHHHHHHHHHSTTECEEEEEEBTSEEEEEB-HHHHHHHHC....HHHHHHHCCHHHHHH CS
                    ECH_1   1 eieagvaviklnrPeavNalsaelltEliqalekleddksvravvLtGgdkaFaaGadlkemaeeek....akqallkeevlelwt 82 
                              e++++ a i +nrPe  Nal+ae   E++qa+ ++++++s+r +vLtG +kaF+ G+dl+++  +         ++l+ e + l +
  PHY93_13290|PHY93_13290  11 EEQNATAIISMNRPEMYNALNAEAKIEVVQAIREANKNPSIRSIVLTGKGKAFCTGQDLNDRSIQAInggvDLGNTLQTEWNPLVN 96 
                              578999*****************************************************987544432223778888999999999 PP

                              HHHHSSSEEEEEE-SEEETHHHHHHHHSSEEEEETTTEEE-GGGGGTS--CTTCHHHHHHHHHHHHHHHHHHHT-EEEHHHHHHCT CS
                    ECH_1  83 klytvpkpviaavnGaaigGGlelalacDiviaadnasfglnelklGlipgaggtqilarkvGkskAeeilllgkkisaqealkvG 168
                               +++++k+viaavnG ++g+G+ +a+acD++i   + +f  +++klGl p+ag t +++r++G +kA+e  l+g+++ a++  ++G
  PHY93_13290|PHY93_13290  97 SIRDSKKIVIAAVNGVCAGAGISVAIACDLIISKPKTKFVGAFSKLGLAPDAGSTYTFVRALGYQKAMEFFLMGNPLMAEDMHEAG 182
                              ************************************************************************************** PP

                              SSSEEESGGGHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTSHHHHHHHHHHHTCSH---- CS
                    ECH_1 169 lvdkvvpeeqlleealelaeklaekspaalrqlkealnakledalaeqleaeaklfestfskddikeGlqaflEkrkpefe 249
                              l+++   +e +le ale  + +++ sp+a++++k++l+++l++   e +e e   +  +  ++d keGl aflEkr+p+f+
  PHY93_13290|PHY93_13290 183 LINAL--DEAVLERALEYSATINKLSPLACETVKKNLKTALDSSYNESMEREMYAQRFLGRSADYKEGLSAFLEKREPQFT 261
                              ***98..5899********************************************************************96 PP

>> ECH_2  Enoyl-CoA hydratase/isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   82.4   0.2   4.8e-27   4.3e-23       2     170 ..      17     186 ..      16     197 .. 0.92
   2 !   14.9   0.0   1.6e-06     0.014     247     316 ..     193     259 ..     183     261 .] 0.83

  Alignments for each domain:
  == domain 1  score: 82.4 bits;  conditional E-value: 4.8e-27
                              EEEEE--GGGTT-B-HHHHHHHHHHHHHHCC-TT-SEEEEEESSSSECE--B--HHHHHHHHCS-THH.HHHHHHHHHHHHHHHC- CS
                    ECH_2   2 gvitLnrpkalNaLslemvralkealkewekddevklvvlkgagekafCAGgDvralyeaakegkkee.eeffreeYklnyliaty 86 
                              ++i +nrp+  NaL+ e   ++ +a++e +k+++++ +vl+g+g kafC G D++    +a +g  +  +++ +e   l + i + 
  PHY93_13290|PHY93_13290  17 AIISMNRPEMYNALNAEAKIEVVQAIREANKNPSIRSIVLTGKG-KAFCTGQDLNDRSIQAINGGVDLgNTLQTEWNPLVNSIRDS 101
                              6899**************************************88.**********99999999887763555555556******** PP

                              SS-EEEEE-BEEETHHHHHHTTSSEEEE-TT-EEE--GGGGT----TTHHHHHHCSST.THHHHHHHH---B-HHHHHHTTS--E CS
                    ECH_2  87 pkpvvalmdGivmGgGvGlsvhgsfrvvtertvfAmPEtaIGlfPDvGgsyfLsrlpg.elGlylalTGarlkgadalaaglath 170
                              +k v+a ++G++ G G+++++ + + +   +t+f     ++Gl PD G +y + r+ g + ++ + l G+ l ++d+ +agl + 
  PHY93_13290|PHY93_13290 102 KKIVIAAVNGVCAGAGISVAIACDLIISKPKTKFVGAFSKLGLAPDAGSTYTFVRALGyQKAMEFFLMGNPLMAEDMHEAGLINA 186
                              *******************************************************97768899999***************9765 PP

  == domain 2  score: 14.9 bits;  conditional E-value: 1.6e-06
                              HHHHHHHHHHHHS-HHHHHHHHHHHHHHTTT--HHHHHHHHHHHHHHHHHHSSHHHHHHHHTTS------ CS
                    ECH_2 247 ewakktletlkkrsPtslkvtleqlrrgrklsslaevlrmElrlalrllaekDfveGvrallvdkdkkPk 316
                              e a +  +t++k sP++++ + ++l+ + + s  +e +++E+ + + l ++ D  eG  a l ++  +P+
  PHY93_13290|PHY93_13290 193 ERALEYSATINKLSPLACETVKKNLKTALDSS-YNESMEREMYAQRFLGRSADYKEGLSAFLEKR--EPQ 259
                              56777889***********************5.********9887777778*********98554..565 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (261 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       723  (0.0403257); expected 358.6 (0.02)
Passed bias filter:                      629  (0.0350828); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.70u 0.39s 00:00:01.08 Elapsed: 00:00:00.69
# Mc/sec: 1143.92
//
Query:       PHY93_05820|PHY93_05820  [L=149]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (149 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       458  (0.0255452); expected 358.6 (0.02)
Passed bias filter:                      339  (0.0189079); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.30s 00:00:00.83 Elapsed: 00:00:00.54
# Mc/sec: 831.24
//
Query:       PHY93_13295|PHY93_13295  [L=273]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.1e-37  128.2   0.0    4.2e-37  127.7   0.0    1.1  1  PaaA_PaaC      Phenylacetic acid catabolic protein
    0.00043   19.9   0.3      0.011   15.3   0.0    2.1  2  DUF455         Protein of unknown function (DUF455)
     0.0014   18.6   0.1       0.28   11.0   0.0    2.2  2  Ferritin-like  Ferritin-like
  ------ inclusion threshold ------
      0.038   13.7   0.0       0.12   12.1   0.0    1.7  2  MiaE_2         tRNA-(MS[2]IO[6]A)-hydroxylase (MiaE)-like
       0.12   12.8   0.0       0.22   11.9   0.0    1.6  1  Rubrerythrin   Rubrerythrin


Domain annotation for each model (and alignments):
>> PaaA_PaaC  Phenylacetic acid catabolic protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  127.7   0.0   1.2e-40   4.2e-37       3     225 ..      24     261 ..      14     272 .. 0.89

  Alignments for each domain:
  == domain 1  score: 127.7 bits;  conditional E-value: 1.2e-40
                              ...........HHHHHHHHHHHHHHHHHHHHHHTTTTTSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSS............. CS
                PaaA_PaaC   3 eakdwmpeeyrkalirlllqlAdselilaqresewigrAPsLeediallnivlDelGharllysaaeelegkg............. 75 
                              ea+++ p  yrk+l++ll + +dse  +a+  + wi +AP+L+e++ ++ +v De+ ha ++y+++ el g++             
  PHY93_13295|PHY93_13295  24 EASEELPPFYRKHLLNLLWMQGDSEYSGALGYMPWIAKAPTLQEKVLVAQMVKDEMRHASVIYRLLDEL-GQNtsdhvnksdlgyk 108
                              678899999***********************************************************8.4444667555556665 PP

                              .-HHH..HHHC--CCC----CGGGS---SHHHHHHHHHHHHHHHHHHHHHHTT-SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT CS
                PaaA_PaaC  76 kdedd..laflrdegefknsllvelpngdwadtivrqflvdaaaiilleaLkrssygplaaiaakvlkEesyHlrhgeewvlrLgd 159
                               ded+  + f+r + +++ ++++ ++ + w+d i+ +fl+d+aa ++l++  +ssy p++++ + + kEe +Hl hg +wv  L +
  PHY93_13295|PHY93_13295 109 LDEDQinIGFKRLKPDYR-VNIFYYDIKYWTDYILFNFLMDRAAGHQLQDTFNSSYMPWKKAIEGIYKEEVMHLAHGDKWVKIL-S 192
                              455541145677777776.79999********************************************************9875.6 PP

                              SSHHHHHHHHHHHHHHGGGGGGGG---HHH...HHHHHTTSS--GGGGHHHHHHHHHHHHHHTT----- CS
                PaaA_PaaC 160 GteeskrrvqeAlnrlwpyvlelfgpddae...ealaekgkavdndeLrqkfeakvvpvleeagltlPd 225
                               ++e+k+ +qe ln +wp v ++fg++  +     ++ + k+ +n e+r+ f++++++ +e++gltlP 
  PHY93_13295|PHY93_13295 193 RDPEQKKFLQERLNLWWPRVMNIFGSTLGAsndLYVNLGLKQRTNGEIRAVFVKEIEEMCEACGLTLPV 261
                              79***********************997776668899999****************************6 PP

>> DUF455  Protein of unknown function (DUF455)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.1     0.022        81     100     122 ..      72      94 ..      66      99 .. 0.91
   2 !   15.3   0.0   3.1e-06     0.011     180     209 ..     168     197 ..     153     221 .. 0.82

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.022
                   DUF455 100 lkvaedEakHfsllaerLeelgs 122
                              +++ +dE +H s++ + L elg 
  PHY93_13295|PHY93_13295  72 AQMVKDEMRHASVIYRLLDELGQ 94 
                              57899***************995 PP

  == domain 2  score: 15.3 bits;  conditional E-value: 3.1e-06
                   DUF455 180 eiLevIledEitHVaaGvrWfrylcekegl 209
                              +++e I+++E+ H a G++W + l ++ ++
  PHY93_13295|PHY93_13295 168 KAIEGIYKEEVMHLAHGDKWVKILSRDPEQ 197
                              78999*****************99855444 PP

>> Ferritin-like  Ferritin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.0   0.0   7.9e-05      0.28      30      59 ..      67      96 ..      46     133 .. 0.80
   2 !    5.4   0.0     0.004        14      29      61 ..     162     197 ..     140     250 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 7.9e-05
                             HHHHHHHHHHHHHHHHHHHHHHHHHTT--- CS
            Ferritin-like 30 aealilevvkeEMlHltlvaNllnalGgsP 59
                              + l+ + vk+EM H+ ++ +ll  lG++ 
  PHY93_13295|PHY93_13295 67 EKVLVAQMVKDEMRHASVIYRLLDELGQNT 96
                             46688999*******************973 PP

  == domain 2  score: 5.4 bits;  conditional E-value: 0.004
                              ....HHHHHHHHHHHHHHHHHHHHHHHHHTT----- CS
            Ferritin-like  29 e...aealilevvkeEMlHltlvaNllnalGgsPvl 61 
                              +   ++++i+ + keE +Hl+     +++l  +P+ 
  PHY93_13295|PHY93_13295 162 SympWKKAIEGIYKEEVMHLAHGDKWVKILSRDPEQ 197
                              366699**************9888888877777765 PP

>> MiaE_2  tRNA-(MS[2]IO[6]A)-hydroxylase (MiaE)-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   3.3e-05      0.12      30      69 ..      60      99 ..      32     108 .. 0.83
   2 ?   -2.0   0.0      0.67   2.4e+03     147     161 ..     199     213 ..     188     220 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 3.3e-05
                             CC-SSSTTHHHHHHHHHHHHHHHHHHHHHHHHTT--HHHH CS
                   MiaE_2 30 rlaPtladraalaklaaaefrhyelledrlaeiGveaeea 69
                               aPtl+++  +a++   e+rh  ++   l+e+G ++ + 
  PHY93_13295|PHY93_13295 60 AKAPTLQEKVLVAQMVKDEMRHASVIYRLLDELGQNTSDH 99
                             469*******************************998875 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.67
                              TTHHHHHHHHHHHHH CS
                   MiaE_2 147 prladrlalwgrrll 161
                              + l++rl lw  r++
  PHY93_13295|PHY93_13295 199 KFLQERLNLWWPRVM 213
                              568999***998887 PP

>> Rubrerythrin  Rubrerythrin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   6.2e-05      0.22      10      64 ..      48     100 ..      41     161 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 6.2e-05
                              HHHHHHHHHHHHHCHHTT-HHHHHHHHHHHHHHHHHHHHHHHHHHHCSTTHH.B. CS
             Rubrerythrin  10 EssarrlYkelaekakegypqiaelFeelAeeEreHakilnklleklepelelev 64 
                              E+s+   Y+    ka     q + l  ++ ++E +Ha ++++ll++l ++    v
  PHY93_13295|PHY93_13295  48 EYSGALGYMPWIAKAP--TLQEKVLVAQMVKDEMRHASVIYRLLDELGQNTSDHV 100
                              5555555555555555..556678899*********************9988333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (273 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       472  (0.0263261); expected 358.6 (0.02)
Passed bias filter:                      399  (0.0222544); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.59u 0.25s 00:00:00.84 Elapsed: 00:00:00.49
# Mc/sec: 1676.17
//
Query:       PHY93_13300|PHY93_13300  [L=286]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      8e-51  172.5   1.3    1.1e-50  172.1   1.3    1.2  1  3HCDH_N          3-hydroxyacyl-CoA dehydrogenase, NAD binding
    1.3e-26   93.0   0.8    1.5e-25   89.6   0.3    2.7  3  3HCDH            3-hydroxyacyl-CoA dehydrogenase, C-terminal 
     0.0031   17.7   1.9      0.015   15.5   1.9    1.9  1  NAD_binding_2    NAD binding domain of 6-phosphogluconate deh
  ------ inclusion threshold ------
      0.043   13.9   3.5      0.094   12.8   1.5    2.5  3  Shikimate_DH     Shikimate / quinate 5-dehydrogenase
      0.044   14.2   0.1      0.077   13.4   0.1    1.5  1  NAD_binding_7    Putative NAD(P)-binding
      0.078   13.1   0.2       0.19   11.8   0.2    1.6  1  Ldh_1_N          lactate/malate dehydrogenase, NAD binding do
      0.097   12.9   1.0       0.47   10.7   1.0    2.1  1  Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding doma
       0.12   11.5   0.1       0.22   10.7   0.1    1.3  1  Pyr_redox_2      Pyridine nucleotide-disulphide oxidoreductas
       0.14   12.1   2.0        0.3   11.0   2.0    1.7  1  NAD_Gly3P_dh_N   NAD-dependent glycerol-3-phosphate dehydroge
       0.15   12.1   3.0        2.2    8.3   0.4    2.3  2  V-set_CD47       CD47 immunoglobulin-like domain
       0.15   11.4   0.5          9    5.6   0.0    2.3  2  THF_DHG_CYH_C    Tetrahydrofolate dehydrogenase/cyclohydrolas
       0.21   12.2   1.0       0.59   10.7   0.7    2.0  2  F420_oxidored    NADP oxidoreductase coenzyme F420-dependent
       0.31   10.8   5.7       0.52   10.1   5.7    1.4  1  Sec5             Exocyst complex component Sec5


Domain annotation for each model (and alignments):
>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  172.1   1.3   7.7e-54   1.1e-50       1     179 [.       5     185 ..       5     186 .. 0.95

  Alignments for each domain:
  == domain 1  score: 172.1 bits;  conditional E-value: 7.7e-54
                              EEEEE--SCCHHHHHHHHHHTT-EEEEE-S-HHHHHHHHHHHHHHHHCCTTTTSS-HHHHCCCHHCEEEES-HHHHH.C-SEEEE- CS
                  3HCDH_N   1 kvaviGaGtmGagiaavfasagleVvlvdiseealekalekieksleklvekgklkeeeveaalarisfttdleeav.dadlviEa 85 
                              +v viGaGtmG+gia+ fa+++l+V +vd + e++  +l++i +s++kl+++gkl++++v    ++is+ ++++e+  +adlviEa
  PHY93_13300|PHY93_13300   5 TVIVIGAGTMGQGIAQWFAQQNLTVEMVDQNFEFALISLNRILQSFDKLEASGKLSNADVTLFKKNISV-KKIDEINsNADLVIEA 89 
                              589*********************************************************999999986.67888888******** PP

                              S-SSHHHHHHHHHHHHCCS-TTSEEEE--SSS-HHHHCCCSSSGGG..EEEEEE-SSTTT--EEEEEE-TT--HHHHHHHHHHHHH CS
                  3HCDH_N  86 vvEnlelKrkvfaelekiakpdailasnTSslsiselaealkrper..viglHFfnPpplmkLvEvvrgekTseetvatvvelakk 169
                              ++Enle K+k+fa+l++++++++i+asnTSs+si++la++++++++  ++g+HFfnP+++mkLvEv++g +T+ e+++ + e++++
  PHY93_13300|PHY93_13300  90 IIENLEAKNKIFATLDTMMSKHTIFASNTSSFSITQLAQSVREERKanFLGIHFFNPATIMKLVEVINGLETNIEITSSLIEWFNS 175
                              *****************************************8766666************************************** PP

                              TT-EEEEECS CS
                  3HCDH_N 170 igktpvvvkd 179
                                k++ ++ d
  PHY93_13300|PHY93_13300 176 KSKVACKCSD 185
                              9999988876 PP

>> 3HCDH  3-hydroxyacyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.0       1.4   1.9e+03      16      33 ..      19      36 ..      11      40 .. 0.71
   2 ?   -1.2   0.0       2.3   3.1e+03      13      34 ..      61      81 ..      56      85 .. 0.76
   3 !   89.6   0.3   1.1e-28   1.5e-25       1      97 []     188     286 .]     188     286 .] 0.92

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 1.4
                             HHHHHTTSS-HHHHHHHH CS
                    3HCDH 16 vrlveegvaspediDaam 33
                              + ++++++++e++D+ +
  PHY93_13300|PHY93_13300 19 AQWFAQQNLTVEMVDQNF 36
                             555667779999999966 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 2.3
                             HHHHHHHHTTSS-HHHHHHHHH CS
                    3HCDH 13 neavrlveegvaspediDaamr 34
                             n  v l++++ +s+++iD++ +
  PHY93_13300|PHY93_13300 61 NADVTLFKKN-ISVKKIDEINS 81
                             5667778888.9******9865 PP

  == domain 3  score: 89.6 bits;  conditional E-value: 1.1e-28
                              TTTHHHHHHHHHHHHHHHHHTTSS.-HHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHHHHHHHTTTH.GGHH-HHHHHHHHTT CS
                    3HCDH   1 GFvvnRvlapllneavrlveegva.spediDaamrlglGlpmGpfelldlvgldvakkilevlaeelger.ayapsplleklveag 84 
                              GF+vnR++  ++ ea+r+v+   + +++++D++mr+  G++mGpfel+dl+g+d++ +++e +++++ ++ +++p+ l +++v ag
  PHY93_13300|PHY93_13300 188 GFIVNRIARNFYGEALRAVDTYDVdKFREVDQVMREVGGFKMGPFELMDLIGIDINFSVTESVYRAFFDEaRFKPHRLQREMVAAG 273
                              9*******************98772589*********************************6666655555*************** PP

                              --BGGGTBSSSBC CS
                    3HCDH  85 rlgrktgkgfyky 97 
                              rlg+k+gkgf++y
  PHY93_13300|PHY93_13300 274 RLGKKAGKGFFNY 286
                              **********998 PP

>> NAD_binding_2  NAD binding domain of 6-phosphogluconate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   1.9   1.1e-05     0.015       2     113 ..       6     140 ..       5     142 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.1e-05
                              EEEE--SHHHHHHHHHHHHTT-EEEEE-SSH...........HHHHHHHHTT............EEE-SSHHHHHHHCSEEEE-SS CS
            NAD_binding_2   2 igfiGlGvMGsnmalnllkagykvavynrtk...........ekveelvaeg............akaaesieelvasldvvitmvk 64 
                              + +iG G+MG+ +a+ +++++ +v +++ +            +++++l a+g               +++i e+ +++d+vi  + 
  PHY93_13300|PHY93_13300   6 VIVIGAGTMGQGIAQWFAQQNLTVEMVDQNFefalislnrilQSFDKLEASGklsnadvtlfkkNISVKKIDEINSNADLVIEAII 91 
                              569***********************999984555444444455555555559999999999887788999999999999999999 PP

                              SHHHHHHHHHSHCCC--TT-EEEE-S---HHHHHHHHHHHHHTT-EEEE CS
            NAD_binding_2  65 agkavdeviegllealkkgdilidgstsspedtrelakelkekglkfld 113
                              ++ + ++ i+  l+++ +  ++  + tss++ t+  +   +e++++fl+
  PHY93_13300|PHY93_13300  92 ENLEAKNKIFATLDTMMSKHTIFASNTSSFSITQLAQSVREERKANFLG 140
                              9999999999988888888888888999999999988888999999987 PP

>> Shikimate_DH  Shikimate / quinate 5-dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   1.5   6.8e-05     0.094      13      41 ..       4      31 ..       1     110 [. 0.79
   2 ?   -0.2   0.2      0.71   9.9e+02      69      84 ..      76      91 ..      69     159 .. 0.66
   3 ?   -3.5   0.0       7.2     1e+04     123     138 .]     202     217 ..     196     217 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 6.8e-05
                             -EEEEES-SHHHHHHHHHHHCCT-CEEEE CS
             Shikimate_DH 13 kkvlliGaGemaelvakhLlakgvkkvvv 41
                             ++v++iGaG m++ +a+ +++++++ v  
  PHY93_13300|PHY93_13300  4 NTVIVIGAGTMGQGIAQWFAQQNLT-VEM 31
                             78*****************999887.433 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.71
                             HHHHHHT-SEEEE-SS CS
             Shikimate_DH 69 lkellaeadvvisata 84
                             ++e+ ++ad+vi a+ 
  PHY93_13300|PHY93_13300 76 IDEINSNADLVIEAII 91
                             4444455666655543 PP

  == domain 3  score: -3.5 bits;  conditional E-value: 7.2
                              GSTTCCCEEHHHHHHH CS
             Shikimate_DH 123 eledvrlytvDdLkev 138
                              +l+ v+ y+vD  +ev
  PHY93_13300|PHY93_13300 202 ALRAVDTYDVDKFREV 217
                              5778899999998876 PP

>> NAD_binding_7  Putative NAD(P)-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.1   5.6e-05     0.077       8      80 ..       4     102 ..       1     136 [. 0.68

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 5.6e-05
            NAD_binding_7   8 kkvlvvGgGevAarkvrklleagakvtvvapev....keele...................elvklaeee............lekd 58 
                               +v+v+G+G++++  ++ +++++ +v +v++++        +                           +            +++ 
  PHY93_13300|PHY93_13300   4 NTVIVIGAGTMGQGIAQWFAQQNLTVEMVDQNFefalI---SlnrilqsfdkleasgklsnA-------DvtlfkknisvkkIDEI 79 
                              689*****************************643330...144444444444444433331.......12222222222224555 PP

            NAD_binding_7  59 legadlviaa.tddrelneriae 80 
                               ++adlvi a +++ e +++i +
  PHY93_13300|PHY93_13300  80 NSNADLVIEAiIENLEAKNKIFA 102
                              77799998651566677777765 PP

>> Ldh_1_N  lactate/malate dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.2   0.00014      0.19       3      74 ..       6      87 ..       4      91 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00014
                             EEEETTTSHHHHHHHHHHHHTTSSSE..........EEEE-SSHH..HHHHHHHHHHHCHCCSTS-EEEEESSGGGGTTESEEE CS
                  Ldh_1_N  3 vavvGaaGgiGqslalllankklade..........laLlDiake..kleGvaldlshistflsvkvkvsekeeealkdadvvv 74
                             v+v+Ga G+ Gq +a + a+++l+ e          + L  i ++  kle+    ls+++++l  k ++ +k  e+ ++ad+v+
  PHY93_13300|PHY93_13300  6 VIVIGA-GTMGQGIAQWFAQQNLTVEmvdqnfefalISLNRILQSfdKLEAS-GKLSNADVTLFKKNISVKKIDEINSNADLVI 87
                             89****.****************99989999996665555555555333332.3588888888777788889999999999987 PP

>> Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   1.0   0.00034      0.47       1      33 [.       6      35 ..       6     152 .. 0.83

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00034
                             EEEE--SHHHHHHHHHHHCTCCT-GEEEEEESS CS
          Sacchrp_dh_NADP  1 vliiGaGsvGqavaellarhfdvdaeitvadrs 33
                             v++iGaG +Gq++a+  a+++     +  +d++
  PHY93_13300|PHY93_13300  6 VIVIGAGTMGQGIAQWFAQQNLT---VEMVDQN 35
                             79****************98753...5555555 PP

>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.1   0.00016      0.22       2      72 ..       5      88 ..       4     116 .. 0.61

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00016
                             SEEEE--SHHHHHHHHHHHHHTS-EEEEETTHCHHHCSHHHHCHHHHHHHHHHHHH................HHHHCHHHHCCCCHC CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx................xxxxxxxxxxxxxxx RF
              Pyr_redox_2  2 dvvviGgGpAGlaaaltlaqagakvtlvelegtclnggcllskallgvaedaeias................evvkklnqgielllg 72
                              v+viG+G  G   a+  aq+++ v +v  ++++ +  ++l  +l ++ + +                    ++++++n++ +l+ +
  PHY93_13300|PHY93_13300  5 TVIVIGAGTMGQGIAQWFAQQNLTVEMV--DQNFEFALISLNRILQSFDKLEAS-GklsnadvtlfkknisvKKIDEINSNADLVIE 88
                             599*************************..444444444443333333222221.12334445556666666556666666555555 PP

>> NAD_Gly3P_dh_N  NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   2.0   0.00022       0.3       2     101 ..       6     116 ..       5     180 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00022
                              EEEE--SHHHHHHHHHHHTTT--EEEE-S-H...........HHHHHHHHHSSBTTTBTT..----TTEEEES-HHHHHTT--EEE CS
           NAD_Gly3P_dh_N   2 iavlGaGswGtalAkvlaenghevrlwvree...........elieeineehenvkyLpg..iklpenlvattdlaealkgadiiv 74 
                              + v+GaG  G  +A+ +a+++ +v +  ++            + ++++++    +  L +  ++l ++   ++ ++e  ++ad+++
  PHY93_13300|PHY93_13300   6 VIVIGAGTMGQGIAQWFAQQNLTVEMVDQNFefalislnrilQSFDKLEA----SGKLSNadVTLFKKNISVKKIDEINSNADLVI 87 
                              78*******************99999888766667666533322222222....22233212555555555667777777777777 PP

                              E---HH..HHHHHHHHHCCC--TT-EEEE CS
           NAD_Gly3P_dh_N  75 lvvPsq..alrevlkklkgllkkkailvs 101
                               ++  +  a ++++++l+++++k++i++s
  PHY93_13300|PHY93_13300  88 EAIIENleAKNKIFATLDTMMSKHTIFAS 116
                              77754311455666666666666666655 PP

>> V-set_CD47  CD47 immunoglobulin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   0.4    0.0016       2.2      18      69 ..      73     124 ..      59     143 .. 0.82
   2 ?    4.1   0.1     0.032        44     105     128 ..     153     176 ..     148     178 .. 0.88

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0016
                              -SEEEE-TTSSEEEE--BBSS---SSGGGEEEEEEETTEEEEEEETTTTEEE CS
               V-set_CD47  18 vksveytvCndtvvipCdvdnleyknisevyvkWkfknkdififnktekkst 69 
                              vk+++  + n   vi+ +++nle+kn    ++   + ++ if +n+++ ++t
  PHY93_13300|PHY93_13300  73 VKKIDEINSNADLVIEAIIENLEAKNKIFATLDTMMSKHTIFASNTSSFSIT 124
                              456677788999***************9999**************9976664 PP

  == domain 2  score: 4.1 bits;  conditional E-value: 0.032
                              EETTEEEEEEEEEEE--XXXXXXX CS
               V-set_CD47 105 telsneikttieLklrvvkwfsee 128
                              +e  n ++t ie++ + ++wf+++
  PHY93_13300|PHY93_13300 153 VEVINGLETNIEITSSLIEWFNSK 176
                              5778999***************97 PP

>> THF_DHG_CYH_C  Tetrahydrofolate dehydrogenase/cyclohydrolase, NAD(P)-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   0.0    0.0065         9      37      68 ..       4      34 ..       1      51 [. 0.87
   2 ?    4.0   0.1      0.02        27      57      87 ..      60      90 ..      44     101 .. 0.79

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.0065
                             -EEEEE---TTTHHHHHHHHHCTT-EEEEE-T CS
            THF_DHG_CYH_C 37 kkvvvvGrsnivgkplallLleknatVtvchs 68
                             ++v+v+G++ ++g+ +a+ ++++n tV ++++
  PHY93_13300|PHY93_13300  4 NTVIVIGAG-TMGQGIAQWFAQQNLTVEMVDQ 34
                             578999987.68***************99876 PP

  == domain 2  score: 4.0 bits;  conditional E-value: 0.02
                             HCTT-EEEEE-TTSCCHHHHHCCSSEEEE-S CS
            THF_DHG_CYH_C 57 leknatVtvchsktkdlaeitreadivvvav 87
                             ++++ t    + + k+++ei ++ad+v+ a+
  PHY93_13300|PHY93_13300 60 SNADVTLFKKNISVKKIDEINSNADLVIEAI 90
                             444444444555679*************997 PP

>> F420_oxidored  NADP oxidoreductase coenzyme F420-dependent
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.7   0.00043      0.59       2      23 ..       6      27 ..       5      99 .. 0.79
   2 ?   -1.6   0.0       3.1   4.2e+03      31      47 ..     103     119 ..      83     154 .. 0.49

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00043
                             EEEETTSHHHHHHHHHHHHTTS CS
            F420_oxidored  2 igiiGaGnmgealasgllaaga 23
                             + +iGaG mg+++a+ +++++ 
  PHY93_13300|PHY93_13300  6 VIVIGAGTMGQGIAQWFAQQNL 27
                             5689***********9999983 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 3.1
                              EEESSCCCHHHHHHHHC CS
            F420_oxidored  31 ansrnpekaeelaeelg 47 
                              + + + +k + +a++ +
  PHY93_13300|PHY93_13300 103 TLDTMMSKHTIFASNTS 119
                              33333333333333333 PP

>> Sec5  Exocyst complex component Sec5
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   5.7   0.00037      0.52       6      87 ..      30     114 ..      25     138 .. 0.87

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00037
                     Sec5   6 slvksnftkfvkvkdtldqiykefseskteaqed..slveeLe.eslneairkttllfkpvlenkekadklraaleviernkflF 87 
                              ++v++nf+  + + +++ q  ++++ s + ++ d     ++++ ++++e++++++l+++ ++en e  +k+ a+l+ + +   +F
  PHY93_13300|PHY93_13300  30 EMVDQNFEFALISLNRILQSFDKLEASGKLSNADvtLFKKNISvKKIDEINSNADLVIEAIIENLEAKNKIFATLDTMMSKHTIF 114
                              789*********************9988888888664445554389*****************************9988887777 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (286 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       833  (0.046461); expected 358.6 (0.02)
Passed bias filter:                      513  (0.0286129); expected 358.6 (0.02)
Passed Vit filter:                        55  (0.00306766); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.61u 0.27s 00:00:00.88 Elapsed: 00:00:00.47
# Mc/sec: 1829.42
//
Query:       PHY93_13305|PHY93_13305  [L=226]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.6e-10   39.7   0.0    1.7e-09   38.1   0.0    1.8  2  3HCDH     3-hydroxyacyl-CoA dehydrogenase, C-terminal domain


Domain annotation for each model (and alignments):
>> 3HCDH  3-hydroxyacyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0      0.78   1.4e+04      24      34 ..      30      40 ..      24      43 .. 0.72
   2 !   38.1   0.0   9.7e-14   1.7e-09       5      72 ..     148     215 ..     145     223 .. 0.90

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 0.78
                             S-HHHHHHHHH CS
                    3HCDH 24 aspediDaamr 34
                              ++++iD+a++
  PHY93_13305|PHY93_13305 30 YKVRTIDEAIN 40
                             57888998876 PP

  == domain 2  score: 38.1 bits;  conditional E-value: 9.7e-14
                              HHHHHHHHHHHHHHHHTTSS-HHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHHHHHHHTTTHGGH CS
                    3HCDH   5 nRvlapllneavrlveegvaspediDaamrlglGlpmGpfelldlvgldvakkilevlaeelgeraya 72 
                               R++a ++nea+ ++ ++ as+  iD am++g+++p+Gp+e+ + +gl    + le l   + +++y+
  PHY93_13305|PHY93_13305 148 PRTIAMIINEAYFALGDKLASATAIDLAMKNGVNYPLGPIEWGEKIGLHNIAQLLEELSTITRDERYK 215
                              699*********************************************99999999888888887776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (226 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       467  (0.0260472); expected 358.6 (0.02)
Passed bias filter:                      372  (0.0207485); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.44
# Mc/sec: 1541.00
//
Query:       PHY93_13310|PHY93_13310  [L=396]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.6e-71  239.2   0.0    2.2e-70  237.0   0.0    1.8  2  Thiolase_N     Thiolase, N-terminal domain
      5e-39  132.7   1.0      8e-39  132.1   1.0    1.3  1  Thiolase_C     Thiolase, C-terminal domain
  ------ inclusion threshold ------
      0.076   12.6   0.0       0.15   11.6   0.0    1.4  1  ketoacyl-synt  Beta-ketoacyl synthase, N-terminal domain


Domain annotation for each model (and alignments):
>> Thiolase_N  Thiolase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  237.0   0.0   3.6e-74   2.2e-70       2     260 .]       5     267 ..       4     267 .. 0.92
   2 ?   -0.2   0.0     0.087   5.2e+02       4      46 ..     298     343 ..     298     393 .. 0.65

  Alignments for each domain:
  == domain 1  score: 237.0 bits;  conditional E-value: 3.6e-74
                              EEEEEEEE--EETTSTTTTS-HHHHHHHHHHHHHHHHTS-GGGCCEEEEEHSSCTTSTSC.HHHHHHHHTTS-TTSEEEEEEHGGG CS
               Thiolase_N   2 vivsaartpigkfggslkdlsaeeLlaealkallekagvdpeevdevivGnvlqagegqn.iarqaalkagipeevpavtvnkvcs 86 
                              +iv a+r++ig+ gg l+ +++++L a +lk++ ++   dpe +d+vi+G+  qage++  +ar+a++ +g+p +vp +t n++c+
  PHY93_13310|PHY93_13310   5 FIVYAKRSAIGRLGGKLSPVRVDDLMAFVLKDIKDNLTFDPELIDDVIIGCANQAGEDNRnLARMAVVLSGLPLSVPGSTTNRLCG 90 
                              79*****************************************************665544************************* PP

                              HHHHHHHHHHHHHHTTSHSEEEEEEEEESTTS-EEETCTTT...TGGSSSSEEEEEHHHHHHTEETTTTSEHHHHHHHHHHHHT-- CS
               Thiolase_N  87 SglkavalaaqsiaageadvvvagGvEsmsnaptaestdvr...sglklgdekakdllipdgladafneehmGltaenlakkykis 169
                              S+l+a++++ + i++g ad++++gG+Esm++ p + s++      ++k+ d++     i+  + ++f  + mG tae++a+ yki+
  PHY93_13310|PHY93_13310  91 SSLDALIDGFGRIQSGIADCLIVGGAESMTRGPFVLSKAQSaydREQKMYDTTFGWRFINPKMEKMFPLYGMGETAEEVAALYKIT 176
                              **********************************99844334444444444444433444469999******************** PP

                              HHHHHHHHHHHHHHHHHHHHTTTTTTTBE-EEEEESSSEEEE-S-TTS-TT--HHHHHTS-BSSSTTSS-BTTSB--BEEEEEEEE CS
               Thiolase_N 170 ReeqdefAvkshqkaaaaqkagkFkdeivPvkvkgkkgkktvdkdeairsevtaekLaklkpaFkkeGtvtAgnasqisDGaaavl 255
                              Reeqd+fA+ sh ka aa++ g F++e++P +v+ kk+   ++kde +r+++t+ +L+klkpaF+k+GtvtAgn+s+++DGaaa+l
  PHY93_13310|PHY93_13310 177 REEQDKFALDSHVKAIAAWNRGDFNEEVLPYNVELKKEAYLFSKDECPRADTTLLALSKLKPAFRKDGTVTAGNSSPMNDGAAALL 262
                              *************************************99*********************************************** PP

                              EEEHH CS
               Thiolase_N 256 lmses 260
                              ++se+
  PHY93_13310|PHY93_13310 263 IVSEE 267
                              **996 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.087
                              EEEEEE--EETTSTTTTS-HHHHHHHHHHHHHHHHT...S-GGGCC CS
               Thiolase_N   4 vsaartpigkfggslkdlsaeeLlaealkallekag...vdpeevd 46 
                              v+a+++ + +++  ++d+ a eL ++++ ++l   +   +dp++++
  PHY93_13310|PHY93_13310 298 VEAVKILMKRYNKKISDFDAIELNEAFAAQALGCIKgldLDPSKIN 343
                              6788888999999999999999999998887765555447777665 PP

>> Thiolase_C  Thiolase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  132.1   1.0   1.3e-42     8e-39       2     120 ..     275     394 ..     274     396 .] 0.94

  Alignments for each domain:
  == domain 1  score: 132.1 bits;  conditional E-value: 1.3e-42
                              --SEEEEEEEEEE--GGGGGGHHHHHHHHHHHHHT--GGGESEEEE--SBHHHHHHHHHHHT--GGGBSTT--HHHH-B-TTTHHH CS
               Thiolase_C   2 kplakirsyaevgvdpeilglgPayaikkvlkkagltvedidlfEinEAFaaqaLavakaldldlekvNvnGGaialGHPlGasGa 87 
                              +p+ +++  a+ gv+p+ +glgP+ a+k ++k+   +++d d++E+nEAFaaqaL ++k ldld++k+N+nGGaia+GHPlG sGa
  PHY93_13310|PHY93_13310 275 TPMIEVTGGAVRGVHPNVMGLGPVEAVKILMKRYNKKISDFDAIELNEAFAAQALGCIKGLDLDPSKINLNGGAIAIGHPLGGSGA 360
                              566777888899************************************************************************** PP

                              HHHHHHHHHHHHCT.TSEEEEEEEETTTEEEEEE CS
               Thiolase_C  88 Rivvtllselkkeg.gklgvaalCigggqgvalv 120
                              Riv+tl++++kk++  k ++a++Cig gqg+a+ 
  PHY93_13310|PHY93_13310 361 RIVTTLAHQMKKNKaIKESIATMCIGVGQGIAVS 394
                              ***********99835889************986 PP

>> ketoacyl-synt  Beta-ketoacyl synthase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   2.5e-05      0.15     175     216 ..      89     129 ..      78     142 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 2.5e-05
                              GGHHHHHHHHHHHHHHTTS-SEEEEEEEE---SHHHHHHHHH CS
            ketoacyl-synt 175 CsSslvavhaavqslrsgeadvalaGGvellltpeavagfsa 216
                              C Ssl a+     +++sg ad+ ++GG+e ++t + +++ +a
  PHY93_13310|PHY93_13310  89 CGSSLDALIDGFGRIQSGIADCLIVGGAE-SMTRGPFVLSKA 129
                              99**99999999*****************.555566655555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (396 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       448  (0.0249875); expected 358.6 (0.02)
Passed bias filter:                      418  (0.0233142); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.58u 0.25s 00:00:00.83 Elapsed: 00:00:00.46
# Mc/sec: 2581.19
//
Query:       PHY93_13315|PHY93_13315  [L=172]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.1e-16   60.3   1.6    1.6e-16   59.7   1.6    1.3  1  Cupin_2       Cupin domain
    7.9e-05   22.3   0.0    0.00012   21.7   0.0    1.3  1  Cupin_3       Protein of unknown function (DUF861)
     0.0003   20.4   0.1    0.00063   19.4   0.1    1.5  1  Cupin_1       Cupin
     0.0037   16.9   0.0     0.0048   16.6   0.0    1.2  1  Auxin_BP      Auxin binding protein
  ------ inclusion threshold ------
      0.014   15.3   0.8      0.024   14.5   0.8    1.4  1  AraC_binding  AraC-like ligand binding domain


Domain annotation for each model (and alignments):
>> Cupin_2  Cupin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.7   1.6   4.5e-20   1.6e-16       2      69 ..      49     119 ..      48     121 .. 0.96

  Alignments for each domain:
  == domain 1  score: 59.7 bits;  conditional E-value: 4.5e-20
                              EEEEETTE.EEEEECSSSEEEEEEEEESEEEEEECTEEEEEETTEEEEE-TT..-EEEEEE-SSS-EEEEE CS
                  Cupin_2   2 lvelppGe.sapshrHpgedeffyVleGegeltvdgeeveleaGdsvyfpag..tpHrfrNtgdeparllv 69 
                              ++++ppG+ ++ +h  + e+ef yV++G+ ++++dg+ ++l +Gd+v fpag    H+f+N+g+e++ llv
  PHY93_13315|PHY93_13315  49 IETIPPGRrTSWPHAESLEEEFAYVIKGHPHVWIDGHLHDLVPGDFVAFPAGtgIAHTFINNGHEDCLLLV 119
                              689************************************************98899***********9986 PP

>> Cupin_3  Protein of unknown function (DUF861)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.7   0.0   3.4e-08   0.00012      22      60 ..      64     101 ..      51     114 .. 0.88

  Alignments for each domain:
  == domain 1  score: 21.7 bits;  conditional E-value: 3.4e-08
                              CESSEEEEEEEECEEEEEETTTEEEEEETTEEEEE-TTE CS
                  Cupin_3  22 tyeedEfcyileGevkvtpeggetvelraGDlvvlpkgl 60 
                              +  e+Ef+y+++G+ +v   +g  + l +GD+v +p+g+
  PHY93_13315|PHY93_13315  64 ESLEEEFAYVIKGHPHVWI-DGHLHDLVPGDFVAFPAGT 101
                              55589**************.******************8 PP

>> Cupin_1  Cupin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.4   0.1   1.8e-07   0.00063      48     121 ..      61     129 ..      58     142 .. 0.79

  Alignments for each domain:
  == domain 1  score: 19.4 bits;  conditional E-value: 1.8e-07
                              EEEESSS-EEEEEEESEEEEEEEETTSS.EEEEEEEETTEEEEE-TT..-EEEEEEESSSSEEEEEEEESSSTT-E CS
                  Cupin_1  48 PhyhpnateiayvlqGegrvgfvvpgngnrdfhkklreGdvfvvPag..lvhfqynsgdepavaivvfdtnnpgnq 121
                              Ph  +  +e ayv++G  + + +  +        +l +Gd +++Pag  ++h ++n+g+e+ + +v+ d+n+ +n 
  PHY93_13315|PHY93_13315  61 PHAESLEEEFAYVIKGHPH-VWIDGH------LHDLVPGDFVAFPAGtgIAHTFINNGHEDCLLLVGGDSNKIENK 129
                              6666667788888888888.344333......24599********963389********************99887 PP

>> Auxin_BP  Auxin binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   1.3e-06    0.0048      36      95 ..      37      99 ..       5     131 .. 0.72

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 1.3e-06
                             HHHH--SSEEEEEEEE-TT-B--E.EEESS-EEEE.EEE--EEEEE-.-SSSSS--S-EEEEE CS
                 Auxin_BP 36 svlhgmkevevwlqtlapgsrtpi.hrhsceevfv.vlkgkgtlyla.sssskypgkpqelpi 95
                               + g+k+  v ++t+ pg+rt   h  s ee f+ v+kg+  +++  + +   pg+   +p 
  PHY93_13315|PHY93_13315 37 GKKLGLKNTGVHIETIPPGRRTSWpHAESLEEEFAyVIKGHPHVWIDgHLHDLVPGDFVAFPA 99
                             34679*****************855999*999886599****999975778888998777664 PP

>> AraC_binding  AraC-like ligand binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.8   6.8e-06     0.024       7      57 ..      49     101 ..      46     114 .. 0.90

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 6.8e-06
                              EETTSTT-SE.EEETT-.SEEEEEEEEE-EEEEETTEEEEE-TT-EEEE-TTS CS
             AraC_binding   7 ieagypdhsf.pphvhd.eyvihyvteGtgrlrlngrtydlgpGdlfLlppge 57 
                              ie   p+ ++ +ph  + e ++ yv++G+  ++++g+ +dl pGd + +p g+
  PHY93_13315|PHY93_13315  49 IETIPPGRRTsWPHAESlEEEFAYVIKGHPHVWIDGHLHDLVPGDFVAFPAGT 101
                              566678888878999999*****************************999885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (172 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       188  (0.0104858); expected 358.6 (0.02)
Passed bias filter:                      184  (0.0102627); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.47u 0.25s 00:00:00.72 Elapsed: 00:00:00.45
# Mc/sec: 1159.35
//
Query:       PHY93_13320|PHY93_13320  [L=493]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   2.8e-156  520.7   0.2   3.1e-156  520.5   0.2    1.0  1  Aldedh    Aldehyde dehydrogenase family
  ------ inclusion threshold ------
      0.082   13.4   0.0         13    6.2   0.0    2.6  3  DUF2115   Uncharacterized protein conserved in archaea (DUF21


Domain annotation for each model (and alignments):
>> Aldedh  Aldehyde dehydrogenase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  520.5   0.2  3.5e-160  3.1e-156       9     462 .]      20     477 ..      11     477 .. 0.96

  Alignments for each domain:
  == domain 1  score: 520.5 bits;  conditional E-value: 3.5e-160
                              EEEEETTTCEEEEEEE-B-HHHHHHHHHHHHHHHH..HHTTS-HHHHHHHHHHHHHHHHHTHHHHHHHHHHHH---HHHHHHHHHH CS
                   Aldedh   9 ievinPatgeviakvpaataedvdaavaaAkeafk..awaklpaeeRaeiLrkaadlleerkeelaeletletGkplaearaevee 92 
                                +i+P++g ++ak++  +a+d+d+avaaA++af   +w++++   Ra++L k+ + ++er++e++++e+++ G +l++a+a+v++
  PHY93_13320|PHY93_13320  20 KTSIDPSNGMEVAKYHIPSAKDIDEAVAAAHSAFYnpEWKNMSQDARADLLLKISEKIKERAKEIVDVEVRDSGSTLRKAKADVHN 105
                              4689******************************8889************************************************ PP

                              HHHHHHHHHHHHHHHSEEEEEE.C...TTEEEEEEEEE-SEEEEEE-SSSCCHHHHHHHHHHHHTT-EEEEEE-TTSHHHHHHHHH CS
                   Aldedh  93 aidvlryyaelaeklegevlps.s...egklalvrrePlGvvgaItPWNfPlllaawklapalaaGNtvvlKPaeetplsalllae 174
                              ++++++ + + a++l+ ++    +     + +   + P+Gv+++I+PWNfPl++a wk+ p la+G+t+vlK aeetp+sa +lae
  PHY93_13320|PHY93_13320 106 TASFFKVMSKVARELKLSINDEaAsraGFSINSREYSPVGVCAQIIPWNFPLVMAGWKIGPVLATGCTTVLKSAEETPASASILAE 191
                              **************99988555324323334444556************************************************* PP

                              HHHHTTS-TTSEEE--SSTCCHHHHHHH-TTESEEEEES-HHHHHHHHHHHHCTTSEEEEEE---EEEEE-TTSHHHHHHHHHHHH CS
                   Aldedh 175 lfeeaglPkgvlnvvtgsgsevgealvehpevdkvsftGstevgrkiakaaaknlkrvtlElGGknplivledaDldkaveaivkg 260
                              ++++ag+P+gv+n++tg g++vg+al++hp+++kv+ftGst+vg +i+k+ a n++  t+ElGGk+++ivl+daDl  av++++ +
  PHY93_13320|PHY93_13320 192 IIRDAGVPAGVVNIITG-GADVGRALLNHPQIRKVAFTGSTPVGAEILKEIAPNITLATMELGGKSANIVLNDADLSIAVDGALYA 276
                              *****************.******************************************************************** PP

                              HHGGGGTSTTSEEEEEEEHHHHHHHHHHHHHHHHT--BS-TTSTT-SB---SSHHHHHHHHHHHHHHHHTTSEEEE-TT.E.SB-S CS
                   Aldedh 261 afgnaGQvCiaasrllvqesiydefveklveaakklkvgdpldedtdvGPliseaqlekvekyveeakeegaklllGge.reeagl 345
                              +++++GQ C +++rllvqe+iy ef+e++++++k+++v    d+++ +GP+ise+q++++ +++e +k+e+ kll Gg+  +e + 
  PHY93_13320|PHY93_13320 277 FLYHSGQACDSGTRLLVQEEIYPEFIEQFLKRIKEVRVAPTTDSNSGYGPVISEKQMNTILGFIEITKSENGKLLSGGSrLTEGEF 362
                              *******************************************************************************98899** PP

                              SSTTEE--EEEES-TTTSHHHHS---SSEEEEEEESSHHHHHHHHHSSSEESEEEEE-SBHHHHHHHHHHS-SSEEEESSSST--T CS
                   Aldedh 346 ekgyfvePtvlanvtpdmriaqeEiFGPVlsvikfkdeeeaieiaNdteyGLaagvftkdleraervaerleaGnvyiNdsttgaa 431
                               +g+f+ePt ++ +tp ++i+qeEiFGPV+ ++kfk+e+ea+++aN+++yGLa++v++kd e+a+++a++leaG+v+iN+++  ++
  PHY93_13320|PHY93_13320 363 GNGFFIEPTAFE-ITPAHTIFQEEIFGPVVGITKFKTEAEAVALANNSKYGLAGAVWSKDHEKAKKIASQLEAGTVWINEYHLLNP 447
                              ***********9.9************************************************************************ PP

                              TTSEB--CGGGEES-BSHHHHHHHTEEEEEE CS
                   Aldedh 432 ealpfgGvkqSglGreggkegleeytevktv 462
                               + pfgG+k+SglGre+g+eg++ y+ev++v
  PHY93_13320|PHY93_13320 448 GM-PFGGFKKSGLGREMGSEGIMSYLEVRHV 477
                              99.*************************987 PP

>> DUF2115  Uncharacterized protein conserved in archaea (DUF2115)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.0   0.1     0.007        63      25      91 ..      51     118 ..      38     133 .. 0.80
   2 ?    6.2   0.0    0.0015        13      40      93 ..     294     347 ..     289     357 .. 0.86
   3 ?   -2.4   0.0      0.68   6.1e+03      98     130 ..     422     454 ..     397     456 .. 0.78

  Alignments for each domain:
  == domain 1  score: 4.0 bits;  conditional E-value: 0.007
                  DUF2115  25 sarlekeikklpekyrkelseslteylfeaykelkn.krsgdkseykeevideeelkeflemleeqce 91 
                              sa+++ e k+++++ r++l  ++ e + e+ ke+ + + +++ s+  + + d +++ +f++ +++  +
  PHY93_13320|PHY93_13320  51 SAFYNPEWKNMSQDARADLLLKISEKIKERAKEIVDvEVRDSGSTLRKAKADVHNTASFFKVMSKVAR 118
                              67888999***************************987777777777777777777777777766554 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.0015
                  DUF2115  40 rkelseslteylfeaykelknkrsgdkseykeevideeelkeflemleeqceee 93 
                              ++e+ ++++e++++++ke++   ++d+++  ++vi e++++ +l  +e + +e+
  PHY93_13320|PHY93_13320 294 QEEIYPEFIEQFLKRIKEVRVAPTTDSNSGYGPVISEKQMNTILGFIEITKSEN 347
                              68999****************77777777778*********9999998776664 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 0.68
                  DUF2115  98 eerlrklyylvslYliFvleePlHpvgtpfPGg 130
                              +e+ +k++  + + +++++e  l  +g+pf G 
  PHY93_13320|PHY93_13320 422 HEKAKKIASQLEAGTVWINEYHLLNPGMPFGGF 454
                              667777777788888889988888999999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (493 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       638  (0.0355848); expected 358.6 (0.02)
Passed bias filter:                      568  (0.0316805); expected 358.6 (0.02)
Passed Vit filter:                        59  (0.00329076); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.66u 0.27s 00:00:00.93 Elapsed: 00:00:00.47
# Mc/sec: 3174.16
//
Query:       PHY93_13325|PHY93_13325  [L=204]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.8e-10   40.2   2.4    4.8e-10   39.8   2.4    1.1  1  OMP_b-brl      Outer membrane protein beta-barrel domain
     0.0035   17.1   0.0      0.007   16.1   0.0    1.4  1  OmpA_membrane  OmpA-like transmembrane domain


Domain annotation for each model (and alignments):
>> OMP_b-brl  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.8   2.4   5.4e-14   4.8e-10       2     175 ..       6     203 ..       5     204 .] 0.78

  Alignments for each domain:
  == domain 1  score: 39.8 bits;  conditional E-value: 5.4e-14
                OMP_b-brl   2 allllaalsaaaaa......assfggfyvg.gglglskvkvdgv..gsdsgfgfgvgagyefnd.......nvgvegglsysgdkd 71 
                              +l++la++++ a+a       + +++  ++ gg ++++v +++   +++sg g+g+g++ ++ +        +  e  ++y++  +
  PHY93_13325|PHY93_13325   6 TLAFLALFATNAFAdgqvfyRYGWSSLSMDrGGQTFTDVLGTNGknDGKSGKGIGAGLDLKLMNcplfpsnSLVGEIFVDYNRFSH 91 
                              67888899999999666666556666667677777888886544235556788888888888444444432577788888988877 PP

                OMP_b-brl  72 ysgs...........gktdikinllsvpvnagyaf.nlsdsvl.pyggaGlgytkvevdvsgngasdsdtdfglglgaGveyalad 144
                              +++            ++t+++ + l+v ++ +y+f +l+ +++ + + aGl+++    +   n  +++  d g+ lgaG+ey + +
  PHY93_13325|PHY93_13325  92 KKVVnaishvaglgsAPTEVSVSELAVVIAPKYRFdGLG-KFRpWIIPAGLAFM--VNSPPSN--TTNYLDVGYHLGAGAEYMIIK 172
                              77778889*******99******************4444.488355689***97..4556667..899****************** PP

                OMP_b-brl 145 nwslkaeYrytdlksdadndlknntfqvgvg 175
                              ++s++++Yryt+ + d + ++k++++ +++g
  PHY93_13325|PHY93_13325 173 ELSIGVDYRYTIGSGDPQLKVKYSSLGANLG 203
                              *************9999999*9999999987 PP

>> OmpA_membrane  OmpA-like transmembrane domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   7.8e-07     0.007     122     165 ..     154     196 ..     141     203 .. 0.83

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 7.8e-07
                              EEEEEEEEEEEEEEEEEETTEEEEEEEEEESSSSSBTSTTS..- CS
            OmpA_membrane 122 hdtkvslllavGveyaitpelalrleYqylnnvgdlrkaakkyk 165
                                 +v + l++G+ey i++el + ++Y+y+   gd + + k y+
  PHY93_13325|PHY93_13325 154 NYLDVGYHLGAGAEYMIIKELSIGVDYRYTIGSGDPQLKVK-YS 196
                              556777889*********************99999887765.65 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (204 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       275  (0.0153383); expected 358.6 (0.02)
Passed bias filter:                      254  (0.014167); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.46
# Mc/sec: 1333.56
//
Query:       PHY93_13330|PHY93_13330  [L=275]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.9e-36  123.4  10.7    6.9e-36  123.4  10.7    2.7  2  Flagellin_N      Bacterial flagellin N-terminal helical regio
    2.6e-24   85.4   9.0    2.6e-24   85.4   9.0    2.7  3  Flagellin_C      Bacterial flagellin C-terminal helical regio
  ------ inclusion threshold ------
      0.016   15.4   2.5        0.3   11.3   0.4    3.3  3  WXG100           Proteins of 100 residues with WXG
      0.029   14.6   1.3      0.029   14.6   1.3    2.0  2  ArlS_N           ArlS sensor domain
      0.099   12.8   4.7       0.28   11.4   0.6    2.3  2  Tropomyosin_1    Tropomyosin like
       0.14   12.6   0.2       0.26   11.7   0.2    1.4  1  Pox_polyA_pol_N  Poxvirus poly(A) polymerase N-terminal domai
       0.15   12.5   1.6       0.94   10.0   0.7    2.3  2  CCDC74_C         Coiled coil protein 74, C terminal
       0.54   10.6   8.8        0.9    9.9   0.6    4.3  6  V-SNARE_C        Snare region anchored in the vesicle membran


Domain annotation for each model (and alignments):
>> Flagellin_N  Bacterial flagellin N-terminal helical region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  123.4  10.7   3.1e-39   6.9e-36       1     137 [.       5     141 ..       5     143 .. 0.99
   2 ?    1.7   9.3      0.11   2.5e+02      45      88 ..     210     253 ..     186     274 .. 0.68

  Alignments for each domain:
  == domain 1  score: 123.4 bits;  conditional E-value: 3.1e-39
                              --SS-STTHHHHHHHHHHHHHHHHHHHHTTSBTTSSTTS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
              Flagellin_N   1 istnalalaarsnlnknqaelqkaqeelstGlridsalddaaglaisvslrsqiaglsqlvrnnslgisrlqtaqgalselsdilq 86 
                              i+tn+ +laa+++l  n+ e ++++ +ls+G ri +a+ddaaglais++l++qi+g +q+ rn+++gis++qta+g+l+e s+il 
  PHY93_13330|PHY93_13330   5 INTNVTSLAAQRTLGANNLEQASTLGKLSSGSRIVKAADDAAGLAISEKLKAQIRGTGQAERNANDGISLIQTAEGGLNESSNILV 90 
                              9************************************************************************************* PP

                              HHHHHHHHHT-TTTS-SHHHHHHHHHHHHHHHHHHHHHH-EETTEE-SSGG CS
              Flagellin_N  87 rlkelavaasndsnsdedrqslqaelqqLtdelnrianttsfNGekLlagt 137
                              rl+elav++++d+  d++r+  + e q+L++e++ri++ t+fNG+kLl+g+
  PHY93_13330|PHY93_13330  91 RLRELAVQSASDTVGDSERKFTDVEYQNLKQEMERISQVTEFNGKKLLNGS 141
                              *************************************************97 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.11
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
              Flagellin_N  45 aisvslrsqiaglsqlvrnnslgisrlqtaqgalselsdilqrl 88 
                              ai ++l+s i++l++ ++n s + sr+  ++ a ++ +++  ++
  PHY93_13330|PHY93_13330 210 AIQNRLTSTINNLQSSSENLSAANSRIRDTDFAAESAKNTKMNI 253
                              67788888888888888888888888888888888877765553 PP

>> Flagellin_C  Bacterial flagellin C-terminal helical region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.2         1   2.3e+03      10      41 ..      11      41 ..       4      45 .. 0.50
   2 ?   -1.7   0.1       1.7   3.7e+03      45      63 ..     110     128 ..      96     133 .. 0.51
   3 !   85.4   9.0   1.2e-27   2.6e-24       2      85 ..     192     275 .]     191     275 .] 0.97

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 1
                             HHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHH CS
              Flagellin_C 10 dldkvrselGavqnRlesaitnlkaqsenlka 41
                             +l+++r +lGa+     s+  +l+  s ++ka
  PHY93_13330|PHY93_13330 11 SLAAQR-TLGANNLEQASTLGKLSSGSRIVKA 41
                             333333.3555555555555555555555555 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 1.7
                              HHCCHHHHHHHHHHHHHHH CS
              Flagellin_C  45 rledvDpaeestrvtklqi 63 
                              +  dv + + + +++++ +
  PHY93_13330|PHY93_13330 110 KFTDVEYQNLKQEMERISQ 128
                              4444444444444444433 PP

  == domain 3  score: 85.4 bits;  conditional E-value: 1.2e-27
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHCHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHCTCCHHHHHHH CS
              Flagellin_C   2 divdeaitdldkvrselGavqnRlesaitnlkaqsenlkaaesrledvDpaeestrvtklqiliqasyallaqanqlpqsllnl 85 
                              ++vd ai++++ +r+elGa+qnRl+s+i+nl+  senl+aa sr++d+D+a+es++ tk +il+qa++++l+qan++ q +l+l
  PHY93_13330|PHY93_13330 192 AKVDMAIQNVSGQRAELGAIQNRLTSTINNLQSSSENLSAANSRIRDTDFAAESAKNTKMNILTQAGTSVLSQANSQGQAALKL 275
                              689****************************************************************************99986 PP

>> WXG100  Proteins of 100 residues with WXG
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.0      0.14     3e+02      42      65 ..     104     128 ..      73     140 .. 0.63
   2 ?   11.3   0.4   0.00014       0.3       3      39 ..     188     224 ..     186     227 .. 0.91
   3 ?    7.6   0.1     0.002       4.4      55      85 ..     210     240 ..     206     240 .. 0.87

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.14
                              THHHCHHHHH.HHHHHHHHHHHHHH CS
                   WXG100  42 sGaaadafqa.efeewkqaaqklvd 65 
                               G++  +f + e++++kq+++++ +
  PHY93_13330|PHY93_13330 104 VGDSERKFTDvEYQNLKQEMERISQ 128
                              5666666655356677777777665 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 0.00014
                              CSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCGC CS
                   WXG100   3 kvdpeelrqaaarfqkqaeeledelqrlkaevdalqs 39 
                              +++ ++++ a++++++q++el ++++rl +++++lqs
  PHY93_13330|PHY93_13330 188 QASLAKVDMAIQNVSGQRAELGAIQNRLTSTINNLQS 224
                              567788999**************************87 PP

  == domain 3  score: 7.6 bits;  conditional E-value: 0.002
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                   WXG100  55 ewkqaaqklvdaLeeisealkqaanafedaD 85 
                               +++ ++  +++L++ se+l +a+++ +d+D
  PHY93_13330|PHY93_13330 210 AIQNRLTSTINNLQSSSENLSAANSRIRDTD 240
                              5677788999******************998 PP

>> ArlS_N  ArlS sensor domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.1      0.88     2e+03       9      30 ..     115     136 ..     108     163 .. 0.68
   2 ?   14.6   1.3   1.3e-05     0.029       9      69 ..     207     267 ..     204     274 .. 0.91

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.88
                   ArlS_N   9 Eeeeversltevttyleekkls 30 
                              E ++++++++ +++  e ++++
  PHY93_13330|PHY93_13330 115 EYQNLKQEMERISQVTEFNGKK 136
                              6677788888777755544444 PP

  == domain 2  score: 14.6 bits;  conditional E-value: 1.3e-05
                   ArlS_N   9 Eeeeversltevttyleekklslteeelqesdsllekinekdqtirildkdgkevlevsnd 69 
                              E  ++++ lt + ++l++ +++l++++ +++d+++ +   k+ +++il + g  vl+ +n+
  PHY93_13330|PHY93_13330 207 ELGAIQNRLTSTINNLQSSSENLSAANSRIRDTDFAAESAKNTKMNILTQAGTSVLSQANS 267
                              566899**************************************************98664 PP

>> Tropomyosin_1  Tropomyosin like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.3     0.045     1e+02      81     128 ..      74     122 ..      12     134 .. 0.68
   2 ?   11.4   0.6   0.00012      0.28      52     114 ..     185     247 ..     176     260 .. 0.82

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.045
            Tropomyosin_1  81 kiqlLEeeleesdkkLkettek.LretdvkaeelERkvkaLeqerdewe 128
                               iq  E  l+es++ L    e   + ++ + +++ERk +++e ++ + e
  PHY93_13330|PHY93_13330  74 LIQTAEGGLNESSNILVRLRELaVQSASDTVGDSERKFTDVEYQNLKQE 122
                              4777777777777766666554145567778899999999998877666 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 0.00012
            Tropomyosin_1  52 ekleeklkeakekaeesekkktnnealtrkiqlLEeeleesdkkLkettekLretdvkaeelE 114
                              e  +++l ++  + ++ + ++++  a++ ++    ++l +s+++L  ++ ++r+td +ae   
  PHY93_13330|PHY93_13330 185 ESSQASLAKVDMAIQNVSGQRAELGAIQNRLTSTINNLQSSSENLSAANSRIRDTDFAAESAK 247
                              55666777777777777777777779*********************************9864 PP

>> Pox_polyA_pol_N  Poxvirus poly(A) polymerase N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.2   0.00011      0.26      19      78 ..     113     169 ..     107     176 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00011
                              HHHHHHHGGGHHHHHHHHHS-HHHHHHHHHHHHHHH-TTSSS-THHHHHHHHHHTTGGGC CS
          Pox_polyA_pol_N  19 leeyvvlksqvrniqkilnfdkdiflsLlkknkkkffkdlklseseikkrileyfskqkk 78 
                                ey+ lk+++++i++++ f+ +   +Ll+ + +kf  +++  +++ ++ri+   +kq++
  PHY93_13330|PHY93_13330 113 DVEYQNLKQEMERISQVTEFNGK---KLLNGSGDKFDFQIGINNDDFQDRIKYDAAKQNA 169
                              569******************98...79999********************988888875 PP

>> CCDC74_C  Coiled coil protein 74, C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.0      0.29   6.5e+02      32      57 ..      52      77 ..      22     123 .. 0.77
   2 ?   10.0   0.7   0.00042      0.94      25      76 ..     202     256 ..     181     274 .. 0.73

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.29
                 CCDC74_C 32 qrlKslLeevlnskkatseayllaks 57
                             ++lK+ ++++ + ++ ++++ +l+++
  PHY93_13330|PHY93_13330 52 EKLKAQIRGTGQAERNANDGISLIQT 77
                             47999999999999999998877765 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00042
                 CCDC74_C  25 slQaqElqrlKslLeevlnskkatseayllaksyvkdee...daiqlpkvalknl 76 
                              s Q  El  +   L  ++n+ + +se+ ++a+s+++d++   ++++  k+ + ++
  PHY93_13330|PHY93_13330 202 SGQRAELGAIQNRLTSTINNLQSSSENLSAANSRIRDTDfaaESAKNTKMNILTQ 256
                              56889*********************************86554444444444333 PP

>> V-SNARE_C  Snare region anchored in the vesicle membrane C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       2.3   5.2e+03      22      34 ..      45      57 ..      25      58 .. 0.64
   2 ?   -1.0   0.0      0.99   2.2e+03       8      26 ..      80      98 ..      74     109 .. 0.75
   3 ?   -1.6   0.0       1.5   3.3e+03       6      21 ..     100     115 ..      96     120 .. 0.78
   4 ?    9.9   0.6    0.0004       0.9      29      61 ..     199     231 ..     196     236 .. 0.84
   5 ?    8.9   0.1   0.00078       1.8      26      49 ..     217     240 ..     216     243 .. 0.94
   6 ?   -1.5   0.1       1.4   3.1e+03      17      36 ..     251     270 ..     245     271 .. 0.78

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 2.3
                V-SNARE_C 22 siGaailedLhsQ 34
                             + G ai e+L+ Q
  PHY93_13330|PHY93_13330 45 AAGLAISEKLKAQ 57
                             3467777777776 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.99
                V-SNARE_C  8 drlknShrivdetisiGaa 26
                               l++S++i+ ++ + +++
  PHY93_13330|PHY93_13330 80 GGLNESSNILVRLRELAVQ 98
                             5689999999888877765 PP

  == domain 3  score: -1.6 bits;  conditional E-value: 1.5
                V-SNARE_C   6 esdrlknShrivdeti 21 
                              +sd + +S+r  ++++
  PHY93_13330|PHY93_13330 100 ASDTVGDSERKFTDVE 115
                              6788999999988887 PP

  == domain 4  score: 9.9 bits;  conditional E-value: 0.0004
                V-SNARE_C  29 edLhsQretLkrarsklhnvanrlgksnsiLrs 61 
                              ++ + Qr  L+ ++++l  + n+l  s+  L++
  PHY93_13330|PHY93_13330 199 QNVSGQRAELGAIQNRLTSTINNLQSSSENLSA 231
                              67899*******************999876665 PP

  == domain 5  score: 8.9 bits;  conditional E-value: 0.00078
                V-SNARE_C  26 ailedLhsQretLkrarsklhnva 49 
                              +++++L+s  e+L+ a+s++++++
  PHY93_13330|PHY93_13330 217 STINNLQSSSENLSAANSRIRDTD 240
                              899******************997 PP

  == domain 6  score: -1.5 bits;  conditional E-value: 1.4
                V-SNARE_C  17 vdetisiGaailedLhsQre 36 
                              ++ + + G+++l++  sQ +
  PHY93_13330|PHY93_13330 251 MNILTQAGTSVLSQANSQGQ 270
                              56677889999999988876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (275 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       913  (0.0509231); expected 358.6 (0.02)
Passed bias filter:                      366  (0.0204139); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.47
# Mc/sec: 1771.59
//
Query:       PHY93_13335|PHY93_13335  [L=918]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.36   11.3   1.9       0.75   10.3   0.1    2.6  2  Vps39_2   Vacuolar sorting protein 39 domain 2


Domain annotation for each model (and alignments):
>> Vps39_2  Vacuolar sorting protein 39 domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.1   4.2e-05      0.75      15      73 ..     106     165 ..      80     172 .. 0.84
   2 ?   -2.3   0.3      0.34   6.2e+03      28      71 ..     447     491 ..     437     501 .. 0.53

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 4.2e-05
                  Vps39_2  15 evLdllPdelplkdlesflekalrnslekkreeqvvkklrkaeklsveeell..klrskkv 73 
                              ++L+ lP+++ l +++ +l +++++s++++ + qv+k++     + +++el+  k ++++v
  PHY93_13335|PHY93_13335 106 SILENLPPKTLLYKVK-LLLRSIKSSSQQEDKDQVIKSIADGPAAATKSELAldKAQNEEV 165
                              79**********9987.566789*****************998888888877334444444 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 0.34
                  Vps39_2  28 dlesflekalrnslekkreeqvvkklrkaeklsveeell.klrsk 71 
                              +++  +++ l + ++kk +++ v  l  ++++++ee+   k+++k
  PHY93_13335|PHY93_13335 447 KISTQMMSELSEDNSKKIRTMDVFDLDPKKNNETEEDQNsKEKNK 491
                              555556666655555555555455555555555555444144444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (918 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1760  (0.098165); expected 358.6 (0.02)
Passed bias filter:                      289  (0.0161191); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.86u 0.32s 00:00:01.18 Elapsed: 00:00:00.48
# Mc/sec: 5701.67
//
Query:       PHY93_13340|PHY93_13340  [L=245]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.7e-10   40.4   0.1    6.3e-10   39.2   0.1    1.6  1  HD_5      HD domain
    0.00034   20.8   0.3    0.00057   20.1   0.1    1.6  1  HD        HD domain


Domain annotation for each model (and alignments):
>> HD_5  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.2   0.1     7e-14   6.3e-10       3      60 ..     121     179 ..     119     182 .. 0.93

  Alignments for each domain:
  == domain 1  score: 39.2 bits;  conditional E-value: 7e-14
                     HD_5   3 LtpeerellqehpeaaarlLsklp.rlpkdvaeiigqhhErldGsGyPrglkgeeIple 60 
                              L ++e++l+++h+  +  l++k +  l++++++ii+ hhEr +G GyP+ ++ge+I   
  PHY93_13340|PHY93_13340 121 LGEKEKRLFEKHTILGNHLIKKSQlDLSERCKKIILDHHERINGNGYPSMKHGESIETL 179
                              7899******************9977889***************************765 PP

>> HD  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.1   0.1   6.4e-08   0.00057      37     113 ..     104     183 ..      69     209 .. 0.74

  Alignments for each domain:
  == domain 1  score: 20.1 bits;  conditional E-value: 6.4e-08
                              TTHHHHTS..HHH......HHHCTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHCCTSCHHHHHH CS
                       HD  37 iGkgpfgdafekk......eeefekflaHekvgaeilrevekrlgldledvaklirehheswegkkrprglaerqlsleariv 113
                              iG  + + +++k+      e+e++ f++H++ g  +++++ ++l +      k+i+ hhe+++g+++p+++ ++ +  +++iv
  PHY93_13340|PHY93_13340 104 IGYTQLPLTMLKTpvlslgEKEKRLFEKHTILGNHLIKKSQLDLSE---RCKKIILDHHERINGNGYPSMKHGESIETLSLIV 183
                              5555555555555666655555889999****************66...*******************766666666655554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (245 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       474  (0.0264376); expected 358.6 (0.02)
Passed bias filter:                      325  (0.0181271); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.25s 00:00:00.77 Elapsed: 00:00:00.47
# Mc/sec: 1580.12
//
Query:       PHY93_05825|PHY93_05825  [L=160]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (160 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       651  (0.0363099); expected 358.6 (0.02)
Passed bias filter:                      517  (0.028836); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.42
# Mc/sec: 1132.08
//
Query:       PHY93_13345|PHY93_13345  [L=129]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.7e-24   86.1   0.0      2e-24   85.9   0.0    1.0  1  Response_reg  Response regulator receiver domain
  ------ inclusion threshold ------
      0.061   12.1   0.0      0.072   11.9   0.0    1.0  1  PEPCK_GTP     Phosphoenolpyruvate carboxykinase C-terminal P-


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.9   0.0   2.2e-28     2e-24       1     111 [.       9     126 ..       9     127 .. 0.94

  Alignments for each domain:
  == domain 1  score: 85.9 bits;  conditional E-value: 2.2e-28
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHH.....ESEEEEESSCSSSEHHHHHHHHHHCT..TTSEEEEEES CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeek.....vdlillDinmpgmdGlellkeireed..pelpviilta 79 
                              +l+vdD  ++r++++++l + g++++ ea+dg+ a+ ++++       +  i+ D+nmp+++Gl+llk++r+++  ++lp +++ta
  PHY93_13345|PHY93_13345   9 ILVVDDMSTMRKIIKNMLSQIGFTNISEADDGATAWPMIENAIkegrpYEFIVSDWNMPQLSGLDLLKNVRATPglEKLPFLMITA 94 
                              8************************************99554444457***************************99********* PP

                              STSHHHHHHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  80 hseeedavealkagaddflsKpfdpeeLlkal 111
                              ++e+ ++v a+kag++ f++Kpf+ + L++++
  PHY93_13345|PHY93_13345  95 EAEQGNVVIAVKAGVSNFIVKPFSAQVLKEKI 126
                              ****************************9998 PP

>> PEPCK_GTP  Phosphoenolpyruvate carboxykinase C-terminal P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0     8e-06     0.072      83     168 ..      16     104 ..       9     115 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 8e-06
                              TT-HHHHHHTTBS-EEES-EEETTS-EE-TT--------.EE-TTSSEE-T.T-S..SS-TT-EEEEEGGGSTTB-TTTT-TT-EE CS
                PEPCK_GTP  83 ktnpnalktlkkntiftNvaltedgdvwWegleeeapae.lidwkgkkwtkekek..aahpnsrftvpakqlpiiapewedpeGvp 165
                              +t  +++k++ +++ ftN+ + +dg   W  +e+  ++   +++  ++w+  + +     +n r t  +++lp +  ++e ++G  
  PHY93_13345|PHY93_13345  16 STMRKIIKNMLSQIGFTNISEADDGATAWPMIENAIKEGrPYEFIVSDWNMPQLSglDLLKNVRATPGLEKLPFLMITAEAEQGNV 101
                              455667777777788*****************99888655889999999987444457789************9999999999976 PP

                              EEE CS
                PEPCK_GTP 166 isa 168
                              + a
  PHY93_13345|PHY93_13345 102 VIA 104
                              655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (129 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       575  (0.0320709); expected 358.6 (0.02)
Passed bias filter:                      492  (0.0274416); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.26s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 895.79
//
Query:       PHY93_13350|PHY93_13350  [L=165]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    0.00085   19.5   0.0     0.0021   18.3   0.0    1.6  2  Hpt          Hpt domain
  ------ inclusion threshold ------
       0.08   12.7   0.2        3.2    7.5   0.1    2.1  2  Rep_fac-A_C  Replication factor-A C terminal domain


Domain annotation for each model (and alignments):
>> Hpt  Hpt domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.0   2.3e-07    0.0021       1      53 [.      11      71 ..      11      75 .. 0.93
   2 ?   -2.7   0.0      0.84   7.5e+03      10      21 ..      99     110 ..      90     121 .. 0.54

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 2.3e-07
                             HHHHHHHHHHHHHHHHHHHHH........SCCHHHHHHHHHHHHHHHHHHTTBHHHHHHHH CS
                      Hpt  1 ellelfleeaeelleqleqal........dqedlqelaraaHtLKGsagmlGltelaelah 53
                             e++++f+eea  l++ le++l        + + l++  ++  ++ G+a ++G+te+a +++
  PHY93_13350|PHY93_13350 11 EIVDDFCEEANSLFDLLETSLnlieenpsSTKELEKFGQIIDRIMGAAKSIGATEIAIFCE 71
                             6899********************99876666************************98886 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 0.84
                              HHHHHHHHHHHH CS
                      Hpt  10 aeelleqleqal 21 
                              + e l ++ ++l
  PHY93_13350|PHY93_13350  99 SLEMLRKMTESL 110
                              334444444444 PP

>> Rep_fac-A_C  Replication factor-A C terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.3   0.0    0.0068        61      61     105 ..       5      54 ..       3      61 .. 0.81
   2 ?    7.5   0.1   0.00036       3.2      80     140 ..      96     156 ..      89     162 .. 0.84

  Alignments for each domain:
  == domain 1  score: 3.3 bits;  conditional E-value: 0.0068
                              E-SS-EEEEEEEHHHHHHHHSS-HHHHHHHCC.....C-HHHHHHHHHHT CS
              Rep_fac-A_C  61 sDstgqlwvtlFneaaekllglsaeelkklke.....edeeefekiiekv 105
                              +D + +  v  F e+a++l+ l ++ l+ ++e     ++ e+f +ii+++
  PHY93_13350|PHY93_13350   5 NDPSMKEIVDDFCEEANSLFDLLETSLNLIEEnpsstKELEKFGQIIDRI 54 
                              57788888999*****************9999887666667777777766 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.00036
                              HSS-HHHHHHHCCC-HHHHHHHHHHTTT-EEEEEEEEE----------EEEEEEEEE--HH CS
              Rep_fac-A_C  80 lglsaeelkklkeedeeefekiiekvklkeflfrlrvkeesyndesrvrytvvkvepvdyk 140
                              l  s e l k+ e+ ++ ++k ++k+++k f  rl    e+++d +r  + +   e+++++
  PHY93_13350|PHY93_13350  96 LFDSLEMLRKMTESLRAGNDKSMNKLNTKAFATRLTWLSEKFKDIERSSCAIDVGENLNQN 156
                              555667889999999999*****************************99988766666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (165 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       817  (0.0455686); expected 358.6 (0.02)
Passed bias filter:                      596  (0.0332422); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 1095.34
//
Query:       PHY93_13355|PHY93_13355  [L=167]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.7e-17   61.5   0.0    9.4e-17   61.0   0.0    1.3  1  CheX      Chemotaxis phosphatase CheX
  ------ inclusion threshold ------
      0.079   12.9   0.1       0.16   11.9   0.1    1.4  1  CheC      CheC-like family


Domain annotation for each model (and alignments):
>> CheX  Chemotaxis phosphatase CheX
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.0   0.0     1e-20   9.4e-17      12      94 .]      67     153 ..      47     153 .. 0.93

  Alignments for each domain:
  == domain 1  score: 61.0 bits;  conditional E-value: 1e-20
                     CheX  12 sGliilsadeelalkiasal.gedeeeieedvndavgEltNmiaGnakskl...geevklspPlvisgkeltisepkgaksltipf 93 
                              + ++++s++ e+  k+asa+ ge+ ++   d++d  gE++Nm++Gnak +l   g+++++++P++++g +++i++p+ga+++ ipf
  PHY93_13355|PHY93_13355  67 KAMLVISFPYETYFKVASAMlGETYTSYVSDIHDLGGEIVNMVMGNAKRDLktmGYTSNMAIPSMLEGINHSIKYPSGAHVVLIPF 152
                              67899*************866******9********************77766699*****************************9 PP

                     CheX  94 e 94 
                              +
  PHY93_13355|PHY93_13355 153 N 153
                              5 PP

>> CheC  CheC-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.1   1.7e-05      0.16       7      25 ..     103     121 ..     103     129 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 1.7e-05
                              HHHHHHHHHHHHHHHHTCC CS
                     CheC   7 gEigNIlaGsaatalatll 25 
                              gEi N+++G+a   l t++
  PHY93_13355|PHY93_13355 103 GEIVNMVMGNAKRDLKTMG 121
                              7**********99887776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (167 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       435  (0.0242624); expected 358.6 (0.02)
Passed bias filter:                      402  (0.0224218); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.44
# Mc/sec: 1136.62
//
Query:       PHY93_13360|PHY93_13360  [L=385]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      2e-06   28.1   1.3       0.15   12.3   1.4    2.8  2  Metallophos_2  Calcineurin-like phosphoesterase superfamily d
    3.2e-05   24.5   8.9    0.00024   21.7   8.9    2.1  1  Metallophos    Calcineurin-like phosphoesterase
  ------ inclusion threshold ------
      0.037   14.6   0.7      0.084   13.5   0.7    1.5  1  Pox_A21        Poxvirus A21 Protein


Domain annotation for each model (and alignments):
>> Metallophos_2  Calcineurin-like phosphoesterase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.3   1.4   2.5e-05      0.15       3     114 ..      13     185 ..      12     197 .. 0.61
   2 !   12.1   0.0   2.7e-05      0.16     107     164 ..     286     352 ..     262     353 .. 0.72

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 2.5e-05
            Metallophos_2   3 laiiSDlH..............snldaleav..........lealkevgvdaiihaGD............................ 36 
                              +++iSDlH              + +++ +++          +   +ev  ++ii  GD                            
  PHY93_13360|PHY93_13360  13 IIVISDLHlgaglnvnnrrnflEDFHYDKELiefieyhssgYYLDREV--ELII-NGDffdllavpfvkyfddefwsehaaldklk 95 
                              678888888888766655555533333333344444444434444455..5554.4887777777776666666665555555544 PP

            Metallophos_2  37 .leeeep....evleellela.....pvlaVrGNnD........eevveedvlreaaelgtdlpeeaelelagekvlliHgdplgv 104
                               +          v+e+l++ +      ++++ GN+D         +++ e ++++  +  + l +++++ +++e + l Hg+  ++
  PHY93_13360|PHY93_13360  96 mI----IeahiGVMEALKDFLsypnnHIVYILGNHDaelvfeslRDYLLELFAEKDRDKFRILLNDDTVYIPEEGIVLKHGH--EY 175
                              42....03333355555554455699**********776665433335555555555555555799999999999*******..77 PP

            Metallophos_2 105 kdalaellke 114
                              + a ++ +k+
  PHY93_13360|PHY93_13360 176 ELAHQYSIKT 185
                              7777766665 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 2.7e-05
            Metallophos_2 107 alaellkeaeegsdvvvcGHtHvp.evekeggvlvvnPGsvgep...rdgdpe........tyaildtde 164
                              +l+e + +++e+ + +++GHtH p   e ++g +++n G  +      +   +        t+a +d++e
  PHY93_13360|PHY93_13360 286 SLTEEFVTGDENIKAFIVGHTHDPiFREYDDGSIFINTGTWTKMynlDF---GknfqgeklTFARVDVKE 352
                              566666676666679*********55555579*******9988744422...133355556777777776 PP

>> Metallophos  Calcineurin-like phosphoesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.7   8.9     4e-08   0.00024       2     203 ..      12     308 ..      11     309 .. 0.56

  Alignments for each domain:
  == domain 1  score: 21.7 bits;  conditional E-value: 4e-08
                              EEEEEESBTB............TTCCTHHHHHHHHHHHH.....HHHTTESEEEEESTSSSSS....................... CS
              Metallophos   2 rilvigDlHl............algggqlddllkllddl.....lreekpdlvllaGDlvdrg....................... 47 
                              +i+vi+DlHl             + +    +l+++++       l++ +   ++++GD++d                         
  PHY93_13360|PHY93_13360  12 TIIVISDLHLgaglnvnnrrnfLEDFHYDKELIEFIEYHssgyyLDR-E-VELIINGDFFDLLavpfvkyfddefwsehaaldklk 95 
                              79*******99977777775554344444444444444444444333.4.555559**6666666666666666899999999999 PP

                              ...HHHHHHHHHHHHHHHH.TSEEEEEC-TTSCHHHHHHHHHHHHHHH.HHHHEHHHCEEETSEEEEEETTE.EEEEEEESECEEE CS
              Metallophos  48 ...dlekellellaalvky.pipvylllGNHegfeeellnkygylgif.sepwrsdaevfnnlplaslgsgs.lkvlllhGgspel 127
                                 + +  ++e l+ +++y +++++ +lGNH+      l ++    +      ++d ++f +l   + +  +   ++l hG+++el
  PHY93_13360|PHY93_13360  96 miiEAHIGVMEALKDFLSYpNNHIVYILGNHD----AELVFESLRDYLlELFAEKDRDKFRILLNDDTVYIPeEGIVLKHGHEYEL 177
                              988777778888888888888888********....33333333333324444445677777777775555577999999996666 PP

                              ........THHHHHHHHHHHSCHHHHCC....HHHHHH....HHHHTTCSEEEEEE..SSESS....................... CS
              Metallophos 128 ........lvsldklgslnleleapepg....dewlkd....lekrekadwvivlg..Hsply....................... 172
                                      +  +d  ++  ++ ++         + +k+      + +++   i+ g  + ply                       
  PHY93_13360|PHY93_13360 178 ahqysiktCIATDINHNKYFIPPWGSYYvtrvINKFKEgrdyINAVRPVNKFIINGiiYDPLYtlrfifanfyyfmmvrfvmifkq 263
                              67676665333333333333333333335544333333344322233333333333555555566666666666666666666666 PP

                              ............CSSSCSCCHHHHH.HH.HHHTTESEEEEESSSS CS
              Metallophos 173 ............rgsgylfgdeale.dl.lkkygvdlvisGHtHv 203
                                          + ++   ++e+l  ++   + ++++ i GHtH 
  PHY93_13360|PHY93_13360 264 niklgevldrvkNEIQLFQNYESLTeEFvTGDENIKAFIVGHTHD 308
                              666666665555333333333333234444455577777777775 PP

>> Pox_A21  Poxvirus A21 Protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.7   1.4e-05     0.084       5      55 ..     251     303 ..     248     308 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 1.4e-05
                  Pox_A21   5 FlvlcyFilif..niivpaileklrlekeafekykklkkkvvCvddrlfsyef 55 
                              +++++ F++if  ni + ++l+++++e + f++y++l +++v  d+++  + +
  PHY93_13360|PHY93_13360 251 YFMMVRFVMIFkqNIKLGEVLDRVKNEIQLFQNYESLTEEFVTGDENIKAFIV 303
                              56677899999889****************************99998877755 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (385 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       600  (0.0334653); expected 358.6 (0.02)
Passed bias filter:                      430  (0.0239835); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.60u 0.24s 00:00:00.84 Elapsed: 00:00:00.46
# Mc/sec: 2528.83
//
Query:       PHY93_13365|PHY93_13365  [L=121]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.056   13.5   0.0      0.081   13.0   0.0    1.2  1  UPF0270   Uncharacterised protein family (UPF0270)
       0.08   13.3   0.0        0.1   12.9   0.0    1.2  1  DUF5047   Domain of unknown function (DUF5047)


Domain annotation for each model (and alignments):
>> UPF0270  Uncharacterised protein family (UPF0270)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0     9e-06     0.081       8      52 ..      53      96 ..      48     107 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 9e-06
                             S-HHHHHHHHHHHHH--------.---HHHHHHHHHHHHHTTSEE CS
                  UPF0270  8 LepetLenlieefvlregtDyGeqelsleekveqvkqqLksgeav 52
                             +e+ tL +li ++v+   t+ G + ++ ++k ++v+ +Lk+g+++
  PHY93_13365|PHY93_13365 53 VENKTLVRLIGKIVVNNKTNIGFTSVE-SDKYQRVMVNLKKGDLL 96
                             6789******************97766.789***********975 PP

>> DUF5047  Domain of unknown function (DUF5047)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   1.2e-05       0.1      55     114 ..      11      68 ..       9      84 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 1.2e-05
                  DUF5047  55 lvslGvfrideveqdvpdvGpveltakdleavvvddkltspvqyr.aartavavvaalvle 114
                              l+sl ++ ++ +e  +   G v  +  d+ +vv+ +k+ sp++     +t v  + ++v++
  PHY93_13365|PHY93_13365  11 LLSLSFYSVNAIESSI---GFVVTGYDDRFSVVSPEKFRSPMEVIvENKTLVRLIGKIVVN 68 
                              689***********99...99999999**************87641467778888887765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (121 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       481  (0.026828); expected 358.6 (0.02)
Passed bias filter:                      390  (0.0217525); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 819.11
//
Query:       PHY93_13370|PHY93_13370  [L=186]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.7e-05   23.2   3.4    6.6e-05   22.8   2.7    1.5  1  Peptidase_M48  Peptidase family M48
  ------ inclusion threshold ------
      0.011   15.6   1.4      0.017   15.0   1.4    1.3  1  Peptidase_M78  IrrE N-terminal-like domain
       0.24   11.7   1.5        1.3    9.3   1.0    2.2  2  Osmo_CC        Osmosensory transporter coiled coil


Domain annotation for each model (and alignments):
>> Peptidase_M48  Peptidase family M48
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.8   2.7   1.1e-08   6.6e-05      39      83 ..      89     136 ..      87     164 .. 0.75

  Alignments for each domain:
  == domain 1  score: 22.8 bits;  conditional E-value: 1.1e-08
                              EEESSS-E.EEEEEHHHH-SSB-HHH..HHHHHHHHHHHHHTTHHHHH CS
                              xxxxxxxx.xxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48  39 algggknk.rivltdgLlkqllseee..laaVlGHElGHikhrhsvvs 83 
                              a+g+++n+  i ++ +L++ l+s +     a+l+HElGHi h+h+  +
  PHY93_13370|PHY93_13370  89 AIGRTQNHhLILVFPELIQLLKSASAfhAIAILAHELGHIYHQHTEQK 136
                              67888898899*******55555554225789************9655 PP

>> Peptidase_M78  IrrE N-terminal-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   1.4   2.9e-06     0.017      28      75 ..     103     143 ..      83     161 .. 0.75

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 2.9e-06
            Peptidase_M78  28 tkvivlnsnhsptrqrftlaHElgHlllhherdkfreegdskaqerle 75 
                              ++ i+l ++ s +     laHElgH+ ++h+ +k        ++   +
  PHY93_13370|PHY93_13370 103 PELIQLLKSASAFHAIAILAHELGHIYHQHTEQKI-------DTLTAQ 143
                              577888889999999999**************653.......222222 PP

>> Osmo_CC  Osmosensory transporter coiled coil
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.0       0.2   1.2e+03      24      44 ..      57      77 ..      45      78 .. 0.80
   2 ?    9.3   1.0   0.00022       1.3       8      30 ..     124     146 ..     122     148 .. 0.84

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.2
                             HHHHHHHHHHHHHHHHHH--- CS
                  Osmo_CC 24 ideeIaaLeekRqrLvdqHPk 44
                             i++ +  L  k  ++  +HP 
  PHY93_13370|PHY93_13370 57 IETLLDSLSSKHIQFFTKHPT 77
                             555567788899999999996 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.00022
                              XXXXXXXTHHHHHHHHHHHHHHH CS
                  Osmo_CC   8 elLqehYdnIEqkvedideeIaa 30 
                              el + ++++ Eqk++ + ++I+a
  PHY93_13370|PHY93_13370 124 ELGHIYHQHTEQKIDTLTAQIEA 146
                              555668***************86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (186 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       649  (0.0361983); expected 358.6 (0.02)
Passed bias filter:                      480  (0.0267723); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 1265.00
//
Query:       PHY93_13375|PHY93_13375  [L=427]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
  ------ inclusion threshold ------
      0.033   14.5   0.1      0.083   13.2   0.1    1.7  1  DUF1653      Protein of unknown function (DUF1653)
       0.12   12.1   0.2       0.33   10.6   0.1    1.8  2  Cucumo_coat  Cucumovirus coat protein


Domain annotation for each model (and alignments):
>> DUF1653  Protein of unknown function (DUF1653)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.1   9.3e-06     0.083      25      52 ..      87     115 ..      60     121 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 9.3e-06
                  DUF1653  25 klV.vYkalygdvklwvRpldmFleevev 52 
                               lV vY++l g  ++ +R+l+mFl++v +
  PHY93_13375|PHY93_13375  87 VLVpVYEKLDGCTEWSCRDLKMFLSDVSI 115
                              4444899999***************8876 PP

>> Cucumo_coat  Cucumovirus coat protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.1   3.7e-05      0.33      55     154 ..      73     169 ..      45     180 .. 0.77
   2 ?   -2.6   0.0      0.41   3.7e+03      40      67 ..     340     370 ..     335     380 .. 0.67

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 3.7e-05
                              HHHTTTTSBEEEEEEEEEE-TT--.SEEEEEEEE-CTTTS-SSSHHHHHSTSS--EEEE-BSTTTSS-S.EEEEEGCCCTE..... CS
              Cucumo_coat  55 svvelekklvsriqvivntltksdleqlWltvkklPkvsdllveaisamdGlsnvlvqqrallavdannvklltdlsamraeptlq 140
                               + ++  +l ++ qv v    k d  + W         sd+++  ++     s   v  + + av+a   +ll+ ls         
  PHY93_13375|PHY93_13375  73 ETEKVVVNLYEKLQVLVPVYEKLDGCTEWSCRDLKMFLSDVSIRYVKISPISSALYVELYKAQAVQAGRYGLLMTLSEKAD---KA 155
                              444445578889************9999976655566899999888776777777899*******************9887...55 PP

                              ....BGGGGCCEEE CS
              Cucumo_coat 141 twlkdladlrkyav 154
                              t l ++ ++ k+a 
  PHY93_13375|PHY93_13375 156 TTLAEMDEMIKFAE 169
                              67788888888875 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 0.41
                              -B-TT-EEEE----HHHHT...TTTSBEEEE CS
              Cucumo_coat  40 kldinsknkrlllPdsvve...lekklvsri 67 
                              k++++s++++l++ + + +   +e  lv++ 
  PHY93_13375|PHY93_13375 340 KVKVGSYEMNLVIGKRTDDrsiYEASLVNNN 370
                              7788899999988765543333777777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (427 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       739  (0.0412181); expected 358.6 (0.02)
Passed bias filter:                      494  (0.0275531); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.26s 00:00:00.84 Elapsed: 00:00:00.46
# Mc/sec: 2800.82
//
Query:       PHY93_13380|PHY93_13380  [L=443]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (443 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       251  (0.0139997); expected 358.6 (0.02)
Passed bias filter:                       72  (0.00401584); expected 358.6 (0.02)
Passed Vit filter:                         6  (0.000334653); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.55u 0.22s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 2984.92
//
Query:       PHY93_20440|PHY93_20440  [L=99]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
        2.3    7.8   6.2        2.8    7.5   6.2    1.0  1  RTX              N-terminal domain in RTX protein
        2.8    8.1   9.9        4.5    7.4   9.9    1.4  1  Shadoo           Shadow of prion protein, neuroprotective
        3.8    7.2   6.9        4.9    6.8   6.9    1.1  1  TraT             Enterobacterial TraT complement resistance p


Domain annotation for each model (and alignments):
>> RTX  N-terminal domain in RTX protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   6.2   0.00046       2.8      53     107 ..      13      68 ..       6      71 .. 0.76

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.00046
                      RTX  53 kklgyegdslLaelyrekktieaaltaistvldvvsa.vvsaaaaasgVGaPvall 107
                              +++g +++++L+    +++t+ +a  +i t+++++ a +++++ ++++VGa v ll
  PHY93_20440|PHY93_20440  13 SNFGSASSAFLGGAAFGATTVLTAGSSIVTAVGATLAqAAAGVFTGTVVGAAVNLL 68 
                              68999999999999999888888888888888776551455677899999998876 PP

>> Shadoo  Shadow of prion protein, neuroprotective
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.4   9.9   0.00075       4.5      15      69 ..      16      71 ..      12      96 .. 0.72

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.00075
                   Shadoo 15 gsargglrgg.argasrvrvrpaprysaagsslrvaaagaaagaaagaaaglaags 69
                             gsa     gg a ga+ v    +   +a g++l  aaag  +g+  gaa  l a +
  PHY93_20440|PHY93_20440 16 GSASSAFLGGaAFGATTVLTAGSSIVTAVGATLAQAAAGVFTGTVVGAAVNLLATP 71
                             55555544441568888888888888888888888888888888888888777654 PP

>> TraT  Enterobacterial TraT complement resistance protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.8   6.9   0.00082       4.9      82     132 ..      16      66 ..      10      69 .. 0.76

  Alignments for each domain:
  == domain 1  score: 6.8 bits;  conditional E-value: 0.00082
                     TraT  82 egalkaGfggalagaaagaaigaanggsagaalggglvGglvgaiagalve 132
                               +a +a  gga+ ga++  ++g +    +ga+l+ +++G   g+++ga+v+
  PHY93_20440|PHY93_20440  16 GSASSAFLGGAAFGATTVLTAGSSIVTAVGATLAQAAAGVFTGTVVGAAVN 66 
                              444444446778899999999999889999999999999999999999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (99 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       697  (0.0388756); expected 358.6 (0.02)
Passed bias filter:                      294  (0.016398); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.44u 0.24s 00:00:00.68 Elapsed: 00:00:00.42
# Mc/sec: 701.27
//
Query:       PHY93_20445|PHY93_20445  [L=51]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (51 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       159  (0.00886831); expected 358.6 (0.02)
Passed bias filter:                      147  (0.00819901); expected 358.6 (0.02)
Passed Vit filter:                         5  (0.000278878); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.23s 00:00:00.62 Elapsed: 00:00:00.42
# Mc/sec: 363.56
//
Query:       PHY93_05830|PHY93_05830  [L=324]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.4e-11   42.8   0.0    5.7e-11   42.1   0.0    1.3  1  SLT            Transglycosylase SLT domain
  ------ inclusion threshold ------
      0.032   13.8   1.9      0.057   12.9   1.9    1.5  1  DUF3196        Protein of unknown function (DUF3196)
      0.055   13.4   0.1       0.13   12.1   0.1    1.6  1  PriA_3primeBD  3′ DNA-binding domain (3′BD)


Domain annotation for each model (and alignments):
>> SLT  Transglycosylase SLT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.1   0.0   9.5e-15   5.7e-11      12      78 ..     195     274 ..     186     309 .. 0.88

  Alignments for each domain:
  == domain 1  score: 42.1 bits;  conditional E-value: 9.5e-15
                              S-HHHHHHHHHHHHTT-TT-B-TTS.....EBTTTTBETTTHHHHHHHHT........-SHHHHCSHHHHHHHHHHHHHH CS
                      SLT  12 vepsllaaiaqvESgfnpkAvsksg.....avGLmQimpstakrlglrvk........lsedelldPeknisagakyLks 78 
                              ++p++++a+++ ES+f+p+A ++++     a GLmQi+    krl  + k         s +e++dP+knisag++ L +
  PHY93_05830|PHY93_05830 195 LPPNYVKALIASESMFDPEAENPNKppigmARGLMQITVDSQKRLSGERKelknhfvvISDEEIKDPNKNISAGIRWLFR 274
                              689*******************9999999**********9999998877789999********************98855 PP

>> DUF3196  Protein of unknown function (DUF3196)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   1.9   9.5e-06     0.057      23      85 ..      11      75 ..       1      98 [. 0.74

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 9.5e-06
                             HHHHHHHHHHHTTT....SSHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHTT-TTS-HHHHHHHHH CS
                  DUF3196 23 keliedlsdsekan....dqltkyfldilskvkellkkkdfkkAlelieeEldapylplklvseFee 85
                             k l + +s+ +ka       l+ y + i+ k k+ ++ k+ k     ++ El+apyl+  l++  + 
  PHY93_05830|PHY93_05830 11 KSLEKVFSKDDKAKfffvKGLKDYNETIVVKTKNEIDSKKLKSIKGVLQKELQAPYLE--LLQWLDT 75
                             4444555555554333446789999********************************9..6766655 PP

>> PriA_3primeBD  3′ DNA-binding domain (3′BD)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.1   2.2e-05      0.13      40      79 ..      38      73 ..      31      76 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 2.2e-05
            PriA_3primeBD 40 iVvalkeeseveeeklkpieevldeepllteellelaewl 79
                             iVv++k+e  ++++klk+i+ vl++   l++ +lel++wl
  PHY93_05830|PHY93_05830 38 IVVKTKNE--IDSKKLKSIKGVLQK--ELQAPYLELLQWL 73
                             66666655..55***********95..69999*******8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (324 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1027  (0.0572815); expected 358.6 (0.02)
Passed bias filter:                      572  (0.0319036); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.62u 0.24s 00:00:00.86 Elapsed: 00:00:00.47
# Mc/sec: 2074.68
//
Query:       PHY93_20450|PHY93_20450  [L=204]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0019   18.5   0.3     0.0038   17.5   0.3    1.5  1  Phage_int_SAM_5  Phage integrase SAM-like domain
     0.0093   16.2   0.0       0.02   15.2   0.0    1.6  1  Phage_int_SAM_1  Phage integrase, N-terminal SAM-like domain
  ------ inclusion threshold ------
      0.049   13.7   0.1       0.11   12.6   0.1    1.5  1  EFP_N            Elongation factor P (EF-P) KOW-like domain
       0.08   13.2   0.0       0.22   11.8   0.0    1.7  1  Phage_int_SAM_3  Phage integrase, N-terminal SAM-like domain
       0.32   10.8   2.9       0.21   11.4   0.9    1.7  2  Arm-DNA-bind_4   Arm DNA-binding domain


Domain annotation for each model (and alignments):
>> Phage_int_SAM_5  Phage integrase SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.3     1e-06    0.0038      23      95 ..      79     152 ..      60     159 .. 0.85

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 1e-06
                              HHHHHHHHHTTTS-..S---TTT--HHHHHHHHHHH...HHTS---HHHHHHHHHHHHHHHHHHHHTTS--S-HHH CS
          Phage_int_SAM_5  23 rnykstlkhlkkFlkkkditfeeidkefleeFedYL...kkkkglsentiskyfkklkavlnkAikegilkknpyp 95 
                              +n++  ++h+k F+  + + + ++++   ++ ++++   k++  lse t ++  +++  ++++ ++e++l+ np++
  PHY93_20450|PHY93_20450  79 SNVRGRKNHFKSFI--DTFGVYKVTELTQTDLRKWIlntKDQLDLSEKTLNSICSQFFGFFQYLMEENYLTVNPVK 152
                              6889999*******..778888888888888888888768788*******************************65 PP

>> Phage_int_SAM_1  Phage integrase, N-terminal SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0   5.6e-06      0.02      29      83 ..      88     143 ..      80     144 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 5.6e-06
                              HHHHHHH.TS--TTT--HHHHHHHHHS-----.-----HHHHHHHHHHHHHHHHHT CS
          Phage_int_SAM_1  29 flkflaergkesleqlttedvraflaeleeeg.lsatslarrlsalrsFfqflvre 83 
                              f  f ++ g  ++++lt+ d+r+++  ++++  ls+++l+   s   +Ffq+l++e
  PHY93_20450|PHY93_20450  88 FKSFIDTFGVYKVTELTQTDLRKWILNTKDQLdLSEKTLNSICSQFFGFFQYLMEE 143
                              555555556688999*******99888888557*********************98 PP

>> EFP_N  Elongation factor P (EF-P) KOW-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.1   2.9e-05      0.11      30      54 ..      13      37 ..       6      39 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 2.9e-05
                             TS--EEEEEEEETTTS-EEEEEEET CS
                    EFP_N 30 kGqafvrvklknlrtGakvektfka 54
                             +G+ f ++k+++ +tG+ + k+f +
  PHY93_20450|PHY93_20450 13 MGTGFFQCKFRDPKTGSRIRKRFDS 37
                             7999*******************76 PP

>> Phage_int_SAM_3  Phage integrase, N-terminal SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   6.2e-05      0.22      25      54 ..      84     112 ..      79     114 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 6.2e-05
                              HHHHHTTTHHHHTTSSBGGG--HHHHHHHH CS
          Phage_int_SAM_3  25 yksiiknhIlPyFgniklkkItpadiqkfq 54 
                              +k+++k+  +  Fg +k++++t+ d++k++
  PHY93_20450|PHY93_20450  84 RKNHFKS-FIDTFGVYKVTELTQTDLRKWI 112
                              6888995.99*******************7 PP

>> Arm-DNA-bind_4  Arm DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.6   0.0       2.9     1e+04      34      43 ..       3      12 ..       3      12 .. 0.77
   2 ?   11.4   0.9   5.7e-05      0.21       3      33 ..      19      44 ..      17      56 .. 0.79

  Alignments for each domain:
  == domain 1  score: -3.6 bits;  conditional E-value: 2.9
           Arm-DNA-bind_4 34 eaeflkkink 43
                             +++f++ki+k
  PHY93_20450|PHY93_20450  3 LNQFEVKIHK 12
                             5789999875 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 5.7e-05
           Arm-DNA-bind_4  3 yvrvygykdktGkrKqktkrGFktKkEAeka 33
                             ++++   ++ktG+r++  kr F + kEA++ 
  PHY93_20450|PHY93_20450 19 QCKF--RDPKTGSRIR--KR-FDSLKEAKNF 44
                             5666..69********..66.*******986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (204 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       777  (0.0433376); expected 358.6 (0.02)
Passed bias filter:                      543  (0.0302861); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1359.49
//
Query:       PHY93_20455|PHY93_20455  [L=129]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-08   34.9   0.1    1.7e-08   34.4   0.1    1.2  1  Phage_integrase  Phage integrase family
     0.0085   16.2   0.0      0.018   15.2   0.0    1.5  2  Integrase_1      Integrase


Domain annotation for each model (and alignments):
>> Phage_integrase  Phage integrase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.4   0.1   1.9e-12   1.7e-08      49     170 ..       2     119 ..       1     121 [. 0.81

  Alignments for each domain:
  == domain 1  score: 34.4 bits;  conditional E-value: 1.9e-12
                              ECTTTEEEEEEEECSSSSEEEEECTHHHHHHHHHHHHHHCHCCTTTSBSSBETTSSB--HH.HHHHHHHHHHHHCT-S.SC--TTH CS
          Phage_integrase  49 dlengvilvheregKgskeravplseealellkellskaleeaeksellfaskrgkplsrq.tvrkafkraveeagie.kpltpHt 132
                              d+e g i+   +++K+++er v +s  + ++l+e  + +    ++ +l ++  +gk+l++  ++ + +++ +e    +  ++ +H+
  PHY93_20455|PHY93_20455   2 DFETGLIHF--TKTKNGRERFVRISPILDSVLREHFASH----NYAHL-LVGIEGKRLNSHgELVRLMNKFREFFPMNkADWGSHS 80 
                              666666666..9*************99999****99999....55554.45555777776526777777777775555569***** PP

                              HHHHHHHHHHHHCTSHHHHHHHHT-SSCCHH.HHHHCCC CS
          Phage_integrase 133 lRhsfataLleagvdlrvvqkllGHssistt.qiYthva 170
                              lRhsfa + l++   +  +q +lGH+si  t   Y +++
  PHY93_20455|PHY93_20455  81 LRHSFAYNSLKKSGRMYQLQAILGHRSIDVTvDLYGQLQ 119
                              *****************************9988997765 PP

>> Integrase_1  Integrase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0     2e-06     0.018      77     147 ..      13      86 ..       7      88 .. 0.75
   2 ?   -2.9   0.0      0.71   6.4e+03      36      47 ..      96     107 ..      94     112 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 2e-06
              Integrase_1  77 TKGgrpRevtile......realksavalaikvaeernGkLidkpdlslipdryreilrrlgltgessphslRyaya 147
                              TK+gr+R v+i+       re  +  +++a  ++  ++ +L  +++l   ++ +re       ++    hslR+++a
  PHY93_20455|PHY93_20455  13 TKNGRERFVRISPildsvlREHFA-SHNYAHLLVGIEGKRLNSHGELVRLMNKFREFFPM--NKADWGSHSLRHSFA 86 
                              9**********9987444333333.35666544444555566678999********9887..68999********99 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 0.71
              Integrase_1  36 vlqLarvlGLRs 47 
                              + qL++ lG Rs
  PHY93_20455|PHY93_20455  96 MYQLQAILGHRS 107
                              568999999886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (129 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       351  (0.0195772); expected 358.6 (0.02)
Passed bias filter:                      336  (0.0187406); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.20s 00:00:00.65 Elapsed: 00:00:00.41
# Mc/sec: 934.41
//
Query:       PHY93_20460|PHY93_20460  [L=100]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.064   13.4   1.4       0.25   11.5   1.2    1.9  1  TetR_C_8  Transcriptional regulator C-terminal region


Domain annotation for each model (and alignments):
>> TetR_C_8  Transcriptional regulator C-terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   1.2   1.4e-05      0.25      19      66 ..       3      50 ..       1      88 [. 0.77

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 1.4e-05
                             HHHHHHHHH-.THHHHHHHHHHHHHHHHHHHHHH-TT--S-HHHHHHH CS
                 TetR_C_8 19 dfyknllssngresfekylkelikelilkvieelsegkelseedkefi 66
                             +f  n++ s++++ + +y++ l+k+ i++++++ se +e+++++ e +
  PHY93_20460|PHY93_20460  3 EFKVNIYPSEDKNFLSSYIHPLTKRKIRQNFSSSSEAQEFKKATEERF 50
                             67789*****************************99998888555544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (100 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1291  (0.0720062); expected 358.6 (0.02)
Passed bias filter:                      699  (0.0389871); expected 358.6 (0.02)
Passed Vit filter:                        59  (0.00329076); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.43
# Mc/sec: 703.32
//
Query:       PHY93_20465|PHY93_20465  [L=214]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-21   77.4   0.0    1.4e-21   77.0   0.0    1.1  1  Phage_integrase  Phage integrase family
  ------ inclusion threshold ------
      0.028   14.5   0.3        1.3    9.1   0.4    2.3  2  DUF2089          Protein of unknown function (DUF2089)


Domain annotation for each model (and alignments):
>> Phage_integrase  Phage integrase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.0   0.0   1.6e-25   1.4e-21       3     166 ..      44     199 ..      42     203 .. 0.91

  Alignments for each domain:
  == domain 1  score: 77.0 bits;  conditional E-value: 1.6e-25
                              HHHHHHHHHHHCCGCHHHHHHHHHHHHHHHHT--HHHHTT-BGGGEECTTTEEEEEEEECSSSSE.EEEECTHHHHHHHHHHHHHH CS
          Phage_integrase   3 ltedeverllaaleeslkirdklllellyetGlRisEllsLrvkdldlengvilvheregKgske.ravplseealellkellska 87 
                              lte+e+e+ll+ ++  ++ + + ++++  etG+ +sE+++L++++++l++g+i+    +gK +++ r++ +s+e++++l +     
  PHY93_20465|PHY93_20465  44 LTEKEIEKLLEDIKAFSPGYLYPIIKMFTETGAKTSEVIELTWDEVNLNDGIIHF---KGKIKTQeRTLKISNELVKSLSMKKR-- 124
                              9**************9999999*********************************...55555444************986443.. PP

                              CHCCTTTSBSSBETTSSB--HHHHHHHHHHHHHHCT-SSC--TTHHHHHHHHHHHHHCTSHHHHHHHHT-SSCCHH.HHH CS
          Phage_integrase  88 leeaeksellfaskrgkplsrqtvrkafkraveeagiekpltpHtlRhsfataLleagvdlrvvqkllGHssistt.qiY 166
                                    s+l+f    ++  ++ ++ +a+++++++ + + ++ p +lRhsfa ++l +g d++++qk+lGH ++  t + Y
  PHY93_20465|PHY93_20465 125 -----MSNLVFQTYYKENFTNVKLTRAINEYKKKGNNKGEWCPMDLRHSFAVNYLANGGDMKELQKILGHNNVFDTkRLY 199
                              .....4699*************************9999***********************************9995656 PP

>> DUF2089  Protein of unknown function (DUF2089)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   0.4   0.00015       1.3      28      81 ..      78     132 ..      68     157 .. 0.76
   2 ?    3.1   0.0      0.01        91      39      60 ..     167     188 ..     160     201 .. 0.90

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.00015
                  DUF2089  28 lsefarLskeqlefvelfikarGnlkevekelgisYpTvrn.rldeileaLgyee 81 
                              +se+ +L+ ++ ++    i+ +G++k  e++l+is   v++  +++ +++L +++
  PHY93_20465|PHY93_20465  78 TSEVIELTWDEVNLNDGIIHFKGKIKTQERTLKISNELVKSlSMKKRMSNLVFQT 132
                              67788999999999999******************99887633555555554444 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.01
                  DUF2089  39 lefvelfikarGnlkevekelg 60 
                              ++f   ++ + G +ke++k lg
  PHY93_20465|PHY93_20465 167 HSFAVNYLANGGDMKELQKILG 188
                              579999*************998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (214 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       744  (0.041497); expected 358.6 (0.02)
Passed bias filter:                      411  (0.0229238); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.44
# Mc/sec: 1445.57
//
Query:       PHY93_20470|PHY93_20470  [L=161]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0056   16.9   1.3      0.011   16.0   1.3    1.5  1  DUF1269          Protein of unknown function (DUF1269)
  ------ inclusion threshold ------
      0.024   14.5   3.8      0.024   14.5   3.8    2.3  2  Rick_17kDa_Anti  Glycine zipper 2TM domain
       0.11   12.6   0.3       0.29   11.3   0.3    1.7  1  DUF4235          Protein of unknown function (DUF4235)
        1.1    9.4  28.4        1.3    9.0  26.1    2.0  2  Gly-zipper_Omp   Glycine zipper
        1.4    8.6   7.0        2.2    7.9   7.0    1.3  1  TraT             Enterobacterial TraT complement resistance p
        4.9    7.6  14.3        3.3    8.1   3.0    2.5  2  Romo1            Reactive mitochondrial oxygen species modula


Domain annotation for each model (and alignments):
>> DUF1269  Protein of unknown function (DUF1269)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   1.3   3.6e-06     0.011       3      43 ..      74     113 ..      72     134 .. 0.82

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 3.6e-06
                  DUF1269   3 sGalwGllvGllflnPllGaavGAaaGAlvgalsdvgiddd 43 
                               G+l+G+ +G ++ +P+ G++ GA  GA+ g+++ +  +++
  PHY93_20470|PHY93_20470  74 IGSLVGGSIGSIA-GPVGGIVGGAVGGAIGGTFDSTMANNN 113
                              599********98.**999************9997766655 PP

>> Rick_17kDa_Anti  Glycine zipper 2TM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.0  10.5    0.0076        23       7      38 ..      56      87 ..      54      88 .. 0.78
   2 ?   14.5   3.8   7.9e-06     0.024       1      17 [.      89     105 ..      89     116 .. 0.74

  Alignments for each domain:
  == domain 1  score: 5.0 bits;  conditional E-value: 0.0076
          Rick_17kDa_Anti  7 AaaGgvaGaaigggggrvlGavvGAaaGavaG 38
                             +a+G v  ++ ggg+g ++G +vG+ +G++aG
  PHY93_20470|PHY93_20470 56 GAVGSVWTGLSGGGNGNIIGSLVGGSIGSIAG 87
                             45666666666778999999999999999998 PP

  == domain 2  score: 14.5 bits;  conditional E-value: 7.9e-06
          Rick_17kDa_Anti   1 vGaliGAaaGgvaGaai 17 
                              vG+++G+a+Gg++G+ +
  PHY93_20470|PHY93_20470  89 VGGIVGGAVGGAIGGTF 105
                              58888888888888877 PP

>> DUF4235  Protein of unknown function (DUF4235)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.3   9.6e-05      0.29       2      59 ..      84     145 ..      83     148 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 9.6e-05
                  DUF4235   2 kllglvlglvaGavagkafaavWkkvtge...daP.kdpkdedvslrevllfAaisGavlav 59 
                              +++g+v g+v+Gav+g++  +    ++++    +P  + + +++ +++   +A + G v +v
  PHY93_20470|PHY93_20470  84 SIAGPVGGIVGGAVGGAIGGTFDSTMANNndtIPPqSNLTPSQQDVVDNFNWAMVNGNVSTV 145
                              689*************98887777777767433458888999999**********9988765 PP

>> Gly-zipper_Omp  Glycine zipper
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8  10.9    0.0046        14       4      35 ..      57      87 ..      54      89 .. 0.85
   2 ?    9.0  26.1   0.00045       1.3       2      42 ..      71     109 ..      64     113 .. 0.76

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.0046
           Gly-zipper_Omp  4 aiGAaaGaliGgavggrgtGaliGAavGaavG 35
                             a+G++  +l Gg +g+  +G+l+G+ +G ++G
  PHY93_20470|PHY93_20470 57 AVGSVWTGLSGGGNGN-IIGSLVGGSIGSIAG 87
                             6788888888999998.899999999999998 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.00045
           Gly-zipper_Omp   2 GaaiGAaaGaliGgavggrgtGaliGAavGaavGgliGaam 42 
                              G +iG+++G+ iG+++g+  +G ++G+avG+a+Gg     m
  PHY93_20470|PHY93_20470  71 GNIIGSLVGGSIGSIAGP--VGGIVGGAVGGAIGGTFDSTM 109
                              667888888888888887..788888888888888666555 PP

>> TraT  Enterobacterial TraT complement resistance protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9   7.0   0.00072       2.2      87     132 ..      63     106 ..      48     113 .. 0.63

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.00072
                     TraT  87 aGfggalagaaagaaigaanggsagaalg..gglvGglvgaiagalve 132
                              +G    l+g++ g+ ig + ggs g+++g  gg+vGg+vg+++g   +
  PHY93_20470|PHY93_20470  63 TG----LSGGGNGNIIGSLVGGSIGSIAGpvGGIVGGAVGGAIGGTFD 106
                              34....556666666666666666665543377888888887776554 PP

>> Romo1  Reactive mitochondrial oxygen species modulator 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   5.7     0.024        73       9      27 ..      71      89 ..      60      92 .. 0.86
   2 ?    8.1   3.0    0.0011       3.3       9      30 ..      90     111 ..      88     131 .. 0.77

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.024
                    Romo1  9 GalmGaaVGlaiGllfGtf 27
                             G ++G++VG++iG + G +
  PHY93_20470|PHY93_20470 71 GNIIGSLVGGSIGSIAGPV 89
                             8899**********99965 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.0011
                    Romo1   9 GalmGaaVGlaiGllfGtfsal 30 
                              G ++G+aVG+aiG  f +++a 
  PHY93_20470|PHY93_20470  90 GGIVGGAVGGAIGGTFDSTMAN 111
                              8899999999999888777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (161 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       443  (0.0247086); expected 358.6 (0.02)
Passed bias filter:                      306  (0.0170673); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.52u 0.26s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 1067.44
//
Query:       PHY93_20475|PHY93_20475  [L=136]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (136 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       267  (0.0148921); expected 358.6 (0.02)
Passed bias filter:                      223  (0.0124379); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 946.84
//
Query:       PHY93_20480|PHY93_20480  [L=61]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (61 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       106  (0.00591221); expected 358.6 (0.02)
Passed bias filter:                       83  (0.00462937); expected 358.6 (0.02)
Passed Vit filter:                         4  (0.000223102); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.43
# Mc/sec: 428.26
//
Query:       PHY93_13385|PHY93_13385  [L=368]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (368 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       357  (0.0199119); expected 358.6 (0.02)
Passed bias filter:                      176  (0.0098165); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.44
# Mc/sec: 2500.09
//
Query:       PHY93_13390|PHY93_13390  [L=201]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.4e-56  191.0   0.1    1.6e-56  190.8   0.1    1.0  1  Bac_transf  Bacterial sugar transferase


Domain annotation for each model (and alignments):
>> Bac_transf  Bacterial sugar transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  190.8   0.1     9e-61   1.6e-56       1     183 [.       5     198 ..       5     199 .. 0.90

  Alignments for each domain:
  == domain 1  score: 190.8 bits;  conditional E-value: 9e-61
               Bac_transf   1 KrlfDivlsllalillsplllvialliklessggpvffkqkRvGkngkpFkiyKFRsmvkdaekklgavvklkndpritkvGrflR 86 
                              Kr+fDi++sl++li+lspl+l+ial+ikl+s+ gp+ff+q+RvG+ + pF i+KFR+m  daekk g ++++  d+rit+ G++lR
  PHY93_13390|PHY93_13390   5 KRIFDIIFSLIGLIILSPLFLLIALWIKLDSK-GPIFFRQNRVGRSELPFFIHKFRTMSLDAEKK-GLQITVGMDSRITNSGHILR 88 
                              9****************************965.5*****************************97.9******************* PP

               Bac_transf  87 ktslDELPqlinVLkGdMslVGpRPelpeeveeeieeyeee.e.erlkvkPGltGlaqvnsgrse................lslee 154
                              k+++DE+Pqli+VL G+Ms+VGpRPe+p++v e++    +  + + +k++PG+t +a+v+ ++ e                + l+ 
  PHY93_13390|PHY93_13390  89 KYKIDEFPQLIDVLLGNMSIVGPRPEVPRYV-EKY---PAPqRlKIFKMRPGITDWASVKFKD-EnailakstdpertyveEILPI 169
                              *****************************64.333...33323377*************6444.44799999****9888878888 PP

               Bac_transf 155 klelDleYvenlslllDlkillktvkavl 183
                              kl++   Y ++ sl++Dlki++ tv  ++
  PHY93_13390|PHY93_13390 170 KLSYYESYFDQSSLTVDLKIIYLTVGEIF 198
                              88899999999*************98775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (201 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       401  (0.022366); expected 358.6 (0.02)
Passed bias filter:                      341  (0.0190195); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.43
# Mc/sec: 1395.86
//
Query:       PHY93_13395|PHY93_13395  [L=617]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   3.9e-119  397.2   0.1   5.7e-119  396.6   0.1    1.2  1  Polysacc_synt_2  Polysaccharide biosynthesis protein
    3.2e-13   49.7   0.1    1.2e-11   44.5   0.2    2.7  2  Epimerase        NAD dependent epimerase/dehydratase family
    2.2e-08   33.5   0.0    3.3e-07   29.7   0.0    2.3  1  RmlD_sub_bind    RmlD substrate binding domain
    1.7e-07   30.9   0.1    2.7e-07   30.3   0.1    1.3  1  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
    2.1e-06   27.9   0.4    2.1e-06   27.9   0.4    1.8  2  CoA_binding_3    CoA-binding domain
    4.6e-05   22.6   0.3    9.7e-05   21.5   0.1    1.7  2  3Beta_HSD        3-beta hydroxysteroid dehydrogenase/isomeras
    7.4e-05   23.6   0.0    0.00018   22.3   0.0    1.6  1  GFO_IDH_MocA     Oxidoreductase family, NAD-binding Rossmann 
    0.00012   21.5   0.0    0.00032   20.2   0.0    1.7  1  adh_short        short chain dehydrogenase
     0.0063   17.1   0.0       0.02   15.5   0.0    1.8  1  PglD_N           PglD N-terminal domain
     0.0084   16.0   0.0      0.035   14.0   0.0    2.0  2  KR               KR domain
  ------ inclusion threshold ------
      0.013   15.7   0.0        2.6    8.2   0.0    2.7  2  DapB_N           Dihydrodipicolinate reductase, N-terminus
      0.019   14.8   0.0       0.19   11.6   0.0    2.2  2  NAD_binding_10   NAD(P)H-binding
      0.038   14.2   0.0        4.5    7.5   0.0    2.6  2  TrkA_N           TrkA-N domain
      0.041   13.1   0.0        3.8    6.6   0.0    2.2  2  Pyr_redox_2      Pyridine nucleotide-disulphide oxidoreductas
      0.082   12.4   0.0       0.15   11.6   0.0    1.5  1  DUF4147          Domain of unknown function (DUF4147)
      0.085   12.9   0.0         20    5.3   0.0    2.5  2  Ldh_1_N          lactate/malate dehydrogenase, NAD binding do


Domain annotation for each model (and alignments):
>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  396.6   0.1  5.1e-122  5.7e-119       1     293 [.     285     575 ..     285     576 .. 0.97

  Alignments for each domain:
  == domain 1  score: 396.6 bits;  conditional E-value: 5.1e-122
                              EEEETTTSHHHHHHHHHHHHHB-SEEEEEES-HHHHHHHHHH......-TTEEEE....E--TT-HHHHHHHTT..T-SEEEE--- CS
          Polysacc_synt_2   1 vlvtGagGsiGselvrqilkkkpkkiillerdElklyeiekeleeelkkkklkveivpvigdvrdkerlekaleelkvdvvfhaAA 86 
                              ++vtGagGsiGsel+rq+++ +p+k+il+e +E++ly+ieke+++ + +  l  ++++ + dv  +e+++ +l+e++v++++haAA
  PHY93_13395|PHY93_13395 285 ICVTGAGGSIGSELCRQVINLNPSKLILIELNEFALYQIEKEITQLAPH--L--KVLSYLLDVSLQEKMTYILKEHQVKTIYHAAA 366
                              79****************************************9776666..4..55689*************************** PP

                              ---HHHHHHSHHHHHHHHHHHHHHHHHHHHHTT-SEEEEEEEGGGSS--SHHHHHHHHHHHHHHHGGG--SSS--EEEEEEE-EET CS
          Polysacc_synt_2  87 lKhVPlveenpleaiktNvlgtenvieaaieagvkkvvliStDKAvnPtnvmGatKrlaekllqalakeseekktkfvvvRfGNVl 172
                              +KhVPlve+n++++i +N +gt++++ aai+agv++++liStDKAv+PtnvmGa+Krlae++lqala ++ +++  f++vRfGNVl
  PHY93_13395|PHY93_13395 367 YKHVPLVEMNAVSGILNNSIGTKSTALAAINAGVDHFILISTDKAVRPTNVMGASKRLAELVLQALACKH-KSNIIFSMVRFGNVL 451
                              ********************************************************************99.889************ PP

                              TGTTSSHHHHHHHHHTTSSEEES-TT-EEEEE-HHHHHHHHHHHHHH--SS-EEEE--.-EEEHHHHHHHH..............S CS
          Polysacc_synt_2 173 gSrGSviplFkkqikeggpvtvTdpemtRyfmtieeavqLvlqalalakggeifvldmGepvkivdlakalielsgleekk....e 254
                              gS+GSv+plF++qik+ggp+tvT+p+++Ryfmti+ea+ Lv+qa+++a+gge+fvldmGep+kivdla+++i+lsgle ++     
  PHY93_13395|PHY93_13395 452 GSSGSVVPLFREQIKRGGPITVTHPDIIRYFMTIPEASLLVIQAGSMATGGEVFVLDMGEPIKIVDLARRMIKLSGLEIREpgipL 537
                              ********************************************************************************999999 PP

                              SSS-EEE----TT--SS-EEE-GGGGGGEEE-SSEEEE- CS
          Polysacc_synt_2 255 edieikitGlRpGEklyEeLlieeesveetelekilrak 293
                              +diei++tGlRpGEklyEeLli +es+++t++  i++a+
  PHY93_13395|PHY93_13395 538 GDIEIQFTGLRPGEKLYEELLI-GESATKTDHLGIMMAN 575
                              9*********************.9999999999999875 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.0      0.37   4.1e+02       6      78 ..     152     218 ..     149     239 .. 0.79
   2 !   44.5   0.2   1.1e-14   1.2e-11       1     203 [.     285     474 ..     285     496 .. 0.87

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.37
                              TTSHHHHHHHHHHHHCT.SE.EEEEES-STTTTCHHCHHCEEEE--TT-HHHHHHHHHHHT-SEEEE--S---HH CS
                Epimerase   6 atGfiGsalvkallekg.ye.vigldrlssasntarledlelveldltdrsalerlfkeeqpdavihlAavggva 78 
                              ++G  G+++++all+   y+ v+ ld   +++++      + + l +  +s+l+ l+ ++ +d+++ +    +va
  PHY93_13395|PHY93_13395 152 GAGRAGTQMAQALLNSReYTpVLFLDDSIESQRS------SPHGLRVFSPSNLDVLIPKKSIDEILVA--LPSVA 218
                              4689999****9999888999****999555554......3568888888888888888888888776..44444 PP

  == domain 2  score: 44.5 bits;  conditional E-value: 1.1e-14
                              EEEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHC..........EEEE--TT-HHHHHHHHHHHT-SEEEE--S--- CS
                Epimerase   1 ilVtGatGfiGsalvkallekgyevigldrlssasntarledl..........elveldltdrsalerlfkeeqpdavihlAavgg 76 
                              i+VtGa G iGs l++++ + +   + l  l+ +++  ++e+             + ld+  +++++ ++ke+q+ +++h+Aa+++
  PHY93_13395|PHY93_13395 285 ICVTGAGGSIGSELCRQVINLNPSKLILIELN-EFALYQIEKEitqlaphlkvLSYLLDVSLQEKMTYILKEHQVKTIYHAAAYKH 369
                              89********************7766666663.44444444445899**998877789999999********************** PP

                              HHHHHHSHHHHHHHHTHHHHHHHHHHHHHTCTEEEEEEEGGGGTSCSSSSBSTCSTTS----SSHHHHHHHHHHHHHHHHHHHHT- CS
                Epimerase  77 vaassedpadfieknlqgtlnlleaarkagvkrllflsSsevYGkdaeqpkeettltgplkpnspYaaaKlageklveayaaqygl 162
                              v+    ++   i +n +gt   + aa  agv+ ++ +s++      +            ++p++  +a+K+++e +++a+a +++ 
  PHY93_13395|PHY93_13395 370 VPLVEMNAVSGILNNSIGTKSTALAAINAGVDHFILISTD------K-----------AVRPTNVMGASKRLAELVLQALACKHKS 438
                              ***************************************2......2...........24789999*************9999965 PP

                              EEE..EEEESEEESTTS-TTSTTSHHHHHHHHHHTTSSSEEEE CS
                Epimerase 163 nai..ilrlfnlyGprngegevsrvipalirkilegkqevtll 203
                              n+i   +r  n+ G         +v+p + ++i++g  ++t+ 
  PHY93_13395|PHY93_13395 439 NIIfsMVRFGNVLGSS------GSVVPLFREQIKRGG-PITVT 474
                              5552279999****99......9*************9.99886 PP

>> RmlD_sub_bind  RmlD substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.7   0.0   2.9e-10   3.3e-07       3     133 ..     285     426 ..     283     477 .. 0.80

  Alignments for each domain:
  == domain 1  score: 29.7 bits;  conditional E-value: 2.9e-10
                              EEEESTTSHHHHHHHHHCTTTSEE.EEEE-TT.......................T--TTSHHHHHHHHHHH--SEEEE------H CS
            RmlD_sub_bind   3 ilvtGanGqlGseLakqlaeegle.vlaltre.......................eldltdaeavaellkeakpdvvvnaAAytav 64 
                              i vtGa+G +GseL +q+ + + + ++ ++ +                        ld++ +e+++ +lke++ + +++aAAy+ v
  PHY93_13395|PHY93_13395 285 ICVTGAGGSIGSELCRQVINLNPSkLILIELNefalyqiekeitqlaphlkvlsyLLDVSLQEKMTYILKEHQVKTIYHAAAYKHV 370
                              789*************98875543033344446799999***************99****************************** PP

                              HHHHHSHHHHHHHHTHHHHHHHHHHHHCT-.EEEEEEEGGGS-S-TTS-B-TTS----SSHHHHHHHHHH CS
            RmlD_sub_bind  65 DkaEseeeaayavnaeavealAeaaaavga.lLihvStDyVFdGekkrpYeeddetsPlnvYGrtKlaGE 133
                                +E +  +    n+ +++  A aa ++g+ ++i +StD               ++ P nv G++K + E
  PHY93_13395|PHY93_13395 371 PLVEMNAVSGILNNSIGTKSTALAAINAGVdHFILISTDK--------------AVRPTNVMGASKRLAE 426
                              *****************************9679*****94..............3455555555555555 PP

>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.3   0.1   2.4e-10   2.7e-07       2     130 ..     287     409 ..     286     439 .. 0.87

  Alignments for each domain:
  == domain 1  score: 30.3 bits;  conditional E-value: 2.4e-10
                              EETTTSHHHHHHHHHHHHCT-CCEEEEEEESS-TTHHHHHCTTT...TTGCCEEEEE--TT-HHHHHHHHHHHT-SEEEE--S--- CS
            GDP_Man_Dehyd   2 iTGiaGfiGsylaelLlekgyevhgivrrsssfntgriehlakdpkeeleenlklhkgDltDssslerllaevqpdevynLAAqsh 87 
                              +TG  G iGs l+++ ++ +    ++++++ +f++ +ie+  ++   +l  ++  +  D++ +++++ +l+e+q++++y+ AA +h
  PHY93_13395|PHY93_13395 287 VTGAGGSIGSELCRQVINLNPSKLILIELN-EFALYQIEKEITQLAPHL--KVLSYLLDVSLQEKMTYILKEHQVKTIYHAAAYKH 369
                              9******************99999888775.678888887665444444..4555667888899********************** PP

                              HHHHTTSHHHHHHHHTHHHHHHHHHHHHCT..TTSEEEEEEEG CS
            GDP_Man_Dehyd  88 VdvsfekPeytaevnvlGtlrLLeairalglekkvrfyqaSts 130
                              V+    ++   + +n +Gt     a+ ++g++   +f+ +St+
  PHY93_13395|PHY93_13395 370 VPLVEMNAVSGILNNSIGTKSTALAAINAGVD---HFILISTD 409
                              *******************8876666677886...79999998 PP

>> CoA_binding_3  CoA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.3       1.3   1.4e+03      41      74 ..      44      77 ..      10      80 .. 0.66
   2 !   27.9   0.4   1.9e-09   2.1e-06       4     175 .]      68     240 ..      66     240 .. 0.80

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 1.3
            CoA_binding_3 41 dafSRlwlaywavvglvllivsrllvravlrrlr 74
                              ++S +w + +++  l++ i+ r+ +++++ r++
  PHY93_13395|PHY93_13395 44 PDMSEYWWLFFFIPVLTIPIFIRIGLYRAVIRYM 77
                             4689999999999999999999999988777775 PP

  == domain 2  score: 27.9 bits;  conditional E-value: 1.9e-09
            CoA_binding_3   4 GvYqswrgrsllrlllrvlsawllvllllallsfslk.dafSRlwlaywavvglvllivsrllvravlrrlrrn..grne.rrvva 85 
                              G+Y+  +     rll+ ++ + ++  ll+++l+++ + +++ R+ la++ v   v + ++rl++r +l ++  +  ++ + ++ +a
  PHY93_13395|PHY93_13395  68 GLYRAVIRYMDVRLLWTIFYGTTIGTLLITALVAIARiNSLPRSSLAIFWVFASVYVGATRLIARGFLHGVELRidKKKRvAIYGA 153
                              6676666666678999999999999999999999988688*******999999999999******999775444113333133448 PP

            CoA_binding_3  86 vgggeelakqiranpelgfrvvgvfddrddarseevagvpvlgnladlveyvretrvdevylaLplsaearilrlvkelrddpvni 171
                              +  g+++a+++ ++    + +v + dd+ +++ +   g+ v+    +l  ++ ++++de+++aLp  a ++ +++++ lr+  + i
  PHY93_13395|PHY93_13395 154 GRAGTQMAQALLNS--REYTPVLFLDDSIESQRSSPHGLRVFS-PSNLDVLIPKKSIDEILVALPSVARSKQKEIIEGLRKYDIVI 236
                              88888888888874..45679*******877766558999995.677888999**************************9998888 PP

            CoA_binding_3 172 rliP 175
                              ++ P
  PHY93_13395|PHY93_13395 237 KILP 240
                              8776 PP

>> 3Beta_HSD  3-beta hydroxysteroid dehydrogenase/isomerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.9   0.0       4.6   5.2e+03      60      93 ..     225     260 ..     221     264 .. 0.58
   2 !   21.5   0.1   8.7e-08   9.7e-05       2     122 ..     287     414 ..     286     437 .. 0.76

  Alignments for each domain:
  == domain 1  score: -3.9 bits;  conditional E-value: 4.6
                3Beta_HSD  60 leealegvdvvihl.aslvdvag.kltedeimkvnv 93 
                              + e l++ d+vi +  ++ dv + k++++ + +v +
  PHY93_13395|PHY93_13395 225 IIEGLRKYDIVIKIlPAVADVVSgKVRFEDVREVQI 260
                              555666667776652344444433777777777765 PP

  == domain 2  score: 21.5 bits;  conditional E-value: 8.7e-08
                3Beta_HSD   2 vtGgaGFlGralvkeLvrleelkevrvlD......lrespelleelskvnvkkviegDvtdkdkleealegvdv..vihlaslvdv 79 
                              vtG++G +G++l++++++l++ k +  +        ++++e+ + + +++v +    Dv  ++k++  l++ +v  + h a++  v
  PHY93_13395|PHY93_13395 287 VTGAGGSIGSELCRQVINLNPSKLI-LIElnefalYQIEKEITQLAPHLKVLS-YLLDVSLQEKMTYILKEHQVktIYHAAAYKHV 370
                              9*******************84433.333234445566677777777888885.557***********998665327777777777 PP

                3Beta_HSD  80 ag.kltedeimkvnvkGTrnvleacvkagvrvlvYtSsaevvgp 122
                                 +++  +    n  GT++   a+++agv  ++  S+ ++v p
  PHY93_13395|PHY93_13395 371 PLvEMNAVSGILNNSIGTKSTALAAINAGVDHFILISTDKAVRP 414
                              6623333333445778**********************999988 PP

>> GFO_IDH_MocA  Oxidoreductase family, NAD-binding Rossmann fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.3   0.0   1.6e-07   0.00018       2      84 ..     147     240 ..     146     250 .. 0.84

  Alignments for each domain:
  == domain 1  score: 22.3 bits;  conditional E-value: 1.6e-07
                              EEEEETTSHHHHHHHHHHHHTTTTEEEEEEECSSHHHHHHHHHHTTHEEESSHHHHHTCTTESEEEE-S-G...........GG.H CS
             GFO_IDH_MocA   2 rvaiiGaGkigskhlrplnesqrleevvalldpdaeraeavaesfgveaysdleelladpeidavivatpn...........gt.h 75 
                              rvai GaG++g++ +++l +s r++  v +ld + e+++   + ++v + s+l+ l  ++ id ++va p+           g+  
  PHY93_13395|PHY93_13395 147 RVAIYGAGRAGTQMAQALLNS-REYTPVLFLDDSIESQRSSPHGLRVFSPSNLDVLIPKKSIDEILVALPSvarskqkeiieGLrK 231
                              8********************.999**********************************************998554444442235 PP

                              HHHHHHHHH CS
             GFO_IDH_MocA  76 eelakaale 84 
                              +++++++l 
  PHY93_13395|PHY93_13395 232 YDIVIKILP 240
                              555555555 PP

>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.2   0.0   2.9e-07   0.00032       1      70 [.     283     355 ..     283     370 .. 0.88

  Alignments for each domain:
  == domain 1  score: 20.2 bits;  conditional E-value: 2.9e-07
                              SEEEEESTTSHHHHHHHHHHHHTT-EEEE.EESCHHHHHHHHHHHHHT..TSEEEEEE-TTTSHHHHHHHHHH CS
                adh_short   1 kvvlvtGassGIGraiakelakeGakvvv.vdrseekleevakelkee..gakalaiqvDvtdreevealvek 70 
                              kv++vtGa++ IG ++++++++ + + ++ ++ +e +l ++ ke+ ++    k+l + +Dv+ +e++  ++++
  PHY93_13395|PHY93_13395 283 KVICVTGAGGSIGSELCRQVINLNPSKLIlIELNEFALYQIEKEITQLapHLKVLSYLLDVSLQEKMTYILKE 355
                              89********************98877766******************8888899999999988888777665 PP

>> PglD_N  PglD N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   1.7e-05      0.02       1      45 [.     147     194 ..     147     216 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.7e-05
                   PglD_N   1 kivIiGaGGhgkvvadiieangeyeiigflDdnkkteve...gypvlg 45 
                              +++I+GaG  g   a+ + +++ey  + flDd+ +++     g++v +
  PHY93_13395|PHY93_13395 147 RVAIYGAGRAGTQMAQALLNSREYTPVLFLDDSIESQRSsphGLRVFS 194
                              589*****************************9875543111566654 PP

>> KR  KR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.0   0.0   3.1e-05     0.035       4      92 ..     286     368 ..     284     407 .. 0.86
   2 ?   -3.0   0.0       5.1   5.7e+03       5      30 ..     417     442 ..     413     444 .. 0.90

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 3.1e-05
                              EEETTTSHHHHHHHHHHHHHHS-EEEEE-SS..--HHHHHHHHHHHHTT-EEEE----TT-HHHHHHHHHHHHHHSS---EEEE-- CS
                       KR   4 litGGlGgLGlelarwlaekgarhlvllsRsaaadedskaliaelealgaevevvaaDvsdkdavealleeikaeeppikGvihaA 89 
                               +tG+ G++G el+r+ ++   ++l+l+  ++ a  + +++i++l+    +v  + +Dvs +++++ +l+e +     +k ++haA
  PHY93_13395|PHY93_13395 286 CVTGAGGSIGSELCRQVINLNPSKLILIELNEFALYQIEKEITQLAP-HLKVLSYLLDVSLQEKMTYILKEHQ-----VKTIYHAA 365
                              69*****************************9999999999999987.578888889***********99986.....9999*999 PP

                              --- CS
                       KR  90 gvl 92 
                                 
  PHY93_13395|PHY93_13395 366 AYK 368
                              754 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 5.1
                              EETTTSHHHHHHHHHHHHHHS-EEEE CS
                       KR   5 itGGlGgLGlelarwlaekgarhlvl 30 
                              ++G+   L+  + + la k+++++++
  PHY93_13395|PHY93_13395 417 VMGASKRLAELVLQALACKHKSNIIF 442
                              78999999*********999999986 PP

>> DapB_N  Dihydrodipicolinate reductase, N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.2   0.0    0.0023       2.6       2      41 ..     147     185 ..     146     216 .. 0.76
   2 ?    4.6   0.0     0.031        35       3      25 ..     285     307 ..     283     337 .. 0.86

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.0023
                              EEEEETTTSHHHHHHHHHHHHSTTEEEEEEEETTCSTTTT CS
                   DapB_N   2 kvavvGasGrmGkevvkaveeaedlelvaavdrkeseleg 41 
                              +va++Ga Gr G+++++a+ ++++++ v  +d + ++ ++
  PHY93_13395|PHY93_13395 147 RVAIYGA-GRAGTQMAQALLNSREYTPVLFLDDSIESQRS 185
                              89****9.**************999999888887654444 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.031
                              EEEETTTSHHHHHHHHHHHHSTT CS
                   DapB_N   3 vavvGasGrmGkevvkaveeaed 25 
                              + v+Ga G +G+e+++ v + + 
  PHY93_13395|PHY93_13395 285 ICVTGAGGSIGSELCRQVINLNP 307
                              78*************99988654 PP

>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.0      0.47   5.3e+02       3      33 ..     153     183 ..     152     208 .. 0.79
   2 ?   11.6   0.0   0.00017      0.19       1     103 [.     289     413 ..     289     443 .. 0.66

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.47
                              TSHHHHHHHHHHHHC-T-EEEEEETTHHHCH CS
           NAD_binding_10   3 tGkvGrllvkellargghevtalvRnpekla 33 
                               G+ G + ++ ll++++++ +++  ++ + +
  PHY93_13395|PHY93_13395 153 AGRAGTQMAQALLNSREYTPVLFLDDSIESQ 183
                              79**************9**999998865544 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 0.00017
                              TTTSHHHHHHHHHHHHC-.......T-EEEEEETTHHHCHHHHCTTTCEEEE--TT-CCHHHHHHTT-SE..EEES---TCC.... CS
           NAD_binding_10   1 GAtGkvGrllvkellarg.......ghevtalvRnpeklaeleaeeglevvegdvtdvedlaealkgada..Vvsalggggk.... 73 
                              GA G++G++l+++ ++ +       +++  al   ++++++l+ + ++    +dv+ +e+++  lk +++  ++ a++ ++     
  PHY93_13395|PHY93_13395 289 GAGGSIGSELCRQVINLNpskliliELNEFALYQIEKEITQLAPHLKVLSYLLDVSLQEKMTYILKEHQVktIYHAAAYKHVplve 374
                              899999999999999887433333333333444446777777655555556699999********999864266666433336554 PP

                              ..HHHH.........HHHHHHHHHHCT--EEEEEEETTTTS CS
           NAD_binding_10  74 ..deeg.........aknivdaakeagvkRfvlvsaigvgd 103
                                   +         +k+++ aa +agv +f+l+s+ ++ +
  PHY93_13395|PHY93_13395 375 mnA--VsgilnnsigTKSTALAAINAGVDHFILISTDKAVR 413
                              430..1444444567********************988764 PP

>> TrkA_N  TrkA-N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   0.0    0.0041       4.5       1      31 [.     148     180 ..     148     197 .. 0.78
   2 ?    3.9   0.0     0.055        62       6      40 ..     291     326 ..     285     336 .. 0.81

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0041
                              EEEES-SHHHHHHHHHHHH.TT.EEEEEEESSH CS
                   TrkA_N   1 iiiiGlGrvGrslaeeLse.gg.kdvvvidkde 31 
                              ++i G+Gr G+++a+ L + ++  +v+  d++ 
  PHY93_13395|PHY93_13395 148 VAIYGAGRAGTQMAQALLNsREyTPVLFLDDSI 180
                              6899**************965565577777665 PP

  == domain 2  score: 3.9 bits;  conditional E-value: 0.055
                              -SHHHHHHHHHHHH.TTEEEEEEESSHHHHHHHHHT CS
                   TrkA_N   6 lGrvGrslaeeLse.ggkdvvvidkdeerveelree 40 
                               G +G++l++++ + + ++ ++i+ +e ++ ++++e
  PHY93_13395|PHY93_13395 291 GGSIGSELCRQVINlNPSKLILIELNEFALYQIEKE 326
                              589***********77788*******9888777766 PP

>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.6   0.0    0.0034       3.8       1      58 [.     146     216 ..     146     264 .. 0.56
   2 ?    4.7   0.0     0.014        15     142     188 ..     270     330 ..     206     366 .. 0.76

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.0034
                              CSEEEE--SHHHHHHHHHHHH.HTS-EEEE.....ETTHCHHHCSHHHHCHHHHHHHHHHHHH.......H CS
                              xxxxxxxxxxxxxxxxxxxxx.xxxxxxxx.....xxxxxxxxxxxxxxxxxxxxxxxxxxxx.......x RF
              Pyr_redox_2   1 kdvvviGgGpAGlaaaltlaq.agakvtlv.....elegtclnggcllskallgvaedaeias.......e 58 
                              k+v++ G+G AG+++a+ l +  ++  +l+     e+++  ++g  + s+  l v  +++ +         
  PHY93_13395|PHY93_13395 146 KRVAIYGAGRAGTQMAQALLNsREYTPVLFlddsiESQRSSPHGLRVFSPSNLDVLIPKKSIDeilvalpS 216
                              5899***************9955888888833322244444444344444444444444333356666662 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.014
                              T............SEEEEES.-SHHHHHHHHHHHHHT-.EEEEEESSSSSSTTS-HHHHHH CS
                              x............xxxxxxx.xxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 142 p............krivvvG.gGyiGvElAaalaklgk.evtlveardrllraldkelsaa 188
                              p            k i+v G gG iG+El+ +  +l+  +  l+e ++  l + +ke+++ 
  PHY93_13395|PHY93_13395 270 PprldllkkcienKVICVTGaGGSIGSELCRQVINLNPsKLILIELNEFALYQIEKEITQL 330
                              355555555565577899994479********99995515888888887777777777765 PP

>> DUF4147  Domain of unknown function (DUF4147)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00013      0.15      27      56 ..     137     166 ..     109     243 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00013
                              --.......-SEEEEEESTTHHHHHHHHH. CS
                  DUF4147  27 eeeldlskkkrvvvvgaGKAaaamaaalee 56 
                                el+++kkkrv + gaG+A  +ma+al +
  PHY93_13395|PHY93_13395 137 GVELRIDKKKRVAIYGAGRAGTQMAQALLN 166
                              33788999*****************88764 PP

>> Ldh_1_N  lactate/malate dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.3   0.0     0.018        20       2      33 ..     147     178 ..     146     189 .. 0.83
   2 ?    5.0   0.0     0.022        24       3      36 ..     285     317 ..     283     365 .. 0.79

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.018
                              EEEEETTTSHHHHHHHHHHHHT.TSSSEEEEE- CS
                  Ldh_1_N   2 kvavvGaaGgiGqslalllank.kladelaLlD 33 
                              +va+ Ga G  G ++a +l+n+ +++  l L D
  PHY93_13395|PHY93_13395 147 RVAIYGA-GRAGTQMAQALLNSrEYTPVLFLDD 178
                              8******.***********99978887666666 PP

  == domain 2  score: 5.0 bits;  conditional E-value: 0.022
                              EEEETTTSHHHHHHHHHHHHTTSSSEEEEE-SSH CS
                  Ldh_1_N   3 vavvGaaGgiGqslalllankkladelaLlDiak 36 
                              + v+Ga+G iG++l  ++ n +  + l L+++++
  PHY93_13395|PHY93_13395 285 ICVTGAGGSIGSELCRQVINLNPSK-LILIELNE 317
                              789***********99998877666.66666554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (617 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       659  (0.0367561); expected 358.6 (0.02)
Passed bias filter:                      456  (0.0254337); expected 358.6 (0.02)
Passed Vit filter:                        64  (0.00356964); expected 17.9 (0.001)
Passed Fwd filter:                        16  (0.000892409); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              16  [number of targets reported over threshold]
# CPU time: 0.76u 0.28s 00:00:01.04 Elapsed: 00:00:00.46
# Mc/sec: 4052.30
//
Query:       PHY93_13400|PHY93_13400  [L=297]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    5.5e-18   65.1   5.2    5.5e-18   65.1   5.2    2.4  2  Wzy_C       O-Antigen ligase
  ------ inclusion threshold ------
          1    9.0  16.9       0.85    9.2   9.4    2.8  2  TauE        Sulfite exporter TauE/SafE
        1.7    8.6   3.5         11    6.1   0.2    2.9  3  Holin_BhlA  BhlA holin family


Domain annotation for each model (and alignments):
>> Wzy_C  O-Antigen ligase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.1       0.2   1.2e+03      27      50 ..      61      82 ..      20      87 .. 0.54
   2 !   65.1   5.2   9.1e-22   5.5e-18       1     155 []     100     238 ..     100     238 .. 0.86

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.2
                    Wzy_C 27 ivlliifykrripfllllgilvgv 50
                             ++++++ y      +++ ++lvg+
  PHY93_13400|PHY93_13400 61 MFGMLMSYAHSE--AIWCILLVGL 82
                             233333333333..6666666655 PP

  == domain 2  score: 65.1 bits;  conditional E-value: 9.1e-22
                    Wzy_C   1 ialllsllalflstsRsgiigllvalivlliifykrripfllllgilvgvilliilfvlstnletlknitkafgkldkkkgkdksg 86 
                              ia+++ ++ ++ s++R++++++++al ++++   k+++  ++l+ +l+ +++++ + +l  ++                +g++ s+
  PHY93_13400|PHY93_13400 100 IAIIINFVGFITSYTRGALLAFIIALPFYFFKANKKKFITAILATVLLSAMCWVSVPYLRVTF----------------EGRQHSN 169
                              578999*************************99999996666666777777777776644333................78999** PP

                    Wzy_C  87 ssRlyiwkralplikdspilGtGvfdfpqgdligkyyaydtpnivvdkaHNlyLqilvetGiiGlvlfl 155
                                R+  wk a+++++ +p++G+G+ +f+ ++ + k+++     ++  +aHN +L+il+ +G++G + fl
  PHY93_13400|PHY93_13400 170 LLRVGQWKAAWKVFELNPVMGVGFRNFQPYSTVIKKQYGYPEPTWEGHAHNNLLEILAGMGLVGGIPFL 238
                              ***********************777777778888888888888999*****************99775 PP

>> TauE  Sulfite exporter TauE/SafE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   9.4   0.00014      0.85      70     178 ..      33     150 ..       2     165 .. 0.66
   2 ?    3.3   0.8    0.0093        55      62      96 ..     251     285 ..     219     294 .. 0.63

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.00014
                     TauE  70 llgsliGallGallllllpsel..............lkllfgvlllllallmllrkkrsrakgrerrptaillvligglvGllsGl 141
                              +l+++iG + G+  l++ p++                +    + +ll++l++ ++k      ++  +++++ +++i  +vG+++++
  PHY93_13400|PHY93_13400  33 SLSGMIGLYTGFNPLKWGPPSSatqnagmfgmlmsyAHSEAIWCILLVGLFLNYKKL-----ENYFPKWLLSIAIIINFVGFITSY 113
                              455666666666666655555333433333322221122222334444444433443.....34556666666777788******* PP

                     TauE 142 lGiGgGfllvpllllllglplkkavatslllilvisl 178
                              + +   +++++l  ++++ + kk++ + l+ +l++++
  PHY93_13400|PHY93_13400 114 TRGALLAFIIALPFYFFKANKKKFITAILATVLLSAM 150
                              ***********************99999999888875 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.0093
                     TauE  62 dwrlllllllgsliGallGallllllpsellkllf 96 
                              +  l+  l+++s+i++++G+l  + + + +  +lf
  PHY93_13400|PHY93_13400 251 RDDLAAKLAFPSIIAIVIGGLTQNTITDGVNVFLF 285
                              34567778888888888888887766655422222 PP

>> Holin_BhlA  BhlA holin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.1   0.2    0.0018        11       1      24 [.      61      84 ..      61      91 .. 0.84
   2 ?    2.2   0.1      0.03   1.8e+02      11      33 ..     114     136 ..     110     138 .. 0.82
   3 ?   -2.3   0.0      0.74   4.4e+03       6      22 ..     272     288 ..     270     291 .. 0.81

  Alignments for each domain:
  == domain 1  score: 6.1 bits;  conditional E-value: 0.0018
               Holin_BhlA  1 MeqeilklaitqGiwavLfvvllv 24
                             M   ++ +a ++ iw++L v l++
  PHY93_13400|PHY93_13400 61 MFGMLMSYAHSEAIWCILLVGLFL 84
                             55668999************9985 PP

  == domain 2  score: 2.2 bits;  conditional E-value: 0.03
               Holin_BhlA  11 tqGiwavLfvvllvYilkkqekr 33 
                              t G+     + l +Y+ k+++k+
  PHY93_13400|PHY93_13400 114 TRGALLAFIIALPFYFFKANKKK 136
                              6777777788889*******985 PP

  == domain 3  score: -2.3 bits;  conditional E-value: 0.74
               Holin_BhlA   6 lklaitqGiwavLfvvl 22 
                              +++ it+G+ + Lf+ l
  PHY93_13400|PHY93_13400 272 TQNTITDGVNVFLFMAL 288
                              67889999999999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (297 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       772  (0.0430587); expected 358.6 (0.02)
Passed bias filter:                      337  (0.0187964); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.61u 0.24s 00:00:00.85 Elapsed: 00:00:00.46
# Mc/sec: 1949.64
//
Query:       PHY93_13405|PHY93_13405  [L=443]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.6e-24   84.6   1.8    1.6e-23   83.2   0.1    2.4  3  AAA_14         AAA domain
    2.5e-19   69.6   0.1    4.4e-19   68.8   0.1    1.4  1  DUF4143        Domain of unknown function (DUF4143)
    4.4e-06   27.2   0.0      9e-06   26.2   0.0    1.5  1  AAA            ATPase family associated with various cellular
    0.00028   21.3   0.1      0.001   19.5   0.0    2.0  2  NERD           Nuclease-related domain
     0.0034   17.3   2.8      0.013   15.4   1.3    2.5  2  ATPase_2       ATPase domain predominantly from Archaea
     0.0049   17.1   0.1       0.67   10.2   0.0    3.3  3  AAA_22         AAA domain
     0.0056   17.1   0.1      0.086   13.2   0.0    2.4  2  AAA_16         AAA ATPase domain
     0.0077   16.0   0.0      0.015   15.0   0.0    1.4  1  AAA_24         AAA domain
  ------ inclusion threshold ------
      0.056   12.6   0.0        0.1   11.7   0.0    1.4  1  DUF815         Protein of unknown function (DUF815)
       0.25   11.9   2.3        1.1    9.8   0.0    2.8  3  Baculo_LEF-11  Baculovirus LEF-11 protein


Domain annotation for each model (and alignments):
>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   83.2   0.1   8.7e-27   1.6e-23       2     131 .]      18     151 ..      17     151 .. 0.86
   2 ?   -1.2   0.1       1.1     2e+03      64      86 ..     171     196 ..     154     233 .. 0.59
   3 ?   -0.7   0.1      0.73   1.3e+03      30      86 ..     209     268 ..     180     294 .. 0.50

  Alignments for each domain:
  == domain 1  score: 83.2 bits;  conditional E-value: 8.7e-27
                   AAA_14   2 rkilvitGaRrvGKTtllkqlikellvkkesilyinldderdkkladpe.kllelilek..lke...ekktylflDEiqevpewek 81 
                              rk+l+++GaR+vGK+tl++ ++++l     + ++inl+++++++l+ ++ ++ + + e   + +   ++kt++f+DEiq   ++  
  PHY93_13405|PHY93_13405  18 RKPLILRGARQVGKSTLVRLFAQNLG---LDLIEINLEKKQFQSLKAEQfDIQDWVIEIesIAKkkvHQKTLIFIDEIQAQVKALA 100
                              799*******************9999...9************887754455556655543322246789***************** PP

                   AAA_14  82 alkslvdegknldvivtGSnskllsk.eiatslagrvaeielyplsfaEfl 131
                              +l+++++e++++ vi +GS++ + ++ e  + ++grv+ + + p++f E+l
  PHY93_13405|PHY93_13405 101 MLRYFYEERPEIAVISAGSLLEIALHnEEVSFPVGRVSFMWIGPMTFGEYL 151
                              *******************99887663777999****************97 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 1.1
                   AAA_14  64 kktylflDEiqev...pewekalksl 86 
                               ++ ++lDE +++    ++ k +k +
  PHY93_13405|PHY93_13405 171 FHHQMLLDELKKYyfiGGMPKSIKTY 196
                              34456777777664443333333333 PP

  == domain 3  score: -0.7 bits;  conditional E-value: 0.73
                   AAA_14  30 kesilyinldderdkkla.dpekllelileklke..ekktylflDEiqevpewekalksl 86 
                              +e+il    +d +++ ++ ++++l +++++++ +  +k  y  lD  +++ e++k++  +
  PHY93_13405|PHY93_13405 209 QEEILQTYQEDFPKYGKRiNTDRLSSVFKQLAFHlgKKLIYQHLDRESKSIEVKKCIELF 268
                              444444444444444444123344444444422222333444455555555555555544 PP

>> DUF4143  Domain of unknown function (DUF4143)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.8   0.1   2.5e-22   4.4e-19       1     121 [.     217     383 ..     217     384 .. 0.90

  Alignments for each domain:
  == domain 1  score: 68.8 bits;  conditional E-value: 2.5e-22
                              xxxxxxxxxxxxxxxxxx.....................................xxxxxxxxxxx..xxxxxxxxxxxxxxxxxx RF
                  DUF4143   1 erDirklagvrdpeelrk.....................................glverlppwse..spnskkrlrkspKlyfvD 47 
                              ++D++k++++ ++++l                                       +++  +++  +   p++++ +++ +K+yf+D
  PHY93_13405|PHY93_13405 217 QEDFPKYGKRINTDRLSSvfkqlafhlgkkliyqhldresksievkkcielfikaNIIVPVYHSDAngIPLRSQVDTNVFKIYFLD 302
                              5899****99998888889999******************************************8899****************** PP

                              xxxxxxxxxxxxxxxxxxx.....xxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxx RF
                  DUF4143  48 tGLlvallgldkeelleds.....enkGallEnlVaqeLlky.sekegaklyyyrdk...ngaEvDfvielkggkivpiEvKs 121
                               GL+++l +++ + + +       ++kG+l+E++Vaq+L  + ++k  ++l+y+ ++   n+aE+Df+ + + g+i+piEvKs
  PHY93_13405|PHY93_13405 303 IGLVNCLHEFSWDGFNK-IfdetfSTKGFLAEQFVAQHLAYHlNRKALPELMYWLRDkniNKAEIDFLTS-ARGEIFPIEVKS 383
                              ********999988443.257899****************99*7777889988866557779*******9.699********9 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.2   0.0     5e-09     9e-06       2      72 ..      22      97 ..      21     109 .. 0.88

  Alignments for each domain:
  == domain 1  score: 26.2 bits;  conditional E-value: 5e-09
                             EEESSTTSSHHHHHHHHHHHHTHEEEEEETTTCSSSSTTHHHHHHHHHHHHHHHTS.....TSEEEEEETGGGHHH CS
                      AAA  2 llyGppGtGKTllakavakelgvefleisgsellskyvgesekkirelfkeakeka.....kpsilfiDEidalak 72
                             +l G   +GK++l++  a++lg +++ei++ +   + +++ + +i++ + e+++ a     +++ +fiDEi a +k
  PHY93_13405|PHY93_13405 22 ILRGARQVGKSTLVRLFAQNLGLDLIEINLEKKQFQSLKAEQFDIQDWVIEIESIAkkkvhQKTLIFIDEIQAQVK 97
                             7889999*************************9988899999999999988877777778777********98765 PP

>> NERD  Nuclease-related domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0       5.2   9.3e+03      49      72 ..     197     218 ..     194     262 .. 0.52
   2 !   19.5   0.0   5.6e-07     0.001       1      58 [.     328     389 ..     328     425 .. 0.75

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 5.2
                     NERD  49 iEvKnwsG..wifgdkegrwtqkikk 72 
                              iE+K++     i    +++  q++++
  PHY93_13405|PHY93_13405 197 IETKSFIEvrAI----QEEILQTYQE 218
                              566664432111....1223333322 PP

  == domain 2  score: 19.5 bits;  conditional E-value: 5.6e-07
                     NERD   1 kgaegEravakeLkel.....kedeylvlhdvrlrpgtgeiDhlvispkgifviEvKnwsG.wi 58 
                              kg  +E+ va+ L+ +     +++ ++ l+d ++++   eiD+l   ++ if iEvK+ sG ++
  PHY93_13405|PHY93_13405 328 KGFLAEQFVAQHLAYHlnrkaLPELMYWLRDKNINKA--EIDFLTSARGEIFPIEVKSQSGgKL 389
                              68899********955344345555555677778444..*******************998533 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   1.3   7.5e-06     0.013      10      91 ..       8      86 ..       6     115 .. 0.65
   2 ?    1.6   1.7      0.12   2.2e+02      85     131 ..      50      96 ..      44     196 .. 0.66

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 7.5e-06
                 ATPase_2 10 eleeilerepneiyfiYGpegsGKtaLlkeiienl.edkdkyviyyialreesiskld.efieeeeekkklekalgiavpkael 91
                             +lee+++++ ++++ + G +++GK++L++ +++nl +d     +  i+l++++ ++l+ e ++ ++ + ++e  ++++v +++l
  PHY93_13405|PHY93_13405  8 DLEEWYQTNDRKPLILRGARQVGKSTLVRLFAQNLgLD-----LIEINLEKKQFQSLKaEQFDIQDWVIEIESIAKKKVHQKTL 86
                             699********************************333.....33445554443333303334444455555555555555554 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.12
                 ATPase_2  85 avpkaeleeilkeksklvfkaielllekikkkgkk.iiiiiDelqkli 131
                              +++k++++  lk ++ +++  + ++    kkk  +   i+iDe+q  +
  PHY93_13405|PHY93_13405  50 NLEKKQFQS-LKAEQFDIQDWVIEIESIAKKKVHQkTLIFIDEIQAQV 96 
                              555666633.34444444444444444444443336999****99766 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.2   0.0   0.00038      0.67       4      90 ..      17     100 ..      14     123 .. 0.66
   2 ?    0.9   0.0      0.29   5.2e+02      24      83 ..     175     240 ..     159     261 .. 0.68
   3 ?   -3.3   0.0       5.7     1e+04      45      90 ..     306     348 ..     303     355 .. 0.52

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00038
                   AAA_22   4 tagilvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsst....sskdl.lrellralglelkaerlsseell.eale 83 
                              +++ l++ G   +GK+tl+r ++++l         + ++++++l ++     + +++  ++ + ++++ +k++ +++  ++ + ++
  PHY93_13405|PHY93_13405  17 DRKPLILRGARQVGKSTLVRLFAQNL---------GLDLIEINLEKKQfqslKAEQFdIQDWVIEIESIAKKKVHQKTLIFiDEIQ 93 
                              56778999999*************99.........888888888888755554444444444444444444433333333335555 PP

                   AAA_22  84 qalrara 90 
                               +++a a
  PHY93_13405|PHY93_13405  94 AQVKALA 100
                              5555544 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.29
                   AAA_22  24 rlleqldeeakaeeerpevv.fvtlpsstsskdllrellralglelka.....erlsseelleale 83 
                              +ll++l++++++  +++++  +++ +s  + + + +e+l+ ++++  +     ++++++ ++++l+
  PHY93_13405|PHY93_13405 175 MLLDELKKYYFIGGMPKSIKtYIETKSFIEVRAIQEEILQTYQEDFPKygkriNTDRLSSVFKQLA 240
                              455566555555555555552555555559999999999999998777886665555555554444 PP

  == domain 3  score: -3.3 bits;  conditional E-value: 5.7
                   AAA_22  45 vtlpsstsskdllrellralglelkaerlsseell.ealeqalrara 90 
                              v++ ++ s++ + ++++ ++ + +       e+++ ++l+ +l+++a
  PHY93_13405|PHY93_13405 306 VNCLHEFSWDGF-NKIFDETFSTKGF---LAEQFVaQHLAYHLNRKA 348
                              566666666666.4444444444444...233333366666666555 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.2   0.0   4.8e-05     0.086      25      51 ..      19      45 ..       9      68 .. 0.79
   2 ?    0.7   0.0      0.33   5.8e+02     134     160 ..      83     107 ..      67     115 .. 0.69

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 4.8e-05
                   AAA_16 25 elvllsGesGvGKsslvrellralekd 51
                               ++l+G++ vGKs+lvr +++ l  d
  PHY93_13405|PHY93_13405 19 KPLILRGARQVGKSTLVRLFAQNLGLD 45
                             5689*****************988765 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.33
                   AAA_16 134 erplvlvlDdlqwadeaslqllaaLlr 160
                              ++ +++++D++q a+   l++l+++ +
  PHY93_13405|PHY93_13405  83 QK-TLIFIDEIQ-AQVKALAMLRYFYE 107
                              33.9********.66666666666665 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   8.5e-06     0.015       6      76 ..      22      94 ..      18     104 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 8.5e-06
                   AAA_24  6 liyGpsgiGKTtlakel....gpkplfidtek.Glksldadkfpdieswedfldevvelaaeladyktl.viDtide 76
                             ++ G   +GK+tl++ +    g + + i++ek  ++sl+a +f+    ++d++ e++++a+++ + ktl +iD i+ 
  PHY93_13405|PHY93_13405 22 ILRGARQVGKSTLVRLFaqnlGLDLIEINLEKkQFQSLKAEQFD----IQDWVIEIESIAKKKVHQKTLiFIDEIQA 94
                             677999***********999999999*****9888888888888....9**********888888888526898876 PP

>> DUF815  Protein of unknown function (DUF815)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   5.7e-05       0.1      49      97 ..      14      61 ..       3     101 .. 0.69

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 5.7e-05
                   DUF815 49 eglpannvLLwGarGtGKSslvkallneyaeegLrliev..ekedlkelpk 97
                             + +  + ++L Gar +GKS+lv+   +++   gL lie+  ek++ ++l++
  PHY93_13405|PHY93_13405 14 QTNDRKPLILRGARQVGKSTLVRLFAQNL---GLDLIEInlEKKQFQSLKA 61
                             555666789**************998766...6777766225777777764 PP

>> Baculo_LEF-11  Baculovirus LEF-11 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.1      0.62   1.1e+03      21      40 ..      53      76 ..      34     127 .. 0.61
   2 ?   -1.6   0.2       2.2   3.9e+03      55      76 ..     242     263 ..     192     271 .. 0.59
   3 ?    9.8   0.0    0.0006       1.1      18      66 ..     287     341 ..     283     361 .. 0.89

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.62
            Baculo_LEF-11 21 tndtedvtahhldtds....Feti 40
                             +++ + + a+++d+++     e i
  PHY93_13405|PHY93_13405 53 KKQFQSLKAEQFDIQDwvieIESI 76
                             445556666666665532222222 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 2.2
            Baculo_LEF-11  55 nskrkavadHlkRlarLlsldk 76 
                              +  +k++ +Hl R  + ++++k
  PHY93_13405|PHY93_13405 242 HLGKKLIYQHLDRESKSIEVKK 263
                              3334556666666666555555 PP

  == domain 3  score: 9.8 bits;  conditional E-value: 0.0006
            Baculo_LEF-11  18 lkstndtedvtahhldtdsFetirefirehadvivrknskrk......avadHlk 66 
                              l+s+ dt+++ +  ld+   ++++ef  +  ++i ++++ +k      +va+Hl 
  PHY93_13405|PHY93_13405 287 LRSQVDTNVFKIYFLDIGLVNCLHEFSWDGFNKIFDETFSTKgflaeqFVAQHLA 341
                              789*************************************999777777888874 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (443 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       638  (0.0355848); expected 358.6 (0.02)
Passed bias filter:                      402  (0.0224218); expected 358.6 (0.02)
Passed Vit filter:                        61  (0.00340231); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.62u 0.27s 00:00:00.89 Elapsed: 00:00:00.45
# Mc/sec: 2980.79
//
Query:       PHY93_13410|PHY93_13410  [L=1385]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.3e-48  165.5   0.3    2.6e-48  164.5   0.3    1.5  1  SNF2_N         SNF2 family N-terminal domain
    4.4e-18   65.6   0.5      4e-17   62.6   0.0    3.0  3  Helicase_C     Helicase conserved C-terminal domain
    1.5e-08   34.3   8.3    2.8e-08   33.5   8.3    1.5  1  SEC-C          SEC-C motif
    0.00036   20.3   0.1       0.16   11.7   0.0    3.1  3  DEAD           DEAD/DEAH box helicase
     0.0014   18.0   0.9      0.035   13.4   0.0    2.9  3  DUF4941        Domain of unknown function (DUF4941)
     0.0016   17.7   0.0     0.0046   16.2   0.0    1.7  1  ERCC3_RAD25_C  ERCC3/RAD25/XPB C-terminal helicase


Domain annotation for each model (and alignments):
>> SNF2_N  SNF2 family N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  164.5   0.3   8.8e-52   2.6e-48      50     349 ..     920    1200 ..     843    1201 .. 0.85

  Alignments for each domain:
  == domain 1  score: 164.5 bits;  conditional E-value: 8.8e-52
                               HHHHTT--EEE---TTS--HHHHHHHHH...HHTTTS---.......S-EEEE--HHHHHHHHHHHHHH-TTS-EEE--SSHHH CS
                               xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   SNF2_N   50 eakqsvrGGiLaDemGLGKTvqvlalilaqrakeekdkekkrkdtlagptLivvPaslldqWeneierhvsssalrvlvyggqk 133 
                                +++   GG+LaD+mGLGKT+q++ ++  +r + +++            ++i vP+sl+ +W++ei+r+++  +++++  + ++
  PHY93_13410|PHY93_13410  920 NLYKIGLGGVLADDMGLGKTIQAIGFLDILRLQGNDQF-----------HMITVPTSLIYNWTSEIKRFAPLLEVEIFESKLKN 992 
                               5666778********************97776444444...........79***************************999987 PP

                               H-----------------EEEE-HHHHHHHT......TTS-S-S-SEEEES-GGGT--TTSHHHHHHHH---S-EEEE-S--SS CS
                               xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   SNF2_N  134 kmkkkntkvapklladydvvittYdvlsreaelqkkrsvlkqvewkrvvlDEghtlknstskaaeavskLstsnrwiltGTPiq 217 
                               + +++++k          +vi+tY  l +++      + l+q +w+  + DE+++lkn  s+ ++a+++L ++  +++tGTP+ 
  PHY93_13410|PHY93_13410  993 EYDNRWRK------SPPKIVIITYGLLFENV------DFLNQFNWNSAIFDEAQNLKNISSQRSTAARSLHSKTTICITGTPME 1064
                               66666555......4567*********9777......9********************************************** PP

                               S-HHHHHHHHHHH-TTTT--HHHHHHHTHHHHH..........HHHHHHHHHHHTT-STTEE---GGGT--S---EEEEEEEEE CS
                               xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   SNF2_N  218 nsledlygLlkfLreepfgekqtfdkllqrpie..........aqaekgrsrLlqllqrlmlrrakkdveknlPpkteeiiflk 291 
                               n   ++y+L+++  ++ +g+++ f + ++ +            +  ++ ++ L++  ++l+lrr+k+d+ ++lP+k+e +i+++
  PHY93_13410|PHY93_13410 1065 NHYGEFYSLIDLCVPGALGDYKDFMRTFSIEGFstattsskqqQSLNDEVKFLRTKTSPLVLRRMKSDLLEQLPEKSESTILIP 1148
                               ****************************998666887787765556677778888888************************** PP

                               --HHHHHHHH....................HHHHHH-HHH-..HHHHHHHHHHHHH---X CS
                               xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxx RF
                   SNF2_N  292 lskverksYnrllevlrkkalakllkrseaalkssskskek..ilelllelrqacnhpql 349 
                               ++k+++++Y ++  +   k+ +++        +++sks+++  +l  ll+lrq+c  p +
  PHY93_13410|PHY93_13410 1149 FEKQQKEIYRNVAISWNDKIKSVI--------DEDSKSNTQlqMLTALLRLRQICSFPAM 1200
                               **********44433333333333........333333322338***********98877 PP

>> Helicase_C  Helicase conserved C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.1       1.4   4.2e+03      11      61 ..     204     253 ..     193     263 .. 0.69
   2 ?   -2.3   0.1       1.9   5.7e+03      40      66 ..     835     858 ..     793     878 .. 0.38
   3 !   62.6   0.0   1.3e-20     4e-17       9     111 .]    1219    1324 ..    1211    1324 .. 0.85

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 1.4
                              HHTTTTSEEEEEESSHHHHHHHHHHHHHT..TSTEEEESTTSTHHHHHHHHHH CS
               Helicase_C  11 kleeeggkilifvntidrlekvklllekk..gikvavlhgelpqnereeileq 61 
                              ++++++++i+   ++i++l   ++++e    ++++ +   +l+q++r+  l++
  PHY93_13410|PHY93_13410 204 SNQHDEDQIIELGKSINNL---NYFQELLtlELTANMSSEKLTQDKRKILLAD 253
                              4567778888888888888...5553333446788777888888888877765 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 1.9
                              TSTEEEESTTSTHHHHHHHHHHHHTTS CS
               Helicase_C  40 gikvavlhgelpqnereeileqfnkge 66 
                              ++k ++   ++++ ++    + f++++
  PHY93_13410|PHY93_13410 835 KLKNTK---NIKKTNQTNEAAIFRQEK 858
                              222222...233333333333333333 PP

  == domain 3  score: 62.6 bits;  conditional E-value: 1.3e-20
                               HH.HHTTTTSEEEEEESSHHHHHH.HHHHHHHTTSTEEEESTTSTHHHHHHHHHHHH.TTSSS.EEEESGGGTSSSTSTTESEE CS
               Helicase_C    9 ll.kleeeggkilifvntidrlek.vklllekkgikvavlhgelpqnereeileqfn.kgesd.vLiatdvaerGidipkvnlV 88  
                                + +  e+g+ +lif+n+ ++le+  k++ ++ g+k+  +hg++++++r+  l+ f+ ++e   ++++ + ++ G++++k+++V
  PHY93_13410|PHY93_13410 1219 SIsEIYEKGESVLIFTNFLTTLEEiEKYF-RETGYKTHSIHGSMSAKKRQSELQGFQeNNEASiLIMTLKTGGVGLNLTKASYV 1301
                               33445699************999888999.4448**********************96555552556679************** PP

                               EESSSSSSHHHHHHHHTTSSSTT CS
               Helicase_C   89 infdlprnvtsyiqriGRtgRag 111 
                               +++++++n++s +q+ +R++R+g
  PHY93_13410|PHY93_13410 1302 FHVEPWWNPASENQATDRAHRMG 1324
                               *********************86 PP

>> SEC-C  SEC-C motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.5   8.3   9.4e-12   2.8e-08       1      18 [.       6      23 ..       6      24 .. 0.96

  Alignments for each domain:
  == domain 1  score: 33.5 bits;  conditional E-value: 9.4e-12
                    SEC-C  1 RNdpCPCGSGkKYKkCCg 18
                             RN pC CGSGkKYKkCC 
  PHY93_13410|PHY93_13410  6 RNSPCICGSGKKYKKCCL 23
                             9****************6 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0      0.84   2.5e+03      45      79 ..     613     647 ..     586     664 .. 0.77
   2 !   11.7   0.0   5.5e-05      0.16      22     147 ..     933    1052 ..     920    1067 .. 0.70
   3 !    4.5   0.0    0.0086        26      63     105 ..    1239    1286 ..    1236    1297 .. 0.86

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 0.84
                              STS-EEEEEESSHHHHHHHHHHHHHHTTT.STSEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxx RF
                     DEAD  45 ktgpkalivePtreLaeqtlnnlkkfkky.idlrvl 79 
                              +++ +al+  P + L++q  ++l+++ k  i+ + +
  PHY93_13410|PHY93_13410 613 QKTLMALLGPPAENLIKQNEDQLSSRVKGlIK-EFC 647
                              56788999999999****99999999997444.444 PP

  == domain 2  score: 11.7 bits;  conditional E-value: 5.5e-05
                               STTSSHHHHHHHHHHHHHHHSTTSTS-EEEEEESSHHHHHHHHHHHHHHTTTSTSEEEEEETTSSHHHHHHHHHTT.CSEEEEE CS
                               xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxx RF
                     DEAD   22 eTGsGKTlaflipvlqivyetkgktgpkalivePtreLaeqtlnnlkkfkkyidlrvlliiggvaardqlskldng.vdivvgt 104 
                               + G GKT   +i  l+i+ +  + +    +i +Pt +L+ +  +++k+f       ++ i++++ +++  ++ +++ ++iv+ t
  PHY93_13410|PHY93_13410  933 DMGLGKTIQ-AIGFLDIL-R-LQGNDQFHMITVPT-SLIYNWTSEIKRFAPL---LEVEIFESKLKNEYDNRWRKSpPKIVIIT 1009
                               569999987.67777777.3.34555567777887.6899999999999995...4445666666666666665557******* PP

                               HHHHHHHHHCTSSHCTTEEEEEEETHHHHHHT..TTHHHHHHHHH CS
                               xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxx RF
                     DEAD  105 pgrlddllstgklnlsqvrflVlDEadrlldq..gfsdfinriln 147 
                                g l++ ++   ln  + +  ++DEa++l +   ++s   +++++
  PHY93_13410|PHY93_13410 1010 YGLLFENVD--FLNQFNWNSAIFDEAQNLKNIssQRSTAARSLHS 1052
                               ******774..6667777889********9873223333333333 PP

  == domain 3  score: 4.5 bits;  conditional E-value: 0.0086
                               HHHHHHHHTTTSTSEEEEEETTSSHHHHHHHH.....HTTCSEEEEEH CS
                               xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....xxxxxxxxxxx RF
                     DEAD   63 tlnnlkkfkkyidlrvlliiggvaardqlskl.....dngvdivvgtp 105 
                               tl++++k++ ++++++++i g+ +a++ +s+l     +n++ i+++t 
  PHY93_13410|PHY93_13410 1239 TLEEIEKYFRETGYKTHSIHGSMSAKKRQSELqgfqeNNEASILIMTL 1286
                               789999*******************99999996665335599999995 PP

>> DUF4941  Domain of unknown function (DUF4941)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.1      0.43   1.3e+03     117     195 ..     180     257 ..     170     261 .. 0.78
   2 ?    1.3   0.0      0.06   1.8e+02     202     231 ..     417     446 ..     415     453 .. 0.93
   3 !   13.4   0.0   1.2e-05     0.035     212     253 ..     464     505 ..     459     514 .. 0.87

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.43
                  DUF4941 117 vvskglvlfrgklykpg.eelvekdlepnvkiekvaeseGliriilsakevesgnlvikpfgekveayeekilllvakgd 195
                              +++k l  f+++l+    + ++ k    +   ++++e+   i  + + +e+ + +l   +  ek++ +++kill   +++
  PHY93_13410|PHY93_13410 180 IIAKSLFDFKNQLKPITlDGIIWKS--NQHDEDQIIELGKSINNLNYFQELLTLELTANMSSEKLTQDKRKILLADSEDQ 257
                              6778888888888754325566655..67778899999999999999999999999999999999999999998766665 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.06
                  DUF4941 202 pyspDfeGaDwavyseskklakkiaeefnl 231
                              ++s+D + + ++ +se k++ k++a +f l
  PHY93_13410|PHY93_13410 417 SFSKDGKTLTLNSFSEQKEIFKRLASRFQL 446
                              79**************************87 PP

  == domain 3  score: 13.4 bits;  conditional E-value: 1.2e-05
                  DUF4941 212 wavyseskklakkiaeefnlkleicplvdlPvgkiglivlle 253
                                vy +++++a+ i+++f+++l+i ++ ++P + + + ++l 
  PHY93_13410|PHY93_13410 464 VDVYQLTTQFAQNISKQFGVRLNIASIAKIPDENVVVNIFLS 505
                              579****************************99988666665 PP

>> ERCC3_RAD25_C  ERCC3/RAD25/XPB C-terminal helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0   1.6e-06    0.0046      44     153 ..    1211    1328 ..    1197    1345 .. 0.79

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 1.6e-06
            ERCC3_RAD25_C   44 nkfracefLikyhekrgDkiivfsDnvfaLkeyakkl.....kkpyiyGetseaerlkilqkfkknpkvntifls.kvgDtsiD 121 
                                kf+ +   i+   ++g+ +++f++ + +L+e+ k +     k + i+G++s ++r++ lq f++n++ + +++  k g   ++
  PHY93_13410|PHY93_13410 1211 PKFQLLFESISEIYEKGESVLIFTNFLTTLEEIEKYFretgyKTHSIHGSMSAKKRQSELQGFQENNEASILIMTlKTGGVGLN 1294
                               566655555666668999************9998876221224568********************99998766549******* PP

            ERCC3_RAD25_C  122 lPeanvliqiss..hfgsrrqeaqrlGriLrakk 153 
                               l +a+ +  ++   + +s  q   r  r+ ++k+
  PHY93_13410|PHY93_13410 1295 LTKASYVFHVEPwwNPASENQATDRAHRMGQTKS 1328
                               *******999853366788888777777766665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1385 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       695  (0.038764); expected 358.6 (0.02)
Passed bias filter:                      328  (0.0182944); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.91u 0.25s 00:00:01.16 Elapsed: 00:00:00.47
# Mc/sec: 8872.94
//
Query:       PHY93_13415|PHY93_13415  [L=425]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.9e-24   86.4  45.6    7.9e-16   58.5  20.1    2.1  2  EamA             EamA-like transporter family
    7.9e-12   45.4   0.1    1.3e-11   44.7   0.1    1.2  1  NUDIX            NUDIX domain
  ------ inclusion threshold ------
      0.035   14.8   3.2      0.035   14.8   3.2    3.1  4  Multi_Drug_Res   Small Multidrug Resistance protein
       0.12   11.7  14.9      0.036   13.4   9.1    2.3  2  Sugar_transport  Sugar transport protein
          2    8.4   8.5       0.41   10.6   3.7    2.3  2  SK_channel       Calcium-activated SK potassium channel


Domain annotation for each model (and alignments):
>> EamA  EamA-like transporter family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.5  20.1   2.2e-19   7.9e-16       2     136 ..       3     133 ..       2     134 .. 0.93
   2 !   34.1  17.5   7.4e-12   2.7e-08       3     133 ..     144     276 ..     142     280 .. 0.89

  Alignments for each domain:
  == domain 1  score: 58.5 bits;  conditional E-value: 2.2e-19
                     EamA   2 lgillallaalfwaiyfvlskillrkvspltltfvrfliagillliiallkegklaklslkdwllllllgllgtvlafllffyalk 87 
                              ++i++ +l+ ++++i++++ k +l ++sp+tl+f+  l++ ++ ++++  k  k    s k++++lll gll+++  ++++fy+l+
  PHY93_13415|PHY93_13415   3 KAIVYTFLSIILMSIGPTINKFALINISPFTLVFYNALLCCVFTIPFIYKKLFKV---SIKEIKFLLLAGLLNGI-SMFFLFYGLS 84 
                              578999******************************************9999999...99999999888876665.557999**** PP

                     EamA  88 ktsasnaslitslePvftlilsvlllgekltlkqllgivlillGvllil 136
                              k+s++ +s++++   +f++++++++l+e++  +++  iv+++lG++l +
  PHY93_13415|PHY93_13415  85 KSSPALVSMLNRSYIIFSILIGAIILKEQVARIDWGLIVFAVLGIILFM 133
                              **********************************************975 PP

  == domain 2  score: 34.1 bits;  conditional E-value: 7.4e-12
                     EamA   3 gillallaalfwaiyfvlskillrkv.spltltfvrfliagillliiallkegkl.aklslkdwllllllgllgtvlafllffyal 86 
                              g+l+ +++ +++ +  +++ki l+k+ + ltl+ + f+ a i++li ++   ++l   +  k + +++l ++lg++l+ l+f+ ++
  PHY93_13415|PHY93_13415 144 GALYGIVSGVLFCLCNLTIKIKLNKTcEYLTLFSINFTSAIIFFLICLFKGPENLvLPFEIKTLSCIFLGSFLGSFLGLLFFYASI 229
                              788999999999999999999876663777888899998888888888888888899999999*********************** PP

                     EamA  87 kktsasnaslitslePvftlilsvlllgekltlkqllgivlillGvl 133
                              k+++  +a l+ s++Pv +l+++++++  +l+++ ++g+++ l + +
  PHY93_13415|PHY93_13415 230 KTIPFYKANLYRSISPVASLLCGFFFFPVSLSFINVIGLIILLSSFV 276
                              ****************************************9987766 PP

>> NUDIX  NUDIX domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.7   0.1   3.5e-15   1.3e-11       5     111 ..     313     406 ..     310     419 .. 0.78

  Alignments for each domain:
  == domain 1  score: 44.7 bits;  conditional E-value: 3.5e-15
                              EEEEEEEETTSEEEEEEESSSSTTTEESSEEECBTTS.HHHHHHHHHHHHHHSEEEEEEEEEEEEEEEEEEEEEEEE.EEEEEEEE CS
                    NUDIX   5 avgvvllnekgevLlvrrskkpfpgWelPgGkvepgE.tpeeAArREleEEtGleaellellgrlhylapydgpygd.eheilyvf 88 
                              +v v++ +++ + L+vr +   f++We+PgG+ e +E ++ e+A RE++EE+G++ ++l+++g          +y+    + ++++
  PHY93_13415|PHY93_13415 313 SVLVFIKEDN-KWLMVRNK---FRSWEFPGGHKENNEtEF-ETAKREAFEEAGVDIHNLQYVG----------YYRLaSGHTTLIV 383
                              5667766666.58888755...9**************777.*************999**9999..........5555555555666 PP

                              EEEECSGCSSTSTTTEEEEEEEE CS
                    NUDIX  89 leevegelepndenevsevrwvp 111
                              ++eve   e ++e e+ e ++++
  PHY93_13415|PHY93_13415 384 TAEVEKFHEIPEEFETVERKFMS 406
                              66666666666677777777765 PP

>> Multi_Drug_Res  Small Multidrug Resistance protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.1       4.4   1.6e+04      33      33 ..      31      31 ..       5      64 .. 0.55
   2 ?   -1.9   0.3       1.5   5.4e+03      27      47 ..      62      80 ..      30      92 .. 0.55
   3 ?   14.8   3.2   9.8e-06     0.035      12      71 ..     102     159 ..      96     191 .. 0.86
   4 ?    5.0   2.1     0.011        39      29      92 ..     205     270 ..     197     271 .. 0.77

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 4.4
                             - CS
           Multi_Drug_Res 33 l 33
                             +
  PHY93_13415|PHY93_13415 31 P 31
                             2 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 1.5
                             -------HHHHHHHHHHHHHH CS
           Multi_Drug_Res 27 tkltpsllvivgygisfllLs 47
                              k  + ++++   gis+++L 
  PHY93_13415|PHY93_13415 62 IKFLLLAGLL--NGISMFFLF 80
                             3333333333..344444444 PP

  == domain 3  score: 14.8 bits;  conditional E-value: 9.8e-06
                              HHHHHHHH--------------HHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHH CS
           Multi_Drug_Res  12 levvgailLklsegftkltpsllvivgygisfllLskalkslpvsvAYavwsGiGtvliv 71 
                              +  +gai+Lk  e  ++  + l+v +++gi +++L k + +l+v+  Y + sG+ + l  
  PHY93_13415|PHY93_13415 102 SILIGAIILK--EQVARIDWGLIVFAVLGIILFMLKKEMAQLQVGALYGIVSGVLFCLCN 159
                              4569******..999999999999999**************************8766655 PP

  == domain 4  score: 5.0 bits;  conditional E-value: 0.011
                              -----HHHHHHHHHHH...HHHHHH-------HHHHHHHHHHHHHHHHHHHHH--------HHHHHH CS
           Multi_Drug_Res  29 ltpsllvivgygisfl...lLskalkslpvsvAYavwsGiGtvlivlvgillfgeslslkkliglal 92 
                              +t+s +++  ++ sfl   ++  ++k++p   A  ++  i  v+ +l+g+ +f  sls  ++igl++
  PHY93_13415|PHY93_13415 205 KTLSCIFLGSFLGSFLgllFFYASIKTIPFYKA-NLYRSISPVASLLCGFFFFPVSLSFINVIGLII 270
                              567777887777777611155556666666666.69****************************986 PP

>> Sugar_transport  Sugar transport protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   9.1   9.9e-06     0.036     166     273 ..      24     134 ..       1     139 [. 0.81
   2 ?    3.5   2.3      0.01        37     185     244 ..     126     186 ..     121     196 .. 0.73

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 9.9e-06
          Sugar_transport 166 aqlvkvdgleailpqaiGmvivalilalakkkalvekvslkniisGllwaignlflllsaqkvGvatafslsqlsvvistlggill 251
                              + l++++ +++++  a+  ++ ++ + ++k  +++ k+    +++Gll +i+ +fl++  +k   a   +l    +++s+l g ++
  PHY93_13415|PHY93_13415  24 FALINISPFTLVFYNALLCCVFTIPFIYKKLFKVSIKEIKFLLLAGLLNGISMFFLFYGLSKSSPALVSMLNRSYIIFSILIGAII 109
                              346799********************999988999*************************************************** PP

          Sugar_transport 252 Lkekktkkelvlv...iiGivlilv 273
                              Lke+  + ++ l+   + Gi+l+++
  PHY93_13415|PHY93_13415 110 LKEQVARIDWGLIvfaVLGIILFML 134
                              *****99997555111568888775 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.01
          Sugar_transport 185 vivalilalakkkalvekvslkniisGllwaignlflllsaq.kvGvatafslsqlsvvis 244
                              v++ ++++l+k+ a+ +  +l  i+sG+l+ + nl++ +  + +    t fs+  +s +i 
  PHY93_13415|PHY93_13415 126 VLGIILFMLKKEMAQLQVGALYGIVSGVLFCLCNLTIKIKLNkTCEYLTLFSINFTSAIIF 186
                              4555666777766888888899999999999999998776552566777888888887775 PP

>> SK_channel  Calcium-activated SK potassium channel
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.1       1.3   4.8e+03      43      43 ..      28      28 ..       2      69 .. 0.53
   2 ?   10.6   3.7   0.00012      0.41       9      67 ..     110     189 ..     106     199 .. 0.67

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 1.3
               SK_channel 43 e 43
                             +
  PHY93_13415|PHY93_13415 28 N 28
                             2 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 0.00012
               SK_channel   9 lekrkrltdfaL.vlalfGivlmvvetEllalavtekl....................sivslalkvlislsTviLLvli 67 
                              l+++   +d+ L v+a++Gi+l +++ E++ l+v                        +++ ++    i ++++i+++li
  PHY93_13415|PHY93_13415 110 LKEQVARIDWGLiVFAVLGIILFMLKKEMAQLQVGALYgivsgvlfclcnltikiklnKTCEYLTLFSINFTSAIIFFLI 189
                              566677778876369***************99988877455555555555555555554444444555555555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (425 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1131  (0.0630822); expected 358.6 (0.02)
Passed bias filter:                      484  (0.0269954); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.68u 0.32s 00:00:01.00 Elapsed: 00:00:00.49
# Mc/sec: 2597.82
//
Query:       PHY93_13420|PHY93_13420  [L=247]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.5e-22   77.8   0.0    1.6e-21   76.7   0.0    1.6  2  Methyltransf_11  Methyltransferase domain
    1.1e-20   74.1   0.0    2.4e-20   73.0   0.0    1.6  1  Methyltransf_25  Methyltransferase domain
    2.5e-18   66.5   0.0    3.3e-18   66.1   0.0    1.1  1  Methyltransf_23  Methyltransferase domain
    5.7e-18   65.2   0.0    6.9e-18   64.9   0.0    1.2  1  Methyltransf_31  Methyltransferase domain
    8.3e-14   52.1   0.0    1.4e-13   51.4   0.0    1.4  1  Methyltransf_12  Methyltransferase domain
    2.4e-10   40.2   0.0    2.7e-10   40.0   0.0    1.2  1  CMAS             Mycolic acid cyclopropane synthetase
    4.9e-09   36.1   0.0    7.6e-09   35.4   0.0    1.2  1  MetW             Methionine biosynthesis protein MetW
      8e-08   31.6   0.0    1.2e-07   31.0   0.0    1.1  1  Methyltransf_9   Protein of unknown function (DUF1698)
    1.9e-07   30.7   0.0    2.7e-07   30.2   0.0    1.2  1  Ubie_methyltran  ubiE/COQ5 methyltransferase family
     0.0001   21.9   0.0    0.00017   21.2   0.0    1.4  1  MTS              Methyltransferase small domain
      0.009   15.7   0.0      0.013   15.2   0.0    1.3  1  TPMT             Thiopurine S-methyltransferase (TPMT)
  ------ inclusion threshold ------
       0.01   15.2   0.0      0.027   13.9   0.0    1.7  2  PrmA             Ribosomal protein L11 methyltransferase (Prm
       0.16   12.0   0.0       0.22   11.5   0.0    1.2  1  Methyltransf_32  Methyltransferase domain
       0.19   11.7   0.0       0.36   10.7   0.0    1.4  1  Methyltransf_18  Methyltransferase domain


Domain annotation for each model (and alignments):
>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       7.1   9.1e+03      53      67 ..       2      16 ..       1      19 [. 0.84
   2 !   76.7   0.0   1.3e-24   1.6e-21       1      96 []      55     151 ..      55     151 .. 0.97

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 7.1
                             CCTSS-TT-EEEEEE CS
          Methyltransf_11 53 eklpfednsfDlvvs 67
                             +kl+f++ + Dlv+ 
  PHY93_13420|PHY93_13420  2 QKLNFQEVTWDLVWK 16
                             7899999999*9985 PP

  == domain 2  score: 76.7 bits;  conditional E-value: 1.3e-24
                              EEET-TTSHHHHHHHHTT.SEEEEEES-HHHHHHHHHHCCHHT-EEEETTEECCCTSS-TT-EEEEEEES-CCC-CCHHHHHHHHH CS
          Methyltransf_11   1 LdvGcGtGrlaealakrg.arvvgvDlskemlklakekaseeglkvefvvadaeklpfednsfDlvvssevlhhvedpekalkeia 85 
                              Ld+GcG G+++ al+k++  ++vg D+s+e+l  a +++ ++gl++e ++ad ++lpfe+ns+D ++s  v++h+ +peka++e+a
  PHY93_13420|PHY93_13420  55 LDAGCGDGSILFALKKHFdISLVGADFSEEALINAAKNSIRKGLTLESHKADTRDLPFENNSIDKIFSLGVVEHLSNPEKAVAELA 140
                              8*******************************999999999999999*************************************** PP

                              HHEEEEEEEEE CS
          Methyltransf_11  86 RvLkpgGllvi 96 
                              R+L p+G+l++
  PHY93_13420|PHY93_13420 141 RCLSPDGVLIL 151
                              ********985 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.0   0.0   1.9e-23   2.4e-20       1      97 []      54     147 ..      54     147 .. 0.96

  Alignments for each domain:
  == domain 1  score: 73.0 bits;  conditional E-value: 1.9e-23
                              EEEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTTTEEEEESBCCGBSSSTTTEEEEEEESTGGGSSHHHHHHHH CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeeglnvefvqgdaedlpfedgsfDlvvssgalhhlsdedlekal 86 
                              vLd+GcG G +++al k++ + +++g D+see+l +a+++  ++gl +e +++d +dlpfe++s+D ++s g+++hls+++  ka+
  PHY93_13420|PHY93_13420  54 VLDAGCGDGSILFALKKHF-DISLVGADFSEEALINAAKNSIRKGLTLESHKADTRDLPFENNSIDKIFSLGVVEHLSNPE--KAV 136
                              9*****************9.7*************999999999***************************988****9765..9** PP

                              HHHHHHEEEEE CS
          Methyltransf_25  87 keiarvLkpgG 97 
                              +e+ar+L p+G
  PHY93_13420|PHY93_13420 137 AELARCLSPDG 147
                              *********99 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.1   0.0   2.6e-21   3.3e-18       7     160 ..      32     195 ..      26     200 .. 0.84

  Alignments for each domain:
  == domain 1  score: 66.1 bits;  conditional E-value: 2.6e-21
          Methyltransf_23   7 eelsdklerllpk...lraggrvLdiGcGtGillevlrengf.svtgvDlspeaveiae.....kakkaqkdqfdeqeaaepqgkf 83 
                              e+++dk+  + +     r+g rvLd GcG+G+ l  l++++  s++g D s+ea   a+     k  + +++++d  + +++++++
  PHY93_13420|PHY93_13420  32 ERADDKVGYFIQSglmFRPGERVLDAGCGDGSILFALKKHFDiSLVGADFSEEALINAAknsirKGLTLESHKADTRDLPFENNSI 117
                              555555555554444468899**********888888777656********98765555799999999999999999********* PP

          Methyltransf_23  84 dlIvlrevlehvpdppellrqiatllkpgGylllseplasl..kedrllldwlylvpagrhisffsarslkelleeaGl 160
                              d I +  v eh+ +p+++++ +a++l+p+G+l+l++p++ +    drl+++ l + +  +h   fs ++l+ +  ++Gl
  PHY93_13420|PHY93_13420 118 DKIFSLGVVEHLSNPEKAVAELARCLSPDGVLILMTPNKFSfgRIDRLIKSFLGIWKF-GHQDEFSTEELAAMILQSGL 195
                              **************************************98855488888888888888.9*************999998 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.9   0.0   5.4e-21   6.9e-18       4     114 ..      51     161 ..      48     211 .. 0.88

  Alignments for each domain:
  == domain 1  score: 64.9 bits;  conditional E-value: 5.4e-21
          Methyltransf_31   4 glrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielArenaqklgldnveFeqgdieeleklledekfDlilsnevlnalad 89 
                              g rvlD+GCG G ++f+l +   +++ +vG D+seea+  A +n+ ++gl+ +e +++d  +l+  +e +++D i+s +v+ +l++
  PHY93_13420|PHY93_13420  51 GERVLDAGCGDGSILFALKK--HFDISLVGADFSEEALINAAKNSIRKGLT-LESHKADTRDLP--FENNSIDKIFSLGVVEHLSN 131
                              789****************4..469*************************8.************..******************** PP

          Methyltransf_31  90 pdkileeiervlkpggilliedpr.....l 114
                              p+k+  e+ r l+p+g+l++ +p+      
  PHY93_13420|PHY93_13420 132 PEKAVAELARCLSPDGVLILMTPNkfsfgR 161
                              ********************9999555551 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.4   0.0   1.1e-16   1.4e-13       1      99 []      55     149 ..      55     149 .. 0.90

  Alignments for each domain:
  == domain 1  score: 51.4 bits;  conditional E-value: 1.1e-16
          Methyltransf_12   1 LeiGcGtGsllralleklpdieytgvDispsaiedakeklakrennnnnnvelealdlldldggssfDlvvasnvlhhlkdirevl 86 
                              L+ GcG+Gs+l+al ++  di+++g D+s++a+   ++k + r+++  +  + +++dl   ++++s D +++++v++hl ++++++
  PHY93_13420|PHY93_13420  55 LDAGCGDGSILFALKKH-FDISLVGADFSEEAL-INAAKNSIRKGLTLESHKADTRDLP--FENNSIDKIFSLGVVEHLSNPEKAV 136
                              89************999.8**************.8888888888888888888888876..4457********************* PP

          Methyltransf_12  87 dnirklLkpgGrl 99 
                              ++++++L+p+G+l
  PHY93_13420|PHY93_13420 137 AELARCLSPDGVL 149
                              ***********97 PP

>> CMAS  Mycolic acid cyclopropane synthetase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.0   0.0   2.1e-13   2.7e-10      56     166 ..      44     153 ..      20     208 .. 0.84

  Alignments for each domain:
  == domain 1  score: 40.0 bits;  conditional E-value: 2.1e-13
                              TTTT--TT-EEEEES-TTSHHHHHHHHHH--EEEEEES-HHHH.HHHHHHHHTS-SSS-EEEEES-GGG-----SEEEEES-GGGT CS
                     CMAS  56 eklelkpGmtlLdiGcGWGslvrraverydvkvvglTlSkeqa.klakkrvdeldlerkvevklldyedldekvdrvvsvgafehv 140
                                l  +pG+++Ld GcG Gs++    +++d++ vg  +S+e   + ak+++ +  + ++++ +  d    ++ +d++ s+g++eh+
  PHY93_13420|PHY93_13420  44 SGLMFRPGERVLDAGCGDGSILFALKKHFDISLVGADFSEEALiNAAKNSIRKGLTLESHKADTRDLPFENNSIDKIFSLGVVEHL 129
                              458899***********************************8626677778887778888888888776677*************9 PP

                              SGGGHHHHHHHHHHHS-TT-EEEEEE CS
                     CMAS 141 gkenydtffkklkkllkedGllllht 166
                                 n ++ +++l + l +dG+l+l t
  PHY93_13420|PHY93_13420 130 S--NPEKAVAELARCLSPDGVLILMT 153
                              6..56778999**********99877 PP

>> MetW  Methionine biosynthesis protein MetW
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.4   0.0   5.9e-12   7.6e-09      10     101 ..      47     142 ..      41     165 .. 0.87

  Alignments for each domain:
  == domain 1  score: 35.4 bits;  conditional E-value: 5.9e-12
                     MetW  10 likpgsrvldlGcGdGellellkeekqvdgrGleldeegva....ecvakGlsviqgdldkdlenfedksfdyvvlsqtlqatrnp 91 
                              + +pg rvld GcGdG++l  lk++ +++  G + +ee++     +++ kGl++    +d+    fe++s d +     +  + np
  PHY93_13420|PHY93_13420  47 MFRPGERVLDAGCGDGSILFALKKHFDISLVGADFSEEALInaakNSIRKGLTLESHKADTRDLPFENNSIDKIFSLGVVEHLSNP 132
                              6789*******************************99886511114689***********99999********9999999999*** PP

                     MetW  92 kevldellri 101
                              ++ + el r 
  PHY93_13420|PHY93_13420 133 EKAVAELARC 142
                              9999999885 PP

>> Methyltransf_9  Protein of unknown function (DUF1698)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.0   0.0   9.1e-11   1.2e-07      97     219 ..      28     153 ..      25     155 .. 0.82

  Alignments for each domain:
  == domain 1  score: 31.0 bits;  conditional E-value: 9.1e-11
                              SEEHHHHHHHHGGGS.-.-T...T-EEEEET-TTSHHHHHHHHCT-SEEEEE---HHHHHHH..HHHHCCTTTTSSEEEE---GGG CS
           Methyltransf_9  97 eWrsdwkWdrvlphlsd.lk...grtildvGcgnGyhlwrmvgegaklvvGidPselfliqf..eavrkllgedqrahllplgieq 176
                              eWr ++  d+v   +   l    g ++ld Gcg+G  l+ +  +   + vG d se  li    +++rk l+ + ++        +
  PHY93_13420|PHY93_13420  28 EWRDERADDKVGYFIQSgLMfrpGERVLDAGCGDGSILFALKKHFDISLVGADFSEEALINAakNSIRKGLTLESHKA----DTRD 109
                              89999999999888753243223789******************99*********99988642256777665544444....4578 PP

                              S-T.---EEEEEEES-GGG-S-HHHHHHHHHCTEEEEEEEEEEE CS
           Methyltransf_9 177 lpe.leafdtvfsmGvlyhrrsPldhllqlkdqlvkgGelvlet 219
                              lp   ++ d +fs+Gv+ h + P   + +l  +l  +G l+l t
  PHY93_13420|PHY93_13420 110 LPFeNNSIDKIFSLGVVEHLSNPEKAVAELARCLSPDGVLILMT 153
                              887689***********************************976 PP

>> Ubie_methyltran  ubiE/COQ5 methyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.2   0.0   2.1e-10   2.7e-07      41     153 ..      44     153 ..      29     170 .. 0.86

  Alignments for each domain:
  == domain 1  score: 30.2 bits;  conditional E-value: 2.1e-10
                              HH--S--TTEEEEES-TT-HHHHHHHHHHHHHHEEEEEES-HHHHHHHHHHHHHHTSSTEEEEE--TTT-TTS-T-EEEEEEES-G CS
          Ubie_methyltran  41 klvavkrgakvlDvagGtgDlafklsdsvgekgkvvvlDinenmLkvgekklkeegkinieflqanaeeLpfeddsfDvvtvsfGl 126
                                   ++g++vlD  +G g + f+l ++ +    +v++D++e+ L  + k   ++g   +e  +a++ +Lpfe++s D +  s G+
  PHY93_13420|PHY93_13420  44 SGLMFRPGERVLDAGCGDGSILFALKKHFDI--SLVGADFSEEALINAAKNSIRKGL-TLESHKADTRDLPFENNSIDKI-FSLGV 125
                              55567899*******************9875..689*********999999999986.68999***************98.57886 PP

                              .GG-S-HHHHHHHHHHHEEEEEEEEEEE CS
          Ubie_methyltran 127 .rnvtDklkaLkeayrvlkpGGrlvvle 153
                                 +++ +ka+ e+ r l p G l+ + 
  PHY93_13420|PHY93_13420 126 vEHLSNPEKAVAELARCLSPDGVLILMT 153
                              2678999***************998775 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.2   0.0   1.3e-07   0.00017      31     143 ..      50     157 ..      36     181 .. 0.81

  Alignments for each domain:
  == domain 1  score: 21.2 bits;  conditional E-value: 1.3e-07
                              TCSEEEEET-TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHTTGCEEEEE-STTT.TSTTS-EEEEEE---STTTCHCHH CS
                      MTS  31 lsgkvlDlGcGaGvlgaalakespeaevtlvdvdarAlesakenleanklevevvasdvle.eveekkfdlivsNPPfhagkatel 115
                                ++vlD GcG G +  al+k + +++++  d + +Al  a +n  +++l +e ++ d  +  +e++++d i     f  g  ++l
  PHY93_13420|PHY93_13420  50 PGERVLDAGCGDGSILFALKK-HFDISLVGADFSEEALINAAKNSIRKGLTLESHKADTRDlPFENNSIDKI-----FSLGVVEHL 129
                              5679***********888877.55679***************************999998735678999999.....556776677 PP

                              HHHHHHHHHHHHHEEEEEEEEEEEETTS CS
                      MTS 116 avaeeliaeAkeaLkegGeLliVanrkl 143
                              +  e+ +ae +++L+++G L++ + +k 
  PHY93_13420|PHY93_13420 130 SNPEKAVAELARCLSPDGVLILMTPNKF 157
                              7778888888888888888887776655 PP

>> TPMT  Thiopurine S-methyltransferase (TPMT)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0   9.8e-06     0.013       6      78 ..      11      92 ..       6     127 .. 0.79

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 9.8e-06
                             HHHHHHTT-.......-TT--SS--HHHHHHHHT..T-S--EEEEEET-TT-HHHHHH-BT.TEEEEEE-S-HHHHHHHHHH CS
                     TPMT  6 Wekrweeeq.......ipfhqeevnpllkkflda.lkakaglrvlvPlCGkaldlvwlAeq.grevvGvelselAvekffee 78
                             W+  w+++q        ++  e++   +  f+++ l   +g+rvl  +CG +  l +l ++ + ++vG ++se A+ +++++
  PHY93_13420|PHY93_13420 11 WDLVWKNDQekssyslNEWRDERADDKVGYFIQSgLMFRPGERVLDAGCGDGSILFALKKHfDISLVGADFSEEALINAAKN 92
                             5555655552222222469999999999*****99***********************8874779**********9887654 PP

>> PrmA  Ribosomal protein L11 methyltransferase (PrmA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   2.1e-05     0.027     159     230 ..      48     120 ..      39     152 .. 0.73
   2 ?   -1.9   0.0       1.4   1.8e+03     254     272 ..     188     206 ..     182     218 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 2.1e-05
                     PrmA 159 vkegeevlDvGtGSGiLaiaaakLgakkvvavDiDevAvkvakeNaelNkveaklevalseell.keekadvi 230
                               ++ge+vlD G+G G +  a +k    + v+ D  e A+  a++N  + +++ + + a +++l+ +++++d i
  PHY93_13420|PHY93_13420  48 FRPGERVLDAGCGDGSILFALKKHFDISLVGADFSEEALINAAKNSIRKGLTLESHKADTRDLPfENNSIDKI 120
                              5899***********999********************98888887766665544433445554334555555 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 1.4
                     PrmA 254 gllilSGilkekaeevaea 272
                              ++++ SG++ +k+e v+++
  PHY93_13420|PHY93_13420 188 AMILQSGLIIQKTEVVKRK 206
                              5678899999999999875 PP

>> Methyltransf_32  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00017      0.22      26      73 ..      51      95 ..      38     138 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00017
          Methyltransf_32 26 altvvDvGaGkgYLsfvlalkekeyklkvvgidakeelvekaekraek 73
                              ++v+D+G+G g   f+l+    ++ +++vg d +ee   +a k   +
  PHY93_13420|PHY93_13420 51 GERVLDAGCGDGSILFALKK---HFDISLVGADFSEEALINAAKNSIR 95
                             5789****************...99*********99987777665444 PP

>> Methyltransf_18  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   0.00028      0.36      11      64 ..      47      99 ..      44     125 .. 0.83

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00028
          Methyltransf_18 11 lvekgsrvaDiGtDHgylpiylvkegkakkviasDinegplekakeniekagle 64
                             + ++g+rv+D G+  g + ++l k+  + + + +D +e++l +a +n  ++gl+
  PHY93_13420|PHY93_13420 47 MFRPGERVLDAGCGDGSILFALKKHFDI-SLVGADFSEEALINAAKNSIRKGLT 99
                             567899************9999877777.88999****9999999888777774 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (247 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       444  (0.0247643); expected 358.6 (0.02)
Passed bias filter:                      396  (0.0220871); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.58u 0.25s 00:00:00.83 Elapsed: 00:00:00.46
# Mc/sec: 1619.80
//
Query:       PHY93_13425|PHY93_13425  [L=201]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.1e-06   25.8   0.8    1.6e-05   25.0   0.8    1.4  1  Y1_Tnp    Transposase IS200 like


Domain annotation for each model (and alignments):
>> Y1_Tnp  Transposase IS200 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.0   0.8   8.9e-10   1.6e-05       3     120 ..      11     123 ..       9     124 .. 0.80

  Alignments for each domain:
  == domain 1  score: 25.0 bits;  conditional E-value: 8.9e-10
                   Y1_Tnp   3 nlkyhivlvtkyRrkv.ltge.veerlkeiikeiaekkevkilelelmpDHvHllvelppklsiskivkalkgassrlinkefpel 86 
                              nl yh++ +  +++++ l  + v e  +  ++e+ e + ++++++ lm++H Hll+ ++p+ ++ +++ +++++ + +i+  ++ +
  PHY93_13425|PHY93_13425  11 NLPYHVTSRSHNKEQFpLPIKrVWELANYSFREANEIHPINLISFVLMNNHYHLLL-YTPSGNLDRFMYEFNKRLALKIH-YESGV 94 
                              7889999999998888654444888889999***********************98.667777*****************.33333 PP

                   Y1_Tnp  87 kkkklkkeslWqrgYfvstvgea.sletvkrYIen 120
                               +      +++  +Y+ + ++++ + ++  rY+ +
  PHY93_13425|PHY93_13425  95 IN------QIFGGRYKWCLIQSQqYFSNCYRYVYQ 123
                              33......467788888888877688888888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (201 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       512  (0.0285571); expected 358.6 (0.02)
Passed bias filter:                      374  (0.0208601); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1353.69
//
Query:       PHY93_13430|PHY93_13430  [L=96]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.4e-24   86.2   0.1    1.6e-24   86.0   0.1    1.1  1  BrnT_toxin  Ribonuclease toxin, BrnT, of type II toxin-antito


Domain annotation for each model (and alignments):
>> BrnT_toxin  Ribonuclease toxin, BrnT, of type II toxin-antitoxin system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.0   0.1   8.9e-29   1.6e-24       1      78 []       5      85 ..       5      85 .. 0.93

  Alignments for each domain:
  == domain 1  score: 86.0 bits;  conditional E-value: 8.9e-29
               BrnT_toxin  1 WDeaKaasnlkkHgvsfeeaeevfedplalevedrredegEeRfiaiG.tidgrllvvvfteree..kiRiISaRkatkkE 78
                             WDe+Ka+sn++kHg  feea+ +++dpl +e  d+ ++  EeRfi iG   +  +l+vvf+e+e+   iRiISaRkat+ E
  PHY93_13430|PHY93_13430  5 WDENKAKSNFEKHGARFEEAQVIWTDPLSIEYFDPDNSFREERFIRIGlNPTRGILFVVFCEKEKleVIRIISARKATNLE 85
                             ***********************************77777********99999**********97435*********9865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (96 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       434  (0.0242066); expected 358.6 (0.02)
Passed bias filter:                      290  (0.0161749); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.42
# Mc/sec: 691.06
//
Query:       PHY93_13435|PHY93_13435  [L=70]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.9e-06   28.3   0.2      3e-06   27.7   0.2    1.4  1  CopG_antitoxin  CopG antitoxin of type II toxin-antitoxin sys
    0.00061   20.2   0.0    0.00071   20.0   0.0    1.1  1  BrnA_antitoxin  BrnA antitoxin of type II toxin-antitoxin sys
  ------ inclusion threshold ------
      0.059   13.5   0.0       0.07   13.3   0.0    1.1  1  CinA_KH         Damage-inducible protein CinA KH domain
      0.081   12.7   0.1       0.17   11.7   0.1    1.5  2  Lsm_C           Lsm C-terminal


Domain annotation for each model (and alignments):
>> CopG_antitoxin  CopG antitoxin of type II toxin-antitoxin system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.7   0.2   6.6e-10     3e-06      39      77 ..      22      60 ..       2      62 .. 0.86

  Alignments for each domain:
  == domain 1  score: 27.7 bits;  conditional E-value: 6.6e-10
           CopG_antitoxin 39 kkktksislrlpedlLealkekAnkrdvpyqslikelle 77
                             + +   isl+++++ L +lk++A++ ++pyq li+++l+
  PHY93_13435|PHY93_13435 22 EASRVMISLKIEANNLAELKSEAERLGMPYQTLINSILH 60
                             556778******************************997 PP

>> BrnA_antitoxin  BrnA antitoxin of type II toxin-antitoxin system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.0   0.0   1.6e-07   0.00071      33      70 .]      22      63 ..       2      63 .. 0.75

  Alignments for each domain:
  == domain 1  score: 20.0 bits;  conditional E-value: 1.6e-07
           BrnA_antitoxin 33 estKkkvtlRLDadVleaFkatGkg....wQtriNeaLrkya 70
                             e++   ++l++ a  l+ +k++++     +Qt iN +L +y+
  PHY93_13435|PHY93_13435 22 EASRVMISLKIEANNLAELKSEAERlgmpYQTLINSILHRYV 63
                             3455699**************88877788*********9996 PP

>> CinA_KH  Damage-inducible protein CinA KH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   1.6e-05      0.07      17      71 ..       6      63 ..       4      65 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.6e-05
                             HHGGGS-B.SSSEEEEEEETTEEEEEEE.....EEHHHHHHHHH....HHHHHTTTTE CS
                  CinA_KH 17 kladlidr.enptlAiyakegevtvRlta..kaaneeeaealiapveeeirerlgdyv 71
                              l++l +r ++ ++ + a++  +++++ a   a+ + eae+l  p++  i ++l +yv
  PHY93_13435|PHY93_13435  6 NLKELKKRpGKVKVDPEASRVMISLKIEAnnLAELKSEAERLGMPYQTLINSILHRYV 63
                             689999995555*****************4448999********************99 PP

>> Lsm_C  Lsm C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.1   3.9e-05      0.17       7      34 ..       5      32 ..       3      36 .. 0.88
   2 ?   -2.6   0.0       1.1     5e+03      51      60 ..      55      64 ..      52      65 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 3.9e-05
                             HHHHHS...TTTEEEETTTTEEEETTTE CS
                    Lsm_C  7 lvekelnlrpglVkvieeanvvvvldri 34
                             +  kel+ rpg Vkv +ea+ v+++ +i
  PHY93_13435|PHY93_13435  5 YNLKELKKRPGKVKVDPEASRVMISLKI 32
                             66799999****************9887 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 1.1
                             HHHHHHHHHH CS
                    Lsm_C 51 vyelyeeYie 60
                             ++++ ++Y++
  PHY93_13435|PHY93_13435 55 INSILHRYVN 64
                             6788888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (70 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       448  (0.0249875); expected 358.6 (0.02)
Passed bias filter:                      374  (0.0208601); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.42
# Mc/sec: 505.07
//
Query:       PHY93_13440|PHY93_13440  [L=134]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
  ------ inclusion threshold ------
      0.036   13.9   0.1       0.16   11.7   0.1    1.9  1  SmpA_OmlA  SmpA / OmlA family
      0.053   13.5   0.0       0.12   12.3   0.0    1.6  1  Mdv1       Mitochondrial division protein 1


Domain annotation for each model (and alignments):
>> SmpA_OmlA  SmpA / OmlA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.1   1.8e-05      0.16      15      69 ..      41     128 ..      34     130 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 1.8e-05
                              T.-BHHHHHHHH-S-SEE..-SSSSSEEEEEEEETTE...................................EEEEEEEE-TTSBE CS
                SmpA_OmlA  15 G.mtkeqVryllGsPslt..dtfdpnrwdYvynfkrggka..............................veqqvlavyFdddglv 67 
                              G  t++q  ++ G P ++  d  +++ w Y  ++ ++ +                               +++++l +yFd+++++
  PHY93_13440|PHY93_13440  41 GkTTQAQLMETFGAPDMVteDGSKEDIWAYNQRKSESSNSsissgmlaflpiaplaafdiggslgkresgTKSTTLMLYFDKKKVL 126
                              778999*********988788899999999999999866688888999999999999999999999999999************99 PP

                              EE CS
                SmpA_OmlA  68 rs 69 
                              ++
  PHY93_13440|PHY93_13440 127 KN 128
                              87 PP

>> Mdv1  Mitochondrial division protein 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   1.4e-05      0.12       6      41 ..      58      97 ..      55      99 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 1.4e-05
                             XXXXXXXX.....XXXXXXXXX---HHHHHHHHHHHHCCCG CS
                     Mdv1  6 LtErGvnE.....nlRknaskkEssLFqGFksYLPiAELAi 41
                             +tE G  E     n Rk  s  +ss+  G  ++LPiA LA 
  PHY93_13440|PHY93_13440 58 VTEDGSKEdiwayNQRKSESS-NSSISSGMLAFLPIAPLAA 97
                             688888874444466776664.5899*************95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (134 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       337  (0.0187964); expected 358.6 (0.02)
Passed bias filter:                      249  (0.0138881); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.25s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 899.37
//
Query:       PHY93_13445|PHY93_13445  [L=102]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (102 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       255  (0.0142228); expected 358.6 (0.02)
Passed bias filter:                      217  (0.0121033); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 695.97
//
Query:       PHY93_21225|PHY93_21225  [L=339]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-84  284.6   0.0    1.3e-84  284.5   0.0    1.0  1  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
    4.7e-62  209.6   0.0    6.2e-62  209.2   0.0    1.1  1  Epimerase        NAD dependent epimerase/dehydratase family
      1e-14   54.3   0.0    1.9e-14   53.5   0.0    1.4  1  RmlD_sub_bind    RmlD substrate binding domain
      1e-11   44.5   0.0    1.7e-11   43.8   0.0    1.3  1  Polysacc_synt_2  Polysaccharide biosynthesis protein
    3.3e-11   42.7   0.0      6e-11   41.9   0.0    1.4  1  3Beta_HSD        3-beta hydroxysteroid dehydrogenase/isomeras
    9.2e-09   34.8   0.0    1.8e-06   27.3   0.0    2.4  2  NAD_binding_4    Male sterility protein
      2e-08   33.9   0.0    3.6e-05   23.3   0.0    2.1  2  adh_short        short chain dehydrogenase
  ------ inclusion threshold ------
      0.023   14.2   0.0      0.035   13.7   0.0    1.3  1  NmrA             NmrA-like family
      0.036   14.3   0.0      0.061   13.6   0.0    1.4  1  Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding doma


Domain annotation for each model (and alignments):
>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  284.5   0.0   6.5e-88   1.3e-84       1     330 [.       4     320 ..       4     322 .. 0.89

  Alignments for each domain:
  == domain 1  score: 284.5 bits;  conditional E-value: 6.5e-88
                              EEETTTSHHHHHHHHHHHHCT-CCEEEEEEESS-TTHHHHHCTTT...TTGCCEEEEE--TT-HHHHHHHHHHHT-SEEEE--S-- CS
            GDP_Man_Dehyd   1 LiTGiaGfiGsylaelLlekgyevhgivrrsssfntgriehlakdpkeeleenlklhkgDltDssslerllaevqpdevynLAAqs 86 
                              L TG aGfiGs +++l l++g +v+ +++++++ ++++++++        ++n+ + kg +tD++ + +ll+++++d v+n+AA+s
  PHY93_21225|PHY93_21225   4 LLTGAAGFIGSAFTRLALKNGNKVIALDKLTYAGHLENLNNIS-------DKNFIFQKGCITDEHLVSQLLSKHEIDYVVNMAAES 82 
                              78**********************9987766666655555554.......469********************************* PP

                              -HHHHTTSHHHHHHHHTHHHHHHHHHHHHC......T..TTSEEEEEEEGGGG-S-S.SSSB-TTS-----SHHHHHHHHHHHHHH CS
            GDP_Man_Dehyd  87 hVdvsfekPeytaevnvlGtlrLLeairal......glekkvrfyqaStsEvYGkvq.evpqtEttpfyPrsPYaaaKlyadwivv 165
                              hVd+s+++P++++++n++Gt++LL++  ++        + ++r++q+St+Ev+G++  e +++E+ p++P+sPY+a+K++ d++v+
  PHY93_21225|PHY93_21225  83 HVDNSISSPKEFIDTNIIGTYNLLNCSLQYyktlseTKKLNFRYLQISTDEVFGTLGeEGKFNEDYPYQPNSPYSASKASGDHLVR 168
                              *************************9988854333212247***************73667************************* PP

                              HHHHHH---EEEEEE-EEESTTS-TTSCCCHHHHHHHHHHTTS-C-EECTTTT-EEEEEEHHHHHHHHHHHHHCSS---EEE-TT- CS
            GDP_Man_Dehyd 166 nyreayglfavngilfnhesprrgetfvtrkitravarialgkqevlylGnldakRdwghvkDyveamwlmlqqdkpedyviatge 251
                              ++ ++y+l++++++++n+++pr+   f++++i+++++r+++ +++++++Gn++++Rdw +v+D++ ++ l+l +++p       ge
  PHY93_21225|PHY93_21225 169 AWFHTYKLPTIITNCSNNYGPRQ---FPEKLIPTVIMRALQ-LKSIPVYGNGYNIRDWIYVEDHCAGVYLALTKGTP-------GE 243
                              **********************6...************877.569999***************************97.......9* PP

                              EEECHHCHHCCHHCCCHHHHHH............TTGGCCCEECGG--SS--SB--B-THHHHHHH----SS.-HHHHHH CS
            GDP_Man_Dehyd 252 thsvrefvelaflelgktiewegkgeeevgrakesgkvvvevdpkyfrpgevdlllgdaskakeeLgWkpkv.sfeelvr 330
                              ++  ++++e++++e++k+i+   +        + +++ +  ++++++r g++ ++++d ska++eL++k ++ sf+++++
  PHY93_21225|PHY93_21225 244 SYCFGGHNEISNIEVVKKICTYLD---TARPLEGKKSYHELIEFVTDRLGHDWRYAIDDSKAQKELNYKRQFsSFDDGLA 320
                              ********************9864...44455667778899****************************99525777765 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  209.2   0.0   3.1e-65   6.2e-62       1     238 [.       3     245 ..       3     251 .. 0.94

  Alignments for each domain:
  == domain 1  score: 209.2 bits;  conditional E-value: 3.1e-65
                              EEEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHC.....EEEE--TT-HHHHHHHHHHHT-SEEEE--S---HHHHH CS
                Epimerase   1 ilVtGatGfiGsalvkallekgyevigldrlssasntarledl.....elveldltdrsalerlfkeeqpdavihlAavggvaass 81 
                              il+tGa+GfiGsa+++  l++g +vi+ld+l++a++ ++l+++      + ++ +td+  + +l++++++d+v+++Aa+++v++s+
  PHY93_21225|PHY93_21225   3 ILLTGAAGFIGSAFTRLALKNGNKVIALDKLTYAGHLENLNNIsdknfIFQKGCITDEHLVSQLLSKHEIDYVVNMAAESHVDNSI 88 
                              89***************************************99******************************************* PP

                              HSHHHHHHHHTHHHHHHHHHHH..........HHTCTEEEEEEEGGGGTSCSSS.SBSTCSTTS----SSHHHHHHHHHHHHHHHH CS
                Epimerase  82 edpadfieknlqgtlnlleaar..........kagvkrllflsSsevYGkdaeq.pkeettltgplkpnspYaaaKlageklveay 156
                              ++p++fi++n++gt+nll+++           k +  r+l++s++ev+G   e    +e+    p++pnspY+a+K+ g++lv+a+
  PHY93_21225|PHY93_21225  89 SSPKEFIDTNIIGTYNLLNCSLqyyktlsetkKLNF-RYLQISTDEVFGTLGEEgKFNEDY---PYQPNSPYSASKASGDHLVRAW 170
                              **********************77777766544455.****************42366666...********************** PP

                              HHHHT-EEEEEEESEEESTTS-TTSTTSHHHHHHHHHHTTSSSEEEETTST-EEEEEEHHHHHHHHHHHHHHHTT-STTEEE CS
                Epimerase 157 aaqyglnaiilrlfnlyGprngegevsrvipalirkilegkqevtllgdgtalRdflyveDvaeaillvlehvdagdkgeiy 238
                               ++y+l++ii++++n+yGpr   ++++++ip +i ++l+ k ++ ++g+g + Rd++yveD++ +++l+l++   g +ge y
  PHY93_21225|PHY93_21225 171 FHTYKLPTIITNCSNNYGPR---QFPEKLIPTVIMRALQLK-SIPVYGNGYNIRDWIYVEDHCAGVYLALTK---GTPGESY 245
                              ********************...9*****************.******************************...7666666 PP

>> RmlD_sub_bind  RmlD substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.5   0.0   9.4e-18   1.9e-14       2     140 ..       2     171 ..       1     191 [. 0.89

  Alignments for each domain:
  == domain 1  score: 53.5 bits;  conditional E-value: 9.4e-18
                              EEEEESTTSHHHHHHHHHCTTTSEEEEEE-TT....................T--TTSHHHHHHHHHHH--SEEEE------HHHH CS
            RmlD_sub_bind   2 kilvtGanGqlGseLakqlaeeglevlaltre....................eldltdaeavaellkeakpdvvvnaAAytavDka 67 
                              +il+tGa G +Gs+ ++++ ++g +v+al++                     +  +td++ v +ll++++ d vvn+AA   vD+ 
  PHY93_21225|PHY93_21225   2 NILLTGAAGFIGSAFTRLALKNGNKVIALDKLtyaghlenlnnisdknfifqKGCITDEHLVSQLLSKHEIDYVVNMAAESHVDNS 87 
                              69***************************9989******************9999******************************* PP

                              HHSHHHHHHHHTHHHHHHHH..........HHHHCT-EEEEEEEGGGS-S-.TTS-B-TTS----SSHHHHHHHHHHHHHHHH- CS
            RmlD_sub_bind  68 EseeeaayavnaeavealAe..........aaaavgalLihvStDyVFdGe.kkrpYeeddetsPlnvYGrtKlaGEqavlaag 140
                               s +++    n  ++ +l +          ++++ +   +++StD VF    ++ +++ed + +P + Y ++K+ G + v+a  
  PHY93_21225|PHY93_21225  88 ISSPKEFIDTNIIGTYNLLNcslqyyktlsETKKLNFRYLQISTDEVFGTLgEEGKFNEDYPYQPNSPYSASKASGDHLVRAWF 171
                              ***************999752222222222578889999*********98744556************************9854 PP

>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.8   0.0   8.5e-15   1.7e-11       1     118 [.       3     112 ..       3     132 .. 0.84

  Alignments for each domain:
  == domain 1  score: 43.8 bits;  conditional E-value: 8.5e-15
                              EEEETTTSHHHHHHHHHHHHHB-SEEEEEES-HHHHHHHHHH......-TTEEEE....E--TT-HHHHHHHTT..T-SEEEE--- CS
          Polysacc_synt_2   1 vlvtGagGsiGselvrqilkkkpkkiillerdElklyeiekeleeelkkkklkveivpvigdvrdkerlekaleelkvdvvfhaAA 86 
                              +l+tGa+G iGs+++r  lk+  k +i l++  +   + + e+ +++++k++ ++     g ++d++ ++++l+++++d+v++ AA
  PHY93_21225|PHY93_21225   3 ILLTGAAGFIGSAFTRLALKNGNK-VIALDKLTY---AGHLENLNNISDKNFIFQ----KGCITDEHLVSQLLSKHEIDYVVNMAA 80 
                              799************998887765.555565443...333343445666666555....799************************ PP

                              ---HHHHHHSHHHHHHHHHHHHHHHHHHHHHT CS
          Polysacc_synt_2  87 lKhVPlveenpleaiktNvlgtenvieaaiea 118
                                hV    + p e i+tN++gt n++++++++
  PHY93_21225|PHY93_21225  81 ESHVDNSISSPKEFIDTNIIGTYNLLNCSLQY 112
                              ***************************99875 PP

>> 3Beta_HSD  3-beta hydroxysteroid dehydrogenase/isomerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.9   0.0     3e-14     6e-11       2     221 ..       5     228 ..       4     238 .. 0.81

  Alignments for each domain:
  == domain 1  score: 41.9 bits;  conditional E-value: 3e-14
                3Beta_HSD   2 vtGgaGFlGralvkeLvrleelkevrvlDlrespelleelskvnvkk..viegDvtdkdkleeale..gvdvvihlaslvdvag.k 82 
                              +tG+aGF+G+a  +  ++ ++  +v +lD+ +    le+l+++  k+  + +g +td++ +++ l   ++d v+ +a+ + v +  
  PHY93_21225|PHY93_21225   5 LTGAAGFIGSAFTRLALKNGN--KVIALDKLTYAGHLENLNNISDKNfiFQKGCITDEHLVSQLLSkhEIDYVVNMAAESHVDNsI 88 
                              79************9999996..999***99999999*****9999988889***********986237899**********9856 PP

                3Beta_HSD  83 ltedeimkvnvkGTrnvleacvk.....agvrvlvY....tSsaevvgpnslgeeilngdEeleyeslhqdaypesKalaEklvlk 159
                               + +e+ + n+ GT n+l+  ++     ++ ++l +     S+ ev g   lgee   g+ ++ y+ +++++y+ sKa  ++lv +
  PHY93_21225|PHY93_21225  89 SSPKEFIDTNIIGTYNLLNCSLQyyktlSETKKLNFrylqISTDEVFGT--LGEE---GKFNEDYPYQPNSPYSASKASGDHLVRA 169
                              67899*************9987744333466666552232455555555..5554...556667777899**************98 PP

                3Beta_HSD 160 aNgrtlknggrlyTcaLRpagiyGegd...kllvpllkqlaklglalfkigdeevlsdrvYvgNv 221
                                        +l T+    +  yG+++   kl+ +++ ++++l+ ++  +g+  ++ d++Yv+  
  PHY93_21225|PHY93_21225 170 WFH-----TYKLPTIITNCSNNYGPRQfpeKLIPTVIMRALQLK-SIPVYGNGYNIRDWIYVEDH 228
                              777.....558999999999*****9544377888899999999.9****************975 PP

>> NAD_binding_4  Male sterility protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.0   0.0    0.0057        11       1      26 [.       5      28 ..       5      54 .. 0.84
   2 !   27.3   0.0     9e-10   1.8e-06      85     205 ..      69     185 ..      59     212 .. 0.80

  Alignments for each domain:
  == domain 1  score: 5.0 bits;  conditional E-value: 0.0057
                             EE-TTSHHHHHHHHHHHHHS-.TEEE CS
            NAD_binding_4  1 lTGaTGFLGkvLlekLLrttpevkiy 26
                             lTGa GF+G+ + +  L++ +  k++
  PHY93_21225|PHY93_21225  5 LTGAAGFIGSAFTRLALKNGN--KVI 28
                             8*********99998888776..455 PP

  == domain 2  score: 27.3 bits;  conditional E-value: 9e-10
                              HHH--EEEE--SS-S.STTSSE...EHHHHHHHHHHHHHHHT.......SSS--..-EEEEEEGGGTTS-TTT--SSS-H...... CS
            NAD_binding_4  85 aeevdviihsaAtvnfdepyke...llrvNveGtrevlelak.......klkkl.kvllhvSTayvngeregeveekvyeegekee 159
                               +e+d ++++aA  ++d++++    ++++N+ Gt ++l+ +        ++kkl   +l++ST  v g+  +              
  PHY93_21225|PHY93_21225  69 KHEIDYVVNMAAESHVDNSISSpkeFIDTNIIGTYNLLNCSLqyyktlsETKKLnFRYLQISTDEVFGTLGE-------------- 140
                              469**************9776444499************999667666533333356677888444444442.............. PP

                              HHH--EEEETTTCCCHHHHHHHHHHHHHHHHHHHH---EEEEEE-E CS
            NAD_binding_4 160 kldederaklkglpntYeqsKalaEklvrearrrsglpvvivRpsi 205
                               + + +++   + +  Y+ sKa +++lvr++++  +lp++i  +s+
  PHY93_21225|PHY93_21225 141 -EGKFNEDYPYQPNSPYSASKASGDHLVRAWFHTYKLPTIITNCSN 185
                              .45667777888888*************************999886 PP

>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.3   0.0   1.8e-08   3.6e-05       3     122 ..       3     112 ..       1     121 [. 0.86
   2 !    8.6   0.0   0.00059       1.2     141     173 ..     148     180 ..     144     186 .. 0.83

  Alignments for each domain:
  == domain 1  score: 23.3 bits;  conditional E-value: 1.8e-08
                              EEEESTTSHHHHHHHHHHHHTT-EEEEEESCHHHHHHHHHHHHHT.TSEEEEEE-TTTSHHHHHHHHHHHHHHHSSESEEEE---S CS
                adh_short   3 vlvtGassGIGraiakelakeGakvvvvdrseekleevakelkee.gakalaiqvDvtdreevealvekavkklgkldvLvnNAGi 87 
                              +l tGa++ IG a+ +  +k+G kv+++d+   +    +++l++   +++++ ++ +td++ v++l++k      ++d +vn A+ 
  PHY93_21225|PHY93_21225   3 ILLTGAAGFIGSAFTRLALKNGNKVIALDKLTYAG--HLENLNNIsDKNFIFQKGCITDEHLVSQLLSKH-----EIDYVVNMAAE 81 
                              89*************************99996655..899999997778******************998.....9********99 PP

                              S--SSGGGCSHHHHHHHHHHHTHHHHHHHHHHHHH CS
                adh_short  88 tgsgpfselseeewervievNltgvflltravlpa 122
                              +      + s +  ++ i++N+ g+++l    l++
  PHY93_21225|PHY93_21225  82 S----HVDNSISSPKEFIDTNIIGTYNLLNCSLQY 112
                              4....334456667899999999999988776665 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.00059
                              SB-TTBHHHHHHHHHHHHHHHHHHHHHGGGTEE CS
                adh_short 141 vpvagvaaYsAsKaavagltrslakelaptgir 173
                              +p+   ++YsAsKa  ++l+r++ + ++   i 
  PHY93_21225|PHY93_21225 148 YPYQPNSPYSASKASGDHLVRAWFHTYKLPTII 180
                              6788899***************99988766655 PP

>> NmrA  NmrA-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   1.7e-05     0.035       1      64 [.       3      69 ..       3      96 .. 0.70

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1.7e-05
                             EEESSTTSHHHHHHHHHHHHHT-EEEEEES-S...-SHHHHHHHHSTTEEEES-TT-HHHHHHHHTT CS
                     NmrA  1 IlviGaTGrqGksvvrallkaghkvralvRdt...kselakslkeaGvelvkgdlddkeslvealkg 64
                             Il +Ga+G +G++++r +lk+g+kv al + t   + e++++++++   + kg + d+ +++++l++
  PHY93_21225|PHY93_21225  3 ILLTGAAGFIGSAFTRLALKNGNKVIALDKLTyagHLENLNNISDKNFIFQKGCITDEHLVSQLLSK 69
                             899************************9887733333333333333333336666666666666665 PP

>> Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   3.1e-05     0.061       1      79 [.       3      81 ..       3     122 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 3.1e-05
                             EEEE--.SHHHHHHHHHHHCTCCT-GEEEEEES.SHHHHHHHHCHHTTTCEEEEE--TTTHHHHHHHHHTTS..SEEEE-SSG CS
          Sacchrp_dh_NADP  1 vliiGa.GsvGqavaellarhfdvdaeitvadr.skeklealaakalgvrfeaialdaenyeavLaallkeg..dlvvnlspp 79
                             +l+ Ga G++G+a+++l +++++    ++  d+ + ++  + +++++ ++f++++  + ++   +++ll+++  d vvn++  
  PHY93_21225|PHY93_21225  3 ILLTGAaGFIGSAFTRLALKNGNK---VIALDKlTYAGHLENLNNISDKNFIFQKGCITDEHL-VSQLLSKHeiDYVVNMAAE 81
                             7888******************86...4444442444444445566999*********99998.9******999999999865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (339 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       584  (0.0325729); expected 358.6 (0.02)
Passed bias filter:                      427  (0.0238162); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.65u 0.25s 00:00:00.90 Elapsed: 00:00:00.47
# Mc/sec: 2167.08
//
Query:       PHY93_05275|PHY93_05275  [L=269]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.5e-16   58.1   0.0    1.5e-15   57.4   0.0    1.3  1  Glucosaminidase  Mannosyl-glycoprotein endo-beta-N-acetylgluc
  ------ inclusion threshold ------
       0.04   13.7   0.7      0.091   12.6   0.7    1.5  1  DUF3490          Domain of unknown function (DUF3490)


Domain annotation for each model (and alignments):
>> Glucosaminidase  Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.4   0.0   1.7e-19   1.5e-15       4      86 ..     120     247 ..     117     248 .. 0.77

  Alignments for each domain:
  == domain 1  score: 57.4 bits;  conditional E-value: 1.7e-19
                              HHHHHHHCT.-H.HHHHHHHHHHHTTTTCHHHHHCT-TSE.B.............HCTE-SSHHHHHHHH.SHHHH.......... CS
          Glucosaminidase   4 aleaakkygipp.svalaqaalEsgwgtsrlakeqnNlfGik.............kfrkydsveesirah.kllss.......... 64 
                              ++e++ + ++ p +++l qaalEsgwg + +a ++nNlfGi              k+++++s+++si+ h  +l++          
  PHY93_05275|PHY93_05275 120 LKELKMRINVIPlDLILTQAALESGWGATPVAIKCNNLFGIHnsnglstcntpsrKIAQFESIQTSIEYHiLNLNRgvsykafreh 205
                              6778889999999***************************944556666666665678************5599989986666554 PP

                              HCC....................HEC.ECTHCCHHHHHHHHCT CS
          Glucosaminidase  65 skk....................yat.dpaYaekliaiikklk 86 
                              + +                    y+t + aY ++l+++ +++k
  PHY93_05275|PHY93_05275 206 R-QkildkketltgvalaphlinYSTrKTAYTNELVKVDNSNK 247
                              1.15666667888877777777766546779999999877665 PP

>> DUF3490  Domain of unknown function (DUF3490)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.7     1e-05     0.091      48      99 ..      49     101 ..      40     121 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 1e-05
                  DUF3490  48 sflketfsegekavedektlslasslkalrreremlakqlqkk.lskeereel 99 
                              + l +++s+++ a  +e   +  +++ +++ er++lak + kk +s+ee+++l
  PHY93_05275|PHY93_05275  49 KILDDNLSAKKLAFMKEIMPMAVNATEKVEVERDFLAKLMAKKeFSEEEKSKL 101
                              56788888888888999999999999**************8874888888776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (269 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       680  (0.0379274); expected 358.6 (0.02)
Passed bias filter:                      376  (0.0209716); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.22s 00:00:00.80 Elapsed: 00:00:00.46
# Mc/sec: 1772.85
//
Query:       PHY93_05840|PHY93_05840  [L=191]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
      2e-46  158.3   0.0    2.3e-46  158.1   0.0    1.0  1  Ham1p_like  Ham1 family


Domain annotation for each model (and alignments):
>> Ham1p_like  Ham1 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  158.1   0.0   1.3e-50   2.3e-46       1     181 [.       4     182 ..       4     188 .. 0.90

  Alignments for each domain:
  == domain 1  score: 158.1 bits;  conditional E-value: 1.3e-50
                              EEEC-S-HHHHHHHHHHTTTECCCE.EECCCCEE----BSSSHHHHHHHHHHHHHH.HTS-EEEEEEEEEEGGGTTTBGGGTTTTT CS
               Ham1p_like   1 ivfaTgNkgKlrevkeilaeellevkslkelelpeveEtqgtfeenalkKaraaae.aglpvladDsgLevdaLnglPGvysarfa 85 
                              +++a++N++K++e++e++++++++vk +  +++ ev+E++ ++ ena++Ka+a+++  + pvladDsgL v+aL++  G++sarf 
  PHY93_05840|PHY93_05840   4 LLIASSNAHKAEEFSELFDSKIVTVKPA--TKKLEVVENGLSYFENARLKAEAYYKeFKTPVLADDSGLNVQALSEELGIHSARFG 87 
                              689***************8777777633..3778889******************845888************************* PP

                              HTTCHHHHHHHHHHHHCTHTTS--EEEEEEEEEEEETTTTEEEEEEEEEEEEE-SS.--SSSSTTGGGEEET.T-SS.BTTTS.CH CS
               Ham1p_like  86 gegaedeenlaklleeleeeeedrsArfvcvlaladpeeeeellfeGeveGeiveeprgeggfGyDpiFvpe.egek.tfaelske 169
                              geg +d+++   ll+++e+ + +r A+f+cvl+++ + e+e+ +feG++ G++  + rg+ggfGyDp+F+p  +g++ t++els e
  PHY93_05840|PHY93_05840  88 GEGLTDKDRALLLLKKMEGIS-NRDAYFTCVLCVYLN-EKEIFYFEGRMSGQVGYAYRGSGGFGYDPVFIPLeGGGElTVSELS-E 170
                              *****************9655.8**********9998.66669****************************8855667*****9.8 PP

                              HHHHHSHHHHHH CS
               Ham1p_like 170 eknaiShRgkAl 181
                               kn+ ShR+ A 
  PHY93_05840|PHY93_05840 171 WKNKNSHRAVAT 182
                              9*******9985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (191 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       441  (0.024597); expected 358.6 (0.02)
Passed bias filter:                      411  (0.0229238); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.25s 00:00:00.78 Elapsed: 00:00:00.46
# Mc/sec: 1261.05
//
Query:       PHY93_13450|PHY93_13450  [L=120]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0053   16.7   0.3      0.021   14.7   0.1    2.0  2  HTH_11    HTH domain


Domain annotation for each model (and alignments):
>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.0      0.13   2.3e+03      32      40 ..      56      64 ..      56      67 .. 0.85
   2 !   14.7   0.1   1.2e-06     0.021      17      52 ..      67     103 ..      64     105 .. 0.80

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.13
                   HTH_11 32 vrrdIkaLe 40
                             v+r I++++
  PHY93_13450|PHY93_13450 56 VWRAIRDIK 64
                             899999986 PP

  == domain 2  score: 14.7 bits;  conditional E-value: 1.2e-06
                   HTH_11  17 sgeeLAeeLnvSrrtvrrdIkaLeelg.vpIesepgr 52 
                              s+  L+e L++  r v+rd+  L+elg ++++  pgr
  PHY93_13450|PHY93_13450  67 SITHLSEILGRGFRSVHRDVMLLKELGlIKLIEGPGR 103
                              677899999999***************8555544444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (120 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       752  (0.0419432); expected 358.6 (0.02)
Passed bias filter:                      615  (0.034302); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.25s 00:00:00.73 Elapsed: 00:00:00.42
# Mc/sec: 848.82
//
Query:       PHY93_13455|PHY93_13455  [L=85]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0012   19.0   0.3     0.0013   18.8   0.3    1.1  1  Y1_Tnp    Transposase IS200 like


Domain annotation for each model (and alignments):
>> Y1_Tnp  Transposase IS200 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.3   7.2e-08    0.0013       3      68 ..      11      77 ..       9      83 .. 0.76

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 7.2e-08
                   Y1_Tnp  3 nlkyhivlvtkyRrkv.ltge.veerlkeiikeiaekkevkilelelmpDHvHllvelppklsiskiv 68
                             nl  h++ +  +++++ l  + v+e  +  ++e+ e + ++++++ lm++H Hll+  p   ++ +++
  PHY93_13455|PHY93_13455 11 NLLHHVTSRSHNKEQFpLPIKrVRELANYSFREANEIHLINLISFVLMSNHYHLLLYTP-MGNLDRFM 77
                             566788877777777654444499999999************************98554.33455555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (85 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       319  (0.0177924); expected 358.6 (0.02)
Passed bias filter:                      227  (0.0126611); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 588.65
//
Query:       PHY93_13460|PHY93_13460  [L=740]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.2e-17   63.6   1.8    2.9e-17   63.2   0.2    2.0  2  HATPase_c      Histidine kinase-, DNA gyrase B-, and HSP90-li
    1.3e-09   37.9   1.3    5.5e-08   32.6   0.1    2.6  2  HATPase_c_5    GHKL domain
    1.5e-08   34.8  37.9    2.3e-08   34.2  37.9    1.2  1  7TMR-DISM_7TM  7TM diverse intracellular signalling
    5.5e-07   29.7   0.0      0.003   17.7   0.0    2.5  2  Response_reg   Response regulator receiver domain
     0.0027   17.7   0.3     0.0068   16.4   0.3    1.6  1  HisKA          His Kinase A (phospho-acceptor) domain
     0.0096   15.7   0.0      0.026   14.4   0.0    1.7  1  HATPase_c_3    Histidine kinase-, DNA gyrase B-, and HSP90-li


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.1       1.6   4.9e+03       5      21 ..     317     340 ..     313     377 .. 0.52
   2 !   63.2   0.2   9.6e-21   2.9e-17       4     109 ..     392     493 ..     389     495 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 1.6
                              HHHHHHHHHHHHHHHH.......H CS
                HATPase_c   5 rLrqiisnlvdNavkf.......a 21 
                              r++ i ++lv+Na           
  PHY93_13460|PHY93_13460 317 RIKDIANHLVKNAHSDkiqdnsqH 340
                              666677777777655433333321 PP

  == domain 2  score: 63.2 bits;  conditional E-value: 9.6e-21
                              HHHHHHHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHHHHHTT CS
                HATPase_c   4 krLrqiisnlvdNavkfatkageieveikaseddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkklvelmg 89 
                              + L++++snl+ Na ++ +++g i+++i+++++   i+++DnG+Gip e+l+ l+++  +      ++ g+GlGl  +k+++e +g
  PHY93_13460|PHY93_13460 392 QDLKRVLSNLINNASEAIGNTGIISITIRPEKNFSIITITDNGRGIPGEILPTLMKRGNT----YGKSNGSGLGLFHAKSVIEELG 473
                              689*************9889*********77777777***************77764444....34678***********9998** PP

                              TEEEEEEETTTEEEEEEEEE CS
                HATPase_c  90 GeiwvesepgrGttftftlp 109
                              G+i++es+ g+Gtt+ + +p
  PHY93_13460|PHY93_13460 474 GHISIESTNGIGTTIKLLIP 493
                              ***************99877 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.6   0.1      0.02        60      13      65 ..     292     347 ..     284     363 .. 0.84
   2 !   32.6   0.1   1.8e-11   5.5e-08       2      93 ..     390     484 ..     389     493 .. 0.83

  Alignments for each domain:
  == domain 1  score: 3.6 bits;  conditional E-value: 0.02
              HATPase_c_5  13 lLdNAieacskiee.ekrfIrltvrekkksliisieNsyegekkkle..sskskke 65 
                              +Ld A+e   +++e  +  Ir +v++ k+     ++N  +++++     ++++kke
  PHY93_13460|PHY93_13460 292 ALDMAVEDLAELPEdMRLLIRGSVSRIKDIANHLVKNAHSDKIQDNSqhTQSEKKE 347
                              7999*********978889*******************999884443125555555 PP

  == domain 2  score: 32.6 bits;  conditional E-value: 1.8e-11
              HATPase_c_5   2 kdldlcvilgnlLdNAieacskieeekrfIrltvrekkksliisieNsyeg...ek....kklesskskkeehGiGlksireivkk 80 
                              k +dl ++l+nl++NA ea  ++     +I++t+r +k++ ii+i+ + +g   e+     k  ++  k++  G+Gl   ++++++
  PHY93_13460|PHY93_13460 390 KAQDLKRVLSNLINNASEAIGNTG----IISITIRPEKNFSIITITDNGRGipgEIlptlMKRGNTYGKSNGSGLGLFHAKSVIEE 471
                              679******************998....9****************999777555334333333355667899************** PP

              HATPase_c_5  81 ykgnlsieaedgl 93 
                               +g++sie  +g+
  PHY93_13460|PHY93_13460 472 LGGHISIESTNGI 484
                              *********9987 PP

>> 7TMR-DISM_7TM  7TM diverse intracellular signalling
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.2  37.9   7.5e-12   2.3e-08       7     198 ..      59     243 ..      55     247 .. 0.83

  Alignments for each domain:
  == domain 1  score: 34.2 bits;  conditional E-value: 7.5e-12
            7TMR-DISM_7TM   7 lllGvllalalynlflffsl.rdksylyYalyllsfllyllslngllfqylwpnappalnnkllyltlllllilfllFarsflelk 91 
                              l+l+++l+ +++ lf+++    + ++l+ a+  l+++ y+++l+ +++++    ++  ln+++l  + ++++i++++F++s+ +  
  PHY93_13460|PHY93_13460  59 LVLTLFLITIFFTLFIYVQKsHKTIHLWAAATSLLMASYTFFLSRYGYELN---ISNLLNYRTLVSSAMMITICLVAFSYSLSKS- 140
                              578999*************99****************************98...55577888888888888877777****9888. PP

            7TMR-DISM_7TM  92 kkprllklllllavllsllllllpll...pyteslslaqllallvillllligikawrkgnkparyfliawlllligvlidilsll 174
                                 ++ ++ll l vl +++ll +  +   ++  + + +++++++vi++++++ +  + ++n+ a+++li+ ++++ ++++di    
  PHY93_13460|PHY93_13460 141 ---KVSRILLPLGVLNFFYLLYIQTFnsiLQFRAAYKYWFFLFIVIVVVMIFHFFTLAQKNSRAKFMLIGTIIFFGTAVNDI---- 219
                              ...899999999999988888888884434444444455999999999999999999*************************.... PP

            7TMR-DISM_7TM 175 gllpsnffte.yllqigvllevlll 198
                               +++ ++ +  ++ q+g++ +++++
  PHY93_13460|PHY93_13460 220 -TITLGLRSGvNIAQYGLASFAVVF 243
                              .555554444488888888887776 PP

>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   0.0   9.9e-07     0.003       1      94 [.     513     612 ..     513     619 .. 0.78
   2 !    9.2   0.0   0.00043       1.3       2      65 ..     638     702 ..     638     720 .. 0.83

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 9.9e-07
                              EEEESSSHHHHHHHHHHHH..HTTEE..EEEEESSHHHHHHHHHHHH..ESEEEEESSCSS..SEHHHHHHHHHHCTTTSEEEEEE CS
             Response_reg   1 vlivdDdplvrellrqlle..eegye..evaeaedgkealellkeek..vdlillDinmpg..mdGlellkeireedpelpviilt 78 
                              +++ dDd  + +++++ +e  ++ ++  +++ +++ +ea +++++++    ++l+D +  g   +Gle++++++  +   + i++t
  PHY93_13460|PHY93_13460 513 ICVLDDDASIHQIWKERFErtRKTFSdiKIQHFSNVEEATNWINKNNnsKTIYLVDYEFFGlsANGLEFIEKLNLAS---QAILVT 595
                              7899***************874555411677************777767999*********556*********9977...677777 PP

                              SSTSHHH.HHHHHHCTE CS
             Response_reg  79 ahseeed.avealkaga 94 
                              +h ee+  ++++ k+g+
  PHY93_13460|PHY93_13460 596 SHYEEPLiRNQCKKIGV 612
                              77665550555656654 PP

  == domain 2  score: 9.2 bits;  conditional E-value: 0.00043
                              EEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHH.ESEEEEESSCSSS.EHHHHHHHH CS
             Response_reg   2 livdDdplvrellrqlleeegyeevaeaedgkealellkeek.vdlillDinmpgm.dGlellkei 65 
                              +++dDdpl+r +++++ +++g+ e ++++d  ++ e+  + + +  i +D n+ ++  G  ++ke+
  PHY93_13460|PHY93_13460 638 ILIDDDPLIRLIWEKAAQSNGI-ELKVFQDILSFREIQGTLDfYSNIYIDSNLKNLdRGEVFAKEL 702
                              589*******************.**************99999899999999999951466555555 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.3   2.3e-06    0.0068       6      53 ..     279     324 ..     275     335 .. 0.79

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 2.3e-06
                              HHHHHHHHHHHHHHHHHHHHHHHC..T-HSSCHHHHHHHHHHHHHH.HH CS
                    HisKA   6 lagvaHELrtPLsailgnaeaLkregklteelkeyletiesearrl.dh 53 
                               a vaH++r PL+a+ +++e L +   l+e+ + +++  +s ++ + +h
  PHY93_13460|PHY93_13460 279 NAQVAHDIRSPLAALDMAVEDLAE---LPEDMRLLIRGSVSRIKDIaNH 324
                              699*******************99...8899888666655555544344 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.0   8.7e-06     0.026       4      58 ..     395     450 ..     392     490 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 8.7e-06
              HATPase_c_3   4 ekAlaelvdNsldAdaen..vkievnknrgktgeivieDdGkGmseeelknalrlat 58 
                              + +l  l++N+ +A  ++  ++i++  ++ + + i+i+D+G G++ e l   ++ ++
  PHY93_13460|PHY93_13460 395 KRVLSNLINNASEAIGNTgiISITIRPEK-NFSIITITDNGRGIPGEILPTLMKRGN 450
                              67899********9888877888888875.5789**********9887776666555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (740 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1428  (0.0796475); expected 358.6 (0.02)
Passed bias filter:                      553  (0.0308439); expected 358.6 (0.02)
Passed Vit filter:                        60  (0.00334653); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.81u 0.27s 00:00:01.08 Elapsed: 00:00:00.46
# Mc/sec: 4791.33
//
Query:       PHY93_13465|PHY93_13465  [L=275]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
      3e-10   40.5   0.0    1.3e-09   38.5   0.0    1.9  1  Amidase_3  N-acetylmuramoyl-L-alanine amidase


Domain annotation for each model (and alignments):
>> Amidase_3  N-acetylmuramoyl-L-alanine amidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.5   0.0     7e-14   1.3e-09       2     163 ..      28     256 ..      27     264 .. 0.69

  Alignments for each domain:
  == domain 1  score: 38.5 bits;  conditional E-value: 7e-14
                Amidase_3   2 vidpGHGgkdpGavg.....knglkEkdlnlkvalklaklLeakgaeVvltrdd.dksv........................... 54 
                              +idpGH g++          + +++E d+ +  a+ l+k L  k     l+r++ + s+                           
  PHY93_13465|PHY93_13465  28 FIDPGHVGNSFFDFRyfkmdDIEFHEGDFCFVWAEVLQKALLGKIELSELSRNNgQPSIvianhehqirmselinsigteaalknf 113
                              66666655544322223333445566666666666666666555544455555533333556666666666666666666666666 PP

                Amidase_3  55 ........................slkeranianksradlfvsiHadsaanssa...sGvevfyleknekkaeskrlaksiqkelk 113
                                                      +l +ra+ia+++  dl++s+H+++ + s     +G+  f+   n+ +++ + l ++i k+++
  PHY93_13465|PHY93_13465 114 rvpknffplkttdqlleaavqneaDLLNRARIASEQTFDLCLSLHLNGDPTSLKtekNGICGFT---NHISKTHYLLFEKIIKNIS 196
                              66666666666666667777777799*********************88443322349999999...999**************** PP

                Amidase_3 114 kklglk..........nrgvkean......nlyvlrktkipavlvElgfisnpedakllkseeyqe 163
                                +gl+          +      +      +l++l++++ip  l+E  f +np++  ll+++ +q 
  PHY93_13465|PHY93_13465 197 IMTGLPifkieqldevS------TgvfvdeSLTLLKNISIPTLLIEGPFQNNPAELLLLNQSLNQL 256
                              ******66655544443......04455559*****************************998884 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (275 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       612  (0.0341346); expected 358.6 (0.02)
Passed bias filter:                      442  (0.0246528); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.60u 0.27s 00:00:00.87 Elapsed: 00:00:00.46
# Mc/sec: 1786.22
//
Query:       PHY93_13470|PHY93_13470  [L=188]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.1e-06   28.5   0.0    2.5e-06   28.2   0.0    1.1  1  Acetyltransf_3  Acetyltransferase (GNAT) domain
    6.6e-06   26.3   0.1    8.7e-06   25.9   0.1    1.3  1  Acetyltransf_4  Acetyltransferase (GNAT) domain
     0.0012   19.1   0.0     0.0016   18.7   0.0    1.2  1  Acetyltransf_1  Acetyltransferase (GNAT) family


Domain annotation for each model (and alignments):
>> Acetyltransf_3  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.2   0.0   4.3e-10   2.5e-06      32     137 ..      35     140 ..       9     141 .. 0.78

  Alignments for each domain:
  == domain 1  score: 28.2 bits;  conditional E-value: 4.3e-10
           Acetyltransf_3  32 ltleeaeewlera.waeeseeegygwaivl.kdtgv.iGsvglrdleeedeeaelgymlapsfwgkGyateavralleyafeelgl 114
                              +t+++  ++l++  +   + ++g g++++l kdt   iGsv +    +++  a +   +  ++ g  y +  +  +l+++f++  +
  PHY93_13470|PHY93_13470  35 TTDSNLSHLLKDNlY--FDFDSGNGFLVFLeKDTTKkIGSVKIATSLRNQV-ATINGGVINDYFGTAYSRTSLIEALQFLFSNYPI 117
                              455555555555542..34457777999887666555****9998777765.888888888877********************** PP

           Acetyltransf_3 115 erlvavidkeNeaSirvleklGf 137
                              +r++ +i ++N++S r + k+Gf
  PHY93_13470|PHY93_13470 118 KRIEMNILASNQRSLRFHDKMGF 140
                              **********************9 PP

>> Acetyltransf_4  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.9   0.1   1.5e-09   8.7e-06      94     152 ..      99     158 ..      59     161 .. 0.88

  Alignments for each domain:
  == domain 1  score: 25.9 bits;  conditional E-value: 1.5e-09
           Acetyltransf_4  94 lgre.lidaleqvlkeqnienllaeiaspnensiqfhkalGFelvgifkkcikkngrwiD 152
                              + r  li+al   ++++ i++++  i ++n+ s  fh+++GF  +gi +k+   ng   D
  PHY93_13470|PHY93_13470  99 YSRTsLIEALQFLFSNYPIKRIEMNILASNQRSLRFHDKMGFIREGIKRKAWFCNGCLQD 158
                              55545999998888*************************************999986665 PP

>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   0.0   2.6e-07    0.0016      24     117 .]      49     140 ..      18     140 .. 0.77

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 2.6e-07
                              HHHHHHSTTCEEEEEEET.TEEEEEEEEEEEETTSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHT.TESEEEEEEETTEHH CS
           Acetyltransf_1  24 feesfsleaegllvaeed.geliGfisllkipdekggvayieslaVspeyrgkGlGsaLlealeeraree.gikkivlaveednda 107
                              ++++    +++l++ e+d  + iG + +        + ++++   V  +y g  + ++ l +++++++++  ik+i+  + ++n++
  PHY93_13470|PHY93_13470  49 YFDF-DSGNGFLVFLEKDtTKKIGSVKIATSLR---NQVATINGGVINDYFGTAYSRTSLIEALQFLFSNyPIKRIEMNILASNQR 130
                              3333.2244455556666466999997777766...5666667789999************************************* PP

                              HHHHHHHTTE CS
           Acetyltransf_1 108 airlYeklGF 117
                              + r++ k+GF
  PHY93_13470|PHY93_13470 131 SLRFHDKMGF 140
                              *********9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (188 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       436  (0.0243181); expected 358.6 (0.02)
Passed bias filter:                      355  (0.0198003); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 1257.24
//
Query:       PHY93_13475|PHY93_13475  [L=361]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.29   10.0  47.7        3.8    6.3  48.0    2.3  1  MFS_1     Major Facilitator Superfamily


Domain annotation for each model (and alignments):
>> MFS_1  Major Facilitator Superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.3  48.0   0.00021       3.8      24     307 ..      23     283 ..       5     356 .. 0.64

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.00021
                    MFS_1  24 aedlgispseigllltlyalgaavaslplGrlsdrfGrrrvlllglllfalg.lllllfasslwlllvlrvlqGlgagalfpagaa 108
                                + g+s+ ++ +l +++ +g++ ++l++G++ d +++r  + lg +++a + ++++lf +++  l +l  + G+g  +++ ++  
  PHY93_13475|PHY93_13475  23 FAAIGVSAKQVVTLEGFFLIGSSMSQLVGGVINDALSPRLAYGLGKFVSATAcAAIALF-HNSVSLSLLFTIWGIGV-GIYDGSDF 106
                              45567777787778888****************************99999995555558.88888999999999996.66666777 PP

                    MFS_1 109 liadwfpkeergraigllsagfslGailgpllggllasslgWravfyilaivsllafvlfllllpeepperkrkspkeeekgtgpa 194
                              l a+  +  + ++ +  + +    G+ +  + g+++  ++g++ +f+++ai+s+   ++  l+l +++ ++   ++          
  PHY93_13475|PHY93_13475 107 LSAKRKNS-NWSSILKHVESLGIYGSFVSFICGAAIFRWFGFETLFMANAIASFCIPII--LFLKRKNIDETQYKT-SN------- 181
                              77776666.99999999999999999999***************************885..555333333333322.22....... PP

                    MFS_1 195 plvpawkallkdpvlw..illialllfffgfsglltllplylqevlglsglllaglllallalvgail.allagrlsdrlgrrrrl 277
                                   +k+++ + + w  ++l a +++ +g++++++ l + + e  ++   + +g  + +++ +++++ + ++ ++  rl +  + 
  PHY93_13475|PHY93_13475 182 -----IKQIKFNLFSWvsSILSAPFIAIIGYAAVTVALKVVVIELQHYL--VVSG--INVFWNGWIFVgFTVLVYFTLRLRP--YV 256
                              .....34444444334444444444444555555555555555555555..3333..3333333333322244455556555..44 PP

                    MFS_1 278 llallllllaalglallavtssavllllvl 307
                              + +ll+ +++ l+l++  ++s  +++   l
  PHY93_13475|PHY93_13475 257 IGFLLVPIMLILALCWGFNISGIIFG---L 283
                              44444444444444444444111111...1 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (361 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       820  (0.045736); expected 358.6 (0.02)
Passed bias filter:                      257  (0.0143343); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.64u 0.26s 00:00:00.90 Elapsed: 00:00:00.47
# Mc/sec: 2309.44
//
Query:       PHY93_20485|PHY93_20485  [L=195]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      2e-05   24.8   0.0      3e-05   24.2   0.0    1.3  1  Acetyltransf_1   Acetyltransferase (GNAT) family
    0.00031   20.8   0.8     0.0011   19.0   0.0    2.3  2  Acetyltransf_CG  GCN5-related N-acetyl-transferase
  ------ inclusion threshold ------
      0.043   13.9   0.0       0.11   12.5   0.0    1.7  2  Acetyltransf_9   Acetyltransferase (GNAT) domain
      0.049   14.3   0.2      0.097   13.3   0.2    1.6  1  Acetyltransf_3   Acetyltransferase (GNAT) domain
      0.049   13.9   0.1       0.12   12.7   0.1    1.7  1  CBM26            Starch-binding module 26


Domain annotation for each model (and alignments):
>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.2   0.0   8.3e-09     3e-05      31     102 ..      63     149 ..      28     159 .. 0.75

  Alignments for each domain:
  == domain 1  score: 24.2 bits;  conditional E-value: 8.3e-09
                              TTC..EEEE..EEETTEEEEEEEEEEEET.............TSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHTTESEEEE CS
           Acetyltransf_1  31 eae..gllv..aeedgeliGfisllkipd.............ekggvayieslaVspeyrgkGlGsaLlealeerareegikkivl 99 
                              +++        a+ d+el+++is+ +  d             e++ va+i  +  +p++rgkGl  + l+ l+++ re++ k+i++
  PHY93_20485|PHY93_20485  63 QTGyhV--GvlAYQDNELLAWISVGPLIDfywtwkrvtqvgeEAKFVAAIMCFTMAPKHRGKGLQAEILKSLMQYGREQNWKAIEA 146
                              444223..245999********66666666667777777777*************************************9999988 PP

                              EEE CS
           Acetyltransf_1 100 ave 102
                              + +
  PHY93_20485|PHY93_20485 147 YPF 149
                              654 PP

>> Acetyltransf_CG  GCN5-related N-acetyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.2      0.81   2.9e+03      63      78 ..      29      44 ..      28      45 .. 0.86
   2 !   19.0   0.0   3.1e-07    0.0011      24      76 ..     107     159 ..      59     161 .. 0.77

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.81
          Acetyltransf_CG 63 tCsyvaaylekhpeya 78
                              Cs+ +++++  +e++
  PHY93_20485|PHY93_20485 29 YCSFWHQKINSMEEWD 44
                             6*******99999885 PP

  == domain 2  score: 19.0 bits;  conditional E-value: 3.1e-07
          Acetyltransf_CG  24 vldfthTeVpeelrGkGiAkkLvkaalddareeglkvvptCsyvaaylekhpe 76 
                              v +++     +++rGkG+ +++ k+ +++ re+++k +   ++ ++ +ekh+e
  PHY93_20485|PHY93_20485 107 VAAIMCFTMAPKHRGKGLQAEILKSLMQYGREQNWKAIEAYPFDSSAIEKHKE 159
                              555556667899**************************************997 PP

>> Acetyltransf_9  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       1.8   6.3e+03      32      58 ..      46      72 ..      37      82 .. 0.60
   2 ?   12.5   0.0   3.2e-05      0.11      73     116 ..     107     150 ..      89     157 .. 0.81

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 1.8
                             HHHHHHHHTTSEEEEEEETTEEEEEEE CS
           Acetyltransf_9 32 reyfrklleesrvlgaedngelvgqla 58
                             r+  ++ l+++ vl   + g  vg+la
  PHY93_20485|PHY93_20485 46 RKKENPSLNRQIVLYKVQTGYHVGVLA 72
                             455555666666666666666666655 PP

  == domain 2  score: 12.5 bits;  conditional E-value: 3.2e-05
                              EEEEEEEEE-CCGTTS-HHHHHHHHHHHHHHHTT--EEEE--SS CS
           Acetyltransf_9  73 aagvtgVavapehrgrgvlskLlaraleemreegqplsllfPss 116
                              +a+++  + ap+hrg+g+  ++l+ ++++ re++ + +  +P+ 
  PHY93_20485|PHY93_20485 107 VAAIMCFTMAPKHRGKGLQAEILKSLMQYGREQNWKAIEAYPFD 150
                              588888999***********************998888888875 PP

>> Acetyltransf_3  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.2   2.7e-05     0.097      80     119 ..      97     146 ..       5     151 .. 0.71

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 2.7e-05
           Acetyltransf_3  80 e...........aelgymlapsfwgkGyateavralleyafeelglerlva 119
                                          a + +++ap+++gkG+  e +++l++y  +e++++ ++a
  PHY93_20485|PHY93_20485  97 VtqvgeeakfvaAIMCFTMAPKHRGKGLQAEILKSLMQYG-REQNWKAIEA 146
                              044555556665555678899*******************.7777888877 PP

>> CBM26  Starch-binding module 26
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   3.3e-05      0.12       5      41 ..     137     175 ..     134     193 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 3.3e-05
                              --TTS-SEEEEEEEEES-----...-TT--B-EEEETTE CS
                    CBM26   5 npsnWsnvyiYiwddspassvke..aWPGvamkkegdgw 41 
                              + +nW+ +++Y +d+s+ ++ ke   WPG +  + + g+
  PHY93_20485|PHY93_20485 137 REQNWKAIEAYPFDSSAIEKHKElvFWPGMTKGYAEAGF 175
                              679**************9999999*****8876666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (195 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       485  (0.0270511); expected 358.6 (0.02)
Passed bias filter:                      397  (0.0221429); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 1301.43
//
Query:       PHY93_20490|PHY93_20490  [L=153]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.1e-11   42.4   0.0    7.7e-11   42.3   0.0    1.1  1  Acetyltransf_1   Acetyltransferase (GNAT) family
    7.6e-10   38.8   0.0    1.1e-09   38.3   0.0    1.2  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
    2.6e-08   34.2   0.1    4.2e-08   33.5   0.1    1.4  1  Acetyltransf_7   Acetyltransferase (GNAT) domain
    1.9e-07   31.2   0.0    2.7e-07   30.7   0.0    1.2  1  Acetyltransf_9   Acetyltransferase (GNAT) domain
     0.0017   18.3   0.0      0.003   17.5   0.0    1.4  1  FR47             FR47-like protein


Domain annotation for each model (and alignments):
>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.3   0.0   2.1e-14   7.7e-11      19     117 .]      36     141 ..      11     141 .. 0.75

  Alignments for each domain:
  == domain 1  score: 42.3 bits;  conditional E-value: 2.1e-14
                              HHHHH....HHHHHHSTTCEEEEEEETTEEEEEEEEEEEET......TSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHTTE CS
           Acetyltransf_1  19 aseee....feesfsleaegllvaeedgeliGfisllkipd......ekggvayieslaVspeyrgkGlGsaLlealeerareegi 94 
                              + +e     f es+  +  +  +a++++ ++G+++++ +          g v+y+  ++ ++++rg+G+G+ L+++l e a e  +
  PHY93_20490|PHY93_20490  36 EYLESvenyFTESLKSQKYSSAIALDGDVIVGTAGACFYEKppsisgGTGLVGYVTNVYTRKDHRGNGIGTNLMRKLNELAQELKA 121
                              22222233344444444446777999999*****999999999****8899*********************************** PP

                              SEEEEEEETTEHHHHHHHHH.TTE CS
           Acetyltransf_1  95 kkivlaveedndaairlYek.lGF 117
                              +k+ l  ++d       Y k +G+
  PHY93_20490|PHY93_20490 122 DKLHLGATSDG---LQIY-KaVGY 141
                              *****776776...7777.44776 PP

>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.3   0.0   3.1e-13   1.1e-09      20     108 ..      43     143 ..      22     145 .. 0.83

  Alignments for each domain:
  == domain 1  score: 38.3 bits;  conditional E-value: 3.1e-13
          Acetyltransf_10  20 ealrerieegealllvaeeggkivGviel..rdgs...........hisllfVdpeyrgqGigkaLleaveeeaekdgikleltvn 92 
                              + ++e ++++++   +a +g+ ivG+++   +++            +++ ++ ++++rg+Gig++L+ ++ e a++ +   +l++ 
  PHY93_20490|PHY93_20490  43 NYFTESLKSQKYSSAIALDGDVIVGTAGAcfYEKPpsisggtglvgYVTNVYTRKDHRGNGIGTNLMRKLNELAQELKAD-KLHLG 127
                              4567777899999999********9994434554478888899*******************************888777.***** PP

          Acetyltransf_10  93 aspyavpfYeklGFka 108
                              a++   ++Y+ +G+++
  PHY93_20490|PHY93_20490 128 ATSDGLQIYKAVGYQE 143
                              **************96 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.5   0.1   1.2e-11   4.2e-08       7      76 .]      58     143 ..      42     143 .. 0.77

  Alignments for each domain:
  == domain 1  score: 33.5 bits;  conditional E-value: 1.2e-11
                              EEEETTEEEEEEEEEEES............TCTEEEEE-GGGTTSSHHHHHHHH.TT..SEEEEE.EEEE.THHHHHHHHHHTTEE CS
           Acetyltransf_7   7 VaeddgkivGfialslld............aeitrlaVdpeyrgkGiGraLlea.ae..kgiile.qlel.naekaikfYeklGFe 75 
                              +a d++ ivG+++++ ++            ++ t++++++++rg+GiG+ L++  +e  + ++   +l+l +++  ++ Y+  G++
  PHY93_20490|PHY93_20490  58 IALDGDVIVGTAGACFYEkppsisggtglvGYVTNVYTRKDHRGNGIGTNLMRKlNElaQELK-AdKLHLgATSDGLQIYKAVGYQ 142
                              68888999999998888899999999888888888*****************96322333322.23455653335688******98 PP

                              E CS
           Acetyltransf_7  76 e 76 
                              e
  PHY93_20490|PHY93_20490 143 E 143
                              6 PP

>> Acetyltransf_9  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.7   0.0   7.5e-11   2.7e-07       2     126 ..       3     142 ..       2     143 .. 0.74

  Alignments for each domain:
  == domain 1  score: 30.7 bits;  conditional E-value: 7.5e-11
                              EEEE-GGGHHHHHHHHHHHTT----H...........HHHHHHHHHHTTS..EEEEEEETTEEEEEEEE..EEEEEEETTEEEEEE CS
           Acetyltransf_9   2 irelteedldevlellkyaFqdeespl.........eeireyfrkllees..rvlgaedngelvgqlal..lplelnvpGktlkaa 74 
                              +r ++++d+d+ +el      + +            e +++yf + l+++     +a d++ +vg++++  +    ++ G t  ++
  PHY93_20490|PHY93_20490   3 YRFANTADIDQLVELRVLMQLEVNGLSkehanteylESVENYFTESLKSQkySSAIALDGDVIVGTAGAcfYEKPPSISGGTGLVG 88 
                              7888888888888888888877777666666544432344444444443345899**********987611566679********* PP

                              EEEEEEE-CCGTTS-HHHHHHHHHHHHHHHTT--EEEE--SS..HHHHHTTT-E CS
           Acetyltransf_9  75 gvtgVavapehrgrgvlskLlaraleemreegqplsllfPss..ipiYrrfGye 126
                              +vt V +  +hrg+g+ + L++++ e ++e ++    l ++s   +iY+  Gy+
  PHY93_20490|PHY93_20490  89 YVTNVYTRKDHRGNGIGTNLMRKLNELAQELKADKLHLGATSdgLQIYKAVGYQ 142
                              **********************99988888766655555544245888888885 PP

>> FR47  FR47-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.0   8.3e-07     0.003      21      79 ..      87     143 ..      84     147 .. 0.78

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 8.3e-07
                              TSSEEEEEE-GGG-SSSHHHHHHHHHHHHHHHS-S-EEEEEETT-HHHHHHHHHHT-EE CS
                     FR47  21 ggelgalqvlpehrrrGlgsrlvkalakeiaergktvllvvvasNtpsirlyeklGfek 79 
                              +g++  ++++++hr+ G g+ l ++l + +a++ k   l+ +a+ +   ++y+++G+++
  PHY93_20490|PHY93_20490  87 VGYVTNVYTRKDHRGNGIGTNLMRKLNE-LAQELKADKLHLGAT-SDGLQIYKAVGYQE 143
                              588999*******************976.555555555666655.34688999999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (153 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       618  (0.0344693); expected 358.6 (0.02)
Passed bias filter:                      526  (0.0293379); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.48u 0.26s 00:00:00.74 Elapsed: 00:00:00.43
# Mc/sec: 1063.30
//
Query:       PHY93_20495|PHY93_20495  [L=186]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.1e-08   32.9   0.0    7.5e-08   32.6   0.0    1.2  1  Acetyltransf_1   Acetyltransferase (GNAT) family
     0.0042   17.0   0.0      0.008   16.1   0.0    1.5  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
  ------ inclusion threshold ------
      0.021   14.9   0.2       0.13   12.3   0.1    2.4  2  Acetyltransf_9   Acetyltransferase (GNAT) domain
      0.028   14.9   0.0      0.042   14.3   0.0    1.4  1  Acetyltransf_7   Acetyltransferase (GNAT) domain


Domain annotation for each model (and alignments):
>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.6   0.0   1.7e-11   7.5e-08      31     117 .]      56     140 ..      14     140 .. 0.75

  Alignments for each domain:
  == domain 1  score: 32.6 bits;  conditional E-value: 1.7e-11
                              TTC.EEEEEEETTEEEEEEEEEEEETTSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHTTESEEEE.EEETTEHHHHHHHHH CS
           Acetyltransf_1  31 eae.gllvaeedgeliGfisllkipdekggvayieslaVspeyrgkGlGsaLlealeerareegikkivl.aveedndaairlYek 114
                              ++    l   +++e +G++ ++++      + y++  a+ p++r+kGl ++L+++++++a   g+++i+  +++ +n   i+ + k
  PHY93_20495|PHY93_20495  56 TPLrINLGMFKGDEFVGWCWGFQDSA---FKFYMCNSAILPNHRKKGLYTRLMNEMLQKATGLGFQEIFSrHTSTNNAIIIPKL-K 137
                              22223334778899*****9999999...9**************************************8845555566556655.5 PP

                              TTE CS
           Acetyltransf_1 115 lGF 117
                               GF
  PHY93_20495|PHY93_20495 138 AGF 140
                              555 PP

>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   1.8e-06     0.008      21      81 ..      49     113 ..      27     131 .. 0.80

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 1.8e-06
          Acetyltransf_10  21 alrerieegealllvaeeggkivGvi.elrdgs...hisllfVdpeyrgqGigkaLleaveeeae 81 
                              +l+ +++++  + l++++g++ vG + + +d+    +++  ++ p++r++G+ ++L+++++++a 
  PHY93_20495|PHY93_20495  49 ELKIHLSTPLRINLGMFKGDEFVGWCwGFQDSAfkfYMCNSAILPNHRKKGLYTRLMNEMLQKAT 113
                              5555666666778999**********766888888999999********************9985 PP

>> Acetyltransf_9  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.1   2.9e-05      0.13      76     101 ..      86     111 ..       5     116 .. 0.88
   2 ?   -2.7   0.0       1.3   5.8e+03      76     102 ..     150     176 ..     143     179 .. 0.70

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 2.9e-05
                              EEEEEE-CCGTTS-HHHHHHHHHHHH CS
           Acetyltransf_9  76 vtgVavapehrgrgvlskLlaralee 101
                               +  a  p+hr++g+ ++L++++l++
  PHY93_20495|PHY93_20495  86 MCNSAILPNHRKKGLYTRLMNEMLQK 111
                              5677889****************987 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 1.3
                              EEEEEE-CCGTTS-HHHHHHHHHHHHH CS
           Acetyltransf_9  76 vtgVavapehrgrgvlskLlaraleem 102
                              v gV  + ++  +++ +k++++ ++e+
  PHY93_20495|PHY93_20495 150 VFGVLIHLNYFPNKLRQKMMEYRVGEI 176
                              667777777777788888888776665 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0   9.4e-06     0.042      12      54 ..      68     118 ..      40     142 .. 0.71

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 9.4e-06
                              TEEEEEEEEEEES...TCTEEEEE-GGGTTSSHHHHHHHH..TT...SEEE CS
           Acetyltransf_7  12 gkivGfialslld...aeitrlaVdpeyrgkGiGraLlea..ae...kgii 54 
                              +++vG +    ++   ++ ++ a++p++r+kG+ ++L++   ++    g++
  PHY93_20495|PHY93_20495  68 DEFVGWCWGFQDSafkFYMCNSAILPNHRKKGLYTRLMNEmlQKatgLGFQ 118
                              67777766666556666666689***************9534224343332 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (186 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       595  (0.0331865); expected 358.6 (0.02)
Passed bias filter:                      520  (0.0290033); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 1252.09
//
Query:       PHY93_20500|PHY93_20500  [L=172]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      7e-13   49.4   0.0    1.1e-12   48.8   0.0    1.3  1  Acetyltransf_3   Acetyltransferase (GNAT) domain
    1.2e-07   31.9   0.0    1.6e-07   31.5   0.0    1.3  1  Acetyltransf_1   Acetyltransferase (GNAT) family
      3e-05   24.1   0.0    7.7e-05   22.8   0.0    1.7  1  Acetyltransf_9   Acetyltransferase (GNAT) domain
    0.00077   19.8   0.0     0.0013   19.1   0.0    1.4  1  Acetyltransf_7   Acetyltransferase (GNAT) domain
  ------ inclusion threshold ------
      0.016   15.2   0.0      0.024   14.6   0.0    1.3  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
       0.17   12.1   0.0       0.32   11.2   0.0    1.4  1  Acetyltransf_CG  GCN5-related N-acetyl-transferase


Domain annotation for each model (and alignments):
>> Acetyltransf_3  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.8   0.0   3.7e-16   1.1e-12       2     134 ..       3     150 ..       2     153 .. 0.76

  Alignments for each domain:
  == domain 1  score: 48.8 bits;  conditional E-value: 3.7e-16
           Acetyltransf_3   2 LlLrplteeDlealfelrsdpevmry...lpepltleea..eewlera.......waeeseeegygwaivlkdtgv.iGsvglrdl 74 
                              ++Lr+lt +D e+lf +++d+    +       ++ +++  e++++ +        + ++e+  +++++  +++g  +G  ++r++
  PHY93_20500|PHY93_20500   3 IVLRNLTISDREQLFDVLNDKWEDNFdflH-YWESIANCdfETFIK-VapefsegKHIPKEHVPCTFLLAFNSDGDlVGRTSIRHM 86 
                              789************877654322244332.233344333255555.236656555555566668888877666644********* PP

           Acetyltransf_3  75 eeedee...aelgymlapsfwgkGyateavralleyaf.eelglerlvavidkeNeaSirvlek 134
                                ++     +++gy +ap++++kGyat  ++  l+y+  + ++++++ +++d+eN +S++ +e 
  PHY93_20500|PHY93_20500  87 LTDHLLkvgGHIGYGVAPKHRRKGYATAILKESLNYVRiHLPEIKKVLVTCDEENIGSRKTIEN 150
                              *998879******************************64777*****************98875 PP

>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.5   0.0   5.5e-11   1.6e-07      29     111 ..      61     147 ..      13     153 .. 0.72

  Alignments for each domain:
  == domain 1  score: 31.5 bits;  conditional E-value: 5.5e-11
                              HSTTCEEEE.EEETTEEEEEEEEEEEET..TSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHT..TESEEEEEEETTEHHHH CS
           Acetyltransf_1  29 sleaegllv.aeedgeliGfisllkipd..ekggvayieslaVspeyrgkGlGsaLlealeeraree..gikkivlaveedndaai 109
                              +  ++++l+    dg l+G  s++      +  +v+  +++ V+p++r+kG+++a l++ + ++r +  +ikk+ ++++e n +++
  PHY93_20500|PHY93_20500  61 EHVPCTFLLaFNSDGDLVGRTSIRHMLTdhL-LKVGGHIGYGVAPKHRRKGYATAILKESLNYVRIHlpEIKKVLVTCDEENIGSR 145
                              2244433334777799***998877766653.3566666**************************999999**77799999*9998 PP

                              HH CS
           Acetyltransf_1 110 rl 111
                              + 
  PHY93_20500|PHY93_20500 146 KT 147
                              76 PP

>> Acetyltransf_9  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.8   0.0   2.6e-08   7.7e-05      42     103 ..      65     124 ..       4     127 .. 0.75

  Alignments for each domain:
  == domain 1  score: 22.8 bits;  conditional E-value: 2.6e-08
                              SEEEEEEE.TTEEEEEEEEEEEEEEETTEEEEEEEEEEEEE-CCGTTS-HHHHHHHHHHHHHH CS
           Acetyltransf_9  42 srvlgaed.ngelvgqlallplelnvpGktlkaagvtgVavapehrgrgvlskLlaraleemr 103
                                +l+a++ +g+lvg     + +  + +  lk++g  g +vap+hr++g+++++l+++l+++r
  PHY93_20500|PHY93_20500  65 CTFLLAFNsDGDLVGRT---SIRHMLTDHLLKVGGHIGYGVAPKHRRKGYATAILKESLNYVR 124
                              46777777788888865...4556678999*****************************9987 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   4.3e-07    0.0013      12      49 ..      75     124 ..      63     155 .. 0.64

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 4.3e-07
                              TEEEEEEEEEEES.......TCTEEEEE-GGGTTSSHHHHHHHH.....T CS
           Acetyltransf_7  12 gkivGfialslld.......aeitrlaVdpeyrgkGiGraLlea.....a 49 
                              g  vG  ++ +         + +++  V+p++r+kG+++a+l+      +
  PHY93_20500|PHY93_20500  75 GDLVGRTSIRHMLtdhllkvGGHIGYGVAPKHRRKGYATAILKEslnyvR 124
                              555565554444454444333344477***************96333331 PP

>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.0     8e-06     0.024      31      91 ..      66     135 ..      34     143 .. 0.72

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 8e-06
          Acetyltransf_10  31 alllvaeeggkivGvielrdgs.........hisllfVdpeyrgqGigkaLleaveeeaekdgikl.eltv 91 
                              ++ll+++ +g +vG  ++r            hi+   V+p++r++G+++a+l++ +++++ + +++ ++ v
  PHY93_20500|PHY93_20500  66 TFLLAFNSDGDLVGRTSIRHMLtdhllkvggHIG-YGVAPKHRRKGYATAILKESLNYVRIHLPEIkKVLV 135
                              4566666678888888665444344454443443.47*********************9877666665555 PP

>> Acetyltransf_CG  GCN5-related N-acetyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   0.00011      0.32      32      64 ..     102     137 ..      98     138 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00011
          Acetyltransf_CG  32 VpeelrGkGiAkkLvkaalddaree...glkvvptC 64 
                              V +++r+kG+A ++ k+ l+++r +    +kv +tC
  PHY93_20500|PHY93_20500 102 VAPKHRRKGYATAILKESLNYVRIHlpeIKKVLVTC 137
                              89********************97611135666666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (172 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       370  (0.020637); expected 358.6 (0.02)
Passed bias filter:                      328  (0.0182944); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.49u 0.26s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 1187.51
//
Query:       PHY93_05845|PHY93_05845  [L=236]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    2.6e-21   76.5   0.0    5.4e-21   75.5   0.0    1.4  1  RNase_PH    3' exoribonuclease family, domain 1
    8.9e-11   41.7   0.4    3.4e-10   39.8   0.2    1.9  2  RNase_PH_C  3' exoribonuclease family, domain 2


Domain annotation for each model (and alignments):
>> RNase_PH  3' exoribonuclease family, domain 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   75.5   0.0     6e-25   5.4e-21       3     129 ..      14     140 ..      13     142 .. 0.90

  Alignments for each domain:
  == domain 1  score: 75.5 bits;  conditional E-value: 6e-25
                              EEEEEEESSSSTTSEEEEEEECCEEEEEEEEEEEEEE-TCCG--CCEEEECCCCECCCCEC-C...S.....HHHHHHHHHHHHHH CS
                 RNase_PH   3 RslsietgvlsqanGSaylelGdtkvlasvtgpieerpseerddaegaldveveyapfasgerrregr..psdeeielsrlleral 86 
                              R ++  ++  + a+GS+++e+G+tkv+++vt++  + p+ +  + eg+l++e+ + p a+++r+++ r  +s +++e++rl+ r+l
  PHY93_05845|PHY93_05845  14 RTIKYTMNPNPYAKGSVIVECGNTKVYVTVTVDDGVPPFLK-GKGEGWLTAEYSMLPSATHSRNKRERngASGRTQEIQRLIGRSL 98 
                              667777777899**********************9987777.8889*****************6666634777777********** PP

                              CCTC-CCGCCTCEEEEEEEEEECCCS-CHHHCHHHHHHHHHCT CS
                 RNase_PH  87 rpsillekkpkstididitvlssdggslldalinaaslALada 129
                              r+ i l+k  + t++id+ v+ +dg ++   +i +a +ALa a
  PHY93_05845|PHY93_05845  99 RSIIDLKKIGERTVQIDCDVMVADG-GTRTTSISGAYVALAIA 140
                              *************************.**************976 PP

>> RNase_PH_C  3' exoribonuclease family, domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.0      0.18   1.6e+03      15      47 ..     100     131 ..      93     150 .. 0.68
   2 !   39.8   0.2   3.8e-14   3.4e-10       4      67 .]     160     225 ..     158     225 .. 0.94

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 0.18
                              EEES--HHHHHHSSEEEEEEEETTSEEEEEEEE CS
               RNase_PH_C  15 fvlDptkeEedlsegdltlavagtkevvtlmke 47 
                              +++D+ k  e+  + d +++va  +   t +++
  PHY93_05845|PHY93_05845 100 SIIDLKKIGERTVQIDCDVMVADGGTR-TTSIS 131
                              688888887777777777777766655.44444 PP

  == domain 2  score: 39.8 bits;  conditional E-value: 3.8e-14
                              EEEEEEEET.TEEEES--HHHHHHSSEEEEEEEETTSEEEEEEEECSSC.EEHHHHHHHHHHHHHH CS
               RNase_PH_C   4 iavtvgkvd.dqfvlDptkeEedlsegdltlavagtkevvtlmkeggsq.ldeetlleaielAkkg 67 
                              +a++vg+   ++++ D+++eE++ +  d++++++++++ v ++ + +++ ++ e+ll+ +++Ak++
  PHY93_05845|PHY93_05845 160 AAISVGVTKeGKIIADLNYEEDSSCATDMNIVMTKSGKFVEVQGTAEGHpFSHEELLALLDCAKTC 225
                              79*****96377***********9999************************************975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (236 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       454  (0.0253221); expected 358.6 (0.02)
Passed bias filter:                      369  (0.0205812); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.25s 00:00:00.72 Elapsed: 00:00:00.43
# Mc/sec: 1655.86
//
Query:       PHY93_20505|PHY93_20505  [L=129]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.2e-07   32.0   0.0    1.5e-07   31.6   0.0    1.1  1  Glyoxalase_4  Glyoxalase/Bleomycin resistance protein/Dioxyge
      8e-05   22.8   0.0    9.3e-05   22.6   0.0    1.1  1  Glyoxalase    Glyoxalase/Bleomycin resistance protein/Dioxyge
  ------ inclusion threshold ------
       0.13   12.4   0.0       0.66   10.1   0.0    1.9  1  Glyoxalase_3  Glyoxalase-like domain


Domain annotation for each model (and alignments):
>> Glyoxalase_4  Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.6   0.0   2.6e-11   1.5e-07       2      99 ..       8     106 ..       7     115 .. 0.82

  Alignments for each domain:
  == domain 1  score: 31.6 bits;  conditional E-value: 2.6e-11
                              EEEEE-S-HHHHHHHHHH.TT-EESS--E.EETTTTEEEEEEEETTEEEEEEEESSTT...-THHHTS-EEEEEEEEES-HHHHHH CS
             Glyoxalase_4   2 QigivVeDleaavarfsallGvgpwqryrdepqevdlafallgsgsvqieLieplegp...eflaehgeglhhlaywvddldaava 84 
                              ++++ V+++ +a++++ + ++++  ++ ++e ++ +   ++  + +  + L+epl +      l+++g+g+hh+a+ v +l+  ++
  PHY93_20505|PHY93_20505   8 HVALLVPSVRKAADYLRK-FDFQIGKEEEFEGEGTREIYVEGHK-PNSLLLMEPLAKGpyhRALHKRGPGVHHIAIDVLNLELYLE 91 
                              9****************9.9998878888888888776666666.5689******97746677777******************** PP

                              HHCTTTEEEEEEEE- CS
             Glyoxalase_4  85 rleeqGfevvqkgvr 99 
                              + ++ G+ + +  ++
  PHY93_20505|PHY93_20505  92 SIASSGWLLHPMSIK 106
                              ******987665555 PP

>> Glyoxalase  Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.6   0.0   1.6e-08   9.3e-05       2      98 ..       6      97 ..       5     117 .. 0.75

  Alignments for each domain:
  == domain 1  score: 22.6 bits;  conditional E-value: 1.6e-08
                             EEEEEEEESHHHHHHHHHHHHHTSEEEEEEEEEESTEEEEEEEEETTTSEEEE.EEEECCTTSCTHHCCBSCTSEEEEEEEEEHCHHH CS
               Glyoxalase  2 idhvallvgdleksldFYtkvLGfklvkktdnteeteglriaffhaggghiel.vlneapsgaakhvkkieetvhhvafialdvedvg 88
                             + hvallv+ + k++d+ +k ++f++ k++++++e++   +  +h  +  + + +l+  p ++a h       + +v++ia dv +++
  PHY93_20505|PHY93_20505  6 LSHVALLVPSVRKAADYLRK-FDFQIGKEEEFEGEGTREIYVEGHKPNSLLLMePLAKGPYHRALHK-----RGPGVHHIAIDVLNLE 87
                             78**************9999.**********655555555555555544444324555555666665.....7999********9999 PP

                             HHHHHHHHTT CS
               Glyoxalase 89 kaldrlkeag 98
                              +l+ +++ g
  PHY93_20505|PHY93_20505 88 LYLESIASSG 97
                             9999999998 PP

>> Glyoxalase_3  Glyoxalase-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.0   0.00011      0.66       1      38 [.       6      42 ..       6     119 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00011
             Glyoxalase_3  1 lDHvvlavpdleeaaarfarrlGftvtpggehpglgta 38
                             l Hv l+vp+  +aa+++ r+  f++ +  e +g gt+
  PHY93_20505|PHY93_20505  6 LSHVALLVPSVRKAADYL-RKFDFQIGKEEEFEGEGTR 42
                             67**************99.9*99999999998888886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (129 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       264  (0.0147247); expected 358.6 (0.02)
Passed bias filter:                      256  (0.0142785); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.45
# Mc/sec: 853.95
//
Query:       PHY93_20510|PHY93_20510  [L=415]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.7e-10   40.4   0.4    6.2e-05   22.6   0.0    2.5  2  SH3_2     Variant SH3 domain
    6.3e-05   22.7   0.2     0.0013   18.5   0.0    2.6  2  SH3_16    Bacterial dipeptidyl-peptidase Sh3 domain
     0.0022   18.2   7.9       0.13   12.6   0.7    3.6  4  SH3_3     Bacterial SH3 domain
  ------ inclusion threshold ------
      0.018   14.8   4.6       0.15   11.9   0.1    2.9  2  SH3_4     Bacterial SH3 domain


Domain annotation for each model (and alignments):
>> SH3_2  Variant SH3 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.1     2e-06    0.0089       7      56 ..     312     363 ..     307     364 .. 0.80
   2 !   22.6   0.0   1.4e-08   6.2e-05       3      54 ..     369     414 ..     367     415 .] 0.90

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 2e-06
                              -B-SCGCCB--B-TTEEEEEE..EEEECT...TEEEE.EECCCEEEEEGCGEEE CS
                    SH3_2   7 dyvgedkseLsfkkGdvikvlslgskdsd...gwweg.evgGrvGlfPsslvee 56 
                              +y+  +k+++++k G+ +k+   +++ s+   gw ++  ++G  G++  ++++e
  PHY93_20510|PHY93_20510 312 SYETIYKNPIQLKIGENVKIE--KRETSPewlGWVYCvDSRGIAGWVSEKYLKE 363
                              6777799*************8..55555559999666256*********99987 PP

  == domain 2  score: 22.6 bits;  conditional E-value: 1.4e-08
                              EESS-B-SCGCCB--B-TTEEEEEE..EEEECTTEEEEEE.CCCEEEEEGCGE CS
                    SH3_2   3 raiedyvgedkseLsfkkGdvikvlslgskdsdgwwegev.gGrvGlfPsslv 54 
                              ++i+dy++   +eL+  +G+ +k++     +  gw+++ + +G++G++P++++
  PHY93_20510|PHY93_20510 369 VVIKDYDA---TELTAAAGEHLKIY----YEEFGWCWCKNkDGVKGWIPTKNL 414
                              78888888...99************....8888*******9**********97 PP

>> SH3_16  Bacterial dipeptidyl-peptidase Sh3 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.1     0.061   2.7e+02      13      45 ..     322     358 ..     322     361 .. 0.69
   2 !   18.5   0.0   2.9e-07    0.0013      14      48 .]     381     414 ..     376     414 .. 0.94

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.061
                              EE-TT-EEEEEEEE.ET.E.EEEEET.TT--EEEEEG CS
                   SH3_16  13 QalaGrhlrvleea.dg.w.awVqlc.eDgYvGWlpl 45 
                              Q+  G+ +++  ++    w  wV++    g  GW+++
  PHY93_20510|PHY93_20510 322 QLKIGENVKIEKREtSPeWlGWVYCVdSRGIAGWVSE 358
                              6667999999997766668889977514466777765 PP

  == domain 2  score: 18.5 bits;  conditional E-value: 2.9e-07
                              E-TT-EEEEEEEEETEEEEEETTT--EEEEEGGGG CS
                   SH3_16  14 alaGrhlrvleeadgwawVqlceDgYvGWlplsdL 48 
                              a+aG+hl++++e+ gw+w +   Dg  GW+p++ L
  PHY93_20510|PHY93_20510 381 AAAGEHLKIYYEEFGWCWCKNK-DGVKGWIPTKNL 414
                              89****************9999.********9866 PP

>> SH3_3  Bacterial SH3 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.0   0.0      0.24   1.1e+03       3      20 ..     136     151 ..     134     156 .. 0.76
   2 ?   -3.6   0.0       3.2   1.5e+04      33      39 ..     195     201 ..     188     215 .. 0.63
   3 !   12.6   0.7   2.9e-05      0.13      19      55 .]     323     362 ..     321     362 .. 0.87
   4 !    7.4   0.2    0.0012       5.4      19      54 ..     381     414 ..     380     415 .] 0.89

  Alignments for each domain:
  == domain 1  score: 0.0 bits;  conditional E-value: 0.24
                    SH3_3   3 lnvRsgPstssevigtlp 20 
                              ++v ++P++s  +++tl+
  PHY93_20510|PHY93_20510 136 VYVKATPKSS--IVTTLS 151
                              6777778777..***996 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 3.2
                    SH3_3  33 ggeWykv 39 
                              +++W+ v
  PHY93_20510|PHY93_20510 195 DKNWLEV 201
                              3339888 PP

  == domain 3  score: 12.6 bits;  conditional E-value: 2.9e-05
                    SH3_3  19 lpyGekVevleetggge...W.ykvrtddgteGwvssgyls 55 
                              l+ Ge V++ +++   e   W y v ++ g+ Gwvs +yl+
  PHY93_20510|PHY93_20510 323 LKIGENVKIEKRETSPEwlgWvYCV-DSRGIAGWVSEKYLK 362
                              666999999999999997777****.*************96 PP

  == domain 4  score: 7.4 bits;  conditional E-value: 0.0012
                    SH3_3  19 lpyGekVevleetgggeWykvrtddgteGwvssgyl 54 
                                +Ge +++ +e+ g  W+  ++ dg +Gw+ +++l
  PHY93_20510|PHY93_20510 381 AAAGEHLKIYYEEFG--WCWCKNKDGVKGWIPTKNL 414
                              578999999999999..*9999*********99887 PP

>> SH3_4  Bacterial SH3 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   1.0     0.018        79      35      53 ..     342     360 ..     339     363 .. 0.87
   2 ?   11.9   0.1   3.3e-05      0.15      16      54 ..     375     414 ..     372     415 .] 0.85

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.018
                    SH3_4  35 nWcrvrDadGatGWiyqsl 53 
                              +W+  +D++G  GW+ +  
  PHY93_20510|PHY93_20510 342 GWVYCVDSRGIAGWVSEKY 360
                              6999***********9865 PP

  == domain 2  score: 11.9 bits;  conditional E-value: 3.3e-05
                    SH3_4  16 avi.ayleaGvpvrvvackgnWcrvrDadGatGWiyqsll 54 
                               ++  + +aG  +++  ++ +Wc  + +dG  GWi   +l
  PHY93_20510|PHY93_20510 375 DATeLTAAAGEHLKIYYEEFGWCWCKNKDGVKGWIPTKNL 414
                              55556788999999999999***************98877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (415 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       503  (0.0280551); expected 358.6 (0.02)
Passed bias filter:                      442  (0.0246528); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.59u 0.25s 00:00:00.84 Elapsed: 00:00:00.47
# Mc/sec: 2671.28
//
Query:       PHY93_20515|PHY93_20515  [L=102]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (102 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       337  (0.0187964); expected 358.6 (0.02)
Passed bias filter:                      288  (0.0160634); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.43
# Mc/sec: 718.08
//
Query:       PHY93_20520|PHY93_20520  [L=54]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (54 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       247  (0.0137766); expected 358.6 (0.02)
Passed bias filter:                      185  (0.0103185); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.42
# Mc/sec: 386.92
//
Query:       PHY93_20525|PHY93_20525  [L=67]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (67 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       380  (0.0211947); expected 358.6 (0.02)
Passed bias filter:                      273  (0.0152267); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.25s 00:00:00.69 Elapsed: 00:00:00.44
# Mc/sec: 452.62
//
Query:       PHY93_13480|PHY93_13480  [L=1228]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
      9e-05   22.6   0.0        3.5    7.9   0.0    5.5  5  FLgD_tudor  FlgD Tudor-like domain


Domain annotation for each model (and alignments):
>> FLgD_tudor  FlgD Tudor-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.1      0.17   3.1e+03      28      35 ..     175     182 ..     171     205 .. 0.71
   2 ?   -3.3   0.2      0.62   1.1e+04      28      55 ..     311     336 ..     305     338 .. 0.66
   3 ?    1.8   0.5     0.016     3e+02      26      49 ..     427     449 ..     423     455 .. 0.78
   4 !    7.9   0.0   0.00019       3.5       7      45 ..     504     719 ..     466     727 .. 0.85
   5 !    2.9   1.1    0.0071   1.3e+02      27      52 ..    1019    1044 ..    1018    1048 .. 0.83

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.17
                              EEEEEEEE CS
                              xxxxxxxx RF
               FLgD_tudor  28 ygtVdsVs 35 
                              +gtV+sVs
  PHY93_13480|PHY93_13480 175 AGTVTSVS 182
                              67888887 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 0.62
                              EEEEEEEEE.ETTEEEEEETTEE.EECC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
               FLgD_tudor  28 ygtVdsVslstggglmLnLglggtvpls 55 
                              ++ +++V++  g+   LnL  ++  +l+
  PHY93_13480|PHY93_13480 311 TDSITGVVN-VGTIGALNLT-YTPTNLT 336
                              567888888.5555557877.5556655 PP

  == domain 3  score: 1.8 bits;  conditional E-value: 0.016
                              EEEEEEEEEEE.ETTEEEEEET.TE CS
                              xxxxxxxxxxxxxxxxxxxxxx.xx RF
               FLgD_tudor  26 lvygtVdsVslstggglmLnLg.lg 49 
                                +gtV+s s+  +g++ ++++ +g
  PHY93_13480|PHY93_13480 427 TGTGTVTSASI-VDGTI-VDIDiSG 449
                              679********.99999.8887433 PP

  == domain 4  score: 7.9 bits;  conditional E-value: 0.00019
                              TCTTTSEEEEE........................................................................... CS
                              xxxxxxxxxxx........................................................................... RF
               FLgD_tudor   7 asLiGkeVlvp........................................................................... 17 
                                L+  +V+++                                                                           
  PHY93_13480|PHY93_13480 504 LTLVNSGVTAStyksvtvdakgrvtggsnpttlagygitdtlvtgvsvtapitntgtaavplvgmpaattavdgylkavdwntfnn 589
                              55555555555666666667777777777777777777777777777777788888888888888888889999999999999999 PP

                              ...................................................................................... CS
                              ...................................................................................... RF
               FLgD_tudor  18 ...................................................................................... 17 
                                                                                                                    
  PHY93_13480|PHY93_13480 590 kqtaitnisnintgsvttnfqagvvvnpygtlagqtgeirlkelaangstyvalkspdllaasvtytlpnadgsngqvlttnstgg 675
                              99999999999999999999999999999999999999999999999999999999999999999999999999999999999999 PP

                              .................TEEEEE-EEEEEEEEEEEE.ETTEEEEE CS
                              .................xxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
               FLgD_tudor  18 .................GtsvaattlvygtVdsVslstggglmLn 45 
                                               G ++ a+t  +g+V++ ++ ++++++Ln
  PHY93_13480|PHY93_13480 676 lswtsvattgttlvgdiGGTIGANTIGAGKVTATQI-ADNTITLN 719
                              9999999999999999999*****************.99999998 PP

  == domain 5  score: 2.9 bits;  conditional E-value: 0.0071
                               EEEEEEEEEE.ETTEEEEEET.TEE.E CS
                               xxxxxxxxxxxxxxxxxxxxx.xxxxx RF
               FLgD_tudor   27 vygtVdsVslstggglmLnLg.lggtv 52  
                               ++g V+s sl t+g+  L+++ +g+ v
  PHY93_13480|PHY93_13480 1019 TTGVVNSTSLRTNGTNRLSVDiNGN-V 1044
                               689*******8888888***96665.6 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1228 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       599  (0.0334096); expected 358.6 (0.02)
Passed bias filter:                      273  (0.0152267); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.80u 0.29s 00:00:01.09 Elapsed: 00:00:00.48
# Mc/sec: 7751.66
//
Query:       PHY93_13485|PHY93_13485  [L=91]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
      0.015   15.1   1.2       0.02   14.7   1.2    1.4  1  DNA_pol3_delta  DNA polymerase III, delta subunit
      0.025   14.3   1.2       0.03   14.0   1.2    1.1  1  LXG             LXG domain of WXG superfamily
      0.045   12.8   1.3      0.044   12.9   1.3    1.1  1  Atg14           Vacuolar sorting 38 and autophagy-related sub
        0.1   13.1   0.1       0.12   12.9   0.1    1.1  1  Phage_tail_T    Minor tail protein T


Domain annotation for each model (and alignments):
>> DNA_pol3_delta  DNA polymerase III, delta subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   1.2   4.5e-06      0.02      43      88 ..      44      89 ..       6      91 .] 0.77

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 4.5e-06
                             H.HTTTSTTTTSSSSEEEEEEE--.....TT-S-TTHHHHHHHHTT CS
           DNA_pol3_delta 43 ddvleecetlpffsdkrivvlknpklltkesklnekllkeLeeyls 88
                             d++  + e +++fs+ r+++ + ++ l+kes   ++ +k+++++++
  PHY93_13485|PHY93_13485 44 DQIKRSEEGIDLFSKTRVIMSEFTHRLEKESRHLADSVKDFKKQIE 89
                             3366667889*********************************997 PP

>> LXG  LXG domain of WXG superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   1.2   6.6e-06      0.03      53     124 ..      21      90 ..      17      91 .] 0.89

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 6.6e-06
                      LXG  53 nfyadlhlplltslqdlieqyeefLkkikealesvepssngfidedfLeqelenglkkakevteelkdeink 124
                              n ++d +l++l s++dl+++ +e L +ik++ e +++ s++++  +   + le++  ++  ++++ k++i++
  PHY93_13485|PHY93_13485  21 NNFSD-YLKVL-SFNDLMNESNELLDQIKRSEEGIDLFSKTRVIMSEFTHRLEKESRHLADSVKDFKKQIED 90 
                              56788.77776.578899999***************99999999999999******************9975 PP

>> Atg14  Vacuolar sorting 38 and autophagy-related subunit 14
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   1.3   9.9e-06     0.044      33     106 ..      17      90 ..       1      91 [] 0.79

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 9.9e-06
                    Atg14  33 klksekeslkkkiekalegkeeaeqledkiknkkakleelksliadlrerlqelkdklsqlkkeieekkkklak 106
                              + ++ ++s + k+       +e+++l d+ik++ + +++  +++ + +e +++l++  ++l +++++ kk+++ 
  PHY93_13485|PHY93_13485  17 HKRENNFSDYLKVLSFNDLMNESNELLDQIKRSEEGIDLFSKTRVIMSEFTHRLEKESRHLADSVKDFKKQIED 90 
                              555555555555555555555789***********************************************986 PP

>> Phage_tail_T  Minor tail protein T
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.1   2.6e-05      0.12      22      77 ..      10      65 ..       4      84 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 2.6e-05
             Phage_tail_T 22 elgewaeffsensfsdalldaefstlkalvlslvtdkeldaddfsllsapeaveek 77
                             +l +w+++ +en fsd l    f  l      l+ + + + +   l+s++  + ++
  PHY93_13485|PHY93_13485 10 NLNQWKNHKRENNFSDYLKVLSFNDLMNESNELLDQIKRSEEGIDLFSKTRVIMSE 65
                             6889***********************99999999888888888888877665554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (91 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1090  (0.0607954); expected 358.6 (0.02)
Passed bias filter:                      424  (0.0236488); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 612.82
//
Query:       PHY93_13490|PHY93_13490  [L=193]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    6.8e-33  113.2   0.0    9.1e-33  112.8   0.0    1.2  1  AhpC-TSA    AhpC/TSA family
    1.4e-15   57.2   0.0    1.8e-15   56.9   0.0    1.1  1  Redoxin     Redoxin
    6.6e-13   48.3   0.3    1.1e-12   47.6   0.3    1.4  1  1-cysPrx_C  C-terminal domain of 1-Cys peroxiredoxin
  ------ inclusion threshold ------
       0.12   12.3   0.0       0.28   11.1   0.0    1.6  1  SCO1-SenC   SCO1/SenC


Domain annotation for each model (and alignments):
>> AhpC-TSA  AhpC/TSA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  112.8   0.0     2e-36   9.1e-33       1     122 [.       5     136 ..       5     138 .. 0.96

  Alignments for each domain:
  == domain 1  score: 112.8 bits;  conditional E-value: 2e-36
                              TTSB----EEE...STTCEEEEC.HHHTTSEEEEEEESTST-CCHHHHHHHHHHCHHHCCCTTEEEEEEESSSCHHHHHHHHH-H. CS
                 AhpC-TSA   1 vgdkapdfelk...nadgetvsl.sdykgkpvvlffypkdwcpvCttelpalaklyeefkergvevigvsvdspeshkkfiekes. 81 
                              vg+ apdf++    n++ ++ sl +d++gk+ vl+fyp d+++vC+te+ a+++ + +fke+++evig+svds++sh ++ + e+ 
  PHY93_13490|PHY93_13490   5 VGNTAPDFTADavvNGEIKSLSLhNDFAGKWKVLYFYPLDFTFVCPTEITAFEDSLSKFKELNCEVIGCSVDSQFSHLAWTNIERn 90 
                              799********999999999***999******************************************************998888 PP

                              .......SSEEEE-TTSHHHHHTT-EETTTTECSCEEEEE-TTSBEE CS
                 AhpC-TSA  82 ......lnfpllsDeegkvakaygvlkeekglalratfvidkegkir 122
                                    +  pl+sD ++++a++y+vl   + +alr++fvid++ +++
  PHY93_13490|PHY93_13490  91 kgglgkMHHPLVSDLSKNIARSYEVLAG-EAVALRGVFVIDDKNIVQ 136
                              8*************************66.5***************98 PP

>> Redoxin  Redoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.9   0.0   4.1e-19   1.8e-15       2     136 ..       5     144 ..       4     154 .. 0.85

  Alignments for each domain:
  == domain 1  score: 56.9 bits;  conditional E-value: 4.1e-19
                              TTSBB---E.CCEETTCEEEEEHHH.HTTSEEEEEEESTTT-HHHHHTHH.HHHTHHHHHHCSTTTEEEEEESSSHHHHHHHHH.. CS
                  Redoxin   2 agdkaPdft.lplaatdgnsvslse.fkgkkvvvnfvpgafcPtCsaehp.yleklaellkekgvdvvavvadndafvkefwgk.. 82 
                              +g++aPdft ++ ++ + +s+sl+  f+gk +v++f+p  f+ +C +e+  +++ l+++ ke + +v+++++d+ +f   +w++  
  PHY93_13490|PHY93_13490   5 VGNTAPDFTaDAVVNGEIKSLSLHNdFAGKWKVLYFYPLDFTFVCPTEITaFEDSLSKF-KELNCEVIGCSVDS-QFSHLAWTNie 88 
                              79*******644567888999**99*************************777778888.**********8876.67777788778 PP

                              ......TT-TSEEEE-TTSHHHHHTT-TTEEE.GGGEEE-EEEEEEETTEEEEEEESSSC CS
                  Redoxin  83 ......eglkfpvlsDgsaaftkalGlrleedaseglrtpryavidedgkvvylevepep 136
                                     + ++p++sD s+++++++ +     a+e ++++ ++vid+++ v    v + +
  PHY93_13490|PHY93_13490  89 rnkgglGKMHHPLVSDLSKNIARSYEVL----AGEAVALRGVFVIDDKNIVQTATVNNLS 144
                              89999977789***************77....45568***********999888776665 PP

>> 1-cysPrx_C  C-terminal domain of 1-Cys peroxiredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.6   0.3   2.4e-16   1.1e-12       1      40 []     158     193 .]     158     193 .] 0.97

  Alignments for each domain:
  == domain 1  score: 47.6 bits;  conditional E-value: 2.4e-16
                              HHHHHHHHT-BB-TTT.TBT-EEE---SSHHHHHHHHHHT CS
               1-cysPrx_C   1 ALQladkhgvatPAnWkpGdkvivpPpateedavkryleg 40 
                              A+Q+++khg+++PA+W++G+ ++   +++++ ++++y+++
  PHY93_13490|PHY93_13490 158 AYQYTAKHGEVCPAGWTKGKATM---KPDPK-GSQEYFSK 193
                              89*********************...*****.*****986 PP

>> SCO1-SenC  SCO1/SenC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   6.2e-05      0.28      17      66 ..      29      76 ..      18      80 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 6.2e-05
                SCO1-SenC 17 edlegkpslvffgFthCpdvCpttlanmaevldalgeeaekvqplfiTvD 66
                             +d++gk+ +++f     + vCpt+++  ++ l++++e   + +++  +vD
  PHY93_13490|PHY93_13490 29 NDFAGKWKVLYFYPLDFTFVCPTEITAFEDSLSKFKEL--NCEVIGCSVD 76
                             79***********99999*****************998..7777777777 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (193 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       423  (0.0235931); expected 358.6 (0.02)
Passed bias filter:                      380  (0.0211947); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 1309.36
//
Query:       PHY93_13495|PHY93_13495  [L=204]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.3e-73  245.5   0.2    3.8e-73  245.3   0.2    1.0  1  CLP_protease  Clp protease


Domain annotation for each model (and alignments):
>> CLP_protease  Clp protease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  245.3   0.2   2.1e-77   3.8e-73       2     181 ..      18     199 ..      17     200 .. 0.97

  Alignments for each domain:
  == domain 1  score: 245.3 bits;  conditional E-value: 2.1e-77
                              SSSECHHHHHHHHTTTEEEEES-BSHHHHHHHHHHHHHHHHH-SSS-EEEEEEE--B-HHHHHHHHHHHHHSSS-EEEEEEEEEET CS
             CLP_protease   2 kgeraydiysrllkeriiflgseiddevankiiaqLllLeaedpdkdillyinspGGsvtaglaIydtmqyikpdvsticlGlaaS 87 
                              +ger ydiysrll +ri+flg+e++d van i+aq+++Le++d + +i++yinspGGsv agl Iyd+mq+i+++v+t+c+G+aaS
  PHY93_13495|PHY93_13495  18 RGERQYDIYSRLLLDRIVFLGTEVNDMVANLIMAQMMFLEQSDAEAPIHFYINSPGGSVYAGLGIYDIMQHITCPVYTYCVGMAAS 103
                              789*********************************************************************************** PP

                              HHHHHHHTS-TTGEEEETTEEEEES-TEEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHH..TS-HHHHHHHHCSTEEEEHHHHHH CS
             CLP_protease  88 mgslllaagekgkRfalpnarimihqPlggaqgqasdieieaeellkikerlneilakht..gqslekiekdldrdtflsaeeAve 171
                              mgslll+ag+ g+R +lp++rimihqPlgga+gqasdi+i+a+e++ +k +lnei+++h+  g+++eki k++drd++ls+  A+e
  PHY93_13495|PHY93_13495 104 MGSLLLTAGAAGHRHSLPHSRIMIHQPLGGARGQASDIQIQANEIQDLKLQLNEIYVRHSssGMTMEKITKETDRDNYLSPLKAIE 189
                              ********************************************************99853389********************** PP

                              HTSSSEE-SS CS
             CLP_protease 172 yGLideviek 181
                               GLid vi++
  PHY93_13495|PHY93_13495 190 LGLIDVVIDR 199
                              *******986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (204 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       598  (0.0333538); expected 358.6 (0.02)
Passed bias filter:                      525  (0.0292822); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1371.96
//
Query:       PHY93_13500|PHY93_13500  [L=435]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      3e-48  164.2   0.0    4.7e-48  163.5   0.0    1.3  1  AAA_2            AAA domain (Cdc48 subfamily)
    3.6e-18   65.1   8.5    1.3e-17   63.4   8.5    2.0  1  zf-C4_ClpX       ClpX C4-type zinc finger
    7.8e-16   57.9   1.1      2e-15   56.6   0.2    2.2  2  ClpB_D2-small    C-terminal, D2-small domain, of ClpB protein
    1.3e-15   57.9   0.0    3.8e-15   56.5   0.0    1.8  1  AAA              ATPase family associated with various cellul
      2e-05   24.1   0.1     0.0019   17.6   0.2    2.8  2  Mg_chelatase     Magnesium chelatase, subunit ChlI
    4.7e-05   23.4   0.1    0.00036   20.6   0.1    2.3  1  AAA_5            AAA domain (dynein-related subfamily)
    0.00019   21.2   0.2     0.0011   18.8   0.2    2.2  1  RuvB_N           Holliday junction DNA helicase RuvB P-loop d
    0.00025   21.3   0.1     0.0021   18.3   0.1    2.3  1  AAA_22           AAA domain
     0.0003   19.9   0.0    0.00051   19.2   0.0    1.3  1  T2SSE            Type II/IV secretion system protein
     0.0005   19.8   0.0      0.051   13.3   0.0    2.4  2  Sigma54_activat  Sigma-54 interaction domain
     0.0013   18.8   0.0     0.0033   17.5   0.0    1.6  1  Sigma54_activ_2  Sigma-54 interaction domain
     0.0024   18.4   0.1      0.017   15.7   0.0    2.2  2  AAA_18           AAA domain
     0.0044   16.3   0.0     0.0086   15.3   0.0    1.5  1  TIP49            TIP49 P-loop domain
     0.0045   16.1   0.0     0.0084   15.2   0.0    1.4  1  MCM              MCM P-loop domain
      0.006   16.6   0.0      0.038   14.0   0.0    2.3  2  AAA_14           AAA domain
     0.0075   16.3   0.1      0.025   14.6   0.0    1.8  2  TsaE             Threonylcarbamoyl adenosine biosynthesis pro
     0.0076   16.0   0.3      0.052   13.3   0.3    2.5  1  DEAD             DEAD/DEAH box helicase
     0.0076   15.8   0.0      0.018   14.6   0.0    1.7  1  AAA_7            P-loop containing dynein motor region
  ------ inclusion threshold ------
      0.014   15.7   0.2      0.049   14.0   0.0    1.9  2  AAA_16           AAA ATPase domain
      0.016   14.9   0.0      0.037   13.8   0.0    1.5  1  IstB_IS21        IstB-like ATP binding protein
      0.019   14.9   0.0      0.052   13.5   0.0    1.7  1  Rad17            Rad17 P-loop domain
      0.022   14.2   0.0      0.041   13.2   0.0    1.4  1  FtsK_SpoIIIE     FtsK/SpoIIIE family
      0.057   13.5   0.0       0.72   10.0   0.0    2.4  2  SKI              Shikimate kinase
      0.068   13.2   0.1        0.2   11.7   0.1    1.8  2  ResIII           Type III restriction enzyme, res subunit
       0.07   13.1   0.0       0.72    9.8   0.0    2.3  2  NACHT            NACHT domain
      0.079   12.7   0.0       0.18   11.5   0.0    1.6  1  AAA_24           AAA domain
       0.11   12.1   0.2       0.27   10.8   0.0    1.7  2  AAA_25           AAA domain
       0.15   11.8   0.0        0.3   10.8   0.0    1.4  1  AAA_29           P-loop containing region of AAA domain


Domain annotation for each model (and alignments):
>> AAA_2  AAA domain (Cdc48 subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  163.5   0.0   7.4e-51   4.7e-48       3     170 ..     115     310 ..     113     311 .. 0.96

  Alignments for each domain:
  == domain 1  score: 163.5 bits;  conditional E-value: 7.4e-51
                              ---EEEE--TTSSHHHHHHHHHHHTT-....-EEEEEGGG---....----THHHHHHHHHTTT-HHHHTTSEEEEETGGG----. CS
                    AAA_2   3 iisilllgptgvGktelakalaellfvkkekkliradaselle....eeevehlvsrligappgyvgaeegGivllDEidKihpk. 83 
                              +++ill+gptg+Gkt++a++la++l+v    ++++ada++l+e    +e+ve+++ +l+++ +++v+++++Giv++DEidKi++k 
  PHY93_13500|PHY93_13500 115 KSNILLAGPTGSGKTLIAQSLAKFLNV----PFAIADATSLTEagyvGEDVENIILNLLQNCDFDVERAQRGIVYIDEIDKIARKs 196
                              789***********************8....******************************************************* PP

                              ..---------HHHHHHHHHHHH--EE-.........----.--EE-TT-EEEEEE--TTHHHHTTTS-S...............T CS
                    AAA_2  84 ..essgadvSregVqrdLLqileggtlt.........dkqg.rkvdtknilfImtgafgsskisdesrsk...............e 142
                                +s+++dvS+egVq++LL+i+eg+ ++         ++q+  +vdtknilfI++gaf + +++ e+r++               +
  PHY93_13500|PHY93_13500 197 enPSITRDVSGEGVQQALLKIVEGTIASvppkggrkhPQQEfIQVDTKNILFICAGAFVGLDKIIEKRMTkrpmglisekseaaqS 282
                              999**********************************99999****************9999988888888*********999888 PP

                              TTTSGGG--HHHHHHTT--HHHHTT--E CS
                    AAA_2 143 eeeekkkeeveeelkkglipEllgRlpe 170
                                e++   e+e++ k+glipE++gRlp+
  PHY93_13500|PHY93_13500 283 VIEKMGGIEPEDLSKFGLIPEFIGRLPV 310
                              888889999*****************96 PP

>> zf-C4_ClpX  ClpX C4-type zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.4   8.5     2e-20   1.3e-17       1      38 [.      12      48 ..      12      49 .. 0.94

  Alignments for each domain:
  == domain 1  score: 63.4 bits;  conditional E-value: 2e-20
               zf-C4_ClpX  1 krCSFCgksesevkklIagpngvyICdeCvelcneiie 38
                             ++C FCgks++evkklIagp g yICdeC+elcn+ii 
  PHY93_13500|PHY93_13500 12 LHCNFCGKSQKEVKKLIAGP-GCYICDECIELCNDIIF 48
                             59******************.69*************96 PP

>> ClpB_D2-small  C-terminal, D2-small domain, of ClpB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0       9.8   6.3e+03       4      24 ..      81     101 ..      79     108 .. 0.81
   2 !   56.6   0.2   3.1e-18     2e-15       1      73 [.     317     393 ..     317     399 .. 0.95

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 9.8
                              HHHHHHHHHHHHHHHHHSCTT CS
            ClpB_D2-small   4 eelkkIvdlalkklekrlker 24 
                              +  kkI+  a+++ +kr++++
  PHY93_13500|PHY93_13500  81 DRAKKIISVAVHNHYKRISHK 101
                              567899999999999999765 PP

  == domain 2  score: 56.6 bits;  conditional E-value: 3.1e-18
                              SCHHHHHHHHHH...HHHHHHHHSCT.TTEEEEEHHHHHHHHHHHTSBTTTBTCCHHHHHHHHTHHHHHHHHHTTSS CS
            ClpB_D2-small   1 LtkeelkkIvdl...alkklekrlke.rgvelevtdealdalaekgydpeyGARpLrriiqreiedplaeeilsgel 73 
                              L++e+l++I+++   al k++++l e +g+ele++ +al+ +a+++ ++++GAR+Lr i+++ ++d+++e+++++++
  PHY93_13500|PHY93_13500 317 LDEEALVSILTEpknALTKQYAKLFEyEGIELEFEVSALREVARQALERRTGARGLRAILEQSMLDVMYEVPSNEKV 393
                              89**********************99899******************************************998875 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.5   0.0   5.9e-18   3.8e-15       1     111 [.     118     254 ..     118     269 .. 0.83

  Alignments for each domain:
  == domain 1  score: 56.5 bits;  conditional E-value: 5.9e-18
                              EEEESSTTSSHHHHHHHHHHHHTHEEEEEETTTCS.SSSTTHHHHHHH.HHHHHHHHTS...TSEEEEEETGGGHHHHH...TTCC CS
                      AAA   1 vllyGppGtGKTllakavakelgvefleisgsell.skyvgesekkir.elfkeakeka...kpsilfiDEidalaksr...sgse 78 
                              +ll Gp G GKTl+a+++ak l+v+f   ++++l+   yvge  ++i  +l++++       +  i+ iDEid++a+++   s + 
  PHY93_13500|PHY93_13500 118 ILLAGPTGSGKTLIAQSLAKFLNVPFAIADATSLTeAGYVGEDVENIIlNLLQNCDFDVeraQRGIVYIDEIDKIARKSenpSITR 203
                              69*********************************667***99888652788887433345456***************9887789 PP

                              CHHHHHHHHHHHHHHHHTTTS..................SSTEEEEEEESS CS
                      AAA  79 seeeervvnqLlteldgvkkk..................eskvivigatnr 111
                              + ++e v+++Ll+ ++g   +                  ++++++i+a+  
  PHY93_13500|PHY93_13500 204 DVSGEGVQQALLKIVEGTIASvppkggrkhpqqefiqvdTKNILFICAGAF 254
                              99999************9988899999999999888888666888888765 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.2   2.9e-06    0.0019      20      47 ..     113     140 ..      75     159 .. 0.85
   2 ?    2.9   0.0     0.096        62     101     121 ..     175     195 ..     169     199 .. 0.88

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 2.9e-06
             Mg_chelatase  20 aGgHnlllvGppGsGKtmlakrlpsllp 47 
                                + n+ll+Gp GsGKt++a+ l++ l 
  PHY93_13500|PHY93_13500 113 LAKSNILLAGPTGSGKTLIAQSLAKFLN 140
                              44679******************99874 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.096
             Mg_chelatase 101 eislahnGvLfLDElpefkrk 121
                              ++ +a++G++++DE+ ++ rk
  PHY93_13500|PHY93_13500 175 DVERAQRGIVYIDEIDKIARK 195
                              6889***********999886 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.6   0.1   5.6e-07   0.00036       1      46 [.     117     162 ..     117     198 .. 0.68

  Alignments for each domain:
  == domain 1  score: 20.6 bits;  conditional E-value: 5.6e-07
                              EEEEE--SSSSHHHHHHHGGGGBS--EEEEE--TT--HHHHH--B- CS
                    AAA_5   1 dvlLvGppGtgKselaerlaaalnreveyvqltrdtteedlkgrre 46 
                              ++lL Gp+G+gK+ +a++la++ln ++ +   t+ t++  +   +e
  PHY93_13500|PHY93_13500 117 NILLAGPTGSGKTLIAQSLAKFLNVPFAIADATSLTEAGYVGEDVE 162
                              689***********************99988888776655555444 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.2   1.7e-06    0.0011      32     101 ..     114     197 ..      69     201 .. 0.65

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 1.7e-06
                   RuvB_N  32 aldhvllyGpPGlGkttlakiiakelgvklkitsgPvlekag....dlaalltnl..........eekdvlfideihrlsrave 101
                              a   +ll+Gp G Gkt +a+ +ak l+v + i+ +  l +ag    d+  ++ nl           ++ +++idei +++r+ e
  PHY93_13500|PHY93_13500 114 AKSNILLAGPTGSGKTLIAQSLAKFLNVPFAIADATSLTEAGyvgeDVENIILNLlqncdfdverAQRGIVYIDEIDKIARKSE 197
                              34579******************************9999987444466666555422222222222456899999999998877 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.1   3.3e-06    0.0021       5      65 ..     115     166 ..     112     216 .. 0.73

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 3.3e-06
                   AAA_22   5 agilvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsstsskdllrellralg 65 
                              ++ +++ G++G+GKT+ ++ l++ l         +++++  +++s+t+   + +++ +++ 
  PHY93_13500|PHY93_13500 115 KSNILLAGPTGSGKTLIAQSLAKFL---------NVPFAIADATSLTEAGYVGEDVENIIL 166
                              67899********************.........899999999988866655555555554 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.2   0.0   7.9e-07   0.00051     116     154 ..     105     140 ..      64     152 .. 0.82

  Alignments for each domain:
  == domain 1  score: 19.2 bits;  conditional E-value: 7.9e-07
                    T2SSE 116 ekiaevlrkavrerglilvsGgTgsGKttllyallkein 154
                              ++  +v++ a   + +il++G+TgsGKt ++ +l k++n
  PHY93_13500|PHY93_13500 105 PRKTDVVELA---KSNILLAGPTGSGKTLIAQSLAKFLN 140
                              5556777777...99****************99999887 PP

>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.0     8e-05     0.051      17      44 ..     110     137 ..      98     154 .. 0.84
   2 ?    3.8   0.0     0.065        41      89     106 ..     176     193 ..     172     198 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 8e-05
                              HHCTSSS-EEEECSTTSSHHHHHHHHHH CS
          Sigma54_activat  17 kvaktdlsvlitGesGtGKellaraihe 44 
                               v   ++++l+ G +G+GK+l+a+++ +
  PHY93_13500|PHY93_13500 110 VVELAKSNILLAGPTGSGKTLIAQSLAK 137
                              45567899****************9865 PP

  == domain 2  score: 3.8 bits;  conditional E-value: 0.065
                              HHHTTTSEEEEETGGGS- CS
          Sigma54_activat  89 fekadgGtlfLDeigelp 106
                              +e+a+ G++++Dei ++ 
  PHY93_13500|PHY93_13500 176 VERAQRGIVYIDEIDKIA 193
                              799***********9986 PP

>> Sigma54_activ_2  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.0   5.1e-06    0.0033      16      83 ..     110     194 ..     106     199 .. 0.76

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 5.1e-06
                              HHHT-SS-EEEEEETT--HHHHHHCC--TTS-EE--SSTTHHHH-H.................HHHHHHTTTSEEEEEE-TT--H CS
          Sigma54_activ_2  16 qaaqsklpvfltGekGsgkelvArlLhknsgpwleifvverlaklp.................ldlleqakggtLylkdiadlsk 83 
                              +++ +k++++l+G+ Gsgk+l+A+ L+k+     +i++  +l ++                     +e+a+ g+ y+ +i+++ +
  PHY93_13500|PHY93_13500 110 VVELAKSNILLAGPTGSGKTLIAQSLAKFLNVPFAIADATSLTEAGyvgedveniilnllqncDFDVERAQRGIVYIDEIDKIAR 194
                              5667899**********************99988888887777644666777777755544421124558999999999999876 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.0       2.3   1.5e+03      71     119 ..      52     107 ..      11     115 .. 0.69
   2 !   15.7   0.0   2.6e-05     0.017       1      25 [.     118     158 ..     118     221 .. 0.70

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 2.3
                   AAA_18  71 leegknlvidghlaeleseaakdikk.......vvLtaspeelleRlekRgyeeak 119
                              + ++   ++d ++  +e  a  d++         ++ +  + +++R++  +  ++k
  PHY93_13500|PHY93_13500  52 QKSNTKSIVDNVPKPHEIKAHLDNYVigqdrakKIISVAVHNHYKRISHKNGDPRK 107
                              34445558888888888777777766667777745555556677777777655554 PP

  == domain 2  score: 15.7 bits;  conditional E-value: 2.6e-05
                   AAA_18   1 IlltGtpGvGKttlakeLskrlgf................g 25 
                              Ill+G+ G+GKt +a+ L+k l++                g
  PHY93_13500|PHY93_13500 118 ILLAGPTGSGKTLIAQSLAKFLNVpfaiadatslteagyvG 158
                              99****************99887777655555555544432 PP

>> TIP49  TIP49 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   1.3e-05    0.0086      48      87 ..     113     150 ..      67     169 .. 0.89

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 1.3e-05
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                    TIP49  48 laGravLlaGpsgtGktalaiaiskelgedvpfvalsgse 87 
                              la   +LlaGp+g+Gkt +a +++k l+  vpf++  ++ 
  PHY93_13500|PHY93_13500 113 LAKSNILLAGPTGSGKTLIAQSLAKFLN--VPFAIADATS 150
                              56678*********************98..9999887765 PP

>> MCM  MCM P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0   1.3e-05    0.0084      21     137 ..      72     196 ..      54     205 .. 0.73

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 1.3e-05
                              HSSTTSSS-HHHHHHHHHHHH---EBBBSSSSB.......BCSS-EEEEEESSTSTHHHHHHHHHHHSSSEEEEE.SSSSSSSHSS CS
                      MCM  21 siapsiyghedvkkaillqlfggvkkkledktk.......lrgdinvllvgdpgtaKsqlLkyveklapravyts.gkgssaagLt 98 
                               +   ++g++  kk i +++   +k+ ++++           ++ n+ll g  g +K+ + ++++k+++    +  +++ ++ag +
  PHY93_13500|PHY93_13500  72 HLDNYVIGQDRAKKIISVAVHNHYKRISHKNGDprktdvvELAKSNILLAGPTGSGKTLIAQSLAKFLNVPFAIAdATSLTEAGYV 157
                              555667788888888888887777776655444111122234678*********************99887665515667899999 PP

                              SEEEEESSSSSEEEEET.HHHHTTTSEEEEESGGGSTCHH CS
                      MCM  99 aavvrdeetgefvleaG.alvladkGvcciDefdkmkeed 137
                                 v +   + +  ++   +  a++G+++iDe+dk+ ++ 
  PHY93_13500|PHY93_13500 158 GEDVENIILN-LLQNCDfDVERAQRGIVYIDEIDKIARKS 196
                              9988655555.5555551566799***********98765 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.0   0.0   5.9e-05     0.038       5      77 ..     118     193 ..     114     224 .. 0.69
   2 ?   -1.0   0.0       2.7   1.7e+03       3      13 ..     408     418 ..     406     431 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 5.9e-05
                   AAA_14   5 lvitGaRrvGKTtllkqlikellvkkesilyinldderdkkladpekllelileklke.......ekktylflDEiqevp 77 
                              +++ G+  +GKT +++ l+k l      +   +  + +++ +   e+++++il++l++        ++ ++++DEi ++ 
  PHY93_13500|PHY93_13500 118 ILLAGPTGSGKTLIAQSLAKFLN---VPFAIADATSLTEAGYVG-EDVENIILNLLQNcdfdverAQRGIVYIDEIDKIA 193
                              7899***********99996666...334444444433333332.3677777777655667788889999******9983 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 2.7
                   AAA_14   3 kilvitGaRrv 13 
                               ++vi+G+Rr+
  PHY93_13500|PHY93_13500 408 APKVIEGPRRS 418
                              579******97 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0       5.7   3.7e+03      49      77 ..      53      81 ..      42     100 .. 0.65
   2 !   14.6   0.0   3.8e-05     0.025      18      48 ..     114     145 ..      97     161 .. 0.82

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 5.7
                             --TTTTSEEEEEE..SSEEEEE-TT-SST CS
                     TsaE 49 kSPTFtlveeYelekeglyHfDlYRlede 77
                             kS T ++v +  + +e   H+D Y + ++
  PHY93_13500|PHY93_13500 53 KSNTKSIVDNVPKPHEIKAHLDNYVIGQD 81
                             56666666666554444689999988543 PP

  == domain 2  score: 14.6 bits;  conditional E-value: 3.8e-05
                              HTEEEEEEESTTSSHHHHHHHHHHHTT--.-- CS
                     TsaE  18 lgdvilLeGdLGaGKTtlvrglakalgve.ev 48 
                              +++ ilL G+ G+GKT ++++lak l+v  ++
  PHY93_13500|PHY93_13500 114 AKSNILLAGPTGSGKTLIAQSLAKFLNVPfAI 145
                              3577********************99986655 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.3   8.1e-05     0.052      13      33 ..     114     134 ..     107     398 .. 0.59

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 8.1e-05
                              TTCEEEEEESTTSSHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  13 gggdvlvaaeTGsGKTlafli 33 
                               + ++l+a++TGsGKTl+++ 
  PHY93_13500|PHY93_13500 114 AKSNILLAGPTGSGKTLIAQS 134
                              4689*************9753 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.6   0.0   2.7e-05     0.018      32      58 ..     114     140 ..     108     194 .. 0.79

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 2.7e-05
                    AAA_7  32 nkkpvllvGptGtGKtviikdllkkld 58 
                              +k ++ll GptG+GKt+i+++l k l+
  PHY93_13500|PHY93_13500 114 AKSNILLAGPTGSGKTLIAQSLAKFLN 140
                              5789*****************998777 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   7.6e-05     0.049      25      49 ..     116     140 ..     106     219 .. 0.86
   2 ?   -2.2   0.0       7.5   4.8e+03      91     105 ..     353     367 ..     310     397 .. 0.55

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 7.6e-05
                   AAA_16  25 elvllsGesGvGKsslvrellrale 49 
                              +++ll G+ G+GK+ ++++l++ l+
  PHY93_13500|PHY93_13500 116 SNILLAGPTGSGKTLIAQSLAKFLN 140
                              789*****************98765 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 7.5
                   AAA_16  91 saeleawrekleeal 105
                              sa++e +r++le+++
  PHY93_13500|PHY93_13500 353 SALREVARQALERRT 367
                              223333333333333 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   5.8e-05     0.037      46      69 ..     114     137 ..      85     140 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 5.8e-05
                IstB_IS21  46 kkenivllGpsGvGKshlaialgv 69 
                              +k ni+l Gp+G GK+ +a +l++
  PHY93_13500|PHY93_13500 114 AKSNILLAGPTGSGKTLIAQSLAK 137
                              578*****************9985 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   8.1e-05     0.052      21      71 ..      89     141 ..      80     162 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 8.1e-05
                    Rad17  21 lavhk..kkieevk.ewlkadvLesrkkriLLisGPsGCgkstvvkvLskelgi 71 
                              +avh   k+i++ + +  k+dv+e +k +iL ++GP+G gk+ + + L+k l +
  PHY93_13500|PHY93_13500  89 VAVHNhyKRISHKNgDPRKTDVVELAKSNIL-LAGPTGSGKTLIAQSLAKFLNV 141
                              666542255655432567999****977775.69****************8865 PP

>> FtsK_SpoIIIE  FtsK/SpoIIIE family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   6.5e-05     0.041      27      59 ..     102     135 ..      92     137 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 6.5e-05
                              TS-EEEEEGGGS-..SEEEE--TTSSHHHHHHHH CS
             FtsK_SpoIIIE  27 sgnplvldlkkma.shllvaGatgsGKStalntL 59 
                               g+p ++d ++ a s++l+aG tgsGK+   ++L
  PHY93_13500|PHY93_13500 102 NGDPRKTDVVELAkSNILLAGPTGSGKTLIAQSL 135
                              5889999*********************887776 PP

>> SKI  Shikimate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.0    0.0011      0.72       2      25 ..     125     148 ..     124     165 .. 0.87
   2 ?    0.7   0.0      0.81   5.2e+02      20      45 ..     254     279 ..     251     286 .. 0.84

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.0011
                              TSSHHHHHHHHHHHHTSEEEEHHH CS
                      SKI   2 GaGKstvGkllAkklglefiDlDe 25 
                              G+GK+ +++ lAk l+++f  +D 
  PHY93_13500|PHY93_13500 125 GSGKTLIAQSLAKFLNVPFAIADA 148
                              9******************87665 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.81
                              EEEHHHHHHHHHTS-HHHHHHHHHHH CS
                      SKI  20 fiDlDeliekrtgksiaeifeeegee 45 
                              f+ lD++iekr+ k+   ++ e+ e+
  PHY93_13500|PHY93_13500 254 FVGLDKIIEKRMTKRPMGLISEKSEA 279
                              8999********99988888877776 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       7.3   4.7e+03     133     141 ..      31      39 ..      15      78 .. 0.68
   2 ?   11.7   0.1   0.00031       0.2      24      46 ..     115     137 ..      50     153 .. 0.83

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 7.3
                              -SEEEEETG CS
                   ResIII 133 fdviiiDEa 141
                                ++i+DE+
  PHY93_13500|PHY93_13500  31 PGCYICDEC 39 
                              447888887 PP

  == domain 2  score: 11.7 bits;  conditional E-value: 0.00031
                              TSEEEEEESTTSTHHHHHHHHHH CS
                   ResIII  24 dkrglikmaTGtGKTlvaaklie 46 
                              + ++l++ +TG+GKTl+a +l++
  PHY93_13500|PHY93_13500 115 KSNILLAGPTGSGKTLIAQSLAK 137
                              45899************988876 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.0    0.0011      0.72       3      22 ..     118     137 ..     116     146 .. 0.89
   2 ?    0.1   0.0         1   6.4e+02      77     100 ..     176     205 ..     166     236 .. 0.73

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.0011
                              EEEEC-TTTCHHHHHHHHHH CS
                    NACHT   3 vilqGeaGsGKTtLlqklal 22 
                              ++l G+ GsGKT  +q+la 
  PHY93_13500|PHY93_13500 118 ILLAGPTGSGKTLIAQSLAK 137
                              789***************97 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 1
                              CCSCCCEEEEEE-STT-SS-TCH....... CS
                    NACHT  77 lelperlLlilDglDelvtdlgq......k 100
                              +e+++r    +D +D+++++ ++       
  PHY93_13500|PHY93_13500 176 VERAQRGIVYIDEIDKIARKSENpsitrdV 205
                              78999************9977664444432 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00028      0.18       2      35 ..     115     156 ..     114     208 .. 0.66

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00028
                   AAA_24   2 klkiliyGpsgiGKTtlakelgpkplfi.........dtekGl 35 
                              k +il+ Gp g+GKT +a +l  k+l +          te+G+
  PHY93_13500|PHY93_13500 115 KSNILLAGPTGSGKTLIAQSL-AKFLNVpfaiadatsLTEAGY 156
                              5689*****************.888877555455555555555 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   0.00042      0.27      33      54 ..     115     136 ..     104     144 .. 0.89
   2 ?   -2.7   0.0       5.5   3.6e+03     139     160 ..     178     198 ..     159     214 .. 0.77

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00042
                   AAA_25  33 gelallaGapgtGKttlaldla 54 
                              ++ +llaG++g+GKt +a +la
  PHY93_13500|PHY93_13500 115 KSNILLAGPTGSGKTLIAQSLA 136
                              66789**************998 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 5.5
                   AAA_25 139 evegvrlvviDplsralggden 160
                              + ++ + v+iD ++++ + +en
  PHY93_13500|PHY93_13500 178 R-AQRGIVYIDEIDKIARKSEN 198
                              4.45678999999999888887 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   0.00048       0.3      16      38 ..     110     131 ..     103     140 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00048
                   AAA_29  16 tieidlkgatlltGpsGsGKSTl 38 
                              ++e+  + ++ll+Gp+GsGK+ +
  PHY93_13500|PHY93_13500 110 VVELAKS-NILLAGPTGSGKTLI 131
                              5666644.6***********754 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (435 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       652  (0.0363657); expected 358.6 (0.02)
Passed bias filter:                      544  (0.0303419); expected 358.6 (0.02)
Passed Vit filter:                       123  (0.00686039); expected 17.9 (0.001)
Passed Fwd filter:                        28  (0.00156172); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              28  [number of targets reported over threshold]
# CPU time: 0.68u 0.29s 00:00:00.97 Elapsed: 00:00:00.49
# Mc/sec: 2671.86
//
Query:       PHY93_05850|PHY93_05850  [L=233]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    0.00027   20.8   0.0    0.00061   19.7   0.0    1.6  1  BPL_LplA_LipB  Biotin/lipoate A/B protein ligase family
  ------ inclusion threshold ------
       0.17   11.8   0.0       0.35   10.8   0.0    1.5  1  Nebulin        Nebulin repeat


Domain annotation for each model (and alignments):
>> BPL_LplA_LipB  Biotin/lipoate A/B protein ligase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.7   0.0   6.8e-08   0.00061       4     131 .]       8     126 ..       5     128 .. 0.72

  Alignments for each domain:
  == domain 1  score: 19.7 bits;  conditional E-value: 6.8e-08
                              EES-HHHHHH..GCGGG--TT-EEE...EEEESS-B....-B--B-TTSEEEEEEEEESS...-CCGTHHHHHHHHHHHHHHH... CS
            BPL_LplA_LipB   4 vikstntllkeslnsselesgglvv...vrrqtgGr....nvwhspkgeltyslllspeqktfqnrvlelyvsllvlavlealgyr 82 
                              +i+st+ +lk  +n+++l+s  ++v    ++qt G     n w      l++s++l+p +      ++ l  +++ l v++     
  PHY93_05850|PHY93_05850   8 SIPSTQIYLK--DNLDTLKSSDPDVlisCSEQTHGIgrrgNNWDTYPNSLALSFTLRPND------IATLTPLEIGLIVINFF--- 82 
                              5677766666..566666665555522268999998889999988888999999999553......55666788888888877... PP

                              ...HHTT-TTEEEETTTEEEE.TTEEEEEEEEEEEETTS-EEEEEEEEEE CS
            BPL_LplA_LipB  83 dskpgiegipvfikwpnDlyv.ngrKlaGiavtstrgktlhhivigvgvn 131
                                 +   +   f kwpnD++  +g+K +Gi+++ + +     iv+g+g+n
  PHY93_05850|PHY93_05850  83 ---KIKFNKDLFLKWPNDILTsDGKKCGGILCQYVDQ---DTIVVGLGIN 126
                              ...44557778899*****999**********98884...4455555555 PP

>> Nebulin  Nebulin repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   3.9e-05      0.35       5      21 ..     154     170 ..     150     171 .. 0.93

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 3.9e-05
                  Nebulin   5 iehAkkasklqSdvkYK 21 
                              +++++ +s+l+Sd +YK
  PHY93_05850|PHY93_05850 154 FDQVRISSELYSDLLYK 170
                              689*************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (233 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       332  (0.0185175); expected 358.6 (0.02)
Passed bias filter:                      278  (0.0155056); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.25s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1512.18
//
Query:       PHY93_13505|PHY93_13505  [L=173]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    6.5e-32  109.6   0.0    9.5e-32  109.1   0.0    1.3  1  ORF6N       ORF6N domain
  ------ inclusion threshold ------
      0.035   14.6   0.0      0.054   14.0   0.0    1.3  1  Phage_pRha  Phage regulatory protein Rha (Phage_pRha)


Domain annotation for each model (and alignments):
>> ORF6N  ORF6N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  109.1   0.0   1.1e-35   9.5e-32       2      84 .]      14      99 ..      13      99 .. 0.97

  Alignments for each domain:
  == domain 1  score: 109.1 bits;  conditional E-value: 1.1e-35
                    ORF6N  2 kiyeirgqrVmldkdlAelYevetkrlnqavkrnkeRFpedfmfqLtkeele..rsqiatl.krgskskylpylfTEqGvlmlakv 84
                             +i  irgq+Vm d+dlA+lY+vetk ln++vkrn +RFp dfmfqLt+ee++  r+q+ t+ + +++++y+p++f E+Gv+ml++v
  PHY93_13505|PHY93_13505 14 MICIIRGQKVMQDSDLARLYGVETKVLNRQVKRNLNRFPADFMFQLTEEEMQnlRCQFGTSsSDYGGRRYNPFVFSENGVAMLSSV 99
                             7899********************************************************9888999****************986 PP

>> Phage_pRha  Phage regulatory protein Rha (Phage_pRha)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   6.1e-06     0.054       5      87 ..      28     120 ..      24     121 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 6.1e-06
               Phage_pRha   5 eiAelfgkrHknVlrdIrkliedleefgkelnfe.............eseykdsngretkvylltrdgftllvmgftgkkavefka 77 
                              + A l g + k + r++++    l++f  ++ f+              +++ d  gr+++ + + ++g+ +l   ++ ++a+e+ +
  PHY93_13505|PHY93_13505  28 DLARLYGVETKVLNRQVKRN---LNRFPADFMFQlteeemqnlrcqfGTSSSDYGGRRYNPFVFSENGVAMLSSVLSSERAIEINI 110
                              67888888888888899888...444555522333334455566776444555568****************************** PP

               Phage_pRha  78 ayidrFnele 87 
                              a+ + F +l+
  PHY93_13505|PHY93_13505 111 AIMRTFTKLR 120
                              ******9997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (173 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       517  (0.028836); expected 358.6 (0.02)
Passed bias filter:                      376  (0.0209716); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 1191.11
//
Query:       PHY93_13510|PHY93_13510  [L=802]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.7e-90  301.0   2.8    1.5e-89  299.0   2.4    2.1  2  Lon_C           Lon protease (S16) C-terminal proteolytic dom
    1.5e-38  132.8   1.0    1.5e-38  132.8   1.0    2.0  2  LON_substr_bdg  ATP-dependent protease La (LON) substrate-bin
      4e-23   82.3   0.0    1.1e-22   80.9   0.0    1.7  1  AAA             ATPase family associated with various cellula
    3.7e-10   39.9   0.0    1.4e-09   38.0   0.0    2.1  1  AAA_5           AAA domain (dynein-related subfamily)
    1.7e-08   34.4   0.3      5e-08   32.8   0.2    1.9  1  ChlI            Subunit ChlI of Mg-chelatase
    4.3e-06   25.9   0.0    9.6e-06   24.7   0.0    1.5  1  AAA_PrkA        PrkA AAA domain
    1.2e-05   25.1   0.0    2.8e-05   24.0   0.0    1.6  1  AAA_3           ATPase family associated with various cellula
    2.6e-05   24.7   0.2     0.0002   21.8   0.1    2.5  2  AAA_16          AAA ATPase domain
    6.8e-05   22.7   0.0    0.00094   19.0   0.0    2.4  1  RuvB_N          Holliday junction DNA helicase RuvB P-loop do
    0.00014   22.4   1.2    0.00046   20.7   0.0    2.6  2  AAA_18          AAA domain
    0.00017   21.8   0.1     0.0077   16.5   0.1    2.6  1  AAA_22          AAA domain
    0.00028   20.7   0.0    0.00061   19.6   0.0    1.5  1  IstB_IS21       IstB-like ATP binding protein
    0.00035   20.7   0.5      0.001   19.2   0.0    2.0  1  AAA_2           AAA domain (Cdc48 subfamily)
     0.0017   18.3   0.0      0.006   16.5   0.0    1.9  1  Rad17           Rad17 P-loop domain
     0.0022   18.0   0.0      0.008   16.2   0.0    2.0  1  AAA_14          AAA domain
     0.0041   17.1   0.0      0.049   13.5   0.0    2.6  3  RsgA_GTPase     RsgA GTPase
     0.0049   17.3   0.1      0.031   14.7   0.0    2.4  2  RNA_helicase    RNA helicase
  ------ inclusion threshold ------
      0.011   15.9   0.5      0.078   13.1   0.0    2.3  2  AAA_33          AAA domain
      0.015   15.2   2.1       0.22   11.4   0.0    3.2  3  NTPase_1        NTPase
      0.029   13.6   0.8      0.072   12.3   0.0    2.0  2  NB-ARC          NB-ARC domain
      0.033   14.0   0.1       0.97    9.3   0.0    2.8  2  Hen1_Lam_C      Hen1 La-motif C-terminal domain
      0.034   14.2   0.0        0.1   12.6   0.0    1.8  1  TsaE            Threonylcarbamoyl adenosine biosynthesis prot
      0.041   13.3   0.1       0.52    9.7   0.0    2.3  2  Mg_chelatase    Magnesium chelatase, subunit ChlI
       0.06   13.9   2.0       0.62   10.6   0.0    2.5  2  ABC_tran        ABC transporter
      0.071   12.8   0.0       0.18   11.5   0.0    1.7  1  AAA_24          AAA domain
      0.073   12.3   0.0      0.073   12.3   0.0    2.6  3  TIP49           TIP49 P-loop domain
      0.099   12.5   0.1       0.58   10.1   0.0    2.2  2  NACHT           NACHT domain
       0.25   10.9   0.8       0.51    9.9   0.1    1.8  2  AAA_25          AAA domain
       0.27   11.7   0.0       0.27   11.7   0.0    2.7  2  AAA_17          AAA domain
       0.67    9.7   5.6        2.2    8.0   0.0    2.2  2  AAA_11          AAA domain


Domain annotation for each model (and alignments):
>> Lon_C  Lon protease (S16) C-terminal proteolytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0       1.5   8.7e+02     172     193 ..     472     493 ..     462     498 .. 0.83
   2 !  299.0   2.4   2.5e-92   1.5e-89       2     203 ..     574     775 ..     573     777 .. 0.99

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 1.5
                              GGGGTTTS-HHHHTS-B--EES CS
                    Lon_C 172 nekdlediPeevreeleiilve 193
                               ++dl++iP  +r+ +eii ++
  PHY93_13510|PHY93_13510 472 TANDLSKIPGPLRDRMEIIHIS 493
                              4689**************9886 PP

  == domain 2  score: 299.0 bits;  conditional E-value: 2.5e-92
                              E-TTTTHHHH-S-SS--SSSSS--BSSEEEEEEEETTEEEEEEEEEEEESS-S-EEEEES--HHHHHHHHHHHHHHTSS-GGGSS- CS
                    Lon_C   2 vtakeleellGkkrfrseeaekedqvGvvtGlawtevGGdlltieavllpgkgklkltGklgdvmkesaqaalsyvrsraeelgid 87 
                              vt+k+l ++lG +r++s  +e+ +q+G v Glawt+vGG+ll ie+v+++g+gk+++tGklg+vm+esa+aalsyvrs + +lgi+
  PHY93_13510|PHY93_13510 574 VTSKQLPKFLGPRRYDSTDIESGSQIGLVNGLAWTSVGGELLHIEVVTVEGNGKIQITGKLGEVMQESAKAALSYVRSISGRLGIS 659
                              899*********************************************************************************** PP

                              SS-TTT-EEEEEE-S-B-GGGGGGGHHHHHHHHHHHHTS--B-TTBEE--EE-TT-BEE--S-HHHHHHHHHHTT-SBEEEEGGGG CS
                    Lon_C  88 kevfekkdihihvPeGavPkdGPsaGvtlatalvslltgkkvrkdvamtGeitLrGrvlpiGGlkekllaakragikkvilPkene 173
                              +e ++k+dihihvPeG +PkdGPsaGvt++tal+s++tg++v+++vamtGe+t+rGrvlpiGGlkekllaak+ag+k+vi+P +n 
  PHY93_13510|PHY93_13510 660 HEWYNKNDIHIHVPEGGTPKDGPSAGVTMVTALTSAITGIAVHQNVAMTGEVTIRGRVLPIGGLKEKLLAAKHAGVKTVIIPAKNV 745
                              ************************************************************************************** PP

                              GGTTTS-HHHHTS-B--EESBHHHHHHHHB CS
                    Lon_C 174 kdlediPeevreeleiilveevdevlkaal 203
                              kdl+diP+e++++leii++++v+evlk+al
  PHY93_13510|PHY93_13510 746 KDLADIPQEIQDGLEIIPCSHVEEVLKVAL 775
                              ****************************98 PP

>> LON_substr_bdg  ATP-dependent protease La (LON) substrate-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  132.8   1.0   2.5e-41   1.5e-38       2     206 ..      11     200 ..      10     202 .. 0.90
   2 ?   -1.2   0.2       2.6   1.6e+03      88     108 ..     212     248 ..     199     297 .. 0.41

  Alignments for each domain:
  == domain 1  score: 132.8 bits;  conditional E-value: 2.5e-41
           LON_substr_bdg   2 lpllpldnkvlfPgitlpltvsrpksiaaierlldkdkpyigvflvkesqkdaide.esiselysvGtvarIvqilrlddgrikvv 86 
                               pllpl+++++fP++++pl v+r+ksi+a+e++ + +++   +flv  +q+da+   ++ +++y+vG+v+ I+q+lrl+d+++kv+
  PHY93_13510|PHY93_13510  11 FPLLPLRDMIIFPHMVVPLFVGREKSISALEEAQRNNNE---IFLV--TQRDASVLnPDREDIYEVGVVVNIIQMLRLPDNTVKVL 91 
                              59***********************************99...****..************************************** PP

           LON_substr_bdg  87 legleRvkikkl.ekekeegylvaeveiieddsepedsdslqkelkalvqeiiekikkslarellkllleielllkyedlenpyrL 171
                              +eg  R+++k + +    egy  aeve+      +e +d   + l+a++++i   +++   + +l++  + ell ++ ++++p+rL
  PHY93_13510|PHY93_13510  92 IEGKYRARLKTFeS--GPEGY-FAEVEKC----SSETKDP--VTLEATIRSIKGIFEQ---YVKLNKRIPPELLMSISSITDPSRL 165
                              ************33..47777.8888777....3333333..6888888888777774...677777789**************** PP

           LON_substr_bdg 172 adlvaailpfsneekqelLeeldvedRlkkvlelL 206
                              ad++ a+l ++ +ekqe+Le+  v +Rl+++le +
  PHY93_13510|PHY93_13510 166 ADIMVAHLTMKISEKQEILEAVEVGKRLELLLEKM 200
                              *******************************9977 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 2.6
           LON_substr_bdg  88 egleRvkikklekekeegyl.................v 108
                              +  +Rvk +  ek ++e yl                  
  PHY93_13510|PHY93_13510 212 RIRTRVKTQM-EKSQKEYYLneqmnaiqkelgqkddgK 248
                              3333333322.232233333333333222222222222 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   80.9   0.0   1.8e-25   1.1e-22       1     127 [.     353     490 ..     353     494 .. 0.95

  Alignments for each domain:
  == domain 1  score: 80.9 bits;  conditional E-value: 1.8e-25
                              EEEESSTTSSHHHHHHHHHHHHTHEEEEEETTTCSSS.........STTHHHHHHHHHHHHHHHTSTSEEEEEETGGGHHHHHTTC CS
                      AAA   1 vllyGppGtGKTllakavakelgvefleisgsellsk.........yvgesekkirelfkeakekakpsilfiDEidalaksrsgs 77 
                              ++l GppG+GKT++ak++a++lg++f +is+  ++++         yvg+++ k+ + +k+a +++    +++DEid++ ++    
  PHY93_13510|PHY93_13510 353 LCLAGPPGVGKTSIAKSLAESLGRSFQRISLGGVRDEseirghrrtYVGAMPGKLMMALKKAGTSN--PLILLDEIDKMSSDM--- 433
                              589********************************7789***********************9998..9**********6666... PP

                              CCHHHHHHHHHHHHHHHHTTTS............SSTEEEEEEESSGGGSTHHHHSTTSSEE CS
                      AAA  78 eseeeervvnqLlteldgvkkk............eskvivigatnrpdkldpallrgRfdrk 127
                                  + + ++++l++ld +++k             skv++++++n+ +k++ +l+ +R++++
  PHY93_13510|PHY93_13510 434 ----RGDPASAMLEVLDPEQNKafsdhyieveydLSKVMFVMTANDLSKIPGPLR-DRMEII 490
                              ....99****************************999******************.***875 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.0   0.0   2.4e-12   1.4e-09       2     138 .]     353     487 ..     352     487 .. 0.80

  Alignments for each domain:
  == domain 1  score: 38.0 bits;  conditional E-value: 2.4e-12
                              EEEE--SSSSHHHHHHHGGGGBS--EEEEE--TT--HHHHH--B--.........--------....G-SEEEEESGGG--HHH.. CS
                    AAA_5   2 vlLvGppGtgKselaerlaaalnreveyvqltrdtteedlkgrreikngttslvdsplvraar....egeilvlDEveraesev.. 81 
                              ++L GppG+gK+++a++la+ l+r+++ + l     e++++g+r++        +++l+ a +    +  +++lDE+++++s++  
  PHY93_13510|PHY93_13510 353 LCLAGPPGVGKTSIAKSLAESLGRSFQRISLGGVRDESEIRGHRRTY---VGAMPGKLMMALKkagtSNPLILLDEIDKMSSDMrg 435
                              79*******************************************85...33445555555555554999***********98844 PP

                              ..HHHHHHHHHSSEEE..-SSSEEE---......-EEEEEESS--.-TT-TTHHHHTT- CS
                    AAA_5  82 ..lnsLlslleerrllleeggelvkaknddllerfrviatanpldrslnelspalrsRf 138
                                ++++l +l+ ++   + +++++ ++ d  l+++++++tan+l+    ++  +lr+R+
  PHY93_13510|PHY93_13510 436 dpASAMLEVLDPEQNK-AFSDHYIEVEYD--LSKVMFVMTANDLS----KIPGPLRDRM 487
                              4467899999988888.556666666654..56799999999999....7777777775 PP

>> ChlI  Subunit ChlI of Mg-chelatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.8   0.2   8.4e-11     5e-08       1     121 []     617     744 ..     617     744 .. 0.96

  Alignments for each domain:
  == domain 1  score: 32.8 bits;  conditional E-value: 8.4e-11
                     ChlI   1 vevdvskglpkftivGlpdtavkeskervrsalkn.......sgfefpakkitvnLaPadlkkeGsafDLpiAigilaaleqieae 79 
                              +ev + +g+ k++i+G + + ++es +   s +++       s+  ++++ i + +     +k+G++   ++  ++ +a+  i+++
  PHY93_13510|PHY93_13510 617 IEVVTVEGNGKIQITGKLGEVMQESAKAALSYVRSisgrlgiSHEWYNKNDIHIHVPEGGTPKDGPSAGVTMVTALTSAITGIAVH 702
                              7899999********************9999999998898888888999************************************* PP

                     ChlI  80 eetlflGeLsldGslrpvkgvlpialaakkegikkvivpken 121
                              +++ + Ge+ + G++ p+ g+ + +laak++g+k+vi+p++n
  PHY93_13510|PHY93_13510 703 QNVAMTGEVTIRGRVLPIGGLKEKLLAAKHAGVKTVIIPAKN 744
                              ***************************************998 PP

>> AAA_PrkA  PrkA AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.7   0.0   1.6e-08   9.6e-06      49     112 ..     310     374 ..     305     385 .. 0.86

  Alignments for each domain:
  == domain 1  score: 24.7 bits;  conditional E-value: 1.6e-08
                 AAA_PrkA  49 snetikkypafeedffGleetiekiveyfraaaqrleerk.qilyllGPvggGksslverlkkll 112
                              +n++ +  ++++++ +G++++ e+ivey+   +   ee k  il l GP g Gk+s++++l + l
  PHY93_13510|PHY93_13510 310 NNSVPRAREILDDHHYGMKDVKERIVEYLAVRSLLKEEGKgTILCLAGPPGVGKTSIAKSLAESL 374
                              466667778899999***************9998887766389***************9998776 PP

>> AAA_3  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.0   0.0   4.7e-08   2.8e-05       4     107 ..     355     471 ..     352     481 .. 0.73

  Alignments for each domain:
  == domain 1  score: 24.0 bits;  conditional E-value: 4.7e-08
                    AAA_3   4 legvPGlaktllvkalakaldlefkriqftpdllPsdilGtevfeeke....kefefkkGpvfanllladeinrappktq....sa 81 
                              l g PG++kt ++k+la++l+ +f+ri +      s+i G++     +      + +kk    + l+l dei++ ++ ++    sa
  PHY93_13510|PHY93_13510 355 LAGPPGVGKTSIAKSLAESLGRSFQRISLGGVRDESEIRGHRRTYVGAmpgkLMMALKKAGTSNPLILLDEIDKMSSDMRgdpaSA 440
                              7899***************************999******8644333224436788999999************988764334489 PP

                    AAA_3  82 lleameerqv.tve....gethklpepflvl 107
                              +le+++ +q  +++    +  ++l++ ++v+
  PHY93_13510|PHY93_13510 441 MLEVLDPEQNkAFSdhyiEVEYDLSKVMFVM 471
                              9999985543133311113345566666665 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.0       3.5   2.1e+03       2      17 ..      30      45 ..      29      54 .. 0.80
   2 !   21.8   0.1   3.4e-07    0.0002      12      52 ..     340     380 ..     331     446 .. 0.71

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 3.5
                   AAA_16  2 lvGReeeleqLlsale 17
                             +vGRe+ +++L++a +
  PHY93_13510|PHY93_13510 30 FVGREKSISALEEAQR 45
                             8*******99988765 PP

  == domain 2  score: 21.8 bits;  conditional E-value: 3.4e-07
                   AAA_16  12 LlsalervrsgrpelvllsGesGvGKsslvrellralekd..g 52 
                              ++s+l+   +g + ++ l G++GvGK+s++++l+++l ++  +
  PHY93_13510|PHY93_13510 340 VRSLLK--EEGKGTILCLAGPPGVGKTSIAKSLAESLGRSfqR 380
                              566776..566679***********************999430 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.0   0.0   1.6e-06   0.00094      10     155 ..     325     489 ..     317     492 .. 0.55

  Alignments for each domain:
  == domain 1  score: 19.0 bits;  conditional E-value: 1.6e-06
                   RuvB_N  10 igqekvkeklkifiea.akkreeald.hvllyGpPGlGkttlakiiakelgvklkitsgPvlekagdlaa............lltn 81 
                               g ++vke++  +++  +  +ee     + l+GpPG+Gkt++ak +a+ lg +++  s   +  ++++ +            l++ 
  PHY93_13510|PHY93_13510 325 YGMKDVKERIVEYLAVrSLLKEEGKGtILCLAGPPGVGKTSIAKSLAESLGRSFQRISLGGVRDESEIRGhrrtyvgampgkLMMA 410
                              57777777765443331223344444045589********************9988775544433333211111111111112333 PP

                   RuvB_N  82 lee....kdvlfideihrlsraveevlysamedfrldivigkGpsarsikl..dlpkftlvgattragllssPlrdrfgi 155
                              l++    + ++++dei ++s+ +     sam +  ld   +k  s + i++  dl+k  +v ++   + +  Plrdr+ i
  PHY93_13510|PHY93_13510 411 LKKagtsNPLILLDEIDKMSSDMRGDPASAMLE-VLDPEQNKAFSDHYIEVeyDLSKVMFVMTANDLSKIPGPLRDRMEI 489
                              332111145666777777777777666666655.3566666666665544322566666666666667777777777665 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.1       7.5   4.5e+03      57      70 ..     268     286 ..     218     324 .. 0.56
   2 !   20.7   0.0   7.7e-07   0.00046       2      24 ..     354     376 ..     353     470 .. 0.87

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 7.5
                   AAA_18  57 ldklldaleenss.....a 70 
                               dk  ++l++  s     a
  PHY93_13510|PHY93_13510 268 KDKTTKELKKLKSmspmsA 286
                              3333333333333333221 PP

  == domain 2  score: 20.7 bits;  conditional E-value: 7.7e-07
                   AAA_18   2 lltGtpGvGKttlakeLskrlgf 24 
                              +l+G+pGvGKt++ak L+++lg 
  PHY93_13510|PHY93_13510 354 CLAGPPGVGKTSIAKSLAESLGR 376
                              89******************943 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.1   1.3e-05    0.0077       4      49 ..     349     385 ..     345     473 .. 0.73

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 1.3e-05
                   AAA_22   4 tagilvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlps 49 
                              + +il++ G++G+GKT  ++ l+e+l         ++++ ++ l +
  PHY93_13510|PHY93_13510 349 KGTILCLAGPPGVGKTSIAKSLAESL---------GRSFQRISLGG 385
                              6789*********************9.........44444444444 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   0.0     1e-06   0.00061      15     119 ..     316     428 ..     307     452 .. 0.65

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 1e-06
                IstB_IS21  15 aqktledidfraarsldkrkvkeLatlsfiekk...enivllGpsGvGKshlaialgveavraglsvlfvrvedLveelkrarrd. 96 
                              a++ l+d ++  + ++++r+v+ La  s ++++     ++l Gp+GvGK+ +a +l+ +  r+  +++   v+d   e++ +rr  
  PHY93_13510|PHY93_13510 316 AREILDDHHYGMK-DVKERIVEYLAVRSLLKEEgkgTILCLAGPPGVGKTSIAKSLAESLGRSFQRISLGGVRDES-EIRGHRRTy 399
                              5667778777766.99**********9999865222568999***************9998887777766666532.333333321 PP

                IstB_IS21  97 .....gklaralkrllkv.dllilDdlgl 119
                                   gkl  alk+   +  l++lD++  
  PHY93_13510|PHY93_13510 400 vgampGKLMMALKKAGTSnPLILLDEIDK 428
                              22222566666666555534555666654 PP

>> AAA_2  AAA domain (Cdc48 subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.2   0.0   1.8e-06     0.001       7     128 ..     354     474 ..     349     504 .. 0.78

  Alignments for each domain:
  == domain 1  score: 19.2 bits;  conditional E-value: 1.8e-06
                              EEE--TTSSHHHHHHHHHHHTT-....-EEEEEGGG-------THHHHHHHHHTTT-HHH..HTTS....EEEEETGGG------- CS
                    AAA_2   7 lllgptgvGktelakalaellfvkkekkliradaselleeeevehlvsrligappgyvga..eegG....ivllDEidKihpkess 86 
                               l+gp gvGkt +ak+lae l     +++ r+    +  e e++      +ga pg      ++ G     +llDEidK ++    
  PHY93_13510|PHY93_13510 354 CLAGPPGVGKTSIAKSLAESLG----RSFQRISLGGVRDESEIRGHRRTYVGAMPGKLMMalKKAGtsnpLILLDEIDKMSS---- 431
                              579******************9....6888888888888777888888888888876544114555889*************.... PP

                              ------HHHHHHHHHHHH--EE-...----.--EE-TT-EEEEEE- CS
                    AAA_2  87 gadvSregVqrdLLqileggtlt...dkqg.rkvdtknilfImtga 128
                                d+ r +   ++L +l+  + +   d++   + d ++++f+mt +
  PHY93_13510|PHY93_13510 432 --DM-RGDPASAMLEVLDPEQNKafsDHYIeVEYDLSKVMFVMTAN 474
                              ..33.44678899999986554444466655788888899999887 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0     1e-05     0.006      31      76 ..     334     381 ..     311     398 .. 0.75

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 1e-05
                    Rad17  31 vkewlkadvLesrkkr..iLLisGPsGCgkstvvkvLskelgiklrew 76 
                              + e+l   +L +++ +  iL ++GP+G gk+ + k L+  lg +++  
  PHY93_13510|PHY93_13510 334 IVEYLAVRSLLKEEGKgtILCLAGPPGVGKTSIAKSLAESLGRSFQRI 381
                              345667777655544456************************999875 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0   1.3e-05     0.008       3      76 ..     351     429 ..     349     500 .. 0.66

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 1.3e-05
                   AAA_14   3 kilvitGaRrvGKTtllkqlikellvkkesilyinldderdkkla.dpe.........kllelileklke..ekktylflDEiqev 76 
                               il++ G+  vGKT ++k l+++l    +s+  i+l   rd+++    +         kl+ +++    +    + +++lDEi ++
  PHY93_13510|PHY93_13510 351 TILCLAGPPGVGKTSIAKSLAESLG---RSFQRISLGGVRDESEIrGHRrtyvgampgKLMMALK----KagTSNPLILLDEIDKM 429
                              7999*****************8888...8888888877777332211112345533323333333....23468899******998 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.5   0.0   8.2e-05     0.049      92     131 ..     343     382 ..     299     395 .. 0.84
   2 ?   -2.5   0.0       7.1   4.3e+03      46      79 ..     415     464 ..     406     491 .. 0.54
   3 ?   -0.6   0.0       1.8   1.1e+03      37     111 ..     725     801 ..     719     801 .. 0.70

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 8.2e-05
                              HHHHHCTTSEEEEECSTTSSHHHHHHHHCTT-----S--- CS
              RsgA_GTPase  92 elkellkdktsvlvGqSGvGKStLinallpelelktgevs 131
                               lke+ k+ + +l+G+ GvGK+++ ++l+++l  + + +s
  PHY93_13510|PHY93_13510 343 LLKEEGKGTILCLAGPPGVGKTSIAKSLAESLGRSFQRIS 382
                              467778889********************99877777776 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 7.1
                              T-.EEEEEEE-GGG--HHH...............HHHHHHHHHHHTTSEE CS
              RsgA_GTPase  46 gi.epvivlnKiDlleeee...............eleelkeelealgyev 79 
                              g  +p+i+l  iD ++++                + +++++++ +++y++
  PHY93_13510|PHY93_13510 415 GTsNPLILLDEIDKMSSDMrgdpasamlevldpeQNKAFSDHYIEVEYDL 464
                              43377777777777776664444444444444444555555555555554 PP

  == domain 3  score: -0.6 bits;  conditional E-value: 1.8
                              HHHHHHHHTT-EEEEEEE-..GGG--HHHHHHHHHHHHHHTTSEEEE--TTTHTTHHHHHHHCTTSEEEEECSTTSS CS
              RsgA_GTPase  37 rfLvlaeekgiepvivlnK..iDlleeeeeleelkeelealgyevllvsaktkegleelkellkdktsvlvGqSGvG 111
                                L++a+++g++ vi+  K   Dl++  +e+++  e +    +e +l  a + ++ e+  ++++  ++v+ G  G+G
  PHY93_13510|PHY93_13510 725 EKLLAAKHAGVKTVIIPAKnvKDLADIPQEIQDGLEIIPCSHVEEVLKVALDLNQPEKFMQVVAPTLTVVDGDRGMG 801
                              56778888888888887773348887777777777777666666555556667777888888888888888888877 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.1       5.2   3.1e+03      45      82 ..     228     263 ..     196     286 .. 0.65
   2 !   14.7   0.0   5.1e-05     0.031       2      27 ..     354     391 ..     353     473 .. 0.78

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 5.2
             RNA_helicase  45 dgYtgqevvvidDfgqvkdeenpsdlaelirlvsstpy 82 
                              +  ++q   +  ++gq+ d+  + d++e+ +    +++
  PHY93_13510|PHY93_13510 228 YYLNEQMNAIQKELGQKDDG--KTDIQEMEERLAAKKM 263
                              34447777777888888888..3366665555555444 PP

  == domain 2  score: 14.7 bits;  conditional E-value: 5.1e-05
             RNA_helicase   2 wlyGpsgeGKStlakeLakallkkl............k 27 
                              +l Gp+g+GK+++ak+La++l +++            +
  PHY93_13510|PHY93_13510 354 CLAGPPGVGKTSIAKSLAESLGRSFqrislggvrdesE 391
                              899******************98885555554444444 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.1       1.8   1.1e+03     105     137 ..     248     279 ..     247     281 .. 0.79
   2 ?   13.1   0.0   0.00013     0.078       3      29 ..     354     382 ..     352     402 .. 0.88

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 1.8
                   AAA_33 105 etdeetlkeRlakRaangddrsevpeealdrqk 137
                              +td ++++eRla+++ + d++ + +++ l++ k
  PHY93_13510|PHY93_13510 248 KTDIQEMEERLAAKKMP-DEAKDKTTKELKKLK 279
                              589999*********98.555688888877665 PP

  == domain 2  score: 13.1 bits;  conditional E-value: 0.00013
                   AAA_33   3 llvGlpGsGKstlaerllkklg..avlls 29 
                               l G+pG+GK+  a++l++ lg  ++++s
  PHY93_13510|PHY93_13510 354 CLAGPPGVGKTSIAKSLAESLGrsFQRIS 382
                              578*******************9988887 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.2       7.1   4.3e+03      89     119 ..     173     205 ..     161     235 .. 0.57
   2 ?   11.4   0.0   0.00037      0.22       3      38 ..     354     391 ..     352     400 .. 0.73
   3 ?    1.5   0.0      0.41   2.5e+02      86     112 ..     408     434 ..     398     453 .. 0.74

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 7.1
                              HHHHH.HHH-EEEE---ST.TGGG-HHHHHHHH CS
                 NTPase_1  89 lrkal.seadviviDEiGk.mElkskkfkeave 119
                              l+ ++ ++++++   E+Gk +El  +k++ ++e
  PHY93_13510|PHY93_13510 173 LTMKIsEKQEILEAVEVGKrLELLLEKMQGEIE 205
                              444442233344444555435555555555543 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 0.00037
                              EEE--TTSSHHHHHHHHHHHH.....GGGEEEEEEEEE CS
                 NTPase_1   3 fiTGppGvGKtTlvkkvlellkss..gvkvgGfyteev 38 
                              ++ GppGvGKt + k ++e l +s   +++gG+  e  
  PHY93_13510|PHY93_13510 354 CLAGPPGVGKTSIAKSLAESLGRSfqRISLGGVRDESE 391
                              689******************77543566667665544 PP

  == domain 3  score: 1.5 bits;  conditional E-value: 0.41
                              HHHHHHHHHHH-EEEE---STTGGG-H CS
                 NTPase_1  86 lealrkalseadviviDEiGkmElksk 112
                              + al+ka +++ +i++DEi km   ++
  PHY93_13510|PHY93_13510 408 MMALKKAGTSNPLILLDEIDKMSSDMR 434
                              568889988999**********77665 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.3       5.7   3.4e+03      66      91 ..     231     256 ..     219     272 .. 0.67
   2 ?   12.3   0.0   0.00012     0.072      10      51 ..     341     378 ..     331     392 .. 0.79

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 5.7
                              HHHHHXXHHHHHCCCTTSSSS-STTS CS
                   NB-ARC  66 eeiletilkeLslseddleekeeves 91 
                              +e +++i keL++++d     +e e+
  PHY93_13510|PHY93_13510 231 NEQMNAIQKELGQKDDGKTDIQEMEE 256
                              45577788888888776555555544 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 0.00012
                              HHHHCTTTSCSEEEEEEESTTSSHHHHHHHHCCSHCCCCCCB CS
                   NB-ARC  10 ekLlekdelqslvvalvGmgGvGKttlakqilnksdevegrF 51 
                                Ll++++ +  ++ l G +GvGKt +ak+  ++   + + F
  PHY93_13510|PHY93_13510 341 RSLLKEEGKG-TILCLAGPPGVGKTSIAKSLAES---LGRSF 378
                              4577566666.8*****************98776...55555 PP

>> Hen1_Lam_C  Hen1 La-motif C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.0      0.57   3.4e+02      14      42 ..     215     246 ..     203     254 .. 0.66
   2 ?    9.3   0.0    0.0016      0.97       7      44 ..     761     798 ..     759     800 .. 0.94

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.57
                              S--EEEEEEEBTTC-HHH....HHHHCTT-S-C CS
               Hen1_Lam_C  14 kvveavtlnisseeyYld....viaekLglkda 42 
                              + v+  +++ s++eyYl+    +i ++Lg kd 
  PHY93_13510|PHY93_13510 215 TRVK-TQMEKSQKEYYLNeqmnAIQKELGQKDD 246
                              4444.46788999***85222268899998885 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.0016
                              EE-SSTTS--EEEEEEEBTTC-HHHHHHHCTT-S-CCC CS
               Hen1_Lam_C   7 lipcslekvveavtlnisseeyYldviaekLglkdask 44 
                              +ipcs+ ++v +v l++++ e +++v+a +L++ d+++
  PHY93_13510|PHY93_13510 761 IIPCSHVEEVLKVALDLNQPEKFMQVVAPTLTVVDGDR 798
                              59*********************************976 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   0.00017       0.1      18      46 ..     344     377 ..     326     382 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 0.00017
                              H.....TEEEEEEESTTSSHHHHHHHHHHHTT-- CS
                     TsaE  18 l.....gdvilLeGdLGaGKTtlvrglakalgve 46 
                              l     g++++L G+ G+GKT ++++la++lg +
  PHY93_13510|PHY93_13510 344 LkeegkGTILCLAGPPGVGKTSIAKSLAESLGRS 377
                              133345778*********************9865 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   0.0   0.00087      0.52      25      47 ..     353     375 ..     342     393 .. 0.86
   2 ?    0.4   0.0      0.58   3.4e+02     181     196 ..     475     490 ..     465     500 .. 0.82

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.00087
             Mg_chelatase  25 lllvGppGsGKtmlakrlpsllp 47 
                              l l+GppG GKt +ak l++ l 
  PHY93_13510|PHY93_13510 353 LCLAGPPGVGKTSIAKSLAESLG 375
                              6799*************987665 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.58
             Mg_chelatase 181 YlsklsgplldRidlq 196
                               lsk+ gpl dR+++ 
  PHY93_13510|PHY93_13510 475 DLSKIPGPLRDRMEII 490
                              5799*********984 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.5   0.9      0.65   3.9e+02      57     106 ..     200     255 ..     172     283 .. 0.53
   2 ?   10.6   0.0     0.001      0.62      10      42 ..     349     381 ..     346     458 .. 0.81

  Alignments for each domain:
  == domain 1  score: 1.5 bits;  conditional E-value: 0.65
                              CCHCEEEE-SS--S-TTSBHHHH......HHHTCHHHHHHHSTTGGTTCBGESTTS CS
                              xxxxxxxxxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  57 lrkeigvlpqepqlfpeltvren......esdeeiekalsklglkelkdtvvkssp 106
                              ++ ei+++  e ++  +++ + +      + +e+++++ ++lg+k++ +t +++  
  PHY93_13510|PHY93_13510 200 MQGEIEIINVERRIRTRVKTQMEksqkeyYLNEQMNAIQKELGQKDDGKTDIQEME 255
                              33333333333333222222211334444444555555555555554444443332 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 0.001
                              TTSEEEEEESTTSSHHHHHHHHTTSS--SEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  10 egekvaivGenGaGKStLlkllagllkpteGei 42 
                              +g+++ + G+ G GK++++k la+ l     +i
  PHY93_13510|PHY93_13510 349 KGTILCLAGPPGVGKTSIAKSLAESLGRSFQRI 381
                              6999******************98776655555 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00031      0.18       4      22 ..     352     370 ..     349     380 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00031
                   AAA_24   4 kiliyGpsgiGKTtlakel 22 
                               +++ Gp+g+GKT++ak+l
  PHY93_13510|PHY93_13510 352 ILCLAGPPGVGKTSIAKSL 370
                              689**************98 PP

>> TIP49  TIP49 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   3.3         3   1.8e+03     105     169 ..     171     240 ..     158     258 .. 0.66
   2 ?   12.3   0.0   0.00012     0.073      42      81 ..     343     381 ..     326     389 .. 0.81
   3 ?   -2.5   0.1       3.7   2.2e+03     164     193 ..     516     545 ..     498     571 .. 0.70

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 3
                              XXXXXXXXX-S-EEE....EEEEEEEE...-SSS-..TTS--EEEEEE-..SS-EEEEEE-HHHHHHHHHH CS
                    TIP49 105 ksigvrikeekevle....Gevveleveeaenplskekkikevkitlkt..akeekklklgskiaeellke 169
                                + ++i e++e+le    G+  el +e+++ +++  +  + ++  +kt  +k +k++ l++++  +++ke
  PHY93_13510|PHY93_13510 171 AHLTMKISEKQEILEavevGKRLELLLEKMQGEIEIINVERRIRTRVKTqmEKSQKEYYLNEQMN-AIQKE 240
                              55778999999999844344456777777777777555555555555551156778888888764.45555 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 0.00012
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                    TIP49  42 likekklaGravLlaGpsgtGktalaiaiskelgedvpfv 81 
                              l+ke+   G  + laGp+g Gkt++a +++++lg++   +
  PHY93_13510|PHY93_13510 343 LLKEEG-KGTILCLAGPPGVGKTSIAKSLAESLGRSFQRI 381
                              555544.578899*********************886555 PP

  == domain 3  score: -2.5 bits;  conditional E-value: 3.7
                              HHHHHHT--TT-EEEEETTT--EEE-SSS- CS
                    TIP49 164 eellkekvkegDviviekesGkvkklGrse 193
                              + l  ++v++gD+ +++  +G  k  G  e
  PHY93_13510|PHY93_13510 516 NGLVDHEVQMGDICMMDIIRGWSKEAGVRE 545
                              457888999999999999999888877554 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.0   0.00097      0.58       3      26 ..     353     376 ..     351     381 .. 0.88
   2 ?   -1.4   0.0       3.2   1.9e+03      84      99 ..     420     435 ..     402     448 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00097
                              EEEEC-TTTCHHHHHHHHHHHHCT CS
                    NACHT   3 vilqGeaGsGKTtLlqklalawae 26 
                              ++l G++G+GKT  +++la+ + +
  PHY93_13510|PHY93_13510 353 LCLAGPPGVGKTSIAKSLAESLGR 376
                              799****************98865 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 3.2
                              EEEEE-STT-SS-TCH CS
                    NACHT  84 LlilDglDelvtdlgq 99 
                              L++lD +D++++d++ 
  PHY93_13510|PHY93_13510 420 LILLDEIDKMSSDMRG 435
                              799********99876 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.1       7.5   4.5e+03      86     134 ..     209     255 ..     191     262 .. 0.54
   2 ?    9.9   0.1   0.00086      0.51      31      54 ..     348     371 ..     335     378 .. 0.84

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 7.5
                   AAA_25  86 lrrRlra.vgealrddarllvldlagv.eslpLfakdrggtlltadvdale 134
                              ++rR+r  v ++++  ++++ l+ +    +  L +kd+g t ++    ++e
  PHY93_13510|PHY93_13510 209 VERRIRTrVKTQMEKSQKEYYLNEQMNaIQKELGQKDDGKTDIQ----EME 255
                              45555542445555556666666433333344555554444443....333 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 0.00086
                   AAA_25  31 pagelallaGapgtGKttlaldla 54 
                               +g++  laG+pg+GKt +a +la
  PHY93_13510|PHY93_13510 348 GKGTILCLAGPPGVGKTSIAKSLA 371
                              5789999*************9998 PP

>> AAA_17  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   1.0       9.4   5.6e+03      59      71 ..     231     243 ..     193     280 .. 0.56
   2 ?   11.7   0.0   0.00045      0.27       2      29 ..     357     386 ..     356     434 .. 0.83

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 9.4
                              HHHHHHHHHHHHS CS
                   AAA_17  59 keaaekiaeeakk 71 
                               e +++i++e ++
  PHY93_13510|PHY93_13510 231 NEQMNAIQKELGQ 243
                              3333333333322 PP

  == domain 2  score: 11.7 bits;  conditional E-value: 0.00045
                              E-TTSSHHHHHHHHHHHH..TEEEEEHHHH CS
                   AAA_17   2 GgPGsGKgtqceklveky..gfthlsaGdl 29 
                              G+PG+GK+ +++ l+e +   f+ +s G +
  PHY93_13510|PHY93_13510 357 GPPGVGKTSIAKSLAESLgrSFQRISLGGV 386
                              9*****************555888888864 PP

>> AAA_11  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   4.2      0.63   3.7e+02     103     172 ..     203     280 ..     159     296 .. 0.51
   2 ?    8.0   0.0    0.0036       2.2       9      41 ..     339     374 ..     336     416 .. 0.80

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.63
                   AAA_11 103 avksvsleekvekrlekee........kaqlakeiskeleklakelrafeeeeekeklkkskekskskleqerrklkk 172
                              +++ + +e++++ r + ++         +++++ i+kel ++++   + +e ee+ + kk  ++ k+k ++e++klk+
  PHY93_13510|PHY93_13510 203 EIEIINVERRIRTRVKTQMeksqkeyyLNEQMNAIQKELGQKDDGKTDIQEMEERLAAKKMPDEAKDKTTKELKKLKS 280
                              444444444444444333332223333444445555555444444433333333334444444444444444444444 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.0036
                   AAA_11   9 aiksalsese...itliqGPPGtgKTktivellsql 41 
                              a++s l+e++   i ++ GPPG gKT+   +l ++l
  PHY93_13510|PHY93_13510 339 AVRSLLKEEGkgtILCLAGPPGVGKTSIAKSLAESL 374
                              6777777777777999**********8877777766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (802 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1376  (0.0767472); expected 358.6 (0.02)
Passed bias filter:                      726  (0.0404931); expected 358.6 (0.02)
Passed Vit filter:                       101  (0.00563333); expected 17.9 (0.001)
Passed Fwd filter:                        31  (0.00172904); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              30  [number of targets reported over threshold]
# CPU time: 0.94u 0.33s 00:00:01.27 Elapsed: 00:00:00.51
# Mc/sec: 4719.39
//
Query:       PHY93_13520|PHY93_13520  [L=193]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.8e-32  111.8  15.6    3.2e-32  111.6  15.6    1.0  1  MarC             MarC family integral membrane protein
  ------ inclusion threshold ------
       0.61    9.6  22.2       0.25   10.8   8.8    2.1  2  ABC2_membrane_5  ABC-2 family transporter protein
          2    8.0   7.8       0.67    9.6   5.2    1.5  2  DUF5336          Family of unknown function (DUF5336)


Domain annotation for each model (and alignments):
>> MarC  MarC family integral membrane protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  111.6  15.6   5.4e-36   3.2e-32       3     197 ..      11     190 ..       9     193 .] 0.91

  Alignments for each domain:
  == domain 1  score: 111.6 bits;  conditional E-value: 5.4e-36
                     MarC   3 aiikafvsLlaiinplgnvpvflslleevskeerkrialkasilallillvfllfGelilklfgisidalkiaGgillfliaidml 88 
                              + +++++ L+++i+ lg++p ++ l ++    +rk  +lk ++++ l+l+ fl++Ge il+lfg+ ++++ +aGg+++f+ +++ml
  PHY93_13520|PHY93_13520  11 EAFSVTLILFSVIDILGSIPFIIDLKKK----YRKIDSLKITLVSGLLLFSFLFIGESILNLFGVDVQSFAVAGGLIMFFLGLEML 92 
                              568999*****************98765....567778889999****************************************** PP

                     MarC  89 kakqkkekkkkseeeeseekdeiavvPLAlPliaGPgaittvlvlaseassivekvavvlaillaalitllilllsslilrllgkt 174
                               +       +++++     +++  +vPLA+PliaG g++tt+++l +e+      v +vl ill +++++l+l++s++i ++lg t
  PHY93_13520|PHY93_13520  93 LGIVIF---RHETHL----ENNSPIVPLAFPLIAGAGSMTTLISLNAEYAR----VNIVLGILLNLIVVYLVLKSSNFIDKKLGIT 167
                              **9993...344444....356779***********************998....799**************************** PP

                     MarC 175 ginaleRlmGllLvalavqlivd 197
                              g  +l + +G +L+a+a++li +
  PHY93_13520|PHY93_13520 168 GSIILRKFFGTILLAMAIKLIKK 190
                              ********************976 PP

>> ABC2_membrane_5  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   8.8   4.2e-05      0.25     107     193 ..       3      89 ..       1     100 [. 0.86
   2 ?    4.5   5.7    0.0037        22     125     196 ..     114     185 ..     108     189 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 4.2e-05
          ABC2_membrane_5 107 ikgnvtisevllsiliglvialiflaivlPlyfkfgvekgrivliiiifgiifllvaifslsklelslidlsnyilliillviill 192
                              i + ++ +e++ + li ++++ i+++i + + +k +++k+  + i+++ g+  +++ ++  s l l+ +d+++++++ +l++++l 
  PHY93_13520|PHY93_13520   3 ILNAINYKEAFSVTLILFSVIDILGSIPFIIDLKKKYRKIDSLKITLVSGLLLFSFLFIGESILNLFGVDVQSFAVAGGLIMFFLG 88 
                              55668999******************************************999999999999999999999999888888776655 PP

          ABC2_membrane_5 193 l 193
                              l
  PHY93_13520|PHY93_13520  89 L 89 
                              4 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.0037
          ABC2_membrane_5 125 vialiflaivlPlyfkfgvekgrivliiiifgiifllvaifslsklelslidlsnyilliillviillliiv 196
                              ++ li++a +++ ++ + +e +r+ +++ i++  ++++ ++++s+++ +  ++   i+l  +++ ill +++
  PHY93_13520|PHY93_13520 114 AFPLIAGAGSMTTLISLNAEYARVNIVLGILLNLIVVYLVLKSSNFIDKKLGITGSIILRKFFGTILLAMAI 185
                              566899999999999********9999999999999**********88888888777776666666666554 PP

>> DUF5336  Family of unknown function (DUF5336)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0      0.53   3.2e+03     109     127 ..      20      38 ..       8      56 .. 0.60
   2 ?    9.6   5.2   0.00011      0.67      43     140 ..      78     172 ..      73     193 .] 0.82

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 0.53
                  DUF5336 109 lsvlgfLlvlaevinapeg 127
                              +sv+ +L+ +  +i ++++
  PHY93_13520|PHY93_13520  20 FSVIDILGSIPFIIDLKKK 38 
                              5555555555555555544 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 0.00011
                  DUF5336  43 aaLGliayllgFgplltvsassadleeasatsgglglavvllLlagLlAgvslLPkqksktavaAvlsvlgfLlvlaevinapegv 128
                              +a Gli ++lg   ll +       +e+++++  +++++++ L+ag  + ++l++   +++ v  vl +l  L v++ v++ ++ +
  PHY93_13520|PHY93_13520  78 VAGGLIMFFLGLEMLLGIVIFR---HETHLENNSPIVPLAFPLIAGAGSMTTLISLNAEYARVNIVLGILLNLIVVYLVLKSSNFI 160
                              455*****************99...99999*************************************************9999888 PP

                  DUF5336 129 siawglwvvlvl 140
                              + + g++  ++l
  PHY93_13520|PHY93_13520 161 DKKLGITGSIIL 172
                              777776644443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (193 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       743  (0.0414412); expected 358.6 (0.02)
Passed bias filter:                      286  (0.0159518); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.50u 0.26s 00:00:00.76 Elapsed: 00:00:00.46
# Mc/sec: 1249.36
//
Query:       PHY93_13525|PHY93_13525  [L=128]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.2e-18   66.0   0.1    2.6e-18   65.7   0.1    1.1  1  dCMP_cyt_deam_1  Cytidine and deoxycytidylate deaminase zinc-
    1.4e-11   44.7   0.1    1.4e-11   44.7   0.1    1.6  2  dCMP_cyt_deam_2  Cytidine and deoxycytidylate deaminase zinc-
  ------ inclusion threshold ------
      0.015   14.9   2.2      0.066   12.8   0.1    2.0  2  LmjF365940-deam  A distinct subfamily of CDD/CDA-like deamina
       0.11   12.6   0.0       0.15   12.2   0.0    1.2  1  Toxin-deaminase  The  BURPS668_1122 family of deaminases


Domain annotation for each model (and alignments):
>> dCMP_cyt_deam_1  Cytidine and deoxycytidylate deaminase zinc-binding region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.7   0.1   5.9e-22   2.6e-18       6      96 ..       5      98 ..       1     103 [. 0.89

  Alignments for each domain:
  == domain 1  score: 65.7 bits;  conditional E-value: 5.9e-22
                             HHHHHHHHHHHHHH.TTTSCSEEEEEEETTEEEEEEESBHHCCTGTTB-HHHHHHHHHHHHTSSCETTEEEEE..EE--BHHHHHHHH CS
          dCMP_cyt_deam_1  6 kllelalkaakeaq.kcsnfkVGavivkngeiistgyngepaggsktiHAEvnAilkaaknggsklegatlyv..tlePCsmCakaii 90
                             kl +lal+a+k+a+ ++s+ +VG+ +++++  i+tg+n e+a++  ti+AE++Ailka++++++kl   ++y      PC+mC++++ 
  PHY93_13525|PHY93_13525  5 KLRDLALLASKNAYsPYSKAQVGCSLETSDGSIYTGCNIENASYGGTICAERVAILKAVSEKKMKLSKIYVYSkdGWPPCGMCRQVMS 92
                             67789***********************99*****************************9987788666666688899*********9 PP

                             HHT-SE CS
          dCMP_cyt_deam_1 91 qsgikk 96
                             ++  ++
  PHY93_13525|PHY93_13525 93 EFAADD 98
                             998765 PP

>> dCMP_cyt_deam_2  Cytidine and deoxycytidylate deaminase zinc-binding region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.7   0.1   3.1e-15   1.4e-11      45     113 ..       4      73 ..       1      76 [. 0.91
   2 ?   -1.5   0.2      0.61   2.8e+03       2      14 ..     116     128 .]     115     128 .] 0.86

  Alignments for each domain:
  == domain 1  score: 44.7 bits;  conditional E-value: 3.1e-15
                              -HHHHHHHHHHTT-B-TTT---EEEEEEETTS-EEEEE-B--TTSTT-B-HHHHHHHHHHH.TT--GGGE CS
          dCMP_cyt_deam_2  45 delkeaAlaaanasyapyskcpsGvaLvtkdgkvyaGsyiEsaAfNpsLpPlqaAlvalvl.ggkefeei 113
                              ++l++ Al a +++y+pysk+  G +L+t+dg++y+G  iE+a +  ++ + ++A+ ++v  +++++++i
  PHY93_13525|PHY93_13525   4 TKLRDLALLASKNAYSPYSKAQVGCSLETSDGSIYTGCNIENASYGGTICAERVAILKAVSeKKMKLSKI 73 
                              578999*****************************************************99666666665 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.61
                              HHHSTT--SGGGG CS
          dCMP_cyt_deam_2   2 sslLPhsFgPkdL 14 
                              s+l+P sF P+ L
  PHY93_13525|PHY93_13525 116 SDLMPLSFTPDHL 128
                              689*******976 PP

>> LmjF365940-deam  A distinct subfamily of CDD/CDA-like deaminases
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.1   1.5e-05     0.066      56      88 ..      33      65 ..       9      77 .. 0.79
   2 ?    2.5   0.2     0.021        95     155     167 ..      82      94 ..      65     109 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 1.5e-05
          LmjF365940-deam 56 greelvrgvNlEvSmPtGSlCsErnaigkalas 88
                             +  +++ g N+E     G  C+Er ai ka++ 
  PHY93_13525|PHY93_13525 33 SDGSIYTGCNIENASYGGTICAERVAILKAVSE 65
                             45569************************8764 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.021
          LmjF365940-deam 155 kPCGaCeewLkki 167
                               PCG C++ +   
  PHY93_13525|PHY93_13525  82 PPCGMCRQVMSEF 94 
                              7*****9988765 PP

>> Toxin-deaminase  The  BURPS668_1122 family of deaminases
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   3.2e-05      0.15      96     130 ..      61      97 ..      42     104 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 3.2e-05
          Toxin-deaminase  96 eqleknskkegsiklfte..lepCdSCkgvlkqfkkk 130
                              + + +++ k+ +i ++++  + pC  C +v+++f+++
  PHY93_13525|PHY93_13525  61 KAVSEKKMKLSKIYVYSKdgWPPCGMCRQVMSEFAAD 97 
                              44556778999******86688************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (128 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       548  (0.030565); expected 358.6 (0.02)
Passed bias filter:                      478  (0.0266607); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.44u 0.27s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 877.80
//
Query:       PHY93_13530|PHY93_13530  [L=271]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.4e-50  171.8   0.0    1.6e-50  171.6   0.0    1.0  1  PNP_UDP_1  Phosphorylase superfamily


Domain annotation for each model (and alignments):
>> PNP_UDP_1  Phosphorylase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  171.6   0.0   8.7e-55   1.6e-50       1     232 [.      21     266 ..      21     268 .. 0.96

  Alignments for each domain:
  == domain 1  score: 171.6 bits;  conditional E-value: 8.7e-55
                              CEEEEESSH.HHHHHHHHH....EEEEEEEEEE.....TTEEEEEEEETTEEEEEEE--....SSHHHHHHHHHHHHHHHC--SEE CS
                PNP_UDP_1   1 kiaiivgsp.gevellaes....pleetpfgre....grgfkfvtGtlkgkpvvivstG....iGkpnaavvaeirllkefgvkai 73 
                              ++++++gs+ g + + +e+    p+ ++pf+++    g+++++++G++kg++v +++      +G p+ +vv+++rll  +g+ ++
  PHY93_13530|PHY93_13530  21 RVGVVLGSGlGIFVDQIEDktiiPYNDIPFFKKttveGHEGRLILGKVKGVEVAVLQGRlhayEGLPMEEVVFPVRLLSILGISTL 106
                              57999999995555555555999********************************9999*************************** PP

                              EEEEEEEESSTTT-TT-EEEEEEEEESSSCCGCCTHHCC..TCCCCTTSSEE--HHHHHHHHHCHHTTTTTEEEEEEEEESESS-C CS
                PNP_UDP_1  74 iriGtaGglnpdlkvGDvvipddainfdgrsplygpkee..gqyfpdsydapadpelrallkeaaealgikvhrGvvatadgfyae 157
                              + +++aGg+n ++k+GD+v+++d+in+ g +pl gp++   g++fpd++ a ++pel +++k++ + lg+++ +Gv+a + g+++e
  PHY93_13530|PHY93_13530 107 VLTNAAGGINLNFKPGDLVLIQDHINLMGKNPLIGPNNNqmGPRFPDMSHA-YNPELNDIMKAVSKNLGYNIQEGVYAGVLGPTYE 191
                              ***************************************************.********************************** PP

                              HHHHHHHHHHTC-CEEESSHHHHHHHHHHTT--EEEEEEEEETTTBETTCTCH.HCCCHHHHHHHHHHHHHHHHH CS
                PNP_UDP_1 158 teaelrllrrlgadaveMEtaavaqlArelgipfaairvvsdlaaggadaeatheeveefaqeaaknaaalllal 232
                              t+ae++++r+lg d+v+M+t+++ ++A++lg+++++i++++++ ag+  ++  he+++e+a +  + + all + 
  PHY93_13530|PHY93_13530 192 TPAEIKMIRTLGGDMVGMSTVPETIAANHLGLKVCGISCITNMGAGIVKQTLKHEDIKEVAMKVMDHFTALLNHS 266
                              **************************************************************9999999998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (271 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       381  (0.0212505); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1820.97
//
Query:       PHY93_13535|PHY93_13535  [L=452]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.9e-39  134.2   3.0    8.7e-39  133.6   3.0    1.3  1  Glycos_transf_3  Glycosyl transferase family, a/b domain
    6.5e-22   77.1   0.1    2.3e-21   75.4   0.1    1.9  2  Glycos_trans_3N  Glycosyl transferase family, helical bundle 
    2.4e-21   75.2   0.3    7.6e-21   73.6   0.2    1.9  1  PYNP_C           Pyrimidine nucleoside phosphorylase C-termin
     0.0032   17.3   0.5        1.2    9.1   0.3    3.0  2  Biotin_lipoyl    Biotin-requiring enzyme
  ------ inclusion threshold ------
       0.04   14.0   1.8        8.1    6.6   0.0    2.6  2  Ribosomal_L14    Ribosomal protein L14p/L23e
      0.074   12.9   0.0       0.19   11.6   0.0    1.7  1  Biotin_lipoyl_2  Biotin-lipoyl like


Domain annotation for each model (and alignments):
>> Glycos_transf_3  Glycosyl transferase family, a/b domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  133.6   3.0   2.9e-42   8.7e-39       3     253 .]      79     308 ..      77     308 .. 0.96

  Alignments for each domain:
  == domain 1  score: 133.6 bits;  conditional E-value: 2.9e-42
                              TBEEEEESS-SSSTHHHHHHHHHHHHHHTT-BEEEEE-STCTTCS-HHHHHCTS.T--ST--HHHHHHHHHHHSEEEEEHHSSSSH CS
          Glycos_transf_3   3 dlvDivgTGGdgantfNiStaaaivvAaaGvkvakhgnrsvssksGsaDvLeal.gvnleltpeeveklleevgvgflfapeyhka 87 
                                +D+++TGG+g++t   S   a+++Aa+Gvkv+++ +r++++++G+ D++e++ g++ e +  ++  ll+e g++++++++  ++
  PHY93_13535|PHY93_13535  79 IYIDKHSTGGVGDKT---SFIVAPIAAACGVKVPMIAGRGLGHTGGTVDKIESIkGFKTEISLHDFVALLKERGLVLIGQTSEIAP 161
                              679************...******************************************************************** PP

                              HHHHHHHHHHHTT.-SSHHHCHHHHHT..SEEEEHHHHHHHHTCHSEEEEEEEESTTSSCCSTSHHHHHHHHHHHHHHHH.TTEEE CS
          Glycos_transf_3  88 mkhvapvrrelgirTvfnlLGPLinparvkkqllgvyskelaeklaevlkelgveralvvhgdGldevsllakttvaelk.dgeit 172
                              +++ +++ r++++ Tv ++  PLi++        +++sk+lae++  +++++++++++++    l +++ la+++       ++  
  PHY93_13535|PHY93_13535 162 ADKKIYALRDVTA-TVESI--PLITA--------SIMSKKLAEGAKGIVMDVKTGNGAFMAR--LSDAKKLAESIRQTGLrFNKNM 234
                              *************.*****..*****........****************************..9999999999887766578888 PP

                              EEEEEEGSSTSSSEEESHHHHSSHHHHHHHHTTHHTSCHHHHHHHHHHHHHHHHHHHTTSSSSHHHHHHHHHHHHHTSHHH CS
          Glycos_transf_3 173 eytlepedfglkraelealeggepkenaeilkavlegkksaakrdlvllnagaalvlagkadslkegvakaeevidsGkAl 253
                              +  +++++ +l++a +++le     e++e+lk+   g+++    +l l +ag +++lag  +s k+g+aka++++dsG+Al
  PHY93_13535|PHY93_13535 235 MTIISDMSEPLGNAVGNSLEI---IESIETLKSR--GPTDL--TELSLSLAGGMVYLAGLSKSHKDGIAKAQAALDSGAAL 308
                              8899*****************...99******98..99998..6999********************************95 PP

>> Glycos_trans_3N  Glycosyl transferase family, helical bundle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   75.4   0.1   7.7e-25   2.3e-21       3      63 .]      10      70 ..       8      70 .. 0.97
   2 ?   -2.0   0.0       1.1   3.4e+03      12      32 ..     368     388 ..     362     407 .. 0.66

  Alignments for each domain:
  == domain 1  score: 75.4 bits;  conditional E-value: 7.7e-25
                             HHHHHHTT.---HHHHHHHHHHHHTTSS-HHHHHHHHHHHHHH---HHHHHHHHHHHHHHS CS
          Glycos_trans_3N  3 iikklrdgeeLtaeeirfaihgilkgevtdaqiaAfLmAlrlkGetaeEiaalaeAmresg 63
                             ii+k+rd+e+Lt++ei ++i g+++ge+ d+q++A+LmA++l+G +  E++al++Am+ sg
  PHY93_13535|PHY93_13535 10 IIQKKRDKEKLTKDEITWFIAGLTSGEIADYQMSALLMAIYLNGFDKNETVALTDAMLYSG 70
                             9********************************************************9886 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 1.1
                              ---HHHHHHHHHHHHTTSS-H CS
          Glycos_trans_3N  12 eLtaeeirfaihgilkgevtd 32 
                              + t + i fa+  i++ ++ d
  PHY93_13535|PHY93_13535 368 QKTSDVIDFAVGFIMNKKIGD 388
                              567888999999999998665 PP

>> PYNP_C  Pyrimidine nucleoside phosphorylase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.6   0.2   2.5e-24   7.6e-21       1      63 [.     347     407 ..     347     419 .. 0.90

  Alignments for each domain:
  == domain 1  score: 73.6 bits;  conditional E-value: 2.5e-24
                              EEEEE-HHHHHHHHHHTTTSBSSTTS---TT-EEEES--TT-EEBTTSEEEEEEESSSCHHHH CS
                   PYNP_C   1 yvseidareiGlaaveLGAGRakkeDpidlavGielhkklGdkVkkGeplatiYankeeklee 63 
                              +v++i+++++G+  v+LG+GR+k++D id+avG+ ++kk+GdkVkkGe+l+ti+  +++   +
  PHY93_13535|PHY93_13535 347 FVTKINCKALGMHCVRLGGGRQKTSDVIDFAVGFIMNKKIGDKVKKGEVLVTIHCHDSQ--MA 407
                              79****************************************************99987..34 PP

>> Biotin_lipoyl  Biotin-requiring enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.0   0.0    0.0074        22      21      59 ..     316     354 ..     304     358 .. 0.77
   2 !    9.1   0.3   0.00039       1.2      20      38 ..     383     401 ..     371     412 .. 0.84

  Alignments for each domain:
  == domain 1  score: 5.0 bits;  conditional E-value: 0.0074
                              SSTTCEE-TTSEEEEEECTTEEEEEEBSSSEEEEEESST CS
            Biotin_lipoyl  21 vkvGdkVkagqvlaeveamKmemeieapkaGvvkeilvk 59 
                              v++G+     + +  +   K + e++a k+G v++i +k
  PHY93_13535|PHY93_13535 316 VHQGGDDRVIDDYTLLPQTKSTCEVKALKNGFVTKINCK 354
                              55555555555666667789****************876 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.00039
                              SSSTTCEE-TTSEEEEEEC CS
            Biotin_lipoyl  20 lvkvGdkVkagqvlaevea 38 
                               +k GdkVk+g+vl+++  
  PHY93_13535|PHY93_13535 383 NKKIGDKVKKGEVLVTIHC 401
                              6899***********9975 PP

>> Ribosomal_L14  Ribosomal protein L14p/L23e
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.6   0.0    0.0027       8.1      76      98 ..     227     249 ..     189     257 .. 0.88
   2 ?    5.7   0.8    0.0049        15      13      61 ..     352     399 ..     348     433 .. 0.84

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.0027
                              EEEESS-EEEEB-TTS-BSS-.B CS
            Ribosomal_L14  76 virfddnaaVllnkkgeplGtri 98 
                               +rf++n++ ++++ +eplG+ +
  PHY93_13535|PHY93_13535 227 GLRFNKNMMTIISDMSEPLGNAV 249
                              479*****************998 PP

  == domain 2  score: 5.7 bits;  conditional E-value: 0.0049
                              SSSBSEEEEEEETT-.---EE-SSSEEEEEESSS-T...TTSSCEEEEE CS
            Ribosomal_L14  13 NsgakevecikvlggkkrkaasvGdiivvsvkkakpkgkvkkgdvvkav 61 
                              N  a  ++c++  gg ++k++ v d  v  + ++k   kvkkg+v+  +
  PHY93_13535|PHY93_13535 352 NCKALGMHCVRLGGG-RQKTSDVIDFAVGFIMNKKIGDKVKKGEVLVTI 399
                              666777899997777.599999**********************98765 PP

>> Biotin_lipoyl_2  Biotin-lipoyl like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   6.5e-05      0.19      21      44 ..     387     410 ..     383     431 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 6.5e-05
          Biotin_lipoyl_2  21 GqrVkaGdvLaelDsralqlalaq 44 
                              G+ Vk+G vL+++   + q ala+
  PHY93_13535|PHY93_13535 387 GDKVKKGEVLVTIHCHDSQMALAK 410
                              9************99999999987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (452 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       509  (0.0283898); expected 358.6 (0.02)
Passed bias filter:                      379  (0.0211389); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.59u 0.27s 00:00:00.86 Elapsed: 00:00:00.47
# Mc/sec: 2888.63
//
Query:       PHY93_13540|PHY93_13540  [L=143]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.058   13.6   1.2      0.075   13.3   0.2    1.7  2  DUF2530   Protein of unknown function (DUF2530)
        1.5    9.1   8.3        2.9    8.2   7.8    1.7  1  TrbC      TrbC/VIRB2 family


Domain annotation for each model (and alignments):
>> DUF2530  Protein of unknown function (DUF2530)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0       0.5   4.5e+03       6      20 ..      14      28 ..      10      31 .. 0.69
   2 ?   13.3   0.2   8.4e-06     0.075       8      61 ..      39      92 ..      33     103 .. 0.78

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.5
                  DUF2530  6 LprrLtdprpvivvg 20
                             L ++L+ +rpv+ + 
  PHY93_13540|PHY93_13540 14 LAAALLSLRPVAFAA 28
                             567777788877654 PP

  == domain 2  score: 13.3 bits;  conditional E-value: 8.4e-06
                  DUF2530  8 rrLtdprpvivvgtllWlvalvvllvvgdaleswlpvclaGlvvG.llGlaiflw 61
                              +L+d+  vi +g++  +++l  l +v d+ ++ l+  ++G +vG ++G+++++ 
  PHY93_13540|PHY93_13540 39 DSLRDISTVIGAGAVGAVLGLSTLSFV-DSPSEHLKNIAVGGAVGiVIGVGVVIF 92
                             689********************9999.555566666666777773578887654 PP

>> TrbC  TrbC/VIRB2 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.2   7.8   0.00032       2.9       9      94 ..       5      95 ..       1     100 [. 0.77

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.00032
                     TrbC  9 rrlllalal.alvllllaspalAqaaggdpvetvlqnivdfltgplakviatiaiivaGimlafgrls.......wrtlvmvviGivi 88
                              ++  +l++ a++ll l   a+A+aa  +  e+++++ +  ++  ++ + a+ a+++++   +    s       ++ +v++viG+++
  PHY93_13540|PHY93_13540  5 IKKNSTLFIlAAALLSLRPVAFAAAA--TTEESIMDDSLRDIST-VIGAGAVGAVLGLSTLSFVDSPSehlkniaVGGAVGIVIGVGV 89
                             44444444404455555555666666..899*************.9999*********999999888899999999999999999999 PP

                     TrbC 89 ifgAss 94
                             ++++++
  PHY93_13540|PHY93_13540 90 VIFSQA 95
                             998875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (143 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       572  (0.0319036); expected 358.6 (0.02)
Passed bias filter:                      364  (0.0203023); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 985.75
//
Query:       PHY93_13545|PHY93_13545  [L=529]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.8e-98  329.3   2.6    1.8e-98  329.3   2.6    1.5  2  RNase_E_G  Ribonuclease E/G family
     0.0065   16.8   0.2      0.043   14.1   0.1    2.3  2  S1         S1 RNA binding domain


Domain annotation for each model (and alignments):
>> RNase_E_G  Ribonuclease E/G family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  329.3   2.6    2e-102   1.8e-98       1     270 []     163     433 ..     163     433 .. 0.99
   2 ?   -2.9   0.1      0.39   3.5e+03     121     173 ..     467     523 ..     459     525 .. 0.61

  Alignments for each domain:
  == domain 1  score: 329.3 bits;  conditional E-value: 2e-102
                RNase_E_G   1 slaGrylVllpegkkvgvSkkiedeeererlkelleelkpeevGlIvRtaaegaseeelekdleelkkkweeilekakkrkapsll 86 
                              ++aGr +V++p+ +++gvS++ie+e+ererlke+le+++p+++G+I Rt aeg+s ++l+ d++ l+k w++++++a+k+kap ++
  PHY93_13545|PHY93_13545 163 TFAGRHIVFMPFIEHTGVSRRIESEKERERLKEILETVRPDGTGVIARTVAEGQSYKTLKFDYNMLVKIWKDVQKRAEKAKAPYVV 248
                              689********99999********************************************************************** PP

                RNase_E_G  87 yeeedlllrvlrdllnedieeivvddkelyeeikeyleevapeleekvelyeeee.plfelysiekqiekalsrkvwlksGgylvI 171
                              +++ ++++rvlrd+ +ed++ei+ d+ke +++++++++++ p+++ k ++y+ee+ p+fe+++i+ ++e+a+++kv lksGg+l I
  PHY93_13545|PHY93_13545 249 HQDLSFIQRVLRDITDEDVDEIILDSKENLKDAEKFVQKFLPTMKGKFKYYDEETtPIFEKFGIDLEVERAIDNKVYLKSGGSLNI 334
                              ***************************************************877789***************************** PP

                RNase_E_G 172 eqTEAltvIDVNsGkftgkknleetvlktNleAaeeiarqlrLRnlgGiIviDFIdmkeeenreevleelkealkkDraktqvlei 257
                              +qTEAl++IDVN+Gkf+g+k++eet+lktNleA++e+a qlrLRn gGiI++DFIdm++eenr+ v+++l ealkkDrakt+vl+i
  PHY93_13545|PHY93_13545 335 DQTEALVSIDVNTGKFVGRKTFEETILKTNLEAVKEVAYQLRLRNCGGIIIVDFIDMEKEENRNIVYNALLEALKKDRAKTNVLPI 420
                              ************************************************************************************** PP

                RNase_E_G 258 tklgLveitRkrv 270
                              + lgLve+tRkr+
  PHY93_13545|PHY93_13545 421 SGLGLVEMTRKRT 433
                              ***********96 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 0.39
                RNase_E_G 121 eyleevapeleekvelyeeee....plfelysiekqiekalsrkvwlksGgylvIeq 173
                              e  + +a+++ +kv +y + e       e +++ +++e+a  + ++++s  +  Ieq
  PHY93_13545|PHY93_13545 467 ELNRVLAKSKGTKVFIYAHPEvtatLTSEDFDLIETLEEAHGKSIQIRSENNYHIEQ 523
                              444445555555666665444444235567788888888888888888877777776 PP

>> S1  S1 RNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.1   0.1   4.8e-06     0.043       2      32 ..      45      77 ..      45      81 .. 0.90
   2 ?   -1.5   0.0      0.36   3.2e+03      50      62 ..     136     148 ..     128     157 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 4.8e-06
                             STTTCEEEEEEEEEET..TEEEEEETTTEEEEE CS
                       S1  2 pekgevveGeVtsvtk..gGafVelgngvegfv 32
                             p++g++++G+V++v +    afV++g++  +f+
  PHY93_13545|PHY93_13545 45 PFVGDIYKGKVVRVLPgmQSAFVDIGYEKAAFL 77
                             799*************8889******8888876 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.36
                              EETTEEEEEEEEE CS
                       S1  50 lkvGdevkvkvlk 62 
                              lk+Gde+ v+v k
  PHY93_13545|PHY93_13545 136 LKEGDEILVQVAK 148
                              799******9976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (529 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1083  (0.0604049); expected 358.6 (0.02)
Passed bias filter:                      789  (0.0440069); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.68u 0.28s 00:00:00.96 Elapsed: 00:00:00.47
# Mc/sec: 3408.68
//
Query:       PHY93_13550|PHY93_13550  [L=271]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.9e-50  170.0   0.0    8.2e-50  169.8   0.0    1.0  1  Esterase         Putative esterase
    1.1e-08   34.6   0.1    2.5e-07   30.2   0.0    2.0  2  Hydrolase_4      Serine aminopeptidase, S33
    2.8e-05   23.8   0.0     0.0001   21.9   0.0    1.9  1  DLH              Dienelactone hydrolase family
    0.00046   19.7   0.1     0.0013   18.3   0.1    1.7  1  Peptidase_S9     Prolyl oligopeptidase family
    0.00062   19.8   0.4       0.19   11.7   0.0    2.2  2  BAAT_C           BAAT / Acyl-CoA thioester hydrolase C termin
     0.0007   19.6   0.0     0.0014   18.6   0.0    1.4  1  UPF0227          Uncharacterised protein family (UPF0227)
     0.0018   18.0   0.0     0.0033   17.1   0.0    1.4  1  Abhydrolase_1    alpha/beta hydrolase fold
      0.005   16.4   0.0       0.27   10.7   0.0    2.0  2  Esterase_phd     Esterase PHB depolymerase
     0.0055   16.1   0.1     0.0089   15.4   0.1    1.3  1  DUF915           Alpha/beta hydrolase of unknown function (DU
  ------ inclusion threshold ------
      0.016   14.7   0.1      0.037   13.5   0.0    1.6  2  DUF676           Putative serine esterase (DUF676)
       0.03   13.2   0.0      0.042   12.8   0.0    1.2  1  Chlorophyllase2  Chlorophyllase enzyme
      0.039   13.8   0.0       0.12   12.3   0.0    1.8  2  Lipase_3         Lipase (class 3)
       0.07   12.0   0.0        0.1   11.4   0.0    1.3  1  Say1_Mug180      Steryl acetyl hydrolase
      0.087   12.5   0.6       0.13   12.0   0.6    1.4  1  PGAP1            PGAP1-like protein
       0.21   11.1   0.6       0.72    9.3   0.0    1.9  2  DUF900           Alpha/beta hydrolase of unknown function (DU


Domain annotation for each model (and alignments):
>> Esterase  Putative esterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  169.8   0.0   6.8e-53   8.2e-50       3     249 ..      23     265 ..      21     267 .. 0.94

  Alignments for each domain:
  == domain 1  score: 169.8 bits;  conditional E-value: 6.8e-53
                              TTTEEEEEEEEE.CC.GGTTTEEEEEEE--TTHHCCHHHHHCHHCCCCHCCT.EEEEEECCCSS-TTTT.TSBTTSB..B.TTEEE CS
                 Esterase   3 algreikvqvyLPedyspgrkypvvylldGltgwdqnfrakelleslaregeiaeviivvvprggessf.ysdwdlg..arfyena 85 
                              ++++e+k++ + Pe+    +  + +++l+Glt++++nf +k++ ++  +e ++ +++++++prg + +   +++d+g  a+fy++a
  PHY93_13550|PHY93_13550  23 ETKTEMKFSTFIPEG----TVKGCIVWLSGLTCNEENFITKAGSQKILSELGLMVIAPDTSPRGLNLPGeHDSYDFGsgAGFYVDA 104
                              678999999998887....66789*****************************************99998899************* PP

                              TTCCCCCCHC..HHHHTHHHHHHHHHCSEECCCEEEEEETHHHHHHHHHHHCSTTTCCEEEEES--S-CCHCHHHC........TT CS
                 Esterase  86 tegpgaeaye..tfltqeLlplldanfrtapdgravaGqSmGGlgALilalkhpdrFgsvssfSpivnpsnamWgq........ee 161
                              te p+ ++y+  +++++eL +l++ +f+++    +++G+SmGG+gA++++lk+pd+F+ vs+fSpivnps a+Wg         +e
  PHY93_13550|PHY93_13550 105 TEAPYESNYRmySYIASELYDLIQNEFKVKNI--SIMGHSMGGHGAIVIGLKNPDKFKAVSAFSPIVNPSVAPWGMkalsgylgSE 188
                              *******************************9..**************************************************** PP

                              CCHHHCC-CCCCHCHHCHTTSEEEEEEEECTTBCCCHTSCHHHHHHHHHHHCCHHHHCCCCCCTT-SCCCC--SSHHHHHHHHHHC CS
                 Esterase 162 keawqendpvllakelsaslkalriyldvGtseddlgeqlsveilevlarnrelkeqlaargvegedheydGghsweyWraqLiaa 247
                              k+aw ++d+v l    + ++   +i++++Gt++++ ++ql +e++ ++a+++++k     +  eg+dh+y+       ++a++i++
  PHY93_13550|PHY93_13550 189 KSAWSQYDSVELLI--AGKSHPSTILIHQGTNDEFWKTQLMTENFIETANSTNQKHL--VKFCEGFDHSYY-------FIASFIEE 263
                              ***********994..57777789*******************************44..469*********.......99999988 PP

                              HH CS
                 Esterase 248 la 249
                              ++
  PHY93_13550|PHY93_13550 264 QI 265
                              75 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.2   0.0   2.1e-10   2.5e-07      63     131 ..     121     186 ..     106     199 .. 0.88
   2 ?    2.3   0.0     0.072        86     194     233 ..     211     253 ..     196     256 .. 0.80

  Alignments for each domain:
  == domain 1  score: 30.2 bits;  conditional E-value: 2.1e-10
              Hydrolase_4  63 aafvekvkeehpelplfllGhSmGGliallyllrypdkvaglilsaPalkikaklkappllklllkllg 131
                              +++++ +++e + +++ ++GhSmGG  a+ ++l++pdk++++  ++P +++     ap+ +k+l+  lg
  PHY93_13550|PHY93_13550 121 SELYDLIQNEFKVKNISIMGHSMGGHGAIVIGLKNPDKFKAVSAFSPIVNPSV---APWGMKALSGYLG 186
                              6788999*****************************************98873...8899998877666 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.072
              Hydrolase_4 194 llllhGeaDkvvdpeas.relyerlgsk.dkt.lklypglyHe 233
                              +l+ +G++D+  + +   ++++e+++s+ +k+ +k  +g+ H+
  PHY93_13550|PHY93_13550 211 ILIHQGTNDEFWKTQLMtENFIETANSTnQKHlVKFCEGFDHS 253
                              8999********9987669*******99755424666777775 PP

>> DLH  Dienelactone hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.9   0.0   8.7e-08    0.0001      91     189 ..     127     254 ..      53     259 .. 0.81

  Alignments for each domain:
  == domain 1  score: 21.9 bits;  conditional E-value: 8.7e-08
                      DLH  91 svpevstkkvgvvGfCmGGalalllaaev.pevdaavafYG...........................lspekeleeaakikapil 148
                               ++e+++k++ ++G  mGG  a+++  ++ ++++a+ af +                               + l++ +    +il
  PHY93_13550|PHY93_13550 127 IQNEFKVKNISIMGHSMGGHGAIVIGLKNpDKFKAVSAFSPivnpsvapwgmkalsgylgseksawsqYDSVELLIAGKSHPSTIL 212
                              467799***********************999*****************************99988632223334444556689** PP

                      DLH 149 alfgeeDefipade.vekleealkaanvdlelkvYpgagHaF 189
                              ++ g++Def + +  +e++ e+    n ++ +k  +g +H++
  PHY93_13550|PHY93_13550 213 IHQGTNDEFWKTQLmTENFIETANSTNQKHLVKFCEGFDHSY 254
                              **********99986899**********************97 PP

>> Peptidase_S9  Prolyl oligopeptidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.1   1.1e-06    0.0013      62     103 ..     132     173 ..     119     256 .. 0.68

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 1.1e-06
                              -GGGEEEEEETHHHHHHHHHHHH-GGG-SEEEEESE---CCC CS
             Peptidase_S9  62 dserlaitGgSyGGyltgaalnqrpdlFkaavaevpvvdvlr 103
                              + +++ i+G+S GG  + ++  ++pd+Fka+ a  p+v+   
  PHY93_13550|PHY93_13550 132 KVKNISIMGHSMGGHGAIVIGLKNPDKFKAVSAFSPIVNPSV 173
                              55899********************************98654 PP

>> BAAT_C  BAAT / Acyl-CoA thioester hydrolase C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.2   0.1    0.0072       8.6      11      51 ..     125     164 ..     121     183 .. 0.73
   2 !   11.7   0.0   0.00016      0.19     115     153 ..     208     246 ..     187     252 .. 0.84

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.0072
                              HHHHCSTTB--SSEEEEEETHHHHHHHHHHHHSS.SEEEEEE CS
                   BAAT_C  11 nyllrhpkvkkdkigllGiSkGgelalllasflk.kisavvl 51 
                              + ++++ kvk  +i ++G+S Gg  a++++ + + k +av +
  PHY93_13550|PHY93_13550 125 DLIQNEFKVK--NISIMGHSMGGHGAIVIGLKNPdKFKAVSA 164
                              5566666666..9*************9999887755555443 PP

  == domain 2  score: 11.7 bits;  conditional E-value: 0.00016
                              -SEEEEEEETT-SSS-HHHHHHHHHHHHHCTT--.--EE CS
                   BAAT_C 115 kgpillvvgedDknwpSkesaekaserLkkagkkvevql 153
                               ++il+ +g++D+ w+++ ++e+ +e  + +++k+ v+ 
  PHY93_13550|PHY93_13550 208 PSTILIHQGTNDEFWKTQLMTENFIETANSTNQKHLVKF 246
                              689***********************9999999987765 PP

>> UPF0227  Uncharacterised protein family (UPF0227)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.0   1.1e-06    0.0014      44     162 ..     118     236 ..     102     261 .. 0.76

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 1.1e-06
                  UPF0227  44 qalkeleklvaelgddn.illvGssLGGyyatrlgerf..glrq.....vllnPalkp..lenlagklgeeavqstqetyvleeyh 119
                              +++ el  l+++ ++ + i ++G s+GG  a  +g +   ++++      ++nP ++p   + l+g+lg e+              
  PHY93_13550|PHY93_13550 118 YIASELYDLIQNEFKVKnISIMGHSMGGHGAIVIGLKNpdKFKAvsafsPIVNPSVAPwgMKALSGYLGSEKSAW----------S 193
                              567788899998877666****************96532234442244459******955689*******54443..........3 PP

                  UPF0227 120 iielkalelsrlkrperilvllskqDevldyrravaefraaae 162
                               +++ +l ++   +p+ il+ ++++De    + ++++f + a+
  PHY93_13550|PHY93_13550 194 QYDSVELLIAGKSHPSTILIHQGTNDEFWKTQLMTENFIETAN 236
                              445556667778899*************999999999977665 PP

>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.0   2.8e-06    0.0033      60     109 ..     121     171 ..      92     186 .. 0.81

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 2.8e-06
                              HHHHHHHHHHCTTSSEEEEEETHHHHHHHHHHHHHGGGEEEEEEESE.CSS CS
            Abhydrolase_1  60 addldrildalgddkltlvGhSmGGmialayaaeyperVkalvllga.idp 109
                               + +d i++ ++++++ ++GhSmGG  a    +++p++ ka+ + ++ ++p
  PHY93_13550|PHY93_13550 121 SELYDLIQNEFKVKNISIMGHSMGGHGAIVIGLKNPDKFKAVSAFSPiVNP 171
                              4556689**********************************9988886433 PP

>> Esterase_phd  Esterase PHB depolymerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.9   0.0     0.027        32       4      57 ..      31      81 ..      28      93 .. 0.88
   2 !   10.7   0.0   0.00023      0.27      94     132 ..     131     169 ..     110     226 .. 0.77

  Alignments for each domain:
  == domain 1  score: 3.9 bits;  conditional E-value: 0.027
             Esterase_phd  4 rlylppGarrgamplvvmlhGctqsveefaaGtrmnlladklGvvvlypeqslr 57
                               ++p G+ +     +v l G t + e+f + +  + +  +lG++v+ p+ s r
  PHY93_13550|PHY93_13550 31 STFIPEGTVK---GCIVWLSGLTCNEENFITKAGSQKILSELGLMVIAPDTSPR 81
                             5678888888...5689*************999999999**********99877 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 0.00023
             Esterase_phd  94 vdaarvyvaGlsaGaaladllalhypdvfaavalhsGla 132
                              +    + + G s G+  a +++l+ pd+f av+  s + 
  PHY93_13550|PHY93_13550 131 FKVKNISIMGHSMGGHGAIVIGLKNPDKFKAVSAFSPIV 169
                              445567899***********************9998654 PP

>> DUF915  Alpha/beta hydrolase of unknown function (DUF915)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.1   7.5e-06    0.0089      80     118 ..     111     149 ..     102     159 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 7.5e-06
                   DUF915  80 aslkkqakwlkkvlseLkkkYnikkfnavGhSmGglalt 118
                              +++  +++  ++  + +++++++k++ ++GhSmGg +++
  PHY93_13550|PHY93_13550 111 SNYRMYSYIASELYDLIQNEFKVKNISIMGHSMGGHGAI 149
                              56677777788888889******************9876 PP

>> DUF676  Putative serine esterase (DUF676)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   3.1e-05     0.037      63      91 ..     119     146 ..     110     173 .. 0.73
   2 ?   -3.0   0.0       3.7   4.4e+03       2      17 ..     238     253 ..     237     266 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 3.1e-05
                   DUF676  63 laeevlevvkkkkdknkkiSfvghSlGgl 91 
                              +a+e+ + ++++ +  k iS++ghS+Gg 
  PHY93_13550|PHY93_13550 119 IASELYDLIQNEFKV-KNISIMGHSMGGH 146
                              455666666666555.89*********95 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 3.7
                   DUF676   2 skkdhLvVlvHGlqgn 17 
                               +++hLv +  G++ +
  PHY93_13550|PHY93_13550 238 TNQKHLVKFCEGFDHS 253
                              5788999999999877 PP

>> Chlorophyllase2  Chlorophyllase enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   3.5e-05     0.042      67     128 ..     113     169 ..      61     179 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 3.5e-05
          Chlorophyllase2  67 akvlnWlakgLesvlpeevepdlsklalsgHSrGgktafalalgkaktslkfsaligvdPva 128
                               ++  ++a++L   +++e   +++++++ gHS Gg+ a+ + l++ +   kf+a+ +  P+ 
  PHY93_13550|PHY93_13550 113 YRMYSYIASELYDLIQNEF--KVKNISIMGHSMGGHGAIVIGLKNPD---KFKAVSAFSPIV 169
                              5566677777777776655..5889*******************999...999998888875 PP

>> Lipase_3  Lipase (class 3)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   9.6e-05      0.12      45      84 ..     113     153 ..      79     167 .. 0.82
   2 ?   -2.4   0.0       3.4     4e+03      12      43 ..     225     254 ..     211     265 .. 0.47

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 9.6e-05
                              S-HHHHHHHHHHHHHHHTT-.EEEEEEEETHHHHHHHHHHH CS
                 Lipase_3  45 eslreqvlkelkrllekype.ysivvtGHSLGgalAlLaal 84 
                                +++ + +el +l+++  +  +i + GHS+Gg  A++++l
  PHY93_13550|PHY93_13550 113 YRMYSYIASELYDLIQNEFKvKNISIMGHSMGGHGAIVIGL 153
                              45888999999998877665378**********99998765 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 3.4
                              ---------EEE-HHHH-GTT-EEEHHHHHHH CS
                 Lipase_3  12 dwltdldfslteakellekeggkvhsgfleay 43 
                              +++t+  ++  + ++++  + +k  +gf ++y
  PHY93_13550|PHY93_13550 225 QLMTENFIETANSTNQK--HLVKFCEGFDHSY 254
                              33333333333333332..3555556655555 PP

>> Say1_Mug180  Steryl acetyl hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   8.7e-05       0.1     183     237 ..     122     171 ..     102     195 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 8.7e-05
              Say1_Mug180 183 avydylvkskgfknvvvlGdSaGGnlvLslllklsklnkvvlPkkaiaiSPWlnl 237
                               +yd + +   +kn+ ++G S GG   +++ lk  + +k    k + a SP +n+
  PHY93_13550|PHY93_13550 122 ELYDLIQNEFKVKNISIMGHSMGGHGAIVIGLK--NPDK---FKAVSAFSPIVNP 171
                              69**********************986655544..4444...3555556665554 PP

>> PGAP1  PGAP1-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.6    0.0001      0.13      82     105 ..     123     148 ..     110     239 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.0001
                    PGAP1  82 ly..sssekeptsviliGHSmGGiva 105
                              ly   ++e + +++ ++GHSmGG  a
  PHY93_13550|PHY93_13550 123 LYdlIQNEFKVKNISIMGHSMGGHGA 148
                              44444788999************877 PP

>> DUF900  Alpha/beta hydrolase of unknown function (DUF900)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.3   0.0    0.0006      0.72      85     105 ..     125     145 ..     106     155 .. 0.85
   2 ?   -0.6   0.2      0.63   7.5e+02       7      32 ..     229     254 ..     224     270 .. 0.82

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.0006
                   DUF900  85 rylatkksakkihllaHSmGt 105
                                ++++ ++k+i+++ HSmG 
  PHY93_13550|PHY93_13550 125 DLIQNEFKVKNISIMGHSMGG 145
                              5689999************96 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.63
                   DUF900   7 talakelkksaakeilvfvhGynnsF 32 
                              +++ +  ++ ++k+ + f  G+  s+
  PHY93_13550|PHY93_13550 229 ENFIETANSTNQKHLVKFCEGFDHSY 254
                              677888899999**********9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (271 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       391  (0.0218082); expected 358.6 (0.02)
Passed bias filter:                      313  (0.0174578); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.58u 0.26s 00:00:00.84 Elapsed: 00:00:00.46
# Mc/sec: 1788.85
//
Query:       PHY93_05855|PHY93_05855  [L=375]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.2e-15   57.7   1.0    3.1e-15   56.3   0.1    2.2  3  Response_reg  Response regulator receiver domain
  ------ inclusion threshold ------
      0.021   13.3   0.2      0.021   13.3   0.2    1.4  2  Lipoxygenase  Lipoxygenase
        0.2   12.2   2.9        0.7   10.4   0.1    3.0  4  NLE           NLE (NUC135) domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.3   0.1   5.2e-19   3.1e-15       1     110 [.       5     114 ..       5     116 .. 0.95
   2 ?   -3.3   0.0       1.6   9.8e+03      21      46 ..     213     238 ..     201     243 .. 0.69
   3 ?   -1.7   0.0      0.53   3.2e+03      98     110 ..     315     327 ..     286     329 .. 0.67

  Alignments for each domain:
  == domain 1  score: 56.3 bits;  conditional E-value: 5.2e-19
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSS.SEHHHHHHHHHHCTTTSEEEEEESSTSHHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpg.mdGlellkeireedpelpviiltahseeed 85 
                              vl++dD+ ++++++   l ++gy e  e+ + +++l++++++++dlillD n+++  +G+el k+i+   p+  +i++ ++ +  d
  PHY93_05855|PHY93_05855   5 VLVADDSLTIQKVIGITLANSGY-ELVECLNEADLLKKIQSNHYDLILLDFNLSDsRSGYELSKQINHALPDAAIIVMLGTFDTVD 89 
                              89*********************.9999***************************89*********99999999999999999999 PP

                              HHHHHHCTESEEEESSG-HHHHHHH CS
             Response_reg  86 avealkagaddflsKpfdpeeLlka 110
                                +   +g+ d ++Kpf+ ++ +k+
  PHY93_05855|PHY93_05855  90 ESQFEACGITDKIVKPFESTKFIKK 114
                              9*****************9999886 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 1.6
                              TTEEEEEEESSHHHHHHHHHHHHESE CS
             Response_reg  21 egyeevaeaedgkealellkeekvdl 46 
                              ++++ ++  ++++++++ l+ e+ dl
  PHY93_05855|PHY93_05855 213 SDVRIIDRLQSSSQFINALDDEDEDL 238
                              56666777778888888877777666 PP

  == domain 3  score: -1.7 bits;  conditional E-value: 0.53
                              EESSG-HHHHHHH CS
             Response_reg  98 lsKpfdpeeLlka 110
                              + K ++++eL+++
  PHY93_05855|PHY93_05855 315 VDKNINQDELVEK 327
                              5566666666666 PP

>> Lipoxygenase  Lipoxygenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -4.0   0.4      0.57   3.4e+03     611     647 ..     133     169 ..     129     176 .. 0.74
   2 ?   13.3   0.2   3.5e-06     0.021     581     654 ..     249     324 ..     236     334 .. 0.82

  Alignments for each domain:
  == domain 1  score: -4.0 bits;  conditional E-value: 0.57
                              -TT--BTT--SSTTS-S-HHHHHHHHHHHHHHHHHHH CS
             Lipoxygenase 611 ssdeeylgqreepewtedeevleafekfseklkeiek 647
                              s++e y  ++e + w+ d+  +   e+f ++l+e e+
  PHY93_05855|PHY93_05855 133 SEEENYSKSDELDLWKVDAPQMLSSESFLDELEEAES 169
                              6677777777777788888888888888888888775 PP

  == domain 2  score: 13.3 bits;  conditional E-value: 3.5e-06
                              H-HHHHHHCTS--HHHHHHHHHHHHHHT-B-TT--BTT--SSTTS-S-.HHHHHHHHHHH.HHHHHHHHHHHHHCT CS
             Lipoxygenase 581 enpekvflktlpsqlqatlvlavlevlskHssdeeylgqreepewted.eevleafekfs.eklkeiekkieernk 654
                              e+ ++ +l+ + ++++a  + av e++ + s++eey+g+++ +e t+d +e +++f++ + ++l +++k+i++   
  PHY93_05855|PHY93_05855 249 EDLNRNLLSEIEDEISAEAFWAVDEIVPRKSEEEEYIGETNLDEVTADlTETVQTFKEKEpSNLIQVDKNINQDEL 324
                              5667899*********************************999999884456677765442789999999988665 PP

>> NLE  NLE (NUC135) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0       1.5   8.8e+03      30      56 ..      27      54 ..      20      60 .. 0.63
   2 ?   -1.7   0.0      0.76   4.5e+03      23      40 ..      56      73 ..      43      77 .. 0.79
   3 ?   10.4   0.1   0.00012       0.7      11      35 ..     233     259 ..     226     265 .. 0.81
   4 ?   -0.4   0.1      0.29   1.8e+03      15      32 ..     307     324 ..     294     333 .. 0.78

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 1.5
                      NLE 30 kqLselvnk..Llkee.kpvpFdFlidgel 56
                             ++L e +n+  Llk + ++  +d+++  ++
  PHY93_05855|PHY93_05855 27 YELVECLNEadLLK-KiQSNHYDLILL-DF 54
                             56666666666777.334456777766.44 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 0.76
                      NLE 23 vPasltrkqLselvnkLl 40
                             +  s + ++Ls+ +n+ l
  PHY93_05855|PHY93_05855 56 LSDSRSGYELSKQINHAL 73
                             556667799999999965 PP

  == domain 3  score: 10.4 bits;  conditional E-value: 0.00012
                      NLE  11 d..eslavpgtplsvPasltrkqLsel 35 
                              d  e l  ++++++vP +l+r+ Lse+
  PHY93_05855|PHY93_05855 233 DedEDLDATDPSFEVPEDLNRNLLSEI 259
                              333668888****************97 PP

  == domain 4  score: -0.4 bits;  conditional E-value: 0.29
                      NLE  15 avpgtplsvPasltrkqL 32 
                              + p + ++v  +++ ++L
  PHY93_05855|PHY93_05855 307 KEPSNLIQVDKNINQDEL 324
                              467889999999999998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (375 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       808  (0.0450667); expected 358.6 (0.02)
Passed bias filter:                      473  (0.0263818); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.60u 0.26s 00:00:00.86 Elapsed: 00:00:00.47
# Mc/sec: 2409.75
//
Query:       PHY93_13555|PHY93_13555  [L=367]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.6e-26   92.8   0.6    2.7e-26   92.1   0.6    1.3  1  ADH_zinc_N    Zinc-binding dehydrogenase
    1.7e-26   92.2   0.7    4.5e-26   90.9   0.7    1.8  1  ADH_N         Alcohol dehydrogenase GroES-like domain
    1.7e-05   25.9   0.0    3.3e-05   24.9   0.0    1.5  1  ADH_zinc_N_2  Zinc-binding dehydrogenase
    0.00042   19.9   0.2     0.0013   18.3   0.2    1.8  1  Glu_dehyd_C   Glucose dehydrogenase C-terminus
  ------ inclusion threshold ------
      0.012   15.0   0.3       0.02   14.3   0.3    1.3  1  2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, 
      0.044   13.1   2.6      0.077   12.3   2.6    1.4  1  AlaDh_PNT_C   Alanine dehydrogenase/PNT, C-terminal domain
       0.45   10.1   2.5       0.85    9.2   2.5    1.3  1  CLLAC         CLLAC-motif containing domain


Domain annotation for each model (and alignments):
>> ADH_zinc_N  Zinc-binding dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   92.1   0.6   1.1e-29   2.7e-26       1     118 [.     197     318 ..     197     330 .. 0.90

  Alignments for each domain:
  == domain 1  score: 92.1 bits;  conditional E-value: 1.1e-29
                              HHHHHHHHHHHHTT-.EEEEEESSHHHHHHHHHTTESEEEETTTC..HHHHHHHHHTTTSSEEEEEESSCSHHHHHHHHHCEEEE. CS
               ADH_zinc_N   1 gvGlaavqlAkalGa.eviavdsseeklelakklGadevinykea..dlverikeltggegvdvvfecvGsgatleaalkllkpg. 82 
                              g+Gl ++q A ++Ga ++iavd++++k+e+akk+Ga+ ++n++e   ++v++i ++t+ +gvd++fecvG+ + +++al+++++g 
  PHY93_13555|PHY93_13555 197 GIGLSVIQGAQIAGAkKIIAVDINNSKFEMAKKFGATDFVNPTEIkgTVVDEIVKMTD-GGVDYSFECVGNTKLMRQALECCHKGw 281
                              8*****************************************444347*********5.5************************** PP

                              EEEEECSCTSSEEEEEHHHHH.HTT-EEEEE-SSCHH CS
               ADH_zinc_N  83 GrlvvvGggkgeeefdlrnll.lkeksilGsllgslr 118
                              G+  ++G+   +ee+++r++   + +  +Gs +g+++
  PHY93_13555|PHY93_13555 282 GQSIIIGVAAAGEEISTRPFQlVTGRVWKGSAFGGVK 318
                              ********77778899999654999999****99954 PP

>> ADH_N  Alcohol dehydrogenase GroES-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   90.9   0.7   1.8e-29   4.5e-26       2     108 ..      28     154 ..      27     155 .. 0.89

  Alignments for each domain:
  == domain 1  score: 90.9 bits;  conditional E-value: 1.8e-29
                              TEEEEEEEEEEE-HHHHHHHTTSTTTTSSSSEE---EEEEEEEEESTT-CS--TT-EEEE-SEEE-SSSHHHHTT-GGG-...... CS
                    ADH_N   2 gevlikvkaagiCgsDlhilkggkelevklplilGHEivGeveevgpevkklkvGdrVvvepliscgeCaaCkegeenlC...... 81 
                              gevl+++ a+g+C++D  +l+g  ++e  +p+ilGHE +G+veevg++v++lk+Gd+V+   + +c +C++C +g++nlC      
  PHY93_13555|PHY93_13555  28 GEVLVRIVASGVCHTDAYTLSG-VDPEGIFPVILGHEGAGIVEEVGEGVTSLKKGDHVIPLYTPECRTCKYCLSGKTNLCqriret 112
                              89********************.8************************************99999***************999999 PP

                              .............TTBEETTTSS-S..SSBSEEEECGGGEEE CS
                    ADH_N  82 .............eeakllgvsldG..gfaeyvvvpekklvk 108
                                           ++ + + +++ G  +faey+vv e +l+k
  PHY93_13555|PHY93_13555 113 qgkglmpdgtsrfSKDGKIIYHYMGtsTFAEYTVVAEISLAK 154
                              999999999999855555555555533699999998877766 PP

>> ADH_zinc_N_2  Zinc-binding dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.9   0.0   1.3e-08   3.3e-05      15     127 ..     246     362 ..     230     366 .. 0.74

  Alignments for each domain:
  == domain 1  score: 24.9 bits;  conditional E-value: 1.3e-08
                              H....HHH-TT-EEEEEES-HHHHH.HHHHHHE.EEEEEEEE----.S-EEE-CHHHCTTT-EEEE--GGG...-.-HHHHHHHHH CS
             ADH_zinc_N_2  15 e....aatggegvDvvldtvggealleaslkvl.pggGrlvsiggpplsaallkpakkrkgrsvkyeflfsmkasaqadileelaa 95 
                              +    + t  +gvD+ +++vg+++l++++l+++ +g G+ + ig   + ++++ ++++  +++v     f     +++ +l   ++
  PHY93_13555|PHY93_13555 246 VdeivKMT-DGGVDYSFECVGNTKLMRQALECChKGWGQSIIIGVAAAGEEISTRPFQLVTGRVWKGSAFGGV--KGRTELPGYVD 328
                              24443667.467*********99999*******8888**9999854566666666666655555555555433..45555****** PP

                              HHHHHH---..-EEEEEEGGGHHHHHHHHHSS-- CS
             ADH_zinc_N_2  96 lieeGklrp..vvdrvfpleeaaeAhrylesgra 127
                               + +G++++   v+ ++p+ee+++A++y+++g+ 
  PHY93_13555|PHY93_13555 329 KYMAGEINIddLVTFTMPIEEINQAFQYMKEGKS 362
                              ******8874468889***************985 PP

>> Glu_dehyd_C  Glucose dehydrogenase C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.2   5.1e-07    0.0013      32     210 ..     188     367 .]     175     367 .] 0.77

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 5.1e-07
              Glu_dehyd_C  32 esalvlGaGslGLLalalleaeerglervyvlgrrdrpdptidlveelGat.Yvdsre...tpvdeipea.seemdlvvEaTGsak 112
                              + + v G G +GL  +   +    g +++  ++    ++ + ++ ++ Gat +v+  e   t vdei ++ +  +d+ +E+ G++k
  PHY93_13555|PHY93_13555 188 SNVAVFGIGGIGLSVIQGAQI--AGAKKIIAVD---INNSKFEMAKKFGATdFVNPTEikgTVVDEIVKMtDGGVDYSFECVGNTK 268
                              56789*******988555554..6777776666...57789*********966765543337899987761568************ PP

              Glu_dehyd_C 113 hafeaiealap.nGvaaLlGvpeds.evevdggelhrelvleNkalvGsvNanrrhfeaavdtLaalpeslldelvtkvvdldele 196
                               + +a+e      G  +++Gv +   e++ +  +l +  v +  a +G v  +++     vd+   + e  +d+lvt  ++++e++
  PHY93_13555|PHY93_13555 269 LMRQALECCHKgWGQSIIIGVAAAGeEISTRPFQLVTGRVWKGSA-FGGVKGRTEL-PGYVDKY-MAGEINIDDLVTFTMPIEEIN 351
                              ******988652699******987549999999****99999888.6778766554.4444443.3456779************** PP

              Glu_dehyd_C 197 eAfe..dddetiKtvv 210
                              +Af+  ++ ++i++vv
  PHY93_13555|PHY93_13555 352 QAFQymKEGKSIRSVV 367
                              **98334556777776 PP

>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.3   7.8e-06      0.02      35      80 ..     186     232 ..     179     244 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 7.8e-06
                              TTSEEEEES-SHHHHHHHHHHHHTT-.EEEEESSSHHHHHCHHHHTC CS
             2-Hacid_dh_C  35 sgktvGiiGlGrIGqavakrlkafgm.kviaydrskkkeeeeeelgv 80 
                              +g+ v+++G+G IG +v++ ++  g+ k+ia+d +++k e +++ g+
  PHY93_13555|PHY93_13555 186 KGSNVAVFGIGGIGLSVIQGAQIAGAkKIIAVDINNSKFEMAKKFGA 232
                              7899******************999989******9987776666555 PP

>> AlaDh_PNT_C  Alanine dehydrogenase/PNT, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   2.6     3e-05     0.077      19      93 ..     180     254 ..     163     258 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 3e-05
                              TTCEETCB---EEEEESTSHHHHHHHHHHHHTT-E.EEEEESSHHHHHHHHHTTTC.ECEEHCHHHHHHHHHHHH-S CS
              AlaDh_PNT_C  19 laGgvpgvepakvlviGgGvaGlqAiatakglgak.VtvlDvrparleqleslgak.fvevlksqeellaeavkead 93 
                                ++v+  + ++v v+G G  Gl+ i+ a+  gak + ++D++ ++ e  +++ga+ fv+  + +   ++e vk +d
  PHY93_13555|PHY93_13555 180 NTAKVE--KGSNVAVFGIGGIGLSVIQGAQIAGAKkIIAVDINNSKFEMAKKFGATdFVNPTEIKGTVVDEIVKMTD 254
                              344555..7889*********************954999*************9875377778888888888888776 PP

>> CLLAC  CLLAC-motif containing domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   2.5   0.00033      0.85      10      23 ..     164     177 ..     164     180 .. 0.91

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.00033
                    CLLAC  10 vCLLACiitTaigV 23 
                              vCLL C +tT ig 
  PHY93_13555|PHY93_13555 164 VCLLGCGVTTGIGA 177
                              8***********96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (367 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       484  (0.0269954); expected 358.6 (0.02)
Passed bias filter:                      361  (0.020135); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.56u 0.26s 00:00:00.82 Elapsed: 00:00:00.45
# Mc/sec: 2425.41
//
Query:       PHY93_13560|PHY93_13560  [L=1044]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
     6e-209  695.2   0.9     6e-209  695.2   0.9    1.8  2  tRNA-synt_1   tRNA synthetases class I (I, L, M and V)
    3.9e-27   95.1   0.1    8.3e-27   94.0   0.1    1.6  1  Anticodon_1   Anticodon-binding domain of tRNA
    7.7e-15   54.5   0.2    0.00043   19.1   0.0    3.8  3  tRNA-synt_1g  tRNA synthetases class I (M)
    0.00016   21.2   0.0    0.00048   19.6   0.0    1.8  2  tRNA-synt_1e  tRNA synthetases class I (C) catalytic domain
  ------ inclusion threshold ------
      0.027   14.7   0.3       0.22   11.8   0.3    2.3  2  PND           FANCM pseudonuclease domain


Domain annotation for each model (and alignments):
>> tRNA-synt_1  tRNA synthetases class I (I, L, M and V)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  695.2   0.9  1.7e-212    6e-209       2     599 ..      26     638 ..      25     641 .. 0.97
   2 ?   -1.3   0.1      0.13   4.7e+02     385     429 ..     696     740 ..     683     743 .. 0.67

  Alignments for each domain:
  == domain 1  score: 695.2 bits;  conditional E-value: 1.7e-212
              tRNA-synt_1   2 lyekWeeedvfkkelekekekkefilvdgPPyvtGslHiGhalaktlkdivirykrmkGkevlyvpGwDhaGlaieakvekklgak 87 
                              ++e+W++e++f+k+le++k kk++i++dgPP++tG +H Gh la+tlkd+v ry +mkG +v++++GwD++Gl+ie++++kklg +
  PHY93_13560|PHY93_13560  26 ILEFWKNENIFQKTLENTKGKKPYIFYDGPPFATGLPHHGHLLASTLKDVVPRYFTMKGRYVERRFGWDCHGLPIEHEIDKKLGMS 111
                              899*********************************************************************************** PP

              tRNA-synt_1  88 ekkerkklgreefrekvrewkaeyaeeirkqvkrlGvsvDfdreylTldkeleeavkevfvrladkgliyrgkklvnwstklktal 173
                               ++ +kk+g++ +++++r+++++y++e++++++r+G++vDf+++y+T+d +++e+v++v+ +l +k+liy+g+k++++st+l t+l
  PHY93_13560|PHY93_13560 112 AQEAVKKFGVKGYNDECRSIVQRYTSEWERTITRIGRWVDFKNDYKTMDANFMESVWWVINELWKKDLIYQGTKVMPFSTALGTVL 197
                              ************************************************************************************** PP

              tRNA-synt_1 174 selEv..eykdkkdalihvafpladkeevklviaTTtPeTllgdtavavnpeldyv.....itkeklilaeallkslvkkesekki 252
                              s++E+  +y+d++d+++++ f+++d++  ++ ++TTtP+Tl++++a+++ +e++yv      ++ k+i+a  ++++  kk  + ++
  PHY93_13560|PHY93_13560 198 SNFEAtsNYQDVQDPAVTILFKVKDQDF-YIAAWTTTPWTLPSNLALCMGAEIEYVkvrdpERDIKFIIAAERVEAYSKK-RTLEV 281
                              ****999******************999.***************************9999889999********987665.5679* PP

              tRNA-synt_1 253 ledergkeLegkevelpl.......vnrkipiiaddyvdkeaGtGvVkiaPahdedDyevgkkynl.evinildedgtlteeaaef 330
                              le+++g++L g+++e+++       +  ++++++d yv++  GtG+V+iaPa++edD++v k+ ++  + +++d+ g++t e+ +f
  PHY93_13560|PHY93_13560 282 LETFKGSDLLGLRYEPLFpyfkqneAIGAFVVLNDSYVTTTDGTGIVHIAPAFGEDDNRVMKEAGIgAIECPVDDAGKFTSEVFDF 367
                              *********************9776667899***********************************55568*************** PP

              tRNA-synt_1 331 eglkvfdarkkvveelkekglllkaekiehsvpfcerskkpiiyrateqWfvrvkeladaalkavekvqfvpks.kekryaswlen 415
                              +g++v++a+k ++++lk++g+l  +    hs+pfc rs++p+iy+a ++Wfv+v++++d +l+++++++++p   +e r+ +wle 
  PHY93_13560|PHY93_13560 368 NGVHVKAADKDIIKKLKDEGKLYDQGVLVHSYPFCPRSDTPLIYKAIPSWFVSVEKIKDRLLHSNSQINWTPAHiQEGRFGKWLEG 453
                              ************************************************************************999*********** PP

              tRNA-synt_1 416 iqdWciSRqrwWGhriplfvsketeevvvreelkelvagreeeeaekkalekeakdkl....kkekgelekdedvlDvWFsSgswp 497
                              ++dW iSR+r+WG++ip++++++t++ v+  +++el +    + ++ ++l+ke++d+l      e+g ++++++vlD+WF+Sgs+p
  PHY93_13560|PHY93_13560 454 ARDWSISRNRIWGTPIPIWINDKTNNRVCIGSIDELYK---LTGVKVTDLHKESIDHLtfthTGEEGIYRRIPEVLDCWFESGSMP 536
                              *****************************888888887...778889999********9997778999****************** PP

              tRNA-synt_1 498 fstlgypeedteelkkffpadmlleGlDiirgWvarlillslaltgsePfkevlvhglvrdeeGrKmSKslgNvidpldvikkyga 583
                              +++l+yp+e++e +++ fpa++++eGlD++rgW+++l +ls+al+++  fk+v+v+g+v++e+G+KmSK+l+N+ +p+++++  ga
  PHY93_13560|PHY93_13560 537 YAQLHYPFENKEMFEQGFPAEFIAEGLDQTRGWFYTLTVLSTALFDKPAFKNVIVNGIVMAEDGKKMSKRLKNYTAPDELMEVFGA 622
                              ************************************************************************************** PP

              tRNA-synt_1 584 dalRltlilsdvgrdi 599
                              dalRl+li+s  ++++
  PHY93_13560|PHY93_13560 623 DALRLYLINSGLVKAE 638
                              *********9988876 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 0.13
              tRNA-synt_1 385 keladaalkavekvqfvpkskekryaswleniqdWci..SRqrwWGh 429
                              ++l++++ +++e+ +++        + ++e+  +W i   R r+WG 
  PHY93_13560|PHY93_13560 696 QTLKKNIAREMEEYHLYN--VVPALFTFIEDLTNWYIrlNRARFWGD 740
                              446666666666555543..34567899*******9855699***96 PP

>> Anticodon_1  Anticodon-binding domain of tRNA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   94.0   0.1   2.3e-30   8.3e-27       1     149 [.     688     837 ..     688     841 .. 0.88

  Alignments for each domain:
  == domain 1  score: 94.0 bits;  conditional E-value: 2.3e-30
              Anticodon_1   1 drwilselnklvkevteayeeyrfnkaasalyeffwndlcdwylelvkprlysesaedkra.aqevllevletllrllaPfmPfit 85 
                              drw+ls l+ l k + + +eey +++++ al++f ++dl +wy++l++ r++++  +d++  a+++l++++++l++ +aPf+Pf++
  PHY93_13560|PHY93_13560 688 DRWLLSNLQTLKKNIAREMEEYHLYNVVPALFTF-IEDLTNWYIRLNRARFWGDGLTDDKCaAYSTLYTAIRELTISMAPFAPFFS 772
                              9********************************7.899*****************999955599********************** PP

              Anticodon_1  86 Eelwqr..eeeel.gkkesimlaewpe.kaeel.ekeleeeevellkeivkairklrselkikpsselk 149
                              E+++q+  +  +  +++ s++l+++p  ++  l + +l e +v ++++i+ + r++r+  +ik +++lk
  PHY93_13560|PHY93_13560 773 EYVFQElrK--MNsKEPISVHLCDYPMpDE-ALiNSDL-EVAVGRMQQIILLGRQKRNLVQIKVKTPLK 837
                              ****99641..33256799*******8444.3455555.679*********************999965 PP

>> tRNA-synt_1g  tRNA synthetases class I (M)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   1.2e-07   0.00043       8      71 ..      56     120 ..      53     202 .. 0.85
   2 !   11.9   0.0   1.8e-05     0.066     167     239 ..     400     475 ..     370     482 .. 0.76
   3 !   18.6   0.0   1.8e-07   0.00064     311     375 ..     585     651 ..     558     658 .. 0.81

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 1.2e-07
                              B--SS---HHHHHHHHHHHHHHHHHHHTT-EEEEEEEE---SHHHHHHHH.HTTS-HHHHHHHHH CS
             tRNA-synt_1g   8 pYangklHlGhllevisaDifaRykrlrgeevlfvcgtDehGtpielkAe.kegvtpeelvekvh 71 
                              p+a+g +H Ghll     D++ Ry  ++g+ v    g D hG pie + + k g++++e v+k+ 
  PHY93_13560|PHY93_13560  56 PFATGLPHHGHLLASTLKDVVPRYFTMKGRYVERRFGWDCHGLPIEHEIDkKLGMSAQEAVKKFG 120
                              7999*********99999****************************9976156999999988764 PP

  == domain 2  score: 11.9 bits;  conditional E-value: 1.8e-05
                              ..........EEE.EEEEEE-GGGGHHHHHHHH.HH-TTSHHHHHHHH.HHHHT----EE-ESS-SSS-EET....T CS
             tRNA-synt_1g 167 pksaisgskpevketehlffklskfekklkewieeeekeleenvkkivkewlkegLkdlaisrdldwGipvP....g 239
                              p +  s++  ++k   ++f +++k++++l +  ++ + +  +  +    +wl+   +d++isr+  wG p+P    +
  PHY93_13560|PHY93_13560 400 PFCPRSDTPLIYKAIPSWFVSVEKIKDRLLHSNSQINWTPAHIQEGRFGKWLEG-ARDWSISRNRIWGTPIPiwinD 475
                              56777777789999999***********99887555544555566678899975.9****************77643 PP

  == domain 3  score: 18.6 bits;  conditional E-value: 1.8e-07
                              --S-EEEE--EEE-.-------------HHHHHHHH-HHHHHHHHHH.HS-TTS-EEE-HHHHHHHH CS
             tRNA-synt_1g 311 lpkkvvaheyltve.gkKlSkSrgvvvkakealerldadllRYylaa.eapekkDldfswedfverv 375
                              + k+v++++ ++ e gkK+Sk  ++   ++e++e + ad+lR yl+     + ++  f+ + + + v
  PHY93_13560|PHY93_13560 585 AFKNVIVNGIVMAEdGKKMSKRLKNYTAPDELMEVFGADALRLYLINsGLVKAEEQRFTDTGVKDMV 651
                              567899999877652799****************************945567777888877666555 PP

>> tRNA-synt_1e  tRNA synthetases class I (C) catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0      0.96   3.4e+03      56     127 ..     103     194 ..      58     217 .. 0.55
   2 !   19.6   0.0   1.3e-07   0.00048     228     282 ..     576     631 ..     572     649 .. 0.90

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 0.96
                              --SHHHHHHHHHTTS-.............HHHHHHHHHHHHHHHHHHTT----SB--BGGGGHHHHHHHHHHHHHTTSEEE-TT.. CS
             tRNA-synt_1e  56 DidDkiikrareeeks.............vkelaekfieefkkdleaLnvlkptleprvsekvdeiielvekliekgyaYavsd.. 126
                              +id k+   a+e+ k+             v++ ++++++  ++  + ++ +  ++++  ++ ++++  ++++l +k   Y+ ++  
  PHY93_13560|PHY93_13560 103 EIDKKLGMSAQEAVKKfgvkgyndecrsiVQRYTSEWERTITRIGRWVDFK-NDYKTMDANFMESVWWVINELWKKDLIYQGTKvm 187
                              455555555555544445555555522223333333333333333333333.3666666677777777777777777777776544 PP

                              ......S CS
             tRNA-synt_1e 127 ......g 127
                                    g
  PHY93_13560|PHY93_13560 188 pfstalG 194
                              4444444 PP

  == domain 2  score: 19.6 bits;  conditional E-value: 1.3e-07
                              HHHHHSSS--EEEEEEE--EEET.TBE--TTTT---BHHHHHTTS-HHHHHHHHHS CS
             tRNA-synt_1e 228 qseaafdkqlvkyflhnghlkie.gekmsksLknfitikdvlkkfdprqlRlllls 282
                               s+a+fdk+  k  + ng+++ e g+kmsk Lkn++   ++++ f + +lRl+l++
  PHY93_13560|PHY93_13560 576 LSTALFDKPAFKNVIVNGIVMAEdGKKMSKRLKNYTAPDELMEVFGADALRLYLIN 631
                              5899***************99853799**************************986 PP

>> PND  FANCM pseudonuclease domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.0      0.49   1.8e+03      20     102 ..     205     289 ..     194     313 .. 0.68
   2 ?   11.8   0.3   6.1e-05      0.22      55     115 ..     815     875 ..     784     880 .. 0.85

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 0.49
                              HHHHHTT.TSEEEEESS-S.SSEECSSSEEEEEEEHHHHHH-STTHHHHHHHHTS.SS-EEEEEEE--TT..TGGGHHHHHHHHHT CS
                      PND  20 lvqklkd.kikvlfedelgvvDfylsndtavlyiseadiiegngykrkLvklrka.eklrgivlvektkl..seqyfsaLqkfvvl 101
                                q ++d  + +lf+ + +  Dfy+++ t+  +   +++    g   + vk+r   + ++ i+ +e+ +    ++ +  L  f   
  PHY93_13560|PHY93_13560 205 NYQDVQDpAVTILFKVKDQ--DFYIAAWTTTPWTLPSNLALCMGAEIEYVKVRDPeRDIKFIIAAERVEAysKKRTLEVLETFKGS 288
                              5567777678888876654..99999988888877777777777778888999875678888888886531133445556666555 PP

                              T CS
                      PND 102 e 102
                              +
  PHY93_13560|PHY93_13560 289 D 289
                              5 PP

  == domain 2  score: 11.8 bits;  conditional E-value: 6.1e-05
                              HHHHH-STTHHHHHHHHTSSS-EEEEEEE--TTTGGGHHHHHHHHHTTC--EEEEESSHHH CS
                      PND  55 adiiegngykrkLvklrkaeklrgivlvektklseqyfsaLqkfvvleLglkLlpvaeqte 115
                               +ii  +  kr+Lv+++    l+++ +++k ++  + +++L  +   eL++k + ++ ++e
  PHY93_13560|PHY93_13560 815 QQIILLGRQKRNLVQIKVKTPLKRLTIIHKDQKLLNEIQKLSSYLQTELNIKNIEFSTEEE 875
                              567777889*****************************************99988876644 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1044 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       724  (0.0403815); expected 358.6 (0.02)
Passed bias filter:                      521  (0.0290591); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.86u 0.29s 00:00:01.14 Elapsed: 00:00:00.51
# Mc/sec: 6204.85
//
Query:       PHY93_13565|PHY93_13565  [L=319]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.034   14.8   0.0      0.066   13.8   0.0    1.5  1  FecR      FecR protein


Domain annotation for each model (and alignments):
>> FecR  FecR protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   3.7e-06     0.066       1      50 [.     115     167 ..     115     182 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 3.7e-06
                     FecR   1 dvirTgagsraeilleDgsvvrlnenssl...ekaadsskrrrevsllkGevl 50 
                              d+i+T  +s a i l Dg++vrl+++ss+   e +  ++++  +v++ +G++l
  PHY93_13565|PHY93_13565 115 DEIQTIGESYAWIFLLDGTMVRLAPESSInfnELNIGAKENFLNVRVNAGNIL 167
                              5788999999999****************988777777777778889999884 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (319 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       458  (0.0255452); expected 358.6 (0.02)
Passed bias filter:                      406  (0.0226449); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.29s 00:00:00.83 Elapsed: 00:00:00.48
# Mc/sec: 1988.87
//
Query:       PHY93_13570|PHY93_13570  [L=97]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (97 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       206  (0.0114898); expected 358.6 (0.02)
Passed bias filter:                      123  (0.00686039); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.26s 00:00:00.68 Elapsed: 00:00:00.45
# Mc/sec: 648.90
//
Query:       PHY93_13575|PHY93_13575  [L=264]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      5e-25   88.6   0.0    6.2e-25   88.3   0.0    1.1  1  Antibiotic_NAT  Aminoglycoside 3-N-acetyltransferase
  ------ inclusion threshold ------
       0.13   11.5   0.0       0.19   11.0   0.0    1.2  1  Amj             Alternate to MurJ


Domain annotation for each model (and alignments):
>> Antibiotic_NAT  Aminoglycoside 3-N-acetyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.3   0.0   6.9e-29   6.2e-25      14     214 ..      49     242 ..      40     248 .. 0.86

  Alignments for each domain:
  == domain 1  score: 88.3 bits;  conditional E-value: 6.9e-29
                              THHHHHHHHHHHHHTTTSEEEEE----G--GGGHHHHHHHS----TTT---GG-HHHHHHTTSTT-EE-S-TTT-EEEEETTHHHH CS
           Antibiotic_NAT  14 ggaetvidallevvgeeGtlvmptftdpvpeewwktvraempaydpattpsgmGvlaelfrkrpgvvRSahPthSfaalGkraeel 99 
                               g e+++d++levvg + + +mptft        k + + +   d +++  + Gv++e+frkrpgv RS +  +Sfa++G+  e++
  PHY93_13575|PHY93_13575  49 AGVEQLLDVILEVVG-KRNFLMPTFT--------KGFTDGISNLDTESS--TTGVISECFRKRPGVRRSLSAFFSFAIIGPASEDV 123
                              57799**********.88999*****........677777777776666..55********************************9 PP

                              HST--STTTSSTTSHHHHHHHSTEEEEEEB--GGG-TTHHHHTTSS...S---EEEEEEEEEE.TTE....EEEEEEEEE---G.C CS
           Antibiotic_NAT 100 leehsldsplgegSplgrlyelggkvLllGvglernTalHlaEerad.vpnkrldeeeapvieeege....rvwveyedvelds.e 179
                                + + ++  g++S+++++  +++  L+lG++   +++lH  E +a+   n r+d++++  i +eg+    ++  ++++++    +
  PHY93_13575|PHY93_13575 124 -FNLRSEHAWGKNSVYEWMENNDACFLMLGTHPTHCSYLHRLELLAKeRINYRFDKTFSGKIIREGSsfdiQETLYVRKLDPPVvN 208
                              .45556899*************************************9755777899999777446666999888888888855559 PP

                              GHHHHHHHHHTT--.EEEEETTEEEEEEEHHHHHH CS
           Antibiotic_NAT 180 dfeklgaaleeegvlregkvgdakarlfdarelvd 214
                              df  l ++l+e+g+ +++++ + +     +++l++
  PHY93_13575|PHY93_13575 209 DFTVLLPHLYEAGM-QKITINGVSLASYHTKDLLK 242
                              *************6.*****999999888888876 PP

>> Amj  Alternate to MurJ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   2.1e-05      0.19      86     119 ..      67     100 ..      44     113 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 2.1e-05
                      Amj  86 lliPtfvrifsraikkleeagSvpklllkllsvs 119
                              +l+Ptf + f+  i++l+++ S + ++ + ++++
  PHY93_13575|PHY93_13575  67 FLMPTFTKGFTDGISNLDTESSTTGVISECFRKR 100
                              79***************************99654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (264 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       408  (0.0227564); expected 358.6 (0.02)
Passed bias filter:                      395  (0.0220313); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.44
# Mc/sec: 1792.99
//
Query:       PHY93_13580|PHY93_13580  [L=81]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.7e-08   33.3   0.4    5.5e-08   33.0   0.4    1.1  1  PP-binding    Phosphopantetheine attachment site
  ------ inclusion threshold ------
      0.018   15.2   0.1       0.02   15.1   0.1    1.2  1  PP-binding_2  Acyl-carrier


Domain annotation for each model (and alignments):
>> PP-binding  Phosphopantetheine attachment site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.0   0.4   6.2e-12   5.5e-08       5      67 .]      10      75 ..       7      75 .. 0.84

  Alignments for each domain:
  == domain 1  score: 33.0 bits;  conditional E-value: 6.2e-12
               PP-binding  5 elvaevlgvpleeidpdtdlf.dlGlDSllavellaaleeefgveiplsdl.fe.hptlaelaayl 67
                             el++ + g + +++++++ lf +  lDS  +++l++++ +ef ++i  +dl  + ++t++++a ++
  PHY93_13580|PHY93_13580 10 ELAQNIVGPDKDAFTATSQLFdEHILDSFGLIQLVGEIDREFSIAIKTEDLtIQnFSTINNIATLV 75
                             6667777756677999999994477**************************8677*******9875 PP

>> PP-binding_2  Acyl-carrier
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.1   0.1   2.3e-06      0.02      42      84 ..      31      75 ..       7      80 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 2.3e-06
             PP-binding_2 42 edrlwdgldtvefvedveelfdvivs..devadnfetlqeiadlv 84
                             ++ + d++  +++v +++  f + +   d +++nf t+++ia lv
  PHY93_13580|PHY93_13580 31 DEHILDSFGLIQLVGEIDREFSIAIKteDLTIQNFSTINNIATLV 75
                             77889999999999999999*99986225699**********998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (81 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       406  (0.0226449); expected 358.6 (0.02)
Passed bias filter:                      300  (0.0167327); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.25s 00:00:00.70 Elapsed: 00:00:00.45
# Mc/sec: 545.22
//
Query:       PHY93_13585|PHY93_13585  [L=429]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   4.7e-109  363.0   0.0   5.6e-109  362.7   0.0    1.1  1  DUF4910   Domain of unknown function (DUF4910)
    4.3e-39  132.8   0.3    1.2e-38  131.4   0.2    1.9  2  DUF2172   Domain of unknown function (DUF2172)
    4.1e-23   80.7   0.0      7e-23   80.0   0.0    1.4  1  HTH_47    winged helix-turn-helix


Domain annotation for each model (and alignments):
>> DUF4910  Domain of unknown function (DUF4910)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  362.7   0.0  9.4e-113  5.6e-109       1     246 []      10     350 ..      10     350 .. 1.00

  Alignments for each domain:
  == domain 1  score: 362.7 bits;  conditional E-value: 9.4e-113
                              HHHHHHHTTS---SSSHHHHHHHHHHTTTS-.-EEEEEETT-EETTEE---................................... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxx................................... RF
                  DUF4910   1 yelieelfpicRsitgdgvretleilkealp.leihevpsGtkvfdWtvPk................................... 50 
                              ++l+++l+pi+Rsitg gvretl++lke lp le+hevpsGt+vfdWtvP+                                   
  PHY93_13585|PHY93_13585  10 HDLACRLWPINRSITGAGVRETLNVLKELLPkLEVHEVPSGTAVFDWTVPNewnvkeawiesadgqrivdfknhnlhlvgystpvd 95 
                              899*********************************************************************************** PP

                              ..........................................................ES-EEEEEEEEE--SSS-EEEEEEE--- CS
                              ..........................................................xxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                  DUF4910  51 ..........................................................eeGsltygelvlpgeteeevllsahvCh 78 
                                                                                        e Gsltygel++pge++eev+ls++vCh
  PHY93_13585|PHY93_13585  96 tiisleelqthlyslpdqptaipyitsyysprwgfclshqerlklksgqyhvhidstlEAGSLTYGELIIPGESKEEVFLSTYVCH 181
                              ************************************************************************************** PP

                              -S-TTTTHHHHHHHHHHHHHHTTS--.SSEEEEEEE-TTHHHHHHHHH-GGGGG.GEEEEEE--S--SSS-EEEE--TTSSSHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                  DUF4910  79 PslandnlsGiavatalakalaerkerrysyrllfvPetiGsitylsrneeklk.kikaGlvltcvGdegalsykksrrgdaeiDr 163
                              Ps+an++lsG+ v+t lak+++e  +r+y+yr++f+PetiGsityls+n ++lk ++ aG+ +tc+Gd++++s+ +sr+gd+ +Dr
  PHY93_13585|PHY93_13585 182 PSMANNELSGPCVTTYLAKWINELPKRHYTYRIIFIPETIGSITYLSKNLNHLKqNVIAGFNITCIGDNRDYSFLPSRSGDTLSDR 267
                              *****************************************************999****************************** PP

                              HHHHHHHHSSS-EEEE---S-SSTHHHHTSTTT---EEEEESS-TT.-TTTTBTTSSGGG--HHHHHHHHHHHHHHHHHHHH- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                  DUF4910 164 vvahvlkeskeefkvvdflpygyDerqycsPgvdlpvgslaRskygeypeYhtsaDnldfvkpealeesfelllevlevlenn 246
                              v+ hvlk ++++fk ++fl++g+DerqycsPgvdlpv++++Rsky+eypeYhts D+l +++pe+le +f++l++++e++enn
  PHY93_13585|PHY93_13585 268 VALHVLKYHAKDFKSYSFLDRGSDERQYCSPGVDLPVATVMRSKYAEYPEYHTSLDDLTLITPEGLEGGFTVLQKAIETIENN 350
                              *********************************************************************************98 PP

>> DUF2172  Domain of unknown function (DUF2172)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  131.4   0.2   1.9e-42   1.2e-38       1      92 []      61     152 ..      61     152 .. 0.99
   2 ?   -3.8   0.0         3   1.8e+04      22      30 ..     267     275 ..     257     278 .. 0.70

  Alignments for each domain:
  == domain 1  score: 131.4 bits;  conditional E-value: 1.9e-42
                              EEEEEEEEEE-TTS-EEEETTT-GGGB-BT---EEEEEEHHHHGGGEE--TTSTT--B--B-SSS----EE--HHHHHT--SSEEE CS
                  DUF2172   1 eWnirdayikdskGerivdfkknnLhvvgySvpvdktlsleeLkkhlhtlpeqpdaipyrtsyykeeWGFclsheelkeLkdgeYe 86 
                              eWn+++a+i++++G+rivdfk++nLh+vgyS+pvd+ +sleeL++hl++lp+qp aipy tsyy+++WGFclsh+e+ +Lk g+Y+
  PHY93_13585|PHY93_13585  61 EWNVKEAWIESADGQRIVDFKNHNLHLVGYSTPVDTIISLEELQTHLYSLPDQPTAIPYITSYYSPRWGFCLSHQERLKLKSGQYH 146
                              8************************************************************************************* PP

                              EEEEEE CS
                  DUF2172  87 vvidse 92 
                              v+ids+
  PHY93_13585|PHY93_13585 147 VHIDST 152
                              ****96 PP

  == domain 2  score: -3.8 bits;  conditional E-value: 3
                              T-GGGB-BT CS
                  DUF2172  22 knnLhvvgy 30 
                              +  Lhv++y
  PHY93_13585|PHY93_13585 267 RVALHVLKY 275
                              567899988 PP

>> HTH_47  winged helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   80.0   0.0   1.2e-26     7e-23       4      76 ..     354     424 ..     351     426 .. 0.94

  Alignments for each domain:
  == domain 1  score: 80.0 bits;  conditional E-value: 1.2e-26
                              EES--SS---TTS----------------HHHHHHHHHH-EEEEEHHHHHHHHT--HHHHHHHHHHHHHTT-E CS
                   HTH_47   4 kntsplgEPqLGrrGLYrtiggkntakqaemallwvLnlaDGkrsLldiAeriglpfdrvaaiaraLaeagll 76 
                              k t  lgEPqLG+rGLY+t+++k+t ++++++++++++++DG+ s+l+iAe+i+ p+ ++++i raL + gll
  PHY93_13585|PHY93_13585 354 KVTV-LGEPQLGKRGLYPTLSTKET-HAKVRTMMDMIAYSDGTISMLEIAEIIKKPMTEMIPIYRALYDCGLL 424
                              5566.9******************7.999*****************************************998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (429 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       326  (0.0181828); expected 358.6 (0.02)
Passed bias filter:                      312  (0.017402); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 2812.46
//
Query:       PHY93_13590|PHY93_13590  [L=587]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (587 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       691  (0.0385409); expected 358.6 (0.02)
Passed bias filter:                      375  (0.0209158); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.63u 0.25s 00:00:00.88 Elapsed: 00:00:00.46
# Mc/sec: 3865.72
//
Query:       PHY93_13595|PHY93_13595  [L=334]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   5.5e-102  340.8   0.0   6.5e-102  340.6   0.0    1.0  1  Polysacc_synt_2  Polysaccharide biosynthesis protein
    1.2e-21   77.3   0.0      1e-20   74.2   0.0    2.1  1  Epimerase        NAD dependent epimerase/dehydratase family
      1e-19   70.7   0.0    1.6e-17   63.4   0.0    2.1  2  3Beta_HSD        3-beta hydroxysteroid dehydrogenase/isomeras
    1.6e-14   54.1   0.0    1.1e-13   51.3   0.0    2.0  1  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
    6.6e-10   38.6   0.0    2.6e-08   33.3   0.0    2.2  1  RmlD_sub_bind    RmlD substrate binding domain
    1.8e-09   37.1   0.0    3.1e-07   29.8   0.0    2.8  2  NAD_binding_4    Male sterility protein
    1.9e-06   27.9   0.0    2.9e-06   27.3   0.0    1.3  1  NAD_binding_10   NAD(P)H-binding
    1.9e-06   27.4   0.0    3.2e-06   26.8   0.0    1.4  1  adh_short        short chain dehydrogenase
    9.4e-05   22.1   0.0    0.00015   21.5   0.0    1.3  1  NmrA             NmrA-like family
    0.00026   21.3   0.0    0.00053   20.3   0.0    1.6  1  Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding doma
  ------ inclusion threshold ------
       0.02   14.8   0.0      0.032   14.2   0.0    1.3  1  KR               KR domain
      0.039   14.0   0.0      0.091   12.8   0.0    1.5  1  Shikimate_DH     Shikimate / quinate 5-dehydrogenase
      0.052   14.3   0.0       0.29   11.8   0.0    2.2  2  DXP_reductoisom  1-deoxy-D-xylulose 5-phosphate reductoisomer
      0.068   14.0   0.0       0.38   11.6   0.0    2.1  2  GFO_IDH_MocA     Oxidoreductase family, NAD-binding Rossmann 
       0.14   12.6   0.0       0.44   11.0   0.0    1.9  2  Semialdhyde_dh   Semialdehyde dehydrogenase, NAD binding doma


Domain annotation for each model (and alignments):
>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  340.6   0.0  5.4e-105  6.5e-102       1     293 [.       7     282 ..       7     283 .. 0.97

  Alignments for each domain:
  == domain 1  score: 340.6 bits;  conditional E-value: 5.4e-105
                              EEEETTTSHHHHHHHHHHHHH..B-SEEEEEES-HHHHHHHHHH......-TTEEEE....E--TT-HHHHHHHTT..T-SEEEE- CS
          Polysacc_synt_2   1 vlvtGagGsiGselvrqilkk..kpkkiillerdElklyeiekeleeelkkkklkveivpvigdvrdkerlekaleelkvdvvfha 84 
                              +lvtG++Gs+G+++++++ kk  ++k++++++rdElk+ye+++++  +++  +l+++    igdvrd erl++a+e  ++d+++ha
  PHY93_13595|PHY93_13595   7 ILVTGGTGSFGKKFIETVFKKfpDVKRVVVYSRDELKQYEMAQSF-PNKNYPQLRFF----IGDVRDGERLKRACE--GIDIIVHA 85 
                              89*****************998999******************98.56677789999....***************..******** PP

                              -----HHHHHHSHHHHHHHHHHHHHHHHHHHHHTT-SEEEEEEEGGGSS--SHHHHHHHHHHHHHHHGGG--SSS--EEEEEEE-E CS
          Polysacc_synt_2  85 AAlKhVPlveenpleaiktNvlgtenvieaaieagvkkvvliStDKAvnPtnvmGatKrlaekllqalakeseekktkfvvvRfGN 170
                              AAlKhVP++e+np+e+iktN+ g+en+++aa+++gv+kvv++StDKA+ P+n++GatK++++kl++a+++ ++ ++ kf+vvR+GN
  PHY93_13595|PHY93_13595  86 AALKHVPIAEYNPMECIKTNINGAENIVSAALDCGVQKVVALSTDKACAPINLYGATKLCSDKLFIAANNMKGGRDLKFSVVRYGN 171
                              ************************************************************************************** PP

                              ETTGTTSSHHHHHHHHHTTSSEEES-TT-EEEEE-HHHHHHHHHHHHHH--SS-EEEE--.-EEEHHHHHHHH..........SSS CS
          Polysacc_synt_2 171 VlgSrGSviplFkkqikeggpvtvTdpemtRyfmtieeavqLvlqalalakggeifvldmGepvkivdlakalielsgleekkeed 256
                              VlgSrGSv+p+F ++ k +g +++T++ mtR+ +t+ee+v++v++a+++a gge+fv ++ +++ki+d+aka+          ++d
  PHY93_13595|PHY93_13595 172 VLGSRGSVVPFFMNKRK-DGVLPITHEGMTRFNITLEEGVDMVMYAIENAWGGELFVPKI-PSYKILDVAKAV----------APD 245
                              *************9865.569***************************************.************..........78* PP

                              S-EEE----TT--SS-EEE-GGGGGGEEE-SSEEEE- CS
          Polysacc_synt_2 257 ieikitGlRpGEklyEeLlieeesveetelekilrak 293
                              ++i+i+G+RpGEkl+Ee+++e++s ++++  k+++++
  PHY93_13595|PHY93_13595 246 CKIEIVGIRPGEKLHEEMITETDSLSTYDCGKYYVIS 282
                              *********************************9975 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.2   0.0   8.7e-24     1e-20       1     196 [.       7     190 ..       7     224 .. 0.82

  Alignments for each domain:
  == domain 1  score: 74.2 bits;  conditional E-value: 8.7e-24
                              EEEETTTSHHHHHHHHHHHHCT..SE.EEEEES-STTTTCHHCHHC..........EEEE--TT-HHHHHHHHHHHT-SEEEE--S CS
                Epimerase   1 ilVtGatGfiGsalvkallekg..ye.vigldrlssasntarledl..........elveldltdrsalerlfkeeqpdavihlAa 73 
                              ilVtG+tG  G+ +++ + +k   ++ v++ +r+ + ++ +               ++  +d++d+++l+r+++  ++d+++h+Aa
  PHY93_13595|PHY93_13595   7 ILVTGGTGSFGKKFIETVFKKFpdVKrVVVYSRD-ELKQYEMA--QsfpnknypqlRFFIGDVRDGERLKRACE--GIDIIVHAAA 87 
                              8*******************99664424444444.33333333..145889999********************..********** PP

                              ---HHHHHHSHHHHHHHHTHHHHHHHHHHHHHTCTEEEEEEEGGGGTSCSSSSBSTCSTTS----SSHHHHHHHHHHHHHHHHHHH CS
                Epimerase  74 vggvaassedpadfieknlqgtlnlleaarkagvkrllflsSsevYGkdaeqpkeettltgplkpnspYaaaKlageklveayaaq 159
                               ++v+    +p ++i++n++g+ n+++aa ++gv++++ ls+            ++ +     +p + Y+a+Kl+++kl  a+++ 
  PHY93_13595|PHY93_13595  88 LKHVPIAEYNPMECIKTNINGAENIVSAALDCGVQKVVALST------------DKAC-----APINLYGATKLCSDKLFIAANNM 156
                              ******************************************............1234.....899*******************9 PP

                              HT...-EEEEEEESEEESTTS-TTSTTSHHHHHHHHHHTT CS
                Epimerase 160 yg...lnaiilrlfnlyGprngegevsrvipalirkileg 196
                               g   l++ ++r+ n+ G r       +v+p +++k ++g
  PHY93_13595|PHY93_13595 157 KGgrdLKFSVVRYGNVLGSR------GSVVPFFMNKRKDG 190
                              97799**************9......66666666665554 PP

>> 3Beta_HSD  3-beta hydroxysteroid dehydrogenase/isomerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.4   0.0   1.4e-20   1.6e-17       1     120 [.       8     133 ..       8     137 .. 0.87
   2 !    5.9   0.0    0.0046       5.5     143     197 ..     136     187 ..     130     216 .. 0.80

  Alignments for each domain:
  == domain 1  score: 63.4 bits;  conditional E-value: 1.4e-20
                3Beta_HSD   1 vvtGgaGFlGralvkeLvrlee.lkevrvlDlrespelleelskvnvkk.....viegDvtdkdkleealegvdvvihlaslvdva 80 
                              +vtGg+G  G++ ++++++  + +k v v+  +e ++  e ++++ +k+     +  gDv+d ++l++a+eg+d+++h a+l  v 
  PHY93_13595|PHY93_13595   8 LVTGGTGSFGKKFIETVFKKFPdVKRVVVYSRDELKQY-EMAQSFPNKNypqlrFFIGDVRDGERLKRACEGIDIIVHAAALKHVP 92 
                              69**************9987665999999877776666.6666666666566999*****************************97 PP

                3Beta_HSD  81 g.kltedeimkvnvkGTrnvleacvkagvrvlvYtSsaevv 120
                                +++  e+ k n++G +n+++a++++gv+++v  S+ ++ 
  PHY93_13595|PHY93_13595  93 IaEYNPMECIKTNINGAENIVSAALDCGVQKVVALSTDKAC 133
                              659999***************************99997765 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.0046
                3Beta_HSD 143 qdaypesKalaEklvlkaNgrtlknggrlyTcaLRpagiyGegdkllvpllkqla 197
                               + y  +K  ++kl ++aN+  +k+g +l    +R   + G + ++ vp++ +  
  PHY93_13595|PHY93_13595 136 INLYGATKLCSDKLFIAANN--MKGGRDLKFSVVRYGNVLGSRGSV-VPFFMNKR 187
                              57899***************..99999***9999999999987654.44444444 PP

>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.3   0.0   9.3e-17   1.1e-13       1     131 [.       8     131 ..       8     200 .. 0.90

  Alignments for each domain:
  == domain 1  score: 51.3 bits;  conditional E-value: 9.3e-17
                              EEETTTSHHHHHHHHHHHHCT-CCEEEEEEESS-TTHHHHHCTTT...TTGCCEEEEE--TT-HHHHHHHHHHHT-SEEEE--S-- CS
            GDP_Man_Dehyd   1 LiTGiaGfiGsylaelLlekgyevhgivrrsssfntgriehlakdpkeeleenlklhkgDltDssslerllaevqpdevynLAAqs 86 
                              L+TG++G  G  ++e   +k  +v  +v +s   ++++ e  ++ p++ + ++l+++ gD++D ++l+r+ + +  d +++ AA +
  PHY93_13595|PHY93_13595   8 LVTGGTGSFGKKFIETVFKKFPDVKRVVVYSRD-ELKQYEMAQSFPNK-NYPQLRFFIGDVRDGERLKRACEGI--DIIVHAAALK 89 
                              9*******************9999998876654.55666666666654.4689******************998..99******** PP

                              -HHHHTTSHHHHHHHHTHHHHHHHHHHHHCT..TTSEEEEEEEGG CS
            GDP_Man_Dehyd  87 hVdvsfekPeytaevnvlGtlrLLeairalglekkvrfyqaStsE 131
                              hV+    +P + +++n+ G+ +++ a+ ++g++   +++  St+ 
  PHY93_13595|PHY93_13595  90 HVPIAEYNPMECIKTNINGAENIVSAALDCGVQ---KVVALSTDK 131
                              *******************************97...778888874 PP

>> RmlD_sub_bind  RmlD substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.3   0.0   2.1e-11   2.6e-08       2     165 ..       6     186 ..       5     193 .. 0.82

  Alignments for each domain:
  == domain 1  score: 33.3 bits;  conditional E-value: 2.1e-11
                              EEEEESTTSHHHHHHHHHCTT..TSEEEEEE.-TT......................T--TTSHHHHHHHHHHH--SEEEE----- CS
            RmlD_sub_bind   2 kilvtGanGqlGseLakqlae..eglevlal.tre......................eldltdaeavaellkeakpdvvvnaAAyt 62 
                              +ilvtG++G  G++ ++ + +   +++ + + +r+                        d++d e+++++ +    d++v+aAA +
  PHY93_13595|PHY93_13595   6 RILVTGGTGSFGKKFIETVFKkfPDVKRVVVySRDelkqyemaqsfpnknypqlrffIGDVRDGERLKRACEG--IDIIVHAAALK 89 
                              79***********9999876623344444442555999**************9999999************99..789******** PP

                              -HHHHHHSHHHHHHHHTHHHHHHHHHHHHCT-.EEEEEEEGGGS-S-TTS-B-TTS----SSHHHHHHHHHHHHHHH.......H- CS
            RmlD_sub_bind  63 avDkaEseeeaayavnaeavealAeaaaavga.lLihvStDyVFdGekkrpYeeddetsPlnvYGrtKlaGEqavla.......ag 140
                               v  aE ++ +  + n +++e++  aa  +g+ +++ +StD               + +P+n+YG+tKl   +   a         
  PHY93_13595|PHY93_13595  90 HVPIAEYNPMECIKTNINGAENIVSAALDCGVqKVVALSTD--------------KACAPINLYGATKLCSDKLFIAannmkggRD 161
                              *******************************9458999998..............4678999999999999887655343333333 PP

                              SSEEEEEE-SEESSSSS-HHHHHHH CS
            RmlD_sub_bind 141 kkalivRtswvygekgknfvktmlr 165
                               k+ +vR + v+g++g    + m +
  PHY93_13595|PHY93_13595 162 LKFSVVRYGNVLGSRGSVVPFFMNK 186
                              4788888888888888777666655 PP

>> NAD_binding_4  Male sterility protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.8   0.0   2.6e-10   3.1e-07       1     138 [.       9     132 ..       9     137 .. 0.82
   2 ?    3.7   0.0     0.024        29     174     209 ..     137     178 ..     135     218 .. 0.64

  Alignments for each domain:
  == domain 1  score: 29.8 bits;  conditional E-value: 2.6e-10
                              EE-TTSHHHHHHHHHHHHHS-.T.EEEEEE-SSSHHHHHHHHHHHT-SS-HHHHHHHHHTTTEEEEE--TTSGGGG--HHHHHHHH CS
            NAD_binding_4   1 lTGaTGFLGkvLlekLLrttpev.kiyllvRaksgesaeeRleeelekkelfsallkelaerikvveGDlseprlGLseedlqela 85 
                              +TG+TG  Gk ++e   ++ p+v ++++  R + +        +  + ++++++       ++++  GD+ +       e+l++ +
  PHY93_13595|PHY93_13595   9 VTGGTGSFGKKFIETVFKKFPDVkRVVVYSRDELK--------QYEMAQSFPNKN----YPQLRFFIGDVRDG------ERLKRAC 76 
                              7**********************99*999998844........222233455555....599********975......79***** PP

                              HH--EEEE--SS-S....STTSSEEHHHHHHHHHHHHHHHTSSS--.-EEEEEE.GG CS
            NAD_binding_4  86 eevdviihsaAtvnf...depykellrvNveGtrevlelakklkklkvllhvST.ay 138
                              e +d+i+h aA  ++   +++  e++++N++G++++++ a  +  +  ++  ST  +
  PHY93_13595|PHY93_13595  77 EGIDIIVHAAALKHVpiaEYNPMECIKTNINGAENIVSAALDCGVQ-KVVALSTdKA 132
                              ***********98863224455679******************888.9999999643 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.024
                              CHHHHHHHHHHHHHHHHHH...HH---EEEEEE-EEE-...- CS
            NAD_binding_4 174 ntYeqsKalaEklvrearr...rsglpvvivRpsiitg...e 209
                              n Y  +K +++kl  +a++     +l++++vR ++++g   +
  PHY93_13595|PHY93_13595 137 NLYGATKLCSDKLFIAANNmkgGRDLKFSVVRYGNVLGsrgS 178
                              679*********9766654111357889*********95552 PP

>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.3   0.0   2.4e-09   2.9e-06       1     101 [.      11     132 ..      11     168 .. 0.77

  Alignments for each domain:
  == domain 1  score: 27.3 bits;  conditional E-value: 2.4e-09
                              TTTSHHHHHHHHHHHHC-..T-EEEEEETTHHHC....HHHHCT..TTCEEEE--TT-CCHHHHHHTT-SEEEES---TCC..... CS
           NAD_binding_10   1 GAtGkvGrllvkellarg..ghevtalvRnpekl....aeleae..eglevvegdvtdvedlaealkgadaVvsalggggk..... 73 
                              G+tG+ G++ ++   ++     +v+++ R++ k     ++++++  ++l+ + gdv d e l++a++g+d++v a++ ++      
  PHY93_13595|PHY93_13595  11 GGTGSFGKKFIETVFKKFpdVKRVVVYSRDELKQyemaQSFPNKnyPQLRFFIGDVRDGERLKRACEGIDIIVHAAALKHVpiaey 96 
                              99**********99999764335666778753331111456533369***********************9999995554444444 PP

                              ......HHHH....HHHHHHHHHHCT--EEEEEEETTT CS
           NAD_binding_10  74 ......deeg....aknivdaakeagvkRfvlvsaigv 101
                                    +  +    a+niv aa   gv+++v +s+ ++
  PHY93_13595|PHY93_13595  97 npmeciK--TningAENIVSAALDCGVQKVVALSTDKA 132
                              4455541..04566******************998655 PP

>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.8   0.0   2.6e-09   3.2e-06       1     153 [.       5     143 ..       5     172 .. 0.80

  Alignments for each domain:
  == domain 1  score: 26.8 bits;  conditional E-value: 2.6e-09
                              SEEEEESTTSHHHHHHHHHHHHT...T-EEEEEESCHHHHHHHHHHHHHT.TSEEEEEE-TTTSHHHHHHHHHHHHHHHSSESEEE CS
                adh_short   1 kvvlvtGassGIGraiakelake...Gakvvvvdrseekleevakelkee.gakalaiqvDvtdreevealvekavkklgkldvLv 82 
                              k +lvtG+++ +G+++ +++ k+     +vvv++r e k  e+a+++ ++   ++ ++ +Dv+d e+++++ e +       d++v
  PHY93_13595|PHY93_13595   5 KRILVTGGTGSFGKKFIETVFKKfpdVKRVVVYSRDELKQYEMAQSFPNKnYPQLRFFIGDVRDGERLKRACEGI-------DIIV 83 
                              679****************99984423567789****9***********9999**************99998876.......**** PP

                              E---SS--SSGGGCSHHHHHHHHHHHTHHHHHHHHHHHHHHHHCTTEEEEEEEEGGGTSB-TTBHHHHHHH CS
                adh_short  83 nNAGitgsgpfselseeewervievNltgvflltravlpamlkqssGrIvnvsSvagkvpvagvaaYsAsK 153
                              + A++ + +p++e++     ++i++N++g+ +++ a+l+        ++v  s     ++ a    Y+A+K
  PHY93_13595|PHY93_13595  84 HAAAL-KHVPIAEYNP---MECIKTNINGAENIVSAALDC----GVQKVVALST---DKACAPINLYGATK 143
                              *****.6888888876...579**************9998....2233444333...33344455566666 PP

>> NmrA  NmrA-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.0   1.2e-07   0.00015       1      98 [.       7     125 ..       7     132 .. 0.87

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 1.2e-07
                              EEESSTTSHHHHHHHHHHHH...HT-EEEEEES-S..-SHHHHHHHHSTTEEE...ES-TT-HHHHHHHHTT-SEEEE---GG... CS
                     NmrA   1 IlviGaTGrqGksvvrallk...aghkvralvRdt..kselakslkeaGvelv...kgdlddkeslvealkgvdvvfsvtgfy... 75 
                              Ilv+G+TG+ Gk +++ + k   +  +v +  Rd+  + e a+s+ ++    +    gd+ d e l++a +g d +  + +++   
  PHY93_13595|PHY93_13595   7 ILVTGGTGSFGKKFIETVFKkfpDVKRVVVYSRDElkQYEMAQSFPNKNYPQLrffIGDVRDGERLKRACEGIDIIVHAAALKhvp 92 
                              9******************9776666777788998888999****776543222259******************99999988899 PP

                              ..........S-HHHHHHHHHHHHHHHS-SEEE CS
                     NmrA  76 ..........skeiedgkklvdAakeaGvkhfi 98 
                                        +++i+   ++v+Aa   Gv++++
  PHY93_13595|PHY93_13595  93 iaeynpmeciKTNINGAENIVSAALDCGVQKVV 125
                              99****************************987 PP

>> Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.3   0.0   4.4e-07   0.00053       1      77 [.       7      86 ..       7     107 .. 0.92

  Alignments for each domain:
  == domain 1  score: 20.3 bits;  conditional E-value: 4.4e-07
                             EEEE--.SHHHHHHHHHHHCTCCT-GEEEEEESSHHHHHHHHCHH...TTTCEEEEE--TTTHHHHHHHHHTTSSEEEE-S CS
          Sacchrp_dh_NADP  1 vliiGa.GsvGqavaellarhfdvdaeitvadrskeklealaaka...lgvrfeaialdaenyeavLaallkegdlvvnls 77
                             +l+ G+ Gs G+ ++e + ++f+  ++++v +r++ k  ++a++    + +++ +   d+ + e  L++++++ d++v+++
  PHY93_13595|PHY93_13595  7 ILVTGGtGSFGKKFIETVFKKFPDVKRVVVYSRDELKQYEMAQSFpnkNYPQLRFFIGDVRDGER-LKRACEGIDIIVHAA 86
                             6788888***************9988***********8888888899999999************.************997 PP

>> KR  KR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   2.7e-05     0.032       4      76 ..       8      80 ..       6     133 .. 0.74

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 2.7e-05
                             EEETTTSHHHHHHHHHHHHHH..S-EEEEE-SS..--HHHHHHHHHHHHT.T-EEEE----TT-HHHHHHHHHHHH CS
                       KR  4 litGGlGgLGlelarwlaekg..arhlvllsRsaaadedskaliaeleal.gaevevvaaDvsdkdavealleeik 76
                             l+tGG+G++G++++++  +k    +++v+ sR++ ++ +   + +++ ++   + +++  Dv d + ++++ e i+
  PHY93_13595|PHY93_13595  8 LVTGGTGSFGKKFIETVFKKFpdVKRVVVYSRDELKQYE---MAQSFPNKnYPQLRFFIGDVRDGERLKRACEGID 80
                             9******************98779*********443333...4444444415588999999999999998888776 PP

>> Shikimate_DH  Shikimate / quinate 5-dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   7.6e-05     0.091      10      92 ..       2      95 ..       1     110 [. 0.77

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 7.6e-05
                             .TT-EEEEE.S-SHHHHHHHHHHHCC..T-CEEEEEESSHHHHHHHHHHHT.ET-EEEEG........CGHHHHHHT-SEEEE-SSSS CS
             Shikimate_DH 10 lkekkvlli.GaGemaelvakhLlak..gvkkvvvaNRtlerakelaeelkgeeiealkl........eelkellaeadvvisatase 86
                             l++k++l+  G+G  +++ ++   +k   vk+vvv  R+  +  e+a+++ ++++  l++        e lk++ + +d+++ a a +
  PHY93_13595|PHY93_13595  2 LNGKRILVTgGTGSFGKKFIETVFKKfpDVKRVVVYSRDELKQYEMAQSFPNKNYPQLRFfigdvrdgERLKRACEGIDIIVHAAALK 89
                             678899998358************99889*********************99988665544444443367888888888888888777 PP

                             S-SB-H CS
             Shikimate_DH 87 epilek 92
                             ++ + +
  PHY93_13595|PHY93_13595 90 HVPIAE 95
                             655554 PP

>> DXP_reductoisom  1-deoxy-D-xylulose 5-phosphate reductoisomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   0.00025      0.29       1     119 [.       7     127 ..       7     132 .. 0.77
   2 ?   -1.3   0.0       2.8   3.4e+03      85     103 ..     204     222 ..     191     227 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00025
                              EEEESTTSHHHHHHHH.HHHHCTTTEEEEEEEE..SSTHHHHHHHHHHHT-SE.EEESSHHHHHHHHHHHHHTTSSSEEEESHHHH CS
          DXP_reductoisom   1 vviLGsTGSIGtqtLd.vieenpdkfevvalaa..gsnvellaeqakefkpkl.vavadeeaaeelkealkekelktevlvGeeal 82 
                              +++ G TGS G++ ++ v +++pd  +vv  +    ++ e++ +  ++  p+l   + d ++ e+lk+a++  ++++ v++     
  PHY93_13595|PHY93_13595   7 ILVTGGTGSFGKKFIEtVFKKFPDVKRVVVYSRdeLKQYEMAQSFPNKNYPQLrFFIGDVRDGERLKRACE--GIDIIVHAAALKH 90 
                              6799***********8467899*9999988887423445555555555556653789999**********5..5777777777777 PP

                              HHHHCHTT-SEEEE--SSGGGHHHHHHHHHTTSEEEE CS
          DXP_reductoisom  83 kelaeeeeadvvvaaivGaaGLkptlaaikagkriaL 119
                              + +ae++ ++++ + i Ga  + ++      +k +aL
  PHY93_13595|PHY93_13595  91 VPIAEYNPMECIKTNINGAENIVSAALDCGVQKVVAL 127
                              7899**************9999887776667777776 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 2.8
                              HHCHTT-SEEEE--SSGGG CS
          DXP_reductoisom  85 laeeeeadvvvaaivGaaG 103
                              +  ee +d+v+ ai  a G
  PHY93_13595|PHY93_13595 204 ITLEEGVDMVMYAIENAWG 222
                              4456789******987766 PP

>> GFO_IDH_MocA  Oxidoreductase family, NAD-binding Rossmann fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00032      0.38       2      54 ..       6      59 ..       5      95 .. 0.82
   2 ?   -0.7   0.0         2   2.4e+03      57      80 ..     241     265 ..     222     268 .. 0.70

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00032
                             EEEEETT.SHHHHHHHHHHHHTTTTEEEEEEECSSHHHHHHHHHHTTHEEESSH CS
             GFO_IDH_MocA  2 rvaiiGa.Gkigskhlrplnesqrleevvalldpdaeraeavaesfgveaysdl 54
                             r+++ G+ G +g+k+++ + +++++ + v ++++d+ ++ ++a+sf  + y +l
  PHY93_13595|PHY93_13595  6 RILVTGGtGSFGKKFIETVFKKFPDVKRVVVYSRDELKQYEMAQSFPNKNYPQL 59
                             56666655**************************************99999874 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 2
                              HHTCTTESEEEE-S-G..GGHHHHHH CS
             GFO_IDH_MocA  57 lladpeidavivatpn..gtheelak 80 
                               +a p++++ iv++++  ++hee++ 
  PHY93_13595|PHY93_13595 241 AVA-PDCKIEIVGIRPgeKLHEEMIT 265
                              333.5888888999996677999986 PP

>> Semialdhyde_dh  Semialdehyde dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   0.00037      0.44       2      51 ..       7      56 ..       6      96 .. 0.72
   2 ?   -3.0   0.0       8.1   9.7e+03      80     109 ..     110     140 ..     104     149 .. 0.68

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00037
                             EEEETTTSHHHHHHHHHHHC.TSSEEEEEEEESTTTTTSBHHHHSGGGTTT CS
           Semialdhyde_dh  2 vaivGatGyvGqellrlLee.hpevelvvllsssrsaGkklaeavkaleeg 51
                             + + G+tG  G+++++ + +  p+v+ vv++s+++ +  ++a+ ++  +++
  PHY93_13595|PHY93_13595  7 ILVTGGTGSFGKKFIETVFKkFPDVKRVVVYSRDELKQYEMAQSFP-NKNY 56
                             6789***********998886999*********9966666666666.3333 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 8.1
                              HHHHHHHHHTTS.EEEESSSTTTTSTTSEBE CS
           Semialdhyde_dh  80 kelapklaeagv.kviDlssdfRlkddavyv 109
                              ++++ ++++ gv kv+ ls d    +   y+
  PHY93_13595|PHY93_13595 110 ENIVSAALDCGVqKVVALSTDKACAPINLYG 140
                              5677777788888888888876665555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (334 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       561  (0.0312901); expected 358.6 (0.02)
Passed bias filter:                      503  (0.0280551); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.66u 0.29s 00:00:00.95 Elapsed: 00:00:00.50
# Mc/sec: 2029.27
//
Query:       PHY93_13600|PHY93_13600  [L=377]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   4.7e-109  365.0   0.0   5.3e-109  364.8   0.0    1.0  1  DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
    8.1e-09   35.1   0.0    1.3e-08   34.5   0.0    1.3  1  Aminotran_1_2    Aminotransferase class I and II
    0.00019   20.8   0.0    0.00028   20.3   0.0    1.3  1  Beta_elim_lyase  Beta-eliminating lyase
     0.0003   19.4   0.0    0.00044   18.9   0.0    1.3  1  Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
  ------ inclusion threshold ------
      0.072   11.7   0.0      0.093   11.3   0.0    1.2  1  SHMT             Serine hydroxymethyltransferase
       0.13   10.9   0.1        0.2   10.3   0.1    1.2  1  SpoVAD           Stage V sporulation protein AD (SpoVAD)


Domain annotation for each model (and alignments):
>> DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  364.8   0.0  1.8e-112  5.3e-109       3     361 .]      12     377 .]      10     377 .] 0.92

  Alignments for each domain:
  == domain 1  score: 364.8 bits;  conditional E-value: 1.8e-112
                              HHHHHHHHHHHHTSS-SSSSHHHHHHHHHHHHHHT-SEEEEESSHHHHHHHHHHHTTTTTT-EEEEESSS-THHHHHHHHTT-EEE CS
          DegT_DnrJ_EryC1   3 keeeleaveevlksgwltsgpeveeFEkafaaylgvkhaiavssGtaAlhlaLralgvgpgdeVIvpsltFvatanavlelgakpv 88 
                              ++e+++av evl+s++lt+gp ve+FEk+f++++g k+a+av++GtaAlhla +al+vg gd+V+ ++++Fva+an+v+++g +  
  PHY93_13600|PHY93_13600  12 TQEDINAVVEVLNSDFLTQGPAVENFEKKFSQFVGCKYAVAVTNGTAALHLAAMALNVGSGDKVLCTTNSFVASANCVRYCGGEIE 97 
                              6899********************************************************************************** PP

                              EE-B-TTTSSB-GGGCGGG--TTE....EEEEEB-GGGB---HHHHHHHHHHCT-EEEEE-TT-TT-EETT.......EECCCSSS CS
          DegT_DnrJ_EryC1  89 fvDvdpdtynidpaaieaaitert....kaIlpVhlyGqvadmdalkaiaakhglkvieDaAhAlGatykg.......kkvGalgd 163
                              fvD+d++ ++id + +e+++ +      k+I++V+++G ++d++++++ia + gl+vieDa+hAlGa++ +          G ++d
  PHY93_13600|PHY93_13600  98 FVDIDAKNFCIDIDLLEKKLRSSPpktyKGIVAVDFAGYPVDFERIQKIALEFGLWVIEDACHALGANFIDskgikqhSGNGVYAD 183
                              ********************86545559*****************************************9999998433445678* PP

                              EEEEE-BTTSSS-SSS-EEEEESTHHHHHHHHHHHBTTCEC......CTCSSCECCS.S---B-B-BHHHHHHHHHHHCTHHHHHH CS
          DegT_DnrJ_EryC1 164 aavfSFyptKnlttGeGGavvtndeelaekarvlrnhGlkr......kaekryvgev.elGynyrlteiqAAiglaqLerldelva 242
                              +avfSF+p K+++tGeGG+v+tn++++ ek+++lr hG+ +      +++  ++ e+ elG+n+r+++i +A+g +qL r++  +a
  PHY93_13600|PHY93_13600 184 IAVFSFHPVKHIATGEGGMVTTNNPAIYEKLKLLRTHGITKdpslmsQSDGGWYYEMqELGFNFRISDILCALGSSQLTRIETNLA 269
                              ****************************************866666555555666669**************************** PP

                              HHHHHHHHHHHHHHTCCCCEESCGGTTSSSEEESCEEEEEHCCHHHCHHHHHHHHHHCCEE-B-SGSCHGGGSCCHHHHHHCCCHC CS
          DegT_DnrJ_EryC1 243 rRreiaelykeeLaelegtaelttpketkkhawhlyavlveeeaevkrdelvealkeegigtrvhypnplhrqpvyaerkeeasgd 328
                              rRreia  y+++L++le t   ++ +++k+h +hly+++++      r+el e lk+++i t+vhy +p+h qp+y++r++e+s  
  PHY93_13600|PHY93_13600 270 RRREIALAYEKGLEGLEIT---PLIEKNKEHGYHLYVIQTP-----RRKELYEYLKARNIFTQVHY-IPIHVQPYYKNRYGEQS-- 344
                              *****************64...3444444489*********.....789*****************.8***********98865.. PP

                              -HHHHHHHHHEEEEEGGTTGSHHHHHHHHHHHH CS
          DegT_DnrJ_EryC1 329 lpnaerlaervlsLplypelteedvdrVvealr 361
                              l +ae++++++lsLp+y++++++d++ V++++r
  PHY93_13600|PHY93_13600 345 LNVAESYYSQALSLPMYHSMSDDDLNFVINSIR 377
                              *****************************9985 PP

>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.5   0.0   4.3e-12   1.3e-08      47     153 ..      35     129 ..      11     165 .. 0.88

  Alignments for each domain:
  == domain 1  score: 34.5 bits;  conditional E-value: 4.3e-12
                              HHHHHHHHHHHCTCTTCHTTGGEGEEEESHHHHHHHHHHHHHHHTTT-EEEEEESS-THHHHHHHHTTSEEEEEEBEETTTTEE-H CS
            Aminotran_1_2  47 peleealakflgrseklklkreaavvvgsGagaliealifllklnpgdeilvpdptyasyknilrlsggevvryplyseedfhldl 132
                                +e++  +f+g         + av v++G+ al  a+++l  +  gd++l  + ++    n++r++gge+  + ++ +++f +d+
  PHY93_13600|PHY93_13600  35 ENFEKKFSQFVG--------CKYAVAVTNGTAALHLAAMALN-VGSGDKVLCTTNSFVASANCVRYCGGEIEFVDID-AKNFCIDI 110
                              579999999999........5559******************.9*******************************66.******** PP

                              HHHHHHHTTHHCTTETEEEEE CS
            Aminotran_1_2 133 ealeealkeapegnkktkvil 153
                              + le++l++ p++    k+i+
  PHY93_13600|PHY93_13600 111 DLLEKKLRSSPPKTY--KGIV 129
                              **********99988..6665 PP

>> Beta_elim_lyase  Beta-eliminating lyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.3   0.0   9.3e-08   0.00028      31     212 ..      31     207 ..      12     306 .. 0.71

  Alignments for each domain:
  == domain 1  score: 20.3 bits;  conditional E-value: 9.3e-08
                              -HHHHHHHHHHHHHTT-SEEEEES-HHHHHHHHHHHH-.-TTEEEEEETT-HHHHSSTTHHHHC.C--EEEEE-EBTTTBE-HHHH CS
          Beta_elim_lyase  31 dktvnrLedavaelfgkeaalfvpqGtaAnsillkill.qrgeevivtepahihfdetgaiael.agvklrdlknkeaGkmdlekl 114
                               + v+++e+++ + +g ++a+ v++GtaA +++ ++l   +g++v++t ++ +    +  +    ++++++d++ k+   +d++ l
  PHY93_13600|PHY93_13600  31 GPAVENFEKKFSQFVGCKYAVAVTNGTAALHLAAMALNvGSGDKVLCTTNSFVASANCVRY--CgGEIEFVDIDAKN-FCIDIDLL 113
                              5789999***************************999879********9987777666333..33778888999999.99999999 PP

                              HHHS--S-TTS-EEEEEEEESSBTTTTTB---HHHHHHHHHHHHHCT-EEEEEETTHHHHHHHHTS-CHHHH...TTSSEEEEESS CS
          Beta_elim_lyase 115 eaaikevgaheekiklisltvTnntagGqvvsleelrevaaiakkygiplhlDgARfanaakslgeivkemf...syvDsvtmslk 197
                              e++++       ++k     v++   +G +v  e    +++ia + g+ ++ D++  + a    +  +k+      y+D+ ++s+ 
  PHY93_13600|PHY93_13600 114 EKKLRSS-----PPKTYKGIVAVDF-AGYPVDFER---IQKIALEFGLWVIEDACHALGANFIDSKGIKQHSgngVYADIAVFSFH 190
                              9999993.....3333333344553.577776654...455677777777777777666663222333333323456666666654 PP

                              ..STT--SS-EEEEE-H CS
          Beta_elim_lyase 198 ..KdllanvGgvlafrd 212
                                K + +  Gg++ +++
  PHY93_13600|PHY93_13600 191 pvKHIATGEGGMVTTNN 207
                              33555555555555555 PP

>> Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.0   1.5e-07   0.00044      50     114 ..      30      95 ..      27     226 .. 0.74

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 1.5e-07
                              --HHHHHHHHHHHHHHT-SEEEEESSHHHHHHHHHHTT.S-TTEEEEEESTSSHHHHHHHHHTHHH CS
          Cys_Met_Meta_PP  50 gnptrsvleeriaaLeggeaalavssGmaAiaaailal.lkaGdeivvsddlYggtqrllkkvlkk 114
                              + p ++++e++ ++  g + a+av+ G+aA+++a +al + +Gd+++++++ +  + + ++++  +
  PHY93_13600|PHY93_13600  30 QGPAVENFEKKFSQFVGCKYAVAVTNGTAALHLAAMALnVGSGDKVLCTTNSFVASANCVRYCGGE 95 
                              67999***************************9999986788***********9999888776444 PP

>> SHMT  Serine hydroxymethyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   3.1e-05     0.093     144     209 ..      96     163 ..      34     212 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 3.1e-05
                              EEEE-B-TTTSSB-HHHHHHHHHHH--SE...EEEE.-SST-S---HHHHHHHHHHTT-EEEEE-GGGHH CS
                     SHMT 144 sveykvdketglidydelekkakefkPkl...ivaG.tsaysrlidyarlreiadevgayllvdmahiaG 209
                              +    +d ++  id+d lekk ++  Pk    iva  ++ y   +d++r+++ia e g +++ d  h  G
  PHY93_13600|PHY93_13600  96 IEFVDIDAKNFCIDIDLLEKKLRSSPPKTykgIVAVdFAGY--PVDFERIQKIALEFGLWVIEDACHALG 163
                              44557899999****************96443555414445..59**********************866 PP

>> SpoVAD  Stage V sporulation protein AD (SpoVAD)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.1   6.6e-05       0.2      68     140 ..      11      87 ..       4      92 .. 0.72

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 6.6e-05
                              --GGG-SE...EEEEESSGGGHHHHHHHHHH---EEEB--.GGGHHHHHHHHHHHHHHTTS-SEEEEEEEE-CCHHH CS
                   SpoVAD  68 lkkedidf...llaGDLlnqlisssfaarelkiPflglyg.aCstsaeslalaallvdggfakrvlaatsshfaaae 140
                              +++edi+    +l  D l q  + +   ++++    + y+ a ++ + +l laa++++ g +++vl++t s  a+a+
  PHY93_13600|PHY93_13600  11 VTQEDINAvveVLNSDFLTQGPAVENFEKKFSQFVGCKYAvAVTNGTAALHLAAMALNVGSGDKVLCTTNSFVASAN 87 
                              5566665511145778888887776666666655555676244455789**********************999885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (377 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       467  (0.0260472); expected 358.6 (0.02)
Passed bias filter:                      411  (0.0229238); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.64u 0.25s 00:00:00.89 Elapsed: 00:00:00.49
# Mc/sec: 2292.76
//
Query:       PHY93_05860|PHY93_05860  [L=244]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.5e-06   27.1   0.0    5.5e-06   26.4   0.0    1.5  1  SpoIIE    Stage II sporulation protein E (SpoIIE)
    0.00011   21.9   0.1       0.43   10.2   0.0    2.1  2  PP2C      Protein phosphatase 2C
    0.00021   21.0   0.0    0.00033   20.4   0.0    1.3  1  PP2C_2    Protein phosphatase 2C


Domain annotation for each model (and alignments):
>> SpoIIE  Stage II sporulation protein E (SpoIIE)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.4   0.0   9.3e-10   5.5e-06      93     144 ..     151     208 ..      32     236 .. 0.63

  Alignments for each domain:
  == domain 1  score: 26.4 bits;  conditional E-value: 9.3e-10
                              S....TEEEEE--SS--...TTTSSST-EEEEEEE--TTEEEEEESCCCCSSSHHHHHH CS
                   SpoIIE  93 g....gtklllastglp...lGilpeadyetaelelepgdtlllyTDGvtEardsdgel 144
                                   + ++    + +p   +G++++++y+++el++++gd+++l TDGv+ +   d+e+
  PHY93_05860|PHY93_05860 151 LrslsRDRFSSFLHTVPmsgVGLFEDLHYQVKELKIATGDIVILLTDGVYARL-LDNEI 208
                              255553333333334444569*****************************555.33333 PP

>> PP2C  Protein phosphatase 2C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.9   0.0   8.6e-05      0.51      35     131 ..      31     141 ..      12     157 .. 0.76
   2 !   10.2   0.0   7.3e-05      0.43     206     257 ..     190     238 ..     180     239 .. 0.93

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 8.6e-05
                              EEEEEEEEESSSHHHHHHHHHHHHHHHHHHHCHTTH..............HHHHHHHHHHHHHHHHHHHHHHHHC.HCCT-EEEEE CS
                     PP2C  35 sffavfdghggseaakyarehleeilksqksfeele..............kleqalrksfladtdeelksskant.epsksGstav 105
                              ++f v dg ggs + ++a+  +++ +k++  + + +               + +al+++  + + ++++++++++    + G   +
  PHY93_05860|PHY93_05860  31 NLFMVIDGFGGSNIGDKAAVMIRDTIKRSYTKISHDpdstlpfffshkylIEGNALINALHN-AHQNITRENESKsMNNRGGGSVL 115
                              68999999999999999999998777766666555566679999999999455566666666.33333333333324688888888 PP

                              EEEEETTEEEEEEESS-EEEEEETTE CS
                     PP2C 106 valirgtklyvAnvGDSravLcrkgn 131
                              +a + ++ l +  +G + a L rkg+
  PHY93_05860|PHY93_05860 116 SAAMAENVLTLVSTGNCGAYLYRKGH 141
                              99999999**************9986 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 7.3e-05
                              EEEEEE-HHHHTTSHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHCCHHCH CS
                     PP2C 206 efliLacdGlwdvlsdqeavdlvrdelekkkspeevaeelvdeaiargsedn 257
                              + +iL +dG++  l d e+   v+++le+    +e+ +el + a +rg+ dn
  PHY93_05860|PHY93_05860 190 DIVILLTDGVYARLLDNEIKYTVEKNLES---ESEIIKELFKLANDRGNLDN 238
                              579*************************8...8**************99988 PP

>> PP2C_2  Protein phosphatase 2C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.4   0.0   5.5e-08   0.00033      12     184 ..      20     218 ..      11     242 .. 0.71

  Alignments for each domain:
  == domain 1  score: 20.4 bits;  conditional E-value: 5.5e-08
                   PP2C_2  12 cqDalavwtdsggsllaVaDGaGSakrSerGariaveavvealaelleseeee............eeallraleaailadvlkeea 85 
                              ++D++  ++   + l++V+DG G  + ++++a ++ +++ + + ++  +++ +             +al++al++a +  +   ++
  PHY93_05860|PHY93_05860  20 NEDFVE-VDL-VNNLFMVIDGFGGSNIGDKAAVMIRDTIKRSYTKISHDPDSTlpfffshkylieGNALINALHNAHQNIT---RE 100
                              566665.222.23567***********************9999999988888889****9999988888888888888544...44 PP

                   PP2C_2  86 eaqdaelkdyatTllaavvtpdeivalqiGDGaivvrdrdgevqllgepds......geyanqttfltsedaeeel.....rirrl 160
                              +++++  +  +  +l a+ +++ + ++  G ++++++++ + ++    pds        +++  ++++++ ++  +     ++++l
  PHY93_05860|PHY93_05860 101 NESKSMNNRGGGSVLSAAMAENVLTLVSTGNCGAYLYRKGH-LSCEILPDSlrslsrDRFSSFLHTVPMSGVGL-FedlhyQVKEL 184
                              4455556666777888888999***********97765444.33333355444444466666677777775443.134566***** PP

                   PP2C_2 161 kledgdalllmTDGlanslrdee..........r 184
                              k   gd ++l TDG+ ++l d+e          +
  PHY93_05860|PHY93_05860 185 KIATGDIVILLTDGVYARLLDNEikytveknleS 218
                              *999************998777754444444433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (244 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       539  (0.030063); expected 358.6 (0.02)
Passed bias filter:                      432  (0.024095); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.27s 00:00:00.82 Elapsed: 00:00:00.47
# Mc/sec: 1564.99
//
Query:       PHY93_13605|PHY93_13605  [L=242]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    8.3e-24   84.7   0.1      1e-23   84.5   0.1    1.1  1  CTP_transf_3  Cytidylyltransferase
     0.0036   17.7   0.0     0.0051   17.2   0.0    1.2  1  NTP_transf_3  MobA-like NTP transferase domain
  ------ inclusion threshold ------
      0.018   15.6   0.5      0.039   14.5   0.4    1.6  2  LPD25         Large polyvalent protein associated domain 25
      0.069   13.8   0.0       0.15   12.8   0.0    1.6  1  DUF4387       Domain of unknown function (DUF4387)


Domain annotation for each model (and alignments):
>> CTP_transf_3  Cytidylyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   84.5   0.1   2.2e-27     1e-23       3     211 ..      10     210 ..       7     232 .. 0.84

  Alignments for each domain:
  == domain 1  score: 84.5 bits;  conditional E-value: 2.2e-27
                              EEEE-SSSSSSTTGGGSEETTEEHHHHHHHHHHHTTTTSEEEEEES-HHHHHHHHHTT..SEEEE--TTCSSHHHHHHHHHHHHTT CS
             CTP_transf_3   3 IipARsgSkRlpgKnlldlggkpliayvleaalkskafekvivaTDseeiknvakefg..asvlvtrsslesdterflevvkaflm 86 
                              I +AR+ S+Rlp K+l +l g +++++ l +++ s +   v+vaT+ ++ +n +++++   sv   r+s+ ++++rf+e   ++  
  PHY93_13605|PHY93_13605  10 ISQARTTSTRLPRKVLMKLDGITILEHHLNRLKWSNL--PVFVATTINKSDNEIVSLCekLSVPYHRGSEDDVLSRFYECAVKYNL 93 
                              559*******************************999..9********************************************** PP

                              T.TTSEEEEE-TT-TT--HHHHHHHHHHHHHSTTS.SEEEEEEET...TSHHHHTSTTSTEEEETTTSBEEEEESSESSEEHHHHH CS
             CTP_transf_3  87 seneeiivnlqGdnPllqeevikkaietlkenqed.ylstlvkkv...gkeeevlnandlkvllddagkalyfeesvipyireepl 168
                              +    +iv++++d Pl++  +i++ +++++  + + y+s++ + +   g   ev+++++l++++++a ++++ +e+v+p+ir+ + 
  PHY93_13605|PHY93_13605  94 D----VIVRVTSDCPLIDGNLIREGVDKYLATGFEtYVSNCIERTyprGFDFEVFSFKALEKAFKNA-NEKFEREHVTPFIRNSDK 174
                              *....*******************9988777665449999888762224456***************.***************999 PP

                              CTSTTTSEEEEEEEEEEHHHHHHHHHHSHHHHHSHHHHHT-TT CS
             CTP_transf_3 169 elsrrlylshagiytfrkeqplkelvidtptseilekiekleq 211
                              + +    +    i   r++  + ++ i+ +++++++ i++l +
  PHY93_13605|PHY93_13605 175 NEN----I--SIINLLRAK-NAGQFRITLDEEDDFKLIKMLIE 210
                              933....2..223444554.55667777777666777777633 PP

>> NTP_transf_3  MobA-like NTP transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.0   1.1e-06    0.0051      15     115 ..      22     122 ..      14     164 .. 0.77

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 1.1e-06
                              THHHHCCCCCCHHHHHHHHHCTT.-CEEEEEC....SHCHHHHHHTTCTS-EEE-TTSS-SHHHHHHHHHHHH.SSSCEEEEETT- CS
             NTP_transf_3  15 dKallplggkpllervldalraagvdevvvvg....gdeevlaalarlgvrvvededpgkgplaslaaalraaadadavlvlacDm 96 
                               K l++l+g ++le++l++l+ +++ +v+v++     d+e+ + +++l v++ + ++     l+ ++  + +  + d ++ ++ D+
  PHY93_13605|PHY93_13605  22 RKVLMKLDGITILEHHLNRLKWSNL-PVFVATtinkSDNEIVSLCEKLSVPYHRGSE--DDVLSRFYECAVKY-NLDVIVRVTSDC 103
                              699*****************99976.55555423214479999*******9999984..55555555555555.68********** PP

                              TT--HHHHHHHHHCHHHHT CS
             NTP_transf_3  97 Plltpelverllaaaaasg 115
                              Pl++ +l+++ ++++ a+g
  PHY93_13605|PHY93_13605 104 PLIDGNLIREGVDKYLATG 122
                              *******999887765555 PP

>> LPD25  Large polyvalent protein associated domain 25
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       1.8     8e+03      11      36 ..      42      68 ..      38      95 .. 0.54
   2 ?   14.5   0.4   8.8e-06     0.039      22      93 ..     142     233 ..     128     241 .. 0.83

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 1.8
                    LPD25 11 ewsespefeegellsf.aeanellekl 36
                              ws+ p f  +++ +   e  +l ekl
  PHY93_13605|PHY93_13605 42 KWSNLPVFVATTINKSdNEIVSLCEKL 68
                             566666664433322202334444444 PP

  == domain 2  score: 14.5 bits;  conditional E-value: 8.8e-06
                    LPD25  22 ellsfaeanellekldekqyke........rnepgy......lydktk..Ftitfdeggeed.nye..gRyDiGdge.gslidhle 87 
                              e  sf+ +++ +++++ek+++e        ++++++      l  k    F+it+de+++ +  ++  ++y++ d + +++i +le
  PHY93_13605|PHY93_13605 142 EVFSFKALEKAFKNANEKFEREhvtpfirnSDKNENisiinlLRAKNAgqFRITLDEEDDFKlIKMliENYHLADKKaEEIITFLE 227
                              6789***************999******7644444488888425555466************66669******************9 PP

                    LPD25  88 kyneyk 93 
                              ++ e +
  PHY93_13605|PHY93_13605 228 THPEVA 233
                              988765 PP

>> DUF4387  Domain of unknown function (DUF4387)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   3.3e-05      0.15       4      21 ..     180     197 ..     178     228 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 3.3e-05
                  DUF4387   4 lakviRsKnaGpfeitlD 21 
                              + +++R KnaG f+itlD
  PHY93_13605|PHY93_13605 180 IINLLRAKNAGQFRITLD 197
                              67899************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (242 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       713  (0.039768); expected 358.6 (0.02)
Passed bias filter:                      483  (0.0269396); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.52u 0.26s 00:00:00.78 Elapsed: 00:00:00.46
# Mc/sec: 1579.93
//
Query:       PHY93_13610|PHY93_13610  [L=363]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      0.001   19.0   0.0     0.0021   18.1   0.0    1.5  1  Glyco_tran_28_C  Glycosyltransferase family 28 C-terminal dom
  ------ inclusion threshold ------
      0.082   12.0   0.0       0.14   11.2   0.0    1.4  1  DUF354           Protein of unknown function (DUF354)


Domain annotation for each model (and alignments):
>> Glyco_tran_28_C  Glycosyltransferase family 28 C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.0   2.3e-07    0.0021      32     120 ..     223     307 ..     174     321 .. 0.65

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 2.3e-07
                              HCHHHCCT-E.EC---STT-TTTTCEEEEEESSSSHHHHHHHH-EEEECS-CHHHHHHHHTT--EEEE--TT....S-HHHHHHHH CS
          Glyco_tran_28_C  32 lqvlhqtGkr.eleevkikveeltlkvevfefidkmaeaikaadLvIsRAGagtiaEllalgkplIlvplpeaaenhqdnNakele 116
                              ++++ +  ++  + ++ ++ +    k++ ++f+++  +++ + dL I+ +G+ t +E + lg+ + lv   e     q+ N  el 
  PHY93_13610|PHY93_13610 223 YNFTFILNSQhADFKLLSEIKINHSKIKLISFVENFGKLMGDTDLFIGAGGT-TSWERACLGVASALVAVAE----NQMGNCLELK 303
                              3333333333222333333222236899********************6665.66**************999....8999999998 PP

                              HHHH CS
          Glyco_tran_28_C 117 kaga 120
                              k + 
  PHY93_13610|PHY93_13610 304 KTNN 307
                              8765 PP

>> DUF354  Protein of unknown function (DUF354)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   1.6e-05      0.14     249     274 ..     260     285 ..     214     297 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 1.6e-05
                   DUF354 249 sllkrsdlviGaGGtmnreaallGip 274
                               l+  +dl iGaGGt   e a lG+ 
  PHY93_13610|PHY93_13610 260 KLMGDTDLFIGAGGTTSWERACLGVA 285
                              48999*******************86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (363 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       516  (0.0287802); expected 358.6 (0.02)
Passed bias filter:                      392  (0.021864); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.55u 0.25s 00:00:00.80 Elapsed: 00:00:00.45
# Mc/sec: 2427.03
//
Query:       PHY93_13615|PHY93_13615  [L=143]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      2e-15   57.7   0.0    2.5e-15   57.3   0.0    1.1  1  Acetyltransf_3  Acetyltransferase (GNAT) domain
    9.3e-10   38.8   0.0    1.1e-09   38.5   0.0    1.1  1  Acetyltransf_1  Acetyltransferase (GNAT) family
    1.7e-06   28.3   0.0      2e-06   28.0   0.0    1.0  1  Acetyltransf_4  Acetyltransferase (GNAT) domain
     0.0002   21.0   0.0    0.00042   20.0   0.0    1.6  1  Acetyltransf_8  Acetyltransferase (GNAT) domain
     0.0023   18.3   0.0     0.0033   17.8   0.0    1.4  1  Acetyltransf_7  Acetyltransferase (GNAT) domain
  ------ inclusion threshold ------
       0.12   12.4   0.0       0.19   11.7   0.0    1.3  1  FR47            FR47-like protein


Domain annotation for each model (and alignments):
>> Acetyltransf_3  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.3   0.0   8.5e-19   2.5e-15       2     137 ..       2     134 ..       2     135 .. 0.86

  Alignments for each domain:
  == domain 1  score: 57.3 bits;  conditional E-value: 8.5e-19
           Acetyltransf_3   2 LlLrplteeDlealfelrsdpevmry..lpepltleeaeewlerawaeeseeeg..ygwaivlkdtgviGsvglrdleeedeeael 83 
                              L +r++ eeD e + e+r+dp+v +y   p+p ++e+ e+w+ +++ +    +   +   i   d++  G+v++  l++++e ae+
  PHY93_13615|PHY93_13615   2 LEIRKVLEEDKEIIIEWRNDPRVYKYalNPNPVSVENHEKWFGKVLSS----NTcfFYMGI--YDGKKCGTVRYDLLDNNHE-AEV 80 
                              78999*99**66669***********98888************88654....342233444..455469**********998.*** PP

           Acetyltransf_3  84 gymlapsfwgkGyateavralleyafeelglerlvavidkeNeaSirvleklGf 137
                              ++ lap+fwgkG+a   ++     +  + +++ + a++  eN+aS  ++ k  f
  PHY93_13615|PHY93_13615  81 SISLAPDFWGKGLAFLLMNLGEAKLKLDSQVKVIHATVLNENTASMSLFVKSDF 134
                              **************9999998888888889*******************99988 PP

>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.5   0.0   3.7e-13   1.1e-09      18     115 ..      36     132 ..       8     134 .. 0.79

  Alignments for each domain:
  == domain 1  score: 38.5 bits;  conditional E-value: 3.7e-13
                              HHHHHHHHHH....HHSTTCEEEEEEETTEEEEEEEEEEEETTSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHT.TESEEE CS
           Acetyltransf_1  18 daseeefees....fsleaegllvaeedgeliGfisllkipdekggvayieslaVspeyrgkGlGsaLlealeeraree.gikkiv 98 
                               + +e    +    +s ++++++++ +dg+  G++++   ++   ++ +  s+  +p+++gkGl+ +L++  e +++   ++k i 
  PHY93_13615|PHY93_13615  36 VENHEK---WfgkvLSSNTCFFYMGIYDGKKCGTVRYDLLDN---NHEAEVSISLAPDFWGKGLAFLLMNLGEAKLKLDsQVKVIH 115
                              233333...224447778999999******************...555555**********************988888788999* PP

                              EEEETTEHHHHHHHHHT CS
           Acetyltransf_1  99 laveedndaairlYekl 115
                              ++v + n+a++ l+ k 
  PHY93_13615|PHY93_13615 116 ATVLNENTASMSLFVKS 132
                              ************99775 PP

>> Acetyltransf_4  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.0   0.0   6.6e-10     2e-06       1     131 [.       4     131 ..       4     136 .. 0.90

  Alignments for each domain:
  == domain 1  score: 28.0 bits;  conditional E-value: 6.6e-10
           Acetyltransf_4   1 iraateeDakeilaiyaey.vvntaitfeyevssveefekfleal.dsekeyvflvaesdrivGyaylgqfkkrakdwkaelsvyl 84 
                              ir + eeD + i ++++++ v ++a++++    sve  ek+  ++  s  +++++ +++++  G+ ++  ++    +++ae+s+ l
  PHY93_13615|PHY93_13615   4 IRKVLEEDKEIIIEWRNDPrVYKYALNPN--PVSVENHEKWFGKVlSSNTCFFYMGIYDGKKCGTVRYDLLDN---NHEAEVSISL 84 
                              89999***********9993445588887..5999999999999977889*******************9988...********** PP

           Acetyltransf_4  85 aerdnnkeglgrelidaleqvl.keqnienllaeiaspnensiqfhka 131
                              a  d   +gl+  l+++ e  l     ++ + a +  +n++s+ ++ +
  PHY93_13615|PHY93_13615  85 A-PDFWGKGLAFLLMNLGEAKLkLDSQVKVIHATVLNENTASMSLFVK 131
                              9.79999****99******99989****************99998755 PP

>> Acetyltransf_8  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.0   0.0   1.4e-07   0.00042       2      60 ..       8      68 ..       7     138 .. 0.85

  Alignments for each domain:
  == domain 1  score: 20.0 bits;  conditional E-value: 1.4e-07
                             .GGGHHHHHHHCTSCCCHHHH-----H..HHHHHHHHHHC.STTEEEEEEEETTEEEEEEE CS
           Acetyltransf_8  2 peaDlellhrWmnrprvaewweeagtl..eevrellakldadphsepliglldgepvgyfe 60
                             +e+D e++ +W n+prv ++  +  ++  e ++++  k+ ++++ + ++g +dg+ +g + 
  PHY93_13615|PHY93_13615  8 LEEDKEIIIEWRNDPRVYKYALNPNPVsvENHEKWFGKVLSSNTCFFYMGIYDGKKCGTVR 68
                             589****************998888655599999999999****************99874 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.0   1.1e-06    0.0033       9      54 ..      58     112 ..      37     136 .. 0.67

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 1.1e-06
                              EETTEEEEEEEEEEES.TCTEE..EEE-GGGTTSSHHHHHHHH...TT...SEEE CS
           Acetyltransf_7   9 eddgkivGfialslld.aeitr..laVdpeyrgkGiGraLlea...ae...kgii 54 
                                dgk +G++++ lld  ++ +  +  +p++ gkG++  L+++   +    ++++
  PHY93_13615|PHY93_13615  58 IYDGKKCGTVRYDLLDnNHEAEvsISLAPDFWGKGLAFLLMNLgeaKLkldSQVK 112
                              4579999***999999733333679*****************7433113332222 PP

>> FR47  FR47-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   6.4e-05      0.19       2      78 ..      56     135 ..      55     141 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 6.4e-05
                              EEEEET.TT--EEEEEEE-TTSSEEEEEE-GGG-SSSHHHHHHHHHHHHHHH..S-S-EEEEEETT-HHHHHHHHHHT-E CS
                     FR47   2 lGlyrk.elgelaawilrkdggelgalqvlpehrrrGlgsrlvkalakeiae..rgktvllvvvasNtpsirlyeklGfe 78 
                              +G+y++ + g +   +l ++  +  ++ + p++ ++Gl+ +l +   +++    + k + + v  +Nt+s +l+ k  f 
  PHY93_13615|PHY93_13615  56 MGIYDGkKCGTVRYDLLDNNHEAEVSISLAPDFWGKGLAFLLMNLGEAKLKLdsQVKVIHATVLNENTASMSLFVKSDFH 135
                              6888877777777788888887777899**************98666665543277778889999*********997776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (143 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       372  (0.0207485); expected 358.6 (0.02)
Passed bias filter:                      321  (0.017904); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.48u 0.26s 00:00:00.74 Elapsed: 00:00:00.46
# Mc/sec: 934.99
//
Query:       PHY93_13620|PHY93_13620  [L=349]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.6e-92  307.1   0.0    9.1e-92  306.9   0.0    1.1  1  NeuB      NeuB family
    4.8e-12   46.3   0.0    9.4e-12   45.4   0.0    1.5  1  SAF       SAF domain
  ------ inclusion threshold ------
      0.011   15.9   0.0      0.019   15.1   0.0    1.3  1  AAA_33    AAA domain
      0.075   13.1   0.0       0.17   11.9   0.0    1.6  2  Sad1_UNC  Sad1 / UNC-like C-terminal
       0.17   11.5   0.1        3.9    7.0   0.0    2.7  3  DeoC      DeoC/LacD family aldolase


Domain annotation for each model (and alignments):
>> NeuB  NeuB family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  306.9   0.0   2.5e-95   9.1e-92       1     239 [.      37     277 ..      37     279 .. 0.98

  Alignments for each domain:
  == domain 1  score: 306.9 bits;  conditional E-value: 2.5e-95
                              HHHHHHHHT-SEEEEEE--HHHH--GGGGG--........TT-S-HHHHHHHH---HHHHHHHHHHHHHTT-EEEEEE-SHHHHHH CS
                     NeuB   1 lieaAaeagadavKfQtfkaeelvskeakkaeyqkkek..ekeesqlellkklelseeehkelkeyceekgieflstpfdlesvdl 84 
                              +++aAa++ga+a K+Qt+++++++ + a+k+ + ++++  +k++s+++l+ ++ +++e+hk +ke+ce++g+ f+stpfd ++vd+
  PHY93_13620|PHY93_13620  37 IVDAAAASGAHALKIQTYTPDTMTLNIAEKEFFISDSNslWKGKSLYDLYAEAMTPWEWHKPIKERCEKHGMLFFSTPFDFTAVDF 122
                              69************************99888887777689********************************************** PP

                              HHHHT-S-EEE-GGGTT-HHHHHHHHTT-S-EEEE-TT--HHHHHHHHHHH.HHHT--EEEEE----SS--GGG--THHHHHHHHH CS
                     NeuB  85 leslgveayKiaSgeltnlpllekiaktgkpvilStGmatleeieeavevlreagaeklvllhCtseYPapledvnLkaietlkea 170
                              le+l+v++yKiaS+e t+lpl++k+aktgkp+i+StGma+ ee++e ve++++ag+++l+ll+Cts+YPa+ +++nL +i++++e 
  PHY93_13620|PHY93_13620 123 LEELNVDFYKIASFENTDLPLIRKVAKTGKPLIISTGMASKEELAEMVEAANNAGCKDLILLKCTSAYPASPKEANLLTIPNIREL 208
                              ************************************************************************************** PP

                              -TSEEEEE--SSSSHHHHHHHHHT--EEEEEB-S-TT--STTGGG-B-HHHHHHHHHHHHHHHHHSS-- CS
                     NeuB 171 fgvpvGySDHtlgiavaiaAvalGAkviEkHftldrnlegpDhkaSlepeelkelveairnvekalgeg 239
                              f+v+vG+SDHt+g+ vaia+valGA+viEkHftldr+  g D+++S+ep+e+k lve+ ++++k+lg+ 
  PHY93_13620|PHY93_13620 209 FEVEVGLSDHTMGVGVAIASVALGASVIEKHFTLDRSEGGVDSAFSMEPAEFKLLVEESKKAWKSLGKI 277
                              *******************************************************************86 PP

>> SAF  SAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.4   0.0   2.6e-15   9.4e-12       2      62 ..     293     349 .]     292     349 .] 0.97

  Alignments for each domain:
  == domain 1  score: 45.4 bits;  conditional E-value: 2.6e-15
                              EEEEESSTB-TT-BEBTTTEEEECECGGCCTSCCCGGHHHHTTEEESS-B-TT-B-BGGGE CS
                      SAF   2 nVvvAardikaGeviteddltlkrpiashkigllpiaygeviGkratrdikaGepvhahnl 62 
                              ++++ a+d kaGev+te++ +++rp+     gl+p++y+ ++G++++rd+k+G+pv+++++
  PHY93_13620|PHY93_13620 293 RSLYIAEDMKAGEVLTEKNPRAIRPG----LGLPPKHYEKLLGSKVARDLKKGTPVSWDDI 349
                              7899*********************8....*****************************97 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.1   0.0   5.3e-06     0.019      61     107 ..     142     188 ..     123     190 .. 0.89

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 5.3e-06
                   AAA_33  61 elarkalsagrnvildatnlsrrerarflklarrlgvpvrivvvetd 107
                               l+rk+++ g+++i+  +++s++e a+++++a+++g++++i+   t+
  PHY93_13620|PHY93_13620 142 PLIRKVAKTGKPLIISTGMASKEELAEMVEAANNAGCKDLILLKCTS 188
                              799***********************************999876665 PP

>> Sad1_UNC  Sad1 / UNC-like C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.9   0.0       3.7   1.3e+04      31      53 ..     118     140 ..     116     150 .. 0.75
   2 ?   11.9   0.0   4.8e-05      0.17      32      91 ..     228     286 ..     223     301 .. 0.84

  Alignments for each domain:
  == domain 1  score: -3.9 bits;  conditional E-value: 3.7
                              EEEEEEEEEEEEEEEEE---GGG CS
                 Sad1_UNC  31 vvieLseeiiveavtlehveksv 53 
                              +++++ ee  v+ ++++++e + 
  PHY93_13620|PHY93_13620 118 TAVDFLEELNVDFYKIASFENTD 140
                              67888888888889998888765 PP

  == domain 2  score: 11.9 bits;  conditional E-value: 4.8e-05
                              EEEEEEEEEEEEEEEE---GGGSG.-TTSB-EEEEEEESSTT----EEEEEEE--TTS-SE CS
                 Sad1_UNC  32 vieLseeiiveavtlehveksvap.isSapKdfevsgskrypekkwvllgefsydedgkna 91 
                               + L   +i + +tl+  e  v   +s  p +f++++ ++++   w+ lg++sy++ + + 
  PHY93_13620|PHY93_13620 228 SVALGASVIEKHFTLDRSEGGVDSaFSMEPAEFKLLVEESKK--AWKSLGKISYERSEAEK 286
                              6899999*************88888**********9977665..58********9887665 PP

>> DeoC  DeoC/LacD family aldolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.0      0.11   3.8e+02      82     103 ..      34      55 ..       7      66 .. 0.73
   2 ?   -1.0   0.0      0.31   1.1e+03     121     133 ..      99     111 ..      96     113 .. 0.89
   3 ?    7.0   0.0    0.0011       3.9     162     222 ..     125     177 ..     118     185 .. 0.81

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.11
                              TTCHHHHHHHTT-SEEEEEEEE CS
                     DeoC  82 evasveeakalGAdavkvvvyy 103
                               +a v +a a GA a+k+  y+
  PHY93_13620|PHY93_13620  34 AFAIVDAAAASGAHALKIQTYT 55 
                              5678999999999999999887 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.31
                              HHHHHHHHTEEEE CS
                     DeoC 121 vkeacheeglpli 133
                              +ke+c+++g++++
  PHY93_13620|PHY93_13620  99 IKERCEKHGMLFF 111
                              89********986 PP

  == domain 3  score: 7.0 bits;  conditional E-value: 0.0011
                              CCT-SEEEE--SSCC.B.HHHHHHHHHHHHHCHSSTEEEEETTS.SHHHHHHHHHHHHHHHT CS
                     DeoC 162 elGaDiiKvevpkevvnateedaevfkdvikaapvpgvvlsGGv.seedfletvedAvkeag 222
                              el++D++K          +++d   +++v+k +  p +++s G+ s+e+++e+ve A  +ag
  PHY93_13620|PHY93_13620 125 ELNVDFYKIASF------ENTDLPLIRKVAK-TGKP-LIISTGMaSKEELAEMVEAAN-NAG 177
                              677788877666......6688888888888.7788.9*****************998.666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (349 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       382  (0.0213063); expected 358.6 (0.02)
Passed bias filter:                      364  (0.0203023); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.47
# Mc/sec: 2245.82
//
Query:       PHY93_13625|PHY93_13625  [L=333]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   1.1e-102  342.7   0.1   1.3e-102  342.4   0.1    1.1  1  NeuB      NeuB family
    1.8e-08   34.9   0.1    4.1e-08   33.7   0.1    1.7  1  SAF       SAF domain


Domain annotation for each model (and alignments):
>> NeuB  NeuB family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  342.4   0.1  1.4e-106  1.3e-102       1     236 [.      26     261 ..      26     267 .. 0.98

  Alignments for each domain:
  == domain 1  score: 342.4 bits;  conditional E-value: 1.4e-106
                              HHHHHHHHT-SEEEEEE--HHHH--GGGGG--......TT-S-HHHHHHHH---HHHHHHHHHHHHHTT-EEEEEE-SHHHHHHHH CS
                     NeuB   1 lieaAaeagadavKfQtfkaeelvskeakkaeyqkkekekeesqlellkklelseeehkelkeyceekgieflstpfdlesvdlle 86 
                              l+++Aa+agadavKfQtfkae +vsk a ka+yqk++++++esq+e++kklelsee+h el +yce+k+i+flstpfd  svd+le
  PHY93_13625|PHY93_13625  26 LVDVAADAGADAVKFQTFKAEMVVSKFAAKADYQKSKTGDHESQFEMIKKLELSEEAHLELVNYCEKKKIMFLSTPFDIPSVDFLE 111
                              79************************************************************************************ PP

                              HHT-S-EEE-GGGTT-HHHHHHHHTT-S-EEEE-TT--HHHHHHHHHHH.HHHT--EEEEE----SS--GGG--THHHHHHHHH-T CS
                     NeuB  87 slgveayKiaSgeltnlpllekiaktgkpvilStGmatleeieeavevlreagaeklvllhCtseYPapledvnLkaietlkeafg 172
                               lg++++Ki+Sge+tnlp+l+ki + g+++ilStGm+ l+eie+a+++lr++ga+++++lhC++eYP+p+edvnLka+ t+ +af+
  PHY93_13625|PHY93_13625 112 GLGMKIFKIPSGEITNLPYLRKIGRLGHKIILSTGMSILGEIETALNILRAEGAKDITVLHCNTEYPTPMEDVNLKAMLTIGKAFN 197
                              ************************************************************************************** PP

                              SEEEEE--SSSSHHHHHHHHHT--EEEEEB-S-TT--STTGGG-B-HHHHHHHHHHHHHHHHHS CS
                     NeuB 173 vpvGySDHtlgiavaiaAvalGAkviEkHftldrnlegpDhkaSlepeelkelveairnvekal 236
                              +pvGySDHt+gi+v++a+valG  ++EkHftldr+++gpDh+aS+ep+elke+v+ irn+eka+
  PHY93_13625|PHY93_13625 198 IPVGYSDHTKGIEVSLATVALGGVIVEKHFTLDRKMKGPDHEASVEPDELKEMVRMIRNIEKAI 261
                              *************************************************************997 PP

>> SAF  SAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.7   0.1   4.6e-12   4.1e-08       2      57 ..     282     333 .]     281     333 .] 0.94

  Alignments for each domain:
  == domain 1  score: 33.7 bits;  conditional E-value: 4.6e-12
                              EEEEESSTB-TT-BEBTTTEEEECECGGCCTSCCCGGHHHHTTEEESS-B-TT-B- CS
                      SAF   2 nVvvAardikaGeviteddltlkrpiashkigllpiaygeviGkratrdikaGepv 57 
                              +++vA++ ikaGev++ +++t+krp+     g+ p ++++viG+ at++ +++e++
  PHY93_13625|PHY93_13625 282 RSIVALQEIKAGEVLSVKNITVKRPG----TGISPMEWDRVIGRNATKNYEPDELI 333
                              799**********************8....******************98888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (333 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       692  (0.0385967); expected 358.6 (0.02)
Passed bias filter:                      532  (0.0296726); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.60u 0.23s 00:00:00.83 Elapsed: 00:00:00.46
# Mc/sec: 2182.58
//
Query:       PHY93_13630|PHY93_13630  [L=228]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.9e-57  192.3   0.2    1.1e-56  192.2   0.2    1.0  1  WbqC      WbqC-like protein family


Domain annotation for each model (and alignments):
>> WbqC  WbqC-like protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  192.2   0.2   6.2e-61   1.1e-56       1     217 [.       7     224 ..       7     225 .. 0.94

  Alignments for each domain:
  == domain 1  score: 192.2 bits;  conditional E-value: 6.2e-61
                     WbqC   1 QPyylPwlgyfqliaaaDkfvllDdvqfikrgwinRnriltpngeqw.ltvPvekkasqqklineveidddekwrkkhlksleqaY 85 
                              QP y+Pwlg +++i+++++++++D+v  ++  +++Rn  l+++g+ + lt+P +kk++ q++ +++ei  ++ w+ khl+ ++++Y
  PHY93_13630|PHY93_13630   7 QPSYFPWLGLLDKIKNSEVYMIMDEVSLTDSAFQHRNLFLSADGKSKyLTIPFTKKNYLQRPFKDLEIT-EKTWQIKHLNFIQNSY 91 
                              9*********************************************99********************8.679************* PP

                     WbqC  86 kkapffeevlpllesvyeaeeenlaelniallealakyLgieteivlssel..klegkklerlldickklgadtylsgpggkeyld 169
                              kk p+++ev++ +e +++++++ la++ +++++a  +++gi+t+iv +s++  +  +kk +++l++ +++gad+ylsg+g+++yld
  PHY93_13630|PHY93_13630  92 KKHPHYKEVMERVEFIFHKDYNLLADVVVDSMKASIELFGIDTKIVYQSQMeyDRGAKKGDLVLELLRAVGADSYLSGTGAQAYLD 177
                              *************************************************99523333556************************** PP

                     WbqC 170 eekFeengiklefqeyekhpeYpQl.kgeFvpglSilDlLmnngpeavr 217
                              e++F  +gi+l++  ++ hp Y+Q   +eFv+gl  lD+L+n gp+++r
  PHY93_13630|PHY93_13630 178 ESEFG-HGIELRYNIFK-HPVYSQKnSTEFVSGLACLDILFNLGPADAR 224
                              ****7.69********9.9*****62566***************99876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (228 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       441  (0.024597); expected 358.6 (0.02)
Passed bias filter:                      300  (0.0167327); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.43
# Mc/sec: 1577.74
//
Query:       PHY93_13635|PHY93_13635  [L=384]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.4e-72  243.7   0.0    2.8e-72  243.5   0.0    1.0  1  Epimerase_2  UDP-N-acetylglucosamine 2-epimerase


Domain annotation for each model (and alignments):
>> Epimerase_2  UDP-N-acetylglucosamine 2-epimerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  243.5   0.0   1.5e-76   2.8e-72       3     347 .]      24     368 ..      22     368 .. 0.95

  Alignments for each domain:
  == domain 1  score: 243.5 bits;  conditional E-value: 1.5e-76
                              HTTS-..EEEEEEE-S--SGGGTHHHHH....HTT-.---SEEE---S.--HHHHHHHHHHHHHHHHHHH--SEEEEESSSHHHHH CS
              Epimerase_2   3 lkaeselelqlvvtGqHldremgdtvfe....elei.ekpdydlnsds.qslakstgrvligleevleeekpDlvlvlGDtnetla 82 
                              l++++e++ ql+v+G Hl+r++g+tv+     +++i ++++ +++sds +s  k+ + +l++  +v+++ +pDl+l+ GD+  +l+
  PHY93_13635|PHY93_13635  24 LNQDPEINFQLLVAGAHLSRNYGHTVDLikkdGFSIlAEIENLIDSDStKSRLKTASILLQNSIDVVDNFSPDLILYAGDREDVLI 109
                              7899**********************988899*************999999999999***************************** PP

                              HHHHHHHTT-EEEEET-----S-TT..SHHHHHHHHHHHT-SEEEESSHHHHHHHHHTT--GGGEEE---HHHHHHHHHHHHHH.. CS
              Epimerase_2  83 galaAfklripvaHveAGlRsfdltegmpeEinRhlidklsdlhfapteearenLlkegeeeerifvvGntviDalllskeeieek 168
                              g +  ++l+ip +H+ +G   ++++ g  + ++Rh+++kls+ h+++ ee+r++L+k+ge+++r+fv+G++++D++ ++k+   e+
  PHY93_13635|PHY93_13635 110 GGMLSTYLQIPSIHFFGG--DHEKD-GHADTVVRHATSKLSTAHIVSIEEHRKRLIKMGEAASRVFVTGSIALDKFIQHKPLNWEE 192
                              ******************..55555.8*************************************************8888887777 PP

                              .T-HHHHHH--SS-EEEEE---HHHHTSHHHHHHHHHHHHHHHHHH--EEEEE--..HHHHHHHHHHHHH-T...TEEEE----HH CS
              Epimerase_2 169 lkaseilkelkekkyvlvtlHrrenedeperlkeilealkalakekdvevvvpvhnnprtrkrlleeleele...nvtlieplgyl 251
                              l + ++ +  + k+y+lv++H++  e+   + + + ++l++l+++ +++ +v+++n++ ++ +++e+++e+e   n+ ++++l+  
  PHY93_13635|PHY93_13635 193 L-KLNFPTAKNLKDYALVIYHPVDDEK-LVADQYFQNILEELKSR-NIPAIVSYPNTDPGNFKIIEKIKEYEsdsNFWFYKNLNRD 275
                              7.4455444689***************.66999***********8.*************************5599*********** PP

                              HHHHHHHC-SEEEES-H.HHHHHHHHCT--EEESSSS-S-THHHHTTSEEE.-TT-HHHHHHHHHHHCT-..--......--TT-S CS
              Epimerase_2 252 dflsllknaklvltdSg.GiqeEapslgvpvvnlReeteRpegveagtnvl.vgtdkeeIvaaleklledkkelekmanaknpYgd 335
                               fls+ k +k+++++S+ Gi  Ea+s+ + ++n+   + R++g+ ag+nv+ +++d+++I +a+++ l+  + lek++n +n+Ygd
  PHY93_13635|PHY93_13635 276 LFLSVFKMSKFIIGNSSaGIM-EAASIPISAINV---GLRQRGRLAGANVIfCDSDRKSISDAINESLTP-SFLEKVKNLSNIYGD 356
                              *********************.************...*******************************55.9999*********** PP

                              S-HHHHHHHHHH CS
              Epimerase_2 336 Gkaseriveile 347
                              Gk++e+  +i++
  PHY93_13635|PHY93_13635 357 GKSCEKAYQIIK 368
                              *******99986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (384 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       578  (0.0322383); expected 358.6 (0.02)
Passed bias filter:                      463  (0.0258241); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.28s 00:00:00.84 Elapsed: 00:00:00.46
# Mc/sec: 2535.64
//
Query:       PHY93_13640|PHY93_13640  [L=221]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      6e-19   69.0   0.0    7.8e-19   68.6   0.0    1.1  1  PIG-L     GlcNAc-PI de-N-acetylase


Domain annotation for each model (and alignments):
>> PIG-L  GlcNAc-PI de-N-acetylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.6   0.0   4.4e-23   7.8e-19       1     128 [.       6     125 ..       6     128 .. 0.91

  Alignments for each domain:
  == domain 1  score: 68.6 bits;  conditional E-value: 4.4e-23
                              EEEESSTTHHHHHHHHHHHHHHHTT-EEEEEECE--TT---STTTTHH-HHHHHHHHHHHHHHHHCTE..EEEEECCCBTT-STTS CS
                    PIG-L   1 llvlAHpDDellfaggtiaklvaagvevkivcltaGdagsplatleekeelaeiRekEaraaakhlgvadedvffldfpDgslesy 86 
                              l+++ HpDDe+l+aggt++k++++g +++ +++t+  +++        ++  e R+ E  a+ak +g   ++v  l++p + l++ 
  PHY93_13640|PHY93_13640   6 LVIAVHPDDETLGAGGTLLKHKENGDRIHWLIITSMTEEKGYS-----QKQIEKRNFEITAVAKDYGF--SSVSELKLPTTCLDEL 84 
                              78999******************************54442222.....267888**************..**************** PP

                              -CHHHHHHHHHHHHHH--SEEEEE-TTTTH-HHHHHHHHHHH CS
                    PIG-L  87 dedellddlaklieryrPdvvltldpegddhpDHtavasaav 128
                              + ++++d + k++++++P++v+ + +++  h DH+ +  a+ 
  PHY93_13640|PHY93_13640  85 SDSTIIDYISKVFKEIKPHTVYLPFYNDV-HSDHRKTFDAVF 125
                              *****************************.*****9988875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (221 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       395  (0.0220313); expected 358.6 (0.02)
Passed bias filter:                      342  (0.0190752); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.25s 00:00:00.75 Elapsed: 00:00:00.45
# Mc/sec: 1483.11
//
Query:       PHY93_13645|PHY93_13645  [L=335]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.8e-57  193.9   0.0    3.5e-57  193.6   0.0    1.2  1  Epimerase        NAD dependent epimerase/dehydratase family
    2.8e-56  191.3   0.0    3.4e-56  191.1   0.0    1.1  1  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
    4.8e-20   71.7   0.0    6.1e-20   71.4   0.0    1.1  1  3Beta_HSD        3-beta hydroxysteroid dehydrogenase/isomeras
    5.7e-19   68.3   0.0    7.2e-19   68.0   0.0    1.1  1  RmlD_sub_bind    RmlD substrate binding domain
    7.1e-15   54.9   0.0    5.7e-14   51.9   0.0    2.0  1  Polysacc_synt_2  Polysaccharide biosynthesis protein
    2.5e-06   27.5   0.0    5.2e-06   26.5   0.0    1.5  1  NAD_binding_10   NAD(P)H-binding
    3.3e-06   26.5   0.1     0.0079   15.4   0.0    2.3  2  NAD_binding_4    Male sterility protein
    8.3e-06   25.4   0.5    1.3e-05   24.7   0.0    1.5  2  adh_short        short chain dehydrogenase
    3.9e-05   23.6   0.0    0.00014   21.8   0.0    1.8  1  KR               KR domain
  ------ inclusion threshold ------
      0.038   13.6   0.0      0.069   12.7   0.0    1.5  1  adh_short_C2     Enoyl-(Acyl carrier protein) reductase
      0.056   13.0   0.0       0.14   11.7   0.0    1.7  2  UDPG_MGDP_dh_N   UDP-glucose/GDP-mannose dehydrogenase family
      0.061   12.9   0.0      0.099   12.2   0.0    1.5  1  NmrA             NmrA-like family
       0.15   12.1   0.1       0.26   11.4   0.1    1.4  1  Ldh_1_N          lactate/malate dehydrogenase, NAD binding do


Domain annotation for each model (and alignments):
>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  193.6   0.0   2.6e-60   3.5e-57       1     236 [.       3     239 ..       3     262 .. 0.94

  Alignments for each domain:
  == domain 1  score: 193.6 bits;  conditional E-value: 2.6e-60
                              EEEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHC..........EEEE--TT-HHHHHHHHHHHT-SEEEE--S--- CS
                Epimerase   1 ilVtGatGfiGsalvkallekgyevigldrlssasntarledl..........elveldltdrsalerlfkeeqpdavihlAavgg 76 
                              ilVtGa+GfiG +++k+lle g+ev+gld+l++    ++++d           ++ ++d+ d++++e+lf +e+++ v++lAa+ g
  PHY93_13645|PHY93_13645   3 ILVTGAAGFIGMHVAKQLLELGHEVVGLDNLNNYYDVQLKQDRlnqlivlpgfRFLKMDIADQKEMENLFVSEKFQRVVNLAAQPG 88 
                              8**********************************999999999****************************************** PP

                              HHHHHHSHHHHHHHHTHHHHHHHHHHHHHTCTEEEEEEEGGGGTSCSSSSBSTCSTTS--.--SSHHHHHHHHHHHHHHHHHHHHT CS
                Epimerase  77 vaassedpadfieknlqgtlnlleaarkagvkrllflsSsevYGkdaeqpkeettltgpl.kpnspYaaaKlageklveayaaqyg 161
                              v+ s+++p ++i++n++g +n+le +r ++v+ l+++sSs+vYG+++++p +      ++ +p s Yaa+K   e +++ y + yg
  PHY93_13645|PHY93_13645  89 VRYSIQNPHAYINSNIVGFMNILEGCRHNNVEHLVYASSSSVYGANTKMPFSVHD---NVdHPISLYAATKKSNELMAHTYSHLYG 171
                              ************************************************9966666...666************************* PP

                              -EEEEEEESEEESTTS-TTSTTSHHHHHHHHHHTTSSSEEEETTST-EEEEEEHHHHHHHHHHHHHHHTT-STTE CS
                Epimerase 162 lnaiilrlfnlyGprngegevsrvipalirkilegkqevtllgdgtalRdflyveDvaeaillvlehvdagdkge 236
                              l+++ lr f++yGp    g+++   + +++ i +gk ++ ++++g+ +Rdf yv+D++e++++vl++    +k++
  PHY93_13645|PHY93_13645 172 LPTTGLRFFTVYGPW---GRPDMSPTLFATAISDGK-PINVFNEGKMQRDFTYVDDIVEGVVRVLAQ---APKPN 239
                              ***************...888888999999******.*****************************9...34433 PP

>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  191.1   0.0   2.5e-59   3.4e-56       1     330 [.       4     323 ..       4     325 .. 0.85

  Alignments for each domain:
  == domain 1  score: 191.1 bits;  conditional E-value: 2.5e-59
                              EEETTTSHHHHHHHHHHHHCT-CCEEEEEEESS-TTHHHHHCTTT...TTGCCEEEEE--TT-HHHHHHHHHHHT-SEEEE--S-- CS
            GDP_Man_Dehyd   1 LiTGiaGfiGsylaelLlekgyevhgivrrsssfntgriehlakdpkeeleenlklhkgDltDssslerllaevqpdevynLAAqs 86 
                              L+TG aGfiG ++a++Lle g+ev+g++++++ ++++  +   +  +  + + +++ k+D+ D++++e+l+ + ++++v+nLAAq 
  PHY93_13645|PHY93_13645   4 LVTGAAGFIGMHVAKQLLELGHEVVGLDNLNNYYDVQLKQDRLN--QLIVLPGFRFLKMDIADQKEMENLFVSEKFQRVVNLAAQP 87 
                              9*****************************99999876665543..3346789********************************* PP

                              -HHHHTTSHHHHHHHHTHHHHHHHHHHHHCT..TTSEEEEEEEGGGG-S-SSSSB-.TTS-----SHHHHHHHHHHHHHHHHHHHH CS
            GDP_Man_Dehyd  87 hVdvsfekPeytaevnvlGtlrLLeairalglekkvrfyqaStsEvYGkvqevpqt.EttpfyPrsPYaaaKlyadwivvnyreay 171
                               V++s+++P+++++ n++G +++Le +r+ ++e   +++ aS+s vYG  ++ p++  ++  +P s Yaa+K + + +++ y + y
  PHY93_13645|PHY93_13645  88 GVRYSIQNPHAYINSNIVGFMNILEGCRHNNVE---HLVYASSSSVYGANTKMPFSvHDNVDHPISLYAATKKSNELMAHTYSHLY 170
                              *****************************9987...799***************973667789*********************** PP

                              ---EEEEEE-EEESTTS-TTSCCCHHHHHHHHHHTTS-C-EECTTTT-EEEEEEHHHHHHHHHHHHHC.SS---EEE-TT-EEECH CS
            GDP_Man_Dehyd 172 glfavngilfnhesprrgetfvtrkitravarialgkqevlylGnldakRdwghvkDyveamwlmlqq.dkpedyviatgethsvr 256
                              gl+++  ++f  ++p   +++     t++++ i  gk ++ ++ +++ +Rd+++v+D+ve+++++l q  kp+  ++++ ++    
  PHY93_13645|PHY93_13645 171 GLPTTGLRFFTVYGPWGRPDMSP---TLFATAISDGK-PINVFNEGKMQRDFTYVDDIVEGVVRVLAQaPKPNP-NFNSANSDASS 251
                              ****************8777555...55666677888.7777899999*****************977245544.33444444444 PP

                              HCHHCCHHCCCHHHHHH............TTGGCCCEECGG--SS--SB--B-THHHHHHH----SS-HHHHHH CS
            GDP_Man_Dehyd 257 efvelaflelgktiewegkgeeevgrakesgkvvvevdpkyfrpgevdlllgdaskakeeLgWkpkvsfeelvr 330
                              + +   + ++g++   e      ++  ++   ++ + ++ +++pg+v ++++d++ +++ +g+ p +++e++v 
  PHY93_13645|PHY93_13645 252 SSAPYRLYNIGNHRPVEL--LYFIEILENAIGKKASKKMLPMQPGDVLATYADIDDLNQAVGFAPHTKLEDGVV 323
                              556666666666433332..334555566666678889999******************************985 PP

>> 3Beta_HSD  3-beta hydroxysteroid dehydrogenase/isomerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   71.4   0.0   4.4e-23   6.1e-20       1     274 [.       4     286 ..       4     291 .. 0.76

  Alignments for each domain:
  == domain 1  score: 71.4 bits;  conditional E-value: 4.4e-23
                3Beta_HSD   1 vvtGgaGFlGralvkeLvrleelkevrvlD.......lrespelleelskvnvkkviegDvtdkdklee..alegvdvvihlaslv 77 
                              +vtG+aGF+G ++ k+L++l++  ev  lD       ++ ++  l++l  +    +++ D+ d++++e+  + e+ + v+ la+  
  PHY93_13645|PHY93_13645   4 LVTGAAGFIGMHVAKQLLELGH--EVVGLDnlnnyydVQLKQDRLNQLIVLPGFRFLKMDIADQKEMENlfVSEKFQRVVNLAAQP 87 
                              69*******************6..7766665554433666665555555555555*************94445778899***9999 PP

                3Beta_HSD  78 dvag.kltedeimkvnvkGTrnvleacvkagvrvlvYtSsaevvgpnslgeeilngdEeleyeslhqdaypesKalaEklvlkaNg 162
                               v+   ++   + + n+ G  n+le c++++v+ lvY Ss +v g n+ + ++   +++  ++    + y+ +K+  E +      
  PHY93_13645|PHY93_13645  88 GVRYsIQNPHAYINSNIVGFMNILEGCRHNNVEHLVYASSSSVYGANT-KMPFS-VHDNVDHP---ISLYAATKKSNELMAHTYSH 168
                              9987477889999*********************************65.56666.67777665...579******99976554444 PP

                3Beta_HSD 163 rtlknggrlyTcaLRpagiyGe.gdkllvpll.kqlaklglalfkigdeevlsdrvYvgNvawah..ilAaralqdpkk....... 237
                                      l T  LR  ++yG+ g + ++p+l  +++  g+ +    + ++  d++Yv+ ++     +lA     +p++       
  PHY93_13645|PHY93_13645 169 -----LYGLPTTGLRFFTVYGPwGRPDMSPTLfATAISDGKPINVFNEGKMQRDFTYVDDIVEGVvrVLAQA--PKPNPnfnsans 247
                              .....3359*************656666665516777888888889999999*********97651156544..333333456666 PP

                3Beta_HSD 238 ...kssvagqayfisddsPvesyddfnltllkelglelks 274
                                 +ss+  + y i ++ Pve    f   l +++g + ++
  PHY93_13645|PHY93_13645 248 dasSSSAPYRLYNIGNHRPVE-LLYFIEILENAIGKKASK 286
                              666788888889999999999.888888888888877766 PP

>> RmlD_sub_bind  RmlD substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.0   0.0   5.2e-22   7.2e-19       1     201 [.       1     236 [.       1     252 [. 0.91

  Alignments for each domain:
  == domain 1  score: 68.0 bits;  conditional E-value: 5.2e-22
                              EEEEEESTTSHHHHHHHHHCTTTSEEEEEE-TT.........................T--TTSHHHHHHHHHHH--SEEEE---- CS
            RmlD_sub_bind   1 mkilvtGanGqlGseLakqlaeeglevlaltre.........................eldltdaeavaellkeakpdvvvnaAAy 61 
                              mkilvtGa G +G+++akql e g+ev++l++                          ++d++d++++++l+ + k + vvn+AA 
  PHY93_13645|PHY93_13645   1 MKILVTGAAGFIGMHVAKQLLELGHEVVGLDNLnnyydvqlkqdrlnqlivlpgfrflKMDIADQKEMENLFVSEKFQRVVNLAAQ 86 
                              89****************************77789*************************************************** PP

                              --HHHHHHSHHHHHHHHTHHHHHHHHHHHHCT-.EEEEEEEGGGS-S-TTS-B-TTS--.--SSHHHHHHHHHHHHHHH....H-S CS
            RmlD_sub_bind  62 tavDkaEseeeaayavnaeavealAeaaaavga.lLihvStDyVFdGekkrpYeeddet.sPlnvYGrtKlaGEqavla....agk 141
                                v    ++++a  + n  + +++ e +++ ++ +L++ S+  V+ +++k+p++ +d++ +P+++Y++tK   E +       +g 
  PHY93_13645|PHY93_13645  87 PGVRYSIQNPHAYINSNIVGFMNILEGCRHNNVeHLVYASSSSVYGANTKMPFSVHDNVdHPISLYAATKKSNELMAHTyshlYGL 172
                              ********************************957*******************9998647*************999885444555 PP

                              SEEEEEE-SEESS.SSS-HHHHHHHHH.HH-SEEEEESS..-EE--EEHHHHHHHHHHHHHHCH CS
            RmlD_sub_bind 142 kalivRtswvyge.kgknfvktmlrla.kereelkvvaD..qlgsPTsardlAevllqllekaa 201
                               ++ +R+  vyg   + ++  t++  a ++ ++++v++    ++  T+++d+ e ++ +l++a 
  PHY93_13645|PHY93_13645 173 PTTGLRFFTVYGPwGRPDMSPTLFATAiSDGKPINVFNEgkMQRDFTYVDDIVEGVVRVLAQAP 236
                              7788********9556789999999988999******973245678**********99998875 PP

>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.9   0.0   4.1e-17   5.7e-14       1     219 [.       3     234 ..       3     239 .. 0.82

  Alignments for each domain:
  == domain 1  score: 51.9 bits;  conditional E-value: 4.1e-17
                              EEEETTTSHHHHHHHHHHHHHB-SEEEEEES-HHHHHHHHHH.......-TTEEEE....E--TT-HHHHHHHTT..T-SEEEE-- CS
          Polysacc_synt_2   1 vlvtGagGsiGselvrqilkkkpkkiillerdElklyeieke.leeelkkkklkveivpvigdvrdkerlekaleelkvdvvfhaA 85 
                              +lvtGa+G iG ++ +q+l+   + + l + + +   +++++ l++ +    +++       d++d++++e+++ + k + v++ A
  PHY93_13645|PHY93_13645   3 ILVTGAAGFIGMHVAKQLLELGHEVVGLDNLNNYYDVQLKQDrLNQLIVLPGFRFL----KMDIADQKEMENLFVSEKFQRVVNLA 84 
                              89********************9999999999888888888855555555555444....78************************ PP

                              ----HHHHHHSHHHHHHHHHHHHHHHHHHHHHTT-SEEEEEEE...............GGGSS--SHHHHHHHHHHHHHHHGGG-- CS
          Polysacc_synt_2  86 AlKhVPlveenpleaiktNvlgtenvieaaieagvkkvvliSt...............DKAvnPtnvmGatKrlaekllqalakes 156
                              A   V    +np+  i+ N++g +n++e + +++v+++v+ S+               D   +P++++ atK+  e+++ ++++  
  PHY93_13645|PHY93_13645  85 AQPGVRYSIQNPHAYINSNIVGFMNILEGCRHNNVEHLVYASSssvygantkmpfsvhDNVDHPISLYAATKKSNELMAHTYSHLY 170
                              ****************************************9964455555455555557777899999999999999999998888 PP

                              SSS--EEEEEEE-EETTGTT..SSHH.HHHHHHHTTSSEEES-T.T-EEEEE-HHHHHHHHHHHHHH CS
          Polysacc_synt_2 157 eekktkfvvvRfGNVlgSrG..Svip.lFkkqikeggpvtvTdp.emtRyfmtieeavqLvlqalal 219
                                     +  Rf  V g  G   + p lF   i++g+p+ v ++ +m R f  +++ v+ v+  la+
  PHY93_13645|PHY93_13645 171 ---GLPTTGLRFFTVYGPWGrpDMSPtLFATAISDGKPINVFNEgKMQRDFTYVDDIVEGVVRVLAQ 234
                              ...5666777888888877733455548999999999999975438999998888888877766655 PP

>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.5   0.0   3.7e-09   5.2e-06       1     127 [.       7     158 ..       7     179 .. 0.70

  Alignments for each domain:
  == domain 1  score: 26.5 bits;  conditional E-value: 3.7e-09
                              TTTSHHHHHHHHHHHHC-T-EEEEE..ETT.......HHHCHHHHCTTTCEEEE--TT-CCHHHHHHTT-S...EEEES---TCC. CS
           NAD_binding_10   1 GAtGkvGrllvkellargghevtal..vRn.......peklaeleaeeglevvegdvtdvedlaealkgad...aVvsalggggk. 73 
                              GA G +G +++k+ll+  ghev+ l    n       +++l++l   +g + +++d+ d++++++ +       +V  a+ +g + 
  PHY93_13645|PHY93_13645   7 GAAGFIGMHVAKQLLEL-GHEVVGLdnLNNyydvqlkQDRLNQLIVLPGFRFLKMDIADQKEMENLFVSEKfqrVVNLAAQPGVRy 91 
                              9****************.5***99844444666666678888998889*******************6443222555555444445 PP

                              ...HHHH..........HHHHHHHHHHCT--EEEEEEETTTTSGCGCHHHHHHHH...CCHHHHHHHHHH CS
           NAD_binding_10  74 ...deeg..........aknivdaakeagvkRfvlvsaigvgdevpgefgewnke...llkaylaakraa 127
                                 +               ni++ ++ ++v+++v+ s+  v+    +   ++ ++    ++ y aa +++
  PHY93_13645|PHY93_13645  92 siqN--PhayinsnivgFMNILEGCRHNNVEHLVYASSSSVYGANTKMPFSVHDNvdhPISLY-AATKKS 158
                              5541..1456666678999*******************9999644443333332211134444.443333 PP

>> NAD_binding_4  Male sterility protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.0   0.0   0.00051       0.7       1      22 [.       5      26 ..       5      52 .. 0.88
   2 !   15.4   0.0   5.7e-06    0.0079      84     208 ..      73     184 ..      59     228 .. 0.70

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.00051
                             EE-TTSHHHHHHHHHHHHHS-. CS
            NAD_binding_4  1 lTGaTGFLGkvLlekLLrttpe 22
                             +TGa GF+G ++ ++LL+   e
  PHY93_13645|PHY93_13645  5 VTGAAGFIGMHVAKQLLELGHE 26
                             7****************97765 PP

  == domain 2  score: 15.4 bits;  conditional E-value: 5.7e-06
                              HHHH--EEEE--SS-S.STTSSE...EHHHHHHHHHHHHHHHTSSS--.-EEEEEEGGGTTS-TTT--SSS-H......HHH--EE CS
            NAD_binding_4  84 laeevdviihsaAtvnfdepyke...llrvNveGtrevlelakklkklkvllhvSTayvngeregeveekvyeegekeekldeder 166
                              ++e+ + +++ aA+  + +++++    ++ N+ G  ++le ++  +  ++l++ S++ v+g++++               +    +
  PHY93_13645|PHY93_13645  73 VSEKFQRVVNLAAQPGVRYSIQNphaYINSNIVGFMNILEGCRHNNV-EHLVYASSSSVYGANTK---------------MPFSVH 142
                              378999*******9999988877665899**************6555.5*******999999984...............334455 PP

                              EETTTCCCHHHHHHHHHHHHHHHHHHHH---EEEEEE-EEE- CS
            NAD_binding_4 167 aklkglpntYeqsKalaEklvrearrrsglpvvivRpsiitg 208
                              ++ +     Y  +K   E + +++++  glp++ +R  +++g
  PHY93_13645|PHY93_13645 143 DNVDHPISLYAATKKSNELMAHTYSHLYGLPTTGLRFFTVYG 184
                              555666667888888888888888888888888888877776 PP

>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.7   0.0   9.5e-09   1.3e-05       3     115 ..       3     110 ..       1     121 [. 0.79
   2 ?   -3.6   0.1       4.7   6.5e+03     147     163 ..     150     166 ..     148     171 .. 0.73

  Alignments for each domain:
  == domain 1  score: 24.7 bits;  conditional E-value: 9.5e-09
                              EEEESTTSHHHHHHHHHHHHTT-EEEEEESCHHHHHHHHHH..HHHT..TSEEEEEE-TTTSHHHHHHHHHHHHHHHSSESEEEE- CS
                adh_short   3 vlvtGassGIGraiakelakeGakvvvvdrseekleevake..lkee..gakalaiqvDvtdreevealvekavkklgkldvLvnN 84 
                              +lvtGa++ IG  +ak+l++ G +vv +d+ ++     +k+  l+++     + ++++D++d++e+e+l+  + +k++++  L + 
  PHY93_13645|PHY93_13645   3 ILVTGAAGFIGMHVAKQLLELGHEVVGLDNLNNYYDVQLKQdrLNQLivLPGFRFLKMDIADQKEMENLF--VSEKFQRVVNLAAQ 86 
                              8**************************99888766443333115555766679***************97..77899998888888 PP

                              --SS--SSGGGCSHHHHHHHHHHHTHHHHHH CS
                adh_short  85 AGitgsgpfselseeewervievNltgvfll 115
                               G+       ++s ++  ++i+ N++g +++
  PHY93_13645|PHY93_13645  87 PGV-------RYSIQNPHAYINSNIVGFMNI 110
                              888.......577777777777777777765 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 4.7
                              HHHHHHHHHHHHHHHHH CS
                adh_short 147 aaYsAsKaavagltrsl 163
                              + Y+A+K   + ++++ 
  PHY93_13645|PHY93_13645 150 SLYAATKKSNELMAHTY 166
                              67999998877776665 PP

>> KR  KR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.8   0.0     1e-07   0.00014       4     147 ..       4     137 ..       2     145 .. 0.82

  Alignments for each domain:
  == domain 1  score: 21.8 bits;  conditional E-value: 1e-07
                              EEETTTSHHHHHHHHHHHHHHS-EEEEE-SS..--HHHHHHHHHHHHTT-..EEEE----TT-HHHHHHHHHHHHHHSS---EEEE CS
                       KR   4 litGGlGgLGlelarwlaekgarhlvllsRsaaadedskaliaelealga..evevvaaDvsdkdavealleeikaeeppikGvih 87 
                              l+tG++G +G+++a++l+e g + + l   +  +  d + + ++l++l +    +++++D++d++++e+l+ + k      + v++
  PHY93_13645|PHY93_13645   4 LVTGAAGFIGMHVAKQLLELGHEVVGLDNLN--NYYDVQLKQDRLNQLIVlpGFRFLKMDIADQKEMENLFVSEK-----FQRVVN 82 
                              9*********************999998887..5566666777888876656899***************97765.....344665 PP

                              ---------TTT--HHHHHHHHTTTTHHHHHHHHHTTTS--SEEEEEEEHHHHH--TT-H CS
                       KR  88 aAgvlrdklleemtaedleqvlapKvkGawnLhelledesldffvlfSSiagllgsagqa 147
                               A     ++  + + ++ ++ +++ + G  n+ e +++++++++v+ SS  +++g+++++
  PHY93_13645|PHY93_13645  83 LA----AQPGVRYSIQNPHAYINSNIVGFMNILEGCRHNNVEHLVYASSS-SVYGANTKM 137
                              55....577788999999*************************9988775.567776665 PP

>> adh_short_C2  Enoyl-(Acyl carrier protein) reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0     5e-05     0.069       1      69 [.       7      79 ..       7     113 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 5e-05
                             TTTTSHHHHHHHHHHHTT-EEEEEESSGGH......HHHHHHHHHHTTSEEEE--TTSHHHHHHHHHHHHHHHSS CS
             adh_short_C2  1 GaasgIGraiAkalaeeGaevvltdlneea......kkrveelaeelgaevlecDVtdeeqvealveevvekfgk 69
                             Gaa  IG ++Ak+l e G evv  d  ++       ++r+++l    g ++l++D++d++++e+l+    ekf++
  PHY93_13645|PHY93_13645  7 GAAGFIGMHVAKQLLELGHEVVGLDNLNNYydvqlkQDRLNQLIVLPGFRFLKMDIADQKEMENLFV--SEKFQR 79
                             88899*****************98765543211014566666666666778**************84..466655 PP

>> UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0    0.0001      0.14       1      32 [.       1      33 [.       1      81 [. 0.84
   2 ?   -2.1   0.0       1.7   2.4e+03     157     175 ..     210     228 ..     205     235 .. 0.64

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.0001
                             SEEEEE-.-STTHHHHHHHHHHCTSEEEEE-S- CS
           UDPG_MGDP_dh_N  1 mkisviG.lGYvGlvtaavlaeighevigvDid 32
                             mki v G +G++G+  a  l e+ghev+g+D+ 
  PHY93_13645|PHY93_13645  1 MKILVTGaAGFIGMHVAKQLLELGHEVVGLDNL 33
                             899999955**********************74 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 1.7
                              -TTSHHHHHHS-S-EEEEE CS
           UDPG_MGDP_dh_N 157 regsavkdllnpdrvviGv 175
                              +eg++ +d+   d +v Gv
  PHY93_13645|PHY93_13645 210 NEGKMQRDFTYVDDIVEGV 228
                              4666666666666666665 PP

>> NmrA  NmrA-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   7.2e-05     0.099       1      28 [.       3      30 ..       3     100 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 7.2e-05
                             EEESSTTSHHHHHHHHHHHHHT-EEEEE CS
                     NmrA  1 IlviGaTGrqGksvvrallkaghkvral 28
                             Ilv+Ga+G +G +v++ ll+ gh+v  l
  PHY93_13645|PHY93_13645  3 ILVTGAAGFIGMHVAKQLLELGHEVVGL 30
                             9***********************9765 PP

>> Ldh_1_N  lactate/malate dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1   0.00019      0.26       1      21 [.       1      21 [.       1      41 [. 0.85

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00019
                             EEEEEETTTSHHHHHHHHHHH CS
                  Ldh_1_N  1 vkvavvGaaGgiGqslallla 21
                             +k+ v+GaaG+iG+++a +l+
  PHY93_13645|PHY93_13645  1 MKILVTGAAGFIGMHVAKQLL 21
                             69**************98876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (335 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       545  (0.0303977); expected 358.6 (0.02)
Passed bias filter:                      503  (0.0280551); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.64u 0.27s 00:00:00.91 Elapsed: 00:00:00.47
# Mc/sec: 2128.16
//
Query:       PHY93_13650|PHY93_13650  [L=337]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.4e-78  263.7   0.0    1.7e-78  263.4   0.0    1.1  1  NeuB           NeuB family
    2.9e-08   34.2   0.0    9.2e-08   32.6   0.0    1.9  2  SAF            SAF domain
  ------ inclusion threshold ------
      0.018   15.0   0.1      0.031   14.2   0.1    1.3  1  Asp_decarbox   Aspartate decarboxylase
      0.077   13.2   0.0       0.13   12.4   0.0    1.3  1  AAA_33         AAA domain
      0.086   13.0   0.1       0.25   11.6   0.1    1.8  1  YozE_SAM_like  YozE SAM-like fold
      0.089   12.2   0.0          1    8.7   0.0    2.1  2  DUF4159        Domain of unknown function (DUF4159)


Domain annotation for each model (and alignments):
>> NeuB  NeuB family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  263.4   0.0   5.6e-82   1.7e-78       1     241 []      27     265 ..      27     265 .. 0.96

  Alignments for each domain:
  == domain 1  score: 263.4 bits;  conditional E-value: 5.6e-82
                              HHHHHHHHT-SEEEEEE--HHHH--GGGGG--......TT-S-HHHHHHHH---HHHHHHHHHHHHHTT-EEEEEE-SHHHHHHHH CS
                     NeuB   1 lieaAaeagadavKfQtfkaeelvskeakkaeyqkkekekeesqlellkklelseeehkelkeyceekgieflstpfdlesvdlle 86 
                              li++Aa ag+davKfQ+++ ++l+ k++ + +   + +e ++++ e+ ++le++ ee++elk+y+e+kg++f++t+fd+++vd+le
  PHY93_13650|PHY93_13650  27 LIDVAAVAGVDAVKFQKRTVDKLAVKATLDVK-DDRFPEFGKTYREIREHLEFNLEEYRELKAYTESKGLDFMCTAFDTDAVDFLE 111
                              79************************764444.556668999******************************************** PP

                              HHT-S-EEE-GGGTT-HHHHHHHHTT-S-EEEE-TT--HHHHHHHHHHH.HHHT--EEEEE----SS--GGG--THHHHHHHHH-T CS
                     NeuB  87 slgveayKiaSgeltnlpllekiaktgkpvilStGmatleeieeavevlreagaeklvllhCtseYPapledvnLkaietlkeafg 172
                              +lg + yK+aS +ltnl+lle++a+ +k+ +lStGma+leei++ave++ + +++ l l+hC+s+YP+pl ++nL+++e lk++++
  PHY93_13650|PHY93_13650 112 KLGNKSYKLASHSLTNLELLEYLARLKKNTVLSTGMADLEEIDRAVEIF-KRNNAPLSLMHCVSAYPTPLAECNLAMMEVLKKRYN 196
                              *************************************************.77799******************************* PP

                              SEEEEE--SSSSHHHHHHHHHT--EEEEEB-S-TT--STTGGG-B-HHHHHHHHHHHHHHHHHSS--TT CS
                     NeuB 173 vpvGySDHtlgiavaiaAvalGAkviEkHftldrnlegpDhkaSlepeelkelveairnvekalgegek 241
                              vpvGyS+H+ g+  ++ Av +GA++iE+H+tld+ + g Dhk+Sl p+el +++++ir v k+ g+g+k
  PHY93_13650|PHY93_13650 197 VPVGYSGHEIGFLPTVLAVGMGAELIERHYTLDKGMTGFDHKMSLAPDELIAMMRDIRVVPKIQGSGIK 265
                              *****************************************************************9876 PP

>> SAF  SAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0       3.8   1.1e+04       9      27 ..     136     154 ..     133     161 .. 0.68
   2 !   32.6   0.0   3.1e-11   9.2e-08       7      63 .]     285     337 .]     281     337 .] 0.89

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 3.8
                              TB-TT-BEBTTTEEEECEC CS
                      SAF   9 dikaGeviteddltlkrpi 27 
                               +k+++v++  +  l++++
  PHY93_13650|PHY93_13650 136 RLKKNTVLSTGMADLEEID 154
                              5889999976666565555 PP

  == domain 2  score: 32.6 bits;  conditional E-value: 3.1e-11
                              SSTB-TT-BEBTTTEEEECECGGCCTSCCCGGHHHHTTEEESS-B-TT-B-BGGGEE CS
                      SAF   7 ardikaGeviteddltlkrpiashkigllpiaygeviGkratrdikaGepvhahnle 63 
                              a++i+aG+v+te+ +t++ p+     g++++    v+Gkra r+i+a+e+++++++e
  PHY93_13650|PHY93_13650 285 AANIPAGTVLTEKLVTWRNPG----TGIPTKLAHTVLGKRANREIPADELLSVDMFE 337
                              789*****************8....66666666679******************985 PP

>> Asp_decarbox  Aspartate decarboxylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.1     1e-05     0.031       7      45 ..       2      40 ..       1      48 [. 0.89

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 1e-05
                             EEEEEEEEXXEEETTXXXXEEEEHHHHHHCT--TTBEEE CS
             Asp_decarbox  7 ksKihratvteaelnYeGSitideelleaagileyekvq 45
                             + K h   + ea ln +GSi+i ++l++ a +  +++v+
  PHY93_13650|PHY93_13650  2 ENKRHCYVIAEAGLNHNGSIEIAKKLIDVAAVAGVDAVK 40
                             6788999***********************999888886 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   4.4e-05      0.13      55     105 ..     124     173 ..      90     183 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 4.4e-05
                   AAA_33  55 lyqilnelarkalsagrnvildatnlsrrerarflklarrlgvpvrivvve 105
                                  l el++  ++ ++n++l  ++++ +e +r +++++r ++p +++++ 
  PHY93_13650|PHY93_13650 124 SLTNL-ELLEYLARLKKNTVLSTGMADLEEIDRAVEIFKRNNAPLSLMHCV 173
                              34444.8999999********************************999996 PP

>> YozE_SAM_like  YozE SAM-like fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.1   8.3e-05      0.25      23      52 ..      55      84 ..      39      92 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 8.3e-05
                             HHHT-TTS-TT---HHHHHHHHHTSHHHHT CS
            YozE_SAM_like 23 nafkDksFPkqstdydeisdYLelnaeyls 52
                                kD+ FP   ++y+ei ++Le n e+  
  PHY93_13650|PHY93_13650 55 LDVKDDRFPEFGKTYREIREHLEFNLEEYR 84
                             34589*******************987654 PP

>> DUF4159  Domain of unknown function (DUF4159)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.7   0.0   0.00035         1      36      88 ..      49     101 ..      31     126 .. 0.83
   2 ?    1.1   0.0     0.076   2.3e+02      74     128 ..     224     281 ..     222     315 .. 0.77

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 0.00035
                              -SS-EEE-TT-TTGGG-SEEEEEESS------HHHHHHHHHHHTT-EEEEEE- CS
                  DUF4159  36 peepagvdlsddeLfeyPllYltghgnvkfssaeakaLraYlrkGGfLliDdr 88 
                               + +a++d++dd++ e+   Y  ++++++f+ +e+++L+aY ++ G+ ++ ++
  PHY93_13650|PHY93_13650  49 LAVKATLDVKDDRFPEFGKTYREIREHLEFNLEEYRELKAYTESKGLDFMCTA 101
                              5667899***************************************8777774 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.076
                              HHHHHTT-EEEEEE-SSSSHHHHHHHHHHHHH..S-TTS...-EE--TTSGGGGSSS--S CS
                  DUF4159  74 raYlrkGGfLliDdrgygaaeaerlrrelkkv..fPekp...leelpadhvlfksfyllk 128
                              r+Y    G+  +D+ +++ a + +l ++++ +  +P+ +   ++e++++  +++ +y+++
  PHY93_13650|PHY93_13650 224 RHYTLDKGMTGFDH-KMSLAPD-ELIAMMRDIrvVPKIQgsgIKEVSETEWITRRKYHVS 281
                              67888899999999.6666666.6888888766689755555999************998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (337 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       615  (0.034302); expected 358.6 (0.02)
Passed bias filter:                      561  (0.0312901); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.59u 0.25s 00:00:00.84 Elapsed: 00:00:00.47
# Mc/sec: 2163.93
//
Query:       PHY93_05865|PHY93_05865  [L=777]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.5e-32  111.7   0.7    2.1e-15   56.8   0.0    3.0  3  Yop-YscD_cpl     Inner membrane component of T3SS, cytoplasmi
    8.8e-29   99.7   3.5    5.1e-16   58.8   0.9    2.7  2  FHA              FHA domain
    1.1e-07   31.4  10.7     0.0012   18.8   0.1    6.0  7  TPR_2            Tetratricopeptide repeat
    2.5e-05   24.7   0.0          2    9.5   0.0    4.1  3  TPR_14           Tetratricopeptide repeat
    0.00033   20.3   2.3       0.02   14.5   0.1    3.1  3  TPR_11           TPR repeat
    0.00048   20.6   1.3        0.7   10.7   0.0    4.2  4  TPR_6            Tetratricopeptide repeat
    0.00081   19.9   6.3        1.9    9.1   0.0    4.2  4  TPR_19           Tetratricopeptide repeat
     0.0058   17.3   1.1        7.3    7.3   0.3    3.4  3  TPR_16           Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.012   15.4   7.0       0.42   10.5   0.1    3.9  4  TPR_1            Tetratricopeptide repeat
      0.066   13.5   0.7        1.5    9.1   0.1    2.6  2  TPR_12           Tetratricopeptide repeat
       0.11   12.8   0.2        9.3    6.6   0.0    3.6  4  ANAPC3           Anaphase-promoting complex, cyclosome, subun
       0.21   11.1   1.2         18    5.0   0.0    2.9  3  Sigma70_r4       Sigma-70, region 4
       0.29   11.6   3.9        8.7    6.8   0.1    2.9  3  Alkyl_sulf_dimr  Alkyl sulfatase dimerisation


Domain annotation for each model (and alignments):
>> Yop-YscD_cpl  Inner membrane component of T3SS, cytoplasmic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.0   0.0   4.7e-17   6.5e-14      15      88 ..      27     100 ..      20     104 .. 0.93
   2 !   56.8   0.0   1.6e-18   2.1e-15      14      88 ..     286     361 ..     278     365 .. 0.94
   3 ?   -2.6   0.0       5.3   7.3e+03      47      70 ..     552     576 ..     549     602 .. 0.74

  Alignments for each domain:
  == domain 1  score: 52.0 bits;  conditional E-value: 4.7e-17
                              TTEEEEEES-TT-SEE---TTS-TT-EEEEEETTEEEEEE-CESS--EETTEE-SECC--TTSEEEETTEEEEE CS
             Yop-YscD_cpl  15 eegevviGsdedcDivLsDkevsrkhlkLeveeesvrledlgsrngllvngerveelelrpgdvlelGttelal 88 
                              +e+ ++iG+++dc ivL+Dk+vsr+h+++  ++ ++ +e+ +++n  l nge ++++el +gd l++G++ + +
  PHY93_05865|PHY93_05865  27 SETVFLIGRSKDCHIVLDDKQVSREHVRIIHKNGKWFAEKTAEHNVCLYNGEDFNRAELDDGDSLMIGSFTINI 100
                              67899***************************************************************998766 PP

  == domain 2  score: 56.8 bits;  conditional E-value: 1.6e-18
                              ETTEEEEEES-TT.-SEE---TTS-TT-EEEEEETTEEEEEE-CESS--EETTEE-SECC--TTSEEEETTEEEEE CS
             Yop-YscD_cpl  14 LeegevviGsded.cDivLsDkevsrkhlkLeveeesvrledlgsrngllvngerveelelrpgdvlelGttelal 88 
                              +e+++ +iG+d + c ivL+D+evs++h++++ ++  +++edl+s ng+++ng r+++++l+++d++ +G + +++
  PHY93_05865|PHY93_05865 286 IESEKTYIGRDASkCQIVLNDSEVSSVHAVITKNNIMITIEDLNSSNGTILNGDRINKATLNHNDEFVIGGVTFTV 361
                              5788999****999*********************************************************99986 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 5.3
                              TTEEEEEE-CESS--EETTEE-S.E CS
             Yop-YscD_cpl  47 eesvrledlgsrngllvngerve.e 70 
                              e+++ ++dl  + + +v ++rve  
  PHY93_05865|PHY93_05865 552 EKKIKVRDLVGKASGFVKDRRVElA 576
                              6778889999999999999998732 PP

>> FHA  FHA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.6   0.1   1.7e-13   2.4e-10       2      69 .]      32      94 ..      31      94 .. 0.96
   2 !   58.8   0.9   3.7e-19   5.1e-16       2      69 .]     292     355 ..     291     355 .. 0.97

  Alignments for each domain:
  == domain 1  score: 40.6 bits;  conditional E-value: 1.7e-13
                             EEESSTTSSEETTSTTSTTTEEEEEEETTCEEEEEEEESSSSSEEETTEEESTTSEEEE-TTEEEEET CS
                      FHA  2 tiGRssdcdivlddpsiSrkHalikfdkgsgkvyleDlgSknGtfvNgqrigkgepveLksgdvielG 69
                              iGRs+dc+ivldd+++Sr H +i  ++g  k++ e     n +  Ng+  ++   +eL +gd + +G
  PHY93_05865|PHY93_05865 32 LIGRSKDCHIVLDDKQVSREHVRIIHKNG--KWFAEKTAEHNVCLYNGEDFNR---AELDDGDSLMIG 94
                             69***************************..********************98...*******99987 PP

  == domain 2  score: 58.8 bits;  conditional E-value: 3.7e-19
                              EEESS.TTSSEETTSTTSTTTEEEEEEETTCEEEEEEEESSSSSEEETTEEESTTSEEEE-TTEEEEET CS
                      FHA   2 tiGRs.sdcdivlddpsiSrkHalikfdkgsgkvyleDlgSknGtfvNgqrigkgepveLksgdvielG 69 
                               iGR+ s+c+ivl+d+++S +Ha+i+ ++    +++eDl+S+nGt +Ng ri+k   + L+++d++ +G
  PHY93_05865|PHY93_05865 292 YIGRDaSKCQIVLNDSEVSSVHAVITKNNI--MITIEDLNSSNGTILNGDRINK---ATLNHNDEFVIG 355
                              59***999******************9999..*********************9...********9998 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.1   8.5e-07    0.0012       4      33 ..     489     518 ..     487     519 .. 0.92
   2 ?    2.4   0.0      0.16   2.2e+02      15      34 .]     571     590 ..     563     590 .. 0.89
   3 ?   -2.6   0.8       6.2   8.6e+03      16      29 ..     604     617 ..     601     620 .. 0.83
   4 ?   -0.9   0.0       1.7   2.4e+03       8      28 ..     631     651 ..     631     654 .. 0.81
   5 !    9.6   0.0   0.00077       1.1       6      34 .]     684     712 ..     680     712 .. 0.91
   6 ?   -1.2   0.0       2.2     3e+03      19      28 ..     729     738 ..     727     740 .. 0.88
   7 ?    1.9   0.0      0.22     3e+02       5      32 ..     734     761 ..     730     761 .. 0.78

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 8.5e-07
                    TPR_2   4 lynlGlayyklgdyeeAleafekAleldPn 33 
                               y++G+ +y++g+y eAl+ f+k  + dPn
  PHY93_05865|PHY93_05865 489 RYEIGKNHYYNGRYREALDEFQKISATDPN 518
                              699********************9999998 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.16
                    TPR_2  15 gdyeeAleafekAleldPnn 34 
                               + e A + f++  ++dP+n
  PHY93_05865|PHY93_05865 571 RRVELAQDVFNEIAKIDPEN 590
                              67899*************97 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 6.2
                    TPR_2  16 dyeeAleafekAle 29 
                              + e+A++ + +A +
  PHY93_05865|PHY93_05865 604 QKEKAKKELAEATK 617
                              57999999999976 PP

  == domain 4  score: -0.9 bits;  conditional E-value: 1.7
                    TPR_2   8 GlayyklgdyeeAleafekAl 28 
                              G+a++ ++++ +A+  ++  l
  PHY93_05865|PHY93_05865 631 GKALFIQKEWFKAIGKLDDFL 651
                              7899*********98776555 PP

  == domain 5  score: 9.6 bits;  conditional E-value: 0.00077
                    TPR_2   6 nlGlayyklgdyeeAleafekAleldPnn 34 
                                ++++++ +d++ A e +++ l+++P n
  PHY93_05865|PHY93_05865 684 GKAKSLMEGQDLKGAYEVYQQILKIEPSN 712
                              67999**********************87 PP

  == domain 6  score: -1.2 bits;  conditional E-value: 2.2
                    TPR_2  19 eAleafekAl 28 
                              +A++ +++A+
  PHY93_05865|PHY93_05865 729 KARKIYREAI 738
                              899****997 PP

  == domain 7  score: 1.9 bits;  conditional E-value: 0.22
                    TPR_2   5 ynlGlayyklgdyeeAleafekAleldP 32 
                              y+ + + + l  +++A+e f+++ +  P
  PHY93_05865|PHY93_05865 734 YREAIISESLSLFQDAKEKFQEVQQVSP 761
                              67777777777799*******9987665 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.5   0.0    0.0064       8.8       3      34 ..     488     519 ..     486     529 .. 0.87
   2 ?    2.6   0.0      0.23   3.2e+02      13      43 ..     569     599 ..     560     600 .. 0.83
   3 !    9.5   0.0    0.0014         2       8      36 ..     686     714 ..     682     722 .. 0.90

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0064
                   TPR_14   3 allalaeallalGdpdeAiallrralalaPdd 34 
                              a++++++ ++ +G+++eA++ ++++ a++P++
  PHY93_05865|PHY93_05865 488 ARYEIGKNHYYNGRYREALDEFQKISATDPNF 519
                              78899999999*******************84 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.23
                   TPR_14  13 alGdpdeAiallrralalaPddaeawlllaq 43 
                                ++ + A ++++++ + +P++ e+  +  +
  PHY93_05865|PHY93_05865 569 KDRRVELAQDVFNEIAKIDPENIEVTKMKLE 599
                              556788899**************99988765 PP

  == domain 3  score: 9.5 bits;  conditional E-value: 0.0014
                   TPR_14   8 aeallalGdpdeAiallrralalaPddae 36 
                              a+ l++ +d+++A ++++++l+  P++ae
  PHY93_05865|PHY93_05865 686 AKSLMEGQDLKGAYEVYQQILKIEPSNAE 714
                              6789999*******************987 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   0.1     0.025        35       1      26 [.     493     518 ..     493     522 .. 0.84
   2 ?   -3.3   0.0       5.4   7.4e+03      22      29 ..     585     592 ..     584     593 .. 0.85
   3 !   14.5   0.1   1.5e-05      0.02       3      36 ..     688     721 ..     686     724 .. 0.90

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.025
                   TPR_11   1 GdayyeqGkyeeAieaYkkAlkldPd 26 
                              G+  y  G+y eA+ +++k  + dP+
  PHY93_05865|PHY93_05865 493 GKNHYYNGRYREALDEFQKISATDPN 518
                              666899***********997777776 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 5.4
                   TPR_11  22 kldPdnae 29 
                              k+dP+n e
  PHY93_05865|PHY93_05865 585 KIDPENIE 592
                              89****87 PP

  == domain 3  score: 14.5 bits;  conditional E-value: 1.5e-05
                   TPR_11   3 ayyeqGkyeeAieaYkkAlkldPdnaeayynLGl 36 
                               ++e +++++A e+Y++ lk+ P+nae +++ G+
  PHY93_05865|PHY93_05865 688 SLMEGQDLKGAYEVYQQILKIEPSNAESLNATGE 721
                              678999*********************9998776 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.7   0.0   0.00051       0.7       2      32 ..     488     518 ..     487     518 .. 0.92
   2 ?    5.7   0.0      0.02        27       7      32 ..     686     711 ..     682     712 .. 0.87
   3 ?   -1.6   0.0       4.1   5.6e+03      16      27 ..     727     738 ..     721     744 .. 0.83
   4 ?   -2.0   0.0       5.5   7.6e+03      16      26 ..     746     756 ..     732     759 .. 0.63

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00051
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHH-TT CS
                    TPR_6   2 AlyklalsyrklgdtdkAlealerlikeYPd 32 
                              A y +++ ++  g++++Al+ ++++    P+
  PHY93_05865|PHY93_05865 488 ARYEIGKNHYYNGRYREALDEFQKISATDPN 518
                              89*********99***********9888876 PP

  == domain 2  score: 5.7 bits;  conditional E-value: 0.02
                              HHHHHHHHHHHHHHHHHHHHHHH-TT CS
                    TPR_6   7 alsyrklgdtdkAlealerlikeYPd 32 
                              a+s+ +++d   A e +++++k  P 
  PHY93_05865|PHY93_05865 686 AKSLMEGQDLKGAYEVYQQILKIEPS 711
                              78899977*************99885 PP

  == domain 3  score: -1.6 bits;  conditional E-value: 4.1
                              HHHHHHHHHHHH CS
                    TPR_6  16 tdkAlealerli 27 
                              + kA++++++ i
  PHY93_05865|PHY93_05865 727 ANKARKIYREAI 738
                              579*****9876 PP

  == domain 4  score: -2.0 bits;  conditional E-value: 5.5
                              HHHHHHHHHHH CS
                    TPR_6  16 tdkAlealerl 26 
                               ++A+e ++++
  PHY93_05865|PHY93_05865 746 FQDAKEKFQEV 756
                              45677777766 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.1   0.0    0.0014       1.9      28      66 ..     489     528 ..     476     529 .. 0.76
   2 ?    4.6   0.1     0.033        45       5      56 ..     571     620 ..     567     629 .. 0.86
   3 ?   -2.7   0.0       6.5   8.9e+03      42      54 ..     662     674 ..     661     685 .. 0.82
   4 !    6.7   0.1    0.0077        11       1      28 [.     689     716 ..     689     738 .. 0.86

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.0014
                   TPR_19  28 rllLAeallalgqldeAealLdalpeedpdd.aryasLlA 66 
                              r+   + ++ +g++ eA +  +++ + dp+  + ++sL+A
  PHY93_05865|PHY93_05865 489 RYEIGKNHYYNGRYREALDEFQKISATDPNFnSSLQSLMA 528
                              5555566666799999999999999999995599999998 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.033
                   TPR_19   5 gdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeedp 56 
                               + + A++ + ++ + dp+n e+    +++ l+  q ++A++ L+++ +++ 
  PHY93_05865|PHY93_05865 571 RRVELAQDVFNEIAKIDPENIEVTK--MKLELEDWQKEKAKKELAEATKKKE 620
                              5667799999***************..******************9998776 PP

  == domain 3  score: -2.7 bits;  conditional E-value: 6.5
                   TPR_19  42 deAealLdalpee 54 
                              +eA ++L+++ +e
  PHY93_05865|PHY93_05865 662 KEASEMLKTARDE 674
                              7999999998876 PP

  == domain 4  score: 6.7 bits;  conditional E-value: 0.0077
                   TPR_19   1 llaegdyaeAlalleqalqedpknaear 28 
                              l++ +d+  A + ++q+l+ +p nae +
  PHY93_05865|PHY93_05865 689 LMEGQDLKGAYEVYQQILKIEPSNAESL 716
                              56778*******************9976 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.3   0.3    0.0053       7.3       1      27 [.     490     516 ..     481     552 .. 0.83
   2 ?   -1.6   0.0       3.4   4.7e+03       7      31 ..     567     588 ..     563     590 .. 0.80
   3 ?    6.4   0.0      0.01        14       3      43 ..     685     722 ..     683     738 .. 0.91

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0053
                   TPR_16   1 lalaraalragdyddAaaaleaalkrd 27 
                              ++ ++ ++++g+y++A+  ++   + d
  PHY93_05865|PHY93_05865 490 YEIGKNHYYNGRYREALDEFQKISATD 516
                              567888999999999999999877776 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 3.4
                   TPR_16   7 alragdyddAaaaleaalkrdpssP 31 
                              +++ ++ + A+ ++++  k d   P
  PHY93_05865|PHY93_05865 567 FVKDRRVELAQDVFNEIAKID---P 588
                              678899999999999999888...5 PP

  == domain 3  score: 6.4 bits;  conditional E-value: 0.01
                   TPR_16   3 laraalragdyddAaaaleaalkrdpssPdaaeAllllgda 43 
                              +a+++++ +d   A +++++ lk     P +ae+l++ g++
  PHY93_05865|PHY93_05865 685 KAKSLMEGQDLKGAYEVYQQILKIE---PSNAESLNATGEI 722
                              68999999*****************...*******999986 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.1    0.0003      0.42       3      34 .]     488     519 ..     487     519 .. 0.91
   2 ?   -2.3   0.0       3.5   4.8e+03      18      34 .]     574     590 ..     571     590 .. 0.83
   3 ?    6.6   0.0    0.0053       7.3       6      34 .]     684     712 ..     681     712 .. 0.87
   4 ?   -1.5   0.0         2   2.7e+03       6      32 ..     735     761 ..     730     761 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.0003
                              HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTH CS
                    TPR_1   3 alynlGnayfklgkydeAleyyekALelnPnn 34 
                              a y +G  ++++g+y eAl+ ++k    +Pn+
  PHY93_05865|PHY93_05865 488 ARYEIGKNHYYNGRYREALDEFQKISATDPNF 519
                              67999999****************99999986 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 3.5
                              HHHHHHHHHHHHHSTTH CS
                    TPR_1  18 deAleyyekALelnPnn 34 
                              + A + +++  +++P+n
  PHY93_05865|PHY93_05865 574 ELAQDVFNEIAKIDPEN 590
                              66888899999****97 PP

  == domain 3  score: 6.6 bits;  conditional E-value: 0.0053
                              HHHHHHHHTT-HHHHHHHHHHHHHHSTTH CS
                    TPR_1   6 nlGnayfklgkydeAleyyekALelnPnn 34 
                              +++  +++ ++++ A e y++ L+++P+n
  PHY93_05865|PHY93_05865 684 GKAKSLMEGQDLKGAYEVYQQILKIEPSN 712
                              5677888889999**************98 PP

  == domain 4  score: -1.5 bits;  conditional E-value: 2
                              HHHHHHHHTT-HHHHHHHHHHHHHHST CS
                    TPR_1   6 nlGnayfklgkydeAleyyekALelnP 32 
                              + + +  +l  +++A e ++++ ++ P
  PHY93_05865|PHY93_05865 735 REAIISESLSLFQDAKEKFQEVQQVSP 761
                              555666677789999999999888766 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   0.1    0.0011       1.5      43      71 ..     484     512 ..     476     518 .. 0.81
   2 ?    1.9   0.1      0.21   2.8e+02      26      71 ..     695     737 ..     692     738 .. 0.82

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.0011
                   TPR_12  43 ltattlrnLgrlyralgryeeAlelleea 71 
                               ++++++ +g  +++ gry+eAl+ +++ 
  PHY93_05865|PHY93_05865 484 RALSARYEIGKNHYYNGRYREALDEFQKI 512
                              57889999999999999999999999986 PP

  == domain 2  score: 1.9 bits;  conditional E-value: 0.21
                   TPR_12  26 lekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleea 71 
                              l+ a+e+++++l    p  a++l++ g++ ++l    +A+++++ea
  PHY93_05865|PHY93_05865 695 LKGAYEVYQQILKI-EPSNAESLNATGEIKDQL--ANKARKIYREA 737
                              56689999999877.489999999999999888..88999999988 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0       2.6   3.6e+03      28      42 ..      69      83 ..      55      84 .. 0.79
   2 ?    6.6   0.0    0.0067       9.3      14      49 ..     477     512 ..     466     539 .. 0.77
   3 ?    0.1   0.0       0.7   9.7e+02      29      54 ..     628     654 ..     606     662 .. 0.69
   4 ?   -0.2   0.0      0.88   1.2e+03      30      60 ..     686     717 ..     664     738 .. 0.78

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 2.6
                             HHHHHHHHTT-HHHH CS
                   ANAPC3 28 llAlclylngqykrA 42
                              +  cly+ ++++rA
  PHY93_05865|PHY93_05865 69 EHNVCLYNGEDFNRA 83
                             5668*********99 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.0067
                              HHH.HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCT CS
                   ANAPC3  14 rllaaetespedayllAlclylngqykrAyellrka 49 
                              +l + e++ ++++y  ++ +y ng+y +A++ ++k 
  PHY93_05865|PHY93_05865 477 KLTEDERRALSARYEIGKNHYYNGRYREALDEFQKI 512
                              556788999999*****************9998887 PP

  == domain 3  score: 0.1 bits;  conditional E-value: 0.7
                              H..HHHHHHTT-HHHHHHHHHCT.SHHHC CS
                   ANAPC3  29 l..AlclylngqykrAyellrka.klnsk 54 
                              l  +++l+ ++++ +A+  l+++ k+  k
  PHY93_05865|PHY93_05865 628 LkpGKALFIQKEWFKAIGKLDDFlKI--K 654
                              346899***********999998444..3 PP

  == domain 4  score: -0.2 bits;  conditional E-value: 0.88
                              HHHHHHTT-HHHHHHHHHCT.SHHHC-HHHHH CS
                   ANAPC3  30 AlclylngqykrAyellrka.klnskslgcry 60 
                              A++l + ++ k Aye++++  k+++++ +++ 
  PHY93_05865|PHY93_05865 686 AKSLMEGQDLKGAYEVYQQIlKIEPSNAESLN 717
                              88888889999999999999888888876655 PP

>> Sigma70_r4  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   0.2     0.032        44      32      43 ..      48      59 ..      46      61 .. 0.89
   2 ?   -3.1   0.0       4.3     6e+03       6      18 ..     410     423 ..     410     426 .. 0.76
   3 ?    5.0   0.0     0.013        18       4      18 ..     477     493 ..     476     502 .. 0.81

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.032
                             S-HHHHHHHHHH CS
               Sigma70_r4 32 iSrerVrqiekr 43
                             +Sre+Vr i+k+
  PHY93_05865|PHY93_05865 48 VSREHVRIIHKN 59
                             9********997 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 4.3
                              -HHHHHHHHHHH.T CS
               Sigma70_r4   6 pererevlelrf.g 18 
                              +++e+ +++  + +
  PHY93_05865|PHY93_05865 410 SPQEKSIIKRIWkD 423
                              6899***9988854 PP

  == domain 3  score: 5.0 bits;  conditional E-value: 0.013
                              HS-HHHHHHHHHHH..T CS
               Sigma70_r4   4 sLpererevlelrf..g 18 
                              +L+e+er+ l+ r+  g
  PHY93_05865|PHY93_05865 477 KLTEDERRALSARYeiG 493
                              8*************542 PP

>> Alkyl_sulf_dimr  Alkyl sulfatase dimerisation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.4   0.1       1.1   1.5e+03      75     126 ..     492     544 ..     487     556 .. 0.78
   2 ?    4.6   0.5      0.03        41      68     111 ..     556     599 ..     532     624 .. 0.65
   3 ?    6.8   0.1    0.0063       8.7      70     121 ..     680     731 ..     660     745 .. 0.85

  Alignments for each domain:
  == domain 1  score: -0.4 bits;  conditional E-value: 1.1
                              HHHHHHHTT-HHHHHHHHHHHHHHSTT.-HHHHHHHHHHHHHHHHH-SSHHHH CS
          Alkyl_sulf_dimr  75 kakealkegdyrwaaellnhlvfadpe.naeakelkadaleqlgyqaesatwR 126
                                k+++ +g yr a+   +++ + dp+ n++ ++l a + e l++ +e    R
  PHY93_05865|PHY93_05865 492 IGKNHYYNGRYREALDEFQKISATDPNfNSSLQSLMALSKEGLSKLEEQEKKR 544
                              67889999***************999977777777777777777766665555 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.03
                              SHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHH CS
          Alkyl_sulf_dimr  68 gaekvlekakealkegdyrwaaellnhlvfadpenaeakelkad 111
                               +  ++ ka+  +k+  +++a+ + n +   dpen e  ++k +
  PHY93_05865|PHY93_05865 556 KVRDLVGKASGFVKDRRVELAQDVFNEIAKIDPENIEVTKMKLE 599
                              4566788999999*********************9555555433 PP

  == domain 3  score: 6.8 bits;  conditional E-value: 0.0063
                              HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHHHHH-S CS
          Alkyl_sulf_dimr  70 ekvlekakealkegdyrwaaellnhlvfadpenaeakelkadaleqlgyqae 121
                              + ++ kak+ ++ +d++ a e+ ++++  +p+nae  ++  ++ +ql+++a+
  PHY93_05865|PHY93_05865 680 APLIGKAKSLMEGQDLKGAYEVYQQILKIEPSNAESLNATGEIKDQLANKAR 731
                              567889***************************9999999999999988775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (777 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1652  (0.0921412); expected 358.6 (0.02)
Passed bias filter:                      500  (0.0278878); expected 358.6 (0.02)
Passed Vit filter:                        64  (0.00356964); expected 17.9 (0.001)
Passed Fwd filter:                        16  (0.000892409); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.80u 0.29s 00:00:01.09 Elapsed: 00:00:00.49
# Mc/sec: 4791.76
//
Query:       PHY93_13655|PHY93_13655  [L=436]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.5e-24   86.0   1.5    7.5e-24   84.4   0.2    2.2  2  Glycos_transf_2  Glycosyl transferase family 2
    1.4e-06   28.4   0.0    8.8e-06   25.8   0.0    2.0  1  Glyco_tranf_2_3  Glycosyltransferase like family 2
     0.0011   19.4   0.0     0.0028   18.1   0.0    1.7  1  Glyco_tranf_2_4  Glycosyl transferase family 2
     0.0072   16.0   0.0      0.038   13.7   0.0    2.1  1  Glyco_tranf_2_5  Glycosyltransferase like family
  ------ inclusion threshold ------
      0.022   14.3   0.0      0.038   13.5   0.0    1.4  1  Glyco_tranf_2_2  Glycosyltransferase like family 2


Domain annotation for each model (and alignments):
>> Glycos_transf_2  Glycosyl transferase family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   84.4   0.2   2.1e-27   7.5e-24       1     166 [.       5     159 ..       5     162 .. 0.89
   2 ?    0.1   0.1      0.17     6e+02      82     123 ..     326     368 ..     252     403 .. 0.74

  Alignments for each domain:
  == domain 1  score: 84.4 bits;  conditional E-value: 2.1e-27
                              EEEEEESS-TTTHHHHHHHHHHHGGCCEEEEEEEEES-SSCHHHHHGGGCHC-TTEEEEEESSS-HHHHHHHHHHHH--SSEEEEE CS
          Glycos_transf_2   1 svviptyNeektlletlesllaqdpypdfeiivvDDgStDetveileelakedprvrvirreenvGkagalnaglraatgdyilfl 86 
                              s+++ t Nee  ++ +l  l +q +y dfe+i+vD++StD+tvei++++    p   +i  + ++ +++aln g+ra++g++i++l
  PHY93_13655|PHY93_13655   5 SIIVRTKNEERWIAHCLSMLYQQ-DYTDFEVILVDNASTDHTVEIAKRY----PLAALINID-KFIPGKALNDGIRASSGKFIVCL 84 
                              8*****************99999.*************************....666666666.88********************* PP

                              ESSEEE-TT.HHHHHHHHHHH.TTCEEEEEEEEEECCCCCCCHC-SSEEEECCHCCCCHCCCCCCSTTCSTCCCEEEEHHH CS
          Glycos_transf_2  87 DaDdepdpd.wleklvealekdgadvvlgqrprifgetdeiernkrvgenerlyfkerkrslkgnlsfeigsaallrreal 166
                               a+++p+ + wl+ l++ +e+d++   l++++ ++    +   + +   +  l  + ++r+ +++  f++  +++lrre+ 
  PHY93_13655|PHY93_13655  85 SAHCVPKNKdWLSTLLRNFENDDK---LAGVYGRQLPLSFTDDTDK---RDLLIVFGQDRRVQYKDYFFHNANSMLRREMW 159
                              ******9888***********988...5555555555555555543...6799*************************975 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.17
                              EEEEEESSEEE-TT.HHHHHHHHHHH.TTCEEEEEEEEEECCC CS
          Glycos_transf_2  82 yilflDaDdepdpd.wleklvealekdgadvvlgqrprifget 123
                               +l+++ D ++ p+  + +l++ ++  g+d v+++   ++  +
  PHY93_13655|PHY93_13655 326 AVLYVNYDYIYRPEgLFDELIKNAQYKGYDTVFPGYTDYGHYW 368
                              6777777888888888888888888888888887776666555 PP

>> Glyco_tranf_2_3  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.8   0.0   2.5e-09   8.8e-06       4     212 ..       4     198 ..       2     211 .. 0.80

  Alignments for each domain:
  == domain 1  score: 25.8 bits;  conditional E-value: 2.5e-09
          Glyco_tranf_2_3   4 lavlVptfneedvlgevlesllaqeyprvevvvvvdesdaetlevaeelaaalpdvrvrvvvnarnlgstgksralnealravksd 89 
                              ++++V t nee+ +  +l +l  q+y ++ev++v++ s+++t+e a+    ++p +   + +n ++  + gk  aln+++ra +++
  PHY93_13655|PHY93_13655   4 VSIIVRTKNEERWIAHCLSMLYQQDYTDFEVILVDNASTDHTVEIAK----RYPLA--AL-INIDKFIP-GK--ALNDGIRASSGK 79 
                              89****************************************99665....79976..33.34333333.56..77********** PP

          Glyco_tranf_2_3  90 lvllvDdDtvv.ePdtlkrllqff.ltpkvgavgtpvfllnrstlvsalgalefaerhlrflaarralgvltlnGsgslirrevlk 173
                              +++ + + +v   +d l  ll+ f +++k + v+++++ l    +++ +++  + + + + +++++   +  ++ + s+ rre+++
  PHY93_13655|PHY93_13655  80 FIVCLSAHCVPkNKDWLSTLLRNFeNDDKLAGVYGRQLPLS---FTDDTDKRDLLIVFGQDRRVQYKDYF--FHNANSMLRREMWD 160
                              ***********99999********9999*****99987554...44444455555555555555555444..47899999999999 PP

          Glyco_tranf_2_3 174 elegldplflltdDyelglrlrragfrtayvpgaavrev 212
                               +  +d+     +D   g  + +ag++++y p aav + 
  PHY93_13655|PHY93_13655 161 KF-PFDEEVTNIEDRVWGKAVTMAGYHIVYDPNAAVFHH 198
                              99.777744455999999999999999999999998776 PP

>> Glyco_tranf_2_4  Glycosyl transferase family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.0   7.8e-07    0.0028       1      51 [.      11      63 ..      11     102 .. 0.79

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 7.8e-07
          Glyco_tranf_2_4  1 rneadiLpeflahhlalgfdr..ilvydndstDgtrailkelpevkllhvdks 51
                             +ne+  + ++l  +++ ++++  ++++dn stD t +i k++p + l+++dk 
  PHY93_13655|PHY93_13655 11 KNEERWIAHCLSMLYQQDYTDfeVILVDNASTDHTVEIAKRYPLAALINIDKF 63
                             79****************98544999****************99999988854 PP

>> Glyco_tranf_2_5  Glycosyltransferase like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.7   0.0   1.1e-05     0.038      43      95 ..      67     117 ..       5     156 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1.1e-05
          Glyco_tranf_2_5  43 eaynkalsasdakykvYlhqDvliinkdfikdlleiFkkdkkiGmiGvvGaks 95 
                              +a n++++as+ k+ v l    +  nkd++++ll+ F++d+k  + Gv G++ 
  PHY93_13655|PHY93_13655  67 KALNDGIRASSGKFIVCLSAHCVPKNKDWLSTLLRNFENDDK--LAGVYGRQL 117
                              689**********************************99888..578888765 PP

>> Glyco_tranf_2_2  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   1.1e-05     0.038       3      93 ..       5      89 ..       3     105 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 1.1e-05
          Glyco_tranf_2_2  3 viplraseerhyieerv..lqkakyydeeielivvddgSsekfleevssiidlnllvylkdeddkayslaaarNrGaskaesdlvlFl 88
                              i +r+++e+ +i   +  l ++ y   ++e+i+vd+ S+++++e  +    l  l+   d+    + +++a N G+  + + +++ l
  PHY93_13655|PHY93_13655  5 SIIVRTKNEERWIAHCLsmLYQQDY--TDFEVILVDNASTDHTVEIAKRY-PLAALIN-IDK----FIPGKALNDGIRASSGKFIVCL 84
                             57788888999****9976777777..89*************87655554.3444443.233....8899999999999999999888 PP

          Glyco_tranf_2_2 89 DaDcf 93
                              a c 
  PHY93_13655|PHY93_13655 85 SAHCV 89
                             88886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (436 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       390  (0.0217525); expected 358.6 (0.02)
Passed bias filter:                      348  (0.0194099); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.59u 0.27s 00:00:00.86 Elapsed: 00:00:00.47
# Mc/sec: 2790.67
//
Query:       PHY93_13660|PHY93_13660  [L=238]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.3e-22   80.0   0.1    2.9e-22   79.7   0.1    1.1  1  CTP_transf_3    Cytidylyltransferase
    8.1e-07   29.5   0.0    1.1e-06   29.1   0.0    1.1  1  NTP_transf_3    MobA-like NTP transferase domain
     0.0074   14.6   0.2     0.0087   14.4   0.2    1.1  1  Pox_VERT_large  Poxvirus early transcription factor (VETF), l


Domain annotation for each model (and alignments):
>> CTP_transf_3  Cytidylyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.7   0.1   4.9e-26   2.9e-22       2     130 ..       5     139 ..       4     159 .. 0.84

  Alignments for each domain:
  == domain 1  score: 79.7 bits;  conditional E-value: 4.9e-26
                              EEEEE-SSSSSSTTGGGSEETTEEHHHHHHHHHHHTTTTSEEEEEES-HHHHHHHHHTTSEE.EE--TTCSSHHHHHHHHHHHHTT CS
             CTP_transf_3   2 aIipARsgSkRlpgKnlldlggkpliayvleaalkskafekvivaTDseeiknvakefgasv.lvtrsslesdterflevvkaflm 86 
                              a+ +AR gSk +p Kn++++++ pliay++ +a+ sk++++ iv+TD+eei++va ++ga+  ++++++ ++dt++++ ++k    
  PHY93_13660|PHY93_13660   5 ALTLARGGSKSVPRKNIRPILDVPLIAYTIAEARLSKFITRYIVSTDDEEIRQVAIKYGAEApFLRPPEFSTDTASSVSAMKHAVQ 90 
                              6779*******************************************************887245566778888888888775544 PP

                              T.TTS......EEEEE-TT-TT--HHHHHHHHHHHHHSTTSSEEEEEEET CS
             CTP_transf_3  87 senee......iivnlqGdnPllqeevikkaietlkenqedylstlvkkv 130
                                +ee      ++++l  +nP+   e+i+++ie+l   +  +++  v k+
  PHY93_13660|PHY93_13660  91 WVEEEegvkydYVIELMCTNPMKTVEDIDAVIEKLIATKA-DSVIAVHKL 139
                              44444699**************************998865.555555555 PP

>> NTP_transf_3  MobA-like NTP transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.1   0.0   1.9e-10   1.1e-06      15     131 ..      18     145 ..       6     170 .. 0.84

  Alignments for each domain:
  == domain 1  score: 29.1 bits;  conditional E-value: 1.9e-10
                              THHHHCCCCCCHHHHHHHHHCTT..-CEEEEECSHCHHHHHHTTCT..S-EEE-TTSS-SHHHHHHHHHHHH.........SSSCE CS
             NTP_transf_3  15 dKallplggkpllervldalraag.vdevvvvggdeevlaalarlg..vrvvededpgkgplaslaaalraaa........dadav 89 
                               K   p+ + pl++++++ +r ++ + + +v+++dee+++ + ++g  +++++ ++ ++ +++s+ a  +a++        + d+v
  PHY93_13660|PHY93_13660  18 RKNIRPILDVPLIAYTIAEARLSKfITRYIVSTDDEEIRQVAIKYGaeAPFLRPPEFSTDTASSVSAMKHAVQwveeeegvKYDYV 103
                              5777889999*******999999846999999******99887777558899999998888887766554444444778888999* PP

                              EEEETT-TT--HHHHHHHHHCHHHHTSSEEEEESSSEEEECC CS
             NTP_transf_3  90 lvlacDmPlltpelverllaaaaasgadvvvptyegerghpl 131
                              + l+c  P+ t e ++++++++ a++ad v+++++ e +hp+
  PHY93_13660|PHY93_13660 104 IELMCTNPMKTVEDIDAVIEKLIATKADSVIAVHKLEDHHPI 145
                              ****************************************98 PP

>> Pox_VERT_large  Poxvirus early transcription factor (VETF), large subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.2   1.5e-06    0.0087     528     639 ..      85     209 ..      75     237 .. 0.72

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 1.5e-06
           Pox_VERT_large 528 vsdiisfvneekai...liaddivyfpk.kasdinkkvyiliqeivhevvlvkkkskkdkieveeleekklkelf....pkk.... 601
                              ++  +++v+ee+ +    + + +   p+ +++di+  +  li  +   v+ v+k +++  i+++++ ++k+ ++     p++    
  PHY93_13660|PHY93_13660  85 MKHAVQWVEEEEGVkydYVIELMCTNPMkTVEDIDAVIEKLIATKADSVIAVHKLEDHHPIRIKKIVDDKIVDFClpevPEMrrqd 170
                              5666777777766622234556667788678899999*****************************99999987522111110001 PP

           Pox_VERT_large 602 .tksseirsdnGlslttdgflvdGelfeeklsskyvafv 639
                               +  + irs +   lt d ++vdG++f ++ s  y+   
  PHY93_13660|PHY93_13660 171 lKPDAYIRSGSIYGLTRDHLMVDGRRFGSENSRPYILVP 209
                              12335678999999*************999777777554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (238 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       545  (0.0303977); expected 358.6 (0.02)
Passed bias filter:                      467  (0.0260472); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.53u 0.26s 00:00:00.79 Elapsed: 00:00:00.45
# Mc/sec: 1576.80
//
Query:       PHY93_13665|PHY93_13665  [L=320]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.9e-43  147.3   0.1    4.1e-43  146.8   0.1    1.2  1  2-Hacid_dh_C    D-isomer specific 2-hydroxyacid dehydrogenase
    7.9e-13   48.2   0.0    1.4e-12   47.5   0.0    1.5  1  2-Hacid_dh      D-isomer specific 2-hydroxyacid dehydrogenase
    1.8e-05   24.9   0.0    3.8e-05   23.9   0.0    1.5  1  NAD_binding_2   NAD binding domain of 6-phosphogluconate dehy
     0.0012   18.9   0.3     0.0031   17.6   0.1    1.8  2  AdoHcyase_NAD   S-adenosyl-L-homocysteine hydrolase, NAD bind
     0.0066   16.3   0.0      0.014   15.2   0.0    1.6  2  3HCDH_N         3-hydroxyacyl-CoA dehydrogenase, NAD binding 
  ------ inclusion threshold ------
      0.013   15.1   0.1       0.29   10.7   0.0    2.6  3  IlvN            Acetohydroxy acid isomeroreductase, NADPH-bin
       0.03   14.3   0.6         28    4.6   0.1    3.2  3  NAD_Gly3P_dh_N  NAD-dependent glycerol-3-phosphate dehydrogen


Domain annotation for each model (and alignments):
>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  146.8   0.1   1.6e-46   4.1e-43       2     178 .]     120     297 ..     119     297 .. 0.92

  Alignments for each domain:
  == domain 1  score: 146.8 bits;  conditional E-value: 1.6e-46
                              HHHHHHHTTHHHHHHHHHTTCCHTTCCGSBS-GTTSEEEEES-SHHHHHHHHHHHHTT-EEEEESSSHHHHHCHHHHTCEECSHHH CS
             2-Hacid_dh_C   2 alllallrrlaeadeevregewksekallgkelsgktvGiiGlGrIGqavakrlkafgmkviaydrskkkeeeeeelgvelvslee 87 
                              al ++ lr++ + +++  +gew + +++ g++++  t+G+iG+Gr+G+  a+++kafg +v++yd++kk ++   ++ ++++++++
  PHY93_13665|PHY93_13665 120 ALTMSSLRHVVKSHNNALKGEW-DYTKYIGRQMNCLTIGVIGYGRLGSMYAHYCKAFGSRVLIYDPYKKVKD---KELIQVDDIKN 201
                              7999******************.99******************************************88555...556799***** PP

                              HHHH-SEEEE-S--STTTTTSBSHHHHHCSTTTEEEEESS-GGGB-HHHHHHHHHTTSCCEEEES--SSS...SSGTCHHH....H CS
             2-Hacid_dh_C  88 llaesDivslhlpltpetrhlinaeelakmkkgailiNtaRGglvdeeaLleaLksgkiagaalDvfeee...plpedspl....l 166
                              ll++sD++ +h+ +t+et ++ina+ +++mk++++++N aRG++++e++L+e L ++  a +a+Dv++ e       +spl     
  PHY93_13665|PHY93_13665 202 LLQDSDVIAIHVHVTEETLGMINADFFKLMKDDVLIVNSARGDIINENDLVEFLSKNPKARIATDVLADEvrnR--LESPLlkyaQ 285
                              **********************************************************************5432..3468833334 PP

                              HSTTEEE-SS-T CS
             2-Hacid_dh_C 167 elpnviltPHia 178
                              ++ +vi+t Hi+
  PHY93_13665|PHY93_13665 286 SHGQVIVTQHIG 297
                              4777******97 PP

>> 2-Hacid_dh  D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.5   0.0   5.3e-16   1.4e-12      11     124 ..      20     319 ..       8     320 .] 0.91

  Alignments for each domain:
  == domain 1  score: 47.5 bits;  conditional E-value: 5.3e-16
                              HHHHHHHTTEEEEEESCSSHHHCHHHHTTESEEEE-TTS...-BSHHHHHHHTT--EEEESSSSCTTB-HHHHHHTT-EEEE-TT. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx. RF
               2-Hacid_dh  11 elellkeegvevevkdellteellekakdadalivrsnt...kvtaevlealpkLkviaragvGvDnvDldaakerGilVtnvpg. 92 
                                e+l++ +  v++ d+++ +e++  + ++da+ ++ n+    + +ev++a  +Lkvi++a++G++++D ++ +e+G+ +    + 
  PHY93_13665|PHY93_13665  20 VPEILEN-TGAVTYMDDPTLAEVVNVIGEYDAIYTNPNKskvYIGREVIDAGTNLKVICTASTGTNHIDKAYVAEKGLPILALTEe 104
                              3455555.449****************************98899*********************************999887762 PP

                              ..T..THHHHHHHH........................................................................ CS
                              ..x..xxxxxxxxx........................................................................ RF
               2-Hacid_dh  93 ..y..stesvAElt........................................................................ 102
                                +     s+AEl+                                                                        
  PHY93_13665|PHY93_13665 105 rdVieRISSTAELAfaltmsslrhvvkshnnalkgewdytkyigrqmncltigvigygrlgsmyahyckafgsrvliydpykkvkd 190
                              2221134699**************************************************************************** PP

                              ...................................................................................... CS
                              ...................................................................................... RF
               2-Hacid_dh 103 ...................................................................................... 102
                                                                                                                    
  PHY93_13665|PHY93_13665 191 keliqvddiknllqdsdviaihvhvteetlgminadffklmkddvlivnsargdiinendlveflsknpkariatdvladevrnrl 276
                              ************************************************************************************** PP

                              .....................T-BHHHHHHHHHHHHHHHHHHH CS
                              .....................xxxxxxxxxxxxxxxxxxxxxx RF
               2-Hacid_dh 103 .....................aaTeeaqeniaeeaaenlvafl 124
                                                   ++T+eaqe ++ +aa+ l +f+
  PHY93_13665|PHY93_13665 277 espllkyaqshgqvivtqhigGMTREAQEIAFGHAAKRLNNFF 319
                              *******************************999999998875 PP

>> NAD_binding_2  NAD binding domain of 6-phosphogluconate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.9   0.0   1.5e-08   3.8e-05       1     100 [.     155     251 ..     155     267 .. 0.85

  Alignments for each domain:
  == domain 1  score: 23.9 bits;  conditional E-value: 1.5e-08
                              EEEEE--SHHHHHHHHHHHHTT-EEEEE-SSHHHHHHHHHTTEEE-SSHHHHHHHCSEEEE-SSSHHHHHHHHHS.HCCC--TT-E CS
            NAD_binding_2   1 kigfiGlGvMGsnmalnllkagykvavynrtkekveelvaegakaaesieelvasldvvitmvkagkavdevieg.llealkkgdi 85 
                              +ig+iG G +Gs  a  +++ g +v +y+      +++ ++++  +++i++l+++ dv+ + v+ ++++  +i+   ++ +k + +
  PHY93_13665|PHY93_13665 155 TIGVIGYGRLGSMYAHYCKAFGSRVLIYDP----YKKVKDKELIQVDDIKNLLQDSDVIAIHVHVTEETLGMINAdFFKLMKDDVL 236
                              69***************************5....5788899999******************************977777777777 PP

                              EEE-S---HHHHHHH CS
            NAD_binding_2  86 lidgstsspedtrel 100
                              +++++  ++ + ++l
  PHY93_13665|PHY93_13665 237 IVNSARGDIINENDL 251
                              777766666655555 PP

>> AdoHcyase_NAD  S-adenosyl-L-homocysteine hydrolase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0       1.9   4.9e+03      92     121 ..      62      91 ..      29     110 .. 0.54
   2 !   17.6   0.1   1.2e-06    0.0031      26     118 ..     156     251 ..     148     279 .. 0.77

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 1.9
                              B-HHHHCCS-TTEEEEE-SSTTTTBTHHHH CS
            AdoHcyase_NAD  92 itlehlkkmkddaivcniGhfdseidvaal 121
                              i +e +++  +  ++c     ++ id a +
  PHY93_13665|PHY93_13665  62 IGREVIDAGTNLKVICTASTGTNHIDKAYV 91 
                              344444445555555555555555555444 PP

  == domain 2  score: 17.6 bits;  conditional E-value: 1.2e-06
                              EEEE--SHHHHHHHHHHHHCT-EEEEE-S-HHHHHHHHCTT-EE--HHHCTTT-SEE...EE-S.SSSSSB-HHHHCCS-TTEEEE CS
            AdoHcyase_NAD  26 avvaGyGdvGkGcaaslkglGarvivtevdPicalqaameGfevvtleevvkkadiv...vttt.Gnkdiitlehlkkmkddaivc 107
                              + v+GyG +G   a+  k++G+rv++   dP   ++   e  +v  ++++++++d++   v +t  +  +i+++ +k mkdd+++ 
  PHY93_13665|PHY93_13665 156 IGVIGYGRLGSMYAHYCKAFGSRVLIY--DPYKKVKD-KELIQVDDIKNLLQDSDVIaihVHVTeETLGMINADFFKLMKDDVLIV 238
                              5699*********************95..9*999986.58999999999999999873224444145689**************99 PP

                              E-..SSTTTTBTH CS
            AdoHcyase_NAD 108 ni..Ghfdseidv 118
                              n   G   +e d+
  PHY93_13665|PHY93_13665 239 NSarGDIINENDL 251
                              9622444455554 PP

>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0         3   7.6e+03      19      43 ..      92     116 ..      89     135 .. 0.60
   2 !   15.2   0.0   5.6e-06     0.014       1      48 [.     155     201 ..     155     239 .. 0.81

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 3
                              HHTT-EEEEE-S-HHHHHHHHHHHH CS
                  3HCDH_N  19 asagleVvlvdiseealekalekie 43 
                              a++gl++  +  +++ +e+  +++e
  PHY93_13665|PHY93_13665  92 AEKGLPILALTEERDVIERISSTAE 116
                              5566666666666655555554444 PP

  == domain 2  score: 15.2 bits;  conditional E-value: 5.6e-06
                              EEEEE--SCCHHHHHHHHHHTT-EEEEE-S-HHHHHHHHHHHHHHHHC CS
                  3HCDH_N   1 kvaviGaGtmGagiaavfasagleVvlvdiseealekalekiekslek 48 
                              +++viG G +G+  a+ + + g +V ++d  ++  +k l ++ + +++
  PHY93_13665|PHY93_13665 155 TIGVIGYGRLGSMYAHYCKAFGSRVLIYDPYKKVKDKELIQVDD-IKN 201
                              69****************************99999888877775.333 PP

>> IlvN  Acetohydroxy acid isomeroreductase, NADPH-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.0     0.087   2.2e+02     102     147 ..      65     110 ..      59     128 .. 0.67
   2 ?   10.7   0.0   0.00011      0.29       5      68 ..     154     213 ..     150     247 .. 0.84
   3 ?   -1.5   0.0      0.65   1.7e+03      56     102 ..     244     294 ..     224     308 .. 0.64

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.087
                              TSS---TTSEEEEEEESS-SHHHHHHHHTT----EEEEEE.E-SSS- CS
                     IlvN 102 glikppkdvdvvlvAPkgpGhlvreeyeegkGvpaliave.qdasgk 147
                              + i++ ++++v+  A  g  h + + y + kG+p l   e +d+ ++
  PHY93_13665|PHY93_13665  65 EVIDAGTNLKVICTASTGTNH-IDKAYVAEKGLPILALTEeRDVIER 110
                              567777888888888777655.7889********9865553455444 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 0.00011
                              S-EEEES-SHHHHHHHHHHHHTT--EEEEE-TT-HHHHHHHHTT-EEEEHHHHHHT-SEEEE-S CS
                     IlvN   5 kkiaviGyGsqGhaqalnlrdsgldvvvglregsksvkkAkeegfevltvaeavkkadvvmili 68 
                               +i viGyG  G   a+  +  g  v +    ++       +e ++v +++++ +++dv++i +
  PHY93_13665|PHY93_13665 154 LTIGVIGYGRLGSMYAHYCKAFGSRVLIYDPYKK----VKDKELIQVDDIKNLLQDSDVIAIHV 213
                              589***********************99654433....45678899*************99865 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 0.65
                              HHHHT-SEEEE-S..-H.HHHHHHHHHHTGGG--TT-EEEE..SSSHHHHTT CS
                     IlvN  56 eavkkadvvmili..PD.elqkevyeeeiepnlkegkalaf..ahGfnihfg 102
                              +++++ d+v +l   P  ++ ++v+ +e+++ l++   l++  +hG  i+ +
  PHY93_13665|PHY93_13665 244 DIINENDLVEFLSknPKaRIATDVLADEVRNRLESP-LLKYaqSHGQVIVTQ 294
                              566677777766522322456678888888888654.444411466666555 PP

>> NAD_Gly3P_dh_N  NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.0     0.034        88      40      94 ..      83     138 ..      65     146 .. 0.87
   2 ?    3.7   0.0     0.021        54       2      32 ..     156     186 ..     155     194 .. 0.87
   3 ?    4.6   0.1     0.011        28      54     114 ..     190     255 ..     185     275 .. 0.77

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.034
                              HHSSBTTTBTT----T.TEEEES-HHHHHTT--EEEE---HHHHHHHHHHHCCC-- CS
           NAD_Gly3P_dh_N  40 eehenvkyLpgiklpe.nlvattdlaealkgadiivlvvPsqalrevlkklkgllk 94 
                              ++h +++y+ +  lp  +l+ + d+ e ++    + ++++ + lr+v+k++++ lk
  PHY93_13665|PHY93_13665  83 TNHIDKAYVAEKGLPIlALTEERDVIERISSTAELAFALTMSSLRHVVKSHNNALK 138
                              78889999999999953899999*******9999***************9999886 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.021
                              EEEE--SHHHHHHHHHHHTTT--EEEE-S-H CS
           NAD_Gly3P_dh_N   2 iavlGaGswGtalAkvlaenghevrlwvree 32 
                              i+v+G G  G+  A  ++  g++v ++   +
  PHY93_13665|PHY93_13665 156 IGVIGYGRLGSMYAHYCKAFGSRVLIYDPYK 186
                              89**********************9987655 PP

  == domain 3  score: 4.6 bits;  conditional E-value: 0.011
                              -TTEEEES-HHHHHTT--EEEE-..--HHHHHHHHHHHCCC--TT-EEEE---SE...ET.TTEEH CS
           NAD_Gly3P_dh_N  54 penlvattdlaealkgadiivlv..vPsqalrevlkklkgllkkkailvsliKGi...eegtlkll 114
                              +++l  ++d+++ l+++d+i +   v+ ++l  + ++  +l+k+++ +v+ ++G    e++ +++l
  PHY93_13665|PHY93_13665 190 DKELIQVDDIKNLLQDSDVIAIHvhVTEETLGMINADFFKLMKDDVLIVNSARGDiinENDLVEFL 255
                              5789999***********987651267788889999999999999999999999434544445554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (320 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       665  (0.0370907); expected 358.6 (0.02)
Passed bias filter:                      545  (0.0303977); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.62u 0.26s 00:00:00.88 Elapsed: 00:00:00.49
# Mc/sec: 1978.87
//
Query:       PHY93_13670|PHY93_13670  [L=337]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.9e-24   86.3   0.0    3.4e-24   85.5   0.0    1.4  1  Methyltransf_23  Methyltransferase domain
      1e-09   39.0   0.1    2.8e-09   37.6   0.1    1.8  1  Methyltransf_12  Methyltransferase domain
    1.3e-08   34.7   0.0    3.2e-08   33.5   0.0    1.8  2  Methyltransf_31  Methyltransferase domain
    7.3e-08   33.0   0.0    1.7e-07   31.8   0.0    1.6  1  Methyltransf_11  Methyltransferase domain
    1.7e-06   27.6   0.0    2.5e-06   27.0   0.0    1.3  1  CMAS             Mycolic acid cyclopropane synthetase
    2.1e-05   25.1   0.1    7.1e-05   23.4   0.0    1.9  2  Methyltransf_25  Methyltransferase domain
     0.0004   20.0   0.0    0.00069   19.3   0.0    1.4  1  MetW             Methionine biosynthesis protein MetW
    0.00042   19.8   0.6     0.0013   18.1   0.0    2.1  3  TehB             Tellurite resistance protein TehB
     0.0061   16.1   0.0      0.011   15.3   0.0    1.5  1  MTS              Methyltransferase small domain
       0.01   14.8   0.0      0.017   14.0   0.0    1.4  1  Methyltransf_9   Protein of unknown function (DUF1698)


Domain annotation for each model (and alignments):
>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.5   0.0   1.9e-27   3.4e-24      20     163 ..     131     279 ..      94     280 .. 0.83

  Alignments for each domain:
  == domain 1  score: 85.5 bits;  conditional E-value: 1.9e-27
          Methyltransf_23  20 lraggrvLdiGcGtGillevlrengfsvtgvDlspeaveiae.kakkaqkdqfdeqeaaepqgkfdlIvlrevlehvpdppellrq 104
                               ++ +++Ld+GcG G l +v+ + g+++tg +ls++ ++  +  + ++  +++ e+ aa++++++d+I+ + vlehv +p + l  
  PHY93_13670|PHY93_13670 131 IPSTKKWLDVGCGIGDLVSVANDSGWDCTGLELSRHSIAFSKeIFNQNLVQSTLEDHAAKSNDRYDIISFIGVLEHVINPIKHLEI 216
                              456789****************************99888765422333333444568999************************** PP

          Methyltransf_23 105 iatllkpgGylllseplaslkedrllld....wlylvpag..rhisffsarslkelleeaGlevv 163
                               ++ll  +Gy+l+++p+a +   + + +    ++  ++++  +hi +fs +sl+++l   G+e v
  PHY93_13670|PHY93_13670 217 THELLGQDGYVLIQVPNALS--MSTFTQdifpNTVFRHMSpvEHIMLFSQTSLEKALTLTGFEPV 279
                              ****************9853..33344434448889999999********************976 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.6   0.1   1.6e-12   2.8e-09       1      98 [.     138     226 ..     138     227 .. 0.80

  Alignments for each domain:
  == domain 1  score: 37.6 bits;  conditional E-value: 1.6e-12
          Methyltransf_12   1 LeiGcGtGsllralleklpdieytgvDispsaiedakeklakrennnnnnvelealdlldldggssfDlvvasnvlhhlkdirevl 86 
                              L++GcG G+l+++  ++  +++ tg+++s+++i+  ke ++++           +l+++  ++++ +D++  ++vl+h+ ++ + l
  PHY93_13670|PHY93_13670 138 LDVGCGIGDLVSVANDS--GWDCTGLELSRHSIAFSKEIFNQNLV-------QSTLEDHAAKSNDRYDIISFIGVLEHVINPIKHL 214
                              8*************999..**************444444444443.......22223333333459******************** PP

          Methyltransf_12  87 dnirklLkpgGr 98 
                              +  ++lL ++G+
  PHY93_13670|PHY93_13670 215 EITHELLGQDGY 226
                              *********997 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.1         2   3.6e+03      68      81 ..     113     127 ..      84     128 .. 0.53
   2 !   33.5   0.0   1.8e-11   3.2e-08       3     114 ..     133     236 ..     131     314 .. 0.81

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 2
          Methyltransf_31  68 kl.ledekfDlilsn 81 
                               + +++ kfD++++n
  PHY93_13670|PHY93_13670 113 RDcVAKPKFDFVIDN 127
                              333444789998886 PP

  == domain 2  score: 33.5 bits;  conditional E-value: 1.8e-11
          Methyltransf_31   3 kglrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielArenaqklgldnveFeqgdiee.leklledekfDlilsnevlnal 87 
                              ++++ lD+GCG G+l+ ++++    + + +G++ s ++i +++e+  ++ +      q+  e+ + k  + +++D+i   +vl ++
  PHY93_13670|PHY93_13670 133 STKKWLDVGCGIGDLVSVANDS---GWDCTGLELSRHSIAFSKEIFNQNLV------QSTLEDhAAK--SNDRYDIISFIGVLEHV 207
                              56789***************55...56799**************9665555......4555554443..249************** PP

          Methyltransf_31  88 adpdkileeiervlkpggilliedpr..l 114
                               +p k le  +++l ++g++li+ p+   
  PHY93_13670|PHY93_13670 208 INPIKHLEITHELLGQDGYVLIQVPNalS 236
                              ************************99331 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.8   0.0   9.2e-11   1.7e-07       1      96 []     138     229 ..     138     229 .. 0.90

  Alignments for each domain:
  == domain 1  score: 31.8 bits;  conditional E-value: 9.2e-11
                              EEET-TTSHHHHHHHHTTSEEEEEES-HHHHHHHHHHCCHHT-EEEETTEECCCTSS-TT.-EEEEEEES-CCC-CCHHHHHHHHH CS
          Methyltransf_11   1 LdvGcGtGrlaealakrgarvvgvDlskemlklakekaseeglkvefvvadaeklpfedn.sfDlvvssevlhhvedpekalkeia 85 
                              LdvGcG G l+    + g +++g++ls   ++ +ke  +++      v++++e+   ++n  +D++    vl+hv +p k l+  +
  PHY93_13670|PHY93_13670 138 LDVGCGIGDLVSVANDSGWDCTGLELSRHSIAFSKEIFNQNL-----VQSTLEDHAAKSNdRYDIISFIGVLEHVINPIKHLEITH 218
                              8******************************88877666664.....99999998655543************************* PP

                              HHEEEEEEEEE CS
          Methyltransf_11  86 RvLkpgGllvi 96 
                               +L ++G+++i
  PHY93_13670|PHY93_13670 219 ELLGQDGYVLI 229
                              *******9875 PP

>> CMAS  Mycolic acid cyclopropane synthetase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.0   0.0   1.4e-09   2.5e-06      47     202 ..     117     257 ..      85     329 .. 0.70

  Alignments for each domain:
  == domain 1  score: 27.0 bits;  conditional E-value: 1.4e-09
                              HHHHHHHHHTTT.T--TT-EEEEES-TTSHHHHHHHHHH--EEEEEES-HHHHHHHHHHHHTS-SSS-EEEEES-GG.G-----SE CS
                     CMAS  47 qlaKldlilekl.elkpGmtlLdiGcGWGslvrraverydvkvvglTlSkeqaklakkrvdeldlerkvevklldye.dldekvdr 130
                               + K+d +++ + ++   ++ Ld+GcG G lv  a +  + +  gl lS+   + +k+ +++      v+ +l d+    ++++d 
  PHY93_13670|PHY93_13670 117 AKPKFDFVIDNIsGIPSTKKWLDVGCGIGDLVSVANDS-GWDCTGLELSRHSIAFSKEIFNQNL----VQSTLEDHAaKSNDRYDI 197
                              456788888876246777899***********999988.*****************99998766....45555665514566**** PP

                              EEEES-GGGTSGGGHHHHHHHHHHHS-TT-EEEEEEEEE--HHHHHCTTCCCHHHHHHTSTTS---BHHHHH CS
                     CMAS 131 vvsvgafehvgkenydtffkklkkllkedGllllhtitslhkkelaerglklkfidkeiFPgGelpsieeie 202
                              ++ +g++ehv   n  ++ + +++ll +dG +l++   +l+ ++ +          ++iFP+    +++ +e
  PHY93_13670|PHY93_13670 198 ISFIGVLEHVI--NPIKHLEITHELLGQDGYVLIQVPNALSMSTFT----------QDIFPNTVFRHMSPVE 257
                              *********96..5578999*************9865544433332..........4566665555555555 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0       3.6   6.5e+03      38      42 ..      93      97 ..      59     131 .. 0.54
   2 !   23.4   0.0     4e-08   7.1e-05       2      91 ..     138     219 ..     138     225 .. 0.80

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 3.6
                             HHHHH CS
          Methyltransf_25 38 rerae 42
                              e+a 
  PHY93_13670|PHY93_13670 93 TENAT 97
                             33332 PP

  == domain 2  score: 23.4 bits;  conditional E-value: 4e-08
                              EEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTTTEEEEESBCCGBS.SSTTTEEEEEEESTGGGSSHHHHHHHH CS
          Methyltransf_25   2 LdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeeglnvefvqgdaedlp.fedgsfDlvvssgalhhlsdedlekal 86 
                              Ld+GcG G+l+  + + +   + tg+++s   ++  +e +     n ++vq  +ed     ++++D++  +g+l+h+ ++   k l
  PHY93_13670|PHY93_13670 138 LDVGCGIGDLVSVANDSG--WDCTGLELSRHSIAFSKEIF-----NQNLVQSTLEDHAaKSNDRYDIISFIGVLEHVINPI--KHL 214
                              8*********99999995..****************9999.....788999999996525777*******99999965433..344 PP

                              HHHHH CS
          Methyltransf_25  87 keiar 91 
                              +  ++
  PHY93_13670|PHY93_13670 215 EITHE 219
                              44444 PP

>> MetW  Methionine biosynthesis protein MetW
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.3   0.0   3.9e-07   0.00069      11      95 ..     131     214 ..     120     236 .. 0.67

  Alignments for each domain:
  == domain 1  score: 19.3 bits;  conditional E-value: 3.9e-07
                     MetW  11 ikpgsrvldlGcGdGellellkeekqvdgrGleldeegvaecvakGl.sviqgdldkdlenfedksfdyvvlsqtlqatrnpkevl 95 
                              i++  + ld+GcG G+l+++ ++  + d  Glel+++++a + +    +++q  l+ d +  +++++d++ +   l  + np + l
  PHY93_13670|PHY93_13670 131 IPSTKKWLDVGCGIGDLVSVAND-SGWDCTGLELSRHSIAFSKEIFNqNLVQSTLE-DHAAKSNDRYDIISFIGVLEHVINPIKHL 214
                              7888999************9855.9*************986544322133444443.33334455678777777777777775433 PP

>> TehB  Tellurite resistance protein TehB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0       1.6   2.9e+03      26      54 ..      41      67 ..      26      96 .. 0.69
   2 !   18.1   0.0   7.4e-07    0.0013      28     105 ..     131     204 ..     103     248 .. 0.79
   3 ?   -1.8   0.0      0.97   1.7e+03      74     109 ..     289     325 ..     270     333 .. 0.57

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 1.6
                             CCCS-S-EEEEES-TTSHHHHHHHHTT-E CS
                     TehB 26 vkivkpgkvldlgcgqgrnslylsllgyd 54
                              kiv   k+  + c + + s + ++ g++
  PHY93_13670|PHY93_13670 41 GKIVTQPKC--FICNSTKSSHFSNVYGFE 67
                             455555554..357777888888888876 PP

  == domain 2  score: 18.1 bits;  conditional E-value: 7.4e-07
                              CS-S-EEEEES-TTSHHHHHHHHTT-EEEEEES-HHHHHHHHHHHHHTT-TTEEEEE--GGG----S-EEEEEEESSG CS
                     TehB  28 ivkpgkvldlgcgqgrnslylsllgydvtawdknensiafleeikekenlknistalydineaklderydfilstvvl 105
                              i +  k ld+gcg g      +  g+d t ++   +siaf +ei +++ ++    ++++  +ak ++ryd+i    vl
  PHY93_13670|PHY93_13670 131 IPSTKKWLDVGCGIGDLVSVANDSGWDCTGLELSRHSIAFSKEIFNQNLVQ----STLEDHAAKSNDRYDIISFIGVL 204
                              3356689*********9999********************99998865444....5556678899999**88655554 PP

  == domain 3  score: -1.8 bits;  conditional E-value: 0.97
                              HTT-TTEEE.EE--GGG----S-EEEEEEESSGGGS- CS
                     TehB  74 kenlknist.alydineaklderydfilstvvlmfle 109
                               e l++i+  +  +i ++k+++ +  ++s + l+f +
  PHY93_13670|PHY93_13670 289 YEILNQITLlSKEEIHNTKFNNAWMKLMSEIQLVFDN 325
                              3444444431334566666666666666666666655 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   6.3e-06     0.011      30     101 ..     131     198 ..      91     201 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 6.3e-06
                              C.TCSEEEEET-TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHTTGCEEEEE-STTTTSTTS-EEEE CS
                      MTS  30 e.lsgkvlDlGcGaGvlgaalakespeaevtlvdvdarAlesakenleanklevevvasdvleeveekkfdli 101
                                 ++k lD+GcG+G l  ++ +   +   t ++ + ++++++ke +++n ++   + +d  ++ + +++d+i
  PHY93_13670|PHY93_13670 131 IpSTKKWLDVGCGIGDLVSVANDSGWD--CTGLELSRHSIAFSKEIFNQNLVQ--STLEDHAAKSN-DRYDII 198
                              4457789**********8887776655..9******************99974..45555555555.667766 PP

>> Methyltransf_9  Protein of unknown function (DUF1698)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.0   0.0   9.6e-06     0.017     103     261 ..     120     277 ..     108     300 .. 0.71

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 9.6e-06
                              HHHHHGGGS.--.TT-EEEEET-TTSHHHHHHHHCT-SEEEEE---HHHHHHHHHHHCCTTTTSSEEEE---GGGS-T---EEEEE CS
           Methyltransf_9 103 kWdrvlphlsdl.kgrtildvGcgnGyhlwrmvgegaklvvGidPselfliqfeavrkllgedqrahllplgieqlpeleafdtvf 187
                              k+d v   +s +   ++ ldvGcg G  l  ++ +    + G++ s+ + i f   +++ +++  + +l       ++ + +d++ 
  PHY93_13670|PHY93_13670 120 KFDFVIDNISGIpSTKKWLDVGCGIGD-LVSVANDSGWDCTGLELSR-HSIAFS--KEIFNQNLVQSTL--EDHAAKSNDRYDIIS 199
                              677777777777346889999999996.4556666677788888765.555554..5666555444444..3334455899***** PP

                              EES-GGG-S-HHHHHHHHHCTEEEEEEEEEEE...E-BSS-TT-EE--SS-BTTBSS-..--EEBHHHHHHHHHHTT-E CS
           Methyltransf_9 188 smGvlyhrrsPldhllqlkdqlvkgGelvlet...lvieGdenavlvPedryakmrnv..yfiPsaaalkvWlekvgfv 261
                               +Gvl h   P+ hl   ++ l ++G ++++    l +    ++ ++P+  + +m  v   ++ s ++l++ l  +gf 
  PHY93_13670|PHY93_13670 200 FIGVLEHVINPIKHLEITHELLGQDGYVLIQVpnaLSM-STFTQDIFPNTVFRHMSPVehIMLFSQTSLEKALTLTGFE 277
                              **************************988764110333.3445556777777777766222345667777777777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (337 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       863  (0.0481343); expected 358.6 (0.02)
Passed bias filter:                      518  (0.0288917); expected 358.6 (0.02)
Passed Vit filter:                        57  (0.00317921); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.59u 0.26s 00:00:00.85 Elapsed: 00:00:00.46
# Mc/sec: 2212.59
//
Query:       PHY93_13675|PHY93_13675  [L=354]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    7.3e-11   42.1   0.1    1.3e-10   41.4   0.1    1.3  1  Peptidase_M24   Metallopeptidase family M24
    3.8e-09   37.3   0.0    3.1e-08   34.3   0.0    2.2  2  Creatinase_N    Creatinase/Prolidase N-terminal domain
  ------ inclusion threshold ------
      0.082   13.0   0.1       0.14   12.3   0.1    1.5  1  Creatinase_N_2  Creatinase/Prolidase N-terminal domain


Domain annotation for each model (and alignments):
>> Peptidase_M24  Metallopeptidase family M24
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.4   0.1   2.1e-14   1.3e-10       3     208 ..     135     327 ..     134     328 .. 0.78

  Alignments for each domain:
  == domain 1  score: 41.4 bits;  conditional E-value: 2.1e-14
                              HHHHHHHHHHHHHHHHHHHHTTCBHHHHHHHHHHHHHHHTTTCEESSSSEEEEGGGGGSTTT.BC..SSSB--TTEEEEEEEEEEE CS
            Peptidase_M24   3 irkaariasaaleavleaikpgvterelaaeieattlkrhgarglafppivasgenaavlhy.tp..ndrvlkegdlvlidagaey 85 
                              +r+ ++++ +al+a++ +++ g+te e+a ++ ++ + +++   +     +a+ e+     y +p  +++++++    ++ +  + 
  PHY93_13675|PHY93_13675 135 YRELGAATGRALQAAAGNVRVGMTEWEIAGLVANH-CYANN-IRPI-VNLIAVDERV--FKYgHPlpTEKKMER--YAMLVLCTRK 213
                              7999*****************************99.54433.3333.3345555543..344355326666644..4555556666 PP

                              TTEEEEEEEEEECSSGSHHHHHHHHHHHHHHHHHHHC-STTSBHHHHHHHHHHHHHHTTBCCGBSSCSEEEESS.SSSEEEEEESS CS
            Peptidase_M24  86 dgyasDitrTvlvGkftpeqrelyeavleaqeaaikavkpGvtlseidaaarevlesaglakffphglGHgvGl.evhdegpsvsr 170
                               g ++  tr +++G+  ++ ++ ++ + ++  ++i a ++G+tls+i ++a++  +++g+ k+    + H  Gl  +     ++++
  PHY93_13675|PHY93_13675 214 FGLIASATRLIHFGSIPDALQRKMNSCARIDTEMIHATREGTTLSDIFNVAQKNYKKEGF-KD-EWKIHHQGGLtGFQTR-EILAT 296
                              7*************88888888**************************************.44.5677777777566654.55664 PP

                              STTCSSB--TTBEEEEEEEEEEETTTEEEEEBEEEEEE CS
            Peptidase_M24 171 esndgrkleeGmvftiEpgiyfapgeggvriedtvlvt 208
                               + +++ +  ++ f+  p i       g + edt+l+t
  PHY93_13675|PHY93_13675 297 -QETKHSISLNQAFAWNPSIK------GTKSEDTILLT 327
                              .5679999********99776......88999999988 PP

>> Creatinase_N  Creatinase/Prolidase N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.3   0.0   5.2e-12   3.1e-08       2      86 ..       8      97 ..       7     107 .. 0.84
   2 ?   -0.2   0.0      0.24   1.4e+03     111     132 .]     105     126 ..      99     126 .. 0.86

  Alignments for each domain:
  == domain 1  score: 34.3 bits;  conditional E-value: 5.2e-12
                             HHHHHHHHHHTT-SEEEEECCHHHHHHHSS.........-SSSEEEEEEESSCEEEEEECTTHHHHHHHH....TTSEEEEESTHSSH CS
             Creatinase_N  2 lerlralmeekgldallvtspenlrYltGfa......tetgsrglalvvtadgalllvdalryteaaees...atveevveyddpvea 80
                             l+++r+lm++++++ ll+ +++n+ +lt+ a      ++ g +g++l +t++++++l++  ++++ ++e+    + + + +++d    
  PHY93_13675|PHY93_13675  8 LNSVRKLMQDNDIETLLIQRSSNFAWLTNGAespvsiATDGGSGAIL-ITKENEYILTNNIEAERWQKEQrleDWEFVISSWED---G 91
                             789*************************9999****99999999999.**********************76555555566655...4 PP

                             HHHHHH CS
             Creatinase_N 81 ladllk 86
                             + + +k
  PHY93_13675|PHY93_13675 92 WSSSVK 97
                             444444 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.24
                              HHHCTTSEEEETHHHHHHHHSC CS
             Creatinase_N 111 kealpdaelvdaselieelRvv 132
                               + lp  e +d+s+ i+ lR +
  PHY93_13675|PHY93_13675 105 HSDLPFLEAIDISAKINSLRYI 126
                              56789999************76 PP

>> Creatinase_N_2  Creatinase/Prolidase N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.1   2.3e-05      0.14      22      54 ..       4      36 ..       2     130 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 2.3e-05
                             HHHHHHHHHHHHHHTT-SEEEE-SHHHHHHHTT CS
           Creatinase_N_2 22 vaeKlerlrkelkkkkadalvlsaldeiAWllN 54
                             ++ Kl+++rk +++++ + l++    + AWl+N
  PHY93_13675|PHY93_13675  4 SSTKLNSVRKLMQDNDIETLLIQRSSNFAWLTN 36
                             679***********9*****************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (354 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       391  (0.0218082); expected 358.6 (0.02)
Passed bias filter:                      331  (0.0184617); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.26s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 2303.47
//
Query:       PHY93_13680|PHY93_13680  [L=528]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.4e-27   95.0   0.0    8.5e-27   94.3   0.0    1.3  1  ABC_tran      ABC transporter
    8.5e-06   25.6  18.3    2.2e-05   24.3  17.8    2.0  1  ABC_membrane  ABC transporter transmembrane region
  ------ inclusion threshold ------
      0.012   15.6   0.0      0.022   14.7   0.0    1.4  1  RsgA_GTPase   RsgA GTPase
      0.044   12.8   0.0      0.067   12.2   0.0    1.2  1  T2SSE         Type II/IV secretion system protein
        0.1   12.5   0.1       0.19   11.6   0.1    1.4  1  NACHT         NACHT domain
        0.1   12.6   0.0       0.24   11.4   0.0    1.6  1  AAA_5         AAA domain (dynein-related subfamily)


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   94.3   0.0   2.8e-30   8.5e-27       2     137 .]     374     520 ..     373     520 .. 0.94

  Alignments for each domain:
  == domain 1  score: 94.3 bits;  conditional E-value: 2.8e-30
                              EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH......HH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......xx RF
                 ABC_tran   2 knvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren......es 81 
                              +nvslk + g+ +++ G++G GK+tL++l+agl+ p +Ge+l+  +d ++ e +++r++ig+++q+  lf+++ +r+n      +s
  PHY93_13680|PHY93_13680 374 NNVSLKAEIGRPLVLSGRSGKGKTTLANLIAGLYFPIKGEVLYVTEDNSKLESQFYRAHIGFVTQDIYLFKGT-LRTNlvstlkYS 458
                              89******************************************9999999**********************.9999******99 PP

                              HTCHHHHHHHSTTGG......TTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              xxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  82 deeiekalsklglke......lkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                              de+i  +l++++ +e        dt   + ++sLSgGq++r+ +ar+ll+  ++l++DE ta
  PHY93_13680|PHY93_13680 459 DEKIWSVLEQVDAHEfvramgGLDTESAEAGRSLSGGQRRRLGIARVLLSGCEILIFDEVTA 520
                              9999999999999998988884555555888****************************996 PP

>> ABC_membrane  ABC transporter transmembrane region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.3  17.8   7.4e-09   2.2e-05      37     193 ..      64     235 ..      25     288 .. 0.85

  Alignments for each domain:
  == domain 1  score: 24.3 bits;  conditional E-value: 7.4e-09
                              H................HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSTHHHHHHSCHHHHHHHHHH CS
             ABC_membrane  37 t................ealnvysllllllglaqfilallqsyllnvtgerlskrlrrklfkkilrqpmsffdtnsvGellsrltn 106
                              +                 ++  +  +l++l+l+++i+ +l s +  ++  +l+++++ ++fk+ l  + s+  + +vG+ +   t 
  PHY93_13680|PHY93_13680  64 SglflyldkmikwigvdPQIPGIVPFLIFLFLINLIIKFLISVFDGYLTANLRRKMQESVFKHFLFGDWSYMRNFRVGDAVGTNTQ 149
                              2456666666666666677888889999********************************************************** PP

                              HHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHH CS
             ABC_membrane 107 dvsklrdglgeklglffqslltfvgglivmfylgwkltlvllailpliilvsaviakilkklkkkeqkavakassvaeEslsgirt 192
                              ++ +++  l++ ++  + ++lt v++l+++++ + k+t+vl +i++ ++++++ + ++  +++kk    ++++s  +++ ++g+  
  PHY93_13680|PHY93_13680 150 EAMTVSKYLTSGVS-AIYYILTGVSTLAMALWASFKITVVLGVIALPLMFLMKKMFSLQARYSKKSALLRNEFSGDITDRFNGLLQ 234
                              **********9987.5789***************************************************************9866 PP

                              H CS
             ABC_membrane 193 V 193
                              V
  PHY93_13680|PHY93_13680 235 V 235
                              6 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.0   7.3e-06     0.022      66     121 ..     349     405 ..     337     423 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 7.3e-06
                              HHHHHHHHHTTSEEEE--TTTHTTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCT CS
              RsgA_GTPase  66 eelkeelealgyevllvsaktkegleelkellkd.ktsvlvGqSGvGKStLinallp 121
                              + +k+++++++++ +  + k+++ +++++ + +  +  vl G SG GK+tL n +++
  PHY93_13680|PHY93_13680 349 KLIKQHVKSVELNNVNYDYKNNNVINNVSLKAEIgRPLVLSGRSGKGKTTLANLIAG 405
                              56788888888888999999999999888777766999***************9976 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   2.2e-05     0.067      75     167 ..     324     422 ..     310     449 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 2.2e-05
                    T2SSE  75 ekgvrlrvvllPvvag...ealviR...kksakeltlddlgaeealkekiaevlrkavrerglilvsGgTgsGKttllyallke.i 153
                              ++  rl ++l Pv+ +   +++  R   k+++k+++l+++ ++ ++++ i++v  ka +    +++sG  g GKttl++ +    +
  PHY93_13680|PHY93_13680 324 GNLSRLSGSLYPVIDAlsvPSIPERkliKQHVKSVELNNVNYDYKNNNVINNVSLKA-EIGRPLVLSGRSGKGKTTLANLIAGLyF 408
                              4667888888888888634445556888999999*************9999997777.67778999************98876514 PP

                    T2SSE 154 nksderivtvEDpv 167
                              + + e + + ED  
  PHY93_13680|PHY93_13680 409 PIKGEVLYVTEDNS 422
                              44456666667765 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.1   6.5e-05      0.19       1      21 [.     384     404 ..     384     407 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 6.5e-05
                              SCEEEEC-TTTCHHHHHHHHH CS
                    NACHT   1 rlvilqGeaGsGKTtLlqkla 21 
                              r+++l G++G+GKTtL+  +a
  PHY93_13680|PHY93_13680 384 RPLVLSGRSGKGKTTLANLIA 404
                              6899************98876 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0     8e-05      0.24       2      31 ..     386     418 ..     385     434 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 8e-05
                              EEEE--SSSSHHHHHHHGGGGB...S--EEEEE CS
                    AAA_5   2 vlLvGppGtgKselaerlaaal...nreveyvq 31 
                              ++L G +G gK++la  +a ++   + ev+yv 
  PHY93_13680|PHY93_13680 386 LVLSGRSGKGKTTLANLIAGLYfpiKGEVLYVT 418
                              89*******************998888888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (528 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1068  (0.0595683); expected 358.6 (0.02)
Passed bias filter:                      524  (0.0292264); expected 358.6 (0.02)
Passed Vit filter:                        85  (0.00474092); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.70u 0.31s 00:00:01.01 Elapsed: 00:00:00.48
# Mc/sec: 3334.19
//
Query:       PHY93_13685|PHY93_13685  [L=135]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.9e-26   91.4  10.3    5.4e-26   91.3  10.3    1.0  1  DUF1761   Protein of unknown function (DUF1761)
  ------ inclusion threshold ------
      0.018   14.1   0.3      0.033   13.2   0.1    1.4  1  DUF2434   Protein of unknown function (DUF2434)


Domain annotation for each model (and alignments):
>> DUF1761  Protein of unknown function (DUF1761)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   91.3  10.3   6.1e-30   5.4e-26       1     124 [.       7     133 ..       7     134 .. 0.97

  Alignments for each domain:
  == domain 1  score: 91.3 bits;  conditional E-value: 6.1e-30
                  DUF1761   1 lavllaalaafvvGflwYgpvFgkaWmkergmteekakeaenk...alamglslvlslliayvlaallaalgartfkagallglll 83 
                              +av++ +l++ v+G+lwY+++Fgk Wm+ +++t +++k++e +    l +++s+v+ +l+a++l+ +++  ga+t ++g+ +g+l 
  PHY93_13685|PHY93_13685   7 YAVVTCTLLYIVLGALWYTVIFGKSWMSLMEITLAQLKTTEVQeraKLGVVTSVVCYFLMALTLSCFIRYGGAKTATDGLEIGMLC 92 
                              59***********************************998777998999************************************* PP

                  DUF1761  84 glgfiapaiisnalfekkslklvlIdagywlvtllvmgvil 124
                              ++gf++++++ n+lf+kks+ l +I+ gy lv++ +mg+il
  PHY93_13685|PHY93_13685  93 WFGFTFTTMLPNHLFSKKSISLAIINLGYPLVGMSLMGMIL 133
                              ****************************************8 PP

>> DUF2434  Protein of unknown function (DUF2434)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.1   3.7e-06     0.033      39      73 ..      45      79 ..      34      85 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 3.7e-06
                  DUF2434 39 iksigtrgkvGiafavlfalaivltlvnLrkhgkl 73
                             + ++++r+k+G++++v++ +++ ltl +  ++g  
  PHY93_13685|PHY93_13685 45 TTEVQERAKLGVVTSVVCYFLMALTLSCFIRYGGA 79
                             56899**************************9965 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (135 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       647  (0.0360868); expected 358.6 (0.02)
Passed bias filter:                      259  (0.0144459); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.44
# Mc/sec: 929.65
//
Query:       PHY93_13690|PHY93_13690  [L=172]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.6e-14   52.7   2.3    6.4e-07   29.5   0.2    2.1  2  LigT_PEase       LigT like Phosphoesterase
    3.6e-11   43.2   0.2    4.2e-11   43.0   0.2    1.1  1  2_5_RNA_ligase2  2'-5' RNA ligase superfamily


Domain annotation for each model (and alignments):
>> LigT_PEase  LigT like Phosphoesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.5   0.2   7.1e-11   6.4e-07       1      78 [.       7      78 ..       7      83 .. 0.87
   2 !   23.3   0.1   5.8e-09   5.2e-05       6      81 ..      87     157 ..      82     161 .. 0.82

  Alignments for each domain:
  == domain 1  score: 29.5 bits;  conditional E-value: 7.1e-11
                             EE-CHHHHHHHHHHHHHHHHHHCCTTEEETSGGGSEEEEEEEEEESHHHHHHHHHHHHHHHHTSBEEEEEEEEEEEEE CS
               LigT_PEase  1 lgppeeiaeelarlaaeleralaklglkpvrpfnpHiTLaflgevdeekvpellealaeiasgaepfelkvdgvglfp 78
                             +++p+e+++++ r+ + ++         ++ p+++H TL flge++ee+++ ++++la +   +++fel+   +  f 
  PHY93_13690|PHY93_13690  7 IEIPDELKQKIFRFLKPIQ----ITSKGWEAPQDYHQTLLFLGETSEEELSIIKQRLALF--VFHSFELQTATFEFFN 78
                             6789999999999999999....334459*****************************99..6779****99999884 PP

  == domain 2  score: 23.3 bits;  conditional E-value: 5.8e-09
                              HHHHHHHHHHHHHHHHHCCTTEEET.SGGGSEEEEEEEEEESHHHHHHHHHHHHHHHHTSBEEEEEEEEEEEEEECC CS
               LigT_PEase   6 eiaeelarlaaeleralaklglkpv.rpfnpHiTLaflgevdeekvpellealaeiasgaepfelkvdgvglfpsrl 81 
                              e+++el ++++e+++ +    l+p  + f+pH+T+++   ++ + ++e ++a       ++p ++kv++++lf+s++
  PHY93_13690|PHY93_13690  87 EPSNELLEFKKEIDHTF-PEWLRPNeKVFTPHLTVKRWQRYEYDYLAEGIKAR-----VFPPNKFKVSELVLFKSEK 157
                              456799********555.56788888***************977777776555.....367777**********986 PP

>> 2_5_RNA_ligase2  2'-5' RNA ligase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.0   0.2   4.7e-15   4.2e-11      26     151 ..      37     158 ..       9     159 .. 0.87

  Alignments for each domain:
  == domain 1  score: 43.0 bits;  conditional E-value: 4.7e-15
          2_5_RNA_ligase2  26 pHitLlypfvededl.adlaellsrlaketepfevrldgfgvFehkksvvylsvsdsealqalraallealpeagdkedsgeftPH 110
                               H tLl++++++e   + ++++l+  +  +  fe+++  f +F    ++++ls ++s++l ++ +++   +pe+    + + ftPH
  PHY93_13690|PHY93_13690  37 YHQTLLFLGETSEEElSIIKQRLALFV--FHSFELQTATFEFF--NRRILFLSFEPSNELLEFKKEIDHTFPEWLRPNE-KVFTPH 117
                              79*******999988566777777777..999***********..779**************************65543.****** PP

          2_5_RNA_ligase2 111 lTiaqsadstsaaellekl.aqalpplefevdevallrrdgg 151
                              lT+ +++ +++++ l e + a+  pp +f+v+e+ l + +++
  PHY93_13690|PHY93_13690 118 LTVKRWQ-RYEYDYLAEGIkARVFPPNKFKVSELVLFKSEKD 158
                              *******.9999*******999999999********998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (172 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       332  (0.0185175); expected 358.6 (0.02)
Passed bias filter:                      243  (0.0135535); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.23s 00:00:00.72 Elapsed: 00:00:00.45
# Mc/sec: 1156.46
//
Query:       PHY93_13695|PHY93_13695  [L=164]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.2e-08   35.2   0.9    2.8e-08   34.0   0.0    2.0  2  GFA       Glutathione-dependent formaldehyde-activating enzym


Domain annotation for each model (and alignments):
>> GFA  Glutathione-dependent formaldehyde-activating enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.2      0.18   3.2e+03       3       7 ..      11      15 ..       9      23 .. 0.79
   2 !   34.0   0.0   1.6e-12   2.8e-08       2      86 ..      30     123 ..      29     130 .. 0.73

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.18
                      GFA  3 ChCsd 7 
                             ChC++
  PHY93_13695|PHY93_13695 11 CHCQA 15
                             99975 PP

  == domain 2  score: 34.0 bits;  conditional E-value: 1.6e-12
                      GFA   2 lChCsdCrkasgs.aftanavvkaealelleg..elkeykkt.......adsgnkvtrsfCpeCgsplyseesaapevvivrvGtl 77 
                              lC+Cs Crk++g+ +f+ n+  ka+ l  ++g  +lk y+ +        + +++++r+fC  Cgs+l+  + + pe+++  +  +
  PHY93_13695|PHY93_13695  30 LCYCSVCRKTQGGgGFAINISGKANTLV-VSGkkNLKIYRAKiknpedkRKWQSTAERNFCGLCGSALWLFSPEWPELIHPFASAI 114
                              7********9976267888888888887.66669888887764332111344678899***********98888888888888888 PP

                      GFA  78 ddpeklkpe 86 
                              d+p  + pe
  PHY93_13695|PHY93_13695 115 DTPLPIPPE 123
                              887666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (164 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       702  (0.0391544); expected 358.6 (0.02)
Passed bias filter:                      470  (0.0262145); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.26s 00:00:00.75 Elapsed: 00:00:00.46
# Mc/sec: 1074.79
//
Query:       PHY93_13700|PHY93_13700  [L=348]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.2e-38  131.0  41.7      7e-38  130.6  41.7    1.1  1  AI-2E_transport  AI-2E family transporter
  ------ inclusion threshold ------
        1.4    9.3   4.7        2.2    8.6   1.7    2.6  2  DUF5383          Family of unknown function (DUF5383)


Domain annotation for each model (and alignments):
>> AI-2E_transport  AI-2E family transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  130.6  41.7   7.8e-42     7e-38       5     318 ..      27     330 ..      24     335 .. 0.90

  Alignments for each domain:
  == domain 1  score: 130.6 bits;  conditional E-value: 7.8e-42
          AI-2E_transport   5 lvllllllalypfiselllplliAlvlayllnpvvkfLkkrgvkrvlavllvlllllvllvllvlllvplliaqltqlvkslpayi 90 
                              l+++l+++++++ +s  +l+l+i++ +a+ l   +kfL k+g +  +a + +l+l ++l+ ++v++++p +++q+ ++++ ++++ 
  PHY93_13700|PHY93_13700  27 LFFALIIALFIFQLSYHFLLLFISINIAMTLSSAKKFLIKKGWREKIALTTILILYISLMLFIVIFIIPHVVSQMMDIFNLSSQIK 112
                              5777777777777777799************************************************************9998555 PP

          AI-2E_transport  91 dslqnilnelpslleelenliqalkqslskilsnilssilnsllsllasllglilslvlvllllffllldgeklrqgilkllperv 176
                              +    +l  +p  +  ++ + +++ +s  +i+++++s    +l  + +++lg+++++ l++++++f++ dg + ++ +++ + e++
  PHY93_13700|PHY93_13700 113 K----QLFIFPFATSIET-HMKDFINSSPDIMTSLRS----YLAAIGKQTLGGVFDFGLLFIASIFMFIDGSRSYRWLRSHFSENI 189
                              4....4444444444442.245666666666666665....5678999************************************** PP

          AI-2E_transport 177 rervkailrelektlsgylrgqvlvaliigvlvfigllilgvpyalllailvglanliPyiGavivlipiaiialltggikevliv 262
                              +++++  ++e++ ++++y+ gq++v+ + +++v+ + ++l++p a++la l+ +++++P+iG + ++++ ++++ +  +ik+++++
  PHY93_13700|PHY93_13700 190 KTKLDITVQEINPIMTAYVFGQAIVSSLAAIVVYTSASVLHIPGAITLAALAAILDILPVIGFITIAFI-SAMLGFAVSIKAAVTI 274
                              **************************************************************8888887.7778888889****** PP

          AI-2E_transport 263 livvllvqliegnilePklmgkrlglhplvillsllaggklfGlvGlilavpltav 318
                              li+++l++l+e ++l+P++ g+r++l+plv+llsll+g++++G+ G+i   p++a+
  PHY93_13700|PHY93_13700 275 LIIHILYHLFESYVLTPYIYGSRMKLSPLVVLLSLLLGASMAGIPGMIAILPIVAA 330
                              ************************************************99999886 PP

>> DUF5383  Family of unknown function (DUF5383)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.1      0.11   9.7e+02      87     115 ..       6      37 ..       1      41 [. 0.52
   2 ?    8.6   1.7   0.00025       2.2      94     124 .]      71     100 ..      52     100 .. 0.81

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 0.11
                  DUF5383  87 teqeseeksnlLpi...llillivllivvlli 115
                              te+++ +k++++ i    ++ l  +li+ l+i
  PHY93_13700|PHY93_13700   6 TEENERTKITKIEIpfrTYVNLFFALIIALFI 37 
                              34444466666666213455555555555555 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.00025
                  DUF5383  94 ksnlLpillillivllivvllivliPkvakq 124
                              + + L+++lil i l++++++ ++iP v+ q
  PHY93_13700|PHY93_13700  71 EKIALTTILILYISLMLFIVI-FIIPHVVSQ 100
                              4567999******99999999.9***99865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (348 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1149  (0.0640861); expected 358.6 (0.02)
Passed bias filter:                      344  (0.0191868); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.63u 0.31s 00:00:00.94 Elapsed: 00:00:00.49
# Mc/sec: 2135.89
//
Query:       PHY93_05870|PHY93_05870  [L=350]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.1e-21   76.0   0.3      1e-20   73.8   0.0    2.2  3  Yop-YscD_cpl  Inner membrane component of T3SS, cytoplasmic d
      2e-14   53.7   0.1    4.1e-14   52.7   0.1    1.5  1  FHA           FHA domain
    0.00063   19.9   0.5      0.008   16.4   0.1    2.4  2  FHA_2         FHA domain
  ------ inclusion threshold ------
      0.025   14.7   0.2       0.11   12.7   0.0    2.3  2  TPR_2         Tetratricopeptide repeat
      0.075   13.3   0.1       0.19   12.0   0.1    1.7  1  DUF1828       Domain of unknown function DUF1828
      0.077   13.2   1.7        1.2    9.3   0.0    2.8  3  Mannitol_dh   Mannitol dehydrogenase Rossmann domain
       0.18   11.6   0.1       0.32   10.8   0.1    1.3  1  DUF2239       Uncharacterized protein conserved in bacteria (
       0.25   11.0   1.7        3.2    7.5   0.0    2.7  3  TPR_11        TPR repeat


Domain annotation for each model (and alignments):
>> Yop-YscD_cpl  Inner membrane component of T3SS, cytoplasmic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.8   0.0   4.5e-24     1e-20       3      88 ..      28     113 ..      26     117 .. 0.97
   2 ?   -3.1   0.0       4.5     1e+04      36      50 ..     140     154 ..     120     165 .. 0.56
   3 ?   -1.3   0.0       1.3   2.8e+03      40      86 ..     264     309 ..     261     313 .. 0.61

  Alignments for each domain:
  == domain 1  score: 73.8 bits;  conditional E-value: 4.5e-24
                              ECCCCTT-EEEETTEEEEEES-TT-SEE---TTS-TT-EEEEEETTEEEEEE-CESS--EETTEE-SECC--TTSEEEETTEEEEE CS
             Yop-YscD_cpl   3 lsGpdkGaeveLeegevviGsdedcDivLsDkevsrkhlkLeveeesvrledlgsrngllvngerveelelrpgdvlelGttelal 88 
                              ++Gp+kG+ + L +++v+iG++e++Di + D ++sr+h++L++ +++++++dlg++ng++vn+++v++++l++ +++ +G+t++++
  PHY93_05870|PHY93_05870  28 MTGPNKGRVYYLIGKRVIIGRGENADIQIVDVKISREHAELSFSDNGYTITDLGAENGIIVNDTKVKQKKLADAEKVVIGQTVFKY 113
                              79*****************************************************************999**************97 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 4.5
                              S-TT-EEEEEETTEE CS
             Yop-YscD_cpl  36 vsrkhlkLeveeesv 50 
                               s++ ++L++++++v
  PHY93_05870|PHY93_05870 140 SSKAKIQLKANNNGV 154
                              333333444444433 PP

  == domain 3  score: -1.3 bits;  conditional E-value: 1.3
                              -EEEEEETTEEEEEE-CESS--EETTEE-S.ECC--TTSEEEETTEEE CS
             Yop-YscD_cpl  40 hlkLeveeesvrledlgsrngllvngerve.elelrpgdvlelGttel 86 
                              h++ ++ + + rl+  ++ ++ ++ g++   +++l++  v  +G+++l
  PHY93_05870|PHY93_05870 264 HASFYLAKAKQRLD--EDIEKNFLKGKQEYeSKKLQASIVSYCGVVQL 309
                              66666666666777..33444455554444145588888888888776 PP

>> FHA  FHA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.7   0.1   1.8e-17   4.1e-14       1      68 [.      44     106 ..      44     107 .. 0.91

  Alignments for each domain:
  == domain 1  score: 52.7 bits;  conditional E-value: 1.8e-17
                              EEEESSTTSSEETTSTTSTTTEEEEEEETTCEEEEEEEESSSSSEEETTEEESTTSEEEE-TTEEEEE CS
                      FHA   1 vtiGRssdcdivlddpsiSrkHalikfdkgsgkvyleDlgSknGtfvNgqrigkgepveLksgdviel 68 
                              v+iGR +++di++ d +iSr Ha+++f ++  +++++Dlg  nG+ vN++++++    +L++ + + +
  PHY93_05870|PHY93_05870  44 VIIGRGENADIQIVDVKISREHAELSFSDN--GYTITDLGAENGIIVNDTKVKQ---KKLADAEKVVI 106
                              68****************************..*********************9...67776666655 PP

>> FHA_2  FHA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.1   3.6e-06     0.008      18      75 ..      41      99 ..      28     117 .. 0.73
   2 ?    1.0   0.0      0.23     5e+02      32      48 ..     136     152 ..     131     160 .. 0.88

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 3.6e-06
                    FHA_2 18 eeevviGRgpet..kikdkkcSrnqvelkadlekklvkvkqlGanps.svngkklkknesv 75
                             ++ v+iGRg +   +i d k+Sr++ el    +++  +++ lGa+    vn +k+k+++  
  PHY93_05870|PHY93_05870 41 GKRVIIGRGENAdiQIVDVKISREHAELSF--SDNGYTITDLGAENGiIVNDTKVKQKKLA 99
                             5789*****97522678**********975..66777899***865515677777776543 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.23
                    FHA_2  32 kdkkcSrnqvelkadle 48 
                              +d k S+ +++lka+ +
  PHY93_05870|PHY93_05870 136 RDIKSSKAKIQLKANNN 152
                              68899********9965 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0         6   1.4e+04       7      15 ..      33      41 ..      32      42 .. 0.69
   2 ?   12.7   0.0   4.9e-05      0.11       8      34 .]     236     262 ..     230     262 .. 0.87

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 6
                    TPR_2  7 lGlayyklg 15
                              G++yy  g
  PHY93_05870|PHY93_05870 33 KGRVYYLIG 41
                             688888765 PP

  == domain 2  score: 12.7 bits;  conditional E-value: 4.9e-05
                    TPR_2   8 GlayyklgdyeeAleafekAleldPnn 34 
                              G+  +  g+y +A e+f+ Al l Pnn
  PHY93_05870|PHY93_05870 236 GRREFGEGNYFRAMEDFRLALLLSPNN 262
                              5566789*******************8 PP

>> DUF1828  Domain of unknown function DUF1828
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.1   8.6e-05      0.19      11      55 ..      57     101 ..      51     131 .. 0.73

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 8.6e-05
                  DUF1828  11 iqiyvkkkegdeirLtDdGltlmdL.sysgidldlskkRkellesi 55 
                              +++ + ++e  e  ++D+G+t++dL +++gi ++ +k +++ l ++
  PHY93_05870|PHY93_05870  57 VDVKI-SREHAELSFSDNGYTITDLgAENGIIVNDTKVKQKKLADA 101
                              55556.4445999************445688887788888766655 PP

>> Mannitol_dh  Mannitol dehydrogenase Rossmann domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   0.3      0.13   2.8e+02      26      84 ..      50     104 ..      42     161 .. 0.75
   2 ?   -1.2   0.0      0.93   2.1e+03      60      82 ..     194     216 ..     184     221 .. 0.73
   3 ?    9.3   0.0   0.00053       1.2       6      59 ..     240     298 ..     237     331 .. 0.69

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.13
                              --TT-EEEEEE-STTHHHHHHHTTTT-EEEEE-SSS---EEEE--EEEEEEGGG-HHHH CS
              Mannitol_dh  26 egldwgivevnlrevdareaLkaqdelyvviekgeeskearlvgsvnavlsveedleal 84 
                              e+ d++iv+v+   + a  +L+  d+ y+++    + ++  +v++ +   ++ +d+e++
  PHY93_05870|PHY93_05870  50 ENADIQIVDVKISREHA--ELSFSDNGYTITDL--GAENGIIVNDTKVKQKKLADAEKV 104
                              77899999999988888..89999999999888..666666666555444444444444 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 0.93
                              SS---EEEE--EEEEEEGGG-HH CS
              Mannitol_dh  60 eeskearlvgsvnavlsveedle 82 
                               +++++ +v++v+++++v++  +
  PHY93_05870|PHY93_05870 194 VKTTKKINVNAVSDFNEVDSVPK 216
                              56788899999999999987655 PP

  == domain 3  score: 9.3 bits;  conditional E-value: 0.00053
                              ES-SHHHHHTHHHHHHHHTT.--TT-EEE..EEE-STTHH..HHHHHTTTT-EEEEE-S CS
              Mannitol_dh   6 fGaGnfhRahqayiddLlae.egldwgiv..evnlrevda..reaLkaqdelyvviekg 59 
                              fG Gn  Ra  ++  +Ll + ++ + +++  ++++r +++   + Lk ++e++   +++
  PHY93_05870|PHY93_05870 240 FGEGNYFRAMEDFRLALLLSpNNGHASFYlaKAKQRLDEDieKNFLKGKQEYESKKLQA 298
                              9********99999999988776666655114555555556667799999988776664 PP

>> DUF2239  Uncharacterized protein conserved in bacteria (DUF2239)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.1   0.00014      0.32      11      89 ..      98     178 ..      92     183 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00014
                  DUF2239  11 lasgelaevalav.kaaleeaaeaavlvfddatgrsvdldlrgseeevlarlaaaa.aeeeeeeaeekrgrGRPkLGvvaR 89 
                              la +e+  + ++v k ++ e +++++ ++d++ g ++  d+++s+++++ + +++  +++++++++++r++G  k+ v+a 
  PHY93_05870|PHY93_05870  98 LADAEKVVIGQTVfKYNIIEVTNNEMALYDEEHGVALSRDIKSSKAKIQLKANNNGvDSNSNKRSNSPRKKGNSKVLVMAG 178
                              5555555554443155566667899***********************99987665477788889999****999988775 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.1         3   6.8e+03       2      35 ..      35      41 ..      32      42 .. 0.46
   2 ?    7.5   0.0    0.0014       3.2       1      41 [.     236     276 ..     236     277 .. 0.91
   3 ?    2.2   0.0     0.063   1.4e+02       1      28 [.     287     314 ..     287     315 .. 0.87

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 3
                   TPR_11  2 dayyeqGkyeeAieaYkkAlkldPdnaeayynLG 35
                             ++                           yy +G
  PHY93_05870|PHY93_05870 35 RV---------------------------YYLIG 41
                             33...........................44443 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0014
                   TPR_11   1 GdayyeqGkyeeAieaYkkAlkldPdnaeayynLGlayykq 41 
                              G+  +  G+y  A+e+++ Al l+P+n  a + L++a +++
  PHY93_05870|PHY93_05870 236 GRREFGEGNYFRAMEDFRLALLLSPNNGHASFYLAKAKQRL 276
                              6778889****************************998775 PP

  == domain 3  score: 2.2 bits;  conditional E-value: 0.063
                   TPR_11   1 GdayyeqGkyeeAieaYkkAlkldPdna 28 
                              G+  ye  k+ ++i +Y   ++l ++++
  PHY93_05870|PHY93_05870 287 GKQEYESKKLQASIVSYCGVVQLIQNYP 314
                              8899*************88888888887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (350 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       718  (0.0400469); expected 358.6 (0.02)
Passed bias filter:                      360  (0.0200792); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.55u 0.26s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 2273.97
//
Query:       PHY93_13705|PHY93_13705  [L=590]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.4e-92  309.4   0.2    1.9e-55  188.2   0.0    4.1  3  ArsA_ATPase      Anion-transporting ATPase
    3.2e-23   82.6   0.1    2.6e-15   56.8   0.0    2.4  2  AAA_31           AAA domain
    2.7e-20   72.7   0.0    6.7e-10   39.1   0.0    2.7  2  CbiA             CobQ/CobB/MinD/ParA nucleotide binding domai
    4.5e-13   49.2   5.1    1.3e-05   24.7   0.1    3.1  3  ParA             NUBPL iron-transfer P-loop NTPase
    1.1e-10   41.5   0.7    0.00015   21.3   0.0    2.6  2  Fer4_NifH        4Fe-4S iron sulfur cluster binding proteins,
    4.3e-10   39.4   1.1    0.00024   20.6   0.2    2.9  2  PhoH             PhoH-like protein
    2.1e-09   36.8   0.8     0.0011   18.0   0.1    2.3  2  MeaB             Methylmalonyl Co-A mutase-associated GTPase 
    1.7e-08   35.1   1.5     0.0052   17.2   0.1    2.9  2  AAA_16           AAA ATPase domain
      3e-08   33.6   4.9     0.0011   18.6   0.3    3.3  3  SRP54            SRP54-type protein, GTPase domain
    5.7e-08   32.7   0.6     0.0049   16.6   0.0    2.6  2  AAA_30           AAA domain
    1.2e-07   31.6   0.5     0.0057   16.4   0.2    2.4  2  IstB_IS21        IstB-like ATP binding protein
    2.4e-07   30.3   0.4     0.0011   18.3   0.1    2.3  2  PIF1             PIF1-like helicase
    1.2e-06   28.2   1.7     0.0057   16.2   0.0    2.7  2  CBP_BcsQ         Cellulose biosynthesis protein BcsQ
    3.2e-06   27.4   0.2       0.13   12.6   0.0    3.4  3  AAA_22           AAA domain
      1e-05   25.4   1.7       0.14   11.9   0.0    3.1  2  AAA_24           AAA domain
    3.1e-05   23.3   3.8      0.014   14.6   0.2    2.8  3  NB-ARC           NB-ARC domain
      5e-05   22.7   7.8        1.1    8.5   1.8    4.2  4  MipZ             ATPase MipZ
    6.1e-05   22.7   6.1      0.011   15.4   0.1    3.3  2  AAA_25           AAA domain
    8.7e-05   22.4   3.9       0.16   11.8   0.2    2.9  3  ATP_bind_1       Conserved hypothetical ATP binding protein
    9.8e-05   22.3   0.6        0.2   11.5   0.1    2.4  2  APS_kinase       Adenylylsulphate kinase
    0.00036   21.1   0.3        0.2   12.1   0.1    2.5  2  AAA_23           AAA domain
    0.00053   20.5   0.3       0.58   10.7   0.1    2.5  2  ABC_tran         ABC transporter
    0.00062   20.2   2.3       0.89   10.0   0.1    2.9  2  AAA              ATPase family associated with various cellul
    0.00078   20.0   2.5       0.17   12.4   0.0    3.1  2  AAA_18           AAA domain
     0.0011   18.9   3.1       0.42   10.5   0.3    2.8  2  RsgA_GTPase      RsgA GTPase
     0.0022   18.1   0.0       0.34   11.0   0.0    2.5  2  AAA_33           AAA domain
     0.0023   17.7   0.8       0.46   10.2   0.2    2.4  2  RuvB_N           Holliday junction DNA helicase RuvB P-loop d
     0.0036   16.6   0.3        1.1    8.6   0.2    2.7  2  VirC1            VirC1 protein
     0.0046   16.5   1.2       0.99    8.9   0.1    2.6  2  AAA_7            P-loop containing dynein motor region
     0.0061   15.6   0.3       0.69    8.9   0.0    2.5  2  T2SSE            Type II/IV secretion system protein
     0.0062   16.5   4.1        0.9    9.4   0.1    3.0  2  NTPase_1         NTPase
     0.0073   16.1   0.8        2.1    8.1   0.2    2.6  2  CLP1_P           mRNA cleavage and polyadenylation factor CLP
     0.0096   16.3   0.2        6.1    7.3   0.0    2.5  2  RNA_helicase     RNA helicase
  ------ inclusion threshold ------
      0.011   15.0   1.0          1    8.6   0.2    2.5  2  Zeta_toxin       Zeta toxin
      0.011   15.7   0.2        2.6    8.0   0.0    2.4  2  ResIII           Type III restriction enzyme, res subunit
      0.011   15.2   0.2        1.7    8.0   0.1    2.4  2  KTI12            Chromatin associated protein KTI12
      0.014   14.8   0.1        2.7    7.3   0.0    2.6  2  ATPase           KaiC
      0.014   15.1   1.3          1    9.1   0.1    3.1  3  PduV-EutP        Ethanolamine utilisation - propanediol utili
      0.031   14.0   0.9        8.6    6.0   0.1    3.0  3  Thymidylate_kin  Thymidylate kinase
      0.032   13.4   0.0       0.07   12.3   0.0    1.5  1  Phosphatase      Phosphatase
      0.042   14.1   1.0        4.5    7.5   0.1    2.5  2  Roc              Ras of Complex, Roc, domain of DAPkinase
      0.055   12.9   0.6        2.6    7.4   0.2    2.3  2  SMC_N            RecF/RecN/SMC N terminal domain
      0.057   13.3   0.0        1.9    8.3   0.0    2.4  2  ATPase_2         ATPase domain predominantly from Archaea
       0.09   12.9   0.9        4.3    7.5   0.2    3.1  2  MMR_HSR1         50S ribosome-binding GTPase
       0.09   12.8   0.7         16    5.5   0.1    2.4  2  AAA_5            AAA domain (dynein-related subfamily)
       0.11   12.4   1.3         12    5.8   0.2    2.4  2  MobB             Molybdopterin guanine dinucleotide synthesis
       0.11   12.4   0.4          2    8.3   0.1    3.0  2  Ploopntkinase3   P-loop Nucleotide Kinase3
       0.11   12.3   5.4        1.9    8.3   0.4    2.5  2  AAA_29           P-loop containing region of AAA domain
       0.12   11.5   3.3        2.4    7.2   0.1    2.2  2  LpxK             Tetraacyldisaccharide-1-P 4'-kinase
       0.13   11.6   1.5         11    5.3   0.0    3.0  3  CTP_synth_N      CTP synthase N-terminus
       0.15   11.7   0.3        7.3    6.3   0.1    2.3  2  Sigma54_activat  Sigma-54 interaction domain
       0.18   11.8   3.8          6    6.9   0.3    2.3  2  TsaE             Threonylcarbamoyl adenosine biosynthesis pro
       0.24   10.8   1.4        7.7    5.8   0.3    2.5  2  Mg_chelatase     Magnesium chelatase, subunit ChlI
       0.35   10.1   2.0        4.3    6.6   0.3    2.9  2  DUF1611          Domain of unknown function (DUF1611_C) P-loo
       0.62   10.0  10.7        2.9    7.8   0.2    3.4  2  NACHT            NACHT domain
          1    9.2   3.8         53    3.5   0.1    3.5  3  AAA_26           AAA domain
        8.1    6.8   6.3         41    4.5   1.6    3.0  2  AAA_19           AAA domain


Domain annotation for each model (and alignments):
>> ArsA_ATPase  Anion-transporting ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  188.2   0.0   6.2e-58   1.9e-55       1     299 [.      10     290 ..      10     295 .. 0.93
   2 !   91.1   0.4   2.3e-28   7.3e-26       3     145 ..     329     461 ..     327     488 .. 0.89
   3 !   21.1   0.0   4.8e-07   0.00015     191     299 ..     479     585 ..     460     588 .. 0.86

  Alignments for each domain:
  == domain 1  score: 188.2 bits;  conditional E-value: 6.2e-58
                              -EEEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEE-STTTHHHHHHTS--BSS-EEET..SSEEEEE--HHHHHHHHHCCHHGGG CS
              ArsA_ATPase   1 lkvilvgGKGGVGKttvsaatavklsekgkkvllistDPAhslsDsfdqklgkeptkvk..eNLsavEidpeveleeakqevqkee 84 
                              +++++++GKGGVGKt++s+a+a+ ls++gkkvll+stDPA +l  ++  +l++++  v   + L++  idp+ ++e ++++v++++
  PHY93_13705|PHY93_13705  10 TRFLFFTGKGGVGKTSLSTAIALTLSDSGKKVLLVSTDPASNLDEMLGIELKNTAVSVPnaKGLFVLNIDPDNAAESYRKRVIDKM 95 
                              699*******************************************************98999*********************** PP

                              SCCHHHHHHHHHHHHHHTSSTTHHHHHHHHHHHHHHH..CSSSSEEEEESBSCCHTCGGGGHHHHHHHHHHHHHHHHHHHHHHHHH CS
              ArsA_ATPase  85 eallgleeledvlaeelaslPGideilsfeellkyvk..eeeydvvvlDtaPTGhtlrllslpevleklleklvklkeklsplakq 168
                               +    e+l++v ++ + +  ++ ei++f+e+  ++   ++eyd +v+DtaPTGhtlrllslp+ +  +le   ++ +        
  PHY93_13705|PHY93_13705  96 ASDTSEEGLSEVREQLSGA--CTTEIAAFDEFAALLAdsSTEYDHIVFDTAPTGHTLRLLSLPKAWTGFLE---DNDR-------- 168
                              *****99999999999888..*************9987799******************************...3333........ PP

                              HCCCSHCHHHHHHHHHHHHHHHHHHHHHHHHHHTSTTTEEEEEEEESSHHHHHHHHHHHHHHHHTT-EEEEEEEEEE-TTCSSSTS CS
              ArsA_ATPase 169 lvkllglggvsieealeeleetkeeikkveeiltdpertsfrlVvipEklslkEteRaikeLkkygikvdavivNkllpeeeqenC 254
                                     g++++    + l+ + e++ ++   l+d++ t+++lV+ p++ ++ E  R   eL ++g++ + +i+N ++++++ e+ 
  PHY93_13705|PHY93_13705 169 -------GASCLG-PHSGLKMQEERFLAALRALSDESLTTIILVTRPDQSAISEAARTSDELRLLGLRNQRLIINAVFQASDPED- 245
                              .......444444.55677777888888889**************************************************9986. PP

                              HHHHHHHHHHHHHHHHHHHHTTTSEEEEEE--SS-S-SHHHHHHH CS
              ArsA_ATPase 255 eflearkkiqkkylkeieelfedlevvklplleeEvvGleklekl 299
                              ++ ++ +++ +k ++e+ +   +l+  ++pl + + vGl +l+ l
  PHY93_13705|PHY93_13705 246 SVAASIQNLAQKAIDEMPKSLLELPTEQIPLRSFDTVGLPALRAL 290
                              89999***********************************99865 PP

  == domain 2  score: 91.1 bits;  conditional E-value: 2.3e-28
                              EEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEE-STTTHHHHHHTS--BSS-EEETSSEEEEE--HHHHHHHHHCCHHGGGSCCH CS
              ArsA_ATPase   3 vilvgGKGGVGKttvsaatavklsekgkkvllistDPAhslsDsfdqklgkeptkvkeNLsavEidpeveleeakqevqkeeeall 88 
                              +i+v GKGGVGKtt++aa+a+ l e gk v l +tDPA  +   ++  l+         L++  idp+ e +++ ++ +++++a l
  PHY93_13705|PHY93_13705 329 LIMVMGKGGVGKTTIAAALAIGLVERGKTVHLSTTDPAAHIIGTLNGSLS--------GLQVSKIDPKIETQKYIDKIMETKGAKL 406
                              69***************************************999999665........59999*********************** PP

                              HHHHHHHHHHHHHTSSTTHHHHHHHHHHHHHHHCSSSSEEEEESBSCCHTCGGGGHH CS
              ArsA_ATPase  89 gleeledvlaeelaslPGideilsfeellkyvkeeeydvvvlDtaPTGhtlrllslp 145
                              +++e   +l++ l s P+++e++ f++++k v+e+    vvlDtaPTGh+l l++  
  PHY93_13705|PHY93_13705 407 NAQERALMLED-LLS-PCTEEVAVFHAFSKIVSEARSAFVVLDTAPTGHSLLLMDAT 461
                              *7777666665.567.9**********************************999865 PP

  == domain 3  score: 21.1 bits;  conditional E-value: 4.8e-07
                              HHHHHHHHHHHTSTTTEEEEEEEESSHHHHHHHHHHHHHHHHTT-EEEEEEEEE.E-TTCSSSTSHHHHHHHHHHHHHHHHHHHHT CS
              ArsA_ATPase 191 keeikkveeiltdpertsfrlVvipEklslkEteRaikeLkkygikvdavivNk.llpeeeqenCeflearkkiqkkylkeieelf 275
                              +++i +    l+dp++t ++lV+ pE  ++     + ++L + +i+  a ++Nk +l+  +++  + l ar + ++k +++i+   
  PHY93_13705|PHY93_13705 479 LDRIVTPLMRLQDPDYTRIILVSLPEITPVSQAAALQEDLRRAKIEPYAWVINKsILASGTHD--PLLSARMNGERKQIERIKGGL 562
                              55555556679*******************************************999999998..9*****************998 PP

                              TTSEEEEEE--SS-S-SHHHHHHH CS
              ArsA_ATPase 276 edlevvklplleeEvvGleklekl 299
                              +  +++ lp +++   G+ +l+kl
  PHY93_13705|PHY93_13705 563 S-ANIFVLPWQATPPIGISELSKL 585
                              7.5788889999888888888876 PP

>> AAA_31  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.8   0.0   8.3e-18   2.6e-15       8     130 ..      16     148 ..      12     158 .. 0.85
   2 !   23.3   0.1   1.6e-07   5.1e-05       7      45 ..     332     370 ..     328     459 .. 0.67

  Alignments for each domain:
  == domain 1  score: 56.8 bits;  conditional E-value: 8.3e-18
                   AAA_31   8 nqKGGvGKTTtsvnlaaalaklgkkvLlvDlDpQanattglgiekneiektlyevl......ieeknikeaiiktkvenldlipss 87 
                                KGGvGKT  s+++a +l+ +gkkvLlv  Dp +n+   lgie +++  ++ ++       i+  n +e + k+ ++++    s+
  PHY93_13705|PHY93_13705  16 TGKGGVGKTSLSTAIALTLSDSGKKVLLVSTDPASNLDEMLGIELKNTAVSVPNAKglfvlnIDPDNAAESYRKRVIDKMASDTSE 101
                              67*****************************************9999777776663333333688888888888888888888999 PP

                   AAA_31  88 idLaeaeielvelekkeei....lkellekvkdeYDyiiiDcpPsLg 130
                                L+e+  +l ++ ++e +    +  ll + + eYD i++D+ P+  
  PHY93_13705|PHY93_13705 102 EGLSEVREQLSGACTTEIAafdeFAALLADSSTEYDHIVFDTAPTGH 148
                              99**********9999877666689999****************855 PP

  == domain 2  score: 23.3 bits;  conditional E-value: 1.6e-07
                   AAA_31   7 anqKGGvGKTTtsvnlaaalaklgkkvLlvDlDpQanat 45 
                              +  KGGvGKTT + +la  l ++gk v l   Dp a   
  PHY93_13705|PHY93_13705 332 VMGKGGVGKTTIAAALAIGLVERGKTVHLSTTDPAAHII 370
                              557**************************9999977654 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.1   0.0   2.1e-12   6.7e-10       3      87 ..      14     210 ..      12     266 .. 0.76
   2 !   30.9   0.0   7.3e-10   2.3e-07       2      55 ..     330     471 ..     329     555 .. 0.66

  Alignments for each domain:
  == domain 1  score: 39.1 bits;  conditional E-value: 2.1e-12
                              EEESSTTSSHHHHHHHHHHHHHHTT--EEEEEEEESSCCCCHHTTEB-HHHH.................................. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.................................. RF
                     CbiA   3 iastkGGvGKTtlaanLaralarrglrVllvDaDpqannlaileglendiep.................................. 54 
                              +  +kGGvGKT+l++++a  l++ g++Vllv +Dp +n++++l    +   +                                  
  PHY93_13705|PHY93_13705  14 FFTGKGGVGKTSLSTAIALTLSDSGKKVLLVSTDPASNLDEMLGIELK---Ntavsvpnakglfvlnidpdnaaesyrkrvidkma 96 
                              5689************************************95333333...22346777888888888888899999999999999 PP

                              .................................................................................CCHCC CS
                              .................................................................................xxxxx RF
                     CbiA  55 .................................................................................dlkrl 59 
                                                                                                               +lk  
  PHY93_13705|PHY93_13705  97 sdtseeglsevreqlsgactteiaafdefaalladssteydhivfdtaptghtlrllslpkawtgfledndrgasclgphsGLKMQ 182
                              99999999999998888888888888888888888888888888888888888888888888888888888888888888844433 PP

                              CHHH.HHHCHCHHHH..EEEEEEEEESS. CS
                              xxxx.xxxxxxxxxxxxxxxxxxxxxxxx RF
                     CbiA  60 lell.ealgkkkalllkiagvvlnrvdge 87 
                              +e + +al+  ++++ +   ++++r+d +
  PHY93_13705|PHY93_13705 183 EERFlAALR-ALSDESLTTIILVTRPDQS 210
                              333312222.3333366666666666655 PP

  == domain 2  score: 30.9 bits;  conditional E-value: 7.3e-10
                              EEEESSTTSSHHHHHHHHHHHHHHTT--EEEEEEEESSCCCCHHTTEB-HHHH................................. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx................................. RF
                     CbiA   2 aiastkGGvGKTtlaanLaralarrglrVllvDaDpqannlaileglendiep................................. 54 
                              +++ +kGGvGKTt+aa+La+ l +rg+ V l  +Dp a    +l g+   ++                                  
  PHY93_13705|PHY93_13705 330 IMVMGKGGVGKTTIAAALAIGLVERGKTVHLSTTDPAAHIIGTLNGSLSGLQVskidpkietqkyidkimetkgaklnaqeralml 415
                              56789******************************995444334444333333555556666666666666666666666666666 PP

                              .......................................................C CS
                              .......................................................x RF
                     CbiA  55 .......................................................d 55 
                                                                                     d
  PHY93_13705|PHY93_13705 416 edllspcteevavfhafskivsearsafvvldtaptghslllmdatgayhrqsvrD 471
                              66666666666655555555555555555555555555555555555555555551 PP

>> ParA  NUBPL iron-transfer P-loop NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.7   0.1   4.3e-08   1.3e-05       8      57 ..      14      62 ..       9      78 .. 0.84
   2 ?    0.7   0.0      0.92   2.9e+02     135     166 ..     197     228 ..     187     276 .. 0.76
   3 !   23.8   0.8   8.5e-08   2.7e-05       6      41 ..     329     364 ..     324     404 .. 0.81

  Alignments for each domain:
  == domain 1  score: 24.7 bits;  conditional E-value: 4.3e-08
                     ParA  8 vlSgKGGVGKStvavnlAlaLakkglkvgllDaDiyGpsiprllgveeek 57
                                gKGGVGK+++++ +Al+L+++g+kv l+ +D    ++ ++lg+e ++
  PHY93_13705|PHY93_13705 14 FFTGKGGVGKTSLSTAIALTLSDSGKKVLLVSTDPA-SNLDEMLGIELKN 62
                             568*****************************9964.6888888887764 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.92
                     ParA 135 plagaviVttpqevaladvkkaiemfkkvkvk 166
                              +l+ +++Vt p + a++++ ++ + ++ + ++
  PHY93_13705|PHY93_13705 197 SLTTIILVTRPDQSAISEAARTSDELRLLGLR 228
                              57899**************9988766655555 PP

  == domain 3  score: 23.8 bits;  conditional E-value: 8.5e-08
                     ParA   6 iavlSgKGGVGKStvavnlAlaLakkglkvgllDaD 41 
                              ++++ gKGGVGK+t+a+ lA+ L ++g++v l  +D
  PHY93_13705|PHY93_13705 329 LIMVMGKGGVGKTTIAAALAIGLVERGKTVHLSTTD 364
                              55667************************9887666 PP

>> Fer4_NifH  4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.0   4.8e-07   0.00015       5      59 ..      15      68 ..      11      88 .. 0.82
   2 !   17.8   0.2   5.6e-06    0.0018       3      42 ..     330     369 ..     329     400 .. 0.87

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 4.8e-07
                Fer4_NifH  5 iyGkGGiGksttsqnlsaalaemgkkvlivGCDPkaDstrlllggkaqetvldtl 59
                             + GkGG+Gk+  s+ ++ +l++ gkkvl+v  DP ++    +lg  +++t + + 
  PHY93_13705|PHY93_13705 15 FTGKGGVGKTSLSTAIALTLSDSGKKVLLVSTDPASNLD-EMLGIELKNTAVSVP 68
                             67********************************98766.556666666666655 PP

  == domain 2  score: 17.8 bits;  conditional E-value: 5.6e-06
                Fer4_NifH   3 iaiyGkGGiGksttsqnlsaalaemgkkvlivGCDPkaDs 42 
                              i + GkGG+Gk+t ++ l++ l+e+gk v +   DP a  
  PHY93_13705|PHY93_13705 330 IMVMGKGGVGKTTIAAALAIGLVERGKTVHLSTTDPAAHI 369
                              6799********************************8865 PP

>> PhoH  PhoH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.0   1.5e-05    0.0046      17      67 ..       6      58 ..       1      68 [. 0.87
   2 !   20.6   0.2   7.8e-07   0.00024      13      82 ..     319     391 ..     308     418 .. 0.81

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 1.5e-05
                             H..H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----S CS
                     PhoH 17 k..kndivfaiGpaGtGKtylavalavealkkkkvkriiltrpaveageelGf 67
                                +  ++f +G+ G GKt l++a+a+++  ++k   ++ t pa + +e lG+
  PHY93_13705|PHY93_13705  6 LtnSTRFLFFTGKGGVGKTSLSTAIALTLSDSGKKVLLVSTDPASNLDEMLGI 58
                             42356699*******************************************97 PP

  == domain 2  score: 20.6 bits;  conditional E-value: 7.8e-07
                              HHHHH..H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--T.T----SS---------TTTHH CS
                     PhoH  13 lealk..kndivfaiGpaGtGKtylavalavealkkkkvkriiltrpavea.geelGflpgdleekvdpylrp 82 
                              +++l+  ++ +++++G+ G GKt +a ala+ +++++k  ++  t pa ++ g   G l g    k+dp +++
  PHY93_13705|PHY93_13705 319 IDQLSksTHGLIMVMGKGGVGKTTIAAALAIGLVERGKTVHLSTTDPAAHIiGTLNGSLSGLQVSKIDPKIET 391
                              66676556779*************************************9886888899999888999987654 PP

>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.1   3.6e-06    0.0011      29      71 ..      10      52 ..       1      76 [. 0.87
   2 !   17.2   0.1   6.2e-06    0.0019      31      78 ..     329     379 ..     304     419 .. 0.77

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 3.6e-06
                             SEEEEEEE-TTSSHHHHHHHHHHHHHCTT--EEEEEE------ CS
                     MeaB 29 aqvvGltGvPGaGkstlvealglelrrrGkrvavlavDPsspf 71
                             ++ + +tG  G+Gk  l  a++l+l + Gk+v +++ DP+s+ 
  PHY93_13705|PHY93_13705 10 TRFLFFTGKGGVGKTSLSTAIALTLSDSGKKVLLVSTDPASNL 52
                             455779**********************************986 PP

  == domain 2  score: 17.2 bits;  conditional E-value: 6.2e-06
                              EEEEEE-TTSSHHHHHHHHHHHHHCTT--EEEEEE--------...----- CS
                     MeaB  31 vvGltGvPGaGkstlvealglelrrrGkrvavlavDPsspftG...GsilG 78 
                               + + G  G+Gk t+  al++ l++rGk v +   DP++ + G   Gs+ G
  PHY93_13705|PHY93_13705 329 LIMVMGKGGVGKTTIAAALAIGLVERGKTVHLSTTDPAAHIIGtlnGSLSG 379
                              4668899*******************************9988744456555 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.1   1.7e-05    0.0052      16     106 ..       2     116 ..       1     205 [. 0.64
   2 !   16.0   0.0   3.8e-05     0.012      15      64 ..     318     361 ..     314     450 .. 0.59

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 1.7e-05
                   AAA_16  16 lervrsgrpelvllsGesGvGKsslvrellralekd.................................ggiflrgkcdqlesaip 68 
                              l+++ +++++ ++++G  GvGK+sl ++++  l+++                                 +g               
  PHY93_13705|PHY93_13705   2 LSAILTNSTRFLFFTGKGGVGKTSLSTAIALTLSDSgkkvllvstdpasnldemlgielkntavsvpnaKG--------------- 72 
                              677889999*********************99999966444444444444444333333333333333222............... PP

                   AAA_16  69 y.......salaqalareellrqlldeaesaeleawrekleeala 106
                              +       +  a+   r++++ ++++++++  l++ re+l +a +
  PHY93_13705|PHY93_13705  73 LfvlnidpDNAAESY-RKRVIDKMASDTSEEGLSEVREQLSGACT 116
                              022222223356666.55777777777777777777777777666 PP

  == domain 2  score: 16.0 bits;  conditional E-value: 3.8e-05
                   AAA_16  15 alervrsgrpelvllsGesGvGKsslvrellralekdggiflrgkcdqle 64 
                              +++++++++ +l+++ G  GvGK++++ +l+  l ++      gk+++l+
  PHY93_13705|PHY93_13705 318 LIDQLSKSTHGLIMVMGKGGVGKTTIAAALAIGLVER------GKTVHLS 361
                              6677888888******************999655555......5555552 PP

>> SRP54  SRP54-type protein, GTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.2   5.4e-05     0.017       4      38 ..      13      47 ..      10      50 .. 0.93
   2 ?   -0.2   0.0         2   6.3e+02      74      92 ..     126     144 ..      82     150 .. 0.72
   3 !   18.6   0.3   3.5e-06    0.0011       3      38 ..     329     364 ..     327     417 .. 0.94

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 5.4e-05
                             EEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEEES CS
                    SRP54  4 illvGlqGaGKTttlaKLaallkkegkkvllvaaD 38
                             + + G  G+GKT+  + +a  l+++gkkvllv++D
  PHY93_13705|PHY93_13705 13 LFFTGKGGVGKTSLSTAIALTLSDSGKKVLLVSTD 47
                             6789******************************9 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 2
                              HHHHHHHHTTSSEEEEEE- CS
                    SRP54  74 eavekakeekidvvlvDTa 92 
                              +a+ +  + ++d+++ DTa
  PHY93_13705|PHY93_13705 126 AALLADSSTEYDHIVFDTA 144
                              4566677889********9 PP

  == domain 3  score: 18.6 bits;  conditional E-value: 3.5e-06
                              EEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEEES CS
                    SRP54   3 villvGlqGaGKTttlaKLaallkkegkkvllvaaD 38 
                              +i+++G  G+GKTt +a La  l ++gk+v l ++D
  PHY93_13705|PHY93_13705 329 LIMVMGKGGVGKTTIAAALAIGLVERGKTVHLSTTD 364
                              69*******************************999 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   1.5e-05    0.0049      10      74 ..       2      64 ..       1     101 [. 0.84
   2 !   13.8   0.2   0.00011     0.036      10      63 ..     319     371 ..     316     417 .. 0.78

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 1.5e-05
                   AAA_30 10 vealltsgdrvavltGpAGtGKttalkalreaweaaggrviglAptgkaAkvLaeelgieastia 74
                             + a+lt++ r+ + tG  G GKt + +a++ ++ ++g++v++++     A +L e lgie +++a
  PHY93_13705|PHY93_13705  2 LSAILTNSTRFLFFTGKGGVGKTSLSTAIALTLSDSGKKVLLVST--DPASNLDEMLGIELKNTA 64
                             568999999*******************************99865..567899999998877766 PP

  == domain 2  score: 13.8 bits;  conditional E-value: 0.00011
                   AAA_30  10 vealltsgdrvavltGpAGtGKttalkalreaweaaggrviglAptgkaAkvLa 63 
                              +++l +s++ + ++ G  G GKtt+ +al+  + ++g++v  l+ t  aA+ ++
  PHY93_13705|PHY93_13705 319 IDQLSKSTHGLIMVMGKGGVGKTTIAAALAIGLVERGKTV-HLSTTDPAAHIIG 371
                              788999999********************99999998555.5677777777666 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.9   0.0   0.00022     0.069      50      84 ..      13      47 ..       3      58 .. 0.88
   2 !   16.4   0.2   1.8e-05    0.0057      47      83 ..     327     363 ..     311     373 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 0.00022
                IstB_IS21 50 ivllGpsGvGKshlaialgveavraglsvlfvrve 84
                             + ++G  GvGK+ l++a++     +g++vl v+++
  PHY93_13705|PHY93_13705 13 LFFTGKGGVGKTSLSTAIALTLSDSGKKVLLVSTD 47
                             6789*************************999875 PP

  == domain 2  score: 16.4 bits;  conditional E-value: 1.8e-05
                IstB_IS21  47 kenivllGpsGvGKshlaialgveavraglsvlfvrv 83 
                              +  i+++G  GvGK+ +a+al+   v++g+ v   ++
  PHY93_13705|PHY93_13705 327 HGLIMVMGKGGVGKTTIAAALAIGLVERGKTVHLSTT 363
                              556899************************9987665 PP

>> PIF1  PIF1-like helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.1   3.4e-06    0.0011      15      57 ..       3      45 ..       1      55 [. 0.90
   2 !   10.0   0.0    0.0011      0.34      10      78 ..     315     380 ..     307     427 .. 0.78

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 3.4e-06
                             .....HCTS-EEEEESTTSSCHHHHHHHHHHCHCTCCCEEEEE CS
                     PIF1 15 eavlnekgklfFvtGsgGtgKtflwkallkklrsegkivlavA 57
                              a+l+++ +++F+tG gG gKt l +a+  +l  +gk+vl v 
  PHY93_13705|PHY93_13705  3 SAILTNSTRFLFFTGKGGVGKTSLSTAIALTLSDSGKKVLLVS 45
                             678899*********************************9884 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.0011
                              HHHH......HCTS-EEEEESTTSSCHHHHHHHHHHCHCTCCCEEEEESSHHHHHCC.TSEECHHHHT- CS
                     PIF1  10 fdaiieavlnekgklfFvtGsgGtgKtflwkallkklrsegkivlavAssGvAalllegGrtahsrfki 78 
                              +d  i++++++  +l+ v G gG gKt +  al   l ++gk+v     +  Aa  +  G+   s+ ++
  PHY93_13705|PHY93_13705 315 LDILIDQLSKSTHGLIMVMGKGGVGKTTIAAALAIGLVERGKTVH-LSTTDPAAHII--GTLNGSLSGL 380
                              5667899999************************99999988764.45555555555..5555555555 PP

>> CBP_BcsQ  Cellulose biosynthesis protein BcsQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0   1.8e-05    0.0057      10      45 ..      18      53 ..      11      71 .. 0.83
   2 !   10.3   0.4    0.0011      0.35      10      33 ..     335     358 ..     328     369 .. 0.87

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 1.8e-05
                 CBP_BcsQ 10 RGGvGttsllaaLawalhelgesvlviDlspdnlLr 45
                             +GGvG+tsl++a+a  l   g++vl++ + p+  L 
  PHY93_13705|PHY93_13705 18 KGGVGKTSLSTAIALTLSDSGKKVLLVSTDPASNLD 53
                             7**************************998876554 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 0.0011
                 CBP_BcsQ  10 RGGvGttsllaaLawalhelgesv 33 
                              +GGvG+t+++aaLa+ l e g+ v
  PHY93_13705|PHY93_13705 335 KGGVGKTTIAAALAIGLVERGKTV 358
                              7****************9999988 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.4   0.0    0.0038       1.2       4     103 ..       9     128 ..       7     151 .. 0.70
   2 ?    1.0   0.0       1.5   4.6e+02     106     132 ..     184     208 ..     176     211 .. 0.85
   3 !   12.6   0.0    0.0004      0.13       3      37 ..     325     359 ..     322     449 .. 0.72

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.0038
                   AAA_22   4 tagilvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsstsskdllrellralglelka................... 70 
                              + ++l+ tG  G+GKT l   ++ +l         +++v++v        ++l ++l  +l++ + +                   
  PHY93_13705|PHY93_13705   9 STRFLFFTGKGGVGKTSLSTAIALTLSDS------GKKVLLVSTDP---ASNLDEMLGIELKNTAVSvpnakglfvlnidpdnaae 85 
                              56899********************9432......44444444444...4444444444444444444446788888888888888 PP

                   AAA_22  71 ..........erlsseellealeqalraravielliiDEaqhl 103
                                        + ++see l+ ++++l+ + ++e+   DE+  l
  PHY93_13705|PHY93_13705  86 syrkrvidkmASDTSEEGLSEVREQLSGACTTEIAAFDEFAAL 128
                              8888888888888888888888888888777788888888875 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 1.5
                   AAA_22 106 eealeeLrsllnlsrkgvqliLvGtpe 132
                              e+ l  Lr l++  ++++++iLv  p+
  PHY93_13705|PHY93_13705 184 ERFLAALRALSD--ESLTTIILVTRPD 208
                              678999******..********98875 PP

  == domain 3  score: 12.6 bits;  conditional E-value: 0.0004
                   AAA_22   3 ktagilvvtGesGtGKTtllrrlleqldeeakaee 37 
                              +t+g+++v+G  G+GKTt ++ l+  l+e+ k  +
  PHY93_13705|PHY93_13705 325 STHGLIMVMGKGGVGKTTIAAALAIGLVERGKTVH 359
                              5889******************9988887655444 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.9   0.0   0.00044      0.14       7     129 ..      15     205 ..      11     224 .. 0.64
   2 !   10.8   0.4   0.00094       0.3       5      31 ..     330     362 ..     329     449 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00044
                   AAA_24   7 iyGpsgiGKTtlakel.......gpkplfidtekGlksldadkfpdie....swedfldevvel...................... 59 
                               +G+ g+GKT+l + +       g+k+l++ t+  + +ld   + +++    s+++ +  +v +                      
  PHY93_13705|PHY93_13705  15 FTGKGGVGKTSLSTAIaltlsdsGKKVLLVSTDPAS-NLDEMLGIELKntavSVPNAKGLFVLNidpdnaaesyrkrvidkmasdt 99 
                              579*********99999999**********998843.4444433333344474444444444445555555555555555555556 PP

                   AAA_24  60 ..............................aaeladyktlviDtideleelclaev.irqnekaeskedkgdgkG.ygelaeefrr 113
                                                            a+   +y+ +v+Dt+     l l  + +  ++  e+++ + +  G  + l+ +  r
  PHY93_13705|PHY93_13705 100 seeglsevreqlsgactteiaafdefaallADSSTEYDHIVFDTAPTGHTLRLLSLpKAWTGFLEDNDRGASCLGpHSGLKMQEER 185
                              66666666666666677777777777777799999999999999865555555555455555555555555556666666666666 PP

                   AAA_24 114 llkklqelrk....nvifia 129
                              +l +l++l +    ++i++ 
  PHY93_13705|PHY93_13705 186 FLAALRALSDesltTIILVT 205
                              66666666665555555555 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 0.00094
                   AAA_24   5 iliyGpsgiGKTtlakel......gpkplfidt 31 
                              i+++G+ g+GKTt+a+ l        k++ + t
  PHY93_13705|PHY93_13705 330 IMVMGKGGVGKTTIAAALaiglveRGKTVHLST 362
                              79**************99888888666666643 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.8   0.1    0.0026      0.82      21      41 ..      11      31 ..       3      39 .. 0.84
   2 ?   -2.0   0.0       5.2   1.6e+03     124     191 ..     192     259 ..     182     261 .. 0.66
   3 !   14.6   0.2   4.4e-05     0.014       6      39 ..     316     346 ..     311     414 .. 0.83

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.0026
                             EEEEEEESTTSSHHHHHHHHC CS
                   NB-ARC 21 lvvalvGmgGvGKttlakqil 41
                              ++++ G+gGvGKt l++ i 
  PHY93_13705|PHY93_13705 11 RFLFFTGKGGVGKTSLSTAIA 31
                             489*************99885 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 5.2
                              HHHHCHTTSEEEEEESBCCCCCCS-S-EEEEEESS--HHHHHHHHHHCCTS-GGCHH.....CHHHHHHHH CS
                   NB-ARC 124 vlparenrlrvllTTRdeevanavsatsekievelLekdeawellenkvfekkleekes...leevakeiv 191
                              +l++++    +l+T  d++  ++++ ts+ +++  L+++    l+ n vf++++ e+++   ++++a++ +
  PHY93_13705|PHY93_13705 192 ALSDESLTTIILVTRPDQSAISEAARTSDELRLLGLRNQ---RLIINAVFQASDPEDSVaasIQNLAQKAI 259
                              566666667777776677666666665777766666655...58888888888887766666777776655 PP

  == domain 3  score: 14.6 bits;  conditional E-value: 4.4e-05
                              HHHHHHHHCTTTSCSEEEEEEESTTSSHHHHHHH CS
                   NB-ARC   6 ekviekLlekdelqslvvalvGmgGvGKttlakq 39 
                              + +i++L+ k   +  ++ ++G+gGvGKtt+a+ 
  PHY93_13705|PHY93_13705 316 DILIDQLS-KSTHG--LIMVMGKGGVGKTTIAAA 346
                              66889999.77777..899************986 PP

>> MipZ  ATPase MipZ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.1      0.02       6.3       8      37 ..      17      46 ..      11      51 .. 0.87
   2 ?    4.9   0.0     0.044        14      80     112 ..     116     148 ..      64     160 .. 0.72
   3 !    8.5   1.8    0.0034       1.1       4      32 ..     330     358 ..     327     364 .. 0.86
   4 ?    3.9   0.0     0.088        28      18     129 ..     366     486 ..     360     498 .. 0.62

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.02
                             SSTTSSHHHHHHHHHHHHHTTT--EEEEE- CS
                     MipZ  8 ekGGsGksttavhvavaLlkkGarvaaidl 37
                              kGG Gk+  +  +a +L+++G++v  +  
  PHY93_13705|PHY93_13705 17 GKGGVGKTSLSTAIALTLSDSGKKVLLVST 46
                             69**********************977655 PP

  == domain 2  score: 4.9 bits;  conditional E-value: 0.044
                              S-HHHHHHHHHHHHHHHHHH-SEEEEE--SS-- CS
                     MipZ  80 eeeeaevaeleelvadleaeldfividtPGsds 112
                                e a + e+++l+ad ++e+d iv+dt  + +
  PHY93_13705|PHY93_13705 116 TTEIAAFDEFAALLADSSTEYDHIVFDTAPTGH 148
                              44555677999****************965444 PP

  == domain 3  score: 8.5 bits;  conditional E-value: 0.0034
                              EE--SSTTSSHHHHHHHHHHHHHTTT--E CS
                     MipZ   4 vlgnekGGsGksttavhvavaLlkkGarv 32 
                              ++   kGG Gk+t+a  +a+ L+++G+ v
  PHY93_13705|PHY93_13705 330 IMVMGKGGVGKTTIAAALAIGLVERGKTV 358
                              45556*********************998 PP

  == domain 4  score: 3.9 bits;  conditional E-value: 0.088
                              HHHHHHHHH..TTT--EEEEE--T.TT-HHHHHHHHHHHHHHHHT------EEE..-SSS-HHHHTTS-HHHHHHHHHHHHHHHHH CS
                     MipZ  18 avhvavaLl..kkGarvaaidldl.rqrtlarylenraataerkglsLplpeal..alseaeeaeveeeeeaevaeleelvadlea 98 
                              a h++ +L    +G++v+ id  +  q+ + + +e + a  + ++ +L l + l  + +e+++ ++  +   e ++   +++ + +
  PHY93_13705|PHY93_13705 366 AAHIIGTLNgsLSGLQVSKIDPKIeTQKYIDKIMETKGAKLNAQERALMLEDLLspCTEEVAVFHAFSKIVSEARSAFVVLDTAPT 451
                              67888877522579999999987625778888888888887777766666665300333333333333333333344445566667 PP

                              H-SEEEEE--SS--HHHHHHHHT-....SEEEEEE CS
                     MipZ  99 eldfividtPGsdsalsrlahsla....dtlvtPl 129
                               + ++++d+ G  ++ s    s+a    d +vtPl
  PHY93_13705|PHY93_13705 452 GHSLLLMDATGAYHRQSVRDLSKAginlDRIVTPL 486
                              78888888888776665544444433337778876 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.4   1.0    0.0045       1.4      35      65 ..      12      43 ..       7     145 .. 0.84
   2 !   15.4   0.1   3.4e-05     0.011      33      62 ..     327     357 ..     304     381 .. 0.86

  Alignments for each domain:
  == domain 1  score: 8.4 bits;  conditional E-value: 0.0045
                   AAA_25 35 lallaGapgtGKttlaldlalava.tGkpwlg 65
                             +  ++G +g+GKt l + +al+++ +Gk++l 
  PHY93_13705|PHY93_13705 12 FLFFTGKGGVGKTSLSTAIALTLSdSGKKVLL 43
                             56789******************988886554 PP

  == domain 2  score: 15.4 bits;  conditional E-value: 3.4e-05
                   AAA_25  33 gelallaGapgtGKttlaldlalava.tGkp 62 
                              ++l++++G +g+GKtt+a  la+ ++ +Gk 
  PHY93_13705|PHY93_13705 327 HGLIMVMGKGGVGKTTIAAALAIGLVeRGKT 357
                              799*******************999877764 PP

>> ATP_bind_1  Conserved hypothetical ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.8   0.1   0.00096       0.3       2      37 ..      16      51 ..      15      54 .. 0.94
   2 ?   -2.2   0.0       9.3   2.9e+03      29      49 ..      75      96 ..      69     143 .. 0.47
   3 !   11.8   0.2   0.00049      0.16       1      38 [.     332     369 ..     332     371 .. 0.95

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00096
               ATP_bind_1  2 vGpaGsGKttfvgalseilelrgrsvavvNLDPAae 37
                             +G  G+GKt++  a++ +l+++g++v +v  DPA++
  PHY93_13705|PHY93_13705 16 TGKGGVGKTSLSTAIALTLSDSGKKVLLVSTDPASN 51
                             7999******************************75 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 9.3
               ATP_bind_1 29 vvNLDPAaeelpYeaa.vdire 49
                             v+N+DP + + +Y+   +d + 
  PHY93_13705|PHY93_13705 75 VLNIDPDNAAESYRKRvIDKMA 96
                             7888888887788654134333 PP

  == domain 3  score: 11.8 bits;  conditional E-value: 0.00049
               ATP_bind_1   1 vvGpaGsGKttfvgalseilelrgrsvavvNLDPAaee 38 
                              v+G  G+GKtt+  al+  l +rg++v++   DPAa++
  PHY93_13705|PHY93_13705 332 VMGKGGVGKTTIAAALAIGLVERGKTVHLSTTDPAAHI 369
                              89*********************************985 PP

>> APS_kinase  Adenylylsulphate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.5   0.1   0.00063       0.2       4      39 ..      12      47 ..       9      64 .. 0.86
   2 !    8.8   0.0    0.0043       1.4       5      35 ..     330     360 ..     327     428 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00063
                             EEEEESSTTSSHHHHHHHHHHHHHHTT--EEEEEHH CS
               APS_kinase  4 vvwltGlsgsGKstianalekkLvekgisvylLdGd 39
                              +++tG  g GK+++++a++ +L ++g++v l+  d
  PHY93_13705|PHY93_13705 12 FLFFTGKGGVGKTSLSTAIALTLSDSGKKVLLVSTD 47
                             589*************************99887766 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.0043
                              EEEESSTTSSHHHHHHHHHHHHHHTT--EEE CS
               APS_kinase   5 vwltGlsgsGKstianalekkLvekgisvyl 35 
                              +++ G  g GK+tia al+  Lve+g++v l
  PHY93_13705|PHY93_13705 330 IMVMGKGGVGKTTIAAALAIGLVERGKTVHL 360
                              678899********************98875 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.7   0.0      0.03       9.5      23      45 ..      14      36 ..       8     113 .. 0.85
   2 !   12.1   0.1   0.00064       0.2      18      46 ..     326     354 ..     303     421 .. 0.77

  Alignments for each domain:
  == domain 1  score: 6.7 bits;  conditional E-value: 0.03
                   AAA_23 23 lItGpNGaGKTTildAiklaLyg 45
                              +tG+ G GKT++  Ai l L  
  PHY93_13705|PHY93_13705 14 FFTGKGGVGKTSLSTAIALTLSD 36
                             689****************9976 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 0.00064
                   AAA_23  18 skgltlItGpNGaGKTTildAiklaLyge 46 
                               +gl  + G+ G GKTTi  A+  +L ++
  PHY93_13705|PHY93_13705 326 THGLIMVMGKGGVGKTTIAAALAIGLVER 354
                              689********************999863 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   0.0     0.018       5.5      14      51 ..      13      50 ..       6     126 .. 0.74
   2 !   10.7   0.1    0.0018      0.58      13      51 ..     329     367 ..     321     437 .. 0.78

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.018
                             EEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran 14 vaivGenGaGKStLlkllagllkpteGeilldgkdlke 51
                             + ++G+ G GK++L  ++a  l++   ++ll ++d  +
  PHY93_13705|PHY93_13705 13 LFFTGKGGVGKTSLSTAIALTLSDSGKKVLLVSTDPAS 50
                             6789***************9999888888776666555 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 0.0018
                              EEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  13 kvaivGenGaGKStLlkllagllkpteGeilldgkdlke 51 
                              ++ ++G+ G GK+t++++la  l     +++l  +d   
  PHY93_13705|PHY93_13705 329 LIMVMGKGGVGKTTIAAALAIGLVERGKTVHLSTTDPAA 367
                              6789***************98887777888887666555 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.2   0.3    0.0051       1.6       2      40 ..      14      57 ..      13     140 .. 0.62
   2 !   10.0   0.1    0.0028      0.89       1      22 [.     330     351 ..     330     423 .. 0.83

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.0051
                             EEESSTTSSHHHHHHHHHHHH.....THEEEEEETTTCSSSSTT CS
                      AAA  2 llyGppGtGKTllakavakel.....gvefleisgsellskyvg 40
                              ++G  G+GKT+l  a+a +l     +v +++++ ++ l++++g
  PHY93_13705|PHY93_13705 14 FFTGKGGVGKTSLSTAIALTLsdsgkKVLLVSTDPASNLDEMLG 57
                             689***************99844433244555555555544433 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.0028
                              EEEESSTTSSHHHHHHHHHHHH CS
                      AAA   1 vllyGppGtGKTllakavakel 22 
                              ++++G  G+GKT++a a+a  l
  PHY93_13705|PHY93_13705 330 IMVMGKGGVGKTTIAAALAIGL 351
                              5789*************99655 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.1   0.7     0.048        15       2      22 ..      14      34 ..      13     152 .. 0.75
   2 !   12.4   0.0   0.00054      0.17       1      20 [.     330     349 ..     330     451 .. 0.77

  Alignments for each domain:
  == domain 1  score: 6.1 bits;  conditional E-value: 0.048
                   AAA_18  2 lltGtpGvGKttlakeLskrl 22
                             + tG+ GvGKt+l+ +++  l
  PHY93_13705|PHY93_13705 14 FFTGKGGVGKTSLSTAIALTL 34
                             579***********9996554 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 0.00054
                   AAA_18   1 IlltGtpGvGKttlakeLsk 20 
                              I+++G+ GvGKtt+a +L+ 
  PHY93_13705|PHY93_13705 330 IMVMGKGGVGKTTIAAALAI 349
                              99***************954 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.8   0.2    0.0088       2.8     100     120 ..      11      31 ..       2      49 .. 0.80
   2 !   10.5   0.3    0.0014      0.42      86     122 ..     311     350 ..     296     364 .. 0.71

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0088
                              SEEEEECSTTSSHHHHHHHHC CS
              RsgA_GTPase 100 ktsvlvGqSGvGKStLinall 120
                              ++ ++ G+ GvGK++L  a++
  PHY93_13705|PHY93_13705  11 RFLFFTGKGGVGKTSLSTAIA 31 
                              67899***********98876 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 0.0014
                              THTTHHHHHHHCTT...SEEEEECSTTSSHHHHHHHHCTT CS
              RsgA_GTPase  86 tkegleelkellkd...ktsvlvGqSGvGKStLinallpe 122
                              ++ gl+ l ++l++    +++++G+ GvGK+t+  al+  
  PHY93_13705|PHY93_13705 311 NNMGLDILIDQLSKsthGLIMVMGKGGVGKTTIAAALAIG 350
                              45666666666666222457899**********9999765 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.0       0.1        32       2      32 ..      13      48 ..      12     145 .. 0.73
   2 !   11.0   0.0    0.0011      0.34       1      33 [.     329     373 ..     329     450 .. 0.69

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.1
                   AAA_33  2 vllvGlpGsGKstlaerllkklg.....avllssdt 32
                             +++ G  G+GK+ l++ ++  l      + l+s+d 
  PHY93_13705|PHY93_13705 13 LFFTGKGGVGKTSLSTAIALTLSdsgkkVLLVSTDP 48
                             5899***********999755556667777777776 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.0011
                   AAA_33   1 lvllvGlpGsGKstlaerl....lkklg.avllssdt........l 33 
                              l+++ G  G+GK+t a  l    +++ g +v+ls+ +        l
  PHY93_13705|PHY93_13705 329 LIMVMGKGGVGKTTIAAALaiglVER-GkTVHLSTTDpaahiigtL 373
                              79***************996664444.3599999877555544442 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   0.0     0.037        12      35      58 ..      12      35 ..       5      63 .. 0.82
   2 !   10.2   0.2    0.0015      0.46      29      84 ..     323     382 ..     295     400 .. 0.70

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.037
                   RuvB_N 35 hvllyGpPGlGkttlakiiakelg 58
                              ++++G  G+Gkt+l++ ia  l 
  PHY93_13705|PHY93_13705 12 FLFFTGKGGVGKTSLSTAIALTLS 35
                             57899**************98775 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 0.0015
                   RuvB_N  29 reealdhvllyGpPGlGkttlakiiakel...gvklk.itsgPvlekagdlaalltnlee 84 
                               +++   ++++G  G+Gktt+a+ +a  l   g +++ +t+ P+ +  g l + l+ l+ 
  PHY93_13705|PHY93_13705 323 SKSTHGLIMVMGKGGVGKTTIAAALAIGLverGKTVHlSTTDPAAHIIGTLNGSLSGLQV 382
                              4455566999*************9997651114444424667887777777777777665 PP

>> VirC1  VirC1 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.3   0.0     0.034        11       9      45 ..      17      53 ..      11     110 .. 0.85
   2 !    8.6   0.2    0.0034       1.1      10      39 ..     335     364 ..     328     369 .. 0.89

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.034
                    VirC1  9 lkGGaGkttalmglcsalasdgkrvalfeadenrPlt 45
                              kGG Gkt+   ++  +l   gk+v l  +d    l 
  PHY93_13705|PHY93_13705 17 GKGGVGKTSLSTAIALTLSDSGKKVLLVSTDPASNLD 53
                             59******99999999************999776665 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0034
                    VirC1  10 kGGaGkttalmglcsalasdgkrvalfead 39 
                              kGG Gktt   +l   l+ +gk+v l  +d
  PHY93_13705|PHY93_13705 335 KGGVGKTTIAAALAIGLVERGKTVHLSTTD 364
                              9***********************998777 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   0.1      0.03       9.5      28      59 ..       5      36 ..       1      59 [. 0.74
   2 !    8.9   0.1    0.0032      0.99      16      54 ..     309     348 ..     296     365 .. 0.75

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.03
                    AAA_7 28 lllknkkpvllvGptGtGKtviikdllkkldk 59
                              l ++ + ++++G+ G+GKt++ + +  +l++
  PHY93_13705|PHY93_13705  5 ILTNSTRFLFFTGKGGVGKTSLSTAIALTLSD 36
                             455666667799*********99986666654 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 0.0032
                    AAA_7  16 tvdtvrysyllelllknkkp.vllvGptGtGKtviikdll 54 
                              + +++ +++l+++l k+ +  ++++G+ G+GKt+i+  l 
  PHY93_13705|PHY93_13705 309 NENNMGLDILIDQLSKSTHGlIMVMGKGGVGKTTIAAALA 348
                              5567788999999999888626788**********98855 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   0.1     0.056        18     123     190 ..       7      71 ..       1      82 [. 0.69
   2 !    8.9   0.0    0.0022      0.69     115     153 ..     315     351 ..     229     369 .. 0.75

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.056
                    T2SSE 123 rkavrerglilvsGgTgsGKttllyallkeinksderivtvEDpvEiqleganqvqlnakkakvtfad 190
                               ++      + ++G  g GKt l  a+  ++ +s +++++v      +l++   ++l++ +++v+ a+
  PHY93_13705|PHY93_13705   7 TNS---TRFLFFTGKGGVGKTSLSTAIALTLSDSGKKVLLVSTDPASNLDEMLGIELKNTAVSVPNAK 71 
                              444...667889***********999999999998888877544445666666666666655555555 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 0.0022
                    T2SSE 115 kekiaevlrkavrerglilvsGgTgsGKttllyallkei 153
                               + + + l+k+  ++gli+v G  g GKtt++ al   +
  PHY93_13705|PHY93_13705 315 LDILIDQLSKS--THGLIMVMGKGGVGKTTIAAALAIGL 351
                              34444555566..8****************998875444 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.4   0.1    0.0029       0.9       2      30 ..      13      41 ..      12      61 .. 0.90
   2 ?    6.9   0.5     0.017       5.3       2      30 ..     330     358 ..     329     364 .. 0.89

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.0029
                             EEEE--TTSSHHHHHHHHHHHH...GGGE CS
                 NTPase_1  2 vfiTGppGvGKtTlvkkvlellkssgvkv 30
                             +f TG+ GvGKt l   ++ +l++sg kv
  PHY93_13705|PHY93_13705 13 LFFTGKGGVGKTSLSTAIALTLSDSGKKV 41
                             589**********************9988 PP

  == domain 2  score: 6.9 bits;  conditional E-value: 0.017
                              EEEE--TTSSHHHHHHHHHHHH...GGGE CS
                 NTPase_1   2 vfiTGppGvGKtTlvkkvlellkssgvkv 30 
                              +++ G+ GvGKtT+   ++  l ++g +v
  PHY93_13705|PHY93_13705 330 IMVMGKGGVGKTTIAAALAIGLVERGKTV 358
                              6899************9999999988776 PP

>> CLP1_P  mRNA cleavage and polyadenylation factor CLP1 P-loop
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.1   0.2    0.0066       2.1       1      33 [.      17      49 ..      17      52 .. 0.92
   2 ?    5.9   0.0     0.032        10       1      44 [.     334     378 ..     334     400 .. 0.80

  Alignments for each domain:
  == domain 1  score: 8.1 bits;  conditional E-value: 0.0066
                   CLP1_P  1 GpkdsGKSTlarlLlNyalrkgrkpvyvDlDvG 33
                             G+  +GK++l++ ++ ++  +g+k+++v +D+ 
  PHY93_13705|PHY93_13705 17 GKGGVGKTSLSTAIALTLSDSGKKVLLVSTDPA 49
                             66789**************************96 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.032
                   CLP1_P   1 GpkdsGKSTlarlLlNyalrkgrkpvyvDlDvGqseis.pPgtis 44 
                              G+  +GK+T+a+ L+  ++++g+++ +  +D+    i+ ++g++s
  PHY93_13705|PHY93_13705 334 GKGGVGKTTIAAALAIGLVERGKTVHLSTTDPAAHIIGtLNGSLS 378
                              66789********************99999998777741466666 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.6   0.0     0.031       9.7       2      26 ..      14      38 ..      13      55 .. 0.84
   2 ?    7.3   0.0     0.019       6.1       1      25 [.     330     354 ..     330     369 .. 0.84

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.031
             RNA_helicase  2 wlyGpsgeGKStlakeLakallkkl 26
                             +++G+ g+GK++l++ +a +l+++ 
  PHY93_13705|PHY93_13705 14 FFTGKGGVGKTSLSTAIALTLSDSG 38
                             799*************999998654 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.019
             RNA_helicase   1 iwlyGpsgeGKStlakeLakallkk 25 
                              i++ G+ g+GK+t+a  La  l ++
  PHY93_13705|PHY93_13705 330 IMVMGKGGVGKTTIAAALAIGLVER 354
                              6899*************99888755 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   0.0     0.071        22      19      52 ..      13      47 ..       8      51 .. 0.83
   2 ?    8.6   0.2    0.0033         1      17      53 ..     328     364 ..     318     366 .. 0.89

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.071
               Zeta_toxin 19 illgGqpGAGKselaellkdele.rqgnvvrldpD 52
                             ++  G  G GK++l+++++  l  ++++v+ +++D
  PHY93_13705|PHY93_13705 13 LFFTGKGGVGKTSLSTAIALTLSdSGKKVLLVSTD 47
                             57789**************9999667777777666 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0033
               Zeta_toxin  17 klillgGqpGAGKselaellkdelerqgnvvrldpDd 53 
                               li++ G  G GK+++a++l+  l ++g+ v+l+++d
  PHY93_13705|PHY93_13705 328 GLIMVMGKGGVGKTTIAAALAIGLVERGKTVHLSTTD 364
                              579999**************************99865 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   0.0    0.0083       2.6      28      61 ..      14      45 ..       2     101 .. 0.86
   2 ?    5.3   0.1     0.055        17      16      51 ..     319     354 ..     296     361 .. 0.72

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.0083
                             EEEESTTSTHHHHHHHHHHHH-S.....-EEEEE CS
                   ResIII 28 likmaTGtGKTlvaaklierllkkgkeekflflv 61
                             ++    G+GKT ++++++  l+ +gk  k+l++ 
  PHY93_13705|PHY93_13705 14 FFTGKGGVGKTSLSTAIALTLSDSGK--KVLLVS 45
                             477888*****************988..899885 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.055
                              T......TTSEEEEEESTTSTHHHHHHHHHHHH-S. CS
                   ResIII  16 leklkskrdkrglikmaTGtGKTlvaaklierllkk 51 
                              +++l++  +  +++    G+GKT +aa+l+  l + 
  PHY93_13705|PHY93_13705 319 IDQLSKSTHGLIMVMGKGGVGKTTIAAALAIGLVER 354
                              5556533333344555789*******9998777665 PP

>> KTI12  Chromatin associated protein KTI12
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6   0.0     0.062        19       5      38 ..      14      47 ..      12      56 .. 0.90
   2 ?    8.0   0.1    0.0055       1.7       3      36 ..     329     362 ..     328     370 .. 0.90

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.062
                             EEE--TTSSHHHHHHHHHHHHHHTT--EEEE-TH CS
                    KTI12  5 vltGlPssGKstrakeLakaleeekrsvvvidde 38
                              +tG   +GK++++  +a +l++++++v +++++
  PHY93_13705|PHY93_13705 14 FFTGKGGVGKTSLSTAIALTLSDSGKKVLLVSTD 47
                             589999************************9976 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.0055
                              EEEEE--TTSSHHHHHHHHHHHHHHTT--EEEE- CS
                    KTI12   3 LvvltGlPssGKstrakeLakaleeekrsvvvid 36 
                              L++++G   +GK+t+a+ La  l e++++v++  
  PHY93_13705|PHY93_13705 329 LIMVMGKGGVGKTTIAAALAIGLVERGKTVHLST 362
                              99***************************99865 PP

>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   0.0     0.039        12      22      59 ..      13      49 ..       7     112 .. 0.88
   2 ?    7.3   0.0    0.0085       2.7      20      68 ..     328     374 ..     313     479 .. 0.74

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.039
                   ATPase 22 vlitGepGtGKtifalqFlikgaekygepgvfvtveep 59
                                tG+ G GKt ++   +++   + g+++++v+++  
  PHY93_13705|PHY93_13705 13 LFFTGKGGVGKTSLSTAIALTLSDS-GKKVLLVSTDPA 49
                             5679***************999777.********9854 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.0085
                   ATPase  20 rvvlitGepGtGKtifalqFlikgaekygepgvfvtveepaedlrenak 68 
                                + ++G+ G GKt++a+  +i  +e+ g ++v  ++  pa +++   +
  PHY93_13705|PHY93_13705 328 GLIMVMGKGGVGKTTIAAALAIGLVER-G-KTVHLSTTDPAAHIIGTLN 374
                              46899**************99988777.5.6677777777777776655 PP

>> PduV-EutP  Ethanolamine utilisation - propanediol utilisation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.1      0.21        67       4      21 ..      13      30 ..      10      36 .. 0.87
   2 ?   -1.6   0.0       6.7   2.1e+03      95     124 ..      91     120 ..      80     126 .. 0.81
   3 ?    9.1   0.1    0.0032         1       4      31 ..     330     357 ..     327     371 .. 0.80

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.21
                PduV-EutP  4 illiGkvgsGKttLtqal 21
                             +++ Gk g+GKt+L+ a+
  PHY93_13705|PHY93_13705 13 LFFTGKGGVGKTSLSTAI 30
                             6789**********9887 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 6.7
                PduV-EutP  95 iitkidlaedeenieaveelLksaGaekif 124
                              +i k+   ++ee ++ v+e+L+ a  ++i 
  PHY93_13705|PHY93_13705  91 VIDKMASDTSEEGLSEVREQLSGACTTEIA 120
                              577888888899999999999999888875 PP

  == domain 3  score: 9.1 bits;  conditional E-value: 0.0032
                PduV-EutP   4 illiGkvgsGKttLtqalkgeelkYkkt 31 
                              i+++Gk g+GKtt++ al    ++  kt
  PHY93_13705|PHY93_13705 330 IMVMGKGGVGKTTIAAALAIGLVERGKT 357
                              9**************9998666665555 PP

>> Thymidylate_kin  Thymidylate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.0      0.07        22       3      43 ..      17      57 ..      15      77 .. 0.72
   2 ?    0.8   0.0       1.1   3.4e+02     101     158 ..      51     110 ..      46     133 .. 0.71
   3 ?    6.0   0.1     0.027       8.6       5      45 ..     336     376 ..     333     398 .. 0.74

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.07
                             ESTTSSHHHHHHHHHHHHHHTTE.EEEESSSTTSHHHHHHH CS
          Thymidylate_kin  3 GlDGaGKttqaellkerlkeegikvvltrepggteiGekir 43
                             G  G+GKt+ + +++ +l+++g+kv+l   +  +++ e++ 
  PHY93_13705|PHY93_13705 17 GKGGVGKTSLSTAIALTLSDSGKKVLLVSTDPASNLDEMLG 57
                             6679*******************977766665566666664 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 1.1
                              TTTCHHHHHHGGGTTS..E-SEEEEEESSHHHHHTSCCTTSSTTTSHHHHHHHHHHHHHH CS
          Thymidylate_kin 101 gvdldlvlslnedvll..kPdltflldvdpevalkRlakrdeldeeeeeqldflrkvrer 158
                              ++d  l  +l+++++        f l++dp++a++  +kr   + +   +++ l +vre+
  PHY93_13705|PHY93_13705  51 NLDEMLGIELKNTAVSvpNAKGLFVLNIDPDNAAESYRKRVIDKMASDTSEEGLSEVREQ 110
                              566666667777776633333467788999999999999988666666777777777765 PP

  == domain 3  score: 6.0 bits;  conditional E-value: 0.027
                              TTSSHHHHHHHHHHHHHHTTE.EEEESSSTTSHHHHHHHHH CS
          Thymidylate_kin   5 DGaGKttqaellkerlkeegikvvltrepggteiGekirel 45 
                               G+GKtt+a++l+  l e+g+ v+l+  +    i  +++++
  PHY93_13705|PHY93_13705 336 GGVGKTTIAAALAIGLVERGKTVHLSTTDPAAHIIGTLNGS 376
                              599*****************997666554445554455555 PP

>> Phosphatase  Phosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   0.00022      0.07      77     140 ..     117     185 ..      76     216 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00022
              Phosphatase  77 rtvdaldrlaerlakaaerrervlla...tGHPakLlgvyaaladalra..aGcevltpaagrsveiet 140
                                ++a+d++a+ la+  ++ +++++    tGH  +Ll++ +a++  l++  +G++ l p +g +++ e 
  PHY93_13705|PHY93_13705 117 TEIAAFDEFAALLADSSTEYDHIVFDtapTGHTLRLLSLPKAWTGFLEDndRGASCLGPHSGLKMQEER 185
                              3589********************963337****************985337*********99987654 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.1       0.1        33       4      19 ..      15      30 ..      13      51 .. 0.84
   2 ?    7.5   0.1     0.014       4.5       2      21 ..     330     349 ..     329     371 .. 0.84

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.1
                             EESSTTSSHHHHHHCH CS
                      Roc  4 lvGdsgvGKtsllkrf 19
                             + G++gvGKtsl + +
  PHY93_13705|PHY93_13705 15 FTGKGGVGKTSLSTAI 30
                             67**********8765 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.014
                              EEEESSTTSSHHHHHHCHCT CS
                      Roc   2 vvlvGdsgvGKtsllkrfve 21 
                              ++++G++gvGKt+++  +  
  PHY93_13705|PHY93_13705 330 IMVMGKGGVGKTTIAAALAI 349
                              799***********988765 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.4   0.2    0.0084       2.6      21      54 ..       7      40 ..       3      47 .. 0.83
   2 ?    3.3   0.0      0.15        46      23      48 ..     326     351 ..     320     369 .. 0.82

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.0084
                             ETTSSEEEEEESTTSSHHHHHHHHHHHCTT.TTT CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 21 pfsksftaivGpNGSGKsnlldAilFvLGersak 54
                               s++f + +G+ G GK++l  Ai  +L+++ +k
  PHY93_13705|PHY93_13705  7 TNSTRFLFFTGKGGVGKTSLSTAIALTLSDSGKK 40
                             56788999********************976554 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.15
                              TSSEEEEEESTTSSHHHHHHHHHHHC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N  23 sksftaivGpNGSGKsnlldAilFvL 48 
                              ++++ +++G+ G GK+ +  A+   L
  PHY93_13705|PHY93_13705 326 THGLIMVMGKGGVGKTTIAAALAIGL 351
                              567889***************96555 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   0.0    0.0061       1.9      17      55 ..       7      45 ..       1     131 [. 0.74
   2 ?    2.7   0.0      0.32        99      12      41 ..     319     348 ..     312     441 .. 0.85

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0061
                 ATPase_2 17 repneiyfiYGpegsGKtaLlkeiienledkdkyviyyi 55
                             +++ +++f +G  g+GKt+L   i+  l+d++k+v+ ++
  PHY93_13705|PHY93_13705  7 TNSTRFLFFTGKGGVGKTSLSTAIALTLSDSGKKVLLVS 45
                             5678899***********************999887665 PP

  == domain 2  score: 2.7 bits;  conditional E-value: 0.32
                 ATPase_2  12 eeilerepneiyfiYGpegsGKtaLlkeii 41 
                                 l++++   +++ G  g+GKt++   ++
  PHY93_13705|PHY93_13705 319 IDQLSKSTHGLIMVMGKGGVGKTTIAAALA 348
                              556788899999***********9876655 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.9   0.0      0.36   1.1e+02       4      21 ..      15      32 ..      12      93 .. 0.83
   2 ?    7.5   0.2     0.014       4.3       2      42 ..     330     371 ..     329     532 .. 0.75

  Alignments for each domain:
  == domain 1  score: 2.9 bits;  conditional E-value: 0.36
                             EEESTTSSHHHHHHHHHT CS
                 MMR_HSR1  4 ivGrpNvGKStLinaltg 21
                             + G+  vGK++L  a+  
  PHY93_13705|PHY93_13705 15 FTGKGGVGKTSLSTAIAL 32
                             78999*******999874 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.014
                              EEEEESTTSSHHHHHHHHHTS.TEEESSSTTSSSSEEEEEEE CS
                 MMR_HSR1   2 vaivGrpNvGKStLinaltge.kaivsdkpgtTrdinegrvk 42 
                              ++++G+  vGK+t+  al    + + +  +  T+d+  + + 
  PHY93_13705|PHY93_13705 330 IMVMGKGGVGKTTIAAALAIGlVERGKTVHLSTTDPAAHIIG 371
                              799***************766234445555677777666554 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   0.0     0.069        22       2      38 ..      13      52 ..      13      66 .. 0.78
   2 ?    5.5   0.1      0.05        16       3      44 ..     331     372 ..     329     385 .. 0.78

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.069
                             EEEE--SSSSHHHHHHHGGGGB...S--EEEEE--TT--H CS
                    AAA_5  2 vlLvGppGtgKselaerlaaal...nreveyvqltrdtte 38
                             ++  G+ G+gK++l+  +a  l   +++v+ v      + 
  PHY93_13705|PHY93_13705 13 LFFTGKGGVGKTSLSTAIALTLsdsGKKVLLVSTDPASNL 52
                             5789**************9999777777777666555555 PP

  == domain 2  score: 5.5 bits;  conditional E-value: 0.05
                              EEE--SSSSHHHHHHHGGGGBS--EEEEE--TT--HHHHH-- CS
                    AAA_5   3 lLvGppGtgKselaerlaaalnreveyvqltrdtteedlkgr 44 
                              ++ G+ G+gK+++a  la  l  +  +v l+   ++++++g 
  PHY93_13705|PHY93_13705 331 MVMGKGGVGKTTIAAALAIGLVERGKTVHLSTTDPAAHIIGT 372
                              789*************99888666666666666666666665 PP

>> MobB  Molybdopterin guanine dinucleotide synthesis protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   0.1     0.061        19       2      33 ..      13      44 ..      12      51 .. 0.89
   2 ?    5.8   0.2     0.038        12       2      30 ..     330     358 ..     329     365 .. 0.90

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.061
                     MobB  2 lgivgksgsGKTtLleklipelkarglrvgti 33
                             l ++gk g GKT+L + +  +l+++g +v ++
  PHY93_13705|PHY93_13705 13 LFFTGKGGVGKTSLSTAIALTLSDSGKKVLLV 44
                             6799**********************999766 PP

  == domain 2  score: 5.8 bits;  conditional E-value: 0.038
                     MobB   2 lgivgksgsGKTtLleklipelkarglrv 30 
                              + ++gk g GKTt+   l   l +rg +v
  PHY93_13705|PHY93_13705 330 IMVMGKGGVGKTTIAAALAIGLVERGKTV 358
                              7899***************9999999877 PP

>> Ploopntkinase3  P-loop Nucleotide Kinase3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.0       2.1   6.6e+02       3      26 ..      10      33 ..       8      54 .. 0.83
   2 ?    8.3   0.1    0.0063         2       2      57 ..     326     382 ..     325     401 .. 0.79

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 2.1
           Ploopntkinase3  3 arliylvGqPGaGkstlmaeltkg 26
                             +r++++ G+ G Gk+ l ++++ +
  PHY93_13705|PHY93_13705 10 TRFLFFTGKGGVGKTSLSTAIALT 33
                             6999***********998876554 PP

  == domain 2  score: 8.3 bits;  conditional E-value: 0.0063
           Ploopntkinase3   2 tarliylvGqPGaGkstlmaeltkgfdrs.kveqeeetvphdvlvdrttGevvgael 57 
                              t+ li ++G+ G Gk+t+ a+l+ g++   k+ + ++t p+ +++ + +G   g ++
  PHY93_13705|PHY93_13705 326 THGLIMVMGKGGVGKTTIAAALAIGLVERgKTVHLSTTDPAAHIIGTLNGSLSGLQV 382
                              5779*******************9987541333344777888888888887777665 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   0.6      0.04        13      24      46 ..      12      34 ..       4      41 .. 0.80
   2 ?    8.3   0.4    0.0061       1.9      20      47 ..     325     352 ..     319     359 .. 0.80

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.04
                   AAA_29 24 atlltGpsGsGKSTllDAiqalL 46
                             + ++tG+ G+GK++l  Ai+  L
  PHY93_13705|PHY93_13705 12 FLFFTGKGGVGKTSLSTAIALTL 34
                             6789**********988887655 PP

  == domain 2  score: 8.3 bits;  conditional E-value: 0.0061
                   AAA_29  20 dlkgatlltGpsGsGKSTllDAiqalLv 47 
                              +++g ++++G+ G+GK+T+  A+++ Lv
  PHY93_13705|PHY93_13705 325 STHGLIMVMGKGGVGKTTIAAALAIGLV 352
                              5678899************988876555 PP

>> LpxK  Tetraacyldisaccharide-1-P 4'-kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2   0.1    0.0077       2.4      46      72 ..      19      45 ..      17      53 .. 0.96
   2 ?    4.5   0.6     0.049        15      46      69 ..     336     359 ..     329     362 .. 0.91

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.0077
                             S-HSHHHHHHHHHHHTTTS..-EEEEE CS
                     LpxK 46 GGtGKTPlvialvkllqarglkvgvlS 72
                             GG GKT+l  a++ +l+++g kv  +S
  PHY93_13705|PHY93_13705 19 GGVGKTSLSTAIALTLSDSGKKVLLVS 45
                             9***********************998 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.049
                              S-HSHHHHHHHHHHHTTTS..-EE CS
                     LpxK  46 GGtGKTPlvialvkllqarglkvg 69 
                              GG GKT +++al+  l++rg +v+
  PHY93_13705|PHY93_13705 336 GGVGKTTIAAALAIGLVERGKTVH 359
                              9*******************9987 PP

>> CTP_synth_N  CTP synthase N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.3   0.0     0.034        11       2      45 ..      12      53 ..      11      61 .. 0.88
   2 ?    3.3   0.3      0.14        44      11      41 ..     336     366 ..     329     379 .. 0.85
   3 ?   -0.7   0.0       2.3   7.2e+02     189     209 ..     464     484 ..     424     500 .. 0.75

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.034
                             EEEEEE--STTTTHHHHHHHHHHHHHCTT--EEEEEEE-SSSSS CS
              CTP_synth_N  2 yilvtGGvvSglGkGiiaaslgallksrglkvtlikiDPYlnvd 45
                             +++ tG    g+Gk  ++++++  l  +g kv l+  DP  n+d
  PHY93_13705|PHY93_13705 12 FLFFTGK--GGVGKTSLSTAIALTLSDSGKKVLLVSTDPASNLD 53
                             5666664..69****************************99988 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.14
                              TTTTHHHHHHHHHHHHHCTT--EEEEEEE-S CS
              CTP_synth_N  11 SglGkGiiaaslgallksrglkvtlikiDPY 41 
                               g+Gk  iaa+l+  l +rg +v+l   DP 
  PHY93_13705|PHY93_13705 336 GGVGKTTIAAALAIGLVERGKTVHLSTTDPA 366
                              599**************************95 PP

  == domain 3  score: -0.7 bits;  conditional E-value: 2.3
                              HHHHHHHHHHHHT---SEEEE CS
              CTP_synth_N 189 ptqhsvkelrslGiqpdiivc 209
                                ++sv++l ++Gi+ d iv+
  PHY93_13705|PHY93_13705 464 YHRQSVRDLSKAGINLDRIVT 484
                              46789**********999986 PP

>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   0.0      0.22        71      25      60 ..      13      50 ..       2      61 .. 0.64
   2 ?    6.3   0.1     0.023       7.3      22      43 ..     327     348 ..     309     380 .. 0.79

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.22
                             EEEECSTTSSHHHHHHHHHHHSTTTTS..-EEEEETTT CS
          Sigma54_activat 25 vlitGesGtGKellaraiheaskrkek..pfvavncaa 60
                             ++ tG+ G+GK+ l++ai  + + + k   +v+ + a+
  PHY93_13705|PHY93_13705 13 LFFTGKGGVGKTSLSTAIALTLSDSGKkvLLVSTDPAS 50
                             5689***********99976444433301345555555 PP

  == domain 2  score: 6.3 bits;  conditional E-value: 0.023
                              SS-EEEECSTTSSHHHHHHHHH CS
          Sigma54_activat  22 dlsvlitGesGtGKellaraih 43 
                              +  ++++G+ G+GK+++a a+ 
  PHY93_13705|PHY93_13705 327 HGLIMVMGKGGVGKTTIAAALA 348
                              45689*************9875 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   0.3     0.045        14      19      43 ..      10      34 ..       1      42 [. 0.79
   2 ?    6.9   0.3     0.019         6      12      43 ..     320     351 ..     309     363 .. 0.79

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.045
                             TEEEEEEESTTSSHHHHHHHHHHHT CS
                     TsaE 19 gdvilLeGdLGaGKTtlvrglakal 43
                             +++++++G+ G+GKT l+ ++a +l
  PHY93_13705|PHY93_13705 10 TRFLFFTGKGGVGKTSLSTAIALTL 34
                             56799**************999776 PP

  == domain 2  score: 6.9 bits;  conditional E-value: 0.019
                              HHHHHCHTEEEEEEESTTSSHHHHHHHHHHHT CS
                     TsaE  12 kklakalgdvilLeGdLGaGKTtlvrglakal 43 
                               +l k+++ +i+  G+ G+GKTt++ +la +l
  PHY93_13705|PHY93_13705 320 DQLSKSTHGLIMVMGKGGVGKTTIAAALAIGL 351
                              56666566789***************999887 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.0      0.17        55      25      55 ..      13      43 ..       5      61 .. 0.83
   2 ?    5.8   0.3     0.025       7.7      23      48 ..     327     353 ..     321     373 .. 0.77

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.17
             Mg_chelatase 25 lllvGppGsGKtmlakrlpsllpplseeeal 55
                             l+++G  G GKt l ++++  l++  ++  l
  PHY93_13705|PHY93_13705 13 LFFTGKGGVGKTSLSTAIALTLSDSGKKVLL 43
                             789**************99999887776655 PP

  == domain 2  score: 5.8 bits;  conditional E-value: 0.025
             Mg_chelatase  23 Hnlll.vGppGsGKtmlakrlpsllpp 48 
                              H l++ +G  G GKt +a++l+  l +
  PHY93_13705|PHY93_13705 327 HGLIMvMGKGGVGKTTIAAALAIGLVE 353
                              7666537************99865555 PP

>> DUF1611  Domain of unknown function (DUF1611_C) P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.5   0.0       0.5   1.6e+02      24      56 ..      21      53 ..      13      68 .. 0.88
   2 ?    6.6   0.3     0.014       4.3      15      57 ..     330     371 ..     319     398 .. 0.84

  Alignments for each domain:
  == domain 1  score: 1.5 bits;  conditional E-value: 0.5
                  DUF1611 24 vGKrttaleleealeerGlkaafvaTgqtgili 56
                             vGK + +++++ +l ++G k+ +v+T++++ l 
  PHY93_13705|PHY93_13705 21 VGKTSLSTAIALTLSDSGKKVLLVSTDPASNLD 53
                             8**************************998775 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.014
                  DUF1611  15 vlvvGTdcavGKrttaleleealeerGlkaafvaTgqtgilia 57 
                              ++v+G +  vGK t a +l+  l erG ++ +  T++++ +i 
  PHY93_13705|PHY93_13705 330 IMVMGKG-GVGKTTIAAALAIGLVERGKTVHLSTTDPAAHIIG 371
                              7777766.59***************************998883 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   0.2    0.0093       2.9       2      28 ..      12      38 ..      11      46 .. 0.86
   2 ?    7.3   1.2     0.013       4.2       2      26 ..     329     353 ..     328     360 .. 0.86

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0093
                             CEEEEC-TTTCHHHHHHHHHHHHCTS- CS
                    NACHT  2 lvilqGeaGsGKTtLlqklalawaegk 28
                              ++ +G+ G+GKT L   +al++ ++ 
  PHY93_13705|PHY93_13705 12 FLFFTGKGGVGKTSLSTAIALTLSDSG 38
                             57899****************998876 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.013
                              CEEEEC-TTTCHHHHHHHHHHHHCT CS
                    NACHT   2 lvilqGeaGsGKTtLlqklalawae 26 
                              l+++ G+ G+GKTt ++ la  + e
  PHY93_13705|PHY93_13705 329 LIMVMGKGGVGKTTIAAALAIGLVE 353
                              58899*************9987765 PP

>> AAA_26  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.4      0.46   1.5e+02      11      32 ..      20      41 ..      13      44 .. 0.88
   2 ?    1.9   0.0      0.54   1.7e+02     130     177 ..     200     248 ..     194     265 .. 0.77
   3 ?    3.5   0.1      0.17        53      11      32 ..     337     358 ..     297     361 .. 0.80

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.46
                   AAA_26 11 gvGKTvvslgLvralkrkgvkv 32
                             gvGKT++s++++  l++ g kv
  PHY93_13705|PHY93_13705 20 GVGKTSLSTAIALTLSDSGKKV 41
                             8***********9999888776 PP

  == domain 2  score: 1.9 bits;  conditional E-value: 0.54
                   AAA_26 130 pvilVargglgtinqllltiealrqknvrvlGvilNkvrnp.envetle 177
                               +ilV+r+++++i  ++ t + lr  ++r   +i+N v ++ ++ +++ 
  PHY93_13705|PHY93_13705 200 TIILVTRPDQSAISEAARTSDELRLLGLRNQRLIINAVFQAsDPEDSVA 248
                              59**********************9888888888888744324334333 PP

  == domain 3  score: 3.5 bits;  conditional E-value: 0.17
                   AAA_26  11 gvGKTvvslgLvralkrkgvkv 32 
                              gvGKT+++++L+  l ++g  v
  PHY93_13705|PHY93_13705 337 GVGKTTIAAALAIGLVERGKTV 358
                              7899999999988877766655 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.1      0.33     1e+02       8      49 ..       8      45 ..       2     215 .. 0.82
   2 ?    4.5   1.6      0.13        41       8      38 ..     325     355 ..     320     391 .. 0.78

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.33
                   AAA_19  8 lkekvllvtaGpGtGKTrvlkhivallvelggvkpeeillva 49
                              + + l+ t+  G GKT + ++i   l + g    +++llv+
  PHY93_13705|PHY93_13705  8 NSTRFLFFTGKGGVGKTSLSTAIALTLSDSG----KKVLLVS 45
                             5667888999999***998877777777766....4555554 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.13
                   AAA_19   8 lkekvllvtaGpGtGKTrvlkhivallvelg 38 
                              +++++++v++  G GKT++  +    lve+g
  PHY93_13705|PHY93_13705 325 STHGLIMVMGKGGVGKTTIAAALAIGLVERG 355
                              678999***********99887766666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (590 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       573  (0.0319594); expected 358.6 (0.02)
Passed bias filter:                      523  (0.0291706); expected 358.6 (0.02)
Passed Vit filter:                       103  (0.00574488); expected 17.9 (0.001)
Passed Fwd filter:                        57  (0.00317921); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              57  [number of targets reported over threshold]
# CPU time: 0.82u 0.29s 00:00:01.10 Elapsed: 00:00:00.47
# Mc/sec: 3771.26
//
Query:       PHY93_13710|PHY93_13710  [L=296]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (296 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       313  (0.0174578); expected 358.6 (0.02)
Passed bias filter:                      276  (0.0153941); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1977.92
//
Query:       PHY93_13715|PHY93_13715  [L=441]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.3e-12   46.6   0.1    3.8e-11   43.1   0.1    2.4  2  Response_reg  Response regulator receiver domain
    2.9e-07   30.7   0.0    6.9e-07   29.4   0.0    1.6  1  HD_5          HD domain
  ------ inclusion threshold ------
      0.014   15.0   0.1       0.03   13.9   0.1    1.5  1  ArsR          ArsR transcriptional regulator


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.1   0.1   6.3e-15   3.8e-11       1      84 [.       3      88 ..       3     113 .. 0.87
   2 ?    0.4   0.0      0.11   6.9e+02      43     100 ..     362     420 ..     322     425 .. 0.63

  Alignments for each domain:
  == domain 1  score: 43.1 bits;  conditional E-value: 6.3e-15
                             EEEESSSHHHHHHHHHHHH...HTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHH CS
             Response_reg  1 vlivdDdplvrellrqlle...eegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseee 84
                             +livdD+   +e++  l++     g+  v+ a+ g++a+++lk+ k+dl+++D nmp+  G  +lk i +e+++++ +++++ +  +
  PHY93_13715|PHY93_13715  3 ILIVDDEDECAEIMDYLIKglfPIGV-IVHIANGGNDAIQILKTFKIDLCICDHNMPNGMGNIVLKYITDEKQKTKFVLCSTVAPTD 88
                             8******************8655677.888999**********************************************99876555 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.11
                              HESEEEEE.SSCSSSEHHHHHHHHHHCT..TTSEEEEEESSTSHHHHHHHHHCTESEEEES CS
             Response_reg  43 kvdlillD.inmpgmdGlellkeireed..pelpviiltahseeedavealkagaddflsK 100
                              ++d ill   +mp+ +G+   ++i+++   p + v ilt+  +   + e+     + fl K
  PHY93_13715|PHY93_13715 362 DIDRILLEqHEMPDGTGFP--QKINAHRlnPLTCVFILTGILARCILAEGATFQLENFLKK 420
                              3777777624788766655..5555554438888888998777777777777777777776 PP

>> HD_5  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.4   0.0   1.2e-10   6.9e-07       4      54 ..     335     385 ..     332     391 .. 0.89

  Alignments for each domain:
  == domain 1  score: 29.4 bits;  conditional E-value: 1.2e-10
                     HD_5   4 tpeerellqehpeaaarlLsklprlpkdvaeiigqhhErldGsGyPrglkg 54 
                                +e   +  hp+a+++++s  +++p d+ +i + +hE  dG+G+P+++ +
  PHY93_13715|PHY93_13715 335 DKNEIITFMNHPKATKKMISFFKEIPNDIDRILLEQHEMPDGTGFPQKINA 385
                              5566667999*************************************9876 PP

>> ArsR  ArsR transcriptional regulator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.1     5e-06      0.03      26      76 ..     228     281 ..     216     320 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 5e-06
                     ArsR  26 lskeWlteeeleeklgeeveealklLkkikliEsqWrmpe.pgekpekeY..ht 76 
                              + k+   + el++ ++e+ +++++++ k++l+++ W+ ++  ge p+  Y  h+
  PHY93_13715|PHY93_13715 228 MAKSHGMTPELAQITKENIQQSVSIITKTNLLDNFWKETNlSGEYPSDLYtlHS 281
                              5555556689*****************************999****99883344 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (441 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       598  (0.0333538); expected 358.6 (0.02)
Passed bias filter:                      322  (0.0179597); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.60u 0.23s 00:00:00.83 Elapsed: 00:00:00.46
# Mc/sec: 2883.94
//
Query:       PHY93_13720|PHY93_13720  [L=361]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
  ------ inclusion threshold ------
       0.03   13.5   1.9        3.4    6.8   0.0    2.3  2  Porin_O_P  Phosphate-selective porin O and P


Domain annotation for each model (and alignments):
>> Porin_O_P  Phosphate-selective porin O and P
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   0.6   0.00036       6.5      54     130 ..     131     197 ..      83     237 .. 0.62
   2 ?    6.8   0.0   0.00019       3.4     294     326 ..     306     335 ..     302     353 .. 0.83

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.00036
                              S-SSBTTTB-.....EEEEEEEE-TTTTSEEEEEE------HHHHS-TTT-SSSS--GGSGGGG--TTEEEEEEEEE CS
                Porin_O_P  54 ksadgtslgdnlsssledayvdyklfdkfalrvGkqkvpfgleeltssnailfleradladtvnadnfsrgvgvswk 130
                              k+      g++ ++++   +++y+  ++ ++r+G++ ++fg   +     il+  r+   +  + +  +++v + w 
  PHY93_13720|PHY93_13720 131 KQE----AGNTVKGEFLRFFLQYQAMEELTIRAGRFIPNFGVNIA---EHILATRRG---LGFDEGSERDQVEAMWS 197
                              222....23334446999**********************98665...556666666...55555555555555555 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.00019
                              EEEEEEEETTSS-EEEEEEEEEEEEE-SSSEEE CS
                Porin_O_P 294 ydaldlndknvtggrqdgytlGvnwYpksnlrf 326
                              y + dlnd+      +++y +G++wYp+++++f
  PHY93_13720|PHY93_13720 306 YQKSDLNDG---LTLANSYGAGMEWYPRPHFEF 335
                              777888877...567899*************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (361 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       372  (0.0207485); expected 358.6 (0.02)
Passed bias filter:                      299  (0.0166769); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.46
# Mc/sec: 2380.10
//
Query:       PHY93_13725|PHY93_13725  [L=185]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.3e-18   65.3   0.1    1.2e-17   64.8   0.1    1.3  1  YceI      YceI-like domain


Domain annotation for each model (and alignments):
>> YceI  YceI-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.8   0.1   6.7e-22   1.2e-17      32     144 ..      56     180 ..      13     182 .. 0.83

  Alignments for each domain:
  == domain 1  score: 64.8 bits;  conditional E-value: 6.7e-22
                              EEEE..TTT.EEEEEEEEGGGEESS.HCHHHHHHCTCTT-TTT--EEEECCCCEE................EEEEEEETTEEEEEE CS
                     YceI  32 elsvdeddpessvevtidvasidtgnakrdehlksadffdvakyPtatFvstsve..............akvtGdLtikGvtkpvt 103
                              +++      + sve ++ ++ +dtg   rdeh+k+ +f++v+k+Pta ++s +++              +  +G+Lt++G++++v 
  PHY93_13725|PHY93_13725  56 RIND----NKMSVESNLVLNDLDTGIGLRDEHMKE-EFLQVKKFPTALLKSENITlpngfeakpsdvkdQAFEGKLTLHGKEQKVA 136
                              2221....1244666799****************9.*********************************669************** PP

                              EEEEEEEEECCEECEEEEEGGGGTC......TTTC-SEEEEEEEE CS
                     YceI 104 lpvtvngaaagfsatgtidrtdFGlkr....galvgdeveleiel 144
                               ++++n++ ++ +a+++i++tdFG++     g++v+d v ++ ++
  PHY93_13725|PHY93_13725 137 GTFSLNES-LELVAKFNIKLTDFGIEIpnylGVVVADIVAIDTKI 180
                              *****854.6688***********9778889999*****999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (185 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       339  (0.0189079); expected 358.6 (0.02)
Passed bias filter:                      259  (0.0144459); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.25s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 1229.85
//
Query:       PHY93_13730|PHY93_13730  [L=240]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.5e-07   29.2   0.0      0.014   15.7   0.0    2.2  2  Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
    1.4e-06   28.8   0.4      0.014   16.0   0.0    3.0  2  PSCyt1           Planctomycete cytochrome C
    7.6e-05   22.7   1.9        7.1    6.6   0.2    4.2  4  Haem_bd          Haem-binding domain
    0.00034   20.8   0.0        0.1   12.9   0.0    2.3  2  PSCyt3           Protein of unknown function (DUF1588)
     0.0024   19.0   0.0        3.5    8.8   0.0    2.3  2  Cytochrom_C      Cytochrome c
     0.0051   16.5   0.2        1.7    8.5   0.0    2.3  2  Paired_CXXCH_1   Doubled CXXCH motif (Paired_CXXCH_1)
     0.0078   17.1   0.0        2.6    9.0   0.0    2.2  2  Cytochrome_C554  Cytochrome c554 and c-prime
  ------ inclusion threshold ------
      0.017   15.4   0.0        6.9    7.0   0.0    2.2  2  DUF3365          Protein of unknown function (DUF3365)
       0.12   12.4   0.0        5.1    7.2   0.0    2.2  2  Cytochrome_C7    Cytochrome c7 and related cytochrome c


Domain annotation for each model (and alignments):
>> Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   7.1e-06     0.014       9      67 .]      51     113 ..      45     113 .. 0.66
   2 !   11.3   0.0   0.00016      0.32      13      49 ..     174     214 ..     167     228 .. 0.67

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 7.1e-06
          Cytochrome_CBB3   9 lykknCasCHgkggag...pslagrdwep......dalvdiiknGkgaMpafggqlsdeelwalvaYl 67 
                              + + +C +CH +gg++    +l+     +      +a+ ++++ G   Mp + + l+++e++   a++
  PHY93_13730|PHY93_13730  51 IIAPKCLGCHSNGGGNaggVNLESY---AnvsghlAAISSAVTSG--SMPKYISPLTAKEKEVFLAWI 113
                              55668*****955444335333322...11222447888888887..7******99999988777775 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 0.00016
          Cytochrome_CBB3  13 nCasCHg.kggag..pslagr...dwepdalvdiiknGkgaMp 49 
                               C sCH  +gg+    +l+       e + ++++i nG   Mp
  PHY93_13730|PHY93_13730 174 RCISCHSnSGGNSagINLETYesvFNERSGIKSVISNGS--MP 214
                              7*****964433333666633223444699999999995..44 PP

>> PSCyt1  Planctomycete cytochrome C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.3   0.2   0.00083       1.6       1      23 [.      56      79 ..      56      97 .. 0.80
   2 !   16.0   0.0     7e-06     0.014       1      33 [.     175     208 ..     175     214 .. 0.88

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.00083
                   PSCyt1  1 CyeCHgpdda.egglrLdsrdaal 23
                             C+ CH+      gg++L+s +++ 
  PHY93_13730|PHY93_13730 56 CLGCHSNGGGnAGGVNLESYANVS 79
                             ******99999*******998664 PP

  == domain 2  score: 16.0 bits;  conditional E-value: 7e-06
                   PSCyt1   1 CyeCHgpdda.egglrLdsrdaalkggesg.aaiv 33 
                              C++CH+ +    +g++L++ ++++ +++sg + ++
  PHY93_13730|PHY93_13730 175 CISCHSNSGGnSAGINLETYESVF-NERSGiKSVI 208
                              *********99*************.5899976665 PP

>> Haem_bd  Haem-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.3   0.0    0.0044       8.8      34      49 ..      48      63 ..      18      94 .. 0.67
   2 ?    4.6   0.0     0.015        29      90     132 ..      79     114 ..      68     115 .. 0.80
   3 !    6.6   0.2    0.0035       7.1      35      49 ..     168     182 ..     144     197 .. 0.81
   4 ?    2.9   0.0     0.049        97      91     132 ..     199     234 ..     185     235 .. 0.75

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.0044
                  Haem_bd 34 vkkiLeksCydCHsne 49
                             ++ i+  +C  CHsn 
  PHY93_13730|PHY93_13730 48 AAGIIAPKCLGCHSNG 63
                             4567799*******95 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.015
                  Haem_bd  90 esklaeieevieegemPlksYlllhpeaklseeekqallewik 132
                              + +la i + +++g+mP   Y+     + l+++ek++ l+wi+
  PHY93_13730|PHY93_13730  79 SGHLAAISSAVTSGSMPK--YI-----SPLTAKEKEVFLAWID 114
                              455899999999999998..55.....5799999999999985 PP

  == domain 3  score: 6.6 bits;  conditional E-value: 0.0035
                  Haem_bd  35 kkiLeksCydCHsne 49 
                               +++e +C  CHsn+
  PHY93_13730|PHY93_13730 168 TRVIEPRCISCHSNS 182
                              456799*******97 PP

  == domain 4  score: 2.9 bits;  conditional E-value: 0.049
                  Haem_bd  91 sklaeieevieegemPlksYlllhpeaklseeekqallewik 132
                              ++ + i++vi++g+mP +       +  l++ +kq+ l+w++
  PHY93_13730|PHY93_13730 199 NERSGIKSVISNGSMPRP------TNRPLTSIQKQIFLTWLN 234
                              5667799999*****985......456677777777777775 PP

>> PSCyt3  Protein of unknown function (DUF1588)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.7   0.0    0.0087        17      67      91 ..      52      78 ..      16      82 .. 0.79
   2 !   12.9   0.0     5e-05       0.1      44      91 ..     148     197 ..     132     203 .. 0.64

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.0087
                   PSCyt3 67 saeaCasCHe..lidplGfalenfdav 91
                              a++C +CH+    +  G+ le++ +v
  PHY93_13730|PHY93_13730 52 IAPKCLGCHSngGGNAGGVNLESYANV 78
                             5789*****966679999****99765 PP

  == domain 2  score: 12.9 bits;  conditional E-value: 5e-05
                   PSCyt3  44 nvpelkeeeeeelttrerleahrsaeaCasCHe..lidplGfalenfdav 91 
                              ++p+++   + ++   + ++++  +++C sCH+    +  G+ le++++v
  PHY93_13730|PHY93_13730 148 TIPPAEVMPDPNKIDYQMVNTRVIEPRCISCHSnsGGNSAGINLETYESV 197
                              222222222222344556666668999*****965579*********987 PP

>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.8   0.0    0.0017       3.5      11      28 ..      55      79 ..      43     127 .. 0.74
   2 !    8.0   0.0    0.0031       6.2      11      28 ..     174     213 ..     164     238 .. 0.60

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.0017
                             TGGGTB-SSSBSSS........... CS
              Cytochrom_C 11 nCaaCHgvegggakqgg.......g 28
                             +C +CH+ +gg a++ +       +
  PHY93_13730|PHY93_13730 55 KCLGCHSNGGGNAGGVNlesyanvS 79
                             8*****9999888755466644442 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.0031
                              TGGGTB-SSSBSSS.......................... CS
              Cytochrom_C  11 nCaaCHgvegggakqgg......................g 28 
                               C +CH+  gg  ++ +                       
  PHY93_13730|PHY93_13730 174 RCISCHSNSGGNSAGINletyesvfnersgiksvisngsM 213
                              8*****8777766543355555555555555555555554 PP

>> Paired_CXXCH_1  Doubled CXXCH motif (Paired_CXXCH_1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.9   0.0    0.0055        11       8      18 ..      55      65 ..      49      74 .. 0.74
   2 !    8.5   0.0   0.00083       1.7       8      22 ..     174     188 ..     168     196 .. 0.81

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.0055
           Paired_CXXCH_1  8 eClsCHnphgs 18
                             +Cl CH+  g+
  PHY93_13730|PHY93_13730 55 KCLGCHSNGGG 65
                             58888876665 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.00083
           Paired_CXXCH_1   8 eClsCHnphgsdnpk 22 
                               C sCH+  g++ ++
  PHY93_13730|PHY93_13730 174 RCISCHSNSGGNSAG 188
                              6******99998876 PP

>> Cytochrome_C554  Cytochrome c554 and c-prime
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.0   0.0    0.0013       2.6      48      69 ..      53      74 ..      22      82 .. 0.83
   2 ?    6.0   0.0     0.011        23      43      68 ..     167     192 ..     151     202 .. 0.73

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.0013
                             -TTTGGGSBSTTTSTT---SSS CS
          Cytochrome_C554 48 apeClkCHatgagkdkgfvlke 69
                             ap+Cl+CH  g g+ +g+ l++
  PHY93_13730|PHY93_13730 53 APKCLGCHSNGGGNAGGVNLES 74
                             79**********9999987654 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.011
                              S--TT-TTTGGGSBSTTTSTT---SS CS
          Cytochrome_C554  43 kdaeeapeClkCHatgagkdkgfvlk 68 
                              ++   +p+C++CH    g+  g+ l+
  PHY93_13730|PHY93_13730 167 NTRVIEPRCISCHSNSGGNSAGINLE 192
                              4455789******9988887776665 PP

>> DUF3365  Protein of unknown function (DUF3365)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.4   0.0    0.0051        10     104     124 ..      42      62 ..      12      78 .. 0.76
   2 ?    7.0   0.0    0.0035       6.9     110     125 ..     166     182 ..     152     205 .. 0.76

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.0051
                              TEEEEEEEEE--TTTHHHHS- CS
                  DUF3365 104 rvfryarplrveesClkCHgd 124
                              + +   ++  + ++Cl CH++
  PHY93_13730|PHY93_13730  42 PGYQTIAAGIIAPKCLGCHSN 62 
                              55667777788999*****86 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.0035
                              EEEE-.-TTTHHHHS-G CS
                  DUF3365 110 rplrv.eesClkCHgdp 125
                                 rv e+ C++CH++ 
  PHY93_13730|PHY93_13730 166 VNTRViEPRCISCHSNS 182
                              445566********987 PP

>> Cytochrome_C7  Cytochrome c7 and related cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   0.0     0.047        93      15      56 ..      55      62 ..      18      87 .. 0.73
   2 ?    7.2   0.0    0.0025       5.1      49      60 ..     168     185 ..     146     205 .. 0.71

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.047
            Cytochrome_C7 15 kCtdCHsklfeskakkkmaemekgkskkaevesltCgaCHdg 56
                             k                                  C  CH +
  PHY93_13730|PHY93_13730 55 K----------------------------------CLGCHSN 62
                             4..................................5555544 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.0025
            Cytochrome_C7  49 t......CgaCHdgknaf 60 
                              t      C++CH ++  +
  PHY93_13730|PHY93_13730 168 TrvieprCISCHSNSGGN 185
                              122346699999887665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (240 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       452  (0.0252106); expected 358.6 (0.02)
Passed bias filter:                      317  (0.0176809); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 1639.80
//
Query:       PHY93_13735|PHY93_13735  [L=261]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (261 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       535  (0.0298399); expected 358.6 (0.02)
Passed bias filter:                      479  (0.0267165); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.54u 0.26s 00:00:00.80 Elapsed: 00:00:00.47
# Mc/sec: 1664.03
//
Query:       PHY93_13740|PHY93_13740  [L=40]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (40 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       164  (0.00914719); expected 358.6 (0.02)
Passed bias filter:                      146  (0.00814323); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.24s 00:00:00.64 Elapsed: 00:00:00.43
# Mc/sec: 281.90
//
Query:       PHY93_13745|PHY93_13745  [L=184]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.6e-16   60.1   0.0    4.5e-16   59.8   0.0    1.1  1  Acetyltransf_3  Acetyltransferase (GNAT) domain
      0.001   19.3   0.0     0.0014   18.9   0.0    1.3  1  Acetyltransf_1  Acetyltransferase (GNAT) family
  ------ inclusion threshold ------
      0.013   15.6   0.2      0.016   15.3   0.2    1.2  1  Acetyltransf_4  Acetyltransferase (GNAT) domain


Domain annotation for each model (and alignments):
>> Acetyltransf_3  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.8   0.0   7.6e-20   4.5e-16       2     135 ..      15     153 ..      14     155 .. 0.80

  Alignments for each domain:
  == domain 1  score: 59.8 bits;  conditional E-value: 7.6e-20
           Acetyltransf_3   2 LlLrplteeDlealfe.lrsdpe.vmrylpe...pltleeaeewlera...waeeseeeg.ygwaivlkdtgv.iGsvglrdleee 77 
                              + L +   + ++++fe + +d++ + r+lp+     ++e++ ++++++   w++    +g   + i+ +++++ iG ++ + l++ 
  PHY93_13745|PHY93_13745  15 ISLKRHNISLAQKMFEyVTEDEKrLSRFLPWpkfINKVEDEIDFINKCndlWEK----NGaADYGIFRNEDNEyIGNISSFALSWA 96 
                              556666667788899746677778889*99944444455555555554666665....553569**99888877************ PP

           Acetyltransf_3  78 deeaelgymlapsfwgkGyateavralleyafeelglerlvavidkeNeaSirvlekl 135
                              +e++e+gy++  +f g+Gy +eav al e++f+    +r+v++ d+ N +S  + ++l
  PHY93_13745|PHY93_13745  97 NESCEIGYWILGKFEGHGYISEAVVALEEVLFKIG-FNRIVIRFDPLNNKSGSIPKRL 153
                              *******************************9766.****************999887 PP

>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.0   2.3e-07    0.0014      31     107 ..      70     145 ..      28     153 .. 0.77

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 2.3e-07
                              TTC.EEEEEEETTEEEEEEEEEEEETTSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHTTESEEEEEEETTEHH CS
           Acetyltransf_1  31 eae.gllvaeedgeliGfisllkipdekggvayieslaVspeyrgkGlGsaLlealeerareegikkivlaveednda 107
                               a  ++++  ed+e iG is +   +   ++   +++++  ++ g+G+ s+ + alee +++ g+++iv+  ++ n++
  PHY93_13745|PHY93_13745  70 GAAdYGIFRNEDNEYIGNISSFALSW--ANESCEIGYWILGKFEGHGYISEAVVALEEVLFKIGFNRIVIRFDPLNNK 145
                              222477788899**************..7888888*********************************9966555655 PP

>> Acetyltransf_4  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.3   0.2   2.7e-06     0.016      54     152 ..      76     173 ..      25     175 .. 0.87

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 2.7e-06
           Acetyltransf_4  54 vae..sdrivGyaylgqfkkrakdwkaelsvylaerdnnkeglgrelidaleqvlkeqnienllaeiaspnensiqfhkalGFelv 137
                              ++   + + +G     ++ +   ++++e+ +++  ++ +  g+++e + ale+vl + ++++++++    n +s  + k+l +  +
  PHY93_13745|PHY93_13745  76 IFRneDNEYIGNISSFALSW--ANESCEIGYWIL-GKFEGHGYISEAVVALEEVLFKIGFNRIVIRFDPLNNKSGSIPKRLNYIYE 158
                              54444788889988889999..9**********8.99*****************************9988999************* PP

           Acetyltransf_4 138 gifkkcikkngrwiD 152
                              g +++ ik+n r  D
  PHY93_13745|PHY93_13745 159 GTLRESIKVNERFRD 173
                              ********9999755 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (184 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       394  (0.0219756); expected 358.6 (0.02)
Passed bias filter:                      338  (0.0188521); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.47u 0.25s 00:00:00.72 Elapsed: 00:00:00.44
# Mc/sec: 1263.22
//
Query:       PHY93_13750|PHY93_13750  [L=163]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
       0.11   12.5   0.1        0.2   11.6   0.1    1.5  1  Flg_bb_rod  Flagella basal body rod protein


Domain annotation for each model (and alignments):
>> Flg_bb_rod  Flagella basal body rod protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.1   1.1e-05       0.2      17      28 ..      44      55 ..      33      56 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 1.1e-05
               Flg_bb_rod 17 vianNiANanTt 28
                              i++NiAN+ Tt
  PHY93_13750|PHY93_13750 44 AISSNIANIKTT 55
                             59*******998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (163 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       636  (0.0354733); expected 358.6 (0.02)
Passed bias filter:                      470  (0.0262145); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.26s 00:00:00.72 Elapsed: 00:00:00.44
# Mc/sec: 1124.79
//
Query:       PHY93_05875|PHY93_05875  [L=519]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.5e-16   58.7   0.6    1.6e-15   57.2   0.3    2.0  2  Yop-YscD_cpl  Inner membrane component of T3SS, cytoplasmic d
    1.7e-14   53.9   0.1    4.5e-14   52.6   0.1    1.8  1  FHA           FHA domain
  ------ inclusion threshold ------
      0.018   15.8   0.1      0.046   14.5   0.1    1.6  1  DUF3992       Protein of unknown function (DUF3992)


Domain annotation for each model (and alignments):
>> Yop-YscD_cpl  Inner membrane component of T3SS, cytoplasmic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.2   0.3   2.7e-19   1.6e-15       2      91 ..       6      95 ..       5      96 .. 0.96
   2 ?   -2.3   0.0      0.95   5.7e+03      62      88 ..     263     289 ..     255     292 .. 0.73

  Alignments for each domain:
  == domain 1  score: 57.2 bits;  conditional E-value: 2.7e-19
                             EECCCCTT-EEEETTEEEEEES-TT-SEE---TTS-TT-EEEEEETTEEEEEE-CESS--EETTEE-SECC--TTSEEEETTEEEEEE CS
             Yop-YscD_cpl  2 vlsGpdkGaeveLeegevviGsdedcDivLsDkevsrkhlkLeveeesvrledlgsrngllvngerveelelrpgdvlelGttelalv 89
                             v  G+ +G+e+ L+ g+ ++G+d++cDi  + ++vs+khl ++v+++ v l+d+gs ng+++ng+ +++++++ gd++ l ++ l+lv
  PHY93_05875|PHY93_05875  6 VVGGKSRGQEFVLKTGDNTLGRDSSCDIHFQVEGVSKKHLAVTVTDDVVYLQDMGSANGTFLNGKIIKRATVKGGDKIGLPNAILQLV 93
                             6679**************************************************************************9999999998 PP

                             EC CS
             Yop-YscD_cpl 90 ke 91
                             + 
  PHY93_05875|PHY93_05875 94 HV 95
                             86 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 0.95
                              EETTEE-SECC--TTSEEEETTEEEEE CS
             Yop-YscD_cpl  62 lvngerveelelrpgdvlelGttelal 88 
                               vn++   +++l  ++++ +G + la+
  PHY93_05875|PHY93_05875 263 SVNKNSKVKKQLLENSQIGIGKIILAY 289
                              566666667778899999999988876 PP

>> FHA  FHA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.6   0.1   7.5e-18   4.5e-14       2      67 ..      24      84 ..      23      86 .. 0.95

  Alignments for each domain:
  == domain 1  score: 52.6 bits;  conditional E-value: 7.5e-18
                             EEESSTTSSEETTSTTSTTTEEEEEEETTCEEEEEEEESSSSSEEETTEEESTTSEEEE-TTEEEE CS
                      FHA  2 tiGRssdcdivlddpsiSrkHalikfdkgsgkvyleDlgSknGtfvNgqrigkgepveLksgdvie 67
                             t+GR+s+cdi ++ + +S+kH+ ++++++   vyl+D+gS nGtf+Ng+ i++   + +k gd i 
  PHY93_05875|PHY93_05875 24 TLGRDSSCDIHFQVEGVSKKHLAVTVTDD--VVYLQDMGSANGTFLNGKIIKR---ATVKGGDKIG 84
                             79***************************..********************98...9999999886 PP

>> DUF3992  Protein of unknown function (DUF3992)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.1   7.7e-06     0.046      21      74 ..      43      96 ..      38     105 .. 0.90

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 7.7e-06
                  DUF3992 21 envnvvGtvlVkydvgvgpivvvalngavvddqtlapGeSrsltlarldsiqvv 74
                             +++ v  t  V+y + +g     +lng++++  t++ G+ ++l  a l+ ++v 
  PHY93_05875|PHY93_05875 43 KHLAVTVTDDVVYLQDMGSANGTFLNGKIIKRATVKGGDKIGLPNAILQLVHVQ 96
                             56677778889999**************************************95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (519 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       740  (0.0412739); expected 358.6 (0.02)
Passed bias filter:                      572  (0.0319036); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.65u 0.28s 00:00:00.93 Elapsed: 00:00:00.47
# Mc/sec: 3302.42
//
Query:       PHY93_13755|PHY93_13755  [L=293]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    7.9e-17   62.0   0.0    1.1e-16   61.6   0.0    1.1  1  Glyco_hydro_25  Glycosyl hydrolases family 25


Domain annotation for each model (and alignments):
>> Glyco_hydro_25  Glycosyl hydrolases family 25
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.6   0.0     6e-21   1.1e-16       8     174 ..      94     258 ..      88     262 .. 0.86

  Alignments for each domain:
  == domain 1  score: 61.6 bits;  conditional E-value: 6e-21
           Glyco_hydro_25   8 gdidwqkv.kasGvsfviiKaTeGtsyvdptfkeqvanaraaglkvgaYhFarpvnsstakaeadyFlsnvqkldastlplvlDvE 92 
                              ++idw k+ +++ v +vi + + G  +vd+++k + + a   g   gaYh  +     +  a+ad F+s + + + +tl+ +lD+E
  PHY93_13755|PHY93_13755  94 NSIDWDKMaTDKKVVGVIHRSSIGL-RVDTQYKARKKIALGRGYLWGAYHLGYK---GNTIAQADLFISLI-GDEPNTLM-ILDLE 173
                              3589999987888999******999.9*************************96...799***********.79999997.***** PP

           Glyco_hydro_25  93 ktssaekaaateeikkfldevkkqtGkkpviYtsks...flknnllesqliaeyplWiaeyakkepkkyk.smkkwafWQytssgs 174
                               ++s+ +  + +e+  f+d+v+ +tG+ p +Y + s    l+n++ ++ l+++ +lW a+++++ ++  +  + ++  WQ++s+ +
  PHY93_13755|PHY93_13755 174 -NTSSGSLMTINEAVVFMDHVHTKTGRIPTVYANHSttlLLNNKVRSNPLFQQSKLWYARFKSNLTDFPSgVWPNYFLWQFSSELN 258
                              .666677777888999****************8765221345559999999*************88876689**********9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (293 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       391  (0.0218082); expected 358.6 (0.02)
Passed bias filter:                      329  (0.0183502); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.46
# Mc/sec: 1927.54
//
Query:       PHY93_13760|PHY93_13760  [L=138]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (138 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       392  (0.021864); expected 358.6 (0.02)
Passed bias filter:                      289  (0.0161191); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.43
# Mc/sec: 969.76
//
Query:       PHY93_13765|PHY93_13765  [L=312]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.2e-07   29.2   0.0      8e-07   28.8   0.0    1.2  1  Exo_endo_phos    Endonuclease/Exonuclease/phosphatase family
      0.001   18.9   0.6     0.0024   17.7   0.1    2.0  2  Exo_endo_phos_2  Endonuclease-reverse transcriptase
  ------ inclusion threshold ------
      0.092   13.0   0.6       0.14   12.4   0.6    1.2  1  DUF3429          Protein of unknown function (DUF3429)


Domain annotation for each model (and alignments):
>> Exo_endo_phos  Endonuclease/Exonuclease/phosphatase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.8   0.0   1.3e-10     8e-07      70     233 .]     157     302 ..      90     302 .. 0.70

  Alignments for each domain:
  == domain 1  score: 28.8 bits;  conditional E-value: 1.3e-10
                              TTSSEEEEEECSTEEEEEEEEEEETSSSSGCEEEEEEEEEEEEEEE..........................CCCHHGHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..........................xxxxxxxxxxxxxx RF
            Exo_endo_phos  70 gggnggavlsrfpltslfrrtfiefndlvaalrreplaakleqlni..........................ashrdhdlvrdlql 129
                              +   g  +ls+  ++                                                          +++ +++++++q+
  PHY93_13765|PHY93_13765 157 DDNFGFLILSKINFKLE----------------------------EvyerigipvyikffvkkynfriyllhLPPPLWREAWETQK 214
                              44444444444444222............................0222222222334444445566667777999********** PP

                              HHHHHHHHHHHHHTTSEEEEEEE-SSSTSGGGBSCGHHHHHHCTTTHHSSCESCETTTTTTTTTTTEB-BEEEEEECHHHCCEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Exo_endo_phos 130 lalllqvealnadrgapvivaGDfNarpsdddsrvlrtrglalapapvglyllgggptptyvtraggsrlDrilaspalalfrsgv 215
                               al l + + n+++++++i++GD+N + s+ +++++  + +  +       l+ +g++p+ v+r     +D++l + +   f    
  PHY93_13765|PHY93_13765 215 EALSLIANEINRNKNQSFIILGDLNMTNSSSQFQDFYRQLNPKFY---SQELFSQGTWPSFVPRYISLPIDHVLSNRN---FE--- 291
                              ******************************999998888887777...7**************************972...22... PP

                              EEECCHHEECTSSCSSSB CS
                              xxxxxxxxxxxxxxxxxx RF
            Exo_endo_phos 216 lppplalvrrealtlSDH 233
                               ++       ++  +SDH
  PHY93_13765|PHY93_13765 292 -MEI------GPSAGSDH 302
                              .222......23333887 PP

>> Exo_endo_phos_2  Endonuclease-reverse transcriptase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.1      0.92   5.5e+03      13      33 ..     119     140 ..     100     143 .. 0.55
   2 !   17.7   0.1     4e-07    0.0024      13     118 ..     212     305 ..     194     306 .. 0.80

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 0.92
          Exo_endo_phos_2  13 elenlestlekllselksp.ki 33 
                              +++++++++ +l++++++  ++
  PHY93_13765|PHY93_13765 119 NIKKTNTEIVTLVEATPEIeNV 140
                              5566666666666666654455 PP

  == domain 2  score: 17.7 bits;  conditional E-value: 4e-07
          Exo_endo_phos_2  13 elenlestlekllselkspkiiilGDfNakhplWgsedtdssargeeLiefleehslsllnllksgptfkssngsstiDltltsdn 98 
                              + ++++s + + ++++k++++iilGD+N+++ + + +     +  ++L   + +++l   ++  + p f+++  s  iD +l++ n
  PHY93_13765|PHY93_13765 212 TQKEALSLIANEINRNKNQSFIILGDLNMTNSSSQFQ-----DFYRQLNPKFYSQELF--SQ-GTWPSFVPRYISLPIDHVLSNRN 289
                              4578889999999999999**********99876552.....4678999999999998..44.4458888877799********99 PP

          Exo_endo_phos_2  99 lalskleleeedlgSDHrpi 118
                                 +      +  gSDHr i
  PHY93_13765|PHY93_13765 290 FEME----IGPSAGSDHRSI 305
                              9988....67789****998 PP

>> DUF3429  Protein of unknown function (DUF3429)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.6   2.3e-05      0.14      40     107 ..      20      84 ..       4     105 .. 0.63

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 2.3e-05
                  DUF3429  40 aaqlaYgavilSFlGGvhWglaleeegaakakrtrlalsvvpsllawlalllpse....aalallilgflll 107
                              +++l+ g v++SFlG  hW + l ++       + l +s+v   la ++++l ++     ++ +li   +++
  PHY93_13765|PHY93_13765  20 TLFLTSGGVLISFLGRYHWFFNLFDQFW----SFYLFVSIV---LALFFIFLRKKvqtfLSVFVLITCCAVF 84 
                              6788889***************773332....134445544...4444455555522223333333344444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (312 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1240  (0.0691617); expected 358.6 (0.02)
Passed bias filter:                      552  (0.0307881); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.59u 0.28s 00:00:00.87 Elapsed: 00:00:00.47
# Mc/sec: 2012.93
//
Query:       PHY93_13770|PHY93_13770  [L=115]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.2e-06   25.5  12.5    1.7e-05   24.6  12.5    1.4  1  SEC-C     SEC-C motif
  ------ inclusion threshold ------
      0.014   15.1   3.6      0.016   14.9   3.6    1.0  1  SPECT1    Plasmodium host cell traversal SPECT1


Domain annotation for each model (and alignments):
>> SEC-C  SEC-C motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.6  12.5   1.9e-09   1.7e-05       2      17 ..       9      24 ..       9      25 .. 0.95

  Alignments for each domain:
  == domain 1  score: 24.6 bits;  conditional E-value: 1.9e-09
                    SEC-C  2 NdpCPCGSGkKYKkCC 17
                             N  C CGSGkKYK+CC
  PHY93_13770|PHY93_13770  9 NSKCLCGSGKKYKQCC 24
                             889************* PP

>> SPECT1  Plasmodium host cell traversal SPECT1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   3.6   1.8e-06     0.016      79     165 ..      17     103 ..       9     113 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 1.8e-06
                   SPECT1  79 kdkfkkvcdlilkkvkklvelskinkyriilkfGkgdrkkeildkvknddsisdelkeellkyeevenkdanvsslvnfistiydk 164
                              ++k+k+ c l l+  k+l  +++     i     +g  k++ ++     +  s+++k+ l++ e +++++ ++  + n+i+  y++
  PHY93_13770|PHY93_13770  17 GKKYKQCCSLNLNITKNLSRIAEKAILDIRTSLINGSDKEKFIEISTRMNNGSKDFKNYLIDLELMKERNPDERRIYNLITVCYNQ 102
                              689*****************99888888888888999999999998888899******************************9997 PP

                   SPECT1 165 f 165
                               
  PHY93_13770|PHY93_13770 103 T 103
                              5 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (115 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       654  (0.0364772); expected 358.6 (0.02)
Passed bias filter:                      369  (0.0205812); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.43
# Mc/sec: 794.25
//
Query:       PHY93_13775|PHY93_13775  [L=184]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.2e-10   40.3   0.0    1.4e-10   40.1   0.0    1.0  1  DDE_Tnp_1_4  Transposase DDE domain group 1


Domain annotation for each model (and alignments):
>> DDE_Tnp_1_4  Transposase DDE domain group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.1   0.0   7.6e-15   1.4e-10      15     194 ..      12     184 .]       3     184 .] 0.92

  Alignments for each domain:
  == domain 1  score: 40.1 bits;  conditional E-value: 7.6e-15
              DDE_Tnp_1_4  15 GgrlsSdaGllLlreldkklgltrrlaaalkdkrkpslveHslekllrqrvyalalGyedlndadkLradpalklalgkkealASq 100
                               +++sS aGl +   l +k+++ + +  +l +k++  +v H+  + +   +++ ++G+e+l+d d   +dp++   l+  ++  S 
  PHY93_13775|PHY93_13775  12 AKSISSFAGLKIYDDLIHKFDIRKFFGPFLPKKKR--VVGHTSWNKFYTPIMGFIAGFECLDDFDFHGQDPLF---LK-LTNSPSS 91 
                              5789******************9999999876655..69**********************************...44.5578899 PP

              DDE_Tnp_1_4 101 ptlsRlentlaeealkalrelekalvdkflesyekapkeivlDlDstldpvhGeqegaafnayykeygyhPLvvFdgltgellaal 186
                                l ++++ ++++++++++e+  + + k+  + + + k+ ++ +D+++   hG + + +  +y+k  +    ++F + +g     +
  PHY93_13775|PHY93_13775  92 TILGKFLKFFTQRDVEQMQEMLPKHALKMRMNLTPNLKKFTMKIDASDHLQHGLKSKGMTFGYKKFRCLSSQMIF-DDKGLCYGFK 176
                              99***************99999999999999999*****************************************.7899999*** PP

              DDE_Tnp_1_4 187 LRpgnvds 194
                              LR+gn++s
  PHY93_13775|PHY93_13775 177 LRSGNTHS 184
                              *****975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (184 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       404  (0.0225333); expected 358.6 (0.02)
Passed bias filter:                      337  (0.0187964); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.65u 0.31s 00:00:00.96 Elapsed: 00:00:00.64
# Mc/sec: 865.48
//
Query:       PHY93_13780|PHY93_13780  [L=352]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        2.8    7.6  27.2      0.021   14.5   4.0    3.8  3  Wzy_C     O-Antigen ligase


Domain annotation for each model (and alignments):
>> Wzy_C  O-Antigen ligase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   3.4      0.07   1.3e+03      18      50 ..      43      75 ..      36     128 .. 0.68
   2 ?   14.5   4.0   1.2e-06     0.021       2      61 ..     169     225 ..     168     247 .. 0.76
   3 ?    7.9   1.2   0.00012       2.2     135     155 .]     267     287 ..     258     287 .. 0.92

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.07
                    Wzy_C 18 giigllvalivlliifykrripfllllgilvgv 50
                              ++ +l+a+++l+i  +   +p+   l+++++ 
  PHY93_13780|PHY93_13780 43 TWLLFLLACVFLIIQCIFLNFPWNENLAVFAVF 75
                             688899999999998888888444333322222 PP

  == domain 2  score: 14.5 bits;  conditional E-value: 1.2e-06
                    Wzy_C   2 alllsllalflstsRsgiigllvalivlliifykrripfllllgilvgvilliilfvlst 61 
                              +++ + lal+l+ sR+ +++l++a i++l   +k+ +  ++ l +++++i+ i  ++  t
  PHY93_13780|PHY93_13780 169 LTATVTLALILTFSRGVYLALFFASIYFLKNKVKKSV--AVAL-FAMAIIFTIEISWKKT 225
                              678899*************999999999988888888..4444.4444666665555555 PP

  == domain 3  score: 7.9 bits;  conditional E-value: 0.00012
                    Wzy_C 135 aHNlyLqilvetGiiGlvlfl 155
                               HN+yL ++   G+iGl+lf+
  PHY93_13780|PHY93_13780 267 LHNQYLYLFKHVGLIGLLLFV 287
                              7******************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (352 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       869  (0.048469); expected 358.6 (0.02)
Passed bias filter:                      256  (0.0142785); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.61u 0.29s 00:00:00.89 Elapsed: 00:00:00.54
# Mc/sec: 1949.87
//
Query:       PHY93_13785|PHY93_13785  [L=644]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (644 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       650  (0.0362541); expected 358.6 (0.02)
Passed bias filter:                      508  (0.028334); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.73u 0.29s 00:00:01.02 Elapsed: 00:00:00.51
# Mc/sec: 3813.53
//
Query:       PHY93_20530|PHY93_20530  [L=257]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.9e-14   53.1   0.2    3.1e-12   46.4   0.2    2.3  1  Lactamase_B_2  Beta-lactamase superfamily domain
    1.4e-08   34.8   0.0    2.3e-08   34.1   0.0    1.3  1  Lactamase_B_3  Beta-lactamase superfamily domain
     0.0027   17.7   1.6      0.014   15.5   1.6    2.0  1  Lactamase_B    Metallo-beta-lactamase superfamily


Domain annotation for each model (and alignments):
>> Lactamase_B_2  Beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.4   0.2   5.2e-16   3.1e-12      30     201 .]      76     223 ..      64     223 .. 0.83

  Alignments for each domain:
  == domain 1  score: 46.4 bits;  conditional E-value: 5.2e-16
                              SEEEEE-SS--HHHHGGGGCCCCC--EEEEEEEEHHHHHHCCTTCGHHHCHTTTTEEEEEE-TTSEEEECSTTEEEEEEEE-EE-- CS
            Lactamase_B_2  30 pidaVllthaHyDHlaglltlrelrpkklplyapkgvlavleanfvylaleeepavnvheldwgesfelgdggleitatparhksg 115
                              + +a+l+th H DH +   +l  +++ + p+y+p       e++        +    ++ + ++++ ++g  +++it++p  h+ +
  PHY93_20530|PHY93_20530  76 HPKAILITHLHPDHAC--FMLEDISKINCPIYGPSA----FENG--------K----LVSI-IKKPKKIG--EFKITPIPTIHSFK 140
                              5789***********4..666666555577876633....3333........2....2222.45789999..578********999 PP

                              CTCCE-TTTSEEEEEECTTEEEEEESS-S---HHHHHHHCT-SEEEEE-S-SSTTHHHH.....HHT---STSHHHHCTTSSSSEE CS
            Lactamase_B_2 116 rrldrnagdtlGlriegggkrvyyigDtgyipeeigerlggadllllditayeddemir.....hmgHltpeeaveaaadlgakrl 196
                                      +  G+++eg+gk+++y+gD  +i+++  ++++++d+++ ++ + +   mir       gH  ++e +++++    kr 
  PHY93_20530|PHY93_20530 141 I-------PSQGYLLEGKGKKIFYSGDIITIEKAHLKKMKQVDVVITEASFIRRGGMIRkfdsqISGHNGVSELIKLFRPFT-KRI 218
                              9.......9***********************88899*************************9999************9985.788 PP

                              EEESB CS
            Lactamase_B_2 197 vliHi 201
                              ++iH+
  PHY93_20530|PHY93_20530 219 IFIHF 223
                              89996 PP

>> Lactamase_B_3  Beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.1   0.0   3.8e-12   2.3e-08      20     152 ..      64     209 ..      51     219 .. 0.71

  Alignments for each domain:
  == domain 1  score: 34.1 bits;  conditional E-value: 3.8e-12
            Lactamase_B_3  20 lvDPfkanlgyeppaeeaDlvlisqaledHahletlkql............aenvkvleeges.levggleiravatshdavggse 92 
                              l+D ++     +  + ++ ++li++ ++dHa    l+ +            +en k+++  ++  ++g+++i+ ++t h     s 
  PHY93_20530|PHY93_20530  64 LLDFGE----KKFLRHHPKAILITHLHPDHACFM-LEDIskincpiygpsaFENGKLVSIIKKpKKIGEFKITPIPTIH-----SF 139
                              444333....223357899***********9765.33333347777777776666666664442669999999999999.....34 PP

            Lactamase_B_3  93 rgenngflleqdgltiyhlGhlahelsseelkelgrvDvvltPvgg...........pltlgqeealelak 152
                              + +  g+lle +g +i++ G++ + +++++lk++++vDvv+t               + ++g + ++el+k
  PHY93_20530|PHY93_20530 140 KIPSQGYLLEGKGKKIFYSGDIIT-IEKAHLKKMKQVDVVITEASFirrggmirkfdSQISGHNGVSELIK 209
                              456678*****************8.9***************976544445555555555555555555555 PP

>> Lactamase_B  Metallo-beta-lactamase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   1.6   2.3e-06     0.014      43      59 ..      75      91 ..      52     169 .. 0.83

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 2.3e-06
                             GGEEEEE-SBSSHHHHT CS
              Lactamase_B 43 kdvdavilTHlHlDHiG 59
                               ++a+++THlH+DH+ 
  PHY93_20530|PHY93_20530 75 HHPKAILITHLHPDHAC 91
                             5689***********96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (257 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2161  (0.120531); expected 358.6 (0.02)
Passed bias filter:                     1239  (0.0691059); expected 358.6 (0.02)
Passed Vit filter:                       113  (0.00630264); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.65u 0.33s 00:00:00.98 Elapsed: 00:00:00.48
# Mc/sec: 1609.31
//
Query:       PHY93_20535|PHY93_20535  [L=129]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (129 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       579  (0.032294); expected 358.6 (0.02)
Passed bias filter:                      413  (0.0230353); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.25s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 899.89
//
Query:       PHY93_20540|PHY93_20540  [L=152]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (152 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       549  (0.0306208); expected 358.6 (0.02)
Passed bias filter:                      396  (0.0220871); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 1012.20
//
Query:       PHY93_05880|PHY93_05880  [L=117]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-17   63.9   0.0    1.4e-17   63.6   0.0    1.1  1  DUF192    Uncharacterized ACR, COG1430


Domain annotation for each model (and alignments):
>> DUF192  Uncharacterized ACR, COG1430
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.6   0.0   7.8e-22   1.4e-17       5      95 ..      22     114 ..      19     115 .. 0.91

  Alignments for each domain:
  == domain 1  score: 63.6 bits;  conditional E-value: 7.8e-22
                              EE-SHHHHHHTTTT-----TTEEEEEEECCEEEEEE--TT--S-EEEEEE-TTSBEEEEEEEE-TT.......-ECEEEEEETTHH CS
                   DUF192   5 vAdteeerarGLmgreslpedegmlfvfdkerehsfwMkntripLdiifldadgriveieealkpq.......svryvLElpaGaa 83 
                              vA++  +r++GLm+ +++pe  g l+  +++  h+f+   ++++Ld++fld++ ++v+   + +p+       ++++vLE++aG++
  PHY93_05880|PHY93_05880  22 VANQLFDRMKGLMFSTEMPECDGFLISPCNSI-HTFF---MLYSLDLLFLDKNFTVVKTLYDFSPWritwiyfKAHQVLEMKAGTM 103
                              899999**************************.****...9*************************66555444777********* PP

                              HHHT--TT-EEE CS
                   DUF192  84 kklgikpGdrle 95 
                              k  +ik+Gd+le
  PHY93_05880|PHY93_05880 104 K-KDIKVGDKLE 114
                              6.89******97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (117 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       362  (0.0201908); expected 358.6 (0.02)
Passed bias filter:                      257  (0.0143343); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.45
# Mc/sec: 777.33
//
Query:       PHY93_20545|PHY93_20545  [L=92]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.8e-32  110.8   0.0    3.2e-32  110.6   0.0    1.0  1  Cdd1      Pathogenicity locus
     0.0044   17.1   0.0     0.0054   16.8   0.0    1.2  1  TfoX_C    TfoX C-terminal domain


Domain annotation for each model (and alignments):
>> Cdd1  Pathogenicity locus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  110.6   0.0   3.5e-36   3.2e-32       3      86 .]       7      89 ..       5      89 .. 0.97

  Alignments for each domain:
  == domain 1  score: 110.6 bits;  conditional E-value: 3.5e-36
                     Cdd1  3 kalkelqdiPniGkalaedlvelGirsveelkgedpeelyeklekltgarhDpCvldvfrsvvkfaegdeeakkWwsftderka 86
                             +++++l++iPniG a+aedl++lGi ++++l g+d+ +ly+kl++ltg+rhDpC+ d+f++vv+f++g +++++Ww+ft++rka
  PHY93_20545|PHY93_20545  7 SEAQTLEQIPNIGIAVAEDLRKLGIIHPKQLIGKDGLKLYHKLNRLTGVRHDPCLADTFMAVVDFMNG-GKPRPWWEFTAKRKA 89
                             57899***************************************************************.*************95 PP

>> TfoX_C  TfoX C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   6.1e-07    0.0054       3      44 ..      10      51 ..       8      67 .. 0.85

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 6.1e-07
                   TfoX_C  3 nrLkdLpNlglklerlLkkaGIktveeLrelGaveaylkike 44
                             ++L+++pN+g++ ++ L+k GI   ++L      + y k+++
  PHY93_20545|PHY93_20545 10 QTLEQIPNIGIAVAEDLRKLGIIHPKQLIGKDGLKLYHKLNR 51
                             789*******************99999987777777777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (92 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       209  (0.0116571); expected 358.6 (0.02)
Passed bias filter:                      203  (0.0113224); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.26s 00:00:00.70 Elapsed: 00:00:00.45
# Mc/sec: 613.79
//
Query:       PHY93_20550|PHY93_20550  [L=189]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.4e-07   31.0   0.0    2.9e-07   30.7   0.0    1.3  1  THUMP     THUMP domain
  ------ inclusion threshold ------
      0.086   13.2   0.0       0.19   12.0   0.0    1.5  1  ATXN-1_C  Capicua transcriptional repressor modulator


Domain annotation for each model (and alignments):
>> THUMP  THUMP domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.7   0.0   3.3e-11   2.9e-07      44     137 ..      71     171 ..      10     177 .. 0.86

  Alignments for each domain:
  == domain 1  score: 30.7 bits;  conditional E-value: 3.3e-11
                              HHTSTTECEEEEE.EEEEESSHHHHHHHHHHHHHHHHHHCT-.EEEEEEEESSSTSSSHHHHHHHHHHHHHHCCTT.....-EE-S CS
                    THUMP  44 lekargiqrvipv.cevceadledileaakeivkkkfeeeke.tFaVrvkrrgkhfeftsreinrevGkaivektg.....lkVdl 122
                               +    i+r+ pv  + ++++ e+++++ak i  ++       tF Vr  rrg +++++s + ++ + + + +++      +k  +
  PHY93_20550|PHY93_20550  71 PYLGNSISRLTPVmRALTFNSREEFEDKAKRIADEWVDLIAGkTFYVRMHRRGFREKISSLDEEQFLDRHLLKSLDerglaAKITF 156
                              344448999****888899999**********99876443335******************************************* PP

                              SS-SEEEEEEEETTE CS
                    THUMP 123 enPdivvrveiikdk 137
                              ++Pd+++ ve ++++
  PHY93_20550|PHY93_20550 157 TDPDFIIDVETLNNQ 171
                              **********99886 PP

>> ATXN-1_C  Capicua transcriptional repressor modulator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   2.2e-05      0.19      27      48 ..      22      43 ..      18      45 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 2.2e-05
                 ATXN-1_C 27 lgadslKaaVatlsPhtVIqTT 48
                             l  ++ K a+ +lsPh V++ T
  PHY93_20550|PHY93_20550 22 LYKEGFKDAIHALSPHGVVRAT 43
                             56799**************988 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (189 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       500  (0.0278878); expected 358.6 (0.02)
Passed bias filter:                      432  (0.024095); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.25s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1244.62
//
Query:       PHY93_20555|PHY93_20555  [L=650]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    6.1e-33  114.8   1.6    6.1e-33  114.8   1.6    2.3  2  MacB_PCD     MacB-like periplasmic core domain
    6.2e-30  104.5   0.0    3.9e-29  101.9   0.0    2.2  2  ABC_tran     ABC transporter
    5.3e-12   46.0   6.0    5.3e-12   46.0   6.0    3.0  3  FtsX         FtsX-like permease family
    7.6e-07   28.8   0.1    0.00079   18.9   0.0    2.4  2  SMC_N        RecF/RecN/SMC N terminal domain
    0.00014   21.8   0.1        0.4   10.5   0.0    2.4  2  AAA_21       AAA domain, putative AbiEii toxin, Type IV TA sy
    0.00072   19.2   0.1      0.002   17.8   0.1    1.7  1  AAA_29       P-loop containing region of AAA domain
  ------ inclusion threshold ------
      0.021   14.7   0.4        0.1   12.5   0.1    2.1  2  RsgA_GTPase  RsgA GTPase
      0.024   14.4   0.3        1.2    8.8   0.1    2.8  3  AAA_24       AAA domain
      0.032   14.6   0.0      0.074   13.4   0.0    1.7  1  AAA_16       AAA ATPase domain
      0.074   13.6   0.2        1.2    9.6   0.1    2.5  2  AAA_23       AAA domain
      0.078   13.2   0.2          1    9.6   0.0    2.6  3  AAA_22       AAA domain
       0.11   12.2   0.0        2.7    7.7   0.0    2.3  2  AAA_30       AAA domain
       0.92    9.8  11.3       0.18   12.1   6.1    2.5  3  DUF3021      Protein of unknown function (DUF3021)
        6.3    7.1  18.1        3.6    7.9  12.5    2.6  2  DUF4064      Protein of unknown function (DUF4064)


Domain annotation for each model (and alignments):
>> MacB_PCD  MacB-like periplasmic core domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  114.8   1.6   4.8e-36   6.1e-33       1     189 [.     268     485 ..     268     491 .. 0.82
   2 ?   -2.6   2.4       4.7     6e+03       5      34 ..     529     558 ..     525     570 .. 0.85

  Alignments for each domain:
  == domain 1  score: 114.8 bits;  conditional E-value: 4.8e-36
                 MacB_PCD   1 slltvLGiaiGvaaviaivslgeglqasvlsqisdl.gnlvtvtpgk..........gsgeslsdpdvealrrevp.veavapvv. 73 
                              + l++LGi iGvaavia++++g g+q++++ q+s+l +nl++++ g+          g  ++l+++d++ l+ +++ ++  ++ v 
  PHY93_20555|PHY93_20555 268 TGLSMLGILIGVAAVIAMLAIGKGAQRAINAQLSSLgSNLLVLRSGArrvggvaqetGITSRLNYSDAQYLKNQLDiIKDSSANVh 353
                              789*******************************9955677788886778777666655566999999877778899998888776 PP

                 MacB_PCD  74 ...tvrgggsgeeevtvvgvdpdyfkvfglklaeGrffteadlrggpnvvvigeelaerlf....pvGdtirl..kpftVvGvled 150
                                 +v+++++ + +++++g++++y+ +  l++++Grffte + + + +vvvig+++ ++lf    p+G+ i++  ++f+V+G+l++
  PHY93_20555|PHY93_20555 354 ghgQVTFQNK-NWSTQINGGNASYLNIHALYPLAGRFFTEVENQKRVRVVVIGRTIVRELFgsinPIGELIKInkVNFQVIGILPE 438
                              7765566665.44589**************8999******99999***************************************77 PP

                 MacB_PCD 151 ppgsgsalg.ddavylp.lttl.......qrrsitvrlkdgadleaaa 189
                              + g++++++ dd v++p lt++       +++si ++++d+ +++ a 
  PHY93_20555|PHY93_20555 439 K-GATGFYDqDDVVLVPvLTAMyrllgkeYVDSIDLEITDSKQIDFAH 485
                              5.888888889999***7444433344434556999999888776555 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 4.7
                 MacB_PCD   5 vLGiaiGvaaviaivslgeglqasvlsqis 34 
                              +L+ + G+  v++ +++++ ++ sv+++ +
  PHY93_20555|PHY93_20555 529 LLSAIAGISLVVGGIGIMNIMLVSVTERTR 558
                              577789****************99999866 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  101.9   0.0     3e-32   3.9e-29       1     136 [.      21     167 ..      21     168 .. 0.86
   2 ?   -0.7   0.0       1.5   1.9e+03      26      91 ..     407     487 ..     406     532 .. 0.65

  Alignments for each domain:
  == domain 1  score: 101.9 bits;  conditional E-value: 3e-32
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG...B-HHH.CCHCEEEE-SS--S-TTSBHHHH... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxx.xxxxxxxxxxxxxxxxxxxxxxx... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke...qeles.lrkeigvlpqepqlfpeltvren... 79 
                              l+ +sl++ eg  vai+G++G+GKStL+ ++  l  p  G+ ++ gk++++   ++l +  r+ ig+++q+ +l p++t++en   
  PHY93_20555|PHY93_20555  21 LHGISLTILEGDYVAIMGPSGSGKSTLMHIMGLLDIPSVGSYKIYGKEVSRfseDDLAVlRRETIGFIFQQFNLLPRITAYENvtl 106
                              6899***********************************************9995555505678********************** PP

                              ...HHHTC.....HHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              ...xxxxx.....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ...esdee.....iekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                                 +s+++     + ++l+++g   ++ +   ++p++LSgGq+qrva+ar+l++kpk++++DEpt
  PHY93_20555|PHY93_20555 107 pllYSKNRagneyARQLLERMG---IASRSF-HRPNELSGGQQQRVAIARSLINKPKIIFADEPT 167
                              ***4444444333555555555...555666.667*****************************9 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 1.5
                              HHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS.--S-TTSBHHHH..............HHHTCHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxx..............xxxxxxxxxxxx RF
                 ABC_tran  26 tLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqe.pqlfpeltvren..............esdeeiekalsk 91 
                              t+++ l g  +p  + i++++ +++ + +   +   g++ q+   l p lt+  +              +++++i+ a++k
  PHY93_20555|PHY93_20555 407 TIVRELFGSINPIGELIKINKVNFQVIGILPEKGATGFYDQDdVVLVPVLTAMYRllgkeyvdsidleiTDSKQIDFAHQK 487
                              677778888888888888888888888888888888888888767777777544457776777666666333333333333 PP

>> FtsX  FtsX-like permease family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.2   0.1     0.011        14      16      56 ..     265     305 ..     263     346 .. 0.79
   2 ?   -2.1   0.8       4.4   5.6e+03      26      42 ..     531     544 ..     518     553 .. 0.52
   3 !   46.0   6.0   4.2e-15   5.3e-12       2      92 ..     558     641 ..     557     645 .. 0.90

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.011
                     FtsX  16 qvlllllteillitlvalviGlglgllaaqllsdvllssvf 56 
                              +++ +l + ++li++ a ++ l++g  a  ++++ l+s  +
  PHY93_20555|PHY93_20555 265 KIRTGLSMLGILIGVAAVIAMLAIGKGAQRAINAQLSSLGS 305
                              678888999999999999999***********999998744 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 4.4
                     FtsX  26 llitlvalviGlglgll 42 
                               +i+ ++lv+G   g+ 
  PHY93_20555|PHY93_20555 531 SAIAGISLVVG---GIG 544
                              23444444444...222 PP

  == domain 3  score: 46.0 bits;  conditional E-value: 4.2e-15
                     FtsX   2 reigilralGmkkkqvlllllteillitlvalviGlglgllaaqllsdvllssvfsselkisidlitvliiivlllllallaglls 87 
                              reig+++a+G++++++l ++lte+++++ v+ ++G+ lg+ a+ ++s++       s  + +i++++vl+ ++++  + +++g+++
  PHY93_20555|PHY93_20555 558 REIGLRKAMGARRWDILAQFLTESIVVSSVGGLVGIFLGWSASIVISTF-------SGWTTFISISSVLLSFFFSAAVGVIFGIYP 636
                              9**********************************77777777776666.......777899************************ PP

                     FtsX  88 iskil 92 
                              ++k++
  PHY93_20555|PHY93_20555 637 ARKAS 641
                              **986 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.2   0.0    0.0024         3      26      42 ..      33      49 ..      24      54 .. 0.85
   2 !   18.9   0.0   6.2e-07   0.00079     121     213 ..     118     213 ..      81     218 .. 0.80

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.0024
                             EEEEEESTTSSHHHHHH CS
                             xxxxxxxxxxxxxxxxx RF
                    SMC_N 26 ftaivGpNGSGKsnlld 42
                               ai+Gp GSGKs l+ 
  PHY93_20555|PHY93_20555 33 YVAIMGPSGSGKSTLMH 49
                             679**********9985 PP

  == domain 2  score: 18.9 bits;  conditional E-value: 6.2e-07
                              HHHHHHHHCTT-STT......CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTT.SEEEEE-SSH CS
                              xxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxx RF
                    SMC_N 121 kevsellesagiske......lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkekskn.aQfivislre 199
                              +  ++lle++gi +       +LSgG+++ va+a       +++  + + De   +LD    k++ ++lke +++   +i+++++e
  PHY93_20555|PHY93_20555 118 EYARQLLERMGIASRsfhrpnELSGGQQQRVAIARS----LINKPKIIFADEPTGNLDSVSEKEILSILKELNDQgITVIIVTHEE 199
                              4455677777776655555559*******9998754....3344446667*********************9998899******** PP

                              HHCCC-SCEEEEEE CS
                              xxxxxxxxxxxxxx RF
                    SMC_N 200 emlekadklvgvtk 213
                              e+  +a++l++++ 
  PHY93_20555|PHY93_20555 200 EVGLQAKRLIRMRD 213
                              *********99865 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.0   0.0   0.00088       1.1       3      22 ..      35      54 ..      33     120 .. 0.79
   2 !   10.5   0.0   0.00031       0.4     235     298 ..     138     198 ..     125     203 .. 0.89

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.00088
                   AAA_21  3 vliGpNgsGKSnLLdaldll 22
                             ++ Gp gsGKS+L+ ++ ll
  PHY93_20555|PHY93_20555 35 AIMGPSGSGKSTLMHIMGLL 54
                             688*************9887 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 0.00031
                   AAA_21 235 relSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQviltTHS 298
                              +elS G+++  a++ +l+  +   ++++ DEp  +L+    +++l +lkel++ g+ vi++TH 
  PHY93_20555|PHY93_20555 138 NELSGGQQQRVAIARSLINKP---KIIFADEPTGNLDSVSEKEILSILKELNDQGITVIIVTHE 198
                              678999988878888888766...9**************************************6 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.1   1.5e-06     0.002      16      39 ..      25      48 ..      18      58 .. 0.76

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 1.5e-06
                   AAA_29 16 tieidlkgatlltGpsGsGKSTll 39
                             +++i + + + ++GpsGsGKSTl+
  PHY93_20555|PHY93_20555 25 SLTILEGDYVAIMGPSGSGKSTLM 48
                             5555544499*************8 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.1   7.8e-05       0.1      96     117 ..      28      49 ..      11      61 .. 0.89
   2 ?   -1.4   0.0       1.5   1.9e+03      57      90 ..     171     203 ..     167     210 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 7.8e-05
                              HCTTSEEEEECSTTSSHHHHHH CS
              RsgA_GTPase  96 llkdktsvlvGqSGvGKStLin 117
                               l+++ ++++G+SG GKStL+ 
  PHY93_20555|PHY93_20555  28 ILEGDYVAIMGPSGSGKSTLMH 49 
                              578899**************86 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 1.5
                              GG--HHHHHHHHHHHHHHTTSEEEE--TTTHTTH CS
              RsgA_GTPase  57 Dlleeeeeleelkeelealgyevllvsaktkegl 90 
                              D ++e+e + ++ +el++ g++v++v  +++ gl
  PHY93_20555|PHY93_20555 171 DSVSEKE-ILSILKELNDQGITVIIVTHEEEVGL 203
                              7777888.88899999999999999988876665 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   0.1   0.00093       1.2       5      22 ..      34      51 ..      31      73 .. 0.88
   2 ?    1.7   0.0      0.14   1.8e+02     108     134 ..     175     201 ..     172     227 .. 0.85
   3 ?   -0.9   0.0      0.91   1.2e+03     118     189 ..     300     365 ..     288     368 .. 0.70

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.00093
                   AAA_24  5 iliyGpsgiGKTtlakel 22
                             ++i+Gpsg+GK+tl+  +
  PHY93_20555|PHY93_20555 34 VAIMGPSGSGKSTLMHIM 51
                             79************9766 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.14
                   AAA_24 108 aeefrrllkklqelrknvifiahektr 134
                              ++e+ ++lk l++ + +vi++ he++ 
  PHY93_20555|PHY93_20555 175 EKEILSILKELNDQGITVIIVTHEEEV 201
                              5788889999999999*******9986 PP

  == domain 3  score: -0.9 bits;  conditional E-value: 0.91
                   AAA_24 118 lqelrknvifiahektrkdedpegeakytrlepklgkktanelkeevDlvlranlkredkvgervlktskse 189
                              l++l+ n  ++ ++  r+++   +    t++++ l+  +a+ lk+++D++ + + +    +++ v++ +k++
  PHY93_20555|PHY93_20555 300 LSSLGSNL-LVLRSGARRVGGVAQ---ETGITSRLNYSDAQYLKNQLDIIKDSSANV--HGHGQVTFQNKNW 365
                              66666664.455666777777644...49999*****************99988774..5555566666665 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   5.8e-05     0.074      10     107 ..      19     136 ..      14     195 .. 0.58

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 5.8e-05
                   AAA_16  10 eqLlsalervrsgrpelvllsGesGvGKsslv..rellralekdggiflrgkcdql..esaipysalaqalareellrqllde... 88 
                              ++L+ +  ++ +g   +v + G+sG+GKs+l+    ll  +   g + ++gk ++   e        + +l r+e +  + ++   
  PHY93_20555|PHY93_20555  19 HALHGISLTILEG--DYVAIMGPSGSGKSTLMhiMGLL-DIPSVGSYKIYGKEVSRfsED------DLAVL-RRETIGFIFQQfnl 94 
                              5555555556666..589*************9333333.333335555777777773222......23333.33333333333333 PP

                   AAA_16  89 ................aesaeleawrekleeala.......a 107
                                              +++++ ++++++l+e+++        
  PHY93_20555|PHY93_20555  95 lpritayenvtlpllySKNRAGNEYARQLLERMGiasrsfhR 136
                              333333355566666655555666666666666655555553 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   0.1   0.00091       1.2      22      36 ..      34      48 ..      16      53 .. 0.89
   2 ?    0.9   0.0      0.43   5.5e+02      91     129 ..     468     506 ..     381     537 .. 0.70

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.00091
                   AAA_23 22 tlItGpNGaGKTTil 36
                             ++I Gp G+GK+T++
  PHY93_20555|PHY93_20555 34 VAIMGPSGSGKSTLM 48
                             589***********8 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.43
                   AAA_23  91 ererelskkkgkttkkaklelleideleqfisellgskk 129
                               +++ l  +++k++++a  ++++i +++  +s++++++ 
  PHY93_20555|PHY93_20555 468 VDSIDLEITDSKQIDFAHQKIIDIINTRHHVSDKFKQSA 506
                              455556666666666666666666666666666555442 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   0.0   0.00079         1       8      23 ..      34      49 ..      30      57 .. 0.87
   2 ?   -1.2   0.0       1.8   2.3e+03      91     128 ..     154     195 ..     110     201 .. 0.58
   3 ?   -0.9   0.0       1.4   1.8e+03     116     137 .]     394     413 ..     377     413 .. 0.81

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.00079
                   AAA_22  8 lvvtGesGtGKTtllr 23
                             ++++G+sG+GK+tl+ 
  PHY93_20555|PHY93_20555 34 VAIMGPSGSGKSTLMH 49
                             689**********986 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 1.8
                   AAA_22  91 v...ielliiDEaqh.lr..s.eealeeLrsllnlsrkgvqliLv 128
                                  ++++  DE    l+  s +e+l+ L++l +   +g+++i+v
  PHY93_20555|PHY93_20555 154 LinkPKIIFADEPTGnLDsvSeKEILSILKELND---QGITVIIV 195
                              2344457777775555664434777777777666...55555554 PP

  == domain 3  score: -0.9 bits;  conditional E-value: 1.4
                   AAA_22 116 lnlsrkgvqliLvGtpelrkll 137
                               n  +k v+++++G + +r+l+
  PHY93_20555|PHY93_20555 394 EN--QKRVRVVVIGRTIVRELF 413
                              45..9**********9999986 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   0.0    0.0021       2.7      17      36 ..      31      49 ..      24      55 .. 0.83
   2 ?    1.7   0.0      0.15   1.9e+02      57     122 ..     118     195 ..     115     200 .. 0.79

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.0021
                   AAA_30 17 gdrvavltGpAGtGKttalk 36
                             gd ++++ Gp G+GK+t++ 
  PHY93_20555|PHY93_20555 31 GD-YVAIMGPSGSGKSTLMH 49
                             44.8899***********97 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.15
                   AAA_30  57 kaAkvLaeelgieastiakllkrlk........grarlepgtllivDEag.mv...dtkqlaallkaaekagakvilv 122
                              + A++L e +gi++++ ++  +  +        +r  +++ +++  DE    +   + k++ ++lk+++++g++vi+v
  PHY93_20555|PHY93_20555 118 EYARQLLERMGIASRSFHRPNELSGgqqqrvaiARSLINKPKIIFADEPTgNLdsvSEKEILSILKELNDQGITVIIV 195
                              578999999999999999988666688999998667777889999999542333338899999999999999999988 PP

>> DUF3021  Protein of unknown function (DUF3021)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.2       3.4   4.3e+03      10      25 ..     273     288 ..     268     303 .. 0.63
   2 ?   -3.4   0.0       8.7   1.1e+04      54      67 ..     356     369 ..     352     385 .. 0.77
   3 ?   12.1   6.1   0.00014      0.18       6      53 ..     587     634 ..     570     637 .. 0.93

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 3.4
                  DUF3021  10 iGiligliislvislf 25 
                              +Gilig++  +++ ++
  PHY93_20555|PHY93_20555 273 LGILIGVAAVIAMLAI 288
                              5677777555554444 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 8.7
                  DUF3021  54 aslifeserlsllk 67 
                              +++ f+++++s+ +
  PHY93_20555|PHY93_20555 356 GQVTFQNKNWSTQI 369
                              56679999999876 PP

  == domain 3  score: 12.1 bits;  conditional E-value: 0.00014
                  DUF3021   6 lgiliGiligliislvislfsgettllestavlkqvllsaliGvlfal 53 
                              +g l+Gi++g   s+vis+fsg tt+++ ++vl ++++sa++Gv+f++
  PHY93_20555|PHY93_20555 587 VGGLVGIFLGWSASIVISTFSGWTTFISISSVLLSFFFSAAVGVIFGI 634
                              57799****************************************986 PP

>> DUF4064  Protein of unknown function (DUF4064)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.2      0.29   3.7e+02      15      32 ..     273     290 ..     248     310 .. 0.69
   2 ?    7.9  12.5    0.0028       3.6       2      94 ..     524     612 ..     523     632 .. 0.78

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.29
                  DUF4064  15 lgillglllllflfllss 32 
                              lgil+g++++++++ +++
  PHY93_20555|PHY93_20555 273 LGILIGVAAVIAMLAIGK 290
                              444555555555444444 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.0028
                  DUF4064   2 rkaeiiLglIGgilgillglllllflfllssgefsqelteeqalsgedasavleflstllivlgvialiaivlgivgalllkknkk 87 
                              ++  ++L+ I+gi  +++g++++ +++++  +e + e + ++a  +   +  + fl+++++v  v++l+ i+lg+ ++++++    
  PHY93_20555|PHY93_20555 524 KTMSLLLSAIAGISLVVGGIGIMNIMLVS-VTERTREIGLRKAMGARRWDILAQFLTESIVVSSVGGLVGIFLGWSASIVIS---T 605
                              677899999***99999999999996665.55666677777999999999999****************************9...4 PP

                  DUF4064  88 vsGilfi 94 
                              +sG+  +
  PHY93_20555|PHY93_20555 606 FSGWTTF 612
                              3333222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (650 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1056  (0.058899); expected 358.6 (0.02)
Passed bias filter:                      704  (0.039266); expected 358.6 (0.02)
Passed Vit filter:                       116  (0.00646996); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.82u 0.29s 00:00:01.10 Elapsed: 00:00:00.49
# Mc/sec: 3981.79
//
Query:       PHY93_20560|PHY93_20560  [L=86]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      3e-17   63.1   7.5    3.6e-17   62.9   7.5    1.0  1  Virul_fac_BrkB  Virulence factor BrkB


Domain annotation for each model (and alignments):
>> Virul_fac_BrkB  Virulence factor BrkB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.9   7.5     2e-21   3.6e-17     178     256 ..       1      79 [.       1      80 [. 0.98

  Alignments for each domain:
  == domain 1  score: 62.9 bits;  conditional E-value: 2e-21
           Virul_fac_BrkB 178 lYrvlpnvkvrlraalpGallaallwllvkilfslylsnfasynaiYGslgaliilllWlylsalilLlGaelnaelqe 256
                              +Y+v+p  k +lr+al+G++ aallw+++++++++y++  ++++ +YGsl++ i++ll l + al+lL+Ga+++ e+++
  PHY93_20560|PHY93_20560   1 IYMVMPVGKISLRHALIGGVTAALLWEFTRHILVWYFATLSKVSVVYGSLTTAIVVLLSLEIAALFLLFGAQVISEYEQ 79 
                              7***************************************************************************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (86 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       590  (0.0329076); expected 358.6 (0.02)
Passed bias filter:                      220  (0.0122706); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.26s 00:00:00.66 Elapsed: 00:00:00.43
# Mc/sec: 598.69
//
Query:       PHY93_13790|PHY93_13790  [L=133]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.17   11.5   1.7       0.17   11.5   0.2    1.9  2  CLLAC     CLLAC-motif containing domain


Domain annotation for each model (and alignments):
>> CLLAC  CLLAC-motif containing domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.7   0.1      0.53   9.5e+03      19      27 ..      27      35 ..      26      35 .. 0.65
   2 ?   11.5   0.2   9.5e-06      0.17       3      14 ..      42      53 ..      40      55 .. 0.90

  Alignments for each domain:
  == domain 1  score: -3.7 bits;  conditional E-value: 0.53
                    CLLAC 19 TaigVLils 27
                             T i +L +s
  PHY93_13790|PHY93_13790 27 TKIIILAFS 35
                             556777776 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 9.5e-06
                    CLLAC  3 SLwkiFLvCLLA 14
                             +Lw iF +CL A
  PHY93_13790|PHY93_13790 42 TLWEIFIICLVA 53
                             7*********88 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (133 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       420  (0.0234257); expected 358.6 (0.02)
Passed bias filter:                      122  (0.00680462); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.28s 00:00:00.70 Elapsed: 00:00:00.44
# Mc/sec: 901.77
//
Query:       PHY93_13795|PHY93_13795  [L=322]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.6e-41  141.0   0.0    5.7e-41  140.7   0.0    1.0  1  DS        Deoxyhypusine synthase


Domain annotation for each model (and alignments):
>> DS  Deoxyhypusine synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  140.7   0.0   3.2e-45   5.7e-41      11     287 ..      17     320 ..      10     321 .. 0.83

  Alignments for each domain:
  == domain 1  score: 140.7 bits;  conditional E-value: 3.2e-45
                       DS  11 fqatslgeaidilnkmrkdekctiflgltsnlissGlreiiadlvkeklvdvivtTaggieeDlikalgkktyl......gdfeld 90 
                              f+a+s+ +a + + +   ++  ++f++l++++ ++ l + +a++++++ +  i+ T++++eeD+++ ++++ y+      g +  d
  PHY93_13795|PHY93_13795  17 FNAASVIDASNGWVSHL-ASGGKMFVTLAGAMSTAELGKSLAEMIRQGKIHGICCTGANLEEDIFNLVAHNDYQriadwrGLTAED 101
                              89999999999999985.56779************************************************999676666688899 PP

                       DS  91 deeLrekginRignllvpneny.ckfedwvreildkleeeqkvwspselikelGkein........deeSilywAykndipvfcpa 167
                              + +L+++g+nR+ ++++p++   +k+e+ +++  +k +++ ++  p+   ++l k+ +         ++S + +A+++dip+f+p+
  PHY93_13795|PHY93_13795 102 EMKLKDRGMNRVTDTCIPEDAAmRKIEALINKEWQKADKNGESYPPHFYFWQLLKNADfkkefqidPKDSWMIAAMEKDIPIFTPG 187
                              99******************987***************988855555555555544444444444499****************** PP

                       DS 168 ltDgslGdqlllfhsv..k.ekkklkldivkDirelndialka...kktgaiilGGGvpKhhilnanlm........rngadyavy 239
                              + D+ lG  + ++ ++  + ++ + +   ++ + +l++   +    ++ g++ +GGG+  ++ + ++ m             y  +
  PHY93_13795|PHY93_13795 188 WEDSTLGN-MYAAANIdgRiKNVHTINSGIQTMIRLAAWYTETsanSSIGFFQVGGGIAGDFPICVVPMleqdlernTPLWGYFCQ 272
                              ********.8888777553222222222344444444444332333899*************99999888999995422678**** PP

                       DS 240 ittaqefdGslsgatldEavSwgkikaeaksvkvyaDaTivlPLlvaa 287
                              i+  +   G+ sga ++E ++wgk++ ++ +  + +DaTiv PL++a+
  PHY93_13795|PHY93_13795 273 ISDSTTSYGGYSGAVPNEKITWGKLDINTPKYIIESDATIVAPLVFAY 320
                              *********************************************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (322 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       547  (0.0305092); expected 358.6 (0.02)
Passed bias filter:                      504  (0.0281109); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.58u 0.23s 00:00:00.81 Elapsed: 00:00:00.45
# Mc/sec: 2132.40
//
Query:       PHY93_13800|PHY93_13800  [L=313]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (313 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       565  (0.0315132); expected 358.6 (0.02)
Passed bias filter:                      342  (0.0190752); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.44
# Mc/sec: 2142.68
//
Query:       PHY93_13805|PHY93_13805  [L=372]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.8e-22   78.7   0.0    4.4e-17   62.5   0.0    2.3  2  PQQ_2     PQQ-like domain
    1.3e-10   41.4   0.0       0.28   11.7   0.0    5.0  5  PQQ_3     PQQ-like domain
      5e-10   38.8   0.0     0.0025   17.7   0.0    5.1  5  PQQ       PQQ enzyme repeat
  ------ inclusion threshold ------
       0.55   10.8   3.2       0.63   10.6   1.5    2.1  2  LPAM_1    Prokaryotic membrane lipoprotein lipid attachment s


Domain annotation for each model (and alignments):
>> PQQ_2  PQQ-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.9   0.0   2.4e-08   0.00011     167     233 ..      57     125 ..      37     126 .. 0.79
   2 !   62.5   0.0   9.9e-21   4.4e-17      37     227 ..     104     292 ..      95     307 .. 0.86

  Alignments for each domain:
  == domain 1  score: 21.9 bits;  conditional E-value: 2.4e-08
                    PQQ_2 167 grpvvaegtVyassgqgrllaldlatgrrlw.skeissinglpildgdllyvvs.agelialdratGav 233
                              ++p++ eg Vy+ +++g++ a++l++g+++w + + s++++ pi   d +++++ +g++i  ++ tG++
  PHY93_13805|PHY93_13805  57 QSPLIHEGIVYIGHNSGSMQAFELENGKPVWsEFDGSTYHAAPISYKDQVIYGTvQGRVISRHYTTGKI 125
                              467788888888888888888888888888855557778888888888888888668888888888875 PP

  == domain 2  score: 62.5 bits;  conditional E-value: 9.9e-21
                    PQQ_2  37 gtlfvatgggrlvaldaatGkvlWettlegpvvgaplvaegrvvvvasdgqlialdaedGkrlWstqqrseepae.lrssaspava 121
                              + ++ +t  gr+++   +tGk++ +++l + + ++  v +gr++++  + q+  ld e+Gk lW  ++rs + ++ l +s+ p+v+
  PHY93_13805|PHY93_13805 104 DQVIYGTVQGRVISRHYTTGKIKYSVDLGASIETKGVVHQGRIFFQLRNHQVFCLDVETGKILWG-YKRSISYLTtLQRSSVPVVY 188
                              55666689999999999*****************************9999***************.99999999978899999999 PP

                    PQQ_2 122 gdtvvvgessgklvaldpkdGkvlWerelaaprgtselsrvgdisgrpvvaegtVyassgqgrllaldlatgrrlwske.iss... 203
                              +d+v+vg ++g lval+++ G +l e +l+ ++       ++d++ + ++ +++Vy  +  g l  +d  +g+ l + + ++s   
  PHY93_13805|PHY93_13805 189 KDRVLVGLADGTLVALSVDEGVLLFESKLSTAS------KFVDVDNAAFILNDRVYLGAVGGPLSLIDPNSGKILRKSDfVASrap 268
                              *****************************7766......69999*******9*******99998888******6654444777677 PP

                    PQQ_2 204 inglpildgdllyvvsageliald 227
                              +++++ l ++ll+ + +geli  d
  PHY93_13805|PHY93_13805 269 YVSSNDLGEQLLFGTPTGELILTD 292
                              666567777777755566666555 PP

>> PQQ_3  PQQ-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.4   0.0     8e-05      0.36      16      39 ..      58      81 ..      37      82 .. 0.85
   2 ?    0.1   0.1      0.29   1.3e+03       1      33 [.      83     115 ..      83     117 .. 0.67
   3 !   11.7   0.0   6.2e-05      0.28       1      40 []     123     162 ..     123     162 .. 0.97
   4 !   10.9   0.1   0.00011      0.49      15      37 ..     183     205 ..     163     207 .. 0.74
   5 ?   -2.0   0.0       1.3   5.7e+03      26      40 .]     320     334 ..     305     334 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 8e-05
                    PQQ_3 16 spavdgglvyvgtgdGtlyAlDae 39
                             sp++ +g+vy+g   G++ A++ e
  PHY93_13805|PHY93_13805 58 SPLIHEGIVYIGHNSGSMQAFELE 81
                             78*******************987 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.29
                    PQQ_3   1 GevlWsvqlpgpvnssp.avdgglvyvgtgdGtl 33 
                              G+++Ws   ++ ++++p  + + ++y +   G++
  PHY93_13805|PHY93_13805  83 GKPVWSEFDGSTYHAAPiSYKDQVIYGTVQ-GRV 115
                              777787766666666676777888887665.665 PP

  == domain 3  score: 11.7 bits;  conditional E-value: 6.2e-05
                    PQQ_3   1 GevlWsvqlpgpvnsspavdgglvyvgtgdGtlyAlDaet 40 
                              G+++ sv+l++ + +  +v  g++++   ++ +++lD et
  PHY93_13805|PHY93_13805 123 GKIKYSVDLGASIETKGVVHQGRIFFQLRNHQVFCLDVET 162
                              89999********************************998 PP

  == domain 4  score: 10.9 bits;  conditional E-value: 0.00011
                    PQQ_3  15 sspavdgglvyvgtgdGtlyAlD 37 
                              s p+v+ ++v vg  dGtl+Al 
  PHY93_13805|PHY93_13805 183 SVPVVYKDRVLVGLADGTLVALS 205
                              667******************96 PP

  == domain 5  score: -2.0 bits;  conditional E-value: 1.3
                    PQQ_3  26 vgtgdGtlyAlDaet 40 
                              v+t+ G +  ++a+t
  PHY93_13805|PHY93_13805 320 VSTTAGEILFVNART 334
                              555667777777776 PP

>> PQQ  PQQ enzyme repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.3   0.0   0.00012      0.55       1      25 [.      64      88 ..      64      88 .. 0.95
   2 ?    0.3   0.0      0.17   7.8e+02      18      30 ..     121     133 ..     119     136 .. 0.87
   3 !   17.7   0.0   5.6e-07    0.0025       2      27 ..     145     170 ..     144     170 .. 0.83
   4 ?    2.6   0.0     0.033   1.5e+02       2      20 ..     191     209 ..     190     217 .. 0.87
   5 ?   -0.9   0.0      0.41   1.8e+03       1      23 [.     235     257 ..     235     259 .. 0.87

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00012
                             TEEEEEETTSEEEEEETTTCCEEEE CS
                      PQQ  1 gvvylgsadGylyAlDadTGkvlWr 25
                             g vy+g + G   A+ +++Gk +W+
  PHY93_13805|PHY93_13805 64 GIVYIGHNSGSMQAFELENGKPVWS 88
                             689*********************6 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.17
                              TTCCEEEEEESSS CS
                      PQQ  18 dTGkvlWrfktgg 30 
                              +TGk++ ++++g+
  PHY93_13805|PHY93_13805 121 TTGKIKYSVDLGA 133
                              69******99986 PP

  == domain 3  score: 17.7 bits;  conditional E-value: 5.6e-07
                              EEEEEETTSEEEEEETTTCCEEEEEE CS
                      PQQ   2 vvylgsadGylyAlDadTGkvlWrfk 27 
                              +++   ++ +++ lD++TGk+lW +k
  PHY93_13805|PHY93_13805 145 RIFFQLRNHQVFCLDVETGKILWGYK 170
                              5666656779*************997 PP

  == domain 4  score: 2.6 bits;  conditional E-value: 0.033
                              EEEEEETTSEEEEEETTTC CS
                      PQQ   2 vvylgsadGylyAlDadTG 20 
                              +v +g adG+l+Al +d G
  PHY93_13805|PHY93_13805 191 RVLVGLADGTLVALSVDEG 209
                              6788899*******98876 PP

  == domain 5  score: -0.9 bits;  conditional E-value: 0.41
                              TEEEEEETTSEEEEEETTTCCEE CS
                      PQQ   1 gvvylgsadGylyAlDadTGkvl 23 
                              ++vylg  +G l  +D ++Gk+l
  PHY93_13805|PHY93_13805 235 DRVYLGAVGGPLSLIDPNSGKIL 257
                              57999999999999999999986 PP

>> LPAM_1  Prokaryotic membrane lipoprotein lipid attachment site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   1.5   0.00014      0.63       1      18 []       1      18 [.       1      18 [. 0.97
   2 ?   -2.4   0.0       1.9   8.7e+03       2      10 ..     170     178 ..     170     179 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00014
                   LPAM_1  1 MKKillalgalllLsGCs 18
                             M Kil +l+ ++l+s+C+
  PHY93_13805|PHY93_13805  1 MNKILGLLLSVFLVSACA 18
                             9****************6 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 1.9
                   LPAM_1   2 KKillalga 10 
                              K+++++l+ 
  PHY93_13805|PHY93_13805 170 KRSISYLTT 178
                              99**99975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (372 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       320  (0.0178482); expected 358.6 (0.02)
Passed bias filter:                      301  (0.0167884); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 2454.10
//
Query:       PHY93_13810|PHY93_13810  [L=220]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.3e-11   43.8   0.6    3.6e-11   43.2   0.6    1.2  1  TPR_21           Tetratricopeptide repeat-like domain
    2.4e-07   30.3   0.1       0.17   12.1   0.0    3.3  3  TPR_2            Tetratricopeptide repeat
    2.9e-06   27.0   0.2       0.18   12.1   0.0    3.1  3  TPR_8            Tetratricopeptide repeat
    4.6e-06   26.3   0.0     0.0078   16.2   0.0    3.5  4  TPR_7            Tetratricopeptide repeat
    1.2e-05   25.7   0.6      0.014   15.9   0.5    2.4  2  TPR_19           Tetratricopeptide repeat
    0.00013   22.4   0.1        1.2   10.0   0.0    3.3  3  TPR_6            Tetratricopeptide repeat
    0.00035   20.3   0.4       0.21   11.5   0.0    2.8  3  TPR_1            Tetratricopeptide repeat
    0.00063   19.3   0.2     0.0013   18.3   0.2    1.4  1  DUF3098          Protein of unknown function (DUF3098)
     0.0019   18.4   0.4       0.02   15.2   0.1    2.4  2  TPR_12           Tetratricopeptide repeat
     0.0037   17.9   0.2        1.8    9.6   0.0    3.1  3  TPR_14           Tetratricopeptide repeat
     0.0083   16.4   0.2          3    8.4   0.1    2.9  2  TPR_17           Tetratricopeptide repeat
     0.0086   16.7   0.0          7    7.4   0.0    2.3  2  TPR_16           Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.014   15.5   0.2      0.099   12.7   0.0    2.4  3  DUF357           Protein of unknown function (DUF357)
      0.046   13.9   0.2       0.41   10.8   0.0    2.4  2  UPF0767          UPF0767 family
      0.065   13.5   0.3       0.16   12.3   0.3    1.6  1  Sigma_reg_N      Sigma factor regulator N-terminal
       0.15   11.9   0.2        0.4   10.6   0.0    1.8  2  TC1              Thyroid cancer protein 1
       0.19   11.2   0.0       0.27   10.7   0.0    1.1  1  T6SS_VasJ        Type VI secretion, EvfE, EvfF, ImpA, BimE, V
       0.47   10.9   1.4       0.88   10.0   1.4    1.3  1  FeoB_associated  FeoB-associated Cys-rich membrane protein


Domain annotation for each model (and alignments):
>> TPR_21  Tetratricopeptide repeat-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.2   0.6   3.6e-14   3.6e-11       5     184 ..      26     212 ..      24     219 .. 0.85

  Alignments for each domain:
  == domain 1  score: 43.2 bits;  conditional E-value: 3.6e-14
                   TPR_21   5 kengklilvgvvlalvglaGwqgwqdyqe.eqaeeAsalYq....qlqeaveakdaakakeaaeeladeyggtaYaalaaLllAka 85 
                              ++n +++++++v+++v+++G+  +++    ++ae  s++Y+    +l++ +e++d +++   +++l++e g+ +      L + ++
  PHY93_13810|PHY93_13810  26 SKNKNALIAIIVAIVVAVIGFGLYSTFADkSKAEFNSKIYNfeltTLKNFTEKSDPQALVLGIKTLQKEIGNYSGLVPVVLKASDS 111
                              5899*********************987615677799***7322234445569999999*************9999999******* PP

                   TPR_21  86 aveagdlaaAkaqLewvlekakdeelkalarlRLarvllaekkydeAlktLeakkeea...faalvaelrGDilvaqgkldeAraa 168
                               ++++ la+A + L+   + +k+e  +  +  RLa v+ + ++ ++A++tLe+ ++++   f+++     G ++++ g++ +A+a 
  PHY93_13810|PHY93_13810 112 LMSQQHLAEALEVLKIGQQVSKNEYADYFILSRLAVVYEDLGQDAKAIETLEKMNSQSlkiFEGKNYLDLGRLYLKSGDKVKAKAS 197
                              ***************************************************8877766333777655556**************** PP

                   TPR_21 169 YqaAlaaleekarell 184
                              ++  +++ ++++ e++
  PHY93_13810|PHY93_13810 198 FTYVVEKVKDET-EFV 212
                              *99999988874.444 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   0.0      0.12   1.2e+02       9      24 ..     110     125 ..     107     128 .. 0.86
   2 !   12.1   0.0   0.00017      0.17       3      26 ..     141     164 ..     139     165 .. 0.92
   3 !   11.1   0.0   0.00034      0.34       4      29 ..     178     203 ..     175     207 .. 0.87

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.12
                    TPR_2   9 layyklgdyeeAleaf 24 
                              ++++ +++++eAle +
  PHY93_13810|PHY93_13810 110 DSLMSQQHLAEALEVL 125
                              68999********976 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 0.00017
                    TPR_2   3 alynlGlayyklgdyeeAleafek 26 
                              +l +l+ +y+ lg+ ++A+e +ek
  PHY93_13810|PHY93_13810 141 ILSRLAVVYEDLGQDAKAIETLEK 164
                              689*****************9997 PP

  == domain 3  score: 11.1 bits;  conditional E-value: 0.00034
                    TPR_2   4 lynlGlayyklgdyeeAleafekAle 29 
                              +  lG++y+k+gd  +A++ f  ++e
  PHY93_13810|PHY93_13810 178 YLDLGRLYLKSGDKVKAKASFTYVVE 203
                              778*****************987766 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.0       3.6   3.6e+03       8      24 ..     109     125 ..     103     126 .. 0.75
   2 !   12.1   0.0   0.00018      0.18       6      26 ..     144     164 ..     141     166 .. 0.93
   3 !   11.2   0.0   0.00034      0.34       3      24 ..     177     198 ..     175     203 .. 0.91

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 3.6
                              HHHHHHTT-HHHHHHHH CS
                    TPR_8   8 gsiylklgdyeeAkeyy 24 
                              ++ +++++ + eA e++
  PHY93_13810|PHY93_13810 109 SDSLMSQQHLAEALEVL 125
                              57788888999998876 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 0.00018
                              HHHHHHHHTT-HHHHHHHHHH CS
                    TPR_8   6 nlgsiylklgdyeeAkeyyek 26 
                              +l+ +y++lg+  +A+e++ek
  PHY93_13810|PHY93_13810 144 RLAVVYEDLGQDAKAIETLEK 164
                              799****************98 PP

  == domain 3  score: 11.2 bits;  conditional E-value: 0.00034
                              HHHHHHHHHHHTT-HHHHHHHH CS
                    TPR_8   3 ayynlgsiylklgdyeeAkeyy 24 
                               y+ lg++ylk gd+ +Ak+++
  PHY93_13810|PHY93_13810 177 NYLDLGRLYLKSGDKVKAKASF 198
                              699*****************98 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.0       2.9   2.8e+03      11      27 ..      17      34 ..      16      37 .. 0.83
   2 ?   -2.1   0.0       5.6   5.5e+03      10      23 ..     113     126 ..     110     127 .. 0.75
   3 !   16.2   0.0   7.8e-06    0.0078       2      24 ..     142     164 ..     141     172 .. 0.92
   4 ?    5.5   0.0      0.02        19       2      23 ..     178     199 ..     178     210 .. 0.80

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 2.9
                    TPR_7 11 rlGdyeeAielyeqsL.a 27
                             ++Gd e+ i+ ++ +L a
  PHY93_13810|PHY93_13810 17 NDGDVETVISKNKNALiA 34
                             57999****999997766 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 5.6
                    TPR_7  10 srlGdyeeAielye 23 
                               ++++ +eA+e+++
  PHY93_13810|PHY93_13810 113 MSQQHLAEALEVLK 126
                              56788889988765 PP

  == domain 3  score: 16.2 bits;  conditional E-value: 7.8e-06
                    TPR_7   2 LlnLarlysrlGdyeeAielyeq 24 
                              L++La++y++lG+ ++Aie +e+
  PHY93_13810|PHY93_13810 142 LSRLAVVYEDLGQDAKAIETLEK 164
                              789******************99 PP

  == domain 4  score: 5.5 bits;  conditional E-value: 0.02
                    TPR_7   2 LlnLarlysrlGdyeeAielye 23 
                              +l L+rly + Gd  +A   ++
  PHY93_13810|PHY93_13810 178 YLDLGRLYLKSGDKVKAKASFT 199
                              678**********999977776 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.5   1.4e-05     0.014       1      51 [.     112     165 ..     112     170 .. 0.84
   2 !    7.5   0.0     0.006         6      29      57 ..     179     207 ..     176     217 .. 0.83

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 1.4e-05
                   TPR_19   1 llaegdyaeAlalleqalqedpknaearl....lLAeallalgqldeAealLdal 51 
                              l+ ++ +aeAl+ l+   q+  kn++a +    +LA ++  lgq ++A+++L++ 
  PHY93_13810|PHY93_13810 112 LMSQQHLAEALEVLKI-GQQVSKNEYADYfilsRLAVVYEDLGQDAKAIETLEKM 165
                              68899*****999998.57767777777766789******************975 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.006
                   TPR_19  29 llLAeallalgqldeAealLdalpeedpd 57 
                              l+L +++l++g+  +A+a    + e+ +d
  PHY93_13810|PHY93_13810 179 LDLGRLYLKSGDKVKAKASFTYVVEKVKD 207
                              899**************998777766666 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.0       2.5   2.5e+03       5      23 ..     107     125 ..     104     127 .. 0.76
   2 !   10.0   0.0    0.0012       1.2       5      25 ..     144     164 ..     142     165 .. 0.93
   3 !    7.9   0.0    0.0054       5.3       4      28 ..     179     203 ..     177     206 .. 0.86

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 2.5
                              HHHHHHHHHHHHHHHHHHH CS
                    TPR_6   5 klalsyrklgdtdkAleal 23 
                              k+  s+ +++  ++Ale l
  PHY93_13810|PHY93_13810 107 KASDSLMSQQHLAEALEVL 125
                              6667778877999999987 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.0012
                              HHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   5 klalsyrklgdtdkAlealer 25 
                              +la  y+ lg+ +kA+e+le+
  PHY93_13810|PHY93_13810 144 RLAVVYEDLGQDAKAIETLEK 164
                              79******99*********97 PP

  == domain 3  score: 7.9 bits;  conditional E-value: 0.0054
                              HHHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   4 yklalsyrklgdtdkAlealerlik 28 
                              + l+++y+k gd+ kA++ +  +++
  PHY93_13810|PHY93_13810 179 LDLGRLYLKSGDKVKAKASFTYVVE 203
                              779******77*******9987776 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0       4.1   4.1e+03      12      22 ..     113     123 ..     111     126 .. 0.71
   2 !   11.5   0.0   0.00021      0.21       3      26 ..     141     164 ..     139     165 .. 0.92
   3 ?    6.1   0.1      0.01        10       4      25 ..     178     199 ..     176     204 .. 0.87

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 4.1
                              HHTT-HHHHHH CS
                    TPR_1  12 fklgkydeAle 22 
                              ++++ + eAle
  PHY93_13810|PHY93_13810 113 MSQQHLAEALE 123
                              67777788887 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 0.00021
                              HHHHHHHHHHHTT-HHHHHHHHHH CS
                    TPR_1   3 alynlGnayfklgkydeAleyyek 26 
                              +l +l+++y  lg+  +A+e  ek
  PHY93_13810|PHY93_13810 141 ILSRLAVVYEDLGQDAKAIETLEK 164
                              689*****************9887 PP

  == domain 3  score: 6.1 bits;  conditional E-value: 0.01
                              HHHHHHHHHHTT-HHHHHHHHH CS
                    TPR_1   4 lynlGnayfklgkydeAleyye 25 
                              +  lG +y+k g+  +A + + 
  PHY93_13810|PHY93_13810 178 YLDLGRLYLKSGDKVKAKASFT 199
                              6789*************99986 PP

>> DUF3098  Protein of unknown function (DUF3098)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.2   1.3e-06    0.0013       3      43 ..      28      68 ..      26      72 .. 0.92

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 1.3e-06
                  DUF3098  3 gkknyillliglaviilGfiLmsGggsddpnvFnediFsfr 43
                             +k+ +i ++++++v ++Gf L s    +++++Fn +i++f+
  PHY93_13810|PHY93_13810 28 NKNALIAIIVAIVVAVIGFGLYSTFADKSKAEFNSKIYNFE 68
                             5788999********************************96 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.5   0.1    0.0012       1.2       5      28 ..     141     164 ..     106     165 .. 0.71
   2 !   15.2   0.1     2e-05      0.02       5      68 ..     141     198 ..     140     202 .. 0.89

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.0012
                   TPR_12   5 alnnlaavlrrlgrydeAlellek 28 
                              +l++la+v+  lg+ ++A+e lek
  PHY93_13810|PHY93_13810 141 ILSRLAVVYEDLGQDAKAIETLEK 164
                              344566666666666666665554 PP

  == domain 2  score: 15.2 bits;  conditional E-value: 2e-05
                   TPR_12   5 alnnlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlell 68 
                              +l++la+v+  lg+ ++A+e lek   +  +++++++      + +Lgrly+++g+  +A + +
  PHY93_13810|PHY93_13810 141 ILSRLAVVYEDLGQDAKAIETLEKMNSQSLKIFEGKN------YLDLGRLYLKSGDKVKAKASF 198
                              5789*********************999988888877......999*********999997765 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   0.0      0.22   2.2e+02       6      30 ..     107     131 ..     103     145 .. 0.75
   2 !    9.6   0.0    0.0018       1.8       5      28 ..     143     166 ..     140     172 .. 0.87
   3 ?    1.9   0.0      0.55   5.5e+02       4      22 ..     178     196 ..     176     200 .. 0.82

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.22
                   TPR_14   6 alaeallalGdpdeAiallrralal 30 
                              ++ + l+ ++ ++eA+++l+   + 
  PHY93_13810|PHY93_13810 107 KASDSLMSQQHLAEALEVLKIGQQV 131
                              556779999**********977555 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 0.0018
                   TPR_14   5 lalaeallalGdpdeAiallrral 28 
                               +la +++ lG+ ++Ai+ l+++ 
  PHY93_13810|PHY93_13810 143 SRLAVVYEDLGQDAKAIETLEKMN 166
                              689*****************9975 PP

  == domain 3  score: 1.9 bits;  conditional E-value: 0.55
                   TPR_14   4 llalaeallalGdpdeAia 22 
                              +l+l++++l +Gd  +A a
  PHY93_13810|PHY93_13810 178 YLDLGRLYLKSGDKVKAKA 196
                              799*********9766655 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.0   0.0     0.039        38      18      34 .]     144     160 ..     138     160 .. 0.88
   2 !    8.4   0.1     0.003         3      15      33 ..     177     195 ..     175     196 .. 0.90

  Alignments for each domain:
  == domain 1  score: 5.0 bits;  conditional E-value: 0.039
                   TPR_17  18 nLAelllknGdlmtArq 34 
                               LA++++ +G+ ++A++
  PHY93_13810|PHY93_13810 144 RLAVVYEDLGQDAKAIE 160
                              79************986 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.003
                   TPR_17  15 aynnLAelllknGdlmtAr 33 
                               y  L++l+lk Gd+ +A+
  PHY93_13810|PHY93_13810 177 NYLDLGRLYLKSGDKVKAK 195
                              6999***********9997 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.4   0.0     0.007         7       2      58 ..     107     163 ..     106     165 .. 0.90
   2 !    7.0   0.0     0.009         9       1      28 [.     179     206 ..     179     213 .. 0.90

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.007
                   TPR_16   2 alaraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyr 58 
                              ++ ++++ +++ ++A+++l++     + + +++  l  l++++  +g  a+A++ ++
  PHY93_13810|PHY93_13810 107 KASDSLMSQQHLAEALEVLKIGQQVSKNEYADYFILSRLAVVYEDLGQDAKAIETLE 163
                              66789999***********999999999999999*******************7765 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.009
                   TPR_16   1 lalaraalragdyddAaaaleaalkrdp 28 
                              l+l+r++l++gd  +A a ++ ++++ +
  PHY93_13810|PHY93_13810 179 LDLGRLYLKSGDKVKAKASFTYVVEKVK 206
                              79******************99999875 PP

>> DUF357  Protein of unknown function (DUF357)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0       3.2   3.2e+03       5      18 ..     117     130 ..     113     140 .. 0.67
   2 ?   12.7   0.0    0.0001     0.099      34      59 ..     175     200 ..     154     201 .. 0.87
   3 ?   -1.5   0.0       2.8   2.8e+03      26      39 ..     207     220 .]     204     220 .] 0.83

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 3.2
                              HHHHHHHHHH.... CS
                   DUF357   5 lleealekvkiapd 18 
                               l+eale +ki ++
  PHY93_13810|PHY93_13810 117 HLAEALEVLKIGQQ 130
                              46777777776653 PP

  == domain 2  score: 12.7 bits;  conditional E-value: 0.0001
                              HHHHHHHHHHHHHTT-HHHHHHHHHH CS
                   DUF357  34 aesYleDakyflekgdlvnAlasfsY 59 
                               ++Yl  ++ +l+ gd v+A asf+Y
  PHY93_13810|PHY93_13810 175 GKNYLDLGRLYLKSGDKVKAKASFTY 200
                              689**********************9 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 2.8
                              HHHHHHHHHHHHHH CS
                   DUF357  26 aaeevlemaesYle 39 
                              ++ e++++a+ Yl+
  PHY93_13810|PHY93_13810 207 DETEFVKIAKLYLS 220
                              5789999****996 PP

>> UPF0767  UPF0767 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   0.00041      0.41      11      42 ..      28      59 ..      21      79 .. 0.83
   2 ?    0.2   0.0      0.82   8.2e+02      57      81 ..     150     174 ..     143     177 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00041
                  UPF0767 11 tyapyvtlPvaavvGviGynlEsllsdkytpy 42
                             +  + +++ va+vv viG+ l s++ dk +  
  PHY93_13810|PHY93_13810 28 NKNALIAIIVAIVVAVIGFGLYSTFADKSKAE 59
                             455679999******************97765 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.82
                  UPF0767  57 eelnkdvtqveslkekkfvpkavle 81 
                              e+l++d++ +e+l++ + ++ +++e
  PHY93_13810|PHY93_13810 150 EDLGQDAKAIETLEKMNSQSLKIFE 174
                              78999********988877777776 PP

>> Sigma_reg_N  Sigma factor regulator N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.3   0.00016      0.16      14      51 ..      29      66 ..      28      79 .. 0.91

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00016
              Sigma_reg_N 14 rivlislivlllifvilvvtllylaekegnklrevlel 51
                             +++li++iv++++ vi + +++ +a+k++ ++++++ +
  PHY93_13810|PHY93_13810 29 KNALIAIIVAIVVAVIGFGLYSTFADKSKAEFNSKIYN 66
                             689************************99999988765 PP

>> TC1  Thyroid cancer protein 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.1       3.6   3.6e+03      65      76 .]     115     126 ..     111     126 .. 0.83
   2 ?   10.6   0.0    0.0004       0.4      27      67 ..     169     210 ..     152     215 .. 0.82

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 3.6
                      TC1  65 eeelarALmaLr 76 
                              +++la+AL  L+
  PHY93_13810|PHY93_13810 115 QQHLAEALEVLK 126
                              6899****9886 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 0.0004
                      TC1  27 sanIFedvnldqlqrLFkksGDk.kAeeRariifaesqdeee 67 
                              s  IFe+ n   l rL+ ksGDk kA      ++ + +de+e
  PHY93_13810|PHY93_13810 169 SLKIFEGKNYLDLGRLYLKSGDKvKAKASFTYVVEKVKDETE 210
                              568*******************85677766777766666665 PP

>> T6SS_VasJ  Type VI secretion, EvfE, EvfF, ImpA, BimE, VC_A0119, VasJ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   0.00027      0.27     176     234 ..     110     168 ..      92     173 .. 0.92

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00027
                T6SS_VasJ 176 lelaaeegleaalsllqqalaratspRerflwrlllarlleqagkhelAlalleeldeq 234
                               +l+ ++ l++al++l+ +++ ++ + + ++   +la ++e+ g+++ A + le++++q
  PHY93_13810|PHY93_13810 110 DSLMSQQHLAEALEVLKIGQQVSKNEYADYFILSRLAVVYEDLGQDAKAIETLEKMNSQ 168
                              4699*****************99999*****************************9987 PP

>> FeoB_associated  FeoB-associated Cys-rich membrane protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   1.4   0.00089      0.88       4      26 ..      35      57 ..      31      59 .. 0.83

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.00089
          FeoB_associated  4 IVgliiaaavafvirrlikkkkk 26
                             I+ +i++a+++f +++ + +k k
  PHY93_13810|PHY93_13810 35 IIVAIVVAVIGFGLYSTFADKSK 57
                             8888888899999*****99866 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (220 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1053  (0.0587317); expected 358.6 (0.02)
Passed bias filter:                      670  (0.0373696); expected 358.6 (0.02)
Passed Vit filter:                        96  (0.00535445); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              18  [number of targets reported over threshold]
# CPU time: 0.53u 0.26s 00:00:00.79 Elapsed: 00:00:00.45
# Mc/sec: 1469.76
//
Query:       PHY93_13815|PHY93_13815  [L=164]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (164 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       349  (0.0194657); expected 358.6 (0.02)
Passed bias filter:                      267  (0.0148921); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.44
# Mc/sec: 1116.43
//
Query:       PHY93_05885|PHY93_05885  [L=446]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.7e-16   60.3   2.4    7.8e-16   58.2   1.6    2.4  2  T2SSF     Type II secretion system (T2SS), protein F
  ------ inclusion threshold ------
      0.069   12.8   1.4       0.13   11.9   1.4    1.4  1  DUF4391   Domain of unknown function (DUF4391)


Domain annotation for each model (and alignments):
>> T2SSF  Type II secretion system (T2SS), protein F
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.0      0.16   1.5e+03     100     119 ..     149     168 ..     138     172 .. 0.82
   2 !   58.2   1.6   8.7e-20   7.8e-16       3     123 ..     312     436 ..     310     438 .. 0.97

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 0.16
                              HHHHTTXXXXXXXXXXXXXX CS
                    T2SSF 100 aallepllllvvallvllil 119
                              + ll++  ll+++l+v+li 
  PHY93_05885|PHY93_05885 149 SGLLYYTSLLLIGLAVFLIA 168
                              78999999999999999985 PP

  == domain 2  score: 58.2 bits;  conditional E-value: 8.7e-20
                              HHHHHHHHTT--HHHHHHHHHHHHSSHHHHHHHHHHHHHHHTTSSHHHHHC....T-TT.TS-HHHHHHHHHHHHHT-HHHHHHHH CS
                    T2SSF   3 rqlatllsaGvplveaLellaeeaengplaeelkriarrlraGgslseale....rtpssefpelvvqlirageeggnLaevLerl 84 
                              + la+ ++aG+ +v+a+  + e a+  +l+ee++ ++r+++ G+s ++al+    r    ++++++++li+a + g +++ +L+ l
  PHY93_05885|PHY93_05885 312 DMLALSVEAGLDFVAAMAKVIEKAKVNALTEEFDTVIREIKIGSSRADALRnmawRVDLIQISSFCATLIAADSVGASIGPILKSL 397
                              789**************************************************9988889************************** PP

                              HHHHHHHHHHHHHHHHHHHTTXXXXXXXXXXXXXXXXXX CS
                    T2SSF  85 aeyleeerelrrkllaallepllllvvallvllillail 123
                              a +++++   + +++ a++ +++l+++++l+++ +l+i+
  PHY93_05885|PHY93_05885 398 AVEIRQKKSAEVEKAGATAATKILFPMMFLIIPSVLMIV 436
                              **********************************99987 PP

>> DUF4391  Domain of unknown function (DUF4391)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   1.4   1.5e-05      0.13     150     218 ..      19      87 ..      12      99 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 1.5e-05
                  DUF4391 150 fldalalknlpktdlkalYqelidklialeaasltgefsleskediaerrerlaeieelekeiaklkkk 218
                              +l+a+++++l+ ++++++Y+e +d+  + ++ +    +++++  d  e  +   ++e+l+++ ++l+k+
  PHY93_05885|PHY93_05885  19 ILKAIEFEELSTDNKFEIYKESCDQGQMANCYQEAIWYKKNQRLDTIETNKLRSTLESLKAKRKDLRKE 87 
                              789****************************55555555555555555555555566666665555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (446 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1056  (0.058899); expected 358.6 (0.02)
Passed bias filter:                      562  (0.0313459); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.64u 0.28s 00:00:00.92 Elapsed: 00:00:00.48
# Mc/sec: 2822.26
//
Query:       PHY93_13820|PHY93_13820  [L=265]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (265 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       370  (0.020637); expected 358.6 (0.02)
Passed bias filter:                      334  (0.018629); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.24s 00:00:00.74 Elapsed: 00:00:00.43
# Mc/sec: 1836.91
//
Query:       PHY93_13825|PHY93_13825  [L=650]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.1e-46  156.7   0.2    8.9e-24   83.8   0.0    3.4  3  MMR_HSR1         50S ribosome-binding GTPase
      1e-23   83.4   0.1    2.9e-23   82.0   0.1    1.8  1  KH_dom-like      KH-domain-like of EngA bacterial GTPase enzy
    5.2e-20   71.5   0.0    5.5e-07   29.2   0.0    3.8  3  FeoB_N           Ferrous iron transport protein B
    2.2e-19   69.7   0.8    1.1e-07   31.6   0.0    4.4  4  GTP_EFTU         Elongation factor Tu GTP binding domain
    8.1e-11   42.1   2.3       0.05   13.5   0.0    4.2  3  RsgA_GTPase      RsgA GTPase
    7.8e-10   39.1   3.7    1.4e-05   25.2   1.4    4.2  3  Dynamin_N        Dynamin family
    8.2e-07   29.3   1.3      0.054   13.7   0.0    4.4  4  Roc              Ras of Complex, Roc, domain of DAPkinase
    1.4e-05   25.7   0.0      0.075   13.6   0.0    3.0  2  ABC_tran         ABC transporter
    5.4e-05   22.7   0.8          6    6.3   0.1    4.2  4  Arf              ADP-ribosylation factor family
    9.2e-05   22.3   4.8     0.0044   16.8   0.5    2.5  2  AAA_15           AAA ATPase domain
    0.00024   21.4   0.1      0.054   13.8   0.0    2.9  2  AAA_22           AAA domain
    0.00098   18.8   2.1       0.12   12.0   0.1    3.8  4  cobW             CobW/HypB/UreG, nucleotide-binding domain
     0.0013   19.2   0.0        1.8    9.0   0.0    2.8  2  AAA_16           AAA ATPase domain
     0.0044   16.5   0.2       0.17   11.2   0.1    2.3  2  TniB             Bacterial TniB protein
     0.0046   16.6   0.5        7.1    6.2   0.1    3.8  4  Ras              Ras family
     0.0048   17.3   0.0       0.41   11.1   0.0    2.7  2  RNA_helicase     RNA helicase
     0.0051   16.8   6.2        1.2    9.1   0.1    3.8  4  MMR_HSR1_Xtn     C-terminal region of MMR_HSR1 domain
     0.0058   16.6   0.0        4.8    7.1   0.0    3.0  3  Ploopntkinase3   P-loop Nucleotide Kinase3
     0.0059   17.2   1.6        2.7    8.6   0.0    3.4  2  AAA_18           AAA domain
     0.0059   16.3   0.0        2.3    8.0   0.1    2.5  2  AAA_29           P-loop containing region of AAA domain
     0.0066   15.5   0.0        1.9    7.4   0.0    2.3  2  MeaB             Methylmalonyl Co-A mutase-associated GTPase 
      0.009   15.4   2.2        1.5    8.1   0.1    3.9  4  AIG1             AIG1 family
  ------ inclusion threshold ------
      0.023   14.9   0.0        3.2    7.9   0.0    2.8  3  AAA_33           AAA domain
       0.07   13.4   0.0        4.5    7.5   0.0    2.7  2  AAA_28           AAA domain
      0.072   12.5   0.9          5    6.5   0.0    3.4  4  SRPRB            Signal recognition particle receptor beta su
       0.08   12.7   0.0        1.6    8.4   0.0    3.0  4  ATP_bind_1       Conserved hypothetical ATP binding protein
      0.099   12.4   3.4         10    6.0   0.0    3.1  2  NOG1             Nucleolar GTP-binding protein 1 (NOG1)
       0.18   11.5   0.0        3.4    7.4   0.0    2.5  2  Viral_helicase1  Viral (Superfamily 1) RNA helicase
       0.79    9.5  11.2       0.67    9.7   6.1    3.1  2  AAA_21           AAA domain, putative AbiEii toxin, Type IV T


Domain annotation for each model (and alignments):
>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   83.8   0.0   1.4e-26   8.9e-24       2     114 .]      19     153 ..      18     153 .. 0.77
   2 !   42.0   0.0   1.4e-13   8.4e-11       2      42 ..     226     267 ..     225     292 .. 0.89
   3 !   27.2   0.1   5.1e-09   3.1e-06      46     114 .]     420     492 ..     385     492 .. 0.78

  Alignments for each domain:
  == domain 1  score: 83.8 bits;  conditional E-value: 1.4e-26
                              EEEEESTTSSHHHHHHHHHTS..TEEESSSTTSSSSEEEEEEE......ETTEEEEEEECGGCS.........SHHHHHH.H.... CS
                 MMR_HSR1   2 vaivGrpNvGKStLinaltge..kaivsdkpgtTrdinegrvk......lkgkeielvDtpGli.........egaseek.g.... 65 
                              + ++GrpNvGKSt++n+l+++  kai+ dkpg+Trd  +g  +       k+ e ++vDt G++         +    ++ +    
  PHY93_13825|PHY93_13825  19 ISLIGRPNVGKSTIFNRLMRKahKAITHDKPGVTRDRHYGIASfeeiahQKKGEAIFVDTGGFYptkidenvpK----QRdQimnk 100
                              789*****************8889****************987667665445789*******864444432221....11232222 PP

                              .....HHHHHHHHHCTSEEEEEEETTTTCSHHHHHHHHHHHHHTTSEEEEEEES CS
                 MMR_HSR1  66 .....lgkaflaleeadlillvvdaseeklkpldeeleelleeakkplilvlnk 114
                                     +a  a++e+dlil+vvd++ e++ p d+ ++++++++kkp+ +++nk
  PHY93_13825|PHY93_13825 101 ffnimTDQAKTAIRESDLILFVVDSR-EGVLPYDQMIADYIRKEKKPFWVLVNK 153
                              222225555556888*********77.8899********************998 PP

  == domain 2  score: 42.0 bits;  conditional E-value: 1.4e-13
                              EEEEESTTSSHHHHHHHHHTS.TEEESSSTTSSSSEEEEEEE CS
                 MMR_HSR1   2 vaivGrpNvGKStLinaltge.kaivsdkpgtTrdinegrvk 42 
                                ++G pN+GKStL+n l+g+ +a vsd+pgtT d++eg ++
  PHY93_13825|PHY93_13825 226 LSLIGAPNAGKSTLLNLLLGSqRALVSDIPGTTVDPIEGFFD 267
                              579*****************989*************998765 PP

  == domain 3  score: 27.2 bits;  conditional E-value: 5.1e-09
                              EEEEEEECGGC.....SSHHHHHHHHHHHHHHHHCTSEEEEEEETTTTCSHHHHHHHHHHHHHTTSEEEEEEES CS
                 MMR_HSR1  46 keielvDtpGl.....iegaseekglgkaflaleeadlillvvdaseeklkpldeeleelleeakkplilvlnk 114
                              +++++vDt+G+     ++g  e++++ ++++ + e+d++++++da+  +++++d++l ++  e++k +i++lnk
  PHY93_13825|PHY93_13825 420 RSLHIVDTAGIrrqksVDGFIEQQSVYRSLRCITESDVVIFMIDAT-IGISHQDRRLLDIALEKGKSVIVCLNK 492
                              569*******5433331233446677777777889*********88.67************************8 PP

>> KH_dom-like  KH-domain-like of EngA bacterial GTPase enzymes, C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   82.0   0.1   4.7e-26   2.9e-23       2      80 .]     554     635 ..     553     635 .. 0.96

  Alignments for each domain:
  == domain 1  score: 82.0 bits;  conditional E-value: 4.7e-26
                              --HHHHHHHHHHHHCCS--S.ET..TCC-EEEEEEEEETTTTEEEEEECSCCCS-HHHHHHHHHHHHHHCT-TTS--EEEEE CS
              KH_dom-like   2 istseLnrvleeavekhppp.vk..gkrlkiyyatqvgtrpptfvlfvndpelvkesykryLenqlreafgfegtPirlkfR 80 
                              i t+ Lnr + +++e+hp+  +k  gkr+k++ya+  +++pptf+lf+n  + ++++y  +L+n lr++f++++tPi+l+fR
  PHY93_13825|PHY93_13825 554 IGTGVLNRYVYQLIESHPVAiKKagGKRFKVKYASMLKSNPPTFLLFTNLSKGIPDNYTSFLKNGLRKEFDLSNTPIHLIFR 635
                              78***************999755789*******************************************************9 PP

>> FeoB_N  Ferrous iron transport protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.2   0.0     9e-10   5.5e-07       2     130 ..      18     169 ..      17     194 .. 0.71
   2 !   25.1   0.0   1.6e-08     1e-05       3      43 ..     226     267 ..     224     278 .. 0.87
   3 !   12.7   0.0   0.00011     0.067      46     121 ..     419     499 ..     403     543 .. 0.76

  Alignments for each domain:
  == domain 1  score: 29.2 bits;  conditional E-value: 9e-10
                              EEEEEESTTSSHHHHHHHHHTTSEE.E.EESTTSSSEEEEEEEEE......TTEEEEEEE----SSS....SSSSHHHHHHHHHHH CS
                   FeoB_N   2 tvalvGnpnvGkttlfnaltgakqk.v.gNwpGvtvekkegklkl......kgkeveivDlPGiYsl....sayseeekvardfll 75 
                               + l+G pnvGk+t+fn+l  + +k +    pGvt +++ g  ++      k+ e+ +vD  G Y      +   + +++ ++f+ 
  PHY93_13825|PHY93_13825  18 VISLIGRPNVGKSTIFNRLMRKAHKaItHDKPGVTRDRHYGIASFeeiahqKKGEAIFVDTGGFYPTkideNVPKQRDQIMNKFFN 103
                              689****************987655131467********9987764444434567889*******886665223344555555543 PP

                              .........CTSSSEEEEEEEGGG..HHHHHHHHHHHHHTTSSEEEEEETHHHHHHTTEEE-HHHH CS
                   FeoB_N  76 .........eeepdvvvnvvdatn..lernLyLtlqllelgvpvvlalnmideaekkgieidlkkL 130
                                        +e d+++ vvd+ +  l  + ++   +   ++p+ + +n++d+ +++g e++  +L
  PHY93_13825|PHY93_13825 104 imtdqaktaIRESDLILFVVDSREgvLPYDQMIADYIRKEKKPFWVLVNKYDTEKQEGEELEFYQL 169
                              344444333356799999999985446667777777788889999999999999999999888777 PP

  == domain 2  score: 25.1 bits;  conditional E-value: 1.6e-08
                              EEEEESTTSSHHHHHHHHHTTS.EEEEESTTSSSEEEEEEEE CS
                   FeoB_N   3 valvGnpnvGkttlfnaltgak.qkvgNwpGvtvekkegklk 43 
                              + l+G pn+Gk+tl+n l g++   v+  pG+tv+  eg ++
  PHY93_13825|PHY93_13825 226 LSLIGAPNAGKSTLLNLLLGSQrALVSDIPGTTVDPIEGFFD 267
                              579****************9973569*********9999886 PP

  == domain 3  score: 12.7 bits;  conditional E-value: 0.00011
                              TEEEEEEE----...SSSSSSSHHHHHHHHHHHCTSSSEEEEEEEGGG..HHHHHHHHHHHHHTTSSEEEEEETHHHHHHT CS
                   FeoB_N  46 gkeveivDlPGi...Yslsayseeekvardflleeepdvvvnvvdatn..lernLyLtlqllelgvpvvlalnmideaekk 121
                               ++++ivD  Gi    s++ + e+++v r++ + +e dvv+ ++dat    +++  L+   le g++v+++ln+id ++++
  PHY93_13825|PHY93_13825 419 WRSLHIVDTAGIrrqKSVDGFIEQQSVYRSLRCITESDVVIFMIDATIgiSHQDRRLLDIALEKGKSVIVCLNKIDLLKES 499
                              37899******95555778888999999999999************8432345566677789**************99865 PP

>> GTP_EFTU  Elongation factor Tu GTP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.6   0.0    0.0081         5       4      32 ..      17      45 ..      14      80 .. 0.84
   2 !   22.5   0.0   1.1e-07   6.7e-05      86     141 ..     108     163 ..     104     214 .. 0.84
   3 ?    4.1   0.0     0.046        29       6      25 ..     226     245 ..     221     253 .. 0.84
   4 !   31.6   0.0   1.8e-10   1.1e-07      86     184 ..     444     539 ..     378     568 .. 0.72

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.0081
                             EEEEEEESTTSSHHHHHHHHHHHTTSSCH CS
                 GTP_EFTU  4 rnigiighvDhGKtTLtdrLlyktgaisk 32
                             + i++ig  + GK+T+  rL+ k+++   
  PHY93_13825|PHY93_13825 17 MVISLIGRPNVGKSTIFNRLMRKAHKAIT 45
                             66899****************99987654 PP

  == domain 2  score: 22.5 bits;  conditional E-value: 1.1e-07
                              HHHHHHHT-SEEEEEEETTTBSTHHHHHHHHHHHHTTTEEEEEEESCGSTHHHHHH CS
                 GTP_EFTU  86 evirglrvlDgavlvvdaveGvepqteevlrlalkegvpiivfiNKmDrlkaelke 141
                              +  +++r  D+ ++vvd++eGv p  + ++  ++ke+ p+ v++NK D  k+e +e
  PHY93_13825|PHY93_13825 108 QAKTAIRESDLILFVVDSREGVLPYDQMIADYIRKEKKPFWVLVNKYDTEKQEGEE 163
                              567899******************************************99655444 PP

  == domain 3  score: 4.1 bits;  conditional E-value: 0.046
                              EEEEESTTSSHHHHHHHHHH CS
                 GTP_EFTU   6 igiighvDhGKtTLtdrLly 25 
                              +++ig  ++GK+TL+  Ll 
  PHY93_13825|PHY93_13825 226 LSLIGAPNAGKSTLLNLLLG 245
                              6789***********99985 PP

  == domain 4  score: 31.6 bits;  conditional E-value: 1.8e-10
                              HHHHH...HHT-SEEEEEEETTTBSTHHHHHHHHHHHHTTTEEEEEEESCGSTHHHHHHHHHH..HHHHHHHHHHHHHHHHHTTTT CS
                 GTP_EFTU  86 evirg...lrvlDgavlvvdaveGvepqteevlrlalkegvpiivfiNKmDrlkaelkeivee..vkqklsrkeeklekygekgek 166
                               v+r+   +   D++++++da+ G+ +q +++l +al++g  +iv++NK+D lk++l   + +    ++l       ++ +     
  PHY93_13825|PHY93_13825 444 SVYRSlrcITESDVVIFMIDATIGISHQDRRLLDIALEKGKSVIVCLNKIDLLKESLPDEKAKkeWIKDL-------RDTVPWL-Y 521
                              466662224568*****************************************88875544330033333.......2221111.2 PP

                              TEEEEEEBTTTTBTHHHH CS
                 GTP_EFTU 167 evpvvfgSalkgegvktl 184
                               + ++++Sa+ ++ + +l
  PHY93_13825|PHY93_13825 522 YCDLIPISAKYAKHIGNL 539
                              445666666665555544 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.5   0.0   0.00016       0.1      99     161 ..      16      81 ..       3      87 .. 0.75
   2 !   11.7   0.4    0.0003      0.18      77     130 ..     196     254 ..     122     258 .. 0.82
   3 !   13.5   0.0   8.1e-05      0.05      36     101 ..     473     547 ..     444     557 .. 0.72

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 0.00016
                              TSEEEEECSTTSSHHHHHHHHCTT-----S--------------SE..EEEEETT.TEEEESS-SS CS
              RsgA_GTPase  99 dktsvlvGqSGvGKStLinallpelelktgevseklgrGkhTTtav..ellelae.gglliDtPGf 161
                              + ++ l+G   vGKSt+ n+l+ +++ ++ + +    r +h   a+  e+ + ++ +++ +Dt Gf
  PHY93_13825|PHY93_13825  16 SMVISLIGRPNVGKSTIFNRLMRKAHKAITHDKPGVTRDRHYGIASfeEIAHQKKgEAIFVDTGGF 81 
                              467889******************999999888888888886543221555555425566888888 PP

  == domain 2  score: 11.7 bits;  conditional E-value: 0.0003
                              SEEEE--TTTHTTHHHHHHHCTTSEEE.....EECSTTSSHHHHHHHHCTT-----S-- CS
              RsgA_GTPase  77 yevllvsaktkegleelkellkdktsv.....lvGqSGvGKStLinallpelelktgev 130
                               e+++ ++ +++++++l++ ++ +  v     l+G   +GKStL+n ll+++++ ++++
  PHY93_13825|PHY93_13825 196 KEIIKFENLQTQEMSALQKGVTPREKVvgrlsLIGAPNAGKSTLLNLLLGSQRALVSDI 254
                              5566666667777777777776633221333389****************999888877 PP

  == domain 3  score: 13.5 bits;  conditional E-value: 8.1e-05
                              HHHHHHHHHTT-EEEEEEE-GGG--HHH....HHHHHHHHHHHTT.....SEEEE--TTTHTTHHHHHHHCTTSE CS
              RsgA_GTPase  36 drfLvlaeekgiepvivlnKiDlleeee....eleelkeelealg.....yevllvsaktkegleelkellkdkt 101
                               r+L +a ekg +++++lnKiDll+e+     + +e+ ++l+++      ++++ +sak  +++ +lke++k+ +
  PHY93_13825|PHY93_13825 473 RRLLDIALEKGKSVIVCLNKIDLLKESLpdekAKKEWIKDLRDTVpwlyyCDLIPISAKYAKHIGNLKEVIKKTV 547
                              466778889999************998777777778888887753222224667788888888888888888765 PP

>> Dynamin_N  Dynamin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.9   0.0      0.04        25       1      22 [.      19      40 ..      19      54 .. 0.87
   2 ?    4.7   0.0     0.047        29     105     160 ..      75     146 ..      62     154 .. 0.67
   3 !   25.2   1.4   2.3e-08   1.4e-05       2     167 ..     227     492 ..     226     493 .. 0.69

  Alignments for each domain:
  == domain 1  score: 4.9 bits;  conditional E-value: 0.04
                             EEEEEBTTTTHHHHHHHHHTS- CS
                Dynamin_N  1 iavvGsqSsGKSSvlnaLlged 22
                             i ++G  + GKS++ n L++++
  PHY93_13825|PHY93_13825 19 ISLIGRPNVGKSTIFNRLMRKA 40
                             6799**************9875 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.047
                              EEE---B-SSSGTTS.................HHHHHHHSTTEEEEEEEETTS-CCC-CHHHHHHHHSTTBTT CS
                Dynamin_N 105 lvDlPGldsvnkrdq.................elvkeyikkadiilavtsanhdlsnsealflarevdpkgkr 160
                              +vD+ G+  ++  +                  + +k++i+++d+il+v+++   +     + +a+ +++++k 
  PHY93_13825|PHY93_13825  75 FVDTGGFYPTKIDENvpkqrdqimnkffnimtDQAKTAIRESDLILFVVDSREGVL-PYDQMIADYIRKEKKP 146
                              56666665555444455556668888888888999**************9987555.3334455555555555 PP

  == domain 3  score: 25.2 bits;  conditional E-value: 2.3e-08
                              EEEEBTTTTHHHHHHHHHTS--S---SSS.---S-EEEEE.............................................. CS
                Dynamin_N   2 avvGsqSsGKSSvlnaLlgedilprgpnp.tTrrplelql.............................................. 40 
                               ++G+ ++GKS++ln Llg++   ++ +p tT  p+e                                                 
  PHY93_13825|PHY93_13825 227 SLIGAPNAGKSTLLNLLLGSQRALVSDIPgTTVDPIEGFFdlffgknayaldeevifakndtllfqqyeefrannpevynsltysy 312
                              589****************9988888886266677775557899999999999999999999999999999999999999999999 PP

                              ..............................................CCT---CCS...SSEEEE......T-EB--CHHHHHHHHH CS
                Dynamin_N  41 ..............................................geeeeaseravkeelkek......ekkledfsevreeiek 74 
                                                                            +  e    ++ ++e+ e+      e++l+d  ++ +e e 
  PHY93_13825|PHY93_13825 313 nleeegtrgvpvydeedyvssetplyaddvaseqekeidldkvlsdD--EL---EKYDNEVYENifsddlEENLDDEVDFLKEDET 393
                              88888888888887777766666666666665443333333333221..11...11111111112332344444444455555555 PP

                              HHHHHHTSSSS--SS-EEEEEEETTS-SEEEEE---B-SSSGTTS.......HHHHHHHSTTEEEEEEEETTS-CCC-CHHHHHHH CS
                Dynamin_N  75 etekiagankgiskkvillkilsllvkgltlvDlPGldsvnkrdq.......elvkeyikkadiilavtsanhdlsnsealflare 153
                              +++ +a+  +++ +++ + ++ + +   l +vD+ G+ +++  d            + i+++d+++++ +a   +s+++++   + 
  PHY93_13825|PHY93_13825 394 SEDFLAELDNETVTEIKSDENDGSQWRSLHIVDTAGIRRQKSVDGfieqqsvYRSLRCITESDVVIFMIDATIGISHQDRRL-LDI 478
                              5555555555555557788888889999***********99888789998555556678*****************888765.566 PP

                              HSTTBTTEEEEEE- CS
                Dynamin_N 154 vdpkgkrtivvltk 167
                              + +kgk++iv l+k
  PHY93_13825|PHY93_13825 479 ALEKGKSVIVCLNK 492
                              66778888887777 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.7   0.0   8.8e-05     0.054       2      39 ..      19      56 ..      18      82 .. 0.71
   2 ?   -2.1   0.0       6.8   4.2e+03      77     119 ..     113     155 ..     106     156 .. 0.56
   3 ?    4.9   0.0     0.046        29       2      22 ..     226     246 ..     225     254 .. 0.85
   4 ?    5.9   0.1     0.023        14      34     119 ..     399     494 ..     387     495 .. 0.53

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 8.8e-05
                             EEEESSTTSSHHHHHHCHCT-CCC-EEETTTTEEEEEE CS
                      Roc  2 vvlvGdsgvGKtsllkrfvedkfsekekstigvdfltk 39
                             + l+G  +vGK+++++r++++  +  ++   gv+  ++
  PHY93_13825|PHY93_13825 19 ISLIGRPNVGKSTIFNRLMRKAHKAITHDKPGVTRDRH 56
                             679*****************999988888888776543 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 6.8
                              HCTSCEEEEEEEGHHHHCHHHHHHHHHHH..CSSS-EEEEEE-TT CS
                      Roc  77 lreaalailvydsrssenlkeWlkelkkv..agkspvilvgnkiD 119
                              +re++l+++v+dsr+   + ++ + + ++   +k+p+ +++nk+D
  PHY93_13825|PHY93_13825 113 IRESDLILFVVDSREG--VLPYDQMIADYirKEKKPFWVLVNKYD 155
                              5778888888887653..222223333331133456666777776 PP

  == domain 3  score: 4.9 bits;  conditional E-value: 0.046
                              EEEESSTTSSHHHHHHCHCT- CS
                      Roc   2 vvlvGdsgvGKtsllkrfved 22 
                              + l+G  ++GK++ll+ ++ +
  PHY93_13825|PHY93_13825 226 LSLIGAPNAGKSTLLNLLLGS 246
                              789************987765 PP

  == domain 4  score: 5.9 bits;  conditional E-value: 0.023
                              EEEEEEECGGSGGCTTBTTTTCEEEEEEEE-SGGCTTTT......-HHHH.....CTSCEEEEEEEGHHH.HCHHHHHHHHHHHCS CS
                      Roc  34 vdfltkevtkikgvendkkvkkvklniWDtaGqerfrsl......hplyl.....reaalailvydsrss.enlkeWlkelkkvag 107
                              +++ +++vt+ik+ end + +  +l+i DtaG  r +s+      +++y      +e++++i+++d++   ++ ++ l ++  + g
  PHY93_13825|PHY93_13825 399 AELDNETVTEIKSDENDGS-QWRSLHIVDTAGIRRQKSVdgfieqQSVYRslrciTESDVVIFMIDATIGiSHQDRRLLDIALEKG 483
                              4556677888888666654.5578********999887611111122332222223444445555544321344444444444333 PP

                              SS-EEEEEE-TT CS
                      Roc 108 kspvilvgnkiD 119
                               + vi++ nkiD
  PHY93_13825|PHY93_13825 484 -KSVIVCLNKID 494
                              .34556666666 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.9   0.0    0.0034       2.1      10      42 ..      15      44 ..      10     161 .. 0.71
   2 !   13.6   0.0   0.00012     0.075      13      80 ..     225     334 ..     221     425 .. 0.63

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.0034
                             TTSEEEEEESTTSSHHHHHHHHTTSS--SEEEE CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran 10 egekvaivGenGaGKStLlkllagllkpteGei 42
                             ++ ++ ++G+   GKSt+++ l+++ ++    i
  PHY93_13825|PHY93_13825 15 RSMVISLIGRPNVGKSTIFNRLMRKAHK---AI 44
                             667899****************999876...33 PP

  == domain 2  score: 13.6 bits;  conditional E-value: 0.00012
                              EEEEEESTTSSHHHHHHHHTTSS--SEEEE........EETTCEGGG.......B-HHHCCHCEEEE-SS--S-TTSB.HHHH... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx........xxxxxxxxx.......xxxxxxxxxxxxxxxxxxxxxxxx.xxxx... RF
                 ABC_tran  13 kvaivGenGaGKStLlkllagllkpteGei........lldgkdlke.......qeleslrkeigvlpqepqlfpelt.vren... 79 
                              ++ ++G   aGKStLl+ll+g  +    +i        +               ++   l++e+ + + ++ lf++++  r n   
  PHY93_13825|PHY93_13825 225 RLSLIGAPNAGKSTLLNLLLGSQRALVSDIpgttvdpiE-------GffdlffgKNAYALDEEVIFAKNDTLLFQQYEeFRANnpe 303
                              5789*****************998866666333223220.......1444444444444444444444444444444333333444 PP

                              ..............................H CS
                              ..............................x RF
                 ABC_tran  80 ..............................e 80 
                                                            e
  PHY93_13825|PHY93_13825 304 vynsltysynleeegtrgvpvydeedyvssE 334
                              4444555555555555555555555554440 PP

>> Arf  ADP-ribosylation factor family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.2   0.0      0.01       6.5       9      41 ..      11      43 ..       4      53 .. 0.82
   2 ?   -0.2   0.0      0.98   6.1e+02      83     131 ..     117     160 ..     110     198 .. 0.61
   3 ?    4.8   0.0     0.027        17      15      38 ..     224     247 ..     209     263 .. 0.76
   4 !    6.3   0.1    0.0098         6      81     151 ..     454     519 ..     442     542 .. 0.78

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.01
                             TT.TTEEEEEEEESTTSSHHHHHHHHHHSSCEE CS
                      Arf  9 klkkkelrilllGLDnaGKtTilkklkleelvt 41
                             +++++++ i l+G  n GK+Ti ++l+ +  + 
  PHY93_13825|PHY93_13825 11 NTYRRSMVISLIGRPNVGKSTIFNRLMRKAHKA 43
                             5568999999****************9887654 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.98
                              SEEEEEEETT-CTTHHHHHHHHHHHCTSGCCTTSEEEEEEE-TTSTTSS CS
                      Arf  83 davifvvDsadreRleeakeeLkalleeeelkevallvlaNKqDlpeal 131
                              d ++fvvDs +   +    + ++  +++e   + ++ vl NK D++++ 
  PHY93_13825|PHY93_13825 117 DLILFVVDSRE--GVLPYDQMIADYIRKE---KKPFWVLVNKYDTEKQE 160
                              66667777643..2333333333333333...45777888888877654 PP

  == domain 3  score: 4.8 bits;  conditional E-value: 0.027
                              EEEEEEESTTSSHHHHHHHHHHSS CS
                      Arf  15 lrilllGLDnaGKtTilkklklee 38 
                               r+ l+G  naGK+T+l+ l   +
  PHY93_13825|PHY93_13825 224 GRLSLIGAPNAGKSTLLNLLLGSQ 247
                              477899***********9886554 PP

  == domain 4  score: 6.3 bits;  conditional E-value: 0.0098
                              TESEEEEEEETT-CTTHHHHHHHHHHHCTSGCCTTSEEEEEEE-TTSTTSS-HHHHHHHTTGGGSSSSSSE CS
                      Arf  81 ktdavifvvDsadreRleeakeeLkalleeeelkevallvlaNKqDlpealseeelrellgleelkgkrkl 151
                              + d+vif++D++    +  ++++ ++ll+    k   ++v  NK+Dl +    +e +++  +++l+ + ++
  PHY93_13825|PHY93_13825 454 ESDVVIFMIDAT----IGISHQD-RRLLDIALEKGKSVIVCLNKIDLLKESLPDEKAKKEWIKDLRDTVPW 519
                              678899999986....4444444.56777777788899*********999888888888888888866666 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.8   0.3    0.0078       4.8      25     174 ..      18     181 ..       6     213 .. 0.57
   2 !   16.8   0.5   7.1e-06    0.0044      28     174 ..     228     411 ..     223     452 .. 0.78

  Alignments for each domain:
  == domain 1  score: 6.8 bits;  conditional E-value: 0.0078
                   AAA_15  25 ltvliGkNnsGKSsilealdlFlnnkekkn...................kkvikiekedleifeniseskdikIdvefaekekake 91 
                              +  liG+ n+GKS+i + l          +                   +++i  +k+   if ++  +++ kId +        +
  PHY93_13825|PHY93_13825  18 VISLIGRPNVGKSTIFNRLMRKAH-----KaithdkpgvtrdrhygiasFEEIAHQKKGEAIFVDTGGFYPTKIDENVP------K 92 
                              6689***********999822222.....12345678888888888887555556666666666666666666666661......1 PP

                   AAA_15  92 yektlkskekkkadlllkkkesdlkktikdkklklkknelsdekisvekkks......kkelpkekeeklekekeelkidkedlkk 171
                                +   +k  + ++ + k  +++ + ++++ +       +++++ ++  k++       ++ ++ek+e +e+e + l i  e+l k
  PHY93_13825|PHY93_13825  93 QRDQIMNKFFNIMTDQAKTAIRESDLILFVVDSREGVLPYDQMIADYIRKEKkpfwvlVNKYDTEKQEGEELEFYQLGIGEEELYK 178
                              11222222223333333333333333333333333333344444433333334467776666677777777888888888888877 PP

                   AAA_15 172 lik 174
                              ++ 
  PHY93_13825|PHY93_13825 179 VSA 181
                              776 PP

  == domain 2  score: 16.8 bits;  conditional E-value: 7.1e-06
                   AAA_15  28 liGkNnsGKSsilealdlFlnnkekkn..................................kkvikiekedleifeniseskdikI 79 
                              liG+ n+GKS++l++l  + ++                                        k +++  +++e+f+ ++++    +
  PHY93_13825|PHY93_13825 228 LIGAPNAGKSTLLNLL--LGSQR---AlvsdipgttvdpiegffdlffgknayaldeevifAKNDTLLFQQYEEFRANNPEVYNSL 308
                              9**************9..44433...134688899999999*99999999888888776664444555566777777777777778 PP

                   AAA_15  80 dvef.............aekekakeyektlkskekkkadlllkkkesdlkktikdkklklkknelsdekisvekkkskkelpkeke 152
                              ++ +             +    +++y++++ +  ++ +    ++ke dl+k + d +l+ + ne++ +++s++ +++  +  ++ +
  PHY93_13825|PHY93_13825 309 TYSYnleeegtrgvpvyD----EEDYVSSETPLYAD-DVASEQEKEIDLDKVLSDDELEKYDNEVYENIFSDDLEENLDDEVDFLK 389
                              888888877666555431....33333333333222.22345789999************************************** PP

                   AAA_15 153 eklekekeelkidkedlkklik 174
                              e++++e+   ++d+e+++++ +
  PHY93_13825|PHY93_13825 390 EDETSEDFLAELDNETVTEIKS 411
                              ****************999976 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.8   0.0   8.8e-05     0.054       6      38 ..      17      69 ..      12     150 .. 0.68
   2 ?    4.4   0.0     0.066        41       8      28 ..     226     246 ..     221     281 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 8.8e-05
                   AAA_22  6 gilvvtGesGtGKTtllrrlleqldeeakaee....................e 38
                              ++ ++G + +GK+t  +rl++++++++ +++                    +
  PHY93_13825|PHY93_13825 17 MVISLIGRPNVGKSTIFNRLMRKAHKAITHDKpgvtrdrhygiasfeeiahqK 69
                             57899********************9999999888877666666666555552 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.066
                   AAA_22   8 lvvtGesGtGKTtllrrlleq 28 
                              l ++G + +GK+tll+ ll +
  PHY93_13825|PHY93_13825 226 LSLIGAPNAGKSTLLNLLLGS 246
                              5799***********999765 PP

>> cobW  CobW/HypB/UreG, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.0       1.3   8.1e+02       2      26 ..      18      42 ..      17      46 .. 0.81
   2 ?   -0.1   0.0         1   6.2e+02      74      99 ..      63      86 ..      53     167 .. 0.51
   3 ?    2.5   0.0      0.16        96       5      23 ..     228     247 ..     225     253 .. 0.79
   4 !   12.0   0.1   0.00019      0.12      88     174 ..     425     518 ..     394     521 .. 0.71

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 1.3
                             EEEEEESTTCCHHHHHHHHHCT--S CS
                     cobW  2 vtvltGflGsGKTtLlnhllenrag 26
                             v+ l G +  GK+t+ n+l++++++
  PHY93_13825|PHY93_13825 18 VISLIGRPNVGKSTIFNRLMRKAHK 42
                             5667788889**********88664 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 1
                             HHHHHHHTT-SEEEEEECTTTTHHHH CS
                     cobW 74 ealeereerldviliEttGlaePapv 99
                             e++++++ + ++i++ t+G   P+ +
  PHY93_13825|PHY93_13825 63 EEIAHQK-KGEAIFVDTGGFY-PTKI 86
                             5555555.5666666666643.2222 PP

  == domain 3  score: 2.5 bits;  conditional E-value: 0.16
                              EEESTTCCHHHHHHHHH.CT CS
                     cobW   5 ltGflGsGKTtLlnhll.en 23 
                              l G + +GK+tLln ll ++
  PHY93_13825|PHY93_13825 228 LIGAPNAGKSTLLNLLLgSQ 247
                              668888********999533 PP

  == domain 4  score: 12.0 bits;  conditional E-value: 0.00019
                              EEECTTTTHHHH...HTT....SHHHHHCCCECEEEEEEETTTH.CCHCCHHHHHHHHHHT..SSEEEEE-HHHHCHC...HHHHH CS
                     cobW  88 iEttGlaePapv...aft....eeelksdltldavvavvDaknleaeeekieekaedqlaa..adllvlnKtDlldee.allekle 163
                              + t G+   + v   + +     ++l+  ++ d+v++++Da+     +++ +++++  l++  + ++ lnK+Dll+e+  + ++ +
  PHY93_13825|PHY93_13825 425 VDTAGIRRQKSVdgfI-EqqsvYRSLRCITESDVVIFMIDATIG--ISHQDRRLLDIALEKgkSVIVCLNKIDLLKESlPDEKAKK 507
                              5666666666666421.233445667777899*********554..45556666666666511556669*********98888889 PP

                              HHHHHHHTTS- CS
                     cobW 164 erlrqlnpeak 174
                              e++++l+++++
  PHY93_13825|PHY93_13825 508 EWIKDLRDTVP 518
                              99999988766 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.0   0.0    0.0028       1.8      25     127 ..      17     109 ..       5     142 .. 0.64
   2 !    7.3   0.1     0.009       5.5      15      46 ..     211     245 ..     203     392 .. 0.78

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.0028
                   AAA_16  25 elvllsGesGvGKsslvrellralekdggiflrgkcdqlesaipysalaqalareellrqlldeaesael.eawrekleealaavp 109
                               ++ l+G + vGKs++ ++l+r + k+    ++ +    +++++y     ++++ee+  q + ea   +  + +++k++e    vp
  PHY93_13825|PHY93_13825  17 MVISLIGRPNVGKSTIFNRLMRKAHKA----ITHDKPGVTRDRHY----GIASFEEIAHQKKGEAIFVDTgGFYPTKIDE---NVP 91 
                              57889*****************99999....77777777777777....2222334444444443333220333344444...233 PP

                   AAA_16 110 elagaeasrllellkrll 127
                              + ++++ + +++ +++ +
  PHY93_13825|PHY93_13825  92 KQRDQIMNKFFNIMTDQA 109
                              455555555555555555 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.009
                   AAA_16  15 alervrsgrp...elvllsGesGvGKsslvrellr 46 
                              al++  ++r+   + + l+G++  GKs+l++ ll 
  PHY93_13825|PHY93_13825 211 ALQKGVTPREkvvGRLSLIGAPNAGKSTLLNLLLG 245
                              55555555555678899***************994 PP

>> TniB  Bacterial TniB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.2   0.1   0.00028      0.17      21      63 ..       2      44 ..       1      54 [. 0.79
   2 ?    2.8   0.0      0.11        67      29      53 ..     217     241 ..     198     249 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00028
                     TniB 21 erLeeLleypkrkrmpnlllvGdsnnGKtmivekFarlhppek 63
                             +++++L    +  r   + l+G++n+GK++i+++ +r+ +++ 
  PHY93_13825|PHY93_13825  2 KHINDLTPQNTYRRSMVISLIGRPNVGKSTIFNRLMRKAHKAI 44
                             5677888888888989999***************997765544 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.11
                     TniB  29 ypkrkrmpnlllvGdsnnGKtmive 53 
                              +p++k +  l l+G +n GK+++++
  PHY93_13825|PHY93_13825 217 TPREKVVGRLSLIGAPNAGKSTLLN 241
                              47777778899***********986 PP

>> Ras  Ras family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.0     0.038        23       4      25 ..      21      42 ..      18      68 .. 0.87
   2 ?   -0.4   0.0       1.2   7.5e+02      76     120 ..     118     160 ..     102     212 .. 0.72
   3 ?   -0.2   0.0         1   6.5e+02       2      17 ..     226     241 ..     225     248 .. 0.85
   4 ?    6.2   0.1     0.011       7.1      45     125 ..     417     508 ..     393     548 .. 0.65

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.038
                             EEESTTSSHHHHHHHHHHSSCS CS
                      Ras  4 lvGdsavGKtslllrfvkdkFk 25
                             l+G  +vGK+++ +r +++  k
  PHY93_13825|PHY93_13825 21 LIGRPNVGKSTIFNRLMRKAHK 42
                             89*************9998776 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 1.2
                              EEEEETTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGGGG- CS
                      Ras  76 llvyditsresfenvkkwveeikrvaeenvpivLvGnKvDleekr 120
                              l+++ ++sre     ++++ +  r+ ++  p+ ++ nK D e+++
  PHY93_13825|PHY93_13825 118 LILFVVDSREGVLPYDQMIADYIRKEKK--PFWVLVNKYDTEKQE 160
                              6677777777777777777777766665..777778999999843 PP

  == domain 3  score: -0.2 bits;  conditional E-value: 1
                              EEEEESTTSSHHHHHH CS
                      Ras   2 lvlvGdsavGKtslll 17 
                              l l+G  + GK++ll+
  PHY93_13825|PHY93_13825 226 LSLIGAPNAGKSTLLN 241
                              569***********97 PP

  == domain 4  score: 6.2 bits;  conditional E-value: 0.011
                              TEEEEEEEEEETTSGGGHHH.....HHHHHTTESEE....EEEEETTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGGG... CS
                      Ras  45 gkevkleiwDTAGqeefksl.....relyyrdaegi....llvyditsresfenvkkwveeikrvaeenvpivLvGnKvDlee... 118
                              ++  +l+i DTAG  + ks+     ++++yr+ ++i    ++++ i+ +   ++ ++ + +i   + +  +++++ nK+Dl +   
  PHY93_13825|PHY93_13825 417 SQWRSLHIVDTAGIRRQKSVdgfieQQSVYRSLRCItesdVVIFMIDATIGISHQDRRLLDIALEKGK--SVIVCLNKIDLLKesl 500
                              455689*******7777776333334678998888766667999999999999999888888877776..6778889***997333 PP

                              .G-SS-HH CS
                      Ras 119 .kravste 125
                               +++ ++e
  PHY93_13825|PHY93_13825 501 pDEKAKKE 508
                              33333333 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.1   0.0   0.00066      0.41       2      30 ..      20      48 ..      19      75 .. 0.82
   2 ?    3.2   0.0      0.18   1.1e+02       3      18 ..     228     243 ..     226     259 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00066
             RNA_helicase  2 wlyGpsgeGKStlakeLakallkklklkk 30
                              l G++++GKSt+ ++L+++  k++  +k
  PHY93_13825|PHY93_13825 20 SLIGRPNVGKSTIFNRLMRKAHKAITHDK 48
                             689******************99994443 PP

  == domain 2  score: 3.2 bits;  conditional E-value: 0.18
             RNA_helicase   3 lyGpsgeGKStlakeL 18 
                              l G+++ GKStl + L
  PHY93_13825|PHY93_13825 228 LIGAPNAGKSTLLNLL 243
                              78**********9986 PP

>> MMR_HSR1_Xtn  C-terminal region of MMR_HSR1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.2   0.1    0.0039       2.4      47     103 ..     138     197 ..      97     199 .. 0.74
   2 ?   -0.7   0.0       2.3   1.4e+03      44      95 ..     264     316 ..     256     318 .. 0.80
   3 ?   -2.2   0.6       6.7   4.1e+03      19      53 ..     351     385 ..     340     390 .. 0.67
   4 !    9.1   0.1     0.002       1.2      58     100 ..     486     543 ..     473     548 .. 0.83

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.0039
             MMR_HSR1_Xtn  47 dviegnrvYipclyvlNKiDl..isleeldelare....pnsvviSaekelnldeLkekiwee 103
                              d i +++  +p  +++NK D+   + eel+ +++     ++   +Sae++l+l +Lk+++ +e
  PHY93_13825|PHY93_13825 138 DYIRKEK--KPFWVLVNKYDTekQEGEELE-FYQLgigeEELYKVSAEHGLGLLDLKTDLHKE 197
                              5555544..488899*****9432233443.3332455579999*************998876 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 2.3
             MMR_HSR1_Xtn  44 dlidviegnrvYi.pclyvlNKiDlisleeldelarepnsvviSaekelnlde 95 
                               + d   g++ Y     +++ K D++  ++ +e++ ++  v  S    +nl+e
  PHY93_13825|PHY93_13825 264 GFFDLFFGKNAYAlDEEVIFAKNDTLLFQQYEEFRANNPEVYNSLTYSYNLEE 316
                              56777777777742566888999*99999999999998889999999888875 PP

  == domain 3  score: -2.2 bits;  conditional E-value: 6.7
             MMR_HSR1_Xtn  19 tvkkilkeykihnaevliredvtvDdlidviegnr 53 
                              +  k+l++  + + +  + e++  Ddl + + ++ 
  PHY93_13825|PHY93_13825 351 DLDKVLSDDELEKYDNEVYENIFSDDLEENLDDEV 385
                              55667777777777777778888888877776665 PP

  == domain 4  score: 9.1 bits;  conditional E-value: 0.002
             MMR_HSR1_Xtn  58 clyvlNKiDlisleeldelare...............pnsvviSaekelnldeLkeki 100
                              ++++lNKiDl++++  de a++                + ++iSa+ ++++ +Lke i
  PHY93_13825|PHY93_13825 486 VIVCLNKIDLLKESLPDEKAKKewikdlrdtvpwlyyCDLIPISAKYAKHIGNLKEVI 543
                              799*******88887777777557777888898887669999*************988 PP

>> Ploopntkinase3  P-loop Nucleotide Kinase3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.1   0.0    0.0077       4.8       5      36 ..      18      49 ..      14      94 .. 0.78
   2 ?    5.2   0.0     0.028        17       8      24 ..     228     244 ..     223     262 .. 0.79
   3 ?   -0.5   0.0       1.6     1e+03      99     117 ..     472     490 ..     464     504 .. 0.85

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.0077
           Ploopntkinase3  5 liylvGqPGaGkstlmaeltkgfdrskveqee 36
                             +i l+G P  Gkst+   l +  ++  ++++ 
  PHY93_13825|PHY93_13825 18 VISLIGRPNVGKSTIFNRLMRKAHKAITHDKP 49
                             789***************99888777766554 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.028
           Ploopntkinase3   8 lvGqPGaGkstlmaelt 24 
                              l+G+P aGkstl+  l 
  PHY93_13825|PHY93_13825 228 LIGAPNAGKSTLLNLLL 244
                              9***********97664 PP

  == domain 3  score: -0.5 bits;  conditional E-value: 1.6
           Ploopntkinase3  99 nkrfldaaleaGyevtlal 117
                              ++r+ld ale G  v+++l
  PHY93_13825|PHY93_13825 472 DRRLLDIALEKGKSVIVCL 490
                              79*************9987 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.6   0.0    0.0043       2.7       1      22 [.      19      40 ..      19     126 .. 0.84
   2 ?    4.3   1.8     0.087        54       3      19 ..     228     246 ..     227     426 .. 0.87

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.0043
                   AAA_18  1 IlltGtpGvGKttlakeLskrl 22
                             I l G p vGK+t+ ++L ++ 
  PHY93_13825|PHY93_13825 19 ISLIGRPNVGKSTIFNRLMRKA 40
                             6689**************8885 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.087
                   AAA_18   3 ltGtpGvGKttlakeL..s 19 
                              l G+p +GK+tl + L  s
  PHY93_13825|PHY93_13825 228 LIGAPNAGKSTLLNLLlgS 246
                              68***********999552 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.5   0.0     0.024        15      24      39 ..      18      33 ..       8      38 .. 0.82
   2 !    8.0   0.1    0.0037       2.3      24      47 ..     225     244 ..     213     250 .. 0.78

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.024
                   AAA_29 24 atlltGpsGsGKSTll 39
                             ++ l+G+  +GKST++
  PHY93_13825|PHY93_13825 18 VISLIGRPNVGKSTIF 33
                             6789**********97 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.0037
                   AAA_29  24 atlltGpsGsGKSTllDAiqalLv 47 
                                 l+G+  +GKSTll     lL+
  PHY93_13825|PHY93_13825 225 RLSLIGAPNAGKSTLL----NLLL 244
                              5679***********9....5555 PP

>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.4   0.0    0.0031       1.9      28      52 ..      15      39 ..       4      45 .. 0.86
   2 ?    5.7   0.0      0.01       6.4      16      50 ..     210     244 ..     194     264 .. 0.72

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.0031
                             -SEEEEEEE-TTSSHHHHHHHHHHH CS
                     MeaB 28 raqvvGltGvPGaGkstlvealgle 52
                             r+ v+ l G P +Gkst+ ++l+ +
  PHY93_13825|PHY93_13825 15 RSMVISLIGRPNVGKSTIFNRLMRK 39
                             899*****************99765 PP

  == domain 2  score: 5.7 bits;  conditional E-value: 0.01
                              HHHHHHHGGG-S-SEEEEEEE-TTSSHHHHHHHHH CS
                     MeaB  16 kellerllakaGraqvvGltGvPGaGkstlvealg 50 
                               +l + ++++     ++ l G P aGkstl++ l 
  PHY93_13825|PHY93_13825 210 SALQKGVTPREKVVGRLSLIGAPNAGKSTLLNLLL 244
                              4455556666666678889***********98775 PP

>> AIG1  AIG1 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   0.0     0.082        51       3      37 ..      19      53 ..      17     126 .. 0.82
   2 ?    0.6   0.1      0.47   2.9e+02       3      24 ..     226     247 ..     224     260 .. 0.84
   3 !    8.1   0.1    0.0024       1.5      25     104 ..     396     476 ..     391     487 .. 0.82
   4 ?   -3.1   0.0       6.3   3.9e+03     147     200 ..     540     589 ..     535     593 .. 0.76

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.082
                             EEEESSTTSSHHHHHHHHHTS--SS--TTTS---S CS
                     AIG1  3 ivlvGktgnGkSaTgNsilgkkaFesklsaqsvtk 37
                             i l+G+  +GkS+  N +++k        + +vt+
  PHY93_13825|PHY93_13825 19 ISLIGRPNVGKSTIFNRLMRKAHKAITHDKPGVTR 53
                             669**************999876555555666665 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.47
                              EEEESSTTSSHHHHHHHHHTS- CS
                     AIG1   3 ivlvGktgnGkSaTgNsilgkk 24 
                              + l+G   +GkS+  N +lg++
  PHY93_13825|PHY93_13825 226 LSLIGAPNAGKSTLLNLLLGSQ 247
                              6699***************986 PP

  == domain 3  score: 8.1 bits;  conditional E-value: 0.0024
                              -SS--TTTS---SS-EEEEEEETTEEEEEEE--SCCCTTCCHHCHHHH.HHHHHHHCTT-ESEEEEEEETT.B-SHHHHHHH CS
                     AIG1  25 aFesklsaqsvtkkcqkksrtwdgkkinViDTPglfdlsvsadkiske.ivrclllseegihalllvlslg.rfteedekal 104
                               F  +l +++vt+  + ++   + ++++++DT g+   ++ + +i+++ + r+l +  +  +++++ ++++  ++++d+ +l
  PHY93_13825|PHY93_13825 396 DFLAELDNETVTEIKSDENDGSQWRSLHIVDTAGIRRQKSVDGFIEQQsVYRSLRCI-TESDVVIFMIDATiGISHQDRRLL 476
                              6888999999999988888899999**********9999888888765155555555.559999999999989999998776 PP

  == domain 4  score: -3.1 bits;  conditional E-value: 6.3
                              HHHHHHTTTSEEEEETTHHHHHHHHHHHHHHHHHHHHHHHHTTTT--B-HHHHH CS
                     AIG1 147 kevlkecgnRvvlfnnktaskeekeeQvkellelveaivkenggkpytnelyek 200
                              kev+k    ++vl+ n++  +   ++ v +l+e+     k++ggk+++ +  ++
  PHY93_13825|PHY93_13825 540 KEVIK----KTVLIRNRSIGTGVLNRYVYQLIESHPVAIKKAGGKRFKVKYASM 589
                              44444....788999998888888888999999999999999999998776655 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9   0.0    0.0052       3.2       1      39 [.      18      58 ..      18     120 .. 0.68
   2 ?    3.8   0.0     0.099        61       4      22 ..     228     246 ..     226     256 .. 0.84
   3 ?   -2.5   0.0       8.2     5e+03      73     101 ..     460     487 ..     438     498 .. 0.69

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.0052
                   AAA_33  1 lvllvGlpGsGKstlaerllkklg.avllssdtlrr.rlfg 39
                             ++ l+G p +GKst   rl++k + a++ +++ + r r++g
  PHY93_13825|PHY93_13825 18 VISLIGRPNVGKSTIFNRLMRKAHkAITHDKPGVTRdRHYG 58
                             67899***************998877777777655545555 PP

  == domain 2  score: 3.8 bits;  conditional E-value: 0.099
                   AAA_33   4 lvGlpGsGKstlaerllkk 22 
                              l+G+p +GKstl+  ll  
  PHY93_13825|PHY93_13825 228 LIGAPNAGKSTLLNLLLGS 246
                              79**********9988755 PP

  == domain 3  score: -2.5 bits;  conditional E-value: 8.2
                   AAA_33  73 vildatnlsrrerarflklarrlgvpvri 101
                              +++dat    ++ +r+l +a + g +  i
  PHY93_13825|PHY93_13825 460 FMIDATIGISHQDRRLLDIALEKG-KSVI 487
                              456888777777777777777777.3333 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.7   0.0      0.21   1.3e+02       2      24 ..      19      41 ..      18      55 .. 0.81
   2 ?    7.5   0.0    0.0072       4.5       4      20 ..     228     244 ..     225     296 .. 0.88

  Alignments for each domain:
  == domain 1  score: 2.7 bits;  conditional E-value: 0.21
                   AAA_28  2 ivitGgestGKTtlleaLaargy 24
                             i ++G +  GK+t+ ++L ++ +
  PHY93_13825|PHY93_13825 19 ISLIGRPNVGKSTIFNRLMRKAH 41
                             67999*************96644 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0072
                   AAA_28   4 itGgestGKTtlleaLa 20 
                              ++G++ +GK+tll+ L 
  PHY93_13825|PHY93_13825 228 LIGAPNAGKSTLLNLLL 244
                              89***********9986 PP

>> SRPRB  Signal recognition particle receptor beta subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.5   0.0    0.0081         5       5      29 ..      18      42 ..      13      77 .. 0.83
   2 ?   -2.5   0.0       4.9     3e+03      76      85 ..     116     125 ..      94     126 .. 0.64
   3 ?    2.1   0.0      0.19   1.2e+02       7      26 ..     227     246 ..     221     259 .. 0.84
   4 ?   -1.2   0.0       1.9   1.2e+03      78      87 ..     457     466 ..     390     479 .. 0.65

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.0081
                             EEEEE-STTSSHHHHHHHHHHSS-- CS
                    SRPRB  5 avllvGlsdsGKTslftrLttdsvk 29
                              + l+G  + GK ++f+rL+ ++ k
  PHY93_13825|PHY93_13825 18 VISLIGRPNVGKSTIFNRLMRKAHK 42
                             45589**************998654 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 4.9
                              EEEEEEEEET CS
                    SRPRB  76 lkglvfvvDS 85 
                                 ++fvvDS
  PHY93_13825|PHY93_13825 116 SDLILFVVDS 125
                              33599****9 PP

  == domain 3  score: 2.1 bits;  conditional E-value: 0.19
                              EEE-STTSSHHHHHHHHHHS CS
                    SRPRB   7 llvGlsdsGKTslftrLttd 26 
                               l+G  ++GK +l+++L+  
  PHY93_13825|PHY93_13825 227 SLIGAPNAGKSTLLNLLLGS 246
                              589************99754 PP

  == domain 4  score: -1.2 bits;  conditional E-value: 1.9
                              EEEEEEETTS CS
                    SRPRB  78 glvfvvDSti 87 
                               ++f++D+ti
  PHY93_13825|PHY93_13825 457 VVIFMIDATI 466
                              4699999998 PP

>> ATP_bind_1  Conserved hypothetical ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0       1.7     1e+03       2      19 ..      22      39 ..      21      45 .. 0.83
   2 ?   -1.9   0.0       3.8   2.3e+03     155     181 ..     143     168 ..     118     207 .. 0.79
   3 ?   -1.5   0.0       2.8   1.7e+03       2      15 ..     229     242 ..     228     248 .. 0.86
   4 ?    8.4   0.0    0.0027       1.6     150     209 ..     477     544 ..     397     565 .. 0.78

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 1.7
               ATP_bind_1  2 vGpaGsGKttfvgalsei 19
                             +G + +GK+t+ ++l+  
  PHY93_13825|PHY93_13825 22 IGRPNVGKSTIFNRLMRK 39
                             79999******9999865 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 3.8
               ATP_bind_1 155 lelPhvvvlnkfDllkeklekeleffe 181
                               + P+ v +nk D  k ++ +elef++
  PHY93_13825|PHY93_13825 143 EKKPFWVLVNKYDTEK-QEGEELEFYQ 168
                              5679999999999955.4555566554 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 2.8
               ATP_bind_1   2 vGpaGsGKttfvga 15 
                              +G + +GK+t+ + 
  PHY93_13825|PHY93_13825 229 IGAPNAGKSTLLNL 242
                              8999******9876 PP

  == domain 4  score: 8.4 bits;  conditional E-value: 0.0027
               ATP_bind_1 150 samlrlelPhvvvlnkfDllkek...lekeleffedvealslllekee.....ekykklaeaiaelle 209
                               + l+ +   +v+lnk+Dllke+   ++ + e+++d+ +    l   +      ky+k+  +++e+++
  PHY93_13825|PHY93_13825 477 DIALEKGKSVIVCLNKIDLLKESlpdEKAKKEWIKDLRDTVPWLYYCDlipisAKYAKHIGNLKEVIK 544
                              5667777789***********99998888999999998776555555555566566666666666555 PP

>> NOG1  Nucleolar GTP-binding protein 1 (NOG1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.0     0.016        10       8      58 .]     111     155 ..     107     155 .. 0.78
   2 ?    5.1   1.1     0.032        20      14      58 .]     455     494 ..     440     494 .. 0.74

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.016
                     NOG1   8 aALkhladavlFllDpseecgysleeQlsLleeikelfankpvivvlnKiD 58 
                              +A+++  d++lF++D  e  g+   +Q+ + + i+++  +kp+ v +nK D
  PHY93_13825|PHY93_13825 111 TAIRE-SDLILFVVDSRE--GVLPYDQM-IADYIRKE--KKPFWVLVNKYD 155
                              55555.589******876..56677887.89999999..69********98 PP

  == domain 2  score: 5.1 bits;  conditional E-value: 0.032
                     NOG1  14 adavlFllDpseecgysleeQlsLleeikelfankpvivvlnKiD 58 
                               d+v+F++D++      +  Q + l +i  + + k viv+lnKiD
  PHY93_13825|PHY93_13825 455 SDVVIFMIDAT----IGISHQDRRLLDIALEKG-KSVIVCLNKID 494
                              48999999998....456677666667776644.89999999999 PP

>> Viral_helicase1  Viral (Superfamily 1) RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.4   0.0    0.0055       3.4      10      71 ..      28      79 ..      23      88 .. 0.89
   2 ?    0.8   0.0      0.56   3.4e+02       5      38 ..     230     264 ..     228     281 .. 0.81

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.0055
          Viral_helicase1 10 GKStlirkllrtsliltvnrptaelltegkpklpnlsvrtvdsflmalvkstkgkililDEy 71
                             GKSt+  +l+r+         + +++t+ kp +++++++++ sf++ + ++ kg+ +++D  
  PHY93_13825|PHY93_13825 28 GKSTIFNRLMRK---------AHKAITHDKPGVTRDRHYGIASFEEIAHQK-KGEAIFVDTG 79
                             9***99999999.........7899*********************99885.8******965 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.56
          Viral_helicase1   5 GvpGcGKStlirkllrts.liltvnrptaellteg 38 
                              G+p +GKStl+  ll ++   ++ ++ t+++  eg
  PHY93_13825|PHY93_13825 230 GAPNAGKSTLLNLLLGSQrALVSDIPGTTVDPIEG 264
                              77889******999999887777777777777666 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.2         1   6.4e+02       4      19 ..      21      36 ..      18     160 .. 0.55
   2 ?    9.7   6.1    0.0011      0.67       4     156 ..     228     418 ..     226     431 .. 0.92

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 1
                   AAA_21  4 liGpNgsGKSnLLdal 19
                             liG+ ++GKS+++  l
  PHY93_13825|PHY93_13825 21 LIGRPNVGKSTIFNRL 36
                             7888888888887544 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.0011
                   AAA_21   4 liGpNgsGKSnLLdaldllarl....................................drdvegltdelsggggirkipslldlyd 53 
                              liG+ ++GKS+LL +l + +r+                                    ++ + + ++e+ + +++ ++ sl  +y+
  PHY93_13825|PHY93_13825 228 LIGAPNAGKSTLLNLLLGSQRAlvsdipgttvdpiegffdlffgknayaldeevifakNDTLLFQQYEEFRANNPEVYNSLTYSYN 313
                              89******************99**********************************99999999999******************* PP

                   AAA_21  54 peipfefeieeflsqgvryryglrlersqv...eeklssvetllesgllldkrsleeedvfnpeargirggvsvfslkelsvsepn 136
                               e++++ +++ + +++   + +  l+ ++v   +ek ++++++l++ +l +++++  e+ f+++ +++ +++ +f     + +++ 
  PHY93_13825|PHY93_13825 314 LEEEGTRGVP-VYDEEDYVSSETPLYADDVaseQEKEIDLDKVLSDDELEKYDNEVYENIFSDDLEENLDDEVDFLKEDETSEDFL 398
                              **********.******************************************************999999999998888888888 PP

                   AAA_21 137 dlqfgkaltditsrawslll 156
                              ++  +++ t+i+s+ ++  +
  PHY93_13825|PHY93_13825 399 AELDNETVTEIKSDENDGSQ 418
                              88888888888877776555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (650 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       799  (0.0445647); expected 358.6 (0.02)
Passed bias filter:                      509  (0.0283898); expected 358.6 (0.02)
Passed Vit filter:                        72  (0.00401584); expected 17.9 (0.001)
Passed Fwd filter:                        29  (0.00161749); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              29  [number of targets reported over threshold]
# CPU time: 0.81u 0.30s 00:00:01.11 Elapsed: 00:00:00.49
# Mc/sec: 4013.90
//
Query:       PHY93_13830|PHY93_13830  [L=321]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    9.6e-21   74.0   0.1    1.8e-20   73.1   0.1    1.4  1  MMR_HSR1     50S ribosome-binding GTPase
    1.6e-14   53.4   0.3    4.7e-14   52.0   0.3    1.8  1  KH_2         KH domain
    5.4e-10   39.6   0.7    0.00065   19.8   0.2    2.4  2  Dynamin_N    Dynamin family
    6.6e-10   38.7   0.2    1.5e-09   37.6   0.1    1.7  2  FeoB_N       Ferrous iron transport protein B
    1.2e-07   31.3   0.4    2.2e-07   30.4   0.4    1.4  1  AIG1         AIG1 family
    2.1e-05   24.5   0.3     0.0013   18.7   0.1    2.4  2  RsgA_GTPase  RsgA GTPase
    2.7e-05   23.8   0.1     0.0004   20.0   0.1    2.1  1  GTP_EFTU     Elongation factor Tu GTP binding domain
     0.0012   18.5   0.0     0.0018   17.9   0.0    1.2  1  Ras          Ras family
     0.0055   16.4   0.1     0.0098   15.5   0.1    1.3  1  SRP54        SRP54-type protein, GTPase domain
  ------ inclusion threshold ------
      0.012   15.0   0.1       0.02   14.3   0.1    1.3  1  SRPRB        Signal recognition particle receptor beta subuni
      0.047   12.7   0.0      0.092   11.8   0.0    1.5  1  IIGP         Interferon-inducible GTPase (IIGP)
       0.16   11.2   1.3        0.4    9.9   0.1    2.1  3  Septin       Septin


Domain annotation for each model (and alignments):
>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.1   0.1   1.2e-23   1.8e-20       2     114 .]      15     129 ..      14     129 .. 0.79

  Alignments for each domain:
  == domain 1  score: 73.1 bits;  conditional E-value: 1.2e-23
                              EEEEESTTSSHHHHHHHHHTS.TEEESSSTTSSSSEEEEEEEETTEEEEEEECGGCSSHHHHHH.HHHHHHHHHHC.TSEEEEEEE CS
                 MMR_HSR1   2 vaivGrpNvGKStLinaltge.kaivsdkpgtTrdinegrvklkgkeielvDtpGliegaseek.glgkaflalee.adlillvvd 84 
                              va++G pNvGKS+Lin l+g+    v++kp+tTr+  +  ++++++e+++vDtpGl ++++e + +l+++ ++  e adl ll++d
  PHY93_13830|PHY93_13830  15 VAVLGAPNVGKSSLINVLLGTdLTVVTNKPQTTRNKFHCVLTVDRTEVVMVDTPGLHKSNQEFNkRLNEQARQGTEgADLNLLLID 100
                              89******************966789*************9**999**********5443333334777777776667********* PP

                              TTTTCSHHHHHHHHHHHHHTTSEEEEEEES CS
                 MMR_HSR1  85 aseeklkpldeeleelleeakkplilvlnk 114
                              +s+e + ++ +e++e ++++  p+ +v++k
  PHY93_13830|PHY93_13830 101 ISRE-ILEQFSEFKENIDQELGPTWVVFTK 129
                              **55.4344455555555566789999887 PP

>> KH_2  KH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.0   0.3   3.1e-17   4.7e-14       1      77 [.     216     298 ..     216     299 .. 0.93

  Alignments for each domain:
  == domain 1  score: 52.0 bits;  conditional E-value: 3.1e-17
                              HHHHHHHHHT.ECET.EEEEEEEC..CS.CEEEEEEEESCHHHHHTGGGHHHHHHHHHHHHHHHHHHTTCEEEEEE.EETTTG CS
                     KH_2   1 eipeslavei.kkag.vskveIer..ta.nrviiviresqpgivIGkgGsnikkigkelrkdieklegkkVklniv.kVkkpe 77 
                              e+p+ +av+i + ++ ++k++ +   ++  + i+v r sq +ivIG  Gs+ik+ig   rk+ie++ g++V+ln++ kV +++
  PHY93_13830|PHY93_13830 216 EVPYEVAVVIdEYKEvKGKLDPKTfeSHiSASILVNRPSQRAIVIGSSGSMIKEIGIRSRKKIEVMTGGPVHLNLHvKVSPKW 298
                              7999******88777889999888876679*************************************************9998 PP

>> Dynamin_N  Dynamin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.8   0.2   4.3e-07   0.00065       1      34 [.      15      48 ..      15      52 .. 0.90
   2 !   17.9   0.0   1.6e-06    0.0024      95     167 ..      54     129 ..      50     130 .. 0.86

  Alignments for each domain:
  == domain 1  score: 19.8 bits;  conditional E-value: 4.3e-07
                             EEEEEBTTTTHHHHHHHHHTS--S---SSS---S CS
                Dynamin_N  1 iavvGsqSsGKSSvlnaLlgedilprgpnptTrr 34
                             +av+G+ + GKSS++n Llg d+ ++ + p T r
  PHY93_13830|PHY93_13830 15 VAVLGAPNVGKSSLINVLLGTDLTVVTNKPQTTR 48
                             79********************999999887754 PP

  == domain 2  score: 17.9 bits;  conditional E-value: 1.6e-06
                              EEETTS-SEEEEE---B-SSSGTTS....HHHHHHHSTTEEEEEEEETTS-CCC-CHHHHHHHHSTTBTTEEEEEE- CS
                Dynamin_N  95 ilsllvkgltlvDlPGldsvnkrdq....elvkeyikkadiilavtsanhdlsnsealflarevdpkgkrtivvltk 167
                              +l+ ++ ++++vD+PGl+++n++      e +++  + ad+ l++ + + ++   + +++++++d++   t vv tk
  PHY93_13830|PHY93_13830  54 VLTVDRTEVVMVDTPGLHKSNQEFNkrlnEQARQGTEGADLNLLLIDISREIL-EQFSEFKENIDQELGPTWVVFTK 129
                              56778999***********9999887787788888899*************99.67777899999999999999987 PP

>> FeoB_N  Ferrous iron transport protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.6   0.1     1e-12   1.5e-09       2      60 ..      14      73 ..      13     137 .. 0.89
   2 ?   -2.3   0.0       1.9   2.9e+03     115     138 ..     225     248 ..     211     267 .. 0.64

  Alignments for each domain:
  == domain 1  score: 37.6 bits;  conditional E-value: 1e-12
                             EEEEEESTTSSHHHHHHHHHTTSEE.EEESTTSSSEEEEEEEEETTEEEEEEE----SSS CS
                   FeoB_N  2 tvalvGnpnvGkttlfnaltgakqk.vgNwpGvtvekkegklklkgkeveivDlPGiYsl 60
                              va++G pnvGk++l+n l g++ + v N p +t +k ++ l+++++ev +vD PG ++ 
  PHY93_13830|PHY93_13830 14 MVAVLGAPNVGKSSLINVLLGTDLTvVTNKPQTTRNKFHCVLTVDRTEVVMVDTPGLHKS 73
                             699*******************965279****************************9865 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 1.9
                              HHHHHHTTEEE-HHHHHHHHTS-E CS
                   FeoB_N 115 ideaekkgieidlkkLsekLgvpv 138
                              ide ++ + ++d k++++++   +
  PHY93_13830|PHY93_13830 225 IDEYKEVKGKLDPKTFESHISASI 248
                              555555566666666655555444 PP

>> AIG1  AIG1 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.4   0.4   1.5e-10   2.2e-07       4     145 ..      16     150 ..      13     171 .. 0.74

  Alignments for each domain:
  == domain 1  score: 30.4 bits;  conditional E-value: 1.5e-10
                              EEESSTTSSHHHHHHHHHTS--SS--TTTS---SS-EEEEEEETTEEEEEEE--SCCCTTCCHHCHHHHHHHHHHHCTT-ESEEEE CS
                     AIG1   4 vlvGktgnGkSaTgNsilgkkaFesklsaqsvtkkcqkksrtwdgkkinViDTPglfdlsvsadkiskeivrclllseegihalll 89 
                               ++G   +GkS+ +N +lg++      ++ + t++  +++ t+d ++++ +DTPgl  ++++ +k  +e  r      eg +  ll
  PHY93_13830|PHY93_13830  16 AVLGAPNVGKSSLINVLLGTDLTVVT-NKPQTTRNKFHCVLTVDRTEVVMVDTPGLHKSNQEFNKRLNEQAR---QGTEGADLNLL 97 
                              68999***************997766.45556666667777***************9887776666666665...88999999999 PP

                              EEETT.B-SHHHHHHHHHHHHHHCGGGGGGEEEEEEEGGGGTTCC...HHHHHHHHH-HH CS
                     AIG1  90 vlslg.rfteedekalktlkelFGekilkylivvftrkddledds...ledylsksspea 145
                               ++++ ++ e+ ++  +++ +  G      + vvft+ d++e+ +   l++ +++ +  a
  PHY93_13830|PHY93_13830  98 LIDISrEILEQFSEFKENIDQELG-----PTWVVFTKSDKVENSEnlpLKEVVEQAK--A 150
                              999885666555555555554444.....45689*******9998888888888443..3 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   0.1   8.7e-07    0.0013     100     163 ..      13      72 ..       3      76 .. 0.66
   2 ?    3.7   0.0     0.036        53      48      96 ..     122     175 ..     100     181 .. 0.75

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 8.7e-07
                              SEEEEECSTTSSHHHHHHHHCTT-----S--------------SEEEEEETTTEEEESS-SSSS CS
              RsgA_GTPase 100 ktsvlvGqSGvGKStLinallpelelktgevseklgrGkhTTtavellelaegglliDtPGfre 163
                               +++++G   vGKS+Lin+ll++ +l +  v +k ++ ++    v  ++  ++ +++DtPG+++
  PHY93_13830|PHY93_13830  13 IMVAVLGAPNVGKSSLINVLLGT-DLTV--VTNKPQTTRNKFHCVLTVD-RTEVVMVDTPGLHK 72 
                              467899****************8.4444..3333333333222233333.338889*****987 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.036
                              EEEEEEE-GGG--HHH.....HHHHHHHHHHHTTSEEEE--TTTHTTHHHHHHH CS
              RsgA_GTPase  48 epvivlnKiDlleeee.....eleelkeelealgyevllvsaktkegleelkel 96 
                              +  +v++K D +e++e     e+ e++++l  +  +++l+s+k++++++el+ +
  PHY93_13830|PHY93_13830 122 PTWVVFTKSDKVENSEnlplkEVVEQAKALLPCLEKFFLISNKEGTNIHELTGA 175
                              5679**********9988666444555555555567888889989999888765 PP

>> GTP_EFTU  Elongation factor Tu GTP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.0   0.1   2.7e-07    0.0004      60     150 ..      52     152 ..      10     263 .. 0.78

  Alignments for each domain:
  == domain 1  score: 20.0 bits;  conditional E-value: 2.7e-07
                              EEEEETTCSSEEEEEEEESS.SGG...GHHHHHHH....HHT-SEEEEEEETTTBSTHHHHHHHHHHHHTTTEEEEEEESCGST.. CS
                 GTP_EFTU  60 aisleketkkylinliDtPG.Hvd...Fskevirg....lrvlDgavlvvdaveGvepqteevlrlalkegvpiivfiNKmDrl.. 135
                              ++ l    +++++ ++DtPG H++   F+k   +     ++ +D+ +l++d+++ + +q  e  + + +e  p+ v+ +K D++  
  PHY93_13830|PHY93_13830  52 HCVLT--VDRTEVVMVDTPGlHKSnqeFNKRLNEQarqgTEGADLNLLLIDISREILEQFSEFKENIDQELGPTWVVFTKSDKVen 135
                              44444..8889999******63323448887655412227779*****************************************77 PP

                              ..HHHHHHHHHHHHHHH CS
                 GTP_EFTU 136 ..kaelkeiveevkqkl 150
                                +  lke+ve++k  l
  PHY93_13830|PHY93_13830 136 seNLPLKEVVEQAKALL 152
                              66666777777777555 PP

>> Ras  Ras family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.0   1.2e-06    0.0018       2     156 ..      15     176 ..      14     181 .. 0.75

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 1.2e-06
                              EEEEESTTSSHHHHHHHHHHSSCS..SSCTTTSSEEEEEEEEEETTEEEEEEEEEETT.....SGGGHHHHHHHHTTESEE...EE CS
                      Ras   2 lvlvGdsavGKtslllrfvkdkFk..eeyesTigvdfytkeievdgkevkleiwDTAG.....qeefkslrelyyrdaegi...ll 77 
                              + ++G  +vGK+sl++     + +  +++ +T   +++   ++vd    ++ + DT G     qe  k+l+e+  +++eg+   ll
  PHY93_13830|PHY93_13830  15 VAVLGAPNVGKSSLINVLLGTDLTvvTNKPQTT-RNKFHCVLTVDR--TEVVMVDTPGlhksnQEFNKRLNEQARQGTEGAdlnLL 97 
                              579*************99877665114444555.455555555555..555679**997777677678899888777666544499 PP

                              EEETTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTT.GGGG-SS-HHHHHHHHHHHT...SEEEEEBTTTTCTHHHHHHHH CS
                      Ras  78 vyditsresfenvkkwveeikrvaeenvpivLvGnKvD.leekravsteegeelakelg...lkfletSAktnenveeafeel 156
                              + di+ re +e+ +++ e+i +      p  +v +K+D +e+++++  +e+ e ak l     kf+ +S k+ +n++e+  ++
  PHY93_13830|PHY93_13830  98 LIDIS-REILEQFSEFKENIDQELG---PTWVVFTKSDkVENSENLPLKEVVEQAKALLpclEKFFLISNKEGTNIHELTGAI 176
                              99996.678*************999...6788889998567788899999988888876543589***********9976555 PP

>> SRP54  SRP54-type protein, GTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.1   6.5e-06    0.0098      82     152 ..      58     132 ..      37     138 .. 0.79

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 6.5e-06
                              TTSSEEEEEE--SSTTHHHHHHHHHHHHHHH..SSSEEEEEEETTBHTHHHHHHHHHHHHS....SCSEEEEESTTS CS
                    SRP54  82 ekidvvlvDTaGrlqndkelmeelkkikkvv..kpdevllvldattgqeavkqakaFkeav....gitgviltklDg 152
                              ++++vv+vDT G +++++e  + l++ ++     +d +ll +d  + +e ++q ++Fke++    g t v++tk D+
  PHY93_13830|PHY93_13830  58 DRTEVVMVDTPGLHKSNQEFNKRLNEQARQGteGADLNLLLID--ISREILEQFSEFKENIdqelGPTWVVFTKSDK 132
                              4689*********************999988444566666666..77899999999998872211456799999886 PP

>> SRPRB  Signal recognition particle receptor beta subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.1   1.4e-05      0.02       5      73 ..      14      84 ..      10      89 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.4e-05
                             EEEEE-STTSSHHHHHHHHH.HSS---B---S..S-EEETTG...GGTT-SEEEETT-GCCSHHHHHHHHHH CS
                    SRPRB  5 avllvGlsdsGKTslftrLt.tdsvkktvtSq..essaalkvksekgskltliDfPGheklrqklleklkak 73
                             +v ++G  + GK sl++ L+ td +  t   q   +++   v + + +++ ++D PG +k  q++ ++l ++
  PHY93_13830|PHY93_13830 14 MVAVLGAPNVGKSSLINVLLgTDLTVVTNKPQttRNKFHC-VLTVDRTEVVMVDTPGLHKSNQEFNKRLNEQ 84
                             56789***********976626666666666642333333.357899************9999999886554 PP

>> IIGP  Interferon-inducible GTPase (IIGP)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   6.1e-05     0.092      33     109 ..      10      83 ..       5     140 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 6.1e-05
                              T--EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SSCHSHHTS-.EEEE-SS-TTEEEEEE--GGGSSSSHHHHHHH CS
                     IIGP  33 saklkiavtGdsGnGkssFinaLRliGheeedsAptGvvettkkr.tpYssskfPnvvlWDLPGlGatafsvesYlee 109
                              ++ + +av G    Gkss in L  +G +   +  t   +tt+++ ++       +vv+ D PGl  ++++ ++ l+e
  PHY93_13830|PHY93_13830  10 NKAIMVAVLGAPNVGKSSLINVL--LGTD--LTVVTNKPQTTRNKfHCVLTVDRTEVVMVDTPGLHKSNQEFNKRLNE 83 
                              67899****************98..5655..45666677888766478889999****************99999877 PP

>> Septin  Septin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.1   0.00027       0.4       6      53 ..      14      62 ..      10      75 .. 0.72
   2 ?   -3.0   0.0       2.3   3.4e+03     162     197 ..     112     147 ..     106     154 .. 0.46
   3 ?   -1.5   0.0      0.78   1.2e+03      74     104 ..     191     220 ..     189     228 .. 0.68

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00027
                             EEEEEEBTTSSCCCCCCTTSSSS------------.------S-EEEEE CS
                   Septin  6 tlmvvGesglGkttlintlfetdlieeekleease.kkkktveikkkkv 53
                              + v G+  +Gk++lin l+ tdl+  ++ ++++  k +  +++++++v
  PHY93_13830|PHY93_13830 14 MVAVLGAPNVGKSSLINVLLGTDLTVVTNKPQTTRnKFHCVLTVDRTEV 62
                             56689*******************9987666555524444445555544 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 2.3
                              HHHHHHHHHHHTT--------SSSS-SCCHHHHHHH CS
                   Septin 162 fKkkireeleeeeikiyklpdeeededeeakelsek 197
                              fK++i +el  + +   k  + e++e+   ke  e+
  PHY93_13830|PHY93_13830 112 FKENIDQELGPTWVVFTKSDKVENSENLPLKEVVEQ 147
                              555555555554444333333333333334444444 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 0.78
                              SSSSHHCCCHHHHHHHHHHHHHHHHHCTSS- CS
                   Septin  74 davdnskswepiveyideqfeeylreesklk 104
                              d  + ++    + eyi+eq  e+l++e   +
  PHY93_13830|PHY93_13830 191 DVSNKNQ-RFFVTEYIREQAFELLKDEVPYE 220
                              4444444.44688999999999999987655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (321 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       641  (0.0357521); expected 358.6 (0.02)
Passed bias filter:                      552  (0.0307881); expected 358.6 (0.02)
Passed Vit filter:                        61  (0.00340231); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.57u 0.27s 00:00:00.84 Elapsed: 00:00:00.45
# Mc/sec: 2151.09
//
Query:       PHY93_13835|PHY93_13835  [L=283]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.8e-24   86.3   0.8    3.2e-24   85.5   0.8    1.4  1  Ribonucleas_3_3  Ribonuclease-III-like
    5.3e-20   72.0   0.1    1.1e-19   71.0   0.1    1.6  1  Ribonuclease_3   Ribonuclease III domain
    0.00049   20.5   0.2    0.00098   19.5   0.2    1.5  1  Ribonucleas_3_2  Ribonuclease III
     0.0093   16.7   0.0       0.02   15.6   0.0    1.6  1  dsrm             Double-stranded RNA binding motif


Domain annotation for each model (and alignments):
>> Ribonucleas_3_3  Ribonuclease-III-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.5   0.8   7.2e-28   3.2e-24       5     113 ..      69     185 ..      65     199 .. 0.88

  Alignments for each domain:
  == domain 1  score: 85.5 bits;  conditional E-value: 7.2e-28
          Ribonucleas_3_3   5 leqaltHkSfangrk.......ghNerLefLGdavLklsvseyllekaek.degeltklraslvseeslaeiAkelgLgkvlrlrk 82 
                              l +alt + f ++ k       ++NerLefLGd++++++v+++l++ + k +egel+klr ++v+e+sla++A  ++Lg+ l+l+k
  PHY93_13835|PHY93_13835  69 LINALTQSTFCYEFKhlnnssiRSNERLEFLGDSLVNFLVAKILFNLYPKsNEGELSKLRGAVVNEHSLAKLAMAISLGENLLLGK 154
                              678999999955444333344479*********************9977759********************************** PP

          Ribonucleas_3_3  83 geeetegsgrekvladaleAliGAiyldkga 113
                              ge +  g+ +e++lada+eAli+Aiy+d+g 
  PHY93_13835|PHY93_13835 155 GEHHNLGKLKESLLADAFEALIAAIYIDSGE 185
                              ****************************996 PP

>> Ribonuclease_3  Ribonuclease III domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   71.0   0.1   2.4e-23   1.1e-19       1     105 []      94     184 ..      94     184 .. 0.94

  Alignments for each domain:
  == domain 1  score: 71.0 bits;  conditional E-value: 2.4e-23
                              HHHHHHHHHHHHHHHHHHHHHHCTTSSHHHHHHHHHHHTSHHHHHHHHHCTTCHCCHCHH..............HHCCSTT..CHC CS
           Ribonuclease_3   1 erLeflGDavlklaittylfetypdahegrlsklrsklvsnenlarlakklglpkflrasefdpprnwlppgyklsddeke..ddd 84 
                              erLeflGD+ +++++ + lf+ yp+ +eg+lsklr ++v++++la+la  ++l + l                 l+++e++   + 
  PHY93_13835|PHY93_13835  94 ERLEFLGDSLVNFLVAKILFNLYPKSNEGELSKLRGAVVNEHSLAKLAMAISLGENLL----------------LGKGEHHnlGKL 163
                              8*********************************************************................888888833555 PP

                              TSHHHHHHHHHHHHHHHHHCT CS
           Ribonuclease_3  85 adkvladvvEAliGaiyldsg 105
                              +++ lad++EAli+aiy+dsg
  PHY93_13835|PHY93_13835 164 KESLLADAFEALIAAIYIDSG 184
                              9999***************97 PP

>> Ribonucleas_3_2  Ribonuclease III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.5   0.2   2.2e-07   0.00098       5      97 ..      98     200 ..      94     217 .. 0.73

  Alignments for each domain:
  == domain 1  score: 19.5 bits;  conditional E-value: 2.2e-07
                              HHHHHHHHHHHHHHHHHH........HTS-------HHHHHH.HHHHTTGGGCS-.CGGCCGHHHHHHHHHHHHH..HTTS..S-H CS
          Ribonucleas_3_2   5 klGdslinllvslaltel........lGkPtGervPnaslai.alelaglskllkprvdkhakGdiaeallayaW..lkgk..isi 77 
                               lGdsl+n+lv+  l +l        l k  G  v + sla+ a+ ++   +ll  + ++h  G++ e+lla a+  l     i  
  PHY93_13835|PHY93_13835  98 FLGDSLVNFLVAKILFNLypksnegeLSKLRGAVVNEHSLAKlAMAISLGENLLLGKGEHHNLGKLKESLLADAFeaLIAAiyIDS 183
                              69**********99987733333334667789999999**9636777777778888999*************99844444411556 PP

                              HHHHHHHHCT--GGGG-TTT CS
          Ribonucleas_3_2  78 eeaveilkknlddevldfsr 97 
                               e++e+l+k l   ++ + +
  PHY93_13835|PHY93_13835 184 GESLEVLEKTL---LVIIKK 200
                              79******999...333333 PP

>> dsrm  Double-stranded RNA binding motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   4.4e-06      0.02       2      54 ..     221     268 ..     220     279 .. 0.73

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 4.4e-06
                              HHHHHHHHHHTTSEEEEEEEEEESSTSSSEEEEEEEEETTEEEEEEEESSHHH CS
                     dsrm   2 KskLqeycqkkgkppnyeyvseegpphslpkFvvtvkvngklygsGvgsnKKe 54 
                              K++Lqe+      ++  +y s+e +    + F+v++++++++ ++G+g++KK+
  PHY93_13835|PHY93_13835 221 KTQLQELSVSLF-QILPTYKSTEDK----NGFSVSLWIGDRKLAEGFGASKKK 268
                              667777666664.333333433433....48********************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (283 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       498  (0.0277762); expected 358.6 (0.02)
Passed bias filter:                      293  (0.0163422); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.55u 0.22s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1856.14
//
Query:       PHY93_13840|PHY93_13840  [L=338]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.4e-08   33.0   1.5    1.3e-07   31.8   1.5    1.7  1  Phage_int_SAM_1  Phage integrase, N-terminal SAM-like domain
    2.6e-06   27.8   1.5    6.5e-06   26.5   1.5    1.6  1  Phage_int_SAM_4  Phage integrase, N-terminal SAM-like domain
    5.6e-06   26.6   2.7    6.7e-06   26.4   0.8    2.0  2  Phage_int_SAM_5  Phage integrase SAM-like domain
    6.7e-05   22.7   0.0     0.0001   22.2   0.0    1.3  1  Phage_integrase  Phage integrase family


Domain annotation for each model (and alignments):
>> Phage_int_SAM_1  Phage integrase, N-terminal SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.8   1.5   2.8e-11   1.3e-07       2      84 .]      30     112 ..      28     112 .. 0.91

  Alignments for each domain:
  == domain 1  score: 31.8 bits;  conditional E-value: 2.8e-11
                              HHHHHHHHHTT-S-HHHHHHHHHHHHHHHHHHHH..TS--TTT--HHHHHHHHHS----------HHHHHHHHHHHHHHHHHTT CS
          Phage_int_SAM_1   2 eqfleyLikerglspnTlraYrrdLrrflkflae.rgkesleqlttedvraflaeleeeglsatslarrlsalrsFfqflvreg 84 
                              ++f++ L+ +   s+nTl +Y+ dL+ f  +l++      + + +++ v+++ ++le++  s +s++rr  alr Ff+fl+ +g
  PHY93_13840|PHY93_13840  30 QEFYSNLRAQGK-SQNTLKNYKTDLDCFNYYLNSeYASTLVSNFDQALVSNYGQYLEKKYSSDNSRRRRVQALRIFFDFLLNKG 112
                              57999***8877.*********************667777899999999999999999999*******************8765 PP

>> Phage_int_SAM_4  Phage integrase, N-terminal SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.5   1.5   1.4e-09   6.5e-06       3      82 ..      30     112 ..      28     114 .. 0.92

  Alignments for each domain:
  == domain 1  score: 26.5 bits;  conditional E-value: 1.4e-09
          Phage_int_SAM_4   3 erfrealrlaglserTiksYlsaikrflrflkkk....apeeltkedieaYlnyLanerklsastqknalnalsffykkvlere 82 
                              ++f  +lr++g+s++T k+Y++ +  f  +l+       ++ ++++ +  Y +yL  ++  s ++ ++  +al++f+  +l++ 
  PHY93_13840|PHY93_13840  30 QEFYSNLRAQGKSQNTLKNYKTDLDCFNYYLNSEyastLVSNFDQALVSNYGQYLE-KKYSSDNSRRRRVQALRIFFDFLLNKG 112
                              89*****************************955777789****************.8888*****************999876 PP

>> Phage_int_SAM_5  Phage integrase SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.4   0.8   1.5e-09   6.7e-06       3      94 ..      26     119 ..      24     124 .. 0.87
   2 ?   -1.6   0.0      0.77   3.5e+03      24      45 ..     222     243 ..     211     244 .. 0.70

  Alignments for each domain:
  == domain 1  score: 26.4 bits;  conditional E-value: 1.5e-09
                              HHHHHHHTHHHHTTS.-HHHHHHHHHHHHHTTTS-....S---TTT--HHHHHHHHHHHHHTS---HHHHHHHHHHHHHHHHHHHH CS
          Phage_int_SAM_5   3 ldyfkeyiekkkkkg.skgtlrnykstlkhlkkFlkk..kditfeeidkefleeFedYLkkkkglsentiskyfkklkavlnkAik 85 
                              +++ +e+ ++ + +g s++tl+nyk+ l  ++ +l++   +  ++++d+ ++ ++ +YL +kk  s+n+ ++ ++ l+ ++    +
  PHY93_13840|PHY93_13840  26 FALEQEFYSNLRAQGkSQNTLKNYKTDLDCFNYYLNSeyASTLVSNFDQALVSNYGQYL-EKKYSSDNSRRRRVQALRIFFDFLLN 110
                              5566777777777777899****************442366******************.9**********************999 PP

                              TTS--S-HH CS
          Phage_int_SAM_5  86 egilkknpy 94 
                              +g+++ np+
  PHY93_13840|PHY93_13840 111 KGLVTGNPV 119
                              999999994 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 0.77
                              HHHHHHHHTTTS-..S---TTT CS
          Phage_int_SAM_5  24 nykstlkhlkkFlkkkditfee 45 
                              +y  +l  l++ ++k++itf++
  PHY93_13840|PHY93_13840 222 VYADYLVILEEMKNKSQITFDN 243
                              4556666677777777777775 PP

>> Phage_integrase  Phage integrase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.2   0.0   2.2e-08    0.0001      19     166 ..     161     316 ..     145     322 .. 0.85

  Alignments for each domain:
  == domain 1  score: 22.2 bits;  conditional E-value: 2.2e-08
                              HHHHHHHHHHHHHHHT--HHHHTT-BGGG..EECTTTEEEEEEEECSSSSEEEEECTHHHHHHHHHHHHHHCHCCTTTSBSSBET. CS
          Phage_integrase  19 lkirdklllellyetGlRisEllsLrvkd..ldlengvilvheregKgskeravplseealellkellskaleeaeksellfask. 101
                              l+ r+++l+ l+++ Gl +s+l +L+++d  ++++  v +v   +  ++ + +v l++   +++ ++l    e ++ks++ f +  
  PHY93_13840|PHY93_13840 161 LSKRNQILFLLIFGAGLKVSDLSELSINDitISTNGDVPRV-LIQHPKRDAYTVELPKIFEKVYADYLVILEEMKNKSQITFDNLl 245
                              556999***********************877899999999.6666778889*****99999999999888888899998888888 PP

                              ........TSSB--HHHHHHHHHHHHHHCT-SSC--TTHHHHHHHHHHHHHCTSHHHHHHHHT-SSCCHHHHH CS
          Phage_integrase 102 ........rgkplsrqtvrkafkraveeagiekpltpHtlRhsfataLleagvdlrvvqkllGHssisttqiY 166
                                          ls++ ++ +f+ ++++  i+  ltp +lR ++  + ++++ ++  +++ lG +     + Y
  PHY93_13840|PHY93_13840 246 fyanpyriISGGLSARGIEIIFEDYRNKLIIT--LTPKSLRQACIFKWIQQQKNVTLIKEWLGLAPSYDLKLY 316
                              8877998877899***************9999..**************************9997666666666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (338 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       789  (0.0440069); expected 358.6 (0.02)
Passed bias filter:                      579  (0.032294); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.57u 0.26s 00:00:00.83 Elapsed: 00:00:00.46
# Mc/sec: 2210.28
//
Query:       PHY93_13845|PHY93_13845  [L=261]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.056   13.5   0.1       0.09   12.9   0.1    1.3  1  Inh       Protease inhibitor Inh


Domain annotation for each model (and alignments):
>> Inh  Protease inhibitor Inh
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.1     5e-06      0.09      44      98 .]     152     206 ..     131     206 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 5e-06
                              GCCTSSS--SEEEEETTEEEEE-TTS-EEEEEEEEETTEEEEEE.CCCEEEEEEE CS
                      Inh  44 akklllaaiaaWdvtgkeivLtdadGsslarlarqedgrfegvltedgeplslsr 98 
                              + +l   + + W++++ +i +  + ++++a++++q+ +++++ l+++++++ l+r
  PHY93_13845|PHY93_13845 152 MGQLNGINQDVWNFEERKIQVAAEFDQKIAEIEKQKMKALDQILSQKNDQIKLQR 206
                              55666667789******************************************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (261 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1455  (0.0811534); expected 358.6 (0.02)
Passed bias filter:                      665  (0.0370907); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.59u 0.26s 00:00:00.85 Elapsed: 00:00:00.47
# Mc/sec: 1663.58
//
Query:       PHY93_13850|PHY93_13850  [L=213]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.2e-57  194.1   0.0    4.1e-56  190.4   0.0    1.9  1  TAL_FSA   Transaldolase/Fructose-6-phosphate aldolase
  ------ inclusion threshold ------
       0.15   11.2   0.0       0.34   10.0   0.0    1.6  2  ALAD      Delta-aminolevulinic acid dehydratase


Domain annotation for each model (and alignments):
>> TAL_FSA  Transaldolase/Fructose-6-phosphate aldolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  190.4   0.0   4.6e-60   4.1e-56       1     242 [.       3     202 ..       3     213 .] 0.94

  Alignments for each domain:
  == domain 1  score: 190.4 bits;  conditional E-value: 4.6e-60
                              EEEE---HHHHHHHHHTT---EEE--HHHHHH..TTS.-HHHHHHHHHHH........................H-S-EEEE-S-. CS
                  TAL_FSA   1 lvlDtadrelikklleekgiqgvTtNPsliekaikykalydeaieeikkegkkvkeaydkLavedilealdllgadgrvslEVdar 86 
                              ++lDt+ +++ik++++ ++i+gvTtNPsli+k   ++   +++i+ei+++                      +  dg++s+EV a 
  PHY93_13850|PHY93_13850   3 FFLDTGIISEIKEAAQLGIIDGVTTNPSLIAKTGRKQ---EDVIREICEI----------------------I--DGPISAEVIA- 60 
                              69******************************55555...8888888877......................7..**********. PP

                              ..-SHHHHHHHHHHHHTT-T..TEEEEEESSHHHHHHHHHHHHTT--EEEEEE-SHHHHHHHHHHT-SEEEEBHHHHHTTT..... CS
                  TAL_FSA  87 lsddteatieeArrlialyerenvlIKiPateeGikAikeLkkeGinvnvTliFsleqalaaaeagasviSpFvgRiddllkklee 172
                                 d e++i+e+++l ++++  nv+IK+P te+Gi+A+k+ + + i++nvTl+Fs++qal+aa+aga++iSpF+gR+dd++     
  PHY93_13850|PHY93_13850  61 --IDLEGMIREGEELSKIHK--NVVIKLPLTEAGIAACKHFSDRKIKTNVTLCFSVNQALLAAKAGATYISPFIGRLDDIG----- 137
                              ..******************..***********************************************************..... PP

                              .......S-HHHHHHHHHHHHHHHT-S-EEEEBS--SHHHHH..HHHT-SEEEE-HHHHHHHT--HHH.... CS
                  TAL_FSA 173 kdklkgkddgvalvkeiynyykklgysTkvmaasfrnveeve..elagcdtvTippkllealakhgktsekl 242
                                     + g  l  ei  +y+ +g++Tk++aas+r++ +v   +l+g+d+ T+p+++++al kh++t++ l
  PHY93_13850|PHY93_13850 138 -------QSGNDLLGEIRSLYDIYGFQTKILAASIRHPAHVReaALLGADVGTMPLSVVKALYKHPLTDKGL 202
                              .......6999*******************************999*****99***************95444 PP

>> ALAD  Delta-aminolevulinic acid dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0      0.12   1.1e+03     241     266 ..      31      56 ..      10      92 .. 0.77
   2 ?   10.0   0.0   3.8e-05      0.34     126     160 ..      94     128 ..      76     164 .. 0.89

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.12
                              EEEES-TTGHHHHHHHHTT-SS-EEE CS
                     ALAD 241 vmvKPalaylDiirevkeefdlpvaa 266
                              ++ K +    D+ire+ e +d p+ a
  PHY93_13850|PHY93_13850  31 LIAKTGRKQEDVIREICEIIDGPISA 56 
                              45566666778888888888888776 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 3.8e-05
                              SSEEESS.EEHHHHHHHHHHHHHHHHHCT-SEEEE CS
                     ALAD 126 cgileekevdndetlellakvavsqaeaGadivap 160
                              c  +++++++ + tl   +++a+  a+aGa  ++p
  PHY93_13850|PHY93_13850  94 CKHFSDRKIKTNVTLCFSVNQALLAAKAGATYISP 128
                              66667888*************************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (213 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       259  (0.0144459); expected 358.6 (0.02)
Passed bias filter:                      241  (0.0134419); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1377.85
//
Query:       PHY93_13855|PHY93_13855  [L=279]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.3e-10   39.4   0.1    6.8e-10   39.0   0.1    1.2  1  Peptidase_M10  Matrixin
    0.00072   18.3   0.0      0.001   17.8   0.0    1.2  1  Metallopep     Putative peptidase family
    0.00087   18.3   0.2     0.0012   17.9   0.2    1.2  1  Peptidase_M66  Peptidase M66
     0.0071   15.7   0.1      0.011   15.1   0.1    1.2  1  DUF3810        Protein of unknown function (DUF3810)
  ------ inclusion threshold ------
      0.016   15.2   0.0      0.024   14.6   0.0    1.3  1  Peptidase_M54  Peptidase family M54
      0.022   14.7   0.1      0.035   14.0   0.1    1.4  1  Peptidase_M43  Pregnancy-associated plasma protein-A
      0.034   13.8   0.0       0.08   12.6   0.0    1.5  1  Reprolysin_4   Metallo-peptidase family M12B Reprolysin-like
      0.088   12.3   0.9       0.11   12.0   0.3    1.5  2  Peptidase_M64  IgA Peptidase M64


Domain annotation for each model (and alignments):
>> Peptidase_M10  Matrixin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.0   0.1     3e-13   6.8e-10     106     157 ..     178     228 ..     103     229 .. 0.89

  Alignments for each domain:
  == domain 1  score: 39.0 bits;  conditional E-value: 3e-13
                              SEEHHHHHHHHHHHHTTBESXSSTTSTTSSSCTXTTTXSSXHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M10 106 gvslflVaaHEiGHalGLeHssdkdalmyplykeekkvrlskdDvkgiqelY 157
                               +++ ++ +HE+GH lGL H ++ +++m+p+y ++ + +l++ D++ i++lY
  PHY93_13855|PHY93_13855 178 DYDVPTILLHEMGHFLGLCHENNYNSIMAPYYYST-QRTLKTFDTNKIKALY 228
                              689999**************************864.557************9 PP

>> Metallopep  Putative peptidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.0   4.6e-07     0.001     319     354 ..     186     223 ..     184     244 .. 0.88

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 4.6e-07
               Metallopep 319 lHEiGHllglpHqed..Gvmlrdydalnrsfttreaes 354
                              lHE+GH lgl H ++  ++m+  y   +r++ t ++++
  PHY93_13855|PHY93_13855 186 LHEMGHFLGLCHENNynSIMAPYYYSTQRTLKTFDTNK 223
                              9************9888********9999998877654 PP

>> Peptidase_M66  Peptidase M66
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.2   5.2e-07    0.0012     164     226 ..     155     211 ..     124     234 .. 0.72

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 5.2e-07
            Peptidase_M66 164 alkanGkyanghGGlgggssGivtgdatltgefiHEqGHalGLpHylageaaskgsypyaegs 226
                              + +   +y n +   +++  G +  d+ +  +++HE+GH lGL H    ++     y y   s
  PHY93_13855|PHY93_13855 155 HADIILNYYNFGADFSYT--GNSFIDYDVPTILLHEMGHFLGLCHENNYNSIM-APYYY---S 211
                              555566666666666777..999**********************55554444.45555...3 PP

>> DUF3810  Protein of unknown function (DUF3810)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.1     5e-06     0.011     183     210 ..     175     202 ..     159     216 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 5e-06
                  DUF3810 183 dlpalnlpftiaHElAHllGiasEdEAN 210
                               + ++++p+++ HE+ H+lG  +E+  N
  PHY93_13855|PHY93_13855 175 SFIDYDVPTILLHEMGHFLGLCHENNYN 202
                              4689********************9766 PP

>> Peptidase_M54  Peptidase family M54
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.0   1.1e-05     0.024     148     170 ..     184     207 ..     143     226 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 1.1e-05
                              HHHHHHHHHTT----S-.TSTTS- CS
            Peptidase_M54 148 evlhelGhlyGLshCke.dCvmnf 170
                               +lhe+Gh +GL h ++ + +m +
  PHY93_13855|PHY93_13855 184 ILLHEMGHFLGLCHENNyNSIMAP 207
                              479**************9****87 PP

>> Peptidase_M43  Pregnancy-associated plasma protein-A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.1   1.6e-05     0.035      64      89 ..     177     202 ..     150     246 .. 0.74

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.6e-05
            Peptidase_M43  64 tstnksstLthelGhfLgLihtfegg 89 
                               + +  + L he+GhfLgL h  + +
  PHY93_13855|PHY93_13855 177 IDYDVPTILLHEMGHFLGLCHENNYN 202
                              456677899************87655 PP

>> Reprolysin_4  Metallo-peptidase family M12B Reprolysin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   3.6e-05      0.08     134     164 ..     180     210 ..     161     224 .. 0.74

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 3.6e-05
             Reprolysin_4 134 deydifAHEiGHtfGaaHdlsdegeglsskt 164
                              d + i+ HE+GH +G+ H+ ++++  + + +
  PHY93_13855|PHY93_13855 180 DVPTILLHEMGHFLGLCHENNYNSIMAPYYY 210
                              4456799************998886554444 PP

>> Peptidase_M64  IgA Peptidase M64
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -4.1   0.0       4.2   9.4e+03     189     203 ..      76      90 ..      70      95 .. 0.61
   2 ?   12.0   0.3   5.1e-05      0.11     129     169 ..     168     207 ..     156     235 .. 0.76

  Alignments for each domain:
  == domain 1  score: -4.1 bits;  conditional E-value: 4.2
                              GGG.TTGGGS-TT-- CS
            Peptidase_M64 189 pakaKWkdllkettp 203
                              + ++ W+d ++++t 
  PHY93_13855|PHY93_13855  76 QMAKVWNDAVTPSTA 90 
                              334457777777665 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 5.1e-05
                              TTTEEEEESSSTTHHHHHHHHHHHHTT------EES----- CS
            Peptidase_M64 129 fnlyatvaadnsyatyilvHElgHslagLadEYeytsdvay 169
                              + +y+  +  +   + il+HE+gH + gL  E +y+s  a 
  PHY93_13855|PHY93_13855 168 DFSYTGNSFIDYDVPTILLHEMGH-FLGLCHENNYNSIMAP 207
                              5555555544445789********.**********997663 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (279 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       357  (0.0199119); expected 358.6 (0.02)
Passed bias filter:                      270  (0.0150594); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 1869.68
//
Query:       PHY93_13860|PHY93_13860  [L=112]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      3e-35  120.5  10.1    3.4e-35  120.4  10.1    1.0  1  Ribosomal_L20  Ribosomal protein L20


Domain annotation for each model (and alignments):
>> Ribosomal_L20  Ribosomal protein L20
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  120.4  10.1   1.9e-39   3.4e-35       1     107 []       3     109 ..       3     109 .. 0.99

  Alignments for each domain:
  == domain 1  score: 120.4 bits;  conditional E-value: 1.9e-39
                              XXX.XXXXXXXXXXXXX--SSS---SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTT--HHHHHHHHCCTTS CS
            Ribosomal_L20   1 RvkrgvaarkrrkkilklakgyrgrrsklyrvakqavekalqyayrdRkkkkrdfrklwitrinaaarenglsYskfingLkkani 86 
                              Rv+rg++ar+rr+k+lk+akg+   r++ y+ + ++v++al+yay++R+  krd+rklw  ri aaar  ++sYskf+ ++kk+++
  PHY93_13860|PHY93_13860   3 RVRRGFKARRRRNKVLKMAKGFSFDRRTKYKHTAETVKRALHYAYVGRRLLKRDMRKLWVVRIAAAARVLETSYSKFMGAMKKNSV 88 
                              99************************************************************************************ PP

                              ---HHHHHHHHHH-HHHHHHH CS
            Ribosomal_L20  87 elnRkvLadlAindpeaFkal 107
                               +nRk+La++A +d e Fka+
  PHY93_13860|PHY93_13860  89 MINRKMLAEIAATDFEGFKAI 109
                              ******************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (112 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       536  (0.0298957); expected 358.6 (0.02)
Passed bias filter:                      291  (0.0162307); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.26s 00:00:00.72 Elapsed: 00:00:00.46
# Mc/sec: 736.13
//
Query:       PHY93_13865|PHY93_13865  [L=64]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.6e-21   76.6   9.2    1.7e-21   76.4   9.2    1.0  1  Ribosomal_L35p  Ribosomal protein L35


Domain annotation for each model (and alignments):
>> Ribosomal_L35p  Ribosomal protein L35
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.4   9.2   9.7e-26   1.7e-21       1      61 []       2      62 ..       2      62 .. 0.99

  Alignments for each domain:
  == domain 1  score: 76.4 bits;  conditional E-value: 9.7e-26
           Ribosomal_L35p  1 PKmKThkgakKRfkvtgsGkikrkkagkrHlltkKstkrkrrlrktalvskadakrlkklL 61
                             PKmKT+k+a+KR++vtg+Gk+kr+k g rH l++Kstk k+r  ++alv++++ ++++++L
  PHY93_13865|PHY93_13865  2 PKMKTRKSAAKRYSVTGTGKVKRNKCGLRHKLEHKSTKVKNRAGGPALVHQSEHEKVRRML 62
                             9***********************************************************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (64 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       487  (0.0271627); expected 358.6 (0.02)
Passed bias filter:                      290  (0.0161749); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.24s 00:00:00.64 Elapsed: 00:00:00.42
# Mc/sec: 456.39
//
Query:       PHY93_05280|PHY93_05280  [L=380]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (380 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       830  (0.0462937); expected 358.6 (0.02)
Passed bias filter:                      485  (0.0270511); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.44
# Mc/sec: 2596.06
//
Query:       PHY93_05890|PHY93_05890  [L=359]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.7e-78  263.1   0.0    4.8e-78  262.8   0.0    1.0  1  Glyco_hydro_3  Glycosyl hydrolase family 3 N terminal domain


Domain annotation for each model (and alignments):
>> Glyco_hydro_3  Glycosyl hydrolase family 3 N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  262.8   0.0   2.7e-82   4.8e-78       5     317 ..       3     315 ..       2     317 .. 0.97

  Alignments for each domain:
  == domain 1  score: 262.8 bits;  conditional E-value: 2.7e-82
                              HHHHTEE-B-SE-S--HHHHHHHHHH--SEEE--GGGTSSHHHHHHHHHHHHHH-SS....S--EEEE---BTTB---SSS.---S CS
            Glyco_hydro_3   5 kigqLlvvevseekkseeaaellkkyqvGgiilfaenledtkqleelieaarqaseksrlgiPlllavDqegGlvqrlgeg.tlfP 89 
                              ++gqL+   +s+    ee+++ ++k  +Gg+ilf++n+e+++ql+el++ ++   ++     Pl++++D egG+v r++++ t fP
  PHY93_05890|PHY93_05890   3 QLGQLVFTGISGLTLTEEEKKFIEKEDIGGVILFSKNYESPAQLAELVNNIQMLRKE----YPLFICTDHEGGRVVRFKTHfTQFP 84 
                              579999999999999**************************************9999....9************************ PP

                              -HHHHHHHT-HHHHHHHHHHHHHHHHHHT--EE---B-----STTSS.SGGGSS-SSHHHHHHHHHHHHHHHHHTT-EEEEEEETT CS
            Glyco_hydro_3  90 salalaatssldlikelgriiakelralgididfaPvvdvnrdprng.igvrsFsedpelvaalaaamvkGlqgagvaatvKHFpg 174
                               +l +a   s++l  ++++i+a+el a g+++++aPv d+ ++ +n  i +r+F+ d e v+++ ++m++G q +g+++++KHFpg
  PHY93_05890|PHY93_05890  85 PMLDIARLDSPKLFFDVATIMAEELLACGVNLNLAPVCDIWNNEQNKvIWDRAFGTDHESVSKFISSMIRGFQTNGILSCAKHFPG 170
                              ***********************************************9************************************** PP

                              GTT-SSETTTSEEB----HHHHHHTTHHHHHHHHHTT-SEEEE---B-TTT---.BGGG-HHHHIIIIIIIS---SEEEES-TTSH CS
            Glyco_hydro_3 175 hGdgavdshkelptvdhseeelrevdlvpfqaaieagvdsVMtaHvqfpaldgt.patgskklltdvLRkelGFdGvvvsDalamk 259
                              hG++  dsh++lp v+++ +++re++ +pf +ai+a vd +M aH+++ ++d++ p+++s  +  ++LR+el F+G+++sD+++mk
  PHY93_05890|PHY93_05890 171 HGNTVKDSHYDLPIVKKPLDKIREEEFQPFIKAIKARVDIIMMAHIIVEEIDSQlPCSLSARAH-EILRNELKFKGLILSDDMQMK 255
                              *************************************************************998.********************* PP

                              HHHCCS-HHHHHHHHHHHT-SBEES-S---SG..HHHHHHHHHTTSS-HHHHHHHHHHHH CS
            Glyco_hydro_3 260 eiadrggkeeavvlaLkAGvDilLvpeertse..ikalkkavkeGeltearidesvrrvl 317
                              +i+d++g+ ea+ +a++AG D+    +  +    +++lkka k+  + + ++ +++ r+ 
  PHY93_05890|PHY93_05890 256 AITDHYGTGEAAMMAIRAGSDLVEYRDMEEAMlgLEGLKKAQKDKTIKAHEFTDRLSRIE 315
                              *********************98776666555789*********************9995 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (359 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       520  (0.0290033); expected 358.6 (0.02)
Passed bias filter:                      393  (0.0219198); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.25s 00:00:00.82 Elapsed: 00:00:00.47
# Mc/sec: 2306.46
//
Query:       PHY93_13870|PHY93_13870  [L=216]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.9e-28   95.9   0.5    1.9e-27   95.1   0.5    1.4  1  IF3_C     Translation initiation factor IF-3, C-terminal doma
    1.8e-26   92.2   0.1    4.5e-26   90.9   0.0    1.7  2  IF3_N     Translation initiation factor IF-3, N-terminal doma
  ------ inclusion threshold ------
      0.026   14.7   0.5      0.046   14.0   0.5    1.4  1  DUF3127   Domain of unknown function (DUF3127)


Domain annotation for each model (and alignments):
>> IF3_C  Translation initiation factor IF-3, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   95.1   0.5   3.1e-31   1.9e-27       1      84 [.     104     188 ..     104     190 .. 0.96

  Alignments for each domain:
  == domain 1  score: 95.1 bits;  conditional E-value: 3.1e-31
                              S-EEEEEEESS--HHHHHHHHHHHHHHHHHT-EEEEEEE--S-TTSHHHHHHHHHHHHHHHTTTTE.EEEEEEEE-SSEEEEEEE CS
                    IF3_C   1 ievKEiklrpkidehDlevKlknarkFLeegdkvKvtlrfrGReiahkelgkevleriaeeleeva.kvekkpklegrqmimvla 84 
                              i++KEi+lrp+i+ +Dl++Kl+++ kFL++gdk+K++++frGRe+++++ g+  ++++++++e ++ +ve +pk+ g+++i +la
  PHY93_13870|PHY93_13870 104 IQLKEIQLRPNIEANDLQTKLNHCAKFLDDGDKIKISMQFRGREMSYRDAGMVKFKEVIKQIEAMGaVVEADPKMMGNRIIAILA 188
                              699************************************************************987589**************98 PP

>> IF3_N  Translation initiation factor IF-3, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   90.9   0.0   7.6e-30   4.5e-26       1      70 []      28      97 ..      28      97 .. 0.99
   2 ?   -2.5   0.0       1.1   6.7e+03      20      35 ..     153     168 ..     133     176 .. 0.72

  Alignments for each domain:
  == domain 1  score: 90.9 bits;  conditional E-value: 7.6e-30
                             ETTS--SSEEEEE-SSS-EEEEEEHHHHHHHHHHHTSEEEEEESSSSS-EEEEE-HHHHHHHHHHHHHHH CS
                    IF3_N  1 iNeqIrarevrlvdedGeqlGvistreAlrlaeekgldLVevspnaepPVcrimdygkfrYeqkkkekea 70
                             +NeqIr +e rl ++dG   Gv+++ eA ++a+e+gldLVevsp+a+pPV++++d+gk++Ye++kk++ea
  PHY93_13870|PHY93_13870 28 VNEQIRIPECRLLGDDGHAYGVLTMYEARKIADEAGLDLVEVSPTAQPPVVKLIDFGKYKYELQKKAQEA 97
                             7******************************************************************996 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 1.1
                              EEEEEHHHHHHHHHHH CS
                    IF3_N  20 lGvistreAlrlaeek 35 
                               G+++ +e+++ +e +
  PHY93_13870|PHY93_13870 153 AGMVKFKEVIKQIEAM 168
                              3667777777766655 PP

>> DUF3127  Domain of unknown function (DUF3127)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.5   7.6e-06     0.046      18      72 ..      93     149 ..      79     166 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 7.6e-06
                  DUF3127  18 knGefkkrefvletee.qYpkkiclevvgdkideldkl.qvgdevkvsfnlegrewn 72 
                              k+ e kk+++v++ +e q   +i  + ++ k+++++k+   gd++k+s++ +gre  
  PHY93_13870|PHY93_13870  93 KAQEAKKKQIVIQLKEiQLRPNIEANDLQTKLNHCAKFlDDGDKIKISMQFRGREMS 149
                              222579********977************999999875389*************965 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (216 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       744  (0.041497); expected 358.6 (0.02)
Passed bias filter:                      374  (0.0208601); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.27s 00:00:00.76 Elapsed: 00:00:00.46
# Mc/sec: 1412.03
//
Query:       PHY93_13875|PHY93_13875  [L=154]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (154 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       342  (0.0190752); expected 358.6 (0.02)
Passed bias filter:                      277  (0.0154498); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.25s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 1028.70
//
Query:       PHY93_13880|PHY93_13880  [L=624]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.4e-22   78.5   0.0    7.7e-22   77.4   0.0    1.6  1  Acyltransferase  Acyltransferase
      0.006   17.0   0.0       0.02   15.3   0.0    1.9  1  AHSP             Alpha-haemoglobin stabilising protein


Domain annotation for each model (and alignments):
>> Acyltransferase  Acyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.4   0.0   8.6e-26   7.7e-22       5     134 ..     104     242 ..     101     243 .. 0.88

  Alignments for each domain:
  == domain 1  score: 77.4 bits;  conditional E-value: 8.6e-26
          Acyltransferase   5 tglenlpekgpailvaNHqsylDvlllwlllyksngprnvviiakkellsipllgflmrllgfifidR..ksnaraagslenise. 87 
                              ++l +l++k++++lv+NHqs++D+l ++++ +k+   + + ++a+ + l+i  +g ++r++g++fi+R   ++  ++ +le +++ 
  PHY93_13880|PHY93_13880 104 HNLAELSKKNNLVLVPNHQSHADYLAINYVYFKKY--QSPLFVAGGNNLNIFPIGAIFRKSGCFFIRRtfANDILYKLTLEAYLHy 187
                              78899999*********************998888..5666666666699******************997777888888888888 PP

          Acyltransferase  88 lleegklvviFPEGtrsregellpfkkGlvrlaakak........kgvpivPvai 134
                              +l +g+ + +F EG+rsr+g+llp++ Gl +++++a+        + +  vPv+i
  PHY93_13880|PHY93_13880 188 MLVKGNPIEFFFEGGRSRTGKLLPPRYGLYQMLIEAHaaiptgkrRPLQFVPVSI 242
                              ************************************9888887777777777776 PP

>> AHSP  Alpha-haemoglobin stabilising protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   2.2e-06      0.02      49      86 ..      50      87 ..      39      88 .. 0.90

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 2.2e-06
                     AHSP 49 kkkltGeqqeqdralqelrqeLktlaspfLakyraflk 86
                             + +++G+ +++++al++l++    l+ pfL+ + +fl+
  PHY93_13880|PHY93_13880 50 SSRIKGKPDDREKALKNLKEIRAELSLPFLKTFEKFLD 87
                             5799********************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (624 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       681  (0.0379832); expected 358.6 (0.02)
Passed bias filter:                      500  (0.0278878); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.68u 0.25s 00:00:00.93 Elapsed: 00:00:00.46
# Mc/sec: 4067.54
//
Query:       PHY93_13885|PHY93_13885  [L=351]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
   2.6e-117  391.7   9.5   2.9e-117  391.6   9.5    1.0  1  IMPDH         IMP dehydrogenase / GMP reductase domain
    9.4e-12   45.0   9.0    1.4e-10   41.1   9.0    2.1  1  NMO           Nitronate monooxygenase
    1.4e-10   40.7   4.5    6.5e-10   38.6   2.7    2.1  2  FMN_dh        FMN-dependent dehydrogenase
    0.00017   20.8   2.3     0.0054   15.9   0.4    2.5  2  DUF561        Protein of unknown function (DUF561)
    0.00019   21.0   3.5    0.00056   19.4   0.4    2.2  2  His_biosynth  Histidine biosynthesis protein
    0.00026   20.3   4.7    0.00026   20.3   4.7    2.4  3  Glu_synthase  Conserved region in glutamate synthase
    0.00082   18.7   0.7    0.00082   18.7   0.7    2.2  3  DHO_dh        Dihydroorotate dehydrogenase
     0.0015   18.0   3.7      0.044   13.2   0.2    2.7  3  G3P_antiterm  Glycerol-3-phosphate responsive antiterminator
     0.0039   16.5   2.8     0.0039   16.5   2.8    2.1  2  ThiG          Thiazole biosynthesis protein ThiG
  ------ inclusion threshold ------
       0.01   15.0   2.3       0.17   11.0   0.0    2.3  2  Dus           Dihydrouridine synthase (Dus)
      0.012   14.9   4.2      0.034   13.4   3.9    2.2  1  NanE          Putative N-acetylmannosamine-6-phosphate epimer
      0.038   13.8   0.3       0.11   12.3   0.1    1.8  2  QRPTase_C     Quinolinate phosphoribosyl transferase, C-termi


Domain annotation for each model (and alignments):
>> IMPDH  IMP dehydrogenase / GMP reductase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  391.6   9.5  1.9e-120  2.9e-117       1     345 []      16     350 ..      16     350 .. 0.96

  Alignments for each domain:
  == domain 1  score: 391.6 bits;  conditional E-value: 1.9e-120
                              E--GGGEEEE---B-S-GG.GSB--EESSTTEEESSSEEE-SSTTT-SHHHHHHHHHTTSEEEE-SSS-HHHHHHHHHHHHTSTTS CS
                              xxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    IMPDH   1 gltfddvllvpaksevlpk.evdlktkltkkiklniPlvsaamdtvtesemAialareGgigvihknlsieeqaeevkkvkrspna 85 
                              gltfddvllvp++se+ ++ +  lkt++tk++ + +P+++a+mdt+tesemA+++ar Ggig +h+ +s  +q++evkk++     
  PHY93_13885|PHY93_13885  16 GLTFDDVLLVPRYSEISSRkHPVLKTHITKNFIIDLPVITANMDTITESEMACTMARIGGIGSLHRFMSEVDQVAEVKKIQ---AY 98 
                              79****************967789*********************************************998888888887...67 PP

                              XBXTTSXB-EEEEE-SSTTHHHHHHHHHHTT-SEEEEE-STSSSHHHHHHHHHHHHHTTTSEEEEEEE-SHHHHHHHHHTT-SEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    IMPDH  86 akdekgrllvgaavgvkedalervkalveagvdvlvvdsahghsekvleavkeikkkveeveviaGnvataegakaLieagadavk 171
                               k+++ +  ++a++gvke+ ++r++ lv+agv ++++d+ahg s ++le+++ ikkk+++v+viaGnvata+g+k++ie gadavk
  PHY93_13885|PHY93_13885  99 LKEHNLNTPIAASIGVKEEGMKRAEFLVNAGVQIITLDIAHGDSIMMLETLDLIKKKYPHVDVIAGNVATADGVKRMIERGADAVK 184
                              8999********************************************************************************** PP

                              E-SS-STTBHHHHHCSB---HHHHHHHHHHHHCTCT-EEEEES---SHHHHHHHHHTT-SEEEESCCCTTBTTSSSEEEEETTEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    IMPDH 172 vGiGpGsiCttrvvagvGvpqltAvaevaeaakkagvpviaDGGikysgdivkAlaaGadavmlGsllagteEspgeviliegrky 257
                              vGiGpGs+Cttr+++g G pqltA+a ++++akk+++pviaDGG+k+sgdivkAlaaGa++vm+Gsl++gt E+pge+       +
  PHY93_13885|PHY93_13885 185 VGIGPGSMCTTRIITGHGLPQLTAIALAVSVAKKHNIPVIADGGLKNSGDIVKALAAGASSVMVGSLVSGTLETPGELKG----GM 266
                              *****************************************************************************875....68 PP

                              EEEEETTSHHHHHH-SS-TTS-..--SS-SBEEEEEE--B-HHHHHHHHHHHHHHHHHHHT-SSHHHHHHH-EEEEE-HHHHHHHS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    IMPDH 258 KeyrGmgslgamkkgskdryfqkkeklvpeGvegrvpykgsvkevveqlvgglrsgmgylGaktieelkekakfvritaaglkesh 343
                              K+yrGm+s +a+   s+   +   + + +eG ++++p+kgsv+ v+e+l+gglrsgm+ylG+ +++++ e+a f+++ta+g++es+
  PHY93_13885|PHY93_13885 267 KQYRGMASKSAQV--SWRGEM--PQGMAAEGESTQIPCKGSVSLVIEELMGGLRSGMTYLGVDNLAAMSESALFIQMTASGMSESR 348
                              ***********93..444333..3479*********************************************************** PP

                              -- CS
                              xx RF
                    IMPDH 344 vH 345
                              +H
  PHY93_13885|PHY93_13885 349 PH 350
                              *9 PP

>> NMO  Nitronate monooxygenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.1   9.0   9.5e-14   1.4e-10       3     228 ..      42     255 ..      40     262 .. 0.76

  Alignments for each domain:
  == domain 1  score: 41.1 bits;  conditional E-value: 9.5e-14
                      NMO   3 lltellkikppvvqpgmggiskarLaaavsnaGgLGvlasgyltaDrlakeirkvkaltdkPfgvnlflpkkdaadraekykkele 88 
                               +t+ + i  pv+ + m  i++ ++a   +  Gg+G+l    ++     +++++vk++ +   + nl  p ++         ke +
  PHY93_13885|PHY93_13885  42 HITKNFIIDLPVITANMDTITESEMACTMARIGGIGSLH-RFMSE---VDQVAEVKKIQAYLKEHNLNTPIAASIGV-----KEEG 118
                              56777789*******************************.67777...56677777777776778888888777777.....2333 PP

                      NMO  89 eaalelnieegvrfyrkvevvldekvevvsfgfglpteevvarlkeagvvliptissvkearkvearGaDalivqGpeaGGhqGtp 174
                               + +e  ++ gv+    + ++  ++  ++     l+t ++++++     v+ + +++++ ++ +++rGaDa+ v G   G +  t+
  PHY93_13885|PHY93_13885 119 MKRAEFLVNAGVQ---IITLDIAHGDSIMM----LETLDLIKKKYPHVDVIAGNVATADGVKRMIERGADAVKV-GIGPGSMCTTR 196
                              3455666777877...45555555555443....4556789999888888999******************866.89999999977 PP

                      NMO 175 evgd.....kglfaLvpqvldavdiPviAaGGiidrrgvaaaLalGAsgvqigtrfLlt 228
                               + +        +aL  +v++ ++iPviA GG+ +  ++  aLa+GAs v +g+   +t
  PHY93_13885|PHY93_13885 197 IITGhglpqLTAIALAVSVAKKHNIPVIADGGLKNSGDIVKALAAGASSVMVGSLVSGT 255
                              666623332334455556677777*****************************966555 PP

>> FMN_dh  FMN-dependent dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.6   2.7   4.4e-13   6.5e-10     200     303 ..     141     252 ..      64     266 .. 0.75
   2 ?    1.8   0.0     0.066        98     315     346 ..     304     335 ..     295     337 .. 0.90

  Alignments for each domain:
  == domain 1  score: 38.6 bits;  conditional E-value: 4.4e-13
                              -TC--HHHHHHHHHHHS.SEEEEEEE-SHHHHHHHHHTTESEEEE--GGGTSSTT---HHHCHHHH......HHHH...SS-EEEE CS
                   FMN_dh 200 dpsltwddikwlreqtk.lplvvKGvltaedakraveaGvdgivvSNHGGRqldgapatidvLpei......veav.ggrievlvD 277
                              d+ +  ++++ ++++ + + ++   v ta+ +kr++e G+d++ v    G    + + t + Lp++      v  + +++i+v++D
  PHY93_13885|PHY93_13885 141 DSIMMLETLDLIKKKYPhVDVIAGNVATADGVKRMIERGADAVKVGIGPGSMCTTRIITGHGLPQLtaialaVSVAkKHNIPVIAD 226
                              55566777888888776478888889************************999999998888877754444322222358****** PP

                              SS--SHHHHHHHHHTT-SEEEESHHH CS
                   FMN_dh 278 gGirrGsDvlkAlalGAdavllGRpf 303
                              gG ++  D++kAla GA+ v++G  +
  PHY93_13885|PHY93_13885 227 GGLKNSGDIVKALAAGASSVMVGSLV 252
                              ***********************766 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.066
                              HHHHHHHHHHHHHHHHHHHT-SBHHHHHCGGE CS
                   FMN_dh 315 vervleilraelertmallGvksvaeldrsll 346
                              v+ v+e l+  l++ m+ lGv ++a +++s+l
  PHY93_13885|PHY93_13885 304 VSLVIEELMGGLRSGMTYLGVDNLAAMSESAL 335
                              7889*********************9998865 PP

>> DUF561  Protein of unknown function (DUF561)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.1   0.0     0.015        22     185     239 ..      49     101 ..      34     105 .. 0.78
   2 !   15.9   0.4   3.6e-06    0.0054     171     219 ..     205     254 ..     157     267 .. 0.84

  Alignments for each domain:
  == domain 1  score: 4.1 bits;  conditional E-value: 0.015
                   DUF561 185 vslPvicasGlsdvtvplalslgasGiGigsavsklndeeemvallseikkaisk 239
                              ++lPvi+a   +   +++a ++   G Gigs ++++ +e++ va +++i++ +++
  PHY93_13885|PHY93_13885  49 IDLPVITANMDTITESEMACTMARIG-GIGS-LHRFMSEVDQVAEVKKIQAYLKE 101
                              79******988888899999887665.6765.68888888999999999887665 PP

  == domain 2  score: 15.9 bits;  conditional E-value: 3.6e-06
                   DUF561 171 slstlastyeiskkvslPvicasGlsdvt.vplalslgasGiGigsavsk 219
                               l+++a + +++kk ++Pvi+  Gl+++  +  al++gas + +gs vs 
  PHY93_13885|PHY93_13885 205 QLTAIALAVSVAKKHNIPVIADGGLKNSGdIVKALAAGASSVMVGSLVSG 254
                              567899999****************988625669************9985 PP

>> His_biosynth  Histidine biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.2     0.095   1.4e+02      51     102 ..     137     186 ..     114     191 .. 0.71
   2 !   19.4   0.4   3.8e-07   0.00056     180     222 ..     209     251 ..     195     257 .. 0.76

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.095
                              HHHHCTTHHHHHHHHHHHHHH-SSEEEEESSSSSHHHHHHHHHCT-SEEEES CS
             His_biosynth  51 ldaakegreanldlveeiaeevfipvqvGGGIrsledveelleagadkviig 102
                              +  a+  +  +l+ +  i ++      + G + + + v++++e+gad v +g
  PHY93_13885|PHY93_13885 137 I--AHGDSIMMLETLDLIKKKYPHVDVIAGNVATADGVKRMIERGADAVKVG 186
                              4..5555555666666666664444456666999999999999999988776 PP

  == domain 2  score: 19.4 bits;  conditional E-value: 3.8e-07
                              HHHHHHHHHHHSSEEEEESS--SHHHHHHHHHTTCSEEEESHH CS
             His_biosynth 180 leltkelaeavkipviasGGvgsledlkelksegvdavivgsa 222
                              + l  ++a++ +ipvia GG ++  d+ ++ ++g+++v+vgs+
  PHY93_13885|PHY93_13885 209 IALAVSVAKKHNIPVIADGGLKNSGDIVKALAAGASSVMVGSL 251
                              5566677888888888888888888888888888888888875 PP

>> Glu_synthase  Conserved region in glutamate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0       2.6   3.9e+03      47      74 ..      33      59 ..      29      73 .. 0.73
   2 ?    1.4   0.1      0.09   1.4e+02     184     238 ..      86     140 ..      78     142 .. 0.84
   3 !   20.3   4.7   1.7e-07   0.00026     216     304 ..     169     250 ..     141     253 .. 0.76

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 2.6
                             -SS--.--GGGS--HHHHHTTEE---B- CS
             Glu_synthase 47 aaeealikleevepalkikkriltsamS 74
                             +++++ + ++++ +++ i+ +++t+ m 
  PHY93_13885|PHY93_13885 33 SRKHP-VLKTHITKNFIIDLPVITANMD 59
                             45556.5678888999999999999996 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.09
                              -SSHHHHHHHHHHHHHH-TTSEEEEEEE-STTHHHHHHHHHHTT-SEEEEE-TT- CS
             Glu_synthase 184 iysiedlaqliedLkevnkeakvsvKlvaeagvetiaagvakanadiilidGleG 238
                              + +  ++++    Lke n + ++   ++ ++   + a ++++a++ ii++d  +G
  PHY93_13885|PHY93_13885  86 VDQVAEVKKIQAYLKEHNLNTPIAASIGVKEEGMKRAEFLVNAGVQIITLDIAHG 140
                              5566677777788**************999999999999**********996655 PP

  == domain 3  score: 20.3 bits;  conditional E-value: 1.7e-07
                              HHHHHHHHHHTT-SEEEEE-TT---SSEEHHHHHHB---HHHHHHHHHHHHHHTT-GGG-EEEEESS--SHHHHHHHHHHT-SEEE CS
             Glu_synthase 216 vetiaagvakanadiilidGleGGTGAspkssikhaGlPlelalaevdqtlkeeglrdrvsliadGglktgadvvkalalGAdavg 301
                              ++ ++  + + +ad++++ G+  G     + +i   GlP ++a+a ++ +      ++++ +iadGglk + d+vkala GA +v 
  PHY93_13885|PHY93_13885 169 ADGVKR-MIERGADAVKV-GIGPGSM-CTTRIITGHGLPQLTAIALAVSVA----KKHNIPVIADGGLKNSGDIVKALAAGASSVM 247
                              444554.77778888887.5544433.456678888*********998765....46889************************** PP

                              -SH CS
             Glu_synthase 302 igt 304
                              +g+
  PHY93_13885|PHY93_13885 248 VGS 250
                              997 PP

>> DHO_dh  Dihydroorotate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0      0.87   1.3e+03       6      32 ..      99     125 ..      94     136 .. 0.77
   2 ?   -1.3   0.0      0.65   9.7e+02     244     275 ..     158     188 ..     145     206 .. 0.76
   3 !   18.7   0.7   5.5e-07   0.00082     230     276 ..     208     252 ..     198     258 .. 0.84

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.87
                              ETTEEESSSEEE-TTSSTTSSSHHHHH CS
                   DHO_dh   6 vlglkfknpiglAaGfdkegeeilkll 32 
                              +++++++ pi  + G++ eg++ +++l
  PHY93_13885|PHY93_13885  99 LKEHNLNTPIAASIGVKEEGMKRAEFL 125
                              67889999999999**99999988876 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 0.65
                              .S-EEEESS--SHHHHHHHHHHTECEEEESHH CS
                   DHO_dh 244 eipiIgvGGiesgeDalekieaGAslvqvyta 275
                              ++ +I+ G + +++ +  +ie GA +v+v+ +
  PHY93_13885|PHY93_13885 158 HVDVIA-GNVATADGVKRMIERGADAVKVGIG 188
                              556665.8899999999999999999998855 PP

  == domain 3  score: 18.7 bits;  conditional E-value: 5.5e-07
                              HHHHHHHHHHHTTT.S-EEEESS--SHHHHHHHHHHTECEEEESHHH CS
                   DHO_dh 230 alkvirelykrlkkeipiIgvGGiesgeDalekieaGAslvqvytal 276
                              a+++  +++k+ +  ip+I+ GG++ + D +  + aGAs v v++ +
  PHY93_13885|PHY93_13885 208 AIALAVSVAKKHN--IPVIADGGLKNSGDIVKALAAGASSVMVGSLV 252
                              5566666677666..****************************9865 PP

>> G3P_antiterm  Glycerol-3-phosphate responsive antiterminator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       1.6   2.4e+03      96     117 ..      45      66 ..      34      95 .. 0.63
   2 !    5.1   0.1    0.0091        14     127     166 ..     145     184 ..     142     187 .. 0.79
   3 !   13.2   0.2     3e-05     0.044     124     167 ..     204     248 ..     202     251 .. 0.86

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 1.6
                              EEE--SHHHHHHHHHHHHHHT- CS
             G3P_antiterm  96 rlfliDssalekalkqiekskp 117
                              + f+iD   ++  +++i++s+ 
  PHY93_13885|PHY93_13885  45 KNFIIDLPVITANMDTITESEM 66 
                              5566665555555555555443 PP

  == domain 2  score: 5.1 bits;  conditional E-value: 0.0091
                              GHHHHCTSTTS....EEEEESS--SHHHHHHHCTT.SSEEE CS
             G3P_antiterm 127 vpkvikeikkel.kipiiaGGLietkedveealkaGaiavs 166
                              + ++++ ikk+  ++ +ia G + t + v+++++ Ga+av 
  PHY93_13885|PHY93_13885 145 MLETLDLIKKKYpHVDVIA-GNVATADGVKRMIERGADAVK 184
                              4677777888863666666.6899***************96 PP

  == domain 3  score: 13.2 bits;  conditional E-value: 3e-05
                              SGGG.HHHHCTSTTS...EEEEESS--SHHHHHHHCTT.SSEEEE CS
             G3P_antiterm 124 Pglv.pkvikeikkelkipiiaGGLietkedveealkaGaiavst 167
                              P l    ++ ++ k+ +ip+ia G ++++ d+ +al+aGa++v++
  PHY93_13885|PHY93_13885 204 PQLTaIALAVSVAKKHNIPVIADGGLKNSGDIVKALAAGASSVMV 248
                              6666566777899999**************************987 PP

>> ThiG  Thiazole biosynthesis protein ThiG
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.2      0.17   2.5e+02     154     201 ..     136     183 ..      32     190 .. 0.80
   2 !   16.5   2.8   2.6e-06    0.0039     153     209 ..     195     254 ..     171     268 .. 0.75

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.17
                              STTS----S-HHHHHHHHHH-.SS-BEEES---SHHHHHHHHHTT-SEE CS
                     ThiG 154 piGsglGllnkealkiiieea.kvPvivDAGigspsdaaqamelGadav 201
                               i  g  ++  e+l +i ++  +v vi    + ++  +   +e Gadav
  PHY93_13885|PHY93_13885 136 DIAHGDSIMMLETLDLIKKKYpHVDVIA-GNVATADGVKRMIERGADAV 183
                              4556666777777777777776666653.34777777888888888887 PP

  == domain 2  score: 16.5 bits;  conditional E-value: 2.6e-06
                              SSTTS----S-HHHHHH...HHHH-SS-BEEES---SHHHHHHHHHTT-SEEEESHHHHT CS
                     ThiG 153 apiGsglGllnkealki...iieeakvPvivDAGigspsdaaqamelGadavllntavae 209
                              + i +g+Gl + +a+ +   + ++ ++Pvi D G+ ++ d+++a+  Ga++v++ + v+ 
  PHY93_13885|PHY93_13885 195 TRIITGHGLPQLTAIALavsVAKKHNIPVIADGGLKNSGDIVKALAAGASSVMVGSLVSG 254
                              45778888877776665112445569****************************998876 PP

>> Dus  Dihydrouridine synthase (Dus)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.3   0.3     0.024        36     174     213 ..     148     186 ..     115     191 .. 0.85
   2 ?   11.0   0.0   0.00011      0.17     178     223 ..     215     262 ..     205     287 .. 0.79

  Alignments for each domain:
  == domain 1  score: 3.3 bits;  conditional E-value: 0.024
                              HHHHHHHH-S.S-EEEESS--SHHHHHHHHHHH--SEEEES CS
                      Dus 174 aIkevkqavs.ipviaNGdIkdaedaqaileetGadgvmig 213
                              +   +k++ + + via G++ +a+ +++++e+ Gad+v +g
  PHY93_13885|PHY93_13885 148 TLDLIKKKYPhVDVIA-GNVATADGVKRMIER-GADAVKVG 186
                              5566889999888887.**************9.*****988 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.00011
                              HHHH-SS-EEEESS--SHHHHHHHHHHH--SEEEESC...HHCCSTTHH CS
                      Dus 178 vkqavsipviaNGdIkdaedaqaileetGadgvmigr...galgnPwlf 223
                              v ++ +ipvia G+ k+  d+ ++l+  Ga  vm+g    g l+ P  +
  PHY93_13885|PHY93_13885 215 VAKKHNIPVIADGGLKNSGDIVKALAA-GASSVMVGSlvsGTLETPGEL 262
                              678889********************9.*******95222566666555 PP

>> NanE  Putative N-acetylmannosamine-6-phosphate epimerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   3.9   2.2e-05     0.034      54     176 ..     119     252 ..      63     258 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 2.2e-05
                              HHHHHHHHTTT-SEEEEE--SS--T--HHHHHHHHHHH-...-EEEEE-SSHHHHHHHHHTT-SEE....E....-TTTTSSTTS- CS
                     NanE  54 lkdideLaaagadiialDatdrerpvtieelikkikeky...qllmaDistleeglvakklGvdiv....G....ttlsGytkeee 128
                              +k  + L++ag++ii lD ++ +  + +e+ +  ik+ky    ++  +++t +  +   + G+d v    G     t    t++  
  PHY93_13885|PHY93_13885 119 MKRAEFLVNAGVQIITLDIAHGDSIMMLET-LDLIKKKYphvDVIAGNVATADGVKRMIERGADAVkvgiGpgsmCTTRIITGHGL 203
                              777889**************9998877775.6889999987667778999999999999999998733222111112233344444 PP

                              .SS--HHH.HHHHHHTT--EEEES---SHHHHHHHHTT--SEEEE-HHH CS
                     NanE 129 kaepDfal.vkalseaglkviaeGrintPekakkaieiGvdavvvGsai 176
                              ++   +al v   ++ ++ via+G ++      ka+  G+ +v+vGs +
  PHY93_13885|PHY93_13885 204 PQLTAIALaVSVAKKHNIPVIADGGLKNSGDIVKALAAGASSVMVGSLV 252
                              4556666634455678999***************************976 PP

>> QRPTase_C  Quinolinate phosphoribosyl transferase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.1   7.1e-05      0.11      62     156 ..      91     187 ..      71     193 .. 0.81
   2 ?   -2.4   0.0       2.4   3.6e+03      89     107 ..     231     249 ..     209     259 .. 0.66

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 7.1e-05
                              HHSSHHHHHHHHHHHHTTTSEEEEEESSHHHHHHHHHHT-SEEEEES-..-HHHHHHHHHHHHHHSTTSEEEEESS-.-TTTHHHH CS
                QRPTase_C  62 aagsiveavksvreavdkevkievevesleeleevleaeadiimLDnf..sveelkkaveelkeknkrvlievSGgv.tlenveey 144
                               +++i+  +k+ + +++ +++i v  e ++ +e  ++a+++ii LD    ++ ++ ++++++k+k ++v +  +G+v t + v+ +
  PHY93_13885|PHY93_13885  91 EVKKIQAYLKEHNLNTPIAASIGVKEEGMKRAEFLVNAGVQIITLDIAhgDSIMMLETLDLIKKKYPHVDVI-AGNVaTADGVKRM 175
                              45566666777777777777799999999999999***********99444578889999999999999986.5777367889999 PP

                              HCTT-SEEEECH CS
                QRPTase_C 145 aksgvdvisvga 156
                               + g d++ vg 
  PHY93_13885|PHY93_13885 176 IERGADAVKVGI 187
                              999999999985 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 2.4
                              SHHHHHHHHHHT-SEEEEE CS
                QRPTase_C  89 sleeleevleaeadiimLD 107
                              +  ++ ++l+a+a+ +m+ 
  PHY93_13885|PHY93_13885 231 NSGDIVKALAAGASSVMVG 249
                              4555666677777766654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (351 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       386  (0.0215294); expected 358.6 (0.02)
Passed bias filter:                      307  (0.0171231); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.61u 0.25s 00:00:00.86 Elapsed: 00:00:00.45
# Mc/sec: 2336.10
//
Query:       PHY93_13890|PHY93_13890  [L=67]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
  ------ inclusion threshold ------
      0.013   15.7   0.0      0.014   15.6   0.0    1.1  1  DUF3040    Protein of unknown function (DUF3040)
      0.019   13.1   0.2      0.023   12.9   0.2    1.0  1  EzrA       Septation ring formation regulator, EzrA
      0.032   14.1   0.2       0.49   10.3   0.0    2.1  2  DASH_Ask1  DASH complex subunit Ask1
      0.051   13.8   0.4       0.11   12.7   0.4    1.5  1  XhlA       Haemolysin XhlA
      0.067   13.7   0.1      0.079   13.5   0.1    1.1  1  DUF16      Protein of unknown function DUF16
       0.18    9.6   0.2       0.19    9.5   0.2    1.0  1  Nup88      Nuclear pore component


Domain annotation for each model (and alignments):
>> DUF3040  Protein of unknown function (DUF3040)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.6   0.0   4.8e-06     0.014       8      60 ..       6      59 ..       1      66 [. 0.70

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 4.8e-06
                  DUF3040  8 qrvLeeiEraLaaeDPklaaalrggaar..arrrslrrlavlavllfvaGlll.lv 60
                             +  L++iE+++++ D k+ ++ +  +++  +  ++  r  +  ++++  G+l+ l+
  PHY93_13890|PHY93_13890  6 RGELKKIEQNFEHMDAKFDKRCEHVDKQfgQIDKKFDR--LTTIMMWQGGILVtLI 59
                             678*******************9888886544444444..4444444446666344 PP

>> EzrA  Septation ring formation regulator, EzrA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.2   7.6e-06     0.023     142     184 ..       6      48 ..       3      52 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 7.6e-06
                              HHHHHHHHHT--TTTTHHHHHHHHHHHHHHHH----------- CS
                     EzrA 142 kekYrelrkkllanrfsygealeelekqleniekefsefeelt 184
                              + + +++++++++  +++ +  e+++kq+ +i+k+f+ +++++
  PHY93_13890|PHY93_13890   6 RGELKKIEQNFEHMDAKFDKRCEHVDKQFGQIDKKFDRLTTIM 48 
                              567789999****************************999988 PP

>> DASH_Ask1  DASH complex subunit Ask1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0   0.00016      0.49       4      26 ..       1      23 [.       1      28 [. 0.88
   2 ?    2.1   0.0     0.058   1.7e+02      14      26 ..      36      48 ..      28      51 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00016
                DASH_Ask1  4 ldqeitltLqeIDanlsrcfrii 26
                             +dqe   +L++I++n++++ ++ 
  PHY93_13890|PHY93_13890  1 MDQEFRGELKKIEQNFEHMDAKF 23
                             69***************998765 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.058
                DASH_Ask1 14 eIDanlsrcfrii 26
                             +ID+++ r  +i+
  PHY93_13890|PHY93_13890 36 QIDKKFDRLTTIM 48
                             8999999988876 PP

>> XhlA  Haemolysin XhlA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.4   3.7e-05      0.11       2      62 ..       5      61 ..       4      64 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 3.7e-05
                     XhlA  2 ikerlerietkldnleervdkleekaaeaeekiknleedlkklesnqkWlirtiiGalisa 62
                             ++ +l++ie++ + ++    k +++ + ++++  ++ ++ ++l+  + W+ +++++ lis+
  PHY93_13890|PHY93_13890  5 FRGELKKIEQNFEHMDA---KFDKRCEHVDKQFGQIDKKFDRLTTIMMWQGGILVT-LISG 61
                             56678999999998888...5889999999*************************9.7776 PP

>> DUF16  Protein of unknown function DUF16
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.1   2.6e-05     0.079      34      67 ..       7      40 ..       2      51 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 2.6e-05
                             HHHHHHHHHHH...HHHHHHHHHHHHHHHHHHHH CS
                    DUF16 34 qrLkkieakvdklgeqinkleqkvekqgekikel 67
                              +Lkkie++ +  + +++k  ++v+kq  +i++ 
  PHY93_13890|PHY93_13890  7 GELKKIEQNFEHMDAKFDKRCEHVDKQFGQIDKK 40
                             589************************9999875 PP

>> Nup88  Nuclear pore component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.2   6.5e-05      0.19     627     668 ..       2      43 ..       1      50 [. 0.90

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 6.5e-05
                    Nup88 627 eremkkelekikeklkslknalkqvkkkldkqrkqiakskee 668
                              ++e++ el+ki+++ ++++++ ++  + +dkq  qi+k+ ++
  PHY93_13890|PHY93_13890   2 DQEFRGELKKIEQNFEHMDAKFDKRCEHVDKQFGQIDKKFDR 43 
                              5799********************************998665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (67 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       873  (0.0486921); expected 358.6 (0.02)
Passed bias filter:                      667  (0.0372023); expected 358.6 (0.02)
Passed Vit filter:                       101  (0.00563333); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 449.72
//
Query:       PHY93_13895|PHY93_13895  [L=38]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
  ------ inclusion threshold ------
       0.26   11.3   0.7       0.38   10.7   0.7    1.2  1  Fst_toxin  Toxin Fst, type I toxin-antitoxin system


Domain annotation for each model (and alignments):
>> Fst_toxin  Toxin Fst, type I toxin-antitoxin system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.7   2.1e-05      0.38      15      21 .]       9      15 ..       9      15 .. 0.93

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 2.1e-05
                Fst_toxin 15 tLvdhWL 21
                             +L+dhWL
  PHY93_13895|PHY93_13895  9 ELFDHWL 15
                             7*****9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (38 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       442  (0.0246528); expected 358.6 (0.02)
Passed bias filter:                      299  (0.0166769); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.24s 00:00:00.63 Elapsed: 00:00:00.41
# Mc/sec: 274.99
//
Query:       PHY93_13900|PHY93_13900  [L=126]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
     0.0024   17.6   0.0     0.0044   16.7   0.0    1.5  1  Cupin_2         Cupin domain
  ------ inclusion threshold ------
      0.014   15.1   0.0      0.029   14.0   0.0    1.5  1  Cupin_3         Protein of unknown function (DUF861)
      0.061   13.1   0.0      0.096   12.5   0.0    1.3  1  Cyclophil_like  Cyclophilin-like


Domain annotation for each model (and alignments):
>> Cupin_2  Cupin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.0   7.4e-07    0.0044      21      54 ..      63      97 ..      60     110 .. 0.87

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 7.4e-07
                             EEEEEEESEEEEE.ECTEEEEEETTEEEEE-TT-E CS
                  Cupin_2 21 effyVleGegelt.vdgeeveleaGdsvyfpagtp 54
                             ++++Vl+G+++ t  +g +  ++  d++y p+g  
  PHY93_13900|PHY93_13900 63 HWGFVLSGQLTTTdKNGTQESVNSNDLFYWPPGHN 97
                             699**********9******************854 PP

>> Cupin_3  Protein of unknown function (DUF861)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   4.9e-06     0.029      30      64 ..      66     100 ..      56     107 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 4.9e-06
                              EEEECEEEEEETTTEEEEEETTEEEEE-TTEEECC CS
                  Cupin_3  30 yileGevkvtpeggetvelraGDlvvlpkglsgtw 64 
                              ++l+G+ + t+++g +  +   Dl++ p+g  ++ 
  PHY93_13900|PHY93_13900  66 FVLSGQLTTTDKNGTQESVNSNDLFYWPPGHNVKV 100
                              8*****************************97765 PP

>> Cyclophil_like  Cyclophilin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   1.6e-05     0.096      48      74 ..      72      98 ..      64     112 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 1.6e-05
                             -----SSSEESSB-TTEEEEECCCTEE CS
           Cyclophil_like 48 vklekeenakevveagdiaywppGkal 74
                             +++  ++ ++e+v+++d+ ywppG+ +
  PHY93_13900|PHY93_13900 72 LTTTDKNGTQESVNSNDLFYWPPGHNV 98
                             5566678899**************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (126 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       354  (0.0197445); expected 358.6 (0.02)
Passed bias filter:                      297  (0.0165653); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.44
# Mc/sec: 856.71
//
Query:       PHY93_13905|PHY93_13905  [L=305]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (305 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       374  (0.0208601); expected 358.6 (0.02)
Passed bias filter:                      345  (0.0192426); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.57u 0.23s 00:00:00.80 Elapsed: 00:00:00.47
# Mc/sec: 1969.84
//
Query:       PHY93_13910|PHY93_13910  [L=53]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (53 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       380  (0.0211947); expected 358.6 (0.02)
Passed bias filter:                      299  (0.0166769); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.42
# Mc/sec: 377.55
//
Query:       PHY93_13915|PHY93_13915  [L=48]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (48 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       358  (0.0199677); expected 358.6 (0.02)
Passed bias filter:                      303  (0.0169); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.24s 00:00:00.64 Elapsed: 00:00:00.42
# Mc/sec: 344.13
//
Query:       PHY93_05895|PHY93_05895  [L=275]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.8e-17   63.7  17.5    1.8e-17   63.7  17.5    1.7  2  BPD_transp_1  Binding-protein-dependent transport system inne


Domain annotation for each model (and alignments):
>> BPD_transp_1  Binding-protein-dependent transport system inner membrane component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.3     0.062   1.1e+03     155     167 ..      76      88 ..      15      99 .. 0.54
   2 !   63.7  17.5   9.8e-22   1.8e-17       4     181 ..      95     274 ..      92     275 .] 0.90

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 0.062
             BPD_transp_1 155 nggvlalviavll 167
                              +g+++ l+i++++
  PHY93_05895|PHY93_05895  76 AGLTYSLTISIIV 88 
                              2222222222222 PP

  == domain 2  score: 63.7 bits;  conditional E-value: 9.8e-22
             BPD_transp_1   4 lGilaa...lnrnkkldkllrpliivllslPsfvlaillvlvfvilsilghlilp.viillllsaapyvrlirraalrslpkdlve 85 
                              +Gi ++   ++  ++++  ++ li++++ +Ps+++ai++        + g+++ + +++l+++++++y+ + r +  r+l   +ve
  PHY93_05895|PHY93_05895  95 IGIGMGymaVKGPSWVKLGFDLLINLIFIFPSILIAIMIM------AVTGQSMKGlIFALIVTGWTGYAKIARGESKRILALTYVE 174
                              55555555589*****************************......999*9999989***************************** PP

             BPD_transp_1  86 aaralGasrwqifrkvvlPnalppiitglilafggllggavlleflgswpGlgtllleailgydyseis..........nggvlal 161
                               ara G +++++f+++++P++lp++i  ++l + g++   + l flg    lg      ++g ++ ++           ++++l++
  PHY93_05895|PHY93_05895 175 GARAIGIGEIRLFFTIIIPAILPVMIVNMVLGISGVIISEASLGFLG----LGAS--PYSWGAMLGAAKtvlleaphiaMILSLTM 254
                              ***********************************************....7744..4445555555556688999999******* PP

             BPD_transp_1 162 viavlllnlvadilqrlldp 181
                              + +++ lnl+ d l ++ldp
  PHY93_05895|PHY93_05895 255 AGLIIGLNLLGDGLRDYLDP 274
                              *******************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (275 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       603  (0.0336327); expected 358.6 (0.02)
Passed bias filter:                      221  (0.0123264); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 1869.60
//
Query:       PHY93_02080|PHY93_02080  [L=528]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.3e-43  147.8   0.0    4.3e-43  147.5   0.0    1.1  1  Orn_Arg_deC_N  Pyridoxal-dependent decarboxylase, pyridoxal b
    2.4e-21   75.8   0.0    5.4e-21   74.7   0.0    1.6  1  Arg_decarb_HB  Arginine decarboxylase helical bundle domain
  ------ inclusion threshold ------
       0.11   12.4   0.0       0.24   11.3   0.0    1.6  1  pXO2-34        Family of unknown function


Domain annotation for each model (and alignments):
>> Orn_Arg_deC_N  Pyridoxal-dependent decarboxylase, pyridoxal binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  147.5   0.0   7.3e-47   4.3e-43       5     247 .]      84     349 ..      80     349 .. 0.91

  Alignments for each domain:
  == domain 1  score: 147.5 bits;  conditional E-value: 7.3e-47
                              HHHHHHHHHHCT...CCEEEEEGGG---HHHHHHHHHTT....EEEEESSHHHHHHHHHCTTTGGGEEEEESS--HHHHHHHHHCT CS
            Orn_Arg_deC_N   5 erklkrwkkalp...rikvfYavKansdlavlellaelG....lgldcaSkaElelvlaagvsperiifanpckqreelryalekg 83 
                              ++ ++++ k+ +    +k +Y++K+n+ ++v+e + + G     gl+++Sk El  vla++ + +  ++ n++k++++lr al  +
  PHY93_02080|PHY93_02080  84 NETFRAVIKEANyngLYKGVYPIKVNQMREVVEEIVDAGapydYGLEAGSKPELLSVLAFNDNINALTVLNGYKDEDYLRLALLGN 169
                              55555555555544678899*******************88888**************************************9877 PP

                              HT....EEEESSHHHHHHHHHHHCC....EEEEEEEE-SCCSSSSTCCCSSSTTSSSSEEHC...HHHHHHHHHHHHTTEEEEEEE CS
            Orn_Arg_deC_N  84 vk....vvtvdnveeleklaklape....akvllRiktdvsaatcelistggessKFGaale...eavealleaakeenlqlvGvs 158
                              +     +v++++++el+kl kl+ e    + + lR+k    +++ ++  +gge+ KFG +++   +av+ l++  + ++l+l   +
  PHY93_02080|PHY93_02080 170 KLgrkvIVVIEKFSELHKLLKLSREmniePMIGLRAKM-SVKGSGKWSDSGGEKAKFGLTIAemlTAVQILKDEGSINSLKL--FH 252
                              6556679*****************999988999*****.567999*************98887789999999999*******..** PP

                              ---BSSC-SCHHHHHHHHHHHHHHHHHHHHT---SEEE--S-BS-HCSTTSSSST......HHHHHHHHHHHHHHHHH..TSSS-E CS
            Orn_Arg_deC_N 159 fHvGSgvsdleafvkavekalklfdelaelGvklkiLdvGGGfgveyeeeeeplk......leeiaekirealeeafp..gdkevt 236
                              fH+GS+v+d++++++ +++  ++f +l +lG  l+ +dvGGG+gv+y + ++  +      l+++a++i   l+e++   + ++++
  PHY93_02080|PHY93_02080 253 FHIGSQVTDIRTIKEVMREGGRIFAKLSKLGAPLEYFDVGGGLGVDYDGSQSTNDssvnykLHDYASDIVYILKEICDaeNVPHPN 338
                              ************************************************8888777889999****************99999**** PP

                              EEE--SHHHHG CS
            Orn_Arg_deC_N 237 iiaEpGRalva 247
                              i++E+GRa++a
  PHY93_02080|PHY93_02080 339 IVSESGRAITA 349
                              *********97 PP

>> Arg_decarb_HB  Arginine decarboxylase helical bundle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.7   0.0     9e-25   5.4e-21       4      80 ..     377     453 ..     375     456 .. 0.96

  Alignments for each domain:
  == domain 1  score: 74.7 bits;  conditional E-value: 9e-25
            Arg_decarb_HB   4 apellqnLwelleelsqrnlqEiyhDavhyldearelFrlGllsLeerAkaEqlylaicrkirkllkeeerapreil 80 
                              +++l+ n++el+++l+ +n+qEiy+Da++ ++e+ ++FrlG l+LeerA  E+l+++i +ki +ll+e e +p+ + 
  PHY93_02080|PHY93_02080 377 EHTLVSNMRELFDSLDVENAQEIYNDALDTKKECLNAFRLGILKLEERASLETLFWKITKKITSLLPEMEFIPDNLY 453
                              89********************************************************************9999954 PP

>> pXO2-34  Family of unknown function
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0     4e-05      0.24      48      72 ..     263     287 ..     257     291 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 4e-05
                  pXO2-34  48 ekIktavesggvifAKrsksaqkLl 72 
                              + Ik ++  gg+ifAK sk +++L 
  PHY93_02080|PHY93_02080 263 RTIKEVMREGGRIFAKLSKLGAPLE 287
                              679******************9996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (528 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       651  (0.0363099); expected 358.6 (0.02)
Passed bias filter:                      565  (0.0315132); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.67u 0.26s 00:00:00.93 Elapsed: 00:00:00.48
# Mc/sec: 3306.39
//
Query:       PHY93_02085|PHY93_02085  [L=308]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (308 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       439  (0.0244855); expected 358.6 (0.02)
Passed bias filter:                      407  (0.0227007); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 2010.01
//
Query:       PHY93_02090|PHY93_02090  [L=268]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (268 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       649  (0.0361983); expected 358.6 (0.02)
Passed bias filter:                      517  (0.028836); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.44
# Mc/sec: 1819.55
//
Query:       PHY93_02095|PHY93_02095  [L=159]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.8e-18   64.4   0.1    1.4e-17   63.8   0.1    1.3  1  4HBT      Thioesterase superfamily


Domain annotation for each model (and alignments):
>> 4HBT  Thioesterase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.8   0.1   7.7e-22   1.4e-17       2      74 ..      30     101 ..      29     106 .. 0.96

  Alignments for each domain:
  == domain 1  score: 63.8 bits;  conditional E-value: 7.7e-22
                              SSB-HHHHHHHHHHHHHHHHHHTTSTTEEEEEEEEEEEESS-BBTTCEEEEEEEEEEEESSEEEEEEEEEETT CS
                     4HBT   2 GvvhgGvylallDeaagaalrslggrgilvvvvelsidflrpvrlgdeltvearvlrlgrtsavvevevrded 74 
                              + ++gGv+++++D aa++++ ++  r  +v+v  + i f++p+r+gd ++++a+++++g+ts+ v v+v +e+
  PHY93_02095|PHY93_02095  30 NSIFGGVVMSWIDMAAAMVAERHSNR-PVVTVHVDDISFKAPIRIGDHVLIKASINYVGSTSMLVGVKVIAEN 101
                              579**********************9.******************************************9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (159 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       519  (0.0289475); expected 358.6 (0.02)
Passed bias filter:                      411  (0.0229238); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.46
# Mc/sec: 1044.79
//
Query:       PHY93_02100|PHY93_02100  [L=281]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.2e-53  181.4  29.7    2.5e-53  181.2  29.7    1.0  1  ABC-3     ABC 3 transport family
    1.3e-07   31.0  28.4    1.3e-07   31.0  28.4    1.3  1  FecCD     FecCD transport family


Domain annotation for each model (and alignments):
>> ABC-3  ABC 3 transport family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  181.2  29.7   2.7e-57   2.5e-53       2     257 ..      13     273 ..      12     274 .. 0.98

  Alignments for each domain:
  == domain 1  score: 181.2 bits;  conditional E-value: 2.7e-57
                    ABC-3   2 yeflqrallasilvslacallgsfvvlrrqsllgdalsHaalpGvalayllgvn.....lllgailvgliaavalellkrktklke 82 
                              y+fl+ all+++++s+ c+l++ +++ r+ +++g a+sH++l G a+a+ l ++     +++ +++++++++++l++ + ++kl +
  PHY93_02100|PHY93_02100  13 YDFLLYALLGTVFLSMTCGLISPLLIARKNAFMGSAISHSTLLGLAIALSLFSSesplsIFATTLVITILCTLFLAFSTYRQKLPT 98 
                              89***********************************************9987778888999999********************* PP

                    ABC-3  83 dtaigivlsvflalglvlvslikkskvdldsyLfGniltisqedliliaiieavvllllllfwkelllitfdeelAkveglsvkll 168
                              d++igi  ++++a+g+++ s   k k dl s+LfGnil +++edl+l + + a++  l+++ +k+ l++t+dee A ++g++ k++
  PHY93_02100|PHY93_02100  99 DSLIGIFYTATMAMGILIHSAFAKNKTDLLSFLFGNILLLTKEDLLLSVGLLAITAPLIIIPFKKWLFLTYDEEGAITSGVNAKFF 184
                              ************************************************************************************** PP

                    ABC-3 169 kllllalialavvvalqavGviLvialliiPaatArrltrslesllivAillglvsvvaGlllSyyldlatGavivlvatllflla 254
                              ++l+++l++l +v++++++G iL+ +ll +P+ +A+++++++++ +i+++l++ +++v+G+l+  ++ l++Ga++++v+ l+++l+
  PHY93_02100|PHY93_02100 185 HYLFFILLSLLIVTSIKLAGTILIETLLLVPGFFALKFASNVRQTFIISVLFSTFFAVLGILIANTYGLPSGATLAVVLFLALVLS 270
                              ************************************************************************************99 PP

                    ABC-3 255 llv 257
                              ll+
  PHY93_02100|PHY93_02100 271 LLF 273
                              987 PP

>> FecCD  FecCD transport family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.0  28.4   1.4e-11   1.3e-07      79     301 ..      49     266 ..      45     278 .. 0.80

  Alignments for each domain:
  == domain 1  score: 31.0 bits;  conditional E-value: 1.4e-11
                    FecCD  79 issgaalgavlalllllgslslfalplaaflgallalllvlllarkrkgasplkliLaGiavsallsaltsllllllneealesil 164
                              is+   lg+++al l+  s+++   ++a  l   + + l+l++++ r++  +    L+Gi  +a + a+  l+     +++  ++l
  PHY93_02100|PHY93_02100  49 ISHSTLLGLAIALSLF--SSESPLSIFATTLVITILCTLFLAFSTYRQKLPTD--SLIGIFYTATM-AMGILIHSA-FAKNKTDLL 128
                              6777889999999996..44444455555555566666666666455555555..578**999987.455555544.567888999 PP

                    FecCD 165 fwllGslsgaswskvllllvllllllllllllarkldllalgdetAkslGvnvervrllllllvalltavavalvGpigFvG.Liv 249
                                l+G++   + +++ll++ ll+++++l+++  +k   l++++e A + Gvn + + +l+++l +ll+ +++ l+G+i     L+v
  PHY93_02100|PHY93_02100 129 SFLFGNILLLTKEDLLLSVGLLAITAPLIIIPFKKWLFLTYDEEGAITSGVNAKFFHYLFFILLSLLIVTSIKLAGTILIETlLLV 214
                              99****************************************************************************8866268* PP

                    FecCD 250 PhiarllvgadhrkllplsallGallllladllarlllsptelpvgivtali 301
                              P +  l + ++ r++ ++s+l++ ++ +l  l+a+++  p+   + +v+ l 
  PHY93_02100|PHY93_02100 215 PGFFALKFASNVRQTFIISVLFSTFFAVLGILIANTYGLPSGATLAVVLFLA 266
                              **********************************999766654444443332 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (281 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       915  (0.0510346); expected 358.6 (0.02)
Passed bias filter:                      227  (0.0126611); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.62u 0.27s 00:00:00.89 Elapsed: 00:00:00.46
# Mc/sec: 1844.63
//
Query:       PHY93_02105|PHY93_02105  [L=280]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.5e-30  105.8   0.0    1.1e-29  103.7   0.0    1.9  2  ABC_tran  ABC transporter
    3.4e-08   33.6   1.3    0.00033   20.6   0.1    2.2  2  AAA_21    AAA domain, putative AbiEii toxin, Type IV TA syste
    1.7e-05   24.4   2.0    7.6e-05   22.3   2.0    1.8  1  SMC_N     RecF/RecN/SMC N terminal domain
     0.0085   16.0   1.8      0.041   13.8   1.8    2.1  1  ATPase_2  ATPase domain predominantly from Archaea
     0.0093   16.2   0.1       0.25   11.6   0.1    2.3  1  SbcCD_C   Putative exonuclease SbcCD, C subunit
  ------ inclusion threshold ------
      0.011   16.2   2.0       0.14   12.6   2.0    2.2  1  AAA       ATPase family associated with various cellular acti
      0.019   15.5   0.7       0.13   12.8   0.2    2.6  2  AAA_18    AAA domain
      0.045   13.5   0.1       0.65    9.7   0.0    2.0  2  AAA_30    AAA domain
      0.046   14.2   2.9       0.14   12.6   2.9    1.8  1  AAA_23    AAA domain
       0.11   13.0   0.2       0.16   12.5   0.2    1.3  1  FlgN      FlgN protein
       0.73    9.9   3.9          2    8.5   0.3    2.3  2  DUF87     Helicase HerA, central domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  103.7   0.0   6.5e-33   1.1e-29       1     136 [.      24     167 ..      24     168 .. 0.88
   2 ?   -0.4   0.0      0.93   1.5e+03     110     127 ..     172     189 ..     172     260 .. 0.74

  Alignments for each domain:
  == domain 1  score: 103.7 bits;  conditional E-value: 6.5e-33
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH....... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren....... 79 
                              lk++s++l  ge ++++G+nG GK+tL+k++ gllk ++Ge+ ++gk ++e  ++   + ++++pq++ l+  l v+ +       
  PHY93_02105|PHY93_02105  24 LKDISFSLFSGESLGVLGPNGGGKTTLMKIIVGLLKADSGELFFEGKLSTE-YKNYPFELFSYVPQNSDLNTILPVKVSeymefak 108
                              79****************************************999988888.566667789******9999888776667799999 PP

                              ......HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              ......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ......esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                                    +s  +i+++l+ +g+ ++k++ +    s+LSgG+kqrv laral+++pkllllDEpt
  PHY93_02105|PHY93_02105 109 slykknNSPIDIDELLDLVGILHKKNSLI----SKLSGGEKQRVLLARALINRPKLLLLDEPT 167
                              99754444444999999999999888888....*****************************9 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 0.93
                              -HHHHHHHHHHHHHHHTS CS
                              xxxxxxxxxxxxxxxxxx RF
                 ABC_tran 110 SgGqkqrvalarallkkp 127
                              S+Gq q +a+ + + ++ 
  PHY93_02105|PHY93_02105 172 SKGQDQLLAIIEKIKTRD 189
                              667777777766554433 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.6   0.1     2e-07   0.00033       3      54 ..      38      87 ..      36      96 .. 0.77
   2 !   12.1   0.1   7.7e-05      0.13     234     288 ..     137     199 ..     103     214 .. 0.75

  Alignments for each domain:
  == domain 1  score: 20.6 bits;  conditional E-value: 2e-07
                   AAA_21  3 vliGpNgsGKSnLLdaldllarldrdvegltdelsggggirkipslldlydp 54
                             ++ GpNg GK++L++++ +l    +d+  l  e   + +++ +p++l++y p
  PHY93_02105|PHY93_02105 38 GVLGPNGGGKTTLMKIIVGLL--KADSGELFFEGKLSTEYKNYPFELFSYVP 87
                             578*****************9..56666666666666677777777777666 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 7.7e-05
                   AAA_21 234 arelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllell.kelsr..........n 288
                              +++lS G k+   l+ al+ ++   +lll+DEp  gL+ k +  ll ++ k+++r          n
  PHY93_02105|PHY93_02105 137 ISKLSGGEKQRVLLARALINRP---KLLLLDEPTKGLDSKGQDQLLAIIeKIKTRdktavmivdhN 199
                              4567999999988888888888...9*************999999999976666644444444444 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.3   2.0   4.6e-08   7.6e-05      24     208 ..      34     210 ..      24     219 .. 0.74

  Alignments for each domain:
  == domain 1  score: 22.3 bits;  conditional E-value: 4.6e-08
                              SSEEEEEESTTSSHHHHHHHHHHHCTT.TTTTTTCHCCCCCC--BTTCSSTTEEEEEEEEEETTEESSSSSSC.EEEEEEEETTSE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxx RF
                    SMC_N  24 ksftaivGpNGSGKsnlldAilFvLGersakklrseklsdlihkskekasvkkaeveitfdnedkklkiekee.vsisrrvkrkge 108
                               +   ++GpNG GK+ l+  i  +L  +s + + + kls    + k+ ++  + +v    ++ +  l+++ +e ++  +++++k++
  PHY93_02105|PHY93_02105  34 GESLGVLGPNGGGKTTLMKIIVGLLKADSGELFFEGKLST---EYKNYPFELFSYVPQN-SDLNTILPVKVSEyMEFAKSLYKKNN 115
                              5556799**************8888877776666666664...3366788888888875.44555577777775788889999999 PP

                              EEEEETTEEE-HHHHHHHHHCTT-STTCS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHH..HHCTTSEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxx RF
                    SMC_N 109 seykingkevtkkevsellesagiskelLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellk..eksknaQf 192
                              s + i++      ++  +l++++  ++ LSgGek+     +l+A   +++  l llDe    LD k   ++  +++  ++++++ +
  PHY93_02105|PHY93_02105 116 SPIDIDE----LLDLVGILHKKNSLISKLSGGEKQR----VLLARALINRPKLLLLDEPTKGLDSKGQDQLLAIIEkiKTRDKTAV 193
                              9999986....6799999***************984....4555556688889*************99999999984444455666 PP

                              EEE-SS.HHHCCC-SCE CS
                              xxxxxx.xxxxxxxxxx RF
                    SMC_N 193 ivislr.eemlekadkl 208
                              +++ ++ ++++++++k+
  PHY93_02105|PHY93_02105 194 MIVDHNiNQIIKNCHKI 210
                              66666524445555555 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.8   1.8   2.5e-05     0.041      25      83 ..      39     124 ..      33     214 .. 0.67

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 2.5e-05
                 ATPase_2  25 iYGpegsGKtaLlkeiienledkdkyviyyialreesiskldefieeeeekkklekal...........................g 83 
                              + Gp g GKt+L+k i+  l+  + + ++  +l++e+ ++  e +    +++ l+  l                           +
  PHY93_02105|PHY93_02105  39 VLGPNGGGKTTLMKIIVGLLKADSGELFFEGKLSTEYKNYPFELFSYVPQNSDLNTILpvkvseymefakslykknnspididelL 124
                              77******************999999*******99998887777663333333433332223333333333344443344444440 PP

>> SbcCD_C  Putative exonuclease SbcCD, C subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.6   0.1   0.00015      0.25      31      89 ..     138     183 ..     130     184 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00015
                  SbcCD_C  31 gtlSGGekqflaylalaaalaalyssaegrepalrlvfLDEAFsklDeesiatllelle 89 
                              ++lSGGekq    + la   +al+       ++++l++LDE  ++lD++ +++ll+++e
  PHY93_02105|PHY93_02105 138 SKLSGGEKQR---VLLA---RALI-------NRPKLLLLDEPTKGLDSKGQDQLLAIIE 183
                              6677777743...2233...2222.......4589*******************99887 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   2.0   8.4e-05      0.14       3     107 ..      39     195 ..      37     215 .. 0.65

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 8.4e-05
                              EESSTTSSHHHHHHHHHHHHTHE....EEEEETTTCSSS............................................... CS
                      AAA   3 lyGppGtGKTllakavakelgve....fleisgsellsk............................................... 37 
                              + Gp G GKT+l+k ++  l+++    f+e ++s+  ++                                               
  PHY93_02105|PHY93_02105  39 VLGPNGGGKTTLMKIIVGLLKADsgelFFEGKLSTEYKNypfelfsyvpqnsdlntilpvkvseymefakslykknnspididell 124
                              67*****************9866566655555555443345555555555555555555555555556677777777888888888 PP

                              .............STTHHHHHHHHHHHHHHHTSTSEEEEEETGGGHHHHHTTCCCHHHHHHHHHHHHHHHHTTTSSSTEEEEE CS
                      AAA  38 .............yvgesekkirelfkeakekakpsilfiDEidalaksrsgseseeeervvnqLlteldgvkkkeskvivig 107
                                               + +k r l+++a  + +p+ l++DE  +   s+           ++qLl+ +++ k++++ + v++
  PHY93_02105|PHY93_02105 125 dlvgilhkknsliSKLSGGEKQRVLLARALIN-RPKLLLLDEPTKGLDSK----------GQDQLLAIIEKIKTRDK-TAVMI 195
                              87775555555443334444555555555444.48888888888877777..........68888888888888755.44433 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.2   7.8e-05      0.13       3      54 ..      39      88 ..      37     212 .. 0.87
   2 ?   -1.2   0.1       1.7   2.7e+03      25      44 ..     219     238 ..     198     263 .. 0.70

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 7.8e-05
                   AAA_18  3 ltGtpGvGKttlakeLskrlgfgvnlrdvakenglllevdpealdeskrlde 54
                             + G+ G GKttl k +  +l     ++++++e+ l++e+ ++ ++ +  + +
  PHY93_02105|PHY93_02105 39 VLGPNGGGKTTLMKIIVGLL--KADSGELFFEGKLSTEYKNYPFELFSYVPQ 88
                             89**************9999..999999999999999999994444444444 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 1.7
                   AAA_18  25 gvnlrdvakenglllevdpe 44 
                              + n+rd++++n l++ +  e
  PHY93_02105|PHY93_02105 219 WHNHRDMLTKNILEDVYHCE 238
                              77889999998887766555 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   0.0    0.0004      0.65      22      47 ..      38      63 ..      30      77 .. 0.84
   2 ?    1.7   0.0      0.11   1.8e+02      81     125 ..     145     198 ..     104     206 .. 0.73

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.0004
                   AAA_30 22 vltGpAGtGKttalkalreaweaagg 47
                              + Gp G GKtt++k ++ +++a+ g
  PHY93_02105|PHY93_02105 38 GVLGPNGGGKTTLMKIIVGLLKADSG 63
                             578***************99998843 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.11
                   AAA_30  81 k.....grarlepgtllivDEagmv....dtkqlaallkaaekagakvilvGDe 125
                              k     +ra +++ +ll+ DE        +++ql a+++++++++ + +++ D+
  PHY93_02105|PHY93_02105 145 KqrvllARALINRPKLLLLDEPTKGldskGQDQLLAIIEKIKTRDKTAVMIVDH 198
                              256666667788889999**9887665556777777777777777666666565 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   2.9   8.6e-05      0.14      23     115 ..      38     121 ..      23     212 .. 0.53

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 8.6e-05
                   AAA_23  23 lItGpNGaGKTTildAiklaLygetprlsrks..grgfeksdveiesegkvkayveltfenkdgrytrsiererelskkkgkttkk 106
                               + GpNG GKTT++  i   L  ++++l  +   ++ +++  +e++s           +  ++ + ++++  + +++ + +k+ +k
  PHY93_02105|PHY93_02105  38 GVLGPNGGGKTTLMKIIVGLLKADSGELFFEGklSTEYKNYPFELFS-----------YVPQNSDLNTILPVKVSEYMEFAKSLYK 112
                              678************99988887655444433222222222222222...........2222222233344444444444444444 PP

                   AAA_23 107 aklelleid 115
                              ++ + ++id
  PHY93_02105|PHY93_02105 113 KNNSPIDID 121
                              444444444 PP

>> FlgN  FlgN protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.2   9.9e-05      0.16      37     121 ..     123     203 ..      90     211 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 9.9e-05
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SCHHHHHHHHCTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHH CS
                     FlgN  37 ieaLeelleekqellekleqleqkrakllaelglsaeeatlsellakeedeelkelwqelkelleelkelnelNgrlieqslefn 121
                              +  L ++l++k++l+ kl+  e++r  l  +l ++++ + l+e     ++    + +++l +++e++k + ++  +++ ++++++
  PHY93_02105|PHY93_02105 123 LLDLVGILHKKNSLISKLSGGEKQRVLLARALINRPKLLLLDEP----TKGLDSKGQDQLLAIIEKIKTRDKTAVMIVDHNINQI 203
                              45677899*********************999999766666666....7777778888899999999999888888888887765 PP

>> DUF87  Helicase HerA, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.5   0.3    0.0012         2      24      48 ..      35      59 ..      27      67 .. 0.86
   2 ?    2.4   0.3     0.087   1.4e+02     118     205 ..      97     194 ..      78     256 .. 0.59

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.0012
                    DUF87 24 rHlAilgsTGsGKSntvavLleell 48
                             ++l++lg  G GK++++++++  l 
  PHY93_02105|PHY93_02105 35 ESLGVLGPNGGGKTTLMKIIVGLLK 59
                             579****************997665 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.087
                    DUF87 118 rsvleealdqaka..keekeklssdepveklleelk.....keke.elrklknqaiarlldkledllrkggsf...snsstdlial 192
                                 + e+++ ak+  k+++  +++de++  +    +     ++k+ + +k++  ++++l+++ + ll+++ ++   s+ +++l+a 
  PHY93_02105|PHY93_02105  97 PVKVSEYMEFAKSlyKKNNSPIDIDELLDLVGIL-HkknslISKLsGGEKQRVLLARALINRPKLLLLDEPTKgldSKGQDQLLAI 181
                              4445555555555555555555555554422222.124444233324444444444444444444444444444555555555555 PP

                    DUF87 193 lleklekegkiti 205
                              +++++++++  + 
  PHY93_02105|PHY93_02105 182 IEKIKTRDKTAVM 194
                              5555555544433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (280 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       597  (0.033298); expected 358.6 (0.02)
Passed bias filter:                      387  (0.0215851); expected 358.6 (0.02)
Passed Vit filter:                        61  (0.00340231); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.59u 0.28s 00:00:00.87 Elapsed: 00:00:00.46
# Mc/sec: 1814.53
//
Query:       PHY93_02110|PHY93_02110  [L=251]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-06   28.3   0.0    3.8e-06   26.5   0.0    1.7  2  ZnuA      Zinc-uptake complex component A periplasmic


Domain annotation for each model (and alignments):
>> ZnuA  Zinc-uptake complex component A periplasmic
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.5   0.0   2.1e-10   3.8e-06      20     102 ..      14     102 ..      10     123 .. 0.70
   2 ?   -0.7   0.0     0.041   7.4e+02      25     194 ..     168     192 ..     128     245 .. 0.53

  Alignments for each domain:
  == domain 1  score: 26.5 bits;  conditional E-value: 2.1e-10
                              CEEEECS-TTSTTTT----HHHHHHHHHSSEEEESSTTTSGTHHHH.HHHHTTCCCEEEE....ETTT.....TCCSEBCSSESTG CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxx....xxxx.....xxxxxxxxxxxxx RF
                     ZnuA  20 vevtvLvppgadpHsyeptprdvrklaeAdllvynglelEtwldkl.lasssqatrvevi....dlse.....gveeeeeeeDpHi 95 
                              ++ ++Lv   +dpH+yep+  +++kl +A +l++   el +w++k+ +++s+   ++++i    d ++     g   ++ e   H+
  PHY93_02110|PHY93_02110  14 IQTESLVSITGDPHEYEPSVMEIKKLISAPILITGPNELNPWIKKInFQRSKI-PNLQTIsilfDQKDyltypG---ANGEALSHF 95 
                              6889****************************************996666653.22233301112222221111...122224577 PP

                              GGSHHHH CS
                              xxxxxxx RF
                     ZnuA  96 Wlspkna 102
                              Wl pk +
  PHY93_02110|PHY93_02110  96 WLYPKVY 102
                              7777655 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.041
                              CS-TTSTTTT----HHHHHHHHHSSEEEESSTTTSGTHHHHHHHHTTCCCEEEEETTTTCCSEBCSSESTGGGSHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     ZnuA  25 LvppgadpHsyeptprdvrklaeAdllvynglelEtwldkllasssqatrvevidlsegveeeeeeeDpHiWlspknaiamvenia 110
                              +v  +++ H+ e+                                                                         
  PHY93_02110|PHY93_02110 168 IVAIKGSGHHEEAN------------------------------------------------------------------------ 181
                              23333333333333........................................................................ PP

                              HHHHHHTGGGHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSGTEGEEEESSSTTHHHHHHTT-EEEEEESSSSSHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     ZnuA 111 daLveadpanadtyeanaaayiekLeeldaeireelaeipeekrklvtthdafgylarayglevagiagisteaaqiaalieei 194
                                                                                                       ++ i+++ +++
  PHY93_02110|PHY93_02110 182 -------------------------------------------------------------------------PESIKKMYNAL 192
                              .........................................................................33333333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (251 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       595  (0.0331865); expected 358.6 (0.02)
Passed bias filter:                      408  (0.0227564); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1681.80
//
Query:       PHY93_02115|PHY93_02115  [L=1734]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1734 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       394  (0.0219756); expected 358.6 (0.02)
Passed bias filter:                      210  (0.0117129); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.93u 0.26s 00:00:01.19 Elapsed: 00:00:00.50
# Mc/sec: 10335.22
//
Query:       PHY93_02120|PHY93_02120  [L=668]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.098   11.9   1.5       0.99    8.7   0.1    2.5  2  DUF3450       Protein of unknown function (DUF3450)
       0.36   11.3   2.8        4.9    7.6   0.5    2.7  2  DUF2681       Protein of unknown function (DUF2681)
        3.4    7.7  12.7       0.23   11.5   5.3    2.8  3  TcpS          Toxin-coregulated pilus protein S
        5.3    7.4  11.3        5.3    7.4   0.5    3.3  3  CpxA_peri     Two-component sensor protein CpxA, periplasmic 
        6.3    7.3  12.8          1    9.9   0.6    3.5  3  DUF16         Protein of unknown function DUF16


Domain annotation for each model (and alignments):
>> DUF3450  Protein of unknown function (DUF3450)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.7   0.1   0.00028      0.99      32      73 ..      37      78 ..       6     111 .. 0.72
   2 ?    1.5   0.1     0.041   1.5e+02      34      66 ..     402     434 ..     390     446 .. 0.72

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 0.00028
                  DUF3450 32 aaqsqkkidklddekqellaeyralkeeleslevyneqlerl 73
                             ++++ ++i+kl++ +q+ ++e+++lk+ +++le++++  e+l
  PHY93_02120|PHY93_02120 37 SEEAKERIKKLNQMTQDDVKEIESLKKNINDLEAKKKIIEDL 78
                             567778888888888888888888888888888777665554 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.041
                  DUF3450  34 qsqkkidklddekqellaeyralkeeleslevy 66 
                              ++ ++++k++++++e+ a++ +l + + +le  
  PHY93_02120|PHY93_02120 402 KVDSEKNKIAEQTSEYRAKLDQLLNHNPKLERI 434
                              456677888888888888888888777777653 PP

>> DUF2681  Protein of unknown function (DUF2681)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.6   0.5    0.0014       4.9      19      72 ..      31      84 ..      27      87 .. 0.89
   2 ?    2.5   0.1     0.055     2e+02      30      56 ..     268     294 ..     257     306 .. 0.87

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.0014
                  DUF2681 19 aylswqlkkarkknaklqaekqqlkvekavaeaevknakvkqkneentrrlsrd 72
                             +++ + ++ a+++++kl++  q    e++  ++++   + k+k+ e ++++  d
  PHY93_02120|PHY93_02120 31 GRKDFCSEEAKERIKKLNQMTQDDVKEIESLKKNINDLEAKKKIIEDLKSIRND 84
                             56666778899************************************9999765 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.055
                  DUF2681  30 kknaklqaekqqlkvekavaeaevkna 56 
                              k na l +e q  ++  +   a+vkn 
  PHY93_02120|PHY93_02120 268 KLNALLGKESQEFQADLKDHYAQVKNQ 294
                              7899999******************95 PP

>> TcpS  Toxin-coregulated pilus protein S
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.1       0.7   2.5e+03       3      23 ..       4      24 ..       1      49 [. 0.70
   2 ?   11.5   5.3   6.5e-05      0.23      26      61 ..      50      85 ..      40     116 .. 0.81
   3 ?   -2.2   0.1       1.1   3.8e+03      35      41 ..     404     410 ..     373     443 .. 0.53

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 0.7
                     TcpS  3 iklkficvsf.Lslsfnvlade 23
                             ik  f  +++ Ls++f ++ de
  PHY93_02120|PHY93_02120  4 IKCVFFLAAYsLSMNFASA-DE 24
                             4566777777799997765.44 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 6.5e-05
                     TcpS 26 vyennyksiesLknkleqLeLkkkileveieikeae 61
                             + ++++k+iesLk+ ++ Le kkki e    i++  
  PHY93_02120|PHY93_02120 50 MTQDDVKEIESLKKNINDLEAKKKIIEDLKSIRNDY 85
                             67999********************99888899876 PP

  == domain 3  score: -2.2 bits;  conditional E-value: 1.1
                     TcpS  35 esLknkl 41 
                              +s knk+
  PHY93_02120|PHY93_02120 404 DSEKNKI 410
                              3444443 PP

>> CpxA_peri  Two-component sensor protein CpxA, periplasmic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   2.1     0.025        89       8      65 ..      37      94 ..      32     121 .. 0.73
   2 ?    7.4   0.5    0.0015       5.3       6      70 ..     279     339 ..     275     349 .. 0.81
   3 ?    0.2   0.0      0.26   9.3e+02      68     104 ..     414     450 ..     401     457 .. 0.66

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.025
                             -HHHHHHHHHHHHHHHHHTSS---HHHHHHHHHH..T---TT--S-EEEEE-TTS-EE CS
                CpxA_peri  8 paeelerlleirdkiekrfseeedlkkilkrleerknrkkkkderlrlfltdldgeil 65
                             ++e  er++++++ +++  +e e+lkk +++le++k+  ++  +  + +l+++++   
  PHY93_02120|PHY93_02120 37 SEEAKERIKKLNQMTQDDVKEIESLKKNINDLEAKKKIIEDLKSIRNDYLSTMESVTS 94
                             4677899***************************988866656666778888877554 PP

  == domain 2  score: 7.4 bits;  conditional E-value: 0.0015
                              E--HHHHHHHHHHHHHHHHHTSS---HHHHHHHHHH..T---TT--S-EEEEE-TTS-EE----S CS
                CpxA_peri   6 dipaeelerlleirdkiekrfseeedlkkilkrleerknrkkkkderlrlfltdldgeilttkkr 70 
                              +  a+  ++  +++++i+ +++  +dl+kil++++++++    ++e +r  + +++ ++lt +++
  PHY93_02120|PHY93_02120 279 EFQADLKDHYAQVKNQISVKYT--TDLSKILNSYNNPSDA--SNNEMNRTIINEKTNQVLTYSEK 339
                              5566666777888888888885..79**********9999..58889999999999999998654 PP

  == domain 3  score: 0.2 bits;  conditional E-value: 0.26
                              --S-HHHHHHHHHHHHH-S-TTS-EEEEETTEEEEEE CS
                CpxA_peri  68 kkradfklkalrnfvtsiespekPkqkLYGrymlaGP 104
                              + + + kl  l n     e++ek kq +  r+m + P
  PHY93_02120|PHY93_02120 414 TSEYRAKLDQLLNHNPKLERIEKLKQYIAQRFMRSCP 450
                              4455555566677777777777777777777776665 PP

>> DUF16  Protein of unknown function DUF16
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.0   1.0      0.02        70      47      84 ..      41      77 ..      33      95 .. 0.57
   2 ?   -1.4   0.3      0.95   3.4e+03      26      46 ..     278     298 ..     272     345 .. 0.52
   3 ?    9.9   0.6   0.00029         1      28      99 ..     370     445 ..     357     447 .. 0.81

  Alignments for each domain:
  == domain 1  score: 4.0 bits;  conditional E-value: 0.02
                             .HHHHHHHHHHHHHHHHHHHHHHHHHHHHH.......H CS
                    DUF16 47 geqinkleqkvekqgekikelkveqkaqgeelnkvdet 84
                             +e+i+kl+q  +   ++i+ lk++++  +++ +k+ e 
  PHY93_02120|PHY93_02120 41 KERIKKLNQMTQDDVKEIESLKKNINDLEAK-KKIIED 77
                             4566666666666666666666666555442.222233 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.95
                              HHB-..BHHHHHHHHHHHH.. CS
                    DUF16  26 nefkdsnkqrLkkieakvdkl 46 
                              +ef+ + k +  +++++++++
  PHY93_02120|PHY93_02120 278 QEFQADLKDHYAQVKNQISVK 298
                              555555555555555555422 PP

  == domain 3  score: 9.9 bits;  conditional E-value: 0.00029
                              B-......BHHHHHHHHHHHH...HHHHHHHHHHHHHHHHHHHHHHHHHHHHH.......HHHHHHHHHHHHHHHH CS
                    DUF16  28 fkds....nkqrLkkieakvdklgeqinkleqkvekqgekikelkveqkaqgeelnkvdetleliletLqkinkRl 99 
                              fk++     + + + +++++++ g +++ l  kv+   +ki e++ e  a+ ++l + +  le i +  q i +R+
  PHY93_02120|PHY93_02120 370 FKKDciisDNLDENVLDNQIAVCGDHVKDLVGKVDSEKNKIAEQTSEYRAKLDQLLNHNPKLERIEKLKQYIAQRF 445
                              555555444444455789999*****************************99999988888888888878777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (668 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2005  (0.11183); expected 358.6 (0.02)
Passed bias filter:                      728  (0.0406046); expected 358.6 (0.02)
Passed Vit filter:                        77  (0.00429472); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.79u 0.28s 00:00:01.07 Elapsed: 00:00:00.49
# Mc/sec: 4108.29
//
Query:       PHY93_02125|PHY93_02125  [L=364]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.5e-66  223.9   0.0    3.4e-66  223.5   0.0    1.1  1  Dus       Dihydrouridine synthase (Dus)


Domain annotation for each model (and alignments):
>> Dus  Dihydrouridine synthase (Dus)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  223.5   0.0   1.9e-70   3.4e-66       2     302 ..      43     341 ..      42     349 .. 0.93

  Alignments for each domain:
  == domain 1  score: 223.5 bits;  conditional E-value: 1.9e-70
                              E---TTTS-HHHHHHHHHTT-SSEEEEEEEE-SSS---HHHHHHH-GGGGGTSCEEEEEE-S-HHHHHHHHHHHHHTT-SCEEEEE CS
                      Dus   2 laPmagvtdlpfRelvrefgataLvvtemvtakaivreekvrirmlseeeeetplavQlggsdpallaeaAklvadlgadeIdlNv 87 
                              laPm+ + + pfR l+  +ga+  +v+e+++ + i +++ ++ +ml+ +++e+ + +Ql+g++p+ +a+aAk++++ g + Id+N+
  PHY93_02125|PHY93_02125  43 LAPMSSIGTAPFRLLMEDLGAG-GTVSELISCHGINYKNIRTTDMLKVDPREKNIGLQLFGENPEAMANAAKVAEEFGPKFIDINM 127
                              9*********************.9************************************************************** PP

                              SSTTEEETTEEEGGGGGGSHHHHHHHHHHHHCCSSS-EEEEEESESSTTTC.HHHHHHHHHHCT-SEEEEESSECCCTT-CG--CH CS
                      Dus  88 GCPskkvtrggaGaaLlrkpdlvaqivkavvkaveiPvtvkirigiddeeenalelakiveaaGaqaltvHgRtraqnyegtadwe 173
                              GCP+kkv + gaG++Ll++  ++ +  ++++k ++iP++vkirig+d+++ na+e+++i+ ++G++++++HgRtr q+y+g a+we
  PHY93_02125|PHY93_02125 128 GCPVKKVVGTGAGSSLLKDTSTLGHFFETIKKSIQIPLSVKIRIGWDQDSINAMEVIHIAHEEGVEFVAIHGRTRSQQYTGLANWE 213
                              ************************************************************************************** PP

                              HHHHHHHH-SS-EEEESS--SHHHHHHHHHHH--SEEEESCHHCCSTTHHHHHHHHHHSC------HHHHHHHHHHHHHHCHHTTC CS
                      Dus 174 aIkevkqavsipviaNGdIkdaedaqaileetGadgvmigrgalgnPwlfaestavktgeaepapplaeeaeiveehlkkleeelg 259
                                +++ ++ ++ +i+NGd  +++ +++ +  t + ++m grg l+nP+lf e  ++k +e     p  + +e++++ +++  +  +
  PHY93_02125|PHY93_02125 214 LLEHLGDKAPLDIIGNGDLHTVNFVREKMLTTKCSALMLGRGPLRNPFLFLE-PYIKADEELFFTP-EDHLEVIQKLVEYSRDYAH 297
                              **************************************************96.4677666666666.6778888888888888877 PP

                              CCCC.CHHHHHHHHHHHHHHTTTTCHHHHHHHHHHHHCCHHCHH CS
                      Dus 260 edkg.lrkirkhlawylkglkkaaelrreleevsdkeealenle 302
                               d   l +irkh+ w+  g ++ + +r+ + +  d +e+ + +e
  PHY93_02125|PHY93_02125 298 SDHTlLISIRKHIIWMAAGYNNVSYFRDLIFKTPDLNETMKISE 341
                              76551679*********************999999988866554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (364 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       403  (0.0224776); expected 358.6 (0.02)
Passed bias filter:                      376  (0.0209716); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.26s 00:00:00.79 Elapsed: 00:00:00.45
# Mc/sec: 2429.64
//
Query:       PHY93_05900|PHY93_05900  [L=301]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.1e-31  109.1   9.6    2.1e-31  109.1   9.6    1.9  2  BPD_transp_1  Binding-protein-dependent transport system inne
  ------ inclusion threshold ------
      0.045   13.5   0.0      0.074   12.8   0.0    1.3  1  SUKH_5        SMI1-KNR4 cell-wall


Domain annotation for each model (and alignments):
>> BPD_transp_1  Binding-protein-dependent transport system inner membrane component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0      0.11     1e+03      22      35 ..      11      24 ..       2      83 .. 0.70
   2 !  109.1   9.6   2.3e-35   2.1e-31       1     183 [.     112     301 .]     112     301 .] 0.98

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.11
             BPD_transp_1 22 pliivllslPsfvl 35
                              +  ++ +l ++ +
  PHY93_05900|PHY93_05900 11 AVLTIFVALTTIFF 24
                             22222222222222 PP

  == domain 2  score: 109.1 bits;  conditional E-value: 2.3e-35
             BPD_transp_1   1 gillGilaalnrnkkldkllrpliivllslPsfvlaillvlvf.........vilsilghlilpviillllsaapyvrlirraalr 77 
                              g++lG+la++++n+ +dk++r+++ + ls+P+f la+llvl+f         + +++l+hl+lp++ l++  +a+++r++r+++l+
  PHY93_05900|PHY93_05900 112 GMFLGLLAGYKKNRGFDKFSRIISLFALSFPIFSLAPLLVLFFsiklnlfpvSEWGDLKHLFLPILSLVIPLSAIIMRVTRNKYLE 197
                              789**************************************99******************************************* PP

             BPD_transp_1  78 slpkdlveaaralGasrwqifrkvvlPnalppiitglilafggllggavlleflgswpGlgtllleailgydyseisnggvlalvi 163
                              +  +++v + +a+G++++ i+   +l+  lp+i+  + +++  ++ g++++e+++  pG+g+ll++ i+++dy+  + g+++  ++
  PHY93_05900|PHY93_05900 198 EAHSQWVMVVKAKGLGEISILL-RILKVCLPTILNIVSIQLSVVIAGTMITETIFDIPGMGSLLFDGIQNRDYPIVQ-GVIIYSTV 281
                              *******************777.789***************************************************.******** PP

             BPD_transp_1 164 avlllnlvadilqrlldprv 183
                               ++l+ +++d +++++dpr+
  PHY93_05900|PHY93_05900 282 TYMLVYFIIDYINEWIDPRT 301
                              ******************95 PP

>> SUKH_5  SMI1-KNR4 cell-wall
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   8.3e-06     0.074      14      61 ..      36      85 ..      24     101 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 8.3e-06
                             .....---HHHHHHHHHHHTS---..HHHHHHHHHC-SEEETTEEE-S-.- CS
                   SUKH_5 14 evlv.lpddeeikeaEekLgikfp..neykeFlkeygdggiggleilgiad 61
                             +vl+ ++++eei ++  +Lg+++p  ++yk Fl    +g + g +i+g++d
  PHY93_05900|PHY93_05900 36 TVLGqKATQEEIIKLKTQLGLNLPlySQYKVFLTGLAKGDL-GKTIFGAKD 85
                             445579**************9999667*********99999.999999988 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (301 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       727  (0.0405488); expected 358.6 (0.02)
Passed bias filter:                      350  (0.0195214); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.25s 00:00:00.82 Elapsed: 00:00:00.47
# Mc/sec: 1915.19
//
Query:       PHY93_02130|PHY93_02130  [L=158]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.6e-19   70.7   0.2    4.2e-16   59.5   0.0    2.1  2  HAD_2           Haloacid dehalogenase-like hydrolase
    1.2e-09   38.8   0.0    9.4e-08   32.6   0.0    2.1  2  Hydrolase       haloacid dehalogenase-like hydrolase
    3.7e-06   26.9   0.1    0.00091   19.0   0.0    2.1  2  Hydrolase_3     haloacid dehalogenase-like hydrolase
    1.8e-05   24.7   0.0    2.7e-05   24.1   0.0    1.3  1  Hydrolase_like  HAD-hyrolase-like
    0.00021   21.8   0.6       0.12   12.8   0.0    2.1  2  HAD             haloacid dehalogenase-like hydrolase
  ------ inclusion threshold ------
      0.016   15.3   0.0      0.035   14.2   0.0    1.5  2  Hydrolase_6     Haloacid dehalogenase-like hydrolase


Domain annotation for each model (and alignments):
>> HAD_2  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.6   0.6    0.0003      0.91       1      15 [.      12      26 ..      12      31 .. 0.83
   2 !   59.5   0.0   1.4e-19   4.2e-16      79     177 ..      29     124 ..      27     125 .. 0.95

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.0003
                    HAD_2  1 iiFDlDgTlldteel 15
                             iiFD DgTl++t  +
  PHY93_02130|PHY93_02130 12 IIFDHDGTLVNTDIF 26
                             8***********866 PP

  == domain 2  score: 59.5 bits;  conditional E-value: 1.4e-19
                    HAD_2  79 kpydgvkelLeeLkeagyklgivTsksreaveekleqlgiesyFdvivtsedvekkKPdpeviekaleklklkkeeviyvGDsptD 164
                              +++ g++elL +Lk+ g++l i T + r++v e  +ql+i ++F+ i + +d + +KP+pe ++k+    +++k+e++ +GDs tD
  PHY93_02130|PHY93_02130  29 TLFIGIRELLIDLKASGLELYIWTARPRRSVIETTSQLEIAHFFTGIFCYDD-GIPKPNPEGLQKLT--GGIDKKEILHIGDSLTD 111
                              5788***********************************************9.8899*******996..599************** PP

                    HAD_2 165 ieaakkagikvia 177
                              +e+a++ gi+v+a
  PHY93_02130|PHY93_02130 112 LEGAHAYGIEVVA 124
                              **********997 PP

>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   0.3     0.014        42       4      16 ..      12      24 ..       9      29 .. 0.84
   2 !   32.6   0.0   3.1e-11   9.4e-08     117     209 ..      28     118 ..      25     119 .. 0.87

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.014
                             EEEESBTTTBCHH CS
                             xxxxxxxxxxxxx RF
                Hydrolase  4 vvfDkdGTLttge 16
                             ++fD dGTL+++ 
  PHY93_02130|PHY93_02130 12 IIFDHDGTLVNTD 24
                             99*******9875 PP

  == domain 2  score: 32.6 bits;  conditional E-value: 3.1e-11
                              HHBHTTHHHHHHHHHHTTEEEEEEESSEHHHHHHHHHHTT.GGGESEEEEHHCESSTTTSHHHHHHHHHHHTSTGGGEEEEESSHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 117 lkvkpeaaeavasLkaagievvlltgdnpetaeraanqlG.ddyfdaviasdietvakpspegkvaaireLqgkpeevamVGDgvn 201
                              ++++ +++e++  Lka g+e+++ t   ++ + ++ +ql  +++f +++++ ++++ kp+peg++++   +  +++e++++GD+++
  PHY93_02130|PHY93_02130  28 YTLFIGIRELLIDLKASGLELYIWTARPRRSVIETTSQLEiAHFFTGIFCY-DDGIPKPNPEGLQKLTGGI--DKKEILHIGDSLT 110
                              56778999********************************66666666666.5568*********999988..6778********* PP

                              HHHHHHHT CS
                              xxxxxxxx RF
                Hydrolase 202 DaaalaaA 209
                              D++++ a 
  PHY93_02130|PHY93_02130 111 DLEGAHAY 118
                              ***99875 PP

>> Hydrolase_3  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.0   0.0     3e-07   0.00091       1      57 [.      12      71 ..      12      79 .. 0.87
   2 !    6.0   0.0    0.0028       8.4     199     218 ..      95     114 ..      88     144 .. 0.77

  Alignments for each domain:
  == domain 1  score: 19.0 bits;  conditional E-value: 3e-07
                             EEEEIIIIIS-TTS-.--..HHHHHHHHHHHHTTSEEEEE-SS-HHHHHHHHHHCCCCSE CS
              Hydrolase_3  1 ialDlDGTLlnsdkk.is..ektkeaikklkekgikvviATGRslravlpvleelgldlp 57
                             i++D DGTL+n d   ++    ++e +  lk+ g ++ i T+R+ r+v++   +l++  +
  PHY93_02130|PHY93_02130 12 IIFDHDGTLVNTDIFpYTlfIGIRELLIDLKASGLELYIWTARPRRSVIETTSQLEIAHF 71
                             89*********999866655789********************************99833 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.0028
                              CT--GGGEEEEESSGGGHHH CS
              Hydrolase_3 199 lnisleeviafGDgeNDieM 218
                               +i+++e++++GD+  D+e 
  PHY93_02130|PHY93_02130  95 GGIDKKEILHIGDSLTDLEG 114
                              589**************985 PP

>> Hydrolase_like  HAD-hyrolase-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.1   0.0   9.1e-09   2.7e-05       4      47 ..      84     124 ..      81     147 .. 0.88

  Alignments for each domain:
  == domain 1  score: 24.1 bits;  conditional E-value: 9.1e-09
                              TTSSHHHHHHHHHH---GGGEEEEES-TTTHHHHHHHCT-EEEE CS
           Hydrolase_like   4 KPepemydfalevlgsdpeevlmiGDrlatDiagAnnaGwksvL 47 
                              KP+pe +        +d++e+l iGD+  tD++gA+++G++ v+
  PHY93_02130|PHY93_02130  84 KPNPEGLQKLTGG--IDKKEILHIGDS-LTDLEGAHAYGIEVVA 124
                              7777777777775..799*********.************9885 PP

>> HAD  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.5   0.6    0.0016       4.8       1      17 [.      12      28 ..      12      34 .. 0.84
   2 !   12.8   0.0   3.9e-05      0.12      89     187 ..      33     115 ..      26     116 .. 0.80

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0016
                      HAD  1 alfDfDgTLldgdslel 17
                             ++fD DgTL+++d +++
  PHY93_02130|PHY93_02130 12 IIFDHDGTLVNTDIFPY 28
                             79**********98774 PP

  == domain 2  score: 12.8 bits;  conditional E-value: 3.9e-05
                      HAD  89 galellaahraaGdrvvvvSgglrplvepllaelgadevlatelevddrltgelglegkpvrgegkvaalrewlaaegegidleev 174
                              g++ell   +a G ++++ ++ +r+ v ++  +l     +a+       +tg   +++++ +    +  l    ++   gid +e+
  PHY93_02130|PHY93_02130  33 GIRELLIDLKASGLELYIWTARPRRSVIETTSQLE----IAH------FFTGIFCYDDGIPKP--NPEGL----QKLTGGIDKKEI 102
                              7889999999*********************9***....***......788885555555555..22333....33666999999* PP

                      HAD 175 vayGDspsDlpll 187
                                +GDs +Dl+ +
  PHY93_02130|PHY93_02130 103 LHIGDSLTDLEGA 115
                              *********9865 PP

>> Hydrolase_6  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   1.2e-05     0.035       1      52 [.      12      67 ..      12      75 .. 0.86
   2 ?   -2.3   0.0       1.7     5e+03      80     100 ..      99     120 ..      87     121 .. 0.65

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 1.2e-05
                             EEEESTTTSEE....TTEE-TTHHHHHHHHHHTT-EEEEEE---SS-HHHHHHHHH CS
              Hydrolase_6  1 flfDidGvLwr....gdkaipgaaealnalraagkpvvllTNnsskseeeyakkle 52
                             ++fD dG+L++     ++++ g  e+l  l+a+g ++++ T + ++s  e   +le
  PHY93_02130|PHY93_02130 12 IIFDHDGTLVNtdifPYTLFIGIRELLIDLKASGLELYIWTARPRRSVIETTSQLE 67
                             69********955556689***********************99999777766665 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 1.7
                              XXEEEEESXH.HHHHHHHHTTX CS
              Hydrolase_6  80 dkkvlvigee.glreelkeagf 100
                              +k +l ig    ++e ++++g+
  PHY93_02130|PHY93_02130  99 KKEILHIGDSlTDLEGAHAYGI 120
                              5667777766556666666666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (158 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       312  (0.017402); expected 358.6 (0.02)
Passed bias filter:                      307  (0.0171231); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.43
# Mc/sec: 1101.76
//
Query:       PHY93_02135|PHY93_02135  [L=480]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.5e-67  225.5   0.6      1e-66  224.4   0.6    1.5  1  SRP54            SRP54-type protein, GTPase domain
    6.7e-29  100.4   9.8    6.7e-29  100.4   9.8    2.9  2  SRP_SPB          Signal peptide binding domain
    2.7e-25   88.4   1.5    2.7e-25   88.4   1.5    3.1  3  SRP54_N          SRP54-type protein, helical bundle domain
    9.8e-06   25.9   0.0    2.2e-05   24.7   0.0    1.5  1  AAA_22           AAA domain
    4.5e-05   23.5   0.0    0.00017   21.7   0.0    2.1  1  CbiA             CobQ/CobB/MinD/ParA nucleotide binding domai
    0.00096   19.1   0.0     0.0017   18.3   0.0    1.4  1  NACHT            NACHT domain
     0.0018   17.6   0.0     0.0035   16.6   0.0    1.5  1  Zeta_toxin       Zeta toxin
     0.0019   18.4   0.0     0.0039   17.4   0.0    1.5  1  AAA_33           AAA domain
      0.006   16.4   0.3      0.016   15.0   0.3    1.9  1  ATP_bind_1       Conserved hypothetical ATP binding protein
     0.0066   15.8   0.1       0.02   14.2   0.1    1.8  1  ATPase           KaiC
     0.0072   16.3   0.1     0.0072   16.3   0.1    2.3  3  AAA_31           AAA domain
  ------ inclusion threshold ------
      0.011   15.4   0.1      0.024   14.3   0.1    1.5  1  AAA_30           AAA domain
      0.025   14.3   0.2      0.088   12.5   0.0    2.1  2  Thymidylate_kin  Thymidylate kinase
      0.031   13.5   0.1      0.057   12.6   0.1    1.4  1  DUF2075          Uncharacterized conserved protein (DUF2075)
      0.044   13.5   0.0       0.16   11.7   0.0    1.9  1  AAA_24           AAA domain
      0.066   13.2   0.1        1.9    8.5   0.0    3.0  3  AAA_5            AAA domain (dynein-related subfamily)
      0.072   13.0   2.4        6.6    6.6   0.2    2.6  2  NTPase_1         NTPase
        0.1   12.6   4.0       0.11   12.4   0.8    2.6  2  ResIII           Type III restriction enzyme, res subunit
       0.12   12.8   0.5       0.91    9.9   0.0    2.7  4  RNA_helicase     RNA helicase
       0.16   12.5   0.0       0.44   11.0   0.0    1.7  1  KAsynt_C_assoc   Ketoacyl-synthetase C-terminal extension
          2    7.5   9.1       0.18   10.9   0.2    3.1  2  ArsA_ATPase      Anion-transporting ATPase


Domain annotation for each model (and alignments):
>> SRP54  SRP54-type protein, GTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  224.4   0.6   1.2e-69     1e-66       4     195 ..     103     297 ..     101     298 .. 0.97

  Alignments for each domain:
  == domain 1  score: 224.4 bits;  conditional E-value: 1.2e-69
                              EEEEESTTSSHHHHHHHHHHHHHHT.TS-EEEEEESTSSTTHHHHHHHHHHHTTEEEEESSTTSCHHHHHHHHHHHHHHTTSSEEE CS
                    SRP54   4 illvGlqGaGKTttlaKLaallkke.gkkvllvaaDtfRaaAveQLktlaeklgvpvikkkeeadpaavakeavekakeekidvvl 88 
                              il+vGl+G GKTt  +KLa +lk++ +k+vllv aDtfR+aA  QL+tla++++v++++++   +p +++ +a+e a++++ +vv+
  PHY93_02135|PHY93_02135 103 ILVVGLNGQGKTTFSGKLALHLKNKkKKDVLLVPADTFRPAAKAQLETLAKQIDVECYDSDLSLHPKEIVLKAIEYAQKHHKNVVI 188
                              89********************9997899********************************************************* PP

                              EEE--SSTTHHHHHHHHHHHHHHH..SSSEEEEEEETTBHTHHHHHHHHHHHHSSCSEEEEESTTSSSSTTHHHHHHHHHTS-EEE CS
                    SRP54  89 vDTaGrlqndkelmeelkkikkvv..kpdevllvldattgqeavkqakaFkeavgitgviltklDgdakgGaalsiaaelklPikf 172
                              +DTaGrl+ d+elm +lk++k ++   + evl+v da+tgqeav+  k+F+ea+g+tg++l+k+D+dakgGaalsi++ +++Pi++
  PHY93_02135|PHY93_02135 189 IDTAGRLHVDEELMGQLKEVKAALdsFKPEVLMVADAMTGQEAVNVSKTFHEAIGVTGIVLSKMDSDAKGGAALSIRHVTGVPIRY 274
                              ************************665669******************************************************** PP

                              EE-SSSTTGEEE--HHHHHHHHH CS
                    SRP54 173 igvGekiedleefdperlvsrll 195
                              +++Gek++dle f+p+rl++r+l
  PHY93_02135|PHY93_02135 275 VSMGEKMKDLELFHPDRLAKRIL 297
                              **********************9 PP

>> SRP_SPB  Signal peptide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.0       1.1   9.3e+02      46      66 ..     218     238 ..     195     281 .. 0.78
   2 !  100.4   9.8   7.9e-32   6.7e-29       1      99 []     329     429 ..     329     429 .. 0.94

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 1.1
                              HHHHHHTTSBHHHHHSGCG-. CS
                  SRP_SPB  46 rieaiidSMTkeErdspekll 66 
                              ++ ++ d+MT +E  + +k++
  PHY93_02135|PHY93_02135 218 EVLMVADAMTGQEAVNVSKTF 238
                              456778999999998887776 PP

  == domain 2  score: 100.4 bits;  conditional E-value: 7.9e-32
                              SSCTHHHHHHHHHHHCCCCCCHHHHCCC........H...CCCCCHHHHHHHHHTTSBHHHHHSGCG-..HHHHHHHHHHTTS-HH CS
                  SRP_SPB   1 eftlrdlleqlqqikkmGplskllsmiPgmsae...akaeeeaekklkrieaiidSMTkeErdspekllkesRkrRiArGsGtsvq 83 
                              +ft++d+l+q++++++mG+++++l+miPgm+ +    ++ + ae+++k++++ii+SMTk+Er++ + ++kesR +RiA+GsG + +
  PHY93_02135|PHY93_02135 329 KFTVDDFLKQMEMMSSMGSMTSILKMIPGMGGMlrqLGDLSPAENEMKKMKVIISSMTKDERQNYK-VIKESRLKRIASGSGSTEE 413
                              69****************************99976533347789**********************.888**************** PP

                              HHHHHHHHHHHHHHHT CS
                  SRP_SPB  84 evnellkqfeqmkkmm 99 
                               v+++l +f+qm++mm
  PHY93_02135|PHY93_02135 414 AVKDFLGKFKQMEQMM 429
                              ***************9 PP

>> SRP54_N  SRP54-type protein, helical bundle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.4   1.5   3.1e-28   2.7e-25       1      75 []       5      82 ..       5      82 .. 0.97
   2 ?   -1.5   0.0       3.5     3e+03      17      34 ..     196     212 ..     189     212 .. 0.82
   3 ?   -1.6   0.0       3.8   3.2e+03       9      28 ..     401     420 ..     383     424 .. 0.74

  Alignments for each domain:
  == domain 1  score: 88.4 bits;  conditional E-value: 3.1e-28
                             HHHHHHHHHHHHCCSSCGHHHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHCTTS...S-HHHHHHHHHHHHH CS
                  SRP54_N  1 LgkklnsalkklsgkskideedleealkeleeaLleaDVgvkvvkklienvkkkavgekk...lkpkqqvkkivkdeL 75
                             L++k+++a+k ++gkski+e+++ee+lke+++aLleaDV++kvvk++i+ vk+ka+gek    ++p++q++ki +deL
  PHY93_02135|PHY93_02135  5 LSEKFSNAFKYVQGKSKISEDNIEETLKEVRTALLEADVNFKVVKEFIAAVKEKAIGEKVikgVNPGEQFVKIMHDEL 82
                             799******************************************************55599999************8 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 3.5
                              CGHHHHHHHHHHHHHHHH CS
                  SRP54_N  17 kideedleealkeleeaL 34 
                               +dee++ + lke++ aL
  PHY93_02135|PHY93_02135 196 HVDEELMGQ-LKEVKAAL 212
                              689999999.99999998 PP

  == domain 3  score: -1.6 bits;  conditional E-value: 3.8
                              HHHHCCSSCGHHHHHHHHHH CS
                  SRP54_N   9 lkklsgkskideedleealk 28 
                              lk++ ++s  +ee+++++l 
  PHY93_02135|PHY93_02135 401 LKRIASGSGSTEEAVKDFLG 420
                              34555566678888888765 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.7   0.0   2.6e-08   2.2e-05       8     120 ..     103     214 ..     102     224 .. 0.79

  Alignments for each domain:
  == domain 1  score: 24.7 bits;  conditional E-value: 2.6e-08
                   AAA_22   8 lvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsst.sskdllrellralglelka...erlsseellealeqalrar 89 
                              ++v+G  G GKTt   +l+  l++      ++++v++v +       k  l+ l++++++e+ +   + + +e +l+a+e a +++
  PHY93_02135|PHY93_02135 103 ILVVGLNGQGKTTFSGKLALHLKNK-----KKKDVLLVPADTFRpAAKAQLETLAKQIDVECYDsdlSLHPKEIVLKAIEYAQKHH 183
                              79*******************9765.....588888888888886677779*************9977777777778777777777 PP

                   AAA_22  90 avielliiDEaqhlrs.....eealeeLrsllnlsr 120
                              +   ++iiD a +l +     + +l+e++  l+  +
  PHY93_02135|PHY93_02135 184 KN--VVIIDTAGRL-HvdeelMGQLKEVKAALD--S 214
                              77..**********.444467777777776666..4 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.7   0.0     2e-07   0.00017       9      88 ..     110     256 ..     103     403 .. 0.82

  Alignments for each domain:
  == domain 1  score: 21.7 bits;  conditional E-value: 2e-07
                              TSSHHHHHHHHHHHHHH.TT--EEEEEEEESSCCCCH.HTTEB-HHHH...................................... CS
                              xxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxx.xxxxxxxxxx...................................... RF
                     CbiA   9 GvGKTtlaanLaralar.rglrVllvDaDpqannlai.leglendiep...................................... 54 
                              G GKTt++ +La  l++ ++++Vllv aD+ +++++  le+l ++i+                                       
  PHY93_02135|PHY93_02135 110 GQGKTTFSGKLALHLKNkKKKDVLLVPADTFRPAAKAqLETLAKQIDVecydsdlslhpkeivlkaieyaqkhhknvviidtagrl 195
                              89*************997899**************988555555555577************************************ PP

                              ............................CCHCCCHHHHHHCHCHHHH..EEEEEEEEESS.. CS
                              ............................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     CbiA  55 ............................dlkrllellealgkkkalllkiagvvlnrvdgen 88 
                                                          d+  + e + +++k++  ++ + g+vl + d+++
  PHY93_02135|PHY93_02135 196 hvdeelmgqlkevkaaldsfkpevlmvaDAMTGQEAV-NVSKTFHEAIGVTGIVLSKMDSDA 256
                              *************************999555544444.455555555777777777777763 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.0     2e-06    0.0017       3      94 ..     103     196 ..     101     221 .. 0.74

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 2e-06
                              EEEEC-TTTCHHHHHHHHHHHHCTS-SCCCC-SEEEEEETTTTTTS-.....-HCHHHCCCCTS--SSS-C.....CHHHHCCSCC CS
                    NACHT   3 vilqGeaGsGKTtLlqklalawaegklpqgafklvFflslrelsrsgna..rsladllfsqlpepaapvse.....vwavllelpe 81 
                              +++ G +G+GKTt+  klal ++ +k +      v++++  +++   +a   +la+++  ++ ++     +     + ++ ++  +
  PHY93_02135|PHY93_02135 103 ILVVGLNGQGKTTFSGKLALHLKNKKKKD-----VLLVPADTFRPAAKAqlETLAKQIDVECYDSDLSLHPkeivlKAIEYAQKHH 183
                              899*********************99555.....7888888888888887778888885555544433333367666666677777 PP

                              CEEEEEE-STT-S CS
                    NACHT  82 rlLlilDglDelv 94 
                              + + i+D + +l+
  PHY93_02135|PHY93_02135 184 KNVVIIDTAGRLH 196
                              7778888776665 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   4.1e-06    0.0035      18     118 ..     102     206 ..      84     227 .. 0.81

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 4.1e-06
               Zeta_toxin  18 lillgGqpGAGKselaellkdele..rqgnvvrldpDdlRelhPeyeeilka..dpkkaseltqkdaselvekllqeaiengynii 99 
                               il++G  G GK++ + +l+  l+  ++++v+ + +D++R+      e l++  d++ + +  +   +e+v k++++a ++  n++
  PHY93_02135|PHY93_02135 102 PILVVGLNGQGKTTFSGKLALHLKnkKKKDVLLVPADTFRPAAKAQLETLAKqiDVECYDSDLSLHPKEIVLKAIEYAQKHHKNVV 187
                              4899*****************9999899************9998777766654899999999**********************98 PP

               Zeta_toxin 100 vegtlrspdvvkklaealk 118
                              +  t    +v ++l+ +lk
  PHY93_02135|PHY93_02135 188 IIDTAGRLHVDEELMGQLK 206
                              7777677777777777666 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.0   4.5e-06    0.0039       2      77 ..     103     191 ..     103     218 .. 0.74

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 4.5e-06
                   AAA_33   2 vllvGlpGsGKstlaerllkklg......avllssdtlrrrlfg...tdqqskt...dytrvldrlyqilnelarkalsagrn.vi 74 
                              +l+vGl+G GK+t++ +l+ +l+      + l+  dt+r + ++   t  +++    + ++++ + ++i+ + ++ a+++ +n vi
  PHY93_02135|PHY93_02135 103 ILVVGLNGQGKTTFSGKLALHLKnkkkkdVLLVPADTFRPAAKAqleTLAKQIDvecYDSDLSLHPKEIVLKAIEYAQKHHKNvVI 188
                              689**************976666667998889999999988887444222222244466666666788999999999999999445 PP

                   AAA_33  75 lda 77 
                              +d 
  PHY93_02135|PHY93_02135 189 IDT 191
                              554 PP

>> ATP_bind_1  Conserved hypothetical ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.3   1.8e-05     0.016       1     137 [.     105     230 ..     105     354 .. 0.75

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 1.8e-05
               ATP_bind_1   1 vvGpaGsGKttfvgalseilelrg.rsvavvNLD...PAaeelpYeaavdi.relitledvmedlglgpngalvvaleflresldw 81 
                              vvG  G GKttf g+l+ +l++++ ++v +v  D   PAa+     a++++  + i++e  + dl l p+  +  a+e+ +++   
  PHY93_02135|PHY93_02135 105 VVGLNGQGKTTFSGKLALHLKNKKkKDVLLVPADtfrPAAK-----AQLETlAKQIDVECYDSDLSLHPKEIVLKAIEYAQKHH-- 183
                              89*****************9987413455554442223333.....333331456788888899**************999996.. PP

               ATP_bind_1  82 ldeelekeeddyllfDtPGQielft.hseslakiveeLesefalvvvyLvDsqrltd 137
                                +++       +++Dt G + +   ++ +l+++  +L  +f++ v++++D+ + ++
  PHY93_02135|PHY93_02135 184 --KNV-------VIIDTAGRLHVDEeLMGQLKEVKAALD-SFKPEVLMVADAMTGQE 230
                              ..333.......677777776665424455555556666.46666666666655555 PP

>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.2   0.1   2.4e-05      0.02      22     183 ..     103     269 ..      98     286 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 2.4e-05
                   ATPase  22 vlitGepGtGKtifalqFlikgaekygepgvfvtveepaedlrenaksl..Gwdlekleeegklaiidasesaeesaee....kdk 101
                              +l++G  G+GKt+f+ + +++  +k+ + +++v  +    + + + ++l   +d+e + +  +l   +++ +a+e+a++       
  PHY93_02135|PHY93_02135 103 ILVVGLNGQGKTTFSGKLALHLKNKKKKDVLLVPADTFRPAAKAQLETLakQIDVECYDSDLSLHPKEIVLKAIEYAQKhhknVVI 188
                              89*******************99999*******99987744444444331145566666665566666666655555544222333 PP

                   ATPase 102 edleelieelaeaikeikakrvviDsitglayeekeavaReilrqlvrvl.kklgvTailvsekssseeaaggygveefivdg 183
                               d+   ++  +e + ++k+ +  +Ds ++      +a++ ++  ++ +++ + +gvT i  s ++s++++     + +  v+g
  PHY93_02135|PHY93_02135 189 IDTAGRLHVDEELMGQLKEVKAALDSFKPEVLMVADAMTGQEAVNVSKTFhEAIGVTGIVLSKMDSDAKGGAALSIRH--VTG 269
                              33333333335777777777889*****9988888888888888888888799**********999988888888888..655 PP

>> AAA_31  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.1       1.5   1.3e+03      65     103 ..      18      58 ..       4      80 .. 0.63
   2 !   16.3   0.1   8.4e-06    0.0072      12     102 ..     110     206 ..     107     222 .. 0.70
   3 ?   -2.5   0.1         5   4.3e+03      82     101 ..     367     386 ..     311     400 .. 0.59

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 1.5
                   AAA_31  65 eeknikeaiiktkvenl..dlipssidLaeaeielvelekk 103
                               +++i+e  i+++ +++   l+ +++++  ++  ++ +++k
  PHY93_02135|PHY93_02135  18 GKSKISEDNIEETLKEVrtALLEADVNFKVVKEFIAAVKEK 58 
                              45556665555554444458888888887777666555554 PP

  == domain 2  score: 16.3 bits;  conditional E-value: 8.4e-06
                   AAA_31  12 GvGKTTtsvnlaaala.klgkkvLlvDlDpQanatt.glgiekneiektlyev...li.eeknikeaiiktkvenldlipssidLa 91 
                              G GKTT s +la  l  k++k vLlv +D+   a+  +l++  ++i+ + y+    l  +e+ +k + + +k++++ +i  +    
  PHY93_02135|PHY93_02135 110 GQGKTTFSGKLALHLKnKKKKDVLLVPADTFRPAAKaQLETLAKQIDVECYDSdlsLHpKEIVLKAIEYAQKHHKNVVIIDTAGRL 195
                              88**************566666*******988776525666678888888877444344777777777766766665555555555 PP

                   AAA_31  92 eaeielvelek 102
                              +++ el++  k
  PHY93_02135|PHY93_02135 196 HVDEELMGQLK 206
                              67777765544 PP

  == domain 3  score: -2.5 bits;  conditional E-value: 5
                   AAA_31  82 dlipssidLaeaeielvele 101
                              dl p++ ++ ++++ + +++
  PHY93_02135|PHY93_02135 367 DLSPAENEMKKMKVIISSMT 386
                              34444444444444444443 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.1   2.8e-05     0.024      22     110 ..     104     207 ..     100     251 .. 0.71

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 2.8e-05
                   AAA_30  22 vltGpAGtGKttalkalreaweaa.ggrvigl.AptgkaAkvLa.....eelgieastiakllkrlk......grarlepgtlliv 94 
                              +++G  G GKtt  ++l+ +++++ +++v+++ A t + A++ +     +++++e++  +  l+  +      + a+ ++++++i+
  PHY93_02135|PHY93_02135 104 LVVGLNGQGKTTFSGKLALHLKNKkKKDVLLVpADTFRPAAKAQletlaKQIDVECYDSDLSLHPKEivlkaiEYAQKHHKNVVII 189
                              689**************99999995677764326665544443322322677778877777777777****9966788899***** PP

                   AAA_30  95 DEagmv..dtkqlaallk 110
                              D ag +  d + + +l +
  PHY93_02135|PHY93_02135 190 DTAGRLhvDEELMGQLKE 207
                              ***987556666666543 PP

>> Thymidylate_kin  Thymidylate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0    0.0001     0.088       3      51 ..     107     156 ..     105     192 .. 0.83
   2 ?   -3.3   0.1       6.9   5.9e+03     128     157 ..     397     424 ..     394     429 .. 0.73

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 0.0001
                              ESTTSSHHHHHHHHHHHHHHTTE..EEEESSSTTSHHHHHHHHHHHTCS- CS
          Thymidylate_kin   3 GlDGaGKttqaellkerlkeegik.vvltrepggteiGekirelllkeee 51 
                              Gl+G GKtt++ +l+ +lk++++k v+l + +++ + ++   e l k+ +
  PHY93_02135|PHY93_02135 107 GLNGQGKTTFSGKLALHLKNKKKKdVLLVPADTFRPAAKAQLETLAKQID 156
                              9***********************99999888888888777666665555 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 6.9
                              HHHHHTSCCTTSSTTTSHHHHHHHHHHHHH CS
          Thymidylate_kin 128 pevalkRlakrdeldeeeeeqldflrkvre 157
                              +e +lkR+a ++   ++ee  +dfl k+++
  PHY93_02135|PHY93_02135 397 KESRLKRIASGSG--STEEAVKDFLGKFKQ 424
                              5778999999888..677777777777776 PP

>> DUF2075  Uncharacterized conserved protein (DUF2075)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.1   6.7e-05     0.057       4     110 ..     103     205 ..     101     229 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 6.7e-05
                  DUF2075   4 vlVtGvaGtGKtvvllnllaeleddeeertavylsvNhplvlvlrealakkeekkkkkeafeklssfinnlsefkkaeekkeepke 89 
                              +lV G  G GKt    +l+  l  ++++++ v+l+    ++ + + +l+  +  k+++ +  +++   ++ +   ka+e +++ + 
  PHY93_02135|PHY93_02135 103 ILVVGLNGQGKTTFSGKLALHL--KNKKKKDVLLVPADTFRPAAKAQLETLA--KQIDVECYDSDLSLHPKEIVLKAIEYAQKHHK 184
                              7899******************..************************7777..6666666666666665554499999******* PP

                  DUF2075  90 dvvivDEAhrlltksdqaekq 110
                              +vvi+D A rl   ++   + 
  PHY93_02135|PHY93_02135 185 NVVIIDTAGRLHVDEELMGQL 205
                              **********99865554444 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00019      0.16       5      91 ..     103     207 ..     101     219 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00019
                   AAA_24   5 iliyGpsgiGKTtlakel........gpkplfidtekGlksldadkfpdieswedfldevvel...................aael 63 
                              il++G +g GKTt+  +l        ++++l++  +  ++    +      ++e++ ++++                     +a++
  PHY93_02135|PHY93_02135 103 ILVVGLNGQGKTTFSGKLalhlknkkKKDVLLVPADT-FRPAAKA------QLETLAKQIDVEcydsdlslhpkeivlkaieYAQK 181
                              899***************8888998888888885555.2222222......23333333333344455677777777778888888 PP

                   AAA_24  64 adyktlviDtideleelclaevirqnek 91 
                              ++ ++++iDt++ l  ++++e++ q + 
  PHY93_02135|PHY93_02135 182 HHKNVVIIDTAGRL--HVDEELMGQLKE 207
                              888*********99..888888877765 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.0      0.82     7e+02      18      45 ..       4      31 ..       1      61 [. 0.80
   2 ?    8.5   0.0    0.0022       1.9       2      77 ..     103     195 ..     102     220 .. 0.71
   3 ?   -0.1   0.0      0.97   8.2e+02      18      89 ..     263     352 ..     256     398 .. 0.55

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.82
                             HGGGGBS--EEEEE--TT--HHHHH--B CS
                    AAA_5 18 rlaaalnreveyvqltrdtteedlkgrr 45
                              l++ + + + yvq++++++e+++   +
  PHY93_02135|PHY93_02135  4 TLSEKFSNAFKYVQGKSKISEDNIEETL 31
                             68888999999**********9998765 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.0022
                              EEEE--SSSSHHHHHHHGGGGB..S--EEEEE--TT--H.......HHHH--B--...........--------......G-SEEE CS
                    AAA_5   2 vlLvGppGtgKselaerlaaal..nreveyvqltrdtte.......edlkgrreik..ngttslvdsplvraar......egeilv 70 
                              +l+vG  G gK++++ +la  l  +++  + + ++dt +       e+l  +++++  +++ sl+++++v +a       ++ +++
  PHY93_02135|PHY93_02135 103 ILVVGLNGQGKTTFSGKLALHLknKKKKDVLLVPADTFRpaakaqlETLAKQIDVEcyDSDLSLHPKEIVLKAIeyaqkhHKNVVI 188
                              799*******************9855566666666664411222225566666666888888888888886666788888777777 PP

                              EESGGG- CS
                    AAA_5  71 lDEvera 77 
                              +D   r+
  PHY93_02135|PHY93_02135 189 IDTAGRL 195
                              7755554 PP

  == domain 3  score: -0.1 bits;  conditional E-value: 0.97
                              HGGGGBS--EEEEE--TT--HHHHH--B--.........-.-------................G-SEEEEESGGG--.HHHHHHH CS
                    AAA_5  18 rlaaalnreveyvqltrdtteedlkgrreikngttslvds.plvraar................egeilvlDEverae.sevlnsL 85 
                              ++ ++++ ++ yv + ++++  +l+ + +++++   + d  +lv++a+                +g+ +v+D ++++e  + ++s+
  PHY93_02135|PHY93_02135 263 SIRHVTGVPIRYVSMGEKMKDLELFHPDRLAKRILDMGDVlSLVEKAQeninesdaesmmqnfqKGKFTVDDFLKQMEmMSSMGSM 348
                              56666677777777777777777776666654433333321344444434444444444444446666666655555555555555 PP

                              HHHH CS
                    AAA_5  86 lsll 89 
                               s+l
  PHY93_02135|PHY93_02135 349 TSIL 352
                              5555 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   0.2     0.016        14       2      26 ..     103     127 ..     102     132 .. 0.88
   2 ?    6.6   0.2    0.0077       6.6      82     133 ..     169     223 ..     144     251 .. 0.74

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.016
                              EEEE--TTSSHHHHHHHHHHHH... CS
                 NTPase_1   2 vfiTGppGvGKtTlvkkvlellkss 26 
                              +++ G  G+GKtT+  k++  lk++
  PHY93_02135|PHY93_02135 103 ILVVGLNGQGKTTFSGKLALHLKNK 127
                              678999*************999887 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.0077
                              HHHHHHHHHHHH.HHH-EEEE---STTGGG-HHHH..HHHHHHHTTTSEEEEE-- CS
                 NTPase_1  82 eelalealrkal.seadviviDEiGkmElkskkfk..eaveevLksekpvlavih 133
                              +e++l+a++ a+ ++++v++iD  G++ +  + +   ++v+ +L+s kp +  + 
  PHY93_02135|PHY93_02135 169 KEIVLKAIEYAQkHHKNVVIIDTAGRLHVDEELMGqlKEVKAALDSFKPEVLMVA 223
                              6899999*999967788*********98877766511579999997666555544 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.8   0.00013      0.11      26     120 ..     102     201 ..      42     226 .. 0.69
   2 ?   -1.2   0.1       2.1   1.8e+03      64      96 ..     303     338 ..     282     418 .. 0.55

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.00013
                              EEEEEESTTSTHHHHHHHHHHHH-S.....-EEEEESSHHHHHHHHHHGGGGTGG..............GEEEESSS-B--..... CS
                   ResIII  26 rglikmaTGtGKTlvaaklierllkkgkeekflflvprkslleqtleefkkflseayke..........igkkvsgdkkkakekds 101
                               +l++   G GKT  + kl+ +l++k+k  k ++lvp  +    ++ +++ ++++ + e          ++ +++  ++   +++ 
  PHY93_02135|PHY93_02135 102 PILVVGLNGQGKTTFSGKLALHLKNKKK--KDVLLVPADTFRPAAKAQLETLAKQIDVEcydsdlslhpKEIVLKAIEY---AQKH 182
                              56777888*****************966..8888899888888777766555544433333335665333333333333...4466 PP

                              ..-SEEEEEHHHHHHTH.. CS
                   ResIII 102 tnkkilvttiqsldadsee 120
                              +++ +++ t  +l+ d+e 
  PHY93_02135|PHY93_02135 183 HKNVVIIDTAGRLHVDEEL 201
                              6666777777777777644 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 2.1
                              HHHHHHHHHHGGGGTGG.......GEEEESSS-B-- CS
                   ResIII  64 kslleqtleefkkflseayke...igkkvsgdkkka 96 
                              +sl+e+++e++++   e  ++   +gk++ +d  k+
  PHY93_02135|PHY93_02135 303 LSLVEKAQENINESDAESMMQnfqKGKFTVDDFLKQ 338
                              566666666664444444333333333333333333 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0       7.3   6.2e+03      15      15 ..      48      48 ..      17      92 .. 0.47
   2 ?    9.9   0.0    0.0011      0.91       1      32 [.     103     130 ..     103     147 .. 0.81
   3 ?   -1.8   0.0       4.7     4e+03      49      86 ..     183     221 ..     176     231 .. 0.70
   4 ?   -2.4   0.0       7.3   6.2e+03      44      62 ..     322     339 ..     292     358 .. 0.55

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 7.3
             RNA_helicase 15 a 15
                             +
  PHY93_02135|PHY93_02135 48 V 48
                             2 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 0.0011
             RNA_helicase   1 iwlyGpsgeGKStlakeLakallkklklkkkd 32 
                              i+++G +g+GK+t++ +La +l +k     k+
  PHY93_02135|PHY93_02135 103 ILVVGLNGQGKTTFSGKLALHLKNKK----KK 130
                              6799*************998888544....33 PP

  == domain 3  score: -1.8 bits;  conditional E-value: 4.7
             RNA_helicase  49 gqevvvidDfgqvkdee.npsdlaelirlvsstpyplnm 86 
                              +++vv+id  g+ + +e    +l+e+  + +s++ ++ m
  PHY93_02135|PHY93_02135 183 HKNVVIIDTAGRLHVDEeLMGQLKEVKAALDSFKPEVLM 221
                              567788888888775553555888888877777777666 PP

  == domain 4  score: -2.4 bits;  conditional E-value: 7.3
             RNA_helicase  44 wdgYtgqevvvidDfgqvk 62 
                              +++++ +    +dDf ++ 
  PHY93_02135|PHY93_02135 322 MQNFQ-KGKFTVDDFLKQM 339
                              33333.3334456665554 PP

>> KAsynt_C_assoc  Ketoacyl-synthetase C-terminal extension
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   0.00052      0.44      40      87 ..     379     428 ..     376     437 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00052
           KAsynt_C_assoc  40 HviLksnkkekrkeesk..eeslprLlvlsgrteeaveallekleehlld 87 
                               vi+ s +k +r++ +   e++l+r+   sg teeav+++l k++++++ 
  PHY93_02135|PHY93_02135 379 KVIISSMTKDERQNYKVikESRLKRIASGSGSTEEAVKDFLGKFKQMEQM 428
                              6888888888888777788999**********************999765 PP

>> ArsA_ATPase  Anion-transporting ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.2   0.00021      0.18       4      42 ..     103     139 ..     101     216 .. 0.70
   2 ?   -1.7   3.7       1.5   1.3e+03     152     179 ..     322     349 ..     268     436 .. 0.66

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00021
                              EEEEESTTSSHHHHHHHHHHHHHHTT.S-EEEEE-STTTH CS
              ArsA_ATPase   4 ilvgGKGGVGKttvsaatavklsekg.kkvllistDPAhs 42 
                              ilv G  G GKtt s  +a++l +k+ k+vll+  D    
  PHY93_02135|PHY93_02135 103 ILVVGLNGQGKTTFSGKLALHLKNKKkKDVLLVPAD---T 139
                              7899999**************987651567777555...3 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 1.5
                              HHHHHHHHHHHHHHHHHHCCCSHCHHHH CS
              ArsA_ATPase 152 leklvklkeklsplakqlvkllglggvs 179
                              ++++ k k ++ +++kq+  ++++g+++
  PHY93_02135|PHY93_02135 322 MQNFQKGKFTVDDFLKQMEMMSSMGSMT 349
                              3333333334444444443333333322 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (480 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1180  (0.0658152); expected 358.6 (0.02)
Passed bias filter:                      768  (0.0428356); expected 358.6 (0.02)
Passed Vit filter:                        84  (0.00468515); expected 17.9 (0.001)
Passed Fwd filter:                        23  (0.00128284); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              21  [number of targets reported over threshold]
# CPU time: 0.76u 0.33s 00:00:01.09 Elapsed: 00:00:00.49
# Mc/sec: 2922.63
//
Query:       PHY93_02140|PHY93_02140  [L=79]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.4e-17   63.5   0.0    1.6e-17   63.3   0.0    1.1  1  Ribosomal_S16  Ribosomal protein S16


Domain annotation for each model (and alignments):
>> Ribosomal_S16  Ribosomal protein S16
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.3   0.0   9.1e-22   1.6e-17       1      62 []       8      66 ..       8      66 .. 0.90

  Alignments for each domain:
  == domain 1  score: 63.3 bits;  conditional E-value: 9.1e-22
                             EESCTTCEEEEEEEEETTSSTTSSESEEEEEEETTTTSSTS.SEEE-HHHHHHHHHTTEEEE CS
            Ribosomal_S16  1 RfGrknrPfYrivvadsrkprdgrpiEklGtYdPlakkkekkevelneerikyWlgvGAqpt 62
                             R Grkn P+Y ivv+dsrk rdg ++EklG Y+P +     +  +++++r+k  +++GA ++
  PHY93_02140|PHY93_02140  8 RGGRKNDPVYTIVVTDSRKSRDGGFLEKLGQYNPKDA---AALKNVKVDRLKVLMSKGATIS 66
                             89********************************433...33469**************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (79 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       453  (0.0252663); expected 358.6 (0.02)
Passed bias filter:                      343  (0.019131); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.45
# Mc/sec: 528.33
//
Query:       PHY93_02145|PHY93_02145  [L=77]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.4e-22   76.8   1.1    9.2e-22   76.7   1.1    1.0  1  KH_4      KH domain
     0.0022   17.8   0.1     0.0033   17.2   0.1    1.3  1  KH_1      KH domain
  ------ inclusion threshold ------
      0.019   14.8   0.2      0.022   14.6   0.2    1.2  1  KH_2      KH domain


Domain annotation for each model (and alignments):
>> KH_4  KH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.7   1.1   1.5e-25   9.2e-22       1      73 []       5      77 .]       5      77 .] 0.97

  Alignments for each domain:
  == domain 1  score: 76.7 bits;  conditional E-value: 1.5e-25
                     KH_4  1 kelvedilkalvddpeevevteeeeeeeveielnvegedlGrvIGkrGrtldAlqylvsaaankegkrvrvei 73
                             k+l+ ++ kalvd pe+v+v+e  +e++++iel+v++ dlG++IGk+Grt+++l+++++aa +k +kr  +ei
  PHY93_02145|PHY93_02145  5 KDLIAYVSKALVDMPEAVSVNEIVGEQTTVIELKVDKTDLGKIIGKQGRTARSLRTILNAASTKLKKRSVLEI 77
                             689****************************************************************999887 PP

>> KH_1  KH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.1   5.5e-07    0.0033       2      28 ..      35      61 ..      34      73 .. 0.88

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 5.5e-07
                             EEEEEGGGHHHHHHTGGGHHHHHHHHH CS
                     KH_1  2 lrilvPsslvgriIGkgGsnIkeIree 28
                             ++++v++   g+iIGk+G++ +++r  
  PHY93_02145|PHY93_02145 35 IELKVDKTDLGKIIGKQGRTARSLRTI 61
                             6899*******************9975 PP

>> KH_2  KH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.2   3.7e-06     0.022      19      66 ..      26      74 ..       6      75 .. 0.77

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 3.7e-06
                             EEECCS.CEEEEEEEESCHHHHHTGGGHHHHHHHHHHHHHHHHHHTTCE CS
                     KH_2 19 eIerta.nrviiviresqpgivIGkgGsnikkigkelrkdieklegkkV 66
                             eI  ++   +++ + +   g +IGk+G++ +++++ l+    kl+++ V
  PHY93_02145|PHY93_02145 26 EIVGEQtTVIELKVDKTDLGKIIGKQGRTARSLRTILNAASTKLKKRSV 74
                             444433367888999999*****************99988888777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (77 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       471  (0.0262703); expected 358.6 (0.02)
Passed bias filter:                      321  (0.017904); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.43u 0.26s 00:00:00.69 Elapsed: 00:00:00.45
# Mc/sec: 515.22
//
Query:       PHY93_02150|PHY93_02150  [L=122]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.6e-20   72.7   0.0    2.9e-20   72.5   0.0    1.0  1  Response_reg  Response regulator receiver domain
    0.00034   20.8   0.0    0.00074   19.8   0.0    1.5  2  OKR_DC_1_N    Orn/Lys/Arg decarboxylase, N-terminal domain
  ------ inclusion threshold ------
      0.059   13.2   0.0       0.16   11.8   0.0    1.6  2  PCRF          PCRF domain
       0.16   12.0   0.0       0.19   11.7   0.0    1.1  1  DUF5043       Domain of unknown function (DUF5043)


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.5   0.0   6.5e-24   2.9e-20       1     111 [.       8     118 ..       8     119 .. 0.93

  Alignments for each domain:
  == domain 1  score: 72.5 bits;  conditional E-value: 6.5e-24
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHH.ESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeek.vdlillDinmpgmdGlellkeireedpelpviiltahseeed 85 
                              +livdD++ ++e  r+++e +g+ +v++a+++ e le +k++  + li+ D nm +m+G+e+lk ++ + +++p+  l++ + e+ 
  PHY93_02150|PHY93_02150   8 ILIVDDEKELLEMYREFFEMDGF-DVTTASSAPEGLEAYKNNLnIRLIISDANMGKMSGIEFLKALKSTYKTIPIFYLSTGALEQS 92 
                              8**********************.**************966544***********************************8887777 PP

                              HHHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  86 avealkagaddflsKpfdpeeLlkal 111
                               +   ++g +  l Kpfd +e+l ++
  PHY93_02150|PHY93_02150  93 EEYIKSLGGHSLLLKPFDLDEILMKI 118
                              777789***************99887 PP

>> OKR_DC_1_N  Orn/Lys/Arg decarboxylase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.0      0.35   1.5e+03      62      78 ..       4      20 ..       2      27 .. 0.57
   2 !   19.8   0.0   1.6e-07   0.00074      11      83 ..      23      96 ..      14     107 .. 0.88

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 0.35
               OKR_DC_1_N 62 edlPvFllaetrtsedv 78
                             e++P+ ++ ++++  ++
  PHY93_02150|PHY93_02150  4 EKIPILIVDDEKELLEM 20
                             56777777665544444 PP

  == domain 2  score: 19.8 bits;  conditional E-value: 1.6e-07
               OKR_DC_1_N 11 ealekegfevvgvtstdDllsvieqnsriaavvlsvd...deaaelldeirernedlPvFllaetrtsedvpadvl 83
                             e +e +gf+v+++ s  ++l+++++n +i  ++ +++    +  e+l++++ + +++P+F l++   + + + +++
  PHY93_02150|PHY93_02150 23 EFFEMDGFDVTTASSAPEGLEAYKNNLNIRLIISDANmgkMSGIEFLKALKSTYKTIPIFYLST--GALEQSEEYI 96
                             668899********************************999999*****************998..5555555555 PP

>> PCRF  PCRF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   3.6e-05      0.16     119     151 ..      15      47 ..      14      63 .. 0.90
   2 ?   -1.0   0.0      0.29   1.3e+03      72     105 ..      89     118 ..      52     120 .. 0.64

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 3.6e-05
                              HHHHHHHHHHHHTTT-EEEEEEEEESSS.SEEE CS
                     PCRF 119 edLlrmYtryaerkgwkvevldaseeeagGike 151
                              ++Ll+mY+++ e  g++v++ ++ +e ++ +k+
  PHY93_02150|PHY93_02150  15 KELLEMYREFFEMDGFDVTTASSAPEGLEAYKN 47 
                              68********************99999988885 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.29
                              THHHHHHHHHH..HHHHHT-..SSSTTSEEEEEE CS
                     PCRF  72 leelekeleeleeelkklLlpkdendeknailei 105
                              le+ e+ +++l    ++lLl  ++ d  +++++i
  PHY93_02150|PHY93_02150  89 LEQSEEYIKSL--GGHSLLL--KPFDLDEILMKI 118
                              55555556666..5566676..777777777777 PP

>> DUF5043  Domain of unknown function (DUF5043)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   4.2e-05      0.19      73     124 ..      30      82 ..       8      95 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 4.2e-05
                  DUF5043  73 sivneafsesekqrvkgrefiiilli.nsdtGkvdevefeftafspyatvPvs 124
                              + v  a s+ e  +  + +++i l+i +++ Gk++ +ef     s+y t+P+ 
  PHY93_02150|PHY93_02150  30 FDVTTASSAPEGLEAYKNNLNIRLIIsDANMGKMSGIEFLKALKSTYKTIPIF 82 
                              557778888888889999*****99945899********************95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (122 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       449  (0.0250432); expected 358.6 (0.02)
Passed bias filter:                      380  (0.0211947); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 850.20
//
Query:       PHY93_02155|PHY93_02155  [L=515]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.5e-05   23.2   0.0    0.00015   21.8   0.0    1.7  1  SIS_2     SIS domain


Domain annotation for each model (and alignments):
>> SIS_2  SIS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.8   0.0   8.2e-09   0.00015      23     126 ..      73     180 ..      60     183 .. 0.87

  Alignments for each domain:
  == domain 1  score: 21.8 bits;  conditional E-value: 8.2e-09
                              HHHHHHHHHHHTT--EEEEESGGGHHHHHHTSSSTT-BTTEEEE--GGGSSSSST......THHHHHTT-TTHHHHHHHHTT--TT CS
                    SIS_2  23 kaaeliadslenggkvlvfGsGhSaalaeelaaragglaeferialpalalhtda....eatkssalerdegyakqilrlvrlkpg 104
                               + + i  ++e gg+++++G+G    l+  l +  +     +++++++++++        +++ +++e  + ++++ l +  +++g
  PHY93_02155|PHY93_02155  73 ILQAEIKTTIEGGGRIFLCGCGATGRLSLALETIWREQHSNNKLLQERIVSFMAGgdvaLIHSVEKFEDFPEFGERQLLELGFREG 158
                              555678899**************9999999988899999999999999999886456679999999*******99988888***** PP

                              -EEEEE-SS--SHHHHHHHHHH CS
                    SIS_2 105 DvLlviSnsGnnavvveaaeaa 126
                              D+++   ++G+ + v+ a eaa
  PHY93_02155|PHY93_02155 159 DMIISCTEGGETPFVIGATEAA 180
                              ******************9998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (515 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       609  (0.0339673); expected 358.6 (0.02)
Passed bias filter:                      533  (0.0297284); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.61u 0.27s 00:00:00.88 Elapsed: 00:00:00.45
# Mc/sec: 3434.67
//
Query:       PHY93_02160|PHY93_02160  [L=58]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      4e-15   54.9   0.5    4.5e-15   54.7   0.5    1.0  1  MttA_Hcf106  mttA/Hcf106 family


Domain annotation for each model (and alignments):
>> MttA_Hcf106  mttA/Hcf106 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.7   0.5   2.5e-19   4.5e-15       1      51 [.       3      53 ..       3      56 .. 0.94

  Alignments for each domain:
  == domain 1  score: 54.7 bits;  conditional E-value: 2.5e-19
                             S-HHHHHHHHHHHHHHS-TTTHHHHHHHHHHHHHHHHHHHHHHHH---XXX CS
              MttA_Hcf106  1 lgapelliIlvValllFGpkkLPEvaraLGktLreFkkavkeleeenekea 51
                             +g++e ++I+ +++  FG kk+P +++ LG+++r Fk+ +k++++e+e+ +
  PHY93_02160|PHY93_02160  3 IGLTEGVLIAAIVIFFFGGKKIPQLGKTLGESIRGFKEGMKTDQKEKEEDK 53
                             7999*****************************************987765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (58 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       635  (0.0354175); expected 358.6 (0.02)
Passed bias filter:                      366  (0.0204139); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.24s 00:00:00.64 Elapsed: 00:00:00.42
# Mc/sec: 411.19
//
Query:       PHY93_02165|PHY93_02165  [L=58]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    7.6e-14   50.8   0.3    9.9e-14   50.4   0.3    1.1  1  MttA_Hcf106  mttA/Hcf106 family


Domain annotation for each model (and alignments):
>> MttA_Hcf106  mttA/Hcf106 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.4   0.3   5.5e-18   9.9e-14       5      53 .]       7      55 ..       3      55 .. 0.90

  Alignments for each domain:
  == domain 1  score: 50.4 bits;  conditional E-value: 5.5e-18
                             HHHHHHHHHHHHS-TTTHHHHHHHHHHHHHHHHHHHHHHHH---XXXXX CS
              MttA_Hcf106  5 elliIlvValllFGpkkLPEvaraLGktLreFkkavkeleeenekeaad 53
                             e l+I   ++  FG kk+PE+++ LG+++r Fk+ +ke+e+ n+  ++d
  PHY93_02165|PHY93_02165  7 EGLLITGLVVFFFGGKKIPELGKTLGSSIRGFKEGMKEEEKTNDSDKKD 55
                             667888888999*****************************99988876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (58 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       491  (0.0273858); expected 358.6 (0.02)
Passed bias filter:                      270  (0.0150594); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.26s 00:00:00.70 Elapsed: 00:00:00.47
# Mc/sec: 372.76
//
Query:       PHY93_02170|PHY93_02170  [L=178]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.4e-33  113.0   0.0    9.8e-33  112.2   0.0    1.4  1  QueF      QueF-like protein
    1.2e-05   25.5   0.0    4.2e-05   23.8   0.0    1.8  1  QueF_N    Nitrile reductase, 7-cyano-7-deazaguanine-reductase


Domain annotation for each model (and alignments):
>> QueF  QueF-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  112.2   0.0   1.1e-36   9.8e-33       1      78 [.      74     151 ..      74     154 .. 0.97

  Alignments for each domain:
  == domain 1  score: 112.2 bits;  conditional E-value: 1.1e-36
                     QueF   1 PDfatlvirYvpdkkvvelkslklYlisfrnrgifhEevvnrilddlvealkPkwlevvgdfnpRGgididvvvetek 78 
                              PDfa++ i+Y++dkk+ve+kslklYl+sfrn+g+fhE++v+++++d+ + +kP+++ev+g+f+pRGgi+i +++++  
  PHY93_02170|PHY93_02170  74 PDFAKIFINYIADKKMVESKSLKLYLFSFRNHGDFHEDCVQKMCNDMAALIKPHYIEVIGEFTPRGGIAIFPFASYAG 151
                              9***********************************************************************999875 PP

>> QueF_N  Nitrile reductase, 7-cyano-7-deazaguanine-reductase N-term
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.8   0.0   4.6e-09   4.2e-05      45     101 ..      69     123 ..      34     131 .. 0.72

  Alignments for each domain:
  == domain 1  score: 23.8 bits;  conditional E-value: 4.6e-09
                              -TTS-EEEEEEEEEEETTSSEEE-HHHHHHHHHTTTT-B-S-HHHHHHHHHHHHHHH CS
                   QueF_N  45 nakgkpqvaiaelevpaesenliEsksfklYlnsfnqtrfesaeeveetlekDlsaa 101
                               ++g+p  a   ++     ++++Esks+klYl sf ++   + + v + + +D++a 
  PHY93_02170|PHY93_02170  69 PKTGQPDFAKIFINYI-ADKKMVESKSLKLYLFSFRNHGDFHEDCV-QKMCNDMAAL 123
                              4668888776655554.55789*************88765444555.4566777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (178 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       492  (0.0274416); expected 358.6 (0.02)
Passed bias filter:                      377  (0.0210274); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.47
# Mc/sec: 1140.72
//
Query:       PHY93_02175|PHY93_02175  [L=804]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.4e-72  243.2   0.0    4.3e-72  242.9   0.0    1.1  1  Ferrochelatase  Ferrochelatase
    1.2e-50  172.5  61.8    1.2e-43  149.4  39.8    2.1  2  MFS_1           Major Facilitator Superfamily


Domain annotation for each model (and alignments):
>> Ferrochelatase  Ferrochelatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  242.9   0.0   4.8e-76   4.3e-72       2     316 ..       6     328 ..       5     329 .. 0.96

  Alignments for each domain:
  == domain 1  score: 242.9 bits;  conditional E-value: 4.8e-76
                              EEEEEEE----SSC..CCHHHHHHHHCT-TTTS-S-.TTTHHHHHHHHHHHHHHHHHHHHHHT..TSS-SHHHHHHHHHHHHHHHH CS
           Ferrochelatase   2 tavLLlnlGgPekp..edvrpflenllsdrrvielp.lllqkllaklilkerlekvaekYeki..gggSPlneitrkqaealekel 82 
                              t v++++lG+P++p  +dvr fl+++l d+rv++++ ll++ +l+ ++l++r++++a  Y++i  g+  Pl  it++ +e ++  l
  PHY93_02175|PHY93_02175   6 TKVVFVQLGSPKSPkvSDVRAFLREFLADPRVVDINpLLWKLILNLFVLPFRPKRSAFLYSRIwdGNSFPLITITKAFTERVRGFL 91 
                              569*************************************************************66777***************** PP

                              HHH---EEEEEEESSSSSBHHHHHHHHHCT..T-SEEEEEES-SS--TTTHHHHHHHHHHHHHHTT-SSEEEEE---TT-HHHHHH CS
           Ferrochelatase  83 aergidvkvylamrywePsiedaleelkad..gvervvvlplyPqysasttgssleeleralkkkreapevrvirqfydhpgyiea 166
                               +   +v+v  a+  ++P ++d+ +e ++d     ++ ++ ++Pq+s +t +s +++l + +kk    pe++ + +f++ +++i+ 
  PHY93_02175|PHY93_02175  92 TSG--KVEVNHAFLLSSPRVSDVWDEWEKDpnPAAKLKIIQMFPQFSEATIASGFDALGSEIKKRVMIPEISLVTDFHTSKAFIDN 175
                              997..9**********************98446799****************************999******************* PP

                              HHHHHHHHHTTS-HC...C-EEEEEEE--BHHHHT.TT-SHHHHHHHHHHHHHHHT.TT-S.-EEEEEE---SSS-BSSSBHHHHH CS
           Ferrochelatase 167 laesikealeelpeek..kakllfsaHglPeravkkkgdpYqqqveetarlvaeal.glke.evelayqSrvGpeeWlePdtddtl 248
                               + +i+  l++++e+    +kll+++Hg+ +r +++kgd Y  +++et  l++++l g++  ++ +++qSr+G+eeWl+P+t++t+
  PHY93_02175|PHY93_02175 176 SILQIETFLASFKEKGikIDKLLLTFHGIQKRRINDKGDVYYLHCYETFFLIRSRLkGIEAnNIIMTFQSRFGSEEWLTPYTENTV 261
                              ************75547789************************************9777788*********************** PP

                              HHHCCC.-S-EEEE-TT-SS--HHHHIIIIIIIITTSTT..CCCEEE----TT-HHHHHHHHHHHHHH CS
           Ferrochelatase 249 eelaekgvkaivvvpigFvsDhlEtleeldiearelaeeaggekfvrvptlndspafiealadlveee 316
                               +l + + ++++v++++Fv+D+lEt  el +e++e+a+++gg +++ +p+lnd++a+++  a+ ve++
  PHY93_02175|PHY93_02175 262 IDLVKLNQRNLAVYSPSFVADCLETQDELGVELKETAKKYGG-DIHFIPCLNDNEAWCRDFAKYVENQ 328
                              ******************************************.****************999999875 PP

>> MFS_1  Major Facilitator Superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  149.4  39.8   1.3e-47   1.2e-43       1     353 []     377     764 ..     377     764 .. 0.82
   2 !   37.8  14.0   1.1e-13     1e-09      59     173 ..     685     798 ..     682     804 .] 0.86

  Alignments for each domain:
  == domain 1  score: 149.4 bits;  conditional E-value: 1.3e-47
                    MFS_1   1 lllaaflsalarsilgpalplalaed...............................lgispseigllltlyalgaavaslplGrl 55 
                              ++l++fl   ++si++p++p +la+                                + + + + g+l ++y+ ++++a++++G++
  PHY93_02175|PHY93_02175 377 VALTIFLDLVGFSIIFPLFP-TLAKYyltvdadniflktifgtiqnisnytasttsvFSSIVLFGGMLGAIYSSLQFIAAPLWGAW 461
                              5799****************.88777566666666666665555555443333333333444447889999*************** PP

                    MFS_1  56 sdrfGrrrvlllglllfalglllll.fasslw.lllvlrvlqGlgagalfpagaaliadwfpkeergraigllsagfslGailgpl 139
                              sdr+Gr++vl+ +++++a+g ++++ f s+++ ll+++r++ G++ g+ ++++ a++ad+++ke+r++++++++++f+lG+++gp+
  PHY93_02175|PHY93_02175 462 SDRIGRKPVLVRSMAGMAVG-YVIWvF-SGSFtLLIISRIIDGIM-GGNISTATAVVADVTTKENRSKGMAIIGVAFALGFVVGPA 544
                              ********************.777758.88888************.78899999******************************** PP

                    MFS_1 140 lggllasslg...........Wravfyilaivsllafvlfllllpeepperkrkspkeeekgtgpaplvpawkallkdpvl.w.il 212
                              +ggll+ ++               +f + a+++l + ++  ++++++ +e+ + +++     t ++++   +k+++  p+    i+
  PHY93_02175|PHY93_02175 545 FGGLLS-LIDltkmypnlvqyGINPFSVPAVFALCLSLFNTFWVMTKFKESLPLEKRGA--VTTERSANI-FKLFKPLPHPeInII 626
                              *****9.666679*988887755558888888888888877888777777777766666..223333333.444444442222478 PP

                    MFS_1 213 lialllfffgfsglltllplylqevlglsglllaglllallalvgailallagrlsdrlgrrrrlllallllllaalglallavts 298
                               ++ +lf ++fsg+ ++l++++ e+l+++  ++++  + +++++++i+++ +g + ++  +     +a+++++ +  gl+l++++ 
  PHY93_02175|PHY93_02175 627 NMSYFLFLAAFSGMEFTLTFLAAERLNYT-SMQNA--YIFIYIGFIIAFVQGGIVRRKAASVGEKKMAMIGMISLIPGLLLISAAY 709
                              8999999999999****************.7****..777777777777677777799999999*********************9 PP

                    MFS_1 299 savllllvlvliGfglgfvfpsllalasdlappeeagtasglfntagslggalgp 353
                              s+++l+ +l+++ +g+++++p+l++l++ ++p  e+g+ +g+f ++g+l++++gp
  PHY93_02175|PHY93_02175 710 SNAMLYSGLFFLAVGSSMIMPCLTSLVTIYTPSAEQGRSVGIFRSMGALARVVGP 764
                              9999999**********************************************98 PP

  == domain 2  score: 37.8 bits;  conditional E-value: 1.1e-13
                    MFS_1  59 fGrrrvlllglllfalglllllfasslwlllvlrvlqGlgagalfpagaaliadwfpkeergraigllsagfslGailgpllggll 144
                              +G +++ ++g+++++ glll++ a s  +l+ + ++ ++g+++++p   +l++ ++p  e+gr +g++ ++ +l+ ++gp+l+++ 
  PHY93_02175|PHY93_02175 685 VGEKKMAMIGMISLIPGLLLISAAYSNAMLYSGLFFLAVGSSMIMPCLTSLVTIYTPSAEQGRSVGIFRSMGALARVVGPILSAIA 770
                              699**************55555435555********************************************************** PP

                    MFS_1 145 asslgWravfyilaivsllafvlfllllp 173
                              +  +g  ++ y+++ ++ll+ +l+l  lp
  PHY93_02175|PHY93_02175 771 YYKYG-AWAPYVFGSAFLLMPILMLTQLP 798
                              *8888.57888888888888776444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (804 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       776  (0.0432818); expected 358.6 (0.02)
Passed bias filter:                      430  (0.0239835); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.78u 0.28s 00:00:01.06 Elapsed: 00:00:00.48
# Mc/sec: 5038.54
//
Query:       PHY93_05905|PHY93_05905  [L=273]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0012   18.7   0.1      0.026   14.4   0.0    2.4  2  Chromo    Chromo (CHRromatin Organisation MOdifier) domain


Domain annotation for each model (and alignments):
>> Chromo  Chromo (CHRromatin Organisation MOdifier) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.0     0.018   3.2e+02      12      34 ..      39      60 ..      34      72 .. 0.76
   2 !   14.4   0.0   1.4e-06     0.026      10      43 ..     170     204 ..     167     209 .. 0.76

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.018
                             ETTEECEEEEEEETT.STGGGTEE CS
                   Chromo 12 dkdgleleYlVKWkg.lpysentW 34
                              ++++  ++lVK ++ ++ +ent+
  PHY93_05905|PHY93_05905 39 TDKNG--QFLVKLSSgFNKKENTF 60
                             45555..7****876588888886 PP

  == domain 2  score: 14.4 bits;  conditional E-value: 1.4e-06
                              EEETTEECEEEEEEETTSTGGGTEEEE.GGGCSSH CS
                   Chromo  10 rtdkdgleleYlVKWkglpysentWEp.eenlekc 43 
                               t+k+++   ++V W+g+py  +t+ +  ++l ++
  PHY93_05905|PHY93_05905 170 ATRKETGSMNFYVIWEGYPYLNETFSDfPSELLSK 204
                              5778888899**************99874444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (273 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       492  (0.0274416); expected 358.6 (0.02)
Passed bias filter:                      305  (0.0170115); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1809.04
//
Query:       PHY93_02180|PHY93_02180  [L=219]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.8e-19   70.5   0.1    2.1e-19   70.3   0.1    1.1  1  Lactamase_B    Metallo-beta-lactamase superfamily
  ------ inclusion threshold ------
       0.02   14.4   0.1      0.025   14.1   0.1    1.2  1  Lactamase_B_2  Beta-lactamase superfamily domain


Domain annotation for each model (and alignments):
>> Lactamase_B  Metallo-beta-lactamase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.3   0.1   2.4e-23   2.1e-19       5     197 .]      19     204 ..      15     204 .. 0.92

  Alignments for each domain:
  == domain 1  score: 70.3 bits;  conditional E-value: 2.4e-23
                              SSEEEEEE..ETTCEEEES--SCHHHHHHHHHHHHHTSGGGGEEEEE-SBSSHHHHTTGGGCTTHHCCEETCCEHHHHCCHCHHHH CS
              Lactamase_B   5 pvnsylie..gdggviLiDtGtsteaaraalelaalglkpkdvdavilTHlHlDHiGglgglveatdvpvgavaeeapalfmeead 88 
                               +n+ ++      ++i+iD+G + ++ +++     ++    +v+ ++ TH+H+DHiG   ++  at++  + ++ + + + m   +
  PHY93_02180|PHY93_02180  19 ACNCSILYsdSTREAIIIDPGNDLDFILKK-----IKDLNINVKKLLHTHAHFDHIGRSSEVSIATGATMHLHKGDQFLYDMLPQQ 99 
                              5788888877889***************97.....9*************************************************9 PP

                              HHHHHCCHH..TTCHCGCCEEEEETTTEECCCTEEEEEHECTTSTSCCEEEEEETTCCEEEECTTTSSHHCCCCCC.TTCEEE-SH CS
              Lactamase_B  89 daasrkgll..lagvsadkpdvdeeeldgnaggrralyvtggpghghghgvveygggkvlftGDallagetgridltlrgaevrdp 172
                              + +  ++    ++ +    +++    +d +    +++ +t+g+++g++++  +y +   lf+GD+l++ ++gr+dl+++++  +  
  PHY93_02180|PHY93_02180 100 GLFFGQKVGtpKPLDAYLFDGEIFSFTDPEINTFLTTLHTPGHTPGSCCFYSDYFEIPQLFAGDTLFQQSIGRTDLPGGDSRLIIK 185
                              999999888*9999999***********************************************************9999999999 PP

                              CHHHHHHHHHHHHHHHCHSEEEE.SS CS
              Lactamase_B 173 sdaekyldsllklaglkaevlvp.gH 197
                              s++e +l        l++e+ v+ gH
  PHY93_02180|PHY93_02180 186 SIKERLL-------VLPDETKVItGH 204
                              9888888.......455555444488 PP

>> Lactamase_B_2  Beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.1   2.8e-06     0.025       3      74 ..      34     100 ..      32     149 .. 0.67

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 2.8e-06
                              EEES--TTHHHHHTCGGS--SSS--..SEEEEE-SS--HHHHGGGGCCCCC--EEEEEE.EEHHHHHHCCTTC CS
            Lactamase_B_2   3 iLiDagpdlrqqalralqPvelrdelppidaVllthaHyDHlaglltlrelrpkklply.apkgvlavleanf 74 
                              i+iD+g dl       l++ + ++    ++ +l thaH+DH+     +   ++  ++l+ +++ +++ l +++
  PHY93_02180|PHY93_02180  34 IIIDPGNDLD----FILKKIKDLN--INVKKLLHTHAHFDHIGRSSEVSIATGATMHLHkGDQFLYDMLPQQG 100
                              8999999942....2222223233..37899***********4433333333333555555555666666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (219 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       303  (0.0169); expected 358.6 (0.02)
Passed bias filter:                      281  (0.0156729); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.28s 00:00:00.76 Elapsed: 00:00:00.46
# Mc/sec: 1424.63
//
Query:       PHY93_02185|PHY93_02185  [L=288]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.6e-25   87.8   0.1    8.4e-25   87.5   0.1    1.1  1  RimK             RimK-like ATP-grasp domain
    5.9e-10   38.8   0.1    9.7e-10   38.1   0.1    1.3  1  GSH-S_ATP        Prokaryotic glutathione synthetase, ATP-gras
    1.1e-05   25.5   0.2    1.8e-05   24.8   0.2    1.3  1  ATP-grasp_3      ATP-grasp domain
    3.6e-05   23.4   0.1    0.00058   19.4   0.1    2.0  1  Dala_Dala_lig_C  D-ala D-ala ligase C-terminus
    0.00051   19.3   0.1     0.0024   17.1   0.0    2.0  2  TTL              Tubulin-tyrosine ligase family
  ------ inclusion threshold ------
      0.021   14.7   0.0      0.033   14.0   0.0    1.3  1  R2K_2            ATP-grasp domain, R2K clade family 2
       0.04   13.5   0.0      0.058   13.0   0.0    1.2  1  ATP-grasp        ATP-grasp domain
      0.052   13.9   0.0       0.12   12.7   0.0    1.6  1  Rimk_N           RimK PreATP-grasp domain
       0.19   11.8   0.0       0.25   11.3   0.0    1.2  1  R2K_3            ATP-grasp domain, R2K clade family 3


Domain annotation for each model (and alignments):
>> RimK  RimK-like ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   87.5   0.1   4.2e-28   8.4e-25      42     185 ..     142     287 ..     110     288 .] 0.90

  Alignments for each domain:
  == domain 1  score: 87.5 bits;  conditional E-value: 4.2e-28
                              SEEEEE-TTTT--EEEEE-SHHHHHHHHHH....GGG--EEEEE--SS-SEEEEEEEETTEEEEEEEEE--SSS----TTTT-EEE CS
                     RimK  42 PvvvKsvegsqGikvvlakkeqklkqvlea....lkeailvqeyieeaenediRvlvvddevvaalrrvskeGdFRsnlhrGgvae 123
                                ++K v g+qGi+v l +  q+lk++le+     +++ ++q +ie+++  + R++++++e+++ ++r+    dFR n +r     
  PHY93_02185|PHY93_02185 142 KFIIKMVRGNQGIGVNLVNGLQSLKSLLETfnaiKDQKFIIQPFIEHKK--EWRIFILKNEIIGIVERRPIIEDFRGNSKRSLGKI 225
                              479*************************99766555667******9885..68****************9989*******988888 PP

                              E----HHHHHHHHHHHHHCT-SEEEEEEEEETTEEEEEEEESS--SHHHHHHHT--HHHHHH CS
                     RimK 124 klqlseeekelAikaakamelvvaGvDllrakrgllvlEvnsspglekiektlgidiakkli 185
                                ++s e ++ A++   +++++++GvD+++  +++++lE n  pg e++ek +g++ia +li
  PHY93_02185|PHY93_02185 226 IKKISTEIQNEALRGVSLSGMDYCGVDIIDDGNNFYFLEFNPVPGFEQMEKLTGLNIARELI 287
                              8899*******************************************************998 PP

>> GSH-S_ATP  Prokaryotic glutathione synthetase, ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.1   0.1   4.9e-13   9.7e-10      32     154 ..     141     256 ..     127     268 .. 0.87

  Alignments for each domain:
  == domain 1  score: 38.1 bits;  conditional E-value: 4.9e-13
                              SSEEEEESS--TTTT-EEE-TT-TTHHHHHHHHTTTTTS-EEEEE--GGGGG-EEEEEEETTEE-SEEEEEE--SS-S---GGGTS CS
                GSH-S_ATP  32 gdvilKPldgkgGegvfrvkksdpnlksilellteegkepviaqrylpeikeGDkRillvdGepigyalaRvpaegevRsnlaagg 117
                              ++ i+K + g+ G gv  v+   ++lks+le++ + + +++i+q ++++ ke   Ri++++ e ig  ++R p  +++R+n +   
  PHY93_02185|PHY93_02185 141 QKFIIKMVRGNQGIGVNLVNG-LQSLKSLLETFNAIKDQKFIIQPFIEHKKE--WRIFILKNEIIG-IVERRPIIEDFRGNSKRSL 222
                              6789***********988765.889***********************9888..9***********.9*************77654 PP

                              CEEEEE--HHHHHHHHHHHHHHHHTT--EEEEEEETT CS
                GSH-S_ATP 118 raeatelterdreiaeelapkLkekGllfvGlDvigd 154
                                  + +++  +ei +e    ++ +G+ + G+D+i+d
  PHY93_02185|PHY93_02185 223 G---KIIKKISTEIQNEALRGVSLSGMDYCGVDIIDD 256
                              4...445555667888888889999**********97 PP

>> ATP-grasp_3  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.8   0.2   9.2e-09   1.8e-05      23     156 ..     132     267 ..     111     270 .. 0.72

  Alignments for each domain:
  == domain 1  score: 24.8 bits;  conditional E-value: 9.2e-09
                              .-EESS--SSSEEEEESS-------B--SS--TTE..............EEEE---SEEEEEEEEE.SSSEEEEEEEEEEEET... CS
              ATP-grasp_3  23 eaeeleeeekklvvKprdGaggesvrvveekeeaeaaieeve.......lvqefieGkplSvsllsdgekvlvlavnrqliekaek 101
                              e+ +  +  +k+++K ++G  g +v +v+  +++++ +e+ +       ++q fie k+    ++ ++ ++  ++  r +ie    
  PHY93_02185|PHY93_02185 132 ESISTLSPGQKFIIKMVRGNQGIGVNLVNGLQSLKSLLETFNaikdqkfIIQPFIEHKKEWRIFILKN-EIIGIVERRPIIE---- 212
                              4455566799************************9999998888999999999999999888888855.4444444555553.... PP

                              .TEEEEEEES----H.HHHHHHHHHHHHTTSTT--E..EEEEEEEESS.SEEEEEEES CS
              ATP-grasp_3 102 efvyaGnvtpietel.keevvelaeevvekleglaG..yvGvDlvlkdeepyviEvNP 156
                                 ++Gn+  +  +  k+   e+ +e+++ + +l G  y GvD++   ++ y++E NP
  PHY93_02185|PHY93_02185 213 --DFRGNSKRSLGKIiKKISTEIQNEALRGV-SLSGmdYCGVDIIDDGNNFYFLEFNP 267
                              ..46666666655552333333344455555.55552289******99*********9 PP

>> Dala_Dala_lig_C  D-ala D-ala ligase C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.4   0.1   2.9e-07   0.00058      38     181 ..     142     274 ..     121     285 .. 0.77

  Alignments for each domain:
  == domain 1  score: 19.4 bits;  conditional E-value: 2.9e-07
                              SEEEEESSSSTTTTEEEESSGGGHHHHHHHH.HTT-SCEEEEE--.ESEEEEEEEEETSSCEEEEEEEEE-SSSSS-HHHHHC.TT CS
          Dala_Dala_lig_C  38 pvfVKpareGSSvGvskveseeelkeaieea.fkydekvlvEeai.egreievavlgneklevsevgeivvkkgfydyeakysddk 121
                                ++K +r    +Gv+ v+  + lk+ +e+  + +d+k ++  +i + +e  + +l+   +e+  ++e+++  + ++ + k s   
  PHY93_02185|PHY93_02185 142 KFIIKMVRGNQGIGVNLVNGLQSLKSLLETFnAIKDQKFIIQPFIeHKKEWRIFILK---NEIIGIVERRPIIEDFRGNSKRS--- 221
                              567888888889****************98514589*********8899********...55666667766555455555543... PP

                              -EEESS----HHHHHHHHHHHHHHHHHTT--SEEEEEEEEETTTEEEEEEEESS---STT CS
          Dala_Dala_lig_C 122 aqlevpaklekeveekiqelalkaykaldlrGlaRvDfflteegeivlnEvNtlPGfTei 181
                                     k+ k+++ +iq+ al+    l++ + + vD++ ++ +++++ E N++PGf ++
  PHY93_02185|PHY93_02185 222 -----LGKIIKKISTEIQNEALRGV-SLSGMDYCGVDII-DDGNNFYFLEFNPVPGFEQM 274
                              .....23455667777777777765.4888999999986.6699*************887 PP

>> TTL  Tubulin-tyrosine ligase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.0   1.2e-06    0.0024      66     110 ..     131     187 ..      81     188 .. 0.82
   2 ?   -0.5   0.0      0.27   5.4e+02     240     270 ..     249     278 ..     222     287 .. 0.84

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 1.2e-06
                              -.........B----SS---XX------BSSTHHHHHH...HH..SSS-EEEEB--S CS
                      TTL  66 s.........ntwIvKpsasarGkgirvfnkledikki...vsqsqkeplvvqkYie 110
                              +         +++I+K   +++G+g+ ++n l+++k +    + ++++++++q +ie
  PHY93_02185|PHY93_02185 131 WesistlspgQKFIIKMVRGNQGIGVNLVNGLQSLKSLletFNAIKDQKFIIQPFIE 187
                              233344666699************************999999**************8 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.27
                              XXXXXXXXXXXXXXXXXXXXXX..XXXXXXX CS
                      TTL 240 yGvDilidenlkpwLlEvNasPdlksttkld 270
                               GvDi id+  + ++lE N  P +++ +kl+
  PHY93_02185|PHY93_02185 249 CGVDI-IDDGNNFYFLEFNPVPGFEQMEKLT 278
                              57776.57778999**********9998876 PP

>> R2K_2  ATP-grasp domain, R2K clade family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   1.7e-05     0.033      39      79 ..     164     204 ..     159     243 .. 0.92

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.7e-05
                    R2K_2  39 dgedlpglgsldedlpvlvsevvsfasEyRlfvldgeiitv 79 
                              + + l +++++ +d++ +++  ++ ++E+R+f+l+ eii++
  PHY93_02185|PHY93_02185 164 SLKSLLETFNAIKDQKFIIQPFIEHKKEWRIFILKNEIIGI 204
                              556788889999999***********************987 PP

>> ATP-grasp  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   2.9e-05     0.058      28     120 ..     140     235 ..     121     252 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 2.9e-05
                              -SCEEEEESSS-CTTTTEEEECTCCGHHCHHHHC...GTTCEEEEE----SEEEEEEEEE.ETTC-EEE--EEEEEEETTEEEEEE CS
                ATP-grasp  28 glpvvvKarrlgydGkGqsvvrseedleqaleal...keekvivEefvpfekElsvlvvr.saeGetafypvvetvqedgilrlsv 109
                              g ++++K  + g  G G  +v+  ++l+++le++   k++k+i+  f++ +kE  + + + +  G ++  p++e  + +    l  
  PHY93_02185|PHY93_02185 140 GQKFIIK-MVRGNQGIGVNLVNGLQSLKSLLETFnaiKDQKFIIQPFIEHKKEWRIFILKnEIIGIVERRPIIEDFRGNSKRSLGK 224
                              78899**.8999*****************99999999*****************99999856678888888888777666655555 PP

                              ECEE-SCHHHH CS
                ATP-grasp 110 apaevsekaqk 120
                                +++s+++q+
  PHY93_02185|PHY93_02185 225 IIKKISTEIQN 235
                              55555555555 PP

>> Rimk_N  RimK PreATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   6.2e-05      0.12       3      63 ..      10      79 ..       9     101 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 6.2e-05
                   Rimk_N  3 iaiLsrnpelystrrLveaaekrghevevldplrcylkie......aekpevyykg...ekleefdavip 63
                             i++ s++p+ly+t+rL ++a+k  +    l+p ++ ++ +      +e+p++y++     + ++fd ++ 
  PHY93_02185|PHY93_02185 10 IIVASESPDLYTTKRLLTEANKLKYGNSWLNPYQFLISTNilpsakKERPDLYFHRttgIRYDDFDLIVS 79
                             788899**************************99988653222222677777776655556666666665 PP

>> R2K_3  ATP-grasp domain, R2K clade family 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00013      0.25      98     131 ..     171     204 ..     140     243 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00013
                    R2K_3  98 laakledtevlvsevvrfsaEwRvFvvdGevvaa 131
                                +  +d ++++ + ++  +EwR+F+++ e++++
  PHY93_02185|PHY93_02185 171 TFNAIKDQKFIIQPFIEHKKEWRIFILKNEIIGI 204
                              33333499999**99****************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (288 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       390  (0.0217525); expected 358.6 (0.02)
Passed bias filter:                      329  (0.0183502); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.54u 0.25s 00:00:00.79 Elapsed: 00:00:00.45
# Mc/sec: 1915.01
//
Query:       PHY93_02190|PHY93_02190  [L=362]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.1e-14   54.0   0.0    3.8e-14   53.2   0.0    1.4  1  Peptidase_M14  Zinc carboxypeptidase
    6.8e-05   22.1   0.0    0.00011   21.4   0.0    1.3  1  AstE_AspA      Succinylglutamate desuccinylase / Aspartoacyla


Domain annotation for each model (and alignments):
>> Peptidase_M14  Zinc carboxypeptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.2   0.0   4.2e-18   3.8e-14      42     188 ..      88     228 ..      60     299 .. 0.79

  Alignments for each domain:
  == domain 1  score: 53.2 bits;  conditional E-value: 4.2e-18
                              TTST-CEEEEEE-SSTT-HHHHHHHHHHHHHHHHHTTTSHHHHHHHHHEEEEEES-STHHHHHHHHHT-TTTTST-SBCTTSSSBS CS
            Peptidase_M14  42 aeegkpvvlidggiHarEwigsalllylleqLlsaYgedeeikellddtdiyilpvlNPDGyeysstedrlwrknrsnakessceG 127
                              + ++k v +i +g+H++E++  ++++ ++ +L + Y + e  k+   +  +++ p +NPD + +++        +r na+     G
  PHY93_02190|PHY93_02190  88 SFKQKDVSIIMCGVHGDEITPIKFCFDIMSYLKTVYADPEIFKKDFSNKIVIVAPLVNPDAFFKVR-------PSRVNAH-----G 161
                              456788999***************************88888887666666***************9.......699***9.....* PP

                              --GGGSSSSS.TTSS....S.SBSSTTSTTBHHSSTT.SHHHHHHHHHHHHTTEEEEEEEEESSSEE CS
            Peptidase_M14 128 vDlnRnFpdl.wnse....g.astspcsetyrgpapfsepetravlefiqkknivlfidlhsysqvi 188
                              vD nRnFp + w+      + ++  + + ++ g +++sepe+  ++++i+++     i++hs  +++
  PHY93_02190|PHY93_02190 162 VDVNRNFPTKdWARDarrlWiSNLRKDKRRNPGLKSNSEPEVVFQMNLIKRYAPDKIISVHSPLTML 228
                              **********9*54445676677777777888999999*************7777777777655444 PP

>> AstE_AspA  Succinylglutamate desuccinylase / Aspartoacylase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.4   0.0   1.3e-08   0.00011       6      73 ..      96     174 ..      91     188 .. 0.77

  Alignments for each domain:
  == domain 1  score: 21.4 bits;  conditional E-value: 1.3e-08
                              EEEE-SSTT-HHHHHHHHHHHHHHHCCC..........ESCCEEEEEESSHHHHHCTS..SSSSTT-S-CTTTTTCCCCC CS
                AstE_AspA   6 lisAGvHGnElaGvellrqllkqleead..........ilgeitlvplaNppAiaags..RyipidredLNRaFpgrslg 73 
                              +i++GvHG+E++++  + ++++ l+               + +++ pl+Np A+ + +  R       d NR Fp ++  
  PHY93_02190|PHY93_02190  96 IIMCGVHGDEITPIKFCFDIMSYLKTVYadpeifkkdfSNKIVIVAPLVNPDAFFKVRpsRVNA-HGVDVNRNFPTKDWA 174
                              79****************9999776533333333344444555666********9988867777.99********98765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (362 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       435  (0.0242624); expected 358.6 (0.02)
Passed bias filter:                      364  (0.0203023); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.59u 0.25s 00:00:00.84 Elapsed: 00:00:00.48
# Mc/sec: 2284.79
//
Query:       PHY93_02195|PHY93_02195  [L=654]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      2e-22   79.7   0.0      6e-22   78.1   0.0    1.8  1  Sigma54_activat  Sigma-54 interaction domain
    1.2e-19   70.8   0.0    2.2e-19   69.9   0.0    1.5  1  Sigma54_activ_2  Sigma-54 interaction domain
    5.8e-11   43.1   0.0    2.1e-10   41.3   0.0    1.9  2  GAF              GAF domain
    2.3e-09   36.9   2.7    2.3e-09   36.9   2.7    2.4  2  HTH_8            Bacterial regulatory protein, Fis family
      1e-06   29.0   0.1    5.7e-06   26.6   0.0    2.3  2  PilZ             PilZ domain
    9.9e-06   25.9   0.0      2e-05   24.9   0.0    1.5  1  GAF_3            GAF domain
  ------ inclusion threshold ------
      0.033   14.0   0.0      0.071   12.9   0.0    1.5  1  HTH_30           PucR C-terminal helix-turn-helix domain
      0.087   13.2   0.0       0.35   11.3   0.0    2.0  2  RNA_helicase     RNA helicase
       0.12   11.9   0.0       0.34   10.4   0.0    1.7  2  AAA_7            P-loop containing dynein motor region
       0.15   12.5   0.0       0.35   11.2   0.0    1.7  1  AAA_16           AAA ATPase domain


Domain annotation for each model (and alignments):
>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.1   0.0   3.3e-25     6e-22       1     165 [.     325     476 ..     325     479 .. 0.94

  Alignments for each domain:
  == domain 1  score: 78.1 bits;  conditional E-value: 3.3e-25
                              ----SHHHHHHHHHHHHHCTSSS-EEEECSTTSSHHHHHHHHHHHSTTTTS-EEEEETTTS-TTCHHHHHHEBSSSSSTTTSS-BE CS
          Sigma54_activat   1 ligesealkelleqikkvaktdlsvlitGesGtGKellaraiheaskrkekpfvavncaaipeelleseLFGhekGaFtGAekekk 86 
                              lig+ +++++l+++i k+ + +++vli Ge+G+GK+l a+ +h + +r  kpf  + c +  +e +e  LFG e+          +
  PHY93_02195|PHY93_02195 325 LIGRVPHVASLRSTIMKLKDIEAPVLIYGEKGVGKSLYAKILHVEGQRGLKPFEVIYCEDKDQEAVEKLLFGPEE---------AE 401
                              57888999999*************************************************************875.........46 PP

                              HHHHHTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEESBTSSSEEE--EEEEEEESS-HHHHHHTTSS-HHHHHHHTSE CS
          Sigma54_activat  87 GlfekadgGtlfLDeigelplelQekLlrvlqegevervGsskeikvdvriiaatnedleeaveegkfredLyyrlnvi 165
                               ++ +++gGt++L ei  l+++ Q k+l++l ++++     +++ ++dvri+a+t++dl   v++g+f +dLy  l+  
  PHY93_02195|PHY93_02195 402 CRLIACKGGTVHLHEIWALSIKSQRKFLTILRDRHIP----DTKFSLDVRIVATTTRDLGVLVASGEFDRDLYEFLSKA 476
                              7899******************************996....6899****************************988765 PP

>> Sigma54_activ_2  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.9   0.0   1.2e-22   2.2e-19       1     138 []     326     483 ..     326     483 .. 0.92

  Alignments for each domain:
  == domain 1  score: 69.9 bits;  conditional E-value: 1.2e-22
                              X---HHHHHHHHHHHHHHT-SS-EEEEEETT--HHHHHHCC--TTS-EE--SSTTHHHH-HHHHHHH...........T...TTSE CS
          Sigma54_activ_2   1 lgasaaiqelkerLeqaaqsklpvfltGekGsgkelvArlLhknsgpwleifvverlaklpldlleq...........a...kggt 72 
                              +g+ + ++ l++++ +++  ++pv++ GekG gk+l A++Lh ++++ l++f+v+++ +  ++ +e+           +   kggt
  PHY93_02195|PHY93_02195 326 IGRVPHVASLRSTIMKLKDIEAPVLIYGEKGVGKSLYAKILHVEGQRGLKPFEVIYCEDKDQEAVEKllfgpeeaecrLiacKGGT 411
                              58888999***********************************************************766666655550556**** PP

                              EEEEE-TT--HHHHHHHHHHHHH.....HT.TTT-EEEEEEEE-TTT..----HHHHHHHHSSSEEEEE--- CS
          Sigma54_activ_2  73 LylkdiadlskaeqkeLlellak.....ae.ksslrlVstsskdleqlleagafdekLlkeLselrlhvPpL 138
                                l +i  ls + q + l +l+       +   ++r+V+t+ +dl  l+++g+fd+ L++ Ls+ ++ + pL
  PHY93_02195|PHY93_02195 412 VHLHEIWALSIKSQRKFLTILRDrhipdTKfSLDVRIVATTTRDLGVLVASGEFDRDLYEFLSKATVFIEPL 483
                              *********************999999855589*******************************99988776 PP

>> GAF  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.3   0.0   1.2e-13   2.1e-10       6     126 ..     168     293 ..     163     298 .. 0.84
   2 ?   -1.6   0.0       2.2   3.9e+03      86     124 ..     439     475 ..     413     481 .. 0.75

  Alignments for each domain:
  == domain 1  score: 41.3 bits;  conditional E-value: 1.2e-13
                              HHHHHHHHHHHHTESEEEEEE..EEETTEEECEEEEECCEEEET..TSHHHHHHHHHSSSEEESTGGTSTTHHTTHHHHHHHHTTE CS
                      GAF   6 ldtvveelrellgadrvalyl..pdydGlhydipqasrwlfmkn..grgicgqvlatgqplvipdstpdprfaqynrrdllenmgi 87 
                               +  +ee+ ++l+a+r++l+l  p+ + l++    + r    k     gi+g v++tg +l+i+ + ++ rf++    d   ++++
  PHY93_02195|PHY93_02195 168 IESMLEEVIRILNAQRASLFLinPETNELEAVCALGIRKEQLKFdyRVGIAGSVFTTGVALNIDTVHDSTRFNE--AFDKKLGFET 251
                              56789****************8865666544355566664444444788999************9889999***..67788999** PP

                              SEEEEEEEEE.TTEEEEEEEEEESSS..CSHHHHHHHHHHHH CS
                      GAF  88 rsslvvPlvn.dgelwGllvlhnpsp..pftreelellqvla 126
                              rs ++ P++n +++++G++ + n+++  +ft e++ +++vl+
  PHY93_02195|PHY93_02195 252 RSIICHPIHNgEDKIIGVIEVLNKRNedRFTIEDEKIMKVLS 293
                              *********99************888899*********9987 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 2.2
                              TESEEEEEEEEE.TTEEEEEEEEEESSSCSHHHHHHHHHH CS
                      GAF  86 girsslvvPlvn.dgelwGllvlhnpsppftreelellqv 124
                               ++ sl v +v+ + + +G+lv+     +f+r+  e+l  
  PHY93_02195|PHY93_02195 439 DTKFSLDVRIVAtTTRDLGVLVASG---EFDRDLYEFLSK 475
                              5667888888876444499999999...388888888854 PP

>> HTH_8  Bacterial regulatory protein, Fis family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.5       1.9   3.4e+03      35      42 .]     516     523 ..     514     523 .. 0.89
   2 !   36.9   2.7   1.3e-12   2.3e-09       2      39 ..     588     625 ..     587     626 .. 0.96

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 1.9
                              HHHHHHHT CS
                    HTH_8  35 LyrKLkkY 42 
                              L  KLkkY
  PHY93_02195|PHY93_02195 516 LMEKLKKY 523
                              889****9 PP

  == domain 2  score: 36.9 bits;  conditional E-value: 1.3e-12
                              HHHHHHHHHHHHHHHTTT-HHHHHHHHTS-HHHHHHHH CS
                    HTH_8   2 leevEkelIeaALertgGnkskAArlLGisRrtLyrKL 39 
                              l+ vE+e+I a ++r++GnkskAA++ GisR  L++KL
  PHY93_02195|PHY93_02195 588 LALVEREMIHAEIRRSNGNKSKAAKEMGISREALRKKL 625
                              688**********************************9 PP

>> PilZ  PilZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.6   0.0   3.2e-09   5.7e-06      25     101 ..      41     117 ..      12     119 .. 0.79
   2 ?   -1.7   0.0       2.1   3.8e+03      54      77 ..     429     455 ..     420     465 .. 0.75

  Alignments for each domain:
  == domain 1  score: 26.6 bits;  conditional E-value: 3.2e-09
                              EEEEEEEEESSEEEEEEST-SS-TTSEEEEEEECECEEEEEEEEEEEEEECTCTTE...EEEEEEEEECHHHHHHHHHHH CS
                     PilZ  25 lkgrliDiSlgGlairlpdeelalgdrvelklpldkdqelslpgrVvrvkpeedge...rlGveFldldeeqrellirll 101
                               +++liDiSl+G ++ ++ e++ +g+++ ++l+  k+  ++l+gr+vr+ +++       +G+e+ d d++  + l++++
  PHY93_02195|PHY93_02195  41 NDAKLIDISLTGFGFATA-ERISVGKELLISLQ-YKKYHIDLTGRIVRAFSQTLDDqkiIYGIEI-DEDKAISKFLEHYI 117
                              57899*************.**************.***************9998888877779994.55555556666665 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 2.1
                              EEEE...CECEEEEEEEEEEEEEECTC CS
                     PilZ  54 lklp...ldkdqelslpgrVvrvkpee 77 
                              l++    + +d+++sl++r+v ++ ++
  PHY93_02195|PHY93_02195 429 LTILrdrHIPDTKFSLDVRIVATTTRD 455
                              455556678899999999999998884 PP

>> GAF_3  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.9   0.0   1.1e-08     2e-05       3     119 ..     165     292 ..     163     295 .. 0.78

  Alignments for each domain:
  == domain 1  score: 24.9 bits;  conditional E-value: 1.1e-08
                    GAF_3   3 dellekllkllvkllgaevgalllldedgnklqvaagw.dgkpalsesldedsalarralssgevvse..........psfaeedg 77 
                              + ++e+ l+++ ++l+a++++l+l +++ n+l ++ +    k++l+  +d +   a  ++++g ++             +f+++ g
  PHY93_02195|PHY93_02195 165 EGFIESMLEEVIRILNAQRASLFLINPETNELEAVCALgIRKEQLK--FDYRVGIAGSVFTTGVALNIdtvhdstrfnEAFDKKLG 248
                              6689999*************************99988867777775..55555555555555554444233334444466677888 PP

                    GAF_3  78 lpdraalavPLvagr.qviGvlal.astkprafdaedlellesl 119
                               ++r+++++P+  g+ + iGv+ + + +++  f+ ed+  ++ l
  PHY93_02195|PHY93_02195 249 FETRSIICHPIHNGEdKIIGVIEVlNKRNEDRFTIEDEKIMKVL 292
                              9*********************8548888888******999987 PP

>> HTH_30  PucR C-terminal helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0     4e-05     0.071      10      42 ..     602     634 ..     599     646 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 4e-05
                              HTTT-HHHHHHHHTS-HHHHHHHHHHHHHHHS- CS
                   HTH_30  10 enggnisatAkaLhvHrnTlryRLrrieellgl 42 
                              +++gn+s++Ak+++++r  lr+ L    ++l+ 
  PHY93_02195|PHY93_02195 602 RSNGNKSKAAKEMGISREALRKKLLMSTDILKS 634
                              579********************9888888874 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0    0.0002      0.35       1      41 [.     349     387 ..     349     393 .. 0.69
   2 ?   -2.6   0.0         4   7.2e+03      44      73 ..     539     567 ..     508     576 .. 0.47

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.0002
             RNA_helicase   1 iwlyGpsgeGKStlakeLakallkklklkkkdsvysrnped 41 
                              +++yG++g+GKS++ak L  + +   +lk  + +y+  +++
  PHY93_02195|PHY93_02195 349 VLIYGEKGVGKSLYAKILHVEGQ--RGLKPFEVIYCEDKDQ 387
                              689*************9654444..3344445666666655 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 4
             RNA_helicase  44 wdgYtgqevvvidDfgqvkdeenps.dlael 73 
                                 Y +++++vi D+  + +  +p  d++e+
  PHY93_02195|PHY93_02195 539 AVLY-NPKAHVITDIDIQDSA-SPLvDISEK 567
                              3333.3555666665544333.333344444 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0   0.00019      0.34      24      52 ..     337     365 ..     327     393 .. 0.82
   2 ?   -2.7   0.0       1.9   3.5e+03     113     144 ..     519     550 ..     517     557 .. 0.72

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00019
                    AAA_7  24 yllelllknkkpvllvGptGtGKtviikd 52 
                                + +l + + pvl++G++G+GK++++k 
  PHY93_02195|PHY93_02195 337 STIMKLKDIEAPVLIYGEKGVGKSLYAKI 365
                              44567788899**************9885 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 1.9
                    AAA_7 113 akekygaqppiellRqlldyggwYdrkklefk 144
                              +  ky+    i+ l+q +++  +Y+ k   ++
  PHY93_02195|PHY93_02195 519 KLKKYDWPGNIKELKQSVERAVLYNPKAHVIT 550
                              56677777788899**********99874333 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0    0.0002      0.35       2      41 ..     325     363 ..     324     389 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.0002
                   AAA_16   2 lvGReeeleqLlsalervrsgrpelvllsGesGvGKsslv 41 
                              l+GR   ++ L+s++ ++++ +   vl++Ge+GvGKs  +
  PHY93_02195|PHY93_02195 325 LIGRVPHVASLRSTIMKLKDIE-APVLIYGEKGVGKSLYA 363
                              7888899999999998777666.799***********866 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (654 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       627  (0.0349713); expected 358.6 (0.02)
Passed bias filter:                      522  (0.0291148); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.70u 0.29s 00:00:00.99 Elapsed: 00:00:00.48
# Mc/sec: 4111.90
//
Query:       PHY93_02200|PHY93_02200  [L=269]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      7e-41  138.5   0.2    1.1e-40  137.9   0.2    1.3  1  DisA_N    DisA bacterial checkpoint controller nucleotide-bin
  ------ inclusion threshold ------
        0.1   12.8   0.2       0.23   11.7   0.2    1.5  1  SSPI      Small, acid-soluble spore protein I
        2.1    7.8  11.2        3.2    7.2  11.2    1.3  1  YibE_F    YibE/F-like protein


Domain annotation for each model (and alignments):
>> DisA_N  DisA bacterial checkpoint controller nucleotide-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  137.9   0.2   1.8e-44   1.1e-40       2     117 ..     117     233 ..     116     235 .. 0.97

  Alignments for each domain:
  == domain 1  score: 137.9 bits;  conditional E-value: 1.8e-44
                              HHHHHHHHHT--EEEEEESSSCCCTTCCTSEEEEEE--HHHHHHHTSTTSTTCSSEEEEETTEEEEEEEEE--TT-TTS.ST-SHH CS
                   DisA_N   2 eaveelskkkiGaliviereeelkeiietgvkldaevskellkeifekksplhDGAviirdgrivaagviLplsenkel.kelGtR 86 
                              ea   ls++kiGalivier++ l ++++tg++ld++++++++++ife++s+lhDGA+ii++g+i aag++Lpls+n ++ ++lGtR
  PHY93_02200|PHY93_02200 117 EASGALSREKIGALIVIERTHGLLNFVNTGTRLDCRIHSDIIYSIFESSSSLHDGAIIIQNGKISAAGCFLPLSKNFDIeRHLGTR 202
                              677889*********************************************************************999*77***** PP

                              HHHHHHHHHHSSSEEEEE-TTTS-EEEEETT CS
                   DisA_N  87 HraAlgiseetdalvivVSeetgkislakdg 117
                              HraAlg+se+tdalv++VSeetgki+l+ +g
  PHY93_02200|PHY93_02200 203 HRAALGLSEVTDALVVTVSEETGKINLCVEG 233
                              ***************************9988 PP

>> SSPI  Small, acid-soluble spore protein I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.2   3.8e-05      0.23      32      47 ..      39      54 ..      34      59 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 3.8e-05
                     SSPI 32 EktLpGLGVlfeliWk 47
                              +++ GLGVlf l+W 
  PHY93_02200|PHY93_02200 39 AQMIVGLGVLFGLFWL 54
                             5899***********5 PP

>> YibE_F  YibE/F-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2  11.2   0.00053       3.2       1      65 [.      19      82 ..      19     105 .. 0.80

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.00053
                   YibE_F  1 lllllllfllllllvggkkGlkallslvlnllvlilvllplllkgvspllvalilvilitvvtll 65
                             ++++++l+  lll+v g k+++++++l + + +++l +   l    + +l+ ++ +++i+v++l+
  PHY93_02200|PHY93_02200 19 IFIVTILIYQLLLIVRGTKAAQMIVGLGVLFGLFWLGITFKL-YSLNWVLAHFFDSFFIIVIVLF 82
                             5788899999****************************5555.5778888888877777777766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (269 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       570  (0.0317921); expected 358.6 (0.02)
Passed bias filter:                      306  (0.0170673); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.45
# Mc/sec: 1813.77
//
Query:       PHY93_02205|PHY93_02205  [L=226]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.9e-09   37.2   0.5    0.00012   22.4   0.1    2.4  2  YbbR      YbbR-like protein


Domain annotation for each model (and alignments):
>> YbbR  YbbR-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.1   0.0   5.3e-06     0.095       4      56 ..      35      88 ..      31     123 .. 0.75
   2 !   22.4   0.1   6.6e-09   0.00012       1      66 [.     131     197 ..     131     210 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 5.3e-06
                             E.....EE--TTT-EEEE--.-EEEEEEEE-HHHHHHHTTS----EEE-TT--B CS
                     YbbR  4 e.kventgelaegyvvvsgtpepvtVtvtGpesvldkieevkaevyvDlsglke 56
                             e k+ +   +++g++++s + ++vt +++G++  +++i + k +++vDl+ + +
  PHY93_02205|PHY93_02205 35 ErKLAINYIVPKGFAIASLSEKEVTLKIKGSKAFIQNIFSNKEKLNVDLNPYFA 88
                             5666777889***************************99999888889987766 PP

  == domain 2  score: 22.4 bits;  conditional E-value: 6.6e-09
                              EEEE....EE--TTT-EEEE--.-EEEEEEEE-HHHHHHHTTS----EEE-TT--B...EEE-EEESS- CS
                     YbbR   1 vPVekventgelaegyvvvsgtpepvtVtvtGpesvldkieevkaevyvDlsglke...dvtvevklll 66 
                              +P+ kv  +g  +++ +++ +++ep++ +++Gp ++l+++++ ++ + v+l    +   ++tv+++ l 
  PHY93_02205|PHY93_02205 131 MPI-KVLYIGDAPKDRKIKEVVIEPQSLMISGPIEILKSVSRLETAP-VNLALFNKdegSTTVSLSELD 197
                              699.8999*************************************99.999988887666666665554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (226 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       439  (0.0244855); expected 358.6 (0.02)
Passed bias filter:                      349  (0.0194657); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.25s 00:00:00.77 Elapsed: 00:00:00.47
# Mc/sec: 1434.28
//
Query:       PHY93_02210|PHY93_02210  [L=452]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.3e-38  131.9   0.0    2.3e-38  131.0   0.0    1.4  1  PGM_PMM_I    Phosphoglucomutase/phosphomannomutase, alpha/bet
    2.8e-30  104.8   0.0    4.8e-30  104.1   0.0    1.4  1  PGM_PMM_III  Phosphoglucomutase/phosphomannomutase, alpha/bet
    1.3e-14   54.7   0.1    2.8e-14   53.6   0.1    1.6  1  PGM_PMM_II   Phosphoglucomutase/phosphomannomutase, alpha/bet
    5.7e-11   42.4   0.2    1.5e-10   41.1   0.2    1.8  1  PGM_PMM_IV   Phosphoglucomutase/phosphomannomutase, C-termina
  ------ inclusion threshold ------
       0.13   12.2   0.1       0.29   11.0   0.1    1.6  1  DUF384       Domain of unknown function (DUF384)


Domain annotation for each model (and alignments):
>> PGM_PMM_I  Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  131.0   0.0   6.3e-42   2.3e-38       1     134 [.       4     140 ..       4     143 .. 0.97

  Alignments for each domain:
  == domain 1  score: 131.0 bits;  conditional E-value: 6.3e-42
                              CGGBBTTCEEEECCHCTBSCCHHHHHHHHHHHHCHHC...STS-EEEEEE-S-TTHHHHHHHHHHHHHCCT-CEEEEEEB-HHHHH CS
                PGM_PMM_I   1 rqkfgtsGlRgkvgegeltpelveklgqaiaeylkae...akkkkvvvGrDtRvssrelaealaaglaanGvevillgllptPavs 83 
                              r++fgt+G+Rgk+++ ++t+e +++lg+a+ +y++++   ++k+ ++vG+DtR s  +l+ a+a+g+ ++G evil+g+lptP ++
  PHY93_02210|PHY93_02210   4 RKLFGTDGIRGKANVYPMTAEIATALGRAVTHYFQSTnptNTKPLIIVGKDTRLSCYMLEMAFASGVCSQGGEVILTGPLPTPGIA 89 
                              579**********************************99999******************************************** PP

                              HHHHHCCECEEEEE--TTS-TTCCCEEEEETTTCE--CHHHHHHHHHHCCT CS
                PGM_PMM_I  84 fairklkadagimitaSHnppeyngiKvylsnGgpispeveekIeaiieke 134
                              f +++++adag+mi+aSHn  ++ngiK+++ +G +++++ve ++e+ + + 
  PHY93_02210|PHY93_02210  90 FVTHSMRADAGVMISASHNHFQDNGIKIFDGKGFKLPDSVELELERLVLNS 140
                              ********************************************9988765 PP

>> PGM_PMM_III  Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  104.1   0.0   1.3e-33   4.8e-30       1     109 [.     264     373 ..     264     377 .. 0.96

  Alignments for each domain:
  == domain 1  score: 104.1 bits;  conditional E-value: 1.3e-33
                              HHHHHHHHHHHHHHCH.CSTTTCEEEEETTS-THHHHHHHHTT-EEEEESSSCHHHHHHHHHTTECEEEETTCEEEETTTBSS--H CS
              PGM_PMM_III   1 dgdqllallakyllee.klkpgagvvktvmtslalervakklgiklvetkvGdkyvleemkeegavlGgEeSghiifldeattkDG 85 
                              dgd+l+ l+ak ll++ +lk+g +vv+tvm++l+le ++k+lg+++v+tkvGd+y++e m+++g+ lGgE Sghiif +++tt+DG
  PHY93_02210|PHY93_02210 264 DGDKLIGLFAKLLLSRgELKKGDTVVGTVMSNLGLELYIKSLGLNFVRTKVGDRYIIEYMRSNGCILGGEPSGHIIFIKHSTTGDG 349
                              79*********9999998888889************************************************************** PP

                              HHHHHHHHHHHHHHTS-HHHHHHH CS
              PGM_PMM_III  86 ilaallvleilaetgkslsellee 109
                              +l al+v+e ++  + +l++l++e
  PHY93_02210|PHY93_02210 350 ALGALKVIESMKYFNLPLKDLVAE 373
                              *************9*******965 PP

>> PGM_PMM_II  Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.6   0.1   7.7e-18   2.8e-14       3     103 .]     164     260 ..     162     260 .. 0.86

  Alignments for each domain:
  == domain 1  score: 53.6 bits;  conditional E-value: 7.7e-18
                              HHHHGGGTS-HHHHHHHT-EEEEE-TT-TTHHHHHHHHHHTT-EEEES-----TT-TT...SS----TT-TTTTHHHHGGGGG-SE CS
               PGM_PMM_II   3 YiealkekvdseaikksglkvvidplhGaggeilkellkelgvdvvelnaepdpdfpt...kapnpeekealkllielvkkegadl 85 
                              Yi ++k+++       +g+++v+d+++Gag ++++ +++elg++v +l   p+++  +   ++ +pe+      + + v k++ad+
  PHY93_02210|PHY93_02210 164 YIVHVKSALA-YDYDLDGMRIVLDCANGAGYKVTPMMFHELGAEVFPLGISPNGENINkncGSLHPEA------ARAEVLKYRADI 242
                              7777777776.33445678***********************************99997666666666......66789******* PP

                              EEEE-TTS-BEEEEETTE CS
               PGM_PMM_II  86 glafDgDaDRlgvvderG 103
                              g+++DgD+DR+ v+de+G
  PHY93_02210|PHY93_02210 243 GVCIDGDGDRVTVIDEEG 260
                              ****************98 PP

>> PGM_PMM_IV  Phosphoglucomutase/phosphomannomutase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.1   0.2   4.1e-14   1.5e-10       3      71 ..     383     447 ..     381     450 .. 0.88

  Alignments for each domain:
  == domain 1  score: 41.1 bits;  conditional E-value: 4.1e-14
                              CCCHCC-TT..EECCCCCTTHHCCCCCCCCGCCEEEE.EEEETTCCEEEEEEEESSHHHHHHHHHHHHH CS
               PGM_PMM_IV   3 nvrveekakvvaalaallkvasikeglkilledGrrlavRpSGTepllrvyvEaksdeelarlaeevae 71 
                              nv v++k   ++ +a +++   ik++++ ll++Gr+l +R SGTe+llrv+vE+   e +++  +++++
  PHY93_02210|PHY93_02210 383 NVIVKNKPP-LESVASIQEG--IKKAEERLLGKGRVL-LRYSGTESLLRVMVEGNIAETVEEECQRLID 447
                              778888655.8999999888..***************.****************999999998888776 PP

>> DUF384  Domain of unknown function (DUF384)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.1   8.2e-05      0.29      10      48 ..     412     450 ..     411     452 .] 0.94

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 8.2e-05
                   DUF384  10 hgReyLRskgvYpilRelhkaekdeeveeaierlVqvLi 48 
                              +gR +LR  g+  +lR + +    e vee ++rl+++  
  PHY93_02210|PHY93_02210 412 KGRVLLRYSGTESLLRVMVEGNIAETVEEECQRLIDIVT 450
                              69**********************************975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (452 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       342  (0.0190752); expected 358.6 (0.02)
Passed bias filter:                      326  (0.0181828); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.60u 0.26s 00:00:00.86 Elapsed: 00:00:00.48
# Mc/sec: 2819.59
//
Query:       PHY93_02215|PHY93_02215  [L=252]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.1e-75  253.7   0.2    1.3e-75  253.5   0.2    1.0  1  PdxJ         Pyridoxal phosphate biosynthesis protein PdxJ
  ------ inclusion threshold ------
       0.14   12.2   0.0        0.7   10.0   0.0    1.9  2  Aegerolysin  Aegerolysin
       0.15   12.3   0.0       0.55   10.5   0.0    1.9  2  LPD22        Large polyvalent protein associated domain 22


Domain annotation for each model (and alignments):
>> PdxJ  Pyridoxal phosphate biosynthesis protein PdxJ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  253.5   0.2   2.1e-79   1.3e-75       1     232 [.       7     246 ..       7     248 .. 0.96

  Alignments for each domain:
  == domain 1  score: 253.5 bits;  conditional E-value: 2.1e-79
                              EEEEE-HHHHHHHHCCSSS-S-HHHHHHHHHCCT.SEEEEE--TT-SSS-HHHHHHHHHH-SS...EEEEEEESSHHHHHHHHHH- CS
                     PdxJ   1 kLgVnidhvAtlRnarggnePdvveaaelaeeaGAdgitvhlreDrRhiqdeDveelkelvkt...elnlEmalteemleialelk 83 
                              +Lg+nidhvAtlR+arg+++P+vv+aa++    GAd+it+hlreDrRhiqd Dve+++ ++k+   +lnlEm +++e++eia++  
  PHY93_02215|PHY93_02215   7 RLGINIDHVATLRQARGEEYPSVVDAAQVSLLNGADQITIHLREDRRHIQDYDVEAVRLVTKRfgkPLNLEMGVNPEIVEIAIAST 92 
                              79*******************************************************999987888******************** PP

                              -SEEEEE--SCCCCSTTSSB-T..GGCHCCHHHHHHHHHHT..T-EEEEEE-S-HHHHHHHHHCT-SEEEEETHHHHHHCCH.HHH CS
                     PdxJ  84 peqvtLVPekreelttegGldv..akeeeklkevikelkea..girvslFidpdkeqieaaaelgadvvELhtgaYaeaaee.eer 164
                              pe++++VPekree ttegGld+   +++ ++++++k+lk++  ++++slF++++ e+++ a el +d+vE+htg++a+ +++ +++
  PHY93_02215|PHY93_02215  93 PEWICIVPEKREEKTTEGGLDLldDNNFIRIEDAVKKLKASikDVKISLFLEAKMETLARAVELPIDAVEIHTGEFAKVFANgDDT 178
                              **********************5556667899*******96559************************************998888 PP

                              HHHHHHHHHHHHHHHHTT-EEEEETT--TTTCHHHHTSTTEEEEEE-HHHHHHHHHH-HHHHHHHHHH CS
                     PdxJ 165 eeelerlkeaaklakelgLevnaGHgLnyenvkaiakipeieelnIGhaliaealfvGleeavremke 232
                              ++ +e++k+a ++ k++++ ++aGHgL+ e+v ++ + + +ee nIGh +i+++lf Gl+++v+++k+
  PHY93_02215|PHY93_02215 179 SQFIEQYKSAHEFLKSHKVACHAGHGLTDESVVPLLESNIFEEYNIGHWIICQSLFKGLADTVKNLKA 246
                              ****************************************************************9987 PP

>> Aegerolysin  Aegerolysin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.0   0.00012       0.7       3      82 ..      43     121 ..      41     125 .. 0.84
   2 ?    0.6   0.0     0.094   5.6e+02       7      63 ..     122     177 ..     120     180 .. 0.62

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.00012
                              EEEE.EEEE-SS.S-EEEEEEEEEESEEEETTEEEEEE-GGGTTT-EE-TT-EEEEEEE--TT-S--EEEEEEEECTT-EE CS
              Aegerolysin   3 wvkieilnelks.edlkirnaklesGkfykendkdkeitaedveelvikpggsrevascGrenaasGteGtldlvdgekki 82 
                              +++i+++++  + +d  ++  +l   +f k+ + +  + +e ve  ++ + + ++++   ++   + teG ldl+d+++ i
  PHY93_02215|PHY93_02215  43 QITIHLREDRRHiQDYDVEAVRLVTKRFGKPLNLEMGVNPEIVE--IAIASTPEWICIVPEKREEKTTEGGLDLLDDNNFI 121
                              677888766554378999999999*****************999..44457899999999999**************9877 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.094
                              .EEEE-SSS-EEEEEEEEEESEEEETTEEEEEE-GGGTTT-EE-TT-EEEEEEE--T CS
              Aegerolysin   7 eilnelksedlkirnaklesGkfykendkdkeitaedveelvikpggsrevascGre 63 
                              +i++ +k+ + +i++ k++   + ++ ++ ++  +  +++++i+ g+  +v++ G +
  PHY93_02215|PHY93_02215 122 RIEDAVKKLKASIKDVKISL-FLEAKMETLARAVELPIDAVEIHTGEFAKVFANGDD 177
                              66666666666666666653.122333444555566688888999999999998875 PP

>> LPD22  Large polyvalent protein associated domain 22
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0      0.67     4e+03      79      96 ..     118     135 ..     115     137 .. 0.81
   2 ?   10.5   0.0   9.2e-05      0.55      18      71 ..     144     198 ..     143     201 .. 0.91

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 0.67
                    LPD22  79 enLsrlekalrslkeale 96 
                              +n  r+e+a+++lk++++
  PHY93_02215|PHY93_02215 118 NNFIRIEDAVKKLKASIK 135
                              677899999999999876 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 9.2e-05
                    LPD22  18 aAralrlaeelGlppdvvernleaferaa.eaedwdalledsPatakwladpdna 71 
                              +A+++ la+++ lp d+ve +  +f++   +  d  +++e++    ++l++ + a
  PHY93_02215|PHY93_02215 144 EAKMETLARAVELPIDAVEIHTGEFAKVFaNGDDTSQFIEQYKSAHEFLKSHKVA 198
                              69***********************9997799**********9999999887765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (252 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       610  (0.0340231); expected 358.6 (0.02)
Passed bias filter:                      524  (0.0292264); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.56u 0.26s 00:00:00.82 Elapsed: 00:00:00.47
# Mc/sec: 1614.74
//
Query:       PHY93_02220|PHY93_02220  [L=139]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.6e-23   80.7   0.0    1.1e-22   80.4   0.0    1.1  1  TsaE             Threonylcarbamoyl adenosine biosynthesis pro
    0.00032   20.3   0.0    0.00047   19.8   0.0    1.2  1  cobW             CobW/HypB/UreG, nucleotide-binding domain
     0.0023   17.0   0.0     0.0027   16.8   0.0    1.2  1  T2SSE            Type II/IV secretion system protein
     0.0084   16.4   0.0      0.019   15.2   0.0    1.5  1  AAA_22           AAA domain
  ------ inclusion threshold ------
      0.021   15.0   0.0      0.022   14.9   0.0    1.2  1  AAA_33           AAA domain
      0.023   15.3   0.0      0.032   14.8   0.0    1.5  1  AAA_18           AAA domain
      0.025   14.3   0.0      0.033   13.9   0.0    1.2  1  Sigma54_activat  Sigma-54 interaction domain
      0.035   14.1   0.0      0.049   13.7   0.0    1.3  1  AAA_14           AAA domain
      0.039   14.3   0.0      0.047   14.1   0.0    1.2  1  AAA_16           AAA ATPase domain
      0.051   13.3   0.0      0.084   12.6   0.0    1.4  1  ATP_bind_1       Conserved hypothetical ATP binding protein
      0.072   12.3   0.0      0.072   12.3   0.0    1.2  1  KAP_NTPase       KAP family P-loop domain
       0.11   11.8   0.0       0.15   11.3   0.0    1.2  1  Zeta_toxin       Zeta toxin
       0.11   12.3   0.0       0.14   11.9   0.0    1.2  1  AAA_30           AAA domain
       0.13   12.1   0.0       0.17   11.8   0.0    1.3  1  RsgA_GTPase      RsgA GTPase
       0.16   12.4   0.6        1.4    9.4   0.1    2.2  3  AAA              ATPase family associated with various cellul
       0.18   11.9   0.0       0.24   11.5   0.0    1.3  1  Sigma54_activ_2  Sigma-54 interaction domain


Domain annotation for each model (and alignments):
>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   80.4   0.0   9.5e-26   1.1e-22       5     123 ..      13     133 ..      10     135 .. 0.80

  Alignments for each domain:
  == domain 1  score: 80.4 bits;  conditional E-value: 9.5e-26
                              HHHHHHHHHHHHCH..TEEEEEEESTTSSHHHHHHHHHHHTT------TTTTSEEEEEE..SSEEEEE-TT-SSTHHHHHCTTCCC CS
                     TsaE   5 eetealgkklakal..gdvilLeGdLGaGKTtlvrglakalgveevkSPTFtlveeYelekeglyHfDlYRledeeeleelgleey 88 
                              +++ +++++l++++    vi+LeG++GaGKTt++r++++     +  SPT++l++e +    +++H+DlYR+e++eel +l++  y
  PHY93_02220|PHY93_02220  13 SDLANIATELKEVVqpPCVIILEGPVGAGKTTFTRAFIERD---KAASPTYSLINEID----NIVHADLYRIEKKEELIHLEIPMY 91 
                              6788999999997777778*******************995...789**********5....5*********************** PP

                              CSTSCEEEEETGGG....GCCCS-S....-CEEEEEEEETCEE CS
                     TsaE  89 leeeavvlvEWpek....leellpe....edleieleeeeeer 123
                              lee+ ++l+EW+      l++++ +     +l+ie++e++ +r
  PHY93_02220|PHY93_02220  92 LEEKDYFLIEWGMPylyeLQRIIGDefkfYQLKIEINEQK-SR 133
                              *9888******99844433333322344456677776654.55 PP

>> cobW  CobW/HypB/UreG, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.8   0.0   4.2e-07   0.00047       2      54 ..      31      84 ..      30      89 .. 0.81

  Alignments for each domain:
  == domain 1  score: 19.8 bits;  conditional E-value: 4.2e-07
                             EEEEEESTTCCHHHHHHHHH.CT--SS-EEEEESS-SS.CHCCCCCCHCCCT.EE CS
                     cobW  2 vtvltGflGsGKTtLlnhll.enraglklavivNefge.vsiDaellretgveiv 54
                             v++l G++G+GKTt+ ++ + +++a   +  ++Ne+ + v+ D  +++++++ ++
  PHY93_02220|PHY93_02220 31 VIILEGPVGAGKTTFTRAFIeRDKAASPTYSLINEIDNiVHADLYRIEKKEE-LI 84
                             799*****************8777777888899***9966778777877744.44 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   2.4e-06    0.0027     113     151 ..      13      51 ..       6      87 .. 0.88

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 2.4e-06
                    T2SSE 113 alkekiaevlrkavrerglilvsGgTgsGKttllyallk 151
                              ++ ++ia  l++ v+  ++i++ G+ g GKtt++ a ++
  PHY93_02220|PHY93_02220  13 SDLANIATELKEVVQPPCVIILEGPVGAGKTTFTRAFIE 51 
                              5667889999999999******************99876 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0   1.7e-05     0.019       7      31 ..      31      55 ..      27      87 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 1.7e-05
                   AAA_22  7 ilvvtGesGtGKTtllrrlleqlde 31
                             ++++ G++G+GKTt  r + e++++
  PHY93_02220|PHY93_02220 31 VIILEGPVGAGKTTFTRAFIERDKA 55
                             58999****************9743 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.0     2e-05     0.022       1      27 [.      31      62 ..      31     115 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 2e-05
                   AAA_33  1 lvllvGlpGsGKstlaerllkklg.....avl 27
                             +++l G+ G+GK+t+ +  +++ +     + l
  PHY93_02220|PHY93_02220 31 VIILEGPVGAGKTTFTRAFIERDKaasptYSL 62
                             89***************998776655444555 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   0.0   2.9e-05     0.032       1      22 [.      32      53 ..      32     114 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 2.9e-05
                   AAA_18  1 IlltGtpGvGKttlakeLskrl 22
                             I+l G+ G+GKtt++++  +r 
  PHY93_02220|PHY93_02220 32 IILEGPVGAGKTTFTRAFIERD 53
                             9***************986654 PP

>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   2.9e-05     0.033       7      57 ..      14      64 ..      10      79 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 2.9e-05
                             HHHHHHHHHHHHCTSSS-EEEECSTTSSHHHHHHHHHHHSTTTTS-EEEEE CS
          Sigma54_activat  7 alkelleqikkvaktdlsvlitGesGtGKellaraiheaskrkekpfvavn 57
                              l+++ +++k+v++ ++ ++++G  G+GK+++ ra  e+ k ++  +  +n
  PHY93_02220|PHY93_02220 14 DLANIATELKEVVQPPCVIILEGPVGAGKTTFTRAFIERDKAASPTYSLIN 64
                             577889999**************************9998887777666665 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   4.3e-05     0.049       4      65 ..      31      95 ..      29     128 .. 0.67

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 4.3e-05
                   AAA_14  4 ilvitGaRrvGKTtllkqlikell.........vkkesilyinldderdkkladpekllelileklkeekk 65
                             +++++G+  +GKTt+ + +i++            + ++i+  +l + ++k++    +++ ++       +k
  PHY93_02220|PHY93_02220 31 VIILEGPVGAGKTTFTRAFIERDKaasptysliNEIDNIVHADLYRIEKKEELIHLEIPMYLE------EK 95
                             789*****************9988555444444444444444444444443332222333333......33 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   4.2e-05     0.047       7      51 ..      13      56 ..      10      98 .. 0.74

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 4.2e-05
                   AAA_16  7 eeleqLlsalervrsgrpelvllsGesGvGKsslvrellralekd 51
                              +l+ +++ l+ v ++ p++++l G+ G GK++  r++ ++ +++
  PHY93_02220|PHY93_02220 13 SDLANIATELKEVVQP-PCVIILEGPVGAGKTTFTRAFIERDKAA 56
                             5677788888888877.69999***************99865554 PP

>> ATP_bind_1  Conserved hypothetical ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   7.5e-05     0.084       3      31 ..      36      64 ..      33      90 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 7.5e-05
               ATP_bind_1  3 GpaGsGKttfvgalseilelrgrsvavvN 31
                             Gp+G+GKttf++a++e  ++   ++ ++N
  PHY93_02220|PHY93_02220 36 GPVGAGKTTFTRAFIERDKAASPTYSLIN 64
                             9**************99888877777777 PP

>> KAP_NTPase  KAP family P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   6.4e-05     0.072       7      47 ..      17      56 ..      12     132 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 6.4e-05
               KAP_NTPase  7 aladilseptlatpivvgLygkWGsGKssllnkledelkef 47
                             ++a+ l+e  +++p v+ L+g+ G+GK+++   +++  k  
  PHY93_02220|PHY93_02220 17 NIATELKEV-VQPPCVIILEGPVGAGKTTFTRAFIERDKAA 56
                             678888888.5*******************98887766555 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00013      0.15      12      39 ..      24      52 ..      13      65 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00013
               Zeta_toxin 12 sq.erPklillgGqpGAGKselaellkde 39
                             +  + P +i+l G  GAGK++  +++ ++
  PHY93_02220|PHY93_02220 24 EVvQPPCVIILEGPVGAGKTTFTRAFIER 52
                             444889****************9998876 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   0.00012      0.14      19      45 ..      30      56 ..      19      69 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00012
                   AAA_30 19 rvavltGpAGtGKttalkalreaweaa 45
                              v +l+Gp G+GKtt  +a  e  +aa
  PHY93_02220|PHY93_02220 30 CVIILEGPVGAGKTTFTRAFIERDKAA 56
                             4899************99987766655 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   0.00015      0.17      88     125 ..      17      55 ..       3      82 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00015
                              TTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT--- CS
              RsgA_GTPase  88 egleelkellkd.ktsvlvGqSGvGKStLinallpelel 125
                              + ++elke+++   +++l G+ G+GK+t+  a+++++++
  PHY93_02220|PHY93_02220  17 NIATELKEVVQPpCVIILEGPVGAGKTTFTRAFIERDKA 55 
                              5567899999998899999***********999887655 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.0      0.75   8.4e+02      37      64 ..       6      34 ..       2      35 .. 0.73
   2 ?    9.4   0.1    0.0012       1.4       1      20 [.      32      51 ..      32      60 .. 0.87
   3 ?    1.5   0.0      0.33   3.7e+02      51      74 ..      51      73 ..      46      87 .. 0.67

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.75
                             SSTTHHHHHHHHHHHHHHHTSTS.EEEEE CS
                      AAA 37 kyvgesekkirelfkeakekakp.silfi 64
                             ++ +  e++++++ +e+ke  +p +++++
  PHY93_02220|PHY93_02220  6 EWKKVLESDLANIATELKEVVQPpCVIIL 34
                             56677788899999998888855488886 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.0012
                             EEEESSTTSSHHHHHHHHHH CS
                      AAA  1 vllyGppGtGKTllakavak 20
                             ++l Gp G GKT++ +a ++
  PHY93_02220|PHY93_02220 32 IILEGPVGAGKTTFTRAFIE 51
                             6899***********99876 PP

  == domain 3  score: 1.5 bits;  conditional E-value: 0.33
                             HHHHHTSTSEEEEEETGGGHHHHH CS
                      AAA 51 keakekakpsilfiDEidalaksr 74
                             ++ k+ + p+  +i Eid+++ ++
  PHY93_02220|PHY93_02220 51 ERDKAAS-PTYSLINEIDNIVHAD 73
                             4444444.7778999999999887 PP

>> Sigma54_activ_2  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00022      0.24       8      46 ..      16      54 ..      12      88 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00022
                             HHHHHHHHHHHT-SS-EEEEEETT--HHHHHHCC--TTS CS
          Sigma54_activ_2  8 qelkerLeqaaqsklpvfltGekGsgkelvArlLhknsg 46
                             ++++++L++++q   ++ l G+ G+gk+++ r++ + + 
  PHY93_02220|PHY93_02220 16 ANIATELKEVVQPPCVIILEGPVGAGKTTFTRAFIERDK 54
                             6799****************************9987654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (139 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       521  (0.0290591); expected 358.6 (0.02)
Passed bias filter:                      383  (0.021362); expected 358.6 (0.02)
Passed Vit filter:                        77  (0.00429472); expected 17.9 (0.001)
Passed Fwd filter:                        16  (0.000892409); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              16  [number of targets reported over threshold]
# CPU time: 0.58u 0.30s 00:00:00.87 Elapsed: 00:00:00.57
# Mc/sec: 735.94
//
Query:       PHY93_02225|PHY93_02225  [L=170]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.3e-28   97.2   0.0      9e-28   96.5   0.0    1.4  1  Rrf2          Transcriptional regulator
     0.0059   16.2   0.1     0.0099   15.5   0.1    1.4  1  HrcA_DNA-bdg  Winged helix-turn-helix transcription repressor


Domain annotation for each model (and alignments):
>> Rrf2  Transcriptional regulator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   96.5   0.0     1e-31     9e-28       1      83 []       1      83 [.       1      83 [. 0.99

  Alignments for each domain:
  == domain 1  score: 96.5 bits;  conditional E-value: 1e-31
                             X---HHHHHHHHHHHHHHHSSTCC-B-HHHHHHHHTS-HHHHHHHHHHHHHTTSEEEETTT-TCEEESSHCCCSBHHHHHHHH CS
                     Rrf2  1 MklsskteyalhallyLakeeeeepvsseeiaerqnispsylekilakLrkaglvksvrGkgGGyrLakppeeItlldvvrav 83
                             M+l+sk++ya++a+l+L+++++++pv+++ei++rqnis +yle++++kLr+   vksvrG+gGGy+La++ ++It+ dv+++v
  PHY93_02225|PHY93_02225  1 MRLTSKGRYAVRAMLDLTSHSNGNPVRLQEISTRQNISLHYLEQLFRKLRNGQAVKSVRGPGGGYVLARNMDQITIKDVLECV 83
                             9*******************************************************************************987 PP

>> HrcA_DNA-bdg  Winged helix-turn-helix transcription repressor, HrcA DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.1   1.1e-06    0.0099       2      64 ..       3      66 ..       2      79 .. 0.88

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.1e-06
             HrcA_DNA-bdg  2 LtsvqkeilqaLielyrkk.kravKgeeiAevlkrneGtvRNqlqsLkalgLvegvpGPkGGYk 64
                             Lts  +  ++a+++l  ++ +++v+ +ei    +    ++   +  L+  + v++v GP GGY+
  PHY93_02225|PHY93_02225  3 LTSKGRYAVRAMLDLTSHSnGNPVRLQEISTRQNISLHYLEQLFRKLRNGQAVKSVRGPGGGYV 66
                             6777778889999999887689*****************************************7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (170 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       404  (0.0225333); expected 358.6 (0.02)
Passed bias filter:                      354  (0.0197445); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.30s 00:00:00.86 Elapsed: 00:00:00.56
# Mc/sec: 920.52
//
Query:       PHY93_05910|PHY93_05910  [L=289]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (289 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       496  (0.0276647); expected 358.6 (0.02)
Passed bias filter:                      329  (0.0183502); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.49
# Mc/sec: 1783.83
//
Query:       PHY93_02230|PHY93_02230  [L=387]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.1e-34  119.1   0.0    2.5e-34  118.8   0.0    1.1  1  Aminotran_5  Aminotransferase class-V


Domain annotation for each model (and alignments):
>> Aminotran_5  Aminotransferase class-V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  118.8   0.0   1.4e-38   2.5e-34       2     369 ..       6     374 ..       5     376 .. 0.86

  Alignments for each domain:
  == domain 1  score: 118.8 bits;  conditional E-value: 1.4e-38
                              EEBTTTS----HHHHHHHHHHHHCTCCSSSSSSSHHHHHHHHHHHHHHHHHHHHHT-S.TGGGEEEESSHHHHHHHHHHHCCCC.- CS
              Aminotran_5   2 yldsaAttqkpqeVldalqeyytdynanvhrsvhhlgkeatkaveearekvaelinae.seeeiiftsGtteainlvalslars.l 85 
                              y+d++At+++ ++V+  lq   +   +n+ +s+h+ gk+  k ++e+++ + + +  + ++ ++ + sG+te+in++ +++a + +
  PHY93_02230|PHY93_02230   6 YFDYNATSPLSKKVIGFLQGG-EFLFGNP-SSLHQTGKKSRKYINETTDYLFQTFSLDpKDFNLFYHSGATEGINTFFKGVALKyF 89 
                              9**************988876.6689***.9*************999997766666550556777789**************9997 PP

                              TTTS..EEEEETTSHGGGTHHHHHHHHHHTEEEEEEEBETTSCBEGGGHHHH--TTEEE.....EEEESBETTTTEB--HHHHHHH CS
              Aminotran_5  86 kpgd..eivvteaehhanlvpwqelakrtgakvkvipldeegeldldelekllnektkl.....vaithvsnvtGtiqpveeigkl 164
                              k+++  ++  ++++h + ++   +l+ + g +v ++++++eg+ d++el +++n++  l     + +t ++n+tG++ p+    k+
  PHY93_02230|PHY93_02230  90 KEKKvaSFFFSTVDHACVVLLKDDLE-ALGHHVFFFEVNREGLFDTQELITKINHQQHLghesfINFTYINNETGIVWPLSLALKI 174
                              7775337899*********9999998.99************************9987654444489***************99988 PP

                              HHHTT-EEEEE-TTTTTTS-.--HHHHTESEEEEETTTTTSSTT-EEEEEEHHHHHTS..SS.STTSEEEEETTEEEEHCTTGGGS CS
              Aminotran_5 165 akkkgalvlvDaaqavghip.idvkklgvDflafsghKllgPtGiGvlyvrkellekleplllggemveevsleettfaeapskfe 249
                                + +a+++vDa+q vg+i   +     +D ++fsghK+ + +G+G+ +v+++l  k+ pll+gg+       ++ +       ++
  PHY93_02230|PHY93_02230 175 KEETNAFLHVDAVQLVGKISnWNHLSPVLDAYTFSGHKFGALKGVGFSFVKNDL--KFSPLLVGGN-------QQLG-------LR 244
                              8889**************95256667779***********************65..799*******.......7777.......99 PP

                              .SS--HHHHHHHHHHHHHH.HCHHHHHHHHHHHHHHHHHHHHHCTSTTEEEES.-B-CTCBSEEEEEETTCSHHHHHHHHHHTTEE CS
              Aminotran_5 250 aGTpnvagiiglgaaleyl.eeigleaiekhekelaeyllerlkslpgvrlygpdkaerrasivsfnfkgvhaedvatlLdeegIa 334
                               GT+nv+gi++l++ale + e + +++  + ++e  ++l + +   ++v  ++  + er+ +++ ++++g +ae +    d +++ 
  PHY93_02230|PHY93_02230 245 PGTENVIGIYSLKLALEDIkEHFSATELLEAKNEIESKLINLIGTKGEVVGFH--SPERNLNTIFLVLHGQKAEILSAKFDLQKVD 328
                              9******************8889999999999999999999999888876655..4699999999********************* PP

                              EEEE-TTT.......HHHHHHTT.S...........-EEEEE--TTS-HHHHH CS
              Aminotran_5 335 vrsGhhca.......qplmkrlale...........gtvRaSlyiynteeevd 369
                              +++G++c+       ++                   +++R+S+   +++ e +
  PHY93_02230|PHY93_02230 329 LSTGSACSsgiikenRI-------LmsmgysfddsrSSLRFSFSPLMKKSEAQ 374
                              ********665555433.......223445556777*******9999988765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (387 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       440  (0.0245412); expected 358.6 (0.02)
Passed bias filter:                      350  (0.0195214); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.30s 00:00:00.86 Elapsed: 00:00:00.49
# Mc/sec: 2375.45
//
Query:       PHY93_02235|PHY93_02235  [L=236]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.3e-54  183.2  33.7      6e-54  183.0  33.7    1.0  1  Bax1-I    Inhibitor of apoptosis-promoting Bax1
  ------ inclusion threshold ------
        2.3    8.1  12.4       0.78    9.7   0.8    3.2  3  DUF378    Domain of unknown function (DUF378)


Domain annotation for each model (and alignments):
>> Bax1-I  Inhibitor of apoptosis-promoting Bax1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  183.0  33.7   6.7e-58     6e-54       2     206 ..      21     232 ..      20     233 .. 0.94

  Alignments for each domain:
  == domain 1  score: 183.0 bits;  conditional E-value: 6.7e-58
                   Bax1-I   2 aflrkvYgllalgllltalvaavvlsspa..qlflslhivlflvvilaplalvflslsaarlkkkssalalallllftlleGlsls 85 
                              af+++vY+++++g+l+t++va ++ + ++  q+++++  +lf+vvi+a+++lv+ s+s   ++++s  +a+al+ll+++l+G+++s
  PHY93_02235|PHY93_02235  21 AFMTRVYQWMSIGVLITGFVASFIGTNESlvQTIMQN-RALFWVVIIAQFGLVL-SISG-LINRMSVLTATALFLLYSALTGVTFS 103
                              79*********************99999997666666.99*************8.4443.6889999999**************** PP

                   Bax1-I  86 pillvytgaiilqaflltaaifgglslyalttkrdlsglggflfagligliiaslvnlFlp...ssalelaisylgvllfsglily 168
                              +i+++yt+a+i +af++ta+ fggl++++++tk+dl   g+f ++gl+g+i +sl+++F+p   ++a  la+s++g+l+f+gl++y
  PHY93_02235|PHY93_02235 104 VIFAIYTAASIQSAFFTTAIGFGGLTAFGYFTKKDLGPVGSFCMMGLFGMIGFSLLSMFFPsmmGGAAGLAYSLIGLLVFAGLTAY 189
                              *************************************************************999999******************* PP

                   Bax1-I 169 Dtqkiierageygee.....dailaalsLyldfinlFlslLri 206
                              Dtqki+   +++ +e      +il+al+LyldfinlF+++Lr+
  PHY93_02235|PHY93_02235 190 DTQKIKMIGRQTFNEedkgrATILGALTLYLDFINLFMMILRL 232
                              *****9988888888899***********************97 PP

>> DUF378  Domain of unknown function (DUF378)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   2.8    0.0071        64      18      51 ..      29      67 ..      27      76 .. 0.72
   2 ?   -1.4   0.6      0.24   2.2e+03      28      34 ..      71      77 ..      59     119 .. 0.64
   3 ?    9.7   0.8   8.7e-05      0.78      18      50 ..     148     180 ..     146     188 .. 0.93

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.0071
                   DUF378 18 WgliGlfdfdLVaalfgg.....essllsriiYilVgla 51
                             W  iG++   +Va+++g+     ++ + +r  +++V +a
  PHY93_02235|PHY93_02235 29 WMSIGVLITGFVASFIGTneslvQTIMQNRALFWVVIIA 67
                             9****************9444433334445556666665 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.24
                   DUF378 28 LVaalfg 34
                             LV ++ g
  PHY93_02235|PHY93_02235 71 LVLSISG 77
                             4443333 PP

  == domain 3  score: 9.7 bits;  conditional E-value: 8.7e-05
                   DUF378  18 WgliGlfdfdLVaalfggessllsriiYilVgl 50 
                               gl+G+++f L +++f +++   + + Y+l+gl
  PHY93_02235|PHY93_02235 148 MGLFGMIGFSLLSMFFPSMMGGAAGLAYSLIGL 180
                              599*****************************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (236 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       935  (0.0521501); expected 358.6 (0.02)
Passed bias filter:                      295  (0.0164538); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.26s 00:00:00.82 Elapsed: 00:00:00.48
# Mc/sec: 1486.55
//
Query:       PHY93_02240|PHY93_02240  [L=217]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.9e-49  166.8  17.5    4.5e-49  166.6  17.5    1.0  1  MarC             MarC family integral membrane protein
  ------ inclusion threshold ------
        1.1    9.5  16.7      0.055   13.7   4.2    3.1  4  DUF3784          Domain of unknown function (DUF3784)


Domain annotation for each model (and alignments):
>> MarC  MarC family integral membrane protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  166.6  17.5     5e-53   4.5e-49       3     203 .]      12     212 ..      10     212 .. 0.97

  Alignments for each domain:
  == domain 1  score: 166.6 bits;  conditional E-value: 5e-53
                     MarC   3 aiikafvsLlaiinplgnvpvflslleevskeerkrialkasilallillvfllfGelilklfgisidalkiaGgillfliaidml 88 
                               ++k+ ++L++iinplg++pvfl+ +++ ++ + k+++ + +   ++ +lv+llfG+l+l++fgis+ ++ i+Gg llf++a++m+
  PHY93_02240|PHY93_02240  12 DVVKFSITLISIINPLGAIPVFLGFTKNHKNLNIKNVTNTCATACTITILVSLLFGQLLLNFFGISVASFTIGGGFLLFTMAFSMI 97 
                              578999**********************************99999999************************************** PP

                     MarC  89 kakqkkekkkkseeeeseekdeiavvPLAlPliaGPgaittvlvlaseassivekvavvlaillaalitllilllsslilrllgkt 174
                              +++q+++k +++e      + ei ++PLA+Pl++GPgai+t +++a++ ++  + v+ ++ ++l+ +++ +il++++ i ++lg+ 
  PHY93_02240|PHY93_02240  98 SGHQSTTKINTEEIRSFDFEREIGIIPLAIPLLSGPGAISTSIIHAKNFTTTAHWVVAIIMVILIGVLIKIILSYAENIGERLGQI 183
                              ***************999999******************************99999999999999999****************** PP

                     MarC 175 ginaleRlmGllLvalavqlivdGikeil 203
                              g+n+++R+mGl+L+ +++++i +Gikeil
  PHY93_02240|PHY93_02240 184 GLNVMTRIMGLILLSMSIEMIAAGIKEIL 212
                              **************************986 PP

>> DUF3784  Domain of unknown function (DUF3784)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.4     0.065   5.8e+02      69      87 ..      46      64 ..      13      74 .. 0.50
   2 ?    1.9   1.5     0.028   2.5e+02      41      79 ..      47      82 ..      36      94 .. 0.43
   3 ?   13.7   4.2   6.1e-06     0.055       3      89 ..      77     170 ..      74     175 .. 0.80
   4 ?    2.6   0.4     0.017   1.6e+02      42      62 ..     188     208 ..     182     214 .. 0.86

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.065
                  DUF3784 69 ealliialiviiiiviyli 87
                             +++++ +  ++ i++++ +
  PHY93_02240|PHY93_02240 46 KNVTNTCATACTITILVSL 64
                             3333333332222222222 PP

  == domain 2  score: 1.9 bits;  conditional E-value: 0.028
                  DUF3784 41 klsrfmgivllligilflllgll.saiesealliialivi 79
                                  + + +   +++++l +ll  ++  +++ i++  + 
  PHY93_02240|PHY93_02240 47 N----VTNTCATACTITILVSLLfGQLLLNFFGISVASFT 82
                             3....44444555555555555521112233333222222 PP

  == domain 3  score: 13.7 bits;  conditional E-value: 6.1e-06
                  DUF3784   3 lallflilGilflkgkganLiaGYntmskeekekydekklsrfmgivllligilflllgll.......saiesealliialiviii 81 
                              +++ f i G ++l+  +  +i+G ++ +k   e++      r +gi+ l i +l    ++        ++ +++++++++++vi+i
  PHY93_02240|PHY93_02240  77 SVASFTIGGGFLLFTMAFSMISGHQSTTKINTEEIRSFDFEREIGIIPLAIPLLSGPGAIStsiihakNFTTTAHWVVAIIMVILI 162
                              5566777778888899999****************************999984444444445556998888999999999999999 PP

                  DUF3784  82 iviylivy 89 
                              +v++ i++
  PHY93_02240|PHY93_02240 163 GVLIKIIL 170
                              99888876 PP

  == domain 4  score: 2.6 bits;  conditional E-value: 0.017
                  DUF3784  42 lsrfmgivllligilflllgl 62 
                              ++r mg +ll ++i ++++g+
  PHY93_02240|PHY93_02240 188 MTRIMGLILLSMSIEMIAAGI 208
                              7899*********99999887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (217 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       988  (0.0551063); expected 358.6 (0.02)
Passed bias filter:                      384  (0.0214178); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.26s 00:00:00.82 Elapsed: 00:00:00.45
# Mc/sec: 1441.23
//
Query:       PHY93_02245|PHY93_02245  [L=534]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.6e-87  293.3  32.0    3.3e-87  293.0  32.0    1.0  1  MurJ      Lipid II flippase MurJ


Domain annotation for each model (and alignments):
>> MurJ  Lipid II flippase MurJ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  293.0  32.0   1.8e-91   3.3e-87       1     449 [.      33     499 ..      33     503 .. 0.92

  Alignments for each domain:
  == domain 1  score: 293.0 bits;  conditional E-value: 1.8e-91
                     MurJ   1 iaallGaglladaFnvAfklPnllrrlfaegalssaFvPvlaeakk.........kdeekaaefvrkvltllilvlllvtligila 77 
                              +a+++G + ++daFn A k+Pn+l  lf+eg ls++F+Pv+a++ +         +++ +aa +++ +  ll+++++l++l+gi+a
  PHY93_02245|PHY93_02245  33 FAHYFGNSDAGDAFNAALKIPNFLQNLFGEGVLSASFIPVYANLIAdshnekknqENHLEAARVASIIGSLLFIIISLIVLMGIIA 118
                              59***************************************9877436677766678889999*********************** PP

                     MurJ  78 apllirllatgfdeetlelavsllrillpylllvslsavfgavLnarkkFfapafsPvllNvsvIltllllanklgeeail.aLai 162
                               p++i+++a+gf+ e++ l++++++i++p   l+ + a   ++Ln+  kFf++ ++Pv+ N ++I+tl+++    ++ + +  La+
  PHY93_02245|PHY93_02245 119 TPFIIDVVAPGFKDEKRILTIKIVQIIFPGTGLLVMCAWCLGILNSHRKFFLSYVAPVVWNATMIVTLFIFGSGNTQYNLAeILAY 204
                              **********************************************************************9987774444435*** PP

                     MurJ 163 GvliGgvlqllvqlpalkkaglllkprfafrdeglkkflklllptllgvsvsqlnllvdtalAsflaegsvsilayadrilqlPlg 248
                              G+++G +lql+vq+p   k    +kp ++++ ++++ ++++++p +++ +v ql++++d +lAs l  g+vs laya+ ++ lP++
  PHY93_02245|PHY93_02245 205 GLVAGSFLQLAVQMPSALKLLKYFKPSLNTKIANVRIIIRNFFPVVISRGVIQLSAYIDSMLASLLPMGAVSTLAYAQTLYLLPIS 290
                              ************************************************************************************** PP

                     MurJ 249 lfgvsistvlLPrlSrsakekded..evrdllsqairltllllipvsfgllvlskpivsllferGnFseedveataevLaayalgL 332
                              lfg+sis+  LP++S  +   +e    +r++l+ +++ +++ +ip++  +++l++ +v ++ + G+F+  dv+++  vL ++ +gL
  PHY93_02245|PHY93_02245 291 LFGMSISASELPAMSSIKGTVEEIniYLRSRLEAGLKKIAFFIIPSVCAFIFLGNILVAAILQSGKFKLDDVNYVWMVLIGSTIGL 376
                              ***************998887776336799******************************************************** PP

                     MurJ 333 ipyalvklllrvfYAredtktPvkislislvlnills..........llllpplgvvglalatslsaliglvllyvllrkrlklte 408
                              ++  + +l +++fY+ +dtktP+k ++i ++l++ l           l l  ++g++gl ++++ls+++ ++ll + l+k+  ++ 
  PHY93_02245|PHY93_02245 377 LASTMGRLYSSTFYSIKDTKTPLKFAFIRVFLTTSLGylfafplprlLGLDASFGTAGLTASAGLSGWVEFYLLRRALNKK-IGDT 461
                              ************************************9999999999889999****************************9.3344 PP

                     MurJ 409 argiktflaklvvllalaavvilllssltqaewvvgsllli 449
                              + +i +   +l v++++a++v l ++++t+    +++ ++i
  PHY93_02245|PHY93_02245 462 GLKITYQ-ISLWVCAIIASAVGLAVKHFTH--MQPVFSAII 499
                              4444444.446899999***********99..445444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (534 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       978  (0.0545485); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.65u 0.29s 00:00:00.94 Elapsed: 00:00:00.48
# Mc/sec: 3310.89
//
Query:       PHY93_02250|PHY93_02250  [L=257]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.011   15.6   0.3      0.023   14.5   0.2    1.6  1  Methyltransf_31  Methyltransferase domain
      0.019   15.6   0.0       0.12   13.1   0.0    2.1  1  Methyltransf_25  Methyltransferase domain


Domain annotation for each model (and alignments):
>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.2   2.5e-06     0.023      45      95 ..      99     162 ..      87     207 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 2.5e-06
          Methyltransf_31  45 renaqklgldnveFeqgdieelekl.led.............ekfDlilsnevl.naladpdkile 95 
                              +e+ +  + +nv+F ++di+ele+  l+              +++Dl++s ++l ++ +++ ++le
  PHY93_02250|PHY93_02250  99 KERYS--QHKNVHFIEADITELESElLKSrkvvnkmpsqfldQNYDLVISANILsQLSYHLRNFLE 162
                              44433..457***********998888889*********************999866677666666 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   1.3e-05      0.12      13      86 ..      78     161 ..      64     167 .. 0.69

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 1.3e-05
                              HHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTTTEEEEESBCCGBS................SSTTTEEEEEEESTGGGSSHHHH CS
          Methyltransf_25  13 lalakrlgkakvtgvDiseemleaareraeeeglnvefvqgdaedlp................fedgsfDlvvssgalhhlsdedl 82 
                              + la+ +  +kv  +D+    l+ ++er++++  nv+f+++d+++l+                f d+ +Dlv+s++ l+ ls  +l
  PHY93_02250|PHY93_02250  78 ELLARSF--EKVDLIDVV--HLKSTKERYSQH-KNVHFIEADITELEsellksrkvvnkmpsqFLDQNYDLVISANILSQLS-YHL 157
                              4456665..899999986..69999****765.5*********999755666666666666777888999999876576665.344 PP

                              HHHH CS
          Methyltransf_25  83 ekal 86 
                              +++l
  PHY93_02250|PHY93_02250 158 RNFL 161
                              5555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (257 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       833  (0.046461); expected 358.6 (0.02)
Passed bias filter:                      542  (0.0302304); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.26s 00:00:00.82 Elapsed: 00:00:00.47
# Mc/sec: 1642.06
//
Query:       PHY93_02255|PHY93_02255  [L=84]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00065   19.3   0.3     0.0011   18.6   0.2    1.4  1  DUF2312   Uncharacterized protein conserved in bacteria (DUF2
  ------ inclusion threshold ------
      0.032   13.2   0.0      0.033   13.1   0.0    1.0  1  mTERF     mTERF


Domain annotation for each model (and alignments):
>> DUF2312  Uncharacterized protein conserved in bacteria (DUF2312)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.2   1.2e-07    0.0011      10      50 ..      28      68 ..      17      71 .. 0.94

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 1.2e-07
                  DUF2312 10 eRiErleeEkkaiaedikdvyaeaKseGfdtkvlrkivklr 50
                             e ++rl  + + + ++i ++ + aK  Gfd k+l  +++ r
  PHY93_02255|PHY93_02255 28 EHVYRLTIDYEILDQKISQLVKSAKIDGFDEKILWDLIQAR 68
                             7899**********************************998 PP

>> mTERF  mTERF
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   3.7e-06     0.033     125     176 ..      23      75 ..       4      83 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 3.7e-06
                    mTERF 125 llisrpqvlaldlekkvkpkeieekVevlkelglskedvwkil.kkyPeiLal 176
                               l ++ +v  l +++++ +++i++ V+  k  g++++ +w ++ +++P++ ++
  PHY93_02255|PHY93_02255  23 ALVESEHVYRLTIDYEILDQKISQLVKSAKIDGFDEKILWDLIqARIPSYVNY 75 
                              5677778999******************************9884689988776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (84 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       593  (0.0330749); expected 358.6 (0.02)
Passed bias filter:                      387  (0.0215851); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.25s 00:00:00.72 Elapsed: 00:00:00.45
# Mc/sec: 556.51
//
Query:       PHY93_02260|PHY93_02260  [L=252]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.7e-17   62.7   0.5      4e-17   61.6   0.5    1.6  1  MotB_plug  Membrane MotB of proton-channel complex MotA/MotB
    7.5e-14   51.9   0.1    1.4e-13   51.0   0.1    1.4  1  OmpA       OmpA family


Domain annotation for each model (and alignments):
>> MotB_plug  Membrane MotB of proton-channel complex MotA/MotB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.6   0.5   4.4e-21     4e-17       5      56 ..      14      62 ..      10      63 .. 0.87

  Alignments for each domain:
  == domain 1  score: 61.6 bits;  conditional E-value: 4.4e-21
                MotB_plug  5 kkeeeeegghgerWlvtYaDlmtLLlaFFvlLfsmssvdekkfqalaeslre 56
                             +  +++ g hg++W+v++aD+mt++++FF+++++m   de++ +a+a+++++
  PHY93_02260|PHY93_02260 14 N--KGHAGAHGGAWKVAFADFMTAMMCFFLVMWLMG-ADEETKKAIANYFTT 62
                             3..4677888999**********************6.799999******975 PP

>> OmpA  OmpA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.0   0.1   1.6e-17   1.4e-13       1      80 [.     147     229 ..     147     243 .. 0.82

  Alignments for each domain:
  == domain 1  score: 51.0 bits;  conditional E-value: 1.6e-17
                              .B-TTS--B-GGGHHHHHHHHHHHHS-S--EEEEE---S---HHH..HHHHHHHHHHHHHHHHHH.TTSSGGGEEEEE-TT-- CS
                     OmpA   1 yFapgsseLtpkaksaldkiaellkkpeqkitveGhtdaagseer..nweLSqkRAeaVanylqn.egvppsrisvsgyGaer 80 
                              +F++gs+e++ + k+ l k+a++ k++e ++ ++Ght + +++    nweL+ kRA++++n l++ + v p+++  s+  ++ 
  PHY93_02260|PHY93_02260 147 LFQFGSTEISYEGKKYLAKLADVFKNYEGSVSIIGHTEKGEGDTDqaNWELAFKRAMSIRNSLIKdFRVRPDQLVPSAESSTV 229
                              5************************77888******99955555557***************************655544433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (252 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       631  (0.0351944); expected 358.6 (0.02)
Passed bias filter:                      544  (0.0303419); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.25s 00:00:00.79 Elapsed: 00:00:00.45
# Mc/sec: 1670.96
//
Query:       PHY93_02265|PHY93_02265  [L=283]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    2.1e-10   40.4   0.1    3.6e-10   39.7   0.1    1.3  1  MotA_ExbB  MotA/TolQ/ExbB proton channel family
  ------ inclusion threshold ------
       0.53    9.4   5.9        1.5    7.9   0.4    2.3  2  DUF2232    Predicted membrane protein (DUF2232)


Domain annotation for each model (and alignments):
>> MotA_ExbB  MotA/TolQ/ExbB proton channel family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.7   0.1     4e-14   3.6e-10      15     121 ..     130     233 ..     117     238 .. 0.88

  Alignments for each domain:
  == domain 1  score: 39.7 bits;  conditional E-value: 4e-14
                              HHHT-HHHHHHHHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSSGGCTHHHHHHHHHHHHHH CS
                MotA_ExbB  15 qeklvdgaepeelrraleealsreeerlekglsilatigslaPllGLlGTVlGlieafqaladagsadlakvapgiaeALiaTalG 100
                              + ++ +  +p++l++ ++++l++  e  +  + +l+ +g + P lG++ +VlG++ ++ +l++   +  ++++++++ AL+ T+lG
  PHY93_02265|PHY93_02265 130 KVQIASSLSPYDLEDLMNSDLDAVHEADHHLVATLNRTGDAFPGLGIVAAVLGVVITMGKLDQG--K--EVIGHSVGSALVGTLLG 211
                              43456788999***************************************************93..3..68*************** PP

                              HHHH.HHHHHHHHHHHHHHHHH CS
                MotA_ExbB 101 lvvA.ipavlaynklkrkverl 121
                              +++A  ++ +++ k+++ + ++
  PHY93_02265|PHY93_02265 212 ILIAyGFIQPMVAKIETIMGEE 233
                              ****999999999998877665 PP

>> DUF2232  Predicted membrane protein (DUF2232)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9   0.4   0.00017       1.5      91     152 ..      23      84 ..       1      91 [. 0.72
   2 ?    4.2   0.7    0.0024        21      68     111 ..     175     220 ..     161     260 .. 0.57

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.00017
                  DUF2232  91 gtlafllgillafallalllgvnllaqvekeikesveealklyeeaGmsedelkelqkllee 152
                              g +a+l+  l  +++   +lg  ++     ++ke+v+++l+l++++G+s++   e+ + + e
  PHY93_02265|PHY93_02265  23 GNIAALVQPLELLIIGGSALGTLIICGSPHMFKEIVQRILQLLKGSGVSKKSYIEMIQCMFE 84 
                              566677777777777778888888888889******************87666444333333 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.0024
                  DUF2232  68 gllGlvlGyllkkkk..saertliagtlafllgillafallalllg 111
                              g+++ vlG  +  +k  ++ +++  +++++l+g+ll +++ + +++
  PHY93_02265|PHY93_02265 175 GIVAAVLGVVITMGKldQGKEVIGHSVGSALVGTLLGILIAYGFIQ 220
                              4555555555544432245555555555556665555555555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (283 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       664  (0.037035); expected 358.6 (0.02)
Passed bias filter:                      484  (0.0269954); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 1838.60
//
Query:       PHY93_02270|PHY93_02270  [L=230]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00051   19.6   0.1     0.0014   18.2   0.1    1.7  2  DOT1      Histone methylation protein DOT1


Domain annotation for each model (and alignments):
>> DOT1  Histone methylation protein DOT1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.1   7.5e-08    0.0014      39      76 ..     104     139 ..      90     190 .. 0.69
   2 ?   -1.0   0.0     0.058     1e+03      20      47 ..     171     200 ..     160     202 .. 0.74

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 7.5e-08
                              T--TT-EEEEES-TTSHHHHHHHHHH--SEEEEEE--H CS
                     DOT1  39 nlkkedvFvDLGSGvGnvvlqaalevgcklsvGvEimd 76 
                              + ++ + F+DLGSG+G vv  +a e ++  svGvE + 
  PHY93_02270|PHY93_02270 104 DDTSAKAFLDLGSGLGGVVRAIA-EKKVT-SVGVETAP 139
                              4467899**********987666.55666.9****875 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.058
                              GG----B-HHHHHHHHHHTT..--TT-EEE CS
                     DOT1  20 nevYGEllpeflsevldkvn..lkkedvFv 47 
                              + vY  l+p ++s+++ kv+  +k  ++Fv
  PHY93_02270|PHY93_02270 171 DVVYAFLSPAIMSKLFYKVKteMKAGSLFV 200
                              468999999999999987642266667775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (230 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       676  (0.0377043); expected 358.6 (0.02)
Passed bias filter:                      368  (0.0205254); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.44
# Mc/sec: 1562.91
//
Query:       PHY93_02275|PHY93_02275  [L=204]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.017   14.6   0.0      0.026   14.0   0.0    1.2  1  IL33      Interleukin 33


Domain annotation for each model (and alignments):
>> IL33  Interleukin 33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   1.4e-06     0.026     204     250 ..      19      66 ..      14      84 .. 0.78

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.4e-06
                              EEEE--SS--CCC-EEEEESSTT-EEEEESSSTTEEE.EECTTCEEEE CS
                     IL33 204 elqkcenslPdqaffvlhkksskcvsfeCksnpGvfi.GvkdnqLaLi 250
                              e + ++ +lP+q +f l     ++  f+  +npG +i  v+d +La  
  PHY93_02275|PHY93_02275  19 ETDAVHVHLPQQKLFTLFSIGFQYLLFQSTKNPGAYIiRVEDGHLAEK 66 
                              55667889****************************647******943 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (204 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       557  (0.031067); expected 358.6 (0.02)
Passed bias filter:                      451  (0.0251548); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1350.25
//
Query:       PHY93_05915|PHY93_05915  [L=342]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   1.8e-150  500.3   9.2     2e-150  500.1   9.2    1.0  1  MreB_Mbl  MreB/Mbl protein
    6.4e-12   44.8   0.1    5.8e-10   38.3   0.0    2.0  2  Actin     Actin
    5.4e-11   41.4   0.3    1.2e-10   40.3   0.1    1.7  2  HSP70     Hsp70 protein
    3.4e-10   40.3   0.4    3.4e-10   40.3   0.4    2.4  3  FtsA      Cell division protein FtsA
    1.2e-06   27.8   0.1      0.019   14.0   0.0    2.4  2  PilM_2    Type IV pilus assembly protein PilM;
     0.0016   17.5   1.1     0.0031   16.6   0.3    1.8  2  DDR       Diol dehydratase reactivase ATPase-like domain
  ------ inclusion threshold ------
      0.012   15.0   0.1       0.71    9.2   0.0    2.2  2  U79_P34   HSV U79 / HCMV P34


Domain annotation for each model (and alignments):
>> MreB_Mbl  MreB/Mbl protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  500.1   9.2    8e-154    2e-150       1     325 [.      10     338 ..      10     340 .. 0.98

  Alignments for each domain:
  == domain 1  score: 500.1 bits;  conditional E-value: 8e-154
                              SSEEEEEE-SSEEEEEETTTEEEEEEES-EEEETT...T--EEEESHHHHTTTTS-GTTEEEE-SEETTEESSHHHHHHHHHHHHH CS
                 MreB_Mbl   1 skdlgiDLGtantlvyvkgkgivlnepsvvAikkk...tkkvlavGeeAkkmlgktpgnikavrPlkdGviadlevaeellkyfik 83 
                              s+dl+iDLGtantlvy+k++gi++nepsvvA+++    +++vlavG+eAk+mlg+tpg+ika+rP+kdGviad+ev++++++yfi+
  PHY93_05915|PHY93_05915  10 SNDLAIDLGTANTLVYAKDRGIIVNEPSVVAVHQGpkgQNRVLAVGKEAKDMLGRTPGSIKAIRPVKDGVIADFEVTQAMIRYFIQ 95 
                              589******************************9888899********************************************** PP

                              HHHTSS-SS--EEEEEE-SS--HHHHHHHHHHHHHTT-SEEEEEEHHHHHHHHTT--TTSSS-EEEEEE-SS-EEEEEEETTEEEE CS
                 MreB_Mbl  84 kvkkkkslskprvvicvPsgiteverrAvkeaakkaGarevllieeplaAAiGaglpveepsgnmvvdiGggttevavislggivt 169
                              k  + ++l kpr+vic+P git+ve+rAvke+a++aGarev+lieep+aAAiGaglp++epsgnm+vdiGggttevavislggiv+
  PHY93_05915|PHY93_05915  96 KSLTGSKLIKPRIVICIPFGITQVEKRAVKESAEQAGAREVYLIEEPMAAAIGAGLPITEPSGNMIVDIGGGTTEVAVISLGGIVY 181
                              ************************************************************************************** PP

                              EEEES-SHHHHHHHHHHHHHHHHSEE--HHHHHHHHHHH-BSS--HHHH.EEEEEEEETTTTCEEEEEEEHHHHHHHHHHHHHHHH CS
                 MreB_Mbl 170 sksvrvaGdeldeaiikyirkkynlliGertaekikieigsavkeeeee.kmeikGrdlvtglpkevevsseevrealkepvsaiv 254
                              sksvrvaGd++deai +yi+kky+lliGertae+iki+ig+a++ ++e  + e+kGrdl+ g pk +ev+s+e+r+al++pvs++v
  PHY93_05915|PHY93_05915 182 SKSVRVAGDKFDEAIASYIKKKYSLLIGERTAEAIKIAIGNAYPFDDEVkTYEVKGRDLIAGAPKIIEVTSDEIRDALADPVSEVV 267
                              *******************************************977765599********************************** PP

                              HHHHHHHHTS-HHHHHHHHHH-EEEESGGGGSBTHHHHHHHHHSS-EEE-SSTTTHHHHHHHHTTC-HHHH CS
                 MreB_Mbl 255 eavkevLektppeLaadivdrgivltGGgallkgldkllseetglpvkvaedpltcvakGtgkvleklkkl 325
                              ea+k  LektppeLaadivd+gi+l+GGgall +ld l++e+tglpv++aedpltcv++G+gkvle+l+ l
  PHY93_05915|PHY93_05915 268 EAIKISLEKTPPELAADIVDNGIILAGGGALLANLDVLIKEKTGLPVSIAEDPLTCVVRGCGKVLESLDLL 338
                              ******************************************************************99866 PP

>> Actin  Actin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.3   0.0   2.3e-13   5.8e-10       8     190 ..      14     203 ..      10     236 .. 0.84
   2 !    4.6   0.0    0.0039        10     302     340 ..     263     302 ..     244     308 .. 0.83

  Alignments for each domain:
  == domain 1  score: 38.3 bits;  conditional E-value: 2.3e-13
                    Actin   8 VlDnGssttraGyagedaPkavipslvgkprgrkvea.klyvgdealt....krpelevrspvedGvvedwdaveelwehvlkeel 88 
                               +D G+ +t + ya +    +  ps+v++ +g k ++  l vg+ea +      + ++  +pv+dGv+ d +++++++++ +++ l
  PHY93_05915|PHY93_05915  14 AIDLGTANTLV-YAKDRGIIVNEPSVVAVHQGPKGQNrVLAVGKEAKDmlgrTPGSIKAIRPVKDGVIADFEVTQAMIRYFIQKSL 98 
                              58888888866.99999999999*****99988877746889*99554334336789999************************** PP

                    Actin  89 kvdpeehpllltepplnppkqrekalEivfEkfkvpalylaksavlsafasgks.....tglvvDsGasvtsvvpVldGyvLkkai 169
                              +  +  +p ++   p+  ++  ++a+    E+ +   +yl ++++ +a  +g+        ++vD+G ++t v+ +  G ++  + 
  PHY93_05915|PHY93_05915  99 TGSKLIKPRIVICIPFGITQVEKRAVKESAEQAGAREVYLIEEPMAAAIGAGLPitepsGNMIVDIGGGTTEVAVISLGGIVYSKS 184
                              *99998888888888888888888888889***********************99999889***************9998887654 PP

                    Actin 170 rrsdlgGkaLteqlkellssk 190
                                + ++G++ +e +++++++k
  PHY93_05915|PHY93_05915 185 --VRVAGDKFDEAIASYIKKK 203
                              ..569************9996 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.0039
                    Actin 302 llgiselivaainacdvdlrpeLlan.ivvtGGnsllpgl 340
                              ++ + e i+ ++++++++l ++++ n i+++GG +ll +l
  PHY93_05915|PHY93_05915 263 VSEVVEAIKISLEKTPPELAADIVDNgIILAGGGALLANL 302
                              55678999****************887*********9887 PP

>> HSP70  Hsp70 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0      0.38   9.7e+02       4      27 ..      15      35 ..      13      65 .. 0.58
   2 !   40.3   0.1   4.7e-14   1.2e-10     135     238 ..     107     204 ..      84     216 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 0.38
                             EEEXSSEEEEEEEETTEEEEEXXT CS
                    HSP70  4 iDLGttnsvvavmeggkieviane 27
                             iDLGt n++v   +     +i+ne
  PHY93_05915|PHY93_05915 15 IDLGTANTLVYAKDR---GIIVNE 35
                             888888887754333...233333 PP

  == domain 2  score: 40.3 bits;  conditional E-value: 4.7e-14
                              EEEEEEXTTXXHHHHHHHHHHHHHTTXEEEEEEEHHHHHHHHHHTCCSSSCEEEEEEEEXSSXEEEEEEEEETTEEEEEEEEEETT CS
                    HSP70 135 davitvPaYfndaqRqatkdAgkiAGLnvlRivNepTAaalaYGldkkdkernvlvyDlGggtfdvSilelekGvfevkaTagDth 220
                               +vi +P   +  +++a+k+ ++ AG   + ++ ep Aaa+  Gl  ++ ++  +++D+Gggt++v +++l+  v+     +   +
  PHY93_05915|PHY93_05915 107 RIVICIPFGITQVEKRAVKESAEQAGAREVYLIEEPMAAAIGAGLPITE-PSGNMIVDIGGGTTEVAVISLGGIVY-----SKSVR 186
                              5799********************************************9.6666788**************85544.....34568 PP

                              XSHHHHHHHHHHHHHHHH CS
                    HSP70 221 lGGedfDealvehlveef 238
                              + G++fDea++ ++ +++
  PHY93_05915|PHY93_05915 187 VAGDKFDEAIASYIKKKY 204
                              89************9987 PP

>> FtsA  Cell division protein FtsA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.0       1.1   2.8e+03       2      25 ..      14      38 ..      13      56 .. 0.71
   2 ?   -2.5   0.0       2.8   7.2e+03      34      52 ..     105     123 ..      79     145 .. 0.58
   3 !   40.3   0.4   1.3e-13   3.4e-10       2      85 ..     161     309 ..     160     327 .. 0.76

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 1.1
                             EEEE-SSSEEEEEEETTEEEE.EEE CS
                             xxxxxxxxxxxxxxxxxxxxx.xxx RF
                     FtsA  2 lvDiGagktdvavaedgalvh.lrv 25
                             ++D+G+  t v   ++g +v+  +v
  PHY93_05915|PHY93_05915 14 AIDLGTANTLVYAKDRGIIVNePSV 38
                             7999999998777777666665444 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 2.8
                              HHHHHHHHT--HHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxx RF
                     FtsA  34 tkdiakalrtaveeAerik 52 
                              +  i++++   + + e+ +
  PHY93_05915|PHY93_05915 105 KPRIVICIPFGITQVEKRA 123
                              4444444433333333322 PP

  == domain 3  score: 40.3 bits;  conditional E-value: 1.3e-13
                              EEEE-SSSEEEEEEETTEEEEEEEES--HHHHHHHHHHHH......T--HHHHHHHHHHH--S--.EEEEEHHHHH.......... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxx.xxxxxxxxxx.......... RF
                     FtsA   2 lvDiGagktdvavaedgalvhlrvigvggngitkdiakal......rtaveeAerikikyGsala.ekeigrkels.......... 70 
                              +vDiG+g+t+vav++ g++v+++++ v+g+ +++ ia  +       +   +Ae iki +G+a++ + e+++ e++          
  PHY93_05915|PHY93_05915 161 IVDIGGGTTEVAVISLGGIVYSKSVRVAGDKFDEAIASYIkkkyslLIGERTAEAIKIAIGNAYPfDDEVKTYEVKgrdliagapk 246
                              8**********************************77777222222566789**************66666666665555556666 PP

                              ................................................GGGGSTTHHHHHHHH CS
                              ................................................xxxxxxxxxxxxxxx RF
                     FtsA  71 ................................................ggsalpnleelaera 85 
                                                                              gg+ l+nl+ l+++ 
  PHY93_05915|PHY93_05915 247 iievtsdeirdaladpvsevveaikislektppelaadivdngiilagGGALLANLDVLIKEK 309
                              666666666677777777777777777888888888888888888888888888888877776 PP

>> PilM_2  Type IV pilus assembly protein PilM;
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.0   0.0   7.4e-06     0.019     181     223 ..     158     200 ..     116     230 .. 0.83
   2 !   11.7   0.0   3.7e-05     0.095     277     306 ..     289     318 ..     258     327 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 7.4e-06
                   PilM_2 181 vvaivdigasrttlsvlrdgkivYtreqafGgeqltqeivrrY 223
                                +ivdig  +t+++v++ g ivY++     g+++ + i+++ 
  PHY93_05915|PHY93_05915 158 GNMIVDIGGGTTEVAVISLGGIVYSKSVRVAGDKFDEAIASYI 200
                              569********************************99998753 PP

  == domain 2  score: 11.7 bits;  conditional E-value: 3.7e-05
                   PilM_2 277 kilLaGGtaslpgleelleeelgisttvan 306
                               i+LaGG a l +l+ l++e++g+++++a+
  PHY93_05915|PHY93_05915 289 GIILAGGGALLANLDVLIKEKTGLPVSIAE 318
                              499*************************96 PP

>> DDR  Diol dehydratase reactivase ATPase-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.3   1.2e-06    0.0031     115     175 ..     139     199 ..      69     220 .. 0.72
   2 ?   -1.4   0.0      0.35     9e+02     257     296 ..     268     308 ..     252     317 .. 0.72

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 1.2e-06
                      DDR 115 gvEaemAilGalttPGtekplailDlGaGstDaalieeegevkavhlAGAGemvtlliase 175
                                E+ +A++Ga      ++  +i+D+G+G+t+ a+i+  g v +  +  AG+    +ias 
  PHY93_05915|PHY93_05915 139 IEEPMAAAIGAGLPITEPSGNMIVDIGGGTTEVAVISLGGIVYSKSVRVAGDKFDEAIASY 199
                              356777888887655666789*******************998777777776655555543 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.35
                      DDR 257 tnalRalkkvsptgnirdidf.vvlvGgsalDfEipelvtd 296
                              + +  +l+k  p+     +d+ ++l+Gg+al  ++  l+++
  PHY93_05915|PHY93_05915 268 EAIKISLEKTPPELAADIVDNgIILAGGGALLANLDVLIKE 308
                              45555677777776655555448899999998777777766 PP

>> U79_P34  HSV U79 / HCMV P34
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   0.0   0.00028      0.71      66     113 ..      13      59 ..       7      62 .. 0.76
   2 ?    3.4   0.1     0.016        42      61      93 ..     155     186 ..     146     198 .. 0.82

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.00028
                  U79_P34  66 ltvdigideekqktlfvrGlllfsksvtsvsqstegrerlltvsseng 113
                              l++d+g+ + +    + rG+++ + sv +v q  +g++r+l+v +e  
  PHY93_05915|PHY93_05915  13 LAIDLGTANTLVY-AKDRGIIVNEPSVVAVHQGPKGQNRVLAVGKEAK 59 
                              4445544444432.357**************************99975 PP

  == domain 2  score: 3.4 bits;  conditional E-value: 0.016
                  U79_P34  61 asaGsltvdigideekqktlfvrGlllfsksvt 93 
                              +  G + vdig+       +   G++++sksv 
  PHY93_05915|PHY93_05915 155 EPSGNMIVDIGGGTTEV-AVISLGGIVYSKSVR 186
                              55799*****9876655.4567799******96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (342 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       315  (0.0175693); expected 358.6 (0.02)
Passed bias filter:                      282  (0.0157287); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.58u 0.27s 00:00:00.85 Elapsed: 00:00:00.48
# Mc/sec: 2160.74
//
Query:       PHY93_02280|PHY93_02280  [L=717]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.8e-57  194.0   0.1      3e-57  193.3   0.1    1.3  1  GTP_EFTU     Elongation factor Tu GTP binding domain
    2.1e-40  137.3   0.0    3.9e-40  136.4   0.0    1.5  1  EFG_IV       Elongation factor G, domain IV
      6e-31  106.3   0.1    1.2e-30  105.4   0.1    1.6  1  EFG_C        Elongation factor G C-terminus
    4.8e-28   97.1   0.0    1.1e-27   95.9   0.0    1.7  1  EFG_II       Elongation Factor G, domain II
    3.9e-15   56.0   0.7    1.2e-14   54.5   0.7    1.9  1  GTP_EFTU_D2  Elongation factor Tu domain 2
    3.8e-08   33.2   0.2      8e-08   32.2   0.2    1.4  1  RF3_C        Class II release factor RF3, C-terminal domain


Domain annotation for each model (and alignments):
>> GTP_EFTU  Elongation factor Tu GTP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  193.3   0.1   9.9e-61     3e-57       2     194 .]       6     294 ..       5     294 .. 0.91

  Alignments for each domain:
  == domain 1  score: 193.3 bits;  conditional E-value: 9.9e-61
                              CEEEEEEEESTTSSHHHHHHHHHHHTTSSCHHHHHH..HHHSTHCHSHHHHHHTSCSSCEEEEEE.............TTCSSEEE CS
                 GTP_EFTU   2 rirnigiighvDhGKtTLtdrLlyktgaiskkgeka..eeervlDtlkeErergiTiksaaisle.............ketkkyli 72 
                              r+rnigi +h+D+GKtTLt+r+l+++ +i+k + ++  ++ +++D ++ E+e+giTi+saa++++                k+++i
  PHY93_02280|PHY93_02280   6 RTRNIGISAHIDSGKTTLTERILFYCDKIHKIEDVRggGAGATMDHMELEKEKGITITSAATTVYwkgiaekgityadGVDKECRI 91 
                              689*******************************997544889*******************************9974499***** PP

                              EEEEESSSGGGHHHHHHHHHT-SEEEEEEETTTBSTHHHHHHHHHHHHTTTEEEEEEESCGSTHHHHHHHHHHHHHHHHHH..... CS
                 GTP_EFTU  73 nliDtPGHvdFskevirglrvlDgavlvvdaveGvepqteevlrlalkegvpiivfiNKmDrlkaelkeiveevkqklsrk..... 153
                              n+iDtPGHvdF+ ev+r+lrvlDga+lv+++v Gv++q+ +v r+++++ vp++ f+NKmDr++a+  + v ++++kl ++     
  PHY93_02280|PHY93_02280  92 NIIDTPGHVDFTVEVERSLRVLDGAILVLCSVAGVQSQSITVDRQMKRYSVPRMAFLNKMDRMGANPHKGVAALREKLYHNavlmq 177
                              ******************************************************************************888***** PP

                              .........................................................................HHHHHHHHHTTT. CS
                 GTP_EFTU 154 .........................................................................eeklekygekge. 165
                                                                                                       e          e 
  PHY93_02280|PHY93_02280 178 lpigaeenfigvvdlitreayyfdgengekvraeaipagmeaeveeyreklldaasnfddamvekileggdisE----------Ee 253
                              **************************************999999999988888888888665555555555552..........05 PP

                              ............TTEEEEEEBTTTTBTHHHHHHHHHHHSHH CS
                 GTP_EFTU 166 ............kevpvvfgSalkgegvktllealvellps 194
                                          k +pv++gSa+k++gv+ ll+a+ ++lps
  PHY93_02280|PHY93_02280 254 ihnaikigtqslKLTPVFMGSAFKNKGVQLLLNAVSRYLPS 294
                              5555555556669*************************996 PP

>> EFG_IV  Elongation factor G, domain IV
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  136.4   0.0   1.3e-43   3.9e-40       1     121 []     491     616 ..     491     616 .. 0.98

  Alignments for each domain:
  == domain 1  score: 136.4 bits;  conditional E-value: 1.3e-43
                              TCCESCEE.SS-CCHCCCCCCCHTSSSHCCCCCEEEECCTT......TTSSEEEEE--STCCCHCCCCHHHHCCCCCCTTS-TTTS CS
                   EFG_IV   1 pqVayrEtirkpvkereeklkkqsggdgqyakvileiePle......egsgnefvdetkggqvpkeyieavekGfqealkeGplag 80 
                              pqV+yrEtir+++k +++ +kkq+gg+gq+++v+  i+Pl       e++ + f +e+kgg++p+e+i ++ekGf++++++Gpl+ 
  PHY93_02280|PHY93_02280 491 PQVNYRETIRTEAK-FDYLHKKQTGGSGQFGQVVGMIKPLLeenkedEKQVFKFYNEIKGGSIPNEFIASCEKGFNDVMDKGPLGA 575
                              8*************.************************97788888999************************************ PP

                              --EESEEEEEEEEE--TTTC-HHHHHHHHCHHHHHHHHCC- CS
                   EFG_IV  81 epvtdvkvtLldgslhevdsseaafkpaarralkeallkAs 121
                              +p+++v v L dg++h+vdss++af++a+r+a+++a+++As
  PHY93_02280|PHY93_02280 576 FPLINVEVYLQDGRYHDVDSSDLAFRIASRMAMRQAVKAAS 616
                              *************************************9995 PP

>> EFG_C  Elongation factor G C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  105.4   0.1   4.1e-34   1.2e-30       1      88 [.     618     705 ..     618     706 .. 0.98

  Alignments for each domain:
  == domain 1  score: 105.4 bits;  conditional E-value: 4.1e-34
                              EEEEEEEEEEEEEECCCCCCHHHHHHHCT-EEEEEEEE.TTEEEEEEEEEGGG-TTHHHCHHHCTTTS-EEEEEEEEEEE--HHHH CS
                    EFG_C   1 vllEPivkveievpeeyvgkvisdlssrrGeiedmeqdasgrviieaeiPlaeligfateLrslTkGegsfsmefsgYeevpgdkl 86 
                              v+lEPi+kve+e+p+ey+g vi+dlssrrG+i+  e++++g v+i+a iPl+e++g++t Lrs+++G++s++mef++Y+e+p++++
  PHY93_02280|PHY93_02280 618 VILEPIMKVEVETPDEYQGGVIGDLSSRRGIIQASESNDTGEVTINALIPLSEMFGYSTVLRSMSAGKASYTMEFAKYAECPNNVA 703
                              59**********************************************************************************98 PP

                              HH CS
                    EFG_C  87 de 88 
                              ++
  PHY93_02280|PHY93_02280 704 EK 705
                              86 PP

>> EFG_II  Elongation Factor G, domain II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   95.9   0.0   3.8e-31   1.1e-27       3      74 ..     418     489 ..     416     490 .. 0.97

  Alignments for each domain:
  == domain 1  score: 95.9 bits;  conditional E-value: 3.8e-31
                   EFG_II   3 ePvislaiepkskadedklskaLarlleEDptlrverdeeTketilsGmGelHleivverlkreykvevelg 74 
                                vi+l+i+ k+k+++++lsk L+r+++EDpt++v +dee+ et ++GmGelHlei+verlkrey+++v++g
  PHY93_02280|PHY93_02280 418 AAVIELSISVKDKDQQTRLSKGLQRFMKEDPTFHVFTDEESAETRIAGMGELHLEIYVERLKREYNCDVQVG 489
                              689*******************************************************************98 PP

>> GTP_EFTU_D2  Elongation factor Tu domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.5   0.7   3.9e-18   1.2e-14       1      73 [.     335     400 ..     335     401 .. 0.96

  Alignments for each domain:
  == domain 1  score: 54.5 bits;  conditional E-value: 3.9e-18
                              EEEEEEEEEESEEETTEEEEEECTCTTSEEEEEEEEEEEEETEEESEEETTSEEEEEEEESSCCSGSSTTCEE CS
              GTP_EFTU_D2   1 GtvalgrvysGtlkkGdevrilgndtskkeivtrissletfhededeavaganaGvivaikgledaiivGdtl 73 
                              G++++ r+y+Gtl+kGd++ +   +t+k+   +r+++l +++++ +e ++ +  G+i+ai+g+++a   Gdt+
  PHY93_02280|PHY93_02280 335 GQLTYTRIYQGTLNKGDTITN--TRTKKR---VRVGRLVRMNANARENIETVGPGDIIAIIGIDCA--SGDTF 400
                              78899****************..***888...*********************************7..99996 PP

>> RF3_C  Class II release factor RF3, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.2   0.2   2.7e-11     8e-08      15      94 ..     425     504 ..     420     522 .. 0.82

  Alignments for each domain:
  == domain 1  score: 32.2 bits;  conditional E-value: 2.7e-11
                              EEESSGGGHHHHHHHHHHHHHCT.SSEEEEET.TSS-EEEEESSTHHHHHHHHHHHHHH---EEEEE-S--EEEEEE-SSH CS
                    RF3_C  15 vrlkdplkrkqlrkgleqLaeEG.avqvfkeeeageelilgaVGqLQfeVveeRlknEYgvevrleslpyslarwvesede 94 
                              +++kd  ++ +l+kgl+ +++E  + +vf++e ++ e+ ++ +G+L +e+  eRlk+EY+++v++   ++++   +++e +
  PHY93_02280|PHY93_02280 425 ISVKDKDQQTRLSKGLQRFMKEDpTFHVFTDE-ESAETRIAGMGELHLEIYVERLKREYNCDVQVGAPQVNYRETIRTEAK 504
                              78899999**********98887367888888.6777778889*********************99999988888866444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (717 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       453  (0.0252663); expected 358.6 (0.02)
Passed bias filter:                      399  (0.0222544); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.69u 0.29s 00:00:00.98 Elapsed: 00:00:00.49
# Mc/sec: 4374.31
//
Query:       PHY93_02285|PHY93_02285  [L=299]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.1e-28  100.0   0.0    1.4e-28   99.7   0.0    1.1  1  LysR_substrate  LysR substrate binding domain
    1.1e-20   73.3   0.1      2e-20   72.5   0.1    1.5  1  HTH_1           Bacterial regulatory helix-turn-helix protein
     0.0049   16.9   0.1     0.0094   16.0   0.1    1.4  1  Cro             Cro
     0.0098   15.5   0.3      0.054   13.1   0.1    2.1  2  HTH_50          Helix-turn-helix domain
  ------ inclusion threshold ------
      0.014   15.3   0.1      0.033   14.1   0.1    1.5  1  HTH_11          HTH domain
      0.018   14.9   0.1      0.033   14.1   0.1    1.4  1  MarR_2          MarR family
       0.04   14.1   0.1      0.093   12.9   0.1    1.7  1  HTH_34          Winged helix DNA-binding domain
      0.064   13.1   0.2       0.13   12.1   0.2    1.5  1  HTH_10          HTH DNA binding domain
      0.068   13.1   0.0       0.13   12.2   0.0    1.4  1  HTH_5           Bacterial regulatory protein, arsR family
       0.12   12.3   0.0       0.24   11.3   0.0    1.4  1  P22_Cro         DNA-binding transcriptional regulator Cro
       0.16   11.9   0.0        0.3   11.0   0.0    1.4  1  YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitox


Domain annotation for each model (and alignments):
>> LysR_substrate  LysR substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   99.7   0.0   8.4e-32   1.4e-28       3     207 ..      89     295 ..      87     297 .. 0.95

  Alignments for each domain:
  == domain 1  score: 99.7 bits;  conditional E-value: 8.4e-32
                              TSCEEEEEEEECCCHHHHHHHHHHHHHHHSTTEEEEEEEESHHHHHHHHHTTSSSEEEEESSSCCTTEEEEEEEEEEEEEEEETTS CS
           LysR_substrate   3 glrgrLrigapptlaryllppllarfraryPevelelvegdseelldllaegelDlairagppedsglearpLaeeplvlvaspdh 88 
                                rg++rig+ + ++ ++l++ + ++++++P+++l++++g++eell+  +++ lD+ ++ +++ +++ e + ++ee+  lv ++dh
  PHY93_02285|PHY93_02285  89 TMRGKVRIGTLTGIGKSWLAHEIVEYAKENPDLRLSVRMGHQEELLADFENNLLDILVLPEDELPTHGEREFFLEEKSTLVFPKDH 174
                              569************************************************************99999****************** PP

                              GGGG.SSSECGGGGCTSEEEEESTTST.HHHHHHHHHHCTTEECEEEEEESSHHHHHHHHHTTS-BEEEEGGGHHCCCHTTTEEEE CS
           LysR_substrate  89 pLar.gepvsledLadeplilleegsg.lrdlledalreaglkprvalevnsleallalvaaGlGiallprsavrdeladgrlval 172
                                ++ +++++l+ L+++p +l+e++ + +  + +  ++++  k++v+++vns   +l++v  GlGia++p+++++++   ++++  
  PHY93_02285|PHY93_02285 175 DDFNfKTKLTLARLEELPTVLFEKDDHlFFKWCRSKFKSTPKKINVRFTVNSHGHMLQAVYEGLGIAVVPNHVLNRSYFKDKVS-T 259
                              9999******************877777**************************************************999***.6 PP

                              EESSTTCE.EEEEEEEETTCCCHHHHHHHHHHHHHH CS
           LysR_substrate 173 plpepplp.relylvyrkgrelspavrafidflrea 207
                                 e+++p   ly+vy+k++e   +++  id l+++
  PHY93_02285|PHY93_02285 260 LGGEFEIPsGKLYIVYQKESENLLRIKNTIDRLLSH 295
                              666669999*************99999999998765 PP

>> HTH_1  Bacterial regulatory helix-turn-helix protein, lysR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.5   0.1   1.2e-23     2e-20       3      60 .]       6      63 ..       4      63 .. 0.98

  Alignments for each domain:
  == domain 1  score: 72.5 bits;  conditional E-value: 1.2e-23
                             HHHHHHHHHHHSSHHHHHHHHTS-HHHHHHHHHHHHHHHTS-SEEESSSEEEE-HHHH CS
                    HTH_1  3 qlrlfvavaeegsftrAAeeLglsqpavsrqikrLEeelgvpLfeRtgrglrLTeaGe 60
                             ql+++vav +++sf++AAe Lg++q+a+s++ik+LE+ l+ ++f R+g++++LT++Ge
  PHY93_02285|PHY93_02285  6 QLQTLVAVTRAKSFSKAAENLGVTQSAISQSIKNLESKLEIKIFKRSGKNVVLTPEGE 63
                             9********************************************************7 PP

>> Cro  Cro
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.1   5.8e-06    0.0094      16      35 ..      20      39 ..      13      53 .. 0.83

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 5.8e-06
                             HHHHHHHTS-HHHHHHHHHC CS
                      Cro 16 aktAkdlgvkqsaIsKAlka 35
                              k+A++lgv+qsaIs  +k 
  PHY93_02285|PHY93_02285 20 SKAAENLGVTQSAISQSIKN 39
                             59*************99874 PP

>> HTH_50  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.1   0.1   3.3e-05     0.054      20      41 ..      13      34 ..       2      39 .. 0.84
   2 ?   -0.5   0.0      0.58   9.5e+02       5      17 ..     131     143 ..     128     146 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 3.3e-05
                   HTH_50 20 yekYpStRklAkrLGvShtaia 41
                             + + +S+ k+A+ LGv+++ai 
  PHY93_02285|PHY93_02285 13 VTRAKSFSKAAENLGVTQSAIS 34
                             55669***************96 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.58
                   HTH_50   5 keyveefErelik 17 
                              +e++++fE +l+ 
  PHY93_02285|PHY93_02285 131 EELLADFENNLLD 143
                              799******9996 PP

>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.1     2e-05     0.033      22      52 ..      23      54 ..      17      55 .. 0.93

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 2e-05
                   HTH_11 22 AeeLnvSrrtvrrdIkaLeelg.vpIesepgr 52
                             Ae L+v+ +++ + Ik Le+++ ++I +++g+
  PHY93_02285|PHY93_02285 23 AENLGVTQSAISQSIKNLESKLeIKIFKRSGK 54
                             89*******************99999998885 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.1     2e-05     0.033       5      48 ..       4      43 ..       1      43 [. 0.90

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 2e-05
                             HHHHHHHHHHHCTTTSEEEHHHHHHHHTSSHHHHHHHHHHHHHT CS
                   MarR_2  5 paqarvLaaLgrrpgrdltvgelarrlglsksavsrilkrLvaa 48
                              +q++ L a+ r+     + +  a+ lg+++sa+s+ +k L+++
  PHY93_02285|PHY93_02285  4 TSQLQTLVAVTRAK----SFSKAAENLGVTQSAISQSIKNLESK 43
                             67899999999998....9**********************985 PP

>> HTH_34  Winged helix DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.1   5.7e-05     0.093       6      66 ..       7      63 ..       2      77 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 5.7e-05
                   HTH_34  6 lsyLasvdea.dfvelkealeatdgnLsvhlkkLekagYievdkefkgkkprtllriTpeGr 66
                             l++L++v +a +f++  e l++t++++s  +k Le++  i++ k   ++     + +TpeG 
  PHY93_02285|PHY93_02285  7 LQTLVAVTRAkSFSKAAENLGVTQSAISQSIKNLESKLEIKIFKRSGKN-----VVLTPEGE 63
                             6778885555279***********************9988887765444.....66777775 PP

>> HTH_10  HTH DNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.2   7.8e-05      0.13      22      51 ..      15      44 ..      12      45 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 7.8e-05
                   HTH_10 22 RrvtlkeLAkelGIskstlsehLrkaeskl 51
                             R  + ++ A+ lG+++s++s+ +++ eskl
  PHY93_02285|PHY93_02285 15 RAKSFSKAAENLGVTQSAISQSIKNLESKL 44
                             66777888*********************8 PP

>> HTH_5  Bacterial regulatory protein, arsR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   7.8e-05      0.13      17      40 ..      18      41 ..      11      43 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 7.8e-05
                             EHHHHHHHHTS-HHHHHHHHHHHH CS
                    HTH_5 17 cvcelaeelglsqstvShHLkkLr 40
                             +++  ae lg++qs++S+  k L+
  PHY93_02285|PHY93_02285 18 SFSKAAENLGVTQSAISQSIKNLE 41
                             5666699**************997 PP

>> P22_Cro  DNA-binding transcriptional regulator Cro
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00015      0.24      13      28 ..      20      35 ..      18      42 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00015
                             HHHHHHHTS-HHHHHH CS
                  P22_Cro 13 ekvAkalgvtksAVsq 28
                             +k+A+ lgvt+sA+sq
  PHY93_02285|PHY93_02285 20 SKAAENLGVTQSAISQ 35
                             79*************9 PP

>> YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   0.00018       0.3       8      30 ..      16      38 ..      11      56 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00018
           YdaS_antitoxin  8 vGgqkaLAealgvsqqaVsqWlk 30
                             + + ++ Ae+lgv+q+a+sq +k
  PHY93_02285|PHY93_02285 16 AKSFSKAAENLGVTQSAISQSIK 38
                             5677888************9873 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (299 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       666  (0.0371465); expected 358.6 (0.02)
Passed bias filter:                      564  (0.0314574); expected 358.6 (0.02)
Passed Vit filter:                        68  (0.00379274); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.58u 0.27s 00:00:00.85 Elapsed: 00:00:00.48
# Mc/sec: 1890.67
//
Query:       PHY93_02290|PHY93_02290  [L=396]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    3.4e-12   46.9   0.0    8.3e-12   45.6   0.0    1.7  1  PolyA_pol  Poly A polymerase head domain
  ------ inclusion threshold ------
       0.47   10.6   2.0       0.68   10.1   0.0    2.3  3  Hormone_3  Pancreatic hormone peptide


Domain annotation for each model (and alignments):
>> PolyA_pol  Poly A polymerase head domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.6   0.0   9.2e-16   8.3e-12       2     126 .]      25     170 ..      24     170 .. 0.74

  Alignments for each domain:
  == domain 1  score: 45.6 bits;  conditional E-value: 9.2e-16
                              EEETHHHHHHHTT---.C..........EEEEEECS-HHHHHHHHHHHHT-EEEEETTTTCCC.CEECCEEEEECCEECEEEEEE- CS
                PolyA_pol   2 ylvGGaVRDlllgkep.k..........DvDlatdaapeelakllrkkvkeallsgeefqtia.vlekkqllevatfRlekdesda 75 
                               lvGG+ RD++l ++              +D+ +d  p+  +kl r  +++++   e   +i+ v + ++++e++  R e d   +
  PHY93_02290|PHY93_02290  25 CLVGGITRDYFLTNKLgVdldleirsapGLDISVDTWPSYYKKLHRYLIEKNIRYTELPYLITrVCFAEKNFEFSSPREEVDLPGN 110
                              59**********99995334455555556666666888887777777777766665555555515566677*******99977665 PP

                              --SSHHH.....HHHHHH..CTSSBGGGS-EEE.....CTTTCEE-TTSHHHHHHTTEE- CS
                PolyA_pol  76 rnpesekste..sleeDl..krRDftiNalayn.....lnkgkvlDlfgGikdLkskvir 126
                                +++ ++    +l+ Dl  krRDftiNa+ ++     + ++k++D+f+G++dLk++++r
  PHY93_02290|PHY93_02290 111 YTHHHFQAILdpKLSYDLsfKRRDFTINAIGIElhlksPLSEKLIDPFNGLDDLKNGILR 170
                              555544433368667776448***********9999999999***************987 PP

>> Hormone_3  Pancreatic hormone peptide
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.0   7.6e-05      0.68       6      27 ..      51      72 ..      50      73 .. 0.94
   2 ?   -3.5   0.0       1.3   1.1e+04       7      19 ..     259     271 ..     259     272 .. 0.74
   3 ?   -1.9   0.3      0.42   3.8e+03      23      28 ..     381     386 ..     373     392 .. 0.69

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 7.6e-05
                             XXXTTS-HHHHHHHHHHHHHHH CS
                Hormone_3  6 rPgedaspEeLakYyaaLrhYl 27
                             +Pg d s++ + +Yy++L +Yl
  PHY93_02290|PHY93_02290 51 APGLDISVDTWPSYYKKLHRYL 72
                             69999****************8 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 1.3
                              XXTTS-HHHHHHH CS
                Hormone_3   7 PgedaspEeLakY 19 
                              P +  + EeL  Y
  PHY93_02290|PHY93_02290 259 PDSLSTKEELLAY 271
                              5666788999888 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 0.42
                              HHHHHH CS
                Hormone_3  23 LrhYln 28 
                              Lr Y+ 
  PHY93_02290|PHY93_02290 381 LRSYYQ 386
                              555553 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (396 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       513  (0.0286129); expected 358.6 (0.02)
Passed bias filter:                      319  (0.0177924); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.23s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 2575.59
//
Query:       PHY93_02295|PHY93_02295  [L=177]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.7e-10   41.1   0.0    2.4e-10   40.7   0.0    1.2  1  Acetyltransf_1   Acetyltransferase (GNAT) family
    7.4e-07   29.0   0.0    1.1e-06   28.5   0.0    1.3  1  FR47             FR47-like protein
    7.5e-07   29.5   0.0    1.2e-06   28.8   0.0    1.4  1  Acetyltransf_7   Acetyltransferase (GNAT) domain
    2.3e-05   24.3   0.0    4.6e-05   23.3   0.0    1.7  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
     0.0049   17.0   0.0     0.0085   16.2   0.0    1.3  1  Acetyltransf_CG  GCN5-related N-acetyl-transferase


Domain annotation for each model (and alignments):
>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.7   0.0   6.6e-14   2.4e-10       9     117 .]      34     158 ..      22     158 .. 0.75

  Alignments for each domain:
  == domain 1  score: 40.7 bits;  conditional E-value: 6.6e-14
                              HHHTHHHHHHHHHHHHHHH.HHSTTCEEEEEEETTEEEEEEEEEEEETTSTTEEEEEEEEE.....................SGGG CS
           Acetyltransf_1   9 vesffppnedaseeefees.fsleaegllvaeedgeliGfisllkipdekggvayieslaV.....................spey 72 
                              +e   p++++a++ +++    sl +e + +  ed +++G++s++++        +i  l V                     +p++
  PHY93_02295|PHY93_02295  34 KEFSSPERKEAFFKRWCGDyISLFPEQFTLMTEDKKVLGYLSGCMDSS-----SAISVLEVpgfnlfsdlfrsypahfhinfRPDC 114
                              4444455556666663332467777777778999**************.....55554444444445555555555555555**** PP

                              TTSSHHHHHHHHHHHHHHHTTESEEEEEEETTEHHHHHHHHHTTE CS
           Acetyltransf_1  73 rgkGlGsaLlealeerareegikkivlaveedndaairlYeklGF 117
                              rg+GlGs+L+e + e +re+gi+ + l v+++  a i +Y++l F
  PHY93_02295|PHY93_02295 115 RGRGLGSQLVEGYCEDLREQGITGVHL-VTSPGAANIIFYQRLSF 158
                              ************************9**.889*********99977 PP

>> FR47  FR47-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.5   0.0     3e-10   1.1e-06      26      84 ..     107     165 ..      91     167 .. 0.91

  Alignments for each domain:
  == domain 1  score: 28.5 bits;  conditional E-value: 3e-10
                              EEEE-GGG-SSSHHHHHHHHHHHHHHHS-S-EEEEEETT-HHHHHHHHHHT-EEEEEEE CS
                     FR47  26 alqvlpehrrrGlgsrlvkalakeiaergktvllvvvasNtpsirlyeklGfekieete 84 
                               +  +p+ r+rGlgs+lv+   ++++e+g+t + +v     + i +y++l f+   ++e
  PHY93_02295|PHY93_02295 107 HINFRPDCRGRGLGSQLVEGYCEDLREQGITGVHLVTSPGAANIIFYQRLSFRHEVKRE 165
                              57889********************************99**************987766 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.8   0.0   3.4e-10   1.2e-06      30      75 ..     108     159 ..      58     160 .. 0.64

  Alignments for each domain:
  == domain 1  score: 28.8 bits;  conditional E-value: 3.4e-10
                              EEE-GGGTTSSHHHHHHH.H....TTSEEEEEEEEETHH...HHHHHHHHTTEE CS
           Acetyltransf_7  30 laVdpeyrgkGiGraLle.a....aekgiileqlelnae...kaikfYeklGFe 75 
                              +  +p++rg+G+G++L+e +    +e+gi+   ++l+++   ++i fY++l F+
  PHY93_02295|PHY93_02295 108 INFRPDCRGRGLGSQLVEgYcedlREQGIT-G-VHLVTSpgaANIIFYQRLSFR 159
                              5578**************854544327743.3.3553323334455*****997 PP

>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.3   0.0   1.3e-08   4.6e-05      60     113 ..     111     166 ..      38     175 .. 0.86

  Alignments for each domain:
  == domain 1  score: 23.3 bits;  conditional E-value: 1.3e-08
          Acetyltransf_10  60 dpeyrgqGigkaLleaveeeaekdgikleltvnasp..yavpfYeklGFkav.geeq 113
                              +p++rg+G+g++L+e ++e ++++gi   +++  sp  + + fY++l F+   ++e+
  PHY93_02295|PHY93_02295 111 RPDCRGRGLGSQLVEGYCEDLREQGIT-GVHLVTSPgaANIIFYQRLSFRHEvKREF 166
                              79**********************999.66666666437788*******97645544 PP

>> Acetyltransf_CG  GCN5-related N-acetyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0   2.4e-06    0.0085      29      58 ..     107     136 ..     103     142 .. 0.92

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 2.4e-06
          Acetyltransf_CG  29 hTeVpeelrGkGiAkkLvkaalddareegl 58 
                              h+   +  rG+G++++Lv+   +d re+g 
  PHY93_02295|PHY93_02295 107 HINFRPDCRGRGLGSQLVEGYCEDLREQGI 136
                              888899**********************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (177 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       358  (0.0199677); expected 358.6 (0.02)
Passed bias filter:                      335  (0.0186848); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 1244.56
//
Query:       PHY93_02300|PHY93_02300  [L=140]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0095   15.9   0.0      0.014   15.4   0.0    1.4  1  HTH_Crp_2        Crp-like helix-turn-helix domain
  ------ inclusion threshold ------
      0.016   15.1   0.0      0.033   14.2   0.0    1.6  1  HTH_36           Helix-turn-helix domain
      0.025   12.3   0.0      0.026   12.2   0.0    1.1  1  Mononeg_RNA_pol  Mononegavirales RNA dependent RNA polymerase
      0.026   14.4   0.0      0.043   13.7   0.0    1.3  1  TrmB             Sugar-specific transcriptional regulator Trm
      0.079   12.4   0.0      0.095   12.1   0.0    1.1  1  RepL             Firmicute plasmid replication protein (RepL)
       0.17   11.6   0.0       0.42   10.3   0.0    1.7  1  HTH_41           Helix-turn-helix domain


Domain annotation for each model (and alignments):
>> HTH_Crp_2  Crp-like helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   4.6e-06     0.014      18      54 ..      78     115 ..      50     123 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 4.6e-06
                              EEEEHHHHHHHHHTTSSHHHHHHHHHHHHHTTSEE.ET CS
                HTH_Crp_2  18 ielpltqeelAsmlGltretvsrilseLkreglis.rg 54 
                              i   ++++e+A  + +  e v  +l++L++  +i+  +
  PHY93_02300|PHY93_02300  78 ISQMMSHTEMAKNISVAIEDVYSALRKLEEYDMIRtIR 115
                              56679****************************99534 PP

>> HTH_36  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   1.1e-05     0.033       2      53 ..      50     109 ..      49     111 .. 0.79

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 1.1e-05
                   HTH_36   2 rLspsaklllgslasfanknggcfps............qetlakrlglsknTvsraikeLeqlG 53 
                               Ls+ ++l+l+++ +      +cfp                +ak+  +  + v++a+++Le++ 
  PHY93_02300|PHY93_02300  50 KLSRIEILVLMYIYRRV----WCFPNlhrshgisqmmsHTEMAKNISVAIEDVYSALRKLEEYD 109
                              59999**********99....999988888995555555566666666666**********996 PP

>> Mononeg_RNA_pol  Mononegavirales RNA dependent RNA polymerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   8.6e-06     0.026     329     371 ..      52      94 ..      14     113 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 8.6e-06
                              --HHHHHHHHHHSSTT------HHHHHHHHHHHHH------TH CS
          Mononeg_RNA_pol 329 dnieqlaelfslfRhfGHPvldartaldkvreqmnakkvldls 371
                                ie l+ ++   R + +P l+ + +++++ ++ ++ k++++ 
  PHY93_02300|PHY93_02300  52 SRIEILVLMYIYRRVWCFPNLHRSHGISQMMSHTEMAKNISVA 94 
                              678889999******************************9874 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   1.4e-05     0.043      25      58 ..      84     117 ..      79     127 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1.4e-05
                              HCHHCCCTTSSCHCHHHHHHHHHHCTSEEEESST CS
                     TrmB  25 adeiaeelgvprskvYevLrsLedkGlVerekgr 58 
                               +e a+++ v    vY++Lr+Le+ +++++++  
  PHY93_02300|PHY93_02300  84 HTEMAKNISVAIEDVYSALRKLEEYDMIRTIRAG 117
                              67899999********************999855 PP

>> RepL  Firmicute plasmid replication protein (RepL)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   3.2e-05     0.095      62     113 ..      66     119 ..      24     121 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 3.2e-05
                     RepL  62 yylidnlnsnntl..iatnRelaeetgislktvsetlkileeanilkkkanGvl 113
                               + + nl+++  +  ++ + e+a++  ++++ v   l+ lee ++++ + +G +
  PHY93_02300|PHY93_02300  66 VWCFPNLHRSHGIsqMMSHTEMAKNISVAIEDVYSALRKLEEYDMIRTIRAGQY 119
                              59999**9665432288999**************************99998877 PP

>> HTH_41  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0   0.00014      0.42      10      43 ..      85     118 ..      79     119 .. 0.89

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00014
                   HTH_41  10 eelakeleLSvGlvQkALklLeddkaislerrGr 43 
                              +e+ak++++    v +AL +Le+  +i ++r G 
  PHY93_02300|PHY93_02300  85 TEMAKNISVAIEDVYSALRKLEEYDMIRTIRAGQ 118
                              7999999999999******************985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (140 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       573  (0.0319594); expected 358.6 (0.02)
Passed bias filter:                      430  (0.0239835); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.49u 0.26s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 948.59
//
Query:       PHY93_02305|PHY93_02305  [L=246]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.1e-78  262.2   0.2    7.4e-78  261.4   0.2    1.4  1  DUF3050          Protein of unknown function (DUF3050)
  ------ inclusion threshold ------
      0.034   14.2   0.1      0.061   13.3   0.1    1.4  1  Nitrate_red_del  Nitrate reductase delta subunit


Domain annotation for each model (and alignments):
>> DUF3050  Protein of unknown function (DUF3050)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  261.4   0.2   8.2e-82   7.4e-78       1     233 []      17     243 ..      17     243 .. 0.94

  Alignments for each domain:
  == domain 1  score: 261.4 bits;  conditional E-value: 8.2e-82
                  DUF3050   1 lleHplykeiksledlrifmehHvfavwDFmsLlkaLqreltcvevpWvpskna.earrliNeivlaEEsDeeeegealsHfelYl 85 
                              ++eH++y++i +++dl+i+me+H+favwDFmsLlk+Lqre+tcve+pW ps  + ++ rliNeivl+EEsD +++gea+ Hf lYl
  PHY93_02305|PHY93_02305  17 ISEHSMYNKILTVSDLKIMMETHIFAVWDFMSLLKRLQREITCVELPWKPSPYPgKIVRLINEIVLGEESDLDQNGEAIDHFSLYL 102
                              579************************************************9886899**************************** PP

                  DUF3050  86 eameevgadtseiekllelleegksveealeaaevpeaakeFvettfevieegkahevaaaftfgREdlipdmfrsllkelekkae 171
                              +am+e+ga+ts+++++++  +           +++++a ++Fv++ +++++ g  hevaa f+fgRE+lipdmf+s++++lek++e
  PHY93_02305|PHY93_02305 103 KAMNEIGAKTSHLKNFIADQDF----------SKLTNAQRNFVQFHLNLANAGLIHEVAASFFFGREKLIPDMFTSIITDLEKNIE 178
                              *****************87644..........56778899******************************************9985 PP

                  DUF3050 172 eke...leklkyYleRhieldgdeHgplalklleelcgddeekweeaeeaakealeaRiklWdgi 233
                              e++   +++lkyYl Rhie+dg +Hg  a ++l+ +cg+de+kweea+    ++l+ Ri+lWd++
  PHY93_02305|PHY93_02305 179 ERDqdlFPNLKYYLLRHIEIDGTKHGSQAEECLAIICGNDEKKWEEARLSGVKSLKLRIALWDEV 243
                              5542227899*****************************************************86 PP

>> Nitrate_red_del  Nitrate reductase delta subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.1   6.8e-06     0.061      82     129 ..      90     140 ..      75     141 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 6.8e-06
          Nitrate_red_del  82 efneppDHlaveLeflahLaereaeaeea....eeaealleaqkafleehll 129
                              +  e+ DH++++L ++ +  +++++  ++    ++  +l +aq++f + hl+
  PHY93_02305|PHY93_02305  90 QNGEAIDHFSLYLKAMNEIGAKTSHL-KNfiadQDFSKLTNAQRNFVQFHLN 140
                              445789**************999974.556999999**************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (246 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       531  (0.0296168); expected 358.6 (0.02)
Passed bias filter:                      400  (0.0223102); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.42
# Mc/sec: 1738.28
//
Query:       PHY93_02310|PHY93_02310  [L=412]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.48   11.0   3.7         27    5.4   1.5    2.6  2  DUF1410   Protein of unknown function (DUF1410)


Domain annotation for each model (and alignments):
>> DUF1410  Protein of unknown function (DUF1410)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.0   0.0    0.0019        34      26      44 ..      88     123 ..      67     127 .. 0.76
   2 ?    5.4   1.5    0.0015        27      40      64 .]     282     316 ..     263     316 .. 0.70

  Alignments for each domain:
  == domain 1  score: 5.0 bits;  conditional E-value: 0.0019
                  DUF1410  26 e................dakidknkktlid.lnnLa 44 
                              e                +ak+d+n ++++d l++La
  PHY93_02310|PHY93_02310  88 EiksviaegmdqnlsgdQAKFDENVQVVVDsLKKLA 123
                              444555567777777779***********99***97 PP

  == domain 2  score: 5.4 bits;  conditional E-value: 0.0015
                  DUF1410  40 lnnLann..........nkYklkkitlnnnnidln 64 
                              ++nL+n            +Y ++k+t+nn+++++n
  PHY93_02310|PHY93_02310 282 TTNLKNAqsiysevsdrMNYAFQKVTFNNEKVIVN 316
                              7777777555555444337***********99875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (412 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       951  (0.0530426); expected 358.6 (0.02)
Passed bias filter:                      441  (0.024597); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.60u 0.24s 00:00:00.84 Elapsed: 00:00:00.44
# Mc/sec: 2782.99
//
Query:       PHY93_02315|PHY93_02315  [L=297]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.6e-14   53.3   0.0    7.5e-14   52.9   0.0    1.2  1  Trypsin_2      Trypsin-like peptidase domain
    5.1e-12   46.1   0.0      2e-11   44.1   0.0    1.8  1  Trypsin        Trypsin
  ------ inclusion threshold ------
      0.022   13.5   0.2      0.055   12.1   0.1    1.7  2  Peptidase_S46  Peptidase S46


Domain annotation for each model (and alignments):
>> Trypsin_2  Trypsin-like peptidase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.9   0.0   1.3e-17   7.5e-14       1     147 [.      99     247 ..      99     250 .. 0.80

  Alignments for each domain:
  == domain 1  score: 52.9 bits;  conditional E-value: 1.3e-17
                Trypsin_2   1 GsGflvgsdglilTnaHvv...dsadgaavkaikkkveeagadgrevpakvvaadp.........el.DlAllkvssderaglppl 73 
                              ++Gfl+g+d+ +  + H++   ++++++ +    +   e+++ +r++  ++ + ++         +  D+A++++ ++   g  pl
  PHY93_02315|PHY93_02315  99 CTGFLIGEDL-VASAGHCFfsvSDCESKLIAFNVQTKNEIKEGYRVLNQNIYECSEivsnvfdveGFqDYAVIRL-KKKVFGAKPL 182
                              79********.********7665555555544555555556666666666444444555555543449*******.********** PP

                Trypsin_2  74 plgpsealkggepvyvvGyplggeksgsvssGivsgvvesesaasgegesflqtdaatspGsSGGplfd.sdGrv 147
                              +l+++ ++   ++v+++G+p+g +   s+++  v+++++         + f++++ +  +G+SG+p+f+ ++ +v
  PHY93_02315|PHY93_02315 183 KLRSTGSITANDQVFMIGHPMGLPLV-STNKALVNDISN---------PHFFRATLDSFEGNSGSPVFNsKTLEV 247
                              ****99999999*************9.************.........9999*****************565665 PP

>> Trypsin  Trypsin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.1   0.0   3.4e-15     2e-11      23     200 ..      95     255 ..      88     269 .. 0.75

  Alignments for each domain:
  == domain 1  score: 44.1 bits;  conditional E-value: 3.4e-15
                              CEEEEEEEEEETTEEEEEGGGTTTGGGEEEEESESBTTSCTTTEEEEEEEEEEEETTEBTTTT.........TTTEEEEEESSSST CS
                  Trypsin  23 gkhlCgGslisenwvlTAaHCvsnasdvkvvlgehnlkksegkeqklkvekvivhpnynpstl.........dnDiallklkepvk 99 
                              +   C+G+li+e+ v +A+HC+ + sd +  l + n++ +++     +  +v+ ++ y+ s+           +D+a+++lk++  
  PHY93_02315|PHY93_02315  95 TVNSCTGFLIGEDLVASAGHCFFSVSDCESKLIAFNVQTKNE---IKEGYRVLNQNIYECSEIvsnvfdvegFQDYAVIRLKKK-- 175
                              3457********************888888888744444444...45555555555566665446666777778**********.. PP

                              SBSSBHCCBBCSTTHTTSTTTEEEEEESSBSSTSSBSSBEEEEEEEEEEHHHHHHHTTTTSTTTEEEEESTTSSSBCTTTTTTSEE CS
                  Trypsin 100 lgdtvrpiclpaassslpvgttclvsGwgrtkekgksdtlqevevpvvsretcksaykgkvtenmlcagakeggkdacqGDSGGPl 185
                                   +p++l++++s   +++ ++v  +g++   g    l +++  +v++           +++++ a       d+ +G+SG+P+
  PHY93_02315|PHY93_02315 176 -VFGAKPLKLRSTGS---ITANDQVFMIGHP--MG--LPLVSTNKALVND---I------SNPHFFRATL-----DSFEGNSGSPV 239
                              .8899*******887...6666777777876..34..2355555566555...2......3689******.....*********** PP

                              EETTT.EEEEEEEEES CS
                  Trypsin 186 vcsdg.elvGivswgk 200
                              ++s++ e+ Gi+  g+
  PHY93_02315|PHY93_02315 240 FNSKTlEVEGILVSGQ 255
                              ***********98874 PP

>> Peptidase_S46  Peptidase S46
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       0.2   1.2e+03     234     250 ..     186     202 ..     182     206 .. 0.86
   2 ?   12.1   0.1   9.2e-06     0.055     622     645 ..     221     244 ..     207     257 .. 0.85

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 0.2
                              ESS---TT-EEEEEE-- CS
            Peptidase_S46 234 slkGvkegdlvfvlGyP 250
                              s+ ++ ++d vf++G+P
  PHY93_02315|PHY93_02315 186 STGSITANDQVFMIGHP 202
                              5667899*********9 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 9.2e-06
                              EEEEEES----TT-TT-EEE-TTS CS
            Peptidase_S46 622 pvnflstnDitGGNSGSPvlngkg 645
                              p  f +t D   GNSGSPv+n+k 
  PHY93_02315|PHY93_02315 221 PHFFRATLDSFEGNSGSPVFNSKT 244
                              667999***************984 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (297 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       453  (0.0252663); expected 358.6 (0.02)
Passed bias filter:                      373  (0.0208043); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.54u 0.25s 00:00:00.79 Elapsed: 00:00:00.44
# Mc/sec: 2014.13
//
Query:       PHY93_02320|PHY93_02320  [L=425]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.7e-22   79.3   0.0    1.4e-21   77.0   0.0    2.1  2  Aldo_ket_red  Aldo/keto reductase family


Domain annotation for each model (and alignments):
>> Aldo_ket_red  Aldo/keto reductase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.0   0.0   7.7e-26   1.4e-21      20     142 ..      18     173 ..       3     306 .. 0.80
   2 ?   -1.0   0.0     0.046   8.2e+02      13      34 ..     386     407 ..     375     409 .. 0.86

  Alignments for each domain:
  == domain 1  score: 77.0 bits;  conditional E-value: 7.7e-26
                              HHHHHHHHHHTT--EEE--TT-TTTHHHHHHHHHHHH-TTTGGG-EEEEEE........................--SSSTTSSSS CS
             Aldo_ket_red  20 alellrraleaGinffDtAevYgkgqseellGealkksrkkreeviiatKv........................dlrdaeiksgl 81 
                                 +l +al+ G+ ++Dt+  Y +g+seel+G +l++  ++    i++tK                          +  a+ k ++
  PHY93_02320|PHY93_02320  18 HRLALTTALKLGCPLIDTSANYTNGESEELIGAVLSE--NPDFRPILVTKAgyiqgqnlriieelnskglaiedlVDLSADLKHSI 101
                              444699*******************************..888999***************************9999999999999* PP

                              -HHHHHHHHHHHHHHHT-S-EEEEEE-S--TTS-............HHHHHHHHHHHHHTTSEEEEEEES-- CS
             Aldo_ket_red  82 skeniresleeslkrLgtdyvDllllHrpdpslp...........sieevldaleelvkeGkiraiGvSnfs 142
                              +++ + ++l++slkrL+ + +D++llH+p+++ +           +ie+++++lee v+ G i+++G+S+ +
  PHY93_02320|PHY93_02320 102 HPDFLKNQLDNSLKRLQKNSIDIFLLHNPEYYFKsvgasqeeyyrRIEKAFRYLEEEVQLGRIKSYGISSNN 173
                              *********************************************************************655 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.046
                              .TS-HHHHHHHHHHHHHTT--E CS
             Aldo_ket_red  13 eeiskeealellrraleaGinf 34 
                              +eis++ a+e+++++l +G+ f
  PHY93_02320|PHY93_02320 386 KEISRPFAVEVIETYLNYGFDF 407
                              689****************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (425 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       775  (0.0432261); expected 358.6 (0.02)
Passed bias filter:                      575  (0.0320709); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.67u 0.28s 00:00:00.95 Elapsed: 00:00:00.47
# Mc/sec: 2726.91
//
Query:       PHY93_02325|PHY93_02325  [L=164]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (164 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       554  (0.0308997); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.44
# Mc/sec: 1110.67
//
Query:       PHY93_05920|PHY93_05920  [L=317]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.2e-22   80.3   0.0    1.6e-22   80.0   0.0    1.1  1  PNP_UDP_1  Phosphorylase superfamily
  ------ inclusion threshold ------
        1.4    8.9  15.5      0.051   13.6   9.7    1.5  2  HC2        Histone H1-like nucleoprotein HC2


Domain annotation for each model (and alignments):
>> PNP_UDP_1  Phosphorylase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   80.0   0.0   1.7e-26   1.6e-22      40     206 ..     121     278 ..      80     303 .. 0.84

  Alignments for each domain:
  == domain 1  score: 80.0 bits;  conditional E-value: 1.7e-26
                              TTEEEEEEE--SSHHHHHHHHHHHHHHHC--SEEEEEEEEEESSTTT-TT-EEEEEEEEESSSCCGCCTHHCCTCCCCTTSSEE-- CS
                PNP_UDP_1  40 kgkpvvivstGiGkpnaavvaeirllkefgvkaiiriGtaGglnpdlkvGDvvipddainfdgrsplygpkeegqyfpdsydapad 125
                               + +v+i+  G+G  +aa + e+ +    ++ka+++ G aGg++p+l+vGD+v+p ++i+ +g ++ + p    + +p+ + +++ 
  PHY93_05920|PHY93_05920 121 AKAQVTIIEFGVGSAMAALIGELLA--VVEPKAVLFLGLAGGVHPSLEVGDFVLPIASIRGEGVTQHFLP----EQVPALPTFKVQ 200
                              5789**************4444444..458************************************7776....677777777777 PP

                              HHHHHHHHHCHHTTTTTEEEEEEEEESESS-CHHHHHH.HHHHTC-CEEESSHHHHHHHHHHTT--EEEEEEEEETTTBETT CS
                PNP_UDP_1 126 pelrallkeaaealgikvhrGvvatadgfyaeteaelr.llrrlgadaveMEtaavaqlArelgipfaairvvsdlaaggad 206
                              +   ++l+e    +g ++++G++ ++d  + e +++ +  l ++ + aveMEtaa+++ ++  ++  +a+ ++sd+  ++++
  PHY93_05920|PHY93_05920 201 KFVSQILVE----HGLEYRTGTIHSTDYRFWEFDDRFKlNLLEQRVLAVEMETAALFVSCFVSKVNIGALLLISDHPLKRGG 278
                              777777777....9*******************8888888888889*****************************8887333 PP

>> HC2  Histone H1-like nucleoprotein HC2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   9.7   5.7e-06     0.051      36      72 ..       5      40 ..       1      75 [. 0.48
   2 ?   -3.3   0.3      0.88   7.9e+03      14      19 ..     283     288 ..     274     293 .. 0.37

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 5.7e-06
                      HC2 36 rKvaaKKtaarKtvakktvakkkvaakkaaakkaavk 72
                             +Kva KK+a +K + kk+va kk  +k +a++ a v+
  PHY93_05920|PHY93_05920  5 KKVALKKAASKKIALKKVVA-KKSREKTIASHSAKVR 40
                             33333333333333332222.2222223333333333 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 0.88
                      HC2  14 Aakkaa 19 
                              A+ ka+
  PHY93_05920|PHY93_05920 283 ASAKAV 288
                              111122 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (317 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1165  (0.0649785); expected 358.6 (0.02)
Passed bias filter:                      616  (0.0343577); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.60u 0.23s 00:00:00.83 Elapsed: 00:00:00.43
# Mc/sec: 2219.12
//
Query:       PHY93_02330|PHY93_02330  [L=520]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.8e-29  101.4  20.6    5.8e-29  101.4  20.6    2.5  3  Cytochrom_C_asm  Cytochrome C assembly protein


Domain annotation for each model (and alignments):
>> Cytochrom_C_asm  Cytochrome C assembly protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0      0.12   2.2e+03     126     151 ..       2      27 ..       1      31 [. 0.81
   2 ?   -2.0   1.9      0.14   2.5e+03       9      46 ..     226     263 ..     219     273 .. 0.49
   3 !  101.4  20.6   3.2e-33   5.8e-29       2     210 ..     277     475 ..     276     480 .. 0.88

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 0.12
          Cytochrom_C_asm 126 yriiliGfvlltigiilGsvWaeeaW 151
                              ++ii++ +++l+++ i+ +++ae ++
  PHY93_02330|PHY93_02330   2 KKIIILPMLFLLLSTISTTLFAETYF 27 
                              67888999999999999999998776 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.14
          Cytochrom_C_asm   9 lllawilsllgllleylarklnlsllaavaliaalill 46 
                              + +a++l++l l + +l ++ n+ l  a+++ ++ ++l
  PHY93_02330|PHY93_02330 226 ATWALTLTILALAALVLFKNFNIALGLASVSAVVQLIL 263
                              44555555555555444555444443333333333333 PP

  == domain 3  score: 101.4 bits;  conditional E-value: 3.2e-33
          Cytochrom_C_asm   2 snleesllllawilsllgllleylarklnlsllaavaliaalillgfalflllaelqesadlnpalqsp.ilmiHvplallsYatl 86 
                               n++e +l+  +++++l l+l  l+++   +l+  + l  ++++l+++ f     +  +++l+p+l+++ +l  Hv++++lsY++l
  PHY93_02330|PHY93_02330 277 TNMYETVLFSGFGSLTLALILGHLKKE---KLFVYMGLAYNVCTLMMLNFANGMLTATISPLVPVLRDNfWLSTHVTMVILSYGAL 359
                              699******************888888...7777777777777777777777788999*********9889*************** PP

          Cytochrom_C_asm  87 iigallsialliierqlkkkkklklsanlkllkqldrlsyriiliGfvlltigiilGsvWaeeaWGsywsWDpketaslitWlvfa 172
                              ++  +l+   l       +k+k+   ++ ++l+  ++++y++ + G  +l  g+ilG vWa   WG +w WDpket+sli+++++ 
  PHY93_02330|PHY93_02330 360 ALSWILANTVL-------FKRKWGKITKKEELNF-AEIIYTTLKWGTTMLAGGVILGGVWADYSWGRFWGWDPKETWSLIVLMTYM 437
                              ***********.......5666777777777776.899************************************************ PP

          Cytochrom_C_asm 173 allhsriekgwrgkkaailailgflllllayfgvrllg 210
                              ++lh+r +  ++ ++ + +++ +f+ +++a fgv+++ 
  PHY93_02330|PHY93_02330 438 VILHGRNTSWIKPDRFITITAGAFMSVMMAWFGVNYIL 475
                              ******55466778888888889************854 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (520 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       880  (0.0490825); expected 358.6 (0.02)
Passed bias filter:                      380  (0.0211947); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.63u 0.27s 00:00:00.90 Elapsed: 00:00:00.44
# Mc/sec: 3511.64
//
Query:       PHY93_02335|PHY93_02335  [L=545]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-10   40.3   8.7    1.4e-08   34.0   0.8    3.4  4  ResB      ResB-like family
  ------ inclusion threshold ------
       0.27   11.6   3.3       0.48   10.7   3.3    1.3  1  Vut_1     Putative vitamin uptake transporter


Domain annotation for each model (and alignments):
>> ResB  ResB-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.3     0.096   8.6e+02       2      22 ..      20      40 ..      19      70 .. 0.78
   2 !    8.5   0.0   8.1e-05      0.72     151     206 ..      84     147 ..      81     167 .. 0.77
   3 !   34.0   0.8   1.6e-12   1.4e-08     203     275 ..     432     503 ..     415     516 .. 0.82
   4 !    2.6   0.1    0.0049        44     427     454 ..     499     526 ..     493     532 .. 0.88

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 0.096
                     ResB  2 rlAlvLLlllaiaSiiGtvlp 22
                             ++A++ + l  i  i+Gt+l+
  PHY93_02335|PHY93_02335 20 KFAVIVISLFTIGMIVGTFLE 40
                             778888888888888888776 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 8.1e-05
                     ResB 151 lGnlvfHialvliligallgslfgfrgnvivpeGqsfnnail.......dsfrdGslvqe.lpf 206
                               G + +H++l++i +g l+  + g++g+++++ ++    +il          ++G+ v + lpf
  PHY93_02335|PHY93_02335  84 YGFYTIHSGLIIIGMGSLITYVAGVDGQITLAPNEPNRQVILtkdilkiTYPTEGKQVTSfLPF 147
                              599****************************999888888776655444333445555555665 PP

  == domain 3  score: 34.0 bits;  conditional E-value: 1.6e-12
                     ResB 203 elpfslrldkFtveyydtkgqpkeFesdvtvldkgkeakektikVNhPlrykgvriYqssfgdggklelklvl 275
                              +lpf+l l +F+++  + +  p ++es v++   + ++ ++++  N+P++  g+++Yq+s+++ ++ +++ +l
  PHY93_02335|PHY93_02335 432 TLPFELALTEFKMDKDPGTNNPASYESFVKLFS-DGKSSNHHVFMNNPMKKSGYTFYQASYSQDNQGQYNTTL 503
                              49***************988************8.4467799********************887776666554 PP

  == domain 4  score: 2.6 bits;  conditional E-value: 0.0049
                     ResB 427 qasgLqvsrdpgknlvllgalllvlGlv 454
                              + ++L v+ d g ++ +lg+l+lv G +
  PHY93_02335|PHY93_02335 499 YNTTLAVNVDQGRTMKYLGSLMLVFGAI 526
                              5689*********************976 PP

>> Vut_1  Putative vitamin uptake transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   3.3   5.4e-05      0.48       6      76 ..      28     107 ..      24     112 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 5.4e-05
                    Vut_1   6 lfpltflitdiisevyGkkaarkvvllgflan.....llalillllalllpa....ealesvfgltprivlasliaylvs 76 
                              lf + ++++  +  +yG   a+++v+ + +++     +l+ i++  +l lp+      + ++ +  + i ++sli+y+++
  PHY93_02335|PHY93_02335  28 LFTIGMIVGTFLESYYGTDFANRAVYKTPAFMmvqfgILLSIIFAAILRLPPkkrlYGFYTIHSGLIIIGMGSLITYVAG 107
                              6788899999***************865443300011444455555578888877777*******************976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (545 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       505  (0.0281667); expected 358.6 (0.02)
Passed bias filter:                      351  (0.0195772); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.68u 0.25s 00:00:00.93 Elapsed: 00:00:00.48
# Mc/sec: 3436.19
//
Query:       PHY93_02340|PHY93_02340  [L=226]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.8e-58  197.7  17.5    2.2e-58  197.5  17.5    1.1  1  DUF1624        Protein of unknown function (DUF1624)
    5.2e-07   29.1  31.5     0.0016   17.6  12.2    2.4  2  Acyl_transf_3  Acyltransferase family
  ------ inclusion threshold ------
      0.017   14.4   0.4      0.025   13.9   0.4    1.2  1  KdgT           2-keto-3-deoxygluconate permease
       0.44   10.4   4.6       0.51   10.2   3.1    1.8  1  Wzy_C_2        Virulence factor membrane-bound polymerase, C-


Domain annotation for each model (and alignments):
>> DUF1624  Protein of unknown function (DUF1624)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  197.5  17.5   4.9e-62   2.2e-58       1     223 []       9     214 ..       9     214 .. 0.91

  Alignments for each domain:
  == domain 1  score: 197.5 bits;  conditional E-value: 4.9e-62
                  DUF1624   1 RieeiDalRGiAlilMiifHflfdLeffgylavslatsglwvvfarliaslFlfiaGvslvlahskslrwrkflkRglkilaaall 86 
                              R   iDa+RG+++ilMi+fHf fdL +fg+l++++  +++w+ + rli++lFlf++G+sl+lah+ +++w++f+kR+lki a+all
  PHY93_02340|PHY93_02340   9 RSRVIDAIRGLTIILMIFFHFSFDLYNFGFLKIDIIREPFWYALPRLIVFLFLFAVGMSLTLAHQDKINWQAFWKRFLKISAFALL 94 
                              7889********************************************************************************** PP

                  DUF1624  87 itaatylllpdsfivFGiLhlialalllallflrlpkalllllallilalglllreaifdlplllwlglssekfetndYvplfPWf 172
                              i+++ty+l+pd++i+FG Lh ial+++++l+fl+ p+ +l+l all+++      + +fd + + w+     + ++ dY+  fPW+
  PHY93_02340|PHY93_02340  95 ISLVTYILFPDNWIYFGTLHAIALISIMTLPFLKKPNLSLAL-ALLLFI-----PSIFFDKN-IPWFS---LPHSSWDYIAPFPWL 170
                              ***************************************999.444444.....34444444.44555...3569*********** PP

                  DUF1624 173 gvvllGialgkllyekgkrrlklpslpkaklvrplallGrhsLliYlihqp 223
                              g+ llGi++ +  +           +p ++lvr l +lGrhsL+iYlihqp
  PHY93_02340|PHY93_02340 171 GASLLGIFAVHKGIYL-------LGIPDNRLVRSLNFLGRHSLFIYLIHQP 214
                              ********99976666.......679999*********************9 PP

>> Acyl_transf_3  Acyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8  15.4   2.6e-06     0.011       4     109 ..      13     116 ..      11     124 .. 0.86
   2 !   17.6  12.2   3.5e-07    0.0016     203     313 ..     109     225 ..     106     226 .] 0.79

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 2.6e-06
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxx RF
            Acyl_transf_3   4 lDllRgiAillVvflHaliayspdagrgspiqasqssqiaflggfgvplFFllSGfflaamlyrrrglsklikrRilrll.iplli 88 
                              +D++Rg+ i+l++f+H++  +  +++ + +i    ++   +l +  v lF++  G+ l+      +  ++++++R+l++   +lli
  PHY93_02340|PHY93_02340  13 IDAIRGLTIILMIFFHFSFDLYNFGFLKIDIIREPFWY--ALPRLIVFLFLFAVGMSLT-LAHQDKINWQAFWKRFLKISaFALLI 95 
                              8******************8888888888888777777..9*****************7.999999999**********9888888 PP

                              xxxxxxxxxxxxxxxxxxxxx RF
            Acyl_transf_3  89 wllliillialvaghiqanas 109
                              +l+++il+   ++++ + +a 
  PHY93_02340|PHY93_02340  96 SLVTYILFPDNWIYFGTLHAI 116
                              888888887777776666655 PP

  == domain 2  score: 17.6 bits;  conditional E-value: 3.5e-07
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxx.....xxxxxxxxxx RF
            Acyl_transf_3 203 lfGalladaddrdrnlsrglkislllsllllalillalfgqtdg.gglvasvliqsaslllvslgimllll.....llfalpsrsa 282
                              +fG l a a   ++ l+   k  l l+l+ll++i   +f  + +  +l  s++ ++a ++++ + +++++      +l+  p+++ 
  PHY93_02340|PHY93_02340 109 YFGTLHAIALISIMTLPFLKKPNLSLALALLLFIPSIFFDKNIPwFSLPHSSWDYIAPFPWLGASLLGIFAvhkgiYLLGIPDNRL 194
                              78888888888888899999999999999999999999999988888888888888888888888888876111113455566666 PP

                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Acyl_transf_3 283 fkllrylgkiSygiYliHlpllmllqkllrd 313
                              ++ l++lg+ S+ iYliH+p+l+   +l+r 
  PHY93_02340|PHY93_02340 195 VRSLNFLGRHSLFIYLIHQPILFGAVYLFRQ 225
                              669*******************988777775 PP

>> KdgT  2-keto-3-deoxygluconate permease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.4   5.5e-06     0.025      48     112 ..      56     123 ..      40     139 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 5.5e-06
                     KdgT  48 llglfllcvGaqiklkaagkvlkkggvlllvkll.iavllgllvakllgeeg..llGlsvlaliaalt 112
                              +++lfl++vG++++l +  k+ ++ ++  ++k+  +a+l++l+ + l++++   +  l ++ali+++t
  PHY93_02340|PHY93_02340  56 IVFLFLFAVGMSLTLAHQDKINWQAFWKRFLKISaFALLISLVTYILFPDNWiyFGTLHAIALISIMT 123
                              899*****************************961677777777778887778555699999999997 PP

>> Wzy_C_2  Virulence factor membrane-bound polymerase, C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   3.1   0.00011      0.51      19      69 ..      47     102 ..      47     109 .. 0.86

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00011
                  Wzy_C_2  19 PlwYspfllaaflvlgllds.....ksrsrrlrlrpklvlrvvalvlallglalll 69 
                              P+wY    l++fl l+++       ++ + ++++ +k++l+++a++l++ ++ ++l
  PHY93_02340|PHY93_02340  47 PFWYALPRLIVFLFLFAVGMsltlaHQDKINWQAFWKRFLKISAFALLISLVTYIL 102
                              9*********9999988887788888888888888*******99999998887765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (226 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       636  (0.0354733); expected 358.6 (0.02)
Passed bias filter:                      249  (0.0138881); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.52u 0.29s 00:00:00.81 Elapsed: 00:00:00.47
# Mc/sec: 1443.95
//
Query:       PHY93_02345|PHY93_02345  [L=787]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   1.7e-169  566.0   0.0     2e-169  565.8   0.0    1.0  1  Penicil_amidase  Penicillin amidase


Domain annotation for each model (and alignments):
>> Penicil_amidase  Penicillin amidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  565.8   0.0  1.1e-173    2e-169       1     672 [.      34     775 ..      34     777 .. 0.92

  Alignments for each domain:
  == domain 1  score: 565.8 bits;  conditional E-value: 1.1e-173
                              .EEEEEEGGGEEEEE-SSHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHHH-TBHHHHHHHHHHHT-HHHHHHHHHTS...... CS
          Penicil_amidase   1 pVeirrDewgvphIyAkneedlffaqGyvhAqdrlwqmellrrtarGrlaelfGpealesDrllrtlglrraaeaelaal.....l 81 
                              pV+++rD++g+phI+Akn +d+f+a+G+v A++rl+qme++rr+a+G+lae+fG++ l++D+l+rtl lr+++  +l+ +     l
  PHY93_02345|PHY93_02345  34 PVSVIRDQFGIPHIKAKNNKDAFRALGFVVASERLFQMEMERRMANGELAEIFGKRMLATDKLFRTLSLRQSMSSMLDHKirtntL 119
                              699*************************************************************************9888876666 PP

                              ....HHHHHHHHHHHHHHHHH-..-ST-HH.HHHH---....S.........SS-.XXXXXX.....XXX.XXXXXXXX....... CS
          Penicil_amidase  82 dpetralleaYaaGvNaylaelkakalPlefallgykpepWtpvdslavakvmaldlagnleeelararalaaklgdekvaelfpp 167
                              dp+    le++ +GvN++  ++k   lPlef llg+kp+p++++d +a++ +m+++++ + +ee  +++ l+ +lg+e  +el ++
  PHY93_02345|PHY93_02345 120 DPKMWNELESFYDGVNQFQYNEK---LPLEFSLLGIKPRPFSALDGYAFIGLMSFSFGVATSEEPLMTK-LRIRLGSELSNELRNE 201
                              778899*************9888...*******************************889999999998.8999999999888553 PP

                              ..............................................X-EEEEE-TTTBTTSS-EEEEE-EEESSGGG--EEEEEEE CS
          Penicil_amidase 168 ..............................................gSNnwvvsgerTasGkpllanDPHlglsapslwyqahlqa 207
                                                                            gSN+wv+sg+r+ +G p+lanDPH+++s+p++w++ah+++
  PHY93_02345|PHY93_02345 202 mtpyevheiekeknaalkskrvveardhypvmkilvdleqgfplfeGSNGWVISGKRSVTGFPILANDPHIAYSNPGVWFEAHIET 287
                              4456777888889999999999999999999999999************************************************* PP

                              TTEEEEEEE-TT-S.SSEEEESSEEEEEEE-SS-SEEEEEEEEETTEEEEEEETTEEEE-EEEEEEEEEE-TT.EEEEEEEEETTE CS
          Penicil_amidase 208 pgldviGaslpGlPgvliGhnediAWglTnagadvqdlyaeklnpddptrylydgkwepmetrtetikvkggddsvtltvreTrhG 293
                              p+++ +G  l  lP+ ++ hn++ +WglT++  d++dly+eklnp+  ++y++++ + p+++r e ikvkg++  +++ v  T+hG
  PHY93_02345|PHY93_02345 288 PDYESYGHFLSILPFPVLSHNKERGWGLTMSLIDDMDLYREKLNPKF-KSYQFKNLEIPYQERLEVIKVKGEKA-YEMLVLTTQHG 371
                              *********************************************99.8999*******************987.99********* PP

                              EEE-...........TB--EEEEG-TTHHHHHHHHHT--SHHHHHHHHHHH---SEEEEEEETT--EEEE--S--B---...TT-- CS
          Penicil_amidase 294 Pvvsd......gkavalrwtalepgdrsldallalnrarnvaefraalkdlaapaqnvvyADreGnigyqaagrvPvrpaaddgll 373
                              P++++      +k++al+w+++  +++ l al+++  a++++ef++a++   ap++n++yAD++ nig+++ g + + +++++  +
  PHY93_02345|PHY93_02345 372 PIMDEvftnpeDKSLALKWAFHGIENDPLLALYKMGSAQSMEEFKSAVSLGRAPGLNILYADKK-NIGWWMFGEIAKKSPHSPTDF 456
                              *****999875545*********999**************************************.**************76699** PP

                              EEETT-GGGS--TB--GGGS-EEEE..SSEEEESSS----S............--T-HHHHHHHHHH..SS...-B-HHHHHHHHH CS
          Penicil_amidase 374 pvpGsdsayeWtgyipfeelPqvvnPargyivtaNnrvlpddypa...algsdwappyRarrirelLeekaagkkvtledmaalqt 456
                              +++Gs++  e++g+++f++ P++ nP +g iv+aN r+  ++ p     + +dw+p++R++ + + L   ++++k+++ +++++qt
  PHY93_02345|PHY93_02345 457 ILDGSSGLDEYEGLLSFDQKPHLENPTSGLIVSANSRP--EGSPLipdNMRGDWQPDDRYKSLLTIL---SKKEKWSVPELKEVQT 537
                              *************************************4..3333333388999**************...77899*********** PP

                              T-BBTHHHHHHHHH...........-..GGGHHHHHHHHH-.SB-STT-THHHHHHHHHHHHTT...................... CS
          Penicil_amidase 457 dtrsllaerllpll..al......eaaeaeaaaaldlLraWdgrmdadsaaaalfaawlaalvralfedelg..........rlae 524
                                 +l  + +l++l   +      +  +++aa+ l++L++W+++ + +s a++l+ +w +++++ l++d  +          ++++
  PHY93_02345|PHY93_02345 538 LSLNLENKLILDELlkTVafqniwK--KERAANYLQILKKWNFESSVHSIAPSLYYTWCREITKILLKDLSPeefetftklpNNWN 621
                              ************9997225566552..3345779******************************8877766677777766665555 PP

                              ..........---TTSTTT-SESHH.HHHHHHHHHHHHHHHST-T-B.....HHHHEEEE.E.................EE---B- CS
          Penicil_amidase 525 aleklleda.sfwwddptttpktrdelllaalaealaeleaaglgadpakwrwgklhrlelrhplg........fnrg.lpvgGge 600
                               l++++ ++ s ww++      +r++++++ +++++++l++a lg+d a+w wg+lh++e  hp+g        fn+g ++++G  
  PHY93_02345|PHY93_02345 622 FLKRVVLSPdSVWWKK-----FDRQKVFTTGFNNTIESLREA-LGEDSAGWAWGHLHTVEYVHPIGrvrpfnkiFNIGpIEINGAY 701
                              5555555556999965.....38999***************9.79999************************************** PP

                              GGG...........EEEEEEE-EEEEEE--T.S.EEEEETT-S-S-TTSTTSSHHHHHHHTT--EEE--SHHHH CS
          Penicil_amidase 601 etvnatsysara..frvtrgpsyrmvvdladrdkaravlpgGqsgnpgsphyaDqlelwaegeylplpfteaai 672
                              +++n++++s  +  f+v+ gps+r +++++ ++  +++lp G+sg++ sp+y+Dq+el+a+g y++ ++++++i
  PHY93_02345|PHY93_02345 702 NEINNQKPSGYSdgFNVKAGPSTRRIISFDHPEIGWGILPSGNSGHLLSPFYKDQVELFAKGLYREEWLDDKDI 775
                              ***9998876669*****************************************************99998876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (787 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       444  (0.0247643); expected 358.6 (0.02)
Passed bias filter:                      391  (0.0218082); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.73u 0.29s 00:00:01.02 Elapsed: 00:00:00.47
# Mc/sec: 5064.33
//
Query:       PHY93_02350|PHY93_02350  [L=228]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (228 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       501  (0.0279436); expected 358.6 (0.02)
Passed bias filter:                      364  (0.0203023); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 1654.11
//
Query:       PHY93_02355|PHY93_02355  [L=102]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.8e-12   47.2   0.1    3.1e-11   44.2   0.1    1.9  1  Cytochrom_C      Cytochrome c
    2.9e-11   43.5   0.0    3.6e-11   43.2   0.0    1.1  1  Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III


Domain annotation for each model (and alignments):
>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.2   0.1   3.5e-15   3.1e-11       1      88 [.      27     101 ..      27     102 .] 0.86

  Alignments for each domain:
  == domain 1  score: 44.2 bits;  conditional E-value: 3.5e-15
                              X--HHHHHHTTGGGTB-SSSBSSS....--HHHHHHHTTT-HHHHHHHHTTSS--SSSHHHHHHHGGGGGGG.TT--HHHHHHHHH CS
              Cytochrom_C   1 aarGkelftanCaaCHgvegggakqgggptlsgaaerasaasigasvanpaavsaprddfekkkltaemparkerlteqeiadlaa 86 
                              aarG+elf+ +C aCHg +g g++++++p+++g+ +++  ++++ ++a        r+++        m ++ ++l+eq+ +dlaa
  PHY93_02355|PHY93_02355  27 AARGAELFK-QCIACHGEKGDGVPAQKAPRIAGQFDWYILKQLQDIKAGVT-----RKNPV-------MVPFVSKLSEQDFKDLAA 99 
                              79******6.9**********************************999882.....33333.......3334467*********** PP

                              HH CS
              Cytochrom_C  87 YL 88 
                              Y+
  PHY93_02355|PHY93_02355 100 YI 101
                              *9 PP

>> Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.2   0.0     4e-15   3.6e-11       2      67 .]      26     101 ..      25     101 .. 0.80

  Alignments for each domain:
  == domain 1  score: 43.2 bits;  conditional E-value: 4e-15
          Cytochrome_CBB3   2 aaaaGaalykknCasCHgkggag......pslagr.dwep.dalvdiiknGk....gaMpafggqlsdeelwalvaYl 67 
                              +aa+Ga+l+k +C +CHg++g g      p +ag+ dw   ++l+d ik G+      M +f ++ls++++++l+aY+
  PHY93_02355|PHY93_02355  26 DAARGAELFK-QCIACHGEKGDGvpaqkaPRIAGQfDWYIlKQLQD-IKAGVtrknPVMVPFVSKLSEQDFKDLAAYI 101
                              799*****99.9******7777788888899999999997544444.45554222158*******************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (102 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       541  (0.0301746); expected 358.6 (0.02)
Passed bias filter:                      493  (0.0274974); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.25s 00:00:00.77 Elapsed: 00:00:00.48
# Mc/sec: 638.60
//
Query:       PHY93_02360|PHY93_02360  [L=145]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    0.00087   19.5   0.0     0.0012   19.1   0.0    1.1  1  Acetyltransf_1  Acetyltransferase (GNAT) family
  ------ inclusion threshold ------
      0.019   14.5   0.1      0.042   13.4   0.1    1.6  1  DUF2674         Protein of unknown function (DUF2674)


Domain annotation for each model (and alignments):
>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   1.3e-07    0.0012      16     109 ..      31     118 ..      14     124 .. 0.78

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 1.3e-07
                              HHHHHHHHHHHHHHSTTC.EEEEEEETTEEEEEEEEEEEETTSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHTTESEEEEE CS
           Acetyltransf_1  16 nedaseeefeesfsleae.gllvaeedgeliGfisllkipdekggvayieslaVspeyrgkGlGsaLlealeerareegikkivla 100
                              ++ ++ee+ +e     ++ +l++   +ge+i+ + ++  +d       +   a++ +++g+G   +  e  e+ are+g+k+i+ +
  PHY93_02360|PHY93_02360  31 FKWTFEEIKKEV---ADGwELFSLMLEGEIIAAVFYKVEDD----SLLTKNTAIKITHQGSGFSHTIKEFFEKVAREKGLKRIFHY 109
                              333333333333...5567999999*********7777777....79999*********************************99* PP

                              EETTEHHHH CS
           Acetyltransf_1 101 veedndaai 109
                              ++ dn ++ 
  PHY93_02360|PHY93_02360 110 CRIDNFRMY 118
                              ****96655 PP

>> DUF2674  Protein of unknown function (DUF2674)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.1   4.7e-06     0.042      17      48 ..      34      65 ..      25      81 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 4.7e-06
                  DUF2674 17 DikkIekeleeGWvIvnlvPyedaFlcvLEKs 48
                              +++I+ke+++GW +  l+  ++    v  K 
  PHY93_02360|PHY93_02360 34 TFEEIKKEVADGWELFSLMLEGEIIAAVFYKV 65
                             699************99998888776666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (145 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       564  (0.0314574); expected 358.6 (0.02)
Passed bias filter:                      401  (0.022366); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 959.19
//
Query:       PHY93_02365|PHY93_02365  [L=159]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-26   92.3   0.0      2e-26   91.6   0.0    1.3  1  SWIB      SWIB/MDM2 domain


Domain annotation for each model (and alignments):
>> SWIB  SWIB/MDM2 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   91.6   0.0   1.1e-30     2e-26       3      73 ..      90     159 .]      88     159 .] 0.96

  Alignments for each domain:
  == domain 1  score: 91.6 bits;  conditional E-value: 1.1e-30
                     SWIB   3 vklspeLaellgekelsrpevvkklweYIkennLqdpedkreilcDekLkklfggkdrvkffempkllkkH 73 
                              +++s+ Lae++g k l+r++vv+k+weYIk++nLq+p++kr+il DekL klfg+ ++v++fe++ ++ kH
  PHY93_02365|PHY93_02365  90 LQPSAILAEIVGSKPLPRTQVVSKIWEYIKKHNLQNPKNKRNILADEKLAKLFGK-KEVTMFELAGIVGKH 159
                              78999************************************************76.6************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (159 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1671  (0.093201); expected 358.6 (0.02)
Passed bias filter:                      584  (0.0325729); expected 358.6 (0.02)
Passed Vit filter:                        74  (0.00412739); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.26s 00:00:00.81 Elapsed: 00:00:00.44
# Mc/sec: 1097.26
//
Query:       PHY93_02370|PHY93_02370  [L=401]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.084   12.6   0.4        3.7    7.2   0.1    2.4  2  DUF4423   Domain of unknown function (DUF4423)


Domain annotation for each model (and alignments):
>> DUF4423  Domain of unknown function (DUF4423)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   0.0    0.0039        70      90     123 ..     105     138 ..      78     142 .. 0.79
   2 ?    7.2   0.1   0.00021       3.7       4      74 ..     194     266 ..     191     271 .. 0.84

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.0039
                  DUF4423  90 kseavrsyhkqmlelAiealervpkeeRdisslt 123
                              +s ++++y ++++++A  ++e+++k+e +  ++t
  PHY93_02370|PHY93_02370 105 RSVFAKKYFSECFRKASLMIESLKKDEEKNLCVT 138
                              577899*********************9998887 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.00021
                  DUF4423   4 enkirkLdeeefe.yfssWyypvirellplkdfkadpeelakrlrpkisaeevek.alefLlklgllkkdedg 74 
                              ++ ++kL ee ++  f+  y + +  ++p + f++ + +l+++l+   s+   ++ al++L+  gll+kde +
  PHY93_02370|PHY93_02370 194 QAVMNKLYEETYSlEFNGNYKTLVNRIVPENCFNEMIPNLKEALTSVTSNGLEKEiALSILEAKGLLTKDELD 266
                              66789999999998899999999999*******************7666654443489***********9865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (401 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       695  (0.038764); expected 358.6 (0.02)
Passed bias filter:                      502  (0.0279993); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.62u 0.24s 00:00:00.86 Elapsed: 00:00:00.44
# Mc/sec: 2729.17
//
Query:       PHY93_02375|PHY93_02375  [L=1391]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   4.3e-110  368.4   0.0   6.4e-110  367.8   0.0    1.1  1  Aldedh    Aldehyde dehydrogenase family
      2e-60  204.9   0.1    3.6e-60  204.0   0.1    1.4  1  Pro_dh    Proline dehydrogenase
      0.006   16.6   0.1      0.051   13.6   0.1    2.6  1  PutA_N    Proline utilization A N-terminal domain


Domain annotation for each model (and alignments):
>> Aldedh  Aldehyde dehydrogenase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  367.8   0.0  1.1e-113  6.4e-110      17     457 ..     686    1136 ..     675    1140 .. 0.92

  Alignments for each domain:
  == domain 1  score: 367.8 bits;  conditional E-value: 1.1e-113
                               CEEEEEEE-B-HHHHHHHHHHHHHHHH..HHTTS-HHHHHHHHHHHHHHHHHTHHHHHHHHHHHH---HHHHHHHHHHHHHHHH CS
                   Aldedh   17 geviakvpaataedvdaavaaAkeafk..awaklpaeeRaeiLrkaadlleerkeelaeletletGkplaearaeveeaidvlr 98  
                               + +++k++ a+ +d+++a+ +    ++  +wa+++++ R ++L kaa l+ ++++el++l++ e+Gk++ ea a+v+eaid+l+
  PHY93_02375|PHY93_02375  686 EIIVGKIRFANLDDAERALVSIDVSYNngQWANTKWPFRTAMLVKAAGLMLAKRNELSALIVYEAGKSVIEALADVDEAIDFLN 769 
                               567889999999999999999998887779****************************************************** PP

                               HHHHHHHHHSEEEEEECTTEEEEEEEEE-SEEEEEE-SSSCCHHHHHHHHHHHHTT-EEEEEE-TTSHHHHHHHHHHHHHTTS- CS
                   Aldedh   99 yyaelaeklegevlpssegklalvrrePlGvvgaItPWNfPlllaawklapalaaGNtvvlKPaeetplsalllaelfeeaglP 182 
                               +ya+    l+ + +               G  ++I+PWNfP++++++++a al+aGNtv+lK ae+tpl++ ll+ l++eag+P
  PHY93_02375|PHY93_02375  770 FYARTEAYLQRNLTD----------LTSRGPAAVISPWNFPIAIPCGMVASALVAGNTVILKSAEQTPLITQLLVDLLHEAGVP 843 
                               ****99999976644..........468999***************************************************** PP

                               TTSEEE--SSTCCHHHHHHH-TTESEEEEES-HHHHHHHHHHHHCTT...........SEEEEEE---EEEEE-TTSHHHHHHH CS
                   Aldedh  183 kgvlnvvtgsgsevgealvehpevdkvsftGstevgrkiakaaaknl...........krvtlElGGknplivledaDldkave 255 
                               k+vl  ++g+g++vg+ lv+++++  + ftGs +vg  ia+   k++            r + E+GGkn++iv+++a+ld++v+
  PHY93_02375|PHY93_02375  844 KDVLIHLPGNGETVGDFLVRDERISTIVFTGSKPVGTYIASMIRKRMyknkltektypARAITEMGGKNAVIVTQNAELDETVS 927 
                               ******************************************99886666677777779************************* PP

                               HHHHHHHGGGGTSTTSEEEEEEEHHHHHHHHHHHHHHHHT--BS-TTSTT-SB---SSHHHHHHHHHHH....HHHHHTTSEEE CS
                   Aldedh  256 aivkgafgnaGQvCiaasrllvqesiydefveklveaakklkvgdpldedtdvGPliseaqlekvekyv....eeakeegakll 335 
                               +i+ +afg+aGQ+C+a+sr++v++s+  +++e+l+ea ++lkvg++++ dt+v P+i++++++++++      +ea+++g  ++
  PHY93_02375|PHY93_02375  928 GILYSAFGHAGQKCSACSRVIVHNSLKARLIERLKEASSDLKVGESFKFDTTVNPVITKEDQARLRESAflagKEAINHGGSVV 1011
                               *****************************************************************9965333367777888888 PP

                               E-TTE.SB-SSSTTEE--EEEE....S-TTTSHHHHS---SSEEEEEEESSHHHHHHHHHSSSEESEEEEE-SBHHHHHHHHHH CS
                   Aldedh  336 lGgereeaglekgyfvePtvla....nvtpdmriaqeEiFGPVlsvikfkdeeeaieiaNdteyGLaagvftkdleraervaer 415 
                               l+    ++++  g++v P++++       +  + aq E+FGPV+ ++ f++++ea ++ N+t+y+L++g+f+++ + + ++  +
  PHY93_02375|PHY93_02375 1012 LDR---SNDDLPGFCVGPVLIElpydRAFDRQSYAQRELFGPVVHIMGFNTLDEAAKLYNSTDYALTGGIFSQSQNDIDYLLTK 1092
                               877...88999*********97222134566789************************************************** PP

                               S-SSEEEESSSST--TTT.SEB--CGGGEES.-BSHHHHHHHTE CS
                   Aldedh  416 leaGnvyiNdsttgaaea.lpfgGvkqSglG.reggkegleeyt 457 
                               le Gn+y+N+++tga  a  pfgG+k Sg G + gg++++ +  
  PHY93_02375|PHY93_02375 1093 LESGNIYVNRTITGARVAiEPFGGFKLSGSGpKAGGRHYVLALH 1136
                               ******************9************8778898887665 PP

>> Pro_dh  Proline dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  204.0   0.1     6e-64   3.6e-60       8     291 ..     301     589 ..     292     593 .. 0.93

  Alignments for each domain:
  == domain 1  score: 204.0 bits;  conditional E-value: 6e-64
                              HHHTTEEEEEEES-SS--SHHHHHHHHHHHHHHHHHHHHHHCCS-T....TCC-SEEE-GGG..TT-SGGGHHHHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxx RF
                   Pro_dh   8 lkkrgvrlsldllgeavlteedadryleayleaiksiekaskalkv....leapgvsvklsa..prletaeeeevmeelverlrtl 87 
                              l   g  ++ld lge v++e++ad+y +++l++++  + + k+ ++     ++  vs+k+sa  + +++++ + +++ + +rl+++
  PHY93_02375|PHY93_02375 301 LSLTGRDVTLDQLGELVVSEREADHYKSEVLKLVNGFSLHVKKGEKniagINRAHVSIKVSAlcSDFKPHAPDYTYSLVGPRLKEI 386
                              4434667999*************************99776663333565555566******************************* PP

                              HHHHHHTT-EEEE----GGGHHHHHHHHHHHHH.SCCTTT---EEEEEETTBTTHHHHHHHHHHHHHHTTS-EEEEEE--S-HHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   Pro_dh  88 akeakelgvrlliDaEeaklqeltlelfrklnk.epelkdwevvgntyQaYlkdalevlqkllelAeregfrlgvkLVrGAYldsE 172
                              + +a +++v ++iDaE++++ +++ +++++++   pel+d+++ g+++QaYl+da ++lq+ +elA+++g  + v+LV+GAY+d E
  PHY93_02375|PHY93_02375 387 LLAALAADVFINIDAEHYHYRDIVFKIYKRVLLeTPELRDYKSTGIVIQAYLRDASKHLQDIVELARTRGLMMPVRLVKGAYWDAE 472
                              ******************************98769*************************************************** PP

                              HHHHHHTT-S-SB-SSHHHHHHHHHHHHHHHHHTTTTEEEEEE-S-HHHHHHHHHHHHHT..T--GGGEEEEEETTSSHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   Pro_dh 173 rkraqelgyespifdtkeeTDanYdavaelllenrdeiypavAsHNaesvakalalaeelgqekeksevefqqLlGMadnlsfala 258
                              + +a +++++ p f +keeTD ++ +++ ++ e++ ++++a+AsHN  + a a a+ e l  + e  e+e q+L+   ++ls ala
  PHY93_02375|PHY93_02375 473 TVEADAHSFNAPQFLNKEETDIHFRQLIVKIYEAHPHLKLALASHNFSDHAFAEATKEIL--YPEVGEIEHQCLHMTYEALSTALA 556
                              ************************************************999999988888..*************999******** PP

                              HTTS-EEEEEEECEHHHHHHHHHHHHHHHH-TT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   Pro_dh 259 kagynvrkYlPvGpveevlpYLvRRleENtans 291
                              k++ + r Y+PvG++  +++YLvRR+ EN+++ 
  PHY93_02375|PHY93_02375 557 KMKWATRNYVPVGSLLVGMAYLVRRIMENSSQV 589
                              ******************************986 PP

>> PutA_N  Proline utilization A N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.6   0.1   8.5e-06     0.051       1      74 [.     155     229 ..     155     285 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 8.5e-06
                   PutA_N   1 eartreigrellaaleeerpklfdrrwwddkllewamkdeelkvqlfRFvDvlPalktke...evarhlqeYladek 74 
                              e+r +ei ++ll +++e +p+lf+    +d  l ++ +   l+++l++F  +lP l +++   ev+r l e l++  
  PHY93_02375|PHY93_02375 155 EERSQEIIKKLLTKVNEYHPSLFE--DITDFGLGLTAQYALLRIHLLKFLAILPSLDHDKkgvEVKRILVESLSRFL 229
                              8999*******************5..899***************************876522257777766665544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1391 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       498  (0.0277762); expected 358.6 (0.02)
Passed bias filter:                      413  (0.0230353); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.96u 0.29s 00:00:01.25 Elapsed: 00:00:00.52
# Mc/sec: 7991.56
//
Query:       PHY93_05925|PHY93_05925  [L=652]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.6e-17   63.0   0.0    2.5e-16   60.3   0.0    2.0  1  Peripla_BP_6  Periplasmic binding protein
    1.6e-08   34.0   2.7     0.0028   17.4   0.1    3.6  3  TPR_1         Tetratricopeptide repeat
    1.2e-07   31.9   2.0    1.3e-06   28.6   0.1    2.9  2  TPR_12        Tetratricopeptide repeat
    6.1e-06   25.8   2.0    1.8e-05   24.3   0.4    2.7  2  TPR_11        TPR repeat
    5.8e-05   22.9  12.3     0.0058   16.7   0.1    4.9  4  TPR_2         Tetratricopeptide repeat
    8.2e-05   23.2   0.1     0.0015   19.1   0.0    2.7  2  TPR_16        Tetratricopeptide repeat
    0.00067   20.1   2.6    0.00067   20.1   2.6    3.0  2  TPR_19        Tetratricopeptide repeat
     0.0022   17.8   1.0          5    7.1   0.0    3.9  3  TPR_10        Tetratricopeptide repeat
     0.0028   17.7  17.2      0.063   13.5   0.2    4.5  4  TPR_8         Tetratricopeptide repeat
     0.0032   17.4   1.6        3.8    7.7   0.1    3.9  4  TPR_7         Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.012   15.8   5.5      0.012   15.8   5.5    2.0  2  ANAPC3        Anaphase-promoting complex, cyclosome, subunit 
      0.028   14.8   2.5      0.028   14.8   0.3    2.3  1  TPR_17        Tetratricopeptide repeat
       0.11   13.1   0.3       0.11   13.1   0.3    3.7  4  TPR_6         Tetratricopeptide repeat
       0.55   10.3   7.1        0.2   11.7   2.4    2.6  2  SRP_TPR_like  Putative TPR-like repeat


Domain annotation for each model (and alignments):
>> Peripla_BP_6  Periplasmic binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.3   0.0     2e-19   2.5e-16       3     310 ..     285     619 ..     285     635 .. 0.85

  Alignments for each domain:
  == domain 1  score: 60.3 bits;  conditional E-value: 2e-19
                              EEEEEE-SSSTTHHHHHHHHHHHHHHHHHHHHTTEETTEEEEEEEEE-TTSHHHHHHHHHHHHHCT--SEEEE-BSHHHHHHHHHH CS
             Peripla_BP_6   3 kiGlltplsGpyassgksllagaqaafeeiNaaGGinGrkielverDdaydpdraaeaarrlvdqdgvdalvgplssavaaavaev 88 
                              +iG   plsG  +s+g+ +lag++ a+ee+  +     +k +++  D+++++++aa a+++l++ ++v+a++g+l+ +  +a  e+
  PHY93_05925|PHY93_05925 285 YIGIALPLSGERKSLGERALAGIDIALEELALD---PSKKYRVEMKDTQGSAATAAFAVKDLIEVNNVAAIIGGLTPN--SATKEY 365
                              59****************************434...368***********************************8655..788998 PP

                              HHH..HT-EEEE..SS-HHCCTTSTTEEESS--HHHHHHHHHHH.HHHHTTSCEEEEEEESSHHHHHHHHHHHHHHHCCTEEEEEE CS
             Peripla_BP_6  89 lak..dgvpvig..pagltgekcspyvfslgpsysaqasalvey.lakelggkkvalvyadyafgregiaalkaaakaaGgevvge 169
                              l++  +gv +i+  p+ l  e+ +   + + +s  +q++ l+   ++ +lg ++ a++y+ +  g ++++ + +  k++ ++v g 
  PHY93_05925|PHY93_05925 366 LEAkkHGVFFISlsPVFLPKEEKNHLLIEVPASIESQVNHLFSPkMIAKLG-SRPAIIYPKNELGEAYANEFWRRSKKQNLDVTGL 450
                              887336677777444466667777777777666666655555431555555.9********************************* PP

                              EEE-TTHHHHHHHHHHHHTTT-S...................................EEEEESSHHHHHHHHHHHHHTT-SSSCE CS
             Peripla_BP_6 170 epvplgttdfsaqvlqikaagad...................................avllagtgadlaallkaaaeaGldakri 220
                              + ++ ++tdf + v ++   +                                     +v++ + +  ++++l  +  ++    ++
  PHY93_05925|PHY93_05925 451 ISYDRNATDFREPVKNLLGIKFTrereeelaivndianleknksikriqnlqpqidfdWVFVPALPKEVVQILPNFNYFDAF--NL 534
                              *******************9999*****************************************************999866..46 PP

                              EEECCC-CHHHHHHHHHHHHTTEEEEESCSTCCCSHHHHHHHHHHHHHHTTGGC--HHHHHHHHHHHHHHHHHHCCTH.CCHHHHH CS
             Peripla_BP_6 221 llvswsgseedlkalggeaaegvlavtpyfpdldnpavrafvaayeaayggapppsqfaaggyiaadlllealkaags.ltreavr 305
                                v+   + ++l++ +g      ++ + + +++ +     f ++++a++ ++  p  + + +y+++ ++ + ++aa +  tr+++ 
  PHY93_05925|PHY93_05925 535 NYVGVPSWRSELMTNEGYR----YGNVFFMDEALGTNETSFTQKFTAKFNKQ--PKFVETIAYDSLKIVSNIVEAAPTmSTRQDLD 614
                              7789999999999999844....444445554444555669**********8..**********************9889999887 PP

                              HHHHH CS
             Peripla_BP_6 306 aales 310
                               al +
  PHY93_05925|PHY93_05925 615 LALAK 619
                              77765 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.2   1.6e-05     0.021       5      31 ..      83     109 ..      82     112 .. 0.90
   2 !   17.4   0.1   2.2e-06    0.0028       2      25 ..     118     141 ..     117     143 .. 0.87
   3 ?   -2.8   0.0       5.4   6.9e+03      12      29 ..     165     182 ..     162     182 .. 0.83

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1.6e-05
                              HHHHHHHHHTT-HHHHHHHHHHHHHHS CS
                    TPR_1   5 ynlGnayfklgkydeAleyyekALeln 31 
                              + +G++ f++++y+ A + +e+AL l 
  PHY93_05925|PHY93_05925  83 NLIGVINFSKKNYEGAAKNFEEALALS 109
                              568*********************996 PP

  == domain 2  score: 17.4 bits;  conditional E-value: 2.2e-06
                              HHHHHHHHHHHHTT-HHHHHHHHH CS
                    TPR_1   2 kalynlGnayfklgkydeAleyye 25 
                              +++ nlG ay+k+++ d+Al+  +
  PHY93_05925|PHY93_05925 118 QVYLNLGSAYYKMNQSDKALATLS 141
                              68*****************98665 PP

  == domain 3  score: -2.8 bits;  conditional E-value: 5.4
                              HHTT-HHHHHHHHHHHHH CS
                    TPR_1  12 fklgkydeAleyyekALe 29 
                              ++lgk ++ l +  + Le
  PHY93_05925|PHY93_05925 165 QQLGKKEQSLTALIRSLE 182
                              689****99999888776 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.6   0.1     1e-09   1.3e-06       8      68 ..      84     140 ..      77     143 .. 0.88
   2 ?    1.4   0.3      0.32   4.1e+02       5      36 ..     155     187 ..     151     200 .. 0.72

  Alignments for each domain:
  == domain 1  score: 28.6 bits;  conditional E-value: 1e-09
                   TPR_12   8 nlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlell 68 
                               ++++ +  ++y+ A +++e+al++ ++   p   l+++++ nLg +y+++++ ++Al+ l
  PHY93_05925|PHY93_05925  84 LIGVINFSKKNYEGAAKNFEEALALSKED--PS--LESQVYLNLGSAYYKMNQSDKALATL 140
                              48999999******************655..64..69*********************977 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.32
                   TPR_12   5 alnn.laavlrrlgrydeAlellekaleiarrl 36 
                               +++ +a++ ++lg+ +++l+ l ++le  +++
  PHY93_05925|PHY93_05925 155 KYHQlYALLSQQLGKKEQSLTALIRSLEDKKSV 187
                              566447777788888899999998888866555 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.1       1.6     2e+03       5      16 ..      53      64 ..      50      65 .. 0.84
   2 !   24.3   0.4   1.4e-08   1.8e-05       5      41 ..      90     130 ..      86     131 .. 0.88

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 1.6
                   TPR_11  5 yeqGkyeeAiea 16
                             + qGk ++A+++
  PHY93_05925|PHY93_05925 53 FRQGKADAALKE 64
                             88*******997 PP

  == domain 2  score: 24.3 bits;  conditional E-value: 1.4e-08
                   TPR_11   5 yeqGkyeeAieaYkkAlkldPdnae....ayynLGlayykq 41 
                              +++ +ye+A +++++Al+l+ ++++    +y+nLG ayyk+
  PHY93_05925|PHY93_05925  90 FSKKNYEGAAKNFEEALALSKEDPSlesqVYLNLGSAYYKM 130
                              8999********************744447*********98 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.1   4.5e-06    0.0058       6      33 ..      84     111 ..      82     112 .. 0.91
   2 !   10.3   0.1   0.00047      0.61       3      22 ..     119     138 ..     117     143 .. 0.89
   3 ?    0.1   0.1       0.9   1.2e+03       3      28 ..     156     181 ..     154     183 .. 0.84
   4 ?    0.0   0.1      0.94   1.2e+03       4      19 ..     230     245 ..     227     249 .. 0.74

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 4.5e-06
                    TPR_2   6 nlGlayyklgdyeeAleafekAleldPn 33 
                               +G + + +++ye A++ fe+Al+l  +
  PHY93_05925|PHY93_05925  84 LIGVINFSKKNYEGAAKNFEEALALSKE 111
                              68999********************876 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 0.00047
                    TPR_2   3 alynlGlayyklgdyeeAle 22 
                              ++ nlG ayyk+++ ++Al+
  PHY93_05925|PHY93_05925 119 VYLNLGSAYYKMNQSDKALA 138
                              799***************97 PP

  == domain 3  score: 0.1 bits;  conditional E-value: 0.9
                    TPR_2   3 alynlGlayyklgdyeeAleafekAl 28 
                              ++   +l+  +lg+ e+ l a+ ++l
  PHY93_05925|PHY93_05925 156 YHQLYALLSQQLGKKEQSLTALIRSL 181
                              678899999********999987766 PP

  == domain 4  score: 0.0 bits;  conditional E-value: 0.94
                    TPR_2   4 lynlGlayyklgdyee 19 
                               y  +++++k g+ ++
  PHY93_05925|PHY93_05925 230 AYKEAEIAFKEGNKQK 245
                              5778888888888776 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.0      0.87   1.1e+03       4      20 ..      49      65 ..      46      67 .. 0.81
   2 !   19.1   0.0   1.2e-06    0.0015      11      57 ..      93     140 ..      88     147 .. 0.89

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.87
                   TPR_16  4 araalragdyddAaaal 20
                              ++ +r+g+ d+A++ l
  PHY93_05925|PHY93_05925 49 VKEKFRQGKADAALKEL 65
                             567899*******9976 PP

  == domain 2  score: 19.1 bits;  conditional E-value: 1.2e-06
                   TPR_16  11 gdyddAaaaleaalkrdpssPd.aaeAllllgdaalrqgrlaeAaaly 57 
                              ++y+ Aa+ +e+al++ +++P    + +l+lg a+++ +  ++A+a +
  PHY93_05925|PHY93_05925  93 KNYEGAAKNFEEALALSKEDPSlESQVYLNLGSAYYKMNQSDKALATL 140
                              79**********************************988888888765 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.1      0.66   8.4e+02       3      18 ..      54      69 ..      52      77 .. 0.82
   2 !   20.1   2.6   5.2e-07   0.00067       5      58 ..      93     150 ..      90     163 .. 0.79

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.66
                   TPR_19  3 aegdyaeAlalleqal 18
                              +g+ ++Al+ l+++ 
  PHY93_05925|PHY93_05925 54 RQGKADAALKELTSMK 69
                             6999999999999974 PP

  == domain 2  score: 20.1 bits;  conditional E-value: 5.2e-07
                   TPR_19   5 gdyaeAlalleqalqedpk....naearllLAeallalgqldeAealLdalpeedpdd 58 
                              ++y+ A++ +e+al+ + +     + + l+L  a+++++q d+A a+L+ +  ++ +d
  PHY93_05925|PHY93_05925  93 KNYEGAAKNFEEALALSKEdpslESQVYLNLGSAYYKMNQSDKALATLSMADYHNLQD 150
                              68************886665558899999*******************9987776663 PP

>> TPR_10  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.1   0.0    0.0039         5       6      34 ..      83     111 ..      80     111 .. 0.87
   2 !    6.1   0.2    0.0085        11       5      23 ..     120     138 ..     118     138 .. 0.90
   3 ?   -0.3   0.0      0.88   1.1e+03      11      32 ..     163     184 ..     160     187 .. 0.83

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.0039
                   TPR_10   6 nNLanalrqrgrydeAealleealairrr 34 
                              n ++++ ++ ++y++A + +eeala+ ++
  PHY93_05925|PHY93_05925  83 NLIGVINFSKKNYEGAAKNFEEALALSKE 111
                              55788888999**************9886 PP

  == domain 2  score: 6.1 bits;  conditional E-value: 0.0085
                   TPR_10   5 lnNLanalrqrgrydeAea 23 
                              + NL+ a++++++ d+A+a
  PHY93_05925|PHY93_05925 120 YLNLGSAYYKMNQSDKALA 138
                              78***********999985 PP

  == domain 3  score: -0.3 bits;  conditional E-value: 0.88
                   TPR_10  11 alrqrgrydeAealleealair 32 
                              + +q+g+ ++++  l+++l+  
  PHY93_05925|PHY93_05925 163 LSQQLGKKEQSLTALIRSLEDK 184
                              5689*************99865 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.1       6.1   7.8e+03      17      32 ..      55      70 ..      51      71 .. 0.71
   2 !   12.3   0.1   0.00012      0.15       5      33 ..      83     111 ..      80     112 .. 0.93
   3 !   13.5   0.2   4.9e-05     0.063       2      23 ..     118     139 ..     117     141 .. 0.91
   4 ?    2.4   0.3      0.18   2.3e+02       4      28 ..     157     181 ..     155     182 .. 0.83

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 6.1
                             HHHHHHHHHHHHHHHH CS
                    TPR_8 17 yeeAkeyyekaleldp 32
                               +A +++++ +++++
  PHY93_05925|PHY93_05925 55 QGKADAALKELTSMKE 70
                             5578888888888765 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 0.00012
                              HHHHHHHHHTT-HHHHHHHHHHHHHHHHH CS
                    TPR_8   5 ynlgsiylklgdyeeAkeyyekaleldpd 33 
                              +++g i +++++ye A + +e+al l+++
  PHY93_05925|PHY93_05925  83 NLIGVINFSKKNYEGAAKNFEEALALSKE 111
                              689**********************9987 PP

  == domain 3  score: 13.5 bits;  conditional E-value: 4.9e-05
                              CHHHHHHHHHHHTT-HHHHHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeAkey 23 
                              ++y+nlgs+y k+++ ++A ++
  PHY93_05925|PHY93_05925 118 QVYLNLGSAYYKMNQSDKALAT 139
                              79*****************886 PP

  == domain 4  score: 2.4 bits;  conditional E-value: 0.18
                              HHHHHHHHHHTT-HHHHHHHHHHHH CS
                    TPR_8   4 yynlgsiylklgdyeeAkeyyekal 28 
                              +++ +++ ++lg++e++  ++ + l
  PHY93_05925|PHY93_05925 157 HQLYALLSQQLGKKEQSLTALIRSL 181
                              67889999********999987776 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   0.0     0.012        16      11      32 ..      91     112 ..      83     116 .. 0.75
   2 !    7.7   0.1     0.003       3.8       2      20 ..     120     138 ..     119     143 .. 0.91
   3 ?   -1.8   0.1       3.3   4.2e+03      10      26 ..     165     181 ..     156     187 .. 0.70
   4 ?   -1.5   0.0       2.6   3.3e+03      12      24 ..     193     205 ..     190     210 .. 0.83

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.012
                    TPR_7  11 rlGdyeeAielyeqsLaltkdp 32 
                              +  +ye A++ +e++Lal k++
  PHY93_05925|PHY93_05925  91 SKKNYEGAAKNFEEALALSKED 112
                              5569**********88777665 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.003
                    TPR_7   2 LlnLarlysrlGdyeeAie 20 
                              +lnL+++y ++++ ++A+ 
  PHY93_05925|PHY93_05925 120 YLNLGSAYYKMNQSDKALA 138
                              89***************86 PP

  == domain 3  score: -1.8 bits;  conditional E-value: 3.3
                    TPR_7  10 srlGdyeeAielyeqsL 26 
                              ++lG+ e+ ++ + +sL
  PHY93_05925|PHY93_05925 165 QQLGKKEQSLTALIRSL 181
                              56777777777777755 PP

  == domain 4  score: -1.5 bits;  conditional E-value: 2.6
                    TPR_7  12 lGdyeeAielyeq 24 
                              + +y +A+el+ +
  PHY93_05925|PHY93_05925 193 EARYTQAEELFFK 205
                              56899****9965 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.8   5.5   9.3e-06     0.012       2      80 ..      92     178 ..      91     180 .. 0.80
   2 ?   -2.9   0.0       6.4   8.3e+03      46      61 ..     215     229 ..     190     246 .. 0.53

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 9.3e-06
                              TT-HHHHHHHHHHHH...HHH--HHH.HHH.HHHHHHHTT-HHHHHHHHHCT.SHHHC-H...HHHHHHHHHHHHTT-HHHHHHHH CS
                   ANAPC3   2 qnnyknAiflaerlla..aetesped.ayl.lAlclylngqykrAyellrka.klnsksl...gcrylfAqcllkLkkyeeAiaaL 79 
                              ++ny+ A   +e +la  +e  s+e+ +yl l+ ++y+++q ++A+  l+ a   n ++    +++ l+A  + +L+k e+ ++aL
  PHY93_05925|PHY93_05925  92 KKNYEGAAKNFEEALAlsKEDPSLESqVYLnLGSAYYKMNQSDKALATLSMAdYHNLQDNeakKYHQLYALLSQQLGKKEQSLTAL 177
                              789************74444555555366666***************9988744444433567*********************99 PP

                              - CS
                   ANAPC3  80 e 80 
                               
  PHY93_05925|PHY93_05925 178 I 178
                              5 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 6.4
                              HHCTSHHHC-HHHHHH CS
                   ANAPC3  46 lrkaklnskslgcryl 61 
                              l+++   +k+l++ yl
  PHY93_05925|PHY93_05925 215 LEDF-DSEKNLAVPYL 229
                              3333.33344444444 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   0.3   2.2e-05     0.028       2      33 ..     102     137 ..     101     138 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 2.2e-05
                   TPR_17   2 ylkaleldPnn....adaynnLAelllknGdlmtAr 33 
                              +++al+l + +    + +y nL+ +++k +++++A+
  PHY93_05925|PHY93_05925 102 FEEALALSKEDpsleSQVYLNLGSAYYKMNQSDKAL 137
                              677777765555558*******************97 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.1       8.3   1.1e+04      11      23 ..      53      65 ..      52      67 .. 0.67
   2 ?   -0.9   0.0       2.5   3.3e+03       6      27 ..      85     106 ..      84     108 .. 0.79
   3 ?   13.1   0.3   8.9e-05      0.11       1      24 [.     118     141 ..     118     143 .. 0.91
   4 ?   -1.8   0.1         5   6.3e+03       7      23 ..     161     177 ..     159     179 .. 0.77

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 8.3
                             HHHHHHHHHHHHH CS
                    TPR_6 11 rklgdtdkAleal 23
                             +++g++d+Al+ l
  PHY93_05925|PHY93_05925 53 FRQGKADAALKEL 65
                             5677888887654 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 2.5
                              HHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   6 lalsyrklgdtdkAlealerli 27 
                              ++   ++ ++++ A + +e+ +
  PHY93_05925|PHY93_05925  85 IGVINFSKKNYEGAAKNFEEAL 106
                              6777888779999999998865 PP

  == domain 3  score: 13.1 bits;  conditional E-value: 8.9e-05
                              HHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   1 dAlyklalsyrklgdtdkAleale 24 
                              +++++l+ +y+k++++dkAl++l 
  PHY93_05925|PHY93_05925 118 QVYLNLGSAYYKMNQSDKALATLS 141
                              579******************985 PP

  == domain 4  score: -1.8 bits;  conditional E-value: 5
                              HHHHHHHHHHHHHHHHH CS
                    TPR_6   7 alsyrklgdtdkAleal 23 
                              al+ ++lg+++++l+al
  PHY93_05925|PHY93_05925 161 ALLSQQLGKKEQSLTAL 177
                              66666778***999987 PP

>> SRP_TPR_like  Putative TPR-like repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   2.4   0.00016       0.2      28      75 ..     100     147 ..      97     177 .. 0.79
   2 ?   -0.5   0.6      0.93   1.2e+03      48      87 ..     155     197 ..     147     233 .. 0.66

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00016
             SRP_TPR_like  28 ekyeeaLkllkkgsalsedvrfEkaYvlYklkkykkalkilkkveaee 75 
                                +eeaL l k+ ++l+++v      ++Yk+++  kal +l+ ++ ++
  PHY93_05925|PHY93_05925 100 KNFEEALALSKEDPSLESQVYLNLGSAYYKMNQSDKALATLSMADYHN 147
                              579**************************************9888773 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.93
             SRP_TPR_like  48 rfEkaYvlY..klkkykkalk.ilkkveaeekvkvlksqvlYr 87 
                              ++ + Y+l   +l k +++l  +++++e+++ v+ lks   Y 
  PHY93_05925|PHY93_05925 155 KYHQLYALLsqQLGKKEQSLTaLIRSLEDKKSVEDLKSEARYT 197
                              4455554431145555666541346666666777777777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (652 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1265  (0.0705561); expected 358.6 (0.02)
Passed bias filter:                      598  (0.0333538); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.79u 0.30s 00:00:01.09 Elapsed: 00:00:00.52
# Mc/sec: 3764.60
//
Query:       PHY93_02380|PHY93_02380  [L=261]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.3e-21   76.7   0.1      2e-21   76.2   0.1    1.3  1  P5CR_dimer     Pyrroline-5-carboxylate reductase dimerisation
    1.1e-05   25.9   0.0    2.7e-05   24.6   0.0    1.7  1  F420_oxidored  NADP oxidoreductase coenzyme F420-dependent
  ------ inclusion threshold ------
      0.064   14.1   0.0       0.12   13.2   0.0    1.4  1  GFO_IDH_MocA   Oxidoreductase family, NAD-binding Rossmann fo


Domain annotation for each model (and alignments):
>> P5CR_dimer  Pyrroline-5-carboxylate reductase dimerisation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.2   0.1   3.4e-25     2e-21       1     103 []     154     261 .]     154     261 .] 0.94

  Alignments for each domain:
  == domain 1  score: 76.2 bits;  conditional E-value: 3.4e-25
                              CCHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHHHH.CHS....HHHHHHHH--TTSHHHHHHHHHH CS
               P5CR_dimer   1 EkqldavtalsGsgpAyvflliealadagvklGlsreeArelaaqtvaGaaklll.ese....paelrdkvtspgGtTiaglkele 81 
                              E++ld  ta sGsgpA +f l+  +     ++   r  A+e++ qt+ G+a+l++ +s+     +elr +vts++G+T ++l++l+
  PHY93_02380|PHY93_02380 154 EEDLDLTTAFSGSGPALIFELARIFEVELTRMTNGRVPAKEIVSQTFFGSAALMNaASNvdtsYEELRTQVTSKKGVTYEALEVLK 239
                              899*************************************************99753325677*********************** PP

                              HTTHHHHHHHHHHHHHHHHHHH CS
               P5CR_dimer  82 egglraavieaveaaakrskel 103
                              +++l++++ +a+eaa+kr+ el
  PHY93_02380|PHY93_02380 240 KNNLQDVFSKAFEAAYKRTIEL 261
                              ******************9876 PP

>> F420_oxidored  NADP oxidoreductase coenzyme F420-dependent
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.6   0.0   4.6e-09   2.7e-05       1      96 [.       2      90 ..       2      91 .. 0.85

  Alignments for each domain:
  == domain 1  score: 24.6 bits;  conditional E-value: 4.6e-09
                             EEEEETTSHHHHHHHHHHHHTTS-GGCEEEEEESSCCCHHHHHHHHC-EEECECHHHHHHH-SEEEE-S-HHHHHHHHHHCGHHHHTT CS
            F420_oxidored  1 kigiiGaGnmgealasgllaagaqpheivvansrnpekaeelaeelgvkvtavdneeaaeeadvvvlavkpedveevlselakdalkg 88
                             kig+ G+Gnmg+al++g+ a+ +++ e+ +  ++++ ka+ela ++g ++     +++ ++ d+++la+kp+ ++e+  +       +
  PHY93_02380|PHY93_02380  2 KIGVFGCGNMGSALVLGMKAR-FPNAEFFLF-TPSKLKAQELAVRVGGSCLD-LISDMPRDLDWYLLAFKPQGLDEFQFDF----APN 82
                             79***************9999.766777646.8**************77666.899*****************99998777....555 PP

                             SEEEEESS CS
            F420_oxidored 89 klvisvla 96
                             + +is+la
  PHY93_02380|PHY93_02380 83 SKIISILA 90
                             66777776 PP

>> GFO_IDH_MocA  Oxidoreductase family, NAD-binding Rossmann fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0     2e-05      0.12       1      72 [.       1      69 [.       1      87 [. 0.90

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 2e-05
                             EEEEEETTSHHHHHHHHHHHHTTTTEEEEEEECSSHHHHHHHHHHTTHEEESSHHHHHTCTTESEEEE-S-G CS
             GFO_IDH_MocA  1 lrvaiiGaGkigskhlrplnesqrleevvalldpdaeraeavaesfgveaysdleelladpeidavivatpn 72
                             ++++++G+G++gs  +  ++++++++e   l+ p++ +a+++a + g ++ + ++++++  + d ++ a  +
  PHY93_02380|PHY93_02380  1 MKIGVFGCGNMGSALVLGMKARFPNAEFF-LFTPSKLKAQELAVRVGGSCLDLISDMPR--DLDWYLLAFKP 69
                             689************************99.999************************99..88888877766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (261 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       572  (0.0319036); expected 358.6 (0.02)
Passed bias filter:                      497  (0.0277205); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.48
# Mc/sec: 1648.97
//
Query:       PHY93_02385|PHY93_02385  [L=163]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.5e-12   46.0   0.0    6.9e-12   45.6   0.0    1.1  1  DUF4442   Domain of unknown function (DUF4442)
  ------ inclusion threshold ------
      0.011   15.5   0.0      0.014   15.2   0.0    1.1  1  YiiD_C    Putative thioesterase (yiiD_Cterm)


Domain annotation for each model (and alignments):
>> DUF4442  Domain of unknown function (DUF4442)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.6   0.0   7.7e-16   6.9e-12      11     115 ..      26     142 ..      17     160 .. 0.79

  Alignments for each domain:
  == domain 1  score: 45.6 bits;  conditional E-value: 7.7e-16
                              HHSGGGGGG--EEEEEETTEEEEEE---GGGB-TTSSB-HHHHHHHHHHHHHHHHHHHS-T.TEEEE..EEEEEEEE-S---S-EE CS
                  DUF4442  11 lkaPYfgtvgprieelepgraevrlkkrrrvrNhigtvHAiAicnlaElamGllaeatlpd.thrwi..pkgmevdYlakatgdlt 93 
                               k+P +  v+p++ +l+ +++ v+++ +rr++Nh+ +++ + ++++a+la Gl+a++ + + ++r+    k  + ++l++a+gd++
  PHY93_02385|PHY93_02385  26 TKVPLIFFVSPSVVRLDDEQCIVKIPLNRRTKNHLNSMYFGVLATGADLAGGLVAMKEISEsKKRVAlsFKDFHAEFLKRAEGDVH 111
                              58999999***************************************************98644443125999************* PP

                              EEEE-TT..S-T.......T--EEEEEEEEE CS
                  DUF4442  94 avaelep..edv.......gekeelvvevev 115
                               + +  p  +++       ge+ +++v++++
  PHY93_02385|PHY93_02385 112 FICTQIPeiKKFvseviasGERMNFPVHIDA 142
                              9988776562335555766667777777754 PP

>> YiiD_C  Putative thioesterase (yiiD_Cterm)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.2   0.0   1.6e-06     0.014      11     125 ..      27     141 ..      23     156 .. 0.77

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 1.6e-06
                   YiiD_C  11 eIPlseamgikvesydgkelelsaplap.NiNlkgtmFaGSiytlatltgWglvwLqlkeaglkgdiVladakikYlkPvtedpta 95 
                              ++Pl  ++  +v + d+++ ++++pl+    N+ ++m+ G ++t a l+g  +++ ++ e++ +  +  +d + ++lk  ++d++ 
  PHY93_02385|PHY93_02385  27 KVPLIFFVSPSVVRLDDEQCIVKIPLNRrTKNHLNSMYFGVLATGADLAGGLVAMKEISESKKRVALSFKDFHAEFLKRAEGDVHF 112
                              57777788888999************972579******************6666667888888899999**************999 PP

                   YiiD_C  96 qvslpeeealeedleslarkkkarikleve 125
                              +++   +e  +   e +a+++++ + ++++
  PHY93_02385|PHY93_02385 113 ICTQI-PEIKKFVSEVIASGERMNFPVHID 141
                              99766.444444445567778877655543 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (163 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       496  (0.0276647); expected 358.6 (0.02)
Passed bias filter:                      456  (0.0254337); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.46
# Mc/sec: 1075.49
//
Query:       PHY93_02390|PHY93_02390  [L=253]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.3e-50  171.0   0.0    3.9e-50  170.8   0.0    1.0  1  NIF3      NIF3 (NGG1p interacting factor 3)


Domain annotation for each model (and alignments):
>> NIF3  NIF3 (NGG1p interacting factor 3)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  170.8   0.0   2.2e-54   3.9e-50       5     243 ..       9     242 ..       5     244 .. 0.95

  Alignments for each domain:
  == domain 1  score: 170.8 bits;  conditional E-value: 2.2e-54
                     NIF3   5 vleelaplelaeswDnvGlqvgdpekevkkvllaldlteevleeAiekgadliithHPlifkplkrlteddykkrllkkliknnis 90 
                              +l++l+ +el+++++++Glq++  +++++k+++a+++t+e  e A  ++a ++i+hH++++k   + t   + +++l  likn+i+
  PHY93_02390|PHY93_02390   9 FLKNLLTPELFDDYCPNGLQIE-GRSTIRKIIFAVSATRESTEYAALNNACALIVHHGVFWKFHGTRTLTGPFAKRLFPLIKNEIN 93 
                              78999****************6.999***********************************76666666666************** PP

                     NIF3  91 lysaHtnlDaapg.Gvndwlakalglekieplepskeekkeeeeglgrigeleepvsleelakklkkklglekvrvag.dldkkvk 174
                              l+ +H++lD + + G+++ la+++gl+++++++ +k      +   g+ ge+e+p+  ++l   l++kl+ + +  +   ++  +k
  PHY93_02390|PHY93_02390  94 LFGYHLPLDGHIEiGNAAALARLIGLTNLSSFGMYK------GVSTGIRGEFEKPIHSSDLKIILSEKLQHPILYSNPlLTSGDIK 173
                              **********************************98......899************************9988888877999**** PP

                     NIF3 175 kvaicaGsGaslieeakakgaDlliTGelkhhealdakekgiavidvgHyatErvflealaelLkeklk 243
                              ++ i++G+++s ++ea + g D +iTGe+++h++++ +e+gi++++ gH+atE++++++l++l++++++
  PHY93_02390|PHY93_02390 174 SIGIITGGANSQWREAEKLGIDGYITGEMSEHDYHESRESGIHMFAGGHHATEKLGIQSLMKLIQKEFP 242
                              ******************************************************************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (253 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       321  (0.017904); expected 358.6 (0.02)
Passed bias filter:                      313  (0.0174578); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.45
# Mc/sec: 1684.08
//
Query:       PHY93_02395|PHY93_02395  [L=348]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.9e-10   38.8  15.5     0.0021   18.1   0.2    4.4  5  TPR_8     Tetratricopeptide repeat
    5.4e-09   35.5  15.7     0.0032   17.5   0.2    4.4  4  TPR_2     Tetratricopeptide repeat
    5.5e-08   32.3  15.5      0.021   14.7   0.1    3.5  3  TPR_1     Tetratricopeptide repeat
     0.0003   21.0   9.2     0.0079   16.5   1.1    3.3  3  TPR_12    Tetratricopeptide repeat
    0.00079   19.9   6.3       0.01   16.3   0.5    2.9  3  TPR_19    Tetratricopeptide repeat
     0.0033   18.1   3.3        6.3    7.9   0.1    4.2  5  TPR_14    Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.034   14.5   9.8        1.1    9.8   0.0    4.2  4  TPR_17    Tetratricopeptide repeat
        4.8    7.2   8.2         21    5.1   0.6    3.9  4  TPR_10    Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.0       7.1   1.6e+04       6      18 ..       8      20 ..       7      21 .. 0.79
   2 !   12.2   3.3   7.6e-05      0.17       2      27 ..     191     216 ..     190     218 .. 0.94
   3 !   18.1   0.2   9.6e-07    0.0021       1      28 [.     223     250 ..     223     253 .. 0.95
   4 ?   -0.8   0.0       1.1   2.5e+03       6      21 ..     269     284 ..     258     288 .. 0.54
   5 !   14.6   0.1   1.2e-05     0.028       4      34 .]     296     326 ..     294     326 .. 0.95

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 7.1
                             HHHHHHHHTT-HH CS
                    TPR_8  6 nlgsiylklgdye 18
                             +l+  y  +g ++
  PHY93_02395|PHY93_02395  8 LLAEFYTATGYLD 20
                             6899999999876 PP

  == domain 2  score: 12.2 bits;  conditional E-value: 7.6e-05
                              CHHHHHHHHHHHTT-HHHHHHHHHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeAkeyyeka 27 
                              ++y + g+ y+ +++y+eAk+ + ka
  PHY93_02395|PHY93_02395 191 DYYIHRGHYYIAQKNYQEAKANFYKA 216
                              79********************9998 PP

  == domain 3  score: 18.1 bits;  conditional E-value: 9.6e-07
                              CCHHHHHHHHHHHTT-HHHHHHHHHHHH CS
                    TPR_8   1 aeayynlgsiylklgdyeeAkeyyekal 28 
                              ae++ +++++y+ l ++ +Ak+y++ka+
  PHY93_02395|PHY93_02395 223 AEVLTLIAWTYSLLDNITKAKAYCMKAI 250
                              7899***********************9 PP

  == domain 4  score: -0.8 bits;  conditional E-value: 1.1
                              HHHHHHHHTT-HHHHH CS
                    TPR_8   6 nlgsiylklgdyeeAk 21 
                              n g++ ++l  +e Ak
  PHY93_02395|PHY93_02395 269 NEGQVRESLRWFELAK 284
                              3455555555555555 PP

  == domain 5  score: 14.6 bits;  conditional E-value: 1.2e-05
                              HHHHHHHHHHTT-HHHHHHHHHHHHHHHHH. CS
                    TPR_8   4 yynlgsiylklgdyeeAkeyyekaleldpdn 34 
                              y n g++y  l++yee  + +  al+l+p +
  PHY93_02395|PHY93_02395 296 YINAGRAYVLLKQYEEGLKEFSLALTLAPHH 326
                              899*************************975 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.4   4.3   0.00027       0.6       2      24 ..     191     213 ..     190     221 .. 0.89
   2 !   11.8   0.0   9.6e-05      0.21       1      31 [.     223     253 ..     223     256 .. 0.93
   3 ?    1.3   0.1      0.22   4.8e+02       4      27 ..     260     283 ..     258     288 .. 0.79
   4 !   17.5   0.2   1.4e-06    0.0032       4      34 .]     296     326 ..     294     326 .. 0.95

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00027
                    TPR_2   2 ealynlGlayyklgdyeeAleaf 24 
                              +++  +G  y+++++y+eA++ f
  PHY93_02395|PHY93_02395 191 DYYIHRGHYYIAQKNYQEAKANF 213
                              6899***************9987 PP

  == domain 2  score: 11.8 bits;  conditional E-value: 9.6e-05
                    TPR_2   1 aealynlGlayyklgdyeeAleafekAleld 31 
                              ae+l  +++ y  l++  +A++++ kA++ d
  PHY93_02395|PHY93_02395 223 AEVLTLIAWTYSLLDNITKAKAYCMKAIQKD 253
                              789999**********************988 PP

  == domain 3  score: 1.3 bits;  conditional E-value: 0.22
                    TPR_2   4 lynlGlayyklgdyeeAleafekA 27 
                              ++  G+  ++ g+  e l++fe A
  PHY93_02395|PHY93_02395 260 YNDFGNYILNEGQVRESLRWFELA 283
                              555677778899999999999977 PP

  == domain 4  score: 17.5 bits;  conditional E-value: 1.4e-06
                    TPR_2   4 lynlGlayyklgdyeeAleafekAleldPnn 34 
                              + n G+ay  l++yee l+ f  Al l+P++
  PHY93_02395|PHY93_02395 296 YINAGRAYVLLKQYEEGLKEFSLALTLAPHH 326
                              7899*************************86 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.2   6.0   0.00023      0.53       2      27 ..     191     216 ..     190     217 .. 0.94
   2 !   14.7   0.1   9.2e-06     0.021       1      31 [.     223     253 ..     223     256 .. 0.93
   3 !   12.7   0.2   3.9e-05     0.087       4      34 .]     296     326 ..     294     326 .. 0.94

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00023
                              HHHHHHHHHHHHTT-HHHHHHHHHHH CS
                    TPR_1   2 kalynlGnayfklgkydeAleyyekA 27 
                              + +  +G+ y  +++y+eA + + kA
  PHY93_02395|PHY93_02395 191 DYYIHRGHYYIAQKNYQEAKANFYKA 216
                              6799********************99 PP

  == domain 2  score: 14.7 bits;  conditional E-value: 9.2e-06
                              HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS CS
                    TPR_1   1 akalynlGnayfklgkydeAleyyekALeln 31 
                              a++l  ++ +y  l +  +A +y+ kA++ +
  PHY93_02395|PHY93_02395 223 AEVLTLIAWTYSLLDNITKAKAYCMKAIQKD 253
                              789999**********************976 PP

  == domain 3  score: 12.7 bits;  conditional E-value: 3.9e-05
                              HHHHHHHHHHTT-HHHHHHHHHHHHHHSTTH CS
                    TPR_1   4 lynlGnayfklgkydeAleyyekALelnPnn 34 
                              + n G ay  l++y+e l+ ++ AL+l P++
  PHY93_02395|PHY93_02395 296 YINAGRAYVLLKQYEEGLKEFSLALTLAPHH 326
                              77889************************86 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   1.1   3.5e-06    0.0079      14      71 ..     194     249 ..     191     254 .. 0.71
   2 !    7.1   0.7     0.003       6.6       6      63 ..     260     311 ..     257     324 .. 0.63
   3 !    6.5   0.3    0.0046        10       6      33 ..     296     323 ..     291     340 .. 0.79

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 3.5e-06
                   TPR_12  14 rrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleea 71 
                               ++g y  A++++++a + + ++   ++ + a++l  ++++y++l++  +A ++  +a
  PHY93_02395|PHY93_02395 194 IHRGHYYIAQKNYQEAKANFYKA--RNYKDSAEVLTLIAWTYSLLDNITKAKAYCMKA 249
                              44555555555555555555555..555568********************9986666 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.003
                   TPR_12   6 lnnlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryee 63 
                              +n  ++  +  g+  e+l+++e a +++ ++++ ++      ++n gr+y +l++yee
  PHY93_02395|PHY93_02395 260 YNDFGNYILNEGQVRESLRWFELAKRAQ-NYQNREY-----PYINAGRAYVLLKQYEE 311
                              5556777777788888888888884444.5545444.....56788888888888877 PP

  == domain 3  score: 6.5 bits;  conditional E-value: 0.0046
                   TPR_12   6 lnnlaavlrrlgrydeAlellekaleia 33 
                              + n + ++  l++y+e l+ +  al +a
  PHY93_02395|PHY93_02395 296 YINAGRAYVLLKQYEEGLKEFSLALTLA 323
                              5588999999************999998 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.0      0.86   1.9e+03      29      42 ..       7      20 ..       6      21 .. 0.87
   2 !   16.3   0.5   4.7e-06      0.01       2      61 ..     201     260 ..     200     263 .. 0.87
   3 ?    5.4   0.2     0.011        25      22      68 .]     290     336 ..     269     336 .. 0.78

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 0.86
                   TPR_19 29 llLAeallalgqld 42
                             llLAe + a+g ld
  PHY93_02395|PHY93_02395  7 LLLAEFYTATGYLD 20
                             78********9887 PP

  == domain 2  score: 16.3 bits;  conditional E-value: 4.7e-06
                   TPR_19   2 laegdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeedpdd.ary 61 
                              +a+++y+eA a + +a   + ++ae++ l A  +  l ++++A+a + ++ ++d +  ++y
  PHY93_02395|PHY93_02395 201 IAQKNYQEAKANFYKA-RNYKDSAEVLTLIAWTYSLLDNITKAKAYCMKAIQKDTQYgPAY 260
                              79*************8.88999***********************8877777776655666 PP

  == domain 3  score: 5.4 bits;  conditional E-value: 0.011
                   TPR_19  22 pknaearllLAeallalgqldeAealLdalpeedpddaryasLlAkl 68 
                               + ++  ++  +a++ l+q++e  +  + ++  +p +++++   Akl
  PHY93_02395|PHY93_02395 290 QNREYPYINAGRAYVLLKQYEEGLKEFSLALTLAPHHQELHETVAKL 336
                              444444555599**********9999999999999999999888886 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.8   0.0      0.12   2.7e+02       5      29 ..       7      31 ..       6      38 .. 0.81
   2 ?    4.6   0.0     0.033        74       6      41 ..     195     229 ..     191     232 .. 0.86
   3 ?    1.3   0.0      0.37   8.2e+02       3      32 ..     225     254 ..     223     261 .. 0.84
   4 ?   -2.8   0.0       7.7   1.7e+04      13      27 ..     269     283 ..     266     287 .. 0.72
   5 !    7.9   0.1    0.0028       6.3       8      39 ..     300     331 ..     296     336 .. 0.89

  Alignments for each domain:
  == domain 1  score: 2.8 bits;  conditional E-value: 0.12
                   TPR_14  5 lalaeallalGdpdeAiallrrala 29
                             l+lae++ a G +d+ + ++ ++ +
  PHY93_02395|PHY93_02395  7 LLLAEFYTATGYLDRLLFAFTELEK 31
                             679***********98888777665 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.033
                   TPR_14   6 alaeallalGdpdeAiallrralalaPddaeawlll 41 
                               +++++ a+ +++eA a + +a + + d+ae+++l 
  PHY93_02395|PHY93_02395 195 HRGHYYIAQKNYQEAKANFYKA-RNYKDSAEVLTLI 229
                              6899*************99999.8899999988765 PP

  == domain 3  score: 1.3 bits;  conditional E-value: 0.37
                   TPR_14   3 allalaeallalGdpdeAiallrralalaP 32 
                              +l ++a+ +  l++  +A a++ +a++++ 
  PHY93_02395|PHY93_02395 225 VLTLIAWTYSLLDNITKAKAYCMKAIQKDT 254
                              56678999**************99999875 PP

  == domain 4  score: -2.8 bits;  conditional E-value: 7.7
                   TPR_14  13 alGdpdeAiallrra 27 
                              + G+ +e+++ ++ a
  PHY93_02395|PHY93_02395 269 NEGQVRESLRWFELA 283
                              567888888877754 PP

  == domain 5  score: 7.9 bits;  conditional E-value: 0.0028
                   TPR_14   8 aeallalGdpdeAiallrralalaPddaeawl 39 
                              ++a+  l +++e ++ +  al laP ++e++ 
  PHY93_02395|PHY93_02395 300 GRAYVLLKQYEEGLKEFSLALTLAPHHQELHE 331
                              899************************99986 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.5   0.4      0.22   4.9e+02      14      33 ..     191     210 ..     188     211 .. 0.88
   2 ?    7.0   0.1    0.0037       8.4       8      33 ..     218     243 ..     216     244 .. 0.86
   3 ?    9.8   0.0   0.00048       1.1       2      31 ..     246     275 ..     245     278 .. 0.91
   4 ?   -1.7   0.2       2.3   5.2e+03      15      31 ..     295     311 ..     288     314 .. 0.77

  Alignments for each domain:
  == domain 1  score: 1.5 bits;  conditional E-value: 0.22
                   TPR_17  14 daynnLAelllknGdlmtAr 33 
                              d y  ++ ++  ++++++A+
  PHY93_02395|PHY93_02395 191 DYYIHRGHYYIAQKNYQEAK 210
                              668899************98 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.0037
                   TPR_17   8 ldPnnadaynnLAelllknGdlmtAr 33 
                              +++++a+++++ A++++ + +  +A+
  PHY93_02395|PHY93_02395 218 NYKDSAEVLTLIAWTYSLLDNITKAK 243
                              6799*************999887776 PP

  == domain 3  score: 9.8 bits;  conditional E-value: 0.00048
                   TPR_17   2 ylkaleldPnnadaynnLAelllknGdlmt 31 
                              + ka+++d  + +ayn  +++ l+ G+ ++
  PHY93_02395|PHY93_02395 246 CMKAIQKDTQYGPAYNDFGNYILNEGQVRE 275
                              89***********************99876 PP

  == domain 4  score: -1.7 bits;  conditional E-value: 2.3
                   TPR_17  15 aynnLAelllknGdlmt 31 
                              +y n ++++  ++++++
  PHY93_02395|PHY93_02395 295 PYINAGRAYVLLKQYEE 311
                              57777888888888775 PP

>> TPR_10  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   0.6    0.0094        21       8      28 ..     196     216 ..     191     219 .. 0.83
   2 ?    2.3   0.0     0.072   1.6e+02       2      30 ..     223     251 ..     222     252 .. 0.89
   3 ?    1.8   0.1      0.11   2.4e+02       4      28 ..     259     283 ..     259     287 .. 0.91
   4 ?   -1.7   0.1       1.3     3e+03       6      22 ..     297     313 ..     296     321 .. 0.81

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.0094
                   TPR_10   8 LanalrqrgrydeAealleea 28 
                               ++++ ++++y+eA a + +a
  PHY93_02395|PHY93_02395 196 RGHYYIAQKNYQEAKANFYKA 216
                              6899**********9877766 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.072
                   TPR_10   2 AsslnNLanalrqrgrydeAealleeala 30 
                              A  l+ +a +++ + + ++A a++ +a++
  PHY93_02395|PHY93_02395 223 AEVLTLIAWTYSLLDNITKAKAYCMKAIQ 251
                              5667889*****************99997 PP

  == domain 3  score: 1.8 bits;  conditional E-value: 0.11
                   TPR_10   4 slnNLanalrqrgrydeAealleea 28 
                              ++n+ +n+  + g+  e+++++e a
  PHY93_02395|PHY93_02395 259 AYNDFGNYILNEGQVRESLRWFELA 283
                              69999****************9966 PP

  == domain 4  score: -1.7 bits;  conditional E-value: 1.3
                   TPR_10   6 nNLanalrqrgrydeAe 22 
                               N ++a+  +++y+e +
  PHY93_02395|PHY93_02395 297 INAGRAYVLLKQYEEGL 313
                              68899999999999865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (348 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       724  (0.0403815); expected 358.6 (0.02)
Passed bias filter:                      324  (0.0180713); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.55u 0.26s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 2277.02
//
Query:       PHY93_02400|PHY93_02400  [L=662]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.083   13.4   0.1       0.36   11.3   0.0    2.0  2  F1F0-ATPsyn_F  Mitochondrial F1-F0 ATP synthase subunit F of 


Domain annotation for each model (and alignments):
>> F1F0-ATPsyn_F  Mitochondrial F1-F0 ATP synthase subunit F of fungi
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0     2e-05      0.36      22      50 ..     322     350 ..     315     357 .. 0.82
   2 ?   -2.7   0.0      0.48   8.5e+03      43      65 ..     631     653 ..     622     655 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 2e-05
            F1F0-ATPsyn_F  22 aaknaarlervvsfYkkLPkGpapkakak 50 
                              aa +a++l+ + +fY++LP G+  kak +
  PHY93_02400|PHY93_02400 322 AALDATKLAALANFYSQLPTGDDLKAKCQ 350
                              67799****************98877544 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 0.48
            F1F0-ATPsyn_F  43 papkakakgllgrykakyfdgkn 65 
                              ++  +ka +l++ + ++y + +n
  PHY93_02400|PHY93_02400 631 SKVGNKADNLFEMISKRYTNVNN 653
                              45556788999999999997666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (662 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1058  (0.0590105); expected 358.6 (0.02)
Passed bias filter:                      487  (0.0271627); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.69u 0.30s 00:00:00.99 Elapsed: 00:00:00.47
# Mc/sec: 4242.23
//
Query:       PHY93_02405|PHY93_02405  [L=140]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      2e-14   54.2   0.0    2.3e-14   53.9   0.0    1.0  1  4HBT_2       Thioesterase-like superfamily
    1.4e-08   35.0   0.0      2e-08   34.5   0.0    1.3  1  4HBT         Thioesterase superfamily
    0.00012   21.5   0.2     0.0053   16.1   0.6    2.2  2  Acyl-ACP_TE  Acyl-ACP thioesterase


Domain annotation for each model (and alignments):
>> 4HBT_2  Thioesterase-like superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.9   0.0   3.8e-18   2.3e-14       5     120 ..      16     132 ..      12     135 .. 0.89

  Alignments for each domain:
  == domain 1  score: 53.9 bits;  conditional E-value: 3.8e-18
                   4HBT_2   5 dvDlnghlnnarylryleearvkflertglksrsiarrgiglilssahvryrrplkfpdrltvefrvid..idaktliiehrflsn 88 
                               +D +gh+nna yl  +eear++f++++gl +++i +++ig++l +  ++++++l   ++++++++ +    ++  + +++++l+ 
  PHY93_02405|PHY93_02405  16 HLDTFGHVNNAVYLTLYEEARWDFITKNGLGIKEIFASKIGPVLLDLNLTFKSELNNREKIKIVSQARPemRNKFVMVLDQKILK- 100
                              5899***************************************************************774466677777999*99. PP

                   4HBT_2  89 adgkkaarveerivvmdygkrskkapvPpell 120
                              ++gk a + +  +++md + r + ap P++l+
  PHY93_02405|PHY93_02405 101 ESGKVASTITLSVGLMDLELRKLIAPTPDWLK 132
                              556558888888999***998799****9986 PP

>> 4HBT  Thioesterase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.5   0.0   3.3e-12     2e-08       1      78 [.      20     106 ..      20     107 .. 0.93

  Alignments for each domain:
  == domain 1  score: 34.5 bits;  conditional E-value: 3.3e-12
                              TSSB-HHHHHHHHHHHHHHHHHHTTST.......TEEEEEEEEEEEESS-BBTTC..EEEEEEEEEEEESSEEEEEEEEEETTSCE CS
                     4HBT   1 gGvvhgGvylallDeaagaalrslggr.......gilvvvvelsidflrpvrlgd..eltvearvlrlgrtsavvevevrdedgrl 77 
                              +G+v+++vyl+l +ea+++++++ g++       +i++v ++l+++f++     +  +++ +ar++   + ++v+++++ +e+g++
  PHY93_02405|PHY93_02405  20 FGHVNNAVYLTLYEEARWDFITKNGLGikeifasKIGPVLLDLNLTFKSELNNREkiKIVSQARPEMRNKFVMVLDQKILKESGKV 105
                              7*************************************************98888557788999**************99999987 PP

                              E CS
                     4HBT  78 v 78 
                              +
  PHY93_02405|PHY93_02405 106 A 106
                              5 PP

>> Acyl-ACP_TE  Acyl-ACP thioesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.6   8.8e-07    0.0053     165     194 ..      16      44 ..       7     110 .. 0.67
   2 !    4.4   0.0    0.0033        20      73     129 ..      74     132 ..      58     139 .. 0.68

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 8.8e-07
              Acyl-ACP_TE 165 DlDlnqHvNNvkYlewilevlpleilkkhe 194
                               lD+++HvNN++Yl   +e +  ++++k  
  PHY93_02405|PHY93_02405  16 HLDTFGHVNNAVYLTL-YEEARWDFITKNG 44 
                              59************86.5555666666554 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.0033
              Acyl-ACP_TE  73 dkveietw..aesenklfcyrdfkvrdekgekiieaksvfvlmdqetrrlsrvtdeila 129
                              +k++i  +  +e  nk+ +  d k+  e+g++  +++    lmd e r+l + t++ l+
  PHY93_02405|PHY93_02405  74 EKIKIVSQarPEMRNKFVMVLDQKILKESGKVASTITLSVGLMDLELRKLIAPTPDWLK 132
                              44554433014556788888888888888888888888888888888888777777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (140 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       345  (0.0192426); expected 358.6 (0.02)
Passed bias filter:                      299  (0.0166769); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 962.79
//
Query:       PHY93_02410|PHY93_02410  [L=414]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.16   12.0   0.0       0.28   11.2   0.0    1.2  1  DUF3071   Protein of unknown function (DUF3071)


Domain annotation for each model (and alignments):
>> DUF3071  Protein of unknown function (DUF3071)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   1.6e-05      0.28      76     133 ..     284     343 ..     279     350 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 1.6e-05
                  DUF3071  76 agvsververyahPvlaERariaelarkahv..vredgpakltLgevlaealaargvdle 133
                              + ++ +++ + ++ v  ERa +a  a++ ++  v+++gp++ t + +l++a a++g+dl+
  PHY93_02410|PHY93_02410 284 TYANDKNIAQLSKAVFGERAIAAAVANSKSAmdVSSSGPSNPTASALLKTAAARAGIDLT 343
                              556778899999*************9988887799*********************9975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (414 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       867  (0.0483574); expected 358.6 (0.02)
Passed bias filter:                      523  (0.0291706); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.63u 0.24s 00:00:00.87 Elapsed: 00:00:00.46
# Mc/sec: 2694.62
//
Query:       PHY93_02415|PHY93_02415  [L=422]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (422 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1282  (0.0715043); expected 358.6 (0.02)
Passed bias filter:                      599  (0.0334096); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.60u 0.25s 00:00:00.85 Elapsed: 00:00:00.44
# Mc/sec: 2875.75
//
Query:       PHY93_02420|PHY93_02420  [L=201]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.8e-13   49.9   0.0    5.3e-13   49.4   0.0    1.2  1  Peptidase_C92  Permuted papain-like amidase enzyme, YaeF/YiiX


Domain annotation for each model (and alignments):
>> Peptidase_C92  Permuted papain-like amidase enzyme, YaeF/YiiX, C92 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.4   0.0     3e-17   5.3e-13       2     154 ..      19     180 ..      18     200 .. 0.78

  Alignments for each domain:
  == domain 1  score: 49.4 bits;  conditional E-value: 3e-17
            Peptidase_C92   2 lekGdiifqtsraslseainpatasefkHvgivvgeegderlvveaaakegvrvtpLseflar...rssiavyrlkea..ltaeqr 82 
                              l++Gd+++++ +   ++ i++ t+s+f+H+g+++++e +e +v  +     v + pL++fl++    + + +yr ke   l+++ r
  PHY93_02420|PHY93_02420  19 LKAGDVLLISFNCYECRVIESETNSKFSHSGVIIKNELNEIFVGQS--LGHVALYPLDQFLKNktpGTIVSIYRPKEFlnLQNAER 102
                              799*******************************************..579************9999999****999877666666 PP

            Peptidase_C92  83 qkaaeaalrrlg.....kpYdfgFele......ddrlYCsklVakaykealgikvktvellgklllknpdsklklleletvlp 154
                                + e  l+  +      p+d+ + ++       + lYCs+++ak   +     ++++++ ++l++k++++   ++++++v p
  PHY93_02420|PHY93_02420 103 TALEERMLSTFNsifkdAPFDTKYLWNnfdehgRELLYCSEFIAKFLDHF----LESPTIPYSLTYKKNEA-YWFKYFQGVIP 180
                              6666655554442222279*******99977777789********99444....46788888888877665.33445554444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (201 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       488  (0.0272185); expected 358.6 (0.02)
Passed bias filter:                      439  (0.0244855); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1309.45
//
Query:       PHY93_02425|PHY93_02425  [L=200]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.4e-08   32.8   0.0    1.6e-07   31.9   0.0    1.5  2  Methyltransf_11  Methyltransferase domain
    1.8e-07   31.8   0.0    2.8e-07   31.2   0.0    1.3  1  Methyltransf_12  Methyltransferase domain
      3e-07   31.0   0.0    5.1e-07   30.3   0.0    1.4  1  Methyltransf_25  Methyltransferase domain
    4.4e-07   29.8   0.1    5.3e-07   29.6   0.1    1.1  1  Methyltransf_31  Methyltransferase domain
    0.00021   21.2   0.0    0.00024   21.0   0.0    1.1  1  Methyltransf_23  Methyltransferase domain


Domain annotation for each model (and alignments):
>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.6   0.0         5   1.8e+04      74      86 ..      18      32 ..       9      32 .. 0.71
   2 !   31.9   0.0   4.5e-11   1.6e-07       1      95 [.      43     135 ..      43     136 .. 0.87

  Alignments for each domain:
  == domain 1  score: -3.6 bits;  conditional E-value: 5
                             -..CCHHHHHHHHHH CS
          Methyltransf_11 74 v..edpekalkeiaR 86
                                + +  +++ei+R
  PHY93_02425|PHY93_02425 18 SysKSLYTFFEEIVR 32
                             334677788888887 PP

  == domain 2  score: 31.9 bits;  conditional E-value: 4.5e-11
                              EEET-TTSHHHHHHHHTTSEEEEEES-HHHHHHHHHHCCHHT-EEEETTEECCCTSS-TT-EEEEEEES-CCC-...CCHHHHHHH CS
          Methyltransf_11   1 LdvGcGtGrlaealakrgarvvgvDlskemlklakekaseeglkvefvvadaeklpfednsfDlvvssevlhhv...edpekalke 83 
                              L++G+G  +l+e++ +  a+v+++D+s  +++la + +   +      v+ +  l f+++++Dlv+ s++++ +   e+++ a+k+
  PHY93_02425|PHY93_02425  43 LELGSGHFSLFEDISDLQAEVTAIDFSSSAIALAPKSKISYK-----EVSLVDGLFFNEAKYDLVFDSHCINCItneEERDIAFKN 123
                              899************999*************99943333333.....355555699*************999999989******** PP

                              HHHHEEEEEEEE CS
          Methyltransf_11  84 iaRvLkpgGllv 95 
                              i+  Lk +Gl++
  PHY93_02425|PHY93_02425 124 IYASLKVDGLFA 135
                              *********985 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.2   0.0   7.7e-11   2.8e-07       1      98 [.      43     133 ..      43     134 .. 0.89

  Alignments for each domain:
  == domain 1  score: 31.2 bits;  conditional E-value: 7.7e-11
          Methyltransf_12   1 LeiGcGtGsllralleklpdieytgvDispsaiedakeklakrennnnnnvelealdlldldggssfDlvvasnvlhhl...kdir 83 
                              Le+G+G  sl + + +   ++e+t++D+s+sai  a +  +k++ + ++ v+    + +      ++Dlv+ s++++++   ++++
  PHY93_02425|PHY93_02425  43 LELGSGHFSLFEDISDL--QAEVTAIDFSSSAI--ALAPKSKISYKEVSLVDGLFFNEA------KYDLVFDSHCINCItneEERD 118
                              89***************..**************..777777777777777777777765......****************99999 PP

          Methyltransf_12  84 evldnirklLkpgGr 98 
                               +++ni++ Lk +G 
  PHY93_02425|PHY93_02425 119 IAFKNIYASLKVDGL 133
                              ***********9997 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.3   0.0   1.4e-10   5.1e-07       1      97 []      42     132 ..      42     132 .. 0.88

  Alignments for each domain:
  == domain 1  score: 30.3 bits;  conditional E-value: 1.4e-10
                              EEEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTTTEEEEESBC.CGBSSSTTTEEEEEEESTGGG.SSHHHHHH CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeeglnvefvqgda.edlpfedgsfDlvvssgalhh.lsdedlek 84 
                              +L+lG G+  l +++++    a+vt++D+s+++++ a +        +++ + ++ + l f+++++Dlv+ s+++++ +++e+++ 
  PHY93_02425|PHY93_02425  42 ILELGSGHFSLFEDISDLQ--AEVTAIDFSSSAIALAPKSK------ISYKEVSLvDGLFFNEAKYDLVFDSHCINCiTNEEERDI 119
                              89*************9994..****************9877......88877777355999***********99887477888999 PP

                              HHHHHHHHEEEEE CS
          Methyltransf_25  85 alkeiarvLkpgG 97 
                              a+k+i+  Lk +G
  PHY93_02425|PHY93_02425 120 AFKNIYASLKVDG 132
                              **********988 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.6   0.1   1.5e-10   5.3e-07       2     113 ..      37     140 ..      36     190 .. 0.77

  Alignments for each domain:
  == domain 1  score: 29.6 bits;  conditional E-value: 1.5e-10
          Methyltransf_31   2 dkglrvlDlGCGtGeltfelaeelgp.kaevvGiDiseeaielArenaqklgldnveFeqgdieeleklledekfDlilsnevlna 86 
                              +++l++l+lG+G     f l+e + + +aev+ iD+s  ai lA +  +k  +++v++  g +++        k+Dl+++   +n+
  PHY93_02425|PHY93_02425  37 TSDLVILELGSGH----FSLFEDISDlQAEVTAIDFSSSAIALAPK--SKISYKEVSLVDGLFFNEA------KYDLVFDSHCINC 110
                              6899*********....9999644447999****************..5999************944......6888888888876 PP

          Methyltransf_31  87 lad...pdkileeiervlkpggilliedpr 113
                              +++    d ++++i   lk +g +++e + 
  PHY93_02425|PHY93_02425 111 ITNeeeRDIAFKNIYASLKVDGLFASELMI 140
                              665111577999**********99877654 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.0   0.0   6.7e-08   0.00024      21     118 ..      37     137 ..      11     181 .. 0.82

  Alignments for each domain:
  == domain 1  score: 21.0 bits;  conditional E-value: 6.7e-08
          Methyltransf_23  21 raggrvLdiGcGtGillevlrengfsvtgvDlspeaveiaekakkaqkdqfdeqeaaepqgkfdlIvlrevlehvpdpp...ellr 103
                               ++  +L++G G+ +l e +++ +++vt++D s+ a+++a+k k + k+    +   ++++k+dl+  +++++ + + +    +++
  PHY93_02425|PHY93_02425  37 TSDLVILELGSGHFSLFEDISDLQAEVTAIDFSSSAIALAPKSKISYKEVSLVDGLFFNEAKYDLVFDSHCINCITNEEerdIAFK 122
                              455589***********************************8888888888888999*******************95555589** PP

          Methyltransf_23 104 qiatllkpgGyllls 118
                              +i++ lk +G++  +
  PHY93_02425|PHY93_02425 123 NIYASLKVDGLFASE 137
                              *******99998665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (200 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       618  (0.0344693); expected 358.6 (0.02)
Passed bias filter:                      492  (0.0274416); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.46
# Mc/sec: 1314.00
//
Query:       PHY93_05930|PHY93_05930  [L=373]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.9e-44  149.7   0.1    8.1e-44  149.3   0.1    1.2  1  DnaJ_C         DnaJ C terminal domain
    7.7e-25   86.8   1.4    1.5e-24   85.9   1.4    1.5  1  DnaJ           DnaJ domain
    3.1e-14   53.1  17.6    5.5e-14   52.3  17.6    1.4  1  DnaJ_CXXCXGXG  DnaJ central domain
    0.00011   22.1  16.7     0.0019   18.2   2.0    3.9  4  Anti-TRAP      Tryptophan RNA-binding attenuator protein inhi
  ------ inclusion threshold ------
       0.64   10.3  27.3       0.57   10.4   9.7    4.4  4  DUF5351        Family of unknown function (DUF5351)


Domain annotation for each model (and alignments):
>> DnaJ_C  DnaJ C terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  149.3   0.1   2.3e-47   8.1e-44       2     148 .]     126     338 ..     125     338 .. 0.97

  Alignments for each domain:
  == domain 1  score: 149.3 bits;  conditional E-value: 2.3e-47
                              EEEEEE-HHHHHH-.EEE.EEEE............................................................... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx............................................................ RF
                   DnaJ_C   2 eveleisleelykGktkkikikrnvi............................................................ 27 
                              ++ ++i++ e+++G++k+i++++nv+                                                            
  PHY93_05930|PHY93_05930 126 QMGIDITFAEAAFGCEKTISLTKNVKcetcsgtgakagsapttcdycnghgevrrqqgfftvsstcpkcsgtgqmikdpcqtcnga 211
                              6789********************************************************************************** PP

                              .....T.EEEEEE-TT--TT-EEEETT-SS..SS..S---EEEEEEE---SS-EEETTEEEEEEEEEHHHHHHTEEEEEE-SS-EE CS
                              .xxxxx.xxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   DnaJ_C  28 .kkekk.tlevkipaGikdgqkirlegeGd..eeggepGDlivtikvkphpvFkrkgndlyveveislaeallGgklevptldgkv 109
                               kk+kk  l+vkipaGi++gq+++l++eGd   +gg++GDl+v+i+ k h++F+r++ d++++v+is+++a+lG+++evptl+gkv
  PHY93_05930|PHY93_05930 212 gKKKKKvDLQVKIPAGIDQGQRLKLSNEGDagTSGGPNGDLYVVINIKAHDIFERDEFDVHCTVPISFSQAALGAEMEVPTLSGKV 297
                              95555569**********************76666***********99************************************** PP

                              EEEE...--TT-EEEETT-S-EET...TEE--EEEEEEEE-- CS
                              xxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   DnaJ_C 110 klki...tqpgevlrikgkGmpklkkpgkrGdlyvevkvefP 148
                               lki   tq+g ++r+kgkG+++l  +++ Gd++v+v+ve+P
  PHY93_05930|PHY93_05930 298 ALKIpagTQSGVKMRLKGKGIQRLG-GYGLGDQIVTVHVETP 338
                              ************************7.**************99 PP

>> DnaJ  DnaJ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.9   1.4   4.2e-28   1.5e-24       1      63 []       6      68 ..       6      68 .. 0.99

  Alignments for each domain:
  == domain 1  score: 85.9 bits;  conditional E-value: 4.2e-28
                             HHHHHHTSSTTG-HHHHHHHHHHHHHHHSTTTSCCHHHHHHHHHHHHHHHHHHTSHHHHHHHH CS
                     DnaJ  1 dyYeiLgvskdasedeIkkaYrklalkyHPDknpkdpeaeekFkeineAyevLsdpekRkqYD 63
                             dyYe+Lgv+k a +d+IkkaYrkla+++HPD+np++peae kFke +eA +vL d+ek+ +YD
  PHY93_05930|PHY93_05930  6 DYYEVLGVQKGAAKDDIKKAYRKLAMQFHPDRNPNNPEAEAKFKEASEAADVLLDDEKKGRYD 68
                             8*************************************************************9 PP

>> DnaJ_CXXCXGXG  DnaJ central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.3  17.6   1.5e-17   5.5e-14       1      67 []     152     212 ..     152     212 .. 0.87

  Alignments for each domain:
  == domain 1  score: 52.3 bits;  conditional E-value: 1.5e-17
            DnaJ_CXXCXGXG   1 CkkCkGsgakkgk.kktCktCkGsGvvreeqktlgpfvqqsqstCpeCeGtGkvikekdkCkkCkGkg 67 
                              C++C+G+gak+g+ ++tC+ C+G+G+vr++q   g+f+  ++stCp+C+GtG++i  kd+C++C+G g
  PHY93_05930|PHY93_05930 152 CETCSGTGAKAGSaPTTCDYCNGHGEVRRQQ---GFFT--VSSTCPKCSGTGQMI--KDPCQTCNGAG 212
                              *********9977699*********777666...3444..689************..999******86 PP

>> Anti-TRAP  Tryptophan RNA-binding attenuator protein inhibitory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   3.3   1.6e-05     0.059      11      47 ..     150     183 ..     147     185 .. 0.91
   2 !   18.2   2.0   5.2e-07    0.0019      11      41 ..     167     199 ..     165     203 .. 0.84
   3 !    7.5   0.4    0.0011       3.8      11      25 ..     203     217 ..     199     241 .. 0.76
   4 ?   -1.8   0.0      0.89   3.2e+03      27      44 ..     284     301 ..     276     307 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.6e-05
                              EE-TTTTTTSEETTE......E-TTTTTSSEEE-HHH CS
                Anti-TRAP  11 tkCdaCngsGkiepeeprasleCPkCsGkglipTaqG 47 
                              +kC++C g+G  ++    a   C  C+G+g +  +qG
  PHY93_05930|PHY93_05930 150 VKCETCSGTGAKAGS---APTTCDYCNGHGEVRRQQG 183
                              79************9...8999********9887777 PP

  == domain 2  score: 18.2 bits;  conditional E-value: 5.2e-07
                              EE-TTTTTTSEETTE........E-TTTTTSSE CS
                Anti-TRAP  11 tkCdaCngsGkiepe..eprasleCPkCsGkgl 41 
                              t+Cd Cng G++  +      s  CPkCsG g 
  PHY93_05930|PHY93_05930 167 TTCDYCNGHGEVRRQqgFFTVSSTCPKCSGTGQ 199
                              79**********999444578999******986 PP

  == domain 3  score: 7.5 bits;  conditional E-value: 0.0011
                              EE-TTTTTTSEETTE CS
                Anti-TRAP  11 tkCdaCngsGkiepe 25 
                               +C++Cng+Gk + +
  PHY93_05930|PHY93_05930 203 DPCQTCNGAGKKKKK 217
                              69********98766 PP

  == domain 4  score: -1.8 bits;  conditional E-value: 0.89
                              .....E-TTTTTSSEEE- CS
                Anti-TRAP  27 prasleCPkCsGkglipT 44 
                               +a +e P  sGk  +  
  PHY93_05930|PHY93_05930 284 LGAEMEVPTLSGKVALKI 301
                              578999999999876655 PP

>> DUF5351  Family of unknown function (DUF5351)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   2.0     0.031   1.1e+02      20      28 ..     152     160 ..     151     161 .. 0.88
   2 ?    9.0   1.2   0.00045       1.6      19      27 ..     168     176 ..     166     178 .. 0.71
   3 ?   10.4   9.7   0.00016      0.57       1      28 [.     169     199 ..     169     200 .. 0.82
   4 ?    4.3   0.8     0.013        46      20      29 .]     205     214 ..     203     214 .. 0.88

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.031
                  DUF5351  20 CesCeGtgk 28 
                              Ce C+Gtg 
  PHY93_05930|PHY93_05930 152 CETCSGTGA 160
                              9******96 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.00045
                  DUF5351  19 TCesCeGtg 27 
                              TC++C+G+g
  PHY93_05930|PHY93_05930 168 TCDYCNGHG 176
                              777777776 PP

  == domain 3  score: 10.4 bits;  conditional E-value: 0.00016
                  DUF5351   1 CpYCeGkGYf...qLlLGGSETCesCeGtgk 28 
                              C+YC+G+G +   q     S TC++C+Gtg+
  PHY93_05930|PHY93_05930 169 CDYCNGHGEVrrqQGFFTVSSTCPKCSGTGQ 199
                              ********99443445557**********97 PP

  == domain 4  score: 4.3 bits;  conditional E-value: 0.013
                  DUF5351  20 CesCeGtgke 29 
                              C+ C+G+gk+
  PHY93_05930|PHY93_05930 205 CQTCNGAGKK 214
                              99****9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (373 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       616  (0.0343577); expected 358.6 (0.02)
Passed bias filter:                      433  (0.0241508); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.59u 0.26s 00:00:00.85 Elapsed: 00:00:00.59
# Mc/sec: 1900.67
//
Query:       PHY93_02430|PHY93_02430  [L=93]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (93 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       617  (0.0344135); expected 358.6 (0.02)
Passed bias filter:                      410  (0.022868); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.26s 00:00:00.72 Elapsed: 00:00:00.46
# Mc/sec: 608.14
//
Query:       PHY93_02435|PHY93_02435  [L=299]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      1e-09   38.8   0.1      3e-09   37.2   0.0    1.7  2  LIAS_N       N-terminal domain of lipoyl synthase of Radical_
    1.8e-08   34.9   0.2    2.9e-08   34.3   0.2    1.3  1  Radical_SAM  Radical SAM superfamily


Domain annotation for each model (and alignments):
>> LIAS_N  N-terminal domain of lipoyl synthase of Radical_SAM family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.2   0.0   3.4e-13     3e-09      70     108 .]      10      48 ..       2      48 .. 0.90
   2 ?   -2.2   0.0       0.6   5.3e+03      81      97 ..     212     228 ..     181     231 .. 0.76

  Alignments for each domain:
  == domain 1  score: 37.2 bits;  conditional E-value: 3.4e-13
                   LIAS_N  70 rlrLPswlktkiPlGknynkikndlreLnLhtvCeeaRC 108
                               +r P+wlk k+P G n++ ++++lr   L tvCeea C
  PHY93_02435|PHY93_02435  10 VIRKPDWLKVKLPGGDNFKEVRANLRAKGLYTVCEEAGC 48 
                              6899*********************************99 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 0.6
                   LIAS_N  81 iPlGknynkikndlreL 97 
                              + lG++ + ik  l +L
  PHY93_02435|PHY93_02435 212 VGLGEDISEIKVALSDL 228
                              56788888888888887 PP

>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.3   0.2   3.2e-12   2.9e-08       4     164 ..      66     225 ..      63     228 .. 0.92

  Alignments for each domain:
  == domain 1  score: 34.3 bits;  conditional E-value: 3.2e-12
                              ESEESS--TTTSCCTTHHHHHHHHHHHHHHHHHHHHHHHHHTTSEEEEEESSTGGGSTTHHHHHHHHHHTCCCTEEEEEEECSSCH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM   4 trgCnlrCsfCarpetvrregrgrslsveeileevkelkaekgvkevilgggepllypdfvellerlaklavpgiritvetngtlp 89 
                              +  C+++C+fC+++    ++ +  ++   ei e +  +   +g k++++++ + ++ +d+  + ++++  +  +i+  v++  + p
  PHY93_02435|PHY93_02435  66 GDTCTRACKFCDVN----TGNPKGFINHNEIDETANMV-GIMGLKYIVITSVDRDDLADYGAKHFAEVVSKIHDIHPEVIVEVLIP 146
                              678***********....59******************.5999******************************************* PP

                              G....HHHHHHHHHTT-SEEEEEEBSSSHHHHHHHHTCTSHHHHHHHHHHHHHHTTSET..EEEEEEEBTTTSHHHHHHHH CS
                              x....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM  90 d....eeklerllelgvdrvslgleaaddekvlklmnrghtfeevlealeklreagikr..vvdrivglpGendeeleell 164
                              d    + ++ +l++ ++ +++ ++e++    +     r+ ++e +l++l+ ++++  +   +++ ++++ Ge  +e++  l
  PHY93_02435|PHY93_02435 147 DfcgiDIHMHTLAQSNPFVIAQNIETVKRL-TTAVRDRRASYETTLQCLDFYKKN-YPHitTKTSLMVGLGEDISEIKVAL 225
                              *****************************8.66666699***********99999.7777999999999999999987655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (299 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       525  (0.0292822); expected 358.6 (0.02)
Passed bias filter:                      436  (0.0243181); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.23s 00:00:00.80 Elapsed: 00:00:00.46
# Mc/sec: 1950.75
//
Query:       PHY93_02440|PHY93_02440  [L=248]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.011   15.7   0.0      0.016   15.1   0.0    1.3  1  BPL_LplA_LipB  Biotin/lipoate A/B protein ligase family
       0.21   11.3   0.0       0.31   10.8   0.0    1.2  1  Ydc2-catalyt   Mitochondrial resolvase Ydc2 / RNA splicing MR


Domain annotation for each model (and alignments):
>> BPL_LplA_LipB  Biotin/lipoate A/B protein ligase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.1   0.0   1.8e-06     0.016       6     127 ..      64     181 ..      61     185 .. 0.67

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.8e-06
                              S-HHHHHH..GCGGG--TT-EEEEEEESS-B-B--B-TTSEEEEEEEEESS...-CCGTHHH.HHHHHHHHHHHH........... CS
            BPL_LplA_LipB   6 kstntllkeslnsselesgglvvvrrqtgGrnvwhspkgeltyslllspeqktfqnrvlely.vsllvlavlealgyrd.....sk 85 
                              k + t+ ++ + +++  +  + + ++ +gG  ++h p++ + y +l +      +++ l++y   l+++ ++++l  ++     + 
  PHY93_02440|PHY93_02440  64 KIKETASFNLVDFDQETKLPYPLYTIKRGGGLTFHYPGQFVFYPILSL------TTTKLAIYdLMLSIMEIVKNL--IQiqfsfQG 141
                              555566666677888888889999**********************99......445666666666666666666..442232333 PP

                              HHTT-TTEEEETTTEEEETTEEEEEEEEEEEETTS-EEEEEE CS
            BPL_LplA_LipB  86 pgiegipvfikwpnDlyvngrKlaGiavtstrgktlhhivig 127
                               +i++       + D      K+a+i+   +r  t h+++++
  PHY93_02440|PHY93_02440 142 VEIKKDFLG--LWFDGKFSSAKIASIGLAANRYITYHGLALN 181
                              333333333..4445666888888888888877777776665 PP

>> Ydc2-catalyt  Mitochondrial resolvase Ydc2 / RNA splicing MRS1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   3.4e-05      0.31      80     105 ..     222     247 ..     202     248 .] 0.86

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 3.4e-05
                              HHHHHHHHHHHHHHH--SEEEEEE-- CS
             Ydc2-catalyt  80 aelAykLvselllaykPthvlIErQR 105
                               + + ++++  ++  kP+h +IErQR
  PHY93_02440|PHY93_02440 222 ERFCTNFIDLFIEYLKPNHLMIERQR 247
                              567889999999999*********** PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (248 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       452  (0.0252106); expected 358.6 (0.02)
Passed bias filter:                      371  (0.0206927); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.42
# Mc/sec: 1792.20
//
Query:       PHY93_02445|PHY93_02445  [L=305]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.5e-38  131.7   0.0    4.4e-38  131.3   0.0    1.0  1  CoA_transf_3  CoA-transferase family III


Domain annotation for each model (and alignments):
>> CoA_transf_3  CoA-transferase family III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  131.3   0.0   2.5e-42   4.4e-38       1     308 [.       6     302 ..       6     304 .. 0.86

  Alignments for each domain:
  == domain 1  score: 131.3 bits;  conditional E-value: 2.5e-42
             CoA_transf_3   1 LaGvrVldlsqvlaGplatslLAdlGAeVIkvEppkkgDpaRk.vgpseekgesayflavnrnKrsvalDlkseegrellkrLvak 85 
                              LaG++++dl++ l Gpl++++L+dlGA VIk+E+    Dp    + ++++ +  ++++++n +K  v  D++s e+++ +++Lv +
  PHY93_02445|PHY93_02445   6 LAGLTIIDLTHRLPGPLCGKILGDLGATVIKIEDNIFQDPFLSgLFAQFDSSFVSWYENLNAGKSIVRFDFNSNEDQKKIHELVVS 91 
                              89*********************************9999875413344447777899***************************** PP

             CoA_transf_3  86 ADVvieNfrpgvlerlglgyeelrainPrLiyasvsgyGqsGpkakrpgyDlvaqaasGlmsl.tgepdgp.PvkvgvplgDivtg 169
                              +D vi+ +  +++e+l++++++l   +P +++  +       +++k+  +Dl+a a++Gl+sl   +++++    +  p++ i  g
  PHY93_02445|PHY93_02445  92 SDAVIMGLPTKTREKLQITDRDLTLNKPMVVIELLAS-----AHEKKSMHDLNALAMTGLLSLyVADKKDKiVDPPFLPIAGISFG 172
                              ************************9999999877654.....5689999*************96455555415556678999999* PP

             CoA_transf_3 170 llaavailaallarertGkGqvidvslleaalallapqlleylatgevperqgnrdpaaap.ygvyrtkdg.wvaiaaatdkqwaa 253
                              + aa   laa++++ ++ + q +++ l + + ++l+  + e+  +++v + +   + ++ p y++y+t+d  +va+aa ++k+w +
  PHY93_02445|PHY93_02445 173 HKAATDLLAAYIQATKKNQTQFVKTYLDHVTKEVLGIFWPEK--DRQVGR-TKFLHNGIYPcYSLYQTRDLkYVALAAVEEKFWNK 255
                              *************************99999999999888874..333333.44555555555********99************** PP

             CoA_transf_3 254 lckalgrpelaedprfatnasrlenraeldaelaewlaertaaewlellaaagvp 308
                              +c+++g  +   ++rf ++++       l +++++ +++ t+ e++  +++++++
  PHY93_02445|PHY93_02445 256 FCDVFGISNS--HDRFFNQDQ------SLFELISNQISKYTTSEIELKIQDEDLC 302
                              *******975..777877777......6999999999999999999999888877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (305 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       644  (0.0359195); expected 358.6 (0.02)
Passed bias filter:                      459  (0.025601); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 1976.50
//
Query:       PHY93_02450|PHY93_02450  [L=690]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.1e-67  225.2   0.0    7.5e-67  224.4   0.0    1.4  1  Thioredox_DsbH  Protein of unknown function, DUF255
    8.9e-09   35.4   0.0    2.2e-08   34.2   0.0    1.7  1  Thioredoxin_7   Thioredoxin-like


Domain annotation for each model (and alignments):
>> Thioredox_DsbH  Protein of unknown function, DUF255
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  224.4   0.0   8.3e-71   7.5e-67       2     162 ..       9     169 ..       8     170 .. 0.99

  Alignments for each domain:
  == domain 1  score: 224.4 bits;  conditional E-value: 8.3e-71
           Thioredox_DsbH   2 nrlaeekspYllqhaknpvdWypwgeealekakeedkpillsiGysachWChvmekesfedeevaallnesfvsvkvDreerPdld 87 
                              nrl++eks Yl+qh +np++W+++g ea+e+a++e+kpi+ls+Gys+chWChvm+++sf + e+a+ lne+f+++kvDree Pdld
  PHY93_02450|PHY93_02450   9 NRLKNEKSLYLRQHLSNPIHWWAYGPEAIEAARAENKPIFLSVGYSSCHWCHVMAHDSFMNVEIAKQLNENFICIKVDREEYPDLD 94 
                              9************************************************************************************* PP

           Thioredox_DsbH  88 kiymeavqaltgsggWPlnvfltpdlkpffggtYfpkeeregrpgflevlekiaelweeereeleeeaeelleal 162
                              ++y++a+q+++++ggWPl+ fl pd +pff gtYfp  ++ g p+f ++l+++++++++e+e++e++a++++ea+
  PHY93_02450|PHY93_02450  95 NYYQKAAQLFSNNGGWPLSAFLLPDMRPFFVGTYFPAVSKDGGPNFSDLLKELRRAFDQEKEQVEKNASQVTEAI 169
                              ***********************************************************************9987 PP

>> Thioredoxin_7  Thioredoxin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.2   0.0   2.4e-12   2.2e-08       2      64 ..      29      91 ..      28     118 .. 0.75

  Alignments for each domain:
  == domain 1  score: 34.2 bits;  conditional E-value: 2.4e-12
                             --SSHHHHHHHHHHHT--EEEEE--TT-HHHHHHHHH.HHH-HHHHH.HHHT-EEEEESS--S- CS
            Thioredoxin_7  2 wlsdldealakaaergkpvlvffgaswcftCqalerd.flsdeevkaalaekfvllrvdvterd 64
                             w +  +ea ++a++++kp+++ +g s c+ C++++ d f++ e  k+ l+e+f++ +vd +e  
  PHY93_02450|PHY93_02450 29 WWAYGPEAIEAARAENKPIFLSVGYSSCHWCHVMAHDsFMNVEIAKQ-LNENFICIKVDREEYP 91
                             5556689***************************8887999999999.***********95433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (690 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       869  (0.048469); expected 358.6 (0.02)
Passed bias filter:                      610  (0.0340231); expected 358.6 (0.02)
Passed Vit filter:                        74  (0.00412739); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.76u 0.28s 00:00:01.04 Elapsed: 00:00:00.48
# Mc/sec: 4287.12
//
Query:       PHY93_02455|PHY93_02455  [L=292]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.3e-20   72.4   0.0      4e-20   71.6   0.0    1.3  1  SLT              Transglycosylase SLT domain
  ------ inclusion threshold ------
       0.13   12.3   0.0       0.27   11.2   0.0    1.6  1  Phage_lysozyme2  Phage tail lysozyme


Domain annotation for each model (and alignments):
>> SLT  Transglycosylase SLT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   71.6   0.0   4.5e-24     4e-20       9     104 ..     105     206 ..     101     213 .. 0.92

  Alignments for each domain:
  == domain 1  score: 71.6 bits;  conditional E-value: 4.5e-24
                              HHTS-HHHHHHHHHHHHTT-TT-B-TTSEBTTTTBETTTHHHHHHHHT......-SHHHHCSHHHHHHHHHHHHHHHHHTTTTHHH CS
                      SLT   9 kygvepsllaaiaqvESgfnpkAvsksgavGLmQimpstakrlglrvk......lsedelldPeknisagakyLkslykqyngsll 88 
                               y+++p  +  +++vESgf+ +A+s  +a GLmQi p ta++l   ++      + + +l +P +ni++g+ yLk+l+++++ + +
  PHY93_02455|PHY93_02455 105 DYQIDPFWIISVMMVESGFDFRAKSHRNARGLMQIRPDTASHLYQLMRkkvsdaHLNANLHHPSENIEVGIFYLKKLLQNFRMNYR 190
                              6899**************************************87655567888888899*************************** PP

                              HHHHHHHH-HHHHHHT CS
                      SLT  89 lalaAYNaGegtvkka 104
                              la  AYN G++++k+ 
  PHY93_02455|PHY93_02455 191 LATIAYNIGPNKLKNL 206
                              ***********99875 PP

>> Phage_lysozyme2  Phage tail lysozyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0     3e-05      0.27      24      93 ..     114     197 ..     113     254 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 3e-05
          Phage_lysozyme2  24 lGniqqEsgfnpgavesalskggggyGlvQWtgsrrtallkyakakgk..........nwkdlevqlefllkelkn.qy.s..... 92 
                              +  +++Esgf+  a       + ++ Gl+Q  +++ + l +++++k +          + +++ev + +l k l+n  + +     
  PHY93_02455|PHY93_02455 114 ISVMMVESGFDFRAKS-----HRNARGLMQIRPDTASHLYQLMRKKVSdahlnanlhhPSENIEVGIFYLKKLLQNfRMnYrlati 194
                              6689**********98.....8********************99776677777778888888888888888888885442245554 PP

          Phage_lysozyme2  93 ..s 93 
                                +
  PHY93_02455|PHY93_02455 195 ayN 197
                              442 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (292 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       552  (0.0307881); expected 358.6 (0.02)
Passed bias filter:                      426  (0.0237604); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 1893.39
//
Query:       PHY93_02460|PHY93_02460  [L=233]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.6e-67  225.6   0.2    6.3e-67  225.4   0.2    1.0  1  Cytidylate_kin   Cytidylate kinase
    1.7e-08   35.0   0.0    4.1e-08   33.8   0.0    1.6  1  AAA_18           AAA domain
    1.4e-07   31.8   0.1    2.7e-07   30.9   0.1    1.5  1  Cytidylate_kin2  Cytidylate kinase-like family
    1.7e-05   25.3   0.1    4.8e-05   23.8   0.0    2.0  1  AAA_17           AAA domain
      3e-05   24.2   0.0    5.1e-05   23.5   0.0    1.4  1  AAA_33           AAA domain
    6.3e-05   23.3   0.0    0.00012   22.4   0.0    1.4  1  AAA_22           AAA domain
    0.00021   21.8   0.2     0.0018   18.8   0.2    2.2  2  ABC_tran         ABC transporter
    0.00036   20.7   0.0    0.00057   20.0   0.0    1.4  1  ADK              Adenylate kinase
    0.00047   19.9   0.1    0.00059   19.6   0.0    1.4  1  AAA_24           AAA domain
     0.0005   20.2   0.0      0.001   19.2   0.0    1.5  1  SKI              Shikimate kinase
     0.0018   18.3   0.0      0.002   18.2   0.0    1.3  1  CbiA             CobQ/CobB/MinD/ParA nucleotide binding domai
     0.0019   17.9   0.1     0.0041   16.9   0.0    1.7  2  PRK              Phosphoribulokinase / Uridine kinase family
     0.0026   17.7   0.0      0.017   15.0   0.0    2.1  2  APS_kinase       Adenylylsulphate kinase
     0.0048   17.3   0.0     0.0084   16.5   0.0    1.7  1  AAA_16           AAA ATPase domain
     0.0055   16.6   0.0     0.0097   15.8   0.0    1.5  1  NACHT            NACHT domain
      0.006   16.9   0.0      0.014   15.7   0.0    1.7  1  RNA_helicase     RNA helicase
     0.0081   16.6   0.0      0.019   15.4   0.0    1.7  1  AAA              ATPase family associated with various cellul
     0.0094   15.9   0.0      0.017   15.0   0.0    1.4  1  Rad17            Rad17 P-loop domain
  ------ inclusion threshold ------
      0.015   15.3   0.0      0.027   14.5   0.0    1.5  1  AAA_5            AAA domain (dynein-related subfamily)
      0.015   15.3   0.0      0.036   14.1   0.0    1.7  1  AAA_14           AAA domain
      0.016   14.8   0.2      0.048   13.2   0.0    1.8  2  CobU             Cobinamide kinase / cobinamide phosphate gua
      0.019   14.7   0.0      0.048   13.4   0.0    1.7  1  AAA_29           P-loop containing region of AAA domain
      0.023   14.9   0.1      0.097   12.9   0.0    1.9  2  AAA_28           AAA domain
      0.024   13.8   0.0      0.029   13.5   0.0    1.4  1  NB-ARC           NB-ARC domain
       0.03   14.3   0.0      0.074   13.0   0.0    1.7  1  TsaE             Threonylcarbamoyl adenosine biosynthesis pro
      0.035   14.0   0.0      0.056   13.3   0.0    1.4  1  dNK              Deoxynucleoside kinase
      0.041   13.6   0.4       0.21   11.3   0.1    2.1  2  AAA_30           AAA domain
      0.059   13.1   0.0       0.14   11.9   0.0    1.5  1  IstB_IS21        IstB-like ATP binding protein
      0.067   12.6   0.0        0.1   12.0   0.0    1.2  1  Tnp_P_element    Transposase protein
      0.089   12.5   0.0       0.16   11.6   0.0    1.4  1  CoaE             Dephospho-CoA kinase
       0.13   11.9   0.3       0.26   10.9   0.0    1.6  2  DUF383           Domain of unknown function (DUF383)
       0.17   12.4   0.1       0.46   10.9   0.1    1.6  2  AAA_23           AAA domain


Domain annotation for each model (and alignments):
>> Cytidylate_kin  Cytidylate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  225.4   0.2   1.1e-69   6.3e-67       1     209 [.      12     224 ..      12     226 .. 0.97

  Alignments for each domain:
  == domain 1  score: 225.4 bits;  conditional E-value: 1.1e-69
                              EEEE-STTSSHHHHHHHHHHHHT-EEEEHHHHHHHHHHHHHHTT--TT-HHHHHHHHHT--EEEEEE...EEEETTEE-TTGGGSH CS
           Cytidylate_kin   1 iaiDGPagsGKssvaralaeklglkyldtgalYRalalaalrrkvdlldeaalvelakevelsfeae...kvllngedveeelrsd 83 
                              iaiDGP+gsGKs++a++la+ l++ y+dtga++Rala++a ++k++l++  al+e+++++++ +  +    + +ng+d++e++r  
  PHY93_02460|PHY93_02460  12 IAIDGPSGSGKSTIAKELARALNVLYIDTGAMFRALAYVANEKKINLTEGPALTEFLNSLKIDYGVSdsvLIRINGQDLSEKIREH 97 
                              9***************************************************************9987656679************ PP

                              HHHHHHHHHTTSHHHHHHHHHHHHTT-BSSBEEEEESSIIIIISTT-SEEEEEE--HHHHHHHHHHHHHHTT--.--HHHHHHHHH CS
           Cytidylate_kin  84 evekavSavaaipavRailvkklrelvkkarvvveGRDigtvvfpdaelKifldAsveeRakRRlkqlkakgts.vsleellaeik 168
                              +v+ ++S +++ p+vR++l++ +r+l+ ++ +v+eGRDigtvvfpd+  K f++Asv++Ra+RRlkql+++g    +l ++ ++++
  PHY93_02460|PHY93_02460  98 HVSGLASVISQLPSVRKYLLDFQRSLALDKVCVMEGRDIGTVVFPDSFSKFFITASVDIRAARRLKQLRENGDGkITLTQIAEDVR 183
                              ************************************************************************9989********** PP

                              HHHHHHHCTSSS-S---TT-EEEETTTS-HHHHHHHHHHHH CS
           Cytidylate_kin 169 eRDklDkerevgpLklaedaliidtskltieevvekileli 209
                               RD++D++r+v+pLk+a+da+++dts+l ++++v  + +++
  PHY93_02460|PHY93_02460 184 LRDETDMNRSVAPLKKADDAMLLDTSSLNMNDIVHILSNEV 224
                              **********************************9887776 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.8   0.0   7.3e-11   4.1e-08       1     119 [.      12     170 ..      12     189 .. 0.75

  Alignments for each domain:
  == domain 1  score: 33.8 bits;  conditional E-value: 7.3e-11
                   AAA_18   1 IlltGtpGvGKttlakeLskrlgf........gvnlrdvakenglllevdpe..aldeskrldedkldklldaleenss....... 69 
                              I++ G++G+GK+t+akeL++ l++         + l  va e+ + l++ p+  ++ +s+++d ++ d++l  +++++        
  PHY93_02460|PHY93_02460  12 IAIDGPSGSGKSTIAKELARALNVlyidtgamFRALAYVANEKKINLTEGPAltEFLNSLKIDYGVSDSVLIRINGQDLsekireh 97 
                              8899******************9899***99888888888888888888888999999******************9999976665 PP

                   AAA_18  70 ........................aleegknlvidghlaeleseaakdikk........................vvLtaspeell 107
                                                      +                                                  +++tas ++++
  PHY93_02460|PHY93_02460  98 hvsglasvisqlpsvrkylldfqrS-------------------------LaldkvcvmegrdigtvvfpdsfskFFITASVDIRA 158
                              5555555555444444444444443.........................244444455555555555555556699999999999 PP

                   AAA_18 108 eRlekRgyeeak 119
                               R  k+ +e+ +
  PHY93_02460|PHY93_02460 159 ARRLKQLRENGD 170
                              998887776655 PP

>> Cytidylate_kin2  Cytidylate kinase-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.9   0.1   4.8e-10   2.7e-07       1     135 [.      11     165 ..      11     193 .. 0.66

  Alignments for each domain:
  == domain 1  score: 30.9 bits;  conditional E-value: 4.8e-10
          Cytidylate_kin2   1 iITIsreyGsgGetigeaLAekLglpfydr.eii...eevakelglseeeveevde...rsrlssflskllaarvagdtldekldd 79 
                              +I+I++  Gsg++ti+++LA  L++ ++d  +++   + va e++++  e  ++ e   + +++  +s  +  r+ g++l+ek+ +
  PHY93_02460|PHY93_02460  11 VIAIDGPSGSGKSTIAKELARALNVLYIDTgAMFralAYVANEKKINLTEGPALTEflnSLKIDYGVSDSVLIRINGQDLSEKIRE 96 
                              8*****************************65541114455555555555544444333444555555555555555555666666 PP

          Cytidylate_kin2  80 elfeaqervirel..............a.aeesvVivGR.gadliLkdrpnvlrvfltapledrvkrvaere 135
                              + +   ++vi +l              a + + +V+ GR  + +++ d     ++f+ta+ + r+ r  ++ 
  PHY93_02460|PHY93_02460  97 HHVSGLASVISQLpsvrkylldfqrslAlD-KVCVMEGRdIGTVVFPD--SFSKFFITASVDIRAARRLKQL 165
                              666666777777766666666666665745.5*******558888888..579*********9997754443 PP

>> AAA_17  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.8   0.0   8.6e-08   4.8e-05       2      34 ..      16      48 ..      16     179 .. 0.84

  Alignments for each domain:
  == domain 1  score: 23.8 bits;  conditional E-value: 8.6e-08
                             E-TTSSHHHHHHHHHHHHTEEEEEHHHHHHHHH CS
                   AAA_17  2 GgPGsGKgtqceklvekygfthlsaGdllreea 34
                             G+ GsGK+t++++l++ +++ ++ +G ++r+ a
  PHY93_02460|PHY93_02460 16 GPSGSGKSTIAKELARALNVLYIDTGAMFRALA 48
                             899***************************876 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.5   0.0   9.1e-08   5.1e-05       1      47 [.      11      57 ..      11      88 .. 0.79

  Alignments for each domain:
  == domain 1  score: 23.5 bits;  conditional E-value: 9.1e-08
                   AAA_33  1 lvllvGlpGsGKstlaerllkklgavllssdtlrrrlfg..tdqqsktd 47
                             ++ + G++GsGKst a++l+++l +  +++ +++r+l++  +  ++k +
  PHY93_02460|PHY93_02460 11 VIAIDGPSGSGKSTIAKELARALNVLYIDTGAMFRALAYvaN--EKKIN 57
                             56678******************************9998542..33333 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.4   0.0   2.2e-07   0.00012       6      70 ..      10      81 ..       8     107 .. 0.72

  Alignments for each domain:
  == domain 1  score: 22.4 bits;  conditional E-value: 2.2e-07
                   AAA_22  6 gilvvtGesGtGKTtllrrlleqldeeakaee.....erpevv.....fvtlpsstsskdllrellralglelka 70
                             +++++ G+sG+GK+t +++l++ l+ + ++++     +    +     +++l+++  ++++l+ l  ++g++ + 
  PHY93_02460|PHY93_02460 10 KVIAIDGPSGSGKSTIAKELARALN-VLYIDTgamfrA--LAYvanekKINLTEGPALTEFLNSLKIDYGVSDSV 81
                             789********************95.555555677531..22246777899999999999998888888876555 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.2   3.2e-06    0.0018      12      51 ..      10      92 ..       7     176 .. 0.74
   2 ?    0.9   0.0         1   5.8e+02       5      31 ..     153     179 ..     149     224 .. 0.76

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 3.2e-06
                             SEEEEEESTTSSHHHHHHHHTTSS--...SEEEE........................................EETTCEGGG CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxx........................................xxxxxxxxx RF
                 ABC_tran 12 ekvaivGenGaGKStLlkllagllkp...teGei........................................lldgkdlke 51
                             +++ai G++G+GKSt++k la+ l+    + G +                                        +++g+dl+e
  PHY93_02460|PHY93_02460 10 KVIAIDGPSGSGKSTIAKELARALNVlyiDTGAMfralayvanekkinltegpalteflnslkidygvsdsvliRINGQDLSE 92
                             6899****************998876666666666666666666666666666666666666666666666666666666666 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 1
                              EEEEETTSEEEEEESTTSSHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran   5 slklkegekvaivGenGaGKStLlkll 31 
                              s+++++ +++  + enG GK tL ++ 
  PHY93_02460|PHY93_02460 153 SVDIRAARRLKQLRENGDGKITLTQIA 179
                              566677777777778999999998764 PP

>> ADK  Adenylate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.0   0.0     1e-06   0.00057       3      73 ..      16      95 ..      14     130 .. 0.79

  Alignments for each domain:
  == domain 1  score: 20.0 bits;  conditional E-value: 1e-06
                             ESTTSSHHHHHHHHHHHHTSEEEEHHHHHHH......HHHCT-HHHHHHHHHHHTTSS...--HHHHHHHHHHHHHCHGT CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxx RF
                      ADK  3 GaPgaGKGtqaeklvkkyglahlstGdllRa......evksgtelGkeakevmdkgel...vpdevvvklvkeelekedk 73
                             G+ g+GK t a++l++ +++  + tG ++Ra      e k +   G  + e+++  ++   v+d+v++++  + l+++ +
  PHY93_02460|PHY93_02460 16 GPSGSGKSTIAKELARALNVLYIDTGAMFRAlayvanEKKINLTEGPALTEFLNSLKIdygVSDSVLIRINGQDLSEKIR 95
                             999***************************83322212233445688888888877766668888888888888877744 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   0.0     1e-06   0.00059       3      39 ..      10      48 ..       9     172 .. 0.79

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 1e-06
                   AAA_24  3 lkiliyGpsgiGKTtlakel..gpkplfidtekGlksld 39
                             + i+i Gpsg+GK+t+akel    ++l+idt + +++l 
  PHY93_02460|PHY93_02460 10 KVIAIDGPSGSGKSTIAKELarALNVLYIDTGAMFRALA 48
                             679999**************9999999**9977665554 PP

>> SKI  Shikimate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.2   0.0   1.9e-06     0.001       1      27 [.      18      44 ..      18      57 .. 0.89

  Alignments for each domain:
  == domain 1  score: 19.2 bits;  conditional E-value: 1.9e-06
                             TTSSHHHHHHHHHHHHTSEEEEHHHHH CS
                      SKI  1 mGaGKstvGkllAkklglefiDlDeli 27
                             +G+GKst++k+lA++l++ +iD+  ++
  PHY93_02460|PHY93_02460 18 SGSGKSTIAKELARALNVLYIDTGAMF 44
                             59********************97665 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.0   3.5e-06     0.002       3      55 ..      13     115 ..      11     225 .. 0.66

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 3.5e-06
                              EEESSTTSSHHHHHHHHHHHHHHTT--EEEEEEEESSCCCCH.HTTEB-HHHH................................. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxx................................. RF
                     CbiA   3 iastkGGvGKTtlaanLaralarrglrVllvDaDpqannlai.leglendiep................................. 54 
                              ++ + +G+GK+t+a  Laral+     Vl +D++ +  +la+ +  ++++                                    
  PHY93_02460|PHY93_02460  13 AIDGPSGSGKSTIAKELARALN-----VLYIDTGAMFRALAYvANEKKIN--Ltegpalteflnslkidygvsdsvliringqdls 91 
                              56788**************887.....6********99999542222222..2446666666666666666666666666666555 PP

                              .......................C CS
                              .......................x RF
                     CbiA  55 .......................d 55 
                                                      
  PHY93_02460|PHY93_02460  92 ekirehhvsglasvisqlpsvrkY 115
                              555555555555555555555550 PP

>> PRK  Phosphoribulokinase / Uridine kinase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0   7.4e-06    0.0041       1      49 [.      11      57 ..      11     133 .. 0.85
   2 ?   -1.5   0.0       3.1   1.8e+03     135     177 ..     149     194 ..     144     208 .. 0.52

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 7.4e-06
                      PRK  1 vIgvagsSGaGkttvarklekifgrekvkaaeiegdsflrldraekdle 49
                             vI++ g+SG+Gk+t+a++l  +++   +   ++ +   l ++  ek+++
  PHY93_02460|PHY93_02460 11 VIAIDGPSGSGKSTIAKELARALNVLYID--TGAMFRALAYVANEKKIN 57
                             8**********************965555..444555555555555555 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 3.1
                      PRK 135 yvdisidlelarklq..RDiaeRGrsleavldsil.rrkpdyvnyi 177
                              ++ +s+d++ ar+l+  R   +   +l ++ + +  r   d ++ +
  PHY93_02460|PHY93_02460 149 FITASVDIRAARRLKqlRENGDGKITLTQIAEDVRlRDETDMNRSV 194
                              5666666676666652222222223444454444434444455555 PP

>> APS_kinase  Adenylylsulphate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   3.1e-05     0.017       3      28 ..      10      35 ..       8      43 .. 0.88
   2 ?   -0.2   0.0       1.4   8.1e+02     101     130 ..     144     172 ..     130     181 .. 0.76

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 3.1e-05
                             EEEEEESSTTSSHHHHHHHHHHHHHH CS
               APS_kinase  3 vvvwltGlsgsGKstianalekkLve 28
                              v+ + G sgsGKstia++l+++L+ 
  PHY93_02460|PHY93_02460 10 KVIAIDGPSGSGKSTIAKELARALNV 35
                             588999****************9975 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 1.4
                              EEEEEEEE--HHHHHHHTTTSHHHHHHTTS CS
               APS_kinase 101 kfievfvdtplevceerDpkglYkkareGe 130
                              +f + f+ ++++++++r  k+l +++ +G+
  PHY93_02460|PHY93_02460 144 SFSKFFITASVDIRAARRLKQLRENG-DGK 172
                              699999*******9999999996654.455 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   1.5e-05    0.0084      25      49 ..      10      34 ..       3     153 .. 0.90

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 1.5e-05
                   AAA_16 25 elvllsGesGvGKsslvrellrale 49
                              ++ + G+sG+GKs++++el+ral+
  PHY93_02460|PHY93_02460 10 KVIAIDGPSGSGKSTIAKELARALN 34
                             568899***************9876 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.0   1.7e-05    0.0097       2      33 ..      11      42 ..      10      81 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 1.7e-05
                             CEEEEC-TTTCHHHHHHHHHHHHCTS-SCCCC CS
                    NACHT  2 lvilqGeaGsGKTtLlqklalawaegklpqga 33
                             ++++ G++GsGK+t +++la+a+   + + ga
  PHY93_02460|PHY93_02460 11 VIAIDGPSGSGKSTIAKELARALNVLYIDTGA 42
                             799*******************9887777766 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   2.6e-05     0.014       2      23 ..      13      34 ..      12      63 .. 0.87

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 2.6e-05
             RNA_helicase  2 wlyGpsgeGKStlakeLakall 23
                              + Gpsg GKSt+akeLa+al 
  PHY93_02460|PHY93_02460 13 AIDGPSGSGKSTIAKELARALN 34
                             688****************997 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   3.3e-05     0.019       5      28 ..      16      39 ..      12     119 .. 0.66

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 3.3e-05
                             SSTTSSHHHHHHHHHHHHTHEEEE CS
                      AAA  5 GppGtGKTllakavakelgvefle 28
                             Gp G GK+++ak +a+ l+v ++ 
  PHY93_02460|PHY93_02460 16 GPSGSGKSTIAKELARALNVLYID 39
                             9****************9765332 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   3.1e-05     0.017      46      75 ..      10      39 ..       2      63 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 3.1e-05
                    Rad17 46 riLLisGPsGCgkstvvkvLskelgiklre 75
                             +++ i GPsG gkst+ k+L++ l + +++
  PHY93_02460|PHY93_02460 10 KVIAIDGPSGSGKSTIAKELARALNVLYID 39
                             58899*****************99887765 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0   4.8e-05     0.027       6      24 ..      16      34 ..      12      60 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 4.8e-05
                             --SSSSHHHHHHHGGGGBS CS
                    AAA_5  6 GppGtgKselaerlaaaln 24
                             Gp+G+gKs++a++la+aln
  PHY93_02460|PHY93_02460 16 GPSGSGKSTIAKELARALN 34
                             *****************97 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   6.4e-05     0.036       3      37 ..      10      39 ..       9      83 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 6.4e-05
                   AAA_14  3 kilvitGaRrvGKTtllkqlikellvkkesilyin 37
                             k+++i G+  +GK+t++k+l++ l      +lyi+
  PHY93_02460|PHY93_02460 10 KVIAIDGPSGSGKSTIAKELARALN-----VLYID 39
                             799******************8776.....66665 PP

>> CobU  Cobinamide kinase / cobinamide phosphate guanyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   8.5e-05     0.048       3      34 ..      14      43 ..      12      53 .. 0.88
   2 ?   -2.1   0.0       4.4   2.4e+03      62      89 ..     189     217 ..     182     227 .. 0.61

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 8.5e-05
                     CobU  3 vtGgarSGKSefAeklaeeskekvvYiATaea 34
                             + G++ SGKS++A++la++   +v+Yi T+  
  PHY93_02460|PHY93_02460 14 IDGPSGSGKSTIAKELARA--LNVLYIDTGAM 43
                             78**************995..69****99876 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 4.4
                     CobU  62 dlaealkeeek.kevvLvDcltlwltnll 89 
                              d+++ ++  +k ++++L+D  +l ++ ++
  PHY93_02460|PHY93_02460 189 DMNRSVAPLKKaDDAMLLDTSSLNMNDIV 217
                              55555555444467788887666665554 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   8.5e-05     0.048      24      38 ..      11      25 ..       4      33 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 8.5e-05
                   AAA_29 24 atlltGpsGsGKSTl 38
                             ++ + GpsGsGKST+
  PHY93_02460|PHY93_02460 11 VIAIDGPSGSGKSTI 25
                             56899*********8 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   0.00017     0.097       2      24 ..      12      35 ..      11      63 .. 0.84
   2 ?   -0.8   0.0       2.9   1.6e+03      44      83 ..     163     211 ..     133     213 .. 0.63

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 0.00017
                   AAA_28  2 ivitGgestGKTtlleaLaar.gy 24
                             i+i G++++GK+t++++La+  ++
  PHY93_02460|PHY93_02460 12 IAIDGPSGSGKSTIAKELARAlNV 35
                             8999***************86454 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 2.9
                   AAA_28  44 dalpwv.edllafaervleeqleeeaaa........aankvlfcDrgll 83 
                              ++l++  + ++ + +  ++ +l++e++         +a++ +++D+++l
  PHY93_02460|PHY93_02460 163 KQLRENgDGKITLTQIAEDVRLRDETDMnrsvaplkKADDAMLLDTSSL 211
                              4444444555555555555556665444444455557788888888877 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   5.2e-05     0.029      21      44 ..      10      33 ..       3     146 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 5.2e-05
                             EEEEEEESTTSSHHHHHHHHCCSH CS
                   NB-ARC 21 lvvalvGmgGvGKttlakqilnks 44
                              v+a+ G  G+GK+t+ak+  + +
  PHY93_02460|PHY93_02460 10 KVIAIDGPSGSGKSTIAKELARAL 33
                             59****************988764 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   0.00013     0.074      19      45 ..       9      35 ..       3      54 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 0.00013
                             TEEEEEEESTTSSHHHHHHHHHHHTT- CS
                     TsaE 19 gdvilLeGdLGaGKTtlvrglakalgv 45
                             ++vi+++G+ G+GK+t++++la+al+v
  PHY93_02460|PHY93_02460  9 AKVIAIDGPSGSGKSTIAKELARALNV 35
                             469*********************987 PP

>> dNK  Deoxynucleoside kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0    0.0001     0.056       1      24 [.      12      35 ..      12      69 .. 0.92

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 0.0001
                             EEEEESTTSSHHHHHHHHHCCSTC CS
                      dNK  1 ivveGnIgaGKstlvklLskklgv 24
                             i+++G+ g+GKst++k L+++l+v
  PHY93_02460|PHY93_02460 12 IAIDGPSGSGKSTIAKELARALNV 35
                             89******************9986 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.1   0.00038      0.21      19      43 ..      10      34 ..       8      55 .. 0.87
   2 ?   -0.6   0.0       1.7   9.4e+02     133     175 ..     158     203 ..     153     221 .. 0.62

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00038
                   AAA_30 19 rvavltGpAGtGKttalkalreawe 43
                             +v ++ Gp G+GK+t+ k+l++a++
  PHY93_02460|PHY93_02460 10 KVIAIDGPSGSGKSTIAKELARALN 34
                             57899***************99875 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 1.7
                   AAA_30 133 aGgvlrdlveaagigtaeLtev...vRqke.seeraaalalregdae 175
                              a + l++l +++g g ++Lt++   vR ++ +++ + +  l++ d +
  PHY93_02460|PHY93_02460 158 AARRLKQL-RENGDGKITLTQIaedVRLRDeTDMNRSVAPLKKADDA 203
                              55667777.45777888888774445666556666666666666655 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   0.00024      0.14      49      99 ..      11      56 ..       8      65 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00024
                IstB_IS21 49 nivllGpsGvGKshlaialgveavraglsvlfvrvedLveelkrarrdgkl 99
                              i++ GpsG GKs +a  l+++     l+vl++ + ++++ l+   ++ k+
  PHY93_02460|PHY93_02460 11 VIAIDGPSGSGKSTIAKELARA-----LNVLYIDTGAMFRALAYVANEKKI 56
                             58899**********9998865.....799999999999999988887776 PP

>> Tnp_P_element  Transposase protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   0.00019       0.1      59     122 ..      28      93 ..      22     100 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00019
            Tnp_P_element  59 eiskalklryvsk....rayvylknelnyPlPglstlqrwakslelenGiledvlellklkgeqleke 122
                              e+++al++ y+ +    ra  y+ ne++  l    +l+ +++sl+++ G+ ++vl  ++++g+ l ++
  PHY93_02460|PHY93_02460  28 ELARALNVLYIDTgamfRALAYVANEKKINLTEGPALTEFLNSLKIDYGVSDSVL--IRINGQDLSEK 93 
                              677777777765433338899*********************************8..67888888765 PP

>> CoaE  Dephospho-CoA kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00029      0.16       2      38 ..      11      48 ..      10      60 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00029
                             EEEEEESTTSSHHHHHHHHHH.TT-EEEEHHHHHHHTT CS
                     CoaE  2 ivgltGgiasGKstvanlfad.lgvpivDaDlvArqvv 38
                             ++++ G  +sGKst+a+ +a  l+v  +D+ ++ r + 
  PHY93_02460|PHY93_02460 11 VIAIDGPSGSGKSTIAKELARaLNVLYIDTGAMFRALA 48
                             79999************999889******988877654 PP

>> DUF383  Domain of unknown function (DUF383)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   0.00046      0.26      46     107 ..      59     128 ..      23     136 .. 0.73
   2 ?   -2.4   0.1       5.8   3.3e+03       3      20 ..     206     223 ..     204     229 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00046
                   DUF383  46 ksvkalekLldlfvkga...........tkdlnksanydylayvfanlsqlpegRelllepqesdkelplqkl 107
                              ++ +al ++l+ +  ++            +dl+++   ++++ + + +sqlp++R++ll+ q   + l l k+
  PHY93_02460|PHY93_02460  59 TEGPALTEFLNSLKIDYgvsdsvlirinGQDLSEKIREHHVSGLASVISQLPSVRKYLLDFQ---RSLALDKV 128
                              55556666666666555555555555556666777778*********************997...45555555 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 5.8
                   DUF383   3 ldskslladlacmLLsNl 20 
                              ld++sl+ + ++ +LsN 
  PHY93_02460|PHY93_02460 206 LDTSSLNMNDIVHILSNE 223
                              688999999999999995 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.1   0.00083      0.46      20      43 ..      10      33 ..       6      35 .. 0.83
   2 ?   -1.6   0.0       5.9   3.3e+03     156     156 ..     103     103 ..      42     187 .. 0.57

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00083
                   AAA_23 20 gltlItGpNGaGKTTildAiklaL 43
                             ++ +I Gp G+GK+Ti   +  aL
  PHY93_02460|PHY93_02460 10 KVIAIDGPSGSGKSTIAKELARAL 33
                             678899**********98776665 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 5.9
                   AAA_23 156 e 156
                              +
  PHY93_02460|PHY93_02460 103 A 103
                              1 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (233 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       545  (0.0303977); expected 358.6 (0.02)
Passed bias filter:                      500  (0.0278878); expected 358.6 (0.02)
Passed Vit filter:                       114  (0.00635841); expected 17.9 (0.001)
Passed Fwd filter:                        32  (0.00178482); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              32  [number of targets reported over threshold]
# CPU time: 0.59u 0.29s 00:00:00.87 Elapsed: 00:00:00.47
# Mc/sec: 1498.32
//
Query:       PHY93_02465|PHY93_02465  [L=362]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.6e-12   45.5   0.0    1.6e-11   44.0   0.0    1.6  1  Glyco_transf_9   Glycosyltransferase family 9 (heptosyltransf
     0.0016   18.4   0.3      0.041   13.8   0.3    2.2  1  PS_pyruv_trans   Polysaccharide pyruvyl transferase
  ------ inclusion threshold ------
      0.066   12.7   0.1       0.11   12.0   0.1    1.3  1  Glyco_hydro_67C  Glycosyl hydrolase family 67 C-terminus


Domain annotation for each model (and alignments):
>> Glyco_transf_9  Glycosyltransferase family 9 (heptosyltransferase)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.0   0.0   2.6e-15   1.6e-11      27     229 ..      93     320 ..      91     335 .. 0.76

  Alignments for each domain:
  == domain 1  score: 44.0 bits;  conditional E-value: 2.6e-15
                              HHHHHTT-SEEEEE-TTT-.TTT-TEEE---TTT.--SHHHHHHHTTS-G.GGS-SS---...------HHHHHHHHHHTT..... CS
           Glyco_transf_9  27 llvralkapvriGldeesrelaslfysrkvdkak.gqhaVernraLfaqa.ldlpkpesk...pelalslkeraaaldaag..... 102
                              ++++++  ++r Gl+ +   +  l++  + +  +   h  e n++L++   +d++++e +   pe+ l ++e + + + ++     
  PHY93_02465|PHY93_02465  93 FISWFTRVKFRGGLKSRWHTYLFLNKGIRQKRSMvTMHEMEYNLNLLSPLgIDYNYKEKShysPEIHLTQDELELNYNSFKkdliq 178
                              577888889999998887756666665555555568999************99998776511155556666655555555599999 PP

                              ..--SSS-EEEEE---TTGGGS--HHHHHHHHHHHHHTT-EEEE--...-GGGH.HHHHHTTS-HHHHTT.....EEE-TT.TS-H CS
           Glyco_transf_9 103 ..llaerpyivflpgaskdaKrWpeekyaelaealqekgyqvvLfg...saeae.eeeiaeriaagleek.....avnllg.ktsL 176
                                   er++i + pg +  +  W  ++ya l+ + ++k    +Lf     ++++   + +++i +  e+      ++   g k  L
  PHY93_02465|PHY93_02465 179 egIDPERKMIFIHPGMTGHTLNWSSRNYARLVLKFEQKFPDKYLFVishTPSDHfFLQGLREILNRKENIflknrIYYFNGqKEGL 264
                              99999********************************975555553111445557444444444444433565666666663789* PP

                              HHHHHHHHTSSEEEEESSHHHHHHHHTT--EEEEESS...S-TTSS----TTEEEE CS
           Glyco_transf_9 177 eelaallakadlvvgnDSGlmHlAaAldrpviaLYgp...tdpkrtgplsksativ 229
                                 + +l +a+++vg+ +G +H+Aa l+ pv+++Y p    +  r+gpl+k++  v
  PHY93_02465|PHY93_02465 265 RHYMSILTRAAVFVGPSTGTTHIAAVLEVPVVSIYSPikiQSSLRWGPLAKNKDKV 320
                              ************************************93334567899999988665 PP

>> PS_pyruv_trans  Polysaccharide pyruvyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.8   0.3   6.9e-06     0.041       2     132 ..      11     249 ..      10     250 .. 0.73

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 6.9e-06
                              HHHHHHHHHHHHHHHHTT-EEEEEESSTTT--HHHHHHHHHTS-GGGEE..................................... CS
           PS_pyruv_trans   2 yGDelilealvklLrelgpdaeiivltpdpsetkkllkvktpilkklskvllkrlrkkdi.......................... 61 
                              +GD ++   ++k+L+e++p+a+++ l    s + ++ + +   +k +++++ + + k+                            
  PHY93_02465|PHY93_02465  11 IGDSILTMPMAKILKEKFPEAKVTMLIAAKSADVFKSHPYIDDFK-IYHRNARFYLKIREifrifrevkpthyfyvgggylpnfis 95 
                              7**************************666666555444433333.3333333333333358899998888888888888888888 PP

                              ...................................................................................... CS
           PS_pyruv_trans  62 ...................................................................................... 61 
                                                                                                                    
  PHY93_02465|PHY93_02465  96 wftrvkfrgglksrwhtylflnkgirqkrsmvtmhemeynlnllsplgidynykekshyspeihltqdelelnynsfkkdliqegi 181
                              88888888888888888888888888888888888888888888888888888888888888888888888888888888888888 PP

                              ......EEE--E....EEEETT-HHHHHHHHHHHHHS-SSEEEE-SEEE..-S-HHHHHHHHHHHHHTTEEE CS
           PS_pyruv_trans  62 .ddaddviivGgdgtlgndgdlsrlpdalrllflakkagkpviilgqgiGpflnealrkllkkilakadlis 132
                                +   ++i+ g +t + +++ sr +++l l+f  k+++k +++++++    +++++++ l++il++ + i+
  PHY93_02465|PHY93_02465 182 dPERKMIFIHPG-MTGHTLNWSSRNYARLVLKFEQKFPDKYLFVISHTP---SDHFFLQGLREILNRKENIF 249
                              744444444444.344444444444477888888888888888888888...77888888888888777666 PP

>> Glyco_hydro_67C  Glycosyl hydrolase family 67 C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.1   1.8e-05      0.11      33      93 ..     112     174 ..      98     242 .. 0.65

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 1.8e-05
                              HHHT---HHHHHHHHHHHHHHHHHHHHTT--TT----B-TTT-SSB-T...--SSSGGGSSHH- CS
          Glyco_hydro_67C  33 rltfskdeevvetvkellleSreayvnYtaplGlhhlvkaghHygpep...dkaersdwgtyhr 93 
                              +  f  ++ + ++ + ++++  e   n  +plG+ + +k ++Hy pe+   +++ + +++++++
  PHY93_02465|PHY93_02465 112 TYLF-LNKGIRQKRSMVTMHEMEYNLNLLSPLGIDYNYKEKSHYSPEIhltQDELELNYNSFKK 174
                              4444.34456777788899999999***********************5432333344444443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (362 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       427  (0.0238162); expected 358.6 (0.02)
Passed bias filter:                      353  (0.0196888); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.44
# Mc/sec: 2450.44
//
Query:       PHY93_02470|PHY93_02470  [L=338]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.4e-35  122.3   0.0    2.9e-35  122.0   0.0    1.0  1  PfkB          pfkB family carbohydrate kinase
    0.00022   20.7   0.0     0.0004   19.8   0.0    1.4  1  Phos_pyr_kin  Phosphomethylpyrimidine kinase


Domain annotation for each model (and alignments):
>> PfkB  pfkB family carbohydrate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  122.0   0.0   3.3e-39   2.9e-35      37     297 ..      61     321 ..      22     326 .. 0.88

  Alignments for each domain:
  == domain 1  score: 122.0 bits;  conditional E-value: 3.3e-39
                              SHHHHHHHHHHHTT-EEEEEEEEESSHHHHHHHHHHHHTTEEETTEEEESSSEEEEEEEEETTTSEEEEEEEEGGGGGHHHHHHH. CS
                     PfkB  37 GagaNvAvalarlgadvafigavGdDnfGeflleelkkegvdtdyvkidedtrtglalivvdedgertivfnrgaaadltkeele. 121
                              G +aN+ ++l  lg++++++g+vG Dn +  + ++l++e+++t ++++++  +t  +  v++++  ++i+  + +++d+ + e e 
  PHY93_02470|PHY93_02470  61 GLAANISHNLRTLGVKSTLCGVVGEDNNANLFDNLLEDEKLNTWGIVRTKLRPTIFKERVTTNT--QQICRIDYESSDYIDVETEq 144
                              7789**********************************************************85..77877777788777766666 PP

                              ....HHHHHHGCTSEEEEESEECTTSHHHHHHHHHHHHHHTTEEEEEECESSSHHHHHHHHHHHCTESEEEEEHHHHHHHHTSCTH CS
                     PfkB 122 ....ededlleeadllyisgllsselpeavleelaeaaknggtfdpnlldplgaqfkeallellaladllkpneeElealtgekle 203
                                     + l+  + l i+      l + + ++l++  k++g  +++ +dp  +    +   +  +a+llkpn +E+++++++ + 
  PHY93_02470|PHY93_02470 145 killRISEFLKTHQALIIEDYAKGTLTKNLIATLISEFKSSG--KLVAVDPGRS----TPPLYYKGATLLKPNLSEARIMVESLGY 224
                              777888899999999999999999999999999999999***..9******996....6778889********************9 PP

                              SHHHHHHHHHHHHHTTS.SEEEEEEGGGEEEEEE..TTEEEEEEE.SSSS-SBGTTHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH CS
                     PfkB 204 dieealaalhklkakga.ktvvvtlGkeGalvve..kdgelkvpavpkvkvvDttGAGDsfvggflaallegksleealrfanavA 286
                               ++++ + ++ l+ k   +++v+tlG+eG+++ +  ++ +lk+ +  +++v D+ GAGD+ ++ +++all+g++leea+ ++n ++
  PHY93_02470|PHY93_02470 225 KEKKLENIAKILVDKLDlQMLVITLGAEGMALLDikTQPVLKIIPTVANEVFDVSGAGDTAISVLTSALLSGATLEEAAWIGNCAS 310
                              99********************************98777888888899************************************** PP

                              HHHHTSSSSST CS
                     PfkB 287 alvvqkkgaia 297
                               +vv kkg+++
  PHY93_02470|PHY93_02470 311 GVVVGKKGTAT 321
                              *********97 PP

>> Phos_pyr_kin  Phosphomethylpyrimidine kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.8   0.0   4.4e-08    0.0004     118     221 ..     203     303 ..     171     308 .. 0.83

  Alignments for each domain:
  == domain 1  score: 19.8 bits;  conditional E-value: 4.4e-08
                              GG-SEEE-BHHHHHHHHT---SSHHHHHHHHHHHHH.TT-SEEEEEEGGS-SSSEEEEEEEETSSEEEEEEEE----S--BTHHHH CS
             Phos_pyr_kin 118 platvitPNlpEaeaLlgekikteedmkeaakkllk.lgakaVlikGghlegeeavvtdvlydgeeveeleaerietknthGtGCt 202
                              + at++ PNl Ea+ ++++   +e+++++ ak l++ l  ++ +i+ g    e   + d+  +    +++++   e  +  G+G+t
  PHY93_02470|PHY93_02470 203 KGATLLKPNLSEARIMVESLGYKEKKLENIAKILVDkLDLQMLVITLGA---EGMALLDIKTQP-VLKIIPTVANEVFDVSGAGDT 284
                              679***************9999**************8999999999997...455656776633.34445555555556******* PP

                              HHHHHHHHHHCTSSHHHHH CS
             Phos_pyr_kin 203 lssaiaaelakgesleeAv 221
                                s++++ l  g +leeA 
  PHY93_02470|PHY93_02470 285 AISVLTSALLSGATLEEAA 303
                              *****************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (338 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       616  (0.0343577); expected 358.6 (0.02)
Passed bias filter:                      494  (0.0275531); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.25s 00:00:00.82 Elapsed: 00:00:00.45
# Mc/sec: 2273.82
//
Query:       PHY93_02475|PHY93_02475  [L=355]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.9e-91  305.3   0.0    3.5e-91  305.0   0.0    1.1  1  tRNA-synt_2d     tRNA synthetases class II core domain (F)
    2.6e-15   56.1   1.2    4.1e-15   55.5   0.7    1.6  1  Phe_tRNA-synt_N  Aminoacyl tRNA synthetase class II, N-termin
     0.0063   15.6   0.2        1.6    7.8   0.0    2.3  2  tRNA-synt_2      tRNA synthetases class II (D, K and N)


Domain annotation for each model (and alignments):
>> tRNA-synt_2d  tRNA synthetases class II core domain (F)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  305.0   0.0   5.8e-95   3.5e-91       8     245 .]     102     354 ..      91     354 .. 0.96

  Alignments for each domain:
  == domain 1  score: 305.0 bits;  conditional E-value: 5.8e-95
                              TSCTSHSB-SHHHHHHHHHHHHHHCTTCEESSTTSEEEHHHHTSTTTSTTTSHHHCHTTSEBTCTSSS-.....ECESEEE-SSTH CS
             tRNA-synt_2d   8 gkrieagklhpltkvleeikeiflelgfeevegpevesefynfdaLnvpqdhpaRdmqdtFylkkpeka.....veekllLRthtt 88 
                               k i++g+ hp t v++ei++ifl++gf +++gp++e+ef+nf+aLn+p dhpaRdmqdtF++++p+++     + +k+lLR+ht+
  PHY93_02475|PHY93_02475 102 VKTIKHGGFHPRTLVQQEIEDIFLSMGFDVLDGPHIEDEFHNFEALNIPADHPARDMQDTFWFHDPHDEeakdkTGKKRLLRSHTS 187
                              7899***********************************************************9998887777777899******* PP

                              HHHHHHHTTS-SSEEEEEEEEEEBSST-SSSB-SEEEEEEEEEEETT--HHHHHHHHHHHHHHHCTSTEEEEEEECEETTEEEEEE CS
             tRNA-synt_2d  89 avqirtlekkkppikiisigrvfRrdavDathlaeFhqveglvvdenvsladlkgvleellkklfgaevkvrfrpsyfpftePsae 174
                              ++q+r +  +kpp+++i++g vfR++ +Da+h+++F+q+eg+++++++s+a+l+ +++++l ++f ++v+vr+rp yfpf+eP++e
  PHY93_02475|PHY93_02475 188 TIQVRGMLGRKPPFRFIAPGIVFRSERTDASHEMVFTQLEGMMIGKDISVANLIYFMKTILAEIFKKDVEVRLRPGYFPFVEPGFE 273
                              ************************************************************************************** PP

                              EEEEE.........CCSSSSEEEEEEEEEE-HHHHHHTT-..TTSEEEEEEEEHHHHHHHHHT-SSGHHHHTT.HHHHGGG CS
             tRNA-synt_2d 175 vdvyl.........vekkkkwlEllgaGmvrpevleavgid.eevsgfafGlGveRlamlkygieDiRelvendlrflrqf 245
                              +d+ +         v+k+ +w+Ell +Gmv+p+vl+a gid + ++gfafGlG++Rl m+kygi+DiR+l + dlrf +qf
  PHY93_02475|PHY93_02475 274 LDIRClicsgtgcsVCKQIGWVELLPCGMVHPNVLKAGGIDsDVYNGFAFGLGLDRLVMMKYGIDDIRHLQSGDLRFNSQF 354
                              *****************************************99**********************************9986 PP

>> Phe_tRNA-synt_N  Aminoacyl tRNA synthetase class II, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.5   0.7   6.8e-19   4.1e-15       4      69 .]      22      87 ..      19      87 .. 0.95

  Alignments for each domain:
  == domain 1  score: 55.5 bits;  conditional E-value: 6.8e-19
                             CCCCCCHHHHHCCCCCCCCCCCTTTTCCCCTTTHHHHCCHHHHCCCCCCCCCHHHCCHCCHHHHHC CS
          Phe_tRNA-synt_N  4 eeLeelRvkyLGkkGeltellkelgklppeeRkeaGkliNelKqeieealeerkeeleaaeleakl 69
                             +e+ +l+ +y Gk+G ++e+lk+l+++ ++eRk++G ++NelK++i+++     +++e  e+++kl
  PHY93_02475|PHY93_02475 22 AEVLNLKSEYVGKNGAVSEILKSLKDMNADERKAFGPKANELKDFIQDQSTIHLSKIEVLEINKKL 87
                             67789********************************************************99997 PP

>> tRNA-synt_2  tRNA synthetases class II (D, K and N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.8   0.0   0.00026       1.6     100     144 ..     209     254 ..     204     261 .. 0.87
   2 !    5.5   0.0    0.0013       7.5     287     307 ..     323     343 ..     319     345 .. 0.91

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.00026
                              EE--S--BTTB-S-CEEEEEEEE..ET-SCHHHHHHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxx RF
              tRNA-synt_2 100 aFRaEdsrtdrhlaEFtqieaem..sfieeedimqvleelikslvke 144
                              +FR E+ ++++++  Ftq+e  m  + i+  +++ +++ ++ +++k+
  PHY93_02475|PHY93_02475 209 VFRSERTDASHEM-VFTQLEGMMigKDISVANLIYFMKTILAEIFKK 254
                              7************.******999667788888999999999999987 PP

  == domain 2  score: 5.5 bits;  conditional E-value: 0.0013
                              EEEEHHHHHHHHCT-SSGGGC CS
                              xxxxxxxxxxxxxxxxxxxxx RF
              tRNA-synt_2 287 lglGldRlvmlllgsesIrdv 307
                              +glGldRlvm+  g ++Ir +
  PHY93_02475|PHY93_02475 323 FGLGLDRLVMMKYGIDDIRHL 343
                              799***************976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (355 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       525  (0.0292822); expected 358.6 (0.02)
Passed bias filter:                      423  (0.0235931); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.58u 0.26s 00:00:00.84 Elapsed: 00:00:00.48
# Mc/sec: 2241.16
//
Query:       PHY93_05935|PHY93_05935  [L=642]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   4.2e-254  844.3  14.7   4.8e-254  844.1  14.7    1.0  1  HSP70     Hsp70 protein
    2.9e-15   55.9   2.5    2.3e-13   49.7   0.3    2.6  2  MreB_Mbl  MreB/Mbl protein
     0.0012   19.2   4.8        2.1    8.8   0.3    3.9  3  FtsA      Cell division protein FtsA
  ------ inclusion threshold ------
      0.057   13.3   0.2        0.2   11.5   0.1    1.9  2  DP        Transcription factor DP
        2.8    7.1   7.6       0.76    9.0   3.6    1.9  2  ISG65-75  Invariant surface glycoprotein


Domain annotation for each model (and alignments):
>> HSP70  Hsp70 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  844.1  14.7  1.3e-257  4.8e-254       1     599 []       4     600 ..       4     600 .. 0.99

  Alignments for each domain:
  == domain 1  score: 844.1 bits;  conditional E-value: 1.3e-257
                              EEEEEEXSSEEEEEEEETTEEEEEXXTTSXSSEESEEEEXTT.SEEETHHHHHCTTTTGGGEEEXGGGTTTXBTTSHHHHHHHTTX CS
                    HSP70   1 viGiDLGttnsvvavmeggkievianeegnrttPsvvaFtkk.erlvGeaAkrqavtnpkntvfsvKrliGrkfsdpevqkeikel 85 
                              +iGiDLGttns+vav+e+g+ +vian+eg+ ttPs+v+F+++ e lvG++Akrq vtnpk+t+f +KrliGrk + pev k ++  
  PHY93_05935|PHY93_05935   4 IIGIDLGTTNSCVAVLENGTYKVIANAEGHNTTPSIVGFANNgEILVGQVAKRQSVTNPKKTLFGIKRLIGRKADAPEVRKFKEVA 89 
                              69************************************************************************************ PP

                              SSEEEEETTSBEEEEEEETTEEEEHHHHHHHHHHHHHHHHHHHHTSBEEEEEEEEXTTXXHHHHHHHHHHHHHTTXEEEEEEEHHH CS
                    HSP70  86 pykvvkkengkavveveaagekftpeqisamvLkklketaeaylgkkvtdavitvPaYfndaqRqatkdAgkiAGLnvlRivNepT 171
                              p+++ +++ng+a+v+v+   ++++p++isa++L+klk+ ae+ylg++vt+avitvPaYfndaqRqatkdAg+iAGL+v Ri+NepT
  PHY93_05935|PHY93_05935  90 PFEIIANKNGDAWVKVD--TKEMSPQEISARILEKLKKAAEDYLGQPVTEAVITVPAYFNDAQRQATKDAGRIAGLDVKRIINEPT 173
                              *****************..78***************************************************************** PP

                              HHHHHHHTCCSSSCEEEEEEEEXSSXEEEEEEEEE.TTEEEEEEEEEETTXSHHHHHHHHHHHHHHHHHHHHSXXGGGSHHHHHHH CS
                    HSP70 172 AaalaYGldkkdkernvlvyDlGggtfdvSilele.kGvfevkaTagDthlGGedfDealvehlveefkkkegidlskdkkalqrl 256
                              AaalaYGld+k+ ++n++v+DlGggtfd+Sile+  +GvfevkaT+gDt lGGedfD +++++l+eefkk++gi+l++d++alqrl
  PHY93_05935|PHY93_05935 174 AAALAYGLDSKK-DQNIAVFDLGGGTFDISILEITsDGVFEVKATNGDTFLGGEDFDYRIINYLAEEFKKETGIELKNDTMALQRL 258
                              **********98.********************9659************************************************* PP

                              HHHHHHHHHHTTTSSCSEEEEEEEEEETTT.EEEEEEEEHHHHHHHHHHHHHHTHHHHHHHHHHCTEEGGGCSEEEEESGGGGSHH CS
                    HSP70 257 keaaekaKkeLSsskqteinleietvdedg.kdlseklsRakfeelvedllertlepvekalkdaklkkeeidevvlvGGstRiPk 341
                              keaaekaK eLS+++qte+nl+++t+d++g k+l+++++Rakfe+l+ dl+++++ p++ ++kd++l+ +ei+evvlvGGs RiP 
  PHY93_05935|PHY93_05935 259 KEAAEKAKHELSNVSQTEVNLPFITADATGpKHLNVNITRAKFEQLIGDLIDKLIVPCTTCIKDSGLSLKEIHEVVLVGGSIRIPL 344
                              ************************************************************************************** PP

                              HHHHHHHHTTCHHBSSSHTTTHHHHHHHHHHHHHCTCGCSHCCEEEEBESS-EEEEETTTEEEEEESTTCBSSEEEEEEEEESSTT CS
                    HSP70 342 vqelvkelfgkepsktvnpDeavaiGAAvqagvlsgeeevkdllllDvtpLslgietlggvmtkliernttiptkksqvfstaadn 427
                              vq++vke+fgkepsk+vnpDe+va GAA+q+gvlsg  +vkd+lllDvtpLslgietlggv tk+ie+nttiptkksqvfsta+dn
  PHY93_05935|PHY93_05935 345 VQQKVKEIFGKEPSKGVNPDEVVAAGAAIQGGVLSG--DVKDVLLLDVTPLSLGIETLGGVSTKIIEKNTTIPTKKSQVFSTAQDN 428
                              ************************************..************************************************ PP

                              SSSEEEEEEESSSSBGGGSEEEEEEEEECESSCSTTCSEEEEEEEEETTSCEEEEEEETTTCCEEEEEEECCSSSBHHHHHHHHHH CS
                    HSP70 428 qtaveievlqgerelvkdnkllgsfeldgippaprGvpqieVtfdidanGiltvsakdketgkeeeitieaseglseeeiekmvkd 513
                              q+av+i+vlqgere++kdnk+lg+f+l+gi paprGvpq+eVtfdidanGi++vsa+dk+tgk++ei+i+  +glseeei++mv+d
  PHY93_05935|PHY93_05935 429 QPAVSIHVLQGEREFAKDNKTLGKFDLSGIAPAPRGVPQVEVTFDIDANGIVHVSATDKATGKSQEIKITGGSGLSEEEIKRMVQD 514
                              ************************************************************************************** PP

                              HHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGSTHHHHHHHHHHHHHHHCHTTSSCHHHHHHHHHHHHHHHHHHHHHHHH CS
                    HSP70 514 aeesaeedkkkkeaieakneaeelvyslekkleeeaekvseaekekvesaieeLkeeleeeekeeieakteelkkvvekiaeklye 599
                              ae ++++d ++++ +++kn+++ l+  +ek +++ + k+s ++k+++e+a+ e k++l+ e+ +e++a++e+l++v++k+ +++y+
  PHY93_05935|PHY93_05935 515 AELNRTADLERRQIVDTKNNLDGLIFATEKMIKDGEGKISGQSKAELEAAVVEAKTKLNIENLDELKAAVERLQNVSHKVSTEMYQ 600
                              **********************************************************************************9996 PP

>> MreB_Mbl  MreB/Mbl protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.5   0.1    0.0018       6.5       3      22 ..       4      23 ..       2      65 .. 0.63
   2 !   49.7   0.3   6.5e-17   2.3e-13      76     316 ..     118     372 ..     110     377 .. 0.70

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.0018
                             EEEEEE-SSEEEEEETTTEE CS
                 MreB_Mbl  3 dlgiDLGtantlvyvkgkgi 22
                              +giDLGt+n  v v ++g 
  PHY93_05935|PHY93_05935  4 IIGIDLGTTNSCVAVLENGT 23
                             69***********9988884 PP

  == domain 2  score: 49.7 bits;  conditional E-value: 6.5e-17
                              HHHHHHHHHHHTSS-SS--EEEEEE-SS--HHHHHHHHHHHHHTT-SEEEEEEHHHHHHHHTT--TTSSS-EEEEEE-SS-EEEEE CS
                 MreB_Mbl  76 ellkyfikkvkkkkslskprvvicvPsgiteverrAvkeaakkaGarevllieeplaAAiGaglpveepsgnmvvdiGggttevav 161
                              ++l+++ k +++    + ++ vi+vP   ++ +r+A k+a + aG +   +i+ep aAA+  gl+ ++ +   v d+Gggt ++++
  PHY93_05935|PHY93_05935 118 RILEKLKKAAEDYLGQPVTEAVITVPAYFNDAQRQATKDAGRIAGLDVKRIINEPTAAALAYGLDSKKDQNIAVFDLGGGTFDISI 203
                              555555555555555677889***************************************************************** PP

                              ..EETTEEEEEEEES....-SHHHHHHHHHHHHHHHHSEE--HHHHHH..HHHHH-BSS--HHHH.....EEEEE....EEETTTT CS
                 MreB_Mbl 162 ..islggivtsksvr....vaGdeldeaiikyirkkynlliGertaek..ikieigsavkeeeee.....kmeik....Grdlvtg 230
                                i+  g+ + k+      ++G+++d  ii+y+ ++++   G +  ++    +++ +a++++++e     ++e++      d +  
  PHY93_05935|PHY93_05935 204 leITSDGVFEVKATNgdtfLGGEDFDYRIINYLAEEFKKETGIELKNDtmALQRLKEAAEKAKHElsnvsQTEVNlpfiTADATGP 289
                              44456788777765444448***************999888765332200112222222222222111233333311102333333 PP

                              CEEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHTS-HHHHHHHHHH-EEEESGGGGSBTHHHHHHHHHSS-EEE-SSTTTHHHHHHH CS
                 MreB_Mbl 231 lpkevevsseevrealkepvsaiveavkevLektppeLaadivdrgivltGGgallkgldkllseetglpvkvaedpltcvakGtg 316
                                 +v+++ ++ ++ + + + +++   ++ +++    L  +i    +vl+GG+  +  +++ ++e +g + + + +p ++va G++
  PHY93_05935|PHY93_05935 290 KHLNVNITRAKFEQLIGDLIDKLIVPCTTCIKDSGLSLK-EIH--EVVLVGGSIRIPLVQQKVKEIFGKEPSKGVNPDEVVAAGAA 372
                              333566677777788888888887777777777766664.444..47888888888888888888888888888888888888875 PP

>> FtsA  Cell division protein FtsA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.8   0.3   0.00057       2.1       1      34 [.       5      36 ..       5     153 .. 0.74
   2 !    8.5   0.0   0.00075       2.7       1      71 [.     190     323 ..     190     374 .. 0.53
   3 ?    1.1   0.1      0.15   5.2e+02      44      71 ..     488     559 ..     455     604 .. 0.57

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.00057
                             EEEEE-SSSEEEEEEETTEEEEEEEES-.-HHHHH CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxx RF
                     FtsA  1 alvDiGagktdvavaedgalvhlrvigv.ggngit 34
                             +++D+G++ ++vav+e+g    ++vi   +g++ t
  PHY93_05935|PHY93_05935  5 IGIDLGTTNSCVAVLENG---TYKVIANaEGHNTT 36
                             58***************9...45555433555444 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.00075
                              EEEEE-SSSEEEEEEETTEEEE..................EEEES-........-HHHHHHHHHHHHT--HHHHHHHHHHH--S-- CS
                              xxxxxxxxxxxxxxxxxxxxxx..................xxxxxx........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     FtsA   1 alvDiGagktdvavaedgalvh..................lrvigv........ggngitkdiakalrtaveeAerikikyGsala 60 
                              a+ D+G+g+ d++++e  +                     +r+i++         g  +++d++ al+   e+Ae+ k++  ++++
  PHY93_05935|PHY93_05935 190 AVFDLGGGTFDISILEITSDGVfevkatngdtflggedfdYRIINYlaeefkkeTGIELKNDTM-ALQRLKEAAEKAKHELSNVSQ 274
                              578*************987444334456666666667777777777333333333333333333.444444444444433333222 PP

                              ..EEEEEHHHHH............................................G CS
                              ..xxxxxxxxxx............................................x RF
                     FtsA  61 ..ekeigrkels............................................g 71 
                                         +                                            +
  PHY93_05935|PHY93_05935 275 teV--------NlpfitadatgpkhlnvnitrakfeqligdlidklivpcttcikdS 323
                              330........2333334444444443444444444555555555555555555551 PP

  == domain 3  score: 1.1 bits;  conditional E-value: 0.15
                              -HHHHHHHHHHH--S--EEEEEHHHHH.............................................G CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxx.............................................x RF
                     FtsA  44 aveeAerikikyGsalaekeigrkels.............................................g 71 
                              a  + ++iki+ Gs l+e+ei+ ++++                                              
  PHY93_05935|PHY93_05935 488 ATGKSQEIKITGGSGLSEEEIK-RMVQdaelnrtadlerrqivdtknnldglifatekmikdgegkisgqskA 559
                              5555566666666666633333.23333444455555566666844444444444444444444444444330 PP

>> DP  Transcription factor DP
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0       1.4   4.9e+03      24      60 ..     107     143 ..     104     148 .. 0.81
   2 ?   11.5   0.1   5.7e-05       0.2      20      82 ..     241     302 ..     238     306 .. 0.87

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 1.4
                       DP  24 lqeLilqqvalknLvqrNreleekkgapsensviqLP 60 
                               +e+  q+++ + L +  +++e+  g+p +++vi+ P
  PHY93_05935|PHY93_05935 107 TKEMSPQEISARILEKLKKAAEDYLGQPVTEAVITVP 143
                              5788899999998888888888888888888888877 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 5.7e-05
                       DP  20 kkeqlqeLilqqvalknLvqrNreleekkgapsensviqLPFiivnTskktvidcsiseDkse 82 
                              kke+  eL    +al++L +  ++++++ +++s++  ++LPFi   +    + +++i   k+e
  PHY93_05935|PHY93_05935 241 KKETGIELKNDTMALQRLKEAAEKAKHELSNVSQT-EVNLPFITADATGPKHLNVNITRAKFE 302
                              7778889**************99999977777776.8*********99999999999988877 PP

>> ISG65-75  Invariant surface glycoprotein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.1      0.32   1.1e+03      97     120 ..     250     273 ..     232     289 .. 0.49
   2 ?    9.0   3.6   0.00021      0.76      65     149 ..     527     610 ..     504     618 .. 0.75

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.32
                 ISG65-75  97 daeklkkaceeAkaknkkarekak 120
                              + + + + ++eA +k+k + +++ 
  PHY93_05935|PHY93_05935 250 NDTMALQRLKEAAEKAKHELSNVS 273
                              333333333333333333333333 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.00021
                 ISG65-75  65 yienakekvdyyvekleslleeakekgtltesdaeklkkaceeAka.knkkarekakkalekaekaskkakeaakkAlGeeleeen 149
                              +i ++k+++d      e++++   ++g+++ + + +l+ a+ eAk   n ++ ++ k+a+e  +++s k+ +   +A+G++  e++
  PHY93_05935|PHY93_05935 527 QIVDTKNNLDGLIFATEKMIKD--GEGKISGQSKAELEAAVVEAKTkLNIENLDELKAAVERLQNVSHKVSTEMYQAAGAPGAEQQ 610
                              4555555555555555666665..69999999999**********93455889***************************988875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (642 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1011  (0.0563891); expected 358.6 (0.02)
Passed bias filter:                      678  (0.0378158); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.74u 0.31s 00:00:01.05 Elapsed: 00:00:00.47
# Mc/sec: 4137.50
//
Query:       PHY93_02480|PHY93_02480  [L=803]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.4e-57  192.0   0.0    1.2e-56  191.1   0.0    1.4  1  B3_4             B3/4 domain
    7.9e-30  103.9   0.0    1.3e-29  103.2   0.0    1.4  1  tRNA_synthFbeta  Phenylalanyl tRNA synthetase beta chain CLM 
    4.1e-20   71.7   0.5    9.9e-20   70.5   0.0    2.0  2  tRNA_bind        Putative tRNA binding domain
    2.5e-18   66.1   0.1    6.9e-18   64.7   0.1    1.8  1  B5               tRNA synthetase B5 domain
    2.8e-06   27.6   0.4    6.6e-06   26.5   0.4    1.6  1  FDX-ACB          Ferredoxin-fold anticodon binding domain


Domain annotation for each model (and alignments):
>> B3_4  B3/4 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  191.1   0.0   3.4e-60   1.2e-56       5     173 ..     227     395 ..     225     396 .. 0.98

  Alignments for each domain:
  == domain 1  score: 191.1 bits;  conditional E-value: 3.4e-60
                              EEEEEEES--.-----HHHHHHHHHTT-----HHHHHHHHHHHHHT--EEEEEGGGTBT.EEEEEE--TTEEEEBTTS-EEEE-TT CS
                     B3_4   5 yaarvlrgvkktapspewlqrrLrragirpinnvVDitNyvmlelgqPlhafDldkiqg.divvrlakegeklvtldgkereldee 89 
                              y++  l++++ +++spewl+ rL+++ +r+inn+VDi Nyvmlelg Plh+fD d i+g ++v+++ + +e++ tldg +r l ++
  PHY93_02480|PHY93_02480 227 YFGLSLQNIT-VKESPEWLKARLKACALRSINNIVDISNYVMLELGMPLHIFDRDLINGsEVVIKKLTVEETFKTLDGVDRLLIAG 311
                              888899****.9**********************************************99999*********************** PP

                              SEEEETEEEEEEETTTEEBTTTB--TT--EEEEEEEE--HHHHHHHHHHTT---HHHHHHHH---TTTHHHHHHHHHHHHHHHH CS
                     B3_4  90 dlviadsekpvslagvmggeeskvsedTknvfleaaafdpvsirktarrlglrseaskrfergvdpekleaaldravallselc 173
                              d viad+++ + lag+mgg++s+vse+Tkn+f+e+a+++ +++r+t+ rlglr+++s+rfe+++d +++e+ l r+++l++elc
  PHY93_02480|PHY93_02480 312 DTVIADANGTLVLAGIMGGKNSGVSESTKNIFIEVANWKAAMVRRTSTRLGLRTDSSQRFEKTLDSNLTERTLLRTLELVLELC 395
                              ***********************************************************************************9 PP

>> tRNA_synthFbeta  Phenylalanyl tRNA synthetase beta chain CLM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  103.2   0.0   3.7e-33   1.3e-29      10     213 ..     498     698 ..     489     701 .. 0.85

  Alignments for each domain:
  == domain 1  score: 103.2 bits;  conditional E-value: 3.7e-33
          tRNA_synthFbeta  10 ttegelnkeqklrrklrdllagaGl.nEvitysfvsekeldklleddderkavelanPlsedqsvlRtsLlpglLevlarNlargn 94 
                              + + +l++ qk++r++rd+++++G   Ev++y+++ e+ l+k+  + +  + ++l n ls+d+ ++R+sL+p+lLev + N+++ +
  PHY93_02480|PHY93_02480 498 IAPVKLTEMQKVQRRVRDFMVMQGKsFEVMSYPLIGESLLKKV--SWPIISSLKLVNSLSQDHDLMRPSLIPSLLEVTETNVKNYE 581
                              445569***************999747****************..568899********************************999 PP

          tRNA_synthFbeta  95 edvrlFEigkvflkdseeelpeeerhlaivltgkreeeswsekaravdfydlkgivealleslgiekvefepae...........h 169
                              +  r+FE+g+v+ +d   +  +e+ hl++v++ k+          +  f ++  ++ +ll+ l++ ++e+++ +            
  PHY93_02480|PHY93_02480 582 R-ARFFELGRVYSED-IANFSKENLHLGAVFFDKD----------KNPFLEMTNVMTNLLSGLNL-SFELTERNqkftnplvpaeW 654
                              9.*************.66799**************..........899*****************.76666533234434332216 PP

          tRNA_synthFbeta 170 palhpgrsAeikvdgkevGvlGelhpevleafdlkqrvyvfEld 213
                                 hp    +i+v gk+ G +  +hp +l+++++k++  ++ +d
  PHY93_02480|PHY93_02480 655 LGNHPFEFTNIRVMGKNCGAIFSVHPLILRNLKIKGHLTIALFD 698
                              66699999999************************976665554 PP

>> tRNA_bind  Putative tRNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.5   0.0   2.8e-23   9.9e-20       1      95 [.      46     146 ..      46     147 .. 0.94
   2 ?   -3.3   0.1       2.8   9.9e+03      34      59 ..     728     753 ..     727     759 .. 0.75

  Alignments for each domain:
  == domain 1  score: 70.5 bits;  conditional E-value: 2.8e-23
                              EEEEEEEEEEEETTSSTEEEEEEEESSSSEEEEEESCTTTST.HHHHTTEEEEEETT...SESEEETTEEESSEE-EEEC..CESS CS
                tRNA_bind   1 lrvGkvleaeehpnadkLlvlkvdvGeeeprqivsgaknvye.peelvakkvvvvan...lkpkklrGveSeGMilsaee..ldek 80 
                              ++++++ + e+hp+adkL  ++ ++ e e+r++v+ga+nv+   +   a  +v ++n   l++kk+rG+ SeGM++s ee   +e+
  PHY93_02480|PHY93_02480  46 IVIAEITSFEKHPEADKLNLVTFKISETEIRKVVCGASNVRVgMRIPYAPLGVKLPNgllLEAKKIRGILSEGMLCSEEElgFAEE 131
                              799***************************************999999*******973336777*****************99*** PP

                              CEEEEEESST--TTC CS
                tRNA_bind  81 evgilelpadveaGe 95 
                              ++g++elpad+++G+
  PHY93_02480|PHY93_02480 132 SEGLMELPADAPLGT 146
                              **************8 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 2.8
                              EESCTTTSTHHHHTTEEEEEETTSES CS
                tRNA_bind  34 vsgaknvyepeelvakkvvvvanlkp 59 
                              v+ a++ ++ e+lva k v +  l++
  PHY93_02480|PHY93_02480 728 VAMAPEKAAIEVLVAAKKVKLKELQL 753
                              56677778888999999888888776 PP

>> B5  tRNA synthetase B5 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.7   0.1   1.9e-21   6.9e-18       2      67 .]     420     486 ..     419     486 .. 0.94

  Alignments for each domain:
  == domain 1  score: 64.7 bits;  conditional E-value: 1.9e-21
                              EEEHHHHHHHHTS---HHHHHHHHHHTT-E.EESSTTCEEEE--TT-..TT--SHHHHHHHHHHHH-G CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxx RF
                       B5   2 slrvekinkllGidlseeeiikiLkrlgceriekdkdlllVtvPswR..sDlereeDliEEvaRlyGY 67 
                              + ++ ki+ +lG++l+e++ +kiL +l++ +  +++ +l VtvPs+R   D+e+e+DliEEv R++GY
  PHY93_02480|PHY93_02480 420 NTSLHKIKTVLGCELTEDRLKKILHALDFAT-VDNGSNLVVTVPSYRstKDIEQEADLIEEVGRIIGY 486
                              67899************************96.99*************655*****************9 PP

>> FDX-ACB  Ferredoxin-fold anticodon binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.5   0.4   1.8e-09   6.6e-06       1      83 [.     717     795 ..     717     801 .. 0.92

  Alignments for each domain:
  == domain 1  score: 26.5 bits;  conditional E-value: 1.8e-09
                              -SS--EEEEEEEEEESSS-HHHHHHHHHHHH-TTEEEEEEEEEEESTTS-SSEEEEEEEEEE--SSS---HHHHHHHHHHHHH CS
                  FDX-ACB   1 SkfPaverDlalvvdekveaaelleavreaagellesvqlfDvYrgkklaegkkSlalrltlqskertLtdeevnaaiekvve 83 
                              SkfP+++ D+++ +  + +a e+l a+++ + + l+ vq++D+++ ++     k +++r +l ++++tL+ e  ++a   +++
  PHY93_02480|PHY93_02480 717 SKFPSSSFDWTVAMAPEKAAIEVLVAAKKVKLKELQLVQILDIFQSEN----VKYVTIRAVLADDSATLNSELLKQAEIALID 795
                              9********************************************988....58*****************999887666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (803 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       450  (0.025099); expected 358.6 (0.02)
Passed bias filter:                      382  (0.0213063); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.71u 0.26s 00:00:00.97 Elapsed: 00:00:00.47
# Mc/sec: 5122.03
//
Query:       PHY93_20565|PHY93_20565  [L=81]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (81 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1012  (0.0564449); expected 358.6 (0.02)
Passed bias filter:                      567  (0.0316247); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.26s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 539.76
//
Query:       PHY93_20570|PHY93_20570  [L=341]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    2.8e-51  174.6   0.0    3.5e-51  174.2   0.0    1.1  1  IMPDH      IMP dehydrogenase / GMP reductase domain
    3.2e-08   33.0   0.5    8.5e-06   25.0   0.5    2.1  2  FMN_dh     FMN-dependent dehydrogenase
    0.00022   20.7   0.1    0.00028   20.4   0.1    1.2  1  NMO        Nitronate monooxygenase
  ------ inclusion threshold ------
       0.12   12.2   0.7       0.67    9.7   0.2    2.2  3  QRPTase_C  Quinolinate phosphoribosyl transferase, C-terminal


Domain annotation for each model (and alignments):
>> IMPDH  IMP dehydrogenase / GMP reductase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  174.2   0.0   7.9e-55   3.5e-51       2     326 ..      12     332 ..      11     339 .. 0.83

  Alignments for each domain:
  == domain 1  score: 174.2 bits;  conditional E-value: 7.9e-55
                              --GGGEEEE---B-S-GG.GSB--EESSTTEEESSSEEE-SSTTT-SHHHHHHHHHTTSEEEE-SSS-HHHHH..HHHHHHHTSTT CS
                              xxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxx RF
                    IMPDH   2 ltfddvllvpaksevlpk.evdlktkltkkiklniPlvsaamdtvtesemAialareGgigvihknlsieeqa..eevkkvkrspn 84 
                              l++d v l p++s + ++ ++d++ +l+   k ++P+v a+m  v + ++A  ++++    + h+  ++++ +  + +++v   + 
  PHY93_20570|PHY93_20570  12 LSYDTVTLSPRHSLLSSRsKADTTVNLC-GWKFKLPVVPANMKDVINPSIAKFFSENDYFYIYHRFGQMSDDIigSDLNTVYFVKL 96 
                              79***********999986777777777.77*********************************9876666542266777776668 PP

                              SXBXTTSXB-EEEEE-SSTTHHHHHHHHHHTT-SEEEEE-STSSSHHHHHHHHHHHHHTTTSEEEEEEE-SHHHHHHHHHTT-SEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    IMPDH  85 aakdekgrllvgaavgvkedalervkalveagvdvlvvdsahghsekvleavkeikkkveeveviaGnvataegakaLieagadav 170
                              a+k++ + + ++ +v+ ++ ++    + ++ +vd+++vd+ah+  ++v  +++ ++k++++ ++i+Gnvat+ g++ L + g+d++
  PHY93_20570|PHY93_20570  97 ANKENWKLISISTGVSKESITELMTIQALRLRVDFITVDVAHADHDNVKPTIEFVRKHFPNTKLIVGNVATYGGVTYLTKLGVDVI 182
                              88877777777777776654433333445789****************************************************** PP

                              EE-SS-STTBHHHHHCSB---HHHHHHHHHHHHCTCT.........-EEEEES---SHHHHHHHHHTT-SEEEESCCCTTBTTSSS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    IMPDH 171 kvGiGpGsiCttrvvagvGvpqltAvaevaeaakkag.........vpviaDGGikysgdivkAlaaGadavmlGsllagteEspg 247
                              kvGiG GsiCttr ++g  vp l++++++ e  +             p+iaDGG k+ gd++kAl+ Ga +vm G ++a++ +sp+
  PHY93_20570|PHY93_20570 183 KVGIGGGSICTTRYMTGFHVPTLQSLHDIEEGKEYSRgilghlptiPPIIADGGAKHYGDVAKALTFGATMVMAGGWFASCIDSPA 268
                              *****************************9977776458888888669************************************** PP

                              EEEEETTEEEEEEEETTSHHHHHH-SS-TTS-..--SS-SBEEEEEE--B-HHHHHHHHHHHHHHHHHHHT-SSHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    IMPDH 248 eviliegrkyKeyrGmgslgamkkgskdryfqkkeklvpeGvegrvpykgsvkevveqlvgglrsgmgylGaktieelk 326
                              +++   g+  K+yrG +s++ +  g+k++     e  v e veg++      ++ + ++   l+s+++y+G ++++++k
  PHY93_20570|PHY93_20570 269 KIVD--GK--KVYRGSTSYELK--GHKKNV----EGRVIELVEGTT-----YEQRLVEIKDSLQSSISYAGGSDLTSFK 332
                              9886..76..89*******999..333333....244566666654.....3455566777777888888777777765 PP

>> FMN_dh  FMN-dependent dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.4   0.0   0.00089         4      30      66 ..      14      52 ..      11     141 .. 0.76
   2 !   25.0   0.5   1.9e-09   8.5e-06     207     303 ..     147     260 ..      94     264 .. 0.80

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.00089
                             GGGEEE---..SSSS-SS-B--EEETTEEESSSEEE--B CS
                   FMN_dh 30 ferirlrpr..vlrdvskvdlsttllGqklslPvliaPv 66
                             ++ ++l pr   l + sk+d++++l G k++lPv+ a +
  PHY93_20570|PHY93_20570 14 YDTVTLSPRhsLLSSRSKADTTVNLCGWKFKLPVVPANM 52
                             77777776633699999*****************97655 PP

  == domain 2  score: 25.0 bits;  conditional E-value: 1.9e-09
                              HHHHHHHHHS.SEEEEEEE-SHHHHHHHHHTTESEEEE--GGG.....TSSTT.---HHHCHHHH.......HHHH.........S CS
                   FMN_dh 207 dikwlreqtk.lplvvKGvltaedakraveaGvdgivvSNHGG.....Rqldg.apatidvLpei.......veavgg.......r 271
                              +i+ +r++ +  +l+v  v t   +  + ++Gvd i v   GG     R + g  ++t++ L +i       +    g        
  PHY93_20570|PHY93_20570 147 TIEFVRKHFPnTKLIVGNVATYGGVTYLTKLGVDVIKVGIGGGsicttRYMTGfHVPTLQSLHDIeegkeysR----GilghlptI 228
                              7899999987579******************************99999766652678999**99966633331....233334426 PP

                              S-EEEESS--SHHHHHHHHHTT-SEEEESHHH CS
                   FMN_dh 272 ievlvDgGirrGsDvlkAlalGAdavllGRpf 303
                               ++++DgG ++  Dv+kAl  GA++v+ G  f
  PHY93_20570|PHY93_20570 229 PPIIADGGAKHYGDVAKALTFGATMVMAGGWF 260
                              89**************************9766 PP

>> NMO  Nitronate monooxygenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.4   0.1   6.4e-08   0.00028     130     241 ..     151     276 ..      88     304 .. 0.65

  Alignments for each domain:
  == domain 1  score: 20.4 bits;  conditional E-value: 6.4e-08
                      NMO 130 arlkeagvvli.ptissvkearkvearGaDalivqGpeaGGhqGtpevgd...kglfaLvpqvldavd............iPviAa 199
                               r+++ ++ li + +++   +  + ++G D++ v  + +GG + t  + +   + +++ +  + +  +             P+iA 
  PHY93_20570|PHY93_20570 151 VRKHFPNTKLIvGNVATYGGVTYLTKLGVDVIKV--GIGGGSICTTRYMTgfhVPTLQSLHDIEEGKEysrgilghlptiPPIIAD 234
                              3555555544414577777778888888885433..4567777755554434444444444444444488888888888448**** PP

                      NMO 200 GGiidrrgvaaaLalGAsgvqigtrfLltkesdakdahkkkl 241
                              GG     +va aL+ GA  v  g  f  + +s+ak +  kk+
  PHY93_20570|PHY93_20570 235 GGAKHYGDVAKALTFGATMVMAGGWFASCIDSPAKIVDGKKV 276
                              **********************************97766655 PP

>> QRPTase_C  Quinolinate phosphoribosyl transferase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.0      0.11   4.8e+02     122     146 ..      97     121 ..      81     123 .. 0.74
   2 ?    9.7   0.2   0.00015      0.67      93     156 ..     121     186 ..      94     189 .. 0.80
   3 ?   -1.7   0.0      0.48   2.2e+03      40      68 ..     234     262 ..     231     276 .. 0.72

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.11
                              HHHSTTSEEEEESS--TTTHHHHHC CS
                QRPTase_C 122 keknkrvlievSGgvtlenveeyak 146
                               +k++  li+ S gv++e+++e+  
  PHY93_20570|PHY93_20570  97 ANKENWKLISISTGVSKESITELMT 121
                              3344447899**********99876 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.00015
                              HHHHHHHT-SEEEEES--H..HHHHHHHHHHHHHSTTSEEEEESS-.-TTTHHHHHCTT-SEEEECH CS
                QRPTase_C  93 leevleaeadiimLDnfsv..eelkkaveelkeknkrvlievSGgv.tlenveeyaksgvdvisvga 156
                              + ++l  ++d i +D  ++  +++k ++e ++++ ++ ++ v G+v t   v+ + k gvdvi vg 
  PHY93_20570|PHY93_20570 121 TIQALRLRVDFITVDVAHAdhDNVKPTIEFVRKHFPNTKLIV-GNVaTYGGVTYLTKLGVDVIKVGI 186
                              45677788*******98655599*************999988.56526789************9995 PP

  == domain 3  score: -1.7 bits;  conditional E-value: 0.48
                              TTSB--TSSTTTSEEE-HHHHHHHSSHHH CS
                QRPTase_C  40 GGgdnhrlgLsdmvlikdnhiaaagsive 68 
                               Gg++h+ ++  +++   ++++a g   +
  PHY93_20570|PHY93_20570 234 DGGAKHYGDVAKALTFGATMVMAGGWFAS 262
                              58999999999998888888777665555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (341 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       380  (0.0211947); expected 358.6 (0.02)
Passed bias filter:                      335  (0.0186848); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.55u 0.26s 00:00:00.81 Elapsed: 00:00:00.45
# Mc/sec: 2288.02
//
Query:       PHY93_20575|PHY93_20575  [L=371]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.027   15.4   0.1       0.18   12.8   0.0    2.4  2  DUF551    Protein of unknown function (DUF551)


Domain annotation for each model (and alignments):
>> DUF551  Protein of unknown function (DUF551)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.1      0.62   1.1e+04      48      62 ..     137     151 ..      97     156 .. 0.56
   2 ?   12.8   0.0   9.9e-06      0.18      10      65 ..     246     303 ..     244     305 .. 0.67

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 0.62
                   DUF551  48 eysesskeekvTHWm 62 
                               +   +  + +T Wm
  PHY93_20575|PHY93_20575 137 AERVAKNQRIITKWM 151
                              222334444455555 PP

  == domain 2  score: 12.8 bits;  conditional E-value: 9.9e-06
                   DUF551  10 Peegtnvlvleaknqeqyvakfsakvteelfnddew....edeysesskeekvTHWmPLP 65 
                              P +g++vlv ++k  + + ++ + k   +++++++w    ++   + s   k+THWmPL 
  PHY93_20575|PHY93_20575 246 PPQGQTVLVKSFKGPNRIGDQIILK--LRYDGGSQWstlsDAANRSFSWKGKITHWMPLS 303
                              7777777777555555555554444..3688888888886555555556679******96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (371 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1098  (0.0612416); expected 358.6 (0.02)
Passed bias filter:                      530  (0.029561); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.61u 0.27s 00:00:00.88 Elapsed: 00:00:00.47
# Mc/sec: 2379.33
//
Query:       PHY93_20580|PHY93_20580  [L=208]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.1e-28   97.7   0.0      8e-28   97.3   0.0    1.1  1  Peptidase_S77  Prohead core protein serine protease


Domain annotation for each model (and alignments):
>> Peptidase_S77  Prohead core protein serine protease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   97.3   0.0   4.5e-32     8e-28      25     177 ..      26     174 ..      13     181 .. 0.93

  Alignments for each domain:
  == domain 1  score: 97.3 bits;  conditional E-value: 4.5e-32
                              ----EE--EEEEEEEEESSSB-TTSEE--HHHHHHHHHHHHHHTTTTT--EEEBS--SSSS--GGGEEEEEEEEEEETTEEEEEEE CS
            Peptidase_S77  25 kdlglkpglyiegifmqaevvnrnkrlypkkvlekavkdyineqvktkqalgelnhpsranvdpaeaaiiieelwwdgddvlgkai 110
                              kd  l+  l ++gi+ +a+v n+n+r ypk  l +  k+y ++ +k ++algel+hp  + v+  + +  + e+ w+gdd++g   
  PHY93_20580|PHY93_20580  26 KD--LNRRLIVKGILQRAKVKNQNGRVYPKDTLFRESKKYEENFIKERRALGELDHPESSVVNLQNVSHNVIEMHWEGDDLIGTVE 109
                              56..77889***************************************************************************** PP

                              E--SSSSHHHHHHHHHHTT---EEEEEEEE-E.EE-SSS-EEE-TT-EEEEEEEEE---XXXXXXXXX CS
            Peptidase_S77 111 vletdkgpgdklaalieagwvpgvssrglgsl.kdvdegyrivnedfkltvgvdvvwgpsapdayvkp 177
                              vl t++  g++l+ l +a    g+ssrglg++ k ++e   iv++df l +  d v  ps+  a++ p
  PHY93_20580|PHY93_20580 110 VLPTPN--GNILKELFKANIRLGISSRGLGTVnKSMNEEADIVQDDFEL-IAFDFVSNPSTRGAFMFP 174
                              *****9..***********************93468999*********9.689***********9988 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (208 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       553  (0.0308439); expected 358.6 (0.02)
Passed bias filter:                      446  (0.0248759); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.28s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1380.51
//
Query:       PHY93_20585|PHY93_20585  [L=346]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (346 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       671  (0.0374254); expected 358.6 (0.02)
Passed bias filter:                      379  (0.0211389); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.44
# Mc/sec: 2336.34
//
Query:       PHY93_20590|PHY93_20590  [L=292]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (292 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       340  (0.0189637); expected 358.6 (0.02)
Passed bias filter:                       96  (0.00535445); expected 358.6 (0.02)
Passed Vit filter:                         3  (0.000167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.46
# Mc/sec: 1915.65
//
Query:       PHY93_13920|PHY93_13920  [L=105]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-05   25.2   0.2      2e-05   24.4   0.2    1.5  1  HTH_37    Helix-turn-helix domain
      4e-05   23.6   0.3    9.1e-05   22.4   0.3    1.6  1  HTH_3     Helix-turn-helix
    0.00036   20.5   0.4    0.00063   19.7   0.4    1.5  1  HTH_19    Helix-turn-helix domain


Domain annotation for each model (and alignments):
>> HTH_37  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.4   0.2   3.4e-09     2e-05      30      78 ..      45      91 ..      26      93 .. 0.87

  Alignments for each domain:
  == domain 1  score: 24.4 bits;  conditional E-value: 3.4e-09
                             CT--HHHHHHHHT--HHHHHHHHTT--TT--HHHHHHHHHHTTEEEEEE CS
                   HTH_37 30 relsqseaaqllgiaqPkvsrllrgklsrfsldkLlnlltalGqkveiv 78
                             rel+ +    l g++qP+vs+++    +++ +++L ++++alG+kv+i 
  PHY93_13920|PHY93_13920 45 RELRGKNQTDLKGMTQPEVSKIE--ARKDLKISTLKKYAKALGMKVKIT 91
                             5666666677889**********..799*******************96 PP

>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.4   0.3   1.5e-08   9.1e-05       1      50 [.      41      86 ..      41      89 .. 0.90

  Alignments for each domain:
  == domain 1  score: 22.4 bits;  conditional E-value: 1.5e-08
                             HHHHHHHTTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTS CS
                    HTH_3  1 lkelRkqlglsqeeLAeklGvsrstisriEnGernPsletlkklakaLgv 50
                             lk  R+ +g  q++L    G+++  +s+iE  +    ++tlkk+akaLg 
  PHY93_13920|PHY93_13920 41 LKMVRELRGKNQTDL---KGMTQPEVSKIEARKD-LKISTLKKYAKALGM 86
                             7899********888...6889**********66.*************96 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.7   0.4   1.1e-07   0.00063       3      56 ..      40      88 ..      39      98 .. 0.89

  Alignments for each domain:
  == domain 1  score: 19.7 bits;  conditional E-value: 1.1e-07
                   HTH_19  3 rLkeaReelgltqeelaerlgisrskisaiEngkkdvpsaelllkiaealgidl 56
                             rLk +Re +g +q +l ++++      s+iE   ++++++++l+k+a+alg+ +
  PHY93_13920|PHY93_13920 40 RLKMVRELRGKNQTDLKGMTQP---EVSKIE--ARKDLKISTLKKYAKALGMKV 88
                             99****************8777...******..445***************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (105 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       773  (0.0431145); expected 358.6 (0.02)
Passed bias filter:                      317  (0.0176809); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.44u 0.26s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 726.26
//
Query:       PHY93_13925|PHY93_13925  [L=369]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
      9e-59  197.7   4.5    1.9e-58  196.7   4.5    1.5  1  YhcG_C     YhcG PDDEXK nuclease domain
    1.4e-42  145.1   1.5    2.5e-42  144.3   1.5    1.4  1  DUF1016_N  DUF1016 N-terminal domain
     0.0038   17.2   0.5       0.03   14.3   0.0    2.4  2  HSDR_N_2   Type I restriction enzyme R protein N terminus (HS
     0.0054   16.5   0.0      0.015   15.1   0.0    1.8  1  HTH_ParB   HTH domain found in ParB protein


Domain annotation for each model (and alignments):
>> YhcG_C  YhcG PDDEXK nuclease domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  196.7   4.5   4.3e-62   1.9e-58       2     154 ..     177     331 ..     176     332 .. 0.96

  Alignments for each domain:
  == domain 1  score: 196.7 bits;  conditional E-value: 4.3e-62
                   YhcG_C   2 eilkdpyvldflelke..eykErelekalieklkkfllelGkgFafvgrqyrleveekefyidLlfYhlklkcyvvieLKvgefkp 85 
                              +++kdpyvl+fl++ e  +++E+ele ali+kl++fllelGkgF+fv+rq+r++ e+++fyidL+fY+++lkc+v+i+LK++++++
  PHY93_13925|PHY93_13925 177 DLIKDPYVLEFLNVGEqsSIQEKELEGALIDKLQNFLLELGKGFSFVARQKRITSEHNHFYIDLVFYNYILKCFVLIDLKTDKLTH 262
                              689***********987789****************************************************************** PP

                   YhcG_C  86 edagklnlYlsaldeelkkeednptiGiilckekdktvveyalkeinkpigvseYelpkelpeelkekl 154
                              +d+g++++Y++++++++k+++dnptiGiilc+ekd+++v+y++ + +k++++s+Y+l     +elk++l
  PHY93_13925|PHY93_13925 263 QDVGQMDFYVRYFEDQVKTKDDNPTIGIILCSEKDDAIVKYSVLQGSKKLFASKYKLYLPSENELKNEL 331
                              *******************************************************76666666999887 PP

>> DUF1016_N  DUF1016 N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  144.3   1.5   5.5e-46   2.5e-42       2     137 .]      19     152 ..      18     152 .. 0.98

  Alignments for each domain:
  == domain 1  score: 144.3 bits;  conditional E-value: 5.5e-46
                DUF1016_N   2 ikelieqarqkaakavnselvelyweiGkrive....kqeraeyGkkvikkLsedLkkefpevkGFsernlknmrqfyeaykeeei 83 
                              + +++++ar++a++avns++v++yw+iGk ive    +++ra+yGk+++++L+++L+ +++  kGF+++nlk++r fy a+   +i
  PHY93_13925|PHY93_13925  19 VADVLDHARSSAYRAVNSAMVQAYWNIGKLIVEeeqkGKKRADYGKALLEDLAKNLTIKYG--KGFTQTNLKYFRLFYVAF---PI 99 
                              678899***************************999999**********************..******************...9* PP

                DUF1016_N  84 lqqlvaqlsWshnllllekvkdeeerefYleeaieegWsrreLerqiksklyer 137
                               ++++++lsW+h+++ll +v+++++r+fY++e+ie +Ws+r+Lerqi+s +yer
  PHY93_13925|PHY93_13925 100 RHSVSDELSWTHYRHLL-RVEKNDARQFYIDECIECNWSTRQLERQIDSFYYER 152
                              *****************.***********************************8 PP

>> HSDR_N_2  Type I restriction enzyme R protein N terminus (HSDR_N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.3   0.0   6.7e-06      0.03      24      77 ..     223     274 ..     209     281 .. 0.86
   2 ?   -0.1   0.1       0.2   8.9e+02      11      39 ..     325     355 ..     323     367 .. 0.67

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 6.7e-06
                 HSDR_N_2  24 iavekelqlgskkkraDivvykkdkkpllivecKapsvkiseevleqlksYlea 77 
                              +a++k++++++++ ++D+v+y+   k ++++++K+++++   +++ q+  Y++ 
  PHY93_13925|PHY93_13925 223 VARQKRITSEHNHFYIDLVFYNYILKCFVLIDLKTDKLTH--QDVGQMDFYVRY 274
                              788999******************************9965..569998888776 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.2
                 HSDR_N_2  11 kyLveelgypkeliavekelqlg..skkkra 39 
                              ++L +el  +k+li+ ek+l  +  +kkk a
  PHY93_13925|PHY93_13925 325 NELKNELLREKQLIESEKKLLATkaKKKKNA 355
                              5788888889999999999997743333333 PP

>> HTH_ParB  HTH domain found in ParB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0   3.3e-06     0.015      11      50 ..     106     145 ..      99     147 .. 0.93

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 3.3e-06
                 HTH_ParB  11 kiseGHARaLlslkdeelqlqlaekiieegLsVRetEklv 50 
                              ++s  H R Ll+++  + ++   +++ie ++s R++E+ +
  PHY93_13925|PHY93_13925 106 ELSWTHYRHLLRVEKNDARQFYIDECIECNWSTRQLERQI 145
                              78999********************************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (369 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       944  (0.0526521); expected 358.6 (0.02)
Passed bias filter:                      362  (0.0201908); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 2392.64
//
Query:       PHY93_13930|PHY93_13930  [L=411]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.3e-13   48.7   0.0    1.2e-12   48.1   0.0    1.2  1  Glyco_transf_4   Glycosyltransferase Family 4
    4.6e-11   43.4   0.0    5.8e-11   43.1   0.0    1.1  1  Glyco_trans_4_4  Glycosyl transferase 4-like domain
    2.9e-09   36.7   0.4    4.9e-09   36.0   0.4    1.4  1  Glycos_transf_1  Glycosyl transferases group 1
    1.3e-08   35.3   0.0    5.7e-08   33.3   0.0    1.9  2  Glyco_trans_1_4  Glycosyl transferases group 1


Domain annotation for each model (and alignments):
>> Glyco_transf_4  Glycosyltransferase Family 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.1   0.0   2.7e-16   1.2e-12       3     169 ..      16     205 ..      15     206 .. 0.81

  Alignments for each domain:
  == domain 1  score: 48.1 bits;  conditional E-value: 2.7e-16
           Glyco_transf_4   3 GverhvleLaraLarrGheVtvvtpgddgpleeev...............elvvrvprvplpllkrllrslaflrrlrrllkre.. 71 
                              G+e   ++La+++ ++Gh+Vt+ + ++++  ++++               + ++  p++   + kr+ ++l f++rl + + +   
  PHY93_13930|PHY93_13930  16 GMEFRPYYLAKRWIANGHKVTMMAASYSHIRAKQPevttpfvseiidgitYQWCKTPSYEQNGAKRFVNMLVFIFRLFQYAFKIns 101
                              899999*****************999998877777889*****9999999888999999999999999***********9999999 PP

           Glyco_transf_4  72 ..kpDvv.HahspaalgaallalrrrlgiplVltvHglye.....krllkarlk....plsrllralerrllrradrviavSeata 145
                                 p  v  + +++  ++ ++ ++++ +++l++ vH+l++             +    p+  l++  e ++++++d v+   ++t 
  PHY93_13930|PHY93_13930 102 vdAPTAViASSTYPLDIFPAWFIAKKFKAKLIFEVHDLWPlspieL-----GGMskyhPFIMLIQFAEDFAYKHSDSVVSMLPKTL 182
                              99777772444444445555555556**************655431.....33300003334444556666*************** PP

           Glyco_transf_4 146 delrerygvppekitVipnGvDle 169
                              +++++  g+++ek   ipnG+ l+
  PHY93_13930|PHY93_13930 183 EYMVS-RGLKKEKFNYIPNGIELK 205
                              *****.***************986 PP

>> Glyco_trans_4_4  Glycosyl transferase 4-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.1   0.0   1.3e-14   5.8e-11       2     160 .]      16     201 ..      15     201 .. 0.77

  Alignments for each domain:
  == domain 1  score: 43.1 bits;  conditional E-value: 1.3e-14
          Glyco_trans_4_4   2 GigryvaelaraLaarGheVtvlt......papapgapele.......edgvrvhrlpvprrps.....pladlaalralrrll.. 67 
                              G++ + + la+++ a Gh Vt+ +      +a+   +pe++        dg+++  +++p  ++      +++l ++++l ++   
  PHY93_13930|PHY93_13930  16 GMEFRPYYLAKRWIANGHKVTMMAasyshiRAK---QPEVTtpfvseiIDGITYQWCKTPSYEQngakrFVNMLVFIFRLFQYAfk 98 
                              8999999*****************666555222...33322223345578**********9974445558889*******999888 PP

          Glyco_trans_4_4  68 rqrrerpdvvhahs.pt.aglaarlarrrrgiplvvtlhglllrrg.....sgavrrly...ralerrllrradavlvvseaeaee 143
                                    p  v+a s ++   ++a++++ + +++l++++h+l++ ++     ++  ++++   + +e++++++ d v++  +   e+
  PHY93_13930|PHY93_13930  99 INSVDAPTAVIASStYPlDIFPAWFIAKKFKAKLIFEVHDLWPLSPielggMSKYHPFImliQFAEDFAYKHSDSVVSMLPKTLEY 184
                              447788888888775553346777777699**********9955334433466666665566888********************* PP

          Glyco_trans_4_4 144 lralgvpadrvvvvpng 160
                              ++ +g+  +++ ++png
  PHY93_13930|PHY93_13930 185 MVSRGLKKEKFNYIPNG 201
                              ****************8 PP

>> Glycos_transf_1  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.0   0.4   1.1e-12   4.9e-09      12     170 ..     231     391 ..     222     409 .. 0.83

  Alignments for each domain:
  == domain 1  score: 36.0 bits;  conditional E-value: 1.1e-12
                              TTT-EEEEEESS-TTTTTHHHHHHHHHCCCCCHCSCEEEEEES.STTHHHHHHHHHHHCTTCGGGEEECCHSSSHHHHHHCESEEE CS
          Glycos_transf_1  12 nekkkiilsvgrlekeKgvdllikafallkkqlnpnvklviaGngeeekelkklaeelelsdnviflgevsredleellknadifv 97 
                              +e+  ++ ++g       +++li a++ l+   ++++ + ++G g+e+++lk+la++ +l  n+if+  +++ +++ + k  d+  
  PHY93_13930|PHY93_13930 231 AEGFFTVAYLGTHGLANCLENLINAAEILR---DEKIFFFFVGPGPEKESLKALAQKKKL-LNIIFVDSIPKGEIPIITKLFDVNY 312
                              466666777777777777899*******97...78*************************.99******************99988 PP

                              EEESSBS...S-HH...HHHHHHTT--EEEETTTTHCHHCHTTTSEEEE-TT-HHHHHHHHHHHHHSH.HHHHHHHHHHH CS
          Glycos_transf_1  98 lpsisEg...fGiv...llEAmaaglpviasnaggpaevvkdgetGllvkpnnaealaeairkllede.elrerlgenar 170
                              +   +E+   fGi+   l+ +maa++p+i    +   + vk++  G+ v+++n++ala ai+++  ++  +   +gen++
  PHY93_13930|PHY93_13930 313 IGLKKESlfrFGISpnkLMDYMAAKKPIINAV-EAGNDPVKEAGCGISVPAENPQALAFAIQEIKAKPeTELLLMGENGY 391
                              8888865444788633379********98655.555677899999********************999444455666665 PP

>> Glyco_trans_1_4  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.3   0.0   1.3e-11   5.7e-08      15     131 ..     247     375 ..     235     378 .. 0.80
   2 ?   -0.7   0.0       0.4   1.8e+03     107     131 ..     382     410 ..     375     411 .] 0.72

  Alignments for each domain:
  == domain 1  score: 33.3 bits;  conditional E-value: 1.3e-11
                              GTHHHHHHHHHHHH.HHEEEEEES---..HHHHHHHT..T-T.TEEEE---..THHHHHHHH-SEEEE--..-.....--.SHHHH CS
          Glyco_trans_1_4  15 kgvdllleavpllrkkdvrlvivGdgprpeeleelaa..gleerveftGfv..edlaellaaadvfvaPs..e.....gf.glkll 88 
                                ++ l++a++ lr++++ + +vG gp++e+l++la+  +l  +++f+  +   +++ + +  dv  + +  e     g+ ++kl+
  PHY93_13930|PHY93_13930 247 NCLENLINAAEILRDEKIFFFFVGPGPEKESLKALAQkkKL-LNIIFVDSIpkGEIPIITKLFDVNYIGLkkEslfrfGIsPNKLM 331
                              467899********889*********966799988866667.69*******7556*************9998545546536***** PP

                              HHHHTT-EEEE-TGGGTTT--..TTSSEE--TT-HHHHHHHHHHH CS
          Glyco_trans_1_4  89 EamaaglpvVatdvggiaevv..gengllvppgdpealaeailrL 131
                              ++maa++p++    +g ++ v     g+ vp+++p+ala ai+++
  PHY93_13930|PHY93_13930 332 DYMAAKKPIINAVEAG-NDPVkeAGCGISVPAENPQALAFAIQEI 375
                              **********996657.67664444679*************9875 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.4
                              T--..TTSS..EE--TT-HHHHHHHHHHH CS
          Glyco_trans_1_4 107 evv..geng..llvppgdpealaeailrL 131
                              e++  geng  ++ +++d e+la++ l++
  PHY93_13930|PHY93_13930 382 ELLlmGENGykFVSNENDYEKLAQKFLKV 410
                              44457899965566777899999998876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (411 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       489  (0.0272742); expected 358.6 (0.02)
Passed bias filter:                      430  (0.0239835); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.57u 0.25s 00:00:00.82 Elapsed: 00:00:00.44
# Mc/sec: 2806.79
//
Query:       PHY93_05285|PHY93_05285  [L=273]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.024   14.0   0.5      0.046   13.1   0.0    1.7  2  Adap_comp_sub  Adaptor complexes medium subunit family
        0.1   12.8   4.4        2.8    8.3   0.1    3.9  4  TPR_2          Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> Adap_comp_sub  Adaptor complexes medium subunit family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.1       0.2   1.8e+03     101     131 ..      65      96 ..      63     151 .. 0.55
   2 ?   13.1   0.0   5.1e-06     0.046       2      32 ..     179     209 ..     178     216 .. 0.88

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 0.2
                              EEEEEE.S--SS--SEEEEEEEEE-TTTSEEE CS
            Adap_comp_sub 101 LmrYrl.sannvklPfsvkpkvklsgdevrve 131
                              L +Yr   ++++   + +k++++++++e  v+
  PHY93_05285|PHY93_05285  65 LYQYRFyDKSQIYYENALKINTSENKTEALVN 96 
                              56666643333333333444433333332222 PP

  == domain 2  score: 13.1 bits;  conditional E-value: 5.1e-06
                              XXXXXXXXXXX-EEEEEEEEEEEEEE-TTS- CS
            Adap_comp_sub   2 swrrkgikykkneiyldviErvsvlvdkkGk 32 
                              s  ++g k+++n++ ++v+++++vl++kkG 
  PHY93_05285|PHY93_05285 179 SINPAGLKKSTNNFNITVYDSLNVLMNKKGV 209
                              5668999**********************96 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   0.1   0.00031       2.8       8      31 ..      62      85 ..      56      87 .. 0.89
   2 ?    2.6   0.4      0.02   1.8e+02      17      26 ..     114     123 ..     111     123 .. 0.91
   3 ?   -0.4   0.0      0.19   1.7e+03      11      20 ..     167     176 ..     165     179 .. 0.85
   4 ?   -2.1   0.0      0.64   5.7e+03       7      19 ..     251     263 ..     249     263 .. 0.82

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.00031
                    TPR_2  8 GlayyklgdyeeAleafekAleld 31
                             G+ +y+   y++   ++e Al+++
  PHY93_05285|PHY93_05285 62 GRELYQYRFYDKSQIYYENALKIN 85
                             788899999*************98 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.02
                    TPR_2  17 yeeAleafek 26 
                              yeeA +++ek
  PHY93_05285|PHY93_05285 114 YEEAQNYYEK 123
                              8999999997 PP

  == domain 3  score: -0.4 bits;  conditional E-value: 0.19
                    TPR_2  11 yyklgdyeeA 20 
                              ++k+++y++A
  PHY93_05285|PHY93_05285 167 LLKNKEYQKA 176
                              7899999999 PP

  == domain 4  score: -2.1 bits;  conditional E-value: 0.64
                    TPR_2   7 lGlayyklgdyee 19 
                              ++ +y+ ++++e+
  PHY93_05285|PHY93_05285 251 RATSYFLNDNPEK 263
                              7899999999886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (273 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1173  (0.0654247); expected 358.6 (0.02)
Passed bias filter:                      395  (0.0220313); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.55u 0.26s 00:00:00.81 Elapsed: 00:00:00.47
# Mc/sec: 1763.93
//
Query:       PHY93_05940|PHY93_05940  [L=175]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    3.8e-45  153.5   6.8    4.6e-45  153.3   6.8    1.0  1  GrpE        GrpE
  ------ inclusion threshold ------
      0.021   15.3   1.5       0.03   14.8   1.5    1.3  1  PolyA_pol   Poly A polymerase head domain
      0.079   12.6   1.8       0.13   11.9   1.8    1.4  1  DUF4085     Protein of unknown function (DUF4085)
       0.11   12.7   0.6       0.19   11.9   0.6    1.5  1  NDT80_PhoG  NDT80 / PhoG like DNA-binding  family
       0.17   12.0   4.0        2.6    8.2   2.7    2.2  2  DUF148      Domain of unknown function DUF148


Domain annotation for each model (and alignments):
>> GrpE  GrpE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  153.3   6.8   1.3e-48   4.6e-45       5     165 ..       8     172 ..       3     173 .. 0.91

  Alignments for each domain:
  == domain 1  score: 153.3 bits;  conditional E-value: 1.3e-48
                              ..CTTTHHHHCCCCCCTTC..HHHCTTSCCCCCCTTTTTTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC....HHH CS
                     GrpE   5 eeeeeeedeeeeleeelee..lekevkelkekllrllaefenlrkrtekekeeakkfaiekfakdLLpvlDnleralksak..ene 86 
                              e+ +   d ++  eee+++    ke +++k k+ +l+ae+en+rkr e+eke++ kf++ek++ +L++v+Dn+++ +++ k  +++
  PHY93_05940|PHY93_05940   8 EVLAVDSDSKDVIEEEIKNnqVLKEGNDFKAKYYYLAAEVENMRKRSEREKENLLKFGNEKVISSLVSVMDNFDLTVNALKndNDD 93 
                              555566666666667665522556899*****************************************************977777 PP

                              -HHHHHHHHHHHHHHHHHHHHHTT-EE---TTSB--TTTEEEEEEECSSC...TBEEEEEE--EEETTEEEE-EEEEEE CS
                     GrpE  87 eekslleGvemtlkqllkiLekhgvekiepkgepFDpnlheavstveddekeegtvvevvqkGYklkdrvlRpAmVkVs 165
                              +++++++G++m++ q++++L+++g++++e+ g+ FDpn+heav + +++ k+++++++++q+GY l++r+lR+ +V+V+
  PHY93_05940|PHY93_05940  94 KVQNIVKGIDMIRSQFMDVLKQNGLTQVETIGKIFDPNFHEAVAQAPAPGKADQEIINEYQRGYLLNGRLLRAPKVVVV 172
                              777***************************************************************************7 PP

>> PolyA_pol  Poly A polymerase head domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   1.5   8.4e-06      0.03      44     124 ..      30     109 ..       5     111 .. 0.77

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 8.4e-06
                              EEETTTTCCCCEECCEEEEECCEECEEEEEE---SSHHH...HHHHHHCTSSBGGGS-EEECTTTCEE-TTSHHHHHHTTE CS
                PolyA_pol  44 lsgeefqtiavlekkqllevatfRlekdesdarnpesekstesleeDlkrRDftiNalaynlnkgkvlDlfgGikdLkskv 124
                              l++ +   ++    + ++e  + R+e+++++  +  +ek  +sl   +   D+t+Nal  + n++kv  +++Gi+ ++s+ 
  PHY93_05940|PHY93_05940  30 LKEGNDFKAKYYYLAAEVENMRKRSEREKENLLKFGNEKVISSLVSVMDNFDLTVNALKND-NDDKVQNIVKGIDMIRSQF 109
                              334444455666666778888889999999999999999999****************999.999*********9999875 PP

>> DUF4085  Protein of unknown function (DUF4085)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   1.8   3.5e-05      0.13      37     129 ..      46     137 ..       2     150 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 3.5e-05
                  DUF4085  37 dleellkeeleelKedLLkfLPkeilpyiqditlnsevaseevkkevdkwsreyekrfeqvldsyveyfnsiakklpenvkelfkk 122
                              ++e++ + + e  Ke+LLkf  +++++ ++ +  n + + + +k+  d   ++  k ++    ++++  ++      e + ++f+ 
  PHY93_05940|PHY93_05940  46 EVENM-RKRSEREKENLLKFGNEKVISSLVSVMDNFDLTVNALKNDNDDKVQNIVKGIDMIRSQFMDVLKQNGLTQVETIGKIFDP 130
                              34455.6678999**********************************************************999999********* PP

                  DUF4085 123 slHDavi 129
                              ++H+av 
  PHY93_05940|PHY93_05940 131 NFHEAVA 137
                              ***9985 PP

>> NDT80_PhoG  NDT80 / PhoG like DNA-binding  family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.6   5.4e-05      0.19      25     105 ..      56     153 ..      15     159 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 5.4e-05
               NDT80_PhoG  25 kfvkhsftilenelesgeklpikyfalkikatknseddseielvq.................htakrdkgpqfaPeivalvpkelp 93 
                              ++ ++     +++ +s+     ++f l+++a kn++dd+ +++v+                  t+ +  g+ f+P+ +++v + + 
  PHY93_05940|PHY93_05940  56 REKENLLKFGNEKVISSLVSVMDNFDLTVNALKNDNDDKVQNIVKgidmirsqfmdvlkqngLTQVETIGKIFDPNFHEAVAQAPA 141
                              33333333334477777888899**********************99999999999999999999999999999999999999888 PP

               NDT80_PhoG  94 khqlireasnvr 105
                              + + ++e  n++
  PHY93_05940|PHY93_05940 142 PGKADQEIINEY 153
                              888777776665 PP

>> DUF148  Domain of unknown function DUF148
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.2   2.7   0.00072       2.6      13      69 ..      22      80 ..      17     100 .. 0.79
   2 ?    4.7   0.2     0.009        32      38      83 ..      78     123 ..      75     129 .. 0.83

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.00072
                   DUF148 13 enltiaeieeqleawaeky.gvtdeykefeakvkaqkeevkk.nvtavisnLssvqekl 69
                             e++  +++ ++ +++ +ky  +++e+++ +++ + +ke++ k   ++vis+L sv ++ 
  PHY93_05940|PHY93_05940 22 EEIKNNQVLKEGNDFKAKYyYLAAEVENMRKRSEREKENLLKfGNEKVISSLVSVMDNF 80
                             55778888899999988888999999999999999998887735678999999887664 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.009
                   DUF148  38 kefeakvkaqkeevkknvtavisnLssvqekleaIldnkslTrkeq 83 
                               +f  +v+a k+   ++v+++++ +  + ++  ++l+   lT+ e+
  PHY93_05940|PHY93_05940  78 DNFDLTVNALKNDNDDKVQNIVKGIDMIRSQFMDVLKQNGLTQVET 123
                              6778888999999999999999999999999999999999998876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (175 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1007  (0.056166); expected 358.6 (0.02)
Passed bias filter:                      453  (0.0252663); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.52u 0.27s 00:00:00.79 Elapsed: 00:00:00.46
# Mc/sec: 1135.86
//
Query:       PHY93_13935|PHY93_13935  [L=350]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   9.9e-116  386.4   0.0   1.1e-115  386.2   0.0    1.0  1  Epimerase_2      UDP-N-acetylglucosamine 2-epimerase
  ------ inclusion threshold ------
      0.018   15.0   0.0      0.038   14.0   0.0    1.5  1  Glyco_trans_4_2  Glycosyl transferase 4-like


Domain annotation for each model (and alignments):
>> Epimerase_2  UDP-N-acetylglucosamine 2-epimerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  386.2   0.0  1.3e-119  1.1e-115       2     347 .]      22     350 .]      21     350 .] 0.94

  Alignments for each domain:
  == domain 1  score: 386.2 bits;  conditional E-value: 1.3e-119
                              HHTTS-..EEEEEEE-S--SGGGTHHHHHHTT----SEEE---S--HHHHHHHHHHHHHHHHHHH--SEEEEESSSHHHHHHHHHH CS
              Epimerase_2   2 alkaeselelqlvvtGqHldremgdtvfeeleiekpdydlnsdsqslakstgrvligleevleeekpDlvlvlGDtnetlagalaA 87 
                              a+++++++e+++v+tGqH+d++m+d++fee++i+ p+y+l+ ++ s++++tg++l+++e++l+ ekpD+vlv+GDtn+tlagalaA
  PHY93_13935|PHY93_13935  22 AISKHKNIEEVIVHTGQHFDSNMSDIFFEEMQIPLPKYNLGISGLSHGAMTGEMLKEIEKILMLEKPDWVLVYGDTNSTLAGALAA 107
                              7999********************************************************************************** PP

                              HHTT-EEEEET-----S-TT..SHHHHHHHHHHHT-SEEEESSHHHHHHHHHTT--..GGGEEE---HHHHHHHHHHHHHH...T- CS
              Epimerase_2  88 fklripvaHveAGlRsfdltegmpeEinRhlidklsdlhfapteearenLlkegee..eerifvvGntviDalllskeeieeklka 171
                              +kl+i+vaHveAGlRsf+++  mpeE+nR+l+d++s+++f+pte+a +nL +eg++  ++++++vG++++Da+++++e ++     
  PHY93_13935|PHY93_13935 108 SKLHIKVAHVEAGLRSFNMR--MPEEVNRILTDRISTILFCPTETAVANLKNEGFDkiKAEVINVGDVMLDAVKFYSEFASP-C-- 188
                              ********************..*********************************723589***************888852.2.. PP

                              HHHHHH--SS-EEEEE---HHHHTSHHHHHHHHHHHHHHHHHH--EEEEE--..HHHHHHHHHHHHH-.TTEEEE----HHHHHHH CS
              Epimerase_2 172 seilkelkekkyvlvtlHrrenedeperlkeilealkalakekdvevvvpvhnnprtrkrlleeleel.envtlieplgyldflsl 256
                                      ++++vl+tlHr+en+d+++rl++i++a++++ak+  + +v+p+h  prt+k++++ l+ +  +v++i p  y ++ls+
  PHY93_13935|PHY93_13935 189 -P-----YKEPFVLATLHRAENTDDEKRLRSIFQAFNEIAKT--MDIVLPLH--PRTKKIVEN-LKIAtGQVKMIAPASYFEMLSM 263
                              .2.....579*******************************9..899*****..*******86.555548**************** PP

                              HHC-SEEEES-HHHHHHHHHCT--EEESSSS-S-THHHHTTSEEE-TT-HHHHHHHHHHHCT-..--......--TT-SS-HHHHH CS
              Epimerase_2 257 lknaklvltdSgGiqeEapslgvpvvnlReeteRpegveagtnvlvgtdkeeIvaaleklledkkelekmanaknpYgdGkaseri 342
                              lkn+ lv tdSgG+q+Ea+++++p+++lR+ete++e + +g+n+lvg+d+++Iv+ ++k+l +++++    ++++ Yg+G+a e i
  PHY93_13935|PHY93_13935 264 LKNCSLVATDSGGLQKEAYFFNKPCITLRDETEWVELIHCGQNILVGSDTDKIVEGFHKALLNQNKI----QDSHLYGEGHAGETI 345
                              *************************************************************884444....34679********** PP

                              HHHHH CS
              Epimerase_2 343 veile 347
                              ++ le
  PHY93_13935|PHY93_13935 346 IRKLE 350
                              *9885 PP

>> Glyco_trans_4_2  Glycosyl transferase 4-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   4.2e-06     0.038      40     108 ..      42     120 ..       3     141 .. 0.67

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 4.2e-06
          Glyco_trans_4_2  40 leaegihvhrlkvd.......rkg.pleyl...kafklkklikkikPDvvhahyakpygllgslaarlsgvipvvlsvwG 108
                              +++ +i + +++++       ++g + + +   +++++ k++  +kPD+v ++  +   l+g+laa ++  i+v+    G
  PHY93_13935|PHY93_13935  42 SNMSDIFFEEMQIPlpkynlgISGlSHGAMtgeMLKEIEKILMLEKPDWVLVYGDTNSTLAGALAASKLH-IKVAHVEAG 120
                              445556566655554455566555544444321567******************9999********9998.998755555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (350 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       439  (0.0244855); expected 358.6 (0.02)
Passed bias filter:                      391  (0.0218082); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.59u 0.23s 00:00:00.82 Elapsed: 00:00:00.46
# Mc/sec: 2262.76
//
Query:       PHY93_13940|PHY93_13940  [L=439]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (439 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       918  (0.051202); expected 358.6 (0.02)
Passed bias filter:                      259  (0.0144459); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.59u 0.25s 00:00:00.84 Elapsed: 00:00:00.46
# Mc/sec: 2885.82
//
Query:       PHY93_13945|PHY93_13945  [L=444]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (444 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       634  (0.0353617); expected 358.6 (0.02)
Passed bias filter:                      211  (0.0117686); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.61u 0.27s 00:00:00.88 Elapsed: 00:00:00.46
# Mc/sec: 2887.26
//
Query:       PHY93_13950|PHY93_13950  [L=460]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.4e-05   24.5  14.9    1.4e-05   24.5  14.9    3.2  2  Polysacc_synt_3  Polysaccharide biosynthesis protein


Domain annotation for each model (and alignments):
>> Polysacc_synt_3  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.5  14.9   7.6e-10   1.4e-05       2     292 ..      28     313 ..      27     314 .. 0.72
   2 ?   -1.5   6.8     0.066   1.2e+03     147     202 ..     375     434 ..     342     436 .. 0.76

  Alignments for each domain:
  == domain 1  score: 24.5 bits;  conditional E-value: 7.6e-10
          Polysacc_synt_3   2 LARLLspedFGvvaialvvislanlfvdmGlssaliqkedltee...dlstvftfnlvlgllialvlfllapliasfynqpelvtv 84 
                              ++RL sp++F   ai lv++ ++  ++++    a++ + +++e+    + ++  + + + + +++ lf+++  ia ++   +    
  PHY93_13950|PHY93_13950  28 ISRLYSPNEFSQWAIFLVIVMIIGTVATFKYADAIVIEVNNEERtnlFYGSLLAIFISSTIGATIGLFFFSFPIALLLFLSIFGIG 113
                              68***************************999999876655554122555555555555555666677777777777766666666 PP

          Polysacc_synt_3  85 lrvlalvlilsglssvqeallrrelkFkklfkitlvssvvgvivaivlAllglgvwALvigtllssllslvllwlaskwrprlkfs 170
                              +++l+ +++l+   +    +++    F   ++  + +++++    +++A ++ g+  L++ t+    + l++   +++ +p  k  
  PHY93_13950|PHY93_13950 114 FQTLSQQVFLKNTHLGRFVTITFLNSFLVPTFQLISGKFIAPTGLFLIAGATTGY--LLTATI---GFLLIINGQYLSRKPLDKSL 194
                              6666666666655554444444333444333333334444433333334344443..333333...23444455556666666666 PP

          Polysacc_synt_3 171 lkslkelfsfglklllsnllnylarnldnlliGkvlssaaLGlYsvakrlaslpvaeitsviakVlfPalSrlqddkkklrelylk 256
                              +k+l ++ +f l  +  +ll  l  ++ ++++   ++ +   +Y+++++l+ +p + + +++ +++f  +S+ + +  +++  +  
  PHY93_13950|PHY93_13950 195 FKTLIRYKKFPLFSMSYTLLSALRLRAIYFFMH-NIDPSLNSYYAQSEKLLYAPGNFMGAAVRPIFFNLISQRKIE--EIEGQIIS 277
                              777777778888889999999999999999985.5788999******************************88877..99****** PP

          Polysacc_synt_3 257 vlrlialivlPiavglavvaellvkvllGsqWleav 292
                              +l+ ia i+lP++++ ++++ +++++++G +W ++v
  PHY93_13950|PHY93_13950 278 LLNAIAKIALPFMAISYIYSVEIINLFFGPKWMSMV 313
                              ********************************9997 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.066
          Polysacc_synt_3 147 llssllslvllwlaskwrprlkfslkslkelfsfglkll....lsnllnylarnldnlli 202
                              +++ ++++v+++++  wr+ +k +++s+k l   +++++    +  ++ ++ ++ dn++i
  PHY93_13950|PHY93_13950 375 IIALTVNSVIYYCFWLWRLFVKANFSSIKFLKMLSVWIItilcWYLFMSFIKNSFDNFFI 434
                              456678999*************99999999999999875111144566666666777766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (460 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1106  (0.0616878); expected 358.6 (0.02)
Passed bias filter:                      299  (0.0166769); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.69u 0.26s 00:00:00.95 Elapsed: 00:00:00.48
# Mc/sec: 2889.88
//
Query:       PHY93_13955|PHY93_13955  [L=151]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      8e-06   25.6   0.0    1.1e-05   25.2   0.0    1.2  1  dTDP_sugar_isom  dTDP-4-dehydrorhamnose 3,5-epimerase
    7.3e-05   22.5   0.0    0.00011   22.0   0.0    1.3  1  FdtA             WxcM-like, C-terminal


Domain annotation for each model (and alignments):
>> dTDP_sugar_isom  dTDP-4-dehydrorhamnose 3,5-epimerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.2   0.0   1.2e-09   1.1e-05       6     143 ..      12     143 ..       7     150 .. 0.87

  Alignments for each domain:
  == domain 1  score: 25.2 bits;  conditional E-value: 1.2e-09
                              TCEEEEE-EEEETTEEEEEEEEHHHHHHHTS-----EEEEEEEETTBEEEEEEESSCS---EEEEEEESEEEEEEEE-BTTSTTTT CS
          dTDP_sugar_isom   6 gvlliepkvfgDeRGfflesfneeefaeagleaefvqdnlsvskkgvlRGlHfqkepkaqaklvrvvrGevldvaVDlRkgSptfg 91 
                              g+  +  k+++DeRG ++++ ++++       ++f +   s  + g ++G   +   k+  +++ v +G v  v  D R +S+t g
  PHY93_13955|PHY93_13955  12 GIETFPLKIIRDERGAVMHMIRSSDPYF----EKFGELYFSLINPGQVKGWKKH---KEIYQYMVVPEGMVQIVFYDDRDNSQTKG 90 
                              6667778999********9999877543....25778999999*******9844...457899*********************** PP

                              -EEEEEEETTT--EEEE-TTEEEEEEE-SSEEEEEEEES.S---GGGEEEE-T CS
          dTDP_sugar_isom  92 kwvgveLsaenkrqlyipegfahGflvlsdeaevlYkvt.eyyapesergirw 143
                                  ve   +n   l +p+++  +f ++s++  ++  +t + ++p++ +++ +
  PHY93_13955|PHY93_13955  91 LLKCVEFGVANYLLLKVPPNVWYSFKAVSKTHALIANCTtAPHDPKESETLPL 143
                              *******************************9999999978899998887755 PP

>> FdtA  WxcM-like, C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.0   0.0   1.2e-08   0.00011       6     103 ..      16     121 ..      11     137 .. 0.75

  Alignments for each domain:
  == domain 1  score: 22.0 bits;  conditional E-value: 1.2e-08
                              EEEEEEEETTEEEEEEEBTTTBSS--SEEEEEES--TTTEEEEEEESS--EEEEEEES-EEEEEE-SS-E..EEEEE-STTEE... CS
                     FdtA   6 ielpkikdergnLsvieeekevpfeikrvyyvydvpegeerGeHahkkleqllialsGsvevllddgkkk..keilldspskg... 86 
                              + l+ i+derg ++++ ++++  fe     y + ++ g+++G   hk+  q +++ +G v+++  d +++  ++ ll   + g   
  PHY93_13955|PHY93_13955  16 FPLKIIRDERGAVMHMIRSSDPYFEKFGELYFSLINPGQVKGWKKHKEIYQYMVVPEGMVQIVFYDDRDNsqTKGLLKCVEFGvan 101
                              5678899******999999999999988888999999999*********************9875554331255566654444111 PP

                              ...EEE-TT-EEEEE---TT CS
                     FdtA  87 ...lyipkmiWrelinfsed 103
                                 l +p+++W +   +s+ 
  PHY93_13955|PHY93_13955 102 yllLKVPPNVWYSFKAVSKT 121
                              11156899999888888876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (151 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       332  (0.0185175); expected 358.6 (0.02)
Passed bias filter:                      318  (0.0177366); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.25s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 1049.52
//
Query:       PHY93_13960|PHY93_13960  [L=364]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.9e-31  107.9   0.0      9e-31  107.5   0.0    1.1  1  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
    4.7e-24   85.2   0.0    6.2e-24   84.8   0.0    1.2  1  Epimerase        NAD dependent epimerase/dehydratase family
    5.4e-10   38.9   0.0    4.2e-09   35.9   0.0    1.9  1  Polysacc_synt_2  Polysaccharide biosynthesis protein
    5.4e-05   22.4   0.0    7.6e-05   21.9   0.0    1.2  1  RmlD_sub_bind    RmlD substrate binding domain
     0.0024   17.1   0.0     0.0041   16.3   0.0    1.3  1  NAD_binding_4    Male sterility protein
  ------ inclusion threshold ------
       0.12   11.0   0.0       0.18   10.5   0.0    1.2  1  Oxidored_nitro   Nitrogenase component 1 type Oxidoreductase


Domain annotation for each model (and alignments):
>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  107.5   0.0     3e-34     9e-31       2     332 .]      14     327 ..      14     327 .. 0.80

  Alignments for each domain:
  == domain 1  score: 107.5 bits;  conditional E-value: 3e-34
                              EETTTSHHHHHHHHHHHHCT-CCEEEEEEESS-TTHHHHHCTTT...TTGCCEEEEE--TT-HHHHHHHHHHHT-SEEEE--S--- CS
            GDP_Man_Dehyd   2 iTGiaGfiGsylaelLlekgyevhgivrrsssfntgriehlakdpkeeleenlklhkgDltDssslerllaevqpdevynLAAqsh 87 
                              + G +Gf Gs+l+ +L + g ev g+ ++  ++     +h +    ++l++n+  ++g++ + +++ + l + +pd  ++++A   
  PHY93_13960|PHY93_13960  14 VIGHTGFKGSWLTAWLNQLGAEVAGFSKDIPTTP----SHFE---LAHLDQNILDVRGNIVNYNEILKFLTDFKPDILFHMGANAI 92 
                              6799*********************976655433....2332...1356678888******************************* PP

                              HHHHTTSHHHHHHHHTHHHHHHHHHHHHCT..TTSEEEEEEEGGGG-S-S.SSSB-TTS-----SHHHHHHHHHHHHHHHHHHHH- CS
            GDP_Man_Dehyd  88 VdvsfekPeytaevnvlGtlrLLeairalglekkvrfyqaStsEvYGkvq.evpqtEttpfyPrsPYaaaKlyadwivvnyreayg 172
                              V+  +e+P+  + +n  Gt+++Leair++     + ++++ ++ +Y + + e  ++E+ ++  + PY+a+K+ a+ i  +y ++y 
  PHY93_13960|PHY93_13960  93 VSDCLEHPQDAFLTNSFGTVNVLEAIRHTPSL--KSVVIVTSDKCYENIEwEFGYRENDRLGGKDPYSASKACAEIIFSSYFRTYL 176
                              ***************************99654..467889*********98899******************************97 PP

                              --EEE.EEE-EEESTT.S-TT.SCCCHHHHHHHHHHTTS-C-EECTTTT-EEEEEEHHHHHHHHHHHHHCSS---EEE-TT-EEEC CS
            GDP_Man_Dehyd 173 lfavn.gilfnhespr.rget.fvtrkitravarialgkqevlylGnldakRdwghvkDyveamwlmlqqdkpedyviatgethsv 255
                               f+   +i     +    g +    r i++++   ++   e +++ n +a+R w+hv +  +++ l l ++  e +   +ge++++
  PHY93_13960|PHY93_13960 177 QFMPHlSIATARAGNViGGGDwAANRIIPDCIRSWTKS--ESVQIRNPEATRPWQHVLEPLSGYLL-LASELLEGVEGLNGESFNI 259
                              55433133333333330333425667777777766554..578899*****************977.7778889999********* PP

                              HHCHHCCHHCCCHHHHHH............TTGGCCCEEC.GG--SS--SB--B-THHHHHHH----SS-HHHHHHHH CS
            GDP_Man_Dehyd 256 refvelaflelgktiewegkgeeevgrakesgkvvvevdp.kyfrpgevdlllgdaskakeeLgWkpkvsfeelvrem 332
                              +  +e++ +++   ie e+      ++  + ++v+v +d+ ++  ++e+ ll   ++ka ++LgW p+ +f+e+v+++
  PHY93_13960|PHY93_13960 260 GPKAEVN-KAVSALIE-EM------QH--HWKNVKVDIDKsHHLNKKEASLLKLCCDKALNRLGWMPTLTFNETVEMT 327
                              9888753.34443333.22......22..223455666652456678999999*********************9975 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   84.8   0.0   2.1e-27   6.2e-24       2     241 .]      13     260 ..      12     260 .. 0.90

  Alignments for each domain:
  == domain 1  score: 84.8 bits;  conditional E-value: 2.1e-27
                              EEETTTSHHHHHHHHHHHHCTSEEEEEES-.STTTTCHHCHHC....EEEE--TT-HHHHHHHHHHHT-SEEEE--S---HHHHHH CS
                Epimerase   2 lVtGatGfiGsalvkallekgyevigldrl.ssasntarledl....elveldltdrsalerlfkeeqpdavihlAavggvaasse 82 
                               V+G+tGf Gs l+  l++ g ev g++++ +++  + +l++l      v++++ + +++ +++ +++pd+ +h++a + v++  e
  PHY93_13960|PHY93_13960  13 AVIGHTGFKGSWLTAWLNQLGAEVAGFSKDiPTTPSHFELAHLdqniLDVRGNIVNYNEILKFLTDFKPDILFHMGANAIVSDCLE 98 
                              69**************************99334455556666689765689*********************************** PP

                              SHHHHHHHHTHHHHHHHHHHHHH.TCTEEEEEEEGGGGTSCSSSSBSTCSTTS----SSHHHHHHHHHHHHHHHHHHHH.T....- CS
                Epimerase  83 dpadfieknlqgtlnlleaarka.gvkrllflsSsevYGkdaeqpkeettltgplkpnspYaaaKlageklveayaaqy.g....l 162
                              +p+d + +n  gt+n+lea+r +  +k ++ + S+  Y + +      + +++ l    pY+a+K+++e +  +y ++y +    l
  PHY93_13960|PHY93_13960  99 HPQDAFLTNSFGTVNVLEAIRHTpSLKSVVIVTSDKCYENIEWE--FGYRENDRLGGKDPYSASKACAEIIFSSYFRTYlQfmphL 182
                              *********************998889************88884..444444599************************6699999 PP

                              EEEEEEESEEESTTS-TTSTTSHHHHHHHHHHTTSSSEEEETTST-EEEEEEHHHHHHHHHHHHHHHTT-ST...TEEEEES CS
                Epimerase 163 naiilrlfnlyGprngegevsrvipalirkilegkqevtllgdgtalRdflyveDvaeaillvlehvdagdk...geiyniG 241
                              ++ + r  n++G +  +   +r+ip  ir+  + + +v +  + +a R++ +v +   ++ll++ +  +g +   ge +niG
  PHY93_13960|PHY93_13960 183 SIATARAGNVIGGG--DWAANRIIPDCIRSWTKSE-SVQI-RNPEATRPWQHVLEPLSGYLLLASELLEGVEglnGESFNIG 260
                              *************9..888**************99.8888.579******************99998777666668899998 PP

>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.9   0.0   1.4e-12   4.2e-09      50     209 ..      53     234 ..      41     291 .. 0.73

  Alignments for each domain:
  == domain 1  score: 35.9 bits;  conditional E-value: 1.4e-12
                              TTEEEE....E--TT-HHHHHHHTT..T-SEEEE------HHHHHHSHHHHHHHHHHHHHHHHHHHHHT.T-SEEEEEEEGGGSS- CS
          Polysacc_synt_2  50 kklkveivpvigdvrdkerlekaleelkvdvvfhaAAlKhVPlveenpleaiktNvlgtenvieaaiea.gvkkvvliStDKAvnP 134
                               +l+ +i+ v g++ + +++ k l+++k+d++fh  A   V  + e+p +a+ tN +gt nv+ea  ++   k+vv++ +DK  + 
  PHY93_13960|PHY93_13960  53 AHLDQNILDVRGNIVNYNEILKFLTDFKPDILFHMGANAIVSDCLEHPQDAFLTNSFGTVNVLEAIRHTpSLKSVVIVTSDKCYEN 138
                              45777888899*****************************************************9876537999*********998 PP

                              -SH...............HHHHHHHHHHHHHHGGG--SSS-..-EEEEEEE-EETT....GTTSSHHHHHHHHHTTSSEEES-TT- CS
          Polysacc_synt_2 135 tnv...............mGatKrlaekllqalakeseekk..tkfvvvRfGNVlg....SrGSviplFkkqikeggpvtvTdpem 199
                              +                 + a+K++ae ++ ++ ++  +      +++ R GNV+g    +   +ip   +  ++ ++v + +pe 
  PHY93_13960|PHY93_13960 139 IEWefgyrendrlggkdpYSASKACAEIIFSSYFRTYLQFMphLSIATARAGNVIGggdwAANRIIPDCIRSWTKSESVQIRNPEA 224
                              864333333333333333669**********999988776556889999******9333335689999999999999999999999 PP

                              EEEEE-HHHH CS
          Polysacc_synt_2 200 tRyfmtieea 209
                              tR +  + e 
  PHY93_13960|PHY93_13960 225 TRPWQHVLEP 234
                              9987766554 PP

>> RmlD_sub_bind  RmlD substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.9   0.0   2.6e-08   7.6e-05       2     134 ..      11     166 ..      10     176 .. 0.93

  Alignments for each domain:
  == domain 1  score: 21.9 bits;  conditional E-value: 2.6e-08
                              EEEEESTTSHHHHHHHHHCTTTSEEEEEE-TT....................T--TTSHHHHHHHHHHH--SEEEE------HHHH CS
            RmlD_sub_bind   2 kilvtGanGqlGseLakqlaeeglevlaltre....................eldltdaeavaellkeakpdvvvnaAAytavDka 67 
                              k+ v+G +G  Gs L++ l++ g+ev +++++                    + ++ + +++ ++l ++kpd++ +++A   v  +
  PHY93_13960|PHY93_13960  11 KVAVIGHTGFKGSWLTAWLNQLGAEVAGFSKDipttpshfelahldqnildvRGNIVNYNEILKFLTDFKPDILFHMGANAIVSDC 96 
                              6899*************************999******************9999******************************** PP

                              HHSHHHHHHHHTHHHHHHHHHHHHCT-..EEEEEEEGGGS-S-TTS-.B-TTS----SSHHHHHHHHHHH CS
            RmlD_sub_bind  68 EseeeaayavnaeavealAeaaaavga..lLihvStDyVFdGekkrp.YeeddetsPlnvYGrtKlaGEq 134
                               ++++ a+  n+ ++ ++ ea +++ +   ++ v +D  ++  + +  Y+e+d+ + +  Y ++K+  E 
  PHY93_13960|PHY93_13960  97 LEHPQDAFLTNSFGTVNVLEAIRHTPSlkSVVIVTSDKCYENIEWEFgYRENDRLGGKDPYSASKACAEI 166
                              **********************99876335999999*****9988877*****************98885 PP

>> NAD_binding_4  Male sterility protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0   1.4e-06    0.0041      89     208 ..      82     194 ..      74     225 .. 0.76

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 1.4e-06
                              -EEEE--SS-S.ST...TSSEEHHHHHHHHHHHHHHHTSSS--.-EEEEEEGGGTTS-TTT--SSS-H......HHH--EEEETTT CS
            NAD_binding_4  89 dviihsaAtvnfde...pykellrvNveGtrevlelakklkklkvllhvSTayvngeregeveekvyeegekeekldederaklkg 171
                              d+ +h++A+  + +   + ++++ +N  Gt++vle  + + +lk+++ v +  ++++ e e+               +  +++  g
  PHY93_13960|PHY93_13960  82 DILFHMGANAIVSDcleHPQDAFLTNSFGTVNVLEAIRHTPSLKSVVIVTSDKCYENIEWEF---------------GYRENDRLG 152
                              78899999875554111667899****************************99999999765...............778889999 PP

                              CCCHHHHHHHHHHHHHHHHHHHH---......EEEEEE-EEE- CS
            NAD_binding_4 172 lpntYeqsKalaEklvrearrrsglp......vvivRpsiitg 208
                               ++ Y+ sKa+aE +  +++r   l+      ++  R ++++g
  PHY93_13960|PHY93_13960 153 GKDPYSASKACAEIIFSSYFRT-YLQfmphlsIATARAGNVIG 194
                              9***************999965.44422222256666666666 PP

>> Oxidored_nitro  Nitrogenase component 1 type Oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   5.9e-05      0.18     266     347 ..       3      85 ..       1      98 [. 0.79

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 5.9e-05
                              HHHHHTT-EEEEECSSHHHHHH.HHHHHHHT-EEEEEEESSS-HHHHHHHHHHS.TT.SEEEES..CHHHHHHHHHHHT-SEEE CS
           Oxidored_nitro 266 yheylagkrvaiygdpdrvval.arllkelGmevvaagtetahrddeerlkaeleegepevidd.adleeleelikelkpdlll 347
                              +++++++k+va++g   +  ++ ++ l++lG+ev++ +   ++ + + +l  +l+++  +v  + +++ e+ +++ + kpd+l+
  PHY93_13960|PHY93_13960   3 FKNKFKNKKVAVIGHTGFKGSWlTAWLNQLGAEVAGFSKDIPTTPSHFELA-HLDQNILDVRGNiVNYNEILKFLTDFKPDILF 85 
                              68899**********9776665166677**********9999999884444.35555234555558899*************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (364 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       555  (0.0309554); expected 358.6 (0.02)
Passed bias filter:                      504  (0.0281109); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.58u 0.29s 00:00:00.86 Elapsed: 00:00:00.47
# Mc/sec: 2340.33
//
Query:       PHY93_13965|PHY93_13965  [L=253]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.9e-20   71.2   0.0    1.6e-19   70.4   0.0    1.3  1  NTP_transferase  Nucleotidyl transferase
    3.8e-05   24.1   0.0    5.6e-05   23.6   0.0    1.3  1  NTP_transf_3     MobA-like NTP transferase domain
  ------ inclusion threshold ------
       0.17   11.9   0.1       0.59   10.1   0.0    1.9  2  RL               RL domain


Domain annotation for each model (and alignments):
>> NTP_transferase  Nucleotidyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.4   0.0   2.8e-23   1.6e-19       2     192 ..       3     201 ..       2     231 .. 0.82

  Alignments for each domain:
  == domain 1  score: 70.4 bits;  conditional E-value: 2.8e-23
                              EEEE--S--GGGTTCCTTSSGGGSEETTETETTHHHHHHHHHTT-SEEEEEEETTTHHHHHHHHTTSGGGT.........SEEEEE CS
          NTP_transferase   2 avILaGGsGtRLwPLtrtlakklvpvlgkerliqatlsrlansgieeiivvltqehsflveeqlkegskfg.........vevlia 78 
                               v+L+GG GtRL   t+ ++k++v v++  +++ + ++  +++gie+  v    ++++ ++e + + + ++          +v+ +
  PHY93_13965|PHY93_13965   3 VVLLCGGLGTRLSEETHLVPKPMVRVGDM-PILLHIMNMYSKHGIED-FVLALGFKAEVIKEFFLNFYALSndlrinlsnGSVEHL 86 
                              699**************************.*****************.77777799999999999999999887766555344444 PP

                              EESS--..........BGGHHHHHTHHHHTTSSE..EEEEETTEEEESTTHHHHHHHHHTHSSTTSEEEEEEESS-CTTSEEEEEC CS
          NTP_transferase  79 lepegk..........gtAdAvalaaelledeksdelvlvLggDhlikdayeeavkkaiekaakgtvtfgivpveeateyGviead 154
                               e+ ++          +t    +la++  +    +e+++   gD + + +++e++k+++++++  ++tf  + v++++++Gvie+ 
  PHY93_13965|PHY93_13965  87 RESHKDwkidlidtglNTLTGGRLARLKKHVG--NETFMLTYGDGVSDINITELIKFHKAHGK--IATF--TAVRPPSRFGVIEFV 166
                              44444489999965555555555555444333..679**************************..6666..6789**********9 PP

                              TTSBEEEEECS-SSHSHCSEECCSEEEEETTHHHHHHH CS
          NTP_transferase 155 eegrverfvEKPkeakaselassGiYvfnsevllflak 192
                              ++ ++ +f+EKP++++   +++ G +vf++ +++++ +
  PHY93_13965|PHY93_13965 167 GN-KAVSFKEKPQTQD--GWINGGFFVFEPAIFDYIEE 201
                              96.6779*******99..8***************9943 PP

>> NTP_transf_3  MobA-like NTP transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.6   0.0   9.4e-09   5.6e-05       1      49 [.       3      56 ..       3      93 .. 0.88

  Alignments for each domain:
  == domain 1  score: 23.6 bits;  conditional E-value: 9.4e-09
                             EEEEEESS-TTTTT.....THHHHCCCCCCHHHHHHHHHCTT.-CEEEEECSHC CS
             NTP_transf_3  1 aviLAGGrSsRmgg.....dKallplggkpllervldalraagvdevvvvggde 49
                             +v+L+GG ++R+ +     +K+++++g+ p+l +++++ +++g+++ v++ g +
  PHY93_13965|PHY93_13965  3 VVLLCGGLGTRLSEethlvPKPMVRVGDMPILLHIMNMYSKHGIEDFVLALGFK 56
                             699*********9667889***************************99998774 PP

>> RL  RL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.0   9.9e-05      0.59      23      63 ..     131     171 ..     128     176 .. 0.90
   2 ?   -2.0   0.0       0.6   3.6e+03      36      56 ..     180     200 ..     178     203 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 9.9e-05
                       RL  23 skisekkllkylsqhGkinkhFfYeskgvyavvEFsekesi 63 
                              s+i++++l+k+   hGki ++        + v+EF  + ++
  PHY93_13965|PHY93_13965 131 SDINITELIKFHKAHGKIATFTAVRPPSRFGVIEFVGNKAV 171
                              689*******************99*9*********877665 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.6
                       RL  36 qhGkinkhFfYeskgvyavvE 56 
                              q G in  Ff ++ +++  +E
  PHY93_13965|PHY93_13965 180 QDGWINGGFFVFEPAIFDYIE 200
                              679999999988888876665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (253 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       382  (0.0213063); expected 358.6 (0.02)
Passed bias filter:                      366  (0.0204139); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.54u 0.26s 00:00:00.80 Elapsed: 00:00:00.47
# Mc/sec: 1632.13
//
Query:       PHY93_13970|PHY93_13970  [L=304]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.6e-31  109.4   1.0      5e-31  107.8   0.2    1.9  2  Glycos_transf_2  Glycosyl transferase family 2
    6.8e-22   78.2   1.6    2.6e-20   73.1   1.5    2.1  1  Glyco_tranf_2_2  Glycosyltransferase like family 2
    1.7e-15   57.5   0.0    6.6e-15   55.6   0.0    1.8  1  Glyco_tranf_2_3  Glycosyltransferase like family 2
    8.9e-07   29.0   0.0    1.4e-06   28.4   0.0    1.3  1  Glyco_trans_2_3  Glycosyl transferase family group 2
    5.1e-05   22.8   0.0    8.7e-05   22.1   0.0    1.3  1  Glyco_transf_21  Glycosyl transferase family 21
     0.0011   18.8   0.8     0.0016   18.1   0.2    1.6  2  Glyco_tranf_2_5  Glycosyltransferase like family
  ------ inclusion threshold ------
      0.011   16.2   0.2      0.029   14.9   0.2    1.7  1  Glyco_tranf_2_4  Glycosyl transferase family 2
      0.041   13.5   0.0      0.083   12.6   0.0    1.4  1  Glyco_transf_7C  N-terminal domain of galactosyltransferase


Domain annotation for each model (and alignments):
>> Glycos_transf_2  Glycosyl transferase family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  107.8   0.2   2.3e-34     5e-31       1     129 [.      13     137 ..      13     172 .. 0.88
   2 ?    0.1   0.0      0.28   6.2e+02     123     163 ..     218     268 ..     199     274 .. 0.66

  Alignments for each domain:
  == domain 1  score: 107.8 bits;  conditional E-value: 2.3e-34
                              EEEEEESS-TTTHHHHHHHHHHHGGCCEEEEEEEEES-SSCHHHHHGGGCHC-TTEEEEEESSS-HHHHHHHHHHHH--SSEEEEE CS
          Glycos_transf_2   1 svviptyNeektlletlesllaqdpypdfeiivvDDgStDetveileelakedprvrvirreenvGkagalnaglraatgdyilfl 86 
                              sv++ptyN +++++++l+sl++q +++++e +vv++ S+D+t e++e+++  d+r+ vi   +n   a+++n g+++++  yi+fl
  PHY93_13970|PHY93_13970  13 SVIVPTYNHAHLIKKALTSLIEQ-THQNWEALVVNNYSEDNTIEVIESFQ--DKRINVINFHNNGSIAASRNVGIKESKAPYIAFL 95 
                              8**********************.*************************6..8********************************* PP

                              ESSEEE-TTHHHHHHHHHHH.TTCEEEEEEEEEECCCCCCCHC CS
          Glycos_transf_2  87 DaDdepdpdwleklvealekdgadvvlgqrprifgetdeiern 129
                              D+Dd++ p++lek ++++  d+a   +++   i +++++i++ 
  PHY93_13970|PHY93_13970  96 DSDDYWYPKKLEKCLNKIITDNA-DLCVNSEIIISNKKPIKPL 137
                              ********************777.5666666666666666665 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.28
                              CCCCCHC-SS..........EEEECCHCCCCHCCCCCCSTTCSTCCCEEEE CS
          Glycos_transf_2 123 tdeiernkrv..........generlyfkerkrslkgnlsfeigsaallrr 163
                              + + e++++           ++ +++++  +kr ++ nl++e+g +a + +
  PHY93_13970|PHY93_13970 218 SSFVEKHHKAivnvlekylqEFPNNFKTSVNKRIRYANLFYETGRNATRQK 268
                              444444444456666666667788888888888888888888888887655 PP

>> Glyco_tranf_2_2  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.1   1.5   1.1e-23   2.6e-20       1     206 [.      13     200 ..      13     227 .. 0.81

  Alignments for each domain:
  == domain 1  score: 73.1 bits;  conditional E-value: 1.1e-23
          Glyco_tranf_2_2   1 svviplraseerhyieervlqkakyydeeielivvddgSsekfleevssiidlnllv.ylkdeddkayslaaarNrGaskaesdlv 85 
                              sv++p +++ +   i+  +     +  ++ e +vv+++S ++++e+++s+ d++ +v  +++      s aa+rN G++++++ ++
  PHY93_13970|PHY93_13970  13 SVIVPTYNHAHL--IKKALTSLIEQTHQNWEALVVNNYSEDNTIEVIESFQDKRINViNFHN----NGSIAASRNVGIKESKAPYI 92 
                              7999**999766..***99777777778***************************9944444....469***************** PP

          Glyco_tranf_2_2  86 lFlDaDcfissDkfekilklitikklrenidaavvlpvvdlnkedsevlkdvedltassrvledllaakstlvkffapssssilin 171
                               FlD+D+++ + k+ek l+    k + +n d  v   ++  nk+  + l  ++            l++   l +    s+ss+l++
  PHY93_13970|PHY93_13970  93 AFLDSDDYWYPKKLEKCLN----KIITDNADLCVNSEIIISNKKPIKPLICGNKEQ---------LTYFHLLFRGNCISTSSVLMK 165
                              ******************9....667777777777777766776666555444332.........33333333444557799**** PP

          Glyco_tranf_2_2 172 rraflevGGyDErfrGhgaEDfdlllRlakaiksl 206
                              ++ + +vGG++E  +  +aED+dl lR+ak+   +
  PHY93_13970|PHY93_13970 166 KNCIDHVGGFNEDSQMITAEDYDLWLRIAKKNYRF 200
                              *****************************987666 PP

>> Glyco_tranf_2_3  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.6   0.0     3e-18   6.6e-15       4     227 ..      12     253 ..      11     255 .. 0.86

  Alignments for each domain:
  == domain 1  score: 55.6 bits;  conditional E-value: 3e-18
          Glyco_tranf_2_3   4 lavlVptfneedvlgevlesllaqeyprvevvvvvdesdaetlevaeelaaalpdvrvrvvvnarnlgstgksralnealravksd 89 
                              ++v+Vpt+n +  + + l+sl+ q++ + e  vv + s++ t+ev+e     ++d r++v+   +  gs ++sr  n +++  k  
  PHY93_13970|PHY93_13970  12 VSVIVPTYNHAHLIKKALTSLIEQTHQNWEALVVNNYSEDNTIEVIES----FQDKRINVINFHN-NGSIAASR--NVGIKESKAP 90 
                              79********************************************86....9*99***997755.56557777..9********* PP

          Glyco_tranf_2_3  90 lvllvDdDtvvePdtlkrllqffltpkvgavgtpvfllnrstlvsalgalefaerhlrflaarralgvltlnGsgslirrevlkel 175
                              +++++D+D+ + P  l++ l+ + t++++    ++     ++ + +l +     ++ +   +++ ++  ++++s +l+   + ++ 
  PHY93_13970|PHY93_13970  91 YIAFLDSDDYWYPKKLEKCLNKIITDNADLCVNSEIIISNKKPIKPLIC----GNKEQLTYFHLLFRGNCISTSSVLMKKNCIDHV 172
                              ***********************9**99999999988899999999988....667777889999***99**************** PP

          Glyco_tranf_2_3 176 egldp..lflltdDyelglrlrragfrtayvpgaa...........................vrevfpsslkayikqrnRw 227
                              +g+ +  + ++++Dy+l+lr+ + ++r   v + +                              +fp ++k +++ r R+
  PHY93_13970|PHY93_13970 173 GGFNEdsQMITAEDYDLWLRIAKKNYRFTHVDEILgghlqhssnsssfvekhhkaivnvlekYLQEFPNNFKTSVNKRIRY 253
                              *99999888888***************999988887777777777777777777765543333333777777777777665 PP

>> Glyco_trans_2_3  Glycosyl transferase family group 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.4   0.0   6.1e-10   1.4e-06       1     144 [.      91     257 ..      91     300 .. 0.73

  Alignments for each domain:
  == domain 1  score: 28.4 bits;  conditional E-value: 6.1e-10
          Glyco_trans_2_3   1 iilllDaDtvlppdclreiaaelaspevaivqgpvlvmnvanwleelaalffaedhgkdilvrealgrvvpsvGsgaflrrsalqe 86 
                              +i++lD+D+   p  l+++++ + +++++++    ++  +++ +  l++    +  +++ l+r ++     + +s ++     ++ 
  PHY93_13970|PHY93_13970  91 YIAFLDSDDYWYPKKLEKCLNKIITDNADLCVNSEIIISNKKPIKPLICGNKEQLTYFHLLFRGNC-----ISTSSVLMKKNCIDH 171
                              689999999999999999999888779999998877776788999999999999999999999555.....88999********** PP

          Glyco_trans_2_3  87 vggwdgdes.svsEDfdmglrlqrkGyrvrfvpes.lvkeksplt..........................lraalrQrkRwayGc 144
                              vgg++ d++  ++ED+d++lr+++k+yr+ +v+e  + + +++++                          +++ ++ r R+a   
  PHY93_13970|PHY93_13970 172 VGGFNEDSQmITAEDYDLWLRIAKKNYRFTHVDEIlGGHLQHSSNsssfvekhhkaivnvlekylqefpnnFKTSVNKRIRYANLF 257
                              *****66556889*******************776644555555434455555555555555555555555888888888888775 PP

>> Glyco_transf_21  Glycosyl transferase family 21
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.1   0.0   3.9e-08   8.7e-05      25     151 ..      83     208 ..      77     226 .. 0.89

  Alignments for each domain:
  == domain 1  score: 22.1 bits;  conditional E-value: 3.9e-08
          Glyco_transf_21  25 aleaakydllvisDsdvrvkpdyLeellaaledpkvglVtslpvgsdakglaaaleaaflntlagvlqaklsglgfavGksmalrr 110
                              ++++ k++++ ++Dsd    p++Le+ l+++ ++++ l +   +    k+  + l +   + l ++    + g +++  +s+++++
  PHY93_13970|PHY93_13970  83 GIKESKAPYIAFLDSDDYWYPKKLEKCLNKIITDNADLCVNSEIIISNKKPIKPLICGNKEQLTYFHLL-FRG-NCISTSSVLMKK 166
                              678899*************************999****9999999999999999*9*******999999.999.9*********** PP

          Glyco_transf_21 111 eaLeaiGGfealadeL.AeDyalgkllraaGlkvvlspapia 151
                              + ++ +GGf++ ++ + AeDy l  +++++++++ ++++ + 
  PHY93_13970|PHY93_13970 167 NCIDHVGGFNEDSQMItAEDYDLWLRIAKKNYRFTHVDEILG 208
                              ***********9988779*****************9998644 PP

>> Glyco_tranf_2_5  Glycosyltransferase like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.2   7.3e-07    0.0016      17      79 ..      52     114 ..      42     123 .. 0.83
   2 ?   -2.6   0.0       1.7   3.7e+03     160     183 ..     210     233 ..     164     254 .. 0.68

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 7.3e-07
          Glyco_tranf_2_5  17 sylenlevpegyeveiiairnaksiaeaynkalsasdakykvYlhqDvliinkdfikdlleiF 79 
                              + +e +e  ++  +++i+ +n+ sia+  n ++++s+a y  +l+ D +   k++ k l +i 
  PHY93_13970|PHY93_13970  52 NTIEVIESFQDKRINVINFHNNGSIAASRNVGIKESKAPYIAFLDSDDYWYPKKLEKCLNKII 114
                              468889999999**********************************98887777766665555 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 1.7
          Glyco_tranf_2_5 160 hfYdvsqslefekagykvvVpnqe 183
                              h+   s s +f ++  k +V   e
  PHY93_13970|PHY93_13970 210 HLQHSSNSSSFVEKHHKAIVNVLE 233
                              444555555555555555555444 PP

>> Glyco_tranf_2_4  Glycosyl transferase family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.2   1.3e-05     0.029       2      84 ..      20     101 ..      19     111 .. 0.68

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 1.3e-05
          Glyco_tranf_2_4   2 neadiLpeflahhlalgfd..rilvydndstDgtrailkelpe..vkllhvdksyederrqvellkallaryaeadwvlvvDaDEf 83 
                              n a+++++ l+ + +   +  + lv++n s+D+t +++++ ++  +++++++++ +     +++ +++  + ++a +++++D+D +
  PHY93_13970|PHY93_13970  20 NHAHLIKKALTSLIEQTHQnwEALVVNNYSEDNTIEVIESFQDkrINVINFHNNGS-----IAASRNVGIKESKAPYIAFLDSDDY 100
                              78888888888765543331369***************996443366666666543.....3444444444468999999999987 PP

          Glyco_tranf_2_4  84 l 84 
                               
  PHY93_13970|PHY93_13970 101 W 101
                              4 PP

>> Glyco_transf_7C  N-terminal domain of galactosyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   3.7e-05     0.083      24      66 ..     162     204 ..     145     214 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 3.7e-05
          Glyco_transf_7C  24 lalrkedfekiNGfsntfwgWGgEDdelyaRlakkgleierpe 66 
                              ++++k+    ++Gf++       ED +l+ R+akk++++++++
  PHY93_13970|PHY93_13970 162 VLMKKNCIDHVGGFNEDSQMITAEDYDLWLRIAKKNYRFTHVD 204
                              5677777889****************************99876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (304 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1031  (0.0575046); expected 358.6 (0.02)
Passed bias filter:                      511  (0.0285013); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.56u 0.26s 00:00:00.82 Elapsed: 00:00:00.45
# Mc/sec: 2036.13
//
Query:       PHY93_13975|PHY93_13975  [L=308]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.7e-27   96.4   0.0    2.1e-27   96.2   0.0    1.0  1  Epimerase        NAD dependent epimerase/dehydratase family
    3.1e-16   59.2   0.0    4.5e-16   58.7   0.0    1.2  1  3Beta_HSD        3-beta hydroxysteroid dehydrogenase/isomeras
    6.9e-16   58.6   0.0      8e-16   58.3   0.0    1.0  1  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
      2e-15   56.6   0.0    2.8e-15   56.2   0.0    1.3  1  RmlD_sub_bind    RmlD substrate binding domain
    1.4e-12   47.9   0.0    1.9e-12   47.5   0.0    1.3  1  NAD_binding_10   NAD(P)H-binding
    1.8e-09   37.2   0.0    8.5e-09   35.0   0.0    2.0  2  Polysacc_synt_2  Polysaccharide biosynthesis protein
      4e-09   36.0   0.0    6.3e-05   22.3   0.0    2.4  2  NAD_binding_4    Male sterility protein
     0.0048   16.5   0.0      0.052   13.1   0.0    2.1  2  NmrA             NmrA-like family
  ------ inclusion threshold ------
      0.067   13.3   0.0       0.15   12.2   0.0    1.6  1  DapB_N           Dihydrodipicolinate reductase, N-terminus


Domain annotation for each model (and alignments):
>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   96.2   0.0     1e-30   2.1e-27       1     241 []       4     238 ..       4     238 .. 0.88

  Alignments for each domain:
  == domain 1  score: 96.2 bits;  conditional E-value: 1e-30
                              EEEETTTSHHHHHHHHHHHHCT.SE.EEEEES-STTTTCHHCHHCEEEE--TT-HHHHHHHHHHHT-SEEEE--S---HHHHHHSH CS
                Epimerase   1 ilVtGatGfiGsalvkallekg.ye.vigldrlssasntarledlelveldltdrsalerlfkeeqpdavihlAavggvaassedp 84 
                              il+tGa+Gf+G  + + l + + y+ v+g+   s+ s   + +++e+ + +l d++   +++   ++dav+hlAa  ++a+  ++p
  PHY93_13975|PHY93_13975   4 ILITGASGFLGDKIFDSLSSLNeYKlVLGVRDPSKISGIDKFKNAEIRYFNLVDDATYFQALV--GVDAVVHLAA-MDYADCEKNP 86 
                              8********************999977777777555555555555999999999999888888..9*******77.89999***** PP

                              HHHHHHHTHHHHHHHHHHHHHTCTEEEEEEEGGGGTSCSSSSBSTCSTTS----SSHHHHHHHHHHHHHHHHHHHHT-EEEEEEES CS
                Epimerase  85 adfieknlqgtlnlleaarkagvkrllflsSsevYGkdaeqpkeettltgplkpnspYaaaKlageklveayaaqyglnaiilrlf 170
                              +  ++ n+++    +  ++++gvk+++++s+ +vYG++ e   +e+t    ++p + Y+ + l +ek+v +     g++ i++rl+
  PHY93_13975|PHY93_13975  87 ELAWKVNVNLLEAFFLKCKESGVKQFVYFSTFHVYGPSLEGVITEET---VTNPVNNYSKTHLEAEKIVLS---NLGIEGIVVRLS 166
                              **************************************994356666...46999***************6...569********* PP

                              EEESTT.S-TTS.TTSHHHHHHHHHHTTSSSEEEETTST-EEEEEEHHHHHHHHHHHHHHHTT-STTEEEEES CS
                Epimerase 171 nlyGpr.ngege.vsrvipalirkilegkqevtllgdgtalRdflyveDvaeaillvlehvdagdkgeiyniG 241
                              n +G+  + +++  + v+  l +++ + + +++l ++g++lRdf+ ++ v  ai ++le+ ++ ++  iyn+G
  PHY93_13975|PHY93_13975 167 NAIGKPlHADSSaWKLVVNDLCKQAVTSR-KIVLQSTGKQLRDFIPASVVGFAIDTILEKNSTINASAIYNLG 238
                              *****976666656666677777777777.******************************99999999***98 PP

>> 3Beta_HSD  3-beta hydroxysteroid dehydrogenase/isomerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.7   0.0   2.3e-19   4.5e-16       1     160 [.       5     155 ..       5     167 .. 0.86

  Alignments for each domain:
  == domain 1  score: 58.7 bits;  conditional E-value: 2.3e-19
                3Beta_HSD   1 vvtGgaGFlGralvkeLvrleelkevrvlDlrespelleelskvnvkkviegDvtdkdkleealegvdvvihlaslvdvagklted 86 
                              ++tG++GFlG ++  +L +l+e k   vl +r+ +++ + + k++++++ +  + d ++  +al gvd+v+hla++     + + +
  PHY93_13975|PHY93_13975   5 LITGASGFLGDKIFDSLSSLNEYKL--VLGVRDPSKI-SGIDKFKNAEIRYFNLVDDATYFQALVGVDAVVHLAAMDYADCEKNPE 87 
                              69******************98554..4556555544.77888888888899*********************9988888899*** PP

                3Beta_HSD  87 eimkvnvkGTrnvleacvkagvrvlvYtSsaevvgpnslgeeilngdEeleyeslhqdaypesKalaEklvlka 160
                                 kvnv+  +     c+++gv+ +vY S+  v gp    e ++    ++e  +++++ y+++   aEk+vl+ 
  PHY93_13975|PHY93_13975  88 LAWKVNVNLLEAFFLKCKESGVKQFVYFSTFHVYGP--SLEGVI----TEETVTNPVNNYSKTHLEAEKIVLSN 155
                              ************************************..444455....34445678999************975 PP

>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.3   0.0     4e-19     8e-16       1     279 [.       5     261 ..       5     301 .. 0.79

  Alignments for each domain:
  == domain 1  score: 58.3 bits;  conditional E-value: 4e-19
                              EEETTTSHHHHHHHHHHHHC.T-CCEEEEEEESS-TTHHHHHCTTT...TTGCCEEEEE--TT-HHHHHHHHHHHT-SEEEE--S- CS
            GDP_Man_Dehyd   1 LiTGiaGfiGsylaelLlek.gyevhgivrrsssfntgriehlakdpkeeleenlklhkgDltDssslerllaevqpdevynLAAq 85 
                              LiTG +Gf G  + + L +  +y+ +  vr+ s+  ++ i++ +         n ++ + +l D +   ++l  v  d+v++LAA+
  PHY93_13975|PHY93_13975   5 LITGASGFLGDKIFDSLSSLnEYKLVLGVRDPSK--ISGIDKFK---------NAEIRYFNLVDDATYFQALVGV--DAVVHLAAM 77 
                              9****************98625666555666665..55777764.........45789******99888888776..9******** PP

                              --HHHHTTSHHHHHHHHTHHHHHHHHHHH.HCT..TTSEEEEEEEGGGG-S-SSSSB-TTS-----SHHHHHHHHHHHHHHHHHHH CS
            GDP_Man_Dehyd  86 shVdvsfekPeytaevnvlGtlrLLeair.alglekkvrfyqaStsEvYGkvqevpqtEttpfyPrsPYaaaKlyadwivvnyrea 170
                                 d   ++Pe  ++vnv    +LLea   +++ +  ++f+  St  vYG   e  +tE+t ++P + Y+ + l a+ iv     +
  PHY93_13975|PHY93_13975  78 DYADCE-KNPELAWKVNV----NLLEAFFlKCKESGVKQFVYFSTFHVYGPSLEGVITEETVTNPVNNYSKTHLEAEKIVL---SN 155
                              *99875.77*******86....78888742444445579****************************************96...57 PP

                              H---EEEEEE-EEES.TTS-TTSCCCHHHHHHHHHHTTS-C-EECTTTT-EEEEEEHHHHHHHHHHHHHCSS---EEE-TT-EEEC CS
            GDP_Man_Dehyd 171 yglfavngilfnhes.prrgetfvtrkitravarialgkqevlylGnldakRdwghvkDyveamwlmlqqdkpedyviatgethsv 255
                               g+  ++ +l+n  + p +  +   +++++ +++ a+  ++++    +++ Rd+  ++ +  a++++l+++++    i+    +++
  PHY93_13975|PHY93_13975 156 LGIEGIVVRLSNAIGkPLHADSSAWKLVVNDLCKQAVTSRKIVLQSTGKQLRDFIPASVVGFAIDTILEKNST----INASAIYNL 237
                              899999999***887477777899999*******99999999999************************9763....555566666 PP

                              HHCHHCCHHCCCHHHHHH...... CS
            GDP_Man_Dehyd 256 refvelaflelgktiewegkgeee 279
                              ++   l++l+++k i++e ++  +
  PHY93_13975|PHY93_13975 238 GSGKSLSILDIVKIIQKECQDLYQ 261
                              666666666666655554443333 PP

>> RmlD_sub_bind  RmlD substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.2   0.0   1.4e-18   2.8e-15       2     151 ..       3     168 ..       1     273 [. 0.83

  Alignments for each domain:
  == domain 1  score: 56.2 bits;  conditional E-value: 1.4e-18
                              EEEEESTTSHHHHHHHHHCTTTSEEEEEE-TT.................T--TTSHHHHHHHHHHH--SEEEE------HHHHHHS CS
            RmlD_sub_bind   2 kilvtGanGqlGseLakqlaeeglevlaltre.................eldltdaeavaellkeakpdvvvnaAAytavDkaEse 70 
                              +il+tGa+G lG ++ ++l++ +   l l+ +                  ++l d ++  ++l     d+vv++AA    D +E++
  PHY93_13975|PHY93_13975   3 TILITGASGFLGDKIFDSLSSLNEYKLVLGVRdpskisgidkfknaeirYFNLVDDATYFQALV--GVDAVVHLAAMDYAD-CEKN 85 
                              59******************97655555554458999999999966655556555555555554..5899******86665.9*** PP

                              HHHHHHHHTHHHHHHHHHHHHCT-E.EEEEEEGGGS-S-TTS-B-TTS----SSHHHHHHHHHHHHHHHH-S.SEEEEEE-SE CS
            RmlD_sub_bind  71 eeaayavnaeavealAeaaaavgal.LihvStDyVFdGekkrpYeeddetsPlnvYGrtKlaGEqavlaagk.kalivRtswv 151
                              +e+a +vn++  ea    +++ g++ +++ St  V+  + +   +e+  t+P+n Y +t l+ E+ vl++   + ++vR s  
  PHY93_13975|PHY93_13975  86 PELAWKVNVNLLEAFFLKCKESGVKqFVYFSTFHVYGPSLEGVITEETVTNPVNNYSKTHLEAEKIVLSNLGiEGIVVRLSNA 168
                              ***********************9549*****************************************965549999999865 PP

>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.5   0.0   9.5e-16   1.9e-12       1     144 [.       8     166 ..       8     204 .. 0.82

  Alignments for each domain:
  == domain 1  score: 47.5 bits;  conditional E-value: 9.5e-16
                              TTTSHHHHHHHHHHHHC-T-EEEEEETTHHHCHHHHCTTTCEEEE--TT-CCHHHHHHTT-SEEEES---TCC..HHHH....... CS
           NAD_binding_10   1 GAtGkvGrllvkellargghevtalvRnpeklaeleaeeglevvegdvtdvedlaealkgadaVvsalggggk..deeg....... 77 
                              GA+G  G ++ + l + +++++++ vR+p+k++ + + +++e+   ++ d ++  +al g+daVv  ++ +    +          
  PHY93_13975|PHY93_13975   8 GASGFLGDKIFDSLSSLNEYKLVLGVRDPSKISGIDKFKNAEIRYFNLVDDATYFQALVGVDAVVHLAAMDYAdcE--Knpelawk 91 
                              9********************************99888*************************9888855555331..23455777 PP

                              .HHHHHHH....HHHCT--EEEEEEETTTTSGCGCH..HHHHHHHCCHHHHHHHHHHHHH.HHHSSSEEEEEEE- CS
           NAD_binding_10  78 .aknivda....akeagvkRfvlvsaigvgdevpge..fgewnkellkaylaakraaeel.lrasgldwTivrpg 144
                                +n+++a    +ke+gvk+fv+ s+++v+  + +   ++e++++ +++y + + +ae++ l + g++  +vr +
  PHY93_13975|PHY93_13975  92 vNVNLLEAfflkCKESGVKQFVYFSTFHVYGPSLEGviTEETVTNPVNNYSKTHLEAEKIvLSNLGIEGIVVRLS 166
                              7777777655559****************97433322344566678899**********7356678888888865 PP

>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.0   0.0   4.2e-12   8.5e-09       1     130 [.       4     119 ..       4     170 .. 0.84
   2 ?   -0.5   0.0      0.26   5.3e+02     209     244 ..     218     253 ..     189     274 .. 0.84

  Alignments for each domain:
  == domain 1  score: 35.0 bits;  conditional E-value: 4.2e-12
                              EEEETTTSHHHHHHHHHHHHHB-SEEEEEES-HHHHHHHHHH......-TTEEEE....E--TT-HHHHHHHTT..T-SEEEE--- CS
          Polysacc_synt_2   1 vlvtGagGsiGselvrqilkkkpkkiillerdElklyeiekeleeelkkkklkveivpvigdvrdkerlekaleelkvdvvfhaAA 86 
                              +l+tGa+G +G ++ + + + +  k++l  rd  k+  i+k +     + +++++       v d++   +al   +vd+v+h AA
  PHY93_13975|PHY93_13975   4 ILITGASGFLGDKIFDSLSSLNEYKLVLGVRDPSKISGIDKFK-----NAEIRYF-----NLVDDATYF-QALV--GVDAVVHLAA 76 
                              89*************************************9965.....4556556.....335555555.5555..6********* PP

                              ---HHHHHHSHHHHHHHHHHHHHHHHHHHHHTT-SEEEEEEEGG CS
          Polysacc_synt_2  87 lKhVPlveenpleaiktNvlgtenvieaaieagvkkvvliStDK 130
                              +     +e+np  a+k Nv   e     ++e+gvk++v+ St  
  PHY93_13975|PHY93_13975  77 MDYA-DCEKNPELAWKVNVNLLEAFFLKCKESGVKQFVYFSTFH 119
                              *876.59**********************************965 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.26
                              HHHHHHHHHHH--SS-EEEE--.-EEEHHHHHHHH. CS
          Polysacc_synt_2 209 avqLvlqalalakggeifvldmGepvkivdlakali 244
                              a++ +l+  ++ + + i+ l  G++++i+d++k + 
  PHY93_13975|PHY93_13975 218 AIDTILEKNSTINASAIYNLGSGKSLSILDIVKIIQ 253
                              566778888888899999999999999999988765 PP

>> NAD_binding_4  Male sterility protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.6   0.0   5.6e-05      0.11       1      44 [.       6      48 ..       6      64 .. 0.85
   2 !   22.3   0.0   3.2e-08   6.3e-05      86     229 ..      66     191 ..      52     219 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 5.6e-05
                             EE-TTSHHHHHHHHHHHHHS-.TEEEEEE-SSSHHHHHHHHHHH CS
            NAD_binding_4  1 lTGaTGFLGkvLlekLLrttpevkiyllvRaksgesaeeRleee 44
                             +TGa+GFLG  +   L + ++ +k++l vR  s+ s+ ++++++
  PHY93_13975|PHY93_13975  6 ITGASGFLGDKIFDSLSSLNE-YKLVLGVRDPSKISGIDKFKNA 48
                             8*************9998887.6*******99999999888654 PP

  == domain 2  score: 22.3 bits;  conditional E-value: 3.2e-08
                              HH--EEEE--SS..-S.STTSSEEHHHHHHHHHHHHHHHTSSS--.-EEEEEEGGGTTS-TTT--SSS-H......HHH--EEEET CS
            NAD_binding_4  86 eevdviihsaAt..vnfdepykellrvNveGtrevlelakklkklkvllhvSTayvngeregeveekvyeegekeekldederakl 169
                                vd+++h aA    + +++ + +++vNv+  +  +  +k+   + +++++ST  v+g + + v                 ++++ 
  PHY93_13975|PHY93_13975  66 VGVDAVVHLAAMdyADCEKNPELAWKVNVNLLEAFFLKCKESGVK-QFVYFSTFHVYGPSLEGV----------------ITEETV 134
                              579********744677778888********99999999998888.*******77777777555................677888 PP

                              TTCCCHHHHHHHHHHHHHHHHHHHH---EEEEEE-EEE--SSST---TTSHHHHHHHHHH CS
            NAD_binding_4 170 kglpntYeqsKalaEklvrearrrsglpvvivRpsiitgesktGwingsdlgirgllgli 229
                              ++  n Y+++  +aEk+v +     g+  ++vR+s+ +g++    +   +l+++ l+  +
  PHY93_13975|PHY93_13975 135 TNPVNNYSKTHLEAEKIVLSNL---GIEGIVVRLSNAIGKPLHADSSAWKLVVNDLCKQA 191
                              9999*****************9...9*************998876666665555554444 PP

>> NmrA  NmrA-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.1   0.0   2.6e-05     0.052       1     101 [.       4     116 ..       4     122 .. 0.85
   2 ?    1.0   0.0      0.13   2.5e+02     162     224 ..     193     255 ..     179     263 .. 0.71

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 2.6e-05
                              EEESSTTSHHHHHHHHHHHH.HT-EEEEEES-S.-SHHHHHHHHSTTEEEES-TT-HHHHHHHHTT-SEEEE---GG........S CS
                     NmrA   1 IlviGaTGrqGksvvrallk.aghkvralvRdt.kselakslkeaGvelvkgdlddkeslvealkgvdvvfsvtgfy........s 76 
                              Il++Ga+G +G  + + l + +++k    vRd+ k   ++++k+a  e+   +l d++   +al gvd+v    ++         +
  PHY93_13975|PHY93_13975   4 ILITGASGFLGDKIFDSLSSlNEYKLVLGVRDPsKISGIDKFKNA--EIRYFNLVDDATYFQALVGVDAVVHLAAMDyadceknpE 87 
                              89**************9999899**********66689****996..55567899999999*******999888877789999877 PP

                              -HHHHHHHHHHH....HHHHS-SEEEEEE CS
                     NmrA  77 keiedgkklvdA....akeaGvkhfiySs 101
                                 +  ++l +A     ke Gvk+f+y s
  PHY93_13975|PHY93_13975  88 LAWKVNVNLLEAfflkCKESGVKQFVYFS 116
                              77788889999955445999*****9855 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.13
                              TTS.-EEEEESS-TTS-EE-HHHHHHHHHHHHHHHHHHHTTEEEE..E-SEEE-HHHHHHHHHHH CS
                     NmrA 162 ppedkvtllgpgnpkavlldaeeDiGafvikilkdprklkgkrik..lagntlsgneivelfekk 224
                              +++ k++l+  g+    ++     +G ++  il++ +++++++i    +g+ ls  +iv++++k+
  PHY93_13975|PHY93_13975 193 TSR-KIVLQSTGKQLRDFI-PASVVGFAIDTILEKNSTINASAIYnlGSGKSLSILDIVKIIQKE 255
                              444.666666666555555.66668888888888888886666642268999********99997 PP

>> DapB_N  Dihydrodipicolinate reductase, N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   7.4e-05      0.15       3      72 ..       4      72 ..       2      95 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 7.4e-05
                             EEEETTTSHHHHHHHHHHHHSTTEEEEEEEETTCSTTTTTBHHHHSSSS--S-BEBSSHHHHHHH-SEEE CS
                   DapB_N  3 vavvGasGrmGkevvkaveeaedlelvaavdrkeselegkdagellglgklgvavtddleevlekadvli 72
                             ++++GasG +G ++ + +++ ++++lv +v  ++ +++g d  + ++++  ++   +++ ++l  +d ++
  PHY93_13975|PHY93_13975  4 ILITGASGFLGDKIFDSLSSLNEYKLVLGVRDPS-KISGIDKFKNAEIRYFNLVDDATYFQALVGVDAVV 72
                             89***************************99976.89999988777776666555555555555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (308 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       556  (0.0310112); expected 358.6 (0.02)
Passed bias filter:                      441  (0.024597); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.58u 0.30s 00:00:00.87 Elapsed: 00:00:00.47
# Mc/sec: 1950.78
//
Query:       PHY93_13980|PHY93_13980  [L=391]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.024   14.6   0.2      0.054   13.5   0.2    1.6  1  RecU      Recombination protein U


Domain annotation for each model (and alignments):
>> RecU  Recombination protein U
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.2     3e-06     0.054      44     102 ..     137     195 ..      96     204 .. 0.73

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 3e-06
                              EEEEE---SS-SEEEEETTEEEEEE.EEE---SSEEGGGS-HHHHHHHHHHHHTT-EEEE CS
                     RecU  44 teayfeqkstvDYiGvykgkyidfe.aKetkkktfplknihehQiehlkkvekqgGiaFl 102
                              +++ ++++  vDY+  + g  +  e  K+ + + fp+  i+++Qi+hl+k  +++ iaF+
  PHY93_13980|PHY93_13980 137 VDSSLQHQLAVDYMMTF-GSGVGGEySKSISGSVFPIGSIKNNQISHLEKSIQKDTIAFI 195
                              55667777777777444.4444444257888888*************************7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (391 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       579  (0.032294); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.59u 0.22s 00:00:00.81 Elapsed: 00:00:00.45
# Mc/sec: 2633.86
//
Query:       PHY93_05945|PHY93_05945  [L=363]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (363 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       525  (0.0292822); expected 358.6 (0.02)
Passed bias filter:                      334  (0.018629); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.25s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 2450.12
//
Query:       PHY93_13985|PHY93_13985  [L=230]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.1e-24   86.7   0.0    2.2e-24   86.6   0.0    1.1  1  CTP_transf_3  Cytidylyltransferase
  ------ inclusion threshold ------
      0.013   15.2   0.0      0.024   14.4   0.0    1.5  2  IspD          2-C-methyl-D-erythritol 4-phosphate cytidylyltr
      0.064   13.6   0.0      0.081   13.3   0.0    1.2  1  NTP_transf_3  MobA-like NTP transferase domain


Domain annotation for each model (and alignments):
>> CTP_transf_3  Cytidylyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.6   0.0   3.6e-28   2.2e-24       2     131 ..       9     140 ..       8     229 .. 0.77

  Alignments for each domain:
  == domain 1  score: 86.6 bits;  conditional E-value: 3.6e-28
                              EEEEE-SSSSSSTTGGGSEETTEEHHHHHHHHHHHTTTTSEEEEEES-HHHHHHHHHTTSEEEE--TTCSSHHHHHHHHHHHHTTT CS
             CTP_transf_3   2 aIipARsgSkRlpgKnlldlggkpliayvleaalkskafekvivaTDseeiknvakefgasvlvtrsslesdterflevvkaflms 87 
                              aIipAR gSk++  Kn+++l+gkplia+ +e+a+ksk ++++i+++D+ ei  vak  g++v + r+s+ + +++   +   ++m+
  PHY93_13985|PHY93_13985   9 AIIPARGGSKGVLRKNIRELAGKPLIAWSIEEAKKSKYIDRLILSSDDAEIISVAKTWGCEVPFVRPSELAIDATPGMEPVFHAME 94 
                              8*******************************************************************999888877777777777 PP

                              .TTS....EEEEE-TT-TT--HHHHHHHHHHHHHSTTSSEEEEEEETT CS
             CTP_transf_3  88 enee....iivnlqGdnPllqeevikkaietlkenqedylstlvkkvg 131
                                ++    iiv lq ++Pl + e+i+  ie+ +en+++  ++l+++ +
  PHY93_13985|PHY93_13985  95 --KVpgfdIIVLLQPTSPLRNVEDIDGTIERCLENDSNACVSLAEVEQ 140
                              ..334567***************************9885555544433 PP

>> IspD  2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0   4.1e-06     0.024       2      97 ..       8     105 ..       7     140 .. 0.66
   2 ?   -2.8   0.0      0.71   4.3e+03     202     220 ..     208     226 ..     205     227 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 4.1e-06
                              EEEEECTTSSCTT-SSS-GGGSEETTEEHHHHHHHHHHCTTTEEEEEEEE-GGGHHHHHHHHGG.....CCEEEEE--SSHHHHHH CS
                     IspD   2 vvvipAAGsGkRmkaglpKqflelkgqtllehtvdallaskavdkivvvvseddteefeqllld.....ksiqlvaGGdeRaesVl 82 
                               ++ipA G  k +   l K  +el+g++l++++++ + +sk +d++++  ++ ++  +++  +      ++ +l    +   e V+
  PHY93_13985|PHY93_13985   8 LAIIPARGGSKGV---LRKNIRELAGKPLIAWSIEEAKKSKYIDRLILSSDDAEIISVAKTWGCevpfvRPSELAIDATPGMEPVF 90 
                              6788888865543...67999************************99987766654444433333545545555555555666666 PP

                              HHHHTTSSTTSEEEE CS
                     IspD  83 nglkalegeakfVLv 97 
                              ++++ ++g + +VL+
  PHY93_13985|PHY93_13985  91 HAMEKVPGFDIIVLL 105
                              666666666555555 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 0.71
                              TG----SHHHHHHHHHHHH CS
                     IspD 202 dnlKittpeDlalAeailr 220
                                l i t+ Dl lAe +++
  PHY93_13985|PHY93_13985 208 RSLDIDTEFDLKLAELMIQ 226
                              578899999******9876 PP

>> NTP_transf_3  MobA-like NTP transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   1.4e-05     0.081      15     119 ..      22     132 ..      13     172 .. 0.70

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.4e-05
                              THHHHCCCCCCHHHHHHHHHCTT..-CEEEEECSHCHHHHHHTTCT..S-EEE-TTS..S-SHH.HHHHHHHHHH.SSSCEEEEET CS
             NTP_transf_3  15 dKallplggkpllervldalraag.vdevvvvggdeevlaalarlg..vrvvededp..gkgpl.aslaaalraaadadavlvlac 94 
                               K   +l+gkpl++++++ +++++ +d+++++ +d e+ + ++  g  v++v+ ++   ++ p+ + + +a++++++ d +++l  
  PHY93_13985|PHY93_13985  22 RKNIRELAGKPLIAWSIEEAKKSKyIDRLILSSDDAEIISVAKTWGceVPFVRPSELaiDATPGmEPVFHAMEKVPGFDIIVLLQP 107
                              5778899****************868***********9998888873355565544322222221336666666667777777777 PP

                              T-TT--HHHHHHHHHCHHHHTSSEE CS
             NTP_transf_3  95 DmPlltpelverllaaaaasgadvv 119
                                Pl + e ++  ++++ +++++++
  PHY93_13985|PHY93_13985 108 TSPLRNVEDIDGTIERCLENDSNAC 132
                              7777777777777777665555444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (230 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       310  (0.0172904); expected 358.6 (0.02)
Passed bias filter:                      296  (0.0165096); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.46
# Mc/sec: 1507.15
//
Query:       PHY93_13990|PHY93_13990  [L=347]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.5e-38  132.1   0.0    3.5e-38  131.6   0.0    1.1  1  NTP_transferase  Nucleotidyl transferase
    6.4e-10   39.6   0.0      1e-09   39.0   0.0    1.3  1  NTP_transf_3     MobA-like NTP transferase domain
    2.9e-09   37.2   8.8    0.00011   22.6   0.3    3.5  4  CBS              CBS domain
  ------ inclusion threshold ------
      0.057   13.2   0.0      0.097   12.4   0.0    1.3  1  IspD             2-C-methyl-D-erythritol 4-phosphate cytidyly


Domain annotation for each model (and alignments):
>> NTP_transferase  Nucleotidyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  131.6   0.0   7.9e-42   3.5e-38       2     241 ..     122     340 ..     121     345 .. 0.92

  Alignments for each domain:
  == domain 1  score: 131.6 bits;  conditional E-value: 7.9e-42
                              EEEE--S--GGGTTCCTTSSGGGSEETTETETTHHHHHHHHHTT-SEEEEEEETTTHHHHHHHHTTSGGGTSEEEEEEESS--BGG CS
          NTP_transferase   2 avILaGGsGtRLwPLtrtlakklvpvlgkerliqatlsrlansgieeiivvltqehsflveeqlkegskfgvevlialepegkgtA 87 
                               v++aGG G+RL PLt + +k+++ ++g  +++++ l + +++g+ +  +++ +++ + + e++++gs++gve+++++e+++ gtA
  PHY93_13990|PHY93_13990 122 VVLMAGGLGSRLGPLTEDCPKPMLKIGGR-PILETILLNFIEHGFMK-FYISLNYKPEVITEYFGDGSQWGVEISYLHEDKKLGTA 205
                              589**************************.*****************.************************************** PP

                              HHHHHTHHHHTTSSE..EEEEETTEEEESTTHHHHHHHHHTHSSTTSEEEEEEESS-CTTSEEEEECTTSBEEEEECS-SSHSHCS CS
          NTP_transferase  88 dAvalaaelledeksdelvlvLggDhlikdayeeavkkaiekaakgtvtfgivpveeateyGvieadeegrverfvEKPkeakase 173
                              +A+ l+ +        + +lv++gD l+k +++ +++++ ++ a  + t+ + + + +  yGv+++d++ r++ + EKP +     
  PHY93_13990|PHY93_13990 206 GALSLIPKKPT-----QALLVMNGDLLTKINFSHLLDSHLKNHA--KGTMCVREYDFQVPYGVVKIDNN-RIIGIDEKPLQRF--- 280
                              **987765544.....458*************************..67788888888999*******95.**********977... PP

                              EECCSEEEEETTHHHHHHHCCHHHTTSSCHHHHHHHHHHHTTEEEEEECSTTEE-EEEXSSHHHHHHH CS
          NTP_transferase 174 lassGiYvfnsevllflakdleelkrgedeitdilpkaleegkvalaflfkdaeyWsDvGtldsllea 241
                              ++++GiYv ++evl+++       + ++ ++  +++k++ee+++   f  +   yW D+G++ ++ +a
  PHY93_13990|PHY93_13990 281 FVNAGIYVLEPEVLDMI------PADSNFDMPTLFEKMIEEKQNTSVFPIRE--YWLDIGQMADFDRA 340
                              9****************......6788999999********99997777777..9*******998665 PP

>> NTP_transf_3  MobA-like NTP transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.0   0.0   2.2e-13     1e-09       1     130 [.     122     258 ..     122     276 .. 0.76

  Alignments for each domain:
  == domain 1  score: 39.0 bits;  conditional E-value: 2.2e-13
                              EEEEEESS-TTTT..T...THHHHCCCCCCHHHHHHHHHCTT.-CEEEEECSH.CHHHHHH....TTCTS-EEE-.TTSS-SHHHH CS
             NTP_transf_3   1 aviLAGGrSsRmg..g...dKallplggkpllervldalraagvdevvvvggd.eevlaal....arlgvrvved.edpgkgplas 75 
                              +v++AGG +sR+g  +   +K++l++gg+p+le +l ++ ++g+ + +++ ++ +ev  ++     + gv++ +  ed+  g++++
  PHY93_13990|PHY93_13990 122 VVLMAGGLGSRLGplTedcPKPMLKIGGRPILETILLNFIEHGFMKFYISLNYkPEVITEYfgdgSQWGVEISYLhEDKKLGTAGA 207
                              5899*********651689**********************************766665552332455666543314456676666 PP

                              HHHHHHHH.SSSCEEEEETT-TT--HHHHHHHHHCHHHHTSSEEEEESSSEEEEC CS
             NTP_transf_3  76 laaalraaadadavlvlacDmPlltpelverllaaaaasgadvvvptyegerghp 130
                              l    ++   ++a+lv+ +D+  lt+    +ll+++ +++a+ +++++e +++ p
  PHY93_13990|PHY93_13990 208 LSLIPKK--PTQALLVMNGDL--LTKINFSHLLDSHLKNHAKGTMCVREYDFQVP 258
                              6665554..69*********9..67777788888877777777777777666555 PP

>> CBS  CBS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.6   0.3   2.4e-08   0.00011      10      56 ..       7      53 ..       2      54 .. 0.84
   2 !   18.4   0.2   4.8e-07    0.0021       1      45 [.      62     106 ..      59     113 .. 0.91
   3 ?   -1.5   0.1      0.78   3.5e+03      35      45 ..     262     272 ..     253     272 .. 0.78
   4 ?   -2.0   0.0       1.2   5.3e+03       9      31 ..     296     320 ..     292     324 .. 0.68

  Alignments for each domain:
  == domain 1  score: 22.6 bits;  conditional E-value: 2.4e-08
                             EEEETTSBHHHHHHHHHHHT...SSEEEEEETTTBEEEEEEHHHHHHHHH CS
                      CBS 10 vtvppdttleealelmrekg...vsrlPVVdedgklvGivtlrDllrall 56
                             + v+  +t++  ++++ ++    + +l VV +dgklvG vt+ D+ rall
  PHY93_13990|PHY93_13990  7 IKVSLGSTIRSTIQII-DTSamqI-AL-VVSSDGKLVGTVTDGDVRRALL 53
                             47888899********.6555556.66.9*9*****************96 PP

  == domain 2  score: 18.4 bits;  conditional E-value: 4.8e-07
                              HHHHSBSSCEEEETTSBHHHHHHHHHHHTSSEEEEEETTTBEEEE CS
                      CBS   1 VgdimtrdvvtvppdttleealelmrekgvsrlPVVdedgklvGi 45 
                              V  im++++ +++ d++ e +l +m+ kg++++P Vd +g l G+
  PHY93_13990|PHY93_13990  62 VDKIMNKNPTVCSVDEDREIILTRMKAKGIHHMPLVDASGFLMGL 106
                              4568*********************9999********99977775 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 0.78
                              E.EETTTBEEEE CS
                      CBS  35 V.VdedgklvGi 45 
                              V + ++++++Gi
  PHY93_13990|PHY93_13990 262 VkI-DNNRIIGI 272
                              445.4889***8 PP

  == domain 4  score: -2.0 bits;  conditional E-value: 1.2
                              CEEEETTSBHHHHHHHHHHHT..SS CS
                      CBS   9 vvtvppdttleealelmrekg..vs 31 
                              ++ ++ + ++  ++e+m+e++   s
  PHY93_13990|PHY93_13990 296 MIPADSNFDMPTLFEKMIEEKqnTS 320
                              5778888899999999985442354 PP

>> IspD  2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   2.2e-05     0.097       2      43 ..     121     165 ..     120     178 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 2.2e-05
                              EEEEECTTSSCTT-...SSS-GGGSEETTEEHHHHHHHHHHCTTT CS
                     IspD   2 vvvipAAGsGkRmk...aglpKqflelkgqtllehtvdallaska 43 
                              +vv+ A G G+R++   +++pK  l++ g+++le  +  + +++ 
  PHY93_13990|PHY93_13990 121 IVVLMAGGLGSRLGpltEDCPKPMLKIGGRPILETILLNFIEHGF 165
                              58999*******754449****************99988888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (347 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       337  (0.0187964); expected 358.6 (0.02)
Passed bias filter:                      327  (0.0182386); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.44
# Mc/sec: 2376.10
//
Query:       PHY93_13995|PHY93_13995  [L=215]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    5.6e-16   59.0   3.2    5.6e-16   59.0   3.2    1.9  2  PglD_N     PglD N-terminal domain
    1.9e-10   40.0  22.4    0.00019   21.0   3.4    4.0  3  Hexapep    Bacterial transferase hexapeptide (six repeats)
    2.2e-05   24.1  24.0       0.19   11.5   2.2    4.2  4  Hexapep_2  Hexapeptide repeat of succinyl-transferase


Domain annotation for each model (and alignments):
>> PglD_N  PglD N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.0   3.2   9.3e-20   5.6e-16       2      78 .]       7      88 ..       6      88 .. 0.84
   2 ?   -1.6   0.2      0.73   4.4e+03      60      67 ..     168     175 ..     128     178 .. 0.61

  Alignments for each domain:
  == domain 1  score: 59.0 bits;  conditional E-value: 9.3e-20
                   PglD_N  2 ivIiGaGGhgkvvadiieangeyeiigflDd..nkktevegypvlgkaiellkslseeeyevviAIG...nnkvRkkiaekl 78
                             i+++G GGh+kvv+diie++g+y+i+g++ +  n  ++  gyp+lg+++ l +  ++   ++ i++G   +nk+Rk+i++++
  PHY93_13995|PHY93_13995  7 IIVVGSGGHAKVVIDIIEQIGNYKIVGITTNdlNIGSSFFGYPILGTDDILPDYKKKGIRKIAIGVGgftDNKLRKAIYQNI 88
                             99************************97755226778999******876555555556777888888************975 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 0.73
                   PglD_N  60 evviAIGn 67 
                               + iAIG+
  PHY93_13995|PHY93_13995 168 GALIAIGS 175
                              25677775 PP

>> Hexapep  Bacterial transferase hexapeptide (six repeats)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   7.3   1.6e-07   0.00097       2      32 ..     109     139 ..     102     143 .. 0.83
   2 !   18.6   1.7   1.8e-07    0.0011       1      35 [.     126     160 ..     126     161 .. 0.96
   3 !   21.0   3.4   3.1e-08   0.00019       4      34 ..     165     195 ..     164     197 .. 0.96

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 1.6e-07
                              EEEETTEEE-TTEEEETTEEE-TTEEEETTE CS
                  Hexapep   2 tvIGsnvlIgpfaviggnVkIGdnvkIgagv 32 
                              ++IG +++I +++vi  +V++G+nv+I+  +
  PHY93_13995|PHY93_13995 109 AKIGIGCVIFSGVVINTDVVLGNNVVIATRS 139
                              6899999999999999999999999998766 PP

  == domain 2  score: 18.6 bits;  conditional E-value: 1.8e-07
                              TEEEETTEEE-TTEEEETTEEE-TTEEEETTEEEE CS
                  Hexapep   1 stvIGsnvlIgpfaviggnVkIGdnvkIgagvvig 35 
                              ++v+G+nv+I   + i +++ I d++ + agv+ig
  PHY93_13995|PHY93_13995 126 DVVLGNNVVIATRSSIDHDTNIEDHALVSAGVTIG 160
                              589*******************************8 PP

  == domain 3  score: 21.0 bits;  conditional E-value: 3.1e-08
                              EETTEEE-TTEEEETTEEE-TTEEEETTEEE CS
                  Hexapep   4 IGsnvlIgpfaviggnVkIGdnvkIgagvvi 34 
                              +G+++lI  ++vi ++ kIG+n+ I+ag+v+
  PHY93_13995|PHY93_13995 165 VGEGALIAIGSVIVSGKKIGKNCLIAAGAVV 195
                              7*****************************8 PP

>> Hexapep_2  Hexapeptide repeat of succinyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.0   2.3   9.4e-05      0.56       8      32 ..      97     123 ..      96     125 .. 0.90
   2 !   10.2   9.4   8.4e-05       0.5      10      32 ..     111     135 ..     108     137 .. 0.95
   3 !   11.5   2.2   3.3e-05      0.19       2      34 .]     127     161 ..     127     161 .. 0.91
   4 !    9.9   4.4    0.0001      0.61       4      32 ..     165     195 ..     164     197 .. 0.84

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 9.4e-05
                              -EE-TT-EES..EEE-TT-EE-TT-EE CS
                Hexapep_2   8 CliGanagiG..vslGdncvvgaGvvi 32 
                              +l++++a+i    ++G +cv+ +Gvvi
  PHY93_13995|PHY93_13995  97 TLVHPSAIISprAKIGIGCVIFSGVVI 123
                              689******559**************9 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 8.4e-05
                              E-TT-EE..SEEE-TT-EE-TT-EE CS
                Hexapep_2  10 iGanagi..GvslGdncvvgaGvvi 32 
                              iG  ++i  Gv +  ++v+g++vvi
  PHY93_13995|PHY93_13995 111 IGIGCVIfsGVVINTDVVLGNNVVI 135
                              999*********************9 PP

  == domain 3  score: 11.5 bits;  conditional E-value: 3.3e-05
                              EEE-TT-EE-TT-EE..SEEE-TT-EE-TT-EE-S CS
                Hexapep_2   2 viIGdnCliGanagi..GvslGdncvvgaGvvita 34 
                              v  G+n++i  ++ i   ++++d + v+aGv+i a
  PHY93_13995|PHY93_13995 127 VVLGNNVVIATRSSIdhDTNIEDHALVSAGVTIGA 161
                              56799*********9888**************975 PP

  == domain 4  score: 9.9 bits;  conditional E-value: 0.0001
                              E-TT-EE-TT-EE..SEEE-TT-EE-TT-EE CS
                Hexapep_2   4 IGdnCliGanagi..GvslGdncvvgaGvvi 32 
                              +G+  li   ++i  G ++G+nc ++aG v+
  PHY93_13995|PHY93_13995 165 VGEGALIAIGSVIvsGKKIGKNCLIAAGAVV 195
                              577777777888779999**********998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (215 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       326  (0.0181828); expected 358.6 (0.02)
Passed bias filter:                      205  (0.011434); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1402.21
//
Query:       PHY93_14000|PHY93_14000  [L=391]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.2e-90  302.1   0.0      8e-90  301.7   0.0    1.1  1  DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
     0.0007   18.9   0.0      0.001   18.3   0.0    1.3  1  Aminotran_1_2    Aminotransferase class I and II
  ------ inclusion threshold ------
      0.032   13.0   0.1      0.045   12.5   0.1    1.2  1  OKR_DC_1         Orn/Lys/Arg decarboxylase, major domain
      0.041   13.2   0.0      0.078   12.2   0.0    1.4  1  Beta_elim_lyase  Beta-eliminating lyase
       0.64   10.6   2.8        1.4    9.6   2.8    1.6  1  Chlam_PMP        Chlamydia polymorphic membrane protein (Chla


Domain annotation for each model (and alignments):
>> DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  301.7   0.0   2.2e-93     8e-90       6     348 ..      35     388 ..      32     391 .] 0.95

  Alignments for each domain:
  == domain 1  score: 301.7 bits;  conditional E-value: 2.2e-93
                              HHHHHHHHHTSS-SSS.SHHHHHHHHHHHHHHT-SEEEEESSHHHHHHHHHHHTTTTTT-EEEEESSS-THHHHHHHHTT-EEEEE CS
          DegT_DnrJ_EryC1   6 eleaveevlksgwlts.gpeveeFEkafaaylgvkhaiavssGtaAlhlaLralgvgpgdeVIvpsltFvatanavlelgakpvfv 90 
                              e ++v+e++++gw++s g++v++ Ek++ +y+gvkhaiav +GtaAlh++L  +gv+++deV+vpsltF+atanav+++ga p fv
  PHY93_14000|PHY93_14000  35 EWNYVKECIDTGWVSSvGKFVDRIEKQLVDYTGVKHAIAVVNGTAALHVSLILVGVEKNDEVLVPSLTFIATANAVSYCGAIPHFV 120
                              5689********************************************************************************** PP

                              -B-TTTSSB-GGGCGGG--TTE................EEEEEB-GGGB---HHHHHHHHHHCT-EEEEE-TT-TT-EETTEECCC CS
          DegT_DnrJ_EryC1  91 Dvdpdtynidpaaieaaitert................kaIlpVhlyGqvadmdalkaiaakhglkvieDaAhAlGatykgkkvGa 160
                              D d+ t+ + p+++ a + e                  ka++p h++G+++dmd l +i++++++ ++eDaA++lG+ ykgk++G 
  PHY93_14000|PHY93_14000 121 DSDESTLGLAPHKLGAYLKEIAevrngscfnkktgrriKAVVPMHTFGHPVDMDPLVEICNQYKIEIVEDAAESLGSYYKGKHTGH 206
                              **************99888877777999********************************************************** PP

                              SSSEEEEE-BTTSSS-SSS-EEEEESTHHHHHHHHHHHBTTCECCTCSSCECCSS---B-B-BHHHHHHHHHHHCTHHHHHHHHHH CS
          DegT_DnrJ_EryC1 161 lgdaavfSFyptKnlttGeGGavvtndeelaekarvlrnhGlkrkaekryvgevelGynyrlteiqAAiglaqLerldelvarRre 246
                              lg+++++SF ++K +ttG GGa++tnd++l + a++l     +  ++  y ++  +G+nyr+ +i+AA+g+aqLe l   + ++r+
  PHY93_14000|PHY93_14000 207 LGKISALSFNGNKIVTTGGGGAILTNDDALGKLAKHLTTTAKVP-HQWAYSHDQ-IGFNYRMPNINAALGCAQLESLPGYILNKRK 290
                              *****************************************995.556777777.******************************* PP

                              HHHHHHHHHHTCCCCEESCGGTTSSSEEESCEEEEEHCCHHHCHHHHHHHHHHCCEE-B-SGSCHGGGSCCHHHHHHCCCHC-HHH CS
          DegT_DnrJ_EryC1 247 iaelykeeLaelegtaelttpketkkhawhlyavlveeeaevkrdelvealkeegigtrvhypnplhrqpvyaerkeeasgdlpna 332
                              +ae y++++a++eg+   t+p+ +k ++++l ++l+++++  +r+ l+ea ++ gi tr++  + +h++++y++  +   +dl  a
  PHY93_14000|PHY93_14000 291 LAENYRKAFANIEGIRFFTEPTFAK-SNYWLNVLLLDKKFVGERESLLEATNKSGIMTRPVW-TLMHELEIYKSCPK--MDDLSSA 372
                              **************98888888888.89999999999887789*******************.6*********9964..479**** PP

                              HHHHHHEEEEEGGTTG CS
          DegT_DnrJ_EryC1 333 erlaervlsLplypel 348
                              +++ae  +++p++p+l
  PHY93_14000|PHY93_14000 373 KNIAECLINIPSSPGL 388
                              *************997 PP

>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.0   2.9e-07     0.001      49     143 ..      58     142 ..      51     192 .. 0.85

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 2.9e-07
                              HHHHHHHHHCTCTTCHTTGGEGEEEESHHHHHHHHHHHHHHHTTT-EEEEEESS-THHHHHHHHTTSEEEEEEBEETTTTEE-HHH CS
            Aminotran_1_2  49 leealakflgrseklklkreaavvvgsGagaliealifllklnpgdeilvpdptyasyknilrlsggevvryplyseedfhldlea 134
                               e++l ++ g         + a+ v +G+ al + li +  +++ de+lvp++t+    n++ ++g+  + +  ++e + +l  ++
  PHY93_14000|PHY93_14000  58 IEKQLVDYTG--------VKHAIAVVNGTAALHVSLILVG-VEKNDEVLVPSLTFIATANAVSYCGAIPHFVD-SDESTLGLAPHK 133
                              5788888889........7789******************.9*************************999999.777777777777 PP

                              HHHHHTTHH CS
            Aminotran_1_2 135 leealkeap 143
                              l + lke +
  PHY93_14000|PHY93_14000 134 LGAYLKEIA 142
                              777777755 PP

>> OKR_DC_1  Orn/Lys/Arg decarboxylase, major domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.1   1.3e-05     0.045      82     205 ..      69     192 ..      58     219 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 1.3e-05
                              SEEEEESSHHHHHHHHHHHHH--TTEEEEEESS--HHHHHHHHHS-EEEEEE--EB-TTS-BE---GGGGSHHHHHHHHHHSTTTG CS
                 OKR_DC_1  82 dksyfvvnGTsssnkvvlnavltpgdlvlvdRNcHKSiehalvlsgatPvylepernalgiiggidlkefeeetlkekikevpdak 167
                               ++  vvnGT++    ++   ++++d vlv+  +  + ++a+   ga P ++ ++++ lg+  +     + +e ++ +     ++k
  PHY93_14000|PHY93_14000  69 KHAIAVVNGTAALHVSLILVGVEKNDEVLVPSLTFIATANAVSYCGAIPHFVDSDESTLGLAPHKLG-AYLKEIAEVRNGSCFNKK 153
                              56778*******************************************************9765333.233333332222223333 PP

                              S..ESEEEEESS-TTSEEE-HHHHHHHHTTSESEEEEE-T CS
                 OKR_DC_1 168 a..prlavitnsTYdGvlynakeivdkleklsdrilfDeA 205
                              +     av+   T +G+  +++ +v+  ++++++i  D A
  PHY93_14000|PHY93_14000 154 TgrRIKAVVPMHT-FGHPVDMDPLVEICNQYKIEIVEDAA 192
                              3434467777777.48888888888888888888877766 PP

>> Beta_elim_lyase  Beta-eliminating lyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   2.2e-05     0.078      34     169 ..      55     192 ..      51     204 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 2.2e-05
                              HHHHHHHHHHHTT-SEEEEES-HHHHHHHHHHHH-.-TTEEEEEETT-HHHHSSTTHHHHCC--EEEEE-EBTT.TBE-HHHHHHH CS
          Beta_elim_lyase  34 vnrLedavaelfgkeaalfvpqGtaAnsillkill.qrgeevivtepahihfdetgaiaelagvklrdlknkea.Gkmdlekleaa 117
                              v r+e+++ +++g ++a+ v++GtaA +++l ++  ++++ev+v +     f  t +++ + g+ ++ ++++e    + + kl a 
  PHY93_14000|PHY93_14000  55 VDRIEKQLVDYTGVKHAIAVVNGTAALHVSLILVGvEKNDEVLVPS--L-TFIATANAVSYCGAIPHFVDSDEStLGLAPHKLGAY 137
                              6789999**********************99666559999998865..3.455556666777888999999996533556667666 PP

                              S--S-T......TS-EEE.EEEEESSBTTTTTB---HHHHHHHHHHHHHCT-EEEEEET CS
          Beta_elim_lyase 118 ikevga......heekik.lisltvTnntagGqvvsleelrevaaiakkygiplhlDgA 169
                              +ke  +      +++k++  i   v ++t  G +v ++ l    +i+++y+i+++ D+A
  PHY93_14000|PHY93_14000 138 LKEIAEvrngscFNKKTGrRIKAVVPMHT-FGHPVDMDPL---VEICNQYKIEIVEDAA 192
                              65543334467876666415666666664.6899988876...5679999999999998 PP

>> Chlam_PMP  Chlamydia polymorphic membrane protein (Chlamydia_PMP) repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   2.8   0.00039       1.4       2      27 ..     213     231 ..     212     232 .. 0.87

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.00039
                Chlam_PMP   2 itFsnNtatvsstptpaaggGGAIya 27 
                              ++F++N+  +       +ggGGAI +
  PHY93_14000|PHY93_14000 213 LSFNGNKIVT-------TGGGGAILT 231
                              79******65.......9******86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (391 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       415  (0.0231469); expected 358.6 (0.02)
Passed bias filter:                      399  (0.0222544); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.43
# Mc/sec: 2702.00
//
Query:       PHY93_14005|PHY93_14005  [L=330]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.1e-71  241.1   0.0    2.6e-71  240.7   0.0    1.1  1  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
    3.8e-51  173.9   0.0    4.6e-51  173.6   0.0    1.1  1  Epimerase        NAD dependent epimerase/dehydratase family
    1.6e-24   86.4   0.0    2.1e-24   86.0   0.0    1.1  1  3Beta_HSD        3-beta hydroxysteroid dehydrogenase/isomeras
    8.2e-17   61.3   0.0    1.1e-15   57.6   0.0    2.0  1  Polysacc_synt_2  Polysaccharide biosynthesis protein
    2.7e-14   53.0   0.1    1.6e-12   47.2   0.1    2.4  1  NAD_binding_4    Male sterility protein
    1.3e-12   47.5   0.0    1.6e-12   47.2   0.0    1.1  1  RmlD_sub_bind    RmlD substrate binding domain
    3.5e-11   43.3   0.0    7.2e-11   42.3   0.0    1.5  1  NAD_binding_10   NAD(P)H-binding
      1e-09   38.2   0.1    2.6e-08   33.6   0.0    2.9  2  adh_short        short chain dehydrogenase
    4.5e-05   23.1   0.0    0.00016   21.3   0.0    1.9  2  NmrA             NmrA-like family
  ------ inclusion threshold ------
       0.13   12.3   0.0       0.24   11.5   0.0    1.5  1  Ldh_1_N          lactate/malate dehydrogenase, NAD binding do


Domain annotation for each model (and alignments):
>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  240.7   0.0   1.5e-74   2.6e-71       1     328 [.       5     304 ..       5     310 .. 0.92

  Alignments for each domain:
  == domain 1  score: 240.7 bits;  conditional E-value: 1.5e-74
                              EEETTTSHHHHHHHHHHHHCT-CCEEEEEEESS-TTHHHHHCTTT...TTGCCEEEEE--TT-HHHHHHHHHHHT-SEEEE--S-- CS
            GDP_Man_Dehyd   1 LiTGiaGfiGsylaelLlekgyevhgivrrsssfntgriehlakdpkeeleenlklhkgDltDssslerllaevqpdevynLAAqs 86 
                              L+TG  GfiGs+l+e L+++g++v  +v ++s  + g +++  +d    +++++++++gD++D + ++ +++ +  d+v+nLAA  
  PHY93_14005|PHY93_14005   5 LVTGADGFIGSHLTEALVRRGFDVKAFVLYNSFNSWGWLDNCDSD----VKGKFEIFSGDIRDPHGVKAAMKGC--DTVLNLAALI 84 
                              9*****************************99999******9875....4689*******************98..9********* PP

                              -HHHHTTSHHHHHHHHTHHHHHHHHHHHHCT..TTSEEEEEEEGGGG-S-SSSSB-TTS-----SHHHHHHHHHHHHHHHHHHHH- CS
            GDP_Man_Dehyd  87 hVdvsfekPeytaevnvlGtlrLLeairalglekkvrfyqaStsEvYGkvqevpqtEttpfyPrsPYaaaKlyadwivvnyreayg 172
                              ++++s+++P++++++n+ Gtl++++a+r+l++e   +++++StsEvYG+++ vp+tE++p++ +sPY+a+K+ ad+i++++++a++
  PHY93_14005|PHY93_14005  85 AIPYSYHSPDTYVDTNIKGTLNIVQAARELEIE---KLVHTSTSEVYGTARFVPITEEHPLQGQSPYSATKIGADQIAMSFYNAFN 167
                              ******************************987...9************************************************* PP

                              --EEEEEE-EEESTTS-TTSCCCHHHHHHHHHHTTS-C-EECTTTT-EEEEEEHHHHHHHHHHHHHCSS---EEE-TT-EEECHHC CS
            GDP_Man_Dehyd 173 lfavngilfnhesprrgetfvtrkitravarialgkqevlylGnldakRdwghvkDyveamwlmlqqdkpedyviatgethsvref 258
                               ++ + + fn+++pr++++     i++++++ia+g+  +l+lG l+++Rd+ +v D+v+++  + ++dk      + ge+ ++++ 
  PHY93_14005|PHY93_14005 168 TPVAIIRPFNTYGPRQSAR---AIIPTVITQIANGQ-RKLKLGALHPTRDFNYVMDTVRGFISIAKSDK------SVGEVINIGSN 243
                              ***************9777...559999******98.6799***************************9......58999999999 PP

                              HHCCHHCCCHHHHHH............TTGGCCCEECGG--S..S--SB--B-THHHHHHH----SS-HHHH CS
            GDP_Man_Dehyd 259 velaflelgktiewegkgeeevgrakesgkvvvevdpkyfrp..gevdlllgdaskakeeLgWkpkvsfeel 328
                              +e+++ +++k i     g           ++++ +d  + rp  +evd+l++d+skak+ +gW+p ++  e+
  PHY93_14005|PHY93_14005 244 FEVSIGDTVKFIAEI-MG----------VDIEIVTDGDRLRPdkSEVDRLWADNSKAKKIVGWEPGYGGLEG 304
                              999999988765432.22..........24566677777777668********************9876555 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  173.6   0.0   2.6e-54   4.6e-51       1     241 []       4     241 ..       4     241 .. 0.97

  Alignments for each domain:
  == domain 1  score: 173.6 bits;  conditional E-value: 2.6e-54
                              EEEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHC........EEEE--TT-HHHHHHHHHHHT-SEEEE--S---HH CS
                Epimerase   1 ilVtGatGfiGsalvkallekgyevigldrlssasntarledl........elveldltdrsalerlfkeeqpdavihlAavggva 78 
                              ilVtGa GfiGs+l++al ++g +v ++  ++s + ++ l++         e+  +d++d+  +++++k  ++d+v++lAa   ++
  PHY93_14005|PHY93_14005   4 ILVTGADGFIGSHLTEALVRRGFDVKAFVLYNSFNSWGWLDNCdsdvkgkfEIFSGDIRDPHGVKAAMK--GCDTVLNLAALIAIP 87 
                              8*********************99999999999999999998899************************..*************** PP

                              HHHHSHHHHHHHHTHHHHHHHHHHHHHTCTEEEEEEEGGGGTSCSSSSBSTCSTTS----SSHHHHHHHHHHHHHHHHHHHHT-EE CS
                Epimerase  79 assedpadfieknlqgtlnlleaarkagvkrllflsSsevYGkdaeqpkeettltgplkpnspYaaaKlageklveayaaqyglna 164
                               s  +p  ++++n++gtln+++aar+ ++++l++ s+sevYG    +p +e+    pl+ +spY+a+K+ +++++ ++ +++++++
  PHY93_14005|PHY93_14005  88 YSYHSPDTYVDTNIKGTLNIVQAARELEIEKLVHTSTSEVYGTARFVPITEEH---PLQGQSPYSATKIGADQIAMSFYNAFNTPV 170
                              ******************************************99999*99999...****************************** PP

                              EEEEESEEESTTS-TTSTTSHHHHHHHHHHTTSSSEEEETTST-EEEEEEHHHHHHHHHHHHHHHTT-STTEEEEES CS
                Epimerase 165 iilrlfnlyGprngegevsrvipalirkilegkqevtllgdgtalRdflyveDvaeaillvlehvdagdkgeiyniG 241
                               i+r+fn yGpr   ++ + +ip +i++i++g+   + lg + + Rdf yv D +++++ +++   ++  ge++niG
  PHY93_14005|PHY93_14005 171 AIIRPFNTYGPR---QSARAIIPTVITQIANGQ-RKLKLGALHPTRDFNYVMDTVRGFISIAKS--DKSVGEVINIG 241
                              ************...99***************9.99999*********************9999..45679*****9 PP

>> 3Beta_HSD  3-beta hydroxysteroid dehydrogenase/isomerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.0   0.0   1.2e-27   2.1e-24       1     223 [.       5     222 ..       5     236 .. 0.81

  Alignments for each domain:
  == domain 1  score: 86.0 bits;  conditional E-value: 1.2e-27
                3Beta_HSD   1 vvtGgaGFlGralvkeLvrleelkevrvlDlres...pelleelskvnvkk...viegDvtdkdkleealegvdvvihlaslvdva 80 
                              +vtG+ GF+G++l ++Lvr++   +v+++ l +s     +l++   ++vk    +  gD++d + +++a++g d v+ la+l+ + 
  PHY93_14005|PHY93_14005   5 LVTGADGFIGSHLTEALVRRGF--DVKAFVLYNSfnsWGWLDNCD-SDVKGkfeIFSGDIRDPHGVKAAMKGCDTVLNLAALIAIP 87 
                              69*******************5..666665443310033444433.3333346799***************************997 PP

                3Beta_HSD  81 g.kltedeimkvnvkGTrnvleacvkagvrvlvYtSsaevvgpnslgeeilngdEeleyeslhqdaypesKalaEklvlkaNgrtl 165
                                  + d++ + n+kGT n+++a+++ ++++lv+tS+ ev g   +  +i+   E  e++ + q++y+ +K  a+++ ++  +  +
  PHY93_14005|PHY93_14005  88 YsYHSPDTYVDTNIKGTLNIVQAARELEIEKLVHTSTSEVYGT-ARFVPIT---E--EHPLQGQSPYSATKIGADQIAMSFYN-AF 166
                              736778************************************9.4444444...4..45667899************999888.55 PP

                3Beta_HSD 166 knggrlyTcaLRpagiyGegd..kllvpllkqlaklglalfkigdeevlsdrvYvgNvaw 223
                              + +       +Rp   yG+++  + + p++ + + +g+ ++k+g  + + d+ Yv   + 
  PHY93_14005|PHY93_14005 167 NTP----VAIIRPFNTYGPRQsaRAIIPTVITQIANGQRKLKLGALHPTRDFNYVMDTVR 222
                              555....5679********97335789999999999******************976655 PP

>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.6   0.0   5.9e-19   1.1e-15       1     250 [.       4     262 ..       4     292 .. 0.74

  Alignments for each domain:
  == domain 1  score: 57.6 bits;  conditional E-value: 5.9e-19
                              EEEETTTSHHHHHHHHHHHHH..B-SEEEEEES-HHHHHHHHHH......-TTEEEE....E--TT-HHHHHHHTT..T-SEEEE- CS
          Polysacc_synt_2   1 vlvtGagGsiGselvrqilkk..kpkkiillerdElklyeiekeleeelkkkklkveivpvigdvrdkerlekaleelkvdvvfha 84 
                              +lvtGa G iGs+l++ ++++  ++k  +l+++  ++ +   +++++++k  k++     + gd+rd + ++ a++  ++d+v++ 
  PHY93_14005|PHY93_14005   4 ILVTGADGFIGSHLTEALVRRgfDVKAFVLYNS--FNSWGWLDNCDSDVKG-KFE----IFSGDIRDPHGVKAAMK--GCDTVLNL 80 
                              89******************9667777777765..5555555666555555.333....458**************..******** PP

                              -----HHHHHHSHHHHHHHHHHHHHHHHHHHHHTT-SEEEEEEEGGGS..............S--SHHHHHHHHHHHHHHHGGG-- CS
          Polysacc_synt_2  85 AAlKhVPlveenpleaiktNvlgtenvieaaieagvkkvvliStDKAv..............nPtnvmGatKrlaekllqalakes 156
                              AAl  +P   + p   ++tN+ gt n+++aa e +++k+v  St                  +  + + atK  a+++++++ +  
  PHY93_14005|PHY93_14005  81 AALIAIPYSYHSPDTYVDTNIKGTLNIVQAARELEIEKLVHTSTSEVYgtarfvpiteehplQGQSPYSATKIGADQIAMSFYNAF 166
                              ********************************************875411111111111000223445566666666666665555 PP

                              SSS--EEEEEEE-EETTGTTS...SHHHHHHHHHTT.SSEEES-TT-EEEEE-HHHHHH.HHHHHHHH--SS-EEEE--.-EEEHH CS
          Polysacc_synt_2 157 eekktkfvvvRfGNVlgSrGS...viplFkkqikeg.gpvtvTdpemtRyfmtieeavq.LvlqalalakggeifvldmGepvkiv 237
                                 +t ++++R  N  g r S   +ip+   qi++g  ++ +   + tR f  + ++v+ ++  a +  + ge+        v+i 
  PHY93_14005|PHY93_14005 167 ---NTPVAIIRPFNTYGPRQSaraIIPTVITQIANGqRKLKLGALHPTRDFNYVMDTVRgFISIAKSDKSVGEVINIGSNFEVSIG 249
                              ...58889999888888665544489999999999977888888888887777777775477777788888887766666778888 PP

                              HHHHHH....... CS
          Polysacc_synt_2 238 dlakalielsgle 250
                              d +k + e++g++
  PHY93_14005|PHY93_14005 250 DTVKFIAEIMGVD 262
                              8888888888754 PP

>> NAD_binding_4  Male sterility protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.2   0.1   8.8e-16   1.6e-12       1     208 [.       6     180 ..       6     221 .. 0.82

  Alignments for each domain:
  == domain 1  score: 47.2 bits;  conditional E-value: 8.8e-16
                              EE-TTSHHHHHHHHHHHHHS-.TEEEEEE-SSSHHHHHHHHHHHT-SS-HHHHHHHHHTTTEEEEE--TTSGGGG--HHHHHHHHH CS
            NAD_binding_4   1 lTGaTGFLGkvLlekLLrttpevkiyllvRaksgesaeeRleeelekkelfsallkelaerikvveGDlseprlGLseedlqelae 86 
                              +TGa GF+G++L e L+r+  +vk ++l  + ++   ++            s    +++ + ++ +GD+ +p+ G     ++  ++
  PHY93_14005|PHY93_14005   6 VTGADGFIGSHLTEALVRRGFDVKAFVLYNSFNSWGWLDNC---------DS----DVKGKFEIFSGDIRDPH-G-----VKAAMK 72 
                              7********************99999998766553332222.........33....348999********998.5.....566789 PP

                              H--EEEE--SS-S.STTSSE...EHHHHHHHHHHHHHHHTSSS--.-EEEEEEGGGTTS-TTT--SSS-H......HHH--EEEET CS
            NAD_binding_4  87 evdviihsaAtvnfdepyke...llrvNveGtrevlelakklkklkvllhvSTayvngeregeveekvyeegekeekldederakl 169
                               +d +++ aA + + ++y+     +++N++Gt ++++ a++l+    l+h ST+ v+g+ +                    ++++ 
  PHY93_14005|PHY93_14005  73 GCDTVLNLAALIAIPYSYHSpdtYVDTNIKGTLNIVQAARELEIE-KLVHTSTSEVYGTARF----------------VPITEEHP 141
                              9***************99765569******************988.9******999988883................45677777 PP

                              TTCCCHHHHHHHHHHHHHHHHHHHH---EEEEEE-EEE- CS
            NAD_binding_4 170 kglpntYeqsKalaEklvrearrrsglpvvivRpsiitg 208
                               + +  Y+ +K  a+++  +  +  + pv+i+Rp + +g
  PHY93_14005|PHY93_14005 142 LQGQSPYSATKIGADQIAMSFYNAFNTPVAIIRPFNTYG 180
                              788899****************************88777 PP

>> RmlD_sub_bind  RmlD substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.2   0.0   8.8e-16   1.6e-12       2     137 ..       3     160 ..       1     204 [. 0.90

  Alignments for each domain:
  == domain 1  score: 47.2 bits;  conditional E-value: 8.8e-16
                              EEEEESTTSHHHHHHHHHCTTTSEEEEEE-TT.......................T--TTSHHHHHHHHHHH--SEEEE------H CS
            RmlD_sub_bind   2 kilvtGanGqlGseLakqlaeeglevlaltre.......................eldltdaeavaellkeakpdvvvnaAAytav 64 
                              kilvtGa+G +Gs+L+++l ++g++v a+                          + d++d++ v++++k   +d v n+AA  a+
  PHY93_14005|PHY93_14005   3 KILVTGADGFIGSHLTEALVRRGFDVKAFVLYnsfnswgwldncdsdvkgkfeifSGDIRDPHGVKAAMKG--CDTVLNLAALIAI 86 
                              6***************************9544579**********************************99..999********** PP

                              HHHHHSHHHHHHHHTHHHHHHHHHHHHCT-.EEEEEEEGGGS-S-TTS-B-TTS----SSHHHHHHHHHHHHHH CS
            RmlD_sub_bind  65 DkaEseeeaayavnaeavealAeaaaavga.lLihvStDyVFdGekkrpYeeddetsPlnvYGrtKlaGEqavl 137
                                  + ++     n +++ ++ +aa++ ++ +L+h St  V+  ++  p +e+++ + ++ Y +tK+   q   
  PHY93_14005|PHY93_14005  87 PYSYHSPDTYVDTNIKGTLNIVQAARELEIeKLVHTSTSEVYGTARFVPITEEHPLQGQSPYSATKIGADQIAM 160
                              *****************************956**********************************98877654 PP

>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.3   0.0     4e-14   7.2e-11       1     104 [.       8     130 ..       8     179 .. 0.76

  Alignments for each domain:
  == domain 1  score: 42.3 bits;  conditional E-value: 4e-14
                              TTTSHHHHHHHHHHHHC-T-EEEEEETTHHHCH.........HHHCTTTCEEEE--TT-CCHHHHHHTT-SEEEES-......... CS
           NAD_binding_10   1 GAtGkvGrllvkellargghevtalvRnpekla.........eleaeeglevvegdvtdvedlaealkgadaVvsal......... 68 
                              GA G +G++l++ l++r g++v+a+v   +  +         ++  + + e+++gd+ d+  +++a+kg+d+V+  +         
  PHY93_14005|PHY93_14005   8 GADGFIGSHLTEALVRR-GFDVKAFVLYNSFNSwgwldncdsDV--KGKFEIFSGDIRDPHGVKAAMKGCDTVLNLAaliaipysy 90 
                              9****************.5******9876544444555553334..589************************8777679877765 PP

                              --TCC..HHHH..HHHHHHHHHHCT--EEEEEEETTTTSG CS
           NAD_binding_10  69 ggggk..deeg..aknivdaakeagvkRfvlvsaigvgde 104
                               + ++  d+++  + niv+aa+e +++++v  s+  v+  
  PHY93_14005|PHY93_14005  91 HSPDTyvDTNIkgTLNIVQAARELEIEKLVHTSTSEVYGT 130
                              4444466444477***********************9953 PP

>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.6   0.0   1.4e-11   2.6e-08       1     164 [.       2     163 ..       2     175 .. 0.83
   2 ?   -0.1   0.1       0.3   5.5e+02     116     137 ..     221     243 ..     213     248 .. 0.73

  Alignments for each domain:
  == domain 1  score: 33.6 bits;  conditional E-value: 1.4e-11
                              SEEEEESTTSHHHHHHHHHHHHTT-EEEE.EESCHHHHHHHHHHHHHT.TSEEEEEE-TTTSHHHHHHHHHHHHHHHSSESEEEE- CS
                adh_short   1 kvvlvtGassGIGraiakelakeGakvvv.vdrseekleevakelkee.gakalaiqvDvtdreevealvekavkklgkldvLvnN 84 
                              k +lvtGa++ IG  + ++l+++G++v + v +++ +   +++++ ++ + k+ ++++D++d + v+a+++ +       d + n 
  PHY93_14005|PHY93_14005   2 KKILVTGADGFIGSHLTEALVRRGFDVKAfVLYNSFNSWGWLDNCDSDvKGKFEIFSGDIRDPHGVKAAMKGC-------DTVLNL 80 
                              689************************999***************************************9999.......888888 PP

                              --SS--SSGGGCSHHHHHHHHHHHTHHHHHHHHHHHHHHH.....HCTTEEEEEEE...EGGGTSB-TTBHHHHHHHHHHHHHHHH CS
                adh_short  85 AGitgsgpfselseeewervievNltgvflltravlpaml.....kqssGrIvnvs...SvagkvpvagvaaYsAsKaavagltrs 162
                              A++     +  +s    + ++++N++g++++++a+ +          s  ++  ++    ++ + p+ g+++YsA+K + +++++s
  PHY93_14005|PHY93_14005  81 AAL----IAIPYSYHSPDTYVDTNIKGTLNIVQAAREL-EieklvHTSTSEVYGTArfvPITEEHPLQGQSPYSATKIGADQIAMS 161
                              888....3456677778999*************98665.2244444444444433311145668999*************999988 PP

                              HH CS
                adh_short 163 la 164
                              + 
  PHY93_14005|PHY93_14005 162 FY 163
                              75 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.3
                              HHHHHHHHH.HCTTEEEEEEEEG CS
                adh_short 116 travlpaml.kqssGrIvnvsSv 137
                              +r ++   + ++s G+++n++S+
  PHY93_14005|PHY93_14005 221 VRGFISIAKsDKSVGEVINIGSN 243
                              55555554458999*******97 PP

>> NmrA  NmrA-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.0   8.8e-08   0.00016       1     101 [.       4     123 ..       4     130 .. 0.82
   2 ?   -2.2   0.0       1.3   2.4e+03     168     210 ..     171     213 ..     164     228 .. 0.74

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 8.8e-08
                              EEESSTTSHHHHHHHHHHHHHT-EEEEEES-S...........-SHHHHHHHHSTTEEEES-TT-HHHHHHHHTT-SEEEE---GG CS
                     NmrA   1 IlviGaTGrqGksvvrallkaghkvralvRdt...........kselakslkeaGvelvkgdlddkeslvealkgvdvvfsvtgfy 75 
                              Ilv+Ga G +G+++++al+++g++v+a v              +s++     +   e+ +gd+ d   +++a+kg d+v    ++ 
  PHY93_14005|PHY93_14005   4 ILVTGADGFIGSHLTEALVRRGFDVKAFVLYNsfnswgwldncDSDV-----KGKFEIFSGDIRDPHGVKAAMKGCDTVLNLAALI 84 
                              9**************************99766577777533222222.....2234677*******************98777766 PP

                              .............S-HHHHHHHHHHHHHHHS-SEEEEEE CS
                     NmrA  76 .............skeiedgkklvdAakeaGvkhfiySs 101
                                           +++i+   ++v+Aa e  +++++  s
  PHY93_14005|PHY93_14005  85 aipysyhspdtyvDTNIKGTLNIVQAARELEIEKLVHTS 123
                              677789999999999999999999999999999988766 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 1.3
                              EEEESS-TTS-EE-HHHHHHHHHHHHHHHHHHHTTEEEEE-SE CS
                     NmrA 168 tllgpgnpkavlldaeeDiGafvikilkdprklkgkriklagn 210
                              ++ +p+n+ +    a + i +++ +i++ +rklk  +++++ +
  PHY93_14005|PHY93_14005 171 AIIRPFNTYGPRQSARAIIPTVITQIANGQRKLKLGALHPTRD 213
                              5666777655555666778889999999999998888887766 PP

>> Ldh_1_N  lactate/malate dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00014      0.24       2      76 ..       3      80 ..       2      87 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00014
                             EEEEETTTSHHHHHHHHHHHHTTSSSE.EEEE-SSHH..HHHHHHHHHHHCHCCSTS-EEEEESSGGGGTTESEEEE- CS
                  Ldh_1_N  2 kvavvGaaGgiGqslalllankklade.laLlDiake..kleGvaldlshistflsvkvkvsekeeealkdadvvvit 76
                             k+ v+Ga G+iG++l  +l+ +++  + ++L++  ++   l+    d++    + s +++ +++ ++a+k++d v+  
  PHY93_14005|PHY93_14005  3 KILVTGADGFIGSHLTEALVRRGFDVKaFVLYNSFNSwgWLDNCDSDVKGKFEIFSGDIRDPHGVKAAMKGCDTVLNL 80
                             9*********************87544499998876655556666666655555556666666777777777777655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (330 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       480  (0.0267723); expected 358.6 (0.02)
Passed bias filter:                      444  (0.0247643); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.59u 0.28s 00:00:00.87 Elapsed: 00:00:00.46
# Mc/sec: 2173.29
//
Query:       PHY93_14010|PHY93_14010  [L=310]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.7e-07   29.8   0.0    2.1e-06   28.1   0.0    1.8  1  PhyH      Phytanoyl-CoA dioxygenase (PhyH)
  ------ inclusion threshold ------
       0.15   12.1   0.1       0.47   10.5   0.0    1.8  2  Imm3      Immunity protein Imm3


Domain annotation for each model (and alignments):
>> PhyH  Phytanoyl-CoA dioxygenase (PhyH)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.1   0.0   2.4e-10   2.1e-06       4     206 ..      13     196 ..      10     199 .. 0.87

  Alignments for each domain:
  == domain 1  score: 28.1 bits;  conditional E-value: 2.4e-10
                              HSEEEETT.SS-HHHHHHHHHHHHHHHHHCHTTCCSEEEEECEEESTTCCCEE....CCCHHCHHHHTTHHHHHHHHHHHHTSCEE CS
                     PhyH   4 dGylvieg.flsaeevealraeiealldralesgdkidfffeekaaadedgll....eksinkvghflhprkvadlvrailgqdvy 84 
                              +G++ + + +l++e v++l ++++++   ++ ++++ d ++++  a+  +  +    + ++ + + + hp ++++ ++ailg d  
  PHY93_14010|PHY93_14010  13 NGFVNVGQdVLTKEDVKELSSRAKNI--FNNLNPNHCDYLKAGAGAGGVRCIVehdfKLAEIANKIVTHP-EIKKTLEAILGVDY- 94 
                              799988665****************9..777777777777777777776655557888888888899998.99999999999664. PP

                              EEEEEEEEEEEEEE-TTTCB-EEEEE-SGGGSTEESGCCEEEEEEESS-B-TTBT-EEEETTGGGS-CCGTCCHHCSGCCTTSCCC CS
                     PhyH  85 vaavlqsmyqdifkqpkiGgevqpwHqDstflptdpeesvvgvwialedateenGclrfiPGSHkweegplrrrlpeddteaedde 170
                                    + +q +f    +G+++ ++HqD            +++ + l+d  +  G+++f  ++H+ ++  ++ ++  d++ ++   
  PHY93_14010|PHY93_14010  95 ------KIWQINFRRSLPGDQGLQLHQDGK--------GQLNLCVLLDDNLNGDGATSFFSQTHLIRKRTKELKVELDPKLFK--- 163
                              ......466558899999**********64........5589***************************************99... PP

                              TTTGHGSCEEEE.BTTTEEEEEETTSEEEE-TB.SS CS
                     PhyH 171 akkedeeeavpvevkaGdavlfhgrllHgsgaNrsd 206
                                 + +  + p     Gd+ +f  r++Hg ++N+++
  PHY93_14010|PHY93_14010 164 ---TVKFLIKPFSGHMGDLGIFLNRTWHGRFPNKTN 196
                              ...99999**************************97 PP

>> Imm3  Immunity protein Imm3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   5.2e-05      0.47      86     115 ..      20      49 ..       3      52 .. 0.83
   2 ?   -2.0   0.0      0.39   3.5e+03      19      43 ..     253     277 ..     246     289 .. 0.74

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 5.2e-05
                     Imm3  86 kgelteeeikdlleRrdkVledlekvevDy 115
                              +++lt+e++k+l++R +++ ++l+  + Dy
  PHY93_14010|PHY93_14010  20 QDVLTKEDVKELSSRAKNIFNNLNPNHCDY 49 
                              589*********************999998 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.39
                     Imm3  19 ykaeerslseaiartsdefenvekl 43 
                              y+     +se+ a  +++f+n+e+l
  PHY93_14010|PHY93_14010 253 YRVLSTNNSESFAFRIENFKNEEHL 277
                              5566667777888888888887766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (310 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       534  (0.0297841); expected 358.6 (0.02)
Passed bias filter:                      466  (0.0259914); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.59u 0.29s 00:00:00.87 Elapsed: 00:00:00.51
# Mc/sec: 1833.00
//
Query:       PHY93_14015|PHY93_14015  [L=617]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (617 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       542  (0.0302304); expected 358.6 (0.02)
Passed bias filter:                      444  (0.0247643); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.67u 0.27s 00:00:00.94 Elapsed: 00:00:00.48
# Mc/sec: 3894.33
//
Query:       PHY93_14020|PHY93_14020  [L=65]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00022   20.7   0.2    0.00024   20.6   0.2    1.0  1  SMC_N     RecF/RecN/SMC N terminal domain
    0.00037   21.0   0.0    0.00062   20.3   0.0    1.4  1  ABC_tran  ABC transporter
     0.0059   16.4   0.0     0.0059   16.4   0.0    1.0  1  AAA_21    AAA domain, putative AbiEii toxin, Type IV TA syste
  ------ inclusion threshold ------
      0.024   14.9   0.0      0.029   14.6   0.0    1.2  1  SbcCD_C   Putative exonuclease SbcCD, C subunit
      0.049   13.4   0.3      0.052   13.3   0.3    1.0  1  DUF2326   Uncharacterised protein conserved in bacteria (DUF2


Domain annotation for each model (and alignments):
>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.6   0.2   6.6e-08   0.00024     161     203 ..      18      60 ..       6      64 .. 0.85

  Alignments for each domain:
  == domain 1  score: 20.6 bits;  conditional E-value: 6.6e-08
                              EEEECTTTTTS-HHHHHHHHHHHHHHCTTSEEEEE-SSHHHCC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 161 lyllDeidaaLDeknvkkvaellkeksknaQfivislreemle 203
                              + ++De+ a LD+kn  +v +++++ s +  +++is++e +l+
  PHY93_14020|PHY93_14020  18 ILIFDEVTAGLDQKNKDAVMDVIEKLSIDYIVVMISHDELTLQ 60 
                              679************************7777777787776655 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.3   0.0   1.7e-07   0.00062     112     137 .]       1      26 [.       1      26 [. 0.97

  Alignments for each domain:
  == domain 1  score: 20.3 bits;  conditional E-value: 1.7e-07
                              HHHHHHHHHHHHHHTSSEEEEESTTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran 112 GqkqrvalarallkkpkllllDEpta 137
                              Gq++r+ +ar+ll+  ++l++DE ta
  PHY93_14020|PHY93_14020   1 GQRRRLGIARVLLSGCEILIFDEVTA 26 
                              9**********************996 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.0   1.7e-06    0.0059     246     302 ..       7      59 ..       1      60 [. 0.84

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 1.7e-06
                   AAA_21 246 alltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQviltTHSplll 302
                              +++  ll+ +    +l++DE+ +gL+ k    +++++++ls  +  v++ +H+ l l
  PHY93_14020|PHY93_14020   7 GIARVLLSGC---EILIFDEVTAGLDQKNKDAVMDVIEKLSI-DYIVVMISHDELTL 59 
                              5555566666...9****************************.9********97765 PP

>> SbcCD_C  Putative exonuclease SbcCD, C subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.0   8.2e-06     0.029      63      89 ..      15      41 ..       5      42 .. 0.91

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 8.2e-06
                  SbcCD_C 63 alrlvfLDEAFsklDeesiatllelle 89
                              ++++++DE  ++lD+++ +++++++e
  PHY93_14020|PHY93_14020 15 GCEILIFDEVTAGLDQKNKDAVMDVIE 41
                             699*********************987 PP

>> DUF2326  Uncharacterised protein conserved in bacteria (DUF2326)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.3   1.5e-05     0.052      59     104 ..      15      56 ..       8      64 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.5e-05
                  DUF2326  59 vpkflvHDslfegvderqlaklleliaevaeklgiQyivtlnkdkl 104
                              ++++l+ D +  g+d++ +  ++++i    ekl i yiv +++++ 
  PHY93_14020|PHY93_14020  15 GCEILIFDEVTAGLDQKNKDAVMDVI----EKLSIDYIVVMISHDE 56 
                              6889999*******************....***********99874 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (65 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       420  (0.0234257); expected 358.6 (0.02)
Passed bias filter:                      278  (0.0155056); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.45u 0.26s 00:00:00.71 Elapsed: 00:00:00.46
# Mc/sec: 428.26
//
Query:       PHY93_14025|PHY93_14025  [L=98]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.48   10.9   5.7        4.1    7.9   0.3    2.1  2  PEN-2     Presenilin enhancer-2 subunit of gamma secretase


Domain annotation for each model (and alignments):
>> PEN-2  Presenilin enhancer-2 subunit of gamma secretase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9   0.3   0.00023       4.1      28      53 ..      10      35 ..       3      63 .. 0.83
   2 ?    6.0   0.8   0.00087        16      19      42 ..      68      91 ..      63      96 .. 0.88

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.00023
                    PEN-2 28 vvyffkeaflkeafeeqkeirkyvil 53
                               +f+++  ++++ +e++++r yv  
  PHY93_14025|PHY93_14025 10 WTFFWRHSSSSPSCREKSTFRLYVSX 35
                             357*********************75 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.00087
                    PEN-2 19 lLPflWlvNvvyffkeaflkeafe 42
                             +L f+W     yf++++f  ++f 
  PHY93_14025|PHY93_14025 68 CLRFVWXKQGXYFWNALFIXTSFX 91
                             799***************998875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (98 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       245  (0.013665); expected 358.6 (0.02)
Passed bias filter:                      157  (0.00875676); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.24s 00:00:00.68 Elapsed: 00:00:00.44
# Mc/sec: 675.57
//
Query:       PHY93_14030|PHY93_14030  [L=457]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.1e-24   85.2   0.1    5.3e-24   84.4   0.1    1.4  1  UvrA_inter     UvrA interaction domain
    3.6e-24   85.2   0.0    1.2e-22   80.3   0.0    2.5  3  UvrA_DNA-bind  UvrA DNA-binding domain
    0.00025   20.7   0.0    0.00053   19.7   0.0    1.5  1  AAA_29         P-loop containing region of AAA domain
    0.00028   21.5   1.3     0.0021   18.6   0.1    2.4  2  AAA_23         AAA domain
    0.00046   20.7   0.0     0.0013   19.2   0.0    1.8  1  ABC_tran       ABC transporter
     0.0047   16.4   0.0       0.01   15.3   0.0    1.5  1  SMC_N          RecF/RecN/SMC N terminal domain
     0.0065   16.3   0.1       0.41   10.4   0.0    2.5  2  AAA_21         AAA domain, putative AbiEii toxin, Type IV TA 
  ------ inclusion threshold ------
      0.012   16.0   0.0      0.019   15.3   0.0    1.5  1  AAA_16         AAA ATPase domain
      0.032   13.0   0.0      0.052   12.3   0.0    1.2  1  RNA12          RNA12 protein
      0.047   14.0   0.0        0.1   12.9   0.0    1.5  1  AAA_22         AAA domain
      0.048   13.2   0.0      0.093   12.3   0.0    1.4  1  AAA_25         AAA domain
      0.057   13.3   0.0       0.11   12.4   0.0    1.4  1  RsgA_GTPase    RsgA GTPase
      0.064   12.7   0.1       0.25   10.7   0.0    2.0  2  PhoH           PhoH-like protein
       0.12   12.8   0.2        2.6    8.5   0.0    2.7  2  DUF2960        Protein of unknown function (DUF2960)
       0.22   11.9   0.8         29    5.1   0.0    2.5  2  DnaJ_CXXCXGXG  DnaJ central domain


Domain annotation for each model (and alignments):
>> UvrA_inter  UvrA interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   84.4   0.1   4.4e-27   5.3e-24       2     108 ..     133     238 ..     132     239 .. 0.96

  Alignments for each domain:
  == domain 1  score: 84.4 bits;  conditional E-value: 4.4e-27
               UvrA_inter   2 sveqIvdqilkleegtkllilaPvvrerkgefkkllenlkkkGfvrvriDgeiydldedieldknkkhsievvvDrlvvkkeersr 87 
                              +++qIv ++lkl +++kl+ilaP+ ++ k +fk+ l+++   Gf+r r++ge++++de+++  k    ++++v+Dr+v+k+e ++r
  PHY93_14030|PHY93_14030 133 TPTQIVREVLKLGDKSKLQILAPIPTNDKIKFKDQLSKFLTMGFSRARLNGELIQIDESTKAPKGI-CQLDIVIDRIVLKDEVEKR 217
                              789*********************************************************998875.69***************** PP

               UvrA_inter  88 laesvetAlklgeglvivsev 108
                              la+s+e Alklgeg++++  +
  PHY93_14030|PHY93_14030 218 LADSIEYALKLGEGNITILVN 238
                              ****************99765 PP

>> UvrA_DNA-bind  UvrA DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.0   0.0      0.21   2.5e+02      79     108 ..      38      67 ..      24      69 .. 0.83
   2 ?   -2.5   0.0       5.5   6.5e+03      58      86 ..     225     253 ..     216     270 .. 0.51
   3 !   80.3   0.0     1e-25   1.2e-22       1     110 []     288     395 ..     288     395 .. 0.98

  Alignments for each domain:
  == domain 1  score: 2.0 bits;  conditional E-value: 0.21
                              ......---HHHHHHHHHH-------HHHH CS
            UvrA_DNA-bind  79 rsyektfeGvipnlerryreteSeavreel 108
                               + +  f+ +  + +rry e+ S ++r+ l
  PHY93_14030|PHY93_14030  38 GKSSLAFDTIYVEGQRRYIESLSSYARQFL 67 
                              56677899999999*************966 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 5.5
                              HHHH----...................-- CS
            UvrA_DNA-bind  58 ilLyGsgeekikveyksggrkrsyektfe 86 
                              +l  G+g+ +i v+ +++ + ++++k+ +
  PHY93_14030|PHY93_14030 225 ALKLGEGNITILVNDNKEITFSEHNKSTK 253
                              55556666666666666333333333333 PP

  == domain 3  score: 80.3 bits;  conditional E-value: 1e-25
                              -S----.-----------GGG..TT-HHHHHHHHHHHTTTS------------S-THHHHH----...................-- CS
            UvrA_DNA-bind   1 DpdlvvpdpslslaegAiapwsskkssyyrqlleavaehygidldtpfkeLpeeqkdilLyGsgeekikveyksggrkrsyektfe 86 
                              D dl++ d++l l egAi p+ sk++s+ ++++e++a++ gid+++pfk+Lp++  +il++Gs++ +++++++s++ + +++k f 
  PHY93_14030|PHY93_14030 288 DMDLMIFDENLPLLEGAITPL-SKRNSFLYKMVETIAAEEGIDVTVPFKKLPKKMTNILFNGSDK-VYRYSFTSENSHFEFSKAFP 371
                              99*******************.99****************************************7.99999999************ PP

                              -HHHHHHHHHH-------HHHHHH CS
            UvrA_DNA-bind  87 GvipnlerryreteSeavreelek 110
                              G+  +le+++ e+ S++vr elek
  PHY93_14030|PHY93_14030 372 GLSAWLEKKFLESGSDKVRIELEK 395
                              **********************97 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.7   0.0   4.4e-07   0.00053      12      38 ..      16      42 ..      11      52 .. 0.82

  Alignments for each domain:
  == domain 1  score: 19.7 bits;  conditional E-value: 4.4e-07
                   AAA_29 12 fdghtieidlkgatlltGpsGsGKSTl 38
                             +++ ti+i  +  t++tGpsGsGKS+l
  PHY93_14030|PHY93_14030 16 LQDVTISIPKNTLTVITGPSGSGKSSL 42
                             5567888876679************98 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.1   1.8e-06    0.0021       9      35 ..      15      42 ..       7      47 .. 0.88
   2 ?    1.0   0.1      0.44   5.2e+02     107     162 ..     124     208 ..      76     262 .. 0.57

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 1.8e-06
                   AAA_23  9 sfrdqeidF.skgltlItGpNGaGKTTi 35
                              ++d++i   ++ lt+ItGp G+GK+++
  PHY93_14030|PHY93_14030 15 NLQDVTISIpKNTLTVITGPSGSGKSSL 42
                             5689999998999*************98 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.44
                   AAA_23 107 aklelleideleqfisellg.skkiilnlilflgqerfeefelkdkke..............................rleeleke 161
                              +++ +++  + +q+++e l+  +k+ l++++ ++  ++ +f++  +++                              +l+ +++ 
  PHY93_14030|PHY93_14030 124 ETGLEVRRYTPTQIVREVLKlGDKSKLQILAPIPTNDKIKFKD--QLSkfltmgfsrarlngeliqidestkapkgicQLDIVIDR 207
                              4445555555566666655534455566666666666544443..22222333333333333344333334444444444444444 PP

                   AAA_23 162 l 162
                              +
  PHY93_14030|PHY93_14030 208 I 208
                              4 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.2   0.0   1.1e-06    0.0013       1      28 [.      16      43 ..      16      53 .. 0.93

  Alignments for each domain:
  == domain 1  score: 19.2 bits;  conditional E-value: 1.1e-06
                             EEEEEEEEETTSEEEEEESTTSSHHHHH CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  1 lknvslklkegekvaivGenGaGKStLl 28
                             l++v++++ ++++++i+G++G+GKS+L+
  PHY93_14030|PHY93_14030 16 LQDVTISIPKNTLTVITGPSGSGKSSLA 43
                             789***********************95 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   8.4e-06      0.01      10      52 ..      13      54 ..       3      76 .. 0.76

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 8.4e-06
                             ETTEECEEEEEETTSSEEEEEESTTSSHHHH.HHHHHHHCTT.T CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxx RF
                    SMC_N 10 FksyagktvilpfsksftaivGpNGSGKsnl.ldAilFvLGers 52
                             + ++++ t+++p  + +t+i+Gp GSGKs+l +d i +v G+r 
  PHY93_14030|PHY93_14030 13 VHNLQDVTISIPK-NTLTVITGPSGSGKSSLaFDTI-YVEGQRR 54
                             5566655555554.459*************945777.8888664 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.4   0.0   0.00034      0.41       1      15 [.      28      42 ..      28     131 .. 0.90
   2 ?    3.4   0.1     0.046        55      61     106 ..     342     384 ..     326     396 .. 0.73

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00034
                   AAA_21  1 lnvliGpNgsGKSnL 15
                             l+v++Gp gsGKS+L
  PHY93_14030|PHY93_14030 28 LTVITGPSGSGKSSL 42
                             79***********98 PP

  == domain 2  score: 3.4 bits;  conditional E-value: 0.046
                   AAA_21  61 eieeflsqgvryryglrlersqveeklssvetllesgllldkrsle 106
                              + ++f+ ++++yry+++ e+s++    +s+  +++s +l +k  + 
  PHY93_14030|PHY93_14030 342 TNILFNGSDKVYRYSFTSENSHF---EFSKAFPGLSAWLEKKFLES 384
                              567799*****************...55555555555555555555 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.3   0.0   1.6e-05     0.019      16      45 ..      16      48 ..       4     181 .. 0.77

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 1.6e-05
                   AAA_16 16 lervrsgrp..elvllsGesGvGKsslv.rell 45
                             l++v  + p   l++++G+sG+GKssl+ ++++
  PHY93_14030|PHY93_14030 16 LQDVTISIPknTLTVITGPSGSGKSSLAfDTIY 48
                             33444444566999*************944444 PP

>> RNA12  RNA12 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   4.3e-05     0.052      16      38 ..      25      47 ..      11      57 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 4.3e-05
                    RNA12 16 vntFivvkGPrGSGkkeLvldrv 38
                              nt +v++GP GSGk++L +d +
  PHY93_14030|PHY93_14030 25 KNTLTVITGPSGSGKSSLAFDTI 47
                             79****************98865 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   8.4e-05       0.1       6      70 ..      27      95 ..      24     120 .. 0.65

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 8.4e-05
                   AAA_22  6 gilvvtGesGtGKTtllrrlleqldeeakaee....erpevv.fvtlpsstsskdllrellralglelka 70
                             +++v+tG+sG+GK+ l+    +   ++ ++e     +r   +  +++p+ +s + l   ++ + +++ k+
  PHY93_14030|PHY93_14030 27 TLTVITGPSGSGKSSLAFDTIYVEGQRRYIESlssyARQF-LgQYQPPEVESITGLSPSIAIDQKSSSKN 95
                             789************9977777666666666666532222.24666666666666666666555555555 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   7.8e-05     0.093      30      53 ..      23      46 ..      13      49 .. 0.92

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 7.8e-05
                   AAA_25 30 lpagelallaGapgtGKttlaldl 53
                             +p+++l++++G++g+GK+ la d 
  PHY93_14030|PHY93_14030 23 IPKNTLTVITGPSGSGKSSLAFDT 46
                             79******************9885 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   8.9e-05      0.11      88     116 ..      14      43 ..       3      60 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 8.9e-05
                              TTHHHHHHHCTT.SEEEEECSTTSSHHHHH CS
              RsgA_GTPase  88 egleelkellkd.ktsvlvGqSGvGKStLi 116
                              ++l++++  + +  ++v+ G+SG GKS+L 
  PHY93_14030|PHY93_14030  14 HNLQDVTISIPKnTLTVITGPSGSGKSSLA 43 
                              466666666655489*************95 PP

>> PhoH  PhoH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   0.00021      0.25      11      37 ..      18      44 ..       8      56 .. 0.83
   2 ?   -1.8   0.0       1.4   1.7e+03     145     172 ..     176     202 ..     165     217 .. 0.77

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00021
                             HHHHHHHH-SEEEEE--TTSSTTHHHH CS
                     PhoH 11 eylealkkndivfaiGpaGtGKtylav 37
                             ++  ++ kn++++++Gp+G+GK+ la 
  PHY93_14030|PHY93_14030 18 DVTISIPKNTLTVITGPSGSGKSSLAF 44
                             45556789****************996 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 1.4
                              TT-EEEEEE--------------THHHH CS
                     PhoH 145 enskvvvtGdvtqidlpkgkksGlaeal 172
                              + s++ ++G++ qid  ++  +G+ ++ 
  PHY93_14030|PHY93_14030 176 F-SRARLNGELIQIDESTKAPKGICQLD 202
                              4.68889999999999999899987765 PP

>> DUF2960  Protein of unknown function (DUF2960)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   0.0      0.43   5.2e+02      58      75 ..     164     180 ..     147     184 .. 0.70
   2 ?    8.5   0.0    0.0022       2.6      25      54 ..     317     348 ..     311     368 .. 0.76

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.43
                  DUF2960  58 vkdfrdneFaklGFskik 75 
                               kd + ++F  +GFs+ +
  PHY93_14030|PHY93_14030 164 FKD-QLSKFLTMGFSRAR 180
                              333.5679******9866 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.0022
                  DUF2960  25 diyeAvAaaEgidlt.eflameqQlamis.kd 54 
                              ++ e +Aa+Egid+t  f+++ +++ +i  ++
  PHY93_14030|PHY93_14030 317 KMVETIAAEEGIDVTvPFKKLPKKMTNILfNG 348
                              689***********845888888887776444 PP

>> DnaJ_CXXCXGXG  DnaJ central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   0.0     0.024        29      16      29 ..     274     287 ..     267     297 .. 0.70
   2 ?    4.6   0.3     0.034        41      13      24 ..     398     409 ..     384     454 .. 0.72

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.024
            DnaJ_CXXCXGXG  16 tCktCkGsGvvree 29 
                               C+ C+G G++++ 
  PHY93_14030|PHY93_14030 274 ACEVCNGLGETKTF 287
                              69999999965544 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.034
            DnaJ_CXXCXGXG  13 kkktCktCkGsG 24 
                              + ktC++C+G  
  PHY93_14030|PHY93_14030 398 NIKTCPSCQGLR 409
                              467888888865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (457 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       593  (0.0330749); expected 358.6 (0.02)
Passed bias filter:                      531  (0.0296168); expected 358.6 (0.02)
Passed Vit filter:                        98  (0.005466); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.65u 0.28s 00:00:00.93 Elapsed: 00:00:00.48
# Mc/sec: 2882.03
//
Query:       PHY93_05950|PHY93_05950  [L=420]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    0.00017   21.0   0.8    0.00029   20.3   0.8    1.4  1  N_methyl         Prokaryotic N-terminal methylation motif
    0.00068   20.0   8.6      0.011   16.1   0.3    3.6  3  Lustrin_cystein  Lustrin, cysteine-rich repeated domain
  ------ inclusion threshold ------
      0.076   12.9   0.1       0.33   10.8   0.0    1.9  2  Glyco_hydro_19   Chitinase class I


Domain annotation for each model (and alignments):
>> N_methyl  Prokaryotic N-terminal methylation motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.3   0.8   4.8e-08   0.00029       2      26 ..       6      30 ..       5      31 .. 0.89

  Alignments for each domain:
  == domain 1  score: 20.3 bits;  conditional E-value: 4.8e-08
                 N_methyl  2 rkqrGFTLiElLvalaIlaillaaa 26
                             ++ +GF+L E+++a aI +++ ++ 
  PHY93_05950|PHY93_05950  6 KSTKGFSLAEIMIATAIAGVIGLVG 30
                             5679*****************9886 PP

>> Lustrin_cystein  Lustrin, cysteine-rich repeated domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.1      0.53   3.1e+03      22      27 ..     235     243 ..     216     252 .. 0.68
   2 !    7.2   0.4    0.0011       6.7       2      30 ..     324     351 ..     323     352 .. 0.81
   3 !   16.1   0.3   1.8e-06     0.011       2      30 ..     374     404 ..     373     405 .. 0.82

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.53
          Lustrin_cystein  22 s...sssCP 27 
                                  s+sCP
  PHY93_05950|PHY93_05950 235 MtgpSQSCP 243
                              333467887 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.0011
          Lustrin_cystein   2 CpsGeeplldesgqpvtCsps..sssCPsgy 30 
                              C   + +l+    +p+tC p    +sCP+++
  PHY93_05950|PHY93_05950 324 CGADQ-VLRR--LSPKTCAPKliAKSCPANQ 351
                              77777.6777..459*************986 PP

  == domain 3  score: 16.1 bits;  conditional E-value: 1.8e-06
          Lustrin_cystein   2 CpsGeeplldesgqpvtCsps..sssCPsgy 30 
                              Cp G+  + +  ++ +tC p   + sCP+gy
  PHY93_05950|PHY93_05950 374 CPAGQYLASMTASGNATCLPLtiNASCPAGY 404
                              *****5444455667***************9 PP

>> Glyco_hydro_19  Chitinase class I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.0      0.27   1.6e+03     175     195 ..      99     119 ..      96     128 .. 0.84
   2 ?   10.8   0.0   5.6e-05      0.33     152     204 ..     276     328 ..     264     335 .. 0.83

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 0.27
           Glyco_hydro_19 175 seadaaagrvpGyGvitniin 195
                              s  d+a++  pG   itni +
  PHY93_05950|PHY93_05950  99 SYGDKASDTSPGIVSITNIST 119
                              667999************965 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 5.6e-05
           Glyco_hydro_19 152 wfwmtaqsp..kpschdviiGqwspseadaaagrvpGyGvitniingglecgkge 204
                              w++ ++ ++  +p ch++   ++ ps +  a+g   G Gv t i  g + cg ++
  PHY93_05950|PHY93_05950 276 WWYAKSFNNlgEPDCHKL--SEFVPSGNLVATGVSAGLGVFTPISVGAMSCGADQ 328
                              555555444469****96..79******************************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (420 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       508  (0.028334); expected 358.6 (0.02)
Passed bias filter:                      431  (0.0240393); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.64u 0.23s 00:00:00.87 Elapsed: 00:00:00.48
# Mc/sec: 2649.42
//
Query:       PHY93_14035|PHY93_14035  [L=471]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.4e-15   57.2   1.9    3.6e-10   40.5   0.8    3.3  2  ABC_tran         ABC transporter
    1.1e-08   34.7   0.4     0.0013   18.3   0.4    3.3  2  SMC_N            RecF/RecN/SMC N terminal domain
    3.6e-05   23.6   0.6       0.37   10.5   0.1    3.2  3  AAA_15           AAA ATPase domain
    9.9e-05   22.2   0.1     0.0096   15.8   0.2    2.5  2  BCA_ABC_TP_C     Branched-chain amino acid ATP-binding casset
    0.00055   19.6   0.2     0.0012   18.5   0.2    1.5  1  AAA_29           P-loop containing region of AAA domain
    0.00077   19.9   0.0     0.0088   16.4   0.0    2.3  2  AAA_16           AAA ATPase domain
     0.0017   18.2   0.2      0.004   16.9   0.1    1.7  2  Viral_helicase1  Viral (Superfamily 1) RNA helicase
     0.0029   17.9   0.7     0.0058   17.0   0.7    1.4  1  DnaJ_CXXCXGXG    DnaJ central domain
     0.0045   16.9   0.2       0.01   15.8   0.2    1.6  1  RsgA_GTPase      RsgA GTPase
  ------ inclusion threshold ------
       0.01   15.7   0.0      0.018   15.0   0.0    1.4  1  NACHT            NACHT domain
       0.02   14.7   3.5        4.9    6.9   0.0    3.2  3  AAA_21           AAA domain, putative AbiEii toxin, Type IV T
      0.027   14.6   0.0       0.11   12.6   0.0    2.0  2  AAA_33           AAA domain
      0.049   13.9   0.2        0.4   11.0   0.0    2.5  3  AAA_22           AAA domain
      0.084   13.1   0.1        1.4    9.1   0.1    2.5  2  DASH_Dad1        DASH complex subunit Dad1
       0.12   11.5   0.0       0.15   11.2   0.0    1.2  1  G-alpha          G-protein alpha subunit
       0.12   12.9   0.0       0.38   11.3   0.0    1.9  1  AAA_18           AAA domain
       0.13   12.7   0.0       0.26   11.7   0.0    1.5  1  RNA_helicase     RNA helicase
       0.15   11.9   0.0       0.26   11.1   0.0    1.3  1  DUF4756          Domain of unknown function (DUF4756)


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.1   0.0   0.00043      0.42     102     136 ..      11      47 ..       2      48 .. 0.77
   2 !   40.5   0.8   3.6e-13   3.6e-10       2     136 ..     153     391 ..     152     392 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00043
                              ESTTSGGS-HHHHHHHHHHHHHHHT..SSEEEEESTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxx RF
                 ABC_tran 102 vksspssLSgGqkqrvalarallkk..pkllllDEpt 136
                              +++++ +LSgG+ qr+ la  + ++    l++lDEp+
  PHY93_14035|PHY93_14035  11 LNRGAMTLSGGESQRIRLATQIGSAlsGVLYVLDEPS 47 
                              5566799************9886551166999***95 PP

  == domain 2  score: 40.5 bits;  conditional E-value: 3.6e-13
                              EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--....SEEEEEETTCEGGG........B-HHHCCHCEEEE-SS--S-TTSB CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxx........xxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran   2 knvslklkegekvaivGenGaGKStLlkllagllkp....teGeilldgkdlke........qeleslrkeigvlpqepqlfpelt 75 
                              +n+s+++  g +v + G +G+GKStL+  ++    +       + l++++++++        +           + + +q   + t
  PHY93_14035|PHY93_14035 153 NNLSVSIPLGGLVCVSGVSGSGKSTLIHKILVPAVKthltRTHKSLYQKTNFNSltgvdeikT-----------IIELDQSPIGRT 227
                              89************************9766544333133322222344444444333333332...........333333333333 PP

                              HHHH.................................................................................. CS
                              xxxx.................................................................................. RF
                 ABC_tran  76 vren.................................................................................. 79 
                               ++n                                                                                  
  PHY93_14035|PHY93_14035 228 PHSNpatytglfddirdifastnesqirgyktgrfsfnvkggrcedcegngvkkiemhflpdvyitcteckgrrynaetlsvlykg 313
                              333344444555556666777888889*********************************************************** PP

                              ..................HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSS...EEEEESTT CS
                              ..................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxx RF
                 ABC_tran  80 ..................esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpk...llllDEpt 136
                                                +   +++++l++l+ ++l   ++++ +++LSgG+ qr++l r l k+ k   l++lDEpt
  PHY93_14035|PHY93_14035 314 knisevldmsieegteffKNHTKLNRVLNTLNSVGLGYMKLGQPATTLSGGEAQRLKLSRELSKRTKghcLYILDEPT 391
                              *******9999999999988888******************9999*****************99876666*******9 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.9   0.0   0.00092      0.92     136     210 ..      17      90 ..      10      96 .. 0.88
   2 !   18.3   0.4   1.3e-06    0.0013     135     209 ..     319     433 ..     150     440 .. 0.72

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.00092
                              CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTT.SEEEEE-SSHHHCCC-SCEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 136 lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkekskn.aQfivislreemlekadklvg 210
                              +LSgGe + + la    i ++    ly+lDe    L ++   ++ + lk+ ++    ++v+ ++e++++ +d l+ 
  PHY93_14035|PHY93_14035  17 TLSGGESQRIRLATQ--IGSALSGVLYVLDEPSIGLHQRDNDRLIKTLKALRDIgNTVLVVEHDEDTMRASDYLID 90 
                              589999987766665..77888889************************999876899***********9998876 PP

  == domain 2  score: 18.3 bits;  conditional E-value: 1.3e-06
                              T........................................CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHH CS
                              x........................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 135 e........................................lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkva 180
                                                                       +LSgGe + + l+  ++ ++ k ++ly+lDe    L ++ +k++ 
  PHY93_14035|PHY93_14035 319 VldmsieegteffknhtklnrvlntlnsvglgymklgqpatTLSGGEAQRLKLSRELS-KRTKGHCLYILDEPTTGLHFQDIKILL 403
                              044444444555555555555555555555555577777779*****99999998876.7899*********************** PP

                              HHHHHHCTT.SEEEEE-SSHHHCCC-SCEE CS
                              xxxxxxxxx.xxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 181 ellkekskn.aQfivislreemlekadklv 209
                              + l++  ++   +++i ++ ++++ ad ++
  PHY93_14035|PHY93_14035 404 SALQQLVEQgHTLFIIEHNLDVIKTADWVI 433
                              *****99986889999**999999998776 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.2   0.0    0.0073       7.3     303     355 ..      24      69 ..      17      78 .. 0.78
   2 ?    3.6   0.1     0.046        46      17      43 ..     157     182 ..     152     251 .. 0.90
   3 !   10.5   0.1   0.00037      0.37     270     361 ..     318     418 ..     300     426 .. 0.64

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.0073
                   AAA_15 303 rllllillileaekkdekeeknvilliEEPEahLHpqaqkvlikllkelandn 355
                              + + l+++i +a  +       v+++++EP + LH      lik+lk l + +
  PHY93_14035|PHY93_14035  24 QRIRLATQIGSALSG-------VLYVLDEPSIGLHQRDNDRLIKTLKALRDIG 69 
                              555555555555555.......9***********************9986655 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.046
                   AAA_15  17 veidlseeltvliGkNnsGKSsileal 43 
                              v+i+l   l ++ G  +sGKS++++ +
  PHY93_14035|PHY93_14035 157 VSIPLGG-LVCVSGVSGSGKSTLIHKI 182
                              6899999.**************99866 PP

  == domain 3  score: 10.5 bits;  conditional E-value: 0.00037
                   AAA_15 270 kikkfnykgkkneeieik..ddeelplnknGsGvqrllllillileaekk........dekeeknvilliEEPEahLHpqaqkvli 345
                              ++ ++ + + ++++++    + +  +ln +G+G++ l   ++ +   e +        +++ +   +++++EP + LH q  k+l 
  PHY93_14035|PHY93_14035 318 EVLDMSIEEGTEFFKNHTklNRVLNTLNSVGLGYMKLGQPATTLSGGEAQrlklsrelSKRTKGHCLYILDEPTTGLHFQDIKILL 403
                              4444444444444444445555555556666666555544444444443344455555555555889999**************** PP

                   AAA_15 346 kllkelandnktQvii 361
                               +l+ l+++++t ++i
  PHY93_14035|PHY93_14035 404 SALQQLVEQGHT-LFI 418
                              *********985.443 PP

>> BCA_ABC_TP_C  Branched-chain amino acid ATP-binding cassette transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   0.0     0.057        57       1      15 [.     101     115 ..     101     116 .. 0.89
   2 !   15.8   0.2   9.7e-06    0.0096       1      16 [.     445     460 ..     445     460 .. 0.92

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.057
             BCA_ABC_TP_C   1 rvIAeGtPaEvrndP 15 
                              +v A+Gt a + +d 
  PHY93_14035|PHY93_14035 101 KVVAHGTLAKILKDK 115
                              799********9997 PP

  == domain 2  score: 15.8 bits;  conditional E-value: 9.7e-06
             BCA_ABC_TP_C   1 rvIAeGtPaEvrndPr 16 
                              ++ AeGtP++v ++P+
  PHY93_14035|PHY93_14035 445 EIVAEGTPEQVAKNPK 460
                              579************6 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.5   0.2   1.2e-06    0.0012      10      50 ..     150     187 ..     143     192 .. 0.82

  Alignments for each domain:
  == domain 1  score: 18.5 bits;  conditional E-value: 1.2e-06
                   AAA_29  10 gtfdghtieidlkgatlltGpsGsGKSTllDAiqalLvpak 50 
                              + +++ +++i l g + ++G sGsGKSTl+     +Lvpa 
  PHY93_14035|PHY93_14035 150 HNINNLSVSIPLGGLVCVSGVSGSGKSTLI---HKILVPAV 187
                              566777888999999**************9...77777765 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.0   8.8e-06    0.0088      24      51 ..     162     189 ..     151     229 .. 0.78
   2 ?    0.4   0.0      0.75   7.5e+02      58     170 .]     292     418 ..     279     420 .. 0.50

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 8.8e-06
                   AAA_16  24 pelvllsGesGvGKsslvrellralekd 51 
                              ++lv +sG sG+GKs+l+ ++l ++ k+
  PHY93_14035|PHY93_14035 162 GGLVCVSGVSGSGKSTLIHKILVPAVKT 189
                              4899***************999877777 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.75
                   AAA_16  58 gkcdqlesaipysa.laqalareellrqllde..aesaeleawrekleeala..................avpelagaeasrllel 122
                               +c+++ ++++y a  +++l + + + ++ld+  +e +e+   ++kl    +                  ++  l+g   ++ + +
  PHY93_14035|PHY93_14035 292 ITCTEC-KGRRYNAeTLSVLYKGKNISEVLDMsiEEGTEFFKNHTKL----NrvlntlnsvglgymklgqPATTLSGG--EAQRLK 370
                              555555.5555544455555555555555555221222222222222....124446666666666664444444444..444445 PP

                   AAA_16 123 lkrllallsrderplvlvlDdlq.wadeaslql.laaLlrlleskpllvv 170
                              l+r l++ ++ ++  + +lD+    + +++ ++ l+aL +l+e+++ l++
  PHY93_14035|PHY93_14035 371 LSRELSKRTK-GH-CLYILDEPTtGLHFQDIKIlLSALQQLVEQGHTLFI 418
                              6677755555.66.666666433344444455558888888888755544 PP

>> Viral_helicase1  Viral (Superfamily 1) RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.1     4e-06     0.004       2      39 ..     166     197 ..     165     223 .. 0.69
   2 ?   -3.6   0.0       7.6   7.6e+03     109     134 ..     366     391 ..     364     400 .. 0.76

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 4e-06
          Viral_helicase1   2 vvhGvpGcGKStlirkllrtsliltvnrptaelltegk 39 
                               v+Gv G+GKStli k+l +       ++t   +t+ +
  PHY93_14035|PHY93_14035 166 CVSGVSGSGKSTLIHKILVP------AVKTHLTRTHKS 197
                              599***************99......444344444444 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 7.6
          Viral_helicase1 109 fllahlpsslshrvgrrttyllpsdv 134
                              +++ +l+ +ls+r++ +  y+l + +
  PHY93_14035|PHY93_14035 366 AQRLKLSRELSKRTKGHCLYILDEPT 391
                              56778888889999888888887655 PP

>> DnaJ_CXXCXGXG  DnaJ central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.7   5.9e-06    0.0058      15      51 ..     269     301 ..     256     307 .. 0.73

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 5.9e-06
            DnaJ_CXXCXGXG  15 ktCktCkGsGvvreeqktlgpfvqqsqstCpeCeGtG 51 
                               +C++C+G+Gv++ e++    f   +  tC+eC+G+ 
  PHY93_14035|PHY93_14035 269 GRCEDCEGNGVKKIEMH----FLPDVYITCTECKGRR 301
                              47********6444442....44566789****9986 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.2     1e-05      0.01      72     122 ..     134     185 ..     111     207 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 1e-05
                              HHHTTSEEEE--TTTHTTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT CS
              RsgA_GTPase  72 lealgyevllvsaktkegleelkellkd.ktsvlvGqSGvGKStLinallpe 122
                              ++++ +++l+++  +++++++l+  +    ++++ G SG GKStLi ++l  
  PHY93_14035|PHY93_14035 134 VRKTATKFLKLNGASEHNINNLSVSIPLgGLVCVSGVSGSGKSTLIHKILVP 185
                              5677788999999999999999999987699***************987643 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   0.0   1.8e-05     0.018       2      31 ..     164     193 ..     163     208 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 1.8e-05
                              CEEEEC-TTTCHHHHHHHHHHHHCTS-SCC CS
                    NACHT   2 lvilqGeaGsGKTtLlqklalawaegklpq 31 
                              lv++ G +GsGK+tL++k+ + + + +l +
  PHY93_14035|PHY93_14035 164 LVCVSGVSGSGKSTLIHKILVPAVKTHLTR 193
                              699****************99887777665 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.9   0.0    0.0049       4.9     237     285 ..      18      65 ..      11      81 .. 0.79
   2 ?    0.4   0.1      0.46   4.6e+02       6      16 ..     169     179 ..     164     184 .. 0.85
   3 ?    6.1   0.3    0.0087       8.7     260     297 ..     384     421 ..     369     427 .. 0.81

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.0049
                   AAA_21 237 lSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkel 285
                              lS G  + ++l+t + +al+   l+++DEp  gLH +   rl++ lk+l
  PHY93_14035|PHY93_14035  18 LSGGESQRIRLATQIGSALSG-VLYVLDEPSIGLHQRDNDRLIKTLKAL 65 
                              677777777**********98.9************96555555555555 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.46
                   AAA_21   6 GpNgsGKSnLL 16 
                              G  gsGKS+L+
  PHY93_14035|PHY93_14035 169 GVSGSGKSTLI 179
                              788******98 PP

  == domain 3  score: 6.1 bits;  conditional E-value: 0.0087
                   AAA_21 260 llliDEpEngLHPkllrrllellkelsrngaQviltTH 297
                              l+++DEp +gLH + ++ ll  l +l + g  +++  H
  PHY93_14035|PHY93_14035 384 LYILDEPTTGLHFQDIKILLSALQQLVEQGHTLFIIEH 421
                              789**********9999999888777777888877655 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.0       2.2   2.2e+03      71     112 ..      39      83 ..      23      85 .. 0.62
   2 ?   12.6   0.0   0.00011      0.11       1      22 [.     164     185 ..     164     250 .. 0.78

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 2.2
                   AAA_33  71 rnvildatnlsrrer.....arflklarrlgvpvrivvvetdeetlk 112
                                ++ld + +  ++r      + lk++r++g   +++vve de+t++
  PHY93_14035|PHY93_14035  39 VLYVLDEPSIGLHQRdndrlIKTLKALRDIG--NTVLVVEHDEDTMR 83 
                              5567777755544444422245566666666..67888888888876 PP

  == domain 2  score: 12.6 bits;  conditional E-value: 0.00011
                   AAA_33   1 lvllvGlpGsGKstlaerllkk 22 
                              lv + G++GsGKstl++++l +
  PHY93_14035|PHY93_14035 164 LVCVSGVSGSGKSTLIHKILVP 185
                              78899***********998754 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0       9.5   9.5e+03      87     117 ..      34      67 ..      19      75 .. 0.49
   2 ?   11.0   0.0    0.0004       0.4       6      30 ..     163     187 ..     161     252 .. 0.73
   3 ?   -0.4   0.0       1.3   1.3e+03      72      97 ..     396     419 ..     353     424 .. 0.69

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 9.5
                   AAA_22  87 raravielliiDEaqh.lr.s..eealeeLrslln 117
                              +a +  +l ++DE    l  +  ++++++L+ l +
  PHY93_14035|PHY93_14035  34 SALSG-VLYVLDEPSIgLHqRdnDRLIKTLKALRD 67 
                              44444.56666664444432133444444444444 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.0004
                   AAA_22   6 gilvvtGesGtGKTtllrrlleqld 30 
                              g+++v G sG+GK+tl+ ++l  ++
  PHY93_14035|PHY93_14035 163 GLVCVSGVSGSGKSTLIHKILVPAV 187
                              7899*************99987664 PP

  == domain 3  score: -0.4 bits;  conditional E-value: 1.3
                   AAA_22  72 rlsseellealeqalraraviellii 97 
                               ++ + ll+al+q +++ ++  l+ii
  PHY93_14035|PHY93_14035 396 FQDIKILLSALQQLVEQGHT--LFII 419
                              36677777888888877777..5555 PP

>> DASH_Dad1  DASH complex subunit Dad1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   0.0      0.61     6e+02       3      23 ..      22      42 ..      22      49 .. 0.88
   2 ?    9.1   0.1    0.0014       1.4      17      41 ..     327     351 ..     318     356 .. 0.85

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.61
                DASH_Dad1  3 erqRdrliqeIaesmeevlnn 23
                             e qR rl ++I + +  vl  
  PHY93_14035|PHY93_14035 22 ESQRIRLATQIGSALSGVLYV 42
                             689**********99999865 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.0014
                DASH_Dad1  17 meevlnnlnaLNRsLEeviavgkeF 41 
                                e+++n  +LNR L+++++vg  +
  PHY93_14035|PHY93_14035 327 GTEFFKNHTKLNRVLNTLNSVGLGY 351
                              578999***************9776 PP

>> G-alpha  G-protein alpha subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   0.00015      0.15      27     168 ..     166     339 ..     142     431 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00015
                              EEEESTTSSHHHHHHHHHHHCS----HHHHHC...CHHHHHHHHHHHHHHHHHHHHHTT.......HHHC-SS-SCCCS-HCHHHH CS
                  G-alpha  27 lllGqseSGKsTilkqlkllykkgfseeelat...wraviqlnivrsiktilealesleselsesfelqelkerldplkkveasli 109
                               + G s+SGKsT++ ++ +   k++ ++  ++    +++  l+ v+ ikti+e  +s+ +  ++ +++++++  +d+++++ as +
  PHY93_14035|PHY93_14035 166 CVSGVSGSGKSTLIHKILVPAVKTHLTRTHKSlyqKTNFNSLTGVDEIKTIIELDQSP-IGRTPHSNPATYTGLFDDIRDIFASTN 250
                              56799***********997776664444444430255566677788899999888884.333344466777777777777777643 PP

                              ..........................................HHCCHHC..........-HCHHHHHHHHCCSHHHHHHHCCGCCT CS
                  G-alpha 110 aklssateee................................qeiefnp..........raevgedikaLwndpgiqelyerrnki 153
                              +     ++++                                      +          r+  +e +  L + ++i+e+++ +   
  PHY93_14035|PHY93_14035 251 E-----SQIRgyktgrfsfnvkggrcedcegngvkkiemhflP-----DvyitcteckgRRYNAETLSVLYKGKNISEVLDMS--- 323
                              3.....2222555567777887888878877777665444441.....14333344554556666777788888888888877... PP

                              T--TTHHHHHCT..HHH CS
                  G-alpha 154 klednaeyFldd..ler 168
                               +e+++e+F ++  l+r
  PHY93_14035|PHY93_14035 324 -IEEGTEFFKNHtkLNR 339
                              .7888888877655444 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00038      0.38       1      18 [.     165     182 ..     165     250 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00038
                   AAA_18   1 IlltGtpGvGKttlakeL 18 
                              ++++G++G+GK+tl + +
  PHY93_14035|PHY93_14035 165 VCVSGVSGSGKSTLIHKI 182
                              79************9876 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00026      0.26       1      37 [.     165     201 ..     165     219 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00026
             RNA_helicase   1 iwlyGpsgeGKStlake.Lakallkklklkkkdsvysr 37 
                              ++++G sg GKStl+++ L+ a+ ++l + +++s+y +
  PHY93_14035|PHY93_14035 165 VCVSGVSGSGKSTLIHKiLVPAVKTHL-TRTHKSLYQK 201
                              689*************95566666666.6666888864 PP

>> DUF4756  Domain of unknown function (DUF4756)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   0.00026      0.26       6     102 ..      53     153 ..      50     159 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00026
                  DUF4756   6 ldnsdliqyldtikklkkqpsleeyreeyrrvre...ddsplseakkfk.sahtelrrldkkrksliekfieelnpissskartsa 87 
                               dn+ li+ l++++++ + + + e+ e+  r  +   d  p++ ++  k  ah  l ++ k +ksl  kf++  n i     r +a
  PHY93_14035|PHY93_14035  53 RDNDRLIKTLKALRDIGNTVLVVEHDEDTMRASDyliDMGPGAGVHGGKvVAHGTLAKILKDKKSLTAKFLNGENRIEIPAVRKTA 138
                              69****************9999999988877654344888999998877369*************************999999888 PP

                  DUF4756  88 kasgnldvlqerviy 102
                                  +l+   e+ i 
  PHY93_14035|PHY93_14035 139 TKFLKLNGASEHNIN 153
                              888888877776665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (471 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       570  (0.0317921); expected 358.6 (0.02)
Passed bias filter:                      529  (0.0295053); expected 358.6 (0.02)
Passed Vit filter:                        89  (0.00496402); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              18  [number of targets reported over threshold]
# CPU time: 0.70u 0.30s 00:00:01.00 Elapsed: 00:00:00.49
# Mc/sec: 2897.65
//
Query:       PHY93_14040|PHY93_14040  [L=250]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      1e-28  100.3   0.1    1.5e-28   99.8   0.1    1.2  1  SpoU_methylase   SpoU rRNA Methylase family
     0.0021   18.0   0.4     0.0037   17.2   0.1    1.6  2  Methyltrn_RNA_4  SAM-dependent RNA methyltransferase


Domain annotation for each model (and alignments):
>> SpoU_methylase  SpoU rRNA Methylase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   99.8   0.1   1.6e-32   1.5e-28       3     141 ..     106     245 ..     104     246 .. 0.95

  Alignments for each domain:
  == domain 1  score: 99.8 bits;  conditional E-value: 1.6e-32
                              EEEEES-SSHHHHHHHHHHHHHTT-SEEEEESGSSCTCGSHHHHHHCTTHHHHHHEEEESSHHHHHHHHCCCTEEEEEEST..T-S CS
           SpoU_methylase   3 ivvlveiedpgNlGaiaRtakafgaselvlvkprsadllnpeakraaagalevlelkvvdsleealkelkeegfalvatsl..kgk 86 
                              i++l ++++p+N+G+i+R+a+af+++ +++ ++r+ +++ ++ +r+++g+ + ++ ++  ++++ l++lk  g+++++t +  +++
  PHY93_14040|PHY93_14040 106 IILLNGLSSPENVGSIVRSAAAFNINSIIV-DERTCSPFLRRCIRVSMGNIFSVKSYHSVNVRSDLDNLKSLGYTIISTANitHSQ 190
                              79999********************77777.667778******************999999**9***************9999*** PP

                              EGCCSHHHTTEEEEEEBTTTBS-HHHHCTSSEEEE----TTSSS--HHHHHHHHH CS
           SpoU_methylase  87 slseidlkekvalvfGnEdkGlsnelleladrlvkIpmsgeveSLNvavAvaill 141
                              +l+++d+++k++l++G+E++G+++++++l d ++kI ++ +v  LN ++A+ai+l
  PHY93_14040|PHY93_14040 191 NLNRYDFPKKCVLIIGSEGHGIDQDIIDLSDVVLKIIINSQVAHLNASNAAAIFL 245
                              *****************************************************98 PP

>> Methyltrn_RNA_4  SAM-dependent RNA methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.0      0.87   7.8e+03      31      43 ..     121     133 ..     118     136 .. 0.62
   2 !   17.2   0.1   4.1e-07    0.0037     130     178 ..     198     246 ..     175     249 .. 0.78

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 0.87
                              HHHHHHHTT-SEE CS
          Methyltrn_RNA_4  31 iaRsartygvkky 43 
                              i Rsa ++++++ 
  PHY93_14040|PHY93_14040 121 IVRSAAAFNINSI 133
                              5566666666654 PP

  == domain 2  score: 17.2 bits;  conditional E-value: 4.1e-07
                              -S-EEEEE--.TT---HHHHTT-SEEB--TTTTSS-----HHHHHHHHHH CS
          Methyltrn_RNA_4 130 ekpvlllfGt.gwGlaeevlekadyiLepirgaseynHLsvrsAvaiilD 178
                               k+++l++G  g+G+ +++++ +d++L+ i  +s+  HL   +A+ai+l 
  PHY93_14040|PHY93_14040 198 PKKCVLIIGSeGHGIDQDIIDLSDVVLKII-INSQVAHLNASNAAAIFLS 246
                              45667777755****************965.67889***********985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (250 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       434  (0.0242066); expected 358.6 (0.02)
Passed bias filter:                      318  (0.0177366); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.25s 00:00:00.72 Elapsed: 00:00:00.43
# Mc/sec: 1748.01
//
Query:       PHY93_14045|PHY93_14045  [L=80]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (80 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       510  (0.0284455); expected 358.6 (0.02)
Passed bias filter:                      328  (0.0182944); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.26s 00:00:00.71 Elapsed: 00:00:00.46
# Mc/sec: 528.18
//
Query:       PHY93_14050|PHY93_14050  [L=107]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.6e-10   41.1   3.6    1.6e-10   41.1   3.6    2.2  2  ATP-synt_C       ATP synthase subunit C
  ------ inclusion threshold ------
        3.5    7.8   9.6       0.85    9.8   3.1    2.3  2  Phage_holin_3_3  LydA holin phage, holin superfamily III


Domain annotation for each model (and alignments):
>> ATP-synt_C  ATP synthase subunit C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   2.3     0.045   4.1e+02      13      28 ..      20      35 ..       5      45 .. 0.80
   2 !   41.1   3.6   1.8e-14   1.6e-10       2      56 ..      47     105 ..      46     107 .] 0.95

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.045
                             HHHHHHHHHHHHHHHH CS
               ATP-synt_C 13 gsGigiGkagsagira 28
                             +s+++++ a++ag ++
  PHY93_14050|PHY93_14050 20 ASAFAQAEAATAGTGG 35
                             7899999999999886 PP

  == domain 2  score: 41.1 bits;  conditional E-value: 1.8e-14
                              HHHHHH.GGGHHHHHHHHHHHHHHHHHHHHSG....HHHHHHHHHHHHHHHHHHHHHHH CS
               ATP-synt_C   2 gaglavGlsalgsGigiGkagsagiravarnp....klftksliilafaeaialygLiv 56 
                              +  la+G+++ g   g+ ka++a+++++arnp    k++t +++ la++e++ +++Li 
  PHY93_14050|PHY93_14050  47 AYFLALGIAVYGGTSGQSKAATAALEGIARNPsaadKIQTPMILALALMESLVIFALIS 105
                              7789*****************************************************96 PP

>> Phage_holin_3_3  LydA holin phage, holin superfamily III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   3.1   9.5e-05      0.85      38      74 ..       6      42 ..       5      46 .. 0.86
   2 ?    1.4   0.4     0.039   3.5e+02       2      15 ..      50      63 ..      49      72 .. 0.74

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 9.5e-05
          Phage_holin_3_3 38 SgfvGllvfllceelglsqlltlaiaglsGylGaral 74
                             S++ + + f+++ ++++ +++ +a ag +G++G++ +
  PHY93_14050|PHY93_14050  6 SVLLSSVMFFALTSASAFAQAEAATAGTGGWFGTEKA 42
                             5666778899999999999**************9876 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.039
          Phage_holin_3_3  2 liivlAllGGlvsy 15
                             l++++A++GG+ + 
  PHY93_14050|PHY93_14050 50 LALGIAVYGGTSGQ 63
                             56789999998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (107 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       384  (0.0214178); expected 358.6 (0.02)
Passed bias filter:                      205  (0.011434); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.45
# Mc/sec: 720.81
//
Query:       PHY93_14055|PHY93_14055  [L=267]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    2.6e-51  174.6  15.8    3.3e-51  174.3  15.8    1.1  1  ATP-synt_A  ATP synthase A chain
  ------ inclusion threshold ------
        2.7    7.8   6.3        3.1    7.6   0.4    2.7  2  PMP1_2      ATPase proteolipid family


Domain annotation for each model (and alignments):
>> ATP-synt_A  ATP synthase A chain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  174.3  15.8   3.6e-55   3.3e-51       2     211 .]      51     254 ..      49     254 .. 0.87

  Alignments for each domain:
  == domain 1  score: 174.3 bits;  conditional E-value: 3.6e-55
                              HHHHHHHHHHHCCC.CCSS.T.TTT........SHHHHHHHHHHHHHHHHHHHHCTSSSTXHHHHHHHHHHHHHHHHHCCHCCSST CS
               ATP-synt_A   2 lttlivllilllllllatrkkkkkl........pgklqnlvealvefvdnlvksvigkkkkkkffpliltlflfilvsNllgliPg 79 
                              lt ++v lill ++ ++ rkk+++l           + n+ e++ +f+  +++ v+g+k++ k+fp+++t+f++i++sN +gliPg
  PHY93_14055|PHY93_14055  51 LTFILVGLILL-VAGFVYRKKTTNLeaaavperGITFKNISEMYGSFIMTQCRAVLGEKEGPKYFPFVATIFILIFFSNAIGLIPG 135
                              44455555555.454666666655568999432235899*****************97788************************* PP

                              TTTTTCHHHHHHHHHHHHHHHHHHHHHHHHGG..GGCHHHSSSCCCCHHHHHHHHHH.HHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
               ATP-synt_A  80 lraatadinvtlalAlivfllvlilgikkkglkgyfkklfvpplllvplllpielisefarpvsLalRLfgNifAGelllallagl 165
                              + ++t++in+tlal++++fl+++i g+k+ g+++y+k++  p +++++l++pie+is ++rp+sLalRL+gN+++++++l ++  l
  PHY93_14055|PHY93_14055 136 FLPPTESINTTLALGVFSFLYFNIKGCKEAGTLNYLKHFAGPLWYMAVLIFPIEIISVCIRPISLALRLYGNMYGDHTVLGTFSNL 221
                              ************************************999876889999***********************************844 PP

                              HCCCTGCCCTTCHHHHH.HHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
               ATP-synt_A 166 lllllllavllsvlill.lavlllllelfvgfiQAfvFtlLtlvYis 211
                                            ++l ++v+++ll l+v+fiQA+vF++L++vY+s
  PHY93_14055|PHY93_14055 222 --------------APLgVPVIFMLLGLLVSFIQAYVFIMLSMVYVS 254
                              ..............12336789***********************86 PP

>> PMP1_2  ATPase proteolipid family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.6   0.4   0.00034       3.1      11      32 ..      50      69 ..      49      73 .. 0.89
   2 ?    2.1   0.9     0.018   1.6e+02       7      20 ..     223     236 ..     218     256 .. 0.76

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.00034
                   PMP1_2 11 iLvFvLvGLACvAivltilYRk 32
                             +L F+LvGL  + +v   +YRk
  PHY93_14055|PHY93_14055 50 VLTFILVGL--ILLVAGFVYRK 69
                             699*****9..78899999999 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.018
                   PMP1_2   7 PGGviLvFvLvGLA 20 
                              P Gv ++F+L GL 
  PHY93_14055|PHY93_14055 223 PLGVPVIFMLLGLL 236
                              77999*******93 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (267 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       959  (0.0534888); expected 358.6 (0.02)
Passed bias filter:                      482  (0.0268838); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.25s 00:00:00.82 Elapsed: 00:00:00.46
# Mc/sec: 1745.81
//
Query:       PHY93_14060|PHY93_14060  [L=91]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (91 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       661  (0.0368676); expected 358.6 (0.02)
Passed bias filter:                      328  (0.0182944); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.45
# Mc/sec: 611.92
//
Query:       PHY93_14065|PHY93_14065  [L=63]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.017   14.2   3.6      0.018   14.1   3.6    1.0  1  XK-related     XK-related protein
      0.035   14.5   3.7      0.036   14.5   3.7    1.0  1  DUF2663        Protein of unknown function (DUF2663)
      0.069   12.8   3.4      0.084   12.5   3.4    1.1  1  Keratin_assoc  Keratinocyte-associated protein 2


Domain annotation for each model (and alignments):
>> XK-related  XK-related protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   3.6     3e-06     0.018     281     337 ..       6      61 ..       1      62 [. 0.84

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 3e-06
               XK-related 281 rmlvyyllmllenillvllwyylkkdslesdvlalvllvvlvsfllGivfmllYYkf 337
                              ++ +  l m l +i++v++w  + +  + + ++ + +++++++ +  ++fm++YY++
  PHY93_14065|PHY93_14065   6 WLQIMGLAMSLPSIIFVAVW-GAMQLAKMHIISQTQAVLLFLAIIGNMLFMMVYYAY 61 
                              5566778999**********.555555599999999999****************87 PP

>> DUF2663  Protein of unknown function (DUF2663)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   3.7   6.1e-06     0.036      17      77 ..       2      62 ..       1      63 [] 0.90

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 6.1e-06
                  DUF2663 17 krllllsllallvlllfliyvlikssslssllsallessvlllllllvallyvavkllkkK 77
                             k++++l++++l+++l  +i+v++    + + ++++++ +++ll+l ++  +++++ ++  K
  PHY93_14065|PHY93_14065  2 KNKKWLQIMGLAMSLPSIIFVAVWGAMQLAKMHIISQTQAVLLFLAIIGNMLFMMVYYAYK 62
                             678999***************8888888888999***************999999999877 PP

>> Keratin_assoc  Keratinocyte-associated protein 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   3.4   1.4e-05     0.084       5      49 ..      12      57 ..       9      61 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 1.4e-05
            Keratin_assoc  5 tslllssllavlvfalmqlyksklas.selltilgGflgsllFvll 49
                              ++ l s+++v v ++mql k ++ s ++++ ++  ++g +lF+++
  PHY93_14065|PHY93_14065 12 LAMSLPSIIFVAVWGAMQLAKMHIISqTQAVLLFLAIIGNMLFMMV 57
                             5677889*************987655278888999********986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (63 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1035  (0.0577277); expected 358.6 (0.02)
Passed bias filter:                      376  (0.0209716); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.45
# Mc/sec: 419.70
//
Query:       PHY93_14070|PHY93_14070  [L=271]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-09   37.4  20.4      0.012   15.7   0.1    6.5  6  TPR_2     Tetratricopeptide repeat
    1.4e-08   34.3  23.0      0.012   15.8   1.2    6.3  6  TPR_8     Tetratricopeptide repeat
    1.1e-07   32.0  15.9       0.38   11.5   0.0    6.2  6  TPR_6     Tetratricopeptide repeat
    2.3e-07   31.4   0.0      0.073   13.7   0.0    3.3  4  TPR_16    Tetratricopeptide repeat
    3.6e-06   27.4   0.6       0.46   11.0   0.1    3.9  4  TPR_19    Tetratricopeptide repeat
    4.5e-06   26.9   5.9      0.019   15.3   0.9    4.5  5  TPR_12    Tetratricopeptide repeat
    2.1e-05   24.1  30.4       0.01   15.6   0.1    6.8  6  TPR_1     Tetratricopeptide repeat
    0.00011   22.4  15.7      0.058   13.6   2.8    3.8  3  ANAPC3    Anaphase-promoting complex, cyclosome, subunit 3
      0.001   19.0   5.6        4.3    7.6   0.2    5.2  6  TPR_7     Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.038   14.5   0.7        4.1    8.0   0.0    3.0  3  DUF1829   Domain of unknown function DUF1829
       0.12   12.1  13.0       0.18   11.5   8.1    2.8  2  YfiO      Outer membrane lipoprotein
       0.22   12.0   4.4         11    6.7   0.0    4.5  4  TPR_17    Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.9   0.1    0.0012       1.8       8      33 ..      42      67 ..      42      68 .. 0.92
   2 !    9.2   2.1   0.00096       1.4      11      31 ..      83     103 ..      73     106 .. 0.77
   3 !    6.6   0.1    0.0066       9.8      13      32 ..     123     142 ..     120     144 .. 0.86
   4 ?    5.5   0.1     0.015        22       6      26 ..     153     173 ..     149     176 .. 0.88
   5 !   15.7   0.1   7.8e-06     0.012       3      29 ..     186     212 ..     184     216 .. 0.89
   6 ?    0.6   0.0      0.53   7.9e+02       2      21 ..     222     241 ..     221     244 .. 0.84

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.0012
                    TPR_2  8 GlayyklgdyeeAleafekAleldPn 33
                             ++ y+  ++y++A+ ++e  l+ +P+
  PHY93_14070|PHY93_14070 42 AQNYITEQKYNKAAFLYEDILKSNPG 67
                             6789999****************996 PP

  == domain 2  score: 9.2 bits;  conditional E-value: 0.00096
                    TPR_2  11 yyklgdyeeAleafekAleld 31 
                              +++lg+y++A+ +++++  l 
  PHY93_14070|PHY93_14070  83 AIYLGEYKKAVYYYNEVKDLT 103
                              469************987775 PP

  == domain 3  score: 6.6 bits;  conditional E-value: 0.0066
                    TPR_2  13 klgdyeeAleafekAleldP 32 
                              ++++y++A++ + k  e  P
  PHY93_14070|PHY93_14070 123 YRKNYKDAIKNYTKLSEFTP 142
                              579***********988777 PP

  == domain 4  score: 5.5 bits;  conditional E-value: 0.015
                    TPR_2   6 nlGlayyklgdyeeAleafek 26 
                              +++layy l+d e A++ + k
  PHY93_14070|PHY93_14070 153 QIALAYYFLNDSENAIKQLTK 173
                              689**************9877 PP

  == domain 5  score: 15.7 bits;  conditional E-value: 7.8e-06
                    TPR_2   3 alynlGlayyklgdyeeAleafekAle 29 
                                y+lGl+y++++d+ +Al  + + l+
  PHY93_14070|PHY93_14070 186 SFYYLGLIYFEKKDFSKALFVWSEYLK 212
                              68*****************99998887 PP

  == domain 6  score: 0.6 bits;  conditional E-value: 0.53
                    TPR_2   2 ealynlGlayyklgdyeeAl 21 
                              ea +  +++y+   +++ A 
  PHY93_14070|PHY93_14070 222 EAKFLVANIYESTENLKMAY 241
                              778999********999886 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.3   0.1     0.018        28       9      32 ..      43      66 ..      42      68 .. 0.91
   2 !   15.8   1.2   7.8e-06     0.012       2      32 ..      73     104 ..      72     106 .. 0.91
   3 ?    3.9   0.3      0.05        75      11      33 ..     121     143 ..     116     144 .. 0.87
   4 !   10.9   0.2   0.00028      0.42       5      26 ..     152     173 ..     150     176 .. 0.89
   5 !    7.0   0.0    0.0054         8       2      21 ..     185     204 ..     184     214 .. 0.85
   6 ?    4.2   0.2     0.041        62       2      24 ..     222     244 ..     221     246 .. 0.87

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.018
                             HHHHHTT-HHHHHHHHHHHHHHHH CS
                    TPR_8  9 siylklgdyeeAkeyyekaleldp 32
                             + y++ ++y++A   ye  l+ +p
  PHY93_14070|PHY93_14070 43 QNYITEQKYNKAAFLYEDILKSNP 66
                             6799*****************998 PP

  == domain 2  score: 15.8 bits;  conditional E-value: 7.8e-06
                              CHHHHHHHHH.HHTT-HHHHHHHHHHHHHHHH CS
                    TPR_8   2 eayynlgsiy.lklgdyeeAkeyyekaleldp 32 
                              +++y+lg +y + lg+y++A+ yy+++ +l +
  PHY93_14070|PHY93_14070  73 KICYQLGELYaIYLGEYKKAVYYYNEVKDLTE 104
                              79***********************9988766 PP

  == domain 3  score: 3.9 bits;  conditional E-value: 0.05
                              HHHTT-HHHHHHHHHHHHHHHHH CS
                    TPR_8  11 ylklgdyeeAkeyyekaleldpd 33 
                              y   ++y+ A++ y k  e  p+
  PHY93_14070|PHY93_14070 121 YNYRKNYKDAIKNYTKLSEFTPK 143
                              56679***********9998886 PP

  == domain 4  score: 10.9 bits;  conditional E-value: 0.00028
                              HHHHHHHHHTT-HHHHHHHHHH CS
                    TPR_8   5 ynlgsiylklgdyeeAkeyyek 26 
                              ++++++y  l+d e+A++ + k
  PHY93_14070|PHY93_14070 152 LQIALAYYFLNDSENAIKQLTK 173
                              689**************99887 PP

  == domain 5  score: 7.0 bits;  conditional E-value: 0.0054
                              CHHHHHHHHHHHTT-HHHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeAk 21 
                              ++ y lg+iy++++d+ +A 
  PHY93_14070|PHY93_14070 185 RSFYYLGLIYFEKKDFSKAL 204
                              667779**********9995 PP

  == domain 6  score: 4.2 bits;  conditional E-value: 0.041
                              CHHHHHHHHHHHTT-HHHHHHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeAkeyy 24 
                              ea ++ ++iy++++++++A   y
  PHY93_14070|PHY93_14070 222 EAKFLVANIYESTENLKMAYDIY 244
                              788999***********997766 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.6   0.1     0.086   1.3e+02       8      31 ..      43      66 ..      42      67 .. 0.82
   2 !    6.6   0.6    0.0091        14       4      27 ..      76     100 ..      76     102 .. 0.91
   3 ?    3.0   0.0      0.13     2e+02       5      26 ..     115     137 ..     115     139 .. 0.88
   4 !   11.5   0.0   0.00026      0.38       3      31 ..     151     178 ..     149     180 .. 0.85
   5 !    9.1   0.1    0.0014       2.2       2      28 ..     186     212 ..     185     214 .. 0.84
   6 ?    4.9   0.1     0.032        48       1      32 [.     222     253 ..     222     254 .. 0.91

  Alignments for each domain:
  == domain 1  score: 3.6 bits;  conditional E-value: 0.086
                             HHHHH.HHHHHHHHHHHHHHHHH-T CS
                    TPR_6  8 lsyrk.lgdtdkAlealerlikeYP 31
                             + y+  + ++ kA  ++e+++k+ P
  PHY93_14070|PHY93_14070 43 QNYITeQ-KYNKAAFLYEDILKSNP 66
                             5577525.9*************999 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.0091
                              HHHHHHHH.HHHHHHHHHHHHHHHH CS
                    TPR_6   4 yklalsyr.klgdtdkAlealerli 27 
                              y+l+++y   lg++ kA+ +++++ 
  PHY93_14070|PHY93_14070  76 YQLGELYAiYLGEYKKAVYYYNEVK 100
                              89******889**********9986 PP

  == domain 3  score: 3.0 bits;  conditional E-value: 0.13
                              HHHHHHHH.HHHHHHHHHHHHHH CS
                    TPR_6   5 klalsyrk.lgdtdkAlealerl 26 
                              kla+  ++  +++ +A++ + +l
  PHY93_14070|PHY93_14070 115 KLAEINYNyRKNYKDAIKNYTKL 137
                              68999999899*******99998 PP

  == domain 4  score: 11.5 bits;  conditional E-value: 0.00026
                              HHHHHHHHHHHHHHHHHHHHHHHHHHH-T CS
                    TPR_6   3 lyklalsyrklgdtdkAlealerlikeYP 31 
                              ++++al+y+ l+d+++A++ l ++ ++ P
  PHY93_14070|PHY93_14070 151 QLQIALAYYFLNDSENAIKQLTKIQSD-P 178
                              689*******99*********997544.5 PP

  == domain 5  score: 9.1 bits;  conditional E-value: 0.0014
                              HHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   2 AlyklalsyrklgdtdkAlealerlik 28 
                              ++y+l+l y++ +d +kAl  + + +k
  PHY93_14070|PHY93_14070 186 SFYYLGLIYFEKKDFSKALFVWSEYLK 212
                              58*********99*****977766665 PP

  == domain 6  score: 4.9 bits;  conditional E-value: 0.032
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-TT CS
                    TPR_6   1 dAlyklalsyrklgdtdkAlealerlikeYPd 32 
                              +A ++ a  y+++ +   A +++ ++ ++YP+
  PHY93_14070|PHY93_14070 222 EAKFLVANIYESTENLKMAYDIYYSIANDYPN 253
                              577899999**966*****************8 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.0   6.6e-05     0.099       4      61 ..      42     100 ..      42     106 .. 0.91
   2 ?   -1.0   0.0       1.9   2.9e+03      10      21 ..     124     135 ..     121     139 .. 0.79
   3 !   13.7   0.0   4.9e-05     0.073       2      54 ..     153     204 ..     152     213 .. 0.89
   4 !    6.5   0.0    0.0087        13       3      51 ..     190     238 ..     188     250 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 6.6e-05
                   TPR_16   4 araalragdyddAaaaleaalkrdpssPdaaeAllllgdaal.rqgrlaeAaalyraal 61 
                              a+ ++  ++y +Aa ++e  lk++p++ ++    + lg++++  +g++++A+ +y++  
  PHY93_14070|PHY93_14070  42 AQNYITEQKYNKAAFLYEDILKSNPGPELRLKICYQLGELYAiYLGEYKKAVYYYNEVK 100
                              56678889**********************************889**********9976 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 1.9
                   TPR_16  10 agdyddAaaale 21 
                              +++y dA++ ++
  PHY93_14070|PHY93_14070 124 RKNYKDAIKNYT 135
                              688999999886 PP

  == domain 3  score: 13.7 bits;  conditional E-value: 4.9e-05
                   TPR_16   2 alaraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAa 54 
                              + a+a++ ++d + A+++l + + +dp + + +++ ++lg+++++++++ +A+
  PHY93_14070|PHY93_14070 153 QIALAYYFLNDSENAIKQL-TKIQSDPNHEFFVRSFYYLGLIYFEKKDFSKAL 204
                              6799***************.66666669*********************9997 PP

  == domain 4  score: 6.5 bits;  conditional E-value: 0.0087
                   TPR_16   3 laraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrla 51 
                              l++++++ +d+ +A+ ++ ++lkr  +    +eA +l ++++    +l+
  PHY93_14070|PHY93_14070 190 LGLIYFEKKDFSKALFVWSEYLKRETKKEYIVEAKFLVANIYESTENLK 238
                              6899999999999999999999999888889999999999998887776 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.3   0.1    0.0011       1.6       3      44 ..      47      92 ..      45     108 .. 0.80
   2 !   11.0   0.1   0.00031      0.46       4      53 ..     124     176 ..     122     181 .. 0.90
   3 !    6.8   0.0    0.0067        10       7      57 ..     164     216 ..     163     224 .. 0.87
   4 ?    0.4   0.0      0.66   9.9e+02      26      61 ..     222     256 ..     220     263 .. 0.81

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.0011
                   TPR_19  3 aegdyaeAlalleqalqedpk...naearllLAeal.lalgqldeA 44
                              e++y  A+ l+e +l+ +p+    + + ++L e++ + lg++++A
  PHY93_14070|PHY93_14070 47 TEQKYNKAAFLYEDILKSNPGpelRLKICYQLGELYaIYLGEYKKA 92
                             5899****************98888888888888883445666666 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.00031
                   TPR_19   4 egdyaeAlalleqalqedpk...naearllLAeallalgqldeAealLdalpe 53 
                              +++y +A++ ++++ +  pk   +++ +l+ A a++ l++ + A++ L +++ 
  PHY93_14070|PHY93_14070 124 RKNYKDAIKNYTKLSEFTPKlkkYDYFQLQIALAYYFLNDSENAIKQLTKIQS 176
                              679**********8888777777*************************99975 PP

  == domain 3  score: 6.8 bits;  conditional E-value: 0.0067
                   TPR_19   7 yaeAlalleqalqedpk...naearllLAeallalgqldeAealLdalpeedpd 57 
                               ++A++ l+++ q dp+     +  ++L  ++++ +++ +A  + +++++ + +
  PHY93_14070|PHY93_14070 164 SENAIKQLTKI-QSDPNhefFVRSFYYLGLIYFEKKDFSKALFVWSEYLKRETK 216
                              689*******6.9999999999*******************9998888887766 PP

  == domain 4  score: 0.4 bits;  conditional E-value: 0.66
                   TPR_19  26 earllLAeallalgqldeAealLdalpeedpddary 61 
                              ea+ l A+++ ++ +l+ A ++   + +++p+ +++
  PHY93_14070|PHY93_14070 222 EAKFLVANIYESTENLKMAYDIYYSIANDYPN-PDV 256
                              67777899999999999999998888888888.654 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.6   0.7   0.00036      0.54      46      74 ..      73     102 ..      42     105 .. 0.79
   2 !   15.3   0.9   1.3e-05     0.019       8      71 ..      77     137 ..      70     143 .. 0.87
   3 !    9.6   0.3   0.00075       1.1       6      70 ..     113     173 ..     108     176 .. 0.79
   4 !    7.6   0.0     0.003       4.5       8      65 ..     153     204 ..     148     206 .. 0.86
   5 ?    0.6   0.0      0.46   6.9e+02      18      51 ..     229     261 ..     218     268 .. 0.60

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00036
                   TPR_12  46 ttlrnLgrlyr.algryeeAlelleealai 74 
                               + + Lg+ly  +lg+y++A+++++e+ ++
  PHY93_14070|PHY93_14070  73 KICYQLGELYAiYLGEYKKAVYYYNEVKDL 102
                              55578999996699**********998655 PP

  == domain 2  score: 15.3 bits;  conditional E-value: 1.3e-05
                   TPR_12   8 nlaavl.rrlgrydeAlellekaleiarrllGpdhpltattlrnLgrl.yralgryeeAlelleea 71 
                              +l++++  +lg+y +A  +++++ ++      +d ++++ t   L+++ y ++++y++A++ +++ 
  PHY93_14070|PHY93_14070  77 QLGELYaIYLGEYKKAVYYYNEVKDLT-----EDPLWLIKTEEKLAEInYNYRKNYKDAIKNYTKL 137
                              799999555******************.....67778***********667*********999875 PP

  == domain 3  score: 9.6 bits;  conditional E-value: 0.00075
                   TPR_12   6 lnnlaavl.rrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlellee 70 
                                +la++  +++++y +A++++ k  e   +l  +    +   +  ++ +y+ l++ e A++ l++
  PHY93_14070|PHY93_14070 113 EEKLAEINyNYRKNYKDAIKNYTKLSEFTPKL--K---KYDYFQLQIALAYYFLNDSENAIKQLTK 173
                              55677777477**************9999555..3...2344888999999999999999998875 PP

  == domain 4  score: 7.6 bits;  conditional E-value: 0.003
                   TPR_12   8 nlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAl 65 
                              ++a++++ l + + A++ l k     ++  +p+h+  +++ + Lg +y++ +++ +Al
  PHY93_14070|PHY93_14070 153 QIALAYYFLNDSENAIKQLTKI----QS--DPNHEFFVRSFYYLGLIYFEKKDFSKAL 204
                              5888899999999999988888....44..5999999*****************9997 PP

  == domain 5  score: 0.6 bits;  conditional E-value: 0.46
                   TPR_12  18 rydeAlellekaleiarrllGpdhpltattlrnL 51 
                              +  e+ e+l+ a++i+ ++   d+p+   +++ L
  PHY93_14070|PHY93_14070 229 NIYESTENLKMAYDIYYSIA-NDYPNPDVIQNRL 261
                              45566777777777776653.3556555555555 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.2     0.058        86      11      32 ..      45      66 ..      42      68 .. 0.86
   2 !    6.1   4.0    0.0071        11      13      27 ..      85      99 ..      73     104 .. 0.76
   3 !    6.7   1.0    0.0046       6.9      11      26 ..     121     136 ..     120     137 .. 0.93
   4 !    6.3   0.1    0.0061       9.1       6      25 ..     153     172 ..     150     175 .. 0.87
   5 !   15.6   0.1     7e-06      0.01       2      22 ..     185     205 ..     184     214 .. 0.85
   6 ?    1.4   0.1      0.21   3.2e+02       3      24 ..     223     244 ..     221     247 .. 0.82

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.058
                             HHHTT-HHHHHHHHHHHHHHST CS
                    TPR_1 11 yfklgkydeAleyyekALelnP 32
                             y   +ky++A   ye  L+ nP
  PHY93_14070|PHY93_14070 45 YITEQKYNKAAFLYEDILKSNP 66
                             556789*********9999998 PP

  == domain 2  score: 6.1 bits;  conditional E-value: 0.0071
                             HTT-HHHHHHHHHHH CS
                    TPR_1 13 klgkydeAleyyekA 27
                             +lg+y++A+ yy+++
  PHY93_14070|PHY93_14070 85 YLGEYKKAVYYYNEV 99
                             79**********997 PP

  == domain 3  score: 6.7 bits;  conditional E-value: 0.0046
                              HHHTT-HHHHHHHHHH CS
                    TPR_1  11 yfklgkydeAleyyek 26 
                              y + ++y++A++ y k
  PHY93_14070|PHY93_14070 121 YNYRKNYKDAIKNYTK 136
                              7889**********97 PP

  == domain 4  score: 6.3 bits;  conditional E-value: 0.0061
                              HHHHHHHHTT-HHHHHHHHH CS
                    TPR_1   6 nlGnayfklgkydeAleyye 25 
                              ++++ay+ l++ + A++   
  PHY93_14070|PHY93_14070 153 QIALAYYFLNDSENAIKQLT 172
                              689*************9665 PP

  == domain 5  score: 15.6 bits;  conditional E-value: 7e-06
                              HHHHHHHHHHHHTT-HHHHHH CS
                    TPR_1   2 kalynlGnayfklgkydeAle 22 
                              +++y lG++yf+++++ +Al 
  PHY93_14070|PHY93_14070 185 RSFYYLGLIYFEKKDFSKALF 205
                              689****************96 PP

  == domain 6  score: 1.4 bits;  conditional E-value: 0.21
                              HHHHHHHHHHHTT-HHHHHHHH CS
                    TPR_1   3 alynlGnayfklgkydeAleyy 24 
                              a +  +n+y + ++++ A + y
  PHY93_14070|PHY93_14070 223 AKFLVANIYESTENLKMAYDIY 244
                              556679***********98765 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.9   0.5    0.0024       3.6       3      79 ..      49      96 ..      39     107 .. 0.51
   2 !   13.6   2.8   3.9e-05     0.058       3      56 ..     125     181 ..     123     191 .. 0.80
   3 !    8.2   0.9     0.002         3      26      63 ..     187     228 ..     184     247 .. 0.63

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.0024
                             T-HHHHHHHHHHHH.HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCTSHHHC-H...HHHHHHHHHH.HHTT-HHHHHHHH CS
                   ANAPC3  3 nnyknAiflaerllaaetespedayllAlclylngqykrAyellrkaklnsksl...gcrylfAqcl.lkLkkyeeAiaaL 79
                             ++y++A fl+e +l+                                 +n+  +   +++y +++ + + L++y++A+  +
  PHY93_14070|PHY93_14070 49 QKYNKAAFLYEDILK---------------------------------SNPGPElrlKICYQLGELYaIYLGEYKKAVYYY 96
                             345555555555554.................................444433444444555544433555555554433 PP

  == domain 2  score: 13.6 bits;  conditional E-value: 3.9e-05
                              T-HHHHHHHHHHHH.HHH--HHHHHH.H..HHHHHHTT-HHHHHHHHHCTSHHHC-H CS
                   ANAPC3   3 nnyknAiflaerllaaetespedayl.l..AlclylngqykrAyellrkaklnsksl 56 
                              +nyk+Ai  + +l +  ++  +  y+ l  Al++y +++ + A++ l k +++++++
  PHY93_14070|PHY93_14070 125 KNYKDAIKNYTKLSEFTPKLKKYDYFqLqiALAYYFLNDSENAIKQLTKIQSDPNHE 181
                              79************9666665554442477********************7777775 PP

  == domain 3  score: 8.2 bits;  conditional E-value: 0.002
                              HHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-H...HHHHHHH CS
                   ANAPC3  26 ayllAlclylngqykrAyellrka.klnsksl...gcrylfA 63 
                               y+l+l +++ +++ +A+ + +++ k + k +   ++ +l A
  PHY93_14070|PHY93_14070 187 FYYLGLIYFEKKDFSKALFVWSEYlKRETKKEyivEAKFLVA 228
                              588899999999999999888888444333334444444444 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0       6.3   9.4e+03      13      24 ..      49      60 ..      45      66 .. 0.74
   2 !    7.6   0.2    0.0029       4.3       2      32 ..      75     106 ..      74     107 .. 0.84
   3 ?    3.6   0.0     0.056        83      12      29 ..     124     141 ..     115     148 .. 0.76
   4 ?    1.9   0.0       0.2   2.9e+02       4      24 ..     153     173 ..     150     180 .. 0.86
   5 ?    3.8   0.0     0.048        72       2      19 ..     187     204 ..     186     204 .. 0.90
   6 ?   -1.1   0.0       1.7   2.6e+03       6      22 ..     228     244 ..     226     244 .. 0.85

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 6.3
                    TPR_7 13 GdyeeAielyeq 24
                             ++y +A+ lye 
  PHY93_14070|PHY93_14070 49 QKYNKAAFLYED 60
                             678888877775 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0029
                    TPR_7   2 LlnLarlysr.lGdyeeAielyeqsLaltkdp 32 
                              +++L++ly   lG+y++A+ +y ++  lt+dp
  PHY93_14070|PHY93_14070  75 CYQLGELYAIyLGEYKKAVYYYNEVKDLTEDP 106
                              67899997666***********9988888887 PP

  == domain 3  score: 3.6 bits;  conditional E-value: 0.056
                    TPR_7  12 lGdyeeAielyeqsLalt 29 
                              + +y++Ai+ y+++ ++t
  PHY93_14070|PHY93_14070 124 RKNYKDAIKNYTKLSEFT 141
                              569*********955766 PP

  == domain 4  score: 1.9 bits;  conditional E-value: 0.2
                    TPR_7   4 nLarlysrlGdyeeAielyeq 24 
                              ++a +y  l+d e+Ai+ +++
  PHY93_14070|PHY93_14070 153 QIALAYYFLNDSENAIKQLTK 173
                              68899999********97776 PP

  == domain 5  score: 3.8 bits;  conditional E-value: 0.048
                    TPR_7   2 LlnLarlysrlGdyeeAi 19 
                              +++L+ +y++  d+++A+
  PHY93_14070|PHY93_14070 187 FYYLGLIYFEKKDFSKAL 204
                              689*************95 PP

  == domain 6  score: -1.1 bits;  conditional E-value: 1.7
                    TPR_7   6 arlysrlGdyeeAiely 22 
                              a++y++  + + A ++y
  PHY93_14070|PHY93_14070 228 ANIYESTENLKMAYDIY 244
                              899*9999999998776 PP

>> DUF1829  Domain of unknown function DUF1829
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   0.0    0.0028       4.1      20      49 ..      36      65 ..      26      75 .. 0.88
   2 ?    3.7   0.1     0.058        87      54      68 ..     156     170 ..     111     180 .. 0.81
   3 ?   -1.6   0.0       2.7     4e+03      32      50 ..     197     215 ..     194     245 .. 0.59

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.0028
                  DUF1829 20 perlikvinnpnknavkkalfaweDvkear 49
                             + ++i++ n +++++++ka+f +eD+ + +
  PHY93_14070|PHY93_14070 36 NRKIIDAQNYITEQKYNKAAFLYEDILKSN 65
                             6799**********************9876 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.058
                  DUF1829  54 klyvilnDkekkiss 68 
                               +y +lnD+e+ i++
  PHY93_14070|PHY93_14070 156 LAYYFLNDSENAIKQ 170
                              5799********997 PP

  == domain 3  score: -1.6 bits;  conditional E-value: 2.7
                  DUF1829  32 knavkkalfaweDvkeare 50 
                              k+ ++kalf w+   +  +
  PHY93_14070|PHY93_14070 197 KKDFSKALFVWSEYLKRET 215
                              5667788888877654332 PP

>> YfiO  Outer membrane lipoprotein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.3     0.087   1.3e+02      51      87 ..      44      80 ..      26     123 .. 0.72
   2 ?   11.5   8.1   0.00012      0.18      18     122 ..     124     253 ..     114     268 .. 0.76

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.087
                             HHHHTT-HHHHHHHHHHHHHH-SSSTTHHHHHHHHHH CS
                     YfiO 51 AyykdadyaealasaerFlrlyPthknvdyvlYlrgl 87
                              y +++ y +a++ +e+ l+ +P+ +    + Y++g 
  PHY93_14070|PHY93_14070 44 NYITEQKYNKAAFLYEDILKSNPGPELRLKICYQLGE 80
                             3678888899999999999999988877777777775 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 0.00012
                              HT-HHHHHHHHHHHHHHSTTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-SSSTTHHHHHHHHHHHHHHHHSHSC...... CS
                     YfiO  18 kgdyaeAikklealdsryPfspyaeqaqldliyAyykdadyaealasaerFlrlyPthknvdyvlYlrglsalaqarell...... 97 
                              +++y++Aik+  +l +  P  +  +  ql+++ Ayy  +d ++a++++ + ++  P+h+     +Y +gl ++++ +         
  PHY93_14070|PHY93_14070 124 RKNYKDAIKNYTKLSEFTPKLKKYDYFQLQIALAYYFLNDSENAIKQLTK-IQSDPNHEFFVRSFYYLGLIYFEKKDFSKalfvws 208
                              689********************************************998.9999***************8887654332456676 PP

                              ....................TTTS-THHHHHHHHHHHHHHHHSTT CS
                     YfiO  98 ....................rskrdpesarqafedfkklvekyPd 122
                                                  + +  +e+++ a    + ++++yP+
  PHY93_14070|PHY93_14070 209 eylkretkkeyiveakflvaNIYESTENLKMAYDIYYSIANDYPN 253
                              655544444444444444444444446666666666666666665 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       4.9   7.3e+03       1      10 [.      57      66 ..      51      67 .. 0.67
   2 ?    1.5   0.1      0.32   4.8e+02      17      33 ..      76      93 ..      73      94 .. 0.88
   3 ?    1.6   0.2      0.31   4.6e+02      18      33 ..     153     168 ..     126     169 .. 0.81
   4 ?    6.7   0.0    0.0073        11       6      33 ..     174     204 ..     171     205 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 4.9
                   TPR_17  1 lylkaleldP 10
                             ly+  l+ +P
  PHY93_14070|PHY93_14070 57 LYEDILKSNP 66
                             5677777666 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.32
                   TPR_17 17 nnLAelll.knGdlmtAr 33
                             ++L+el++  +G++++A+
  PHY93_14070|PHY93_14070 76 YQLGELYAiYLGEYKKAV 93
                             79*****87899999996 PP

  == domain 3  score: 1.6 bits;  conditional E-value: 0.31
                   TPR_17  18 nLAelllknGdlmtAr 33 
                              + A +++ ++d++ A+
  PHY93_14070|PHY93_14070 153 QIALAYYFLNDSENAI 168
                              6789999999999887 PP

  == domain 4  score: 6.7 bits;  conditional E-value: 0.0073
                   TPR_17   6 leldPnn...adaynnLAelllknGdlmtAr 33 
                              ++ dPn+   + ++++L+ ++ +++d+ +A+
  PHY93_14070|PHY93_14070 174 IQSDPNHeffVRSFYYLGLIYFEKKDFSKAL 204
                              56789999999************99998885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (271 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       804  (0.0448435); expected 358.6 (0.02)
Passed bias filter:                      352  (0.019633); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.60u 0.23s 00:00:00.83 Elapsed: 00:00:00.48
# Mc/sec: 1712.27
//
Query:       PHY93_14075|PHY93_14075  [L=832]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   5.1e-156  519.9   3.0   7.2e-156  519.4   3.0    1.3  1  DNA_topoisoIV    DNA gyrase/topoisomerase IV, subunit A
      4e-69  227.9  18.3    8.9e-16   57.1   0.7    6.7  6  DNA_gyraseA_C    DNA gyrase C-terminal domain, beta-propeller
  ------ inclusion threshold ------
       0.02   12.9   0.3        3.1    5.7   0.1    2.5  2  IKI3             IKI3 family
       0.05   13.6   0.2       0.12   12.4   0.2    1.5  1  tRNA_NucTran2_2  tRNA nucleotidyltransferase domain 2 putativ
          8    7.1  13.1       0.35   11.5   1.6    3.5  3  AF0941-like      AF0941-like


Domain annotation for each model (and alignments):
>> DNA_topoisoIV  DNA gyrase/topoisomerase IV, subunit A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  519.4   3.0    2e-159  7.2e-156       1     421 [.      38     475 ..      38     516 .. 0.97

  Alignments for each domain:
  == domain 1  score: 519.4 bits;  conditional E-value: 2e-159
            DNA_topoisoIV   1 RaiPsvrDGlKPvqRriLyamfkl.lnldkkekKvaqlvGevlgkYhPHGdaslydaivrlaqdfvgniplldpqGnfGsildgdk 85 
                              Ra+P+vrDG+KPv+Rr+Lyam  l + ++k++ K+a++vG+++gkYhPHGd+++y aivrlaq+f++++pl+d+qGnfGsi dgd+
  PHY93_14075|PHY93_14075  38 RALPDVRDGMKPVHRRVLYAMDSLnNYHNKPFLKSARVVGDIIGKYHPHGDSAVYGAIVRLAQEFSMRYPLIDGQGNFGSI-DGDN 122
                              9***********************9999*****************************************************.**** PP

            DNA_topoisoIV  86 dAaaRYietrLskiarellkeidketvdyqenyDgsekEPevlppiiPnlLvnGaeGIavGmatkipphnlkeiidaliallkgee 171
                              +Aa+RY+e+r++k+++++++++dketvd+q+nyD+s +EP+vlp++iPnlL+nG++GIavGmat+ipphnl+e+++ l  l++++ 
  PHY93_14075|PHY93_14075 123 AAAMRYTEIRMKKLSEQMMADLDKETVDWQPNYDDSLVEPKVLPTKIPNLLINGSSGIAVGMATNIPPHNLTEVMNGLLLLIDNPT 208
                              *************************************************************************************7 PP

            DNA_topoisoIV 172 a....ellelvlgPdfptgggiigkeeikeayetgrGkikvrakveie.....e.ktivitElPigvntskliekieelvkkkkik 247
                                   +l+++++gPdfpt g i g+e+i++ay+tgrG +++rakv++e     + ++i+itElP++vn++klie+i+elv++k+i+
  PHY93_14075|PHY93_14075 209 GtsvdDLMKVIPGPDFPTAGSIHGTEGIRSAYHTGRGVLQIRAKVDVEhnakkDrDSIIITELPYQVNKAKLIERIAELVNEKEIT 294
                              6999*******************************************9***98569****************************** PP

            DNA_topoisoIV 248 .isdirdesdr.gvrivielkrgaseekvleklykktkLessisvnnlvlfdkkpkylslkeilkeflevrlevyerrkeyllekl 331
                               isd+rdes+r g+r+vi+lk+g+ ++++++klyk+t+L++s+ +  l +++++pk+l++ke l +fl++r+ev+ rr+ y+l+k+
  PHY93_14075|PHY93_14075 295 gISDLRDESSReGIRVVIDLKKGEIATVIINKLYKSTALQTSFGIIFLSIVNGQPKVLNIKEQLLYFLDHRREVVIRRTVYELKKA 380
                              ********6666************************************************************************** PP

            DNA_topoisoIV 332 eerleilegllkalnkidevievirkskkekkakkeLiee..lseeqaeyllemrlrrLtkeeveklekeieelekeikeleklla 415
                              +er++ilegl++a+++ide++e+++k +   +ak++L+++  lse qa+++l+mrl+rLt +e++k+ k+++e+ kei++le +l 
  PHY93_14075|PHY93_14075 381 KERAHILEGLKVAVDNIDEIVELVKKAEGPLQAKAQLMSNytLSEIQAQAILDMRLQRLTGLERDKIIKDYNEIMKEIARLELILG 466
                              ***************************99**********99*****************************************9998 PP

            DNA_topoisoIV 416 k...lkkli 421
                              +   ++++i
  PHY93_14075|PHY93_14075 467 SdeeITAII 475
                              866555555 PP

>> DNA_gyraseA_C  DNA gyrase C-terminal domain, beta-propeller
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.6   0.2   3.1e-13   1.1e-09       1      40 [.     511     550 ..     511     558 .. 0.86
   2 !   27.0   0.0   6.1e-10   2.2e-06       3      41 ..     563     604 ..     561     609 .. 0.88
   3 !   26.2   0.1   1.1e-09   4.1e-06       2      47 ..     618     661 ..     617     662 .. 0.95
   4 !   40.2   0.0   4.6e-14   1.6e-10       2      47 ..     666     711 ..     665     712 .. 0.96
   5 !   48.0   0.1   1.8e-16   6.4e-13       2      47 ..     716     762 ..     716     763 .. 0.96
   6 !   57.1   0.7   2.5e-19   8.9e-16       1      45 [.     766     810 ..     766     812 .. 0.97

  Alignments for each domain:
  == domain 1  score: 37.6 bits;  conditional E-value: 3.1e-13
                              SEEEEEETTSEEEEEEGGGS-BT-TTSCTEEGSETTTTSS CS
            DNA_gyraseA_C   1 dellliTsnGyvkrfplselpeqgRgakGvkgiklkegdk 40 
                              d +++iT++Gyvkr+  ++++ q+Rg++Gvkg +  ++d+
  PHY93_14075|PHY93_14075 511 DVIVTITHKGYVKRMAMDTYRTQKRGGTGVKGADGADDDF 550
                              679*****************************97667776 PP

  == domain 2  score: 27.0 bits;  conditional E-value: 6.1e-10
                              EEEEETTSEEEEEEGGGS-BT-TTSCTEEGS...ETTTTSSE CS
            DNA_gyraseA_C   3 llliTsnGyvkrfplselpeqgRgakGvkgi...klkegdkl 41 
                              l+++T++G+v+ ++++ +pe +R++kG  ++   +l  g+ +
  PHY93_14075|PHY93_14075 563 LFIFTNKGQVFSIKVYNIPEGNRTTKGRNIVnliQLPAGEAV 604
                              89****************************977777777766 PP

  == domain 3  score: 26.2 bits;  conditional E-value: 1.1e-09
                              EEEEEETTSEEEEEEGGGS-BT-TTSCTEEGSETTTTSSEEEEEEE CS
            DNA_gyraseA_C   2 ellliTsnGyvkrfplselpeqgRgakGvkgiklkegdklvsvlvv 47 
                               l+++T++G vk+  lse+++++    G ++ik+ egd l sv ++
  PHY93_14075|PHY93_14075 618 FLMIATEKGIVKKSELSEYKNIRQS--GLTAIKIIEGDNLLSVRIT 661
                              59*********************99..****************987 PP

  == domain 4  score: 40.2 bits;  conditional E-value: 4.6e-14
                              EEEEEETTSEEEEEEGGGS-BT-TTSCTEEGSETTTTSSEEEEEEE CS
            DNA_gyraseA_C   2 ellliTsnGyvkrfplselpeqgRgakGvkgiklkegdklvsvlvv 47 
                              ++ll +s G+++rf + + +++gR ++Gvkgi l++++k+++++++
  PHY93_14075|PHY93_14075 666 DVLLCSSSGKIIRFAETDCRPLGRVSQGVKGIELSDDEKIIGMEII 711
                              89*****************************************998 PP

  == domain 5  score: 48.0 bits;  conditional E-value: 1.8e-16
                              EEEEEETTSEEEEEEGGGS-BT-TTSCTEEGSETTTT.SSEEEEEEE CS
            DNA_gyraseA_C   2 ellliTsnGyvkrfplselpeqgRgakGvkgiklkeg.dklvsvlvv 47 
                              e+l +T++Gy+kr+++se+++q+Rg+kG+ +++l+e+ + ++++ +v
  PHY93_14075|PHY93_14075 716 EILSVTQHGYGKRTSASEYRRQSRGGKGILAMRLTEKnGDIIDIKPV 762
                              6899***************************************9987 PP

  == domain 6  score: 57.1 bits;  conditional E-value: 2.5e-19
                              SEEEEEETTSEEEEEEGGGS-BT-TTSCTEEGSETTTTSSEEEEE CS
            DNA_gyraseA_C   1 dellliTsnGyvkrfplselpeqgRgakGvkgiklkegdklvsvl 45 
                              d+l+li+++G+v+r+++s ++ +gR+++Gv++iklkeg+++v+v+
  PHY93_14075|PHY93_14075 766 DDLMLISDKGQVIRTKISGISLMGRTTQGVRLIKLKEGESVVAVE 810
                              89*****************************************97 PP

>> IKI3  IKI3 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   0.1   0.00085       3.1      74     143 ..     651     714 ..     601     724 .. 0.79
   2 ?    4.7   0.0    0.0017         6      71     136 ..     749     808 ..     717     812 .. 0.83

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.00085
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                     IKI3  74 kkdkivsveyladkeelvlalasGdillvtvdsdaeekeveivGsiesGieaaawspdeellalvtgeek 143
                              + d+++sv     ++ ++l+++sG+i+         e+ +  +G++ +G++ ++ s de ++ +   +++
  PHY93_14075|PHY93_14075 651 EGDNLLSVRITDGTKDVLLCSSSGKIIRF------AETDCRPLGRVSQGVKGIELSDDEKIIGMEIIDDT 714
                              4678999999999**************99......889999******************99877544444 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.0017
                              ..XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                     IKI3  71 leekkdkivsveyladkeelvlalasGdillvtvdsdaeekeveivGsiesGieaaawspdeella 136
                              l+ek+ +i++++ + dk+ l+l++ +G+++ +      + + ++++G+  +G++ ++    e ++a
  PHY93_14075|PHY93_14075 749 LTEKNGDIIDIKPVTDKDDLMLISDKGQVIRT------KISGISLMGRTTQGVRLIKLKEGESVVA 808
                              3578889***********************99......6788999999999999888776666665 PP

>> tRNA_NucTran2_2  tRNA nucleotidyltransferase domain 2 putative
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.2   3.3e-05      0.12      15      92 ..     375     451 ..     365     467 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 3.3e-05
          tRNA_NucTran2_2  15 lalglteeqarsfLkswkfsnklikavtallkllekrknaeltklelykageealllaeelaqaqgqaedlqaldeiy 92 
                              + l+ ++++   +L  +k+  ++i+++++l+k  e +++a+ + ++ y   e +++ ++ ++ ++ +  + +++ + y
  PHY93_14075|PHY93_14075 375 YELK-KAKERAHILEGLKVAVDNIDEIVELVKKAEGPLQAKAQLMSNYTLSEIQAQAILDMRLQRLTGLERDKIIKDY 451
                              5566.6788999**********************************************99976666655555555555 PP

>> AF0941-like  AF0941-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   1.5      0.23   8.3e+02      25      97 ..     282     367 ..     274     409 .. 0.64
   2 ?   11.5   1.6   9.6e-05      0.35       8      54 ..     436     489 ..     431     505 .. 0.87
   3 ?   -1.2   0.0      0.82     3e+03      29      54 ..     698     724 ..     695     733 .. 0.79

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.23
                              GGHHHHT-HHHHHHH..HHHHHH....HHHHHHHTTSS-HHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHCTT-----........ CS
              AF0941-like  25 kvldelldkeeieel..frsdve....dvleklkagdieeeeakknlklLkvyvvsqLdehykrvlelledkekkiek........ 96 
                              +++ el++++ei  +  +r+++      v+ +lk+g+i+   ++      k+y  + L++ +  +  ++ + + k+ +        
  PHY93_14075|PHY93_14075 282 ERIAELVNEKEITGIsdLRDESSregiRVVIDLKKGEIATVIIN------KLYKSTALQTSFGIIFLSIVNGQPKVLNikeqllyf 361
                              56678888888888888777765333358888899999888877......778888888888777554444444443323345555 PP

                              .....H CS
              AF0941-like  97 .....e 97 
                                   e
  PHY93_14075|PHY93_14075 362 ldhrrE 367
                              544440 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 9.6e-05
                              HHHHHHHHT...TSS-GGGHHHHT-.......HHHHHHHHHHHHHHHHHHHHTT CS
              AF0941-like   8 leklgellkkeviddiekvldelld.......keeieelfrsdvedvleklkag 54 
                              l++l  l ++++i+d ++ ++e+         +eei  ++r++++++le++   
  PHY93_14075|PHY93_14075 436 LQRLTGLERDKIIKDYNEIMKEIARlelilgsDEEITAIIRTECQEILENFGDK 489
                              68899999999999999999999989999999*****************99655 PP

  == domain 3  score: -1.2 bits;  conditional E-value: 0.82
                              HHT-HHHHHHH.HHHHHHHHHHHHHTT CS
              AF0941-like  29 elldkeeieel.frsdvedvleklkag 54 
                              el d+e+i  + +++d+ ++l + ++g
  PHY93_14075|PHY93_14075 698 ELSDDEKIIGMeIIDDTVEILSVTQHG 724
                              688888888888888888888777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (832 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       780  (0.0435049); expected 358.6 (0.02)
Passed bias filter:                      523  (0.0291706); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.84u 0.30s 00:00:01.13 Elapsed: 00:00:00.52
# Mc/sec: 4795.96
//
Query:       PHY93_14080|PHY93_14080  [L=823]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.1e-64  215.7   1.3    3.1e-64  215.7   1.3    1.8  2  DNA_gyraseB     DNA gyrase B
      6e-31  106.4   0.2    1.4e-30  105.2   0.2    1.7  1  DNA_gyraseB_C   DNA gyrase B subunit, carboxyl terminus
      5e-21   75.3   0.2    1.3e-20   74.0   0.2    1.7  1  HATPase_c       Histidine kinase-, DNA gyrase B-, and HSP90-l
      1e-18   67.4   0.1    3.3e-18   65.8   0.1    1.9  1  Toprim          Toprim domain
    6.3e-10   39.2   0.0    1.4e-09   38.1   0.0    1.6  1  GyrB_insert     DNA gyrase B subunit insert domain
    0.00078   19.3   0.1     0.0023   17.8   0.1    1.8  1  HATPase_c_3     Histidine kinase-, DNA gyrase B-, and HSP90-l
  ------ inclusion threshold ------
       0.06   13.2   0.5       0.22   11.4   0.5    2.0  1  DNA_pol3_a_NII  DNA polymerase III polC-type N-terminus II
      0.062   13.2   0.0       0.16   11.8   0.0    1.7  1  Utp13           Utp13 specific WD40 associated domain
      0.099   13.1   0.5       0.93   10.0   0.0    2.9  3  Toprim_4        Toprim domain


Domain annotation for each model (and alignments):
>> DNA_gyraseB  DNA gyrase B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.1       2.3   4.6e+03      61      85 ..     133     155 ..     130     167 .. 0.59
   2 !  215.7   1.3   1.5e-67   3.1e-64       1     173 [.     243     412 ..     243     413 .. 0.99

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 2.3
              DNA_gyraseB  61 GGtHvdgfksaltktlneyakkkkl 85 
                              GG H  g+ +a++++l++++k + +
  PHY93_14080|PHY93_14080 133 GGLH--GVGAAVVNALSKWVKLEIK 155
                              5555..6667777777777765532 PP

  == domain 2  score: 215.7 bits;  conditional E-value: 1.5e-67
              DNA_gyraseB   1 GlkdfveelnkdkkelikevlsvegekaveevievevalqwtssysenilsFvNniatpeGGtHvdgfksaltktlneyakkkkll 86 
                              G+++fv++ln++k++++k+v+++ ++k  ++  e+evalqwt+sy+e i s++Nni+tpeGGtHv+gfk+alt++ln+yak+++ll
  PHY93_14080|PHY93_14080 243 GISEFVSYLNRAKSAIHKKVIYFIQTK--DD-YEAEVALQWTDSYNEVITSYANNISTPEGGTHVSGFKTALTRVLNNYAKDNNLL 325
                              9**************************..88.****************************************************** PP

              DNA_gyraseB  87 kkkeekisgediregltavvsvkipepqFeGQTKekLgnsevksivekvvseeleafleenkeeakkilekaveaakareaarkar 172
                              k+ + +++g+d+regltavvsvk++epqFeGQTK+kLgnsev++iv+++v e ++++leen+e+ k++++k+v+aa areaar+ar
  PHY93_14080|PHY93_14080 326 KNIKIALTGDDMREGLTAVVSVKLKEPQFEGQTKSKLGNSEVEGIVNSLVGESFKQYLEENPEIGKAVVKKSVDAAAAREAARRAR 411
                              *************************************************************************************9 PP

              DNA_gyraseB 173 e 173
                              e
  PHY93_14080|PHY93_14080 412 E 412
                              8 PP

>> DNA_gyraseB_C  DNA gyrase B subunit, carboxyl terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  105.2   0.2   7.1e-34   1.4e-30       2      63 .]     753     814 ..     752     814 .. 0.97

  Alignments for each domain:
  == domain 1  score: 105.2 bits;  conditional E-value: 7.1e-34
            DNA_gyraseB_C   2 kkveiqRfKGLGEmnpeqLweTTmdpetRrLlqvtiedaeeadelfstLmGkkvepRrefie 63 
                              +++ iqR+KGLGEmnpeqLweTTm+p++R+Llqv+ied+ ead++f++LmG++vepRr+f+e
  PHY93_14080|PHY93_14080 753 QGAYIQRYKGLGEMNPEQLWETTMNPTNRTLLQVKIEDTLEADQVFTVLMGDQVEPRRKFVE 814
                              6778********************************************************97 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.0   0.2   6.3e-24   1.3e-20       4     111 ..      52     197 ..      49     198 .. 0.85

  Alignments for each domain:
  == domain 1  score: 74.0 bits;  conditional E-value: 6.3e-24
                              HHHHHHHHHHHHHHHHH..HSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHT..............GTCSTTCH.HCSTCHTST CS
                HATPase_c   4 krLrqiisnlvdNavkf..atkageieveikaseddlvisveDnGiGipkedlk..............klfekfsq.ddstkrggg 72 
                              ++L++++ ++vdNav++  a+++++i+v i+    d++++v DnG+Gip+++++              + ++kf +  +++k++gg
  PHY93_14080|PHY93_14080  52 RGLHHCVYEIVDNAVDEalAGYCTQIDVVIH--I-DNSVTVVDNGRGIPVDIHPtegvsgaelaytklHAGGKFNEeGGAYKVSGG 134
                              68***************7767**********..5.9******************************555555************** PP

                              SSSHHHHHHHHHHHHTTTEEEE........................EEETTTEEEEEEEEESS CS
                HATPase_c  73 gtGlGlsivkklvelmgGeiwv........................esepgrGttftftlple 111
                               +G+G+++v++l++ ++ ei+                         e+ ++ Gt++tf+++ e
  PHY93_14080|PHY93_14080 135 LHGVGAAVVNALSKWVKLEIKKngklheitfdhgkavggmkmlgvlENPKETGTKVTFKADNE 197
                              **************86654444555555666777777777777776666678******99865 PP

>> Toprim  Toprim domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.8   0.1   1.7e-21   3.3e-18       1     102 [.     441     553 ..     441     554 .. 0.90

  Alignments for each domain:
  == domain 1  score: 65.8 bits;  conditional E-value: 1.7e-21
                              EEEEESSHHHHHHHHHTHTSTEEEEEEESSSSEEEHS.TTEEEEE..ECTTTHHHHHH......HHHHHHHHSEEEEECSSSHHHH CS
                   Toprim   1 elvivEgpsdaktiakalgsgfqavtaslGhildlet.efkpvye..eiedkkkvlka......lkelakradeiilatDpDreGe 77 
                              el+ivEg+s+ +++++ +++  qav++++G+il++e+ ++++++   ei++ ++++++      ++  ++r+++i+++tD+D++G 
  PHY93_14080|PHY93_14080 441 ELYIVEGDSAGGSAKQGRDRRIQAVLPLKGKILNVEKaRYEKMLAseEIKNFIQAIGTgigkdtFNIAKLRYHKIVIMTDADVDGA 526
                              69***********************************555555559999999999999*****9999******************* PP

                              HHHHHHHHHHT....HHHTTTEEEEEESS CS
                   Toprim  78 aiawellevlk....ellenkigrvefse 102
                              +i++++l++l+    +l+e+  g++++++
  PHY93_14080|PHY93_14080 527 HIRTLILTLLYrqfpQLIEQ--GYIYIAQ 553
                              *********99888777777..8888775 PP

>> GyrB_insert  DNA gyrase B subunit insert domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.1   0.0     7e-13   1.4e-09       8     164 ..     591     748 ..     587     751 .. 0.92

  Alignments for each domain:
  == domain 1  score: 38.1 bits;  conditional E-value: 7e-13
              GyrB_insert   8 dappisgeaLeeLvrqyrkaeaiIkRlsrrydeevLeallelpeldeedledeaaaeawakalearln.qeeekgeryeveveede 92 
                              d + i+gea + L+++    +++++ +  +yd+++L++l+e + l ++d+++ +++e  ak+l++  +  e+++ + y++ v+ed 
  PHY93_14080|PHY93_14080 591 DGEVITGEAAKLLINKESLYRKTLSYYDTHYDTDLLKKLIEDSDLRSDDMANFSKVELAAKKLNDYFKpLENQTLKFYSFIVDEDV 676
                              6789***************************************************************9566777788********* PP

              GyrB_insert  93 eeekallevertqhGnekesvldadffesadYralaelaeklkgLieegAyikRGekeqavesFkealeWLl 164
                              +++  +l++ +++   +k+  +++ f++sa+++ l++  + +k+  ++   i R + +++ +s+ e  e+ +
  PHY93_14080|PHY93_14080 677 DTKICSLRLVIKTASRTKKFKISQGFLRSAEFADLVNSFDGIKKYAKASFKIVREKDSREFSSLTEFSEFVI 748
                              *************************************99999999999999999999988888888777665 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.1   1.1e-06    0.0023       5     105 ..      56     167 ..      52     191 .. 0.68

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 1.1e-06
              HATPase_c_3   5 kAlaelvdNsld....AdaenvkievnknrgktgeivieDdGkGmsee.elknalrlatsskeakr.....ksts........lGk 72 
                                + e+vdN++d    + +++++++++ ++    ++++ D+G G++ +    ++ + a+ + ++ +     +            G 
  PHY93_14080|PHY93_14080  56 HCVYEIVDNAVDealaGYCTQIDVVIHIDN----SVTVVDNGRGIPVDiHPTEGVSGAELAYTKLHaggkfN--EeggaykvsGGL 135
                              6799********977666788999999974....9**********977533334444444444333222231..122333333777 PP

              HATPase_c_3  73 kGiGlklAslslgkkl.tvitkkegesstltldv 105
                              +G+G   A++  ++k+ +++ kk+g+  ++t+d 
  PHY93_14080|PHY93_14080 136 HGVG--AAVVNALSKWvKLEIKKNGKLHEITFDH 167
                              8999..6666655554267778888888888876 PP

>> DNA_pol3_a_NII  DNA polymerase III polC-type N-terminus II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.5   0.00011      0.22      26      86 ..     183     241 ..     181     259 .. 0.92

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00011
           DNA_pol3_a_NII  26 pevegnkliikvpneiiaealkkkkldklleeyikfgFgklkidvevdedesseeeieefe 86 
                              p+  g k+++k++nei+   +++ ++d+l++++++  F +  +++ ++++ ++++e+  fe
  PHY93_14080|PHY93_14080 183 PKETGTKVTFKADNEIF--EFHEYNYDTLANRFREMAFLNRGLKITIKDERNDKQELFYFE 241
                              566799***********..9*****************************999999876665 PP

>> Utp13  Utp13 specific WD40 associated domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   8.2e-05      0.16       4      70 ..     315     384 ..     312     387 .. 0.93

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 8.2e-05
                              HHHHHHCCHHHHHHHHHHHSSSTHHHHHHHHHHHS-SS-...-STSSSSSHHHHHHHHC--HHHHHHHHH CS
                    Utp13   4 lqnllrkkdyreAiaLAlkldqpkrllkllkevleseee...eeesitgskevdevlkslskeqleklLk 70 
                              l+n+ +++++ + i++Al+ d  ++ l+ + +v  +e++   +++s+ g++ev+ +++sl  e +++ L+
  PHY93_14080|PHY93_14080 315 LNNYAKDNNLLKNIKIALTGDDMREGLTAVVSVKLKEPQfegQTKSKLGNSEVEGIVNSLVGESFKQYLE 384
                              89***********************999999999888889999999***************999999886 PP

>> Toprim_4  Toprim domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0       2.7   5.5e+03      45      67 ..       8      34 ..       3      40 .. 0.73
   2 ?   -2.3   0.0       3.2   6.3e+03      49      70 ..     313     343 ..     277     352 .. 0.60
   3 ?   10.0   0.0   0.00047      0.93      17      72 ..     485     530 ..     480     543 .. 0.86

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 2.7
                 Toprim_4 45 enlveaekkvkevilaldgDa....eG 67
                             +++ve+++++++v+ a+ +D+    eG
  PHY93_14080|PHY93_14080  8 KEVVEERESISKVTTAYGSDQikvlEG 34
                             346678889999999999998666666 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 3.2
                 Toprim_4  49 e.......aekkvkevilaldgDa..eGeat 70 
                              +        ++ +k++ +al gD   eG ++
  PHY93_14080|PHY93_14080 313 RvlnnyakDNNLLKNIKIALTGDDmrEGLTA 343
                              2333343355556778888888776677765 PP

  == domain 3  score: 10.0 bits;  conditional E-value: 0.00047
                 Toprim_4  17 ka.giknvvavlggalspldgirpeklktenlveaekkvkevilaldgDaeGeatae 72 
                               + +ikn +   g+ +  +d  +++kl++           ++++++d+D++G     
  PHY93_14080|PHY93_14080 485 ASeEIKNFIQAIGTGI-GKDTFNIAKLRY----------HKIVIMTDADVDGAHIRT 530
                              55599***********.************..........9************87655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (823 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       875  (0.0488036); expected 358.6 (0.02)
Passed bias filter:                      548  (0.030565); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.77u 0.31s 00:00:01.08 Elapsed: 00:00:00.49
# Mc/sec: 5003.82
//
Query:       PHY93_05955|PHY93_05955  [L=374]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (374 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       405  (0.0225891); expected 358.6 (0.02)
Passed bias filter:                      150  (0.00836633); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.28s 00:00:00.79 Elapsed: 00:00:00.46
# Mc/sec: 2435.58
//
Query:       PHY93_14085|PHY93_14085  [L=363]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.7e-24   85.8   0.4    2.7e-23   82.6   0.4    2.1  1  SMC_N          RecF/RecN/SMC N terminal domain
      3e-11   43.7   3.9    9.9e-11   42.0   3.9    1.7  1  AAA_21         AAA domain, putative AbiEii toxin, Type IV TA 
      6e-10   39.4  11.0      6e-10   39.4  11.0    1.6  2  AAA_15         AAA ATPase domain
    9.1e-10   39.4   6.0    1.6e-09   38.5   6.0    1.6  1  AAA_23         AAA domain
    0.00041   20.0   0.0    0.00078   19.1   0.0    1.4  1  AAA_29         P-loop containing region of AAA domain
     0.0081   15.5   0.0          2    7.7   0.0    2.4  2  BsuBI_PstI_RE  BsuBI/PstI restriction endonuclease domain
  ------ inclusion threshold ------
      0.012   15.8   0.0       0.04   14.1   0.0    1.9  2  SbcCD_C        Putative exonuclease SbcCD, C subunit


Domain annotation for each model (and alignments):
>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   82.6   0.4     1e-26   2.7e-23       2     213 ..       6     355 ..       5     360 .. 0.88

  Alignments for each domain:
  == domain 1  score: 82.6 bits;  conditional E-value: 1e-26
                              EEEEEEESETTEECEEEEEETTSSEEEEEESTTSSHHHHHHHHHHHCTT.TTTTTTCHC.CCCCC--BTTCSSTTEEEEEEEEEET CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N   2 lkrleienFksyagktvilpfsksftaivGpNGSGKsnlldAilFvLGersakklrsek.lsdlihkskekasvkkaeveitfdne 86 
                              +++l+++nF+++  +  i+ f++++++i+G+NG GK+n+l+Ai  vLG  ++k++r++  + + ++    k+++ + +v   f+n+
  PHY93_14085|PHY93_14085   6 ISKLQVTNFRNL--NPDIISFNSGINCILGENGNGKTNILEAI-NVLG--TKKSFRKNAgFPQFLSLDGGKPEIIFSSV---FENN 83 
                              899*********..799**************************.9***..56678887626677776566666666655...4455 PP

                              TEESSSSSSCEEEEEEEETTSEEEEEETTEEE-H.HHHHHH....HHCTT-STT................................ CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxx....xxxxxxxxx................................ RF
                    SMC_N  87 dkklkiekeevsisrrvkrkgeseykingkevtk.kevsel....lesagiske................................ 135
                              +++      +vs + + +++++  ++++g  v++  +++ +    + s g++ +                                
  PHY93_14085|PHY93_14085  84 QNE------KVSYTSK-MTNESVLWFVDGVPVKRkLDIKIVfinpFDSYGFHNSasdrrewldyfigqlddyykkilakytlalrf 162
                              554......4555444.4555668999999998745776551111456666666******************************** PP

                              ...................................................................................... CS
                              ...................................................................................... RF
                    SMC_N 136 ...................................................................................... 135
                                                                                                                    
  PHY93_14085|PHY93_14085 163 rntllskkpskykeqiiasdgelsmlsmyltarrieflkeiepfiadtfqqifsekhklqisldsriinlsainvqkiflnnletd 248
                              ************************************************************************************** PP

                              ..........................CS-HHHHHHHHHHHHHH.....HHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTTS CS
                              ..........................xxxxxxxxxxxxxxxxx.....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 136 ..........................lLSgGektLvalaLlfA.....iqkvkpaplyllDeidaaLDeknvkkvaellkekskna 190
                                                          S G+++++ l+LlfA      +k+   p++l+D++  +LD+++ ++++e+l++++  +
  PHY93_14085|PHY93_14085 249 cerghtsygphkddyvllfdglnsydFCSLGQQKMSYLSLLFAyielfRYKYTSYPIVLIDDVSGELDQHRWRRLVEYLEKRE--F 332
                              *******************************************999777899999*************************999..* PP

                              EEEEE-SSHHHCCC-SCEEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 191 Qfivislreemlekadklvgvtk 213
                              Q+++++ +e++ e+ d++ g  k
  PHY93_14085|PHY93_14085 333 QVLITTANEKFKEELDRISGANK 355
                              ****************9998765 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.0   3.9   3.9e-14   9.9e-11       1     296 [.      28     338 ..      28     340 .. 0.80

  Alignments for each domain:
  == domain 1  score: 42.0 bits;  conditional E-value: 3.9e-14
                   AAA_21   1 lnvliGpNgsGKSnLLdaldllarldrdvegltdelsggggirkipslldlydpeipfefeieeflsqgvryryglrlersqveek 86 
                              +n++ G Ng GK+n+L+a+ +l            ++ ++ ++++ p +l l+  ++++ f+  + ++q+ + +y  +  ++ v   
  PHY93_14085|PHY93_14085  28 INCILGENGNGKTNILEAINVL-----------GTKKSFRKNAGFPQFLSLDGGKPEIIFSSVFENNQNEKVSYTSKMTNESV--- 99 
                              79*******************9...........46666668888888888888888888888888888888888888888888... PP

                   AAA_21  87 lssvetllesgllldkrsleeedvfnpeargir....ggvsvfslkelsvsepndlqfgkaltditsrawsllllldglrke...r 165
                              l  v+        ++++ ++++++ np+ ++ +    +++++  ++++   ++  ++  + +t+  ++ ++ll+ + + +ke   +
  PHY93_14085|PHY93_14085 100 LWFVDG-----VPVKRKLDIKIVFINPFDSYGFhnsaSDRREWLDYFIGQLDDYYKKILAKYTLALRFRNTLLSKKPSKYKEqiiA 180
                              333333.....33333333333333333333330000333344445555677888888899999999999999999999999*998 PP

                   AAA_21 166 igllnifadyfgfakekrllqrlvrslklveielsdlgegeeliasvderlrer..................gvvflengdgqelp 233
                              ++      + +  a+++++l++ ++ + + +  +  ++++ + + ++   ++ +                  ++ +  ++d++ l 
  PHY93_14085|PHY93_14085 181 SDGELSMLSMYLTARRIEFLKEIEPFIADTFQQIFSEKHKLQISLDSRIINLSAinvqkiflnnletdcergHTSYGPHKDDYVLL 266
                              8888888888889******************99999999999999888888888******************************99 PP

                   AAA_21 234 arel......SdGtkrllalltallralkkg......sllliDEpEngLHPkllrrllellkelsrngaQviltT 296
                              ++ l      S G++++ +l +++++    +      +++liD++   L+ ++ rrl+e l   +++  Qv++tT
  PHY93_14085|PHY93_14085 267 FDGLnsydfcSLGQQKMSYLSLLFAYIELFRykytsyPIVLIDDVSGELDQHRWRRLVEYL---EKREFQVLITT 338
                              999999999********98888888888888888*****************7777777666...44457*****9 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.4  11.0   2.4e-13     6e-10       2     211 ..       5     246 ..       5     252 .. 0.80
   2 ?   -2.8   0.0       1.5     4e+03     356     362 ..     331     337 ..     277     358 .. 0.60

  Alignments for each domain:
  == domain 1  score: 39.4 bits;  conditional E-value: 2.4e-13
                   AAA_15   2 kIkkikikNFRslkdveidlseeltvliGkNnsGKSsilealdlFlnnkekkn................................. 54 
                              kI+k+++ NFR l    i++++ ++++ G+N+ GK++ilea++++ ++k+  +                                 
  PHY93_14085|PHY93_14085   5 KISKLQVTNFRNLNPDIISFNSGINCILGENGNGKTNILEAINVLGTKKSFRKnagfpqflsldggkpeiifssvfennqnekvsy 90 
                              8********************************************9988444489*******999988888776666666655542 PP

                   AAA_15  55 kkvikieked.leifeniseskdikIdvefaekekakeyektlkskekkkadlllkkkesdlkktikdkklklkknel.sdekisv 138
                                  k  +e+ l   +    +++++I++ f  ++++ + +  ++s+++++ d  + ++++  kk++ + +l+l   ++  ++k s 
  PHY93_14085|PHY93_14085  91 T--SKMTNESvLWFVDGVPVKRKLDIKIVF-INPFDSYGFHNSASDRREWLDYFIGQLDDYYKKILAKYTLALRFRNTlLSKKPSK 173
                              1..222222202222233445566666666.447888888999999999***9999999999999999999998655515555566 PP

                   AAA_15 139 ekkkskkelpkekeeklekekeelkidkedlkklikkleeslkkeeelknvlksaiiklllisakRnvsdeds 211
                              +k++ + ++ +++  +  +    +++ ke+   + ++++++++++ +l+ +l s ii l  i+ ++ + ++++
  PHY93_14085|PHY93_14085 174 YKEQIIASDGELSMLSMYLTARRIEFLKEIEPFIADTFQQIFSEKHKLQISLDSRIINLSAINVQKIFLNNLE 246
                              677779999999999999****************************9***********999999999988776 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 1.5
                   AAA_15 356 ktQviit 362
                              + Qv+it
  PHY93_14085|PHY93_14085 331 EFQVLIT 337
                              2233333 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.5   6.0   6.4e-13   1.6e-09       1     169 [.       8     222 ..       8     351 .. 0.62

  Alignments for each domain:
  == domain 1  score: 38.5 bits;  conditional E-value: 6.4e-13
                   AAA_23   1 kLkienfrsfrdqeidFskgltlItGpNGaGKTTildAiklaLygetprlsrks....grgfeksdveiese....gkvkayvelt 78 
                              kL++ nfr ++   i F++g+++I G+NG GKT il+Ai    + ++ r + +     +  +  +++ei ++    +++++ v+ t
  PHY93_14085|PHY93_14085   8 KLQVTNFRNLNPDIISFNSGINCILGENGNGKTNILEAINVLGTKKSFRKNAGFpqflS--LDGGKPEIIFSsvfeNNQNEKVSYT 91 
                              7999************************************9888876555554466442..3333333333333444555555555 PP

                   AAA_23  79 fenkdgry............................trsiererelskkkgkttkkaklelleideleqfisellgskki...... 130
                               + +++                              + s +++re+ +    + ++  +++l + +l  ++++ l skk+      
  PHY93_14085|PHY93_14085  92 SKMTNESVlwfvdgvpvkrkldikivfinpfdsygfHNSASDRREWLDYFIGQLDDYYKKILAKYTLALRFRNTLLSKKPskykeq 177
                              55544444778888888888888888888888888844444455555544444444455555554444444444444333333333 PP

                   AAA_23 131 ......ilnlilflgqerfeefelkdkkerleelekeleeledek 169
                                    +l++++++   r  ef+++ ++   + +++ + e+ + +
  PHY93_14085|PHY93_14085 178 iiasdgELSMLSMYLTARRIEFLKEIEPFIADTFQQIFSEKHKLQ 222
                              333333344444433333333333222223333333333333332 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   3.1e-07   0.00078       2      45 ..       7      49 ..       6      59 .. 0.88

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 3.1e-07
                   AAA_29  2 krlqlvNWgtfdghtieidlkgatlltGpsGsGKSTllDAiqal 45
                             ++lq+ N   ++   i+++ +g+  + G++G+GK+ +l Ai++l
  PHY93_14085|PHY93_14085  7 SKLQVTNFRNLNPDIISFN-SGINCILGENGNGKTNILEAINVL 49
                             689***************9.889******************987 PP

>> BsuBI_PstI_RE  BsuBI/PstI restriction endonuclease domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.7   0.0   0.00079         2      71     143 ..      19     104 ..       4     107 .. 0.69
   2 !    5.3   0.0    0.0044        11      85     126 ..     307     346 ..     295     356 .. 0.83

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.00079
            BsuBI_PstI_RE  71 PDivlyde.........eknlLvliEavtsdGpinekRkee.lkellee..vkaklvfvtaFldrkel.kkliaeiawetevWiae 143
                              PDi+ +++          +    ++Ea++  G  ++ Rk++ + ++l+    k++++f + F++++++   ++++++ e+  W+++
  PHY93_14085|PHY93_14085  19 PDIISFNSgincilgenGNGKTNILEAINVLGTKKSFRKNAgFPQFLSLdgGKPEIIFSSVFENNQNEkVSYTSKMTNESVLWFVD 104
                              6666666655555555433334466777777777777776524444433458899********99998357999*********987 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.0044
            BsuBI_PstI_RE  85 liEavtsdGpinekRkeelkelleevkaklvfvtaFldrkel 126
                              li+ v  +G+++++R+++l e le+ + +++  ta ++ ke+
  PHY93_14085|PHY93_14085 307 LIDDV--SGELDQHRWRRLVEYLEKREFQVLITTANEKFKEE 346
                              55544..699*************************8887765 PP

>> SbcCD_C  Putative exonuclease SbcCD, C subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.1       3.8   9.8e+03       4      16 ..     132     144 ..     130     151 .. 0.77
   2 ?   14.1   0.0   1.6e-05      0.04      34      89 ..     277     328 ..     270     329 .. 0.91

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 3.8
                  SbcCD_C   4 ldyRnylsfevev 16 
                               d R++l++ + +
  PHY93_14085|PHY93_14085 132 SDRREWLDYFIGQ 144
                              6999999997765 PP

  == domain 2  score: 14.1 bits;  conditional E-value: 1.6e-05
                  SbcCD_C  34 SGGekqflaylalaaalaalyssaegrepalrlvfLDEAFsklDeesiatllelle 89 
                              S G++ ++ yl l++a   l++ +    +++ +v++D+  ++lD+++ ++l+e+le
  PHY93_14085|PHY93_14085 277 SLGQQ-KMSYLSLLFAYIELFRYK---YTSYPIVLIDDVSGELDQHRWRRLVEYLE 328
                              66887.*****************6...89************************998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (363 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       613  (0.0341904); expected 358.6 (0.02)
Passed bias filter:                      446  (0.0248759); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.62u 0.33s 00:00:00.95 Elapsed: 00:00:00.50
# Mc/sec: 2165.60
//
Query:       PHY93_14090|PHY93_14090  [L=369]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-29  102.5   8.5    4.6e-28   97.5   0.4    2.8  3  DNA_pol3_beta_3  DNA polymerase III beta subunit, C-terminal 
    6.5e-29  100.5   6.0    1.8e-21   76.5   0.1    3.4  4  DNA_pol3_beta_2  DNA polymerase III beta subunit, central dom
    1.1e-27   96.5  13.7      2e-19   69.9   1.8    3.1  3  DNA_pol3_beta    DNA polymerase III beta subunit, N-terminal 
  ------ inclusion threshold ------
      0.088   13.0   0.7        1.8    8.7   0.5    2.6  2  Pox_T4_C         Poxvirus T4 protein, C terminus


Domain annotation for each model (and alignments):
>> DNA_pol3_beta_3  DNA polymerase III beta subunit, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.1   1.1   0.00025       1.1      12     106 ..       3     100 ..       1     112 [. 0.78
   2 ?   -3.1   0.0       1.5   6.8e+03      35      52 ..     216     233 ..     206     234 .. 0.61
   3 !   97.5   0.4     1e-31   4.6e-28       2     119 ..     251     368 ..     250     369 .] 0.98

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.00025
                              EEEEHHHHHHHHHHHHTTSSTSTGEEEEEEE.....TTEEEEEEEETTSEEEEEEEEEBEESS-EEEEEEHHHHHHHHHHH-SSEE CS
          DNA_pol3_beta_3  12 vtvdlkelkealkRvalladeknrkvrLsle.....egqlklsaensevgeaeEevdvnyeGeeleiafNvsYlldalkaleteev 92 
                              v + ++ lk+ l+++  ++d+kn+ + L++      e++++++a++ ev  ++      +  ++     N++ + d +k l  +e 
  PHY93_14090|PHY93_14090   3 VKIAVADLKDTLNKILSVVDKKNTRLILNFIqikayENKIEMTATDLEVSAKVTT--SCVVEKPGIFCVNAKNIFDIVKELPDKEL 86 
                              6778899999999999999999877655543333449**********99887643..333467778899***************** PP

                              EEEESSTTS-EEEE CS
          DNA_pol3_beta_3  93 elqltdstkpvlls 106
                              +++l +++ +++l 
  PHY93_14090|PHY93_14090  87 KIELLEGSNSLKLT 100
                              ****9999998885 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 1.5
                              GEEEEEEETTEEEEEEEE CS
          DNA_pol3_beta_3  35 rkvrLsleegqlklsaen 52 
                              +++ +s++e  + l+a+n
  PHY93_14090|PHY93_14090 216 KEISISVDESFIYLNANN 233
                              345666666666666665 PP

  == domain 3  score: 97.5 bits;  conditional E-value: 1e-31
                              CCS-SS-SEEEEEEHHHHHHHHHHHHTTSSTSTGEEEEEEETTEEEEEEEETTSEEEEEEEEEBEESS-EEEEEEHHHHHHHHHHH CS
          DNA_pol3_beta_3   2 rllPkefkkkvtvdlkelkealkRvalladeknrkvrLsleegqlklsaensevgeaeEevdvnyeGeeleiafNvsYlldalkal 87 
                               ++Pk+ +  + +++ ++++a+ R++++a+e++++v+L l+e+++ ++a+ +  g a+E+++ +y+G+e+ei+fN+++l+d l+ +
  PHY93_14090|PHY93_14090 251 AVIPKKTTFFADIERSAFVNAVRRIKIMANERSNGVKLILKENEMIVAANHPSLGDAQEKINIHYSGKEFEIGFNAKFLIDTLSIF 336
                              59************************************************************************************ PP

                              -SSEEEEEESSTTS-EEEEETTEESEEEEE-- CS
          DNA_pol3_beta_3  88 eteevelqltdstkpvllsevedesvkyvilp 119
                                ee+++++++  +pv ++  ++++   +i+p
  PHY93_14090|PHY93_14090 337 GDEEIRMEFNNELSPVAIKSSKNQNYLCIIMP 368
                              *******************************9 PP

>> DNA_pol3_beta_2  DNA polymerase III beta subunit, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.2   0.3   6.8e-09     3e-05       2     106 ..       5     107 ..       4     117 .. 0.93
   2 !   76.5   0.1     4e-25   1.8e-21       2     110 ..     130     242 ..     129     248 .. 0.91
   3 ?    0.9   0.1      0.11   5.1e+02       5      42 ..     266     298 ..     235     307 .. 0.65
   4 ?    1.1   0.1       0.1   4.6e+02       9      43 ..     270     299 ..     262     349 .. 0.68

  Alignments for each domain:
  == domain 1  score: 24.2 bits;  conditional E-value: 6.8e-09
                              EEHHHHHHHHHCCGGGS-SSTTSGGGGEEEEEEECCEEEEEEE-SSEEEEEEEEEEECTTCEEEEEEEHHHHHHHHHHHTSSSSEE CS
          DNA_pol3_beta_2   2 lkqkelkelieqvafaasedetrpvLtGvrleieedklllaaTdghRlavrkleleeeeedeasvivPaktlaelaklledneeqv 87 
                              ++   lk +++++   + +++tr +L+ ++++  e+k++++aTd    a +++++ +e++    + v ak + ++ k l d+e ++
  PHY93_14090|PHY93_14090   5 IAVADLKDTLNKILSVVDKKNTRLILNFIQIKAYENKIEMTATDLEVSAKVTTSCVVEKPG--IFCVNAKNIFDIVKELPDKELKI 88 
                              5667899*************************************99999999999999995..899***************999** PP

                              EEEEESSEEEEEETTEEEE CS
          DNA_pol3_beta_2  88 klalsegkirfevgnvrlt 106
                              +l  +++ ++++++n ++t
  PHY93_14090|PHY93_14090  89 ELLEGSNSLKLTCDNINFT 107
                              ***************9997 PP

  == domain 2  score: 76.5 bits;  conditional E-value: 4e-25
                              EEHHHHHHHHHCCGGGS-SSTTSGGGGEEEEEEECCEEEEEEE-SSEEEEEEEEEEECTTC..EEEEEEEHHHHHHHHHHHTS.SS CS
          DNA_pol3_beta_2   2 lkqkelkelieqvafaasedetrpvLtGvrleieedklllaaTdghRlavrkleleeeeed..easvivPaktlaelaklled.ne 84 
                              l++++++e+i++++ a+s+detr +L+G++l+  + kl+ +aTdg+Rl+++++el++++ +     +i+P+k+++el+k+ e+  +
  PHY93_14090|PHY93_14090 130 LNSNQIIEIINKTSHAISNDETRLFLNGIYLQEVDGKLRSVATDGYRLSLVETELNNNKIEalINGIIIPKKGVLELKKIAETyPD 215
                              8999***************************************************99987767889***************9989* PP

                              SEEEEEEESSEEEEEETTEEE.EEE-B CS
          DNA_pol3_beta_2  85 eqvklalsegkirfevgnvrl.tsrll 110
                              ++++++++e  i+++++n +l + rl+
  PHY93_14090|PHY93_14090 216 KEISISVDESFIYLNANNSYLlAIRLI 242
                              ***************999875144666 PP

  == domain 3  score: 0.9 bits;  conditional E-value: 0.11
                              HHHHHHHHCCGGGS-SSTTSGGGGEEEEEEECCEEEEE CS
          DNA_pol3_beta_2   5 kelkelieqvafaasedetrpvLtGvrleieedkllla 42 
                              +++ ++++++++ a+e       +Gv+l ++e+++++a
  PHY93_14090|PHY93_14090 266 SAFVNAVRRIKIMANERS-----NGVKLILKENEMIVA 298
                              444444444444433322.....555555555555555 PP

  == domain 4  score: 1.1 bits;  conditional E-value: 0.1
                              HHHHCCGGGS-SSTTSGGGGEEEEEEECCEEEEEE CS
          DNA_pol3_beta_2   9 elieqvafaasedetrpvLtGvrleieedklllaa 43 
                              ++++++++ a+e       +Gv+l ++e+++++aa
  PHY93_14090|PHY93_14090 270 NAVRRIKIMANERS-----NGVKLILKENEMIVAA 299
                              55555555444332.....5666666666665554 PP

>> DNA_pol3_beta  DNA polymerase III beta subunit, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.9   1.8   4.4e-23     2e-19       4     120 ..       4     119 ..       1     120 [. 0.93
   2 !   19.4   0.7     2e-07   0.00091       2     107 ..     127     236 ..     126     250 .. 0.77
   3 !   14.9   0.2   4.9e-06     0.022       5     105 ..     263     360 ..     258     367 .. 0.84

  Alignments for each domain:
  == domain 1  score: 69.9 bits;  conditional E-value: 4.4e-23
                              EEEHHHHHHHHHHHHTTSSSTTSSGGGGEEEEEEETTEEEEEEE-SSEEEEEEEESEEEEE-EEEEEEHHHHHHHHHHSSTTSEEE CS
            DNA_pol3_beta   4 tiereellkelekvakvisnRntlpiLsgvllevkdsqlsltgtDleisiestisaeseeeegkvlvparllldivkaLpndkkvk 89 
                               i  ++l + l+k+ +v++++nt  iL+ + +++ ++++ +t+tDle+s+++t+s ++e ++g + v+a++++divk+Lp+ k+ k
  PHY93_14090|PHY93_14090   4 KIAVADLKDTLNKILSVVDKKNTRLILNFIQIKAYENKIEMTATDLEVSAKVTTSCVVE-KPGIFCVNAKNIFDIVKELPD-KELK 87 
                              56678899***************************************************.9********************.**** PP

                              EEEET..TEEEEEEETTEEEEEE-BEGGGS--- CS
            DNA_pol3_beta  90 isvne..qklliiksgssrfslstlsaeeypnl 120
                              i++ e  + l+++ +++ +f+l    +ee+p+l
  PHY93_14090|PHY93_14090  88 IELLEgsNSLKLT-CDNINFTLLIYTSEEFPHL 119
                              **98875666666.*****************98 PP

  == domain 2  score: 19.4 bits;  conditional E-value: 2e-07
                              EEEEEHHHHHHHHHHHHTTSSSTTSSGGGGEEEEEEETTEEEEEEE-.SSEEEEEEEESEEE..EE-EEEEEEHHHHHH...HHHH CS
            DNA_pol3_beta   2 kftiereellkelekvakvisnRntlpiLsgvllevkdsqlsltgtD.leisiestisaese..eeegkvlvparllld...ivka 81 
                              +f ++ +++++ ++k++ +isn +t   L+g++l+  d +l   +tD + +s+  t  ++++  +    +++p + +l+   i  +
  PHY93_14090|PHY93_14090 127 EFKLNSNQIIEIINKTSHAISNDETRLFLNGIYLQEVDGKLRSVATDgYRLSLVETELNNNKieALINGIIIPKKGVLElkkIAET 212
                              689999****************************************9557777555433333224556799999988873335668 PP

                              SSTTSEEEEEEETTEEEEEEETTEEE CS
            DNA_pol3_beta  82 Lpndkkvkisvneqklliiksgssrf 107
                               p+ k+++isv+e+   +  + +s +
  PHY93_14090|PHY93_14090 213 YPD-KEISISVDESFIYLN-ANNSYL 236
                              888.*********999988.666554 PP

  == domain 3  score: 14.9 bits;  conditional E-value: 4.9e-06
                              EEHHHHHHHHHHHHTTSSSTTSSGGGGEEEEEEETTEEEEEEE-SSE.EEEEEEESEEEEE-EEEEEEHHHHHHHHHHSSTTSEEE CS
            DNA_pol3_beta   5 iereellkelekvakvisnRntlpiLsgvllevkdsqlsltgtDlei.siestisaeseeeegkvlvparllldivkaLpndkkvk 89 
                              ier ++++++  ++ + ++R      +gv+l  k++++++ +   ++  ++ +i+++ + +e+++  +a++l+d ++ + + +++ 
  PHY93_14090|PHY93_14090 263 IERSAFVNAVRRIKIMANERS-----NGVKLILKENEMIVAANHPSLgDAQEKINIHYSGKEFEIGFNAKFLIDTLSIFGD-EEIR 342
                              777777777777777777776.....599*************9999945999*******9********************9.**** PP

                              EEEET..TEEEEEEETTE CS
            DNA_pol3_beta  90 isvne..qklliiksgss 105
                              +++n+  + ++i+ s ++
  PHY93_14090|PHY93_14090 343 MEFNNelSPVAIKSSKNQ 360
                              ****96666777765555 PP

>> Pox_T4_C  Poxvirus T4 protein, C terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.7   0.5   0.00041       1.8      51     106 ..      33     102 ..      18     108 .. 0.70
   2 ?    1.2   0.0     0.083   3.7e+02      59      99 ..     208     251 ..     204     273 .. 0.79

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 0.00041
                 Pox_T4_C  51 vsseaygkekdeleseveitilidtscvrsssfavsvrt.........lceeklk.....gesiekltcq 106
                              + ++ay ++++   +++e++ ++ tscv ++  ++ v++         l ++ lk     g++  kltc+
  PHY93_14090|PHY93_14090  33 IQIKAYENKIEMTATDLEVSAKVTTSCVVEKPGIFCVNAknifdivkeLPDKELKielleGSNSLKLTCD 102
                              5678999999999***************998777766641111111113444444666666777777776 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.083
                 Pox_T4_C  59 ekdeleseveitilidtscv...rsssfavsvrtlceeklkges 99 
                              ++ e  ++ ei+i +d+s +    ++s+++ +r + +e lk ++
  PHY93_14090|PHY93_14090 208 KIAETYPDKEISISVDESFIylnANNSYLLAIRLIAKEYLKYQA 251
                              567778999*********99443467999999999999988554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (369 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       655  (0.036533); expected 358.6 (0.02)
Passed bias filter:                      362  (0.0201908); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.62u 0.27s 00:00:00.89 Elapsed: 00:00:00.48
# Mc/sec: 2310.58
//
Query:       PHY93_14095|PHY93_14095  [L=518]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.4e-79  267.0   3.3    5.9e-79  265.0   0.8    2.5  2  Bac_DnaA      Bacterial dnaA  protein
    2.6e-25   88.2   0.3    7.3e-25   86.8   0.3    1.8  1  Bac_DnaA_C    Bacterial dnaA protein helix-turn-helix
    3.2e-10   40.5   0.2    1.2e-09   38.7   0.1    2.1  2  AAA           ATPase family associated with various cellular 
    1.4e-08   34.7   0.0    3.3e-08   33.5   0.0    1.6  1  IstB_IS21     IstB-like ATP binding protein
    0.00012   21.1   0.0     0.0002   20.4   0.0    1.3  1  AFG1_ATPase   AFG1-like ATPase
    0.00034   21.0   0.0     0.0011   19.4   0.0    1.9  1  RNA_helicase  RNA helicase
      0.004   16.9   0.5      0.013   15.2   0.5    1.9  1  DnaA_N        DnaA N-terminal domain
     0.0062   16.9   0.0      0.075   13.4   0.0    2.2  2  AAA_16        AAA ATPase domain
     0.0075   16.6   0.1        1.8    8.8   0.0    2.6  2  AAA_22        AAA domain
     0.0096   15.7   0.3      0.043   13.6   0.3    2.0  1  RuvB_N        Holliday junction DNA helicase RuvB P-loop doma
  ------ inclusion threshold ------
      0.012   15.6   0.3      0.012   15.6   0.3    2.0  2  ResIII        Type III restriction enzyme, res subunit
       0.14   12.0   0.0       0.89    9.5   0.0    2.2  1  NACHT         NACHT domain


Domain annotation for each model (and alignments):
>> Bac_DnaA  Bacterial dnaA  protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.1      0.13   1.9e+02     165     199 ..      85     119 ..      56     125 .. 0.82
   2 !  265.0   0.8   3.9e-82   5.9e-79       2     217 ..     185     403 ..     184     405 .. 0.98

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.13
                              ---HHHHHHHHHHHHHHTT----TTHHHHHHHH-- CS
                 Bac_DnaA 165 ppdletrlailkkkieaeklevpeevlefiaervt 199
                                ++e+r+a +kk +e  k e+++ +++ + ++++
  PHY93_14095|PHY93_14095  85 TVNFEVRTAFIKKSVELYKEEITKALFNVLGTQYE 119
                              46899*****************9999998887765 PP

  == domain 2  score: 265.0 bits;  conditional E-value: 3.9e-82
                              -SS-SGGG----TTTHHHHHHHHHHHHSTTT...S--EEEE-SSSSSHHHHHHHHHHHHHHHSSSS-EEEEEHHHHHHHHHHHHHT CS
                 Bac_DnaA   2 nkrytFetFviGasnrlAlaaalkvaeapgk..kynPlfiygevGlGktHLlkaignevlenapelrvvYltaeeFlnelvkalrd 85 
                              ++  tF++F++G++n++A+aa+++va++pgk  ky  l++++++GlGktHLl+a++ne+ e++p+l v  +ta +F+ e+++ +++
  PHY93_14095|PHY93_14095 185 DRSKTFDNFIVGPTNNMAQAASKAVAQNPGKngKYPSLYLHSNSGLGKTHLLHAVANEINEKHPNLTVCLITARDFMDEMITLMKN 270
                              6778*************************99889**************************************************** PP

                              T-HHHHHHHHT.T-SEEEEE-GGGGTT-HHHHHHHHHHHHHHHTTT-EEEEEESS-TTT-SS--HHHHHHHHSSEEEE-----HHH CS
                 Bac_DnaA  86 kkaeefkeklr.kvDvLliDDiqflagkektqeelfhtfnalleegkqvvlssDrsPkeleeledrlrsrfeaGlvvdieppdlet 170
                              ++++ef +k+  kvDvL+iDDi+ l++ke+tq+++fh+fn+++++gkq++++sD+ Pke++ + +r+++r+++Glvvdi+ppdlet
  PHY93_14095|PHY93_14095 271 NRINEFVKKYTeKVDVLMIDDIHELKNKEGTQDQFFHVFNEMHNKGKQLIFTSDKRPKEIDGISERIKTRLQWGLVVDIQPPDLET 356
                              ******9999879************************************************************************* PP

                              HHHHHHHHHHHTT----TTHHHHHHHH--S-HHHHHHHHHHHHHHHH CS
                 Bac_DnaA 171 rlailkkkieaeklevpeevlefiaervtdnvRelegalnrlkayas 217
                              r+ail++k+e  +l v+e+vl++ia+r+++n+Releg+l rlka+++
  PHY93_14095|PHY93_14095 357 RIAILRRKMEGLDLYVTEDVLTLIASRIKTNIRELEGSLVRLKAVSE 403
                              *******************************************9987 PP

>> Bac_DnaA_C  Bacterial dnaA protein helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.8   0.3   4.9e-28   7.3e-25       1      69 []     431     499 ..     431     499 .. 0.98

  Alignments for each domain:
  == domain 1  score: 86.8 bits;  conditional E-value: 4.9e-28
                              ..HHHHTHHHHTT--HHHHHS----CSSHHHHHHHHHHHHHTS---HHHHHHHHT-STTHHHHHHHHHH CS
               Bac_DnaA_C   1 iekIieaVaeyfgvsvedlkskkRkkeiveaRqiamylareltdlslpeIGkefggrdHsTVihaikki 69 
                              ie++ +a+a+yf+++ +dlksk R+++i++aR+iamylar++++   +eIG++fggrdHs+Viha+++i
  PHY93_14095|PHY93_14095 431 IEHVAKATAQYFRIPLADLKSKGRSQDITKARHIAMYLARKVVNAKQQEIGSFFGGRDHSSVIHAVNTI 499
                              6899**************************************************************987 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.7   0.1   7.7e-13   1.2e-09       1     117 [.     222     332 ..     222     345 .. 0.80
   2 ?   -2.4   0.0       4.1   6.1e+03      47      47 ..     462     462 ..     429     505 .. 0.49

  Alignments for each domain:
  == domain 1  score: 38.7 bits;  conditional E-value: 7.7e-13
                              EEEESSTTSSHHHHHHHHHHHHT.....HEEEEEETTTCS.SSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGHHHHHTTCCCH CS
                      AAA   1 vllyGppGtGKTllakavakelg.....vefleisgsell.skyvgesekkirelfkeakekakpsilfiDEidalaksrsgsese 80 
                              ++l+ + G GKT l +ava+e++      +++ i + +++ +++   ++++i+e++k+  ek    +l+iD+i++l +++      
  PHY93_14095|PHY93_14095 222 LYLHSNSGLGKTHLLHAVANEINekhpnLTVCLITARDFMdEMITLMKNNRINEFVKKYTEKV--DVLMIDDIHELKNKE------ 299
                              58999****************954444488**********66677888999******998876..***********7777...... PP

                              HHHHHHHHHHHHHHHTTTSSSTEEEEEEESSGGGSTH CS
                      AAA  81 eeervvnqLlteldgvkkkeskvivigatnrpdkldp 117
                                  +++q++++++++ +k +  ++ +  +rp+++d 
  PHY93_14095|PHY93_14095 300 ---GTQDQFFHVFNEMHNKGK-QLIFTSDKRPKEIDG 332
                              ...889999999999999744.444444445777765 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 4.1
                              H CS
                      AAA  47 r 47 
                              r
  PHY93_14095|PHY93_14095 462 R 462
                              2 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.5   0.0   2.2e-11   3.3e-08      49     154 ..     221     330 ..     184     337 .. 0.84

  Alignments for each domain:
  == domain 1  score: 33.5 bits;  conditional E-value: 2.2e-11
                IstB_IS21  49 nivllGpsGvGKshlaialgveavr..aglsvlfvrvedLveelkrarrdgklaralkrll.kvdllilDdlgllpldqaeaellf 131
                              ++ l   sG GK+hl  a++ e  +   +l v  ++++d++ e+ +  +++++++ +k+++ kvd+l++Dd+  l+ ++  + ++f
  PHY93_14095|PHY93_14095 221 SLYLHSNSGLGKTHLLHAVANEINEkhPNLTVCLITARDFMDEMITLMKNNRINEFVKKYTeKVDVLMIDDIHELKNKEGTQDQFF 306
                              5678889*************99988445899*************************99986367********************** PP

                IstB_IS21 132 eviekryer.rsiiitsnlpfaew 154
                              +v ++  ++ + +i ts++  +e 
  PHY93_14095|PHY93_14095 307 HVFNEMHNKgKQLIFTSDKRPKEI 330
                              *****9998346777999887765 PP

>> AFG1_ATPase  AFG1-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.4   0.0   1.4e-07    0.0002      22     171 ..     179     329 ..     160     335 .. 0.79

  Alignments for each domain:
  == domain 1  score: 20.4 bits;  conditional E-value: 1.4e-07
              AFG1_ATPase  22 qaeavealdrlteelaaqdlarkssalgklfgrkrksvepvrglYlwGgvGrGKtylmdlffeslpvekkrrvhfha.fmarvhde 106
                              q  ++ + ++  ++++  ++ + ++a  k +++ + ++    +lYl+   G GKt+l+    ++++  k++++ ++   +++  de
  PHY93_14095|PHY93_14095 179 QSGIIIDRSKTFDNFIVGPTNNMAQAASKAVAQNPGKNGKYPSLYLHSNSGLGKTHLLHAVANEINE-KHPNLTVCLiTARDFMDE 263
                              555555566666777777777888899999999999999999*******************999998.6666666651567789** PP

              AFG1_ATPase 107 ltklrkekdplaivadrlaeearvlCfDEfe.v..sDiadamllsrLleaLfargvtlvaTSNiaPed 171
                              + +l  +++ +++ +++ +e+ +vl +D+++ +  +  ++       ++++ ++g  l+ TS   P++
  PHY93_14095|PHY93_14095 264 MITLM-KNNRINEFVKKYTEKVDVLMIDDIHeLknKEGTQ-DQFFHVFNEMHNKGKQLIFTSDKRPKE 329
                              ****9.8999******************765231033333.345688999999999999999999987 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.4   0.0   7.1e-07    0.0011       1      79 [.     222     315 ..     222     329 .. 0.82

  Alignments for each domain:
  == domain 1  score: 19.4 bits;  conditional E-value: 7.1e-07
             RNA_helicase   1 iwlyGpsgeGKStlakeLakallkkl............klkkkdsvysrnpeddfwdgYt.gqevvvidDfgqvkdee.nps.dla 71 
                              ++l+ +sg GK++l + +a+++ +k              +++  +++ +n  ++f+++Yt + +v++idD+ + k++e +++  ++
  PHY93_14095|PHY93_14095 222 LYLHSNSGLGKTHLLHAVANEINEKHpnltvclitardFMDEMITLMKNNRINEFVKKYTeKVDVLMIDDIHELKNKEgTQDqFFH 307
                              58999******************9999********7642333334444777899******999************88877765777 PP

             RNA_helicase  72 elirlvss 79 
                               ++++ + 
  PHY93_14095|PHY93_14095 308 VFNEMHNK 315
                              77777765 PP

>> DnaA_N  DnaA N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.5   8.9e-06     0.013       6      62 ..      54     110 ..      52     112 .. 0.87

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 8.9e-06
                   DnaA_N   6 avlerLkkelgeqsfdtWik.plklfalknngltlivpneFardwiesnYldriaell 62 
                              +vl++L++ ++e +f+t++  +l+l ++++ ++ ++v + F+++ +e  Y++ i+++l
  PHY93_14095|PHY93_14095  54 EVLNHLQTIVPELKFKTYFDnNLELKSMNEATVNFEVRTAFIKKSVE-LYKEEITKAL 110
                              799****************637******7777************996.6888887765 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.4   0.0     5e-05     0.075      20      52 ..     215     247 ..     201     270 .. 0.79
   2 ?    0.6   0.0      0.43   6.4e+02     121     154 ..     271     304 ..     268     321 .. 0.66

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 5e-05
                   AAA_16  20 rsgrpelvllsGesGvGKsslvrellralekdg 52 
                              + g  ++++l+ +sG GK+ l+ ++++++++++
  PHY93_14095|PHY93_14095 215 KNGKYPSLYLHSNSGLGKTHLLHAVANEINEKH 247
                              344449***********************9983 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.43
                   AAA_16 121 ellkrllallsrderplvlvlDdlq..wadeaslql 154
                              + +++++++++++ +  vl +Dd++  + +e++++ 
  PHY93_14095|PHY93_14095 271 NRINEFVKKYTEKVD--VLMIDDIHelKNKEGTQDQ 304
                              667888855555466..9*******44444455555 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.8   0.0    0.0012       1.8       7      32 ..     221     246 ..     216     270 .. 0.76
   2 ?    4.8   0.1     0.021        31      81     108 ..     272     305 ..     265     323 .. 0.63

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.0012
                   AAA_22   7 ilvvtGesGtGKTtllrrlleqldee 32 
                              +l+++  sG GKT+ll  ++++ +e 
  PHY93_14095|PHY93_14095 221 SLYLHSNSGLGKTHLLHAVANEINEK 246
                              68999****************98542 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.021
                   AAA_22  81 aleqalrarav.ielliiDEaqhlr..s...eea 108
                              ++++ ++++   + +l+iD+++ l   +   ++ 
  PHY93_14095|PHY93_14095 272 RINEFVKKYTEkVDVLMIDDIHELKnkEgtqDQF 305
                              56666666666889**********7642332222 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.6   0.3   2.9e-05     0.043      30      98 ..     216     297 ..     186     311 .. 0.64

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 2.9e-05
                   RuvB_N  30 eealdhvllyGpPGlGkttlakiiakelgvklkitsgPvleka...gdlaalltn..........leekdvlfideihrlsr 98 
                              + +   + l+   GlGkt l + +a+e++ k    +   +       ++++l++n           e+ dvl+id+ih l++
  PHY93_14095|PHY93_14095 216 NGKYPSLYLHSNSGLGKTHLLHAVANEINEKHPNLTVCLITARdfmDEMITLMKNnrinefvkkyTEKVDVLMIDDIHELKN 297
                              4555567789999***************987655444444332111445555443222222111235679********9986 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.3       5.8   8.7e+03     105     136 ..      26      50 ..      12      60 .. 0.49
   2 ?   15.6   0.3   8.1e-06     0.012       9     110 ..     203     323 ..     194     342 .. 0.69

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 5.8
                              SEEEEEHHHHHHTH........HHHTTT-SEE CS
                   ResIII 105 kilvttiqsldadseeeeeeseellrdrfdvi 136
                              ++  +++q l+++s       ++  +d+++ i
  PHY93_14095|PHY93_14095  26 QFSSISTQNLSNSS-------TQDFQDEELSI 50 
                              33333444444444.......33333333333 PP

  == domain 2  score: 15.6 bits;  conditional E-value: 8.1e-06
                              HHHHHHHT......TTS.EEEEEESTTSTHHHHHHHHHHHH-S.....-EEEEESSHHHHHHHH....HHGGGGTGG......... CS
                   ResIII   9 eeaienlleklkskrdk.rglikmaTGtGKTlvaaklierllkkgkeekflflvprkslleqtl....eefkkflseayke..... 84 
                              + a ++++++  ++++   ++++   G GKT ++ +++ ++ +k+++  + ++  r  + e       +++++f ++++++     
  PHY93_14095|PHY93_14095 203 QAASKAVAQNPGKNGKYpSLYLHSNSGLGKTHLLHAVANEINEKHPNLTVCLITARDFMDEMITlmknNRINEFVKKYTEKvdvlm 288
                              455566666655566664566***********************998666666666655554447777777888887777688887 PP

                              .....GEEEESSS-B--.................-SEEEEE CS
                   ResIII  85 .....igkkvsgdkkka..........kekdstnkkilvtt 110
                                   +       k+k+          +e +++ k++++t+
  PHY93_14095|PHY93_14095 289 iddihE------LKNKEgtqdqffhvfNEMHNKGKQLIFTS 323
                              666432......22222222245778888888888888876 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.0   0.00059      0.89       8      31 ..     227     250 ..     222     362 .. 0.93

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00059
                              -TTTCHHHHHHHHHHHHCTS-SCC CS
                    NACHT   8 eaGsGKTtLlqklalawaegklpq 31 
                               +G GKT+Ll+ +a ++ e++++ 
  PHY93_14095|PHY93_14095 227 NSGLGKTHLLHAVANEINEKHPNL 250
                              68*****************99776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (518 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1345  (0.0750181); expected 358.6 (0.02)
Passed bias filter:                      535  (0.0298399); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.72u 0.28s 00:00:01.00 Elapsed: 00:00:00.47
# Mc/sec: 3284.81
//
Query:       PHY93_14100|PHY93_14100  [L=48]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.7e-20   72.7   5.3    1.9e-20   72.5   5.3    1.0  1  Ribosomal_L34  Ribosomal protein L34


Domain annotation for each model (and alignments):
>> Ribosomal_L34  Ribosomal protein L34
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.5   5.3   1.1e-24   1.9e-20       2      44 .]       3      45 ..       2      45 .. 0.98

  Alignments for each domain:
  == domain 1  score: 72.5 bits;  conditional E-value: 1.1e-24
                             --S----HHHHHCSSSHHHHHHSHHHHHHHHHHHTTSSS-SCC CS
            Ribosomal_L34  2 krtyqPskrkRkrkhGFraRmstknGrkvLkrRraKGRkrLsv 44
                             krt+qP+k+kR r hGF++Rm++++G++v+k+RraKGR++L+v
  PHY93_14100|PHY93_14100  3 KRTWQPKKLKRLRIHGFLKRMASPGGKNVIKARRAKGRAKLTV 45
                             9****************************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (48 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       243  (0.0135535); expected 358.6 (0.02)
Passed bias filter:                      190  (0.0105974); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.22s 00:00:00.61 Elapsed: 00:00:00.40
# Mc/sec: 361.76
//
Query:       PHY93_14105|PHY93_14105  [L=133]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      9e-22   77.2   0.5    1.1e-21   76.9   0.5    1.2  1  Ribonuclease_P  Ribonuclease P
  ------ inclusion threshold ------
       0.35   10.7   0.2       0.35   10.7   0.2    2.6  3  IDEAL           IDEAL domain


Domain annotation for each model (and alignments):
>> Ribonuclease_P  Ribonuclease P
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.9   0.5   1.2e-25   1.1e-21       1     104 [.       6     112 ..       6     118 .. 0.82

  Alignments for each domain:
  == domain 1  score: 76.9 bits;  conditional E-value: 1.2e-25
           Ribonuclease_P   1 lpkkerLkkraeFqavfregkrvaskdlvlyalknsleksslrlGlsvskkvgkAvvRNrikRllReafrlnkdelpa.gldlvvi 85 
                              ++kk rL + ++F+++     ++++  l++y++kns +++  r+Glsv+kk+gkA++RNr+kRl+Re++r+  +++ + ++ +vv 
  PHY93_14105|PHY93_14105   6 FEKKFRLLSARDFSELKVDSSSFKKPSLIIYYKKNSFNQT--RIGLSVPKKIGKAHDRNRLKRLIREFIRQSEYKFLNcDILFVVS 89 
                              78999*****************************877777..*********************************99556666666 PP

           Ribonuclease_P  86 akkg....aaeadfaelekelek 104
                               +++     +e + ++l+k++++
  PHY93_14105|PHY93_14105  90 WNRSiigeSQEFKEETLLKNIDE 112
                              66653333346666666666655 PP

>> IDEAL  IDEAL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.1       0.9   8.1e+03      27      34 ..       7      14 ..       7      15 .. 0.72
   2 ?   -0.3   0.3       0.1     9e+02      11      18 ..      61      68 ..      57      74 .. 0.72
   3 ?   10.7   0.2   3.9e-05      0.35       7      20 ..      99     112 ..      97     112 .. 0.92

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 0.9
                    IDEAL 27 keaFleLt 34
                             +++F+ L+
  PHY93_14105|PHY93_14105  7 EKKFRLLS 14
                             56888888 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.1
                    IDEAL 11 rekLlreI 18
                             r++L+r+I
  PHY93_14105|PHY93_14105 61 RNRLKRLI 68
                             67777777 PP

  == domain 3  score: 10.7 bits;  conditional E-value: 3.9e-05
                    IDEAL   7 rkfrrekLlreIDe 20 
                              ++f++e+Ll++IDe
  PHY93_14105|PHY93_14105  99 QEFKEETLLKNIDE 112
                              89***********8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (133 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       497  (0.0277205); expected 358.6 (0.02)
Passed bias filter:                      247  (0.0137766); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 903.26
//
Query:       PHY93_14110|PHY93_14110  [L=69]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.8e-26   91.8   1.1      2e-26   91.7   1.1    1.0  1  YidD      Putative membrane protein insertion efficiency fact


Domain annotation for each model (and alignments):
>> YidD  Putative membrane protein insertion efficiency factor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   91.7   1.1   1.1e-30     2e-26       2      66 .]       3      68 ..       2      68 .. 0.96

  Alignments for each domain:
  == domain 1  score: 91.7 bits;  conditional E-value: 1.1e-30
                     YidD  2 kllialirlYqkvispll.ksCrfyptCSeYaleaiekyGllkGlllalkRilrCnplskgGyDpv 66
                             k +i+lir+Yq++ispll ++Crf ptCSeY  e++e++ + ++++ +++Ri+rC+p+++gG+Dpv
  PHY93_14110|PHY93_14110  3 KPFILLIRFYQYFISPLLgPNCRFSPTCSEYSKECFEQFPIPRAVWYSFRRITRCHPFCEGGHDPV 68
                             6789************7779*********************************************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (69 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       306  (0.0170673); expected 358.6 (0.02)
Passed bias filter:                      205  (0.011434); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.25s 00:00:00.67 Elapsed: 00:00:00.43
# Mc/sec: 487.19
//
Query:       PHY93_14115|PHY93_14115  [L=490]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.3e-60  202.1  11.5    8.2e-60  201.5  11.5    1.3  1  60KD_IMP       60Kd inner membrane protein
     0.0023   17.9   0.1     0.0051   16.7   0.1    1.6  1  YidC_periplas  YidC periplasmic domain
  ------ inclusion threshold ------
      0.077   13.6   0.0       0.36   11.4   0.0    2.2  1  DUF1279        Protein of unknown function (DUF1279)
        3.6    8.0  11.3         21    5.4   0.1    3.5  3  DUF4199        Protein of unknown function (DUF4199)


Domain annotation for each model (and alignments):
>> 60KD_IMP  60Kd inner membrane protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  201.5  11.5   1.8e-63   8.2e-60       1     166 []     310     489 ..     310     489 .. 0.92

  Alignments for each domain:
  == domain 1  score: 201.5 bits;  conditional E-value: 1.8e-63
                 60KD_IMP   1 yglaIilltiivrlillpltlkqlkssakmqelqPelkeiqekykkdkqklqqemmklYkkegvnplaGclplLiqlpifialyrv 86 
                              yg+aIillti++rli++pl++k++ks++kmq +qPel++i+ekyk+++qk+q+e+m+l+kk+g+npl+Gclpl++q+p+f+a+yrv
  PHY93_14115|PHY93_14115 310 YGIAIILLTILIRLITFPLQYKSFKSMKKMQGIQPELQKIKEKYKDEPQKMQKETMDLFKKAGANPLSGCLPLILQMPFFFAIYRV 395
                              8*******************************************999*************************************** PP

                 60KD_IMP  87 lrslasf.......wikdLsapd....lpillavttflqqklsksk....kmqkmmlyvmplmilffslsfpaglvlYwlvsnlls 157
                              l+s+ ++       wi+dLs +d    lpil+++++++qqkl++++    ++qk+m ++mp++++f++ s+paglvlY +vs+++ 
  PHY93_14115|PHY93_14115 396 LYSAVELvgapfygWIHDLSIHDpfyvLPILMGLAMLAQQKLTPQTtvdpTQQKIM-MFMPVVFAFIMKSLPAGLVLYIFVSTVVG 480
                              ***66335555699*******9999******************7643443335566.8**************************** PP

                 60KD_IMP 158 iaqqliink 166
                              i+qq i++k
  PHY93_14115|PHY93_14115 481 ILQQTIVYK 489
                              *****9985 PP

>> YidC_periplas  YidC periplasmic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.1   1.1e-06    0.0051     179     281 ..     207     297 ..     149     298 .. 0.77

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 1.1e-06
                              .T---EEEEES-...EEEEEETTEEEEEEEE.SSSEEEEEEEEEE.TEEEEEEEE.--EEE-TT-EEEEEEEEEEEE--HHHHHHH CS
            YidC_periplas 179 kkakkekktggg...WvamtqkYFlsAlipdqdaetnefyarkkkkdlyqagylsapavtvapgasasvtarlfaGPkevktlkai 261
                              +k+k+e+    g   W ++  +Y l A++ ++++      a+      y + ++ ++ +   p as+s+t  + +  k ++ l a+
  PHY93_14115|PHY93_14115 207 TKDKEED----GtlkWFGVDFNYHLFAVVLKEKT-----PAK------YKTTTM-GQLIIDVPTASKSFTGDFVFTKKNYDSLIAL 276
                              3333333....3355***************9443.....333......333344.34444456899*****************998 PP

                              .TTGGGHHHHHHHHHHTSHHH CS
            YidC_periplas 262 .pgLdlavDyGwltfitkplf 281
                               ++L l+vD+G++ +++ p+ 
  PHY93_14115|PHY93_14115 277 gDNLHLSVDFGFFAILAVPIL 297
                              8*****************985 PP

>> DUF1279  Protein of unknown function (DUF1279)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0     8e-05      0.36       4      60 ..     304     363 ..     301     373 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 8e-05
                  DUF1279   4 KelfkkYGkvalgvylsislidlgicYllvks..gvd.veelleklklsvkvsskkvekk 60 
                               +++ +YG + +   ++i li++++ Y  +ks   +  +++ l+k+k+++k +++k++k+
  PHY93_14115|PHY93_14115 304 HKYIPNYGIAIILLTILIRLITFPLQYKSFKSmkKMQgIQPELQKIKEKYKDEPQKMQKE 363
                              678889**************************7766678888999999966655555543 PP

>> DUF4199  Protein of unknown function (DUF4199)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.4   0.1    0.0048        21      77     149 ..       9      81 ..       8      86 .. 0.56
   2 ?    3.1   0.8     0.024   1.1e+02      89     158 ..     323     393 ..     309     405 .. 0.49
   3 ?    4.2   1.1     0.011        51     121     165 ..     436     478 ..     422     482 .. 0.66

  Alignments for each domain:
  == domain 1  score: 5.4 bits;  conditional E-value: 0.0048
                  DUF4199  77 slvagllsavfqyiyfnfidpdfienyiaeilekleeakeesaeeenaemseeeikealesls.......piivalqsfl 149
                              +++a lls+v+ + +  ++ p   en+++++ ++ ++a ++ ++     ++++ i   l++++       p+ ++ ++++
  PHY93_14115|PHY93_14115   9 AFIAVLLSGVVLFGWQYYFAPKNNENTLKTTVKEEIAATKAGDKT----NTAAAI---LSASTptsaanqPMTITSNTLV 81 
                              589999999999999999999988888877776644333322222....222222...2222222222235555555555 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.024
                  DUF4199  89 yiyfnfidpdfienyiaeilekleeakeesae.eenaemseeeikealesls.....piivalqsflgnliiGlil 158
                              +i+f  ++   ++++++++  ++e +k  ++  +e  +m++e++    + ++     p++  l  +l++ ++ +i 
  PHY93_14115|PHY93_14115 323 LITF-PLQYKSFKSMKKMQGIQPELQKIKEKYkDEPQKMQKETM----DLFKkaganPLSGCLPLILQMPFFFAIY 393
                              3334.334445556665555555555555555444444555555....3222333445444555566666655554 PP

  == domain 3  score: 4.2 bits;  conditional E-value: 0.011
                  DUF4199 121 eenaemseeeikealeslspiivalqsflgnliiGlilsliiAli 165
                              +   + + + ++++++++ p  v++++++ +l+ Gl+l ++++ +
  PHY93_14115|PHY93_14115 436 KLTPQTTVDPTQQKIMMFMP--VVFAFIMKSLPAGLVLYIFVSTV 478
                              33344455555666666666..58889999999999888888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (490 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1172  (0.065369); expected 358.6 (0.02)
Passed bias filter:                      691  (0.0385409); expected 358.6 (0.02)
Passed Vit filter:                        86  (0.0047967); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.74u 0.26s 00:00:01.00 Elapsed: 00:00:00.47
# Mc/sec: 3102.16
//
Query:       PHY93_14120|PHY93_14120  [L=515]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.6e-26   91.8   0.0    6.2e-26   91.0   0.0    1.4  1  TrmE_N         GTP-binding protein TrmE N-terminus
    2.7e-18   66.1   0.0    4.8e-18   65.3   0.0    1.4  1  MMR_HSR1       50S ribosome-binding GTPase
    5.9e-18   65.8   0.0    2.1e-17   64.0   0.0    1.8  1  MnmE_helical   MnmE helical domain
    8.2e-07   28.7   0.0    1.4e-06   28.0   0.0    1.3  1  FeoB_N         Ferrous iron transport protein B
    0.00054   20.0   0.7     0.0082   16.2   0.4    2.2  2  Dynamin_N      Dynamin family
    0.00061   19.2   0.2     0.0022   17.4   0.1    1.8  2  AIG1           AIG1 family
     0.0011   18.9   0.1     0.0022   17.9   0.1    1.5  1  RsgA_GTPase    RsgA GTPase
     0.0098   15.3   0.0      0.019   14.4   0.0    1.4  1  SRPRB          Signal recognition particle receptor beta subu
  ------ inclusion threshold ------
      0.012   15.3   0.0      0.026   14.2   0.0    1.6  1  Guanylate_kin  Guanylate kinase
      0.022   15.0   0.0      0.039   14.2   0.0    1.4  1  Roc            Ras of Complex, Roc, domain of DAPkinase
      0.033   13.8   0.0      0.051   13.2   0.0    1.3  1  Ras            Ras family
      0.064   12.8   0.0       0.15   11.5   0.0    1.6  1  HtrL_YibB      Bacterial protein of unknown function (HtrL_Yi
        0.1   13.1   0.0       0.17   12.4   0.0    1.5  1  ABC_tran       ABC transporter


Domain annotation for each model (and alignments):
>> TrmE_N  GTP-binding protein TrmE N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   91.0   0.0   4.5e-29   6.2e-26       1     115 []       9     126 ..       9     126 .. 0.88

  Alignments for each domain:
  == domain 1  score: 91.0 bits;  conditional E-value: 4.5e-29
                              -EEEE-S-SS.S-SEEEEEEESTTHHHHHHTTEEE...T--CTEEEEEEEECT..TCEEEEEEEEEEBTTCSTTSSEEEEEEEESS CS
                   TrmE_N   1 TIaAlatpag.kgaiaiiRvsGpkaleiakklfkk...elkprkallgklvdeeekevlDevlvlvfkaprsyTgedvvElhlhGg 82 
                              +I+A++t+++ + aia+iR+sG k+l  ++  f+    ++kpr  +l++++   ek++ D+ l+++f++  syTge+v+El++hG+
  PHY93_14120|PHY93_14120   9 PIIACSTGSQaNTAIAVIRLSGFKSLLSLQPYFSFsltKTKPRFSHLTNIIF--EKQIFDNSLMVFFPEGGSYTGENVLELSVHGN 92 
                              59******88578***********9977776666556578899999999984..6899**************************** PP

                              HHHHHHHHHHHHCT.T-EE--CTHHHHHHHHTTS CS
                   TrmE_N  83 pavvkavleallka.garlAepGEFtkRaflngk 115
                               + ++++l++++++ ++r A+pGEFt Ra  n+k
  PHY93_14120|PHY93_14120  93 LLNIQKILDLFITKaDFRSAHPGEFTYRALKNKK 126
                              *********7765516***************987 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.3   0.0   3.5e-21   4.8e-18       2      84 ..     225     310 ..     224     341 .. 0.79

  Alignments for each domain:
  == domain 1  score: 65.3 bits;  conditional E-value: 3.5e-21
                              EEEEESTTSSHHHHHHHHHTS.TEEESSSTTSSSSEEEEEEEETTEEEEEEECGGCSS.HHHHHH.HHHHHHHHHHCTSEEEEEEE CS
                 MMR_HSR1   2 vaivGrpNvGKStLinaltge.kaivsdkpgtTrdinegrvklkgkeielvDtpGlie.gaseek.glgkaflaleeadlillvvd 84 
                              +++vG++N+GKS+L+n l++  ++ivs+++gtTrd + + ++++g++++lvDt+G+ e ++  e+ g+ +af+ l++a   +l+v+
  PHY93_14120|PHY93_14120 225 MVLVGQTNAGKSSLFNLLVKHnRSIVSSIAGTTRDYISEVIHIDGTNYNLVDTAGIREsNDVIENiGIDRAFEILKRAFFKILIVN 310
                              789*****************879********************************5445444444699999999888766666665 PP

>> MnmE_helical  MnmE helical domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.0   0.0   1.5e-20   2.1e-17       1     206 []     129     514 ..     129     514 .. 0.83

  Alignments for each domain:
  == domain 1  score: 64.0 bits;  conditional E-value: 1.5e-20
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx........xxxxxxxxxxxxx RF
             MnmE_helical   1 LtqaEavadlIdAeteaaakaalrqleGelskkikelrekllellaeleaaiDFpeedleelsee........elaekleelkeel 78 
                              L+q+E++  l +A+++  +++ l  l+Gel+ ++ +l ++ l+l a +e++iDF+e d+ e +++        +  + le+l+++ 
  PHY93_14120|PHY93_14120 129 LSQVEGLDMLLNANSSLMLSQGLDILQGELHAQYMHLYDSFLKLKAAIEISIDFSE-DIGEKESKilfnnsfnSFLKILESLHART 213
                              89****************************************************99.77776666777777777777788888888 PP

                              xxxxxxxxxxxxxxxxxx.................................................................... RF
             MnmE_helical  79 ekllatakrgellreGik.................................................................... 96 
                              +  +++  + e++  G +                                                                    
  PHY93_14120|PHY93_14120 214 QGNISSLLSPEMVLVGQTnagksslfnllvkhnrsivssiagttrdyisevihidgtnynlvdtagiresndvienigidrafeil 299
                              888888888888888888******************************************************************** PP

                              ...................................................................................... RF
             MnmE_helical  97 ...................................................................................... 96 
                                                                                                                    
  PHY93_14120|PHY93_14120 300 kraffkilivnpfetnsaylekladiefdflifshsdkpnflskvsdlnlskikvskvavasfatgsigpidlnmlksgpigptyk 385
                              ************************************99999999998888888888888888888888888555555554444444 PP

                              .....xxxxxxxxxxxxxxx...........................xxxxxxxxxxxxxxxxxxx.xx.xxxxxxxxxxxxxxxx RF
             MnmE_helical  97 .....Dllkekeekeeeevl...........................kiSaktgegieeLeeaike.le.leeieeeplltnaRhk 148
                                                 +                             S++t+  i  L +++ +  + +e  ++++ +  +Rh+
  PHY93_14120|PHY93_14120 386 tsscgS-------------IgpekaktgsktgsigpeiytgpiepvePRSINTSGSIGPLVKNLLAdKFrIE--TSNSPILLERHR 456
                              444440.............1444444444445556666677777777788898777*****99977544233..345778889*** PP

                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             MnmE_helical 149 ealekalealeeakealeaglpldlvaedLrealeaLgeItGevvtedlLdeIFskFC 206
                              ++++    +  ++  +++   +  +++ +++  +++L+e++G v+ +d+L++IF++FC
  PHY93_14120|PHY93_14120 457 ACINILYLKAIDLSYKIKGIDDAAILSSEVNIFANYLNELIGIVSPDDVLNSIFANFC 514
                              ****6554444477777776677888******************************** PP

>> FeoB_N  Ferrous iron transport protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.0   0.0   9.9e-10   1.4e-06       3      63 ..     225     286 ..     223     316 .. 0.84

  Alignments for each domain:
  == domain 1  score: 28.0 bits;  conditional E-value: 9.9e-10
                              EEEEESTTSSHHHHHHHHHTTS.EEEEESTTSSSEEEEEEEEETTEEEEEEE----SSSSSS CS
                   FeoB_N   3 valvGnpnvGkttlfnaltgak.qkvgNwpGvtvekkegklklkgkeveivDlPGiYslsay 63 
                              ++lvG+ n+Gk++lfn l + + + v+  +G+t +  +  ++++g+++++vD  Gi + +++
  PHY93_14120|PHY93_14120 225 MVLVGQTNAGKSSLFNLLVKHNrSIVSSIAGTTRDYISEVIHIDGTNYNLVDTAGIRESNDV 286
                              79****************9987256899***************************9766555 PP

>> Dynamin_N  Dynamin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.4     6e-06    0.0082       2      33 ..     226     257 ..     225     262 .. 0.85
   2 ?    1.8   0.0      0.16   2.3e+02      98     136 ..     267     310 ..     260     324 .. 0.69

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 6e-06
                              EEEEBTTTTHHHHHHHHHTS--S---SSS--- CS
                Dynamin_N   2 avvGsqSsGKSSvlnaLlgedilprgpnptTr 33 
                              ++vG++++GKSS+ n L++++   ++++  T 
  PHY93_14120|PHY93_14120 226 VLVGQTNAGKSSLFNLLVKHNRSIVSSIAGTT 257
                              79******************999988886554 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.16
                              TTS-SEEEEE---B-SSSGTTS....HHHHHHHSTTEE.EEEEE CS
                Dynamin_N  98 llvkgltlvDlPGldsvnkrdq....elvkeyikkadi.ilavt 136
                              ++  +++lvD+ G+ ++n+  +    + ++e++k+a + il v 
  PHY93_14120|PHY93_14120 267 IDGTNYNLVDTAGIRESNDVIEnigiDRAFEILKRAFFkILIVN 310
                              667899*********98877666667667777744433155555 PP

>> AIG1  AIG1 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.0      0.77   1.1e+03     109     124 ..      58      73 ..      44     102 .. 0.78
   2 !   17.4   0.1   1.6e-06    0.0022       3      69 ..     225     290 ..     223     315 .. 0.85

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 0.77
                              HHHCGGGGGGEEEEEE CS
                     AIG1 109 elFGekilkylivvft 124
                               +F+++i+++  +vf 
  PHY93_14120|PHY93_14120  58 IIFEKQIFDNSLMVFF 73 
                              579999*999999985 PP

  == domain 2  score: 17.4 bits;  conditional E-value: 1.6e-06
                              EEEESSTTSSHHHHHHHHHTS--SS--TTTS---SS-EEEEEEETTEEEEEEE--SCCCTTCCHHCH CS
                     AIG1   3 ivlvGktgnGkSaTgNsilgkkaFesklsaqsvtkkcqkksrtwdgkkinViDTPglfdlsvsadki 69 
                              +vlvG+t +GkS+  N +++++    + s ++ t+   +++   dg++ n +DT g+ ++++  ++i
  PHY93_14120|PHY93_14120 225 MVLVGQTNAGKSSLFNLLVKHNRSIVS-SIAGTTRDYISEVIHIDGTNYNLVDTAGIRESNDVIENI 290
                              79****************999885444.45899************************9998876655 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.1   1.6e-06    0.0022      94     163 ..     218     282 ..     187     285 .. 0.76

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 1.6e-06
                              HHHCTTSEEEEECSTTSSHHHHHHHHCTT-----S--------------S..EEEEEETT.TEEEESS-SSSS CS
              RsgA_GTPase  94 kellkdktsvlvGqSGvGKStLinallpelelktgevseklgrGkhTTta..vellelae.gglliDtPGfre 163
                              ++ll+   +vlvGq+ +GKS+L n l+ +++  ++++         TT+   +e+++++  +  l+Dt G+re
  PHY93_14120|PHY93_14120 218 SSLLSP-EMVLVGQTNAGKSSLFNLLVKHNRSIVSSIAG-------TTRDyiSEVIHIDGtNYNLVDTAGIRE 282
                              444444.469******************98888887766.......555423677777753556888888887 PP

>> SRPRB  Signal recognition particle receptor beta subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.0   1.4e-05     0.019       4      58 ..     223     279 ..     221     294 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 1.4e-05
                              -EEEEE-STTSSHHHHHHHHHHSS---B---SS-EEETTG.......GGTT-SEEEETT CS
                    SRPRB   4 pavllvGlsdsGKTslftrLttdsvkktvtSqessaalkv....ksekgskltliDfPG 58 
                              p ++lvG +++GK slf++L +   +++ +S  + ++ ++       +g++ +l+D  G
  PHY93_14120|PHY93_14120 223 PEMVLVGQTNAGKSSLFNLLVKH--NRSIVSSIAGTTRDYisevIHIDGTNYNLVDTAG 279
                              7899**************99976..3344444444444442222567899999999877 PP

>> Guanylate_kin  Guanylate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   1.9e-05     0.026       5      57 ..     225     278 ..     222     303 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 1.9e-05
                              EEEESTTTSSHHHHHHHHHHHSTTTEEE--EEESS---TT..S-TTTSEEE--HH CS
            Guanylate_kin   5 vvlvgpsgaGksslkkaLlselpekfgvsvshtTrdprkg..evdGkdYyFvske 57 
                              +vlvg + aGkssl + L+ +++ +  +s++ tTrd   +   +dG +Y+ v + 
  PHY93_14120|PHY93_14120 225 MVLVGQTNAGKSSLFNLLV-KHNRSIVSSIAGTTRDYISEviHIDGTNYNLVDTA 278
                              79************98655.56667789********765322689*****99654 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   2.8e-05     0.039       2      68 ..     225     282 ..     224     297 .. 0.68

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 2.8e-05
                              EEEESSTTSSHHHHHHCHCT-CCC-EE.ETTTTEEEEEEECGGSGGCTTBTTTTCEEEEEEEE-SGGC CS
                      Roc   2 vvlvGdsgvGKtsllkrfvedkfseke.kstigvdfltkevtkikgvendkkvkkvklniWDtaGqer 68 
                              +vlvG++++GK+sl++ +v+++ s  +  + +  d++++ v +i+g          ++n+ DtaG  +
  PHY93_14120|PHY93_14120 225 MVLVGQTNAGKSSLFNLLVKHNRSIVSsIAGTTRDYISE-VIHIDG---------TNYNLVDTAGIRE 282
                              79*****************98886432023333333332.223333.........4678888888655 PP

>> Ras  Ras family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   3.7e-05     0.051       2      60 ..     225     282 ..     224     326 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 3.7e-05
                              EEEEESTTSSHHHHHHHHHHSS..CSSSCTTTSSEEEEEEEEEETTEEEEEEEEEETTSGG CS
                      Ras   2 lvlvGdsavGKtslllrfvkdk..FkeeyesTigvdfytkeievdgkevkleiwDTAGqee 60 
                              +vlvG+++ GK+sl +  vk++    ++   T   d  ++ i++dg++++  + DTAG  e
  PHY93_14120|PHY93_14120 225 MVLVGQTNAGKSSLFNLLVKHNrsIVSSIAGTT-RDYISEVIHIDGTNYN--LVDTAGIRE 282
                              79************9998876411556666676.8999999999998875..69****654 PP

>> HtrL_YibB  Bacterial protein of unknown function (HtrL_YibB)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00011      0.15      23      79 ..     304     362 ..     290     372 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00011
                HtrL_YibB  23 freklarsldtyfeylekLltLenelvvftsdelkdrvkkirtk..kktkvikidlnkl 79 
                              f+  +  + +t   ylekL+ +e ++++f   ++ ++  k+      k kv k+ +  +
  PHY93_14120|PHY93_14120 304 FKILIVNPFETNSAYLEKLADIEFDFLIFSHSDKPNFLSKVSDLnlSKIKVSKVAVASF 362
                              455567899*******************************9877456777777776665 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   0.00013      0.17      14      42 ..     225     253 ..     213     355 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.00013
                              EEEEESTTSSHHHHHHHHTTSS--SEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  14 vaivGenGaGKStLlkllagllkpteGei 42 
                              +++vG++ aGKS+L++ll ++ +    +i
  PHY93_14120|PHY93_14120 225 MVLVGQTNAGKSSLFNLLVKHNRSIVSSI 253
                              689****************9998866666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (515 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       489  (0.0272742); expected 358.6 (0.02)
Passed bias filter:                      401  (0.022366); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.65u 0.28s 00:00:00.93 Elapsed: 00:00:00.46
# Mc/sec: 3331.30
//
Query:       PHY93_14125|PHY93_14125  [L=428]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
   8.1e-136  453.2   0.1   9.3e-136  453.0   0.1    1.0  1  GIDA           Glucose inhibited division protein A
    6.7e-08   33.0   0.2    1.3e-07   32.1   0.2    1.5  1  GIDA_assoc     GidA associated domain
    9.2e-07   28.4   1.3    0.00011   21.6   0.1    2.8  3  Pyr_redox_3    Pyridine nucleotide-disulphide oxidoreductase
    2.4e-06   27.0   0.4      8e-06   25.3   0.1    1.9  2  Pyr_redox_2    Pyridine nucleotide-disulphide oxidoreductase
    4.6e-05   22.3   0.8       0.59    8.8   0.1    3.2  3  HI0933_like    HI0933-like protein
  ------ inclusion threshold ------
      0.012   15.0   0.4      0.023   14.0   0.4    1.6  2  FAD_oxidored   FAD dependent oxidoreductase
      0.017   14.2   5.0      0.041   12.9   1.3    2.5  3  FAD_binding_2  FAD binding domain
      0.017   14.4   0.0       0.04   13.2   0.0    1.5  1  AlaDh_PNT_C    Alanine dehydrogenase/PNT, C-terminal domain
      0.056   13.0   0.4       0.83    9.2   0.1    2.1  2  DAO            FAD dependent oxidoreductase
      0.083   13.5   0.0       0.45   11.1   0.0    2.3  2  Pyr_redox      Pyridine nucleotide-disulphide oxidoreductase
      0.087   12.1   0.1       0.17   11.1   0.1    1.5  1  Thi4           Thi4 family


Domain annotation for each model (and alignments):
>> GIDA  Glucose inhibited division protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  453.0   0.1  5.7e-139  9.3e-136       1     391 [.       6     396 ..       6     397 .. 0.97

  Alignments for each domain:
  == domain 1  score: 453.0 bits;  conditional E-value: 5.7e-139
                              CEEEE-SSHHHHHHHHHHHHTT--EEEEES-GGGTT--SSSSEEE-TTHHHHHHHHHHHT-SHHHHHHHHEEEEEEESTTS-CCC- CS
                     GIDA   1 dviViGgGhAGceAAlaaarlGakvlLithkldtiaelsCnpsiggiakgllvrEidalggliikaadkagiqfrilNrskGpavr 86 
                              d+ +iGgGhAG+eAA+ aa+  ++++Li  +  ++a+ +Cnp+igg++kg++vrEidalggl++ +adkagiqfr+lN+skG+av+
  PHY93_14125|PHY93_14125   6 DILIIGGGHAGSEAAWIAAQFDLQIALISSSNASLASAPCNPAIGGVGKGQVVREIDALGGLMGILADKAGIQFRTLNESKGFAVQ 91 
                              789*********************************************************************************** PP

                              EEEEEE-HHHHHHHHHHHHHTSTTEEEEES-EEEEEECTTEEEE..EEETTS-EEEECEEEE--TT-BT-EEEETTEEEESSCTTC CS
                     GIDA  87 alraqvdrelyskevteklenepnleiieeeveeliveekkvkg..vvtedgetikakavviatGtflkgkihigekelsaGrlge 170
                              ++r+q+d++ly k+ +  l + +nl+ii+e+v +++    ++    v+t+ ++t++a++++++tGtfl+gk h+ge++   Gr++ 
  PHY93_14125|PHY93_14125  92 STRVQIDKDLYTKSAEVLLGQLENLSIIREMVLKVER---QIDSfiVTTTCNNTYTARKIIVTTGTFLNGKLHTGEEQRTGGRVDC 174
                              ***********************************55...55444489999*********************************** PP

                              --B-THHHHHHHTT--EEEEEEEE--EEEGGGS-TTTSEEE---SS-B-SSSSSSST..CG----EEEEE--HHHHHHHHCTCCC- CS
                     GIDA 171 ltseglseslkelgfellrlktgtppridkesidfskleeqsgdkegeefsylnkpl..nkeqvecfltatneathkiikenlkks 254
                                s gl + ++e+++   r+ktgtppr+dk++id+sk+e q++d+  ++f  ln p+  ++ qv c+lt+tn++t +ii++n ++s
  PHY93_14125|PHY93_14125 175 ERSVGLNDLFQEIKTLPNRFKTGTPPRLDKKTIDYSKMEPQESDSGTRNFHALNAPFirESVQVCCYLTKTNAQTLAIIRANKERS 260
                              ********************************************9999*********65567777********************* PP

                              T.T----B--S-CCC-SSTCCCCCCSTT-S--EEEEEESSTT--EEEEET----S-HHHHHHHHTTSTT-TT--EEE--EEEEEEE CS
                     GIDA 255 aklfegcieelgprycpsiedkivrladkeshqvfLepegleteliylvgfstslpeevqkevlrsipGLenaeivrpGyaieydy 340
                              + +f+g+i+++gprycpsiedk +r ++k+ h+vf+epegl+ ++iy++g+stslp +vq+ ++++i GLena+i+ +Gya+eyd+
  PHY93_14125|PHY93_14125 261 P-IFNGQIKGVGPRYCPSIEDKAFRYTEKDVHHVFIEPEGLDLDTIYPNGVSTSLPKDVQESFVQTISGLENAKILIHGYAVEYDV 345
                              *.************************************************************************************ PP

                              E-GGGB-TTSBBSSSBTEEE-CGGGTB-SHHHHHHHHHHHHHHHHHHHCTS CS
                     GIDA 341 vdprqllntLetkkvkgLflAGqinGteGYeEaaaqGllAGinaarkakgk 391
                              vd+ ql + +e ++++gL++AGq+ Gt+GYeEaa+qG++AGina++ + ++
  PHY93_14125|PHY93_14125 346 VDTSQLSRAMEYSSIPGLYFAGQVCGTSGYEEAAGQGIMAGINASLAVMQR 396
                              *********************************************988765 PP

>> GIDA_assoc  GidA associated domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.1   0.2   7.7e-11   1.3e-07       1      30 [.     399     428 .]     399     428 .] 0.97

  Alignments for each domain:
  == domain 1  score: 32.1 bits;  conditional E-value: 7.7e-11
                              ----TTT-HHHHHHHHHHHH--SS-B-CCC CS
               GIDA_assoc   1 lilkRseaYiGVLiDDLvtkgvkEPYRmfT 30 
                              l+l+Rs++YiGV+i  Lvt   +EPYR+fT
  PHY93_14125|PHY93_14125 399 LVLDRSDSYIGVMIVGLVTSKRDEPYRLFT 428
                              689**************************9 PP

>> Pyr_redox_3  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.1     0.011        17       1      27 [.       8      33 ..       4      43 .. 0.75
   2 !   21.6   0.1   6.7e-08   0.00011     101     138 ..     120     158 ..      76     168 .. 0.85
   3 ?   -1.1   0.0      0.53   8.6e+02     277     305 .]     339     367 ..     313     367 .. 0.68

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.011
              Pyr_redox_3  1 iIiGaGPaGlaaaielkkagledylil 27
                             +IiG+G aG +aa  + +++l+ +  +
  PHY93_14125|PHY93_14125  8 LIIGGGHAGSEAAWIAAQFDLQ-IALI 33
                             5888888888888888888884.4444 PP

  == domain 2  score: 21.6 bits;  conditional E-value: 6.7e-08
              Pyr_redox_3 101 feeVesvkkedegfevetske.tyeAkkviiAtGefdkP 138
                               e+V +v+++ ++f+v+t+ + ty+A+k+i+ tG f + 
  PHY93_14125|PHY93_14125 120 REMVLKVERQIDSFIVTTTCNnTYTARKIIVTTGTFLNG 158
                              689**************99765*************9765 PP

  == domain 3  score: -1.1 bits;  conditional E-value: 0.53
              Pyr_redox_3 277 slfeldedgrpvlteeteetnvpglflaG 305
                                +e+d   + +l  + e + +pgl++aG
  PHY93_14125|PHY93_14125 339 YAVEYDVVDTSQLSRAMEYSSIPGLYFAG 367
                              44555555666777788888999999998 PP

>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.3   0.1   4.9e-09     8e-06       1     109 [.       5     154 ..       5     183 .. 0.70
   2 ?   -1.2   0.0      0.58   9.4e+02     264     286 ..     355     377 ..     327     386 .. 0.72

  Alignments for each domain:
  == domain 1  score: 25.3 bits;  conditional E-value: 4.9e-09
                              CSEEEE--SHHHHHHHHHHHHHTS-EEEEETTHCHHHCSHHHHCHHHHHHHHHHHHH............................. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx............................. RF
              Pyr_redox_2   1 kdvvviGgGpAGlaaaltlaqagakvtlvelegtclnggcllskallgvaedaeias............................. 57 
                              +d+++iGgG+AG +aa  +aq  ++++l+ +  +  +   +  +a+ gv++ + +++                             
  PHY93_14125|PHY93_14125   5 FDILIIGGGHAGSEAAWIAAQFDLQIALI-SSSNASLASAPCNPAIGGVGKGQVVREidalgglmgiladkagiqfrtlneskgfa 89 
                              589**************************.777777777777788888888887777889******99999998888777777777 PP

                              ..........HHHHCHHHHCCCCHC.........CTCEEEEESCEEEEETEEECTCEEEEEESEEEE---E CS
                              ..........xxxxxxxxxxxxxxx.........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2  58 ..........evvkklnqgielllg.........eevvkidpgkkkvklekkkegdeekiaydklvlAtGs 109
                                        +    ++++ e+llg         e v+k++++   + ++ ++++  +++++ k+++ tG 
  PHY93_14125|PHY93_14125  90 vqstrvqidkD---LYTKSAEVLLGqlenlsiirEMVLKVERQIDSFIVT-TTCN--NTYTARKIIVTTGT 154
                              77776665441...233334444444444444423366665555555553.3334..58999999999994 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 0.58
                              SB.ESSTTEEE-GGGCTECCSS-- CS
                              xx.xxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 264 lr.tnvpgiyaiGDvaggkggpel 286
                              ++ +++pg+y +G v+ g++g+e 
  PHY93_14125|PHY93_14125 355 MEySSIPGLYFAGQVC-GTSGYEE 377
                              441469*********9.4444443 PP

>> HI0933_like  HI0933-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.8   0.1   0.00036      0.59       2      33 ..       6      37 ..       5      42 .. 0.90
   2 !    4.1   0.0    0.0096        16     128     164 ..     119     154 ..      72     160 .. 0.84
   3 !    6.3   0.0    0.0021       3.4     360     389 ..     346     374 ..     340     376 .. 0.82

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.00036
                             SEEEE--SHHHHHHHHHHHHTT--EEEE-SSS CS
              HI0933_like  2 dviviGgGaAGlmaAisaakrgkrVlllekak 33
                             d+++iGgG AG  aA  aa+ + +++l+ + +
  PHY93_14125|PHY93_14125  6 DILIIGGGHAGSEAAWIAAQFDLQIALISSSN 37
                             89*************************98765 PP

  == domain 2  score: 4.1 bits;  conditional E-value: 0.0096
                              -S--EEEEECETTE.EEEEE.TTEEEEESEEEE---- CS
              HI0933_like 128 letevksvekeedgkfrvktkseeeleadklvlAtGG 164
                               ++ v +ve++ d+ f v+t+ +++++a+k++++tG 
  PHY93_14125|PHY93_14125 119 IREMVLKVERQIDS-FIVTTTCNNTYTARKIIVTTGT 154
                              56789999999999.8888889*************95 PP

  == domain 3  score: 6.3 bits;  conditional E-value: 0.0021
                              E-GGGB-TTT-BBTTSTTEEE-GGGBSEEE CS
              HI0933_like 360 VdlkevssktmeskkvpgLffaGEvlDveg 389
                              Vd++++s + me  ++pgL+faG v   +g
  PHY93_14125|PHY93_14125 346 VDTSQLS-RAMEYSSIPGLYFAGQVCGTSG 374
                              6666665.68*************9976665 PP

>> FAD_oxidored  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.4   1.4e-05     0.023       1      32 [.       6      37 ..       6     154 .. 0.83
   2 ?   -1.5   0.0      0.77   1.2e+03     146     169 ..      69      92 ..      61     212 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.4e-05
             FAD_oxidored  1 DvvVvGGgpaGvaAAiaAaraGakvlLveerg 32
                             D++++GGg aG  AA  Aa+ + + +L++ ++
  PHY93_14125|PHY93_14125  6 DILIIGGGHAGSEAAWIAAQFDLQIALISSSN 37
                             9***************************9765 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.77
             FAD_oxidored 146 GdlaalaGvpyrvGresreetgep 169
                              G la +aG+++r+ +es++   ++
  PHY93_14125|PHY93_14125  69 GILADKAGIQFRTLNESKGFAVQS 92 
                              778888999999888888866665 PP

>> FAD_binding_2  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   1.3   2.5e-05     0.041       1      39 [.       6      43 ..       6      62 .. 0.85
   2 ?   -2.3   0.0       1.1   1.8e+03     184     204 ..     137     157 ..     117     193 .. 0.72
   3 ?    2.0   0.1     0.053        87     389     416 ..     357     382 ..     346     383 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 2.5e-05
                             SEEEE--SHHHHHHHHHHHHTTT-EEEEESSSGGGSGGG CS
            FAD_binding_2  1 DviViGsGlAGLaAAleaaeaGlkvavvekeqefggata 39
                             D+++iG+G AG  AA  aa+  l++a+++  ++ ++a+a
  PHY93_14125|PHY93_14125  6 DILIIGGGHAGSEAAWIAAQFDLQIALISSSNA-SLASA 43
                             99***************************9987.55555 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 1.1
                              TTCEEEEEESEEEE-----GG CS
            FAD_binding_2 184 sgrevrirakavvlatgGfgr 204
                              +  + +++a++++++tg f +
  PHY93_14125|PHY93_14125 137 TTCNNTYTARKIIVTTGTFLN 157
                              556678999999999999976 PP

  == domain 3  score: 2.0 bits;  conditional E-value: 0.053
                              EESSBTEEE-STCEESSSSTTS--TTHH CS
            FAD_binding_2 389 gqpipGLYAaGevaaggvhganrlgGns 416
                               + ipGLY aG v   g  g+++ +G +
  PHY93_14125|PHY93_14125 357 YSSIPGLYFAGQVC--GTSGYEEAAGQG 382
                              578***********..899999998876 PP

>> AlaDh_PNT_C  Alanine dehydrogenase/PNT, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   2.5e-05      0.04      31      63 ..       7      39 ..       3      46 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 2.5e-05
                             EEEESTSHHHHHHHHHHHHTT-EEEEEESSHHH CS
              AlaDh_PNT_C 31 vlviGgGvaGlqAiatakglgakVtvlDvrpar 63
                             +l+iGgG aG +A+++a++++ ++ ++  + a 
  PHY93_14125|PHY93_14125  7 ILIIGGGHAGSEAAWIAAQFDLQIALISSSNAS 39
                             89******************9999988776665 PP

>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   0.1   0.00051      0.83       1      29 [.       6      36 ..       6      44 .. 0.86
   2 ?    1.8   0.0     0.087   1.4e+02     169     207 ..     123     160 ..      78     175 .. 0.68

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.00051
                             EEEEECTSHHHHHHHHHHHHTT..EEEEESS CS
                      DAO  1 dvviiGGGiiGlstAyeLarrg..Vtllekg 29
                             d++iiGGG +G+ +A+ +a+    ++l+ ++
  PHY93_14125|PHY93_14125  6 DILIIGGGHAGSEAAWIAAQFDlqIALISSS 36
                             8*****************9987889999877 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.087
                              EEEEEEEETCEEEEEEECT.EEEEEEEEEEE--GGGHH.HH CS
                      DAO 169 vtgleeedgkvwgverttp.gendaadavVnaaGawsd.ll 207
                              v ++e++ ++   v  tt  +++ +a+++++++G + + +l
  PHY93_14125|PHY93_14125 123 VLKVERQ-IDSFIV--TTTcNNTYTARKIIVTTGTFLNgKL 160
                              4455432.222333..555465556699******9966544 PP

>> Pyr_redox  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   0.00028      0.45       2      35 ..       7      40 ..       6      50 .. 0.89
   2 ?   -2.3   0.0       4.2   6.8e+03      16      42 ..     382     408 ..     371     415 .. 0.65

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00028
                             EEEECSSHHHHHHHHHHHHTTSEEEEEESSSSSS CS
                Pyr_redox  2 vvvvGgGyiglElAgalaelgkkVtvversdkll 35
                             ++++GgG  g E+A ++a++  ++ ++  s+  l
  PHY93_14125|PHY93_14125  7 ILIIGGGHAGSEAAWIAAQFDLQIALISSSNASL 40
                             89************************99888766 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 4.2
                              HHHHHTTSEEEEEESSSSSSTTSSHHH CS
                Pyr_redox  16 galaelgkkVtvversdkllrllDeea 42 
                              g++a ++++  v++r++ +l   D  +
  PHY93_14125|PHY93_14125 382 GIMAGINASLAVMQREPLVLDRSDSYI 408
                              355778888888888888887666666 PP

>> Thi4  Thi4 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.1   0.00011      0.17      18      50 ..       5      36 ..       2      65 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00011
                             EEEEEE--SHHHHHHHHHHHHCTTS-EEEEESS CS
                     Thi4 18 sDvvivGaGssGLtaayylakkpdlkvailers 50
                              D++i+G+G +G  aa + a+  dl++a++ +s
  PHY93_14125|PHY93_14125  5 FDILIIGGGHAGSEAAWIAAQF-DLQIALISSS 36
                             69***********999988887.******9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (428 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       532  (0.0296726); expected 358.6 (0.02)
Passed bias filter:                      491  (0.0273858); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.65u 0.28s 00:00:00.93 Elapsed: 00:00:00.46
# Mc/sec: 2819.73
//
Query:       PHY93_05960|PHY93_05960  [L=75]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      1e-05   24.9   3.7    1.4e-05   24.4   3.7    1.2  1  N_methyl  Prokaryotic N-terminal methylation motif
  ------ inclusion threshold ------
      0.014   15.2   0.4      0.017   14.9   0.4    1.2  1  PulG      Type II secretory pathway pseudopilin


Domain annotation for each model (and alignments):
>> N_methyl  Prokaryotic N-terminal methylation motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.4   3.7   1.5e-09   1.4e-05       5      26 ..      22      43 ..      20      44 .. 0.92

  Alignments for each domain:
  == domain 1  score: 24.4 bits;  conditional E-value: 1.5e-09
                 N_methyl  5 rGFTLiElLvalaIlaillaaa 26
                             +GF+L E +va+aIl++++a +
  PHY93_05960|PHY93_05960 22 SGFSLMETMVAVAILGVMVATV 43
                             7*****************9987 PP

>> PulG  Type II secretory pathway pseudopilin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.4   1.9e-06     0.017       2      38 ..      26      62 ..      25      72 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 1.9e-06
                     PulG  2 LlEsLvalallvtivslilsqlkqsrkktaeelkkqE 38
                             L+E++va+a+l ++v  ++sql+ s  +  +     E
  PHY93_05960|PHY93_05960 26 LMETMVAVAILGVMVATVISQLRSSYLDSLNVGADAE 62
                             89********************988666655555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (75 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       828  (0.0461822); expected 358.6 (0.02)
Passed bias filter:                      494  (0.0275531); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.25s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 500.52
//
Query:       PHY93_02490|PHY93_02490  [L=828]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        4.8    7.9  11.8       0.34   11.6   0.8    3.6  4  DUF3892   Protein of unknown function (DUF3892)


Domain annotation for each model (and alignments):
>> DUF3892  Protein of unknown function (DUF3892)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.1      0.77   1.4e+04       6      22 ..     362     382 ..     361     389 .. 0.65
   2 ?   11.6   0.8   1.9e-05      0.34       2      46 ..     391     441 ..     390     470 .. 0.81
   3 ?   -2.9   0.0      0.63   1.1e+04      53      62 ..     690     699 ..     658     703 .. 0.67
   4 ?    2.4   0.4     0.013   2.4e+02      11      65 ..     731     782 ..     723     796 .. 0.67

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 0.77
                  DUF3892   6 rk.dggnsherItevk...gs 22 
                              +k +++n + +++e++   ++
  PHY93_02490|PHY93_02490 362 QKiANSNLDSHVDEIQrilSQ 382
                              566678889999999944333 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 1.9e-05
                  DUF3892   2 ItavrkdggnsherItevk..gsntlstgekyskeeaislikngkk....a 46 
                              I+  ++ + ++++++t+v    +++++  +k++++++++ ik++      +
  PHY93_02490|PHY93_02490 391 IIRLKAGPKDESNDVTKVSglTETQNEEEWKVKRSDLVDQIKEQVVtiksS 441
                              788888999**********9777799999**************98766662 PP

  == domain 3  score: -2.9 bits;  conditional E-value: 0.63
                  DUF3892  53 skdGekYlrt 62 
                               + +ekY++ 
  PHY93_02490|PHY93_02490 690 AEEKEKYIKL 699
                              2356888875 PP

  == domain 4  score: 2.4 bits;  conditional E-value: 0.013
                  DUF3892  11 nsherItevkgsntlstgekyskeeaislikngkkagVevvrskdGekYlrtkad 65 
                              ++++rI++++  ++l+++ k+s +++ ++ k+++    +v+ sk++e Y++   +
  PHY93_02490|PHY93_02490 731 EDKQRIQGIE-LKKLEQKLKFSIAQLEESQKRKTQ--PTVAISKSNEVYVKQLEN 782
                              6788999999.445555455555555555555555..456666778999998777 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (828 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2409  (0.134363); expected 358.6 (0.02)
Passed bias filter:                      462  (0.0257683); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.92u 0.30s 00:00:01.22 Elapsed: 00:00:00.49
# Mc/sec: 5032.96
//
Query:       PHY93_02495|PHY93_02495  [L=299]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (299 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       771  (0.043003); expected 358.6 (0.02)
Passed bias filter:                      365  (0.0203581); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.54u 0.25s 00:00:00.79 Elapsed: 00:00:00.46
# Mc/sec: 1968.77
//
Query:       PHY93_02500|PHY93_02500  [L=322]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-35  122.8   0.0    1.8e-35  122.5   0.0    1.1  1  ABC_tran         ABC transporter
    1.5e-14   54.3   0.1    2.5e-14   53.5   0.1    1.4  1  oligo_HPY        Oligopeptide/dipeptide transporter, C-termin
    0.00037   20.0   0.0    0.00057   19.4   0.0    1.2  1  SMC_N            RecF/RecN/SMC N terminal domain
    0.00087   19.7   0.0     0.0011   19.4   0.0    1.3  1  AAA_16           AAA ATPase domain
    0.00088   19.6   0.4      0.011   16.0   0.4    2.2  1  AAA_22           AAA domain
     0.0017   18.3   0.1        1.4    8.6   0.0    2.2  2  AAA_21           AAA domain, putative AbiEii toxin, Type IV T
     0.0063   16.5   0.1      0.026   14.5   0.0    1.9  2  AAA_5            AAA domain (dynein-related subfamily)
     0.0073   16.7   0.0      0.034   14.6   0.0    2.1  1  AAA              ATPase family associated with various cellul
  ------ inclusion threshold ------
       0.01   15.6   0.1       0.02   14.6   0.1    1.4  1  AAA_29           P-loop containing region of AAA domain
       0.01   15.0   0.0      0.011   14.9   0.0    1.1  1  G-alpha          G-protein alpha subunit
      0.014   15.0   0.0      0.014   15.0   0.0    1.2  1  ATP-synt_ab      ATP synthase alpha/beta family, nucleotide-b
      0.037   13.8   0.0      0.056   13.2   0.0    1.3  1  PRK              Phosphoribulokinase / Uridine kinase family
      0.049   13.2   0.0       0.46   10.0   0.0    2.1  1  AAA_25           AAA domain
      0.064   12.4   0.1        0.1   11.8   0.1    1.2  1  NB-ARC           NB-ARC domain
      0.076   12.9   0.1       0.15   12.0   0.1    1.5  1  NACHT            NACHT domain
      0.088   12.7   0.1       0.16   11.9   0.1    1.4  1  RsgA_GTPase      RsgA GTPase
       0.12   12.0   0.0        1.7    8.3   0.0    2.3  2  Sigma54_activat  Sigma-54 interaction domain
       0.13   12.3   0.0       0.25   11.3   0.0    1.4  1  TsaE             Threonylcarbamoyl adenosine biosynthesis pro


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  122.5   0.0   1.8e-38   1.8e-35       1     136 [.      32     184 ..      32     185 .. 0.97

  Alignments for each domain:
  == domain 1  score: 122.5 bits;  conditional E-value: 1.8e-38
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG...B-HHHCCHCEEEE-SS..--S-TTSBHHHH.. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxx..xxxxxxxxxxxx.. RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke...qeleslrkeigvlpqe..pqlfpeltvren.. 79 
                              ++nvs+k+k+ge++++vGe+G+GK+tL + +++l +p +Gei ++g+++ +    e++  r+++++++q+  ++l+p++tv++   
  PHY93_02500|PHY93_02500  32 VNNVSFKIKKGETLGLVGESGCGKTTLGRSILRLIEPSSGEIIFNGQNIVNytpAEMRAIRRKMQIIFQDpyASLNPRMTVGDIls 117
                              58**********************************************99999999**************999************* PP

                              ..........HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              ..........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ..........esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                                        e++++ +++l+ l++++l+++ +++ p+++SgGq+qr+++aral+ +p+++++DEp 
  PHY93_02500|PHY93_02500 118 epmeihglhtEKSKRRARMLELLNQVQLPADALNKYPHEFSGGQRQRICIARALAVEPEFIVCDEPV 184
                              **********9999999*************************************************7 PP

>> oligo_HPY  Oligopeptide/dipeptide transporter, C-terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.5   0.1   2.5e-17   2.5e-14       1      65 []     236     301 ..     236     301 .. 0.96

  Alignments for each domain:
  == domain 1  score: 53.5 bits;  conditional E-value: 2.5e-17
                oligo_HPY   1 vErgpssklfdeplHPYTkaLlrsvprldrekd.klekikgeapslerldeGCpFapRCpfaleeC 65 
                              vE+++ss+l  +++HPYTkaL +++p      +     ++g+ ps+ + ++GC F+pRC+ a+eeC
  PHY93_02500|PHY93_02500 236 VEIAESSELYGHAKHPYTKALFSAIPHASTSGRaGRIILEGDIPSPMNPPSGCHFNPRCWNATEEC 301
                              8***************************999996777889999*********************** PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.4   0.0   5.7e-07   0.00057      28     213 ..      46     231 ..      31     237 .. 0.84

  Alignments for each domain:
  == domain 1  score: 19.4 bits;  conditional E-value: 5.7e-07
                              EEEESTTSSHHHHHHHHHHHCTT.TTTTTTCHCCCCCC--BTTCSSTTEEEEEEEEEETTEESSSSSSCEEEEEEEETTSEEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N  28 aivGpNGSGKsnlldAilFvLGersakklrseklsdlihkskekasvkkaeveitfdnedkklkiekeevsisrrvkrkgeseyki 113
                               +vG+ G+GK+ l  +il ++  +s  ++   + +++++++ ++ ++ + +++i+f+++ ++    ++++++   +++  e +   
  PHY93_02500|PHY93_02500  46 GLVGESGCGKTTLGRSILRLIEPSSG-EII-FNGQNIVNYTPAEMRAIRRKMQIIFQDPYAS---LNPRMTVGDILSEPMEIHGLH 126
                              59***************777765555.554.46789999999999999*********99999...789999999999999988888 PP

                              TTEEE-HHHHHHHHHCTT-STT.......CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTT..S CS
                              xxxxxxxxxxxxxxxxxxxxxx.......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..x RF
                    SMC_N 114 ngkevtkkevsellesagiske.......lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkekskn..a 190
                               +k+ +++ + ell+++++  +       ++SgG+++ + +a  +A++      + + De  +aLD +  ++v++ll   + +   
  PHY93_02500|PHY93_02500 127 TEKSKRRARMLELLNQVQLPADalnkyphEFSGGQRQRICIARALAVEP----EFIVCDEPVSALDVSVQAQVVNLLMDLQRDlgL 208
                              8888899************999888888899***********9999853....4999********************988877568 PP

                              EEEEE-SSHHHCCC-SCEEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 191 Qfivislreemlekadklvgvtk 213
                               f+ i+++ +++e  ++ v v+ 
  PHY93_02500|PHY93_02500 209 TFLFIAHDLKVVEYISSRVAVMY 231
                              9999*999999998887777765 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.4   0.0   1.1e-06    0.0011      21      63 ..      41      82 ..      21     210 .. 0.74

  Alignments for each domain:
  == domain 1  score: 19.4 bits;  conditional E-value: 1.1e-06
                   AAA_16 21 sgrpelvllsGesGvGKsslvrellralekd..ggiflrgkcdql 63
                             +g  e + l+GesG+GK++l r++lr +e +  ++if +g++  +
  PHY93_02500|PHY93_02500 41 KG--ETLGLVGESGCGKTTLGRSILRLIEPSsgEIIF-NGQNIVN 82
                             33..67889****************999999642444.3333333 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.4   1.1e-05     0.011      10     128 ..      47     213 ..      39     223 .. 0.50

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 1.1e-05
                   AAA_22  10 vtGesGtGKTtllrrlleqldeeakaee....................erpevvfvtlpsstsskdllrellralglelka..... 70 
                              ++GesG+GKTtl r +l+  +  ++  e                    +                    ++  +++++  +     
  PHY93_02500|PHY93_02500  47 LVGESGCGKTTLGRSILRLIE--PSSGEiifngqnivnytpaemrairR--------------------KMQIIFQDPYASlnprm 110
                              89****************974..33333667555555555555555542....................33333333333333333 PP

                   AAA_22  71 .....................erlsseellealeqalrarav......................ielliiDEaqh.lr...seeal 109
                                                   +r++  ell++++  ++a  +                      +e+++ DE    l+   +++++
  PHY93_02500|PHY93_02500 111 tvgdilsepmeihglhtekskRRARMLELLNQVQLPADALNKyphefsggqrqriciaralavePEFIVCDEPVSaLDvsvQAQVV 196
                              33333333333333333324423333333333332222222233333334444444444446677777777755556664336666 PP

                   AAA_22 110 eeLrsllnlsrkgvqliLv 128
                              + L +l+   + g++++++
  PHY93_02500|PHY93_02500 197 NLLMDLQR--DLGLTFLFI 213
                              66666666..555555555 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.8   0.0    0.0026       2.6       3      41 ..      46      78 ..      45     108 .. 0.75
   2 !    8.6   0.0    0.0014       1.4     234     301 ..     154     219 ..     123     221 .. 0.87

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0026
                   AAA_21  3 vliGpNgsGKSnLLdaldllarldrdvegltdelsgggg 41
                             +l+G  g+GK++L + +  l      +e++  e   +g+
  PHY93_02500|PHY93_02500 46 GLVGESGCGKTTLGRSILRL------IEPSSGEIIFNGQ 78
                             69***************665......4555555555544 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0014
                   AAA_21 234 arelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsr.ngaQviltTHSpll 301
                              ++e+S G+++ ++++ al+  +    +++ DEp + L+ ++++ ++ ll +l+r  g  +++  H+  +
  PHY93_02500|PHY93_02500 154 PHEFSGGQRQRICIARALAVEP---EFIVCDEPVSALDVSVQAQVVNLLMDLQRdLGLTFLFIAHDLKV 219
                              6789999999999999999888...99*******************99988888799999999998765 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.5   0.0   2.6e-05     0.026       4      32 ..      47      76 ..      44     100 .. 0.81
   2 ?   -0.6   0.0       1.2   1.2e+03      64      94 ..     172     204 ..     125     243 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 2.6e-05
                             EE--SSSSHHHHHHHGGGGB.S--EEEEE- CS
                    AAA_5  4 LvGppGtgKselaerlaaal.nreveyvql 32
                             LvG++G+gK++l +++++++  ++ e++ +
  PHY93_02500|PHY93_02500 47 LVGESGCGKTTLGRSILRLIePSSGEIIFN 76
                             9*******************7666665544 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 1.2
                              -..G-SEEEEESGGG--HHHHHHHHHHHHSSEE CS
                    AAA_5  64 r..egeilvlDEveraesevlnsLlslleerrl 94 
                                    i++++ v  ++ +v++ + +ll + ++
  PHY93_02500|PHY93_02500 172 AvePEFIVCDEPVSALDVSVQAQVVNLLMDLQR 204
                              341444555555666668888888888876555 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.6   0.0   3.4e-05     0.034       3      52 ..      47      97 ..      45     221 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 3.4e-05
                             EESSTTSSHHHHHHHHHHHHT..HEEEEEETTTCSSSSTTHHHHHHHHHHHH CS
                      AAA  3 lyGppGtGKTllakavakelg..vefleisgsellskyvgesekkirelfke 52
                             l+G  G+GKT+l +++ + ++  +  + ++g +++ +y  + ++ ir  ++ 
  PHY93_02500|PHY93_02500 47 LVGESGCGKTTLGRSILRLIEpsSGEIIFNGQNIV-NYTPAEMRAIRRKMQI 97
                             89****************98532445777888887.6666666666555544 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.1     2e-05      0.02      13      55 ..      33      76 ..      28      78 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 2e-05
                   AAA_29 13 dghtieidlkgatlltGpsGsGKSTllDAiqalLvpak.kvrfN 55
                             ++ +++i+  ++  l+G+sG GK+Tl  +i  l+ p++ ++ fN
  PHY93_02500|PHY93_02500 33 NNVSFKIKKGETLGLVGESGCGKTTLGRSILRLIEPSSgEIIFN 76
                             45678888555777*************99999999999899998 PP

>> G-alpha  G-protein alpha subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.0   1.1e-05     0.011      21     114 ..      40     152 ..      24     238 .. 0.77

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 1.1e-05
                              ..EEEEEEEESTTSSHHHHHHHHHHHCS--.....--HHHHHCCHHHHHHHHHHHHHHHHHHHHHTT................... CS
                  G-alpha  21 krevkllllGqseSGKsTilkqlkllykkg.....fseeelatwraviqlnivrsiktilealesleselsesf............ 89 
                              k+  +l l+G+s++GK+T+ +++ +l +++     f+ +++ ++++  +  i r+++ i++    +   l++++            
  PHY93_02500|PHY93_02500  40 KKGETLGLVGESGCGKTTLGRSILRLIEPSsgeiiFNGQNIVNYTPAEMRAIRRKMQIIFQDPYAS---LNPRMtvgdilsepmei 122
                              4455788****************9999888899999999999999999999999999999876663...22222345566777788 PP

                              .....HHHC-SS-SCCCS-HCHHHH..... CS
                  G-alpha  90 .....elqelkerldplkkveasliaklss 114
                                   e++++++r+ +l++  +  ++ l++
  PHY93_02500|PHY93_02500 123 hglhtEKSKRRARMLELLNQVQLPADALNK 152
                              888888888888888888777777666655 PP

>> ATP-synt_ab  ATP synthase alpha/beta family, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   0.0   1.5e-05     0.014       8      48 ..      36      77 ..      30     269 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 1.5e-05
                             HS-EBTT-EEEEEESTTSSHHHHHHHHHHHSSTSS.EEEEEE CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxx RF
              ATP-synt_ab  8 lfpivqGqrtlipgafgvGktvisqslskqsnsdd.aiiyvg 48
                              f i +G++++++g++g+Gkt++ +s+++  + ++  ii+ g
  PHY93_02500|PHY93_02500 36 SFKIKKGETLGLVGESGCGKTTLGRSILRLIEPSSgEIIFNG 77
                             57899*********************9998766655677665 PP

>> PRK  Phosphoribulokinase / Uridine kinase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   5.6e-05     0.056       3      67 ..      46     109 ..      44     125 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 5.6e-05
                      PRK   3 gvagsSGaGkttvarklekifgrekvkaaeiegdsflrldraekdleleerkrakekevsflspe 67 
                              g+ g+SG+Gktt+ r +  +++  + +    +g+ +++++ ae+++  ++ +  ++  +  l+p+
  PHY93_02500|PHY93_02500  46 GLVGESGCGKTTLGRSILRLIEPSSGE-IIFNGQNIVNYTPAEMRAIRRKMQIIFQDPYASLNPR 109
                              899***************999933333.5558899999999998887777777777666666665 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.0   0.00046      0.46      30      98 ..      39     117 ..      34     219 .. 0.64

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.00046
                   AAA_25  30 lpagelallaGapgtGKttlaldlalava..tGkpwlgpvapeqgkVlyvsaEdsedelrrRlravgeal..............r 98 
                              + +ge+  l+G +g+GKttl  ++   +   +G+  +      q  V y  aE+++  +rr+++ ++++               +
  PHY93_02500|PHY93_02500  39 IKKGETLGLVGESGCGKTTLGRSILRLIEpsSGEIIFN----GQNIVNYTPAEMRA--IRRKMQIIFQDPyaslnprmtvgdilS 117
                              56899999************988887776667775555....66678888888888..888888877765554444444444440 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.1    0.0001       0.1      22      42 ..      44      64 ..      27      74 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.0001
                             EEEEEESTTSSHHHHHHHHCC CS
                   NB-ARC 22 vvalvGmgGvGKttlakqiln 42
                              ++lvG  G+GKttl ++il+
  PHY93_02500|PHY93_02500 44 TLGLVGESGCGKTTLGRSILR 64
                             689*************99987 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.1   0.00015      0.15       3      24 ..      45      66 ..      43      72 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00015
                             EEEEC-TTTCHHHHHHHHHHHH CS
                    NACHT  3 vilqGeaGsGKTtLlqklalaw 24
                             + l Ge+G+GKTtL +++ +++
  PHY93_02500|PHY93_02500 45 LGLVGESGCGKTTLGRSILRLI 66
                             6689***********9998876 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.1   0.00016      0.16      88     120 ..      30      63 ..      21      78 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00016
                              TTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHC CS
              RsgA_GTPase  88 egleelkellkd.ktsvlvGqSGvGKStLinall 120
                              +++++++ ++k+ +t  lvG+SG GK+tL  ++l
  PHY93_02500|PHY93_02500  30 NAVNNVSFKIKKgETLGLVGESGCGKTTLGRSIL 63 
                              5667788888887999*************87776 PP

>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   0.0    0.0017       1.7      11      53 ..      31      73 ..      21      88 .. 0.75
   2 ?    1.1   0.0      0.29   2.9e+02      67      81 ..     241     255 ..     221     272 .. 0.85

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0017
                             HHHHHHHHCTSSS-EEEECSTTSSHHHHHHHHHHHSTTTTS-E CS
          Sigma54_activat 11 lleqikkvaktdlsvlitGesGtGKellaraiheaskrkekpf 53
                             ++++++  +k+  ++ ++GesG+GK++l r+i +  + +++++
  PHY93_02500|PHY93_02500 31 AVNNVSFKIKKGETLGLVGESGCGKTTLGRSILRLIEPSSGEI 73
                             555555566666777899*************999877766654 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.29
                              HHHHHEBSSSSSTTT CS
          Sigma54_activat  67 eseLFGhekGaFtGA 81 
                              +seL+Gh+k  +t A
  PHY93_02500|PHY93_02500 241 SSELYGHAKHPYTKA 255
                              69**********988 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00025      0.25       8      43 ..      33      66 ..      24      74 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00025
                             HHHHHHHHHCHTEEEEEEESTTSSHHHHHHHHHHHT CS
                     TsaE  8 ealgkklakalgdvilLeGdLGaGKTtlvrglakal 43
                             +++  k++k  g+++ L G+ G+GKTtl r++++ +
  PHY93_02500|PHY93_02500 33 NNVSFKIKK--GETLGLVGESGCGKTTLGRSILRLI 66
                             445555555..8899****************99866 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (322 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       536  (0.0298957); expected 358.6 (0.02)
Passed bias filter:                      519  (0.0289475); expected 358.6 (0.02)
Passed Vit filter:                        80  (0.00446204); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              18  [number of targets reported over threshold]
# CPU time: 0.59u 0.31s 00:00:00.89 Elapsed: 00:00:00.46
# Mc/sec: 2085.44
//
Query:       PHY93_02505|PHY93_02505  [L=329]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.8e-30  104.6   0.0    1.2e-29  103.5   0.0    1.5  2  ABC_tran      ABC transporter
    2.3e-17   63.3   0.0    3.9e-17   62.5   0.0    1.4  1  oligo_HPY     Oligopeptide/dipeptide transporter, C-terminal 
    4.1e-07   30.1   1.1    3.6e-06   27.0   0.0    2.0  2  AAA_21        AAA domain, putative AbiEii toxin, Type IV TA s
    0.00014   21.4   1.1    0.00095   18.7   1.1    2.0  1  SMC_N         RecF/RecN/SMC N terminal domain
  ------ inclusion threshold ------
      0.036   14.3   0.9       0.97    9.7   0.9    2.4  1  AAA_22        AAA domain
      0.046   14.1   0.3       0.54   10.7   0.3    2.2  1  AAA           ATPase family associated with various cellular 
      0.093   12.1   0.1        2.5    7.4   0.1    2.2  2  Mg_chelatase  Magnesium chelatase, subunit ChlI
       0.14   11.5   0.4         10    5.5   0.0    2.3  2  2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, 
       0.15   11.8   0.1        0.3   10.9   0.1    1.4  1  AAA_29        P-loop containing region of AAA domain
       0.18   11.2   1.6       0.32   10.4   0.1    1.9  2  TniB          Bacterial TniB protein


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  103.5   0.0   6.8e-33   1.2e-29       2     136 ..      26     185 ..      25     186 .. 0.91
   2 ?   -2.9   0.0         5   8.9e+03     107     118 ..     265     276 ..     246     281 .. 0.79

  Alignments for each domain:
  == domain 1  score: 103.5 bits;  conditional E-value: 6.8e-33
                              EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--.....SEEEEEETTCEGGG....B-HHHCCHCEEEE-SS..--S-TTSBH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....xxxxxxxxxxxxxx....xxxxxxxxxxxxxxxx..xxxxxxxxx RF
                 ABC_tran   2 knvslklkegekvaivGenGaGKStLlkllagllkp.....teGeilldgkdlke....qeleslrkeigvlpqe..pqlfpeltv 76 
                              + v++++ +g++v+ivGe+G+GKS  + +++gl  +     ++G+i+++gk+l +    + +++  ++i++++qe  ++l+p  t+
  PHY93_02505|PHY93_02505  26 NGVNFDVFKGKTVGIVGESGSGKSVTALAIMGLIPNppgriASGQINFEGKSLVNmsagEMRKIRGNKIAMIFQEpmTSLNPVFTI 111
                              789******************************9887888899999***999999999999**************9999******* PP

                              HHH...............HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              xxx...............xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  77 ren...............esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                              +++               ++++++ ++l+ +g++  +d+++++ p++LSgG++qrv++a al ++p++l++DEpt
  PHY93_02505|PHY93_02505 112 GNQieevielhqphlsrsQRTAKAVDMLRLVGIPS-PDKRINEYPHQLSGGMRQRVMIAIALSCEPDVLIADEPT 185
                              999***********965555555666666666666.899999********************************9 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 5
                              GGS-HHHHHHHH CS
                              xxxxxxxxxxxx RF
                 ABC_tran 107 ssLSgGqkqrva 118
                               s SgG+k+r++
  PHY93_02505|PHY93_02505 265 DSTSGGKKERLQ 276
                              678999999985 PP

>> oligo_HPY  Oligopeptide/dipeptide transporter, C-terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.5   0.0   2.2e-20   3.9e-17       1      65 []     237     305 ..     237     305 .. 0.97

  Alignments for each domain:
  == domain 1  score: 62.5 bits;  conditional E-value: 2.2e-20
                oligo_HPY   1 vErgpssklfdeplHPYTkaLlrsvprldrekd....klekikgeapslerldeGCpFapRCpfaleeC 65 
                              vE +++ +lf++p+HPYTk+L++s+p++d+       +l++i+g +psl +l++GC F++RC  ++++C
  PHY93_02505|PHY93_02505 237 VESADVVTLFNHPAHPYTKGLMDSIPSFDSTSGgkkeRLQTIEGMVPSLFDLPNGCNFQDRCSKVTDAC 305
                              89***************************988888889******************************* PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   0.3     0.092   1.6e+02       3      22 ..      39      58 ..      38      92 .. 0.73
   2 !   27.0   0.0     2e-09   3.6e-06     214     302 ..     127     221 ..      87     222 .. 0.72

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.092
                   AAA_21  3 vliGpNgsGKSnLLdaldll 22
                             +++G  gsGKS    a+ +l
  PHY93_02505|PHY93_02505 39 GIVGESGSGKSVTALAIMGL 58
                             69*********877777444 PP

  == domain 2  score: 27.0 bits;  conditional E-value: 2e-09
                   AAA_21 214 erlrer........gvvflengdgqelparelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsr.nga 290
                               r+++          v +  ++++ +  +++lS G+++   ++++ l+  +  ++l+ DEp + L+  +++ +lel+k+l++  g 
  PHY93_02505|PHY93_02505 127 SRSQRTakavdmlrLVGIPSPDKRINEYPHQLSGGMRQR-VMIAIALSCEP--DVLIADEPTTALDVTIQAQILELMKKLQKeLGM 209
                              444444555555555555566677788999********9.55555555554..9***********************999999*** PP

                   AAA_21 291 QviltTHSplll 302
                               +il TH+  ++
  PHY93_02505|PHY93_02505 210 GIILITHDLGVV 221
                              ********8876 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   1.1   5.3e-07   0.00095      22     212 ..      33     231 ..      21     238 .. 0.77

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 5.3e-07
                              TTSSEEEEEESTTSSHHHHHHHHHHHCTT.TTTTTTCHCC....CCCC--.BTTCSSTTEEEEEEEEEETTEESSSSSSCEEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N  22 fsksftaivGpNGSGKsnlldAilFvLGersakklrsekl....sdlihk.skekasvkkaeveitfdnedkklkiekeevsisrr 102
                              f+ +   ivG+ GSGKs    Ai+ ++ +     + s ++    ++l++    e +++   +++++f+++  +    ++ ++i  +
  PHY93_02505|PHY93_02505  33 FKGKTVGIVGESGSGKSVTALAIMGLIPNPPG-RIASGQInfegKSLVNMsAGEMRKIRGNKIAMIFQEPMTS---LNPVFTIGNQ 114
                              5666778**********999999777654444.45444441222578887566778888899*****999998...7888999999 PP

                              EETTSE.EEEEETTEEE-HHHHHHHHHCTT-STT.........CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHH CS
                              xxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxx.........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 103 vkrkge.seykingkevtkkevsellesagiske.........lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkk 178
                              +++  e  + ++ +++ t ++  ++l+ +gi +          +LSgG ++ v++a+ +   +++p  l + De   aLD +  ++
  PHY93_02505|PHY93_02505 115 IEEVIElHQPHLSRSQRT-AKAVDMLRLVGIPSPdkrineyphQLSGGMRQRVMIAIAL---SCEPDVL-IADEPTTALDVTIQAQ 195
                              988887445555555554.455578888888766688888888*******999999986...5778766.67************** PP

                              HHHHHHHHCTT..SEEEEE-SSHHHCCC-SCEEEEE CS
                              xxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 179 vaellkekskn..aQfivislreemlekadklvgvt 212
                              + el+k+ +k+  + +i i+++ +++++   +v v+
  PHY93_02505|PHY93_02505 196 ILELMKKLQKElgMGIILITHDLGVVAETCDTVAVM 231
                              *******99997778999999999888876665554 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   0.9   0.00054      0.97      10      32 ..      40      62 ..      33     220 .. 0.50

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.00054
                   AAA_22 10 vtGesGtGKTtllrrlleqldee 32
                             ++GesG+GK++++  ++   ++ 
  PHY93_02505|PHY93_02505 40 IVGESGSGKSVTALAIMGLIPNP 62
                             89**********98887776543 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.3    0.0003      0.54       3      52 ..      40     100 ..      38     226 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.0003
                              EESSTTSSHHHHHHHHHHHH...............THEEEEEETTTCSSSSTTHHHHHHHHHHHH CS
                      AAA   3 lyGppGtGKTllakavakel...............gvefleisgsellskyvgesekkirelfke 52 
                              ++G  G GK+ +a a++  +               g +++++s+ e++    + + +ki+++f+e
  PHY93_02505|PHY93_02505  40 IVGESGSGKSVTALAIMGLIpnppgriasgqinfeGKSLVNMSAGEMR----KIRGNKIAMIFQE 100
                              68*****************75555444333332223345555555555....4455677777776 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.4   0.1    0.0014       2.5      24      48 ..      37      61 ..      16     105 .. 0.88
   2 ?    2.4   0.0     0.049        88     175     199 ..     148     172 ..     143     178 .. 0.87

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.0014
             Mg_chelatase 24 nlllvGppGsGKtmlakrlpsllpp 48
                              + +vG +GsGK++ a ++++l+p+
  PHY93_02505|PHY93_02505 37 TVGIVGESGSGKSVTALAIMGLIPN 61
                             56689******************97 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.049
             Mg_chelatase 175 ekeierYlsklsgplldRidlqvev 199
                               k+i++Y ++lsg +  R+ + +++
  PHY93_02505|PHY93_02505 148 DKRINEYPHQLSGGMRQRVMIAIAL 172
                              57899**************999976 PP

>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   0.1     0.018        32      31      54 ..      30      53 ..       7      57 .. 0.80
   2 ?    5.5   0.0    0.0056        10      53     110 ..     202     259 ..     195     261 .. 0.76

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.018
                             BS-GTTSEEEEES-SHHHHHHHHH CS
             2-Hacid_dh_C 31 gkelsgktvGiiGlGrIGqavakr 54
                                 +gktvGi+G    G++v  +
  PHY93_02505|PHY93_02505 30 FDVFKGKTVGIVGESGSGKSVTAL 53
                             55679********99999999766 PP

  == domain 2  score: 5.5 bits;  conditional E-value: 0.0056
                              HHHHHTT-EEEEESSSHHHHHCHHHHTCEECSHHHHHHH-SEEEE.-S--STTTTTSBS CS
             2-Hacid_dh_C  53 krlkafgmkviaydrskkkeeeeeelgvelvsleellaesDivsl.hlpltpetrhlin 110
                              k+ k++gm +i + +     + e    v ++   ++++++D+v+l + p++p t++l++
  PHY93_02505|PHY93_02505 202 KLQKELGMGIILITHDLGVVA-ETCDTVAVMYCGQIVESADVVTLfNHPAHPYTKGLMD 259
                              445588998888887777555.44445678999**********984689******9987 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.1   0.00017       0.3      22      38 ..      34      51 ..      23      66 .. 0.72

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00017
                   AAA_29 22 kg.atlltGpsGsGKSTl 38
                             kg ++ ++G+sGsGKS  
  PHY93_02505|PHY93_02505 34 KGkTVGIVGESGSGKSVT 51
                             344677**********64 PP

>> TniB  Bacterial TniB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.2      0.55   9.9e+02      38      51 ..      38      51 ..      34      54 .. 0.84
   2 ?   10.4   0.1   0.00018      0.32     111     160 ..     167     214 ..     151     224 .. 0.84

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.55
                     TniB 38 lllvGdsnnGKtmi 51
                             + +vG+s  GK++ 
  PHY93_02505|PHY93_02505 38 VGIVGESGSGKSVT 51
                             569********975 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 0.00018
                     TniB 111 vlrllrelkvrvLiiDEihnllagsarkqreflnalksLgnelkipivlv 160
                              ++++  ++++ vLi DE   +l   ++ q ++l+++k+L+ el + i+l+
  PHY93_02505|PHY93_02505 167 MIAIALSCEPDVLIADEPTTAL--DVTIQAQILELMKKLQKELGMGIILI 214
                              445666899***********99..6777899****************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (329 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       622  (0.0346924); expected 358.6 (0.02)
Passed bias filter:                      593  (0.0330749); expected 358.6 (0.02)
Passed Vit filter:                        77  (0.00429472); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.64u 0.29s 00:00:00.93 Elapsed: 00:00:00.47
# Mc/sec: 2092.58
//
Query:       PHY93_02510|PHY93_02510  [L=286]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.3e-27   96.8   4.4    1.3e-27   96.8   4.4    2.2  2  BPD_transp_1  Binding-protein-dependent transport system inne
  ------ inclusion threshold ------
      0.019   15.0   0.2      0.019   15.0   0.2    3.4  4  OppC_N        N-terminal TM domain of oligopeptide transport 


Domain annotation for each model (and alignments):
>> BPD_transp_1  Binding-protein-dependent transport system inner membrane component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   5.6     0.029   2.6e+02      20      76 ..      17     109 ..       9     109 .. 0.77
   2 !   96.8   4.4   1.4e-31   1.3e-27       1     184 [.     103     286 .]     103     286 .] 0.97

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.029
             BPD_transp_1  20 lrpliivllslPsfvlaillvlvf....................................vilsilghlilpviillllsaapyvr 69 
                              lr++++ ++ +  ++++i ++ ++                                    v+l+ ++ + ++v+i +++s++ +v+
  PHY93_02510|PHY93_02510  17 LRIVSEKISLIALVIVGIYFLIAIltgagllasdwgkeigasymapssisyfgtdifgrsVLLKTVKATETAVVIGVVVSMISIVI 102
                              55555555555555555555544467778888888888888888888888888999999999999999999999999999999999 PP

             BPD_transp_1  70 lirraal 76 
                               ++ +++
  PHY93_02510|PHY93_02510 103 GTTLGMI 109
                              9998886 PP

  == domain 2  score: 96.8 bits;  conditional E-value: 1.4e-31
             BPD_transp_1   1 gillGilaalnrnkkldkllrpliivllslPsfvlaillvlvfvilsilghlilp.viillllsaapyvrlirraalrslpkdlve 85 
                              g++lG++a+ ++++++d+++ +++ +++s+P + l++ +        ilg + +   + l+l+s++++ r++r+++++  +++++ 
  PHY93_02510|PHY93_02510 103 GTTLGMIAG-YFGGFIDEIVVWFYTTFSSIPGVMLLVAIA------FILGKGTTTvFLSLGLTSWVGLCRIVRAEVMKHKEREYIH 181
                              789******.************************999999......78999999979***************************** PP

             BPD_transp_1  86 aaralGasrwqifrkvvlPnalppiitglilafggllggavlleflgswpGlgtllleailgydyseis...........nggvla 160
                              aa a Ga++ + ++k++lPn+   +i  +  +f +++++ v+l+flg    lg ++ ++++g +++              ++++la
  PHY93_02510|PHY93_02510 182 AANAIGATHTRKLWKHILPNISHLLIINFTQTFDSAVKAEVVLSFLG----LG-VVGRPSWGTMIDDSKlelargvwwqlAAATLA 262
                              ***********************************************....99.8999********888***************** PP

             BPD_transp_1 161 lviavlllnlvadilqrlldprvr 184
                              + ++vl++n++ d+l ++ldp+++
  PHY93_02510|PHY93_02510 263 MFLIVLAFNILGDALRDALDPKLK 286
                              *********************985 PP

>> OppC_N  N-terminal TM domain of oligopeptide transport permease C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   0.2   2.1e-06     0.019       1      37 [.      10      48 ..      10      66 .. 0.85
   2 ?   -2.3   1.6      0.51   4.6e+03      16      30 ..      96     110 ..      87     123 .. 0.61
   3 ?   -2.4   0.4      0.54   4.8e+03      24      32 ..     135     143 ..     133     146 .. 0.57
   4 ?    0.1   1.3     0.091   8.2e+02       6      21 ..     252     267 ..     248     277 .. 0.66

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 2.1e-06
                   OppC_N  1 slwqdawrrFkrNklAvvglvilllllliaif..aPlia 37
                             sl++ a+ r  + k+ +++lvi+ + +liai+  a l+a
  PHY93_02510|PHY93_02510 10 SLLHNALLRIVSEKISLIALVIVGIYFLIAILtgAGLLA 48
                             789999*************************96556665 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 0.51
                   OppC_N  16 Avvglvillllllia 30 
                               +++ vi  +l  ia
  PHY93_02510|PHY93_02510  96 SMISIVIGTTLGMIA 110
                              455555555555544 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 0.54
                   OppC_N  24 llllliaif 32 
                              +ll++ia++
  PHY93_02510|PHY93_02510 135 MLLVAIAFI 143
                              455555554 PP

  == domain 4  score: 0.1 bits;  conditional E-value: 0.091
                   OppC_N   6 awrrFkrNklAvvglv 21 
                              +w+++    lA++  v
  PHY93_02510|PHY93_02510 252 VWWQLAAATLAMFLIV 267
                              7888888888887443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (286 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       959  (0.0534888); expected 358.6 (0.02)
Passed bias filter:                      368  (0.0205254); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.43
# Mc/sec: 2012.26
//
Query:       PHY93_02515|PHY93_02515  [L=311]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.3e-38  131.3  17.4    3.3e-38  131.3  17.4    1.8  2  BPD_transp_1  Binding-protein-dependent transport system inne


Domain annotation for each model (and alignments):
>> BPD_transp_1  Binding-protein-dependent transport system inner membrane component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   1.3     0.091   1.6e+03      27      44 ..      12      36 ..       3     115 .. 0.58
   2 !  131.3  17.4   1.9e-42   3.3e-38       2     184 ..     116     311 .]     113     311 .] 0.98

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.091
             BPD_transp_1 27 llslPsfv....laillvlvf......v 44
                             l+ +P+++    +   ++++f       
  PHY93_02515|PHY93_02515 12 LYIIPVLLgvclV---IFVLFnlvapdP 36
                             4555555543221...222222233440 PP

  == domain 2  score: 131.3 bits;  conditional E-value: 1.9e-42
             BPD_transp_1   2 illGilaalnrnkkldkllrpliivllslPsfvlaillvlvf..............vilsilghlilpviillllsaapyvrlirr 73 
                              i l++l+a++r+k +dk++++l+i+++s+Ps++++++ +++f               + + + + ilp+++ +++s+++ +r+ r 
  PHY93_02515|PHY93_02515 116 ISLALLVAFYRGKLIDKFVLILSIAGMSIPSLAVVLFGQYFFayklgffeisgyefGFPNFVPYVILPILLYIVISFGADTRFYRT 201
                              77999***************************************************999999************************ PP

             BPD_transp_1  74 aalrslpkdlveaaralGasrwqifrkvvlPnalppiitglilafggllggavlleflgswpGlgtllleailgydyseisnggvl 159
                               +l++  +d+v++ar +G+s+ ++++k+vl+n+++pi+t++i+++++l+ g +++e ++s pGlg ++++ai+++d++ i  ++++
  PHY93_02515|PHY93_02515 202 VILDEAYQDYVRTARSKGLSELKVMFKHVLKNSMIPILTQIIIQIPSLILGLLFAESFFSIPGLGAMTINAINNSDFPVIK-AMTI 286
                              *********************************************************************************.**** PP

             BPD_transp_1 160 alviavlllnlvadilqrlldprvr 184
                              + ++ ++++ +++d+l++++dpr++
  PHY93_02515|PHY93_02515 287 MSAVGFIIFGVITDVLYTVVDPRMK 311
                              ***********************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (311 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       845  (0.0471303); expected 358.6 (0.02)
Passed bias filter:                      419  (0.02337); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.58u 0.25s 00:00:00.83 Elapsed: 00:00:00.44
# Mc/sec: 2130.52
//
Query:       PHY93_02520|PHY93_02520  [L=583]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.2e-87  294.3   8.3    1.5e-87  294.1   8.3    1.1  1  SBP_bac_5  Bacterial extracellular solute-binding proteins, f


Domain annotation for each model (and alignments):
>> SBP_bac_5  Bacterial extracellular solute-binding proteins, family 5 Middle
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  294.1   8.3   8.2e-92   1.5e-87       2     374 ..      76     492 ..      75     495 .. 0.97

  Alignments for each domain:
  == domain 1  score: 294.1 bits;  conditional E-value: 8.2e-92
                              EEESSEEEEEEEETTTTEEEEEE-TT-B-TTSS........B-SHHHHHHHHHHHHTGGGHCTTHHHHHC................ CS
                SBP_bac_5   2 vvpaLAeswwevsdDgktytfkLRkgvkFsDGt........pltAeDvvfsferlldpdtasgyasllee................ 63 
                              +vp+LA++++++s+Dg tytfkLR+gvkF+D+         ++ A+D+v+s++r++d  ++s+  ++l+                 
  PHY93_02520|PHY93_02520  76 LVPNLAAEMPTISKDGITYTFKLRQGVKFQDDIafpggkgrEMEASDFVYSIKRMADSRNQSTGWWTLDGklkglnewreknakla 161
                              89*****************************9559999999***************************99**************** PP

                              ....TCTEEEEEEEETTEEEEEESSETTTTTTHCHHHHHHHGCCHTCTCTTTTTGTTTSE-BSSSEEEEEEETTTEEEEEE-TTST CS
                SBP_bac_5  64 ....dqdikkveavddytvrftlkkpnalfltllaavpasiakkaaekeddkdkdtnekpvgtGPYklkefkpgqkivlernpdYw 145
                                  d+++++ +a+d+yt++f+l+kp++ f+++l ++ a ++  ++e  ++++k++ ++pvgtGPY+l  f++g+ki++++np ++
  PHY93_02520|PHY93_02520 162 asnyDEEVEGLKALDKYTLQFKLAKPFPQFIYTLGMPFAYVV--SKEVVAKYGKEFINHPVGTGPYVLPIFDQGKKITYTKNPTFR 245
                              ***************************************999..7999************************************99 PP

                              ...................TTSCSSSSEEEEEE-.SHHHHHHHHHTTSSSEEESTTCCTHCHHHHHTTEEE.......EEEEEEEE CS
                SBP_bac_5 146 ...................gggkpkldriefkvipdsdaraaalqsGeiddvaepppsdieqlkeakglkv.......lyespggg 205
                                                 g+++p +d++++ v+++s+ + ++l++Ge+d+++ p+ +++ ++k++k  +        l  +p++ 
  PHY93_02520|PHY93_02520 246 ekfypsdaspelkhllgdaGKRLPLVDKVIVYVMKESQPAWLKLNKGEVDYYSVPKDNFASAVKNNKLSDElvtkgfvLEIAPQLD 331
                              9999******************************9999999999*****999888888888888888777799************* PP

                              EEEEEETTTSTGGGSHHHHHHHHHHS-HHHHHHHCTTTSSEEESSSSTTTSTTCCSCHCCCSHHSHHHHHHHHHHHTT-BCSSTSC CS
                SBP_bac_5 206 vtylafNtkkppfddkrvRqAlsyAiDreeivkavlegyatpansllppsspgadeeykpaykaydpekAkklLkeaGykdgdggg 291
                              vty afN+++++f +k++RqA+ +A+D  + ++ +++ +a pa+s++pp+++g d +yk++yk   +e+Akk+L+eaGy++g+g  
  PHY93_02520|PHY93_02520 332 VTYTAFNFENKIFHNKKLRQAMYLAYDEGKANTLFYNDTAFPAQSIIPPGIAGVDTNYKNPYKGPKLEEAKKMLAEAGYPGGKG-- 415
                              **************************************************************99******************97.. PP

                              EETCEEEEEEEEETTSHHHHHHHHHHHHHHHHTTEEEEEEEECHHHHHHHHHHCTTESEEEEEEECTTSTTHHHHHHHHSTTC CS
                SBP_bac_5 292 lrekklkltlllasgspaekaiaeliqqqlkkiGikvevktvdwaatylervkdgdfdmillgwgadypdpdnflnpflsssg 374
                                   l+ + +  ++s++++++ e++q+q+++iG+k+++ + +w  +++++vk++ + ++ l+wgadypd++nfl+ f+++++
  PHY93_02520|PHY93_02520 416 -----LPELKYDIPDSTTSRQMGEYFQKQMEQIGVKIKILSSPW-PEFQAKVKKKSVEIYGLAWGADYPDAENFLQLFYGPNK 492
                              .....58999999*******************************.**********************************9875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (583 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       449  (0.0250432); expected 358.6 (0.02)
Passed bias filter:                      383  (0.021362); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.66u 0.26s 00:00:00.92 Elapsed: 00:00:00.46
# Mc/sec: 3792.31
//
Query:       PHY93_02525|PHY93_02525  [L=167]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (167 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       687  (0.0383178); expected 358.6 (0.02)
Passed bias filter:                      509  (0.0283898); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.22s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 1140.54
//
Query:       PHY93_02530|PHY93_02530  [L=614]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    3.4e-34  117.1  12.2    2.6e-06   27.9   0.0    8.0  8  TPR_19      Tetratricopeptide repeat
    2.1e-33  111.7  29.4     0.0021   18.0   0.0   12.1 12  TPR_2       Tetratricopeptide repeat
    6.3e-26   88.8   7.9       0.02   15.7   0.1   11.4 12  TPR_14      Tetratricopeptide repeat
    2.5e-23   80.3  27.6     0.0027   17.8   0.1   11.9 12  TPR_8       Tetratricopeptide repeat
    3.8e-23   81.6  17.1      2e-05   24.8   0.1    9.5  8  TPR_12      Tetratricopeptide repeat
    3.2e-22   78.9   6.4     0.0002   21.9   0.0    6.7  7  TPR_16      Tetratricopeptide repeat
    1.3e-15   56.2  14.3      0.023   14.7   0.0   10.1 12  TPR_7       Tetratricopeptide repeat
    1.3e-15   56.4  31.1     0.0078   16.0   0.0   10.8 10  TPR_1       Tetratricopeptide repeat
    4.2e-15   55.7  23.9     0.0049   17.1   0.0    6.8  7  ANAPC3      Anaphase-promoting complex, cyclosome, subunit 3
    2.1e-13   49.7  11.8     0.0052   16.6   0.0    9.4 10  TPR_10      Tetratricopeptide repeat
    1.1e-12   47.3  10.6       0.08   13.4   0.0    9.1  8  TPR_17      Tetratricopeptide repeat
    1.3e-12   47.5   9.6     0.0037   16.5   0.2    5.1  5  TPR_15      Tetratricopeptide repeat
    1.6e-09   37.8  21.1        1.5    9.6   0.1   10.4  9  TPR_6       Tetratricopeptide repeat
      2e-08   34.2   1.7        1.9    8.7   0.0    7.0  8  TPR_9       Tetratricopeptide repeat
    4.1e-07   29.6  22.9      0.027   14.2   0.0    8.2 10  TPR_11      TPR repeat
    4.1e-05   23.8   4.9        2.5    8.5   0.0    5.6  6  TPR_20      Tetratricopeptide repeat
    4.5e-05   23.2   8.7     0.0022   17.7   0.1    3.9  4  RPN7        26S proteasome subunit RPN7
    0.00074   19.3  19.8     0.0009   19.0   1.4    5.6  5  TPR_21      Tetratricopeptide repeat-like domain
      0.001   19.4   0.0         34    5.5   0.0    4.8  3  TPR_4       Tetratricopeptide repeat
     0.0018   18.4   2.4        7.1    7.1   0.0    6.8  6  PPR         PPR repeat
      0.002   18.6   2.9        0.4   11.2   0.0    4.8  4  DUF4810     Domain of unknown function (DUF4810)
     0.0039   16.6   0.1         13    5.1   0.0    4.8  6  TPR_MalT    MalT-like TPR region
     0.0052   15.6   0.9        2.5    6.8   0.4    3.1  3  PknG_TPR    Protein kinase G tetratricopeptide repeat
  ------ inclusion threshold ------
       0.01   14.9   4.4      0.011   14.8   0.6    2.9  3  SRP68       RNA-binding signal recognition particle 68
      0.013   14.5   0.7      0.075   12.0   0.3    2.2  3  ChAPs       ChAPs (Chs5p-Arf1p-binding proteins)
       0.05   13.7  13.1      0.062   13.4   0.0    6.5  9  Fis1_TPR_C  Fis1 C-terminal tetratricopeptide repeat
       0.27   11.3  13.9        5.5    7.1   0.7    6.3  6  TPR_3       Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.7   0.0   8.9e-09   5.9e-06       4      54 ..      79     129 ..      77     136 .. 0.93
   2 !    8.4   0.1    0.0045         3      24      57 ..     134     167 ..     126     171 .. 0.84
   3 !   18.4   0.4   3.4e-06    0.0023       5      62 ..     149     206 ..     139     209 .. 0.95
   4 !   13.5   0.1   0.00011     0.076       8      58 ..     220     270 ..     214     279 .. 0.92
   5 !   27.9   0.0   3.9e-09   2.6e-06       3      55 ..     319     371 ..     285     377 .. 0.97
   6 !   10.5   0.0   0.00099      0.66      28      61 ..     459     492 ..     435     498 .. 0.73
   7 !   13.6   0.0   0.00011     0.074       4      49 ..     504     549 ..     501     558 .. 0.91
   8 !   15.7   0.2   2.4e-05     0.016       3      57 ..     537     591 ..     536     596 .. 0.94

  Alignments for each domain:
  == domain 1  score: 26.7 bits;  conditional E-value: 8.9e-09
                   TPR_19   4 egdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpee 54 
                              +gdy+ A ++++++ +  p++a+++  L + l+  g+l+eAe++L+++ +e
  PHY93_02530|PHY93_02530  79 RGDYQTATQIFRYVVELQPQDAYLKRKLSIELIRIGELKEAEKILETVFAE 129
                              79*******************************************998655 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.0045
                   TPR_19  24 naearllLAeallalgqldeAealLdalpeedpd 57 
                              ++ + l LA ++ al  +d+A+ + +++ +  +d
  PHY93_02530|PHY93_02530 134 DDSIGLILAGVYAALEKPDQARTTYQKIINTSAD 167
                              56677779********************999888 PP

  == domain 3  score: 18.4 bits;  conditional E-value: 3.4e-06
                   TPR_19   5 gdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeedpddarya 62 
                              +++++A   +++++  +++ +ea l LA+ +   + ++eA alL++  ++ +dd+ ya
  PHY93_02530|PHY93_02530 149 EKPDQARTTYQKIINTSADAEEACLFLAKSYTTEKKYTEAHALLAKCEKKSKDDPVYA 206
                              689***************************************************9996 PP

  == domain 4  score: 13.5 bits;  conditional E-value: 0.00011
                   TPR_19   8 aeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeedpdd 58 
                               eA +++e+ l+ d  ++ a+l+L   + +  +l+ A ++ +a +++d ++
  PHY93_02530|PHY93_02530 220 PEAKKFFEKSLKMDHTYSQAALALGAFYEEKEDLKSAVKTYKAFLAADGNS 270
                              58*****************************************99999995 PP

  == domain 5  score: 27.9 bits;  conditional E-value: 3.9e-09
                   TPR_19   3 aegdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeed 55 
                              ++g+y+eA +l++++l+  p+++ + ++L  +  ++++++eA++  +++p++ 
  PHY93_02530|PHY93_02530 319 DAGRYDEATNLFKEVLTVVPESDKVIYYLGALNQQTNHYQEAIEFFKRIPASS 371
                              68************************************************875 PP

  == domain 6  score: 10.5 bits;  conditional E-value: 0.00099
                   TPR_19  28 rllLAeallalgqldeAealLdalpeedpddary 61 
                               ++LA ++ + gq+ eA++l++ + ++dp++a +
  PHY93_02530|PHY93_02530 459 SYYLASIMEKDGQYLEARKLVQIIIDKDPNNAHA 492
                              3578**************************5544 PP

  == domain 7  score: 13.6 bits;  conditional E-value: 0.00011
                   TPR_19   4 egdyaeAlalleqalqedpknaearllLAeallalgqldeAealLd 49 
                              +++++ A ++ ++a +  p+++++r  LA  ++++g ++eA a  +
  PHY93_02530|PHY93_02530 504 NERLDVAFNYISKAVKLRPEDGYIRDSLAWYYFQTGKYKEALAEAK 549
                              7899*************************************98765 PP

  == domain 8  score: 15.7 bits;  conditional E-value: 2.4e-05
                   TPR_19   3 aegdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeedpd 57 
                              + g+y eAla  ++a++    +  +   L  ++  l+ +d+A++ L +++++++ 
  PHY93_02530|PHY93_02530 537 QTGKYKEALAEAKKAFELVKSDVIITKHLGMIYERLNYFDKAKEFLTEALKQARV 591
                              569***********************************************99875 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.1   0.0     0.021        14       4      34 .]      69      99 ..      66      99 .. 0.90
   2 ?    0.1   0.0       1.8   1.2e+03       6      26 ..     105     125 ..     100     129 .. 0.80
   3 ?    4.7   0.0      0.06        40       7      28 ..     141     162 ..     140     165 .. 0.89
   4 ?    6.1   0.3     0.021        14       2      31 ..     170     199 ..     169     202 .. 0.87
   5 !   18.0   0.0   3.2e-06    0.0021       4      32 ..     206     234 ..     203     236 .. 0.91
   6 ?    4.2   0.4     0.087        58       5      32 ..     241     268 ..     237     270 .. 0.86
   7 !   15.8   0.0   1.7e-05     0.011       6      33 ..     312     339 ..     309     340 .. 0.91
   8 !   12.8   0.1   0.00015       0.1       4      26 ..     344     366 ..     342     367 .. 0.92
   9 !   10.2   0.0    0.0011       0.7       5      34 .]     460     489 ..     459     489 .. 0.96
  10 !   10.3   0.2   0.00091      0.61       1      34 []     490     524 ..     490     524 .. 0.93
  11 !   16.7   0.3   8.7e-06    0.0058       7      31 ..     531     555 ..     527     558 .. 0.91
  12 !   16.6   0.4   8.9e-06    0.0059       7      30 ..     565     588 ..     563     590 .. 0.93

  Alignments for each domain:
  == domain 1  score: 6.1 bits;  conditional E-value: 0.021
                    TPR_2  4 lynlGlayyklgdyeeAleafekAleldPnn 34
                             l+  G+ +  +gdy+ A + f+ ++el P++
  PHY93_02530|PHY93_02530 69 LFIKGNDASIRGDYQTATQIFRYVVELQPQD 99
                             67789999999******************86 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 1.8
                    TPR_2   6 nlGlayyklgdyeeAleafek 26 
                               l   +++ g+++eA++ +e 
  PHY93_02530|PHY93_02530 105 KLSIELIRIGELKEAEKILET 125
                              567778999******998875 PP

  == domain 3  score: 4.7 bits;  conditional E-value: 0.06
                    TPR_2   7 lGlayyklgdyeeAleafekAl 28 
                              l+ +y++l ++++A+  ++k +
  PHY93_02530|PHY93_02530 141 LAGVYAALEKPDQARTTYQKII 162
                              6779***************976 PP

  == domain 4  score: 6.1 bits;  conditional E-value: 0.021
                    TPR_2   2 ealynlGlayyklgdyeeAleafekAleld 31 
                              ea+  l+++y   ++y eA++++ k+ +  
  PHY93_02530|PHY93_02530 170 EACLFLAKSYTTEKKYTEAHALLAKCEKKS 199
                              78999*****************99987765 PP

  == domain 5  score: 18.0 bits;  conditional E-value: 3.2e-06
                    TPR_2   4 lynlGlayyklgdyeeAleafekAleldP 32 
                               +++G++ y++g+  eA+++fek+l+ d 
  PHY93_02530|PHY93_02530 206 AFYRGKIEYERGHKPEAKKFFEKSLKMDH 234
                              69************************985 PP

  == domain 6  score: 4.2 bits;  conditional E-value: 0.087
                    TPR_2   5 ynlGlayyklgdyeeAleafekAleldP 32 
                               +lG  y+++ d++ A++ +++ l+ d 
  PHY93_02530|PHY93_02530 241 LALGAFYEEKEDLKSAVKTYKAFLAADG 268
                              689******************9998775 PP

  == domain 7  score: 15.8 bits;  conditional E-value: 1.7e-05
                    TPR_2   6 nlGlayyklgdyeeAleafekAleldPn 33 
                              +lGl+y  +g+y+eA ++f+++l   P+
  PHY93_02530|PHY93_02530 312 RLGLLYSDAGRYDEATNLFKEVLTVVPE 339
                              89********************987775 PP

  == domain 8  score: 12.8 bits;  conditional E-value: 0.00015
                    TPR_2   4 lynlGlayyklgdyeeAleafek 26 
                               y+lG +  + ++y+eA+e+f++
  PHY93_02530|PHY93_02530 344 IYYLGALNQQTNHYQEAIEFFKR 366
                              69*******************97 PP

  == domain 9  score: 10.2 bits;  conditional E-value: 0.0011
                    TPR_2   5 ynlGlayyklgdyeeAleafekAleldPnn 34 
                              y+l+ + +k g+y eA+++ +  +  dPnn
  PHY93_02530|PHY93_02530 460 YYLASIMEKDGQYLEARKLVQIIIDKDPNN 489
                              89**************************98 PP

  == domain 10  score: 10.3 bits;  conditional E-value: 0.00091
                    TPR_2   1 aealynlGlayyklgdy.eeAleafekAleldPnn 34 
                              a al+ lG++y+++++  + A ++  kA++l P++
  PHY93_02530|PHY93_02530 490 AHALNFLGYSYLEKNERlDVAFNYISKAVKLRPED 524
                              568999*********999***************86 PP

  == domain 11  score: 16.7 bits;  conditional E-value: 8.7e-06
                    TPR_2   7 lGlayyklgdyeeAleafekAleld 31 
                              l++ y++ g+y+eAl+  +kA el 
  PHY93_02530|PHY93_02530 531 LAWYYFQTGKYKEALAEAKKAFELV 555
                              89*******************9996 PP

  == domain 12  score: 16.6 bits;  conditional E-value: 8.9e-06
                    TPR_2   7 lGlayyklgdyeeAleafekAlel 30 
                              lG++y++l+ +++A+e++ +Al+ 
  PHY93_02530|PHY93_02530 565 LGMIYERLNYFDKAKEFLTEALKQ 588
                              9*********************96 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.0       1.9   1.2e+03      14      40 ..      79     105 ..      75     107 .. 0.86
   2 ?    3.1   0.0      0.33   2.2e+02       6      29 ..     105     128 ..      99     136 .. 0.79
   3 !   15.7   0.1     3e-05      0.02       6      43 ..     140     177 ..     138     178 .. 0.95
   4 !    8.3   0.0    0.0068       4.5       5      43 ..     173     211 ..     170     212 .. 0.90
   5 !   11.5   0.2   0.00065      0.43       2      35 ..     238     271 ..     237     280 .. 0.91
   6 !   14.5   0.0   7.5e-05      0.05       4      43 ..     310     349 ..     307     350 .. 0.90
   7 ?    0.2   0.0       2.8   1.8e+03       5      27 ..     345     367 ..     342     374 .. 0.79
   8 ?   -1.0   0.0       6.7   4.5e+03       5      27 ..     426     448 ..     422     456 .. 0.80
   9 !   11.9   0.0   0.00051      0.34       5      42 ..     460     497 ..     459     499 .. 0.92
  10 ?    3.5   0.0      0.25   1.7e+02      10      36 ..     500     526 ..     496     533 .. 0.84
  11 !    9.1   0.0    0.0038       2.5       6      41 ..     530     565 ..     525     568 .. 0.86
  12 ?    6.4   0.0     0.028        19       6      31 ..     564     589 ..     559     599 .. 0.89

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 1.9
                   TPR_14  14 lGdpdeAiallrralalaPddaeawll 40 
                              +Gd+++A +++r +++l+P+da + + 
  PHY93_02530|PHY93_02530  79 RGDYQTATQIFRYVVELQPQDAYLKRK 105
                              79******************9987765 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.33
                   TPR_14   6 alaeallalGdpdeAiallrrala 29 
                              +l   l + G+++eA+++l+ + a
  PHY93_02530|PHY93_02530 105 KLSIELIRIGELKEAEKILETVFA 128
                              555668899**********98765 PP

  == domain 3  score: 15.7 bits;  conditional E-value: 3e-05
                   TPR_14   6 alaeallalGdpdeAiallrralalaPddaeawlllaq 43 
                               la +++al++pd+A++ +++++ +  d +ea l+la+
  PHY93_02530|PHY93_02530 140 ILAGVYAALEKPDQARTTYQKIINTSADAEEACLFLAK 177
                              699*********************************97 PP

  == domain 4  score: 8.3 bits;  conditional E-value: 0.0068
                   TPR_14   5 lalaeallalGdpdeAiallrralalaPddaeawlllaq 43 
                              l la+ + +  ++ eA all ++ ++  dd+++ ++ ++
  PHY93_02530|PHY93_02530 173 LFLAKSYTTEKKYTEAHALLAKCEKKSKDDPVYAFYRGK 211
                              669999*************************99988776 PP

  == domain 5  score: 11.5 bits;  conditional E-value: 0.00065
                   TPR_14   2 eallalaeallalGdpdeAiallrralalaPdda 35 
                              +a lal++++++ +d++ A++ +++ la++ ++a
  PHY93_02530|PHY93_02530 238 QAALALGAFYEEKEDLKSAVKTYKAFLAADGNSA 271
                              5889************************998876 PP

  == domain 6  score: 14.5 bits;  conditional E-value: 7.5e-05
                   TPR_14   4 llalaeallalGdpdeAiallrralalaPddaeawlllaq 43 
                                +l+ ++  +G++deA +l++++l   P+++ + ++l+ 
  PHY93_02530|PHY93_02530 310 KVRLGLLYSDAGRYDEATNLFKEVLTVVPESDKVIYYLGA 349
                              568999*************************999999986 PP

  == domain 7  score: 0.2 bits;  conditional E-value: 2.8
                   TPR_14   5 lalaeallalGdpdeAiallrra 27 
                              + l+++  +   ++eAi+ ++r+
  PHY93_02530|PHY93_02530 345 YYLGALNQQTNHYQEAIEFFKRI 367
                              5667777788999*******997 PP

  == domain 8  score: -1.0 bits;  conditional E-value: 6.7
                   TPR_14   5 lalaeallalGdpdeAiallrra 27 
                              ++ a++++   ++++Ai++ +++
  PHY93_02530|PHY93_02530 426 MLQASFFEDTFQYKTAIQVMNDV 448
                              56799999999******998876 PP

  == domain 9  score: 11.9 bits;  conditional E-value: 0.00051
                   TPR_14   5 lalaeallalGdpdeAiallrralalaPddaeawllla 42 
                              + la++++  G++ eA++l + +++++P++a a+ +l+
  PHY93_02530|PHY93_02530 460 YYLASIMEKDGQYLEARKLVQIIIDKDPNNAHALNFLG 497
                              679****************************9987776 PP

  == domain 10  score: 3.5 bits;  conditional E-value: 0.25
                   TPR_14  10 allalGdpdeAiallrralalaPddae 36 
                              +l+ ++++d A ++  +a++l P+d  
  PHY93_02530|PHY93_02530 500 YLEKNERLDVAFNYISKAVKLRPEDGY 526
                              678899*****************9865 PP

  == domain 11  score: 9.1 bits;  conditional E-value: 0.0038
                   TPR_14   6 alaeallalGdpdeAiallrralalaPddaeawlll 41 
                               la+++++ G+++eA+a +++a +l  +d  +  +l
  PHY93_02530|PHY93_02530 530 SLAWYYFQTGKYKEALAEAKKAFELVKSDVIITKHL 565
                              69********************99988887776666 PP

  == domain 12  score: 6.4 bits;  conditional E-value: 0.028
                   TPR_14   6 alaeallalGdpdeAiallrralala 31 
                               l+ ++++l  +d+A + l +al++a
  PHY93_02530|PHY93_02530 564 HLGMIYERLNYFDKAKEFLTEALKQA 589
                              68999******************985 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.0      0.73   4.9e+02      15      34 .]      80      99 ..      76      99 .. 0.92
   2 ?    0.0   0.0         2   1.3e+03      11      26 ..     110     125 ..     105     127 .. 0.83
   3 ?    4.4   0.0      0.08        53       7      29 ..     141     163 ..     139     167 .. 0.87
   4 ?    5.2   0.6     0.043        29       2      27 ..     170     195 ..     169     201 .. 0.91
   5 ?    6.5   0.0     0.016        11      14      31 ..     216     233 ..     209     235 .. 0.80
   6 !    8.2   0.4     0.005       3.3       3      31 ..     239     267 ..     237     270 .. 0.85
   7 !   13.2   0.0   0.00012      0.08       5      29 ..     311     335 ..     307     339 .. 0.90
   8 ?    5.8   0.1     0.028        19       7      26 ..     347     366 ..     342     367 .. 0.86
   9 ?   -2.0   0.0       8.9   5.9e+03       7      25 ..     428     446 ..     423     448 .. 0.81
  10 !   13.4   0.1   0.00011     0.071       1      34 []     490     524 ..     490     524 .. 0.94
  11 !   11.5   0.4   0.00041      0.27       7      30 ..     531     554 ..     528     557 .. 0.94
  12 !   17.8   0.1   4.1e-06    0.0027       7      30 ..     565     588 ..     564     591 .. 0.92

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.73
                             T-HHHHHHHHHHHHHHHHH. CS
                    TPR_8 15 gdyeeAkeyyekaleldpdn 34
                             gdy+ A + ++ ++el+p++
  PHY93_02530|PHY93_02530 80 GDYQTATQIFRYVVELQPQD 99
                             9*****************86 PP

  == domain 2  score: 0.0 bits;  conditional E-value: 2
                              HHHTT-HHHHHHHHHH CS
                    TPR_8  11 ylklgdyeeAkeyyek 26 
                              ++  g+++eA++ +e 
  PHY93_02530|PHY93_02530 110 LIRIGELKEAEKILET 125
                              57889*******9996 PP

  == domain 3  score: 4.4 bits;  conditional E-value: 0.08
                              HHHHHHHTT-HHHHHHHHHHHHH CS
                    TPR_8   7 lgsiylklgdyeeAkeyyekale 29 
                              l+ +y  l++ ++A  +y+k + 
  PHY93_02530|PHY93_02530 141 LAGVYAALEKPDQARTTYQKIIN 163
                              6779****************886 PP

  == domain 4  score: 5.2 bits;  conditional E-value: 0.043
                              CHHHHHHHHHHHTT-HHHHHHHHHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeAkeyyeka 27 
                              ea++ l++ y + ++y eA + + k+
  PHY93_02530|PHY93_02530 170 EACLFLAKSYTTEKKYTEAHALLAKC 195
                              799****************9999888 PP

  == domain 5  score: 6.5 bits;  conditional E-value: 0.016
                              TT-HHHHHHHHHHHHHHH CS
                    TPR_8  14 lgdyeeAkeyyekaleld 31 
                               g + eAk+++ek l++d
  PHY93_02530|PHY93_02530 216 RGHKPEAKKFFEKSLKMD 233
                              566669**********98 PP

  == domain 6  score: 8.2 bits;  conditional E-value: 0.005
                              HHHHHHHHHHHTT-HHHHHHHHHHHHHHH CS
                    TPR_8   3 ayynlgsiylklgdyeeAkeyyekaleld 31 
                              a + lg  y++++d+++A+++y+  l +d
  PHY93_02530|PHY93_02530 239 AALALGAFYEEKEDLKSAVKTYKAFLAAD 267
                              6678999***************9988766 PP

  == domain 7  score: 13.2 bits;  conditional E-value: 0.00012
                              HHHHHHHHHTT-HHHHHHHHHHHHH CS
                    TPR_8   5 ynlgsiylklgdyeeAkeyyekale 29 
                              ++lg++y++ g+y+eA   ++++l+
  PHY93_02530|PHY93_02530 311 VRLGLLYSDAGRYDEATNLFKEVLT 335
                              68*******************9986 PP

  == domain 8  score: 5.8 bits;  conditional E-value: 0.028
                              HHHHHHHTT-HHHHHHHHHH CS
                    TPR_8   7 lgsiylklgdyeeAkeyyek 26 
                              lg + ++++ y+eA+e++++
  PHY93_02530|PHY93_02530 347 LGALNQQTNHYQEAIEFFKR 366
                              6778899***********96 PP

  == domain 9  score: -2.0 bits;  conditional E-value: 8.9
                              HHHHHHHTT-HHHHHHHHH CS
                    TPR_8   7 lgsiylklgdyeeAkeyye 25 
                               +s  +++ +y+ A+++++
  PHY93_02530|PHY93_02530 428 QASFFEDTFQYKTAIQVMN 446
                              6788889999****99886 PP

  == domain 10  score: 13.4 bits;  conditional E-value: 0.00011
                              CCHHHHHHHHH.HHTT-HHHHHHHHHHHHHHHHH. CS
                    TPR_8   1 aeayynlgsiy.lklgdyeeAkeyyekaleldpdn 34 
                              a+a++ lg+ y +k ++++ A  y+ ka++l+p++
  PHY93_02530|PHY93_02530 490 AHALNFLGYSYlEKNERLDVAFNYISKAVKLRPED 524
                              6899****9999*********************85 PP

  == domain 11  score: 11.5 bits;  conditional E-value: 0.00041
                              HHHHHHHTT-HHHHHHHHHHHHHH CS
                    TPR_8   7 lgsiylklgdyeeAkeyyekalel 30 
                              l++ y+++g+y+eA +  +ka el
  PHY93_02530|PHY93_02530 531 LAWYYFQTGKYKEALAEAKKAFEL 554
                              899******************987 PP

  == domain 12  score: 17.8 bits;  conditional E-value: 4.1e-06
                              HHHHHHHTT-HHHHHHHHHHHHHH CS
                    TPR_8   7 lgsiylklgdyeeAkeyyekalel 30 
                              lg+iy+ l+ +++Ake++ +al+ 
  PHY93_02530|PHY93_02530 565 LGMIYERLNYFDKAKEFLTEALKQ 588
                              9*********************85 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.5   0.0     0.032        22       8      71 ..      64     126 ..      55     128 .. 0.87
   2 !    9.4   0.3     0.002       1.3       9      69 ..     141     193 ..     135     197 .. 0.71
   3 !    9.2   0.0    0.0022       1.5       9      74 ..     175     232 ..     169     235 .. 0.79
   4 ?    1.4   0.1      0.62   4.1e+02       6      28 ..     240     262 ..     235     270 .. 0.64
   5 !   24.8   0.1   3.1e-08     2e-05       5      70 ..     309     366 ..     305     367 .. 0.89
   6 !    8.5   0.1    0.0036       2.4       8      76 ..     461     522 ..     455     523 .. 0.81
   7 !   19.3   0.6   1.5e-06     0.001       3      76 ..     490     556 ..     488     557 .. 0.87
   8 !   11.2   0.0   0.00052      0.35       5      49 ..     562     603 ..     558     609 .. 0.77

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.032
                   TPR_12   8 nlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleea 71 
                               la+ l+  g+ +  +  +++a +i+r +  +  p+ a   r L++ + + g+++eA+++le +
  PHY93_02530|PHY93_02530  64 YLATDLFIKGNDASIRGDYQTATQIFRYVV-ELQPQDAYLKRKLSIELIRIGELKEAEKILETV 126
                              589999999999999999999999998775.5689999999******************99976 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.002
                   TPR_12   9 laavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelle 69 
                              la v+++l++ d+A++ ++k ++        d   + ++   L+  y   ++y eA++ll 
  PHY93_02530|PHY93_02530 141 LAGVYAALEKPDQARTTYQKIINTS-----AD---AEEACLFLAKSYTTEKKYTEAHALLA 193
                              899*****************97777.....33...22344556666666666666666665 PP

  == domain 3  score: 9.2 bits;  conditional E-value: 0.0022
                   TPR_12   9 laavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleealai 74 
                              la  ++  ++y+eA +ll k+    ++   +d      + +  g + +++g+  eA +++e++l++
  PHY93_02530|PHY93_02530 175 LAKSYTTEKKYTEAHALLAKC----EKK-SKDD---PVYAFYRGKIEYERGHKPEAKKFFEKSLKM 232
                              788888888888888888888....333.2554...55789999********************98 PP

  == domain 4  score: 1.4 bits;  conditional E-value: 0.62
                   TPR_12   6 lnnlaavlrrlgrydeAlellek 28 
                              +  l+a++ + +++  A + +++
  PHY93_02530|PHY93_02530 240 ALALGAFYEEKEDLKSAVKTYKA 262
                              33677777777777777776665 PP

  == domain 5  score: 24.8 bits;  conditional E-value: 3.1e-08
                   TPR_12   5 alnnlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlellee 70 
                              + ++l++++  +grydeA  l++++l ++   ++ d+     + + Lg l +++++y+eA+e++++
  PHY93_02530|PHY93_02530 309 LKVRLGLLYSDAGRYDEATNLFKEVLTVV---PESDK-----VIYYLGALNQQTNHYQEAIEFFKR 366
                              5568*************************...44554.....7899******************98 PP

  == domain 6  score: 8.5 bits;  conditional E-value: 0.0036
                   TPR_12   8 nlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyr.algryeeAlelleealaiae 76 
                               la++  + g+y eA++l +     +     ++ p+ a +l+ Lg  y+ + +r++ A ++  +a+++++
  PHY93_02530|PHY93_02530 461 YLASIMEKDGQYLEARKLVQII---I-----DKDPNNAHALNFLGYSYLeKNERLDVAFNYISKAVKLRP 522
                              6888889999999998888877...3.....667788**********96377*******99999998876 PP

  == domain 7  score: 19.3 bits;  conditional E-value: 1.5e-06
                   TPR_12   3 atalnnlaavl.rrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleealaiae 76 
                              a aln l+  +  + +r+d A+ +  ka+ ++     p+      ++  L+++y+++g+y+eAl+  ++a ++ +
  PHY93_02530|PHY93_02530 490 AHALNFLGYSYlEKNERLDVAFNYISKAVKLR-----PED---GYIRDSLAWYYFQTGKYKEALAEAKKAFELVK 556
                              56887799999566999***********9999.....543...4499***********************99976 PP

  == domain 8  score: 11.2 bits;  conditional E-value: 0.00052
                   TPR_12   5 alnnlaavlrrlgrydeAlellekaleiarrllGpdhpltattlr 49 
                              +  +l++++ rl  +d+A e+l +al +ar     d+++++ +l 
  PHY93_02530|PHY93_02530 562 TK-HLGMIYERLNYFDKAKEFLTEALKQARVE--ADKEDVLKILS 603
                              34.79999999999999999999999999777..77777776665 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.3   0.0      0.42   2.8e+02      10      54 ..      79     120 ..      72     135 .. 0.78
   2 !    8.4   0.1    0.0052       3.4       3      59 ..     141     194 ..     139     203 .. 0.89
   3 !    9.8   0.0    0.0019       1.3       4      62 ..     176     231 ..     173     240 .. 0.88
   4 !   10.8   0.2    0.0009      0.59       4      66 ..     210     269 ..     209     271 .. 0.91
   5 !   21.9   0.0     3e-07    0.0002       3      60 ..     313     367 ..     311     372 .. 0.94
   6 !   19.6   0.0   1.6e-06     0.001       9      65 ..     468     522 ..     462     524 .. 0.86
   7 !   12.5   0.1   0.00028      0.18       3      64 ..     531     589 ..     530     593 .. 0.93

  Alignments for each domain:
  == domain 1  score: 2.3 bits;  conditional E-value: 0.42
                   TPR_16  10 agdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAa 54 
                              +gdy+ A   ++ +++++   P++a     l   + r g+l+eA+
  PHY93_02530|PHY93_02530  79 RGDYQTATQIFRYVVELQ---PQDAYLKRKLSIELIRIGELKEAE 120
                              799999999999999999...998877777777777778888777 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.0052
                   TPR_16   3 laraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyra 59 
                              la  ++++ ++d+A+  ++  +       da eA l+l+ ++   + ++eA al+++
  PHY93_02530|PHY93_02530 141 LAGVYAALEKPDQARTTYQKIINTS---ADAEEACLFLAKSYTTEKKYTEAHALLAK 194
                              6899*********************...99999******************887765 PP

  == domain 3  score: 9.8 bits;  conditional E-value: 0.0019
                   TPR_16   4 araalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraalr 62 
                              a+++   ++y++A a+l    k+ +++P+    ++++g + +++g  +eA  ++++ l+
  PHY93_02530|PHY93_02530 176 AKSYTTEKKYTEAHALLAKCEKKSKDDPV---YAFYRGKIEYERGHKPEAKKFFEKSLK 231
                              666667789********************...*****************9888888774 PP

  == domain 4  score: 10.8 bits;  conditional E-value: 0.0009
                   TPR_16   4 araalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraalraapd 66 
                              +++ +++g+ ++A + +e  lk+d       +A+l+lg  + ++ +l+ A+  y+a l+a+ +
  PHY93_02530|PHY93_02530 210 GKIEYERGHKPEAKKFFEKSLKMD---HTYSQAALALGAFYEEKEDLKSAVKTYKAFLAADGN 269
                              778999******************...8899*************************9987765 PP

  == domain 5  score: 21.9 bits;  conditional E-value: 3e-07
                   TPR_16   3 laraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraa 60 
                              l++++ +ag+yd+A ++++++l      P+     ++lg +  + + ++eA++++++ 
  PHY93_02530|PHY93_02530 313 LGLLYSDAGRYDEATNLFKEVLTVV---PESDKVIYYLGALNQQTNHYQEAIEFFKRI 367
                              899**********************...***************************996 PP

  == domain 6  score: 19.6 bits;  conditional E-value: 1.6e-06
                   TPR_16   9 ragdyddAaaaleaalkrdpssPdaaeAllllgdaal.rqgrlaeAaalyraalraap 65 
                              + g+y +A+++ ++ +++d   P +a+Al++lg ++l ++ rl+ A  ++ +a++  p
  PHY93_02530|PHY93_02530 468 KDGQYLEARKLVQIIIDKD---PNNAHALNFLGYSYLeKNERLDVAFNYISKAVKLRP 522
                              5799***************...***************555888888888887777776 PP

  == domain 7  score: 12.5 bits;  conditional E-value: 0.00028
                   TPR_16   3 laraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraalraa 64 
                              la ++++ g+y +A+a ++ a ++      ++    +lg ++ r++ +++A +++ +al++a
  PHY93_02530|PHY93_02530 531 LAWYYFQTGKYKEALAEAKKAFELV---KSDVIITKHLGMIYERLNYFDKAKEFLTEALKQA 589
                              899**********************...99999*************9999999999999876 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.0   0.0       1.7   1.1e+03      12      34 ..      79      99 ..      77     101 .. 0.82
   2 ?   -1.1   0.0       3.9   2.6e+03      11      29 ..     112     128 ..     110     135 .. 0.81
   3 ?    2.3   0.0      0.31   2.1e+02       5      25 ..     141     161 ..     139     171 .. 0.84
   4 ?   -2.3   0.0       9.3   6.2e+03       1      18 [.     171     188 ..     171     194 .. 0.83
   5 ?    0.0   0.0       1.7   1.1e+03      13      29 ..     217     233 ..     210     238 .. 0.83
   6 ?    5.8   0.0     0.025        16       3      27 ..     241     265 ..     239     274 .. 0.89
   7 !   14.7   0.0   3.4e-05     0.023       4      30 ..     312     336 ..     309     342 .. 0.83
   8 !   10.2   0.0   0.00098      0.65       3      24 ..     345     366 ..     343     395 .. 0.75
   9 ?   -2.3   0.0       9.4   6.3e+03       6      20 ..     429     443 ..     428     444 .. 0.84
  10 ?   -1.4   0.0       4.9   3.3e+03       4      31 ..     461     486 ..     459     490 .. 0.72
  11 ?    5.3   0.0     0.035        23       4      20 ..     530     546 ..     529     558 .. 0.83
  12 !   14.3   0.1   4.8e-05     0.032       5      27 ..     565     588 ..     563     598 .. 0.81

  Alignments for each domain:
  == domain 1  score: 0.0 bits;  conditional E-value: 1.7
                    TPR_7 12 lGdyeeAielyeqsLaltkdped 34
                             +Gdy++A ++++   +++ +p+d
  PHY93_02530|PHY93_02530 79 RGDYQTATQIFRY--VVELQPQD 99
                             59*****999998..77777776 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 3.9
                    TPR_7  11 rlGdyeeAielyeqsLalt 29 
                              r G+ +eA++++e   +++
  PHY93_02530|PHY93_02530 112 RIGELKEAEKILET--VFA 128
                              67999******998..655 PP

  == domain 3  score: 2.3 bits;  conditional E-value: 0.31
                    TPR_7   5 LarlysrlGdyeeAielyeqs 25 
                              La +y +l + ++A + y++ 
  PHY93_02530|PHY93_02530 141 LAGVYAALEKPDQARTTYQKI 161
                              8999**************995 PP

  == domain 4  score: -2.3 bits;  conditional E-value: 9.3
                    TPR_7   1 aLlnLarlysrlGdyeeA 18 
                              a+l La  y  + +y eA
  PHY93_02530|PHY93_02530 171 ACLFLAKSYTTEKKYTEA 188
                              789999999988888887 PP

  == domain 5  score: 0.0 bits;  conditional E-value: 1.7
                    TPR_7  13 GdyeeAielyeqsLalt 29 
                              G+  eA +++e+sL ++
  PHY93_02530|PHY93_02530 217 GHKPEAKKFFEKSLKMD 233
                              7777999*****99887 PP

  == domain 6  score: 5.8 bits;  conditional E-value: 0.025
                    TPR_7   3 lnLarlysrlGdyeeAielyeqsLa 27 
                              l+L+  y++  d + A++ y++ La
  PHY93_02530|PHY93_02530 241 LALGAFYEEKEDLKSAVKTYKAFLA 265
                              79*******************9776 PP

  == domain 7  score: 14.7 bits;  conditional E-value: 3.4e-05
                    TPR_7   4 nLarlysrlGdyeeAielyeqsLaltk 30 
                              +L+ lys+ G+y+eA  l+++  +lt 
  PHY93_02530|PHY93_02530 312 RLGLLYSDAGRYDEATNLFKE--VLTV 336
                              79*******************..5554 PP

  == domain 8  score: 10.2 bits;  conditional E-value: 0.00098
                    TPR_7   3 lnLarlysrlGdyeeAielyeq 24 
                              ++L+ l ++ ++y+eAie++++
  PHY93_02530|PHY93_02530 345 YYLGALNQQTNHYQEAIEFFKR 366
                              688888899************9 PP

  == domain 9  score: -2.3 bits;  conditional E-value: 9.4
                    TPR_7   6 arlysrlGdyeeAie 20 
                              a+ +++  +y++Ai+
  PHY93_02530|PHY93_02530 429 ASFFEDTFQYKTAIQ 443
                              678899999****97 PP

  == domain 10  score: -1.4 bits;  conditional E-value: 4.9
                    TPR_7   4 nLarlysrlGdyeeAielyeqsLaltkd 31 
                              +La++ +++G+y eA +l +    ++kd
  PHY93_02530|PHY93_02530 461 YLASIMEKDGQYLEARKLVQI--IIDKD 486
                              799999999999888776555..55555 PP

  == domain 11  score: 5.3 bits;  conditional E-value: 0.035
                    TPR_7   4 nLarlysrlGdyeeAie 20 
                               La  y++ G+y+eA+ 
  PHY93_02530|PHY93_02530 530 SLAWYYFQTGKYKEALA 546
                              699************86 PP

  == domain 12  score: 14.3 bits;  conditional E-value: 4.8e-05
                    TPR_7   5 LarlysrlGdyeeAielyeqsL.a 27 
                              L+ +y+rl+++++A e+++++L +
  PHY93_02530|PHY93_02530 565 LGMIYERLNYFDKAKEFLTEALkQ 588
                              99******************7733 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   0.0     0.082        54       7      34 .]      72      99 ..      69      99 .. 0.89
   2 ?    4.7   0.0     0.044        29       8      28 ..     142     162 ..     140     163 .. 0.88
   3 ?    0.6   0.1      0.87   5.8e+02       3      20 ..     171     188 ..     170     195 .. 0.84
   4 !   10.4   0.1   0.00067      0.44       6      34 .]     208     236 ..     206     236 .. 0.93
   5 ?    1.1   0.4      0.58   3.8e+02       7      25 ..     243     261 ..     238     262 .. 0.91
   6 !   16.0   0.0   1.2e-05    0.0078       6      32 ..     312     338 ..     309     340 .. 0.92
   7 !   11.3   0.2   0.00037      0.24       5      26 ..     345     366 ..     342     367 .. 0.92
   8 ?    1.2   0.1      0.54   3.6e+02      16      33 ..     506     523 ..     490     524 .. 0.66
   9 !    9.8   0.3    0.0011      0.73       7      30 ..     531     554 ..     530     558 .. 0.89
  10 !   10.0   0.4   0.00093      0.62       6      30 ..     564     588 ..     563     590 .. 0.93

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.082
                             HHHHHHHTT-HHHHHHHHHHHHHHSTTH CS
                    TPR_1  7 lGnayfklgkydeAleyyekALelnPnn 34
                             +Gn     g+y+ A + ++ ++el+P++
  PHY93_02530|PHY93_02530 72 KGNDASIRGDYQTATQIFRYVVELQPQD 99
                             68888889******************86 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.044
                              HHHHHHTT-HHHHHHHHHHHH CS
                    TPR_1   8 GnayfklgkydeAleyyekAL 28 
                              + +y  l+k+d+A   y+k +
  PHY93_02530|PHY93_02530 142 AGVYAALEKPDQARTTYQKII 162
                              558***************975 PP

  == domain 3  score: 0.6 bits;  conditional E-value: 0.87
                              HHHHHHHHHHHTT-HHHH CS
                    TPR_1   3 alynlGnayfklgkydeA 20 
                              a+  l+  y   +ky eA
  PHY93_02530|PHY93_02530 171 ACLFLAKSYTTEKKYTEA 188
                              6677999**********9 PP

  == domain 4  score: 10.4 bits;  conditional E-value: 0.00067
                              HHHHHHHHTT-HHHHHHHHHHHHHHSTTH CS
                    TPR_1   6 nlGnayfklgkydeAleyyekALelnPnn 34 
                               +G + ++ g   eA +++ek L+ ++++
  PHY93_02530|PHY93_02530 208 YRGKIEYERGHKPEAKKFFEKSLKMDHTY 236
                              699999*******************9986 PP

  == domain 5  score: 1.1 bits;  conditional E-value: 0.58
                              HHHHHHHTT-HHHHHHHHH CS
                    TPR_1   7 lGnayfklgkydeAleyye 25 
                              lG+ y ++++++ A++ y+
  PHY93_02530|PHY93_02530 243 LGAFYEEKEDLKSAVKTYK 261
                              8999************997 PP

  == domain 6  score: 16.0 bits;  conditional E-value: 1.2e-05
                              HHHHHHHHTT-HHHHHHHHHHHHHHST CS
                    TPR_1   6 nlGnayfklgkydeAleyyekALelnP 32 
                              +lG++y   g+ydeA   ++++L++ P
  PHY93_02530|PHY93_02530 312 RLGLLYSDAGRYDEATNLFKEVLTVVP 338
                              8**********************9876 PP

  == domain 7  score: 11.3 bits;  conditional E-value: 0.00037
                              HHHHHHHHHTT-HHHHHHHHHH CS
                    TPR_1   5 ynlGnayfklgkydeAleyyek 26 
                              y lG++ ++ + y+eA+e++++
  PHY93_02530|PHY93_02530 345 YYLGALNQQTNHYQEAIEFFKR 366
                              99******************98 PP

  == domain 8  score: 1.2 bits;  conditional E-value: 0.54
                              -HHHHHHHHHHHHHHSTT CS
                    TPR_1  16 kydeAleyyekALelnPn 33 
                              ++d A  y +kA++l+P+
  PHY93_02530|PHY93_02530 506 RLDVAFNYISKAVKLRPE 523
                              444466777888888887 PP

  == domain 9  score: 9.8 bits;  conditional E-value: 0.0011
                              HHHHHHHTT-HHHHHHHHHHHHHH CS
                    TPR_1   7 lGnayfklgkydeAleyyekALel 30 
                              l+  yf+ gky+eAl+  +kA el
  PHY93_02530|PHY93_02530 531 LAWYYFQTGKYKEALAEAKKAFEL 554
                              7899***********999999887 PP

  == domain 10  score: 10.0 bits;  conditional E-value: 0.00093
                              HHHHHHHHTT-HHHHHHHHHHHHHH CS
                    TPR_1   6 nlGnayfklgkydeAleyyekALel 30 
                               lG++y +l+ +d+A e+  +AL+ 
  PHY93_02530|PHY93_02530 564 HLGMIYERLNYFDKAKEFLTEALKQ 588
                              69*********************95 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.3   0.0    0.0085       5.6      25      81 ..      68     125 ..      49     126 .. 0.82
   2 !   10.4   0.0   0.00091       0.6       4      81 ..      81     160 ..      79     161 .. 0.72
   3 !   13.1   2.2   0.00013     0.087      14      80 ..     160     227 ..     156     229 .. 0.73
   4 ?    1.1   0.2      0.68   4.5e+02      10      53 ..     224     268 ..     215     278 .. 0.79
   5 !   17.1   0.0   7.4e-06    0.0049      11      81 ..     295     366 ..     286     367 .. 0.84
   6 !   15.1   0.5   3.1e-05     0.021       1      80 [.     434     515 ..     434     517 .. 0.89
   7 !   12.0   0.5   0.00027      0.18       7      56 ..     509     559 ..     503     585 .. 0.69

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0085
                              HHHHHHHHHHHTT-HHHHHHHHHCTSHHHC-HHHHHHHHHHHHHT...T-HHHHHHHH-S CS
                   ANAPC3  25 dayllAlclylngqykrAyellrkaklnskslgcrylfAqcllkL...kkyeeAiaaLek 81 
                              d++ ++     +g+y++A +++r     +  ++ +yl+ + +++L   ++++eA+++Le 
  PHY93_02530|PHY93_02530  68 DLFIKGNDASIRGDYQTATQIFRYV--VELQPQDAYLKRKLSIELiriGELKEAEKILET 125
                              5566666666689************..66677789*******999999*********985 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 0.00091
                              -HHHHHHHHHHHH.HHH--HHHHHH...HHHHHHHTT-HHHHHHHHHCT..SHHHC-HHHHHHHHHHHHHTT-HHHHHHHH-S CS
                   ANAPC3   4 nyknAiflaerllaaetespedayl...lAlclylngqykrAyellrka..klnskslgcrylfAqcllkLkkyeeAiaaLek 81 
                              +y++A  ++  ++      p+dayl   l+  l + g+ k+A ++l++   ++ s++  + +++A ++ +L+k ++A+++++k
  PHY93_02530|PHY93_02530  81 DYQTATQIFRYVV---ELQPQDAYLkrkLSIELIRIGELKEAEKILETVfaESHSRDDSIGLILAGVYAALEKPDQARTTYQK 160
                              5666666666666...4445666663334777888899999999999995334444449999999999999999999999987 PP

  == domain 3  score: 13.1 bits;  conditional E-value: 0.00013
                              HHH.HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-HHHHHHHHHHHHHTT-HHHHHHHH- CS
                   ANAPC3  14 rllaaetespedayllAlclylngqykrAyellrka.klnskslgcrylfAqcllkLkkyeeAiaaLe 80 
                              ++ +++++ +e+ ++lA+++   ++y++A+ ll k+ k+ + ++ +++  ++  ++ ++  eA + +e
  PHY93_02530|PHY93_02530 160 KIINTSADAEEACLFLAKSYTTEKKYTEAHALLAKCeKKSKDDPVYAFYRGKIEYERGHKPEAKKFFE 227
                              6666788889999999********************55555555555555565555577666666655 PP

  == domain 4  score: 1.1 bits;  conditional E-value: 0.68
                              HHHHHHH.HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCT.SHHH CS
                   ANAPC3  10 flaerllaaetespedayllAlclylngqykrAyellrka.klns 53 
                               ++e+ l++++  +++a++l+  + + ++ k+A + ++ +   ++
  PHY93_02530|PHY93_02530 224 KFFEKSLKMDHTYSQAALALGAFYEEKEDLKSAVKTYKAFlAADG 268
                              678888888888888899999999999999999999998855444 PP

  == domain 5  score: 17.1 bits;  conditional E-value: 7.4e-06
                              HHHHHH.HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-HHHHHHHHHHHHHTT-HHHHHHHH-S CS
                   ANAPC3  11 laerllaaetespedayllAlclylngqykrAyellrka.klnskslgcrylfAqcllkLkkyeeAiaaLek 81 
                              +ae l + ++ +++    l+l +  +g+y++A +l+++     ++s ++ y ++    + ++y+eAi  +++
  PHY93_02530|PHY93_02530 295 YAEALSSIDNTDLNLKVRLGLLYSDAGRYDEATNLFKEVlTVVPESDKVIYYLGALNQQTNHYQEAIEFFKR 366
                              6677775555555555568************************************************98875 PP

  == domain 6  score: 15.1 bits;  conditional E-value: 3.1e-05
                              HTT-HHHHHHHHHHHH.HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-HHHHHHHHHHHH.HTT-HHHHHHHH- CS
                   ANAPC3   1 dqnnyknAiflaerllaaetespedayllAlclylngqykrAyellrka.klnskslgcrylfAqcll.kLkkyeeAiaaLe 80 
                              d+++yk+Ai + + + + ++  ++++y+lA  + ++gqy +A +l++   ++++++  ++  ++ ++l k ++++ A + ++
  PHY93_02530|PHY93_02530 434 DTFQYKTAIQVMNDVKTHKNFTESHSYYLASIMEKDGQYLEARKLVQIIiDKDPNNAHALNFLGYSYLeKNERLDVAFNYIS 515
                              5789************888888888************************9******99999999999977788888877666 PP

  == domain 7  score: 12.0 bits;  conditional E-value: 0.00027
                              HHHHHHHHHH.HHH--HHHHHH...HHHHHHHTT-HHHHHHHHHCT.SHHHC-H CS
                   ANAPC3   7 nAiflaerllaaetespedayl...lAlclylngqykrAyellrka.klnsksl 56 
                               A  ++++++   + +ped y    lA  ++++g+yk+A+  ++ka +l +++ 
  PHY93_02530|PHY93_02530 509 VAFNYISKAV---KLRPEDGYIrdsLAWYYFQTGKYKEALAEAKKAfELVKSDV 559
                              5556666666...5556666665559******************9966665555 PP

>> TPR_10  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0       5.8   3.9e+03      11      26 ..      75      90 ..      73      95 .. 0.79
   2 ?    3.3   0.0      0.12        83      10      29 ..     108     127 ..     104     130 .. 0.81
   3 ?    1.4   0.0      0.49   3.3e+02       8      31 ..     141     164 ..     141     168 .. 0.89
   4 ?    2.5   0.0      0.22   1.4e+02       8      28 ..     175     195 ..     171     195 .. 0.90
   5 ?    2.4   0.0      0.23   1.5e+02      12      31 ..     213     232 ..     210     234 .. 0.88
   6 !   16.6   0.0   7.8e-06    0.0052       8      30 ..     313     335 ..     311     336 .. 0.94
   7 ?    2.3   0.1      0.25   1.7e+02       8      27 ..     347     366 ..     344     367 .. 0.86
   8 ?   -1.5   0.1       3.9   2.6e+03       2      29 ..     490     518 ..     490     521 .. 0.67
   9 !   14.4   0.0   3.8e-05     0.025       6      30 ..     529     553 ..     526     556 .. 0.90
  10 ?    2.9   0.0      0.16   1.1e+02       7      29 ..     564     586 ..     564     587 .. 0.93

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 5.8
                   TPR_10 11 alrqrgrydeAealle 26
                               + rg+y+ A ++++
  PHY93_02530|PHY93_02530 75 DASIRGDYQTATQIFR 90
                             55679****9999987 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.12
                   TPR_10  10 nalrqrgrydeAealleeal 29 
                              + l + g+++eAe++le + 
  PHY93_02530|PHY93_02530 108 IELIRIGELKEAEKILETVF 127
                              5566779**********886 PP

  == domain 3  score: 1.4 bits;  conditional E-value: 0.49
                   TPR_10   8 LanalrqrgrydeAealleealai 31 
                              La ++ ++ + d+A+  +++ +++
  PHY93_02530|PHY93_02530 141 LAGVYAALEKPDQARTTYQKIINT 164
                              899************999988876 PP

  == domain 4  score: 2.5 bits;  conditional E-value: 0.22
                   TPR_10   8 LanalrqrgrydeAealleea 28 
                              La  ++  ++y+eA all ++
  PHY93_02530|PHY93_02530 175 LAKSYTTEKKYTEAHALLAKC 195
                              78899999*********9886 PP

  == domain 5  score: 2.4 bits;  conditional E-value: 0.23
                   TPR_10  12 lrqrgrydeAealleealai 31 
                               ++rg   eA +++e++l +
  PHY93_02530|PHY93_02530 213 EYERGHKPEAKKFFEKSLKM 232
                              689**************976 PP

  == domain 6  score: 16.6 bits;  conditional E-value: 7.8e-06
                   TPR_10   8 LanalrqrgrydeAealleeala 30 
                              L+ ++++ grydeA +l++e+l 
  PHY93_02530|PHY93_02530 313 LGLLYSDAGRYDEATNLFKEVLT 335
                              9********************96 PP

  == domain 7  score: 2.3 bits;  conditional E-value: 0.25
                   TPR_10   8 LanalrqrgrydeAeallee 27 
                              L+++ +q++ y+eA +++++
  PHY93_02530|PHY93_02530 347 LGALNQQTNHYQEAIEFFKR 366
                              899999********998865 PP

  == domain 8  score: -1.5 bits;  conditional E-value: 3.9
                   TPR_10   2 AsslnNLanal.rqrgrydeAealleeal 29 
                              A +ln L+  +  +  r+d A ++  +a+
  PHY93_02530|PHY93_02530 490 AHALNFLGYSYlEKNERLDVAFNYISKAV 518
                              67899999999556666666666655555 PP

  == domain 9  score: 14.4 bits;  conditional E-value: 3.8e-05
                   TPR_10   6 nNLanalrqrgrydeAealleeala 30 
                                La +++q+g+y+eA+a +++a +
  PHY93_02530|PHY93_02530 529 DSLAWYYFQTGKYKEALAEAKKAFE 553
                              68********************987 PP

  == domain 10  score: 2.9 bits;  conditional E-value: 0.16
                   TPR_10   7 NLanalrqrgrydeAealleeal 29 
                              +L++++ +++ +d+A ++l eal
  PHY93_02530|PHY93_02530 564 HLGMIYERLNYFDKAKEFLTEAL 586
                              59*****************9998 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0       6.7   4.5e+03       6      33 ..      93     120 ..      89     121 .. 0.77
   2 ?    3.7   0.0      0.15        97       7      33 ..     197     223 ..     191     224 .. 0.85
   3 !   13.4   0.0   0.00012      0.08       1      33 [.     225     257 ..     225     258 .. 0.94
   4 ?    3.3   0.1       0.2   1.3e+02      17      32 ..     311     326 ..     295     327 .. 0.80
   5 ?    4.2   0.0       0.1        66       1      34 []     329     362 ..     329     362 .. 0.91
   6 ?    4.0   0.0      0.12        80      17      34 .]     460     477 ..     458     477 .. 0.94
   7 !    8.5   0.2    0.0044       2.9       6      27 ..     483     504 ..     482     508 .. 0.86
   8 !    7.4   0.0    0.0094       6.2       4      33 ..     516     545 ..     513     546 .. 0.94

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 6.7
                   TPR_17   6 leldPnnadaynnLAelllknGdlmtAr 33 
                              +el P +a++   L   l ++G+l++A+
  PHY93_02530|PHY93_02530  93 VELQPQDAYLKRKLSIELIRIGELKEAE 120
                              6888888888777777788888888887 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.15
                   TPR_17   7 eldPnnadaynnLAelllknGdlmtAr 33 
                              ++ +++++  ++++++ +++G + +A+
  PHY93_02530|PHY93_02530 197 KKSKDDPVYAFYRGKIEYERGHKPEAK 223
                              567899***************999987 PP

  == domain 3  score: 13.4 bits;  conditional E-value: 0.00012
                   TPR_17   1 lylkaleldPnnadaynnLAelllknGdlmtAr 33 
                              +++k+l+ d++++ a   L+ +++++ dl+ A+
  PHY93_02530|PHY93_02530 225 FFEKSLKMDHTYSQAALALGAFYEEKEDLKSAV 257
                              59**************************99886 PP

  == domain 4  score: 3.3 bits;  conditional E-value: 0.2
                   TPR_17  17 nnLAelllknGdlmtA 32 
                                L+ l++ +G++++A
  PHY93_02530|PHY93_02530 311 VRLGLLYSDAGRYDEA 326
                              679***********98 PP

  == domain 5  score: 4.2 bits;  conditional E-value: 0.1
                   TPR_17   1 lylkaleldPnnadaynnLAelllknGdlmtArq 34 
                              l++++l   P + ++ ++L+ l  + + +++A++
  PHY93_02530|PHY93_02530 329 LFKEVLTVVPESDKVIYYLGALNQQTNHYQEAIE 362
                              67888889999*********************86 PP

  == domain 6  score: 4.0 bits;  conditional E-value: 0.12
                   TPR_17  17 nnLAelllknGdlmtArq 34 
                              ++LA +++k G++ +Ar+
  PHY93_02530|PHY93_02530 460 YYLASIMEKDGQYLEARK 477
                              89**************96 PP

  == domain 7  score: 8.5 bits;  conditional E-value: 0.0044
                   TPR_17   6 leldPnnadaynnLAelllknG 27 
                              +++dPnna a+n L++ +l+++
  PHY93_02530|PHY93_02530 483 IDKDPNNAHALNFLGYSYLEKN 504
                              899*************998665 PP

  == domain 8  score: 7.4 bits;  conditional E-value: 0.0094
                   TPR_17   4 kaleldPnnadaynnLAelllknGdlmtAr 33 
                              ka++l P + +    LA+++ + G++++A+
  PHY93_02530|PHY93_02530 516 KAVKLRPEDGYIRDSLAWYYFQTGKYKEAL 545
                              899*************************97 PP

>> TPR_15  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0   1.6e-05      0.01     152     240 ..      72     161 ..      43     174 .. 0.84
   2 !   15.2   0.2   1.5e-05    0.0096     118     276 ..     177     335 ..     171     339 .. 0.83
   3 ?    3.8   0.0     0.041        27     153     183 ..     314     344 ..     290     372 .. 0.76
   4 ?    1.2   0.0      0.26   1.7e+02      11      44 ..     425     457 ..     413     475 .. 0.74
   5 !   16.5   0.2   5.6e-06    0.0037     154     245 ..     499     590 ..     487     595 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.6e-05
                   TPR_15 152 raelyrqegqtdaAlrdyreAlalapdsselraallWlliDlgrraeLrellkawkara.esdasLwgplaaAlllLgrpkkALey 236
                               ++ ++ +g+ + A +++r +++l+p+++ l+ +l   li  g+ +e+ ++l++  a++ ++d s+ + la  +++L++p++A   
  PHY93_02530|PHY93_02530  72 KGNDASIRGDYQTATQIFRYVVELQPQDAYLKRKLSIELIRIGELKEAEKILETVFAEShSRDDSIGLILAGVYAALEKPDQARTT 157
                              55556678999*****************************************998777779**********************888 PP

                   TPR_15 237 lrkq 240
                              ++k 
  PHY93_02530|PHY93_02530 158 YQKI 161
                              8775 PP

  == domain 2  score: 15.2 bits;  conditional E-value: 1.5e-05
                   TPR_15 118 ellerakdydriaellksleeeeaaeqsaafllaraelyrqegqtdaAlrdyreAlalapdsselraallWlliDlgrraeLrell 203
                              ++++  k+y++  +ll++   e++ ++++ + ++r++++ ++g++ +A + +++ l+++ + s++  al  ++    +++ L++++
  PHY93_02530|PHY93_02530 177 KSYTTEKKYTEAHALLAK--CEKKSKDDPVYAFYRGKIEYERGHKPEAKKFFEKSLKMDHTYSQAALALGAFYE---EKEDLKSAV 257
                              56888899999999**99..556679**********************************98888887766665...445699999 PP

                   TPR_15 204 kawkara.....esdasLwgplaaAlllLgrpkkALeylrkqakenrkdplwllaYADaleqagradeAwrlRrqvwr 276
                              k++ka       +++ +    l + l  ++++++  +y ++  +  + d   ++       +agr deA +l ++v++
  PHY93_02530|PHY93_02530 258 KTYKAFLaadgnSASLPVLSRLVTVLFSMEENTAVIPYAEALSSIDNTDLNLKVRLGLLYSDAGRYDEATNLFKEVLT 335
                              999987666655333333456788888999999999999999999999999999999999999999999999888876 PP

  == domain 3  score: 3.8 bits;  conditional E-value: 0.041
                   TPR_15 153 aelyrqegqtdaAlrdyreAlalapdsselr 183
                              + ly+++g+ d+A ++++e+l++ p+s++++
  PHY93_02530|PHY93_02530 314 GLLYSDAGRYDEATNLFKEVLTVVPESDKVI 344
                              5577888888888888888888888877765 PP

  == domain 4  score: 1.2 bits;  conditional E-value: 0.26
                   TPR_15  11 alklatllykqgdvkkAlevLkeaaqkaapskdt 44 
                              ++ +a+ + +++++k A +v+ +++++ +  ++ 
  PHY93_02530|PHY93_02530 425 KMLQASFFEDTFQYKTAIQVM-NDVKTHKNFTES 457
                              5677999**************.667766555544 PP

  == domain 5  score: 16.5 bits;  conditional E-value: 5.6e-06
                   TPR_15 154 elyrqegqtdaAlrdyreAlalapdsselraallWlliDlgrraeLrellkawkara...esdasLwgplaaAlllLgrpkkALey 236
                              ++ +++ + d A + + +A++l p++  +r  l W++  +g+++e   +l++ k++    +sd  + + l+  + +L+  +kA e+
  PHY93_02530|PHY93_02530 499 SYLEKNERLDVAFNYISKAVKLRPEDGYIRDSLAWYYFQTGKYKE---ALAEAKKAFelvKSDVIITKHLGMIYERLNYFDKAKEF 581
                              46677788899******************************9998...66665555555699*********************999 PP

                   TPR_15 237 lrkqakenr 245
                              l   +k+ r
  PHY93_02530|PHY93_02530 582 LTEALKQAR 590
                              999988876 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.0       1.2   8.2e+02      14      32 ..      80      98 ..      62      99 .. 0.78
   2 !    9.6   0.1    0.0022       1.5       6      29 ..     141     164 ..     139     168 .. 0.82
   3 ?    3.2   0.0      0.26   1.7e+02       4      25 ..     207     228 ..     205     231 .. 0.90
   4 ?    2.0   0.3      0.62   4.1e+02       2      28 ..     239     265 ..     238     270 .. 0.77
   5 !    7.9   0.0    0.0082       5.4       5      33 .]     312     340 ..     310     340 .. 0.91
   6 ?    6.1   0.0      0.03        20       3      26 ..     344     367 ..     342     370 .. 0.90
   7 ?    6.9   0.0     0.017        11       4      33 .]     460     489 ..     459     489 .. 0.94
   8 ?    2.0   0.1      0.61     4e+02       6      23 ..     531     548 ..     530     557 .. 0.74
   9 ?    3.1   0.1      0.27   1.8e+02       6      29 ..     565     588 ..     564     589 .. 0.86

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 1.2
                             HHHHHHHHHHHHHHHH-TT CS
                    TPR_6 14 gdtdkAlealerlikeYPd 32
                             gd+++A ++++ +++  P+
  PHY93_02530|PHY93_02530 80 GDYQTATQIFRYVVELQPQ 98
                             7**********99999886 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 0.0022
                              HHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   6 lalsyrklgdtdkAlealerlike 29 
                              la  y +l ++d+A+++++++i+ 
  PHY93_02530|PHY93_02530 141 LAGVYAALEKPDQARTTYQKIINT 164
                              566788877*************86 PP

  == domain 3  score: 3.2 bits;  conditional E-value: 0.26
                              HHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   4 yklalsyrklgdtdkAlealer 25 
                              +++++  ++ g + +A++ +e+
  PHY93_02530|PHY93_02530 207 FYRGKIEYERGHKPEAKKFFEK 228
                              7899999**89*********97 PP

  == domain 4  score: 2.0 bits;  conditional E-value: 0.62
                              HHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   2 AlyklalsyrklgdtdkAlealerlik 28 
                              A + l+  y++  d   A+++++ ++ 
  PHY93_02530|PHY93_02530 239 AALALGAFYEEKEDLKSAVKTYKAFLA 265
                              5566777788855**********9987 PP

  == domain 5  score: 7.9 bits;  conditional E-value: 0.0082
                              HHHHHHHHHHHHHHHHHHHHHHHHH-TT- CS
                    TPR_6   5 klalsyrklgdtdkAlealerlikeYPdS 33 
                              +l+l+y  +g++d+A  +++++++  P+S
  PHY93_02530|PHY93_02530 312 RLGLLYSDAGRYDEATNLFKEVLTVVPES 340
                              89******99************9887776 PP

  == domain 6  score: 6.1 bits;  conditional E-value: 0.03
                              HHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   3 lyklalsyrklgdtdkAlealerl 26 
                               y+l+ + ++++ +++A+e ++r+
  PHY93_02530|PHY93_02530 344 IYYLGALNQQTNHYQEAIEFFKRI 367
                              6999*9999999*********996 PP

  == domain 7  score: 6.9 bits;  conditional E-value: 0.017
                              HHHHHHHHHHHHHHHHHHHHHHHHHH-TT- CS
                    TPR_6   4 yklalsyrklgdtdkAlealerlikeYPdS 33 
                              y+la  ++k g++ +A+++ + +i++ P++
  PHY93_02530|PHY93_02530 460 YYLASIMEKDGQYLEARKLVQIIIDKDPNN 489
                              99*******77*****************95 PP

  == domain 8  score: 2.0 bits;  conditional E-value: 0.61
                              HHHHHHHHHHHHHHHHHH CS
                    TPR_6   6 lalsyrklgdtdkAleal 23 
                              la+ y+++g++ +Al+  
  PHY93_02530|PHY93_02530 531 LAWYYFQTGKYKEALAEA 548
                              788999988999887644 PP

  == domain 9  score: 3.1 bits;  conditional E-value: 0.27
                              HHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   6 lalsyrklgdtdkAlealerlike 29 
                              l++ y++l+  dkA+e l + +k+
  PHY93_02530|PHY93_02530 565 LGMIYERLNYFDKAKEFLTEALKQ 588
                              89*****97777******998875 PP

>> TPR_9  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.7   0.0    0.0059       3.9       9      63 ..      80     134 ..      76     139 .. 0.87
   2 ?   -0.7   0.0       2.5   1.6e+03      34      60 ..     208     234 ..     200     244 .. 0.76
   3 ?   -0.0   0.0       1.5     1e+03      36      63 ..     244     271 ..     240     281 .. 0.77
   4 ?    2.5   0.0      0.25   1.6e+02      11      60 ..     289     338 ..     282     343 .. 0.81
   5 ?    3.7   0.0       0.1        68       4      50 ..     316     362 ..     313     369 .. 0.80
   6 ?   -1.9   0.0       5.9   3.9e+03      37      65 ..     464     492 ..     462     493 .. 0.77
   7 !    8.7   0.0    0.0029       1.9       6      51 ..     502     547 ..     496     558 .. 0.92
   8 ?    2.8   0.0      0.19   1.3e+02      35      67 ..     565     597 ..     562     604 .. 0.82

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.0059
                    TPR_9   9 edweralavverllllaPddpeerrdRGlllaqlGclsaAladLeaylalapdap 63 
                               d++ a ++   ++ l+P+d+++ r   + l + G l++A + Le+  a + +++
  PHY93_02530|PHY93_02530  80 GDYQTATQIFRYVVELQPQDAYLKRKLSIELIRIGELKEAEKILETVFAESHSRD 134
                              689999999999****************************999999887666555 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 2.5
                    TPR_9  34 dRGlllaqlGclsaAladLeaylalap 60 
                               RG +++++G+  +A + +e  l ++ 
  PHY93_02530|PHY93_02530 208 YRGKIEYERGHKPEAKKFFEKSLKMDH 234
                              5999********999998888776665 PP

  == domain 3  score: -0.0 bits;  conditional E-value: 1.5
                    TPR_9  36 GlllaqlGclsaAladLeaylalapdap 63 
                              G  +++ ++l+ A++   a+la +++ +
  PHY93_02530|PHY93_02530 244 GAFYEEKEDLKSAVKTYKAFLAADGNSA 271
                              6678888899999999999998887655 PP

  == domain 4  score: 2.5 bits;  conditional E-value: 0.25
                    TPR_9  11 weralavverllllaPddpeerrdRGlllaqlGclsaAladLeaylalap 60 
                              + + + ++e l  ++  d  +    Gll+   G++ +A + +   l + p
  PHY93_02530|PHY93_02530 289 NTAVIPYAEALSSIDNTDLNLKVRLGLLYSDAGRYDEATNLFKEVLTVVP 338
                              55667789999999999999999***************987766665555 PP

  == domain 5  score: 3.7 bits;  conditional E-value: 0.1
                    TPR_9   4 iaireedweralavverllllaPddpeerrdRGlllaqlGclsaAla 50 
                              ++  + ++++a      +l + P++   ++  G l++q +++++A++
  PHY93_02530|PHY93_02530 316 LYSDAGRYDEATNLFKEVLTVVPESDKVIYYLGALNQQTNHYQEAIE 362
                              56667777777777777888888888889999*************97 PP

  == domain 6  score: -1.9 bits;  conditional E-value: 5.9
                    TPR_9  37 lllaqlGclsaAladLeaylalapdapda 65 
                               + ++ G++ +A++  +  ++++p+++ a
  PHY93_02530|PHY93_02530 464 SIMEKDGQYLEARKLVQIIIDKDPNNAHA 492
                              56677899999999999889999877655 PP

  == domain 7  score: 8.7 bits;  conditional E-value: 0.0029
                    TPR_9   6 ireedweralavverllllaPddpeerrdRGlllaqlGclsaAlad 51 
                                +e+ ++a  ++   + l P+d + r   +  ++q G +++Ala+
  PHY93_02530|PHY93_02530 502 EKNERLDVAFNYISKAVKLRPEDGYIRDSLAWYYFQTGKYKEALAE 547
                              6799***************************************986 PP

  == domain 8  score: 2.8 bits;  conditional E-value: 0.19
                    TPR_9  35 RGlllaqlGclsaAladLeaylalapdapdaea 67 
                               G+++++l+ + +A + L  +l +a   +d e 
  PHY93_02530|PHY93_02530 565 LGMIYERLNYFDKAKEFLTEALKQARVEADKED 597
                              599*******************99985555544 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.0      0.81   5.4e+02       7      29 ..      79     101 ..      73     106 .. 0.85
   2 ?    1.0   0.3      0.54   3.6e+02       4      32 ..     145     173 ..     144     190 .. 0.80
   3 ?    3.9   0.1     0.066        44       1      40 [.     210     249 ..     210     251 .. 0.93
   4 ?   -1.1   0.0       2.3   1.5e+03       6      19 ..     249     262 ..     246     271 .. 0.84
   5 !   14.2   0.0   4.1e-05     0.027       1      40 [.     314     353 ..     314     355 .. 0.93
   6 ?   -0.6   0.0       1.7   1.1e+03      15      22 ..     355     362 ..     354     363 .. 0.83
   7 ?   -2.6   0.0       6.9   4.6e+03      16      22 ..     437     443 ..     437     446 .. 0.78
   8 ?    5.4   0.2     0.022        15      21      41 ..     483     503 ..     470     504 .. 0.90
   9 ?   -2.1   0.0       4.8   3.2e+03      19      27 ..     516     524 ..     515     527 .. 0.87
  10 !   13.7   0.1   5.6e-05     0.037       4      41 ..     535     572 ..     534     573 .. 0.95

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.81
                   TPR_11   7 qGkyeeAieaYkkAlkldPdnae 29 
                              +G+y  A + ++  ++l P++a 
  PHY93_02530|PHY93_02530  79 RGDYQTATQIFRYVVELQPQDAY 101
                              79999999999999999999986 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.54
                   TPR_11   4 yyeqGkyeeAieaYkkAlkldPdnaeayy 32 
                              y ++ k ++A + Y+k ++ + d  ea +
  PHY93_02530|PHY93_02530 145 YAALEKPDQARTTYQKIINTSADAEEACL 173
                              77888889*******98888888777755 PP

  == domain 3  score: 3.9 bits;  conditional E-value: 0.066
                   TPR_11   1 GdayyeqGkyeeAieaYkkAlkldPdnaeayynLGlayyk 40 
                              G++ ye+G  +eA + ++k lk d ++  a ++LG+ y +
  PHY93_02530|PHY93_02530 210 GKIEYERGHKPEAKKFFEKSLKMDHTYSQAALALGAFYEE 249
                              899********************************87765 PP

  == domain 4  score: -1.1 bits;  conditional E-value: 2.3
                   TPR_11   6 eqGkyeeAieaYkk 19 
                              e+ +++ A++ Yk+
  PHY93_02530|PHY93_02530 249 EKEDLKSAVKTYKA 262
                              678999******96 PP

  == domain 5  score: 14.2 bits;  conditional E-value: 4.1e-05
                   TPR_11   1 GdayyeqGkyeeAieaYkkAlkldPdnaeayynLGlayyk 40 
                              G +y + G+y+eA + +k+ l   P++  + y LG++ ++
  PHY93_02530|PHY93_02530 314 GLLYSDAGRYDEATNLFKEVLTVVPESDKVIYYLGALNQQ 353
                              7789999****************************99887 PP

  == domain 6  score: -0.6 bits;  conditional E-value: 1.7
                   TPR_11  15 eaYkkAlk 22 
                              ++Y++A++
  PHY93_02530|PHY93_02530 355 NHYQEAIE 362
                              68999998 PP

  == domain 7  score: -2.6 bits;  conditional E-value: 6.9
                   TPR_11  16 aYkkAlk 22 
                              +Yk+A++
  PHY93_02530|PHY93_02530 437 QYKTAIQ 443
                              6888887 PP

  == domain 8  score: 5.4 bits;  conditional E-value: 0.022
                   TPR_11  21 lkldPdnaeayynLGlayykq 41 
                              ++ dP+na a++ LG+ y+++
  PHY93_02530|PHY93_02530 483 IDKDPNNAHALNFLGYSYLEK 503
                              678***************875 PP

  == domain 9  score: -2.1 bits;  conditional E-value: 4.8
                   TPR_11  19 kAlkldPdn 27 
                              kA+kl+P++
  PHY93_02530|PHY93_02530 516 KAVKLRPED 524
                              9******86 PP

  == domain 10  score: 13.7 bits;  conditional E-value: 5.6e-05
                   TPR_11   4 yyeqGkyeeAieaYkkAlkldPdnaeayynLGlayykq 41 
                              y++ Gky+eA+++ kkA +l  +++ +  +LG +y ++
  PHY93_02530|PHY93_02530 535 YFQTGKYKEALAEAKKAFELVKSDVIITKHLGMIYERL 572
                              9**************************99999999876 PP

>> TPR_20  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   0.0     0.074        49      15      82 ..      93     159 ..      83     165 .. 0.81
   2 ?    2.9   0.1       0.2   1.4e+02      12      53 ..     159     200 ..     151     206 .. 0.80
   3 ?   -0.3   0.0       2.1   1.4e+03      12      86 ..     227     300 ..     215     302 .. 0.75
   4 !    8.5   0.0    0.0038       2.5      17      49 ..     302     334 ..     286     343 .. 0.85
   5 ?   -2.4   0.0       9.5   6.3e+03      26      43 ..     345     362 ..     338     367 .. 0.78
   6 ?    5.3   0.0     0.037        25      12      44 ..     515     547 ..     509     560 .. 0.85

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.074
                   TPR_20  15 laanpddldarldlAlallaagryeeAleqLleilkrdrkweddaarkqllkifealgsqdplvakyR 82 
                              ++ +p+d  ++ +l+  l+  g+ +eA e++le + ++++ +dd++   l  + +al++ d++  +y+
  PHY93_02530|PHY93_02530  93 VELQPQDAYLKRKLSIELIRIGELKEA-EKILETVFAESHSRDDSIGLILAGVYAALEKPDQARTTYQ 159
                              6779**********************9.6777777777888888888888888888888877766665 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.2
                   TPR_20  12 eaalaanpddldarldlAlallaagryeeAleqLleilkrdr 53 
                              ++ ++++ d  +a l lA+ +  +++y eA ++L +  k+ +
  PHY93_02530|PHY93_02530 159 QKIINTSADAEEACLFLAKSYTTEKKYTEAHALLAKCEKKSK 200
                              5556777777899999**************999988766655 PP

  == domain 3  score: -0.3 bits;  conditional E-value: 2.1
                   TPR_20  12 eaalaanpddldarldlAlallaagryeeAleqLleilkrdrkweddaarkqllkifealgsqdplvakyRrkLs 86 
                              e+ l+ + +  +a+l+l   + ++++ + A++   ++l++d + +   +  +l+ ++ ++++ + +v+ y   Ls
  PHY93_02530|PHY93_02530 227 EKSLKMDHTYSQAALALGAFYEEKEDLKSAVKTYKAFLAADGNSASLPVLSRLVTVLFSMEE-NTAVIPYAEALS 300
                              66777788888999999999999999999999999999999888888888888888777776.456666655555 PP

  == domain 4  score: 8.5 bits;  conditional E-value: 0.0038
                   TPR_20  17 anpddldarldlAlallaagryeeAleqLleil 49 
                               + +dl++++ l l++  agry+eA +++ e+l
  PHY93_02530|PHY93_02530 302 IDNTDLNLKVRLGLLYSDAGRYDEATNLFKEVL 334
                              5789**********************9988877 PP

  == domain 5  score: -2.4 bits;  conditional E-value: 9.5
                   TPR_20  26 ldlAlallaagryeeAle 43 
                              + l  +  + ++y+eA+e
  PHY93_02530|PHY93_02530 345 YYLGALNQQTNHYQEAIE 362
                              667788889999999997 PP

  == domain 6  score: 5.3 bits;  conditional E-value: 0.037
                   TPR_20  12 eaalaanpddldarldlAlallaagryeeAleq 44 
                               +a++ +p+d  +r  lA  +++ g+y+eAl++
  PHY93_02530|PHY93_02530 515 SKAVKLRPEDGYIRDSLAWYYFQTGKYKEALAE 547
                              6788899***********************976 PP

>> RPN7  26S proteasome subunit RPN7
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   0.1      0.31     2e+02      47      89 ..     111     153 ..     102     200 .. 0.71
   2 !   17.7   0.1   3.3e-06    0.0022      30     143 ..     231     337 ..     221     349 .. 0.85
   3 ?   -3.3   0.1       9.6   6.4e+03      32      61 ..     423     447 ..     412     459 .. 0.59
   4 !    7.1   0.1    0.0061       4.1      40     102 ..     529     592 ..     502     608 .. 0.78

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.31
                              HHCT-HHHHHHHHHTCCCC--SHHHHHHHHHHHHHHHHHTT-H CS
                     RPN7  47 lkigdleeAlkaysrireyctslkhkidmllnlirvaiffndw 89 
                              ++ig+l+eA k ++ ++ ++ s + +i ++l+ +  a++  d 
  PHY93_02530|PHY93_02530 111 IRIGELKEAEKILETVFAESHSRDDSIGLILAGVYAALEKPDQ 153
                              6899999999999999999999999998888877776655443 PP

  == domain 2  score: 17.7 bits;  conditional E-value: 3.3e-06
                              T-HHHHHHHHHHHHHHHHHCT-HHHHHHHHHTCCCC--SHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHCSSS---.HHHHHHH CS
                     RPN7  30 lgkeeirrakldlaehYlkigdleeAlkaysrireyctslkhkidmllnlirvaiffndwdlvskylekakellekggdwerknrl 115
                               ++    +a l+l+ +Y +  dl++A+k+y++ +    + ++++ +l +l+ v + +++   v  y e + ++  +       n l
  PHY93_02530|PHY93_02530 231 KMDHTYSQAALALGAFYEEKEDLKSAVKTYKAFLAADGN-SASLPVLSRLVTVLFSMEENTAVIPYAEALSSIDNT-----DLN-L 309
                              567778899**********************98887766.7999*********************99877665444.....455.9 PP

                              HHHHHHHHHHTT-HHHHHHHHCTS-GGG CS
                     RPN7 116 kvyeGlallairkfkeAaellldilstf 143
                              kv  Gl++   +++ eA++l+ ++l+ +
  PHY93_02530|PHY93_02530 310 KVRLGLLYSDAGRYDEATNLFKEVLTVV 337
                              9999*****************9998866 PP

  == domain 3  score: -3.3 bits;  conditional E-value: 9.6
                              HHHHHHHHHHHHHHHHHCT-HHHHHHHHHT CS
                     RPN7  32 keeirrakldlaehYlkigdleeAlkaysr 61 
                              + ++ +     a ++ ++ +++ A++ ++ 
  PHY93_02530|PHY93_02530 423 EFKMLQ-----ASFFEDTFQYKTAIQVMND 447
                              444444.....5677777777777777665 PP

  == domain 4  score: 7.1 bits;  conditional E-value: 0.0061
                              HHHHHHHHHCT-HHHHHHHHHTCCCC--SHHHHHHHHHHHH..HHHHHTT-HHHHHHHHHHHHCS CS
                     RPN7  40 ldlaehYlkigdleeAlkaysrireyctslkhkidmllnli..rvaiffndwdlvskylekakel 102
                              + la +Y+++g+++eAl+  ++++e  ++++ +i   l +i  r+++f + ++ +++ l++a+  
  PHY93_02530|PHY93_02530 529 DSLAWYYFQTGKYKEALAEAKKAFEL-VKSDVIITKHLGMIyeRLNYFDKAKEFLTEALKQARVE 592
                              56899*****************9875.55577777666666556777777777777777777655 PP

>> TPR_21  Tetratricopeptide repeat-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.4   0.2   0.00028      0.19      73     179 ..      63     168 ..      37     174 .. 0.69
   2 !   19.0   1.4   1.4e-06    0.0009      80     180 ..     139     237 ..     137     243 .. 0.88
   3 ?    2.6   0.4      0.14        95      77     128 ..     238     288 ..     231     335 .. 0.71
   4 ?    2.3   0.2      0.17   1.2e+02      37     107 ..     418     487 ..     392     495 .. 0.59
   5 ?    1.6   0.4      0.28   1.9e+02     119     183 ..     531     598 ..     504     605 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00028
                   TPR_21  73 aYaalaaLllAkaaveagdlaaAkaqLewvlekak.deelkalarlRLarvllaekkydeAlktLeakkeeafaalvaelrG.... 153
                              +Y a   +++ + a  +gd+++A + ++ v+e ++ d+ lk+  ++ L r+    ++++eA k Le++ +e+ +  +++  G    
  PHY93_02530|PHY93_02530  63 EYLATDLFIKGNDASIRGDYQTATQIFRYVVELQPqDAYLKRKLSIELIRI----GELKEAEKILETVFAESHS--RDDSIGlila 142
                              566666667777777889999999999999986550455555555555555....7778888888887777654..4444442222 PP

                   TPR_21 154 DilvaqgkldeAraaYqaAlaaleek 179
                               +++a +k d+Ar+ Yq+ +++ ++ 
  PHY93_02530|PHY93_02530 143 GVYAALEKPDQARTTYQKIINTSADA 168
                              57899999999999999988876655 PP

  == domain 2  score: 19.0 bits;  conditional E-value: 1.4e-06
                   TPR_21  80 LllAkaaveagdlaaAkaqLewvlekakdeelkalarlRLarvllaekkydeAlktLeakke.eafaalvaelrGDilvaqgklde 164
                              L+lA + ++ ++ ++A+++++++++ ++d+   + a l La+ +  ekky eA ++L++ ++ ++ +  +a  rG i +++g++ e
  PHY93_02530|PHY93_02530 139 LILAGVYAALEKPDQARTTYQKIINTSADA---EEACLFLAKSYTTEKKYTEAHALLAKCEKkSKDDPVYAFYRGKIEYERGHKPE 221
                              8999999999*****************999...668899******************8765505567899**************** PP

                   TPR_21 165 AraaYqaAlaaleeka 180
                              A++ ++++l+  ++ +
  PHY93_02530|PHY93_02530 222 AKKFFEKSLKMDHTYS 237
                              ********99877655 PP

  == domain 3  score: 2.6 bits;  conditional E-value: 0.14
                   TPR_21  77 laaLllAkaaveagdlaaAkaqLewvlekakdeelkalarlRLarvllaekk 128
                              +aaL+l     e++dl++A +++++ l+   + +   +   RL  vl+ +++
  PHY93_02530|PHY93_02530 238 QAALALGAFYEEKEDLKSAVKTYKAFLAADGNSASLPVL-SRLVTVLFSMEE 288
                              678888888889999999999999988888777666655.478888777665 PP

  == domain 4  score: 2.3 bits;  conditional E-value: 0.17
                   TPR_21  37 eeAsalYqqlqeaveakdaakakeaaeeladeyggtaYaalaaLllAkaaveagdlaaAkaqLewvlekak 107
                              ee +  ++ lq++   +d+ + k+a++ ++d    +++ +  +  lA  + + g++ +A++  + +++k +
  PHY93_02530|PHY93_02530 418 EEMAVEFKMLQASF-FEDTFQYKTAIQVMNDVKTHKNFTESHSYYLASIMEKDGQYLEARKLVQIIIDKDP 487
                              44444444444333.33333366666666666666666666666666666666666666666666666555 PP

  == domain 5  score: 1.6 bits;  conditional E-value: 0.28
                   TPR_21 119 LarvllaekkydeAlktLeakke.eafaalvaelrGDilvaqgkldeAraaYqaAlaaleeka..rel 183
                              La  +++++ky+eAl++ +++ e  + ++ +    G i+ + + +d+A++  ++Al++   +a  +++
  PHY93_02530|PHY93_02530 531 LAWYYFQTGKYKEALAEAKKAFElVKSDVIITKHLGMIYERLNYFDKAKEFLTEALKQARVEAdkEDV 598
                              77778899999999988876654245667777888999999999999999999998887766654555 PP

>> TPR_4  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.0      0.49   3.2e+02       6      24 ..     140     158 ..     138     160 .. 0.86
   2 ?    4.7   0.0     0.087        58       7      20 ..     313     326 ..     309     331 .. 0.88
   3 ?    5.5   0.0     0.051        34       7      23 ..     531     547 ..     527     549 .. 0.91

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.49
                    TPR_4   6 aLArallalGdldeArall 24 
                               LA +++al  +d+Ar++ 
  PHY93_02530|PHY93_02530 140 ILAGVYAALEKPDQARTTY 158
                              68999***********986 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.087
                    TPR_4   7 LArallalGdldeA 20 
                              L+ ++ ++G++deA
  PHY93_02530|PHY93_02530 313 LGLLYSDAGRYDEA 326
                              8999*********9 PP

  == domain 3  score: 5.5 bits;  conditional E-value: 0.051
                    TPR_4   7 LArallalGdldeAral 23 
                              LA+ ++++G + eA+a 
  PHY93_02530|PHY93_02530 531 LAWYYFQTGKYKEALAE 547
                              9**************96 PP

>> PPR  PPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.0   0.0       2.1   1.4e+03      12      24 ..     112     124 ..     110     125 .. 0.85
   2 ?    7.1   0.0     0.011       7.1      10      26 ..     317     333 ..     316     335 .. 0.91
   3 ?    0.9   0.0         1     7e+02      14      26 ..     355     367 ..     353     370 .. 0.83
   4 ?   -0.3   0.0       2.6   1.7e+03      12      25 ..     468     481 ..     462     486 .. 0.79
   5 ?   -0.2   0.0       2.4   1.6e+03      10      20 ..     535     545 ..     530     546 .. 0.89
   6 ?   -0.9   0.1       3.9   2.6e+03      10      25 ..     569     584 ..     567     587 .. 0.83

  Alignments for each domain:
  == domain 1  score: -0.0 bits;  conditional E-value: 2.1
                      PPR  12 knGkleeAlelfk 24 
                              + G+l+eA+++++
  PHY93_02530|PHY93_02530 112 RIGELKEAEKILE 124
                              679*******986 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.011
                      PPR  10 ycknGkleeAlelfkeM 26 
                              y+ +G+++eA  lfke 
  PHY93_02530|PHY93_02530 317 YSDAGRYDEATNLFKEV 333
                              899************95 PP

  == domain 3  score: 0.9 bits;  conditional E-value: 1
                      PPR  14 GkleeAlelfkeM 26 
                              + ++eA+e+fk++
  PHY93_02530|PHY93_02530 355 NHYQEAIEFFKRI 367
                              6789******986 PP

  == domain 4  score: -0.3 bits;  conditional E-value: 2.6
                      PPR  12 knGkleeAlelfke 25 
                              k G++ eA +l + 
  PHY93_02530|PHY93_02530 468 KDGQYLEARKLVQI 481
                              89*******99875 PP

  == domain 5  score: -0.2 bits;  conditional E-value: 2.4
                      PPR  10 ycknGkleeAl 20 
                              y + Gk++eAl
  PHY93_02530|PHY93_02530 535 YFQTGKYKEAL 545
                              899*******8 PP

  == domain 6  score: -0.9 bits;  conditional E-value: 3.9
                      PPR  10 ycknGkleeAlelfke 25 
                              y + +++++A+e++ e
  PHY93_02530|PHY93_02530 569 YERLNYFDKAKEFLTE 584
                              779999*****99866 PP

>> DUF4810  Domain of unknown function (DUF4810)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.5   0.1      0.66   4.4e+02      23      70 ..     182     228 ..     173     232 .. 0.71
   2 !   11.2   0.0   0.00061       0.4      50      82 ..     312     344 ..     309     347 .. 0.90
   3 ?   -1.7   0.0       6.6   4.4e+03      51      69 ..     347     365 ..     346     366 .. 0.83
   4 ?    1.6   0.1      0.63   4.2e+02      49      69 ..     563     583 ..     535     588 .. 0.82

  Alignments for each domain:
  == domain 1  score: 1.5 bits;  conditional E-value: 0.66
                  DUF4810  23 ekqieklekiiekaeakgkkvpPGlyAelGllylkegkkeeaieafek 70 
                              ek+ ++ ++ ++k e+k+k   P +    G + +++g+k ea+++fek
  PHY93_02530|PHY93_02530 182 EKKYTEAHALLAKCEKKSKD-DPVYAFYRGKIEYERGHKPEAKKFFEK 228
                              55555556666666555444.565666679999**********99987 PP

  == domain 2  score: 11.2 bits;  conditional E-value: 0.00061
                  DUF4810  50 elGllylkegkkeeaieafekEkelfPESatfm 82 
                               lGlly+++g+ +ea + f++  +  PES + +
  PHY93_02530|PHY93_02530 312 RLGLLYSDAGRYDEATNLFKEVLTVVPESDKVI 344
                              79***************************9877 PP

  == domain 3  score: -1.7 bits;  conditional E-value: 6.6
                  DUF4810  51 lGllylkegkkeeaieafe 69 
                              lG l  ++++ +eaie+f+
  PHY93_02530|PHY93_02530 347 LGALNQQTNHYQEAIEFFK 365
                              6888899999999999987 PP

  == domain 4  score: 1.6 bits;  conditional E-value: 0.63
                  DUF4810  49 AelGllylkegkkeeaieafe 69 
                               +lG++y + +  ++a+e+++
  PHY93_02530|PHY93_02530 563 KHLGMIYERLNYFDKAKEFLT 583
                              59*************999876 PP

>> TPR_MalT  MalT-like TPR region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.0      0.15     1e+02      22      68 ..     117     163 ..      67     204 .. 0.59
   2 ?    3.3   0.0     0.064        43      23     153 ..     118     234 ..     112     246 .. 0.58
   3 ?    0.3   0.0      0.55   3.6e+02      81     103 ..     238     260 ..     207     283 .. 0.50
   4 ?   -1.2   0.0       1.5     1e+03      84     114 ..     311     341 ..     272     349 .. 0.79
   5 ?   -1.5   0.0       1.9   1.3e+03      71     107 ..     447     483 ..     428     521 .. 0.68
   6 ?    5.1   0.0     0.019        13       8      73 ..     532     592 ..     525     606 .. 0.83

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.15
                 TPR_MalT  22 elArqALallpeddllariaatavlGeasllqGdleaAlqalqeaek 68 
                              + A+++L+    + +     + ++l++++   ++ ++A+ ++q+++ 
  PHY93_02530|PHY93_02530 117 KEAEKILETVFAESHSRDDSIGLILAGVYAALEKPDQARTTYQKIIN 163
                              33444444444444444444444444444444444444444444443 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.064
                 TPR_MalT  23 lArqALallpeddllariaatavlGeasllqGdleaAlqalqeaeklarqadslhvallallqqaeilvaqGrLheAletyeqalq 108
                               A+++L+    + +     + ++l++++   ++ ++A+ ++q+++ ++ +a+       a l +a+ +++  +  eA     +al 
  PHY93_02530|PHY93_02530 118 EAEKILETVFAESHSRDDSIGLILAGVYAALEKPDQARTTYQKIINTSADAEE------ACLFLAKSYTTEKKYTEA-----HALL 192
                              56666666666666666666666666777777666777777666655432222......222333333333344444.....4444 PP

                 TPR_MalT 109 lateqglqqlplvgfllvlladllyEwndLeeAeqhlqeGielle 153
                                 e++ +  p++ f+   ++++ yE+++  eA+++ ++++++  
  PHY93_02530|PHY93_02530 193 AKCEKKSKDDPVYAFY---RGKIEYERGHKPEAKKFFEKSLKMDH 234
                              4445555556666666...77777777777777777777777655 PP

  == domain 3  score: 0.3 bits;  conditional E-value: 0.55
                 TPR_MalT  81 lallqqaeilvaqGrLheAlety 103
                               a l ++  + ++ +L+ A++ty
  PHY93_02530|PHY93_02530 238 QAALALGAFYEEKEDLKSAVKTY 260
                              12222334444444444444444 PP

  == domain 4  score: -1.2 bits;  conditional E-value: 1.5
                 TPR_MalT  84 lqqaeilvaqGrLheAletyeqalqlateqg 114
                              ++++ ++   Gr +eA++++++ l++++e++
  PHY93_02530|PHY93_02530 311 VRLGLLYSDAGRYDEATNLFKEVLTVVPESD 341
                              5667778888888888888888888888765 PP

  == domain 5  score: -1.5 bits;  conditional E-value: 1.9
                 TPR_MalT  71 rqadslhvallallqqaeilvaqGrLheAletyeqal 107
                              +  ++ +++  + +++a i  ++G+  eA ++ + ++
  PHY93_02530|PHY93_02530 447 DVKTHKNFTESHSYYLASIMEKDGQYLEARKLVQIII 483
                              3344445556666777777777777777776666554 PP

  == domain 6  score: 5.1 bits;  conditional E-value: 0.019
                 TPR_MalT   8 AllaiasgdaeralelArqALallpeddllariaatavlGeasllqGdleaAlqalqeaeklarqa 73 
                              A+ ++++g+ ++al+ A++A +l ++d      ++t  lG ++   + +++A + l ea k ar +
  PHY93_02530|PHY93_02530 532 AWYYFQTGKYKEALAEAKKAFELVKSDV-----IITKHLGMIYERLNYFDKAKEFLTEALKQARVE 592
                              8899999999***********9999997.....778888999999999999999999998887765 PP

>> PknG_TPR  Protein kinase G tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0       1.9   1.2e+03     142     187 ..      80     126 ..      76     165 .. 0.59
   2 !    6.8   0.4    0.0037       2.5      92     191 ..     167     267 ..     141     281 .. 0.78
   3 !    5.6   0.0    0.0082       5.5     104     154 ..     317     367 ..     275     381 .. 0.80

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 1.9
                              T-HHHHHHHHHHHHHHSTT-SHHHHHHHHHHHHHT---.TT-HHHHH CS
                 PknG_TPR 142 gdyeeAaaeFdevlaalpGEiaPklaLAataElagetd.eekyYrtV 187
                              gdy++A++ F  v+++ p ++  k  L++   ++ge + +ek  +tV
  PHY93_02530|PHY93_02530  80 GDYQTATQIFRYVVELQPQDAYLKRKLSIELIRIGELKeAEKILETV 126
                              56666666666666655554444444433333333322123333333 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.0037
                              C-SHHHHHHHHHHHHCT-HHHHHHHHHHHHHHH---HHHHHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-SHHHHHHHHHHHHHT- CS
                 PknG_TPR  92 eslevpLaevrahldlGdveearelLdeleeeveedWrldWyrglaeLlegdyeeAaaeFdevlaalpGEiaPklaLAataElage 177
                              +  e  L +++      + +ea++lL++ e+++++d    +yrg  e   g+  eA + F++ l++    +   laL a  E  ++
  PHY93_02530|PHY93_02530 167 DAEEACLFLAKSYTTEKKYTEAHALLAKCEKKSKDDPVYAFYRGKIEYERGHKPEAKKFFEKSLKMDHTYSQAALALGAFYEEKED 252
                              345777888888888889999******************************************99999999999999999998877 PP

                              --TT.-HHHHHHHH- CS
                 PknG_TPR 178 tdee.kyYrtVwrtd 191
                               +++ k Y+     d
  PHY93_02530|PHY93_02530 253 LKSAvKTYKAFLAAD 267
                              664337777666555 PP

  == domain 3  score: 5.6 bits;  conditional E-value: 0.0082
                              HHHCT-HHHHHHHHHHHHHHH---HHHHHHHHHHHHHHT-HHHHHHHHHHH CS
                 PknG_TPR 104 hldlGdveearelLdeleeeveedWrldWyrglaeLlegdyeeAaaeFdev 154
                                d G  +ea++l++e+ + v+e  ++ +y g  + ++++y+eA++ F+++
  PHY93_02530|PHY93_02530 317 YSDAGRYDEATNLFKEVLTVVPESDKVIYYLGALNQQTNHYQEAIEFFKRI 367
                              348999***************************************999987 PP

>> SRP68  RNA-binding signal recognition particle 68
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   0.6   1.6e-05     0.011     411     520 ..     172     279 ..     143     295 .. 0.76
   2 ?   -1.7   0.0       1.7   1.1e+03     402     431 ..     450     479 ..     383     491 .. 0.82
   3 ?   -1.0   0.0         1   6.7e+02     414     441 ..     531     558 ..     529     600 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 1.6e-05
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX..XXXXX.... CS
                    SRP68 411 clyiarshalaskyaeAlALlkrAlelaeea.leelsksdakskpeslevlleelqeLadelkgelqrarAlveleelkkeeeslk 495
                              cl +a+s++ ++ky+eA ALl++++++ ++     ++  + k    ++    e  ++ +++lk      +A + l  + +e+e+lk
  PHY93_02530|PHY93_02530 172 CLFLAKSYTTEKKYTEAHALLAKCEKKSKDDpV--YAFYRGKI-EYERGHKPEAKKFFEKSLKMDHTYSQAALALGAFYEEKEDLK 254
                              9*************************9987632..22222221.244455566667788888888888888888887778888888 PP

                              .........XXXXXXXXXXXXXXXX CS
                    SRP68 496 kslsklslsekaaakkkkkpllerL 520
                              + +++++    a+ ++++ p+l+rL
  PHY93_02530|PHY93_02530 255 SAVKTYKAFLAADGNSASLPVLSRL 279
                              8888887666555566677777776 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 1.7
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                    SRP68 402 kkayfrAlrclyiarshalaskyaeAlALl 431
                              +++ f+   ++y+a ++  +++y+eA  L+
  PHY93_02530|PHY93_02530 450 THKNFTESHSYYLASIMEKDGQYLEARKLV 479
                              456677777899999999999999997776 PP

  == domain 3  score: -1.0 bits;  conditional E-value: 1
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                    SRP68 414 iarshalaskyaeAlALlkrAlelaeea 441
                              +a  +   +ky+eAlA  k+A el+++ 
  PHY93_02530|PHY93_02530 531 LAWYYFQTGKYKEALAEAKKAFELVKSD 558
                              6777888899999999999999998875 PP

>> ChAPs  ChAPs (Chs5p-Arf1p-binding proteins)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.4   0.0      0.66   4.4e+02     186     294 ..      83     195 ..      60     226 .. 0.62
   2 ?   -3.5   0.0       5.9   3.9e+03     181     206 ..     319     344 ..     315     355 .. 0.82
   3 ?   12.0   0.3   0.00011     0.075     178     289 ..     431     546 ..     405     586 .. 0.72

  Alignments for each domain:
  == domain 1  score: -0.4 bits;  conditional E-value: 0.66
                              HHHHHHHHHHHTT-GGGHHHHHHHH..HHTT-HHHHHHHHHHHH..-SSS-HHHHHHHHHHHHHHSS--HHHHHHHHHHHHH-TT- CS
                    ChAPs 186 dralellekLkeeepevvillarvl..lladeEvdavkllneel..eeeekdaelLllqaefllskkkeelAlevakravksaPse 267
                              ++a+++++ + e +p+ + l  ++   l+   E++  + + e++  e++++d ++ l+ a      +k + A ++ ++ ++++  +
  PHY93_02530|PHY93_02530  83 QTATQIFRYVVELQPQDAYLKRKLSieLIRIGELKEAEKILETVfaESHSRDDSIGLILAGVYAALEKPDQARTTYQKIINTSADA 168
                              55555555555555555555444321133344444333333333233333444444444444455566667777777777777777 PP

                              HHHHHHHHHHHHHTT-HHHHHHHHHT- CS
                    ChAPs 268 fktWalLvkvYikledienALltLNsc 294
                               +    L+k+Y++ + + +A   L  c
  PHY93_02530|PHY93_02530 169 EEACLFLAKSYTTEKKYTEAHALLAKC 195
                              777788888888877777777666666 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 5.9
                              HHT-HHHHHHHHHHHHTT-GGGHHHH CS
                    ChAPs 181 ltkrydralellekLkeeepevvill 206
                               + ryd+a++l++++ +  pe   ++
  PHY93_02530|PHY93_02530 319 DAGRYDEATNLFKEVLTVVPESDKVI 344
                              57899********9999999987766 PP

  == domain 3  score: 12.0 bits;  conditional E-value: 0.00011
                              HHHHHT-HHHHHHHHHHHHTT-..GGGHH.HHHHHHHHTT-HHHHHHHHHHHH-SSS-HHHHH.HHHHHHHHHSS--HHHHHHHHH CS
                    ChAPs 178 lvrltkrydralellekLkeee..pevvi.llarvllladeEvdavkllneeleeeekdaelL.llqaefllskkkeelAlevakr 259
                              +++ t +y++a+++++ +k+++   e  +  la ++    + ++a kl++  +++++++a+ L  l   +l ++++ ++A +  ++
  PHY93_02530|PHY93_02530 431 FFEDTFQYKTAIQVMNDVKTHKnfTESHSyYLASIMEKDGQYLEARKLVQIIIDKDPNNAHALnFLGYSYLEKNERLDVAFNYISK 516
                              56777788888888877766553345444145555555556778888888888777777544414666777777777888888888 PP

                              HHHH-TT-HHHHHHHHHHHHHTT-HHHHHH CS
                    ChAPs 260 avksaPsefktWalLvkvYikledienALl 289
                              avk+ P +      L+  Y + + +++AL 
  PHY93_02530|PHY93_02530 517 AVKLRPEDGYIRDSLAWYYFQTGKYKEALA 546
                              888888888888888888888888887774 PP

>> Fis1_TPR_C  Fis1 C-terminal tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.0       1.3   8.8e+02      15      33 ..      80      98 ..      79     100 .. 0.92
   2 ?   -0.5   0.0       2.1   1.4e+03      11      27 ..     110     126 ..     106     129 .. 0.81
   3 ?   -1.9   0.0       5.5   3.7e+03      32      49 ..     183     200 ..     171     202 .. 0.64
   4 ?   -0.7   0.0       2.3   1.5e+03      19      38 ..     221     240 ..     220     245 .. 0.91
   5 ?    0.4   0.0       1.1   7.3e+02      15      33 ..     321     339 ..     317     344 .. 0.88
   6 ?   -1.1   0.1       3.1   2.1e+03       3      26 ..     343     366 ..     341     367 .. 0.82
   7 ?   13.4   0.0   9.3e-05     0.062       5      38 ..     460     493 ..     458     497 .. 0.93
   8 ?   -2.5   0.1       8.3   5.5e+03      11      24 ..     535     548 ..     531     553 .. 0.70
   9 ?   -2.0   0.2       5.9   3.9e+03      13      29 ..     571     587 ..     569     589 .. 0.84

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 1.3
                             T-HHHHHHHHHHHHHHTTS CS
               Fis1_TPR_C 15 geYseArryvdalLeiEPe 33
                             g+Y++A +  + + e++P+
  PHY93_02530|PHY93_02530 80 GDYQTATQIFRYVVELQPQ 98
                             89*************9997 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 2.1
                              HHHHT-HHHHHHHHHHH CS
               Fis1_TPR_C  11 hyklgeYseArryvdal 27 
                               +++ge +eA + ++++
  PHY93_02530|PHY93_02530 110 LIRIGELKEAEKILETV 126
                              689********999876 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 5.5
                              TS-HHHHHHHHHHHHHHH CS
               Fis1_TPR_C  32 PenrQaqsLkeliedkik 49 
                               +   a +L + +e+k k
  PHY93_02530|PHY93_02530 183 KKYTEAHALLAKCEKKSK 200
                              445556666666666655 PP

  == domain 4  score: -0.7 bits;  conditional E-value: 2.3
                              HHHHHHHHHHHHTTS-HHHH CS
               Fis1_TPR_C  19 eArryvdalLeiEPenrQaq 38 
                              eA+++ +  L+++   +Qa+
  PHY93_02530|PHY93_02530 221 EAKKFFEKSLKMDHTYSQAA 240
                              79***********9999995 PP

  == domain 5  score: 0.4 bits;  conditional E-value: 1.1
                              T-HHHHHHHHHHHHHHTTS CS
               Fis1_TPR_C  15 geYseArryvdalLeiEPe 33 
                              g+Y+eA ++ + +L + Pe
  PHY93_02530|PHY93_02530 321 GRYDEATNLFKEVLTVVPE 339
                              89**********9999887 PP

  == domain 6  score: -1.1 bits;  conditional E-value: 3.1
                              HHHHHHHHHHHHT-HHHHHHHHHH CS
               Fis1_TPR_C   3 clYylAlGhyklgeYseArryvda 26 
                               +Yyl   +     Y+eA ++ ++
  PHY93_02530|PHY93_02530 343 VIYYLGALNQQTNHYQEAIEFFKR 366
                              689999999999999999888765 PP

  == domain 7  score: 13.4 bits;  conditional E-value: 9.3e-05
                              HHHHHHHHHHT-HHHHHHHHHHHHHHTTS-HHHH CS
               Fis1_TPR_C   5 YylAlGhyklgeYseArryvdalLeiEPenrQaq 38 
                              YylA    k g+Y eAr++v+ ++ ++P+n  a+
  PHY93_02530|PHY93_02530 460 YYLASIMEKDGQYLEARKLVQIIIDKDPNNAHAL 493
                              99999999**********************9886 PP

  == domain 8  score: -2.5 bits;  conditional E-value: 8.3
                              HHHHT-HHHHHHHH CS
               Fis1_TPR_C  11 hyklgeYseArryv 24 
                              ++  g+Y+eA+  +
  PHY93_02530|PHY93_02530 535 YFQTGKYKEALAEA 548
                              56678898888655 PP

  == domain 9  score: -2.0 bits;  conditional E-value: 5.9
                              HHT-HHHHHHHHHHHHH CS
               Fis1_TPR_C  13 klgeYseArryvdalLe 29 
                              +l  +++A++++   L+
  PHY93_02530|PHY93_02530 571 RLNYFDKAKEFLTEALK 587
                              788899****9998886 PP

>> TPR_3  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.9   0.0      0.73   4.9e+02      15      36 .]      80      99 ..      78      99 .. 0.81
   2 ?    0.2   0.1       1.2   8.1e+02      10      25 ..     144     159 ..     141     160 .. 0.81
   3 ?   -1.8   0.1       4.9   3.3e+03      14      20 ..     182     188 ..     175     192 .. 0.74
   4 ?    3.6   0.0       0.1        69      15      29 ..     321     334 ..     313     337 .. 0.80
   5 ?    7.1   0.7    0.0083       5.5       4      24 ..     344     364 ..     342     365 .. 0.90
   6 ?    2.0   0.3      0.31   2.1e+02       6      21 ..     530     545 ..     530     546 .. 0.87

  Alignments for each domain:
  == domain 1  score: 0.9 bits;  conditional E-value: 0.73
                             T-HHHHHHH..HHHHHHH-TT- CS
                    TPR_3 15 kkyqeArelfsYallaildken 36
                             ++yq+A +   +++   l++++
  PHY93_02530|PHY93_02530 80 GDYQTATQI--FRYVVELQPQD 99
                             8********..87877777765 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 1.2
                              HHHHTT-HHHHHHH.. CS
                    TPR_3  10 efynkkkyqeArelfs 25 
                              ++   +k ++Ar +++
  PHY93_02530|PHY93_02530 144 VYAALEKPDQARTTYQ 159
                              677788889*****88 PP

  == domain 3  score: -1.8 bits;  conditional E-value: 4.9
                              TT-HHHH CS
                    TPR_3  14 kkkyqeA 20 
                               kky+eA
  PHY93_02530|PHY93_02530 182 EKKYTEA 188
                              69****9 PP

  == domain 4  score: 3.6 bits;  conditional E-value: 0.1
                              T-HHHHHHH..HHHH CS
                    TPR_3  15 kkyqeArelfsYall 29 
                              ++y+eA +lf  ++l
  PHY93_02530|PHY93_02530 321 GRYDEATNLFK-EVL 334
                              9********76.666 PP

  == domain 5  score: 7.1 bits;  conditional E-value: 0.0083
                              HHHHHHHHHHTT-HHHHHHH. CS
                    TPR_3   4 lysyAaefynkkkyqeArelf 24 
                              +y ++a  ++   yqeA+e+f
  PHY93_02530|PHY93_02530 344 IYYLGALNQQTNHYQEAIEFF 364
                              78899***************5 PP

  == domain 6  score: 2.0 bits;  conditional E-value: 0.31
                              HHHHHHHHTT-HHHHH CS
                    TPR_3   6 syAaefynkkkyqeAr 21 
                              s+A  +++ +ky eA+
  PHY93_02530|PHY93_02530 530 SLAWYYFQTGKYKEAL 545
                              678889********96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (614 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       847  (0.0472419); expected 358.6 (0.02)
Passed bias filter:                      496  (0.0276647); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                        27  (0.00150594); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              27  [number of targets reported over threshold]
# CPU time: 0.82u 0.32s 00:00:01.13 Elapsed: 00:00:00.57
# Mc/sec: 3216.75
//
Query:       PHY93_02535|PHY93_02535  [L=121]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.3e-25   89.2   5.5    1.9e-25   88.7   5.5    1.3  1  PHB_acc_N  PHB/PHA accumulation regulator DNA-binding domain
     0.0053   17.0   0.5        0.1   12.9   0.2    2.3  2  LytTR      LytTr DNA-binding domain


Domain annotation for each model (and alignments):
>> PHB_acc_N  PHB/PHA accumulation regulator DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.7   5.5   2.1e-29   1.9e-25       1      60 [.       8      67 ..       8      68 .. 0.98

  Alignments for each domain:
  == domain 1  score: 88.7 bits;  conditional E-value: 2.1e-29
                PHB_acc_N  1 lIKkYaNRrLYdtetssYitlediaelvregeevkVvDaktgeDiTrsillqiileeekk 60
                             +IK+Y+NR+LYdt++s+Y+tle+ia++vreg+e++V+D+kt++DiT  + +q ++++ekk
  PHY93_02535|PHY93_02535  8 IIKRYQNRKLYDTHQSCYVTLEEIAQIVREGNEIQVIDNKTKNDITYITQIQLLFDQEKK 67
                             7*********************************************************97 PP

>> LytTR  LytTr DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.9   0.2   1.1e-05       0.1      39      74 ..       8      42 ..       1      53 [. 0.81
   2 ?    2.5   0.0     0.019   1.7e+02      25      44 ..      81     100 ..      50     105 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 1.1e-05
                    LytTR 39 leeklppdsffrvhRsylVnlkkikeidrdfngtle 74
                             + +++++++++ +h+s+ V l++i +i r++n +++
  PHY93_02535|PHY93_02535  8 IIKRYQNRKLYDTHQSCYVTLEEIAQIVREGN-EIQ 42
                             56889999********************9966.333 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.019
                    LytTR  25 teneeylfrgtLkeleeklp 44 
                                +ee +f+g +k+le+kl 
  PHY93_02535|PHY93_02535  81 IRSEEGTFTGYIKSLEKKLG 100
                              45789999999999999996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (121 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       896  (0.0499749); expected 358.6 (0.02)
Passed bias filter:                      465  (0.0259356); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.26s 00:00:00.78 Elapsed: 00:00:00.48
# Mc/sec: 752.44
//
Query:       PHY93_05965|PHY93_05965  [L=398]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.41   10.7   3.8       0.73    9.9   0.1    3.0  3  Stomagen  Stomagen


Domain annotation for each model (and alignments):
>> Stomagen  Stomagen
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.0     0.099   1.8e+03      40      45 ..     184     189 ..     181     191 .. 0.89
   2 ?   -0.3   0.1     0.064   1.1e+03      23      36 ..     258     271 ..     255     275 .. 0.84
   3 ?    9.9   0.1   4.1e-05      0.73       5      19 ..     275     289 ..     271     293 .. 0.87

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 0.099
                 Stomagen  40 nsaYhY 45 
                              nsaY+Y
  PHY93_05965|PHY93_05965 184 NSAYKY 189
                              9***** PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.064
                 Stomagen  23 rtkCraeqvPvdan 36 
                              +  C++ +vP +++
  PHY93_05965|PHY93_05965 258 KLTCSVPDVPCNNG 271
                              789*******9875 PP

  == domain 3  score: 9.9 bits;  conditional E-value: 4.1e-05
                 Stomagen   5 lliGstaPtCtYnEC 19 
                              l+  s aP Ct+nE 
  PHY93_05965|PHY93_05965 275 LMTASNAPICTFNET 289
                              6889*********96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (398 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       579  (0.032294); expected 358.6 (0.02)
Passed bias filter:                      424  (0.0236488); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.61u 0.26s 00:00:00.87 Elapsed: 00:00:00.48
# Mc/sec: 2506.75
//
Query:       PHY93_02540|PHY93_02540  [L=225]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
      1e-05   25.8   0.5    1.5e-05   25.2   0.5    1.3  1  OMP_b-brl  Outer membrane protein beta-barrel domain


Domain annotation for each model (and alignments):
>> OMP_b-brl  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.2   0.5   8.5e-10   1.5e-05       4     156 ..      14     199 ..      11     215 .. 0.59

  Alignments for each domain:
  == domain 1  score: 25.2 bits;  conditional E-value: 8.5e-10
                OMP_b-brl   4 lllaalsaaaaa..assfggfyvggglglskvkvdgv...gsds.........gfgfgvgagyef.........ndnvgvegglsy 66 
                              +l+a++s +++a  ++ ++++++ +  +  + ++ ++   +sds         +  +g+g+g  f         nd++  ++ ++y
  PHY93_02540|PHY93_02540  14 VLMAGVSFSPQAlsEEKQVKPNIHLLTNDKTSQK-ANigaTSDSneripgeihKHSLGIGVGQTFlrsdlgdngNDKITADLYYNY 98 
                              5778888887775577778888888887665554.222334444678888887455555555544333332211444333333333 PP

                OMP_b-brl  67 sgdkdysgs............gktdikinllsvpvnagyafnlsdsvlpyggaGlg.....ytkvevdvsgngasdsdtdfglglg 135
                                + +ys +             +   +i+ l + ++ +  f++ d ++p++++Glg      ++ + +v    ++ ++  fg+++g
  PHY93_02540|PHY93_02540  99 --SASYSFDfvanahysehtyLNRQSTIRGLVLAIKGKG-FQF-DAFSPFVLGGLGfylpsASRIQNNVPT--ETRKQLVFGVNVG 178
                              ..2222222332333433233333334444445555443.664.77**********766553333444444..5999999****** PP

                OMP_b-brl 136 aGveyaladnwslkaeYrytd 156
                              aGve +l++++++++   y d
  PHY93_02540|PHY93_02540 179 AGVELRLNSDVTVGVILHYHD 199
                              ************998666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (225 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       304  (0.0169558); expected 358.6 (0.02)
Passed bias filter:                      267  (0.0148921); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.25s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1466.08
//
Query:       PHY93_02545|PHY93_02545  [L=265]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.5e-09   37.5   4.2    2.7e-07   30.1   4.0    2.7  2  ArsA_ATPase      Anion-transporting ATPase
    2.7e-05   24.2   0.6    6.3e-05   23.0   0.6    1.6  1  CbiA             CobQ/CobB/MinD/ParA nucleotide binding domai
    4.6e-05   23.0   0.2    0.00011   21.8   0.2    1.6  1  ParA             NUBPL iron-transfer P-loop NTPase
    0.00048   20.5   0.2     0.0012   19.3   0.1    1.9  1  AAA_16           AAA ATPase domain
     0.0005   19.9   0.8     0.0038   17.1   0.2    2.2  2  AAA_26           AAA domain
     0.0007   19.6   0.1     0.0017   18.4   0.0    1.7  1  Glyco_transf_28  Glycosyltransferase family 28 N-terminal dom
    0.00079   19.4   0.2     0.0014   18.6   0.2    1.3  1  NTPase_1         NTPase
     0.0017   18.9   0.0     0.0031   18.0   0.0    1.5  1  AAA_23           AAA domain
     0.0032   17.4   3.9     0.0038   17.2   1.0    2.2  2  AAA_31           AAA domain
     0.0033   17.2   0.0     0.0056   16.4   0.0    1.3  1  IstB_IS21        IstB-like ATP binding protein
     0.0038   17.2   2.4       0.98    9.4   0.9    2.2  2  ResIII           Type III restriction enzyme, res subunit
     0.0051   16.7   0.0      0.013   15.4   0.0    1.6  1  APS_kinase       Adenylylsulphate kinase
     0.0053   16.5   0.0     0.0083   15.9   0.0    1.3  1  AAA_30           AAA domain
  ------ inclusion threshold ------
      0.011   16.3   0.1      0.055   14.0   0.0    2.0  2  AAA_18           AAA domain
      0.023   15.2   0.0      0.046   14.2   0.0    1.6  1  ABC_tran         ABC transporter
      0.027   14.5   0.1      0.077   13.0   0.1    1.8  1  AAA_14           AAA domain
      0.038   13.3   0.0      0.077   12.3   0.0    1.4  1  ATPase           KaiC
      0.048   13.6   0.2       0.14   12.1   0.0    1.9  1  NACHT            NACHT domain
      0.054   13.4   0.3       0.42   10.5   0.1    2.2  2  MobB             Molybdopterin guanine dinucleotide synthesis
      0.074   12.3   0.0       0.15   11.3   0.0    1.4  1  Zeta_toxin       Zeta toxin
      0.074   12.8   0.0       0.13   11.9   0.0    1.4  1  PRK              Phosphoribulokinase / Uridine kinase family
      0.075   13.3   0.2       0.19   12.0   0.0    1.7  1  AAA_22           AAA domain
      0.076   12.5   0.0       0.15   11.5   0.0    1.5  1  KTI12            Chromatin associated protein KTI12
      0.086   12.6   0.0       0.17   11.6   0.0    1.5  1  AAA_29           P-loop containing region of AAA domain
      0.091   11.9   0.0       0.14   11.3   0.0    1.3  1  NB-ARC           NB-ARC domain
      0.095   12.2   0.0       0.15   11.5   0.0    1.3  1  AAA_7            P-loop containing dynein motor region
       0.11   13.0   0.1       0.25   11.8   0.1    1.7  1  AAA              ATPase family associated with various cellul
       0.12   12.0   0.0       0.28   10.8   0.0    1.6  1  Thymidylate_kin  Thymidylate kinase
       0.15   11.1   0.0       0.24   10.4   0.0    1.4  1  T2SSE            Type II/IV secretion system protein
       0.16   12.3   1.0       0.29   11.5   1.0    1.6  1  AAA_19           AAA domain
        0.2   11.2   0.2       0.56    9.8   0.1    1.7  2  AAA_25           AAA domain
       0.24   10.7   1.1        1.1    8.4   0.1    2.3  2  MipZ             ATPase MipZ
        0.8    9.4   4.0        2.5    7.8   1.7    2.3  2  AAA_24           AAA domain


Domain annotation for each model (and alignments):
>> ArsA_ATPase  Anion-transporting ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.1   4.0     5e-10   2.7e-07       2     167 ..       7     162 ..       6     206 .. 0.75
   2 ?    2.4   0.1      0.13        72     191     233 ..     151     193 ..     146     237 .. 0.83

  Alignments for each domain:
  == domain 1  score: 30.1 bits;  conditional E-value: 5e-10
                              EEEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEE-STTTHHHHHHTS--BSS-EEET..SSEEEEE--HHHHHHHHHCCHHGGGS CS
              ArsA_ATPase   2 kvilvgGKGGVGKttvsaatavklsekgkkvllistDPAhslsDsfdqklgkeptkvk..eNLsavEidpeveleeakqevqkeee 85 
                              ++ +++GKGGVGKtt++ a+  +l ++g +v              f q   + +++++   NL ++E+ +e  +e + ++  + ++
  PHY93_02545|PHY93_02545   7 RLYIITGKGGVGKTTIAMAFTKYLQKQGVNVK----------YNCFHQ---HPEIALEkkLNLPTIEMSIEASAEIYIGRKLNSTT 79 
                              67789**********************98873..........245555...66666664468888888888777777777666555 PP

                              CCHHHHHHHHHHHHHHTSSTTHHHHHHHHHHHHHHHCSSSSEEEEESBSCCHTCGGGGHHHHHHHHHHHHHHHHH..HHHHHHH CS
              ArsA_ATPase  86 allgleeledvlaeelaslPGideilsfeellkyvkeeeydvvvlDtaPTGhtlrllslpevleklleklvklke..klsplak 167
                               +    ++++++++  + +PG+  ++ + +l+ +++ +   v+vlD++  Gh+l +++  ++++++++  + +k+  +++ ++k
  PHY93_02545|PHY93_02545  80 -IASWIMKTHFFKSLFQMIPGLGHMILLGHLISELNLDPSLVIVLDSPASGHALTMFESTSNFKAIFNTGLVVKDidIMQTFLK 162
                              .66678999***************************9999*********************99999986444443224444443 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.13
                              HHHHHHHHHHHTSTTTEEEEEEEESSHHHHHHHHHHHHHHHHT CS
              ArsA_ATPase 191 keeikkveeiltdpertsfrlVvipEklslkEteRaikeLkky 233
                              +++i  ++  l+ p+     +V+ + +lsl E + + +eL + 
  PHY93_02545|PHY93_02545 151 VKDIDIMQTFLKGPNNLKTHVVTLATELSLSEAQDLKNELDNN 193
                              56788889999999999999**************999999764 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.0   0.6   1.2e-07   6.3e-05       2      30 ..       9      37 ..       8      39 .. 0.93

  Alignments for each domain:
  == domain 1  score: 23.0 bits;  conditional E-value: 1.2e-07
                             EEEESSTTSSHHHHHHHHHHHHHHTT--E CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     CbiA  2 aiastkGGvGKTtlaanLaralarrglrV 30
                              i+ +kGGvGKTt+a ++ ++l+++g +V
  PHY93_02545|PHY93_02545  9 YIITGKGGVGKTTIAMAFTKYLQKQGVNV 37
                             5899**********************988 PP

>> ParA  NUBPL iron-transfer P-loop NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.8   0.2   1.9e-07   0.00011       4      35 ..       6      37 ..       4      39 .. 0.93

  Alignments for each domain:
  == domain 1  score: 21.8 bits;  conditional E-value: 1.9e-07
                     ParA  4 kviavlSgKGGVGKStvavnlAlaLakkglkv 35
                             + + ++ gKGGVGK+t+a+ ++  L+k+g++v
  PHY93_02545|PHY93_02545  6 HRLYIITGKGGVGKTTIAMAFTKYLQKQGVNV 37
                             77899************************988 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.3   0.1   2.1e-06    0.0012      25      63 ..       7      45 ..       2     125 .. 0.84

  Alignments for each domain:
  == domain 1  score: 19.3 bits;  conditional E-value: 2.1e-06
                   AAA_16 25 elvllsGesGvGKsslvrellralekdggiflrgkcdql 63
                             +l +++G  GvGK++++ ++ ++l+k+g+ + +  ++q+
  PHY93_02545|PHY93_02545  7 RLYIITGKGGVGKTTIAMAFTKYLQKQGVNVKYNCFHQH 45
                             6789***********************877777666666 PP

>> AAA_26  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.2     7e-06    0.0038       1      38 [.       6      43 ..       6      68 .. 0.88
   2 ?    1.0   0.0      0.59   3.2e+02      35     103 ..     141     205 ..     131     221 .. 0.71

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 7e-06
                   AAA_26  1 rtifvtgtdtgvGKTvvslgLvralkrkgvkvgyfKPi 38
                             +++++++   gvGKT+++++ +++l+++gv+v+y +  
  PHY93_02545|PHY93_02545  6 HRLYIITGKGGVGKTTIAMAFTKYLQKQGVNVKYNCFH 43
                             579*******************************7755 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.59
                   AAA_26  35 fKPiqtgieededselikellgldqtyelpeplalsaplspelaarqegedidlekivkelekdadivv 103
                              fK i +     +d++ ++++l+ + + + +  ++l+++ls + a+++++   +l++   + e+ +d+vv
  PHY93_02545|PHY93_02545 141 FKAIFNTGLVVKDIDIMQTFLKGPNNLK-THVVTLATELSLSEAQDLKN---ELDNNLPDTEAHCDLVV 205
                              6666444446789999999999998888.77788887776655555555...44444477788888887 PP

>> Glyco_transf_28  Glycosyltransferase family 28 N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0   3.1e-06    0.0017       2      57 ..      10      70 ..       9     100 .. 0.76

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 3.1e-06
                             EEEE-SSHHHHHHHHHHHHHHHCTT-EEEEEEETCCCHHHHHHCCT-EEEE---G.....H CS
          Glyco_transf_28  2 vllggGTgGhvfPalAlakeLkkegheVrylgtkrgleerlveeaglefepiage.....k 57
                             +++g G  G  ++a+A++k+L+k+g++V+y + ++  e  l+++ +l++ ++++e      
  PHY93_02545|PHY93_02545 10 IITGKGGVGKTTIAMAFTKYLQKQGVNVKYNCFHQHPEIALEKKLNLPTIEMSIEasaeiY 70
                             78999************************99999999988878888887776666434442 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.2   2.5e-06    0.0014       3      31 ..      10      38 ..       8      44 .. 0.95

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 2.5e-06
                             EEE--TTSSHHHHHHHHHHHH...GGGEE CS
                 NTPase_1  3 fiTGppGvGKtTlvkkvlellkssgvkvg 31
                             +iTG+ GvGKtT+    ++ l+++gv+v+
  PHY93_02545|PHY93_02545 10 IITGKGGVGKTTIAMAFTKYLQKQGVNVK 38
                             8*************************996 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.0   5.7e-06    0.0031      19      86 ..       6      70 ..       3     235 .. 0.74

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 5.7e-06
                   AAA_23 19 kgltlItGpNGaGKTTildAiklaLygetprlsrksgrgfeksdveiesegkvkay.veltfenkdgry 86
                             + l++ItG+ G GKTTi  A++  L  +  + +   + +++++ +ei+ e+k +   +e+++e   ++y
  PHY93_02545|PHY93_02545  6 HRLYIITGKGGVGKTTIAMAFTKYLQKQ--GVNV--KYNCFHQHPEIALEKKLNLPtIEMSIEASAEIY 70
                             6799*************99999877764..3333..667777777877776654445777777766655 PP

>> AAA_31  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   1.0     7e-06    0.0038       6      33 ..      10      37 ..       7     134 .. 0.78
   2 ?    1.0   0.1      0.66   3.6e+02      68     124 ..     155     207 ..     105     212 .. 0.67

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 7e-06
                   AAA_31  6 ianqKGGvGKTTtsvnlaaalaklgkkv 33
                             i+  KGGvGKTT ++++ + l k+g  v
  PHY93_02545|PHY93_02545 10 IITGKGGVGKTTIAMAFTKYLQKQGVNV 37
                             6778********************9887 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.66
                   AAA_31  68 nikeaiiktkvenldlipssidLaeaeielvelekkeeilkellekvkdeYDyiiiD 124
                              +i ++      + ++ + +++   + e +l e+++ ++ l++ l + + + D+++ D
  PHY93_02545|PHY93_02545 155 DIMQTFL----KGPNNLKTHVVTLATELSLSEAQDLKNELDNNLPDTEAHCDLVVND 207
                              3333333....3445556666666778888888888999999999999999988877 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.0     1e-05    0.0056      47      83 ..       6      42 ..       3      64 .. 0.89

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 1e-05
                IstB_IS21 47 kenivllGpsGvGKshlaialgveavraglsvlfvrv 83
                             +   +++G  GvGK+ +a+a+ +   ++g++v +   
  PHY93_02545|PHY93_02545  6 HRLYIITGKGGVGKTTIAMAFTKYLQKQGVNVKYNCF 42
                             56679***************************99765 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.4   0.9    0.0018      0.98      25      53 ..       7      35 ..       4      53 .. 0.85
   2 !    7.1   0.0    0.0094       5.1      22     143 ..      87     217 ..      56     243 .. 0.68

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.0018
                             SEEEEEESTTSTHHHHHHHHHHHH-S... CS
                   ResIII 25 krglikmaTGtGKTlvaaklierllkkgk 53
                             + ++i    G+GKT +a++++++l+k+g 
  PHY93_02545|PHY93_02545  7 RLYIITGKGGVGKTTIAMAFTKYLQKQGV 35
                             457799999***************99865 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0094
                              .TTSEEEEEESTTSTHHHHHHHHHHHH-S.....-EEEEESSHHHHHHHHHHGGGGTGG...............GEEEESSS-B-- CS
                   ResIII  22 krdkrglikmaTGtGKTlvaaklierllkkgkeekflflvprkslleqtleefkkflseayke...........igkkvsgdkkka 96 
                              ++  + l++m  G G  +++ +li +l         l++v        +l+ f+++++ ++ +            +++++g ++ +
  PHY93_02545|PHY93_02545  87 THFFKSLFQMIPGLGHMILLGHLISELNLD----PSLVIVLDSPASGHALTMFESTSNFKAIFntglvvkdidiMQTFLKGPNNLK 168
                              6677999*********9999*****99997....5577777777788888888888888776654444444444444455555555 PP

                              .......-SEEEEEHHHHHHTH........HHHTTT-S..EEEEE......TGGG CS
                   ResIII  97 kekdstnkkilvttiqsldadseeeeeeseellrdrfd..viiiD......EaHr 143
                                    +  ++++t+ sl+++++ ++e ++ l +++    ++++D      E H+
  PHY93_02545|PHY93_02545 169 ------THVVTLATELSLSEAQDLKNELDNNLPDTEAHcdLVVNDsfkkffEYHH 217
                              ......5556667777777777666666665555544444888884444444455 PP

>> APS_kinase  Adenylylsulphate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   2.4e-05     0.013       6      34 ..      10      38 ..       6      41 .. 0.91

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 2.4e-05
                             EEESSTTSSHHHHHHHHHHHHHHTT--EE CS
               APS_kinase  6 wltGlsgsGKstianalekkLvekgisvy 34
                              +tG  g GK+tia+a+ k+L+++g++v+
  PHY93_02545|PHY93_02545 10 IITGKGGVGKTTIAMAFTKYLQKQGVNVK 38
                             58***********************9875 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.0   1.5e-05    0.0083      18      64 ..       6      52 ..       3     127 .. 0.62

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 1.5e-05
                   AAA_30 18 drvavltGpAGtGKttalkalreaweaaggrviglAptgkaAkvLae 64
                             +r+ ++tG  G GKtt+  a ++ ++++g +v      +    +L++
  PHY93_02545|PHY93_02545  6 HRLYIITGKGGVGKTTIAMAFTKYLQKQGVNVKYNCFHQHPEIALEK 52
                             5799*************************777665555555444543 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0    0.0001     0.055       2      40 ..      10      49 ..      10      76 .. 0.74
   2 ?   -0.6   0.0       3.3   1.8e+03      49      89 ..     179     216 ..     148     223 .. 0.65

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 0.0001
                   AAA_18  2 lltGtpGvGKttla....keLskrlgfgvnlrdvakengllle 40
                             ++tG+ GvGKtt+a    k+L+k    gvn++ ++++ ++++ 
  PHY93_02545|PHY93_02545 10 IITGKGGVGKTTIAmaftKYLQKQ---GVNVKYNCFHQHPEIA 49
                             79**********982222445555...7888777777666655 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 3.3
                   AAA_18  49 skrldedkldklldaleenssaleegknlvidghlaelese 89 
                              s+ + +d  ++l ++l      +++++ +v d++   +e++
  PHY93_02545|PHY93_02545 179 SLSEAQDLKNELDNNLPDT---EAHCDLVVNDSFKKFFEYH 216
                              4444555555555555554...4567766666666555554 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   8.6e-05     0.046      10      45 ..       5      40 ..       1      79 [. 0.82

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 8.6e-05
                             TTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEET CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran 10 egekvaivGenGaGKStLlkllagllkpteGeilld 45
                             + +++ i+G+ G GK+t+++++++ l+++  +++++
  PHY93_02545|PHY93_02545  5 HHRLYIITGKGGVGKTTIAMAFTKYLQKQGVNVKYN 40
                             567899******************999887777665 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.1   0.00014     0.077       2      49 ..       6      53 ..       5      74 .. 0.70

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 0.00014
                   AAA_14  2 rkilvitGaRrvGKTtllkqlikellvkkesilyinldderdkkladp 49
                             +++++itG   vGKTt++  + k l  +  ++ y  + ++++ +l+++
  PHY93_02545|PHY93_02545  6 HRLYIITGKGGVGKTTIAMAFTKYLQKQGVNVKYNCFHQHPEIALEKK 53
                             5789**************999987776666666666766666554433 PP

>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   0.00014     0.077      18      56 ..       5      42 ..       3      66 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00014
                   ATPase 18 egrvvlitGepGtGKtifalqFlikgaekygepgvfvtv 56
                             + r + itG+ G GKt++a+ F+    +k g ++ +  +
  PHY93_02545|PHY93_02545  5 HHRLYIITGKGGVGKTTIAMAFTKYL-QKQGVNVKYNCF 42
                             67999*****************8655.343666666555 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   0.00025      0.14       1      32 [.       7      38 ..       7      58 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00025
                             SCEEEEC-TTTCHHHHHHHHHHHHCTS-SCCC CS
                    NACHT  1 rlvilqGeaGsGKTtLlqklalawaegklpqg 32
                             rl i++G+ G+GKTt +  +   ++++  + +
  PHY93_02545|PHY93_02545  7 RLYIITGKGGVGKTTIAMAFTKYLQKQGVNVK 38
                             6789****************999999887654 PP

>> MobB  Molybdopterin guanine dinucleotide synthesis protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.1   0.00077      0.42       4      32 ..      11      39 ..       8      54 .. 0.82
   2 ?    0.1   0.0       1.3     7e+02      69     101 ..     179     211 ..     168     216 .. 0.67

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00077
                     MobB  4 ivgksgsGKTtLleklipelkarglrvgt 32
                             i+gk g GKTt+     + l+++g++v +
  PHY93_02545|PHY93_02545 11 ITGKGGVGKTTIAMAFTKYLQKQGVNVKY 39
                             789**********************9975 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 1.3
                     MobB  69 alikeleeaelsleellarl.sevDlvlvEGfkk 101
                               l +  ++ + +l++ l  + +++Dlv+   fkk
  PHY93_02545|PHY93_02545 179 SLSEA-QDLKNELDNNLPDTeAHCDLVVNDSFKK 211
                              34333.44466788888888456****9999997 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00027      0.15      18      47 ..       8      37 ..       4      53 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00027
               Zeta_toxin 18 lillgGqpGAGKselaellkdelerqgnvv 47
                             l+++ G  G GK+++a +++++l++qg  v
  PHY93_02545|PHY93_02545  8 LYIITGKGGVGKTTIAMAFTKYLQKQGVNV 37
                             79*********************7666443 PP

>> PRK  Phosphoribulokinase / Uridine kinase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   0.00025      0.13       4      38 ..      11      42 ..       9      69 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00025
                      PRK  4 vagsSGaGkttvarklekifgrekvkaaeiegdsf 38
                             ++g+ G Gktt+a +++k +++++v+   +++  f
  PHY93_02545|PHY93_02545 11 ITGKGGVGKTTIAMAFTKYLQKQGVN---VKYNCF 42
                             89*******************88888...333333 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   0.00034      0.19       5      31 ..       6      32 ..       4      66 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00034
                   AAA_22  5 agilvvtGesGtGKTtllrrlleqlde 31
                             +++ ++tG  G+GKTt +  +++ l++
  PHY93_02545|PHY93_02545  6 HRLYIITGKGGVGKTTIAMAFTKYLQK 32
                             6889**************999998864 PP

>> KTI12  Chromatin associated protein KTI12
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00027      0.15       3      34 ..       8      39 ..       2      80 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00027
                             EEEEE--TTSSHHHHHHHHHHHHHHTT--EEE CS
                    KTI12  3 LvvltGlPssGKstrakeLakaleeekrsvvv 34
                             L ++tG   +GK+t+a  + k+l++++ +v +
  PHY93_02545|PHY93_02545  8 LYIITGKGGVGKTTIAMAFTKYLQKQGVNVKY 39
                             679**********************9998876 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00032      0.17      23      55 ..       7      40 ..       1      42 [. 0.79

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00032
                   AAA_29 23 gatlltGpsGsGKSTllDAiqalLvpak.kvrfN 55
                               +++tG+ G+GK+T+  A++  L  +  +v++N
  PHY93_02545|PHY93_02545  7 RLYIITGKGGVGKTTIAMAFTKYLQKQGvNVKYN 40
                             4689************989888887777677777 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00025      0.14      24      44 ..      10      30 ..       5      89 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00025
                             EEEESTTSSHHHHHHHHCCSH CS
                   NB-ARC 24 alvGmgGvGKttlakqilnks 44
                              + G+gGvGKtt+a    + +
  PHY93_02545|PHY93_02545 10 IITGKGGVGKTTIAMAFTKYL 30
                             589**********97655543 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00028      0.15      31      69 ..       4      42 ..       1      54 [. 0.83

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00028
                    AAA_7 31 knkkpvllvGptGtGKtviikdllkkldkekylsltinf 69
                             ++++  +++G+ G+GKt+i++ ++k l+k+ ++++   f
  PHY93_02545|PHY93_02545  4 AHHRLYIITGKGGVGKTTIAMAFTKYLQKQGVNVKYNCF 42
                             57778899********************88777765555 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.1   0.00045      0.25       2      31 ..      10      39 ..       9      81 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00045
                             EEESSTTSSHHHHHHHHHHHHTHEEEEEET CS
                      AAA  2 llyGppGtGKTllakavakelgvefleisg 31
                             +++G  G+GKT++a a  k l+ + ++++ 
  PHY93_02545|PHY93_02545 10 IITGKGGVGKTTIAMAFTKYLQKQGVNVKY 39
                             6899***************99766555554 PP

>> Thymidylate_kin  Thymidylate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   0.00051      0.28       3      27 ..      13      37 ..      11      48 .. 0.87

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00051
                             ESTTSSHHHHHHHHHHHHHHTTE.E CS
          Thymidylate_kin  3 GlDGaGKttqaellkerlkeegikv 27
                             G  G+GKtt+a+++ ++l+++g +v
  PHY93_02545|PHY93_02545 13 GKGGVGKTTIAMAFTKYLQKQGVNV 37
                             6679******************875 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0   0.00043      0.24     126     159 ..       3      36 ..       1      68 [. 0.88

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00043
                    T2SSE 126 vrerglilvsGgTgsGKttllyallkeinksder 159
                              ++++ l +++G  g GKtt++ a  k+++k+  +
  PHY93_02545|PHY93_02545   3 LAHHRLYIITGKGGVGKTTIAMAFTKYLQKQGVN 36 
                              5678999********************9998554 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   1.0   0.00053      0.29       9      62 ..       5      54 ..       2     205 .. 0.59

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00053
                   AAA_19  9 kekvllvtaGpGtGKTrvlkhivallvelggvkpeeillvaftgrAakelrerl 62
                             ++++ ++t+  G GKT++ ++  ++l+++g     ++   +f ++    l+++l
  PHY93_02545|PHY93_02545  5 HHRLYIITGKGGVGKTTIAMAFTKYLQKQGV----NVKYNCFHQHPEIALEKKL 54
                             678999***************9999999983....4555555555555555554 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.1     0.001      0.56      32      52 ..       5      25 ..       2      28 .. 0.87
   2 ?   -2.2   0.0       4.7   2.5e+03     136     155 ..     196     213 ..     161     228 .. 0.61

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.001
                   AAA_25 32 agelallaGapgtGKttlald 52
                              + l +++G +g+GKtt+a+ 
  PHY93_02545|PHY93_02545  5 HHRLYIITGKGGVGKTTIAMA 25
                             57789*************985 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 4.7
                   AAA_25 136 aieevegvrlvviDplsral 155
                              + e+ +  +lvv D++++++
  PHY93_02545|PHY93_02545 196 DTEA-H-CDLVVNDSFKKFF 213
                              2233.2.5777777777766 PP

>> MipZ  ATPase MipZ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.4   0.1    0.0021       1.1       7      32 ..      12      37 ..       6      41 .. 0.87
   2 ?   -0.2   0.1      0.91     5e+02      72     107 ..     174     208 ..     161     213 .. 0.75

  Alignments for each domain:
  == domain 1  score: 8.4 bits;  conditional E-value: 0.0021
                             -SSTTSSHHHHHHHHHHHHHTTT--E CS
                     MipZ  7 nekGGsGksttavhvavaLlkkGarv 32
                               kGG Gk+t+a+     L k+G++v
  PHY93_02545|PHY93_02545 12 TGKGGVGKTTIAMAFTKYLQKQGVNV 37
                             57*********************988 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.91
                              S-HHHHTTS-HHHHHHHHHHHHHHHHHH-SEEEEE- CS
                     MipZ  72 eaeeaeveeeeeaevaeleelvadleaeldfividt 107
                               a e +++e ++ + +el++ + d+ea++d++v d+
  PHY93_02545|PHY93_02545 174 LATELSLSEAQDLK-NELDNNLPDTEAHCDLVVNDS 208
                              44555566666665.899999999******999885 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   1.7    0.0046       2.5       6      25 ..      10      28 ..       6     127 .. 0.78
   2 ?    1.5   0.0      0.38   2.1e+02      48      79 ..     182     214 ..     147     219 .. 0.78

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0046
                   AAA_24  6 liyGpsgiGKTtlakelgpk 25
                             +i+G+ g+GKTt+a  +  k
  PHY93_02545|PHY93_02545 10 IITGKGGVGKTTIAMAF-TK 28
                             79************988.33 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.38
                   AAA_24  48 swedfldevvel.aaeladyktlviDtidelee 79 
                                +d+++e++ + ++ +a+++ +v D+  ++ e
  PHY93_02545|PHY93_02545 182 EAQDLKNELDNNlPDTEAHCDLVVNDSFKKFFE 214
                              5677777777778999999*******9999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (265 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       806  (0.0449551); expected 358.6 (0.02)
Passed bias filter:                      667  (0.0372023); expected 358.6 (0.02)
Passed Vit filter:                       118  (0.00658152); expected 17.9 (0.001)
Passed Fwd filter:                        33  (0.00184059); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              33  [number of targets reported over threshold]
# CPU time: 0.68u 0.29s 00:00:00.97 Elapsed: 00:00:00.46
# Mc/sec: 1717.17
//
Query:       PHY93_02550|PHY93_02550  [L=349]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.1e-23   83.9   3.7    3.4e-23   82.3   3.2    2.0  1  ArsA_ATPase  Anion-transporting ATPase
    2.4e-12   47.2   2.0    2.4e-12   47.1   0.4    1.8  2  AAA_31       AAA domain
    6.6e-08   32.7   0.0    1.1e-07   31.9   0.0    1.7  1  CbiA         CobQ/CobB/MinD/ParA nucleotide binding domain
    2.8e-05   23.7   1.2    0.00027   20.5   1.2    2.3  1  ParA         NUBPL iron-transfer P-loop NTPase
    8.8e-05   22.2   0.3     0.0063   16.2   0.3    2.4  2  SRP54        SRP54-type protein, GTPase domain
     0.0015   18.1   0.1      0.012   15.0   0.0    2.4  3  CBP_BcsQ     Cellulose biosynthesis protein BcsQ
     0.0035   16.8   0.1     0.0073   15.8   0.1    1.6  1  Fer4_NifH    4Fe-4S iron sulfur cluster binding proteins, Nif
     0.0068   16.2   1.3       0.25   11.1   0.0    2.6  2  ATP_bind_1   Conserved hypothetical ATP binding protein
     0.0098   15.5   0.7      0.026   14.1   0.4    1.7  2  AAA_25       AAA domain
  ------ inclusion threshold ------
      0.013   15.3   0.0      0.028   14.1   0.0    1.5  1  IstB_IS21    IstB-like ATP binding protein
      0.053   12.5   0.1       0.17   10.8   0.1    1.7  2  MeaB         Methylmalonyl Co-A mutase-associated GTPase MeaB
      0.067   12.5   0.0       0.14   11.4   0.0    1.6  1  ATPase       KaiC
      0.079   12.4   0.1       0.18   11.2   0.1    1.6  1  PhoH         PhoH-like protein
        5.6    7.5   6.1         12    6.5   3.3    2.7  2  AAA_18       AAA domain


Domain annotation for each model (and alignments):
>> ArsA_ATPase  Anion-transporting ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   82.3   3.2   2.6e-26   3.4e-23       3     160 ..       8     171 ..       6     308 .. 0.85

  Alignments for each domain:
  == domain 1  score: 82.3 bits;  conditional E-value: 2.6e-26
                              EEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEE-STTTHHHHHHTS--BSS..-EEETSSEEEEE--HH...HHHHHHHCCHHGG CS
              ArsA_ATPase   3 vilvgGKGGVGKttvsaatavklsekgkkvllistDPAhslsDsfdqklgke..ptkvkeNLsavEidpe...veleeakqevqke 83 
                              v ++ G GGVGKtt+++a a+ l+ ++kkvlli+ DPA  l  +++ k + +     ++  L+  E + +   + ++   +  + +
  PHY93_02550|PHY93_02550   8 VEIFCGTGGVGKTTIATARALTLALEDKKVLLITIDPAKRLKQILNMKDNDDgmINTISLDLFGYEKEKSfdaMLMSPRATLQKMA 93 
                              55799******************************************87665114567799*****99997653333333334445 PP

                              GSCCHHHHHHHHHHHHHHTSSTTHHHHHHHHHHHHHHHCSSSSEEEEESBSCCHTCGGGGHHHHHHHHHHH.HHHHHH CS
              ArsA_ATPase  84 eeallgleeledvlaeelaslPGideilsfeellkyvkeeeydvvvlDtaPTGhtlrllslpevlekllek.lvklke 160
                              +e+ l++e  + +++  +    G++ei+s  e++  ++++ yd+++lDt+P  h + +l+  e ++++++k ++++ e
  PHY93_02550|PHY93_02550  94 AEKNLHAEFDSTIIKTLSRPYGGMNEIMSIIEVQTQLEKNYYDTIILDTPPGKHFIDFLESSEKIKNFFDKsFLEIFE 171
                              66779999***********************************************************99873445555 PP

>> AAA_31  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.1   0.4   1.9e-15   2.4e-12       7     128 ..      11     145 ..       5     151 .. 0.74
   2 ?   -1.6   0.1       1.7   2.2e+03     108     115 ..     280     287 ..     217     326 .. 0.56

  Alignments for each domain:
  == domain 1  score: 47.1 bits;  conditional E-value: 1.9e-15
                   AAA_31   7 anqKGGvGKTTtsvnlaaalaklgkkvLlvDlDpQanattglgiekneiektlyevl.....ieeknikeaiiktkvenldlipss 87 
                                  GGvGKTT +++ a +la ++kkvLl+ +Dp + + + l+++ n+ + +++++       e+++  +a+  +   +l+ + ++
  PHY93_02550|PHY93_02550  11 FCGTGGVGKTTIATARALTLALEDKKVLLITIDPAKRLKQILNMKDND-DGMINTISldlfgYEKEKSFDAMLMSPRATLQKMAAE 95 
                              5567************************************99985555.3444444234445566666666666888999999999 PP

                   AAA_31  88 idL.aeaeielvelekk........eeilkellekvkdeYDyiiiDcpPs 128
                               +L ae++  ++++ ++         +i++ + +  k+ YD ii+D+pP 
  PHY93_02550|PHY93_02550  96 KNLhAEFDSTIIKTLSRpyggmneiMSIIEVQTQLEKNYYDTIILDTPPG 145
                              9984679999999999988888543333344444445559*********5 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 1.7
                   AAA_31 108 kellekvk 115
                              +++l+++ 
  PHY93_02550|PHY93_02550 280 NKCLSNFL 287
                              33333333 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.9   0.0   8.7e-11   1.1e-07       5      55 ..      12     168 ..       8     328 .. 0.72

  Alignments for each domain:
  == domain 1  score: 31.9 bits;  conditional E-value: 8.7e-11
                              ESSTTSSHHHHHHHHHHHHHHTT--EEEEEEEESSCCCCHHTTEB-HHHH.................................... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.................................... RF
                     CbiA   5 stkGGvGKTtlaanLaralarrglrVllvDaDpqannlaileglendiep.................................... 54 
                               ++GGvGKTt+a++ a  la + ++Vll+  Dp   +  il  + nd                                       
  PHY93_02550|PHY93_02550  12 CGTGGVGKTTIATARALTLALEDKKVLLITIDPAKRLKQILNMKDNDDGMintisldlfgyekeksfdamlmspratlqkmaaekn 97 
                              589*******************************9999963333333333667888999999999998877777777777777777 PP

                              ......................................................................C CS
                              ......................................................................x RF
                     CbiA  55 ......................................................................d 55 
                                                                                                     
  PHY93_02550|PHY93_02550  98 lhaefdstiiktlsrpyggmneimsiievqtqleknyydtiildtppgkhfidflessekiknffdksflE 168
                              77777777777777777766655555555555555555555555555555555555555555555555550 PP

>> ParA  NUBPL iron-transfer P-loop NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.5   1.2   2.1e-07   0.00027       5     122 ..       7     145 ..       5     150 .. 0.60

  Alignments for each domain:
  == domain 1  score: 20.5 bits;  conditional E-value: 2.1e-07
                     ParA   5 viavlSgKGGVGKStvavnlAlaLakkglkvgllDaDiyGpsiprllgvee................ekpeqsekkliPveakgik 74 
                              ++ +  g GGVGK+t+a+  Al+La +++kv l+ +D     + ++l++++                ek ++ +++l+     +++
  PHY93_02550|PHY93_02550   7 KVEIFCGTGGVGKTTIATARALTLALEDKKVLLITIDPA-KRLKQILNMKDnddgmintisldlfgyEKEKSFDAMLMSP-RATLQ 90 
                              678999*****************************9954.6777888877766677777777666643222223333322.23444 PP

                     ParA  75 vmSigf.llesedeavv......wrGpmkskaikqllkdvewgelDyLiiDlPPG 122
                               m  +  l  + d+ ++      + G      i ++ ++ e +  D +i+D+PPG
  PHY93_02550|PHY93_02550  91 KMAAEKnLHAEFDSTIIktlsrpYGGMNEIMSIIEVQTQLEKNYYDTIILDTPPG 145
                              4444430333334444322111112222333344444555555677777777777 PP

>> SRP54  SRP54-type protein, GTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.3   4.9e-06    0.0063       2      38 ..       7      43 ..       6      53 .. 0.93
   2 ?    3.6   0.0     0.035        44      43      96 ..      93     148 ..      68     169 .. 0.71

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 4.9e-06
                             EEEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEEES CS
                    SRP54  2 nvillvGlqGaGKTttlaKLaallkkegkkvllvaaD 38
                             +v +++G+ G+GKTt ++  a  l  e kkvll++ D
  PHY93_02550|PHY93_02550  7 KVEIFCGTGGVGKTTIATARALTLALEDKKVLLITID 43
                             57799******************************99 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.035
                              THHHHHHHHHHHTTEEEEE.SSTTSCHHHHHHHHHHHHHHTTSSEEEEEE-.-SST CS
                    SRP54  43 aAveQLktlaeklgvpvik.kkeeadpaavakeavekakeekidvvlvDTa.Grlq 96 
                              aA + L++  +++ ++ ++  + + +++  + e   + +++ +d++++DT  G++ 
  PHY93_02550|PHY93_02550  93 AAEKNLHAEFDSTIIKTLSrPYGGMNEIMSIIEVQTQLEKNYYDTIILDTPpGKHF 148
                              555555555555555555534445566666777777888899********436665 PP

>> CBP_BcsQ  Cellulose biosynthesis protein BcsQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   9.7e-06     0.012      11      60 ..      15      63 ..      10      76 .. 0.90
   2 ?   -0.8   0.0      0.66   8.4e+02     105     127 ..     123     146 ..     114     154 .. 0.79
   3 ?   -2.5   0.0       2.3   2.9e+03     150     150 ..     260     260 ..     213     287 .. 0.56

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 9.7e-06
                 CBP_BcsQ 11 GGvGttsllaaLawalhelgesvlviDlspdnlLrlhFnvdieqregwar 60
                             GGvG+t++++a a  l   +++vl+i + p+  L+   n++ ++++g+++
  PHY93_02550|PHY93_02550 15 GGVGKTTIATARALTLALEDKKVLLITIDPAKRLKQILNMK-DNDDGMIN 63
                             9**********************************999999.77777665 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 0.66
                 CBP_BcsQ 105 llaalkelk.eqyrwillDlpaga 127
                              + + +++l+ + y+ i+lD p g+
  PHY93_02550|PHY93_02550 123 IIEVQTQLEkNYYDTIILDTPPGK 146
                              55667888857789******9876 PP

  == domain 3  score: -2.5 bits;  conditional E-value: 2.3
                 CBP_BcsQ 150 n 150
                              +
  PHY93_02550|PHY93_02550 260 A 260
                              2 PP

>> Fer4_NifH  4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.1   5.7e-06    0.0073       5      58 ..      11      64 ..       6      81 .. 0.79

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 5.7e-06
                Fer4_NifH  5 iyGkGGiGksttsqnlsaalaemgkkvlivGCDPkaDstrlllggkaqetvldt 58
                             + G GG+Gk+t ++  + +la   kkvl++  DP +   ++l    + + +++t
  PHY93_02550|PHY93_02550 11 FCGTGGVGKTTIATARALTLALEDKKVLLITIDPAKRLKQILNMKDNDDGMINT 64
                             459*******************************87665544444444555555 PP

>> ATP_bind_1  Conserved hypothetical ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.1   0.0    0.0002      0.25       2      37 ..      12      47 ..      11      56 .. 0.93
   2 ?    3.3   0.5     0.048        61      81     209 ..     125     253 ..      86     292 .. 0.66

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.0002
               ATP_bind_1  2 vGpaGsGKttfvgalseilelrgrsvavvNLDPAae 37
                             +G+ G+GKtt+  a + +l l+ ++v ++ +DPA +
  PHY93_02550|PHY93_02550 12 CGTGGVGKTTIATARALTLALEDKKVLLITIDPAKR 47
                             89********************************75 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.048
               ATP_bind_1  81 wldeelekeeddyllfDtPGQielfthseslakiveeLesefalvvvyLvDsqrltd.ptkfisgllsalsamlrlelPhvvvlnk 165
                              +++ +lek+  d +++DtP    +  ++es  ki + + ++f  +  yL    +    + +fi +    +s+ ++  l ++ +++ 
  PHY93_02550|PHY93_02550 125 EVQTQLEKNYYDTIILDTPPGKHFIDFLESSEKIKNFFDKSFLEIFEYLGKNITGGGkARNFITM---IVSTGVKKLLSYLEAVTG 207
                              46667766666788888887777888888887777777777766666665443333235556655...556666666666666666 PP

               ATP_bind_1 166 fDllkeklekeleffedvealslllekee..ekykklaeaiaelle 209
                              +D ++e  e  l  ++  e++ ++l+ ++  +k + ++  ++ ++e
  PHY93_02550|PHY93_02550 208 ADFVREFIEAVLALYKCRESFLNALKFQQelKKSSFSNWFLVTSVE 253
                              6666644566666666555555555555544333333434444444 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.1   0.4     2e-05     0.026      30      61 ..       3      35 ..       2      49 .. 0.85
   2 ?   -0.7   0.0      0.72   9.2e+02     138     164 ..      33      59 ..      28      66 .. 0.77

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 2e-05
                   AAA_25 30 lpagelallaGapgtGKttlaldlalava.tGk 61
                             +p++++ +++G +g+GKtt+a+  al++a ++k
  PHY93_02550|PHY93_02550  3 IPLKKVEIFCGTGGVGKTTIATARALTLAlEDK 35
                             789999*********************995444 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.72
                   AAA_25 138 eevegvrlvviDplsralgg.densnsd 164
                              e+ ++v l+ iDp +r+ +  + ++n+d
  PHY93_02550|PHY93_02550  33 ED-KKVLLITIDPAKRLKQIlNMKDNDD 59 
                              44.668899*******999987777766 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   2.2e-05     0.028      51     100 ..      10      62 ..       4      69 .. 0.83

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 2.2e-05
                IstB_IS21  51 vllGpsGvGKshlaialgveavraglsvlfvrv...edLveelkrarrdgkla 100
                              +++G  GvGK+ +a+a +   + ++++vl +++   ++L + l+++++d+ + 
  PHY93_02550|PHY93_02550  10 IFCGTGGVGKTTIATARALTLALEDKKVLLITIdpaKRLKQILNMKDNDDGMI 62 
                              79*****************************9733357888888887776655 PP

>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.1   0.00013      0.17      34      69 ..      11      46 ..       6      51 .. 0.92
   2 ?   -1.8   0.0      0.92   1.2e+03     195     229 ..      94     128 ..      76     137 .. 0.74

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00013
                             EEE-TTSSHHHHHHHHHHHHHCTT--EEEEEE---- CS
                     MeaB 34 ltGvPGaGkstlvealglelrrrGkrvavlavDPss 69
                             + G+ G+Gk t+  a +l+l+ + k+v ++ +DP+ 
  PHY93_02550|PHY93_02550 11 FCGTGGVGKTTIATARALTLALEDKKVLLITIDPAK 46
                             57999*****************************85 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 0.92
                              HCSTTBTTB--EEEEEBCCCTBSHHHHHHHHHHHH CS
                     MeaB 195 leeekekeWrpkvlktsavegeGidelvdaieehr 229
                               e++ ++e+ + ++kt +    G++e+++ ie  +
  PHY93_02550|PHY93_02550  94 AEKNLHAEFDSTIIKTLSRPYGGMNEIMSIIEVQT 128
                              34445889999999999999999999998776544 PP

>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00011      0.14      16      61 ..       3      52 ..       2     113 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00011
                   ATPase 16 ipegrvvlitGepGtGKtifalqFlikgaekygepgvfvtveepa.....e 61
                             ip ++v   +G+ G GKt++a   +++ a + +++++++t++  +      
  PHY93_02550|PHY93_02550  3 IPLKKVEIFCGTGGVGKTTIATARALTLALE-DKKVLLITIDPAKrlkqiL 52
                             5667777889*********************.*********9776554331 PP

>> PhoH  PhoH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.1   0.00014      0.18      20      67 ..       7      54 ..       2      66 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00014
                             SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----S CS
                     PhoH 20 divfaiGpaGtGKtylavalavealkkkkvkriiltrpaveageelGf 67
                             ++ +  G  G GKt +a+a a+++  ++k   +i + pa   ++ l +
  PHY93_02550|PHY93_02550  7 KVEIFCGTGGVGKTTIATARALTLALEDKKVLLITIDPAKRLKQILNM 54
                             677889999**************9998888888888888777666655 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.5   3.3    0.0093        12       2      17 ..      10      25 ..      10     162 .. 0.74
   2 ?   -1.3   0.0       2.3     3e+03      51      89 ..     256     289 ..     223     322 .. 0.63

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.0093
                   AAA_18  2 lltGtpGvGKttlake 17
                             + +Gt GvGKtt+a +
  PHY93_02550|PHY93_02550 10 IFCGTGGVGKTTIATA 25
                             579*********9864 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 2.3
                   AAA_18  51 rldedkldklldaleenssaleegknlvidghlaelese 89 
                              ++ e +++kl+  +       ++   lv+  +l++++ +
  PHY93_02550|PHY93_02550 256 KMTEAQDMKLQAVNFM-----HKDLFLVMNKCLSNFLND 289
                              3333333333333333.....333455677777666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (349 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       770  (0.0429472); expected 358.6 (0.02)
Passed bias filter:                      414  (0.0230911); expected 358.6 (0.02)
Passed Vit filter:                        67  (0.00373696); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.62u 0.31s 00:00:00.93 Elapsed: 00:00:00.47
# Mc/sec: 2217.52
//
Query:       PHY93_02555|PHY93_02555  [L=404]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
   3.3e-116  388.2   0.2   3.9e-116  387.9   0.2    1.0  1  GshA            Glutamate-cysteine ligase
     0.0076   15.9   0.2      0.014   15.0   0.2    1.4  1  RimK            RimK-like ATP-grasp domain
  ------ inclusion threshold ------
      0.019   14.2   0.7       0.42    9.8   0.2    2.5  2  ATPgrasp_YheCD  YheC/D like ATP-grasp
      0.047   12.9   0.1       0.11   11.7   0.1    1.6  1  ATPgrasp_ST     Sugar-transfer associated ATP-grasp


Domain annotation for each model (and alignments):
>> GshA  Glutamate-cysteine ligase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  387.9   0.2  8.7e-120  3.9e-116       1     402 []      12     402 ..      12     402 .. 0.96

  Alignments for each domain:
  == domain 1  score: 387.9 bits;  conditional E-value: 8.7e-120
                              HHHHHTSHHHHHHHHHHHHHHH---SEEEEEEEE-SS-EEEEEEESS---GGGS-GGGHHHHHHHHHHHHHHHSTT-SEEEEEE-S CS
                     GshA   1 ekklleakakiekwfrkkwqehtapfysSvDlRnsgfKlapvDtNlfpaGfnnlnpeflplavqaaqeaiekicpeakklllipEn 86 
                              e+ ++e+++ki++++++     + pfysSvD+R+s  K apvD+N++paGfnnl++ +++ a+++++++++ki++ea+++ +ipE+
  PHY93_02555|PHY93_02555  12 EQFVCENWDKINAYIAQLQIGLPVPFYSSVDIRESREKYAPVDHNMYPAGFNNLCSVDIRNATSLVRDTLKKINSEARNVGIIPES 97 
                              68899********************************************************************************* PP

                              -SS-HHHHHHHHHHHHHHHHTT-EEEEEE--TT-....-S-EEEE-SSS-EEEEEE-EEETTEEEETTEE-SEEEEES--TT---G CS
                     GshA  87 htrNtfYlenvaalkeilekaglevrlgsleeei....teptelelssgekltleplvrkgerlglkdfdpclillNnDlsagipe 168
                              ht+N +Yl+++a+l++++++ag++  + s+++ +    ++ + l ++sg+ +++   + +++ + + + ++++ + NnD s+  p 
  PHY93_02555|PHY93_02555  98 HTKNLMYLDHLATLAKLITDAGYRTSFVSFDSALfpdnEDFIDLVSASGSPIKIVRGQIQNGAIFALGEKMDVAINNNDQSNPWPI 183
                              ***************************999877622114446689999********9*9*************************** PP

                              GGSS-SSEEES---TTGGGS-TTHHHHHHHHHHHHHHHHHT--GGGG---EEEEE---TTSSTTHHHHHHHHHHHHHHHHHHHHHH CS
                     GshA 169 ileeleqtllPpleaGWatRrKskhfkaYeevakefaklididpwlinplfekceevdfkekegeeklaekvdellakirekykey 254
                               ++e+++++ P+  +GW++R+K++hf++Y++va+efa++++i+p li++ f+ +e+vdf++k+g ekl ++vde++++++   k  
  PHY93_02555|PHY93_02555 184 EWREITTPIAPTPLIGWFRRQKNTHFSYYKKVADEFANHFEINPDLIQAQFRAVEDVDFETKHGLEKLGNAVDEVISNLKPGSK-- 267
                              *******************************************************************************99988.. PP

                              T--S---EEEEEE-GGG-EEEEEESSGGGGSS--HHHHHHHH-SSSSS---EEEEEE-----EEETTEEEEEEEEEETTEEEEEEE CS
                     GshA 255 gikekPfvivKadaGTyGmgvmtvksaeevkelnrkqrnkmsvvkeglevseviiqEGvytfeklneavaEpvvYmidrevvggfy 340
                                     v+vKa++GTyGmg+ +v+s+ee+ ++nrk+rnkm+v k++ +++++++qEGv+t+ k++++ aE+ vY+id + +ggf+
  PHY93_02555|PHY93_02555 268 -------VFVKASQGTYGMGISVVSSGEEIINMNRKTRNKMDVGKNKIKFTSLLVQEGVETIIKYDNNPAEITVYLIDGKSMGGFM 346
                              .......******************************************************************************* PP

                              EEES--STTTTTS--TT-EEEEE--S-SS---TTS-TTSHHHHHHHHHHHHHHHHHHHHHHH CS
                     GshA 341 RvhaergadenLnapGmhfvplafeeaaalpdekaepdaepnrfyvygvvarLalLAaalEl 402
                              R++ae+++  nLn++Gm+f++l++++ +++ +       ++++ ++y ++arLa++Aaa+E+
  PHY93_02555|PHY93_02555 347 RINAEKDSLANLNSRGMVFRKLCMSDLVSTVE------DHKSKDAIYSIIARLATVAAAYEI 402
                              *************************9877666......4566778***************96 PP

>> RimK  RimK-like ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.2   3.2e-06     0.014      27     129 ..     252     372 ..     235     379 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 3.2e-06
                              -S-HHHHHHTT-.-SSEEEEE-TTTT--EEEEE-SHHHHHHHHHHGGG--............EEEE....E--SS-S.EEEEEEEE CS
                     RimK  27 eedaekliekiklrfPvvvKsvegsqGikvvlakkeqklkqvlealkeai............lvqe....yieeaen.ediRvlvv 95 
                               + ++++i ++k ++ v vK ++g++G+++ +    +++ ++   +++++            lvqe     i+  +n ++i v  +
  PHY93_02555|PHY93_02555 252 GNAVDEVISNLKPGSKVFVKASQGTYGMGISVVSSGEEIINMNRKTRNKMdvgknkikftslLVQEgvetIIKYDNNpAEITVYLI 337
                              5567788999999999*********9999888777766666555555555555555599999999833334555666899****** PP

                              TTEEEEEEEEE--SSS----TT.TT-EEEE----H CS
                     RimK  96 ddevvaalrrvskeGdFRsnlh.rGgvaeklqlse 129
                              d++ ++++ r+  e d  +nl+ rG v  kl +s+
  PHY93_02555|PHY93_02555 338 DGKSMGGFMRINAEKDSLANLNsRGMVFRKLCMSD 372
                              *********************85788878777765 PP

>> ATPgrasp_YheCD  YheC/D like ATP-grasp
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.0     0.022        97      88     127 ..       4      44 ..       1      51 [. 0.82
   2 ?    9.8   0.2   9.4e-05      0.42      43     104 ..     260     309 ..     250     401 .. 0.68

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.022
           ATPgrasp_YheCD  88 rlaslselesllk.kllkkkrylvQqgidlatidgrpfDfR 127
                              +++++++le+++  ++ k ++y++Q +i l       +D+R
  PHY93_02555|PHY93_02555   4 KINNKDQLEQFVCeNWDKINAYIAQLQIGLPVPFYSSVDIR 44 
                              6789999***99835666667*********99999999999 PP

  == domain 2  score: 9.8 bits;  conditional E-value: 9.4e-05
           ATPgrasp_YheCD  43 emlekyksvylKpanGskGkgilriekeekellllsrekkk.....kkkkrlaslselesllkkllk 104
                              + l+  ++v++K ++G+ G gi  +++ ++e   ++r++++     k                +++k
  PHY93_02555|PHY93_02555 260 SNLKPGSKVFVKASQGTYGMGISVVSS-GEEIINMNRKTRNkmdvgK----------------NKIK 309
                              56777899*******************.4444444444444333221................2222 PP

>> ATPgrasp_ST  Sugar-transfer associated ATP-grasp
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.1   2.4e-05      0.11      47     102 ..     250     305 ..     205     322 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 2.4e-05
              ATPgrasp_ST  47 aeiseleafvkeleeg..vviKpakgsgGkGilviteredqdylkssgksalldeler 102
                              +  +++++++++l++g  v++K+ +g  G Gi+v+++  ++++++ + k+ +  ++ +
  PHY93_02555|PHY93_02555 250 KLGNAVDEVISNLKPGskVFVKASQGTYGMGISVVSS--GEEIINMNRKTRNKMDVGK 305
                              556788999******9*******************76..5556566655555555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (404 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       662  (0.0369234); expected 358.6 (0.02)
Passed bias filter:                      540  (0.0301188); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.64u 0.27s 00:00:00.91 Elapsed: 00:00:00.47
# Mc/sec: 2577.95
//
Query:       PHY93_02560|PHY93_02560  [L=458]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.9e-65  219.8   0.0    6.2e-65  219.5   0.0    1.1  1  PALP           Pyridoxal-phosphate dependent enzyme
    1.5e-10   41.4   1.0    6.3e-07   29.7   0.0    2.6  2  CBS            CBS domain
  ------ inclusion threshold ------
      0.019   15.4   0.0        5.1    7.6   0.0    2.4  2  NAD_binding_7  Putative NAD(P)-binding
      0.092   12.6   0.0       0.18   11.7   0.0    1.5  1  KR             KR domain
        0.1   12.5   0.0       0.23   11.4   0.0    1.5  1  CTP_transf_3   Cytidylyltransferase


Domain annotation for each model (and alignments):
>> PALP  Pyridoxal-phosphate dependent enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  219.5   0.0   1.7e-68   6.2e-65       2     294 .]      10     304 ..       9     304 .. 0.93

  Alignments for each domain:
  == domain 1  score: 219.5 bits;  conditional E-value: 1.7e-68
                              GGCSSS--EEEECCTCCCCCCEEEEEEGGGSTTSBTTHHHHHHHHHHHHTT...TTTSEEEEEBSSHHHHHHHHHHHHHT-EEEEE CS
                     PALP   2 tlgigpTPlvrlprlskelgvplflKlEslnptgSfKdRgaeyllarlkeg...tgaktvveassGNhgralAaaaallGlkvtiv 84 
                               ++ig+TP+v+l++++  +  ++++KlE++np+gS KdR   y++ r+      +++ t++e++sGN+g++lA+ aa+ G+k++ v
  PHY93_02560|PHY93_02560  10 LDAIGNTPIVKLNKVTTGVESEIYVKLEFMNPGGSSKDRIGGYIMDRAVASgklKPGGTIIEGTSGNTGVGLAMWAAVNGYKCVFV 95 
                              5789************999999*************************66666999******************************* PP

                              EETTS-HHHHHHHHHTT-EEEEE.....CCHHHHHHHHHHHHHHHSTTCEE--TTTSHHHHHH.HHTHHHHHHHHTTTTEEEEEEE CS
                     PALP  85 vpadaspekvallrllGaevvev.....ggdydeavaaaaelaaegegaylvsqfdnptvieg.ygtiglEileqlggkpdavvvp 164
                              + ++ s ekv  l+++Ga+vv++     ++d+ +  ++ ++la+ +++ y+v+q+dn ++ e   +t+g+Ei eq++g++d++ ++
  PHY93_02560|PHY93_02560  96 MADKQSVEKVNNLKAFGAKVVVCptdvePEDPRSYYSVSKRLAETIPNSYYVNQYDNLWNREThIATTGPEIFEQTQGDFDVFMAG 181
                              ***********************55444444555555588********************************************** PP

                              -SSSHHHHHHHHHHHHHSTT-EEEEEEECTTCGGTTCCS..S.SS..B.SSS.CCSTCS.CGTTCCHHHHSEEEEEEEEEEHHHHH CS
                     PALP 165 vGgGgliaGiaaglkerrpdvrvigvepegsdalarslragrrvtvpvsdtiadglavg.spselafelldrlvdeivtvsdeeal 249
                              vG+Gg+i+Gi+ +lk + p+   +gv++e  + +a+++r+g+ +     +  ++g++ +  p++++f+++d+ v     v d+e +
  PHY93_02560|PHY93_02560 182 VGTGGTISGISSYLKTKMPKLITVGVDVE-GSIVAQFARTGDLSGAR--SYVIEGIGEDfIPENYDFKVIDDWVV----VGDKESF 260
                              **************************999.77888898788776666..8********************99988....******* PP

                              HHHHHHHHHHSB-B-HHHHHHHHHHHHHHHHCCTTCEEEEEEE-B CS
                     PALP 250 eamrllarregivvepssaaalaalklreagelkegdrvvviltg 294
                               + r l + egi ++ s++aa+ ++  + a+ lke ++++vil++
  PHY93_02560|PHY93_02560 261 LMTRALLKQEGIYTGGSGGAAVVGA-IKYATTLKEPKKILVILPD 304
                              *************************.****************986 PP

>> CBS  CBS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.7   0.0   1.8e-10   6.3e-07       7      53 ..     345     390 ..     333     393 .. 0.88
   2 !    9.7   0.2   0.00031       1.1       6      56 ..     408     455 ..     402     456 .. 0.87

  Alignments for each domain:
  == domain 1  score: 29.7 bits;  conditional E-value: 1.8e-10
                              SSCEEEETTSBHHHHHHHHHHHTSSEEEEEETTTBEEEEEEHHHHHH CS
                      CBS   7 rdvvtvppdttleealelmrekgvsrlPVVdedgklvGivtlrDllr 53 
                              ++v++++  +++++a++lm++k vs+lPVV +dg + G++++  ll+
  PHY93_02560|PHY93_02560 345 DQVISITDHANIGDAIKLMEQKSVSQLPVV-SDGIIKGVLSENALLK 390
                              5799***************8888*******.8**888****998886 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.00031
                              BSSCEEEETTSBHHHHHHHHHHHTSSEEEEEETTTBEEEEEEHHHHHHHHH CS
                      CBS   6 trdvvtvppdttleealelmrekgvsrlPVVdedgklvGivtlrDllrall 56 
                              t+++ tv+ ++ l+ +++ + +k+v  l V+ e gk+v +++  D+l++++
  PHY93_02560|PHY93_02560 408 TDKYRTVDINDLLSNVADSLLKKEV-VL-VT-EKGKIVNLLSNIDILNYIS 455
                              5567799999*********889877.77.88.9***************996 PP

>> NAD_binding_7  Putative NAD(P)-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.6   0.0    0.0014       5.1       5      45 ..      87     127 ..      83     182 .. 0.71
   2 ?    5.3   0.0    0.0071        25      14      79 ..     279     361 ..     278     376 .. 0.70

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.0014
            NAD_binding_7   5 lkgkkvlvvGgGevAarkvrklleagakvtvvapevkeele 45 
                              ++g k++ v + +   +kv++l ++gakv+v   +v++e +
  PHY93_02560|PHY93_02560  87 VNGYKCVFVMADKQSVEKVNNLKAFGAKVVVCPTDVEPEDP 127
                              6777888899999999**************97777644433 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.0071
            NAD_binding_7  14 GgGevAarkvrklleagakvtvvapev.....keele..............elvklaeeelekdleg.adlviaatddrelneria 79 
                              G+  v+a k  + l++ +k+ v+ p++     +   +              + ++++ ++l +dle+  d vi +td++++ ++i 
  PHY93_02560|PHY93_02560 279 GAAVVGAIKYATTLKEPKKILVILPDSgnryaS---KifndewmmskgyiaSSFNVIIKDLLSDLEKkNDQVISITDHANIGDAIK 361
                              66679*********************8654431...24445555555555555556666666666652669999999888877775 PP

>> KR  KR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0     5e-05      0.18       3      66 ..      68     126 ..      66     141 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 5e-05
                              EEEETTTSHHHHHHHHHHHHHHS-EEEEE-SS..--HHHHHHHHHHHHTT-EEEE----TT-HH CS
                       KR   3 ylitGGlGgLGlelarwlaekgarhlvllsRsaaadedskaliaelealgaevevvaaDvsdkd 66 
                               +i G  G+ G  la w a +g + + +++ +     +s +++++l+a ga+v v++ Dv  +d
  PHY93_02560|PHY93_02560  68 TIIEGTSGNTGVGLAMWAAVNGYKCVFVMADK-----QSVEKVNNLKAFGAKVVVCPTDVEPED 126
                              5899*************************988.....567799****************97654 PP

>> CTP_transf_3  Cytidylyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   6.3e-05      0.23      40     113 ..      90     165 ..      83     188 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 6.3e-05
                              TSEEEEEES-HHH..HHHHHHTTSEEEE--TTCSSHHHHHHH.HHHHHTTT.TTSEEEEE-TT-TT--HHHHHHHHH CS
             CTP_transf_3  40 fekvivaTDseei..knvakefgasvlvtrsslesdterfle.vvkaflmseneeiivnlqGdnPllqeevikkaie 113
                              +++v+v  D++++  +n +k+fga+v+v +++ e  + r++  v k+++  +++ ++vn + dn    e++i+    
  PHY93_02560|PHY93_02560  90 YKCVFVMADKQSVekVNNLKAFGAKVVVCPTDVEPEDPRSYYsVSKRLAETIPNSYYVNQY-DNLWNRETHIATTGP 165
                              5689999998865116889************998777666651566677777888999988.887777777766555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (458 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       502  (0.0279993); expected 358.6 (0.02)
Passed bias filter:                      384  (0.0214178); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.62u 0.25s 00:00:00.87 Elapsed: 00:00:00.45
# Mc/sec: 3043.50
//
Query:       PHY93_02565|PHY93_02565  [L=398]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   1.4e-151  504.4   0.0   1.5e-151  504.3   0.0    1.0  1  Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
    2.9e-05   23.4   0.0    4.2e-05   22.9   0.0    1.2  1  Aminotran_1_2    Aminotransferase class I and II
  ------ inclusion threshold ------
      0.037   13.3   0.2       0.13   11.5   0.1    2.0  1  DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
      0.078   13.2   0.2        1.9    8.8   0.0    2.8  3  MHB              Haemophore, haem-binding


Domain annotation for each model (and alignments):
>> Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  504.3   0.0  3.5e-155  1.5e-151       2     381 ..      24     396 ..      23     397 .. 0.99

  Alignments for each domain:
  == domain 1  score: 504.3 bits;  conditional E-value: 3.5e-155
                              HHHHHTTTTCHTTTTBSS--B---SBBBESSHHHHCTTCSSS-SBTTT--HHHHHHHHHHHHHHT-SEEEEESSHHHHHHHHHHTT CS
          Cys_Met_Meta_PP   2 TllvhagqekdeqtgavavpiyltstykfkdvdeafageekgyeYsRsgnptrsvleeriaaLeggeaalavssGmaAiaaailal 87 
                              T ++h g e+d++tga+++piy+tsty+++     + g +kgyeY+Rs nptr+ l+e +a Le+++++l+++sG++A  + i++l
  PHY93_02565|PHY93_02565  24 TRVIHVGGEPDKETGAIMPPIYQTSTYVQE-----SPGVHKGYEYTRSHNPTRTRLQECLASLEQAKHCLVTASGLSAE-MLIMHL 103
                              899***************************.....********************************************.9***** PP

                              S-TTEEEEEESTSSHHHHHHHHHTHHHTTCEEEEESTTSHHHHHHHCCT.TEEEEEEESS-TTTT----HHHHHHHHHHTT-EEEE CS
          Cys_Met_Meta_PP  88 lkaGdeivvsddlYggtqrllkkvlkklgievkfvdtsdleelekaike.ntklvylEtptnpllkvvDiekiaklakkagvlvvv 172
                              l aG++i++ dd+Yggt+rl+++v++k++ ++kf+dt+d++ +ek +ke +  l++lEtptnpllk++Di +++++akka++l+vv
  PHY93_02565|PHY93_02565 104 LPAGSNIICGDDVYGGTYRLFTTVFHKMH-NFKFIDTTDAKVVEKTVKEfKPALIWLETPTNPLLKITDIVAVTAIAKKAKALTVV 188
                              ***************************95.8******************9************************************ PP

                              EGTTTHTTTS-GGGGT-SEEEEETTTTTTCSSS--EEEEEESSCHHHHHHHHHHHHHHT-B--HHHHHHHHHHHTTHHHHHHHHHH CS
          Cys_Met_Meta_PP 173 DntfaspllqrplklgaDivvhSaTKylgGhsdvvaGvivvkgkeelkkelkflqnalGavlspfdawlllrGlkTLslRlerhqe 258
                              Dntf+sp++q+p+ lgaDi +hS+TKyl+Ghsdvv+G+i+ ++ + ++k+l +lqn++G+  spfd+wl+lrGlkTL++R+e+hq+
  PHY93_02565|PHY93_02565 189 DNTFMSPYFQNPIVLGADIALHSMTKYLNGHSDVVGGCIMMND-DLMHKQLFTLQNSIGPCHSPFDSWLVLRGLKTLAIRMEAHQK 273
                              ******************************************9.999999************************************ PP

                              HHHHHHHHHHTSTTEEEEE-TTSTTSTTHHHHHHHSSSG-SEEEEEESSHHHHHHHHHHC-SSSEECSS-SSSS-EEEETTTTTTT CS
          Cys_Met_Meta_PP 259 nAlkvAefLekhpkvekvyYpglpshpqhelakkqlkgaggvlsFelkseeekakkfvdnlklfslaeslGgveslielpasmtha 344
                              nA+ vA++Lekhpkve+v Ypgl+shpqh +akkq+ g+gg+++F lk++ +k++kf++++klf+laeslGgveslie+pa+mtha
  PHY93_02565|PHY93_02565 274 NAMVVAQYLEKHPKVERVVYPGLKSHPQHAIAKKQMLGYGGMITFFLKGDIKKSNKFLSTVKLFALAESLGGVESLIEHPAIMTHA 359
                              ************************************************************************************** PP

                              TSCHHHHHHTTS-TTEEEEE--SS-HHHHHHHHHHHH CS
          Cys_Met_Meta_PP 345 sipkeereaagvtddliRlsvGiEdvdDliaDlkqal 381
                              sipk  re+ g+td+liRlsvGiE+vdDl++Dl+ ++
  PHY93_02565|PHY93_02565 360 SIPKPIREKLGITDNLIRLSVGIENVDDLLDDLEMGF 396
                              *********************************9987 PP

>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.9   0.0   9.4e-09   4.2e-05      33     198 ..      59     200 ..      32     226 .. 0.77

  Alignments for each domain:
  == domain 1  score: 22.9 bits;  conditional E-value: 9.4e-09
                              HHTSTTST-BTTHHHHHHHHHHHHHCTCTTCHTTGGEGEEEESHHHHHHHHHHHHHHHTTT-EEEEEESS-THHHHHHHHTTSEEE CS
            Aminotran_1_2  33 aggtlneygpidglpeleealakflgrseklklkreaavvvgsGagaliealifllklnpgdeilvpdptyasyknilrlsggevv 118
                              +g +++++ +++    l+e+la++ +        ++  +v+ sG +  +e+li+ l l++g++i+  d +y+   + +     +++
  PHY93_02565|PHY93_02565  59 KGYEYTRSHNPT-RTRLQECLASLEQ--------AKHCLVTASGLS--AEMLIMHL-LPAGSNIICGDDVYGGTYRLFTTVFHKMH 132
                              444555555555.6677777777777........665677777777..68999999.99*************************** PP

                              EEEBEETTTTEE-HHHHHHHHTTHHCTTETEEEEEEESS-TTT--B--HHHHHHHHHHHHHTTEEEEEEETTTTCBSSSS CS
            Aminotran_1_2 119 ryplyseedfhldlealeealkeapegnkktkvilvesphNPtGtvatleeleklldlakkynlllfvDeaYagfvfgsl 198
                               +++      + d++ +e+ +ke+     k+ +i++e+p NP  ++ +   ++++   akk ++l++vD ++   +f+++
  PHY93_02565|PHY93_02565 133 NFKFI----DTTDAKVVEKTVKEF-----KPALIWLETPTNPLLKITDIVAVTAI---AKKAKALTVVDNTFMSPYFQNP 200
                              ***44....356666667777765.....89***********9888888888888...**************99999876 PP

>> DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1     3e-05      0.13      21     197 ..      65     241 ..      49     257 .. 0.63

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 3e-05
                              S..SHHHHHHHHHHHHHHT-SEEEEESSHHHHHHHHHHHTTTTTT-EEEEESSS-THHHHHHH...HTT-EEEEE-B-TTTSSB-G CS
          DegT_DnrJ_EryC1  21 s..gpeveeFEkafaaylgvkhaiavssGtaAlhlaLralgvgpgdeVIvpsltFvatanavl...elgakpvfvDvdpdtynidp 101
                              +  +p+ +++ + +a   ++kh++ ++sG +A +l+++ l +g    +I     + +t    +   +   +  f+D +      d+
  PHY93_02565|PHY93_02565  65 RshNPTRTRLQECLASLEQAKHCLVTASGLSAEMLIMHLLPAG--SNIICGDDVYGGTYRLFTtvfHKMHNFKFIDTT------DA 142
                              44589999999****************************8877..666666666666554333000222333344433......56 PP

                              GGCGGG--TTEEEEEEB-GGGB--....-HHHHHHHHHHCT-EEEEE-TT-TT-EETTEECCCSSSEEEEE-BTTSSS.-SSS-EE CS
          DegT_DnrJ_EryC1 102 aaieaaitertkaIlpVhlyGqva....dmdalkaiaakhglkvieDaAhAlGatykgkkvGalgdaavfSFyptKnl.ttGeGGa 182
                              + +e+ + e   a ++ ++  ++     d+ a++aia+k +   + D  + + + y + ++   +d+a  S+    n  +   GG 
  PHY93_02565|PHY93_02565 143 KVVEKTVKEFKPALIWLETPTNPLlkitDIVAVTAIAKKAKALTVVD--NTFMSPYFQNPIVLGADIALHSMTKYLNGhSDVVGGC 226
                              66666666666666665555543222226666666666666655555..3455666666666666666666644444444444666 PP

                              EEESTHHHHHHHHHH CS
          DegT_DnrJ_EryC1 183 vvtndeelaekarvl 197
                              +++nd+ +++++ +l
  PHY93_02565|PHY93_02565 227 IMMNDDLMHKQLFTL 241
                              666666666665555 PP

>> MHB  Haemophore, haem-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.0      0.55   2.5e+03      18      34 ..      46      62 ..      44      85 .. 0.69
   2 ?    0.3   0.0       0.2   8.8e+02      17      29 ..     210     222 ..     205     229 .. 0.85
   3 ?    8.8   0.0   0.00043       1.9      18      45 ..     277     305 ..     266     312 .. 0.76

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 0.55
                      MHB 18 stsaYLdthPdvnqalt 34
                             +ts+Y ++ P+v + + 
  PHY93_02565|PHY93_02565 46 QTSTYVQESPGVHKGYE 62
                             67777777777766554 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.2
                      MHB  17 astsaYLdthPdv 29 
                               s+ +YL+ h dv
  PHY93_02565|PHY93_02565 210 HSMTKYLNGHSDV 222
                              68999**999998 PP

  == domain 3  score: 8.8 bits;  conditional E-value: 0.00043
                      MHB  18 stsaYLdthPdvnqalt.slkgqprdqar 45 
                               +++YL++hP+v++++   lk+ p+ +++
  PHY93_02565|PHY93_02565 277 VVAQYLEKHPKVERVVYpGLKSHPQHAIA 305
                              5789*********9987678888875544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (398 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       556  (0.0310112); expected 358.6 (0.02)
Passed bias filter:                      489  (0.0272742); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.64u 0.25s 00:00:00.89 Elapsed: 00:00:00.45
# Mc/sec: 2641.18
//
Query:       PHY93_02570|PHY93_02570  [L=360]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (360 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       832  (0.0464053); expected 358.6 (0.02)
Passed bias filter:                      353  (0.0196888); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.61u 0.23s 00:00:00.84 Elapsed: 00:00:00.45
# Mc/sec: 2378.64
//
Query:       PHY93_02575|PHY93_02575  [L=241]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.4e-19   69.8   0.0    4.9e-19   68.7   0.0    1.5  2  HD        HD domain
    2.3e-18   66.2   0.1    3.6e-18   65.6   0.1    1.3  1  HD_5      HD domain
    0.00023   20.7   0.0    0.00033   20.2   0.0    1.2  1  HDOD      HDOD domain


Domain annotation for each model (and alignments):
>> HD  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       1.2   7.1e+03      23      34 ..      15      26 ..       9      45 .. 0.69
   2 !   68.7   0.0   8.2e-23   4.9e-19       2     122 .]      58     179 ..      57     179 .. 0.96

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 1.2
                             HHHHHHHHHHHH CS
                       HD 23 edrellllaaLl 34
                             e+re+l++aa l
  PHY93_02575|PHY93_02575 15 ENRERLKKAAAL 26
                             455555555544 PP

  == domain 2  score: 68.7 bits;  conditional E-value: 8.2e-23
                              HHHHHHHHHHHHHHHHHHHH.HHHHHHHHHHHHHTTTTHHHHTS..HHH.....HHHCTCCHHHHHHHHHHHHHHHHHHHHHHHHH CS
                       HD   2 leHsleVaklarrlaedlge.eedrellllaaLlHDiGkgpfgdafekk.....eeefekflaHekvgaeilrevekrlgldledv 81 
                              + Hsl+Va+++   ++++g+ e++   l++ aL+HDiGk+ ++d+ + k      eef +++ H   ++eil+++++ +     d 
  PHY93_02575|PHY93_02575  58 WGHSLRVAYFCVSVGQEMGFsEAEIYELEVSALFHDIGKIGVPDSVLLKpsrltDEEFSEMKLHPSKSYEILQDFPIFQ-----DM 138
                              67*******************999999******************999999886666**********************.....99 PP

                              HHHHHTTCCHHHHHHHHHHHHCCTSCHHHHHHHHHHHHHHH CS
                       HD  82 aklirehheswegkkrprglaerqlslearivklaDrlaam 122
                              a  +++hhe+ +g+++p+gl++++++l++ri+ + D ++am
  PHY93_02575|PHY93_02575 139 AINAKYHHERYDGRGYPEGLKGEDIPLYSRIILISDTFDAM 179
                              9999**********************************998 PP

>> HD_5  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.6   0.1     6e-22   3.6e-18       2      64 .]     109     170 ..     108     170 .. 0.98

  Alignments for each domain:
  == domain 1  score: 65.6 bits;  conditional E-value: 6e-22
                     HD_5   2 tLtpeerellqehpeaaarlLsklprlpkdvaeiigqhhErldGsGyPrglkgeeIpleaRiL 64 
                              +Lt+ee ++++ hp  ++++L+  p ++ d+a  + +hhEr+dG GyP+glkge+Ipl +Ri+
  PHY93_02575|PHY93_02575 109 RLTDEEFSEMKLHPSKSYEILQDFPIFQ-DMAINAKYHHERYDGRGYPEGLKGEDIPLYSRII 170
                              8************************999.********************************96 PP

>> HDOD  HDOD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.2   0.0   5.5e-08   0.00033      92     134 ..      54      98 ..      33     121 .. 0.84

  Alignments for each domain:
  == domain 1  score: 20.2 bits;  conditional E-value: 5.5e-08
                              HHHHHHHHHHHHHHHHHHHHHTT-S-H..HHHHHHHHTTTHHHHH CS
                     HDOD  92 lkklwehslavAlvarelaeelgledp..eeaflaGLLhdiGklv 134
                               +  w hsl+vA+++  + +e+g +++   e+ +++L+hdiGk+ 
  PHY93_02575|PHY93_02575  54 DDYTWGHSLRVAYFCVSVGQEMGFSEAeiYELEVSALFHDIGKIG 98 
                              4678********************996467899*********986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (241 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       422  (0.0235373); expected 358.6 (0.02)
Passed bias filter:                      375  (0.0209158); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.54u 0.25s 00:00:00.79 Elapsed: 00:00:00.45
# Mc/sec: 1598.70
//
Query:       PHY93_02580|PHY93_02580  [L=306]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.019   15.1   0.0      0.069   13.3   0.0    2.0  1  Skp1      Skp1 family, dimerisation domain
        0.3   11.6   1.0        1.3    9.5   0.0    2.3  2  DUF3899   Domain of unknown function (DUF3899)
       0.45   10.6   0.1       0.45   10.6   0.1    2.8  3  DUF4366   Domain of unknown function (DUF4366)


Domain annotation for each model (and alignments):
>> Skp1  Skp1 family, dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   1.1e-05     0.069      16      42 ..      10      37 ..       6      41 .. 0.72

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.1e-05
                     Skp1 16 kgktpeeiReiFnIenDft.pEEeeeir 42
                             k+  p+ +R+ ++IenD t +E  ee  
  PHY93_02580|PHY93_02580 10 KQSLPAPLRKKLGIENDNThDEHSEEQS 37
                             66678889***********544444433 PP

>> DUF3899  Domain of unknown function (DUF3899)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.0   0.00022       1.3      49      82 ..      32      79 ..       7      80 .. 0.70
   2 ?   -0.5   0.4       0.3   1.8e+03      43      60 ..     188     207 ..     179     228 .. 0.62

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00022
                  DUF3899 49 syyeykek..............kkesskkstrplliiGlllivlsivl 82
                             + +e+ e+              kk++++  +r  ++iGl ++++  +l
  PHY93_02580|PHY93_02580 32 HSEEQSEEqfedshenpvendkKKKQISMIIRVVVVIGLGYLAVDHFL 79
                             33333333445555567777756666****************997665 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.3
                  DUF3899  43 k..skkddsyyeykekkkes 60 
                              +  +k++ds+++  ++k ++
  PHY93_02580|PHY93_02580 188 EqvDKSIDSLIDSVDEKDKM 207
                              34677777777777775444 PP

>> DUF4366  Domain of unknown function (DUF4366)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.1   7.5e-05      0.45      96     137 ..      34      77 ..      14      87 .. 0.52
   2 ?   -7.2   8.9         3   1.8e+04      97      97 ..     173     173 ..      78     225 .. 0.63
   3 ?   -0.8   0.7      0.24   1.4e+03      52      73 ..     199     218 ..     188     237 .. 0.53

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 7.5e-05
                  DUF4366  96 epepekeaepee.....peeepekksnnglllvvlavaligggaayy 137
                              e ++e++    e     p e+++kk++ ++++ v++v+++g  a+  
  PHY93_02580|PHY93_02580  34 EEQSEEQF---EdshenPVENDKKKKQISMIIRVVVVIGLGYLAVDH 77 
                              22222222...123333444555554567777777777777655544 PP

  == domain 2  score: -7.2 bits;  conditional E-value: 3
                  DUF4366  97 p 97 
                               
  PHY93_02580|PHY93_02580 173 I 173
                              1 PP

  == domain 3  score: -0.8 bits;  conditional E-value: 0.24
                  DUF4366  52 nqVdeaDLlalleedeeaakee 73 
                              + Vde+D  ++ +e++++++++
  PHY93_02580|PHY93_02580 199 DSVDEKD--KMTDESSAKKETK 218
                              4455555..2333333333322 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (306 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1568  (0.0874561); expected 358.6 (0.02)
Passed bias filter:                      631  (0.0351944); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.62u 0.27s 00:00:00.89 Elapsed: 00:00:00.45
# Mc/sec: 2025.78
//
Query:       PHY93_02585|PHY93_02585  [L=209]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    7.1e-07   29.3   0.2    9.9e-06   25.6   0.2    2.1  1  Aldolase_II  Class II Aldolase and Adducin N-terminal domain


Domain annotation for each model (and alignments):
>> Aldolase_II  Class II Aldolase and Adducin N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.6   0.2   5.5e-10   9.9e-06      29     171 ..      69     198 ..      48     205 .. 0.67

  Alignments for each domain:
  == domain 1  score: 25.6 bits;  conditional E-value: 5.5e-10
                              STTEEEEEBTSS.-GGGHT...GGGEEEEETTSCEEEECECSSSTB-TTHHHHHHHHHH-TT-SEEEEE--HHHHHHHTCCSTSCH CS
              Aldolase_II  29 eedsflitpsgv.dfeelt...aedlvvvdldsgevvegkekggkpssetplHlaiykarpdaravvHtHspaavalsalagkegl 110
                              ++ +f+it+++   + el+      ++ +d++ + ++++  ++ ++sse ++H+aiy+ ++++++v H Hs+       +      
  PHY93_02585|PHY93_02585  69 SHPQFIITGTQTgKYPELDgnfYTRVLDYDIE-NLKINM-MGPIEASSEALTHAAIYSFNRKIKVVFHIHSQKIWKGM-I------ 145
                              45566665554313344443333445555665.455556.678899*************************9865444.3...... PP

                              CCSSHHHHC.HSSSEEEEES-SSTTCHHHHHHHHHHHH.HS-SEEEETTT..EEEEEESSHHHH CS
              Aldolase_II 111 ppltqeaaklllgdevpvipyaapgteelgealaealk.edakavllrnH..GlltvGetleeA 171
                                   ++ +++   ++p+      gt+e+++a+++ ++ +d  +  +++H  G+++ G+tlee+
  PHY93_02585|PHY93_02585 146 ----DDHSDFT-AIDIPY------GTVEMARATERCIGnKDFGIFCMHGHedGVVAYGRTLEET 198
                              ....3444532.233666......8899999999999855656888999999999999999997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (209 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       391  (0.0218082); expected 358.6 (0.02)
Passed bias filter:                      339  (0.0189079); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.23s 00:00:00.72 Elapsed: 00:00:00.42
# Mc/sec: 1487.36
//
Query:       PHY93_05970|PHY93_05970  [L=405]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        2.6    6.8  33.4        6.6    5.5  33.4    1.6  1  DUF2079   Predicted membrane protein (DUF2079)


Domain annotation for each model (and alignments):
>> DUF2079  Predicted membrane protein (DUF2079)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.5  33.4   0.00037       6.6      70     350 ..      48     318 ..      37     330 .. 0.64

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.00037
                  DUF2079  70 llslgglplyrlarerllsrrlalliallYllspvvinptlfdFhpevlai.Pllllalllalrrrkwllllvlilllll.vredl 153
                               l l ++ +y +  +  +++  al+i+ lYl sp  + ++ f+F+ + l+    lll+++ ++  ++w+ +l+ ++ +ll ++  +
  PHY93_05970|PHY93_05970  48 TLLLNSFIIYVISFKGSEKEIVALIISSLYLISPIHFDVFFFNFQVQALLAeSCLLLSYYCYISNKQWGFFLGILCSVLLnTKLSF 133
                              567889999***999999******************************99977888888888888888888888876554266666 PP

                  DUF2079 154 slvvvilglwlilrerkrrkiglillllglawvilvtsvliPlfsstksqvfgverysylgsSlleillnlitqpllvlqellspe 239
                              ++ ++  +  l   +   ++  +  ++++++w++l  +++  l  s         ++ ++ s +  i+  +++++++  +++l+p+
  PHY93_05970|PHY93_05970 134 AIPLICTSNKLTKQQ---KI--MLGVAFAIVWIYLTPQTIEQLNLS---------YVNSIYSQFQLIIAPMVLSLFD--RAILIPK 203
                              666666665555544...23..344455555666555544333322.........2222334444555556666665..7889999 PP

                  DUF2079 240 gdklkyllllflplgflpllsspawLlvalPllllnllsgyspqlslgyqYsl..........lvipflvlaaifglaklsssvel 315
                              + ++ +++l ++ ++++++  s       +P++l  +      +++ +++Ys+           + p l+l+++f l ++      
  PHY93_05970|PHY93_05970 204 FYSVSTMFLFVVLTLLFLAY-SRFYKKDFFPIFLFCISVAAVGAYTPIIRYSYsseqrflllpTLYPTLFLGILFFLLSIL----- 283
                              88888877655544444444.334444445555544444555566666666653333332222356778888888888887..... PP

                  DUF2079 316 rrikriwsvalvlvlvltlflnparslsflvpdse 350
                               ++kr+ s++ + v+v ++ ++++ ++  + ++  
  PHY93_05970|PHY93_05970 284 TKLKRAQSYLFASVVVASFWFLLNVNIQSMAKNPD 318
                              46666666666666666666666666666655554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (405 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1061  (0.0591779); expected 358.6 (0.02)
Passed bias filter:                      343  (0.019131); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.67u 0.29s 00:00:00.96 Elapsed: 00:00:00.47
# Mc/sec: 2611.39
//
Query:       PHY93_02590|PHY93_02590  [L=342]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.092   12.6   0.0         18    5.2   0.0    2.4  2  RRM_1     RNA recognition motif. (a.k.a. RRM, RBD, or RNP dom


Domain annotation for each model (and alignments):
>> RRM_1  RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.2   0.0     0.001        18      11      31 ..     125     145 ..     124     161 .. 0.80
   2 ?    4.8   0.0    0.0014        25      11      61 ..     245     298 ..     241     302 .. 0.83

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.001
                              SHHHHHHHHHTTSCEEEEEEE CS
                    RRM_1  11 teeeLkelFskfGpiksiklv 31 
                              t++eLk +++kf +i++  + 
  PHY93_02590|PHY93_02590 125 TWDELKNHLKKFPKIEKWIIK 145
                              89*************765554 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.0014
                              SHHHHHHHHHTTSCEEEEEEEEE...TTTSEEEEEEEEESSHHHHHHHHHHHTT CS
                    RRM_1  11 teeeLkelFskfGpiksiklvrd...etgkskgfafVeFeskedAekAlealng 61 
                              t +++ +   + G +++i++ +    e+g  k +a Ve + +  +   +++l  
  PHY93_02590|PHY93_02590 245 TTQQIAQTYLNLGAVSNIQIDSFiyrENGELKTYALVEVNYRKTMGLVIQSLAS 298
                              788899999999999998886666679***********9999999888888866 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (342 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       539  (0.030063); expected 358.6 (0.02)
Passed bias filter:                      334  (0.018629); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.44
# Mc/sec: 2332.40
//
Query:       PHY93_02595|PHY93_02595  [L=269]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      1e-42  146.4   0.0    1.2e-42  146.2   0.0    1.0  1  DUF455       Protein of unknown function (DUF455)
  ------ inclusion threshold ------
      0.011   15.4   0.2      0.019   14.7   0.1    1.4  1  Ald_deCOase  Long-chain fatty aldehyde decarbonylase


Domain annotation for each model (and alignments):
>> DUF455  Protein of unknown function (DUF455)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  146.2   0.0   1.3e-46   1.2e-42      32     246 ..      36     253 ..      11     254 .. 0.90

  Alignments for each domain:
  == domain 1  score: 146.2 bits;  conditional E-value: 1.3e-46
                   DUF455  32 apadrparpekpel.vepkkvpkrrklgteesraallHalahiElnAidlaldaiarfeelpre...ffkDwlkvaedEakHfsll 113
                              + ++ p+r++++++  ++ k+pk+ +++ ee+r  +lH +a++El Ai++++ a++ +++   +   f k+++k+++dE+kH +l+
  PHY93_02595|PHY93_02595  36 ELPENPGRSNQLKFdNQQVKFPKNTSFHLEEKRGLALHFFANHELLAIEMMAAALLVYPDTRPDsilFKKGLVKTIQDEQKHLKLY 121
                              34579********95556679*************************************555443366******************* PP

                   DUF455 114 aerLeelgseYGdlpahdgLwesaektakdllarlavvplvlEArGLDvtpalieklraagdeesaeiLevIledEitHVaaGvrW 199
                               +r++e+g+e G++p++d +w+s+ek   ++ ++ + + +++E ++LD+   + + + a++d e+a+i+++++edEi+HVa G +W
  PHY93_02595|PHY93_02595 122 LSRMKEFGIELGEFPLNDFFWRSMEKCI-TPSQFYSAMAMTFESANLDFALYYEKSFLAVEDFETAKIMRIVFEDEISHVALGAHW 206
                              ***************************9.9******************************************************** PP

                   DUF455 200 frylcekegldpvetFrelvreyfrg..klkgpfneeaRkkAGlteeel 246
                              ++++  +++l  ++ Fr+++   +++  +   +f++++R++AG+++++l
  PHY93_02595|PHY93_02595 207 LNQWRGDKDL--WNYFRNNLPGVMTParSKGIHFDRSSRERAGIDHAFL 253
                              ****977766..************975455568************9997 PP

>> Ald_deCOase  Long-chain fatty aldehyde decarbonylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.1   2.1e-06     0.019     107     165 ..     169     225 ..     104     230 .. 0.78

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 2.1e-06
                              HHHHHHHHHGGGS-HHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHH CS
              Ald_deCOase 107 faiaayniyipvadefarkitegvvkdeylhlnfGeeWlkenfeevkeeleeankenlP 165
                              fa+   + ++ v d  ++ki+  v +de +h+  G +Wl++      ++l +  ++nlP
  PHY93_02595|PHY93_02595 169 FALYYEKSFLAVEDFETAKIMRIVFEDEISHVALGAHWLNQW--RGDKDLWNYFRNNLP 225
                              66666688999999999**********************874..345567777777777 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (269 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       278  (0.0155056); expected 358.6 (0.02)
Passed bias filter:                      237  (0.0132188); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.20s 00:00:00.76 Elapsed: 00:00:00.44
# Mc/sec: 1842.96
//
Query:       PHY93_02600|PHY93_02600  [L=885]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    9.5e-13   48.5   0.4      3e-12   46.9   0.4    1.9  1  Helicase_C     Helicase conserved C-terminal domain
     0.0055   16.4   3.7      0.012   15.3   3.7    1.6  1  zinc_ribbon_2  zinc-ribbon domain
  ------ inclusion threshold ------
      0.029   14.3   2.1       0.08   12.9   0.2    2.5  2  SUV3_C         Mitochondrial degradasome RNA helicase subunit
       0.13   11.7   1.4       0.22   11.0   1.4    1.2  1  DUF3583        Protein of unknown function (DUF3583)
        0.3   11.0   4.0        4.4    7.3   0.0    2.9  3  PLC-beta_C     PLC-beta C terminal
        3.1    7.9   5.9       0.21   11.6   0.5    1.8  2  DZR            Double zinc ribbon


Domain annotation for each model (and alignments):
>> Helicase_C  Helicase conserved C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.9   0.4     1e-15     3e-12      14     110 ..     504     607 ..     496     608 .. 0.83

  Alignments for each domain:
  == domain 1  score: 46.9 bits;  conditional E-value: 1e-15
                              TTTSEEEEEESSHHHHHHHHHHHHHTTSTEEEESTTSTHHHHHHHHHHHHTTSSSEEEESGGGTSSSTSTTESEEEESSSSSSH.. CS
               Helicase_C  14 eeggkilifvntidrlekvklllekkgikvavlhgelpqnereeileqfnkgesdvLiatdvaerGidipkvnlVinfdlprnv.. 97 
                               +++++li+  +++ l+  k+ le+ g+kv +++g l+ + r+e  ++f kg +dv+++td++++G+++p ++ +++  l + +  
  PHY93_02600|PHY93_02600 504 LQKSDALIVFSRRNALK-YKYDLEQVGFKVSIIYGMLSPEVRREQARKFDKGITDVIVSTDAISMGMNLP-IQRIVFSTLTKHIns 587
                              45667777777777774.67878999*******************************************9.888888888844444 PP

                              .......HHHHHHHTTSSST CS
               Helicase_C  98 .......tsyiqriGRtgRa 110
                                     ++++q +GR+gR+
  PHY93_02600|PHY93_02600 588 qehqitvSEIKQIAGRAGRF 607
                              4445555************7 PP

>> zinc_ribbon_2  zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   3.7   4.1e-06     0.012       2      19 ..     812     831 ..     811     831 .. 0.97

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 4.1e-06
            zinc_ribbon_2   2 CpnCGaelqdnakF..CpyC 19 
                              C++CGa+l+d +kF  C +C
  PHY93_02600|PHY93_02600 812 CSSCGAKLPDQSKFpiCDNC 831
                              ******************** PP

>> SUV3_C  Mitochondrial degradasome RNA helicase subunit C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.4   0.1      0.37   1.1e+03      30      46 ..     183     199 ..     181     201 .. 0.81
   2 ?   12.9   0.2   2.7e-05      0.08       3      27 ..     759     786 ..     758     804 .. 0.80

  Alignments for each domain:
  == domain 1  score: -0.4 bits;  conditional E-value: 0.37
                              HHHHHHHHHHHHHHHHH CS
                   SUV3_C  30 laeelkkeveekIeeaL 46 
                                ++ k+++ee I+   
  PHY93_02600|PHY93_02600 183 AINDTKAKIEEQINTEV 199
                              56899********9765 PP

  == domain 2  score: 12.9 bits;  conditional E-value: 2.7e-05
                              HHHHHHHHHHHHHHHHHH----...--- CS
                   SUV3_C   3 rLEslhkvldLYlWLSyRfpev...Fpd 27 
                               LE+  k++ LY WL+++f +    F d
  PHY93_02600|PHY93_02600 759 YLETTIKCVELYQWLARHFSNKnfeFED 786
                              69*****************987644444 PP

>> DUF3583  Protein of unknown function (DUF3583)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   1.4   7.2e-05      0.22      25      84 ..     180     240 ..     171     246 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 7.2e-05
                  DUF3583  25 avsqldearadtEelirarvrqvvahvqaqEreLLeavearyqrdyeei.agqlgrLdavL 84 
                               v+ +++++a +Ee+i ++v + +  v+ + + LL +++ ++q+ + ++  + l+rL+a +
  PHY93_02600|PHY93_02600 180 CVQAINDTKAKIEEQINTEVDKGISAVNNHYQHLLRTLDRKFQQVQFKLkKSSLNRLEAQI 240
                              5788999***********************************9976666257899999975 PP

>> PLC-beta_C  PLC-beta C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.9   0.4     0.016        48     130     167 ..     179     216 ..     160     239 .. 0.72
   2 ?   -3.5   0.0         3   8.9e+03     105     137 ..     284     316 ..     283     332 .. 0.61
   3 ?    7.3   0.0    0.0015       4.4      93     156 ..     580     642 ..     574     647 .. 0.90

  Alignments for each domain:
  == domain 1  score: 3.9 bits;  conditional E-value: 0.016
               PLC-beta_C 130 eilqqikeeekqlqeeldeeyeeklkrLpaevkelvke 167
                              e++q i++ + +++e++++e ++ ++ +++  ++l+++
  PHY93_02600|PHY93_02600 179 ECVQAINDTKAKIEEQINTEVDKGISAVNNHYQHLLRT 216
                              66677777777777777777666666666555555543 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 3
               PLC-beta_C 105 evVqvikrleekqkrrqekLeekqaeilqqike 137
                              e +  +k+l+ +  r+ + Le   ++ ++++  
  PHY93_02600|PHY93_02600 284 EYIRFFKQLSSNIWRNEKYLEGEFKKLIKSVLV 316
                              566777888877777777777776666665544 PP

  == domain 3  score: 7.3 bits;  conditional E-value: 0.0015
               PLC-beta_C  93 klkkeinnshiqevVqvikrleekqkrrqekLeekqaeilqqikeeekqlqeeldeeyeeklkr 156
                               l+k in +  q  V+ ik+++    r q ++   + ++lq+++e  + +q+ ld+ ++++ ++
  PHY93_02600|PHY93_02600 580 TLTKHINSQEHQITVSEIKQIAGRAGRFQ-RFPVGKVTCLQKVEEGLSDIQNALDSTLDQQTQS 642
                              58899***999************999986.899999******************9999888765 PP

>> DZR  Double zinc ribbon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.7       3.8   1.1e+04      14      21 ..     160     167 ..     153     183 .. 0.63
   2 ?   11.6   0.5   7.1e-05      0.21      14      34 ..     811     831 ..     799     838 .. 0.64

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 3.8
                      DZR  14 fCseCgtk 21 
                               C +C ++
  PHY93_02600|PHY93_02600 160 QCVACLAD 167
                              55555544 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 7.1e-05
                      DZR  14 fCseCgtklkavaaedrCpsC 34 
                              +Cs Cg+kl+ +++   C++C
  PHY93_02600|PHY93_02600 811 TCSSCGAKLPDQSKFPICDNC 831
                              455555555544445555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (885 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       970  (0.0541023); expected 358.6 (0.02)
Passed bias filter:                      537  (0.0299515); expected 358.6 (0.02)
Passed Vit filter:                        57  (0.00317921); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.86u 0.25s 00:00:01.10 Elapsed: 00:00:00.48
# Mc/sec: 5498.39
//
Query:       PHY93_02605|PHY93_02605  [L=397]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.1e-27   97.1   0.6    2.8e-27   95.7   0.4    1.8  2  Peptidase_M28  Peptidase family M28
    3.2e-07   30.3   0.0    4.7e-07   29.7   0.0    1.3  1  Peptidase_M20  Peptidase family M20/M25/M40
     0.0016   17.5   0.0     0.0057   15.7   0.0    1.9  2  Peptidase_M42  M42 glutamyl aminopeptidase


Domain annotation for each model (and alignments):
>> Peptidase_M28  Peptidase family M28
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0      0.38   2.3e+03     149     168 ..      26      45 ..      16      52 .. 0.60
   2 !   95.7   0.4   4.7e-31   2.8e-27       2     191 ..     191     385 ..     190     391 .. 0.84

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 0.38
                              TTHHHHTTT--EEEECTSSS CS
            Peptidase_M28 149 Dhspflkagvpvldlaetgf 168
                              D  +f+  g  +l++++++f
  PHY93_02605|PHY93_02605  26 DKNVFISIGTDALSFIQKKF 45 
                              44555555555555555544 PP

  == domain 2  score: 95.7 bits;  conditional E-value: 4.7e-31
                              EEEEESTTCESEEEEEEEE--B-TTT.....TCCT---TTTTHHHHHHHHHHHHHCHHGGCCSSEEEEEEEESSCSGSSHHHHHHH CS
            Peptidase_M28   2 viatlegkatdevlllgAHyDsvgvg.....rgpifvGAdDnAsgvaalLelarvlaasgsrpkrgvrflffdaEEagllGSkafa 82 
                              +i t++g++ de+++lg+H Ds+        r+p   G dDnAsg++++ e++r+l++++ +p+++++f+++ aEE gllGSk  a
  PHY93_02605|PHY93_02605 191 IILTIKGQS-DETIVLGGHQDSINGRigataRAP---GSDDNASGISTITEVIRLLVDNSYQPQKTLKFMAYAAEEVGLLGSKEIA 272
                              799******.**************8899998999...************************************************* PP

                              HHHC..CCTTEEEEEEECS-SSSS--EEE..HHHHHHCHHHHHHHHHHHHHTT-TTSCCEEEEESSTT-STTHHHHTTT--EEEE. CS
            Peptidase_M28  83 kakp..elkkiaavlnlDmvgsggkellf..esgdkssselekelkalakpvgraaaedpfdersgrgrsDhspflkagvpvldl. 163
                               +++   + ++  v++lDm++ +g+  l    ++d + +e +k + + ++ +   +  +   +++g+ +sDh++++ +g p     
  PHY93_02605|PHY93_02605 273 -SDFkkRNVNVIGVMQLDMTNFKGDDSLDivMMRDFTNDEQNKFIGSIIDHYVPGI--KWGFDKCGYACSDHASWHTQGYPSSMPf 355
                              .6663477788889*******99988775565555555555566666666666654..7788999****************99887 PP

                              ..CTSSS-TTTTSTTSSGGGB-HHHHHHHH CS
            Peptidase_M28 164 ..aetgfpevyHtprDtldnidkdtlaria 191
                                  + +++++Ht++Dtl   + ++ ++++
  PHY93_02605|PHY93_02605 356 eaTMDTMNHNIHTANDTLTVSNNNASHAVK 385
                              76556668889*******988888777665 PP

>> Peptidase_M20  Peptidase family M20/M25/M40
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.7   0.0   7.8e-11   4.7e-07       2      88 ..     205     292 ..     204     394 .. 0.64

  Alignments for each domain:
  == domain 1  score: 29.7 bits;  conditional E-value: 7.8e-11
                              EEEES-BSSTTCGGGSSSTTSEEETTT.EEESTTTTTTHHHHHHHHHHHHHHHHHTTT-SSEEEEEEESTTSSTTTHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M20   2 lgsHlDvVpeeetdgwttpfslteedG.klyGrGaddmkggvlaalealralkdegikpkgtivllfqpdEEggrgGakallegle 86 
                              lg+H+D+   +               G    ++G+dd+  g+ +++e++r l d+ ++p++t+++++ ++EE+g  G+k+++  ++
  PHY93_02605|PHY93_02605 205 LGGHQDSIN-GRI-------------GaTARAPGSDDNASGISTITEVIRLLVDNSYQPQKTLKFMAYAAEEVGLLGSKEIASDFK 276
                              667777777.222.............33689*****************************************988********555 PP

                              .T.............T CS
                              .x.............x RF
            Peptidase_M20  87 .e.............r 88 
                               +             +
  PHY93_02605|PHY93_02605 277 kRnvnvigvmqldmtN 292
                              3322222223233332 PP

>> Peptidase_M42  M42 glutamyl aminopeptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0      0.24   1.4e+03       2      25 ..     190     212 ..     190     216 .. 0.88
   2 !   15.7   0.0   9.5e-07    0.0057     134     190 ..     227     285 ..     213     302 .. 0.86

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.24
                              -EEEEEESSTTSSEEEEEEE--B- CS
            Peptidase_M42   2 nliakkkgkekepkvmiaAHmDei 25 
                              ++i ++kg +++  +++ +H D i
  PHY93_02605|PHY93_02605 190 SIILTIKG-QSDETIVLGGHQDSI 212
                              689999*9.78899********88 PP

  == domain 2  score: 15.7 bits;  conditional E-value: 9.5e-07
                              HHHHHHHHHHHHHHHHCTSS-S..SEEEEEEESTCTTTSHHHHHHHHHH--SEEEEEEE CS
            Peptidase_M42 134 Ddragvavllellkelkeeele..atvylvatvqEEvGlrGaktsaekikpdiaiavDv 190
                              D+  g+  + e+++ l +++ +   t+ ++a   EEvGl G+k +a+++k   + ++ v
  PHY93_02605|PHY93_02605 227 DNASGISTITEVIRLLVDNSYQpqKTLKFMAYAAEEVGLLGSKEIASDFKKRNVNVIGV 285
                              88899**************9988899********************9998776665555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (397 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       578  (0.0322383); expected 358.6 (0.02)
Passed bias filter:                      446  (0.0248759); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.61u 0.28s 00:00:00.89 Elapsed: 00:00:00.47
# Mc/sec: 2551.04
//
Query:       PHY93_02610|PHY93_02610  [L=359]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      2e-38  132.6   0.0    8.9e-36  123.9   0.0    2.0  1  NMO           Nitronate monooxygenase
      3e-09   36.3   0.6    1.9e-07   30.4   0.5    2.4  1  IMPDH         IMP dehydrogenase / GMP reductase domain
    4.4e-07   29.3   0.8    1.8e-06   27.2   1.4    1.6  2  FMN_dh        FMN-dependent dehydrogenase
    7.6e-05   22.1   2.0    0.00013   21.3   1.3    1.6  2  ThiG          Thiazole biosynthesis protein ThiG
    0.00082   18.9   0.3     0.0022   17.5   0.2    1.7  2  His_biosynth  Histidine biosynthesis protein
  ------ inclusion threshold ------
      0.078   13.0   0.0       0.27   11.3   0.0    1.8  2  ATP-grasp_3   ATP-grasp domain
       0.12   11.5   1.7       0.27   10.4   1.2    1.8  1  DHO_dh        Dihydroorotate dehydrogenase


Domain annotation for each model (and alignments):
>> NMO  Nitronate monooxygenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  123.9   0.0   3.5e-39   8.9e-36       3     330 ..      36     345 ..      34     346 .. 0.89

  Alignments for each domain:
  == domain 1  score: 123.9 bits;  conditional E-value: 3.5e-39
                      NMO   3 lltellkikppvvqpgmggiskarLaaavsnaGgLGvla.sgyltaDrlakeirkvkaltdkPfgvnlflpkkdaadraekykkel 87 
                               lt+ + ik+p++ ++m  +s++++     ++G +G +    y t+ ++++++++++   +  fgvnl ++k +   +        
  PHY93_02610|PHY93_02610  36 WLTKTFDIKYPIILAPMFLVSNNKMLIEAYKNGIIGCIPaLNYRTPEEFEEALKELQDKCQGKFGVNLIVNKSNIHLK-------- 113
                              68999*********************************7368****************************99766544........ PP

                      NMO  88 eeaalelnieegvrfyrkvevvldekvevvsfgfglpteevvarlkeagvvliptissvkearkvearGaDalivqGpeaGGhqGt 173
                                  ++l            ev+  +++ +v++ +g p ee +  lk  gv +   +  v+  +kve++GaDali+  + aGGh G+
  PHY93_02610|PHY93_02610 114 ----NQL------------EVLVRNPPAFVITSLGSP-EETIRLLKPKGVKIFCDVVDVEYSKKVEKLGADALIAVNSGAGGHAGN 182
                              ....333............344447799*********.99*********************************************6 PP

                      NMO 174 pevgdkglfaLvpqvldavdiPviAaGGiidrrgvaaaLalGAsgvqigtrfLltkesdakdahkkklleaklddteltsavsGrp 259
                               +        Lvp  ++  ++Pvi aGG+ ++ g+   LalGA+gv ig+ f++t es++++  k+++++ + +++++t+++sG p
  PHY93_02610|PHY93_02610 183 IPA-----SILVPMLREQCKLPVISAGGVGTGAGLLSTLALGAEGVSIGSPFIATMESGVSQEYKQAVIDYGAENIVMTTKISGSP 263
                              666.....69**************************************************************************** PP

                      NMO 260 aRalatelleeleeakiatlalpeahelakk.............iraalveagnteegllwagqgidrldkiisvkeLiesLve 330
                                ++ t  ++++   + +  ++  +++ akk             + +a+  a  t +++ +ag  i+ ++ki +++ ++e L++
  PHY93_02610|PHY93_02610 264 CSVIETPYVKKIGVDQNFLESFLSQNKTAKKyvkmltyykgmkaVEKAAFAA--TYKTVWVAGPSIEFIHKIETIQSIVERLIA 345
                              ************9866666666666644444444455555544488888877..99*************************987 PP

>> IMPDH  IMP dehydrogenase / GMP reductase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.4   0.5   7.5e-11   1.9e-07       9     237 ..      19     227 ..      13     247 .. 0.59

  Alignments for each domain:
  == domain 1  score: 30.4 bits;  conditional E-value: 7.5e-11
                              EE---B-S-GGGSB--EESSTTEEESSSEEE-SSTTT-SHHHHHHHHHTTSEEEE-S.S.S-HHHHHHHHHHHHTS.......... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.x.xxxxxxxxxxxxxxxx.......... RF
                    IMPDH   9 lvpaksevlpkevdlktkltkkiklniPlvsaamdtvtesemAialareGgigvihk.n.lsieeqaeevkkvkrs.......... 82 
                              +++++   + ++  ++t ltk+++++ P++ a+m  v++++m i+  ++G ig+i   n  ++ee  e +k+++ +          
  PHY93_02610|PHY93_02610  19 ILTSYNLSIKEHFMISTWLTKTFDIKYPIILAPMFLVSNNKMLIEAYKNGIIGCIPAlNyRTPEEFEEALKELQDKcqgkfgvnli 104
                              56666666778899*****************************************8623145555555566666545566666666 PP

                              .........................TTSXBXTTSXB-EEEEE-SSTTH..HHHHHHHHHTT-SEEE.EE-.STSSSHHHHH..HHH CS
                              .........................xxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxx.xxx.xxxxxxxxxx..xxx RF
                    IMPDH  83 .........................pnaakdekgrllvgaavgvkeda..lervkalveagvdvlv.vds.ahghsekvle..avk 137
                                                       +  + +e+ rll   +v +  d    e  k++ + g+d+l+ v+s a gh  ++     v 
  PHY93_02610|PHY93_02610 105 vnksnihlknqlevlvrnppafvitSLGSPEETIRLLKPKGVKIFCDVvdVEYSKKVEKLGADALIaVNSgAGGHAGNIPAsiLVP 190
                              66666666666666666666665553344444455554444444433211334444444455543214431334444433211344 PP

                              HHHHHTTTSEEE.EEEE-SHHHHHHHHHTT-SEEEE-SS-STTBHHHHHCSB---HHHHHHHHHHHHCTCT-EEEEES---SHHHH CS
                              xxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    IMPDH 138 eikkkveevevi.aGnvataegakaLieagadavkvGiGpGsiCttrvvagvGvpqltAvaevaeaakkagvpviaDGGikysgdi 222
                               +++++ ++ vi aG v t +g  + ++ ga++v +G                                                 
  PHY93_02610|PHY93_02610 191 MLREQC-KLPVIsAGGVGTGAGLLSTLALGAEGVSIG------------------------------------------------- 226
                              555555.455555566666666666666666665555................................................. PP

                              HHHHHTT-SEEEESC CS
                              xxxxxxxxxxxxxxx RF
                    IMPDH 223 vkAlaaGadavmlGs 237
                                            s
  PHY93_02610|PHY93_02610 227 --------------S 227
                              ..............4 PP

>> FMN_dh  FMN-dependent dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0      0.66   1.7e+03      57     104 ..      43      84 ..      41     116 .. 0.57
   2 !   27.2   1.4     7e-10   1.8e-06     224     308 ..     152     234 ..     144     256 .. 0.85

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 0.66
                              ESSSEEE--BSTGGGTSTTHHHHHHHHHHHHTS-EEEETT-SS-HHHH CS
                   FMN_dh  57 lslPvliaPvglaklahpdgelalaraaakagipfvlstvastsleev 104
                              +++P+++aP+ l +        ++  +a k gi+ ++  ++  + ee 
  PHY93_02610|PHY93_02610  43 IKYPIILAPMFLVSNN------KMLIEAYKNGIIGCIPALNYRTPEEF 84 
                              6788888887443322......23334455555555555555555555 PP

  == domain 2  score: 27.2 bits;  conditional E-value: 7e-10
                              E-SHHHHHHHHHTTESEEEE--GGGTSSTT---HHHCHHHHHHHH..SS-EEEESS--SHHHHHHHHHTT-SEEEESHHHHHHHH CS
                   FMN_dh 224 vltaedakraveaGvdgivvSNHGGRqldgapatidvLpeiveavggrievlvDgGirrGsDvlkAlalGAdavllGRpflygla 308
                              v+++e  k++ ++G+d+++  N G+    g +++    p ++e+++  ++v+  gG+ +G+  l  lalGA++v +G pf+  + 
  PHY93_02610|PHY93_02610 152 VVDVEYSKKVEKLGADALIAVNSGAGGHAGNIPASILVPMLREQCK--LPVISAGGVGTGAGLLSTLALGAEGVSIGSPFIATME 234
                              67888899999******9988877766667777777889******8..********************************76654 PP

>> ThiG  Thiazole biosynthesis protein ThiG
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   1.3   5.2e-08   0.00013     130     205 ..     152     227 ..     134     239 .. 0.82
   2 ?   -2.2   0.0       0.8   2.1e+03     191     209 ..     243     261 ..     228     268 .. 0.75

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 5.2e-08
                              E-S-HHHHHHHHHTT-SEBEEBSSSTTS----S-HH.HHHHHHHH-SS-BEEES---SHHHHHHHHHTT-SEEEESH CS
                     ThiG 130 vsdDlvlarrleevGcaavmPlaapiGsglGllnke.alkiiieeakvPvivDAGigspsdaaqamelGadavllnt 205
                              v  D+ +++++e++G+ a++ + +  G   G   +   + +++e++k+Pvi   G+g+      ++ lGa++v + +
  PHY93_02610|PHY93_02610 152 V-VDVEYSKKVEKLGADALIAVNSGAGGHAGNIPASiLVPMLREQCKLPVISAGGVGTGAGLLSTLALGAEGVSIGS 227
                              4.478899********************999776651567888999***************************8866 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 0.8
                              HHHHHTT-SEEEESHHHHT CS
                     ThiG 191 aqamelGadavllntavae 209
                               +++++Ga+ +++ t ++ 
  PHY93_02610|PHY93_02610 243 QAVIDYGAENIVMTTKISG 261
                              3578999999999999876 PP

>> His_biosynth  Histidine biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.2   8.6e-07    0.0022     148     223 ..     153     229 ..     140     234 .. 0.88
   2 ?   -2.2   0.0       0.9   2.3e+03      80     106 ..     235     260 ..     230     270 .. 0.71

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 8.6e-07
                              EHHHHHHHHHHTT-SEEEEEETTTTTTSS---HHH.HHHHHHHHSSEEEEESS--SHHHHHHHHHTTCSEEEESHHH CS
             His_biosynth 148 davelakkleelgageilltdidrdGtlsGpdlel.tkelaeavkipviasGGvgsledlkelksegvdavivgsal 223
                                ve  kk+e+lga +++  +  + G    +  ++ +  l+e++k+pvi +GGvg+ + l +  + g+++v +gs +
  PHY93_02610|PHY93_02610 153 VDVEYSKKVEKLGADALIAVNSGAGGHAGNIPASIlVPMLREQCKLPVISAGGVGTGAGLLSTLALGAEGVSIGSPF 229
                              5578899*************9999999999888665999***********************************976 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 0.9
                              SSSSSHHHHHHHHHCT-SEEEESHHHH CS
             His_biosynth  80 GGIrsledveelleagadkviigtaav 106
                              +G+++    +++++ ga++++++t+  
  PHY93_02610|PHY93_02610 235 SGVSQEY-KQAVIDYGAENIVMTTKIS 260
                              5665544.6788888888888888765 PP

>> ATP-grasp_3  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0    0.0001      0.27     103     150 ..      63     111 ..      33     118 .. 0.80
   2 ?   -2.2   0.0       1.4   3.6e+03      61      77 ..     250     266 ..     227     274 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.0001
                              TEEEEEEES----HHHHHHHHHHHHHTTST.T--EEEEEEEEESS.SEE CS
              ATP-grasp_3 103 fvyaGnvtpietelkeevvelaeevvekle.glaGyvGvDlvlkdeepy 150
                              ++y+ +++     l+ ++ e++ee++++l+ ++ G +Gv+l++++++++
  PHY93_02610|PHY93_02610  63 EAYKNGIIGCIPALNYRTPEEFEEALKELQdKCQGKFGVNLIVNKSNIH 111
                              455555555555778889999*********99***********997765 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 1.4
                              ....EEEE---SEEEEE CS
              ATP-grasp_3  61 eevelvqefieGkplSv 77 
                              +e+ ++   i+G+p+Sv
  PHY93_02610|PHY93_02610 250 AENIVMTTKISGSPCSV 266
                              33447888899999998 PP

>> DHO_dh  Dihydroorotate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   1.2   0.00011      0.27     233     277 ..     188     230 ..     142     243 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00011
                              HHHHHHHHTTT.S-EEEESS--SHHHHHHHHHHTECEEEESHHHH CS
                   DHO_dh 233 virelykrlkkeipiIgvGGiesgeDalekieaGAslvqvytalv 277
                              ++  l+++ k  +p+I+ GG+ +g   l  +  GA  v +++ ++
  PHY93_02610|PHY93_02610 188 LVPMLREQCK--LPVISAGGVGTGAGLLSTLALGAEGVSIGSPFI 230
                              4445566666..*****************************9775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (359 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       648  (0.0361426); expected 358.6 (0.02)
Passed bias filter:                      474  (0.0264376); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.62u 0.27s 00:00:00.89 Elapsed: 00:00:00.45
# Mc/sec: 2408.22
//
Query:       PHY93_02615|PHY93_02615  [L=407]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.5e-27   95.7  19.2    2.5e-27   95.7  19.2    1.7  2  MFS_1     Major Facilitator Superfamily
    1.6e-22   79.6   5.8    2.2e-22   79.1   5.8    1.1  1  MFS_3     Transmembrane secretion effector
  ------ inclusion threshold ------
      0.068   13.0   0.4       0.17   11.7   0.4    1.6  1  VIT1      VIT family


Domain annotation for each model (and alignments):
>> MFS_1  Major Facilitator Superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   95.7  19.2   4.2e-31   2.5e-27      10     344 ..      25     358 ..      16     367 .. 0.77
   2 ?   -0.3   0.9     0.065   3.9e+02     250     291 ..     359     398 ..     352     404 .. 0.49

  Alignments for each domain:
  == domain 1  score: 95.7 bits;  conditional E-value: 4.2e-31
                    MFS_1  10 larsilgpalpl.alaedlgispseigllltlyalgaavaslplGrlsdrfGrrrvlllglllfalglllll.fasslwlllvlrv 93 
                              l+++i+ +a+ l   a + + ++s++g+  +++ l + ++sl++G+l+  f  r +l+++  l +  +l l+ f + +++++v+  
  PHY93_02615|PHY93_02615  25 LGSFITDTAMMLfVFALS-NQDKSFLGITRAIFLLCYTIGSLLGGPLGLHFNKRNILIFSEMLRIPIILSLMfF-HDIYFVMVANG 108
                              444443333333222222.348999**************************9999************5555536.9********** PP

                    MFS_1  94 lqGlgagalfpagaaliadwfpkeergraigllsagfslGailgpllggllasslg.Wravfyilaivsllafvlfllll...pee 175
                              l Gl++g+++p+ ++li +++p+e+   a++l+++++++  + gpl+g+ l+s++     v  +  i +ll+++   ll+   ++ 
  PHY93_02615|PHY93_02615 109 LIGLFTGIYNPSRQTLINEIVPEEDIKEANSLFGTTMAVLHLGGPLIGATLYSYFHgVFQVLSLDLITYLLGII---LLFkinFTY 191
                              ****************************************************6654455566777777777777...455233333 PP

                    MFS_1 176 pperkrkspkeeekgtgpaplvp....awkallkdpvlwillialllfffgfsglltllplylqevlglsglllaglllallalvg 257
                              +++ k+  ++++   + p+++v     ++++++++  l ++li  l+++f++ +l+ ll  +++evl+ s   + g+ ++l++l+g
  PHY93_02615|PHY93_02615 192 KVTQKNILHQTK--LKTPKSMVLdfveGYRYVRSRADLSSMLIFTLMVGFCVGMLVPLLYPFVVEVLHKS-EREYGVNISLFGLGG 274
                              333333333333..34455555578889********998555555555568888888888889*******.788888888888888 PP

                    MFS_1 258 ailallagrlsdrlgrrrrlllallllllaalglallavtssavllllvlvliGfglgfvfpsllalasdlappeeagtasglfnt 343
                              +i++ l+g l +r+++   +l+ +++++ a+l+ +++ +t +  l  +v++++G+ +++  ps l+++s ++p+e++ +++++  +
  PHY93_02615|PHY93_02615 275 IIGGWLSGTLNRRFKA--STLFLMGIIAEAVLMPLWIRTT-DFKLNCFVIFFWGIMVFIRIPSQLNYISAHVPKEYMTRVYSFLDL 357
                              8889999999999887..7777777777777777777777.55555559999***99999*********************99876 PP

                    MFS_1 344 a 344
                              +
  PHY93_02615|PHY93_02615 358 V 358
                              5 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.065
                    MFS_1 250 lallalvgailallagrlsdrlgrrrrllla.llllllaalgl 291
                              + ++ + +   +++++ + ++l+   +l+++ +l++ll+ +gl
  PHY93_02615|PHY93_02615 359 FVVPNISA---GIIVALIGNKLSTFEILNFTsILFILLVGVGL 398
                              44444444...55555555555554444444044444444444 PP

>> MFS_3  Transmembrane secretion effector
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.1   5.8   3.8e-26   2.2e-22       5     391 ..       6     398 ..       3     403 .. 0.81

  Alignments for each domain:
  == domain 1  score: 79.1 bits;  conditional E-value: 3.8e-26
                    MFS_3   5 aPlrqkvFrviWiaslvsnlGtliqevaasWlmtdisasplm.vAlvqaaatLPifllsilaGalaDnfdrRkvllavqlllalvs 89 
                              a l++  F  +++a l s+lG++i + a+  ++  +s  +     +  a   L   + s+l G l   f++R++l+   +l +   
  PHY93_02615|PHY93_02615   6 AALKNPEFLKLYLAGLTSELGSFITDTAMMLFVFALSNQDKSfLGITRAIFLLCYTIGSLLGGPLGLHFNKRNILIFSEMLRIPI- 90 
                              6799999***********************9999999887651677788888899999******************998776543. PP

                    MFS_3  90 vlltvlaalgllspwlllaltlligiGaalndPaWqAsvgelvkrrdvpaAvaLnsvginiaRsvGPAlgGvlvaav.Gaalafav 174
                                  +l+++ + + + +++   lig+ + + +P+ q  ++e+v+ +d+++A  L    + +    GP +g  l + + G   + ++
  PHY93_02615|PHY93_02615  91 ----ILSLMFFHDIYFVMVANGLIGLFTGIYNPSRQTLINEIVPEEDIKEANSLFGTTMAVLHLGGPLIGATLYSYFhGVFQVLSL 172
                              ....44445566777888889999***************************************************87688899*** PP

                    MFS_3 175 nalsylalivallrwk..revrksslp.rEklle......alraglRftaasreikavlvRaalFglsasavlaLL.Plvardqld 250
                              + ++yl  i+ l +++   +v++++++ + kl +       + +g+R++++  ++ ++l+ + + g+     + LL P+v+ + l+
  PHY93_02615|PHY93_02615 173 DLITYLLGIILLFKINftYKVTQKNILhQTKLKTpksmvlDFVEGYRYVRSRADLSSMLIFTLMVGFCVGMLVPLLyPFVV-EVLH 257
                              ******98888877642245555554414455432222126889**********************999999888846666.6778 PP

                    MFS_3 251 gdalvyGillgalGvGAilgalllsrLRerlsserlvllaavalAlvllslalasslwvavlvlllgGa.aWitalstlnvavqla 335
                                   yG+ ++ +G+G i+g+ l+ +L +r+++++l l+  +a A+ +     +++  + ++v+ + G   +i   s+ln  + + 
  PHY93_02615|PHY93_02615 258 KSEREYGVNISLFGLGGIIGGWLSGTLNRRFKASTLFLMGIIAEAVLMPLWIRTTDFKLNCFVIFFWGImVFIRIPSQLNY-ISAH 342
                              88899****************************************998777777777788888888776156666677765.6788 PP

                    MFS_3 336 vPrWvvgRalavYltvlaG.glaaGsllWGavaealsvtlaLlaaaaalllaaaill 391
                              vP+   +R+ +    v+    ++aG ++   ++++ls    L+ ++++++l + ++l
  PHY93_02615|PHY93_02615 343 VPKEYMTRVYSFLDLVFVVpNISAG-IIVALIGNKLSTFEILNFTSILFILLVGVGL 398
                              9999999999988777654155555.5667888888888888888887776666655 PP

>> VIT1  VIT family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.4   2.9e-05      0.17     139     209 ..     233     303 ..     193     306 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 2.9e-05
                     VIT1 139 lssalsfliGgliPllpylfve.....svglalvvsiavtllalllfGavkalltgssk.lvsalrmlliGalAaaa 209
                              ++ +++f++G l+Pll  ++ve     ++        +v +    l G+++++l+g+   +++a    l+G++A a+
  PHY93_02615|PHY93_02615 233 FTLMVGFCVGMLVPLLYPFVVEvlhksEREY------GVNISLFGLGGIIGGWLSGTLNrRFKASTLFLMGIIAEAV 303
                              57789***********999999443222333......34444555667888999965554*************9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (407 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       782  (0.0436165); expected 358.6 (0.02)
Passed bias filter:                      313  (0.0174578); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.62u 0.24s 00:00:00.86 Elapsed: 00:00:00.44
# Mc/sec: 2794.98
//
Query:       PHY93_02620|PHY93_02620  [L=228]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (228 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       624  (0.0348039); expected 358.6 (0.02)
Passed bias filter:                      290  (0.0161749); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.54u 0.25s 00:00:00.79 Elapsed: 00:00:00.47
# Mc/sec: 1461.81
//
Query:       PHY93_02625|PHY93_02625  [L=371]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      0.002   18.0   0.4     0.0034   17.2   0.4    1.4  1  DUF410    Protein of unknown function (DUF410)
  ------ inclusion threshold ------
      0.016   15.0   0.0      0.035   13.9   0.0    1.5  1  MRP-L27   Mitochondrial ribosomal protein L27


Domain annotation for each model (and alignments):
>> DUF410  Protein of unknown function (DUF410)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.4   3.8e-07    0.0034      44     128 ..      44     128 ..      29     196 .. 0.77

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 3.8e-07
                   DUF410  44 evdeeskdrliellskfpaeeperkkfi..kaaikwSakkgekkaGdpeLhhllaklllkegeleeAerhlllgtddsaeelakll 127
                              ++d++ ++ li+l+  ++++  +  +++  ++ +k + +k++  + +  Lh ll+ +l ke+el++A +h+l g  + ++el +++
  PHY93_02625|PHY93_02625  44 SLDHKKLALLIDLIGRYEQNLFNARDYAelENNLKETIEKSGIAFYQGWLHFLLGYYLKKEDELKLAASHFLEG--SHINELYEVY 127
                              3355566777888888888888776665114566678888889*******************************..6666887766 PP

                   DUF410 128 v 128
                              +
  PHY93_02625|PHY93_02625 128 Y 128
                              5 PP

>> MRP-L27  Mitochondrial ribosomal protein L27
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   3.9e-06     0.035      29      72 ..     290     334 ..     279     351 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 3.9e-06
                              EEETTTEEEE-TTTS-EE----.-TT----SEE-TTS-------- CS
                  MRP-L27  29 iltssgkyveirekvrelvvPd.legfkLKpyVsykapevkqsel 72 
                              i +++ +y  ++e  +++++P  l+ + L  yV +k+p++++ +l
  PHY93_02625|PHY93_02625 290 INKNNNRYFLNWEAKPKIIIPRsLKVIGLQEYVKKKVPKFSKAQL 334
                              4567889***************9****************998865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (371 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       791  (0.0441185); expected 358.6 (0.02)
Passed bias filter:                      523  (0.0291706); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.61u 0.29s 00:00:00.89 Elapsed: 00:00:00.47
# Mc/sec: 2372.59
//
Query:       PHY93_02630|PHY93_02630  [L=392]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.4e-47  160.6   0.0    5.9e-47  160.1   0.0    1.1  1  DUF900    Alpha/beta hydrolase of unknown function (DUF900)


Domain annotation for each model (and alignments):
>> DUF900  Alpha/beta hydrolase of unknown function (DUF900)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  160.1   0.0   3.3e-51   5.9e-47       9     231 ..     150     369 ..     145     372 .. 0.90

  Alignments for each domain:
  == domain 1  score: 160.1 bits;  conditional E-value: 3.3e-51
                   DUF900   9 lakelkksaakeilvfvhGynnsFedavlraaqiaddlknqgaivvfsWPsagk..lld.......ynyDresaeasrdalekllr 85 
                              + ++lk + +++ lvfvhG+n+++edavlraaqia+dlk+qg iv+fsWP+++   ++d       y+++ ++a+ s + ++++l+
  PHY93_02630|PHY93_02630 150 VIDFLK-KTKRTPLVFVHGFNVRYEDAVLRAAQIAYDLKYQGPIVLFSWPAGAGdgFFDdkmitrtYESNIKNAKGSIETFKNFLT 234
                              556666.577888**************************************998788888999988999999************** PP

                   DUF900  86 ylatkksakkihllaHSmGtwlvlealrqlaieadepaveakikeviLaAPDidvdvfkkqleslgkeskeltvyvsrdDraLklS 171
                              +l+ +  + ki+l++HSmG+++vl al++   +     ++  i+e+iL+APD+++++f k +e++ ++sk++t+y+s +D+a+ +S
  PHY93_02630|PHY93_02630 235 ELQAN--DLKINLVVHSMGHQVVLPALKEFTGSIT---GKSVINELILNAPDFEANEFIKLIENIKETSKRITLYCSYNDKAMVAS 315
                              ***99..99*********************99885...678********************************************* PP

                   DUF900 172 aliegdasRlGaldpdeereellskgvevvDlskvkesdllnhskfasnpevvadfaall 231
                              +  ++   RlGa+  +e+   l +  v++vD+  +  +  l+hs+++s++ + + f+ +l
  PHY93_02630|PHY93_02630 316 ETYNKT-ERLGACTFSEN---LDTINVSLVDAPTM--GLGLGHSYYSSRAILGDVFQVIL 369
                              998888.7******8866...88888999998887..666******99888887666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (392 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       716  (0.0399353); expected 358.6 (0.02)
Passed bias filter:                      542  (0.0302304); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.63u 0.27s 00:00:00.90 Elapsed: 00:00:00.46
# Mc/sec: 2548.46
//
Query:       PHY93_02635|PHY93_02635  [L=682]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
   3.1e-142  475.1   1.4   3.9e-142  474.7   1.4    1.1  1  Peptidase_M3    Peptidase family M3
  ------ inclusion threshold ------
      0.022   14.4   0.3      0.037   13.6   0.3    1.3  1  Peptidase_M50B  Peptidase M50B-like


Domain annotation for each model (and alignments):
>> Peptidase_M3  Peptidase family M3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  474.7   1.4  4.3e-146  3.9e-142       1     457 [.     233     681 ..     233     682 .] 0.97

  Alignments for each domain:
  == domain 1  score: 474.7 bits;  conditional E-value: 4.3e-146
                              HHHC-S-HHHHHHHHHHHCTTTCCSS..THHHHHHHHHHHHHHHHHHHTT-SSHHHHHHTTSTT-SHHHHHHHHHHHHHHHHHHHH CS
             Peptidase_M3   1 llkespdrelRkeayeashskaaeqrntlensklleellklraelAkllgyesyaelaledkmaknpetvldfleelvkklrplle 86 
                              +l+++++relRk++y a+++k  +  ++++n+++ +++ klr+++A+llgyes+a++ le++ma +p+tv+ f++++v++++p++ 
  PHY93_02635|PHY93_02635 233 FLTYASNRELRKQMYLANSTKGFKG-DDQDNREIVKSIAKLRHQKAQLLGYESHAHFVLEERMASTPKTVMSFIDNIVNHATPAAA 317
                              689******************7754.4688******************************************************** PP

                              HHHHHHHHHHHHCCT-SSS--CCCHHHHHHHHHCCCCS--CCCCGGG-BHHHHHHCHHHHHHHHHTEEEEEETTS..--SSTT-EE CS
             Peptidase_M3  87 kelkllkelkkkelglegelqpwDvaYYsekqreekydldqeelkeyfpletvleGllelfeeLfGikfveekdakgevwhedVrk 172
                              +e+++l+ +++k  g+  ++q wD  YY+ek ++ek+++++e l++yf le+v++G+++++++LfG++f+++ d+  +v+h++V+ 
  PHY93_02635|PHY93_02635 318 AETEELRVYARKTDGIM-DYQKWDNMYYAEKLKNEKFQVNDEMLRPYFKLEKVIDGVFQVAHKLFGLSFKQRLDI--PVYHPEVKT 400
                              **************999.*********************************************************..********* PP

                              EEEEET.TT-EEEEEEEEEEC--TTS-SS-EEEEEE--B.TTS-B--EEEEEEEEE---BTTS--B--HHHHHHHHHHHHHHHHHH CS
             Peptidase_M3 173 leVvdeilsegligeiylDlyerkgKrggAasfglvksr.edgtrqlpviylllNftkpsskkPsLLtldevetLfHEfGHsmHsl 257
                              +eV+de  ++++++ +y D+++r gKr+gA++++++ ++  dg    p+i++++Nftkp+  kPsLL + ev+tLfHEfGH++H +
  PHY93_02635|PHY93_02635 401 YEVLDE--NNNHVAVFYADFHPRAGKRNGAWMTSFRGQKiVDGVNIRPHIAIVCNFTKPTPTKPSLLAFGEVTTLFHEFGHALHGM 484
                              ******..88888************************9754899999*************************************** PP

                              C--BSSGGGSTT-S-CCCCCHHHHHHHHGGGSHHHHHCC-B-TTT--B--HHHHHHHHCCCCTTHHHHHHHHHHHHHHHHHCTT-T CS
             Peptidase_M3 258 lsrteysnvsgtnvpidfvElpSqlmEnlltepevlkslskhyetgeaipeelleklikaknvnaalellrqlvfaafdqelHeea 343
                              l++t+y+++sgtnv +dfvElpSq++En++ e+e l+++++hyetge+ip++l+ k+  +  + ++ ++lrql+fa +d+ +H+++
  PHY93_02635|PHY93_02635 485 LANTQYETLSGTNVYWDFVELPSQILENWAYEKECLDLFAEHYETGEKIPADLIKKIKDSASFLEGRATLRQLSFAYVDMAWHSSN 570
                              ************************************************************************************** PP

                              CCGHH....HHHHHHHHHHCTTSCTTBTTSSGGGC-CCCHTSS-TTTTCHHHHHHHHHHHHHHCCHHCCTT-CCHHHHHHHHTTTT CS
             Peptidase_M3 344 eeeqilkkdlletyaelrkkflglpvapdeasqasFghlfahgYaanYYsylyaevlaldifekffeedplnretGeryrkeiLsr 429
                               e+  +  d+ +  + +++ +  lp+++++ +++ F+h+fa+gY+a+YYsy++aevl++d+fe f+  +++nre+ ++++++iLs+
  PHY93_02635|PHY93_02635 571 PEKI-Q--DIEAFETGIMEHMEFLPSVKGTCISTAFSHIFAGGYSAGYYSYKWAEVLDADAFEFFKGMGIFNREVANKFKDSILSK 653
                              9955.4..599999999999999*************************************************************** PP

                              TTSS-HHHHHHCCCSS---SHHHHHHCT CS
             Peptidase_M3 430 Ggskdplellkkflgrepsadallkalg 457
                              Ggs+ p++l+ +f+g+ep+++all++ g
  PHY93_02635|PHY93_02635 654 GGSQHPMNLYVAFRGKEPNPEALLRRAG 681
                              ***********************99765 PP

>> Peptidase_M50B  Peptidase M50B-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.3   4.2e-06     0.037      15      42 ..     462     489 ..     447     494 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 4.2e-06
           Peptidase_M50B  15 pllrpfkllvvffHElGHalaalLtGgr 42 
                              p l  f  ++++fHE+GHal  +L+  +
  PHY93_02635|PHY93_02635 462 PSLLAFGEVTTLFHEFGHALHGMLANTQ 489
                              666779999***********99998666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (682 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       558  (0.0311228); expected 358.6 (0.02)
Passed bias filter:                      397  (0.0221429); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.69u 0.29s 00:00:00.98 Elapsed: 00:00:00.47
# Mc/sec: 4396.68
//
Query:       PHY93_05975|PHY93_05975  [L=485]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-07   32.2  19.3    1.1e-07   32.2  19.3    3.3  4  PMT_2     Dolichyl-phosphate-mannose-protein mannosyltransfer
  ------ inclusion threshold ------
       0.12   12.9   0.0       0.21   12.1   0.0    1.4  1  TPR_19    Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> PMT_2  Dolichyl-phosphate-mannose-protein mannosyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.8   0.6       1.5   1.3e+04      78     101 ..      15      39 ..      12      42 .. 0.54
   2 !   32.2  19.3   1.2e-11   1.1e-07       4     151 ..      67     212 ..      64     219 .. 0.83
   3 ?    0.3   2.3     0.079   7.1e+02     123     154 ..     318     349 ..     303     357 .. 0.58
   4 ?   -5.5   8.2         2   1.8e+04      16      16 ..     351     351 ..     316     420 .. 0.50

  Alignments for each domain:
  == domain 1  score: -3.8 bits;  conditional E-value: 1.5
                    PMT_2  78 lvllwalalylllraleknk.lkyw 101
                              +v++++ a  +++  l+ +  + +w
  PHY93_05975|PHY93_05975  15 FVFFLLVASVIYFPTLKAGAlWDDW 39 
                              4555555555555555555555555 PP

  == domain 2  score: 32.2 bits;  conditional E-value: 1.2e-11
                    PMT_2   4 Pliawllalftklfgfselairlvsalagvltilllyllarrlfgkraallaalllavvplfvalsalftp.daplvllwalalyl 88 
                              P+++ +l+++ + f ++    ++vs +++   ++lly+++ +l g++a+l+a l l   + f+ ++ ++++   +++++ +la+  
  PHY93_05975|PHY93_05975  67 PMFFSFLWVLDAFFSEKFIFYHIVSLVLHTSNAFLLYKIMPKLGGRNAGLIALLYLVHPLHFFSVTWIIQLkTLMCIFFFLLAAIS 152
                              8999999999999999***********************************98888874445555555555489999********* PP

                    PMT_2  89 llraleknklkywllagvlfGlgflsKytaallliaallyllisarrilkekkpyl.alllall 151
                              +l++ e+n  k+++++ vlf++++lsK   a +li   l+l+++ +r+++   + l ++ l l 
  PHY93_05975|PHY93_05975 153 FLKYRESNTRKDLVFSIVLFAFSLLSKAAFAPILI---LFLFFK-ERKVALVFISLcIYSLLLT 212
                              ***************************87777666...899999.7777766666635444444 PP

  == domain 3  score: 0.3 bits;  conditional E-value: 0.079
                    PMT_2 123 iaall.yllisarrilkekkpyl.alllalllfs 154
                              i +ll  ++i  + i k+k++ l +ll++++ ++
  PHY93_05975|PHY93_05975 318 I-VLLsTFFIV-GFINKKKWISLsGLLFFIISIV 349
                              1.222333333.6678888888844444444444 PP

  == domain 4  score: -5.5 bits;  conditional E-value: 2
                    PMT_2  16 l 16 
                              l
  PHY93_05975|PHY93_05975 351 L 351
                              2 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   2.3e-05      0.21      13      51 ..     419     456 ..     400     462 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 2.3e-05
                   TPR_19  13 lleqalqedpknaearllLAeallalgqldeAealLdal 51 
                              +l++ ++ +pkn +++l LA+ ++ +++++   a+L+ l
  PHY93_05975|PHY93_05975 419 ILKS-IERSPKNVNIKLVLANHYFFTKRYELSNAVLKSL 456
                              6777.599**********************999999987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (485 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1036  (0.0577835); expected 358.6 (0.02)
Passed bias filter:                      326  (0.0181828); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.65u 0.29s 00:00:00.94 Elapsed: 00:00:00.48
# Mc/sec: 3054.98
//
Query:       PHY93_02640|PHY93_02640  [L=209]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (209 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       669  (0.0373138); expected 358.6 (0.02)
Passed bias filter:                      362  (0.0201908); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 1438.93
//
Query:       PHY93_02645|PHY93_02645  [L=174]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.1e-11   43.7   0.0    4.4e-11   42.7   0.0    1.5  1  Fe_dep_repr_C    Iron dependent repressor, metal binding and 
    1.5e-10   41.1   0.2    2.5e-10   40.4   0.2    1.3  1  Fe_dep_repress   Iron dependent repressor, N-terminal DNA bin
    7.7e-07   28.9   0.0    1.7e-06   27.8   0.0    1.7  1  MarR_2           MarR family
    3.5e-06   26.9   0.3    9.9e-06   25.4   0.1    1.9  2  MarR             MarR family
    2.2e-05   24.3   0.0    4.7e-05   23.2   0.0    1.6  1  TrmB             Sugar-specific transcriptional regulator Trm
    2.7e-05   23.9   0.0    5.8e-05   22.9   0.0    1.6  1  HTH_5            Bacterial regulatory protein, arsR family
    9.3e-05   22.3   0.1    0.00038   20.4   0.0    2.0  2  HTH_36           Helix-turn-helix domain
    0.00012   22.5   0.1    0.00021   21.7   0.1    1.4  1  HTH_27           Winged helix DNA-binding domain
    0.00015   21.5   0.1     0.0014   18.3   0.0    2.5  3  HTH_IclR         IclR helix-turn-helix domain
    0.00027   20.8   0.1    0.00044   20.2   0.1    1.4  1  HTH_45           Winged helix-turn-helix
    0.00034   20.1   0.0    0.00061   19.3   0.0    1.5  1  HTH_24           Winged helix-turn-helix DNA-binding
    0.00057   19.8   0.0      0.001   19.0   0.0    1.5  1  HTH_Crp_2        Crp-like helix-turn-helix domain
    0.00088   19.6   0.2     0.0026   18.1   0.2    1.8  1  Rrf2             Transcriptional regulator
      0.002   18.5   0.2     0.0047   17.3   0.1    1.8  1  Penicillinase_R  Penicillinase repressor
     0.0029   17.6   0.2     0.0085   16.1   0.0    1.8  2  FeoC             FeoC like transcriptional regulator
     0.0032   17.2   0.1     0.0047   16.7   0.1    1.2  1  DUF4423          Domain of unknown function (DUF4423)
     0.0052   17.3   0.4       0.15   12.6   0.0    2.2  2  PRESAN           Plasmodium RESA N-terminal
  ------ inclusion threshold ------
       0.03   14.0   0.0      0.066   12.9   0.0    1.5  1  HTH_41           Helix-turn-helix domain
      0.034   13.1   0.0      0.037   13.0   0.0    1.1  1  tRNA-synt_1d     tRNA synthetases class I (R)
      0.066   13.0   0.2         16    5.4   0.1    2.6  2  Castor1_N        Cytosolic arginine sensor for mTORC1 subunit
      0.085   12.6   0.0        0.2   11.5   0.0    1.6  2  LexA_DNA_bind    LexA DNA binding domain
      0.095   12.9   0.1       0.33   11.2   0.1    2.0  1  HTH_34           Winged helix DNA-binding domain
        0.1   12.6   0.0       0.19   11.7   0.0    1.6  1  PadR             Transcriptional regulator PadR-like family


Domain annotation for each model (and alignments):
>> Fe_dep_repr_C  Iron dependent repressor, metal binding and dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.7   0.0   5.6e-14   4.4e-11       1      59 [.      71     129 ..      71     137 .. 0.95

  Alignments for each domain:
  == domain 1  score: 42.7 bits;  conditional E-value: 5.6e-14
                              -HHHHHHHHHHHHHHHHHHHHHHHHCT--CCCHHHHCCCCGGGS-HHHHHHHHHHCT-. CS
            Fe_dep_repr_C   1 TekGrelAkrlvrrhrllerfLvdvlgvdweeaheeAerlEhalseelierldellgfp 59 
                              Te G+e+  r++    ll+ fL d++gvd+  a+++++++Eh +s+++ e++  +++ +
  PHY93_02645|PHY93_02645  71 TELGHEEVHRILSSRTLLYYFLRDFVGVDDATAENDSCQMEHLMSPQTSEKFFSFMKTL 129
                              999**************************************************999875 PP

>> Fe_dep_repress  Iron dependent repressor, N-terminal DNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.4   0.2   3.2e-13   2.5e-10       2      54 ..       9      61 ..       8      64 .. 0.95

  Alignments for each domain:
  == domain 1  score: 40.4 bits;  conditional E-value: 3.2e-13
                             --HHHHHHHHHHHHHHHHHSSB-HHHHHHHHTS-HHHHHHHHHHHHHTTSEEE CS
           Fe_dep_repress  2 LvestEdYLetIYtlseekkvvktkdlaerLnvspssVsemlkkLekdGyvey 54
                             L+ s+  YL tI +l+e++++++++d+a+ L+  + sVs ml+ L+k+G+++ 
  PHY93_02645|PHY93_02645  9 LSHSMVHYLLTIHKLKENRGFARVTDIAKDLELTKGSVSTMLNNLKKKGLIQE 61
                             899999********************************************875 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.8   0.0   2.2e-09   1.7e-06      16      54 ..      25      62 ..       9      66 .. 0.85

  Alignments for each domain:
  == domain 1  score: 27.8 bits;  conditional E-value: 2.2e-09
                             CTTTSEE.EHHHHHHHHTSSHHHHHHHHHHHHHTTSEEEE CS
                   MarR_2 16 rrpgrdl.tvgelarrlglsksavsrilkrLvaaGLverr 54
                              + g  + +v+++a+ l l+k++vs +l+ L ++GL++++
  PHY93_02645|PHY93_02645 25 ENRG--FaRVTDIAKDLELTKGSVSTMLNNLKKKGLIQEE 62
                             4555..559****************************887 PP

>> MarR  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.4   0.1   1.3e-08   9.9e-06       9      48 ..      20      60 ..       9      63 .. 0.80
   2 ?   -2.6   0.0       7.2   5.6e+03       6      18 ..      67      79 ..      66      83 .. 0.77

  Alignments for each domain:
  == domain 1  score: 25.4 bits;  conditional E-value: 1.3e-08
                             HHHHHHSTT.EEHHHHHHHHTS-HHHHHHHHHHHHHTTSEE CS
                     MarR  9 Lrilyeqgp.lsvseLakklgvskstvtrvldrLekkGlie 48
                             +++l+e+ + ++v+++ak l+++k++v+++l  L kkGli+
  PHY93_02645|PHY93_02645 20 IHKLKENRGfARVTDIAKDLELTKGSVSTMLNNLKKKGLIQ 60
                             34455555569*****************************7 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 7.2
                             HHHHHHHHHSTTE CS
                     MarR  6 fviLrilyeqgpl 18
                             fv+L+ l +++ +
  PHY93_02645|PHY93_02645 67 FVVLTELGHEEVH 79
                             8999999887765 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.2   0.0     6e-08   4.7e-05      20      57 ..      27      64 ..      22      82 .. 0.92

  Alignments for each domain:
  == domain 1  score: 23.2 bits;  conditional E-value: 6e-08
                             HCCCHHCHHCCCTTSSCHCHHHHHHHHHHCTSEEEESS CS
                     TrmB 20 lgpatadeiaeelgvprskvYevLrsLedkGlVerekg 57
                             +g a++++ia++l++ + +v  +L++L++kGl++ e++
  PHY93_02645|PHY93_02645 27 RGFARVTDIAKDLELTKGSVSTMLNNLKKKGLIQEEEE 64
                             56789*****************************9987 PP

>> HTH_5  Bacterial regulatory protein, arsR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.9   0.0   7.5e-08   5.8e-05      16      46 ..      30      60 ..      20      61 .. 0.88

  Alignments for each domain:
  == domain 1  score: 22.9 bits;  conditional E-value: 7.5e-08
                             EEHHHHHHHHTS-HHHHHHHHHHHHHTTSEE CS
                    HTH_5 16 lcvcelaeelglsqstvShHLkkLreaGLVe 46
                             + v+++a++l+l+++ vS  L+ L++ GL++
  PHY93_02645|PHY93_02645 30 ARVTDIAKDLELTKGSVSTMLNNLKKKGLIQ 60
                             789**************************96 PP

>> HTH_36  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.4   0.0   4.8e-07   0.00038      20      55 .]      24      59 ..       8      59 .. 0.86
   2 ?   -1.7   0.0       3.9     3e+03       8      17 ..      86      95 ..      82     104 .. 0.80

  Alignments for each domain:
  == domain 1  score: 20.4 bits;  conditional E-value: 4.8e-07
                   HTH_36 20 knggcfpsqetlakrlglsknTvsraikeLeqlGyi 55
                             k++  f+ + ++ak+l+l k +vs+ +++L ++G+i
  PHY93_02645|PHY93_02645 24 KENRGFARVTDIAKDLELTKGSVSTMLNNLKKKGLI 59
                             45556*****************************98 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 3.9
                   HTH_36  8 klllgslasf 17
                              ll+ +l++f
  PHY93_02645|PHY93_02645 86 TLLYYFLRDF 95
                             6999999988 PP

>> HTH_27  Winged helix DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.7   0.1   2.7e-07   0.00021       8      68 .]      19      74 ..      13      74 .. 0.89

  Alignments for each domain:
  == domain 1  score: 21.7 bits;  conditional E-value: 2.7e-07
                   HTH_27  8 vLhlirhrrrrkkladlcgrlnvedshisyslkkLtekGLvertgdeadrrekrvrlTdkG 68
                             ++h ++++r+ ++ +d+++ l +++ ++s +l+ L +kGL+++++       k+v lT+ G
  PHY93_02645|PHY93_02645 19 TIHKLKENRGFARVTDIAKDLELTKGSVSTMLNNLKKKGLIQEEEEC-----KFVVLTELG 74
                             57888888899999***************************888887.....999999977 PP

>> HTH_IclR  IclR helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.1       1.6   1.2e+03      28      39 ..       7      18 ..       6      19 .. 0.86
   2 !   18.3   0.0   1.8e-06    0.0014      16      50 ..      27      61 ..      22      63 .. 0.87
   3 ?   -2.3   0.0       5.2   4.1e+03      35      40 ..      78      83 ..      77      84 .. 0.82

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 1.6
                             HTS-HHHHHHHH CS
                 HTH_IclR 28 tglpkStvhRlL 39
                             t l+ S vh lL
  PHY93_02645|PHY93_02645  7 TELSHSMVHYLL 18
                             88999****998 PP

  == domain 2  score: 18.3 bits;  conditional E-value: 1.8e-06
                             BSS-BHHHHHHHHTS-HHHHHHHHHHHHHTTSEE. CS
                 HTH_IclR 16 pqeltlselArrtglpkStvhRlLqtLvelGyveq 50
                             ++  +++++A+ + l+k +v+ +L+ L + G+++ 
  PHY93_02645|PHY93_02645 27 RGFARVTDIAKDLELTKGSVSTMLNNLKKKGLIQE 61
                             44469***************************986 PP

  == domain 3  score: -2.3 bits;  conditional E-value: 5.2
                             HHHHHH CS
                 HTH_IclR 35 vhRlLq 40
                             vhR+L+
  PHY93_02645|PHY93_02645 78 VHRILS 83
                             9**997 PP

>> HTH_45  Winged helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.2   0.1   5.6e-07   0.00044      17      69 ..      27      81 ..      14      88 .. 0.82

  Alignments for each domain:
  == domain 1  score: 20.2 bits;  conditional E-value: 5.6e-07
                   HTH_45 17 egeakkTkimykanLsykllnkYLdmLvekglikk.skekY.vlTekGlellekl 69
                             +g a+ T i ++ +L+   ++ +L+ L +kgli++ ++ k+ vlTe G e ++++
  PHY93_02645|PHY93_02645 27 RGFARVTDIAKDLELTKGSVSTMLNNLKKKGLIQEeEECKFvVLTELGHEEVHRI 81
                             567899***************************55355565268****9977665 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.3   0.0   7.8e-07   0.00061      20      48 .]      32      60 ..      23      60 .. 0.88

  Alignments for each domain:
  == domain 1  score: 19.3 bits;  conditional E-value: 7.8e-07
                   HTH_24 20 qreLAerlglSpstvnrrlkrLeeeGlIk 48
                              +++A+ l l+++ v++ l++L+++GlI+
  PHY93_02645|PHY93_02645 32 VTDIAKDLELTKGSVSTMLNNLKKKGLIQ 60
                             689************************95 PP

>> HTH_Crp_2  Crp-like helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.0   0.0   1.3e-06     0.001      25      59 ..      33      69 ..      13      74 .. 0.78

  Alignments for each domain:
  == domain 1  score: 19.0 bits;  conditional E-value: 1.3e-06
                             HHHHHHTTSSHHHHHHHHHHHHHTTSEE.ET.EEEEE CS
                HTH_Crp_2 25 eelAsmlGltretvsrilseLkreglis.rg.rriri 59
                             +++A  l lt  +vs +l+ Lk++gli+  +  ++++
  PHY93_02645|PHY93_02645 33 TDIAKDLELTKGSVSTMLNNLKKKGLIQeEEeCKFVV 69
                             79**************************533223444 PP

>> Rrf2  Transcriptional regulator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.2   3.4e-06    0.0026       8      56 ..      11      60 ..       1      63 [. 0.79

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 3.4e-06
                             HHHHHHHHHHHH.SSTCC-B-HHHHHHHHTS-HHHHHHHHHHHHHTTSEE CS
                     Rrf2  8 eyalhallyLak.eeeeepvsseeiaerqnispsylekilakLrkaglvk 56
                             +  +h ll + k +e+++ +++++ia+  ++ +  ++ +l++L+k+gl++
  PHY93_02645|PHY93_02645 11 HSMVHYLLTIHKlKENRGFARVTDIAKDLELTKGSVSTMLNNLKKKGLIQ 60
                             4467888888662555556******************************8 PP

>> Penicillinase_R  Penicillinase repressor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   0.1   6.1e-06    0.0047      26      57 ..      34      65 ..      17      96 .. 0.82

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 6.1e-06
                             T--GGG---HHHHHHHHHHHHHTTS-EEEEET CS
          Penicillinase_R 26 eleeekelaysTVktllrrLvkKgllsrekeg 57
                              ++++ el++ +V t+l++L kKgl+++e+e 
  PHY93_02645|PHY93_02645 34 DIAKDLELTKGSVSTMLNNLKKKGLIQEEEEC 65
                             456667899******************99864 PP

>> FeoC  FeoC like transcriptional regulator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   1.1e-05    0.0085       2      49 ..      17      64 ..      16      69 .. 0.90
   2 ?   -2.1   0.0       5.5   4.3e+03      30      45 ..     128     143 ..     117     155 .. 0.64

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 1.1e-05
                     FeoC  2 LtelkeyleergrvslkeLsrhfkaspealeamLeqwvrkGrvekvaa 49
                             L+ + ++ e+rg + + ++++ ++ ++  +  mL+ + +kG ++++++
  PHY93_02645|PHY93_02645 17 LLTIHKLKENRGFARVTDIAKDLELTKGSVSTMLNNLKKKGLIQEEEE 64
                             56677777899*********************************9987 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 5.5
                     FeoC  30 aleamLeqwvrkGrve 45 
                              +l +  e + +kG++ 
  PHY93_02645|PHY93_02645 128 TLACTCEDLSKKGQLP 143
                              5555555566666665 PP

>> DUF4423  Domain of unknown function (DUF4423)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.1     6e-06    0.0047      22      78 ..      16      69 ..       6      84 .. 0.87

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 6e-06
                  DUF4423 22 yypvirellplkdfkadpeelakrlrpkisaeevekalefLlklgllkkdedgkyrq 78
                             y ++i++l + + f a +  +ak l   +++  v++ l+ L+k gl++++e+ k+++
  PHY93_02645|PHY93_02645 16 YLLTIHKLKENRGF-ARVTDIAKDLE--LTKGSVSTMLNNLKKKGLIQEEEECKFVV 69
                             67788888888999.***********..**********************9955554 PP

>> PRESAN  Plasmodium RESA N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.2      0.18   1.4e+02      73     124 ..       4      56 ..       1      85 [. 0.58
   2 !   12.6   0.0    0.0002      0.15      36      83 ..     120     168 ..     117     172 .. 0.91

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.18
                              HHHHHHHHHHHHHHHHHHHHHS-SEE.EHHHHHHHHHHHHHHHHHHHHHHHHH CS
                   PRESAN  73 eitkelkklekeynknfynllkkkkl.sidefkefinsyrklwkkllkklekk 124
                              +++ el+  + +y   +++l +++ +  + ++ + ++  + +  ++l++l+kk
  PHY93_02645|PHY93_02645   4 TMETELSHSMVHYLLTIHKLKENRGFaRVTDIAKDLELTKGSVSTMLNNLKKK 56 
                              45555555555555555555544444455555555555555555555554443 PP

  == domain 2  score: 12.6 bits;  conditional E-value: 0.0002
                              HHHHHHHHHHHHHHHHHHHHTT--HHHH.HHHHHHHHHHHHHHHHHHHH CS
                   PRESAN  36 kkyknmikkLsnyleelakkynipeeyk.kklwkeckneitkelkklek 83 
                              +k+ + +k L  ++e+l+kk ++p+ ++ k  +  c ++  +++  ++k
  PHY93_02645|PHY93_02645 120 EKFFSFMKTLACTCEDLSKKGQLPKSFQfKTALDLCSYSTSDDFIHHQK 168
                              79**************************8888*******9999998887 PP

>> HTH_41  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   8.5e-05     0.066       8      37 ..      31      60 ..      27      64 .. 0.93

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 8.5e-05
                   HTH_41  8 tIeelakeleLSvGlvQkALklLeddkais 37
                             +++++ak+leL  G v   L+ L++++ i+
  PHY93_02645|PHY93_02645 31 RVTDIAKDLELTKGSVSTMLNNLKKKGLIQ 60
                             89*************************998 PP

>> tRNA-synt_1d  tRNA synthetases class I (R)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   4.8e-05     0.037     155     218 ..      31      94 ..       2     134 .. 0.68

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 4.8e-05
                              T---EC--CCCCCCCHHHHHHHHHCTT-EEECTTCEEEEECCCTSSCCEECC-TTS-B-HHHHH CS
             tRNA-synt_1d 155 dvtlierGeslykeslneivkelkkkglvkesdGalvvfldefgkrlgvvvqksDGgylytttD 218
                               vt i +   l k s+  ++++lkkkgl++e++  + v l+e g++    +  s     y  +D
  PHY93_02645|PHY93_02645  31 RVTDIAKDLELTKGSVSTMLNNLKKKGLIQEEEECKFVVLTELGHEEVHRILSSRTLLYYFLRD 94 
                              35666667779999*****************************876444444444444455555 PP

>> Castor1_N  Cytosolic arginine sensor for mTORC1 subunit 1 N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.2   0.0     0.024        19       9      39 ..      43      73 ..      30      76 .. 0.79
   2 ?    5.4   0.1     0.021        16      24      39 ..     113     128 ..      91     131 .. 0.91

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.024
                Castor1_N  9 regiqlythgLikLafLsektrckFfsLTet 39
                             + +++ +   L k  +++e+  ckF  LTe 
  PHY93_02645|PHY93_02645 43 KGSVSTMLNNLKKKGLIQEEEECKFVVLTEL 73
                             56666667777777788999*********96 PP

  == domain 2  score: 5.4 bits;  conditional E-value: 0.021
                Castor1_N  24 fLsektrckFfsLTet 39 
                              ++s +t+ kFfs+ +t
  PHY93_02645|PHY93_02645 113 LMSPQTSEKFFSFMKT 128
                              56899********887 PP

>> LexA_DNA_bind  LexA DNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00025       0.2      20      58 ..      25      61 ..       7      65 .. 0.82
   2 ?   -3.2   0.0       9.5   7.4e+03      50      56 ..     136     142 ..     132     156 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00025
                             HHHSS---HHHHHHHHTS-.HHHHHHHHHHHHHTTSEE- CS
            LexA_DNA_bind 20 eetgypPsireiaralglkSpsaveehLkaLerKGyier 58
                             e++g++  + +ia+ l l+   +v   L+ L++KG+i+ 
  PHY93_02645|PHY93_02645 25 ENRGFA-RVTDIAKDLELT-KGSVSTMLNNLKKKGLIQE 61
                             556665.5789********.999**************86 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 9.5
                              HHHTTSE CS
            LexA_DNA_bind  50 LerKGyi 56 
                              L++KG +
  PHY93_02645|PHY93_02645 136 LSKKGQL 142
                              7777754 PP

>> HTH_34  Winged helix DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.1   0.00042      0.33      15      57 ..      30      66 ..      16      84 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00042
                   HTH_34 15 adfvelkealeatdgnLsvhlkkLekagYievdkefkgkkprt 57
                             a  +++ + le+t+g  s+ l+ L+k+g i+ +       ++ 
  PHY93_02645|PHY93_02645 30 ARVTDIAKDLELTKGSVSTMLNNLKKKGLIQEEE------ECK 66
                             6778999*********************997543......344 PP

>> PadR  Transcriptional regulator PadR-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00025      0.19      27      73 ..      39      78 ..      17      80 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00025
                             CCTTHHHHHHHHHHHHHTTSEEEEEE-STSSS-EEEEEESHCCCHHH CS
                     PadR 27 lelseGslYpaLkrLekeglveseweesgegpprkyYrlTdaGrrel 73
                             lel +Gs+ ++L+ L+k+gl+++e+e        k+  lT+ G++e+
  PHY93_02645|PHY93_02645 39 LELTKGSVSTMLNNLKKKGLIQEEEEC-------KFVVLTELGHEEV 78
                             6889******************99775.......6667777777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (174 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       611  (0.0340789); expected 358.6 (0.02)
Passed bias filter:                      465  (0.0259356); expected 358.6 (0.02)
Passed Vit filter:                        73  (0.00407162); expected 17.9 (0.001)
Passed Fwd filter:                        23  (0.00128284); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              23  [number of targets reported over threshold]
# CPU time: 0.53u 0.22s 00:00:00.75 Elapsed: 00:00:00.43
# Mc/sec: 1208.36
//
Query:       PHY93_02650|PHY93_02650  [L=572]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
        2.9    7.8   8.9       0.14   12.0   2.8    1.8  2  Gal_mutarotas_3  Galactose mutarotase-like fold domain
        5.4    7.1   6.6        1.2    9.2   1.7    2.3  2  DUF3316          Protein of unknown function (DUF3316)


Domain annotation for each model (and alignments):
>> Gal_mutarotas_3  Galactose mutarotase-like fold domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.4      0.31   2.8e+03     129     174 ..      32      77 ..      18     109 .. 0.55
   2 ?   12.0   2.8   1.6e-05      0.14     109     206 ..     141     240 ..     106     255 .. 0.75

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.31
          Gal_mutarotas_3 129 stnttksgDtevdvtkslddaakgymyafvsndelaagiwsNseed 174
                              ++    +g   +++ +  ++ ++ +++ ++sn+  + +  s s  +
  PHY93_02650|PHY93_02650  32 NQTLLDNGAAAQKLLEASSANKAPTTIKILSNKGSSSTTSSTSNLT 77 
                              4444444444455555555555567777777777666655544432 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 1.6e-05
          Gal_mutarotas_3 109 hsLvSVsssqegaelagarmstnttksgDtevdvtkslddaakgymyafvsndelaagiwsNseedkea..gksdneritatketa 192
                               s++++s   ++a+  +  ++t+t++ +Dte+++++s d+ ++ + y  +++++++a  + N+++  ++  ++s++e + + ++++
  PHY93_02650|PHY93_02650 141 DSILTLSRPSAKATE-TKATDTKTAEAKDTETKTDNSKDKPTDYCKYIPAATEAISAFAQKNTVAGLNNggETSQKEVLLKAAKSH 225
                              556666666666654.44567899999********99999999999*******************987742233355555555555 PP

          Gal_mutarotas_3 193 dg.ektvglssgkWt 206
                              dg ++++ ++   W+
  PHY93_02650|PHY93_02650 226 DGrAEQAQIQAVGWY 240
                              655888999999997 PP

>> DUF3316  Protein of unknown function (DUF3316)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   1.7   0.00013       1.2       3      81 ..       3      77 ..       1      95 [. 0.80
   2 ?   -0.9   0.2      0.17   1.5e+03      15      47 ..     150     172 ..     126     237 .. 0.66

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.00013
                  DUF3316  3 illlllllllstsafAqiesktdsdsleaeryitrataygaGltnlldtylspseylgpelrilse.tmrstkledgrvs 81
                              l+l+++l++  + fA      d+++ ++++++ ++t+++ G +  + +++s+ ++  ++++ils+  + st  + ++++
  PHY93_02650|PHY93_02650  3 YLILFTMLFTHFTGFAA-----DATNATSSETALNQTLLDNGAAAQKLLEASSANKAPTTIKILSNkGSSSTTSSTSNLT 77
                             45555666666666666.....89999999999********************************976666666655555 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.17
                  DUF3316  15 safAqiesktdsdsleaeryitrataygaGltn 47 
                              sa+A  +++td+++ ea+ + t          +
  PHY93_02650|PHY93_02650 150 SAKATETKATDTKTAEAKDTET----------K 172
                              3333333334444444443333..........3 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (572 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       922  (0.0514251); expected 358.6 (0.02)
Passed bias filter:                      349  (0.0194657); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.67u 0.29s 00:00:00.96 Elapsed: 00:00:00.47
# Mc/sec: 3622.22
//
Query:       PHY93_02655|PHY93_02655  [L=240]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.7e-24   84.6   0.0    9.1e-24   84.2   0.0    1.1  1  Glycos_transf_2  Glycosyl transferase family 2
    0.00011   21.8   0.0    0.00014   21.4   0.0    1.1  1  Glyco_tranf_2_2  Glycosyltransferase like family 2
     0.0023   17.8   0.0     0.0023   17.8   0.0    1.2  1  Glyco_tranf_2_3  Glycosyltransferase like family 2


Domain annotation for each model (and alignments):
>> Glycos_transf_2  Glycosyl transferase family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   84.2   0.0   1.5e-27   9.1e-24       2     166 ..      10     171 ..       9     174 .. 0.94

  Alignments for each domain:
  == domain 1  score: 84.2 bits;  conditional E-value: 1.5e-27
                              EEEEESS-TTTHHHHHHHHHHHGGCCEEEEEEEEES-SSCHHHHHGGGCHC-TTEEEEEESSS-HHHHHHHHHHHH--SS...EEE CS
          Glycos_transf_2   2 vviptyNeektlletlesllaqdpypdfeiivvDDgStDetveileelakedprvrvirreenvGkagalnaglraatgd...yil 84 
                              ++iptyNe ++++++++ l     yp + ++++ DgS+D+t++++++l++e++++ +i r+ + G+++a+ +g+++a  +   yi+
  PHY93_02655|PHY93_02655  10 IIIPTYNEIDNIENMIRTLFGL--YPTISLLIIEDGSPDGTANVVKSLMSEFKNLSIIERKGKLGLGTAYITGFKWALQKnyqYIF 93 
                              8********************9..************************************************************** PP

                              EEESSEEE-TTHHHHHHHHHHH.TTCEEEEEEEEEECCCCCCCHC-SSEEEECCHCCCCHCCCCCCSTTCSTCCCEEEEHHH CS
          Glycos_transf_2  85 flDaDdepdpdwleklvealekdgadvvlgqrprifgetdeiernkrvgenerlyfkerkrslkgnlsfeigsaallrreal 166
                               +D D  +dp+ + +l++ +++++   v+g+r+  +    +++ ++     + +    +++ +++ +++ +g++  ++r+al
  PHY93_02655|PHY93_02655  94 EMDCDFSHDPKQVVDLLAQAKDNDL--VIGSRYIGGIRIINWPIQRL--LLSYGASLYTRFITGIPVFDTTGGFKCFKRSAL 171
                              **********************555..******98888777777776..689999999999999999999999999999998 PP

>> Glyco_tranf_2_2  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.4   0.0   2.4e-08   0.00014       2      98 ..      10     103 ..       9     120 .. 0.82

  Alignments for each domain:
  == domain 1  score: 21.4 bits;  conditional E-value: 2.4e-08
          Glyco_tranf_2_2   2 vviplraseerhyieervlqkakyydeeielivvddgSsekfleevssiidlnllvylkdeddkayslaaarNrGaska.esdlvl 86 
                              ++ip +++ ++  ie+ ++       + i l++++dgS++ ++++v+s++   ++ ++ +  +   +l+ a   G++ a + ++ +
  PHY93_02655|PHY93_02655  10 IIIPTYNEIDN--IENMIRTLFGL-YPTISLLIIEDGSPDGTANVVKSLMSEFKNLSIIER-KGKLGLGTAYITGFKWAlQKNYQY 91 
                              69999999999..99999876655.49***********************99888886666.44899**********994467777 PP

          Glyco_tranf_2_2  87 FlDaDcfissDk 98 
                                + Dc +s D 
  PHY93_02655|PHY93_02655  92 IFEMDCDFSHDP 103
                              788898888885 PP

>> Glyco_tranf_2_3  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.0   3.9e-07    0.0023       5     102 ..       9     103 ..       4     181 .. 0.80

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 3.9e-07
          Glyco_tranf_2_3   5 avlVptfneedvlgevlesllaqeyprvevvvvvdesdaetlevaeelaaalpdvrvrvvvnarnlgstgksralnealr.avk.. 87 
                              ++++pt+ne d ++++++ l    yp++ + ++ d+s ++t++v++ l  ++++  ++++ ++ +lg     +a+  +++ a +  
  PHY93_02655|PHY93_02655   9 LIIIPTYNEIDNIENMIRTLFGL-YPTISLLIIEDGSPDGTANVVKSLMSEFKN--LSIIERKGKLGL---GTAYITGFKwALQkn 88 
                              79*******************86.****************************88..699977665654...334455555222233 PP

          Glyco_tranf_2_3  88 sdlvllvDdDtvveP 102
                              ++++  +D D   +P
  PHY93_02655|PHY93_02655  89 YQYIFEMDCDFSHDP 103
                              556666666555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (240 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       404  (0.0225333); expected 358.6 (0.02)
Passed bias filter:                      379  (0.0211389); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.44
# Mc/sec: 1638.85
//
Query:       PHY93_02660|PHY93_02660  [L=221]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (221 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       655  (0.036533); expected 358.6 (0.02)
Passed bias filter:                      245  (0.013665); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.55u 0.22s 00:00:00.77 Elapsed: 00:00:00.44
# Mc/sec: 1523.34
//
Query:       PHY93_02665|PHY93_02665  [L=144]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.8e-49  167.3   0.0      2e-49  167.1   0.0    1.0  1  LacAB_rpiB  Ribose/Galactose Isomerase


Domain annotation for each model (and alignments):
>> LacAB_rpiB  Ribose/Galactose Isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  167.1   0.0   1.1e-53     2e-49       1     138 [.       3     138 ..       3     139 .. 0.97

  Alignments for each domain:
  == domain 1  score: 167.1 bits;  conditional E-value: 1.1e-53
                              EEEEE-GCGHHHHHHHHHHHHHTTTEEEEECESSSS---HHHHHHHHHHHHHTTSSSEEEEEESSSHHHHHHHHTSTT--EEE-SS CS
               LacAB_rpiB   1 iaigsDhagfelkekikeyLkekghevidvgteseesvdYpdfakkvaeavasgeadlgiliCgtGiGmsiaaNkvkgiraalchd 86 
                              i+igsDha+fe+ke + e+L +k++ev+dvgt+s e++dYpd+a ++ + v ++    gil+Cg+GiG+si+aN++kgiraalc +
  PHY93_02665|PHY93_02665   3 IVIGSDHAAFEMKEFVREFLLSKNIEVVDVGTTSLERCDYPDYASALVKVVLNQ-KYSGILLCGSGIGVSIVANRYKGIRAALCRS 87 
                              89******************7779**********88*************99986.688**************************** PP

                              HHHHHHHHHTT--SEEEEETTTS-HHHHHHHHHHHHHS---.HTHHHHHHHH CS
               LacAB_rpiB  87 eesAklarehnnanvlalGarvigeelakeivkaFletefeeggrharrvdk 138
                              +++A++ar+hn+anvl+lGar+ +ee+ k+i++ ++++ fe ggrh  r++k
  PHY93_02665|PHY93_02665  88 PYDAEMARKHNDANVLCLGARTNSEEEIKAIIDSWFASLFE-GGRHGDRLNK 138
                              ****************************************7.*******997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (144 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       394  (0.0219756); expected 358.6 (0.02)
Passed bias filter:                      379  (0.0211389); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.25s 00:00:00.75 Elapsed: 00:00:00.45
# Mc/sec: 962.86
//
Query:       PHY93_02670|PHY93_02670  [L=431]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
   1.2e-139  464.6   0.0    6.3e-74  248.8   0.2    2.0  2  AdoHcyase      S-adenosyl-L-homocysteine hydrolase
    1.6e-77  259.2   5.3    2.8e-77  258.3   5.3    1.4  1  AdoHcyase_NAD  S-adenosyl-L-homocysteine hydrolase, NAD bindi
    2.3e-06   27.1   0.1    4.6e-06   26.1   0.1    1.4  1  2-Hacid_dh_C   D-isomer specific 2-hydroxyacid dehydrogenase,
    0.00091   18.8   0.4     0.0017   17.9   0.4    1.5  1  IlvN           Acetohydroxy acid isomeroreductase, NADPH-bind
  ------ inclusion threshold ------
      0.017   15.4   0.1      0.036   14.3   0.1    1.5  1  TrkA_N         TrkA-N domain


Domain annotation for each model (and alignments):
>> AdoHcyase  S-adenosyl-L-homocysteine hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  248.8   0.2   1.8e-77   6.3e-74       1     138 [.       5     141 ..       5     143 .. 0.98
   2 !  215.2   0.0   3.1e-67   1.1e-63     171     298 ..     141     431 .]     140     431 .] 1.00

  Alignments for each domain:
  == domain 1  score: 248.8 bits;  conditional E-value: 1.8e-77
                              --B-S-GGGHHHHHHHHHHHHCC-HHHHHHHHHCTTT-TTTT-EEEEES--SHHHHHHHHHHHHTT-EEEEE-SSTTT--HHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                AdoHcyase   1 dykvkdislaefGrkeielaekempglmalreeyaeekplkgariaGslhmtiqtavLietLvalGaevrWasCnifstqdeaaaa 86 
                              dykvkd+slae+Grkei++ae empglm+lr+e++++kplkgariaG+lhmtiqtavLietL++lGaevrW+sCnifstqd+aaaa
  PHY93_02670|PHY93_02670   5 DYKVKDMSLAEWGRKEIQIAEVEMPGLMSLRAEFGKSKPLKGARIAGCLHMTIQTAVLIETLIELGAEVRWSSCNIFSTQDQAAAA 90 
                              8************************************************************************************* PP

                              HCCTTEEEE--TT--HHHHHHHHHHCHS-SSTS-S-SEEEESSSHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                AdoHcyase  87 iaeagvpvfawkgetleeywwcieqalkwaedekepnlilDdGGDltllvhk 138
                              +a+ag+pvfawkg++++e+ wcieq+lkwa d++  n+ilDdGGDlt +vh+
  PHY93_02670|PHY93_02670  91 MAAAGIPVFAWKGMNEKEFDWCIEQTLKWA-DGSPLNMILDDGGDLTVMVHS 141
                              ***************************996.7779***************97 PP

  == domain 2  score: 215.2 bits;  conditional E-value: 3.1e-67
                              THHCCCHCC--EEEE-SHHHHHHHHHHHHTT---SEEEESTTSHHHCTTH.................................... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.................................... RF
                AdoHcyase 171 kkytellkkikGvseetttGvhrLyelakkgkLlvpainvndsvtkskfD.................................... 220
                              +k++ellk ikG+seetttGvhrLye++kkg+L+vpain+ndsvtkskfD                                    
  PHY93_02670|PHY93_02670 141 SKFPELLKGIKGLSEETTTGVHRLYEMVKKGELKVPAININDSVTKSKFDnlygcreslvdsvkratdvmvagkvcvvagygdvgk 226
                              5899********************************************************************************** PP

                              ...................................................................................... CS
                              ...................................................................................... RF
                AdoHcyase 221 ...................................................................................... 220
                                                                                                                    
  PHY93_02670|PHY93_02670 227 gcagsfkglggrviiteidpvcalqaamegfqvmnmddaakigdifttatgcvdvitgkhlemmkdgaivanighfdleievsyln 312
                              ************************************************************************************** PP

                              .........................................S-HHHHHHHHHHHHHHHHHHHHTTSSS-SSEEE--CHHHHHHHHH CS
                              .........................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                AdoHcyase 221 .........................................hpsfvmsasftnqvlaqielfkkekkyekkvyvlpkklDekvarl 265
                                                                       hpsfvms+sftnqv+aq+el+ ++++y+++vyvlpk+lDekvarl
  PHY93_02670|PHY93_02670 313 sksdikkvnikpqvdqyvftngkkiillaegrlvnlgcgtgHPSFVMSNSFTNQVMAQMELWANHANYKNEVYVLPKHLDEKVARL 398
                              ************************************************************************************** PP

                              CCCCCT-------HHHHHCCTSXTTSXXSXTTX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                AdoHcyase 266 hleklgaklteltkeqaeyigveveGPfkpdhY 298
                              hlek+g+kl++l+++qaey+g++veGP+kpdhY
  PHY93_02670|PHY93_02670 399 HLEKIGVKLDKLSNKQAEYLGIKVEGPYKPDHY 431
                              ********************************9 PP

>> AdoHcyase_NAD  S-adenosyl-L-homocysteine hydrolase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  258.3   5.3   7.9e-81   2.8e-77       1     162 []     191     353 ..     191     353 .. 0.99

  Alignments for each domain:
  == domain 1  score: 258.3 bits;  conditional E-value: 7.9e-81
                              HHHHHCCCCCHHHHHHH-S--TTSEEEEE--SHHHHHHHHHHHHCT-EEEEE-S-HHHHHHHHCTT-EE--HHHCTTT-SEEEE-S CS
            AdoHcyase_NAD   1 nlygcreslvdgikratdvllaGkvavvaGyGdvGkGcaaslkglGarvivtevdPicalqaameGfevvtleevvkkadivvttt 86 
                              nlygcreslvd++kratdv++aGkv+vvaGyGdvGkGca s+kglG rvi+te+dP+calqaameGf+v+++++++k +di+ t+t
  PHY93_02670|PHY93_02670 191 NLYGCRESLVDSVKRATDVMVAGKVCVVAGYGDVGKGCAGSFKGLGGRVIITEIDPVCALQAAMEGFQVMNMDDAAKIGDIFTTAT 276
                              89************************************************************************************ PP

                              SSSSSB-HHHHCCS-TTEEEEE-SSTTTTBTHHHHHTT.T-EEEEEETTEEEEE-TTS-EEEEEGGGSBCHHHTS-- CS
            AdoHcyase_NAD  87 GnkdiitlehlkkmkddaivcniGhfdseidvaalean.alkkeevkpqvdrvtlkdgkkiillaeGrllnlgcatg 162
                              G+ d+it +hl+ mkd aiv+niGhfd ei+v+ l+++ ++kk+++kpqvd++++++gkkiillaeGrl+nlgc tg
  PHY93_02670|PHY93_02670 277 GCVDVITGKHLEMMKDGAIVANIGHFDLEIEVSYLNSKsDIKKVNIKPQVDQYVFTNGKKIILLAEGRLVNLGCGTG 353
                              ***********************************99879**********************************996 PP

>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.1   0.1   1.3e-09   4.6e-06      32     127 ..     209     300 ..     187     305 .. 0.91

  Alignments for each domain:
  == domain 1  score: 26.1 bits;  conditional E-value: 1.3e-09
                              S-GTTSEEEEES-SHHHHHHHHHHHHTT-EEEEESSSHHHHHCHHHHTCEECSHHHHHHH-SEEEE-S--STTTTTSBSHHHHHCS CS
             2-Hacid_dh_C  32 kelsgktvGiiGlGrIGqavakrlkafgmkviaydrskkkeeeeeelgvelvsleellaesDivslhlpltpetrhlinaeelakm 117
                                ++gk   + G+G++G+  a  +k++g +vi+++  +    +++ +g+++++++++ +  Di + ++       ++i+ ++l++m
  PHY93_02670|PHY93_02670 209 VMVAGKVCVVAGYGDVGKGCAGSFKGLGGRVIITEIDPVCALQAAMEGFQVMNMDDAAKIGDIFTTATG----CVDVITGKHLEMM 290
                              568999*******************************998889999******************99887....5679********* PP

                              TTTEEEEESS CS
             2-Hacid_dh_C 118 kkgailiNta 127
                              k+gai+ N++
  PHY93_02670|PHY93_02670 291 KDGAIVANIG 300
                              ********98 PP

>> IlvN  Acetohydroxy acid isomeroreductase, NADPH-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.4   4.8e-07    0.0017       3      91 ..     212     296 ..     210     330 .. 0.73

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 4.8e-07
                              HTS-EEEES-SHHHHHHHHHHHHTT--EEEEE-TT-HHHHHHHHTT-EEEEHHHHHHT-SEEEE-S-HHHHHHHHHHHTGGG--TT CS
                     IlvN   3 kgkkiaviGyGsqGhaqalnlrdsgldvvvglregsksvkkAkeegfevltvaeavkkadvvmiliPDelqkevyeeeiepnlkeg 88 
                               gk  +v GyG  G+  a  ++  g  v+++  +    + +A  egf+v+++++a+k  d+ ++ +      +v++ +  + +k+g
  PHY93_02670|PHY93_02670 212 AGKVCVVAGYGDVGKGCAGSFKGLGGRVIITEIDPV-CALQAAMEGFQVMNMDDAAKIGDIFTTAT---GCVDVITGKHLEMMKDG 293
                              67888999**********************988877.77788899***************977654...23344444445556666 PP

                              -EE CS
                     IlvN  89 kal 91 
                              +++
  PHY93_02670|PHY93_02670 294 AIV 296
                              655 PP

>> TrkA_N  TrkA-N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.1   9.9e-06     0.036       2      48 ..     217     263 ..     216     268 .. 0.92

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 9.9e-06
                              EEES-SHHHHHHHHHHHH.TTEEEEEEESSHHHHHHHHHTTSEEEES- CS
                   TrkA_N   2 iiiGlGrvGrslaeeLse.ggkdvvvidkdeerveelreeglevvvgd 48 
                              +++G+G+vG+  a  ++  gg +v++ + d+  + +++ eg++v++ d
  PHY93_02670|PHY93_02670 217 VVAGYGDVGKGCAGSFKGlGG-RVIITEIDPVCALQAAMEGFQVMNMD 263
                              89****************999.5********************99866 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (431 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       450  (0.025099); expected 358.6 (0.02)
Passed bias filter:                      389  (0.0216967); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.61u 0.26s 00:00:00.87 Elapsed: 00:00:00.44
# Mc/sec: 2939.76
//
Query:       PHY93_02675|PHY93_02675  [L=313]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.3e-22   80.1   0.0    2.9e-22   79.8   0.0    1.1  1  APH       Phosphotransferase enzyme family
  ------ inclusion threshold ------
       0.13   11.6   2.3        5.7    6.2   0.0    2.4  3  Kdo       Lipopolysaccharide kinase (Kdo/WaaP) family


Domain annotation for each model (and alignments):
>> APH  Phosphotransferase enzyme family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.8   0.0   3.2e-26   2.9e-22       2     240 .]      27     257 ..      26     257 .. 0.84

  Alignments for each domain:
  == domain 1  score: 79.8 bits;  conditional E-value: 3.2e-26
                              EEEE--.SSCEEEEEEETT--EEEEEE-TTS-HHHHHHHHHHHHHHHHTT-.B--B-CTTBS-EEETTE...EEEEEE----EE-S CS
                      APH   2 vrelsggasnrtylvttpagryvlrrnpparaaeeirrevallrlLakagv.pvPevlagdtddeeigl...lfalieyvpgrsll 83 
                               ++ls g sn +y+v  ++ +++l++++++ ++ ++++e+a+l +L+++   +  +++a+  ++ ++ +     +++++v+g ++ 
  PHY93_02675|PHY93_02675  27 MTPLSLGISNSNYRVDLAGESVLLKISNDK-NQLQLAEEQAILLYLNQRAYpYSLKPFALISGELVYNYepyFGVVYPFVDGIPPG 111
                              589***************9***********.****************9977878888875444444444655999*********** PP

                              SHHHHHHHHHHHHHHHHHHCCHHCH.-STTTB-SHHCHTCCHHHHHHCHHHCCCGCCTCC.HHHHHHHHHHHHHHHH--SSS-EEE CS
                      APH  84 rklsaaqlpellealgeflaalhqvdpaalpladflaqdlellrqlesatarllaselld.lleeleeqvlaalaallpgelptvl 168
                              +      ++  + ++g++la lh++++++ +l + +++  ++     +  + +  + +++  +e++   + ++l++ l +++++++
  PHY93_02675|PHY93_02675 112 P------SDYTCKEVGAALATLHSIAHDHTKLNHLRPH-ENVGFGAYEILKYSETLSCPKdYREAFQYFFPDQLKDFLETPFEKGI 190
                              *......9******************999999998865.44444444444456666666645667777677777777777****** PP

                              E-SS-SGGGEEEC..TTEEEEE---TT-EEEECCHHHHCCHHHCSCHCCCHCHHHHHHHHCS-HHHHCCCGH CS
                      APH 169 lHgDlhpgNllvdpddgrvtGviDfedaglgpplyDlavllrswtseldpeflaallrayeqeaglarlael 240
                              +HgDl  +N l++  ++++++v+Dfe ag g +l Dl++ + s t  +  ++   l+  y+   g++++++l
  PHY93_02675|PHY93_02675 191 IHGDLYYDNTLFN--NNHLSAVLDFEQAGRGEYLLDLGISI-SGTCLEKGRVISPLVNSYL--EGYEAIRPL 257
                              *************..**************************.7666888889999999999..999999876 PP

>> Kdo  Lipopolysaccharide kinase (Kdo/WaaP) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.1    0.0018        16     123     145 ..     116     138 ..     112     141 .. 0.91
   2 ?    6.2   0.0   0.00064       5.7     137     170 ..     188     217 ..     186     220 .. 0.89
   3 ?   -4.1   0.1      0.94   8.4e+03     175     188 ..     281     294 ..     279     299 .. 0.75

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.0018
                      Kdo 123 llkavgrliaklhragvnHadly 145
                              + k+vg++ a lh++  +H+ l+
  PHY93_02675|PHY93_02675 116 TCKEVGAALATLHSIAHDHTKLN 138
                              5789****************998 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.00064
                      Kdo 137 agvnHadlyaknillqqeeeeeaeiwliDldkar 170
                               g+ H+dly  n l+++++      +++D+++a 
  PHY93_02675|PHY93_02675 188 KGIIHGDLYYDNTLFNNNH----LSAVLDFEQAG 217
                              5899************998....88999**9885 PP

  == domain 3  score: -4.1 bits;  conditional E-value: 0.94
                      Kdo 175 adrwrekdLarLkr 188
                               +r +e+dL++L  
  PHY93_02675|PHY93_02675 281 IKRFKERDLNPLME 294
                              57889999998865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (313 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       359  (0.0200234); expected 358.6 (0.02)
Passed bias filter:                      333  (0.0185733); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.25s 00:00:00.79 Elapsed: 00:00:00.45
# Mc/sec: 2083.21
//
Query:       PHY93_02680|PHY93_02680  [L=454]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.8e-39  134.1   0.0    1.3e-38  132.7   0.0    1.7  2  UPF0020          Putative RNA methylase family UPF0020
    6.3e-10   39.3   2.2    1.1e-09   38.5   2.2    1.4  1  THUMP            THUMP domain
  ------ inclusion threshold ------
      0.058   12.9   0.0       0.12   11.9   0.0    1.5  1  MTS              Methyltransferase small domain
       0.14   12.5   0.0       0.37   11.1   0.0    1.7  2  OKR_DC_1_C       Orn/Lys/Arg decarboxylase, C-terminal domain
       0.14   12.9   0.0       0.47   11.2   0.0    1.9  2  Methyltransf_25  Methyltransferase domain


Domain annotation for each model (and alignments):
>> UPF0020  Putative RNA methylase family UPF0020
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0      0.68   2.4e+03     150     183 ..     104     135 ..      93     142 .. 0.84
   2 !  132.7   0.0   3.7e-42   1.3e-38       1     195 [.     223     450 ..     223     452 .. 0.90

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.68
                              HHHHHH-TT..-EEEEEESSHHHHHCC---ESEE CS
                  UPF0020 150 relkrvlrgggrlvlltsenkalekaleeralrk 183
                              r ++rv+++    v+ ++++k++ ++++e+ + k
  PHY93_02680|PHY93_02680 104 RVASRVFKE--IQVYTIASEKDIYTMAKEKWWDK 135
                              678899999..99999999999999999987765 PP

  == domain 2  score: 132.7 bits;  conditional E-value: 3.7e-42
                              -SSS-SS---SS-HHHHHHHHHHTT--TT.S-EEETT-TTSHHHHHHHHHHTT--TTTT----SS..................... CS
                  UPF0020   1 RgyRefngpapLketLAaalvrlagwkpg.epllDPmCGsGtilIEaallganiapgllrefvle..................... 64 
                              RgyRe   +apL+e+LAaa+++ ++ +p  + + D mCGsGt+lIEa l+ a++ap  l+ + +                      
  PHY93_02680|PHY93_02680 223 RGYREESLKAPLRENLAAAIIMTTDFDPAvDLFTDTMCGSGTLLIEAILIRAKVAPTYLKIRQYIekkvpvfdflkhpwfivdrks 308
                              9**************************9746789**********************99988877789******************* PP

                              ...........HHHHHHHHHH.........HH--EEEEES-HHHHHHHHHHHHHTT-G.GGEEEEE--GGG--STTS---EEEE-- CS
                  UPF0020  65 ...........lkaeaeeear.........aelklygsDldrrvvqgareNaekagvg.dliefsqadaakLrlkegevdvivtnp 129
                                                  +         ++ +++g+D+ +r+++++r  + +a ++ +++++++ da+k++ +++  +++++np
  PHY93_02680|PHY93_02680 309 vrlfedkaqaiY--------NhslgalnelQTRQFFGFDITERALETTRAHLYNAHIDpQIVTLNKRDATKITPMDEPPGIVICNP 386
                              *99775544432........23345553355566***********************7367899*********88889******** PP

                              --------HHHHHHHHHHHHHHHHHH-TT..-EEEEEESSHHHHHCC---ESEEEEEEETTEEEEE CS
                  UPF0020 130 PYGerlgskkalekLYseflrelkrvlrgggrlvlltsenkalekaleeralrkvkeknvklglll 195
                              PYGer+g++++l++LY+  ++ lk++++g    ++++++n  l k ++  ++++++ +n+ l+++l
  PHY93_02680|PHY93_02680 387 PYGERMGEEEELKNLYRDYGENLKQNFKG--FRAYVFTSNPLLRKSISLGTSKRYTFYNGSLECRL 450
                              *****************************..********************************987 PP

>> THUMP  THUMP domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.5   2.2   3.2e-13   1.1e-09      20     135 ..      76     200 ..      62     202 .. 0.90

  Alignments for each domain:
  == domain 1  score: 38.5 bits;  conditional E-value: 3.2e-13
                              ETTEEEEECTEEEEEETHHHHHHHHHTSTTECEEEEE.EEEEESSHHHHHHHHHHHHHHHHHHCT-EEEEEEEESSSTS......S CS
                    THUMP  20 gkgrivvelkgekpeedeellkealekargiqrvipv.cevceadledileaakeivkkkfeeeketFaVrvkrrgkhf......e 98 
                              g  ri ve +g+ ++++ e++ + l  +r+++rv+ +    + a+ +di+  ake  ++k+++  +tF++ + + +++        
  PHY93_02680|PHY93_02680  76 GITRIEVEKGGVAFKCETEEALDVLLNSRVASRVFKEiQVYTIASEKDIYTMAKEKWWDKIFDVHQTFKINTLFDRETKenfnnsI 161
                              44678889999999999********************8778889******************************999999999998 PP

                              SHHHHHHHHHHHHHHCCTT..-EE-SSS-SEEEEEEEET CS
                    THUMP  99 ftsreinrevGkaivektg..lkVdlenPdivvrveiik 135
                              + s+ +++++++ ++ek+g  ++Vd  +Pdi++++ + +
  PHY93_02680|PHY93_02680 162 IFSQLLKDAIADNFREKFGerPSVDTGRPDITFLLRVER 200
                              89999****************************998875 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   3.4e-05      0.12      55     115 ..     332     396 ..     323     414 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 3.4e-05
                              C.EEEEEESBHHHHHHHHHHHHHTTGC...EEEEE-STTTTST.TS-EEEEEE---STTTCHCHH CS
                      MTS  55 eaevtlvdvdarAlesakenleankle...vevvasdvleeve.ekkfdlivsNPPfhagkatel 115
                              + +   +d+  rAle +++ l + +++   v++ ++d+++ ++ ++   ++++NPP+ +   +e+
  PHY93_02680|PHY93_02680 332 TRQFFGFDITERALETTRAHLYNAHIDpqiVTLNKRDATKITPmDEPPGIVICNPPYGERMGEEE 396
                              5556678********************6666666677766555578888*******988776443 PP

>> OKR_DC_1_C  Orn/Lys/Arg decarboxylase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0       3.2   1.1e+04     103     121 ..     277     295 ..     272     296 .. 0.81
   2 ?   11.1   0.0    0.0001      0.37      73     122 ..     366     418 ..     314     421 .. 0.71

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 3.2
                              HHHHHHHHHHHCCCSTTS- CS
               OKR_DC_1_C 103 ildYlkaleefdnkfPGFe 121
                              +  Ylk+ + +++k+P F+
  PHY93_02680|PHY93_02680 277 APTYLKIRQYIEKKVPVFD 295
                              5579999999999999885 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 0.0001
                              TSBBSS-BEE..CTT-S-SB-T..TEE--CCCHHHHHHHHHHHHHCCCSTTS-- CS
               OKR_DC_1_C  73 griaaelvlp..yPpGipllvp..GErlgeeskaildYlkaleefdnkfPGFet 122
                               r a + ++p   PpGi+++ p  GEr+gee++    Y    e+ +++f GF  
  PHY93_02680|PHY93_02680 366 KRDA-TKITPmdEPPGIVICNPpyGERMGEEEELKNLYRDYGENLKQNFKGFRA 418
                              4433.33333126********999****************************86 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0       2.2   7.9e+03       3      14 ..     257     268 ..     256     273 .. 0.83
   2 ?   11.2   0.0   0.00013      0.47      17      71 ..     328     385 ..     321     412 .. 0.78

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 2.2
                              EET-TTSHHHHH CS
          Methyltransf_25   3 dlGcGtGrltla 14 
                              d  cG+G+l+++
  PHY93_02680|PHY93_02680 257 DTMCGSGTLLIE 268
                              678****99876 PP

  == domain 2  score: 11.2 bits;  conditional E-value: 0.00013
                              CTSTSSEEEEEESSHHHHHHHHHHHHHTTT...TEEEEESBCCGBSSSTTTEEEEEEE CS
          Methyltransf_25  17 krlgkakvtgvDiseemleaareraeeegl...nvefvqgdaedlpfedgsfDlvvss 71 
                              ++l+  ++ g+Di+e++le++r+++ ++++    v++ + da+++   d+   +v+++
  PHY93_02680|PHY93_02680 328 NELQTRQFFGFDITERALETTRAHLYNAHIdpqIVTLNKRDATKITPMDEPPGIVICN 385
                              3445789******************88777777888899999*999999999999995 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (454 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       494  (0.0275531); expected 358.6 (0.02)
Passed bias filter:                      392  (0.021864); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.61u 0.29s 00:00:00.89 Elapsed: 00:00:00.46
# Mc/sec: 2939.77
//
Query:       PHY93_02685|PHY93_02685  [L=474]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (474 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       563  (0.0314016); expected 358.6 (0.02)
Passed bias filter:                      360  (0.0200792); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.60u 0.28s 00:00:00.88 Elapsed: 00:00:00.47
# Mc/sec: 3039.84
//
Query:       PHY93_05980|PHY93_05980  [L=369]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.3e-15   57.4   0.0    4.9e-15   56.3   0.0    1.6  1  Radical_SAM  Radical SAM superfamily
     0.0026   17.8   0.1      0.012   15.6   0.1    2.2  1  HemN_C       HemN C-terminal domain


Domain annotation for each model (and alignments):
>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.3   0.0   5.5e-19   4.9e-15       2     153 ..      13     177 ..      12     190 .. 0.83

  Alignments for each domain:
  == domain 1  score: 56.3 bits;  conditional E-value: 5.5e-19
                              EEESEESS--TTTSCCTT..........HHHHHHHHHHHHHHHHHHHHHHHHHTTSEEEEEESSTGGGS....TTHHHHHHHHHHT CS
                              xxxxxxxxxxxxxxxxxx..........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxx RF
              Radical_SAM   2 vvtrgCnlrCsfCarpet..........vrregrgrslsveeileevkelkaekgvkevilgggeplly....pdfvellerlakl 73 
                              +++++C++ C++C+++++              + ++s s+ + l e   +++ +  k++ +ggg+p+l+    ++f e  ++ +++
  PHY93_05980|PHY93_05980  13 IHFPFCAHLCNYCDFYKKvptdkmqdfkNFHLYLEESFSIHQNLIEKHGYSWAP-LKTLYIGGGTPSLWgvegSEFLENFFKKHQI 97 
                              689***************999998866633333333333333333333343444.**************99998999999999998 PP

                              C.CCTEEEEEEECSSCHGHHHHHHHHHTT-SEEEEEEBSSSHHHHHHHHTCTSHHHHHHHHHHHHHHTTSETEEEEEEEBT CS
                              x.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM  74 a.vpgiritvetngtlpdeeklerllelgvdrvslgleaaddekvlklmnrghtfeevlealeklreagikrvvdrivglp 153
                              +  ++ ++t+e+n++  +ee+l    +lg +r+slg++a++++   k++ r ht+++v e+l++++++ ++ +vd+++glp
  PHY93_05980|PHY93_05980  98 QlADDCEFTLEVNPGAWNEEVLTSWQKLGANRFSLGIQALNED-MIKYLDRVHTIQDVHETLQYFHDHKLNYSVDFMLGLP 177
                              89*****************************************.66666699****************9999********9 PP

>> HemN_C  HemN C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.1   1.4e-06     0.012       1      65 [.     299     355 ..     299     356 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 1.4e-06
                   HemN_C   1 lspedrleEeiilgLRlreGldlaafeqrfgldleellaaaleklqeqGLLeldggrlrltprGr 65 
                              ls+e+   E i++ +R +eG+ l++f ++        l + + +++++ L++++ g + lt rG 
  PHY93_05980|PHY93_05980 299 LSEEEFKLEKIYMAIRSQEGIRLSDFPEK--------LSSLVLEWERKALVTQQRGVVTLTSRGY 355
                              79999999*****************8883........3566888888888888888888888885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (369 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       596  (0.0332422); expected 358.6 (0.02)
Passed bias filter:                      479  (0.0267165); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.61u 0.24s 00:00:00.85 Elapsed: 00:00:00.46
# Mc/sec: 2422.32
//
Query:       PHY93_02690|PHY93_02690  [L=332]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (332 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       816  (0.0455129); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.63u 0.29s 00:00:00.92 Elapsed: 00:00:00.56
# Mc/sec: 1779.64
//
Query:       PHY93_02695|PHY93_02695  [L=264]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
  ------ inclusion threshold ------
      0.014   14.4   0.1      0.019   14.0   0.1    1.1  1  Peroxin-3  Peroxin-3


Domain annotation for each model (and alignments):
>> Peroxin-3  Peroxin-3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.1   1.1e-06     0.019     299     350 ..      72     132 ..      65     164 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.1e-06
                Peroxin-3 299 lsleelsellkevrkkveketeeeekrsdflsillPpreeeeevLresgil..........s 350
                              + l++l + ++++ +++e + +e  + ++ ++++lP+ e+ +++L+ +gi+          +
  PHY93_02695|PHY93_02695  72 VVLDDLGQTITKIDARIERSRTE-ATLTESMHFILPNDEHFDYTLTRAGINlvetadmdllT 132
                              57899*************99776.89************************955555544441 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (264 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       754  (0.0420548); expected 358.6 (0.02)
Passed bias filter:                      480  (0.0267723); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.47
# Mc/sec: 1674.47
//
Query:       PHY93_02700|PHY93_02700  [L=273]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (273 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       374  (0.0208601); expected 358.6 (0.02)
Passed bias filter:                      221  (0.0123264); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.46
# Mc/sec: 1771.61
//
Query:       PHY93_02705|PHY93_02705  [L=567]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-25   90.6   2.0    4.6e-25   88.6   0.2    2.3  2  Acyl-CoA_dh_1    Acyl-CoA dehydrogenase, C-terminal domain
    4.4e-18   65.3   0.0    1.1e-17   64.0   0.0    1.6  1  Acyl-CoA_dh_M    Acyl-CoA dehydrogenase, middle domain
    1.1e-14   54.7   2.7    1.7e-14   54.0   2.7    1.4  1  Acyl-CoA_dh_C    Acetyl-CoA dehydrogenase C-terminal like
    2.4e-12   47.5   0.0      7e-12   46.0   0.0    1.9  1  Acyl-CoA_dh_N    Acyl-CoA dehydrogenase, N-terminal domain
    9.4e-07   29.2   1.1    0.00025   21.3   0.0    2.6  3  Acyl-CoA_dh_2    Acyl-CoA dehydrogenase, C-terminal domain
     0.0014   18.8   0.5     0.0031   17.6   0.5    1.6  1  AcylCoA_dehyd_C  Acyl-CoA dehydrogenase C terminal
     0.0036   17.3   0.0      0.011   15.8   0.0    1.8  2  AcylCoA_DH_N     Acyl-CoA dehydrogenase N terminal
  ------ inclusion threshold ------
      0.062   14.4   0.1       0.29   12.2   0.0    2.2  2  DUF5320          Family of unknown function (DUF5320)
       0.14   12.4   0.4       0.29   11.4   0.4    1.4  1  Plasmid_RAQPRD   Plasmid protein of unknown function (Plasmid
        4.2    8.4   7.2         15    6.7   1.6    3.3  4  FKBP_N           Domain amino terminal to FKBP-type peptidyl-


Domain annotation for each model (and alignments):
>> Acyl-CoA_dh_1  Acyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.6   0.2   2.6e-28   4.6e-25       3     143 ..     275     422 ..     274     429 .. 0.94
   2 ?    0.9   0.1      0.26   4.7e+02      49      84 ..     452     487 ..     439     499 .. 0.85

  Alignments for each domain:
  == domain 1  score: 88.6 bits;  conditional E-value: 2.6e-28
                              HHHHHTTTT--S-----..-SHHHHHHHHHHHHHHHTSB-CC-BGGGSHHHHHHHHHHHHHHHHHHHHHHHHHH--------.... CS
            Acyl-CoA_dh_1   3 GfrvametlnheRlavaaaalglarraleealeyarrrkafgkplidhqlvreklaemaaeleaarllvyraaealdagkpd.... 84 
                              G++ +   +n  Rl+++++  + a+  +  + +ya++r +fgk +++h+ v++ l +m+   +a+r+lv+ +a ++d+ + d    
  PHY93_02705|PHY93_02705 275 GMTNMFIMMNEARLLCGVQGEAQANLSYMLTEQYAQERSQFGKEIAKHPDVKRTLLKMRSMGRAMRALVLYTADLFDRVHADptlq 360
                              6666667799*********99999999****************************************************99999*9 PP

                              ...HHHHHHHHHHHHHHHHHHHHHHHHHHGGGTTSGGGHHHHHHHHTHHHHHSSS-HHHHHH CS
            Acyl-CoA_dh_1  85 ...raeasmaKlfaselaqevadlamqllGgaGyleeypverlyrdarvlrigeGtseiqrn 143
                                    + ++K+++s+   +va +a+q +Gg+G+  ey++e+++rd ++ +i+eGt+ iq  
  PHY93_02705|PHY93_02705 361 deiAFMTPICKAYCSDEGFNVAIDAIQTHGGYGFCSEYGIEQFARDLKISTIYEGTNGIQAV 422
                              988888899**************************************************975 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.26
                              GSHHHHHHHHHHHHHHHHHHHHHHHHHH-------- CS
            Acyl-CoA_dh_1  49 dhqlvreklaemaaeleaarllvyraaealdagkpd 84 
                              + q+ +e+la +a +le a+++v+r  + ++a+k +
  PHY93_02705|PHY93_02705 452 EAQIFKEELALIAKNLEKAQAIVERFGKEAKAQKTE 487
                              679999*******************99988888766 PP

>> Acyl-CoA_dh_M  Acyl-CoA dehydrogenase, middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.0   0.0     6e-21   1.1e-17       2      95 ..     156     259 ..     155     260 .. 0.89

  Alignments for each domain:
  == domain 1  score: 64.0 bits;  conditional E-value: 6e-21
                              EE---SS-SS-GGG---EEEEETT.EEEEEEEEEEEETTTT....-SEEEEEEETS---.----EEEEEEE..GG.....GEEE-- CS
            Acyl-CoA_dh_M   2 falTEpqaGsdvasvkttaaerdggeyvlnGeKiwitnaai....atlalvlartekpd.rarglslflvprdap.....gvsvrr 77 
                              ++lTEp+aGsdv +  t a++  +g + ++G Ki+i+++      + ++lvlart ++  +++glslf+vp+ ++     +v+ ++
  PHY93_02705|PHY93_02705 156 MCLTEPGAGSDVGAAITVATPVGDGTFKVRGIKIFISSGDNdlyqNIIHLVLARTPGAPvGTKGLSLFIVPKFRKdgsanDVRCTK 241
                              8****************888888899*************7777766677*****7666689**********7777778889***** PP

                              ---BSS-TTS-EEEEEEE CS
            Acyl-CoA_dh_M  78 ieeklGlrglptgelvfe 95 
                              ieek+G++g +t+el+f 
  PHY93_02705|PHY93_02705 242 IEEKMGIHGQSTCELTFG 259
                              ***************995 PP

>> Acyl-CoA_dh_C  Acetyl-CoA dehydrogenase C-terminal like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.0   2.7   9.8e-18   1.7e-14       3     113 ..     442     557 ..     440     567 .] 0.89

  Alignments for each domain:
  == domain 1  score: 54.0 bits;  conditional E-value: 9.8e-18
            Acyl-CoA_dh_C   3 aeieatvaraa...lkelaaaleaalealqeateallakaakgdpeealaaavpyLelfGdvvigwlllrqalaAqakla..agek 83 
                              a++++t+ar++   +ke+ a  ++ le+ q+++e+++++a++++ e++l +a+ +L   G++v +wlll+ a  A +  a   +e+
  PHY93_02705|PHY93_02705 442 AKMQKTMARPEaqiFKEELALIAKNLEKAQAIVERFGKEAKAQKTEAILFHATSFLSFSGNLVASWLLLEGACEAIKSKAsaTSEE 527
                              67999***774457****************************9*******************************977777668889 PP

            Acyl-CoA_dh_C  84 daafyegKlatarfFaervLPraaalaaai 113
                              ++a+y++K    rfF+++ L +  +l  ++
  PHY93_02705|PHY93_02705 528 EKAYYQSKTLDFRFFVQQQLVKNVGLSYSM 557
                              99******************9987776655 PP

>> Acyl-CoA_dh_N  Acyl-CoA dehydrogenase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.0   0.0   3.9e-15     7e-12       6     113 .]      34     151 ..      29     151 .. 0.79

  Alignments for each domain:
  == domain 1  score: 46.0 bits;  conditional E-value: 3.9e-15
                              HHHHHHHHHHHHHTHHHHHHHHHHT.S.......GHHHH...HHHHHHTTCTSTTS-GGGTS--S-HHHHHHHHHHHHHH-HHHHH CS
            Acyl-CoA_dh_N   6 alrdtvrefaeeelaphaaewdeeg.e.......fprel...wkklaelGllgitvpeeygGagldyleaaivaeelaradaglal 80 
                              ++  + ++f+e+e+ p  +  d+eg +       +p ++   +kk  e+G++g+ +pee gG+ +    ++ +   +  a++++a+
  PHY93_02705|PHY93_02705  34 DVINECNKFIEKEIYPSRTIGDQEGvHlkdgkvtIPPSFqapMKKYYENGWYGMGYPEEIGGMPCPHAVSLACQSIMNGANVSFAM 119
                              6677899*******9976666666655667777766443456*********************98655555555556668889999 PP

                              HHHHHHHTTHHHHHHHS-HHHHHHHHHHHHTTS CS
            Acyl-CoA_dh_N  81 llgvhsslvapailrfGteeqkrryLpklasge 113
                              ++g+    ++ +il+ G++eqk+  +pk+++ge
  PHY93_02705|PHY93_02705 120 YPGLTR-GAMDVILKVGSQEQKDSIVPKMMTGE 151
                              888855.5669********************98 PP

>> Acyl-CoA_dh_2  Acyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.0   1.4e-07   0.00025      20     133 ..     307     417 ..     292     418 .. 0.83
   2 ?    5.2   0.5     0.013        23      32      70 ..     448     486 ..     434     511 .. 0.81
   3 ?   -2.2   0.0       2.5   4.6e+03      51      74 ..     503     526 ..     499     536 .. 0.67

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 1.4e-07
                              HHHHHHHCTTT-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT----HHHHHHHHHHHHHHHHHHHHHHHHHHHHC CS
            Acyl-CoA_dh_2  20 elarervrassgekladdpatqlalaeaaarldAAralleraaaraealaaagkevtvedraearraaalavelaiaavdalfeaa 105
                              ++a+er++  +g+++a +p ++ +l ++++  +A ral++ +a+   + ++a+  ++ e      + +a+ +++  +++ ++++++
  PHY93_02705|PHY93_02705 307 QYAQERSQ--FGKEIAKHPDVKRTLLKMRSMGRAMRALVLYTADLFDR-VHADPTLQDEIAFMTPICKAYCSDEGFNVAIDAIQTH 389
                              56777777..*********************************99444.444444444444455566******************* PP

                              GGGGGBTT-HHHHHHHHHHHHCTSGGG- CS
            Acyl-CoA_dh_2 106 GgsalrkesplqRlwRDahaaaaHaaln 133
                              Gg++  +e+ ++ + RD+++ ++++++n
  PHY93_02705|PHY93_02705 390 GGYGFCSEYGIEQFARDLKISTIYEGTN 417
                              ************************9987 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.013
                              ------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
            Acyl-CoA_dh_2  32 ekladdpatqlalaeaaarldAAralleraaaraealaa 70 
                               +  ++++++ +la +a +l+ A+a++er  ++a+a   
  PHY93_02705|PHY93_02705 448 MARPEAQIFKEELALIAKNLEKAQAIVERFGKEAKAQKT 486
                              444589999***********************9766443 PP

  == domain 3  score: -2.2 bits;  conditional E-value: 2.5
                              HHHHHHHHHHHHHHHHHHHHTT-- CS
            Acyl-CoA_dh_2  51 ldAAralleraaaraealaaagke 74 
                              l A ++lle a+++++ +a a +e
  PHY93_02705|PHY93_02705 503 LVASWLLLEGACEAIKSKASATSE 526
                              567889999999997765544433 PP

>> AcylCoA_dehyd_C  Acyl-CoA dehydrogenase C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.5   1.7e-06    0.0031       4      84 ..     436     522 ..     433     534 .. 0.79

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 1.7e-06
                              HHHHHHHTGGGS---GGGHHHHHHHHHHHHHHHHHHHHHH......TT--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-GGGHH CS
          AcylCoA_dehyd_C   4 tylaqikeyeaeevseeleelkarlkemtekyeeavakVk......eakdqelldflARrLvemaghiimsyLLledatraelFak 83 
                              t+++   +++++  ++e + +k++l+ +++++e+a a V+      +a+++e + f+A  ++  +g+++ s+LLle a +a + + 
  PHY93_02705|PHY93_02705 436 TFMTVGAKMQKTMARPEAQIFKEELALIAKNLEKAQAIVErfgkeaKAQKTEAILFHATSFLSFSGNLVASWLLLEGACEAIKSKA 521
                              5666667888888999999999999999999998888885222221355667999*********************9988855555 PP

                              H CS
          AcylCoA_dehyd_C  84 S 84 
                              S
  PHY93_02705|PHY93_02705 522 S 522
                              5 PP

>> AcylCoA_DH_N  Acyl-CoA dehydrogenase N terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.0     6e-06     0.011       1      24 [.       3      26 ..       3      28 .. 0.88
   2 ?   -3.1   0.0       4.9   8.7e+03      19      29 ..     383     393 ..     383     393 .. 0.87

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 6e-06
             AcylCoA_DH_N  1 qYkAPlRDmrFvLyEvLdaealaa 24
                             q k +lRD+ F+L+ vL+++  ++
  PHY93_02705|PHY93_02705  3 QFKTDLRDIYFNLFNVLKIQNHTG 26
                             6789**************998775 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 4.9
             AcylCoA_DH_N  19 aealaalPgfa 29 
                              ++a++ ++g++
  PHY93_02705|PHY93_02705 383 IDAIQTHGGYG 393
                              6899*****96 PP

>> DUF5320  Family of unknown function (DUF5320)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.7   0.0        10   1.8e+04      65      88 ..      23      46 ..      13      47 .. 0.76
   2 ?   12.2   0.0   0.00016      0.29      16      98 ..     388     469 ..     386     475 .. 0.60

  Alignments for each domain:
  == domain 1  score: -3.7 bits;  conditional E-value: 10
                  DUF5320 65 etaeaskeeekelLeeqaeaLeee 88
                             +++ +s+++ k++++e  +++e+e
  PHY93_02705|PHY93_02705 23 NHTGYSENDMKDVINECNKFIEKE 46
                             567788888899999988888887 PP

  == domain 2  score: 12.2 bits;  conditional E-value: 0.00016
                  DUF5320  16 tGrglGyCagadapgyansagfGr...grggrglgrgfgrrrraggarlaaaetaeaskeeekelLeeqaeaLeeeleaikkrlke 98 
                              t  g G+C+++   ++a++  + +   g +  g+ + + +++r   +   a+++    ++ +k++ + +a++ +eel+ i k+l++
  PHY93_02705|PHY93_02705 388 THGGYGFCSEYGIEQFARDLKISTiyeGTN--GI-QAVDFTMRKVLRDN-AKTFMTVGAKMQKTMARPEAQIFKEELALIAKNLEK 469
                              7789************99944444222222..22.22222112222222.355667777777777777777777777777777764 PP

>> Plasmid_RAQPRD  Plasmid protein of unknown function (Plasmid_RAQPRD)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.4   0.00016      0.29       6      35 ..     457     486 ..     452     494 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00016
           Plasmid_RAQPRD   6 reeLakllkqLdqlqalveraeaqakqeek 35 
                              +eeLa ++k+L+++qa+ver  ++ak +++
  PHY93_02705|PHY93_02705 457 KEELALIAKNLEKAQAIVERFGKEAKAQKT 486
                              89*******************999998854 PP

>> FKBP_N  Domain amino terminal to FKBP-type peptidyl-prolyl isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.6   0.0        10   1.8e+04      42      59 ..      27      44 ..      15      47 .. 0.61
   2 ?    2.9   0.0      0.12   2.2e+02      64      89 ..     303     328 ..     266     329 .. 0.72
   3 ?    6.7   1.6    0.0082        15      33      90 ..     427     487 ..     402     491 .. 0.83
   4 ?   -1.4   0.0       2.6   4.7e+03      28      53 ..     509     534 ..     499     549 .. 0.72

  Alignments for each domain:
  == domain 1  score: -3.6 bits;  conditional E-value: 10
                   FKBP_N 42 ltdeeiqevlqalqeklq 59
                              +++++++v+++ ++ ++
  PHY93_02705|PHY93_02705 27 YSENDMKDVINECNKFIE 44
                             445577777777665444 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.12
                   FKBP_N  64 eeaeknkaegeaFlaenkkkeGVktt 89 
                                +e++++e ++F +e +k ++Vk t
  PHY93_02705|PHY93_02705 303 MLTEQYAQERSQFGKEIAKHPDVKRT 328
                              35688899999999999999999987 PP

  == domain 3  score: 6.7 bits;  conditional E-value: 0.0082
                   FKBP_N  33 kdalkgksk..ltde.eiqevlqalqeklqekqeeeaeknkaegeaFlaenkkkeGVktte 90 
                              +++l +++k  +t   ++q+++++ ++++ +++ +  +kn ++++a ++ + k++  ++te
  PHY93_02705|PHY93_02705 427 RKVLRDNAKtfMTVGaKMQKTMARPEAQIFKEELALIAKNLEKAQAIVERFGKEAKAQKTE 487
                              5566443333577666999999999999999999999*******************99998 PP

  == domain 4  score: -1.4 bits;  conditional E-value: 2.6
                   FKBP_N  28 vlaGlkdalkgkskltdeeiqevlqa 53 
                              +l+G  +a+k+k++ t+ee ++++q+
  PHY93_02705|PHY93_02705 509 LLEGACEAIKSKASATSEEEKAYYQS 534
                              67777788877777766666665554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (567 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       575  (0.0320709); expected 358.6 (0.02)
Passed bias filter:                      454  (0.0253221); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.65u 0.29s 00:00:00.94 Elapsed: 00:00:00.48
# Mc/sec: 3560.31
//
Query:       PHY93_02710|PHY93_02710  [L=171]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (171 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       502  (0.0279993); expected 358.6 (0.02)
Passed bias filter:                      288  (0.0160634); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.26s 00:00:00.74 Elapsed: 00:00:00.46
# Mc/sec: 1126.07
//
Query:       PHY93_02715|PHY93_02715  [L=304]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.4e-76  257.4   0.0    1.7e-76  257.2   0.0    1.0  1  Methyltrans_SAM  S-adenosylmethionine-dependent methyltransfe
    1.7e-07   31.0   0.0    3.3e-07   30.1   0.0    1.4  1  Cons_hypoth95    Conserved hypothetical protein 95
    0.00055   19.4   0.0     0.0011   18.4   0.0    1.5  2  PrmA             Ribosomal protein L11 methyltransferase (Prm
    0.00083   19.2   0.0     0.0014   18.5   0.0    1.4  1  Methyltransf_31  Methyltransferase domain
     0.0062   16.1   0.0       0.01   15.4   0.0    1.4  1  MTS              Methyltransferase small domain


Domain annotation for each model (and alignments):
>> Methyltrans_SAM  S-adenosylmethionine-dependent methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  257.2   0.0   4.6e-80   1.7e-76       2     286 .]      20     300 ..      19     300 .. 0.96

  Alignments for each domain:
  == domain 1  score: 257.2 bits;  conditional E-value: 4.6e-80
          Methyltrans_SAM   2 rlfhgrgrlfegleqltadwlqgqllvnlfkevd..daflaelksgledltqadlwaakqgrslvlqhryadgaasevlvgeldes 85 
                              r+fhgrgrl+ g+e + +d++   ll++++ke +   +f++el ++l+++ +  +       +++lq+ry        + g +   
  PHY93_02715|PHY93_02715  20 RIFHGRGRLWAGFEHVVIDYFSPHLLITIYKEKEseAEFIKELVQSLKEIPDLVI------ENILLQKRYLSRPELIAVEGSIPTI 99 
                              9*****************************9765116789999999988876554......679********9999999******* PP

          Methyltrans_SAM  86 pvvvesglkyqldigrnqnfglfldmrlgrdwvqenakdknvlnlfaytcgfsvaaiaggaskvvnvdmargslnkgrdnhrlngh 171
                               +  e+g k++l +g  qn+g+fldm  gr+ ++  +++k+vlnlf+ytc +svaa+ g as vvn+dm++++l+ g  nh ln+ 
  PHY93_02715|PHY93_02715 100 AEALERGSKFNLKFGDTQNIGFFLDMSPGREMLERISQNKKVLNLFSYTCSLSVAALKGEASGVVNIDMSKAALSVGESNHLLNKL 185
                              ************************************************************************************** PP

          Methyltrans_SAM 172 dlrrvsflgydifkswgkikksgpydlviidppsfqkgsfaltkdykkilrrlpellveggevlacvnspavspdflieemaeeap 257
                              d+++v fl ydi+ksw ki k gpyd+v+idpp+ q  sf + +dy ki++rl e+  +   ++ac+nsp ++++fli+  +e ap
  PHY93_02715|PHY93_02715 186 DMNKVRFLPYDIMKSWNKIFKFGPYDIVVIDPPTNQGDSFKVERDYYKIVKRLNEMTNNEAVIMACLNSPHLTSQFLIDLFKEHAP 271
                              ************************************************************************************** PP

          Methyltrans_SAM 258 slefverldnppefvdvdpeaalkvllfk 286
                              +++f e +    + ++ +pe +lk+++fk
  PHY93_02715|PHY93_02715 272 EFKFEEIIYSAFNSMETNPEEGLKIVVFK 300
                              **************************997 PP

>> Cons_hypoth95  Conserved hypothetical protein 95
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.1   0.0   9.1e-11   3.3e-07      35     143 ..     131     242 ..     129     268 .. 0.77

  Alignments for each domain:
  == domain 1  score: 30.1 bits;  conditional E-value: 9.1e-11
                              HHCCCHCC-EEEETT-TTSHHHHHHHHTT-SEEEEEES-HHHHHHHHHHHCCCT--T.TTEEEEES-HHHHCTS--SS-EEEEEEE CS
            Cons_hypoth95  35 ilaaeiegarvLDlfaGsGalglEAlSRgakkavlvekdkeavkilkenleelklee.etaelkedaleallklakkkeefdivfl 119
                              +l+   ++++vL+lf+ +++l++ Al  +a+ +v ++++k+a+++ + n    kl+  +++ l  d +++++k   k +++div +
  PHY93_02715|PHY93_02715 131 MLERISQNKKVLNLFSYTCSLSVAALKGEASGVVNIDMSKAALSVGESNHLLNKLDMnKVRFLPYDIMKSWNKI-FKFGPYDIVVI 215
                              667777999************************************99996555544447999999999999988.566789***** PP

                              --SSSTTCH...HH.HHHHHHHTT-EE CS
            Cons_hypoth95 120 DPPyakell..iee.vlelleekkllk 143
                              DPP ++++   +e+   + +++ + ++
  PHY93_02715|PHY93_02715 216 DPPTNQGDSfkVERdYYKIVKRLNEMT 242
                              ***999987443320233333333344 PP

>> PrmA  Ribosomal protein L11 methyltransferase (PrmA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0       1.4     5e+03     221     235 ..      62      78 ..      51      80 .. 0.63
   2 !   18.4   0.0   3.2e-07    0.0011     155     231 ..     132     214 ..     129     216 .. 0.76

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 1.4
                     PrmA 221 llk..eekadvivaNIL 235
                              l++  +e  d+++ NIL
  PHY93_02715|PHY93_02715  62 LVQslKEIPDLVIENIL 78 
                              33333466799999998 PP

  == domain 2  score: 18.4 bits;  conditional E-value: 3.2e-07
                     PrmA 155 leklvkegeevlDvGtGSGiLaiaaakLgakkvvavDiDevAvkvakeNaelNkveaklevalseellk.......eekadviv 231
                              le++  ++++vl +   +  L++aa+k +a+ vv +D+ + A++v ++N  lNk++ +   +l+ +++k        +++d++v
  PHY93_02715|PHY93_02715 132 LERI-SQNKKVLNLFSYTCSLSVAALKGEASGVVNIDMSKAALSVGESNHLLNKLDMNKVRFLPYDIMKswnkifkFGPYDIVV 214
                              5544.345677777777888***********************************99663457777775333333356667776 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.5   0.0   3.8e-07    0.0014       4      94 ..     138     248 ..     135     293 .. 0.68

  Alignments for each domain:
  == domain 1  score: 18.5 bits;  conditional E-value: 3.8e-07
          Methyltransf_31   4 glrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielAre..naqklgldnveFeqgdieelekl.ledekfDlilsn..... 81 
                              +++vl l + t  l+ ++  + g+ + vv+iD+s+ a+++ ++   + kl  + v+F   di +  ++ ++  ++D+++ +     
  PHY93_02715|PHY93_02715 138 NKKVLNLFSYTCSLSVAA--LKGEASGVVNIDMSKAALSVGESnhLLNKLDMNKVRFLPYDIMKSWNKiFKFGPYDIVVIDpptnq 221
                              555555555554444444..5678888*************9994445666666***********55566999*******9955555 PP

          Methyltransf_31  82 ..............evlnaladpdkil 94 
                                              ln ++++++++
  PHY93_02715|PHY93_02715 222 gdsfkverdyykivKRLNEMTNNEAVI 248
                              544444444443332224444444444 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   2.8e-06      0.01      34     114 ..     140     226 ..     128     271 .. 0.74

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 2.8e-06
                              EEEEET-TTSHHHHHHHHHTTC.E.EEEEESBHHHHHHHHHHHHHTTGC...EEEEE-STTTTSTT....S-EEEEEE---STTTC CS
                      MTS  34 kvlDlGcGaGvlgaalakespeae.vtlvdvdarAlesakenleankle...vevvasdvleevee....kkfdlivsNPPfhagk 111
                              kvl l + +  l++a++k   ea+ v+ +d +++Al + + n   nkl+   v+++  d+++ +++    + +d++v  PP  +g 
  PHY93_02715|PHY93_02715 140 KVLNLFSYTCSLSVAALK--GEASgVVNIDMSKAALSVGESNHLLNKLDmnkVRFLPYDIMKSWNKifkfGPYDIVVIDPPTNQGD 223
                              566666655556655555..4444499*********************999999*******998843333789*********9998 PP

                              HCH CS
                      MTS 112 ate 114
                                +
  PHY93_02715|PHY93_02715 224 SFK 226
                              644 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (304 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       607  (0.0338558); expected 358.6 (0.02)
Passed bias filter:                      478  (0.0266607); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.47
# Mc/sec: 1939.38
//
Query:       PHY93_02720|PHY93_02720  [L=307]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.8e-10   39.3   0.0      1e-09   38.8   0.0    1.3  1  FtsJ      FtsJ-like methyltransferase


Domain annotation for each model (and alignments):
>> FtsJ  FtsJ-like methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.8   0.0   5.7e-14     1e-09       3      70 ..     153     222 ..     152     278 .. 0.83

  Alignments for each domain:
  == domain 1  score: 38.8 bits;  conditional E-value: 5.7e-14
                              CCHHHHHHHHHHHHT-S-.TT-EEEECT-TTSHHHHHHCCT.T.-SEEEEEESSSSHHH....TTEEEECS-C CS
                     FtsJ   3 sRsayKLleidekfklfk.pgktvvDlgaaPGgwsqvllqrlgakgkvvavDlqpmapl....pgvttiqgdi 70 
                              sR+ +KL e+   +k++  pg++v+D+g++PGgw+ vl +  g  + vv+vD  p +p+    p++ + q   
  PHY93_02720|PHY93_02720 153 SRAYLKLWELFTLYKIMPtPGMRVIDVGSCPGGWTWVLHNI-G--CDVVSVDKAPLDPRvaalPRIDFRQESA 222
                              8**************9966******************9666.5..89********977665557777776555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (307 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       295  (0.0164538); expected 358.6 (0.02)
Passed bias filter:                      289  (0.0161191); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 2040.57
//
Query:       PHY93_02725|PHY93_02725  [L=246]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.4e-36  125.8   1.2    6.6e-36  123.6   0.1    1.9  2  SpoU_methylase  SpoU rRNA Methylase family
    6.2e-14   52.0   0.4    1.2e-12   47.9   0.1    2.4  2  SpoU_sub_bind   RNA 2'-O ribose methyltransferase substrate b
     0.0034   17.7   0.3      0.022   15.2   0.1    2.1  2  DUF2122         RecB-family nuclease (DUF2122)
      0.006   16.6   1.0      0.016   15.2   0.2    1.9  2  UNC45-central   Myosin-binding striated muscle assembly centr
  ------ inclusion threshold ------
      0.023   14.7   0.5       0.28   11.2   0.4    2.2  2  IL7             Interleukin 7/9 family


Domain annotation for each model (and alignments):
>> SpoU_methylase  SpoU rRNA Methylase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   0.1      0.11   3.9e+02      58     101 ..      40      81 ..      30      96 .. 0.64
   2 !  123.6   0.1   1.8e-39   6.6e-36       2     141 ..     101     238 ..     100     239 .. 0.96

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.11
                              EEEESSHHHHHHHHCCCTEEEEEESTT-SEGCCSHHHTTEEEEE CS
           SpoU_methylase  58 lkvvdsleealkelkeegfalvatslkgkslseidlkekvalvf 101
                              lk+++++ +++++ k++ +++v+++ + +++++++ +e v++++
  PHY93_02725|PHY93_02725  40 LKTFSHITKYCAQNKKA-YHIVTRE-ELEQMTKATHHEDVCMLI 81 
                              45566666677776666.6666654.455555666666666655 PP

  == domain 2  score: 123.6 bits;  conditional E-value: 1.8e-39
                              EEEEEES-SSHHHHHHHHHHHHHTT-SEEEEESGSSCTCGSHHHHHHCTTHHHHHHEEEESSHHHHHHHHCCCTEEEEEEST.T-S CS
           SpoU_methylase   2 livvlveiedpgNlGaiaRtakafgaselvlvkprsadllnpeakraaagalevlelkvvdsleealkelkeegfalvatsl.kgk 86 
                              l ++l+++++p+N+Gai+R+a+ fg+++l+l + ++    +  a+r++ g  e+++++++++++++++ lk++g+++++ts+  +k
  PHY93_02725|PHY93_02725 101 LLIALENVSNPHNVGAILRSAAHFGVNGLILPEAKA--ATTAAAVRTSEGGSEYVDIYEASDFKKTIALLKKNGYQILTTSShAKK 184
                              689****************************88665..59999*************************************998888 PP

                              EGCCSHHHTTEEEEEEBTTTBS-HHHHCTSSEEEE----TTSSS--HHHHHHHHH CS
           SpoU_methylase  87 slseidlkekvalvfGnEdkGlsnelleladrlvkIpmsgeveSLNvavAvaill 141
                              sl+e+++++kv+++fG+E +Gls+++l+l d ++kIp   ++eSLNv+vA+a++l
  PHY93_02725|PHY93_02725 185 SLYELKWEKKVVILFGEEAEGLSKDTLTLGD-TIKIPGTDNIESLNVSVAAAVIL 238
                              99***************************99.7********************98 PP

>> SpoU_sub_bind  RNA 2'-O ribose methyltransferase substrate binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.9   0.1   3.4e-16   1.2e-12       2      73 ..      13      84 ..      12      87 .. 0.96
   2 ?    1.8   0.0      0.08   2.9e+02      29      53 ..     158     182 ..     152     190 .. 0.83

  Alignments for each domain:
  == domain 1  score: 47.9 bits;  conditional E-value: 3.4e-16
            SpoU_sub_bind  2 iyGlhaVleaLksgrr.iekllvtegradkrleellklakkrgikvelvdkekLdklsgtanHQGvvaevkpl 73
                             iyG +a+l++ k++++ i +l++t++ + k +  + k++++++  +++v++e+L+++++  +H +v++ +++ 
  PHY93_02725|PHY93_02725 13 IYGENACLALFKKRPEdIIQLFLTKE-KLKTFSHITKYCAQNKKAYHIVTREELEQMTKATHHEDVCMLIRKE 84
                             9*************999*********.99999************************************99975 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.08
            SpoU_sub_bind  29 dkrleellklakkrgikvelvdkek 53 
                              ++++++ ++l+kk+g ++ + +++ 
  PHY93_02725|PHY93_02725 158 ASDFKKTIALLKKNGYQILTTSSHA 182
                              5678999**********99988875 PP

>> DUF2122  RecB-family nuclease (DUF2122)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.0       0.3   1.1e+03      21      53 ..      58      90 ..      44     114 .. 0.60
   2 !   15.2   0.1     6e-06     0.022      27     103 ..     160     237 ..     153     240 .. 0.70

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 0.3
                  DUF2122 21 sllvlpdlkDalellkpekvlllskeegeelle 53
                              ++  ++l+ + +  + e v +l ++e +++le
  PHY93_02725|PHY93_02725 58 HIVTREELEQMTKATHHEDVCMLIRKESNRTLE 90
                             566667778888888777777777765433333 PP

  == domain 2  score: 15.2 bits;  conditional E-value: 6e-06
                  DUF2122  27 dlkDalellkpekvlllskee.geelleeeeleekgrvllvfsgadegfskkelelgetvkvegvea..dvgelaelavv 103
                              d k  + llk +   +l++++ +++ l e +   +++v+++f+   eg+sk+ l+lg+t+k+ g+++  ++    ++av+
  PHY93_02725|PHY93_02725 160 DFKKTIALLKKNGYQILTTSShAKKSLYELK--WEKKVVILFGEEAEGLSKDTLTLGDTIKIPGTDNieSLNVSVAAAVI 237
                              5566667776665555555432666665555..5****************************987642244444555555 PP

>> UNC45-central  Myosin-binding striated muscle assembly central
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.2   4.5e-06     0.016      56     141 ..      11     101 ..       3     142 .. 0.85
   2 ?   -0.3   0.0      0.26   9.2e+02     113     150 ..     160     238 ..     155     240 .. 0.63

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 4.5e-06
                              HHHHHHHHHHHHHHSSHHHHHHHHTST...THHHHHHHHHHS...S-HHHHHHHHHHHHTT--SSSSSHHHHHHHHHHHHHHHH-S CS
            UNC45-central  56 dllnalsvltalFpvvpdvasalflse...gflesllelves..kkskkvqlaalellsaAcidkkcrkaiaknyvewLeelvkss 136
                              +++ + ++  alF   p+ + +lfl++   ++ +++++ ++   k  + v+++ le +  A  +++++ +i+k+    Le+ ++++
  PHY93_02725|PHY93_02725  11 TKIYGENACLALFKKRPEDIIQLFLTKeklKTFSHITKYCAQnkKAYHIVTREELEQMTKATHHEDVCMLIRKESNRTLEQYLQTK 96 
                              55566677789****************555566666666666888888999999*******************************9 PP

                              SHH.. CS
            UNC45-central 137 ddekl 141
                              ++++l
  PHY93_02725|PHY93_02725  97 PTSSL 101
                              98865 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.26
                              -SSSSSHHHHHHHHHHHHHHHH-SSHH...........................................HHHHHHTTS CS
            UNC45-central 113 idkkcrkaiaknyvewLeelvkssddekl.........................................vkalAavvL 150
                                kk  ++ +kn+ ++L  +++ ++   +                                         v ++Aav+L
  PHY93_02725|PHY93_02725 160 DFKKTIALLKKNGYQILTTSSHAKKSLYElkwekkvvilfgeeaeglskdtltlgdtikipgtdnieslnVSVAAAVIL 238
                              5566666777777777777776666444466666666666666666666666666666666666666666777777777 PP

>> IL7  Interleukin 7/9 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.4   7.9e-05      0.28      42      86 ..      48      91 ..      36     109 .. 0.83
   2 ?    1.2   0.0     0.098   3.5e+02      79     115 ..     161     196 ..     149     199 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 7.9e-05
                      IL7 42 iscDdckeacFlvraqekLkQltkatikeefslilervkkgtvel 86
                              +c ++k+a     ++e L+Q+tkat +e+  + + + ++ t+e 
  PHY93_02725|PHY93_02725 48 KYCAQNKKAYH-IVTREELEQMTKATHHEDVCMLIRKESNRTLEQ 91
                             57889999999.556899*************99999999888865 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.098
                      IL7  79 vkkgtvelLknnkCqefnCteeeekpckeqkkgntlc 115
                               kk t++lLk+n  q +   ++ +k++ e k ++++ 
  PHY93_02725|PHY93_02725 161 FKK-TIALLKKNGYQILTTSSHAKKSLYELKWEKKVV 196
                              577.999***999999999999999999888877765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (246 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1087  (0.060628); expected 358.6 (0.02)
Passed bias filter:                      602  (0.0335769); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.43
# Mc/sec: 1705.66
//
Query:       PHY93_02730|PHY93_02730  [L=508]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.5e-74  248.4   0.0    1.9e-73  246.9   0.0    1.6  1  Metalloenzyme    Metalloenzyme superfamily
    9.3e-66  221.4   0.0    1.5e-65  220.7   0.0    1.3  1  iPGM_N           BPG-independent PGAM N-terminus (iPGM_N)
    2.3e-06   27.5   0.0    4.1e-06   26.6   0.0    1.4  1  Phosphodiest     Type I phosphodiesterase / nucleotide pyroph
      4e-06   26.5   0.0    6.6e-06   25.7   0.0    1.3  1  Sulfatase        Sulfatase
     0.0016   18.6   0.0      0.013   15.6   0.0    2.4  3  PglZ             PglZ domain
  ------ inclusion threshold ------
      0.015   14.3   0.9       0.11   11.4   0.4    2.0  2  Alk_phosphatase  Alkaline phosphatase
      0.063   13.1   0.0        1.2    9.0   0.0    2.4  2  ACT_7            ACT domain
       0.08   12.2   0.0       0.13   11.5   0.0    1.2  1  Glyco_hydro_97   Glycoside hydrolase 97


Domain annotation for each model (and alignments):
>> Metalloenzyme  Metalloenzyme superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  246.9   0.0   8.7e-77   1.9e-73       1     247 [.       9     498 ..       9     499 .. 0.98

  Alignments for each domain:
  == domain 1  score: 246.9 bits;  conditional E-value: 8.7e-77
                              -EEEEEEETTBB----GGGTTHHHS--HHHHHHHHH.......SEEEEEESSSTT----HHHHHHHH................... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx................... RF
            Metalloenzyme   1 kkvvlvvlDGlGeapadelnaihvAktPtldkLkkeaPerwlikahgtavglpeddmgnsevgHlel................... 67 
                              k+v+lv+lDG+G+ p+d+ nai +Ak+P++d L +++P + +i+a g+ vglp++  gnsevgH++l                   
  PHY93_02730|PHY93_02730   9 KRVLLVILDGFGINPKDNKNAILHAKKPNIDFLFEHYPMT-TIEAGGLLVGLPKGVAGNSEVGHMNLgagksvrqdlvrineaien 93 
                              79**************************************.9******************************************** PP

                              ...................................................................................... CS
                              ...................................................................................... RF
            Metalloenzyme  68 ...................................................................................... 67 
                                                                                                                    
  PHY93_02730|PHY93_02730  94 nslkdmpelnkliayakshsnrihlmgllsdggvhshinhlkelikilsregielclhafmdgrdtprdvgvkfveemvqikeikf 179
                              ************************************************************************************** PP

                              ...................................................................................... CS
                              ...................................................................................... RF
            Metalloenzyme  68 ...................................................................................... 67 
                                                                                                                    
  PHY93_02730|PHY93_02730 180 asiqgrsigmdrdrrwnkikecyetiigrgktttlsapeyiqseykedrydefitpalldknlaiksddavfffnyrpdraieitl 265
                              ************************************************************************************** PP

                              ........................................................HHHHTT-----EEEEEEEE-S---SSHHHH CS
                              ........................................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Metalloenzyme  68 ........................................................lrisetvkfahvtffwnggrsgyfnpleer 97 
                                                                                      ++i+et+k+ahvt+f+ngg++++f++ ee+
  PHY93_02730|PHY93_02730 266 altdpkfdefetpirpgyflcmtpyvqenvdlpilfdkeklrgtlseyisksglkqFKIAETEKYAHVTYFFNGGEKTPFPG-EEQ 350
                              ********************************************************99************************.*** PP

                              HT--EE.EE--SHHSTT--HHHHHHHHHHHH.CC.-SEEEEEE-HHHHHHHTT-HHHHHHHHHHHHHHHHHHHTTS-TTTEEEEEE CS
                              xxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Metalloenzyme  98 eeipsd.tvitfdlqpemkavevaekaldailsgkfdlvvvniknaDmvGHtgdleatiaaieaaDeavkeildaieqvdgilvvt 182
                              + ips+  ++t+d +pem+a +v  ++ +a+  ++ ++  vn++n DmvGHtg++ea+++aie +De+v+++++++e+++ +++vt
  PHY93_02730|PHY93_02730 351 VLIPSNrEIATYDEKPEMSAPQVLARLEKALADHTINFYAVNFANSDMVGHTGNFEAAVKAIEVLDECVGQLMKKCEAEKVTMLVT 436
                              ****973699**************************************************************************** PP

                              -SSB--TTTSS........-----EEEEEESTT----S--SSHHHHT.T-TTEEEEGGGHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxx RF
            Metalloenzyme 183 ADHgnaedmvkrdkqplTsHtlepVPilivgkglapdkvkegakfre.kggLanvaatllnllgle 247
                              ADHgn ++mv ++ +++TsHt  pVP+++++++l+     e+ +++e    L +va+t+ln++gl 
  PHY93_02730|PHY93_02730 437 ADHGNSDQMVYDNGDIHTSHTEAPVPFAVFDPDLKD----EKLELNEgPFALKDVAPTVLNIMGLP 498
                              **********************************97....3333445477899*********9986 PP

>> iPGM_N  BPG-independent PGAM N-terminus (iPGM_N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  220.7   0.0   6.6e-69   1.5e-65       1     213 [.      87     290 ..      87     292 .. 0.95

  Alignments for each domain:
  == domain 1  score: 220.7 bits;  conditional E-value: 6.6e-69
                              HHHHHHCTGGGG-HHHHHHHHHHHHCTSEEEEEEE-SS--SS--CHHHHHHHHHHHHTT-SEEEEEEEE-SSSSTTT-HHHHHHHH CS
                   iPGM_N   1 inkaiedgslfenealkeaiekakkngkalHllGLlSdGgVHShidhllallelakeegvkkvvvhaflDGRDtapksaleyleel 86 
                              in+aie++sl++ ++l+++i++ak++++++Hl+GLlSdGgVHShi+hl++l+++ ++eg+ ++++haf+DGRDt+ + +++++ee+
  PHY93_02730|PHY93_02730  87 INEAIENNSLKDMPELNKLIAYAKSHSNRIHLMGLLSDGGVHSHINHLKELIKILSREGI-ELCLHAFMDGRDTPRDVGVKFVEEM 171
                              89**********************************************************.9***********************9 PP

                              HHHHHHCT--EEEEEEEHHHHT--SS-HHHHHHHHHHHCCSSSEEECTTHHHHHHHHHHTT--GGG---EEE...TCCGGS--TT- CS
                   iPGM_N  87 eeklkelgvgkiasvsGRyyaMDRdkrwervekaydalvkgegeskaesaveaieesyakgetDefveptviaeegkkegtikdgD 172
                                ++ke+   k as+ GR + MDRd+rw+++++ y++++ g+g++++ sa e+i+++y+++  Def++p+++    +k+ +ik++D
  PHY93_02730|PHY93_02730 172 V-QIKEI---KFASIQGRSIGMDRDRRWNKIKECYETII-GRGKTTTLSAPEYIQSEYKEDRYDEFITPALL----DKNLAIKSDD 248
                              8.57776...99**************************9.667776669***********************....6789****** PP

                              EEEE----CCCCHHHHHHHHSTTHHCC..--TT-EEEESS-S CS
                   iPGM_N 173 aviffNFRaDRareltraltdkefkefe.kakklklvtmteY 213
                              av+ffN+R+DRa+e+t altd++f+efe  ++  ++++mt Y
  PHY93_02730|PHY93_02730 249 AVFFFNYRPDRAIEITLALTDPKFDEFEtPIRPGYFLCMTPY 290
                              ***************************95555568*****99 PP

>> Phosphodiest  Type I phosphodiesterase / nucleotide pyrophosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.6   0.0   1.8e-09   4.1e-06     163     238 ..     374     445 ..     293     474 .. 0.84

  Alignments for each domain:
  == domain 1  score: 26.6 bits;  conditional E-value: 1.8e-09
                              SHHHHHCT..SSESEEEEEECCCHHHHHHH-TTSHHHHHHHHHHHHHHHHHHHHHHHTTGTTTEEEEEEES---EEEH CS
             Phosphodiest 163 kvvlekel..ekpdlllvyleetDtvgHkfGpdspevedalrrvDkaigdLlealderglsaetniilvSDHGmadvs 238
                               ++lek+l   + ++++v++ + D vgH  G + ++  +a++ +D+++g+L++  + +    ++++++++DHG +d  
  PHY93_02730|PHY93_02730 374 LARLEKALadHTINFYAVNFANSDMVGH-TG-NFEAAVKAIEVLDECVGQLMKKCEAE----KVTMLVTADHGNSDQM 445
                              3445555575666***************.55.7788899*****************99....99*********88765 PP

>> Sulfatase  Sulfatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.7   0.0     3e-09   6.6e-06     183     308 ..     384     496 ..     373     497 .. 0.84

  Alignments for each domain:
  == domain 1  score: 25.7 bits;  conditional E-value: 3e-09
                              SSSTCTCGGHTCCGSTTTTCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTGGGEEEEEEESSSSCCCGHHTTSSSCTTCSS CS
                Sulfatase 183 HappeapdeyakkyatffddgseaarqlleaylnsveyvDdligrvlaaLeenglldntlvvftSDhgasleesngplrggkgana 268
                              H+ +++   +a++    ++ g++    + ea   ++e  D+++g+++++     +++++++++t+Dhg s     ++  g  +  +
  PHY93_02730|PHY93_02730 384 HTINFYAVNFANS----DMVGHT---GNFEAAVKAIEVLDECVGQLMKKC----EAEKVTMLVTADHGNSD--QMVYDNGDIH--T 454
                              6655555555555....555555...8999999*****************....***************77..3455555555..7 PP

                              SHHHHBEEEEEEETTTSHC..EEECSEEEGGGHHHHHHHHTT CS
                Sulfatase 269 yeggtrvPllvwwpgekap..rvseelvshiDlfptildlag 308
                              ++    vP+ v  p+ k +  + +e++  + D++pt+l  +g
  PHY93_02730|PHY93_02730 455 SHTEAPVPFAVFDPDLKDEklELNEGPFALKDVAPTVLNIMG 496
                              777889*********************************998 PP

>> PglZ  PglZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0       2.1   4.7e+03       1      13 [.       9      21 ..       9      34 .. 0.84
   2 ?   -0.8   0.0      0.61   1.4e+03     136     163 ..     124     150 ..     113     152 .. 0.84
   3 !   15.6   0.0   5.9e-06     0.013     123     169 ..     397     441 ..     340     450 .. 0.77

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 2.1
                     PglZ  1 ekvfvIisDalry 13
                             ++v ++i D+++ 
  PHY93_02730|PHY93_02730  9 KRVLLVILDGFGI 21
                             699*******986 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 0.61
                     PglZ 136 feaveeslkelkelvkslleengykvll 163
                                +v+  +++lkel+k l  e g ++ l
  PHY93_02730|PHY93_02730 124 DGGVHSHINHLKELIKILSRE-GIELCL 150
                              5689999********999988.888776 PP

  == domain 3  score: 15.6 bits;  conditional E-value: 5.9e-06
                     PglZ 123 Dalgdkasteqksfeaveeslkelkelvksllee.ngykv..lltaDHGf 169
                              D     +++    fea+ ++++ l e v +l+ + ++ kv  l+taDHG+
  PHY93_02730|PHY93_02730 397 D-----MVGHTGNFEAAVKAIEVLDECVGQLMKKcEAEKVtmLVTADHGN 441
                              3.....5555889********************99999874479*****7 PP

>> Alk_phosphatase  Alkaline phosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.0     0.073   1.6e+02     199     227 ..     103     133 ..      71     140 .. 0.69
   2 ?   11.4   0.4   5.1e-05      0.11     254     312 ..     388     445 ..     361     461 .. 0.84

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.073
                              HHHHHHCTST..SSCEEEESSSSSCS-CCCS CS
          Alk_phosphatase 199 keLlkakeen..vkplLGLFadgdlkveldr 227
                              ++L++ ++++    +l+GL  dg+++ +++ 
  PHY93_02730|PHY93_02730 103 NKLIAYAKSHsnRIHLMGLLSDGGVHSHINH 133
                              44443322222379***********999975 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 5.1e-05
                              EEEEEETCHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHCHHCTTEEEEEEESSEESEEE CS
          Alk_phosphatase 254 FLlVEGsrIDhaaHendavgalsEvvefdeAvkaalefakkeketlvvvTaDHshvfsf 312
                              F  V  ++ D  +H ++   a++ +  +de v + ++  + ek t+ +vTaDH    ++
  PHY93_02730|PHY93_02730 388 FYAVNFANSDMVGHTGNFEAAVKAIEVLDECVGQLMKKCEAEKVTM-LVTADHGNSDQM 445
                              55677888899*****************************777776.68****985554 PP

>> ACT_7  ACT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.0      0.15   3.4e+02      21      38 ..     131     148 ..     122     154 .. 0.83
   2 ?    9.0   0.0   0.00052       1.2      16      49 ..     368     399 ..     364     413 .. 0.91

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 0.15
                              --HHHHHHHHHHTTT--- CS
                    ACT_7  21 tGivaklaspLaeagIsi 38 
                              +  +++l++ L+++gI++
  PHY93_02730|PHY93_02730 131 INHLKELIKILSREGIEL 148
                              556899**********96 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.00052
                              ---SS--HHHHHHHHHHTTT---EEEE-SS-EEE CS
                    ACT_7  16 lpfdvtGivaklaspLaeagIsifqiStyrtdyi 49 
                              +  +++ ++a+l ++La++ I+ +++  +++d++
  PHY93_02730|PHY93_02730 368 M--SAPQVLARLEKALADHTINFYAVNFANSDMV 399
                              4..79********************999999986 PP

>> Glyco_hydro_97  Glycoside hydrolase 97
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   5.8e-05      0.13      81     147 ..     101     169 ..      81     178 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 5.8e-05
           Glyco_hydro_97  81 dleelvaYakekgvgvelwlhsetsgnvanlekqldkafklyeklGvkgvKvdfvgr...ddqemvnhye 147
                              +l++l+aYak+   +++l++  +  g v++  ++l++ +k +++ G++     f+++        v+++e
  PHY93_02730|PHY93_02730 101 ELNKLIAYAKSHSNRIHLMGLLSD-GGVHSHINHLKELIKILSREGIELCLHAFMDGrdtPRDVGVKFVE 169
                              68899****************997.778888899*********************984443334455554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (508 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       545  (0.0303977); expected 358.6 (0.02)
Passed bias filter:                      517  (0.028836); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.69u 0.28s 00:00:00.97 Elapsed: 00:00:00.48
# Mc/sec: 3156.90
//
Query:       PHY93_02735|PHY93_02735  [L=323]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.6e-99  332.1   3.7      3e-99  331.9   3.7    1.0  1  PFK           Phosphofructokinase
    7.7e-06   25.3   0.0    1.2e-05   24.6   0.0    1.2  1  NAD_kinase    ATP-NAD kinase
    5.1e-05   22.9   0.5    0.00011   21.8   0.1    1.8  2  DAGK_cat      Diacylglycerol kinase catalytic domain
  ------ inclusion threshold ------
       0.01   15.3   0.1      0.019   14.4   0.0    1.4  1  Peripla_BP_1  Periplasmic binding proteins and sugar binding 
      0.061   13.0   0.0       0.09   12.4   0.0    1.2  1  Peripla_BP_6  Periplasmic binding protein


Domain annotation for each model (and alignments):
>> PFK  Phosphofructokinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  331.9   3.7  8.3e-103     3e-99       1     284 []       6     281 ..       6     281 .. 0.99

  Alignments for each domain:
  == domain 1  score: 331.9 bits;  conditional E-value: 8.3e-103
                              EEEEEEESS--TTHHHHHHHHHHHHHHTT-EEEEETTHHHHHHTT-EEEE-SGGGTT-TT--S-TT-----GGGGSHHHHHHHHHH CS
                      PFK   1 riailtsGGdapGmNaairavvrtaikkglevygireGfeGlieeeiekltledvsgilsegGtiLgsaRskefkeregrkkaaen 86 
                              ria+l sGGd+pGmN+airavvrt+i  glev+g+++G+ Gl+e++i++l+ ++v +il++gGt+L+++R+ ef + egr++aa+ 
  PHY93_02735|PHY93_02735   6 RIAVLCSGGDSPGMNSAIRAVVRTGIGAGLEVFGVQKGYAGLLEGNIRQLDVSSVGNILQHGGTMLQTSRCAEFITPEGRREAANL 91 
                              7**************************************************************************9********** PP

                              HHHHT--EEEEEESHHHHHHHHHHHHT..T....--EEEEEEETT---TT-S--EEHHHHHHHHHHHHHHHHHHHHHHT-EEEEEE CS
                      PFK  87 lkklgidaLvviGGdgslkganklseerkglleelkivgiPkTidNDipgtdytiGfdTAlntiveaidklkstakshkrvfvvEv 172
                              lk+++idaL+viGGdgs++ga kl++e+ +    +++vgiP+TidNDi gtdytiGfdTA++ +v+a+dkl++ta+sh r+f+vEv
  PHY93_02735|PHY93_02735  92 LKRKKIDALIVIGGDGSFNGAMKLHDEH-Q----IPVVGIPGTIDNDIDGTDYTIGFDTAVQNAVDAVDKLRDTANSHGRTFIVEV 172
                              *************************996.8....**************************************************** PP

                              S-TT-THHHHHHHHHHT-SEEE-TTS---HHHHHHHHHHHHT.T-S-EEEEEESSS..S-...HHHHHHHHHHHHSS-EEEEE-GG CS
                      PFK 173 mGrncGwlAlmaglaggadvilipEepfdieeliekikklrkkgkkksiivvaEgakdkegiiaeelakeieektgievrvtvlGh 258
                              mGr++  +Al  g+++ga+ +++p   +d ++++++i++  k+gk++sii+ +Eg  +   +++  + + +++k ++e+ v++lGh
  PHY93_02735|PHY93_02735 173 MGRRSPAIALKVGICTGAENVVLPTATIDYDKIAADIDRGIKRGKTSSIIIASEGEVE---GVGYTIRNNLKDKFKLEAHVCILGH 255
                              ********************************************************97...79********99999********** PP

                              GGG-S---HHHHHHHHHHHHHHHHHH CS
                      PFK 259 lqrGgspsafDrilatrlGikavell 284
                              +qrGg+p+++Dr++a+++G  av++l
  PHY93_02735|PHY93_02735 256 IQRGGNPTPTDRLIASQMGNFAVQAL 281
                              ***********************975 PP

>> NAD_kinase  ATP-NAD kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.6   0.0   3.4e-09   1.2e-05      69     109 ..      87     127 ..      56     129 .. 0.86

  Alignments for each domain:
  == domain 1  score: 24.6 bits;  conditional E-value: 3.4e-09
                              CCC-TTTTTSSSEEEEEE-HHHHHHHHHHHHHCT-EEEEEE CS
               NAD_kinase  69 kaleafadagvdliivvGGDGTaldvarllqkaeiPvlgvn 109
                              +a++ +  +++d++iv+GGDG +  +++l ++++iPv+g++
  PHY93_02735|PHY93_02735  87 EAANLLKRKKIDALIVIGGDGSFNGAMKLHDEHQIPVVGIP 127
                              5555666789******************************8 PP

>> DAGK_cat  Diacylglycerol kinase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.7   0.0       2.4   8.7e+03      58      65 ..       8      15 ..       5      23 .. 0.86
   2 !   21.8   0.1   3.1e-08   0.00011      39      96 ..      77     134 ..      46     164 .. 0.71

  Alignments for each domain:
  == domain 1  score: -3.7 bits;  conditional E-value: 2.4
                             EEEEEESH CS
                 DAGK_cat 58 livvaGGD 65
                             ++++ GGD
  PHY93_02735|PHY93_02735  8 AVLCSGGD 15
                             68999999 PP

  == domain 2  score: 21.8 bits;  conditional E-value: 3.1e-08
                              -...STTHHHHHHHHHHHCC-SEEEEEESHHHHHHHHHHHCTHHCTTSEEEEEE-SS--HH CS
                 DAGK_cat  39 e...epgdakelakeakeegvdlivvaGGDGtvsevlnglleelatkpplgiiPlGtgNdl 96 
                                   p+  +e a+ +k++++d+++v+GGDG ++ +++   e   +++p+  iP+   Nd+
  PHY93_02735|PHY93_02735  77 AefiTPEGRREAANLLKRKKIDALIVIGGDGSFNGAMKLHDE---HQIPVVGIPGTIDNDI 134
                              333367778899999999999***************999888...9999999995545554 PP

>> Peripla_BP_1  Periplasmic binding proteins and sugar binding domain of LacI family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0   5.3e-06     0.019      47      98 ..      87     140 ..      80     184 .. 0.77

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 5.3e-06
                              HHHHHHHHTT-SEEEEE-S-GGHHHHHHHHHH.T-EEEEESS--B-T.TTS-EE CS
             Peripla_BP_1  47 kaidllkakgidgliiatsdtsfdditakaes.gipvialedaidap.dgvPcv 98 
                              +a++llk k+id+li+ + d+sf+   + + + +ipv+ +  +id++ dg +  
  PHY93_02735|PHY93_02735  87 EAANLLKRKKIDALIVIGGDGSFNGAMKLHDEhQIPVVGIPGTIDNDiDGTDYT 140
                              6789******************99999999999**************8444432 PP

>> Peripla_BP_6  Periplasmic binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   2.5e-05      0.09      55     128 ..      83     156 ..      67     179 .. 0.72

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 2.5e-05
                              HHHHHHHHHHHHCT--SEEEE-BSHHHHHHHHHHHHHHT-EEEE.SS-HHCC.TTSTTEEESS--HHHHHHHHHHH CS
             Peripla_BP_6  55 draaeaarrlvdqdgvdalvgplssavaaavaevlakdgvpvig.pagltge.kcspyvfslgpsysaqasalvey 128
                              ++  eaa+ l  ++++dal+   +++  ++++++ +++++pv+g p++ +++ ++++y++ +   + + a  +v+ 
  PHY93_02735|PHY93_02735  83 EGRREAANLL-KRKKIDALIVIGGDGSFNGAMKLHDEHQIPVVGiPGTIDNDiDGTDYTIGFDT-AVQNAVDAVDK 156
                              4445555555.55*******************************77766665566666665542.22334444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (323 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       486  (0.0271069); expected 358.6 (0.02)
Passed bias filter:                      451  (0.0251548); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.58u 0.25s 00:00:00.83 Elapsed: 00:00:00.47
# Mc/sec: 2048.07
//
Query:       PHY93_05985|PHY93_05985  [L=858]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.4e-37  129.0   0.0    2.3e-34  118.5   0.0    2.5  2  Peptidase_M16    Insulinase (Peptidase family M16)
      3e-30  105.6   0.4    3.3e-14   53.3   0.1    3.1  3  Peptidase_M16_C  Peptidase M16 inactive domain


Domain annotation for each model (and alignments):
>> Peptidase_M16  Insulinase (Peptidase family M16)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  118.5   0.0   2.6e-38   2.3e-34       3     145 ..      15     156 ..      13     160 .. 0.93
   2 !    8.0   0.0    0.0003       2.7      10     142 ..     469     601 ..     461     608 .. 0.84

  Alignments for each domain:
  == domain 1  score: 118.5 bits;  conditional E-value: 2.6e-38
                              EEEE-TSSSEEEEEEEES-SGGGSCTTTTTHHHHHHHHTTSBBSSSCHHHHHHHHHHTTCEEEEEEESSEEEEEEEEEGGGHHHHH CS
            Peptidase_M16   3 alesdppaktsavglvvdaGSryepkdlnGlAHllehmafkgTkkypsnklaeeleklGgslnAttsrentvYyvevlskdlekal 88 
                              + +++p +++++v +++ aGS+ e+kd +G+AH+lehm+fkgT+++p+ k+a e+e  Gg++nA+ts ++t+Yy+++++k+l++ +
  PHY93_05985|PHY93_05985  15 LFIHSPGSTAATVQIWFRAGSALEEKDHQGIAHFLEHMFFKGTQTRPGAKIAHEVETFGGEINAFTSFDYTCYYINTPNKHLAESV 100
                              56899********************************************************************************* PP

                              HHHHHHHHSBTTSHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHTTTSGGGSHS CS
            Peptidase_M16  89 dvladvfkaplleesevererkvvekeveavdaepekvveenlhaaayrekalgrsl 145
                              ++l d++ +p+++++++  er vv +e     + p + ++ +l++ a+   ++++++
  PHY93_05985|PHY93_05985 101 EILLDMVSNPEFKQDDLVPERGVVFEEFRRSIDSPGQFAFSKLQKSAFG-GSYAHPI 156
                              **********************999999988888889999999988887.6666665 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.0003
                              SSEEEEEEEES-SGGGSCTTTTTHHHHHHHHTTSBBSSSCHHHHHHHHHHTTCEEEEEEESSEEEEEEEEEGGGHHHHHHHHHHHH CS
            Peptidase_M16  10 aktsavglvvdaGSryepkdlnGlAHllehmafkgTkkypsnklaeeleklGgslnAttsrentvYyvevlskdlekaldvladvf 95 
                              ++t  +  +   G  +e ++ nG+ Hll  m+ kg      +k+   le+   s+  ++ +      ++ l++++++++  ++  +
  PHY93_05985|PHY93_05985 469 TPTFVLQAYLRGGITEEVPKTNGIYHLLSSMLTKGHDGIAYEKIKLDLEETSSSIGGFSGKNAYGLLMHGLTENMQDLFPHFSGAL 554
                              55556666777889999******************999999999999999999999999999999999999999999999999999 PP

                              HSBTTSHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHTTTSGGG CS
            Peptidase_M16  96 kaplleesevererkvvekeveavdaepekvveenlhaaayrekalg 142
                              ++p +  ++++ e++  ++ +  +++ p k+ +++  + ++ +++++
  PHY93_05985|PHY93_05985 555 INPDIPLKYLKHEKQLSLRALTNQKEDPVKHCFKQALQLFFGKHPYA 601
                              99999999999999999999999999988888888877777776665 PP

>> Peptidase_M16_C  Peptidase M16 inactive domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.0   0.0     0.082   7.3e+02      63     157 ..       9     101 ..       2     108 .. 0.67
   2 !   53.3   0.1   3.6e-18   3.3e-14       1     183 []     165     339 ..     165     339 .. 0.92
   3 !   48.1   0.0   1.5e-16   1.3e-12       2     180 ..     614     785 ..     613     787 .. 0.89

  Alignments for each domain:
  == domain 1  score: 0.0 bits;  conditional E-value: 0.082
                              GSSEEEEEEEESSSSSEEEEEEEEEECT.CTHTTHHHHHHHHHHHHSS....TTSHHHHHHHTTTTSESEEEEEEEEESSCEEEEE CS
          Peptidase_M16_C  63 tlkkppvvlkkldeeqahlslafegpsk.endeddlalavlntlLggg....mesrLytnlrekeglaysvsafndsyrdsglfgi 143
                              ++k ++ +++    + a +++ f++ s  e  +++   + l++++  g    +  ++ +++         ++ + + ++   +++ 
  PHY93_05985|PHY93_05985   9 KNKLNTLFIHSPGSTAATVQIWFRAGSAlEEKDHQGIAHFLEHMFFKGtqtrPGAKIAHEVE-------TFGGEINAFTSFDYTCY 87 
                              67778889999999999999999999997778888889999999999944444444444444.......55555444555555555 PP

                              EEEEECTTHHHHHH CS
          Peptidase_M16_C 144 satadpenveevve 157
                              ++ + +++++e ve
  PHY93_05985|PHY93_05985  88 YINTPNKHLAESVE 101
                              55555556666555 PP

  == domain 2  score: 53.3 bits;  conditional E-value: 3.6e-18
                              CH-HHHHHHHHHHHSSGGGEEEEEEESS-HH.HHHHHHHHHHTTSTHHSHCSGSCTSSSSSGGGSSEEEEEEEESSSSSEEEEEEE CS
          Peptidase_M16_C   1 sltredlkefykkfYrpenmvlaivGdvdhe.elvkliekyfgdlkaskappakptgepltpatlkkppvvlkkldeeqahlslaf 85 
                              +++re+l+ f+++fY+ +n  ++++Gd + + ++vk ieky    +      a p +++++   + k++  ++k+ +  a l+l  
  PHY93_05985|PHY93_05985 165 NFSREQLQFFRNSFYNLSNSLCIVAGDMSDKeHIVKTIEKYNL--P------AGPESFFPEFKLKEKSTLDIHKKAVGMATLTLVV 242
                              689************************988769******9954..4......44799999999*********************** PP

                              EEECTCTHTTHHHHHHHHHHHHSSTTSHHHHHHHTTTTSESEEEEE..EEEESSCEEEEEEEEEECTTHHHHHHHHHHHHHHHHHH CS
          Peptidase_M16_C  86 egpskendeddlalavlntlLgggmesrLytnlrekeglaysvsaf..ndsyrdsglfgisatadpenveevvevilkelrklkke 169
                              ++p + n +  +  ++  + Lg g +srLy++l   + la  +sa+  ++s+   g  +i +    +n+ee++  ++k++ + ++e
  PHY93_05985|PHY93_05985 243 QAPTY-NSPMAAGEDLALNCLGFGESSRLYSALVLDKTLANVASAStmFMSNG--GAHFIRLVFPLKNMEELLTKFVKTISETITE 325
                              *****.*********************************77777774466666..999999999999******************* PP

                              TS-HHHHHHHHHHH CS
          Peptidase_M16_C 170 glteeeleraknql 183
                              gl+ +e++++knq+
  PHY93_05985|PHY93_05985 326 GLSFDEVQKIKNQY 339
                              ************95 PP

  == domain 3  score: 48.1 bits;  conditional E-value: 1.5e-16
                              H-HHHHHHHHHHHSSGGGEEEEEEESS-HHHHHHHHHHHHTTSTHHSHCSGSCTSSSSSGGGSSEEEEEEEESSSSSEEEEEEEEE CS
          Peptidase_M16_C   2 ltredlkefykkfYrpenmvlaivGdvdheelvkliekyfgdlkaskappakptgepltpatlkkppvvlkkldeeqahlslafeg 87 
                              lt ++l + + k+ + + + +  +Gd + e+++++ + ++ +l  +k   +k + +p++  t   + ++  ++  eq+++  + ++
  PHY93_05985|PHY93_05985 614 LTQKSLLQLHLKNLKKKEVIFTYCGDSSLEDVLEMFNPLLEELAPRK--TEKLSFKPYK-STVGVEKFISFNR--EQTQIFHGIPC 694
                              788999**************************************765..4555544444.3444444444444..6********** PP

                              ECTCTHTTHHHHHHHHHHHHSSTTSHHHHHHHTTTTSESEEEEEEEEESSCEEEEEEEEEECTTHHHHHHHHHHHHHHHHHHTS-H CS
          Peptidase_M16_C  88 pskendeddlalavlntlLgggmesrLytnlrekeglaysvsafndsyrdsglfgisatadpenveevvevilkelrklkkeglte 173
                                +   +++l l+ l t L g  +s L+ ++r+++gl+ys++  +      g+fgi++ +  ++v  +  +i++ + +++++gl e
  PHY93_05985|PHY93_05985 695 GRI-GSPENLYLKMLTTHLSGQ-SSELFVEVRDRQGLCYSAQPVHFAALEGGYFGIYMASGHDKVSAATVAIKELIGRIRDNGLLE 778
                              ***.******************.*********************998899************************************ PP

                              HHHHHHH CS
          Peptidase_M16_C 174 eelerak 180
                              e+++r+k
  PHY93_05985|PHY93_05985 779 EDFNRIK 785
                              *****98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (858 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1096  (0.06113); expected 358.6 (0.02)
Passed bias filter:                      625  (0.0348597); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.80u 0.31s 00:00:01.11 Elapsed: 00:00:00.49
# Mc/sec: 5237.88
//
Query:       PHY93_02740|PHY93_02740  [L=111]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (111 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       689  (0.0384294); expected 358.6 (0.02)
Passed bias filter:                      382  (0.0213063); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.26s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 755.78
//
Query:       PHY93_02745|PHY93_02745  [L=173]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (173 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       306  (0.0170673); expected 358.6 (0.02)
Passed bias filter:                      280  (0.0156172); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.43
# Mc/sec: 1197.57
//
Query:       PHY93_02750|PHY93_02750  [L=474]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      1e-97  327.3   0.0    1.3e-97  326.9   0.0    1.2  1  Lyase_1      Lyase
    8.4e-16   58.1   0.0    2.7e-15   56.5   0.0    1.9  2  FumaraseC_C  Fumarase C C-terminus


Domain annotation for each model (and alignments):
>> Lyase_1  Lyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  326.9   0.0  1.5e-101   1.3e-97       4     312 .]      19     348 ..      16     348 .. 0.97

  Alignments for each domain:
  == domain 1  score: 326.9 bits;  conditional E-value: 1.5e-101
                              EEETCHHHHHHHHHHHHHGGGHHHHHC.......HHHHHHHHHHHTTSST....HHHHHHHHHHHHHHHCHCHHCGGHHHBSSSSS CS
                  Lyase_1   4 tvkadklmgiftersrenfrlseedik.......alaalkkaaakanvdl....keeaaaiikaldevleegklddqfvlkviqeg 78 
                                +  +++gi+t r+ enf++s+ +i+       ala++kka+a+an +     ke+aa i++a+de++ + ++ dqf+++++q g
  PHY93_02750|PHY93_02750  19 AIPYGAYYGIHTLRAMENFKISHSKIShntlmvkALALTKKACAMANGEIgtidKEVAAVIVRACDEIIIKNRCLDQFPIDTFQGG 104
                              566779****************99999**********************999*9****************9*************** PP

                              HHHHHHHHHHHHHH....HHTT......HSSGIIIIITTT--HHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHTTT-EE CS
                  Lyase_1  79 sgtavnmnlnevig....ellg......ekvepndkvhtgqSsnDqvpTalrlalkkalsekLlpaleqLidalkekakefkdvvk 154
                              +gt+vnmn+nevi+    ellg      + v+pnd+v+++qS+nD++pTa+r+al + l e Ll+ale L++++++k+ efk+++k
  PHY93_02750|PHY93_02750 105 AGTSVNMNANEVIAnlalELLGeekgnyNIVHPNDHVNKCQSTNDAYPTAFRVALFSHLLE-LLSALELLKESFEKKSIEFKSILK 189
                              **************9999888899999999*****************************77.************************ PP

                              EEEETTEEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHTCEETTTTTTTSSTTTSCCTHHHHHHHHHHHHHCST.EESSSHHHHH CS
                  Lyase_1 155 iGrThlqdAtPvtlgqelsayaealerdrerlkellkrllvellgggtavgtglnadpefaelvakelakvtglp.vkapnsfeav 239
                              +GrT+lqdA+P+ lgqe+ aya+ +++d++ l  ++ +l++e++ g+ta+gtg+n+   +a l +++l +vtg + + +++ +ea+
  PHY93_02750|PHY93_02750 190 MGRTQLQDAVPMSLGQEFNAYATLVKEDIKLLSSIK-NLVLEVNLGATAIGTGINTPDDYAPLAVQKLREVTGYEfTLSEDLIEAT 274
                              ******************************777777.************************************************* PP

                              HC-HHHHHHHHHHHHHHHHHHHHHHHHHHHTSTT.TSSEEEEGCCTSSC-TTSTTTEBTHHHHHHHHHHHHHHH CS
                  Lyase_1 240 sdrDavvellgalkllatsLskfaeDlrllssge.aglvelslaesepGSSiMPgKvNPvqlElltgvagrvvG 312
                              sd+ a+v+++galk++a++Lsk+++Dlrllssg+ agl e++l+e ++GSSiMP KvNPv  E++++v+++++G
  PHY93_02750|PHY93_02750 275 SDCGAYVMISGALKRTAVKLSKICNDLRLLSSGPrAGLKEINLPELQAGSSIMPAKVNPVIPEVVNQVCFKIIG 348
                              ************************************************************************98 PP

>> FumaraseC_C  Fumarase C C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.0       1.6   1.5e+04      19      36 ..     215     232 ..     211     235 .. 0.69
   2 !   56.5   0.0     3e-19   2.7e-15       1      53 [.     414     466 ..     414     467 .. 0.98

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 1.6
                              HHHHHHT--HHHHHHHTT CS
              FumaraseC_C  19 keAlkegktlreavlelg 36 
                              ke +k   +++ +vle +
  PHY93_02750|PHY93_02750 215 KEDIKLLSSIKNLVLEVN 232
                              555566678999999855 PP

  == domain 2  score: 56.5 bits;  conditional E-value: 3e-19
                              GGGGGHHHHHHHHHHHHHHHHHHHT--HHHHHHHTT-.-HHHHHHHT-HHHHH CS
              FumaraseC_C   1 LVTaLnphIGYekAakIAkeAlkegktlreavlelgllteeeldelldpekMt 53 
                              +VT L p++G+e + +I k + k+gk++ e++le+gl+t+e+ld+++++e+M+
  PHY93_02750|PHY93_02750 414 IVTFLDPILGHEVCDQIGKICAKSGKNVSEVALEKGLVTQEQLDKIFSIENML 466
                              8***************************************************7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (474 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       485  (0.0270511); expected 358.6 (0.02)
Passed bias filter:                      389  (0.0216967); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.59u 0.24s 00:00:00.83 Elapsed: 00:00:00.45
# Mc/sec: 3187.07
//
Query:       PHY93_02755|PHY93_02755  [L=195]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.1e-11   44.3   0.1    6.1e-11   42.8   0.0    1.8  2  FecR      FecR protein


Domain annotation for each model (and alignments):
>> FecR  FecR protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.8   0.0   3.4e-15   6.1e-11       7      95 ..      61     148 ..      54     149 .. 0.92
   2 ?   -2.5   0.0      0.45   8.1e+03      52      70 ..     158     174 ..     154     184 .. 0.65

  Alignments for each domain:
  == domain 1  score: 42.8 bits;  conditional E-value: 3.4e-15
                     FecR   7 agsraeilleDgsvvrlnensslekaadsskrrrevsllkGevlfdvakdkkrp.fevktpsatigvrgtefrvrksdkqtevavl 91 
                              +g  +e+++++g  vr   ++    + + + +++ ++ll+G+++  +++  +++ f vkt+ ++ +vrgt+f +++++kq+ + v 
  PHY93_02755|PHY93_02755  61 SGDYVEVKFQNGHLVRFTGATVK--VETLNPKNTLFNLLRGKLYSAIKPLTQNEtFDVKTKRVSFAVRGTRFMIEETKKQSYLCVC 144
                              567899***********999987..8888888889**************999888******************************* PP

                     FecR  92 eGeV 95 
                              eG V
  PHY93_02755|PHY93_02755 145 EGVV 148
                              **99 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 0.45
                     FecR  52 dvakdkkrpfevktpsati 70 
                              +v+kd++  +++ tp+++ 
  PHY93_02755|PHY93_02755 158 NVNKDED--LSLATPKSEL 174
                              4555554..7777776654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (195 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       672  (0.0374812); expected 358.6 (0.02)
Passed bias filter:                      462  (0.0257683); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.26s 00:00:00.75 Elapsed: 00:00:00.45
# Mc/sec: 1306.73
//
Query:       PHY93_02760|PHY93_02760  [L=156]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (156 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       465  (0.0259356); expected 358.6 (0.02)
Passed bias filter:                      317  (0.0176809); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 1034.80
//
Query:       PHY93_02765|PHY93_02765  [L=417]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.5e-69  232.0   0.7    1.3e-68  231.4   0.7    1.3  1  ELFV_dehydrog    Glutamate/Leucine/Phenylalanine/Valine dehyd
    3.7e-53  178.9   0.0    7.1e-53  177.9   0.0    1.5  1  ELFV_dehydrog_N  Glu/Leu/Phe/Val dehydrogenase, dimerisation 
  ------ inclusion threshold ------
      0.042   11.4   0.0      0.065   10.7   0.0    1.1  1  Bac_GDH          Bacterial NAD-glutamate dehydrogenase
      0.057   12.8   0.1       0.11   11.8   0.1    1.5  1  2-Hacid_dh_C     D-isomer specific 2-hydroxyacid dehydrogenas
       0.21   11.7   1.0       0.34   11.0   0.4    1.6  2  AdoHcyase_NAD    S-adenosyl-L-homocysteine hydrolase, NAD bin


Domain annotation for each model (and alignments):
>> ELFV_dehydrog  Glutamate/Leucine/Phenylalanine/Valine dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  231.4   0.7   3.5e-72   1.3e-68       1     243 []     182     415 ..     182     415 .. 0.98

  Alignments for each domain:
  == domain 1  score: 231.4 bits;  conditional E-value: 3.5e-72
                              T--TTTTTHHHHHHHHHHHHHHHHTTTS-STTEEEEEE--SHHHHHHHHHHHHCT-EEEEEEESSEEEEETTEE-HHHHHHHHHCS CS
            ELFV_dehydrog   1 GGsldrpeaTglGvvyyveemlkklkldslegkrvaisGsGnvgsyaallltelgakvvavsDssGviydpeGldieellelkeer 86 
                              GGsl+r e+Tg Gv+++v+ +++k++++  ++++vai G+G vg  aa  l+ +gak+vavsD sG +ydp+Gldie+  ++ +e+
  PHY93_02765|PHY93_02765 182 GGSLGRAESTGKGVAFCVNFAAEKIGMTIDQNTTVAIHGFGKVGIPAAYDLSAQGAKIVAVSDISGGVYDPKGLDIEKCERWVKEN 267
                              9***********************9999778899**************************************************** PP

                              SSSTTHSHHSTSTSEEESHHSHHHHSS-SEEEE-SSTTSB-HHHHTHTHHTT-SEEE-SSSS-B-HHHHHHHHHTT-EEE-HHHHT CS
            ELFV_dehydrog  87 ksvkeykkssekkaeyieneeellelkvdilvPcAtqneideenakalikngvklvvEgANlpttqeAkeileeagvlvvpdkaaN 172
                              k +k ++     +++ i+n+ el++lkvd+l+P+A++ +i+e+na+  +k  +++++EgAN+p+t+eA++i +++g +++pd+++N
  PHY93_02765|PHY93_02765 268 KVLKGMP-----GTQHITND-ELFALKVDVLIPAAIDGVITEKNAH-TVK--ARIIAEGANGPLTKEAIDIVTANGSFLIPDILCN 344
                              *******.....45899997.*************************.999..********************************** PP

                              THHHHHHHHHHHHHHCT----HHHHHHHHHHHHHHHHHHHHHHHHHCT-THHHHHHHHHHHHHHHHHHHCT CS
            ELFV_dehydrog 173 aGGVtvSslEmlqnlarlswteeevdeklkkimkeifkavveeaeeykqelvkganiagfekvaeamkaqG 243
                              +GGV+vS++E++q l++++w+ +ev++kl++imk++f++v+++ +e ++++  +a +a+++++ +amk +G
  PHY93_02765|PHY93_02765 345 SGGVIVSYFEWVQGLQSFFWDLDEVNSKLHSIMKNAFENVYATSKEFNTNMKSAALVAAIRRLEKAMKLRG 415
                              ********************************************************************998 PP

>> ELFV_dehydrog_N  Glu/Leu/Phe/Val dehydrogenase, dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  177.9   0.0     2e-56   7.1e-53       1     129 [.      36     163 ..      36     164 .. 0.99

  Alignments for each domain:
  == domain 1  score: 177.9 bits;  conditional E-value: 2e-56
                              -SEEEEEEEEEE-TTSBEEEEEEEEEEEE-TTSSEEEEEEEETT--HHHHHHHHHHHHHHHHHTTSS-EEEEEEEES-GGGS-HHH CS
          ELFV_dehydrog_N   1 pervlqvtvpvkrdnGelevikgyraqhssalgPakGGiRfhpsvnldevkaLaalmtyKnalvdlpfGGakggvkidpkklseee 86 
                              p+r lqv+vp++ d+G+++++ gyr+qh+ +lgP kGGiR+hp v+l+e+  La+lmt+K+alv+lp+GGakgg+++dp++ls++e
  PHY93_02765|PHY93_02765  36 PKRALQVSVPIRLDDGTVKTFIGYRVQHNLTLGPGKGGIRYHPGVDLSETAGLAMLMTFKCALVGLPYGGAKGGICVDPTHLSRQE 121
                              7899********************************************************************************** PP

                              HHHHHHHHHHHHG.GG-BTTTEEEEBBTTB-HHHHHHHHHHHH CS
          ELFV_dehydrog_N  87 leritrrfvrelakkfiGpgiDvpApDvgtgaremawladeyk 129
                              l+ +trr+++e++  +iGp+iD+pApD+gt++++maw++d+y+
  PHY93_02765|PHY93_02765 122 LQALTRRYATEIN-MIIGPHIDIPAPDIGTDSQTMAWFMDTYS 163
                              *************.****************************8 PP

>> Bac_GDH  Bacterial NAD-glutamate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   1.8e-05     0.065    1050    1099 ..     305     354 ..     302     355 .. 0.89

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 1.8e-05
                  Bac_GDH 1050 ngkelrakvvgEGgNLGltQlgRiEyalkggrintDaiDNsaGVdcSDhE 1099
                               n++ ++a++++EG+N  lt  +    +++g  +  D + Ns+GV +S  E
  PHY93_02765|PHY93_02765  305 NAHTVKARIIAEGANGPLTKEAIDIVTANGSFLIPDILCNSGGVIVSYFE 354 
                               8999****************99666677888999**********999655 PP

>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.1   3.1e-05      0.11      35     114 ..     212     285 ..     199     306 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 3.1e-05
                              TTSEEEEES-SHHHHHHHHHHHHTT-EEEEESSSHHHHHCHHHHTCEECSHHHHHHH-SEEEE-S--STTTTTSBSHHHH CS
             2-Hacid_dh_C  35 sgktvGiiGlGrIGqavakrlkafgmkviaydrskkkeeeeeelgvelvsleellaesDivslhlpltpetrhlinaeel 114
                              ++ tv+i G+G++G  +a  l+a g+k++a++         + +g++ ++ e  ++e  ++       p t+h+ n+e +
  PHY93_02765|PHY93_02765 212 QNTTVAIHGFGKVGIPAAYDLSAQGAKIVAVSDISG-G-VYDPKGLDIEKCERWVKENKVL----KGMPGTQHITNDELF 285
                              5789*************************9987744.2.2455566666666666666554....344555555555555 PP

>> AdoHcyase_NAD  S-adenosyl-L-homocysteine hydrolase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.4   9.4e-05      0.34      25     103 ..     215     290 ..     206     327 .. 0.79
   2 ?   -3.0   0.0       1.9   6.8e+03      93     115 ..     388     410 ..     365     416 .. 0.61

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 9.4e-05
                              EEEEE--SHHHHHHHHHHHHCT-EEEEE-S-HHHHHHHHCTT-EE--HHHCTTT-SEEEE-SSSSSSB-HHHHCCS-TT CS
            AdoHcyase_NAD  25 vavvaGyGdvGkGcaaslkglGarvivtevdPicalqaameGfevvtleevvkkadivvtttGnkdiitlehlkkmkdd 103
                              ++ + G+G vG  +a  l ++Ga+++   v  i+      +G+++ + e  vk+ +++    G++ i + e ++ +k d
  PHY93_02765|PHY93_02765 215 TVAIHGFGKVGIPAAYDLSAQGAKIV--AVSDISGGVYDPKGLDIEKCERWVKENKVLKGMPGTQHITNDELFA-LKVD 290
                              67899******************864..4666777777789999999999999999999999999876655544.4444 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 1.9
                              -HHHHCCS-TTEEEEE-SSTTTT CS
            AdoHcyase_NAD  93 tlehlkkmkddaivcniGhfdse 115
                              ++e  ++mk  a+v+ i   ++ 
  PHY93_02765|PHY93_02765 388 SKEFNTNMKSAALVAAIRRLEKA 410
                              34445678888888887766655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (417 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       655  (0.036533); expected 358.6 (0.02)
Passed bias filter:                      616  (0.0343577); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.64u 0.29s 00:00:00.93 Elapsed: 00:00:00.47
# Mc/sec: 2670.11
//
Query:       PHY93_02770|PHY93_02770  [L=264]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.081   13.4   0.1       0.15   12.6   0.1    1.4  1  CFIA_Pcf11  Subunit of cleavage factor IA Pcf11


Domain annotation for each model (and alignments):
>> CFIA_Pcf11  Subunit of cleavage factor IA Pcf11
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.1   8.4e-06      0.15      18      47 ..     220     249 ..     217     261 .. 0.74

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 8.4e-06
                              XXHHHHHTXXTHHCHXXXXXXXXXXXXXXX CS
               CFIA_Pcf11  18 LddsqWvkfkddeivstksssnktskkask 47 
                              L++sqWv f d+ei++  ++  +++++ + 
  PHY93_02770|PHY93_02770 220 LNESQWVAFVDQEITKNIKARMSSTSMPNG 249
                              99************9987766666665554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (264 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       552  (0.0307881); expected 358.6 (0.02)
Passed bias filter:                      464  (0.0258799); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.26s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1770.61
//
Query:       PHY93_02775|PHY93_02775  [L=291]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.7e-19   68.2   0.0    1.2e-18   67.1   0.0    1.6  1  ParBc     ParB-like nuclease domain
  ------ inclusion threshold ------
      0.021   14.9   0.1       0.12   12.4   0.1    2.3  2  SpoIIID   Stage III sporulation protein D


Domain annotation for each model (and alignments):
>> ParBc  ParB-like nuclease domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.1   0.0   1.4e-22   1.2e-18       2      89 ..      43     131 ..      42     132 .. 0.98

  Alignments for each domain:
  == domain 1  score: 67.1 bits;  conditional E-value: 1.4e-22
                    ParBc   2 evplseirpnplqprkd.spekieelvasIkkkGllqPiivrktrqgryeiiaGerRlrAakrlglkevpvivleid.deeamals 85 
                              e++l+ei   + q+r++ ++++i++l+++I+ +Gl+qP++ +++++gry +i GerR+rA+ + + ++ p++vle++ +ee ma++
  PHY93_02775|PHY93_02775  43 EINLKEIV-VKEQVRTKfNDDSIKDLAKNIEINGLIQPLVLHQDKNGRYRLICGERRFRALSFNKTEKAPCFVLENKsEEELMAIQ 127
                              8999****.99****99********************************************************************* PP

                    ParBc  86 lien 89 
                               +en
  PHY93_02775|PHY93_02775 128 FSEN 131
                              ***9 PP

>> SpoIIID  Stage III sporulation protein D
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   1.4e-05      0.12      10      40 ..     145     175 ..     138     191 .. 0.83
   2 ?   -1.8   0.0      0.38   3.4e+03      16      33 ..     178     195 ..     174     198 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 1.4e-05
                  SpoIIID  10 eiakyiveskatvRkaakvfgvskstvhkDv 40 
                               i +y ++++a  Rk+  ++g+sks vh+ +
  PHY93_02775|PHY93_02775 145 GILNYQIATEASERKIQAALGISKSEVHRSL 175
                              578999**********************975 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 0.38
                  SpoIIID  16 veskatvRkaakvfgvsk 33 
                               +   t+++aak++++ k
  PHY93_02775|PHY93_02775 178 AKMPRTLKEAAKKHDIEK 195
                              556679999999998877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (291 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       744  (0.041497); expected 358.6 (0.02)
Passed bias filter:                      361  (0.020135); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.46
# Mc/sec: 1906.01
//
Query:       PHY93_02780|PHY93_02780  [L=255]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    7.6e-44  149.7   0.1      1e-43  149.3   0.1    1.1  1  AAA_31       AAA domain
    3.2e-16   59.6   0.0    3.9e-16   59.3   0.0    1.1  1  CbiA         CobQ/CobB/MinD/ParA nucleotide binding domain
    2.6e-11   43.5   0.7    2.6e-10   40.2   0.7    2.0  1  ParA         NUBPL iron-transfer P-loop NTPase
    6.4e-10   38.7   1.8    1.2e-08   34.5   1.8    2.7  1  ArsA_ATPase  Anion-transporting ATPase
    2.2e-09   37.0   0.1      6e-06   25.7   0.0    2.2  2  MipZ         ATPase MipZ
    1.5e-06   27.7   0.2      0.008   15.5   0.1    2.1  2  VirC1        VirC1 protein
    2.2e-06   27.3   0.1    1.3e-05   24.8   0.1    2.0  1  CBP_BcsQ     Cellulose biosynthesis protein BcsQ
     0.0023   17.4   0.1     0.0048   16.4   0.1    1.5  1  Fer4_NifH    4Fe-4S iron sulfur cluster binding proteins, Nif
     0.0039   16.8   0.2       0.07   12.7   0.1    2.3  2  SRP54        SRP54-type protein, GTPase domain
  ------ inclusion threshold ------
      0.012   15.4   0.6        0.2   11.4   0.0    2.4  2  ATP_bind_1   Conserved hypothetical ATP binding protein
      0.047   12.8   0.1      0.093   11.8   0.1    1.4  1  LpxK         Tetraacyldisaccharide-1-P 4'-kinase
      0.063   13.0   0.0       0.13   11.9   0.0    1.6  1  AAA_24       AAA domain


Domain annotation for each model (and alignments):
>> AAA_31  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  149.3   0.1   6.8e-47     1e-43       1     176 [.       1     187 [.       1     188 [. 0.88

  Alignments for each domain:
  == domain 1  score: 149.3 bits;  conditional E-value: 6.8e-47
                   AAA_31   1 gkvIaianqKGGvGKTTtsvnlaaalaklgkkvLlvDlDpQanattglgiekneiektlyevlieeknikeaiiktk.....venl 81 
                              ++vI+i n+KGGvGKT ++++la+ la++g+kvL++DlD+Qan+++++g++ ++  + + e li ++ i+++i+k +     ++n+
  PHY93_02780|PHY93_02780   1 MEVITIGNNKGGVGKTMQCYQLACYLANKGNKVLVIDLDSQANLSSSFGVQIQR--TLVPEWLIGDVGIEDVIVKPEmvgklYKNI 84 
                              689**********************************************84443..355567789999999998755311235777 PP

                   AAA_31  82 dlipssidLaeaeielvelekk........eeilkellekvkdeYDyiiiDcpPsLglltenaLvasdsviipvqaeayaleGleq 159
                               +ip+s +La++++ l+  e +        e+ lk+ l++ k ++Dy++iD+pP Lg  ++ +Lvas+ v+ip+qa++y+++Gle+
  PHY93_02780|PHY93_02780  85 RIIPASRHLANLSKLLILSEVEvrkeagrkERLLKKRLQDAKLDFDYVVIDTPPMLGDELIMSLVASNRVLIPTQAQDYSIDGLEE 170
                              *************999877766667777766669**************************************************** PP

                   AAA_31 160 llktieevkkklnpkle 176
                              l++t+e +k++ np le
  PHY93_02780|PHY93_02780 171 LMDTFEIIKETENPGLE 187
                              ***********999887 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.3   0.0   2.6e-19   3.9e-16       1     107 [.       4     217 ..       4     235 .. 0.89

  Alignments for each domain:
  == domain 1  score: 59.3 bits;  conditional E-value: 2.6e-19
                              EEEEESSTTSSHHHHHHHHHHHHHHTT--EEEEEEEESSCCCCHHTTEB-HHHH................................ CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx................................ RF
                     CbiA   1 iaiastkGGvGKTtlaanLaralarrglrVllvDaDpqannlaileglendiep................................ 54 
                              i+i + kGGvGKT+ +  La++la++g++Vl++D+D qan+++  +g+++++                                  
  PHY93_02780|PHY93_02780   4 ITIGNNKGGVGKTMQCYQLACYLANKGNKVLVIDLDSQANLSS-SFGVQIQRTLvpewligdvgiedvivkpemvgklykniriip 88 
                              7899**************************************9.999999988899****************************** PP

                              ..............................................................................CCHCCCHH CS
                              ..............................................................................xxxxxxxx RF
                     CbiA  55 ..............................................................................dlkrllel 62 
                                                                                                            +l+ l  +
  PHY93_02780|PHY93_02780  89 asrhlanlskllilsevevrkeagrkerllkkrlqdakldfdyvvidtppmlgdelimslvasnrvliptqaqdysidGLEELMDT 174
                              ***************************************************************************88877777777 PP

                              HHHHCHCHHHH..EEEEEEEEESS...-TTCHHHHHHHHHHC.TS- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxx RF
                     CbiA  63 lealgkkkalllkiagvvlnrvdgeneetllkealeelkqry.gvp 107
                              +e ++++ ++  +  ++++ +v+++   + ++  +eel q +   p
  PHY93_02780|PHY93_02780 175 FEIIKETENP-GLEFSIIPSMVNPR--RKIERVRMEELSQSFqTTP 217
                              7877777555.555789********..7777888888887665333 PP

>> ParA  NUBPL iron-transfer P-loop NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.2   0.7   1.7e-13   2.6e-10       4     155 ..       2     170 ..       1     186 [. 0.75

  Alignments for each domain:
  == domain 1  score: 40.2 bits;  conditional E-value: 1.7e-13
                     ParA   4 kviavlSgKGGVGKStvavnlAlaLakkglkvgllDaDiyGpsiprllgvee.........................ekpeqs... 61 
                              +vi++   KGGVGK+    +lA+ La+kg kv ++D+D    ++ + +gv+                               +   
  PHY93_02780|PHY93_02780   2 EVITIGNNKGGVGKTMQCYQLACYLANKGNKVLVIDLDSQ-ANLSSSFGVQIqrtlvpewligdvgiedvivkpemvG----Klyk 82 
                              5899999*******************************75.5677777776656788888888888877775543221....1222 PP

                     ParA  62 ekkliPveakgikvmSigfllesedeavvwrGpmkskaikqllkdvewgelDyLiiDlPPGtgDeqltvaqklplagaviVttpqe 147
                              + ++iP + + +  +S  ++l+  +  v   +  k++++k+ l+d++ +  Dy++iD+PP  gDe +  ++ +  + ++i t  q+
  PHY93_02780|PHY93_02780  83 NIRIIPASRH-LANLSKLLILS--EVEVRKEAGRKERLLKKRLQDAKLD-FDYVVIDTPPMLGDELI--MSLVASNRVLIPTQAQD 162
                              3346666554.44555444444..67788889999***********986.9*************974..66777788999999999 PP

                     ParA 148 valadvkk 155
                               +++  + 
  PHY93_02780|PHY93_02780 163 YSIDGLEE 170
                              88776555 PP

>> ArsA_ATPase  Anion-transporting ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.5   1.8   7.9e-12   1.2e-08       1     135 [.       1     139 [.       1     230 [. 0.66

  Alignments for each domain:
  == domain 1  score: 34.5 bits;  conditional E-value: 7.9e-12
                              -EEEEEE.ESTTSSHHHHHHHHHHHHHHTTS-EEEEE-STTTHHHHHHTS--BSS-EEETSSEEE.EE--HHHHHHHHHCCHHGGG CS
              ArsA_ATPase   1 lkvilvg.GKGGVGKttvsaatavklsekgkkvllistDPAhslsDsfdqklgkeptkvkeNLsa.vEidpeveleeakqevqkee 84 
                              ++vi++g  KGGVGKt     +a++l++kg+kvl+i +D   +ls sf  ++++  t v e L   v i+      e+ ++ +k++
  PHY93_02780|PHY93_02780   1 MEVITIGnNKGGVGKTMQCYQLACYLANKGNKVLVIDLDSQANLSSSFGVQIQR--TLVPEWLIGdVGIEDVIVKPEMVGKLYKNI 84 
                              567777735*****************************************8765..667766654233333333333444444444 PP

                              SCCH...HHHHHHHHHH.HHHTSSTTHHHHHHHHHHHHHHH...CSSSSEEEEESBSC CS
              ArsA_ATPase  85 eall...gleeledvla.eelaslPGideilsfeellkyvk...eeeydvvvlDtaPT 135
                              + +    +l  l+++l  +e++      e+   e+llk      + ++d+vv+Dt+P 
  PHY93_02780|PHY93_02780  85 RIIPasrHLANLSKLLIlSEVE---VRKEAGRKERLLKKRLqdaKLDFDYVVIDTPPM 139
                              4333000333333332202222...235665555555433235578999999999995 PP

>> MipZ  ATPase MipZ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.7   0.0     4e-09     6e-06       2      41 ..       3      42 ..       2      53 .. 0.91
   2 !    9.4   0.0   0.00038      0.57      74     110 ..     103     139 ..      78     182 .. 0.77

  Alignments for each domain:
  == domain 1  score: 25.7 bits;  conditional E-value: 4e-09
                             EEEE--SSTTSSHHHHHHHHHHHHHTTT--EEEEE--TTT CS
                     MipZ  2 vivlgnekGGsGksttavhvavaLlkkGarvaaidldlrq 41
                             vi +gn+kGG Gk+  +  +a  L++kG +v +idld + 
  PHY93_02780|PHY93_02780  3 VITIGNNKGGVGKTMQCYQLACYLANKGNKVLVIDLDSQA 42
                             799**********************************864 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.00038
                              HHHHTTS-HHHHHHHHHHHHHHHHHH-SEEEEE--SS CS
                     MipZ  74 eeaeveeeeeaevaeleelvadleaeldfividtPGs 110
                              +e ev +e+  + + l++ ++d++ ++d++vidtP  
  PHY93_02780|PHY93_02780 103 SEVEVRKEAGRKERLLKKRLQDAKLDFDYVVIDTPPM 139
                              4567777777888889*******************53 PP

>> VirC1  VirC1 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.1   5.3e-06     0.008       1      44 [.       1      44 [.       1      50 [. 0.93
   2 !   10.4   0.0   0.00019      0.29      82     154 ..     127     199 ..     111     244 .. 0.68

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 5.3e-06
                    VirC1  1 mklitfcslkGGaGkttalmglcsalasdgkrvalfeadenrPl 44
                             m++it+   kGG Gkt     l + la++g++v + + d    l
  PHY93_02780|PHY93_02780  1 MEVITIGNNKGGVGKTMQCYQLACYLANKGNKVLVIDLDSQANL 44
                             899*******************************9999987666 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 0.00019
                    VirC1  82 eGfdyaladtrgG.sselnntiiassdllliPtmltpldid...ealatyryvielllaeelaipvailrqrvPvrr 154
                                fdy+++dt    + el   ++as + +liPt      id   e ++t+ ++ e   +e++ ++ +i+   v  rr
  PHY93_02780|PHY93_02780 127 LDFDYVVIDTPPMlGDELIMSLVAS-NRVLIPTQAQDYSIDgleELMDTFEIIKE---TENPGLEFSIIPSMVNPRR 199
                              469*******865267999999886.6789****999888744367788888877...6777777777666554443 PP

>> CBP_BcsQ  Cellulose biosynthesis protein BcsQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.8   0.1   8.6e-09   1.3e-05       1     129 [.       1     142 [.       1     164 [. 0.67

  Alignments for each domain:
  == domain 1  score: 24.8 bits;  conditional E-value: 8.6e-09
                 CBP_BcsQ   1 mkvlalqGvRGGvGttsllaaLawalhelgesvlviDlspdnlLrlhFnvdieqr..egwaraeldgapw...rqaaleyapgldl 81 
                              m+v+++   +GGvG+t     La  l + g++vlviDl ++  L  +F v+i+++    w    +  ++     + + ++ +++ +
  PHY93_02780|PHY93_02780   1 MEVITIGNNKGGVGKTMQCYQLACYLANKGNKVLVIDLDSQANLSSSFGVQIQRTlvPEWLIGDVGIEDVivkPEMVGKLYKNIRI 86 
                              899999999******************************************98862246776666555542213556678888888 PP

                 CBP_BcsQ  82 lPfGe....lnv....eekenlqqlaekaeallaalkelkeqyrwillDlpagasa 129
                              +P  +    l++    +e e  ++  +k+  l+++l+  k +++++++D p    +
  PHY93_02780|PHY93_02780  87 IPASRhlanLSKllilSEVEVRKEAGRKERLLKKRLQDAKLDFDYVVIDTPPMLGD 142
                              88765211111111112222222344455567777788888888888888875543 PP

>> Fer4_NifH  4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.1   3.2e-06    0.0048       8      59 ..      10      60 ..       3      90 .. 0.72

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 3.2e-06
                Fer4_NifH  8 kGGiGksttsqnlsaalaemgkkvlivGCDPkaDstrlllggkaqetvldtl 59
                             kGG+Gk++    l+  la++g+kvl++  D +a+     +g ++q+t++   
  PHY93_02780|PHY93_02780 10 KGGVGKTMQCYQLACYLANKGNKVLVIDLDSQANLS-SSFGVQIQRTLVPEW 60
                             9*****************************999876.567777777776433 PP

>> SRP54  SRP54-type protein, GTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.7   0.1   4.7e-05      0.07      11      39 ..      12      40 ..       3      42 .. 0.90
   2 ?    1.4   0.0      0.14   2.1e+02      65      92 ..     111     137 ..      89     161 .. 0.71

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 4.7e-05
                             TSSHHHHHHHHHHHHHHTTS-EEEEEEST CS
                    SRP54 11 GaGKTttlaKLaallkkegkkvllvaaDt 39
                             G+GKT  + +La +l ++g+kvl++ +D 
  PHY93_02780|PHY93_02780 12 GVGKTMQCYQLACYLANKGNKVLVIDLDS 40
                             9***********************99985 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.14
                              TSCHHHHHHHHHHHHHHTTSSEEEEEE- CS
                    SRP54  65 eadpaavakeavekakeekidvvlvDTa 92 
                              +     ++k+ ++ ak  ++d+v++DT 
  PHY93_02780|PHY93_02780 111 AGRKERLLKKRLQDAKL-DFDYVVIDTP 137
                              33566778888888888.78******96 PP

>> ATP_bind_1  Conserved hypothetical ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00013       0.2       6      36 ..      12      42 ..      10      56 .. 0.86
   2 ?    1.4   0.1      0.15   2.3e+02      82      99 ..     118     137 ..     109     141 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00013
               ATP_bind_1  6 GsGKttfvgalseilelrgrsvavvNLDPAa 36
                             G+GKt  + +l+ +l ++g +v v+ LD  a
  PHY93_02780|PHY93_02780 12 GVGKTMQCYQLACYLANKGNKVLVIDLDSQA 42
                             9***************************854 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.15
               ATP_bind_1  82 ldeeleke.ed.dyllfDtP 99 
                              l+++l++   d dy+++DtP
  PHY93_02780|PHY93_02780 118 LKKRLQDAkLDfDYVVIDTP 137
                              677776664446*******9 PP

>> LpxK  Tetraacyldisaccharide-1-P 4'-kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.1   6.2e-05     0.093      36      71 ..       2      36 ..       1      39 [. 0.94

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 6.2e-05
                             -EEEEEESBSS-HSHHHHHHHHHHHTTTS..-EEEE CS
                     LpxK 36 pVivVGNitvGGtGKTPlvialvkllqarglkvgvl 71
                              Vi +GN + GG GKT    +l+ +l+++g kv v+
  PHY93_02780|PHY93_02780  2 EVITIGN-NKGGVGKTMQCYQLACYLANKGNKVLVI 36
                             79*****.67***********************998 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   8.8e-05      0.13      11      73 ..      11     136 ..       6     163 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 8.8e-05
                   AAA_24  11 sgiGKTtlakel.......gpkplfidtekGlksldadkfpdie......................swedfldevvel........ 59 
                               g+GKT+++++l       g+k+l+id++   ++l    +++i+                                 +        
  PHY93_02780|PHY93_02780  11 GGVGKTMQCYQLacylankGNKVLVIDLDS-QANLSSSFGVQIQrtlvpewligdvgiedvivkpeM----------Vgklyknir 85 
                              69***************************9.557777777777777777777777755555542221..........233333346 PP

                   AAA_24  60 .....................................aaeladyktlviDt 73 
                                                                   ++++ d++ +viDt
  PHY93_02780|PHY93_02780  86 iipasrhlanlskllilsevevrkeagrkerllkkrlQDAKLDFDYVVIDT 136
                              667777777777778888888888888888888888877777888888887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (255 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       588  (0.032796); expected 358.6 (0.02)
Passed bias filter:                      533  (0.0297284); expected 358.6 (0.02)
Passed Vit filter:                        60  (0.00334653); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.55u 0.27s 00:00:00.82 Elapsed: 00:00:00.44
# Mc/sec: 1740.34
//
Query:       PHY93_02785|PHY93_02785  [L=376]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.2e-46  158.2   0.1    5.4e-46  157.8   0.1    1.1  1  Phytase-like    Esterase-like activity of phytase
  ------ inclusion threshold ------
      0.074   12.3   0.0       0.33   10.2   0.0    1.9  2  SdiA-regulated  SdiA-regulated


Domain annotation for each model (and alignments):
>> Phytase-like  Esterase-like activity of phytase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  157.8   0.1     6e-50   5.4e-46       2     286 .]      54     345 ..      53     345 .. 0.86

  Alignments for each domain:
  == domain 1  score: 157.8 bits;  conditional E-value: 6e-50
             Phytase-like   2 pvgglSglaydp....kdg..rfyalsDrgs....k.n..........sarfytlkldldadklgkveitevtplkdpdgapf... 63 
                               +gg+Sgl +++    +++   + +++Drg+    + n          ++++++l+++l   k +++e+t+ ++l++++g+p+   
  PHY93_02785|PHY93_02785  54 SLGGFSGLMLKEnpnpNKDelILETITDRGPngylTnNkerpfllpefPPQILSLRVNL---KDNNFEVTNILKLQKKNGKPLtgl 136
                              689*****999855543333456689****95433122222222222233444444444...99***************9999999 PP

             Phytase-like  64 ...................pkkglDpEgiavapdgtfwvssEggpfilefdadGkllrelplpaellpaaspdaglrrnrGfEgla 130
                                                 +++g+D+E+++ +++g++wv++E+ p++++fd++Gk+lr+l +p + lp+    +++++nrGfEg+a
  PHY93_02785|PHY93_02785 137 pnkrneenpidvmgfmyslDQDGIDSEALVSDDEGGYWVGEEYSPSLVHFDKHGKMLRRL-TPFNELPKMY--SERKSNRGFEGIA 219
                              999999999999999999899***************************************.5555556654..************* PP

             Phytase-like 131 lspdgrkLyaalEspldqdgakakeagsrlrilefdlatgktvgefaypleavaeaggngisdllalddgrllvlERdfsegtgnt 216
                                ++  k++ +l+spl  d++ a       ri+e dl+t kt ge+ y +e+    +  +i+d++ ++++++lv+E +   g+  +
  PHY93_02785|PHY93_02785 220 KDKN--KIFGFLQSPLPMDQNFA-------RIVEVDLDTLKTSGEYYYGFEK----NLDKIGDAVSIGNNKFLVIEQNGMKGPDSR 292
                              9999..9************9866.......*********66**********9....****************************** PP

             Phytase-like 217 krlykidlagatdvsgveslagadgvkpvdkellldlaklglp.ldniEGlavgprldgrrtlllvsDnNf 286
                              k ++ki+l+g                + v+kell+dl+++ ++ l++iEGlav     ++r+++lv+Dn+f
  PHY93_02785|PHY93_02785 293 KYIFKITLNGT--------------DNLVKKELLADLGTTPFKsLEKIEGLAV----IDSRKIALVNDNDF 345
                              *********99..............2579***********9999*********....999**********9 PP

>> SdiA-regulated  SdiA-regulated
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0   3.6e-05      0.33      67     129 ..     161     223 ..     152     231 .. 0.76
   2 ?   -1.6   0.0      0.14   1.3e+03      58      86 ..     316     344 ..     295     349 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 3.6e-05
           SdiA-regulated  67 dpEaveylgdgrlaivdEreqalvvvkvdadtksldaadlkklelglk.kakNkGfEGvaydar 129
                              d Ea+   ++g + + +E + +lv ++  + +   ++  +++l   ++ +++N+GfEG+a d++
  PHY93_02785|PHY93_02785 161 DSEALVSDDEGGYWVGEEYSPSLVHFDK-HGKMLRRLTPFNELPKMYSeRKSNRGFEGIAKDKN 223
                              7888888899999999999999988876.3344445555777654444499*********9986 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 0.14
           SdiA-regulated  58 rriplkgfkdpEaveylgdgrlaivdEre 86 
                               + p k ++ +E++++++  ++a+v++ +
  PHY93_02785|PHY93_02785 316 GTTPFKSLEKIEGLAVIDSRKIALVNDND 344
                              56677888888999999999998887765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (376 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       310  (0.0172904); expected 358.6 (0.02)
Passed bias filter:                      283  (0.0157845); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.26s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 2537.37
//
Query:       PHY93_05290|PHY93_05290  [L=441]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.3e-18   64.8   0.0    3.1e-17   62.6   0.0    2.1  1  YkuD_2    L,D-transpeptidase catalytic domain
  ------ inclusion threshold ------
      0.014   15.7   1.4      0.017   15.4   0.2    1.8  2  DUF5013   Domain of unknown function (DUF5013)
       0.15   12.8   1.5        0.6   10.9   0.2    2.5  3  DUF4397   Domain of unknown function (DUF4397)


Domain annotation for each model (and alignments):
>> YkuD_2  L,D-transpeptidase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.6   0.0   5.1e-21   3.1e-17      29     163 ..     243     410 ..     233     419 .. 0.85

  Alignments for each domain:
  == domain 1  score: 62.6 bits;  conditional E-value: 5.1e-21
                   YkuD_2  29 k.ltiiDfskpStekRlfviDlkkkkllletlvahGknsgen..................latkFsneegSkksslGfyktget.. 93 
                              + +ti D +k+ t++Rlf+++l+++++ ++ +  hG++  +                    +++Fsn+++S+ +  Gf+ tg++  
  PHY93_05290|PHY93_05290 243 HfITINDQNKEDTTNRLFILNLETNEV-TSYFTGHGEGDKKAirayspfnpghfkfnpfvKTDQFSNANESYLTPRGFFITGNRes 327
                              358999********************9.88899***985555677778888888999998899******************99833 PP

                   YkuD_2  94 ykgkhG....lslrLeGlekgiNdnAreRaivlHgadyvseefikkl.........grlgrSlGCpavseelakkiiellkeg 163
                               +  +G    + +rL+Gl++giNdn+++R+i +H +d  s+++++++         +     +GC  +++ +a kii+++k++
  PHY93_05290|PHY93_05290 328 RQPTKGktwrYRMRLYGLQAGINDNSFRREIHMHPYDTTSNQMLSSNtndspmtvfEAQPLTEGCTGLPPVYAGKIIDQIKGQ 410
                              34445511126778******************************776688888888777789******************986 PP

>> DUF5013  Domain of unknown function (DUF5013)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.4   0.2   2.8e-06     0.017      61     135 ..      58     129 ..      25     140 .. 0.67
   2 ?   -3.4   0.1       1.8   1.1e+04       6      29 ..     299     325 ..     297     340 .. 0.69

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 2.8e-06
                  DUF5013  61 eNgkiYQtvtLpaGkYelsvtvaeengqnsngtaylvvakgst.LPdlenletalaylsylkvakleaesektkal 135
                              + gki ++++Lp G+Y ++++va+ ++++++   + + ++ ++ L  l++  +a a+  + + a+ +a++e+ k++
  PHY93_05290|PHY93_05290  58 TLGKIQKKIKLPTGNYGIKIAVANGKNKDQS---FWIYYNTQKpLMKLSKATNAVADD-FENTATSSATIEEAKSA 129
                              559*********************9999987...444444444488777776666655.44444444444444444 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 1.8
                  DUF5013   6 pFarae...nknnrwgtlkdWkvneaa 29 
                              pF +++   n+n+++ t+++  ++ + 
  PHY93_05290|PHY93_05290 299 PFVKTDqfsNANESYLTPRGFFITGNR 325
                              777777777888888888877666554 PP

>> DUF4397  Domain of unknown function (DUF4397)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.2    0.0001       0.6      20     102 ..      49     134 ..      28     142 .. 0.69
   2 ?   -2.1   0.0         1   6.3e+03      60      94 ..     207     249 ..     197     270 .. 0.54
   3 ?   -0.7   0.0      0.39   2.3e+03      31      66 ..     282     317 ..     260     328 .. 0.74

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.0001
                  DUF4397  20 ngkkvlknvaygdvtgylqvpaGqytielnpagn.kikagttvallnvditleagteytvaavgsa...aalellvleddstkpaa 101
                              n kk+l + + g++++ +++p+G+y i++ +  n k+k ++  ++ n++ +l + ++ t a++++    a+ ++++ e +s+k ++
  PHY93_05290|PHY93_05290  49 NIKKILPKGTLGKIQKKIKLPTGNYGIKI-AVANgKNKDQSFWIYYNTQKPLMKLSKATNAVADDFentATSSATIEEAKSAKLTE 133
                              44666888889******************.44443445566666788889999999999999887776444555555556666655 PP

                  DUF4397 102 g 102
                              +
  PHY93_05290|PHY93_05290 134 D 134
                              5 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 1
                  DUF4397  60 tvallnvditleagteytvaavgsa........aalellvled 94 
                              ++al ++   + ++++ t+ a g+         ++  ++ ++d
  PHY93_05290|PHY93_05290 207 PTALRQALCFFDKNKNATFQAKGDPgksngltiGNEHFITIND 249
                              5555566566677777776666644433333433233333333 PP

  == domain 3  score: -0.7 bits;  conditional E-value: 0.39
                  DUF4397  31 gdvtgylqvpaGqytielnpagn.k.ikagttvallnv 66 
                              +++ +y ++++G  ++++np+ + + +++++++ l+  
  PHY93_05290|PHY93_05290 282 KAIRAYSPFNPG--HFKFNPFVKtDqFSNANESYLTPR 317
                              567799999999..999999888666666666655555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (441 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       679  (0.0378716); expected 358.6 (0.02)
Passed bias filter:                      406  (0.0226449); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.65u 0.25s 00:00:00.90 Elapsed: 00:00:00.49
# Mc/sec: 2727.95
//
Query:       PHY93_05990|PHY93_05990  [L=583]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.3e-10   40.8   3.3    2.3e-10   40.8   1.4    2.1  2  SPASM        Iron-sulfur cluster-binding domain
    5.3e-07   30.2   0.0    1.1e-06   29.1   0.0    1.6  1  Radical_SAM  Radical SAM superfamily
     0.0019   18.3   0.0     0.0049   17.0   0.0    1.7  1  Fer4_14      4Fe-4S single cluster domain
  ------ inclusion threshold ------
      0.094   12.2   0.5       0.61    9.6   0.0    2.5  4  Terminase_3  Phage terminase large subunit


Domain annotation for each model (and alignments):
>> SPASM  Iron-sulfur cluster-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0       2.5   1.1e+04      40      51 ..     382     393 ..     379     401 .. 0.76
   2 !   40.8   1.4   5.1e-14   2.3e-10       1      68 []     497     568 ..     497     568 .. 0.85

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 2.5
                    SPASM  40 leeIwnseeyqe 51 
                              + +I+ns+ ++e
  PHY93_05990|PHY93_05990 382 IINIINSQNFRE 393
                              668999999887 PP

  == domain 2  score: 40.8 bits;  conditional E-value: 5.1e-14
                    SPASM   1 CfapsrslfInsdGdVvpCcvdkktyveelklGnireesleeIwnseeyqefrksk..........kfplielCrnCp 68 
                              C++ ++++  +++G V pCc++      ++ +Gni+++ l+eIw+s +y + r+++          k++ + +C+ Cp
  PHY93_05990|PHY93_05990 497 CTVAFTYVRFEVNGSVKPCCIS------PFQMGNINDANLDEIWHSHRYYAWREKFlkiqttrfhlKDNEYGFCQICP 568
                              8888999999*********999......8**********************994334455566677777788999996 PP

>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.1   0.0   2.5e-10   1.1e-06       4     166 ..     216     400 ..     213     401 .. 0.84

  Alignments for each domain:
  == domain 1  score: 29.1 bits;  conditional E-value: 2.5e-10
                              ESEESS--TTTSCCTT................HHHHHHHHHHHHHHHHHHHHHHHHHTTSEEEEEE.SSTGGGSTTHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxx................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxx RF
              Radical_SAM   4 trgCnlrCsfCarpet................vrregrgrslsveeileevkelkaekgvkevilg.ggepllypdfvellerlak 72 
                              ++ C++ C+fC ++                  +  +   r ++ ++ le++++l  +  + +v +g +g+pl +p+  +++ r + 
  PHY93_05990|PHY93_05990 216 SNKCTHSCVFCGIWGPefiddmksrsngilseETVNFMNRQMPHQRALEILESL-PDT-IQTVQFGgSGDPLTHPNWLDIISRWRS 299
                              689***********99***************99999******************.788.888888757******999999999999 PP

                              TCCCTEEEEEEECSSCHG...HHHHHHHHHTT.-SEEEEEEBSSSHHHHHHHHT...CTSHHHHHHHHHHHHHHTTSET....EEE CS
                              xxxxxxxxxxxxxxxxxx...xxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxx....xxx RF
              Radical_SAM  73 lavpgiritvetngtlpd...eeklerllelg.vdrvslgleaaddekvlklmn...rghtfeevlealeklreagikr....vvd 147
                              +   g+ + v tn   p+    e+l  l + +    + ++l aa+ e + k ++    + tfe+v+ ++++  +++  +    +++
  PHY93_05990|PHY93_05990 300 R---GLIVEVLTNFEYPNhldLEVLHQLSKGRkNFSFLINLSAATAE-TYKAIRprqSNATFEKVISNIRYSSNLRKQDghgiSIT 381
                              8...5555555555555544599999999977999***********9.88888865677888999999999999987779888888 PP

                              EEEEBTTTSHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxx RF
              Radical_SAM 148 rivglpGendeeleellel 166
                              +i ++  +n++e ++++el
  PHY93_05990|PHY93_05990 382 IINIINSQNFREAVKMIEL 400
                              8888888888888887776 PP

>> Fer4_14  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.0   1.1e-06    0.0049       6      96 ..     217     319 ..     214     339 .. 0.73

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 1.1e-06
                  Fer4_14   6 sgCnlsCkgCd..................nketwkselgkpqteelleqilkdlkkseikiqglvltG.GePLhyenkkellklvk 72 
                              ++C++sC++C                    +et ++   +   ++ l +il +   + i  q + + G G+PL +   ++ l++++
  PHY93_05990|PHY93_05990 217 NKCTHSCVFCGiwgpefiddmksrsngilSEETVNFMNRQMPHQRAL-EIL-ESLPDTI--QTVQFGGsGDPLTH---PNWLDIIS 295
                              79******998899998888777777777777777777777777777.677.3444445..7899********88...999***** PP

                  Fer4_14  73 rlkeeypekkiwletn..gtleiele 96 
                              r + ++  + + + tn  +  +++le
  PHY93_05990|PHY93_05990 296 RWRSRG--LIVEVLTNfeYPNHLDLE 319
                              *****9..666666651144444444 PP

>> Terminase_3  Phage terminase large subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0      0.33   1.5e+03     115     140 ..      41      64 ..      31      69 .. 0.74
   2 ?   -2.8   0.0      0.83   3.7e+03      86     123 ..      92     129 ..      91     146 .. 0.67
   3 ?    9.6   0.0   0.00014      0.61     105     147 ..     158     201 ..     147     221 .. 0.83
   4 ?   -3.8   0.0       1.7   7.6e+03      53      69 ..     458     474 ..     446     487 .. 0.46

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.33
              Terminase_3 115 idelvetlrapeqekqiilsfNPvse 140
                              +++++++l   +q +++++s N  s+
  PHY93_05990|PHY93_05990  41 VKTIIDSLT--KQTSRLFFSINDTSK 64 
                              456666666..999*******98776 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 0.83
              Terminase_3  86 glddpaklkSik.nlsdlwlEEasevseedidelvetlr 123
                              g++ ++++ S    ls++ + Ea+++  ++ +++++ ++
  PHY93_05990|PHY93_05990  92 GVHSEHSIYSNIdSLSLIIF-EAQKLRFKNQKKIIPEFI 129
                              67777777775425555555.578888888788777776 PP

  == domain 3  score: 9.6 bits;  conditional E-value: 0.00014
              Terminase_3 105 EEasevseed.idelvetlrapeqekqiilsfNPvsesnwvykr 147
                              E + + +  + ++e+ e+lr + ++++i++sfN  + ++w  k+
  PHY93_05990|PHY93_05990 158 EGVPDPKRVNiFHEIFESLRIKGFKEKIYFSFNNPNLDEWNIKT 201
                              5555556666699********************88999998776 PP

  == domain 4  score: -3.8 bits;  conditional E-value: 1.7
              Terminase_3  53 kellselgltklfkilk 69 
                              k ++++ +  +  k+ k
  PHY93_05990|PHY93_05990 458 KTIIEDHQASDETKFEK 474
                              23333344444444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (583 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       537  (0.0299515); expected 358.6 (0.02)
Passed bias filter:                      405  (0.0225891); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.66u 0.28s 00:00:00.94 Elapsed: 00:00:00.48
# Mc/sec: 3661.65
//
Query:       PHY93_02790|PHY93_02790  [L=136]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      1e-43  148.5   2.3    1.2e-43  148.3   2.3    1.0  1  MscL      Large-conductance mechanosensitive channel, MscL


Domain annotation for each model (and alignments):
>> MscL  Large-conductance mechanosensitive channel, MscL
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  148.3   2.3   6.5e-48   1.2e-43       1     120 [.       1     136 []       1     136 [] 0.94

  Alignments for each domain:
  == domain 1  score: 148.3 bits;  conditional E-value: 6.5e-48
                     MscL   1 llkeFkefilrGnvidLAvgviiGaaftkiVtslvkdiimpliglllggvdfselkikl.................kaeaavlkyg 69 
                              +lkeFkef+l+Gnv+dLAvgviiG+af++iV+slv+diimp+ig+llg+vdf++l+i++                 ka+a+++kyg
  PHY93_02790|PHY93_02790   1 MLKEFKEFALKGNVVDLAVGVIIGSAFGAIVKSLVDDIIMPPIGYLLGNVDFTNLFIVIrdgkaipgpynsladatKAGAVMIKYG 86 
                              9**********************************************99**************************9999******* PP

                     MscL  70 afiqavinFliiafviFlivkainkkkkeeeeeeeaeekeeellteirdll 120
                               f ++v++F+iiaf +F+++k++n+ kk ee +++ +++e+++lteirdll
  PHY93_02790|PHY93_02790  87 VFANTVVSFIIIAFSVFILIKQLNRYKK-EEVAAPGPTAEVKVLTEIRDLL 136
                              ************************9644.455556677899********97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (136 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       667  (0.0372023); expected 358.6 (0.02)
Passed bias filter:                      390  (0.0217525); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 944.93
//
Query:       PHY93_02795|PHY93_02795  [L=330]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.064   13.5   1.0       0.22   11.8   0.0    2.5  3  Syntaxin-18_N  SNARE-complex protein Syntaxin-18 N-terminus
        6.2    7.1  10.4        7.9    6.7   4.2    3.4  3  SRI            SRI (Set2 Rpb1 interacting) domain


Domain annotation for each model (and alignments):
>> Syntaxin-18_N  SNARE-complex protein Syntaxin-18 N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.0       1.3   1.2e+04      28      45 ..      85     102 ..      81     104 .. 0.61
   2 ?   -3.0   0.1         1     9e+03      30      30 ..     170     170 ..     152     193 .. 0.52
   3 ?   11.8   0.0   2.5e-05      0.22       6      75 ..     236     307 ..     232     317 .. 0.71

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 1.3
            Syntaxin-18_N  28 kkrkkkrlkkskekdeFi 45 
                              k +k ++++++k++ +Fi
  PHY93_02795|PHY93_02795  85 KMKKINPESHPKKTVQFI 102
                              445566666666666776 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 1
            Syntaxin-18_N  30 r 30 
                               
  PHY93_02795|PHY93_02795 170 A 170
                              1 PP

  == domain 3  score: 11.8 bits;  conditional E-value: 2.5e-05
            Syntaxin-18_N   6 lFkasVktvk...asssskseekeakkrkkkrlkkskekdeFikeAkeilkhItkLrkfLleirkaYlnvrsh 75 
                              +F+++V +v       ++k    +   r+ ++ + s ek+e    A +++k+I +Lr+ L+++   Y +v ++
  PHY93_02795|PHY93_02795 236 KFQSCVDVVTtgtV-IDGKGGALRIGARNLNEARLSPEKEEMKLVAVDLCKNIEELRSCLIQVSVTYNSVVNS 307
                              68888888865431.333333334445677777778888888999**********************999443 PP

>> SRI  SRI (Set2 Rpb1 interacting) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.1     0.081   7.3e+02      41      69 ..      79      99 ..      77     112 .. 0.66
   2 ?    6.7   4.2   0.00088       7.9      17      83 ..     144     237 ..     135     239 .. 0.63
   3 ?   -3.6   0.0       1.5   1.3e+04      29      43 ..     273     287 ..     266     289 .. 0.75

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.081
                      SRI 41 kklvekElkkdksrdppkelseekkkkik 69
                             +++v+k +kk +         e++ kk+ 
  PHY93_02795|PHY93_02795 79 QIMVDKKMKKINP--------ESHPKKTV 99
                             6789999999664........44444444 PP

  == domain 2  score: 6.7 bits;  conditional E-value: 0.00088
                      SRI  17 vnvlnkYrkk.lkkedfKklakeltkklvekElkkdk.....................srdppk......el....seekkkkike 70 
                              + +l+++  + +kk++ K    +l + ++++    ++                     +    +      el     e+ +kk+++
  PHY93_02795|PHY93_02795 144 KDYLSPFGIStCKKDNTKANMDKLKQAILKRK-SSCEnisdeqaraprsdlytvtadsE----NdfklvkELiikiAESREKKVNT 224
                              56666666666777777777777777777665.33334666666655555555544321....02333444444559********* PP

                      SRI  71 fvkeYmekfgaky 83 
                              f k+Ym    +k+
  PHY93_02795|PHY93_02795 225 FFKDYMGTTEQKF 237
                              ******8766665 PP

  == domain 3  score: -3.6 bits;  conditional E-value: 1.5
                      SRI  29 kedfKklakeltkkl 43 
                              ke++K +a +l k +
  PHY93_02795|PHY93_02795 273 KEEMKLVAVDLCKNI 287
                              888888888887765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (330 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1118  (0.0623571); expected 358.6 (0.02)
Passed bias filter:                      514  (0.0286686); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.45
# Mc/sec: 2222.05
//
Query:       PHY93_02800|PHY93_02800  [L=105]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    4.6e-16   59.3   0.0      5e-16   59.1   0.0    1.0  1  Rhodanese  Rhodanese-like domain


Domain annotation for each model (and alignments):
>> Rhodanese  Rhodanese-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.1   0.0   2.8e-20     5e-16       4     106 ..       9      99 ..       6     100 .. 0.89

  Alignments for each domain:
  == domain 1  score: 59.1 bits;  conditional E-value: 2.8e-20
                Rhodanese   4 elkell.ekgkvallDvRppeeYekghIpgAvnvskdtlsrakkseapllelpeellelgidnkktvvvycdgggraaaaaallkk 88 
                              elke l ++++++++D+R+ +e+++ hI gA  +          + +++ +++e++l++   ++ ++v+ c++g r++ a ++l +
  PHY93_02800|PHY93_02800   9 ELKEKLdSNQNIQFIDCRENQEWNEAHISGATLI----------PLSEFEANYESVLKD---KNAQIVIQCRSGARSMKACMFLLS 81 
                              8999996677777*********************..........999999999999995...**************8888777777 PP

                Rhodanese  89 lGyknvsvldGGfkawke 106
                               G++++ +++GG+++w +
  PHY93_02800|PHY93_02800  82 KGFTDITNVEGGIMSWMQ 99 
                              **999***********75 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (105 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       443  (0.0247086); expected 358.6 (0.02)
Passed bias filter:                      340  (0.0189637); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.28s 00:00:00.73 Elapsed: 00:00:00.46
# Mc/sec: 680.09
//
Query:       PHY93_02805|PHY93_02805  [L=379]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   1.2e-100  336.6   0.0   1.4e-100  336.3   0.0    1.1  1  NadA      Quinolinate synthetase A protein


Domain annotation for each model (and alignments):
>> NadA  Quinolinate synthetase A protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  336.3   0.0  8.1e-105  1.4e-100       3     299 .]      43     379 .]      41     379 .] 0.94

  Alignments for each domain:
  == domain 1  score: 336.3 bits;  conditional E-value: 8.1e-105
                              HHHHHHH..HTEEEEEETTS-HHHHHH-SEEE-HHHHHHHCCC-SSSEEEEES-HHHHHHHHHHS.TTSEEE-SSTT---HHHCT- CS
                     NadA   3 ikelkke..knavilaHnYqedeiqeiadfvGDSleLarkaaeteaevivfcGVhFMaetakiLs.pekkvllpdleagCsladmi 85 
                              +k++k+e  +++v+l+H+Yq+d+++++ad++GDSl+La++aa+ +  +i+fcGVhFMaet ++L+ +++kv+lpdl+agCs+adm+
  PHY93_02805|PHY93_02805  43 LKKIKEElkDQVVVLGHHYQQDDVIRFADITGDSLQLAKEAANLDRPYIIFCGVHFMAETTDMLTkSHQKVILPDLRAGCSMADMA 128
                              67788888799******************************************************99******************* PP

                              -HHHHHHHHHH.........STTS-EEEESSS-HHHHTT-....SEEE-TTTHHHHH.HHS.S-SEEEEES-HHHHHHHHHHH... CS
                     NadA  86 taeeveelkee.........lpdaavvtYvNssaevKals....divcTSsnavkvv.eal.kekkilflPDqnLgryvakklg.. 154
                              + +e++++++          +p    vtY+N++a +Ka++    + +cTSsna+k++ +al +++k+lf+PDq+Lgr++  k+g  
  PHY93_02805|PHY93_02805 129 KRSEIDKAWAFmqksteakiIP----VTYINCAATLKAFVgdndGSICTSSNAEKIIrWALtQGEKLLFFPDQHLGRNTCFKMGip 210
                              *******998766665444333....9***************999****************66*********************** PP

                              ......................SEEEEESSSS-GCGGG--CHHHHHHHHCSTT-EEEE-TTS-HHHHHCSSEE--HHHHCCCCGT. CS
                     NadA 155 ......................ekkiilwkgaCsvHeefkaeeveelkeehpdakvlvHPEckeevveaadvvgSTsqiikavke. 217
                                                    ++k+ilw g+CsvH+ f+ ++v+++k++ p+++v+vHPEc+ ev++aad  gSTs+ii+++++ 
  PHY93_02805|PHY93_02805 211 isdmvvynpnmlnggltseqidNAKVILWYGFCSVHQGFTLDQVHATKKRDPEITVIVHPECNFEVTQAADDYGSTSYIIDQIAKa 296
                              **********************999********************************************************99887 PP

                              TSSSCEEEES-THHHHHHHHH-TTSEEE.....ECSSSSSTTGGG--HHHHHHHHHHT-S....B.----HHHHHHHHHHHHHHHH CS
                     NadA 218 seakefiigTelglverlkkeapekefialsaeaaeeavCetMkkitleklleaLeelee...ee.ikvdeevaekAkkalermle 299
                              +++ +f+igTe++lv+rl++e p+k++++ls     ++ C+tM++++++ ll++++++++    + i+v+e++a+++ kal+rml+
  PHY93_02805|PHY93_02805 297 PAGAKFAIGTEINLVNRLAREFPDKKIMSLSP---YQCLCTTMYRVRPRWLLASFRAIKDnkpINiITVPEDIARSSLKALNRMLD 379
                              99**************************7743...3799*************999988887774569*****************95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (379 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       747  (0.0416643); expected 358.6 (0.02)
Passed bias filter:                      562  (0.0313459); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.62u 0.27s 00:00:00.89 Elapsed: 00:00:00.48
# Mc/sec: 2392.82
//
Query:       PHY93_02810|PHY93_02810  [L=381]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.7e-52  177.9   0.0    3.4e-52  177.6   0.0    1.0  1  Aminotran_5      Aminotransferase class-V
    9.7e-05   21.8   0.0    0.00011   21.5   0.0    1.2  1  Beta_elim_lyase  Beta-eliminating lyase
  ------ inclusion threshold ------
      0.078   11.7   0.0       0.13   10.9   0.0    1.3  1  Pyridoxal_deC    Pyridoxal-dependent decarboxylase conserved 


Domain annotation for each model (and alignments):
>> Aminotran_5  Aminotransferase class-V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  177.6   0.0   5.7e-56   3.4e-52       1     363 [.       2     358 ..       2     364 .. 0.93

  Alignments for each domain:
  == domain 1  score: 177.6 bits;  conditional E-value: 5.7e-56
                              EEEBTTTS----HHHHHHHHHHHHCTCCSSSSSSSHHHHHHHHHHHHHHHHHHHHHT-STGGGEEEESSHHHHHHHHHHHCCCC-T CS
              Aminotran_5   1 iyldsaAttqkpqeVldalqeyytdynanvhrsvhhlgkeatkaveearekvaelinaeseeeiiftsGtteainlvalslarslk 86 
                              iy d+++++++ q+V d l   +++   +  +++h lg+++   +e+ar+  a++++a+  +++if sG+te+i+++ ++++ + k
  PHY93_02810|PHY93_02810   2 IYADYNGSAPLSQDVRDYLVTRFEKGPFANPNAIHYLGTKTLMGMENARAVCAKILGADF-DQVIFNSGSTEGISTIFHTILSNEK 86 
                              799****************999998765555****************************8.********************999** PP

                              TTSEEEEETTSHGGGTHHHHHHHHHHTEEEEEEEBETTSCBEGGGHHHH-...-TTEEEEEEESBETTTTEB--HHHHHHHHHHTT CS
              Aminotran_5  87 pgdeivvteaehhanlvpwqelakrtgakvkvipldeegeldldelekll...nektklvaithvsnvtGtiqpveeigklakkkg 169
                              +++ i+++ +eh a ++++q  a ++g++vk +p++++g +dl++l k +   + ++++vai++++n+tG+iqp  ei++l+ k++
  PHY93_02810|PHY93_02810  87 NKKIIIISGIEHSAIVNTAQYYA-TRGFTVKCLPVNPDGIVDLETLSKWIkedSANIAMVAIMAANNETGVIQPYVEINSLCLKNN 171
                              ****************9999999.78************************55557899**************************** PP

                              -EEEEE-TTTTTTS---HHHHTESEEEEETTTTTSSTT-EEEEEEHHHHHTS..SS.STTSEEEEETTEEEEHCTTGGGS.SS--H CS
              Aminotran_5 170 alvlvDaaqavghipidvkklgvDflafsghKllgPtGiGvlyvrkellekleplllggemveevsleettfaeapskfeaGTpnv 255
                              + +l+D +q +g+ p+++k+ ++D ++ sghKl + tG+G+l v++   e+l pl +gg+       +e++        ++GT n 
  PHY93_02810|PHY93_02810 172 IPYLCDTTQFIGKTPFNFKESNIDYAVCSGHKLGALTGTGILLVKN--PENLLPLIIGGG-------QEKG-------HRGGTQNY 241
                              **********************************************..99999*******.......8888.......89****** PP

                              HHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCTSTTEEEES.-B-CTCBSEEEEEETTCSHHHHHHHHHHTTEEEEEE-TT CS
              Aminotran_5 256 agiiglgaaleyleeigleaiekhekelaeyllerlkslpgvrlygpdkaerrasivsfnfkgvhaedvatlLdeegIavrsGhhc 341
                               g   l+ al  + e ++++i++  ++  e   +  ++ p+v ++g ++ +r a+++ ++++g+h + v+  L++ +I v++ ++c
  PHY93_02810|PHY93_02810 242 LGNETLAVALTTI-EKNFANINALTEKRIEFESKMKAAFPEVVIIG-ENSPRLATTTYISYPGIHGQAVQIELESLDIFVTTSSAC 325
                              *************.999******999999888888888********.799************************************ PP

                              T......HHHHHHTT.S.........-EEEEE--TTS CS
              Aminotran_5 342 a......qplmkrlale.........gtvRaSlyiyn 363
                              +            +  +         g+vR+Sl++++
  PHY93_02810|PHY93_02810 326 SdnspvtS----KVLKAmgtrddvgrGVVRISLCLNS 358
                              *8844332....2222245668999********9876 PP

>> Beta_elim_lyase  Beta-eliminating lyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.0   1.9e-08   0.00011      42     171 ..      54     181 ..       7     275 .. 0.80

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 1.9e-08
                              HHHTT-S..EEEEES-HHHHHHHHHHHH-.-TTEEEEEETT..-HHHHSSTTHHHHCC--EEEEE-EBTTTBE-HHHHHHHS--S- CS
          Beta_elim_lyase  42 aelfgke..aalfvpqGtaAnsillkill.qrgeevivtep..ahihfdetgaiaelagvklrdlknkeaGkmdlekleaaikevg 122
                              a+++g++  +++f    t + s  + ++l + ++++i+ +    h     t ++ +  g +++ l+ + +G +dle l + ike++
  PHY93_02810|PHY93_02810  54 AKILGADfdQVIFNSGSTEGISTIFHTILsNEKNKKIIIISgiEHSAIVNTAQYYATRGFTVKCLPVNPDGIVDLETLSKWIKEDS 139
                              555554421444444445555556655553444444444444589999999999999***************************44 PP

                              TTS-EEEEEEEESSBTTTTTB---HHHHHHHHHHHHHCT-EEEEEETTH CS
          Beta_elim_lyase 123 aheekiklisltvTnntagGqvvsleelrevaaiakkygiplhlDgARf 171
                                 ++i+++ +  +nn   G + +     e+  ++ k++ip ++D + f
  PHY93_02810|PHY93_02810 140 ---ANIAMVAIMAANNE-TGVIQPY---VEINSLCLKNNIPYLCDTTQF 181
                              ...6************6.6666554...678899***********9876 PP

>> Pyridoxal_deC  Pyridoxal-dependent decarboxylase conserved domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   2.2e-05      0.13     148     285 ..      91     221 ..      80     225 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 2.2e-05
                              EEEETTS-HHHHHHHHHHT-E...EEEE--BTTTBB-HHHHHHHHHHHHCTT.EEEEEEEEBS-TTT-BB--HHHHHHHHHHCT-E CS
            Pyridoxal_deC 148 lytsdqahssvekaalvlgvk...lrvipldengklrgaalekaieedkekGlipffvvatlGttvlgaFddlkelgdicekydlw 230
                              +  s   hs++ + a++   +   ++ +p++++g++  ++l k i+ed ++  i  +v+  +    +g      e++ +c k +++
  PHY93_02810|PHY93_02810  91 IIISGIEHSAIVNTAQYYATRgftVKCLPVNPDGIVDLETLSKWIKEDSAN--IA-MVAIMAANNETGVIQPYVEINSLCLKNNIP 173
                              444455788888888887666666***************************..66.8999999999******************99 PP

                              EEEE-TTGGGGGGSGGGGG.GGTTGGGESEEEEECCCCTS--SS-EEEEESSCCGC CS
            Pyridoxal_deC 231 lHvDAAyaGsaficpeirh.llkgieradSitvnphKlllvlldcsalivkdkeal 285
                                 D     + fi +   + + + i++a    +++hKl ++l + + l+vk+ e+l
  PHY93_02810|PHY93_02810 174 YLCDT----TQFIGKTPFNfKESNIDYA---VCSGHKL-GALTGTGILLVKNPENL 221
                              88886....4566665444355555555...5677775.46677777777777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (381 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       463  (0.0258241); expected 358.6 (0.02)
Passed bias filter:                      403  (0.0224776); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.62u 0.25s 00:00:00.87 Elapsed: 00:00:00.46
# Mc/sec: 2471.71
//
Query:       PHY93_02815|PHY93_02815  [L=230]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.12   12.5   0.1       0.56   10.4   0.0    2.1  2  DUF5494   Family of unknown function (DUF5494)


Domain annotation for each model (and alignments):
>> DUF5494  Family of unknown function (DUF5494)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0      0.33   5.9e+03      60      73 ..      28      41 ..      26      45 .. 0.78
   2 ?   10.4   0.0   3.1e-05      0.56       7      70 ..     161     221 ..     156     226 .. 0.69

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 0.33
                  DUF5494 60 vgisinrltsrlih 73
                              gisi   ts l++
  PHY93_02815|PHY93_02815 28 TGISIVTATSGLMK 41
                             58999999988875 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 3.1e-05
                  DUF5494   7 ddrdtgkilrnrsrnrfniyhyvstvkkvketerellrltqtwkai.rlisynsvgisinrltsr 70 
                              d +   k+l+++s++++ i  yv ++ kvk+   +    t    ai  +i   ++g  in + +r
  PHY93_02815|PHY93_02815 161 DSKIDKKLLQEKSKEKYIINDYVLSILKVKKVALK--NATP--TAIhSFIIVHTLGNEINEVMAR 221
                              6666789**********************986432..2222..2331345555666666666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (230 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       605  (0.0337442); expected 358.6 (0.02)
Passed bias filter:                      379  (0.0211389); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.44
# Mc/sec: 1576.12
//
Query:       PHY93_02820|PHY93_02820  [L=287]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (287 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       520  (0.0290033); expected 358.6 (0.02)
Passed bias filter:                      323  (0.0180155); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 1881.83
//
Query:       PHY93_02825|PHY93_02825  [L=375]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.039   14.7   0.3      0.079   13.7   0.3    1.4  1  DUF4259   Domain of unknown function (DUF4259)


Domain annotation for each model (and alignments):
>> DUF4259  Domain of unknown function (DUF4259)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.3   4.4e-06     0.079     107     134 ..      15      42 ..       3      43 .. 0.91

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 4.4e-06
                  DUF4259 107 rraldrvlaeksElkelWeeseeleeWk 134
                              ++a+dr+l+++sE +  W+e e+  eW 
  PHY93_02825|PHY93_02825  15 KEAIDRLLQNSSEIHRIWNEGEDSREWN 42 
                              68*********************9***5 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (375 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       503  (0.0280551); expected 358.6 (0.02)
Passed bias filter:                      349  (0.0194657); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.60u 0.22s 00:00:00.82 Elapsed: 00:00:00.44
# Mc/sec: 2554.99
//
Query:       PHY93_02830|PHY93_02830  [L=732]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.9e-39  135.9   1.5    2.6e-39  135.4   0.1    1.9  3  PrkA      PrkA serine protein kinase C-terminal domain
    4.4e-24   85.1   0.6    9.3e-20   70.8   0.4    2.6  2  AAA_PrkA  PrkA AAA domain
     0.0012   18.1   0.0     0.0028   16.9   0.0    1.6  1  DUF815    Protein of unknown function (DUF815)
  ------ inclusion threshold ------
      0.063   13.2   0.1       0.42   10.5   0.0    2.2  2  Rad17     Rad17 P-loop domain
      0.078   13.5   0.1       0.39   11.2   0.1    2.1  2  ABC_tran  ABC transporter
      0.078   12.4   0.1       0.17   11.3   0.1    1.5  1  SMC_N     RecF/RecN/SMC N terminal domain
       0.08   12.5   0.0       0.21   11.1   0.0    1.6  1  AAA_7     P-loop containing dynein motor region
       0.12   12.8   0.0       0.32   11.4   0.0    1.7  1  AAA_16    AAA ATPase domain


Domain annotation for each model (and alignments):
>> PrkA  PrkA serine protein kinase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0         2   4.6e+03     213     249 ..      21      57 ..       7      62 .. 0.61
   2 ?   -3.1   0.0       2.2   4.9e+03      86     101 ..     201     216 ..     166     229 .. 0.63
   3 !  135.4   0.1   1.2e-42   2.6e-39      13     257 .]     456     728 ..     446     728 .. 0.86

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 2
                     PrkA 213 kdllklis.stktpdkeqqkkveevverLvekfgYcea 249
                               +++ +++ ++k+p +e + ++e++ + L +++g +e+
  PHY93_02830|PHY93_02830  21 LSFSDYMEiFEKDPKNECRPTYEFIRDML-KHYGVNED 57 
                              35666666667677777777766655554.77776665 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 2.2
                     PrkA  86 ekyleflevvreeyde 101
                              +  +++le+v++ y +
  PHY93_02830|PHY93_02830 201 KGDERLLESVKKSYLY 216
                              3333444444444433 PP

  == domain 3  score: 135.4 bits;  conditional E-value: 1.2e-42
                     PrkA  13 pdsleeedvkeLr.......eeaee......reGmsGispRyvikilsealssseakeekcinpldvlealeeglkehevis.... 81 
                              p++l+ e+++ L+       +   e      +eG+ G+spR+++ i+ ++   s    ++ +++++vle+l++++ ++++++    
  PHY93_02830|PHY93_02830 456 PEKLDIESRQILKqgheeilN---EyindslYEGKFGLSPRDLKHIIYKLS--SL---HENVSFVEVLEHLQQLILKKSEYDflnm 533
                              666666667777644433331...03344559******************3..34...7789********************9997 PP

                     PrkA  82 ..eeerekyleflevvreeydervkkevqeAllyseeeqieelvenYldhveayikkekvkdpiTgeelepderflrsiEeqigis 165
                                + + +++ ++le+++e   +++++e +++l++++++++e+ +++Y+++v+a ik+ek+k++ Tg+ ++pd+ f++++E  i+++
  PHY93_02830|PHY93_02830 534 apQADYHNPGRYLELIKEHNLNFFDRELRNSLGLVDDRSYEDYIKRYIENVNALIKGEKIKNTTTGKFVDPDDYFIKEFELAINLK 619
                              65555599999*************************************************************************** PP

                     PrkA 166 eeakkdFRrevikelaasalaregkkidyts.....ierlkeal....ekklfedvkdllklis.stk........tpdkeqqkkv 233
                              e+ +k++R+ +i++l+a+ l+++gk i yt+      +rl+e++    +k +++  k+l+ + + ++k          ++e +k++
  PHY93_02830|PHY93_02830 620 ED-PKTYRSLLISKLGAYFLDHPGKPIAYTTvfpdlADRLQESFrieqKKVIIAISKNLIFFEAeFSKnivpghgtPLSDESRKQI 704
                              *6.****************************98888778887778887777777788888766666669999999555******** PP

                     PrkA 234 eevverLvekfgYceacArevleY 257
                              ++v+++L  ++gY+e  A  +l++
  PHY93_02830|PHY93_02830 705 RAVLKNLETRYGYTEGAAMSLLNF 728
                              ******************999886 PP

>> AAA_PrkA  PrkA AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.8   0.0   3.8e-05     0.085      65     115 ..      75     124 ..      21     131 .. 0.69
   2 !   70.8   0.4   4.1e-23   9.3e-20     111     353 ..     165     423 ..     157     428 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 3.8e-05
                 AAA_PrkA  65 GleetiekiveyfraaaqrleerkqilyllGPvggGksslverlkklleaa 115
                              G  ++ + + + + + ++++ ++k  ++l+GP g+ ksslv++l k le++
  PHY93_02830|PHY93_02830  75 GQHKVQHALAQNLVNFSEEGFNNKF-ILLIGPNGSSKSSLVKKLIKGLEDY 124
                              4444444444445555555555555.5699*****************9986 PP

  == domain 2  score: 70.8 bits;  conditional E-value: 4.1e-23
                 AAA_PrkA 111 lleaapiyalegsPvfeePlhlipeelrkk.leeeygi............rlegllsPlatk...rleeefgGdiek....fkvek 176
                               le++ i a+  s ++++Pl lip+e r++ le+++                 g+ls  + +    l +++ G+ ++    +++e+
  PHY93_02830|PHY93_02830 165 YLEDKEISAIMPSELKDHPLLLIPKEYRQEmLEKTLKGderllesvkksyLYRGDLSKRNRMiydALLKNYKGKHQEvlkhIRIER 250
                              588999999***************9998761566664456667877877445799998765422278899**98654111278999 PP

                 AAA_PrkA 177 ilfsilkrigiakvePgdennqdisalvGkvdirkleeysendpdaysysGalnranrGllefvemfkadikvlhplltatqegny 262
                               + s++  ++  ++eP    +  + +++    ++ l   s +  + +s++G+   anrG+le+ +++k +++    ll     g++
  PHY93_02830|PHY93_02830 251 FTISKRYSTSAVTIEPQIHVDAHMQQITMDKRLQSLPP-SLQSLNLFSLQGEAVMANRGVLEYSDLLKRPLDAYKYLLMTMETGTI 335
                              99999999999999*98877777777776655555544.556789****************************9999999999999 PP

                 AAA_PrkA 263 ksteklslipfdgiilahsnesewkkfksnkknealldrivvvkvPyclrvseekkiyekllkeseladahiaPetlevlarfsil 348
                              +      l   d   +  sne   + fk+  + +++  r   v vPy l v +e+kiy   ++  +  ++h +P++l+ l+ f+i+
  PHY93_02830|PHY93_02830 336 NLQ--GILTELDIFFIGTSNEIHLAAFKQHPDFNSFKGRFNFVTVPYLLDVRDEEKIYIEQVEGLKD-RSHFSPHALNALCLFAIM 418
                              984..4566778899*******************************************998888776.89**************** PP

                 AAA_PrkA 349 trlke 353
                              +rl+ 
  PHY93_02830|PHY93_02830 419 SRLRV 423
                              ***85 PP

>> DUF815  Protein of unknown function (DUF815)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0   1.2e-06    0.0028      29      77 ..      72     121 ..      53     127 .. 0.84

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 1.2e-06
                   DUF815  29 dLvgidkqkealventeqfle.glpannvLLwGarGtGKSslvkallney 77 
                               + g  k ++al +n  +f e g + + +LL+G  G+ KSslvk l++ +
  PHY93_02830|PHY93_02830  72 PVYGQHKVQHALAQNLVNFSEeGFNNKFILLIGPNGSSKSSLVKKLIKGL 121
                              567889999**********8626777789***************998765 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   0.00019      0.42      24      69 ..      77     121 ..      54     134 .. 0.69
   2 ?   -0.4   0.0      0.43   9.6e+02      95     125 ..     504     534 ..     464     563 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00019
                    Rad17  24 hkkkieevkewlkadvLesrkkriLLisGPsGCgkstvvkvLskel 69 
                              hk + +++ + l   + e  +++ +L+ GP G +ks  vk L k l
  PHY93_02830|PHY93_02830  77 HKVQ-HALAQNLVNFSEEGFNNKFILLIGPNGSSKSSLVKKLIKGL 121
                              5443.34455555555566667789999**************9976 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 0.43
                    Rad17  95 ltekesrflsqiesfkeleLkdakylklqkl 125
                               ++ + +f+  +e  + l Lk+++y  l++ 
  PHY93_02830|PHY93_02830 504 SLHENVSFVEVLEHLQQLILKKSEYDFLNMA 534
                              3445556889999999999999999888765 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.1   0.00018      0.39      11      37 ..      97     123 ..      87     134 .. 0.78
   2 ?   -3.6   0.0       6.6   1.5e+04      39      73 ..     485     521 ..     477     572 .. 0.66

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00018
                              TSEEEEEESTTSSHHHHHHHHTTSS-- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  11 gekvaivGenGaGKStLlkllagllkp 37 
                              ++ + ++G+nG+ KS+L+k l++ l++
  PHY93_02830|PHY93_02830  97 NKFILLIGPNGSSKSSLVKKLIKGLED 123
                              67789*************987766555 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 6.6
                              EEEEEETTCEGGG..B-HHHCCHCEEEE-SS--S-TT CS
                              xxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  39 eGeilldgkdlke..qeleslrkeigvlpqepqlfpe 73 
                              eG+  l  +dlk+   +l+sl++++++++  ++l++ 
  PHY93_02830|PHY93_02830 485 EGKFGLSPRDLKHiiYKLSSLHENVSFVEVLEHLQQL 521
                              5555556666666555666666666666555555544 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.1   7.7e-05      0.17      20      42 ..      93     115 ..      81     124 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 7.7e-05
                              EETTSSEEEEEESTTSSHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N  20 lpfsksftaivGpNGSGKsnlld 42 
                                f+++f  ++GpNGS Ks+l+ 
  PHY93_02830|PHY93_02830  93 EGFNNKFILLIGPNGSSKSSLVK 115
                              56999***************986 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   9.2e-05      0.21      32      59 ..      96     123 ..      89     137 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 9.2e-05
                    AAA_7  32 nkkpvllvGptGtGKtviikdllkkldk 59 
                              n+k +ll+Gp G++K++++k+l+k l++
  PHY93_02830|PHY93_02830  96 NNKFILLIGPNGSSKSSLVKKLIKGLED 123
                              57889*******************9983 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00014      0.32       2      48 ..      73     121 ..      72     146 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00014
                   AAA_16   2 lvGReeeleqL.lsalervrsgrp..elvllsGesGvGKsslvrellral 48 
                              ++G  + +++L +++++   +g      +ll+G+ G+ Ksslv++l + l
  PHY93_02830|PHY93_02830  73 VYGQHKVQHALaQNLVNFSEEG-FnnKFILLIGPNGSSKSSLVKKLIKGL 121
                              5677777788844444444444.4599****************9998754 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (732 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       619  (0.0345251); expected 358.6 (0.02)
Passed bias filter:                      457  (0.0254894); expected 358.6 (0.02)
Passed Vit filter:                        62  (0.00345808); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.74u 0.28s 00:00:01.02 Elapsed: 00:00:00.45
# Mc/sec: 4850.02
//
Query:       PHY93_02835|PHY93_02835  [L=357]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.5e-20   73.2   0.0    5.2e-20   72.1   0.0    1.5  1  PseudoU_synth_2  RNA pseudouridylate synthase
  ------ inclusion threshold ------
      0.091   12.9   0.0       0.15   12.2   0.0    1.3  1  FAM72            FAM72 protein


Domain annotation for each model (and alignments):
>> PseudoU_synth_2  RNA pseudouridylate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.1   0.0   5.8e-24   5.2e-20       1     158 [.     107     260 ..     107     262 .. 0.90

  Alignments for each domain:
  == domain 1  score: 72.1 bits;  conditional E-value: 5.8e-24
          PseudoU_synth_2   1 dlvvvnKPagvpvqpeakdgsekekettatssraeeekkelklvhRLDkatsGllllAksseaanklakafeerkvrKkYlalvfg 86 
                              dl+v+ KPa + ++p +     ++  + at   + + ++ ++  hR+D++tsG+l+l+k++++an+++ +fe+  ++K Yl + + 
  PHY93_02835|PHY93_02835 107 DLIVISKPAFMSTHPAG-----RHVFNCATVFFEMKYEQTIHSLHRIDRETSGILMLGKNPKIANEMMAKFENDDIKKCYLFIAR- 186
                              689**************.....777777777778899999********************************************8. PP

          PseudoU_synth_2  87 apeeeegaikkkiskd.......tekqegarrkaeeldgkkavtylkvlksgsseksakvslveleletGrkhQiRvhl 158
                              a+e + g+ ++  +++        ++  +  + ++ l+gk a+t + +l++      +++      ++tGr hQiRvh 
  PHY93_02835|PHY93_02835 187 ANEFDRGEKEFIANERmsspgegLKRVYVEHYPENSLEGKHARTFFFILERV-----NGYVIGIACPQTGRQHQIRVHA 260
                              77777777777777778888999999999999********************.....777777777************7 PP

>> FAM72  FAM72 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   1.7e-05      0.15      83     131 ..     120     168 ..     115     181 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 1.7e-05
                    FAM72  83 apckscllscnnGhfwmfhskavsavnrldssgvnlllwGnlpeteese 131
                               p    ++ c    f m + +++++++r+d +++ +l+ G+ p+  ++ 
  PHY93_02835|PHY93_02835 120 HPAGRHVFNCATVFFEMKYEQTIHSLHRIDRETSGILMLGKNPKIANEM 168
                              566677899**********************************965443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (357 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       489  (0.0272742); expected 358.6 (0.02)
Passed bias filter:                      353  (0.0196888); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.59u 0.26s 00:00:00.85 Elapsed: 00:00:00.47
# Mc/sec: 2291.37
//
Query:       PHY93_05995|PHY93_05995  [L=466]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.3e-06   28.9   3.9    0.00013   22.4   0.9    3.3  2  Radical_SAM  Radical SAM superfamily
    5.5e-05   23.3   0.8       0.28   11.3   0.3    3.2  3  Fer4_14      4Fe-4S single cluster domain
  ------ inclusion threshold ------
      0.036   14.3   0.8       0.37   11.1   0.8    2.6  1  Fer4_12      4Fe-4S single cluster domain


Domain annotation for each model (and alignments):
>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.0   0.1      0.01        60     102     159 ..      29      85 ..       9      89 .. 0.81
   2 !   22.4   0.9   2.1e-08   0.00013       1     148 [.     135     314 ..     135     333 .. 0.75

  Alignments for each domain:
  == domain 1  score: 4.0 bits;  conditional E-value: 0.01
                              -SEEEEEEBSSSHH.HHHHHHTCTSHHHHHHHHHHHHHHTTSETEEEEEEEBTTTSHHH CS
                              xxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM 102 vdrvslgleaadde.kvlklmnrghtfeevlealeklreagikrvvdrivglpGendee 159
                              + +v+l+l+ +++  +++  +  + t+ee++++  +l++  +k  ++r ++l+G+  +e
  PHY93_05995|PHY93_05995  29 WFQVTLHLQNGHNHsCHHPNT-HQTTLEELKDNPSTLHNTHFK-KKIRKLMLEGVRPKE 85 
                              789***********5555555.99*******************.899999999987766 PP

  == domain 2  score: 22.4 bits;  conditional E-value: 2.1e-08
                              EEEESEESS--TTTSCCTT........................HHHHHHHHHHHHHHHHHHHHHHHH................... CS
                              xxxxxxxxxxxxxxxxxxx........................xxxxxxxxxxxxxxxxxxxxxxxx................... RF
              Radical_SAM   1 vvvtrgCnlrCsfCarpet........................vrregrgrslsveeileevkelka................... 43 
                              v++++ Cn++C +C  + +                                           ++l +                   
  PHY93_05995|PHY93_05995 135 VSFSNSCNFKCAYCLPHISsswmkelkqygeyqttskhhafayL------------------EQLGKmpiidtslnpyvkafweww 202
                              57999************99******6666666555555555441..................333322222223333334444455 PP

                              ...HTTSEEEEEESSTGGGSTTHHHHHHHHHHTCCCTEEEEEEECSSCHG.........HHHHHHHHHTT-SEEEEEEBSSSHHHH CS
                              ...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.........xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM  44 ...ekgvkevilgggepllypdfvellerlaklavpgiritvetngtlpd.........eeklerllelgvdrvslgleaaddekv 117
                                 +k+ k++ ++ggep++ pd ++ le  a + +p++++++ +n ++             k+   ++    +++ +l+++ +   
  PHY93_05995|PHY93_05995 203 pslYKDLKTFRITGGEPFMVPDTYRVLEYVADNPNPELSLAINSNLGVEQrlidkaalsIGKIMDSKNVKDITIYTSLDTWGEQ-- 286
                              5556668888899***********************************879998887777777777777799999999999997.. PP

                              HHHHTCTSHHHHHHHHHHHHHHTTSETEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM 118 lklmnrghtfeevlealeklreagikrvvdr 148
                               ++++ g + + +l++l ++ e+ +++  + 
  PHY93_05995|PHY93_05995 287 AEYIRYGLNMDLFLRNLYYILEK-LPE--VQ 314
                              88888999999999999999998.884..33 PP

>> Fer4_14  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.3   0.3   4.7e-05      0.28       6      35 ..     139     170 ..     135     182 .. 0.80
   2 !    8.6   0.0   0.00032       1.9      51      92 ..     212     251 ..     204     280 .. 0.81
   3 ?   -3.2   0.0       1.5   8.9e+03      67      86 ..     332     351 ..     327     373 .. 0.55

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 4.7e-05
                  Fer4_14   6 sgCnlsCkgCd..nketwkselgkpqteelle 35 
                              ++Cn++C  C+   +++w++el+++ ++++ +
  PHY93_05995|PHY93_05995 139 NSCNFKCAYCLphISSSWMKELKQYGEYQTTS 170
                              89*********988889***888887776654 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.00032
                  Fer4_14  51 lvltGGePLhyenkkellklvkrlkeey.pekkiwletngtle 92 
                                +tGGeP++    ++ +++++++ ++  pe++  +++n  +e
  PHY93_05995|PHY93_05995 212 FRITGGEPFMV---PDTYRVLEYVADNPnPELSLAINSNLGVE 251
                              569******77...99999999999998889999999987666 PP

  == domain 3  score: -3.2 bits;  conditional E-value: 1.5
                  Fer4_14  67 llklvkrlkeeypekkiwle 86 
                              +l+++ +lk+++++ + +  
  PHY93_05995|PHY93_05995 332 FLEFILELKNKFKKSHSKYD 351
                              66666666666643332222 PP

>> Fer4_12  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.8   6.1e-05      0.37      11      80 ..     137     233 ..     130     247 .. 0.60

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 6.1e-05
                  Fer4_12  11 fvsgCnlsCkgCfnketw...sfk.............................sgkeft.kelleeiiedlkk.esi..egltllG 60 
                              f + Cn++C++C         + +                             +    + ++  +  +e  +  + +  + + ++G
  PHY93_05995|PHY93_05995 137 FSNSCNFKCAYCLPHISSswmK-ElkqygeyqttskhhafayleqlgkmpiidT----SlNPYVKAFWEWWPSlY-KdlKTFRITG 216
                              7789********8765543350.2445555555555555555555533322211....12333333344443331.24599***** PP

                  Fer4_12  61 GEPllpenaeallelvkevk 80 
                              GEP++   +++ ++++++v 
  PHY93_05995|PHY93_05995 217 GEPFM---VPDTYRVLEYVA 233
                              *****...777777777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (466 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       609  (0.0339673); expected 358.6 (0.02)
Passed bias filter:                      380  (0.0211947); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.63u 0.26s 00:00:00.89 Elapsed: 00:00:00.45
# Mc/sec: 3086.96
//
Query:       PHY93_02840|PHY93_02840  [L=642]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.1e-27   94.2   0.0      1e-26   93.5   0.0    1.4  1  DNA_gyraseB      DNA gyrase B
    2.1e-20   73.1   0.4    1.8e-19   70.1   0.0    2.7  3  Methyltransf_11  Methyltransferase domain
    1.3e-17   64.3   0.1    1.7e-16   60.7   0.0    2.9  3  Methyltransf_25  Methyltransferase domain
    2.1e-15   57.0   0.0    6.3e-15   55.4   0.0    1.7  2  Methyltransf_23  Methyltransferase domain
    3.5e-15   56.1   0.0    8.7e-15   54.8   0.0    1.8  1  Methyltransf_31  Methyltransferase domain
      6e-13   49.3   0.3    1.6e-12   47.9   0.3    1.8  1  HATPase_c        Histidine kinase-, DNA gyrase B-, and HSP90-
    2.5e-10   41.0   0.0      8e-10   39.3   0.0    1.9  1  Methyltransf_12  Methyltransferase domain
    3.3e-10   39.7   0.0    7.4e-10   38.6   0.0    1.5  1  Ubie_methyltran  ubiE/COQ5 methyltransferase family
    6.8e-05   22.8   0.0    0.00015   21.7   0.0    1.5  1  Methyltransf_8   Hypothetical methyltransferase
     0.0001   22.2   0.1     0.0002   21.2   0.1    1.5  1  HATPase_c_3      Histidine kinase-, DNA gyrase B-, and HSP90-
    0.00033   20.5   0.0    0.00064   19.5   0.0    1.5  1  PCMT             Protein-L-isoaspartate(D-aspartate) O-methyl
      0.005   16.3   0.0      0.012   15.0   0.0    1.6  1  PrmA             Ribosomal protein L11 methyltransferase (Prm
  ------ inclusion threshold ------
      0.015   14.4   0.0      0.038   13.1   0.0    1.5  1  DREV             DREV methyltransferase
      0.017   14.7   0.0      0.039   13.5   0.0    1.5  1  MTS              Methyltransferase small domain
      0.018   14.7   0.0      0.044   13.4   0.0    1.6  1  MetW             Methionine biosynthesis protein MetW
      0.026   14.2   0.0      0.048   13.3   0.0    1.3  1  NodS             Nodulation protein S (NodS)
      0.029   14.2   0.0       0.25   11.1   0.0    2.1  2  Thy1             Thymidylate synthase complementing protein
       0.24   11.1   2.1        1.4    8.6   0.4    2.9  2  N6_N4_Mtase      DNA methylase


Domain annotation for each model (and alignments):
>> DNA_gyraseB  DNA gyrase B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   93.5   0.0     1e-29     1e-26       1     172 [.     215     383 ..     215     385 .. 0.92

  Alignments for each domain:
  == domain 1  score: 93.5 bits;  conditional E-value: 1e-29
              DNA_gyraseB   1 GlkdfveelnkdkkelikevlsvegekaveevievevalqwtssysenilsFvNniatpeGGtHvdgfksaltktlneyakkkkll 86 
                              G++  +++  +  ++l++e l+++ +   ++ +  +  ++wt++ ++ i s+vN ++t  GGtHv++ +s+l + l++ +++    
  PHY93_02840|PHY93_02840 215 GIAGILDKALAHTQKLFNEHLQFKFQR--DD-LSFDCVFNWTTENNTLIKSYVNGVSTFLGGTHVNAYRSGLRRGLKSLISEYFPG 297
                              566666666777789999999999999..88.***********9*************************************99665 PP

              DNA_gyraseB  87 kkkeekisgediregltavvsvkipepqFeGQTKekLgnsevksivekvvseeleafleenkeeakkilekaveaakareaarkar 172
                              + +  +++ ++ ++g++a++++k+  p+FeGQTK++L+n e+  ++e+ +s ++  f+++n++ +  i e++   +k+r +a++  
  PHY93_02840|PHY93_02840 298 QWDGLALEIDEALDGVFAIINCKLLHPNFEGQTKSRLTNFEIVDLIENEISGQVIGFFKQNSKNLLMIFERLQGLRKSRSNAKRVA 383
                              666679**************************************************************************999865 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0       5.9   5.9e+03      60      74 ..     176     190 ..     146     200 .. 0.68
   2 !   70.1   0.0   1.8e-22   1.8e-19       1      96 []     440     529 ..     440     529 .. 0.97
   3 ?   -1.6   0.0       4.4   4.4e+03      45      67 ..     556     578 ..     539     589 .. 0.76

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 5.9
                              T-EEEEEEES-CCC- CS
          Methyltransf_11  60 nsfDlvvssevlhhv 74 
                              nsfD+ +++ +++ +
  PHY93_02840|PHY93_02840 176 NSFDFNYIHASIEEL 190
                              566666666555554 PP

  == domain 2  score: 70.1 bits;  conditional E-value: 1.8e-22
                              EEET-TTSHHHHHHHHTTSEEEEEES-HHHHHHHHHHCCHHT-EEEETTEECCCTSS-TT-EEEEEEES-CCC-CCHHHHHHHHHH CS
          Methyltransf_11   1 LdvGcGtGrlaealakrgarvvgvDlskemlklakekaseeglkvefvvadaeklpfednsfDlvvssevlhhvedpekalkeiaR 86 
                              Ldv cG+G + + +++++++++g+Dl++em++l+k++  e       +++++ ++pf+++sfDlv+ +evlh ++ pe  ++ei R
  PHY93_02840|PHY93_02840 440 LDVCCGSGVVGASFKHKVKKIIGLDLTPEMVNLSKTRLDEV------HQGNVYNIPFAEKSFDLVCTREVLHLLPYPENPVSEIFR 519
                              89*************999*************9999999886......7************************************** PP

                              HEEEEEEEEE CS
          Methyltransf_11  87 vLkpgGllvi 96 
                              vLkpgG +v+
  PHY93_02840|PHY93_02840 520 VLKPGGQFVV 529
                              *******986 PP

  == domain 3  score: -1.6 bits;  conditional E-value: 4.4
                              EEETTEECCCTSS-TT-EEEEEE CS
          Methyltransf_11  45 vefvvadaeklpfednsfDlvvs 67 
                                f+++d+++l +  + +Dlv+ 
  PHY93_02840|PHY93_02840 556 NMFQEEDFRNLLLGAGFVDLVMT 578
                              3579999****9*******9986 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0       5.4   5.4e+03      58      71 ..     239     252 ..     217     261 .. 0.65
   2 !   60.7   0.0   1.7e-19   1.7e-16       2      97 .]     440     525 ..     439     525 .. 0.95
   3 ?   -1.4   0.0       4.1   4.1e+03      50      72 ..     558     580 ..     543     607 .. 0.81

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 5.4
                              BSSSTTTEEEEEEE CS
          Methyltransf_25  58 lpfedgsfDlvvss 71 
                              ++ +d sfD+v+ +
  PHY93_02840|PHY93_02840 239 FQRDDLSFDCVFNW 252
                              33356688888765 PP

  == domain 2  score: 60.7 bits;  conditional E-value: 1.7e-19
                              EEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTTTEEEEESBCCGBSSSTTTEEEEEEESTGGGSSHHHHHHHHH CS
          Methyltransf_25   2 LdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeeglnvefvqgdaedlpfedgsfDlvvssgalhhlsdedlekalk 87 
                              Ld++cG+G + + + +++  +k++g+D+++em++  ++r++      e++qg++ ++pf+++sfDlv+ + +lh+l+ ++  + ++
  PHY93_02840|PHY93_02840 440 LDVCCGSGVVGASFKHKV--KKIIGLDLTPEMVNLSKTRLD------EVHQGNVYNIPFAEKSFDLVCTREVLHLLPYPE--NPVS 515
                              9****************9..9*******************4......8*********************888***99777..66** PP

                              HHHHHEEEEE CS
          Methyltransf_25  88 eiarvLkpgG 97 
                              ei+rvLkpgG
  PHY93_02840|PHY93_02840 516 EIFRVLKPGG 525
                              *********9 PP

  == domain 3  score: -1.4 bits;  conditional E-value: 4.1
                              EEESBCCGBSSSTTTEEEEEEES CS
          Methyltransf_25  50 fvqgdaedlpfedgsfDlvvssg 72 
                              f++ d+++l + +g +Dlv+   
  PHY93_02840|PHY93_02840 558 FQEEDFRNLLLGAGFVDLVMTEI 580
                              78899999999999999999843 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0       5.9   5.8e+03     137     164 ..     157     184 ..     132     185 .. 0.65
   2 !   55.4   0.0   6.3e-18   6.3e-15      19     161 ..     432     573 ..     417     576 .. 0.84

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 5.9
          Methyltransf_23 137 vpagrhisffsarslkelleeaGlevve 164
                               + g++i f+  + + + ++ +++++++
  PHY93_02840|PHY93_02840 157 KNPGTKITFYPDKKIFKEFNSFDFNYIH 184
                              3334888888888888888888888775 PP

  == domain 2  score: 55.4 bits;  conditional E-value: 6.3e-18
          Methyltransf_23  19 klraggrvLdiGcGtGillevlrengfsvtgvDlspeaveiaekakkaqkdqfdeqeaaepqgkfdlIvlrevlehvpdppellrq 104
                              +l++++  Ld+ cG+G +  +++ ++++++g Dl pe+v++  k++  + +q +  ++++ +++fdl++ revl+ +p+p+  ++ 
  PHY93_02840|PHY93_02840 432 TLNEDAIALDVCCGSGVVGASFKHKVKKIIGLDLTPEMVNLS-KTRLDEVHQGNVYNIPFAEKSFDLVCTREVLHLLPYPENPVSE 516
                              3789999*********************************97.55555555555789999************************** PP

          Methyltransf_23 105 iatllkpgGylllseplaslkedrllldwlylvpagrhi.sffsarslkelleeaGle 161
                              i++ lkpgG +++  +l  ++ d+++++  +  ++  +i ++f+++++++ll +aG+ 
  PHY93_02840|PHY93_02840 517 IFRVLKPGGQFVVGQILPFSEVDSAWMYRIFKKKQ-PLIfNMFQEEDFRNLLLGAGFV 573
                              ****************9988888886664444444.4556****************96 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.8   0.0   8.7e-18   8.7e-15       6     113 ..     438     533 ..     433     608 .. 0.88

  Alignments for each domain:
  == domain 1  score: 54.8 bits;  conditional E-value: 8.7e-18
          Methyltransf_31   6 rvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielArenaqklgldnveFeqgdieeleklledekfDlilsnevlnaladpd 91 
                                lD+ CG+G  +  + +++   ++++G+D ++e+++l++++++       e++qg++ +++  +++++fDl++++evl++l+ p+
  PHY93_02840|PHY93_02840 438 IALDVCCGSGVVGASFKHKV---KKIIGLDLTPEMVNLSKTRLD-------EVHQGNVYNIP--FAEKSFDLVCTREVLHLLPYPE 511
                              579**************887...67****************955.......9**********..99******************** PP

          Methyltransf_31  92 kileeiervlkpggilliedpr 113
                              +   ei+rvlkpgg +++ ++ 
  PHY93_02840|PHY93_02840 512 NPVSEIFRVLKPGGQFVVGQIL 533
                              *****************98776 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.9   0.3   1.6e-15   1.6e-12       4     111 ..      28     170 ..      26     171 .. 0.80

  Alignments for each domain:
  == domain 1  score: 47.9 bits;  conditional E-value: 1.6e-15
                              HHHHHHHHHHHHHHHHHHS..TTTEEEEEEEEEETEEEEEEEESSSSSTTHHHT..............GTCSTTCHHCSTCHTSTS CS
                HATPase_c   4 krLrqiisnlvdNavkfat..kageieveikaseddlvisveDnGiGipkedlk..............klfekfsqddstkrgggg 73 
                              +++ +++ +lv Na+++a   +a+eiev++         sveDnG+Gi+ e+                +++ kf +  s+  + g 
  PHY93_02840|PHY93_02840  28 DGVNHLLFELVHNAIDEAIlgTASEIEVNVG----SDFCSVEDNGRGISTEINRefnisnvqlvltklHSGSKFKK-TSNHFTAGL 108
                              5788*************33347778888877....46789**********99999*******99996555559999.9999999** PP

                              SSHHHHHHHHHHHHTTTEEEE........................EEETTTEEEEEEEEESS CS
                HATPase_c  74 tGlGlsivkklvelmgGeiwv........................esepgrGttftftlple 111
                              +G+Gls v++l++ ++ ei+                         +s+++ Gt++tf+++++
  PHY93_02840|PHY93_02840 109 HGVGLSCVNALSTELKIEIKNatglffqtykegsaieklvqsadeKSNKNPGTKITFYPDKK 170
                              **********77756655555888888888888888888876655444455******99875 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.3   0.0   8.1e-13     8e-10       1      99 []     440     527 ..     440     527 .. 0.86

  Alignments for each domain:
  == domain 1  score: 39.3 bits;  conditional E-value: 8.1e-13
          Methyltransf_12   1 LeiGcGtGsllralleklpdieytgvDispsaiedakeklakrennnnnnvelealdlldldggssfDlvvasnvlhhlkdirevl 86 
                              L++ cG+G + + +  k   ++++g+D+ p++++  k++l + ++ n+ n+ + +         +sfDlv   +vlh l+ ++  +
  PHY93_02840|PHY93_02840 440 LDVCCGSGVVGASFKHK--VKKIIGLDLTPEMVNLSKTRLDEVHQGNVYNIPFAE---------KSFDLVCTREVLHLLPYPENPV 514
                              89***************..**************7777777777765544444442.........29******************** PP

          Methyltransf_12  87 dnirklLkpgGrl 99 
                              ++i ++LkpgG++
  PHY93_02840|PHY93_02840 515 SEIFRVLKPGGQF 527
                              ***********96 PP

>> Ubie_methyltran  ubiE/COQ5 methyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.6   0.0   7.4e-13   7.4e-10      47     164 ..     435     545 ..     420     566 .. 0.84

  Alignments for each domain:
  == domain 1  score: 38.6 bits;  conditional E-value: 7.4e-13
                              -TTEEEEES-TT-HHHHHHHHHHHHHHEEEEEES-HHHHHHHHHHHHHHTSSTEEEEE--TTT-TTS-T-EEEEEEES-GGG-S-H CS
          Ubie_methyltran  47 rgakvlDvagGtgDlafklsdsvgekgkvvvlDinenmLkvgekklkeegkinieflqanaeeLpfeddsfDvvtvsfGlrnvtDk 132
                              + a +lDv++G+g + +++ ++v+   k+++lD+ ++m++ ++ +l e         q+n  ++pf ++sfD+v     l  ++  
  PHY93_02840|PHY93_02840 435 EDAIALDVCCGSGVVGASFKHKVK---KIIGLDLTPEMVNLSKTRLDEV-------HQGNVYNIPFAEKSFDLVCTREVLHLLPYP 510
                              55678**************99987...79****************9974.......589999************************ PP

                              HHHHHHHHHHEEEEEEEEE...EEE----SHHHHH CS
          Ubie_methyltran 133 lkaLkeayrvlkpGGrlvv...lefskvelpllsq 164
                              ++ + e++rvlkpGG++vv   l fs+v    +  
  PHY93_02840|PHY93_02840 511 ENPVSEIFRVLKPGGQFVVgqiLPFSEVDSAWMYR 545
                              *****************964447777777665544 PP

>> Methyltransf_8  Hypothetical methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.7   0.0   1.5e-07   0.00015      42     159 ..     398     532 ..     381     561 .. 0.78

  Alignments for each domain:
  == domain 1  score: 21.7 bits;  conditional E-value: 1.5e-07
                              HHHHHHHHHHHCTSSS-HHHHHHHHHC.......TS-TTS-EEEES-TT-HHH.HH--S-..EEEEESS-..SS......TTEEES CS
           Methyltransf_8  42 dlyhkgfrsqvkkWPenPldviirklk.......kkkdnlvvadlGcGeakia.eavrekekvrsfdlva..vn......ervvac 111
                              ++y k f ++ k W    + +  ++l          +++ +  d+ cG   +  + +++ +k++ +dl++  vn      ++v   
  PHY93_02840|PHY93_02840 398 EVYKKQFGERSKTWHSSAVWITDQELLkahadhfTLNEDAIALDVCCGSGVVGaSFKHKVKKIIGLDLTPemVNlsktrlDEVHQG 483
                              6899999999999999999998888764666665556667778******9997366778899******863333334444689999 PP

                              -TTS-S--TT-EEEEEEES---S.S-HHHHHHHHHHHEEEEEEEEEEEE CS
           Methyltransf_8 112 dlakvPledesvdvavfclslmg.tnladflkeanrvlkvGGllkvaev 159
                              ++ ++P +++s d++     l      ++++ e+ rvlk+GG + v ++
  PHY93_02840|PHY93_02840 484 NVYNIPFAEKSFDLVCTREVLHLlPYPENPVSEIFRVLKPGGQFVVGQI 532
                              9************98875444330345899**************99877 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.2   0.1     2e-07    0.0002       7      83 ..      34     118 ..      29     154 .. 0.72

  Alignments for each domain:
  == domain 1  score: 21.2 bits;  conditional E-value: 2e-07
              HATPase_c_3   7 laelvdNsld....AdaenvkievnknrgktgeivieDdGkGmsee.....elkn...al.rlatsskeakr.kstslGkkGiGlk 78 
                              l+elv N++d    + a +++++v  +      +++eD+G G+s e     ++ n   +l +l++ sk +k+ ++ + G +G+G  
  PHY93_02840|PHY93_02840  34 LFELVHNAIDeailGTASEIEVNVGSDF-----CSVEDNGRGISTEinrefNISNvqlVLtKLHSGSKFKKTsNHFTAGLHGVG-L 113
                              89********988889999999999975.....**********98766644444552222234444444332134448999999.4 PP

              HATPase_c_3  79 lAsls 83 
                              + +  
  PHY93_02840|PHY93_02840 114 SCVNA 118
                              44444 PP

>> PCMT  Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.5   0.0   6.4e-07   0.00064      53     127 ..     415     486 ..     359     561 .. 0.72

  Alignments for each domain:
  == domain 1  score: 19.5 bits;  conditional E-value: 6.4e-07
                              TEEE--HHHHHHHHHHTT--TT-EEEEES-TTSHHHHHHHHHHCTTCEEEEEESBHHHHHHHHHHHHHCTTCSEE CS
                     PCMT  53 natiSaphmvalalellelkkgarvLevGsGsGyltavlarlvgekgrvvsierikelveeakrnlkkldlenvi 127
                               + i    +  +  ++ +l++ a +L+v +GsG   a + + v+   ++++++ ++e+v+ +k +l + ++ nv 
  PHY93_02840|PHY93_02840 415 AVWITDQELLKAHADHFTLNEDAIALDVCCGSGVVGASFKHKVK---KIIGLDLTPEMVNLSKTRLDEVHQGNVY 486
                              345555666667778999*********************99887...578*****************99999885 PP

>> PrmA  Ribosomal protein L11 methyltransferase (PrmA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   1.2e-05     0.012     159     259 ..     433     530 ..     422     540 .. 0.72

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 1.2e-05
                     PrmA 159 vkegeevlDvGtGSGiLaiaaakLgakkvvavDiDevAvkvakeNaelNkveaklevalseell.keekadvivaNILaevl...i 240
                              ++e++  lDv +GSG+   a+ k   kk++++D+ +  v+ +k   +l +v++   v+   +++ +e+++d++    + + l    
  PHY93_02840|PHY93_02840 433 LNEDAIALDVCCGSGVVG-ASFKHKVKKIIGLDLTPEMVNLSKT--RLDEVHQGN-VY---NIPfAEKSFDLVCTREVLHLLpypE 511
                              45677899********98.999******************9996..566677644.32...2221346778777665555553223 PP

                     PrmA 241 elaedikklvkeggllilS 259
                              + +++i +++k+gg++++ 
  PHY93_02840|PHY93_02840 512 NPVSEIFRVLKPGGQFVVG 530
                              5566777777777777765 PP

>> DREV  DREV methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   3.8e-05     0.038      80     194 ..     422     537 ..     418     556 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 3.8e-05
                     DREV  80 kllaiekespasdqedkklldlGaGdGeitkrvaptfeevyatelsetmrdrlkkkkynvlsalelqe...tdvkldlilclnlld 162
                               ll+++  +++   ed   ld+  G G +    +  ++++   +l+ +m + l+k + + + + ++ +   ++  +dl+ + ++l 
  PHY93_02840|PHY93_02840 422 ELLKAHADHFTL-NEDAIALDVCCGSGVVGASFKHKVKKIIGLDLTPEMVN-LSKTRLDEVHQGNVYNipfAEKSFDLVCTREVLH 505
                              566666555554.678889*****************************987.55555555544443331114678*********** PP

                     DREV 163 rcfdplklledirsalepngrvivalvlPvsh 194
                                  p + + +i  +l+p g+ +v  +lP+s+
  PHY93_02840|PHY93_02840 506 LLPYPENPVSEIFRVLKPGGQFVVGQILPFSE 537
                              *****************************986 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   3.9e-05     0.039      27      76 ..     431     478 ..     422     501 .. 0.74

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 3.9e-05
                              CHCCTCSEEEEET-TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHH CS
                      MTS  27 lpkelsgkvlDlGcGaGvlgaalakespeaevtlvdvdarAlesakenle 76 
                              ++ +++  +lD++cG Gv+ga+++++ ++  +  +d   + ++++k+ l 
  PHY93_02840|PHY93_02840 431 FTLNEDAIALDVCCGSGVVGASFKHKVKK--IIGLDLTPEMVNLSKTRLD 478
                              455556679***************99988..7777877777777776665 PP

>> MetW  Methionine biosynthesis protein MetW
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   4.4e-05     0.044      14     101 ..     436     520 ..     430     529 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 4.4e-05
                     MetW  14 gsrvldlGcGdGellellkeekqvdgrGleldeegvaecvakGlsviqgdldkdlenfedksfdyvvlsqtlqatrnpkevldell 99 
                               +  ld+ cG G +   +k+ k  +  Gl+l  e v+ + ++  +v+qg++ +    f++ksfd+v     l  + +p++ ++e++
  PHY93_02840|PHY93_02840 436 DAIALDVCCGSGVVGASFKH-KVKKIIGLDLTPEMVNLSKTRLDEVHQGNVYN--IPFAEKSFDLVCTREVLHLLPYPENPVSEIF 518
                              55679**********99977.666789***********************976..579**********************999999 PP

                     MetW 100 ri 101
                              r+
  PHY93_02840|PHY93_02840 519 RV 520
                              98 PP

>> NodS  Nodulation protein S (NodS)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   4.8e-05     0.048      45     146 ..     437     531 ..     423     543 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 4.8e-05
                     NodS  45 adalevGcaaGalterlapyckrltvvdvveeaiararervkesshiswivsdvqqfs.tdekfdlivvaevlyyiedvaelraav 129
                              a al+v c +G +   +    k++  +d+ +e ++ +++r++e      ++ +v ++  +++ fdl+   evl+ +   +     v
  PHY93_02840|PHY93_02840 437 AIALDVCCGSGVVGASFKHKVKKIIGLDLTPEMVNLSKTRLDE-----VHQGNVYNIPfAEKSFDLVCTREVLHLLPYPE---NPV 514
                              458****************************************.....456677777614567**********9987665...689 PP

                     NodS 130 rnlvsllapdgqlvfGs 146
                               ++ ++l+p+gq+v G 
  PHY93_02840|PHY93_02840 515 SEIFRVLKPGGQFVVGQ 531
                              99************995 PP

>> Thy1  Thymidylate synthase complementing protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.0      0.48   4.8e+02      33      72 ..     214     253 ..     184     257 .. 0.77
   2 ?   11.1   0.0   0.00025      0.25      61     187 ..     493     619 ..     480     620 .. 0.71

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.48
                              CCHHHHHHHHHHTTGGGGGGG-EEEEEEEEEEHHHHHHHT CS
                     Thy1  33 ekkeklikkllkhghgsplehasftfeiegvSravlrqlv 72 
                              + ++++++k l+h  +   eh +f+f+ +++S  ++  ++
  PHY93_02840|PHY93_02840 214 NGIAGILDKALAHTQKLFNEHLQFKFQRDDLSFDCVFNWT 253
                              3445788888899999999********9999998877665 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 0.00025
                              EEEEHHHHHHHTT-TTSEEEE--TTTSGCCC.TCBS--GGGCC.HHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHGGGSBTTBEEE CS
                     Thy1  61 egvSravlrqlvrHRiasfsqqSqRYvessk.eafvippeieqkeeleelyeeamekaleaykelleagvarEdaryvLPlatktk 145
                              +++  +++r++++  ++  + +S  ++  ++  +fv+ + i   +e++   ++ m +++++ + l+ +  ++Ed+r +L  a  ++
  PHY93_02840|PHY93_02840 493 KSFDLVCTREVLHLLPYPENPVSEIFRVLKPgGQFVVGQ-ILPFSEVD---SAWMYRIFKKKQPLIFNMFQEEDFRNLLLGAGFVD 574
                              555566666666666666666666666666655555543.23222333...46788888888888888889*************** PP

                              EEEE.EEHHHHHH..HHHHHSSTTS-HHHHHHHHHHHHHHHHHSH CS
                     Thy1 146 lvvt.mNlrsLlh..flelracsrAqwEirelaeemleelkkvaP 187
                              lv+t +N+ + +   + +  +    q Eire+ ++  +e++kv+P
  PHY93_02840|PHY93_02840 575 LVMTeINVWENIDvwINSYETTALHQHEIREIYQNASNEIRKVHP 619
                              **98789999988423333444458*******************9 PP

>> N6_N4_Mtase  DNA methylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   0.4    0.0014       1.4     179     230 ..     422     474 ..     345     475 .. 0.75
   2 ?    0.1   0.1      0.56   5.6e+02      40      55 ..     515     530 ..     503     621 .. 0.64

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.0014
                              HHHHHHHHHHS.-TT-EEEETT-TTTHHHHHHHHTT-EEEEEESSHHHHHHHH CS
              N6_N4_Mtase 179 allerlIklst.kkgdivlDpFaGSGtTavaakelgrkfiGieieeeyvelae 230
                              +ll+ + +++t +++ i lD  +GSG  ++  k   +k iG +  +e v+l++
  PHY93_02840|PHY93_02840 422 ELLKAHADHFTlNEDAIALDVCCGSGVVGASFKHKVKKIIGLDLTPEMVNLSK 474
                              556666655551567889*****************************999876 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.56
                              HHHHHHEEEEEEEEEE CS
              N6_N4_Mtase  40 kevrrvLkddgsifin 55 
                              +e+ rvLk++g +++ 
  PHY93_02840|PHY93_02840 515 SEIFRVLKPGGQFVVG 530
                              6677777777766653 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (642 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       666  (0.0371465); expected 358.6 (0.02)
Passed bias filter:                      508  (0.028334); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              18  [number of targets reported over threshold]
# CPU time: 0.74u 0.29s 00:00:01.03 Elapsed: 00:00:00.47
# Mc/sec: 4102.68
//
Query:       PHY93_02845|PHY93_02845  [L=136]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    7.9e-08   32.8   1.7      2e-06   28.3   1.7    2.0  1  Rubrerythrin  Rubrerythrin
  ------ inclusion threshold ------
      0.011   15.4   0.0      0.014   15.1   0.0    1.2  1  DDE_Tnp_1     Transposase DDE domain
      0.042   13.8   0.1        1.2    9.0   0.0    2.1  2  Ferritin      Ferritin-like domain


Domain annotation for each model (and alignments):
>> Rubrerythrin  Rubrerythrin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.3   1.7   3.3e-10     2e-06       1     134 [.      12     133 ..      12     135 .. 0.94

  Alignments for each domain:
  == domain 1  score: 28.3 bits;  conditional E-value: 3.3e-10
                              HHHHHHHHHHHHHHHHHHHHHHCHH.TT-HHHHHHHHHHHHHHHHHHHHHHHHHHHCSTTHH.B.SSBBS-------TTGGHHHHH CS
             Rubrerythrin   1 eiLekAiagEssarrlYkelaekak.egypqiaelFeelAeeEreHakilnklleklepelelevkekvreyaeakpkflttaknL 85 
                              e+L+kA+  E + + +Yk++ +  + eg+++i++++++++e   +  +   ++l++++                 +  +    +n+
  PHY93_02845|PHY93_02845  12 ENLKKAFEDEAKLYFRYKFFLSVSEyEGLGKISKTLRDFSEGSLDNVNGSLDFLRNFKDPSS-------------QVPIGNSSQNI 84 
                              89***************************************999999999999999777777.............56788999*** PP

                              HHHHHHHHHHHHCHHHHHHHHHHHTTSHHHHHHHHHHHHHHHHHHHHHH CS
             Rubrerythrin  86 eeaiegayaeeeemyrfyeelaekegneeakklfkklaeaEkkHeerlr 134
                               ++++ ++++  e+y++++++a++eg+++++ +f++l +  ++H  rl+
  PHY93_02845|PHY93_02845  85 ASILQTEIEQANEIYPEMAKIARDEGFSDVASWFDTLEKLKRHHVSRLK 133
                              **************************************99999999987 PP

>> DDE_Tnp_1  Transposase DDE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.1   0.0   2.3e-06     0.014      76     110 ..     101     136 .]      79     136 .] 0.84

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 2.3e-06
                DDE_Tnp_1  76 kgklvlaDaGYa.saelldtleekgvdyiirlkknt 110
                              +   + +D G++  a+++dtle+ + ++++rlk n+
  PHY93_02845|PHY93_02845 101 EMAKIARDEGFSdVASWFDTLEKLKRHHVSRLKENQ 136
                              6778899*****99*******************996 PP

>> Ferritin  Ferritin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.4   0.0     0.011        67       2      52 ..      12      62 ..      11      98 .. 0.80
   2 ?    9.0   0.0   0.00021       1.2      17      51 ..      98     132 ..      81     135 .. 0.85

  Alignments for each domain:
  == domain 1  score: 3.4 bits;  conditional E-value: 0.011
                             HHHHHHHHHHHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHHHHHHHHHH CS
                 Ferritin  2 kaLneqladeltaayqylamawyvkgpgleglaeffdeqaeeerehadkla 52
                             + L +++ de  ++  y+ + ++ + +gl ++++ +++ +e  ++     +
  PHY93_02845|PHY93_02845 12 ENLKKAFEDEAKLYFRYKFFLSVSEYEGLGKISKTLRDFSEGSLDNVNGSL 62
                             579999999999999999999999999999999999999998776665555 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.00021
                              HHHHHHHHHHSTTHHHHHHHHHHHHHHHHHHHHHH CS
                 Ferritin  17 qylamawyvkgpgleglaeffdeqaeeerehadkl 51 
                              +y  ma  ++++g+ ++a +fd+  +  r h  +l
  PHY93_02845|PHY93_02845  98 IYPEMAKIARDEGFSDVASWFDTLEKLKRHHVSRL 132
                              6889*******************999999998776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (136 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       564  (0.0314574); expected 358.6 (0.02)
Passed bias filter:                      392  (0.021864); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.46
# Mc/sec: 885.57
//
Query:       PHY93_02850|PHY93_02850  [L=337]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.8e-32  112.1   0.0    9.3e-32  111.2   0.0    1.5  1  Sulfotransfer_3  Sulfotransferase family
    5.9e-17   62.0   0.8    1.4e-16   60.7   0.8    1.7  1  Sulfotransfer_1  Sulfotransferase domain
     0.0022   17.6   0.1      0.081   12.4   0.1    2.3  2  Sulphotransf     Stf0 sulphotransferase
     0.0045   16.8   0.8     0.0082   16.0   0.0    1.7  2  DUF4523          Protein of unknown function (DUF4523)


Domain annotation for each model (and alignments):
>> Sulfotransfer_3  Sulfotransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  111.2   0.0   2.1e-35   9.3e-32       1     216 [.       5     214 ..       5     215 .. 0.74

  Alignments for each domain:
  == domain 1  score: 111.2 bits;  conditional E-value: 2.1e-35
                              -EEEE--TTSSHHHHHHHHHTSTTEE--S--.--TT.-SBHHHHHH....HHTT-S...TTTHHHHHHHHHH..T--HHHHHHHHH CS
          Sulfotransfer_3   1 PifivGlpRSGTTlLhrlLaahpdvripeetlfvaprllalleaws....kdgrelrrlldagltqeeaelp..hledaeepeedl 80 
                              Pifi+G++RSG++lL+ +L++hp ++ip    +++ +++ ll+ ++    +d++++++ +   ++  e   +   +  ++++e+  
  PHY93_02850|PHY93_02850   5 PIFIIGTERSGSNLLRLILNSHPNIAIPHPP-HIMRDFAPLLQGYGalteDDNFSKLTTDV--ISIVEN--HfsPWPFKINQEMIK 85 
                              9***********************5555555.55555555555554111133333333222..222222..133333333333333 PP

                              HHHHT....T-BHHHHHHHHHHHTTTSEEEEEESSGGG-HHHHHHHBSSEEEEEEE--H.HHHHHHHHHTT----------..-HH CS
          Sulfotransfer_3  81 qllra....alasvilealarvpsyarwlvdKsPshlfrldlllelfPdAkfihlvRdpvdtvlssyvslfgkkresysedsldel 162
                              +l+ +     +   ++ea++++++++rw + Ks++++  ++++l+++ + +fihlvRdp+d ++s+ +s+f+k+ ++y+       
  PHY93_02850|PHY93_02850  86 DLAPSktlyGIYVGLYEAYRQHENKKRWGC-KSTFMFSEIETILQHHSNPRFIHLVRDPRDIAVSASKSIFSKY-HPYK------- 162
                              3322200114445578************99.***************************************7764.4666....... PP

                              HHHHHHHHHHHHHHHHHHHHS-TTSEEEEEHHHHHH-HHHHHHHHHHHHT---- CS
          Sulfotransfer_3 163 edaleewarayerllaararlppdrfldvrYedLvadpegtlrriyeflglpwd 216
                                ++e w++++e+++++     ++++l + YedL ++pe++++ + +fl  ++d
  PHY93_02850|PHY93_02850 163 --MAELWKNEQEQIEKWNYLSKEGKLLKILYEDLTTNPESVMKVVMDFLSEDFD 214
                              ..679**********999999****************************99987 PP

>> Sulfotransfer_1  Sulfotransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.7   0.8   3.2e-20   1.4e-16       2     265 ..       4     273 ..       3     275 .. 0.70

  Alignments for each domain:
  == domain 1  score: 60.7 bits;  conditional E-value: 3.2e-20
                              TSEEEEESTTSSHHHHHHHHHHHHTTTCC.................HHHTSSGHCT-.HHHSCBTTHECCTSGCCGTTECCC.... CS
          Sulfotransfer_1   2 ddvlivtypKSGTtwlqellslitsegdf.................ekaeepalfna.rdrspfLelydlyfpnslkppdhl.... 65 
                              d ++i+++ +SG++ l  +l+ +++++ +                 + +e   + +  +d+                    +    
  PHY93_02850|PHY93_02850   4 DPIFIIGTERSGSNLLRLILNSHPNIAIPhpphimrdfapllqgygALTEDDNFSKLtTDV--------------------Isive 69 
                              689*******************666666632222222222444444333344444444444....................14444 PP

                              ................................HHHTTTEEHHHHHHHSTSS.EEEE...GGGS.CHHHHTT-EEEEEE--HHHHHH CS
          Sulfotransfer_1  66 ................................rsyshvaekvvrlralesprllktHlplkllpkslldsnlKiiylvRnpkdvav 119
                                                              +        +++ ++ +     +t ++ +        sn + i+lvR+p+d+av
  PHY93_02850|PHY93_02850  70 nhfspwpfkinqemikdlapsktlygiyvglyE-------AYRQHENKKRWGCKSTFMFSEIETILQHHSNPRFIHLVRDPRDIAV 148
                              444444444444445788888888866666653.......33333333333333344444555556669***************** PP

                              HHHHHHHHBTTSTTT-S-HHHHHHHHHTTHSTTC-HHHHHHHHHHHTTTTTEEEEEHHHHHHHHHHHHHHHHHHTT--..HHHHHH CS
          Sulfotransfer_1 120 SryhfsrslkklkepetpfeeffdlflegrvvcgsyfdhvkswlklrkkgnvlflrYEdlkkdpakeikkiaeFlGiplteeelek 205
                              S     +s++      +          +   ++ +  +++++w  l k+g++l + YEdl+++p++++k +++Fl  ++++e+l+ 
  PHY93_02850|PHY93_02850 149 SASKSIFSKYH----PY----------KMAELWKNEQEQIEKWNYLSKEGKLLKILYEDLTTNPESVMKVVMDFLSEDFDPEQLNF 220
                              ******99994....23..........2567899999*****************************************77777665 PP

                              HHHHTSHHHHHTETTTSSTTSCTTTTSTSSEE--TTGGGGTSBHHHHHHHHHHHHHHHTT CS
          Sulfotransfer_1 206 ivkhlsfenmksnpvsnksklskgekekffrkgqvgdWkneltveqaekldeifqeklkd 265
                                k+   +++ +   s+k      ++e  ++  +vg+ ++ l  e ++ ++  +q  +k+
  PHY93_02850|PHY93_02850 221 -FKDREAKQLAGLSQSWK------KVEDPISAKSVGQFRENLASEDLAMIEFLCQDLMKE 273
                              .55555555555555553......67999*************************999997 PP

>> Sulphotransf  Stf0 sulphotransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.8   0.0     0.016        74       4      21 ..       8      25 ..       6      65 .. 0.85
   2 !   12.4   0.1   1.8e-05     0.081     140     237 ..     138     236 ..     128     239 .. 0.73

  Alignments for each domain:
  == domain 1  score: 2.8 bits;  conditional E-value: 0.016
             Sulphotransf  4 vcasqRsGstLLvelLra 21
                             +++++RsGs LL  +L++
  PHY93_02850|PHY93_02850  8 IIGTERSGSNLLRLILNS 25
                             899*********988876 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 1.8e-05
             Sulphotransf 140 riapdgtelerlapard..aeYdaeaiasqvraleaqeeeWraWFaeegiepldisyealvaapvavvaavlealgld..pelakd 221
                              ++  d+++++ ++ ++   ++Y+  ++a+  ++ ++q e+W+   +e   + l+i ye+l+++p  v++ v++ l  d  pe+++ 
  PHY93_02850|PHY93_02850 138 HLVRDPRDIA-VSASKSifSKYHPYKMAELWKNEQEQIEKWNYLSKE--GKLLKILYEDLTTNPESVMKVVMDFLSEDfdPEQLNF 220
                              5556666666.344433237999999999999999999999854444..4679**********************98622666666 PP

             Sulphotransf 222 vkpalekladerskeW 237
                               k   +k+    s+ W
  PHY93_02850|PHY93_02850 221 FKDREAKQLAGLSQSW 236
                              6666666666666666 PP

>> DUF4523  Protein of unknown function (DUF4523)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.0   1.8e-06    0.0082      16      82 ..     103     172 ..      93     176 .. 0.86
   2 ?   -2.5   0.2      0.86   3.9e+03     145     164 ..     309     328 ..     303     330 .. 0.81

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 1.8e-06
                  DUF4523  16 sykseeDkkk..ce.nselsgleriLarkklPkeinltpkPsrmplwkRkainkisegwkkcklwkknlk 82 
                              +y+  e+kk+  c+    +s +e iL+++  P+ i+l+  P  +++   k i +  + +k  +lwk + +
  PHY93_02850|PHY93_02850 103 AYRQHENKKRwgCKsTFMFSEIETILQHHSNPRFIHLVRDPRDIAVSASKSIFSKYHPYKMAELWKNEQE 172
                              5677777765458866789**********************************************97655 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 0.86
                  DUF4523 145 fqsrtpgtmlqCsWqqkfls 164
                              +qs+  ++ +   W++k+l 
  PHY93_02850|PHY93_02850 309 YQSMRSDKNFYLRWKKKYLL 328
                              78888889999999999985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (337 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       826  (0.0460706); expected 358.6 (0.02)
Passed bias filter:                      424  (0.0236488); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.58u 0.25s 00:00:00.83 Elapsed: 00:00:00.46
# Mc/sec: 2202.05
//
Query:       PHY93_02855|PHY93_02855  [L=795]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.4e-17   62.5   0.0    1.2e-16   61.1   0.0    1.8  1  Methyltransf_11  Methyltransferase domain
    2.9e-15   56.4   0.0      9e-15   54.8   0.0    1.8  1  B12-binding      B12 binding domain
    1.6e-14   54.3   0.0    5.1e-14   52.8   0.0    1.9  1  Methyltransf_25  Methyltransferase domain
    1.8e-14   54.4   0.1    6.5e-14   52.7   0.0    2.1  3  Radical_SAM      Radical SAM superfamily
    2.3e-14   53.6   0.0    4.4e-14   52.6   0.0    1.5  1  Methyltransf_23  Methyltransferase domain
    1.5e-12   47.6   0.1    5.9e-12   45.6   0.0    2.2  2  Methyltransf_31  Methyltransferase domain
    5.2e-08   33.5   0.0      2e-07   31.6   0.0    2.1  1  Methyltransf_12  Methyltransferase domain
    8.8e-08   31.8   0.1    1.7e-07   30.8   0.1    1.4  1  Ubie_methyltran  ubiE/COQ5 methyltransferase family
    1.9e-06   27.2   0.3      6e-06   25.5   0.1    1.9  2  RrnaAD           Ribosomal RNA adenine dimethylase
    2.3e-06   27.6   0.0    4.4e-06   26.7   0.0    1.4  1  Methyltransf_8   Hypothetical methyltransferase
     0.0014   18.5   0.1     0.0031   17.3   0.1    1.5  1  PCMT             Protein-L-isoaspartate(D-aspartate) O-methyl
     0.0066   15.6   0.1       0.02   14.0   0.1    1.8  1  DREV             DREV methyltransferase
  ------ inclusion threshold ------
      0.023   14.1   0.3      0.044   13.2   0.3    1.4  1  PrmA             Ribosomal protein L11 methyltransferase (Prm
      0.041   13.1   0.5        6.1    6.0   0.0    3.5  4  Radical_SAM_N    Radical SAM N-terminal


Domain annotation for each model (and alignments):
>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.1   0.0   9.2e-20   1.2e-16       1      96 []     579     668 ..     579     668 .. 0.93

  Alignments for each domain:
  == domain 1  score: 61.1 bits;  conditional E-value: 9.2e-20
                              EEET-TTSHHHHHHHHTTSEEEEEES-HHHHHHHHHHCCHHT-EEEETTEECCCT.SS-TT-EEEEEEES-CCC-CCHHHHHHHHH CS
          Methyltransf_11   1 LdvGcGtGrlaealakrgarvvgvDlskemlklakekaseeglkvefvvadaekl.pfednsfDlvvssevlhhvedpekalkeia 85 
                              Ld+++GtG++a++++ ++++++g+D+s+ m+++ak ++ +       + +++e++ p+e+ns+D+v++++ l++v +++ al e+ 
  PHY93_02855|PHY93_02855 579 LDIATGTGLVAKKFKGKVKEIIGLDISPDMTEQAKPNVDRL------IISSVETTiPLEKNSVDVVICRQGLQFV-NLAMALTELE 657
                              8**************999*************9999888776......788999755*******************.6********* PP

                              HHEEEEEEEEE CS
          Methyltransf_11  86 RvLkpgGllvi 96 
                              +vLkpgG++v+
  PHY93_02855|PHY93_02855 658 KVLKPGGRVVF 668
                              ********997 PP

>> B12-binding  B12 binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.8   0.0     7e-18     9e-15      18     120 ..      63     163 ..      58     164 .. 0.87

  Alignments for each domain:
  == domain 1  score: 54.8 bits;  conditional E-value: 7e-18
              B12-binding  18 avlaaalrdagfeVqllganven..edivaairaekpdvvglSalltsqleavkelvellkrirprvkvvvGGahpsldpeetlea 101
                               ++a+ lr  g++V+ll+       ed+  ++   ++d+vg+S+ ++ +++  +  +  +k++rp++++++GG+  s +p +++++
  PHY93_02855|PHY93_02855  63 SMIAGLLRGLGYKVTLLDQREIYepEDLKTKV--GNFDIVGFST-FGDSFNYLRMACSIIKEVRPNLPIILGGPLISSHPLFIMKQ 145
                              69***************877633335555544..467*******.***************************************87 PP

              B12-binding 102 klgiddvvvgegedaleal 120
                                 +d++v+gege +l ++
  PHY93_02855|PHY93_02855 146 -VRADYAVCGEGELTLTEF 163
                              .888***********9875 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.8   0.0     4e-17   5.1e-14       1      97 []     578     664 ..     578     664 .. 0.93

  Alignments for each domain:
  == domain 1  score: 52.8 bits;  conditional E-value: 4e-17
                              EEEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTTTEEEEESBCCG.BSSSTTTEEEEEEESTGGGSSHHHHHHH CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeeglnvefvqgdaed.lpfedgsfDlvvssgalhhlsdedleka 85 
                              vLd+++GtG +++++  ++  ++++g+Dis++m e+a+ +++      +++  ++e+ +p+e++s+D+v+++++l++++   l+ a
  PHY93_02855|PHY93_02855 578 VLDIATGTGLVAKKFKGKV--KEIIGLDISPDMTEQAKPNVD------RLIISSVETtIPLEKNSVDVVICRQGLQFVN---LAMA 652
                              9***************998..9*******************4......68888885549************988**997...899* PP

                              HHHHHHHEEEEE CS
          Methyltransf_25  86 lkeiarvLkpgG 97 
                              l e+ +vLkpgG
  PHY93_02855|PHY93_02855 653 LTELEKVLKPGG 664
                              ***********9 PP

>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.7   0.0     5e-17   6.5e-14       2     166 ..     229     385 ..     228     386 .. 0.93
   2 ?   -3.6   0.0        10   1.3e+04     106     135 ..     501     530 ..     470     536 .. 0.71
   3 ?   -3.4   0.0       8.7   1.1e+04     117     139 ..     725     747 ..     699     775 .. 0.63

  Alignments for each domain:
  == domain 1  score: 52.7 bits;  conditional E-value: 5e-17
                              EEESEESS--TTTSCCTTHHHHHHHHHHHHHHHHHHHHHHHHHTTSEEEEEESSTGGGSTTHHHHHHHHHHTCCCTEEEEEEECSS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM   2 vvtrgCnlrCsfCarpetvrregrgrslsveeileevkelkaekgvkevilgggepllypdfvellerlaklavpgiritvetngt 87 
                              + +rgC  +C+fC+r +     +   ++sve++ +ev++++++k  ++ +++  + + ++d++ +l  +a     ++r ++ +   
  PHY93_02855|PHY93_02855 229 SYSRGCIANCTFCYRAF-----PNLNVKSVERVRREVEYYAQYK-YRFSWWSDLTYITDKDYTNKLTDEAWSG-HDFRSVIFSRVS 307
                              678*************6.....9*****************8777.9999999999999999999999888885.888888888888 PP

                              CHGHHHHHHHHHTT-SEEEEEEBSSSHHHHHHHHTCTSHHHHHHHHHHHHHHTTSETEEEEEEEBTTTSHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM  88 lpdeeklerllelgvdrvslgleaaddekvlklmnrghtfeevlealeklreagikrvvdrivglpGendeeleellel 166
                               +d  +l+r++++g+d v  g e++++  +l+  ++g+t  ++++++ + rea++k    +i+g p  ++e l+e++++
  PHY93_02855|PHY93_02855 308 GIDVPVLKRMRDRGLDLVLYGMESVSKS-TLNAYHKGQTKNAIIDCININREAQVKIGGLFIIGAPTDTKEVLQETVDF 385
                              888*************************.888888******************************************98 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 10
                              EEEEBSSSHHHHHHHHT.CTSHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxx.xxxxxxxxxxxxx RF
              Radical_SAM 106 slgleaaddekvlklmn.rghtfeevleale 135
                              ++ + ++d +   +lm   +h++ee+++  e
  PHY93_02855|PHY93_02855 501 NIEVFSGDVR-MDELMQiEKHSIEETKRISE 530
                              4556666666.88888888899999866544 PP

  == domain 3  score: -3.4 bits;  conditional E-value: 8.7
                              HHHHHTCTSHHHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM 117 vlklmnrghtfeevlealeklre 139
                              + +++n g + ee  +a+  + +
  PHY93_02855|PHY93_02855 725 INQWINHGASTEEERKAIYDAYK 747
                              55566633333333333333333 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.6   0.0   3.4e-17   4.4e-14      20     164 ..     572     715 ..     526     716 .. 0.82

  Alignments for each domain:
  == domain 1  score: 52.6 bits;  conditional E-value: 3.4e-17
          Methyltransf_23  20 lraggrvLdiGcGtGillevlrengfsvtgvDlspeaveiae.kakkaqkdqfdeqeaaepqgkfdlIvlrevlehvpdppellrq 104
                               + +  vLdi++GtG +++ ++ ++++++g D+sp + e a+ + +  + +++ e  ++ ++++ d++++r++l  v +++++l+ 
  PHY93_02855|PHY93_02855 572 IKGDEVVLDIATGTGLVAKKFKGKVKEIIGLDISPDMTEQAKpNVDRLIISSV-ETTIPLEKNSVDVVICRQGLQFV-NLAMALTE 655
                              345569*********************************99884444444444.456677889***********866.78****** PP

          Methyltransf_23 105 iatllkpgGylllseplaslkedrllldwlylvpag.rhisffsarslkelleeaGlevve 164
                              + + lkpgG+++++  +a+   + +++  + ++ ++   ++ff   +l+ +le +G++v+e
  PHY93_02855|PHY93_02855 656 LEKVLKPGGRVVFTHLAAY-NVNDRADTFKIQALRNpARVNFFAPGDLESALEVNGYNVLE 715
                              *************999886.66777777777777775899******************987 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0         6   7.7e+03      88     124 ..     350     384 ..     330     412 .. 0.61
   2 !   45.6   0.0   4.6e-15   5.9e-12       2     113 ..     573     672 ..     572     750 .. 0.83

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 6
          Methyltransf_31  88 adpdkileeiervlkpggilliedprllaelpakvee 124
                               d+ +i +e    +k gg ++i  p   +e++++  +
  PHY93_02855|PHY93_02855 350 IDCININRE--AQVKIGGLFIIGAPTDTKEVLQETVD 384
                              444444444..45677777777777655555544444 PP

  == domain 2  score: 45.6 bits;  conditional E-value: 4.6e-15
          Methyltransf_31   2 dkglrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielArenaqklgldnveFeqgdiee.leklledekfDlilsnevlna 86 
                              + + +vlD+++GtG  ++++  +    +e++G+Dis+++ e+A+ n +       ++ ++++e+ ++  le++++D++++++ l  
  PHY93_02855|PHY93_02855 573 KGDEVVLDIATGTGLVAKKFKGK---VKEIIGLDISPDMTEQAKPNVD-------RLIISSVETtIP--LEKNSVDVVICRQGL-Q 645
                              67889*********999999955...578****************966.......667789999999..999**********99.9 PP

          Methyltransf_31  87 ladpdkileeiervlkpggilliedpr 113
                              + +++ +l e+e+vlkpgg+++ ++  
  PHY93_02855|PHY93_02855 646 FVNLAMALTELEKVLKPGGRVVFTHLA 672
                              ************************998 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.6   0.0   1.6e-10     2e-07       1      99 []     579     666 ..     579     666 .. 0.87

  Alignments for each domain:
  == domain 1  score: 31.6 bits;  conditional E-value: 1.6e-10
          Methyltransf_12   1 LeiGcGtGsllralleklpdieytgvDispsaiedakeklakrennnnnnvelealdlldldggssfDlvvasnvlhhlkdirevl 86 
                              L+i +GtG +++ +  k   +e++g+Disp++ e+ak    + +  +++     +++        s+D+v++ + l+ + +++ +l
  PHY93_02855|PHY93_02855 579 LDIATGTGLVAKKFKGK--VKEIIGLDISPDMTEQAKPNVDRLIISSVETTIPLEKN--------SVDVVICRQGLQFV-NLAMAL 653
                              89***************..**************888888888886554443333333........*************9.****** PP

          Methyltransf_12  87 dnirklLkpgGrl 99 
                               ++ k+LkpgGr+
  PHY93_02855|PHY93_02855 654 TELEKVLKPGGRV 666
                              ***********85 PP

>> Ubie_methyltran  ubiE/COQ5 methyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.8   0.1   1.4e-10   1.7e-07      44     153 ..     571     670 ..     556     687 .. 0.84

  Alignments for each domain:
  == domain 1  score: 30.8 bits;  conditional E-value: 1.4e-10
                              -S--TTEEEEES-TT-HHHHHHHHHHHHHHEEEEEES-HHHHHHHHHHHHHHTSSTEEEEE--TTT-TTS-T-EEEEEEES-GGG- CS
          Ubie_methyltran  44 avkrgakvlDvagGtgDlafklsdsvgekgkvvvlDinenmLkvgekklkeegkinieflqanaeeLpfeddsfDvvtvsfGlrnv 129
                              + k  + vlD+a+Gtg +a k+  +v+   ++++lDi+++m ++++  + +   +++e        +p e++s Dvv    Gl+ +
  PHY93_02855|PHY93_02855 571 NIKGDEVVLDIATGTGLVAKKFKGKVK---EIIGLDISPDMTEQAKPNVDRLIISSVE------TTIPLEKNSVDVVICRQGLQ-F 646
                              45556689***********99998776...69**********9999998887666655......579****************7.6 PP

                              S-HHHHHHHHHHHEEEEEEEEEEE CS
          Ubie_methyltran 130 tDklkaLkeayrvlkpGGrlvvle 153
                               +   aL e+ +vlkpGGr+v   
  PHY93_02855|PHY93_02855 647 VNLAMALTELEKVLKPGGRVVFTH 670
                              67999**************98755 PP

>> RrnaAD  Ribosomal RNA adenine dimethylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0       1.2   1.5e+03     228     263 ..     496     532 ..     492     534 .. 0.79
   2 !   25.5   0.1   4.7e-09     6e-06       9      68 ..     553     612 ..     543     625 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 1.2
                              TSTCHHHHHCTT..T--TTTCCCCSGHHHHHHHHHHH CS
                   RrnaAD 228 llpggelqalsst.gindnalvkklsaeqtldifkel 263
                              +l g++ + +s   ++++ ++++k s+e+t +i+++ 
  PHY93_02855|PHY93_02855 496 TLIGSNIEVFSGDvRMDELMQIEKHSIEETKRISELT 532
                              5666777888777899999**********99998875 PP

  == domain 2  score: 25.5 bits;  conditional E-value: 4.7e-09
                              G--EE--HHHHHHHHHHH-GGTTSEEEEES-TTTCCHHHHHCC-SEEEEE-S-HHHHHHH CS
                   RrnaAD   9 gqnflknkkvineIldklnleekltvleigpGkGilTeeLakrakqvvvlElderLakll 68 
                              ++n+++++++i +I++++n++ +  vl+i++G+G+  +++   +k+   l + +++ +  
  PHY93_02855|PHY93_02855 553 SSNWVNDQTLISNIFNHANIKGDEVVLDIATGTGLVAKKFKGKVKEIIGLDISPDMTEQA 612
                              799*************************************99999988888888887765 PP

>> Methyltransf_8  Hypothetical methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.7   0.0   3.5e-09   4.4e-06      68     156 ..     570     668 ..     528     685 .. 0.73

  Alignments for each domain:
  == domain 1  score: 26.7 bits;  conditional E-value: 3.5e-09
                              CTS-TTS-EEEES-TT-HHH.HH--S-..EEEEESS-.........SSTTEEES-T.TS-S--TT-EEEEEEES---SS-HHHHHH CS
           Methyltransf_8  68 kkkkdnlvvadlGcGeakia.eavrekekvrsfdlva.........vnervvacdl.akvPledesvdvavfclslmgtnladflk 142
                               + k++ vv d+  G   +a + +++ ++++ +d+ +         v +r++   + + +Ple +svdv+++   l   nla  l 
  PHY93_02855|PHY93_02855 570 ANIKGDEVVLDIATGTGLVAkKFKGKVKEIIGLDISPdmteqakpnV-DRLIISSVeTTIPLEKNSVDVVICRQGLQFVNLAMALT 654
                              34567889************445678899****99753222222212.34444445589*************************** PP

                              HHHHHEEEEEEEEE CS
           Methyltransf_8 143 eanrvlkvGGllkv 156
                              e ++vlk+GG +  
  PHY93_02855|PHY93_02855 655 ELEKVLKPGGRVVF 668
                              **********8765 PP

>> PCMT  Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   0.1   2.4e-06    0.0031       9     128 ..     516     626 ..     510     635 .. 0.81

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 2.4e-06
                              HHHHTTS---HHHHHHHHHS-GGGGSSCGGGGGTTSSS-EEEETTEEE--HHHHHHHHHHTT--TT-EEEEES-TTSHHHHHHHHH CS
                     PCMT   9 elkkkgviksdkvaealeevdReefvpesfkekaYedaplsigynatiSaphmvalalellelkkgarvLevGsGsGyltavlarl 94 
                              +++k+ + +++++ e  e+ + e  ++ + ++k Y++++  ++ ++ iS++  +a       +k  + vL++ +G+G  +  +   
  PHY93_02855|PHY93_02855 516 QIEKHSIEETKRISELTEKQNQEAKSHFKNRSKLYNKSSNWVNDQTLISNIFNHAN------IKGDEVVLDIATGTGLVAKKFKGK 595
                              45566778888888888887777655555567999999999999999999999985......788999*********988766655 PP

                              HCTTCEEEEEESBHHHHHHHHHHHHHCTTCSEEE CS
                     PCMT  95 vgekgrvvsierikelveeakrnlkkldlenviv 128
                              v     +++++ +++++e+ak n+ +l +++v +
  PHY93_02855|PHY93_02855 596 V---KEIIGLDISPDMTEQAKPNVDRLIISSVET 626
                              5...5688******************99998875 PP

>> DREV  DREV methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.0   0.1   1.5e-05      0.02      82     188 ..     562     670 ..     542     695 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.5e-05
                     DREV  82 laiekespasdqedkklldlGaGdGeitkrvaptfeevyatelsetmrdrlkkkkyn.vlsale..lqetdvkldlilclnlldrc 164
                              l  + ++ a  + d+ +ld+ +G G ++k+ +  ++e+   ++s  m ++ k    + ++s +e  +   +   d++ c   l   
  PHY93_02855|PHY93_02855 562 LISNIFNHANIKGDEVVLDIATGTGLVAKKFKGKVKEIIGLDISPDMTEQAKPNVDRlIISSVEttIPLEKNSVDVVICRQGLQFV 647
                              5566677788788999**********************************986654426777774333345678999999999866 PP

                     DREV 165 fdplklledirsalepngrvival 188
                                ++  l ++ ++l+p grv+ + 
  PHY93_02855|PHY93_02855 648 NLAM-ALTELEKVLKPGGRVVFTH 670
                              5555.56889*********99875 PP

>> PrmA  Ribosomal protein L11 methyltransferase (PrmA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.3   3.4e-05     0.044     159     257 ..     572     667 ..     561     676 .. 0.73

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 3.4e-05
                     PrmA 159 vkegeevlDvGtGSGiLaiaaakLgakkvvavDiDevAvkvakeNaelNkveaklevalseellkeekadvivaNILaev..liel 242
                              +k++e vlD+ tG+G+ a    k   k+++++Di +   + ak N+++  +++   ++++ e   ++++dv+++    +   l   
  PHY93_02855|PHY93_02855 572 IKGDEVVLDIATGTGLVA-KKFKGKVKEIIGLDISPDMTEQAKPNVDRLIISSVE-TTIPLE---KNSVDVVICRQGLQFvnLAMA 652
                              688999*********876.45677899*******************998777633.223333...366999999643332012233 PP

                     PrmA 243 aedikklvkegglli 257
                              + ++ k++k+gg+++
  PHY93_02855|PHY93_02855 653 LTELEKVLKPGGRVV 667
                              356677777777776 PP

>> Radical_SAM_N  Radical SAM N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.0      0.07        89      31      64 ..      58      91 ..      56     101 .. 0.88
   2 ?   -1.3   0.0      0.82     1e+03     117     133 ..     116     132 ..     113     136 .. 0.91
   3 ?    6.0   0.0    0.0048       6.1     155     201 ..     142     195 ..     140     275 .. 0.74
   4 ?   -1.3   0.7       0.8     1e+03     194     194 ..     495     495 ..     317     574 .. 0.46

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.07
            Radical_SAM_N 31 psfgaaligrlLeaeGfrvgiiaqPdwksaedfk 64
                             p  g ++i+ lL   G++v+++ q ++ ++ed+k
  PHY93_02855|PHY93_02855 58 PFEGPSMIAGLLRGLGYKVTLLDQREIYEPEDLK 91
                             6678999*******************99999987 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 0.82
            Radical_SAM_N 117 snlireaykdvpvvlGg 133
                              +++i+e+ +++p++lGg
  PHY93_02855|PHY93_02855 116 CSIIKEVRPNLPIILGG 132
                              7899************9 PP

  == domain 3  score: 6.0 bits;  conditional E-value: 0.0048
            Radical_SAM_N 155 illdskadllvyGmgeraiveiakrlakgeeveelkdirgtavllk.......k 201
                              i+ + +ad+ v G ge +++e ++ ++k++ ++ +++i+g ++  +       +
  PHY93_02855|PHY93_02855 142 IMKQVRADYAVCGEGELTLTEFMDWFTKNQFAKPIEKINGLVFRDTlgnlvrnT 195
                              667789************************************954444444430 PP

  == domain 4  score: -1.3 bits;  conditional E-value: 0.8
            Radical_SAM_N 194 g 194
                              +
  PHY93_02855|PHY93_02855 495 N 495
                              0 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (795 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       961  (0.0536003); expected 358.6 (0.02)
Passed bias filter:                      601  (0.0335211); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.85u 0.27s 00:00:01.12 Elapsed: 00:00:00.50
# Mc/sec: 4758.87
//
Query:       PHY93_02860|PHY93_02860  [L=376]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.2e-10   41.3   0.1    9.1e-09   36.0   0.0    2.8  2  Sulfotransfer_3  Sulfotransferase family


Domain annotation for each model (and alignments):
>> Sulfotransfer_3  Sulfotransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.0   0.0   5.1e-13   9.1e-09       2     128 ..      25     212 ..      23     229 .. 0.72
   2 ?    0.5   0.0     0.036   6.5e+02     154     200 ..     267     312 ..     253     325 .. 0.68

  Alignments for each domain:
  == domain 1  score: 36.0 bits;  conditional E-value: 5.1e-13
                              EEEE--TTSSHHHHHHHHHTSTTEE--S--.--TT.-SBHHHHHHHHTT-S...TTTHHHHHHHHHH........T--HHHHHHHH CS
          Sulfotransfer_3   2 ifivGlpRSGTTlLhrlLaahpdvripeetlfvaprllalleawskdgrelrrlldagltqeeaelp........hledaeepeed 79 
                              i+++G  RSG++lL  lL++h+d+++ +       rl +++        +  rlld+ +  + +  +        +l+++ +    
  PHY93_02860|PHY93_02860  25 IVVLGSSRSGSSLLYHLLSQHSDINSLPGEDIAYFRLHEYRG--INAIDQDDRLLDKDINYSALASTicgnagkaDLTKEPTV--- 105
                              89*********************9988777222333333333..334445556677766665333336664444422222222... PP

                              HHHHHTT-BHHHHHHHHHHHTTTSEEEE.......................................................... CS
          Sulfotransfer_3  80 lqllraalasvilealarvpsyarwlvd.......................................................... 107
                                  ++++ ++il++  ++ s +  l++                                                          
  PHY93_02860|PHY93_02860 106 ----AEKINRFILQW--PTFSCDINLLQsvfettssyeaglkklgvnlhlyenfllnrtldfdedrffieeppfifpksrsfvkks 185
                              ....33334443333..222222233335555666666677779999*************************************** PP

                              ......EESSGGG-HHHHHHHBSSEEE CS
          Sulfotransfer_3 108 ......KsPshlfrldlllelfPdAkf 128
                                    Ks s++ r+d++++lfP+Ak+
  PHY93_02860|PHY93_02860 186 rnililKSSSNAYRMDHIKKLFPKAKY 212
                              *************************97 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.036
                              ----..-.HHH.HHHHHHHHHHHHHHHHHHHS-TTSEEEEEHHHHHH-H CS
          Sulfotransfer_3 154 ysedsld.ele.daleewarayerllaararlppdrfldvrYedLvadp 200
                              +s ++ + +l   ++ +wa ay  +l++  +l + +f  ++Yed+ + p
  PHY93_02860|PHY93_02860 267 WS-HWTNsSLTeVCAFQWASAYSAILNFL-ELEKVEFGKIDYEDFFT-P 312
                              55.44444444357778999998888665.699999********975.4 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (376 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       431  (0.0240393); expected 358.6 (0.02)
Passed bias filter:                      351  (0.0195772); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.27s 00:00:00.84 Elapsed: 00:00:00.48
# Mc/sec: 2369.17
//
Query:       PHY93_02865|PHY93_02865  [L=303]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.9e-21   75.9   0.0    3.6e-21   75.6   0.0    1.1  1  Amidinotransf  Amidinotransferase


Domain annotation for each model (and alignments):
>> Amidinotransf  Amidinotransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   75.6   0.0     2e-25   3.6e-21     110     335 ..      93     299 ..      36     302 .. 0.85

  Alignments for each domain:
  == domain 1  score: 75.6 bits;  conditional E-value: 2e-25
                              ---GGGG-TTTTEEEEBSEEEE---SSGGGHHHHHHHHHHHHHSHTSB-EEEEE-TTS--TT----GGGEEEEETTEEEEEESSSS CS
            Amidinotransf 110 pplpnlvFtrdwfstigggvvlnpmaapnRrrErllaeliykkhpgvkvakvldisgkeeesktlEGGdfvvlskgvvaigvssRt 195
                                 pnl+F rd f    +g++l +m +  R  E++     + +++ +++ +v++ +       t+EG d+++l  + ++ g  +Rt
  PHY93_02865|PHY93_02865  93 TSPPNLIFARDLFWNGPKGIILSRMGSMIRASEEKYILKCIIDNN-QHLHHVVGSP------STFEGADLLWLTSKELLLGLNNRT 171
                              4559***************************99987766666644.6788888888......6*********************** PP

                              -HHHHHHHHHHHHHTTS-SEEEEEE--GGSSTS-GGGTEEEEETTEEEE-HHHH.TT-ESS-HHHHHHHHTT-SS-EEEE-C..S- CS
            Amidinotransf 196 deegieelakklfyktvafkviaieipkgraimHldtvftvvdddavvclpsildaegvkakereavaqaLkekgleiIeig..ee 279
                              ++ +++el++ l       k+ a  ip  ++i Hl  ++ +++ +++++ ++i  +         ++ q+L+++++++I+i+  +e
  PHY93_02865|PHY93_02865 172 NKSALNELQQLLPDI----KIHA--IPLPKNIQHLLGLIQIIAPQKALIRSQIAPK---------VLLQILEARKFKLIDIPeiDE 242
                              **********99999....7744..55556799*********************55.........5****************9878 PP

                              SS-B---S-EEEETTEEEEETTGHHHHHHHHHTT-EEEE.E-HTTTGGGS--TTTT- CS
            Amidinotransf 280 eqwnfggNvLelkpgvvvaydrntvtnekleeagievie.vpiselerGgGgarCms 335
                               ++  g+N+++++p++++  +   + ++ +++ +i+vi+ +++sel ++ Gg+ C++
  PHY93_02865|PHY93_02865 243 VTKLQGMNIVTISPNQIIMPNDCPELQTIYQDNKIKVIKtFKVSELRKAAGGIACAT 299
                              88999*********************************649**************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (303 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       652  (0.0363657); expected 358.6 (0.02)
Passed bias filter:                      401  (0.022366); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.26s 00:00:00.76 Elapsed: 00:00:00.43
# Mc/sec: 2103.07
//
Query:       PHY93_02870|PHY93_02870  [L=192]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.9e-12   45.3   0.0    1.3e-07   31.4   0.0    2.1  2  Y_phosphatase2   Tyrosine phosphatase family
    1.1e-08   35.4   0.0    2.2e-08   34.4   0.0    1.5  1  Y_phosphatase3   Tyrosine phosphatase family
    3.2e-06   27.0   0.0      9e-06   25.5   0.0    1.8  1  DSPc             Dual specificity phosphatase, catalytic doma
    0.00027   20.6   0.0    0.00038   20.1   0.0    1.2  1  Y_phosphatase    Protein-tyrosine phosphatase
     0.0031   17.6   0.0       0.01   15.9   0.0    1.8  1  DUF442           Putative phosphatase (DUF442)
     0.0037   16.3   0.0     0.0051   15.8   0.0    1.2  1  Myotub-related   Myotubularin-like phosphatase domain
  ------ inclusion threshold ------
       0.16   12.1   0.0       0.18   11.9   0.0    1.2  1  PTPlike_phytase  Inositol hexakisphosphate


Domain annotation for each model (and alignments):
>> Y_phosphatase2  Tyrosine phosphatase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.2   0.0   3.8e-05     0.098       4      41 ..      22      60 ..      19      68 .. 0.84
   2 !   31.4   0.0     5e-11   1.3e-07      56     114 ..      94     152 ..      70     177 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 3.8e-05
                             -TT-EEEETTEEEESS-.-HHHHHHHHHCT-SEEEE-SS CS
           Y_phosphatase2  4 plnFsaveselyrssyp.rasnfsflksLkLktiislsp 41
                               nF++v++++yr++   + +   +lksL++k++i l+ 
  PHY93_02870|PHY93_02870 22 ITNFAKVNEGVYRGARLiSIEEVQYLKSLNIKSVINLQG 60
                             579***********965166789************9975 PP

  == domain 2  score: 31.4 bits;  conditional E-value: 5e-11
                              T-EEEE-------GGG----HHHHHHHHHHHH-GGG-SEEEE-SSSSSHHHHHHHHHH.H CS
           Y_phosphatase2  56 kiklyhiaiesnkeelveiksdllkkalklllnkenypvllhckrGkhrtglvigclR.k 114
                                + yh+ ++s +    ++++  + ++l ++ +++n+pv++hc++G  rtgl+++  R k
  PHY93_02870|PHY93_02870  94 GLRFYHAPLNSLEP-ITNDEDRAIDEVLSFMHDQNNQPVFIHCEHGADRTGLLVALYRvK 152
                              45566666666555.8999***********************************998855 PP

>> Y_phosphatase3  Tyrosine phosphatase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.4   0.0   8.7e-12   2.2e-08      28     140 ..      32     148 ..      21     161 .. 0.70

  Alignments for each domain:
  == domain 1  score: 34.4 bits;  conditional E-value: 8.7e-12
           Y_phosphatase3  28 lyRsaelsklteadlakLadlgirtviDLRspeErea...eaplega..ryvhlpveeaaeeekeeeeaeetlaelYrelle.... 104
                              +yR a l +++  ++++L++l+i+ vi L   +  ++     p+++   r         ++ +ke++++ +   ++Y++ l+    
  PHY93_02870|PHY93_02870  32 VYRGARLISIE--EVQYLKSLNIKSVINLQGGDLDSDigiIIPWAEPgeRP--------ENIAKEKATTLSLGLRFYHAPLNslep 107
                              79999998776..69**************9988744433322221111122........222333444444444555555555555 PP

           Y_phosphatase3 105 ...sakkayrkvfealad.ee.pvlfHCtaGKDRTGvlaal 140
                                 +  +a+ +v+  + d ++ pv +HC +G DRTG+l+al
  PHY93_02870|PHY93_02870 108 itnDEDRAIDEVLSFMHDqNNqPVFIHCEHGADRTGLLVAL 148
                              555889************6559*****************98 PP

>> DSPc  Dual specificity phosphatase, catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.5   0.0   3.5e-09     9e-06      53     102 ..     106     157 ..      38     178 .. 0.68

  Alignments for each domain:
  == domain 1  score: 25.5 bits;  conditional E-value: 3.5e-09
                              SCCGGGHHHHHHHHHHH..HHTT-EEEEEESSSSSHHHHHHHHHHHHHHTSC CS
                     DSPc  53 tkiskyleeavefidka..kqkgkkvlVHCqaGisRSatliiaYlmktknls 102
                              + i+++ ++a++ + ++   q+++ v++HC++G  R++ l++ Y  k++ ++
  PHY93_02870|PHY93_02870 106 EPITNDEDRAIDEVLSFmhDQNNQPVFIHCEHGADRTGLLVALYRVKYEAVN 157
                              44555545555444444447999*********************99997654 PP

>> Y_phosphatase  Protein-tyrosine phosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.1   0.0   1.5e-07   0.00038     161     191 ..     122     149 ..      99     161 .. 0.77

  Alignments for each domain:
  == domain 1  score: 20.1 bits;  conditional E-value: 1.5e-07
                              HHHHHHSTTSS-EEEECSSSSHHHHHHHHHH CS
            Y_phosphatase 161 kvekskeaksgpvvVhCsaGvgRtgtfvald 191
                               ++   +++++pv +hC +G+ Rtg +val 
  PHY93_02870|PHY93_02870 122 FMH---DQNNQPVFIHCEHGADRTGLLVALY 149
                              222...4479******************985 PP

>> DUF442  Putative phosphatase (DUF442)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.0   4.1e-06      0.01      36     102 ..      72     145 ..      24     152 .. 0.74

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 4.1e-06
                   DUF442  36 PDgeepgqpsnaavqeaae.aaglaylfvPvisge.iteddveafqral....aeaegpvlayCrsGt.Ralvl 102
                              P  e  ++p n a ++a++   gl + + P+ s e it+d+ +a+++ l    ++ + pv+++C  G+ R+  l
  PHY93_02870|PHY93_02870  72 PWAEPGERPENIAKEKATTlSLGLRFYHAPLNSLEpITNDEDRAIDEVLsfmhDQNNQPVFIHCEHGAdRTGLL 145
                              5556778899999888876257*********986538999988888877444457889********98344444 PP

>> Myotub-related  Myotubularin-like phosphatase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.0     2e-06    0.0051     229     255 ..     125     151 ..     113     174 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 2e-06
                              HCS---EEEE-SSSSSHHHHHHHHHHH CS
           Myotub-related 229 elekssvLvhcsdGwDrtsqlsslaql 255
                              ++++++v +hc++G Drt  l++l  +
  PHY93_02870|PHY93_02870 125 DQNNQPVFIHCEHGADRTGLLVALYRV 151
                              57899******************9876 PP

>> PTPlike_phytase  Inositol hexakisphosphate
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   7.1e-05      0.18     114     152 ..     112     149 ..      38     151 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 7.1e-05
                              -HHHHHHHHHHHHTS-TT-EEEEE-SSSSHHHHHHHHHH CS
          PTPlike_phytase 114 eeedfdalvsilkeapektalvfnCqmGrgRTTtamvia 152
                              e++ +d+++s++ + + ++++ ++C+ G  RT + ++++
  PHY93_02870|PHY93_02870 112 EDRAIDEVLSFMHDQN-NQPVFIHCEHGADRTGLLVALY 149
                              6789**********96.666778*********9988776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (192 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       401  (0.022366); expected 358.6 (0.02)
Passed bias filter:                      376  (0.0209716); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1242.84
//
Query:       PHY93_02875|PHY93_02875  [L=147]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      2e-19   70.4   0.0    2.5e-19   70.1   0.0    1.1  1  LMWPc     Low molecular weight phosphotyrosine protein phosph


Domain annotation for each model (and alignments):
>> LMWPc  Low molecular weight phosphotyrosine protein phosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.1   0.0   1.4e-23   2.5e-19       1     136 [.       6     132 ..       6     137 .. 0.79

  Alignments for each domain:
  == domain 1  score: 70.1 bits;  conditional E-value: 1.4e-23
                              EEEEESSSSSHHHHHHHHHHHHHHHTT-CCCEEEEEEESTSTTT-B--HHHHHHHHHTTS--TT-BB-BS-HHHHHHSSEEEESSH CS
                    LMWPc   1 vlfvClgNicRSpmAealfrkelekagleekvevdSaGtgalvgkradpravevlkekgislsghvarqlskeelaelDlilamde 86 
                              +lf C+gN+cRS+mAe ++r+ +     +ek+e++SaG++   ++ +++ra++v+ e g+++s+++++ l +     +D++ ++++
  PHY93_02875|PHY93_02875   6 ILFLCTGNSCRSQMAEGFARHFH-----GEKFEIYSAGIE---KHGMNQRAIKVMLESGVDISAQTSKTLDDLGPILFDYVYTVCG 83 
                              89********************4.....568*********...9*****************************************9 PP

                              HHHHHHHHHCCTTGGGGEEEGGGGSSTSS---HT.......TSS...HHHHHHHHHHHHH CS
                    LMWPc  87 enkreleslapekekakvkllgeyteqldieDPy.......yge...ieafeevldeiee 136
                              ++  el++l  + + a v+       ++  +DP          e    +++++v+dei +
  PHY93_02875|PHY93_02875  84 HAN-ELCPLFKG-N-AIVR-------HIGFDDPPklalglaD-EeeiLSHYRRVRDEIRS 132
                              777.9***9998.2.3333.......4445555433333221.12345666666666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (147 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       421  (0.0234815); expected 358.6 (0.02)
Passed bias filter:                      404  (0.0225333); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.26s 00:00:00.75 Elapsed: 00:00:00.46
# Mc/sec: 955.59
//
Query:       PHY93_02880|PHY93_02880  [L=144]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.6e-14   54.2   0.0    1.9e-14   53.9   0.0    1.1  1  Glyoxalase    Glyoxalase/Bleomycin resistance protein/Dioxyge
     0.0013   19.5   0.0     0.0019   19.0   0.0    1.3  1  Glyoxalase_6  Glyoxalase-like domain
      0.002   18.4   0.1      0.022   15.0   0.1    2.1  1  Glyoxalase_4  Glyoxalase/Bleomycin resistance protein/Dioxyge
     0.0088   16.0   0.1      0.016   15.1   0.1    1.4  1  Glyoxalase_2  Glyoxalase-like domain


Domain annotation for each model (and alignments):
>> Glyoxalase  Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.9   0.0   4.3e-18   1.9e-14       4     128 .]       4     117 ..       2     117 .. 0.95

  Alignments for each domain:
  == domain 1  score: 53.9 bits;  conditional E-value: 4.3e-18
                              EEEEEESHHHHHHHHHHHHHTSEEEEEEEEEESTEEEEEEEEETTTSEEEEEEEECCTTSCTHHCCBSCTSEEEEEEEEEHCHHHH CS
               Glyoxalase   4 hvallvgdleksldFYtkvLGfklvkktdnteeteglriaffhaggghielvlneapsgaakhvkkieetvhhvafialdvedvgk 89 
                              h++++v+++e+s++FY++v+G k  k td        ++a f+  + +++++   a +++  +     + v+h++  +++ + v++
  PHY93_02880|PHY93_02880   4 HLSINVKNVEESVEFYERVFGVKPQKFTD--------HYAKFDLKNPSLNFTMQTANETEGRSL----SRVNHLGIEVDSADAVAA 77 
                              99***************************........**************9998888888888....7789************** PP

                              HHHHHHHTTGEEEEEEECHHCTEEEEE.EEEETTSEEEEE CS
               Glyoxalase  90 aldrlkeagvkvvaepgrhyfgalysf.yfrDpdGillei 128
                              + d l e+gv   +e ++++  a+++  +f+DpdG+ +ei
  PHY93_02880|PHY93_02880  78 WEDLLTERGVVAKPEMNTECCYARQDKvWFQDPDGNSWEI 117
                              *********************99999889**********8 PP

>> Glyoxalase_6  Glyoxalase-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.0   0.0   4.2e-07    0.0019       3     106 ..       6     117 ..       4     118 .. 0.71

  Alignments for each domain:
  == domain 1  score: 19.0 bits;  conditional E-value: 4.2e-07
             Glyoxalase_6   3 vldaadpaalaaFwaaalgwevereeaaledpegvgpaaedaatllfqrvpe......paknr.vHldlavedld..aevarlval 79 
                               ++++++++ ++F+++++g++ ++      d+ +    ++ +  + +q++ e      +   r  Hl ++v+++d  a+ + l+  
  PHY93_02880|PHY93_02880   6 SINVKNVEESVEFYERVFGVKPQKFT----DHYAKFDLKNPSLNFTMQTANEtegrslS---RvNHLGIEVDSADavAAWEDLLTE 84 
                              6788999***************9999....44444444555777777887777664331...336999999666544677777777 PP

             Glyoxalase_6  80 GArvlreprdgthgr.......vlaDPeGneFcv 106
                               + v +++   t+          ++DP+Gn + +
  PHY93_02880|PHY93_02880  85 RGVVAKPEMN-TECCyarqdkvWFQDPDGNSWEI 117
                              7777755544.444468899999*******9876 PP

>> Glyoxalase_4  Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.1   4.8e-06     0.022       2      85 ..       4      78 ..       3      99 .. 0.71

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 4.8e-06
                             EEEEE-S-HHHHHHHHHH.TT-EESS--E.EETTTTEEEEEEEETTEEEEEE.EESSTT-THHHTS-EEEEEEEEES-HHHHHHH CS
             Glyoxalase_4  2 QigivVeDleaavarfsallGvgpwqryrdepqevdlafallgsgsvqieLi.eplegpeflaehgeglhhlaywvddldaavar 85
                             ++ i V+++e+ v+++++++Gv+p q+++d  +++dl+        + + +  ++ ++  +  +    ++hl+++vd+ da+ a+
  PHY93_02880|PHY93_02880  4 HLSINVKNVEESVEFYERVFGVKP-QKFTDHYAKFDLKN-------PSLNFTmQTANE--TEGRSLSRVNHLGIEVDSADAVAAW 78
                             8999*****************955.55566666665533.......233333033333..3346777888999999888877665 PP

>> Glyoxalase_2  Glyoxalase-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.1   3.6e-06     0.016       6     113 ..       7     117 ..       3     121 .. 0.62

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 3.6e-06
                              -EES-HHHHHHHHHHTT---EEEE-SSEEEETTS-.EEEEHHHHHH-------S--SS-EEEEEES-HHHHHHHH..GGGS-EEEE CS
             Glyoxalase_2   6 lvvkdieeskkFYedvlelkikldfGenvsfetgf.alkedlkelinldesiaeqsnnfeLyFevedvdaflqklkeaeniellhe 90 
                              + vk++ees +FYe v+  k ++   ++ +f+    +l+  +++  +++     + n++ +  + +d  a+ ++l  +  +    e
  PHY93_02880|PHY93_02880   7 INVKNVEESVEFYERVFGVKPQKFTDHYAKFDLKNpSLNFTMQTANETEGRSLSRVNHLGIEVDSADAVAAWEDLLTERGVVAKPE 92 
                              679****************9998777777776544344444444444444444455555555555554445566554444433333 PP

                              EEE-.T.TS-EEEEEE-TT--EEEE CS
             Glyoxalase_2  91 lkek.p.WgqrvirfyDpDkhiiEi 113
                              ++ +     q  + f DpD++  Ei
  PHY93_02880|PHY93_02880  93 MNTEcCyARQDKVWFQDPDGNSWEI 117
                              3332121468899999999999887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (144 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       402  (0.0224218); expected 358.6 (0.02)
Passed bias filter:                      330  (0.0184059); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.39u 0.26s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 1082.06
//
Query:       PHY93_02885|PHY93_02885  [L=134]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.3e-18   66.9   0.3    1.3e-18   66.9   0.3    2.1  2  MerR_1         MerR HTH family regulatory protein
    5.9e-17   62.0   0.2    8.3e-17   61.5   0.2    1.2  1  MerR-DNA-bind  MerR, DNA binding
    4.4e-15   55.2   0.3    7.2e-15   54.5   0.3    1.4  1  MerR           MerR family regulatory protein
     0.0018   18.6   5.7      0.029   14.7   5.7    2.4  1  Ribosomal_L12  Ribosomal protein L7/L12 C-terminal domain
  ------ inclusion threshold ------
      0.013   14.8   0.0      0.014   14.6   0.0    1.2  1  Phytochelatin  Phytochelatin synthase
       0.13   11.8   3.4       0.33   10.5   3.4    1.6  1  DUF2674        Protein of unknown function (DUF2674)
       0.19   11.7   0.0       0.34   10.9   0.0    1.4  1  Exc            Excisionase-like protein


Domain annotation for each model (and alignments):
>> MerR_1  MerR HTH family regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.9   0.3     5e-22   1.3e-18       2      67 ..       5      71 ..       4      72 .. 0.97
   2 ?    1.6   0.8      0.11   2.9e+02      45      68 ..      87     110 ..      86     111 .. 0.78

  Alignments for each domain:
  == domain 1  score: 66.9 bits;  conditional E-value: 5e-22
                             EHHHHHHHHTS-HHHHHHHHHHTT-S-EE.-TTS-EEEEHHHHHHHHHHHHHHHTT--GGG---XXX CS
                   MerR_1  2 sigevakilgvtthtlrywekegllkpkr.teggrryYtdedierLklikyLlkrGltlkgikklln 67
                             +ig++a+++ v+  t+r++ +eg lk +  + +g+ryY+++d   + +ik+ ++ G++lk+ik+ll+
  PHY93_02885|PHY93_02885  5 TIGKLAELVDVNIETIRFYHREGILKEPAkRANGYRYYSEDDASKIMFIKKVKELGFSLKEIKELLE 71
                             8***********************999999**********************************996 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.11
                              HHHHHHHHHHTT--GGG---XXXX CS
                   MerR_1  45 rLklikyLlkrGltlkgikkllns 68 
                              +Lk+i +L k+   lk+ikk l++
  PHY93_02885|PHY93_02885  87 VLKKIIELDKKINDLKQIKKSLEA 110
                              688888888888888888888765 PP

>> MerR-DNA-bind  MerR, DNA binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.5   0.2   3.2e-20   8.3e-17       3      65 .]      49     111 ..      47     111 .. 0.96

  Alignments for each domain:
  == domain 1  score: 61.5 bits;  conditional E-value: 3.2e-20
                              HHHHHHHHHHTT--HHHHHHHHHHHHSTTTBHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
            MerR-DNA-bind   3 RLkfIrrarrlGFsLdeIrelLalyddrappcqdvrallarklaeleeriaeLqalraeLaal 65 
                               + fI++ ++lGFsL+eI+elL++  +++++c++v++ + +k+ el+++i++L+++++ L+al
  PHY93_02885|PHY93_02885  49 KIMFIKKVKELGFSLKEIKELLEINSKPRATCELVKDKVLKKIIELDKKINDLKQIKKSLEAL 111
                              578*********************************************************986 PP

>> MerR  MerR family regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.5   0.3   2.8e-18   7.2e-15       1      38 []       5      42 ..       5      42 .. 0.99

  Alignments for each domain:
  == domain 1  score: 54.5 bits;  conditional E-value: 2.8e-18
                             EHHHHHHHHTTTHHHHHHHHHTTSSTSEEETTTSSEEE CS
                     MerR  1 tIgevAeltGvsprtLRyYEreGLipppeRtegGyRlY 38
                             tIg +Ael++v + t+R+Y+reG +++p ++++GyR+Y
  PHY93_02885|PHY93_02885  5 TIGKLAELVDVNIETIRFYHREGILKEPAKRANGYRYY 42
                             8************************************9 PP

>> Ribosomal_L12  Ribosomal protein L7/L12 C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   5.7   1.1e-05     0.029       9      47 ..      46      89 ..      42     118 .. 0.71

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1.1e-05
                             TT-HHHHHHHHHHHH---HHHHHHHHTTTTST......EEEEE-H CS
            Ribosomal_L12  9 gakKiaVIKaVreitglgLkeaKdlVeaapkv......vkegvsk 47
                             +a+Ki  IK V+e+ g++Lke K+l e   k+      vk++v k
  PHY93_02885|PHY93_02885 46 DASKIMFIKKVKEL-GFSLKEIKELLEINSKPratcelVKDKVLK 89
                             677**********9.**********99654332244445555544 PP

>> Phytochelatin  Phytochelatin synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.0   5.6e-06     0.014      69     118 ..      34      85 ..      13     117 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 5.6e-06
                              TTTTT-----TTTCCGSHS-HHHHHHH---HHHHHHHHHTTT...-EEEEEEG CS
            Phytochelatin  69 kwkgpwrwfteellldcciklekvkkeGitleelaelakcng...lkvevvra 118
                              k  + +r+++e+   ++ + ++kvk+ G +l+e++el++ n+   +++e+v++
  PHY93_02885|PHY93_02885  34 KRANGYRYYSEDDA-SKIMFIKKVKELGFSLKEIKELLEINSkprATCELVKD 85 
                              456789*******9.778889*****************999643344444444 PP

>> DUF2674  Protein of unknown function (DUF2674)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   3.4   0.00013      0.33       3      26 ..      86     109 ..      84     110 .. 0.93

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00013
                  DUF2674   3 kiiqKlvsfderkkDikkIekele 26 
                              k+ +K++ +d++ +D+k+I+k+le
  PHY93_02885|PHY93_02885  86 KVLKKIIELDKKINDLKQIKKSLE 109
                              678********************8 PP

>> Exc  Excisionase-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   0.00013      0.34      19      51 ..      17      50 ..      13      59 .. 0.85

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00013
                             HHHHHHHHHTT-EE.S--EEETTEEEEETT-EE- CS
                      Exc 19 letlrrWvreglit.PaPvkdGreylveedavkv 51
                              et+r + reg +  Pa   +G  y+ e+da k 
  PHY93_02885|PHY93_02885 17 IETIRFYHREGILKePAKRANGYRYYSEDDASKI 50
                             69*********7743777789**********885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (134 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1173  (0.0654247); expected 358.6 (0.02)
Passed bias filter:                      541  (0.0301746); expected 358.6 (0.02)
Passed Vit filter:                        61  (0.00340231); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.50u 0.25s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 913.91
//
Query:       PHY93_06000|PHY93_06000  [L=442]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.8e-22   77.6   0.0    1.7e-21   76.5   0.0    1.6  1  Glycos_transf_1  Glycosyl transferases group 1
    7.4e-14   52.3   0.0    1.5e-13   51.4   0.0    1.5  1  Glyco_trans_1_4  Glycosyl transferases group 1
  ------ inclusion threshold ------
      0.022   14.7   0.0      0.043   13.8   0.0    1.5  1  MazE_antitoxin   Antidote-toxin recognition MazE, bacterial a
      0.078   13.4   0.0       0.63   10.5   0.0    2.3  2  Glyco_trans_1_2  Glycosyl transferases group 1


Domain annotation for each model (and alignments):
>> Glycos_transf_1  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.5   0.0   3.8e-25   1.7e-21       1     166 [.     169     364 ..     169     367 .. 0.84

  Alignments for each domain:
  == domain 1  score: 76.5 bits;  conditional E-value: 3.8e-25
                              HHHHHHHHTTTTTT-EEEEEESS-TTTTTHHHHHHHHHCCCCCHCSCEEEEEES................STTHHHHHHHHHHH.. CS
          Glycos_transf_1   1 dkekkrkklgknekkkiilsvgrlekeKgvdllikafallkkqlnpnvklviaG...............ngeeekelkklaeel.. 69 
                              d+++ r+k+++ne++ +il+ gr++ +K+vd li+ +  l k++n+ v+l ++G               +g    +++    ++  
  PHY93_06000|PHY93_06000 169 DRREFRNKHNINEGDTVILYAGRVSLQKNVDILIQEYLNLIKNENSTVHLWVVGafddmgapfmgvktrDGYLYSKIQTILGHHpk 254
                              68899***********************************************************9999655555555555444322 PP

                              CTTCGGGEEECCHSSSHHHHHHCESEEEEEESS..BSS-HHHHHHHHTT--EEEETTTTHCHHCHTTT...........SEEEE-T CS
          Glycos_transf_1  70 elsdnviflgevsredleellknadifvlpsis..EgfGivllEAmaaglpviasnaggpaevvkdge...........tGllvkp 142
                              +   n++f g++++++l++++ ++d+f+  s +  E  G+++ EAma+glp++ ++ gg++    ++             Gl +k+
  PHY93_06000|PHY93_06000 255 GFTRNIKFWGRQDKDELKKIKAASDMFISLSLYhdEDYGMSPAEAMACGLPTLLTDWGGYSSFASKAWrcqlipvkiteFGLQIKT 340
                              6679*******************************************************998877666566666666666666666 PP

                              T-HHHHHHHHHHHHHSHHHHHHHH CS
          Glycos_transf_1 143 nnaealaeairklledeelrerlg 166
                              + + ++ ea+++   ++ +rer++
  PHY93_06000|PHY93_06000 341 TAISEFYEALNESYINDIDRERWS 364
                              666666666666666666666665 PP

>> Glyco_trans_1_4  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.4   0.0   3.3e-17   1.5e-13       3     106 ..     185     315 ..     183     351 .. 0.80

  Alignments for each domain:
  == domain 1  score: 51.4 bits;  conditional E-value: 3.3e-17
                              EEEEES---GG.GTHHHHHHHH.HHHH.HH..EEEEEES....---................HHHHHHHT....T-T.TEEEE--- CS
          Glyco_trans_1_4   3 vilfvGrleenvkgvdllleav.pllrkkd..vrlvivG....dgprp..............eeleelaa....gleerveftGfv 63 
                              vil+ Gr+   +k+vd+l+++   l+++++  v+l++vG                       ++++  +     g++ +++f G+ 
  PHY93_06000|PHY93_06000 185 VILYAGRV-SLQKNVDILIQEYlNLIKNENstVHLWVVGafddM---GapfmgvktrdgylySKIQTILGhhpkGFTRNIKFWGRQ 266
                              89******.556**********9999988678*******44320...12244444445555555554332456788999******* PP

                              ..THHHHHHHH-SEEEE--....---SHHHHHHHHTT-EEEE-TGGGTT CS
          Glyco_trans_1_4  64 ..edlaellaaadvfvaPs....egfglkllEamaaglpvVatdvggia 106
                                ++l+++ aa+d+f+  s    e  g++  Eama+glp+  td gg +
  PHY93_06000|PHY93_06000 267 dkDELKKIKAASDMFISLSlyhdEDYGMSPAEAMACGLPTLLTDWGGYS 315
                              8666*****************999*********************8854 PP

>> MazE_antitoxin  Antidote-toxin recognition MazE, bacterial antitoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   9.7e-06     0.043      13      30 ..     171     188 ..     171     201 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 9.7e-06
                              CCCHHHCCEECTCEEEEE CS
           MazE_antitoxin  13 kevrfelgireGdevele 30 
                              +e+r +++i+eGd+v+l+
  PHY93_06000|PHY93_06000 171 REFRNKHNINEGDTVILY 188
                              69**************98 PP

>> Glyco_trans_1_2  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.0       0.5   2.3e+03      14      47 ..       7      41 ..       4      53 .. 0.81
   2 ?   10.5   0.0   0.00014      0.63       1      36 [.     282     317 ..     282     328 .. 0.87

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 0.5
          Glyco_trans_1_2 14 rlfEaaacGafaltdda.egleelftpgkevilfe 47
                             r +Ea   G++ + ++  ++  +l+ ++ e+ +f+
  PHY93_06000|PHY93_06000  7 RSSEASTWGSCKVISPNlQDTYKLLPENIELSWFD 41
                             78899999999999977999999999999999997 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 0.00014
          Glyco_trans_1_2   1 ivLnpsrsespnlrlfEaaacGafaltddaegleel 36 
                              i+L + ++e+  +   Ea+acG + l +d+ g+  +
  PHY93_06000|PHY93_06000 282 ISLSLYHDEDYGMSPAEAMACGLPTLLTDWGGYSSF 317
                              567788889999999***********999*998766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (442 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       507  (0.0282782); expected 358.6 (0.02)
Passed bias filter:                      364  (0.0203023); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.61u 0.25s 00:00:00.86 Elapsed: 00:00:00.45
# Mc/sec: 2927.29
//
Query:       PHY93_02890|PHY93_02890  [L=243]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.1e-20   71.5   0.0    1.9e-09   37.7   0.1    2.0  2  Hydrolase_3      haloacid dehalogenase-like hydrolase
    3.8e-11   43.0   0.0    5.7e-11   42.4   0.0    1.2  1  S6PP             Sucrose-6F-phosphate phosphohydrolase
    0.00033   21.0   0.0       0.56   10.5   0.0    2.7  3  Hydrolase        haloacid dehalogenase-like hydrolase
    0.00074   20.0   0.5        1.2    9.5   0.0    3.0  3  HAD              haloacid dehalogenase-like hydrolase
  ------ inclusion threshold ------
      0.029   14.5   0.0        0.1   12.7   0.0    1.9  2  Hydrolase_6      Haloacid dehalogenase-like hydrolase
       0.05   12.7   0.0       0.45    9.6   0.0    2.1  2  Trehalose_PPase  Trehalose-phosphatase


Domain annotation for each model (and alignments):
>> Hydrolase_3  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.9   0.0   3.7e-11   1.1e-07       1      98 [.      12     109 ..      12     115 .. 0.86
   2 !   37.7   0.1   6.3e-13   1.9e-09     157     230 ..     137     210 ..     118     215 .. 0.92

  Alignments for each domain:
  == domain 1  score: 31.9 bits;  conditional E-value: 3.7e-11
                              EEEEIIIIIS-TTS---HHHHHHHHHHHHTTSEEEEE-SS-HHHHHHHHHHCC.CCSEEEEGGGTEEECTTTEEEEE--B-HHHHH CS
              Hydrolase_3   1 ialDlDGTLlnsdkkisektkeaikklkekgikvviATGRslravlpvleelg.ldlpvialNGaliddekgkilykstiskedvk 85 
                              +++D DGTL  +++ +s+   e+i+ l++k i +vi TGRsl++ + +l ++  l   ++   Ga++  + + i  +  +s++dv 
  PHY93_02890|PHY93_02890  12 VFSDFDGTLTFQEG-LSPVFFEIINLLESKKIPLVIVTGRSLSWGHFLLTHFPfLRDVIVEGGGAIVSRSGKFITEECLVSESDVL 96 
                              79*******66555.7**********************************999445777777778886666677799999****** PP

                              HHHHHHHHTTCEE CS
              Hydrolase_3  86 eiikllkennvei 98 
                              ++ ++++++ ve+
  PHY93_02890|PHY93_02890  97 KLADFVSDFAVEF 109
                              ****999887765 PP

  == domain 2  score: 37.7 bits;  conditional E-value: 6.3e-13
                              HHHHHHHHCTTTEEEEEESTTEEEEEETT-SHHHHHHHHHHHCT--GGGEEEEESSGGGHHHHHHSSEEEEETT CS
              Hydrolase_3 157 lekelksklnklltitssskgyleimpkgvsKgtalkklakelnisleeviafGDgeNDieMLeaaglgvAmgn 230
                              l++++++ l +   ++s+s+ +l++   +vsK+ a+ +++++ +   +e++ fGD+ ND +M++ + ++v + n
  PHY93_02890|PHY93_02890 137 LFNHIEDFLTSHHINFSTSNVHLNFWCGEVSKYMAVDHFLQKHKAVESECVFFGDSLNDQAMFKSFHNSVGVSN 210
                              577888888888899*******************************************************9998 PP

>> S6PP  Sucrose-6F-phosphate phosphohydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.4   0.0   1.9e-14   5.7e-11       3     210 ..      10     212 ..       8     225 .. 0.91

  Alignments for each domain:
  == domain 1  score: 42.4 bits;  conditional E-value: 1.9e-14
                              EEEEE-TBTTTB.S-HHHHHHHHHHHH.GGGGGEEEEEE-SS-HHHHHHHHHHHT----SEEEETTTTEEEE..TTEE-HHHHHHH CS
                     S6PP   3 lllvsdLDntlvdgdnealarlnelleaeerkdvllvfaTGRsldsakellkeknllkPdvlitsvGteiyygeelvpdkaweeil 88 
                              +++ sd D+tl+  ++     + e+++  e+k++ lv++TGRsl+    ll+ ++ l+ dv++   G+ +  + + + ++   +  
  PHY93_02890|PHY93_02890  10 KIVFSDFDGTLT-FQEGLSPVFFEIINLLESKKIPLVIVTGRSLSWGHFLLTHFPFLR-DVIVEGGGAIVSRSGKFITEECLVSES 93 
                              5789********.55555567777888788***************************9.999999999999999***********9 PP

                              HTT--HHHHHHHHHT-TTEEE--GGG-BTTBEEEEE-TTS-THHHHHHHHHHHTTTS-EEEEEETTTEEEEEETT-SHHHHHHHHH CS
                     S6PP  89 dekwdrqavvealaklpeLtlQpeeeqrehKvSyfvdkekaaevlkeleqlLekreldvkviyssgkdlDvlPkraskgeAlryLa 174
                              d     + v + + ++p ++l  ++  r+      +++ +   + +++e+ L++++++ ++   s+  l     + sk  A+ +++
  PHY93_02890|PHY93_02890  94 DVLKLADFVSDFAVEFPSIKLSVDSFGRKTDRAIELHDLQDGVLFNHIEDFLTSHHINFST---SNVHLNFWCGEVSKYMAVDHFL 176
                              *99999**********************9999999999999999***********998775...67889999************** PP

                              HHHT--GGGEEEEE-SGGGHHHHTSSSEEEE-TT-- CS
                     S6PP 175 kkleleleqilvcGdsgnDeellignvlgVvVgnaq 210
                              +k+++  ++ ++ Gds nD++++++   +V V+n  
  PHY93_02890|PHY93_02890 177 QKHKAVESECVFFGDSLNDQAMFKSFHNSVGVSNIA 212
                              *********************************965 PP

>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.7   0.1    0.0026       7.9       2      26 ..      10      37 ..       9      48 .. 0.78
   2 ?    1.9   0.0     0.077   2.3e+02     125     151 ..      32      58 ..      22      83 .. 0.78
   3 !   10.5   0.0   0.00019      0.56     182     208 ..     175     201 ..     135     203 .. 0.76

  Alignments for each domain:
  == domain 1  score: 6.7 bits;  conditional E-value: 0.0026
                             SEEEEESBTTTBCHH...HHHHHHHHHH CS
                             xxxxxxxxxxxxxxx...xxxxxxxxxx RF
                Hydrolase  2 ktvvfDkdGTLttge...psvedvivsa 26
                             k v+ D+dGTLt  e   p+  ++i+ +
  PHY93_02890|PHY93_02890 10 KIVFSDFDGTLTFQEglsPVFFEIINLL 37
                             8899********8887777777777666 PP

  == domain 2  score: 1.9 bits;  conditional E-value: 0.077
                              HHHHHHHHTTEEEEEEESSEHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 125 eavasLkaagievvlltgdnpetaera 151
                              e ++ L +++i++v++tg + +  + +
  PHY93_02890|PHY93_02890  32 EIINLLESKKIPLVIVTGRSLSWGHFL 58 
                              678889999*********987766655 PP

  == domain 3  score: 10.5 bits;  conditional E-value: 0.00019
                              HHHHHTSTGGGEEEEESSHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 182 aireLqgkpeevamVGDgvnDaaalaa 208
                               +++ ++  +e++++GD++nD a+++ 
  PHY93_02890|PHY93_02890 175 FLQKHKAVESECVFFGDSLNDQAMFKS 201
                              45555566899*************986 PP

>> HAD  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.9   0.4    0.0051        15       1      14 [.      12      25 ..      12      35 .. 0.72
   2 ?    2.3   0.0     0.065   1.9e+02      88     123 ..      28      63 ..      22     101 .. 0.75
   3 !    9.5   0.0   0.00041       1.2     151     188 .]     165     200 ..     136     200 .. 0.77

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.0051
                      HAD  1 alfDfDgTLldgds 14
                             +++DfDgTL+ ++ 
  PHY93_02890|PHY93_02890 12 VFSDFDGTLTFQEG 25
                             799******87744 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.065
                      HAD  88 pgalellaahraaGdrvvvvSgglrplvepllaelg 123
                              p + e+++   ++ +++v+v+g    + + ll ++ 
  PHY93_02890|PHY93_02890  28 PVFFEIINLLESKKIPLVIVTGRSLSWGHFLLTHFP 63 
                              55778888788999********98777666666555 PP

  == domain 3  score: 9.5 bits;  conditional E-value: 0.00041
                      HAD 151 gegkvaalrewlaaegegidleevvayGDspsDlpllr 188
                              +  k  a++   + +++++ ++e+v++GDs +D ++++
  PHY93_02890|PHY93_02890 165 EVSKYMAVDH--FLQKHKAVESECVFFGDSLNDQAMFK 200
                              5556667777..66677788889***********9986 PP

>> Hydrolase_6  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   3.4e-05       0.1       1      40 [.      12      51 ..      12      56 .. 0.94
   2 ?   -2.3   0.0       1.6   4.8e+03      67      89 ..     169     191 ..     166     201 .. 0.63

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 3.4e-05
                             EEEESTTTSEETTEE-TTHHHHHHHHHHTT-EEEEEE--- CS
              Hydrolase_6  1 flfDidGvLwrgdkaipgaaealnalraagkpvvllTNns 40
                             +++D dG+L  ++ + p   e++n l+++++p+v++T +s
  PHY93_02890|PHY93_02890 12 VFSDFDGTLTFQEGLSPVFFEIINLLESKKIPLVIVTGRS 51
                             579**********************************765 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 1.6
                              HHHHHHHHHHHSXXXEEEEESXH CS
              Hydrolase_6  67 ataaaeylkkrkadkkvlvigee 89 
                              ++a+ ++l+k+ka ++  v+ ++
  PHY93_02890|PHY93_02890 169 YMAVDHFLQKHKAVESECVFFGD 191
                              67788888888765544444444 PP

>> Trehalose_PPase  Trehalose-phosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.9   0.0     0.071   2.1e+02       1      47 [.      13      52 ..      13      56 .. 0.69
   2 ?    9.6   0.0   0.00015      0.45     162     205 ..     166     206 ..     128     223 .. 0.81

  Alignments for each domain:
  == domain 1  score: 0.9 bits;  conditional E-value: 0.071
                             EEETBTTTB---SSGGG--B-TTHHHHHHHHHTTS-..EEEE-SS-H CS
          Trehalose_PPase  1 flDydGTlspivedpdaavpssellslLkkLasdpknvvaivSGrsl 47
                             f D+dGTl+ +        +s+   ++++ L s+ k+ ++iv+Grsl
  PHY93_02890|PHY93_02890 13 FSDFDGTLTFQEG------LSPVFFEIINLLESK-KIPLVIVTGRSL 52
                             6799999986554......666666666666555.555888888886 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 0.00015
                              --HHHHHHHHHHTS--------EEEEEE-SSTTHHHHTTS-TT. CS
          Trehalose_PPase 162 vsKGkaverlleslgsadseddfvlciGDdrtDedmFsvlrktk 205
                              vsK  av+++l++ +      +  ++ GD + D+ mF+++++  
  PHY93_02890|PHY93_02890 166 VSKYMAVDHFLQKHKAV---ESECVFFGDSLNDQAMFKSFHNSV 206
                              78999******999977...3344467*************9974 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (243 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       413  (0.0230353); expected 358.6 (0.02)
Passed bias filter:                      359  (0.0200234); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.43
# Mc/sec: 1686.55
//
Query:       PHY93_02895|PHY93_02895  [L=209]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (209 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       380  (0.0211947); expected 358.6 (0.02)
Passed bias filter:                      343  (0.019131); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.26s 00:00:00.78 Elapsed: 00:00:00.46
# Mc/sec: 1377.99
//
Query:       PHY93_20595|PHY93_20595  [L=150]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.9e-31  108.5   0.8    3.2e-31  108.3   0.8    1.0  1  adh_short        short chain dehydrogenase
    1.9e-21   76.7   0.6    2.2e-21   76.5   0.6    1.0  1  adh_short_C2     Enoyl-(Acyl carrier protein) reductase
    4.1e-12   46.4   0.6    5.2e-12   46.0   0.6    1.1  1  KR               KR domain
     0.0014   18.1   0.2     0.0017   17.9   0.2    1.1  1  Epimerase        NAD dependent epimerase/dehydratase family
  ------ inclusion threshold ------
      0.019   14.4   0.2      0.021   14.2   0.2    1.1  1  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
      0.031   14.4   0.1      0.048   13.7   0.0    1.4  2  DpaA_N           Dipicolinate synthase subunit A N-terminal d
      0.037   13.9   0.1      0.044   13.7   0.1    1.2  1  3HCDH_N          3-hydroxyacyl-CoA dehydrogenase, NAD binding
      0.074   12.2   0.2      0.091   11.9   0.2    1.1  1  Polysacc_synt_2  Polysaccharide biosynthesis protein
      0.082   13.0   0.4       0.15   12.1   0.3    1.6  1  Shikimate_DH     Shikimate / quinate 5-dehydrogenase


Domain annotation for each model (and alignments):
>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  108.3   0.8   1.6e-34   3.2e-31       1     143 [.       7     149 ..       7     150 .] 0.98

  Alignments for each domain:
  == domain 1  score: 108.3 bits;  conditional E-value: 1.6e-34
                              SEEEEESTTSHHHHHHHHHHHHTT-EEEEEESCHHHHHHHHHHHHHTTSEEEEEE-TTTSHHHHHHHHHHHHHHHSSESEEEE--- CS
                adh_short   1 kvvlvtGassGIGraiakelakeGakvvvvdrseekleevakelkeegakalaiqvDvtdreevealvekavkklgkldvLvnNAG 86 
                              k +l+tG++sGIG+ +a +la++Ga+v+++d++  ++++va+ +k+ g +a+a+ vD+t+ +++++l +++ +   ++d+L+nNAG
  PHY93_20595|PHY93_20595   7 KKILITGGASGIGKLMASTLAQRGAEVIIADINIFDARKVAADIKQSGGRAHAFLVDLTSIDSIKKLKSQVSASGLQIDALINNAG 92 
                              689*********************************************************************************** PP

                              SS--SSGGGCSHHHHHHHHHHHTHHHHHHHHHHHHHHHHCTTEEEEEEEEGGGTSB- CS
                adh_short  87 itgsgpfselseeewervievNltgvflltravlpamlkqssGrIvnvsSvagkvpv 143
                              +   g+f++ls e+   ++ vN+ g++ +t+ ++  + k+s ++Ivn++S  g v++
  PHY93_20595|PHY93_20595  93 VVFGGEFENLSLEKHLLTYRVNVDGLVAMTHVFFSDLRKSSDANIVNIASASGYVGL 149
                              ****************************************************98876 PP

>> adh_short_C2  Enoyl-(Acyl carrier protein) reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.5   0.6   1.1e-24   2.2e-21       1     135 [.      13     149 ..      13     150 .] 0.91

  Alignments for each domain:
  == domain 1  score: 76.5 bits;  conditional E-value: 1.1e-24
                              TTTTSHHHHHHHHHHHTT-EEEEEESSGGH.HHHHHHHHHHTTSE.EEE--TTSHHHHHHHHHHHHHHHSSEEEEEE-----EGCS CS
             adh_short_C2   1 GaasgIGraiAkalaeeGaevvltdlneea.kkrveelaeelgae.vlecDVtdeeqvealveevvekfgklDilvnnagiapklk 84 
                              G asgIG+ +A +la++Gaev+++d+n  + +k ++++++++g++ ++ +D t+ +++++l ++v ++  ++D l+nnag++    
  PHY93_20595|PHY93_20595  13 GGASGIGKLMASTLAQRGAEVIIADINIFDaRKVAADIKQSGGRAhAFLVDLTSIDSIKKLKSQVSASGLQIDALINNAGVVFG-- 96 
                              669************************99967777777777775557************************************9.. PP

                              S-GGGH-HHHHHHHHHHHTHHHHHHHHHHHH.HCTSC.CEEEEEEEGGGTSBS CS
             adh_short_C2  85 gpfletsreefdraldvnlyslfllakaalp.lmkeg.gsivnlssvgaervv 135
                              g+f+++s e+   +  vn+ +l+++++ +   l k++ ++ivn++s ++ +++
  PHY93_20595|PHY93_20595  97 GEFENLSLEKHLLTYRVNVDGLVAMTHVFFSdLRKSSdANIVNIASASGYVGL 149
                              *****************************996666668*********998776 PP

>> KR  KR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.0   0.6   2.6e-15   5.2e-12       4     142 ..      10     148 ..       8     150 .] 0.89

  Alignments for each domain:
  == domain 1  score: 46.0 bits;  conditional E-value: 2.6e-15
                              EEETTTSHHHHHHHHHHHHHHS-EEEEE-SS..--HHHHHHHHHHHHTT-EEEE----TT-HHHHHHHHHHHHHHSS---EEEE-- CS
                       KR   4 litGGlGgLGlelarwlaekgarhlvllsRsaaadedskaliaelealgaevevvaaDvsdkdavealleeikaeeppikGvihaA 89 
                              litGG+ g+G+ +a +la++ga+ ++          d+++  a ++++g + +++ +D+++ d++++l ++++a++ +i   i+ A
  PHY93_20595|PHY93_20595  10 LITGGASGIGKLMASTLAQRGAEVIIADINI----FDARKVAADIKQSGGRAHAFLVDLTSIDSIKKLKSQVSASGLQIDALINNA 91 
                              9*********************998875555....566678899****************************************** PP

                              -------TTT--HHHHHHHHTTTTHHHHHHHHHTTT...S--SE.EEEEEEHHHHH- CS
                       KR  90 gvlrdklleemtaedleqvlapKvkGawnLhelled...esldf.fvlfSSiagllg 142
                              gv+  + +e+++ e+    ++  v+G+  + +++ +   +s d  +v ++S++g +g
  PHY93_20595|PHY93_20595  92 GVVFGGEFENLSLEKHLLTYRVNVDGLVAMTHVFFSdlrKSSDAnIVNIASASGYVG 148
                              ****************************99888765476555542677888888887 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.2   8.5e-07    0.0017       1     102 [.       9     125 ..       9     146 .. 0.71

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 8.5e-07
                              EEEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHC.......EEEE--TT-HHHHHHHHHH....H.T-SEEEE--S. CS
                Epimerase   1 ilVtGatGfiGsalvkallekgyevigldrlssasntarledl.......elveldltdrsalerlfke....e.qpdavihlAa. 73 
                              il+tG++  iG+ ++  l+++g evi  d +  + ++ + +d+       +   +dlt  +++++l ++      q+da i+ A+ 
  PHY93_20595|PHY93_20595   9 ILITGGASGIGKLMASTLAQRGAEVIIADINIFDARKVA-ADIkqsggraHAFLVDLTSIDSIKKLKSQvsasGlQIDALINNAGv 93 
                              8***********************999999855554443.3345899999888999999998888766522222478999999997 PP

                              ---HH...HHHHSHHHHHHHHTHHHHHHHHHH CS
                Epimerase  74 vggva...assedpadfieknlqgtlnlleaa 102
                              v g +    s e+   +++ n+ g + + ++ 
  PHY93_20595|PHY93_20595  94 VFGGEfenLSLEKHLLTYRVNVDGLVAMTHVF 125
                              66553111455666667777777776666665 PP

>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.2   1.1e-05     0.021       1     110 [.      10     122 ..      10     146 .. 0.72

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 1.1e-05
                              EEETTTSHHHHHHHHHHHHCT-CCEEEEEEESS-TTHHHHHCTTT...TTGCCEEEEE--TT-HHHHHHHHHHH.....T-SEEEE CS
            GDP_Man_Dehyd   1 LiTGiaGfiGsylaelLlekgyevhgivrrsssfntgriehlakdpkeeleenlklhkgDltDssslerllaev.....qpdevyn 81 
                              LiTG+a  iG  +a  L ++g ev+  + + + f+++++++  k    +  ++ + + +Dlt  +s+++l ++v     q+d+ +n
  PHY93_20595|PHY93_20595  10 LITGGASGIGKLMASTLAQRGAEVI--IADINIFDARKVAADIK----QSGGRAHAFLVDLTSIDSIKKLKSQVsasglQIDALIN 89 
                              9***********************5..55667777777765443....23578888889999999999998887666668888888 PP

                              --S---....HHHHTTSHHHHHHHHTHHHHHHH CS
            GDP_Man_Dehyd  82 LAAqsh....VdvsfekPeytaevnvlGtlrLL 110
                               A+  +     + s+ek   t++vnv G + + 
  PHY93_20595|PHY93_20595  90 NAGVVFggefENLSLEKHLLTYRVNVDGLVAMT 122
                              887654111145677777777777777777665 PP

>> DpaA_N  Dipicolinate synthase subunit A N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -4.3   0.0         9   1.8e+04      88      96 ..       6      14 ..       3      18 .. 0.60
   2 ?   13.7   0.0   2.4e-05     0.048      14      97 ..      22      99 ..      19     115 .. 0.89

  Alignments for each domain:
  == domain 1  score: -4.3 bits;  conditional E-value: 9
                             TT-EEEESS CS
                   DpaA_N 88 kgqllfgGi 96
                             k+++l++G 
  PHY93_20595|PHY93_20595  6 KKKILITGG 14
                             455566555 PP

  == domain 2  score: 13.7 bits;  conditional E-value: 2.4e-05
                             HHHHHHHTT-EEEEES-TSSS-BTTEEEE-GGGS-GGG-SEEE--TT-BETTTEE-BSS-SS-EE-HHHHHTS-TT-EEEESS- CS
                   DpaA_N 14 larkLaekgakvslygleleekiegvekaesleealedadviilPvpgtkdggeintpfseeklsleelleklkkgqllfgGii 97
                             +a +La++ga+v ++ +   + ++  + a+++++   +a+++++ ++ ++  +++++++s++ l+++ l   +++  ++fgG +
  PHY93_20595|PHY93_20595 22 MASTLAQRGAEVIIADI---NIFDARKVAADIKQSGGRAHAFLVDLTSIDSIKKLKSQVSASGLQIDAL---INNAGVVFGGEF 99
                             899**************...99*****************************************999765...566677787765 PP

>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.1   2.2e-05     0.044       6      97 ..      14     109 ..      10     143 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 2.2e-05
                              --SCCHHHHHHHHHHTT-EEEEE-S-HHHHHHHHHHHHHHHHCCTT..TTSS-HHHHCCCHHCEEEE.S-HHHHH.C-SEEEE-S- CS
                  3HCDH_N   6 GaGtmGagiaavfasagleVvlvdiseealekalekieksleklve..kgklkeeeveaalarisft.tdleeav.dadlviEavv 87 
                              Ga  +G+ +a+ +a++g eV + di+   ++k+++ i++s  ++++     ++ ++++++ +++s++  ++++++ +a +v+   +
  PHY93_20595|PHY93_20595  14 GASGIGKLMASTLAQRGAEVIIADINIFDARKVAADIKQSGGRAHAflVDLTSIDSIKKLKSQVSASgLQIDALInNAGVVFGGEF 99 
                              6667999*******************999999999999955444331133444668888888888652577888888899999889 PP

                              SSHHHHHHHH CS
                  3HCDH_N  88 EnlelKrkvf 97 
                              Enl+l ++++
  PHY93_20595|PHY93_20595 100 ENLSLEKHLL 109
                              9888877665 PP

>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.2   4.6e-05     0.091       1      74 [.       9      78 ..       9      93 .. 0.70

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 4.6e-05
                             EEEETTTSHHHHHHHHHHHHHB-SEEEEEES-HHHHHHHHHH......-TTEEEE....E--TT-HHHHHHHTT CS
          Polysacc_synt_2  1 vlvtGagGsiGselvrqilkkkpkkiillerdElklyeiekeleeelkkkklkveivpvigdvrdkerlekale 74
                             +l+tG++  iG+ + +++ +++ +++i+ + + +   +++ +++++  + +   + ++ ++++   ++l++ ++
  PHY93_20595|PHY93_20595  9 ILITGGASGIGKLMASTL-AQRGAEVIIADINIFDARKVAADIKQSGGRAHA--F-LVDLTSIDSIKKLKSQVS 78
                             89*********8776665.5566789999*9999999999998666555333..2.445666666666666555 PP

>> Shikimate_DH  Shikimate / quinate 5-dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.3   7.4e-05      0.15       9      59 ..       3      53 ..       1      81 [. 0.86

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 7.4e-05
                             ..TT-EEEEES.-SHHHHHHHHHHHCCT-CEEEEEESSHHHHHHHHHHHT.E CS
             Shikimate_DH  9 slkekkvlliG.aGemaelvakhLlakgvkkvvvaNRtlerakelaeelkge 59
                             ++++kk+l+ G a  +++l+a+ L+++g++ v++a  ++  a+++a ++k+ 
  PHY93_20595|PHY93_20595  3 NFSKKKILITGgASGIGKLMASTLAQRGAE-VIIADINIFDARKVAADIKQS 53
                             788999999953889*************99.**************9999776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (150 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       528  (0.0294495); expected 358.6 (0.02)
Passed bias filter:                      446  (0.0248759); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.44
# Mc/sec: 1020.06
//
Query:       PHY93_20600|PHY93_20600  [L=233]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (233 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       326  (0.0181828); expected 358.6 (0.02)
Passed bias filter:                      258  (0.0143901); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1568.08
//
Query:       PHY93_20605|PHY93_20605  [L=440]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.8e-61  207.0   0.0    5.6e-61  206.8   0.0    1.0  1  Amidohydro_1  Amidohydrolase family
      2e-13   50.7   0.3    2.6e-09   37.1   0.0    2.3  2  Amidohydro_3  Amidohydrolase family


Domain annotation for each model (and alignments):
>> Amidohydro_1  Amidohydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  206.8   0.0   6.2e-65   5.6e-61       1     343 [.      71     435 ..      71     436 .. 0.93

  Alignments for each domain:
  == domain 1  score: 206.8 bits;  conditional E-value: 6.2e-65
                              EEEE-EEEEEEECETTECSSS...GHHHHH...........STTHHHHHHHHHHHHHHHHTTEEEEEEEEHSSTHHHHHHHHHHHT CS
             Amidohydro_1   1 ivlPGlIDaHvHleqsllrga...tledwl...........vppetaaealesgiktalksGtttvadmgattstgiealleaaee 72 
                              +vlPG+ID+H+H++q+ ++ga   +l dwl            + ++a+ ++e ++ + lk+Gtttv  + ++++++++a +e+a +
  PHY93_20605|PHY93_20605  71 LVLPGFIDTHIHYPQTQIMGAfgkQLIDWLnnytfiaeqqfSNFDYAKKVAEFFLDECLKAGTTTVMTYCTVHPESVDAFFESATD 156
                              59********************************************************************************8888 PP

                              SSSEEEEEEESSEGGS........GCCCSHHHHHHHHHHHHHHHHHHCTTTCEEEEEEECGTCCSHHHHHHHHHHHHHHH.TTEEE CS
             Amidohydro_1  73 lplglrilggkvsldr........gsaetskasreklkagaaetikgkadgvvkvalapheapafsdeelkealkeakkr.dlpva 149
                                 ++r+++gkv +dr        +sa+t  ++  +l+  +    +   +g+++ a++p++ap+ + e+l+    + kk  +++++
  PHY93_20605|PHY93_20605 157 R--KMRVIAGKVLMDRnappalldKSAQTGYDQSLALINKW----H--DKGRLSYAITPRFAPTSTHEQLESTGALWKKVpGTYMQ 234
                              5..9*****************88888888888888887777....3..456777******************************** PP

                              EEETSSCHHHHHHHHHHTTTEEEETTTTSTCCHHTTTHCCEEEHCTCEEEHHHHHHHHHHHHHHCEEHHHHHHHHSEHHHHHHHHH CS
             Amidohydro_1 150 iHaletkgevedaeaafgetiehgthlevaeslglldeiklilahgvhltpteaellkerlkeagvahcpfsnsilrsgrealrka 235
                              +H++e+ ge++++++ f+    h+ +l+v++ +gll++ +++  h vhl   e+ ++ e   +++vahcp+sn+ l+sg+++++ a
  PHY93_20605|PHY93_20605 235 THVSENIGEIAWVKELFP---DHKDYLDVYDYYGLLGK-RAVYGHAVHLNEREWQRMYET--GSSVAHCPTSNEFLGSGLFNFETA 314
                              ******************...9999*************.*********************..************************ PP

                              HHH..TSCEEEEEECTTSSCCGGHHHHHHHHHHHHHHCCTTTTHCHCHHHHHHHHHTHHHHHHTT-TTTSSSS-TTSB--EEEECC CS
             Amidohydro_1 236 lde..GvkvglgtDgaasgnslnlleelrlalklqrgllyedeegglslkealrmaTingAkalglddkvGsievGkdADlvvvdl 319
                               ++   vkvgl+tD  ++g s++ l+++   +k+++      +   ls  +a+++aT ++A+algl+dk+Gsi++G +ADl+v+dl
  PHY93_20605|PHY93_20605 315 KKKerPVKVGLATD-IGAGTSFSQLQSMNESYKIAQ-----LGGFALSSIHAFYLATKGAAEALGLEDKIGSIKPGMEADLIVLDL 394
                              98856799******.*****************9999.....3355688888*********************************** PP

                              CT.................CGGGTTTCTSEEEEEEEETTEE CS
             Amidohydro_1 320 di.................laafvglkkdgnvkkvivkGkl 343
                              ++                 l   + + +d+ +k v+v+G +
  PHY93_20605|PHY93_20605 395 KStslidfrmghcknieeaLFIQMIMGDDRATKAVYVAGSI 435
                              44457788999999999887777788889999999999965 PP

>> Amidohydro_3  Amidohydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.5   0.2   1.7e-05      0.15       8      24 ..      70      86 ..      68     101 .. 0.82
   2 !   37.1   0.0   2.9e-13   2.6e-09     358     452 ..     311     402 ..     265     437 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 1.7e-05
             Amidohydro_3  8 rlvlPGFvDsHtHlagg 24
                              lvlPGF+D H+H   +
  PHY93_20605|PHY93_20605 70 SLVLPGFIDTHIHYPQT 86
                             68***********5555 PP

  == domain 2  score: 37.1 bits;  conditional E-value: 2.9e-13
             Amidohydro_3 358 tpvkellnagvkvalgsDapvgpfdpwprigaavmrktrrggevlrpdeelsleealalyTrgpAkalgledrkGtLevGadADlv 443
                              + ++  ++ +vkv l++D  +g  ++++ +++++ +++ ++      +  ls  +a+ l T+g+A+algled+ G++++G++ADl+
  PHY93_20605|PHY93_20605 311 FETAKKKERPVKVGLATD--IGAGTSFSQLQSMNESYKIAQL----GGFALSSIHAFYLATKGAAEALGLEDKIGSIKPGMEADLI 390
                              566778899*********..99999*********99999886....777899999******************************* PP

             Amidohydro_3 444 vld...adpldv 452
                              vld   + ++d+
  PHY93_20605|PHY93_20605 391 VLDlksTSLIDF 402
                              ***766555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (440 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       358  (0.0199677); expected 358.6 (0.02)
Passed bias filter:                      335  (0.0186848); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.64u 0.24s 00:00:00.88 Elapsed: 00:00:00.47
# Mc/sec: 2828.61
//
Query:       PHY93_20610|PHY93_20610  [L=129]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.3e-18   64.2   0.0    1.2e-17   63.9   0.0    1.1  1  MGS       MGS-like domain
  ------ inclusion threshold ------
       0.12   12.6   0.0       0.17   12.1   0.0    1.3  1  Arr-ms    Rifampin ADP-ribosyl transferase


Domain annotation for each model (and alignments):
>> MGS  MGS-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.9   0.0   1.3e-21   1.2e-17       2      95 .]      21     112 ..      20     112 .. 0.96

  Alignments for each domain:
  == domain 1  score: 63.9 bits;  conditional E-value: 1.3e-21
                              HHHHHHHHHHTT..CEEEEEHHHHHHHHHTT--EEECCCCHSTGSGGTHCHHHHHHHHTTSCCEEEEE--THHHHHH.CHHHHHHH CS
                      MGS   2 lvelakklkelg..fellATgGTakllkeagipvtevvektgegerlggrveildaikngeidlvintlypfkatva.kdgykirr 84 
                              ++ ++k+  e    fel+AT +T+kll+++g++    v+k+ +g ++gg+ +i ++++ g+ ++vi+  +p+   ++ +d  ++ r
  PHY93_20610|PHY93_20610  21 MIAFVKDNLEFFktFELVATATTGKLLQQTGLK----VKKVLSG-PMGGDAQIAAMVATGKCQAVIFMRDPLGMHPHdPDISSLLR 101
                              78899998888778*******************....*******.********************************999****** PP

                              HHHHTTSHEES CS
                      MGS  85 aaenidIplpt 95 
                              +++++d+pl+t
  PHY93_20610|PHY93_20610 102 ICDVHDVPLAT 112
                              *********98 PP

>> Arr-ms  Rifampin ADP-ribosyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   1.9e-05      0.17      35      71 ..      60      96 ..      36     100 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 1.9e-05
                   Arr-ms 35 tatldaailaaelaagdgkervyvveptGeleddpnv 71
                               +  +a++aa +a+g+ +  +++ +p+G   +dp++
  PHY93_20610|PHY93_20610 60 GPMGGDAQIAAMVATGKCQAVIFMRDPLGMHPHDPDI 96
                             5566789****************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (129 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       434  (0.0242066); expected 358.6 (0.02)
Passed bias filter:                      397  (0.0221429); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.42
# Mc/sec: 931.37
//
Query:       PHY93_20615|PHY93_20615  [L=161]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (161 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       877  (0.0489152); expected 358.6 (0.02)
Passed bias filter:                      458  (0.0255452); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.26s 00:00:00.73 Elapsed: 00:00:00.43
# Mc/sec: 1118.38
//
Query:       PHY93_20620|PHY93_20620  [L=123]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (123 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       427  (0.0238162); expected 358.6 (0.02)
Passed bias filter:                      332  (0.0185175); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.42
# Mc/sec: 872.59
//
Query:       PHY93_20625|PHY93_20625  [L=147]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (147 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       576  (0.0321267); expected 358.6 (0.02)
Passed bias filter:                      389  (0.0216967); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.27s 00:00:00.70 Elapsed: 00:00:00.42
# Mc/sec: 1047.51
//
Query:       PHY93_06005|PHY93_06005  [L=334]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (334 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       513  (0.0286129); expected 358.6 (0.02)
Passed bias filter:                      366  (0.0204139); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.59u 0.23s 00:00:00.82 Elapsed: 00:00:00.45
# Mc/sec: 2227.46
//
Query:       PHY93_20630|PHY93_20630  [L=102]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-19   70.8   0.0    1.2e-19   70.6   0.0    1.0  1  AAA_14    AAA domain
  ------ inclusion threshold ------
       0.16   12.1   0.0       0.19   11.8   0.0    1.2  1  MMR_HSR1  50S ribosome-binding GTPase


Domain annotation for each model (and alignments):
>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.6   0.0   1.3e-23   1.2e-19      11     122 ..       1     101 [.       1     102 [] 0.88

  Alignments for each domain:
  == domain 1  score: 70.6 bits;  conditional E-value: 1.3e-23
                   AAA_14  11 RrvGKTtllkqlikellvkkesilyinldderdkkladpekllelileklkeekktylflDEiqevpewekalkslvdeg..knld 94 
                              R++GK+tl+k+l  +         y++l++++d++l ++   + +++++  + +++ +++DE+q++pe++k+l++++d++  k+++
  PHY93_20630|PHY93_20630   1 RQCGKSTLVKNLTGDWR-------YYDLESPEDYQLITK--DPAIFFQL--N-GDK-IIIDEVQQYPELFKVLRGVIDQDrsKKGR 73 
                              9*********9996666.......*********987755..47888886..2.444.*********************666699** PP

                   AAA_14  95 vivtGSnskllskeiatslagrvaeiel 122
                              +i+tGS+s  + k +++slagr+a++el
  PHY93_20630|PHY93_20630  74 FILTGSSSPEIIKGLTESLAGRIATVEL 101
                              ************************9998 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   2.2e-05      0.19      10      47 ..       3      44 ..       2      76 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 2.2e-05
                             SSHHHHHHHHHTS.....TEEESSSTTSSSSE.EEEEEEETTEE CS
                 MMR_HSR1 10 vGKStLinaltge.....kaivsdkpgtTrdi.negrvklkgke 47
                              GKStL++ ltg+         +d++  T+d+ ++++++  g++
  PHY93_20630|PHY93_20630  3 CGKSTLVKNLTGDwryydLESPEDYQLITKDPaIFFQLN--GDK 44
                             6***********6644424566999999*9994444444..544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (102 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       445  (0.0248201); expected 358.6 (0.02)
Passed bias filter:                      436  (0.0243181); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.25s 00:00:00.72 Elapsed: 00:00:00.44
# Mc/sec: 695.85
//
Query:       PHY93_20635|PHY93_20635  [L=215]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.5e-19   68.3   0.1    8.4e-19   67.9   0.1    1.1  1  DUF4143          Domain of unknown function (DUF4143)
  ------ inclusion threshold ------
      0.032   14.2   0.3      0.092   12.7   0.2    1.7  2  Ins_allergen_rp  Insect allergen related repeat, nitrile-spec


Domain annotation for each model (and alignments):
>> DUF4143  Domain of unknown function (DUF4143)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.9   0.1   9.3e-23   8.4e-19       2     122 .]      11     170 ..      10     170 .. 0.96

  Alignments for each domain:
  == domain 1  score: 67.9 bits;  conditional E-value: 9.3e-23
                              xxxxxxxxxxxxxxxxx.......................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                  DUF4143   2 rDirklagvrdpeelrk.......................................glverlppwsespnskkrlrkspKlyfvDt 48 
                              rD+r l ++ +++++++                                       ++ ++l ++   +ns k+++k+ K +f D 
  PHY93_20635|PHY93_20635  11 RDVRGLFPKLNIHNFKRfltllaqfsghqlnmsemarslevnsttikdyldiihqtFIWRNLDAF--EKNSLKKVQKAKKGFFRDQ 94 
                              8*************************************************999999999999999..******************* PP

                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                  DUF4143  49 GLlvallgldkeelledsenkGallEnlVaqeLlky...sekegaklyyyrdkngaEvDfvielkggkivpiEvKss 122
                              G+l++ l++++ ++l  ++  G+ +E++  +e+++    + + + +++yyr+ ++ EvD++++ +   ivpiE+K++
  PHY93_20635|PHY93_20635  95 GILHYFLKIKSLDDLLIHPVAGFSFESFATEEIIRGlqtTMETQLDFSYYRTIDKSEVDLIVD-GAFGIVPIEIKLG 170
                              **********************************99999777799*****************8.6889*******85 PP

>> Ins_allergen_rp  Insect allergen related repeat, nitrile-specifier detoxification
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.2     1e-05     0.092      20     104 ..       3      93 ..       1     112 [. 0.80
   2 ?   -0.9   0.0      0.16   1.4e+03      88     114 ..     140     188 ..     115     192 .. 0.53

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 1e-05
          Ins_allergen_rp  20 elvaeYlltDaefqkavkflrssefkelvqqlealpevkellnyleq....agldvyeilnvlndflkasgikelvpplvesases 101
                              + +a+Y+  D  ++ ++  l+   fk++   l +   ++  +  + +    ++  + ++l+++++++++ +++ ++  ++++++++
  PHY93_20635|PHY93_20635   3 NYIANYVSRD--VRGLFPKLNIHNFKRFLTLLAQFSGHQLNMSEMARslevNSTTIKDYLDIIHQTFIWRNLDAFEKNSLKKVQKA 86 
                              6689999988..9999999999999999999999888887777766666669999**********************999966655 PP

          Ins_allergen_rp 102 kk....l 104
                              kk     
  PHY93_20635|PHY93_20635  87 KKgffrD 93 
                              5445442 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.16
          Ins_allergen_rp  88 k....................elvpplve..saseskklgglrgfvqdl 114
                              +                    ++vp++++  sa+ +k+l gl+ ++ d+
  PHY93_20635|PHY93_20635 140 DfsyyrtidksevdlivdgafGIVPIEIKlgSATPKKSLWGLENLISDM 188
                              2223333333333333333337788888865444444477888777775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (215 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       470  (0.0262145); expected 358.6 (0.02)
Passed bias filter:                      359  (0.0200234); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.22s 00:00:00.73 Elapsed: 00:00:00.42
# Mc/sec: 1527.62
//
Query:       PHY93_20640|PHY93_20640  [L=76]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.033   13.9   4.2      0.037   13.7   4.2    1.1  1  CCDC85      CCDC85 family
      0.063   13.6   1.1      0.099   13.0   1.1    1.4  1  HTH_Tnp_1   Transposase
      0.074   13.7   2.8       0.09   13.4   2.8    1.1  1  FtsX_ECD    FtsX extracellular domain
       0.27   11.3   4.1       0.43   10.6   4.1    1.4  1  Laminin_II  Laminin Domain II
       0.31   10.9   5.2       0.36   10.7   5.2    1.0  1  Sec34       Sec34-like family
       0.36   11.4   6.7       0.46   11.1   6.7    1.3  1  BST2        Bone marrow stromal antigen 2
       0.39   11.0   8.1        1.2    9.4   2.6    2.0  2  KxDL        Uncharacterized conserved protein
        0.5   10.2  14.2          1    9.2   6.2    2.1  2  DivIC       Septum formation initiator
       0.99    8.4   7.7        1.1    8.3   7.7    1.0  1  Atg14       Vacuolar sorting 38 and autophagy-related subunit
          1    9.5  12.7        2.8    8.1   8.5    2.2  2  bZIP_2      Basic region leucine zipper
        1.4    9.4  14.6       0.67   10.4   7.1    2.2  1  ZapB        Cell division protein ZapB
        2.2    8.6   8.5        1.3    9.3   3.1    2.3  2  VPS11_C     Vacuolar protein sorting protein 11 C terminal
        2.8    8.5   8.1        6.1    7.4   2.9    2.0  2  UPF0449     Uncharacterised protein family UPF0449
        2.8    8.1  12.0        3.6    7.7   5.4    2.1  2  bZIP_1      bZIP transcription factor
        3.4    6.2   5.5        3.6    6.1   5.5    1.0  1  FapA        Flagellar Assembly Protein A
        3.6    8.3   7.0        2.1    9.0   3.4    1.9  2  YabA        Initiation control protein YabA
        4.1    7.9   7.0        4.1    7.9   1.5    2.3  2  FlaC_arch   Flagella accessory protein C (FlaC)


Domain annotation for each model (and alignments):
>> CCDC85  CCDC85 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   4.2   3.5e-05     0.037      15      71 ..       6      62 ..       2      72 .. 0.92

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 3.5e-05
                   CCDC85 15 lskeelvrrLRraeaekvsllvergrlikevnrrLqqhLleiRelkevnqkLqednq 71
                             + +++l +++ ++ea + sl+    +++kev   Lq h + i +l+  n++L+e+n+
  PHY93_20640|PHY93_20640  6 QEQDQLKKKIEKSEAVHDSLFQWIKNSFKEVTAWLQDHDEKILKLQAENERLKEQNE 62
                             5678999**********************************************9986 PP

>> HTH_Tnp_1  Transposase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   1.1   9.4e-05     0.099      34      74 ..      19      61 ..       4      62 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 9.4e-05
                HTH_Tnp_1 34 gvspnqLykWrrqyr...egeeaspaefeltaleeenrelkrel 74
                             + ++ +L++W++         ++  +e ++++l++en++lk+++
  PHY93_20640|PHY93_20640 19 EAVHDSLFQWIKNSFkevTAWLQDHDE-KILKLQAENERLKEQN 61
                             567789*****9976666667777788.*************986 PP

>> FtsX_ECD  FtsX extracellular domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   2.8   8.5e-05      0.09      14      81 ..       6      72 ..       4      75 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 8.5e-05
                 FtsX_ECD 14 eqiealeeklealpgVksvtfvskeealeefkeqlgednsellegltedeNpLpdsfevklkdpekle 81
                             +++++l++k+e+++ V +  f+  +  ++e+ + l++ ++++l+  ++++  L+++ e+ lk  e+le
  PHY93_20640|PHY93_20640  6 QEQDQLKKKIEKSEAVHDSLFQWIKNSFKEVTAWLQDHDEKILKL-QAENERLKEQNELILKRLEQLE 72
                             789*********************************999999999.6666799999999999888876 PP

>> Laminin_II  Laminin Domain II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   4.1   0.00041      0.43      31      82 ..      24      75 ..       1      76 [] 0.79

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00041
                             XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX--TTTTTGGGHHHHHHHH CS
               Laminin_II 31 eklseinrsveetnekvkdankairdArrsvkkLeklapqLldklkelkqle 82
                             +  + i++s +e+++ ++d  + i   + +   L+++ + +l++l++l+ ++
  PHY93_20640|PHY93_20640 24 SLFQWIKNSFKEVTAWLQDHDEKILKLQAENERLKEQNELILKRLEQLERRS 75
                             34567899999*************************************9876 PP

>> Sec34  Sec34-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   5.2   0.00034      0.36       3      69 ..       2      69 ..       1      74 [. 0.89

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00034
                    Sec34  3 dqLeskeeecdelleqtdealeqL.eeleekfksvsektsslheaceqlleeqkrleelaeeieekLk 69
                             + L+++++++++ +e+ ++++++L + ++++fk+v++  ++ +e+  +l +e++rl+e +e i ++L+
  PHY93_20640|PHY93_20640  2 QGLSQEQDQLKKKIEKSEAVHDSLfQWIKNSFKEVTAWLQDHDEKILKLQAENERLKEQNELILKRLE 69
                             679999**************9987366899*******************************9999997 PP

>> BST2  Bone marrow stromal antigen 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   6.7   0.00044      0.46      26      82 ..       4      61 ..       1      73 [. 0.82

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00044
                             HHHHHHHHHHH.HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     BST2 26 Ltqaqeslrea.eaqaatcnqtvvtLkasLekekaqsqkqqakvqelqgeikkLnqkL 82
                             L q q++l+++ e+  a  ++  + +k+s ++ +a+ q++ +k+ +lq e+++L+++ 
  PHY93_20640|PHY93_20640  4 LSQEQDQLKKKiEKSEAVHDSLFQWIKNSFKEVTAWLQDHDEKILKLQAENERLKEQN 61
                             89999999876255666777888899****************************9984 PP

>> KxDL  Uncharacterized conserved protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   0.4     0.018        19      14      54 ..       4      44 ..       1      49 [. 0.77
   2 ?    9.4   2.6    0.0012       1.2      24      49 ..      49      74 ..      44      75 .. 0.91

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.018
                     KxDL 14 ilalQaqtsgrlnkknreLlelnalsqerlaklrarfkqgt 54
                               + Q q+ ++++k+++    l +  ++ +++++a ++++ 
  PHY93_20640|PHY93_20640  4 LSQEQDQLKKKIEKSEAVHDSLFQWIKNSFKEVTAWLQDHD 44
                             56788999999999988888888888888888888888875 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.0012
                     KxDL 24 rlnkknreLlelnalsqerlaklrar 49
                             +l+++n++L+e+n+l  +rl++l+ r
  PHY93_20640|PHY93_20640 49 KLQAENERLKEQNELILKRLEQLERR 74
                             79********************9876 PP

>> DivIC  Septum formation initiator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.8   1.2    0.0055       5.8      22      44 ..       4      26 ..       1      38 [. 0.58
   2 ?    9.2   6.2   0.00095         1      19      50 ..      40      71 ..      24      75 .. 0.84

  Alignments for each domain:
  == domain 1  score: 6.8 bits;  conditional E-value: 0.0055
                             HHHHHHHHHHHHHHHHHHHHHHH CS
                    DivIC 22 lkqeiaalqaelaklkaeneeLe 44
                             l qe ++l+++++k  a  ++L 
  PHY93_20640|PHY93_20640  4 LSQEQDQLKKKIEKSEAVHDSLF 26
                             44555555555555555555555 PP

  == domain 2  score: 9.2 bits;  conditional E-value: 0.00095
                             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC- CS
                    DivIC 19 ykqlkqeiaalqaelaklkaeneeLeaevkdL 50
                             +++ +++i +lqae+++lk++ne   +++++L
  PHY93_20640|PHY93_20640 40 LQDHDEKILKLQAENERLKEQNELILKRLEQL 71
                             56778999999999999999999999999888 PP

>> Atg14  Vacuolar sorting 38 and autophagy-related subunit 14
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   7.7     0.001       1.1      32      96 ..       2      74 ..       1      75 [. 0.90

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.001
                    Atg14 32 aklksekeslkkkiekalegke........eaeqledkiknkkakleelksliadlrerlqelkdklsqlkke 96
                             + l  e+++lkkkiek ++ ++        + ++ ++ ++ + +k+ +l+++ ++l+e+++++ ++l+ql ++
  PHY93_20640|PHY93_20640  2 QGLSQEQDQLKKKIEKSEAVHDslfqwiknSFKEVTAWLQDHDEKILKLQAENERLKEQNELILKRLEQLERR 74
                             568899***********99999999999998899999999999999999999999999999999999999875 PP

>> bZIP_2  Basic region leucine zipper
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   0.1     0.061        64      37      52 ..       4      19 ..       1      32 [. 0.71
   2 ?    8.1   8.5    0.0027       2.8      26      53 ..      46      73 ..      45      74 .. 0.91

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.061
                             HHHHHHHHHHHHHHHH CS
                   bZIP_2 37 LeeeNaqLrqkveqLe 52
                             L++e +qL++k+e+ e
  PHY93_20640|PHY93_20640  4 LSQEQDQLKKKIEKSE 19
                             5666677777776654 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.0027
                             HHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                   bZIP_2 26 keeeleervkeLeeeNaqLrqkveqLek 53
                             k  +l+ ++++L+e+N+ +++++eqLe+
  PHY93_20640|PHY93_20640 46 KILKLQAENERLKEQNELILKRLEQLER 73
                             6678999*******************97 PP

>> ZapB  Cell division protein ZapB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   7.1   0.00064      0.67      19      44 ..      46      71 ..      40      75 .. 0.55

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00064
                     ZapB 19 titlLqmeieeLkeeneelkeenrel 44
                             +i +Lq e+e+Lke+ne   ++ ++l
  PHY93_20640|PHY93_20640 46 KILKLQAENERLKEQNELILKRLEQL 71
                             45555555555555555444444444 PP

>> VPS11_C  Vacuolar protein sorting protein 11 C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.2      0.18   1.9e+02       7      33 ..      11      34 ..       3      41 .. 0.60
   2 ?    9.3   3.1    0.0013       1.3       2      27 ..      45      70 ..      44      74 .. 0.92

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.18
                  VPS11_C  7 lrraQeesadrhdlFkaaLeeseDrFk 33
                             l+++ e+s   hd +++  ++    Fk
  PHY93_20640|PHY93_20640 11 LKKKIEKSEAVHDSLFQWIKN---SFK 34
                             455555566666666666555...455 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.0013
                  VPS11_C  2 etirelrraQeesadrhdlFkaaLee 27
                             e+i +l  ++e+++++++l  + Le+
  PHY93_20640|PHY93_20640 45 EKILKLQAENERLKEQNELILKRLEQ 70
                             799********************997 PP

>> UPF0449  Uncharacterised protein family UPF0449
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.3     0.038        41      73      99 ..       3      29 ..       1      31 [. 0.83
   2 ?    7.4   2.9    0.0058       6.1      52      91 ..      35      74 ..      29      76 .] 0.85

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.038
                  UPF0449 73 rLeeakeeLkqkceeLktageeLeeei 99
                              L++++++Lk+k e+ +++ ++L + i
  PHY93_20640|PHY93_20640  3 GLSQEQDQLKKKIEKSEAVHDSLFQWI 29
                             589999*******99999988887766 PP

  == domain 2  score: 7.4 bits;  conditional E-value: 0.0058
                  UPF0449 52 dleaeveelYeqvrtylelnerLeeakeeLkqkceeLkta 91
                             + +a+ ++  e++ ++ + nerL+e++e + +++e+L++ 
  PHY93_20640|PHY93_20640 35 EVTAWLQDHDEKILKLQAENERLKEQNELILKRLEQLERR 74
                             5567778888999999999******************975 PP

>> bZIP_1  bZIP transcription factor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6   0.4     0.034        36      45      58 ..       4      17 ..       1      27 [. 0.64
   2 ?    7.7   5.4    0.0034       3.6      26      53 ..      45      72 ..      41      75 .. 0.65

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.034
                             HHHHHHHHHHHHHH CS
                   bZIP_1 45 Lkseleelkkevek 58
                             L++e ++lkk++ek
  PHY93_20640|PHY93_20640  4 LSQEQDQLKKKIEK 17
                             55566666666653 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.0034
                             HHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                   bZIP_1 26 aeieeLerrvkaLekeNksLkseleelk 53
                             ++i +L+ + + L+++N+   ++le+l+
  PHY93_20640|PHY93_20640 45 EKILKLQAENERLKEQNELILKRLEQLE 72
                             4566666666666666666666666665 PP

>> FapA  Flagellar Assembly Protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.1   5.5    0.0034       3.6     348     407 ..       3      60 ..       1      72 [. 0.82

  Alignments for each domain:
  == domain 1  score: 6.1 bits;  conditional E-value: 0.0034
                     FapA 348 eleeeleklkkkikklpklkaekqlesekkeqlkklletkeklkeeleeleeelkelkee 407
                               l +e+++lkkki+k ++  + + l + +k+++k+++  ++ + e++ +l++e ++lke+
  PHY93_20640|PHY93_20640   3 GLSQEQDQLKKKIEKSEA--VHDSLFQWIKNSFKEVTAWLQDHDEKILKLQAENERLKEQ 60 
                              567899999999999888..5678888999999999999999999999999999988886 PP

>> YabA  Initiation control protein YabA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.0   0.1      0.31   3.3e+02      41      57 ..       4      20 ..       1      32 [. 0.60
   2 ?    9.0   3.4     0.002       2.1      11      56 ..      27      72 ..      17      76 .] 0.80

  Alignments for each domain:
  == domain 1  score: 2.0 bits;  conditional E-value: 0.31
                             HHHHHHHHHHHHXXXXX CS
                     YabA 41 Leleneklrerleeeek 57
                             L+ e+++l++++e++e+
  PHY93_20640|PHY93_20640  4 LSQEQDQLKKKIEKSEA 20
                             56666666666644443 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.002
                             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHXXXX CS
                     YabA 11 eeleeqleelleeleelkeelaelleenaeLeleneklrerleeee 56
                             + ++++++e+++ l++  e++ +l  en++L+ +ne + +rle+ e
  PHY93_20640|PHY93_20640 27 QWIKNSFKEVTAWLQDHDEKILKLQAENERLKEQNELILKRLEQLE 72
                             4567888899999999999999999999999999999999986544 PP

>> FlaC_arch  Flagella accessory protein C (FlaC)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.5     0.091        96      17      32 ..       2      17 ..       1      36 [. 0.83
   2 ?    7.9   1.5    0.0039       4.1       9      37 ..      40      68 ..      33      74 .. 0.66

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.091
                FlaC_arch 17 etvkkeneelsksvee 32
                             + + +e+++l+k++e+
  PHY93_20640|PHY93_20640  2 QGLSQEQDQLKKKIEK 17
                             5677899999999997 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.0039
                FlaC_arch  9 lsklsteletvkkeneelsksveelkenV 37
                             l++++ ++  +++ene l+++ e + ++ 
  PHY93_20640|PHY93_20640 40 LQDHDEKILKLQAENERLKEQNELILKRL 68
                             66677777777777777777777665554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (76 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2182  (0.121702); expected 358.6 (0.02)
Passed bias filter:                      852  (0.0475208); expected 358.6 (0.02)
Passed Vit filter:                       120  (0.00669307); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              17  [number of targets reported over threshold]
# CPU time: 0.53u 0.28s 00:00:00.81 Elapsed: 00:00:00.45
# Mc/sec: 504.43
//
Query:       PHY93_20645|PHY93_20645  [L=235]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.052   13.8   0.0       0.12   12.6   0.0    1.6  1  AHSA1     Activator of Hsp90 ATPase homolog 1-like protein
       0.11   12.5   0.0       0.17   11.9   0.0    1.2  1  DUF3027   Protein of unknown function (DUF3027)


Domain annotation for each model (and alignments):
>> AHSA1  Activator of Hsp90 ATPase homolog 1-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   1.3e-05      0.12      74     123 ..      50     102 ..      27     104 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 1.3e-05
                              EEEEEEEEEEEEETTEEEEEEEEEEEEHCHHHHHH...HHHHHHHHHHHHHHH CS
                    AHSA1  74 eeestvtieleeegggTrltlthtglprkqkeeeg...veeGweqsldqLkal 123
                               +++tv++ l  +gg+ r+++++++  ++ ke++    v+eG +q++++L++ 
  PHY93_20645|PHY93_20645  50 AADATVSMALASAGGEIRMRFEWRRSFNESKEKNTlgkVAEGSRQLMNNLAEE 102
                              4589*******************444444444444469************986 PP

>> DUF3027  Protein of unknown function (DUF3027)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   1.9e-05      0.17      50     125 ..      26     104 ..      17     116 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 1.9e-05
                  DUF3027  50 LlpgedallapewvPwkeRlr...pgDlgpgdllpteedDerlepgyeasedeeeeeevaeelglgrkrvlsregreea 125
                              ++ g +a   ++w+P+k Rl+   ++D +++  l+ +  + r+  ++++s +e++e++++ +++ g ++++++ + e a
  PHY93_20645|PHY93_20645  26 MIKGIEASEVSSWIPYKIRLEltvAADATVSMALASAGGEIRMRFEWRRSFNESKEKNTLGKVAEGSRQLMNNLAEEIA 104
                              67788999999********9855578******************99999988888999999999999999998876655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (235 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       786  (0.0438396); expected 358.6 (0.02)
Passed bias filter:                      492  (0.0274416); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.25s 00:00:00.78 Elapsed: 00:00:00.44
# Mc/sec: 1609.74
//
Query:       PHY93_20650|PHY93_20650  [L=55]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (55 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       187  (0.01043); expected 358.6 (0.02)
Passed bias filter:                      153  (0.00853366); expected 358.6 (0.02)
Passed Vit filter:                         2  (0.000111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.25s 00:00:00.67 Elapsed: 00:00:00.43
# Mc/sec: 384.66
//
Query:       PHY93_14130|PHY93_14130  [L=515]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (515 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1337  (0.0745719); expected 358.6 (0.02)
Passed bias filter:                      292  (0.0162865); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.65u 0.28s 00:00:00.93 Elapsed: 00:00:00.47
# Mc/sec: 3327.09
//
Query:       PHY93_14135|PHY93_14135  [L=197]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.016   15.0   0.0       0.91    9.4   0.0    2.2  1  DUF2202   Uncharacterized protein domain (DUF2202)
        0.2   10.5   0.0       0.23   10.3   0.0    1.2  1  DUF2254   Predicted membrane protein (DUF2254)


Domain annotation for each model (and alignments):
>> DUF2202  Uncharacterized protein domain (DUF2202)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4   0.0    0.0001      0.91      18      60 ..      90     133 ..      74     197 .] 0.66

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.0001
                  DUF2202  18 vYlelYdrw.klqiflniakseqthtdavksllekYeledpvke 60 
                               Y+ +  ++ +++ f  i  +e++h+ ++k + +kY+l  p ++
  PHY93_14135|PHY93_14135  90 TYEAVIAKFgNVRPFAMIKGAEEQHIASLKAIYDKYGLIIPTNT 133
                              55555554414677999999999999999999999998777655 PP

>> DUF2254  Predicted membrane protein (DUF2254)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0   2.5e-05      0.23     267     298 ..      59      90 ..      17     108 .. 0.89

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 2.5e-05
                  DUF2254 267 eqDpefglrqLvEIAlRALSPGiNDpgTAiec 298
                               +D+++ +r+L+  A +AL  +iND + A+  
  PHY93_14135|PHY93_14135  59 VNDLDYPVRELSPEAQKALDEAINDEYKALST 90 
                              68***********************9988765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (197 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       784  (0.043728); expected 358.6 (0.02)
Passed bias filter:                      713  (0.039768); expected 358.6 (0.02)
Passed Vit filter:                        65  (0.00362541); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.27s 00:00:00.85 Elapsed: 00:00:00.47
# Mc/sec: 1268.76
//
Query:       PHY93_14140|PHY93_14140  [L=397]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    5.3e-55  186.6   0.0      7e-55  186.3   0.0    1.2  1  NAPRTase    Nicotinate phosphoribosyltransferase (NAPRTase) f
    1.4e-35  122.4   0.1    3.4e-35  121.1   0.1    1.7  1  NAPRTase_N  Nicotinate phosphoribosyltransferase (NAPRTase) N


Domain annotation for each model (and alignments):
>> NAPRTase  Nicotinate phosphoribosyltransferase (NAPRTase) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  186.3   0.0   7.8e-59     7e-55       3     237 ..     173     396 ..     171     397 .] 0.94

  Alignments for each domain:
  == domain 1  score: 186.3 bits;  conditional E-value: 7.8e-59
                              EEE-TSTTSSSHHHHHHHHHHHHH.HHTTTEEEESBHHHHHHHT--B--HHHHHHHHHHHHHHCHHHHHCCHHHHHHHHHHHHHCC CS
                 NAPRTase   3 lhDFGtRrrsslesqeivvkalkk.ahlvnflGtdnvlaaakysikaaetsahealgkeqelsafrnnlkqfqkdaldlwvaiekg 87 
                              + ++GtRrr+ +e+q+++v++l++    + f  t+nv +a+k +ika++t+ahe+++++ +l +   ++ q+qk al +w++++ +
  PHY93_14140|PHY93_14140 173 INEMGTRRRFTREWQDEMVSTLAReCSFNDFRATSNVFLAMKHNIKAMGTMAHEWIMAHLSLVS---DISQAQKRALHVWQQEFID 255
                              679*******************99456788*********************************9...******************* PP

                              HIIEEECHCCTHHHHHCCS-CC.HHHSEEEEE-SS-HHHHHHHHHHHHHCTCTTTCCCSEEEEESS-SHHH..HHHHHHHHHHTTC CS
                 NAPRTase  88 nlgiaLtdlvltdaflkdfrle.akaylgvRpDSGdpvevieklaahygstlnskgytkrlifsDgldvek..iieilealkkkgf 170
                              +lgiaL+d+++tdaf +df++  +  y g R+DSGdp++ + k ++hy+++  ++++ k++ fsDgl +++  i+ ++  +    f
  PHY93_14140|PHY93_14140 256 DLGIALSDTFGTDAFYRDFDTVlSRSYSGPRHDSGDPYAFGYKTIDHYKEM-DIDPTVKVVTFSDGLKINEkiIVPLFLTFVR-YF 339
                              ********************99*****************************.**************99865224456666666.89 PP

                              EEEEEESHHHHSSECTTCTTTCCEEEEEEEEEEEEEETTEETTBGGSSCCGSBGSGHHHHHHHHHHC CS
                 NAPRTase 171 niaFGiGtnltqdlnrdtlefavkasalniviklvevnkdpvakisdrskkgrlgdkefvkllrtvf 237
                              +i FG+Gt l +dl+          ++lnivik+ +++++pv+k+sd  +k + gd+e+ k+++  +
  PHY93_14140|PHY93_14140 340 RINFGVGTDLSNDLDY---------HPLNIVIKMSSCQGKPVVKLSDVEGKEM-GDPEMIKRVKAAY 396
                              ****************.........****************************.*******999877 PP

>> NAPRTase_N  Nicotinate phosphoribosyltransferase (NAPRTase) N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  121.1   0.1   3.8e-39   3.4e-35       1     125 []      17     136 ..      17     136 .. 0.99

  Alignments for each domain:
  == domain 1  score: 121.1 bits;  conditional E-value: 3.8e-39
               NAPRTase_N   1 LdtDlYkltmaqavfkkgpdvevvfelffRkkpfkgeyaivagleevieylenlrfteeeieyLkrklpyfkedfleyLrtfrfkp 86 
                              Ld+DlYk+tm+qavf++++dvev++++++R+k  +++  +++ ++ +i+ + +l+++  e ++L++k++++++df+e+L++frf+p
  PHY93_14140|PHY93_14140  17 LDNDLYKFTMMQAVFHQYRDVEVEYDFKCRNKG-QRLGHLAEIVRCQIDLMVDLQLQVLEKAFLQSKIRFLTPDFIEFLSDFRFDP 101
                              89*******************************.**************************************************** PP

               NAPRTase_N  87 sevaveeeevvfpgepeirveGpwieaillEtplLaivn 125
                               +v+v ++    +ge++i ++G+w+++il+E+p+Laiv+
  PHY93_14140|PHY93_14140 102 LTVTVIND----DGELRIHIKGKWVNTILWEVPILAIVS 136
                              *******9....8************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (397 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       482  (0.0268838); expected 358.6 (0.02)
Passed bias filter:                      414  (0.0230911); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.59u 0.23s 00:00:00.82 Elapsed: 00:00:00.44
# Mc/sec: 2740.35
//
Query:       PHY93_14145|PHY93_14145  [L=290]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.6e-10   41.6   0.1    1.3e-09   38.7   0.1    2.0  2  Radical_SAM  Radical SAM superfamily
    4.8e-06   26.7   0.1    1.5e-05   25.1   0.0    1.8  2  Fer4_14      4Fe-4S single cluster domain
    0.00069   19.9   0.1     0.0013   19.0   0.1    1.5  1  Fer4_12      4Fe-4S single cluster domain


Domain annotation for each model (and alignments):
>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.7   0.1   2.2e-13   1.3e-09       4     115 ..      14     134 ..      11     166 .. 0.80
   2 ?    1.2   0.0     0.072   4.3e+02      77     142 ..     162     239 ..     137     261 .. 0.63

  Alignments for each domain:
  == domain 1  score: 38.7 bits;  conditional E-value: 2.2e-13
                              ESEESS--TTTSCCTT.......HHHHHHHHHHHHHHHHHHHHHHHHHTT.SEEEEEESSTGGGSTTHHHHHHHHHHTC.CCTEEE CS
                              xxxxxxxxxxxxxxxx.......xxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxx RF
              Radical_SAM   4 trgCnlrCsfCarpet.......vrregrgrslsveeileevkelkaekg.vkevilgggepllypdfvellerlakla.vpgiri 80 
                                gC+++C+fC  + +          +++  ++   + l  ++++ ++ g    v+ g+gepl+++++ ++   +++l  +p  +i
  PHY93_14145|PHY93_14145  14 PGGCPNNCRFCVAHMHenpyqnrMLFGKKDFDVAFNDYLSRLRYV-QKCGcQTIVLTGSGEPLVNKRYLFDFSLMMRLLgNPFEKI 98 
                              579******************884444555555555555555555.6667455666669**************999999******* PP

                              EEEECSSCHGHHHHHHHHHTT.-SEEEEEEBSSSHH CS
                              xxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxx RF
              Radical_SAM  81 tvetngtlpdeeklerllelg.vdrvslgleaadde 115
                               + t+g+++d+e+le l++   v ++sl+l  + d+
  PHY93_14145|PHY93_14145  99 ELQTSGVHLDDEYLEFLKKTVmVSTISLSLSDIFDD 134
                              *******************99*********999998 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.072
                              TEEEEEEECSSCHG.....HHHHHHHHHTT-SEEEEEEBSSSHH.......HHHHHHTCTSHHHHHHHHHHHHHHTTS CS
                              xxxxxxxxxxxxxx.....xxxxxxxxxxxxxxxxxxxxxxxxx.......xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM  77 giritvetngtlpd.....eeklerllelgvdrvslgleaadde.......kvlklmnrghtfeevlealeklreagi 142
                               i+++++ n   ++      e+  + + lg d+v++    ++++        +l++++ ++ ++++++ ++k +++ i
  PHY93_14145|PHY93_14145 162 HINLRLSLNMSDVYntrtpGEIFSKAKSLGADQVTIRKLYTSPKantpqdqWILEHLCSPNLLKKIKKFIKKGTKLEI 239
                              445555555555445566688888888888777776666666665555577555555555666666666666666555 PP

>> Fer4_14  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.1   0.0   2.5e-09   1.5e-05       6     114 ..      15     127 ..      13     130 .. 0.68
   2 ?   -3.3   0.0       1.6   9.3e+03      60      83 ..     216     239 ..     215     243 .. 0.71

  Alignments for each domain:
  == domain 1  score: 25.1 bits;  conditional E-value: 2.5e-09
                  Fer4_14   6 sgCnlsCkgCd.....nketwkselgkpqteelleqilk.dlkkseikiqglvltG.GePLhyenkkellklvkrlkeey.pekki 83 
                              +gC+ +C++C      n  + ++  gk++ +   ++ l+   + +++  q +vltG GePL   nk+ l+++  +++  + p  ki
  PHY93_14145|PHY93_14145  15 GGCPNNCRFCVahmheNPYQNRMLFGKKDFDVAFNDYLSrLRYVQKCGCQTIVLTGsGEPL--VNKRYLFDFSLMMRLLGnPFEKI 98 
                              79*********77765333334445555555555555553345678889************..7888888876666666645699* PP

                  Fer4_14  84 wletngtleielektpdlkeklealskidll 114
                               l+t+g+   + e + +  +k  ++s i l+
  PHY93_14145|PHY93_14145  99 ELQTSGVHL-DDE-YLEFLKKTVMVSTISLS 127
                              *****9976.434.45555666677766555 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 1.6
                  Fer4_14  60 hyenkkellklvkrlkeeypekki 83 
                              ++   ++llk +k+  +++++++i
  PHY93_14145|PHY93_14145 216 EHLCSPNLLKKIKKFIKKGTKLEI 239
                              566667788888888888777666 PP

>> Fer4_12  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.0   0.1   2.2e-07    0.0013      13     120 ..      15     133 ..      13     156 .. 0.72

  Alignments for each domain:
  == domain 1  score: 19.0 bits;  conditional E-value: 2.2e-07
                  Fer4_12  13 sgCnlsCkgCfnketwsfk......sgkeft..kelleeiiedlkkesiegltllG.GEPllpenaeallelvkevkeekp..ekd 87 
                              +gC+ +C++C++    ++       ++k+f+  ++     ++ ++k   + ++l+G GEPl+  n++ l ++   ++  +   ek 
  PHY93_14145|PHY93_14145  15 GGCPNNCRFCVAHMHENPYqnrmlfGKKDFDvaFNDYLSRLRYVQKCGCQTIVLTGsGEPLV--NKRYLFDFSLMMRLLGNpfEKI 98 
                              69*********99888666455555555555334444455667777778*************..9999988776666554335999 PP

                  Fer4_12  88 iwlytgytleelskk..ekeellkeidvlvdGkfe 120
                               + ++g+ l++   +  +k  +++ i   ++  f+
  PHY93_14145|PHY93_14145  99 ELQTSGVHLDDEYLEflKKTVMVSTISLSLSDIFD 133
                              99999999988765556666666766666665555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (290 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       653  (0.0364214); expected 358.6 (0.02)
Passed bias filter:                      509  (0.0283898); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.22s 00:00:00.77 Elapsed: 00:00:00.42
# Mc/sec: 2095.20
//
Query:       PHY93_14150|PHY93_14150  [L=263]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.014   15.5   0.0        1.6    8.9   0.0    2.5  2  Clp_N     Clp amino terminal domain, pathogenicity island com


Domain annotation for each model (and alignments):
>> Clp_N  Clp amino terminal domain, pathogenicity island component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.0   0.0    0.0031        55      29      46 ..      34      51 ..      27      52 .. 0.87
   2 ?    8.9   0.0   9.1e-05       1.6      23      42 ..     203     222 ..     195     224 .. 0.89

  Alignments for each domain:
  == domain 1  score: 4.0 bits;  conditional E-value: 0.0031
                             HHHHHHHHTTSSHHHHHH CS
                    Clp_N 29 laarlLkkaGvdldalrk 46
                             ++a++ + +Gvd+d++++
  PHY93_14150|PHY93_14150 34 IGAQIQNGLGVDVDDVKA 51
                             899999*********986 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 9.1e-05
                              HHSCTSHHHHHHHHTTSSHH CS
                    Clp_N  23 leeddGlaarlLkkaGvdld 42 
                              ++++d +++++++++G+d++
  PHY93_14150|PHY93_14150 203 IDDGDTDFRQVFADMGIDPK 222
                              89****************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (263 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       492  (0.0274416); expected 358.6 (0.02)
Passed bias filter:                      446  (0.0248759); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.43
# Mc/sec: 1824.17
//
Query:       PHY93_06010|PHY93_06010  [L=321]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (321 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       612  (0.0341346); expected 358.6 (0.02)
Passed bias filter:                      332  (0.0185175); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.43
# Mc/sec: 2252.55
//
Query:       PHY93_14155|PHY93_14155  [L=352]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (352 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       359  (0.0200234); expected 358.6 (0.02)
Passed bias filter:                      340  (0.0189637); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.59u 0.23s 00:00:00.82 Elapsed: 00:00:00.46
# Mc/sec: 2282.72
//
Query:       PHY93_14160|PHY93_14160  [L=634]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.4e-05   24.6   0.0    0.00011   21.7   0.0    2.0  1  Pkinase   Protein kinase domain
  ------ inclusion threshold ------
      0.032   14.0   0.0      0.093   12.5   0.0    1.9  2  DUF1554   Protein of unknown function (DUF1554)


Domain annotation for each model (and alignments):
>> Pkinase  Protein kinase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.7   0.0   1.2e-08   0.00011      59     248 ..      78     291 ..      15     294 .. 0.69

  Alignments for each domain:
  == domain 1  score: 21.7 bits;  conditional E-value: 1.2e-08
                              TB--EEEEEEE.SSEEE.EEEE--TTEBHHHHHH...HHSS--HHHHHHHHHHHHHHHHHHHHTTEE-SS-SGGGEEEE.TTTE.E CS
                  Pkinase  59 nivrlyevfee.kdely.lvleyveggeladlle...rkgslseeeakkiakqilegleylHskgiiHrDlKpeNiLid.ekge.l 137
                              +i++ ++  +  k+++   v+ +++g el ++++     ++++++++++i+  + + ++  H++++++ D  + N+L++ +++  l
  PHY93_14160|PHY93_14160  78 KIIQPIKLAYFpKNHIAgYVMKLLRGAELITHYSepsFGRTVAKDDVRDIFLDLHQTVSLSHQEKVVFGDFNDLNVLVKgTDAFvL 163
                              56665554444134443579*********9999977656679*************************************6555543 PP

                              EE-S.GTTSEESSSSCS...........BCTTTSCGGGS-HHHH......TTSCBSHHHHHHHHHHHHHHHHHSS-STTTSSHHHH CS
                  Pkinase 138 KitD.FGlakelesssk...........ltsfvgtseYlAPEvl......keneyskkvDvWslGvilyelltgkppfsgekgkek 205
                                +D F + k + s+ +           +t +    +      l       ++++s+ +D+++ +v+l++ +    p+ g  + ++
  PHY93_14160|PHY93_14160 164 D-ADsFQFGKYFCSTFTtkfidplniraTTIQEKNDN------LnigsfiMYKPHSEMSDWYAFAVMLMQSFLFVDPYGGVFKPKN 242
                              4.44477777777765444555544443222222233......244444488***********************99998877776 PP

                              HHHHHHTHHHHHHHCT..SHH...HHHTTS......-HHHHHHHHHHT-SS CS
                  Pkinase 206 vekeldqlekilkilg..etkeklpeasei......seeakdllkkllkkd 248
                              + k++++ e+ l+ ++  + ++k+p++         ++e++dl +k++++d
  PHY93_14160|PHY93_14160 243 KMKMVNHSERPLHRITvfNPEVKYPKP--AihysvlPDELLDLFQKMFERD 291
                              666666655444433334223333333..123445699*********9988 PP

>> DUF1554  Protein of unknown function (DUF1554)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0     1e-05     0.093      53      79 ..     359     385 ..     306     412 .. 0.80
   2 ?   -3.0   0.0      0.64   5.7e+03      74      87 ..     487     500 ..     478     531 .. 0.72

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 1e-05
                  DUF1554  53 sgdgqvdWvlkpnteYrradgttvftT 79 
                                +g+++W  + n++Y+r+dg++v++ 
  PHY93_14160|PHY93_14160 359 FQNGKMNWLYHENNKYKREDGSVVISS 385
                              5679******************98765 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 0.64
                  DUF1554  74 ttvftTnssglfsf 87 
                              + +f Tn +gl + 
  PHY93_14160|PHY93_14160 487 AFIFNTNGRGLNDN 500
                              34899999998654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (634 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       557  (0.031067); expected 358.6 (0.02)
Passed bias filter:                      500  (0.0278878); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.72u 0.27s 00:00:00.99 Elapsed: 00:00:00.49
# Mc/sec: 3927.08
//
Query:       PHY93_14165|PHY93_14165  [L=281]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-19   70.4   0.0    2.1e-19   70.0   0.0    1.1  1  PP2C_2    Protein phosphatase 2C


Domain annotation for each model (and alignments):
>> PP2C_2  Protein phosphatase 2C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.0   0.0   1.2e-23   2.1e-19       1     191 [.      15     229 ..      15     245 .. 0.73

  Alignments for each domain:
  == domain 1  score: 70.0 bits;  conditional E-value: 1.2e-23
                   PP2C_2   1 rGrshrrrglpcqDalavwtdsggsllaVaDGaGSakrSerGariaveavvea.laell....eseeee....eeallraleaail 77 
                              +G++hr++++++qD++++ ++++ s++ V+DG   +++Se+G++i v++v++  l++++              +  +++++++++l
  PHY93_14165|PHY93_14165  15 IGTKHRQTNTNNQDSYFIEVQDDISVVLVSDGCSGCRFSEVGSKIGVRLVANSiLSQTKrwlrF----GnnlsHPSFWKHVKNDVL 96 
                              59**********************************************9965515555533331....25556889********** PP

                   PP2C_2  78 adv..lkeeaeaq...daelkdyatTllaavvtpdeivalqiGDGaivvrdrdgevqllgepdsgeyanq.....ttfltsedaee 153
                              a +  l  +++ +   d     +  T + avv+ +e +++ +GDG +++ ++  ++ + ++++   y        t++  +++ ++
  PHY93_14165|PHY93_14165  97 AYIrtL-SNQMGEsvfDIVNSYFLFTIIGAVVSSNETIFFSLGDGVVIINGGVYQIGP-FKNNAPPYLAYplldvTFSDEEPNFLD 180
                              888642.22222234566778899***********************77555555554.566666666656666366666668888 PP

                   PP2C_2 154 elrirrlkledgdalllmTDGlanslrdee...........rfaellee 191
                              +  ++++++e+++++l+ TDG+ + +++ +           ++ +++ee
  PHY93_14165|PHY93_14165 181 FNIVEKIPTEEMKSFLIGTDGVNDLMVSADltlagksdlvgPVSQFWEE 229
                              889999****************855554444444444444455555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (281 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       398  (0.0221987); expected 358.6 (0.02)
Passed bias filter:                      362  (0.0201908); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.43
# Mc/sec: 1967.85
//
Query:       PHY93_14170|PHY93_14170  [L=252]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
      0.022   14.7   0.1      0.032   14.1   0.1    1.2  1  Phage_hub_GP28  Baseplate hub distal subunit
      0.061   13.5   0.4       0.14   12.4   0.4    1.5  1  DUF4257         Protein of unknown function (DUF4257)
      0.062   13.4   0.0       0.12   12.6   0.0    1.4  1  HSP20           Hsp20/alpha crystallin family
        5.4    5.2  11.4         15    3.7  11.2    1.8  1  DUF2070         Predicted membrane protein (DUF2070)


Domain annotation for each model (and alignments):
>> Phage_hub_GP28  Baseplate hub distal subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.1   7.1e-06     0.032      46     120 ..      39     114 ..      27     142 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 7.1e-06
           Phage_hub_GP28  46 lefngkiksrkeidgytydindvyvcqrlef.qyqgntfyfrppgkfeqfltvsdmlskcllrvndevkeinflem 120
                              + f+gk k    +dg  y+  dv+  +  ef +y  + f  r      q     d   k+++   d+  e n++ +
  PHY93_14170|PHY93_14170  39 ISFEGKFKESDLMDGRLYECADVFCTKMNEFlEYGPQGFGCRGSECHAQAYGFKDCYYKIIFTFADKKLESNVFTL 114
                              679*********************9999999457778999**********************99999888776554 PP

>> DUF4257  Protein of unknown function (DUF4257)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.4   3.1e-05      0.14      21      71 ..     133     182 ..     124     186 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 3.1e-05
                  DUF4257  21 kgklekPkkkkkflylGFledlliGslaaillv.lssdpesllelvllsila 71 
                              +  +   k + + +++ Fl  ++i ++ +++ + ls ++ s+l+ v+ls l 
  PHY93_14170|PHY93_14170 133 NTSIN--KPTDNNFWISFLITIVIEMVISLIFLlLSKKTLSILKWVFLSNLI 182
                              44444..457899*************99976663888888999*99999875 PP

>> HSP20  Hsp20/alpha crystallin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   2.6e-05      0.12      11      50 ..     107     147 ..     103     151 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 2.6e-05
                              EEEE-TT--CCCEEEEEETTEEEEEEE--...---TT---- CS
                    HSP20  11 vkldvpglkkeelkvkvednrvlvkgehe.eeeedekglik 50 
                              ++ +v  lk+++l+++v+++ ++vkg+   ++  d++++i+
  PHY93_14170|PHY93_14170 107 LESNVFTLKQSNLDITVKNDGLVVKGNTSiNKPTDNNFWIS 147
                              6678899*********************9777777777765 PP

>> DUF2070  Predicted membrane protein (DUF2070)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7  11.2    0.0034        15      22      88 ..     152     247 ..     140     252 .] 0.65

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.0034
                  DUF2070  22 illalligllaflssk............................lfgillfglpalvaflltlpvlrilggr.ltykrslflallt 78 
                              i++ ++i+l+  l sk                            +     +gl+ ++a+l+ + ++ ++g++ + ykr l+l+ll+
  PHY93_14170|PHY93_14170 152 IVIEMVISLIFLLLSKktlsilkwvflsnlislpivwylfpsinVPYKWQLGLSEIFAVLFESSFIYYFGKKyISYKRTLVLSLLN 237
                              55555555444444444555555555555554444444445555334446777799999999999999999999999999999999 PP

                  DUF2070  79 elivviisll 88 
                              ++ +v+  l+
  PHY93_14170|PHY93_14170 238 NVASVVGGLI 247
                              9999985444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (252 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1065  (0.059401); expected 358.6 (0.02)
Passed bias filter:                      459  (0.025601); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.45
# Mc/sec: 1693.67
//
Query:       PHY93_14175|PHY93_14175  [L=161]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.5e-24   87.1  17.0    2.8e-13   50.2   0.3    2.0  2  VIT1      VIT family
  ------ inclusion threshold ------
      0.033   14.3   3.1      0.058   13.5   2.3    1.8  1  Pox_A14   Poxvirus virion envelope protein A14
       0.19   12.1   5.8       0.18   12.1   4.7    1.6  1  DAD       DAD family
       0.64    9.0   8.1       0.79    8.7   8.1    1.2  1  PHO4      Phosphate transporter family


Domain annotation for each model (and alignments):
>> VIT1  VIT family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.2   0.3   6.2e-17   2.8e-13       1      68 [.      10      76 ..      10      81 .. 0.91
   2 !   45.1   7.9   2.4e-15   1.1e-11     134     214 ..      79     158 ..      68     159 .. 0.88

  Alignments for each domain:
  == domain 1  score: 50.2 bits;  conditional E-value: 6.2e-17
                     VIT1  1 lrdavlGanDGLvspfalvaGlsaaslgssktvllaGlaellAGaiSMgiGeYlsvkserdlekaerk 68
                             lr++v+G++D Lvs++++v+G+saa  +++++++l++l  +   a+SM++G+Yls k+  +l ++  +
  PHY93_14175|PHY93_14175 10 LRSLVFGFQDALVSTTGVVVGISAAI-HDPRIIVLSALVTVSVEALSMAAGQYLSEKAVHELPNSHHE 76
                             799********************755.8*****************************99988777655 PP

  == domain 2  score: 45.1 bits;  conditional E-value: 2.4e-15
                     VIT1 134 plkaAlssalsfliGgliPllpylfvesvglalvvsiavtllalllfGavkalltgssklvsalrmlliGalAaaaaylig 214
                               ++  l +++s++iGg+iP++p++f+       ++s++++ + l+++ +++a+l   ++++sa++ml++G+lA+ +  l+g
  PHY93_14175|PHY93_14175  79 LITGSLFMFFSYIIGGFIPIIPIFFTI-YPYSSILSVVFAFIGLFVLVFLRAKLFTGKIWRSAIEMLFVGGLATFVGLLVG 158
                              4667899******************99.667777788999999*********************************99998 PP

>> Pox_A14  Poxvirus virion envelope protein A14
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   2.3   1.3e-05     0.058      23      68 ..     111     161 .]     108     161 .] 0.86

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 1.3e-05
                  Pox_A14  23 ilacifafvd.....fskststtdkawralsivsFilgivillglllfsmy 68 
                              il+++faf+      f +++  t k+wr++  + F+ g++  +gll+ s +
  PHY93_14175|PHY93_14175 111 ILSVVFAFIGlfvlvFLRAKLFTGKIWRSAIEMLFVGGLATFVGLLVGSIF 161
                              7899999997433336788888*************************9976 PP

>> DAD  DAD family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   4.7     4e-05      0.18      24      73 ..      83     131 ..      64     142 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 4e-05
                              HHHHHHHHHHHHHHHHHHHHT--SSCHHHHHHHHHHHHHHHHHHHHHHHH CS
                      DAD  24 DafllflvlvgvlqfvYcvlvgnfpfnaflsgfiatvgqfvLtvsLRlql 73 
                                f++f  ++g++  +  ++++ +p+ ++ls ++a +g fvL+  LR +l
  PHY93_14175|PHY93_14175  83 SLFMFFSYIIGGFIPIIPIFFTIYPYSSILSVVFAFIGLFVLV-FLRAKL 131
                              579**************************************96.477665 PP

>> PHO4  Phosphate transporter family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.7   8.1   0.00018      0.79      10     134 ..      25     159 ..      15     161 .] 0.62

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 0.00018
                     PHO4  10 fatsvg.skaltlrqAvilaa.ifeflGa..vllGaeVaetirkgivdvelfdpselm....lgmlaallgaavwlllatvlglPv 87 
                              ++ +vg s a++  ++++l+a +   + a  + +G+  +e   +++   +  ++++l+    +++++ ++g ++  +   ++ +P 
  PHY93_14175|PHY93_14175  25 TGVVVGiSAAIHDPRIIVLSAlVTVSVEAlsMAAGQYLSEKAVHELP--NSHHEDKLItgslFMFFSYIIGGFIPIIPIFFTIYPY 108
                              45555533344444444444404444444334455656666666554..2335555556888999999****************** PP

                     PHO4  88 StthslvGaliGaalaa....eggeavkwkklvkivlswvlsPllggiiaa 134
                              S+  s+v a+iG  + +    + +++  w + ++ ++   l+ ++g++++ 
  PHY93_14175|PHY93_14175 109 SSILSVVFAFIGLFVLVflraKLFTGKIWRSAIEMLFVGGLATFVGLLVGS 159
                              ************887775653223555566666666666666777766665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (161 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       941  (0.0524848); expected 358.6 (0.02)
Passed bias filter:                      385  (0.0214736); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.51u 0.27s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 1063.51
//
Query:       PHY93_14180|PHY93_14180  [L=157]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.5e-11   42.7   0.0    5.7e-06   26.6   0.0    2.1  2  Flavodoxin_5  Flavodoxin domain
    5.6e-09   35.9   1.4    8.1e-08   32.1   1.4    2.1  1  Flavodoxin_4  Flavodoxin
    1.3e-05   24.9   0.1      0.013   15.1   0.0    2.6  3  Flavodoxin_3  Flavodoxin domain
     0.0002   21.1   0.0    0.00029   20.6   0.0    1.3  1  FMN_red       NADPH-dependent FMN reductase
     0.0013   18.9   0.1      0.088   13.0   0.0    2.5  2  Flavodoxin_1  Flavodoxin
  ------ inclusion threshold ------
      0.038   14.1   0.0      0.053   13.6   0.0    1.3  1  DUF498        Protein of unknown function (DUF498/DUF598)
       0.05   13.3   0.1      0.074   12.7   0.1    1.4  1  Flavodoxin_2  Flavodoxin-like fold
       0.11   12.4   0.0       0.19   11.5   0.0    1.4  1  BPS           BPS (Between PH and SH2)


Domain annotation for each model (and alignments):
>> Flavodoxin_5  Flavodoxin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.3   0.0   1.6e-05     0.035       1      28 [.       4      31 ..       4      42 .. 0.85
   2 !   26.6   0.0   2.5e-09   5.7e-06      31      85 ..      56     109 ..      46     137 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.6e-05
             Flavodoxin_5  1 lilYsSrdGqTkkiaeriaeelreegel 28
                             l+++ S++G+Tk++ae +a++l++ +++
  PHY93_14180|PHY93_14180  4 LVAFYSKTGKTKRVAENVAKALSADIDE 31
                             799*******************998554 PP

  == domain 2  score: 26.6 bits;  conditional E-value: 2.5e-09
             Flavodoxin_5  31 vedvekesedlesydavvigasvyygkllpelakFvekhreaLstkpvalfsvsl 85 
                              ++++ k ++d e+yd v++g++v  +++ p+++ +v+k r++++++ v + + s 
  PHY93_14180|PHY93_14180  56 LTEI-KTKKDPEKYDLVIVGTPVWAWNITPAVRTYVTKFRKNIKRMAVLVTAGSS 109
                              6667.5889**********************************999887766543 PP

>> Flavodoxin_4  Flavodoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.1   1.4   3.6e-11   8.1e-08       1     126 [.       2     120 ..       2     154 .. 0.75

  Alignments for each domain:
  == domain 1  score: 32.1 bits;  conditional E-value: 3.6e-11
                              -EEEEE--SSSHHHHHHHHHHHHHT-EEEE--BSS---TGGG-TT-TTSHHHHHHT-TT----BS---S-GGG-SEEEEEEE-B.T CS
             Flavodoxin_4   1 kilvayfscsgvtkavaeklaaitgadlyeikpevpyteadldwndkksrssvemrdalsrpaisgtlfhpekyevlfvgfpvw.w 85 
                              kilva++s +g tk vae++a    ad+ ei  +         w          m+++l+      t   peky++++vg pvw w
  PHY93_14180|PHY93_14180   2 KILVAFYSKTGKTKRVAENVAKALSADIDEIIDQRDRNG-IKGWLL---GGRDGMKESLTE---IKTKKDPEKYDLVIVGTPVWaW 80 
                              8*****************************976543322.223322...122345555544...358899**************78 PP

                              TB--HHHHHHHHTS--TT-EEEEEEE-SS--SHHHHHHHHH CS
             Flavodoxin_4  86 yiaptiintflesydfagkivvpfatsggsgignceknlhk 126
                               i+p+ + t++  +    k +  + t+g s   +    l k
  PHY93_14180|PHY93_14180  81 NITPA-VRTYVTKFRKNIKRMAVLVTAGSSKPEKTVSGLEK 120
                              88887.58999999988888888899988866555555555 PP

>> Flavodoxin_3  Flavodoxin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0     6e-06     0.013       2      29 ..       5      33 ..       4      42 .. 0.79
   2 !    7.2   0.0    0.0017       3.7      26      83 ..      54     112 ..      49     134 .. 0.81
   3 ?   -1.0   0.0      0.57   1.3e+03      64      99 ..     119     153 ..     111     156 .. 0.52

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 6e-06
             Flavodoxin_3  2 ilysSltGNTkkvAeaikealee.ekeiv 29
                             + + S+tG Tk vAe++++al++  +ei+
  PHY93_14180|PHY93_14180  5 VAFYSKTGKTKRVAENVAKALSAdIDEII 33
                             8899*****************99334443 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.0017
             Flavodoxin_3  26 keivsikeakekveeadvvfvGfwvdkgtadeealkfletlkn..kkillfgTlGagkds 83 
                              + + +ik++k+  e++d+v+vG+ v   +   ++++++++ +   k+ ++++T+G +k +
  PHY93_14180|PHY93_14180  54 ESLTEIKTKKD-PEKYDLVIVGTPVWAWNITPAVRTYVTKFRKniKRMAVLVTAGSSKPE 112
                              46778888888.99********99999999999999998885435899999999988765 PP

  == domain 3  score: -1.0 bits;  conditional E-value: 0.57
             Flavodoxin_3  64 etlknkkillfgTlGagkdseyakkilekvkallek 99 
                              e++ +kk+ ++    +++d +  +k+l+k++++lek
  PHY93_14180|PHY93_14180 119 EKIWGKKVEVYESW-VDDDFDDNEKCLKKTNEFLEK 153
                              55555555555443.333444445555555555554 PP

>> FMN_red  NADPH-dependent FMN reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.6   0.0   1.3e-07   0.00029       3     115 ..       3     105 ..       1     126 [. 0.70

  Alignments for each domain:
  == domain 1  score: 20.6 bits;  conditional E-value: 1.3e-07
                              EEEEES--STT-HHHHHHHHHHCCT-T.T-CE.EEEETTTS...--..---HCHGHTCGGSHHHHHHHHH..HHH-SCEEEEEEEC CS
                  FMN_red   3 ilvisGSlrkgsntrklaewaaealkeagaev.elidladl..ilpcalcdkdlesegqtsddvaellek..iaaadaliivtPeY 83 
                              ilv +   +k ++t+++ae +a+al    a++ e+id +d   i++   ++++     + ++ + e++ k   ++ d +i++tP++
  PHY93_14180|PHY93_14180   3 ILVAFY--SKTGKTKRVAENVAKAL---SADIdEIIDQRDRngIKG--WLLGGR---DGMKESLTEIKTKkdPEKYDLVIVGTPVW 78 
                              444444..457**************...577736779999633333..444444...468888877765522689*********** PP

                              TTCE-HHHHHHHHCHT-.SSCHCCTT-EEEEE CS
                  FMN_red  84 ngsysgllKnalDrlsrtrgkkelrgKpvalv 115
                               ++++++  +    +     +k  + ++v++ 
  PHY93_14180|PHY93_14180  79 AWNITPAVRTYVTKF-----RKNIKRMAVLVT 105
                              *******99998888.....566666666555 PP

>> Flavodoxin_1  Flavodoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.0   0.0   3.9e-05     0.088       1      26 [.       5      29 ..       5      39 .. 0.85
   2 ?    3.8   0.0     0.027        60      34      56 ..      57      78 ..      47     142 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 3.9e-05
                             EEEETSSSHHHHHHHHHHHHHHHTTT CS
             Flavodoxin_1  1 ilYgSetGnteklAkqlaeelgehgf 26
                             + ++S tG+t+ +A+ +a+ l+ +++
  PHY93_14180|PHY93_14180  5 VAFYSKTGKTKRVAENVAKALS-ADI 29
                             679******************9.565 PP

  == domain 2  score: 3.8 bits;  conditional E-value: 0.027
                             EGTTSCGGGGGTHSEEEEEEEEE CS
             Flavodoxin_1 34 sdydeslseieeealllvvtsTf 56
                              +++  +++ e+++l++v+t+ +
  PHY93_14180|PHY93_14180 57 TEIKT-KKDPEKYDLVIVGTPVW 78
                             44554.6899**********976 PP

>> DUF498  Protein of unknown function (DUF498/DUF598)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   2.4e-05     0.053      36      85 ..      49     100 ..      13     105 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 2.4e-05
                              TCEECHHHHHH....CT..T..SEEEEE-TTS-----HHHHHHHHCCTSEEEEE CS
                   DUF498  36 edlteeslell....ellepkpellilGtGkrqlplspevrealnelgigvevm 85 
                               d  +esl ++    ++  +k +l+i+Gt   ++ + p+vr+++++ + +++ m
  PHY93_14180|PHY93_14180  49 RDGMKESLTEIktkkDP--EKYDLVIVGTPVWAWNITPAVRTYVTKFRKNIKRM 100
                              44557888888654444..789**********************9988777665 PP

>> Flavodoxin_2  Flavodoxin-like fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   3.3e-05     0.074      34     102 ..      18      92 ..       1     142 [. 0.66

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 3.3e-05
                              TEEEEEEHHCCT-----CCCCHC.......C.HHHHTTCHHHHHHHHHHHHCSSEEEEEEE-BTTB--HHHHHHHHH CS
             Flavodoxin_2  34 hevtvrdLyadflpvlttrdlaa.......k.layeekpadveseqiekllaadaivlqfPlwwfgvPailKgwiDr 102
                              +e+    L ad +  +++rd ++       +   ++e +  + + + ++ +  d++++++P+w +++ +++  ++ +
  PHY93_14180|PHY93_14180  18 AENVAKALSADIDEIIDQRDRNGikgwllgGrDGMKE-SLTEIKTK-KDPEKYDLVIVGTPVWAWNITPAVRTYVTK 92 
                              4444555666666667777777776554432233333.33333344.67799*****************99999866 PP

>> BPS  BPS (Between PH and SH2)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   8.7e-05      0.19      14      34 ..      11      31 ..       4      40 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 8.7e-05
                      BPS 14 SGqkgrvIeNptEalsaalee 34
                             +G++ rv eN + alsa+ +e
  PHY93_14180|PHY93_14180 11 TGKTKRVAENVAKALSADIDE 31
                             79****************998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (157 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       832  (0.0464053); expected 358.6 (0.02)
Passed bias filter:                      611  (0.0340789); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.54u 0.28s 00:00:00.82 Elapsed: 00:00:00.47
# Mc/sec: 1000.22
//
Query:       PHY93_14185|PHY93_14185  [L=167]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    9.7e-26   90.1   0.0    1.3e-25   89.8   0.0    1.1  1  DUF2726    Protein of unknown function (DUF2726)
    0.00053   20.1   0.0     0.0011   19.1   0.0    1.5  1  MTES_1575  REase_MTES_1575
      0.003   17.4   0.0     0.0044   16.9   0.0    1.2  1  DUF559     Protein of unknown function (DUF559)
  ------ inclusion threshold ------
      0.066   14.0   5.4      0.087   13.6   5.4    1.3  1  DKNYY      DKNYY family


Domain annotation for each model (and alignments):
>> DUF2726  Protein of unknown function (DUF2726)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   89.8   0.0   2.8e-29   1.3e-25       3     123 ..      49     164 ..      47     167 .] 0.90

  Alignments for each domain:
  == domain 1  score: 89.8 bits;  conditional E-value: 2.8e-29
                  DUF2726   3 pllnreEraflsaLkkavgdelrvlakVslsdvlkvekgtsksqsqealnrisakrvDfllcdkadlkpvavIeldgakhkqgkar 88 
                              +lln++E+ f+++Lk avg++++++++Vsl+++ ++  +++  ++ e+ +   +kr+Df+l+dk++ +p+++Ieldg +h++ k  
  PHY93_14185|PHY93_14185  49 SLLNSNEHIFFNQLKLAVGNRYEIYPQVSLGAIFQP--INQWHNWAEINS--LNKRIDFVLFDKSTQTPKIAIELDGYSHSKYKNF 130
                              69*********************************5..566677766654..489******************************* PP

                  DUF2726  89 krDalkraalaaAgipllrvkakksytveelrrdl 123
                              krD++++ ++++  ipllr+    +y+ ee+++++
  PHY93_14185|PHY93_14185 131 KRDEFVESIFQKFKIPLLRF-NNGKYSSEEIKKEI 164
                              ********************.55667888888888 PP

>> MTES_1575  REase_MTES_1575
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   2.4e-07    0.0011      13      80 ..      69     155 ..      56     166 .. 0.77

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 2.4e-07
                MTES_1575  13 gykvkpqvgvg..................gfriDlvvedp..gkyllaIecdgdkyhsskeardrdierqevLerlGWkilRiwss 78 
                               y++ pqv++g                  + riD+v+ d+  ++ ++aIe dg+++++  ++ +rd   +++ ++    +lR+ + 
  PHY93_14185|PHY93_14185  69 RYEIYPQVSLGaifqpinqwhnwaeinslNKRIDFVLFDKstQTPKIAIELDGYSHSK-YKNFKRDEFVESIFQKFKIPLLRFNNG 153
                              567777777777777777777777777779**********99999*********6555.888888888888777777666666655 PP

                MTES_1575  79 dw 80 
                              ++
  PHY93_14185|PHY93_14185 154 KY 155
                              55 PP

>> DUF559  Protein of unknown function (DUF559)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0   9.7e-07    0.0044      45      95 ..     105     157 ..      97     167 .] 0.63

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 9.7e-07
                              EEEEEETTTTEEEEEE-----------HHHHHHHHH....TT-EEEEEEHHHHHH CS
                   DUF559  45 ivDfvclkaklivelDGaqhdeeeeyDaeRtelLes....lGftvlRfkndevlk 95 
                              + D  +++ k+ +elDG  h++   ++ +R+e++es    +    lRf+n +  +
  PHY93_14185|PHY93_14185 105 LFDKSTQTPKIAIELDGYSHSKY--KNFKRDEFVESifqkFKIPLLRFNNGKYSS 157
                              556678899***********954..45555555555220055567***9976533 PP

>> DKNYY  DKNYY family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   5.4   1.9e-05     0.087      23      73 ..      14      92 ..      11     166 .. 0.60

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 1.9e-05
                    DKNYY 23 FkvLnedkyakDknnvYykgkkiseidpknlkil.................esfelikkikdknnvY..................v 73
                             Fk++++++++kDk+++Y k+  i++i ++n+k+                  +       + +  ++Y                  +
  PHY93_14185|PHY93_14185 14 FKIFSKYFFIKDKSEIYDKKFPIKKITSDNFKLRpsllnsnehiffnqlklA-------VGNRYEIYpqvslgaifqpinqwhnwA 92
                             999999************************9988777776655444333330.......334444444444333333333333442 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (167 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       980  (0.05466); expected 358.6 (0.02)
Passed bias filter:                      564  (0.0314574); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.52u 0.27s 00:00:00.79 Elapsed: 00:00:00.45
# Mc/sec: 1110.05
//
Query:       PHY93_14190|PHY93_14190  [L=373]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   6.5e-141  469.6   8.5   7.6e-141  469.4   8.5    1.0  1  EcoRI_methylase  Adenine-specific methyltransferase EcoRI
  ------ inclusion threshold ------
      0.062   13.4   0.0        0.1   12.7   0.0    1.2  1  Asp-B-Hydro_N    Aspartyl beta-hydroxylase N-terminal region


Domain annotation for each model (and alignments):
>> EcoRI_methylase  Adenine-specific methyltransferase EcoRI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  469.4   8.5  8.5e-145  7.6e-141       1     353 []       4     373 .]       4     373 .] 0.93

  Alignments for each domain:
  == domain 1  score: 469.4 bits;  conditional E-value: 8.5e-145
          EcoRI_methylase   1 nLnkAkkakkdEfYtqlediekElkaY....kkkFkdkvvlcnCdDpfeSnFfkyFalnFnelgLkkLiatsykkskiagselkl. 81 
                              nL++A++ k+dEfYtq+ di+kE+++Y    k+ Fk+kvv+cnCdDp+eSnFf+yF+lnFn+l+L++Li+tsyk s++a+++l+l 
  PHY93_14190|PHY93_14190   4 NLDNARRMKSDEFYTQYCDIQKEIEVYldynKNVFKGKVVYCNCDDPYESNFFRYFVLNFNKLELRQLITTSYKPSPLANTQLELy 89 
                              699**************************999***************************************************998 PP

          EcoRI_methylase  82 ...eekelvsdkdkkkayklevkevkdangdgavdledveal...kkknelkkLkgdGdFrseeciellkeadivvtNPPFSlFre 161
                                 ++ ++++ ++k +a k++++ev+d++gdg+++l+d++++   +k+ne+  Lk++GdFrs+ec+ellk+++ivvtNPPFSlFre
  PHY93_14190|PHY93_14190  90 sdnKTVTPQKGRPKVTANKFIINEVYDTDGDGEFNLKDIAKKlreNKNNEWAPLKENGDFRSAECVELLKQSNIVVTNPPFSLFRE 175
                              7776777888999999***********************99988778899************************************ PP

          EcoRI_methylase 162 yvaqlveyeKkfliignvnaitYkeiFplikenklwlGasiksgdaafkvpddyelkatevvvdeegeklikvknvlWftNldikk 247
                              yv+ql ey+Kkf+iign+naitYkeiF+lik nklwlG+si+sgd++f+vpd+y+ +a+  ++d++g+k+i+vk+v+WftNld+ +
  PHY93_14190|PHY93_14190 176 YVKQLFEYNKKFVIIGNMNAITYKEIFSLIKANKLWLGQSISSGDREFQVPDNYPITASGWRIDDSGRKYIRVKGVRWFTNLDHGR 261
                              ************************************************************************************** PP

          EcoRI_methylase 248 rheelvLvk..........ky..seeeYpkydnydaievnktkdiPlDYegvmGVpitfldkynpeqFeivelaageeasveklkl 321
                              rh++l L++          k+   +++Y++ydnydaie+++t++iP DYegvmGVpi+fldky+p+qFei++++a      + ++ 
  PHY93_14190|PHY93_14190 262 RHQSLPLMTmvdnlkyskhKEikGKDSYNHYDNYDAIEIPFTDSIPNDYEGVMGVPISFLDKYSPQQFEILGMSAS-----AGYNR 342
                              **************999873355899*********************************************77555.....22222 PP

          EcoRI_methylase 322 kekklakkkeedkkkelingkkkyaRilirrk 353
                              +  +      +++ ++lingk++yaRi i++k
  PHY93_14190|PHY93_14190 343 DIVGIP-FLGVKDARPLINGKNTYARIFIKNK 373
                              222222.3455667899*************97 PP

>> Asp-B-Hydro_N  Aspartyl beta-hydroxylase N-terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   1.1e-05       0.1      47      70 ..     114     138 ..     108     168 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 1.1e-05
            Asp-B-Hydro_N  47 vYDaDGDGDFDVdD.AKvLLglkek 70 
                              vYD+DGDG+F   D AK L + k++
  PHY93_14190|PHY93_14190 114 VYDTDGDGEFNLKDiAKKLRENKNN 138
                              9***********9978887775544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (373 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       562  (0.0313459); expected 358.6 (0.02)
Passed bias filter:                      405  (0.0225891); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.26s 00:00:00.80 Elapsed: 00:00:00.43
# Mc/sec: 2587.38
//
Query:       PHY93_14195|PHY93_14195  [L=388]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.6e-19   70.3   0.3    6.8e-13   49.3   0.0    2.7  3  DUF262    Protein of unknown function DUF262
    9.5e-06   25.7   2.0    1.9e-05   24.8   2.0    1.5  1  HNH       HNH endonuclease
    0.00064   19.5   0.1     0.0025   17.6   0.1    2.1  3  HNH_5     HNH endonuclease
      0.003   16.8   0.0     0.0048   16.2   0.0    1.3  1  DndB      DNA-sulfur modification-associated


Domain annotation for each model (and alignments):
>> DUF262  Protein of unknown function DUF262
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.3   0.0   1.5e-16   6.8e-13      12      78 ..      36     105 ..      23     129 .. 0.75
   2 !   19.3   0.0   2.2e-07     0.001     180     220 ..     128     166 ..     103     167 .. 0.74
   3 ?   -1.8   0.1      0.64   2.9e+03     135     135 ..     265     265 ..     184     335 .. 0.60

  Alignments for each domain:
  == domain 1  score: 49.3 bits;  conditional E-value: 1.5e-16
                   DUF262  12 lriPdfQRpyvW....eeeqveeLiedllalkgyplGsivlwskaadsageleviDGQQRltTltlllaa....t 78 
                               + P++QR+y +      ++    i+++  lkgyp+G i++   ++ ++++lev+DGQQR+t+l  +la     +
  PHY93_14195|PHY93_14195  36 TIQPEYQRNYIYasidGGKKEVAVIDSI--LKGYPIGLIYF---NKINSDKLEVLDGQQRITSLGRFLADkfaiK 105
                              478*********88876777899*****..***********...67779*******************9922220 PP

  == domain 2  score: 19.3 bits;  conditional E-value: 2.2e-07
                   DUF262 180 lslieieleseddedqayeiFerlNsrGvpLtasellkall 220
                               +l+ +e+  e +e++++e F+++N  GvpL+++ell+a +
  PHY93_14195|PHY93_14195 128 AKLLIYEC--EGTESEIKEWFKTINIAGVPLNNQELLNAVY 166
                              33444444..48899***********************976 PP

  == domain 3  score: -1.8 bits;  conditional E-value: 0.64
                   DUF262 135 a 135
                              +
  PHY93_14195|PHY93_14195 265 Y 265
                              1 PP

>> HNH  HNH endonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.8   2.0   4.1e-09   1.9e-05       1      44 [.     337     387 ..     337     388 .] 0.83

  Alignments for each domain:
  == domain 1  score: 24.8 bits;  conditional E-value: 4.1e-09
                      HNH   1 CeyCgrkfhks.......ealevdHiipisqggaddieNlqllCksCHnkk 44 
                              C  C +  + +       ++   dH+  +s+gg++  eN+q+lCk+ +++k
  PHY93_14195|PHY93_14195 337 CPHCAMGHDANkskiwklDEMDADHVMAWSKGGETKAENCQMLCKTHNRAK 387
                              6777766444467778889999***********************988887 PP

>> HNH_5  HNH endonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.7   0.0       2.5   1.1e+04      14      28 ..      42      56 ..      37      58 .. 0.76
   2 ?   -3.6   0.0       2.3     1e+04      20      30 ..     296     306 ..     294     308 .. 0.73
   3 !   17.6   0.1   5.5e-07    0.0025      11      44 ..     355     388 .]     348     388 .] 0.89

  Alignments for each domain:
  == domain 1  score: -3.7 bits;  conditional E-value: 2.5
                    HNH_5 14 seeHIiPeslGGklt 28
                             ++ +I+  + GGk+ 
  PHY93_14195|PHY93_14195 42 QRNYIYASIDGGKKE 56
                             677899999999975 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 2.3
                    HNH_5  20 PeslGGkltis 30 
                                +lGG+ +++
  PHY93_14195|PHY93_14195 296 EYILGGSIDTK 306
                              56799998875 PP

  == domain 3  score: 17.6 bits;  conditional E-value: 5.5e-07
                    HNH_5  11 kelseeHIiPeslGGkltisnlvtlCkkCNqkkg 44 
                              +e+  +H++  s+GG ++ +n+++lCk+ N  kg
  PHY93_14195|PHY93_14195 355 DEMDADHVMAWSKGGETKAENCQMLCKTHNRAKG 388
                              67899**********************9888776 PP

>> DndB  DNA-sulfur modification-associated
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0   1.1e-06    0.0048      99     243 ..      78     241 ..      35     277 .. 0.78

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 1.1e-06
                     DndB  99 da.eilivDGQHRraAieealkeepelgeeei....................pvvlfvelgleksqqlFadlNkyakridksllll 163
                              ++ ++ ++DGQ+R+ ++  +l ++ ++++e+                      +++  e    + ++ F+ +N  +++++++ ll 
  PHY93_14195|PHY93_14195  78 NSdKLEVLDGQQRITSLGRFLADKFAIKDENGmeqyfsgmakdkqnkileakLLIYECEGTESEIKEWFKTINIAGVPLNNQELLN 163
                              334899************9999555453333333334777777777779874444444888999*********************9 PP

                     DndB 164 yderdplaliakklleevpifaglvemeksslskkseklfTlstlveatkellknqsaskealdekielasefwnavaet 243
                                +++p++++ k+   +++  a++++ +    ++++++ f   +l  ++k  +++ + sk+ +d++i+ +++++n v+  
  PHY93_14195|PHY93_14195 164 AVYSGPFVTLGKEEFSNSQ-NANIQKWSAYVSGTANRQDFLERALDWVSKGNIGD-YMSKHRYDKDINELKTYFNGVIDW 241
                              999***************5.78899888888899999999888999999999999.*******************99876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (388 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       730  (0.0407162); expected 358.6 (0.02)
Passed bias filter:                      478  (0.0266607); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.63u 0.25s 00:00:00.88 Elapsed: 00:00:00.45
# Mc/sec: 2574.98
//
Query:       PHY93_14200|PHY93_14200  [L=135]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.6e-07   30.8   3.4    3.4e-07   30.4   3.4    1.2  1  DUF2178          Predicted membrane protein (DUF2178)
     0.0041   17.4   7.3       0.02   15.2   7.2    1.9  1  DUF4064          Protein of unknown function (DUF4064)
     0.0049   16.6   8.0     0.0063   16.3   8.0    1.1  1  Tetraspanin      Tetraspanin family
  ------ inclusion threshold ------
      0.068   13.0   0.4       0.12   12.2   0.4    1.4  1  Retrotran_gag_3  gag-polypeptide of LTR copia-type
       0.24   11.1   0.0       0.24   11.1   0.0    2.0  2  Sensor_TM1       Sensor N-terminal transmembrane domain
        1.9    8.2  11.8        4.3    7.0   0.1    3.3  3  DUF3149          Protein of unknown function (DUF3149)


Domain annotation for each model (and alignments):
>> DUF2178  Predicted membrane protein (DUF2178)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.4   3.4   1.1e-10   3.4e-07       2     106 .]      12     120 ..      11     120 .. 0.88

  Alignments for each domain:
  == domain 1  score: 30.4 bits;  conditional E-value: 1.1e-10
                  DUF2178   2 liivavialvglgiwaaignvllaviavaaGvllaillkkkveevveDERlariaekAsrktlqillfliallgvvliv....... 80 
                              +++ +v+++v lg   ++g ++la+  +++G + ++++  k+++   DER + + e+A +++  i++ +i++++ +l++       
  PHY93_14200|PHY93_14200  12 MVLTFVLVTVVLGW--INGIYVLAGSGLLIGLVFLAVT--KMKKGGVDEREKSVREQATKIAYSIFAPTIGIGSFLLLLfssgsls 93 
                              56778888888888..99*************9988776..5677888*************************99999988899988 PP

                  DUF2178  81 .lksdfpeytrvgfllafsallllilY 106
                                k++f + + +g+++a+  l+l++lY
  PHY93_14200|PHY93_14200  94 tVKERFYYLQSLGVIFAYLTLFLIVLY 120
                              778888677****************99 PP

>> DUF4064  Protein of unknown function (DUF4064)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   7.2   6.7e-06      0.02       6      85 ..      21     130 ..      18     133 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 6.7e-06
                  DUF4064   6 iiLglIGgilgillglllllflfllssgefsqeltee..............................qalsgedasavleflstll 61 
                               +Lg+I gi  + +++ll++ +fl  ++ ++    e+                              ++ s + +++   +l++l+
  PHY93_14200|PHY93_14200  21 VVLGWINGIYVLAGSGLLIGLVFLAVTKMKKGGVDEReksvreqatkiaysifaptigigsfllllfSSGSLSTVKERFYYLQSLG 106
                              699***887776666666666666666555555555589999******************************************** PP

                  DUF4064  62 ivlgvialiaivlgivgalllkkn 85 
                              ++++ + l++ivl +++ ++l+k+
  PHY93_14200|PHY93_14200 107 VIFAYLTLFLIVLYLIAYYFLNKK 130
                              **********************75 PP

>> Tetraspanin  Tetraspanin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   8.0   2.1e-06    0.0063       3     106 ..      21     129 ..      13     133 .. 0.71

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 2.1e-06
                              XXXXXXXXXXXXXXXXXXXXXXXXXX........XXX.....................XXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Tetraspanin   3 yllfffnllfwligivllavGvwlrl........khaeaalacllsesaedpailaillivvGvllfllgflGcigalkenkclll 80 
                              ++l ++n + +l+g  ll+  v l +        ++ e++     ++ ++ + ++  + i +G++l+ll   G + ++ke+   l+
  PHY93_14200|PHY93_14200  21 VVLGWINGIYVLAGSGLLIGLVFLAVtkmkkggvDEREKSV--R-EQATKIAYSIFAPTIGIGSFLLLLFSSGSLSTVKERFYYLQ 103
                              45666666666666555543344444788866443332222..2.2334444445588**************************** PP

                              XXXXXXXXXXXXXXXXXXXXX--HHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Tetraspanin  81 tfsllllvlfllelaagilgfvfsdk 106
                              +  ++   l l+++++ ++++ f +k
  PHY93_14200|PHY93_14200 104 SLGVIFAYLTLFLIVLYLIAYYFLNK 129
                              ***99999999999999999998887 PP

>> Retrotran_gag_3  gag-polypeptide of LTR copia-type
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.4   3.9e-05      0.12      17      43 ..       3      29 ..       1      32 [. 0.88

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 3.9e-05
          Retrotran_gag_3 17 gdNYssWkramrlaLsvKnklGFvdGs 43
                             ++ Y  Wkr ++++++v+  lG ++G 
  PHY93_14200|PHY93_14200  3 EKRYIKWKRMVLTFVLVTVVLGWINGI 29
                             56699*********************6 PP

>> Sensor_TM1  Sensor N-terminal transmembrane domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   8.1e-05      0.24      29      60 ..      41      72 ..      28      77 .. 0.79
   2 ?   -2.7   1.1       1.7   5.1e+03      25      34 ..     112     121 ..     105     128 .. 0.53

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 8.1e-05
               Sensor_TM1 29 aGiLYlnqfRdgLidarvesLltqaeliAdvi 60
                               +L ++++++g +d r++s++ qa  iA  i
  PHY93_14200|PHY93_14200 41 LVFLAVTKMKKGGVDEREKSVREQATKIAYSI 72
                             34566799*****************9998544 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 1.7
               Sensor_TM1  25 vvLvaGiLYl 34 
                              + L+  +LYl
  PHY93_14200|PHY93_14200 112 LTLFLIVLYL 121
                              3344444444 PP

>> DUF3149  Protein of unknown function (DUF3149)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.1      0.69   2.1e+03      23      35 ..      39      49 ..      28      51 .. 0.57
   2 ?    7.0   0.1    0.0014       4.3      19      33 ..      75      89 ..      72      93 .. 0.87
   3 ?    4.1   4.6     0.012        35      11      32 ..     102     126 ..     100     130 .. 0.81

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 0.69
                  DUF3149 23 mgaffiryFirKm 35
                             +g++f  + + Km
  PHY93_14200|PHY93_14200 39 IGLVF--LAVTKM 49
                             33333..334455 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.0014
                  DUF3149 19 ftigmgaffiryFir 33
                             +tig+g+f + +F+ 
  PHY93_14200|PHY93_14200 75 PTIGIGSFLLLLFSS 89
                             79***********86 PP

  == domain 3  score: 4.1 bits;  conditional E-value: 0.012
                  DUF3149  11 LlSliVIvf...tigmgaffiryFi 32 
                              L Sl+VI++    ++++++ i y++
  PHY93_14200|PHY93_14200 102 LQSLGVIFAyltLFLIVLYLIAYYF 126
                              779****8644489********997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (135 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       973  (0.0542696); expected 358.6 (0.02)
Passed bias filter:                      436  (0.0243181); expected 358.6 (0.02)
Passed Vit filter:                        57  (0.00317921); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.43
# Mc/sec: 937.21
//
Query:       PHY93_06015|PHY93_06015  [L=253]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.3e-20   71.9   0.0    1.5e-19   70.9   0.0    1.5  1  ABC_tran  ABC transporter
    7.7e-05   22.2   0.2      0.073   12.5   0.0    2.2  2  SMC_N     RecF/RecN/SMC N terminal domain
    0.00024   21.0   1.2     0.0081   16.0   0.1    2.2  2  AAA_21    AAA domain, putative AbiEii toxin, Type IV TA syste
     0.0047   16.9   0.3       0.48   10.3   0.0    2.3  2  NTPase_1  NTPase
      0.005   17.1   0.0      0.013   15.8   0.0    1.7  1  AAA_22    AAA domain
  ------ inclusion threshold ------
      0.028   13.1   0.0      0.035   12.8   0.0    1.2  1  AAA_13    AAA domain
      0.033   11.7   0.1      0.045   11.3   0.1    1.1  1  DUF3584   Protein of unknown function (DUF3584)
       0.07   13.6   0.6       0.15   12.6   0.6    1.8  1  AAA_23    AAA domain
      0.087   13.4   0.0       0.19   12.3   0.0    1.7  2  AAA_18    AAA domain
       0.12   12.5   0.2       0.23   11.5   0.2    1.5  1  MMR_HSR1  50S ribosome-binding GTPase
       0.16   11.0   0.0       0.26   10.2   0.0    1.3  1  MeaB      Methylmalonyl Co-A mutase-associated GTPase MeaB


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.9   0.0   9.3e-23   1.5e-19       1     135 [.      52     184 ..      52     186 .. 0.85

  Alignments for each domain:
  == domain 1  score: 70.9 bits;  conditional E-value: 9.3e-23
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS.--S-TTSBHHHH...... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxx...... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqe.pqlfpeltvren...... 79 
                              l+n++l+++eg ++++vG nGaGKStL+++++g ++p+ G++               +  ++ l++    l pel+ ren      
  PHY93_06015|PHY93_06015  52 LNNINLTVYEGDRIGLVGVNGAGKSTLCRCISGFYQPKIGKV-------------LRNGGVRALFEStLGLYPELSGRENakilae 124
                              79****************************************.............5667888888887888888888888888888 PP

                              ....HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEEST CS
                              ....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ....esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEp 135
                                  + ++++e+++++       ++ ++   +++S+G+ +r+ l  + +k +++l+lDE 
  PHY93_06015|PHY93_06015 125 iyypQFRNKLEEIVEESLEFSELKSFIDAPIKTYSKGMMVRLTLSLLSAKPADILILDEV 184
                              9999666666666655444444666666666****************************6 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.8   0.1    0.0012         2      28      45 ..      66      83 ..      53     123 .. 0.82
   2 !   12.5   0.0   4.5e-05     0.073     145     206 ..     162     224 ..     159     234 .. 0.82

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0012
                             EEEESTTSSHHHHHHHHH CS
                             xxxxxxxxxxxxxxxxxx RF
                    SMC_N 28 aivGpNGSGKsnlldAil 45
                              +vG NG+GKs l+  i+
  PHY93_06015|PHY93_06015 66 GLVGVNGAGKSTLCRCIS 83
                             589**********99886 PP

  == domain 2  score: 12.5 bits;  conditional E-value: 4.5e-05
                              HHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTT.SEEEEE-SSHHHCCC-S CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxx RF
                    SMC_N 145 valaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkekskn.aQfivislreemlekad 206
                              +++ L +++ ++kpa + +lDe+    De  ++k++ ++k+  ++   +i +s+ e ++ +++
  PHY93_06015|PHY93_06015 162 MMVRLTLSLLSAKPADILILDEVFDGADEFFREKLSVRIKNLIEQsGAVIFVSHYEAQVYNVS 224
                              57899***********************************99888445777888776665543 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.1     5e-06    0.0081       3      25 ..      66      88 ..      65     161 .. 0.75
   2 ?    4.1   0.1      0.02        33     246     297 ..     165     215 ..     152     218 .. 0.80

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 5e-06
                   AAA_21  3 vliGpNgsGKSnLLdaldllarl 25
                             +l+G Ng+GKS+L ++++++ + 
  PHY93_06015|PHY93_06015 66 GLVGVNGAGKSTLCRCISGFYQP 88
                             69***************999764 PP

  == domain 2  score: 4.1 bits;  conditional E-value: 0.02
                   AAA_21 246 alltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQviltTH 297
                              +l ++ll+a +  ++l++DE+  g +  + ++l   +k+l +  + vi+++H
  PHY93_06015|PHY93_06015 165 RLTLSLLSAKPA-DILILDEVFDGADEFFREKLSVRIKNLIEQSGAVIFVSH 215
                              6899****9999.*******98887777777777777666666777777777 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.1     0.018        30       2      20 ..      65      83 ..      64     101 .. 0.86
   2 !   10.3   0.0   0.00029      0.48      85     136 ..     167     218 ..     155     231 .. 0.82

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.018
                             EEEE--TTSSHHHHHHHHH CS
                 NTPase_1  2 vfiTGppGvGKtTlvkkvl 20
                             + + G  G GK+Tl++ ++
  PHY93_06015|PHY93_06015 65 IGLVGVNGAGKSTLCRCIS 83
                             77899*********98776 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 0.00029
                              HHHHHHHHHHHH-EEEE---..STTGGG-HHHHHHHHHHHTTTSEEEEE--SS- CS
                 NTPase_1  85 alealrkalseadviviDEi..GkmElkskkfkeaveevLksekpvlavihrrk 136
                              +l+ l+   + ad++++DE+  G  E++ +k++  ++++++++  v++v h + 
  PHY93_06015|PHY93_06015 167 TLSLLSA--KPADILILDEVfdGADEFFREKLSVRIKNLIEQSGAVIFVSHYEA 218
                              4555543..789*************************************99884 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.0   7.8e-06     0.013      10     102 ..      67     186 ..      61     221 .. 0.75

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 7.8e-06
                   AAA_22  10 vtGesGtGKTtllrrlleqldeeakaee........................erpevv.fvtlpsst.sskdllrellralglelk 69 
                              ++G  G+GK+tl+r +   ++  +k+ +                        e+++++ +++ p+   +++++ +e l++ +l+  
  PHY93_06015|PHY93_06015  67 LVGVNGAGKSTLCRCISGFYQ--PKIGKvlrnggvralfestlglypelsgrENAKILaEIYYPQFRnKLEEIVEESLEFSELKSF 150
                              78****************995..455557899*****9999999999998886666667666666665888888888888886544 PP

                   AAA_22  70 a....erlsseellealeqalraravielliiDEaqh 102
                                   ++ s+  ++++    l+a+ +  +li+DE+  
  PHY93_06015|PHY93_06015 151 IdapiKTYSKGMMVRLTLSLLSAKPA-DILILDEVFD 186
                              49999999999999************.*******844 PP

>> AAA_13  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   2.2e-05     0.035      23      50 ..      69      96 ..      63     142 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 2.2e-05
                   AAA_13 23 GwNGaGKTtLSrllrslelgetepkfan 50
                             G NGaGK+tL+r ++ + + ++ + + n
  PHY93_06015|PHY93_06015 69 GVNGAGKSTLCRCISGFYQPKIGKVLRN 96
                             99*************9987776666555 PP

>> DUF3584  Protein of unknown function (DUF3584)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.1   2.8e-05     0.045      19      57 ..      64     103 ..      54     105 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 2.8e-05
                  DUF3584  19 htnieGtNaaGKTtLlrLiPlFYGeePsrivskt.grksf 57 
                              +  ++G+N+aGK tL r i  FY  +  +++++   r+ f
  PHY93_06015|PHY93_06015  64 RIGLVGVNGAGKSTLCRCISGFYQPKIGKVLRNGgVRALF 103
                              56689******************88888888877566666 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.6     9e-05      0.15      23      40 ..      66      83 ..      47     207 .. 0.91

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 9e-05
                   AAA_23 23 lItGpNGaGKTTildAik 40
                              ++G NGaGK+T+ ++i 
  PHY93_06015|PHY93_06015 66 GLVGVNGAGKSTLCRCIS 83
                             579*************96 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   0.00012      0.19       1      19 [.      65      83 ..      65     143 .. 0.85
   2 ?   -2.6   0.0       4.5   7.4e+03      49      68 ..     188     207 ..     173     227 .. 0.56

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00012
                   AAA_18  1 IlltGtpGvGKttlakeLs 19
                             I+l G+ G+GK+tl++ +s
  PHY93_06015|PHY93_06015 65 IGLVGVNGAGKSTLCRCIS 83
                             89*************9774 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 4.5
                   AAA_18  49 skrldedkldklldaleens 68 
                               +++ ++kl + +++l e+s
  PHY93_06015|PHY93_06015 188 ADEFFREKLSVRIKNLIEQS 207
                              44444455555555554443 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.2   0.00014      0.23       1      22 [.      64      85 ..      64      99 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00014
                             EEEEEESTTSSHHHHHHHHHTS CS
                 MMR_HSR1  1 evaivGrpNvGKStLinaltge 22
                             ++++vG   +GKStL + ++g 
  PHY93_06015|PHY93_06015 64 RIGLVGVNGAGKSTLCRCISGF 85
                             699**************99874 PP

>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0   0.00016      0.26      28      48 ..      61      81 ..      46      93 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00016
                             -SEEEEEEE-TTSSHHHHHHH CS
                     MeaB 28 raqvvGltGvPGaGkstlvea 48
                             +  ++Gl Gv GaGkstl   
  PHY93_06015|PHY93_06015 61 EGDRIGLVGVNGAGKSTLCRC 81
                             5689*************9765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (253 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       554  (0.0308997); expected 358.6 (0.02)
Passed bias filter:                      512  (0.0285571); expected 358.6 (0.02)
Passed Vit filter:                        91  (0.00507558); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.61u 0.27s 00:00:00.88 Elapsed: 00:00:00.46
# Mc/sec: 1658.40
//
Query:       PHY93_14205|PHY93_14205  [L=64]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.6e-14   53.0   0.0    2.8e-14   52.9   0.0    1.1  1  HTH_3           Helix-turn-helix
    1.7e-09   37.5   0.1      2e-09   37.3   0.1    1.1  1  HTH_19          Helix-turn-helix domain
    4.9e-06   26.0   0.0    7.1e-06   25.5   0.0    1.2  1  Sigma70_r4      Sigma-70, region 4
    7.1e-06   26.3   0.0    8.5e-06   26.0   0.0    1.1  1  HTH_31          Helix-turn-helix domain
    1.4e-05   24.9   0.1    1.9e-05   24.5   0.1    1.2  1  HTH_11          HTH domain
    0.00034   20.4   0.0    0.00042   20.1   0.0    1.2  1  HTH_25          Helix-turn-helix domain
    0.00059   20.2   0.0    0.00068   20.0   0.0    1.2  1  HTH_26          Cro/C1-type HTH DNA-binding domain
     0.0006   19.5   0.0     0.0008   19.1   0.0    1.3  1  HTH_23          Homeodomain-like domain
    0.00087   18.9   0.0     0.0014   18.3   0.0    1.3  1  Sigma70_r4_2    Sigma-70, region 4
      0.006   16.5   0.0     0.0077   16.2   0.0    1.2  1  HTH_Crp_2       Crp-like helix-turn-helix domain
     0.0095   15.5   0.0      0.012   15.1   0.0    1.3  1  HTH_24          Winged helix-turn-helix DNA-binding
  ------ inclusion threshold ------
      0.014   15.6   0.0      0.016   15.3   0.0    1.3  1  HTH_17          Helix-turn-helix domain
      0.016   14.9   0.0      0.025   14.4   0.0    1.3  1  HTH_38          Helix-turn-helix domain
       0.02   14.7   0.0      0.023   14.6   0.0    1.3  1  YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitox
      0.028   14.6   0.0       0.04   14.1   0.0    1.2  1  HTH_28          Helix-turn-helix domain
      0.039   13.8   0.0      0.056   13.3   0.0    1.2  1  HTH_AsnC-type   AsnC-type helix-turn-helix domain
      0.047   13.3   0.0      0.072   12.7   0.0    1.3  1  GntR            Bacterial regulatory proteins, gntR family
      0.053   13.3   0.0      0.093   12.5   0.0    1.4  1  HTH_10          HTH DNA binding domain
      0.063   13.4   0.0      0.086   13.0   0.0    1.2  1  HTH_Tnp_1_2     Helix-turn-helix of insertion element transpo
       0.07   12.9   0.0       0.11   12.3   0.0    1.3  1  HTH_8           Bacterial regulatory protein, Fis family
      0.074   13.2   0.0      0.086   13.0   0.0    1.1  1  Importin_rep_6  Importin repeat 6
      0.081   13.2   0.1       0.11   12.8   0.1    1.2  1  KORA            TrfB plasmid transcriptional repressor
       0.09   12.9   0.0        0.1   12.7   0.0    1.3  1  Phage_CI_repr   Bacteriophage CI repressor helix-turn-helix d
       0.12   12.8   0.0       0.16   12.4   0.0    1.3  1  DUF1323         Putative transcription regulator (DUF1323)
       0.12   12.0   1.2       0.27   10.9   0.2    1.9  2  CENP-B_N        CENP-B N-terminal DNA-binding domain
       0.14   12.2   0.0        0.2   11.7   0.0    1.2  1  HTH_29          Winged helix-turn helix
       0.15   12.0   0.0       0.19   11.6   0.0    1.2  1  MarR_2          MarR family
       0.18   11.6   0.0       0.23   11.2   0.0    1.2  1  MerR            MerR family regulatory protein


Domain annotation for each model (and alignments):
>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.9   0.0   4.4e-17   2.8e-14       2      54 ..       6      58 ..       5      59 .. 0.92

  Alignments for each domain:
  == domain 1  score: 52.9 bits;  conditional E-value: 4.4e-17
                             HHHHHHTTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHHH CS
                    HTH_3  2 kelRkqlglsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvslde 54
                             k +R   +++qeeLAeklGvsr+ti +iEn++  Psl  ++ +ak+++ ++++
  PHY93_14205|PHY93_14205  6 KIMRVTEDWTQEELAEKLGVSRQTIIAIENNKYLPSLPLAFNIAKTFKSKIED 58
                             66788899***************************************988776 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.3   0.1   3.1e-12     2e-09       4      57 ..       5      57 ..       3      60 .. 0.88

  Alignments for each domain:
  == domain 1  score: 37.3 bits;  conditional E-value: 3.1e-12
                   HTH_19  4 LkeaReelgltqeelaerlgisrskisaiEngkkdvpsaelllkiaealgidle 57
                             +k +R    +tqeelae+lg+sr  i+aiEn+k+  ps +l   ia++++  +e
  PHY93_14205|PHY93_14205  5 VKIMRVTEDWTQEELAEKLGVSRQTIIAIENNKY-LPSLPLAFNIAKTFKSKIE 57
                             667888889***********************99.***9999999999987666 PP

>> Sigma70_r4  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.5   0.0   1.1e-08   7.1e-06      15      41 ..       8      34 ..       5      36 .. 0.90

  Alignments for each domain:
  == domain 1  score: 25.5 bits;  conditional E-value: 1.1e-08
                             HHHTTT--HHHHHHHHTS-HHHHHHHH CS
               Sigma70_r4 15 lrfgeglTleEIgerlgiSrerVrqie 41
                             +r  e++T+eE++e+lg+Sr ++  ie
  PHY93_14205|PHY93_14205  8 MRVTEDWTQEELAEKLGVSRQTIIAIE 34
                             7889******************97777 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.0   0.0   1.3e-08   8.5e-06       8      51 ..       7      49 ..       3      53 .. 0.87

  Alignments for each domain:
  == domain 1  score: 26.0 bits;  conditional E-value: 1.3e-08
                   HTH_31  8 alReraGLsqeevAerlgvsestlsrlEqGrrgrpspavleala 51
                              +R  + ++qee+Ae lgvs+ t+  +E+ +  +ps+     +a
  PHY93_14205|PHY93_14205  7 IMRVTEDWTQEELAEKLGVSRQTIIAIENNKY-LPSLPLAFNIA 49
                             5788899*************************.9*998776666 PP

>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.5   0.1     3e-08   1.9e-05      11      33 ..       9      31 ..       2      32 .. 0.85

  Alignments for each domain:
  == domain 1  score: 24.5 bits;  conditional E-value: 3e-08
                   HTH_11 11 eargpisgeeLAeeLnvSrrtvr 33
                             + +++++ eeLAe+L+vSr+t+ 
  PHY93_14205|PHY93_14205  9 RVTEDWTQEELAEKLGVSRQTII 31
                             55678****************95 PP

>> HTH_25  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.1   0.0   6.5e-07   0.00042       6      35 ..       9      38 ..       6      51 .. 0.89

  Alignments for each domain:
  == domain 1  score: 20.1 bits;  conditional E-value: 6.5e-07
                             HHTTT--HHHHHHHSS--HHHHHHHHCT-- CS
                   HTH_25  6 RearglsleevaketkIrkdylealEeddf 35
                             R    ++ ee+a+++ ++ +++ a+E++++
  PHY93_14205|PHY93_14205  9 RVTEDWTQEELAEKLGVSRQTIIAIENNKY 38
                             88899**********************965 PP

>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.0   0.0   1.1e-06   0.00068       9      61 ..      12      63 ..       4      64 .] 0.89

  Alignments for each domain:
  == domain 1  score: 20.0 bits;  conditional E-value: 1.1e-06
                   HTH_26  9 rgitkseLargtgisaatlsrlvkgkpervsldtLdkiCdaLgctpgDLleye 61
                              + t+ eLa+++g+s++t+  + ++k   +sl     i+++++ +++D+++y+
  PHY93_14205|PHY93_14205 12 EDWTQEELAEKLGVSRQTIIAIENNK-YLPSLPLAFNIAKTFKSKIEDIFIYK 63
                             57799********************9.588899999**************996 PP

>> HTH_23  Homeodomain-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   1.2e-06    0.0008      13      34 ..      10      30 ..       1      37 [. 0.79

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 1.2e-06
                   HTH_23 13 llaeGlsvreIAreLgvsrrTv 34
                                  ++++e A++Lgvsr+T+
  PHY93_14205|PHY93_14205 10 VTE-DWTQEELAEKLGVSRQTI 30
                             344.6****************9 PP

>> Sigma70_r4_2  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.0   2.1e-06    0.0014      20      43 ..       7      30 ..       4      30 .. 0.95

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 2.1e-06
                             HHHHTS---HHHHHHHHT--HHHH CS
             Sigma70_r4_2 20 llryleglsykEIAellgisegtV 43
                             ++r  e+++++E Ae+lg+s +t+
  PHY93_14205|PHY93_14205  7 IMRVTEDWTQEELAEKLGVSRQTI 30
                             699******************996 PP

>> HTH_Crp_2  Crp-like helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0   1.2e-05    0.0077      19      39 ..      11      31 ..       2      35 .. 0.84

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 1.2e-05
                             EEEHHHHHHHHHTTSSHHHHH CS
                HTH_Crp_2 19 elpltqeelAsmlGltretvs 39
                             + + tqeelA+ lG++r+t+ 
  PHY93_14205|PHY93_14205 11 TEDWTQEELAEKLGVSRQTII 31
                             5578***************86 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0   1.9e-05     0.012      19      34 ..      15      30 ..       6      33 .. 0.91

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.9e-05
                   HTH_24 19 sqreLAerlglSpstv 34
                             +q eLAe+lg+S++t+
  PHY93_14205|PHY93_14205 15 TQEELAEKLGVSRQTI 30
                             89************98 PP

>> HTH_17  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.3   0.0   2.6e-05     0.016       3      20 ..      15      32 ..      14      54 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 2.6e-05
                   HTH_17  3 tveEaAelLgvsrstvyr 20
                             t eE+Ae Lgvsr+t+  
  PHY93_14205|PHY93_14205 15 TQEELAEKLGVSRQTIIA 32
                             679************987 PP

>> HTH_38  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0   3.9e-05     0.025      10      37 ..       2      30 ..       2      31 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 3.9e-05
                   HTH_38 10 ReeIerll.aeGlslreIArrLgrspsTI 37
                             R++  +++  e++++ e A +Lg+s++TI
  PHY93_14205|PHY93_14205  2 RNKVKIMRvTEDWTQEELAEKLGVSRQTI 30
                             667777863699****************9 PP

>> YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.0   3.5e-05     0.023      10      27 ..      15      32 ..       7      49 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 3.5e-05
           YdaS_antitoxin 10 gqkaLAealgvsqqaVsq 27
                             +q +LAe+lgvs+q++  
  PHY93_14205|PHY93_14205 15 TQEELAEKLGVSRQTIIA 32
                             699************965 PP

>> HTH_28  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   6.2e-05      0.04       9      29 ..      10      30 ..       7      30 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 6.2e-05
                   HTH_28  9 laaGhsvreaArelgisrrtv 29
                             + +  ++ e+A++lg+sr+t+
  PHY93_14205|PHY93_14205 10 VTEDWTQEELAEKLGVSRQTI 30
                             556679**************8 PP

>> HTH_AsnC-type  AsnC-type helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   8.7e-05     0.056      20      35 ..      16      31 ..      14      32 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 8.7e-05
            HTH_AsnC-type 20 yaeLAervGlSestvl 35
                              +eLAe++G+S++t++
  PHY93_14205|PHY93_14205 16 QEELAEKLGVSRQTII 31
                             68************86 PP

>> GntR  Bacterial regulatory proteins, gntR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   0.00011     0.072      26      41 ..      15      30 ..       9      32 .. 0.92

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 0.00011
                             -HHHHHHHHTS-HHHH CS
                     GntR 26 sereLaaefgVsrttv 41
                             +++eLa+++gVsr+t+
  PHY93_14205|PHY93_14205 15 TQEELAEKLGVSRQTI 30
                             579************8 PP

>> HTH_10  HTH DNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   0.00015     0.093      25      40 ..      15      30 ..      12      33 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 0.00015
                   HTH_10 25 tlkeLAkelGIskstl 40
                             t +eLA++lG+s++t+
  PHY93_14205|PHY93_14205 15 TQEELAEKLGVSRQTI 30
                             679***********97 PP

>> HTH_Tnp_1_2  Helix-turn-helix of insertion element transposase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   0.00013     0.086      17      44 ..       7      31 ..       2      40 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 0.00013
                             HHHHHHHH--S-HHHHHHHHTS-HHHHH CS
              HTH_Tnp_1_2 17 ellvendyekltldeiaeevgvsrsTly 44
                              + v++d+   t++e+ae++gvsr+T+ 
  PHY93_14205|PHY93_14205  7 IMRVTEDW---TQEELAEKLGVSRQTII 31
                             45688899...***************85 PP

>> HTH_8  Bacterial regulatory protein, Fis family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   0.00018      0.11      18      35 ..      13      30 ..       8      31 .. 0.91

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00018
                             TT-HHHHHHHHTS-HHHH CS
                    HTH_8 18 gGnkskAArlLGisRrtL 35
                             ++ + + A+ LG+sR+t+
  PHY93_14205|PHY93_14205 13 DWTQEELAEKLGVSRQTI 30
                             69999***********96 PP

>> Importin_rep_6  Importin repeat 6
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   0.00013     0.086      63     103 ..      12      52 ..       5      57 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 0.00013
           Importin_rep_6  63 ddytdedlldeinkslaailkakkseylpalqtllplissy 103
                              +d+t e+l +++  s  +i+  ++++ylp l   +++ +++
  PHY93_14205|PHY93_14205  12 EDWTQEELAEKLGVSRQTIIAIENNKYLPSLPLAFNIAKTF 52 
                              89****************************99888888776 PP

>> KORA  TrfB plasmid transcriptional repressor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.1   0.00017      0.11      30      54 ..      12      36 ..       3      39 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 0.00017
                     KORA 30 egkkqadvatelgltkqavsqavkr 54
                             e+ +q+++a++lg+++q +  ++++
  PHY93_14205|PHY93_14205 12 EDWTQEELAEKLGVSRQTIIAIENN 36
                             7889***************998876 PP

>> Phage_CI_repr  Bacteriophage CI repressor helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   0.00016       0.1      13      30 ..      14      31 ..       5      61 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 0.00016
                             SSCHHHHCCTT--HHHHH CS
            Phage_CI_repr 13 kmqkeLAdlLgiakssvs 30
                              +q+eLA+ Lg++++++ 
  PHY93_14205|PHY93_14205 14 WTQEELAEKLGVSRQTII 31
                             5799************85 PP

>> DUF1323  Putative transcription regulator (DUF1323)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   0.00025      0.16       2      17 ..      15      30 ..      14      38 .. 0.92

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.00025
                  DUF1323  2 tpeelaellGyarqti 17
                             t eelae lG++rqti
  PHY93_14205|PHY93_14205 15 TQEELAEKLGVSRQTI 30
                             89*************9 PP

>> CENP-B_N  CENP-B N-terminal DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.2   0.00043      0.27      12      46 ..       4      37 ..       1      38 [. 0.77
   2 ?   -0.3   0.1       1.3   8.2e+02       8      14 ..      51      57 ..      46      63 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00043
                             HHHHHHHHHCTT-HHHHHHHHT--CCHHHHHHHCH CS
                 CENP-B_N 12 KievIqrleegeSkaelarrfnvpestlsdilknK 46
                             K+++ +  e+    +ela +++v ++t+  i +nK
  PHY93_14205|PHY93_14205  4 KVKIMRVTED-WTQEELAEKLGVSRQTIIAIENNK 37
                             5555544444.4689******************99 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 1.3
                             -HHHHHH CS
                 CENP-B_N  8 TlreKie 14
                             T++ Kie
  PHY93_14205|PHY93_14205 51 TFKSKIE 57
                             7888887 PP

>> HTH_29  Winged helix-turn helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00031       0.2       9      29 ..      11      30 ..       4      33 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00031
                   HTH_29  9 aeGvstvsqiAkllglsrrtv 29
                              e + t  ++A+ lg+sr+t+
  PHY93_14205|PHY93_14205 11 TEDW-TQEELAEKLGVSRQTI 30
                             5667.99*************9 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0    0.0003      0.19      22      38 ..      14      30 ..       5      33 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.0003
                             EEHHHHHHHHTSSHHHH CS
                   MarR_2 22 ltvgelarrlglsksav 38
                              t+ ela++lg+s++++
  PHY93_14205|PHY93_14205 14 WTQEELAEKLGVSRQTI 30
                             499************97 PP

>> MerR  MerR family regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   0.00037      0.23       4      18 ..      18      32 ..      17      43 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00037
                             HHHHHHTTTHHHHHH CS
                     MerR  4 evAeltGvsprtLRy 18
                             e+Ae++Gvs +t+  
  PHY93_14205|PHY93_14205 18 ELAEKLGVSRQTIIA 32
                             9***********976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (64 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       772  (0.0430587); expected 358.6 (0.02)
Passed bias filter:                      582  (0.0324614); expected 358.6 (0.02)
Passed Vit filter:                        97  (0.00541023); expected 17.9 (0.001)
Passed Fwd filter:                        28  (0.00156172); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              28  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 439.05
//
Query:       PHY93_14210|PHY93_14210  [L=133]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.7e-05   23.2   0.0     0.0001   22.6   0.0    1.3  1  HEAT_2    HEAT repeats
     0.0007   20.0   0.0     0.0037   17.8   0.0    2.1  2  HEAT_PBS  PBS lyase HEAT-like repeat
  ------ inclusion threshold ------
       0.12   12.7   0.0       0.13   12.5   0.0    1.1  1  Shisa     Wnt and FGF inhibitory regulator
       0.14   12.7   0.0       0.25   11.9   0.0    1.4  1  HEAT_EZ   HEAT-like repeat


Domain annotation for each model (and alignments):
>> HEAT_2  HEAT repeats
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.6   0.0   2.2e-08    0.0001      32      74 ..      52      96 ..      34     101 .. 0.85

  Alignments for each domain:
  == domain 1  score: 22.6 bits;  conditional E-value: 2.2e-08
                   HEAT_2 32 alpaLvelleded..pavRraaaeaLgaigdpealpaLkellddd 74
                             + +aL  llede+   + R   ++aLg++gd++alp+L+++++ +
  PHY93_14210|PHY93_14210 52 STEALMTLLEDESqsFRSRNSTVWALGQLGDSQALPILEKYYTGE 96
                             5799*****997744789999******************998765 PP

>> HEAT_PBS  PBS lyase HEAT-like repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.0      0.93   4.2e+03      19      27 .]      54      62 ..      50      62 .. 0.71
   2 !   17.8   0.0   8.3e-07    0.0037       4      23 ..      72      91 ..      69      93 .. 0.87

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.93
                             HHHHHHCTC CS
                 HEAT_PBS 19 paLleaLqd 27
                             +aL+ +L+d
  PHY93_14210|PHY93_14210 54 EALMTLLED 62
                             678888776 PP

  == domain 2  score: 17.8 bits;  conditional E-value: 8.3e-07
                             HHHHHHHHCTSGGGHHHHHH CS
                 HEAT_PBS  4 aAakaLgqlgdeeaipaLle 23
                             + ++aLgqlgd +a+p+L +
  PHY93_14210|PHY93_14210 72 STVWALGQLGDSQALPILEK 91
                             569**************976 PP

>> Shisa  Wnt and FGF inhibitory regulator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0     3e-05      0.13      77     128 ..       6      55 ..       1      79 [. 0.72

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 3e-05
                    Shisa  77 evpkdiyvpvlivktifivfvivgvvvivcccgclkkkqrekrpgrenlssa 128
                              +++k i+++++i+ +if +f   +++++ + +++ +k q++k+    +   a
  PHY93_14210|PHY93_14210   6 KFKKYIGMTIAIGISIFALF--FVITCVWIGVSVKTKVQEAKADYGGSSTEA 55 
                              3555599***********99..55689999999999*999999443333333 PP

>> HEAT_EZ  HEAT-like repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   5.5e-05      0.25      32      55 .]      55      80 ..      48      80 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 5.5e-05
                  HEAT_EZ 32 aLlalLnddsd..eVRaaAagaLgnl 55
                             aL+ lL+d+s+  + R  +++aLg+l
  PHY93_14210|PHY93_14210 55 ALMTLLEDESQsfRSRNSTVWALGQL 80
                             799999999997777*********97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (133 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       715  (0.0398795); expected 358.6 (0.02)
Passed bias filter:                      544  (0.0303419); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.44
# Mc/sec: 906.67
//
Query:       PHY93_14215|PHY93_14215  [L=112]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.3e-07   29.0   2.2    1.1e-06   28.6   2.2    1.2  1  MtN3_slv  Sugar efflux transporter for intercellular exchange
  ------ inclusion threshold ------
      0.011   15.5   0.5       0.02   14.6   0.5    1.5  1  PQ-loop   PQ loop repeat


Domain annotation for each model (and alignments):
>> MtN3_slv  Sugar efflux transporter for intercellular exchange
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.6   2.2   1.2e-10   1.1e-06      10      74 ..      38     105 ..      36     112 .] 0.85

  Alignments for each domain:
  == domain 1  score: 28.6 bits;  conditional E-value: 1.2e-10
                 MtN3_slv  10 ftvavFlsPlsilr...kiikkksveelsfllflagllsallWllYGllkkdaliiivNlvgvlleli 74 
                              ++v+ F++Pl+ l    ki   k+  ++s +  ++ ++ a++Wl YG+l kd  ii++ ++ +++e+ 
  PHY93_14215|PHY93_14215  38 ISVIAFVAPLANLPqlfKIFSEKDALGVSAISWVFFFIIAAIWLGYGILHKDRNIITMYSLLMVTEAS 105
                              8999999998765511178889*******************************999999999988875 PP

>> PQ-loop  PQ loop repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.5   2.3e-06      0.02       9      56 ..      41      88 ..      36      93 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 2.3e-06
                  PQ-loop  9 slvlwlvsyiPQiikNykrkSteGlSilflllwllGdilsllylilng 56
                             ++++  ++ +PQ+ k++  k + G+S  + ++ ++   ++l y il +
  PHY93_14215|PHY93_14215 41 IAFVAPLANLPQLFKIFSEKDALGVSAISWVFFFIIAAIWLGYGILHK 88
                             555556788*****************9988888888888888777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (112 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       649  (0.0361983); expected 358.6 (0.02)
Passed bias filter:                      317  (0.0176809); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.25s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 751.33
//
Query:       PHY93_14220|PHY93_14220  [L=326]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.3e-54  183.4  38.8    2.2e-27   95.9  16.0    2.0  2  Na_Ca_ex  Sodium/calcium exchanger protein


Domain annotation for each model (and alignments):
>> Na_Ca_ex  Sodium/calcium exchanger protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   95.9  16.0   1.2e-31   2.2e-27       3     150 ..       6     146 ..       4     147 .. 0.93
   2 !   93.9  14.8   4.9e-31   8.7e-27       4     147 ..     187     322 ..     184     326 .] 0.95

  Alignments for each domain:
  == domain 1  score: 95.9 bits;  conditional E-value: 1.2e-31
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHTHHHHHHH CS
                 Na_Ca_ex   3 fvlfilslllisvladflvssaeeiakslgisgsvlGltllAlgnslpElissiiaaltgevdlaignvlGsnifnlllviGlial 88 
                              +++fi+sl++++ +ad+l  +ae+i+ s+g+s+ ++G++++  g+s+pEliss +a+ +g +++ i+n++Gsni+n+ll++G++a+
  PHY93_14220|PHY93_14220   6 IIIFIVSLAALVKGADWLLVNAEKIGLSFGLSPFLIGVVIVGVGTSFPELISSSVAVFRGVTEVPIANAVGSNIANILLIVGISAV 91 
                              799*********************************************************************************** PP

                              HHH.BTTSSCECCHHHHHHHHHHHHHHHHHHHTCHHHHHHTEEHHHHHHHHHHHHHHHHHHHH CS
                 Na_Ca_ex  89 igs.lkvdseslkldlgllllvallllllvlllllplfvpgrltvleglvllllYalylvlsl 150
                              i+  l+v ++ ++ldl+ll++ ++lll++++         +++t+ e+++l+++Y++yl++ +
  PHY93_14220|PHY93_14220  92 IARkLVVTKNLIDLDLPLLSIGTVLLLGTIM--D------RQVTRGEAILLVVAYLIYLLHTI 146
                              *99889999999****998888888876322..3......*******************9987 PP

  == domain 2  score: 93.9 bits;  conditional E-value: 4.9e-31
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHTHHHHHHHH CS
                 Na_Ca_ex   4 vlfilslllisvladflvssaeeiakslgisgsvlGltllAlgnslpElissiiaaltgevdlaignvlGsnifnlllviGliali 89 
                              +++il++++++++a++l++++ +++++l+i   v+ +t +A+g+slpEl++s+ aa++ + d+a+gn++Gsn+fn l+v+G+++l+
  PHY93_14220|PHY93_14220 187 FFLILGIACLVIGAKYLIEAMINLSTILNIATGVITITAVAFGTSLPELMVSVKAAWQRKSDVALGNIFGSNVFNALVVVGFPGLF 272
                              689*********************************************************************************** PP

                              HHBTTSSCECCHHHHHHHHHHHHHHHHHHHTCHHHHHHTEEHHHHHHHHHHHHHHHHH CS
                 Na_Ca_ex  90 gslkvdseslkldlgllllvallllllvlllllplfvpgrltvleglvllllYalylv 147
                              ++l+vd++++ + ++++ l++l+++++ +         +++ ++egl+ l++Yal++v
  PHY93_14220|PHY93_14220 273 KTLTVDEKTFLIGVPAMALATLIFVISGIS--------RKIHIWEGLLYLVMYALFIV 322
                              ****************99999999665555........9*****************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (326 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       934  (0.0520944); expected 358.6 (0.02)
Passed bias filter:                      396  (0.0220871); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.60u 0.25s 00:00:00.85 Elapsed: 00:00:00.45
# Mc/sec: 2163.33
//
Query:       PHY93_14225|PHY93_14225  [L=261]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.5e-20   74.2   1.3    2.5e-19   70.3   1.3    2.1  1  Patatin   Patatin-like phospholipase


Domain annotation for each model (and alignments):
>> Patatin  Patatin-like phospholipase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.3   1.3   1.4e-23   2.5e-19       1     201 [.       7     165 ..       7     167 .. 0.95

  Alignments for each domain:
  == domain 1  score: 70.3 bits;  conditional E-value: 1.4e-23
                  Patatin   1 LvlsGGGsrgafslgalkaLkkelgerfdiisGtSaGAiialllalgrdpaalvddlrnlllnkifdrdllirelaanlaarlsgl 86 
                              L+l+ GG rg++++g++k+L  e  + +d isG+S+G+ii+ l+a+ +d ++ +    +l  +ki++                ++ 
  PHY93_14225|PHY93_14225   7 LALGSGGWRGLLHIGVIKYL-VENKIPIDFISGSSIGSIIGGLYAATGDIKKVERIANDLNFKKIIRHS--------------FQI 77 
                              899*****************.*******************************99999999999999999..............777 PP

                  Patatin  87 lgkgglfdaealrellrkvladktlkrlsarlgklpllkslftanqavpaittataatastanranglytedddddvdladavraS 172
                              +++++    + ++++++k+++d  +++l+++ +++                           + + +   +    +++l++a++aS
  PHY93_14225|PHY93_14225  78 NTPKRPVFSTKFKTFFKKIVGDINIEDLKIPYSAI---------------------------TCDLSIGEAIAIKKGNLVSAMLAS 136
                              77777777899************************...........................679999999999************ PP

                  Patatin 173 safPglfppvsldgelyvDGGilsNvPil 201
                              sa+P++f p  l g+++ DGG+ + vP+ 
  PHY93_14225|PHY93_14225 137 SAIPLVFGPINLHGKYFFDGGMINPVPVN 165
                              ***********************999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (261 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       492  (0.0274416); expected 358.6 (0.02)
Passed bias filter:                      385  (0.0214736); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.47
# Mc/sec: 1684.61
//
Query:       PHY93_14230|PHY93_14230  [L=242]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.5e-49  168.8   0.0    1.7e-49  168.6   0.0    1.0  1  NTP_transferase  Nucleotidyl transferase
      9e-14   52.1   0.0    1.1e-13   51.8   0.0    1.1  1  NTP_transf_3     MobA-like NTP transferase domain
    0.00046   20.2   0.0    0.00089   19.2   0.0    1.4  2  CTP_transf_3     Cytidylyltransferase


Domain annotation for each model (and alignments):
>> NTP_transferase  Nucleotidyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  168.6   0.0   2.9e-53   1.7e-49       1     243 [.       2     233 ..       2     238 .. 0.93

  Alignments for each domain:
  == domain 1  score: 168.6 bits;  conditional E-value: 2.9e-53
                              EEEEE--S--GGGTTCCTTSSGGGSEETTETETTHHHHHHHHHTT-SEEEEEEETTTHHHHHHHHTTSGGGT.SEEEEEEESS--. CS
          NTP_transferase   1 kavILaGGsGtRLwPLtrtlakklvpvlgkerliqatlsrlansgieeiivvltqehsflveeqlkegskfg.vevlialepegk. 84 
                              k+vILaGG GtRL PLt  + k l+p+++k ++i +++++l+++g++e+++v++  h   + + lk+g++fg  ++++a++++++ 
  PHY93_14230|PHY93_14230   2 KGVILAGGLGTRLNPLTLVTNKHLLPIYNK-PMIFYPIETLVKAGVTEVMIVTSGPHVGHFLSILKNGKEFGlKHLEYAYQEKPDg 86 
                              79****************************.*****************************************44589******999 PP

                              BGGHHHHHTHHHHTTSSE..EEEEETTEEEESTTHHHHHHHHHTHSSTTSEEEEEEESS-CTTSEEEEEC..TTSBEEEEECS-SS CS
          NTP_transferase  85 gtAdAvalaaelledeksdelvlvLggDhlikdayeeavkkaiekaakgtvtfgivpveeateyGviead..eegrverfvEKPke 168
                              g+AdA+ +a+++++d+    l++vL gD  ++ ++++avk++++ +      +++ +v ++++yGv+e d  ++ ++ ++ EKPk+
  PHY93_14230|PHY93_14230  87 GIADALSIARDFADDQP---LAVVL-GDNTTDADISDAVKNFKSGGH-----VFLRQVPDPQRYGVAELDkkDKSKIVQILEKPKN 163
                              **************999...45555.5667788*********99999.....999***************66566*********** PP

                              HSHCSEECCSEEEEETTHHHHHHHCCHHHTTSSCHHHHHHHHHHHTTEEEEEECSTTEE-EEEXSSHHHHHHHHH CS
          NTP_transferase 169 akaselassGiYvfnsevllflakdleelkrgedeitdilpkaleegkvalaflfkdaeyWsDvGtldslleane 243
                              ++ ++la++G+Y+++++v+ f+ + +e+++rge eitd+++ ++++g+   +    +  yW D Gt++ l++a +
  PHY93_14230|PHY93_14230 164 PP-TNLAVTGLYLYDNKVFGFI-DAIEPSNRGELEITDVNNMYIKRGELTWS-ELGG--YWTDAGTFETLFRAGK 233
                              **.*******************.78**********************99987.5555..9**********99865 PP

>> NTP_transf_3  MobA-like NTP transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.8   0.0   1.9e-17   1.1e-13       1      96 [.       3     111 ..       3     143 .. 0.81

  Alignments for each domain:
  == domain 1  score: 51.8 bits;  conditional E-value: 1.9e-17
                              EEEEEESS-TTTT..T...THHHHCCCCCCHHHHHHHHHCTT.-CEEEEECSHCHHHH......HHTTCT...S-EEE-TTSS-SH CS
             NTP_transf_3   1 aviLAGGrSsRmg..g...dKallplggkpllervldalraagvdevvvvggdeevla......alarlg...vrvvededpgkgp 72 
                              +viLAGG ++R++  +   +K llp+ +kp++ + +++l +agv ev++v+  ++v +        +++g   ++++++e+p+ g+
  PHY93_14230|PHY93_14230   3 GVILAGGLGTRLNplTlvtNKHLLPIYNKPMIFYPIETLVKAGVTEVMIVTSGPHVGHflsilkNGKEFGlkhLEYAYQEKPDGGI 88 
                              79**********9651556********************************99977773333332244443338899999999*** PP

                              HHHHHHHHHHH.SSSCEEEEETT- CS
             NTP_transf_3  73 laslaaalraaadadavlvlacDm 96 
                              + +l  a + a d+++++v+++D 
  PHY93_14230|PHY93_14230  89 ADALSIARDFA-DDQPLAVVLGDN 111
                              **999999998.9**********7 PP

>> CTP_transf_3  Cytidylyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.2   0.0   1.5e-07   0.00089      14      48 ..      21      54 ..      18      62 .. 0.85
   2 ?   -3.9   0.0       1.7     1e+04      47      62 ..     112     128 ..     111     134 .. 0.67

  Alignments for each domain:
  == domain 1  score: 19.2 bits;  conditional E-value: 1.5e-07
                             TTGGGSEETTEEHHHHHHHHHHHTTTTSEEEEEES CS
             CTP_transf_3 14 pgKnlldlggkpliayvleaalkskafekvivaTD 48
                              +K ll++ +kp+i+y++e ++k+++ ++v++ T+
  PHY93_14230|PHY93_14230 21 TNKHLLPIYNKPMIFYPIETLVKAGV-TEVMIVTS 54
                             69*********************999.56666554 PP

  == domain 2  score: -3.9 bits;  conditional E-value: 1.7
                              ES-HHHHHHHHHTT.SE CS
             CTP_transf_3  47 TDseeiknvakefg.as 62 
                              T++ +i +++k+f  ++
  PHY93_14230|PHY93_14230 112 TTDADISDAVKNFKsGG 128
                              77888999999988533 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (242 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       372  (0.0207485); expected 358.6 (0.02)
Passed bias filter:                      357  (0.0199119); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.22s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 1626.55
//
Query:       PHY93_14235|PHY93_14235  [L=213]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (213 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       407  (0.0227007); expected 358.6 (0.02)
Passed bias filter:                      332  (0.0185175); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.42
# Mc/sec: 1512.64
//
Query:       PHY93_14240|PHY93_14240  [L=332]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (332 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       751  (0.0418874); expected 358.6 (0.02)
Passed bias filter:                      226  (0.0126053); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.56u 0.22s 00:00:00.78 Elapsed: 00:00:00.43
# Mc/sec: 2317.12
//
Query:       PHY93_14245|PHY93_14245  [L=164]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      6e-29  101.4   0.0    7.2e-29  101.1   0.0    1.0  1  Oxidored_FMN  NADH:flavin oxidoreductase / NADH oxidase famil


Domain annotation for each model (and alignments):
>> Oxidored_FMN  NADH:flavin oxidoreductase / NADH oxidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  101.1   0.0     4e-33   7.2e-29     192     341 ..       6     147 ..       4     148 .. 0.91

  Alignments for each domain:
  == domain 1  score: 101.1 bits;  conditional E-value: 4e-33
                              STTSSSHHHHHHHHHHHHHHHHHHH-SSSEEEEEECE--STTS--HHHHHHHHHHHCHCCEEEEEEETT-SSSSSTTS-TTTTHHH CS
             Oxidored_FMN 192 DeygGslenRarFllevvdaVkeavgeervgyRlSpedvvekgldfaetaqkivllkelekrlkdgkklalvhaaeprkrgagsvr 277
                              D++gGs+enR+rF+lev +a  +a+g++r+g+RlSp++ ++ +   a++     +l e    +++   +a+vh++     ga +v 
  PHY93_14245|PHY93_14245   6 DQWGGSVENRIRFPLEVAKACIKAIGADRIGMRLSPYGAFNGMVPDADM----NVLYEKLTTELNKLGIAYVHIVDHSSMGAPPVS 87 
                              9*******************************************99999....455555555555777********9999*99999 PP

                              CCTTHHHHHHCCCHSSEEEE-SS--SHHHHHHHHHTTS-SEEEESTHHHH-TTHHHHHHCCTCG CS
             Oxidored_FMN 278 teqekntefvkevwkkplitvgriadeekaaeivaegeadLvamgRefladpdlveklkkglpl 341
                               e     + ++++ k+  i  g+++ +  a+  +a ++ dLva+gR+f+++pdlveklk g pl
  PHY93_14245|PHY93_14245  88 PE---LKDSIRKIFKGTYILSGGYDLNR-ANADLAANKGDLVAFGRPFISNPDLVEKLKTGTPL 147
                              99...7799*******************.88888999**********************99875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (164 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       305  (0.0170115); expected 358.6 (0.02)
Passed bias filter:                      304  (0.0169558); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.43
# Mc/sec: 1133.12
//
Query:       PHY93_14250|PHY93_14250  [L=376]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.3e-26   92.4   0.0    5.5e-26   91.2   0.0    1.7  1  AAA_14    AAA domain
    3.4e-16   59.5   0.0    1.5e-14   54.2   0.0    2.4  1  DUF4143   Domain of unknown function (DUF4143)
     0.0027   18.0   0.1        0.6   10.4   0.0    2.5  2  AAA_22    AAA domain
     0.0064   17.0   0.1      0.025   15.1   0.0    2.0  2  AAA_18    AAA domain
  ------ inclusion threshold ------
      0.011   15.7   0.0      0.022   14.7   0.0    1.5  1  HSDR_N    Type I restriction enzyme R protein N terminus (HSD
      0.015   15.8   0.0       0.14   12.6   0.0    2.2  1  AAA       ATPase family associated with various cellular acti
       0.02   14.9   0.0      0.045   13.7   0.0    1.6  1  ResIII    Type III restriction enzyme, res subunit
      0.026   14.5   0.4        8.9    6.2   0.0    2.8  3  NTPase_1  NTPase
      0.031   14.3   0.3       0.36   10.8   0.0    2.5  3  HSDR_N_2  Type I restriction enzyme R protein N terminus (HSD
      0.053   13.9   0.0       0.13   12.6   0.0    1.5  1  AAA_16    AAA ATPase domain
      0.087   12.6   0.0       0.36   10.6   0.0    1.9  1  RuvB_N    Holliday junction DNA helicase RuvB P-loop domain


Domain annotation for each model (and alignments):
>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   91.2   0.0   3.3e-29   5.5e-26       2     130 ..      15     127 ..      14     128 .. 0.89

  Alignments for each domain:
  == domain 1  score: 91.2 bits;  conditional E-value: 3.3e-29
                   AAA_14   2 rkilvitGaRrvGKTtllkqlikellvkkesilyinldderdkkladpekllelileklkeekktylflDEiqevpewekalkslv 87 
                              +kil+++G+R+vGKTtl k l++++        y+n+d+ +dkk+       e++ +     +  ++++DEi+++++w+++lk+++
  PHY93_14250|PHY93_14250  15 KKILLLSGPRQVGKTTLSKVLFEHYD-------YFNFDRLSDKKKLLA----EEWNR-----DADLIIFDEIHKMKKWKQWLKGIY 84 
                              699***************99997766.......******999764432....44444.....4679******************** PP

                   AAA_14  88 degknldvivtGSnskllskeiatslagrvaeielyplsfaEf 130
                              d++++ +++vtGS+ ++  +++ +s+agr+ +++l+pl ++E+
  PHY93_14250|PHY93_14250  85 DTESKKNFLVTGSARLDTHRKVGDSMAGRYFQYRLMPLCLKEL 127
                              *99899*********************************9996 PP

>> DUF4143  Domain of unknown function (DUF4143)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.2   0.0   9.2e-18   1.5e-14       2     122 .]     174     322 ..     169     322 .. 0.89

  Alignments for each domain:
  == domain 1  score: 54.2 bits;  conditional E-value: 9.2e-18
                              xxxxxxxxxxxxxxxxx.......................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                  DUF4143   2 rDirklagvrdpeelrk.......................................glverlppwsespnskkrlrkspKlyfvDt 48 
                              +Di++++ v+++++l+                                        +l++++ p+  s+n  +  +k+pK+yf+D 
  PHY93_14250|PHY93_14250 174 QDIAEIEIVKRISDLEFlielmktkvgsilsynslredlmtddktikrwltifensYLLFKITPF--SKNIIHSTKKAPKYYFYDF 257
                              677788878777777778888888999999999999999999999999999**************..******************4 PP

                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                  DUF4143  49 GLlvallgldkeelledsenkGallEnlVaqeLlky......sekegaklyyyrdkngaEvDfvielkggkivpiEvKss 122
                                         +  +   e+ Ga lEnlVa  Llk+      +e e+++l++ rdk+++EvDf+i+++++ i+++EvK s
  PHY93_14250|PHY93_14250 258 ---------P-R--I---EDNGARLENLVALSLLKEiyflndTEGEDYSLHFLRDKDQNEVDFLIAKNKKPIIALEVKTS 322
                              .........2.2..1...346********************98888********************************75 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.4   0.0   0.00037       0.6       4      30 ..      14      40 ..      10      52 .. 0.90
   2 ?    5.2   0.0     0.015        25      82     118 ..      54      86 ..      44     102 .. 0.69

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00037
                   AAA_22  4 tagilvvtGesGtGKTtllrrlleqld 30
                             +++il++ G+  +GKTtl + l+e +d
  PHY93_14250|PHY93_14250 14 GKKILLLSGPRQVGKTTLSKVLFEHYD 40
                             689*****************9999875 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.015
                   AAA_22  82 leqalraravielliiDEaqhlrseealeeLrsllnl 118
                              l++ +++ a+  l+i DE++++  ++  ++L+ +++ 
  PHY93_14250|PHY93_14250  54 LAEEWNRDAD--LIIFDEIHKM--KKWKQWLKGIYDT 86 
                              5556666666..**********..7777777777773 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0   1.5e-05     0.025       2      78 ..      19      93 ..      18     107 .. 0.64
   2 ?   -1.7   0.0       2.4   3.9e+03      20      20 ..     187     187 ..     125     241 .. 0.61

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.5e-05
                   AAA_18  2 lltGtpGvGKttlakeLskrlgf.gvnlrdvakenglllevdpe.....aldeskrldedkldklldaleenssaleegknlv 78
                             ll+G+  vGKttl+k L ++  +  +n   +  ++ ll e+++       +de ++++++k     + l+++++  e+ kn +
  PHY93_14250|PHY93_14250 19 LLSGPRQVGKTTLSKVLFEH--YdYFNFDRLSDKKKLLAEEWNRdadliIFDEIHKMKKWK-----QWLKGIYD-TESKKNFL 93
                             689**************999..555555555555555555555523244555555555554.....66666554.44455555 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 2.4
                   AAA_18  20 k 20 
                              +
  PHY93_14250|PHY93_14250 187 D 187
                              1 PP

>> HSDR_N  Type I restriction enzyme R protein N terminus (HSDR_N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.0   1.3e-05     0.022     118     153 ..     297     333 ..     240     347 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1.3e-05
                              SSS---EEEEEEETTEEEEEEEE--TT.-HHHHHHHH CS
                   HSDR_N 118 gnqkrrpDivlfvnglplvviElKrpg.tieeAinQi 153
                              +++++ +D+++  n +p++ +E+K +  +i  +++ +
  PHY93_14250|PHY93_14250 297 DKDQNEVDFLIAKNKKPIIALEVKTSDvEISSGFKKL 333
                              7899*********************945999988875 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   8.5e-05      0.14       1      70 [.      18      73 ..      18     102 .. 0.68

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 8.5e-05
                             EEEESSTTSSHHHHHHHHHHHHTHEEEEEETTTCSSSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGH CS
                      AAA  1 vllyGppGtGKTllakavakelgvefleisgsellskyvgesekkirelfkeakekakpsilfiDEidal 70
                             +ll+Gp  +GKT+l k + ++ +  +++++  +         +k ++e +    + a    +++DEi+++
  PHY93_14250|PHY93_14250 18 LLLSGPRQVGKTTLSKVLFEHYD--YFNFDRLSDK-------KKLLAEEW---NRDA--DLIIFDEIHKM 73
                             69******************964..3444333222.......33333333...3344..67777777776 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   2.8e-05     0.045      97     155 ..      25      85 ..       2      99 .. 0.66

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 2.8e-05
                              .......-SEEEEEHHHHHHTH.........HHHTTT-SEEEEETGGGTTS.TTTHH.HHH CS
                   ResIII  97 kekdstnkkilvttiqsldadseee.eeeseellrdrfdviiiDEaHrlgakkswre.ile 155
                              + +++t +k+l++ ++ ++ d+ ++ ++   e  +   d+ii+DE H++++ k+w + i +
  PHY93_14250|PHY93_14250  25 QVGKTTLSKVLFEHYDYFNFDRLSDkKKLLAEEWNRDADLIIFDEIHKMKKWKQWLKgIYD 85 
                              445788899999999999999844444444555555566**********997777665633 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.5   0.0    0.0089        15       3      20 ..      19      36 ..      17      45 .. 0.83
   2 ?    6.2   0.0    0.0055       8.9      91     115 ..      57      80 ..      40     109 .. 0.67
   3 ?   -2.1   0.0       1.9   3.1e+03      96     123 ..     177     204 ..     157     237 .. 0.67

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.0089
                             EEE--TTSSHHHHHHHHH CS
                 NTPase_1  3 fiTGppGvGKtTlvkkvl 20
                             +++Gp +vGKtTl k + 
  PHY93_14250|PHY93_14250 19 LLSGPRQVGKTTLSKVLF 36
                             799*********987665 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.0055
                              HHHHHH-EEEE---STTGGG-HHHH CS
                 NTPase_1  91 kalseadviviDEiGkmElkskkfk 115
                              + +++ad+i+ DEi km    k++ 
  PHY93_14250|PHY93_14250  57 EWNRDADLIIFDEIHKMKK-WKQWL 80 
                              34589*********99943.33333 PP

  == domain 3  score: -2.1 bits;  conditional E-value: 1.9
                              H-EEEE---STTGGG-HHHHHHHHHHHT CS
                 NTPase_1  96 adviviDEiGkmElkskkfkeaveevLk 123
                              a++ ++  i  +E+ ++ +k++v  +L+
  PHY93_14250|PHY93_14250 177 AEIEIVKRISDLEFLIELMKTKVGSILS 204
                              3344444555555555555555555555 PP

>> HSDR_N_2  Type I restriction enzyme R protein N terminus (HSDR_N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.0      0.58   9.4e+02      11      47 ..      33      70 ..      28      76 .. 0.80
   2 ?   -1.9   0.0         2   3.3e+03      19      53 ..     148     182 ..     138     208 .. 0.57
   3 ?   10.8   0.0   0.00022      0.36      27      65 ..     289     328 ..     271     341 .. 0.79

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.58
                 HSDR_N_2 11 kyLveelgy.pkeliavekelqlgskkkraDivvykkd 47
                             k L e+++y + ++++  k+l  ++ ++ aD++++++ 
  PHY93_14250|PHY93_14250 33 KVLFEHYDYfNFDRLSDKKKLLAEEWNRDADLIIFDEI 70
                             67888999834588999999999999999****99875 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 2
                 HSDR_N_2  19 ypkeliavekelqlgskkkraDivvykkdkkplli 53 
                              +p+  +  +++   + +k+  Di+v ++  ++ ++
  PHY93_14250|PHY93_14250 148 FPEPFFTHSESFYKKWRKSHLDIIVRQDIAEIEIV 182
                              55555555555555666777788887766554444 PP

  == domain 3  score: 10.8 bits;  conditional E-value: 0.00022
                 HSDR_N_2  27 ekelqlg..skkkraDivvykkdkkpllivecKapsvkise 65 
                              +++l++   + ++ +D+++ k++ kp++++e+K+++v+is+
  PHY93_14250|PHY93_14250 289 DYSLHFLrdKDQNEVDFLIAKNK-KPIIALEVKTSDVEISS 328
                              56666443477888*******98.**************975 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   8.1e-05      0.13      25      48 ..      16      39 ..       4      65 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 8.1e-05
                   AAA_16 25 elvllsGesGvGKsslvrellral 48
                              ++llsG++ vGK++l + l++++
  PHY93_14250|PHY93_14250 16 KILLLSGPRQVGKTTLSKVLFEHY 39
                             79****************999876 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   0.00022      0.36      36      98 ..      18      75 ..       9      84 .. 0.72

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00022
                   RuvB_N 36 vllyGpPGlGkttlakiiakelgvklkitsgPvlekagdlaalltnleekdvlfideihrlsr 98
                             +ll+Gp  +Gkttl+k++ +  +          l+ ++ l a   n ++ d++  deih++++
  PHY93_14250|PHY93_14250 18 LLLSGPRQVGKTTLSKVLFEHYDYF----NFDRLSDKKKLLAEEWN-RDADLIIFDEIHKMKK 75
                             689**************98877642....22334444444443333.5678888899999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (376 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       625  (0.0348597); expected 358.6 (0.02)
Passed bias filter:                      362  (0.0201908); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.64u 0.27s 00:00:00.91 Elapsed: 00:00:00.48
# Mc/sec: 2336.16
//
Query:       PHY93_06020|PHY93_06020  [L=250]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.1e-19   68.3  31.4    6.1e-19   68.3  31.4    1.6  2  ABC2_membrane    ABC-2 type transporter


Domain annotation for each model (and alignments):
>> ABC2_membrane  ABC-2 type transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.3  31.4   3.4e-23   6.1e-19       3     205 ..       8     207 ..       6     211 .. 0.84
   2 ?   -1.3   0.2      0.07   1.2e+03     170     190 ..     229     249 ..     218     250 .] 0.71

  Alignments for each domain:
  == domain 1  score: 68.3 bits;  conditional E-value: 3.4e-23
            ABC2_membrane   3 ikallkreflqrwrdpslgllwrliqplllalvfgtvfgnlgnsedglnr.pgllffsvlflafsaltsvapvferergvlerelv 87 
                              i++l+  ++++r+r++++g+lw +i+p+l++ v  ++f  +  + ++ln+   ll +++ +l+++   ++ ++ ++++  + r l 
  PHY93_06020|PHY93_06020   8 IYVLTLANLKSRYRNTFYGFLWVVINPILIFAVQAYAFKII-FKIQYLNYtTFLLSGLLPWLFIVQSVEMCTSLFVTNAHFIRNL- 91 
                              68999*********************************954.35556655799**********8888888888888888887655. PP

            ABC2_membrane  88 splyslsayvlakvlvelpvsllqalifllivyflvgldlsrf...flflllllltalaasslgllisalapsfedasqlaslvll 170
                               p+ s+  ++l   +++  v++l+++ +l+i++f+  ++ + f   fl++l ++ +ala+ s+ l+++++++ ++d  +++s++++
  PHY93_06020|PHY93_06020  92 -PV-SPL-VLLYTQVLDNFVNFLCSFFILIIIFFF-KYPEK-FnvlFLLPLPIISLALAIGSMCLVFASVNVVLRDLKFVISFFFS 172
                              .45.444.444444467777777777777777776.66664.4445**************************************** PP

            ABC2_membrane 171 pllllsGffipidsmpkwlqwiaylnPltyaveal 205
                              +l++l+++f+p++ +p   +++  +nP++y+++ +
  PHY93_06020|PHY93_06020 173 LLFYLTPIFYPPHFIPAEYRFMVDINPIYYIIRPF 207
                              ***************9999************9866 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 0.07
            ABC2_membrane 170 lpllllsGffipidsmpkwlq 190
                              + l+l +G++++ ++m+++l+
  PHY93_06020|PHY93_06020 229 TSLMLITGAYFTWKKMKEYLI 249
                              567888888888888855775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (250 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       843  (0.0470188); expected 358.6 (0.02)
Passed bias filter:                      248  (0.0138323); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.47
# Mc/sec: 1594.92
//
Query:       PHY93_14255|PHY93_14255  [L=66]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (66 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       310  (0.0172904); expected 358.6 (0.02)
Passed bias filter:                      248  (0.0138323); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.44
# Mc/sec: 452.37
//
Query:       PHY93_14260|PHY93_14260  [L=348]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.9e-21   75.8   0.0    5.5e-21   75.3   0.0    1.2  1  AIRS_C    AIR synthase related protein, C-terminal domain
    4.2e-15   56.2   0.8    1.2e-14   54.8   0.8    1.8  1  AIRS      AIR synthase related protein, N-terminal domain


Domain annotation for each model (and alignments):
>> AIRS_C  AIR synthase related protein, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   75.3   0.0   6.1e-25   5.5e-21       1     153 [.     165     347 ..     165     348 .] 0.89

  Alignments for each domain:
  == domain 1  score: 75.3 bits;  conditional E-value: 6.1e-25
                              STTEEEEEEETSSCTCCHHHHHHHCHHHCTSHTTTSEHHHHHHHHHHHHHHHHHHHH.HTTECEEEE--TTHHHHHHHHHHHTTTE CS
                   AIRS_C   1 kpGdvliltgslGlggagtslkrkileeeglddsavqlgdvlleptliyvkralaal.kglvkaahDvTgGGLlgalaemapasgv 85 
                              ++Gd lilt+ lG+g +   lk+ +  e++      +  +  ++ ++i+  ++ a      ++aa+D+Tg+GL+g+ ++ma+asgv
  PHY93_14260|PHY93_14260 165 RVGDDLILTKALGTGTLCAGLKKSLMSEDDIS----EAIESMMTLNKIQDLLESANVnASAIHAATDITGFGLVGHSMQMAQASGV 246
                              68*******************99999998877....7888888889999999999999**************************** PP

                              EEEEECGTHHHHHHHH......HHHHHHHC............................STTTEEEEEEEHGGHHHHHHHHHHTTCC CS
                   AIRS_C  86 gaeidldkvpifdele......splemlls............................ensGrllvavppeeadavlaileeeglp 137
                               +++ + ++p++d +       + ++++ s                            ++sG+ll++v+p+ ++++++ l ++  p
  PHY93_14260|PHY93_14260 247 ALRFFARDIPALDGALlslknkNLTKAHQSndaytkqhiftdenagvdeearllmrdpQTSGGLLLSVDPKYSEQLINSLLSR-FP 331
                              *************987776555444444449999999999*********************************8888888865.56 PP

                              CEEEEEEEEESSSEEE CS
                   AIRS_C 138 eaavIGevtakeelsv 153
                                + IG+v++k++ s+
  PHY93_14260|PHY93_14260 332 RTKKIGKVENKNDFSL 347
                              8**********98775 PP

>> AIRS  AIR synthase related protein, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.8   0.8   1.3e-18   1.2e-14       1      93 [.      46     152 ..      46     153 .. 0.91

  Alignments for each domain:
  == domain 1  score: 54.8 bits;  conditional E-value: 1.3e-18
                              SSSEE........EEEEEEEE.EECCTCCCCHHHHHHHHHHHHHHTTTEEEEEEEEEEEEC.......HHHHHHHHHHHHHHHTT- CS
                     AIRS   1 dDaav........vvttdshnrpvlvepvhfiGakavavnlsDlaamGArPlalllslalp.......wleevvrglaeaaeelgv 71 
                              dDa+v        +v+t ++++p++  p++f G++a+ ++lsD++amG++P  ++  la+p        + +v++g  ea++e+++
  PHY93_14260|PHY93_14260  46 DDAGVfrvsetlaCVETLDFFTPIVDTPFKF-GKIAAVNALSDVYAMGGTPKTCMAILAFPlstldesVMVDVLAGACEAIKEADA 130
                              7899555566666777777************.****************************************************** PP

                              EEEEEEEEEESSEEEEEEEEEE CS
                     AIRS  72 plvgGdtsfsneptisvtavGl 93 
                               lvgG++  ++ +   ++++G 
  PHY93_14260|PHY93_14260 131 LLVGGHSIDDDTLKFGLSVTGH 152
                              ********99988888888886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (348 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       368  (0.0205254); expected 358.6 (0.02)
Passed bias filter:                      339  (0.0189079); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.43
# Mc/sec: 2451.38
//
Query:       PHY93_14265|PHY93_14265  [L=367]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.7e-06   28.5   0.0    3.1e-05   24.5   0.0    2.8  3  Rhodanese    Rhodanese-like domain
     0.0073   16.6   0.0      0.016   15.5   0.0    1.7  1  AAA_22       AAA domain
  ------ inclusion threshold ------
      0.011   14.8   0.0      0.018   14.1   0.0    1.2  1  T2SSE        Type II/IV secretion system protein
      0.018   15.3   0.0      0.033   14.4   0.0    1.4  1  AAA_28       AAA domain
       0.03   14.7   0.0       0.13   12.7   0.0    1.9  2  AAA_16       AAA ATPase domain
      0.063   13.4   0.3       0.14   12.2   0.3    1.6  1  DUF5595      Domain of unknown function (DUF5595)
      0.074   13.3   0.1       0.79   10.0   0.1    2.4  2  Roc          Ras of Complex, Roc, domain of DAPkinase
       0.08   13.5   0.2       0.44   11.1   0.0    2.2  3  AAA_18       AAA domain
       0.14   12.0   0.0       0.37   10.7   0.0    1.7  1  NACHT        NACHT domain
       0.15   11.9   0.1       0.26   11.2   0.1    1.4  1  RsgA_GTPase  RsgA GTPase
       0.18   10.3   0.0       0.28    9.7   0.0    1.1  1  DUF853       Bacterial protein of unknown function (DUF853)


Domain annotation for each model (and alignments):
>> Rhodanese  Rhodanese-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.5   0.0   1.9e-08   3.1e-05       7     103 ..      17     133 ..      13     136 .. 0.81
   2 ?   -2.7   0.0       5.3   8.6e+03      66      93 ..     149     175 ..     138     181 .. 0.62
   3 ?   -1.7   0.0       2.5   4.2e+03      53      79 ..     201     232 ..     186     258 .. 0.53

  Alignments for each domain:
  == domain 1  score: 24.5 bits;  conditional E-value: 1.9e-08
                Rhodanese   7 ellekgkvallDvRppeeYekghIpgAvnv.....................skdtlsrakkseapllelpeellelgidnkktvvv 71 
                              +l+ +++++++DvR+p e+++g  p+A+n+                     ++  l++     ++ +e+ ++++++  +  ++ ++
  PHY93_14265|PHY93_14265  17 KLF-SDDIKFIDVRAPIEFQQGAFPNAINLpllsdeqrhligicykelgqvEAIALGHKLVLGEDRNEKMKAWMSEINRGPSETYL 101
                              555.34467**************************999999999999999877777777777777788888888873334677889 PP

                Rhodanese  72 ycdgggr.aaaaaallkklGyknvsvldGGfka 103
                              yc  gg  ++ +++ +++lG  ++ +++GG+k 
  PHY93_14265|PHY93_14265 102 YCFRGGLrSQISQQWIRELG-GKILIIEGGYKR 133
                              998888846666889999**.99********86 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 5.3
                Rhodanese  66 kktvvvycdgggraaaaaallkklGykn 93 
                              ++ +vv +++g +++ + + l + Gy +
  PHY93_14265|PHY93_14265 149 NSFLVVTGNTGTGKTDLLQRLSSDGY-K 175
                              66678888888886666555555664.3 PP

  == domain 3  score: -1.7 bits;  conditional E-value: 2.5
                Rhodanese  53 elpeellel....gidnkktvvvycdgggr.a 79 
                               ++e  l+       ++k t++++ d+g +  
  PHY93_14265|PHY93_14265 201 INFENKLSIqffsEMKKKGTFILLEDEGRKiG 232
                              44444444444444588888888888877643 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   9.7e-06     0.016       5      27 ..     149     171 ..     134     244 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 9.7e-06
                   AAA_22   5 agilvvtGesGtGKTtllrrlle 27 
                               ++lvvtG +GtGKT ll+rl +
  PHY93_14265|PHY93_14265 149 NSFLVVTGNTGTGKTDLLQRLSS 171
                              589*****************976 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   1.1e-05     0.018     118     148 ..     138     168 ..     115     175 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 1.1e-05
                    T2SSE 118 iaevlrkavrerglilvsGgTgsGKttllya 148
                              + e +++ v ++  ++v+G Tg+GKt ll  
  PHY93_14265|PHY93_14265 138 LLENIEQQVVANSFLVVTGNTGTGKTDLLQR 168
                              567789999999**************99875 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0     2e-05     0.033       3      27 ..     153     177 ..     151     184 .. 0.91

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 2e-05
                   AAA_28   3 vitGgestGKTtlleaLaargypvv 27 
                              v+tG  +tGKT ll++L+++gy+++
  PHY93_14265|PHY93_14265 153 VVTGNTGTGKTDLLQRLSSDGYKTL 177
                              89********************986 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   7.9e-05      0.13      18      45 ..     145     170 ..     131     227 .. 0.83
   2 ?   -0.6   0.0      0.96   1.6e+03      67      99 ..     280     310 ..     251     344 .. 0.50

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 7.9e-05
                   AAA_16  18 rvrsgrpelvllsGesGvGKsslvrell 45 
                              +v ++  + ++++G+ G+GK+ l+++l 
  PHY93_14265|PHY93_14265 145 QVVAN--SFLVVTGNTGTGKTDLLQRLS 170
                              33333..789**************9986 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.96
                   AAA_16  67 ipysalaqalareellrqlldeaesaeleawre 99 
                               +y+ + q++ + + + q+  ++  a+ ++  +
  PHY93_14265|PHY93_14265 280 DSYQNFFQYF-K-SSFDQIQKRLGGALYQDCLQ 310
                              3455555555.4.45555544433333333333 PP

>> DUF5595  Domain of unknown function (DUF5595)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.3   8.7e-05      0.14      12      45 ..     263     296 ..     253     302 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 8.7e-05
                  DUF5595  12 LFldYtvkcYekFmqgeDtFeeedaeleskLkel 45 
                              ++ dY+v   ++F + +D+++++ + ++s ++++
  PHY93_14265|PHY93_14265 263 ILEDYCVSSWKNFQNEDDSYQNFFQYFKSSFDQI 296
                              677***************************9986 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.0   0.0      0.58   9.4e+02      86     104 ..      76      94 ..      66     120 .. 0.79
   2 ?   10.0   0.1   0.00048      0.79       2      25 ..     152     175 ..     152     187 .. 0.88

  Alignments for each domain:
  == domain 1  score: 0.0 bits;  conditional E-value: 0.58
                              EEEGHHHHCHHHHHHHHHH CS
                      Roc  86 vydsrssenlkeWlkelkk 104
                              v+ ++++e++k W++e+++
  PHY93_14265|PHY93_14265  76 VLGEDRNEKMKAWMSEINR 94 
                              5566777888999999876 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00048
                              EEEESSTTSSHHHHHHCHCT-CCC CS
                      Roc   2 vvlvGdsgvGKtsllkrfvedkfs 25 
                              +v+ G++g+GKt ll+r+ +d ++
  PHY93_14265|PHY93_14265 152 LVVTGNTGTGKTDLLQRLSSDGYK 175
                              5889**************998765 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0       6.6   1.1e+04      70      84 ..     118     132 ..      81     142 .. 0.61
   2 ?   11.1   0.0   0.00027      0.44       2      44 ..     153     195 ..     152     231 .. 0.76
   3 ?   -0.8   0.0       1.3   2.1e+03      31      79 ..     262     312 ..     250     351 .. 0.68

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 6.6
                   AAA_18  70 aleegknlvidghla 84 
                              ++  gk l+i+g   
  PHY93_14265|PHY93_14265 118 RELGGKILIIEGGYK 132
                              344566777777655 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 0.00027
                   AAA_18   2 lltGtpGvGKttlakeLskrlgf.gvnlrdvakenglllevdpe 44 
                              ++tG  G+GKt l ++Ls+  g+    l  +a ++g++++ +p 
  PHY93_14265|PHY93_14265 153 VVTGNTGTGKTDLLQRLSSD-GYkTLDLEGMANHRGSVFGSNPT 195
                              69***************998.67766777777777777776666 PP

  == domain 3  score: -0.8 bits;  conditional E-value: 1.3
                   AAA_18  31 vakenglllevdpealdeskrldedkldklldaleenss.....aleegknlvi 79 
                              ++ e++++ ++ ++  ++++   +++ ++  + ++++ +      ++++   v+
  PHY93_14265|PHY93_14265 262 LILEDYCVSSWKNF--QNEDDSYQNFFQYFKSSFDQIQKrlggaLYQDCLQ-VL 312
                              56677888888888..77777777777777777777666555554444444.44 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   0.00023      0.37       3      22 ..     152     171 ..     150     178 .. 0.90

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00023
                              EEEEC-TTTCHHHHHHHHHH CS
                    NACHT   3 vilqGeaGsGKTtLlqklal 22 
                              ++++G  G GKT Llq+l +
  PHY93_14265|PHY93_14265 152 LVVTGNTGTGKTDLLQRLSS 171
                              799**************986 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.1   0.00016      0.26      94     122 ..     144     172 ..     111     220 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00016
                              HHHCTTSEEEEECSTTSSHHHHHHHHCTT CS
              RsgA_GTPase  94 kellkdktsvlvGqSGvGKStLinallpe 122
                              ++++++++ v+ G++G GK+ L+ +l ++
  PHY93_14265|PHY93_14265 144 QQVVANSFLVVTGNTGTGKTDLLQRLSSD 172
                              345677999*****************986 PP

>> DUF853  Bacterial protein of unknown function (DUF853)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   0.0   0.00017      0.28      18      42 ..     146     170 ..     139     183 .. 0.85

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.00017
                   DUF853  18 klanrhGliaGatGtGktvtLqvla 42 
                               +an   +++G tGtGkt  Lq l+
  PHY93_14265|PHY93_14265 146 VVANSFLVVTGNTGTGKTDLLQRLS 170
                              57899999**************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (367 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       662  (0.0369234); expected 358.6 (0.02)
Passed bias filter:                      553  (0.0308439); expected 358.6 (0.02)
Passed Vit filter:                        91  (0.00507558); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.60u 0.28s 00:00:00.88 Elapsed: 00:00:00.46
# Mc/sec: 2376.15
//
Query:       PHY93_14270|PHY93_14270  [L=202]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (202 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1629  (0.0908584); expected 358.6 (0.02)
Passed bias filter:                     1026  (0.0572257); expected 358.6 (0.02)
Passed Vit filter:                        81  (0.00451782); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.54u 0.29s 00:00:00.83 Elapsed: 00:00:00.45
# Mc/sec: 1360.20
//
Query:       PHY93_14275|PHY93_14275  [L=196]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.4e-36  125.0   0.9      4e-36  124.8   0.9    1.0  1  YceI           YceI-like domain
  ------ inclusion threshold ------
       0.11   12.9   0.0       0.23   11.8   0.0    1.5  1  Phage_fiber_C  Putative prophage tail fibre C-terminus


Domain annotation for each model (and alignments):
>> YceI  YceI-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  124.8   0.9   4.4e-40     4e-36       1     143 [.      26     187 ..      26     189 .. 0.93

  Alignments for each domain:
  == domain 1  score: 124.8 bits;  conditional E-value: 4.4e-40
                              EEE-CCC-EEEE........-EEEEECTECCEEEE..TTT.EEEEEEEEGGGEESS.HCHHHHHHCTCTT-TTT--EEEECCCCEE CS
                     YceI   1 YtldpahssvtftvkhlgvskvtGrfkkvsgelsvdeddpessvevtidvasidtgnakrdehlksadffdvakyPtatFvstsve 86 
                              Y++dp+h++v+f ++h+++s v+Grf++v+g+l + ++ ++ssve+ +d++s+dt ++krde l s+ ffd+ kyPt++++s++++
  PHY93_14275|PHY93_14275  26 YKVDPDHTRVGFLIQHFMISLVEGRFNDVKGTLVLAPKFTDSSVEAIVDINSVDTAVKKRDEDLLSERFFDAIKYPTMSLKSKKFK 111
                              9*******************************999655559********************************************* PP

                              .......EEEEEEETTEEEEEEEEEEEEEEE........CCEECEEEEEGGGGTC........TTTC-SEEEEEEE CS
                     YceI  87 .....akvtGdLtikGvtkpvtlpvtvngaa........agfsatgtidrtdFGlkr......galvgdeveleie 143
                                   +++  dLtik+vtk+vt++  ++g++        ++ + t++i+r+dF +++      g ++gdev++ ++
  PHY93_14275|PHY93_14275 112 gkpeaFTLVADLTIKDVTKEVTFKGAYTGEMsdpwgndrVAINMTAKINRKDFHINYnekasnGPAIGDEVTIIVR 187
                              *****88*********************975566666666688************999****9889******9876 PP

>> Phage_fiber_C  Putative prophage tail fibre C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   2.5e-05      0.23      35      62 ..      29      56 ..      26      58 .. 0.94

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 2.5e-05
            Phage_fiber_C 35 dkDkkrvqgvvrhLqvlfaDGrWedvkG 62
                             d D++rv  +++h  +   +Gr++dvkG
  PHY93_14275|PHY93_14275 29 DPDHTRVGFLIQHFMISLVEGRFNDVKG 56
                             789************************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (196 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       437  (0.0243739); expected 358.6 (0.02)
Passed bias filter:                      375  (0.0209158); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.24s 00:00:00.74 Elapsed: 00:00:00.45
# Mc/sec: 1319.40
//
Query:       PHY93_14280|PHY93_14280  [L=545]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-31  110.0   0.7    2.9e-12   46.7   0.0    3.5  3  PQQ_2     PQQ-like domain
    4.1e-24   83.3  10.3    1.6e-06   27.7   0.1    7.4  7  PQQ       PQQ enzyme repeat
    2.7e-19   69.1  12.3    2.9e-05   24.4   0.1    7.0  8  PQQ_3     PQQ-like domain
  ------ inclusion threshold ------
      0.022   15.3   0.2         43    4.8   0.0    4.4  5  PepSY     Peptidase propeptide and YPEB domain


Domain annotation for each model (and alignments):
>> PQQ_2  PQQ-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.7   0.0   5.2e-15   2.3e-11      72     200 ..      96     225 ..      73     242 .. 0.58
   2 !   46.7   0.0   6.4e-16   2.9e-12       6     200 ..     112     356 ..     109     372 .. 0.71
   3 !   32.7   0.0   1.2e-11   5.5e-08       2      71 ..     441     508 ..     441     528 .. 0.81

  Alignments for each domain:
  == domain 1  score: 43.7 bits;  conditional E-value: 5.2e-15
                    PQQ_2  72 plvaegrvvvvasdgqlialdaedGkrlWstqqrseepae.lrssaspavagdtvvvgessgklvaldpkdGkvlWerelaaprgt 156
                              p v ++ ++v +  ++ +alda +  + W  +++ ++  + l+ ++  a+a+++++ g   g + ald+k+GkvlW++++  ++  
  PHY93_14280|PHY93_14280  96 PIVVDKILYVTTLTNT-YALDASNCSLIWKHHSDKDPGKSgLGNNRGAAYADGKIFRGLNAGYIIALDAKTGKVLWQTKIINNT-- 178
                              5555555555554443.4566666666666555555333335566666666666666666666666666666666666663333.. PP

                    PQQ_2 157 selsrvgdisgrpvvaegtVyassgqg.......rllaldlatgrrlwske 200
                                  r  ++ ++pvv++g Vy+ +  g       r++a+d+  g ++ws +
  PHY93_14280|PHY93_14280 179 ----RGESLPAAPVVSQGLVYIGNAGGdnagvrgRMMAFDINDGHKVWSFD 225
                              ....22335566666666666655444334443346666666666556544 PP

  == domain 2  score: 46.7 bits;  conditional E-value: 6.4e-16
                    PQQ_2   6 saldaatGaelWrv....dl.arplgggvsravlsggtlfvatgggrlvaldaatGkvlWettlegpvvga.....plvaegrvvv 81 
                              +alda + +++W+     d+ + +lg+ +  a+ ++g++f +   g ++alda+tGkvlW+t+  + ++g      p v++g v+ 
  PHY93_14280|PHY93_14280 112 YALDASNCSLIWKHhsdkDPgKSGLGNNRGAAY-ADGKIFRGLNAGYIIALDAKTGKVLWQTKIINNTRGEslpaaPVVSQGLVYI 196
                              69999999******6555443335777776688.******************************777777778889********** PP

                    PQQ_2  82 va..sdg.....qlialdaedGkrlWstqqrs..........eepaelrssaspava.......gdtvvvges............. 130
                               +  +d+     ++ a+d++dG ++Ws+++            ++++++ +s+  +++       ++ ++v+               
  PHY93_14280|PHY93_14280 197 GNagGDNagvrgRMMAFDINDGHKVWSFDLVPmkgpgsdtwpKSNTKFPRSGGATWVsysvdegQGLLYVPVGnaapdfdiaarpg 282
                              *966333667779999***********99988777777777634444333333333335555655555555445566666666666 PP

                    PQQ_2 131 ....sgklvaldpkdGkvlWerel.aaprgtselsrvgdisgrpvva...eg..tVyassgqgrllaldlatgrrlwske 200
                                   + +v+ld+k+G +   ++l   +   +      dis +pv+    +g   V  ++++g + a+dl t +  ++++
  PHY93_14280|PHY93_14280 283 knlyTNSVVILDAKTGALKKYYQLtPNDF-HD-----WDISTAPVLIktkGGknLVIEAAKDGLMHAVDLDTDQIMFNTP 356
                              66666668888888888888888855555.22.....3677777777676335577777777766677888887555555 PP

  == domain 3  score: 32.7 bits;  conditional E-value: 1.2e-11
                    PQQ_2   2 egvvsaldaatGaelWrvdlarplgggvsravlsggtlfvatgggrlvaldaatGkvlWettlegpvvga 71 
                              +g v+ +da++G++ W+   a+pl g + +a+ +gg +f+++  g+l alda++Gk+l+e+ l+ p+ g 
  PHY93_14280|PHY93_14280 441 KGWVTSIDADSGEVNWKYQAATPLPGAI-TAT-AGGLVFSGDLHGKLFALDAKNGKLLFENNLDTPIGGG 508
                              588***************9877655555.266.9*****************************9998775 PP

>> PQQ  PQQ enzyme repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   0.0      0.01        45       8      25 ..     107     124 ..     100     127 .. 0.75
   2 !   27.7   0.1   3.6e-10   1.6e-06       1      28 [.     147     174 ..     147     183 .. 0.89
   3 !   14.4   0.0   6.2e-06     0.028       9      29 ..     207     227 ..     204     230 .. 0.89
   4 !   10.3   0.1   0.00012      0.54       9      32 ..     287     310 ..     285     314 .. 0.90
   5 ?    0.6   0.0      0.14   6.1e+02       2      19 ..     331     348 ..     330     348 .. 0.83
   6 !    7.9   0.1   0.00069       3.1      14      32 ..     446     464 ..     441     468 .. 0.84
   7 !   17.0   0.0   8.9e-07     0.004       1      23 [.     474     496 ..     474     510 .. 0.88

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.01
                              TTSEEEEEETTTCCEEEE CS
                      PQQ   8 adGylyAlDadTGkvlWr 25 
                                ++ yAlDa++  ++W+
  PHY93_14280|PHY93_14280 107 TLTNTYALDASNCSLIWK 124
                              44599******9888887 PP

  == domain 2  score: 27.7 bits;  conditional E-value: 3.6e-10
                              TEEEEEETTSEEEEEETTTCCEEEEEES CS
                      PQQ   1 gvvylgsadGylyAlDadTGkvlWrfkt 28 
                              g+++ g + Gy+ AlDa+TGkvlW++k+
  PHY93_14280|PHY93_14280 147 GKIFRGLNAGYIIALDAKTGKVLWQTKI 174
                              678889999****************986 PP

  == domain 3  score: 14.4 bits;  conditional E-value: 6.2e-06
                              TSEEEEEETTTCCEEEEEESS CS
                      PQQ   9 dGylyAlDadTGkvlWrfktg 29 
                               G+  A+D+++G ++W+f+++
  PHY93_14280|PHY93_14280 207 RGRMMAFDINDGHKVWSFDLV 227
                              68999*************986 PP

  == domain 4  score: 10.3 bits;  conditional E-value: 0.00012
                              TSEEEEEETTTCCEEEEEESSSCG CS
                      PQQ   9 dGylyAlDadTGkvlWrfktggpv 32 
                               + ++ lDa+TG ++  +++ +++
  PHY93_14280|PHY93_14280 287 TNSVVILDAKTGALKKYYQLTPND 310
                              68899**************99886 PP

  == domain 5  score: 0.6 bits;  conditional E-value: 0.14
                              EEEEEETTSEEEEEETTT CS
                      PQQ   2 vvylgsadGylyAlDadT 19 
                               v+ + +dG   A+D+dT
  PHY93_14280|PHY93_14280 331 LVIEAAKDGLMHAVDLDT 348
                              4666699*********99 PP

  == domain 6  score: 7.9 bits;  conditional E-value: 0.00069
                              EEETTTCCEEEEEESSSCG CS
                      PQQ  14 AlDadTGkvlWrfktggpv 32 
                               +Dad+G+v W++++  p 
  PHY93_14280|PHY93_14280 446 SIDADSGEVNWKYQAATPL 464
                              59************98775 PP

  == domain 7  score: 17.0 bits;  conditional E-value: 8.9e-07
                              TEEEEEETTSEEEEEETTTCCEE CS
                      PQQ   1 gvvylgsadGylyAlDadTGkvl 23 
                              g v+ g+ +G+l+AlDa++Gk+l
  PHY93_14280|PHY93_14280 474 GLVFSGDLHGKLFALDAKNGKLL 496
                              67999****************97 PP

>> PQQ_3  PQQ-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.8   0.0   0.00025       1.1      15      39 ..      94     117 ..      83     118 .. 0.85
   2 !   14.7   0.0   7.1e-06     0.032       4      40 .]     122     165 ..     120     165 .. 0.75
   3 !   20.5   0.0   1.1e-07   0.00048       1      39 [.     166     216 ..     166     217 .. 0.88
   4 ?    1.4   0.1      0.11     5e+02      11      30 ..     249     270 ..     218     297 .. 0.66
   5 ?   -0.1   0.0      0.33   1.5e+03      27      40 .]     335     348 ..     315     348 .. 0.78
   6 ?   -3.2   0.1       3.1   1.4e+04       9      18 ..     379     388 ..     376     390 .. 0.64
   7 ?   -3.4   0.0       3.6   1.6e+04      31      40 .]     442     451 ..     441     451 .. 0.85
   8 !   24.4   0.1   6.4e-09   2.9e-05       1      39 [.     452     491 ..     452     492 .. 0.87

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00025
                    PQQ_3  15 sspavdgglvyvgtgdGtlyAlDae 39 
                              s+p v++ ++yv+t   + yAlDa 
  PHY93_14280|PHY93_14280  94 SGPIVVDKILYVTTL-TNTYALDAS 117
                              99*************.*******96 PP

  == domain 2  score: 14.7 bits;  conditional E-value: 7.1e-06
                    PQQ_3   4 lWsv.qlpgpvnssp......avdgglvyvgtgdGtlyAlDaet 40 
                              +W++ +  +p++s++      a+++g+++ g   G + AlDa+t
  PHY93_14280|PHY93_14280 122 IWKHhSDKDPGKSGLgnnrgaAYADGKIFRGLNAGYIIALDAKT 165
                              677752233555555555555*********************98 PP

  == domain 3  score: 20.5 bits;  conditional E-value: 1.1e-07
                    PQQ_3   1 GevlWsv.....qlpgpvnsspavdgglvyvgtg.......dGtlyAlDae 39 
                              G+vlW++     + ++ + ++p+v+ glvy+g          G++ A+D +
  PHY93_14280|PHY93_14280 166 GKVLWQTkiinnTRGESLPAAPVVSQGLVYIGNAggdnagvRGRMMAFDIN 216
                              9******888854466888999*************************9986 PP

  == domain 4  score: 1.4 bits;  conditional E-value: 0.11
                    PQQ_3  11 gpvnsspavdg..glvyvgtgd 30 
                              g+++ s  vd+  gl+yv  g+
  PHY93_14280|PHY93_14280 249 GATWVSYSVDEgqGLLYVPVGN 270
                              3444444777533699999983 PP

  == domain 5  score: -0.1 bits;  conditional E-value: 0.33
                    PQQ_3  27 gtgdGtlyAlDaet 40 
                              ++ dG ++A+D +t
  PHY93_14280|PHY93_14280 335 AAKDGLMHAVDLDT 348
                              4559*******988 PP

  == domain 6  score: -3.2 bits;  conditional E-value: 3.1
                    PQQ_3   9 lpgpvnsspa 18 
                              ++++v+ +p 
  PHY93_14280|PHY93_14280 379 TGAAVWNGPS 388
                              5667777775 PP

  == domain 7  score: -3.4 bits;  conditional E-value: 3.6
                    PQQ_3  31 GtlyAlDaet 40 
                              G ++++Da++
  PHY93_14280|PHY93_14280 442 GWVTSIDADS 451
                              88999**986 PP

  == domain 8  score: 24.4 bits;  conditional E-value: 6.4e-09
                    PQQ_3   1 GevlWsvqlpgpvnssp.avdgglvyvgtgdGtlyAlDae 39 
                              Gev W++q   p+ ++  a++gglv+ g+  G+l+AlDa+
  PHY93_14280|PHY93_14280 452 GEVNWKYQAATPLPGAItATAGGLVFSGDLHGKLFALDAK 491
                              8999***77777766667*********************7 PP

>> PepSY  Peptidase propeptide and YPEB domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.0    0.0095        43      48      60 ..     157     169 ..     150     171 .. 0.86
   2 ?   -3.0   0.0       2.6   1.2e+04      28      48 ..     216     237 ..     210     237 .. 0.75
   3 ?    1.4   0.0      0.11   4.8e+02      48      59 ..     291     300 ..     284     304 .. 0.74
   4 ?    2.0   0.1     0.068   3.1e+02      48      59 ..     443     454 ..     431     455 .. 0.74
   5 ?   -0.6   0.0      0.45     2e+03      52      60 ..     488     496 ..     474     498 .. 0.85

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.0095
                              EEEEEETTT--EE CS
                    PepSY  48 yevfiDAkTGkvl 60 
                              y++  DAkTGkvl
  PHY93_14280|PHY93_14280 157 YIIALDAKTGKVL 169
                              55668*******8 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 2.6
                              ETTEEEEEEEEE..EE.TTEEE CS
                    PepSY  28 ddgrlvYevelst.aepegpey 48 
                              +dg+ v+ ++l+   +p+  ++
  PHY93_14280|PHY93_14280 216 NDGHKVWSFDLVPmKGPGSDTW 237
                              489999*999987766666665 PP

  == domain 3  score: 1.4 bits;  conditional E-value: 0.11
                              EEEEEETTT--E CS
                    PepSY  48 yevfiDAkTGkv 59 
                              ++   DAkTG+ 
  PHY93_14280|PHY93_14280 291 VI--LDAKTGAL 300
                              45..9*****97 PP

  == domain 4  score: 2.0 bits;  conditional E-value: 0.068
                              EEEEEETTT--E CS
                    PepSY  48 yevfiDAkTGkv 59 
                              +   iDA +G+v
  PHY93_14280|PHY93_14280 443 WVTSIDADSGEV 454
                              4444*******8 PP

  == domain 5  score: -0.6 bits;  conditional E-value: 0.45
                              EETTT--EE CS
                    PepSY  52 iDAkTGkvl 60 
                               DAk+Gk l
  PHY93_14280|PHY93_14280 488 LDAKNGKLL 496
                              7******87 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (545 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       267  (0.0148921); expected 358.6 (0.02)
Passed bias filter:                      258  (0.0143901); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.58u 0.27s 00:00:00.85 Elapsed: 00:00:00.45
# Mc/sec: 3651.05
//
Query:       PHY93_14285|PHY93_14285  [L=248]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.2e-09   37.4   0.0    3.6e-09   36.7   0.0    1.3  1  3D        3D domain


Domain annotation for each model (and alignments):
>> 3D  3D domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.7   0.0     2e-13   3.6e-09       1      57 [.     154     216 ..     154     227 .. 0.82

  Alignments for each domain:
  == domain 1  score: 36.7 bits;  conditional E-value: 2e-13
                              TEEEE-TTTS-TT-EEEEEEC.CEET.....TT.CCEEEEEEEEE--TT--SSEEEEEEEESHH CS
                       3D   1 rsiAvDpsviplGtpvlvege.plla.....gk.kpvyrlviaqDtGgaIkGnriDlffgtgde 57 
                              r+iA+Dp  ip Gt+++++ +    +     g+     ++ +a D Gg Ik ++iD+f+gt ++
  PHY93_14285|PHY93_14285 154 RTIATDPLSIPTGTVLYIPKAqG-AKillknGQtIIHDGYFFAGDLGGLIKLKHIDVFLGTDND 216
                              79****************99632.22355433334459**********************9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (248 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       324  (0.0180713); expected 358.6 (0.02)
Passed bias filter:                      298  (0.0166211); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.45
# Mc/sec: 1654.06
//
Query:       PHY93_14290|PHY93_14290  [L=444]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (444 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       553  (0.0308439); expected 358.6 (0.02)
Passed bias filter:                      402  (0.0224218); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.59u 0.27s 00:00:00.86 Elapsed: 00:00:00.46
# Mc/sec: 2897.58
//
Query:       PHY93_14295|PHY93_14295  [L=557]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.2e-05   23.5   0.1      0.016   15.5   0.0    2.7  2  Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
    8.1e-05   23.7   0.1       0.06   14.5   0.0    2.9  2  Cytochrom_C      Cytochrome c
  ------ inclusion threshold ------
      0.023   14.7   0.2        1.4    8.9   0.1    2.3  2  Cytochrome_C7    Cytochrome c7 and related cytochrome c
      0.057   13.9   0.4        0.5   10.9   0.1    2.1  2  Cytochrom_c3_2   Cytochrome c3
      0.074   13.0   0.6        4.7    7.2   0.0    2.7  3  Haem_bd          Haem-binding domain
      0.077   12.7   0.1       0.17   11.6   0.1    1.5  1  Cytochrom_C550   Cytochrome c-550 domain


Domain annotation for each model (and alignments):
>> Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.1   0.0    0.0096        29      13      45 ..     154     189 ..     144     210 .. 0.61
   2 !   15.5   0.0   5.4e-06     0.016       2      24 ..     356     378 ..     355     423 .. 0.72

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.0096
          Cytochrome_CBB3  13 nCasCHgkggagpslagr.dwep..dalvdiiknGk 45 
                              +C +CH ++  g  + g  + +p   ++++++++ +
  PHY93_14295|PHY93_14295 154 SCFACHSANLFGTTVLGLtNKRPraNKFFHMAREVV 189
                              7*****988778544433222223355666555554 PP

  == domain 2  score: 15.5 bits;  conditional E-value: 5.4e-06
          Cytochrome_CBB3   2 aaaaGaalykknCasCHgkggag 24 
                              +a++G++++ + C+ CHg+ +++
  PHY93_14295|PHY93_14295 356 RAKKGEQVFSNRCQKCHGEYQKA 378
                              689***************33333 PP

>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.0   0.0    0.0088        26       2      24 ..     146     167 ..     145     213 .. 0.75
   2 !   14.5   0.0     2e-05      0.06       1      50 [.     357     403 ..     357     430 .. 0.71

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.0088
                              --HHHHHHTTGGGTB-SSSBSSS CS
              Cytochrom_C   2 arGkelftanCaaCHgvegggak 24 
                              a+Gk l    C aCH+++  g++
  PHY93_14295|PHY93_14295 146 ANGKGLTF-SCFACHSANLFGTT 167
                              56777764.7******9987776 PP

  == domain 2  score: 14.5 bits;  conditional E-value: 2e-05
                              X--HHHHHHTTGGGTB-SSSBSSS....--HHHHHHHTTT-HHHHHHHHT CS
              Cytochrom_C   1 aarGkelftanCaaCHgvegggakqgggptlsgaaerasaasigasvanp 50 
                              a++G+++f + C +CHg   ++ +++   + s++ e +  a  + ++++ 
  PHY93_14295|PHY93_14295 357 AKKGEQVFSNRCQKCHGEYQKAWSAQ---NASDLNEVEILATTKIIYHER 403
                              689*****99*******999998865...555555555555444444444 PP

>> Cytochrome_C7  Cytochrome c7 and related cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.3   0.0     0.028        83      14      23 ..     153     162 ..     135     185 .. 0.69
   2 ?    8.9   0.1   0.00048       1.4      12      29 ..     364     380 ..     353     398 .. 0.62

  Alignments for each domain:
  == domain 1  score: 3.3 bits;  conditional E-value: 0.028
            Cytochrome_C7  14 ykCtdCHskl 23 
                               +C +CHs+ 
  PHY93_14295|PHY93_14295 153 FSCFACHSAN 162
                              4455555554 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 0.00048
            Cytochrome_C7  12 tgykCtdCHsklfeskak 29 
                               +++C++CH++  +++++
  PHY93_14295|PHY93_14295 364 FSNRCQKCHGEY-QKAWS 380
                              347899999998.33332 PP

>> Cytochrom_c3_2  Cytochrome c3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.0       0.3   8.9e+02       8      34 ..     154     160 ..     143     170 .. 0.66
   2 ?   10.9   0.1   0.00017       0.5      19      45 ..     358     384 ..     351     405 .. 0.76

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.3
                              TGGGTSSSST-SSTTHHHHHHHHHHH- CS
           Cytochrom_c3_2   8 kCadCHtkekpkkdkaveeekClsCHg 34 
                              +                    C++CH+
  PHY93_14295|PHY93_14295 154 S--------------------CFACHS 160
                              3....................444443 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.00017
                              SSTTHHHHHHHHHHH--HHHCHTTSST CS
           Cytochrom_c3_2  19 kkdkaveeekClsCHgkleelakktke 45 
                              kk ++v +++C++CHg+++++ ++++ 
  PHY93_14295|PHY93_14295 358 KKGEQVFSNRCQKCHGEYQKAWSAQNA 384
                              5667888999********998776664 PP

>> Haem_bd  Haem-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.0     0.026        79      38      49 ..     151     162 ..     143     165 .. 0.85
   2 ?   -2.8   0.0       1.9   5.6e+03      51      98 ..     275     322 ..     271     329 .. 0.59
   3 ?    7.2   0.0    0.0016       4.7      28      50 ..     354     376 ..     331     387 .. 0.80

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.026
                  Haem_bd  38 LeksCydCHsne 49 
                              L+ sC+ CHs++
  PHY93_14295|PHY93_14295 151 LTFSCFACHSAN 162
                              6779******87 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 1.9
                  Haem_bd  51 elpwYakiapvswlvekdvkeGrkelnfsewleyskkkkesklaeiee 98 
                               lpw++      wl +  +  G+  l    w+e   +   ++l++ ++
  PHY93_14295|PHY93_14295 275 PLPWWNLKYKTHWLADGSIVAGNPILTNILWNEIGRGADLHELENWMQ 322
                              566666666666666666666666666666666666666555555443 PP

  == domain 3  score: 7.2 bits;  conditional E-value: 0.0016
                  Haem_bd  28 lkapkevkkiLeksCydCHsnet 50 
                              l+ +k+ +++++++C++CH +  
  PHY93_14295|PHY93_14295 354 LERAKKGEQVFSNRCQKCHGEYQ 376
                              567788899**********8654 PP

>> Cytochrom_C550  Cytochrome c-550 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.1   5.8e-05      0.17      20      43 ..     351     374 ..     344     395 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 5.8e-05
                              EEEHHHHHHHHHHHHHHTHHHHGG CS
           Cytochrom_C550  20 tlseeqlkkgkklFeaeCaqCHvg 43 
                              t+  e +kkg+++F++ C++CH +
  PHY93_14295|PHY93_14295 351 TINLERAKKGEQVFSNRCQKCHGE 374
                              6677889***************65 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (557 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       425  (0.0237046); expected 358.6 (0.02)
Passed bias filter:                      400  (0.0223102); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.67u 0.24s 00:00:00.91 Elapsed: 00:00:00.48
# Mc/sec: 3458.13
//
Query:       PHY93_14300|PHY93_14300  [L=187]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.9e-23   81.7   0.0    5.4e-23   81.6   0.0    1.0  1  DNA_pol_A_exo1  3'-5' exonuclease


Domain annotation for each model (and alignments):
>> DNA_pol_A_exo1  3'-5' exonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   81.6   0.0     3e-27   5.4e-23       3     172 ..      22     185 ..      20     187 .] 0.90

  Alignments for each domain:
  == domain 1  score: 81.6 bits;  conditional E-value: 3e-27
                              EEHSHHHHHHHHHHHTTSSEEEEEEEEE-SSSTTSSEEEEEEEEECSSEEEEEECTTTTTT-HGHHHHHHHT-TTSEEEESSHHHH CS
           DNA_pol_A_exo1   3 ivtdeeeleelieelknlkvvavDtEttsldlisatlvliliqlgekeeayiidplelgddvalealkrlledenitkvghnakfD 88 
                              ++ +++e + ++  l+  + +++DtEt++         + l ql + ++a ++  + l+d   +++lk+++ede+++k+g +++ D
  PHY93_14300|PHY93_14300  22 MINKDDEIAPALDLLRLDPLIGFDTETKPSFKKGEVYIVSLLQLATPDHALLFRLHGLTD---FSLLKEFFEDETVKKIGVAIRDD 104
                              67777777777777877789************777888889999999*****99999999...9********************** PP

                              HHHHHHHHTS--SSEEEHHHHHHHTTHSTTSSHHHHHHHHHSB---GHCCTTSSTTTSSS-HHHHHHHHHHHHHTHHHHHHHHH CS
           DNA_pol_A_exo1  89 levlardfgielenlfdtmlaayvldyershsLdsLaekylgdleldkeeqiakwqkarplleeqllYAaeDadvllrlfkkLt 172
                              +++l+++f  e+++++++  +a+ ++++  ++L+ ++e++l+ l+l+k    ++w   + l ++q lYAa+Da++  +++ +L+
  PHY93_14300|PHY93_14300 105 IRALQKTFPFEPKGFVELAEMAKSNNLNN-FGLKGMTEEVLN-LTLSKRAKLSNWE-SKDLKNDQKLYAATDAWIGREIYIALK 185
                              ****************6655555566666.************.*************.**********************98886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (187 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       390  (0.0217525); expected 358.6 (0.02)
Passed bias filter:                      314  (0.0175135); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.62
# Mc/sec: 908.23
//
Query:       PHY93_06025|PHY93_06025  [L=273]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (273 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       399  (0.0222544); expected 358.6 (0.02)
Passed bias filter:                      226  (0.0126053); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.55u 0.26s 00:00:00.81 Elapsed: 00:00:00.49
# Mc/sec: 1687.17
//
Query:       PHY93_14305|PHY93_14305  [L=161]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.8e-53  180.3   8.1    3.2e-53  180.2   8.1    1.0  1  DUF520    Protein of unknown function (DUF520)
     0.0056   15.9   0.3      0.006   15.9   0.3    1.2  1  PIP5K     Phosphatidylinositol-4-phosphate 5-Kinase


Domain annotation for each model (and alignments):
>> DUF520  Protein of unknown function (DUF520)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  180.2   8.1   3.5e-57   3.2e-53       1     161 []       2     161 .]       2     161 .] 0.98

  Alignments for each domain:
  == domain 1  score: 180.2 bits;  conditional E-value: 3.5e-57
                   DUF520   1 psfDivsevdlqevknAvdqakkeistRfDfkgskaeielkekekeitltaesefklkqvkdilksklvkrgvdlkaldlgkveka 86 
                              psfD+vs++d++e+knA++ a+kei++R+Dfkgs++++elke  ++i+l a++++k+k+ ++il+ +lvkr++  +++d +kve  
  PHY93_14305|PHY93_14305   2 PSFDLVSKTDMMEMKNALQMAQKEINSRYDFKGSDTTLELKE--TSIELRADNDYKMKAALEILRGQLVKRSIGQRCIDPQKVEPS 85 
                              7***************************************66..89**************************************** PP

                   DUF520  87 sgkkvkqevklkegidkekakkivklikdsklkvqasiqgdevRvtgkkrDdLQaviallkke.dldlplqftNfr 161
                               ++++kq +++k+gidk+ka+ i+k+ik+s+lkv +si++d++R tgkk+DdLQ++ a+l+++ d+d++lq +N++
  PHY93_14305|PHY93_14305  86 GNQMMKQIINIKNGIDKDKARAINKIIKESGLKVSSSIMDDKIRLTGKKIDDLQEAFATLRAHkDVDIELQIENMK 161
                              *************************************************************977**********97 PP

>> PIP5K  Phosphatidylinositol-4-phosphate 5-Kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.3   6.7e-07     0.006      74     126 ..       9      58 ..       3     125 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 6.7e-07
                              EEEEEEEE-SS-.TTS--SEEEEE-S--TT-S--HHHHTSSS-EEEHHHHHHHS CS
                    PIP5K  74 kvrfvVmenlfp.tdkeiheryDLKGstvgReakkkeeekkektlkDlDliekk 126
                              k+ ++ m+n ++  +kei++ryD KGs +  e k+++     +   D+D + k+
  PHY93_14305|PHY93_14305   9 KTDMMEMKNALQmAQKEINSRYDFKGSDTTLELKETSI----ELRADNDYKMKA 58 
                              677788***9985667************9977775433....356777776664 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (161 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1195  (0.0666518); expected 358.6 (0.02)
Passed bias filter:                      532  (0.0296726); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.24s 00:00:00.72 Elapsed: 00:00:00.43
# Mc/sec: 1112.92
//
Query:       PHY93_14310|PHY93_14310  [L=192]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
     0.0063   15.9   1.5     0.0084   15.5   1.5    1.1  1  Syja_N         SacI homology domain
  ------ inclusion threshold ------
      0.011   14.5   1.3      0.014   14.2   1.3    1.1  1  O-antigen_lig  O-antigen ligase like membrane protein
      0.034   13.4   1.1      0.045   13.0   1.1    1.2  1  GTA_TIM        GTA TIM-barrel-like domain


Domain annotation for each model (and alignments):
>> Syja_N  SacI homology domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   1.5   1.4e-06    0.0084     248     300 ..     111     164 ..      94     185 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.4e-06
                   Syja_N 248 erseeenleafkkHfekllkrYgkvvvvnLl.ekkgrEkkLgeayekavkklnk 300
                              +r+e+e+++a k++ + l ++Yg+    n+  +++ rEk+++++y k + kl  
  PHY93_14310|PHY93_14310 111 NRNEKEKMQAYKEYHDYLRQKYGDKFSYNITdDQSAREKQINQRYLKDLLKLIG 164
                              678999*************************8888**********998888764 PP

>> O-antigen_lig  O-antigen ligase like membrane protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   1.3   2.4e-06     0.014     244     372 ..       2     143 ..       1     156 [. 0.75

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 2.4e-06
            O-antigen_lig 244 kkklllaiillvligillaiypy.spiyrrkelkekeieiksekk.............eeeeikneikenykseglk...eavleq 312
                              kkk++++i++l++ + +++++++  p+++  e++  +i+   +++                + ++e k+ny +++ +    +v+++
  PHY93_14310|PHY93_14310   2 KKKVIIIIFILLISVGWFVYRALrVPLEKVVETD-SDIKVIATNTftiappslkvhapIAGTAPEE-KKNYRVRETEdeqFEVFDK 85 
                              6777799999999999999999955666666655.5666666666789999999988844455555.7888888887665677888 PP

            O-antigen_lig 313 yeyandkqfsqellkeeveslllsnRdlqlkvlkqvyk.nadisekLfGigYsrrtniknk 372
                               e+a   + + e    +  +l l++R+  +k+ +q yk   d +++ +G ++s   ni++ 
  PHY93_14310|PHY93_14310  86 LESAWLLKAQ-EIIGADKYALYLDMRNRNEKEKMQAYKeYHDYLRQKYGDKFSY--NITDD 143
                              8888666664.44445555899*******************************9..66653 PP

>> GTA_TIM  GTA TIM-barrel-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   1.1   7.6e-06     0.045      73     163 ..      69     155 ..      57     189 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 7.6e-06
                  GTA_TIM  73 eylghqpadgsgdvafhLDplwadeaidlvgiDnYlPlsDwrdgeehldaeagaasikdkaylkaniegGekydwyYad.eedraa 157
                              +y   +++d++ +v+ +L++ w  +a +++g D Y+   D r+ +e+  ++a     + ++yl+++   G+k+ +  +d +++r++
  PHY93_14310|PHY93_14310  69 NYRVRETEDEQFEVFDKLESAWLLKAQEIIGADKYALYLDMRNRNEKEKMQA---YKEYHDYLRQKY--GDKFSYNITDdQSAREK 149
                              6888889999999999**************************9999887776...344567898764..88888877651457888 PP

                  GTA_TIM 158 qaRtpi 163
                              q+ +++
  PHY93_14310|PHY93_14310 150 QINQRY 155
                              877766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (192 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1465  (0.0817112); expected 358.6 (0.02)
Passed bias filter:                      622  (0.0346924); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.54u 0.26s 00:00:00.80 Elapsed: 00:00:00.46
# Mc/sec: 1242.97
//
Query:       PHY93_14315|PHY93_14315  [L=174]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      7e-12   45.5   0.0      1e-11   45.0   0.0    1.3  1  NUDIX     NUDIX domain


Domain annotation for each model (and alignments):
>> NUDIX  NUDIX domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.0   0.0   5.8e-16     1e-11       6     106 ..      45     143 ..      43     168 .. 0.72

  Alignments for each domain:
  == domain 1  score: 45.0 bits;  conditional E-value: 5.8e-16
                              EEEE.EEETTSEEEEEEESSSSTTT...EESSEEECBTTSHHHHHHHHHHHHHHSEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE CS
                    NUDIX   6 vgvv.llnekgevLlvrrskkpfpg...WelPgGkvepgEtpeeAArREleEEtGleaellellgrlhylapydgpygdeheilyv 87 
                              v ++ ++ e+ +++l++++ ++ ++    e+PgG v   E+   AA+REl+EEtG++ +++  lg+      ++  ++++h  +++
  PHY93_14315|PHY93_14315  45 VNIIaITPEE-KIVLIKQY-RHGSNsitTEIPGGAVNHQEDMLLAAQRELQEETGYTSKNWMSLGK----VEVNPAFMTNHCETFL 124
                              5677455555.7*******.8888865346**************************9999999994....4556666655555555 PP

                              EE.EEECSGCSSTSTTTEEE CS
                    NUDIX  88 fl.eevegelepndenevse 106
                                 +  +++++++  +e+ e
  PHY93_14315|PHY93_14315 125 AIdAMRTHDQNLDPFEEI-E 143
                              555666666666644443.3 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (174 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       323  (0.0180155); expected 358.6 (0.02)
Passed bias filter:                      275  (0.0153383); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 1204.56
//
Query:       PHY93_14320|PHY93_14320  [L=746]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    7.8e-05   23.0   2.4       0.16   12.5   0.0    4.0  4  EF-hand_7  EF-hand domain pair
    0.00026   20.3   2.2     0.0044   16.5   0.2    3.0  2  EF-hand_5  EF hand
    0.00042   20.0   3.2      0.019   14.9   0.2    4.0  4  EF-hand_6  EF-hand domain
     0.0012   18.6   3.7       0.41   10.5   0.1    4.3  4  EF-hand_8  EF-hand domain pair
     0.0017   17.7   6.1     0.0019   17.6   0.3    3.8  4  EF-hand_1  EF hand


Domain annotation for each model (and alignments):
>> EF-hand_7  EF-hand domain pair
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.3   0.1    0.0018       6.4      13      58 ..      79     161 ..      69     165 .. 0.73
   2 ?   -1.0   0.0      0.69   2.5e+03      60      69 ..     463     472 ..     456     473 .. 0.81
   3 ?   -4.0   0.0         5   1.8e+04      14      31 ..     509     526 ..     508     539 .. 0.63
   4 !   12.5   0.0   4.4e-05      0.16       4      29 ..     629     654 ..     616     678 .. 0.72

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0018
                EF-hand_7  13 tdgdgyldkeellrllrkifqga...................................gegsklsdee..lellfkefDtdkd 58 
                              ++++g++++++l  ++rk+f g                                    +  +k+ +e+  + +++ke+D  k+
  PHY93_14320|PHY93_14320  79 SRDSGSVSESDLNAFIRKFFLGQsdsivkglslifqlnmlllkdeadrisktnisplfDLLVKVNQEAiiITQVLKEMDDEKN 161
                              5689*****************99999999999999888888885555555555544443333333333667777777776665 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.69
                EF-hand_7  60 visfdEFlkl 69 
                              ++s++EF+++
  PHY93_14320|PHY93_14320 463 QVSLEEFQTF 472
                              89*****987 PP

  == domain 3  score: -4.0 bits;  conditional E-value: 5
                EF-hand_7  14 dgdgyldkeellrllrki 31 
                              +gd  ++++e  ++++ i
  PHY93_14320|PHY93_14320 509 NGDLEINVNEATEYIQMI 526
                              677778888844477665 PP

  == domain 4  score: 12.5 bits;  conditional E-value: 4.4e-05
                EF-hand_7   4 lkeaFkelDtdgdgyldkeellrllr 29 
                              +++ F  +Dt++d+ +d+ el ++++
  PHY93_14320|PHY93_14320 629 IETTFIRFDTNKDNIIDYKELVEAFK 654
                              44556666666666666666555443 PP

>> EF-hand_5  EF hand
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.1     0.041   1.5e+02      16      25 .]     464     473 ..     463     473 .. 0.87
   2 !   16.5   0.2   1.2e-06    0.0044       1      23 [.     629     651 ..     629     654 .. 0.86

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.041
                              E-HHHHHHHH CS
                EF-hand_5  16 IskeELktlv 25 
                              +s eE++t++
  PHY93_14320|PHY93_14320 464 VSLEEFQTFL 473
                              89******85 PP

  == domain 2  score: 16.5 bits;  conditional E-value: 1.2e-06
                              HHHHHHHH-SS-SSCE-HHHHHH CS
                EF-hand_5   1 lkdtFqaiDlNgDGkIskeELkt 23 
                              ++ tF ++D+N+D  I+  EL +
  PHY93_14320|PHY93_14320 629 IETTFIRFDTNKDNIIDYKELVE 651
                              5679****************954 PP

>> EF-hand_6  EF-hand domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.0     0.051   1.8e+02      13      28 ..      81      96 ..      73     104 .. 0.85
   2 ?   -3.5   0.0       4.1   1.5e+04      16      27 ..     237     248 ..     234     250 .. 0.78
   3 ?   -1.2   0.0      0.74   2.6e+03      16      27 ..     463     474 ..     457     477 .. 0.85
   4 !   14.9   0.2   5.2e-06     0.019       4      27 ..     631     654 ..     628     658 .. 0.89

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.051
                EF-hand_6 13 gdGkidaeElrkalrk 28
                             ++G+++ ++l +++rk
  PHY93_14320|PHY93_14320 81 DSGSVSESDLNAFIRK 96
                             699************7 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 4.1
                EF-hand_6  16 kidaeElrkalr 27 
                               i+ +El  ++ 
  PHY93_14320|PHY93_14320 237 VITSDELSEIIA 248
                              6999**987765 PP

  == domain 3  score: -1.2 bits;  conditional E-value: 0.74
                EF-hand_6  16 kidaeElrkalr 27 
                              +++ eE++ +l 
  PHY93_14320|PHY93_14320 463 QVSLEEFQTFLF 474
                              7999****9996 PP

  == domain 4  score: 14.9 bits;  conditional E-value: 5.2e-06
                EF-hand_6   4 eaFklfDkdgdGkidaeElrkalr 27 
                                F  fD+++d+ id++El+ a++
  PHY93_14320|PHY93_14320 631 TTFIRFDTNKDNIIDYKELVEAFK 654
                              67999****************998 PP

>> EF-hand_8  EF-hand domain pair
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.0     0.039   1.4e+02      11      32 ..     204     224 ..     203     226 .. 0.85
   2 ?    3.5   0.0     0.018        64       2      17 ..     235     250 ..     234     258 .. 0.83
   3 ?   -2.3   0.1       1.2   4.2e+03      43      52 ..     464     473 ..     462     476 .. 0.49
   4 !   10.5   0.1   0.00011      0.41      32      54 ..     633     655 ..     627     656 .. 0.85

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.039
                EF-hand_8  11 rrilrilglkkglseeevdilf 32 
                               +++++lg k+ ++++ +d+l+
  PHY93_14320|PHY93_14320 204 IEASKKLGNKE-INPDTIDSLI 224
                              67889999996.********98 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.018
                EF-hand_8   2 kgkItreelrrilril 17 
                              k +It +el++i+++l
  PHY93_14320|PHY93_14320 235 KEVITSDELSEIIAKL 250
                              789**********876 PP

  == domain 3  score: -2.3 bits;  conditional E-value: 1.2
                EF-hand_8  43 isfeEFcvll 52 
                              +s+eEF  +l
  PHY93_14320|PHY93_14320 464 VSLEEFQTFL 473
                              4555554444 PP

  == domain 4  score: 10.5 bits;  conditional E-value: 0.00011
                EF-hand_8  32 frefDtdgdGkisfeEFcvller 54 
                              f +fDt++d++i+++E ++ ++ 
  PHY93_14320|PHY93_14320 633 FIRFDTNKDNIIDYKELVEAFKL 655
                              668**************999875 PP

>> EF-hand_1  EF hand
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       1.8   6.5e+03      14      28 ..      82      96 ..      82      97 .. 0.85
   2 ?   -1.4   0.0      0.62   2.2e+03      17      29 .]     238     250 ..     236     250 .. 0.86
   3 ?    0.3   0.1      0.18   6.6e+02      16      26 ..     463     473 ..     461     476 .. 0.85
   4 !   17.6   0.3   5.3e-07    0.0019       3      27 ..     630     654 ..     628     656 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 1.8
                             SSEEEHHHHHHHHHH CS
                EF-hand_1 14 dGkIdfeEfkellkk 28
                             +G ++ +++ ++++k
  PHY93_14320|PHY93_14320 82 SGSVSESDLNAFIRK 96
                             699999999999887 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.62
                              EEHHHHHHHHHHH CS
                EF-hand_1  17 IdfeEfkellkkl 29 
                              I+ +E+ e+++kl
  PHY93_14320|PHY93_14320 238 ITSDELSEIIAKL 250
                              99*****999875 PP

  == domain 3  score: 0.3 bits;  conditional E-value: 0.18
                              EEEHHHHHHHH CS
                EF-hand_1  16 kIdfeEfkell 26 
                              ++++eEf+++l
  PHY93_14320|PHY93_14320 463 QVSLEEFQTFL 473
                              689*****998 PP

  == domain 4  score: 17.6 bits;  conditional E-value: 5.3e-07
                              HHHHHHHTTTSSSEEEHHHHHHHHH CS
                EF-hand_1   3 keiFrefDkDgdGkIdfeEfkellk 27 
                              +  F  fD+++d  Id++E++e++k
  PHY93_14320|PHY93_14320 630 ETTFIRFDTNKDNIIDYKELVEAFK 654
                              567889*****************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (746 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       599  (0.0334096); expected 358.6 (0.02)
Passed bias filter:                      372  (0.0207485); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.68u 0.29s 00:00:00.97 Elapsed: 00:00:00.48
# Mc/sec: 4710.22
//
Query:       PHY93_14325|PHY93_14325  [L=410]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
       0.24   11.5   0.1        0.5   10.5   0.1    1.5  1  Pro_Al_protease  Alpha-lytic protease prodomain


Domain annotation for each model (and alignments):
>> Pro_Al_protease  Alpha-lytic protease prodomain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.1   2.8e-05       0.5      23      47 ..     209     233 ..     202     235 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 2.8e-05
          Pro_Al_protease  23 avtaWyVDvatNkVVVtadsgvtaa 47 
                               ++a+y     NkVVV+ad++v  +
  PHY93_14325|PHY93_14325 209 NASAYYDNIVLNKVVVEADPTVNHH 233
                              66777888888**********9766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (410 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       407  (0.0227007); expected 358.6 (0.02)
Passed bias filter:                      300  (0.0167327); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.25s 00:00:00.78 Elapsed: 00:00:00.44
# Mc/sec: 2786.74
//
Query:       PHY93_14330|PHY93_14330  [L=370]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
     0.0049   17.6   0.1      0.035   14.9   0.0    2.4  2  TPR_14          Tetratricopeptide repeat
  ------ inclusion threshold ------
       0.03   14.7   0.0      0.099   13.1   0.0    1.9  1  TPR_17          Tetratricopeptide repeat
       0.05   14.1   0.2       0.05   14.1   0.2    2.5  3  TPR_19          Tetratricopeptide repeat
       0.05   14.3   0.0       0.11   13.2   0.0    1.6  1  TPR_16          Tetratricopeptide repeat
      0.078   13.7   0.2         23    5.9   0.0    2.9  3  TPR_6           Tetratricopeptide repeat
       0.23   11.0   6.0       0.52    9.8   6.0    1.6  1  CDC13_N         Cell division control protein 13 N-terminus
        0.4   10.8  11.0      0.038   14.1   4.3    2.6  3  DHR10           Designed helical repeat protein 10 domain
          3    8.3  11.6       0.24   11.8   1.7    2.6  2  Syntaxin_2      Syntaxin-like protein


Domain annotation for each model (and alignments):
>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.0       2.1   4.6e+03      21      38 ..     138     155 ..     123     159 .. 0.76
   2 !   14.9   0.0   1.6e-05     0.035       4      39 ..     318     352 ..     315     357 .. 0.88

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 2.1
                   TPR_14  21 iallrralalaPddaeaw 38 
                              i+++++++++ P+   a+
  PHY93_14330|PHY93_14330 138 IEMADEIISREPNTYSAY 155
                              789999999999877666 PP

  == domain 2  score: 14.9 bits;  conditional E-value: 1.6e-05
                   TPR_14   4 llalaeallalGdpdeAiallrralalaPddaeawl 39 
                              ++ l++ l+ +G++d+Ai++ ++a  l P+d+ a+l
  PHY93_14330|PHY93_14330 318 YYYLVKSLELQGRTDDAIRVIEEA-TLSPEDQSALL 352
                              899*********************.789*9998876 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   4.4e-05     0.099       5      33 ..     307     335 ..     304     336 .. 0.94

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 4.4e-05
                   TPR_17   5 aleldPnnadaynnLAelllknGdlmtAr 33 
                              ++e+ Pn++  y++L + l+ +G++++A+
  PHY93_14330|PHY93_14330 307 FIEQFPNSPIGYYYLVKSLELQGRTDDAI 335
                              79*************************97 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0       1.9   4.3e+03      40      67 ..     133     158 ..     127     159 .. 0.67
   2 ?   -2.9   0.1       4.4     1e+04      56      65 ..     236     245 ..     231     247 .. 0.47
   3 ?   14.1   0.2   2.2e-05      0.05       1      59 [.     291     350 ..     291     358 .. 0.89

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 1.9
                   TPR_19  40 qldeAealLdalpeedpdd.aryasLlAk 67 
                              ++d+ +++ d++   +p++ ++y   +Ak
  PHY93_14330|PHY93_14330 133 EVDKNIEMADEIISREPNTySAY---KAK 158
                              56666788889999999944444...444 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 4.4
                   TPR_19  56 pddaryasLl 65 
                              + +++y+ L+
  PHY93_14330|PHY93_14330 236 KSSPEYQELQ 245
                              3335555554 PP

  == domain 3  score: 14.1 bits;  conditional E-value: 2.2e-05
                   TPR_19   1 llaegdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeedpdd.a 59 
                              lla +dy++  +  ++ +++ p+++   ++L++ l  +g++d+A+++++++ ++  d+ a
  PHY93_14330|PHY93_14330 291 LLAKNDYDAVNENAQSFIEQFPNSPIGYYYLVKSLELQGRTDDAIRVIEEATLSPEDQsA 350
                              68899999999999999999******************************9999888524 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   4.8e-05      0.11       7      65 ..     291     345 ..     288     348 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 4.8e-05
                   TPR_16   7 alragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraalraap 65 
                              +l+ +dyd+  + ++ +++++   P  +  +++l  ++  qgr ++A+ ++++a + +p
  PHY93_14330|PHY93_14330 291 LLAKNDYDAVNENAQSFIEQF---PNSPIGYYYLVKSLELQGRTDDAIRVIEEA-TLSP 345
                              7888999999999********...99999*******************999998.6666 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0       7.4   1.6e+04      21      33 .]     139     151 ..     134     151 .. 0.83
   2 ?    4.6   0.0     0.027        61      15      33 .]     296     314 ..     289     314 .. 0.75
   3 ?    5.9   0.0      0.01        23       3      24 ..     318     339 ..     317     343 .. 0.88

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 7.4
                              HHHHHHHHH-TT- CS
                    TPR_6  21 ealerlikeYPdS 33 
                              e+ +++i++ P++
  PHY93_14330|PHY93_14330 139 EMADEIISREPNT 151
                              6778999999996 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.027
                              HHHHHHHHHHHHHHH-TT- CS
                    TPR_6  15 dtdkAlealerlikeYPdS 33 
                              d+d+  e  +++i+++P+S
  PHY93_14330|PHY93_14330 296 DYDAVNENAQSFIEQFPNS 314
                              5555556789********9 PP

  == domain 3  score: 5.9 bits;  conditional E-value: 0.01
                              HHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   3 lyklalsyrklgdtdkAleale 24 
                              +y+l +s++ +g+td+A++  e
  PHY93_14330|PHY93_14330 318 YYYLVKSLELQGRTDDAIRVIE 339
                              799***************9766 PP

>> CDC13_N  Cell division control protein 13 N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   6.0   0.00023      0.52      59     193 ..     104     251 ..      94     269 .. 0.76

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00023
                              EEE--SHHHHHHHHHHHHHHHHHTT-----ST----EEE--GGGT---EEEEEEEEEEETTEEEEEEEEEEE--HHHHHHHTHH-- CS
                  CDC13_N  59 klkcknseserlarmtisllcqkfdldipeldsestfiledihlekLCfvkckglyvsneeksslyledikpldlssaiklatekk 144
                               ++  ++++e+la+   + ++   +ld++e+d++ ++  e i  e   +   k++ +s   k s + ++i   dl++++++++  +
  PHY93_14330|PHY93_14330 104 EIPITDQTTEQLAKKITQNMLGINNLDLAEVDKNIEMADEIISREPNTYSAYKAKLISMIVKESKFNQNIDEYDLNKVLDNMAGFE 189
                              56778999*************************************************************************99999 PP

                              -----...............HHHHHHHHHHHHHHHHSTTSS--GGGSTT--HHHHHHHHHHCTT CS
                  CDC13_N 145 eklss...............kktiskifdnLikldkdskseFkfvkLenydtelkefiqerqek 193
                               ++                    +s+ +d++  l ++   + ++  L+++  e +e++ + +++
  PHY93_14330|PHY93_14330 190 VNSDMaarreaaliattsnqLIALSNTLDDISILKDE--ISTQSSALDKSSPEYQELQLQNEQL 251
                              8876588898666655543222233334443333333..4445666666666666654333333 PP

>> DHR10  Designed helical repeat protein 10 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.1      0.54   1.2e+03      39      58 ..      58      77 ..      32      86 .. 0.48
   2 ?   -3.0   0.1       3.2   7.3e+03      52      61 ..     112     121 ..      98     145 .. 0.52
   3 ?   14.1   4.3   1.7e-05     0.038      45     100 ..     213     268 ..     193     271 .. 0.88

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.54
                    DHR10 39 iklleeieaelakleeakkk 58
                              +l +e  + ++k+  a k+
  PHY93_14330|PHY93_14330 58 SRLTQESIDSINKQAAATKN 77
                             44444444444444444443 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 3.2
                    DHR10  52 leeakkklke 61 
                              +e+  kk+++
  PHY93_14330|PHY93_14330 112 TEQLAKKITQ 121
                              3333333333 PP

  == domain 3  score: 14.1 bits;  conditional E-value: 1.7e-05
                    DHR10  45 ieaelakleeakkklkelrdaleekeielrelerkeerlqrqlenaeeklerlreq 100
                              +++ l      k++++ ++ al++ + e +el+ + e+l ++ + a+e le l+++
  PHY93_14330|PHY93_14330 213 LSNTLDDISILKDEISTQSSALDKSSPEYQELQLQNEQLLQREQVATENLENLQNN 268
                              56666777778999***************************************986 PP

>> Syntaxin_2  Syntaxin-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   1.7   0.00011      0.24       2      78 ..      62     148 ..      61     163 .. 0.88
   2 ?    0.9   2.7      0.27   6.1e+02       2      61 ..     207     267 ..     197     285 .. 0.50

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00011
               Syntaxin_2   2 ssnlqkinsnvstleklvkqLgtkkd..........teelreklhelieeinelikktnellkklsqldnsssdsqqklqkekLkk 77 
                              ++++ +in++    ++  k+  t++d            +l +++  + + + +l+kk+++++  +++ld  + d++  ++ e +++
  PHY93_14330|PHY93_14330  62 QESIDSINKQAAATKNNSKTMTTPTDtatpnptltpVVKLINEIPITDQTTEQLAKKITQNMLGINNLDLAEVDKNIEMADEIISR 147
                              6899**********************888877777777777****************************99988877777777777 PP

               Syntaxin_2  78 d 78 
                              +
  PHY93_14330|PHY93_14330 148 E 148
                              6 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.27
               Syntaxin_2   2 ssnlqkinsnvstleklvkqLgtkk.dteelreklhelieeinelikktnellkklsqldn 61 
                              s++l  +++ +  +  l + ++t+    ++   + +el+ +  +l+++ +   ++l++l+n
  PHY93_14330|PHY93_14330 207 SNQLIALSNTLDDISILKDEISTQSsALDKSSPEYQELQLQNEQLLQREQVATENLENLQN 267
                              4555555555555555555555552122222222233333333333333333333333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (370 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1271  (0.0708907); expected 358.6 (0.02)
Passed bias filter:                      528  (0.0294495); expected 358.6 (0.02)
Passed Vit filter:                        55  (0.00306766); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.64u 0.27s 00:00:00.91 Elapsed: 00:00:00.48
# Mc/sec: 2322.93
//
Query:       PHY93_14335|PHY93_14335  [L=267]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (267 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       353  (0.0196888); expected 358.6 (0.02)
Passed bias filter:                      232  (0.0129399); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1736.30
//
Query:       PHY93_02905|PHY93_02905  [L=144]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.9e-12   46.9   0.0    3.5e-12   46.6   0.0    1.1  1  Acetyltransf_1   Acetyltransferase (GNAT) family
    7.1e-11   42.4   0.0    1.1e-10   41.7   0.0    1.3  1  Acetyltransf_7   Acetyltransferase (GNAT) domain
      9e-11   41.8   0.0    1.2e-10   41.4   0.0    1.1  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
    0.00045   20.3   0.0      0.001   19.1   0.0    1.6  1  Acetyltransf_9   Acetyltransferase (GNAT) domain
    0.00068   19.5   0.0     0.0096   15.8   0.0    2.0  1  Acetyltransf_18  Acetyltransferase (GNAT) domain
     0.0007   19.8   0.1     0.0008   19.6   0.1    1.0  1  Acetyltransf_4   Acetyltransferase (GNAT) domain
    0.00096   19.1   0.0     0.0028   17.6   0.0    1.6  2  FR47             FR47-like protein
     0.0037   17.4   0.0     0.0059   16.7   0.0    1.3  1  Acetyltransf_CG  GCN5-related N-acetyl-transferase
     0.0042   16.8   0.0     0.0044   16.8   0.0    1.3  1  PanZ             Acetyltransferase (GNAT) domain, PanZ
  ------ inclusion threshold ------
       0.03   14.3   0.0      0.052   13.5   0.0    1.4  1  Acetyltransf_13  ESCO1/2 acetyl-transferase
       0.04   14.6   0.0      0.047   14.4   0.0    1.1  1  Acetyltransf_3   Acetyltransferase (GNAT) domain
       0.22   12.6   1.1       0.67   11.0   0.2    2.0  2  DUF3298          Protein of unknown function (DUF3298)


Domain annotation for each model (and alignments):
>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.6   0.0   2.3e-15   3.5e-12      15     117 .]      26     132 ..      14     132 .. 0.78

  Alignments for each domain:
  == domain 1  score: 46.6 bits;  conditional E-value: 2.3e-15
                              HHHHHHHHHHHHHHHSTTC..EEEEEEETTEEEEEEEEEEEET..TSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHTTESE CS
           Acetyltransf_1  15 pnedaseeefeesfsleae..gllvaeedgeliGfisllkipd..ekggvayieslaVspeyrgkGlGsaLlealeerareegikk 96 
                               +e ++ +e + s +l  +   ++ ae++  ++Gf +l++     + g ++++++l+V+pe+r+k ++ +L+++ +++a+e  +  
  PHY93_02905|PHY93_02905  26 RHEIDPNAENFLSERLSKNesVIFYAEDESGVLGFTQLYPGFSsrNLGSTWILNDLFVKPEARRKKIAWKLIDESVKHAKETKAVL 111
                              3444455553333333333114444777777*****99999999977999********************************8877 PP

                              EEEEEETTEHHHHHHHHHTTE CS
           Acetyltransf_1  97 ivlaveedndaairlYeklGF 117
                              i l ++  n  +++lY+k GF
  PHY93_02905|PHY93_02905 112 IGLSTQIANADSQELYKKYGF 132
                              899*************88**9 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.7   0.0   7.7e-14   1.1e-10       4      76 .]      47     134 ..      44     134 .. 0.73

  Alignments for each domain:
  == domain 1  score: 41.7 bits;  conditional E-value: 7.7e-14
                              EEEEEEETTEEEEEEEEEEES.......TCTEE.EEE-GGGTTSSHHHHHHHH.....TT.SEEEEE.EEEETHHHHHHHHHHTTE CS
           Acetyltransf_7   4 evfVaeddgkivGfialslld.......aeitr.laVdpeyrgkGiGraLlea.....ae.kgiile.qlelnaekaikfYeklGF 74 
                               +f aed+ +++Gf  l++         ++i + l+V+pe+r+k i+ +L++      +e k + +   ++ ++  ++++Y+k+GF
  PHY93_02905|PHY93_02905  47 VIFYAEDESGVLGFTQLYPGFssrnlgsTWILNdLFVKPEARRKKIAWKLIDEsvkhaKEtKAVLIGlSTQIANADSQELYKKYGF 132
                              4566**********99999989999888666668*****************9644433112222222333343337899******* PP

                              EE CS
           Acetyltransf_7  75 ee 76 
                              ++
  PHY93_02905|PHY93_02905 133 KK 134
                              95 PP

>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.4   0.0   8.3e-14   1.2e-10      11     116 ..      22     142 ..      11     142 .. 0.82

  Alignments for each domain:
  == domain 1  score: 41.4 bits;  conditional E-value: 8.3e-14
          Acetyltransf_10  11 etf.kefisp...ealrerieegealllvaeeggkivGvielrdgs.........hisllfVdpeyrgqGigkaLleaveeeaekd 83 
                              ++f ++ i+p   + l+er++++e +++ ae++  ++G+ +l+ g           +  lfV+pe+r+++i+ +L+++  ++a++ 
  PHY93_02905|PHY93_02905  22 RQFyRHEIDPnaeNFLSERLSKNESVIFYAEDESGVLGFTQLYPGFssrnlgstwILNDLFVKPEARRKKIAWKLIDESVKHAKET 107
                              556666666655233567779*******************8744444777889989***************************888 PP

          Acetyltransf_10  84 gikl.eltvnasp.yavpfYeklGFkavgeeqeen 116
                              +  l  l+ + ++   +++Y+k+GFk+ ++ + +n
  PHY93_02905|PHY93_02905 108 KAVLiGLSTQIANaDSQELYKKYGFKKDNDLFHFN 142
                              8887866666666699***********99988775 PP

>> Acetyltransf_9  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   6.9e-07     0.001      30     126 ..      32     133 ..       2     134 .. 0.63

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 6.9e-07
                              HHHHHHHHHHTTSEEEEEEETTE..EEEEEEEEEEEEEETTEEEEEE.EEEEEEE-CCGTTS-HHHHHHHHHHHHHHHTT--EEEE CS
           Acetyltransf_9  30 eireyfrklleesrvlgaednge..lvgqlallplelnvpGktlkaa.gvtgVavapehrgrgvlskLlaraleemreegqplsll 112
                               ++++++++l++++ ++ + ++e  + g  +l+p    +  ++l     + +  v+pe r+++++ kL+++++++++e ++ l+ l
  PHY93_02905|PHY93_02905  32 NAENFLSERLSKNESVIFYAEDEsgVLGFTQLYP---GFSSRNLGSTwILNDLFVKPEARRKKIAWKLIDESVKHAKETKAVLIGL 114
                              4556666666665544444333311444444444...33333333320345789**************************999999 PP

                              --.....SSHHHHHTTT-E CS
           Acetyltransf_9 113 fP.....ssipiYrrfGye 126
                                      s ++Y+++G++
  PHY93_02905|PHY93_02905 115 STqianaDSQELYKKYGFK 133
                              88776655679******97 PP

>> Acetyltransf_18  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.0   6.4e-06    0.0096      14     103 ..      34     136 ..      32     139 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 6.4e-06
          Acetyltransf_18  14 skfLkrrlkqaeqklvvveedgeivGyglarktrkglkiG......Plv....AeneeiAeaLlkalvanaeg.kkvridvpee.. 86 
                              ++fL++rl+  e+++++ e+++ ++G+  ++++ +   +G       l+    A+ ++iA +L+++ v++a++ k v i ++++  
  PHY93_02905|PHY93_02905  34 ENFLSERLSKNESVIFYAEDESGVLGFTQLYPGFSSRNLGstwilnDLFvkpeARRKKIAWKLIDESVKHAKEtKAVLIGLSTQia 119
                              689999999999999999999999999877666555444411111155566669999************99996778887777666 PP

          Acetyltransf_18  87 nkalielleklgfkevf 103
                              n+  +el +k+gfk+ +
  PHY93_02905|PHY93_02905 120 NADSQELYKKYGFKKDN 136
                              9999**********986 PP

>> Acetyltransf_4  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   0.1   5.4e-07    0.0008       2     137 ..       4     135 ..       3     141 .. 0.71

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 5.4e-07
           Acetyltransf_4   2 raateeDakeilaiyaeyvvntaitfeyevssveefekfleal.dsekeyvflvae.sdrivGyaylgqfkkrakdwkaelsvyla 85 
                              + a ++D  +il + + y+        y ++    +e fl+++  + ++ +f +++ s+ +  ++ + +f +r     ++l  +++
  PHY93_02905|PHY93_02905   4 KKAILADVSKILPLFHAYRQ------FYRHEIDPNAENFLSERlSKNESVIFYAEDeSGVLGFTQLYPGFSSRNLGSTWILNDLFV 83 
                              56666777777777776433......344444455666777763334566666666366666666667*****8888888887777 PP

           Acetyltransf_4  86 erdnnkeglgrelidaleqvlkeqnienllaeiaspnensiqfhkalGFelv 137
                              +  ++ + ++ +lid  ++ +ke     +  ++  +n+ s++++k+ GF++ 
  PHY93_02905|PHY93_02905  84 KPEARRKKIAWKLIDESVKHAKETKAVLIGLSTQIANADSQELYKKYGFKKD 135
                              67899999**9**********877766666666666*************985 PP

>> FR47  FR47-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.0       1.6   2.4e+03      20      40 ..      54      74 ..      43      78 .. 0.79
   2 !   17.6   0.0   1.9e-06    0.0028      24      80 ..      78     135 ..      74     140 .. 0.89

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 1.6
                             TTSSEEEEEE-GGG-SSSHHH CS
                     FR47 20 dggelgalqvlpehrrrGlgs 40
                             ++g lg  q+ p +  r lgs
  PHY93_02905|PHY93_02905 54 ESGVLGFTQLYPGFSSRNLGS 74
                             568899999999888888886 PP

  == domain 2  score: 17.6 bits;  conditional E-value: 1.9e-06
                              EEEEEE-GGG-SSSHHHHHHHHHHHHHHH.S-S-EEEEEETT-HHHHHHHHHHT-EEE CS
                     FR47  24 lgalqvlpehrrrGlgsrlvkalakeiae.rgktvllvvvasNtpsirlyeklGfeki 80 
                              l  l v+pe+rr+  + +l+ +  k+  e +   + l ++++N  s++ly+k Gf+k+
  PHY93_02905|PHY93_02905  78 LNDLFVKPEARRKKIAWKLIDESVKHAKEtKAVLIGLSTQIANADSQELYKKYGFKKD 135
                              66789***************9999998886777788999*****************97 PP

>> Acetyltransf_CG  GCN5-related N-acetyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.0   3.9e-06    0.0059      13      57 ..      56     108 ..      47     120 .. 0.76

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 3.9e-06
          Acetyltransf_CG  13 afleYe........vrkegvldfthTeVpeelrGkGiAkkLvkaalddareeg 57 
                              ++l ++        ++ + +++++  +V++e r+k iA kL+++ +++a+e++
  PHY93_02905|PHY93_02905  56 GVLGFTqlypgfssRNLGSTWILNDLFVKPEARRKKIAWKLIDESVKHAKETK 108
                              445554344555544445599*****************************986 PP

>> PanZ  Acetyltransferase (GNAT) domain, PanZ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   2.9e-06    0.0044      59     127 ..      73     139 ..       6     140 .. 0.86

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 2.9e-06
                     PanZ  59 dkeaelsdlcVRevTRrRGVgsyLleearrqaPevkswvlaeedvkeldlavlqaflealgfaaesegy 127
                              ++++ l+dl V+ + Rr+ ++ +L++e  ++a e k+  +  ++  ++ +a  q++ ++ gf+++++++
  PHY93_02905|PHY93_02905  73 GSTWILNDLFVKPEARRKKIAWKLIDESVKHAKETKAVLIGLST--QIANADSQELYKKYGFKKDNDLF 139
                              468**************************999665555554444..45668889999999999988876 PP

>> Acetyltransf_13  ESCO1/2 acetyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   3.5e-05     0.052       9      33 ..      80     104 ..      77     121 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 3.5e-05
          Acetyltransf_13   9 riWvssshRrkgiAtkLldaarenf 33 
                               ++v++++Rrk+iA kL+d  +++ 
  PHY93_02905|PHY93_02905  80 DLFVKPEARRKKIAWKLIDESVKHA 104
                              689****************988875 PP

>> Acetyltransf_3  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0   3.1e-05     0.047      52     138 .]      45     133 ..      11     133 .. 0.69

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 3.1e-05
           Acetyltransf_3  52 egygwaivlkdtgviGsvglrdleeedee.......aelgymlapsfwgkGyateavralleyafeelglerlvavidkeNeaSir 130
                              e++ +   + ++gv+G+  l+   +   +       +  ++ ++p++++k +a       +++a +e+++  +   ++  N  S+ 
  PHY93_02905|PHY93_02905  45 ESVIFYA-EDESGVLGFTQLY---PGFSSrnlgstwILNDLFVKPEARRKKIAWKLIDESVKHA-KETKAVLIGLSTQIANADSQE 125
                              3333333.3444456666555...33323234555355557788999*****************.6666889************** PP

           Acetyltransf_3 131 vleklGfe 138
                              +++k Gf+
  PHY93_02905|PHY93_02905 126 LYKKYGFK 133
                              *******7 PP

>> DUF3298  Protein of unknown function (DUF3298)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.0       1.2   1.8e+03      54      65 ..      41      52 ..       4      65 .. 0.66
   2 ?   11.0   0.2   0.00045      0.67       1      64 [.      79     142 ..      79     143 .. 0.88

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 1.2
                             EETTEEEEEE-T CS
                  DUF3298 54 ltddglviyfpp 65
                             l++++ vi++ +
  PHY93_02905|PHY93_02905 41 LSKNESVIFYAE 52
                             344444555544 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.00045
                              HHCBSSCT.HHHHHH.HHHHHHHHHHTCH-TTS-HCCCCTT.TTTSS-TTTSSEEEETTEEEEEE- CS
                  DUF3298   1 sdLfkegsaylqrla.kiikeqikkenekqqedeyaglper.rdkedilgyqnfyltddglviyfp 64 
                              +dLf + +a  +++a k+i e +k ++e+     + gl ++ ++ + ++ y+ + +++d+  ++f+
  PHY93_02905|PHY93_02905  79 NDLFVKPEARRKKIAwKLIDESVKHAKETKA--VLIGLSTQiANADSQELYKKYGFKKDNDLFHFN 142
                              5999999999999999*******99997544..7777777799**********************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (144 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       499  (0.027832); expected 358.6 (0.02)
Passed bias filter:                      393  (0.0219198); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.50u 0.26s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 952.54
//
Query:       PHY93_02910|PHY93_02910  [L=226]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.1e-19   71.0   1.3    1.5e-19   70.6   1.3    1.0  1  DeoC          DeoC/LacD family aldolase
    5.2e-05   22.8   0.1       0.23   10.9   0.0    2.9  3  AP_endonuc_2  Xylose isomerase-like TIM barrel
     0.0056   15.8   0.7     0.0082   15.3   0.7    1.2  1  Dus           Dihydrouridine synthase (Dus)
  ------ inclusion threshold ------
       0.14   12.2   0.0       0.19   11.7   0.0    1.3  1  PapC_N        PapC N-terminal domain


Domain annotation for each model (and alignments):
>> DeoC  DeoC/LacD family aldolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.6   1.3   3.3e-23   1.5e-19      20     233 ..      21     218 ..      12     220 .. 0.85

  Alignments for each domain:
  == domain 1  score: 70.6 bits;  conditional E-value: 3.3e-23
                              SSHHHHHHHHHHHHHHGGGSSEEEEET...TTHHHHHHCSCTTSEEEEETECSSCCTTSTTEEEETTCHHHHHHHTT-SEEEEEEE CS
                     DeoC  20 qneqledlkalvkealtpgasavlldp...gviasaskeyakdiallvkldkgtyllkskqrdvdevasveeakalGAdavkvvvy 102
                              +++  e++ +l++ea + +  +v+++p   +++ s+ ++ + ++ ++++++ g   +++k      v ++++a+++GA ++++v++
  PHY93_02910|PHY93_02910  21 PEATREQILKLCEEARSHNFFSVCINPfnvQYASSYLVGCDVKVCTVIGFPLGANTTETK------VFETKQAIKDGAHEIDMVIN 100
                              3344569999***************99444566666666677*********999999999......99****************** PP

                              EHTTTTCHHHHHHHHHHHHHHHHHHHTEEEEEE.EEE-CTTBSSTTCHHHHHHHHHHHHTCCT-SEEEE--SSCC.B.HHHHHHHH CS
                     DeoC 103 yradgseeeqqklaeikrvkeacheeglplile.lylrdeaikdekvdpdlvaeAarvsaelGaDiiKvevpkevvnateedaevf 187
                              + a + +++  + ++ik+v  a+++   ++ile ++l d +         +  +A ++++++Ga ++K++++     at ed++ +
  PHY93_02910|PHY93_02910 101 IGAIKNKDWDYVKQDIKAVVNAAEKKIVKVILEtCLLNDVE---------K-IKACEMASQAGAHFVKTSTGFSTSGATLEDVQLM 176
                              *********************************99999998.........4.578999**************999*********** PP

                              HHHHHCHSSTEEEEETTSSHHHHHHHHHHHHH..HHTH..CEEEESHHHH CS
                     DeoC 188 kdvikaapvpgvvlsGGvseedfletvedAvk..eaga..sGvlsGRaif 233
                              k+ i   +++ v+ sGGv      + +  A +  +aga   G +sG ai+
  PHY93_02910|PHY93_02910 177 KRNILP-NME-VKASGGV------RDLASAKAfmAAGAtrLGTSSGIAIL 218
                              ****95.488.*******......55555554457788778888887775 PP

>> AP_endonuc_2  Xylose isomerase-like TIM barrel
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.9   0.0   5.1e-05      0.23     140     168 ..      25      53 ..      12      98 .. 0.81
   2 !    7.2   0.0   0.00067         3     102     132 ..     105     135 ..      95     143 .. 0.89
   3 ?    1.2   0.0     0.046   2.1e+02      74     112 ..     144     179 ..     140     193 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 5.1e-05
                              TCHHHHHHHHHHTTTT.EEEEEEHHHHHHH CS
             AP_endonuc_2 140 gdeelarlldavdspn.vgvclDtgHllia 168
                              + e++++l+++ +s+n + vc+++++ ++a
  PHY93_02910|PHY93_02910  25 R-EQILKLCEEARSHNfFSVCINPFNVQYA 53 
                              3.9************************998 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.00067
                              HHHHHHHHHHHHHHHHHHHHHHTSEEEEE-- CS
             AP_endonuc_2 102 eeeawerlaeslneladyaekegvklalEtl 132
                              ++ +w+ + +++++++  aek+ vk++lEt+
  PHY93_02910|PHY93_02910 105 KNKDWDYVKQDIKAVVNAAEKKIVKVILETC 135
                              5689*************************97 PP

  == domain 3  score: 1.2 bits;  conditional E-value: 0.046
                              HHHHHHHHHTBSEEEEEBCCGBCTTTSGHHHHHHHHHHH CS
             AP_endonuc_2  74 raielaaaLGapllvlhpGtagagpkgseeeawerlaes 112
                              +a+e+a++ Ga+++ + +G   +  +g   e+++++ ++
  PHY93_02910|PHY93_02910 144 KACEMASQAGAHFVKTSTG---FSTSGATLEDVQLMKRN 179
                              799**************99...67776666777666665 PP

>> Dus  Dihydrouridine synthase (Dus)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.7   1.8e-06    0.0082      98     206 ..     100     205 ..      82     209 .. 0.89

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 1.8e-06
                              EEGGGGGGSHHHHHHHHHHHHCCSS...S-EEEEEESESSTTTC.HHHHHHHHHHCT-SEEEEESSECCCTT-CG--CHHHHHHHH CS
                      Dus  98 gaGaaLlrkpdlvaqivkavvkave...iPvtvkirigiddeeenalelakiveaaGaqaltvHgRtraqnyegtadweaIkevkq 180
                              ++Ga   +++d v+q +kavv+a e   ++v +++ +  d e   ++++++++++aGa ++     t   +++  a +e+++ +k+
  PHY93_02910|PHY93_02910 100 NIGAIKNKDWDYVKQDIKAVVNAAEkkiVKVILETCLLNDVE---KIKACEMASQAGAHFV----KTSTGFSTSGATLEDVQLMKR 178
                              57889999*****************88888888888888844...56899999******99....699999999************ PP

                              H-S..S-EEEESS--SHHHHHHHHHHH- CS
                      Dus 181 avs..ipviaNGdIkdaedaqaileetG 206
                              ++     v a G+++d+ +a+a ++  G
  PHY93_02910|PHY93_02910 179 NILpnMEVKASGGVRDLASAKAFMAA-G 205
                              *9889*****************9987.4 PP

>> PapC_N  PapC N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   4.2e-05      0.19      12      54 ..      74     124 ..      70     187 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 4.2e-05
                              THHHHHHHHHTT-SS-SEEEEEEEEETTEEEEEEEEEEEECC........T CS
                   PapC_N  12 asnvdlsrFskgnavlpGeYrvdvyvNgkeigrqevefkaek........k 54 
                              a++++++ F++++a+ +G +++d+++N   i++++ ++++++        +
  PHY93_02910|PHY93_02910  74 ANTTETKVFETKQAIKDGAHEIDMVINIGAIKNKDWDYVKQDikavvnaaE 124
                              5678899****************************9998876444332222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (226 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       646  (0.036031); expected 358.6 (0.02)
Passed bias filter:                      421  (0.0234815); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.51u 0.27s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 1493.87
//
Query:       PHY93_02915|PHY93_02915  [L=261]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.2e-11   44.4   0.4    2.4e-11   43.5   0.4    1.5  1  HisKA       His Kinase A (phospho-acceptor) domain
  ------ inclusion threshold ------
      0.027   15.0   0.1      0.044   14.3   0.1    1.4  1  HATPase_c   Histidine kinase-, DNA gyrase B-, and HSP90-like 
       0.13   12.1   0.1       0.22   11.3   0.1    1.3  1  VirB8       VirB8 protein
        1.7    8.6   5.3       0.34   10.8   0.8    2.0  2  LapA_dom    Lipopolysaccharide assembly protein A domain
        7.4    6.2   5.6       0.92    9.1   0.2    2.0  2  SLC3A2_N    Solute carrier family 3 member 2 N-terminus


Domain annotation for each model (and alignments):
>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.5   0.4   6.6e-15   2.4e-11       3      66 ..      99     162 ..      97     163 .. 0.94

  Alignments for each domain:
  == domain 1  score: 43.5 bits;  conditional E-value: 6.6e-15
                              HHHHHHHHHHHHHHHHHHHHHHHHHHC..T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHHH CS
                    HisKA   3 grflagvaHELrtPLsailgnaeaLkregklteelkeyletiesearrldhlvedlLdlsriea 66 
                              + f+ g  HEL+tP++++++++e+ +r++  ++e+ +yle +++ + rl + v+++L l+r+e 
  PHY93_02915|PHY93_02915  99 QNFINGFTHELKTPIASLQLFLETFSRHELPRDEQLKYLEYMRRDTVRLADNVNRILNLGRLED 162
                              7899***********************977789****************************985 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.1   1.2e-05     0.044       6      53 ..     212     260 ..     207     261 .] 0.79

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.2e-05
                              HHHHHHHHHHHHHHHHS.TTTEEEEEEEEEETEEEEEEEESSSSSTTHH CS
                HATPase_c   6 LrqiisnlvdNavkfat.kageieveikaseddlvisveDnGiGipked 53 
                              ++ ++ nl++N++ +++ k++++e++++ +++++ +  +DnG G++k++
  PHY93_02915|PHY93_02915 212 FEMLLMNLITNSLIYNKsKEKTVEINLSIHDNTIFLDFKDNGMGLDKSQ 260
                              567899*********444777777777766789999********99876 PP

>> VirB8  VirB8 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.1   6.2e-05      0.22      11      54 ..      55      99 ..      51     115 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 6.2e-05
                             XXXXXXXXXXXXXXXXXXXXXXXXXX.XXXXXXXXXXXXXX.XXX CS
                    VirB8 11 gsarvqarnwrlvafvslliavlavg.avvlllplktvePyvvev 54
                             ++ ++q+ +w lv  +sll+av+++g  ++++  +k ++ y  + 
  PHY93_02915|PHY93_02915 55 SQSMMQTETWVLVLTLSLLVAVILTGlLIIYIYYQKMIQLYRLQQ 99
                             57799*********************9999999999998886665 PP

>> LapA_dom  Lipopolysaccharide assembly protein A domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.3       0.6   2.2e+03      18      32 ..      15      30 ..      10      44 .. 0.65
   2 ?   10.8   0.8   9.4e-05      0.34      20      54 ..      65      99 ..      59     101 .. 0.95

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.6
                 LapA_dom 18 pLsllllvafgiGa.l 32
                             pL + ++  +++G  l
  PHY93_02915|PHY93_02915 15 PLFVFIFSLLALGSsL 30
                             6777777777777533 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 9.4e-05
                 LapA_dom 20 sllllvafgiGallgwllslwsylrlrrelrrlkk 54
                             +l+l +++++ ++l++ll ++ y ++ ++l rl++
  PHY93_02915|PHY93_02915 65 VLVLTLSLLVAVILTGLLIIYIYYQKMIQLYRLQQ 99
                             699******************************98 PP

>> SLC3A2_N  Solute carrier family 3 member 2 N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   0.2   0.00026      0.92      26      58 ..       2      34 ..       1      45 [. 0.91
   2 ?   -1.5   1.1      0.54   1.9e+03      45      57 ..      64      76 ..      59      89 .. 0.54

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.00026
                 SLC3A2_N 26 ndPfWvrvRwlllilfwlvwlgmLvgaiviivq 58
                             n+P+ ++ Rw+   lf +++ ++ +g+ +ii+ 
  PHY93_02915|PHY93_02915  2 NTPIMIKSRWFYHPLFVFIFSLLALGSSLIIYI 34
                             799***************************986 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.54
                 SLC3A2_N 45 wlgmLvgaiviiv 57
                             w+++L  +++++v
  PHY93_02915|PHY93_02915 64 WVLVLTLSLLVAV 76
                             4444444444433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (261 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1244  (0.0693848); expected 358.6 (0.02)
Passed bias filter:                      511  (0.0285013); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.45
# Mc/sec: 1728.66
//
Query:       PHY93_06030|PHY93_06030  [L=412]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.9e-11   41.5   0.0    1.8e-10   40.6   0.0    1.5  1  Glycos_transf_1  Glycosyl transferases group 1
    3.1e-10   40.6   0.0    7.9e-10   39.3   0.0    1.7  1  Glyco_trans_1_4  Glycosyl transferases group 1


Domain annotation for each model (and alignments):
>> Glycos_transf_1  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.6   0.0     2e-14   1.8e-10      18     132 ..     177     308 ..     172     363 .. 0.89

  Alignments for each domain:
  == domain 1  score: 40.6 bits;  conditional E-value: 2e-14
                              EEEESS-TTTTTHHHHHHHHHCCCCCHCSCEEEEEES................STTHHHHHHHHHHHCTTCGGGEEECCHSSSHHH CS
          Glycos_transf_1  18 ilsvgrlekeKgvdllikafallkkqlnpnvklviaG...............ngeeekelkklaeelelsdnviflgevsredlee 88 
                              +l+ gr  ++K+v+ l++a+ ++ ++++++++++++                 ge+ + ++++   l+ + +v+++ + +++ l +
  PHY93_06030|PHY93_06030 177 VLYTGRYHEQKNVTSLLEALGEISAEIDKKIHITLVVyfddfnpttlntqkqLGEQYNLFSNMLNGLHERITVTLVPHTDVKHLYK 262
                              799*********************9977777666666669*********9988888888888889999999999999999999999 PP

                              HHHCESEEEEEESS..BSS-HHHHHHHHTT--EEEETTTTHCHHCH CS
          Glycos_transf_1  89 llknadifvlpsis..EgfGivllEAmaaglpviasnaggpaevvk 132
                              l++  d+f   s+   E  G +++E++++g+p+i+s+ gg+++  +
  PHY93_06030|PHY93_06030 263 LYSENDVFMSFSTFldEDYGCSVIESLSCGTPCIVSKWGGYKDFCT 308
                              ***********9999**************************99766 PP

>> Glyco_trans_1_4  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.3   0.0   8.8e-14   7.9e-10       3     109 ..     176     307 ..     175     342 .. 0.73

  Alignments for each domain:
  == domain 1  score: 39.3 bits;  conditional E-value: 8.8e-14
                              EEEEES---GG.GTHHHHHHHHHHHH.H.H....EEEEEES---........HHHHHHHT.......T-T.T..EEEE---..THH CS
          Glyco_trans_1_4   3 vilfvGrleenvkgvdllleavpllrkk.d....vrlvivGdgprp......eeleelaa.......gleer..veftGfv..edl 66 
                              ++l++Gr++ ++k+v  llea+ ++ ++ d    ++lv++ d+ +p      ++l e+ +       gl+er  v+++ +   + l
  PHY93_06030|PHY93_06030 176 NVLYTGRYH-EQKNVTSLLEALGEISAEiDkkihITLVVYFDDFNPttlntqKQLGEQYNlfsnmlnGLHERitVTLVPHTdvKHL 260
                              589*****5.66**********9999776346556777777542333344443343322233334458888844555555554569 PP

                              HHHHHH-SEEEE--....---SHHHHHHHHTT-EEEE-TGGGTTT-- CS
          Glyco_trans_1_4  67 aellaaadvfvaPs....egfglkllEamaaglpvVatdvggiaevv 109
                               +l+++ dvf   s    e  g +++E++++g+p+++++ gg ++++
  PHY93_06030|PHY93_06030 261 YKLYSENDVFMSFStfldEDYGCSVIESLSCGTPCIVSKWGGYKDFC 307
                              999*********9999999*********************9987755 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (412 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       670  (0.0373696); expected 358.6 (0.02)
Passed bias filter:                      506  (0.0282224); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.59u 0.23s 00:00:00.82 Elapsed: 00:00:00.45
# Mc/sec: 2760.10
//
Query:       PHY93_02920|PHY93_02920  [L=88]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    8.7e-18   64.2   0.0      1e-17   64.0   0.0    1.0  1  Trans_reg_C  Transcriptional regulatory protein, C terminal


Domain annotation for each model (and alignments):
>> Trans_reg_C  Transcriptional regulatory protein, C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.0   0.0   5.7e-22     1e-17       5      77 .]      15      87 ..       9      87 .. 0.97

  Alignments for each domain:
  == domain 1  score: 64.0 bits;  conditional E-value: 5.7e-22
                             E-SHHHHHHHHHHHHTTTSEEEHHHHHHHHTTTTSTSHTHHHHHHHHHHHHHHHTTTTSSSSEEEETTTEEEE CS
              Trans_reg_C  5 eltpkefklLelLlenpgrvvsreeLleevwgededvddrtvdvhisrLRkkLeddekkprlIetvrgvGYrl 77
                             +lt +e k+L+++++np+ +++ree+le+  g+d  v++rt+d  i r Rk +e+d+k+p++ + vr+vGY +
  PHY93_02920|PHY93_02920 15 DLTLQEVKILKIFIANPNYPLTREEILEKALGYDRGVTTRTLDNFIVRFRKYFEADPKNPKYFKSVRSVGYLF 87
                             7999*******************************************************************86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (88 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       288  (0.0160634); expected 358.6 (0.02)
Passed bias filter:                      259  (0.0144459); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.24s 00:00:00.65 Elapsed: 00:00:00.42
# Mc/sec: 628.11
//
Query:       PHY93_02925|PHY93_02925  [L=257]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.4e-79  267.0   0.2    1.6e-79  266.8   0.2    1.0  1  adh_short_C2     Enoyl-(Acyl carrier protein) reductase
    1.1e-16   60.8   0.4    1.5e-16   60.4   0.1    1.3  2  adh_short        short chain dehydrogenase
    1.9e-05   24.1   0.0       0.12   11.7   0.0    2.2  2  Enoyl_reductase  Trans-2-enoyl-CoA reductase catalytic region


Domain annotation for each model (and alignments):
>> adh_short_C2  Enoyl-(Acyl carrier protein) reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  266.8   0.2   2.6e-83   1.6e-79       1     234 []      17     255 ..      17     255 .. 0.99

  Alignments for each domain:
  == domain 1  score: 266.8 bits;  conditional E-value: 2.6e-83
                              TTT..TSHHHHHHHHHHHTT-EEEEEESSGGHHHHHHHHHHHTTSEE.EE--TTSHHHHHHHHHHHHHHHSSEEEEEE-----EG. CS
             adh_short_C2   1 Gaa..sgIGraiAkalaeeGaevvltdlneeakkrveelaeelgaev.lecDVtdeeqvealveevvekfgklDilvnnagiapk. 82 
                              G+a   +I+++i ka++++Ga+v+lt+lne+++krv++la e+ga++ +e+DVt++++ +al ++++ek+gk+Dilv++ ++a+k 
  PHY93_02925|PHY93_02925  17 GVAndMSIAWGISKAFKAQGASVALTYLNENLQKRVDPLALEVGADFtCEMDVTNDAHYAALKKTIEEKWGKFDILVHSLAFADKt 102
                              889899****************************************77************************************** PP

                              .CSS-GGGH-HHHHHHHHHHHTHHHHHHHHHHHHHCTSCCEEEEEEEGGGTSBSTTTTHHHHHHHHHHHHHHHHHHHHGGGTEEEE CS
             adh_short_C2  83 .lkgpfletsreefdraldvnlyslfllakaalplmkeggsivnlssvgaervvpnynaygaaKaalealtrylAvelgpkgiRvN 167
                               lkg+f+etsre+f+ a+d+++ sl+ l++ ++  +++ +s++++++ g+ +v+++yn++g+aKaalea++rylA +lgp +iRvN
  PHY93_02925|PHY93_02925 103 dLKGRFVETSREGFKMACDISAFSLIGLCNILKDNFEDDASVIAMTYHGSVKVLKGYNVMGVAKAALEASARYLADDLGPSNIRVN 188
                              ************************************************************************************** PP

                              EEEE--BHCTGGGGSTTHHHHHHHHHHHSTTSS-B-HHHHHHHHHHHCSGGGTT--SEEEEESTTGG CS
             adh_short_C2 168 avspgpikTlaasgikgfdelleelearaplgrlgtpeevaeaalfLasdeasyitGqtlvvDgGlt 234
                              ++s+gpi+Tlaasg++g +++l+ +e++apl++++tp++v+ +a++Las+++ ++tGq+l+vD+G++
  PHY93_02925|PHY93_02925 189 CISAGPIRTLAASGVPGLKDFLKVIEEKAPLRKNVTPDDVGGTAVYLASKLSHGVTGQVLYVDSGIN 255
                              *****************************************************************86 PP

>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.4   0.1   2.5e-20   1.5e-16       3     185 ..      13     198 ..      11     204 .. 0.90
   2 ?   -4.2   0.0       1.6   9.7e+03     145     154 ..     230     239 ..     228     243 .. 0.80

  Alignments for each domain:
  == domain 1  score: 60.4 bits;  conditional E-value: 2.5e-20
                              EEEESTTS..HHHHHHHHHHHHTT-EEEEEESCHHHHHHHHHHHHHTTSEEEEEE-TTTSHHHHHHHHHHHHHHHSSESEEEE--- CS
                adh_short   3 vlvtGass..GIGraiakelakeGakvvvvdrseekleevakelkeegakalaiqvDvtdreevealvekavkklgkldvLvnNAG 86 
                              +l+ G ++   I   i+k++ ++Ga+v+++  + e+l++ ++ l  e    +++++Dvt+ +   al +++++k+gk d+Lv+  +
  PHY93_02925|PHY93_02925  13 ALILGVANdmSIAWGISKAFKAQGASVALTYLN-ENLQKRVDPLALEVGADFTCEMDVTNDAHYAALKKTIEEKWGKFDILVHSLA 97 
                              5666655422688889***********996555.7799999999988778899********************************* PP

                              S....S--SSGGGCSHHHHHHHHHHHTHHHHHHHHHHHHHHHHCTTEEEEEEEEGGGTSB-TTBHHHHHHHHHHHHHHHHHHHHHG CS
                adh_short  87 i....tgsgpfselseeewervievNltgvflltravlpamlkqssGrIvnvsSvagkvpvagvaaYsAsKaavagltrslakela 168
                                     +g f e+s e ++   ++  ++++ l+  + +++     ++++ ++   + + ++g+ + + +Kaa+++ +r la++l 
  PHY93_02925|PHY93_02925  98 FadktDLKGRFVETSREGFKMACDISAFSLIGLCNILKDNFE--DDASVIAMTYHGSVKVLKGYNVMGVAKAALEASARYLADDLG 181
                              988876778999************************999977..899*************************************** PP

                              GGTEEEEEEEESSBSSH CS
                adh_short 169 ptgirvnavaPGlvdTd 185
                              p++irvn++  G+++T 
  PHY93_02925|PHY93_02925 182 PSNIRVNCISAGPIRTL 198
                              **************996 PP

  == domain 2  score: -4.2 bits;  conditional E-value: 1.6
                              TBHHHHHHHH CS
                adh_short 145 gvaaYsAsKa 154
                              g+a+Y AsK 
  PHY93_02925|PHY93_02925 230 GTAVYLASKL 239
                              5789999995 PP

>> Enoyl_reductase  Trans-2-enoyl-CoA reductase catalytic region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.4   0.0   5.1e-05      0.31      30      68 ..      68     106 ..      49     117 .. 0.78
   2 !   11.7   0.0     2e-05      0.12     131     210 ..     136     213 ..     132     222 .. 0.90

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 5.1e-05
                              -TTSHHHHHHHHHHHHHCTT-EEEEEE----SEEE-TTT CS
          Enoyl_reductase  30 DafsdevkekvielikeelgkvDlvvYslAsprRtdpkt 68 
                              D   d+  ++  ++i+e++gk D++v slA + +td k 
  PHY93_02925|PHY93_02925  68 DVTNDAHYAALKKTIEEKWGKFDILVHSLAFADKTDLKG 106
                              444445555556789***************999998774 PP

  == domain 2  score: 11.7 bits;  conditional E-value: 2e-05
                              T-EEEEEEEEEEEE---GGGHHHHTSSHHHHHHHHHHHHHHHHHHHCCCHSEEEEEEEE-----CTCCCSTTHHHHHHHH CS
          Enoyl_reductase 131 dvlaegaktvaysYiGpeltapiYregtiGkAKedlektakelneklkelggkAyvsvnkalvtqasaaiPvvplYisll 210
                              d ++++a+ +a +Y G+    + Y+   +G AK+ le++a+ l ++l  ++++ +   +  + t a++ +P +  +++++
  PHY93_02925|PHY93_02925 136 DNFEDDASVIAMTYHGSVKVLKGYN--VMGVAKAALEASARYLADDLGPSNIRVNCISAGPIRTLAASGVPGLKDFLKVI 213
                              56789999*********99998886..79*************************999999**********9998877665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (257 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       410  (0.022868); expected 358.6 (0.02)
Passed bias filter:                      374  (0.0208601); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1717.75
//
Query:       PHY93_02930|PHY93_02930  [L=345]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.5e-75  254.5   0.0    1.8e-75  254.2   0.0    1.0  1  URO-D     Uroporphyrinogen decarboxylase (URO-D)


Domain annotation for each model (and alignments):
>> URO-D  Uroporphyrinogen decarboxylase (URO-D)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  254.2   0.0     1e-79   1.8e-75      16     345 ..      15     343 ..       6     344 .. 0.95

  Alignments for each domain:
  == domain 1  score: 254.2 bits;  conditional E-value: 1e-79
                              SS--B--TT-SSTTSHHHHHHHTSSSHHHHHH-HHHHHHHHHHHHHHH--S-EE-S--TTGGGGGGT-EEEEETTTEEEEE--S-. CS
                    URO-D  16 drvPvwlmRqaGrylpeyraeragvsflelcknpelaaevtlqpvrrfglDaailfsdilveaealGlevefeegegPvvekpvrt 101
                               +vPvw+mRqaGry ++y+ ++++ +f+ +ck+p+la+e+t+ p+r f++Daailfsd+l ++e lGl++ +++g  P ++  + +
  PHY93_02930|PHY93_02930  15 TEVPVWFMRQAGRYHSHYQSIKKDSDFMTMCKDPKLACEITMGPIRDFNFDAAILFSDLLFPLEQLGLGLSYKSGP-PTLDFRLES 99 
                              589**********************************************************************854.********* PP

                              ...GGGS----GGG.G..HHHHHHHHHHHHH.--SS-EEEEEE-HHHHHHHHHCTT.-SS-HHHHHHHHH-HHHHHHHHHHHHHHH CS
                    URO-D 102 aedveklevpddveegrlpyvleaikllkkelggevpligfvgaPftlasylveGg.skgfekllkllykdpeevhklldkltdvv 186
                              ++d++k ++  +  +++ ++   a  l+++el+++ +l+gfvgaPftl +y veG+ + + ++ +k +y     ++ +ld l   +
  PHY93_02930|PHY93_02930 100 LSDLKKCKITTPS-LEYYKFQSVASHLIRAELPKSKTLLGFVGAPFTLYTYAVEGShKGDLTDSKKGFYD--GRFQGFLDLLIPEL 182
                              *********9996.699999999*********************************************95..679********999 PP

                              HHHHHHHHHTT-SEEEEEETTGGGS-HHHHHHHTHHHHHHHHHHHHH.H--S-EEEEESSHH.HHHHHHTTS--SEEE--TTS-HH CS
                    URO-D 187 ieylkaqieagAdaiqifDswagllspedfeefvlpylkrivdevkaegpkvpvilfikgagaeiledlaelgadvlsldwtvdlk 272
                                 ++ q++ g++ai++fD+  g l   df+ef+lp++kri +e+k+++p+ +++++ k ++  +l+++ + ++dvl++dw+++lk
  PHY93_02930|PHY93_02930 183 LIEMNLQADGGCEAICLFDTAVGELALPDFKEFILPAIKRITSEFKKTHPTKKIVYYSKLTHLNYLQAIEDKNIDVLGIDWRMSLK 268
                              999***********************************************9999999****988********************** PP

                              HHHHSS....EEE--B-G.GGGGS-HHHHHHHHHHHHT....T---SSSEEB-BSS---TTS-HHHHHHHHHHHHT CS
                    URO-D 273 eaarevgdkvalqGnldPialLlgspeeiekevkeile...kgaggkkgyilnlGhgippetppenvkalveavke 345
                              +a +++g+  ++qGn+dP + L  ++  +ek++++      ++  + +++i+ lGhg++++tp+ nvk  v+ +++
  PHY93_02930|PHY93_02930 269 DALKTLGSDYMIQGNIDP-SYLHYDWVILEKKLEQFWGnlrDDGLPLNKWICGLGHGVLQHTPESNVKKTVQYIHD 343
                              ******************.7***********99998665556677899************************9997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (345 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       299  (0.0166769); expected 358.6 (0.02)
Passed bias filter:                      278  (0.0155056); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.25s 00:00:00.78 Elapsed: 00:00:00.46
# Mc/sec: 2261.34
//
Query:       PHY93_02935|PHY93_02935  [L=227]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.9e-21   76.4   0.0      3e-21   75.7   0.0    1.4  1  Response_reg  Response regulator receiver domain
    6.6e-20   71.0   0.0    1.2e-19   70.2   0.0    1.4  1  Trans_reg_C   Transcriptional regulatory protein, C terminal
     0.0031   17.4   0.0       0.04   13.9   0.0    2.4  1  HTH_11        HTH domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   75.7   0.0   5.1e-25     3e-21       1     111 [.       4     113 ..       4     114 .. 0.98

  Alignments for each domain:
  == domain 1  score: 75.7 bits;  conditional E-value: 5.1e-25
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseeeda 86 
                              +liv+D+  + + l+++l   g  ++  a++g+ea e + ++k++lil+Di +p+ +Gl l +  r+e ++   ++l+a ++ e +
  PHY93_02935|PHY93_02935   4 ILIVEDEANLGSTLEEYLSGLGH-QCVWAKTGAEAREFFANRKPNLILMDIGLPDTSGLILGRDFRAERKDFVLLFLSALNDPEIK 88 
                              8**********************.9************************************************************* PP

                              HHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  87 vealkagaddflsKpfdpeeLlkal 111
                              veal++ga+d+++Kpf+ +eL+ +l
  PHY93_02935|PHY93_02935  89 VEALEIGAEDYITKPFALKELILRL 113
                              *********************9876 PP

>> Trans_reg_C  Transcriptional regulatory protein, C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.2   0.0     2e-23   1.2e-19       4      77 .]     152     225 ..     148     225 .. 0.97

  Alignments for each domain:
  == domain 1  score: 70.2 bits;  conditional E-value: 2e-23
                              EE-SHHHHHHHHHHHHTTTSEEEHHHHHHHHTTTTSTSHTHHHHHHHHHHHHHHHTTTTSSSSEEEETTTEEEE CS
              Trans_reg_C   4 veltpkefklLelLlenpgrvvsreeLleevwgededvddrtvdvhisrLRkkLeddekkprlIetvrgvGYrl 77 
                              ++l++ke ++LelL ++++  v ree++e++wg+d+++++rtvd +i +LRk  e d++k+ +I+ +r++GY+l
  PHY93_02935|PHY93_02935 152 IALSQKECAILELLYKKHNSAVDREEIIEQIWGDDKFPSNRTVDNYIVKLRKWCESDPNKSIEIQSIRSIGYKL 225
                              89**********************************************************************97 PP

>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.9   0.0   6.7e-06      0.04       5      55 .]     161     224 ..     157     224 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 6.7e-06
                   HTH_11   5 ilelLleargp.isgeeLAeeL....nv.SrrtvrrdIkaLeelg.......vpIesepgrGYr 55 
                              ilelL+++++  +  ee+ e++    +  S rtv ++I +L+++        ++I+s ++ GY+
  PHY93_02935|PHY93_02935 161 ILELLYKKHNSaVDREEIIEQIwgddKFpSNRTVDNYIVKLRKWCesdpnksIEIQSIRSIGYK 224
                              666666666666666666666655444459*********************************6 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (227 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       383  (0.021362); expected 358.6 (0.02)
Passed bias filter:                      352  (0.019633); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.45
# Mc/sec: 1518.54
//
Query:       PHY93_02940|PHY93_02940  [L=300]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    4.4e-09   36.2   0.5    7.8e-09   35.4   0.5    1.4  1  HisKA        His Kinase A (phospho-acceptor) domain
    8.1e-09   36.0   0.2    1.7e-08   35.0   0.2    1.5  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
     0.0017   18.2   0.9     0.0042   17.0   0.9    1.6  1  HATPase_c_5  GHKL domain
  ------ inclusion threshold ------
      0.013   15.4   0.0      0.022   14.7   0.0    1.3  1  HATPase_c_2  Histidine kinase-like ATPase domain
      0.018   15.4   0.3        2.7    8.4   0.0    2.4  2  TRCF         TRCF domain
       0.17   11.6   0.6       0.27   10.9   0.6    1.3  1  DUF4131      Domain of unknown function (DUF4131)
        4.1    7.8   7.6          3    8.3   0.7    2.5  2  BatA         Aerotolerance regulator N-terminal


Domain annotation for each model (and alignments):
>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.4   0.5   3.1e-12   7.8e-09       1      67 []      86     154 ..      86     154 .. 0.95

  Alignments for each domain:
  == domain 1  score: 35.4 bits;  conditional E-value: 3.1e-12
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHC....T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH CS
                    HisKA   1 slgrflagvaHELrtPLsailgnaeaLkre..gklteelkeyletiesearrldhlvedlLdlsrieag 67 
                              sl+ f+a++ HEL+tPL++i++  e++ +   +k++  l ++  ++++ +  l+ + + +L+lsrie g
  PHY93_02940|PHY93_02940  86 SLQAFFASLTHELKTPLASIRLQGEVINEIlsAKNDTTLNKLSSRLIEDTGKLETQMDKILQLSRIERG 154
                              6889***********************777888999******************************986 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.0   0.2   6.5e-12   1.7e-08       2     109 ..     195     295 ..     194     298 .. 0.81

  Alignments for each domain:
  == domain 1  score: 35.0 bits;  conditional E-value: 6.5e-12
                              HHHHHHHHHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHHHHH CS
                HATPase_c   2 dekrLrqiisnlvdNavkfatkageieveikaseddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkklvel 87 
                              de  L+ ii+nl +N   + tk+++++++i+++++++ ++ +D G      d +kl++ f++     ++++g+G+Gl++ +kl e+
  PHY93_02940|PHY93_02940 195 DEFALELIIKNLFENTRIH-TKSQNVKIKIQQTDKNVLLTYQDKGEFSG--DKNKLGTLFYK----HNSSKGSGIGLYLTNKLLEK 273
                              6778999***********9.99*********86679999****995443..33446666666....44589*************** PP

                              TTTEEEEEEETTTEEEEEEEEE CS
                HATPase_c  88 mgGeiwvesepgrGttftftlp 109
                              m+G+++++ ++ +   f +t++
  PHY93_02940|PHY93_02940 274 MRGKLRIDINEAKNLIFFLTFK 295
                              ******9777777766666665 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.9   1.6e-06    0.0042       7      91 ..     200     284 ..     194     292 .. 0.77

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 1.6e-06
              HATPase_c_5   7 cvilgnlLdNAieacskieeekrfIrltvrekkksliisieNs..yegek...kklesskskkeehGiGlksireivkkykgnlsi 87 
                               +i+ nl++N      +i+++++ +++++++++k+++++ + +  ++g+k   ++l+ + ++++  GiGl   +++++k  g+l+i
  PHY93_02940|PHY93_02940 200 ELIIKNLFENT-----RIHTKSQNVKIKIQQTDKNVLLTYQDKgeFSGDKnklGTLFYKHNSSKGSGIGLYLTNKLLEKMRGKLRI 280
                              55666666664.....44445778999******9999999988556665523356668889999*********************9 PP

              HATPase_c_5  88 eaed 91 
                              ++++
  PHY93_02940|PHY93_02940 281 DINE 284
                              9876 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.0   8.7e-06     0.022      39     112 ..     202     274 ..     185     288 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 8.7e-06
              HATPase_c_2  39 actNavehayleapegpvevrlesdeealtvevaDsGpg.fdpetlpdpteeepkeslkegGrGlalikglvDev 112
                              ++ N +e  + + +++ v+++++++++ + ++ +D+G+   d  +l       + +s k +G+Gl+l+++l +++
  PHY93_02940|PHY93_02940 202 IIKNLFENTRIHTKSQNVKIKIQQTDKNVLLTYQDKGEFsGDKNKLGTLFY--KHNSSKGSGIGLYLTNKLLEKM 274
                              456777777778889**********************98666666555544..46***************98876 PP

>> TRCF  TRCF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.4   0.0    0.0011       2.7      23      62 ..     113     152 ..     103     161 .. 0.92
   2 ?    4.7   0.1     0.015        39      52      87 ..     203     237 ..     182     244 .. 0.85

  Alignments for each domain:
  == domain 1  score: 8.4 bits;  conditional E-value: 0.0011
                     TRCF  23 kriasieteeeldeleeeLiDrFGklpeevenLlevarlk 62 
                              ++i s++++  l++l ++Li+  Gkl  ++++ l+++r++
  PHY93_02940|PHY93_02940 113 NEILSAKNDTTLNKLSSRLIEDTGKLETQMDKILQLSRIE 152
                              57899*******************************9996 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.015
                     TRCF  52 venLlevarlkllakklgiekikekkkkleitfsek 87 
                              ++nL+e +r+ +  ++++i ki++++k++ +t+++k
  PHY93_02940|PHY93_02940 203 IKNLFENTRIHTKSQNVKI-KIQQTDKNVLLTYQDK 237
                              79***************99.6999999999998876 PP

>> DUF4131  Domain of unknown function (DUF4131)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.6    0.0001      0.27      10      78 ..      20     115 ..      11     146 .. 0.65

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.0001
                  DUF4131  10 lalllllllllllllrr.............rprrrv.........llllllllllallgfalrapqpnandlsqlles........ 65 
                              + +++lll+  +++++                   +          +l+lllll ++l +++  +q+ +++l+ +  s        
  PHY93_02940|PHY93_02940  20 VWAAVLLLIGVWWIYLIfnfenillhadrkS----ItkmiiweggSFLVLLLLLSISLLLLYLKDQRKTKSLQAFFASlthelktp 101
                              2222222222222222234578998866430....244677777799999999999999999999999999999999886655433 PP

                  DUF4131  66 gqevi...veG.vvasl 78 
                                  +   ++G v+ ++
  PHY93_02940|PHY93_02940 102 L---AsirLQGeVINEI 115
                              3...2455888444444 PP

>> BatA  Aerotolerance regulator N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.7   1.2     0.066   1.7e+02       9      25 ..      21      36 ..       7      41 .. 0.56
   2 ?    8.3   0.7    0.0012         3       8      33 ..      61      85 ..      54     107 .. 0.68

  Alignments for each domain:
  == domain 1  score: 2.7 bits;  conditional E-value: 0.066
                     BatA  9 lLlallllplpiillyl 25
                             + ++lll+ + ++++++
  PHY93_02940|PHY93_02940 21 WAAVLLLIGV-WWIYLI 36
                             2344445555.444433 PP

  == domain 2  score: 8.3 bits;  conditional E-value: 0.0012
                     BatA  8 llLlallllplpiillyllkrrpqev 33
                              +L++llll +  +ll++lk +++++
  PHY93_02940|PHY93_02940 61 SFLVLLLLLSI-SLLLLYLKDQRKTK 85
                             57888888888.55555555555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (300 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1096  (0.06113); expected 358.6 (0.02)
Passed bias filter:                      561  (0.0312901); expected 358.6 (0.02)
Passed Vit filter:                        59  (0.00329076); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.56u 0.28s 00:00:00.84 Elapsed: 00:00:00.47
# Mc/sec: 1933.84
//
Query:       PHY93_02945|PHY93_02945  [L=428]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.1e-62  212.0   0.0    1.4e-62  211.7   0.0    1.1  1  Aminotran_3    Aminotransferase class-III
  ------ inclusion threshold ------
       0.12   11.5   0.0       0.19   10.9   0.0    1.3  1  Aminotran_1_2  Aminotransferase class I and II


Domain annotation for each model (and alignments):
>> Aminotran_3  Aminotransferase class-III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  211.7   0.0   1.5e-66   1.4e-62       9     314 ..      37     326 ..      31     414 .. 0.88

  Alignments for each domain:
  == domain 1  score: 211.7 bits;  conditional E-value: 1.5e-66
                              SCEEEEEEEBTEEEETTS-EEEESSHHHHTTTT-BT-HHHHHHHHHHHTT-S---TTTCEEHHHHHHHHHHHHHCT-..SEEEEES CS
              Aminotran_3   9 lllvitkaeGvyltdvdgkrylDlvssiavvnlGhahPkvvkavkeqaaklshvsfgaltnepalklaekllklapkgldkvflan 94 
                              ++ + ++aeG+y++dvdgk+y+D+  s+ +++lGh++Pkv +a++e +   +  s+ga +   +l+la+ l++ +p+ ++++ ++n
  PHY93_02945|PHY93_02945  37 TPRFFERAEGAYIYDVDGKQYVDFCMSFGPLILGHRNPKVEEALHEGLTRGW--SYGACEP-YSLELAQFLISKLPH-VEQLRFVN 118
                              55899*********************************************95..5456555.46799**********.******** PP

                              SHHHHHHHHHHHHHHHHHHTSHCTT-EEEEETTT---SSHHHHHHSS--TTTTTTCTTB-TSEEEE-TTBGGGTB-HHHHHHHHHH CS
              Aminotran_3  95 sGseAvetAlKlarkyarekkatektkiiafkgafHGrtlgalsvtgskkkyktlfgpflpevvrlkypdeevlkeneeeeaalle 180
                              sG+eAv+tAl+lar        t k+kii+f+g++HG++   l  +gs  + +   ++++++v+   ++d+ +l+  +      +e
  PHY93_02945|PHY93_02945 119 SGTEAVMTALRLARG------VTGKNKIIKFNGCYHGHVDSMLIKAGS--GLAGTAEASSAGVPDGVAQDTLILELGD------IE 190
                              ***************......9**************************..9*******************99998888......88 PP

                              HHHHHHCHTCCCEEEEEE-SCETTTTSEB--CCHHHHHHHHHHHHT-EEEEE-TTTTT..TTTSSSSGGGGCTS--SEEEE-GGGG CS
              Aminotran_3 181 elealekkkkdevaAvivEpiqgegGvvvaspeflaklrelckkhdvllivDEvqtGf..GrTGklfAlehagvspDlmtlaKalt 264
                               +++    +kd++aA+i+Ep +++ G  +++ efl+ lre+c+k+ +lli+DEv +Gf  +  G    +e  g++pD++tl+K ++
  PHY93_02945|PHY93_02945 191 GIKKCFLDHKDQIAAIIIEPLPANNGLLIQPIEFLKFLREVCDKNKALLIFDEVISGFrvAFGG---MAELTGITPDIVTLGKIIG 273
                              89999999**************************************************733344...34557************** PP

                              TTSS-EEEEEEHHHHTTS-TTS...B--TTTT-HHHHHHHHHHHHHHHHTTHH CS
              Aminotran_3 265 gGlplsavlataevmqalapgs...hgsTfgGnplacavalavleiieeekll 314
                              gGlp+ a+ a + +m+ lap +   +++T ++npla++  la+l+ +  e + 
  PHY93_02945|PHY93_02945 274 GGLPVGAIGASRFIMEHLAPIGkvyQAGTLSANPLAMVGGLATLKQMTPESYK 326
                              *******************998899********************99887653 PP

>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   2.1e-05      0.19     153     336 ..     207     403 ..     187     421 .. 0.70

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 2.1e-05
                              EEESS-TTT--B-.-HHHHHHHHHHHHHTTEEEEEEETTTTCBSSSSHTHHHHGGSTTSTTEEEEEESSSTTSSGGG-EEEEEEEH CS
            Aminotran_1_2 153 lvesphNPtGtva.tleeleklldlakkynlllfvDeaYagfvfgsldavatranveeepnllivgslsKafGlaGeRvGyilgna 237
                              ++e    + G ++ + e l+ l ++++k+++ll++De+ +gf      +    a++   + +    +l+K  G  G+ vG+i ++ 
  PHY93_02945|PHY93_02945 207 IIEPLPANNGLLIqPIEFLKFLREVCDKNKALLIFDEVISGFRVA---FGG-MAELTGITPD--IVTLGKIIG-GGLPVGAIGASR 285
                              555444455544416678888999*****************9777...222.3344443333..348999997.477789999999 PP

                              HHHHHHHHHHHHHTS.SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSTEEEECCSCSSEEEEEETHH....... CS
            Aminotran_1_2 238 avvsqlrklsrpfls.ssllqaavaaalsdallkqseleemrqrlqkrrkelrdeLaelglkvlasqsgmflltdlsae....... 315
                               + ++l+ +   +   + ++ ++++    ++l+  + + e+ + ++ +++++++ L++    +   q  mf + ++s +       
  PHY93_02945|PHY93_02945 286 FIMEHLAPIGKVYQAgTLSANPLAMVGGLATLK--QMTPESYKIIEVQTEKIVNLLTSWMQHFNNGQFSMFKVIHFSSLfwivpsl 369
                              999999999988877533333333333333333..367888888888888888888777666666667888888888887777778 PP

                              ..............CHHHHHHHHHHTCTEEEEEGG CS
            Aminotran_1_2 316 ..............takelskkLleevgvyvtpgt 336
                                            + ++l+++Ll++ g+y+ p+ 
  PHY93_02945|PHY93_02945 370 evkkladipanlteNFNKLFEVLLDR-GIYLAPNA 403
                              78888888888887778888889999.99998854 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (428 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       486  (0.0271069); expected 358.6 (0.02)
Passed bias filter:                      462  (0.0257683); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.27s 00:00:00.85 Elapsed: 00:00:00.46
# Mc/sec: 2790.92
//
Query:       PHY93_02950|PHY93_02950  [L=505]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.2e-56  190.1   0.0    4.7e-56  189.5   0.0    1.2  1  Porphobil_deam  Porphobilinogen deaminase, dipyromethane cofa


Domain annotation for each model (and alignments):
>> Porphobil_deam  Porphobilinogen deaminase, dipyromethane cofactor binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  189.5   0.0   2.6e-60   4.7e-56       2     199 ..      11     234 ..      10     238 .. 0.88

  Alignments for each domain:
  == domain 1  score: 189.5 bits;  conditional E-value: 2.6e-60
           Porphobil_deam   2 rigtRkSkLAlaqaelvaeaLke..eeeveivtiktkGDkildkpLakiggkglFtkeleeaLlegeidlaVhSlKDlptelpegl 85 
                              +igtR+S LAl+q ++ ++ L++    ++e+++ikt+GD i+d pL++++g ++Ftkel+eaLl+g++dl+VhS+KDl +  peg+
  PHY93_02950|PHY93_02950  11 KIGTRGSLLALTQCNQARAILERltGDTFELEIIKTQGDMITDIPLWQLEGANFFTKELDEALLTGRVDLVVHSYKDLGSIRPEGI 96 
                              7***************9999965545569********************************************************* PP

           Porphobil_deam  86 elaavlkredprDvlvvks.sleelpe..gavvgTsSlRRkaql....kklrp.....dlevkdlRGnvdtRlrkldegeydaiiL 159
                              +laav+kr  ++D+l++k+ +++el++  + vvgTsS+RR ++l    ++  p     ++++k lRGnv+tR++kl++geydai+L
  PHY93_02950|PHY93_02950  97 TLAAVTKRTYAHDILLIKNqTIAELNHinEFVVGTSSPRRMVNLelglSAFLPkgspqKVTTKVLRGNVNTRIQKLQDGEYDAIVL 182
                              ****************966688998877799*********9999666634444555558*************************** PP

           Porphobil_deam 160 AaAGLkRlgleeri.se...........vlspeellpavgQGalavevrked 199
                              A+ G++Rl l+e+   e           +l+++e+  +++QGala+e+  ++
  PHY93_02950|PHY93_02950 183 AMPGIERLALTESSrVElekllngmnfmILPQSEFPSSASQGALAIECAIDR 234
                              ********9966553224567777776449999***************8765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (505 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       481  (0.026828); expected 358.6 (0.02)
Passed bias filter:                      428  (0.0238719); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.62u 0.24s 00:00:00.86 Elapsed: 00:00:00.46
# Mc/sec: 3330.70
//
Query:       PHY93_02955|PHY93_02955  [L=314]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.3e-12   46.4   0.0    7.9e-12   45.1   0.0    1.6  1  GlutR_N       Glutamyl-tRNAGlu reductase, N-terminal domain
    3.1e-07   30.5   0.0    9.8e-07   28.9   0.0    1.8  1  Shikimate_DH  Shikimate / quinate 5-dehydrogenase
  ------ inclusion threshold ------
       0.17   11.1   0.0       0.38   10.0   0.0    1.5  2  Pyr_redox_3   Pyridine nucleotide-disulphide oxidoreductase


Domain annotation for each model (and alignments):
>> GlutR_N  Glutamyl-tRNAGlu reductase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.1   0.0   1.3e-15   7.9e-12      35     145 ..      17     119 ..       4     120 .. 0.83

  Alignments for each domain:
  == domain 1  score: 45.1 bits;  conditional E-value: 1.3e-15
                  GlutR_N  35 k....eaviLsTCNRtEiylsaeeeeeaseellellaevsleelkeklyvlegeeavrHlfrVasGLdSlvlGEdqIlgQvkeaye 116
                              +    e+++L+TC Rt i    +            l  ++le+ ++   +++g++a   l++  +GL+S vl+E +++gQ keay+
  PHY93_02955|PHY93_02955  17 RpsngEVFVLKTCQRTLILGFGQ------------LPFYHLEDQNDIRDMFNGDQAYIFLLETICGLKSEVLAEYEVVGQFKEAYQ 90 
                              233459************93221............222356677777789************************************ PP

                  GlutR_N 117 lakeagtlgkvLerlfqkaikvakrvrte 145
                                 +  + ++   +l++k ++ +k++rt+
  PHY93_02955|PHY93_02955  91 NYANLPFRNTKTLTLLEKLFQDSKKIRTD 119
                              ******99999999************985 PP

>> Shikimate_DH  Shikimate / quinate 5-dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.9   0.0   1.6e-10   9.8e-07       6     127 ..     136     263 ..     131     271 .. 0.70

  Alignments for each domain:
  == domain 1  score: 28.9 bits;  conditional E-value: 1.6e-10
                              HHS...TT-EEEEES-SHHHHHHHHHHHCCT-CEEEEEESSHHHHHHHHHHHT.ET-EEEEGCGHHHHHHT-SEEEE-SSSSS-SB CS
             Shikimate_DH   6 kle.slkekkvlliGaGemaelvakhLlakgvkkvvvaNRtlerakelaeelkgeeiealkleelkellaeadvvisataseepil 90 
                               ++ + +e  vl++G G+++  ++k L +k  ++v+ + R+l+ra+el+ e++ e   +++  +++ + +++d v+  ++s+e+++
  PHY93_02955|PHY93_02955 136 LVHsRANEGDVLVVGSGNLSVDLIKLLKKK--HRVFLTARNLTRASELCIEHSLE---MIPWLSYD-IYRKFDSVVNTIGSKEILF 215
                              4444678889***************88744..459****************9666...55555554.5678999999999999999 PP

                              -HHHHHCCH.........HH.S....EEEEE--SS-SB-TTGGGSTTC CS
             Shikimate_DH  91 ekeeveeal.........kkrk..kplllvDiavPRdvepevaeledv 127
                              +++ ++e +         ++ +  +++l++D++ P  ++++++e  +v
  PHY93_02955|PHY93_02955 216 NEDFFREWSgqqsisqnsSRANasDSKLFIDLGSPSVIKTHLSESAGV 263
                              876554432111111110222245677********9999888876554 PP

>> Pyr_redox_3  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.0   6.4e-05      0.38     162     234 ..     141     218 ..     130     248 .. 0.76
   2 ?   -1.9   0.0      0.26   1.6e+03      36     105 ..     220     285 ..     215     290 .. 0.67

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 6.4e-05
              Pyr_redox_3 162 yagqkvvViGgknSavDaAlelvrkgaeVtvvtrgseieke.....esdpsyslkpdienrleelvke.ekikvlfnae 234
                               ++ +v+V+G +n +vD  ++l +k ++V +  r+ ++ +e     + ++  +l+ di  +++++v++ ++ ++lfn++
  PHY93_02955|PHY93_02955 141 ANEGDVLVVGSGNLSVDL-IKLLKKKHRVFLTARNLTRASElciehSLEMIPWLSYDIYRKFDSVVNTiGSKEILFNED 218
                              56789************7.99********99888765554322111345556899999999999988887777887765 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 0.26
              Pyr_redox_3  36 iyrypkemtfispsftsekleipdlnaiseetspafslkeeklsrkealeYlrevak.sfelpiklfeeVe 105
                              ++++  ++  is+  +s + ++ d + +++  sp+  + +++ls+   ++ l+ + + s +++i++ e+++
  PHY93_02955|PHY93_02955 220 FREWSGQQ-SISQ--NSSRANASDSKLFIDLGSPS--VIKTHLSESAGVHRLEDIFRqSAKMNIEKMEKIK 285
                              56665544.3453..46777788888888888884..5677888888887777776515677887777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (314 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       581  (0.0324056); expected 358.6 (0.02)
Passed bias filter:                      439  (0.0244855); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.60u 0.28s 00:00:00.88 Elapsed: 00:00:00.49
# Mc/sec: 1910.53
//
Query:       PHY93_02960|PHY93_02960  [L=85]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (85 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       403  (0.0224776); expected 358.6 (0.02)
Passed bias filter:                      224  (0.0124937); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.44
# Mc/sec: 585.51
//
Query:       PHY93_02965|PHY93_02965  [L=480]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-33  115.7   0.4    9.2e-16   57.9   0.0    2.2  2  PLDc_2    PLD-like domain
    1.3e-06   28.3   0.4      0.062   13.5   0.0    3.2  3  PLDc      Phospholipase D Active site motif


Domain annotation for each model (and alignments):
>> PLDc_2  PLD-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.9   0.0     1e-19   9.2e-16       3     133 .]      48     188 ..      47     188 .. 0.85
   2 !   55.9   0.1   4.3e-19   3.8e-15       4     122 ..     295     429 ..     292     440 .. 0.82

  Alignments for each domain:
  == domain 1  score: 57.9 bits;  conditional E-value: 1e-19
                   PLDc_2   3 qliksAkksidiatyyfvsdre...ildallkaakrgvkvrilldskkddagavdeaslkelkellleagvevrvfe.t..ll... 79 
                              q+i++A+ksi + +++ + d++   + +al+k+a++gvkvr+lld      ++v+ +    ++  + ++g+ev+ f+ t  l+   
  PHY93_02965|PHY93_02965  48 QMIEKAQKSIAVEYFIYNLDKSgriFSQALIKKAREGVKVRMLLDY-----FMVKGQFSPFFAYEMEKNGIEVKYFNaTstLNlfg 128
                              89*************996665533269******************8.....45555555555555699********9624422567 PP

                   PLDc_2  80 ..gslHaKlylidgktvivGSsNltkrgldlnlElnvviedk....elakeleeeFerlw 133
                                 ++H+Kl+lidgk +i+G+ N+ ++++dl   +n+   d     ++++ +++ F++ w
  PHY93_02965|PHY93_02965 129 gqYRNHRKLLLIDGKEAITGGRNIGDEYFDLHEKFNFLDRDIlvsgPIVSSIQNTFDQVW 188
                              8899*********************************999999999************99 PP

  == domain 2  score: 55.9 bits;  conditional E-value: 4.3e-19
                   PLDc_2   4 liksAkksidiatyyfvsdreildallkaakrgvkvrilldskkddagavdeasl.kelkellleagvevrvfe....t.....ll 79 
                              +i++Ak+si + ++yf++d++   al  a +++vkv +l++s ++++++  +as+ +++k+  +++g++ ++f+          ++
  PHY93_02965|PHY93_02965 295 RIRNAKESILFDSPYFIVDDASTFALDYALENKVKVTLLTNSLNSTDAIYVYASFdSNIKNW-IKKGLDTYIFKgnlpEnyatmTD 379
                              69**************99999999**99**************99988888888762566666.9999**99999765414444511 PP

                   PLDc_2  80 ......gslHaKlylidgktvivGSsNltkrgldlnlElnvviedk.ela 122
                                      +HaK +++d+k v++G++N+++r+ +ln E+ + ++++ +la
  PHY93_02965|PHY93_02965 380 eisharFGVHAKSFVFDKKDVVIGTYNFDPRSANLNVEMTLSCDNNpKLA 429
                              455666779********************************999874544 PP

>> PLDc  Phospholipase D Active site motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.5   0.0   6.9e-06     0.062       2      28 .]     130     156 ..     129     156 .. 0.92
   2 ?   -2.6   0.0      0.84   7.5e+03      10      15 ..     310     315 ..     309     324 .. 0.79
   3 !   11.5   0.0   2.9e-05      0.26       6      28 .]     389     411 ..     388     411 .. 0.95

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 6.9e-06
                              TBEE---EEEETTTEEEEE---SSHHH CS
                     PLDc   2 mgthHqKivivDdrvafvGgaNLcdgr 28 
                              ++++H+K + +D++ a+ Gg N+ d++
  PHY93_02965|PHY93_02965 130 QYRNHRKLLLIDGKEAITGGRNIGDEY 156
                              79******************9998876 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 0.84
                              EEETTT CS
                     PLDc  10 vivDdr 15 
                              +ivDd+
  PHY93_02965|PHY93_02965 310 FIVDDA 315
                              79**98 PP

  == domain 3  score: 11.5 bits;  conditional E-value: 2.9e-05
                              ---EEEETTTEEEEE---SSHHH CS
                     PLDc   6 HqKivivDdrvafvGgaNLcdgr 28 
                              H+K +++D++ +++G+ N++ ++
  PHY93_02965|PHY93_02965 389 HAKSFVFDKKDVVIGTYNFDPRS 411
                              ********************996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (480 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       613  (0.0341904); expected 358.6 (0.02)
Passed bias filter:                      454  (0.0253221); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.64u 0.26s 00:00:00.90 Elapsed: 00:00:00.46
# Mc/sec: 3142.16
//
Query:       PHY93_06035|PHY93_06035  [L=298]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (298 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       558  (0.0311228); expected 358.6 (0.02)
Passed bias filter:                      350  (0.0195214); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.42
# Mc/sec: 2109.69
//
Query:       PHY93_02970|PHY93_02970  [L=424]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        1.8    9.3   7.8        2.7    8.8   0.9    3.1  3  RecG_N    RecG N-terminal helical domain


Domain annotation for each model (and alignments):
>> RecG_N  RecG N-terminal helical domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   0.9   0.00015       2.7      15      66 ..     178     226 ..     165     229 .. 0.78
   2 ?    3.3   0.1    0.0078   1.4e+02       3      40 ..     239     276 ..     238     312 .. 0.72
   3 ?   -1.3   0.1      0.21   3.7e+03      39      61 ..     360     382 ..     351     387 .. 0.64

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.00015
                              S---TTT........HHHHHHH---GGGG-HHHH.HHHHHHHHHHTTSSSS- CS
                   RecG_N  15 kvlsgkleteelieeikkkleliddplleneevlkeklskfldYikpiasLp 66 
                              +++++  ++   +  +k+k + +d++ l++  ++ +++++fl+Y +++a+Lp
  PHY93_02970|PHY93_02970 178 EFVDK--KWLSTMTLFKSKTKDMDESDLKHLILA-DRIKHFLQYQEHMAQLP 226
                              44333..346677889999999999999998888.***************98 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.0078
                              HHHHHHHHHHHTS---TTT........HHHHHHH---G CS
                   RecG_N   3 EeFLeelekllkkvlsgkleteelieeikkkleliddp 40 
                              E FL+ ++  l+++ +++ + +++ + +    +++ d+
  PHY93_02970|PHY93_02970 239 ESFLNSINLFLDAINEESEKLNQIENDLTIAHHNLTDS 276
                              89************999999999988876554444443 PP

  == domain 3  score: -1.3 bits;  conditional E-value: 0.21
                              -GGGG-HHHH.HHHHHHHHHHTT CS
                   RecG_N  39 dplleneevlkeklskfldYikp 61 
                              ++l +  +++ + l++++ Y k+
  PHY93_02970|PHY93_02970 360 RNLTKIYDSNTDELKELTTYFKE 382
                              45555556666667777777664 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (424 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       996  (0.0555525); expected 358.6 (0.02)
Passed bias filter:                      500  (0.0278878); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.61u 0.28s 00:00:00.89 Elapsed: 00:00:00.51
# Mc/sec: 2513.62
//
Query:       PHY93_02975|PHY93_02975  [L=214]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        9.7    4.3  18.6         12    4.0  18.6    1.2  1  DUF2070   Predicted membrane protein (DUF2070)


Domain annotation for each model (and alignments):
>> DUF2070  Predicted membrane protein (DUF2070)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.0  18.6   0.00068        12      16     159 ..      30     187 ..      13     211 .. 0.62

  Alignments for each domain:
  == domain 1  score: 4.0 bits;  conditional E-value: 0.00068
                  DUF2070  16 vsllliillalligllaflssklfgillfglpalvaflltlpvlrilggr...ltykrslflalltelivviisllaillsall.q 97 
                              +s l+ i+++l+ig++  +   lf  +lf+   +  f+l +   ++l++    +ty ++  l ++++l +++++++ ++l+a    
  PHY93_02975|PHY93_02975  30 LSALIFIVMGLIIGFAKKN---LFFAILFLSEGMGQFFLAKENQKSLREGdivITYFKKNSLGFFAALSFSFTMVCRYCLAANYlL 112
                              4555666666666665422...4445566666899999999999999887999888888777777776666666666666665554 PP

                  DUF2070  98 alvllalvlslalvfalrllvlvavsdesllkavlpaliqpllailllvly.............fspesflllll 159
                              ++ +  ++++ +l++ + l ++++ s ++ + a+l a+++ +++ill ++              +++ s++ lll
  PHY93_02975|PHY93_02975 113 SFNTTLMIVGGILSTLIYLSLYLFSSLKKDTLAILSAIVIMISSILLGLFSllkaeglfdyqlaINQFSYASLLL 187
                              555555555544444444444555555555556777777777777777766777777655554422222233332 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (214 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       940  (0.052429); expected 358.6 (0.02)
Passed bias filter:                      280  (0.0156172); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.29s 00:00:00.81 Elapsed: 00:00:00.47
# Mc/sec: 1366.47
//
Query:       PHY93_02980|PHY93_02980  [L=475]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.9e-76  257.1   0.0    3.5e-76  256.8   0.0    1.0  1  p450      Cytochrome P450


Domain annotation for each model (and alignments):
>> p450  Cytochrome P450
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  256.8   0.0     2e-80   3.5e-76       2     447 ..      26     453 ..      25     465 .. 0.89

  Alignments for each domain:
  == domain 1  score: 256.8 bits;  conditional E-value: 2e-80
                              -SESEHHCCHCHHHHTTTCCHHHHHHHHHHHH-SEEEEEETTEEEEEEESHHHHHHHHCTSTTTTCEESSHHHHHHHHHTTTTSSS CS
                     p450   2 pgptplplvgnllqlgrkeelhevlrklqkkygpifrlklgskpvvvlsgpeavkevlikkgeefsgrpdeallatsrkpfkgkgv 87 
                              pgp+ l ++  +l+++r + +   l+   + ygpi++ ++ + ++v++++p+ +k+vli+k+   +++ + ++++   +  +g+g+
  PHY93_02980|PHY93_02980  26 PGPRGLKFFKLMLHFQR-DSIGA-LEVTYRDYGPIVS-YPWPVSTVIIYNPKTIKQVLIDKN---QNYLKGSQTEE-MNVVMGQGL 104
                              78999999999999995.78888.99999*******8.68899******************7...55555566665.569999999 PP

                              TTCGH.HHHHHHHHHHHHHHTSHSTTTHHHHHHHHHHHHHHHHHCCCCHCS..EEETHHHHHHHHHHHHHHHHHSSHHHTTTSSHH CS
                     p450  88 lfang.ekwkklRrfltptltsfgklsleelveeeaedlveklrkkagess..elditellskaaldvigsilFgarfdlledekl 170
                              +++n    w ++R+++ ++l ++ ++ + +++++ a d+v ++ k+++ ++  +++i++ + + ++++ g++l+ga+++     ++
  PHY93_02980|PHY93_02980 105 VTNNDrVSWLRNRTIVSRELGTKPIRGFSSIIDKFATDMVFEWGKQNSHKAssVVSISTAMRNLTFSIAGKTLLGANLS---ATDA 187
                              9999989**************99899******************999988889***********************966...4444 PP

                              HHHHHHHHHHHHHHHCHHHHCCCCCHHHTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHCHCHCSCSSCSHHHHHHHHCTTCTCTS CS
                     p450 171 selvkaveelssllskssvqllllfpllkylptkllrklkeavkklkdlldklieerretldsakksrrdfldalllakkekkges 256
                              +e ++av   s++ +++++qll ++    ++pt+ + k++++++ l+ ++ +li+  + +ld++  ++ + l  l+ ak+ + +  
  PHY93_02980|PHY93_02980 188 EEVDEAVLFTSKMAHNHMFQLLPMPY---WIPTPANLKFHQHCRNLNRIVYRLINAEKNNLDKK-YTPQSILERLVHAKDPETN-L 268
                              67999999999999999988877766...67*********************************.79***********944444.5 PP

                              SSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHHHHHHHHCCTTTT-HHHHCCT-HHHHHHHHHHHHHSCSSTTEE CS
                     p450 257 klsdeelaatvlellfaGvdTtsstlswaLyeLaknPevqeklreEidevlgdkreptyddlqklpyldavikEtLRlhpvvplll 342
                               l+d  l+ +vl+ll+aG++Tts+tlsw+L ++a +P++q+++++E+d+     +  + +  +  p+l   i E  Rl++++p   
  PHY93_02980|PHY93_02980 269 PLDDLTLRDEVLTLLIAGYETTSNTLSWVLGLIAAHPKIQKEIQQELDNEQAPIE--STEFAKTYPLLYFSILEGIRLYTAIP-MS 351
                              8*********************************************998665544..34445678******************.55 PP

                              EEESSSCEEETTEEE-TT-EEEEEHHHHHT-TTTSSSTTS--GGGGB-TTSCTESSCTT--TTEEGGGS-TTHHHHHHHHHHHHHH CS
                     p450 343 pRevtkdvvirgylipkGtevivnlyalhrdpevfpnPeeFdpeRFldekgnskrksfaflPFGaGpRnCiGerlArmelklflat 428
                              +R++ +   +++y+ip++t v+++++ lhrd+ ++++P +F+peRF   +     k + ++PF+ G R C+Ge +A++e+ +++++
  PHY93_02980|PHY93_02980 352 SRKAISSDWFDHYFIPANTSVVIPVWVLHRDELYWDDPLVFKPERFRGVDI---NKLDTYIPFSKGSRRCVGEAFAIVEVAIIVSN 434
                              699999999****************************************98...5899**************************** PP

                              HHHHEEEEESTSTSGGEEE CS
                     p450 429 lLqnFevelqpetdpppil 447
                              +L+ F++ l+ +t p+ i 
  PHY93_02980|PHY93_02980 435 ILRSFDLALNAKTLPKAIA 453
                              ********97766665554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (475 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       459  (0.025601); expected 358.6 (0.02)
Passed bias filter:                      420  (0.0234257); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.67u 0.26s 00:00:00.93 Elapsed: 00:00:00.49
# Mc/sec: 2894.99
//
Query:       PHY93_02985|PHY93_02985  [L=309]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      3e-13   50.2  20.1    4.9e-13   49.5  20.1    1.3  1  FA_desaturase  Fatty acid desaturase
     0.0062   16.2   7.2     0.0062   16.2   7.2    1.6  2  PMT_4TMC       C-terminal four TMM region of protein-O-mannos


Domain annotation for each model (and alignments):
>> FA_desaturase  Fatty acid desaturase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.5  20.1   5.4e-17   4.9e-13       3     224 ..      50     247 ..      46     250 .. 0.77

  Alignments for each domain:
  == domain 1  score: 49.5 bits;  conditional E-value: 5.4e-17
            FA_desaturase   3 wlalllalllglfllgitgslaHeaaHgalfkkrklnrwlndllgallglplgisysawrisHlrHHaytngpdeDpdlaplalsr 88 
                              w +ll  lll + +++i +s+ H+++Hg+++     + +ln+l+g ++g ++g++++ +   H  HH++ ++++ Dp +       
  PHY93_02985|PHY93_02985  50 WHGLL--LLLSIPFGWIIASFLHNTGHGNIK-----SLFLNNLIGEFCGHFVGYGFTNFVLVHTLHHNH-SDQRFDPVS-----PE 122
                              55555..555555455557*********999.....8999***********************66**99.8999****9.....57 PP

            FA_desaturase  89 feglfry..llrlllgllvlgwllalvlglwlrrlarrrapsksrrrkwrllawlllllawlglwlalllllglalllwlvpllll 172
                              + ++ r+  ++  ++++            ++l ++    ++ k++ + ++++    l+l+ l++w++ll+  ++   ++++p+++ 
  PHY93_02985|PHY93_02985 123 GMSFLRFalAPTKYMISRTK---------EYLEFVHGKNRHYKTILHAQTVIFYINLILR-LVFWFLLLGPEFFI--FFYLPAVTS 196
                              77777773222233333333.........4999999999999999999999999999997.67777777766555..999999999 PP

            FA_desaturase 173 lfllalvlnyveHyggdwgerqvetsasir.saswllnlltgnlnyHieHHlf 224
                              ++l+    nyv H    +++  ve  +  +  + ++ n++t +  yH  HHl 
  PHY93_02985|PHY93_02985 197 NILILAHINYVCHRD--FKDGSVEVFNMNHnLYYKIANFITIGGYYHKSHHLK 247
                              88776666*****65..5555555554444669**********99******95 PP

>> PMT_4TMC  C-terminal four TMM region of protein-O-mannosyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.3      0.29   2.6e+03      58      61 ..      48      51 ..      16     105 .. 0.60
   2 !   16.2   7.2   6.9e-07    0.0062      70     171 ..     129     237 ..     122     246 .. 0.70

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 0.29
                 PMT_4TMC 58 vlww 61
                             ++w 
  PHY93_02985|PHY93_02985 48 LVWH 51
                             3333 PP

  == domain 2  score: 16.2 bits;  conditional E-value: 6.9e-07
                 PMT_4TMC  70 fvllllalllrrqrgvkdl.....eeeetr..llnsglflllgwalhylPffl.mgRvlflhhYlpAllfailllaalldfllksl 147
                              f+l    ++++r +++ ++     ++   +  l+ +++++ ++ +l ++ +fl  g   f++ YlpA+  +il+la++  ++++  
  PHY93_02985|PHY93_02985 129 FALAPTKYMISRTKEYLEFvhgknRHY--KtiLHAQTVIFYINLILRLVFWFLlLGPEFFIFFYLPAVTSNILILAHINYVCHRDF 212
                              555556677788888887777653333..24699**************988752799********************988887555 PP

                 PMT_4TMC 148 kkslkkk..klvklivvvvllvlvia 171
                              k+    +  ++ + + + +  +++i+
  PHY93_02985|PHY93_02985 213 KDGSV-EvfNMNHNLYYKIANFITIG 237
                              54443.24644444444444444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (309 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       551  (0.0307323); expected 358.6 (0.02)
Passed bias filter:                      293  (0.0163422); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 2055.70
//
Query:       PHY93_02990|PHY93_02990  [L=147]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (147 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       750  (0.0418317); expected 358.6 (0.02)
Passed bias filter:                      433  (0.0241508); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.26s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 976.00
//
Query:       PHY93_02995|PHY93_02995  [L=587]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    4.9e-06   26.7   1.6          2    8.8   0.0    4.5  5  TPR_12       Tetratricopeptide repeat
    1.1e-05   25.4   0.0    3.5e-05   23.8   0.0    1.9  1  Trans_reg_C  Transcriptional regulatory protein, C terminal
    0.00045   19.9   0.1      0.001   18.8   0.1    1.6  1  HTH_DeoR     DeoR-like helix-turn-helix domain
  ------ inclusion threshold ------
      0.013   14.9   0.3       0.79    9.0   0.7    2.6  2  TPR_MalT     MalT-like TPR region
      0.024   14.7   0.3       0.12   12.5   0.0    2.4  2  Fis1_TPR_C   Fis1 C-terminal tetratricopeptide repeat
      0.043   13.7   0.1       0.09   12.7   0.1    1.5  1  MarR         MarR family
      0.054   13.2   0.0        2.2    8.0   0.0    2.3  2  DUF1489      Protein of unknown function (DUF1489)


Domain annotation for each model (and alignments):
>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.9   0.0     0.052   1.3e+02      40      70 ..      59      89 ..      39      90 .. 0.87
   2 ?    1.5   0.0      0.14   3.6e+02      47      73 ..     106     132 ..      91     134 .. 0.73
   3 ?    1.8   0.0      0.12     3e+02       9      33 ..     110     134 ..     102     147 .. 0.62
   4 !    8.8   0.0   0.00077         2       6      38 ..     148     179 ..     141     186 .. 0.85
   5 !    8.1   0.4    0.0013       3.3       9      73 ..     230     292 ..     222     295 .. 0.72

  Alignments for each domain:
  == domain 1  score: 2.9 bits;  conditional E-value: 0.052
                   TPR_12 40 dhpltattlrnLgrlyralgryeeAlellee 70
                             d ++ +++l+ Lg  +++  +y +A+ +++e
  PHY93_02995|PHY93_02995 59 DLEERSACLFFLGLGHSRKSKYSKARLIFKE 89
                             55678899******************99987 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.14
                   TPR_12  47 tlrnLgrlyralgryeeAlelleeala 73 
                              ++++++ +++  g++e Al++ +++ +
  PHY93_02995|PHY93_02995 106 VYQGIAFYLFFIGKFELALKWTNKSFE 132
                              577777777778888888887777765 PP

  == domain 3  score: 1.8 bits;  conditional E-value: 0.12
                   TPR_12   9 laavlrrlgrydeAlellekaleia 33 
                              +a  l+  g+++ Al++ +k+ e a
  PHY93_02995|PHY93_02995 110 IAFYLFFIGKFELALKWTNKSFENA 134
                              4555555666666666666655555 PP

  == domain 4  score: 8.8 bits;  conditional E-value: 0.00077
                   TPR_12   6 lnnlaavlrrlgrydeAlellekaleiarrllG 38 
                                 l++v +rlg+    ++ l++a e+ rrl +
  PHY93_02995|PHY93_02995 148 D-LLGHVKLRLGEINLGIDSLKQAAELSRRLGN 179
                              3.7**************************9943 PP

  == domain 5  score: 8.1 bits;  conditional E-value: 0.0013
                   TPR_12   9 laavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleeala 73 
                              la  l+ +g+y+ ++e l+     +     +++ +++      ++ y++lgr  +A+++l+ a +
  PHY93_02995|PHY93_02995 230 LARQLTLRGQYAHSEEVLDNISISI--FSSENRRQEILLNLRFAENYYQLGRDSQAWNYLRSARR 292
                              5556666666666666666653222..23456677777888899*****************9987 PP

>> Trans_reg_C  Transcriptional regulatory protein, C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.8   0.0   1.4e-08   3.5e-05      14      76 ..     427     487 ..     426     488 .. 0.90

  Alignments for each domain:
  == domain 1  score: 23.8 bits;  conditional E-value: 1.4e-08
                              HHHHHHTTTSEEEHHHHHHHHTTTTS..TSHTHHHHHHHHHHHHHHHTTTTSSSSEEEETTTEEE CS
              Trans_reg_C  14 LelLlenpgrvvsreeLleevwgede..dvddrtvdvhisrLRkkLeddekkprlIetvrgvGYr 76 
                              L+lLl+  +  +s+eeL + vwg+++  +  d  + ++ s LRk L+    ++++Iet++ +GY 
  PHY93_02995|PHY93_02995 427 LKLLLNIVNGSCSKEELCKMVWGYEYdsYRHDMMIYTALSSLRKNLAS---ASSWIETTE-KGYA 487
                              78899999999***************8899999***************...668****86.5665 PP

>> HTH_DeoR  DeoR-like helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.1   3.9e-07     0.001       1      45 [.     526     570 ..     526     577 .. 0.91

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 3.9e-07
                 HTH_DeoR   1 RieqilellkqqgklsveelvellgvSeaTiRRDLneLeeqgllt 45 
                              R+ + l  l+++  + v e    ++vS+ T+ RDL+ L+e+gl++
  PHY93_02995|PHY93_02995 526 RQIKALSHLRKHEAIDVSEYKIIFKVSDITASRDLRALKEKGLVI 570
                              556668889*********************************975 PP

>> TPR_MalT  MalT-like TPR region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.0      0.08     2e+02      33     110 ..      57     134 ..      49     139 .. 0.83
   2 ?    9.0   0.7   0.00031      0.79     165     306 ..     148     290 ..     139     292 .. 0.82

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 0.08
                 TPR_MalT  33 eddllariaatavlGeasllqGdleaAlqalqeaeklarqadslhvallallqqaeilvaqGrLheAletyeqalqla 110
                              + dl +r a +++lG  +  + +  +A+  ++e +k++     + +  + + ++a  l+  G+++ Al++ +++++ a
  PHY93_02995|PHY93_02995  57 DVDLEERSACLFFLGLGHSRKSKYSKARLIFKENQKTLNINSTSLQKFYVYQGIAFYLFFIGKFELALKWTNKSFENA 134
                              568999*****************************9985555555566666677778888899999999999988766 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.00031
                 TPR_MalT 165 vllarialaqGdleeAetllekaeelaresnfhvdwlanaeevrvrlwlaqg..dlaaaerwleaaelpsdddnhflelelrnlar 248
                               ll +++l  G++    + l++a el r+   + +    +e + +++  + g  + a ++++l++  + + +d++ + +    lar
  PHY93_02995|PHY93_02995 148 DLLGHVKLRLGEINLGIDSLKQAAELSRRLGNKSISE-SVEIAELQYRAQYGysRDAIFKELLSKFANIKTEDSYSRAVVGLELAR 232
                              5788999999999999999999999988665543333.33444455555555215555688******99999************** PP

                 TPR_MalT 249 vllalgrydeAlellerLlkaaeelgrvrslieiliLqalalqaqgreeeAlaaLeqA 306
                               l ++g+y+  +e+l+++  +    ++ r++i  ++  a  ++++gr  +A + L+ A
  PHY93_02995|PHY93_02995 233 QLTLRGQYAHSEEVLDNISISIFSSENRRQEILLNLRFAENYYQLGRDSQAWNYLRSA 290
                              ***********************999999999999999999*****999999988766 PP

>> Fis1_TPR_C  Fis1 C-terminal tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   4.7e-05      0.12       3      22 ..      66      85 ..      64      89 .. 0.91
   2 ?   -3.4   0.0       4.1   1.1e+04      35      48 ..     168     181 ..     166     185 .. 0.74

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 4.7e-05
                             HHHHHHHHHHHHT-HHHHHH CS
               Fis1_TPR_C  3 clYylAlGhyklgeYseArr 22
                             cl++l lGh +  +Ys+Ar 
  PHY93_02995|PHY93_02995 66 CLFFLGLGHSRKSKYSKARL 85
                             ******************96 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 4.1
                              HHHHHHHHHHHHHH CS
               Fis1_TPR_C  35 rQaqsLkeliedki 48 
                              +Qa++L++ + +k 
  PHY93_02995|PHY93_02995 168 KQAAELSRRLGNKS 181
                              79999998777665 PP

>> MarR  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   3.5e-05      0.09       1      47 [.     523     569 ..     523     572 .. 0.97

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 3.5e-05
                              --HHHHHHHHHHHHSTTEEHHHHHHHHTS-HHHHHHHHHHHHHTTSE CS
                     MarR   1 ltltqfviLrilyeqgplsvseLakklgvskstvtrvldrLekkGli 47 
                              l+l q+++L  l+ ++++ vse    ++vs  t++r l++L +kGl+
  PHY93_02995|PHY93_02995 523 LNLRQIKALSHLRKHEAIDVSEYKIIFKVSDITASRDLRALKEKGLV 569
                              799*******************************************9 PP

>> DUF1489  Protein of unknown function (DUF1489)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.5   0.0     0.043   1.1e+02      76     117 ..     259     300 ..     242     309 .. 0.82
   2 ?    8.0   0.0   0.00084       2.2      49      92 ..     332     375 ..     321     382 .. 0.89

  Alignments for each domain:
  == domain 1  score: 2.5 bits;  conditional E-value: 0.043
                  DUF1489  76 ikrcalvldpelvrveprpkrpfQGWRYLkaedaPkDlekge 117
                               +r ++ l+ +  +   +  r  Q W YL+++    D+e+++
  PHY93_02995|PHY93_02995 259 NRRQEILLNLRFAENYYQLGRDSQAWNYLRSARRCLDFEADK 300
                              57888999999999999999**********998888877655 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.00084
                  DUF1489  49 slYwvikgeilarqrilgleevtdedgikrcalvldpelvrvep 92 
                              s   v++++il rq++l++e++++ed  +   + l+ el +v++
  PHY93_02995|PHY93_02995 332 SFNSVLNQNILKRQSLLAVETFNHEDLFHDFLVSLESELDPVKK 375
                              667799********************************999976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (587 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       567  (0.0316247); expected 358.6 (0.02)
Passed bias filter:                      356  (0.0198561); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.65u 0.23s 00:00:00.88 Elapsed: 00:00:00.45
# Mc/sec: 3902.84
//
Query:       PHY93_03000|PHY93_03000  [L=226]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.7e-07   30.6   0.5      0.022   15.3   0.1    2.9  2  PSCyt1           Planctomycete cytochrome C
    4.9e-05   23.6   0.0       0.38   11.1   0.0    2.3  2  Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
    0.00033   20.6   2.8        9.6    6.2   0.2    4.0  3  Haem_bd          Haem-binding domain
     0.0032   16.1   0.0       0.19   10.2   0.0    2.0  2  CTI              Fatty acid cis/trans isomerase (CTI)
     0.0037   18.2   0.0       0.57   11.1   0.0    2.2  2  Cytochrome_C554  Cytochrome c554 and c-prime
     0.0038   17.5   0.0        2.9    8.2   0.0    2.2  2  PSCyt3           Protein of unknown function (DUF1588)
     0.0065   17.6   0.0        6.9    7.9   0.0    2.3  2  Cytochrom_C      Cytochrome c
  ------ inclusion threshold ------
      0.023   15.0   0.0        1.8    8.9   0.0    2.3  2  DUF3365          Protein of unknown function (DUF3365)
      0.052   13.6   0.0        6.5    6.8   0.0    2.2  2  Cytochrome_C7    Cytochrome c7 and related cytochrome c
      0.068   12.9   0.2         13    5.6   0.0    2.3  2  Paired_CXXCH_1   Doubled CXXCH motif (Paired_CXXCH_1)
        1.1   10.1   4.6        3.6    8.5   0.6    2.5  2  GSu_C4xC__C2xCH  Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C


Domain annotation for each model (and alignments):
>> PSCyt1  Planctomycete cytochrome C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.7   0.1   9.1e-05      0.15       1      23 [.      56      79 ..      56      97 .. 0.83
   2 !   15.3   0.1   1.4e-05     0.022       1      26 [.     155     181 ..     155     196 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 9.1e-05
                   PSCyt1  1 CyeCHgpdda.egglrLdsrdaal 23
                             C+eCH+  +   gg++L+s +++ 
  PHY93_03000|PHY93_03000 56 CLECHSNGSGnAGGVNLESYSKVS 79
                             *******9999********99764 PP

  == domain 2  score: 15.3 bits;  conditional E-value: 1.4e-05
                   PSCyt1   1 CyeCHgpdda.egglrLdsrdaalkgg 26 
                              C+ CH+++   +gg++L++ ++++ + 
  PHY93_03000|PHY93_03000 155 CIGCHSDKGGnMGGVNLETYENVFDQR 181
                              ********99************99643 PP

>> Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.1   0.0   0.00023      0.38      10      62 ..      52     108 ..      43     113 .. 0.59
   2 !   10.4   0.0   0.00039      0.63      11      49 ..     152     194 ..     147     212 .. 0.53

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00023
          Cytochrome_CBB3  10 ykknCasCHg..kggag.pslagrdwepdalvdiiknGk..gaMpafggqlsdeelwa 62 
                               + +C  CH   +g+ag  +l+    + +   ++i+  +  g Mp  ++ ls +e++ 
  PHY93_03000|PHY93_03000  52 IAPKCLECHSngSGNAGgVNLESY-SKVSGYLAAIRGEIaaGSMPKNRSPLSTKEKEI 108
                              5558*****944444443444433.222333344444443568999999888888765 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 0.00039
          Cytochrome_CBB3  11 kknCasCHg..kggag.......pslagrdwepdalvdiiknGkgaMp 49 
                              +  C +CH    g++g        ++++   +  a++d++  G+  Mp
  PHY93_03000|PHY93_03000 152 ELRCIGCHSdkGGNMGgvnletyENVFD---QRHAIRDAVSSGN--MP 194
                              557*****94322222433322222222...2356666776664..66 PP

>> Haem_bd  Haem-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.2   0.2    0.0059       9.6      36      49 ..      50      63 ..      42      78 .. 0.86
   2 ?    5.3   0.0     0.011        17      89     132 ..      77     114 ..      68     115 .. 0.80
   3 !    5.9   0.1    0.0072        12      35      78 ..     148     197 ..     127     206 .. 0.68

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.0059
                  Haem_bd 36 kiLeksCydCHsne 49
                              i+  +C +CHsn 
  PHY93_03000|PHY93_03000 50 GIIAPKCLECHSNG 63
                             577889******96 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.011
                  Haem_bd  89 kesk.laeieevieegemPlksYlllhpeaklseeekqallewik 132
                              k+s  la i  +i+ g+mP        +++ ls++ek++ l+wi+
  PHY93_03000|PHY93_03000  77 KVSGyLAAIRGEIAAGSMPK-------NRSPLSTKEKEIFLSWID 114
                              33334999999999999999.......789999999999999985 PP

  == domain 3  score: 5.9 bits;  conditional E-value: 0.0072
                  Haem_bd  35 kkiLeksCydCHsne......telpwYakiapvswlvekdvkeGrkelnf 78 
                              ++++e +C  CHs +       +l  Y+++      +++ v++G+  l  
  PHY93_03000|PHY93_03000 148 SRVIELRCIGCHSDKggnmggVNLETYENVFDQRHAIRDAVSSGNMPLAT 197
                              567799*******8633333346777777777777777777777766655 PP

>> CTI  Fatty acid cis/trans isomerase (CTI)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    3.9   0.0    0.0093        15      85     117 ..      91     123 ..      77     134 .. 0.81
   2 !   10.2   0.0   0.00012      0.19      84     114 ..     189     219 ..     176     225 .. 0.84

  Alignments for each domain:
  == domain 1  score: 3.9 bits;  conditional E-value: 0.0093
                      CTI  85 eeGmPyglpgLskeeyetlkkWleqGakeekka 117
                                 mP   + Ls++e e+  +W+++G++ e+++
  PHY93_03000|PHY93_03000  91 AGSMPKNRSPLSTKEKEIFLSWIDAGGPRESST 123
                              56799999*******************965543 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 0.00012
                      CTI  84 peeGmPyglpgLskeeyetlkkWleqGakee 114
                              ++  mP+++  L++ + ++l  Wle+Ga+e+
  PHY93_03000|PHY93_03000 189 SSGNMPLATRPLTNVQKQILLIWLEKGAPET 219
                              5667************************976 PP

>> Cytochrome_C554  Cytochrome c554 and c-prime
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.1   0.0   0.00035      0.57      48      71 ..      53      76 ..      23      81 .. 0.84
   2 ?    4.9   0.0     0.032        52      47      69 ..     151     173 ..     137     181 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00035
                             -TTTGGGSBSTTTSTT---SSS-- CS
          Cytochrome_C554 48 apeClkCHatgagkdkgfvlkekt 71
                             ap+Cl+CH  g g+ +g+ l++ +
  PHY93_03000|PHY93_03000 53 APKCLECHSNGSGNAGGVNLESYS 76
                             79**************99887655 PP

  == domain 2  score: 4.9 bits;  conditional E-value: 0.032
                              T-TTTGGGSBSTTTSTT---SSS CS
          Cytochrome_C554  47 eapeClkCHatgagkdkgfvlke 69 
                               + +C++CH    g+ +g+ l++
  PHY93_03000|PHY93_03000 151 IELRCIGCHSDKGGNMGGVNLET 173
                              5678******9999988887765 PP

>> PSCyt3  Protein of unknown function (DUF1588)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.1   0.0    0.0041       6.7      68      91 ..      53      78 ..      30      83 .. 0.87
   2 !    8.2   0.0    0.0018       2.9      39      91 ..     125     177 ..     120     183 .. 0.65

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.0041
                   PSCyt3 68 aeaCasCHe..lidplGfalenfdav 91
                             a++C +CH+    +  G+ le++ +v
  PHY93_03000|PHY93_03000 53 APKCLECHSngSGNAGGVNLESYSKV 78
                             689*****97788999*******987 PP

  == domain 2  score: 8.2 bits;  conditional E-value: 0.0018
                   PSCyt3  39 ppppanvpelkeeeeeelttrerleahrsaeaCasCHe..lidplGfalenfdav 91 
                              pp p++ p++ ++ ++     + ++ +  + +C +CH+    +  G+ le++++v
  PHY93_03000|PHY93_03000 125 PPTPSTPPDVMPDPDK--IEYQMVSSRVIELRCIGCHSdkGGNMGGVNLETYENV 177
                              4444444555555443..34555666667788*****97456777899****987 PP

>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.9   0.0    0.0042       6.9      10      62 ..      49     116 ..      41     137 .. 0.65
   2 !    7.7   0.0    0.0047       7.7       9      28 ..     152     181 ..     146     220 .. 0.66

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.0042
                              T.....TGGGTB-SSSBSSS..............--HHHHHHHTTT-HHHHHHHHTTSS--SSSHHHH CS
              Cytochrom_C  10 a.....nCaaCHgvegggakqgg..........gptlsgaaerasaasigasvanpaavsaprddfek 62 
                              a     +C  CH+ + g a++ +           ++++g++++ s  ++++  + +++   + ++ ++
  PHY93_03000|PHY93_03000  49 AgiiapKCLECHSNGSGNAGGVNlesyskvsgyLAAIRGEIAAGSMPKNRSPLSTKEKEIFLSWIDAG 116
                              4455559*****98888877555778777777766666666666666666655555555555555555 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.0047
                              HTTGGGTB-SSSBSSS.............. CS
              Cytochrom_C   9 tanCaaCHgvegggakqgg..........g 28 
                              +  C +CH+ +gg  ++ +           
  PHY93_03000|PHY93_03000 152 ELRCIGCHSDKGGNMGGVNletyenvfdqR 181
                              568*****9999988755455544444440 PP

>> DUF3365  Protein of unknown function (DUF3365)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   0.0    0.0011       1.8     106     125 ..      44      63 ..      10      83 .. 0.80
   2 ?    4.4   0.0     0.026        43     111     125 ..     147     162 ..      98     184 .. 0.82

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.0011
                              EEEEEEEE--TTTHHHHS-G CS
                  DUF3365 106 fryarplrveesClkCHgdp 125
                              + + ++  + ++Cl+CH++ 
  PHY93_03000|PHY93_03000  44 YQIIAAGIIAPKCLECHSNG 63 
                              566677778999*****876 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.026
                              EEE-.-TTTHHHHS-G CS
                  DUF3365 111 plrv.eesClkCHgdp 125
                                rv e  C+ CH+d+
  PHY93_03000|PHY93_03000 147 SSRViELRCIGCHSDK 162
                              34444889*****998 PP

>> Cytochrome_C7  Cytochrome c7 and related cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6   0.0      0.02        32      14      23 ..      54      63 ..      40      85 .. 0.73
   2 ?    6.8   0.0     0.004       6.5      45      60 ..     150     165 ..     129     188 .. 0.71

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.02
            Cytochrome_C7 14 ykCtdCHskl 23
                              kC +CHs+ 
  PHY93_03000|PHY93_03000 54 PKCLECHSNG 63
                             4677777664 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.004
            Cytochrome_C7  45 vesltCgaCHdgknaf 60 
                              v +l C+ CH +k  +
  PHY93_03000|PHY93_03000 150 VIELRCIGCHSDKGGN 165
                              2225599999998765 PP

>> Paired_CXXCH_1  Doubled CXXCH motif (Paired_CXXCH_1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   0.0    0.0081        13       8      15 ..      55      62 ..      50      72 .. 0.70
   2 ?    5.0   0.0     0.012        20      33      40 ..     155     162 ..     144     169 .. 0.72

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.0081
           Paired_CXXCH_1  8 eClsCHnp 15
                             +Cl CH+ 
  PHY93_03000|PHY93_03000 55 KCLECHSN 62
                             46666654 PP

  == domain 2  score: 5.0 bits;  conditional E-value: 0.012
           Paired_CXXCH_1  33 CysCHdek 40 
                              C +CH++k
  PHY93_03000|PHY93_03000 155 CIGCHSDK 162
                              66666654 PP

>> GSu_C4xC__C2xCH  Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.5   0.6    0.0022       3.6       7      18 ..      59      70 ..      56      74 .. 0.84
   2 ?    2.4   0.2      0.17   2.7e+02       6      12 ..     157     165 ..     154     175 .. 0.63

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.0022
          GSu_C4xC__C2xCH  7 CHsnGtgtspta 18
                             CHsnG+g++++ 
  PHY93_03000|PHY93_03000 59 CHSNGSGNAGGV 70
                             *******99875 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.17
          GSu_C4xC__C2xCH   6 YCHsn..Gt 12 
                               CHs+  G+
  PHY93_03000|PHY93_03000 157 GCHSDkgGN 165
                              599965443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (226 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       349  (0.0194657); expected 358.6 (0.02)
Passed bias filter:                      316  (0.0176251); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.46
# Mc/sec: 1475.19
//
Query:       PHY93_03005|PHY93_03005  [L=185]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.5e-15   58.0   0.1    1.8e-15   57.8   0.1    1.2  1  YceI      YceI-like domain


Domain annotation for each model (and alignments):
>> YceI  YceI-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.8   0.1     1e-19   1.8e-15      40     144 ..      59     180 ..      16     182 .. 0.83

  Alignments for each domain:
  == domain 1  score: 57.8 bits;  conditional E-value: 1e-19
                              T..EEEEEEEEGGGEESS.HCHHHHHHCTCTT-TTT--EEEECCCCEE................EEEEEEETTEEEEEEEEEEEEE CS
                     YceI  40 p.essvevtidvasidtgnakrdehlksadffdvakyPtatFvstsve..............akvtGdLtikGvtkpvtlpvtvng 110
                                + sve ++ ++ +dtg   rdeh+k+ +f++v+++Pta +++ +++              +  +G+Lt++G ++++  ++++++
  PHY93_03005|PHY93_03005  59 NnKMSVESSLVLNDLDTGIGLRDEHMKE-KFLQVKEFPTAFLKIENITlpngfeakplsikdQPFEGKLTLHGREQKIAGTFSLSE 143
                              2134577789*****************9.***********889999999***********99668*************99999974 PP

                              EECCEECEEEEEGGGGTC......TTTC-SEEEEEEEE CS
                     YceI 111 aaagfsatgtidrtdFGlkr....galvgdeveleiel 144
                              + ++  a+++i++tdFG++     g+ v+d+v ++ ++
  PHY93_03005|PHY93_03005 144 S-LELIAKFSIKLTDFGIEIpsylGVNVADTVVIDTKF 180
                              3.4455***********9778899999*****998776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (185 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       264  (0.0147247); expected 358.6 (0.02)
Passed bias filter:                      228  (0.0127168); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.43
# Mc/sec: 1306.59
//
Query:       PHY93_03010|PHY93_03010  [L=384]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   6.3e-145  482.7   0.0   7.9e-145  482.4   0.0    1.0  1  TGT       Queuine tRNA-ribosyltransferase


Domain annotation for each model (and alignments):
>> TGT  Queuine tRNA-ribosyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  482.4   0.0  4.4e-149  7.9e-145       1     349 [.      22     374 ..      21     375 .. 0.98

  Alignments for each domain:
  == domain 1  score: 482.4 bits;  conditional E-value: 4.4e-149
                              ETEEEEEEEETTEEEEESEEEEBETTSSBTTB-HHHHH.HTTES-EEEEHHHHHHTTTHHHHHHTTHHHHHHT--S-EEEE-SHHH CS
                      TGT   1 dgaRlGklelphgtietPafmpvgtqgtvkgltpdelkeelgaqiilsntyhlelrpgeelvakagglhkflgwdkpiltdsggfq 86 
                              ++aR+G +++phg+i tP+fmpvgt+g+vk+l+p +l ee++++iilsntyhl+++pg++l++kagglhkf++w++piltdsggfq
  PHY93_03010|PHY93_03010  22 CKARAGMIKTPHGDIPTPVFMPVGTHGAVKALQPSVL-EEMDTKIILSNTYHLHMTPGSDLIKKAGGLHKFMNWPRPILTDSGGFQ 106
                              68***********************************.599********************************************* PP

                              HHHH.E.EEESSEEEEE-TTTS-EEEE-HHHHHHHHHHHT-SEEE-------SS--HHHHHHHHHHHHHHHHHHHHHH....SEEE CS
                      TGT  87 vfsl.k.kiteegvsfqsridGskvlltpeesieiqeklgsDiimalddvvpspaskkrveksverTlrwldrcleah....qalf 166
                              vfsl k +i+eeg++f    +G+k+ll+pe+si iq++lgsDi+ma+d+++p+pas+++ ++s++rT+rwldrc+e +    qalf
  PHY93_03010|PHY93_03010 107 VFSLqKkSIKEEGAEFADL-KGKKILLSPETSITIQQNLGSDIMMAFDECIPYPASREYTKTSMDRTHRWLDRCIETWvnpkQALF 191
                              ****84599*******999.5******************************************************9999**899** PP

                              EEE--TT-HHHHHHHHHHHHHH--SEEEE-SSSSSSHHHHHHHHHHHHGGGS-TTS-EEETTB-SHHHHHHHHHTT--EEEESHHH CS
                      TGT 167 givqGglyedlreesaeelakrdfdgyaigGlsvgeekeellevveavtellpedkprylmGvgtPedlleavalGvDmfdcvypt 252
                              gi+qG++y+dlr+e+++el+krd++gyaigG+svge +e + ++++++++l+pe+kpry mG+g+Pedl+ + + G+Dm dc +pt
  PHY93_03010|PHY93_03010 192 GIIQGSTYNDLRRECIDELVKRDLPGYAIGGVSVGEGSEWMEKIISYAAPLMPENKPRYAMGIGNPEDLIMLWENGIDMSDCIIPT 277
                              ************************************************************************************** PP

                              HHHHTTEEEETTEEEETTSGGGTT--SBSSSS--SHHHHH-BHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHHHHHHHHHTT-HH CS
                      TGT 253 rtarngraltsegelnlknakyaedfspldegCsCytCknytraylhhllktkemlgaiLltiHNlhyylelfkriReaIkegtfe 338
                              + ar g+++t++g++++++ +y++df p+d++C CytCkn++ray++hl+ ++e+lg+iL+t HN++yy++l +++R+aI +++f 
  PHY93_03010|PHY93_03010 278 KFARGGTLFTTRGKIRIRHRNYRRDFYPIDHSCGCYTCKNFSRAYIKHLFDSNEILGQILATTHNIAYYKGLAESARTAILADRFL 363
                              ************************************************************************************** PP

                              HHHHHHHHHHT CS
                      TGT 339 efveefarkye 349
                              +f++ef+++y+
  PHY93_03010|PHY93_03010 364 DFKKEFFANYT 374
                              ********996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (384 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       381  (0.0212505); expected 358.6 (0.02)
Passed bias filter:                      350  (0.0195214); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.26s 00:00:00.80 Elapsed: 00:00:00.45
# Mc/sec: 2554.29
//
Query:       PHY93_03015|PHY93_03015  [L=600]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.024   14.4   0.0      0.043   13.6   0.0    1.4  1  AKAP28    28 kDa A-kinase anchor
       0.81    9.8   0.0       0.81    9.8   0.0    3.7  2  DUF4870   Domain of unknown function (DUF4870)


Domain annotation for each model (and alignments):
>> AKAP28  28 kDa A-kinase anchor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   4.8e-06     0.043      79     120 ..     537     578 ..     529     579 .. 0.91

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 4.8e-06
                   AKAP28  79 kpkeapvevtyvfEgsrlvhrpgksrfrekwlkdiiesKlil 120
                              +  ++p+  ty +++ + vh+ ++ + r +++k+++++K+ l
  PHY93_03015|PHY93_03015 537 ERSNYPILLTYYINEAKKVHDLDNPSWRAFFIKNVLQTKQAL 578
                              5679***********************************876 PP

>> DUF4870  Domain of unknown function (DUF4870)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?  -14.8  18.9         2   1.8e+04      55      57 ..     175     177 ..     107     317 .. 0.71
   2 ?    9.8   0.0     9e-05      0.81      26      58 ..     356     388 ..     338     433 .. 0.87

  Alignments for each domain:
  == domain 1  score: -14.8 bits;  conditional E-value: 2
                  DUF4870  55 liy 57 
                              +iy
  PHY93_03015|PHY93_03015 175 TIY 177
                              333 PP

  == domain 2  score: 9.8 bits;  conditional E-value: 9e-05
                  DUF4870  26 PlviwllkkdksefvdeqgkealNFqislliys 58 
                               l+++ lk++ks +++eq++ +lNF +  l y+
  PHY93_03015|PHY93_03015 356 GLILYDLKNKKSLVMREQSRTSLNFALFKLRYA 388
                              699**********************99776665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (600 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       792  (0.0441742); expected 358.6 (0.02)
Passed bias filter:                      429  (0.0239277); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.69u 0.25s 00:00:00.94 Elapsed: 00:00:00.47
# Mc/sec: 3830.73
//
Query:       PHY93_05295|PHY93_05295  [L=680]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    7.7e-28   97.3   0.3    1.6e-27   96.2   0.3    1.5  1  HATPase_c     Histidine kinase-, DNA gyrase B-, and HSP90-lik
    1.2e-25   89.9   0.0    2.8e-25   88.6   0.0    1.7  1  Response_reg  Response regulator receiver domain
    4.6e-18   65.0   0.3    1.4e-17   63.5   0.1    2.0  2  HisKA         His Kinase A (phospho-acceptor) domain
    1.9e-15   56.9   0.0    6.5e-15   55.2   0.1    2.0  2  PAS_3         PAS fold
    1.9e-11   44.1   0.0    6.7e-05   23.1   0.0    2.7  2  PAS_9         PAS domain
    3.6e-10   40.1   0.0    8.5e-07   29.2   0.0    2.6  2  PAS_4         PAS fold
    4.8e-06   26.5   0.0      0.021   14.8   0.0    3.2  2  PAS           PAS fold
     0.0053   16.6   0.1      0.011   15.6   0.1    1.5  1  HATPase_c_3   Histidine kinase-, DNA gyrase B-, and HSP90-lik
  ------ inclusion threshold ------
      0.094   13.3   0.0         12    6.5   0.0    2.6  2  PAS_10        PAS domain


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   96.2   0.3   7.9e-31   1.6e-27       2     108 ..     422     534 ..     421     537 .. 0.92

  Alignments for each domain:
  == domain 1  score: 96.2 bits;  conditional E-value: 7.9e-31
                              HHHHHHHHHHHHHHHHHHHHSTTTEEEEEEEEEE.....TEEEEEEEESSSSSTTHHHTGTCSTTCH.HCSTCHTSTSSSHHHHHH CS
                HATPase_c   2 dekrLrqiisnlvdNavkfatkageieveikase.....ddlvisveDnGiGipkedlkklfekfsq.ddstkrggggtGlGlsiv 81 
                              d++rLrqi++n+++Na+kf t++g + v++k+++      +l+++v+D+G+G+++e+ ++lfe+f+q d++t+r+ ggtGlGl+++
  PHY93_05295|PHY93_05295 422 DPTRLRQIFINIIGNAIKF-TDMGGVAVHVKSKQhmdgtLKLSVEVTDTGRGLTEEQKNRLFEPFTQaDNTTTRQFGGTGLGLALS 506
                              899****************.99*********7446677789999***********************999999999********** PP

                              HHHHHHTTTEEEE.EEETTTEEEEEEEE CS
                HATPase_c  82 kklvelmgGeiwv.esepgrGttftftl 108
                              k+l+e +gG+i++ + e++rG+tf++++
  PHY93_05295|PHY93_05295 507 KRLSEALGGTITIdKYEEDRGCTFIVSF 534
                              *************666669*****9865 PP

>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.6   0.0   1.4e-28   2.8e-25       1     111 [.     566     675 ..     566     676 .. 0.98

  Alignments for each domain:
  == domain 1  score: 88.6 bits;  conditional E-value: 1.4e-28
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseeeda 86 
                              vl +dD+p+++ l++ +l+ +g  ev  a+dg+ea++++ + k+dl+l+Di+mp+mdG++++k + ++ +++p+++ltah+  e++
  PHY93_05295|PHY93_05295 566 VLFADDSPDNQFLIEHFLTINGA-EVSLASDGSEAVDKALAGKFDLVLMDIQMPKMDGYQATKVLLKRGYKTPIVALTAHAMAEER 650
                              799********************.************************************************************** PP

                              HHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  87 vealkagaddflsKpfdpeeLlkal 111
                              ++   +g +++l+Kp++ +eLl+ +
  PHY93_05295|PHY93_05295 651 TRTKAVGFSGHLTKPLNFTELLQTI 675
                              *********************9976 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.5   0.1     7e-21   1.4e-17       2      67 .]     309     374 ..     308     374 .. 0.89
   2 ?   -2.9   0.0       3.7   7.4e+03      16      30 ..     637     651 ..     635     678 .. 0.53

  Alignments for each domain:
  == domain 1  score: 63.5 bits;  conditional E-value: 7e-21
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHC..T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH CS
                    HisKA   2 lgrflagvaHELrtPLsailgnaeaLkregklteelkeyletiesearrldhlvedlLdlsrieag 67 
                              ++ fla+++HE+rtPL ailg++e+Lk  +       +y+eti ++++ l+++++d+Ld+++ eag
  PHY93_05295|PHY93_05295 309 KTAFLANMSHEIRTPLGAILGFSELLKSANLEHVLRDQYIETISRNGQNLTRIIDDILDIAKVEAG 374
                              789***********************996333344555*************************997 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 3.7
                              HHHHHHHHHHHHHC. CS
                    HisKA  16 PLsailgnaeaLkre 30 
                              P+ a+ + a a +r+
  PHY93_05295|PHY93_05295 637 PIVALTAHAMAEERT 651
                              555554444443443 PP

>> PAS_3  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.7   0.0       7.7   1.5e+04      64      81 ..     131     148 ..     125     154 .. 0.77
   2 !   55.2   0.1   3.2e-18   6.5e-15       3      89 .]     198     282 ..     196     282 .. 0.92

  Alignments for each domain:
  == domain 1  score: -3.7 bits;  conditional E-value: 7.7
                    PAS_3  64 eyrwveararvirdengk 81 
                              e +++  + ++ird++g 
  PHY93_05295|PHY93_05295 131 EECYFNLSFSPIRDDSGY 148
                              567788899999999985 PP

  == domain 2  score: 55.2 bits;  conditional E-value: 3.2e-18
                    PAS_3   3 yvserveeilGyspeellgkveswldlvhpeDrervrealqealkkgepyegeyRirrkdGeyrwveararvirdengkpvrvigv 88 
                              y+++ + e+ G  ++  +++   w++++hp D++ v +a+  ++++g+p+++eyRirr dGeyrw+  ra +i++++  ++++ g+
  PHY93_05295|PHY93_05295 198 YANRFCLEYSGMVSQKKYSD--GWIQAIHPYDLPSVSRAWISSVRTGKPFKEEYRIRRVDGEYRWFLGRALPIKNNSDVILYWNGT 281
                              66677778888888888888..*****************************************************99999999998 PP

                    PAS_3  89 a 89 
                              a
  PHY93_05295|PHY93_05295 282 A 282
                              6 PP

>> PAS_9  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.1   0.0   3.3e-08   6.7e-05      12     104 .]      66     161 ..      57     161 .. 0.92
   2 !   18.3   0.0     1e-06     0.002       2     102 ..     185     285 ..     184     287 .. 0.85

  Alignments for each domain:
  == domain 1  score: 23.1 bits;  conditional E-value: 3.3e-08
                    PAS_9  12 rilyaNeaalrllG.yspeevlgksitdlfvtdpeanerlraaleqgrk...kerevevvlirkng..etfwvlltaspvkdddge 91 
                               i ++N+a++ +lG  s+   +g   + +f    ea ++l+ ++e+  +    ++ + +    +ng  e+ +++l++sp++dd+g 
  PHY93_05295|PHY93_05295  66 YIQFYNDAFNSVLGkDSRPVAMGMGARGTF---TEAWKTLEPIFEEVLSgktVFFKDRLLPLFRNGslEECYFNLSFSPIRDDSGY 148
                              377***********777999**********...99999999999999889989999**********999***************** PP

                    PAS_9  92 lvgiivilrDite 104
                              l g+ +i++D+te
  PHY93_05295|PHY93_05295 149 LAGVMAIFHDVTE 161
                              ************8 PP

  == domain 2  score: 18.3 bits;  conditional E-value: 1e-06
                    PAS_9   2 dgilidnpdgril.yaNeaalrllG.yspeevlgksitdlf.vtdpeanerlraaleqgrkkerevevvlirkngetfwvlltasp 84 
                              ++++  +pdg ++ yaN+  l+  G  s +      i  +  ++ p+  +     +++g+  ++ +e+ ++r +ge+ w+l +a p
  PHY93_05295|PHY93_05295 185 HMMWTSTPDG-VVnYANRFCLEYSGmVSQKKYSDGWIQAIHpYDLPSVSRAWISSVRTGK--PFKEEYRIRRVDGEYRWFLGRALP 267
                              5678878***.999***********65577788888888886666666666666666676..************************ PP

                    PAS_9  85 vkdddgelvgiivilrDi 102
                              +k++++ +  + ++ +Di
  PHY93_05295|PHY93_05295 268 IKNNSDVILYWNGTATDI 285
                              ********9999999999 PP

>> PAS_4  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.2   0.0   4.3e-10   8.5e-07      19     109 ..      69     163 ..      53     164 .. 0.77
   2 !    8.2   0.0    0.0015       2.9      12     105 ..     191     285 ..     181     290 .. 0.78

  Alignments for each domain:
  == domain 1  score: 29.2 bits;  conditional E-value: 4.3e-10
                    PAS_4  19 yaNaaaae.lfgappeellGktlaellpeedaarleralrrvlegeepiefleelll.....pgeerhyelrllPlrdesGevigv 98 
                              ++N a+ + l++ ++  ++G+  +  ++e +   le++ ++vl+g ++++f + ll+     + ee++++l+++P+rd+sG   gv
  PHY93_05295|PHY93_05295  69 FYNDAFNSvLGKDSRPVAMGMGARGTFTE-AWKTLEPIFEEVLSG-KTVFFKDRLLPlfrngSLEECYFNLSFSPIRDDSGYLAGV 152
                              55666666333333344455555544444.5567899999*****.577777778888**9999********************** PP

                    PAS_4  99 lvisrDiTerr 109
                              ++i++D+Te++
  PHY93_05295|PHY93_05295 153 MAIFHDVTEQV 163
                              *********85 PP

  == domain 2  score: 8.2 bits;  conditional E-value: 0.0015
                    PAS_4  12 dpdgrvlyaNaaaae.lfgappeellGktlaellpeedaarleralrrvlegeepiefleelll.pgeerhyelrllPlrdesGev 95 
                               pdg+v yaN+   e  + ++++ + +   + ++p  d + ++ra+   +++++p +++   ++ +ge r+++ r+lP+++ s  +
  PHY93_05295|PHY93_05295 191 TPDGVVNYANRFCLEySGMVSQKKYSDGWIQAIHPY-DLPSVSRAWISSVRTGKPFKEEYRIRRvDGEYRWFLGRALPIKNNSDVI 275
                              689999999999888344455555555555566665.9999**************************************9876666 PP

                    PAS_4  96 igvlvisrDi 105
                              + + ++++Di
  PHY93_05295|PHY93_05295 276 LYWNGTATDI 285
                              6666666666 PP

>> PAS  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.6   0.0    0.0019       3.7       8     113 .]      53     159 ..      47     159 .. 0.82
   2 !   14.8   0.0     1e-05     0.021       2     113 .]     175     285 ..     174     285 .. 0.85

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.0019
                              HHSSSEEEEEETTSBEEEECHHHHHHHSSTH.HHCTTSBGGGGBSTTHHHHHHHHHHHHHHHTT-ECCCCEEEEC.TTSS..EEEE CS
                      PAS   8 eslpdpifvvDedgrilyvNaaaeellGlsr.eevlgkslldliheeddaelaelleqlleqgeesrageisfkl.rdgr..pihl 89 
                              ++  +p+ vv  +  i + N+a+++ lG +    ++g    + + e    ++ e + +  ++g+    +++ ++l r+g+  + ++
  PHY93_05295|PHY93_05295  53 DNG-SPMYVVWGSEYIQFYNDAFNSVLGKDSrPVAMGMGARGTFTEAW--KTLEPIFEEVLSGKTVFFKDRLLPLfRNGSleECYF 135
                              444.45555559999*************99889999999999998754..699999999999999999999999998887224556 PP

                              EEEEEEEEETTEEEEEEEEEEEES CS
                      PAS  90 evraspvrdaggeilgflgvlrdi 113
                               +  sp+rd +g + g++ +++d+
  PHY93_05295|PHY93_05295 136 NLSFSPIRDDSGYLAGVMAIFHDV 159
                              77789*******999*******97 PP

  == domain 2  score: 14.8 bits;  conditional E-value: 1e-05
                              HHHHHHHHSSSEEEEEETTSBEEEECHHHHHHHSSTHHHCTTSBGGGGBSTTHHHHHHHHHHHHHHHTT-ECCCCEEEECTTSSEE CS
                      PAS   2 dlraileslpdpifvvDedgrilyvNaaaeellGlsreevlgkslldliheeddaelaelleqlleqgeesrageisfklrdgrpi 87 
                              ++r++ +++p +++    dg+++y+N+   e  G   +   +   +  ih+ d   + ++     ++g++++ + + +++ dg+++
  PHY93_05295|PHY93_05295 175 RYRSQADTIPHMMWTSTPDGVVNYANRFCLEYSGMVSQKKYSDGWIQAIHPYDLPSVSRAWISSVRTGKPFKEEYRIRRV-DGEYR 259
                              79999****************************98887777777777887776557777777777777777777776666.***** PP

                              EEEEEEEEEEETTEEEEEEEEEEEES CS
                      PAS  88 hlevraspvrdaggeilgflgvlrdi 113
                              +++ ra p+ + ++ il++ g++ di
  PHY93_05295|PHY93_05295 260 WFLGRALPIKNNSDVILYWNGTATDI 285
                              *******************9999997 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.1   5.4e-06     0.011       9      92 ..     432     518 ..     425     551 .. 0.74

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 5.4e-06
              HATPase_c_3   9 elvdNsld.Adaenvkievnknrgkt....geivieDdGkGmseeelknalrlatsskeakrkstslGkkGiGlklAslslgkklt 89 
                               ++ N++   d+  v ++v+ +++ +     ++ ++D G G++ee+  + +++ t++ +  ++ ++ G  G+Gl l+   + +   
  PHY93_05295|PHY93_05295 432 NIIGNAIKfTDMGGVAVHVKSKQHMDgtlkLSVEVTDTGRGLTEEQKNRLFEPFTQADN--TTTRQFGGTGLGLALSKRLSEALGG 515
                              6888999888999999999987744445558999******************9999999..48999*******7766554444444 PP

              HATPase_c_3  90 vit 92 
                               it
  PHY93_05295|PHY93_05295 516 TIT 518
                              444 PP

>> PAS_10  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.5   0.0    0.0062        12      78     106 .]     132     160 ..      97     160 .. 0.81
   2 ?    4.0   0.0     0.037        75      43     105 ..     220     285 ..     217     286 .. 0.82

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.0062
                   PAS_10  78 gkwvlvrylpyrdedgeiaGvvetfvDit 106
                              + ++ +  +p+rd+ g  aGv+ +f D+t
  PHY93_05295|PHY93_05295 132 ECYFNLSFSPIRDDSGYLAGVMAIFHDVT 160
                              55788899*******************96 PP

  == domain 2  score: 4.0 bits;  conditional E-value: 0.037
                   PAS_10  43 ladihpkkavknveeviealrtgekdevevvvp...kngkwvlvrylpyrdedgeiaGvvetfvDi 105
                              +++ihp +  +  +  i ++rtg+  ++e+ +     + +w+l r lp++ + ++i   + t +Di
  PHY93_05295|PHY93_05295 220 IQAIHPYDLPSVSRAWISSVRTGKPFKEEYRIRrvdGEYRWFLGRALPIKNNSDVILYWNGTATDI 285
                              688999999999999*********9888888765557789*********99998887666666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (680 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       740  (0.0412739); expected 358.6 (0.02)
Passed bias filter:                      693  (0.0386525); expected 358.6 (0.02)
Passed Vit filter:                        67  (0.00373696); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.87u 0.37s 00:00:01.24 Elapsed: 00:00:00.68
# Mc/sec: 3037.98
//
Query:       PHY93_06040|PHY93_06040  [L=100]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.2e-08   32.6   0.0      9e-08   32.3   0.0    1.1  1  PqqD             Coenzyme PQQ synthesis protein D (PqqD)
  ------ inclusion threshold ------
      0.032   13.9   0.1      0.048   13.3   0.1    1.4  1  Nbl1_Borealin_N  Nbl1 / Borealin N terminal
        0.1   13.0   0.0       0.18   12.3   0.0    1.4  1  Inhibitor_I69    Spi protease inhibitor


Domain annotation for each model (and alignments):
>> PqqD  Coenzyme PQQ synthesis protein D (PqqD)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.3   0.0   1.5e-11     9e-08       2      67 .]      25      90 ..      24      90 .. 0.96

  Alignments for each domain:
  == domain 1  score: 32.3 bits;  conditional E-value: 1.5e-11
                             EEEE-SS-..EEE--CHHHHHHHH-SSSS-HHHHHHHHHHHCT--HHHHHHHHHHHHHHHHCTT-- CS
                     PqqD  2 yvlldpetgkyisLnetgafiWklldgersveeivaalaeeydvdeeeaeadvlafldqLrekgli 67
                             y +++ ++++ ++L++ +a + ++ dg +s+e i++++ +e d  ++  ++ ++ +l++L+++ li
  PHY93_06040|PHY93_06040 25 YYIFNSRSNRGYMLDGFAANLCQRFDGAKSLEVIIQEFENEMDLRKDSYKKEIDTLLQDLHDNSLI 90
                             56899999999****************************************************997 PP

>> Nbl1_Borealin_N  Nbl1 / Borealin N terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.1     8e-06     0.048       3      33 ..      56      86 ..      54     100 .] 0.85

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 8e-06
          Nbl1_Borealin_N  3 ealLenfdlEveeRirrlraelelllktlrn 33
                             e ++++f++E + R    ++e ++ll++l  
  PHY93_06040|PHY93_06040 56 EVIIQEFENEMDLRKDSYKKEIDTLLQDLHD 86
                             679************************9865 PP

>> Inhibitor_I69  Spi protease inhibitor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   2.9e-05      0.18      40      61 ..      16      37 ..       3      38 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 2.9e-05
            Inhibitor_I69 40 tsasasepayYVfnygdgkGFv 61
                             ++ s+++p+yY+fn   ++G+ 
  PHY93_06040|PHY93_06040 16 QEYSKNKPNYYIFNSRSNRGYM 37
                             678999**************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (100 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       840  (0.0468515); expected 358.6 (0.02)
Passed bias filter:                      588  (0.032796); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.50u 0.28s 00:00:00.78 Elapsed: 00:00:00.50
# Mc/sec: 603.77
//
Query:       PHY93_03020|PHY93_03020  [L=76]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (76 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       351  (0.0195772); expected 358.6 (0.02)
Passed bias filter:                      288  (0.0160634); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.45
# Mc/sec: 504.65
//
Query:       PHY93_03025|PHY93_03025  [L=423]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (423 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       519  (0.0289475); expected 358.6 (0.02)
Passed bias filter:                      483  (0.0269396); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.62u 0.25s 00:00:00.87 Elapsed: 00:00:00.46
# Mc/sec: 2736.53
//
Query:       PHY93_03030|PHY93_03030  [L=553]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.7e-38  132.2   0.0    2.9e-38  131.4   0.0    1.4  1  DEAD        DEAD/DEAH box helicase
    5.1e-21   75.1   0.0    2.1e-20   73.1   0.0    2.1  2  Helicase_C  Helicase conserved C-terminal domain
    7.8e-11   42.3   0.0    7.8e-11   42.3   0.0    2.4  3  ResIII      Type III restriction enzyme, res subunit
    9.7e-06   26.0   0.2    5.3e-05   23.6   0.0    2.1  2  AAA_19      AAA domain
  ------ inclusion threshold ------
      0.011   15.9   4.3      0.071   13.2   0.0    2.5  2  DUF87       Helicase HerA, central domain
       0.37   10.1   2.2       0.33   10.3   0.4    1.7  2  Lyase_1     Lyase
       0.51   10.7   0.0       0.51   10.7   0.0    2.6  2  AIF_C       Apoptosis-inducing factor, mitochondrion-associat
        2.4    8.4   4.8        1.5    9.1   0.5    2.8  3  AAA_22      AAA domain


Domain annotation for each model (and alignments):
>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  131.4   0.0   1.3e-41   2.9e-38       1     174 [.      25     202 ..      25     204 .. 0.93

  Alignments for each domain:
  == domain 1  score: 131.4 bits;  conditional E-value: 1.3e-41
                              -HHHHHHHHHHHTTCEEEEEESTTSSHHHHHHHHHHHHHHHS..........TTSTS-EEEEEESSHHHHHHHHHHHHHHTTTSTS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD   1 tdiQaeaiplilgggdvlvaaeTGsGKTlaflipvlqivyet..........kgktgpkalivePtreLaeqtlnnlkkfkkyidl 76 
                              t+iQ+++ip +++g++v v a+TGsGKTl f++p+++ + e+              +p+a+i++PtreL  q ++ +k++ +++++
  PHY93_03030|PHY93_03030  25 TSIQSQVIPDFIKGKSVNVIAKTGSGKTLTFALPICELLKEDevnfpvtdkkSAFGKPRAVILAPTRELGLQLHKVFKSIAHHAKM 110
                              78**********************************9998889***99998668899***************************** PP

                              EEEEEETTSSHHHHHHHHHTTCSEEEEEHHHHHHHHHCTSSHCTTEEEEEEETHHHHHHTTTHHHHHHHHHHSHHHCTTSTTTSEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  77 rvlliiggvaardqlskldngvdivvgtpgrlddllstgklnlsqvrflVlDEadrlldqgfsdfinrilnqlpqitcdgklqrqv 162
                              rv l+ gg+ a+ ++   + ++di+++tpgrl + l++++lnl++ +++++DEad+lld gf++++ +i  +++      +   +v
  PHY93_03030|PHY93_03030 111 RVRLLAGGEGAKTNHLLARDNIDILIATPGRLSSALKKKELNLKETKYIIMDEADQLLDLGFRRDLVNICGSTD-----SS-LVHV 190
                              ***********9999888899**************************************************993.....33.234* PP

                              EEEESSBSHHHH CS
                              xxxxxxxxxxxx RF
                     DEAD 163 ivlSATlpkdvk 174
                               ++SAT +++++
  PHY93_03030|PHY93_03030 191 GLFSATHSESLD 202
                              ******987665 PP

>> Helicase_C  Helicase conserved C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0       2.9   6.5e+03      19      73 ..      84     138 ..      78     139 .. 0.46
   2 !   73.1   0.0   9.5e-24   2.1e-20       2     110 ..     241     349 ..     240     350 .. 0.90

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 2.9
                              EEEEESSHH...HHHH.HHHHHHHTTSTEEEESTTSTHHHHHHHHHHHHTTSSSEEEES CS
               Helicase_C  19 ilifvntid...rlek.vklllekkgikvavlhgelpqnereeileqfnkgesdvLiat 73 
                              ++i ++t++   +l+k +k + ++ +++v  l g  +  + ++ l+   ++++d+Liat
  PHY93_03030|PHY93_03030  84 AVILAPTRElglQLHKvFKSIAHHAKMRVRLLAGG-EGAKTNHLLA---RDNIDILIAT 138
                              56666666664444433344434445555555552.2222222222...2345666665 PP

  == domain 2  score: 73.1 bits;  conditional E-value: 9.5e-24
                              HHHHHHHHHHHTTTTSEEEEEESSHHHHHHHHHHHHHT....TSTEEEESTTSTHHHHHHHHHHHHTTSSSEEEESGGGTSSSTST CS
               Helicase_C   2 kleallellkleeeggkilifvntidrlekvklllekk....gikvavlhgelpqnereeileqfnkgesdvLiatdvaerGidip 83 
                              k+++  ++l +++ +g+ +ifvn+ d+++   l+le      ++k+ +lhge+ ++ r++  ++f  +e  vLiatd+++rG+ i+
  PHY93_03030|PHY93_03030 241 KISMTEAFL-KNQAKGNGIIFVNKHDTVD--ALMLELApkfpKMKFHALHGEMDARARKKNYDRF-LKEGGVLIATDIIARGMHID 322
                              788888999.899999************9..555444444589**********************.55778*************** PP

                              TESEEEESSSSSSHHHHHHHHTTSSST CS
               Helicase_C  84 kvnlVinfdlprnvtsyiqriGRtgRa 110
                              ++  V+n+dlp++   yi+r GR+gR+
  PHY93_03030|PHY93_03030 323 ELVWVMNYDLPFEAVYYIHRCGRVGRM 349
                              **************************7 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.3   0.0   3.5e-14   7.8e-11      24     142 ..      38     165 ..      16     199 .. 0.83
   2 ?    0.1   0.1      0.32   7.2e+02      73     116 ..     213     268 ..     200     310 .. 0.60
   3 ?   -2.7   0.2       2.2     5e+03      73      85 ..     419     431 ..     388     481 .. 0.58

  Alignments for each domain:
  == domain 1  score: 42.3 bits;  conditional E-value: 3.5e-14
                              TSEEEEEESTTSTHHHHHHHHHHHH-S..................-EEEEESSHHHHHHHHHHGGGGTGG........GEEEESSS CS
                   ResIII  24 dkrglikmaTGtGKTlvaaklierllkkgkee.............kflflvprkslleqtleefkkflseayke....igkkvsgd 92 
                               k + + + TG+GKTl+ a  i +llk+ + +             ++++l+p+++l  q+ + fk++++ a+++    +     g+
  PHY93_03030|PHY93_03030  38 GKSVNVIAKTGSGKTLTFALPICELLKEDEVNfpvtdkksafgkpRAVILAPTRELGLQLHKVFKSIAHHAKMRvrllA----GGE 119
                              456668899*********999999999877779**************************************99955553....333 PP

                              -B--........-SEEEEEHHHHHHTH........HHHTTT-SEEEEETGG CS
                   ResIII  93 kkka.kekdstnkkilvttiqsldadseeeeeeseellrdrfdviiiDEaH 142
                              + k  +  +++n++il++t  +l++++     +++el  ++ ++ii+DEa 
  PHY93_03030|PHY93_03030 120 GAKTnHLLARDNIDILIATPGRLSSAL-----KKKELNLKETKYIIMDEAD 165
                              33333344799****************.....999999999********95 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.32
                              HGGGGTGG...........GEEEESSS-B--............-SEEEEEHHHHHH CS
                   ResIII  73 efkkflseayke.......igkkvsgdkkka.....kekdstnkkilvttiqslda 116
                              ef+++ se++++        +  v++++k++      +++++ + i++++ +    
  PHY93_03030|PHY93_03030 213 EFTQYNSEEKNKltqtvrtFNIYVTDKEKISmteafLKNQAKGNGIIFVNKHDTVD 268
                              56666666665555555432333444444446666644445555555555554444 PP

  == domain 3  score: -2.7 bits;  conditional E-value: 2.2
                              HGGGGTGG....G CS
                   ResIII  73 efkkflseaykei 85 
                               fkk+ ++++k  
  PHY93_03030|PHY93_03030 419 VFKKIRPSERKHL 431
                              3344444433331 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.6   0.0   2.4e-08   5.3e-05       7     136 ..      35     191 ..      28     192 .. 0.80
   2 ?   -0.4   0.1       0.6   1.3e+03      64     127 ..     224     280 ..     212     291 .. 0.70

  Alignments for each domain:
  == domain 1  score: 23.6 bits;  conditional E-value: 2.4e-08
                   AAA_19   7 alkekvllvtaGpGtGKTrvlkhivallvelggvkp...........eeillvaftgrAakelrerlaalgae............. 68 
                               +k k + v+a  G+GKT +    + +l+++ +v+             + +++a+t+    +l++  +++ ++             
  PHY93_03030|PHY93_03030  35 FIKGKSVNVIAKTGSGKTLTFALPICELLKEDEVNFpvtdkksafgkPRAVILAPTRELGLQLHKVFKSIAHHakmrvrllaggeg 120
                              6788999***************9999999999998889********99999********99999999888877899999******* PP

                   AAA_19  69 atTiHrlalldfddlltealelle..eaeeekklqeeellivDEfqdvd.elqyrLlkallgek.kklllvG 136
                              a+T H la  ++d l+ ++  l     +++e +l+e++++i DE+ ++      r l +++g++  +l+ vG
  PHY93_03030|PHY93_03030 121 AKTNHLLARDNIDILIATPGRL-SsaLKKKELNLKETKYIIMDEADQLLdLGFRRDLVNICGSTdSSLVHVG 191
                              *******998888888666555.544334556676777******9776536665555556655546677777 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 0.6
                   AAA_19  64 algaeatTiHrlalldfddlltealelleeaeeekklqeee.llivDEfqdvdelqyrLlkallg 127
                              +l++  +T+     ++ +++++++ ++l+++++      ++ +++v     vd l+ +L  + ++
  PHY93_03030|PHY93_03030 224 KLTQTVRTFNIY--VTDKEKISMTEAFLKNQAK------GNgIIFVNKHDTVDALMLELAPKFPK 280
                              556667777766..7777777788888875333......33469999999999999888777664 PP

>> DUF87  Helicase HerA, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   3.1e-05     0.071      25      61 ..      40      76 ..      26     170 .. 0.83
   2 ?    1.9   2.4     0.088     2e+02      90     188 ..     378     472 ..     355     495 .. 0.56

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 3.1e-05
                    DUF87 25 HlAilgsTGsGKSntvavLleellekkgatililDpH 61
                             ++ ++++TGsGK+ t a+ + ell+++ ++  + D  
  PHY93_03030|PHY93_03030 40 SVNVIAKTGSGKTLTFALPICELLKEDEVNFPVTDKK 76
                             6779********************9777766555555 PP

  == domain 2  score: 1.9 bits;  conditional E-value: 0.088
                    DUF87  90 lkinpwsldpeelldlleeddkpaaavqrsvleealdqaka......keekeklssdepveklleelk.........kekeelrkl 160
                                i++ s+d   ++++                        a      + +k+k +  ++ ek++++++         ++ ++ ++ 
  PHY93_03030|PHY93_03030 378 SAIRLTSFDEGKFASVKAA---------------------AkpkastRLDKKKKQLTDLKEKVFKKIRpserkhlktIKTSSTPRY 442
                              4444444444444444444.....................0223333445555555555555555555555555554445577777 PP

                    DUF87 161 knqaiarlldkledllrkggsf..snsstd 188
                              k++ ++ +++k+e+  r +g+   +nss +
  PHY93_03030|PHY93_03030 443 KRNDKEVISAKKERSRRPTGKLdsKNSSVR 472
                              777777777777777777777743333333 PP

>> Lyase_1  Lyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.1         1   2.3e+03     120     150 ..     125     154 ..     123     161 .. 0.79
   2 ?   10.3   0.4   0.00015      0.33      24     107 ..     382     479 ..     365     485 .. 0.73

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 1
                              HHHHHHHHHHTHHHHHHHHHHHHHHHHHHTT CS
                  Lyase_1 120 rlalkkalsekLlpaleqLidalkekakefk 150
                              +l++++++ + L+++  +L +alk+k  + k
  PHY93_03030|PHY93_03030 125 HLLARDNI-DILIATPGRLSSALKKKELNLK 154
                              78999999.6699999********9986544 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 0.00015
                              GHHHHHCHHHHHHHHHHHTTSST..HHHHHHHHHHHHHHHCHCHHCGGHHHBSSSSSHHHHHHHHHHHHHH...HHTT........ CS
                  Lyase_1  24 lseedikalaalkkaaakanvdl..keeaaaiikaldevleegklddqfvlkviqegsgtavnmnlnevig...ellg........ 96 
                              l+  d+ +  a  kaaak  +++   ++ ++  +  ++v ++++  +   lk+i+++s    ++n +evi+   e           
  PHY93_03030|PHY93_03030 382 LTSFDE-GKFASVKAAAKPKASTrlDKKKKQLTDLKEKVFKKIRPSERKHLKTIKTSSTPRYKRNDKEVISakkE--Rsrrptgkl 464
                              443333.4444445555555444459999******************************************5542..044555566 PP

                              ....HSSGIIIIITT CS
                  Lyase_1  97 ....ekvepndkvht 107
                                    v pn+k++t
  PHY93_03030|PHY93_03030 465 dsknSSVRPNKKINT 479
                              677677888888876 PP

>> AIF_C  Apoptosis-inducing factor, mitochondrion-associated, C-term
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   0.00023      0.51      32     114 ..     181     271 ..     169     282 .. 0.62
   2 ?   -4.0   4.8         8   1.8e+04      98      98 ..     446     446 ..     387     514 .. 0.59

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00023
                    AIF_C  32 GivDssLptvgvfakatekdtpkaa......veesseesksekeeeaskekseeks........eeekkkkekkeeeedygkGvvf 103
                              G  DssL  vg+f+ + +++  +        +   + ++ +++e+++ +++    +        +e+ +++e+  +++  g G++f
  PHY93_03030|PHY93_03030 181 GSTDSSLVHVGLFSATHSESLDEFCksvlpeI---EFTQYNSEEKNKLTQTV---RtfniyvtdKEKISMTEAFLKNQAKGNGIIF 260
                              778**********9877666554432223221...22222222222212211...123455544556666777778888899**** PP

                    AIF_C 104 ylrddkvvGiv 114
                                ++d+v  ++
  PHY93_03030|PHY93_03030 261 VNKHDTVDALM 271
                              99999986655 PP

  == domain 2  score: -4.0 bits;  conditional E-value: 8
                    AIF_C  98 g 98 
                              +
  PHY93_03030|PHY93_03030 446 D 446
                              2 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   0.5   0.00066       1.5       8     126 ..      41     188 ..      37     197 .. 0.67
   2 ?   -2.4   0.0       2.3   5.1e+03      45      70 ..     193     218 ..     186     232 .. 0.71
   3 ?   -1.6   0.2       1.4   3.1e+03      18      61 ..     435     478 ..     435     498 .. 0.70

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.00066
                   AAA_22   8 lvvtGesGtGKTtllrrlleqldeeakaeeerpevv.fvtlpsst..sskdllrellralglelka.................... 70 
                              + v++ +G+GKT++ +    +l +e       +ev   vt ++s   +++ +  +  r+lgl+l++                    
  PHY93_03030|PHY93_03030  41 VNVIAKTGSGKTLTFALPICELLKE-------DEVNfPVTDKKSAfgKPRAVILAPTRELGLQLHKvfksiahhakmrvrllagge 119
                              568999******9999888777653.......333224444444456777777777777777777777777777777999999999 PP

                   AAA_22  71 ........erlsseellealeqalrarav.......ielliiDEaqhlrseealeeLrsllnl.srkgvqli 126
                                      +r++ + l+++  + ++a ++       ++ +i DEa+ l     l + r+l+n+ ++++ +l+
  PHY93_03030|PHY93_03030 120 gaktnhllARDNIDILIATPGRLSSALKKkelnlkeTKYIIMDEADQL---LDLGFRRDLVNIcGSTDSSLV 188
                              999999996666666666666666666666667777899********6...244444555555535555554 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 2.3
                   AAA_22  45 vtlpsstsskdllrellralglelka 70 
                              + +++s+s++++++ +l +++  + +
  PHY93_03030|PHY93_03030 193 FSATHSESLDEFCKSVLPEIEFTQYN 218
                              66788889999999999888755544 PP

  == domain 3  score: -1.6 bits;  conditional E-value: 1.4
                   AAA_22  18 KTtllrrlleqldeeakaeeerpevvfvtlpsstsskdllrell 61 
                              KT +  r++++++e+++a++er++  + +l s++ss    +++ 
  PHY93_03030|PHY93_03030 435 KTSSTPRYKRNDKEVISAKKERSRRPTGKLDSKNSSVRPNKKIN 478
                              8999999*****99999999766666666666555555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (553 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1172  (0.065369); expected 358.6 (0.02)
Passed bias filter:                      416  (0.0232026); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.76u 0.25s 00:00:01.01 Elapsed: 00:00:00.50
# Mc/sec: 3341.95
//
Query:       PHY93_03035|PHY93_03035  [L=151]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.012   15.4   0.0      0.018   14.9   0.0    1.2  1  SCAN      SCAN domain
      0.076   12.9   0.0      0.096   12.6   0.0    1.2  1  DUF1406   Protein of unknown function (DUF1406)


Domain annotation for each model (and alignments):
>> SCAN  SCAN domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.0     2e-06     0.018       5      76 ..      72     143 ..      70     149 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 2e-06
                     SCAN   5 rqrFrqfryqeaegprealsrLrel.crqWlrpekhtkeqilellvLEQFltilpeelqawvrerkpesgeea 76 
                              r  F  ++  ++e+ r  + rL+++  r+Wl   +   e ile  v+E F  i p++  +++ +++ es++e 
  PHY93_03035|PHY93_03035  72 RLTFFAVSFDTVEQARSEALRLNQYyARNWLFDRV-EGEPILEDYVIETFKGINPKRQLQRIPKKHEESTSES 143
                              56677777888888887777776651678997655.579****************************999886 PP

>> DUF1406  Protein of unknown function (DUF1406)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   1.1e-05     0.096       5      70 ..       3      64 ..       1      93 [. 0.87

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 1.1e-05
                  DUF1406  5 klitiLflifavasfadneYqPFnklsikleiytvenlvsytvdndkqselvisfkeltitvites 70
                             k+  iLf+i a+  +++ +    +k+++k+ +  ++nl+  t +++++ e  ++f+++   v++ +
  PHY93_03035|PHY93_03035  3 KVLIILFVILALVACSKKD----EKIELKYSVVEIDNLAHETSHSNEKGESGLKFSDYAPGVNSLE 64
                             467799**********554....8*********************9************99998865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (151 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       634  (0.0353617); expected 358.6 (0.02)
Passed bias filter:                      507  (0.0282782); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.26s 00:00:00.76 Elapsed: 00:00:00.46
# Mc/sec: 991.93
//
Query:       PHY93_03040|PHY93_03040  [L=38]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (38 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       211  (0.0117686); expected 358.6 (0.02)
Passed bias filter:                      173  (0.00964917); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.24s 00:00:00.62 Elapsed: 00:00:00.41
# Mc/sec: 276.59
//
Query:       PHY93_03045|PHY93_03045  [L=69]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.11   12.4   0.1       0.23   11.3   0.1    1.6  2  bVLRF1    bacteroidetes VLRF1 release factor


Domain annotation for each model (and alignments):
>> bVLRF1  bacteroidetes VLRF1 release factor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.0      0.07   1.3e+03     103     121 ..      10      28 ..       2      31 .. 0.60
   2 ?   11.3   0.1   1.3e-05      0.23      73     102 ..      34      63 ..      18      69 .] 0.84

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 0.07
                   bVLRF1 103 ilfgyeeavlkkkdprlrs 121
                              i    +++ lk+kd+++  
  PHY93_03045|PHY93_03045  10 ISKAIKNESLKSKDEKVFM 28 
                              3344566677777777655 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 1.3e-05
                   bVLRF1  73 direllkewkeeiekselifirasgksnrk 102
                              +++  l++w++ +++se+if+  ++k+++ 
  PHY93_03045|PHY93_03045  34 EVEFNLDNWNKVLDESERIFLDRQSKNQNP 63 
                              78889****************988855544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (69 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       551  (0.0307323); expected 358.6 (0.02)
Passed bias filter:                      330  (0.0184059); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.25s 00:00:00.65 Elapsed: 00:00:00.43
# Mc/sec: 486.25
//
Query:       PHY93_03050|PHY93_03050  [L=119]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.026   14.6   0.0      0.034   14.3   0.0    1.1  1  Bac_globin  Bacterial-like globin


Domain annotation for each model (and alignments):
>> Bac_globin  Bacterial-like globin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0   1.9e-06     0.034      12     117 ..       5     111 ..       2     115 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.9e-06
                              HHHHHHHHHHHHHT-CCC..CCCGGGTTSSHHHHHHHHHHHHHHHTTSSSHHHHHHSS-.HHHHHTTS--BHHHHHHHHHHHHHHH CS
               Bac_globin  12 veelvdrfYervdedeee..alseifsgtdlegsreklveFlvqalgGPelYverrGhPrlrkrHapfeitaaerdawlkhlaeAl 95 
                              + ++v+ fY++   d      + ++ +++ l+   e++  F +  l G        G   l  +H+ ++i+  e  +w+  +++ l
  PHY93_03050|PHY93_03050   5 IYSVVEAFYDKATRDILIgyHFDKFSEPQVLAPHLERITSFWEMQLTGSTSV-PLVGPFHLLFTHLQLKIKRGELGRWIILFHQTL 89 
                              667999999999998764225778888899999999999**99999998775.6899999************************** PP

                              HHCT--HHHHHHHHHHHHHHHH CS
               Bac_globin  96 eetgvssedreeklellealah 117
                              ++   +se++e   ++++ +++
  PHY93_03050|PHY93_03050  90 DTLEIDSELSEMWKQRITLFEE 111
                              **********999999988876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (119 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       304  (0.0169558); expected 358.6 (0.02)
Passed bias filter:                      275  (0.0153383); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.27s 00:00:00.72 Elapsed: 00:00:00.46
# Mc/sec: 772.60
//
Query:       PHY93_03055|PHY93_03055  [L=227]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (227 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       413  (0.0230353); expected 358.6 (0.02)
Passed bias filter:                      380  (0.0211947); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.25s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 1550.27
//
Query:       PHY93_03060|PHY93_03060  [L=140]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.2e-09   37.9   1.3    1.8e-09   37.4   1.3    1.2  1  zf-dskA_traR  Prokaryotic dksA/traR C4-type zinc finger
  ------ inclusion threshold ------
       0.41   10.5   3.5        6.1    6.7   3.5    2.1  1  ZZ            Zinc finger, ZZ type


Domain annotation for each model (and alignments):
>> zf-dskA_traR  Prokaryotic dksA/traR C4-type zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.4   1.3     2e-13   1.8e-09       1      36 []      84     119 ..      84     119 .. 0.97

  Alignments for each domain:
  == domain 1  score: 37.4 bits;  conditional E-value: 2e-13
             zf-dskA_traR   1 giygsCeeCGEpIpeaRlralPgarlCveCqekaer 36 
                              g+yg C+eC  +I+++Rl a+ +a lC++C+e+ae+
  PHY93_03060|PHY93_03060  84 GTYGLCDECDSEIGFERLNARLTADLCISCKEEAEH 119
                              79*******************************996 PP

>> ZZ  Zinc finger, ZZ type
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.7   3.5   0.00068       6.1       7      38 ..      89     117 ..      85     123 .. 0.67

  Alignments for each domain:
  == domain 1  score: 6.7 bits;  conditional E-value: 0.00068
                              -TTT-S..EESSEEEESSSSS-EE-HHHHHH. CS
                       ZZ   7 CdgCseapligvRyhclrcsdYDLCqsCfsth 38 
                              Cd+C +   ig+   ++r    DLC+sC+ + 
  PHY93_03060|PHY93_03060  89 CDECDS--EIGFERLNARLT-ADLCISCKEEA 117
                              777777..555555555543.49******993 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (140 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       954  (0.0532099); expected 358.6 (0.02)
Passed bias filter:                      409  (0.0228122); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.26s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 961.94
//
Query:       PHY93_03065|PHY93_03065  [L=122]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
       0.02   14.9   0.2      0.028   14.4   0.2    1.3  1  DZR            Double zinc ribbon
        0.1   12.4   1.5       0.19   11.5   1.5    1.5  1  zinc_ribbon_2  zinc-ribbon domain
       0.14   10.8   0.1       0.16   10.6   0.1    1.0  1  PPP1R26_N      Protein phosphatase 1 regulatory subunit 26 N-
       0.23   11.2   3.1       0.38   10.5   3.1    1.3  1  A2L_zn_ribbon  A2L zinc ribbon domain


Domain annotation for each model (and alignments):
>> DZR  Double zinc ribbon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.2   6.3e-06     0.028      29      49 .]      99     120 ..      62     121 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 6.3e-06
                      DZR  29 drCpsCgekvdpe.arfCpeCG 49 
                              + C sC++++d++ ++fCp+C+
  PHY93_03065|PHY93_03065  99 RICGSCKHEIDLQfWQFCPYCE 120
                              6799999998876479999995 PP

>> zinc_ribbon_2  zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   1.5   4.3e-05      0.19       2      19 ..     101     119 ..     100     119 .. 0.92

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 4.3e-05
            zinc_ribbon_2   2 CpnCGaelq.dnakFCpyC 19 
                              C +C +e++    +FCpyC
  PHY93_03065|PHY93_03065 101 CGSCKHEIDlQFWQFCPYC 119
                              99******878******** PP

>> PPP1R26_N  Protein phosphatase 1 regulatory subunit 26 N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.1   3.7e-05      0.16     535     584 ..       6      55 ..       5      60 .. 0.89

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 3.7e-05
                PPP1R26_N 535 EqEIRtFLaLKAqsesllakaeslpqsaqapllspeqnsktdsskaplpk 584
                              +qEIR+FL  K   +s+l k +s +++a++pl   + ++  d++  p pk
  PHY93_03065|PHY93_03065   6 DQEIRKFLQEKHDPQSQLEKLKSYSNAANSPLFNTDYHETYDVNILPDPK 55 
                              59******************************999998888877766665 PP

>> A2L_zn_ribbon  A2L zinc ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   3.1   8.4e-05      0.38       3      30 ..      98     122 .]      97     122 .] 0.95

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 8.4e-05
            A2L_zn_ribbon   3 lkvCsvCggngilnseqgylvCieCgas 30 
                              l++C  C+++ +l   q+  +C+ C+as
  PHY93_03065|PHY93_03065  98 LRICGSCKHEIDL---QFWQFCPYCEAS 122
                              689**********...**********97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (122 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       747  (0.0416643); expected 358.6 (0.02)
Passed bias filter:                      565  (0.0315132); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.48u 0.27s 00:00:00.75 Elapsed: 00:00:00.46
# Mc/sec: 801.62
//
Query:       PHY93_06045|PHY93_06045  [L=57]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (57 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       527  (0.0293937); expected 358.6 (0.02)
Passed bias filter:                      307  (0.0171231); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.24s 00:00:00.65 Elapsed: 00:00:00.43
# Mc/sec: 397.78
//
Query:       PHY93_03070|PHY93_03070  [L=179]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (179 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       764  (0.0426125); expected 358.6 (0.02)
Passed bias filter:                      421  (0.0234815); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 1193.12
//
Query:       PHY93_03075|PHY93_03075  [L=234]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.1e-15   57.8   0.0    1.7e-15   57.2   0.0    1.2  1  Fer4_14      4Fe-4S single cluster domain
    1.5e-12   48.0   0.0    2.2e-12   47.5   0.0    1.2  1  Fer4_12      4Fe-4S single cluster domain
    1.7e-10   41.5   0.0    2.4e-10   41.0   0.0    1.2  1  Radical_SAM  Radical SAM superfamily


Domain annotation for each model (and alignments):
>> Fer4_14  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.2   0.0   2.8e-19   1.7e-15       1      92 [.      26     114 ..      26     130 .. 0.85

  Alignments for each domain:
  == domain 1  score: 57.2 bits;  conditional E-value: 2.8e-19
                  Fer4_14   1 lfvrlsgCnlsCkgCdnketwkselgkpqteelleqilkdlkkseikiqglvltGGePLhyenkkellklvkrlkeeypekkiwle 86 
                              +fvr  gC + C  Cd k+tw+++    q+ e++ + ++ ++  + +i+++++tGG+PLh+   +++  lvk lke++  + + +e
  PHY93_03075|PHY93_03075  26 IFVRYQGCAIGCLNCDSKDTWDFSEDMGQSLEMVMEAVH-KEGFNGAIKNVSITGGDPLHPSHVPHVRALVKLLKEKK--YYVNIE 108
                              7*********************************99995.5555555888***************************9..666666 PP

                  Fer4_14  87 tngtle 92 
                                gt  
  PHY93_03075|PHY93_03075 109 AAGTRV 114
                              665544 PP

>> Fer4_12  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.5   0.0   3.6e-16   2.2e-12       2      97 ..      15     115 ..      14     127 .. 0.81

  Alignments for each domain:
  == domain 1  score: 47.5 bits;  conditional E-value: 3.6e-16
                  Fer4_12   2 nGeGvrl.....slfvsgCnlsCkgCfnketwsfksgkeft.kelleeiiedlkkesiegltllGGEPllpenaeallelvkevke 81 
                              +GeGv+l     +++ +gC + C +C  k+tw+f++    + + ++e + ++  +  i+ ++++GG+Pl+p++++ +  lvk +ke
  PHY93_03075|PHY93_03075  15 EGEGVFLgraqiFVRYQGCAIGCLNCDSKDTWDFSEDMGQSlEMVMEAVHKEGFNGAIKNVSITGGDPLHPSHVPHVRALVKLLKE 100
                              6888553333448889******************999888845555555566668999**************************** PP

                  Fer4_12  82 ekpekdiwlytgytle 97 
                              +k+  + ++  g+  +
  PHY93_03075|PHY93_03075 101 KKY-YVNIEAAGTRVV 115
                              **9.577777777655 PP

>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.0   0.0     4e-14   2.4e-10       2     138 ..      28     177 ..      27     179 .. 0.81

  Alignments for each domain:
  == domain 1  score: 41.0 bits;  conditional E-value: 4e-14
                              EEESEESS--TTTSCCTTHHHHHHHHHHHHHHHHHHHHHHHHHTT.SEEEEEESSTGGGS..TTHHHHHHHHHHTCCCTEEEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM   2 vvtrgCnlrCsfCarpetvrregrgrslsveeileevkelkaekg.vkevilgggeplly..pdfvellerlaklavpgiritvet 84 
                              v ++gC+ +C  C+ + t  +    +  s+e+++e v +  ++ g +k+v ++gg+pl     + v++l +l k+  +++ + +e+
  PHY93_03075|PHY93_03075  28 VRYQGCAIGCLNCDSKDT-WDFSEDMGQSLEMVMEAVHKEGFN-GaIKNVSITGGDPLHPshVPHVRALVKLLKE--KKYYVNIEA 109
                              6789*************8.8888888899********888655.55************86445667777777777..7******** PP

                              CSSCHGHHHHHHHHHTT-SEEEEEEBSSSHH...................HHHHHHTCTSHHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...................xxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM  85 ngtlpdeeklerllelgvdrvslgleaadde...................kvlklmnrghtfeevlealeklr 138
                               gt++    ++++ +l  d+vs++ ++++                     +v+  + ++ +f  +lea+++lr
  PHY93_03075|PHY93_03075 110 AGTRV----VDEIFDLV-DYVSFDFKTPSTGvrtplkniakmiaqypgkfQVKAVISDRADFVTTLEAFKMLR 177
                              ****6....******99.************9777777666666666666666666666666677777776665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (234 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       476  (0.0265492); expected 358.6 (0.02)
Passed bias filter:                      463  (0.0258241); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 1569.65
//
Query:       PHY93_03080|PHY93_03080  [L=371]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.1e-17   64.6   0.0    2.3e-17   63.5   0.0    1.6  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    2.9e-14   53.2   1.4    1.1e-13   51.3   0.3    2.3  3  PAS_9        PAS domain
    5.4e-14   52.1   0.0    1.4e-13   50.8   0.0    1.7  2  PAS          PAS fold
    1.2e-13   51.1   0.0    2.2e-13   50.3   0.0    1.5  1  PAS_3        PAS fold
    1.4e-08   34.5   0.0    3.5e-08   33.3   0.0    1.7  1  HATPase_c_5  GHKL domain
    2.2e-08   34.0   0.3    5.7e-08   32.7   0.3    1.7  1  HisKA        His Kinase A (phospho-acceptor) domain
    1.4e-06   28.5   0.0    3.2e-05   24.1   0.0    2.2  2  PAS_4        PAS fold
    0.00026   20.9   0.0    0.00056   19.9   0.0    1.5  1  PAS_8        PAS domain
     0.0038   16.9   1.5      0.011   15.4   0.2    2.3  2  PAS_12       UPF0242 C-terminal PAS-like domain
     0.0083   15.9   0.0      0.018   14.9   0.0    1.6  1  HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like
  ------ inclusion threshold ------
      0.034   14.1   0.0      0.072   13.1   0.0    1.5  1  HATPase_c_2  Histidine kinase-like ATPase domain


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.5   0.0   1.4e-20   2.3e-17       4     111 ..     263     368 ..     260     369 .. 0.90

  Alignments for each domain:
  == domain 1  score: 63.5 bits;  conditional E-value: 1.4e-20
                              HHHHHHHHHHHHHHHHH.HS.TTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHHHHH CS
                HATPase_c   4 krLrqiisnlvdNavkf.at.kageieveikaseddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkklvel 87 
                              +++ q+++nl++Na ++ ++ +++e++++ik++++ l+i+v D+G  ip e    lf+++ +   tk  g+gtGlGl+i+ k++e 
  PHY93_03080|PHY93_03080 263 TQISQVLINLIKNACDAvQPlEKKEVKLTIKSDKEALEIRVLDTGTKIPDEVASCLFTPLFT---TKKAGKGTGLGLTISAKIIEA 345
                              6789*************6448999*******8779***********************7777...68999**************** PP

                              TTTEEEEEEETTTEEEEEEEEESS CS
                HATPase_c  88 mgGeiwvesepgrGttftftlple 111
                              ++G++++ +++   t+f++ +pl+
  PHY93_03080|PHY93_03080 346 HDGKLYL-DNECDQTCFVVIIPLD 368
                              *******.4444799999999987 PP

>> PAS_9  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.3   0.3   6.9e-17   1.1e-13       3     104 .]      22     123 ..      20     123 .. 0.85
   2 ?   -0.0   0.0      0.64     1e+03      55      82 ..     208     235 ..     186     275 .. 0.50
   3 ?   -3.3   0.0       6.8   1.1e+04      72      85 ..     306     322 ..     269     331 .. 0.54

  Alignments for each domain:
  == domain 1  score: 51.3 bits;  conditional E-value: 6.9e-17
                    PAS_9   3 gilidnpdgrilyaNeaalrllGyspeevlgksitdlfvtdpeanerlraaleqgrk.kerevevvlirkngetfwvlltaspvkd 87 
                              +i+i++++g+ +y+Ne +++l+Gy+++e++gks   l  +  +++e+ +++++++ + + ++++  + +k+ge +w +  + p+++
  PHY93_03080|PHY93_03080  22 AIFITDHKGHFVYVNEIFCQLTGYKSDELIGKSSNILK-SGIHTDEFYKEFWRAIMSgEMWRGTFCNKTKTGELLWLDTIIKPIFN 106
                              899*99***************************66666.444444444444444444449************************** PP

                    PAS_9  88 ddgelvgiivilrDite 104
                              +++e+  +i+i  +it+
  PHY93_03080|PHY93_03080 107 KNNEIEKFIGIRFNITD 123
                              ***********999996 PP

  == domain 2  score: -0.0 bits;  conditional E-value: 0.64
                    PAS_9  55 eqgrkkerevevvlirkngetfwvllta 82 
                              +++++ e ++e+++ ++++    vll +
  PHY93_03080|PHY93_03080 208 RNLSRDEAHFEMQFHKPSEIVEDVLLII 235
                              2222244555555555544333333333 PP

  == domain 3  score: -3.3 bits;  conditional E-value: 6.8
                    PAS_9  72 ngetfw...vlltaspv 85 
                              +g++++   + + ++p+
  PHY93_03080|PHY93_03080 306 TGTKIPdevASCLFTPL 322
                              34444444333444555 PP

>> PAS  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.8   0.0   8.7e-17   1.4e-13      10     108 ..      19     116 ..       9     118 .. 0.92
   2 ?   -3.6   0.0       6.7   1.1e+04      69      91 ..     293     314 ..     276     319 .. 0.62

  Alignments for each domain:
  == domain 1  score: 50.8 bits;  conditional E-value: 8.7e-17
                              SSSEEEEEETTSBEEEECHHHHHHHSSTHHHCTTSBGGGGBSTTHHHHHHHHHHHHHHHTT-ECCCCEEEECTTSSEEEEEEEEEE CS
                      PAS  10 lpdpifvvDedgrilyvNaaaeellGlsreevlgkslldliheeddaelaelleqlleqgeesrageisfklrdgrpihlevrasp 95 
                              ++++if++D++g ++yvN+ +++l+G++ +e++gks ++l +  + +e+++++++++ +ge++r+   + k++ g+  +l++  +p
  PHY93_03080|PHY93_03080  19 SIAAIFITDHKGHFVYVNEIFCQLTGYKSDELIGKSSNILKSGIHTDEFYKEFWRAIMSGEMWRG-TFCNKTKTGELLWLDTIIKP 103
                              789*****************************************999*****************9.6666667************* PP

                              EEETTEEEEEEEE CS
                      PAS  96 vrdaggeilgflg 108
                              ++++  ei  f+g
  PHY93_03080|PHY93_03080 104 IFNKNNEIEKFIG 116
                              *******999987 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 6.7
                              TT-ECCCCEEEECTTSSEEEEEE CS
                      PAS  69 geesrageisfklrdgrpihlev 91 
                              +++++a ei++    g++i+ ev
  PHY93_03080|PHY93_03080 293 KSDKEALEIRVLD-TGTKIPDEV 314
                              4455555565555.677666666 PP

>> PAS_3  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.3   0.0   1.4e-16   2.2e-13       2      88 ..      33     117 ..      32     118 .. 0.95

  Alignments for each domain:
  == domain 1  score: 50.3 bits;  conditional E-value: 1.4e-16
                    PAS_3   2 iyvserveeilGyspeellgk.veswldlvhpeDrervrealqealkkgepyegeyRirrkdGeyrwveararvirdengkpvrvi 86 
                              +yv+e +++++Gy ++el+gk  + +++ +h ++   +++++++a+ +ge + g +  ++k Ge  w+++ +++i+++n+++ ++i
  PHY93_03080|PHY93_03080  33 VYVNEIFCQLTGYKSDELIGKsSNILKSGIHTDE---FYKEFWRAIMSGEMWRGTFCNKTKTGELLWLDTIIKPIFNKNNEIEKFI 115
                              8********************7777888888888...************************************************* PP

                    PAS_3  87 gv 88 
                              g+
  PHY93_03080|PHY93_03080 116 GI 117
                              *8 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.3   0.0   2.1e-11   3.5e-08       3      98 ..     262     365 ..     260     368 .. 0.82

  Alignments for each domain:
  == domain 1  score: 33.3 bits;  conditional E-value: 2.1e-11
              HATPase_c_5   3 dldlcvilgnlLdNAieacskieeekrfIrltvrekkksliisieNsyeg...ek.....kklesskskkeehGiGlksireivkk 80 
                              ++ ++ +l nl+ NA +a++ +e  k++++lt++++k++l i++  + ++   e        l+++k+ ++  G+Gl+   +i++ 
  PHY93_03080|PHY93_03080 262 KTQISQVLINLIKNACDAVQPLE--KKEVKLTIKSDKEALEIRVLDTGTKipdEVasclfTPLFTTKKAGKGTGLGLTISAKIIEA 345
                              678999*****************..8*******************99777554334445566779********************* PP

              HATPase_c_5  81 ykgnlsieae..dglFtlsv 98 
                              ++g+l +++e  +++F + +
  PHY93_03080|PHY93_03080 346 HDGKLYLDNEcdQTCFVVII 365
                              ***99876651144555544 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.7   0.3   3.5e-11   5.7e-08       9      66 ..     154     215 ..     147     216 .. 0.87

  Alignments for each domain:
  == domain 1  score: 32.7 bits;  conditional E-value: 3.5e-11
                              HHHHHHHHHHHHHHHHHHHHC......T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHHH CS
                    HisKA   9 vaHELrtPLsailgnaeaLkre....gklteelkeyletiesearrldhlvedlLdlsriea 66 
                              +aHE+++PL+ai++++  ++ +     +  e+ k +  +i++ ++r++++v+ l+ lsr ea
  PHY93_03080|PHY93_03080 154 IAHEINNPLTAISLATNSIELSlnskLPDLEKIKNLNSKIIKVSKRISRIVSSLRNLSRDEA 215
                              8******************777777744457778899999999****************997 PP

>> PAS_4  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.1   0.0     2e-08   3.2e-05       6     107 ..      21     123 ..      18     126 .. 0.88
   2 ?    2.1   0.0      0.14   2.2e+02      74     107 ..     208     240 ..     189     243 .. 0.79

  Alignments for each domain:
  == domain 1  score: 24.1 bits;  conditional E-value: 2e-08
                    PAS_4   6 dalavldpdgrvlyaNaaaaelfgappeellGktlaellpeedaarleralrrvlegeepiefleelll.pgeerhyelrllPlrd 90 
                              +a+++ d+ g+++y+N+ +++l g+  +el+Gk+   l +  + +++     r++ ++e ++ + + ++  ge  ++++ + P+++
  PHY93_03080|PHY93_03080  21 AAIFITDHKGHFVYVNEIFCQLTGYKSDELIGKSSNILKSGIHTDEFYKEFWRAIMSGEMWRGTFCNKTkTGELLWLDTIIKPIFN 106
                              789999******************************66566699999888888888889999999999999999999999999999 PP

                    PAS_4  91 esGevigvlvisrDiTe 107
                               + e+  +++i   iT+
  PHY93_03080|PHY93_03080 107 KNNEIEKFIGIRFNITD 123
                              99999999988777765 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.14
                    PAS_4  74 l..pgeerhyelrllPlrdesGevigvlvisrDiTe 107
                              +  +++e h+e++++   +    v +vl+i+ Di  
  PHY93_03080|PHY93_03080 208 RnlSRDEAHFEMQFHKPSE---IVEDVLLIIEDIAK 240
                              34589999****9999765...999********975 PP

>> PAS_8  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.9   0.0   3.4e-07   0.00056      13      51 ..      22      60 ..      17      77 .. 0.74

  Alignments for each domain:
  == domain 1  score: 19.9 bits;  conditional E-value: 3.4e-07
                    PAS_8 13 giavvd.lgdrivdvNqaalellGys.adlkgellgqllpv 51
                             +i+++d  g  +v+vN+ +++l+Gy+ ++l+g+   ++l+ 
  PHY93_03080|PHY93_03080 22 AIFITDhKGH-FVYVNEIFCQLTGYKsDELIGKSS-NILKS 60
                             7899997777.***************888888766.44444 PP

>> PAS_12  UPF0242 C-terminal PAS-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.2   6.7e-06     0.011      58     135 ..      22     101 ..      11     120 .. 0.74
   2 ?   -0.5   0.1      0.51   8.4e+02     112     137 ..     239     264 ..     232     270 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 6.7e-06
                   PAS_12  58 ailvysqkenkllfaNaqirallGwssdkflqdfseivqegl..eeWkral.aklsskteskirlvlKtKagqevllncll 135
                              ai++ +  + + +++N+ + +l+G+ sd+++ + s+i++ g+  +e+ ++   ++ s +  ++++  KtK+g+ + l + +
  PHY93_03080|PHY93_03080  22 AIFI-TDHKGHFVYVNEIFCQLTGYKSDELIGKSSNILKSGIhtDEFYKEFwRAIMSGEMWRGTFCNKTKTGELLWLDTII 101
                              3333.44555689***************************97333444444144555555688888899988877776655 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.51
                   PAS_12 112 kteskirlvlKtKagqevllncllgi 137
                              ++ ++i+lv+ +  g+++l++c+   
  PHY93_03080|PHY93_03080 239 AKSEEIKLVIDSEIGNDLLIRCHKTQ 264
                              566799****************9665 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.0   1.1e-05     0.018       4      62 ..     266     327 ..     263     348 .. 0.77

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 1.1e-05
              HATPase_c_3   4 ekAlaelvdNsldAda....envkievnknrgktgeivieDdGkGmseeelknalrlatsske 62 
                               ++l+ l++N+ dA      ++vk++++ ++ ++ ei++ D G+ ++ e     +++  ++k+
  PHY93_03080|PHY93_03080 266 SQVLINLIKNACDAVQplekKEVKLTIKSDK-EALEIRVLDTGTKIPDEVASCLFTPLFTTKK 327
                              5799*********965222267*****9987.79*********99987766556666666665 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   4.4e-05     0.072      42     110 ..     275     344 ..     262     362 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 4.4e-05
              HATPase_c_2  42 NavehayleapegpvevrlesdeealtvevaDsGpg.fdpe.tlpdpteeepkeslkegGrGlalikglvD 110
                              Na+ + ++  ++++v+++++sd+eal+++v D G    d        ++ + k  +k  G+Gl + +++ +
  PHY93_03080|PHY93_03080 275 NACDAVQPL-EKKEVKLTIKSDKEALEIRVLDTGTKiPDEVaSCLFTPLFTTKKAGKGTGLGLTISAKIIE 344
                              666666653.4599*********************975554133333333447899999999999888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (371 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       845  (0.0471303); expected 358.6 (0.02)
Passed bias filter:                      484  (0.0269954); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.63u 0.26s 00:00:00.89 Elapsed: 00:00:00.47
# Mc/sec: 2376.74
//
Query:       PHY93_03085|PHY93_03085  [L=371]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.2e-08   34.7   4.0    1.2e-08   34.7   4.0    1.7  2  DUF2786    Protein of unknown function (DUF2786)
    1.1e-05   25.3   0.0      2e-05   24.4   0.0    1.5  1  SprT-like  SprT-like family
     0.0011   19.0   0.0     0.0017   18.3   0.0    1.3  1  DUF3821    Domain of unknown function (DUF3821)


Domain annotation for each model (and alignments):
>> DUF2786  Protein of unknown function (DUF2786)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.8   0.8       2.1   1.3e+04      13      21 ..     135     142 ..     134     146 .. 0.59
   2 !   34.7   4.0     2e-12   1.2e-08       1      40 []     152     190 ..     152     190 .. 0.95

  Alignments for each domain:
  == domain 1  score: -3.8 bits;  conditional E-value: 2.1
                  DUF2786  13 AesstneaE 21 
                              A  s+ne E
  PHY93_03085|PHY93_03085 135 A-KSENEDE 142
                              4.4667776 PP

  == domain 2  score: 34.7 bits;  conditional E-value: 2e-12
                  DUF2786   1 kilekIrKLLalAesstneaEAeaAlakAqeLmarynldq 40 
                              k+l + +KLLalA  s+n +E e A++kA++L+ ++nld+
  PHY93_03085|PHY93_03085 152 KLLLRLKKLLALA-TSDNVHERELATLKANQLLLEHNLDL 190
                              67789********.************************95 PP

>> SprT-like  SprT-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.4   0.0   3.4e-09     2e-05      45      98 ..      62     114 ..      11     129 .. 0.90

  Alignments for each domain:
  == domain 1  score: 24.4 bits;  conditional E-value: 3.4e-09
                SprT-like  45 hhasIeLseklldsrsedrllntLaHElcHlalfvisgvrnnpHGaeFkawaak 98 
                              ++ ++ Ls+kl+ +  ++ l+n++ HEl+H +++++ g  +  HG+eF+++++ 
  PHY93_03085|PHY93_03085  62 RSYELGLSKKLMYQAFDSVLKNIIRHELAHFMCYLLMG-PRVLHGEEFHTVCKS 114
                              567899********************************.899*******99875 PP

>> DUF3821  Domain of unknown function (DUF3821)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.0   2.8e-07    0.0017       7      66 ..     183     241 ..     180     281 .. 0.92

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 2.8e-07
                  DUF3821   7 igEegLdisnllnggtqiawwasgaevkseepdksikisd.penFyvsPaafggktGewYq 66 
                              + E++Ld+s++  +g++i++ + + e ++++ +k++ i +  + F+vsP  f++  G +Y 
  PHY93_03085|PHY93_03085 183 LLEHNLDLSKTETSGDEIVYVKRVLE-ATRKSSKHVAIYEiLKTFFVSP-VFNHGRGIFYL 241
                              679**********************9.58899999999999********.9*********6 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (371 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       948  (0.0528752); expected 358.6 (0.02)
Passed bias filter:                      505  (0.0281667); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.58u 0.27s 00:00:00.85 Elapsed: 00:00:00.44
# Mc/sec: 2511.14
//
Query:       PHY93_03090|PHY93_03090  [L=255]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.1e-24   84.7   1.6    6.7e-24   84.0   0.1    1.9  2  Fer2_3    2Fe-2S iron-sulfur cluster binding domain
    2.2e-08   34.4   3.7    2.2e-08   34.4   3.7    1.9  2  Fer4_8    4Fe-4S dicluster domain
    1.4e-07   32.0   4.4    1.4e-07   32.0   4.4    2.1  2  Fer4_7    4Fe-4S dicluster domain
    4.4e-06   26.8  15.9    5.5e-05   23.3   5.3    2.8  3  Fer4_9    4Fe-4S dicluster domain
    5.6e-06   26.8   4.8    5.6e-06   26.8   4.8    2.3  2  Fer4_17   4Fe-4S dicluster domain
    9.5e-06   25.6  19.1    4.5e-05   23.5   8.1    2.2  3  Fer4_10   4Fe-4S dicluster domain
    3.4e-05   23.7   3.6    0.00015   21.6   0.3    2.5  2  Fer2      2Fe-2S iron-sulfur cluster binding domain
    0.00067   20.0   0.9    0.00067   20.0   0.9    2.7  2  Fer4_4    4Fe-4S binding domain
    0.00081   19.6   1.5        1.4    9.1   0.1    2.5  2  Fer4_18   4Fe-4S dicluster domain
    0.00097   19.1   2.5    0.00097   19.1   2.5    2.9  2  Fer4_6    4Fe-4S binding domain
     0.0025   17.8   2.6     0.0025   17.8   2.6    2.9  3  Fer4_2    4Fe-4S binding domain
      0.003   17.3   4.3      0.003   17.3   4.3    3.1  3  Fer4      4Fe-4S binding domain
  ------ inclusion threshold ------
      0.025   15.3   2.5      0.031   15.0   0.1    2.3  2  Fer4_15   4Fe-4S single cluster domain
        0.1   13.4   0.3        0.1   13.4   0.3    2.7  3  Fer4_22   4Fe-4S dicluster domain
       0.61   10.3  14.0       0.32   11.1   9.3    2.6  2  Fer4_21   4Fe-4S dicluster domain
        1.6    9.8  18.3       0.16   13.0   4.2    3.0  2  Fer4_3    4Fe-4S binding domain


Domain annotation for each model (and alignments):
>> Fer2_3  2Fe-2S iron-sulfur cluster binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   84.0   0.1     6e-27   6.7e-24       1     107 [.      12     128 ..      12     130 .. 0.92
   2 ?   -0.6   0.2       1.2   1.3e+03      57      80 ..     170     194 ..     155     217 .. 0.70

  Alignments for each domain:
  == domain 1  score: 84.0 bits;  conditional E-value: 6e-27
                   Fer2_3   1 tlkvkRfdprrdrgkqkvqeyeveae.eedtvldaLlkikeev....dptlafrasCregiCGscavainGkp......tlaCtat 75 
                              +lkv+R+++  +++k  + +y+++   +++++l++++++++++     +t+af+++CregiCG+c+++inG+       t+ C+ +
  PHY93_03090|PHY93_03090  12 NLKVWRQKN--NKDKGAMVDYKLDGVsPDMSFLEMMDTLNTKLikeqGDTIAFDHDCREGICGMCSMMINGQAhgpeaeTTTCQLH 95 
                              589******..56789********888*************998888799***********************9999999******* PP

                   Fer2_3  76 ikdlakqkseielepl..pkfpvirDLvvDidem 107
                              ++++++ + +i +ep+  ++fpv++DL+vD+ ++
  PHY93_03090|PHY93_03090  96 MRKFKSGD-TIVVEPWraKAFPVLKDLMVDRGAF 128
                              ****9887.7******8899**********9876 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 1.2
                   Fer2_3  57 CGscavai.nGkptlaCtatikdla 80 
                              CG+c +++ n   +l  +a+i++la
  PHY93_03090|PHY93_03090 170 CGACVASCkNASAMLFVSAKISQLA 194
                              9999777635566777777777766 PP

>> Fer4_8  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.4       3.8   4.2e+03       8      12 ..      71      75 ..      64     103 .. 0.70
   2 !   34.4   3.7     2e-11   2.2e-08       2      65 .]     164     236 ..     163     236 .. 0.72

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 3.8
                   Fer4_8  8 CgaCq 12
                             Cg+C 
  PHY93_03090|PHY93_03090 71 CGMCS 75
                             55554 PP

  == domain 2  score: 34.4 bits;  conditional E-value: 2e-11
                   Fer4_8   2 lekCieCgaCqsaCp......vlrrtk.khlldargeaaedvqeeqvlee...eealwsCttcgaCtevCpvgi 65 
                              + +Ci+CgaC ++C       +++++  +  l ++ge++ +++++ ++ +   e ++++Ct+  +C+ +Cp+gi
  PHY93_03090|PHY93_03090 164 AAACIGCGACVASCKnasamlFVSAKIsQLALLPQGEVESEARTQAMV-AkmdELGFGNCTNEAECEAQCPKGI 236
                              679***********7555555444444477777777777733333333.2466889****************97 PP

>> Fer4_7  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.1       4.1   4.6e+03      41      45 ..      71      75 ..      44      77 .. 0.70
   2 !   32.0   4.4   1.2e-10   1.4e-07       1      52 []     166     236 ..     166     236 .. 0.63

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 4.1
                   Fer4_7 41 CgaCv 45
                             Cg+C 
  PHY93_03090|PHY93_03090 71 CGMCS 75
                             55554 PP

  == domain 2  score: 32.0 bits;  conditional E-value: 1.2e-10
                   Fer4_7   1 rCigCgaCvaaCpvkaield..............eeenekgtekv.....eidpekClgCgaCvavCPtga 52 
                              +CigCgaCva C++   +l               e+e+e++t+ +     e+   +C++  +C+a CP+g+
  PHY93_03090|PHY93_03090 166 ACIGCGACVASCKNASAMLFvsakisqlallpqgEVESEARTQAMvakmdELGFGNCTNEAECEAQCPKGI 236
                              5***********86666655344444444444443444445555522223334568************996 PP

>> Fer4_9  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   0.1      0.71   7.9e+02       5      11 ..      71      77 ..      47     112 .. 0.69
   2 !   16.4   2.9   6.8e-06    0.0076      33      48 ..     159     179 ..     134     183 .. 0.70
   3 !   23.3   5.3   4.9e-08   5.5e-05       1      49 [.     166     235 ..     166     237 .. 0.90

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 0.71
                   Fer4_9  5 CgaCvea 11
                             Cg C  +
  PHY93_03090|PHY93_03090 71 CGMCSMM 77
                             4444444 PP

  == domain 2  score: 16.4 bits;  conditional E-value: 6.8e-06
                   Fer4_9  33 e.....eaCigCgaCveaCpk 48 
                              e      aCigCgaCv+ C++
  PHY93_03090|PHY93_03090 159 ElamdaAACIGCGACVASCKN 179
                              13334468***********87 PP

  == domain 3  score: 23.3 bits;  conditional E-value: 4.9e-08
                   Fer4_9   1 kCtgCgaCveaC...................pagvvvedaaerkarlraase..eaCigCgaCveaCpkg 49 
                              +C+gCgaCv++C                   p+g v+ +a ++ +  ++++    +C+   +C++ Cpkg
  PHY93_03090|PHY93_03090 166 ACIGCGACVASCknasamlfvsakisqlallPQGEVESEARTQAMVAKMDELgfGNCTNEAECEAQCPKG 235
                              6***********9999999999999999999999999999999999888777*999************98 PP

>> Fer4_17  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.3       1.6   1.8e+03       5      15 ..      71      77 ..      64     106 .. 0.60
   2 !   26.8   4.8     5e-09   5.6e-06       1      60 [.     166     236 ..     166     237 .. 0.74

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 1.6
                  Fer4_17  5 CgyClpeCpsy 15
                             Cg+    C+++
  PHY93_03090|PHY93_03090 71 CGM----CSMM 77
                             333....4444 PP

  == domain 2  score: 26.8 bits;  conditional E-value: 5e-09
                  Fer4_17   1 rCiqCgyClpeCpsyeaydnepkkllraakl...........glleeaeke......ekaslCieCgeCerkCPqgl 60 
                              +Ci+Cg+C+++C    a+ +  +k+ + a l           +       +        +++C++  eCe++CP+g+
  PHY93_03090|PHY93_03090 166 ACIGCGACVASCKNASAMLFVSAKISQLALLpqgeveseartQA------MvakmdeLGFGNCTNEAECEAQCPKGI 236
                              6*************999999888888877666654444422222......1333332599***************98 PP

>> Fer4_10  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.2       3.7   4.1e+03      45      51 ..      66      74 ..      51      77 .. 0.68
   2 !   15.1   3.2   1.6e-05     0.018      28      55 ..     150     177 ..     144     178 .. 0.76
   3 !   23.5   8.1     4e-08   4.5e-05       4      56 .]     162     233 ..     159     233 .. 0.94

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 3.7
                  Fer4_10 45 Ctg..cgaC 51
                             C +  cg+C
  PHY93_03090|PHY93_03090 66 CREgiCGMC 74
                             444456666 PP

  == domain 2  score: 15.1 bits;  conditional E-value: 1.6e-05
                  Fer4_10  28 akgeaseeeavrkkvekCtgcgaCveaC 55 
                              a+ +  e+++   +  +C+gcgaCv++C
  PHY93_03090|PHY93_03090 150 AILIGQENAELAMDAAACIGCGACVASC 177
                              5556667777778889999999999999 PP

  == domain 3  score: 23.5 bits;  conditional E-value: 4e-08
                  Fer4_10   4 idddtCirCgkCvkaCPadl.....................tsvgakgeaseeeavrkkvekCtgcgaCveaCP 56 
                               d+  Ci+Cg+Cv++C  ++                      +++a+ +a+  ++++ + ++Ct+  +C ++CP
  PHY93_03090|PHY93_03090 162 MDAAACIGCGACVASC--KNasamlfvsakisqlallpqgeVESEARTQAMVAKMDELGFGNCTNEAECEAQCP 233
                              58899***********..667*****************9999999999999**********************9 PP

>> Fer2  2Fe-2S iron-sulfur cluster binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.6   0.3   1.3e-07   0.00015      24      76 ..      55      95 ..      42      97 .. 0.72
   2 ?    2.5   0.2      0.13   1.4e+02      34      48 ..     166     178 ..     139     194 .. 0.72

  Alignments for each domain:
  == domain 1  score: 21.6 bits;  conditional E-value: 1.3e-07
                             HHTTTTTSTTSSSSSSSSTTEEEEEESCECTTSSSSTHHHHHTTEEEEGGGSE CS
                     Fer2 24 eenggidipysCggggCgtClvevlegevqsdetelegeeldegklrlaCqti 76
                             e+   i++ ++C++g Cg+C  +++ g+       +  e        ++Cq  
  PHY93_03090|PHY93_03090 55 EQGDTIAFDHDCREGICGMCSMMIN-GQA------HGPEA-----ETTTCQLH 95
                             5555899***************999.322......22222.....24777765 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.13
                              SSSSSSSSTTEEEEE CS
                     Fer2  34 sCggggCgtClvevl 48 
                              +C   gCg+C++ ++
  PHY93_03090|PHY93_03090 166 ACI--GCGACVASCK 178
                              454..7****98766 PP

>> Fer4_4  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.0   0.9   5.9e-07   0.00067       3      15 ..     166     178 ..     162     191 .. 0.91
   2 !    9.8   0.4    0.0011       1.2       3      16 ..     221     234 ..     219     240 .. 0.92

  Alignments for each domain:
  == domain 1  score: 20.0 bits;  conditional E-value: 5.9e-07
                   Fer4_4   3 rCigCgsCvaaCP 15 
                               CigCg+Cva+C+
  PHY93_03090|PHY93_03090 166 ACIGCGACVASCK 178
                              6***********7 PP

  == domain 2  score: 9.8 bits;  conditional E-value: 0.0011
                   Fer4_4   3 rCigCgsCvaaCPq 16 
                              +C++   C+a CP 
  PHY93_03090|PHY93_03090 221 NCTNEAECEAQCPK 234
                              7************6 PP

>> Fer4_18  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.1   0.1    0.0013       1.4      55      72 ..     161     178 ..     134     193 .. 0.72
   2 !    9.1   0.1    0.0013       1.4      45      79 ..     206     240 ..     194     246 .. 0.75

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.0013
                  Fer4_18  55 ekgagdcidcescvkvcP 72 
                              + +a+ ci c++cv+ c 
  PHY93_03090|PHY93_03090 161 AMDAAACIGCGACVASCK 178
                              556677777777777774 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.0013
                  Fer4_18  45 kalkekeerkekgagdcidcescvkvcPtgidirk 79 
                              ++++ + +  e g g+c++   c + cP gi i +
  PHY93_03090|PHY93_03090 206 RTQAMVAKMDELGFGNCTNEAECEAQCPKGIKIEN 240
                              33444455566799*****************9986 PP

>> Fer4_6  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   2.5   8.7e-07   0.00097       4      20 ..     162     178 ..     160     183 .. 0.88
   2 ?    1.6   0.9      0.29   3.2e+02      14      22 ..     227     235 ..     221     238 .. 0.79

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 8.7e-07
                   Fer4_6   4 idpdkCigCgdCvrvCP 20 
                               d+ +CigCg+Cv+ C 
  PHY93_03090|PHY93_03090 162 MDAAACIGCGACVASCK 178
                              6999************6 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.29
                   Fer4_6  14 dCvrvCPeg 22 
                              +C++ CP g
  PHY93_03090|PHY93_03090 227 ECEAQCPKG 235
                              5******76 PP

>> Fer4_2  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.6      0.72   8.1e+02       5      16 ..      62      74 ..      59      76 .. 0.72
   2 !   17.8   2.6   2.2e-06    0.0025       4      21 ..     161     178 ..     158     179 .. 0.87
   3 ?   -2.6   1.3       6.8   7.7e+03      15      21 ..     227     233 ..     220     233 .. 0.43

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.72
                   Fer4_2  5 vdtdrCig..CgaC 16
                             +d d C +  Cg C
  PHY93_03090|PHY93_03090 62 FDHD-CREgiCGMC 74
                             6666.887689999 PP

  == domain 2  score: 17.8 bits;  conditional E-value: 2.2e-06
                   Fer4_2   4 vvdtdrCigCgaCvsaCP 21 
                              + d+++CigCgaCv +C 
  PHY93_03090|PHY93_03090 161 AMDAAACIGCGACVASCK 178
                              67999************5 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 6.8
                   Fer4_2  15 aCvsaCP 21 
                               C   CP
  PHY93_03090|PHY93_03090 227 ECEAQCP 233
                              3534465 PP

>> Fer4  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.5       1.1   1.2e+03      11      16 ..      71      76 ..      70      77 .. 0.84
   2 !   17.3   4.3   2.7e-06     0.003       4      19 ..     163     178 ..     161     180 .. 0.88
   3 ?    2.1   0.3      0.17   1.9e+02      13      21 ..     227     235 ..     226     237 .. 0.87

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 1.1
                             -THHHH CS
                     Fer4 11 CGaCve 16
                             CG C +
  PHY93_03090|PHY93_03090 71 CGMCSM 76
                             ****75 PP

  == domain 2  score: 17.3 bits;  conditional E-value: 2.7e-06
                              ETTTSSS-THHHHHST CS
                     Fer4   4 deekCigCGaCvevCP 19 
                              d   CigCGaCv  C 
  PHY93_03090|PHY93_03090 163 DAAACIGCGACVASCK 178
                              6789***********5 PP

  == domain 3  score: 2.1 bits;  conditional E-value: 0.17
                              HHHHHSTTT CS
                     Fer4  13 aCvevCPvg 21 
                              +C+  CP g
  PHY93_03090|PHY93_03090 227 ECEAQCPKG 235
                              5******87 PP

>> Fer4_15  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   0.1   2.7e-05     0.031       3      21 ..     162     180 ..     160     216 .. 0.82
   2 ?   -1.1   0.2         3   3.3e+03       7      25 ..     221     239 ..     220     244 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 2.7e-05
                  Fer4_15   3 vDrdaCigcglCvaeapev 21 
                               D  aCigcg+Cva +++ 
  PHY93_03090|PHY93_03090 162 MDAAACIGCGACVASCKNA 180
                              6899************764 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 3
                  Fer4_15   7 aCigcglCvaeapevfeld 25 
                              +C+  + C a +p+ ++++
  PHY93_03090|PHY93_03090 221 NCTNEAECEAQCPKGIKIE 239
                              5888889999999887765 PP

>> Fer4_22  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.3       6.9   7.7e+03       5      11 ..      71      77 ..      65     103 .. 0.65
   2 ?   13.4   0.3   9.3e-05       0.1      76      94 ..     161     179 ..     138     181 .. 0.85
   3 ?    1.5   0.2      0.49   5.5e+02      73      96 .]     213     236 ..     198     236 .. 0.73

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 6.9
                  Fer4_22  5 CgaCtlv 11
                             Cg C+++
  PHY93_03090|PHY93_03090 71 CGMCSMM 77
                             4444433 PP

  == domain 2  score: 13.4 bits;  conditional E-value: 9.3e-05
                  Fer4_22  76 kfgesgCvGCgRCieacpv 94 
                               +++ +C+GCg C+++c++
  PHY93_03090|PHY93_03090 161 AMDAAACIGCGACVASCKN 179
                              568999***********86 PP

  == domain 3  score: 1.5 bits;  conditional E-value: 0.49
                  Fer4_22  73 fkekfgesgCvGCgRCieacpvki 96 
                               +++ g   C+    C+++cp++i
  PHY93_03090|PHY93_03090 213 KMDELGFGNCTNEAECEAQCPKGI 236
                              455667778888889999999876 PP

>> Fer4_21  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.1       2.7   3.1e+03      11      17 ..      71      77 ..      54      85 .. 0.70
   2 ?   11.1   9.3   0.00029      0.32       3      26 ..     162     185 ..     160     239 .. 0.63

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 2.7
                  Fer4_21 11 CgkClia 17
                             Cg C ++
  PHY93_03090|PHY93_03090 71 CGMCSMM 77
                             6666555 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 0.00029
                  Fer4_21   3 idedkCigCgkCliaCedtshqai 26 
                              +d + CigCg C+ +C+++s    
  PHY93_03090|PHY93_03090 162 MDAAACIGCGACVASCKNASAMLF 185
                              68899************9876544 PP

>> Fer4_3  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   4.2   0.00014      0.16       1      11 [.     167     177 ..     167     181 .. 0.93
   2 ?    6.5   0.9     0.017        19       4      14 ..     222     235 ..     220     236 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 0.00014
                   Fer4_3   1 CtgCgaCvevC 11 
                              C+gCgaCv +C
  PHY93_03090|PHY93_03090 167 CIGCGACVASC 177
                              *********** PP

  == domain 2  score: 6.5 bits;  conditional E-value: 0.017
                   Fer4_3   4 Cg...aCvevCPvg 14 
                              C     C+  CP+g
  PHY93_03090|PHY93_03090 222 CTneaECEAQCPKG 235
                              644446*******9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (255 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       649  (0.0361983); expected 358.6 (0.02)
Passed bias filter:                      419  (0.02337); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              16  [number of targets reported over threshold]
# CPU time: 0.56u 0.22s 00:00:00.78 Elapsed: 00:00:00.43
# Mc/sec: 1772.69
//
Query:       PHY93_03095|PHY93_03095  [L=643]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.2e-54  186.0   0.1    1.5e-54  185.7   0.1    1.1  1  FAD_binding_2   FAD binding domain
    1.9e-36  124.9   0.1    3.4e-36  124.0   0.1    1.5  1  Succ_DH_flav_C  Fumarate reductase flavoprotein C-term
    4.1e-09   36.1   0.3    4.8e-08   32.6   0.3    2.3  2  Pyr_redox_2     Pyridine nucleotide-disulphide oxidoreductase
    6.2e-07   29.3   0.8    6.8e-06   25.9   0.8    2.1  1  DAO             FAD dependent oxidoreductase
    2.2e-06   27.0   5.1     0.0035   16.5   1.2    2.2  2  GIDA            Glucose inhibited division protein A
     0.0012   18.2   0.3       0.37   10.0   0.1    2.4  2  Pyr_redox_3     Pyridine nucleotide-disulphide oxidoreductase
     0.0025   18.0   0.3      0.018   15.2   0.2    2.4  2  NAD_binding_8   NAD(P)-binding Rossmann-like domain
     0.0034   16.1   1.5       0.11   11.1   0.1    2.5  3  HI0933_like     HI0933-like protein
      0.009   15.3   0.0      0.016   14.5   0.0    1.4  1  AlaDh_PNT_C     Alanine dehydrogenase/PNT, C-terminal domain
  ------ inclusion threshold ------
      0.023   15.2   0.4      0.091   13.3   0.0    2.1  2  Pyr_redox       Pyridine nucleotide-disulphide oxidoreductase
       0.13   12.1   0.1       0.39   10.6   0.1    1.8  2  3HCDH_N         3-hydroxyacyl-CoA dehydrogenase, NAD binding 


Domain annotation for each model (and alignments):
>> FAD_binding_2  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  185.7   0.1   9.2e-58   1.5e-54       2     417 .]      44     449 ..      43     449 .. 0.91

  Alignments for each domain:
  == domain 1  score: 185.7 bits;  conditional E-value: 9.2e-58
                              EEEE--SHHHHHHHHHHHHTTT-EE.EEESSSGGGSGGGG--S-EE-TT..SSGGSTC.CHHHHHHHHHHHHTTT-S-HHHHHHHH CS
            FAD_binding_2   2 viViGsGlAGLaAAleaaeaGlkva.vvekeqefggatawsqGgidavlspeqkkagikdspelhrtdtlkaldeladqplveafv 86 
                              viV+G+GlAG +AA+++ae G +v+    + ++++ ++ ++qGgi+a+ + ++    ++ds+   ++dt+k++d++a +  v  ++
  PHY93_03095|PHY93_03095  44 VIVVGTGLAGASAAASMAELGYNVTtFCIQDSPRRAHSIAAQGGINAAKNYPN----DGDSVYRLFYDTVKGGDYRARESNVYRLA 125
                              9*********************6541445666679**************9888....579************************** PP

                              HTHHHHHHHHHHTT----BCCTSSB-EEE-TT-SSTEEEE-.STT-.......HHHHHHHHHHHHHHTCTEEEEESEEEEEEEECT CS
            FAD_binding_2  87 eaapeavdeLeelgvpfsrtedgpvdvrelGglsatartlhdaadarr.etlvtghallarlvesarkagvdfqerteadeLived 171
                              e a   +d+  ++gvpf r+ +g++  r +Gg +   rt + +++  +   l+   a+++ ++++     ++ ++r e++eL+v d
  PHY93_03095|PHY93_03095 126 EVANNIIDQCVAQGVPFAREYGGTLSNRSFGGAQVS-RTFYARGQTGQqLLLGAYSAMMKEVHKGT----IKSYTRREMTELVVID 206
                              *******************9999*************.****9999877777788888888888888....**************** PP

                              TEEEEEEEEETTTTCEEEEEESEEEE-----GG..........GSSSBSSGTT-S-HHHHHHHCTTSSEES..TT-EEEEEEEET. CS
            FAD_binding_2 172 grvtGavvenpesgrevrirakavvlatgGfgrallkellgaaaeaettnapavtGdglalalragaalnddrmeevqfhPtslvp 257
                              g+++G+vv+n  +g+ ++++a+av+latgG+g+          ++  +tna+a    +   a+ +ga  ++  +   q+hPt+++ 
  PHY93_03095|PHY93_03095 207 GKARGIVVRNVVTGEFEKYTADAVILATGGYGN----------VYYLSTNAKASNASAAFRAYKKGAYFAN--PCYTQIHPTCIPV 280
                              *********************************..........*********999999999*******999..***********97 PP

                              ...TTTB..B--THHHHTT-EEE-.TTSSBTH....................GGGS-HHHHHHHHH.HHHHTTTS...CCBEEEE- CS
            FAD_binding_2 258 irdgsgi..LitealrgeGgilvd.kdGrrFm....................nelasrdvvsrailekeiaeggs...eanvylda 317
                               +d++    L++e lr++G ++v   +G +                      ++l +rdv sr    +  a+ g    +++vyld+
  PHY93_03095|PHY93_03095 281 SGDHQSKltLMSESLRNDGRVWVPkMKGDKRSpdlipenerdyyleriypsfGNLVPRDVASRNAKLQCDAGFGVsatGKAVYLDF 366
                              777766689***************989977447999**************************9876344333333577999***** PP

                              TT....SSHHHHHHHSHHHHHHHHHCCT......S-TTTSEEE.......EEEEEEEES-EEEBETTSBESTTEEESSBTEEE-ST CS
            FAD_binding_2 318 sh...gldaegleatleaineeaangldkdfgrgidpadrpipgpfyavkvvpaqhytmgGvetdengrvldadgqpipGLYAaGe 400
                              ++   + ++++++a+  +     ++  d       +p++ p++       ++pa hytmgG+ +d+n+        +ipGL+  Ge
  PHY93_03095|PHY93_03095 367 ADaikRKGEDKIRAEYGNLFAMYERITD------HNPYKMPMM-------IYPAIHYTMGGLWVDYNLMS------NIPGLFVLGE 433
                              **88888889999999999988888777......89*******.......********************......********** PP

                              CEESSSSTTS--TTHHH CS
            FAD_binding_2 401 vaaggvhganrlgGnsl 417
                              +   + hganrlg++ l
  PHY93_03095|PHY93_03095 434 AN-FSDHGANRLGASAL 449
                              **.999*******9765 PP

>> Succ_DH_flav_C  Fumarate reductase flavoprotein C-term
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  124.0   0.1   2.1e-39   3.4e-36       1     127 [.     510     643 .]     510     643 .] 0.98

  Alignments for each domain:
  == domain 1  score: 124.0 bits;  conditional E-value: 2.1e-39
                              .HHHHHHHHHHSSSSB-HHHHHHHHHHHHHHHHH.HTTB--S---SSS-HHHHHHHHHHHHHHHHHHHHHHHHH--S-BTTBEBTT CS
           Succ_DH_flav_C   1 rkeLgkimqkkvgvfRteegLkealkelkelrer.lknvkvtdkskvaNqelvealelanllelAeaiaksAlaRkESrGaHared 85 
                              +++Lg+im+++vg+ R+e+gLk+a++e+++lre+ +knvkv++ +  +N+el++a ++a++lel+e++a +Al+RkES+G+H+re+
  PHY93_03095|PHY93_03095 510 HRALGHIMWENVGMGRNEAGLKKAISEIQALREDfWKNVKVSGLNVDVNTELEKAGRVADFLELGELMALDALERKESCGGHFREE 595
                              899*********************************************************************************** PP

                              S-S......EETTT-SEEEEE...TT-SS-EEEEEE--GGG--S---S CS
           Succ_DH_flav_C  86 fpe......rdDenwlkhtlasldaakeeveleyepveletlkpkeRs 127
                               ++      rdDen+++++++ ++ +++++  + e++++et+k+++Rs
  PHY93_03095|PHY93_03095 596 SQTpenealRDDENFCHVAAWEYQGDATKPIRNIEELKFETVKLTQRS 643
                              988889****************************************96 PP

>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.6   0.3   2.9e-11   4.8e-08       1     114 [.      42     241 ..      42     266 .. 0.80
   2 ?    0.5   0.0      0.17   2.8e+02     256     278 ..     413     435 ..     408     452 .. 0.78

  Alignments for each domain:
  == domain 1  score: 32.6 bits;  conditional E-value: 2.9e-11
                              CSEEEE--SHHHHHHHHHHHHHTS-EEEE................E..TTHCHHHCSHHHHCHHHHHHHHHHHHH........... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxx................x..xxxxxxxxxxxxxxxxxxxxxxxxxxx........... RF
              Pyr_redox_2   1 kdvvviGgGpAGlaaaltlaqagakvtlv................e..legtclnggcllskallgvaedaeias........... 57 
                              ++v+v+G G AG +aa  +a+ g++vt +                +  + ++ +n+g +++  +  + + ++ ++           
  PHY93_03095|PHY93_03095  42 YSVIVVGTGLAGASAAASMAELGYNVTTFciqdsprrahsiaaqgGinAAKNYPNDGDSVYRLFYDTVKGGDYRAresnvyrlaev 127
                              68*******************9999999977876666665555541447777777777777777777777766669999******* PP

                              ........................................................HHHHCHHHH.CCCCHC...CTCEEEEESCE CS
                              ........................................................xxxxxxxxx.xxxxxx...xxxxxxxxxxx RF
              Pyr_redox_2  58 ........................................................evvkklnqg.ielllg...eevvkidpgkk 83 
                                                                                      +   ++ +g i+ +++   +e v id +++
  PHY93_03095|PHY93_03095 128 anniidqcvaqgvpfareyggtlsnrsfggaqvsrtfyargqtgqqlllgaysammK---EVHKGtIKSYTRremTELVVIDGKAR 210
                              *****************************************************6662...44445455555533367788888888 PP

                              EEEETEEECTCEEEEEESEEEE---EEE-BC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2  84 kvklekkkegdeekiaydklvlAtGssprdl 114
                               +++++ ++g+ ek+++d+++lAtG+  +  
  PHY93_03095|PHY93_03095 211 GIVVRNVVTGEFEKYTADAVILATGGYGNVY 241
                              999999*******************865544 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.17
                              TEEE--TTSBESSTTEEE-GGGC CS
                              xxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 256 ggivvdeflrtnvpgiyaiGDva 278
                              gg+ vd +l +n+pg++++G   
  PHY93_03095|PHY93_03095 413 GGLWVDYNLMSNIPGLFVLGEAN 435
                              8889****************876 PP

>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.9   0.8   4.2e-09   6.8e-06       2     292 ..      44     328 ..      43     364 .. 0.59

  Alignments for each domain:
  == domain 1  score: 25.9 bits;  conditional E-value: 4.2e-09
                              EEEECTSHHHHHHHHHHHHTT..EEEEESSSSTTSSGGGSSEEEEESSSSTHHSTHHHHHHHHHHHHHHHHHHHHHSSTTSEEEEE CS
                      DAO   2 vviiGGGiiGlstAyeLarrg..VtllekgdiagsgaSgrnsgllhsglrylpeaselarlslealeelreleeelgididyrrtG 85 
                              v+++G G +G+s+A   a+ g  Vt ++ +d + ++ S +++g + ++  y+ ++  ++rl +++      +    g d   r++ 
  PHY93_03095|PHY93_03095  44 VIVVGTGLAGASAAASMAELGynVTTFCIQDSPRRAHSIAAQGGINAAKNYPNDGDSVYRLFYDT------VK---GGDYRARESN 120
                              9*****************************9****************776444453333444443......33...3367777889 PP

                              EEEEESSHHHHHHHHHHHHHHHHTTTTE.EEEEHHHHHHHSTTSTTTSEEEEETTEEEEEHHHHHHH...HHHHHHHTT-EEEESE CS
                      DAO  86 llslaadeeelealdkllallleaglda.elldaeevrelepalpgllgalfypdtgqvdpakltaa...laraaealGveilegt 167
                              ++ la+     ++  + ++++ ++g++  +   + + ++ + +  ++    fy   gq   + l+ a   +++++ ++ ++ ++++
  PHY93_03095|PHY93_03095 121 VYRLAEV----AN--NIIDQCVAQGVPFaREYGGTLSNRSFGGA-QV-SRTFYAR-GQTGQQLLLGAysaMMKEVHKGTIKSYTRR 197
                              9999843....32..45666655677654445555444555422.22.3355555.453333333222337777888889999999 PP

                              CEEEEEEEETCEEEEE...EECTEEE..EEEEEEEE--GGGHH...HHHTT..CTTTSEEEE.EEEEEEEEEECCTHSTGSGCSEE CS
                      DAO 168 evtgleeedgkvwgve...rttpgen..daadavVnaaGawsd...llgll..keldlpisp.vrgqvlvlkplseklvspaailp 242
                              e t+l   dgk+ g+    ++t ge    +adav++a+G + +   l+ ++   +    +++  +g +++  p         +i p
  PHY93_03095|PHY93_03095 198 EMTELVVIDGKARGIVvrnVVT-GEFekYTADAVILATGGYGNvyyLSTNAkaSNASAAFRAyKKGAYFAN-PCYT------QIHP 275
                              9***988888888888875333.4442347799********876633322212111222222134444444.4433......2333 PP

                              EEE...EEETTTTEEEEE..ETTSEEEEEESSEEETTCSSTSCSHHHHHHHHHHH CS
                      DAO 243 vpe...tdddgrgvyvtp..rkdgrvlvGgtadeesgdddpevdeedidelleal 292
                              + +    d++++ + +    r dgrv+v       ++  +  ++e+++d++le++
  PHY93_03095|PHY93_03095 276 TCIpvsGDHQSKLTLMSEslRNDGRVWVPKMK--GDKRSPDLIPENERDYYLERI 328
                              33322133333333333333366777774433..222222345555555555544 PP

>> GIDA  Glucose inhibited division protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   1.2   2.1e-06    0.0035       2      28 ..      44      70 ..      43      92 .. 0.84
   2 !   12.1   0.1   4.8e-05     0.077      87     162 ..     181     248 ..     167     261 .. 0.75

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 2.1e-06
                             EEEE-SSHHHHHHHHHHHHTT--EEEE CS
                     GIDA  2 viViGgGhAGceAAlaaarlGakvlLi 28
                             viV+G G+AG  AA+ +a+lG++v+ +
  PHY93_03095|PHY93_03095 44 VIVVGTGLAGASAAASMAELGYNVTTF 70
                             9**********************9876 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 4.8e-05
                              EEEEEE-HHHHHHHHHHHHHTSTTEEEEES-EEEEEECTTEEEEEEETTS-EEEECEEEE--TT-BT-EEEETTEE CS
                     GIDA  87 alraqvdrelyskevteklenepnleiieeeveeliveekkvkgvvtedgetikakavviatGtflkgkihigeke 162
                              a++  v + +++++ ++++ +   l +i +++  ++     v+ vvt + e+++a+av++atG + +      + +
  PHY93_03095|PHY93_03095 181 AMMKEVHKGTIKSYTRREMTE---LVVIDGKARGIV-----VRNVVTGEFEKYTADAVILATGGYGNVYYLSTNAK 248
                              555556666666666666665...888888888884.....488999999**************988766655544 PP

>> Pyr_redox_3  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.9   0.0     0.004       6.5     151     194 ..      29      71 ..      14      89 .. 0.74
   2 !   10.0   0.1   0.00023      0.37     115     148 ..     217     250 ..     190     268 .. 0.81

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.004
              Pyr_redox_3 151 khyskvkefhkyagqkvvViGgknSavDaAlelvrkgaeVtvvt 194
                               h +   ++++ ++  v+V+G +  ++ aA  +++ g +Vt + 
  PHY93_03095|PHY93_03095  29 FHMKL-VNPANKRKYSVIVVGTGLAGASAAASMAELGYNVTTFC 71 
                              33333.34557778899***********************9764 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00023
              Pyr_redox_3 115 evetsketyeAkkviiAtGefdkPnklnipGeek 148
                              +v+ + e+y+A+ vi+AtG +++ ++l+ + + +
  PHY93_03095|PHY93_03095 217 VVTGEFEKYTADAVILATGGYGNVYYLSTNAKAS 250
                              5667779****************99988776654 PP

>> NAD_binding_8  NAD(P)-binding Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.2   1.1e-05     0.018       1      25 [.      46      70 ..      46      93 .. 0.87
   2 ?   -0.9   0.0       1.2     2e+03      23      40 ..     580     597 ..     576     616 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 1.1e-05
                             EE--SHHHHHHHHHHHCCTEEEEEE CS
            NAD_binding_8  1 IvGaGlsGlvaAylLakagfdvlll 25
                             +vG+Gl+G++aA+ +a+ g++v+ +
  PHY93_03095|PHY93_03095 46 VVGTGLAGASAAASMAELGYNVTTF 70
                             8*********************988 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 1.2
                              EEE-SSSSSSGGG-EECE CS
            NAD_binding_8  23 lllekrdrlGGraasyev 40 
                              + le+ +++GG+ + ++ 
  PHY93_03095|PHY93_03095 580 DALERKESCGGHFREESQ 597
                              6799********988755 PP

>> HI0933_like  HI0933-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.1   0.1   6.9e-05      0.11       2      51 ..      43      92 ..      42     102 .. 0.91
   2 ?    3.5   0.0     0.014        24     114     165 ..     181     237 ..     177     254 .. 0.74
   3 ?   -3.0   0.0       1.4   2.2e+03     365     383 ..     417     433 ..     409     434 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 6.9e-05
                             SEEEE--SHHHHHHHHHHHHTT--EEEE-SSSSS-HHHHHCGGGT-EEEE CS
              HI0933_like  2 dviviGgGaAGlmaAisaakrgkrVlllekakklgrKilisGgGrcNvTn 51
                             +viv+G G AG  aA+s+a+ g +V+ +  ++++ r   i+ +G++N   
  PHY93_03095|PHY93_03095 43 SVIVVGTGLAGASAAASMAELGYNVTTFCIQDSPRRAHSIAAQGGINAAK 92
                             79**************************9999999999999999999765 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.014
                              HHHHHHHHHT-EEE-S--EEEEECETTE.EEEEE......TTEEEEESEEEE----S CS
              HI0933_like 114 allkelkeagvklrletevksvekeedgkfrvktk.....seeeleadklvlAtGGl 165
                              a++ke+++  +k ++++e++++   ++++  + ++     + e+++ad+++lAtGG 
  PHY93_03095|PHY93_03095 181 AMMKEVHKGTIKSYTRREMTELVVIDGKARGIVVRnvvtgEFEKYTADAVILATGGY 237
                              67889999999999999999985555444433332123337789***********96 PP

  == domain 3  score: -3.0 bits;  conditional E-value: 1.4
                              B-TTT-BBTTSTTEEE-GG CS
              HI0933_like 365 vssktmeskkvpgLffaGE 383
                              v+ + m   ++pgLf+ GE
  PHY93_03095|PHY93_03095 417 VDYNLM--SNIPGLFVLGE 433
                              566777..899*******9 PP

>> AlaDh_PNT_C  Alanine dehydrogenase/PNT, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.5   0.0   9.9e-06     0.016      28      60 ..      41      73 ..      25     119 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 9.9e-06
                             --EEEEESTSHHHHHHHHHHHHTT-EEEEEESS CS
              AlaDh_PNT_C 28 pakvlviGgGvaGlqAiatakglgakVtvlDvr 60
                             +  v+v+G G aG +A+a  ++lg +Vt + ++
  PHY93_03095|PHY93_03095 41 KYSVIVVGTGLAGASAAASMAELGYNVTTFCIQ 73
                             5689***********************988655 PP

>> Pyr_redox  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   5.6e-05     0.091       1      35 [.      43      77 ..      43      85 .. 0.90
   2 ?   -1.5   0.1       2.4   3.8e+03      44      79 ..     180     215 ..     173     217 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 5.6e-05
                             EEEEECSSHHHHHHHHHHHHTTSEEEEEESSSSSS CS
                Pyr_redox  1 kvvvvGgGyiglElAgalaelgkkVtvversdkll 35
                             +v+vvG G+ g  +A+ +aelg +Vt +  +d ++
  PHY93_03095|PHY93_03095 43 SVIVVGTGLAGASAAASMAELGYNVTTFCIQDSPR 77
                             699***********************998888877 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 2.4
                              HHHHHHHHHTTEEEECSEEEEEEEEETTSEEEEEEE CS
                Pyr_redox  44 kilqeklekngievllntkveeiegsedgvesvklk 79 
                              +++++++ k  i+ ++ ++ +e++  + + ++++++
  PHY93_03095|PHY93_03095 180 SAMMKEVHKGTIKSYTRREMTELVVIDGKARGIVVR 215
                              578888888899999999999999888778888876 PP

>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.1   0.00024      0.39       2      32 ..      44      74 ..      43      95 .. 0.84
   2 ?   -3.3   0.0       4.3     7e+03       9      64 ..     443     498 ..     440     513 .. 0.65

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00024
                             EEEE--SCCHHHHHHHHHHTT-EEEEE-S-H CS
                  3HCDH_N  2 vaviGaGtmGagiaavfasagleVvlvdise 32
                             v v+G+G+ Ga+ aa +a+ g++V+ + i++
  PHY93_03095|PHY93_03095 44 VIVVGTGLAGASAAASMAELGYNVTTFCIQD 74
                             88**********************9887754 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 4.3
                              CCHHHHHHHHHHTT-EEEEE-S-HHHHHHHHHHHHHHHHCCTTTTSS-HHHHCCCH CS
                  3HCDH_N   9 tmGagiaavfasagleVvlvdiseealekalekieksleklvekgklkeeeveaal 64 
                               +Ga+  ++ ++ g+ V  + i + ++ +  ekie++  +++++ + ++++++++l
  PHY93_03095|PHY93_03095 443 RLGASALMQGLADGYFVIPYTIGNYFASEKFEKIETTHPEFEKAFSDSTAKFKKLL 498
                              56666667777778888888888888888888888877766655555555554444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (643 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       566  (0.031569); expected 358.6 (0.02)
Passed bias filter:                      519  (0.0289475); expected 358.6 (0.02)
Passed Vit filter:                        61  (0.00340231); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.74u 0.28s 00:00:01.02 Elapsed: 00:00:00.45
# Mc/sec: 4271.39
//
Query:       PHY93_03100|PHY93_03100  [L=222]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.4e-06   27.1  17.2     0.0021   18.1   3.5    2.2  2  Sdh_cyt       Succinate dehydrogenase/Fumarate reductase tran
  ------ inclusion threshold ------
       0.19   10.9   1.2        0.4    9.9   0.0    1.8  2  Bac_export_2  FlhB HrpN YscU SpaS Family


Domain annotation for each model (and alignments):
>> Sdh_cyt  Succinate dehydrogenase/Fumarate reductase transmembrane subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   3.5   2.3e-07    0.0021      26      92 ..      19      84 ..      17      91 .. 0.81
   2 !   15.9   5.0   1.1e-06      0.01      13     102 ..      99     192 ..      85     212 .. 0.64

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 2.3e-07
                  Sdh_cyt 26 hritGvallvglllllvwlllalslsspesfarvvallas.piklilllllllallyHllnGiRhllw 92
                             + +tG++l + +l++++     ++l ++++f+++++ l+s p   + +++l+l+++ H++   ++++ 
  PHY93_03100|PHY93_03100 19 MAVTGLLLCG-FLVTHML-GNFTLLIGSDAFNKYSHALTSnPLIYFAEAGLALLFISHIVMAFKVIIA 84
                             789*******.5555544.45666789999****88888887777777************99999986 PP

  == domain 2  score: 15.9 bits;  conditional E-value: 1.1e-06
                  Sdh_cyt  13 lyrlplgawlsilhritGvallv.glllllv......wlllalslsspesfarv....vallaspiklilllllllallyHllnGi 87 
                              ++r   g+++s ++ ++Gv+ lv +++++l       + ++   +   +    +    v+ ++s   +  ++++++al  H+++G 
  PHY93_03100|PHY93_03100  99 SGR--GGTFASATMAYSGVIALVfLVIHILGlkfgtqYTTIIGGVEMRD----IykttVEYFQSSLHVGGYIVAIVALGVHTSHGF 178
                              444..799***************66666666554444333333333444....2555599**997777777999999999*****9 PP

                  Sdh_cyt  88 RhllwDlglgl.eles 102
                               + ++ lg  + +++ 
  PHY93_03100|PHY93_03100 179 WSAFQSLG--FnHPKY 192
                              88888554..333333 PP

>> Bac_export_2  FlhB HrpN YscU SpaS Family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.8     0.055     5e+02      30      86 ..      22      76 ..      11      88 .. 0.41
   2 ?    9.9   0.0   4.4e-05       0.4       2     113 ..      85     194 ..      84     214 .. 0.84

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.055
                             XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
             Bac_export_2 30 alvllaglllllllgpslveelaellrevlsalelllelllallllllplllvllla 86
                             + +ll+g+l+  +lg++ +   +++++++ +a  l+++ l+ ++ + l ll++  ++
  PHY93_03100|PHY93_03100 22 TGLLLCGFLVTHMLGNFTLLIGSDAFNKYSHA--LTSNPLIYFAEAGLALLFISHIV 76
                             33445555555555555554444444443333..33333333333322221111111 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 4.4e-05
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
             Bac_export_2   2 eKteepTpkklrdarekGqvakskelssalvllaglllllllgpslveelaellrevlsalelllelllallllllplllvlllaa 87 
                              +K+  pTp        +G  + s+ ++   v+++++l++ +lg ++ ++ ++++  v   ++ + +++++ ++  l +   +++++
  PHY93_03100|PHY93_03100  85 NKQARPTPYYSYTKSGRGGTFASATMAYSGVIALVFLVIHILGLKFGTQYTTIIGGVE--MRDIYKTTVEYFQSSLHVGGYIVAIV 168
                              6888999999999999999999999999999999999999999999999999887753..45688999999999999999999999 PP

                              XXXXXXXXXXXXXXXXXXXXXXXXXX CS
             Bac_export_2  88 llanllqvgflfstkalkpklsklnp 113
                              +l+    +gf+ ++++l ++  k  p
  PHY93_03100|PHY93_03100 169 ALGVHTSHGFWSAFQSLGFNHPKYMP 194
                              99999999*********999877666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (222 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       525  (0.0292822); expected 358.6 (0.02)
Passed bias filter:                      255  (0.0142228); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.46
# Mc/sec: 1455.91
//
Query:       PHY93_03105|PHY93_03105  [L=141]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.8e-28   99.2   0.1      2e-28   99.0   0.1    1.0  1  Zn_protease      Putative ATP-dependant zinc protease
     0.0044   17.6   0.0      0.064   13.8   0.0    2.0  1  gag-asp_proteas  gag-polyprotein putative aspartyl protease
  ------ inclusion threshold ------
       0.11   13.1   0.9       0.11   13.1   0.9    1.6  2  SlpA             Surface later protein A domain


Domain annotation for each model (and alignments):
>> Zn_protease  Putative ATP-dependant zinc protease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   99.0   0.1   3.3e-32     2e-28       2     134 ..      11     140 ..      10     141 .] 0.97

  Alignments for each domain:
  == domain 1  score: 99.0 bits;  conditional E-value: 3.3e-32
              Zn_protease   2 vGekEelsLpelkiq.lkakidtgaltsSLsagdiesferdgekwVrfkevrldekkaegvvlEakvlrivkirqsagdaekRpVi 86 
                              vG++E++ Lp  k+  lkakidtga+ts+L+a +ie  +  g+k+Vrf    +++++ +++ + a+ l++++i++s+g+++ RpV+
  PHY93_03105|PHY93_03105  11 VGWRESVDLPMFKLInLKAKIDTGAKTSALHADEIEFITFKGKKYVRF---SIENDEGKKKYIKARFLEEREIKSSTGQKTIRPVV 93 
                              8*********998766********************************...999******************************** PP

              Zn_protease  87 klqlllgpeiekievtLtdRsavkypvllgvralikakaaVDpsrkyi 134
                              k+++ +g+   +ie+tL +R ++ + +l+g r++++ + +++p+r+y+
  PHY93_03105|PHY93_03105  94 KTKIRMGKSEFEIEITLINRDLMGFKMLIG-REALNGRFLINPARSYL 140
                              ******************************.**************995 PP

>> gag-asp_proteas  gag-polyprotein putative aspartyl protease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.8   0.0   1.1e-05     0.064      10      54 ..      27      70 ..      24     129 .. 0.61

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 1.1e-05
                             EEEEEETT-SS-EEEHHHHHHTTGGGGEB..TT--EE-TTSTT-E CS
          gag-asp_proteas 10 vkflvDTGAsstiiseelaerlglsrkedkgkvevktangeveak 54
                             +k+ +DTGA++++++++ +e +  + k+   ++++++  g+++  
  PHY93_03105|PHY93_03105 27 LKAKIDTGAKTSALHADEIEFITFKGKKY-VRFSIENDEGKKKYI 70
                             67889*****************9888874.455554444443322 PP

>> SlpA  Surface later protein A domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.9   1.9e-05      0.11      20      54 ..      29      72 ..      23      73 .. 0.78
   2 ?   -2.9   0.0       1.8   1.1e+04      18      22 ..      94      97 ..      83     105 .. 0.50

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 1.9e-05
                     SlpA 20 kklkkgssvktygkk....vtIkNgkkYYkI......gknqYika 54
                             +k+ +g + +++ +     +t+k gkkY +       gk++Yika
  PHY93_03105|PHY93_03105 29 AKIDTGAKTSALHADeiefITFK-GKKYVRFsiendeGKKKYIKA 72
                             46666666666666667799**7.****99889***********9 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 1.8
                     SlpA 18 ktkkl 22
                             kt k+
  PHY93_03105|PHY93_03105 94 KT-KI 97
                             11.33 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (141 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       429  (0.0239277); expected 358.6 (0.02)
Passed bias filter:                      318  (0.0177366); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 963.24
//
Query:       PHY93_03110|PHY93_03110  [L=298]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.7e-66  222.0   0.0    6.1e-66  221.6   0.0    1.1  1  RimK             RimK-like ATP-grasp domain
    2.2e-44  149.8   0.1    3.9e-44  149.0   0.1    1.4  1  Rimk_N           RimK PreATP-grasp domain
    1.1e-17   64.0   0.2    1.6e-17   63.5   0.2    1.2  1  GSH-S_ATP        Prokaryotic glutathione synthetase, ATP-gras
      1e-09   38.6   0.0    1.6e-09   38.0   0.0    1.3  1  ATP-grasp_3      ATP-grasp domain
    1.7e-07   30.8   0.2      0.021   14.1   0.0    2.9  2  ATPgrasp_ST      Sugar-transfer associated ATP-grasp
    8.7e-05   22.1   0.1    0.00043   19.9   0.1    1.9  1  Dala_Dala_lig_C  D-ala D-ala ligase C-terminus
     0.0015   17.9   0.1       0.23   10.7   0.1    3.0  1  ATPgrasp_YheCD   YheC/D like ATP-grasp
  ------ inclusion threshold ------
      0.091   12.8   0.0       0.14   12.1   0.0    1.3  1  R2K_3            ATP-grasp domain, R2K clade family 3


Domain annotation for each model (and alignments):
>> RimK  RimK-like ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  221.6   0.0   2.7e-69   6.1e-66       2     188 .]      98     286 ..      97     286 .. 0.99

  Alignments for each domain:
  == domain 1  score: 221.6 bits;  conditional E-value: 2.7e-69
                              H-HHHHHHHHHHTT-----EEEESS-S-HHHHHHTT-.-SSEEEEE-TTTT--EEEEE-SHHHHHHHHHH...GGG--EEEEE--S CS
                     RimK   2 rdKlkslklLakakikvpntalardeedaekliekiklrfPvvvKsvegsqGikvvlakkeqklkqvlea...lkeailvqeyiee 84 
                              rdKl+sl+lL +++i++p+t +a++ + +++li+ ++ ++P+++K +eg+qG +vvla++  ++++v++a   ++++ilvqe+i+e
  PHY93_03110|PHY93_03110  98 RDKLRSLQLLSRKGIGLPVTGFAHSTKMTQELIKLVG-GAPLIIKLLEGTQGKGVVLAETDGAAESVIDAfreMDANILVQEFIKE 182
                              8***********************************9.********************************999999********** PP

                              S-SEEEEEEEETTEEEEEEEEE--SSS----TTTT-EEEE----HHHHHHHHHHHHHCT-SEEEEEEEEETTEEEEEEEESS--SH CS
                     RimK  85 aenediRvlvvddevvaalrrvskeGdFRsnlhrGgvaeklqlseeekelAikaakamelvvaGvDllrakrgllvlEvnsspgle 170
                              a + diR++v++devva+++r++keG+FRsnlhrGg a+++++++ee++ A+ a+ka++l vaGvDllr++rg+l++Evnsspgl+
  PHY93_03110|PHY93_03110 183 ARGSDIRCFVIGDEVVATMKRTAKEGEFRSNLHRGGSAQVVTITPEERQAALGATKALGLNVAGVDLLRSDRGPLIMEVNSSPGLN 268
                              ************************************************************************************** PP

                              HHHHHHT--HHHHHHHHH CS
                     RimK 171 kiektlgidiakklieai 188
                              +ie  +g d+a  +ie++
  PHY93_03110|PHY93_03110 269 GIETATGKDVAGMIIEYL 286
                              ***************986 PP

>> Rimk_N  RimK PreATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  149.0   0.1   1.7e-47   3.9e-44       1      94 []       1      94 [.       1      94 [. 1.00

  Alignments for each domain:
  == domain 1  score: 149.0 bits;  conditional E-value: 1.7e-47
                   Rimk_N  1 mkiaiLsrnpelystrrLveaaekrghevevldplrcylkieaekpevyykgekleefdavipRigasitfygtavlrqFemmgvfvl 88
                             mki+iLsr++++yst+rLvea ++rghev+v+d+l+cy++i+++kp vyy+++ l++fda+ipRigasitfygtav+rqFemmgv +l
  PHY93_03110|PHY93_03110  1 MKIGILSRSSNIYSTKRLVEASKARGHEVDVIDTLKCYMDITSKKPMVYYQERVLNDFDAIIPRIGASITFYGTAVIRQFEMMGVSSL 88
                             9*************************************************************************************** PP

                   Rimk_N 89 neseAi 94
                             nes Ai
  PHY93_03110|PHY93_03110 89 NESVAI 94
                             *****9 PP

>> GSH-S_ATP  Prokaryotic glutathione synthetase, ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.5   0.2     7e-21   1.6e-17      33     170 ..     135     270 ..     110     275 .. 0.80

  Alignments for each domain:
  == domain 1  score: 63.5 bits;  conditional E-value: 7e-21
                              S..EEEEESS--TTTT-EEE-TT-TTHHHHHHHHTTTTTS-EEEEE--GGGGG-EEEEEEETTEE-SEEEEEE--SS-S---GGGT CS
                GSH-S_ATP  33 d..vilKPldgkgGegvfrvkksdpnlksilellteegkepviaqrylpeikeGDkRillvdGepigyalaRvpaegevRsnlaag 116
                                 +i+K l+g+ G+gv+  ++ d   +s+++++ e++   +++q++++e++  D R +++  e +  +++R ++ege+Rsnl+ g
  PHY93_03110|PHY93_03110 135 GapLIIKLLEGTQGKGVVLAET-DGAAESVIDAFREMDA-NILVQEFIKEARGSDIRCFVIGDEVVA-TMKRTAKEGEFRSNLHRG 217
                              33489************97665.78899*****999887.899******************999999.****************** PP

                              SCEEEEE--HHHHHHHHHHHHHHHHTT--EEEEEEE....TTEEEEEE-SS---HHHH CS
                GSH-S_ATP 117 graeatelterdreiaeelapkLkekGllfvGlDvi....gdkltEinvtsPtgirei 170
                              g+a+ +++t ++r+ a   +   k+ Gl ++G+D++    g  ++E+n  sP g++ i
  PHY93_03110|PHY93_03110 218 GSAQVVTITPEERQAALGAT---KALGLNVAGVDLLrsdrGPLIMEVN-SSP-GLNGI 270
                              *************9886655...5569*******99433334577777.344.45555 PP

>> ATP-grasp_3  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.0   0.0   7.3e-13   1.6e-09       3     156 ..      99     263 ..      97     266 .. 0.77

  Alignments for each domain:
  == domain 1  score: 38.0 bits;  conditional E-value: 7.3e-13
                              SHHHHHHHHTTT.S---...........-EESS--.SSSEEEEESS-------B--SS--TTE.............EEEE---SEE CS
              ATP-grasp_3   3 dKlktykkLkeagvkvP.......tkleaeeleee.ekklvvKprdGaggesvrvveekeeaeaaieeve......lvqefieGkp 74 
                              dKl++ + L+++g+ +P       tk+++e ++ +   +l++K  +G  g++v+++e + +ae+ i+         lvqefi+   
  PHY93_03110|PHY93_03110  99 DKLRSLQLLSRKGIGLPvtgfahsTKMTQELIKLVgGAPLIIKLLEGTQGKGVVLAETDGAAESVIDAFRemdaniLVQEFIKEAR 184
                              9*****************9888774444444443359**********************99999998877888999******7544 PP

                              EE.EEEEE.SSSEEEEEEEEEEEET.....TEEEEEEES----HHHHHHHHHHHHHTTSTT--EEEEEEEEESS.SEEEEEEES CS
              ATP-grasp_3  75 lS.vsllsdgekvlvlavnrqliek.aekefvyaGnvtpietelkeevvelaeevvekleglaGyvGvDlvlkdeepyviEvNP 156
                               S + + + g +  v+a+ +   +  + +++  +G+++++ t   e  +++a  ++++l gl+ ++GvDl+ +d +p ++EvN+
  PHY93_03110|PHY93_03110 185 GSdIRCFVIG-DE-VVATMKRTAKEgEFRSNLHRGGSAQVVTITPE-ERQAALGATKAL-GLN-VAGVDLLRSDRGPLIMEVNS 263
                              3324444422.22.44444444444044559999****99966555.5788999*****.886.89*****************7 PP

>> ATPgrasp_ST  Sugar-transfer associated ATP-grasp
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.0   0.0   2.1e-05     0.046      10      86 ..      88     161 ..      81     229 .. 0.79
   2 !   14.1   0.0   9.4e-06     0.021     237     279 ..     237     278 ..     229     285 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 2.1e-05
              ATPgrasp_ST  10 yNpraefplvddKlkfkelalraglkvpkllgvikeqaeiseleafvkeleegvviKpakgsgGkGilviteredqd 86 
                              +N+  ++    dKl   +l++r+g+ +p   g  +  +  +el ++v +  + ++iK  +g  GkG++ +  ++ ++
  PHY93_03110|PHY93_03110  88 LNESVAISRSRDKLRSLQLLSRKGIGLPV-TGFAHSTKMTQELIKLVGGA-P-LIIKLLEGTQGKGVVLAETDGAAE 161
                              56666677778*****************9.66666667777777777777.5.9*************9986644433 PP

  == domain 2  score: 14.1 bits;  conditional E-value: 9.4e-06
              ATPgrasp_ST 237 eklpglgylGwDivldeekgplllElNarpglaivqiangegl 279
                              +k +gl + G+D+ l  ++gpl++E+N  pgl+ ++ a g+ +
  PHY93_03110|PHY93_03110 237 TKALGLNVAGVDL-LRSDRGPLIMEVNSSPGLNGIETATGKDV 278
                              5588999*****8.677777**************999998866 PP

>> Dala_Dala_lig_C  D-ala D-ala ligase C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.9   0.1   1.9e-07   0.00043      31     179 ..     130     268 ..     110     274 .. 0.74

  Alignments for each domain:
  == domain 1  score: 19.9 bits;  conditional E-value: 1.9e-07
                              HHHHC-SSEEEEESSSSTTTTEEEESSGGGHHHHHHHHHTT-SCEEEEE--...ESEEEEEEEEETSSCEEEEEEEEE-SSSSS-H CS
          Dala_Dala_lig_C  31 veeelgypvfVKpareGSSvGvskveseeelkeaieeafkydekvlvEeai...egreievavlgneklevsevgeivvkkgfydy 113
                              ++   g p+++K  +     Gv  +e+    ++ i++  ++d+++lv e+i   +g +i + v+g  +  v+++++ +++++f   
  PHY93_03110|PHY93_03110 130 IKLVGGAPLIIKLLEGTQGKGVVLAETDGAAESVIDAFREMDANILVQEFIkeaRGSDIRCFVIG--DEVVATMKRTAKEGEFRSN 213
                              44445678888888877788999999999999*******************8555779*******..5667777777777776432 PP

                              HHHHC.TT-EEESS----HHHHHHHHHHHHHHHHHTT--SEEEEEEEEETTTEEEEEEEESS---S CS
          Dala_Dala_lig_C 114 eakysddkaqlevpaklekeveekiqelalkaykaldlrGlaRvDfflteegeivlnEvNtlPGfT 179
                               +   + +aq++   ++++e+    +++al a kal+l+ +a vD++ + +  +++ EvN  PG+ 
  PHY93_03110|PHY93_03110 214 LH--RGGSAQVV---TITPEE----RQAALGATKALGLN-VAGVDLLRS-DRGPLIMEVNSSPGLN 268
                              22..33555543...233333....46789999999985.899**8765.788999********85 PP

>> ATPgrasp_YheCD  YheC/D like ATP-grasp
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.7   0.1    0.0001      0.23     123     166 ..     185     223 ..      95     289 .. 0.85

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.0001
           ATPgrasp_YheCD 123 pfDfRvlvqKngkgkWevtgiaaRiagkgsittnlsrGGtalpl 166
                                D+R +v  +     ev++++ R+a++g++ +nl+rGG+a  +
  PHY93_03110|PHY93_03110 185 GSDIRCFVIGD-----EVVATMKRTAKEGEFRSNLHRGGSAQVV 223
                              55666666644.....5899999****************98654 PP

>> R2K_3  ATP-grasp domain, R2K clade family 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   6.3e-05      0.14      93     183 ..     161     263 ..     120     268 .. 0.72

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 6.3e-05
                    R2K_3  93 eelralaakledtevlvsevv..rfsaEwRvFvvdGevvaasrYrkanddpdl..............epdlaafaeavralvgapp 162
                              e+++  a ++ d  +lv e +    ++  R+Fv+++evva+     +++++                +++ +a   a +al+  ++
  PHY93_03110|PHY93_03110 161 ESVI-DAFREMDANILVQEFIkeARGSDIRCFVIGDEVVATMKRTAKEGEFRSnlhrggsaqvvtitPEERQAALGATKALG--LN 243
                              3333.333444678888877743348899************99985555555566666666668776666677777777777..** PP

                    R2K_3 163 fyvlDvavtadGrwkVVEvnd 183
                              +  +D+ +++ G  ++ Evn 
  PHY93_03110|PHY93_03110 244 VAGVDLLRSDRG-PLIMEVNS 263
                              ************.9*****95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (298 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       415  (0.0231469); expected 358.6 (0.02)
Passed bias filter:                      369  (0.0205812); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.53u 0.26s 00:00:00.79 Elapsed: 00:00:00.47
# Mc/sec: 1918.48
//
Query:       PHY93_03115|PHY93_03115  [L=81]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (81 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       608  (0.0339115); expected 358.6 (0.02)
Passed bias filter:                      450  (0.025099); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.28s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 536.15
//
Query:       PHY93_06050|PHY93_06050  [L=454]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0027   18.2   0.0        0.6   10.7   0.0    3.5  4  VCBS      Repeat domain in Vibrio, Colwellia, Bradyrhizobium 


Domain annotation for each model (and alignments):
>> VCBS  Repeat domain in Vibrio, Colwellia, Bradyrhizobium and Shewanella
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.0     0.022   3.9e+02      11      50 ..      81     139 ..      76     148 .. 0.56
   2 !    7.0   0.1    0.0005       8.9       8      61 .]     192     252 ..     190     252 .. 0.59
   3 !   10.7   0.0   3.3e-05       0.6       1      51 [.     241     303 ..     241     305 .. 0.77
   4 ?    0.6   0.0     0.049   8.8e+02       2      12 ..     367     377 ..     322     417 .. 0.68

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.022
                     VCBS  11 vva.........ndgglrvyrnngdGtft.....dvtktslgg.....sgggtgvavgD 50 
                              +v+         ++++ ++y+ + +G+ +     ++ ++ + +     + +g g+ ++D
  PHY93_06050|PHY93_06050  81 IVTyltnsesphGYNPMYIYLLSENGKIEtapmeFAKTQHIRHmtsikTPWGEGLLFAD 139
                              55555555555467889999999999966222223333333334445555666788887 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.0005
                     VCBS   8 lDlvva..ndgglrvyrnngdGtftdvtktslggsgggtg.....vavgDlDgDGdlDllv 61 
                              +D++va  n+ + rv   +++  +   ++ +l+ ++++++       ++D+D+D + +++v
  PHY93_06050|PHY93_06050 192 QDILVApvNNPSSRVIYLKATDVGYIDWSDKLPLDWQAFNvcfmtSIPFDIDHDDKDEIVV 252
                              678887665555555555554444444455555555555422222589***********98 PP

  == domain 3  score: 10.7 bits;  conditional E-value: 3.3e-05
                     VCBS   1 DldgDGrlDlvva........n.dgglrvyrnngdGtftdvtktslgg....sgggtgvavgDl 51 
                              D+d D ++++vv+        n +++ r++ ++ + ++++++k +++     + +gt   + D+
  PHY93_06050|PHY93_06050 241 DIDHDDKDEIVVGgcdrnmneNpSEQDRLLTWQ-NSRWKFSAKETFPNrkqlPSWGTVFWFKDF 303
                              9************8888776643466***9999.569999999988887766666666666665 PP

  == domain 4  score: 0.6 bits;  conditional E-value: 0.049
                     VCBS   2 ldgDGrlDlvv 12 
                              ld DG  +l+ 
  PHY93_06050|PHY93_06050 367 LDKDGQKELIG 377
                              35555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (454 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       422  (0.0235373); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.59u 0.26s 00:00:00.85 Elapsed: 00:00:00.45
# Mc/sec: 3003.13
//
Query:       PHY93_03120|PHY93_03120  [L=311]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0011   18.6   0.0      0.003   17.2   0.0    1.7  1  GntR      Bacterial regulatory proteins, gntR family
     0.0032   17.3   0.1     0.0075   16.2   0.1    1.6  1  MarR      MarR family
     0.0033   17.2   0.1       0.01   15.6   0.0    1.9  2  HTH_23    Homeodomain-like domain
  ------ inclusion threshold ------
      0.016   15.2   0.2      0.045   13.7   0.2    1.8  1  HTH_11    HTH domain
      0.068   13.6   0.4       0.18   12.3   0.4    1.7  1  HTH_40    Helix-turn-helix domain
       0.27   11.4   0.2       0.27   11.4   0.2    2.4  3  UBA_2     Ubiquitin associated domain (UBA)


Domain annotation for each model (and alignments):
>> GntR  Bacterial regulatory proteins, gntR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.0     1e-06     0.003      29      53 ..     151     175 ..     134     182 .. 0.81

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 1e-06
                              HHHHHHTS-HHHHHHHHHHHHHTTS CS
                     GntR  29 eLaaefgVsrttvReALrrLeaegl 53 
                               +a++fgVs +t+ +AL +L + +l
  PHY93_03120|PHY93_03120 151 NIAKKFGVSQMTIARALETLISNNL 175
                              79******************99887 PP

>> MarR  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.1   2.5e-06    0.0075      16      51 ..     145     180 ..     140     182 .. 0.87

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 2.5e-06
                              TTEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEE CS
                     MarR  16 gplsvseLakklgvskstvtrvldrLekkGlieRsk 51 
                              ++ls + +akk+gvs++t+ r+l +L+ ++l++ +k
  PHY93_03120|PHY93_03120 145 EGLSKINIAKKFGVSQMTIARALETLISNNLCSEEK 180
                              5667778************************98666 PP

>> HTH_23  Homeodomain-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   3.4e-06      0.01      16      40 ..     142     169 ..     135     186 .. 0.80
   2 ?   -3.1   0.1       2.6   7.8e+03      36      41 ..     305     310 ..     303     311 .] 0.81

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 3.4e-06
                   HTH_23  16 e...GlsvreIAreLgvsrrTvyrwlkr 40 
                              +   Gls+  IA+++gvs++T+ r l++
  PHY93_03120|PHY93_03120 142 KsieGLSKINIAKKFGVSQMTIARALET 169
                              2444********************9876 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 2.6
                   HTH_23  36 rwlkry 41 
                               wl+ry
  PHY93_03120|PHY93_03120 305 DWLNRY 310
                              7****9 PP

>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.2   1.5e-05     0.045       5      41 ..     135     172 ..     132     183 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1.5e-05
                   HTH_11   5 ilelLleargp.isgeeLAeeLnvSrrtvrrdIkaLee 41 
                              ++e+Lle+    +s   +A++++vS +t+ r +++L +
  PHY93_03120|PHY93_03120 135 LIEQLLEKSIEgLSKINIAKKFGVSQMTIARALETLIS 172
                              67777777777799999******************965 PP

>> HTH_40  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.4   6.1e-05      0.18      11      63 ..     145     201 ..     137     217 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 6.1e-05
                   HTH_40  11 eglsieeIAkerglkesTIegHLaeliee....geeidlerlvseeeekeIeeaiek 63 
                              egls   IAk+ g+++ TI++ L  li +    +e+  +e+++  + eke+ ++i++
  PHY93_03120|PHY93_03120 145 EGLSKINIAKKFGVSQMTIARALETLISNnlcsEEKNGIEKVIRFSSEKELWNYIKE 201
                              899999***********************4444355667777766666666666665 PP

>> UBA_2  Ubiquitin associated domain (UBA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.1       2.3     7e+03      19      30 ..     194     205 ..     191     211 .. 0.67
   2 ?   -3.4   0.0       3.8   1.2e+04      15      21 ..     212     218 ..     212     219 .. 0.89
   3 ?   11.4   0.2   8.9e-05      0.27      17      46 .]     260     294 ..     258     294 .. 0.80

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 2.3
                    UBA_2  19 eIieaLekaeks 30 
                              e ++ ++++ +s
  PHY93_03120|PHY93_03120 194 ELWNYIKENIES 205
                              777777777666 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 3.8
                    UBA_2  15 YdkdeIi 21 
                              Y kd+Ii
  PHY93_03120|PHY93_03120 212 YTKDHII 218
                              99***97 PP

  == domain 3  score: 11.4 bits;  conditional E-value: 8.9e-05
                    UBA_2  17 kdeIieaLekaeks.....kssneIkDAYlLmkEN 46 
                              kde   +Le  +++     +++  + DAYl++k N
  PHY93_03120|PHY93_03120 260 KDEAHLSLEIWNREpifkkEQTINVIDAYLILKNN 294
                              666666777777777787789999*********99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (311 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       758  (0.0422779); expected 358.6 (0.02)
Passed bias filter:                      501  (0.0279436); expected 358.6 (0.02)
Passed Vit filter:                        70  (0.00390429); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.59u 0.27s 00:00:00.86 Elapsed: 00:00:00.47
# Mc/sec: 1974.73
//
Query:       PHY93_03125|PHY93_03125  [L=246]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0083   16.1   0.0      0.015   15.3   0.0    1.4  1  AbiEii    Nucleotidyl transferase AbiEii toxin, Type IV TA sy


Domain annotation for each model (and alignments):
>> AbiEii  Nucleotidyl transferase AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   8.2e-07     0.015      10      69 ..      14      77 ..       8     109 .. 0.83

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 8.2e-07
                   AbiEii 10 aladklvFkGGTaLslayg....lipRfSeDIDlsllrgdrkellealkealeeiaaalaeegl 69
                             +++d++v+ GG a  l +     +  R+++D+D++l+ ++++++l++lk+ + e   ++ ++++
  PHY93_03125|PHY93_03125 14 KFSDYFVLVGGVATYLQLEdagaPRVRATKDLDIVLMLKPSNDFLDELKKYILEGGYEIQKNDK 77
                             7899*********6666665677999**********88************99887777766665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (246 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       524  (0.0292264); expected 358.6 (0.02)
Passed bias filter:                      417  (0.0232584); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.46
# Mc/sec: 1620.52
//
Query:       PHY93_03130|PHY93_03130  [L=93]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (93 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       675  (0.0376485); expected 358.6 (0.02)
Passed bias filter:                      526  (0.0293379); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.26s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 632.61
//
Query:       PHY93_03135|PHY93_03135  [L=133]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0043   17.4   0.2     0.0074   16.6   0.2    1.4  1  SSL_OB    Staphylococcal superantigen-like OB-fold domain


Domain annotation for each model (and alignments):
>> SSL_OB  Staphylococcal superantigen-like OB-fold domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.2   4.1e-07    0.0074      10      55 ..      23      68 ..      21      84 .. 0.90

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 4.1e-07
                             -EEEEEEEEEEEECCTTSEEEEEECTTCEEEEEE-STHHHHSSSEE CS
                   SSL_OB 10 pslElknvsglkekkkgkkvlnvkknnkkikvaLlGkdkekykege 55
                             ++ E+k + g + kk+++ +l+v ++++ +++ ++G+d+++  +++
  PHY93_03135|PHY93_03135 23 ETAEFKALHGGIVKKTNNAFLEVVNDQERTSIYITGHDHKNITDKK 68
                             678************************************9988776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (133 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       520  (0.0290033); expected 358.6 (0.02)
Passed bias filter:                      368  (0.0205254); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.43
# Mc/sec: 936.22
//
Query:       PHY93_03140|PHY93_03140  [L=160]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.033   13.0   9.9      0.039   12.7   9.9    1.0  1  BshC      Bacillithiol biosynthesis BshC
      0.052   13.2   3.5      0.061   13.0   3.5    1.2  1  Stk19     Serine-threonine protein kinase 19
      0.066   13.2   0.0      0.077   12.9   0.0    1.1  1  GRA6      Granule antigen protein (GRA6)


Domain annotation for each model (and alignments):
>> BshC  Bacillithiol biosynthesis BshC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   9.9   6.5e-06     0.039     384     507 ..      28     149 ..      21     159 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 6.5e-06
                              EEE-HHHHHHHHHTT--HHHHHH.-SHHHHHHHHHHTS-HHHHHHHHHHHHHHHHHHHHHHHHHHTT-GGGHHHHHHHHHHHHHHH CS
                     BshC 384 tlveekvakkleklglsvedlfe.kleelkkklveeaseleldelfeeakeeleeafealkelaakidktleklveanekkilkql 468
                               + e+kv+k+++++ ++ ++    +++e++ k  + +++++ +  + e +e+ +++ +alke+++k+   l + v + +   ++++
  PHY93_03140|PHY93_03140  28 QVAEQKVEKEIKEVTINPSESTAvTAREFIMKSDKLTDSQKKK--LLELQEKTHALSDALKEEIEKTKIVLIQTVLEPK-MNEREF 110
                              6899*************99999966666666655555555555..88999999*******************9998765.567899 PP

                              HHHHHHHHHHHHHHTHHHHHHHHHHHHHHSGGGS-HHHH CS
                     BshC 469 ekLekkllkaekrkheeelrqlekikneLfPngslQERv 507
                                L+kk+ k ek+++e+  + + ++++ + P +++Q R 
  PHY93_03140|PHY93_03140 111 AILKKKISKLEKKRMENGFNAIADARKIIEPRKNIQGRE 149
                              ************************************997 PP

>> Stk19  Serine-threonine protein kinase 19
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   3.5     1e-05     0.061      26     120 ..       2      94 ..       1     131 [. 0.74

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 1e-05
                    Stk19  26 rrslPplvtvahlhsllaqsptkvereleelirkgklrklvingrgkdisklgevlvltedyeklikesseleeeekvlekFlell 111
                              +r+l  lv+v  + sl+a+ +   + +++e++ +++++ ++in +++++  ++e++++++++ +  k++    +e++  +++ + l
  PHY93_03140|PHY93_03140   2 KRNLTLLVMVFFITSLVASLSSCAQHQVAEQKVEKEIKEVTINPSESTAVTAREFIMKSDKLTDSQKKKLLELQEKT--HALSDAL 85 
                              5678899999999****98999999***********************99************999855544444444..5666666 PP

                    Stk19 112 kenptalsi 120
                              ke+ ++++i
  PHY93_03140|PHY93_03140  86 KEEIEKTKI 94 
                              666666555 PP

>> GRA6  Granule antigen protein (GRA6)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   1.3e-05     0.077      24      96 ..       8      81 ..       4     132 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 1.3e-05
                     GRA6 24 vtlvvfvGvlvsslGgaavaaes.egvkaapsetgssggqqeavGtteeyvnssalgGgqgdslaeaddetsdv 96
                             +++v f+  lv+sl + a  + + + v+++ +e +    +  av + e  + s +l+ +q + l e +++t   
  PHY93_03140|PHY93_03140  8 LVMVFFITSLVASLSSCAQHQVAeQKVEKEIKEVTINPSESTAVTAREFIMKSDKLTDSQKKKLLELQEKTHAL 81
                             57899999999999887766544157******************99999999************9998887543 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (160 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2546  (0.142005); expected 358.6 (0.02)
Passed bias filter:                      803  (0.0447878); expected 358.6 (0.02)
Passed Vit filter:                        69  (0.00384851); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.57u 0.28s 00:00:00.85 Elapsed: 00:00:00.46
# Mc/sec: 1045.79
//
Query:       PHY93_03145|PHY93_03145  [L=179]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.5e-09   37.3   0.0    2.6e-09   36.5   0.0    1.4  1  GerE          Bacterial regulatory proteins, luxR family
      3e-05   23.6   0.8    0.00094   18.8   0.0    2.2  2  Sigma70_r4_2  Sigma-70, region 4
     0.0063   16.0   0.6     0.0099   15.4   0.0    1.7  2  Sigma70_r4    Sigma-70, region 4
  ------ inclusion threshold ------
      0.013   15.4   0.1      0.017   15.1   0.1    1.3  1  Sigma70_ECF   ECF sigma factor
      0.071   12.9   0.0       0.17   11.7   0.0    1.6  1  DUF1391       Protein of unknown function (DUF1391)


Domain annotation for each model (and alignments):
>> GerE  Bacterial regulatory proteins, luxR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.5   0.0   7.4e-13   2.6e-09       2      54 ..     116     168 ..     115     171 .. 0.95

  Alignments for each domain:
  == domain 1  score: 36.5 bits;  conditional E-value: 7.4e-13
                              SS-HHHHHHHHHHCTTS-HHHHHHHHTS-HHHHHHHHHHHHHHHT-SSHHHHH CS
                     GerE   2 sLskRErevLrllaeGksnkeIAeelniSekTVkvhksnimkKLnvksrvelv 54 
                              +L+  Er+v  ll +G+s keIA + + SekTV+ + +++++K n++ r++l 
  PHY93_03145|PHY93_03145 116 NLTHSERDVALLLLKGLSHKEIANIRDTSEKTVRQQAGQVYMKANLEGRAQLS 168
                              59999*********************************************996 PP

>> Sigma70_r4_2  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   0.2     0.022        78      10      36 ..      75     100 ..      73     106 .. 0.85
   2 !   18.8   0.0   2.6e-07   0.00094      20      46 ..     127     151 ..     120     157 .. 0.86

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.022
                              TS-HHHHHHHHHHHTS---HHHHHHHH CS
             Sigma70_r4_2  10 eLperqreifllryleglsykEIAell 36 
                              eL   q+e +ll +l++ +y+E +++l
  PHY93_03145|PHY93_03145  75 ELQATQKESLLL-RLDNQKYREESRRL 100
                              68899*******.7*******977776 PP

  == domain 2  score: 18.8 bits;  conditional E-value: 2.6e-07
                              HHHHTS---HHHHHHHHT--HHHHHHH CS
             Sigma70_r4_2  20 llryleglsykEIAellgisegtVksr 46 
                              l   l+gls+kEIA + ++se+tV+++
  PHY93_03145|PHY93_03145 127 L--LLKGLSHKEIANIRDTSEKTVRQQ 151
                              3..389*******************97 PP

>> Sigma70_r4  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.1       1.1     4e+03       4      17 ..      75      88 ..      74      96 .. 0.71
   2 !   15.4   0.0   2.7e-06    0.0099      17      40 ..     128     151 ..     116     158 .. 0.82

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 1.1
                             HS-HHHHHHHHHHH CS
               Sigma70_r4  4 sLpererevlelrf 17
                             +L + ++e l lr 
  PHY93_03145|PHY93_03145 75 ELQATQKESLLLRL 88
                             57778888888886 PP

  == domain 2  score: 15.4 bits;  conditional E-value: 2.7e-06
                              HTTT--HHHHHHHHTS-HHHHHHH CS
               Sigma70_r4  17 fgeglTleEIgerlgiSrerVrqi 40 
                               ++gl+++EI+++ + S+ +Vrq 
  PHY93_03145|PHY93_03145 128 LLKGLSHKEIANIRDTSEKTVRQQ 151
                              4789*******************7 PP

>> Sigma70_ECF  ECF sigma factor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.1   0.1   4.6e-06     0.017     134     171 ..     113     151 ..      71     162 .. 0.79

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 4.6e-06
              Sigma70_ECF 134 ls.ldpeqarlvelrkleGlsveEiAeklgvskrtverr 171
                              +     ++ r+v+l  l+Gls +EiA+  + s++tv+++
  PHY93_03145|PHY93_03145 113 ATwNLTHSERDVALLLLKGLSHKEIANIRDTSEKTVRQQ 151
                              444456789***************************875 PP

>> DUF1391  Protein of unknown function (DUF1391)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   4.8e-05      0.17       5      33 ..       8      37 ..       4      40 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 4.8e-05
                  DUF1391  5 LGnnesLvCGvfPnqDGtftam.tytkskt 33
                              G ne L+ G f    Gt ta   y  skt
  PHY93_03145|PHY93_03145  8 TGFNEQLIVGLFTAIVGTLTAWdIYGDSKT 37
                             699******************746999998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (179 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       874  (0.0487478); expected 358.6 (0.02)
Passed bias filter:                      588  (0.032796); expected 358.6 (0.02)
Passed Vit filter:                        67  (0.00373696); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.43
# Mc/sec: 1241.82
//
Query:       PHY93_03150|PHY93_03150  [L=200]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.5e-40  136.9   0.1    7.1e-40  136.6   0.1    1.1  1  DHC              Dihaem cytochrome c
     0.0017   19.5   0.2        1.6    9.9   0.0    2.5  2  Cytochrom_C      Cytochrome c
     0.0038   17.2   0.3        1.8    8.7   0.0    2.3  2  Cytochrome_C7    Cytochrome c7 and related cytochrome c
     0.0043   17.3   0.1        3.1    8.2   0.0    2.4  2  Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
  ------ inclusion threshold ------
      0.011   15.5   0.4        2.7    7.8   0.0    2.4  2  Paired_CXXCH_1   Doubled CXXCH motif (Paired_CXXCH_1)
      0.039   13.8   0.0      0.039   13.8   0.0    2.5  2  zf-C2H2_3        zinc-finger of acetyl-transferase ESCO
      0.068   12.9   0.1        7.4    6.2   0.0    2.2  2  Cytochrom_NNT    NapC/NirT cytochrome c family, N-terminal re
       0.18   12.1   2.3        4.7    7.6   0.0    2.3  2  Cytochrome_P460  Cytochrome P460


Domain annotation for each model (and alignments):
>> DHC  Dihaem cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  136.6   0.1   3.2e-43   7.1e-40       1     118 []      66     186 ..      66     186 .. 0.98

  Alignments for each domain:
  == domain 1  score: 136.6 bits;  conditional E-value: 3.2e-43
                              HHHHTTSSS----GGGS-HHHHHHHHCGGGGBTTB-----HHHHHHHHHHHHHTSTTTTS-...-GGGTT-.TT---S-GGGSHHH CS
                      DHC   1 ykkeCgsCHlayppelLpaasWkklladledHfGedasldeatkkeiseyLeanaaekseak..kkilksl.keeiplritesryf 83 
                              +k eC+sCH+ y+p+lLpa+sW+k+++ l++HfGe+a+ld+at+kei+++L++n++++ +++  +kil+ + ++e  lri+e++yf
  PHY93_03150|PHY93_03150  66 WKAECSSCHMLYHPGLLPARSWTKMMSTLNKHFGENAELDPATQKEITDFLVQNSSDRVHTRrgDKILSGIgRNEEILRISETSYF 151
                              789******************************************************99888899******999999********* PP

                              HHHHCC--HHHHH..HHSSTT-GGGT-TTGGGT-- CS
                      DHC  84 kkkHkeveekvlkrkkvkslsnCaaCHkkaekgvf 118
                              k+kH+e++++v+krk ++s +nC aCH++aekg+f
  PHY93_03150|PHY93_03150 152 KSKHDEISPSVYKRKAIGSPANCLACHSGAEKGDF 186
                              *********************************98 PP

>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.4   0.0    0.0045        10       9      56 ..      67     112 ..      60     141 .. 0.81
   2 !    9.9   0.0    0.0007       1.6      10      24 ..     172     186 ..     163     199 .. 0.84

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.0045
                              HTTGGGTB-SSSBSSS....--HHHHHHHTTT-HHHHHHHHTTSS--S CS
              Cytochrom_C   9 tanCaaCHgvegggakqgggptlsgaaerasaasigasvanpaavsap 56 
                              +a+C +CH +   g  ++  +  ++++++ ++ + ++   +pa +++ 
  PHY93_03150|PHY93_03150  67 KAECSSCHMLYHPGLLPA--RSWTKMMSTLNKHFGENAELDPATQKEI 112
                              689******999999887..9999999998888888888887655544 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 0.0007
                              TTGGGTB-SSSBSSS CS
              Cytochrom_C  10 anCaaCHgvegggak 24 
                              anC aCH+ +++g+ 
  PHY93_03150|PHY93_03150 172 ANCLACHSGAEKGDF 186
                              79******9999986 PP

>> Cytochrome_C7  Cytochrome c7 and related cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.7   0.1    0.0033       7.3      61      72 ..      63      74 ..      32     102 .. 0.71
   2 !    8.7   0.0   0.00078       1.8      33      59 ..     156     183 ..     141     198 .. 0.65

  Alignments for each domain:
  == domain 1  score: 6.7 bits;  conditional E-value: 0.0033
            Cytochrome_C7 61 svakkaeCakCH 72
                             +v+ kaeC++CH
  PHY93_03150|PHY93_03150 63 NVKWKAECSSCH 74
                             344455555555 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 0.00078
            Cytochrome_C7  33 aemekgkskkaeves.ltCgaCHdgkna 59 
                               e++ + +k + + s  +C aCH g ++
  PHY93_03150|PHY93_03150 156 DEISPSVYKRKAIGSpANCLACHSGAEK 183
                              4445555555556666667777777665 PP

>> Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.2   0.0    0.0014       3.1       9      24 ..      65      80 ..      59     124 .. 0.67
   2 !    7.0   0.0    0.0033       7.4      12      26 ..     172     185 ..     163     198 .. 0.74

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.0014
          Cytochrome_CBB3  9 lykknCasCHgkggag 24
                              +k+ C+sCH     g
  PHY93_03150|PHY93_03150 65 KWKAECSSCHMLYHPG 80
                             6899******833333 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.0033
          Cytochrome_CBB3  12 knCasCHgkggagps 26 
                              +nC +CH  g+   +
  PHY93_03150|PHY93_03150 172 ANCLACHS-GAEKGD 185
                              69*****8.554444 PP

>> Paired_CXXCH_1  Doubled CXXCH motif (Paired_CXXCH_1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   0.0    0.0012       2.7       7      14 ..      68      76 ..      62     111 .. 0.72
   2 ?    5.6   0.1     0.006        14      31      38 ..     172     179 ..     161     185 .. 0.71

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0012
           Paired_CXXCH_1  7 geClsCH.n 14
                              eC+sCH  
  PHY93_03150|PHY93_03150 68 AECSSCHmL 76
                             37*****52 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.006
           Paired_CXXCH_1  31 alCysCHd 38 
                              a C+ CH+
  PHY93_03150|PHY93_03150 172 ANCLACHS 179
                              44555554 PP

>> zf-C2H2_3  zinc-finger of acetyl-transferase ESCO
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   2.9       1.1   2.4e+03      27      36 ..      30      39 ..      28      39 .. 0.82
   2 ?   13.8   0.0   1.7e-05     0.039      14      26 ..      68      80 ..      55      83 .. 0.78

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 1.1
                zf-C2H2_3 27 speDeklHkk 36
                             + +Dek H++
  PHY93_03150|PHY93_03150 30 DDDDEKHHER 39
                             6799**9986 PP

  == domain 2  score: 13.8 bits;  conditional E-value: 1.7e-05
                zf-C2H2_3 14 sqCkeCgMvYnpg 26
                              +C+ C+M+Y+pg
  PHY93_03150|PHY93_03150 68 AECSSCHMLYHPG 80
                             34*********98 PP

>> Cytochrom_NNT  NapC/NirT cytochrome c family, N-terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.0    0.0099        22      64      73 ..      66      75 ..      48     112 .. 0.77
   2 ?    6.2   0.0    0.0033       7.4      99     140 ..     145     187 ..     137     198 .. 0.72

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.0099
            Cytochrom_NNT 64 vraeCsdCHv 73
                              +aeCs+CH+
  PHY93_03150|PHY93_03150 66 WKAECSSCHM 75
                             5799999997 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.0033
            Cytochrom_NNT  99 idtkekfeakrlelaerewarmkandsreCrnCHsee.amdle 140
                              i+++  f++k  e+  ++++r      ++C +CHs + + d++
  PHY93_03150|PHY93_03150 145 ISETSYFKSKHDEISPSVYKRKAIGSPANCLACHSGAeKGDFS 187
                              5666777778888888888888888888888888765345554 PP

>> Cytochrome_P460  Cytochrome P460
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.9   0.5     0.029        66      94     115 ..      54      75 ..      33      78 .. 0.68
   2 ?    7.6   0.0    0.0021       4.7     101     122 ..     165     186 ..     149     187 .. 0.77

  Alignments for each domain:
  == domain 1  score: 3.9 bits;  conditional E-value: 0.029
          Cytochrome_P460  94 saekkkkekaakpdaeCfaCHe 115
                              + ++ ++ +++k +aeC +CH 
  PHY93_03150|PHY93_03150  54 NRSDFPAVTNVKWKAECSSCHM 75 
                              44444446778889*******6 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0021
          Cytochrome_P460 101 ekaakpdaeCfaCHeaakarDy 122
                              +ka  + a+C aCH+ a++ D+
  PHY93_03150|PHY93_03150 165 RKAIGSPANCLACHSGAEKGDF 186
                              67778899*******9999886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (200 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       751  (0.0418874); expected 358.6 (0.02)
Passed bias filter:                      590  (0.0329076); expected 358.6 (0.02)
Passed Vit filter:                        64  (0.00356964); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.44
# Mc/sec: 1362.30
//
Query:       PHY93_03155|PHY93_03155  [L=154]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.1e-36  125.1   1.1    1.9e-36  124.3   1.1    1.3  1  DUF1924        Domain of unknown function (DUF1924)
     0.0063   17.2   0.0      0.011   16.4   0.0    1.4  1  CCP_MauG       Di-haem cytochrome c peroxidase
  ------ inclusion threshold ------
       0.68   11.1   3.0       0.72   11.0   1.0    2.2  2  Cytochrom_C    Cytochrome c


Domain annotation for each model (and alignments):
>> DUF1924  Domain of unknown function (DUF1924)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  124.3   1.1   3.1e-40   1.9e-36       3      96 .]      60     152 ..      58     152 .. 0.98

  Alignments for each domain:
  == domain 1  score: 124.3 bits;  conditional E-value: 3.1e-40
                              TS---HHHHHHHHH---SSS-TT-SSTHHHH-SSTTS-EE.-TTS-EE--SSTTTSTTTT--HHHHHHHHHHHHHHHHSS---HHH CS
                  DUF1924   3 faefsaerGealfkkkvktkkgkelsCasCHgedptkegkhaktgkaieplapsvnpkrftdaakvekwfkrnckdvlgrectaqe 88 
                              f +f++++Ge++f++++ +++g+++sC +CH+ dp+k+g  ++++k+iep+ap+vn++rftd+ kv+kwfkrnc+dvl+r+ctaqe
  PHY93_03155|PHY93_03155  60 FVQFNITAGEKFFRSERINSSGEKVSCMTCHSPDPKKTGM-TRANKVIEPMAPAVNAERFTDMVKVQKWFKRNCNDVLDRACTAQE 144
                              7899************************************.9******************************************** PP

                              HHHHHHHH CS
                  DUF1924  89 kadvlayl 96 
                              k+++++y+
  PHY93_03155|PHY93_03155 145 KGNFVKYM 152
                              *******7 PP

>> CCP_MauG  Di-haem cytochrome c peroxidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.0   1.8e-06     0.011       7      36 ..      68      98 ..      64     146 .. 0.71

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 1.8e-06
                             HHHHHC-GGG.STTSS--HHHHSGCCCTTS- CS
                 CCP_MauG  7 GkkLFfdkrL.SgngkisCasCHdpaagftd 36
                             G+k+F  +r+ S+ +k+sC +CH+p+ + t 
  PHY93_03155|PHY93_03155 68 GEKFFRSERInSSGEKVSCMTCHSPDPKKTG 98
                             8999988777478889*******87544433 PP

>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.0      0.53   3.2e+03      71      76 ..      13      18 ..       1      60 [. 0.61
   2 ?   11.0   1.0   0.00012      0.72       4      27 ..      68     101 ..      65     154 .] 0.70

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 0.53
                             GG.TT- CS
              Cytochrom_C 71 arkerl 76
                             ++++++
  PHY93_03155|PHY93_03155 13 MKNKKM 18
                             111222 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.00012
                              HHHHH.HT.........TGGGTB-SSSBSSS... CS
              Cytochrom_C   4 Gkelf.ta.........nCaaCHgvegggakqgg 27 
                              G++ f  +          C++CH+++ ++++ + 
  PHY93_03155|PHY93_03155  68 GEKFFrSErinssgekvSCMTCHSPDPKKTGMTR 101
                              555553335555566668*********9998654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (154 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1133  (0.0631937); expected 358.6 (0.02)
Passed bias filter:                      575  (0.0320709); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.53u 0.22s 00:00:00.75 Elapsed: 00:00:00.43
# Mc/sec: 1080.21
//
Query:       PHY93_03160|PHY93_03160  [L=216]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-21   77.2  14.8    1.3e-21   77.0  14.8    1.0  1  Ni_hydr_CYTB     Prokaryotic cytochrome b561
     0.0027   18.2   3.6     0.0027   18.2   3.6    3.1  2  DUF4405          Domain of unknown function (DUF4405)
  ------ inclusion threshold ------
      0.011   15.9   4.5      0.088   12.9   0.3    2.5  3  Cytochrom_B561   Eukaryotic cytochrome b561
       0.16   11.5   7.3      0.063   12.8   5.2    1.4  2  LPG_synthase_TM  Lysylphosphatidylglycerol synthase TM region
       0.24   11.6   5.0      0.089   12.9   0.6    2.5  3  DUF4079          Protein of unknown function (DUF4079)


Domain annotation for each model (and alignments):
>> Ni_hydr_CYTB  Prokaryotic cytochrome b561
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.0  14.8   3.6e-25   1.3e-21       2     182 .]       9     193 ..       8     193 .. 0.92

  Alignments for each domain:
  == domain 1  score: 77.0 bits;  conditional E-value: 3.6e-25
                              ----TTHHHHHHHHHHHHHHHHHHHHHS------S-GGG-HHHHHHHHHHHHHHHHHHHHHHH..------------STTTSSSSS CS
             Ni_hydr_CYTB   2 yslvarllHWlnallvvllllsgllianlhprlywgdsgkaralHklaGlvllalllfrllwl..kkakkpspriifrqikrdltl 85 
                              y+ ++rl H  +a+++++l+ls ++  + +++  +++s+  + +H + G++l + l++r++w+    +++++++ +++q  +  ++
  PHY93_03160|PHY93_03160   9 YDPLLRLSHFGIAFFCLILILSAYIAEFYYEEGLLRKSF--WVVHVYSGFALTFFLILRIFWGliGPKYARWHEMWKWQEWKGAFK 92 
                              8999***********************************..***********************8777788888888888888888 PP

                              ----------------TTTHHHHHHHHHHHHHHHHHHHTHHHHHHHH.......HTS-THHHHHHH.HHHHHHHHHHHHHHHHHHH CS
             Ni_hydr_CYTB  86 llrgrkpeagknnplqklvhlllyvllvvliltGlllsfaatagfpll....lddkggaqlarelHellaaallafvvlHiaaall 167
                               +r +     +++p++ l +ll+y+ l +l +tG++ls a+++ ++ l     d+  +++ + elHe l++++++f++ H++a+++
  PHY93_03160|PHY93_03160  93 ARRIHFKWNWGHHPMASLSYLLFYFILSFLSVTGIILS-AIEHNLGPLassfYDQLTYRKDLSELHESLSYFVILFIFSHLFALFW 177
                              888888888889999999*******************8.556666666677799******************************** PP

                              HHH---X.XXXXXXXX CS
             Ni_hydr_CYTB 168 hgpvkkd.tlrrMitg 182
                              h+  ++  ++++M++g
  PHY93_03160|PHY93_03160 178 HENKDQIpIVQSMFSG 193
                              *****99******997 PP

>> DUF4405  Domain of unknown function (DUF4405)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   9.3       2.9     1e+04       8      60 ..      22      64 ..      15      99 .. 0.77
   2 !   18.2   3.6   7.7e-07    0.0027       4      66 .]     113     177 ..     110     177 .. 0.77

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 2.9
                  DUF4405  8 lsflvlaiSGillsfavlpsgrgaywaflgl.skhqwrdiHeilgllflilvvl 60
                             +  l+l++S  +  f + +          gl  k++w  +H ++g+++ ++++l
  PHY93_03160|PHY93_03160 22 FFCLILILSAYIAEFYYEE----------GLlRKSFW-VVHVYSGFALTFFLIL 64
                             5556666666666665433..........44466777.5899999999988875 PP

  == domain 2  score: 18.2 bits;  conditional E-value: 7.7e-07
                  DUF4405   4 lllllsflvlaiSGillsfavlpsgrgaywaflgl..skhqwrdiHeilgllflilvvlHlgl.hw 66 
                              ll  +   +l ++Gi+ls++ ++ g + +  f +    + ++ ++He l++  ++++  Hl+   w
  PHY93_03160|PHY93_03160 113 LLFYFILSFLSVTGIILSAIEHNLG-PLASSFYDQltYRKDLSELHESLSYFVILFIFSHLFAlFW 177
                              566677889*********8844433.33333555567899*********************87566 PP

>> Cytochrom_B561  Eukaryotic cytochrome b561
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.3   2.4e-05     0.088      35      92 ..      14      71 ..       6      84 .. 0.93
   2 ?   -1.5   0.0      0.72   2.6e+03      33      61 ..     107     135 ..      95     147 .. 0.64
   3 ?    4.1   0.1     0.014        49      31      73 ..     150     192 ..     140     194 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 2.4e-05
                             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHT--SS-SHHHHHHHHHHHHHHHHHHHHHH CS
           Cytochrom_B561 35 kllHlilqllalilavvgllavfksknekeianlyslHswlGlvtvilfllqlvlGfv 92
                             +l H+ + +++lil++ + +a f++++    + +  +H + G++  ++++l ++ G++
  PHY93_03160|PHY93_03160 14 RLSHFGIAFFCLILILSAYIAEFYYEEGLLRKSFWVVHVYSGFALTFFLILRIFWGLI 71
                             578***************************************************9996 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.72
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
           Cytochrom_B561  33 tkkllHlilqllalilavvgllavfkskn 61 
                              + +l  l++ ++  +l+v+g+++    +n
  PHY93_03160|PHY93_03160 107 MASLSYLLFYFILSFLSVTGIILSAIEHN 135
                              45555555555666666666666666665 PP

  == domain 3  score: 4.1 bits;  conditional E-value: 0.014
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT--SS-SHHH CS
           Cytochrom_B561  31 kktkkllHlilqllalilavvgllavfksknekeianlyslHs 73 
                              +k  + lH  l  ++++++   l+a f ++n+ +i+ ++s+ s
  PHY93_03160|PHY93_03160 150 RKDLSELHESLSYFVILFIFSHLFALFWHENKDQIPIVQSMFS 192
                              55566799*****************************999876 PP

>> LPG_synthase_TM  Lysylphosphatidylglycerol synthase TM region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   5.2   1.8e-05     0.063     119     238 ..      18     138 ..      10     148 .. 0.65
   2 ?   -3.5   0.0       1.6   5.8e+03     124     128 ..     166     170 ..     154     181 .. 0.44

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 1.8e-05
          LPG_synthase_TM 119 ldllalvllgllallllggllaegaa....vllllalallllavlalllllllrrrlarlarvlkrlarllarfarklasakrklv 200
                              ++++++ l+++l++++   + +eg      +++ +  +++l ++l+l  ++ l +++ ++++ +++++ ++ +f++++ ++k  + 
  PHY93_03160|PHY93_03160  18 FGIAFFCLILILSAYIAEFYYEEGLLrksfWVVHVYSGFALTFFLILRIFWGLIGPKYARWHEMWKWQEWKGAFKARRIHFK--WN 101
                              4455555555555555555544444499887777777777777777777777777777777778888888888887666654..55 PP

          LPG_synthase_TM 201 lasprrlllafllslliwllealtlylllralgvdvsl 238
                              +++  + +l+ ll  +i l++++++ ++l a+  ++ +
  PHY93_03160|PHY93_03160 102 WGHHPMASLSYLLFYFI-LSFLSVTGIILSAIEHNLGP 138
                              55555555555555555.57788888888888777654 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 1.6
          LPG_synthase_TM 124 lvllg 128
                              l+++ 
  PHY93_03160|PHY93_03160 166 LFIFS 170
                              11111 PP

>> DUF4079  Protein of unknown function (DUF4079)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.6   2.5e-05     0.089      37      99 ..       4      66 ..       1     103 [. 0.89
   2 ?   -0.7   0.7       0.4   1.4e+03      64      64 ..     122     122 ..      81     185 .. 0.58
   3 ?   -1.8   0.0      0.91   3.3e+03      16      39 ..     186     208 ..     183     213 .. 0.71

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 2.5e-05
                  DUF4079 37 erkekipkkvrdeHvklgslllllvvlgaigglvllylrrgklfpssHlyaGlavvvLlalsa 99
                             erk+   + +r  H+ ++ + l+l++ ++i+ +        k f++ H+y+G a++ +l+l +
  PHY93_03160|PHY93_03160  4 ERKKIYDPLLRLSHFGIAFFCLILILSAYIAEFYYEEGLLRKSFWVVHVYSGFALTFFLILRI 66
                             566777788899999999999999999999999999999999**************9999865 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.4
                  DUF4079  64 g 64 
                              +
  PHY93_03160|PHY93_03160 122 L 122
                              1 PP

  == domain 3  score: -1.8 bits;  conditional E-value: 0.91
                  DUF4079  16 llgavaylGwqtrqrrlqskaerk 39 
                              ++   ++ G+q r+    +++++k
  PHY93_03160|PHY93_03160 186 IVQS-MFSGFQYRKNNEVKNEDEK 208
                              5555.7899999999777775554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (216 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       720  (0.0401584); expected 358.6 (0.02)
Passed bias filter:                      276  (0.0153941); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.56u 0.22s 00:00:00.78 Elapsed: 00:00:00.44
# Mc/sec: 1464.46
//
Query:       PHY93_03165|PHY93_03165  [L=115]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    2.2e-11   44.2   0.0      3e-11   43.8   0.0    1.1  1  Rhodanese  Rhodanese-like domain


Domain annotation for each model (and alignments):
>> Rhodanese  Rhodanese-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.8   0.0   1.7e-15     3e-11       7      94 ..      35     106 ..      29     109 .. 0.90

  Alignments for each domain:
  == domain 1  score: 43.8 bits;  conditional E-value: 1.7e-15
                Rhodanese   7 ellekgkvallDvRppeeYekghIpgAvnvskdtlsrakkseapllelpeellelgidnkktvvvycdgggraaaaaallkklGyk 92 
                              ell++g+  l+DvR++ eY +gh p ++n+             pl+el++e l+l  d+ kt+++ c++g r+  a  +lkk G+k
  PHY93_03165|PHY93_03165  35 ELLKTGA-LLIDVRSKGEYTQGHNPQSINI-------------PLDELNKESLKL--DKTKTIILCCASGTRSGMAVGILKKNGFK 104
                              5666665.5*********************.............************..***************999999******99 PP

                Rhodanese  93 nv 94 
                              n+
  PHY93_03165|PHY93_03165 105 NI 106
                              86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (115 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       487  (0.0271627); expected 358.6 (0.02)
Passed bias filter:                      412  (0.0229795); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.42
# Mc/sec: 814.99
//
Query:       PHY93_06055|PHY93_06055  [L=131]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.092   12.6   0.0         13    5.7   0.0    2.2  2  Tap-RNA_bind  Tap, RNA-binding


Domain annotation for each model (and alignments):
>> Tap-RNA_bind  Tap, RNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   0.0   0.00072        13      30      50 ..      48      68 ..      40      74 .. 0.81
   2 ?    4.7   0.0    0.0015        28       6      27 ..     104     126 ..     100     130 .. 0.80

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.00072
             Tap-RNA_bind 30 vpFtpvefhyeknkavFfVed 50
                              +  p+e++++++++ FfV +
  PHY93_06055|PHY93_06055 48 KKSRPLEYEVKSKNMNFFVFE 68
                             56689**************65 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.0015
             Tap-RNA_bind   6 kvtIpkGk.kydkewllksiqsl 27 
                              +v+Ip+ + + +ke++ +s+qsl
  PHY93_06055|PHY93_06055 104 RVFIPFHEyEKNKEFIRNSLQSL 126
                              7889965426789********97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (131 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       445  (0.0248201); expected 358.6 (0.02)
Passed bias filter:                      376  (0.0209716); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.26s 00:00:00.71 Elapsed: 00:00:00.43
# Mc/sec: 908.09
//
Query:       PHY93_03170|PHY93_03170  [L=173]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      1e-12   48.0   0.0    1.4e-12   47.6   0.0    1.3  1  AhpC-TSA       AhpC/TSA family
    1.1e-11   44.7   0.0    1.5e-11   44.2   0.0    1.1  1  Redoxin        Redoxin
    9.4e-08   32.3   0.0    1.6e-07   31.5   0.0    1.4  1  Thioredoxin_8  Thioredoxin-like
    1.5e-06   28.1   0.1    0.00027   20.9   0.0    2.1  2  Thioredoxin    Thioredoxin
    3.6e-06   27.4   0.0    6.4e-06   26.6   0.0    1.3  1  Thioredoxin_2  Thioredoxin-like domain
     0.0023   17.8   0.0     0.0063   16.4   0.0    1.7  1  TraF           F plasmid transfer operon protein


Domain annotation for each model (and alignments):
>> AhpC-TSA  AhpC/TSA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.6   0.0   4.8e-16   1.4e-12      24     123 ..      63     156 ..      39     157 .. 0.94

  Alignments for each domain:
  == domain 1  score: 47.6 bits;  conditional E-value: 4.8e-16
                              TTSEEEEEEESTST-CCHHHHHHHHHHCHHHCCCTTEEEEEEES.SSCHHHHHHHHH-H.SSEEEE-TTSHHHHHTT-EETTTTEC CS
                 AhpC-TSA  24 kgkpvvlffypkdwcpvCttelpalaklyeefkergvevigvsv.dspeshkkfiekeslnfpllsDeegkvakaygvlkeekgla 108
                              +g++ vl+f+++ wc +Ct el +++ ++e+ +     +++v+  +s + ++k   + ++++p+++D  g++a+ ++v        
  PHY93_03170|PHY93_03170  63 AGEKSVLVFWAS-WCGPCTIELNRIQSAIEKKEISLTHIYAVNLgESRDVVNKATIDRKFKLPVILDDRGELANLLNVK------V 141
                              58899*******.*******************************8889999999999**********************......9 PP

                              SCEEEEE-TTSBEEE CS
                 AhpC-TSA 109 lratfvidkegkiry 123
                              +++ +++d+egki +
  PHY93_03170|PHY93_03170 142 TPTIVFVDEEGKINW 156
                              9************87 PP

>> Redoxin  Redoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.2   0.0     5e-15   1.5e-11      27     133 ..      63     160 ..      59     165 .. 0.82

  Alignments for each domain:
  == domain 1  score: 44.2 bits;  conditional E-value: 5e-15
                              TTSEEEEEEESTTT-HHHHHTHHHHHTHHHHHHCSTTTEEEEEESSSHH....HHHHHHHTT-TSEEEE-TTSHHHHHTT-TTEEE CS
                  Redoxin  27 kgkkvvvnfvpgafcPtCsaehpyleklaellkekgvdvvavvadndaf....vkefwgkeglkfpvlsDgsaaftkalGlrleed 108
                              +g k v++f+++ +c++C+ e+   + ++  +++k ++   ++a+n       v+++  + + k pv++D  ++++  l+++    
  PHY93_03170|PHY93_03170  63 AGEKSVLVFWAS-WCGPCTIEL---NRIQSAIEKKEISLTHIYAVNLGEsrdvVNKATIDRKFKLPVILDDRGELANLLNVK---- 140
                              58999*******.*******99...66666666677777777777766622255555555999*****************99.... PP

                              .GGGEEE-EEEEEEETTEEEEEEES CS
                  Redoxin 109 aseglrtpryavidedgkvvyleve 133
                                    tp+ + +de+gk+ ++  +
  PHY93_03170|PHY93_03170 141 -----VTPTIVFVDEEGKINWISSG 160
                              .....9*************998766 PP

>> Thioredoxin_8  Thioredoxin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.5   0.0   5.4e-11   1.6e-07       5      95 .]      68     154 ..      64     154 .. 0.92

  Alignments for each domain:
  == domain 1  score: 31.5 bits;  conditional E-value: 5.4e-11
                              EEEE--SSSHHHHHHHHHHHHHHHHHHHTTSEEEEEEE-SS-HHHHHHHGGGS-TTSEE.EE-TT-HHHHTT-S--TT-SEEEEE- CS
            Thioredoxin_8   5 lLyfgaswcppckaftpklkelyeklkkkkkveivyvsldkkeeefekylkknkkpwlsvpfddkkrnklkkkynvkaiPtlvvld 90 
                              +L+f+aswc pc+  +++++   ek +      i +v+l ++++ ++k + +       +p+  ++r +l++ +nvk  Pt+v +d
  PHY93_03170|PHY93_03170  68 VLVFWASWCGPCTIELNRIQSAIEKKE-ISLTHIYAVNLGESRDVVNKATIDR---KFKLPVILDDRGELANLLNVKVTPTIVFVD 149
                              89*****************99999887.78899999******99999999999...788899999********************* PP

                              TT-BE CS
            Thioredoxin_8  91 kngev 95 
                               +g++
  PHY93_03170|PHY93_03170 150 EEGKI 154
                              *9987 PP

>> Thioredoxin  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.9   0.0   8.9e-08   0.00027      20      71 ..      66     118 ..      56     126 .. 0.78
   2 !    5.4   0.0    0.0061        18      59      86 ..     128     155 ..     121     169 .. 0.81

  Alignments for each domain:
  == domain 1  score: 20.9 bits;  conditional E-value: 8.9e-08
                              EEEEEEE-TTSHHHHCHHHHHHHHHHHCTT.TSEEEEEETTTSHHHHHHTT-S CS
              Thioredoxin  20 lvlveFyApwCghCkalaPeleklaeelkd.kvklakvdvdenedlakkyeve 71 
                              + ++ F+A+wCg+C     +++++ e+ +     ++ v+  e++d+++k  ++
  PHY93_03170|PHY93_03170  66 KSVLVFWASWCGPCTIELNRIQSAIEKKEIsLTHIYAVNLGESRDVVNKATID 118
                              45667*********976667777666655435678999999999999998875 PP

  == domain 2  score: 5.4 bits;  conditional E-value: 0.0061
                              TTSHHHHHHTT-SSSSEEEEEETTEEEE CS
              Thioredoxin  59 denedlakkyevegiPtlklfkngkevk 86 
                              d+  +la+ ++v+  Pt++++ ++ +++
  PHY93_03170|PHY93_03170 128 DDRGELANLLNVKVTPTIVFVDEEGKIN 155
                              666789999***********99877655 PP

>> Thioredoxin_2  Thioredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.6   0.0   2.1e-09   6.4e-06       5     100 ..      64     161 ..      62     168 .. 0.74

  Alignments for each domain:
  == domain 1  score: 26.6 bits;  conditional E-value: 2.1e-09
            Thioredoxin_2   5 gkpvlvvftdpdCpyCkklkkelkelddvtvrvllfplkpsfepkavaiwcakekk..kafkd.........ieenvelarkygvr 79 
                              g++ ++vf++++C+ C    + +++   ++++       +  +++av++  +++++     +          +++  ela+ ++v+
  PHY93_03170|PHY93_03170  64 GEKSVLVFWASWCGPCTIELNRIQSA--IEKK-----EISLTHIYAVNLGESRDVVnkA--TIdrkfklpviLDDRGELANLLNVK 140
                              67889***********9966666666..4444.....3333568888888888887431..22466666**999************ PP

            Thioredoxin_2  80 gtPtivfldgkeivarlpGyv 100
                               tPtivf d++ +++++   +
  PHY93_03170|PHY93_03170 141 VTPTIVFVDEEGKINWISSGL 161
                              ***********4445554444 PP

>> TraF  F plasmid transfer operon protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.0   2.1e-06    0.0063     167     213 ..     117     161 ..      57     164 .. 0.77

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 2.1e-06
                     TraF 167 vdgrplpelpnarvdkgqaa.rlgvkrtPalvlvdpksqkvvpvaaGl 213
                              +d+++   lp + +d+g +a  l+vk tP++v+vd++ +k+  +++Gl
  PHY93_03170|PHY93_03170 117 IDRKFK--LPVILDDRGELAnLLNVKVTPTIVFVDEE-GKINWISSGL 161
                              444444..88899999998879***************.*******997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (173 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       419  (0.02337); expected 358.6 (0.02)
Passed bias filter:                      371  (0.0206927); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.51u 0.27s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 1145.90
//
Query:       PHY93_03175|PHY93_03175  [L=133]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    5.8e-15   54.9   1.1    1.1e-14   54.0   0.6    1.8  2  HTH_5        Bacterial regulatory protein, arsR family
    6.6e-15   54.9   0.1    1.3e-14   54.0   0.1    1.5  1  HTH_20       Helix-turn-helix domain
    0.00019   21.5   3.0    0.00079   19.6   0.2    2.4  2  HTH_34       Winged helix DNA-binding domain
     0.0011   19.3   2.4     0.0056   17.0   0.1    2.1  2  Rrf2         Transcriptional regulator
     0.0026   17.5   0.2      0.005   16.6   0.2    1.5  1  HTH_IclR     IclR helix-turn-helix domain
     0.0041   17.0   0.1      0.008   16.0   0.1    1.5  1  MarR_2       MarR family
     0.0042   16.9   0.8      0.036   13.9   0.0    2.1  2  TrmB         Sugar-specific transcriptional regulator TrmB
     0.0076   15.5   1.5     0.0089   15.3   1.5    1.1  1  Dynactin     Dynein associated protein
     0.0088   15.8   1.3       0.33   10.6   0.0    2.1  2  DUF4423      Domain of unknown function (DUF4423)
  ------ inclusion threshold ------
      0.019   14.5   0.1      0.037   13.6   0.1    1.5  1  HTH_24       Winged helix-turn-helix DNA-binding
       0.03   14.8   0.5      0.063   13.8   0.5    1.6  1  NPV_P10      Nucleopolyhedrovirus P10 protein
       0.22   11.9   2.9        9.1    6.7   1.7    2.4  2  Uteroglobin  Uteroglobin family


Domain annotation for each model (and alignments):
>> HTH_5  Bacterial regulatory protein, arsR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.0   0.6   7.6e-18   1.1e-14       1      46 [.      24      69 ..      24      70 .. 0.96
   2 ?   -3.5   0.0       6.6   9.9e+03      16      23 ..      87      94 ..      79      95 .. 0.71

  Alignments for each domain:
  == domain 1  score: 54.0 bits;  conditional E-value: 7.6e-18
                             SHHHHHHHHHHTTSSEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEE CS
                    HTH_5  1 dptRlkILklLaegelcvcelaeelglsqstvShHLkkLreaGLVe 46
                             +p Rl IL lLa ge+++++l ++l+++++++S+HL++L+eaG+++
  PHY93_03175|PHY93_03175 24 HPVRLYILDLLATGEMSSSQLLNALEIPKANLSQHLSVLKEAGILK 69
                             599*****************************************97 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 6.6
                             EEHHHHHH CS
                    HTH_5 16 lcvcelae 23
                             + +c+l++
  PHY93_03175|PHY93_03175 87 KDACQLVR 94
                             56788875 PP

>> HTH_20  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.0   0.1   8.9e-18   1.3e-14       1      60 [.      16      74 ..      16      75 .. 0.96

  Alignments for each domain:
  == domain 1  score: 54.0 bits;  conditional E-value: 8.9e-18
                             HHHHHHHS-HHHHHHHHHHSTCTTB-HHHHHHHHTS-HHHHHHHHHHHHHCTTEEEECTE CS
                   HTH_20  1 dqiaeALahPvRrrilraLaraegltaselaerldlskntlsyHLrvLeeagLvevvreg 60
                             ++i +AL+hPvR+ il++L   ++++ s+l  +l+++k++ls+HL vL eag++++ ++g
  PHY93_03175|PHY93_03175 16 ADICHALSHPVRLYILDLL-ATGEMSSSQLLNALEIPKANLSQHLSVLKEAGILKSHKVG 74
                             5899***************.***********************************99987 PP

>> HTH_34  Winged helix DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   0.2   5.3e-07   0.00079       1      48 [.      26      72 ..      26      80 .. 0.89
   2 ?    2.2   0.3      0.14   2.1e+02      19      57 ..      85     122 ..      80     132 .. 0.66

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 5.3e-07
                   HTH_34  1 vRlavlsyLasvdeadfvelkealeatdgnLsvhlkkLekagYievdk 48
                             vRl +l +La+  e++ ++l +ale+ ++nLs hl++L++ag ++ +k
  PHY93_03175|PHY93_03175 26 VRLYILDLLAT-GEMSSSQLLNALEIPKANLSQHLSVLKEAGILKSHK 72
                             79999998875.6788899***********************999887 PP

  == domain 2  score: 2.2 bits;  conditional E-value: 0.14
                   HTH_34  19 elkealeatdgnLsvhlkkLekagYievdkefkgkkprt 57 
                              ++k+a ++  g Ls  lk  e+++  e +k+++ + ++t
  PHY93_03175|PHY93_03175  85 KIKDACQLVRGILSDRLKD-EQKNMTELKKKLDVQVKQT 122
                              6889999999999988876.6666666666665554443 PP

>> Rrf2  Transcriptional regulator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.1   3.7e-06    0.0056      15      58 ..      29      71 ..      26      75 .. 0.88
   2 ?    2.3   0.2      0.15   2.2e+02      21      51 ..     101     131 ..      91     133 .] 0.81

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 3.7e-06
                             HHHHHSSTCC-B-HHHHHHHHTS-HHHHHHHHHHHHHTTSEEEE CS
                     Rrf2 15 lyLakeeeeepvsseeiaerqnispsylekilakLrkaglvksv 58
                             ++L + +++e +ss+++ +  +i++  l++ l+ L++ag++ks 
  PHY93_03175|PHY93_03175 29 YILDLLATGE-MSSSQLLNALEIPKANLSQHLSVLKEAGILKSH 71
                             5566666766.9******************************97 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.15
                              STCC-B-HHHHHHHHTS-HHHHHHHHHHHHH CS
                     Rrf2  21 eeeepvsseeiaerqnispsylekilakLrk 51 
                               ++e+ +++e+ ++ +++ +  +ki++k +k
  PHY93_03175|PHY93_03175 101 LKDEQKNMTELKKKLDVQVKQTKKITKKITK 131
                              45555799999*******9999999999877 PP

>> HTH_IclR  IclR helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.2   3.4e-06     0.005       8      50 ..      30      70 ..      28      72 .. 0.89

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 3.4e-06
                             HHCT-CTTBSS-BHHHHHHHHTS-HHHHHHHHHHHHHTTSEE. CS
                 HTH_IclR  8 iLdalaeapqeltlselArrtglpkStvhRlLqtLvelGyveq 50
                             iLd+la  ++e++ s+l +++ +pk++ + +L+ L e G+++ 
  PHY93_03175|PHY93_03175 30 ILDLLA--TGEMSSSQLLNALEIPKANLSQHLSVLKEAGILKS 70
                             777776..57899***************************985 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.1   5.4e-06     0.008       5      51 ..      25      68 ..      20      73 .. 0.88

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 5.4e-06
                             HHHHHHHHHHHCTTTSEEEHHHHHHHHTSSHHHHHHHHHHHHHTTSE CS
                   MarR_2  5 paqarvLaaLgrrpgrdltvgelarrlglsksavsrilkrLvaaGLv 51
                             p  + +L  L+ ++   ++ ++l  +l ++k+++s++l  L +aG +
  PHY93_03175|PHY93_03175 25 PVRLYILDLLATGE---MSSSQLLNALEIPKANLSQHLSVLKEAGIL 68
                             66778899999998...9***************************76 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.9   0.0   2.4e-05     0.036      15      56 ..      31      72 ..      26      86 .. 0.88
   2 ?    1.4   0.2       0.2   3.1e+02      18      46 ..     101     129 ..      98     132 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 2.4e-05
                             HHHHHHCCCHHCHHCCCTTSSCHCHHHHHHHHHHCTSEEEES CS
                     TrmB 15 laLlklgpatadeiaeelgvprskvYevLrsLedkGlVerek 56
                             l Ll+ g+++ +++ ++l++p+++  + L+ L+++G+ +  k
  PHY93_03175|PHY93_03175 31 LDLLATGEMSSSQLLNALEIPKANLSQHLSVLKEAGILKSHK 72
                             579*********************************988766 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.2
                              HHHCCCHHCHHCCCTTSSCHCHHHHHHHH CS
                     TrmB  18 lklgpatadeiaeelgvprskvYevLrsL 46 
                              lk ++++++e+ ++l+v   +  ++ ++ 
  PHY93_03175|PHY93_03175 101 LKDEQKNMTELKKKLDVQVKQTKKITKKI 129
                              6789999********99988888777765 PP

>> Dynactin  Dynein associated protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   1.5     6e-06    0.0089     176     284 ..      31     131 ..      29     133 .] 0.82

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 6e-06
                 Dynactin 176 idllrrdeldekecleeLersialf.ehLaevhlaeeledlaeelldrvkllqsaldsiaaalgllkallqskledveeedeeasd 260
                              +dll + e+  ++ l+ Le   a + +hL+   l+e +  l++  +++ ++l+ a+  i+ a +l++ +l+ +l       +e+++
  PHY93_03175|PHY93_03175  31 LDLLATGEMSSSQLLNALEIPKANLsQHLSV--LKE-AGILKSHKVGSFQMLSLAIPKIKDACQLVRGILSDRL------KDEQKN 107
                              6888888888888888888776655255554..453.356777888999***********************99......4599** PP

                 Dynactin 261 llellqelitqarsakvvakkikr 284
                              + el ++l  q++++k ++kki++
  PHY93_03175|PHY93_03175 108 MTELKKKLDVQVKQTKKITKKITK 131
                              **********************98 PP

>> DUF4423  Domain of unknown function (DUF4423)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.6   0.0   0.00022      0.33      16      76 ..      20      76 ..       5      86 .. 0.85
   2 ?    4.4   0.3     0.019        28      31      59 ..     100     126 ..      89     132 .. 0.85

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00022
                  DUF4423 16 eyfssWyypvirellplkdfkadpeelakrlrpkisaeevekalefLlklgllkkdedgky 76
                             + +s+++ + i+ ll+  +   + ++l ++l   i+++  ++ l+ L+++g+lk ++ g +
  PHY93_03175|PHY93_03175 20 HALSHPVRLYILDLLATGEM--SSSQLLNALE--IPKANLSQHLSVLKEAGILKSHKVGSF 76
                             56788888889998888777..9999******..********************9998876 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.019
                  DUF4423  31 plkdfkadpeelakrlrpkisaeevekal 59 
                              +lkd+++++ el+k+l   +++++++k+ 
  PHY93_03175|PHY93_03175 100 RLKDEQKNMTELKKKLD--VQVKQTKKIT 126
                              58999************..9999988865 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.1   2.5e-05     0.037      12      48 .]      33      69 ..      30      69 .. 0.92

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 2.5e-05
                   HTH_24 12 LqknprisqreLAerlglSpstvnrrlkrLeeeGlIk 48
                             L + + +s ++L  +l +++++++++l  L+e+G++k
  PHY93_03175|PHY93_03175 33 LLATGEMSSSQLLNALEIPKANLSQHLSVLKEAGILK 69
                             556799****************************986 PP

>> NPV_P10  Nucleopolyhedrovirus P10 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.5   4.2e-05     0.063      28      59 ..      99     130 ..      75     132 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 4.2e-05
                  NPV_P10  28 ddvqenlpdvtelnekLdaqsaqLaeletkve 59 
                              d+++++ +++tel++kLd q +q +++ +k++
  PHY93_03175|PHY93_03175  99 DRLKDEQKNMTELKKKLDVQVKQTKKITKKIT 130
                              789999**********************9997 PP

>> Uteroglobin  Uteroglobin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.0      0.03        45      16      36 ..      11      36 ..       8      65 .. 0.71
   2 ?    6.7   1.7    0.0061       9.1      54      83 ..     103     132 ..      87     133 .] 0.90

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.03
                             XXXXXX---HHHHHHHHHHH.....H CS
              Uteroglobin 16 cyagsaegCpaleevvekfl.....e 36
                              y+ +a++C al + v  ++     +
  PHY93_03175|PHY93_03175 11 LYEMQADICHALSHPVRLYIldllaT 36
                             4667777*********9999655441 PP

  == domain 2  score: 6.7 bits;  conditional E-value: 0.0061
                              HHHHHHHHHHHHHTTS-HHHHHHHHHHHHH CS
              Uteroglobin  54 eaeealaelKqcvdklsnetkenvakllek 83 
                              +++++++elK+  d + ++tk+  +k+++k
  PHY93_03175|PHY93_03175 103 DEQKNMTELKKKLDVQVKQTKKITKKITKK 132
                              7899*****************998888766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (133 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1499  (0.0836076); expected 358.6 (0.02)
Passed bias filter:                      504  (0.0281109); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.54u 0.26s 00:00:00.80 Elapsed: 00:00:00.45
# Mc/sec: 886.01
//
Query:       PHY93_03180|PHY93_03180  [L=436]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.4e-16   58.3   9.7    1.8e-11   44.2   2.7    2.3  2  OEP       Outer membrane efflux protein


Domain annotation for each model (and alignments):
>> OEP  Outer membrane efflux protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.7   8.5e-08    0.0015       1     112 [.      23     153 ..      23     204 .. 0.82
   2 !   44.2   2.7     1e-15   1.8e-11      13     176 ..     261     420 ..     247     430 .. 0.84

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 8.5e-08
                      OEP   1 ldellalalennpdlkaaeaeieaa.eanlkaakaeflPtlslsgsygyegngsegggddggtgtt...................s 66 
                              ldel+++  +n+++ kaa   + aa   + + +k + lP+++l+g+   +++ ++  + +  + +                     
  PHY93_03180|PHY93_03180  23 LDELIKATNANSLAQKAANESVSAAvLVQERSSKHW-LPKVYLNGQSFLSNDPGTALFGKLSQREIqnsdfmadslnhpatslynK 107
                              799**********99999999999977777777766.*********999999988887776666669******************* PP

                      OEP  67 vgltlsqplfdggkrrarvkaakaqleaaeaqleqarqqlrlevaq 112
                              + +++++pl+ gg+ +a  ka    +ea   + +++ ++  +ev +
  PHY93_03180|PHY93_03180 108 AVIGVNLPLYEGGEKIAVNKAMTFLSEAKTSEARAVGNEFYTEVVK 153
                              ***********98888777776666666666666655555555555 PP

  == domain 2  score: 44.2 bits;  conditional E-value: 1e-15
                      OEP  13 pdlkaaeaeieaaeanlkaakaeflPtlslsgsygyegngsegggddggtgttsvgltlsqplfdggkrrarvkaakaqleaaeaq 98 
                                +++++++ ++a + ++a k++ lP+++l g++   +++  +g+          g+ l++++f+ g  + +  +a  +++aa++ 
  PHY93_03180|PHY93_03180 261 HKVQSYFQNAKSAMEVIDAEKSRNLPRIGLFGEGYAFNGDRATGTGYT------TGIYLNWNIFS-GNDYGASSEAIHKSKAAQYF 339
                              5799****************************9888888877766554......***********.9******************* PP

                      OEP  99 leqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlisll...dvlqaqvrllqaraelaeaeqql 176
                               ++++q+ r e++ +   l + + +l l++e+ + +e++ ++   ++k+Gli++l   +vl+ +v+l ++++  ++   ++
  PHY93_03180|PHY93_03180 340 AQATEQKERVEYEGLKDALDAINHSLLLLNESENYLEEQTKISHNLFKNGLINALqyvEVLSRRVDLIKSKSLAEAELIEM 420
                              ******************************************************955455555555444444333333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (436 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       736  (0.0410508); expected 358.6 (0.02)
Passed bias filter:                      339  (0.0189079); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.61u 0.24s 00:00:00.85 Elapsed: 00:00:00.45
# Mc/sec: 2887.47
//
Query:       PHY93_03185|PHY93_03185  [L=1065]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
   1.5e-145  486.4   8.6   1.8e-145  486.1   8.6    1.0  1  ACR_tran   AcrB/AcrD/AcrF family
    7.6e-06   25.4   9.6    7.6e-06   25.4   9.6    2.7  3  SecD_SecF  Protein export membrane protein
  ------ inclusion threshold ------
      0.083   12.6   2.4       0.26   11.0   2.4    1.8  1  ABA_GPCR   Abscisic acid G-protein coupled receptor


Domain annotation for each model (and alignments):
>> ACR_tran  AcrB/AcrD/AcrF family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  486.1   8.6    3e-149  1.8e-145       2    1020 ..      14    1047 ..      13    1048 .. 0.90

  Alignments for each domain:
  == domain 1  score: 486.1 bits;  conditional E-value: 3e-149
                               HHHHHTSHHHHHHHHHHHHHHHHHHHCTSSBESSSS-S--EEEEEEE-TTC-HHHHHHHTHHHHHCTCTS-TTEEEEEEEETTS CS
                 ACR_tran    2 ikffikrpifalvlaliilllGilsilslPvdalPeiapptvqvstsypGaspevvesevtqplEqalngldglkyvsSqSseg 85  
                               +++fik +++++++a   ll+G++++  +P ++ P+i+ p ++++t +pG++++ +e+++t+p+E+a+ gldg++yv+S S+  
  PHY93_03185|PHY93_03185   14 ARLFIKSKLTMVIAA-TSLLMGVMAVYLTPKEEEPQISVPMIDIETMAPGLDAHAIERKITEPIERAVWGLDGVEYVYSASQSH 96  
                               678999887666555.56789************************************************************999 PP

                               EEEEEEEESTTS-HHHHHHHHHHHHHHHGGGS-HHHHHH-EEEEEEECCECEEEEEEESSSSS-HHHHHHHHHHHTHHHHHTST CS
                 ACR_tran   86 lssitltFedgtdidiArqqvqnrlqeaknkLPeevqepgiskiktssseilvlavtskdgsltktelrdlaetnikdqLsrve 169 
                                s++t+ F+ g++i+    ++  +l+ ++++LP++  +  ++  + ++ + l+l+++s+  +++ ++lr+ ++  ++++Ls+++
  PHY93_03185|PHY93_03185   97 GSMVTVRFKVGEPIEPSLLKIHHKLTTIRSQLPSNSMPSDVKSYSIDDVPFLILTFSSP--TMDDYTLRQKIA-PLARELSSTP 177 
                               99*********************************************************..********9886.699******* PP

                               TEEEEEESS.-SEEEEEEE-HHHHHCTT--HHHHHHHHHHHSSB-EEEEETT-SB-EEEEESB---SHHHHHTSEEEETTSCEE CS
                 ACR_tran  170 GVgdvqliGgsekavriwldpqklaklgltltdvvsalkeqnvnvaaGqlegqeeelliraqgqlqsaediekiivknqdgskv 253 
                                 + v++ Gg ++++r+ +dp+kl+  g+ l  v  alk++n+  +aG+  +++e l+i + g++++a die++ +++  g+ v
  PHY93_03185|PHY93_03185  178 DLSRVEILGGLKRSIRVIIDPKKLRDRGVALGSVAMALKANNAFYPAGKNWDKKEVLDIDVGGKFNNATDIENVSIGQRGGTVV 261 
                               ************************************************************************************ PP

                               EHHHCEEEEEEESSSSSEEEE...TT...EEEEEEEEEEETTSBHHHHHHHHHHHHHCCGGGSSTTEEEEEEEESHHHHHHHHH CS
                 ACR_tran  254 rlrDvAkVelgaeeerlaatf...ng...kpavllevkklpganaievakavkekleeLkeslPegveivvvydrtefvrasie 331 
                               r+rD+A+V +g ee++  +++   n+   ++av +   k++g n ++ a++  ++ e  ++slP++v+++v+ d  ++     +
  PHY93_03185|PHY93_03185  262 RIRDIARVVDGPEERTRSSSLvnkNNqvpENAVSIIFAKRKGTNVVTLARKLLDRAELFSKSLPSEVKMSVLRDYGTTAGDKSN 345 
                               ***********999876554311133344579999999************************************9999999999 PP

                               HHHHHHHHHHHHHHHHHHHHHSSHHHHHHHHHHHHHHHHHHHHHHHHTT--BCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                 ACR_tran  332 eVvktLleaivLvvlvvflFLqnlratlipaiavPlsllgtfavlkalgfslNlltLfgLvlAiGlvvDdAiVvvEnierklee 415 
                               e  k Ll+a++ v  v++   + lra+l++aia+P+ l +t+av +++g++lN  tLf+L + iG++vDdAiVvvEnier+l+ 
  PHY93_03185|PHY93_03185  346 ELIKHLLLATLSVT-VLIAIVMGLRASLVVAIAIPVTLALTLAVYYFMGYTLNRVTLFALIFSIGILVDDAIVVVENIERHLHL 428 
                               999*****987666.55666788************************************************************* PP

                               .HTS-HHHHHHHHHHHHHHHHHHHHHHHHHHCTGGGGSBHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHS---STT-C CS
                 ACR_tran  416 .egekpleaalksmkeiqgalvaialvllavflPilflgGveGklfrqfaltivlaillsvlvaltltPalcallLkerkeeke 498 
                                ++    +a+l+++ e++ + +  ++ ++ + lP++f+ G+ G   +++ +  ++a++ls++va ++tP ++  +Lk +++ ++
  PHY93_03185|PHY93_03185  429 dRKSGMIKATLRAVAEVGNPTILATFAVIGAILPMAFVRGLMGPYMKPIPVGASVAMILSLFVAFIVTPWAAVKILKDESQTQN 512 
                               777777***************************************************************************999 PP

                               TSHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHH....HHHHHHH.HHHHHHCS-BESS----TSEEEEEEE-STTB-HHHHH CS
                 ACR_tran  499 kkffrefnrlfealeraYakllekvlrhravvllv....alvllvl.svllfvripkeflPeedegvlvtsvqlppgvsleqtq 577 
                               +   +  +  +++l r Y+k++  +l+++   +l+    + +ll++ s++ f  +  ++lP  ++ ++++ +  p+ ++leq++
  PHY93_03185|PHY93_03185  513 HDNDKVETPKVSKLDRLYEKMMGGLLNKKMTSILFgafsVTLLLGAmSLVYFKYVKVKMLPFDNKEEFQVLIDYPATTTLEQNR 596 
                               9888999999*****************998876542211222333337777888999*************************** PP

                               HHHHHHHHHHHTTTTEEEEEEEECE....CSSE........ECCCEEEEEEEES-GCGS-SGGGSHHHHHHHHHHHCTTSTSSE CS
                 ACR_tran  578 kvlkqvekilkekpevesvfavtGf....aesgd......tagpnsakvfisLkpekerkeeeksvealierlrkelkkipgan 651 
                               k + ++++ l + p+v++v+ +tG     ++sg        ++  +++ +i L+ ++er   +  ++ +ie lr  ++++ + +
  PHY93_03185|PHY93_03185  597 KWSVELAQKLVNAPDVKKVQVFTGEpapySFSGMvkhtfmRRSDYQSDFQILLSGKEER---SRGSHTIIEGLRPMIREFADSK 677 
                               ***********************962222333431111114567899************...8889999******999999999 PP

                               EEEEETTSSCCCSSSSCEEEEEEE.SSSSHHHHHHHHHHHHHHHHCCSTTEEEEEESS-S-EEEEEEEE-HHHHHHCTCSHHHH CS
                 ACR_tran  652 vellapiqlreletlsgvrselqvklfgddleaLseaaeqllaalkelpelsdvrseqqedqpqlqveidrekaarlGvsisdi 735 
                                 l+++ ++       + ++ ++  + g d ++  ++a+++ +  k+ p + d+  ++    p    + d +ka  lG +++ +
  PHY93_03185|PHY93_03185  678 KGLSKVLEIPP--GPPVLSTVVA-EVYGPDEKTRLAVAKEIYTIFKNEPSVVDLDYTWRPARPRKVYNFDYAKAGMLGTNAQMV 758 
                               88888888877..4444555555.599********************************************************* PP

                               HHHHHHHHTTEEEEEEEETT..EEEEEEEEE-GGGSSSGGGGCCSEEEETTSCEEEGGGTEEEEEEEE-SEEEEETTCEEEEEE CS
                 ACR_tran  736 ndtletalggsyvndfieeg..rrvkvvvrleedlrsspedlkklkvrnkkgkmvplsavakieeekgpnsierengsrsvvis 817 
                                +  +  ++ s ++ +++    ++v + + ++++ rs+ +  +++  ++ +  +v  ++  k       + + r+n ++ + + 
  PHY93_03185|PHY93_03185  759 AQNGALLFSESSMGLLNDITspEEVSIDLSVNNEQRSGTNPFANITTPSFESGIVEVGEALKAPTIVENETLYRKNLKPLSYVM 842 
                               **999999999888887655115666777899**************************************************** PP

                               EEE..STTS-HHHHHHHHHHHC...TT..SSTTEE...EEEEHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHTSSSTCHHHH CS
                 ACR_tran  818 gnv..aegdslseaeeavekia...kkvklpegvt...iewtgqaeqeqeasnsllilvalalllvflvLaalyeslsepllil 893 
                               +++  ae +    + +   +i+   ++  +p + +   ++w g+     e    l   +a+ ++l++++    + s+  pl+i+
  PHY93_03185|PHY93_03185  843 SELsgAEEAPVYGILKLAPQIKyplQTADVPWDTKspvVKWDGEWFITYEVFRDLGGAFAVVMVLIYILVLGWFRSFAVPLIIM 926 
                               9995533333333444433333111444899666433389******************************************** PP

                               TTHHHHHHHHHHHHHHTT--BSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTCHHHHHHHHHHHCHHHHHHHHHHHHHHH CS
                 ACR_tran  894 ltvPlalvGallalllrglelsviaqvGlilliGlavkNaillvefakelrekegksleeaileaakeRLrPiLMTalaailGv 977 
                                 +P++l+G l + +++g+++  ++++G+i+  G+ v+N i+lv+f+++  + +g++l+ea++ a+  R+rP+L+Ta a+++G 
  PHY93_03185|PHY93_03185  927 APIPISLIGILPGHVIVGSYFTATSMIGFIAGAGIIVRNSIILVDFIEHQLA-QGMELKEAVVSAGVLRFRPMLLTAAAVVVGS 1009
                               **************************************************99.9999**************************9 PP

                               HHHHCT-STTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                 ACR_tran  978 lPLalstgaGselqqplgivvlgGlvtstvLtLllvPvlYvlv 1020
                                 +++       + q l++ ++ G v +tvL+ + vPvlY+ +
  PHY93_03185|PHY93_03185 1010 SVMLFD-----PIFQGLAVSLIFGEVAATVLSRFAVPVLYYWI 1047
                               999985.....6999*************************865 PP

>> SecD_SecF  Protein export membrane protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.1      0.78   4.7e+03     128     161 ..      18      50 ..      11      54 .. 0.60
   2 !   25.4   9.6   1.3e-09   7.6e-06      24     179 ..     342     492 ..     323     507 .. 0.81
   3 ?    1.2  10.3     0.035   2.1e+02      39     185 ..     901    1046 ..     890    1050 .. 0.75

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 0.78
                              HHHHHHHHHHTTHHHHHHHHHHHHHHTTTTHHHH CS
                SecD_SecF 128 lnqtLtrtiltslttllvvvallllggdslkdfa 161
                              +++ Lt+ i+++  +l+ v+a++l +++   +++
  PHY93_03185|PHY93_03185  18 IKSKLTMVIAATS-LLMGVMAVYLTPKEEEPQIS 50 
                              5666665555443.47777777777766555555 PP

  == domain 2  score: 25.4 bits;  conditional E-value: 1.3e-09
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHHHHHHHHHHTT----HHHHHHHHHHTTSSSHHHHHHHHHHH CS
                SecD_SecF  24 svskelaekavlallialvliliyvalrFewrvalaaiialvhDviitvgvlsllgievdlatvaalLtiiGYSvndtvvvfdrvr 109
                                s+el+++ +la l  +vli+i+++lr    va+a+ ++l     +t++v+  +g  ++  t+ al+  iG  v+d +vv + ++
  PHY93_03185|PHY93_03185 342 DKSNELIKHLLLATLSVTVLIAIVMGLRASLVVAIAIPVTL----ALTLAVYYFMGYTLNRVTLFALIFSIGILVDDAIVVVENIE 423
                              55888888888999888889988888888888888777776....589************************************** PP

                              HHHHH--SS-HHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHTTTTHHHHHHHHHHTSTTTTTHHHHH CS
                SecD_SecF 110 enlrkkkratlkeiinlslnqtLtrtiltslttllvvvallllggdslkdfalallvGlivgtyssifia 179
                               +l+ +++  + +++ +++ +    til++  ++ +++ + ++ g  +   +  + vG  v ++ s+f+a
  PHY93_03185|PHY93_03185 424 RHLHLDRKSGMIKATLRAVAEVGNPTILATFAVIGAILPMAFVRG-LMGPYMKPIPVGASVAMILSLFVA 492
                              ********************************9999999887755.444444555555555555555555 PP

  == domain 3  score: 1.2 bits;  conditional E-value: 0.035
                               HHHHHHHHHHHH..HT-HHHHHHHHHH.HHHHHHHHHHHHHHTT----HHHHHHHHHHTTSSSHHHHHHHHHHHHHHHH--SS- CS
                SecD_SecF   39 ialvliliyval..rFewrvalaaiia.lvhDviitvgvlsllgievdlatvaalLtiiGYSvndtvvvfdrvrenlrkkkrat 119 
                               +a+v++liy+ +   F+      +i+a +   +i ++   +++g  ++ +++++ +   G  v +++++ d ++ +l +   ++
  PHY93_03185|PHY93_03185  901 FAVVMVLIYILVlgWFRSFAVPLIIMApIPISLIGILPGHVIVGSYFTATSMIGFIAGAGIIVRNSIILVDFIEHQLAQ--GME 982 
                               5566666666552146655444555556888889999999************************************887..788 PP

                               HHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHTTTTHHHHHHHHHHTSTTTTTHHHHHHHHHHH CS
                SecD_SecF  120 lkeiinlslnqtLtrtiltslttllvvvallllggdslkdfalallvGlivgtyssifiaspllll 185 
                               lke++  +    +   +lt +   +vv + ++l + + +++a++l++G ++ t+ s f    l ++
  PHY93_03185|PHY93_03185  983 LKEAVVSAGVLRFRPMLLTAAA--VVVGSSVMLFDPIFQGLAVSLIFGEVAATVLSRFAVPVLYYW 1046
                               8888877777777656666554..33334444458999**********999999998865555444 PP

>> ABA_GPCR  Abscisic acid G-protein coupled receptor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   2.4   4.4e-05      0.26      85     174 ..     310     410 ..     294     415 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 4.4e-05
                 ABA_GPCR  85 lssvlttissllrllpsslqll.............kssllnLllselmgiYvistllllrsnLPkevssklselLgekptvpnvid 157
                               ++ l   + ++++lps+++++             ++ +++Lll+ l ++ +i+ ++ lr +L   ++ +++ +L   +++  +++
  PHY93_03185|PHY93_03185 310 ARKLLDRAELFSKSLPSEVKMSvlrdygttagdksNELIKHLLLATLSVTVLIAIVMGLRASLVVAIAIPVTLALTLAVYY--FMG 393
                              57788889999********9889**********99999*************************999999999999999777..788 PP

                 ABA_GPCR 158 rwFDkvFllsciltavv 174
                              +    v l++ i+++ +
  PHY93_03185|PHY93_03185 394 YTLNRVTLFALIFSIGI 410
                              88888888888887655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1065 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       912  (0.0508673); expected 358.6 (0.02)
Passed bias filter:                      504  (0.0281109); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.88u 0.32s 00:00:01.20 Elapsed: 00:00:00.48
# Mc/sec: 6723.90
//
Query:       PHY93_03190|PHY93_03190  [L=126]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.8e-13   49.3   0.0    7.4e-13   49.0   0.0    1.1  1  Rhodanese        Rhodanese-like domain
    0.00023   21.0   0.0    0.00027   20.8   0.0    1.0  1  QRPTase_C        Quinolinate phosphoribosyl transferase, C-te
  ------ inclusion threshold ------
      0.052   13.7   0.0      0.097   12.8   0.0    1.4  1  Arabino_trans_N  Arabinosyltransferase concanavalin like doma


Domain annotation for each model (and alignments):
>> Rhodanese  Rhodanese-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.0   0.0   1.2e-16   7.4e-13       6     106 ..      30     120 ..      26     121 .. 0.86

  Alignments for each domain:
  == domain 1  score: 49.0 bits;  conditional E-value: 1.2e-16
                Rhodanese   6 kellekgkvallDvRppeeYekghIpgAvnvskdtlsrakkseapllelpeellel..gidnkktvvvycdgggraaaaaallkkl 89 
                              + +++++k++++DvR+p e ++g  ++A++v          + + ++++ ee+++    + ++ktv+vyc  g ra+ +   l k 
  PHY93_03190|PHY93_03190  30 QTMQKEKKAIIVDVREPSELKEGMAKEAISV----------PLSTMKDKKEEWEKIvaTFPKDKTVIVYCGIGVRAEKVGLELAKK 105
                              3344555556*********999*********..........999999999999999999****************9999666666* PP

                Rhodanese  90 GyknvsvldGGfkawke 106
                              G ++v ++ GGf++w +
  PHY93_03190|PHY93_03190 106 G-YKVLNM-GGFESWEK 120
                              *.788887.******87 PP

>> QRPTase_C  Quinolinate phosphoribosyl transferase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.8   0.0   4.5e-08   0.00027      60     155 ..      15     113 ..       6     120 .. 0.88

  Alignments for each domain:
  == domain 1  score: 20.8 bits;  conditional E-value: 4.5e-08
                              HHHHSSHHHHHHHHHHHHTTTSE.EEEEESSHHHHHHHHHHT-SEEEEES--H..HHHHHHHHHHHHHSTTSEEEEESS--TTTH. CS
                QRPTase_C  60 iaaagsiveavksvreavdkevk.ievevesleeleevleaeadiimLDnfsv..eelkkaveelkeknkrvlievSGgvtlenv. 141
                              +a+a++++++   + + ++ke+k i v+v+   el+e ++ ea  + L +++   ee +k+v +   k+k+v++ +  gv  e+v 
  PHY93_03190|PHY93_03190  15 MALASGLEKINPLAAQTMQKEKKaIIVDVREPSELKEGMAKEAISVPLSTMKDkkEEWEKIVATF-PKDKTVIVYCGIGVRAEKVg 99 
                              4677889999999999**999999***************************655599******66.78889************996 PP

                              HHHHCTT-SEEEEC CS
                QRPTase_C 142 eeyaksgvdvisvg 155
                               e+ak+g +v+ +g
  PHY93_03190|PHY93_03190 100 LELAKKGYKVLNMG 113
                              69999999999888 PP

>> Arabino_trans_N  Arabinosyltransferase concanavalin like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   1.6e-05     0.097      32      85 ..      58     111 ..      53     117 .. 0.93

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 1.6e-05
                              EEEEGGGGGGB-TT--EEEESS-TTSTTHHHHSEEEEEETTEEEEEETTEEEEE CS
          Arabino_trans_N  32 vtvpcaavaelpaeggvvlsTvPkeakdaakrGLfvrvtadsvevvvrnvvlls 85 
                              ++vp++++++ ++e + +++T Pk+ +     G+ vr+++ ++e++ ++  +l+
  PHY93_03190|PHY93_03190  58 ISVPLSTMKDKKEEWEKIVATFPKDKTVIVYCGIGVRAEKVGLELAKKGYKVLN 111
                              89******************************************9999887775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (126 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       825  (0.0460148); expected 358.6 (0.02)
Passed bias filter:                      665  (0.0370907); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.27s 00:00:00.78 Elapsed: 00:00:00.46
# Mc/sec: 824.56
//
Query:       PHY93_03195|PHY93_03195  [L=61]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.2e-14   51.6   0.0    7.7e-14   51.5   0.0    1.0  1  DUF2892   Protein of unknown function (DUF2892)


Domain annotation for each model (and alignments):
>> DUF2892  Protein of unknown function (DUF2892)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.5   0.0   4.3e-18   7.7e-14       7      60 ..       2      58 ..       1      61 [] 0.86

  Alignments for each domain:
  == domain 1  score: 51.5 bits;  conditional E-value: 4.3e-18
                  DUF2892  7 tldRilrivvGlvllllallglsggw..gwllglvGavllltgltgfCplyall.gi 60
                             +++ ++r+++G ++l++++l+   +   +w++ +vGa+ll++++t+fCpl  +l +i
  PHY93_03195|PHY93_03195  2 SINNQVRAFAGTFILISLVLAHYHSQnwLWFTTFVGANLLQSAFTKFCPLEIFLkKI 58
                             6889*********999988887544456***********************999445 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (61 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       517  (0.028836); expected 358.6 (0.02)
Passed bias filter:                      310  (0.0172904); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.24s 00:00:00.68 Elapsed: 00:00:00.42
# Mc/sec: 432.59
//
Query:       PHY93_03200|PHY93_03200  [L=152]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.013   16.4   0.0      0.029   15.3   0.0    1.5  2  Cytochrom_C_2  Cytochrome C'


Domain annotation for each model (and alignments):
>> Cytochrom_C_2  Cytochrome C'
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0      0.47   8.5e+03      11      33 ..      54      76 ..      47      90 .. 0.54
   2 ?   15.3   0.0   1.6e-06     0.029      74     121 .]     103     151 ..     100     151 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 0.47
                             HHHHHHHHHHHHHHTTSST--HH CS
            Cytochrom_C_2 11 ksigknmgklgamlkgeapydae 33
                              ++++ ++ ++++++g a+ d++
  PHY93_03200|PHY93_03200 54 GEMRALLKGVNGVFRGLAQNDQS 76
                             45555555555555555544443 PP

  == domain 2  score: 15.3 bits;  conditional E-value: 1.6e-06
                              HHHHHHHHHHHHHHHHHH.HHHHCTSHHHHHHHHHHHHHHHHHHHHHHB CS
            Cytochrom_C_2  74 ekfkakaaaleeaaaeLa.aaakagdlaalkaafgkvgksCkaCHdkyR 121
                               +fk+    l+++++ La + +   + + + + +g++ ++C aCH+ yR
  PHY93_03200|PHY93_03200 103 MEFKQLGMGLHKDFDVLAiDIKHGISNDIVIKRMGEMTNKCIACHEVYR 151
                              5799999999999999997777778889999*****************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (152 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       458  (0.0255452); expected 358.6 (0.02)
Passed bias filter:                      421  (0.0234815); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.25s 00:00:00.72 Elapsed: 00:00:00.43
# Mc/sec: 1050.67
//
Query:       PHY93_03205|PHY93_03205  [L=68]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.1e-17   61.0   0.1    9.5e-17   60.8   0.1    1.0  1  DUF2892   Protein of unknown function (DUF2892)


Domain annotation for each model (and alignments):
>> DUF2892  Protein of unknown function (DUF2892)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.8   0.1   5.3e-21   9.5e-17       1      62 [.       1      58 [.       1      63 [. 0.93

  Alignments for each domain:
  == domain 1  score: 60.8 bits;  conditional E-value: 5.3e-21
                  DUF2892  1 MkkNvgtldRilrivvGlvllllallglsggwgwllglvGavllltgltgfCplyallgint 62
                             M kN++  +R++r+vvG+++  la++g ++ w++    +G+++ +tgl+g+Cplya+lgi+t
  PHY93_03205|PHY93_03205  1 MIKNINDPERVIRFVVGAIITSLAFWGPHNNWFL----LGLIPMATGLVGTCPLYAALGIST 58
                             789*************************876555....**********************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (68 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       334  (0.018629); expected 358.6 (0.02)
Passed bias filter:                      232  (0.0129399); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.43
# Mc/sec: 476.62
//
Query:       PHY93_03210|PHY93_03210  [L=334]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.4e-59  200.5   0.0      2e-59  199.9   0.0    1.2  1  2-Hacid_dh_C    D-isomer specific 2-hydroxyacid dehydrogenase
    8.1e-25   87.0   0.0    9.1e-25   86.9   0.0    1.0  1  2-Hacid_dh      D-isomer specific 2-hydroxyacid dehydrogenase
    1.1e-07   32.1   0.1    2.1e-07   31.2   0.1    1.4  1  NAD_binding_2   NAD binding domain of 6-phosphogluconate dehy
    0.00033   20.8   0.2    0.00063   19.8   0.2    1.4  1  AdoHcyase_NAD   S-adenosyl-L-homocysteine hydrolase, NAD bind
    0.00038   20.3   0.0    0.00072   19.4   0.0    1.4  1  Rossmann-like   Rossmann-like domain
     0.0016   18.1   0.0     0.0032   17.1   0.0    1.5  1  IlvN            Acetohydroxy acid isomeroreductase, NADPH-bin
     0.0065   15.8   0.8       0.13   11.6   1.2    2.2  2  ThiF            ThiF family
     0.0074   16.8   0.0      0.021   15.3   0.0    1.7  2  XdhC_C          XdhC Rossmann domain
  ------ inclusion threshold ------
      0.031   14.3   0.0      0.075   13.1   0.0    1.7  1  Shikimate_DH    Shikimate / quinate 5-dehydrogenase
      0.042   14.4   0.1       0.22   12.1   0.1    2.2  2  F420_oxidored   NADP oxidoreductase coenzyme F420-dependent
       0.11   12.1   1.2       0.29   10.7   1.0    1.8  1  UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family,
       0.11   13.0   0.1       0.25   11.9   0.1    1.6  1  Pyr_redox       Pyridine nucleotide-disulphide oxidoreductase
       0.15   11.9   0.2       0.26   11.2   0.2    1.3  1  3HCDH_N         3-hydroxyacyl-CoA dehydrogenase, NAD binding 


Domain annotation for each model (and alignments):
>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  199.9   0.0   1.5e-62     2e-59       1     178 []     110     297 ..     110     297 .. 0.94

  Alignments for each domain:
  == domain 1  score: 199.9 bits;  conditional E-value: 1.5e-62
                              HHHHHHHHTTHHHHHHHHHTTCCHTTCCGSBS-GTTSEEEEES-SHHHHHHHHHHHHTT-EEEEESSSHHHHHCHHHHTCEECSHH CS
             2-Hacid_dh_C   1 lalllallrrlaeadeevregewksekallgkelsgktvGiiGlGrIGqavakrlkafgmkviaydrskkkeeeeeelgvelvsle 86 
                              +al+l+l+r++++a+++vreg++ s + l g +l++ktvGi+G+G+IG+ +ak+l++fg++++a d+ +++       gv++vs++
  PHY93_03210|PHY93_03210 110 IALILSLNRNIHRAYNRVREGNF-SLDGLVGFDLNKKTVGIVGTGKIGSVMAKILSGFGCQILACDQMQNPA--LVMAGVQYVSFD 192
                              689********************.99******************************************8865..57779******* PP

                              HHHHH-SEEEE-S--STTTTTSBSHHHHHCSTTTEEEEESS-GGGB-HHHHHHHHHTTSCCEEEES--SSS..........SSGTC CS
             2-Hacid_dh_C  87 ellaesDivslhlpltpetrhlinaeelakmkkgailiNtaRGglvdeeaLleaLksgkiagaalDvfeee..........plped 162
                              ell++sDi+slh+pltpetr lin ++la+mk g++liNt+RG+l+d++aL++ Lksg+i++a+lDv+eee          ++ +d
  PHY93_03210|PHY93_03210 193 ELLKKSDIISLHVPLTPETRYLINGKALASMKAGVMLINTGRGALIDTQALIQYLKSGHIGYAGLDVYEEEegiffenlsdQILQD 278
                              *****************************************************************************999944444 PP

                              ...HHHHHSTTEEE-SS-T CS
             2-Hacid_dh_C 163 ...spllelpnviltPHia 178
                                  +ll++pnv+lt+H a
  PHY93_03210|PHY93_03210 279 dqlARLLTFPNVLLTSHQA 297
                              122477***********87 PP

>> 2-Hacid_dh  D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.9   0.0   6.6e-28   9.1e-25      17     133 ..      18     328 ..       3     329 .. 0.95

  Alignments for each domain:
  == domain 1  score: 86.9 bits;  conditional E-value: 6.6e-28
                              H.....TTEEEEEESCSSHHHCHHHHTTESEEEE-TTS-BSHHHHHHH..TT--EEEESSSSCTTB-HHHHHHTT-EEEE-TTTTH CS
                              x.....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
               2-Hacid_dh  17 e.....egvevevkdellteellekakdadalivrsntkvtaevleal..pkLkviaragvGvDnvDldaakerGilVtnvpgyst 95 
                              +     ++ e+++ ++ lte+++  a+ + +++ ++n++++ ++ +    ++ ++ia++++G+++vDl+ a+ + +++++vp+ys+
  PHY93_03210|PHY93_03210  18 KenkiyNH-EITFFETRLTEQTANLAASYPCVCAFVNDRLDSKTQQIIsaSGTRLIALRSAGFNHVDLESAQDLDLKIVRVPEYSP 102
                              33655344.99***************************999988776666************************************ PP

                              HHHHHHH............................................................................... CS
                              xxxxxxx............................................................................... RF
               2-Hacid_dh  96 esvAElt............................................................................... 102
                               +vAE++                                                                               
  PHY93_03210|PHY93_03210 103 YAVAEYAialilslnrnihraynrvregnfsldglvgfdlnkktvgivgtgkigsvmakilsgfgcqilacdqmqnpalvmagvqy 188
                              ************************************************************************************** PP

                              ...................................................................................... CS
                              ...................................................................................... RF
               2-Hacid_dh 103 ...................................................................................... 102
                                                                                                                    
  PHY93_03210|PHY93_03210 189 vsfdellkksdiislhvpltpetrylingkalasmkagvmlintgrgalidtqaliqylksghigyagldvyeeeegiffenlsdq 274
                              ************************************************************************************** PP

                              .......................T-BHHHHHHHHHHHHHHHHHHHTTCCGTTBC CS
                              .......................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
               2-Hacid_dh 103 .......................aaTeeaqeniaeeaaenlvaflkgespanav 133
                                                     ++Teea+ nia++++en+++f kg+++ n+v
  PHY93_03210|PHY93_03210 275 ilqddqlarlltfpnvlltshqaFLTEEALGNIARTTLENITDFEKGNNLSNEV 328
                              ************************************************999987 PP

>> NAD_binding_2  NAD binding domain of 6-phosphogluconate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.2   0.1   1.5e-10   2.1e-07       1     113 [.     146     256 ..     146     266 .. 0.89

  Alignments for each domain:
  == domain 1  score: 31.2 bits;  conditional E-value: 1.5e-10
                              EEEEE--SHHHHHHHHHHHHTT-EEEEE-SSHHHHHHHHHTTEEE-SSHHHHHHHCSEEEE-SSSHHHHHHHHHS.HCCC--TT-E CS
            NAD_binding_2   1 kigfiGlGvMGsnmalnllkagykvavynrtkekveelvaegakaaesieelvasldvvitmvkagkavdevieg.llealkkgdi 85 
                              ++g++G+G++Gs ma+ l   g+++ + +  ++   +lv +g+  + s  el+++ d++ + v+ +++++ +i+g  l+++k+g +
  PHY93_03210|PHY93_03210 146 TVGIVGTGKIGSVMAKILSGFGCQILACDQMQNP--ALVMAGV-QYVSFDELLKKSDIISLHVPLTPETRYLINGkALASMKAGVM 228
                              58***************************87554..5666677.4567899*************************99******** PP

                              EEE-S---HHHHHHHHHHHHHTT-EEEE CS
            NAD_binding_2  86 lidgstsspedtrelakelkekglkfld 113
                              li+++  +  dt+ l ++lk+  + + +
  PHY93_03210|PHY93_03210 229 LINTGRGALIDTQALIQYLKSGHIGYAG 256
                              *******************998877655 PP

>> AdoHcyase_NAD  S-adenosyl-L-homocysteine hydrolase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.8   0.2   4.6e-07   0.00063      22     124 ..     143     246 ..     135     268 .. 0.83

  Alignments for each domain:
  == domain 1  score: 19.8 bits;  conditional E-value: 4.6e-07
                              TTSEEEEE--SHHHHHHHHHHHHCT-EEEEE-S-HHHHHHHHCTT-EE--HHHCTTT-SEE...EE.-SSSSSSB-HHHHCCS-TT CS
            AdoHcyase_NAD  22 aGkvavvaGyGdvGkGcaaslkglGarvivtevdPicalqaameGfevvtleevvkkadiv...vt.ttGnkdiitlehlkkmkdd 103
                                k++ ++G G +G   a+ l g+G++++    d +     +m G + v ++e++kk+di+   v  t  ++ +i+ + l++mk  
  PHY93_03210|PHY93_03210 143 NKKTVGIVGTGKIGSVMAKILSGFGCQILA--CDQMQNPALVMAGVQYVSFDELLKKSDIIslhVPlTPETRYLINGKALASMKAG 226
                              568999********************9876..5777777779*****************98444442446789************* PP

                              EEEEE-SSTTTTBTHHHHHTT CS
            AdoHcyase_NAD 104 aivcniGhfdseidvaalean 124
                              +++ n G     id++al ++
  PHY93_03210|PHY93_03210 227 VMLINTGRGA-LIDTQALIQY 246
                              ******9854.4777776655 PP

>> Rossmann-like  Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.4   0.0   5.2e-07   0.00072      11     104 ..     145     233 ..     141     253 .. 0.86

  Alignments for each domain:
  == domain 1  score: 19.4 bits;  conditional E-value: 5.2e-07
            Rossmann-like  11 lsvGiisaGrvGtalgaaleraghvvvgisaisaasreraerrlPdvpvlevedvaaraellllavP.daelpglvkglaatgavr 95 
                               +vGi+++G++G+++++ l + g ++ ++  + +         + +v+ ++ +++ ++++++ l vP  +e   l++g a + +++
  PHY93_03210|PHY93_03210 145 KTVGIVGTGKIGSVMAKILSGFGCQILACDQMQNP-----ALVMAGVQYVSFDELLKKSDIISLHVPlTPETRYLINGKALA-SMK 224
                              57*************************99877554.....45677999*******************557999999999988.899 PP

            Rossmann-like  96 aGtivahts 104
                              aG +++ t 
  PHY93_03210|PHY93_03210 225 AGVMLINTG 233
                              999888775 PP

>> IlvN  Acetohydroxy acid isomeroreductase, NADPH-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.0   2.3e-06    0.0032       2      88 ..     142     226 ..     141     241 .. 0.80

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 2.3e-06
                              HHTS-EEEES-SHHHHHHHHHHHHTT--EEEEE-TT-HHHHHHHHTT-EEEEHHHHHHT-SEEEE-S-HHHH.HHHHHHHTGGG-- CS
                     IlvN   2 lkgkkiaviGyGsqGhaqalnlrdsgldvvvglregsksvkkAkeegfevltvaeavkkadvvmiliPDelq.kevyeeeiepnlk 86 
                              l++k++ ++G G  G + a+ l   g+++    + ++        +g++ ++ +e+ kk+d++ + +P + + + +++ +   ++k
  PHY93_03210|PHY93_03210 142 LNKKTVGIVGTGKIGSVMAKILSGFGCQILACDQMQNPA---LVMAGVQYVSFDELLKKSDIISLHVPLTPEtRYLINGKALASMK 224
                              789*************************99887777744...45679******************999654313455555555555 PP

                              TT CS
                     IlvN  87 eg 88 
                              +g
  PHY93_03210|PHY93_03210 225 AG 226
                              55 PP

>> ThiF  ThiF family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.6   1.2   9.2e-05      0.13      16      43 ..     142     169 ..     135     177 .. 0.91
   2 ?    1.4   0.0      0.12   1.7e+02     103     141 ..     191     233 ..     173     256 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 9.2e-05
                              HHTSEEEEE--SHHHHHHHHHHHHHTTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     ThiF  16 LrdskvllvGaGglGsellknLalsGvg 43 
                              L++++v +vG G +Gs ++k L + G++
  PHY93_03210|PHY93_03210 142 LNKKTVGIVGTGKIGSVMAKILSGFGCQ 169
                              78899*********************97 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.12
                              -HHHHTT-SEEEEESSS.HHHHHHHHHHHH...HHT-EEEEEE CS
                              xxxxxxxxxxxxxxxxx.xxxxxxxxxxxx...xxxxxxxxxx RF
                     ThiF 103 leellesvDlVvdalDn.iearrlvnracv...kkgiplieag 141
                               +ell++ D++ + +    e+r+l+n ++    k g+ li++g
  PHY93_03210|PHY93_03210 191 FDELLKKSDIISLHVPLtPETRYLINGKALasmKAGVMLINTG 233
                              5799999999988765439*********997777777788754 PP

>> XdhC_C  XdhC Rossmann domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       3.9   5.4e+03      11      35 ..      36      60 ..      29     109 .. 0.68
   2 !   15.3   0.0   1.5e-05     0.021       3     101 ..     149     284 ..     147     288 .. 0.76

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 3.9
                             HHHHHHHHHHTEEEEEEES-GGGG- CS
                   XdhC_C 11 qalarlaaalgfrvtvvdpreefat 35
                             ++ a+laa+ ++ +  v++r + +t
  PHY93_03210|PHY93_03210 36 EQTANLAASYPCVCAFVNDRLDSKT 60
                             5667777777777777777765332 PP

  == domain 2  score: 15.3 bits;  conditional E-value: 1.5e-05
                              EE--STTHHHHHHHHHHHTEEEEEEES-GGGG............................-GGG-TT-SE...............- CS
                   XdhC_C   3 ifGaghvaqalarlaaalgfrvtvvdpreefa............................tkerfpeade...............t 45 
                              i+G g+++  +a++++ +g+++  +d+ ++ a                                     e                
  PHY93_03210|PHY93_03210 149 IVGTGKIGSVMAKILSGFGCQILACDQMQNPAlvmagvqyvsfdellkksdiislhvpltP--------EtrylingkalasmkaG 226
                              9***************************976778888877776666666666555444440........05555556666666655 PP

                              EEEE--.S-HHHHHHHHHHHSS.S--SEEEESS-HHHHHHHCTTS.--.......TTE CS
                   XdhC_C  46 avvvlt.hdhklDaealeaalr.kkaayigllGSrkkaarrlerlraaglseeelarl 101
                              ++++ t ++  +D++al + l+ ++++y gl   ++    ++e+l+++ l++++larl
  PHY93_03210|PHY93_03210 227 VMLINTgRGALIDTQALIQYLKsGHIGYAGLDVYEEEEGIFFENLSDQILQDDQLARL 284
                              555544266689*********8555889999999999999999999999999999997 PP

>> Shikimate_DH  Shikimate / quinate 5-dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   5.4e-05     0.075       9      39 ..     141     170 ..     135     226 .. 0.80

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 5.4e-05
                              ..TT-EEEEES-SHHHHHHHHHHHCCT-CEE CS
             Shikimate_DH   9 slkekkvlliGaGemaelvakhLlakgvkkv 39 
                              +l++k+v ++G+G++++ +ak L+  g++ +
  PHY93_03210|PHY93_03210 141 DLNKKTVGIVGTGKIGSVMAKILSGFGCQ-I 170
                              699**********************9999.3 PP

>> F420_oxidored  NADP oxidoreductase coenzyme F420-dependent
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.0       1.8   2.6e+03      22      47 ..      20      46 ..      14      68 .. 0.71
   2 ?   12.1   0.1   0.00016      0.22       1      71 [.     146     207 ..     146     231 .. 0.84

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 1.8
                             TS.-GGCEEEEEESSCCCHHHHHHHHC CS
            F420_oxidored 22 ga.qpheivvansrnpekaeelaeelg 47
                             ++  +hei++  +r  e+ + la+++ 
  PHY93_03210|PHY93_03210 20 NKiYNHEITFFETRLTEQTANLAASYP 46
                             445678888888888888888888875 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 0.00016
                              EEEEETTSHHHHHHHHHHHHTTS-GGCEEEEEESSCCCHHHHHHHHC-EEECECHHHHHHH-SEEEE-S-H CS
            F420_oxidored   1 kigiiGaGnmgealasgllaagaqpheivvansrnpekaeelaeelgvkvtavdneeaaeeadvvvlavkp 71 
                              ++gi+G+G++g+ +a+ l+  g    +i+ a++++++ a  +a     +v+ v+  e+++++d++ l v+ 
  PHY93_03210|PHY93_03210 146 TVGIVGTGKIGSVMAKILSGFG---CQIL-ACDQMQNPALVMA-----GVQYVSFDELLKKSDIISLHVPL 207
                              58********************...99*9.9999998775553.....35555678888888888887775 PP

>> UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   1.0   0.00021      0.29       2      32 ..     146     176 ..     145     184 .. 0.92

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00021
                              EEEEE--STTHHHHHHHHHHCTSEEEEE-S- CS
           UDPG_MGDP_dh_N   2 kisviGlGYvGlvtaavlaeighevigvDid 32 
                              ++ ++G+G +G v+a +l+  g +++ +D  
  PHY93_03210|PHY93_03210 146 TVGIVGTGKIGSVMAKILSGFGCQILACDQM 176
                              699*************************975 PP

>> Pyr_redox  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.1   0.00018      0.25       2      30 ..     147     175 ..     146     184 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00018
                              EEEECSSHHHHHHHHHHHHTTSEEEEEES CS
                Pyr_redox   2 vvvvGgGyiglElAgalaelgkkVtvver 30 
                              v +vG G ig  +A++l+ +g+++  ++ 
  PHY93_03210|PHY93_03210 147 VGIVGTGKIGSVMAKILSGFGCQILACDQ 175
                              779*******************9876665 PP

>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.2   0.00019      0.26       1      33 [.     146     178 ..     146     201 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00019
                              EEEEE--SCCHHHHHHHHHHTT-EEEEE-S-HH CS
                  3HCDH_N   1 kvaviGaGtmGagiaavfasagleVvlvdisee 33 
                              +v+++G+G +G+ +a+++   g+++  +d  ++
  PHY93_03210|PHY93_03210 146 TVGIVGTGKIGSVMAKILSGFGCQILACDQMQN 178
                              69*************************998654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (334 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       495  (0.0276089); expected 358.6 (0.02)
Passed bias filter:                      447  (0.0249317); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.60u 0.26s 00:00:00.86 Elapsed: 00:00:00.46
# Mc/sec: 2201.93
//
Query:       PHY93_03215|PHY93_03215  [L=305]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.8e-35  122.8   0.0    2.1e-35  122.6   0.0    1.0  1  Arginase  Arginase family


Domain annotation for each model (and alignments):
>> Arginase  Arginase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  122.6   0.0   1.2e-39   2.1e-35      14     277 ..      43     300 ..      27     302 .. 0.75

  Alignments for each domain:
  == domain 1  score: 122.6 bits;  conditional E-value: 1.2e-39
                              TSSSGGGGGHHHHHHHHHHTSBTHCHEETTTTESCCSEEEEEEEEE--S.SCHHHHHHHHHHHHHHHHHTTCEEEEEESSGGGHHH CS
                 Arginase  14 gsgrpGarfGPraireasarleealeynlelgvleelkivdlgdvavtp.vdneevleqieeavaeilkagklpivlGGDHsialg 98 
                              + gr+G+ f+P+ai++  ++++     nl l+  ++++++d +d ++++  +++++ ++i++ + ++ ++ +  + lGG+H   ++
  PHY93_03215|PHY93_03215  43 NLGRRGSLFAPEAILAIIKNFAC---HNL-LK-WSDVELADREDENIDFpASQNKLAQKIQKILMAA-SRTQNFVYLGGGHDYIYP 122
                              568****************9996...244.22.4569999999977765234444555555555443.346778************ PP

                              HHHHHHHHHSTTEEEEEESSS----SSCTTTBSSSTTSHHHHHHHHTSECGCEEEEEEE-STCSH..HHHHHHHTTSEEEEHHHHH CS
                 Arginase  99 ilralaekygkplgvihfDAHaDlrtpetegsgnshGtpfrraaeegllkpkklvqiGirsvdne..eyelakelgirvitmreid 182
                              +++al +   k++ vi++DAH+D+rt+     + ++Gtpfr++a e++  + +++q+Gi+++ n+   +  +   g +v+ ++e  
  PHY93_03215|PHY93_03215 123 TVSALNHF-TKKMVVINLDAHLDTRTDI----NPNSGTPFRQIA-EQFEGELEIIQLGIHDFANSisTMSNLP-NGKEVVATYEDV 201
                              *****976.678**************77....589*********.7888889*************87333333.344444444444 PP

                              HHHHHHH..HHHHHHHH.TC.TTSEEEEEEEGGGBBTTTSTSSSS-BSS-B-HHHHHHHHHHHHCHSEEEEEEEE-B-GGGSSTTT CS
                 Arginase 183 elglkav..veeilerv.ga.eedpvylSfDiDvlDpavaPGtGtpepgGltlrellallrelaeklnlvgaDvvEvnPaldteae 264
                              + g k+    +++l+rv    ++++   S+D Dvl   ++ G+++  ++Gl ++ ++++l    ++l+   + + E+nP +d+ ++
  PHY93_03215|PHY93_03215 202 RFGTKDFteTDKFLKRViPYhKDTMYVFSLDADVLESGIMEGVSAVNHRGLPYNFVEDVLLYSIDELKCQHFGIFEYNPVYDNLSQ 287
                              4444332112233333322223456667*******************************9995555******************** PP

                              HHHHHHHHHHHHH CS
                 Arginase 265 qtarlaarlvrel 277
                              + ar+ a+l++++
  PHY93_03215|PHY93_03215 288 KGARTLASLIYQI 300
                              ***********96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (305 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       464  (0.0258799); expected 358.6 (0.02)
Passed bias filter:                      413  (0.0230353); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.26s 00:00:00.80 Elapsed: 00:00:00.44
# Mc/sec: 2078.47
//
Query:       PHY93_06060|PHY93_06060  [L=405]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.087   13.0   0.2       0.59   10.4   0.1    2.2  2  VF530     DNA-binding protein VF530


Domain annotation for each model (and alignments):
>> VF530  DNA-binding protein VF530
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.1   3.3e-05      0.59      20      51 ..     180     211 ..     178     223 .. 0.90
   2 ?   -0.4   0.0     0.073   1.3e+03       5      36 ..     253     284 ..     249     299 .. 0.77

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 3.3e-05
                              HT-HHHHHHHTTSSSTTSS--HHHHHHHHHHS CS
                    VF530  20 eygweeLaerinircFksnpsikSslkFLrkt 51 
                              +yg++ +++ ++++ +k+nps +  +k Lrk 
  PHY93_06060|PHY93_06060 180 SYGFKVFKDPVSLNKWKQNPSFANDIKVLRKF 211
                              6*****************************95 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 0.073
                              TSS--HHHHHHHHHHHT-HHHHHHHTTSSSTT CS
                    VF530   5 LhGvklekileeLveeygweeLaerinircFk 36 
                              LhG  +++ + ++ ++    +++erin++   
  PHY93_06060|PHY93_06060 253 LHGNGIDEGVANIPAFIHMPKMKERINLNQQV 284
                              88888888888999999999999999998655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (405 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       762  (0.042501); expected 358.6 (0.02)
Passed bias filter:                      461  (0.0257125); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.66u 0.24s 00:00:00.90 Elapsed: 00:00:00.47
# Mc/sec: 2595.53
//
Query:       PHY93_03220|PHY93_03220  [L=509]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.1e-12   44.9   0.1    1.3e-11   44.1   0.1    1.5  1  GYF_2     GYF domain 2
  ------ inclusion threshold ------
       0.15   11.7   0.0       0.42   10.3   0.0    1.7  1  GYF       GYF domain


Domain annotation for each model (and alignments):
>> GYF_2  GYF domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.1   0.1   1.4e-15   1.3e-11       1      46 [.      27      72 ..      27      76 .. 0.95

  Alignments for each domain:
  == domain 1  score: 44.1 bits;  conditional E-value: 1.4e-15
                    GYF_2  1 WyyadngqqqGPfsleeLkelaasgeitpdtlVWreGmddWkpase 46
                             W++ +     GPfs+ee++e+++  ei+++tl+W+eG ++W ++s 
  PHY93_03220|PHY93_03220 27 WFVFKSTHHLGPFSIEEMEEFYRTQEINAQTLIWKEGAEKWEALSK 72
                             9*****************************************9986 PP

>> GYF  GYF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0   4.7e-05      0.42      12      44 ..      37      69 ..      30      70 .. 0.91

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 4.7e-05
                      GYF 12 GPFsseeMqkWykagYFkdgllvrrvedsefys 44
                             GPFs eeM + y+    + + l+++++ ++++ 
  PHY93_03220|PHY93_03220 37 GPFSIEEMEEFYRTQEINAQTLIWKEGAEKWEA 69
                             **************************9999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (509 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1003  (0.0559429); expected 358.6 (0.02)
Passed bias filter:                      531  (0.0296168); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.65u 0.28s 00:00:00.93 Elapsed: 00:00:00.46
# Mc/sec: 3333.37
//
Query:       PHY93_03225|PHY93_03225  [L=514]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      0.003   17.7   0.0     0.0067   16.6   0.0    1.5  1  CaM-KIIN  Calcium/calmodulin-dependent protein kinase II inhi


Domain annotation for each model (and alignments):
>> CaM-KIIN  Calcium/calmodulin-dependent protein kinase II inhibitor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   3.7e-07    0.0067      30      76 ..     115     161 ..     104     163 .. 0.89

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 3.7e-07
                 CaM-KIIN  30 LqdtnsffaasqakrpPklgqigrakrvvieddriddvLkgmtdkss 76 
                              L  ++sf +a+ + r  k+g i  akr v + d+i+ +L+++td  s
  PHY93_03225|PHY93_03225 115 LVAATSFSGAKSDIRYSKFGNIVTAKRYVRDGDNINKILQNTTDSIS 161
                              566789999999*******************************9765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (514 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       512  (0.0285571); expected 358.6 (0.02)
Passed bias filter:                      486  (0.0271069); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.62u 0.26s 00:00:00.88 Elapsed: 00:00:00.44
# Mc/sec: 3542.13
//
Query:       PHY93_03230|PHY93_03230  [L=289]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.3e-14   54.7   3.6    2.3e-14   53.9   3.6    1.4  1  Lactamase_B    Metallo-beta-lactamase superfamily
    0.00026   20.6   0.1    0.00079   19.0   0.1    1.8  2  Lactamase_B_2  Beta-lactamase superfamily domain


Domain annotation for each model (and alignments):
>> Lactamase_B  Metallo-beta-lactamase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.9   3.6   2.6e-18   2.3e-14      10     197 .]      50     255 ..      48     255 .. 0.80

  Alignments for each domain:
  == domain 1  score: 53.9 bits;  conditional E-value: 2.6e-18
                              EEEETTCEEEES--SCHHHHHHHH..............HHHHHTSGGGGEEEEE-SBSSHHHHTTGGGCTTHHCCEETCCEHHHHC CS
              Lactamase_B  10 liegdggviLiDtGtsteaaraal..............elaalglkpkdvdavilTHlHlDHiGglgglveatdvpvgavaeeapa 81 
                              +i  ++++iLiDtG++   + +++              +la + l+p ++++++++HlH+DH+Gg g+ v+    pv + a ++ +
  PHY93_03230|PHY93_03230  50 VIKSGERNILIDTGIGDYHGEKFDqrfavvggisplekALAEINLGPSEITDLVISHLHFDHVGGIGKMVDGKMEPVLKKAMVHLH 135
                              7889*******************************************************************888777777666666 PP

                              CHCHHHHHHHHHCCHH...........TTCHCGCCEEEEETTTEECCCTEEEEEHECTTSTSCCEEEEEETTCCEEEECTTTSSHH CS
              Lactamase_B  82 lfmeeaddaasrkgll...........lagvsadkpdvdeeeldgnaggrralyvtggpghghghgvveygggkvlftGDallage 156
                              +++ e    +s    +           ++  ++    ++++  dg +g+++ +  + +   gh+++  ++ ++k++++ D++++ +
  PHY93_03230|PHY93_03230 136 HKHYEYSHHPS----ErdsgsfhfeyfKPVLDWYETHNQLHFVDGMEGEILPGLEFKC-SMGHTPYLMHAYDDKFIYMADLIPTSN 216
                              66666633333....2234467895555555555555555555555555555555554.57999********************** PP

                              CCCCCC.TTCEEE-SHCHHHHHHHHHHHHHHHCHSEEEESS CS
              Lactamase_B 157 tgridltlrgaevrdpsdaekyldsllklaglkaevlvpgH 197
                              +++i++   +++++ p++ +   + +l+ ++ k+ ++++ H
  PHY93_03230|PHY93_03230 217 HVSIPW--VMGYDISPGITTIDKKHFLQFINEKNLIMIFEH 255
                              ******..999999999999999988888888888887766 PP

>> Lactamase_B_2  Beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.0   0.1   8.8e-08   0.00079       1      67 [.      56     133 ..      56     176 .. 0.76
   2 ?   -1.4   0.0      0.16   1.4e+03      70     115 ..     201     242 ..     185     262 .. 0.76

  Alignments for each domain:
  == domain 1  score: 19.0 bits;  conditional E-value: 8.8e-08
                              SEEEES--TT............HHHHHTCGGS--S.SS--..SEEEEE-SS--HHHHGGGGCCCCC--EEEEEEEEHHHH CS
            Lactamase_B_2   1 rriLiDagpd............lrqqalralqPve.lrdelppidaVllthaHyDHlaglltlrelrpkklplyapkgvl 67 
                              r+iLiD+g +            +++  +++ +  +     +++i  ++++h H+DH+ g+  +  ++ +  p++ +++v+
  PHY93_03230|PHY93_03230  56 RNILIDTGIGdyhgekfdqrfaVVGGISPLEKALAeINLGPSEITDLVISHLHFDHVGGIGKMVDGKME--PVLKKAMVH 133
                              89**************999987555555555333445666789*****************999984332..444444444 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.16
                              CCTTCGHHHCHTTTTEEEEEE-TTSEEEECSTTEEEEEEEE-EE-- CS
            Lactamase_B_2  70 leanfvylaleeepavnvheldwgesfelgdggleitatparhksg 115
                               +++f+y a+  + + n++ + w +  ++  +g  it++  +h+ +
  PHY93_03230|PHY93_03230 201 YDDKFIYMADLIP-TSNHVSIPWVMGYDIS-PG--ITTIDKKHFLQ 242
                              5566777777777.8899999999999997.46..88888888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (289 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       288  (0.0160634); expected 358.6 (0.02)
Passed bias filter:                      249  (0.0138881); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.25s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1875.60
//
Query:       PHY93_03235|PHY93_03235  [L=386]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.9e-78  262.7   0.4      3e-78  262.0   0.4    1.3  1  ATP-grasp_2  ATP-grasp domain
      1e-24   87.1   2.3      1e-24   87.1   2.3    1.6  2  Ligase_CoA   CoA-ligase
    4.4e-12   45.9   0.1    9.4e-12   44.9   0.1    1.5  1  ATP-grasp_5  ATP-grasp domain
    0.00011   22.1   0.1     0.0002   21.2   0.1    1.4  1  GARS_A       Phosphoribosylglycinamide synthetase, ATP-grasp 
  ------ inclusion threshold ------
      0.097   12.7   0.1       0.27   11.3   0.0    1.8  2  CIDE-N       CIDE-N domain


Domain annotation for each model (and alignments):
>> ATP-grasp_2  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  262.0   0.4   8.5e-82     3e-78       1     201 [.       2     202 ..       2     203 .. 0.99

  Alignments for each domain:
  == domain 1  score: 262.0 bits;  conditional E-value: 8.5e-82
                              BE-HHHHHHHHHCTT----SEEEESSHHHHHHHHHHHTSSSEEEEE--SSSTCCCTTCEEEESSHHHHHHHHHCCTTSEEE-TTS- CS
              ATP-grasp_2   1 nlhEyqakeilakygvkvpegevaesaeeaeeaakklgekelvvKaQvlaGGRGKagGvklvkskeeakeaakellgkelvtkqtg 86 
                              n+hEyqake+++k+g+kv +g+va++a+ea eaakklg++ +vvKaQ++aGGRGK+gGvkl+ks +e+k++a+e+lg++lvt+qtg
  PHY93_03235|PHY93_03235   2 NVHEYQAKELMRKFGIKVLNGHVAKTADEAVEAAKKLGGNIWVVKAQIHAGGRGKGGGVKLAKSLDEVKKIASEILGMTLVTHQTG 87 
                              69************************************************************************************ PP

                              TT-EEE--EEEEE---ECEEEEEEEEEETTTTEEEEEEESSTTS-HHHHHHH-GGGEEEEEEBTTTB--HHHHHHHHHHCT--CHH CS
              ATP-grasp_2  87 keGkkvekvlveealdikkElYlsivlDraskkvvviaSseGGvdiEevaakkPekiikvaidpakglkeeqareiakklglekel 172
                              +eGk v+++l+ee + i++E+Y+++vl r++++v++++S+eGG+diE+va+++Pekiikva+dpa+g +++  r ia +lgl+ke+
  PHY93_03235|PHY93_03235  88 PEGKLVHTLLIEEGCLIDHEYYVGLVLNRDTSMVTFMVSTEGGMDIEHVAETTPEKIIKVAVDPATGYRPYIGRVIAYALGLPKEQ 173
                              ************************************************************************************** PP

                              HHHHHHHHHHHHHHHHHTTEEEEEEEEEE CS
              ATP-grasp_2 173 vkkaakiikklyklfveldatlvEiNPLv 201
                               k+++++ + ly+l+++ d++++EiNPLv
  PHY93_03235|PHY93_03235 174 HKEISSFCEGLYNLYMANDCSIAEINPLV 202
                              ****************************9 PP

>> Ligase_CoA  CoA-ligase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.8   0.0       2.9     1e+04      88     102 ..      24      38 ..      18      45 .. 0.58
   2 !   87.1   2.3   2.8e-28     1e-24       1     152 [.     262     381 ..     262     382 .. 0.98

  Alignments for each domain:
  == domain 1  score: -3.8 bits;  conditional E-value: 2.9
                              HHHHHHHHHHHHHHT CS
               Ligase_CoA  88 hedpaaellkaikea 102
                               ++ a+e ++a+k++
  PHY93_03235|PHY93_03235  24 VAKTADEAVEAAKKL 38 
                              344555555555554 PP

  == domain 2  score: 87.1 bits;  conditional E-value: 2.8e-28
                              EESSHHHHHHHHHHHHHT..............T--BSEEEE-TSS--..........HHHHHHHHHHHHS-TT-SEEEEEEEESSS CS
               Ligase_CoA   1 lvnGGtLayeamdlikealgdvasnkklknvlgseqheiidlGddaftkGrpHPmiDptkriealkklaadpevkvilldivlGyg 86 
                              lvnG++La+ +md+i+++              g+ +++++d+G++a+          ++++ +a+ ++++d++vk+il++i++G++
  PHY93_03235|PHY93_03235 262 LVNGAGLAMGTMDIIQLE--------------GGSPANFLDVGGGAT----------KEAVEKAFSIILSDKNVKGILVNIFGGIM 323
                              79****************..............***************..........9**************************** PP

                              EHHHHHHHHHHHHHHTT...--S-EEEEEECTTHH.....HHHHHHHTTTSSEEE-SSHHHHHHHH CS
               Ligase_CoA  87 ahedpaaellkaikeakaegrelpvvarvaGteadpqelseqakaleeagveiasskaqalraaka 152
                              +++ +a+++++a+k++     ++p+v+r++Gt++d      ++k l+e+g++i+++++  ++a+k 
  PHY93_03235|PHY93_03235 324 KCDIIAEGIIAAAKSLG---VTVPLVVRLEGTNVD-----LGKKLLNESGLKITAANDLGDAAKKI 381
                              ****************7...***************.....9*****************99999886 PP

>> ATP-grasp_5  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.9   0.1   2.6e-15   9.4e-12      11     220 ..       4     216 ..       2     218 .. 0.75

  Alignments for each domain:
  == domain 1  score: 44.9 bits;  conditional E-value: 2.6e-15
              ATP-grasp_5  11 teaeakelleaygipvvetrlassaeeaveaaeeigyp.vvlKivspdilhKtdvgGvrlnlkdaeevraaaeeilerv...keks 92 
                               e++akel++ +gi+v++ ++a++a+eaveaa+++g    v+K ++ +   + + gGv+l  k+ +ev++ a+eil      +++ 
  PHY93_03235|PHY93_03235   4 HEYQAKELMRKFGIKVLNGHVAKTADEAVEAAKKLGGNiWVVKAQI-HAGGRGKGGGVKL-AKSLDEVKKIASEILGMTlvtHQTG 87 
                              699********************************99967888876.46789999****9.6777777777777766540004444 PP

              ATP-grasp_5  93 pear.iegvlVqemakr.ggrElivgvteDpvFGpvilfGlGGtavevlkdv......avalpplnstlareliertkaskllkgv 170
                              pe + ++ +l++e     +++ + + +++D++    ++  +GG+ +e ++++      +va+ p   t +r  i r+ a+ l  g 
  PHY93_03235|PHY93_03235  88 PEGKlVHTLLIEEGCLIdHEYYVGLVLNRDTSMVTFMVSTEGGMDIEHVAETtpekiiKVAVDP--ATGYRPYIGRVIAYAL--GL 169
                              4433134444555544244555555579**********************99776644444444..5668899999988776..55 PP

              ATP-grasp_5 171 rgekkadlaaleellvrlsqLvvdlpeIreldinPllveeeg.vvalDari 220
                               +e+ +++++++e l +l  ++ d + I   +inPl+ +++g v+alDa++
  PHY93_03235|PHY93_03235 170 PKEQHKEISSFCEGLYNL-YMAND-CSI--AEINPLVTTKDGkVLALDAKL 216
                              555569999999999998.57777.556..579*******999******87 PP

>> GARS_A  Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.2   0.1   5.6e-08    0.0002       6      73 ..       8      79 ..       4     118 .. 0.84

  Alignments for each domain:
  == domain 1  score: 21.2 bits;  conditional E-value: 5.6e-08
                             HHHHHHHTT--B--EEEESSHHHHHHHHHHHSSSEEEEEESC-GGGT....-EEEESSHHHHHHHHHHHCTS CS
                   GARS_A  6 akdllkkagiptaeyeaftdpeeakeyieeatakalVvKadglaagK....gvivakseeealkavkeilek 73
                             ak+l++k gi+  + ++ + ++ea e  ++++ +++VvKa+  a+g+    gv++aks +e  k+++eil  
  PHY93_03235|PHY93_03235  8 AKELMRKFGIKVLNGHVAKTADEAVEAAKKLGGNIWVVKAQIHAGGRgkggGVKLAKSLDEVKKIASEILGM 79
                             79**************************************9888865333369***************9853 PP

>> CIDE-N  CIDE-N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   7.6e-05      0.27      18      68 ..      62     121 ..      48     129 .. 0.83
   2 ?   -3.4   0.0       2.8     1e+04      41      53 ..     343     355 ..     334     356 .. 0.66

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 7.6e-05
                              EESSHHHHHHHHHHHCT-S.........STT-EEEETTTT-EE.SCCCC.CCS-TTEEEE CS
                   CIDE-N  18 aakslkeLlekgaeklkls........sseevtlvLeeDGTeVddeeyF.qtLpdnTelm 68 
                               aksl+e+++ ++e l+++        + + v+  L e G+ +d e y    L+++T ++
  PHY93_03235|PHY93_03235  62 LAKSLDEVKKIASEILGMTlvthqtgpEGKLVHTLLIEEGCLIDHEYYVgLVLNRDTSMV 121
                              59*********************99998899999999******88888633567777665 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 2.8
                              -EEEETTTT-EE. CS
                   CIDE-N  41 vtlvLeeDGTeVd 53 
                              v lv+   GT Vd
  PHY93_03235|PHY93_03235 343 VPLVVRLEGTNVD 355
                              4566666699996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (386 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       519  (0.0289475); expected 358.6 (0.02)
Passed bias filter:                      430  (0.0239835); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.61u 0.24s 00:00:00.85 Elapsed: 00:00:00.47
# Mc/sec: 2456.43
//
Query:       PHY93_03240|PHY93_03240  [L=289]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.8e-26   92.7   0.8    5.3e-26   91.1   0.5    1.9  2  CoA_binding    CoA binding domain
    7.6e-18   64.8   0.2    1.1e-17   64.2   0.2    1.3  1  Ligase_CoA     CoA-ligase
    3.3e-12   46.4   0.0    4.8e-12   45.8   0.0    1.3  1  Succ_CoA_lig   Succinyl-CoA ligase like flavodoxin domain
  ------ inclusion threshold ------
      0.019   15.4   0.0      0.041   14.4   0.0    1.6  1  CoA_binding_2  CoA binding domain


Domain annotation for each model (and alignments):
>> CoA_binding  CoA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   91.1   0.5   1.2e-29   5.3e-26       1      96 []       6      99 ..       6      99 .. 0.98
   2 ?   -1.7   0.0       1.1     5e+03      71      91 ..     154     174 ..     144     196 .. 0.62

  Alignments for each domain:
  == domain 1  score: 91.1 bits;  conditional E-value: 1.2e-29
                             CTTEEEEEETTTSHHHHHHHHHHHHHHECEEEEEEC-TTTTTCEETTEEEESCHHHHHHHCTTTEEEEES-HHHHHHHHHHHHHTT-S CS
              CoA_binding  1 dkdtkviviGagglgiaglyhfkeklkygikavfgvnprkvgtevlglpvyksvdeleektevdvavitvPaesaqeavdelveagik 88
                             d++tk i iG++g+  +g++h+     yg+k+v+gv+p+k+gt ++g pv+++v+e++e t++++a+i+vP+++a+++++e+veag++
  PHY93_03240|PHY93_03240  6 DNNTKLITIGITGK--QGTFHTLGSQAYGTKVVGGVTPGKGGTIHEGFPVFNTVREAMEATGANAAMIFVPPAFAADSILECVEAGMP 91
                             5789**********..************************************************************************ PP

                             EEEEESST CS
              CoA_binding 89 giviiteg 96
                             ++++iteg
  PHY93_03240|PHY93_03240 92 LAICITEG 99
                             ******97 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 1.1
                              -HHHHHHHHHHHHHTT-SEEE CS
              CoA_binding  71 Paesaqeavdelveagikgiv 91 
                              + +  +eav +l + gi    
  PHY93_03240|PHY93_03240 154 SGTLTYEAVFQLTQRGIGQST 174
                              444455555555555555443 PP

>> Ligase_CoA  CoA-ligase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.2   0.2   2.6e-21   1.1e-17       1     146 [.     151     265 ..     151     272 .. 0.93

  Alignments for each domain:
  == domain 1  score: 64.2 bits;  conditional E-value: 2.6e-21
                              EESSHHHHHHHHHHHHHT..............T--BSEEEE-TSS--..........HHHHHHHHHHHHS-TT-SEEEEEEEESSS CS
               Ligase_CoA   1 lvnGGtLayeamdlikealgdvasnkklknvlgseqheiidlGddaftkGrpHPmiDptkriealkklaadpevkvilldivlGyg 86 
                              ++++GtL+yea+ ++++               g +q++++++G+d  +         ++++i+ l+ + +dp ++++++ +++G g
  PHY93_03240|PHY93_03240 151 ISRSGTLTYEAVFQLTQR--------------GIGQSTCVGIGGDPVN---------GSSFIDILEMFNNDPGTEAVIMIGEIG-G 212
                              689***************..............***************8.........***************************.* PP

                              EHHHHHHHHHHHHHHTT...--S-EEEEEECTTHH.....HHHHHHHTTTSSEEE-SSHH CS
               Ligase_CoA  87 ahedpaaellkaikeakaegrelpvvarvaGteadpqelseqakaleeagveiasskaqa 146
                              ++e  aa ++k+         ++pvv+++aG++a++++++++a+a+ ++g  +a++k + 
  PHY93_03240|PHY93_03240 213 SAEVDAARWIKKNM-------KKPVVSFIAGASAPKGKRMGHAGAIISGGDDTAEAKFKI 265
                              ********998533.......479****************************99998665 PP

>> Succ_CoA_lig  Succinyl-CoA ligase like flavodoxin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.8   0.0   1.1e-15   4.8e-12       1     135 [.     145     284 ..     145     287 .. 0.82

  Alignments for each domain:
  == domain 1  score: 45.8 bits;  conditional E-value: 1.1e-15
             Succ_CoA_lig   1 pGkialisqSGalalalldwaasrglgfskvvslGn..eadvdvadlleylaedpetkvillylEsirdgrkflsaarraark..k 82 
                              pGk+++is SG+l  + + ++++rg+g s++v +G       ++ d+le++++dp t+++++  E  + ++  ++aar ++++  k
  PHY93_03240|PHY93_03240 145 PGKVGVISRSGTLTYEAVFQLTQRGIGQSTCVGIGGdpVNGSSFIDILEMFNNDPGTEAVIMIGEIGGSAE--VDAARWIKKNmkK 228
                              79********************************9843456799****************99988665544..788888887777* PP

             Succ_CoA_lig  83 pvvvlksGrseagaraaashtgalagsdavvda...afrqaGvlrvdsleelfdaa 135
                              pvv + +G s+ + +      + ++g d++ +a   +++++Gv+ ++s  el +++
  PHY93_03240|PHY93_03240 229 PVVSFIAGASAPKGKRMGHAGAIISGGDDTAEAkfkILAECGVTLARSPAELGQTL 284
                              ********987666555444466788899999833345699999999999997766 PP

>> CoA_binding_2  CoA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0   9.3e-06     0.041      34     115 ..      40     129 ..      27     130 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 9.3e-06
                              SSS-.SEE.TTEES----T......T--EEEE-S-HHHHGGGHHHHHHH--SEEEE-TT....---HHHHHHHHHTT-EEE.ES-H CS
            CoA_binding_2  34 npke.eei.lgekvyaslaed..pepvdlvdvftppeatpeivkealalgakavwlqpg....sedeeaaelaeeagirvvgdrCi 111
                              +p + ++i +g +v+ ++ e+   +   ++ +f+pp+ +++ + e++++g + +++  +        ++  ++ + + r++g++C+
  PHY93_03240|PHY93_03240  40 TPGKgGTIhEGFPVFNTVREAmeATGANAAMIFVPPAFAADSILECVEAGMPLAICITEgipiLDMVKVKGALVRSKTRLIGPNCP 125
                              5555445514699999999844678888**********************88888888778855556777778889********** PP

                              HHHH CS
            CoA_binding_2 112 lveg 115
                              +v++
  PHY93_03240|PHY93_03240 126 GVIT 129
                              *975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (289 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       260  (0.0145016); expected 358.6 (0.02)
Passed bias filter:                      226  (0.0126053); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.46
# Mc/sec: 1890.32
//
Query:       PHY93_03245|PHY93_03245  [L=138]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.2e-54  182.6   0.1    3.6e-54  182.4   0.1    1.0  1  NDK       Nucleoside diphosphate kinase


Domain annotation for each model (and alignments):
>> NDK  Nucleoside diphosphate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  182.4   0.1     2e-58   3.6e-54       1     135 []       2     136 ..       2     136 .. 0.99

  Alignments for each domain:
  == domain 1  score: 182.4 bits;  conditional E-value: 2e-58
                              EEEEEEE-HHHHHTT-HHHHHHHHHHHT-EEEEEEEECE-HHHHHHHTGGGTTSTTHHHHHHHHTSSEEEEEEEESTTHHHHHHHH CS
                      NDK   1 ertlvliKPdavkrgligeiisrleekglkivalkmlrlteeqaeehYaehkgkpffeelvefmtsgpvvalvlegedaiekvrel 86 
                              ert+++iKP+av+++ ig+iis +e++gl+i+alk+++l++e+ae +Y ehk++pff +lv fmt+gpvv++vlege+a+ek r+l
  PHY93_03245|PHY93_03245   2 ERTFSIIKPNAVADNNIGKIISLFEKEGLRIAALKLTHLSKEKAEGFYIEHKDRPFFGSLVGFMTEGPVVLMVLEGENAVEKNRKL 87 
                              89************************************************************************************ PP

                              H--SSTTTSSTTSHHHHH-SSSTT-SEEE-SSHHHHHHHHHHHSTGGGS CS
                      NDK  87 iGatnpaeaapgtiRadfgvslgeNlvHgSdseesaereiklfFkeeei 135
                              +Gatnp++a++gtiR+ +++s++ N+vHgSds+++a+rei++fF+++e+
  PHY93_03245|PHY93_03245  88 MGATNPTNAEEGTIRKLYAKSIEANAVHGSDSQAAADREINYFFDKNEV 136
                              *********************************************9985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (138 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       310  (0.0172904); expected 358.6 (0.02)
Passed bias filter:                      247  (0.0137766); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.45
# Mc/sec: 924.33
//
Query:       PHY93_03250|PHY93_03250  [L=287]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.8e-05   24.4   0.0    5.1e-05   22.9   0.0    1.7  1  Exo_endo_phos    Endonuclease/Exonuclease/phosphatase family
    0.00041   20.2   0.0     0.0011   18.8   0.0    1.7  1  Exo_endo_phos_2  Endonuclease-reverse transcriptase
  ------ inclusion threshold ------
       0.11   12.7   0.0       0.46   10.6   0.0    2.1  2  COX6C            Cytochrome c oxidase subunit VIc


Domain annotation for each model (and alignments):
>> Exo_endo_phos  Endonuclease/Exonuclease/phosphatase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.9   0.0   8.5e-09   5.1e-05      28     233 .]      73     270 ..      58     270 .. 0.70

  Alignments for each domain:
  == domain 1  score: 22.9 bits;  conditional E-value: 8.5e-09
                              HCTT.....SEEEEEEEBSCTCHHHHHHHHHTTCEEEEECCHECSSSTTSSEEEEEECSTE..EEEEEEEEEETSSSSGCEEEEEE CS
                              xxxx.....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxx RF
            Exo_endo_phos  28 ayda.....DvlgLQEvdddelsriplllalggflgasstsptgggggggnggavlsrfpl..tslfrrtfiefndlvaalrrepl 106
                               yd      D+++ QE++ ++l r+   ++   +++as ts  +++g  ++  +v+ + p+  +s+  + + e+  +v        
  PHY93_03250|PHY93_03250  73 DYDSlanqkDLVLSQEMYLNPLMRMVFSSF-PDYFYASATS--FFYGRDHDRTGVATSSPVlpFSI-DYVRTETLEPVINSP---- 150
                              44334455599999*******999988887.4444444443..67778888888888888864666.222222222222222.... PP

                              EEEEEEEEE..................CCCHHGHHHHHHHHHHHHHHHHHHHHHTTSEEEEEEE-SSSTSGGGBSCGHHHHHHCTT CS
                              xxxxxxxxx..................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Exo_endo_phos 107 aakleqlni..................ashrdhdlvrdlqllalllqvealnadrgapvivaGDfNarpsdddsrvlrtrglalap 174
                                                            +    v+      +  ++ ++ +  + p+i+aGDfN+ ++++   + +++ +    
  PHY93_03250|PHY93_03250 151 --------KitlitsypirfstkkltvVNIHGINFVDGYSYKKEMNRIYEALKKIPSPLIFAGDFNSWSDERFAILKEMGKK---- 224
                              ........134456677777799999988888888888888888899999999999***********666665555555555.... PP

                              THHSSCESCETTTTTTTTTTTEB-BEEEEEECHHHCCEEEEEEECCHHEECTSSCSSSB CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Exo_endo_phos 175 apvglyllgggptptyvtraggsrlDrilaspalalfrsgvlppplalvrrealtlSDH 233
                                  l l+     p y+ r+    lD+ +++++ + +++ v + ++         +SDH
  PHY93_03250|PHY93_03250 225 ----LRLNEAKFSPDYRMRFNKHPLDHFYYTNDIKIISAKVEDFYQ---------GSDH 270
                              ....456667777777777777777*****************9998.........5999 PP

>> Exo_endo_phos_2  Endonuclease-reverse transcriptase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.0   1.8e-07    0.0011      17     118 ..     183     273 ..     173     274 .. 0.86

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 1.8e-07
          Exo_endo_phos_2  17 lestlekllselksp..kiiilGDfNakhplWgsedtdssargeeLiefleehslsllnllksgptfkssngsstiDltltsdnla 100
                              ++++++++ ++lk+   ++i++GDfN    +W++      +r   L e+ ++  l+   + k  p+++ + +++ +D +  ++++ 
  PHY93_03250|PHY93_03250 183 YKKEMNRIYEALKKIpsPLIFAGDFN----SWSD------ERFAILKEMGKKLRLN---EAKFSPDYRMRFNKHPLDHFYYTNDIK 255
                              566677777777665679********....6988......8899*****9999999...66888999999899************* PP

          Exo_endo_phos_2 101 lskleleeedlgSDHrpi 118
                              + + + e+   gSDH+p 
  PHY93_03250|PHY93_03250 256 IISAKVEDFYQGSDHKPL 273
                              **9999999******985 PP

>> COX6C  Cytochrome c oxidase subunit VIc
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   7.7e-05      0.46      16      56 ..      36      78 ..      34      84 .. 0.85
   2 ?   -3.6   0.0       2.1   1.3e+04      44      51 ..     260     267 ..     259     270 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 7.7e-05
                    COX6C 16 krhlvvafvlslgvaaa..ykfavaepRKkayadFYknYDaek 56
                              +++++ f ls  + ++  ++++v++ +K a +dF k YD+ +
  PHY93_03250|PHY93_03250 36 NKNVILTFGLSSQASLSkrMNILVWNLHKGANDDFVKDYDSLA 78
                             5789999999998888655899******************976 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 2.1
                    COX6C  44 ayadFYkn 51 
                              + +dFY+ 
  PHY93_03250|PHY93_03250 260 KVEDFYQG 267
                              789***85 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (287 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       391  (0.0218082); expected 358.6 (0.02)
Passed bias filter:                      306  (0.0170673); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.47
# Mc/sec: 1824.08
//
Query:       PHY93_03255|PHY93_03255  [L=137]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.7e-11   44.3   0.0    2.1e-11   44.0   0.0    1.1  1  NUDIX     NUDIX domain


Domain annotation for each model (and alignments):
>> NUDIX  NUDIX domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.0   0.0   1.2e-15   2.1e-11       4     115 ..       4     126 ..       1     135 [. 0.68

  Alignments for each domain:
  == domain 1  score: 44.0 bits;  conditional E-value: 1.2e-15
                              EEEEEEEEETTSE...EEEEEESSSSTTTEESSEEECBTTSHHHHHHHHHHHHHHS..EEE.EEEEEEEEEEEEEEEEEEEEEEEE CS
                    NUDIX   4 ravgvvllnekge...vLlvrrskkpfpgWelPgGkvepgEtpeeAArREleEEtG..lea.ellellgrlhylapydgpygdehe 83 
                              + v+++++++k+    vL+  +++ p +g +++gG+ve +E++eeA++RE++EE G  ++a + l+ lg+++yl+++++    +++
  PHY93_03255|PHY93_03255   4 KKVIAYIFRTKDSraeVLVFTHRDFPEAGIQVVGGTVESNENFEEALLREIKEESGlvFKAqDILKKLGETQYLRKDMAEINHRNY 89 
                              5566666666655568888877757777799*************************544998999999988888777654443222 PP

                              EEEEEE.....EEECSGCSST..STTTEEEEEEEEHHHH CS
                    NUDIX  84 ilyvfl.....eevegelepn..denevsevrwvpleel 115
                              +   +      +++ +++  n  d   v ++ w+p+  +
  PHY93_03255|PHY93_03255  90 YE--LKggdlpDSWSHTVVSNglDNSLVFDFFWMPISLA 126
                              22..22445555555555555644444666777777666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (137 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       372  (0.0207485); expected 358.6 (0.02)
Passed bias filter:                      329  (0.0183502); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.45
# Mc/sec: 911.91
//
Query:       PHY93_03260|PHY93_03260  [L=155]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.4e-17   62.9   0.0    4.7e-17   62.5   0.0    1.2  1  CarD_CdnL_TRCF  CarD-like/TRCF domain
     0.0032   17.4   0.1     0.0075   16.2   0.0    1.7  2  Rrp44_S1        S1 domain


Domain annotation for each model (and alignments):
>> CarD_CdnL_TRCF  CarD-like/TRCF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.5   0.0   5.2e-21   4.7e-17       1      95 [.       2     108 ..       2     109 .. 0.92

  Alignments for each domain:
  == domain 1  score: 62.5 bits;  conditional E-value: 5.2e-21
           CarD_CdnL_TRCF   1 lkvGDyVvhedhGiGriegiekrevegaekeylvleyadkkgdklyvPvdqldlirkyiske.epkldklg............gkr 73 
                              +++G y v + hG+G+i +ie+rev +++k ++++++  +  ++++vP+d+   ir ++++e    + kl+            ++r
  PHY93_03260|PHY93_03260   2 FSIGAYAVCPGHGVGQICDIEEREVGSEKKTFYIIRILANG-MTVMVPTDSETGIRGLVGNEeVELVYKLLtdhdvkvdnstwNRR 86 
                              789***********************************965.******************993334455669************** PP

           CarD_CdnL_TRCF  74 wektkekakkgvkeeaaelvkl 95 
                              ++++ +k+k+g+  e+ae+++ 
  PHY93_03260|PHY93_03260  87 YREYSAKIKTGSVIEIAEVLRQ 108
                              *******************996 PP

>> Rrp44_S1  S1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0   8.4e-07    0.0075       4      34 ..      32      65 ..      29     103 .. 0.75
   2 ?   -2.1   0.0      0.44   3.9e+03      45      59 ..     133     147 ..     119     154 .. 0.68

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 8.4e-07
                             EEEEEEEESSEEEEEET...TTTEEEEEEHHHCB CS
                 Rrp44_S1  4 egyvikvfsNGvvvlvp...rfGiEglirledla 34
                             + y+i+++ NG+ v+vp     Gi gl+  e++ 
  PHY93_03260|PHY93_03260 32 TFYIIRILANGMTVMVPtdsETGIRGLVGNEEVE 65
                             569*************944458999999877664 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 0.44
                              ETTTTEEEEBBTTSS CS
                 Rrp44_S1  45 deeeykleveekkke 59 
                               ++e++l+++ +k++
  PHY93_03260|PHY93_03260 133 LAQEFSLTINLDKNS 147
                              567888888776655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (155 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       600  (0.0334653); expected 358.6 (0.02)
Passed bias filter:                      436  (0.0243181); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.26s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 1056.88
//
Query:       PHY93_03265|PHY93_03265  [L=478]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
   1.1e-115  386.2   0.0   1.8e-115  385.5   0.0    1.3  1  tRNA-synt_1e  tRNA synthetases class I (C) catalytic domain
    4.5e-15   55.3   0.1    4.2e-07   29.1   0.0    2.2  2  tRNA-synt_1g  tRNA synthetases class I (M)
    1.2e-06   27.7   0.0     0.0026   16.8   0.0    2.1  2  tRNA-synt_1f  tRNA synthetases class I (K)
    4.1e-06   27.2   0.1    1.4e-05   25.5   0.1    2.0  1  DALR_2        DALR domain
      0.004   15.5   0.0      0.036   12.3   0.0    2.2  2  tRNA-synt_1   tRNA synthetases class I (I, L, M and V)
  ------ inclusion threshold ------
      0.022   13.7   0.0        0.2   10.5   0.0    2.2  1  tRNA-synt_1c  tRNA synthetases class I (E and Q), catalytic d


Domain annotation for each model (and alignments):
>> tRNA-synt_1e  tRNA synthetases class I (C) catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  385.5   0.0  5.9e-119  1.8e-115       2     299 ..      16     313 ..      15     315 .. 0.99

  Alignments for each domain:
  == domain 1  score: 385.5 bits;  conditional E-value: 5.9e-119
                              ---SBTTEEEEEEEEEBTTS--BHHHHHHHHHHHHHHHHHHHTT-EEEEEEEBB--SHHHHHHHHHTTS-HHHHHHHHHHHHHHHH CS
             tRNA-synt_1e   2 vkpleekkvtlYvCGptvydashlGhaRslvafDilrrilqalgYdvqfvqnvtDidDkiikrareeeksvkelaekfieefkkdl 87 
                              +kp++ + +++Y+CGpt y+  h+G+aR+lv+ D+++r+l++lgY+v+fv+n tD+dDki++ a+ ++ + ke a++fi+e  kd+
  PHY93_03265|PHY93_03265  16 FKPIDPNLIKFYSCGPTTYNFLHVGNARALVVADLFHRTLKTLGYNVKFVRNYTDVDDKILEAAKLRGIHPKEHADEFIRECAKDM 101
                              6789999******************************************************************************* PP

                              HHTT----SB--BGGGGHHHHHHHHHHHHHTTSEEE-TTS-EEE-GGG-TTTTTTTT--HHHHHHT----S--S-SSTT-EEEEEE CS
             tRNA-synt_1e  88 eaLnvlkptleprvsekvdeiielvekliekgyaYavsdgdvyfdvskkeeYgklskqnleelelgaegevseekkdkkDfaLWka 173
                              e L++l++t++p vse+++eii ++e li++gyaY vs g+vy++v k+ eYgklsk  l++l++g ++ev  +kk+++Df+LWk 
  PHY93_03265|PHY93_03265 102 ECLGMLPATVTPTVSETMPEIITMIEDLIKNGYAYIVS-GEVYYNVPKFTEYGKLSKVVLDSLQHGIRVEVDGQKKHPSDFVLWKP 186
                              **************************************.*********************************************** PP

                              --TTS.--B--TTSSEEE-SSHHHHHHHHHHH-SSEEEEEEEGGGTTTHHHHHHHHHHHHSSS--EEEEEEE--EEETTBE--TTT CS
             tRNA-synt_1e 174 skege.pswdsPwgkGRPGWhieCsvmaskllgseidihsGGiDLafPhhenelaqseaafdkqlvkyflhnghlkiegekmsksL 258
                              +k++e  swdsPwgkGRPGWhieCs+ma+k lg++id+h GG+DL+fPhhene+aqseaa + ++ + + hn++l++  ekmsksL
  PHY93_03265|PHY93_03265 187 AKPSEgWSWDSPWGKGRPGWHIECSAMAKKHLGKTIDLHHGGVDLMFPHHENEIAQSEAANGCPFCHNWAHNEFLNFGSEKMSKSL 272
                              ****989******************************************************************************* PP

                              T---BHHHHHTTS-HHHHHHHHHSS-TTS-EEE-HHHHHHH CS
             tRNA-synt_1e 259 knfitikdvlkkfdprqlRllllsahyrsqldfkeelleea 299
                              +n++ti+++ ++f++++lR++lls+hyrs+ld++e+++++a
  PHY93_03265|PHY93_03265 273 GNVVTIRKFTESFSGAILRHILLSVHYRSKLDWTEDAISKA 313
                              *************************************9987 PP

>> tRNA-synt_1g  tRNA synthetases class I (M)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.1   0.0   1.4e-10   4.2e-07      13     124 ..      36     146 ..      29     180 .. 0.93
   2 !   24.1   0.0   4.4e-09   1.3e-05     288     358 ..     218     298 ..     195     315 .. 0.78

  Alignments for each domain:
  == domain 1  score: 29.1 bits;  conditional E-value: 1.4e-10
                              ---HHHHHHHHHHHHHHHHHHHTT-EEEEEEEE---SHHHHHHHHHTTS-HHHHHHHHHHHHHHHHHHTT---SEEEETTSHHHHH CS
             tRNA-synt_1g  13 klHlGhllevisaDifaRykrlrgeevlfvcgtDehGtpielkAekegvtpeelvekvheeikelfkklnisfdkygrttseehke 98 
                               lH+G+++  + aD f+R  +  g++v fv        +i  +A+ +g++p+e ++++ +e +++++ l++   + + t se+  e
  PHY93_03265|PHY93_03265  36 FLHVGNARALVVADLFHRTLKTLGYNVKFVRNYTDVDDKILEAAKLRGIHPKEHADEFIRECAKDMECLGMLPATVTPTVSETMPE 121
                              68*****************************999999**********************************************999 PP

                              HHHHHHHHHHHTT-EEEEEEEEEEET CS
             tRNA-synt_1g  99 lvqeifkklkekgliyekeieqlycp 124
                              +   +++ l ++g+ y  + e++y +
  PHY93_03265|PHY93_03265 122 IIT-MIEDLIKNGYAYIVSGEVYYNV 146
                              986.67899999*9999999999976 PP

  == domain 2  score: 24.1 bits;  conditional E-value: 4.4e-09
                              EEGGGHHHHH...THHHHHHHH.......TT----S-EEEE--EEE--------------HHHHHHHH-HHHHHHHHHHHS CS
             tRNA-synt_1g 288 igkdiikFHt...ifwPaillg.......aelklpkkvvaheyltvegkKlSkSrgvvvkakealerldadllRYylaaea 358
                              +gk i  +H    +++P   +        +++ + ++ + +e+l++  +K+SkS g+vv++++++e+++  +lR+ l++ +
  PHY93_03265|PHY93_03265 218 LGKTIDLHHGgvdLMFPHHENEiaqseaaNGCPFCHNWAHNEFLNFGSEKMSKSLGNVVTIRKFTESFSGAILRHILLSVH 298
                              666666677544467777666555555558888999***************************************999843 PP

>> tRNA-synt_1f  tRNA synthetases class I (K)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.8   0.0   0.00023      0.69      34      72 ..      34      72 ..      10      80 .. 0.90
   2 !   16.8   0.0   8.6e-07    0.0026     274     339 ..     260     324 ..     237     346 .. 0.87

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.00023
             tRNA-synt_1f 34 SGliHiGnlrevltadlvaralrkrgeevrlilisDdmD 72
                                +H+Gn+r  + adl  r l+ +g +v+++    d+D
  PHY93_03265|PHY93_03265 34 YNFLHVGNARALVVADLFHRTLKTLGYNVKFVRNYTDVD 72
                             5568*****************************999999 PP

  == domain 2  score: 16.8 bits;  conditional E-value: 8.6e-07
             tRNA-synt_1f 274 illkggekmssSkGnvltledwlevaepevlrflilrrkPkkakkldldleilrlvdeYdklerky 339
                              +l  g ekms+S Gnv+t+++ +e  +  +lr ++l+ + +++++ + d  i +++ e +++++ +
  PHY93_03265|PHY93_03265 260 FLNFGSEKMSKSLGNVVTIRKFTESFSGAILRHILLSVHYRSKLDWTED-AISKAIGEIERIHECA 324
                              4555788******************************999999999999.9999999988887655 PP

>> DALR_2  DALR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.5   0.1   4.6e-09   1.4e-05       3      57 ..     352     407 ..     351     467 .. 0.91

  Alignments for each domain:
  == domain 1  score: 25.5 bits;  conditional E-value: 4.6e-09
                              HHHHTBT--HHHHHHHHHHHHHHHHH.HHHTT-HHHHHHHHHHHHHHHGGGT-S-S CS
                   DALR_2   3 eeaMdDDFNTaeAiavlFelakeiNr.alkeedkaaasalkallrelaevLGllqe 57 
                              +e+M +DFN ++A++ +F ++k+ Nr  l + +ka  +++k+++  + +  Gl  +
  PHY93_03265|PHY93_03265 352 QEEMANDFNVPAAMGTFFGVIKDFNRrVLGDISKAYIEEVKKCFYFMRDATGLVHD 407
                              799***********************777777888888888888777777777655 PP

>> tRNA-synt_1  tRNA synthetases class I (I, L, M and V)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.0      0.05   1.5e+02      34      66 ..      33      65 ..      11      72 .. 0.86
   2 !   12.3   0.0   1.2e-05     0.036     522     600 ..     227     304 ..     207     306 .. 0.77

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.05
              tRNA-synt_1 34 vtGslHiGhalaktlkdivirykrmkGkevlyv 66
                                 lH+G+a a ++ d+  r+ +  G++v++v
  PHY93_03265|PHY93_03265 33 TYNFLHVGNARALVVADLFHRTLKTLGYNVKFV 65
                             55569*************************997 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 1.2e-05
              tRNA-synt_1 522 eGlDiirgWvarlillslaltgsePfkevlvhglvrdeeGrKmSKslgNvidpldvikkygadalRltlilsdvgrdin 600
                               G+D ++   ++ i +s a +g  Pf +   h   ++    KmSKslgNv+   +  ++ +  +lR +l++ ++ + ++
  PHY93_03265|PHY93_03265 227 GGVDLMFPHHENEIAQSEAANG-CPFCHNWAHNEFLNFGSEKMSKSLGNVVTIRKFTESFSGAILRHILLSVHYRSKLD 304
                              5666666666666665555443.577777777777777889****************************9888877665 PP

>> tRNA-synt_1c  tRNA synthetases class I (E and Q), catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   6.5e-05       0.2      45      96 ..      86     137 ..      29     141 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 6.5e-05
                              CCC--HHHHHHHHHHHHHTT---SSEEEEGGGGHHHHHHHHHHHHHTTSEEE CS
             tRNA-synt_1c  45 perekeeaeesiledlkwlgikwdekptyqsdrfdelkkyaeeLikkGkAYv 96 
                              p+ ++ e++ +  +d++ lg+ +       s+ + e+  ++e Lik+G+AY 
  PHY93_03265|PHY93_03265  86 PKEHADEFIRECAKDMECLGMLPATVTPTVSETMPEIITMIEDLIKNGYAYI 137
                              455667888888888888888886655678*********************6 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (478 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       631  (0.0351944); expected 358.6 (0.02)
Passed bias filter:                      547  (0.0305092); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.68u 0.24s 00:00:00.92 Elapsed: 00:00:00.48
# Mc/sec: 2965.32
//
Query:       PHY93_06065|PHY93_06065  [L=262]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.1e-05   24.2   0.0    2.7e-05   23.9   0.0    1.1  1  Phosphonate-bd  ABC transporter, phosphonate, periplasmic sub
    0.00022   20.7   0.1    0.00036   20.0   0.1    1.3  1  SBP_bac_3       Bacterial extracellular solute-binding protei
     0.0029   17.6   0.1     0.0041   17.1   0.1    1.2  1  NMT1            NMT1/THI5 like


Domain annotation for each model (and alignments):
>> Phosphonate-bd  ABC transporter, phosphonate, periplasmic substrate-binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.9   0.0   4.5e-09   2.7e-05      53     172 ..     118     234 ..     103     261 .. 0.72

  Alignments for each domain:
  == domain 1  score: 23.9 bits;  conditional E-value: 4.5e-09
                              EEE--HHHHHHHHHHS.-EEEEEEEEETT--SEEEEE.EEEETTSS--SHHHHGG-EEEE--TT-TTTTHHHHHHTCCCCT--HHH CS
           Phosphonate-bd  53 iaflgplayvqardqa.gveplatrvrsdGsasyrsv.iivradsdiqsledLkgktiafvspsStsGylvpaalLvkeagldped 136
                              ++++++  +++++ ++ + ep++t + ++ ++ y+ + +i++++s+iq++edL+ k+ia++  +    +l+   +L k +++++++
  PHY93_06065|PHY93_06065 118 MGMVDSTWFAKLATKNtKFEPILTASPKSDQECYSEIqVITKQNSNIQTIEDLDQKNIALTRIAMPL-SLLTFKEL-KSRNITIDQ 201
                              4555555556655554489*******8777777765448999999****************998877.55566668.788888774 PP

                              HSSEEEE--HHHHHHHHHTTSSSEEEEEHHHHHHHH CS
           Phosphonate-bd 137 dfsevfsgshdaavlavlsgdadaaavsadaledlv 172
                              +   +  +++d  v+++ sg++da + + d++ + +
  PHY93_06065|PHY93_06065 202 L---QLYNNQDWGVASLNSGKVDALVERVDVYSNNE 234
                              4...45678999999**********98888876654 PP

>> SBP_bac_3  Bacterial extracellular solute-binding proteins, family 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.0   0.1     6e-08   0.00036      84     158 ..     151     225 ..     146     232 .. 0.76

  Alignments for each domain:
  == domain 1  score: 20.0 bits;  conditional E-value: 6e-08
                              EEEEEEEEEETTSHGTCCHSSCGCGTTSEEEEETTSHHHHHHHHHHHC.....TSEEEEESSHHHHHHHHHTTSSSEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                SBP_bac_3  84 sagqvllvrkkdaskissiksladLkgkkvgvqagstaeellkeelkk.....gaeivefdtleealqaLkngrvdavva 158
                              +++++++++++  s+i++i+   dL +k ++ ++     +ll+ +  k       +++ +++++  ++ L++g+vda+v 
  PHY93_06065|PHY93_06065 151 YSEIQVITKQN--SNIQTIE---DLDQKNIALTRIAMPLSLLTFKELKsrnitIDQLQLYNNQDWGVASLNSGKVDALVE 225
                              78899999954..4555555...********99999977786664444565644455678888888***********985 PP

>> NMT1  NMT1/THI5 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.1   6.8e-07    0.0041      76     145 ..     155     224 ..     151     261 .. 0.83

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 6.8e-07
                              EEEEECCC--SSGGGGTTSEEEE-S..-TTHHHHHHHHHHHTT--GGG-EEEE-.TT-HHHHHHCTSSSEEE CS
                     NMT1  76 glivlkdsgikspkDLkGkrigyvg..spfekallkallakdggdpsdvtlvnvggtslakalltgkvDaai 145
                              ++i++++s+i++++DL+ k i+++    p +  ++k+ l++ +++ ++++l n++ + +a +l +gkvDa +
  PHY93_06065|PHY93_06065 155 QVITKQNSNIQTIEDLDQKNIALTRiaMPLSLLTFKE-LKSRNITIDQLQLYNNQDWGVA-SLNSGKVDALV 224
                              799*******************999434556666666.689999**********999997.********987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (262 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       719  (0.0401026); expected 358.6 (0.02)
Passed bias filter:                      421  (0.0234815); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.25s 00:00:00.80 Elapsed: 00:00:00.46
# Mc/sec: 1704.38
//
Query:       PHY93_03270|PHY93_03270  [L=405]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.2e-54  183.9   0.2    4.2e-54  183.5   0.2    1.1  1  Orn_Arg_deC_N    Pyridoxal-dependent decarboxylase, pyridoxal
    1.9e-26   92.1   0.0    2.2e-26   92.0   0.0    1.2  1  Orn_DAP_Arg_deC  Pyridoxal-dependent decarboxylase, C-termina
     0.0065   16.1   0.0      0.011   15.4   0.0    1.4  1  Ala_racemase_N   Alanine racemase, N-terminal domain


Domain annotation for each model (and alignments):
>> Orn_Arg_deC_N  Pyridoxal-dependent decarboxylase, pyridoxal binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  183.5   0.2   7.1e-58   4.2e-54      11     246 ..      54     297 ..      49     298 .. 0.91

  Alignments for each domain:
  == domain 1  score: 183.5 bits;  conditional E-value: 7.1e-58
                              HHHHCTCCEEEEEGGG---HHHHHHHHHTTEEEEESSHHHHHHHHHCTTTGGGEEEEESS--HHHHHHHHHCTHT...EEEESSHH CS
            Orn_Arg_deC_N  11 wkkalprikvfYavKansdlavlellaelGlgldcaSkaElelvlaagvsperiifanpckqreelryalekgvk...vvtvdnve 93 
                              +k+ +p   ++YavKan +++vl+ l++lG g d++S +El+ +++ag++p++i+f++ +k+++e+  a ++g+k    ++v++ e
  PHY93_03270|PHY93_03270  54 VKQGIPSPLICYAVKANANIEVLKRLKKLGSGADVVSVGELKKAIKAGIDPQKIVFSGVAKTESEILFAIKCGKKgiySFNVESIE 139
                              5666778899************************************************************998887779******* PP

                              HHHHHHHHHCC....EEEEEEEE-SCCSSSSTCCCSSSTTSSSSEEHCHHHHHHHHHHHHTTEEEEEEE---BSSC-SCHHHHHHH CS
            Orn_Arg_deC_N  94 eleklaklape....akvllRiktdvsaatcelistggessKFGaaleeavealleaakeenlqlvGvsfHvGSgvsdleafvkav 175
                              ele ++++a++    a+v  R +++v+a+t++ istg++ +KFG   ++ +eal   +   n  lvG+s+H+GS+++dl+a v+a+
  PHY93_03270|PHY93_03270 140 ELELINQIAKKekriARVAFRLNPQVNAKTHKHISTGNKTHKFGLLKTDILEALAVPSFWTNTILVGLSIHIGSQLTDLKATVAAI 225
                              **********999*******************************655588999999999999999****************99999 PP

                              HHHHHHHHHHHHHT---SEEE--S-BS-HCSTTSSSST..HHHHHHHHHHHHHHHHH..TSSS-EEEE--SHHHH CS
            Orn_Arg_deC_N 176 ekalklfdelaelGvklkiLdvGGGfgveyeeeeeplk..leeiaekirealeeafp..gdkevtiiaEpGRalv 246
                              +++ kl   ++e+ + l++LdvGGG+g++y+ ee +    +e+++e+i+ ale++     d+ ++i++EpGR lv
  PHY93_03270|PHY93_03270 226 KELTKL---AHEIEIPLEFLDVGGGLGIDYTVEERNKLasIEKYMETISGALEKFYYskTDHTPRIVFEPGRILV 297
                              987766...67888****************96554432459*************987778899*********998 PP

>> Orn_DAP_Arg_deC  Pyridoxal-dependent decarboxylase, C-terminal sheet domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   92.0   0.0   3.6e-30   2.2e-26       5      98 .]      68     386 ..      34     386 .. 0.70

  Alignments for each domain:
  == domain 1  score: 92.0 bits;  conditional E-value: 3.6e-30
                              E..................................................................................... CS
                              x..................................................................................... RF
          Orn_DAP_Arg_deC   5 d..................................................................................... 5  
                              +                                                                                     
  PHY93_03270|PHY93_03270  68 Kananievlkrlkklgsgadvvsvgelkkaikagidpqkivfsgvakteseilfaikcgkkgiysfnvesieelelinqiakkekr 153
                              05555555555555555555555555555555555555566666666666666666666666666666666666666666666666 PP

                              ...................................................................................... CS
                              ...................................................................................... RF
          Orn_DAP_Arg_deC   6 ...................................................................................... 5  
                                                                                                                    
  PHY93_03270|PHY93_03270 154 iarvafrlnpqvnakthkhistgnkthkfgllktdilealavpsfwtntilvglsihigsqltdlkatvaaikeltklaheieipl 239
                              66666666666666666666666666666666666666777777777777777777777777777777777777777777777777 PP

                              ...........................................................GGEEEEEEEEEEEEETCEEEEEES--T CS
                              ...........................................................xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Orn_DAP_Arg_deC   6 ...........................................................eagvLvtrViavkesekkkfvivdaGm 32 
                                                                                         + gvLv+rV+ +k+s++ +f i+daGm
  PHY93_03270|PHY93_03270 240 efldvggglgidytveernklasiekymetisgalekfyysktdhtprivfepgrilvgKMGVLVSRVVRTKTSDNCHFTIIDAGM 325
                              7777777777777777777777777777777777777777788888888888888888899**************99********* PP

                              TTS-HHHHCTT-S-EESBTT-SCEEC.EEEEEEEE-SSSSTT-EEEEEEEEEE--TT-EEEESS-S CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Orn_DAP_Arg_deC  33 ndllrpalygsfheipvkeeeaekeeeeeeevdvvGptCesgDvlakdrelpelevGdllafedaG 98 
                              ndl+rpaly+++he+ +     e++++++ ++d+vGp+Ce++D+++ + +lp l+ Gdl+++ +aG
  PHY93_03270|PHY93_03270 326 NDLIRPALYEAHHEV-LP----ETKSKKMITTDIVGPICETADCFGMKKKLPTLKTGDLVIIDNAG 386
                              ***************.32....244567899*********************************99 PP

>> Ala_racemase_N  Alanine racemase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   1.9e-06     0.011      14     178 ..      55     233 ..      50     247 .. 0.66

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 1.9e-06
                              HHHSCTTSEEEEE-HHHHHTTHHHHHHHHHHHTTESEEEESSHHHHHHHHHTTSCSEEEEESC..STGGGHHHHHH....TTEEEE CS
           Ala_racemase_N  14 ralagpgaklmavvKanayghgavevaralaeggadgfgvatleEalelreagitapilvleg..fspeelaalae....ydltvt 93 
                              ++ + p + ++  vKana   ++++ ++ l + gad   v ++ E+ +  +agi+ + +v++g   +++e+  +++       +  
  PHY93_03270|PHY93_03270  55 KQGI-PSPLICYAVKANAN-IEVLKRLKKLGS-GAD---VVSVGELKKAIKAGIDPQKIVFSGvaKTESEILFAIKcgkkGIYSFN 134
                              5555.5677999****775.444444443553.366...67777777777889966666888854366666666668885456889 PP

                              ESSHHHHHHHHHHHHH............TTS-EEEEEEBESSSS..SSSBSCHHHHHHHHHHHHTTTEEEEEEE-S-SSTTSTS.H CS
           Ala_racemase_N  94 vdsleqlealaaaare............agkplrvhlkidtgmg..RlGftpeeleellealaalpglrleglmtHfasadepd.e 164
                              v s e+le ++++a++             + +++ h +i tg    + G+   ++ e+l+  +   +  l+gl  H +s  + d +
  PHY93_03270|PHY93_03270 135 VESIEELELINQIAKKekriarvafrlnPQVNAKTHKHISTGNKthKFGLLKTDILEALAVPSFWTNTILVGLSIHIGSQLT-DlK 219
                              ****************666666666666555666666666653366777777777777777777777777777777777643.323 PP

                              HHHHHHHHHHHHHH CS
           Ala_racemase_N 165 eteaqlarfeeale 178
                              +t a ++ ++++++
  PHY93_03270|PHY93_03270 220 ATVAAIKELTKLAH 233
                              44445555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (405 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       653  (0.0364214); expected 358.6 (0.02)
Passed bias filter:                      554  (0.0308997); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.64u 0.25s 00:00:00.89 Elapsed: 00:00:00.47
# Mc/sec: 2564.18
//
Query:       PHY93_03275|PHY93_03275  [L=706]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.3e-32  109.9   0.4    2.1e-31  107.9   0.1    2.3  1  UvrB_inter       UvrB interaction domain
    2.1e-19   69.1   0.7      5e-19   67.9   0.7    1.7  1  UvrB             Ultra-violet resistance protein B
      1e-17   64.5   0.1    3.3e-17   62.8   0.1    1.9  1  Helicase_C       Helicase conserved C-terminal domain
    3.7e-14   53.1   0.1    6.3e-12   45.8   0.0    2.7  2  ResIII           Type III restriction enzyme, res subunit
      4e-10   39.1   4.9      2e-09   36.9   4.4    2.6  2  UVR              UvrB/uvrC motif
    2.2e-06   27.5   0.0    0.00021   21.1   0.0    2.6  2  AAA_30           AAA domain
      8e-06   25.7   0.2    0.00031   20.6   0.0    3.1  3  DEAD             DEAD/DEAH box helicase
  ------ inclusion threshold ------
      0.027   14.1   1.2       0.14   11.8   0.0    2.7  4  SWI2_SNF2        SWI2/SNF2 ATPase
      0.028   14.4   0.0       0.12   12.4   0.0    2.1  1  AAA_5            AAA domain (dynein-related subfamily)
      0.038   13.2   0.0      0.089   12.0   0.0    1.5  1  DUF2075          Uncharacterized conserved protein (DUF2075)
      0.045   14.1   0.0        8.3    6.7   0.0    2.9  2  AAA_19           AAA domain
      0.062   12.4   0.1      0.062   12.4   0.1    2.0  2  M16C_assoc       Peptidase M16C associated
       0.12   11.9   0.2       0.29   10.6   0.2    1.6  1  AAA_7            P-loop containing dynein motor region
       0.16   12.5   0.3        2.7    8.6   0.3    2.5  2  FoP_duplication  C-terminal duplication domain of Friend of P
          2    8.2  10.6       0.31   10.9   1.3    2.9  2  CdvA             CdvA-like coiled-coil domain


Domain annotation for each model (and alignments):
>> UvrB_inter  UvrB interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  107.9   0.1   1.8e-34   2.1e-31       2      91 .]     204     293 ..     203     293 .. 0.99

  Alignments for each domain:
  == domain 1  score: 107.9 bits;  conditional E-value: 1.8e-34
               UvrB_inter   2 elkvgqkidreellrkLvelqYerndvelkrGtFrvrGdtveifpasaeevairieffgdeiesireidpltgkslekleeitifP 87 
                              +++vg+ +dr+++l+ Lv +qYernd++++rG FrvrGd+ve+fp+++e++++rieffgde++si+++dpl gk+l++l + ti+P
  PHY93_03275|PHY93_03275 204 TIEVGEILDRDDFLKILVAIQYERNDIDFSRGCFRVRGDMVEVFPSHEESNVVRIEFFGDEVDSISIVDPLRGKVLQSLRKETIYP 289
                              589********************************************9999*********************************** PP

               UvrB_inter  88 akhf 91 
                              ++h+
  PHY93_03275|PHY93_03275 290 KSHY 293
                              ***9 PP

>> UvrB  Ultra-violet resistance protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.9   0.7   4.2e-22     5e-19       1      42 [.     596     637 ..     596     638 .. 0.98

  Alignments for each domain:
  == domain 1  score: 67.9 bits;  conditional E-value: 4.2e-22
                              EE-SS--HHHHHHHHHHHHHHHHHHHHHHHHT------XXXX CS
                     UvrB   1 lYADkiTdSMkkAideTerRReiQeaYNeehgItPktikKki 42 
                              lYA k+T+SM++Ai eT+rRR+iQe++N+e gI+P+ti+K++
  PHY93_03275|PHY93_03275 596 LYAYKMTKSMERAIGETNRRRKIQEEHNAELGIIPTTIIKSV 637
                              8***************************************98 PP

>> Helicase_C  Helicase conserved C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.8   0.1   2.7e-20   3.3e-17      13     110 ..     487     589 ..     475     590 .. 0.90

  Alignments for each domain:
  == domain 1  score: 62.8 bits;  conditional E-value: 2.7e-20
                              TTTTSEEEEEESSHHHHHH.HHHHHHHTTSTEEEESTTSTHHHHHHHHHHHHTTSSSEEEESGGGTSSSTSTTESEEEESSSS... CS
               Helicase_C  13 eeeggkilifvntidrlek.vklllekkgikvavlhgelpqnereeileqfnkgesdvLiatdvaerGidipkvnlVinfdlp... 94 
                               ++g+++l+ + t++ +e+ +k++  ++gikv +lh+++ + er ei+++ + ge+dvL+  + + +G+dip+v+lV ++d++   
  PHY93_03275|PHY93_03275 487 IKKGQRVLVTTLTKKLAEElTKYF-ASSGIKVRYLHSDIDTLERMEIIRDLRLGEFDVLVGINLLREGLDIPEVSLVGILDADkeg 571
                              4789999****9**9888778999.5669******************************************************888 PP

                              ..SSHHHHHHHHTTSSST CS
               Helicase_C  95 ..rnvtsyiqriGRtgRa 110
                                r+ +s+iq +GR++R 
  PHY93_03275|PHY93_03275 572 flRSERSLIQTMGRAARN 589
                              88889************6 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.8   0.0   5.3e-15   6.3e-12       7      85 ..      59     136 ..      54     191 .. 0.74
   2 ?    4.3   0.0      0.03        36      70     147 ..     300     390 ..     293     441 .. 0.63

  Alignments for each domain:
  == domain 1  score: 45.8 bits;  conditional E-value: 5.3e-15
                              HHHHHHHHHT......TTSEEEEEESTTSTHHHHHHHHHHHH-S.....-EEEEESSHHHHHHHHHHGGGGTGG........G CS
                   ResIII   7 yQeeaienlleklkskrdkrglikmaTGtGKTlvaaklierllkkgkeekflflvprkslleqtleefkkflseayke....i 85 
                               Q +ai +l+e ++ +++++  +   TG+GKT+v+a++i++l k     k+l+++++k+l  q++ efk+f+++++ e     
  PHY93_03275|PHY93_03275  59 DQPRAIAQLIEGFTTDKKTKQTLLGVTGSGKTFVMANVIQALGK-----KTLVMAHNKTLAAQLYAEFKEFFPNNAVEyfvsY 136
                              699***********98899999*********************9.....7************************975444331 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.03
                              HHHHGGGGTGG....GEEEESSS-B--.......-SEEEEEHHHHHHTH........HHHTTT-S.............EEEEETGG CS
                   ResIII  70 tleefkkflseaykeigkkvsgdkkkakekdstnkkilvttiqsldadseeeeeeseellrdrfd.............viiiDEaH 142
                              +++++  +++e +++i++++++dk  ++++ ++ + + ++  ++l   s  e++ ++  + ++ d             ++iiDE+H
  PHY93_03275|PHY93_03275 300 MKDAIGAIKQELRERIQEFIKQDKLLERQRIEQRTLYDIEMMEELGFCSGIENYSRHLTGANAGDppptlidyfdrdfLMIIDESH 385
                              555555555555555666666666666333333333335555555555544444444444444445555555666899******** PP

                              GTTS. CS
                   ResIII 143 rlgak 147
                               + ++
  PHY93_03275|PHY93_03275 386 ITVSQ 390
                              88886 PP

>> UVR  UvrB/uvrC motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.0       8.4     1e+04       6      17 ..     578     589 ..     577     590 .. 0.82
   2 !   36.9   4.4   1.7e-12     2e-09       1      31 [.     669     699 ..     669     701 .. 0.96

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 8.4
                      UVR   6 eLeeemeeAaen 17 
                              +L + m +Aa+n
  PHY93_03275|PHY93_03275 578 SLIQTMGRAARN 589
                              688899999997 PP

  == domain 2  score: 36.9 bits;  conditional E-value: 1.7e-12
                      UVR   1 kklikeLeeemeeAaenedFEkAAklRDqin 31 
                              +k+i+eL++ m+eA+++++FE AAk+RD+i+
  PHY93_03275|PHY93_03275 669 DKRIEELKKLMKEASRDLRFEDAAKIRDEIK 699
                              699***************************7 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.1   0.0   1.8e-07   0.00021       8     102 ..      66     168 ..      59     183 .. 0.74
   2 ?    3.4   0.0     0.045        54      39      81 ..     484     528 ..     478     568 .. 0.75

  Alignments for each domain:
  == domain 1  score: 21.1 bits;  conditional E-value: 1.8e-07
                   AAA_30   8 aavealltsgdrvavltGpAGtGKttalkalreaweaaggrviglAptgkaAkvLaeelg..ieastiakllkrlk.........g 82 
                              +++e ++t+++  ++l G+ G+GKt++++ + +a+   g++ +++A++++ A++L +e+   ++ + ++ +++ ++         g
  PHY93_03275|PHY93_03275  66 QLIEGFTTDKKTKQTLLGVTGSGKTFVMANVIQAL---GKKTLVMAHNKTLAAQLYAEFKefFPNNAVEYFVSYYDyyqpeayvaG 148
                              6789999*********************9876665...67789***********99887755577777777766666666666663 PP

                   AAA_30  83 rarlepgtllivDEagmvdt 102
                                ++ +++  + DE+  +  
  PHY93_03275|PHY93_03275 149 SDTYIEKDSAVNDEIEKLRH 168
                              34445555555555555555 PP

  == domain 2  score: 3.4 bits;  conditional E-value: 0.045
                   AAA_30  39 reaweaaggrviglAptgkaAkvLae...elgieastiakllkrlk 81 
                              r  + ++g+rv++ + t+k A++L++   ++gi+ + +++ +++l+
  PHY93_03275|PHY93_03275 484 RV-VIKKGQRVLVTTLTKKLAEELTKyfaSSGIKVRYLHSDIDTLE 528
                              44.445899****************644488888888877665555 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.6   0.0   2.6e-07   0.00031      16      75 ..      78     129 ..      59     177 .. 0.72
   2 ?   -0.7   0.0      0.89   1.1e+03     159     175 ..     422     447 ..     375     448 .. 0.50
   3 ?    0.7   0.1      0.32   3.8e+02      44     103 ..     487     546 ..     467     551 .. 0.72

  Alignments for each domain:
  == domain 1  score: 20.6 bits;  conditional E-value: 2.6e-07
                              EEEEEESTTSSHHHHHHHHHHHHHHHSTTSTS-EEEEEESSHHHHHHHHHHHHHHTTTST CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  16 dvlvaaeTGsGKTlaflipvlqivyetkgktgpkalivePtreLaeqtlnnlkkfkkyid 75 
                              +  + + TGsGKT + +  v+q++       g+k+l+++  + La q + ++k+f+ +  
  PHY93_03275|PHY93_03275  78 KQTLLGVTGSGKTFV-MANVIQAL-------GKKTLVMAHNKTLAAQLYAEFKEFFPNNA 129
                              5556789*******9.88999898.......7799********************98643 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.89
                              T......SE..EEEEESSBS.HHHHH CS
                              x......xx..xxxxxxxxx.xxxxx RF
                     DEAD 159 q......rq..vivlSATlp.kdvkk 175
                              +      rq  ++ +SAT+  ++++k
  PHY93_03275|PHY93_03275 422 KfdefeeRQdlTMYVSATPGnFELEK 447
                              13344334445788888887776665 PP

  == domain 3  score: 0.7 bits;  conditional E-value: 0.32
                              TSTS-EEEEEESSHHHHHHHHHHHHHHTTTSTSEEE.EEETTSSHHHHHHHHHTT.CSEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxx.xxxxxx RF
                     DEAD  44 gktgpkalivePtreLaeqtlnnlkkfkkyidlrvl.liiggvaardqlskldng.vdivvg 103
                               k+g ++l+ + t++Lae+  + + +++ +  +r+l + i   ++ + +++l+ g  d++vg
  PHY93_03275|PHY93_03275 487 IKKGQRVLVTTLTKKLAEELTKYFASSGIK--VRYLhSDIDTLERMEIIRDLRLGeFDVLVG 546
                              467888999999999999888888777765..445435567777777777776445777776 PP

>> SWI2_SNF2  SWI2/SNF2 ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   0.00012      0.14       2      74 ..      60     126 ..      59     182 .. 0.89
   2 ?   -0.8   0.0      0.84     1e+03     120     137 ..     375     394 ..     350     410 .. 0.79
   3 ?   -3.9   0.0       7.5     9e+03      93     107 ..     489     504 ..     473     520 .. 0.53
   4 ?   -2.6   0.1       2.9   3.5e+03      83     137 ..     615     675 ..     599     688 .. 0.43

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00012
                SWI2_SNF2   2 QyravekavervkegdrkgGviWHtqGSGKsltmvflakklleeelknpkvvvvtDRkdLdkQlsktfakage 74 
                              Q ra+ +++e  +++++++  +   +GSGK++ m+ + ++l +      k +v+   k L  Ql+++f+++  
  PHY93_03275|PHY93_03275  60 QPRAIAQLIEGFTTDKKTKQTLLGVTGSGKTFVMANVIQALGK------KTLVMAHNKTLAAQLYAEFKEFFP 126
                              7789999999999988888899999**********99999999......6678888899*****999998744 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 0.84
                SWI2_SNF2 120 eniivlvDEaHRs..qygel 137
                              +++++++DE+H +  q+g++
  PHY93_03275|PHY93_03275 375 RDFLMIIDESHITvsQTGGM 394
                              57999******752255555 PP

  == domain 3  score: -3.9 bits;  conditional E-value: 7.5
                SWI2_SNF2  93 esekiifttiq.Kfee 107
                              + +++++tt+  K++e
  PHY93_03275|PHY93_03275 489 KGQRVLVTTLTkKLAE 504
                              3333444443303332 PP

  == domain 4  score: -2.6 bits;  conditional E-value: 2.9
                SWI2_SNF2  83 rkeLkellekesekiifttiqKfe........eeek.eklevlsereniivlvDEaHRsqygel 137
                              r++++e+  +++ +ii tti K          +    +k +  +++ ++  l  Ea   + +el
  PHY93_03275|PHY93_03275 615 RRKIQEEH-NAELGIIPTTIIKSVsggvietlR--GaKKGKGEKKKVEVTHLSAEALDKRIEEL 675
                              44444444.334555555555543233332110..11122223333334444444444444444 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0    0.0001      0.12       4      46 ..      81     122 ..      79     177 .. 0.62

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.0001
                              EE--SSSSHHHHHHHGGGGBS--EEEEE--TT--HHHHH--B- CS
                    AAA_5   4 LvGppGtgKselaerlaaalnreveyvqltrdtteedlkgrre 46 
                              L+G +G+gK++++  + +al++++++++ ++ t +++l  + +
  PHY93_03275|PHY93_03275  81 LLGVTGSGKTFVMANVIQALGKKTLVMAHNK-TLAAQLYAEFK 122
                              99*******************9988777666.66666665555 PP

>> DUF2075  Uncharacterized conserved protein (DUF2075)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   7.4e-05     0.089       8     105 ..      83     171 ..      80     192 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 7.4e-05
                  DUF2075   8 GvaGtGKtvvllnllaeleddeeertavylsvNhplvlvlrealakkeekkkkkeafeklssfinnlsefkkaeekkeepkedvvi 93 
                              Gv+G+GKt v+ n++ +l     ++++ ++  N+ l + l+ ++++       ++a+e++ s+   ++   + + +++  + d ++
  PHY93_03275|PHY93_03275  83 GVTGSGKTFVMANVIQAL-----GKKTLVMAHNKTLAAQLYAEFKEFF----PNNAVEYFVSYYDYYQPEAYVAGSDTYIEKDSAV 159
                              9**************999.....99999****************8877....7788888888888888778999999999999999 PP

                  DUF2075  94 vDEAhrlltksd 105
                               DE  +l+++++
  PHY93_03275|PHY93_03275 160 NDEIEKLRHSAT 171
                              999999888554 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.7   0.0    0.0069       8.3      13      41 ..      79     107 ..      70     188 .. 0.87
   2 ?    4.3   0.0     0.039        46      41      78 ..     489     565 ..     466     704 .. 0.66

  Alignments for each domain:
  == domain 1  score: 6.7 bits;  conditional E-value: 0.0069
                   AAA_19  13 llvtaGpGtGKTrvlkhivallvelggvk 41 
                                +++  G+GKT v+  +++ l + + v 
  PHY93_03275|PHY93_03275  79 QTLLGVTGSGKTFVMANVIQALGKKTLVM 107
                              5789999*************998876554 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.039
                   AAA_19  41 kpeeillvaftgrAakelrerlaalgae.......atTiHrlal................................l 78 
                              k +++l+ ++t++ a+el++  a+ g +       ++T+ r+ +                                l
  PHY93_03275|PHY93_03275 489 KGQRVLVTTLTKKLAEELTKYFASSGIKvrylhsdIDTLERMEIirdlrlgefdvlvginllregldipevslvgiL 565
                              2389****************877666664444444555555533555555555555555555555555555555550 PP

>> M16C_assoc  Peptidase M16C associated
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.7      0.95   1.1e+03      13      49 ..     298     333 ..     293     341 .. 0.63
   2 ?   12.4   0.1   5.2e-05     0.062     138     203 ..     634     699 ..     631     703 .. 0.85

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.95
               M16C_assoc  13 keekerLaakkaslseeekekiveetkeLkerQekpd 49 
                              ++ k+ + a+k++l e  +++++++ k L+++  +++
  PHY93_03275|PHY93_03275 298 EKMKDAIGAIKQELRE-RIQEFIKQDKLLERQRIEQR 333
                              5666777777777764.56666777666666555554 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 5.2e-05
               M16C_assoc 138 iklktGGisasvsvssspedldkyeegfvlsgkaLdrnvekmfeLlreilletkfddkerlkelvk 203
                              ik  +GG+  +   +++ + ++k  e  +ls+ aLd+++e++ +L++e   + +f+d  ++++ +k
  PHY93_03275|PHY93_03275 634 IKSVSGGVIETLRGAKKGKGEKKKVEVTHLSAEALDKRIEELKKLMKEASRDLRFEDAAKIRDEIK 699
                              7777888877777777777777788999*****************************999997665 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.2   0.00024      0.29      32      64 ..      75     107 ..      64     123 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00024
                    AAA_7  32 nkkpvllvGptGtGKtviikdllkkldkekyls 64 
                              +k +  l G tG+GKt ++ +++++l k+++++
  PHY93_03275|PHY93_03275  75 KKTKQTLLGVTGSGKTFVMANVIQALGKKTLVM 107
                              56677899******************9666544 PP

>> FoP_duplication  C-terminal duplication domain of Friend of PRMT1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.0      0.71   8.5e+02      64      80 ..     497     513 ..     494     514 .. 0.84
   2 ?    8.6   0.3    0.0022       2.7      29      58 ..     646     674 ..     637     685 .. 0.87

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.71
          FoP_duplication  64 tkkkkLDaeLDsYmakk 80 
                              t  kkL +eL++Y+a++
  PHY93_03275|PHY93_03275 497 TLTKKLAEELTKYFASS 513
                              56799*********975 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0022
          FoP_duplication  29 ggrgrgrggrggrkkkkpltkeeLDaeLDa 58 
                              +g+++g+g++++  + ++l++e LD+  ++
  PHY93_03275|PHY93_03275 646 RGAKKGKGEKKK-VEVTHLSAEALDKRIEE 674
                              788999999999.************98765 PP

>> CdvA  CdvA-like coiled-coil domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   1.3   0.00026      0.31      31      94 ..     297     360 ..     280     362 .. 0.92
   2 ?    0.9   2.3      0.31   3.7e+02      24      59 ..     665     701 ..     649     706 .] 0.63

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00026
                     CdvA  31 lkklkekakelkeklkkrlkeledqikslekalanlkisyasGEidEeaYksaieairellesa 94 
                               +k+k+   ++k++l++r++e  +q k le+  +  +  y +  ++E  + s ie ++++l+ a
  PHY93_03275|PHY93_03275 297 AEKMKDAIGAIKQELRERIQEFIKQDKLLERQRIEQRTLYDIEMMEELGFCSGIENYSRHLTGA 360
                              6799****************************************************99998765 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.31
                     CdvA  24 kekleealkklkekakelkeklk.krlkeledqiksl 59 
                               e l++ +++lk+ +ke +  l+ +  ++++d+ik++
  PHY93_03275|PHY93_03275 665 AEALDKRIEELKKLMKEASRDLRfEDAAKIRDEIKTV 701
                              4566666666666666666666645566666666666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (706 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       974  (0.0543254); expected 358.6 (0.02)
Passed bias filter:                      609  (0.0339673); expected 358.6 (0.02)
Passed Vit filter:                        98  (0.005466); expected 17.9 (0.001)
Passed Fwd filter:                        16  (0.000892409); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.82u 0.29s 00:00:01.10 Elapsed: 00:00:00.51
# Mc/sec: 4144.25
//
Query:       PHY93_03280|PHY93_03280  [L=78]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (78 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       798  (0.0445089); expected 358.6 (0.02)
Passed bias filter:                      662  (0.0369234); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.28s 00:00:00.74 Elapsed: 00:00:00.46
# Mc/sec: 506.82
//
Query:       PHY93_03285|PHY93_03285  [L=374]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.6e-21   74.4  46.1      1e-20   74.1  46.1    1.1  1  Acyl_transf_3  Acyltransferase family
  ------ inclusion threshold ------
       0.79    9.7   3.3        2.8    7.9   0.0    3.2  4  DUF4006        Family of unknown function (DUF4006)


Domain annotation for each model (and alignments):
>> Acyl_transf_3  Acyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.1  46.1   1.1e-24     1e-20       2     339 ..       9     354 ..       8     355 .. 0.71

  Alignments for each domain:
  == domain 1  score: 74.1 bits;  conditional E-value: 1.1e-24
                              xxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxx RF
            Acyl_transf_3   2 aylDllRgiAillVvflHali..ayspdagrgspiqasqssqiaflggfgvplFFllSGffla....amlyrrrglsklikrRilr 81 
                              ++lD++RgiAi++V+++H +   a s  +++ +pi   ++++i   g  gv+lFF lSG++++    ++  ++  l+++++rR lr
  PHY93_03285|PHY93_03285   9 YSLDGIRGIAIVIVMIYHLVGvlAVSGADFH-NPISKLIFVFI-DDGWMGVDLFFTLSGYLITsillKTKAEPNYLKNFFMRRSLR 92 
                              79******************97444444444.45556666665.77889************************************* PP

                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Acyl_transf_3  82 lliplliwllliillialvaghiqanasanvtlfdet....kglmfllfefpatghlWfLwalfvlylllplllrllrkvrkshll 163
                              ++  + ++l++++++  +++g+ +    +   +   +     +  f+ +++    hlW+L  + ++y + p+++ l+  +   +l 
  PHY93_03285|PHY93_03285  93 IFPLYYFFLIIYFIVLPYFFGEYSRFQHLESRQVWYWtymsNFEIFFKQKWSDPAHLWSLGIEEQFYWFWPFIVLLFSSRTFHWLT 178
                              **777777777777666666666666666666665556778888999999**********************98888877777666 PP

                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Acyl_transf_3 164 lllilllllslvfirhelfgpatsvgllplpsvla..llfflfGalladaddrdrnlsrglkislllsllllalillalfgqtdgg 247
                              +++++l  l+ +++ + +  +  +v     p++ +  l  + +Ga++a    r+++    l  +   ++++ +l+ lal +     
  PHY93_03285|PHY93_03285 179 AIIFILQPLIRLAFVLSG--VTGNVI----PAFTFshLDGLMVGAFIATSLYRQTFTKESLRKWGYYLFFGGLLARLALPFIP--V 256
                              665555444444444444..333333....33333335555666666666666655555444444444444444444444444..2 PP

                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxx RF
            Acyl_transf_3 248 glvasvliqsaslllvslgimllllllfalpsrsafk......llrylgkiSygiYliHlpllmllqkllrdwgln..lgevlllv 325
                              ++ +  +     ++ +++   +l+ll++ +++ s ++      ll++ g +Syg+Y+iH+++ +++ + +   +    ++ + + +
  PHY93_03285|PHY93_03285 257 SFDIRRNVIAIDIWSLFS--GGLILLSVTHAKESLINtlltnrLLVFAGTYSYGLYMIHQLIFQYIAFKFGSIAGAnlISLLQVGI 340
                              444444444555555555..55555555555555445559*******************************996657999****** PP

                              xxxxxxxxxxxxxx RF
            Acyl_transf_3 326 lllvvsvivsvvll 339
                              l+ ++s+i++++l+
  PHY93_03285|PHY93_03285 341 LGGIASFIGAWLLF 354
                              ***********996 PP

>> DUF4006  Family of unknown function (DUF4006)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9   0.0   0.00031       2.8       9      35 ..       9      35 ..       2      42 .. 0.89
   2 ?   -1.2   0.1      0.21   1.9e+03      14      24 ..      63      73 ..      61      75 .. 0.87
   3 ?   -0.2   0.1       0.1   9.4e+02       7      19 ..     190     202 ..     188     205 .. 0.83
   4 ?   -2.1   0.0      0.42   3.8e+03      11      23 ..     210     223 ..     207     224 .. 0.76

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.00031
                  DUF4006  9 FglnGitGmliavvLLLsilavLtvla 35
                             ++l+Gi G+ i++v+   ++ vL v +
  PHY93_03285|PHY93_03285  9 YSLDGIRGIAIVIVMIYHLVGVLAVSG 35
                             89********************99876 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 0.21
                  DUF4006 14 itGmliavvLL 24
                             ++G+li  +LL
  PHY93_03285|PHY93_03285 63 LSGYLITSILL 73
                             68****99998 PP

  == domain 3  score: -0.2 bits;  conditional E-value: 0.1
                  DUF4006   7 slFglnGitGmli 19 
                                F l+G+tG +i
  PHY93_03285|PHY93_03285 190 LAFVLSGVTGNVI 202
                              5699******876 PP

  == domain 4  score: -2.1 bits;  conditional E-value: 0.42
                  DUF4006  11 lnGi.tGmliavvL 23 
                              l+G+ +G +ia+ L
  PHY93_03285|PHY93_03285 210 LDGLmVGAFIATSL 223
                              5665379****987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (374 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       608  (0.0339115); expected 358.6 (0.02)
Passed bias filter:                      204  (0.0113782); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.44
# Mc/sec: 2564.18
//
Query:       PHY93_03290|PHY93_03290  [L=373]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
     0.0011   19.2   0.0     0.0015   18.7   0.0    1.3  1  Acetyltransf_6  Acetyltransferase (GNAT) domain


Domain annotation for each model (and alignments):
>> Acetyltransf_6  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   0.0   8.6e-08    0.0015      69     138 ..     245     319 ..     186     342 .. 0.76

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 8.6e-08
           Acetyltransf_6  69 galrlyvlrld...grpvAvalglrsgdrlyywlggy..dpelaklspgllllweliedaaeeGlrrfdlgggde 138
                              +++r+     +   + p+A+++g++ ++ + y+++g   dpel+    + ll+w li + +  G + fd gg ++
  PHY93_03290|PHY93_03290 245 EKCRIIGYAKKdnpDFPLAFVVGIIGDGLCEYHMAGSlnDPELRSIPFNYLLVWNLILWGKNSGAKLFDYGGISD 319
                              45555555554123559*******************99********************************99543 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (373 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       549  (0.0306208); expected 358.6 (0.02)
Passed bias filter:                      392  (0.021864); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.26s 00:00:00.82 Elapsed: 00:00:00.47
# Mc/sec: 2373.89
//
Query:       PHY93_03295|PHY93_03295  [L=374]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      7e-34  117.1   0.1    1.1e-33  116.4   0.1    1.4  1  Glycos_transf_2  Glycosyl transferase family 2
      4e-17   62.9   0.0    9.6e-17   61.6   0.0    1.6  1  Glyco_tranf_2_3  Glycosyltransferase like family 2
    3.1e-16   59.6   3.9    1.1e-15   57.8   0.7    2.6  2  Glyco_tranf_2_2  Glycosyltransferase like family 2
  ------ inclusion threshold ------
       0.04   13.8   0.4       0.18   11.7   0.0    2.1  2  Glyco_trans_2_3  Glycosyl transferase family group 2
      0.084   12.9   0.1        6.6    6.7   0.0    2.3  2  MeMO_Hyd_G       Methane monooxygenase, hydrolase gamma chain
       0.15   11.0   0.0       0.22   10.4   0.0    1.2  1  Csc2             Csc2 Crispr


Domain annotation for each model (and alignments):
>> Glycos_transf_2  Glycosyl transferase family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  116.4   0.1   3.8e-37   1.1e-33       1     168 [.      34     224 ..      34     226 .. 0.81

  Alignments for each domain:
  == domain 1  score: 116.4 bits;  conditional E-value: 3.8e-37
                              EEEEEESS-TTTHHHHHHHHHHHGGCCEEEEEEEEES-SSCHHHHHGGGCHC-TTEEEEEESSS-HHHHHHHHHHHH--SSEEEEE CS
          Glycos_transf_2   1 svviptyNeektlletlesllaqdpypdfeiivvDDgStDetveileelakedprvrvirreenvGkagalnaglraatgdyilfl 86 
                              sv+ipt+N+   l ++l+s+l q +yp+fe+ivvDDgS+D+t e+ e++ k++p+ + + ++ n G+ +a+n+g+r+a+g++i+f 
  PHY93_03295|PHY93_03295  34 SVIIPTFNRDYILDKSLDSVLMQ-DYPHFEVIVVDDGSNDKTDELMEKYLKQYPGKIKFVKKTNGGLVSARNEGMRHAKGEFIAFQ 118
                              8**********************.***************************66666666666688********************* PP

                              ESSEEE-TTHHHHHHHHHHH.TTCEEEEEEEEEECCCCCCCHC-SS........................EEEECCHCCCCHCCCC CS
          Glycos_transf_2  87 DaDdepdpdwleklvealekdgadvvlgqrprifgetdeiernkrv........................generlyfkerkrslk 148
                              D+Dd++  ++l+  v+ l+k+++ v++ +   i +e++++++   +                        + +   y+k + +++ 
  PHY93_03295|PHY93_03295 119 DSDDIWLQGKLSNQVAILKKHPEVVIAWTLINIVDEKGRMTHENDIntaynvyniidldkcfprigtldyRNEKVSYRKGEIFKTL 204
                              ********************888555555555555555555554448888888888888888888888866666666666666777 PP

                              CCSTTCSTCCCEEEEHHHHH CS
          Glycos_transf_2 149 gnlsfeigsaallrrealee 168
                                  +++++ a +rr a+++
  PHY93_03295|PHY93_03295 205 FLGNMVHPPVAFIRRTAIQK 224
                              77777777777777777766 PP

>> Glyco_tranf_2_3  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.6   0.0   3.2e-20   9.6e-17       4     190 ..      33     241 ..      31     252 .. 0.76

  Alignments for each domain:
  == domain 1  score: 61.6 bits;  conditional E-value: 3.2e-20
          Glyco_tranf_2_3   4 lavlVptfneedvlgevlesllaqeyprvevvvvvdesdaetlevaeelaaalpdvrvrvvvnarnlgstgksralnealravksd 89 
                              ++v++ptfn++  l + l+s+l q+yp +ev+vv+d+s ++t e  e   +++p+ +++ v +++ +g    + a ne++r++k++
  PHY93_03295|PHY93_03295  33 VSVIIPTFNRDYILDKSLDSVLMQDYPHFEVIVVDDGSNDKTDELMEKYLKQYPG-KIKFVKKTN-GG---LVSARNEGMRHAKGE 113
                              79*****************************************************.9**998877.55...566669********* PP

          Glyco_tranf_2_3  90 lvllvDdDtvvePdtlkrllqff.ltpkvgavgtpvfl.lnrstl.....................vsalgalefaerhlrflaar 152
                              ++++ D+D+++  + l  +++++ ++p+v ++ t  +  +   ++                     +++ g l +  ++ + ++  
  PHY93_03295|PHY93_03295 114 FIAFQDSDDIWLQGKLSNQVAILkKHPEVVIAWTLINIvDEKGRMthendintaynvyniidldkcFPRIGTLDYRNEKVSYRKGE 199
                              ***********777777779999899988888766644255555555777777777777777777755555555555555444444 PP

          Glyco_tranf_2_3 153 ...ralgvltlnGsgslirrevlkelegldp.lflltdDyel 190
                                 + +    +++   +irr+  + ++gld    + ++Dye 
  PHY93_03295|PHY93_03295 200 ifkTLFLGNMVHPPVAFIRRTAIQKTGGLDQtYHYAGEDYEF 241
                              332222234457777778888888888777777777788765 PP

>> Glyco_tranf_2_2  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.8   0.7   3.8e-19   1.1e-15       1     218 [.      34     264 ..      34     330 .. 0.74
   2 ?    1.1   0.3     0.073   2.2e+02     217     251 ..     312     357 ..     285     363 .. 0.73

  Alignments for each domain:
  == domain 1  score: 57.8 bits;  conditional E-value: 3.8e-19
          Glyco_tranf_2_2   1 svviplraseerhyieervlqkakyyd.eeielivvddgSsekfleevss.iidlnllvylkdeddkayslaaarNrGaskaesdl 84 
                              sv+ip  +   r yi ++ l      d +++e+ivvddgS +k+ e +++ +++  +++ + ++  +  +l  arN G+ +a++++
  PHY93_03295|PHY93_03295  34 SVIIPTFN---RDYILDKSLDSVLMQDyPHFEVIVVDDGSNDKTDELMEKyLKQYPGKIKFVKK--TNGGLVSARNEGMRHAKGEF 114
                              56666654...568888876655544339**************988886526888899976555..68899*************** PP

          Glyco_tranf_2_2  85 vlFlDaDcfissDkfekilklitikklrenidaavvlpvvdlnkedsevlkdvedltas....srvledllaakstlvk....... 159
                              + F D+D+ + + k+ +++       l++ ++  ++++++++++e+  + ++ +  ta     +  l++ +    tl         
  PHY93_03295|PHY93_03295 115 IAFQDSDDIWLQGKLSNQVA-----ILKKHPEVVIAWTLINIVDEKGRMTHENDINTAYnvynIIDLDKCFPRIGTLDYrnekvsy 195
                              ****************9999.....68999************9999988877776655411002233444444444433889999* PP

          Glyco_tranf_2_2 160 .........ffapss..ssilinrraflevGGyDErfrGhgaEDfdlllRlakaikslekmpvellykar 218
                                       f+ +      + i+r a+ ++GG D  +   + ED++++ Rl +  +   +  + +ly+  
  PHY93_03295|PHY93_03295 196 rkgeifktlFLGNMVhpPVAFIRRTAIQKTGGLDQTY-HYAGEDYEFFWRLSLLGEGAMVEKAGMLYRMG 264
                              *****9996554444447899****************.6799*********9877666666666666654 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.073
          Glyco_tranf_2_2 217 araksls.........nykGfrrflea..lakeaaalglvvfhlYh 251
                              a+a+ ++         + +Gfr f+++  l++++a+  +    +Yh
  PHY93_03295|PHY93_03295 312 AHAWVVRsefssaygkKSNGFRAFFDLfkLSYKEAFKLIPFVIAYH 357
                              5555555555665555668*****9853389999998888888887 PP

>> Glyco_trans_2_3  Glycosyl transferase family group 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.1      0.29   8.8e+02       2      58 ..     115     172 ..     114     180 .. 0.79
   2 ?   11.7   0.0     6e-05      0.18      76     111 ..     214     249 ..     209     367 .. 0.82

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.29
          Glyco_trans_2_3   2 illlDaDtvlppdclreiaaela.spevaivqgpvlvmnvanwleelaalffaedhgk 58 
                              i++ D+D+   +  l   +a l+ +pev i+ + + ++  +  +++ +++ +a ++++
  PHY93_03295|PHY93_03295 115 IAFQDSDDIWLQGKLSNQVAILKkHPEVVIAWTLINIVDEKGRMTHENDINTAYNVYN 172
                              7889*****99*9***99**99988**9999888877766667777666676666665 PP

  == domain 2  score: 11.7 bits;  conditional E-value: 6e-05
          Glyco_trans_2_3  76 gaflrrsalqevggwdgdessvsEDfdmglrlqrkG 111
                              +af+rr a+q+ gg d      +ED+++  rl  +G
  PHY93_03295|PHY93_03295 214 VAFIRRTAIQKTGGLDQTYHYAGEDYEFFWRLSLLG 249
                              69**************888899**********9887 PP

>> MeMO_Hyd_G  Methane monooxygenase, hydrolase gamma chain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.9   0.0     0.017        50     106     149 ..       7      52 ..       1      57 [. 0.77
   2 ?    6.7   0.0    0.0022       6.6      27      65 ..      99     139 ..      70     146 .. 0.75

  Alignments for each domain:
  == domain 1  score: 3.9 bits;  conditional E-value: 0.017
                              HHHHHHHHTTTTS-HHHHH.HHHHHHHHHHHHHHTTTTT.SS-HHH CS
               MeMO_Hyd_G 106 hiefrqaykPPvlPvnlfl.dterqlgtklmelrntdyy.akslee 149
                              +   + +y PP++P+++ l d+  +l + ++   n dy  +ksl+ 
  PHY93_03295|PHY93_03295   7 RNRIKDMYLPPIIPMDVCLgDGVVDLVSVIIPTFNRDYIlDKSLDS 52 
                              5567889**********99567789999999999999853677775 PP

  == domain 2  score: 6.7 bits;  conditional E-value: 0.0022
                              HHHHHHHHSSTT-S-ST..TTTTHHHHHHHHHHHHHHHHHH CS
               MeMO_Hyd_G  27 lkdfrkdhtspfrtsye..ldldslwieakleeklavlkak 65 
                              l   r++ +   + ++   +d d +w++ kl +++a+lk++
  PHY93_03295|PHY93_03295  99 LVSARNEGMRHAKGEFIafQDSDDIWLQGKLSNQVAILKKH 139
                              55555555555566553226999***************975 PP

>> Csc2  Csc2 Crispr
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0   7.3e-05      0.22     135     193 ..     146     203 ..     129     210 .. 0.84

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 7.3e-05
                     Csc2 135 eftlnavfetGtmsekgeassalnesdhikPevtFpdvvtlkDvtedellYvlgnilrt 193
                                 +n v+e+G m++++++++a n  + i  +  Fp + tl D  ++++ Y  g i++t
  PHY93_03295|PHY93_03295 146 WTLINIVDEKGRMTHENDINTAYNVYNIIDLDKCFPRIGTL-DYRNEKVSYRKGEIFKT 203
                              34579***********************************9.78888888888888777 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (374 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       416  (0.0232026); expected 358.6 (0.02)
Passed bias filter:                      377  (0.0210274); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.64u 0.25s 00:00:00.89 Elapsed: 00:00:00.49
# Mc/sec: 2296.58
//
Query:       PHY93_03300|PHY93_03300  [L=497]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-16   60.7  18.8    1.3e-16   60.7  18.8    2.2  2  Polysacc_synt_3  Polysaccharide biosynthesis protein
    2.7e-05   23.0  16.7    2.7e-05   23.0  16.7    2.4  2  MurJ             Lipid II flippase MurJ
    0.00029   20.9  11.7    0.00029   20.9  11.7    3.7  4  Polysacc_synt_C  Polysaccharide biosynthesis C-terminal domai
  ------ inclusion threshold ------
        1.1    9.3   3.4         24    5.0   2.7    2.6  2  FtsL             Cell division protein FtsL


Domain annotation for each model (and alignments):
>> Polysacc_synt_3  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.7  18.8     3e-20   1.3e-16       2     293 .]      32     328 ..      31     328 .. 0.79
   2 ?    2.0   0.8     0.021        96     139     181 ..     385     424 ..     348     488 .. 0.81

  Alignments for each domain:
  == domain 1  score: 60.7 bits;  conditional E-value: 3e-20
          Polysacc_synt_3   2 LARLLspedFGvvaialvvislanlfv.dmGlssaliqke...dlteedlstvftfnlvlgllialvlfllapliasfynqp.elv 82 
                              ++R++s ++ G + i+++ ++++  ++ + G+++ l   +      +e+++ ++ + ++ ++++++v+++++p+i   +n   + +
  PHY93_03300|PHY93_03300  32 MSRIVSGNEIGKYKIMFLYLAMIPALSfSGGIENGLYYWTgllHKAKEKVRGAWSMAIIQSVIFFIVVIIFSPIIRPWLNWSwDQY 117
                              788999999999988888887776554267788888777643344566899*************************9998652666 PP

          Polysacc_synt_3  83 tvlrvlalvlilsglssvqeallrrelkFkklfkitlvssvvgvivaivlAllglgvwALvigtllssllslvllwlaskwr..pr 166
                                +++++l+++l++++   + l++r+  ++  ++  ++ + + +i  +v  ++ +++  +v+   ++ +l+++++++       + 
  PHY93_03300|PHY93_03300 118 ISVSIAGLTVVLASMYE--SILIARKKIWSGAIFSAIFNT-INTITILVTIIIFKSAVMIVWAYAITMMLKIAASYYLGVKEgwVP 200
                              7799********99875..445555555555444444443.444444445556666777777777777777776665544433445 PP

          Polysacc_synt_3 167 lkfslkslkelfsfglklllsnllnylarnldnlliGkvlssaaLGlYsvakrlaslpvaeitsviakVlfPalSrl..qddkkkl 250
                              + ++lk++++++++   + +s++ ++l++n+d +l   ++s  + + Y+ +  l+  p+++++s++++V++P l+    ++dk + 
  PHY93_03300|PHY93_03300 201 VGLDLKEARSVLKYYFPVSTSGIFDFLMNNSDRFLLSILISPVQYAGYMFGC-LSIPPLQILESSVNRVMIPQLATAieRNDKLQA 285
                              569***************************************9999999885.7888****************9987457888899 PP

          Polysacc_synt_3 251 relylkvlrlialivlPiavglavvaellvkvllGsqWleavp 293
                              ++ly+  l+ i+li +P +vgl+v+ae+++++l+++++  +vp
  PHY93_03300|PHY93_03300 286 AHLYRFGLEQIMLIFIPSFVGLFVFAEPIITLLFTEKYITSVP 328
                              999***********************************99986 PP

  == domain 2  score: 2.0 bits;  conditional E-value: 0.021
          Polysacc_synt_3 139 vwALvigtllssllslvllwlaskwrprlkfslkslkelfsfg 181
                              + A++i  l++++l + l++ +++w ++ ++ +ksl   f ++
  PHY93_03300|PHY93_03300 385 LIAMIITLLVQKFLGFNLMLKTYEWSLKEMIPVKSL---FLYS 424
                              469999********************9987775554...4443 PP

>> MurJ  Lipid II flippase MurJ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.0  16.7     6e-09   2.7e-05     110     309 ..     126     320 ..      86     327 .. 0.79
   2 ?   -2.9   0.3      0.43   1.9e+03     167     175 ..     387     395 ..     358     460 .. 0.58

  Alignments for each domain:
  == domain 1  score: 23.0 bits;  conditional E-value: 6e-09
                     MurJ 110 lvslsavfgavLnarkkFfapa.fsPvllNvsvI...ltllllanklgeeailaLaiGvliGgvlqllvqlpalkkaglllkprfa 191
                               v l+++  ++L arkk  + a fs++++ +  I   +t+++++  ++      ++++  i ++l +++  +  +k+g    p ++
  PHY93_03300|PHY93_03300 126 TVVLASMYESILIARKKIWSGAiFSAIFNTINTItilVTIIIFKSAVM------IVWAYAITMMLKIAASYYLGVKEGWV--P-VG 202
                              577888899999998886555426777665554411144444444444......78999999****************98..4.55 PP

                     MurJ 192 frdeglkkflklllptllgvsvsqlnllvdtalAsf.laegsvsilayadrilqlPlglfgvsistvlLPrlSrsakekdedevrd 276
                                 ++ + +lk  +p  ++    +l    d +l s  + ++  + ++++  +   Pl ++  s+  v++P+l+ + +++d+ ++ +
  PHY93_03300|PHY93_03300 203 LDLKEARSVLKYYFPVSTSGIFDFLMNNSDRFLLSIlISPVQYAGYMFG-CLSIPPLQILESSVNRVMIPQLATAIERNDKLQAAH 287
                              5677789999988887777777777777777777762455555666665.455569****************************** PP

                     MurJ 277 llsqairltllllipvsfgllvlskpivsllfe 309
                              l + ++  ++l++ip+ +gl+v+++pi++llf 
  PHY93_03300|PHY93_03300 288 LYRFGLEQIMLIFIPSFVGLFVFAEPIITLLFT 320
                              ********************************6 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 0.43
                     MurJ 167 Ggvlqllvq 175
                              ++++ llvq
  PHY93_03300|PHY93_03300 387 AMIITLLVQ 395
                              222222222 PP

>> Polysacc_synt_C  Polysaccharide biosynthesis C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   3.3      0.84   3.8e+03      63     137 ..      23     102 ..      14     108 .. 0.36
   2 ?    0.8   3.1       0.1   4.5e+02      88     133 ..      81     127 ..      67     130 .. 0.61
   3 ?   -0.1  13.0       0.2     9e+02       6      96 ..     121     216 ..     117     254 .. 0.77
   4 !   20.9  11.7   6.5e-08   0.00029      16     141 ..     342     466 ..     329     468 .. 0.73

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 0.84
          Polysacc_synt_C  63 vlallvvavlnlyalrr.llgiklellrrllkpllaalvmgivvylllllllglllla.....al.alllavlvgalvYlll 137
                              +++l++ +++  +   + + ++k+ ++  l  ++ a  + g++  +l++++  l         a+   +++ ++  +v +++
  PHY93_03300|PHY93_03300  23 LIGLVLPMFMSRIVSGNeIGKYKI-MFLYL-AMIPALSFSGGIENGLYYWTGLLHKAKekvrgAWsMAIIQSVIFFIVVIIF 102
                              444444444443333220222333.22222.333333333333222222222222222444443333333333444444443 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.1
          Polysacc_synt_C  88 lrrllkpllaalvmgivvylllllllgllllaal.alllavlvgalv 133
                              +r  + ++++  v++ +v+++++ ++  +l++++ + +   ++g  v
  PHY93_03300|PHY93_03300  81 VRGAWSMAIIQSVIFFIVVIIFSPIIRPWLNWSWdQYISVSIAGLTV 127
                              56677555555555555566999999999999885333333344444 PP

  == domain 3  score: -0.1 bits;  conditional E-value: 0.2
          Polysacc_synt_C   6 alsiiflslstvlssiLqglgrqkialkalvigalvklilnllliplf.givGaaiatvlallvvavlnlyalrrllgikl....e 86 
                              +++ +  +l++++ siL++ ++ +  +++++i   ++ i  l+ i  f ++v +++a ++++++ ++  +y+  ++  +++    +
  PHY93_03300|PHY93_03300 121 SIAGLTVVLASMYESILIARKKIWSGAIFSAIFNTINTITILVTIIIFkSAVMIVWAYAITMMLKIAASYYLGVKEGWVPVgldlK 206
                              6777888999***********************************99945788999999999999999999999998888876553 PP

          Polysacc_synt_C  87 llrrllkpll 96 
                                r++lk+++
  PHY93_03300|PHY93_03300 207 EARSVLKYYF 216
                              3555555544 PP

  == domain 4  score: 20.9 bits;  conditional E-value: 6.5e-08
          Polysacc_synt_C  16 tvlssiLqglgrqkialkalvigalvklilnllliplfgivGaaiatvlallvvavlnlyalrrllgikl...ellrrllkpllaa 98 
                              +++     + g  k++lk+++    + lil  ll  +fg +Ga+ia++++llv  +l + ++ +++ ++l     +++l+ +  +a
  PHY93_03300|PHY93_03300 342 IPYDVAARASGNGKWILKNTIKMGSFSLILCSLLAWKFGPYGALIAMIITLLVQKFLGFNLMLKTYEWSLkemIPVKSLFLYSGLA 427
                              5666667788899999999999999*********************************************7542234443333333 PP

          Polysacc_synt_C  99 lvmgivvylllllllgllllaalalllavlvgalvYlllllll 141
                                +gi+      ll + +++ ++ ++ +++  alvYl+ +++l
  PHY93_03300|PHY93_03300 428 GSLGIA----SILLKNYFNSRLIWFAYCGIPFALVYLGTIFFL 466
                              333333....2333333333334678888899*******9998 PP

>> FtsL  Cell division protein FtsL
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.0   2.7    0.0054        24       9      33 ..     153     177 ..     146     189 .. 0.84
   2 ?    2.0   0.0     0.048   2.2e+02      35      58 ..     264     287 ..     253     298 .. 0.82

  Alignments for each domain:
  == domain 1  score: 5.0 bits;  conditional E-value: 0.0054
                     FtsL   9 llsvgkvlllllllvlvsavavvli 33 
                              +++++++++l++++++ sav++v+ 
  PHY93_03300|PHY93_03300 153 FNTINTITILVTIIIFKSAVMIVWA 177
                              45678999***************97 PP

  == domain 2  score: 2.0 bits;  conditional E-value: 0.048
                     FtsL  35 hqtRqlvselekllserdkLeeew 58 
                                +R+++ +l+++++++dkL++ +
  PHY93_03300|PHY93_03300 264 SVNRVMIPQLATAIERNDKLQAAH 287
                              479*****************9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (497 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       994  (0.0554409); expected 358.6 (0.02)
Passed bias filter:                      289  (0.0161191); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.64u 0.28s 00:00:00.92 Elapsed: 00:00:00.48
# Mc/sec: 3128.78
//
Query:       PHY93_03305|PHY93_03305  [L=328]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.9e-23   82.7   0.0    2.7e-23   82.2   0.0    1.2  1  Polysacc_deac_1  Polysaccharide deacetylase


Domain annotation for each model (and alignments):
>> Polysacc_deac_1  Polysaccharide deacetylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   82.2   0.0   1.5e-27   2.7e-23       5     122 ..      83     281 ..      79     283 .. 0.96

  Alignments for each domain:
  == domain 1  score: 82.2 bits;  conditional E-value: 1.5e-27
                              TSTEEEEEEEESSCSCHHHHHHHHHHCT--EEEEE-HHHHCH-........................................... CS
          Polysacc_deac_1   5 gkksvalTfDdgprdntteilpvLkkykvkatffvigglvedy........................................... 47 
                              ++ + ++TfDdg+ dn++ ++p+Lkk  ++a  f+ ++++ +                                            
  PHY93_03305|PHY93_03305  83 DRVCSMVTFDDGYIDNYEIAYPILKKLSIPAIYFIPTKHIMERtlgwwditaylvkntklssahfresdldlsnkkkviselifel 168
                              5556789*******************************9766679***************************************** PP

                              ...................................HHHHHHHHHTTEEEEE--SS--EGGGSHHHHHHHHHHHHHHHHHHHHS--- CS
          Polysacc_deac_1  48 ...................................pdevremaasGveignHtinhsnlkrlseeevrreierakdalrkalgrep 98 
                                                                 +++++e+ ++G++ig+Ht+ h  l+++s  ++r +i+++kd+l+++l  + 
  PHY93_03305|PHY93_03305 169 kqmepsridgylnelslsldvpipsidiqgkelmsWEQIKEVGQNGITIGSHTHEHVILSKQSLGDLRFQIKKSKDILEEKLRTTI 254
                              ************************************************************************************** PP

                              -EEE-GGGE...E-HHHHHHHHHTT.E CS
          Polysacc_deac_1  99 rlfryPygs...asatvlevarelgfa 122
                              r ++yP g    ++ ++ +v ++lgf+
  PHY93_03305|PHY93_03305 255 RSIAYPVGGhdhFDVETKQVSQDLGFK 281
                              ********97888999999****9997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (328 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       681  (0.0379832); expected 358.6 (0.02)
Passed bias filter:                      511  (0.0285013); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 2165.78
//
Query:       PHY93_03310|PHY93_03310  [L=224]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    3.9e-56  189.6   0.1      5e-56  189.2   0.1    1.1  1  Bac_transf  Bacterial sugar transferase


Domain annotation for each model (and alignments):
>> Bac_transf  Bacterial sugar transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  189.2   0.1   2.8e-60     5e-56       3     183 ..      42     221 ..      41     222 .. 0.91

  Alignments for each domain:
  == domain 1  score: 189.2 bits;  conditional E-value: 2.8e-60
               Bac_transf   3 lfDivlsllalillsplllvialliklessggpvffkqkRvGkngkpFkiyKFRsmvkdaekklgavvklkndpritkvGrflRkt 88 
                              +++ ++++++l++++p++l++a++ikl+  gg+vf++q+RvG+ g++F+i+KFR+m ++ae+++g  +++  dpr+tk+G+flR++
  PHY93_03310|PHY93_03310  42 VIETFFAFFLLLFFLPIMLLMAAAIKLT-MGGSVFYTQTRVGRYGNHFSIIKFRTMIENAEAESGPRLSSIGDPRVTKLGKFLRAS 126
                              57889************9********99.788****************************************************** PP

               Bac_transf  89 slDELPqlinVLkGdMslVGpRPelpeeveeeieeyeeeeerlkvkPGltGlaqvnsgrselsleeklelDleYvenl.slllDlk 173
                              ++DELPql+nV+ GdMs++GpRPe+pe+ve+  +e  ++++r++vkPG+tGlaq+   ++  +++ekle+D+ Y++n+ s+l+++ 
  PHY93_03310|PHY93_03310 127 HFDELPQLMNVIHGDMSFIGPRPERPEFVETFEREIVQYTRRREVKPGITGLAQICLPYD-ATAKEKLEYDVFYIDNQqSILFNFI 211
                              ***************************877444334333677*************87777.9**************9768999999 PP

               Bac_transf 174 illktvkavl 183
                              i + t  +++
  PHY93_03310|PHY93_03310 212 ISYYTALKMM 221
                              9999988876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (224 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       570  (0.0317921); expected 358.6 (0.02)
Passed bias filter:                      266  (0.0148363); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 1524.21
//
Query:       PHY93_03315|PHY93_03315  [L=321]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.7e-50  170.7   0.0    4.4e-50  170.4   0.0    1.1  1  Epimerase        NAD dependent epimerase/dehydratase family
    2.2e-44  152.3   0.0    2.9e-44  151.9   0.0    1.1  1  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
    1.7e-13   50.4   0.3    1.2e-11   44.3   0.2    3.1  2  Polysacc_synt_2  Polysaccharide biosynthesis protein
    3.6e-12   45.9   0.0    1.9e-11   43.5   0.0    1.8  1  3Beta_HSD        3-beta hydroxysteroid dehydrogenase/isomeras
    1.4e-07   31.0   0.0    1.9e-07   30.5   0.0    1.2  1  RmlD_sub_bind    RmlD substrate binding domain
    4.1e-07   29.4   1.1    8.1e-06   25.2   0.1    2.5  2  NAD_binding_4    Male sterility protein
  ------ inclusion threshold ------
       0.11   12.0   0.3       0.63    9.5   0.3    2.1  1  NmrA             NmrA-like family


Domain annotation for each model (and alignments):
>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  170.4   0.0   1.7e-53   4.4e-50       1     241 []       3     251 ..       3     251 .. 0.91

  Alignments for each domain:
  == domain 1  score: 170.4 bits;  conditional E-value: 1.7e-53
                              EEEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHCEEEE--TT-HHHHHHHHHHHT-SEEEE--S---HHHHHHSHHH CS
                Epimerase   1 ilVtGatGfiGsalvkallekgyevigldrlssasntarledlelveldltdrsalerlfkeeqpdavihlAavggvaassedpad 86 
                              ilVtG++G+iGs+++  l +   ++i+ld+ls++++++ l   +l+ ++l d++ l+ +f ++++dav+h+A+   v++s+++pa 
  PHY93_03315|PHY93_03315   3 ILVTGGAGYIGSHVISLLGAIYKDIIVLDNLSTGRPENVLFG-KLIIGELNDQKLLDTIFCDYHIDAVFHFAGSIVVPESVTNPAL 87 
                              8*******************9999*******88888776655.******************************************* PP

                              HHHHHTHHHHHHHHHHHHHTCTEEEEEEEGGGGTSCSS.SSBSTCSTTS----SSHHHHHHHHHHHHHHHHHHHHT-EEEEEEESE CS
                Epimerase  87 fieknlqgtlnlleaarkagvkrllflsSsevYGkdae.qpkeettltgplkpnspYaaaKlageklveayaaqyglnaiilrlfn 171
                              ++++n++++l+l++ + k + k+++f s+++vYG +   +  eet+   p+ p +pY+++Kl+ e+++e++   +++ +++lr+fn
  PHY93_03315|PHY93_03315  88 YYHNNTELSLKLIKTCLKFNTKKFIFSSTAAVYGMPVGgVASEETL---PM-PINPYGRSKLMTEWMLEDVSSVHDFYYVALRYFN 169
                              **********************************888833467777...66.********************************** PP

                              EESTT......S-TTSTTSHHHHHHHHHHTTS.SSEEEET......TST-EEEEEEHHHHHHHHHHHHHHHTT-STTEEEEES CS
                Epimerase 172 lyGpr......ngegevsrvipalirkilegk.qevtllg......dgtalRdflyveDvaeaillvlehvdagdkgeiyniG 241
                              + G+       + +++ ++++  +++   +gk q   ++g      dgt +Rd+++v+D+a+a+  +l+  d+++k +i+n+G
  PHY93_03315|PHY93_03315 170 VAGASstgkigQSTPKATHLLKTAAEV-VTGKrQGMSIFGddyatpDGTCVRDYIHVDDLAQAHADALNYLDSNKKSQILNCG 251
                              *****9877666666666666655544.446669***********************************************98 PP

>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  151.9   0.0   1.1e-47   2.9e-44       1     324 [.       4     306 ..       4     313 .. 0.80

  Alignments for each domain:
  == domain 1  score: 151.9 bits;  conditional E-value: 1.1e-47
                              EEETTTSHHHHHHHHHHHHCT-CCEEEEEEESS-TTHHHHHCTTT...TTGCCEEEEE--TT-HHHHHHHHHHHT-SEEEE--S-- CS
            GDP_Man_Dehyd   1 LiTGiaGfiGsylaelLlekgyevhgivrrsssfntgriehlakdpkeeleenlklhkgDltDssslerllaevqpdevynLAAqs 86 
                              L+TG+aG+iGs+++ lL + + +++++++    ++tgr e++            kl+ g+l+D++ l+ ++ ++++d+v+++A+  
  PHY93_03315|PHY93_03315   4 LVTGGAGYIGSHVISLLGAIYKDIIVLDN----LSTGRPENVLF---------GKLIIGELNDQKLLDTIFCDYHIDAVFHFAGSI 76 
                              9**************99998877777654....45789999873.........279****************************** PP

                              -HHHHTTSHHHHHHHHTHHHHHHHHHHHHCT..TTSEEEEEEEGGGG-S-SSSSB-TTS-----SHHHHHHHHHHHHHHHHHHHH- CS
            GDP_Man_Dehyd  87 hVdvsfekPeytaevnvlGtlrLLeairalglekkvrfyqaStsEvYGkvqevpqtEttpfyPrsPYaaaKlyadwivvnyreayg 172
                               V++s+++P+ ++ +n    l+L++ + + +   +++f+++St+ vYG +     +E+t   P +PY+ +Kl+ +w+ ++    ++
  PHY93_03315|PHY93_03315  77 VVPESVTNPALYYHNNTELSLKLIKTCLKFN---TKKFIFSSTAAVYGMPVGGVASEETLPMPINPYGRSKLMTEWMLEDVSSVHD 159
                              ****************999999999998876...579************************************************* PP

                              --EEEEEE-EEESTTS-TTS.....CCCHHHHHHHHHHTTS.-C-EECTTTT-EEEEEEHHHHHHHHHHHHHCSS---EEE-TT-E CS
            GDP_Man_Dehyd 173 lfavngilfnhesprrgetf.....vtrkitravarialgk.qevlylGnldakRdwghvkDyveamwlmlqqdkpedyviatget 252
                              ++ v  ++fn  +   + ++        ++ +++a++  gk q + ++G+ +a+ d + v+Dy+++ +l+  +  + +y+  ++++
  PHY93_03315|PHY93_03315 160 FYYVALRYFNVAGASSTGKIgqstpKATHLLKTAAEVVTGKrQGMSIFGDDYATPDGTCVRDYIHVDDLAQAHADALNYL-DSNKK 244
                              **********66665544322211145567788889999994556667*******************9855554433332.22222 PP

                              EECHHCHHCCHHCCCHHHHHH............TTGGCCCEECGG--SS--SB--B-THHHHHHH----SS- CS
            GDP_Man_Dehyd 253 hsvrefvelaflelgktiewegkgeeevgrakesgkvvvevdpkyfrpgevdlllgdaskakeeLgWkpkvs 324
                                       ++l++g    ++ k++ +  ++++   ++  v+++++r+g+ d+l+  a+k+k+ LgW+pk++
  PHY93_03315|PHY93_03315 245 S--------QILNCGYGHGFSVKEVLN--TVESITGKKLAVEMAPRREGDPDMLISKAQKIKNVLGWTPKYD 306
                              2........233333333333333322..2334445578999****************************96 PP

>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.3   0.2   4.6e-15   1.2e-11       1     175 [.       3     174 ..       3     179 .. 0.82
   2 ?   -2.8   0.0       1.1   2.7e+03     235     276 ..     224     264 ..     219     278 .. 0.72

  Alignments for each domain:
  == domain 1  score: 44.3 bits;  conditional E-value: 4.6e-15
                              EEEETTTSHHHHHHHHHHHHHB-SEEEEEES-HHHHHHHHHH......-TTEEEE....E--TT-HHHHHHHTT..T-SEEEE--- CS
          Polysacc_synt_2   1 vlvtGagGsiGselvrqilkkkpkkiillerdElklyeiekeleeelkkkklkveivpvigdvrdkerlekaleelkvdvvfhaAA 86 
                              +lvtG++G iGs++++ +l    k ii+l++  +     + e+        + ++   +ig+++d++ l++++ ++++d+vfh A 
  PHY93_03315|PHY93_03315   3 ILVTGGAGYIGSHVIS-LLGAIYKDIIVLDNLSTG----RPEN--------V-LFGKLIIGELNDQKLLDTIFCDYHIDAVFHFAG 74 
                              89***********997.566678999999864332....2222........2.233568*************************** PP

                              ---HHHHHHSHHHHHHHHHHHHHHHHHHHHHTT-SEEEEEEEGGGSS...............--SHHHHHHHHHHHHHHHGGG--S CS
          Polysacc_synt_2  87 lKhVPlveenpleaiktNvlgtenvieaaieagvkkvvliStDKAvn...............PtnvmGatKrlaekllqalakese 157
                                 VP   +np+   ++N   + ++i+++++ + kk+++ St    +               P+n +G +K+++e +l  +++ + 
  PHY93_03315|PHY93_03315  75 SIVVPESVTNPALYYHNNTELSLKLIKTCLKFNTKKFIFSSTAAV-YgmpvggvaseetlpmPINPYGRSKLMTEWMLEDVSSVH- 158
                              ***************************************999643.11222222233444449***************9999998. PP

                              SS--EEEEEEE-EETTGT CS
          Polysacc_synt_2 158 ekktkfvvvRfGNVlgSr 175
                                +  +v+ R+ NV g++
  PHY93_03315|PHY93_03315 159 --DFYYVALRYFNVAGAS 174
                              ..899*********9865 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 1.1
                              EHHHHHHHH..........SSSS-EEE----TT--SS-EEE- CS
          Polysacc_synt_2 235 kivdlakalielsgleekkeedieikitGlRpGEklyEeLli 276
                              ++ dla+a  +  ++  ++ ++ +i  +G  +G  + E L +
  PHY93_03315|PHY93_03315 224 HVDDLAQAHADALNYLDSN-KKSQILNCGYGHGFSVKEVLNT 264
                              6778888888777765554.7888888888888888888876 PP

>> 3Beta_HSD  3-beta hydroxysteroid dehydrogenase/isomerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.5   0.0   7.3e-15   1.9e-11       1     240 [.       4     247 ..       4     253 .. 0.74

  Alignments for each domain:
  == domain 1  score: 43.5 bits;  conditional E-value: 7.3e-15
                3Beta_HSD   1 vvtGgaGFlGralvkeLvrleelkevrvlDlrespelleelskvnvkkviegDvtdkdkleealeg..vdvvihlaslvdvag.kl 83 
                              +vtGgaG++G+++++ L  +   k++ vlD     +     ++v   k+i g ++d++ l+    +  +d+v+h a+ + v   ++
  PHY93_03315|PHY93_03315   4 LVTGGAGYIGSHVISLLGAIY--KDIIVLDNLSTGRP----ENVLFGKLIIGELNDQKLLDTIFCDyhIDAVFHFAGSIVVPEsVT 83 
                              69*************999888..7******8777776....667777789************976533899*****9999977478 PP

                3Beta_HSD  84 tedeimkvnvkGTrnvleacvkagvrvlvYtSsaevvgpnslgeeilngdEeleyeslhqdaypesKalaEklvlkaNgrtlkngg 169
                              +   +++ n +   +++++c+k + +++++ S+a v g      ++  g  ++e  +++ ++y +sK + E ++            
  PHY93_03315|PHY93_03315  84 NPALYYHNNTELSLKLIKTCLKFNTKKFIFSSTAAVYGM-----PVG-GVASEETLPMPINPYGRSKLMTEWMLEDVSS-----VH 158
                              8889999***************************99998.....333.44444444566789*********99876555.....77 PP

                3Beta_HSD 170 rlyTcaLRpagiyGegdk............llvpllkqlaklglalfkigde......evlsdrvYvgNvawahilAaralqdpkk 237
                              ++y +aLR   + G  ++            ll+++++ ++ +++ +   gd+        + d++ v+ +a+ah  A  +l+++kk
  PHY93_03315|PHY93_03315 159 DFYYVALRYFNVAGASSTgkigqstpkathLLKTAAEVVTGKRQGMSIFGDDyatpdgTCVRDYIHVDDLAQAHADALNYLDSNKK 244
                              89******9999886543222211111111223333333344555555554411111167889999***************99977 PP

                3Beta_HSD 238 kss 240
                              ++ 
  PHY93_03315|PHY93_03315 245 SQI 247
                              654 PP

>> RmlD_sub_bind  RmlD substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.5   0.0   7.5e-11   1.9e-07       1     138 [.       1     153 [.       1     178 [. 0.92

  Alignments for each domain:
  == domain 1  score: 30.5 bits;  conditional E-value: 7.5e-11
                              EEEEEESTTSHHHHHHHHHCTTTSEEEEEE-TT..............T--TTSHHHHHHHHHHH--SEEEE------HHHHHHSHH CS
            RmlD_sub_bind   1 mkilvtGanGqlGseLakqlaeeglevlaltre..............eldltdaeavaellkeakpdvvvnaAAytavDkaEseee 72 
                              m+ilvtG+ G +Gs+++ +l +   +++ l++                 +l+d++ +++++ + + d+v + A    v +  ++++
  PHY93_03315|PHY93_03315   1 MTILVTGGAGYIGSHVISLLGAIYKDIIVLDNLstgrpenvlfgkliIGELNDQKLLDTIFCDYHIDAVFHFAGSIVVPESVTNPA 86 
                              89******************997778887765567889******999999************************************ PP

                              HHHHHHTHHHHHHHHHHHHCT-.EEEEEEEGGGS-S-TTS-B-TTS----SSHHHHHHHHHHHHHHH CS
            RmlD_sub_bind  73 aayavnaeavealAeaaaavga.lLihvStDyVFdGekkrpYeeddetsPlnvYGrtKlaGEqavla 138
                              + y+ n e + +l + + + +  ++i+ St  V+        +e+  + P+n YGr+Kl  E + ++
  PHY93_03315|PHY93_03315  87 LYYHNNTELSLKLIKTCLKFNTkKFIFSSTAAVYGMPVGGVASEETLPMPINPYGRSKLMTEWMLED 153
                              ******************998637***********9999999******************9987765 PP

>> NAD_binding_4  Male sterility protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.1     0.036        91       1      15 [.       5      19 ..       5      30 .. 0.84
   2 !   25.2   0.1   3.2e-09   8.1e-06      87     220 ..      65     184 ..      57     207 .. 0.87

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.036
                             EE-TTSHHHHHHHHH CS
            NAD_binding_4  1 lTGaTGFLGkvLlek 15
                             +TG+ G++G++++  
  PHY93_03315|PHY93_03315  5 VTGGAGYIGSHVISL 19
                             7**********9975 PP

  == domain 2  score: 25.2 bits;  conditional E-value: 3.2e-09
                              H--EEEE--SS-S.STTSSE...EHHHHHHHHHHHHHHHTSSS--.-EEEEEEGGGTTS-TTT--SSS-H......HHH--EEEET CS
            NAD_binding_4  87 evdviihsaAtvnfdepyke...llrvNveGtrevlelakklkklkvllhvSTayvngeregeveekvyeegekeekldederakl 169
                              ++d+++h a+++ + e++ +    +  N+e   ++++ + k + +  +++ STa+v+g   g v                 ++++l
  PHY93_03315|PHY93_03315  65 HIDAVFHFAGSIVVPESVTNpalYYHNNTELSLKLIKTCLKFNTK-KFIFSSTAAVYGMPVGGV----------------ASEETL 133
                              69**************99996667788999999999999999999.**************9998................455677 PP

                              TTCCCHHHHHHHHHHHHHHHHHHHH---EEEEEE-EEE--SSST---TTSH CS
            NAD_binding_4 170 kglpntYeqsKalaEklvrearrrsglpvvivRpsiitgesktGwingsdl 220
                                  n Y +sK + E ++++ ++ +++  v +R  ++ g s+tG i +s  
  PHY93_03315|PHY93_03315 134 PMPINPYGRSKLMTEWMLEDVSSVHDFYYVALRYFNVAGASSTGKIGQSTP 184
                              7888****************************************9987763 PP

>> NmrA  NmrA-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.3   0.00025      0.63       1     102 [.       3     116 ..       3     120 .. 0.70

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00025
                              EEESSTTSHHHHHHHHHHHHHT-EEEEEES-S-SHHHHHHHHSTTEEEES-TT-HHHHHHHHTT..-SEEEE---GG......... CS
                     NmrA   1 IlviGaTGrqGksvvrallkaghkvralvRdtkselakslkeaGvelvkgdlddkeslvealkg..vdvvfsvtgfy......... 75 
                              Ilv+G++G++G++v++ l +  +k  +++ ++++ + +++   G +l+ g+l+d+++l++++ +   d+vf   g+          
  PHY93_03315|PHY93_03315   3 ILVTGGAGYIGSHVISLLGAI-YKDIIVLDNLSTGRPENVL-FG-KLIIGELNDQKLLDTIFCDyhIDAVFHFAGSIvvpesvtnp 85 
                              89*************977654.4444444555554444442.33.57778888888888888642267788777766777778888 PP

                              ....S-HHHHHHHHHHHHHHHS-SEEEEEE- CS
                     NmrA  76 ....skeiedgkklvdAakeaGvkhfiySsl 102
                                  ++++e   kl++   +   k+fi+Ss 
  PHY93_03315|PHY93_03315  86 alyyHNNTELSLKLIKTCLKFNTKKFIFSST 116
                              8888888888888888888888888888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (321 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       447  (0.0249317); expected 358.6 (0.02)
Passed bias filter:                      402  (0.0224218); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.58u 0.28s 00:00:00.86 Elapsed: 00:00:00.46
# Mc/sec: 2108.45
//
Query:       PHY93_17045|PHY93_17045  [L=165]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (165 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       585  (0.0326287); expected 358.6 (0.02)
Passed bias filter:                      440  (0.0245412); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 1134.31
//
Query:       PHY93_03320|PHY93_03320  [L=184]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      2e-14   53.4   0.0    2.9e-14   52.9   0.0    1.2  1  4PPT_N    4'-phosphopantetheinyl transferase N-terminal domai
    7.2e-09   35.8   0.0    1.1e-08   35.2   0.0    1.3  1  ACPS      4'-phosphopantetheinyl transferase superfamily


Domain annotation for each model (and alignments):
>> 4PPT_N  4'-phosphopantetheinyl transferase N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.9   0.0   3.2e-18   2.9e-14       8      68 .]       3      64 ..       1      64 [. 0.92

  Alignments for each domain:
  == domain 1  score: 52.9 bits;  conditional E-value: 3.2e-18
                   4PPT_N  8 kavakRkaeFlaGRicAraalarl.gleavpllsgerraPlwpaglvgSIsHtdglaaAava 68
                               ++ R++eFl GR+cA +a + + g e   ++ + +r+P wp++++gSIsH++ +  Aav+
  PHY93_03320|PHY93_03320  3 TFHPDRRNEFLLGRVCASKAFEMHfGTELLSIPISLNRSPDWPQEVIGSISHNQYWVGAAVS 64
                             56789****************98857778999999*************************97 PP

>> ACPS  4'-phosphopantetheinyl transferase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.2   0.0   1.3e-12   1.1e-08       1      88 [.      71     148 ..      71     171 .. 0.73

  Alignments for each domain:
  == domain 1  score: 35.2 bits;  conditional E-value: 1.3e-12
                              EEEEEEEEHHHHH.HHH-----HHHHHS-HHHHHHHTT--HHHHHHHHHHHHHHHHHHHHHTTS-SSSS--GGG-EEEE-TTS-EE CS
                     ACPS   1 gvGiDieklsrlrkrvkrrgakilkrifteeErkllkssdeearaelfarlWaaKEAllKalgpglrklldfksievledstgrpt 86 
                              g+GiD e        + r   ++++ i + e++k   s ++    el++++++aKE+l+Kal+p  + +++f+++ v+e + ++ t
  PHY93_03320|PHY93_03320  71 GIGIDFE-------VMGRTKLELARYIRSSEDLKTHHSLNDN---ELLTLIFSAKESLYKALYPTAKCFFGFETAAVREIDISNGT 146
                              6999999.......3334556778888888888865554444...57***************************666655544444 PP

                              EE CS
                     ACPS  87 le 88 
                               +
  PHY93_03320|PHY93_03320 147 FK 148
                              43 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (184 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       278  (0.0155056); expected 358.6 (0.02)
Passed bias filter:                      267  (0.0148921); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.27s 00:00:00.72 Elapsed: 00:00:00.45
# Mc/sec: 1234.75
//
Query:       PHY93_03325|PHY93_03325  [L=776]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.5e-16   60.2  14.9    0.00058   18.8   0.2    6.6  8  Sortilin-Vps10  Sortilin, neurotensin receptor 3,
      1e-06   27.8  48.4       0.46   10.7   0.2   12.3 12  BNR             BNR/Asp-box repeat
    0.00011   22.0  16.9       0.09   12.9   0.2    6.3  7  BNR_6           BNR-Asp box repeat
  ------ inclusion threshold ------
       0.14   12.2   0.0       0.32   11.0   0.0    1.5  1  DUF5391         Family of unknown function (DUF5391)
       0.16   12.2   4.2        2.5    8.3   0.5    3.8  4  CBM65_1         Carbohydrate binding module 65 domain 1


Domain annotation for each model (and alignments):
>> Sortilin-Vps10  Sortilin, neurotensin receptor 3,
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    3.0   0.0    0.0099        35      38      62 ..      67      91 ..      51     117 .. 0.70
   2 !    4.6   0.1    0.0032        12       2      63 ..      75     140 ..      74     161 .. 0.66
   3 !   17.1   0.2   5.1e-07    0.0018       5     111 ..     126     222 ..     122     235 .. 0.78
   4 !   17.5   0.2   3.9e-07    0.0014       3     124 ..     168     284 ..     166     314 .. 0.72
   5 !    3.8   0.2    0.0055        20      28      58 ..     300     337 ..     276     351 .. 0.58
   6 !    7.6   0.1   0.00039       1.4       9      84 ..     420     490 ..     417     511 .. 0.81
   7 !   11.9   0.0     2e-05     0.071       3      85 ..     512     596 ..     510     633 .. 0.71
   8 !   18.8   0.2   1.6e-07   0.00058      27     111 ..     662     740 ..     648     767 .. 0.68

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.0099
                             EEEEEES-EEEEESSTTSSEEEEE- CS
           Sortilin-Vps10 38 aylltdskklyvttDrGktwkkfkl 62
                              ++ td ++l+ +tD Gk+w+ ++ 
  PHY93_03325|PHY93_03325 67 WFVGTDMGTLFKSTDLGKSWNPVNH 91
                             5566677778888888888876543 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.0032
                              EEEEESSTTSS-EE-GGGGTTEEBE...-EEE-STTS--EEEEEE..S-EEEEESSTTSSEEEEE-S CS
           Sortilin-Vps10   2 evyiSeDeGktwkkvkeklkgeaiq...eivvhpfdkkkaylltd..skklyvttDrGktwkkfklp 63 
                              +++ S+D Gk+w+ v++ +   + +   + v   f  +   ++++  + +  ++tD+G+t++++ ++
  PHY93_03325|PHY93_03325  75 TLFKSTDLGKSWNPVNHYQATFD-SdlsKSVSIGFAADGTTVFHSsaGVNPKRSTDAGNTFSSVAME 140
                              67889999999999986332222.2244344444444433333332377778999999999988765 PP

  == domain 3  score: 17.1 bits;  conditional E-value: 5.1e-07
                              EESSTTSS-EE-GGGGTTEEBE-EEE-STTS--EEEEEES-EEEEESSTTSSEEEEE-SS-BS...S--EEESSETTEEEEE.... CS
           Sortilin-Vps10   5 iSeDeGktwkkvkeklkgeaiqeivvhpfdkkkaylltdskklyvttDrGktwkkfklpfkpslsaeplsfhakdkdwlialgekk 90 
                              +S+D+G+t++ v  +l + ++ +++ ++ +++++++ +++k ++ ++D+G +w +++  ++ +   +   ++++ + + i++    
  PHY93_03325|PHY93_03325 126 RSTDAGNTFSSVAMELVSGELIKYWLSDSSNSNVMFAGTTKGILKSSDNGVSWFRISGITEEA---TGTFIDQRSPTKRIYH---- 204
                              799999999999877766666689999999999999999999999999999999987766666...3555666777777777.... PP

                              ...BTTS-EEEESSTTSSEEE CS
           Sortilin-Vps10  91 eskdckkkayystdggkswkk 111
                                  +++++ ys+++g s+++
  PHY93_03325|PHY93_03325 205 ---ATTEQVLYSDNDGVSFST 222
                              ...677777778877777665 PP

  == domain 4  score: 17.5 bits;  conditional E-value: 3.9e-07
                              EEEESSTTSS-EE-GGGGTTEEBE-EEE-STTS--EEEEEES-EEEEESSTTSSEEEEE-SS-BS...S--EEESSETTEEEEE.. CS
           Sortilin-Vps10   3 vyiSeDeGktwkkvkeklkgeaiqeivvhpfdkkkaylltdskklyvttDrGktwkkfklpfkpslsaeplsfhakdkdwlialge 88 
                              +  S+D+G++w +++  +++ a  +++ ++   k++y   ++++++++++ G +++++  p+++    ++++  ++++ + +alg 
  PHY93_03325|PHY93_03325 168 ILKSSDNGVSWFRISGITEE-ATGTFIDQRSPTKRIYH-ATTEQVLYSDNDGVSFSTYYHPATAI---RQFAGGSDENGVTLALGD 248
                              678***********975555.55456666666666665.667999*************9999998...799999999999999999 PP

                              .....BTTS-EEEESSTTSSEEEEESSEEEEEE-S. CS
           Sortilin-Vps10  89 kkeskdckkkayystdggkswkklqesvkkcewaks 124
                              +   + c+ ++ y +d g++    +   +++ w ++
  PHY93_03325|PHY93_03325 249 SDGPNACSWVYPYLNDWGRNLIDQTIANCGFVWVNK 284
                              999999999999999999986555555555555442 PP

  == domain 5  score: 3.8 bits;  conditional E-value: 0.0055
                              EEE-STTS--EEEEEE.......S-EEEEESSTTSSEE CS
           Sortilin-Vps10  28 ivvhpfdkkkaylltd.......skklyvttDrGktwk 58 
                              + + + d++++y ++        ++k+yv++DrG +w+
  PHY93_03325|PHY93_03325 300 LKMAENDSSTIYTTGGrrwirqyGTKVYVSHDRGGSWS 337
                              33444444444444434444444555555555555553 PP

  == domain 6  score: 7.6 bits;  conditional E-value: 0.00039
                              TTSS-EE-GGGGTTEEBE-EEE-STTS--EEEEEES-EEEEESSTTSSEEEEE-SS-BS...S--EEESSETTEEE CS
           Sortilin-Vps10   9 eGktwkkvkeklkgeaiqeivvhpfdkkkaylltdskklyvttDrGktwkkfklpfkpslsaeplsfhakdkdwli 84 
                              +G+twk     l+ +++ +  +hp +++  y+  ++ +  v++D+G++++ +++ f+      + +f+++d+ ++ 
  PHY93_03325|PHY93_03325 420 QGQTWKSTG--LEVTSVYKTKFHPSNSSLLYAAMADISGSVSEDHGASFRITQTGFNSI---YDYAFDPNDDLVVF 490
                              799999986..566666689999999999999999999999999999999999999887...68888887655554 PP

  == domain 7  score: 11.9 bits;  conditional E-value: 2e-05
                              EEEESSTTSS-EE-GGGGTTEEBE-EEE-STTS--EEEEEE..S-EEEEESSTTSSEEEEE-SS-BS....S--EEESSETTEEEE CS
           Sortilin-Vps10   3 vyiSeDeGktwkkvkeklkgeaiqeivvhpfdkkkaylltd..skklyvttDrGktwkkfklpfkpsl.saeplsfhakdkdwlia 85 
                              ++ S++ Gk+w++++   + +  +++    +d ++ ++ +   +  +  + D G++wk+ ++  ++ +   ++++++++  +   +
  PHY93_03325|PHY93_03325 512 LFKSSNRGKSWTRITP-VDATYNRQFLSIAYDARNNIIYGGtqEIGIVSSADGGASWKSDNMGLPAGNkIIPQIEIDPNTGNAYAL 596
                              688***********96.5556666788888887777777662266678899*******9888887776678888888876554333 PP

  == domain 8  score: 18.8 bits;  conditional E-value: 1.6e-07
                              -EEE-STTS--EEEEEES-EEEEESSTTSSEEEEE-SS-BS...S--EEESSETTEEEEE........BTTS-EEEESSTTSSEEE CS
           Sortilin-Vps10  27 eivvhpfdkkkaylltdskklyvttDrGktwkkfklpfkpslsaeplsfhakdkdwlialgek.keskdckkkayystdggkswkk 111
                              +i+  ++++++  l+t    ++ ttD+G+tw+++k  ++++    ++++++kd++++ ++g++  +++  +     s+dgg +w k
  PHY93_03325|PHY93_03325 662 TIYLADYENHSNWLMT---GVWKTTDKGATWNRVKQVTHAT----EVKIDPKDSNKIYVVGYHqLDGNWGDGGELHSKDGGVTWFK 740
                              5667777777777766...4777777777777777777777....77777777777777777755555566667777777777754 PP

>> BNR  BNR/Asp-box repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.3   0.0    0.0017       6.2       2      11 ..      78      87 ..      77      88 .. 0.86
   2 ?    2.0   0.1     0.097   3.5e+02       2      11 ..     126     135 ..     125     136 .. 0.88
   3 ?    4.7   0.1     0.012        44       3      10 ..     171     178 ..     169     180 .. 0.88
   4 ?    4.2   0.1     0.017        62       2      12 .]     212     222 ..     211     222 .. 0.90
   5 !   10.7   0.2   0.00013      0.46       1      12 []     327     338 ..     327     338 .. 0.93
   6 ?   -1.2   0.5         1   3.8e+03       5      10 ..     400     405 ..     398     405 .. 0.89
   7 ?    1.4   0.3      0.15   5.5e+02       6      11 ..     420     425 ..     420     426 .. 0.87
   8 ?    1.1   0.0      0.18   6.5e+02       2      10 ..     458     466 ..     457     467 .. 0.88
   9 !    5.5   0.2    0.0063        23       2      11 ..     514     523 ..     513     524 .. 0.85
  10 !    5.7   0.2    0.0057        20       3      11 ..     560     568 ..     558     569 .. 0.90
  11 !    5.2   0.7    0.0084        30       2      11 ..     681     690 ..     680     691 .. 0.85
  12 !    8.0   0.1   0.00095       3.4       2      11 ..     730     739 ..     729     740 .. 0.87

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0017
                             EESSTTSS-E CS
                      BNR  2 yStDgGktWs 11
                              StD Gk+W+
  PHY93_03325|PHY93_03325 78 KSTDLGKSWN 87
                             6********7 PP

  == domain 2  score: 2.0 bits;  conditional E-value: 0.097
                              EESSTTSS-E CS
                      BNR   2 yStDgGktWs 11 
                               StD G t+s
  PHY93_03325|PHY93_03325 126 RSTDAGNTFS 135
                              6******998 PP

  == domain 3  score: 4.7 bits;  conditional E-value: 0.012
                              ESSTTSS- CS
                      BNR   3 StDgGktW 10 
                              S D+G +W
  PHY93_03325|PHY93_03325 171 SSDNGVSW 178
                              99****** PP

  == domain 4  score: 4.2 bits;  conditional E-value: 0.017
                              EESSTTSS-EE CS
                      BNR   2 yStDgGktWsk 12 
                              yS++ G ++s+
  PHY93_03325|PHY93_03325 212 YSDNDGVSFST 222
                              9********85 PP

  == domain 5  score: 10.7 bits;  conditional E-value: 0.00013
                              EEESSTTSS-EE CS
                      BNR   1 yyStDgGktWsk 12 
                              y+S+D+G +Ws+
  PHY93_03325|PHY93_03325 327 YVSHDRGGSWSL 338
                              89********95 PP

  == domain 6  score: -1.2 bits;  conditional E-value: 1
                              STTSS- CS
                      BNR   5 DgGktW 10 
                              +gG +W
  PHY93_03325|PHY93_03325 400 NGGDNW 405
                              8***** PP

  == domain 7  score: 1.4 bits;  conditional E-value: 0.15
                              TTSS-E CS
                      BNR   6 gGktWs 11 
                              +G+tW+
  PHY93_03325|PHY93_03325 420 QGQTWK 425
                              7****8 PP

  == domain 8  score: 1.1 bits;  conditional E-value: 0.18
                              EESSTTSS- CS
                      BNR   2 yStDgGktW 10 
                              +S D+G ++
  PHY93_03325|PHY93_03325 458 VSEDHGASF 466
                              799***998 PP

  == domain 9  score: 5.5 bits;  conditional E-value: 0.0063
                              EESSTTSS-E CS
                      BNR   2 yStDgGktWs 11 
                               S ++Gk+W+
  PHY93_03325|PHY93_03325 514 KSSNRGKSWT 523
                              699******8 PP

  == domain 10  score: 5.7 bits;  conditional E-value: 0.0057
                              ESSTTSS-E CS
                      BNR   3 StDgGktWs 11 
                              S DgG +W+
  PHY93_03325|PHY93_03325 560 SADGGASWK 568
                              89******8 PP

  == domain 11  score: 5.2 bits;  conditional E-value: 0.0084
                              EESSTTSS-E CS
                      BNR   2 yStDgGktWs 11 
                               +tD G tW+
  PHY93_03325|PHY93_03325 681 KTTDKGATWN 690
                              69*******8 PP

  == domain 12  score: 8.0 bits;  conditional E-value: 0.00095
                              EESSTTSS-E CS
                      BNR   2 yStDgGktWs 11 
                              +S+DgG tW 
  PHY93_03325|PHY93_03325 730 HSKDGGVTWF 739
                              69*******6 PP

>> BNR_6  BNR-Asp box repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.0     0.013        45       1      11 [.      76      86 ..      76      89 .. 0.93
   2 ?   -3.9   0.4         5   1.8e+04       3      11 ..     170     178 ..     170     178 .. 0.80
   3 !   10.5   0.1   0.00015      0.53       2      11 ..     327     336 ..     326     339 .. 0.94
   4 ?    1.5   0.0      0.11   4.1e+02       3      11 ..     458     466 ..     458     470 .. 0.91
   5 !   12.9   0.2   2.5e-05      0.09       1      13 [.     512     524 ..     512     525 .. 0.90
   6 ?   -1.8   0.1       1.4     5e+03       8      13 ..     564     569 ..     560     571 .. 0.71
   7 ?   -2.6   0.0       2.5   8.9e+03       7      13 ..     650     656 ..     650     657 .. 0.83

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.013
                    BNR_6  1 LyrSeDfGknf 11
                             L++S D Gk++
  PHY93_03325|PHY93_03325 76 LFKSTDLGKSW 86
                             8********** PP

  == domain 2  score: -3.9 bits;  conditional E-value: 5
                    BNR_6   3 rSeDfGknf 11 
                              +S+D G ++
  PHY93_03325|PHY93_03325 170 KSSDNGVSW 178
                              599988887 PP

  == domain 3  score: 10.5 bits;  conditional E-value: 0.00015
                    BNR_6   2 yrSeDfGknf 11 
                              y+S+D+G+++
  PHY93_03325|PHY93_03325 327 YVSHDRGGSW 336
                              9********* PP

  == domain 4  score: 1.5 bits;  conditional E-value: 0.11
                    BNR_6   3 rSeDfGknf 11 
                              +SeD G++f
  PHY93_03325|PHY93_03325 458 VSEDHGASF 466
                              7******99 PP

  == domain 5  score: 12.9 bits;  conditional E-value: 2.5e-05
                    BNR_6   1 LyrSeDfGknfkq 13 
                              L++S+++Gk+++ 
  PHY93_03325|PHY93_03325 512 LFKSSNRGKSWTR 524
                              8**********85 PP

  == domain 6  score: -1.8 bits;  conditional E-value: 1.4
                    BNR_6   8 Gknfkq 13 
                              G+++k+
  PHY93_03325|PHY93_03325 564 GASWKS 569
                              888886 PP

  == domain 7  score: -2.6 bits;  conditional E-value: 2.5
                    BNR_6   7 fGknfkq 13 
                              f++nf +
  PHY93_03325|PHY93_03325 650 FAINFNS 656
                              99***76 PP

>> DUF5391  Family of unknown function (DUF5391)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0     9e-05      0.32       6      36 ..      11      41 ..       7      47 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 9e-05
                  DUF5391  6 kkssviivtllsavlfcsllvvtslsPladt 36
                              k++++++++l+ ++fc +  +t+l+Pl+ t
  PHY93_03325|PHY93_03325 11 IKNKILFLSVLTFIFFCEVQAATTLTPLTST 41
                             699*************************876 PP

>> CBM65_1  Carbohydrate binding module 65 domain 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0      0.85   3.1e+03      55      71 ..      80      97 ..      63     110 .. 0.67
   2 ?   -1.0   0.0      0.52   1.8e+03      25      65 ..     146     182 ..     127     194 .. 0.70
   3 ?    1.9   0.0     0.068   2.4e+02      52      80 ..     516     541 ..     496     567 .. 0.79
   4 ?    8.3   0.5    0.0007       2.5      39      70 ..     667     698 ..     640     726 .. 0.71

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.85
                  CBM65_1 55 pdagagWakvapaevd.a 71
                             +d g++W+ v+ ++++ +
  PHY93_03325|PHY93_03325 80 TDLGKSWNPVNHYQATfD 97
                             348999999998888743 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.52
                  CBM65_1  25 fdasrltknseiaVdYtseeeveLilqswspdagagWakva 65 
                              + + +l++ s  +V + +  + + il s+  d+g +W +++
  PHY93_03325|PHY93_03325 146 LIKYWLSDSSNSNVMFAG--TTKGILKSS--DNGVSWFRIS 182
                              555567777777777777..555577774..5999999997 PP

  == domain 3  score: 1.9 bits;  conditional E-value: 0.068
                  CBM65_1  52 swspdagagWakvapaevdaedgtakfty 80 
                              s   + g++W+++ p  ++ + +  ++ y
  PHY93_03325|PHY93_03325 516 S---NRGKSWTRITPVDATYNRQFLSIAY 541
                              2...379********99996655555555 PP

  == domain 4  score: 8.3 bits;  conditional E-value: 0.0007
                  CBM65_1  39 dYtseeeveLilqsws.pdagagWakvapaevd 70 
                              dY++ ++  L++  w+ +d+ga W++v++ + +
  PHY93_03325|PHY93_03325 667 DYEN-HSNWLMTGVWKtTDKGATWNRVKQVTHA 698
                              5555.777789999**999*********98877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (776 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       390  (0.0217525); expected 358.6 (0.02)
Passed bias filter:                      298  (0.0166211); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.70u 0.29s 00:00:00.99 Elapsed: 00:00:00.46
# Mc/sec: 5035.96
//
Query:       PHY93_03330|PHY93_03330  [L=274]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-20   73.9   0.0    3.2e-20   72.6   0.0    1.7  2  Methyltransf_11  Methyltransferase domain
    4.4e-18   65.8   0.0    8.9e-18   64.8   0.0    1.5  1  Methyltransf_25  Methyltransferase domain
    8.4e-16   58.1   0.1    2.3e-15   56.7   0.1    1.6  2  Methyltransf_31  Methyltransferase domain
    1.7e-13   50.8   0.0    2.3e-13   50.3   0.0    1.2  1  Methyltransf_23  Methyltransferase domain
    1.7e-10   40.7   0.0    2.1e-10   40.3   0.0    1.2  1  Ubie_methyltran  ubiE/COQ5 methyltransferase family
    7.7e-10   39.4   0.1    2.6e-09   37.7   0.0    1.9  2  Methyltransf_12  Methyltransferase domain
    5.3e-06   26.0   0.0    9.4e-06   25.2   0.0    1.4  1  TehB             Tellurite resistance protein TehB
    4.9e-05   23.3   0.1     0.0016   18.3   0.1    2.2  1  Methyltransf_8   Hypothetical methyltransferase
    0.00019   20.8   0.0    0.00028   20.3   0.0    1.3  1  CMAS             Mycolic acid cyclopropane synthetase
    0.00057   19.4   0.0    0.00083   18.8   0.0    1.2  1  PrmA             Ribosomal protein L11 methyltransferase (Prm
     0.0018   17.3   0.0     0.0027   16.7   0.0    1.2  1  Methyltransf_9   Protein of unknown function (DUF1698)
  ------ inclusion threshold ------
      0.021   14.8   0.0      0.032   14.2   0.0    1.3  1  Methyltransf_32  Methyltransferase domain
      0.043   13.4   0.0      0.068   12.7   0.0    1.3  1  MTS              Methyltransferase small domain
      0.065   12.9   0.0        0.1   12.3   0.0    1.3  1  TPMT             Thiopurine S-methyltransferase (TPMT)
       0.13   12.6   0.0       0.25   11.7   0.0    1.4  1  AdoMet_MTase     Predicted AdoMet-dependent methyltransferase


Domain annotation for each model (and alignments):
>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.6   0.0   2.7e-23   3.2e-20       1      96 []      72     168 ..      72     168 .. 0.95
   2 ?   -1.9   0.0       4.7   5.6e+03      60      90 ..     208     239 ..     191     240 .. 0.76

  Alignments for each domain:
  == domain 1  score: 72.6 bits;  conditional E-value: 2.7e-23
                              EEET-TTSHHHHHHHHTTSEEEEEES-HHHHHHHHHHCCHHT-..EEEETTEECCCTSS-TT-EEEEEEES-CCC-CCHHHHHHHH CS
          Methyltransf_11   1 LdvGcGtGrlaealakrgarvvgvDlskemlklakekaseegl..kvefvvadaeklpfednsfDlvvssevlhhvedpekalkei 84 
                              Ld+GcG G ++  +a++g++v g+D++++ ++ +k   +++++  + +f+v+ aek+pf+d+sf +vv    lhhv d  ka++e+
  PHY93_03330|PHY93_03330  72 LDFGCGPGDNSLRFARAGYKVAGFDICEKNINSCKILFEKNNNseQGNFLVGVAEKIPFADESFEVVVGIDILHHV-DIPKAISEV 156
                              8*********************************88888888888778****************************.7******** PP

                              HHHEEEEEEEEE CS
          Methyltransf_11  85 aRvLkpgGllvi 96 
                               RvLk++G+ ++
  PHY93_03330|PHY93_03330 157 QRVLKKDGIAIF 168
                              *********986 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 4.7
                              T-EEEEEEES-CCC-.CCHHHHHHHHHHHEEE CS
          Methyltransf_11  60 nsfDlvvssevlhhv.edpekalkeiaRvLkp 90 
                              n+fDl +++e + ++  +++ +l+ + ++L++
  PHY93_03330|PHY93_03330 208 NKFDLNTIKEIFPNMtIERSLVLSRFDKILRK 239
                              78999888888888866788888877777775 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.8   0.0   7.5e-21   8.9e-18       2      97 .]      72     164 ..      71     164 .. 0.94

  Alignments for each domain:
  == domain 1  score: 64.8 bits;  conditional E-value: 7.5e-21
                              EEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTT..TEEEEESBCCGBSSSTTTEEEEEEESTGGGSSHHHHHHH CS
          Methyltransf_25   2 LdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeegl..nvefvqgdaedlpfedgsfDlvvssgalhhlsdedleka 85 
                              Ld+GcG+G+++l++a+++  +kv g+Di e+ ++ ++  +e+++   + +f++g ae++pf+d+sf +vv +  lhh++   ++ka
  PHY93_03330|PHY93_03330  72 LDFGCGPGDNSLRFARAG--YKVAGFDICEKNINSCKILFEKNNNseQGNFLVGVAEKIPFADESFEVVVGIDILHHVD---IPKA 152
                              9****************5..*****************99988766789***********************86699986...899* PP

                              HHHHHHHEEEEE CS
          Methyltransf_25  86 lkeiarvLkpgG 97 
                              ++e+ rvLk++G
  PHY93_03330|PHY93_03330 153 ISEVQRVLKKDG 164
                              **********99 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.7   0.1   1.9e-18   2.3e-15       2     114 ..      66     192 ..      65     223 .. 0.78
   2 ?    0.0   0.0      0.55   6.5e+02      66      97 ..     196     233 ..     179     244 .. 0.59

  Alignments for each domain:
  == domain 1  score: 56.7 bits;  conditional E-value: 1.9e-18
          Methyltransf_31   2 dkglrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielArenaqklgld.nveFeqgdieeleklledekfDlilsnevlna 86 
                              +k++++lD GCG G+ ++++a ++  + +v G+Di e+ i++++   +k++ +   +F +g +e+++  ++de+f +++  ++l++
  PHY93_03330|PHY93_03330  66 QKEYHLLDFGCGPGDNSLRFA-RA--GYKVAGFDICEKNINSCKILFEKNNNSeQGNFLVGVAEKIP--FADESFEVVVGIDILHH 146
                              68899****************.54..579****************9988765559************..***************66 PP

          Methyltransf_31  87 ladpdkileeiervlkpggilliedpr...................l 114
                              + d +k++ e++rvlk++gi + ++p                     
  PHY93_03330|PHY93_03330 147 V-DIPKAISEVQRVLKKDGIAIFREPVevpffdiirntklvrflfpN 192
                              5.677888999***************944444444444333333333 PP

  == domain 2  score: 0.0 bits;  conditional E-value: 0.55
          Methyltransf_31  66 lekl.led....ekfDlilsnevl.naladpdkileei 97 
                              le +  ed    +kfDl + +e++ n + +   +l + 
  PHY93_03330|PHY93_03330 196 LEAHiTEDerklNKFDLNTIKEIFpNMTIERSLVLSRF 233
                              44444444555588888777777664444444444444 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.3   0.0   1.9e-16   2.3e-13      21     125 ..      66     185 ..      37     222 .. 0.69

  Alignments for each domain:
  == domain 1  score: 50.3 bits;  conditional E-value: 1.9e-16
          Methyltransf_23  21 raggrvLdiGcGtGillevlrengfsvtgvDlspeaveiae.......kakkaqkdqfdeqeaaepqgkfdlIvlrevlehvpdpp 99 
                              ++   +Ld+GcG G ++  +++ g++v+g+D+++++++  +       +  + ++    ++++++ +++f+++v ++ l+hv+  p
  PHY93_03330|PHY93_03330  66 QKEYHLLDFGCGPGDNSLRFARAGYKVAGFDICEKNINSCKilfeknnNSEQGNFLVGVAEKIPFADESFEVVVGIDILHHVDI-P 150
                              344489****************************9999886777644422222222223458888999**************75.8 PP

          Methyltransf_23 100 ellrqiatllkpgGylllseplasl..........k 125
                              ++++ +++ lk +G ++++ep +             
  PHY93_03330|PHY93_03330 151 KAISEVQRVLKKDGIAIFREPVE-VpffdiirntkL 185
                              99******************843.234555544441 PP

>> Ubie_methyltran  ubiE/COQ5 methyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.3   0.0   1.8e-13   2.1e-10      37     152 ..      57     169 ..      47     223 .. 0.85

  Alignments for each domain:
  == domain 1  score: 40.3 bits;  conditional E-value: 1.8e-13
                              HHHHHH--S--TTEEEEES-TT-HHHHHHHHHHHHHHEEEEEES-HHHHHHHHHHHHHHTSS.TEEEEE--TTT-TTS-T-EEEEE CS
          Ubie_methyltran  37 kfveklvavkrgakvlDvagGtgDlafklsdsvgekgkvvvlDinenmLkvgekklkeegki.nieflqanaeeLpfeddsfDvvt 121
                              +f+ k + +++  ++lD  +G gD ++++++   + +kv + Di e+ ++  +   +++  + + +fl++ ae++pf d+sf+vv 
  PHY93_03330|PHY93_03330  57 DFLRKQKETQKEYHLLDFGCGPGDNSLRFAR---AGYKVAGFDICEKNINSCKILFEKNNNSeQGNFLVGVAEKIPFADESFEVV- 138
                              56777777888889************99875...5789999999999999999887766665599*****************976. PP

                              EES-GGG-S-HHHHHHHHHHHEEEEEEEEEE CS
          Ubie_methyltran 122 vsfGlrnvtDklkaLkeayrvlkpGGrlvvl 152
                              v+  +    D++ka+ e+ rvlk  G+ +  
  PHY93_03330|PHY93_03330 139 VGIDILHHVDIPKAISEVQRVLKKDGIAIFR 169
                              9***********************9987655 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.7   0.0   2.2e-12   2.6e-09       1      98 [.      72     165 ..      72     166 .. 0.86
   2 ?   -1.6   0.0       3.8   4.5e+03      61      90 ..     204     234 ..     182     240 .. 0.56

  Alignments for each domain:
  == domain 1  score: 37.7 bits;  conditional E-value: 2.2e-12
          Methyltransf_12   1 LeiGcGtGsllralleklpdieytgvDispsaiedakeklakrennnnnnvelealdlldldgg.ssfDlvvasnvlhhlkdirev 85 
                              L++GcG G+++ +++++  + ++ g Di ++ i   + k+ +++nnn ++ ++ +  +++ +   +sf +vv ++ lhh+ di ++
  PHY93_03330|PHY93_03330  72 LDFGCGPGDNSLRFARA--GYKVAGFDICEKNI--NSCKILFEKNNNSEQGNFLVGVAEKIPFAdESFEVVVGIDILHHV-DIPKA 152
                              8****************..**************..6666666777777777777766554444478*************9.***** PP

          Methyltransf_12  86 ldnirklLkpgGr 98 
                              ++++ ++Lk++G+
  PHY93_03330|PHY93_03330 153 ISEVQRVLKKDGI 165
                              ***********96 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 3.8
          Methyltransf_12  61 ldgg..ssfDlvvasnvlhhl.kdirevldnir 90 
                              +  +  ++fDl ++ + + ++  ++  vl+++ 
  PHY93_03330|PHY93_03330 204 E--RklNKFDLNTIKEIFPNMtIERSLVLSRFD 234
                              2..134677777776666655444444455555 PP

>> TehB  Tellurite resistance protein TehB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.2   0.0   7.8e-09   9.4e-06      30     128 ..      67     164 ..      50     176 .. 0.79

  Alignments for each domain:
  == domain 1  score: 25.2 bits;  conditional E-value: 7.8e-09
                              -S-EEEEES-TTSHHHHHHHHTT-EEEEEES-HHHHHHHHHHHHHTT-TTEEEEE--GGG--..--S-EEEEEEESSGGGS-GGGH CS
                     TehB  30 kpgkvldlgcgqgrnslylsllgydvtawdknensiafleeikekenlknistalydineak..lderydfilstvvlmfleaeri 113
                              k  + ld+gcg g nsl ++  gy+v  +d  e+ i+  + + ek+n ++    l+ + e     de ++ ++    + +l++  i
  PHY93_03330|PHY93_03330  67 KEYHLLDFGCGPGDNSLRFARAGYKVAGFDICEKNINSCKILFEKNNNSEQGNFLVGVAEKIpfADESFEVVVG---IDILHHVDI 149
                              55678********************************9999999999887777777776643113566665554...445666678 PP

                              HHHHHHHHHTEEEEE CS
                     TehB 114 psiienmqectkvgg 128
                              p+ i+++q+  k  g
  PHY93_03330|PHY93_03330 150 PKAISEVQRVLKKDG 164
                              888888887777666 PP

>> Methyltransf_8  Hypothetical methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.1   1.4e-06    0.0016      59     155 ..      55     167 ..      47     189 .. 0.66

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 1.4e-06
                              HHHHHHHHHCTS-TTS-EEEES-TT-HHHHH.--S-..EEEEESS-SS...........TTEEES-....T.TS-S--TT-EEEEE CS
           Methyltransf_8  59 PldviirklkkkkdnlvvadlGcGeakiaea.vrekekvrsfdlvavn...........ervvacd....l.akvPledesvdvav 127
                              P+d ++rk k+ +++  + d+GcG    + +  r   kv  fd+   n           ++ +  +    +  k+P +des +v+v
  PHY93_03330|PHY93_03330  55 PVD-FLRKQKETQKEYHLLDFGCGPGDNSLRfARAGYKVAGFDICEKNinsckilfeknNNSEQGNflvgVaEKIPFADESFEVVV 139
                              555.4567778888889999999865444220233446666665432211111111000333322221112379************ PP

                              EES---SS-HHHHHHHHHHHEEEEEEEE CS
           Methyltransf_8 128 fclslmgtnladflkeanrvlkvGGllk 155
                                  l   ++ + + e++rvlk+ G+  
  PHY93_03330|PHY93_03330 140 GIDILHHVDIPKAISEVQRVLKKDGIAI 167
                              ***********************99865 PP

>> CMAS  Mycolic acid cyclopropane synthetase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.3   0.0   2.3e-07   0.00028      58     163 ..      63     167 ..      51     223 .. 0.85

  Alignments for each domain:
  == domain 1  score: 20.3 bits;  conditional E-value: 2.3e-07
                              TT--TT-EEEEES-TTSHHHHHHHHHH--EEEEEES-HHHHHHHHHHHHTS-SSS-EEEEES-GGG-...----SEEEEES-GGGT CS
                     CMAS  58 lelkpGmtlLdiGcGWGslvrraverydvkvvglTlSkeqaklakkrvdeldlerkvevklldyedl...dekvdrvvsvgafehv 140
                               e ++  +lLd GcG G    r ++  + kv g  + +++ + +k  +++ +++++ + ++   e +   de ++ vv ++++ hv
  PHY93_03330|PHY93_03330  63 KETQKEYHLLDFGCGPGDNSLRFARA-GYKVAGFDICEKNINSCKILFEKNNNSEQGNFLVGVAEKIpfaDESFEVVVGIDILHHV 147
                              55677789***************999.***********************99999888766555554222459************9 PP

                              SGGGHHHHHHHHHHHS-TT-EEE CS
                     CMAS 141 gkenydtffkklkkllkedGlll 163
                                   ++ +++++++lk+dG+ +
  PHY93_03330|PHY93_03330 148 DI---PKAISEVQRVLKKDGIAI 167
                              76...667889999999999866 PP

>> PrmA  Ribosomal protein L11 methyltransferase (PrmA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.0   6.9e-07   0.00083     159     258 ..      65     168 ..      50     169 .. 0.83

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 6.9e-07
                     PrmA 159 vkegeevlDvGtGSGiLaiaaakLgakkvvavDiDevAvkvakeNaelNkvea..klevalseell.keekadviva.NILaev.l 239
                               +++ ++lD+G+G G  ++  a+ g  kv + Di e  +++ k  +e+N+ ++  ++ v ++e+++ ++e+++v+v   IL +v +
  PHY93_03330|PHY93_03330  65 TQKEYHLLDFGCGPGDNSLRFARAGY-KVAGFDICEKNINSCKILFEKNNNSEqgNFLVGVAEKIPfADESFEVVVGiDILHHVdI 149
                              4555599****************996.699****************9998888466767777888754799*****658**99878 PP

                     PrmA 240 ielaedikklvkeggllil 258
                               + ++++++++k++g++i+
  PHY93_03330|PHY93_03330 150 PKAISEVQRVLKKDGIAIF 168
                              899************9985 PP

>> Methyltransf_9  Protein of unknown function (DUF1698)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.0   2.2e-06    0.0027     112     217 ..      64     168 ..      45     174 .. 0.83

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 2.2e-06
                              .--TT-EEEEET-TTSHHHHHHHHCT-SEEEEE---HHHHHHHHHHHCCTTTTSSEEEE---GGGS-T.---EEEEEEES-GGG-S CS
           Methyltransf_9 112 sdlkgrtildvGcgnGyhlwrmvgegaklvvGidPselfliqfeavrkllgedqrahllplgieqlpe.leafdtvfsmGvlyhrr 196
                                 k+  +ld Gcg G    r + +g k v G d  e  +   + + +  ++ ++ + l    e++p   e+f++v  + +l+h  
  PHY93_03330|PHY93_03330  64 ETQKEYHLLDFGCGPGDNSLRFARAGYK-VAGFDICEKNINSCKILFEKNNNSEQGNFLVGVAEKIPFaDESFEVVVGIDILHHVD 148
                              55678899*************9988865.78*********9999998888888888888445599998689**************9 PP

                              -HHHHHHHHHCTEEEEEEEEE CS
           Methyltransf_9 197 sPldhllqlkdqlvkgGelvl 217
                               P   +++++  l+k+G  ++
  PHY93_03330|PHY93_03330 149 IP-KAISEVQRVLKKDGIAIF 168
                              99.689999999*99998775 PP

>> Methyltransf_32  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   2.7e-05     0.032      17      75 ..      59     113 ..      50     146 .. 0.83

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 2.7e-05
          Methyltransf_32  17 lkelakesgaltvvDvGaGkgYLsfvlalkekeyklkvvgidakeelvekaekraeklg 75 
                              l++ ++++++ +++D+G+G g  s + a      ++kv g+d++e+++++++ + ek +
  PHY93_03330|PHY93_03330  59 LRKQKETQKEYHLLDFGCGPGDNSLRFAR----AGYKVAGFDICEKNINSCKILFEKNN 113
                              4555788999***********88888777....69***************997776655 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   5.7e-05     0.068      29      82 ..      65     117 ..      54     140 .. 0.68

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 5.7e-05
                              CCTCSEEEEET-TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHTTGC.E CS
                      MTS  29 kelsgkvlDlGcGaGvlgaalakespeaevtlvdvdarAlesakenleankle.v 82 
                              ++++ ++lD+GcG G  ++ +a++  +  v  +d+  + ++s+k  +e+n+ +  
  PHY93_03330|PHY93_03330  65 TQKEYHLLDFGCGPGDNSLRFARAGYK--VAGFDICEKNINSCKILFEKNNNSeQ 117
                              3466789****************8887..77777777777777777777665543 PP

>> TPMT  Thiopurine S-methyltransferase (TPMT)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   8.4e-05       0.1      34      83 ..      64     116 ..      40     140 .. 0.73

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 8.4e-05
                              T-S--EEEEEET-TT-HHHHHH-BTTEEEEEE-S-HHHHHHH...HHHHTTSG CS
                     TPMT  34 kakaglrvlvPlCGkaldlvwlAeqgrevvGvelselAvekf...feeanlep 83 
                              +++++ + l  +CG + +   +A  g++v+G ++ e+ +++    fe++n ++
  PHY93_03330|PHY93_03330  64 ETQKEYHLLDFGCGPGDNSLRFARAGYKVAGFDICEKNINSCkilFEKNNNSE 116
                              334444566679**************************998422245554444 PP

>> AdoMet_MTase  Predicted AdoMet-dependent methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00021      0.25      50      92 ..      59     101 ..      52     116 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00021
             AdoMet_MTase  50 wkktrseeketsfvdvgcgngllvyvlaaegykgygidlrkrk 92 
                               +k++ ++ke  + d gcg g     +a  gyk  g+d+  + 
  PHY93_03330|PHY93_03330  59 LRKQKETQKEYHLLDFGCGPGDNSLRFARAGYKVAGFDICEKN 101
                              4566666799****************************98765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (274 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       475  (0.0264934); expected 358.6 (0.02)
Passed bias filter:                      410  (0.022868); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.51u 0.27s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 1834.44
//
Query:       PHY93_03335|PHY93_03335  [L=240]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.1e-16   59.7   0.0    4.3e-16   59.2   0.0    1.2  1  Methyltransf_23  Methyltransferase domain
    3.1e-11   43.8   0.0      5e-11   43.1   0.0    1.3  1  Methyltransf_11  Methyltransferase domain
    3.7e-11   43.6   0.0    5.9e-11   42.9   0.0    1.3  1  Methyltransf_25  Methyltransferase domain
    2.2e-10   40.5   0.0      3e-10   40.1   0.0    1.2  1  Methyltransf_31  Methyltransferase domain
      8e-09   36.1   0.0    1.3e-08   35.5   0.0    1.4  1  Methyltransf_12  Methyltransferase domain
     0.0012   18.2   0.0     0.0019   17.6   0.0    1.3  1  CMAS             Mycolic acid cyclopropane synthetase
  ------ inclusion threshold ------
      0.011   15.3   0.0      0.015   14.9   0.0    1.2  1  MetW             Methionine biosynthesis protein MetW
      0.023   14.2   0.0      0.037   13.5   0.0    1.4  1  Methyltransf_4   Putative methyltransferase
        0.1   13.1   0.0       0.14   12.6   0.0    1.2  1  TEX33            Testis-expressed sequence 33 protein family
        0.1   12.5   0.0       0.14   12.1   0.0    1.2  1  Methyltransf_32  Methyltransferase domain
       0.14   12.2   0.0       0.23   11.4   0.0    1.3  1  SAWADEE          SAWADEE domain
       0.18   11.4   0.0       0.27   10.9   0.0    1.2  1  TPMT             Thiopurine S-methyltransferase (TPMT)
       0.19   10.6   0.0       0.32    9.9   0.0    1.3  1  Methyltransf_9   Protein of unknown function (DUF1698)
        0.2   11.2   0.0       0.28   10.7   0.0    1.3  1  MTS              Methyltransferase small domain


Domain annotation for each model (and alignments):
>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.2   0.0   3.4e-19   4.3e-16      16     162 ..      37     209 ..      28     211 .. 0.81

  Alignments for each domain:
  == domain 1  score: 59.2 bits;  conditional E-value: 3.4e-19
          Methyltransf_23  16 llpklraggrvLdiGcGtGillevlrengfsvt.gvDlspeaveiaekakkaqkdqfdeqeaaepqgkfdlIvlrevlehvpdppe 100
                              ++ k+ +g+ v+d+GcG+G  +e ++ +g++++ g +++ e+ve  ++++k ++ +f     +e q + dlI++++ +eh+++p +
  PHY93_03335|PHY93_03335  37 FS-KKVSGKVVVDFGCGHGKDTETIANWGAKLAiGLEIRKELVEANSEKIKLPNCSFMTTLSPELQSTADLIISIDAFEHFDNPDK 121
                              44.3678899********************8776***********************999999*********************** PP

          Methyltransf_23 101 llrqiatllkpgGylllse.plasl.......................kedrllldwlylvpag..rhisffsarslkelleeaGl 160
                               l+ ++++l+pgG +++s  p+ ++                        +++ + + ++    +  + ++  s   l+++++e+ +
  PHY93_03335|PHY93_03335 122 ILKIMYDCLRPGGEAYISFgPTWYHplgghafsvfpwshliftekaliRWRNQFYHDGATKFGEvsGGLNKLSIAKLEKCFRESSF 207
                              *****************986444446677777778777777777766666666666655433324466677777777777777777 PP

          Methyltransf_23 161 ev 162
                              ++
  PHY93_03335|PHY93_03335 208 QI 209
                              65 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.1   0.0   3.9e-14     5e-11       1      95 [.      47     137 ..      47     138 .. 0.92

  Alignments for each domain:
  == domain 1  score: 43.1 bits;  conditional E-value: 3.9e-14
                              EEET-TTSHHHHHHHHTT.SEEEEEES-HHHHHHHHHHCCHHT-EEEETTEECCCT.SS-TT-EEEEEEES-CCC-CCHHHHHHHH CS
          Methyltransf_11   1 LdvGcGtGrlaealakrg.arvvgvDlskemlklakekaseeglkvefvvadaekl.pfednsfDlvvssevlhhvedpekalkei 84 
                              +d+GcG G+ +e +a+ g +  +g+++ ke++++ +ek++ ++      ++ +++l p   ++ Dl++s  +++h+++p+k+lk +
  PHY93_03335|PHY93_03335  47 VDFGCGHGKDTETIANWGaKLAIGLEIRKELVEANSEKIKLPN------CSFMTTLsPELQSTADLIISIDAFEHFDNPDKILKIM 126
                              599***************9999**********99999998885......7778888788888************************ PP

                              HHHEEEEEEEE CS
          Methyltransf_11  85 aRvLkpgGllv 95 
                              + +L+pgG  +
  PHY93_03335|PHY93_03335 127 YDCLRPGGEAY 137
                              ********876 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.9   0.0   4.6e-14   5.9e-11       1      97 []      46     134 ..      46     134 .. 0.90

  Alignments for each domain:
  == domain 1  score: 42.9 bits;  conditional E-value: 4.6e-14
                              EEEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTTTEEEEESBCCGBSSSTTTEEEEEEESTGGGSSHHHHHHHH CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeeglnvefvqgdaedlpfedgsfDlvvssgalhhlsdedlekal 86 
                              v+d+GcG+G++t+ +a+  g++  +g++i +e++ea  e+++   +n++f++    +l+   ++ Dl++s+ a++h++++d  k+l
  PHY93_03335|PHY93_03335  46 VVDFGCGHGKDTETIANW-GAKLAIGLEIRKELVEANSEKIK--LPNCSFMTTLSPELQ---STADLIISIDAFEHFDNPD--KIL 123
                              89**************99.68999*****************4..459999877665555...688*****999*****888..9** PP

                              HHHHHHEEEEE CS
          Methyltransf_25  87 keiarvLkpgG 97 
                              k ++++L+pgG
  PHY93_03335|PHY93_03335 124 KIMYDCLRPGG 134
                              **********9 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.1   0.0   2.3e-13     3e-10       3     110 ..      42     139 ..      40     168 .. 0.89

  Alignments for each domain:
  == domain 1  score: 40.1 bits;  conditional E-value: 2.3e-13
          Methyltransf_31   3 kglrvlDlGCGtGeltfelaeelgpkae.vvGiDiseeaielArenaqklgldnveFeqgdieeleklledekfDlilsnevlnal 87 
                              +g++v+D GCG G++t  +a + g  a+  +G++i +e +e   e   k +l n++F      el+     ++ Dli+s +++ ++
  PHY93_03335|PHY93_03335  42 SGKVVVDFGCGHGKDTETIA-NWG--AKlAIGLEIRKELVEANSE---KIKLPNCSFMTTLSPELQ-----STADLIISIDAFEHF 116
                              7899****************.544..4547**********97555...77799****999999988.....679************ PP

          Methyltransf_31  88 adpdkileeiervlkpggillie 110
                               +pdkil+ + + l+pgg+  i+
  PHY93_03335|PHY93_03335 117 DNPDKILKIMYDCLRPGGEAYIS 139
                              ******************98775 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.5   0.0     1e-11   1.3e-08       1      97 [.      47     134 ..      47     136 .. 0.81

  Alignments for each domain:
  == domain 1  score: 35.5 bits;  conditional E-value: 1e-11
          Methyltransf_12   1 LeiGcGtGsllralleklpdieyt.gvDispsaiedakeklakrennnnnnvelealdlldldggssfDlvvasnvlhhlkdirev 85 
                              +++GcG G  ++ +++   ++++  g++i ++ +e+ +ek++     n+++++    +l      s+ Dl++++++++h+++++++
  PHY93_03335|PHY93_03335  47 VDFGCGHGKDTETIANW--GAKLAiGLEIRKELVEANSEKIK-LP--NCSFMTTLSPELQ-----STADLIISIDAFEHFDNPDKI 122
                              69***************..888888*********44444444.34..3444444444433.....49******************* PP

          Methyltransf_12  86 ldnirklLkpgG 97 
                              l+ ++++L+pgG
  PHY93_03335|PHY93_03335 123 LKIMYDCLRPGG 134
                              ***********9 PP

>> CMAS  Mycolic acid cyclopropane synthetase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.0   1.5e-06    0.0019      62     161 ..      42     135 ..      30     141 .. 0.82

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 1.5e-06
                              TT-EEEEES-TTSHHHHHHHHHH--EE.EEEES-HHHHHHHHHHHHTS-SSS-EEEEES-GGG-----SEEEEES-GGGTSGGGHH CS
                     CMAS  62 pGmtlLdiGcGWGslvrraverydvkv.vglTlSkeqaklakkrvdeldlerkvevklldyedldekvdrvvsvgafehvgkenyd 146
                               G+ ++d GcG G+ +  +++++++k  +gl + ke  +   ++++  + +  +++      +l+   d ++s++afeh+  +n d
  PHY93_03335|PHY93_03335  42 SGKVVVDFGCGHGKDTE-TIANWGAKLaIGLEIRKELVEANSEKIKLPNCSFMTTL----SPELQSTADLIISIDAFEHF--DNPD 120
                              5999*********9875.567789985489*9999998888888887775544444....479****************9..5778 PP

                              HHHHHHHHHS-TT-E CS
                     CMAS 147 tffkklkkllkedGl 161
                              +  k +++ l+++G 
  PHY93_03335|PHY93_03335 121 KILKIMYDCLRPGGE 135
                              999999999999996 PP

>> MetW  Methionine biosynthesis protein MetW
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.0   1.2e-05     0.015      14     110 ..      43     141 ..      33     171 .. 0.88

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 1.2e-05
                     MetW  14 gsrvldlGcGdGellellkeekqvdgrGleldeegvaecvakGlsviqgdldkdlenfedksfdyvvlsqtlqatrnpkevld... 96 
                              g  v+d GcG+G+  e +++     + Gle+ +e v  + +  +++ +    + l+   +++ d+++   ++    np+++l+   
  PHY93_03335|PHY93_03335  43 GKVVVDFGCGHGKDTETIANWGAKLAIGLEIRKELVE-ANSEKIKLPNCSFMTTLSPELQSTADLIISIDAFEHFDNPDKILKimy 127
                              45699***************9999*******988775.556669*************99*********************998444 PP

                     MetW  97 ellrigrraivsfP 110
                              + lr g +a +sf 
  PHY93_03335|PHY93_03335 128 DCLRPGGEAYISFG 141
                              66999999999994 PP

>> Methyltransf_4  Putative methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   2.9e-05     0.037       3      47 ..      44      87 ..      42     118 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 2.9e-05
                             EEEEEET-TTSHHHHHHHHHSTTSEEEEEES-HHHHHHHHHHHHH CS
           Methyltransf_4  3 pvvleiGcGkGeflvalAkknPdknflGiEirvkvvakvlkkiea 47
                             +vv++ GcG G+ + ++A+  + k+ +G+Eir+++v++  +ki+ 
  PHY93_03335|PHY93_03335 44 KVVVDFGCGHGKDTETIANWGA-KLAIGLEIRKELVEANSEKIKL 87
                             799***************8776.689***********99998875 PP

>> TEX33  Testis-expressed sequence 33 protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   0.00011      0.14      79     135 ..      30      86 ..       6      89 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 0.00011
                    TEX33  79 kSlmkasyTkevieksvrdlehwhgRktDdLgrWheknalnlnLqKaleeklgeksk 135
                                ++ + + k v  k+v d    hg+ t  ++ W  k a+ l+++K l e   ek k
  PHY93_03335|PHY93_03335  30 NKIFIDEFSKKVSGKVVVDFGCGHGKDTETIANWGAKLAIGLEIRKELVEANSEKIK 86 
                              5556799******************************************99999976 PP

>> Methyltransf_32  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   0.00011      0.14      17      71 ..      34      85 ..      12     119 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00011
          Methyltransf_32 17 lkelakesgaltvvDvGaGkgYLsfvlalkekeyklkvvgidakeelvekaekra 71
                             ++e++k+ + + vvD+G+G g  + ++a          +g+++++elve++++  
  PHY93_03335|PHY93_03335 34 IDEFSKKVSGKVVVDFGCGHGKDTETIAN---WGAKLAIGLEIRKELVEANSEKI 85
                             455667788999***************99...4344568*********9987765 PP

>> SAWADEE  SAWADEE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00018      0.23      49      76 ..     192     219 ..     162     228 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00018
                              .......HHHEEE--EE--GGGGGG--T CS
                  SAWADEE  49 keeveelkkrvrerSvqledseCkkvke 76 
                              k ++++l+k++re S q+ed  Ck ++ 
  PHY93_03335|PHY93_03335 192 KLSIAKLEKCFRESSFQIEDFSCKPIRG 219
                              56799*******************9975 PP

>> TPMT  Thiopurine S-methyltransferase (TPMT)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   0.00021      0.27      29     108 ..      33     114 ..      25     130 .. 0.67

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00021
                              HHHT.T-S--EEEEEE.T-TT-HHHHHH-BTTEEE.EEE-S-HHHHHHHHHHHTTSGGGGGEEEE--............-TTT CS
                     TPMT  29 fldalkakaglrvlvP.lCGkaldlvwlAeqgrev.vGvelselAvekffeeanlepkvkelsgvke.ysageiellcgdvFt 108
                              f+d+ ++k +++v v  +CG + d   +A+ g ++ +G+e+ +  ve+ ++e+   p+ + ++      ++    ++  d+F 
  PHY93_03335|PHY93_03335  33 FIDEFSKKVSGKVVVDfGCGHGKDTETIANWGAKLaIGLEIRKELVEA-NSEKIKLPNCSFMTTLSPeLQSTADLIISIDAFE 114
                              677777778888888659**************98747*****999998.5666666886655554443444433344445444 PP

>> Methyltransf_9  Protein of unknown function (DUF1698)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.0   0.00025      0.32     113     214 ..      40     135 ..      34     139 .. 0.64

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00025
                              --TT-EEEEET-TTSHHHHHHHHCT-SEEEEE---HHHHHHHHHHHCCTTTTSSEEEE---GGGS-T---EEEEEEES-GGG-S-H CS
           Methyltransf_9 113 dlkgrtildvGcgnGyhlwrmvgegaklvvGidPselfliqfeavrkllgedqrahllplgieqlpeleafdtvfsmGvlyhrrsP 198
                              ++ g++++d Gcg G     ++  gakl++G++  +  +   ea  + +   + +++  l+ e l+  ++ d + s+  + h   P
  PHY93_03335|PHY93_03335  40 KVSGKVVVDFGCGHGKDTETIANWGAKLAIGLEIRKELV---EANSEKIKLPNCSFMTTLSPE-LQ--STADLIISIDAFEHFDNP 119
                              5689***************************99765432...232222222333333323221.22..234666666666666666 PP

                              HHHHHHHHCTEEEEEE CS
           Methyltransf_9 199 ldhllqlkdqlvkgGe 214
                                 l  + d+l+ gGe
  PHY93_03335|PHY93_03335 120 DKILKIMYDCLRPGGE 135
                              6666666666666666 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   0.00022      0.28      21      55 ..      31      66 ..      28     138 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00022
                             HHHHHHCHCCTCSE.EEEET-TTSHHHHHHHHHTTC CS
                      MTS 21 klLletlpkelsgk.vlDlGcGaGvlgaalakespe 55
                             k++++ ++k+ sgk v+D+GcG G  + ++a+   +
  PHY93_03335|PHY93_03335 31 KIFIDEFSKKVSGKvVVDFGCGHGKDTETIANWGAK 66
                             67899999995555389*******766666655554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (240 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       339  (0.0189079); expected 358.6 (0.02)
Passed bias filter:                      330  (0.0184059); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.51u 0.28s 00:00:00.79 Elapsed: 00:00:00.46
# Mc/sec: 1570.40
//
Query:       PHY93_03340|PHY93_03340  [L=192]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.8e-07   28.9   0.3    1.1e-05   25.4   0.3    2.1  1  AAA_31    AAA domain
    3.8e-05   23.8   0.0    5.2e-05   23.3   0.0    1.3  1  CbiA      CobQ/CobB/MinD/ParA nucleotide binding domain
  ------ inclusion threshold ------
      0.012   15.6   0.2      0.033   14.2   0.2    1.6  1  ResIII    Type III restriction enzyme, res subunit


Domain annotation for each model (and alignments):
>> AAA_31  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.4   0.3   1.9e-09   1.1e-05      14     128 ..      45     145 ..      36     187 .. 0.81

  Alignments for each domain:
  == domain 1  score: 25.4 bits;  conditional E-value: 1.9e-09
                   AAA_31  14 GKTTtsvnlaaala.klgkkvLlvDlDpQanattglgiekneiektlyevlieeknikeaiiktkvenldlipssidLaeaeielv 98 
                              GKTT ++ la  l+  +  k+Ll+Dl p + a  +           l +   e++++++ i   k +  ++  s   L +++++ +
  PHY93_03340|PHY93_03340  45 GKTTVAMLLARGLTeIYHFKILLIDLNPDGDALLNQ---------YLKDY--EQEKTQDGIL--KCH--QFDFSIFRLKNIDMNWL 115
                              9*************66899***********998843.........45555..6788899999..333..4445889********** PP

                   AAA_31  99 elekkeeilkellekvkdeYDyiiiDcpPs 128
                              ++       ++l++++  +YD++i+D++ s
  PHY93_03340|PHY93_03340 116 KTAYDGLYANQLINTFAAQYDLVIVDTMTS 145
                              ****99999*****************9755 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.3   0.0   8.8e-09   5.2e-05       9      80 ..      43     191 ..      35     192 .] 0.82

  Alignments for each domain:
  == domain 1  score: 23.3 bits;  conditional E-value: 8.8e-09
                              TSSHHHHHHHHHHHHHH.TT--EEEEEEEESSCCCCHHTTEB-HHHH....................................... CS
                              xxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxx....................................... RF
                     CbiA   9 GvGKTtlaanLaralar.rglrVllvDaDpqannlaileglendiep....................................... 54 
                               +GKTt+a  Lar l +   +++ll+D+ p++ +l   + l+ ++++                                       
  PHY93_03340|PHY93_03340  43 SEGKTTVAMLLARGLTEiYHFKILLIDLNPDGDALL-NQYLKDYEQEktqdgilkchqfdfsifrlknidmnwlktaydglyanql 127
                              68***************99************99987.4444444444788999999999999999999999999999999999999 PP

                              .....................................CCHCCCHHHHHHCHCHHHH...EEEEE CS
                              .....................................xxxxxxxxxxxxxxxxxxx.xxxxxxx RF
                     CbiA  55 .....................................dlkrllellealgkkkall.lkiagvv 80 
                                                                   + k+++++ ++l++++++   +++g+v
  PHY93_03340|PHY93_03340 128 intfaaqydlvivdtmtsrcpndaqlrvsthsniivsTEKSFGRSTNKLQIEMEQDkKEVLGIV 191
                              9999999999999999999999888888888888888888888888888888776677777776 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.2   5.6e-06     0.033      36     135 ..      45     187 ..      44     191 .. 0.71

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 5.6e-06
                              THHHHHHHHHHHH-S.....-EEEE...ESSHHHHHHHHHHG...........................................G CS
                   ResIII  36 GKTlvaaklierllkkgkeekflfl...vprkslleqtleef...........................................k 75 
                              GKT va+ l++ l++ ++  k+l++    ++ +ll+q l+++                                           +
  PHY93_03340|PHY93_03340  45 GKTTVAMLLARGLTEIYHF-KILLIdlnPDGDALLNQYLKDYeqektqdgilkchqfdfsifrlknidmnwlktaydglyanqliN 129
                              9**************9885.8888733336679*********88888888888888888888888888666665555555433322 PP

                              GGTGG..........GEEEESSS-B--.................-SEEEEEHHHHHHTH........HHHTTT-SE CS
                   ResIII  76 kflseayke......igkkvsgdkkka..........kekdstnkkilvttiqsldadseeeeeeseellrdrfdv 135
                               f+     +      +                     + + st+++i+v+t++s+ ++    ++ + e+++d+++v
  PHY93_03340|PHY93_03340 130 TFA-----AqydlviV----------DtmtsrcpndaQLRVSTHSNIIVSTEKSFGRST---NKLQIEMEQDKKEV 187
                              222.....12223332..........033334444458999******************...88888888888776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (192 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       614  (0.0342462); expected 358.6 (0.02)
Passed bias filter:                      452  (0.0252106); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.50u 0.27s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 1277.75
//
Query:       PHY93_03345|PHY93_03345  [L=314]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
     0.0045   17.2   3.1        2.1    8.7   0.4    2.8  2  ABC_tran_CTD    ABC transporter C-terminal domain
  ------ inclusion threshold ------
      0.014   15.6   4.0       0.25   11.6   0.1    2.5  2  XhlA            Haemolysin XhlA
      0.019   14.2   1.5      0.031   13.5   1.5    1.2  1  DUF2046         Uncharacterized conserved protein H4 (DUF2046
      0.089   12.8   2.1       0.11   12.5   0.9    1.9  2  DUF1664         Protein of unknown function (DUF1664)
      0.092   12.6   0.0       0.22   11.3   0.0    1.6  1  PSI_PsaF        Photosystem I reaction centre subunit III
      0.097   10.6   2.9       0.16    9.9   2.9    1.3  1  Prominin        Prominin
       0.11   12.5   1.7       0.43   10.6   1.7    1.9  1  CENP-F_leu_zip  Leucine-rich repeats of kinetochore protein C
       0.31   11.6   3.1        1.1    9.8   1.6    2.5  2  PepSY_like      Putative beta-lactamase-inhibitor-like, PepSY
       0.31   11.0   4.2        9.4    6.3   0.5    2.9  2  Prefoldin_2     Prefoldin subunit
       0.42   11.4   5.2       0.47   11.2   0.1    2.9  3  Occludin_ELL    Occludin homology domain
       0.54   10.1   5.4       0.57   10.0   0.9    2.9  4  SKA2            Spindle and kinetochore-associated protein 2
       0.71   10.1   5.9        5.9    7.1   3.0    3.0  2  JIP_LZII        JNK-interacting protein  leucine zipper II
       0.95    9.9   3.7       0.47   10.9   0.2    2.2  2  Wbp11           WW domain binding protein 11
        1.8    8.9   6.3        0.9    9.9   3.5    1.9  2  Muted           Organelle biogenesis, Muted-like protein
        1.9    8.2   7.8        1.3    8.7   5.5    1.9  2  Pox_VLTF3       Poxvirus Late Transcription Factor VLTF3 like
        8.9    6.5   8.3        2.5    8.3   4.6    1.9  2  Fib_alpha       Fibrinogen alpha/beta chain family


Domain annotation for each model (and alignments):
>> ABC_tran_CTD  ABC transporter C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.7   0.4    0.0019       2.1      13      39 ..     159     185 ..     147     200 .. 0.80
   2 !    8.1   0.1    0.0028       3.1      13      59 ..     204     245 ..     198     248 .. 0.83

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 0.0019
             ABC_tran_CTD  13 leaeIeaLEeeiaeleaeladpelysd 39 
                              +  +Ie +E+ +++++++l++ +++++
  PHY93_03345|PHY93_03345 159 INTRIETIETAKKTIQQKLESVNVTKQ 185
                              7789****************9987643 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.0028
             ABC_tran_CTD  13 leaeIeaLEeeiaeleaeladpelysdpeklaelsaeleeleaeLee 59 
                              l +eI+++ +++++l  ++++        ++ +l+++++++e+ L+e
  PHY93_03345|PHY93_03345 204 LRSEIAKINTDLEALKMQFNNHH-----PRIGKLQERKATIENWLKE 245
                              66899999999999999999665.....7899999999999987765 PP

>> XhlA  Haemolysin XhlA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6   0.7     0.033        37       3      26 ..     160     183 ..     155     195 .. 0.57
   2 ?   11.6   0.1   0.00022      0.25       2      37 ..     211     246 ..     210     249 .. 0.92

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.033
                     XhlA   3 kerlerietkldnleervdkleek 26 
                                r+e+iet  ++++++++ ++  
  PHY93_03345|PHY93_03345 160 NTRIETIETAKKTIQQKLESVNVT 183
                              445555555555555555554444 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 0.00022
                     XhlA   2 ikerlerietkldnleervdkleekaaeaeekiknl 37 
                              i  +le ++ + +n+  r+ kl+e++a+ e+++k++
  PHY93_03345|PHY93_03345 211 INTDLEALKMQFNNHHPRIGKLQERKATIENWLKEI 246
                              7789999**************************986 PP

>> DUF2046  Uncharacterized conserved protein H4 (DUF2046)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   1.5   2.8e-05     0.031     176     247 ..     154     226 ..     147     248 .. 0.67

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 2.8e-05
                  DUF2046 176 eqealvnrlWkrldkleaekrllqekldqpvsappsPrdlvs....egdtaeklsahikalrkeverlrkqlkksq 247
                               +e ++n    r++ +e+ k+++q+kl+      +   d++s    ++ +++ l ++i+++ +++e l+ q+++ +
  PHY93_03345|PHY93_03345 154 VRENFIN---TRIETIETAKKTIQQKLESVNVTKQITDDSISanalASKNPDVLRSEIAKINTDLEALKMQFNNHH 226
                              5555555...69***************9987777655555542333556667777777777777777777776644 PP

>> DUF1664  Protein of unknown function (DUF1664)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0         6   6.7e+03      78      90 ..      71      83 ..      61      98 .. 0.54
   2 ?   12.5   0.9    0.0001      0.11      33     122 ..     145     234 ..     135     242 .. 0.73

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 6
                  DUF1664 78 qkeiskeikeevt 90
                              +e+++ +++ v+
  PHY93_03345|PHY93_03345 71 ITEMTQTTDSMVK 83
                             2333333333333 PP

  == domain 2  score: 12.5 bits;  conditional E-value: 0.0001
                  DUF1664  33 fvTkrslsdavesvskqleqvseslaatkrhLssridrvdkk...ldeqkeiskeikeevtevredlseigedvesvkeavegles 115
                               vTk+ l+ + e+    +++  e+++++k+ +++++++v+ +    d+++ + +  +++ + +r+++++i++d+e++k  +++   
  PHY93_03345|PHY93_03345 145 AVTKKVLEAVRENF---INTRIETIETAKKTIQQKLESVNVTkqiTDDSISANALASKNPDVLRSEIAKINTDLEALKMQFNNHHP 227
                              57888777777654...6677899999*********99875412235666666677777788888888888888888887777777 PP

                  DUF1664 116 kleriee 122
                              ++ +++e
  PHY93_03345|PHY93_03345 228 RIGKLQE 234
                              7776665 PP

>> PSI_PsaF  Photosystem I reaction centre subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0    0.0002      0.22      15      77 ..      65     126 ..      54     129 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.0002
                 PSI_PsaF  15 saavadiagltpCseskafakrlkkevkklekrlkkyeadsaPalalkakiektkkrfekysk 77 
                               + ++ i+ +t+ ++s   + + ++ ++++  +++ y++++ P+  l +  e+ ++rfe ys+
  PHY93_03345|PHY93_03345  65 IPGMSSITEMTQTTDSMVKETLNDQFIDEIGGQFNIYDKNMNPQ-DLSKAREQMRNRFELYST 126
                              56789999***********************************9.7777889*********97 PP

>> Prominin  Prominin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   2.9   0.00015      0.16     611     712 ..     148     247 ..     141     263 .. 0.91

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00015
                 Prominin 611 slyleqlckkltkvnletlaekleelanelsngkknlkqslkneaqdlraiqqelvlplessvkklkksvkkldeensdlqesikk 696
                              +++le ++++++++ +et+++  ++++++l++   n+ ++++ +  + +a+ ++  + l+s+++k++  +++l+ + ++ + +i k
  PHY93_03345|PHY93_03345 148 KKVLEAVRENFINTRIETIETAKKTIQQKLESV--NVTKQITDDSISANALASKNPDVLRSEIAKINTDLEALKMQFNNHHPRIGK 231
                              678999************************888..****************************************99999999999 PP

                 Prominin 697 llaaveraenflkkng 712
                              l ++    en lk+ g
  PHY93_03345|PHY93_03345 232 LQERKATIENWLKEIG 247
                              9999988888888755 PP

>> CENP-F_leu_zip  Leucine-rich repeats of kinetochore protein Cenp-F/LEK1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   1.7   0.00039      0.43      21     116 ..     158     249 ..     147     265 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00039
           CENP-F_leu_zip  21 sLkdkvenLerelemseenqekvileaEtskaevetlkeeieelaeelreleldLvalrsekeeLekelqkkqervseLeslnssl 106
                               ++ ++e +e  ++++++++e+v + +      +++        +++   l+++++++  + e L+ + ++   r+  L++++ ++
  PHY93_03345|PHY93_03345 158 FINTRIETIETAKKTIQQKLESVNVTKQITDDSISA----NALASKNPDVLRSEIAKINTDLEALKMQFNNHHPRIGKLQERKATI 239
                              566788888888888888888877655444444432....2222456778999********************************* PP

           CENP-F_leu_zip 107 enlleekEqe 116
                              en l+e  ++
  PHY93_03345|PHY93_03345 240 ENWLKEIGDD 249
                              ****998776 PP

>> PepSY_like  Putative beta-lactamase-inhibitor-like, PepSY-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   1.6     0.001       1.1      35      70 ..     145     181 ..     125     191 .. 0.81
   2 ?   -0.5   0.0       1.7   1.9e+03      34      61 ..     277     306 ..     272     311 .. 0.72

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.001
                              GS-HHHHHHHHHHTTTEEEEEEEECSSEEEEEETT.S CS
               PepSY_like  35 ilpkavlkaiknsypdekvtkierkkkeyeielen.e 70 
                              ++ k+vl+a+++++ ++ ++ ie +kk +  +le+ +
  PHY93_03345|PHY93_03345 145 AVTKKVLEAVRENFINTRIETIETAKKTIQQKLESvN 181
                              499************************9999999863 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 1.7
                              GGS-HHHHHHHHHHTTT.EEEEEEEECS.S CS
               PepSY_like  34 silpkavlkaiknsypd.ekvtkierkk.k 61 
                              +++++++   + ++++d +   +ierk+  
  PHY93_03345|PHY93_03345 277 NVISQSITAKLYAKFTDiNIALDIERKSlP 306
                              567777777777777776666788887755 PP

>> Prefoldin_2  Prefoldin subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.3   0.5    0.0084       9.4      70      95 ..     155     180 ..     141     187 .. 0.78
   2 ?    5.0   0.0      0.02        22       4      31 ..     219     246 ..     200     249 .. 0.83

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.0084
                              HHHHHHHHHHHHHHHHHHHHHHHHHH CS
              Prefoldin_2  70 rketlekeiktlekqleklekeleel 95 
                              r+++++++i+t+e  +++++++le +
  PHY93_03345|PHY93_03345 155 RENFINTRIETIETAKKTIQQKLESV 180
                              56678888888888888888888865 PP

  == domain 2  score: 5.0 bits;  conditional E-value: 0.02
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
              Prefoldin_2   4 inkfqqlqqqlqqlaqqikqletqlkel 31 
                               ++f++ + ++ +l++ ++++e+ lke+
  PHY93_03345|PHY93_03345 219 KMQFNNHHPRIGKLQERKATIENWLKEI 246
                              4688888999999999999998888887 PP

>> Occludin_ELL  Occludin homology domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.2      0.88   9.9e+02      12      87 ..      42     119 ..      40     132 .. 0.56
   2 ?    0.1   0.1       1.2   1.4e+03      52      77 ..     163     188 ..     125     199 .. 0.58
   3 ?   11.2   0.1   0.00042      0.47      27      88 ..     204     264 ..     202     264 .. 0.92

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.88
             Occludin_ELL  12 rYkaeFnke.YkeYkelhaeleevskkfseLerelkelkegsk..eykkieeeilqeykklkkdpeyqekkkrceyLke 87 
                              +Y+ eF+ + Y++Y + +a +++v   +s + +++++ +   k    ++ ++ei  +++ + k+ + q+  k  e++++
  PHY93_03345|PHY93_03345  42 TYRSEFELNiYSKYFK-NALINDVIPGMSSITEMTQTTDSMVKetLNDQFIDEIGGQFNIYDKNMNPQDLSKAREQMRN 119
                              5777777433777765.34445555555555544444444444223455566666666666666665555555555555 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 1.2
             Occludin_ELL  52 skeykkieeeilqeykklkkdpeyqe 77 
                               ++++++++ i+q++++++ +++  +
  PHY93_03345|PHY93_03345 163 IETIETAKKTIQQKLESVNVTKQITD 188
                              23445555555555555555554444 PP

  == domain 3  score: 11.2 bits;  conditional E-value: 0.00042
             Occludin_ELL  27 lhaeleevskkfseLerelkelkegskeykkieeeilqeykklkkdpeyqekkkrceyLkek 88 
                              l +e+++++ +++ L+ + ++++++  + +++++ i + +k++  dp+   +k+r e+L++k
  PHY93_03345|PHY93_03345 204 LRSEIAKINTDLEALKMQFNNHHPRIGKLQERKATIENWLKEIGDDPSVAVQKNR-EDLHSK 264
                              67899*******************************************9999998.567766 PP

>> SKA2  Spindle and kinetochore-associated protein 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0         4   4.5e+03      32      53 ..     100     120 ..      98     123 .. 0.70
   2 ?    3.0   0.4     0.073        82      45      78 ..     161     194 ..     156     199 .. 0.85
   3 ?   10.0   0.9   0.00051      0.57      33      62 ..     187     223 ..     171     228 .. 0.73
   4 ?   -2.4   0.0       3.7   4.1e+03      46      64 ..     228     246 ..     224     262 .. 0.75

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 4
                     SKA2  32 sypdnaeNpvkLlerlkkvkee 53 
                              +y++n +Np  L +  ++++++
  PHY93_03345|PHY93_03345 100 IYDKN-MNPQDLSKAREQMRNR 120
                              67888.5888887776666665 PP

  == domain 2  score: 3.0 bits;  conditional E-value: 0.073
                     SKA2  45 erlkkvkeelqaLkeqceellaekkelidkirtt 78 
                              +r++ + +  +++++++e +  +k+ + d+i+++
  PHY93_03345|PHY93_03345 161 TRIETIETAKKTIQQKLESVNVTKQITDDSISAN 194
                              6899999999999999999999999999888775 PP

  == domain 3  score: 10.0 bits;  conditional E-value: 0.00051
                     SKA2  33 ypdna.......eNpvkLlerlkkvkeelqaLkeqce 62 
                              ++d+        +Np +L ++++k++++l+aLk q++
  PHY93_03345|PHY93_03345 187 TDDSIsanalasKNPDVLRSEIAKINTDLEALKMQFN 223
                              3333355558889*********************986 PP

  == domain 4  score: -2.4 bits;  conditional E-value: 3.7
                     SKA2  46 rlkkvkeelqaLkeqceel 64 
                              r+ k++e+ +++++ ++e+
  PHY93_03345|PHY93_03345 228 RIGKLQERKATIENWLKEI 246
                              7888888888888877776 PP

>> JIP_LZII  JNK-interacting protein  leucine zipper II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.1   3.0    0.0052       5.9      20      63 ..     147     191 ..     144     199 .. 0.88
   2 ?    1.7   0.0      0.26     3e+02      42      64 ..     201     223 ..     194     229 .. 0.83

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.0052
                 JIP_LZII  20 tknaLnvvkddLIa.rvdeLtsereiLreEleslqkakerlesri 63 
                              tk +L+ v+++ I+ r++ + + ++++++ les++ +k+   ++i
  PHY93_03345|PHY93_03345 147 TKKVLEAVRENFINtRIETIETAKKTIQQKLESVNVTKQITDDSI 191
                              9************55*******************99988666655 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.26
                 JIP_LZII  42 reiLreEleslqkakerlesrik 64 
                               ++Lr+E+ ++++ +e+l+++ +
  PHY93_03345|PHY93_03345 201 PDVLRSEIAKINTDLEALKMQFN 223
                              4699********99999998875 PP

>> Wbp11  WW domain binding protein 11
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.1       3.9   4.3e+03       2       8 ..     103     109 ..     102     122 .. 0.57
   2 ?   10.9   0.2   0.00042      0.47      32      71 ..     194     241 ..     188     247 .. 0.63

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 3.9
                    Wbp11   2 KslnPad 8  
                              K++nP d
  PHY93_03345|PHY93_03345 103 KNMNPQD 109
                              6777766 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.00042
                    Wbp11  32 aklakkdpdeleeeiekLe.elessg.kldaa......dkkklekLek 71 
                               +la+k+pd l++ei+k++ +le+ + + +++       +++++ +e+
  PHY93_03345|PHY93_03345 194 NALASKNPDVLRSEIAKINtDLEALKmQFNNHhprigkLQERKATIEN 241
                              689***************864444442322224444444444444444 PP

>> Muted  Organelle biogenesis, Muted-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.0       2.8   3.1e+03     122     122 ..      99      99 ..      66     126 .. 0.48
   2 ?    9.9   3.5    0.0008       0.9      39     126 ..     149     241 ..     147     249 .. 0.79

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 2.8
                    Muted 122 e 122
                              +
  PHY93_03345|PHY93_03345  99 N 99 
                              1 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 0.0008
                    Muted  39 elLenikklvnelkeqllpkclesmkenLseln..kkleaalekverllqkeleeekrkseqlqekeeerkaeweef...lkelqe 119
                              ++Le+++++  +++ +++++ +++++++L+++n  k++ +   +++ l +k+ +  +++  ++++  e++k + ++    + +lqe
  PHY93_03345|PHY93_03345 149 KVLEAVRENFINTRIETIETAKKTIQQKLESVNvtKQITDDSISANALASKNPDVLRSEIAKINTDLEALKMQFNNHhprIGKLQE 234
                              689***************************99987778888888888888888888877778777777777666655222466777 PP

                    Muted 120 kkeevDe 126
                              +k+++++
  PHY93_03345|PHY93_03345 235 RKATIEN 241
                              7777776 PP

>> Pox_VLTF3  Poxvirus Late Transcription Factor VLTF3 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0       1.9   2.2e+03     100     112 ..      72      84 ..      48     112 .. 0.53
   2 ?    8.7   5.5    0.0012       1.3      28     119 ..     145     239 ..     114     243 .. 0.89

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 1.9
                Pox_VLTF3 100 delteifdklvkk 112
                              +e+t++ d +vk+
  PHY93_03345|PHY93_03345  72 TEMTQTTDSMVKE 84 
                              2333333333333 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 0.0012
                Pox_VLTF3  28 kiseevldelkkklkkknisikevtkakvlkiLKelglkklyedvklIleiltgkrpdklssleeklikdiFdelteifdklvkk. 112
                               + ++vl+++++++ + +i++ e  k+ +++ L + +++k+ +d +   + l  k+pd l s++ k   d +++l  +f++ +   
  PHY93_03345|PHY93_03345 145 AVTKKVLEAVRENFINTRIETIETAKKTIQQKLESVNVTKQITDDSISANALASKNPDVLRSEIAKINTD-LEALKMQFNNHHPRi 229
                              5899******************************************************999999998888.9****9998866557 PP

                Pox_VLTF3 113 ...nerknfi 119
                                 +erk +i
  PHY93_03345|PHY93_03345 230 gklQERKATI 239
                              7777777666 PP

>> Fib_alpha  Fibrinogen alpha/beta chain family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.1       1.7   1.9e+03      43      61 ..      67      85 ..      48     122 .. 0.65
   2 ?    8.3   4.6    0.0022       2.5      31     121 ..     157     246 ..     147     259 .. 0.79

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 1.7
                             CCCCCCCHHHHHHHHHHHH CS
                Fib_alpha 43 eleeisnstkeaeelvkei 61
                              +++i+++t++++++vke+
  PHY93_03345|PHY93_03345 67 GMSSITEMTQTTDSMVKET 85
                             4555555555555555543 PP

  == domain 2  score: 8.3 bits;  conditional E-value: 0.0022
                              CCCCHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHCCHHHHHHHHHHHHHHHH CS
                Fib_alpha  31 kdvkkdlekleneleeisnstkeaeelvkeikdslrekqkskkdndnvikksskeleeeilrlketidaqesnirvLqnvlesneq 116
                              + +++++e++e   ++i+++ ++++ + + ++ds+ ++   +k n  v+++   +++++ + lk + +++  +i +Lq+   + e+
  PHY93_03345|PHY93_03345 157 NFINTRIETIETAKKTIQQKLESVNVTKQITDDSISANALASK-NPDVLRSEIAKINTDLEALKMQFNNHHPRIGKLQERKATIEN 241
                              446899*************999998776666777666666666.76666666667777999*****************99888887 PP

                              HHHHH CS
                Fib_alpha 117 kiqkL 121
                               ++++
  PHY93_03345|PHY93_03345 242 WLKEI 246
                              77765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (314 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1488  (0.082994); expected 358.6 (0.02)
Passed bias filter:                      747  (0.0416643); expected 358.6 (0.02)
Passed Vit filter:                        79  (0.00440627); expected 17.9 (0.001)
Passed Fwd filter:                        16  (0.000892409); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              16  [number of targets reported over threshold]
# CPU time: 0.67u 0.29s 00:00:00.96 Elapsed: 00:00:00.50
# Mc/sec: 1902.45
//
Query:       PHY93_14340|PHY93_14340  [L=170]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (170 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       408  (0.0227564); expected 358.6 (0.02)
Passed bias filter:                      301  (0.0167884); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 1172.40
//
Query:       PHY93_14345|PHY93_14345  [L=530]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.2e-06   29.0   1.5    7.6e-06   26.5   0.3    2.4  2  TPR_16    Tetratricopeptide repeat
    1.4e-05   25.5   5.9    0.00013   22.4   0.6    3.0  3  TPR_19    Tetratricopeptide repeat
    2.4e-05   24.5   6.2    0.00028   21.0   2.6    2.7  2  ANAPC3    Anaphase-promoting complex, cyclosome, subunit 3
      0.001   19.0  16.2      0.067   13.3   0.1    5.1  5  TPR_2     Tetratricopeptide repeat
     0.0059   16.3   6.9      0.022   14.5   1.1    3.5  3  TPR_11    TPR repeat
     0.0083   16.4   2.0       0.17   12.4   0.6    3.6  3  TPR_17    Tetratricopeptide repeat
      0.009   15.8  10.2      0.033   14.0   0.0    4.4  4  TPR_1     Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.027   14.1   0.0      0.074   12.7   0.0    1.7  1  DUF3332   Domain of unknown function (DUF3332)
       0.11   13.4   1.4         17    6.6   0.1    3.6  4  TPR_14    Tetratricopeptide repeat
        2.5    8.4   9.3        1.9    8.9   1.9    3.6  3  TPR_12    Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.0      0.51   9.1e+02       7      22 ..      32      47 ..      29      52 .. 0.79
   2 !   26.5   0.3   4.3e-09   7.6e-06       3      60 ..      62     117 ..      60     122 .. 0.91

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.51
                   TPR_16  7 alragdyddAaaalea 22
                             +++a +y++A+  l+a
  PHY93_14345|PHY93_14345 32 LFQAEQYQEAIDSLKA 47
                             6888999999988865 PP

  == domain 2  score: 26.5 bits;  conditional E-value: 4.3e-09
                   TPR_16   3 laraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAa.alyraa 60 
                               ++++ r+++yd A+  ++ a k d       + ++++g+a++++++l+ A+ ++y++a
  PHY93_14345|PHY93_14345  62 TGLSYSRQRKYDLAILHFKKASKED---DSSLDLHYEYGQALYANNNLKQARdEFYKSA 117
                              68999********************...66667*******************9999876 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.4   0.3      0.03        55      35      53 ..      32      50 ..      31      59 .. 0.71
   2 !   22.4   0.6   7.4e-08   0.00013       4      46 ..      69     111 ..      68     116 .. 0.95
   3 ?   -1.9   0.0       2.8     5e+03      12      23 ..     207     218 ..     206     221 .. 0.84

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.03
                   TPR_19 35 llalgqldeAealLdalpe 53
                             l+++ q++eA++ L+al +
  PHY93_14345|PHY93_14345 32 LFQAEQYQEAIDSLKALDD 50
                             5667777777777777655 PP

  == domain 2  score: 22.4 bits;  conditional E-value: 7.4e-08
                   TPR_19   4 egdyaeAlalleqalqedpknaearllLAeallalgqldeAea 46 
                              + +y+ A+ ++++a +ed  ++++ + + +al+a+++l++A++
  PHY93_14345|PHY93_14345  69 QRKYDLAILHFKKASKEDDSSLDLHYEYGQALYANNNLKQARD 111
                              789**************************************97 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 2.8
                   TPR_19  12 alleqalqedpk 23 
                              +ll++al+ dp 
  PHY93_14345|PHY93_14345 207 PLLKKALDVDPT 218
                              589*****9996 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   0.1     0.037        67      66      81 ..      32      47 ..      30      48 .. 0.84
   2 !   21.0   2.6   1.6e-07   0.00028      25      78 ..      58     112 ..      49     116 .. 0.94

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.037
                             HHHTT-HHHHHHHH-S CS
                   ANAPC3 66 llkLkkyeeAiaaLek 81
                             l++ ++y+eAi+ L++
  PHY93_14345|PHY93_14345 32 LFQAEQYQEAIDSLKA 47
                             5788999**9999975 PP

  == domain 2  score: 21.0 bits;  conditional E-value: 1.6e-07
                              HHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-HHHHHHHHHHHHHTT-HHHHHHH CS
                   ANAPC3  25 dayllAlclylngqykrAyellrka.klnskslgcrylfAqcllkLkkyeeAiaa 78 
                               ayl +l++ ++ +y+ A+  ++ka k++++sl  +y ++q+l++ +++++A++ 
  PHY93_14345|PHY93_14345  58 KAYLTGLSYSRQRKYDLAILHFKKAsKEDDSSLDLHYEYGQALYANNNLKQARDE 112
                              69**************************************************986 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.8   0.2     0.088   1.6e+02      11      25 ..      32      46 ..      31      48 .. 0.85
   2 !   13.3   0.1   3.7e-05     0.067       5      31 ..      60      86 ..      57      89 .. 0.90
   3 !    9.0   1.9   0.00092       1.6       3      24 ..      92     113 ..      90     115 .. 0.93
   4 ?   -0.2   0.1      0.79   1.4e+03       5      29 ..     128     152 ..     125     153 .. 0.90
   5 ?   -1.4   0.0         2   3.5e+03      24      33 ..     209     218 ..     208     219 .. 0.86

  Alignments for each domain:
  == domain 1  score: 2.8 bits;  conditional E-value: 0.088
                    TPR_2 11 yyklgdyeeAleafe 25
                             ++++ +y+eA++ ++
  PHY93_14345|PHY93_14345 32 LFQAEQYQEAIDSLK 46
                             68999******9876 PP

  == domain 2  score: 13.3 bits;  conditional E-value: 3.7e-05
                    TPR_2  5 ynlGlayyklgdyeeAleafekAleld 31
                             y  Gl+y ++ +y+ A+ +f+kA + d
  PHY93_14345|PHY93_14345 60 YLTGLSYSRQRKYDLAILHFKKASKED 86
                             778********************8876 PP

  == domain 3  score: 9.0 bits;  conditional E-value: 0.00092
                    TPR_2   3 alynlGlayyklgdyeeAleaf 24 
                              ++y+ G+a+y+++++++A++ f
  PHY93_14345|PHY93_14345  92 LHYEYGQALYANNNLKQARDEF 113
                              79*****************977 PP

  == domain 4  score: -0.2 bits;  conditional E-value: 0.79
                    TPR_2   5 ynlGlayyklgdyeeAleafekAle 29 
                              y+ +++ + l+d   A+  ++k ++
  PHY93_14345|PHY93_14345 128 YYAAYISELLDDVIMAKFNYKKLIK 152
                              8899999999***********9986 PP

  == domain 5  score: -1.4 bits;  conditional E-value: 2
                    TPR_2  24 fekAleldPn 33 
                              ++kAl  dP+
  PHY93_14345|PHY93_14345 209 LKKALDVDPT 218
                              78*******8 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.2     0.063   1.1e+02       4      18 ..      32      46 ..      31      48 .. 0.83
   2 !   14.5   1.1   1.2e-05     0.022       4      41 ..      66     103 ..      63     104 .. 0.90
   3 ?   -0.3   0.0       0.5   8.9e+02      17      26 ..     209     218 ..     208     219 .. 0.88

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.063
                   TPR_11  4 yyeqGkyeeAieaYk 18
                             +++  +y eAi ++k
  PHY93_14345|PHY93_14345 32 LFQAEQYQEAIDSLK 46
                             688899999999887 PP

  == domain 2  score: 14.5 bits;  conditional E-value: 1.2e-05
                   TPR_11   4 yyeqGkyeeAieaYkkAlkldPdnaeayynLGlayykq 41 
                              y  q ky+ Ai ++kkA k d ++ +++y+ G+a+y++
  PHY93_14345|PHY93_14345  66 YSRQRKYDLAILHFKKASKEDDSSLDLHYEYGQALYAN 103
                              556669******************************87 PP

  == domain 3  score: -0.3 bits;  conditional E-value: 0.5
                   TPR_11  17 YkkAlkldPd 26 
                              +kkAl+ dP+
  PHY93_14345|PHY93_14345 209 LKKALDVDPT 218
                              69*******7 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.4   0.6   9.3e-05      0.17       2      33 ..      79     110 ..      78     111 .. 0.93
   2 ?   -0.0   0.0      0.84   1.5e+03       1      12 [.     208     219 ..     208     221 .. 0.88
   3 ?   -0.7   0.0       1.4   2.4e+03      15      27 ..     377     389 ..     376     393 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 9.3e-05
                   TPR_17   2 ylkaleldPnnadaynnLAelllknGdlmtAr 33 
                              ++ka + d ++ d++++++++l+ n++l++Ar
  PHY93_14345|PHY93_14345  79 FKKASKEDDSSLDLHYEYGQALYANNNLKQAR 110
                              789999999999*******************8 PP

  == domain 2  score: -0.0 bits;  conditional E-value: 0.84
                   TPR_17   1 lylkaleldPnn 12 
                              l++kal+ dP++
  PHY93_14345|PHY93_14345 208 LLKKALDVDPTS 219
                              679*******96 PP

  == domain 3  score: -0.7 bits;  conditional E-value: 1.4
                   TPR_17  15 aynnLAelllknG 27 
                              +++n++e++ k++
  PHY93_14345|PHY93_14345 377 SLTNYGETYFKIK 389
                              689******8766 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   0.3     0.051        92      11      24 ..      32      45 ..      31      47 .. 0.85
   2 !   14.0   0.0   1.8e-05     0.033       8      27 ..      63      82 ..      60      88 .. 0.90
   3 ?    0.2   1.0      0.44   7.9e+02       8      22 ..      97     111 ..      91     116 .. 0.82
   4 ?    0.7   0.0      0.29   5.1e+02      24      33 ..     209     218 ..     207     219 .. 0.87

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.051
                             HHHTT-HHHHHHHH CS
                    TPR_1 11 yfklgkydeAleyy 24
                             +f+ ++y+eA++  
  PHY93_14345|PHY93_14345 32 LFQAEQYQEAIDSL 45
                             68999******976 PP

  == domain 2  score: 14.0 bits;  conditional E-value: 1.8e-05
                             HHHHHHTT-HHHHHHHHHHH CS
                    TPR_1  8 GnayfklgkydeAleyyekA 27
                             G+ y ++ kyd A+ +++kA
  PHY93_14345|PHY93_14345 63 GLSYSRQRKYDLAILHFKKA 82
                             99*****************9 PP

  == domain 3  score: 0.2 bits;  conditional E-value: 0.44
                              HHHHHHTT-HHHHHH CS
                    TPR_1   8 GnayfklgkydeAle 22 
                              G+a++ ++++++A +
  PHY93_14345|PHY93_14345  97 GQALYANNNLKQARD 111
                              99***********87 PP

  == domain 4  score: 0.7 bits;  conditional E-value: 0.29
                              HHHHHHHSTT CS
                    TPR_1  24 yekALelnPn 33 
                               +kAL ++P+
  PHY93_14345|PHY93_14345 209 LKKALDVDPT 218
                              69*******7 PP

>> DUF3332  Domain of unknown function (DUF3332)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   4.1e-05     0.074      29      61 ..     433     465 ..     425     471 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 4.1e-05
                  DUF3332  29 lkwNksvvdnkFvnelvflllaivPvYgiaala 61 
                              ++ N+ +++n ++  +v+l++ +vP Y + +++
  PHY93_14345|PHY93_14345 433 YDENETLSNNTYLARIVYLAFELVPTYTLQMIF 465
                              5779************************98875 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.0      0.34     6e+02      11      27 ..      32      48 ..      31      56 .. 0.86
   2 ?    6.6   0.1    0.0093        17       8      43 ..      63      98 ..      58      99 .. 0.90
   3 ?    6.4   0.1      0.01        19       2      25 ..      91     114 ..      90     120 .. 0.88
   4 ?   -2.2   0.0       6.3   1.1e+04      23      35 ..     208     220 ..     206     223 .. 0.84

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.34
                   TPR_14 11 llalGdpdeAiallrra 27
                             l+++++++eAi+ l+++
  PHY93_14345|PHY93_14345 32 LFQAEQYQEAIDSLKAL 48
                             67999*********997 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.0093
                   TPR_14  8 aeallalGdpdeAiallrralalaPddaeawlllaq 43
                             +  + +++++d Ai ++++a + + ++++++++++q
  PHY93_14345|PHY93_14345 63 GLSYSRQRKYDLAILHFKKASKEDDSSLDLHYEYGQ 98
                             56799*****************************98 PP

  == domain 3  score: 6.4 bits;  conditional E-value: 0.01
                   TPR_14   2 eallalaeallalGdpdeAiallr 25 
                              ++++++++al+a+ ++++A++ + 
  PHY93_14345|PHY93_14345  91 DLHYEYGQALYANNNLKQARDEFY 114
                              5899****************9775 PP

  == domain 4  score: -2.2 bits;  conditional E-value: 6.3
                   TPR_14  23 llrralalaPdda 35 
                              ll++al+ +P+++
  PHY93_14345|PHY93_14345 208 LLKKALDVDPTSQ 220
                              899******9875 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.1      0.46   8.2e+02      14      68 ..      33      45 ..      31      48 .. 0.52
   2 ?    8.9   1.9     0.001       1.9       8      69 ..      61     114 ..      56     117 .. 0.85
   3 ?    0.7   0.0      0.36   6.4e+02      26      56 ..     405     433 ..     403     438 .. 0.79

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.46
                   TPR_12 14 rrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlell 68
                             +++++y+eA+                                          + l
  PHY93_14345|PHY93_14345 33 FQAEQYQEAI------------------------------------------DSL 45
                             4445555555..........................................444 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 0.001
                   TPR_12   8 nlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelle 69 
                                ++ + r+ +yd A+ +++ka    ++   +d+   +   + +g++++a +++++A++ + 
  PHY93_14345|PHY93_14345  61 LTGLSYSRQRKYDLAILHFKKA----SKE--DDS--SLDLHYEYGQALYANNNLKQARDEFY 114
                              5688999***************....444..676..99*******************98765 PP

  == domain 3  score: 0.7 bits;  conditional E-value: 0.36
                   TPR_12  26 lekaleiarrllGpdhpltattlrnLgrlyr 56 
                              ++ + +++ +l++++h  ++++  +Lg+l +
  PHY93_14345|PHY93_14345 405 FNISADQYISLQEGQH--LLIATLDLGQLNY 433
                              5567889999999***..8889999999865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (530 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       884  (0.0493056); expected 358.6 (0.02)
Passed bias filter:                      403  (0.0224776); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.65u 0.22s 00:00:00.87 Elapsed: 00:00:00.45
# Mc/sec: 3533.27
//
Query:       PHY93_14350|PHY93_14350  [L=485]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-13   51.1   0.7    2.4e-12   47.3   0.0    2.9  3  FecR      FecR protein
  ------ inclusion threshold ------
        1.6    7.9  10.9        2.9    7.0  10.2    1.6  1  SARG      Specifically androgen-regulated gene protein


Domain annotation for each model (and alignments):
>> FecR  FecR protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0      0.63   5.6e+03      41      58 ..      31      48 ..      19      54 .. 0.65
   2 !   47.3   0.0   2.7e-16   2.4e-12       3      95 ..      63     164 ..      61     165 .. 0.87
   3 ?    0.5   0.1      0.11   9.6e+02      52      77 ..     346     371 ..     328     386 .. 0.66

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.63
                     FecR 41 evsllkGevlfdvakdkk 58
                             +v l+kG+v+++ a +k+
  PHY93_14350|PHY93_14350 31 TVLLMKGKVKAKLADGKE 48
                             456777777776665554 PP

  == domain 2  score: 47.3 bits;  conditional E-value: 2.7e-16
                     FecR   3 irTgagsraeilleDgsvvrlnensslekaadsskrrrevsllkGevlfdvakdkk.......rpfevktpsatigvrgtefrv.. 79 
                              + T a s +++++ D+s+++l++ ss+   a  +k+   ++l++G+++++v+k+          ++ ++t+s+ +g+rgt+f+v  
  PHY93_14350|PHY93_14350  63 LITSARSFVKLVFIDKSTINLGPSSSMLIQAFPKKEAGIIKLIRGQIRAEVTKNYMemddkskSKLYIQTKSSAMGIRGTDFQVny 148
                              669999*********************888888888889*************9877676665344*****************6633 PP

                     FecR  80 rksdkqtevavleGeV 95 
                              + +++++++ v+eG+V
  PHY93_14350|PHY93_14350 149 NPTNQNSSLIVFEGKV 164
                              68999999*******9 PP

  == domain 3  score: 0.5 bits;  conditional E-value: 0.11
                     FecR  52 dvakdkkrpfevktpsatigvrgtef 77 
                              +  + k+++  vk+psat++ + t+ 
  PHY93_14350|PHY93_14350 346 ENDRTKRQQVDVKAPSATTANASTTA 371
                              33444445599999999998888766 PP

>> SARG  Specifically androgen-regulated gene protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.0  10.2   0.00032       2.9     150     279 ..     276     432 ..     253     434 .. 0.56

  Alignments for each domain:
  == domain 1  score: 7.0 bits;  conditional E-value: 0.00032
                     SARG 150 epsqapaskqeaaleldlvvi..pPPeafrdeqpeq....................keedslekepgeqvetpelassl.ssqkkk 212
                              e++++  +   a+++l +v i  pPPea+ d+  ++                    k          e ++  + ++++ ++ k++
  PHY93_14350|PHY93_14350 276 EKTHEYRPAAGAIIDLKTVNIiaPPPEALFDHATKTfvfsenygkidersgqfkapK--------GYELSNEGQFQPVEnDRTKRQ 353
                              44455555556688888876556999***9*99999999988888885533333221........122222222222224555666 PP

                     SARG 213 evsleamsqkakkkgstgkpgqpqpppalssena...........raedaplpsgedpsaklaPlt..ApKprKLPpnIv 279
                              +v+++a s  + + ++t +  ++ + pa+ s  a            + +ap+  +  p    aP t  Ap p  LPp I+
  PHY93_14350|PHY93_14350 354 QVDVKAPSATTANASTTASAPNTVSAPATVSAPAtvsapatvsapATVSAPATVSV-PTSTSAPATvsAPSPIALPPPII 432
                              66666666666554444444444444444444444555555554322233333222.334445555569*******9998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (485 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       812  (0.0452898); expected 358.6 (0.02)
Passed bias filter:                      461  (0.0257125); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.65u 0.29s 00:00:00.94 Elapsed: 00:00:00.47
# Mc/sec: 3114.01
//
Query:       PHY93_14355|PHY93_14355  [L=110]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.017   14.8   0.0       0.02   14.5   0.0    1.1  1  ChitinaseA_N  Chitinase A, N-terminal domain


Domain annotation for each model (and alignments):
>> ChitinaseA_N  Chitinase A, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0   1.1e-06      0.02      40      94 ..      43      96 ..      28     109 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 1.1e-06
             ChitinaseA_N 40 vsvewnvWsGeagdkakvlldgvkvaegaasakesatfkvkkgGryqlevelCda 94
                             ++++++v  G +gd+++++ dg++v   + + k++ tfk   +G+ +l +++ d+
  PHY93_14355|PHY93_14355 43 LKMDYDVIPGPSGDHVHMYADGKEVDVIK-KLKGQYTFKKLSSGKRELCIKIVDK 96
                             6789*********************8655.469999*************999886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (110 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       357  (0.0199119); expected 358.6 (0.02)
Passed bias filter:                      310  (0.0172904); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.43
# Mc/sec: 776.10
//
Query:       PHY93_17050|PHY93_17050  [L=131]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.4e-25   88.4   0.1    4.1e-25   88.1   0.1    1.1  1  Response_reg  Response regulator receiver domain
  ------ inclusion threshold ------
       0.07   13.6   0.0       0.12   12.8   0.0    1.3  1  ILEI          Interleukin-like EMT inducer


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.1   0.1   4.6e-29   4.1e-25       1     110 [.      11     127 ..      11     129 .. 0.93

  Alignments for each domain:
  == domain 1  score: 88.1 bits;  conditional E-value: 4.6e-29
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHH.....HHHHESEEEEESSCSSSEHHHHHHHHHHCT..TTSEEEEEES CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealell.....keekvdlillDinmpgmdGlellkeireed..pelpviilta 79 
                              vli+dD   +re l ++l++ g+++++e+ dgk+a++ l      ee + +i+lDinmp+m+Gl llk +re d  +++p+ i+++
  PHY93_17050|PHY93_17050  11 VLIADDLANMREDLIKILRSLGFTKIKEVHDGKAAWDELrlgahYEEPYEIIFLDINMPRMNGLSLLKALREIDfyKKTPIFIVST 96 
                              8**************************************666544555***************************99********* PP

                              STSHHHHHHHHHCTESEEEESSG-HHHHHHH CS
             Response_reg  80 hseeedavealkagaddflsKpfdpeeLlka 110
                              ++e++++ +a+ +ga d++ Kp++ + ++++
  PHY93_17050|PHY93_17050  97 ENEKDVILRAIIYGATDYILKPYSVNIVKEK 127
                              **********************988766665 PP

>> ILEI  Interleukin-like EMT inducer
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   1.4e-05      0.12      46      81 ..      11      46 ..      10      46 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 1.4e-05
                     ILEI 46 vavkdeassnlsdearkaleslGskkiknlgf.rdsw 81
                             v + d+   n++++++k l+slG +kik++++ +  w
  PHY93_17050|PHY93_17050 11 VLIADDL-ANMREDLIKILRSLGFTKIKEVHDgKAAW 46
                             5677888.59*******************98756555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (131 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       553  (0.0308439); expected 358.6 (0.02)
Passed bias filter:                      478  (0.0266607); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 886.86
//
Query:       PHY93_14360|PHY93_14360  [L=136]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.03   14.6   4.5      0.059   13.7   0.2    2.1  2  DUF420    Protein of unknown function (DUF420)


Domain annotation for each model (and alignments):
>> DUF420  Protein of unknown function (DUF420)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.2   3.3e-06     0.059      71     125 ..       5      59 ..       2      63 .. 0.93
   2 ?    2.5   0.8    0.0093   1.7e+02      10      47 ..      89     126 ..      74     135 .. 0.51

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 3.3e-06
                   DUF420  71 rpvYlaiLitHivLavvvvplvlvtlvlalkgkfekHrkiaritvpiwlyvavtG 125
                              +++Y ++ ++H + av+v+  +l++l++ ++++ +   k+a+it++ w +  v+G
  PHY93_14360|PHY93_14360   5 NTFYAIVQVIHNFGAVAVASCALLSLINPYNHSLQLQYKLAWITLIGWGIQGVSG 59 
                              57899999****************************************9988887 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.0093
                   DUF420  10 alaavllllglvaikkgkieaHrklmllafvlsalFlv 47 
                              +++a+ ++l+l++i++ k  + ++ +l+  ++++lF  
  PHY93_14360|PHY93_14360  89 ICTAMGFILALFFIRSAKKWRESSRVLSWKIMVILFTT 126
                              33444555566666655544444444444444444443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (136 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       799  (0.0445647); expected 358.6 (0.02)
Passed bias filter:                      301  (0.0167884); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.46
# Mc/sec: 886.76
//
Query:       PHY93_14365|PHY93_14365  [L=110]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.14   11.8   0.0       0.16   11.6   0.0    1.2  1  PRKCSH_1  Glucosidase II beta subunit-like protein


Domain annotation for each model (and alignments):
>> PRKCSH_1  Glucosidase II beta subunit-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0     9e-06      0.16      41      79 ..      68     106 ..      29     109 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 9e-06
                              T-EEEEEETTEEEEEETTSEEEETTEEEEEEEEEETTEE CS
                 PRKCSH_1  41 grevkekigdYeYkvvllesvvqddisiGefkkqegnkl 79 
                              g +++ kig+  Y+++l e++v d++ iG f++ e  k+
  PHY93_14365|PHY93_14365  68 GEKIRFKIGESVYRFKLKEKIVGDQLVIGPFSRSEALKI 106
                              6778899**************************998877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (110 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       335  (0.0186848); expected 358.6 (0.02)
Passed bias filter:                      270  (0.0150594); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.26s 00:00:00.69 Elapsed: 00:00:00.44
# Mc/sec: 756.21
//
Query:       PHY93_14370|PHY93_14370  [L=111]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.12   12.0   0.0       0.14   11.8   0.0    1.1  1  Corona_I  Corona nucleocapsid I protein


Domain annotation for each model (and alignments):
>> Corona_I  Corona nucleocapsid I protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   7.6e-06      0.14      38      70 ..      21      53 ..      10      80 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 7.6e-06
                 Corona_I 38 pgvwfpitpgflalpsskrersfslqkdkecll 70
                             p      t gfla+ s+k ++ fs  k+k c  
  PHY93_14370|PHY93_14370 21 PLAEHDETRGFLAINSTKLDQVFSCVKNKSCSK 53
                             555566799**********************64 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (111 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       479  (0.0267165); expected 358.6 (0.02)
Passed bias filter:                      322  (0.0179597); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.26s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 766.60
//
Query:       PHY93_14375|PHY93_14375  [L=189]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (189 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       517  (0.028836); expected 358.6 (0.02)
Passed bias filter:                      373  (0.0208043); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.26s 00:00:00.76 Elapsed: 00:00:00.46
# Mc/sec: 1234.89
//
Query:       PHY93_14380|PHY93_14380  [L=505]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.4e-23   82.6   0.0    5.9e-23   81.8   0.0    1.4  1  Peptidase_C92  Permuted papain-like amidase enzyme, YaeF/YiiX
  ------ inclusion threshold ------
       0.28   11.0   1.6        1.7    8.5   0.0    2.1  2  CEP63          Centrosomal protein of 63 kDa


Domain annotation for each model (and alignments):
>> Peptidase_C92  Permuted papain-like amidase enzyme, YaeF/YiiX, C92 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   81.8   0.0   6.5e-27   5.9e-23       6     146 ..     322     475 ..     317     493 .. 0.91

  Alignments for each domain:
  == domain 1  score: 81.8 bits;  conditional E-value: 6.5e-27
            Peptidase_C92   6 diifqtsraslseainpatasefkHvgivvgeeg.....................derlvveaaakegvrvtpLseflarrssiav 70 
                              di ++++ ++l+++++p   +++ Hv+i++g+e+                      ++ +vea   +gv+++++++fl+  ++  v
  PHY93_14380|PHY93_14380 322 DIFLEKTPFRLTDQFIP---GYYGHVAIWLGTEEelkelgiwddpmvqkyheaiqSGHHIVEA-LRPGVQINTFDHFLN-IDDFLV 402
                              999**************...***********************************88******.589************.****** PP

            Peptidase_C92  71 yrlkealtaeqrqkaaeaalrrlgkpYdfgFele.ddrlYCsklVakaykealgikvktvellgklllknpdsklkl 146
                              +r k+  +++qr++ +  +l+++gk+Ydf+F++e d+++ Cs++V+ ++    +i+++t ++lg++++++++++ k 
  PHY93_14380|PHY93_14380 403 LRDKNL-SDDQRREFILRSLAQIGKEYDFNFDVEtDSQIVCSEIVYVVF---HDINWPTKKALGRYTISPDNVANKA 475
                              *****7.9**************************99999**********...689*************877765544 PP

>> CEP63  Centrosomal protein of 63 kDa
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.5   0.0   0.00019       1.7      43      87 ..      33      77 ..      25      86 .. 0.90
   2 ?    1.3   0.4      0.03   2.7e+02      83     141 ..     193     248 ..     177     280 .. 0.69

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.00019
                    CEP63 43 eLasarnaldekhkEvgllrqqleelekekqelvakyeqqlqklr 87
                              La+ +  +de + E++ lr+ +e++ k +  +   ye++++k++
  PHY93_14380|PHY93_14380 33 PLATEKISIDEHTDEINNLRKLIEDALKWRLKALGFYEDNIEKFN 77
                             5899999*********************************99986 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.03
                    CEP63  83 lqklreelsklkrsyekLqrkqlkearekeakskeedrvelsrlnskleefrqkslewe 141
                              l+k+ +++  +k+ +   + +++ +a+    k +++++v l   +++l+ef  ks +++
  PHY93_14380|PHY93_14380 193 LEKITDNFFDVKQRFLMFKIQEILQAD---FKFEKDQKVSLTDDEKYLDEFITKSPFYN 248
                              444444444444444444444444444...456677899***************97653 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (505 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       780  (0.0435049); expected 358.6 (0.02)
Passed bias filter:                      451  (0.0251548); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.65u 0.26s 00:00:00.91 Elapsed: 00:00:00.47
# Mc/sec: 3207.54
//
Query:       PHY93_14385|PHY93_14385  [L=676]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.9e-23   81.0   0.1      1e-22   80.0   0.1    1.5  1  DUF3943          Domain of unknown function (DUF3943)
  ------ inclusion threshold ------
      0.078   13.7   0.0       0.19   12.5   0.0    1.6  1  RicinB_lectin_2  Ricin-type beta-trefoil lectin domain-like
      0.091   12.8   0.0        0.2   11.7   0.0    1.6  1  Collar           Phage Tail Collar Domain
       0.13   12.5   0.0       0.31   11.2   0.0    1.6  1  DUF3254          Protein of unknown function (DUF3254)


Domain annotation for each model (and alignments):
>> DUF3943  Domain of unknown function (DUF3943)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   80.0   0.1   2.2e-26     1e-22       4     104 ..     266     359 ..     263     362 .. 0.87

  Alignments for each domain:
  == domain 1  score: 80.0 bits;  conditional E-value: 2.2e-26
                  DUF3943   4 wDkdkfaiNlvgHpyaGslyylaaRsaglsfwesllyallgStlwElgvEfaekpSinDlivTplgGvvlGevlyrlsekilnerk 89 
                              +D+++ + N+ gH yaG ly+++aR++g++ +es+l+a+++St+wE+ +E++e+ SinD i T++gG v+Ge+ y+++  +l++  
  PHY93_14385|PHY93_14385 266 FDDNDKVANY-GHTYAGVLYFQMARTNGFNSLESFLIAFASSTTWEF-LEYHEVLSINDEILTSVGGYVIGEASYQIACALLQK-- 347
                              7889999996.***********************************6.799******************************944.. PP

                  DUF3943  90 lgesrvlrevlafll 104
                                 ++++ ++la+ +
  PHY93_14385|PHY93_14385 348 ---NTAVAKALAYTI 359
                              ...444444555555 PP

>> RicinB_lectin_2  Ricin-type beta-trefoil lectin domain-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   4.2e-05      0.19      25      76 ..      27      78 ..      19      85 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 4.2e-05
                             EE.ECGCCTBCTTEEEEEE-TTT-GGCEEEEECCESSEEEEEETTTTEEEEEC CS
          RicinB_lectin_2 25 vL.dvaggstanganvqqwtcsgaanqqWrledtgdgtyrivnkasgkvLdva 76
                             +  dv+++     + +   ++ +++nq W+ e  +   +++ nk sg ++dv+
  PHY93_14385|PHY93_14385 27 YAtDVHDSDLGRRVLISVGDFGNSNNQAWKKEICN-RVFTLANKVSGNYVDVT 78
                             4447777777777777888888999*****65555.9**************98 PP

>> Collar  Phage Tail Collar Domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   4.6e-05       0.2       9      39 ..     127     157 ..     122     167 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 4.6e-05
                              SS-SSTEEESBS-B--TTT-HHHHHHCTTTT CS
                   Collar   9 nlapaGWllcdGqslsisqypaLfaliGtty 39 
                              +++  GW++ dG + +is+ +a +++iG+ +
  PHY93_14385|PHY93_14385 127 DFTSLGWTIKDGEKTKISKEEAFAKAIGNFF 157
                              78889***********************987 PP

>> DUF3254  Protein of unknown function (DUF3254)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0     7e-05      0.31      41      87 ..     117     168 ..     108     178 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 7e-05
                  DUF3254  41 ikkfelyykgkmwCpgWttikGesrtrsrsgavekavrdFv.....qkAlda 87 
                              +++++  +++ ++  gWt   Ge ++ s+ +a  ka+ +F      q+A++a
  PHY93_14385|PHY93_14385 117 VNNWKRIHETDFTSLGWTIKDGEKTKISKEEAFAKAIGNFFfyvsnQTAFKA 168
                              6789999********************************9622233455555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (676 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       620  (0.0345808); expected 358.6 (0.02)
Passed bias filter:                      435  (0.0242624); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.70u 0.26s 00:00:00.96 Elapsed: 00:00:00.49
# Mc/sec: 4164.59
//
Query:       PHY93_14390|PHY93_14390  [L=828]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.9e-25   87.9   2.4    8.3e-16   57.9   0.0    3.1  3  YkuD_2    L,D-transpeptidase catalytic domain


Domain annotation for each model (and alignments):
>> YkuD_2  L,D-transpeptidase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.7   0.0   4.5e-11     8e-07       5      70 ..      52     117 ..      49     135 .. 0.87
   2 !   57.9   0.0   4.6e-20   8.3e-16      71     169 .]     145     235 ..     141     235 .. 0.94
   3 ?   -3.0   0.6      0.24   4.2e+03      79     106 ..     708     735 ..     681     747 .. 0.71

  Alignments for each domain:
  == domain 1  score: 28.7 bits;  conditional E-value: 4.5e-11
                   YkuD_2   5 lskealekalkgleklkkkkkekkkltiiDfskpStekRlfviDlkkkkllletlvahGknsgenl 70 
                              + +ea+ k + g++k++++ + +  +t++ +s pS+++Rl+ +D+kk+++ + ++ ahG+ns ++ 
  PHY93_14390|PHY93_14390  52 VPYEAFFKGYVGYQKYRRRLNGSPIITFLNYSIPSNQQRLVTVDFKKRTTPFVSHAAHGRNSSSDE 117
                              56789999999********999988************************************87664 PP

  == domain 2  score: 57.9 bits;  conditional E-value: 4.6e-20
                   YkuD_2  71 atkFsneegSkksslGfyktgetykgk.hGlslrLeGlekgiNdnAreRaivlHgadyvseefikklgrlgrSlGCpavseelakk 155
                              a +Fs++++S +sslGf ++ge++ gk  G+sl L+Gle + N+  ++R+i++H+ +yv+          g+S+GC a++++l++k
  PHY93_14390|PHY93_14390 145 AVSFSDRTNSLQSSLGFILVGEHNFGKvVGKSLILKGLEDS-NQGIQSREILFHSGNYVEI--------GGNSWGCIAIPPDLFSK 221
                              568***********************945************.****************974........499************** PP

                   YkuD_2 156 iiellkegsllfiy 169
                                ellk+++llf++
  PHY93_14390|PHY93_14390 222 GYELLKNNTLLFSF 235
                              ***********975 PP

  == domain 3  score: -3.0 bits;  conditional E-value: 0.24
                   YkuD_2  79 gSkksslGfyktgetykgkhGlslrLeG 106
                              +   s  G+y    +ykg+ G+s    G
  PHY93_14390|PHY93_14390 708 QGGSSFKGTYGNVGSYKGAGGTSGAFLG 735
                              4445668999999999999999877655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (828 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       891  (0.049696); expected 358.6 (0.02)
Passed bias filter:                      510  (0.0284455); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.77u 0.25s 00:00:01.02 Elapsed: 00:00:00.47
# Mc/sec: 5327.34
//
Query:       PHY93_14395|PHY93_14395  [L=390]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.8e-24   86.2   0.0    2.5e-24   85.8   0.0    1.3  1  DUF4143   Domain of unknown function (DUF4143)
      7e-21   74.6   0.0    2.8e-20   72.7   0.0    1.9  2  AAA_14    AAA domain
    0.00041   20.3   0.0     0.0029   17.6   0.0    2.0  2  ATPase_2  ATPase domain predominantly from Archaea


Domain annotation for each model (and alignments):
>> DUF4143  Domain of unknown function (DUF4143)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.8   0.0   4.1e-28   2.5e-24       2     121 ..     181     339 ..      89     340 .. 0.88

  Alignments for each domain:
  == domain 1  score: 85.8 bits;  conditional E-value: 4.1e-28
                              xxxxxxxxxxxxxxxxx.......................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                  DUF4143   2 rDirklagvrdpeelrk.......................................glverlppwsespnskkrlrkspKlyfvDt 48 
                              +Di   ag+++ +e+ k                                        ++  + p+  s+n+++rl+kspK+yf+Dt
  PHY93_14395|PHY93_14395 181 KDIVLAAGIQKSREFLKfvrllagrvgglldfsslgkdagvdaktikdwisilermHIIALVVPY--SSNLSSRLTKSPKIYFIDT 264
                              566666666666666668888888888888888888899999999999999999999********..******************* PP

                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                  DUF4143  49 GLlvallgldkeelledsenkGallEnlVaqeLlky..sekegaklyyyrdkngaEvDfvielkggkivpiEvKs 121
                              GL++ l g++++  + +s+  G l+EnlV++e++k   + + g++++++r+++g E+Df+i+++ ++   iE K 
  PHY93_14395|PHY93_14395 265 GLACRLQGWTSAGPIITSPQQGPLFENLVFSEIFKLniNYQLGWQVFHWRSRDGEEIDFLIQKDPKTFLFIEAKV 339
                              **************************************7777*********************999******997 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.7   0.0   4.6e-24   2.8e-20       3     131 .]      17     140 ..      15     140 .. 0.88
   2 ?   -1.1   0.0       0.3   1.8e+03      45      86 ..     163     202 ..     144     226 .. 0.72

  Alignments for each domain:
  == domain 1  score: 72.7 bits;  conditional E-value: 4.6e-24
                   AAA_14   3 kilvitGaRrvGKTtllkqlikellvkkesilyinldderdkkladpekllelileklkeekktylflDEiqevpewekalkslvd 88 
                              +i +i+G+R++GK+ ll +l         ++ +++ldd+ +++la++   +el+l+++++   + lf+DE+q++p ++  lk++ d
  PHY93_14395|PHY93_14395  17 PIQIIRGPRQCGKSSLLLHLD-------PEFKELSLDDPALRELAQN--DPELFLRQFNS---QKLFIDEAQYAPALFPSLKRMAD 90 
                              789*************98884.......4578**********99977..48999999644...449******************** PP

                   AAA_14  89 .......egknldvivtGSnskllskeiatslagrvaeielyplsfaEfl 131
                                     ++++  + +tGSn+ l+ +++++slagr++ ++++ ls+aE+l
  PHY93_14395|PHY93_14395  91 lykrdpkNKPQTILRLTGSNQILMDRNVKESLAGRASFFDMNTLSVAEIL 140
                              9987665446678889********************************96 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.3
                   AAA_14  45 kladpekllelileklkeekktylflDEiqevpewekalksl 86 
                              +++dp+k+l+ + + +   +k +++   iq+++e+ k+++ l
  PHY93_14395|PHY93_14395 163 DNRDPKKFLDDYINTY-V-EKDIVLAAGIQKSREFLKFVRLL 202
                              4456666666666653.2.56778888888888888888766 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.0   4.8e-07    0.0029      10      40 ..       6      36 ..       4      48 .. 0.89
   2 ?   -0.2   0.0      0.13   7.7e+02     122     193 ..      70     135 ..      62     153 .. 0.71

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 4.8e-07
                 ATPase_2 10 eleeilerepneiyfiYGpegsGKtaLlkei 40
                             ++ + +++++++i+ i Gp+++GK++Ll ++
  PHY93_14395|PHY93_14395  6 DISSFVQQNTDPIQIIRGPRQCGKSSLLLHL 36
                             78999***********************986 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.13
                 ATPase_2 122 iiiDelqklidlglngaellvkeLlnliesltkekhlcvv.iclsSeglfiervyneselegrhkyilvddld 193
                              ++iDe+q++  l        +k +++l+++++k+k  ++  + +s + l+ +  + +  l gr+++ ++++l 
  PHY93_14395|PHY93_14395  70 LFIDEAQYAPALFPS-----LKRMADLYKRDPKNKPQTILrLTGSNQILMDR--NVKESLAGRASFFDMNTLS 135
                              678999988855544.....89999999999999988877344555555555..4444578888887777774 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (390 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       408  (0.0227564); expected 358.6 (0.02)
Passed bias filter:                      394  (0.0219756); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.61u 0.26s 00:00:00.87 Elapsed: 00:00:00.49
# Mc/sec: 2407.37
//
Query:       PHY93_14400|PHY93_14400  [L=113]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.5e-10   40.9   0.0    2.5e-10   40.1   0.0    1.3  1  Peptidase_S24  Peptidase S24-like
  ------ inclusion threshold ------
      0.031   14.0   0.0      0.041   13.6   0.0    1.2  1  TRAPP          Transport protein particle (TRAPP) component


Domain annotation for each model (and alignments):
>> Peptidase_S24  Peptidase S24-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.1   0.0   2.8e-14   2.5e-10       7      68 ..      37      96 ..      37      98 .. 0.95

  Alignments for each domain:
  == domain 1  score: 40.1 bits;  conditional E-value: 2.8e-14
                             TCCTXXTTXEEEEECTS---TTSEEEEEETTCE-EEEEEEEEETTEEEEE.SSTTSTEEEEC CS
            Peptidase_S24  7 MeptlldGdlilVdkfsepkrGdivvfrlpgeeeayiKrviglpgdrvllasnneypplyin 68
                             M pt+ +Gdl++++ +s p++ d+v +++++e   ++Kr++++ +++ l++ n+  ++++++
  PHY93_14400|PHY93_14400 37 MSPTIWSGDLLIIELNSRPRNNDLVLVQIDNE--FTVKRFFKTAKGIKLIPDNPLFKEITLQ 96
                             99******************************..*****************99989998876 PP

>> TRAPP  Transport protein particle (TRAPP) component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   4.6e-06     0.041      75     115 ..      54     110 ..      37     111 .. 0.72

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 4.6e-06
                    TRAPP  75 lktnhrgeyvltdnefpltrf.......velpke...ls......ylaflcGiirGa 115
                                +n++ ++v +dnef+++rf       + +p++    +       + ++cGii+G+
  PHY93_14400|PHY93_14400  54 RPRNNDLVLVQIDNEFTVKRFfktakgiKLIPDNplfKEitlqenNNLIICGIIKGI 110
                              445667778999*********777777522344465411556677999*******96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (113 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       296  (0.0165096); expected 358.6 (0.02)
Passed bias filter:                      267  (0.0148921); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.44
# Mc/sec: 765.32
//
Query:       PHY93_14405|PHY93_14405  [L=30]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.032   14.5   0.0      0.032   14.5   0.0    1.0  1  DDE_Tnp_IS240  DDE domain


Domain annotation for each model (and alignments):
>> DDE_Tnp_IS240  DDE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0   1.8e-06     0.032      43      70 ..       2      28 ..       1      30 [] 0.92

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 1.8e-06
            DDE_Tnp_IS240 43 aakaflrkalkkeklepeeivtDkasay 70
                             aa +f++ka+ ++ + p +i++D ++a+
  PHY93_14405|PHY93_14405  2 AALRFFKKAIASS-GTPLKINIDNSGAN 28
                             89***********.**********9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (30 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       144  (0.00803168); expected 358.6 (0.02)
Passed bias filter:                      123  (0.00686039); expected 358.6 (0.02)
Passed Vit filter:                         6  (0.000334653); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.26s 00:00:00.65 Elapsed: 00:00:00.44
# Mc/sec: 206.38
//
Query:       PHY93_17055|PHY93_17055  [L=853]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      1e-14   55.0   0.1    2.6e-14   53.7   0.1    1.7  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    9.6e-08   32.3   0.0    2.3e-07   31.1   0.0    1.7  1  HAMP         HAMP domain
    9.9e-05   22.5   0.0    0.00026   21.2   0.0    1.7  1  Hpt          Hpt domain
     0.0068   16.2   0.0      0.016   15.0   0.0    1.6  1  HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like
  ------ inclusion threshold ------
      0.043   14.1   0.2      0.043   14.1   0.2    3.7  4  DUF1722      Protein of unknown function (DUF1722)


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.7   0.1   7.3e-18   2.6e-14       6     110 ..     713     851 ..     711     853 .] 0.88

  Alignments for each domain:
  == domain 1  score: 53.7 bits;  conditional E-value: 7.3e-18
                              HHHHHHHHHHHHHHH........HSTTTEEEEEEEE...EE.TEEEEEEEESSSSSTTHHHT......................GT CS
                HATPase_c   6 LrqiisnlvdNavkf........atkageieveika...se.ddlvisveDnGiGipkedlk......................kl 57 
                              L ++++n +d+ ++         + + g+i+++ ++   +e + l + ++D+G Gi+++ +                       k+
  PHY93_17055|PHY93_17055 713 LVHLFRNCLDHGIEDasirqlngKDPVGHIDISFDTvnsPEgKLLLVVIQDDGAGIDPQVIRtrwqkmnadkdisnlldkeviyKI 798
                              789***********9888877443366688888886654226788899************************************** PP

                              CSTTCHHCSTCHTSTSSSHHHHHHHHHHHHTTTEEEEEEETTTEEEEEEEEES CS
                HATPase_c  58 fekfsqddstkrggggtGlGlsivkklvelmgGeiwvesepgrGttftftlpl 110
                              f++f + +++ ++ +g+G+G+s  k++v++++G i++es  g+Gt f f +p 
  PHY93_17055|PHY93_17055 799 FDPFFTTRDEVSDLSGRGVGMSAIKEVVDHLNGYIEIESHIGIGTIFSFLIPV 851
                              **999967777778***********************************9986 PP

>> HAMP  HAMP domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.1   0.0   6.4e-11   2.3e-07       4      52 ..     287     335 ..     284     336 .. 0.92

  Alignments for each domain:
  == domain 1  score: 31.1 bits;  conditional E-value: 6.4e-11
                              HTTHHHHHHHHHHHHHHTTTBTSSTCCTTSSSHHHHHHHHHHHHHHHHH CS
                     HAMP   4 rrilrPLrrLaraarriaaGdldtrlpvsgrDEiGeLarafNaMldrLr 52 
                               +i+ P+ +L+  a++ia+Gd+++ + +++ DEi  L+ +fN M+ ++r
  PHY93_17055|PHY93_17055 287 SSITFPIIKLTNNAKKIAKGDFSSKVHIKTSDEIKILGDTFNLMSSEIR 335
                              567779**************************************99886 PP

>> Hpt  Hpt domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.2   0.0   7.3e-08   0.00026       4      84 ..     523     608 ..     522     609 .. 0.84

  Alignments for each domain:
  == domain 1  score: 21.2 bits;  conditional E-value: 7.3e-08
                              HHHHHHHHHHHHHHHHHH...SCC..HHHHHHHHHHHHHHHHHHTTBHHHHHHHHHHHHHHHHCTSCHHHHHHHH...HHHHHHHH CS
                      Hpt   4 elfleeaeelleqleqal...dqe..dlqelaraaHtLKGsagmlGltelaelahelEdlldragelelepelle...alkallea 81 
                              e f+ e+e+ ++q ++a+   + +   ++ ++ ++HtL G+ g+   t+l+ +a+  E+ +   + ++ +p+ le   +l+ ++e+
  PHY93_17055|PHY93_17055 523 ESFVSEVEDIFGQFKKAFsieE-KkiEFDLCMMLFHTLNGGFGIYNITKLQLIARDCENKIS--NIKDTNPDILEyipVLESYVEN 605
                              689***************8853.34899*******************************554..4455555555588899999999 PP

                              HHH CS
                      Hpt  82 lra 84 
                              l++
  PHY93_17055|PHY93_17055 606 LKQ 608
                              987 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   4.4e-06     0.016       4      76 ..     710     818 ..     707     830 .. 0.66

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 4.4e-06
              HATPase_c_3   4 ekAlaelvdNsldAdaen..............vkievnknrgkt...geivieDdGkGmseeelknalrlatsskeakr....kst 68 
                                +l+ l +N+ld   e               ++i++++ ++ +     +vi+DdG+G++++ ++   + ++ +k+ ++    +  
  PHY93_17055|PHY93_17055 710 FNVLVHLFRNCLDHGIEDasirqlngkdpvghIDISFDTVNSPEgklLLVVIQDDGAGIDPQVIRTRWQKMNADKDISNlldkE-- 793
                              56889999999996666666666999999999999999765444233779***************9667677777655434330.. PP

              HATPase_c_3  69 s.................lGkkGiG 76 
                              +                 l+ +G+G
  PHY93_17055|PHY93_17055 794 ViykifdpffttrdevsdLSGRGVG 818
                              1233333333333334446666666 PP

>> DUF1722  Protein of unknown function (DUF1722)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       1.8   6.5e+03      48      92 ..     153     197 ..     150     213 .. 0.67
   2 ?    0.7   0.2      0.17   6.1e+02      14      53 ..     333     370 ..     329     377 .. 0.71
   3 ?   14.1   0.2   1.2e-05     0.043      29      72 ..     503     546 ..     492     558 .. 0.87
   4 ?   -0.1   0.1       0.3   1.1e+03       8      35 ..     635     662 ..     629     666 .. 0.83

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 1.8
                  DUF1722  48 rkkhinvlqhilgyfkkklsaeekqelleliekYregkvplsvpl 92 
                              +k++++ l hi  ++k++      ++l  l+e + ++++ +++++
  PHY93_17055|PHY93_17055 153 PKSNLKFLLHITKMVKSENLLFSISDLSPLLEIFYKDQIYINKII 197
                              678888888888888877655555556666665555555555555 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.17
                  DUF1722  14 elgrlvanakkepleelaeeYeellmealskpatrkkhin 53 
                              e++ l++n+++    + +e+Y+++l+++++k++   k +n
  PHY93_17055|PHY93_17055 333 EIRILLKNKEQLI--AKLEDYSKNLEKMVEKRTLELKEAN 370
                              5666777766644..8889999999999988876655555 PP

  == domain 3  score: 14.1 bits;  conditional E-value: 1.2e-05
                  DUF1722  29 elaeeYeellmealskpatrkkhinvlqhilgyfkkklsaeekq 72 
                              +  e+Y +++ ++l+++++ ++ +  ++ i+g+fkk  s eek+
  PHY93_17055|PHY93_17055 503 KEKEAYVSMILKILNNKPQFESFVSEVEDIFGQFKKAFSIEEKK 546
                              44689*************************************97 PP

  == domain 4  score: -0.1 bits;  conditional E-value: 0.3
                  DUF1722   8 sqkeyrelgrlvanakkepleelaeeYe 35 
                              s +   el +lv + ++e+l+++++eY+
  PHY93_17055|PHY93_17055 635 SRDMILELKKLVLQTNNEELKHYYSEYF 662
                              6677789999999999999999999997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (853 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1317  (0.0734564); expected 358.6 (0.02)
Passed bias filter:                      652  (0.0363657); expected 358.6 (0.02)
Passed Vit filter:                        75  (0.00418317); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.84u 0.31s 00:00:01.14 Elapsed: 00:00:00.50
# Mc/sec: 5103.74
//
Query:       PHY93_14410|PHY93_14410  [L=123]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (123 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       310  (0.0172904); expected 358.6 (0.02)
Passed bias filter:                      242  (0.0134977); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.27s 00:00:00.71 Elapsed: 00:00:00.45
# Mc/sec: 815.24
//
Query:       PHY93_14415|PHY93_14415  [L=194]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.038   13.5   0.2      0.079   12.5   0.2    1.5  1  TF_Zn_Ribbon     TFIIB zinc-binding
       0.04   14.3   0.7         11    6.5   0.1    2.8  3  ATP-gua_PtransN  ATP:guanido phosphotransferase, N-terminal d
          1    9.9   3.8         31    5.2   0.0    2.4  2  Zn_ribbon_recom  Recombinase zinc beta ribbon domain


Domain annotation for each model (and alignments):
>> TF_Zn_Ribbon  TFIIB zinc-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.2   1.3e-05     0.079       5      34 ..       2      41 ..       2      44 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 1.3e-05
                             TTTCEEC........HEE..TSTTCEEESSSSBEEEECCC CS
             TF_Zn_Ribbon  5 nCgstnl........veD..pergelvCtdCGlVlednsi 34
                             +C+++n+        ++D  +e  + vC+dCG+ l dn +
  PHY93_14415|PHY93_14415  2 ECSHKNIstkkvkkeIFDmiFEAKTSVCSDCGAYLRDNEY 41
                             6778887788888888888899999********9999876 PP

>> ATP-gua_PtransN  ATP:guanido phosphotransferase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.5   0.1    0.0019        11       2      25 ..       4      27 ..       3      32 .. 0.91
   2 ?    5.2   0.0    0.0047        28       2      30 ..     106     134 ..     105     139 .. 0.90
   3 ?   -1.8   0.0      0.72   4.3e+03      13      31 ..     160     178 ..     157     182 .. 0.83

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.0019
                             TTT-HHHHC--HHHHHHHTT---T CS
          ATP-gua_PtransN  2 nhksllkkyLtpeiydklkdkkTr 25
                             +hk++ +k  ++ei+d + + kT+
  PHY93_14415|PHY93_14415  4 SHKNISTKKVKKEIFDMIFEAKTS 27
                             6999999999***********997 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.0047
                              TTT-HHHHC--HHHHHHHTT---TTS--H CS
          ATP-gua_PtransN   2 nhksllkkyLtpeiydklkdkkTrsgftL 30 
                              ++ +ll  +L pei ++  + k r++ ++
  PHY93_14415|PHY93_14415 106 KKSTLLESLLDPEILESFTNDKDRKKINI 134
                              6889*****************99999887 PP

  == domain 3  score: -1.8 bits;  conditional E-value: 0.72
                              HHHHHHHTT---TTS--HH CS
          ATP-gua_PtransN  13 peiydklkdkkTrsgftLd 31 
                              +e++ kl +  T+++ +L 
  PHY93_14415|PHY93_14415 160 EEVVVKLMTVITSHDQKLR 178
                              5788899999999998886 PP

>> Zn_ribbon_recom  Recombinase zinc beta ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.2   0.0    0.0051        31      38      57 ..       2      21 ..       1      22 [. 0.91
   2 ?    4.8   1.3    0.0067        40       7      27 ..      28      48 ..      26      74 .. 0.66

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.0051
          Zn_ribbon_recom 38 kCsnhsireekleeavleel 57
                             +Cs ++i+++k+++ + +++
  PHY93_14415|PHY93_14415  2 ECSHKNISTKKVKKEIFDMI 21
                             5*************999987 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.0067
          Zn_ribbon_recom  7 rCgeCGspmtrrkrkgkrhyY 27
                             +C +CG+ ++ +   +k+  +
  PHY93_14415|PHY93_14415 28 VCSDCGAYLRDNEYERKYMHW 48
                             7*******9997655566444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (194 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       885  (0.0493614); expected 358.6 (0.02)
Passed bias filter:                      557  (0.031067); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.53u 0.21s 00:00:00.74 Elapsed: 00:00:00.44
# Mc/sec: 1328.32
//
Query:       PHY93_14420|PHY93_14420  [L=45]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
     0.0017   18.6   0.1     0.0026   18.0   0.1    1.5  1  DDE_Tnp_IS240  DDE domain


Domain annotation for each model (and alignments):
>> DDE_Tnp_IS240  DDE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.1   1.5e-07    0.0026     101     132 ..      13      44 ..       1      45 [] 0.90

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 1.5e-07
            DDE_Tnp_IS240 101 sdhrtlKkrlrptrgfkslksaaktlagfeav 132
                              +d+++ K+ ++p+ gf+s++sa+k+la +e++
  PHY93_14420|PHY93_14420  13 KDFNEKKRITNPMMGFQSFNSAKKVLASIEMM 44 
                              6788889999*******************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (45 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       221  (0.0123264); expected 358.6 (0.02)
Passed bias filter:                      159  (0.00886831); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.38u 0.26s 00:00:00.64 Elapsed: 00:00:00.42
# Mc/sec: 319.67
//
Query:       PHY93_14425|PHY93_14425  [L=61]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.039   14.7   0.2      0.046   14.4   0.2    1.1  1  DUF4326   Domain of unknown function (DUF4326)
        0.1   11.9   0.4        0.1   11.9   0.4    1.1  1  BAF250_C  SWI/SNF-like complex subunit BAF250/Osa


Domain annotation for each model (and alignments):
>> DUF4326  Domain of unknown function (DUF4326)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.2   5.2e-06     0.046       2      45 ..      15      57 ..      13      61 .] 0.86

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 5.2e-06
                  DUF4326  2 rtkksrepedavyvgRgsklgNpFvvgqelgereevvekyreyl 45
                             +++k++ ++d+++++R++k+   Fv     +  +e++++y ++ 
  PHY93_14425|PHY93_14425 15 KNWKKKSKNDQIKIDREEKWSGYFVATSG-SVMDEMIKEYLAHH 57
                             5678888999**************99999.99999999998775 PP

>> BAF250_C  SWI/SNF-like complex subunit BAF250/Osa
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.4   1.1e-05       0.1      40      78 ..       1      39 [.       1      53 [. 0.87

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 1.1e-05
                 BAF250_C 40 lllhhehperkkkaeeydkeeeedeascseeewwvdvle 78
                             l lhh++p++k+++++++k++++d+ ++++ee w  ++ 
  PHY93_14425|PHY93_14425  1 LDLHHQKPSKKDRKKNWKKKSKNDQIKIDREEKWSGYFV 39
                             679*****************9999999999999987765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (61 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1535  (0.0856155); expected 358.6 (0.02)
Passed bias filter:                      543  (0.0302861); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.25s 00:00:00.70 Elapsed: 00:00:00.44
# Mc/sec: 413.12
//
Query:       PHY93_14430|PHY93_14430  [L=404]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.1e-21   75.1   0.7    9.6e-21   74.2   0.1    1.8  2  AAA_14           AAA domain
    1.1e-07   32.3   0.2    4.6e-07   30.3   0.0    2.0  2  AAA              ATPase family associated with various cellul
    1.5e-07   31.6   0.2    3.1e-07   30.6   0.2    1.5  1  DUF4143          Domain of unknown function (DUF4143)
      3e-06   27.5   0.1     0.0093   16.2   0.0    2.7  3  AAA_22           AAA domain
    1.9e-05   24.5   0.0    3.2e-05   23.8   0.0    1.3  1  Viral_helicase1  Viral (Superfamily 1) RNA helicase
    0.00017   21.6   0.0    0.00038   20.4   0.0    1.7  1  AAA_5            AAA domain (dynein-related subfamily)
     0.0045   17.1   0.4       0.02   15.0   0.0    2.1  2  tRNA_lig_kinase  tRNA ligase kinase domain
      0.008   16.6   0.1       0.33   11.3   0.0    2.2  2  AAA_16           AAA ATPase domain
  ------ inclusion threshold ------
      0.018   15.6   0.0        0.1   13.1   0.0    2.1  2  AAA_18           AAA domain
       0.02   15.4   0.0      0.055   14.0   0.0    1.8  2  ABC_tran         ABC transporter
      0.022   14.5   0.0      0.053   13.3   0.0    1.7  1  RuvB_N           Holliday junction DNA helicase RuvB P-loop d
      0.029   14.3   3.1        4.9    7.0   0.0    3.0  3  ATPase_2         ATPase domain predominantly from Archaea
      0.033   13.7   0.1      0.088   12.3   0.1    1.8  1  AAA_7            P-loop containing dynein motor region
       0.04   14.3   0.0       0.09   13.2   0.0    1.6  1  RNA_helicase     RNA helicase
      0.044   13.1   0.0      0.084   12.1   0.0    1.4  1  Zeta_toxin       Zeta toxin
      0.073   13.0   0.2        1.7    8.5   0.0    2.5  2  MobB             Molybdopterin guanine dinucleotide synthesis
      0.096   12.4   0.0       0.21   11.3   0.0    1.6  1  Thymidylate_kin  Thymidylate kinase
       0.11   13.0   0.3       0.33   11.4   0.0    1.9  2  NERD             Nuclease-related domain
       0.15   11.2   0.1       0.97    8.6   0.1    2.0  2  NB-ARC           NB-ARC domain
       0.17   12.3   0.0        0.8   10.1   0.0    2.0  2  AAA_17           AAA domain
       0.17   11.9   2.3       0.48   10.5   0.1    2.6  3  Cullin_Nedd8     Cullin protein neddylation domain


Domain annotation for each model (and alignments):
>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.2   0.1   1.1e-23   9.6e-21       8     131 .]       2     123 ..       1     123 [. 0.87
   2 ?   -2.7   0.0       6.4   5.5e+03      30      59 ..     221     248 ..     207     262 .. 0.53

  Alignments for each domain:
  == domain 1  score: 74.2 bits;  conditional E-value: 1.1e-23
                   AAA_14   8 tGaRrvGKTtllkqlikellvkkesilyinldderdkkladpekllelilek.lke.ekktylflDEiqevpewekalkslvdegk 91 
                              +G+  +GKTt+++ l++el  +k +++ ++ dd +++++   +   +++l++ l++ +k+ ++f+DE+q+++++++alk  +d++ 
  PHY93_14430|PHY93_14430   2 SGIVGCGKTTMIQALLEELQ-EKFEVFQFSGDDIKFRNSVSMD--SNYLLQQiLSKtQKRPFVFIDEVQKSESIFDALKIAFDSH- 83 
                              78999***********9998.9999999999999998866443..3444444322236999**********************99. PP

                   AAA_14  92 nldvivtGSnskllskeiatslagrvaeielyplsfaEfl 131
                              ++ +iv+GSn   l + ++++l++r++++ + pls+ E+l
  PHY93_14430|PHY93_14430  84 KISFIVSGSNPAYLASVAKKRLQRRAEHLYMLPLSLPEIL 123
                              99**********************************9986 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 6.4
                   AAA_14  30 kesilyinldderdkkladpekllelilek 59 
                              ++++ y n+   + ++++d+  ++++i e+
  PHY93_14430|PHY93_14430 221 SKEFAYNNIFARTRTNRRDT--INKVINEL 248
                              45555555444444444433..44444443 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.3   0.0   5.3e-10   4.6e-07       3      69 ..       1      68 [.       1     110 [. 0.80
   2 ?   -0.9   0.1       2.4   2.1e+03      79     119 ..     205     245 ..     188     255 .. 0.66

  Alignments for each domain:
  == domain 1  score: 30.3 bits;  conditional E-value: 5.3e-10
                             EESSTTSSHHHHHHHHHHHH..THEEEEEETTTCS..SSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGG CS
                      AAA  3 lyGppGtGKTllakavakel..gvefleisgsell..skyvgesekkirelfkeakekakpsilfiDEida 69
                             l+G  G+GKT++++a+ +el  ++e++++sg ++   +++  +s+  +++++++ +   k   +fiDE+ +
  PHY93_14430|PHY93_14430  1 LSGIVGCGKTTMIQALLEELqeKFEVFQFSGDDIKfrNSVSMDSNYLLQQILSKTQ---KRPFVFIDEVQK 68
                             68999***************555999*****9998435555556666666665543...348******976 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 2.4
                              CHHHHHHHHHHHHHHHHTTTSSSTEEEEEEESSGGGSTHHH CS
                      AAA  79 seeeervvnqLlteldgvkkkeskvivigatnrpdkldpal 119
                              ++++++vv+  l++l   +   ++++  + tnr d++++ +
  PHY93_14430|PHY93_14430 205 NNDASEVVKIELAQLHSKEFAYNNIFARTRTNRRDTINKVI 245
                              45555555555555555555566677777777777777655 PP

>> DUF4143  Domain of unknown function (DUF4143)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.6   0.2   3.6e-10   3.1e-07      43     121 ..     273     357 ..     199     358 .. 0.76

  Alignments for each domain:
  == domain 1  score: 30.6 bits;  conditional E-value: 3.6e-10
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxx..........xxxxxxxxxxxxxxxxxx RF
                  DUF4143  43 lyfvDtGLlvallgldkeelledsenkGallEnlVaqeLlky..sekegaklyyyrdk..........ngaEvDfvielkggkivp 116
                              + ++D+G++++l+         ++en+G+ +E ++ + L  +  + + +++l yy+ +          +  E+Df+++ kg+ki p
  PHY93_14430|PHY93_14430 273 FSYIDPGIVTYLTAEF-----GENENRGFRIEGYIHARLDHFikNASLKYELGYYKPHtidkndkvkySPGEIDFILK-KGNKILP 352
                              3468****99966333.....34589*********99988888866679*****************965********9.799**** PP

                              xxxxx RF
                  DUF4143 117 iEvKs 121
                              iEvK+
  PHY93_14430|PHY93_14430 353 IEVKA 357
                              ****8 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0   1.1e-05    0.0093      11      65 ..       2      56 ..       1      58 [. 0.83
   2 !   13.2   0.0   9.5e-05     0.081      80     131 ..      46      93 ..      24      97 .. 0.79
   3 ?   -2.2   0.0       5.2   4.5e+03      38      66 ..     207     235 ..     179     261 .. 0.66

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 1.1e-05
                   AAA_22 11 tGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsstsskdllrellralg 65
                              G +G+GKTt ++ lle+l+e  +  + + + +++  ++s++s  ll+++l++++
  PHY93_14430|PHY93_14430  2 SGIVGCGKTTMIQALLEELQEKFEVFQFSGDDIKFRNSVSMDSNYLLQQILSKTQ 56
                             6999***************876655555555569999999999*******99987 PP

  == domain 2  score: 13.2 bits;  conditional E-value: 9.5e-05
                   AAA_22  80 ealeqalraravielliiDEaqhlrseealeeLrsllnlsrkgvqliLvGtp 131
                               +l+q l+++++++++ iDE+q+   e ++  L++ ++  ++++++i+ G +
  PHY93_14430|PHY93_14430  46 YLLQQILSKTQKRPFVFIDEVQKS--ESIFDALKIAFD--SHKISFIVSGSN 93 
                              5667777777779**********9..9999********..*********976 PP

  == domain 3  score: -2.2 bits;  conditional E-value: 5.2
                   AAA_22  38 erpevvfvtlpsstsskdl.lrellralgl 66 
                                +evv+++l+++  sk++ +++++  +  
  PHY93_14430|PHY93_14430 207 DASEVVKIELAQLH-SKEFaYNNIFARTRT 235
                              46677788887777.445547777666554 PP

>> Viral_helicase1  Viral (Superfamily 1) RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.8   0.0   3.8e-08   3.2e-05       4      76 ..       2      71 ..       1      91 [. 0.74

  Alignments for each domain:
  == domain 1  score: 23.8 bits;  conditional E-value: 3.8e-08
          Viral_helicase1  4 hGvpGcGKStlirkllrtsliltvnrptaelltegk......pklpnlsvrtvdsflmalvkstkgkililDEylllha 76
                             +G+ GcGK+t+i+ ll++       ++ +e++  +       + +  +s++ ++++l++  k     ++++DE ++ ++
  PHY93_14430|PHY93_14430  2 SGIVGCGKTTMIQALLEE------LQEKFEVFQFSGddikfrNSVSMDSNYLLQQILSKTQK---RPFVFIDEVQKSES 71
                             6889**************......77778888888876666556666666666766666554...69********9985 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.4   0.0   4.5e-07   0.00038       4      95 ..       1      86 [.       1     148 [. 0.90

  Alignments for each domain:
  == domain 1  score: 20.4 bits;  conditional E-value: 4.5e-07
                             EE--SSSSHHHHHHHGGGGBS--EEEEE--TT--HHHHH--B--.........--------G-SEEEEESGGG--HHHHHHHHHHHHS CS
                    AAA_5  4 LvGppGtgKselaerlaaalnreveyvqltrdtteedlkgrreikngttslvdsplvraaregeilvlDEveraesevlnsLlsllee 91
                             L G  G+gK+++++ l++ l+ ++e+ q++     +d+k r +++++   l +++l  + ++   +++DEv++ + +++++L   ++ 
  PHY93_14430|PHY93_14430  1 LSGIVGCGKTTMIQALLEELQEKFEVFQFSG----DDIKFRNSVSMDSNYLLQQILS-KTQKRPFVFIDEVQK-SESIFDALKIAFDS 82
                             66889***********************998....9********9999999999998.89999999******5.56799998877777 PP

                             SEEE CS
                    AAA_5 92 rrll 95
                              +++
  PHY93_14430|PHY93_14430 83 HKIS 86
                             6665 PP

>> tRNA_lig_kinase  tRNA ligase kinase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   2.4e-05      0.02       7      86 ..       4      89 ..       2     109 .. 0.70
   2 ?   -0.8   0.2       1.6   1.4e+03      62      92 ..     226     256 ..     200     270 .. 0.71

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 2.4e-05
                             -TTSSHHHHHHHH.HHH-TTSEEEE..GGGS-TT-SS-HHHHHH..HTT.SSTT--EEEEES---SHHHHHHHHHHHHHHHHHH-- CS
          tRNA_lig_kinase  7 tiGCGkttvaltl.enlfgeWghvq..nDnitgkdkkklvkeal..ell.kkdeskvvlvDrnnhqkreRkqlfeeidelkeeyls 86
                             ++GCGktt+ ++l e+l  ++++ q   D+i+ ++   + ++ l  ++l k ++  +v++D   + +    +l   +d+ k +++ 
  PHY93_14430|PHY93_14430  4 IVGCGKTTMIQALlEELQEKFEVFQfsGDDIKFRNSVSMDSNYLlqQILsKTQKRPFVFIDEVQKSESIFDALKIAFDSHKISFIV 89
                             69******999872456555887764479**98877666555442234444567789***99887777777777777777766665 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 1.6
                              S---SHHHHHHHHHHHHHHHHHH--TT-EEE CS
          tRNA_lig_kinase  62 rnnhqkreRkqlfeeidelkeeylsydvnvk 92 
                               nn  +r R +  ++i+++ +e +++d  v+
  PHY93_14430|PHY93_14430 226 YNNIFARTRTNRRDTINKVINELINHDYIVR 256
                              4777888888888888888888877776665 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.3   0.0   0.00038      0.33      29      60 ..       1      31 [.       1      51 [. 0.69
   2 ?    3.4   0.0       0.1        89     119     149 ..      44      71 ..      32      88 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00038
                   AAA_16 29 lsGesGvGKsslvrellralekdggiflrgkc 60
                             lsG  G+GK++++++ll++l+++ + +++   
  PHY93_14430|PHY93_14430  1 LSGIVGCGKTTMIQALLEELQEK-FEVFQFSG 31
                             67888***************999.33333333 PP

  == domain 2  score: 3.4 bits;  conditional E-value: 0.1
                   AAA_16 119 llellkrllallsrderplvlvlDdlqwade 149
                               ++ll+++l   s++++   +++D++q+ ++
  PHY93_14430|PHY93_14430  44 SNYLLQQIL---SKTQKRPFVFIDEVQKSES 71 
                              577788888...4445568999*****7654 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   0.00012       0.1       3      49 ..       1      51 [.       1     115 [. 0.61
   2 ?   -0.5   0.0         2   1.7e+03      43      76 ..     228     259 ..     194     290 .. 0.60

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 0.00012
                   AAA_18  3 ltGtpGvGKttlakeLskrl..gf..gvnlrdvakenglllevdpealdes 49
                             l+G+ G+GKtt+ ++L ++l  +f   + ++d +k ++++ ++ ++ l++ 
  PHY93_14430|PHY93_14430  1 LSGIVGCGKTTMIQALLEELqeKFevFQFSGDDIKFRNSVSMDSNYLLQQI 51
                             68**************66653233666666666666666666666633333 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 2
                   AAA_18  43 pealdeskrldedkldklldaleenssaleegkn 76 
                              +  + +++  ++d  +k++++l +++       +
  PHY93_14430|PHY93_14430 228 NI-FARTRTNRRDTINKVINELINHDY-IVRKRP 259
                              33.444555555666666666666665.233333 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   6.4e-05     0.055      18      68 ..       3      51 ..       1     112 [. 0.73
   2 ?   -1.7   0.0       4.5   3.9e+03      85      85 ..     241     241 ..     176     339 .. 0.61

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 6.4e-05
                             ESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS- CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran 18 GenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqep 68
                             G  G+GK+t++++l+++l+ + +  ++ g+d+k   ++s++  + +l q+ 
  PHY93_14430|PHY93_14430  3 GIVGCGKTTMIQALLEELQEKFEVFQFSGDDIKF--RNSVSMDSNYLLQQI 51
                             677*****************999999******99..666666666666662 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 4.5
                              H CS
                              x RF
                 ABC_tran  85 i 85 
                              i
  PHY93_14430|PHY93_14430 241 I 241
                              2 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   6.2e-05     0.053      38     120 ..       1      92 [.       1     105 [. 0.72

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 6.2e-05
                   RuvB_N  38 lyGpPGlGkttlakiiakelgvklki..tsgPvl........ekagdlaalltnleekdvlfideihrlsraveevlysamedfrl 113
                              l+G  G Gktt+ + + +el+ k+++   sg  +        + +  l  +l++ +++  +fide+ +  +++ + l  a++ +++
  PHY93_14430|PHY93_14430   1 LSGIVGCGKTTMIQALLEELQEKFEVfqFSGDDIkfrnsvsmDSNYLLQQILSKTQKRPFVFIDEVQKS-ESIFDALKIAFDSHKI 85 
                              57889**************99876542246655511110000455568899***************985.5677789999999999 PP

                   RuvB_N 114 divigkG 120
                                ++   
  PHY93_14430|PHY93_14430  86 SFIVSGS 92 
                              9888654 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.8   0.0    0.0067       5.7      27      48 ..       3      24 ..       1      42 [. 0.80
   2 ?    7.0   0.0    0.0058       4.9     105     131 ..      43      70 ..      24      80 .. 0.73
   3 ?   -1.5   0.3       2.3     2e+03      59     113 ..     184     248 ..     175     258 .. 0.58

  Alignments for each domain:
  == domain 1  score: 6.8 bits;  conditional E-value: 0.0067
                 ATPase_2 27 GpegsGKtaLlkeiienledkd 48
                             G  g+GKt++++ ++e+l++k 
  PHY93_14430|PHY93_14430  3 GIVGCGKTTMIQALLEELQEKF 24
                             6779**************7743 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.0058
                 ATPase_2 105 aielllek.ikkkgkkiiiiiDelqkli 131
                                ++ll++ ++k++k++ ++iDe+qk  
  PHY93_14430|PHY93_14430  43 DSNYLLQQiLSKTQKRPFVFIDEVQKSE 70 
                              5555555515677788*********976 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 2.3
                 ATPase_2  59 eesiskldefie........eeeekkklekal..giavpkaeleeilkeksklvfkaiellleki 113
                              ++++++++ ++e        e+++++++ k    +   ++++ ++i+ +++++    i+++++++
  PHY93_14430|PHY93_14430 184 TQKLTEIKLTVErgfdlftvENNDASEVVKIElaQLHSKEFAYNNIFARTRTNRRDTINKVINEL 248
                              55555555555555556555555555555444334445556667777777777777777777665 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.1    0.0001     0.088      39      89 ..       2      58 ..       1      73 [. 0.66

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.0001
                    AAA_7 39 vGptGtGKtviikdllkkldkekylslt.....inf..saqtsanqlqdiiesklekr 89
                              G +G+GKt++i+ ll++l+ ek+ + +     i+f  s ++++n l + i sk +kr
  PHY93_14430|PHY93_14430  2 SGIVGCGKTTMIQALLEELQ-EKFEVFQfsgddIKFrnSVSMDSNYLLQQILSKTQKR 58
                             6899****************.7777665111113331134445555555555555555 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0    0.0001      0.09       4      63 ..       2      71 ..       1     114 [. 0.75

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 0.0001
             RNA_helicase  4 yGpsgeGKStlakeLakallkkl..........klkkkdsvysrnpeddfwdgYtgqevvvidDfgqvkd 63
                             +G  g+GK+t+++ L ++l++k+          k+ ++ s+ s+   ++++++ ++ ++v id++ ++++
  PHY93_14430|PHY93_14430  2 SGIVGCGKTTMIQALLEELQEKFevfqfsgddiKFRNSVSMDSNYLLQQILSKTQKRPFVFIDEVQKSES 71
                             6778****************99999999998444444444444556788889999999999998887765 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   9.8e-05     0.084      21      55 ..       1      35 [.       1      40 [. 0.93

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 9.8e-05
               Zeta_toxin 21 lgGqpGAGKselaellkdelerqgnvvrldpDdlR 55
                             l+G  G+GK++++++l +el+++ +v ++++Dd++
  PHY93_14430|PHY93_14430  1 LSGIVGCGKTTMIQALLEELQEKFEVFQFSGDDIK 35
                             57889****************************98 PP

>> MobB  Molybdopterin guanine dinucleotide synthesis protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.5   0.0     0.002       1.7       5      25 ..       2      22 ..       1      26 [. 0.88
   2 ?    1.7   0.0      0.26   2.2e+02      75     114 ..     181     221 ..     174     234 .. 0.77

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.002
                     MobB  5 vgksgsGKTtLleklipelka 25
                              g  g+GKTt+++ l++el++
  PHY93_14430|PHY93_14430  2 SGIVGCGKTTMIQALLEELQE 22
                             57789*************987 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.26
                     MobB  75 eeaelsleellarlse.vDlvlvEGfkkealpkievlrael 114
                              +e++ +l e+  ++++  Dl  vE   ++++ kie+ + + 
  PHY93_14430|PHY93_14430 181 QEQTQKLTEIKLTVERgFDLFTVENNDASEVVKIELAQLHS 221
                              45567788877777656******************987654 PP

>> Thymidylate_kin  Thymidylate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00024      0.21       3      42 ..       3      40 ..       1      77 [. 0.85

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00024
                             ESTTSSHHHHHHHHHHHHHHTTE.EEEESSSTTSHHHHHH CS
          Thymidylate_kin  3 GlDGaGKttqaellkerlkeegikvvltrepggteiGeki 42
                             G+ G GKtt++++l e l+e+ +  v+++  ++ ++++++
  PHY93_14430|PHY93_14430  3 GIVGCGKTTMIQALLEELQEKFE--VFQFSGDDIKFRNSV 40
                             899******************95..888888888777765 PP

>> NERD  Nuclease-related domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       9.2   7.8e+03      12      34 ..     215     236 ..     206     255 .. 0.62
   2 ?   11.4   0.0   0.00038      0.33      27      56 ..     333     360 ..     303     381 .. 0.71

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 9.2
                     NERD  12 eLkelkedeylvlhdvrlrpgtg 34 
                              eL++l +++ + +++++ r++t+
  PHY93_14430|PHY93_14430 215 ELAQL-HSKEFAYNNIFARTRTN 236
                              55544.33444477777776643 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 0.00038
                     NERD  27 vrlrpgtgeiDhlvispkgifviEvKnwsG 56 
                              v++    geiD+++   ++i+ iEvK+ + 
  PHY93_14430|PHY93_14430 333 VKYS--PGEIDFILKKGNKILPIEVKATDN 360
                              2332..34******************9773 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   0.1    0.0011      0.97      25      56 ..       1      29 [.       1      77 [. 0.67
   2 ?    1.0   0.0      0.24     2e+02      96     129 ..      48      84 ..      27      90 .. 0.69

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.0011
                             EEESTTSSHHHHHHHHCCSHCCCCCCBTEEEE CS
                   NB-ARC 25 lvGmgGvGKttlakqilnksdevegrFdsvaw 56
                             l+G  G+GKtt+++  l++   ++++F+++ +
  PHY93_14430|PHY93_14430  1 LSGIVGCGKTTMIQALLEE---LQEKFEVFQF 29
                             67999*********99999...6666666544 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.24
                              HHHHCC..CTTEEEEEEEE-SHHH.H.....HHHHCH CS
                   NB-ARC  96 lvrlLl..tkrfllvlDDVweeed.wdkigvvlpare 129
                              l+++L   +kr  + +D V ++e  +d++++++ +++
  PHY93_14430|PHY93_14430  48 LQQILSktQKRPFVFIDEVQKSESiFDALKIAFDSHK 84 
                              4444431145889999***999999999999998665 PP

>> AAA_17  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.0   0.00094       0.8       2      26 ..       3      29 ..       2      69 .. 0.86
   2 ?   -0.8   0.0       2.3   1.9e+03      55     110 ..     234     286 ..     209     290 .. 0.70

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00094
                             E-TTSSHHHHHHHHHHHH..TEEEEEH CS
                   AAA_17  2 GgPGsGKgtqceklveky..gfthlsa 26
                             G+ G+GK+t+++ l e++  +f+++++
  PHY93_14430|PHY93_14430  3 GIVGCGKTTMIQALLEELqeKFEVFQF 29
                             99**************99767887776 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 2.3
                              HHHHHHHHHHHHHHHHSSEEEEEE-SEEEETTEEEESSHHHHHHHH..SEEEEEE- CS
                   AAA_17  55 kelqkeaaekiaeeakkkgvlvdghprikeqagfldglpkevleelkpdaiillea 110
                              +  ++  ++k+ +e  +++++v + p + ++++  + +   v+  ++p ++++l a
  PHY93_14430|PHY93_14430 234 RTNRRDTINKVINELINHDYIVRKRPLLLKEHK--SSYL-SVFSYIDPGIVTYLTA 286
                              445666777788888899999999998877666..3344.4677777877777765 PP

>> Cullin_Nedd8  Cullin protein neddylation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.1       1.7   1.5e+03      20      45 ..      11      35 ..       8      50 .. 0.65
   2 ?   -1.3   0.1       2.7   2.3e+03      20      37 ..      42      59 ..      34      69 .. 0.79
   3 ?   10.5   0.1   0.00056      0.48      41      60 ..     238     257 ..     210     258 .. 0.85

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 1.7
             Cullin_Nedd8 20 lshneLvsevieqlskrftpsiadik 45
                               ++ L++e  e+  + f+ s  dik
  PHY93_14430|PHY93_14430 11 TMIQALLEELQEKF-EVFQFSGDDIK 35
                             44555555555554.45666667766 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 2.7
             Cullin_Nedd8 20 lshneLvsevieqlskrf 37
                             ++ n L+++++++++kr 
  PHY93_14430|PHY93_14430 42 MDSNYLLQQILSKTQKRP 59
                             788999999999999985 PP

  == domain 3  score: 10.5 bits;  conditional E-value: 0.00056
             Cullin_Nedd8  41 iadikkrIesLiekeYleRd 60 
                                 i k+I++Li+++Y+ R+
  PHY93_14430|PHY93_14430 238 RDTINKVINELINHDYIVRK 257
                              4789*************996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (404 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       832  (0.0464053); expected 358.6 (0.02)
Passed bias filter:                      588  (0.032796); expected 358.6 (0.02)
Passed Vit filter:                        82  (0.0045736); expected 17.9 (0.001)
Passed Fwd filter:                        21  (0.00117129); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              21  [number of targets reported over threshold]
# CPU time: 0.68u 0.28s 00:00:00.96 Elapsed: 00:00:00.47
# Mc/sec: 2557.90
//
Query:       PHY93_14435|PHY93_14435  [L=215]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.3e-13   50.0   0.4    4.3e-13   49.1   0.4    1.5  1  HTH_3          Helix-turn-helix
    4.6e-13   48.9   0.0      7e-13   48.3   0.0    1.3  1  Peptidase_S24  Peptidase S24-like
    2.9e-09   36.8   0.3    5.1e-09   36.0   0.3    1.4  1  HTH_19         Helix-turn-helix domain
      2e-06   28.0   0.0      3e-06   27.5   0.0    1.3  1  HTH_31         Helix-turn-helix domain
     0.0061   17.0   0.2      0.011   16.2   0.2    1.4  1  HTH_26         Cro/C1-type HTH DNA-binding domain
  ------ inclusion threshold ------
       0.08   12.7   0.0       0.12   12.1   0.0    1.3  1  TRAPP          Transport protein particle (TRAPP) component
      0.084   12.7   1.6       0.52   10.2   0.3    2.2  2  HTH_25         Helix-turn-helix domain
      0.085   12.8   0.0       0.15   12.0   0.0    1.4  1  Pou            Pou domain - N-terminal to homeobox domain
       0.11   13.1   0.1       0.18   12.4   0.1    1.3  1  PCI            PCI domain


Domain annotation for each model (and alignments):
>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.1   0.4   2.2e-16   4.3e-13       1      54 [.      15      68 ..      15      69 .. 0.96

  Alignments for each domain:
  == domain 1  score: 49.1 bits;  conditional E-value: 2.2e-16
                             HHHHHHHTTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHHH CS
                    HTH_3  1 lkelRkqlglsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvslde 54
                             lke+R+ +g+sqeeLA  + + r++is++E++   P+l+tl+k+++ L +s++ 
  PHY93_14435|PHY93_14435 15 LKEYRLNAGMSQEELALNSELDRTYISMLERNLKTPTLTTLVKISRSLSISPSI 68
                             8*******************************999*************999875 PP

>> Peptidase_S24  Peptidase S24-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.3   0.0   3.5e-16     7e-13       3      68 ..     135     198 ..     133     200 .. 0.94

  Alignments for each domain:
  == domain 1  score: 48.3 bits;  conditional E-value: 3.5e-16
                              XSSTTCCTXXTTXEEEEECTS---TTSEEEEEETTCE-EEEEEEEEETTEEEEE.SSTTSTEEEEC CS
            Peptidase_S24   3 pGdSMeptlldGdlilVdkfsepkrGdivvfrlpgeeeayiKrviglpgdrvllasnneypplyin 68 
                               GdSM pt+ +Gdl++++ +s p++ d+v +++++e   ++Kr++++ +++ l++ n+  ++++++
  PHY93_14435|PHY93_14435 135 AGDSMSPTIWSGDLLIIELNSRPRNNDLVLVQIDNE--FTVKRFFKTAKGIKLIPDNPLFKEITLQ 198
                              69**********************************..*****************99989998876 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.0   0.3   2.5e-12   5.1e-09       1      61 [.      12      71 ..      12      75 .. 0.94

  Alignments for each domain:
  == domain 1  score: 36.0 bits;  conditional E-value: 2.5e-12
                   HTH_19  1 GerLkeaReelgltqeelaerlgisrskisaiEngkkdvpsaelllkiaealgidleyllq 61
                             G+ Lke+R ++g++qeela +   +r++is++E + k +p+  +l ki++ l i++  ll 
  PHY93_14435|PHY93_14435 12 GKALKEYRLNAGMSQEELALNSELDRTYISMLERNLK-TPTLTTLVKISRSLSISPSILLA 71
                             899********************************99.**************999987775 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.5   0.0   1.5e-09     3e-06       2      58 ..      11      66 ..      10      75 .. 0.91

  Alignments for each domain:
  == domain 1  score: 27.5 bits;  conditional E-value: 1.5e-09
                   HTH_31  2 LGalLralReraGLsqeevAerlgvsestlsrlEqGrrgrpspavlealaralgldp 58
                             +G  L+++R  aG+sqee+A  + + ++++s lE+   + p++ +l ++ r l  +p
  PHY93_14435|PHY93_14435 11 FGKALKEYRLNAGMSQEELALNSELDRTYISMLERNLKT-PTLTTLVKISRSLSISP 66
                             899***********************************5.******99998887766 PP

>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.2   5.5e-06     0.011       8      58 ..      21      70 ..      14      73 .. 0.90

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 5.5e-06
                   HTH_26  8 drgitkseLargtgisaatlsrlvkgkpervsldtLdkiCdaLgctpgDLl 58
                               g+++ eLa  ++++++ +s l  +  ++++l+tL ki + L ++p+ Ll
  PHY93_14435|PHY93_14435 21 NAGMSQEELALNSELDRTYISMLERN-LKTPTLTTLVKISRSLSISPSILL 70
                             679**********************9.69******************8766 PP

>> TRAPP  Transport protein particle (TRAPP) component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0     6e-05      0.12      73     115 ..     154     212 ..     110     213 .. 0.74

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 6e-05
                    TRAPP  73 dnlktnhrgeyvltdnefpltrf.......velpke...ls......ylaflcGiirGa 115
                              ++  +n++ ++v +dnef+++rf       + +p++    +       + ++cGii+G+
  PHY93_14435|PHY93_14435 154 NSRPRNNDLVLVQIDNEFTVKRFfktakgiKLIPDNplfKEitlqenNNLIICGIIKGI 212
                              44446677779999*********777777522344465411556677999*******96 PP

>> HTH_25  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.3   0.00026      0.52       2      33 ..      15      46 ..      14      48 .. 0.94
   2 ?    1.2   0.1      0.17   3.4e+02      12      29 ..      54      71 ..      53      85 .. 0.87

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00026
                             HHHHHHTTT--HHHHHHHSS--HHHHHHHHCT CS
                   HTH_25  2 LraaRearglsleevaketkIrkdylealEed 33
                             L++ R+ +g+s ee+a    +   y+  lE++
  PHY93_14435|PHY93_14435 15 LKEYRLNAGMSQEELALNSELDRTYISMLERN 46
                             999**************************975 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.17
                             -HHHHHHHSS--HHHHHH CS
                   HTH_25 12 sleevaketkIrkdylea 29
                             +l ++++ + I++++l a
  PHY93_14435|PHY93_14435 54 TLVKISRSLSISPSILLA 71
                             788999999999999965 PP

>> Pou  Pou domain - N-terminal to homeobox domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   7.7e-05      0.15       4      35 ..       6      39 ..       3      47 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 7.7e-05
                      Pou  4 keleefakefkqkRiklgltQadvgl..aLgkly 35
                             ++  +f k++k++R++ g++Q++++l  +L ++y
  PHY93_14435|PHY93_14435  6 NDFFNFGKALKEYRLNAGMSQEELALnsELDRTY 39
                             6667899***************986411455555 PP

>> PCI  PCI domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   8.9e-05      0.18      13      64 ..       6      65 ..       3      87 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 8.9e-05
                             TSHHHHHHHHHHH........HHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHCESEEEHH CS
                      PCI 13 gnlsgfseelkdl........eeelladdglaqllesLekkvrerllrqvskiyssisle 64
                             +++  f ++lk++        ee  l+ +  ++++++Le+++++ +l +++ki +s+s++
  PHY93_14435|PHY93_14435  6 NDFFNFGKALKEYrlnagmsqEELALNSELDRTYISMLERNLKTPTLTTLVKISRSLSIS 65
                             567889999999988888884444444444455*************************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (215 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       345  (0.0192426); expected 358.6 (0.02)
Passed bias filter:                      311  (0.0173462); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.49u 0.26s 00:00:00.75 Elapsed: 00:00:00.46
# Mc/sec: 1419.23
//
Query:       PHY93_14440|PHY93_14440  [L=235]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.35   11.0   7.2       0.53   10.4   6.1    2.0  2  TIG       IPT/TIG domain


Domain annotation for each model (and alignments):
>> TIG  IPT/TIG domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   6.1   2.9e-05      0.53      16      83 ..      82     152 ..      67     169 .. 0.68
   2 ?   -1.9   0.0      0.21   3.7e+03      19      27 ..     210     220 ..     205     228 .. 0.66

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 2.9e-05
                      TIG  16 GttititGtnFgtnssdssvtiggtpctvta.svssttlvcttPpgp....sgllnvsvlvdgaqlrsdnttf 83 
                              + +i+itGtn+ t++++ +++  g+ +++   s++st++v  t + +    ++ + +++ + + + +s  ++f
  PHY93_14440|PHY93_14440  82 NHQIIITGTNL-TSVQNFNIKESGNTTNLQIeSQTSTSIVANTISNVtfaaGKVFDFILSNAS-AASSFTVNF 152
                              789********.666666666555555544489999999777666655664335666665555.555554444 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 0.21
                      TIG  19 ititGtnF..g 27 
                              i+i G++F  +
  PHY93_14440|PHY93_14440 210 ILIAGDYFivS 220
                              78889988331 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (235 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       775  (0.0432261); expected 358.6 (0.02)
Passed bias filter:                      355  (0.0198003); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1585.36
//
Query:       PHY93_14445|PHY93_14445  [L=262]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (262 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       828  (0.0461822); expected 358.6 (0.02)
Passed bias filter:                      285  (0.015896); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.45
# Mc/sec: 1767.44
//
Query:       PHY93_14450|PHY93_14450  [L=112]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (112 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       918  (0.051202); expected 358.6 (0.02)
Passed bias filter:                      497  (0.0277205); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.26s 00:00:00.74 Elapsed: 00:00:00.45
# Mc/sec: 740.72
//
Query:       PHY93_14455|PHY93_14455  [L=289]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.2e-52  175.6   0.0    9.2e-52  175.1   0.0    1.1  1  Transgly  Transglycosylase
     0.0047   17.6   0.3        6.5    7.6   0.1    2.8  2  CsgA      Minor curli fiber component A
  ------ inclusion threshold ------
      0.015   15.5   0.0      0.047   13.8   0.0    1.7  2  DUF563    Protein of unknown function (DUF563)
      0.017   14.2   0.2      0.026   13.6   0.2    1.2  1  AEP1      ATPase expression protein 1
       0.11   11.4   0.1       0.14   10.9   0.1    1.1  1  PIF2      Per os infectivity factor 2
       0.82    9.7   3.4        1.7    8.7   2.6    2.0  2  SHP       Small hydrophobic protein


Domain annotation for each model (and alignments):
>> Transgly  Transglycosylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  175.1   0.0   3.1e-55   9.2e-52      10     166 ..      74     230 ..      66     245 .. 0.91

  Alignments for each domain:
  == domain 1  score: 175.1 bits;  conditional E-value: 3.1e-55
                 Transgly  10 eeenrelvkleeippalkkavvaiEDrrFyehkGvdlkgiarAvlknlksgkssqGgSTitqQlvknlflseertlerKlkeavlA 95 
                              +++  ++v+le+i++ +++a++++ED +Fy h+G dl+++  A+ + +  +k+ +G+STitqQlvknl+ls+++t+ rK++e+v+A
  PHY93_14455|PHY93_14455  74 DSRPPTWVPLEKISKRVQQAIISSEDGKFYFHPGYDLEQLRDAINDSFVLKKKMRGASTITQQLVKNLYLSRDKTFGRKARELVMA 159
                              467789*******************************************9************************************ PP

                 Transgly  96 lklekklsKdeILeaYlNsvylgrevyGieaAarayFgkdakdLtlaeaalLagllkaPsrynplenpeea 166
                              l +ek+ +K++ILeaYlN +++g+++yGi +A+r+yF+k++  L+ +eaa+La ll++P +y++  +++++
  PHY93_14455|PHY93_14455 160 LMIEKHSNKQKILEAYLNIIEYGKDLYGIDKASRYYFNKPPGSLNSREAAFLAMLLPSPVKYSKSFKNKSL 230
                              **************************************************************875444443 PP

>> CsgA  Minor curli fiber component A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.5   0.0    0.0023       6.8      43      69 ..     202     228 ..     162     232 .. 0.80
   2 !    7.6   0.1    0.0022       6.5      20      67 ..     236     287 ..     228     289 .] 0.76

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0023
                     CsgA  43 dLseeEiefLnkiLeeeikyakeeqde 69 
                              +L+++E++fL  +L++ +ky+k+ +++
  PHY93_14455|PHY93_14455 202 SLNSREAAFLAMLLPSPVKYSKSFKNK 228
                              799******************987765 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0022
                     CsgA  20 evgkeiykkleekeykseeefvkdLsee....EiefLnkiLeeeikyakeeq 67 
                              ++  +i  k+++  y seee++++L+ +         ++iL+e+i+ ++ee+
  PHY93_14455|PHY93_14455 236 RMIDSILLKMRQAGYISEEEYITQLNGRfsweKNPSAEEILDEQISGSEEEE 287
                              56788999*****************865222144567788888888777775 PP

>> DUF563  Protein of unknown function (DUF563)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   1.6e-05     0.047      33     119 ..      48     152 ..      24     169 .. 0.74
   2 ?   -0.8   0.0      0.48   1.4e+03      17      95 ..     162     240 ..     153     257 .. 0.54

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 1.6e-05
                   DUF563  33 laspqpfqrellkllgi.rpekrikveldepvhve.........klivpvpprssggfqgallpklrdrlrerlnlekr....... 101
                              + s+++fq+++  +l i  ++    v++++p +v          ++i+++ +   ++++g+ l +lrd++++++ l+k        
  PHY93_14455|PHY93_14455  48 YYSISKFQEHYFTILVIdNHAVYTEVDSRPPTWVPlekiskrvqQAIISSEDGKFYFHPGYDLEQLRDAINDSFVLKKKmrgasti 133
                              4455677777777777722333333334455555555666666699********************************99888886 PP

                   DUF563 102 .kkp.trvlyisRlkagsRr 119
                               + +  + ly+sR k+ +R+
  PHY93_14455|PHY93_14455 134 tQ-QlVKNLYLSRDKTFGRK 152
                              42.266666****8888887 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 0.48
                   DUF563  17 leqlvlddddrilvpalaspqpfqrellkllgirpekrikveld....epvhve.....klivpvpprssggfqgallpklrdrlr 93 
                              +e+  ++++   ++ a+ ++ ++ +   +l+gi++++r++  ++    +    +     + ++p+p   s +f++  l  +++r+ 
  PHY93_14455|PHY93_14455 162 IEKHSNKQK---ILEAYLNIIEYGK---DLYGIDKASRYYFNKPpgslN---SReaaflAMLLPSPVKYSKSFKNKSLTPFARRMI 238
                              444445555...4455555556665...556887777774443332221...2233344666666666555555555555555555 PP

                   DUF563  94 er 95 
                              ++
  PHY93_14455|PHY93_14455 239 DS 240
                              55 PP

>> AEP1  ATPase expression protein 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.2   8.8e-06     0.026     208     276 ..     110     180 ..      84     187 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 8.8e-06
                     AEP1 208 lnkLlesinekfniqncltkfsplvlqellefyiksk..dltesktllekLikkkiipseesieaYLelle 276
                              l++L ++in +f +++ ++  s ++ q + ++y++       ++++l   L  +k  ++++++eaYL+ +e
  PHY93_14455|PHY93_14455 110 LEQLRDAINDSFVLKKKMRGASTITQQLVKNLYLSRDktFGRKARELVMALMIEKHSNKQKILEAYLNIIE 180
                              7899**********99999988888888889**9987335589*************************997 PP

>> PIF2  Per os infectivity factor 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.1   4.8e-05      0.14       4      58 ..      31      87 ..      27     100 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 4.8e-05
                     PIF2  4 llvvlilyivakplleavldvvreqleyentv..eerleeieetlarrryvplealp 58
                             l+ +lil  +  pl+++++++++ q +y +++  +++  + e   +   +vple++ 
  PHY93_14455|PHY93_14455 31 LIAILILIKISLPLFSTYYSISKFQEHYFTILviDNHAVYTEVDSRPPTWVPLEKIS 87
                             5778899999******************99751144444444444456899999875 PP

>> SHP  Small hydrophobic protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.7   2.6   0.00057       1.7       3      39 ..       7      43 ..       5      57 .. 0.89
   2 ?   -2.2   0.0       1.4   4.2e+03      44      57 ..     143     156 ..     133     162 .. 0.80

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 0.00057
                      SHP  3 ntsitieftskfwpyftlihmiltlislliiitimia 39
                             nt  t+ f+ kf  +     m + li++li+i i + 
  PHY93_14455|PHY93_14455  7 NTPKTVTFADKFSKFKIRFFMAFWLIAILILIKISLP 43
                             8999****************************99765 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 1.4
                      SHP  44 lsehktfcnntlel 57 
                              ls  ktf   + el
  PHY93_14455|PHY93_14455 143 LSRDKTFGRKAREL 156
                              89999998887776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (289 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       716  (0.0399353); expected 358.6 (0.02)
Passed bias filter:                      463  (0.0258241); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.61u 0.26s 00:00:00.87 Elapsed: 00:00:00.49
# Mc/sec: 1770.76
//
Query:       PHY93_17060|PHY93_17060  [L=668]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.019   15.7   1.0        4.5    8.1   0.1    3.3  2  GPI-anchored  Ser-Thr-rich glycosyl-phosphatidyl-inositol-anc
      0.039   14.5   3.9      0.095   13.2   0.3    3.3  3  DUF4369       Domain of unknown function (DUF4369)
      0.064   13.2   1.2       0.18   11.7   0.0    2.3  2  DUF2536       Protein of unknown function (DUF2536)


Domain annotation for each model (and alignments):
>> GPI-anchored  Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.1      0.01        60       2      84 ..     211     281 ..     210     292 .. 0.66
   2 ?    8.1   0.1   0.00076       4.5      29      89 ..     559     621 ..     548     622 .. 0.72

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.01
             GPI-anchored   2 sPssgevvtagkpvtitWkdsgtdpgtvtlvLcagssnnlksvktiasgiknsdgsytwtvpaslesggaYflqivsesnegi 84 
                              sP+ ge++++ + ++i+ +     ++++++ L ++s      + ++ s   n+  +++w+   sle +g+Yfl++ +++n++i
  PHY93_17060|PHY93_17060 211 SPTQGENFESIEGIKIKTNR----KSKYKIALSKNSA----FIPSLDSAEFNG-ANFEWET--SLE-EGDYFLKVEDKKNNKI 281
                              78888888888888887555....5788888888877....333333333354.5667766..666.689******8887743 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.00076
             GPI-anchored  29 vtlvLcagssnn..lksvktiasgik.nsdgsytwtvpaslesggaYflqivsesnegiynySd 89 
                              + l+L++ +  +  ++ ++ + +  k n++ sy+ +v +sl+++  Y ++i+ ++ ++i+ yS 
  PHY93_17060|PHY93_17060 559 YCLKLVQIPVFSfvPQAKDVVLTYLKhNNQDSYKLEV-PSLNKAVRYHVEIYRDNVGKILVYSA 621
                              556666666633213333444555555777*******.56************999999999995 PP

>> DUF4369  Domain of unknown function (DUF4369)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.1      0.31   1.9e+03      65      84 ..     124     145 ..      99     161 .. 0.65
   2 ?   -1.7   0.0      0.71   4.2e+03      58      82 ..     165     196 ..     149     201 .. 0.65
   3 ?   13.2   0.3   1.6e-05     0.095       6      84 ..     225     294 ..     220     300 .. 0.86

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.31
                  DUF4369  65 lengtititiddgss..akvtG 84 
                              ++ng + i i++++   +kv G
  PHY93_17060|PHY93_17060 124 IKNGVVDIFIEKNQAinVKVAG 145
                              5555566666655555544444 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 0.71
                  DUF4369  58 ggalpfflengtititiddgss.......akv 82 
                              +g+l ff +   ++i++++g++       a  
  PHY93_17060|PHY93_17060 165 EGELHFFTKDNGVKIKTSSGEKeiksnreAIL 196
                              33577888888888888888776665555555 PP

  == domain 3  score: 13.2 bits;  conditional E-value: 1.6e-05
                  DUF4369   6 tik.gladgkkvylsyddngvvklDsavvknGkFtfkgkvdeprlaylliddkggalpfflengtititiddgssakvtG 84 
                              +ik + +++ k+ ls+++  +  lDsa+ +  +F+ +++++e   ++l + dk++       n+ + it++++  +k+ G
  PHY93_17060|PHY93_17060 225 KIKtNRKSKYKIALSKNSAFIPSLDSAEFNGANFEWETSLEE-GDYFLKVEDKKN-------NKIVPITLTNK--YKIDG 294
                              5666667889999999999**********9999*********.999999999999.......89999999988..56665 PP

>> DUF2536  Protein of unknown function (DUF2536)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0     3e-05      0.18      31      55 ..     133     157 ..     120     171 .. 0.85
   2 ?   -2.4   0.2      0.75   4.5e+03      22      40 ..     478     495 ..     477     498 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 3e-05
                  DUF2536  31 ienNkallLeVhsvsHqvavdpktg 55 
                              ie+N+a+  +V+ v+Hq++ + k++
  PHY93_17060|PHY93_17060 133 IEKNQAINVKVAGVDHQITPSQKES 157
                              9*****************9986655 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 0.75
                  DUF2536  22 eLEkkineqienNkallLe 40 
                              +LEk+i+   e+N  ++L+
  PHY93_17060|PHY93_17060 478 KLEKEIKS-TEENEEIVLK 495
                              79999976.5778877776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (668 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       962  (0.0536561); expected 358.6 (0.02)
Passed bias filter:                      604  (0.0336884); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.74u 0.28s 00:00:01.02 Elapsed: 00:00:00.48
# Mc/sec: 4166.78
//
Query:       PHY93_14460|PHY93_14460  [L=344]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.2e-19   68.3   0.0    2.7e-18   65.7   0.0    2.2  3  Lip_prot_lig_C  Bacterial lipoate protein ligase C-terminus
    3.7e-08   33.3   0.0    1.6e-07   31.3   0.0    2.0  1  BPL_LplA_LipB   Biotin/lipoate A/B protein ligase family


Domain annotation for each model (and alignments):
>> Lip_prot_lig_C  Bacterial lipoate protein ligase C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0      0.37   3.3e+03       3      24 ..     147     168 ..     146     172 .. 0.84
   2 ?   -1.0   0.0      0.21   1.8e+03      40      83 ..     164     210 ..     155     212 .. 0.68
   3 !   65.7   0.0     3e-22   2.7e-18       2      85 .]     258     341 ..     257     341 .. 0.92

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 0.37
                              EESEEEEEEETTEEEEEEEEEE CS
           Lip_prot_lig_C   3 efnvkkkkrfdwGtvevrldve 24 
                              +f+ +k++ f  Gt+ ++ d+ 
  PHY93_14460|PHY93_14460 147 AFKETKDRSFHHGTLLINADMT 168
                              588899999****999998875 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.21
                              SSHCHHHHHHHTT..SBSSHHHHHHHHHTSC.HHHHCCTHHHHHHHH CS
           Lip_prot_lig_C  40 pkdieeleekLig..vkyekeaieealekid.lseyfggieleelle 83 
                              + d+++l++ L+   +k+e + i+++ +++  l+e  ++i+ e l+e
  PHY93_14460|PHY93_14460 164 NADMTKLSHYLNPnkKKLESKGITSVRARVAnLQELNPEITHELLCE 210
                              66777777777643478888888888776664666666777777765 PP

  == domain 3  score: 65.7 bits;  conditional E-value: 3e-22
                              -EESEEEEEEETTEEEEEEEEEETTEEEEEEEEESBSSSSHCHHHHHHHTTSBSSHHHHHHHHHTSCHHHHCCTHHHHHHHHHH CS
           Lip_prot_lig_C   2 pefnvkkkkrfdwGtvevrldvekgiIkdikiyGDffgpkdieeleekLigvkyekeaieealekidlseyfggieleellell 85 
                              p+f++++++rf+wGt++v+ldv k iI++++i++D+++p+ ie l + L++++y+k+ +++a+ ++ ++  + +  l e+ e++
  PHY93_14460|PHY93_14460 258 PKFSHQLSERFTWGTMDVHLDVHKAIIEKAQIFSDSLHPEMIELLMASLENIPYTKDGLRAAIGRVCIELPMIEDYLREFEEWI 341
                              9**************************************************************999887776677777777765 PP

>> BPL_LplA_LipB  Biotin/lipoate A/B protein ligase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.3   0.0   1.7e-11   1.6e-07      13     131 .]      61     166 ..      54     166 .. 0.86

  Alignments for each domain:
  == domain 1  score: 31.3 bits;  conditional E-value: 1.7e-11
                              H..GCGGG--TT-EEEEEEESS-B-B--B-TTSEEEEEEEEESS...-CCGTHHHHHHHHHHHHHHH......HHTT-TTEEEETT CS
            BPL_LplA_LipB  13 keslnsselesgglvvvrrqtgGrnvwhspkgeltyslllspeqktfqnrvlelyvsllvlavlealgyrdskpgiegipvfikwp 98 
                              + + n ++ e +++v++rrq+gG +v+h+  g+ ++++l s  +++f+    + + + ++  ++++           ++ ++  ++
  PHY93_14460|PHY93_14460  61 WTECNTAKMEEDKIVLARRQSGGGAVFHD-LGNTNFTFLSS--KSSFD----KAVNNKIITNAINSF--------GLNSFAS--GR 129
                              45789999*********************.88999998888..43466....999999999999999........4556666..9* PP

                              TEEEE....TTEEEEEEEEEEEETTS-EEEEEEEEEE CS
            BPL_LplA_LipB  99 nDlyv....ngrKlaGiavtstrgktlhhivigvgvn 131
                              nDl+v    + +K++G+a + t+ +  hh++++++ +
  PHY93_14460|PHY93_14460 130 NDLLVeaseGEKKISGSAFKETKDRSFHHGTLLINAD 166
                              ********999********************998865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (344 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       478  (0.0266607); expected 358.6 (0.02)
Passed bias filter:                      363  (0.0202465); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.22s 00:00:00.78 Elapsed: 00:00:00.44
# Mc/sec: 2336.40
//
Query:       PHY93_14465|PHY93_14465  [L=564]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.9e-29  102.4   0.0    5.4e-29  101.5   0.0    1.5  1  ABC_tran      ABC transporter
    8.7e-09   35.4  14.2    1.2e-08   35.0  14.2    1.1  1  ABC_membrane  ABC transporter transmembrane region
    0.00017   21.1   0.0    0.00093   18.7   0.0    1.6  1  SMC_N         RecF/RecN/SMC N terminal domain
     0.0012   18.9   0.1     0.0036   17.4   0.1    1.8  1  MMR_HSR1      50S ribosome-binding GTPase
     0.0036   17.0   0.2      0.013   15.2   0.2    1.9  1  AAA_29        P-loop containing region of AAA domain
  ------ inclusion threshold ------
       0.01   14.8   0.0      0.017   14.1   0.0    1.2  1  MeaB          Methylmalonyl Co-A mutase-associated GTPase Mea
       0.11   12.5   0.0       0.23   11.4   0.0    1.5  1  RsgA_GTPase   RsgA GTPase
       0.12   12.9   0.1       0.49   10.9   0.0    2.1  2  AAA_18        AAA domain
       0.16   11.8   0.4       0.28   11.0   0.4    1.4  1  dNK           Deoxynucleoside kinase
       0.22   11.1   0.4       0.35   10.4   0.4    1.3  1  cobW          CobW/HypB/UreG, nucleotide-binding domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  101.5   0.0     3e-32   5.4e-29       2     136 ..     368     515 ..     367     516 .. 0.94

  Alignments for each domain:
  == domain 1  score: 101.5 bits;  conditional E-value: 3e-32
                              EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--.SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH......H CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......x RF
                 ABC_tran   2 knvslklkegekvaivGenGaGKStLlkllagllkp.teGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren......e 80 
                               n+++klk+ge+++i+G+ GaGKStLl++l+gl++    G+i+l gk+++  ++++lrk ig + q+p+lf ++ +r n       
  PHY93_14465|PHY93_14465 368 ANLNFKLKKGERLGITGPIGAGKSTLLSILTGLEREvSGGSITLFGKPFSAYSHNHLRKYIGHVGQKPFLFADS-IRVNvamnsdL 452
                              599*******************************997889**********************************.88899898887 PP

                              HHTCHHHHHHHSTTGG.......TTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              xxxxxxxxxxxxxxxx.......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  81 sdeeiekalsklglke.......lkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                               deei k+++  glke       + dt +++ + +LSgGqkqr+ laral++kpkll+lD++ 
  PHY93_14465|PHY93_14465 453 TDEEIWKFIDLAGLKEdiesfphKLDTQLGEWGINLSGGQKQRLTLARALARKPKLLFLDDCL 515
                              888899999999999999998888899999999***************************975 PP

>> ABC_membrane  ABC transporter transmembrane region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.0  14.2   6.6e-12   1.2e-08       6     270 ..      27     299 ..      22     303 .. 0.83

  Alignments for each domain:
  == domain 1  score: 35.0 bits;  conditional E-value: 6.6e-12
                              HHHHHHHHHHHHHHHHHHHHHHHHHSS..TCCHH....HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH....HHHHHHHHH CS
             ABC_membrane   6 llailagvlsplfplvlgrildtlldk..gdpet....ealnvysllllllglaqfilallqsyllnvtgerl....skrlrrklf 81 
                              ++ +l+ ++++l p  +g i+d++++       +    ++  ++++ l+ll++++ il  +  +++ +t +r+    +  lrr++ 
  PHY93_14465|PHY93_14465  27 FSVLLTNLMQVLAPKNIGWIVDFMTKRpvP---KiltgANDHQTFVKLFLLLAISRILINVFRFMWRITLGRQthyaCAMLRREVW 109
                              677788888888888888888888874440...25555444455555555555555555555555555555550111455777777 PP

                              HHHHCSTHHHHHH.SCHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHHHHHHHHHHHHHHHHHHHH CS
             ABC_membrane  82 kkilrqpmsffdt.nsvGellsrltndvsklrdglgeklglffqslltfvgglivmfylgwkltlvllailpliilvsaviakilk 166
                              +++     s  d+  + G l++  ++d+++ r ++g++l+ ++  l++ + +++ m  +   ++l+ +++l+ + ++   ++k+  
  PHY93_14465|PHY93_14465 110 QHVRFFKKSDLDRkFTKGVLMNASASDTNSARFVFGFTLVAITDVLFLGIFTFLTMAAIHIPMALLSFVVLLFVPIFVRKLSKREV 195
                              7777777777777999********************************************************************** PP

                              HHHHHHHHHHHHHHHHHHHHHHTHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT CS
             ABC_membrane 167 klkkkeqkavakassvaeEslsgirtVkafgreeyflekfekaleeakkagikkaianglligitqllgllsyalalwfGttlvis 252
                              +  +  q+++++++ +  +++s i+  ++    ++ +++     e+++ + +k ++++ l i+++ +++ +sy++ +++G+++  +
  PHY93_14465|PHY93_14465 196 EQYRMIQDTLSNFNDLSSQAVSTIKLQRLTQTGPFWERRLMMIAEKHRAQKLKGINLSLLYIPVMGVASIVSYVVLFVMGISFTFN 281
                              ************************************************************************************** PP

                              TSSTHHHHHHHHHHHHHH CS
             ABC_membrane 253 gelsvgdlvvflslfail 270
                              g+++vg+++ +  l+ +l
  PHY93_14465|PHY93_14465 282 GKMTVGEFISMQGLIFLL 299
                              *******99998877665 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   0.0   5.2e-07   0.00093     135     212 ..     375     559 ..     322     564 .] 0.69

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 5.2e-07
                              T..................................................................................... CS
                              x..................................................................................... RF
                    SMC_N 135 e..................................................................................... 135
                              +                                                                                     
  PHY93_14465|PHY93_14465 375 Kkgerlgitgpigagkstllsiltglerevsggsitlfgkpfsayshnhlrkyighvgqkpflfadsirvnvamnsdltdeeiwkf 460
                              15555555555555555555555555555555555555555555555555556666666666666666666666666666666666 PP

                              ..........................CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTTSEEEEE CS
                              ..........................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 136 ..........................lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkeksknaQfivi 195
                                                        +LSgG+k+ + la  +A    ++  l +lD+  +a D    +++ + l+++ k++ ++ +
  PHY93_14465|PHY93_14465 461 idlaglkediesfphkldtqlgewgiNLSGGQKQRLTLARALA----RKPKLLFLDDCLSAVDTITEERILKNLDQHLKDVTLVWV 542
                              666666666888888888889999999******9777766655....44457789******************************* PP

                              -SSHHHCCC-SCEEEEE CS
                              xxxxxxxxxxxxxxxxx RF
                    SMC_N 196 slreemlekadklvgvt 212
                              ++r+ +l+ +++++ ++
  PHY93_14465|PHY93_14465 543 AHRKSTLKYCNQTFELK 559
                              *********99988765 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.1     2e-06    0.0036       2      84 ..     380     519 ..     379     553 .. 0.63

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 2e-06
                              EEEEESTTSSHHHHHHHHHT..........................S.TEEESSSTTSSSSEEEEEEE.....ETTEEEEEEECGG CS
                 MMR_HSR1   2 vaivGrpNvGKStLinaltg..........................e.kaivsdkpgtTrdinegrvk.....lkgkeielvDtpG 55 
                               +i G   +GKStL++ ltg                          +   +v++kp+   d ++ +v+     ++++ ++++D++G
  PHY93_14465|PHY93_14465 380 LGITGPIGAGKSTLLSILTGlerevsggsitlfgkpfsayshnhlrKyIGHVGQKPFLFADSIRVNVAmnsdlTDEEIWKFIDLAG 465
                              689****************766666666666666666666666553356789999998888888888855554334669******* PP

                              C.....................SS.HHHHHHHHHHHHHHHHC...TSEEEEEEE CS
                 MMR_HSR1  56 l.....................ie.gaseekglgkaflalee...adlillvvd 84 
                              l                     ++ g++++  l++a++++ +    d  l  vd
  PHY93_14465|PHY93_14465 466 LkediesfphkldtqlgewginLSgGQKQRLTLARALARKPKllfLDDCLSAVD 519
                              877777777666666555553322344444467777766555333355555555 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.2   7.3e-06     0.013      16      39 ..     371     394 ..     366     401 .. 0.76

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 7.3e-06
                   AAA_29  16 tieidlkgatlltGpsGsGKSTll 39 
                               ++++  +   +tGp+G+GKSTll
  PHY93_14465|PHY93_14465 371 NFKLKKGERLGITGPIGAGKSTLL 394
                              56666444788************9 PP

>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   9.3e-06     0.017      14      50 ..     362     398 ..     351     409 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 9.3e-06
                              HHHHHHHHHGGG-S-SEEEEEEE-TTSSHHHHHHHHH CS
                     MeaB  14 eakellerllakaGraqvvGltGvPGaGkstlvealg 50 
                              e++ l+ +l  k  + +++G+tG  GaGkstl++ l+
  PHY93_14465|PHY93_14465 362 ESTPLFANLNFKLKKGERLGITGPIGAGKSTLLSILT 398
                              788999999999999******************9886 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00013      0.23      88     122 ..     365     401 ..     308     411 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00013
                              TTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCT.T CS
              RsgA_GTPase  88 egleelkellkd.ktsvlvGqSGvGKStLinallp.e 122
                                +++l+ +lk+ +   + G+ G+GKStL+  l++ e
  PHY93_14465|PHY93_14465 365 PLFANLNFKLKKgERLGITGPIGAGKSTLLSILTGlE 401
                              44678999999889999**************998833 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0       5.2   9.3e+03      10      24 ..     282     295 ..     282     337 .. 0.63
   2 ?   10.9   0.0   0.00027      0.49       2      20 ..     381     399 ..     380     453 .. 0.82

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 5.2
                   AAA_18  10 GKttlakeLskrlgf 24 
                              GK+t+++ +s  + +
  PHY93_14465|PHY93_14465 282 GKMTVGEFISMQG-L 295
                              8888888886553.3 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.00027
                   AAA_18   2 lltGtpGvGKttlakeLsk 20 
                              ++tG++G+GK+tl   L  
  PHY93_14465|PHY93_14465 381 GITGPIGAGKSTLLSILTG 399
                              59***********999944 PP

>> dNK  Deoxynucleoside kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.4   0.00016      0.28       3      19 ..     382     398 ..     380     412 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00016
                              EEESTTSSHHHHHHHHH CS
                      dNK   3 veGnIgaGKstlvklLs 19 
                              + G+IgaGKstl+++L+
  PHY93_14465|PHY93_14465 382 ITGPIGAGKSTLLSILT 398
                              89************997 PP

>> cobW  CobW/HypB/UreG, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.4    0.0002      0.35       3      21 ..     380     398 ..     378     410 .. 0.83

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.0002
                              EEEEESTTCCHHHHHHHHH CS
                     cobW   3 tvltGflGsGKTtLlnhll 21 
                              +++tG++G+GK+tLl+ l+
  PHY93_14465|PHY93_14465 380 LGITGPIGAGKSTLLSILT 398
                              579************9776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (564 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       773  (0.0431145); expected 358.6 (0.02)
Passed bias filter:                      425  (0.0237046); expected 358.6 (0.02)
Passed Vit filter:                        65  (0.00362541); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.70u 0.26s 00:00:00.96 Elapsed: 00:00:00.47
# Mc/sec: 3572.91
//
Query:       PHY93_14470|PHY93_14470  [L=622]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.2e-36  126.8  11.8    1.7e-36  126.3  11.8    1.2  1  ABC_membrane  ABC transporter transmembrane region
    7.4e-32  110.7   0.1    1.5e-31  109.8   0.1    1.5  1  ABC_tran      ABC transporter
    2.5e-05   23.8   0.2    0.00068   19.1   0.8    2.0  1  SMC_N         RecF/RecN/SMC N terminal domain
  ------ inclusion threshold ------
      0.048   13.5   0.2        1.6    8.5   0.0    2.3  2  AAA_21        AAA domain, putative AbiEii toxin, Type IV TA s
      0.055   13.6   0.1       0.12   12.4   0.1    1.5  1  DUF87         Helicase HerA, central domain
       0.12   12.3   0.0       0.23   11.4   0.0    1.4  1  RsgA_GTPase   RsgA GTPase
       0.28   10.9   0.6        3.3    7.5   0.0    2.4  3  DEAD          DEAD/DEAH box helicase


Domain annotation for each model (and alignments):
>> ABC_membrane  ABC transporter transmembrane region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  126.3  11.8   6.8e-40   1.7e-36       2     274 .]      69     339 ..      67     339 .. 0.97

  Alignments for each domain:
  == domain 1  score: 126.3 bits;  conditional E-value: 6.8e-40
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCS CS
             ABC_membrane   2 iliillailagvlsplfplvlgrildtlldkgdpetealnvysllllllglaqfilallqsyllnvtgerlskrlrrklfkkilrq 87 
                              i ++ l++++ +l++  + ++g +l++ l  ++ ++  ++ y+l +++l ++++ + +    +l   ++++++ +r  lf+k+ ++
  PHY93_14470|PHY93_14470  69 IGALALIFVSSFLAIYSAKLMGDLLEKGLIAKNMNK--SINYALGIVALEIGSIYFIWHGRKILADSASKVIFIVREHLFRKLQEL 152
                              456788999999999999999999999999999999..************************************************ PP

                              THHHHHHSCHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
             ABC_membrane  88 pmsffdtnsvGellsrltndvsklrdglgeklglffqslltfvgglivmfylgwkltlvllailpliilvsaviakilkklkkkeq 173
                              p++++d+++ G++++r+t dv+ ++++++++lg ++ + ++ + +++ m++++ +l +++++ ++  i++++    +lk+ +++ +
  PHY93_14470|PHY93_14470 153 PLQYYDRQPQGRIVTRITHDVEGIEEFFTSSLGNLVSASMMTILAVLAMIWSNFRLGMIMTVAILPSIFLMIKTKDFLKNSNRRVS 238
                              ************************************************************************************** PP

                              HHHHHHHHHHHHHHHTHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSTHHH CS
             ABC_membrane 174 kavakassvaeEslsgirtVkafgreeyflekfekaleeakkagikkaianglligitqllgllsyalalwfGttlvisgelsvgd 259
                              k  + +++ + E l+g+ ++++fg e+   +k+++ +++++ a+++ +++ +++++   +++++  +   w+G++ vi+g  svg 
  PHY93_14470|PHY93_14470 239 KFSSAINAKLSEYLNGMDVIRSFGLEKWTMDKYDQTVDDYLYAQLRGNFLFAWSMPLVSFFATIPLIGLVWYGGVGVINGVFSVGL 324
                              ************************************************************************************** PP

                              HHHHHHHHHHHHHHH CS
             ABC_membrane 260 lvvflslfailfgal 274
                              ++ f+ +   +f+++
  PHY93_14470|PHY93_14470 325 FISFIRYYERFFNPM 339
                              *****9999888876 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  109.8   0.1   5.7e-35   1.5e-31       1     137 []     403     551 ..     403     551 .. 0.93

  Alignments for each domain:
  == domain 1  score: 109.8 bits;  conditional E-value: 5.7e-35
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH......H CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......x RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren......e 80 
                              lk++++++k+gek+++vG++G+GKS+ ++ll++l++ ++Gei++d+ ++++ +++ lr +ig++ q++ +f+++ +ren       
  PHY93_14470|PHY93_14470 403 LKDLNFHIKAGEKIGLVGKTGCGKSSTVSLLSRLYEFQMGEIKIDDIPIRNFDRHALRDQIGFVAQDAIIFKGS-LRENlscddkL 487
                              799**********************************************************************9.9******9987 PP

                              HHTCHHHHHHHSTTGG.......TTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              xxxxxxxxxxxxxxxx.......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  81 sdeeiekalsklglke.......lkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                              sd+e+ +a+++ gl++         d  v +s+++LS Gq+q v+l r+llk+p++l+lDE+ta
  PHY93_14470|PHY93_14470 488 SDQELIDAAKTTGLVKalskegfNLDMSVLESGTNLSVGQRQLVSLTRVLLKNPSILILDEATA 551
                              788888888888888888877775566666889*****************************96 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.8   2.7e-07   0.00068     135     209 ..     496     591 ..     406     599 .. 0.76

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 2.7e-07
                              T.........................CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTTSEEEEE CS
                              x.........................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 135 e.........................lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkeksknaQfivi 195
                                                        +LS G+++Lv+l  ++     k  ++ +lDe  a++D  + +++ e + +  +n   ++i
  PHY93_14470|PHY93_14470 496 AkttglvkalskegfnldmsvlesgtNLSVGQRQLVSLTRVL----LKNPSILILDEATANIDPFYEEIIHEAVMKMMTNRTCLII 577
                              044444444444444444888888889**********99884....6777899********************************* PP

                              -SSHHHCCC-SCEE CS
                              xxxxxxxxxxxxxx RF
                    SMC_N 196 slreemlekadklv 209
                              ++r e+l+++d+++
  PHY93_14470|PHY93_14470 578 AHRLETLKQCDRVF 591
                              **********9987 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.5   0.0   0.00062       1.6       3      83 ..     417     484 ..     416     517 .. 0.77
   2 ?    2.8   0.0     0.034        87     236     278 ..     522     561 ..     484     585 .. 0.74

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.00062
                   AAA_21   3 vliGpNgsGKSnLLdaldllarldrdvegltdelsggggirkipslldlydpeipfefeieeflsqgvryryglrlersqv 83 
                              +l+G+ g+GKS+   +l+ l  +               g++ki+  + ++ ++ + + +i ++ ++ + ++++lr + s  
  PHY93_14470|PHY93_14470 417 GLVGKTGCGKSSTVSLLSRLYEF-------------QMGEIKIDDIPIRNFDRHALRDQIGFVAQDAIIFKGSLRENLSCD 484
                              69******************765.............457777788888888888888888877778788877777776666 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.034
                   AAA_21 236 elSdGtkrllalltallralkkgsllliDEpEngLHPkllrrl 278
                              +lS G+++l  l   ll  +   s+l++DE  ++++P   + +
  PHY93_14470|PHY93_14470 522 NLSVGQRQLVSLTRVLLKNP---SILILDEATANIDPFYEEII 561
                              46999999977777777777...*******9999999544443 PP

>> DUF87  Helicase HerA, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   4.8e-05      0.12      25      46 ..     415     435 ..     407     449 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 4.8e-05
                    DUF87  25 HlAilgsTGsGKSntvavLlee 46 
                               ++ +g+TG GKS tv++L  +
  PHY93_14470|PHY93_14470 415 KIGLVGKTGCGKSSTVSLLS-R 435
                              5799************9875.4 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   8.9e-05      0.23      88     131 ..     401     445 ..     363     450 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 8.9e-05
                              TTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT-----S--- CS
              RsgA_GTPase  88 egleelkellkd.ktsvlvGqSGvGKStLinallpelelktgevs 131
                                l++l+ ++k  + + lvG++G GKS+ +  l    e ++ge++
  PHY93_14470|PHY93_14470 401 WILKDLNFHIKAgEKIGLVGKTGCGKSSTVSLLSRLYEFQMGEIK 445
                              35678999999878999**************99999899999886 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       1.8   4.6e+03      32      72 ..     195     235 ..     191     256 .. 0.69
   2 ?    0.6   0.0      0.16     4e+02      12      33 ..     411     432 ..     405     446 .. 0.81
   3 ?    7.5   0.0    0.0013       3.3      87     149 ..     510     568 ..     487     579 .. 0.71

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 1.8
                              HHHHHHHHHHSTTSTS-EEEEEESSHHHHHHHHHHHHHHTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  32 lipvlqivyetkgktgpkalivePtreLaeqtlnnlkkfkk 72 
                              +++vl+ ++++ +    +++ + P+  L+ +t + lk++  
  PHY93_14470|PHY93_14470 195 ILAVLAMIWSNFRLGMIMTVAILPSIFLMIKTKDFLKNSNR 235
                              56666666766777778888888888888888777776655 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.16
                              HTTCEEEEEESTTSSHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  12 lgggdvlvaaeTGsGKTlafli 33 
                                g+++ + ++TG GK+   ++
  PHY93_14470|PHY93_14470 411 KAGEKIGLVGKTGCGKSSTVSL 432
                              5678888999******988665 PP

  == domain 3  score: 7.5 bits;  conditional E-value: 0.0013
                              HHHHHHHHHTTCSEEEEEHHHHHHHHHCTSSHCTTEEEEEEETHHHHHHTTTHHHHHHHHHHS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  87 ardqlskldngvdivvgtpgrlddllstgklnlsqvrflVlDEadrlldqgfsdfinrilnql 149
                               + ++s+l++g+++ vg   +l++l+   ++ l++ ++l+lDEa    d  +++ i++ + ++
  PHY93_14470|PHY93_14470 510 FNLDMSVLESGTNLSVGQR-QLVSLT---RVLLKNPSILILDEATANIDPFYEEIIHEAVMKM 568
                              4556777777777777776.344433...345****************999999888866655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (622 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       812  (0.0452898); expected 358.6 (0.02)
Passed bias filter:                      533  (0.0297284); expected 358.6 (0.02)
Passed Vit filter:                        59  (0.00329076); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.73u 0.30s 00:00:01.03 Elapsed: 00:00:00.49
# Mc/sec: 3838.25
//
Query:       PHY93_14475|PHY93_14475  [L=377]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.7e-64  217.7   0.0    3.5e-64  217.3   0.0    1.1  1  DNA_methylase    C-5 cytosine-specific DNA methylase
     0.0021   17.5   0.0     0.0041   16.5   0.0    1.4  1  PrmA             Ribosomal protein L11 methyltransferase (Prm
      0.006   16.2   0.1      0.014   14.9   0.1    1.6  1  Methyltransf_15  RNA cap guanine-N2 methyltransferase
  ------ inclusion threshold ------
      0.011   15.4   0.0      0.026   14.2   0.0    1.5  1  Cons_hypoth95    Conserved hypothetical protein 95
      0.025   14.4   0.1      0.059   13.2   0.1    1.6  1  Methyltransf_31  Methyltransferase domain


Domain annotation for each model (and alignments):
>> DNA_methylase  C-5 cytosine-specific DNA methylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  217.3   0.0   9.7e-68   3.5e-64       2     333 ..       9     340 ..       8     342 .. 0.76

  Alignments for each domain:
  == domain 1  score: 217.3 bits;  conditional E-value: 9.7e-68
                              EEEEES-TT-HHHHHHHHTT-EEEEEEE--TTTHHHHHHH-...-SEEEES-TTTS-...GS--...-SEEEE---GGGTECTSEE CS
            DNA_methylase   2 kfidLfaGiGGfrlgleaagfecvaaseidkkaaktYeanfk..kvsigDitkidkk...klpe.d.iDlLvgGfPCqpfSvaGkq 80 
                              +fid f+G+GG++ gle ag++c + +++dk+a++t++an++  ++++g + ++++k   +l + + +  +vgG+PCq+fS  G  
  PHY93_14475|PHY93_14475   9 NFIDVFSGAGGLSCGLELAGMKCLLGIDMDKNAIETFKANHHyaNTHCGSVVDLTEKklkELINnQpVHAVVGGPPCQGFSTVG-I 93 
                              89******************************************99999999999987775555458*****************.8 PP

                              --TTSGGGHHHHHHHHHHHHH--SEEEEEEEGGGGGGCCSHHHHHHHHHHHHHTEEEEEEEEEGGGTT-SB--EEEEEEEEEGGG- CS
            DNA_methylase  81 kgfedtrgtLffeiiriikekkPkvfllENVkgLlkhdkgktlkvilekleelGYevsykllnasdyGvpQnReRvfivgirkdle 166
                               + +d r++Lf e+ir++k ++P ++++ENV gL+ ++++ktlk i + ++++GY+++++++ a+ yGvp +R+R +i+g r +++
  PHY93_14475|PHY93_14475  94 GDPNDLRNSLFKEFIRLVKITNPYYVIIENVTGLIAKKNEKTLKAIFKLFAKMGYTLDVQVMSAEFYGVPERRRRTIIIGSRLNNQ 179
                              8999*****************************************************************************99887 PP

                              ---------SS---GGG.....TSGGGTTS-EE...BTTTB--GGGSSSTT-EE--.......S---H....HHTS--........ CS
            DNA_methylase 167 lnvlvkvkefrfpkkkdleasktlrdlleekse...ldeektalsdklvekeekikkttkaseegypk....elsrnr........ 237
                              + ++++++e+ ++         +l++l+  + +   +d +  +++ kl  + +   +  + ++  y+     +             
  PHY93_14475|PHY93_14475 180 IVFPKPITENIVTVGV------ALKNLKAPNGKiynHDLQSAEIKSKLDHDRINLIP--EGCGIRYEAdekaY----Lpkklqlgv 253
                              6666666666666664......44444443222311333333344333333333333..33333333232332....023333322 PP

                              .B--TTS...-B----S-STT--B-TTS---EEEETTEEE--T.TTGGG--B-BHHHHHHHHT--TT-----SBHHHHHHHHTS-- CS
            DNA_methylase 238 .idkveelkglsatrrksgrgeklekelaeagklqknkerfkpviekkriRrLtprEaarlqGfPddfefgskksaaykqiGnsVp 322
                                ++++e +  + ++++ +r     k+   +++++k ++      +++++R Lt+rEaa lq+fP+df+f +  sa+ +qiGn+Vp
  PHY93_14475|PHY93_14475 254 dWKNIRENRLRQTKYQRLDR-----KKPSPTIMTHKHNY-----FHPTENRYLTQREAAALQSFPNDFQFLGPLSAQWRQIGNAVP 329
                              23333333333333333332.....34444444444444.....799*************************************** PP

                              HHHHHHHHHHH CS
            DNA_methylase 323 vpvieaiakei 333
                              +++  a++k+i
  PHY93_14475|PHY93_14475 330 PKLGLALGKAI 340
                              ****9999998 PP

>> PrmA  Ribosomal protein L11 methyltransferase (PrmA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   1.2e-06    0.0041     162     223 ..       7      68 ..       2      81 .. 0.79

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 1.2e-06
                     PrmA 162 geevlDvGtGSGiLaiaaakLgakkvvavDiDevAvkvakeNaelNkveaklevalseellk 223
                                +++Dv  G+G L+ +  + g k  +++D+D+ A++  k+N ++ +++    v l+e+ lk
  PHY93_14475|PHY93_14475   7 PLNFIDVFSGAGGLSCGLELAGMKCLLGIDMDKNAIETFKANHHYANTHCGSVVDLTEKKLK 68 
                              55899***************************************999988665766555443 PP

>> Methyltransf_15  RNA cap guanine-N2 methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.1     4e-06     0.014       4      84 ..      10      88 ..       8     109 .. 0.72

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 4e-06
          Methyltransf_15  4 ilDlfsGaGGnviqfalv.fekviaieinleklacaqhNaevYgvsdkitlvlgdvfellaklklekikvdlvflSpPwGGp 84
                              +D+fsGaGG +  + l   +   +i+++++ ++  + N +    + +   v+   ++ l++l  ++  v  v+  pP+ G 
  PHY93_14475|PHY93_14475 10 FIDVFSGAGGLSCGLELAgMKCLLGIDMDKNAIETFKANHHYA--NTHCGSVVDLTEKKLKELINNQ-PVHAVVGGPPCQGF 88
                             69**************99556689**********999997643..3333333333333444433333.36677777777665 PP

>> Cons_hypoth95  Conserved hypothetical protein 95
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   7.2e-06     0.026      44     121 ..       9      83 ..       3      90 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 7.2e-06
                              EEEETT-TTSHHHHHHHHTT-SEEEEEES-HHHHHHHHHHHCCCT--TTTEEEEES-HHHHCTS--SS-EEEEEEE-- CS
            Cons_hypoth95  44 rvLDlfaGsGalglEAlSRgakkavlvekdkeavkilkenleelkleeetaelkedaleallklakkkeefdivflDP 121
                              +++D+f+G G+l++     g+k  + +++dk+a+++ k+n +  +++  +  +++  +++l++l ++ +++  v   P
  PHY93_14475|PHY93_14475   9 NFIDVFSGAGGLSCGLELAGMKCLLGIDMDKNAIETFKANHHYANTH--CGSVVDLTEKKLKELINN-QPVHAVVGGP 83 
                              69********9987777779********************9877744..566666666666666433.3445555555 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.1   1.6e-05     0.059       2      51 ..       5      49 ..       4      72 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.6e-05
          Methyltransf_31  2 dkglrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielArenaqkl 51
                             ++ l+++D+ +G+G l+  l  ++g ++ + GiD++++aie  ++n   +
  PHY93_14475|PHY93_14475  5 KSPLNFIDVFSGAGGLSCGLE-LAG-MKCLLGIDMDKNAIETFKAN---H 49
                             78899***********99998.555.4568***********98885...3 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (377 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       569  (0.0317363); expected 358.6 (0.02)
Passed bias filter:                      488  (0.0272185); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.57u 0.27s 00:00:00.84 Elapsed: 00:00:00.45
# Mc/sec: 2539.32
//
Query:       PHY93_14480|PHY93_14480  [L=234]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.081   13.4   1.9       0.18   12.3   0.7    2.0  2  DUF2535   Protein of unknown function (DUF2535)


Domain annotation for each model (and alignments):
>> DUF2535  Protein of unknown function (DUF2535)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.0      0.14   2.5e+03      53      76 ..      77      99 ..      67     105 .. 0.71
   2 ?   12.3   0.7     1e-05      0.18      27      69 ..     159     202 ..     154     214 .. 0.84

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 0.14
                  DUF2535 53 kvYsfreylkrvlkWkdyeqlfke 76
                             + + f+e+lk +   +d e+l+++
  PHY93_14480|PHY93_14480 77 REFQFQEFLKEQP-NRDLEKLYQK 99
                             5678999999764.3667777765 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 1e-05
                  DUF2535  27 depyffmvklrLeafikkvykskkkkkvYsfre.ylkrvlkWkd 69 
                              +++++f+ +++L++++ +v+++ k++k Ysf   ++ ++  W++
  PHY93_14480|PHY93_14480 159 HKQNVFIFSHHLNLWMPHVHQHVKREKDYSFTAaKISKNWAWNK 202
                              56789**************************7526777777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (234 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       582  (0.0324614); expected 358.6 (0.02)
Passed bias filter:                      364  (0.0203023); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.45
# Mc/sec: 1555.61
//
Query:       PHY93_14485|PHY93_14485  [L=403]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.3e-51  174.1   0.0      4e-51  173.9   0.0    1.0  1  tRNA_Me_trans  tRNA methyl transferase
  ------ inclusion threshold ------
      0.095   12.3   0.0       0.14   11.7   0.0    1.4  1  ThiI           Thiamine biosynthesis protein (ThiI)
       0.11   12.0   0.0       0.54    9.7   0.0    2.0  2  QueC           Queuosine biosynthesis protein QueC


Domain annotation for each model (and alignments):
>> tRNA_Me_trans  tRNA methyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  173.9   0.0   6.7e-55     4e-51       2     356 .]       9     368 ..       8     368 .. 0.88

  Alignments for each domain:
  == domain 1  score: 173.9 bits;  conditional E-value: 6.7e-55
            tRNA_Me_trans   2 kvvvalSgGVDSsvaaallkeqgyevigvflklweeedeeg.keccaeedlkdaervaeklgiplevvdfekeykekvfeefleey 86 
                              +v++a+ gG  S+vaa+llk+qgy +ig+ l+l e  ++ g  +  + +dl+++++++  l+ip++ v+ ++ + ++v+++++   
  PHY93_14485|PHY93_14485   9 TVLIAMTGGLESTVAAYLLKKQGYRCIGIGLQLFEAGEDPGpFADVMVADLNKVKSICTYLDIPFYAVNASDLFADTVLDPVVGRI 94 
                              79*********************************96666656677889************************************* PP

            tRNA_Me_trans  87 eeGrTPnPdvlCNkeiKfgallekakeelgadalatGHYarvsleeeknevellrakdkkkDQsyfLsqlskealekllfPlgelt 172
                               +G+T  P v  N  + ++ lleka +  +++ +atGHYa+v ++++++++ell a d + DQsy Ls+l +++le+l++Pl e+ 
  PHY93_14485|PHY93_14485  95 LSGQTFEPLVFLN-LVLMEVLLEKAAK-FNTNLIATGHYAKVLKNQKTGSFELLVANDLEHDQSYALSRLGQKHLEHLMLPLSEIR 178
                              ************9.5779999***999.9********************************************************* PP

            tRNA_Me_trans 173 KeevrkiAkeaglavaekkdSqgiCfigkrkfkdflkkyleek...eGkiieietgevlGeheGllsyTiGqrkGlkiag.....a 250
                              K+ev ki + ++++  +++  +    + + ++ ++++ + ++    +G+i +  +++ + eh G++ + iGq+   ++++      
  PHY93_14485|PHY93_14485 179 KKEVEKIGELIKVEYLQRPKNNVHHIMRDPRMITLVEARSPKDlrrSGTIFDYREDNSICEHIGIHRFYIGQK---NLPSktefpI 261
                              **************999998766566667779999999998866669**************************...6665334544 PP

            tRNA_Me_trans 251 eeplyVvekdakkntvlvgkgedeealaskklrvkelnwlaeelkekealelevkvrhkqelvkakvelkedetvevkldekvrav 336
                              +    V+++ + k+++++      ++l+ ++  v +++  a +l  +  l++ vk+ +  +++++++  k+++t  v ++++  ++
  PHY93_14485|PHY93_14485 262 DPLKEVISIIPFKGNIFIDY---PDRLKYSHAHVCRFSPAA-NLDMTLPLSVYVKMSSGGPKISCRLYFKNNDTCLVDFESERPGI 343
                              45566899999999999988...666666666666666666.444445789*******************************9997 PP

            tRNA_Me_trans 337 .tpGQaavlYkgd....evLGggii 356
                                 GQ+ v+Y+      +v+G++i+
  PHY93_14485|PHY93_14485 344 lVSGQFFVFYNRAqdkgKVIGSAIV 368
                              469*******854446799999986 PP

>> ThiI  Thiamine biosynthesis protein (ThiI)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   2.4e-05      0.14       3      35 ..       7      39 ..       5     131 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 2.4e-05
                     ThiI  3 qgkvlaLlSgGiDSpVaaylllkRGcrvvlvhl 35
                             + +vl  + gG++S Vaayll k G r   + l
  PHY93_14485|PHY93_14485  7 KQTVLIAMTGGLESTVAAYLLKKQGYRCIGIGL 39
                             6789999******************99776655 PP

>> QueC  Queuosine biosynthesis protein QueC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   0.0     9e-05      0.54       2      32 ..      10      40 ..       9     133 .. 0.87
   2 ?   -0.3   0.0      0.11   6.5e+02     144     176 ..     160     192 ..     151     198 .. 0.80

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 9e-05
                             EEEE--SSHHHHHHHHHHHHH-SEEEEEEEE CS
                     QueC  2 avvllSGGlDSttvlalakkegkevealtfd 32
                             +++ + GGl St++++l kk+g++++ ++++
  PHY93_14485|PHY93_14485 10 VLIAMTGGLESTVAAYLLKKQGYRCIGIGLQ 40
                             577899******************9988765 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.11
                              HHHHHTS--EEE-TTTT--HHHHHHHHHHTTHH CS
                     QueC 144 lnlgedkkieieaPlidlsKaeivklgkelgvp 176
                               +lg+++  +++ Pl ++ K+e+ k+g+ ++v+
  PHY93_14485|PHY93_14485 160 SRLGQKHLEHLMLPLSEIRKKEVEKIGELIKVE 192
                              5567766678899*********99999877765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (403 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       437  (0.0243739); expected 358.6 (0.02)
Passed bias filter:                      394  (0.0219756); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.60u 0.23s 00:00:00.83 Elapsed: 00:00:00.45
# Mc/sec: 2662.52
//
Query:       PHY93_14490|PHY93_14490  [L=393]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.6e-25   89.3   0.0    6.1e-25   88.1   0.0    1.6  2  Peptidase_M28  Peptidase family M28
    2.7e-05   24.0   0.0    4.5e-05   23.2   0.0    1.3  1  Peptidase_M20  Peptidase family M20/M25/M40
  ------ inclusion threshold ------
       0.12   12.5   0.8         12    6.1   0.5    2.8  3  CRAL_TRIO_2    Divergent CRAL/TRIO domain
       0.16   10.9   0.0       0.23   10.4   0.0    1.3  1  Peptidase_M42  M42 glutamyl aminopeptidase


Domain annotation for each model (and alignments):
>> Peptidase_M28  Peptidase family M28
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0      0.55   2.5e+03      98     122 ..      66      95 ..      19     131 .. 0.61
   2 !   88.1   0.0   1.4e-28   6.1e-25       8     193 ..     169     379 ..     162     384 .. 0.87

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.55
                              CS-SSSS--EEE.....HHHHHHCHHHHHH CS
            Peptidase_M28  98 Dmvgsggkellf.....esgdkssseleke 122
                              D v+sg+++ ++     +   +  +e  k 
  PHY93_14490|PHY93_14490  66 DFVASGRPTRFVgspghQKALDYLEEKLKS 95 
                              555566666665444333333333333334 PP

  == domain 2  score: 88.1 bits;  conditional E-value: 1.4e-28
                              TTCE.SEEEEEEEE--B-TTT......TCC.T---TTTTHHHHHHHHHHHHHCHHGGCCSSEEEEEEEESSCSGSSHHHHHHHH.. CS
            Peptidase_M28   8 gkat.devlllgAHyDsvgvg......rgp.ifvGAdDnAsgvaalLelarvlaasgsrpkrgvrflffdaEEagllGSkafak.. 83 
                              g+++ +ev++lgA yD++  +      ++   + GAd n++gvaalL ++++l +   ++ ++vr++ffd EE g+ GS+ +++  
  PHY93_14490|PHY93_14490 169 GTTKpSEVIILGANYDTLLNDpktmmvDTVsAMPGADNNGTGVAALLSMIEILDK--LDLPKTVRIVFFDFEELGFSGSHDYVEkl 252
                              4444489************987777653337889********************8..689***********************876 PP

                              .HHCCCTTEEEEEEECS-SSSS--EEE...............HHHHHHCHHHHHHHHHHHHHTT-TTSCCEEEEESSTT-STTHHH CS
            Peptidase_M28  84 .akpelkkiaavlnlDmvgsggkellf...............esgdkssselekelkalakpvgraaaedpfdersgrgrsDhspf 153
                               a p ++ki  ++nl m+g+  k  +                e g +++ +l+  +++  k + +++  d+ +e++g   s h++f
  PHY93_14490|PHY93_14490 253 tAIPGSQKITGYINLVMLGNDSKREDKekklnnmkvylrapgEKGAEDDLKLTTLITNNGKSLYKQI--DFKPEANGMNSSSHISF 336
                              55569******************999999*******9999988888888889999998888888876..9999999********** PP

                              HTTT--EEEE...CTSSS-TTTTSTTSSGGGB-HHHHHHHHHH CS
            Peptidase_M28 154 lkagvpvldl...aetgfpevyHtprDtldnidkdtlariael 193
                               +ag+p++ +    e +f++++Htp+D ++ ++ +t  +  + 
  PHY93_14490|PHY93_14490 337 WEAGIPAICMsqnWESDFNPRFHTPNDFVETLNMNTYINAFRY 379
                              **********88888999***************9998777665 PP

>> Peptidase_M20  Peptidase family M20/M25/M40
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.2   0.0     1e-08   4.5e-05      33     202 ..     202     378 ..     178     384 .. 0.78

  Alignments for each domain:
  == domain 1  score: 23.2 bits;  conditional E-value: 1e-08
                              TTTTTTHHHHHHHHHHHHHHHHHTTT-SSEEEEEEESTTSSTTTHHHHHHH..HHH.TTTCESEEEEEEEESSSBTCHSTETEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M20  33 rGaddmkggvlaalealralkdegikpkgtivllfqpdEEggrgGakalle..gle.erekvdavfelhieepgileagklaigvv 115
                              +Gad + +gv+a+l  ++ l++    +++t++++f+  EE g +G+  ++e   +    +k+ +++ l+  + + +  + +  ++ 
  PHY93_14490|PHY93_14490 202 PGADNNGTGVAALLSMIEILDKLD--LPKTVRIVFFDFEELGFSGSHDYVEklTAIpGSQKITGYINLVMLGNDSKR-EDKEKKLN 284
                              6999999************99997..699***********988***999996633334889***9999877555555.77788999 PP

                              EEEEEEEEEESHEEECCHHHHHHHHHHHHHHH.TSCEEEEEES.SSBHTHHHH.TTTEEE.EEEE.SSG..GCTTSTTTEEEHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxx.xxxxxxxxx.xxxxxx.xxxx.xxx..xxxxxxxxxxxxxxx RF
            Peptidase_M20 116 kvevelleggapvtlndsplvkalaeaaeelf.gekvelivsg.pggtdarff.agiptv.mifg.pgs..glaHspnEyvdledl 194
                              + +v l+  g+  + +d +l+ ++ +  ++l+ + + ++++ g   ++ ++f  agip++ m     ++   + H+pn +v+  ++
  PHY93_14490|PHY93_14490 285 NMKVYLRAPGEKGAEDDLKLTTLITNNGKSLYkQIDFKPEANGmNSSSHISFWeAGIPAIcMSQNwESDfnPRFHTPNDFVETLNM 370
                              99999889999999999**************96666666666655566666669999*884555533346699*********8888 PP

                              HHHHHHHH CS
                              xxxxxxxx RF
            Peptidase_M20 195 ekgikvla 202
                               ++i+++ 
  PHY93_14490|PHY93_14490 371 NTYINAFR 378
                              88887765 PP

>> CRAL_TRIO_2  Divergent CRAL/TRIO domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.1   0.5    0.0026        12      71     132 ..       7      68 ..       4      72 .. 0.91
   2 ?   -1.7   0.0      0.65   2.9e+03      19      37 ..      82      99 ..      74     115 .. 0.65
   3 ?    3.4   0.0     0.018        79      19      50 ..     141     172 ..     126     229 .. 0.77

  Alignments for each domain:
  == domain 1  score: 6.1 bits;  conditional E-value: 0.0026
              CRAL_TRIO_2  71 kknlkklyivhpstfvktllktvlsafvsskfrkkveyvsrleeLarkidrtqllkslPegv 132
                              +kn  k yi+++   + +l+ t  + f  ++  kk+    +++   +ki+r+ l+k+l  +v
  PHY93_14490|PHY93_14490   7 QKNKTKNYIFNSFLILSSLTVTTAHSFEIKDYEKKIKTNYNITSATEKISRDALEKNLRDFV 68 
                              5888999******9999999999*******************************99986666 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 0.65
              CRAL_TRIO_2 19 ldkllryvlhtladkivgk 37
                             ++k l+y+ ++l + +++k
  PHY93_14490|PHY93_14490 82 HQKALDYLEEKL-KSFKSK 99
                             666677776666.555443 PP

  == domain 3  score: 3.4 bits;  conditional E-value: 0.018
              CRAL_TRIO_2  19 ldkllryvlhtladkivgke.yvlVyfhtglss 50 
                              +  +   +++tl d +++k+ y l+    g+++
  PHY93_14490|PHY93_14490 141 WKGFTLSMMKTL-DSVKDKKgYNLIWEKIGTTK 172
                              555666799999.************99999876 PP

>> Peptidase_M42  M42 glutamyl aminopeptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0   5.1e-05      0.23     135     179 ..     207     251 ..     151     283 .. 0.87

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 5.1e-05
                              HHHHHHHHHHHHHHHCTSS-SSEEEEEEESTCTTTSHHHHHHHHH CS
            Peptidase_M42 135 dragvavllellkelkeeeleatvylvatvqEEvGlrGaktsaek 179
                              + +gva+ll++++ l + +l+ tv +v+   EE G  G++  +ek
  PHY93_14490|PHY93_14490 207 NGTGVAALLSMIEILDKLDLPKTVRIVFFDFEELGFSGSHDYVEK 251
                              668***********************************9977776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (393 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       631  (0.0351944); expected 358.6 (0.02)
Passed bias filter:                      440  (0.0245412); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.59u 0.26s 00:00:00.85 Elapsed: 00:00:00.46
# Mc/sec: 2570.38
//
Query:       PHY93_14495|PHY93_14495  [L=380]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   2.1e-136  454.4   0.1   2.4e-136  454.2   0.1    1.0  1  tRNA_Me_trans    tRNA methyl transferase
    1.1e-07   31.3   0.0    3.1e-06   26.5   0.0    2.2  2  NAD_synthase     NAD synthase
    0.00021   20.8   0.1      0.001   18.6   0.0    1.9  2  QueC             Queuosine biosynthesis protein QueC
     0.0003   20.6   0.0     0.0015   18.3   0.0    2.0  1  ATP_bind_3       PP-loop family
     0.0017   18.0   0.0     0.0025   17.4   0.0    1.3  1  ThiI             Thiamine biosynthesis protein (ThiI)
      0.005   16.6   0.0     0.0073   16.0   0.0    1.2  1  Asn_synthase     Asparagine synthase
  ------ inclusion threshold ------
      0.075   12.3   0.0        0.1   11.9   0.0    1.2  1  Arginosuc_synth  Arginosuccinate synthase


Domain annotation for each model (and alignments):
>> tRNA_Me_trans  tRNA methyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  454.2   0.1  9.5e-140  2.4e-136       2     356 .]      14     364 ..      13     364 .. 0.99

  Alignments for each domain:
  == domain 1  score: 454.2 bits;  conditional E-value: 9.5e-140
            tRNA_Me_trans   2 kvvvalSgGVDSsvaaallkeqgyevigvflklweeedeegkeccaeedlkdaervaeklgiplevvdfekeykekvfeefleeye 87 
                              +v+v++SgGVDSsv aallke+gy+v+g+f+k+wee de+g +c ++++++d+ rv+ekl+ip++ vdf +eyk++vf++f+eey+
  PHY93_14495|PHY93_14495  14 TVIVGMSGGVDSSVCAALLKEEGYNVVGLFMKNWEEFDEHG-VCESSKEYADVVRVCEKLDIPYYSVDFIEEYKTQVFDHFIEEYK 98 
                              79***************************************.******************************************** PP

            tRNA_Me_trans  88 eGrTPnPdvlCNkeiKfgallekakeelgadalatGHYarvsleeeknevellrakdkkkDQsyfLsqlskealekllfPlgeltK 173
                               G TPnPdvlCN+eiKf+ ++e+a e lgad latGHY++++l+ +++++ l +++d  kDQsyfL+++++e+lek+lfP+g+l K
  PHY93_14495|PHY93_14495  99 LGYTPNPDVLCNREIKFKVFFERALE-LGADFLATGHYCQTKLD-ANGKYVLIKGADPLKDQSYFLYTIKSEVLEKVLFPIGHLPK 182
                              *************************9.*****************.68*************************************** PP

            tRNA_Me_trans 174 eevrkiAkeaglavaekkdSqgiCfigkrkfkdflkkyleekeGkiieietgevlGeheGllsyTiGqrkGlkiagaeeplyVvek 259
                              +evrkiA++++la++ kkdS+giCfig+r+fk+fl++y++ ++G++ +++ g v+G+h+G+++yTiGqrkGl+++g++e+++Vv k
  PHY93_14495|PHY93_14495 183 TEVRKIASKFDLATKYKKDSTGICFIGERNFKNFLSNYITFEDGNFETLD-GVVVGRHTGATYYTIGQRKGLGLGGQGEAWFVVGK 267
                              **************************************************.*********************************** PP

            tRNA_Me_trans 260 dakkntvlvgkgedeealaskklrvkelnwlaeelkekealelevkvrhkqelvkakvelkedetvevkldekvravtpGQaavlY 345
                              d+k+n v+v +ge ++a++ ++l++++++++  e k++  +++++k+r++q++++++++ + d+++ v++d ++ra+tp Q++v+Y
  PHY93_14495|PHY93_14495 268 DIKRNVVIVERGETHPAMYADSLIATDMSFTGGEFKKNLPFRCKAKIRYRQQDQECTITNIIDGKIYVEFDVPQRAITPRQSIVFY 353
                              ************************************************************************************** PP

            tRNA_Me_trans 346 kgdevLGggii 356
                              +gde+ Gg++i
  PHY93_14495|PHY93_14495 354 DGDECFGGAMI 364
                              *********98 PP

>> NAD_synthase  NAD synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.5   0.0   1.2e-09   3.1e-06      12      93 ..       5      94 ..       2     138 .. 0.75
   2 ?    2.4   0.0     0.029        73     148     167 ..     174     193 ..     169     204 .. 0.85

  Alignments for each domain:
  == domain 1  score: 26.5 bits;  conditional E-value: 1.2e-09
                             HHHHCTT.SEEEEEE-SSHHHHHHHHHHHHHHTCGEEEEEE--..S......SSTTHHHHHHHHHHHHHHTSEEEE--.-HHHHHHHH CS
             NAD_synthase 12 yvkkaga.kgvvlGlSGGvDSslvaalavkalgkenvlalllP..s......svsseedvedalalaenlgievktid.ikpivrafe 89
                             +v+k ++ + v++G+SGGvDSs+ aal ++     nv++l +   +      + +s +++ d + ++e+l+i +  +d i+++ + + 
  PHY93_14495|PHY93_14495  5 KVTKPKSeTTVIVGMSGGVDSSVCAALLKEE--GYNVVGLFMKnwEefdehgVCESSKEYADVVRVCEKLDIPYYSVDfIEEYKTQVF 90
                             56666654789****************9995..59*******743211111134567788899999*******999994555555555 PP

                             HHHH CS
             NAD_synthase 90 qelk 93
                             +++ 
  PHY93_14495|PHY93_14495 91 DHFI 94
                             5554 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.029
                              BETTTTS-HHHHHHHHHHTT CS
             NAD_synthase 148 lapiaellKtevkeLakeln 167
                              l pi++l Ktev+++a ++ 
  PHY93_14495|PHY93_14495 174 LFPIGHLPKTEVRKIASKFD 193
                              67*************99876 PP

>> QueC  Queuosine biosynthesis protein QueC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.0   4.1e-07     0.001       2      32 ..      15      45 ..      14      88 .. 0.73
   2 ?   -0.5   0.0      0.29   7.4e+02     153     187 ..     172     210 ..     164     215 .. 0.79

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 4.1e-07
                             EEEE--SSHHHHHHHHHHHHH-SEEEEEEEE CS
                     QueC  2 avvllSGGlDSttvlalakkegkevealtfd 32
                             ++v +SGG+DS++++al k+eg++v  l ++
  PHY93_14495|PHY93_14495 15 VIVGMSGGVDSSVCAALLKEEGYNVVGLFMK 45
                             6899*********************988664 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.29
                              EEE-TTTT--HHHHHHHHHHTT....HHHHH-B-STTS. CS
                     QueC 153 eieaPlidlsKaeivklgkelg....vpleetlsCYege 187
                              ++  P+ +l K+e+ k++ + +    ++ + t  C+ ge
  PHY93_14495|PHY93_14495 172 KVLFPIGHLPKTEVRKIASKFDlatkYKKDSTGICFIGE 210
                              57789999**********999977656666677788775 PP

>> ATP_bind_3  PP-loop family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.0     6e-07    0.0015       2     110 ..      15     140 ..      14     213 .. 0.65

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 6e-07
                              EEEE--SCHHHHHHHHHHHHHCTTTTT...EEEEEEEE-SSSTCHHHHHHHHHHHHHHTT-EEEEEE--H.............HHC CS
               ATP_bind_3   2 vlvAvSgGlDSmaLllllaklkkklgi...klvaihvdhglreeskeeaelvkelckklnikleiekvdv.............akk 71 
                              v+v++SgG+DS +   ll+++  +      k      +hg+ e+ske a+ v ++c+kl+i+++  ++                  
  PHY93_14495|PHY93_14495  15 VIVGMSGGVDSSVCAALLKEEGYNVVGlfmKNWEEFDEHGVCESSKEYAD-VVRVCEKLDIPYYSVDFIEeyktqvfdhfieeY-- 97 
                              79***********9999999866544344333333345777777777666.5579*******9877665556656666666331.. PP

                              TTSTCCC....HHHHHHHHHHHHCHHCCT.CEEE---BHHHHH CS
               ATP_bind_3  72 kgknlee....aARelRYevlkealkkegievlllAhhadDqa 110
                              k   + +      Re+ ++v+ e + + g+++l+++h  +  +
  PHY93_14495|PHY93_14495  98 KLGYTPNpdvlCNREIKFKVFFERALELGADFLATGHYCQTKL 140
                              2222222222247999999999999999999999999876555 PP

>> ThiI  Thiamine biosynthesis protein (ThiI)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.0   9.7e-07    0.0025       4      80 ..      13      90 ..      10     134 .. 0.75

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 9.7e-07
                     ThiI  4 gkvlaLlSgGiDSpVaaylllkRGcrvvlvhlknepgtsee.aiekveklaellaeyqtslevklvvvdf.kevlkeil 80
                              +v++ +SgG+DS V a ll + G +vv +++kn     e+ + e  ++ a+++   + +l++ ++ vdf +e+ +++ 
  PHY93_14495|PHY93_14495 13 TTVIVGMSGGVDSSVCAALLKEEGYNVVGLFMKNWEEFDEHgVCESSKEYADVVRVCE-KLDIPYYSVDFiEEYKTQVF 90
                             5788889**************************9655444415666677777766666.37777777777333444555 PP

>> Asn_synthase  Asparagine synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.0   2.9e-06    0.0073      20      93 ..      15      95 ..       8     135 .. 0.78

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 2.9e-06
             Asn_synthase 20 vGalLSGGlDSSliaalaarqsksplktFsigfee.......kgsdeakyakevaehlgtehtelvlteeelldalpdviy 93
                             v + +SGG+DSS+ aal++++  + +  F   +ee       ++s+e +   +v+e+l ++ +++ + ee  ++++++ i+
  PHY93_14495|PHY93_14495 15 VIVGMSGGVDSSVCAALLKEEGYNVVGLFMKNWEEfdehgvcESSKEYADVVRVCEKLDIPYYSVDFIEEYKTQVFDHFIE 95
                             56668*****************99999999999444446788888888888899999988877777777666666666655 PP

>> Arginosuc_synth  Arginosuccinate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0     4e-05       0.1       3      37 ..      18      51 ..      16     103 .. 0.70

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 4e-05
          Arginosuc_synth  3 aysGGlDtsviikllkeklgeeviavavdvGqeee 37
                               sGG+D sv+ +llke++ ++v+ + +   +e +
  PHY93_14495|PHY93_14495 18 GMSGGVDSSVCAALLKEEG-YNVVGLFMKNWEEFD 51
                             67***************99.****98876555533 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (380 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       476  (0.0265492); expected 358.6 (0.02)
Passed bias filter:                      420  (0.0234257); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.61u 0.23s 00:00:00.84 Elapsed: 00:00:00.46
# Mc/sec: 2498.45
//
Query:       PHY93_14500|PHY93_14500  [L=74]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.049   14.1   0.6       0.34   11.4   0.1    1.9  2  DUF1660   Prophage protein (DUF1660)


Domain annotation for each model (and alignments):
>> DUF1660  Prophage protein (DUF1660)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.1     0.027   4.9e+02      21      33 ..       4      13 ..       1      21 [. 0.69
   2 ?   11.4   0.1   1.9e-05      0.34       5      43 ..      26      65 ..      25      73 .. 0.75

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.027
                  DUF1660 21 eelyCeRCeivke 33
                             e + C +C    +
  PHY93_14500|PHY93_14500  4 ERIACMKCK---H 13
                             667999993...3 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 1.9e-05
                  DUF1660  5 CKLfgHKwdenpaadseelyCeRCeivkekvkcl.ekkln 43
                             CKL+g K    p+  +++   + C   +ek+k+  e++  
  PHY93_14500|PHY93_14500 26 CKLYGFKSAVMPYVLVKQSSGHDCSSFEEKAKKAdENDNG 65
                             *********99*9999999999997777777555344433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (74 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       622  (0.0346924); expected 358.6 (0.02)
Passed bias filter:                      334  (0.018629); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.26s 00:00:00.69 Elapsed: 00:00:00.45
# Mc/sec: 494.59
//
Query:       PHY93_14505|PHY93_14505  [L=125]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
     0.0049   16.5   0.2     0.0074   15.9   0.2    1.3  1  zf_C2H2_ZHX  Zinc-fingers and homeoboxes C2H2 finger domain
  ------ inclusion threshold ------
      0.038   13.9   0.1      0.045   13.7   0.1    1.1  1  Tom37_C      Tom37 C-terminal domain


Domain annotation for each model (and alignments):
>> zf_C2H2_ZHX  Zinc-fingers and homeoboxes C2H2 finger domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.2   8.2e-07    0.0074      13      39 ..       2      28 ..       1      32 [. 0.91

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 8.2e-07
              zf_C2H2_ZHX 13 sakkfegLalHNarsHpgetnftlqvv 39
                              ++++++L+ HN  + p+++nf+ +++
  PHY93_14505|PHY93_14505  2 KTNSHDELENHNLVMFPASKNFKINLS 28
                             699********************9986 PP

>> Tom37_C  Tom37 C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.1   5.1e-06     0.045      11      93 ..      11      96 ..       2     120 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 5.1e-06
                  Tom37_C 11 eaeeeLaq.SKtFkltqekkkknkeeLqnlknnlqylk..rlkevlkewievrkeldeeksipadlLllAnlyvqleLPdgdkike 93
                             +++  +   SK Fk++ ++ +  +  L++l n+   +k   l ++l++ +e+++eld +  ++ +  +  nl    + Pd + ik 
  PHY93_14505|PHY93_14505 11 NHNLVMFPaSKNFKINLSAMEVGQDPLHDLMNEYAHIKdeDLPDHLDDRFELEDELDGDVFHSLEAFMTRNLRGESQSPDDKLIKM 96
                             444444434************************9997522799******************************9999999998875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (125 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       738  (0.0411624); expected 358.6 (0.02)
Passed bias filter:                      528  (0.0294495); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.26s 00:00:00.71 Elapsed: 00:00:00.43
# Mc/sec: 880.18
//
Query:       PHY93_05300|PHY93_05300  [L=154]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (154 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       852  (0.0475208); expected 358.6 (0.02)
Passed bias filter:                      340  (0.0189637); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.23s 00:00:00.72 Elapsed: 00:00:00.44
# Mc/sec: 1040.60
//
Query:       PHY93_17065|PHY93_17065  [L=339]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.55   10.8   4.0        3.7    8.2   0.4    2.8  2  DUF1240   Protein of unknown function (DUF1240)


Domain annotation for each model (and alignments):
>> DUF1240  Protein of unknown function (DUF1240)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.2   0.4    0.0002       3.7      55      81 ..     165     191 ..     156     195 .. 0.92
   2 ?    2.6   0.2     0.011     2e+02      57      75 ..     295     313 ..     286     325 .. 0.84

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.0002
                  DUF1240  55 vlslflslYvdyklksegYlvCekisw 81 
                              + s+ +s Yv+y + s++ l+ ekis+
  PHY93_17065|PHY93_17065 165 LYSFSFSTYVSYLVASQNSLTSEKISI 191
                              579**********************96 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.011
                  DUF1240  57 slflslYvdyklksegYlv 75 
                               + + +Y++yk+ ++ Yl 
  PHY93_17065|PHY93_17065 295 GFRFMFYLNYKFSEKFYLH 313
                              57889*********99985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (339 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       719  (0.0401026); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.58u 0.23s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 2203.36
//
Query:       PHY93_14515|PHY93_14515  [L=88]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (88 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       386  (0.0215294); expected 358.6 (0.02)
Passed bias filter:                      311  (0.0173462); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.45
# Mc/sec: 589.19
//
Query:       PHY93_14520|PHY93_14520  [L=126]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    0.00041   20.0   0.1    0.00078   19.1   0.0    1.5  1  Cupin_2         Cupin domain
      0.005   16.5   0.0       0.01   15.5   0.0    1.5  1  Cupin_3         Protein of unknown function (DUF861)
  ------ inclusion threshold ------
      0.075   12.9   0.0       0.11   12.3   0.0    1.3  1  Cyclophil_like  Cyclophilin-like


Domain annotation for each model (and alignments):
>> Cupin_2  Cupin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   1.3e-07   0.00078      21      67 ..      63     108 ..      60     111 .. 0.86

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 1.3e-07
                              EEEEEEESEEEEE.ECTEEEEEETTEEEEE-TT-EEEEEE-SSS-EEE CS
                  Cupin_2  21 effyVleGegelt.vdgeeveleaGdsvyfpagtpHrfrNtgdeparl 67 
                              ++++Vl+Ge++ t  +g +  ++  d++y p+g  H+++  +d++ ++
  PHY93_14520|PHY93_14520  63 HWGFVLSGELTTTdKNGTQESVNSNDLFYWPPG--HNVKVISDAEIVM 108
                              699**********9******************6..7777777666555 PP

>> Cupin_3  Protein of unknown function (DUF861)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   1.7e-06      0.01      30      63 ..      66      99 ..      55     108 .. 0.87

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.7e-06
                             EEEECEEEEEETTTEEEEEETTEEEEE-TTEEEC CS
                  Cupin_3 30 yileGevkvtpeggetvelraGDlvvlpkglsgt 63
                             ++l+Ge + t+++g +  +   Dl++ p+g  ++
  PHY93_14520|PHY93_14520 66 FVLSGELTTTDKNGTQESVNSNDLFYWPPGHNVK 99
                             8*****************************8665 PP

>> Cyclophil_like  Cyclophilin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   1.9e-05      0.11      49      74 ..      73      98 ..      64     118 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 1.9e-05
                             ----SSSEESSB-TTEEEEECCCTEE CS
           Cyclophil_like 49 klekeenakevveagdiaywppGkal 74
                             ++  ++ ++e+v+++d+ ywppG+ +
  PHY93_14520|PHY93_14520 73 TTTDKNGTQESVNSNDLFYWPPGHNV 98
                             556677899**************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (126 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       344  (0.0191868); expected 358.6 (0.02)
Passed bias filter:                      302  (0.0168442); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.47u 0.25s 00:00:00.72 Elapsed: 00:00:00.45
# Mc/sec: 842.43
//
Query:       PHY93_14525|PHY93_14525  [L=164]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (164 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1025  (0.0571699); expected 358.6 (0.02)
Passed bias filter:                      564  (0.0314574); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.45
# Mc/sec: 1092.77
//
Query:       PHY93_14530|PHY93_14530  [L=233]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (233 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       700  (0.0390429); expected 358.6 (0.02)
Passed bias filter:                      492  (0.0274416); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.21s 00:00:00.74 Elapsed: 00:00:00.44
# Mc/sec: 1607.95
//
Query:       PHY93_14535|PHY93_14535  [L=120]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (120 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       435  (0.0242624); expected 358.6 (0.02)
Passed bias filter:                      370  (0.020637); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.24s 00:00:00.74 Elapsed: 00:00:00.46
# Mc/sec: 789.80
//
Query:       PHY93_14540|PHY93_14540  [L=350]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.2e-33  115.5   0.0      3e-33  115.0   0.0    1.2  1  Phage_integrase  Phage integrase family
    3.2e-10   40.4   0.7    1.5e-08   35.0   0.8    2.3  2  Phage_int_SAM_4  Phage integrase, N-terminal SAM-like domain
    2.1e-07   31.1   0.2    1.7e-05   25.0   0.1    2.5  2  Phage_int_SAM_1  Phage integrase, N-terminal SAM-like domain


Domain annotation for each model (and alignments):
>> Phage_integrase  Phage integrase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  115.0   0.0     5e-37     3e-33       2     169 ..     161     328 ..     160     331 .. 0.95

  Alignments for each domain:
  == domain 1  score: 115.0 bits;  conditional E-value: 5e-37
                              HHHHHHHHHHHHCCGCHHHHHHHHHHHHHHHHT--HHHHTT-BGGGEECTTTEEEEEEEECSSSSEEEEECTHHHHHHHHHHHHHH CS
          Phage_integrase   2 vltedeverllaaleeslkirdklllellyetGlRisEllsLrvkdldlengvilvheregKgskeravplseealellkellska 87 
                              +l++dev+++l++l++    rd++++ l++ +GlR  E+++L+++d+++ n+ i++   +gKg+k+r vpl++++ +l+ ++++++
  PHY93_14540|PHY93_14540 161 TLEPDEVRSFLSTLKT---QRDRAIVTLMLVCGLRSVEIVNLKLDDINILNKSIRI---NGKGNKQRFVPLPDNINKLIDTYIETE 240
                              699*************...*************************************...*************************** PP

                              ...CHCCTTTSBSSBET....TSSB--HHHHHHHHHHHHHHCT-SSC--TTHHHHHHHHHHHHHCTSHHHHHHHHT-SSCCHHHHH CS
          Phage_integrase  88 ...leeaeksellfask....rgkplsrqtvrkafkraveeagiekpltpHtlRhsfataLleagvdlrvvqkllGHssisttqiY 166
                                  +  ek+  lf+      rg p++ + +r+ f+  +  +g+  +++pH++Rh++++++++ag++l+ +qkl+GH + +tt +Y
  PHY93_14540|PHY93_14540 241 rpvRRGFEKERSLFLTLkgpnRGLPMCLEGLRALFRYKRAISGVH-HANPHRFRHTCGRNMAKAGMSLSSIQKLFGHNDPRTTIHY 325
                              998666777777787777899**************9999999999.**************************************** PP

                              HCC CS
          Phage_integrase 167 thv 169
                              +++
  PHY93_14540|PHY93_14540 326 INL 328
                              986 PP

>> Phage_int_SAM_4  Phage integrase, N-terminal SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.0   0.8   2.5e-12   1.5e-08       4      77 ..      30     107 ..      27     111 .. 0.92
   2 ?    2.7   0.0     0.029   1.8e+02      38      58 ..     159     179 ..     143     193 .. 0.82

  Alignments for each domain:
  == domain 1  score: 35.0 bits;  conditional E-value: 2.5e-12
          Phage_int_SAM_4   4 rfrealrlaglserTiksYlsaikrflrflkkk.....apeeltkedieaYlnyLanerklsastqknalnalsffykk 77 
                              +f e+  ++++s+rT++sY + +  f rf+++k     ++++++ + i++++ +   +r+++++++++ ln    +y+ 
  PHY93_14540|PHY93_14540  30 SFFEFTLAREFSKRTVRSYAYDVVIFFRFYQGKkktfpPFKDVSIQTIIDFIYHEK-SRNAAPRSINHRLNTVELLYRF 107
                              577888899*********************97779**999**************77.********************96 PP

  == domain 2  score: 2.7 bits;  conditional E-value: 0.029
          Phage_int_SAM_4  38 peeltkedieaYlnyLanerk 58 
                              ++ l++++++++l+ L ++r 
  PHY93_14540|PHY93_14540 159 IQTLEPDEVRSFLSTLKTQRD 179
                              67899***********96664 PP

>> Phage_int_SAM_1  Phage integrase, N-terminal SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.0   0.1   2.9e-09   1.7e-05       9      79 ..      35     107 ..      28     110 .. 0.91
   2 ?    3.5   0.0     0.014        87      22      60 ..     143     178 ..     142     187 .. 0.75

  Alignments for each domain:
  == domain 1  score: 25.0 bits;  conditional E-value: 2.9e-09
                              HHTT-S-HHHHHHHHHHHHHHHHHHHH...TS--TTT--HHHHHHHHHS----------HHHHHHHHHHHHHH CS
          Phage_int_SAM_1   9 ikerglspnTlraYrrdLrrflkflae..rgkesleqlttedvraflaeleeeglsatslarrlsalrsFfqf 79 
                              +++r++s+ T+r+Y +d+  f++f +   +  + +  ++ + + +f+ + ++++ + +s++ rl ++  +++f
  PHY93_14540|PHY93_14540  35 TLAREFSKRTVRSYAYDVVIFFRFYQGkkKTFPPFKDVSIQTIIDFIYHEKSRNAAPRSINHRLNTVELLYRF 107
                              569************************767778999***********************************99 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.014
                              HHHHHHHHHHHHHH.TS--TTT--HHHHHHHHHS----- CS
          Phage_int_SAM_1  22 YrrdLrrflkflaergkesleqlttedvraflaeleeeg 60 
                              Y r  r +     +   + +++l++++vr+fl +l+ ++
  PHY93_14540|PHY93_14540 143 YARGGRTLKLKIPH---QLIQTLEPDEVRSFLSTLKTQR 178
                              55555666666666...77999**********9998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (350 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       409  (0.0228122); expected 358.6 (0.02)
Passed bias filter:                      352  (0.019633); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 2345.36
//
Query:       PHY93_14545|PHY93_14545  [L=477]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-23   83.9   0.2    5.5e-23   81.6   0.0    2.1  2  Phage_integrase  Phage integrase family
    8.5e-06   26.0   0.5     0.0012   19.1   0.0    2.6  2  Phage_int_SAM_5  Phage integrase SAM-like domain
  ------ inclusion threshold ------
      0.021   15.1   1.7      0.094   13.0   0.5    2.5  2  Phage_int_SAM_1  Phage integrase, N-terminal SAM-like domain
      0.084   12.4   0.3       0.18   11.3   0.3    1.5  1  DUF3114          Protein of unknown function (DUF3114)
       0.14   11.6   0.2        0.3   10.5   0.2    1.5  1  MtrF             Tetrahydromethanopterin S-methyltransferase,


Domain annotation for each model (and alignments):
>> Phage_integrase  Phage integrase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.4   0.0      0.25   8.8e+02       3      92 ..     167     188 ..     109     225 .. 0.64
   2 !   81.6   0.0   1.5e-26   5.5e-23       9     171 ..     242     404 ..     238     405 .. 0.90

  Alignments for each domain:
  == domain 1  score: -0.4 bits;  conditional E-value: 0.25
                              HHHHHHHHHHHCCGCHHHHHHHHHHHHHHHHT--HHHHTT-BGGGEECTTTEEEEEEEECSSSSEEEEECTHHHHHHHHHHHHHHC CS
          Phage_integrase   3 ltedeverllaaleeslkirdklllellyetGlRisEllsLrvkdldlengvilvheregKgskeravplseealellkellskal 88 
                              l+ d+++rll++l +                                                                    k+l
  PHY93_14545|PHY93_14545 167 LRDDDMVRLLKYLTN--------------------------------------------------------------------KEL 184
                              344444444444444....................................................................443 PP

                              HCCT CS
          Phage_integrase  89 eeae 92 
                               ++ 
  PHY93_14545|PHY93_14545 185 TARG 188
                              3332 PP

  == domain 2  score: 81.6 bits;  conditional E-value: 1.5e-26
                              HHHHHCCGCHHHHHHHHHHHHHHHHT--HHHHTT-BGGGEECTTT.EEEEEEEECSSSSEEEEECT...HHHHHHHHHHHHHHCHC CS
          Phage_integrase   9 erllaaleeslkirdklllellyetGlRisEllsLrvkdldleng.vilvheregKgskeravpls...eealellkellskalee 90 
                              +++l+ +e+   i+ k++l l+ +tGlRi+El++L+ ++l+ + + +  ++    K + er vpl     e+++ ++++ +k+ ++
  PHY93_14545|PHY93_14545 242 QKILSETED---IYYKSIL-LIRRTGLRIAELMQLEFDCLEYDIKnRCSLKVPAVKLGLERRVPLDpstIELVKTIQMMSKKNIKR 323
                              566666666...7777765.6789***************8776542455556999**********9999999************** PP

                              CTTTSBSSBETTSSB--HHHHHHHHHHHHHHCT-SSC--TTHHHHHHHHHHHHHCTSHHHHHHHHT-SSCCHHHHHHCCCH CS
          Phage_integrase  91 aeksellfaskrgkplsrqtvrkafkraveeagiekpltpHtlRhsfataLleagvdlrvvqkllGHssisttqiYthvak 171
                               +  + l + ++g+p +   +++a+ +++ + +++k ++ H lRh++at +l+ag++l  ++k+lGH+ i +t +Y++v++
  PHY93_14545|PHY93_14545 324 SSVPTRLVIGANGSPPCYPLYSDALTEICARLDAKKWINLHALRHTYATSMLNAGLSLTSLMKILGHKTIVMTLVYAKVTE 404
                              *****************************************************************************9975 PP

>> Phage_int_SAM_5  Phage integrase SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   3.4e-07    0.0012       2      91 ..      17     105 ..      16     114 .. 0.89
   2 ?    4.5   0.2     0.012        44      18      91 ..     139     211 ..     124     216 .. 0.80

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 3.4e-07
                              HHHHHHHHTHHHHTTS-HHHHHHHHHHHHHTTTS-..S---TTT--HHHHHHHHHHHHHTS---HHHHHHHHHHHHHHHHHHHHTT CS
          Phage_int_SAM_5   2 fldyfkeyiekkkkkgskgtlrnykstlkhlkkFlkkkditfeeidkefleeFedYLkkkkglsentiskyfkklkavlnkAikeg 87 
                              f d+++ + + +k   +k+ +++ +  l ++ ++lk +++++ee+d + l +F  +L + +g + + ++k ++  k++++  i+ g
  PHY93_14545|PHY93_14545  17 FCDFLERFQAANKPLWKKAHYQTTRIGLGRFDEWLKYSKVPLEEMDWQKLLDFYRFL-SAQGTTIRAAKKSVQAAKRAIRWGIETG 101
                              678888888888888889999999999999*999999********************.9999999999999999999999999888 PP

                              S--S CS
          Phage_int_SAM_5  88 ilkk 91 
                               l +
  PHY93_14545|PHY93_14545 102 ELPQ 105
                              7665 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.012
                              -HHHHHHHHHHHHHTTTS-..S---TTT--HHHHHHHHHHHHHTS---HHHHHHHHHHHHHHHHHHHHTTS--S CS
          Phage_int_SAM_5  18 skgtlrnykstlkhlkkFlkkkditfeeidkefleeFedYLkkkkglsentiskyfkklkavlnkAikegilkk 91 
                              +++  ++++ +l+ l  ++k++++t + +  + + +  +YL ++k+l+ ++  +     + +l+   +++++k+
  PHY93_14545|PHY93_14545 139 RPKCHKVHQYSLRVLHTYMKEHKLTYRSLRDDDMVRLLKYL-TNKELTARGKTQISMGTRSFLRWLHDKKLIKR 211
                              466678999**********9999******************.89999888877777777777777766666665 PP

>> Phage_int_SAM_1  Phage integrase, N-terminal SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.0      0.44   1.6e+03      28      62 ..      46      79 ..      41      95 .. 0.60
   2 ?   13.0   0.5   2.6e-05     0.094       7      82 ..     131     205 ..     129     207 .. 0.87

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.44
                             HHHHHHHH.TS--TTT--HHHHHHHHHS------- CS
          Phage_int_SAM_1 28 rflkflaergkesleqlttedvraflaeleeegls 62
                             rf ++l++  k  le+ + + +++f + l ++g +
  PHY93_14545|PHY93_14545 46 RFDEWLKY-SKVPLEEMDWQKLLDFYRFLSAQGTT 79
                             56666666.66666666666666666666665533 PP

  == domain 2  score: 13.0 bits;  conditional E-value: 2.6e-05
                              HHHHTT-S-HHHHHHHHHHHHHHHHHHHH.TS--TTT--HHHHHHHHHS----------HHHHHHHHHHHHHHHHH CS
          Phage_int_SAM_1   7 yLikerglspnTlraYrrdLrrflkflaergkesleqlttedvraflaeleeeglsatslarrlsalrsFfqflvr 82 
                              yL++  ++ p+    +++ Lr + ++++e +k + ++l+ +d+++ l++l ++ l+a+  +      rsF+++l  
  PHY93_14545|PHY93_14545 131 YLEEINAVRPKCHKVHQYSLRVLHTYMKE-HKLTYRSLRDDDMVRLLKYLTNKELTARGKTQISMGTRSFLRWLHD 205
                              566666677777788999***********.************************9999988888889*****9965 PP

>> DUF3114  Protein of unknown function (DUF3114)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.3     5e-05      0.18      86     171 ..     142     229 ..     127     238 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 5e-05
                  DUF3114  86 akriHqfRylissqqvqyvRehfkeegktDeqaLakylaskkkkvllrelkkfallesaR.lHnKialk.dnkviypdgaislNlK 169
                               +++Hq+ + + +  ++  + ++++ ++ D   L kyl++k+ + + +++ ++   +  R lH+K  +k ++  i+p++    N+K
  PHY93_14545|PHY93_14545 142 CHKVHQYSLRVLHTYMKEHKLTYRSLRDDDMVRLLKYLTNKELTARGKTQISMGTRSFLRwLHDKKLIKrRHDEIFPSRLFPKNTK 227
                              57899988877666666668889***************997666666666665555655668*997776688999**998889988 PP

                  DUF3114 170 il 171
                               l
  PHY93_14545|PHY93_14545 228 PL 229
                              65 PP

>> MtrF  Tetrahydromethanopterin S-methyltransferase, F subunit (MtrF)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.2   8.5e-05       0.3       6      33 ..     237     264 ..     233     267 .. 0.90

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 8.5e-05
                     MtrF   6 nkpnmkaiksvvedirYraqLiaReqkL 33 
                              + ++m++i s +edi Y++ L+ R ++L
  PHY93_14545|PHY93_14545 237 IDIRMQKILSETEDIYYKSILLIRRTGL 264
                              789*********************9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (477 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       648  (0.0361426); expected 358.6 (0.02)
Passed bias filter:                      451  (0.0251548); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.58u 0.27s 00:00:00.85 Elapsed: 00:00:00.45
# Mc/sec: 3173.28
//
Query:       PHY93_20655|PHY93_20655  [L=176]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.3e-12   45.8   0.0    8.3e-12   45.4   0.0    1.2  1  Acetyltransf_1   Acetyltransferase (GNAT) family
    6.9e-07   29.6   0.0    1.1e-06   29.0   0.0    1.3  1  Acetyltransf_7   Acetyltransferase (GNAT) domain
      2e-06   27.7   0.0    4.4e-06   26.7   0.0    1.5  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
  ------ inclusion threshold ------
      0.052   13.7   0.0       0.13   12.4   0.0    1.7  2  Acetyltransf_CG  GCN5-related N-acetyl-transferase


Domain annotation for each model (and alignments):
>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.4   0.0   1.9e-15   8.3e-12      18     116 ..      45     155 ..      21     156 .. 0.83

  Alignments for each domain:
  == domain 1  score: 45.4 bits;  conditional E-value: 1.9e-15
                              HHHHHH.HHHHHHSTTCEEEEEEETTEEEEEEEEEEEET..............TSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHH CS
           Acetyltransf_1  18 daseee.feesfsleaegllvaeedgeliGfisllkipd..............ekggvayieslaVspeyrgkGlGsaLlealeer 88 
                              ++++++ ++++   e++++ ++++dg++i+++ l++ ++                 gv+   ++aV p+ +g G+G +L++ +e r
  PHY93_20655|PHY93_20655  45 HEDVDAtRRNI---EDGECHIGLYDGKIIACAILRIPNQseksgwkangpswySFSGVTTFGRFAVPPQLQGLGIGAKLMDVIESR 127
                              33333345555...88899*************999999988888888888888777788888************************ PP

                              HHHTTESEEEEEEETTEHHHHHHHHHTT CS
           Acetyltransf_1  89 areegikkivlaveedndaairlYeklG 116
                              a+  g+ ++ l+++e+  + i++Yek  
  PHY93_20655|PHY93_20655 128 AKALGFLELALDTSEHASHLIKMYEKRD 155
                              ******88899999999999*****975 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.0   0.0   2.4e-10   1.1e-06       3      75 ..      58     157 ..      56     158 .. 0.67

  Alignments for each domain:
  == domain 1  score: 29.0 bits;  conditional E-value: 2.4e-10
                              EEEEEEEETTEEEEEEEEEEES....................TCTEEEEE-GGGTTSSHHHHHHHHTT.....SEEEEE.EEEETH CS
           Acetyltransf_7   3 gevfVaeddgkivGfialslld....................aeitrlaVdpeyrgkGiGraLleaae.....kgiile.qlelna 62 
                              ge+++   dgki+ +++l + +                    +  +r+aV p+ +g GiG +L++++e      g+ le  l +++
  PHY93_20655|PHY93_20655  58 GECHIGLYDGKIIACAILRIPNqseksgwkangpswysfsgvTTFGRFAVPPQLQGLGIGAKLMDVIEsrakaLGF-LElALDTSE 142
                              56666667888888777777778888887777777777776666667******************73333334552.232222222 PP

                              H..HHHHHHHHTTEE CS
           Acetyltransf_7  63 e..kaikfYeklGFe 75 
                              +  + ik+Yek  ++
  PHY93_20655|PHY93_20655 143 HasHLIKMYEKRDYK 157
                              1235588****9986 PP

>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.7   0.0   9.8e-10   4.4e-06      20     109 ..      49     159 ..      29     165 .. 0.77

  Alignments for each domain:
  == domain 1  score: 26.7 bits;  conditional E-value: 9.8e-10
          Acetyltransf_10  20 ealrerieegealllvaeeggkivGvi.elrdgs...................hisllfVdpeyrgqGigkaLleaveeeaekdgi 85 
                              +a r+ ie+ge+ ++++++g+ i+ +i ++ ++s                     ++++V p+ +g Gig++L++ +e++a+  g 
  PHY93_20655|PHY93_20655  49 DATRRNIEDGEC-HIGLYDGKIIACAIlRIPNQSeksgwkangpswysfsgvtTFGRFAVPPQLQGLGIGAKLMDVIESRAKALGF 133
                              566667766666.6666666666655556644445777778888888888888899*************************99998 PP

          Acetyltransf_10  86 kl.eltvnasp.yavpfYeklGFkav 109
                               + +l   ++  + +++Yek  +k +
  PHY93_20655|PHY93_20655 134 LElALDTSEHAsHLIKMYEKRDYKFI 159
                              867777777767889******99976 PP

>> Acetyltransf_CG  GCN5-related N-acetyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0       2.5   1.1e+04      44      56 ..      33      45 ..      32      47 .. 0.74
   2 ?   12.4   0.0   2.9e-05      0.13      23      55 ..      98     130 ..      86     134 .. 0.83

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 2.5
          Acetyltransf_CG 44 kLvkaalddaree 56
                             +L++a + +a ++
  PHY93_20655|PHY93_20655 33 PLAEAGMRYAASH 45
                             6888888888776 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 2.9e-05
          Acetyltransf_CG  23 gvldfthTeVpeelrGkGiAkkLvkaalddare 55 
                              gv +f    Vp++l+G Gi++kL++ +   a++
  PHY93_20655|PHY93_20655  98 GVTTFGRFAVPPQLQGLGIGAKLMDVIESRAKA 130
                              577888899***************987777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (176 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       305  (0.0170115); expected 358.6 (0.02)
Passed bias filter:                      273  (0.0152267); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.46
# Mc/sec: 1151.65
//
Query:       PHY93_20660|PHY93_20660  [L=592]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
  ------ inclusion threshold ------
      0.019   15.6   0.5       0.16   12.6   0.4    2.4  2  RPA_C        Replication protein A C terminal
       0.15   11.9   0.3        7.6    6.4   0.0    2.6  2  LapD_MoxY_N  LapD/MoxY periplasmic domain


Domain annotation for each model (and alignments):
>> RPA_C  Replication protein A C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.0      0.36   3.3e+03      61      76 ..     411     426 ..     405     443 .. 0.82
   2 ?   12.6   0.4   1.8e-05      0.16      48      97 ..     449     499 ..     433     500 .. 0.84

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 0.36
                              .SXSTTTEEHHHHHHH CS
                    RPA_C  61 speseeGvhvdeiaqk 76 
                              +++s+ G+++d i+q+
  PHY93_20660|PHY93_20660 411 AFKSTPGLKMDAIKQR 426
                              5688999*****9986 PP

  == domain 2  score: 12.6 bits;  conditional E-value: 1.8e-05
                              XHHHHHHHHHHHH..SXSTTTEEHHHHHHHSTSXHHHHHHHHHHHHHTTSE CS
                    RPA_C  48 talaqqvlnlikq.speseeGvhvdeiaqklrlsvndvkqavdeLsneGii 97 
                               ++ +  +n i q +++s+ G +vd  +q+l+ls ++ ++++++L++eG++
  PHY93_20660|PHY93_20660 449 YNNYKNTMNGIAQnKMASQLGKNVDDFKQQLSLSLKQETSVANDLISEGML 499
                              44556667888777***********************************96 PP

>> LapD_MoxY_N  LapD/MoxY periplasmic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.4   0.0   0.00085       7.6      26      58 ..     223     254 ..     219     269 .. 0.88
   2 ?    2.5   0.2     0.014   1.2e+02       8      43 ..     460     495 ..     456     505 .. 0.80

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.00085
                              HHHHHTHHHHHTT-HHHHHHHHHHHHHHS-ESE CS
              LapD_MoxY_N  26 sLglslsqalekedpvtvellinalfDsgyyss 58 
                              +Lg ++ ++    d++t+ +l++a+ D+ +y++
  PHY93_20660|PHY93_20660 223 LLGTAVDKYFP-TDAQTASTLMDAILDEENYEK 254
                              68888899999.9******************97 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.014
                              HHHHHHHHHHHHHHHHHHHHHHHTHHHHHTT-HHHH CS
              LapD_MoxY_N   8 arqyleeqleskaqdtatsLglslsqalekedpvtv 43 
                              a++ ++ ql  ++ d  + L+lsl+q     ++ + 
  PHY93_20660|PHY93_20660 460 AQNKMASQLGKNVDDFKQQLSLSLKQETSVANDLIS 495
                              678999********************9885444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (592 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       897  (0.0500307); expected 358.6 (0.02)
Passed bias filter:                      440  (0.0245412); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.65u 0.26s 00:00:00.91 Elapsed: 00:00:00.47
# Mc/sec: 3813.75
//
Query:       PHY93_17070|PHY93_17070  [L=86]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.19   11.9   2.5       0.25   11.5   2.5    1.1  1  DUF669    Protein of unknown function (DUF669)


Domain annotation for each model (and alignments):
>> DUF669  Protein of unknown function (DUF669)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   2.5   1.4e-05      0.25      34      84 ..      31      82 ..      27      84 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 1.4e-05
                   DUF669 34 sGneslvldlevRsDldgk..lkgrkikydnlvvikdnakkleqsqkrlnals 84
                              G + ++ld++vR+ l     +k +++ ydn     +n+++ e+++ + n+++
  PHY93_17070|PHY93_17070 31 DGDKIITLDMNVRNKLRSLkeIKANQL-YDNDADLRKNNQEDEKDILKKNQVM 82
                             799*************98766777777.**********999999999888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (86 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       872  (0.0486363); expected 358.6 (0.02)
Passed bias filter:                      306  (0.0170673); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 595.58
//
Query:       PHY93_20665|PHY93_20665  [L=164]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.066   13.3   0.4       0.81    9.8   0.1    2.1  2  T2SSG     Type II secretion system (T2SS), protein G


Domain annotation for each model (and alignments):
>> T2SSG  Type II secretion system (T2SS), protein G
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.0     0.014   2.6e+02      65      93 ..      33      61 ..      19      65 .. 0.82
   2 ?    9.8   0.1   4.5e-05      0.81      59      96 ..     113     150 ..      83     158 .. 0.82

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.014
                             ----STT---EEE---SSSS-EEEE--TT CS
                    T2SSG 65 lpkDpWgnpyvyrspgehgefdllslGad 93
                             +  Dp + +y y++p  + + +++ + +d
  PHY93_20665|PHY93_20665 33 VKYDPNEWSYIYLKPTLKISPNIFEYRKD 61
                             56799999******998878788777766 PP

  == domain 2  score: 9.8 bits;  conditional E-value: 4.5e-05
                              TT-.-S----STT---EEE---SSSS-EEEE--TTS-- CS
                    T2SSG  59 pYlkkklpkDpWgnpyvyrspgehgefdllslGadgqe 96 
                               Y++ k  +    +++vy + ++++++d++s+G + ++
  PHY93_20665|PHY93_20665 113 CYIEYKNVSGEMTHQFVYPELSQNKSYDIYSYGWNSNN 150
                              56666666677789*******************87665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (164 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       861  (0.0480228); expected 358.6 (0.02)
Passed bias filter:                      417  (0.0232584); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.46
# Mc/sec: 1077.88
//
Query:       PHY93_20670|PHY93_20670  [L=135]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (135 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       441  (0.024597); expected 358.6 (0.02)
Passed bias filter:                      310  (0.0172904); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 912.94
//
Query:       PHY93_20675|PHY93_20675  [L=171]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.8e-30  104.9   0.0    3.1e-30  104.2   0.0    1.4  1  ORF6N          ORF6N domain
  ------ inclusion threshold ------
      0.015   15.8   0.0      0.027   15.0   0.0    1.5  1  Phage_pRha     Phage regulatory protein Rha (Phage_pRha)
      0.039   13.9   0.1      0.081   12.9   0.1    1.6  1  SWIRM-assoc_1  SWIRM-associated region 1


Domain annotation for each model (and alignments):
>> ORF6N  ORF6N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  104.2   0.0   5.2e-34   3.1e-30       2      84 .]      12      97 ..      11      97 .. 0.94

  Alignments for each domain:
  == domain 1  score: 104.2 bits;  conditional E-value: 5.2e-34
                    ORF6N  2 kiyeirgqrVmldkdlAelYevetkrlnqavkrnkeRFpedfmfqLtkeele..rsqiatl.krgskskylpylfTEqGvlmlakv 84
                             +iy ir+q+Vm+d+dlA+lY+vet+ +n++vkrn++RFp dfmfqL++ e++   sqi ++    ++++  py+fTE+Gv+ml++v
  PHY93_20675|PHY93_20675 12 MIYVIRDQKVMIDSDLAKLYGVETRIINRNVKRNIQRFPGDFMFQLDEIEHDslISQIGISnVGRGGRRIPPYVFTENGVAMLSSV 97
                             79**************************************************999999999755677****************986 PP

>> Phage_pRha  Phage regulatory protein Rha (Phage_pRha)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   0.0   4.5e-06     0.027       6      87 ..      27     118 ..      22     119 .. 0.70

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 4.5e-06
               Phage_pRha   6 iAelfgkrHknVlrdIrkliedleefgkelnfe.............eseykdsngretkvylltrdgftllvmgftgkkavefkaa 78 
                               A+l g + + + r++++ i++++    ++ f+               ++    gr+++ y +t++g+ +l   ++ ++a+ + + 
  PHY93_20675|PHY93_20675  27 LAKLYGVETRIINRNVKRNIQRFPG---DFMFQldeiehdslisqiGISNVGRGGRRIPPYVFTENGVAMLSSVLNSENAILVNIS 109
                              5777777777677777666444443...3233334444555555443333345579****************************** PP

               Phage_pRha  79 yidrFnele 87 
                              +i+ F +l+
  PHY93_20675|PHY93_20675 110 IIRIFTKLR 118
                              *****9987 PP

>> SWIRM-assoc_1  SWIRM-associated region 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.1   1.4e-05     0.081      29      67 ..     105     143 ..      97     158 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 1.4e-05
            SWIRM-assoc_1  29 lvetqlkKlelKLkqfeelEklleaerrelekqrqqLll 67 
                              lv++++ ++ +KL+ f  +E+ l++   +lek   q++ 
  PHY93_20675|PHY93_20675 105 LVNISIIRIFTKLRSFLMMENSLNERVTNLEKGTNQIFK 143
                              8999999999***********************999985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (171 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       498  (0.0277762); expected 358.6 (0.02)
Passed bias filter:                      341  (0.0190195); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.43
# Mc/sec: 1188.03
//
Query:       PHY93_20680|PHY93_20680  [L=52]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (52 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       249  (0.0138881); expected 358.6 (0.02)
Passed bias filter:                      196  (0.010932); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.23s 00:00:00.63 Elapsed: 00:00:00.41
# Mc/sec: 378.44
//
Query:       PHY93_20685|PHY93_20685  [L=141]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (141 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       449  (0.0250432); expected 358.6 (0.02)
Passed bias filter:                      328  (0.0182944); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 961.10
//
Query:       PHY93_20690|PHY93_20690  [L=78]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    0.00054   20.3   0.9    0.00054   20.3   0.9    1.7  2  Recombinase  Recombinase
  ------ inclusion threshold ------
      0.042   13.3   0.1      0.042   13.3   0.1    1.1  1  DUF562       Protein of unknown function (DUF562)


Domain annotation for each model (and alignments):
>> Recombinase  Recombinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.1     0.051   4.5e+02      56      77 ..       9      31 ..       3      35 .. 0.67
   2 !   20.3   0.9   6.1e-08   0.00054       2      51 ..      28      77 ..      27      78 .] 0.91

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.051
              Recombinase 56 iGilvynktk.gkkkkkrkddse 77
                             +G++vy+ ++ g k  + k++++
  PHY93_20690|PHY93_20690  9 TGKTVYGYRQyGGKAIEVKKEED 31
                             68888888887666666665555 PP

  == domain 2  score: 20.3 bits;  conditional E-value: 6.1e-08
              Recombinase  2 eeaeivrrifelylegkslksiaryLneegiktprgkekWskstvkriLt 51
                             +e  ++++i +    g+++ +i + Ln+ +i t++ k  W+++ v++i +
  PHY93_20690|PHY93_20690 28 KEEDVIELIKSYRSRGYTYIKISDILNKSKIQTKKRKGVWYSKVVRQIFK 77
                             56778999999999*********************999*********987 PP

>> DUF562  Protein of unknown function (DUF562)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.1   4.7e-06     0.042      15      68 ..      10      64 ..       1      74 [. 0.79

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 4.7e-06
                   DUF562 15 eknvvVvlndsklgkesleeeslsklieeLeesgYSylNifsvkses.tivkeRr 68
                             +k v    + +   +e ++ee + +li+  +++gY y+ i  + ++s  + k+R+
  PHY93_20690|PHY93_20690 10 GKTVYGYRQYGGKAIEVKKEEDVIELIKSYRSRGYTYIKISDILNKSkIQTKKRK 64
                             55555555556667888999********************998777768888887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (78 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       916  (0.0510904); expected 358.6 (0.02)
Passed bias filter:                      476  (0.0265492); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.22s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 522.23
//
Query:       PHY93_20695|PHY93_20695  [L=140]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-15   57.7   0.1    1.4e-15   57.5   0.1    1.0  1  Acetyltransf_1   Acetyltransferase (GNAT) family
    7.7e-06   26.2   0.2      1e-05   25.9   0.2    1.2  1  Acetyltransf_7   Acetyltransferase (GNAT) domain
    0.00023   21.1   0.0    0.00032   20.6   0.0    1.1  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
     0.0045   17.1   0.0     0.0071   16.5   0.0    1.4  1  Acetyltransf_4   Acetyltransferase (GNAT) domain


Domain annotation for each model (and alignments):
>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.5   0.1   3.2e-19   1.4e-15      14     117 .]      25     131 ..      10     131 .. 0.85

  Alignments for each domain:
  == domain 1  score: 57.5 bits;  conditional E-value: 3.2e-19
                              HHHHHHHHHH.HHHHHHSTTC.EEEEEEETTEEEEEEEEEEEET.TSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHTTESE CS
           Acetyltransf_1  14 ppnedaseee.feesfsleae.gllvaeedgeliGfisllkipd.ekggvayieslaVspeyrgkGlGsaLlealeerareegikk 96 
                               p  + se++  ++ ++++++ +++++ee+g+++  +++++ +d  +g+++yi++l+  +e+r kGlG +Ll ++e  a+e +++ 
  PHY93_20695|PHY93_20695  25 RPSLTLSEYIfIYDQAHRTDGyEIVAIEENGKILSVMGYRILYDfVRGKHIYIDDLVSTEEARSKGLGAELLFYAESVAKELNCNG 110
                              34444555555555578888867777*******************99*************************************** PP

                              EEEEEETTEHHHHHHHHHTTE CS
           Acetyltransf_1  97 ivlaveedndaairlYeklGF 117
                              + l +  dn++ +++Ye+ G+
  PHY93_20695|PHY93_20695 111 LRLCTGLDNNRGMKFYERNGW 131
                              ***9*************9986 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.9   0.2   2.3e-09     1e-05       3      75 ..      46     132 ..      32     133 .. 0.66

  Alignments for each domain:
  == domain 1  score: 25.9 bits;  conditional E-value: 2.3e-09
                              EEEEEEEETTEEE...EEEEEEEES.......TCTEEEEE-GGGTTSSHHHHHHHH.....TT...SEEEEEEEEETHHHHHHHHH CS
           Acetyltransf_7   3 gevfVaeddgkiv...Gfialslld.......aeitrlaVdpeyrgkGiGraLlea.....ae...kgiileqlelnaekaikfYe 70 
                              +e+  +e++gki+   G   + +l         +i  l+  +e+r kG+G +Ll +     +e   +g++l+ + l++++  kfYe
  PHY93_20695|PHY93_20695  46 YEIVAIEENGKILsvmG---YRILYdfvrgkhIYIDDLVSTEEARSKGLGAELLFYaesvaKElncNGLRLC-TGLDNNRGMKFYE 127
                              45666888888885554...3333344355433455577777************754555422344554344.3455558899*** PP

                              HTTEE CS
           Acetyltransf_7  71 klGFe 75 
                              ++G++
  PHY93_20695|PHY93_20695 128 RNGWI 132
                              ***86 PP

>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.6   0.0   7.1e-08   0.00032      27     107 ..      42     132 ..      29     136 .. 0.81

  Alignments for each domain:
  == domain 1  score: 20.6 bits;  conditional E-value: 7.1e-08
          Acetyltransf_10  27 eegealllvaeeggkivGvi..el.rdgs.....hisllfVdpeyrgqGigkaLleaveeeaekdgikl.eltvnasp.yavpfYe 102
                              ++  + +++ ee+gki+ v   ++ +d       +i  l+  +e+r++G+g++Ll ++e+ a++ + +  +l    ++    +fYe
  PHY93_20695|PHY93_20695  42 RTDGYEIVAIEENGKILSVMgyRIlYDFVrgkhiYIDDLVSTEEARSKGLGAELLFYAESVAKELNCNGlRLCTGLDNnRGMKFYE 127
                              467788999999999998885544455447777889999999********************9998887877777777699***** PP

          Acetyltransf_10 103 klGFk 107
                              + G+ 
  PHY93_20695|PHY93_20695 128 RNGWI 132
                              ***96 PP

>> Acetyltransf_4  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   1.6e-06    0.0071      53     134 ..      50     131 ..      21     138 .. 0.88

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 1.6e-06
           Acetyltransf_4  53 lvaesdrivGyaylgqfkkrakdwkaelsvylaerdnnkeglgrelidaleqvlkeqnienllaeiaspnensiqfhkalGF 134
                               ++e+++i   + ++ + +  + ++  +  ++  + ++++glg el+ + e v+ke n + l  ++  +n   ++f+++ G+
  PHY93_20695|PHY93_20695  50 AIEENGKILSVMGYRILYDFVRGKHIYIDDLVSTEEARSKGLGAELLFYAESVAKELNCNGLRLCTGLDNNRGMKFYERNGW 131
                              577799999999999665559999999999**9889******************************************9996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (140 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       290  (0.0161749); expected 358.6 (0.02)
Passed bias filter:                      268  (0.0149478); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 947.74
//
Query:       PHY93_20700|PHY93_20700  [L=209]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.8e-08   32.7   0.4    1.6e-07   31.3   0.0    2.0  3  Polbeta        Polymerase beta, Nucleotidyltransferase
    3.2e-05   24.1   0.3    0.00012   22.3   0.3    2.1  1  NTP_transf_2   Nucleotidyltransferase domain
  ------ inclusion threshold ------
      0.033   13.3   0.0       0.05   12.7   0.0    1.4  1  Adenyl_transf  Streptomycin adenylyltransferase
      0.047   13.9   1.9          1    9.6   0.0    2.2  2  Methylase_S    Type I restriction modification DNA specificit


Domain annotation for each model (and alignments):
>> Polbeta  Polymerase beta, Nucleotidyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.3   0.0   3.6e-11   1.6e-07       5      72 ..      14      80 ..       9      96 .. 0.82
   2 ?    1.2   0.0     0.088     4e+02      27      71 ..      58     103 ..      53     113 .. 0.62
   3 ?   -2.6   0.0       1.3   5.9e+03      50      69 ..     180     198 ..     172     204 .. 0.59

  Alignments for each domain:
  == domain 1  score: 31.3 bits;  conditional E-value: 3.6e-11
                             TTHHHHHHHHSTTEEEEEE-S------EEEEEEEESS---HHHHHHHHHHHHHH.SSSEEEEEETTTS CS
                  Polbeta  5 eilekekeielaylFGSrakgkareeSDiDlavllkekldleeelelaaelediklgkkvDlvdlnea 72
                              +++k+ + e+++l+GSra+g+a+++SD+Dl+ + k+ +++    ++     d+++  + +++++ne+
  PHY93_20700|PHY93_20700 14 LLVKKY-KCEAVILYGSRARGDATSKSDYDLMGIRKSGKKFRLAEKWNGSYLDVFIFPEKEILKVNEN 80
                             456677.*************************999999999999999999999988888888888866 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.088
                              -----EEEEEEEESS-.--HHHHHHHHHHHHHH.SSSEEEEEETTT CS
                  Polbeta  27 areeSDiDlavllkek.ldleeelelaaelediklgkkvDlvdlne 71 
                               ++ S +D++++ +++ l+++e + ++   + i+++ +v  +++++
  PHY93_20700|PHY93_20700  58 KWNGSYLDVFIFPEKEiLKVNENFLYMRGAKIIFEKGNVGSLFIKK 103
                              5677889999999999655555554444444445555555555555 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 1.3
                              HHHHHHHHH.SSSEEEEEET CS
                  Polbeta  50 elaaelediklgkkvDlvdl 69 
                              ++++ +++  l +++Dl  l
  PHY93_20700|PHY93_20700 180 KIYNLFQKT-LANSTDLKLL 198
                              455555555.5555555555 PP

>> NTP_transf_2  Nucleotidyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.3   0.3   2.6e-08   0.00012       4      45 ..      11      52 ..       8     127 .. 0.74

  Alignments for each domain:
  == domain 1  score: 22.3 bits;  conditional E-value: 2.6e-08
                             HHHHHHHHTTTSEEEEEHHHHCTTSCTTSSEEEEEEESTTCH CS
             NTP_transf_2  4 lleelkelepvakvvlfGSyarGtalkgSDiDllvvlpeevs 45
                             + e l ++++   v+l+GS+arG+a++ SD Dl  + ++ ++
  PHY93_20700|PHY93_20700 11 AVELLVKKYKCEAVILYGSRARGDATSKSDYDLMGIRKSGKK 52
                             5566667777889*******************9877777754 PP

>> Adenyl_transf  Streptomycin adenylyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   1.1e-05      0.05       5      76 ..       5      74 ..       1     117 [. 0.77

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 1.1e-05
                             HHHHHHHHHHHHH-TTEEEEEE----------------EEEEEEES-HHHHHT-SGGGGGG--EEEEE-TTS CS
            Adenyl_transf  5 kemldlilevAkkderiravilnGSranpnakkDefqDyDivyvvtdiesfiedkswldkFGerlimqtpee 76
                             k+ l+  +e+  k+ + +avil GSra+ +a+  + +DyD++ + ++ ++f   ++w   + ++ i  + e 
  PHY93_20700|PHY93_20700  5 KDFLEEAVELLVKKYKCEAVILYGSRARGDAT--SKSDYDLMGIRKSGKKFRLAEKWNGSYLDVFIFPEKEI 74
                             666666677777888999*************7..779********************988888877664444 PP

>> Methylase_S  Type I restriction modification DNA specificity domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   0.0   0.00023         1      80     140 ..      58     119 ..      17     133 .. 0.85
   2 ?    3.9   0.4     0.013        56      72     113 ..     156     196 ..     151     206 .. 0.70

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.00023
                              BEE-TTEEEEEEST.TT--HHHHHHHHHHCHHHHHHHCCSSTTT---HHHHCC-EEEE--HH CS
              Methylase_S  80 yylnqsvivlipkn.kkkineflylylllklkklkslsvgstqpkltkenlkkikIplPple 140
                               + ++ + v+i+ + ++++ +  +ly   ++  +++ +vgs + k   + lkk  IplP  e
  PHY93_20700|PHY93_20700  58 KWNGSYLDVFIFPEkEILKVNENFLYMRGAKIIFEKGNVGSLFIKKLSKALKKKYIPLPDDE 119
                              37788888899876667778889999987777888889*********************877 PP

  == domain 2  score: 3.9 bits;  conditional E-value: 0.013
                              -EEEESS-BEE-TTEEEEEESTTT--HHHHHHHHHHCHHHHH CS
              Methylase_S  72 kvayrdkkyylnqsvivlipknkkkineflylylllklkklk 113
                              ++++r+k+y+ +++  v+   n+kki ++l+   l+++ +lk
  PHY93_20700|PHY93_20700 156 YFNIRKKRYWGSKESFVWLKENDKKI-YNLFQKTLANSTDLK 196
                              67899**************7655555.555555444444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (209 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       677  (0.0377601); expected 358.6 (0.02)
Passed bias filter:                      449  (0.0250432); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.43
# Mc/sec: 1467.20
//
Query:       PHY93_20705|PHY93_20705  [L=291]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.6e-09   37.6   0.0      3e-09   36.7   0.0    1.4  1  FR47             FR47-like protein
    6.5e-05   22.9   0.0    0.00011   22.1   0.0    1.4  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
     0.0015   19.0   0.0     0.0029   18.0   0.0    1.5  1  Acetyltransf_7   Acetyltransferase (GNAT) domain
     0.0046   17.2   0.0     0.0091   16.2   0.0    1.5  1  Acetyltransf_1   Acetyltransferase (GNAT) family
  ------ inclusion threshold ------
      0.026   14.6   0.1      0.082   13.0   0.1    1.9  1  Plasmod_dom_1    Plasmodium protein of unknown function (Plas
      0.096   13.4   0.0       0.16   12.7   0.0    1.4  1  Acetyltransf_3   Acetyltransferase (GNAT) domain


Domain annotation for each model (and alignments):
>> FR47  FR47-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.7   0.0     1e-12     3e-09       9      83 ..     208     284 ..     202     287 .. 0.85

  Alignments for each domain:
  == domain 1  score: 36.7 bits;  conditional E-value: 1e-12
                              T--EEEE.EEE-TTSSEEEEEE-GGG-SSSHHHHHHHHHHHHHHHS-S-EE.EEEETT-HHHHHHHHHHT-EEEEEE CS
                     FR47   9 lgelaaw.ilrkdggelgalqvlpehrrrGlgsrlvkalakeiaergktvl.lvvvasNtpsirlyeklGfekieet 83 
                              l++++a  + +++gg ++ +++ p+ r++G++s  v+ l+++i+  gk+ + l +  +N +s ++y+k+Gf ki ++
  PHY93_20705|PHY93_20705 208 LVSMVANvRSTLNGGTISLVYTPPSLRGKGYASYGVALLSEKIILGGKKFTnLFTDLTNPTSNSIYQKIGFVKIGQN 284
                              55555551567889*******************************998876478899**************999655 PP

>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.1   0.0   3.8e-08   0.00011      20     116 ..     187     288 ..     168     291 .] 0.77

  Alignments for each domain:
  == domain 1  score: 22.1 bits;  conditional E-value: 3.8e-08
          Acetyltransf_10  20 ealrerieegealllvaeeggkivGvi....elrdgshisllfVdpeyrgqGigkaLleaveeeaekdgikl.eltvnasp.yavp 99 
                              + +++++ +++ ++l+  +++++v ++    ++ +g+ isl++  p+ rg+G+++  +  + e++   g k   l  + ++ +  +
  PHY93_20705|PHY93_20705 187 KLMNRHL-QNKSIFLLKSKSDELVSMVanvrSTLNGGTISLVYTPPSLRGKGYASYGVALLSEKIILGGKKFtNLFTDLTNpTSNS 271
                              2333444.8888888999999***9995442224555****************99888888888766665557788887777**** PP

          Acetyltransf_10 100 fYeklGFkavgeeqeen 116
                              +Y+k+GF+++g++  ++
  PHY93_20705|PHY93_20705 272 IYQKIGFVKIGQNIHFD 288
                              **********9987765 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.0   9.8e-07    0.0029      15      76 .]     209     280 ..     194     280 .. 0.57

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 9.8e-07
                              EEEEEEEEES...TCTEEEEE-GGGTTSSHHH...HHHHHTT....SEEEEE.EEEETHHHHHHHHHHTTEEE CS
           Acetyltransf_7  15 vGfialslld...aeitrlaVdpeyrgkGiGr...aLleaae....kgiile.qlelnaekaikfYeklGFee 76 
                              v ++a +++    + i  +++ p+ rgkG+++   aLl  ++    k+++    + l+++++++ Y+k GF++
  PHY93_20705|PHY93_20705 209 VSMVANVRSTlngGTISLVYTPPSLRGKGYASygvALLSEKIilggKKFT-NlFTDLTNPTSNSIYQKIGFVK 280
                              444443333344355666***********988222555432243222222.2234444558899*******85 PP

>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0     3e-06    0.0091      11     117 .]     171     278 ..     161     278 .. 0.77

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 3e-06
                              HTHHHHHHHHHHH.HHHH..HHSTTCEEEE.EEETTEEEEEEEEEEEETTSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHT CS
           Acetyltransf_1  11 sffppnedaseee.fees..fsleaegllv.aeedgeliGfisllkipdekggvayieslaVspeyrgkGlGsaLlealeeraree 92 
                              + fp+ +d+s+++ +e+    +l+++++++  ++ +el+ ++     +    + + i  ++  p+ rgkG++s  +  l e +   
  PHY93_20705|PHY93_20705 171 DCFPNSPDTSLDDnVEKLmnRHLQNKSIFLlKSKSDELVSMVANVRSTL---NGGTISLVYTPPSLRGKGYASYGVALLSE-KIIL 252
                              4467788888888733333445566655554777799****96666666...8999999*****************99998.5555 PP

                              TESEE.EEEEETTEHHHHHHHHHTTE CS
           Acetyltransf_1  93 gikki.vlaveedndaairlYeklGF 117
                              g+kk   l ++ +n  +   Y+k GF
  PHY93_20705|PHY93_20705 253 GGKKFtNLFTDLTNPTSNSIYQKIGF 278
                              67776699*************99**9 PP

>> Plasmod_dom_1  Plasmodium protein of unknown function (Plasmod_dom_1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.1   2.7e-05     0.082      18      47 ..     185     214 ..     180     228 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 2.7e-05
            Plasmod_dom_1  18 idklidnnvqnksseikelvienlvalslA 47 
                              ++kl++ ++qnks+++ +   + lv++ + 
  PHY93_20705|PHY93_20705 185 VEKLMNRHLQNKSIFLLKSKSDELVSMVAN 214
                              69**********************999875 PP

>> Acetyltransf_3  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   5.2e-05      0.16      35     137 ..     183     278 ..     148     279 .. 0.69

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 5.2e-05
           Acetyltransf_3  35 eeaeewlerawaeeseeegygwaivlkdtgviGsv.glrdleeedeeaelgymlaps.fwgkGyateavralleyafeelglerlv 118
                              ++ e++++r++++     +  +++  k+++ + +v ++r+  +    + ++++  p+  +gkGya+  v+ l e +    g +   
  PHY93_20705|PHY93_20705 183 DNVEKLMNRHLQN-----KSIFLLKSKSDELVSMVaNVRSTLNG---GTISLVYTPPsLRGKGYASYGVALLSEKII-LGGKKFTN 259
                              3334444444543.....33466644555447777455555555...88888888555******************4.5568889* PP

           Acetyltransf_3 119 avidkeNeaSirvleklGf 137
                                +d +N+ S  +++k+Gf
  PHY93_20705|PHY93_20705 260 LFTDLTNPTSNSIYQKIGF 278
                              ******************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (291 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       488  (0.0272185); expected 358.6 (0.02)
Passed bias filter:                      405  (0.0225891); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.55u 0.21s 00:00:00.76 Elapsed: 00:00:00.43
# Mc/sec: 2042.18
//
Query:       PHY93_20710|PHY93_20710  [L=129]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.7e-10   40.4   0.0      3e-10   40.3   0.0    1.1  1  NUDIX     NUDIX domain


Domain annotation for each model (and alignments):
>> NUDIX  NUDIX domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.3   0.0   1.7e-14     3e-10       4     107 ..       9     106 ..       6     129 .] 0.63

  Alignments for each domain:
  == domain 1  score: 40.3 bits;  conditional E-value: 1.7e-14
                              EEEEEEEEETTSEEEEEEESSSSTTT.EESSEEECBTTSHHHHHHHHHHHHHHSEEE..EEEEEEEEEEEEEEEEEEEEEEEEEEE CS
                    NUDIX   4 ravgvvllnekgevLlvrrskkpfpg.WelPgGkvepgEtpeeAArREleEEtGlea..ellellgrlhylapydgpygdeheily 86 
                              +av++v + +   ++ +rr   p +g  ++PgG +  gEt+++A+ REl+EEtG+++  e +el+        +d ++      ++
  PHY93_20710|PHY93_20710   9 VAVALVPYKNS--LIGIRRGIEPRKGqLAFPGGYINTGETFKQALSRELFEETGITVptESWELFH------IGDSVQS---NRIL 83 
                              56666666666..8889999455555588*************************844134445444......3333333...3444 PP

                              EEE.EEECSGCSST.STTTEEEE CS
                    NUDIX  87 vfl.eevegelepn.denevsev 107
                              +f  ++    + +n +++e++ev
  PHY93_20710|PHY93_20710  84 IFGiCKSINAIDLNfKSDETQEV 106
                              44444444444444566666666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (129 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       305  (0.0170115); expected 358.6 (0.02)
Passed bias filter:                      290  (0.0161749); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.26s 00:00:00.75 Elapsed: 00:00:00.47
# Mc/sec: 823.16
//
Query:       PHY93_17075|PHY93_17075  [L=144]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    7.1e-21   74.5   0.0    8.3e-21   74.3   0.0    1.0  1  Response_reg  Response regulator receiver domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.3   0.0   4.6e-25   8.3e-21       2     112 .]      23     136 ..      22     136 .. 0.95

  Alignments for each domain:
  == domain 1  score: 74.3 bits;  conditional E-value: 4.6e-25
                              EEESSSHHHHHHHHHHHHHTTE.EEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCT..TTSEEEEEESSTSHH CS
             Response_reg   2 livdDdplvrellrqlleeegy.eevaeaedgkealellkeekvdlillDinmpgmdGlellkeireed..pelpviiltahseee 84 
                              li +D   +r+ + + l++ g+  +++ea + + a++++ +e+++ ++ D+n+p+ +G+++lk+ r+ +  +++p i++t+++e +
  PHY93_17075|PHY93_17075  23 LILEDMDNIRQQMVNDLRSIGVlGKIHEAPNVQTAIKIYSSEEIGFVISDWNLPDGTGHDFLKKFRDVEryKKTPFIMCTTNNEVK 108
                              899***************766559*****************************************98888899************* PP

                              HHHHHHHCTESEEEESSG-HHHHHHHHH CS
             Response_reg  85 davealkagaddflsKpfdpeeLlkale 112
                                +ea+  ga+d+++Kp++++eL+++++
  PHY93_17075|PHY93_17075 109 FFIEAIASGANDYVVKPWKINELKEKIQ 136
                              ************************9985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (144 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       480  (0.0267723); expected 358.6 (0.02)
Passed bias filter:                      379  (0.0211389); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.24s 00:00:00.74 Elapsed: 00:00:00.44
# Mc/sec: 978.57
//
Query:       PHY93_14555|PHY93_14555  [L=440]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    9.6e-39  132.9   0.1    1.1e-38  132.6   0.1    1.1  1  DDE_Tnp_1_4  Transposase DDE domain group 1
    1.7e-15   57.3   0.1    2.7e-15   56.6   0.1    1.3  1  DDE_Tnp_1    Transposase DDE domain
  ------ inclusion threshold ------
      0.016   14.7   0.0      0.032   13.7   0.0    1.5  1  UPF0128      Uncharacterised protein family (UPF0128)


Domain annotation for each model (and alignments):
>> DDE_Tnp_1_4  Transposase DDE domain group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  132.6   0.1   1.9e-42   1.1e-38       7     429 ..       2     433 ..       1     439 [. 0.84

  Alignments for each domain:
  == domain 1  score: 132.6 bits;  conditional E-value: 1.9e-42
              DDE_Tnp_1_4   7 kkvradfdGgrlsSdaGllLlreldkklgltrrlaaalkdkrkpslveHslekllrqrvyalalGyedlndadkLradpalklalg 92 
                              k+++++ + ++ls ++Gll ++ l ++l+l+++l  ++ + r++     s  + ++ ++++ a G ++l+d +++r++ + ++ + 
  PHY93_14555|PHY93_14555   2 KNIVIEETNKDLSANGGLLFFNSLFERLDLAQKLDFFMPELRRT--RGVSQIDKIKSLLFSFASGSDCLDDLNEIRNESLYAELCS 85 
                              689999999**************************999998888..344566678**************************88887 PP

              DDE_Tnp_1_4  93 kkealASqptlsRlentlaeealkalre.lekalvdkflesyekapkeivlDlDstldpvhGeq.egaafnayykeygyhPLvvFd 176
                                    S+  +  ++  ++ +++ ++r+ l ++ ++  ++  +  +   +l +Dst  +   ++ eg a+n y++  +     ++ 
  PHY93_14555|PHY93_14555  86 ---GGVSARAMGDFLRSFRFNSIDKFRDfLVEQSLQMRMAM-HPDSFDFILNMDSTPHEQDAKKmEGLAWN-YKNMWCLDSQNAY- 165
                              ...33467778889999999999986652233333333333.5566789*******999999883555666.*************. PP

              DDE_Tnp_1_4 177 gltgellaalLRpgnvdsskeaveaLarlvkrirerwpetkilvRgDSafarpellkwceergvdYviglaknsrlealiaelvek 262
                              ++ g   +  LR gn+ s+++++ +++r+ k++ ++ ++   ++RgDSa++r++l++ + +++v++ i l++n  l++++ +l  +
  PHY93_14555|PHY93_14555 166 DQFGFSYDFDLRAGNTFSAEGSEVMVRRVFKKVPKHLKR---YFRGDSAYGRKSLYDELINANVKFTIVLREN--LAKRVRQLLSN 246
                              889999************************888877765...69**************************987..88999999999 PP

              DDE_Tnp_1_4 263 akteaaekkekereyrefayqaes...........WskerrVvakaerpaeglnl.......rfv....vTsla..klspeelyeq 324
                               +  +++k+ + + + +++ +++s            ++ r V ++a+++  +l l        +     +T+l+  ++++e+++ +
  PHY93_14555|PHY93_14555 247 KNSMEWKKT-ELEFFDSTECETASglypikdlaggLKHLRVVFIRAQKKDIQLSLlddlcedGYLhysiITNLEevEMDNEKVI-E 330
                              999999886.46777777777777788888888867777777789999888888777555552226667*****999*******.* PP

              DDE_Tnp_1_4 325 lYcaRGemEnrIKeakldlaadrtsshsfaaNqlrlllsalAynLlaalrelalaktelakaevktlrlkLlkiaarvvrsarrir 410
                              +Y+ RG++En+I+e+k+++++ ++++++++aN++  l+ +lAyn++ +l   + +    +    k++r kL+k+  +vv++ar+++
  PHY93_14555|PHY93_14555 331 FYRGRGNAENFIREQKNGFDFHHFPCQKLDANRVYGLVGTLAYNMTRFLSFFISN----NGCFSKKVRNKLIKLPCQVVHHARKLI 412
                              ************************************************9966655....788889********************* PP

              DDE_Tnp_1_4 411 lklassc..pykdllaealar 429
                              +k+ +++  + +++l  ++++
  PHY93_14555|PHY93_14555 413 IKFNKKIkeVVENILKIMTHK 433
                              **9987522455555555555 PP

>> DDE_Tnp_1  Transposase DDE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.6   0.1   4.5e-19   2.7e-15      38     214 .]     161     375 ..     131     375 .. 0.81

  Alignments for each domain:
  == domain 1  score: 56.6 bits;  conditional E-value: 4.5e-19
                DDE_Tnp_1  38 lhiavdtrsglilsvvitpgnvhdskglkqlldelrpr....kgklvlaDaGYasaelldtleekgvdyiirlkkntklyrk.... 115
                               + a+d+  g+ +++++ +gn+   +g + +++++ +      ++++++D++Y++++l+d+l   +v++ i l+ n ++  +    
  PHY93_14555|PHY93_14555 161 SQNAYDQF-GFSYDFDLRAGNTFSAEGSEVMVRRVFKKvpkhLKRYFRGDSAYGRKSLYDELINANVKFTIVLRENLAKRVRqlls 245
                              57899999.9********************999999999999*******************************7776555553333 PP

                DDE_Tnp_1 116 ..........gaeskrrgrlrkhdrnkiltksqkrrnk......................................skkekgdvyy 153
                                        + e +   ++                                                         ++++ ++++
  PHY93_14555|PHY93_14555 246 nknsmewkktELEFFDSTEC-----------------EtasglypikdlagglkhlrvvfiraqkkdiqlsllddlCEDGYLHYSI 314
                              33222222243333333333.................144455555555555555999999999999999****999999999*** PP

                DDE_Tnp_1 154 vtntnsellsaeevaelyrlRwqiErvFkwlkrkfgldrlryrglnrveaqllllllalnl 214
                              +tn+ + +++ e+v+e+yr R   E+++++ k+ f ++++ + +l++++ + l  +la+n+
  PHY93_14555|PHY93_14555 315 ITNLEEVEMDNEKVIEFYRGRGNAENFIREQKNGFDFHHFPCQKLDANRVYGLVGTLAYNM 375
                              ***********************************************************97 PP

>> UPF0128  Uncharacterised protein family (UPF0128)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   5.3e-06     0.032      50     118 ..     175     244 ..     131     257 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 5.3e-06
                  UPF0128  50 ereeGekyeeegkeyeieevlkelPknakllarieieeGkaylvleleeedkn.levlrvparelllafl 118
                              + ++G++++ eg+e+ + +v k +Pk  k + r +   G+  l+ el + + + + vlr++ ++ + ++l
  PHY93_14555|PHY93_14555 175 DLRAGNTFSAEGSEVMVRRVFKKVPKHLKRYFRGDSAYGRKSLYDELINANVKfTIVLRENLAKRVRQLL 244
                              4679****************************************99988885504567777665555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (440 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       600  (0.0334653); expected 358.6 (0.02)
Passed bias filter:                      398  (0.0221987); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.62u 0.22s 00:00:00.84 Elapsed: 00:00:00.43
# Mc/sec: 3072.04
//
Query:       PHY93_14560|PHY93_14560  [L=218]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-30  106.3   0.0    1.7e-30  105.8   0.0    1.2  1  Lysine_decarbox  Possible lysine decarboxylase
    3.5e-14   52.7   0.0    4.5e-14   52.3   0.0    1.1  1  LDcluster4       SLOG cluster4 family
  ------ inclusion threshold ------
      0.026   13.8   0.0      0.042   13.1   0.0    1.3  1  DNA_processg_A   DNA recombination-mediator protein A
      0.086   13.1   0.3       0.13   12.5   0.3    1.3  1  RNase_Zc3h12a_2  Zc3h12a-like Ribonuclease NYN domain


Domain annotation for each model (and alignments):
>> Lysine_decarbox  Possible lysine decarboxylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  105.8   0.0   3.7e-34   1.7e-30       1     130 [.      75     203 ..      75     205 .. 0.96

  Alignments for each domain:
  == domain 1  score: 105.8 bits;  conditional E-value: 3.7e-34
                              HHHHHHHHHHTTS-EEEEEECCHHH.HHCCTTT-SEEEEESSHHHHHHHHHHHESEEEE-S-SHHHHHHHHHHHHHHHTTSS-S.E CS
          Lysine_decarbox   1 meavakgaleaggrviGiipkilla.eeapneevnelvivedmeeRkealveladafvilPGGiGTleElleiltliqlgkhqkvP 85 
                              mea+++ga ++g+ ++G   +i+l+ e+++n  ++  v++++++ Rk +l+++++af+i PGG+GT++El+e++tliq++k +++P
  PHY93_14560|PHY93_14560  75 MEAANRGARDVGALSVGC--NIILPrEQISNRFLDINVNFRYFFVRKFMLIKYSQAFIISPGGFGTFDELFEVVTLIQTKKIKQFP 158
                              9*****************..*****999********************************************************** PP

                              EEEEEGGGCCHH.HHHHHHHHHHTTSS-GGGGGCEEEESSHHHHHH CS
          Lysine_decarbox  86 iillnpkgyydk.llefletlveegtisekareliivvddpeevle 130
                              iil++ + y+++ l +f++ l +eg is+++++ i + dd +e+ e
  PHY93_14560|PHY93_14560 159 IILFGSD-YWKPfLNDFINVLQKEGAISSEDLSFIYISDDLDEISE 203
                              *****77.***94567***********************9999876 PP

>> LDcluster4  SLOG cluster4 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.3   0.0     1e-17   4.5e-14       4     114 ..      34     143 ..      32     183 .. 0.88

  Alignments for each domain:
  == domain 1  score: 52.3 bits;  conditional E-value: 1e-17
               LDcluster4   4 igVmGsaeteakeealelaeelGrliAkegavlltGgrtGvmeaaskGakeagGltvGilpassekehsnkyvdiiiyTGlglagR 89 
                              ++ +Gsa+ + ++ ++ l+++l+ ++  +g+++ltGg +G+meaa +Ga++ g l+vG      +++ sn+++di +     +  R
  PHY93_14560|PHY93_14560  34 VTFFGSARFDEDHPSYLLTRQLASELGGRGFTILTGGGPGIMEAANRGARDVGALSVGCNIILPREQISNRFLDINVNFRYFFV-R 118
                              6667888866566678899***************************************98888889999**9****99988888.* PP

               LDcluster4  90 nlilvlssdvviaiggrsGTlsEia 114
                               ++l++ s++ i+ +g+ GT  E+ 
  PHY93_14560|PHY93_14560 119 KFMLIKYSQAFIISPGGFGTFDELF 143
                              *********************9974 PP

>> DNA_processg_A  DNA recombination-mediator protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   9.3e-06     0.042      34     114 ..      22     100 ..      19     107 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 9.3e-06
           DNA_processg_A  34 kGnlelle.kravaiVGtRkaseygke..vakklakelaeagitivSGlAlGiDaaahraaleaggktvavlgtgldkiyPken 114
                              kG+  l +  ++v+  G+ +  e++ +  ++++la+el  +g+ti  G+  Gi +aa r+a       v+ l  g ++i P+e+
  PHY93_14560|PHY93_14560  22 KGSYFLSHlGPSVTFFGSARFDEDHPSylLTRQLASELGGRGFTILTGGGPGIMEAANRGAR-----DVGALSVGCNIILPREQ 100
                              55555545556666667666666654311689*********************999999986.....57888888888888876 PP

>> RNase_Zc3h12a_2  Zc3h12a-like Ribonuclease NYN domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.3   2.8e-05      0.13      27     120 ..     119     216 ..      97     218 .] 0.80

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 2.8e-05
          RNase_Zc3h12a_2  27 kvylpkyyedfv.sdcgvskvddlvafqklidldfikf.....iteaenfkwfnvvadladrigavfvssaeyrrrklkieyskas 106
                              k  l ky + f+ s++g    d+l+   +li+ + ik+       + +   ++n   ++ ++ ga+  ss++     +  + +  s
  PHY93_14560|PHY93_14560 119 KFMLIKYSQAFIiSPGGFGTFDELFEVVTLIQTKKIKQfpiilFGSDYWKPFLNDFINVLQKEGAI--SSEDLSFIYISDDLDEIS 202
                              56789*****95499*******************99765653234455566789999999999995..899999999999999999 PP

          RNase_Zc3h12a_2 107 eriitpcflnaddr 120
                              er++     na+d+
  PHY93_14560|PHY93_14560 203 ERVLNFHSKNAEDK 216
                              99999998999886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (218 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       285  (0.015896); expected 358.6 (0.02)
Passed bias filter:                      235  (0.0131073); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1455.67
//
Query:       PHY93_14565|PHY93_14565  [L=164]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.7e-31  108.4  13.9    3.2e-31  108.2  13.9    1.0  1  MgtC      MgtC family
     0.0095   14.5   3.2      0.012   14.2   3.2    1.1  1  FHIPEP    FHIPEP family
  ------ inclusion threshold ------
      0.028   14.5   2.4       0.93    9.6   0.3    2.4  2  DUF5504   Family of unknown function (DUF5504)


Domain annotation for each model (and alignments):
>> MgtC  MgtC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  108.2  13.9   5.3e-35   3.2e-31       1     120 [.      14     139 ..      14     140 .. 0.96

  Alignments for each domain:
  == domain 1  score: 108.2 bits;  conditional E-value: 5.3e-35
                     MgtC   1 LllAlllGlliGleRelrekaaGlRTfaLvalgaalfvllslelae......srvaaqvvsgigflgagvilkekegakvkglTTa 80 
                              +++++++G+++G+eRe ++ +aG++T +Lv++g++lf+++ + l++       r++ q+++g+gflgag+i++ +  +kv glTTa
  PHY93_14565|PHY93_14565  14 MFFSVICGFIVGYERETNGASAGFKTQILVCIGSMLFTVMPTLLVAntttdsVRIIGQIITGVGFLGAGAIMHGQGLDKVIGLTTA 99 
                              6789************************************888887899999********************999999******** PP

                     MgtC  81 aslwvtaaiGllvglglyllavvatvlvllllallreler 120
                              a +w+ aaiG+l+glg+  +a+++t+ +++++++ r++er
  PHY93_14565|PHY93_14565 100 AWIWFIAAIGILIGLGYGPAATFTTISLVVVITVARKIER 139
                              *************************************997 PP

>> FHIPEP  FHIPEP family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.2   3.2   1.9e-06     0.012     184     311 ..      15     152 ..      11     164 .] 0.57

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 1.9e-06
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.......XXXXXXXX.....XXXXXXXXXXXXXXXXXX CS
                   FHIPEP 184 liniigGliiGvlqhgmslsealetYtlLtiGDGLvsqiPaLlisvaa.......giivtrva...seenlgeeivkqllanpkal 259
                              +  +i G+i+G  ++   +s  ++t  l+ iG  L + +P Ll++ ++       g i+t v    +    g+ +  q l++   l
  PHY93_14565|PHY93_14565  15 FFSVICGFIVGYERETNGASAGFKTQILVCIGSMLFTVMPTLLVANTTtdsvriiGQIITGVGflgA----GAIMHGQGLDKVIGL 96 
                              6689****************************************98874555555667777765532....333334444444444 PP

                              XXXXXX..XXXXXXXXXX...XXXXXXXXXXXXXXXXXXXXXXXXXX..........XXX CS
                   FHIPEP 260 liaagv..llllalvpgl...pklvflllaallallayllkkkkkke...ekeeekeeee 311
                              ++aa +  +++++++ gl   p+++f++++++++++  +  ++   +   + e  k+ e+
  PHY93_14565|PHY93_14565  97 TTAAWIwfIAAIGILIGLgygPAATFTTISLVVVITVARKIER---AyfnK-EMPKKIEA 152
                              4444331133344555552225566666665555544444333...22222.11112111 PP

>> DUF5504  Family of unknown function (DUF5504)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.1    0.0052        31      47      75 ..      40      68 ..       9      81 .. 0.83
   2 ?    9.6   0.3   0.00015      0.93       6      58 ..      92     143 ..      88     157 .. 0.72

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.0052
                  DUF5504 47 villlvttmyfsvtpkllkwnekyelvww 75
                              il+ + +m f+v p ll  n   + v  
  PHY93_14565|PHY93_14565 40 QILVCIGSMLFTVMPTLLVANTTTDSVRI 68
                             5899999***********99988777655 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 0.00015
                  DUF5504   6 kiiglrilswvititgliifignvheyglhftynqvlaiiivilllvttmyfs 58 
                              k+igl   +w+  i+++ i+ig  +  +  ft   +  ++i +   +   yf+
  PHY93_14565|PHY93_14565  92 KVIGLTTAAWIWFIAAIGILIGLGYGPAATFTTISL-VVVITVARKIERAYFN 143
                              89********************86655566655444.4444455555666664 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (164 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       952  (0.0530983); expected 358.6 (0.02)
Passed bias filter:                      436  (0.0243181); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.46
# Mc/sec: 1080.54
//
Query:       PHY93_14570|PHY93_14570  [L=145]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    2.7e-10   40.6   0.0    3.9e-10   40.1   0.0    1.3  1  HTH_27      Winged helix DNA-binding domain
    2.2e-06   27.4   0.0    8.1e-06   25.6   0.0    1.8  2  MarR_2      MarR family
    4.6e-05   23.3   0.1    9.3e-05   22.3   0.0    1.6  1  MarR        MarR family
    6.3e-05   22.8   0.0    9.1e-05   22.2   0.0    1.3  1  HxlR        HxlR-like helix-turn-helix
    0.00031   20.7   0.1    0.00049   20.1   0.1    1.3  1  HTH_20      Helix-turn-helix domain
    0.00065   19.8   0.0     0.0011   19.1   0.0    1.3  1  HTH_34      Winged helix DNA-binding domain
     0.0013   18.6   0.1     0.0022   17.8   0.1    1.5  1  HTH_5       Bacterial regulatory protein, arsR family
     0.0041   16.9   0.2      0.034   14.0   0.1    2.2  2  HTH_IclR    IclR helix-turn-helix domain
  ------ inclusion threshold ------
       0.03   14.1   1.1      0.044   13.6   1.1    1.3  1  DNA_pack_N  Probable DNA packing protein, N-terminus
      0.055   13.2   0.1       0.71    9.6   0.0    2.1  2  DUF4423     Domain of unknown function (DUF4423)
      0.065   13.1   0.0        0.5   10.3   0.0    2.0  2  TrmB        Sugar-specific transcriptional regulator TrmB
      0.066   13.2   0.0        3.6    7.6   0.0    2.3  2  HTH_36      Helix-turn-helix domain


Domain annotation for each model (and alignments):
>> HTH_27  Winged helix DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.1   0.0   2.6e-13   3.9e-10       2      68 .]      36     102 ..      35     102 .. 0.97

  Alignments for each domain:
  == domain 1  score: 40.1 bits;  conditional E-value: 2.6e-13
                   HTH_27   2 trqqalvLhlirhrrrrkkladlcgrlnvedshisyslkkLtekGLvertgdeadrrekrvrlTdkG 68 
                               ++qal+L ++  ++r+++  +l+++  +e+s+ s sl+ L++ GL++rt  ++d r  +++lT++G
  PHY93_14570|PHY93_14570  36 HFLQALILTSLFFEDREVRPLELHQTFGIEKSNLSHSLRGLEKLGLLKRTMHPTDARGYCFTLTASG 102
                              579**************************************************************98 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.6   0.0   5.4e-09   8.1e-06       7      62 .]      39      93 ..      33      93 .. 0.89
   2 ?   -0.7   0.0      0.92   1.4e+03      21      36 ..     114     129 ..      96     130 .. 0.71

  Alignments for each domain:
  == domain 1  score: 25.6 bits;  conditional E-value: 5.4e-09
                             HHHHHHHHHCTTTSEEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEEEESSSSSSS CS
                   MarR_2  7 qarvLaaLgrrpgrdltvgelarrlglsksavsrilkrLvaaGLverrpgpeDkRa 62
                             qa +L  L  +++ ++++ el +++g++ks++s  l+ L++ GL+ r+  p+D+R+
  PHY93_14570|PHY93_14570 39 QALILTSLFFEDR-EVRPLELHQTFGIEKSNLSHSLRGLEKLGLLKRTMHPTDARG 93
                             7777777777775.599**************************************7 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.92
                              EEEHHHHHHHHTSSHH CS
                   MarR_2  21 dltvgelarrlglsks 36 
                              d+ +  +++ +g+sk 
  PHY93_14570|PHY93_14570 114 DVFQETIEAIMGVSKT 129
                              5788899999999996 PP

>> MarR  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.3   0.0   6.2e-08   9.3e-05      18      57 ..      53      92 ..      37      94 .. 0.84

  Alignments for each domain:
  == domain 1  score: 22.3 bits;  conditional E-value: 6.2e-08
                             EEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEEETTSTT CS
                     MarR 18 lsvseLakklgvskstvtrvldrLekkGlieRskspeDrR 57
                              +  eL   +g++ks+++  l+ Lek Gl++R+ +p D R
  PHY93_14570|PHY93_14570 53 VRPLELHQTFGIEKSNLSHSLRGLEKLGLLKRTMHPTDAR 92
                             5556888899*****************************9 PP

>> HxlR  HxlR-like helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.2   0.0   6.1e-08   9.1e-05       8      71 ..      40     104 ..      38     124 .. 0.86

  Alignments for each domain:
  == domain 1  score: 22.2 bits;  conditional E-value: 6.1e-08
                              HHHHHHHTT..S-EEHHHHHHHSTTS-HHHHHHHHHHHHHTTSEEEEEESSSS-EEEEEE-TCGGG CS
                     HxlR   8 llilvellk..gkkRfselkralpkisqkmLaqrLreLeqdglierevypevPpkveYsltekGrs 71 
                              +lil++l++   + R  el++++ +i ++ L+++Lr Le+ gl++r++ p+      ++lt+ G++
  PHY93_14570|PHY93_14570  40 ALILTSLFFedREVRPLELHQTF-GIEKSNLSHSLRGLEKLGLLKRTMHPTDARGYCFTLTASGKK 104
                              68999999844566888999999.9***************************************96 PP

>> HTH_20  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.1   0.1   3.3e-07   0.00049      15      57 ..      37      85 ..      33      88 .. 0.87

  Alignments for each domain:
  == domain 1  score: 20.1 bits;  conditional E-value: 3.3e-07
                             HHHHH......STCTTB-HHHHHHHHTS-HHHHHHHHHHHHHCTTEEEE CS
                   HTH_20 15 ilraL......araegltaselaerldlskntlsyHLrvLeeagLvevv 57
                             +l+aL       +++++ + el++++++ k++ls+ Lr Le+ gL++++
  PHY93_14570|PHY93_14570 37 FLQALiltslfFEDREVRPLELHQTFGIEKSNLSHSLRGLEKLGLLKRT 85
                             66677777777888999999**************************986 PP

>> HTH_34  Winged helix DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   7.5e-07    0.0011       5      74 ..      42     111 ..      39     116 .. 0.86

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 7.5e-07
                   HTH_34   5 vlsyLas.vdeadfvelkealeatdgnLsvhlkkLekagYievdkefkgkkprtllriTpeGreafkkyvk 74 
                              +l++L   ++e+ + el ++ ++ ++nLs  l+ Lek g ++++    +  +   +++T  G++++   +k
  PHY93_14570|PHY93_14570  42 ILTSLFFeDREVRPLELHQTFGIEKSNLSHSLRGLEKLGLLKRTMHPTDA-RGYCFTLTASGKKKALTLIK 111
                              55566555999********************************9998887.89999******998776665 PP

>> HTH_5  Bacterial regulatory protein, arsR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.1   1.5e-06    0.0022      15      46 ..      52      83 ..      39      84 .. 0.79

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 1.5e-06
                             SEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEE CS
                    HTH_5 15 elcvcelaeelglsqstvShHLkkLreaGLVe 46
                             e    el   +g+ +s++Sh L+ L+++GL++
  PHY93_14570|PHY93_14570 52 EVRPLELHQTFGIEKSNLSHSLRGLEKLGLLK 83
                             55555788889*******************86 PP

>> HTH_IclR  IclR helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.0   0.1   2.3e-05     0.034      15      50 ..      49      84 ..      40      86 .. 0.89
   2 ?    0.7   0.0      0.31   4.6e+02      30      46 ..      86     102 ..      85     102 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 2.3e-05
                             TBSS-BHHHHHHHHTS-HHHHHHHHHHHHHTTSEE. CS
                 HTH_IclR 15 apqeltlselArrtglpkStvhRlLqtLvelGyveq 50
                             +++e++  el++ +g+ kS+ ++ L+ L++lG++++
  PHY93_14570|PHY93_14570 49 EDREVRPLELHQTFGIEKSNLSHSLRGLEKLGLLKR 84
                             57788999**************************98 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.31
                              S-HHHHHHHHHHHHHTT CS
                 HTH_IclR  30 lpkStvhRlLqtLvelG 46 
                              ++++ +++++ tL+  G
  PHY93_14570|PHY93_14570  86 MHPTDARGYCFTLTASG 102
                              678899*******9765 PP

>> DNA_pack_N  Probable DNA packing protein, N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   1.1   2.9e-05     0.044     110     154 ..       2      45 ..       1      72 [. 0.80

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 2.9e-05
               DNA_pack_N 110 rlasllktsfkdaaeydkkegrlElFqkqlllHatyFlasiklpd 154
                              +++++l++s    ++y +++  lE Fq++l  H+++Fl ++ l  
  PHY93_14570|PHY93_14570   2 KIKKFLSHSIV-YTSYLSQTVILESFQQKLAAHSVHFLQALILTS 45 
                              57889999988.889999********************9877655 PP

>> DUF4423  Domain of unknown function (DUF4423)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   0.0   0.00048      0.71      33      71 ..      49      85 ..      17      89 .. 0.84
   2 ?    2.1   0.0      0.09   1.3e+02     113     158 ..      88     132 ..      85     142 .. 0.78

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.00048
                  DUF4423 33 kdfkadpeelakrlrpkisaeevekalefLlklgllkkd 71
                             +d +  p el + ++  i ++  +++l+ L+klgllk++
  PHY93_14570|PHY93_14570 49 EDREVRPLELHQTFG--IEKSNLSHSLRGLEKLGLLKRT 85
                             45567899999****..********************96 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.09
                  DUF4423 113 pkeeRdissltlaiskedyekikkeirefrkkilaiaeeskeaerV 158
                              p++ R ++++  a  k++   + ke + f++ i ai+  sk  ++V
  PHY93_14570|PHY93_14570  88 PTDARGYCFTLTASGKKKALTLIKEFDVFQETIEAIMGVSKT-NDV 132
                              777888887777777888888888999999999999999998.444 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0   0.00033       0.5      21      55 ..      51      85 ..      39      89 .. 0.85
   2 ?    0.5   0.0      0.38   5.7e+02      10      42 ..      90     123 ..      86     133 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00033
                             CCCHHCHHCCCTTSSCHCHHHHHHHHHHCTSEEEE CS
                     TrmB 21 gpatadeiaeelgvprskvYevLrsLedkGlVere 55
                              + +  e+++  g+++s+   +Lr Le+ Gl +r 
  PHY93_14570|PHY93_14570 51 REVRPLELHQTFGIEKSNLSHSLRGLEKLGLLKRT 85
                             566778999**********************9885 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.38
                              CCCHC.HHHHHHCCCHHCHHCCCTTSSCHCHHHH CS
                     TrmB  10 EakvY.laLlklgpatadeiaeelgvprskvYev 42 
                              +a+ Y ++L ++g+++a ++ +e +v + ++  +
  PHY93_14570|PHY93_14570  90 DARGYcFTLTASGKKKALTLIKEFDVFQETIEAI 123
                              6666634566999999999999999888877655 PP

>> HTH_36  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.3   0.0     0.056        83      34      55 .]      61      82 ..      57      82 .. 0.86
   2 ?    7.6   0.0    0.0024       3.6      20      49 ..      91     139 ..      86     140 .. 0.81

  Alignments for each domain:
  == domain 1  score: 3.3 bits;  conditional E-value: 0.056
                   HTH_36 34 rlglsknTvsraikeLeqlGyi 55
                              +g+ k+  s  ++ Le+lG++
  PHY93_14570|PHY93_14570 61 TFGIEKSNLSHSLRGLEKLGLL 82
                             56899999999*********97 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0024
                   HTH_36  20 knggcfps..................qetlakrlgls.knTvsraikeL 49 
                               +g+cf                    qet+ + +g+s  n v++  + L
  PHY93_14570|PHY93_14570  91 ARGYCFTLtasgkkkaltlikefdvfQETIEAIMGVSkTNDVVKGMQTL 139
                              45669985577999999999999999***********888999877766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (145 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       481  (0.026828); expected 358.6 (0.02)
Passed bias filter:                      352  (0.019633); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 970.94
//
Query:       PHY93_14575|PHY93_14575  [L=319]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    9.1e-17   61.0   0.0    2.2e-16   59.8   0.0    1.6  1  BATS         Biotin and Thiamin Synthesis associated domain
    5.1e-15   56.3   0.1      8e-15   55.6   0.1    1.3  1  Radical_SAM  Radical SAM superfamily


Domain annotation for each model (and alignments):
>> BATS  Biotin and Thiamin Synthesis associated domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.8   0.0   2.4e-20   2.2e-16       2      85 ..     219     308 ..     218     309 .. 0.98

  Alignments for each domain:
  == domain 1  score: 59.8 bits;  conditional E-value: 2.4e-20
                              --B----TCCCC...........HHHHHHHHHHSTTSE.CCCTCHH-HHHHHH.HHHCCT--EEE-C---TTTGGGSESSTT-TCC CS
                     BATS   2 iprlrpikdtpl...........lkiiaalRlllPkag.illsgResaefrdq.lllklGansisagsktevggyaflttdgrsle 74 
                              i++l+  k+tpl           +++ia++R+l P+++ +l++gR+s + + q l++  Gansi+ g+k       +lt+++ +++
  PHY93_14575|PHY93_14575 219 INMLVRTKGTPLenvapidpldiVRTIATIRILAPRSMiRLSAGRTSLSSEAQfLCFISGANSIFLGDK-------LLTSPNPDFS 297
                              89******************************************************************9.......********** PP

                              CCHHHHHHTT- CS
                     BATS  75 edvkmleelGl 85 
                              ed ++le+ Gl
  PHY93_14575|PHY93_14575 298 EDQQLLEKCGL 308
                              ********997 PP

>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.6   0.1   8.9e-19     8e-15       4     165 ..      47     205 ..      44     207 .. 0.86

  Alignments for each domain:
  == domain 1  score: 55.6 bits;  conditional E-value: 8.9e-19
                              ESEESS--TTTSCCTT.HHHHHHHHHHHHHHHHHHHHHHHHHTTSEEEEEESSTGGGS..TTHHHHHHHHHHTCCCTEEEEEEECS CS
                              xxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM   4 trgCnlrCsfCarpet.vrregrgrslsveeileevkelkaekgvkevilgggeplly..pdfvellerlaklavpgiritvetng 86 
                              t gC+ +C++C+++ +      ++  l+++e+++ + ++ +e+g++ + +g      +   +f +  e  ++  v+++++ v +  
  PHY93_14575|PHY93_14575  47 TGGCPENCTYCPQSAHyNTGVSKSSLLTKDEVIQAALKA-KEMGANRFCMGAAWREIRdgVEFDQVCELVSA--VSNLNLEVCCTL 129
                              78*************98888889999*************.7**********665555411555555555555..599999999999 PP

                              SCHGHHHHHHHHHTT-SEEEEEEBSSSHHHHHHHHTCTSHHHHHHHHHHHHHHTTSETEEEEEEEBTTTSHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM  87 tlpdeeklerllelgvdrvslgleaaddekvlklmnrghtfeevlealeklreagikrvvdrivglpGendeeleelle 165
                              ++++  ++++l+ +g+d +++++++  ++ + k++  + t++++le+l + r+a++k ++++ +++ Ge+d+++  +++
  PHY93_14575|PHY93_14575 130 GMLTGTQARKLKSAGLDFYNHNIDTSPEF-YDKIV-QTRTYSDRLETLLRVRQANLK-ICTGGILGMGESDHDRMSFIQ 205
                              9999*************************.*****.99*******************.788888888899999877765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (319 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       520  (0.0290033); expected 358.6 (0.02)
Passed bias filter:                      438  (0.0244297); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.25s 00:00:00.82 Elapsed: 00:00:00.45
# Mc/sec: 2113.73
//
Query:       PHY93_14580|PHY93_14580  [L=362]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-39  136.5   0.1    1.5e-39  136.2   0.1    1.0  1  Aminotran_1_2    Aminotransferase class I and II
    5.9e-06   25.1   0.1    1.3e-05   24.0   0.1    1.5  1  Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
     0.0022   16.7   0.1     0.0027   16.3   0.1    1.2  1  SHMT             Serine hydroxymethyltransferase
     0.0046   15.7   0.0     0.0076   15.0   0.0    1.3  1  SepSecS          O-phosphoseryl-tRNA(Sec) selenium transferas
  ------ inclusion threshold ------
      0.011   14.7   0.0      0.018   14.0   0.0    1.3  1  Aminotran_5      Aminotransferase class-V
      0.024   13.3   0.1      0.037   12.7   0.1    1.5  1  Aminotran_3      Aminotransferase class-III
      0.035   14.2   0.1      0.075   13.2   0.1    1.6  1  PRE_C2HC         Associated with zinc fingers
      0.039   12.7   0.0       0.56    8.9   0.0    2.0  1  OKR_DC_1         Orn/Lys/Arg decarboxylase, major domain
      0.057   12.9   0.4        2.8    7.3   0.1    2.2  2  Exo5             Exonuclease V - a 5' deoxyribonuclease
       0.11   12.3   0.0        0.3   10.9   0.0    1.8  1  DUF5609          Domain of unknown function (DUF5609)


Domain annotation for each model (and alignments):
>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  136.2   0.1   8.3e-43   1.5e-39       4     351 ..      26     347 ..      24     358 .. 0.83

  Alignments for each domain:
  == domain 1  score: 136.2 bits;  conditional E-value: 8.3e-43
                              EESSSSSTTSTTSSHHHHHHHHHHHHHHHHHTSTTST-BTTHHHHHHHHHHHHHCTCTTCHTTGGEGEEEESHHHHHHHHHHHHHH CS
            Aminotran_1_2   4 inLgsneylgdsgkptlpevakaekegalaggtlneygpidglpeleealakflgrseklklkreaavvvgsGagaliealifllk 89 
                              i++++n+ylg  ++  +   + ++k ga+a++ +  +   + + e e+ l + ++      ++    + +gsG+ a+i ++ +l++
  PHY93_14580|PHY93_14580  26 IDFCTNDYLGFIRSDKISPLLFTAKSGAGASRLIPGFH--EAAIETENFLSQVYN------IDS--VLFFGSGYLANIGIIQALAN 101
                              78888888888777444444555555444444444444..444788888888888......444..5999********99999995 PP

                              HTTT-EEEEEESS-THHHHHHHHTTSEEEEEEBEETTTTEE-HHHHHHHHTTHHCTTETEEEEEEESS-TTT--B--HHHHHHHHH CS
            Aminotran_1_2  90 lnpgdeilvpdptyasyknilrlsggevvryplyseedfhldlealeealkeapegnkktkvilvesphNPtGtvatleeleklld 175
                                 ++e+++++ ++as++++ +l +++ + ++       h++l +lee lk+  +   k k++++es+++++G+ ++l+el kl  
  PHY93_14580|PHY93_14580 102 --EDTEFFSDEFNHASIIDGMKLVKSKKQIFR-------HNNLSHLEEILKKSFS---KQKCVITESIFSMDGDSPDLKELIKL-- 173
                              ..******************************.......************9443...467***********************.. PP

                              HHHHTTEEEEEEETTTTCBSSSSHTHHHHGGSTTSTT.....EEEEEESSSTTSSGGG-EEEEEEEHHHHHHHHHHHHHHTSSHHH CS
            Aminotran_1_2 176 lakkynlllfvDeaYagfvfgsldavatranveeepn.....llivgslsKafGlaGeRvGyilgnaavvsqlrklsrpflsssll 256
                               ++ky ++l+vDea+a++v g+ +     ++++e+       ++iv +++Ka G++G   +++++ + +++ l + +r++++s++l
  PHY93_14580|PHY93_14580 174 -CEKYDAFLVVDEAHATGVVGKNG-----LGLMEDFQynkekTIIVHTCGKAIGCYG---AFVISGKIIRELLINKARTLIYSTAL 250
                              .********************553.....44444444445568**************...************************** PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSTEEEECCSCSSEEEEEETHHCHHHHHHHHHHTCTEEEEEGGGGTS.. CS
            Aminotran_1_2 257 qaavaaalsdallkqseleemrqrlqkrrkelrdeLaelglkvlasqsgmflltdlsaetakelskkLleevgvyvtpgtsftv.. 340
                              ++++ + ++ a  +  +    r +++++ ++ +++++++ lk  +s++ ++ +   ++    ++ ++L e+ g++v  ++++ v  
  PHY93_14580|PHY93_14580 251 SPYIFKQIHFAINEVIKSGHLRTQIATNIQYAKEQFKKKHLKLSGSHISYIEFLNSNKC-PIQIEQQLKEK-GLNVKGIRYPSVpk 334
                              ************9999**********************9****9997777777555544.56777778888.************** PP

                              .TTEEEEEC.TTS CS
            Aminotran_1_2 341 .pgrlRitv.Agl 351
                               ++rlRit+ +  
  PHY93_14580|PHY93_14580 335 gQERLRITIkSFN 347
                              *9******95544 PP

>> Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.0   0.1     7e-09   1.3e-05      58     185 ..      70     197 ..      65     244 .. 0.85

  Alignments for each domain:
  == domain 1  score: 24.0 bits;  conditional E-value: 7e-09
                              HHHHHHHHT-SEEEEESSHHHHHHHHHHTTS-TTEEEEEESTSSHHHHHHHHHTHHHTTCEEEEESTTSHHHHHHHCCTTEEEEEE CS
          Cys_Met_Meta_PP  58 eeriaaLeggeaalavssGmaAiaaailallkaGdeivvsddlYggtqrllkkvlkklgievkfvdtsdleelekaikentklvyl 143
                              e+ ++++++ +++l + sG  A   +i+al+++ +e  +++  + +  + +k v +k +i +++ + s+lee+ k+  ++ k+v +
  PHY93_14580|PHY93_14580  70 ENFLSQVYNIDSVLFFGSGYLANIGIIQALANEDTEFFSDEFNHASIIDGMKLVKSKKQI-FRHNNLSHLEEILKKSFSKQKCVIT 154
                              5567888899999**********9*************99999999999999999999887.68899******************** PP

                              ESS-TTTT----HHHHHHHHHHTT-EEEEEGTTTHTTT.S-GG CS
          Cys_Met_Meta_PP 144 EtptnpllkvvDiekiaklakkagvlvvvDntfaspll.qrpl 185
                              E++ +   + +D+++++kl+ k ++ +vvD + a++++  + l
  PHY93_14580|PHY93_14580 155 ESIFSMDGDSPDLKELIKLCEKYDAFLVVDEAHATGVVgKNGL 197
                              ************************************6514455 PP

>> SHMT  Serine hydroxymethyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.1   1.5e-06    0.0027     177     293 ..     158     285 ..     112     324 .. 0.72

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 1.5e-06
                              -SST-S---HHHHHHHHHHTT-EEEEE-GGGHHHHHTTS..S--GCCTSSEEEEESSST..T-S-S-EEEEEC-SEEEEE.TTTEE CS
                     SHMT 177 tsaysrlidyarlreiadevgayllvdmahiaGlvaagv..ipsPfeyadvvtttthkt..lrGprgglillrkgvksvd.ktgke 257
                              +s      d + l +++++ +a+l+vd ah +G+v  +     + f+y +  t   h      G+ g+++++ k ++++  +++++
  PHY93_14580|PHY93_14580 158 FSMDGDSPDLKELIKLCEKYDAFLVVDEAHATGVVGKNGlgLMEDFQYNKEKTIIVHTCgkAIGCYGAFVISGKIIRELLiNKART 243
                              455556678899999********************97651256899998765555554311359*************986666666 PP

                              EEHH......HHHHHHHHHTTTT-SS--HHHHHHHHHHHHHC CS
                     SHMT 258 vlee......lekkinsavfPglqGGPlnhviaakavalkea 293
                                +       + k+i +a+   ++ G l   ia+     ke 
  PHY93_14580|PHY93_14580 244 LIYStalspyIFKQIHFAINEVIKSGHLRTQIATNIQYAKEQ 285
                              655422222245888999988888888888887765554544 PP

>> SepSecS  O-phosphoseryl-tRNA(Sec) selenium transferase, SepSecS
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   4.2e-06    0.0076     141     195 ..     135     188 ..     120     197 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 4.2e-06
                              HHHHHHHHHCCTCCCEEEEEECSST.TTTB----HHHHHHHHHCCT--EEEEGCCC CS
                  SepSecS 141 vedveeiiekkreevilavlstlsf.faprspDdvkeiakiCaeydvPhlvNgAYa 195
                              ++  eei++k  +    +v++   f   + spD +ke+ k+C++yd  ++v  A a
  PHY93_14580|PHY93_14580 135 LSHLEEILKKSFSK-QKCVITESIFsMDGDSPD-LKELIKLCEKYDAFLVVDEAHA 188
                              56678888886666.677777766515688888.******************9987 PP

>> Aminotran_5  Aminotransferase class-V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0     1e-05     0.018     113     180 ..     119     189 ..      50     193 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1e-05
                              TEEEEEEEBETTSCBEGGGHHHH--...TTEEEEEEESBETTTTEB--HHHHHHHHHHTT-EEEEE-TTTT CS
              Aminotran_5 113 gakvkvipldeegeldldeleklln...ektklvaithvsnvtGtiqpveeigklakkkgalvlvDaaqav 180
                              g+k+++ +++   + +l++le+ l+    k k v+   + ++ G   +++e++kl+ k++a+++vD a a 
  PHY93_14580|PHY93_14580 119 GMKLVKSKKQIFRHNNLSHLEEILKksfSKQKCVITESIFSMDGDSPDLKELIKLCEKYDAFLVVDEAHAT 189
                              55555555555556666666666642237899**********************************99876 PP

>> Aminotran_3  Aminotransferase class-III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   2.1e-05     0.037     180     242 ..     136     196 ..      97     332 .. 0.69

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 2.1e-05
                              HHHHHHHCHTCCCEEEEEE-SCETTTTSEB--CCHHHHHHHHHHHHT-EEEEE-T.TTTT.TTTS CS
              Aminotran_3 180 eelealekkkkdevaAvivEpiqgegGvvvaspeflaklrelckkhdvllivDEv.qtGf.GrTG 242
                                le++ kk+  +   vi+E i +  G+ +     l++l +lc+k+d++l+vDE  +tG+ G  G
  PHY93_14580|PHY93_14580 136 SHLEEILKKSFSKQKCVITESIFSMDGDSPD----LKELIKLCEKYDAFLVVDEAhATGVvGKNG 196
                              3333333555555567999999999998776....788999*************84688778777 PP

>> PRE_C2HC  Associated with zinc fingers
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.1   4.2e-05     0.075       3      32 ..     312     341 ..     310     360 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 4.2e-05
                 PRE_C2HC   3 qIeeaLkkhgfevknihnmrkrntktPqnm 32 
                              qIe++Lk++g++vk i+ +  +++++++++
  PHY93_14580|PHY93_14580 312 QIEQQLKEKGLNVKGIRYPSVPKGQERLRI 341
                              9*********************99999987 PP

>> OKR_DC_1  Orn/Lys/Arg decarboxylase, major domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   0.0   0.00031      0.56     155     207 ..     137     188 ..      61     193 .. 0.71

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.00031
                              HHHHHHHHSTTTGSESEEEEESS-T..TSEEE-HHHHHHHHTTSESEEEEE-TT- CS
                 OKR_DC_1 155 tlkekikevpdakaprlavitnsTY..dGvlynakeivdkleklsdrilfDeAwv 207
                               l+e +k++ ++   + +vit s +  dG + ++ke++++ ek++  + +DeA+ 
  PHY93_14580|PHY93_14580 137 HLEEILKKSFSK---QKCVITESIFsmDGDSPDLKELIKLCEKYDAFLVVDEAHA 188
                              233333333333...4599999976559*************************96 PP

>> Exo5  Exonuclease V - a 5' deoxyribonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.6   0.0     0.021        38      81      99 ..       4      22 ..       1      29 [. 0.87
   2 ?    7.3   0.1    0.0016       2.8     209     293 ..      68     151 ..      56     164 .. 0.70

  Alignments for each domain:
  == domain 1  score: 3.6 bits;  conditional E-value: 0.021
                     Exo5 81 viqgLrtLretGltRElev 99
                             +i++L++Lre+Gl RE+  
  PHY93_14580|PHY93_14580  4 MISELNSLREQGLYREITT 22
                             899*************975 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.0016
                     Exo5 209 diesvfer.ydldpdepfsdaflaqigkledevfeeldseaeseseeeeeveassssqdslsellkyntLssllkllkkelaltfl 293
                              + e+++++ y++d    f   +la+ig ++   +e+++    s++ ++++  +  +  +s++++ ++n+Ls+l ++lkk +++   
  PHY93_14580|PHY93_14580  68 ETENFLSQvYNIDSVLFFGSGYLANIGIIQALANEDTEF--FSDEFNHASIIDGMKLVKSKKQIFRHNNLSHLEEILKKSFSKQKC 151
                              555555442799999999999****99999544444333..33333334444556667777899**************99988764 PP

>> DUF5609  Domain of unknown function (DUF5609)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   0.00017       0.3       1      27 [.     239     265 ..     239     267 .. 0.91

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00017
                  DUF5609   1 rkaswlvYgrsltkdkleqlqeklgea 27 
                              +ka +l+Y+ +l+++ ++q+ +++ e 
  PHY93_14580|PHY93_14580 239 NKARTLIYSTALSPYIFKQIHFAINEV 265
                              699*******************99885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (362 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       663  (0.0369792); expected 358.6 (0.02)
Passed bias filter:                      429  (0.0239277); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.66u 0.27s 00:00:00.93 Elapsed: 00:00:00.47
# Mc/sec: 2312.71
//
Query:       PHY93_14585|PHY93_14585  [L=200]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.9e-47  161.7   0.0    2.1e-47  161.5   0.0    1.0  1  AAA_26    AAA domain
     0.0012   18.9   0.2      0.004   17.2   0.2    1.8  1  CbiA      CobQ/CobB/MinD/ParA nucleotide binding domain


Domain annotation for each model (and alignments):
>> AAA_26  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  161.5   0.0   2.4e-51   2.1e-47       2     197 ..       2     188 ..       1     189 [. 0.95

  Alignments for each domain:
  == domain 1  score: 161.5 bits;  conditional E-value: 2.4e-51
                   AAA_26   2 tifvtgtdtgvGKTvvslgLvralkrkgvkvgyfKPiqtgieededselikellgldqtyelpeplalsaplspelaarqegedid 87 
                              +if+tgtdt+vGKT++s++L+ +l     + +y+KPiq g++e +ds+++k+++g+d      e++ l +plsp+laar+++++i+
  PHY93_14585|PHY93_14585   2 NIFITGTDTNVGKTLISTILALKL-----NYKYWKPIQCGLSEMSDSDWVKQYIGNDRIQ--KETYSLRDPLSPHLAARNDNQEIH 80 
                              69**********************.....*************************988555..599********************* PP

                   AAA_26  88 lekivkelekdadivvVEGagglgvpiteellnadiaknlgapvilVargglgtinqllltiealrqknvrvlGvilNkvrnpenv 173
                              l ki+++ +   d +++EGaggl+vp+++++  +d++ + ++++ilVar++lgtin++ll+ieal+++n+ ++Gv++ + +n++n 
  PHY93_14585|PHY93_14585  81 LHKIINQFP--VDKTIIEGAGGLLVPLNAKEYLIDLIPKDKCKIILVARSTLGTINHTLLSIEALKNRNLDLWGVVMMGNKNHDNK 164
                              ****77777..5669****************************************************************9999*** PP

                   AAA_26 174 etlekksgipvlGvvPylpdleap 197
                               ++e ++++ vl+++P  ++++++
  PHY93_14585|PHY93_14585 165 LAIEWYGKTMVLAEIPFVKKINKE 188
                              *****************9998875 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.2   4.5e-07     0.004       1     120 [.       3     187 ..       3     192 .. 0.74

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 4.5e-07
                              EEEEESSTTSSHHHHHHHHHHHHHHTT--EEEEEEEESSCCCCHHTTEB-HHHH................................ CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx................................ RF
                     CbiA   1 iaiastkGGvGKTtlaanLaralarrglrVllvDaDpqannlaileglendiep................................ 54 
                              i+i++t  +vGKT +++ La  l+   +   ++ ++    +++  ++++++i +                                
  PHY93_14585|PHY93_14585   3 IFITGTDTNVGKTLISTILALKLNY--KYWKPIQCGLSEMSDS--DWVKQYIGNdriqketyslrdplsphlaarndnqeihlhki 84 
                              78*********************99..5556888888766665..67777777777778889999999999999999999999999 PP

                              ...............................................CCHCCCHHHHHHCHCHHHH..EEEEEEEEESS...-TTC CS
                              ...............................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     CbiA  55 ...............................................dlkrllellealgkkkalllkiagvvlnrvdgeneetll 93 
                                                                             ++   l ++eal+++   +l++ gvv    +++n++++l
  PHY93_14585|PHY93_14585  85 inqfpvdktiiegaggllvplnakeylidlipkdkckiilvarstlgTINHTLLSIEALKNR---NLDLWGVVM--MGNKNHDNKL 165
                              99999999999999999999999999999999988888887666444444444444444444...355555554..4555445544 PP

                              HHHHHHHHHHCTS-EEEEEE--CCHCC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     CbiA  94 kealeelkqrygvpvlgviprdeavae 120
                                a+e +    +  vl++ip+++++++
  PHY93_14585|PHY93_14585 166 --AIEWYG---KTMVLAEIPFVKKINK 187
                              ..444444...7788888888888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (200 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       426  (0.0237604); expected 358.6 (0.02)
Passed bias filter:                      352  (0.019633); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.26s 00:00:00.73 Elapsed: 00:00:00.43
# Mc/sec: 1399.03
//
Query:       PHY93_14590|PHY93_14590  [L=180]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
     0.0019   18.6   2.2     0.0059   17.0   2.0    2.1  1  Rubrerythrin  Rubrerythrin


Domain annotation for each model (and alignments):
>> Rubrerythrin  Rubrerythrin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   2.0   3.3e-07    0.0059      13     135 ..      25     155 ..      16     157 .. 0.74

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 3.3e-07
                              HHHHHHHHHHCHH.TT-HHHHHHHHHHHHHHHHHHHHHHHHHHHCSTTHH.B.SSBBS-------TTGGHHHHHH..........H CS
             Rubrerythrin  13 arrlYkelaekak.egypqiaelFeelAeeEreHakilnklleklepelelevkekvreyaeakpkflttaknLe..........e 87 
                               +  Y+ + + ++ ++ ++i + ++    eE +Ha il+kl  k+ + +   ++ek+    +  +k+ +++ +Le          +
  PHY93_14590|PHY93_14590  25 SYLEYRGFRKIVRsQSTEEITKEILLHVNEEVKHALILKKLAIKIGGINFSHYSEKTMLSGQNLKKY-FYNLDLEiskhassnlyQ 109
                              5667999**********************************99987655555555554444444433.344444444666655557 PP

                              HHHHHHH.HHHCHHHHHHHHHHHTTSHHHHHHHHHHHHHHHHHHHHHHH CS
             Rubrerythrin  88 aiegaya.eeeemyrfyeelaekegneeakklfkklaeaEkkHeerlrk 135
                              a+ + ++ +  ++yr ye l++    +++  +++ ++++E+kH + + +
  PHY93_14590|PHY93_14590 110 AVTLTIElRALKIYRAYETLLQA---SQEGITIQVIIDDEEKHLDQFLN 155
                              77776652667899******994...455689*************9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (180 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       728  (0.0406046); expected 358.6 (0.02)
Passed bias filter:                      391  (0.0218082); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 1212.43
//
Query:       PHY93_14595|PHY93_14595  [L=422]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   1.3e-101  340.3   0.1   1.5e-101  340.0   0.1    1.0  1  Aminotran_3      Aminotransferase class-III
     0.0054   16.1   0.0     0.0095   15.3   0.0    1.3  1  Beta_elim_lyase  Beta-eliminating lyase
  ------ inclusion threshold ------
      0.046   12.9   0.0      0.074   12.2   0.0    1.4  1  Aminotran_1_2    Aminotransferase class I and II
       0.14   12.2   0.0       0.42   10.7   0.0    1.9  1  DUF3042          Protein of unknown function (DUF3042)


Domain annotation for each model (and alignments):
>> Aminotran_3  Aminotransferase class-III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  340.0   0.1  3.3e-105  1.5e-101      10     404 ..      20     417 ..      11     419 .. 0.96

  Alignments for each domain:
  == domain 1  score: 340.0 bits;  conditional E-value: 3.3e-105
                              CEEEEEEEBTEEEETTS-EEEESSHHHHTTTT-BT-HHHHHHHHHHHTT-S---TTTCEEHHHHHHHHHHHHHCT-..SEEEEESS CS
              Aminotran_3  10 llvitkaeGvyltdvdgkrylDlvssiavvnlGhahPkvvkavkeqaaklshvsfgaltnepalklaekllklapkgldkvflans 95 
                              +l ++ aeG+y+  + g+++ D +ss++ +n+Gha+ ++++a+++qa+k++ v f+++t+epa++l e l   +pk+l+ vf+ ++
  PHY93_14595|PHY93_14595  20 PLPVKDAEGAYINLKCGRKIFDGISSWWLINHGHANQEITEAISSQAKKIEQVVFANFTHEPAEELIELLGTFLPKSLSSVFFSDN 105
                              4899********************************************************************************** PP

                              HHHHHHHHHHHHHHHHHHTSHCTT-EEEEETTT---SSHHHHHHSS--TTTTTTCTTB-TSEEEE-TTBGGGTB-HHHHHHHHHHH CS
              Aminotran_3  96 GseAvetAlKlarkyarekkatektkiiafkgafHGrtlgalsvtgskkkyktlfgpflpevvrlkypdeevlkeneeeeaallee 181
                              Gs Ave+A+K+a +y+++ ++ +++k+i+f++a+HG+t ga+sv+++ +   + +g++  ev ++k+ +        +  +   + 
  PHY93_14595|PHY93_14595 106 GSTAVEVAMKMAYQYQVQSGRSNREKFITFEKAYHGDTCGAMSVSAH-SVFTNPYGKMRFEVLHAKQGCYLS-----DPIDNWVND 185
                              ***********************************************.********************8555.....556669999 PP

                              HHHHHCHTCCCEEEEEE-S.CETTTTSEB--CCHHHHHHHHHHHHT-EEEEE-TTTTTTTTSSSSGGGGCTS--SEEEE-GGGGTT CS
              Aminotran_3 182 lealekkkkdevaAvivEp.iqgegGvvvaspeflaklrelckkhdvllivDEvqtGfGrTGklfAlehagvspDlmtlaKaltgG 266
                              +e+++++++de++Avi+Ep iqg+gG+v+ + + ++ + + +k++++l+i+DEv+tGfGrTG +fA e+  v pD+++l+K+ltgG
  PHY93_14595|PHY93_14595 186 FEKIIQTHSDEICAVILEPlIQGAGGMVMWPVKAIEIISQRAKENNILVIFDEVMTGFGRTGSMFAFEQTLVIPDFLCLSKGLTGG 271
                              ************************************************************************************** PP

                              .SS-EEEEEEHHHHTTS-TTS......B--TTTT-HHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHCTT-TTEEEEEEET CS
              Aminotran_3 267 .lplsavlataevmqalapgs......hgsTfgGnplacavalavleiieeekllenaqelgaalkegLeelqkkyevikevRgkG 345
                               lp+  +++t+++ +a+ ++s      hg++f+Gn l ca+++a l+++++ +  + +q +++a k+ Le+ + +   ikevR  G
  PHY93_14595|PHY93_14595 272 fLPMGLTITTEQIFDAFLNDSaekmffHGHSFTGNALSCAASVANLKLFQKMNIKKIIQPIEEAHKAFLEKCSRRL-AIKEVRVCG 356
                              *****************99999***************************************************998.********* PP

                              TEEEEEEBCCCETTC...HHHHHHHHHCTEE-EEETTTEEEE---TT--HHHHHHHHHHHHH CS
              Aminotran_3 346 lmiaielkeeaevke...keilkkakekGvlilsaGdnvirllppliitdeeidelleilkk 404
                               ++++el  + +  +   +++ + a ++ + ++++G nvi+l+pp++ t++ei+   ei+++
  PHY93_14595|PHY93_14595 357 SIGVLELNMDYQYGNnfsQKMHQLAINENLFVRPLG-NVIYLMPPFCSTSQEIERSWEIIEN 417
                              *********99976688889999999**********.*******************999987 PP

>> Beta_elim_lyase  Beta-eliminating lyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   2.1e-06    0.0095      52     167 ..     102     237 ..      94     239 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 2.1e-06
                              EES-HHHHHHHHH......HHH-.-TTEEEEEETT-HHHHSSTTHHHHCC--EEEEE-EBTT...............TBE-HHHHH CS
          Beta_elim_lyase  52 fvpqGtaAnsill......kill.qrgeevivtepahihfdetgaiaelagvklrdlknkea...............Gkmdlekle 115
                              f  +G  A ++++      ++   +++ e+++t +  +h d++ga+++ a + +++ ++k                  +  ++++e
  PHY93_14595|PHY93_14595 102 FSDNGSTAVEVAMkmayqyQVQSgRSNREKFITFEKAYHGDTCGAMSVSAHSVFTNPYGKMRfevlhakqgcylsdpIDNWVNDFE 187
                              55566666666663333222222234455666666889999****99999998999999999999999**9999977666799999 PP

                              HHS--S-TTS-EEEEEEEESSBTTTTTB--.-HHHHHHHHHHHHHCT-EEEEE CS
          Beta_elim_lyase 116 aaikevgaheekiklisltvTnntagGqvv.sleelrevaaiakkygiplhlD 167
                              ++i+    h+++i +++l+  ++ agG v+ +++ ++ +++ ak+++i +++D
  PHY93_14595|PHY93_14595 188 KIIQT---HSDEICAVILEPLIQGAGGMVMwPVKAIEIISQRAKENNILVIFD 237
                              99999...999****************985499*****************999 PP

>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   1.7e-05     0.074     126     201 ..     180     251 ..     162     394 .. 0.62

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 1.7e-05
                              TTTEE-HHHHHHHHTTHHCTTETEEEEEEESS-TTT-..-B--HHHHHHHHHHHHHTTEEEEEEETTTTCBSSSSHTH CS
            Aminotran_1_2 126 edfhldlealeealkeapegnkktkvilvesphNPtG..tvatleeleklldlakkynlllfvDeaYagfvfgsldav 201
                              +++ +d+e++++  ++      +++ +++e      G  ++++ + +e + + ak++n+l+++De+  gf  + + ++
  PHY93_14595|PHY93_14595 180 DNWVNDFEKIIQTHSD------EICAVILEPLIQGAGgmVMWPVKAIEIISQRAKENNILVIFDEVMTGFGRTGSMFA 251
                              7888888888886666......5577777766665553346899*************************999976432 PP

>> DUF3042  Protein of unknown function (DUF3042)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   9.4e-05      0.42       4      43 ..     297     341 ..     294     349 .. 0.73

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 9.4e-05
                  DUF3042   4 FlkGf.lvGvlatiaavagavfvfK....kkviePiEekeakiee 43 
                              F+ G  ++G+++ +aa ++ +  f     kk+i+PiEe  +++ e
  PHY93_14595|PHY93_14595 297 FFHGHsFTGNALSCAASVANLKLFQkmniKKIIQPIEEAHKAFLE 341
                              6666437899999999999999998344459*******7666644 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (422 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       755  (0.0421105); expected 358.6 (0.02)
Passed bias filter:                      636  (0.0354733); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.67u 0.28s 00:00:00.95 Elapsed: 00:00:00.47
# Mc/sec: 2724.54
//
Query:       PHY93_17080|PHY93_17080  [L=771]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.7e-47  160.3  43.3    1.3e-17   64.3   8.2    3.9  4  Laminin_G_3     Concanavalin A-like lectin/glucanases superfa
    3.4e-08   34.1   0.5     0.0059   17.2   0.0    3.4  3  Laminin_G_2     Laminin G domain
     0.0037   17.0   4.6       0.14   11.8   0.3    3.5  3  Toxin_R_bind_N  Clostridium neurotoxin, N-terminal receptor b
  ------ inclusion threshold ------
       0.02   13.4   0.1      0.035   12.6   0.1    1.3  1  Phlebovirus_G2  Phlebovirus glycoprotein G2
      0.058   12.9   0.0        0.1   12.0   0.0    1.4  1  CutC            CutC family
      0.061   13.2   0.4       0.13   12.1   0.4    1.6  1  Polysacc_lyase  Polysaccharide lyase
      0.075   12.5   2.4       0.64    9.5   0.2    2.6  3  Sialidase       Sialidase, N-terminal domain


Domain annotation for each model (and alignments):
>> Laminin_G_3  Concanavalin A-like lectin/glucanases superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.1      0.49   1.3e+03      20      70 ..     133     183 ..     123     187 .. 0.66
   2 !   51.4   8.7   5.1e-17   1.3e-13       1     143 [.     185     329 ..     185     335 .. 0.81
   3 !   59.4   6.3   1.7e-19   4.3e-16       4     144 ..     406     553 ..     402     559 .. 0.81
   4 !   64.3   8.2   5.2e-21   1.3e-17       1     141 [.     617     754 ..     617     757 .. 0.88

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.49
              Laminin_G_3  20 TvsaWvkpdslpsaaqiiissssdgrgfelgldgsg.rlrfsvnagngaees 70 
                              Tvs+ +  d +++a++ ++ +ss++  + ++  g+  + +fs +a+ng + +
  PHY93_17080|PHY93_17080 133 TVSLLLDCDGTNGAQNNTFIDSSSN-AYAITRGGTPsQGSFSPYATNGWSAY 183
                              6677777777776666544467788.99999877766888877777765554 PP

  == domain 2  score: 51.4 bits;  conditional E-value: 5.1e-17
              Laminin_G_3   1 dggsdyvtlpd...aslp.tssfTvsaWvkpdslpsaaqiiis...sssdgrgfelgldgsgrlrfsvnagngaeesvtsgasvpa 79 
                              dg++dy+t+p+   +++  +++fT+++Wv+  ++ +++++i+s    +s+g gf + ++  g++ + +n+g    +++t  +s   
  PHY93_17080|PHY93_17080 185 DGTGDYLTAPNnagTNIGtADDFTIEFWVYAVTQINSNPRIVSnavWNSSG-GFDICIQA-GTVILFTNGGA--AKTAT-FGSTDY 265
                              7999*****997655564488*********999999999999777644566.89999955.66777677664..34444.444567 PP

              Laminin_G_3  80 geWtHvavtydggtlrlYvNGvevgsatltggllsatsgplviGrdp.ggddpfdGlidevriyn 143
                              ++W H a+  ++gtlr++  Gv+++s t +++ l ++++p+ iG  + g++  f+G+i ++ri +
  PHY93_17080|PHY93_17080 266 NQWLHFAFSRQSGTLRVFKSGVLANSYTSNTDNL-TSANPIHIGTYQaGTTVSFTGYISNLRIIK 329
                              ***************************8888844.6899*******9666************976 PP

  == domain 3  score: 59.4 bits;  conditional E-value: 1.7e-19
              Laminin_G_3   4 sdyvtlpd..aslp.tssfTvsaWvkpds..lpsaaqiiis.sssdg.rgfelgldgsg.rlrfsvnagngaeesvtsgasvpage 81 
                              +dy+++p   ++ + t++fT++ W++p++  l++a++ii + +++++  ++ + l +    + + +++g     s   +  v++ +
  PHY93_17080|PHY93_17080 406 TDYLSIPVaaPTNSlTGDFTIECWIYPSDgtLTTAWGIIDTrTAGSTaANWIISLGSYSaGWLIDFYTGA----SHKNSIRVQPYQ 487
                              6888888763334479************955556677777674444467999999554447888888774....6778889***** PP

              Laminin_G_3  82 WtHvavtydggtlrlYvNGvevgsatltggllsatsgplviGrdpgg...ddpfdGlidevriynr 144
                              W+H+a + +g+t++++vNG ++++++  +g+++++sg +++G+ +++   ++  +G i ++ri n 
  PHY93_17080|PHY93_17080 488 WSHIALVRSGSTISFFVNGILDSTTATISGTITGGSGVVTLGNTKDSnlaGYGNNGFISDLRIVNG 553
                              *************************888888999**********95446799999********986 PP

  == domain 4  score: 64.3 bits;  conditional E-value: 5.2e-21
              Laminin_G_3   1 dggsdyvtlpd.aslp..tssfTvsaWvkpdslpsaaqiiissssdg.rgfelgldgsgrlrfsvnagngaeesvtsgasvpageW 82 
                              +g++d++t++d ++l   t++fT+++ v+ +++++ +++i   +++g +g+++ l++s+++ f ++++     s+ts+++++a++W
  PHY93_17080|PHY93_17080 617 NGTTDWLTVSDnPLLRfgTGNFTIELSVYRTASGT-YGLIS--KGTGtTGWSVALNSSNQVVFFFAGS-----SITSTGTISANTW 694
                              6899*****9954444459***************9.55666..333356****************988.....7************ PP

              Laminin_G_3  83 tHvavtyd...ggtlrlYvNGvevgsatltggllsatsgplviGrdpggddpfdGlidevri 141
                              t +a++ +   ++++++Y+ G  +g+ t++++++  +++ l+iG+d  g+ pf+G +d++ri
  PHY93_17080|PHY93_17080 695 TAIAIVRSgtgASQTKIYIAGSNDGTGTAATDFT--GTDILYIGADRVGAAPFAGNMDNLRI 754
                              ********665567*************9999977..899********99************9 PP

>> Laminin_G_2  Laminin G domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.0   2.3e-06    0.0059      21     123 ..     237     327 ..     225     330 .. 0.82
   2 !    6.3   0.0    0.0054        14      47     122 ..     480     549 ..     466     554 .. 0.66
   3 !    7.0   0.0    0.0033       8.6      21     123 ..     664     754 ..     646     756 .. 0.75

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 2.3e-06
                              EEEEEETTEEEEEEESSS-EEEEE-SSSS-ESSSSEEEEEEECTTEEEEEECTS--CCCE-CSS.......S.EEES--TTHHHHC CS
              Laminin_G_2  21 lalelkdgklvltynlgsgdtellssgkklndgewHsveverkgknltlsvDggetseanepgesqgldleeslylGGlepeepet 106
                              + + ++ g++ l  n g  +t+++  ++  + ++w +  ++r+ ++l++   g   ++++  ++ ++l++ +++++G +       
  PHY93_17080|PHY93_17080 237 FDICIQAGTVILFTNGGAAKTATFG-ST--DYNQWLHFAFSRQSGTLRVFKSGVLANSYT--SNTDNLTSANPIHIGTY------- 310
                              678899*********9999999777.55..559**********87777776666666665..5566679**********....... PP

                              CTTTS-B-CEEEEEEEE CS
              Laminin_G_2 107 aspvtegFvGcirdlrl 123
                              ++ +t +F+G i++lr+
  PHY93_17080|PHY93_17080 311 QAGTTVSFTGYISNLRI 327
                              9**************97 PP

  == domain 2  score: 6.3 bits;  conditional E-value: 0.0054
                              SSS-ESSSSEEEEEEECTTEEEEEECTS--CCCE-CSS.......S.EEES--TTHHHHCCTTTS-B-CEEEEEEE CS
              Laminin_G_2  47 gkklndgewHsveverkgknltlsvDggetseanepgesqgldleeslylGGlepeepetaspvtegFvGcirdlr 122
                              + ++   +w ++ + r+g+++++ v+g   s++++ +   +   ++ + lG +     +++  +  g +G i+dlr
  PHY93_17080|PHY93_17080 480 SIRVQPYQWSHIALVRSGSTISFFVNGILDSTTATISGTIT-GGSGVVTLGNT-----KDSNLAGYGNNGFISDLR 549
                              5677888******************9998777655443332.44444444444.....444444444466666666 PP

  == domain 3  score: 7.0 bits;  conditional E-value: 0.0033
                              EEEEEETTE.EEEEEESSS-EEEEE-SSSS-ESSSSEEEEEEEC...TTEEEEEECTS--CCCE-CSS.......S.EEES--TTH CS
              Laminin_G_2  21 lalelkdgk.lvltynlgsgdtellssgkklndgewHsveverk...gknltlsvDggetseanepgesqgldleeslylGGlepe 102
                              +++ l++++ +v+ +  gs+ t+    + +++ + w  + + r+    +++++ + g++  +++++ +++g   ++ ly+G+    
  PHY93_17080|PHY93_17080 664 WSVALNSSNqVVFFFA-GSSITS----TGTISANTWTAIAIVRSgtgASQTKIYIAGSNDGTGTAATDFTG---TDILYIGAD--- 738
                              5566664331333333.555555....8999*************554489999999998888888888776...889****99... PP

                              HHHCCTTTS-B-CEEEEEEEE CS
              Laminin_G_2 103 epetaspvtegFvGcirdlrl 123
                                    + +++F G +++lr+
  PHY93_17080|PHY93_17080 739 -----RVGAAPFAGNMDNLRI 754
                              .....8888999999999987 PP

>> Toxin_R_bind_N  Clostridium neurotoxin, N-terminal receptor binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.8   0.3   5.5e-05      0.14      52     171 ..     202     307 ..     191     330 .. 0.70
   2 ?   -1.3   0.0      0.58   1.5e+03      50      67 ..     417     434 ..     412     477 .. 0.62
   3 !    4.7   0.1    0.0083        21      76     149 ..     650     715 ..     585     722 .. 0.70

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 5.5e-05
                              ESSS-EEEEEEEE---TTSGCHCC-EEEEEEEE..ETTEEEEEEEETTEEEEEEE-TTS-EEEEEEE--SCSSS-SSTTSEEEEEE CS
           Toxin_R_bind_N  52 glynnfsisFWlripkkdnkielnneytiinsi..knnsGWkislenneliwtlkDsngkekkivleysesekisdyinkWifiti 135
                              g  ++f+i FW+    + n+     + +i+++   + + G++i+++ + +i     + g  k  ++        +d  n+W + + 
  PHY93_17080|PHY93_17080 202 GTADDFTIEFWVYAVTQINS-----NPRIVSNAvwNSSGGFDICIQAGTVIL--FTNGGAAKTATF------GSTD-YNQWLHFAF 273
                              66799********9999998.....677777774444468*******99984..445667777777......2334.477887777 PP

                              EE-TTSEEEEEETTEEEEEEE-TT---EE--SEEEE CS
           Toxin_R_bind_N 136 tndrlknakiyingklianesiedlgnikssnnisl 171
                              + ++ +  +++  g l + +  ++ +n++s n i +
  PHY93_17080|PHY93_17080 274 SRQS-GTLRVFKSGVLAN-SYTSNTDNLTSANPIHI 307
                              7665.6667777776654.44566777777777666 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 0.58
                              -EESSS-EEEEEEEE--- CS
           Toxin_R_bind_N  50 ynglynnfsisFWlripk 67 
                              +n+l+ +f+i  W+  ++
  PHY93_17080|PHY93_17080 417 TNSLTGDFTIECWIYPSD 434
                              689999999999986443 PP

  == domain 3  score: 4.7 bits;  conditional E-value: 0.0083
                              -EEEEEEEEETTEEEEEEEET.TEEEEEEE-TTS-EEEEEEE--SCSSS-SST.TSEEEEEEEE-TTSEE..EEEETT CS
           Toxin_R_bind_N  76 neytiinsiknnsGWkislen.neliwtlkDsngkekkivleysesekisdyi.nkWifititndrlkna..kiying 149
                               +y +i+  +  +GW++ l+  n++++ +  s   +               ++ n W+ i+i     + +  kiyi g
  PHY93_17080|PHY93_17080 650 GTYGLISKGTGTTGWSVALNSsNQVVFFFAGSSITS------------TGTISaNTWTAIAIVRSGTGASqtKIYIAG 715
                              567777777777788887764256666655443222............222224777777776655443334777766 PP

>> Phlebovirus_G2  Phlebovirus glycoprotein G2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.1   1.4e-05     0.035     190     226 ..     126     162 ..     110     173 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 1.4e-05
           Phlebovirus_G2 190 tkflnwGslslsldaeGisGtnsysflksssggfalv 226
                               k +n+ ++sl ld +G  G+   +f++sss+++a+ 
  PHY93_17080|PHY93_17080 126 IKDTNFSTVSLLLDCDGTNGAQNNTFIDSSSNAYAIT 162
                              57799******************************97 PP

>> CutC  CutC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   4.1e-05       0.1      91     165 ..       2      78 ..       1      84 [. 0.85

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 4.1e-05
                     CutC  91 lGaltadgeiDlkaleklieaaegLgvtfHrAfDvvad.peealeqlielgvervLtsGqk.ssalegleklaeLve 165
                              +G l++  ei++k+ e l++  + L+vt+ + +  ++   ++ le+l ++   ++L s q+ +s +e + +l + v+
  PHY93_17080|PHY93_17080   2 VGNLNQLKEIEIKRREALLKIIGNLPVTMQQEVSLMQSqITQELERLSDCSHGQILESSQNiDSYYEQVGRLVKRVK 78 
                              79999****************************9988735789***************9995556666666666555 PP

>> Polysacc_lyase  Polysaccharide lyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.4     5e-05      0.13     105     210 .]     229     326 ..     170     326 .. 0.73

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 5e-05
           Polysacc_lyase 105 algirggklylrarsdkn...ssekktstkakklnlaplpkgkWhdfavevkwssdgsGeievwldgkkvvdqkgviitkddddgp 187
                              a++ ++g + + ++ +++   +    ++  ak+  +++ ++++W +fa+       +sG ++v+  g +  + ++ + t + + ++
  PHY93_17080|PHY93_17080 229 AVWNSSGGFDICIQAGTVilfT----NGGAAKTATFGSTDYNQWLHFAFS-----RQSGTLRVFKSGVL-ANSYTSN-TDNLTSAN 303
                              4444444444444444444432....3344567799***********995.....589*******9987.5555546.55566699 PP

           Polysacc_lyase 188 yfKvGiYrngstterviyyDevr 210
                                ++G Y++g+t + + y++++r
  PHY93_17080|PHY93_17080 304 PIHIGTYQAGTTVSFTGYISNLR 326
                              *******************9986 PP

>> Sialidase  Sialidase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.0         2   5.2e+03     116     165 ..     277     326 ..     264     342 .. 0.53
   2 ?    9.5   0.2   0.00025      0.64     118     173 ..     499     552 ..     486     558 .. 0.91
   3 ?    1.9   0.1     0.054   1.4e+02     139     176 ..     592     630 ..     580     632 .. 0.88

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 2
                Sialidase 116 dkryklyvNGvieevsetsdkFikniedvdkatiGatnRegkeeylakgs 165
                               ++ +++  Gv+ +    +++ +   + +   t  a      + y +++ 
  PHY93_17080|PHY93_17080 277 SGTLRVFKSGVLANSYTSNTDNLTSANPIHIGTYQAGTTVSFTGYISNLR 326
                              56666777776665555555444444444333333333334445555554 PP

  == domain 2  score: 9.5 bits;  conditional E-value: 0.00025
                Sialidase 118 ryklyvNGvieevsetsdkFikniedvdkatiGatnRegkeeylakgsidelsvyN 173
                              ++ ++vNG+++ +  t    i    +v  +t+G t+  +   y+ +g i +l + N
  PHY93_17080|PHY93_17080 499 TISFFVNGILDSTTATISGTITGGSGV--VTLGNTKDSNLAGYGNNGFISDLRIVN 552
                              6789************99999988777..9**********************9998 PP

  == domain 3  score: 1.9 bits;  conditional E-value: 0.054
                Sialidase 139 kniedvdkatiG.atnRegkeeylakgsidelsvyNkal 176
                              +nie + +a+i  a++ +g     ++g  d l+v  ++l
  PHY93_17080|PHY93_17080 592 NNIETIGSAQIAtAVKQYGTGSIAFNGTTDWLTVSDNPL 630
                              89*********6489****************99987776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (771 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       546  (0.0304535); expected 358.6 (0.02)
Passed bias filter:                      373  (0.0208043); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.65u 0.23s 00:00:00.88 Elapsed: 00:00:00.39
# Mc/sec: 5957.71
//
Query:       PHY93_14600|PHY93_14600  [L=250]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.3e-18   65.5   0.0    8.2e-18   64.3   0.0    1.7  2  cNMP_binding  Cyclic nucleotide-binding domain
    0.00017   21.7   0.0    0.00033   20.8   0.0    1.5  1  Response_reg  Response regulator receiver domain


Domain annotation for each model (and alignments):
>> cNMP_binding  Cyclic nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0       0.6   5.4e+03      38      58 ..      95     116 ..      89     128 .. 0.68
   2 !   64.3   0.0   9.1e-22   8.2e-18       2      86 ..     141     224 ..     140     227 .. 0.91

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 0.6
                              .EEEEEEE-TTEE.ESHHHHHH CS
             cNMP_binding  38 kevvlavlgpGdl.fGelallt 58 
                              ke+ l++l  G l f e +l++
  PHY93_14600|PHY93_14600  95 KERFLDELVTGKLyFIEEELIE 116
                              5667777777765577777765 PP

  == domain 2  score: 64.3 bits;  conditional E-value: 9.1e-22
                              EEE-TT-EEE-TTSB-SEEEEEEES-EEEEEEETTS.EEEEEEE-TTEEESHHHHHHTS--SSEEEESSTEEEEEEEHHHHHHHH CS
             cNMP_binding   2 rsfkagevifrqGdpadslyivlsGevrvyrlsedgkevvlavlgpGdlfGelalltgeprtatvvAltdsellalprddflell 86 
                              r+++age+++++Gd+a+ +yi++ G++r y + +d  + +l+ +  G+++Ge++++++epr+a ++A+td++l+++p   ++++l
  PHY93_14600|PHY93_14600 141 RYLSAGEILIKEGDKAEFVYILKNGQLRAYNIINDQ-KIILGNIEIGEFVGEMSFINNEPRSAYIEAITDAQLIEVPIGMVDQIL 224
                              7899**************************666666.55*************************************988777765 PP

>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.8   0.0   3.7e-08   0.00033      22      94 ..      33     106 ..      15     120 .. 0.79

  Alignments for each domain:
  == domain 1  score: 20.8 bits;  conditional E-value: 3.7e-08
                              TEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHH..HHCTTTSEEEEEESSTSHHHHHHHHHCTE CS
             Response_reg  22 gyeevaeaedgkealellkeekvdlillDinmpgmdGlellkei..reedpelpviiltahseeedavealkaga 94 
                              +  ++ +a +g+  l ++k+  +d++++D n  + dGl++++ i  ++ +p++ +ii+    e+e   + l  g 
  PHY93_14600|PHY93_14600  33 KP-TIYTAPNGNVGLLKIKNAVIDIVIIDSNNNTTDGLKIVEVIllENINPHMAIIIIGHPPEKERFLDELVTGK 106
                              44.7889***********************************99545555*******997777766666666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (250 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       506  (0.0282224); expected 358.6 (0.02)
Passed bias filter:                      376  (0.0209716); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.44
# Mc/sec: 1688.35
//
Query:       PHY93_14605|PHY93_14605  [L=54]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (54 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       170  (0.00948185); expected 358.6 (0.02)
Passed bias filter:                      149  (0.00831056); expected 358.6 (0.02)
Passed Vit filter:                         4  (0.000223102); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.30u 0.21s 00:00:00.51 Elapsed: 00:00:00.35
# Mc/sec: 467.24
//
Query:       PHY93_14610|PHY93_14610  [L=199]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.2e-32  113.2   0.1    1.5e-32  113.0   0.1    1.0  1  DTW       DTW domain


Domain annotation for each model (and alignments):
>> DTW  DTW domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  113.0   0.1   8.2e-37   1.5e-32       3     192 ..      12     188 ..      10     193 .. 0.90

  Alignments for each domain:
  == domain 1  score: 113.0 bits;  conditional E-value: 8.2e-37
                      DTW   3 lCerCllpaevclcsslppleklpikvlilqhpkEkkkstntarllalslanlrvvvgsdveeeaklsallkdpkrksvllFPskn 88 
                               C+ C l +  c+c+++p+  +l++k+ ++ h kE k+ tnt+rl++  l n+++ ++ + +e  +ls+ll +p ++++l++Ps+n
  PHY93_14610|PHY93_14610  12 PCQVCFLHKDRCICENIPT-LTLQTKISLIIHAKELKRTTNTGRLAMRALTNSEMRIRGKDREALDLSDLL-SPAYRTLLFYPSDN 95 
                              5******************.6688*****************************977777767767777776.678889******** PP

                      DTW  89 aksledllaseaakasekkeefeekrlillDGTWsqAkkilrrnprledlpqvkLkkgesseyerlRkqpkkgclSTiEaiayaLk 174
                              a++l++ l se         ++ + +li+ DG W+qA k  +r  +l+d+p+v +++ ++  + ++R ++++  ++T+Eaia+aL 
  PHY93_14610|PHY93_14610  96 AIELDQKLVSE---------STLPIQLIVPDGNWRQASKVHYRHHELQDIPRVMISTPNTADL-HMRAESTEAGMATLEAIAHALG 171
                              **998655554.........457899******************************9999999.********************** PP

                      DTW 175 eleeekealdnLldvfka 192
                               +e+ +++ ++L+++++ 
  PHY93_14610|PHY93_14610 172 IIEG-EKVKETLMKFYRE 188
                              ***5.899999*999975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (199 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       551  (0.0307323); expected 358.6 (0.02)
Passed bias filter:                      425  (0.0237046); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1533.97
//
Query:       PHY93_14615|PHY93_14615  [L=181]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.7e-62  207.9   0.1    8.7e-62  207.8   0.1    1.0  1  YaeQ      YaeQ protein
  ------ inclusion threshold ------
      0.068   13.0   0.1        1.7    8.5   0.0    2.3  2  DUF2153   Uncharacterized protein conserved in archaea (DUF21


Domain annotation for each model (and alignments):
>> YaeQ  YaeQ protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  207.8   0.1   9.7e-66   8.7e-62       1     171 [.       1     172 [.       1     174 [. 0.98

  Alignments for each domain:
  == domain 1  score: 207.8 bits;  conditional E-value: 9.7e-66
                     YaeQ   1 MAlkatiykaelqladvdrgvyeslsltlArHPSEteerlmvRllAfalnaeeeLaftkglsaedepdlwekdltgeielWievGq 86 
                              MAlk+tiyk++l+l++++ ++y+++slt+A+HPSE++ r+m+RllAf l a+e+++ftkglsa++e+dlw+ + +g+ie+Wie+G 
  PHY93_14615|PHY93_14615   1 MALKSTIYKVRLTLSNLNIHHYSDYSLTIAKHPSENDLRMMIRLLAFSLSAQEGIQFTKGLSADNEADLWKINHDGSIEHWIELGL 86 
                              ************************************************************************************** PP

                     YaeQ  87 pdekrlkkaskraeqvvvyay.graaevwwkqnkeklsrlknlsvlqldeealealaalaersmklqvtiqdgelylsddeesvev 171
                              pde+r+++ +++ae+v++y+y g++a  w ++ ++k++r+++l+++++     ++l+al ++ m+l+++i+d+e+++s++ee++ v
  PHY93_14615|PHY93_14615  87 PDERRIRQICSKAEKVTIYTYhGNQALQWFDSIENKVQRFDHLNIIHFTVVDGQSLEALSKKGMNLNISIEDNEIWISNEEERMCV 172
                              *********************99999******************************************************998866 PP

>> DUF2153  Uncharacterized protein conserved in archaea (DUF2153)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.5   0.0   0.00019       1.7      70     111 ..       3      44 ..       1      54 [. 0.89
   2 ?    2.2   0.0     0.017   1.5e+02      11      35 ..     111     135 ..     105     147 .. 0.86

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.00019
                  DUF2153  70 vketlreilekllelDieHtsevrelleklskegklnpllal 111
                              +k+t++++  +l +l+i+H s+++  + k  +e+ l  ++ l
  PHY93_14615|PHY93_14615   3 LKSTIYKVRLTLSNLNIHHYSDYSLTIAKHPSENDLRMMIRL 44 
                              789999****************************99988865 PP

  == domain 2  score: 2.2 bits;  conditional E-value: 0.017
                  DUF2153  11 elletlkkvekkveeaDRLdlilas 35 
                              + l+ + ++e+kv++ D L++i  +
  PHY93_14615|PHY93_14615 111 QALQWFDSIENKVQRFDHLNIIHFT 135
                              6788999**************9766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (181 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       531  (0.0296168); expected 358.6 (0.02)
Passed bias filter:                      396  (0.0220871); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.20s 00:00:00.63 Elapsed: 00:00:00.37
# Mc/sec: 1452.10
//
Query:       PHY93_14620|PHY93_14620  [L=564]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    5.8e-19   68.7   0.2    1.9e-18   67.0   0.2    1.8  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    1.5e-13   50.5   0.6    6.7e-13   48.5   0.6    2.2  1  HisKA        His Kinase A (phospho-acceptor) domain
    1.1e-05   25.3   0.8    2.9e-05   23.9   0.1    2.0  2  HATPase_c_5  GHKL domain
    0.00046   20.5   0.0      0.003   17.9   0.0    2.3  2  GAF_3        GAF domain
     0.0013   19.0   0.0     0.0056   17.0   0.0    2.0  2  GAF_2        GAF domain
     0.0076   16.2   0.0      0.018   15.0   0.0    1.6  1  HATPase_c_2  Histidine kinase-like ATPase domain


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.0   0.2   6.2e-22   1.9e-18       3     110 ..     449     557 ..     448     558 .. 0.91

  Alignments for each domain:
  == domain 1  score: 67.0 bits;  conditional E-value: 6.2e-22
                              HHHHHHHHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCH.HCSTCHTSTSSSHHHHHHHHHHHH CS
                HATPase_c   3 ekrLrqiisnlvdNavkfatkageieveikaseddlvisveDnGiGipkedlkklfekfsq.ddstkrggggtGlGlsivkklvel 87 
                              e+ +r++i nlv Navk+ ++++ ++v+i++ ++ ++i+v ++G  i++++  +lf++f + +++++ +++g GlGl++v+ +++ 
  PHY93_14620|PHY93_14620 449 EESMRRVIENLVNNAVKYGSPQQLVKVSIEQLDNLVQIKVHNTGNPISEAEKVNLFQPFHRtSAAQNGKKKGWGLGLTLVRGVAQA 534
                              56789*************7799999*****7558999************************7666666779999************ PP

                              TTTEEEEEEETTTEEEEEEEEES CS
                HATPase_c  88 mgGeiwvesepgrGttftftlpl 110
                              +gG+++ves+++ Gt+f++t+p 
  PHY93_14620|PHY93_14620 535 HGGSVTVESNEKDGTSFIVTIPR 557
                              ********************996 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.5   0.6   2.3e-16   6.7e-13       2      67 .]     338     403 ..     337     403 .. 0.91

  Alignments for each domain:
  == domain 1  score: 48.5 bits;  conditional E-value: 2.3e-16
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHC..T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH CS
                    HisKA   2 lgrflagvaHELrtPLsailgnaeaLkregklteelkeyletiesearrldhlvedlLdlsrieag 67 
                              + +f++ + H+LrtPL+a +++a+++ r++++ e+   + ++i+++++r+d++++dlLd  ri ag
  PHY93_14620|PHY93_14620 338 RDQFVSILTHDLRTPLTAAKMAAQVILRQPENIEKNHILAHKIVKSIDRMDQMIKDLLDANRIRAG 403
                              679***********************997566666666************************9986 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0       1.6   4.8e+03       5      36 ..     284     315 ..     280     324 .. 0.74
   2 !   23.9   0.1   9.6e-09   2.9e-05       6      92 ..     452     546 ..     448     555 .. 0.75

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 1.6
              HATPase_c_5   5 dlcvilgnlLdNAieacskieeekrfIrltvr 36 
                               +++ l+nl+  A++  +k +++++  +l+++
  PHY93_14620|PHY93_14620 284 RFVSALSNLIAVALDRFNKEQDSQQLRQLEIN 315
                              57788999999999999998887666666655 PP

  == domain 2  score: 23.9 bits;  conditional E-value: 9.6e-09
              HATPase_c_5   6 lcvilgnlLdNAieacskieeekrfIrltvrekkksliisieNsyeg....ek........kklesskskkeehGiGlksireivk 79 
                              + +++ nl +NA+   s +    + +++++++ ++ + i+++N+ +     ek        ++   ++ kk+  G+Gl+ +r +++
  PHY93_14620|PHY93_14620 452 MRRVIENLVNNAVKYGSPQ----QLVKVSIEQLDNLVQIKVHNTGNPiseaEKvnlfqpfhRTSAAQNGKKKGWGLGLTLVRGVAQ 533
                              5667788888888777665....59*******************6665555224445334333445577889999*********** PP

              HATPase_c_5  80 kykgnlsieaedg 92 
                               ++g++++e +++
  PHY93_14620|PHY93_14620 534 AHGGSVTVESNEK 546
                              *******998775 PP

>> GAF_3  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.0   9.9e-07     0.003      73     129 .]     244     299 ..     199     299 .. 0.89
   2 ?   -1.1   0.0      0.78   2.3e+03      45      71 ..     471     499 ..     458     514 .. 0.73

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 9.9e-07
                    GAF_3  73 aeedglpdraalavPLvagr.qviGvlalastkprafdaedlelleslArqiataier 129
                               ++dg    + + +PL++ + +++Gvl ++  +  a++++dl+++++l+++ia a++r
  PHY93_14620|PHY93_14620 244 KKTDGESFDKFITLPLTLSSlETFGVLQFEAVS--AMNESDLRFVSALSNLIAVALDR 299
                              567788888999******99*********9987..78*******************97 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.78
                    GAF_3  45 alse.sldedsalar.ralssgevvseps 71 
                              +l++ s++  ++l +  ++++g+++se++
  PHY93_14620|PHY93_14620 471 QLVKvSIEQLDNLVQiKVHNTGNPISEAE 499
                              33445888888888889********9976 PP

>> GAF_2  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.0   1.9e-06    0.0056      88     138 .]     249     298 ..     234     298 .. 0.86
   2 ?   -2.1   0.0       1.4   4.2e+03      10      32 ..     418     441 ..     414     467 .. 0.68

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 1.9e-06
                              HTT--EEEEEE-T.TS---EEEEES......--HHHHHHHHHHHHHHHHHHH CS
                    GAF_2  88 aglrsflavPlis.egrvvGvlnlyankppafdeedlelLeelaeqiaiaie 138
                              + +  f+ +Pl+    +++Gvl +  +  +a +e+dl+++++l+++ia+a++
  PHY93_14620|PHY93_14620 249 ESFDKFITLPLTLsSLETFGVLQF--EAVSAMNESDLRFVSALSNLIAVALD 298
                              456677*****776889******8..5677799*****************96 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 1.4
                              HHHHHHHHSS..EE..EEEEE-TTS CS
                    GAF_2  10 lvldelvelgaalg..yillvdddg 32 
                              ++l++l++lg+++g  ++l+ d ++
  PHY93_14620|PHY93_14620 418 IALSALRDLGVSYGerFMLETD-RE 441
                              5889999999999975444433.33 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   6.1e-06     0.018      35     110 ..     455     533 ..     419     553 .. 0.79

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 6.1e-06
              HATPase_c_2  35 aveEactNavehayleapegpvevrlesdeealtvevaDsGpg.fdpetlpdpteeep........keslkegGrGlalikglvD 110
                              ++e +++Nav+++ +   ++ v+v++e+ ++ ++++v++ G++  ++e+ +  +   p        ++++k  G+Gl l++g++ 
  PHY93_14620|PHY93_14620 455 VIENLVNNAVKYGSP---QQLVKVSIEQLDNLVQIKVHNTGNPiSEAEKVNLFQ---PfhrtsaaqNGKKKGWGLGLTLVRGVAQ 533
                              5666899******97...799**********************66666544333...1234667556666666777788887765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (564 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       678  (0.0378158); expected 358.6 (0.02)
Passed bias filter:                      496  (0.0276647); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.58u 0.22s 00:00:00.80 Elapsed: 00:00:00.38
# Mc/sec: 4477.64
//
Query:       PHY93_14625|PHY93_14625  [L=476]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.4e-18   65.7   0.0    6.8e-11   42.3   0.0    3.3  2  PAS_3     PAS fold
    3.9e-17   62.4   3.9    8.2e-11   42.1   0.2    2.8  3  PAS_9     PAS domain
    2.3e-16   60.0   0.0    1.5e-06   28.4   0.0    2.9  2  PAS_4     PAS fold
    1.2e-15   57.5   0.5      8e-09   35.5   0.1    3.0  2  PAS       PAS fold
    3.4e-13   49.3   0.0    5.4e-07   29.5   0.0    2.5  2  PAS_8     PAS domain
    0.00015   21.9   2.1     0.0048   17.0   0.3    3.7  4  PAS_7     PAS fold
     0.0057   16.0   0.9      0.083   12.2   0.9    2.3  1  DUF4763   Domain of unknown function (DUF4763)


Domain annotation for each model (and alignments):
>> PAS_3  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   4.7e-07    0.0012       5      88 ..      40     128 ..      36     129 .. 0.66
   2 !   42.3   0.0   2.7e-14   6.8e-11       4      74 ..     168     236 ..     165     247 .. 0.93

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 4.7e-07
                    PAS_3   5 serveeilGyspeellgkveswldlvhpeDrervrealq.......ealkkge.pyegeyRirrkdGeyrwveararvirdengkp 82 
                              +++  eilG+++++l ++  +++     + +++ ++++        ++l +ge + ++  Ri+r+dGe+rw++   ++i d+  +p
  PHY93_14625|PHY93_14625  40 NQAALEILGLTEDQLNDR--DFIASQEID-LKEWNKNFPgknhigmDSLITGEvQRNIVLRIFRQDGEMRWISLNSVPILDNAKRP 122
                              666666666666666666..333333333.333333333333334445556665778889************************** PP

                    PAS_3  83 vrvigv 88 
                              + +i++
  PHY93_14625|PHY93_14625 123 ILLICT 128
                              999987 PP

  == domain 2  score: 42.3 bits;  conditional E-value: 2.7e-14
                    PAS_3   4 vserveeilGyspeellgkveswldlvhpeDrervrealqealkkgepyegeyRirrkdGeyrwveararv 74 
                              +++r+  +lGy+ +e+++   ++ld+vh +D++ ++ ++q++l+k+e++++  R++ k+ eyr +++ +++
  PHY93_14625|PHY93_14625 168 INPRFVSVLGYTLNEIISE--KFLDFVHKDDLDATKFEIQKLLEKKESIHFINRYKAKNNEYRVFDWVVVP 236
                              89*****************..*******************************************9988666 PP

>> PAS_9  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.1   0.2   3.2e-14   8.2e-11       2     104 .]      25     134 ..      24     134 .. 0.89
   2 !   20.9   0.2   1.3e-07   0.00032       2     104 .]     154     252 ..     153     252 .. 0.81
   3 ?   -2.2   0.0       1.9     5e+03      31      60 ..     286     325 ..     281     353 .. 0.41

  Alignments for each domain:
  == domain 1  score: 42.1 bits;  conditional E-value: 3.2e-14
                    PAS_9   2 dgilidnpdgrilyaNeaalrllGyspeevlgksitdlf............vtdpeanerlraaleqgrkkerevevvlirknget 75 
                              +g+++ ++ g+i+  N+aal++lG +++++  ++   ++             ++ +++  ++ ++      +r+  + + r +ge 
  PHY93_14625|PHY93_14625  25 EGMILQDKTGKIIQHNQAALEILGLTEDQLNDRD---FIasqeidlkewnkNFPGKNHIGMDSLITGEV--QRNIVLRIFRQDGEM 105
                              7999999*******************99999955...44444777788888888888888888888888..*************** PP

                    PAS_9  76 fwvlltaspvkdddgelvgiivilrDite 104
                               w+ l+ +p+ d+ ++ +++i++++Dite
  PHY93_14625|PHY93_14625 106 RWISLNSVPILDNAKRPILLICTFTDITE 134
                              *************999999*********8 PP

  == domain 2  score: 20.9 bits;  conditional E-value: 1.3e-07
                    PAS_9   2 dgilidnpdgrilyaNeaalrllGyspeevlgksitdlf..vtdpeanerlraaleqgrkkerevevvlirkngetfwvlltaspv 85 
                              d ++i+n +g   ++N+ +  +lGy+ +e++  ++ d++  ++ + ++ +++++le ++    ++ + +  kn+e+    +  + v
  PHY93_14625|PHY93_14625 154 DLMIITNQEGYFKRINPRFVSVLGYTLNEIISEKFLDFVhkDDLDATKFEIQKLLEKKE--SIHFINRYKAKNNEYRV--FDWVVV 235
                              5688999***777**************************65555556666666666666..88888888888888888..555667 PP

                    PAS_9  86 kdddgelvgiivilrDite 104
                               d + +l+   ++ rDit+
  PHY93_14625|PHY93_14625 236 PDPETNLIY--FTARDITD 252
                              778889999..******96 PP

  == domain 3  score: -2.2 bits;  conditional E-value: 1.9
                    PAS_9  31 vlgksitdlf...vtdpeanerlraaleqgrk.......k 60 
                              ++g +i+ ++   +  + + ++l++ ++++++       +
  PHY93_14625|PHY93_14625 286 IIGGHISFIQsriARGELDLKDLKDKIKSIEEsvlrlskT 325
                              5666666666444222222222222222222222222211 PP

>> PAS_4  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.4   0.0     6e-10   1.5e-06       6     110 .]      25     137 ..      20     137 .. 0.85
   2 !   28.4   0.0     6e-10   1.5e-06       4     108 ..     152     253 ..     149     255 .. 0.95

  Alignments for each domain:
  == domain 1  score: 28.4 bits;  conditional E-value: 6e-10
                    PAS_4   6 dalavldpdgrvlyaNaaaaelfgappeellGktla.....ellpee....daarleralrrvlegeepiefleelll.pgeerhy 81 
                              ++ +  d+ g+++  N+aa e++g++ ++l ++ +      +   +e      +  +  ++ +++ge     +    + +ge r++
  PHY93_14625|PHY93_14625  25 EGMILQDKTGKIIQHNQAALEILGLTEDQLNDRDFIasqeiD--LKEwnknFPGKNHIGMDSLITGEVQRNIVLRIFRqDGEMRWI 108
                              566666***************************998777442..2224455999************9888888877779******* PP

                    PAS_4  82 elrllPlrdesGevigvlvisrDiTerrr 110
                              +l+ +P++d   ++i ++++++DiTe rr
  PHY93_14625|PHY93_14625 109 SLNSVPILDNAKRPILLICTFTDITEMRR 137
                              **************************876 PP

  == domain 2  score: 28.4 bits;  conditional E-value: 6e-10
                    PAS_4   4 lpdalavldpdgrvlyaNaaaaelfgappeellGktlaellpeedaarleralrrvlegeepiefleelll.pgeerhyelrllPl 88 
                              + d+ ++ + +g + ++N+++ +++g++  e++ +++ +++ ++d ++    ++++le +e+i+f   ++  + e r++++ ++P 
  PHY93_14625|PHY93_14625 152 SHDLMIITNQEGYFKRINPRFVSVLGYTLNEIISEKFLDFVHKDDLDATKFEIQKLLEKKESIHFINRYKAkNNEYRVFDWVVVP- 236
                              66889999************************************9999999**********************************. PP

                    PAS_4  89 rdesGevigvlvisrDiTer 108
                               d++     +++++rDiT+ 
  PHY93_14625|PHY93_14625 237 -DPETN--LIYFTARDITDY 253
                              .89888..**********86 PP

>> PAS  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.5   0.1   3.1e-12     8e-09       3     113 .]      16     132 ..      14     132 .. 0.81
   2 !   19.1   0.0   3.8e-07   0.00098       3      72 ..     145     214 ..     133     248 .. 0.81

  Alignments for each domain:
  == domain 1  score: 35.5 bits;  conditional E-value: 3.1e-12
                              HHHHHHHSSSEEEEEETTSBEEEECHHHHHHHSSTHHHCTTSBGGGGBSTTHHH.......HHHHHHHHHHHHTT-ECCCCEEEEC CS
                      PAS   3 lraileslpdpifvvDedgrilyvNaaaeellGlsreevlgkslldliheedda.......elaelleqlleqgeesrageisfkl 81 
                              l a+l+s+ +++++ D+ g+i+  N+aa e+lGl+++++  + ++ +   +  +       + +  +  l+    +++++ + f+ 
  PHY93_14625|PHY93_14625  16 LNALLQSMVEGMILQDKTGKIIQHNQAALEILGLTEDQLNDRDFIASQEIDLKEwnknfpgKNHIGMDSLITGEVQRNIVLRIFR- 100
                              689******************************************9998765556666664444444444444444444444444. PP

                              TTSSEEEEEEEEEEEEETTEEEEEEEEEEEES CS
                      PAS  82 rdgrpihlevraspvrdaggeilgflgvlrdi 113
                              +dg+ +++ ++ +p++d  ++++ +++++ di
  PHY93_14625|PHY93_14625 101 QDGEMRWISLNSVPILDNAKRPILLICTFTDI 132
                              6*****************************98 PP

  == domain 2  score: 19.1 bits;  conditional E-value: 3.8e-07
                              HHHHHHHSSSEEEEEETTSBEEEECHHHHHHHSSTHHHCTTSBGGGGBSTTHHHHHHHHHHHHHHHTT-E CS
                      PAS   3 lraileslpdpifvvDedgrilyvNaaaeellGlsreevlgkslldliheeddaelaelleqlleqgees 72 
                              ++ +++ ++d +++++  g +  +N+ + + lG++ +e++++++ld++h +d + ++ ++++lle +e+ 
  PHY93_14625|PHY93_14625 145 VQLLFNISHDLMIITNQEGYFKRINPRFVSVLGYTLNEIISEKFLDFVHKDDLDATKFEIQKLLEKKESI 214
                              44455559******************************************99887777777777766655 PP

>> PAS_8  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.5   0.0   2.1e-10   5.4e-07       3      45 ..      16      59 ..      14      77 .. 0.77
   2 !   17.1   0.0   1.6e-06    0.0041       4      50 ..     146     193 ..     143     211 .. 0.82

  Alignments for each domain:
  == domain 1  score: 29.5 bits;  conditional E-value: 2.1e-10
                    PAS_8  3 lralfesspdgiavvd.lgdrivdvNqaalellGys.adlkgell 45
                             l al+ s+ +g+++ d +g+ i+++Nqaale+lG++ ++l + ++
  PHY93_14625|PHY93_14625 16 LNALLQSMVEGMILQDkTGK-IIQHNQAALEILGLTeDQLNDRDF 59
                             6689***********96777.*************77555444444 PP

  == domain 2  score: 17.1 bits;  conditional E-value: 1.6e-06
                    PAS_8   4 ralfesspdgiavvd.lgdrivdvNqaalellGys.adlkgellgqllp 50 
                              + lf+ s+d +++++ +g  +  +N+++   lGy+ ++++ e++ ++++
  PHY93_14625|PHY93_14625 146 QLLFNISHDLMIITNqEGY-FKRINPRFVSVLGYTlNEIISEKFLDFVH 193
                              789************8888.*******************9999964443 PP

>> PAS_7  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.3   1.9e-06    0.0048       1     112 [.      20     137 ..      20     139 .. 0.76
   2 ?   -3.7   0.0       5.2   1.3e+04      12      31 ..     160     179 ..     153     185 .. 0.75
   3 ?   -2.1   0.0       1.7   4.3e+03     103     113 ..     246     256 ..     201     257 .. 0.75
   4 ?    1.0   0.0      0.18   4.6e+02      45      92 ..     294     346 ..     287     352 .. 0.63

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 1.9e-06
                    PAS_7   1 lenmsqGisvfDadlrLvawNrrylelldlpeelvqvgvp.leellrynaergefgagdveaeverrl.aaaragkphsfererpd 84 
                              l++m +G+++ D++++++  N+  le+l+l+e+ ++      ++ ++    +++f  g+ +  ++  +  +++++   ++ r+  +
  PHY93_14625|PHY93_14625  20 LQSMVEGMILQDKTGKIIQHNQAALEILGLTEDQLNDRDFiASQEIDLKEWNKNFP-GKNHIGMDSLItGEVQRNIVLRIFRQDGE 104
                              789*****************************999554432666677777777777.55555555555255666666777777788 PP

                    PAS_7  85 grvievrgnplpdgG.....fVttytDiTerrr 112
                               r+i++++ p+ d       ++ t+tDiTe+rr
  PHY93_14625|PHY93_14625 105 MRWISLNSVPILDNAkrpilLICTFTDITEMRR 137
                              89999999999666544444899*******997 PP

  == domain 2  score: -3.7 bits;  conditional E-value: 5.2
                    PAS_7  12 DadlrLvawNrrylelldlp 31 
                              ++++    +N r++++l+++
  PHY93_14625|PHY93_14625 160 NQEGYFKRINPRFVSVLGYT 179
                              56666677899999998875 PP

  == domain 3  score: -2.1 bits;  conditional E-value: 1.7
                    PAS_7 103 tytDiTerrra 113
                              t  DiT++r+ 
  PHY93_14625|PHY93_14625 246 TARDITDYRAE 256
                              66788888765 PP

  == domain 4  score: 1.0 bits;  conditional E-value: 0.18
                    PAS_7  45 lrynaergefgagdveaeverrlaaara.....gkphsfererpdgrvievrg 92 
                              ++ + +rge++ +d +++++ + +++ +     ++ +sf r+ +++r+i+v  
  PHY93_14625|PHY93_14625 294 IQSRIARGELDLKDLKDKIKSIEESVLRlskttKELTSFARNIENERIINVSL 346
                              66677888888666555544333222221112366788999999999999875 PP

>> DUF4763  Domain of unknown function (DUF4763)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.2   0.9   3.3e-05     0.083     120     198 ..     295     387 ..     287     404 .. 0.69

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 3.3e-05
                  DUF4763 120 qqhlkasrkslkelreslcqekkrlrklqkrlneldsfkrklehe..............qgLClqRyeqlkqsKldkadfsnlirs 191
                              q++  + + +lk+l++++ +  + + +l+k ++el sf r++e e              ++LC++R++ +  +  +k d + +i+s
  PHY93_14625|PHY93_14625 295 QSRIARGELDLKDLKDKIKSIEESVLRLSKTTKELTSFARNIENEriinvslsrildnvLALCKERFRIHGVKLETKLDTNLVIHS 380
                              55666667778888888888888888888888888888888887644443333333333688999998887777777777777777 PP

                  DUF4763 192 lrtkmee 198
                                 ++ +
  PHY93_14625|PHY93_14625 381 RESQIAQ 387
                              6666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (476 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       935  (0.0521501); expected 358.6 (0.02)
Passed bias filter:                      612  (0.0341346); expected 358.6 (0.02)
Passed Vit filter:                        75  (0.00418317); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.67u 0.27s 00:00:00.94 Elapsed: 00:00:00.48
# Mc/sec: 3000.30
//
Query:       PHY93_14630|PHY93_14630  [L=123]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.7e-18   65.7   0.3    6.1e-18   65.0   0.3    1.3  1  Response_reg  Response regulator receiver domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.0   0.3   3.4e-22   6.1e-18       1     111 [.      13     120 ..      13     121 .. 0.92

  Alignments for each domain:
  == domain 1  score: 65.0 bits;  conditional E-value: 3.4e-22
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHH.ESEEEEESSCSSSEHHHHHHHHHHCT..TTSEEEEEESSTSH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeek.vdlillDinmpgmdGlellkeireed..pelpviiltahsee 83 
                              +l+++D++ +++ l+ +le egy +v +a++gke +e+l +   + +illD++mp m+G e+++ i ++   +++p+++++a +++
  PHY93_14630|PHY93_14630  13 ILVIEDNKEIQDSLKMALEVEGY-KVFTADNGKEGMEILGKIPtPCMILLDLMMPIMNGWEFVDAISKDImlSTIPIVVVSAFGDK 97 
                              89*********************.***************7665599********************8888899***********96 PP

                              HHHHHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  84 edavealkagaddflsKpfdpeeLlkal 111
                              + +        d++++Kp+d ++Ll+ +
  PHY93_14630|PHY93_14630  98 KGT-----PKTDGYIQKPIDLDALLNTV 120
                              554.....5679***********99876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (123 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       392  (0.021864); expected 358.6 (0.02)
Passed bias filter:                      355  (0.0198003); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.34s 00:00:00.88 Elapsed: 00:00:00.61
# Mc/sec: 604.71
//
Query:       PHY93_14635|PHY93_14635  [L=377]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-21   77.7   0.1    2.8e-21   76.6   0.1    1.6  1  Patatin   Patatin-like phospholipase


Domain annotation for each model (and alignments):
>> Patatin  Patatin-like phospholipase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.6   0.1   1.6e-25   2.8e-21       1     204 []      13     226 ..      13     226 .. 0.79

  Alignments for each domain:
  == domain 1  score: 76.6 bits;  conditional E-value: 1.6e-25
                  Patatin   1 LvlsGGGsrgafslgalkaL...kkelgerfdiisGtSaGAiialllalgrdpaalvddlrnlllnkifdrdllirelaanlaarl 83 
                              +vl GGG+r+++++gal+aL    k+    fdii+G SaGAi+a++la +  + + + ++   l ++i+  d  +++++++   r 
  PHY93_14635|PHY93_14635  13 IVLNGGGARASYQAGALRALyeiIKKDQNLFDIITGNSAGAINATYLANNARDWGGSTQYLVDLWKRIKPED--VFDISHYTMGRI 96 
                              59*****************54445999999********************9998888888888888888888..899999999999 PP

                  Patatin  84 sgllgkgglfdaealrellrkv.............ladktlkrlsarlgklpllks.........lftanqavpaittataatast 147
                              ++ + kg++f +++  ++++++             +++k+l+                        ++  ++ ++   ++ ++ + 
  PHY93_14635|PHY93_14635  97 GSRWVKGTIFRDNSPGDPFNGIlnteplrklllreVDFKELH-------------IlieekfisaVALSTTNYYSGSSVVFFDGEK 169
                              999999999999999999996633333333332223333333.............1444444444556677777777777777777 PP

                  Patatin 148 anranglytedddddvdladavraSsafPglfppvsldgelyvDGGilsNvPilaal 204
                                 + + +     +++  +d+v+ Ssa+P++fppv++   +y DG i+  +P+ +al
  PHY93_14635|PHY93_14635 170 KISEWSKSDRFSIRTELNVDHVMGSSAIPLFFPPVKIAHSYYGDGCIRQVTPLSPAL 226
                              77777777777777888899****************************999998875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (377 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       348  (0.0194099); expected 358.6 (0.02)
Passed bias filter:                      339  (0.0189079); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.26s 00:00:00.80 Elapsed: 00:00:00.46
# Mc/sec: 2465.45
//
Query:       PHY93_14640|PHY93_14640  [L=184]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.4e-42  143.8  20.9    5.1e-22   78.0   7.2    2.0  2  UPF0016   Uncharacterized protein family UPF0016
  ------ inclusion threshold ------
      0.011   15.4  13.4      0.015   15.0   3.1    2.3  2  TauE      Sulfite exporter TauE/SafE


Domain annotation for each model (and alignments):
>> UPF0016  Uncharacterized protein family UPF0016
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.1   5.8   3.9e-24   3.5e-20       2      75 .]       9      83 ..       8      83 .. 0.98
   2 !   78.0   7.2   5.7e-26   5.1e-22       1      75 []     105     180 ..     105     180 .. 0.97

  Alignments for each domain:
  == domain 1  score: 72.1 bits;  conditional E-value: 3.9e-24
                  UPF0016  2 aaflliflaElGDkTqlaaalLaary.kplpVflGavlAlalmtvlsvllGsslakrlperlielvaavlFllfG 75
                              +fll+ l+E+GDkTql+a++La+r+ kp+++f+G+++A++l++++++ +G ++a+ +++ +++++ a +Fl+f+
  PHY93_14640|PHY93_14640  9 NSFLLVSLTEMGDKTQLLAFVLATRFkKPWTIFAGIFVATVLNHLVAASAGVWVANAISPLILKRILASIFLIFA 83
                             69************************************************************************7 PP

  == domain 2  score: 78.0 bits;  conditional E-value: 5.7e-26
                  UPF0016   1 laaflliflaElGDkTqlaaalLaary.kplpVflGavlAlalmtvlsvllGsslakrlperlielvaavlFllfG 75 
                              l++++++flaE+GDkTq+a+++Laa+y +++ V++G+++++++ ++l+v++G++++k++p+++++++aa+l ++f+
  PHY93_14640|PHY93_14640 105 LTTVVTFFLAEMGDKTQIATVTLAAKYhEIILVTVGTTIGMMVTDGLAVFFGDKMTKYIPMKWVHIFAAILYIVFA 180
                              5899***********************88888******************************************97 PP

>> TauE  Sulfite exporter TauE/SafE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   3.1   1.6e-06     0.015      70     131 ..      49     106 ..      23     117 .. 0.70
   2 ?    6.3   2.2   0.00076       6.8     181     234 ..     128     181 ..     118     183 .. 0.70

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 1.6e-06
                     TauE  70 llgsliGallGallllllpsellkllfgvlllllallmllrkkrsrakgrerrptaillvli 131
                              +l  l++a +G+++++++++ +lk +++ + l++a+++l+  k + +     +++ ++ +l+
  PHY93_14640|PHY93_14640  49 VLNHLVAASAGVWVANAISPLILKRILASIFLIFAVWILIPDKDE-GL---SETRKWGPFLT 106
                              455678999*****************************9966532.22...23333323332 PP

  == domain 2  score: 6.3 bits;  conditional E-value: 0.00076
                     TauE 181 algyalagavdwpllllllpgallGallGarlarrlsertlrrlfallllvlgv 234
                              a+ y     v++ + + ++++  l +++G +++++++ +++ ++ a+l +v ++
  PHY93_14640|PHY93_14640 128 AAKYHEIILVTVGTTIGMMVTDGLAVFFGDKMTKYIPMKWVHIFAAILYIVFAM 181
                              3333334455555556677777788888************99999999988765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (184 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       814  (0.0454013); expected 358.6 (0.02)
Passed bias filter:                      305  (0.0170115); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.26s 00:00:00.71 Elapsed: 00:00:00.43
# Mc/sec: 1272.50
//
Query:       PHY93_14645|PHY93_14645  [L=164]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.1e-31  107.8   0.0    2.9e-31  107.4   0.0    1.2  1  DNA_binding_1    6-O-methylguanine DNA methyltransferase, DNA
    2.2e-06   28.4   0.0      4e-06   27.5   0.0    1.5  1  Methyltransf_1N  6-O-methylguanine DNA methyltransferase, rib


Domain annotation for each model (and alignments):
>> DNA_binding_1  6-O-methylguanine DNA methyltransferase, DNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  107.4   0.0   3.2e-35   2.9e-31       1      80 [.      74     153 ..      74     154 .. 0.99

  Alignments for each domain:
  == domain 1  score: 107.4 bits;  conditional E-value: 3.2e-35
                              HHHHHHHHHHTTS-TT-BEEHHHHHHHTT.TSCHHHHHHHHHTSSBTTTSGGGGEEBTTSBCCTTTTCHHHHHHHHHHTT CS
            DNA_binding_1   1 afqqrVwellrqIpyGkvttYgeiAkllgkpkaaraVgqalaanplailvPcHRVvgadgklggyagglerkralLeaEg 80 
                              +fqq+ w++l +IpyGkv++Yge Ak l++p+a raVg+a+++np++i++PcHRV+g+ gkl+gy+gg++ k  lL++Eg
  PHY93_14645|PHY93_14645  74 PFQQKAWKALIKIPYGKVWSYGEQAKFLKSPNACRAVGGANGKNPIPIIIPCHRVIGSTGKLTGYSGGMNMKIGLLKHEG 153
                              6******************************************************************************8 PP

>> Methyltransf_1N  6-O-methylguanine DNA methyltransferase, ribonuclease-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.5   0.0   4.5e-10     4e-06       1      76 [.       1      69 [.       1      70 [. 0.96

  Alignments for each domain:
  == domain 1  score: 27.5 bits;  conditional E-value: 4.5e-10
                             --EEEEEEETTEEEEEEEETTCEEEEEEEC-HHHCCHHHCCCTTTSCCHCCHHHHHHHHHHHHHHHHS--B-SHCH CS
          Methyltransf_1N  1 alyytlidsplgrlllagdEkgllaidlldkdtselkelpkllkqdeelpalaelkqaleeYfageekpaltlPld 76
                             ++y  +i+sp+g l+l+++  +l a+d  ++d       +k+ k+++  + l +   +l+eYf g+++ ++ lPl+
  PHY93_14645|PHY93_14645  1 MNYSKKISSPIGDLYLIANDHSLIALDNISNDLY-----KKSIKSER-HKVLNLTHMQLDEYFLGKRF-EFDLPLA 69
                             679999**************************96.....9*******.********************.*****97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (164 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       384  (0.0214178); expected 358.6 (0.02)
Passed bias filter:                      361  (0.020135); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.24s 00:00:00.74 Elapsed: 00:00:00.46
# Mc/sec: 1082.96
//
Query:       PHY93_17085|PHY93_17085  [L=793]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.13   13.0   0.6       0.37   11.6   0.6    1.8  1  CAP       Cysteine-rich secretory protein family


Domain annotation for each model (and alignments):
>> CAP  Cysteine-rich secretory protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.6   2.1e-05      0.37      58     119 ..     687     761 ..     640     765 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 2.1e-05
                              T........EEEEEES--CCCHHHHHHTSHH.............HHHHHT-SS--EEEEEEEEBTTS-E...... CS
                      CAP  58 k........eniaaaseaaedavdsWysepgtynkgketegsighftnllwpkstkvGcavatcgngsf.....t 119
                                       + ++aa++a+++a++ W +    y+ + +t++ +  ftn+l+  +  + +  +t+g  +f     t
  PHY93_17085|PHY93_17085 687 PtaklhvvgQIVSAAYNAGTSAAIDWNNGNNQYTTNGSTTCGAITFTNMLDGGAYTLAVQSVTSGTCTFthtglT 761
                              04445555469999*****************88888777777999*******************99999655433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (793 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       703  (0.0392102); expected 358.6 (0.02)
Passed bias filter:                      224  (0.0124937); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.62u 0.26s 00:00:00.88 Elapsed: 00:00:00.44
# Mc/sec: 5383.95
//
Query:       PHY93_14650|PHY93_14650  [L=45]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (45 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1077  (0.0600703); expected 358.6 (0.02)
Passed bias filter:                      604  (0.0336884); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.22s 00:00:00.62 Elapsed: 00:00:00.40
# Mc/sec: 340.02
//
Query:       PHY93_14655|PHY93_14655  [L=56]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (56 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       233  (0.0129957); expected 358.6 (0.02)
Passed bias filter:                      196  (0.010932); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.22s 00:00:00.60 Elapsed: 00:00:00.40
# Mc/sec: 416.16
//
Query:       PHY93_14660|PHY93_14660  [L=300]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (300 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       266  (0.0148363); expected 358.6 (0.02)
Passed bias filter:                      150  (0.00836633); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 2222.44
//
Query:       PHY93_14665|PHY93_14665  [L=247]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.7e-43  146.9   0.1      6e-43  146.6   0.1    1.1  1  adh_short        short chain dehydrogenase
    3.6e-28   98.7   0.1    4.6e-28   98.4   0.1    1.0  1  adh_short_C2     Enoyl-(Acyl carrier protein) reductase
    1.9e-07   31.2   0.0    2.8e-07   30.6   0.0    1.2  1  KR               KR domain
    4.4e-07   29.6   0.2    1.7e-06   27.7   0.2    1.9  1  Epimerase        NAD dependent epimerase/dehydratase family
     0.0096   15.3   0.1       0.02   14.3   0.1    1.6  1  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
  ------ inclusion threshold ------
      0.012   15.9   0.0       0.02   15.1   0.0    1.3  1  Gmad2            Immunoglobulin-like domain of bacterial spor
      0.062   12.4   0.1        2.5    7.2   0.0    2.1  2  Polysacc_synt_2  Polysaccharide biosynthesis protein


Domain annotation for each model (and alignments):
>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  146.6   0.1   2.3e-46     6e-43       3     193 ..       3     188 ..       1     190 [. 0.95

  Alignments for each domain:
  == domain 1  score: 146.6 bits;  conditional E-value: 2.3e-46
                              EEEESTTSHHHHHHHHHHHHTT-EEEEEESCHHHHHHHHHHHHHTTSEEEEEE-TTTSHHHHHHHHHHHHHHHSSESEEEE---SS CS
                adh_short   3 vlvtGassGIGraiakelakeGakvvvvdrseekleevakelkeegakalaiqvDvtdreevealvekavkklgkldvLvnNAGit 88 
                              +++tG++ GIG+ +ak +++eG +v +++r+ ek      e+k++ +++ ++qv+v +ree++a++ +     g+ld++v+NAG +
  PHY93_14665|PHY93_14665   3 IFITGGTTGIGLSLAKLYLEEGHRVGICARNLEKF---PVEIKNKYKQLKCYQVNVVNREELRAAMFDF--ANGELDIVVANAGRS 83 
                              89*****************************6655...9999999999***************999888..57************9 PP

                              --SSGGGCSHHHHHHHHHHHTHHHHHHHHHHHHHHHHCTTEEEEEEEEGGGTSB-TTBHHHHHHHHHHHHHHHHHHHHHGGGTEEE CS
                adh_short  89 gsgpfselseeewervievNltgvflltravlpamlkqssGrIvnvsSvagkvpvagvaaYsAsKaavagltrslakelaptgirv 174
                                ++ +  + +  +++i++N++gv+++ + +l+ ml +++G+ v ++Svag+++++g  aYsAsKaav +l +s + +l+++gi v
  PHY93_14665|PHY93_14665  84 VGAKSKTPQFSVANDIIDINVKGVLNTFEFALEIMLPKKKGHLVATASVAGFMGLPGAGAYSASKAAVLKLCESYSIDLKRSGIAV 169
                              999999999999************************************************************************** PP

                              EEEEESSBSSHHHHHHCTH CS
                adh_short 175 navaPGlvdTdmakelrek 193
                              +a+aPG++dT+++++ ++k
  PHY93_14665|PHY93_14665 170 TAIAPGFIDTPLTQQNNHK 188
                              **************99876 PP

>> adh_short_C2  Enoyl-(Acyl carrier protein) reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   98.4   0.1   1.8e-31   4.6e-28       4     197 ..      10     200 ..       7     213 .. 0.85

  Alignments for each domain:
  == domain 1  score: 98.4 bits;  conditional E-value: 1.8e-31
                              TSHHHHHHHHHHHTT-EEEEEESSGGHHHHHHHHHHHTTSE.EEE--TTSHHHHHHHHHHHHHHHSSEEEEEE-----EGCSS-GG CS
             adh_short_C2   4 sgIGraiAkalaeeGaevvltdlneeakkrveelaeelgae.vlecDVtdeeqvealveevvekfgklDilvnnagiapklkgpfl 88 
                               gIG  +Ak++ eeG +v ++ +n e+     e+++++++   ++++V ++e+++a++ + ++  g+lDi+v nag +    ++  
  PHY93_14665|PHY93_14665  10 TGIGLSLAKLYLEEGHRVGICARNLEK--FPVEIKNKYKQLkCYQVNVVNREELRAAMFDFAN--GELDIVVANAGRSVG--AKSK 89 
                              7**********************9998..55677777776548***********999888764..99***********99..4444 PP

                              GH-HHHHHHHHHHHTHHHHHHHHHHHHHCTSC..CEEEEEEEGGGTSBSTTTTHHHHHHHHHHHHHHHHHHHHGGGTEEEEEEEE- CS
             adh_short_C2  89 etsreefdraldvnlyslfllakaalplmkeg..gsivnlssvgaervvpnynaygaaKaalealtrylAvelgpkgiRvNavspg 172
                              + + +  ++++d+n+++++++ + al++m ++  g +v+++sv++ +++p+  ay+a+Kaa+ +l+ +   +l + gi v a++pg
  PHY93_14665|PHY93_14665  90 TPQFSVANDIIDINVKGVLNTFEFALEIMLPKkkGHLVATASVAGFMGLPGAGAYSASKAAVLKLCESYSIDLKRSGIAVTAIAPG 175
                              555667789******************5533336**************************************************** PP

                              -BHCTGGGGSTTHHHHHHHHHHHST CS
             adh_short_C2 173 pikTlaasgikgfdelleelearap 197
                              +i+T+++++ +++  +l  +e+ a 
  PHY93_14665|PHY93_14665 176 FIDTPLTQQNNHKMPFLMSSEKAAK 200
                              ******9999887766666655554 PP

>> KR  KR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.6   0.0   1.1e-10   2.8e-07       4     162 ..       4     157 ..       2     178 .. 0.87

  Alignments for each domain:
  == domain 1  score: 30.6 bits;  conditional E-value: 1.1e-10
                              EEETTTSHHHHHHHHHHHHHHS-EEEEE-SS..--HHHHHHHHHHHHTT-EEEE----TT-HHHHHHHHHHHHHHSS---EEEE-- CS
                       KR   4 litGGlGgLGlelarwlaekgarhlvllsRsaaadedskaliaelealgaevevvaaDvsdkdavealleeikaeeppikGvihaA 89 
                              +itGG+ g+Gl+la+  +e+g r + +++R+       +++  e++++  + +++++ v ++++++a++ ++   ++++  v+  A
  PHY93_14665|PHY93_14665   4 FITGGTTGIGLSLAKLYLEEGHR-VGICARN------LEKFPVEIKNKYKQLKCYQVNVVNREELRAAMFDFA--NGELDIVVANA 80 
                              69******************975.8899999......3457779999999******************99997..5689******* PP

                              -------TTT--HHHHHHHHTTTTHHHHHHHHHTTT....S--SEEEEEEEHHHHH--TT-HHHHHHHHHHHHHHHH CS
                       KR  90 gvlrdklleemtaedleqvlapKvkGawnLhelled....esldffvlfSSiagllgsagqanYaaaNaflDalaey 162
                              g +  ++ ++ + +  + ++   vkG+ n  e+  +    ++  ++v ++S+ag++g +g ++Y+a  a +  l+e+
  PHY93_14665|PHY93_14665  81 GRSVGAKSKTPQFSVANDIIDINVKGVLNTFEFALEimlpKKKGHLVATASVAGFMGLPGAGAYSASKAAVLKLCES 157
                              ****************************9887766666669999**********************98887666664 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.7   0.2   6.7e-10   1.7e-06       1     161 [.       3     163 ..       3     215 .. 0.79

  Alignments for each domain:
  == domain 1  score: 27.7 bits;  conditional E-value: 6.7e-10
                              EEEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHC...EEEE--TT-HHHHHHHHHHH...T-SEEEE--S---HHHH CS
                Epimerase   1 ilVtGatGfiGsalvkallekgyevigldrlssasntarledl...elveldltdrsalerlfkee...qpdavihlAavggvaas 80 
                              i++tG+t  iG  l+k  le+g++v   +r+ ++++ + +++    + +++++ +r++l++++ ++   + d+v+  A+ +  a s
  PHY93_14665|PHY93_14665   3 IFITGGTTGIGLSLAKLYLEEGHRVGICARNLEKFPVEIKNKYkqlKCYQVNVVNREELRAAMFDFangELDIVVANAGRSVGAKS 88 
                              79**********************9999999999999988888999***********99998655433488988888774333332 PP

                              ....HHSHHHHHHHHTHHHHHHHHHHHHH..TCTEEEEEEEGGGGTSCSSSSBSTCSTTS----SSHHHHHHHHHHHHHHHHHHHH CS
                Epimerase  81 ....sedpadfieknlqgtlnlleaarka..gvkrllflsSsevYGkdaeqpkeettltgplkpnspYaaaKlageklveayaaqy 160
                                  ++ ++d+i++n++g+ln +e a +     k+ + + +++v G +              +   +Y+a+K+a+ kl+e+y  + 
  PHY93_14665|PHY93_14665  89 ktpqFSVANDIIDINVKGVLNTFEFALEImlPKKKGHLVATASVAGFMGL------------PGAGAYSASKAAVLKLCESYSIDL 162
                              112256679******************88656669999999999995554............56789*************997554 PP

                              T CS
                Epimerase 161 g 161
                              +
  PHY93_14665|PHY93_14665 163 K 163
                              4 PP

>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.3   0.1   7.9e-06      0.02       1     132 [.       4     132 ..       4     163 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 7.9e-06
                              EEETTTSHHHHHHHHHHHHCT-CCEEEEEEESS-TTHHHHHCTTT...TTGCCEEEEE--TT-HHHHHHHHHHH...T-SEEEE-- CS
            GDP_Man_Dehyd   1 LiTGiaGfiGsylaelLlekgyevhgivrrsssfntgriehlakdpkeeleenlklhkgDltDssslerllaev...qpdevynLA 83 
                              +iTG++  iG  la+l le+g++v gi+ r+ +    +i++ +k        +lk +++++ ++++l+ ++ +    + d v+  A
  PHY93_14665|PHY93_14665   4 FITGGTTGIGLSLAKLYLEEGHRV-GICARNLEKFPVEIKNKYK--------QLKCYQVNVVNREELRAAMFDFangELDIVVANA 80 
                              69*********************9.5555555555456666553........588999*****99999986544333889888877 PP

                              S---HHHH....TTSHHHHHHHHTHHHHHHHHHHHHCT..TTSEEEEEEEGGG CS
            GDP_Man_Dehyd  84 AqshVdvs....fekPeytaevnvlGtlrLLeairalglekkvrfyqaStsEv 132
                              + s  ++s    f+ +   +++nv G+l+ +e + ++ l +k++ + + t+ v
  PHY93_14665|PHY93_14665  81 GRSVGAKSktpqFSVANDIIDINVKGVLNTFEFALEIML-PKKKGHLVATASV 132
                              777655543333677788999999999999999988876.4566666666665 PP

>> Gmad2  Immunoglobulin-like domain of bacterial spore germination
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.1   0.0   7.7e-06      0.02      16      62 ..     101     147 ..      90     162 .. 0.89

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 7.7e-06
                    Gmad2  16 pvkvsGkarvFEatvnvrlrddagevlaegfvtAdegapkfgdFeat 62 
                               ++v+G+ ++FE ++ + l +++g+++a+++v +  g p+ g ++a+
  PHY93_14665|PHY93_14665 101 DINVKGVLNTFEFALEIMLPKKKGHLVATASVAGFMGLPGAGAYSAS 147
                              589*****************************************997 PP

>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2   0.0   0.00097       2.5       1     115 [.       3     114 ..       3     121 .. 0.64
   2 ?    3.3   0.0     0.014        36     192     234 ..     181     223 ..     172     240 .. 0.78

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.00097
                              EEEETTTSHHHHHHHHHHHHHB-SEEEEEES-HHHHHHHHHH......-TTEEEE....E--TT-HHHHHHHTT.....T-SEEEE CS
          Polysacc_synt_2   1 vlvtGagGsiGselvrqilkkkpkkiillerdElklyeiekeleeelkkkklkveivpvigdvrdkerlekaleel...kvdvvfh 83 
                              +++tG++  iG +l +  l++  +  i   + E+   ei++++      k+lk++      +v ++e+l+ a+ ++   + d+v+ 
  PHY93_14665|PHY93_14665   3 IFITGGTTGIGLSLAKLYLEEGHRVGICARNLEKFPVEIKNKY------KQLKCY----QVNVVNREELRAAMFDFangELDIVV- 77 
                              78****************9999888888888888888998887......235555....34566777777766544211455555. PP

                              ------HHHHHHSHH.....HHHHHHHHHHHHHHHHH CS
          Polysacc_synt_2  84 aAAlKhVPlveenpl.....eaiktNvlgtenvieaa 115
                              a A + V +  + p      + i+ Nv g  n+ e a
  PHY93_14665|PHY93_14665  78 ANAGRSVGAKSKTPQfsvanDIIDINVKGVLNTFEFA 114
                              5555666666555541111134444566666666555 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.014
                              EEES-TT-EEEEE-HHHHHHHHHHHHHH--SS-EEEE--.-EE CS
          Polysacc_synt_2 192 vtvTdpemtRyfmtieeavqLvlqalalakggeifvldmGepv 234
                              +t  +++ + ++m+ e+a++L+  al++ k   if   m   v
  PHY93_14665|PHY93_14665 181 LTQQNNHKMPFLMSSEKAAKLIKRALEKKKALYIFPFRMKIIV 223
                              45555556679****************9999999988883333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (247 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       597  (0.033298); expected 358.6 (0.02)
Passed bias filter:                      499  (0.027832); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.51u 0.29s 00:00:00.80 Elapsed: 00:00:00.46
# Mc/sec: 1612.16
//
Query:       PHY93_14670|PHY93_14670  [L=83]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
     0.0039   17.2   2.4     0.0052   16.8   2.4    1.1  1  GN3L_Grn1       GNL3L/Grn1 putative GTPase
  ------ inclusion threshold ------
      0.011   16.1   0.2      0.017   15.4   0.2    1.4  1  DUF4969         Domain of unknown function (DUF4969)
        0.1   12.3   1.7       0.25   11.0   0.2    1.9  2  DUF4972         Domain of unknown function (DUF4972)
       0.12   11.3   2.1       0.14   11.1   2.1    1.1  1  Trep_dent_lipo  Treponema clustered lipoprotein (Trep_dent_li


Domain annotation for each model (and alignments):
>> GN3L_Grn1  GNL3L/Grn1 putative GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   2.4   1.2e-06    0.0052      20      61 ..      26      69 ..      15      73 .. 0.74

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 1.2e-06
                             HTT-XXXXXXXXXX..XXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                GN3L_Grn1 20 eakknptwkskkkk..dpgIPnsfPfKeeiLeeieekkrkkeee 61
                             eakk + + +k  k  +  +P+ +  Ke+iL+++eekk++++e 
  PHY93_14670|PHY93_14670 26 EAKKVEIKTDKVSKttEAVVPAPCDSKEDILKKLEEKKKAEAES 69
                             5555555555666633679*******************999885 PP

>> DUF4969  Domain of unknown function (DUF4969)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.4   0.2   3.9e-06     0.017       7      52 ..       4      42 ..       1      55 [. 0.73

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 3.9e-06
                  DUF4969  7 lLvsvLvlFillavaCsdsedneesveiilkeielsvddpiklvde 52
                             lL+ +L+lF++   aCs     ee   +  k++e+   d +  ++e
  PHY93_14670|PHY93_14670  4 LLMTALMLFSF--SACSK----EEAKSVEAKKVEIK-TDKVSKTTE 42
                             7889******9..68999....55555556788887.455555555 PP

>> DUF4972  Domain of unknown function (DUF4972)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.2   5.6e-05      0.25      12      52 ..       3      40 ..       1      45 [. 0.77
   2 ?    1.8   0.2      0.04   1.8e+02      75     105 ..      40      70 ..      33      79 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 5.6e-05
                  DUF4972 12 ivllallamlalisCsddddesytaveevkteiyieqleel 52
                             ++l+++l+   + +Cs ++ +   +ve  k+ei  +++++ 
  PHY93_14670|PHY93_14670  3 YLLMTALMLFSFSACSKEEAK---SVEAKKVEIKTDKVSKT 40
                             7899**************999...55666666666766665 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.04
                  DUF4972  75 esraiLedaivklkesiakikegnkaeaeee 105
                              +  a++    ++ ++ ++k++e++kaeae+ 
  PHY93_14670|PHY93_14670  40 TTEAVVPAPCDSKEDILKKLEEKKKAEAESG 70 
                              5556666666777888999999999998765 PP

>> Trep_dent_lipo  Treponema clustered lipoprotein (Trep_dent_lipo)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   2.1     3e-05      0.14       7      77 ..       3      68 ..       1      76 [. 0.58

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 3e-05
           Trep_dent_lipo  7 fiLiLavLLfsCskevkeqkeeetkvekeakiekksklieeneilskeeededvktPelikeleek.kayee 77
                             ++L+ a++Lfs s   ke++++    + e+k +k sk   e  +++  +  ed      +k+leek ka +e
  PHY93_14670|PHY93_14670  3 YLLMTALMLFSFSACSKEEAKSVEAKKVEIKTDKVSKTT-EAVVPAPCDSKED-----ILKKLEEKkKAEAE 68
                             689********8777776655544445555655554432.3344444444443.....45778777344444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (83 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       972  (0.0542138); expected 358.6 (0.02)
Passed bias filter:                      454  (0.0253221); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.42u 0.26s 00:00:00.68 Elapsed: 00:00:00.43
# Mc/sec: 585.89
//
Query:       PHY93_14675|PHY93_14675  [L=231]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.7e-44  149.2   0.0    8.7e-44  148.5   0.0    1.3  1  TrmO             tRNA-methyltransferase O
    1.3e-11   44.5   0.0    2.1e-11   43.7   0.0    1.3  1  TrmO_C           TrmO C-terminal domain
  ------ inclusion threshold ------
       0.13   12.5   0.0        0.2   11.9   0.0    1.2  1  Phospholip_A2_2  Phospholipase A2


Domain annotation for each model (and alignments):
>> TrmO  tRNA-methyltransferase O
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  148.5   0.0   1.5e-47   8.7e-44       2     118 ..      34     150 ..      33     151 .. 0.95

  Alignments for each domain:
  == domain 1  score: 148.5 bits;  conditional E-value: 1.5e-47
                              S-SSGGG--.-EEEEEE-HHH..HGGGTTGGG-SEEEEEEE-T.TS...-.SS--E-TT-.SS-E.EGGGS--S-SSS-EEEEEEE CS
                     TrmO   2 iPrqpglaeeaeaeielepeynseealegleefshlwllfvfh.enaekklkakvrpprlggnervGvfatRsphRpnpiglsvvk 86 
                              iPrqpgl++  e++ie+ p+yn++eal gle+fshlw++f fh  +++++ + +vrpprlggn++ GvfatRsp+Rpn+igls+vk
  PHY93_14675|PHY93_14675  34 IPRQPGLVS-FESKIEMLPPYNRPEALAGLEDFSHLWVIFDFHgIETTDNSSLTVRPPRLGGNKKRGVFATRSPNRPNNIGLSLVK 118
                              8*******9.9********************************6444566699********************************* PP

                              EEEEETTEEEEES----TT-EEEEEEE--HHH CS
                     TrmO  87 lekvegnvlevsgvDlldgtpvlDiKPYvpya 118
                              l ++eg+ l +sg D+ld+tpv+DiKPY++++
  PHY93_14675|PHY93_14675 119 LLRIEGTNLIISGGDFLDQTPVYDIKPYLKEI 150
                              ****************************9875 PP

>> TrmO_C  TrmO C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.7   0.0   3.6e-15   2.1e-11      19      64 ..     179     222 ..     167     223 .. 0.86

  Alignments for each domain:
  == domain 1  score: 43.7 bits;  conditional E-value: 3.6e-15
                   TrmO_C  19 qksapdlkqlIeevLaqDPRPaYkkskpeeriYgmrLydlnirwrv 64 
                              ++  ++lk+ I+evL++DPRP Y+++  + ++Yg rL +++++w+v
  PHY93_14675|PHY93_14675 179 ENLDESLKEKIIEVLSLDPRPRYHED--GYKQYGSRLGEVDVHWEV 222
                              567789********************..669*************97 PP

>> Phospholip_A2_2  Phospholipase A2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   3.4e-05       0.2      47      72 ..     162     187 ..     151     194 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 3.4e-05
                              TTEE--SSS-EEBHHHHHHHHHHHHT CS
          Phospholip_A2_2  47 ygltnkklftlshCecdeefrkCLkk 72 
                               +l n++l  ++hCecde++ + Lk+
  PHY93_14675|PHY93_14675 162 DDLSNTRLKVVFHCECDENLDESLKE 187
                              5799*****************99987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (231 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       304  (0.0169558); expected 358.6 (0.02)
Passed bias filter:                      294  (0.016398); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.38
# Mc/sec: 1803.80
//
Query:       PHY93_14680|PHY93_14680  [L=183]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.6e-48  163.2   0.0    4.1e-48  163.0   0.0    1.0  1  Pep_deformylase  Polypeptide deformylase


Domain annotation for each model (and alignments):
>> Pep_deformylase  Polypeptide deformylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  163.0   0.0   2.3e-52   4.1e-48       2     157 ..       4     163 ..       3     165 .. 0.95

  Alignments for each domain:
  == domain 1  score: 163.0 bits;  conditional E-value: 2.3e-52
                              GG---TT-GGGCS--B---..BSSHHHHHHHHHHHHHHHHHCT-SEEEGGGGT--BSEEEEECCSS-ETT....S..EEEEEEEEE CS
          Pep_deformylase   2 kkivkvgdpvLrekakpve..kfeskelekllekmletmkeakgvgLAApQigvnkrlfvielpseeeeeeenke..ltvliNPki 83 
                              ++++++g+p+Lr++a+pv   ++++ e+++ll+ m++tmk   g+g+AApQi+v+k++++ielp ++e     ++  l+++iNP+i
  PHY93_14680|PHY93_14680   4 RPVIRMGHPTLRQTAEPVIlsEINTPEFKELLASMYDTMKVEGGIGIAAPQINVSKQVTLIELPANNERYGTLDSspLYIIINPEI 89 
                              57999*************866888999**************************************999877655578********* PP

                              EECSCEEECCEE--TTSTT--CEEEEESCEEEEEE-TTS-EEEEEEEHHHHHHHHHHHHHCTT--GGGGC-TTX CS
          Pep_deformylase  84 tskseetitdeEgClSvpgieakVeRskrikvkyldltgkeveleaegllArvlqHEiDhlnGklfidridkse 157
                              t  ++e++ ++EgClSvpg+++ VeR++ ++++y+d+ g+  +  ae++lA v+qHE+Dhl Gkl+idr+++++
  PHY93_14680|PHY93_14680  90 TIIDSELQGFWEGCLSVPGLRGFVERPRIVQIDYTDEFGELKQFIAENFLATVFQHELDHLFGKLYIDRVTDTT 163
                              *********************************************************************99876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (183 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       296  (0.0165096); expected 358.6 (0.02)
Passed bias filter:                      268  (0.0149478); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.36u 0.21s 00:00:00.56 Elapsed: 00:00:00.35
# Mc/sec: 1566.29
//
Query:       PHY93_14685|PHY93_14685  [L=169]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    7.7e-24   83.6   0.1    1.2e-23   83.1   0.1    1.3  1  GreA_GreB_N  Transcription elongation factor, N-terminal
    1.3e-23   82.7   0.6    2.1e-23   82.0   0.6    1.3  1  GreA_GreB    Transcription elongation factor, GreA/GreB, C-te


Domain annotation for each model (and alignments):
>> GreA_GreB_N  Transcription elongation factor, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   83.1   0.1   1.3e-27   1.2e-23       1      71 []      16      86 ..      16      86 .. 0.98

  Alignments for each domain:
  == domain 1  score: 83.1 bits;  conditional E-value: 1.3e-27
                             EEE-HHHHHHHHHHHHHHHHXHHHHHHHHHHHHHHHSSSTSSHHHHHHHHHHHHHHHHHHHHHHHHHTEEE CS
              GreA_GreB_N  1 iylTkegyekleeeLeelktverpeiaeaikeareeGDlsENaeYdaAkeeqaeiearIreLedkLanaev 71
                             +y+T++g+ kl+eeL++l + erpe+++++++a+++GD+sENa+Y + k++++ei++r+r+L+++++ a++
  PHY93_14685|PHY93_14685 16 NYITPKGLLKLQEELHQLARGERPEVTKTVAWAASNGDRSENADYIYGKKRLREIDRRVRFLTHRIDLAVI 86
                             59****************************************************************99987 PP

>> GreA_GreB  Transcription elongation factor, GreA/GreB, C-term
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   82.0   0.6   2.4e-27   2.1e-23       2      77 .]      93     167 ..      92     167 .. 0.97

  Alignments for each domain:
  == domain 1  score: 82.0 bits;  conditional E-value: 2.4e-27
                              ..SS--TT-EEEEE-.SS--EEEE----TTT-BS-SSB--TTSHHHHHHTT--TT-EE---BTTB---EEEEEEX. CS
                GreA_GreB   2 pkdvVtfGstVtledldtgeeetytiVgpdeadpskgkiSveSPlGkaLlgkkvGdevevkapsgkikveIlkiey 77 
                              ++d+V+fG+ V + d ++g  +++ iVg de+d+ kg iS+ SP+G++L+gk+vGd++ev++p+g i++eIl+i y
  PHY93_14685|PHY93_14685  93 TSDKVQFGASVLIAD-EEGVSRSVSIVGVDEIDTNKGFISWRSPIGSSLIGKEVGDTIEVRTPKGIITFEILEIIY 167
                              679************.*********************************************************965 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (169 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       369  (0.0205812); expected 358.6 (0.02)
Passed bias filter:                      326  (0.0181828); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 1282.37
//
Query:       PHY93_14690|PHY93_14690  [L=124]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    0.00029   20.7   1.0        0.6    9.9   0.0    2.1  2  DUF4254         Protein of unknown function (DUF4254)
     0.0015   18.6   0.1     0.0018   18.2   0.1    1.2  1  rRNA_proc-arch  rRNA-processing arch domain


Domain annotation for each model (and alignments):
>> DUF4254  Protein of unknown function (DUF4254)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.9   0.0   6.7e-05       0.6      75     106 ..       8      39 ..       1      52 [. 0.85
   2 !    9.8   0.4   7.4e-05      0.66       2      55 ..      56     112 ..      55     123 .. 0.75

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 6.7e-05
                  DUF4254  75 tpgaaiDRlSilaLkiyhmeeeaertdaseeh 106
                              ++g ++D +Sil +k++++e  a+   +++e 
  PHY93_14690|PHY93_14690   8 SLGELVDKISILRIKLQKIEDPAKLIHVEKEE 39 
                              899****************9999888887765 PP

  == domain 2  score: 9.8 bits;  conditional E-value: 7.4e-05
                  DUF4254   2 elvyekhrintvlwhlediardpdvd...daeiaklkreIDklnqeRndlveriDsl 55 
                              + + e + in +lw+ ed +r+ + +   ++e ++l r +  +n eR +  + i ++
  PHY93_14690|PHY93_14690  56 HHINEMVDINLTLWKIEDDIREFERTknfNQEFIELARLVYITNDERFNRKNTINTI 112
                              56788899*************765551115788999999999999988776666655 PP

>> rRNA_proc-arch  rRNA-processing arch domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.1     2e-07    0.0018      20      89 ..      19     103 ..       6     116 .. 0.78

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 2e-07
                              HHHHHHHHHHHHHTC--TTHHH..................HHHHHHHHHHHHHHHHHHHHHHCSHHHHGGG--TTEEEEEEETTTE CS
           rRNA_proc-arch  20 lekklkeleeelksitiedeed..................ieeyyklrqqleelreeirkiltkpknilpfLqpGRlvrvksnddl 87 
                              l  kl+++e   k i++e+e +                  i e ++++ +l +++ +ir++  +++  + f+   Rlv+++  +d+
  PHY93_14690|PHY93_14690  19 LRIKLQKIEDPAKLIHVEKE-EfalstslnslnlvnidhhINEMVDINLTLWKIEDDIREFERTKNFNQEFIELARLVYIT--NDE 101
                              55577777777777777763.2355555566666666666****************************************8..445 PP

                              EE CS
           rRNA_proc-arch  88 df 89 
                              +f
  PHY93_14690|PHY93_14690 102 RF 103
                              55 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (124 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       724  (0.0403815); expected 358.6 (0.02)
Passed bias filter:                      310  (0.0172904); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.40u 0.23s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 950.66
//
Query:       PHY93_14695|PHY93_14695  [L=263]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.7e-06   28.0   0.0    8.9e-06   26.3   0.0    1.8  2  Methyltransf_25  Methyltransferase domain
      3e-06   27.9   0.0      7e-06   26.7   0.0    1.6  1  Methyltransf_12  Methyltransferase domain
    3.4e-06   26.9   0.0    5.7e-06   26.2   0.0    1.3  1  Methyltransf_31  Methyltransferase domain
    5.2e-05   23.8   0.0    0.00013   22.6   0.0    1.7  2  Methyltransf_11  Methyltransferase domain
    0.00021   21.2   0.2    0.00051   19.9   0.2    1.6  1  Methyltransf_23  Methyltransferase domain
  ------ inclusion threshold ------
       0.02   14.4   0.0      0.045   13.3   0.0    1.5  1  MTS              Methyltransferase small domain


Domain annotation for each model (and alignments):
>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.3   0.0     3e-09   8.9e-06       6      97 .]      48     144 ..      46     144 .. 0.79
   2 ?   -2.5   0.0       2.9   8.8e+03      42      59 ..     199     217 ..     191     226 .. 0.58

  Alignments for each domain:
  == domain 1  score: 26.3 bits;  conditional E-value: 3e-09
                              -TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHH.....TTTTEEEEESBC.CGBSSSTTTEEEEEEESTGGG...SSHHHH CS
          Methyltransf_25   6 cGtGrltlalakrlgkakvtgvDiseemleaareraee.....eglnvefvqgda.edlpfedgsfDlvvssgalhh...lsdedl 82 
                              cGtG ++ a+ ++ +k+k +g+D++ e + +  e++       e+ ++ef+ g++ ++++f+    D++v++ ++++    +++dl
  PHY93_14695|PHY93_14695  48 CGTGSMACAWVAQSKKHKAHGIDLDMEPISYGVENHLFkleeeEQTRMEFILGNVmSNYDFKT---DVIVAF-NFSYflfKQRADL 129
                              *******999999779*************99876553334333556********956688876...999995.4444222467899 PP

                              HHHHHHHHHHEEEEE CS
          Methyltransf_25  83 ekalkeiarvLkpgG 97 
                               k++ +++++Lk++G
  PHY93_14695|PHY93_14695 130 VKYFTQVRKHLKKDG 144
                              *************99 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 2.9
                              HHTTT.TEEEEESBCCGBS CS
          Methyltransf_25  42 eeegl.nvefvqgdaedlp 59 
                              ++e++ + +++  da++l+
  PHY93_14695|PHY93_14695 199 KHEKVfRYDWRMWDARELQ 217
                              4455556666666666665 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.7   0.0   2.3e-09     7e-06       5      98 ..      48     145 ..      48     146 .. 0.89

  Alignments for each domain:
  == domain 1  score: 26.7 bits;  conditional E-value: 2.3e-09
          Methyltransf_12   5 cGtGsllralleklpdieytgvDispsai.edakeklakrennnnnnvelealdlldldggssfDlvvasnvlhhl....kdirev 85 
                              cGtGs++ a+ ++ +  + +g+D++ + i    +++l k e++  +++e+   ++ +  +  + D++va+n+   l    +d+ ++
  PHY93_14695|PHY93_14695  48 CGTGSMACAWVAQSKKHKAHGIDLDMEPIsYGVENHLFKLEEEEQTRMEFILGNVMSNYDF-KTDVIVAFNFSYFLfkqrADLVKY 132
                              *****************************84556666666777778888888888888887.*********99999*999****** PP

          Methyltransf_12  86 ldnirklLkpgGr 98 
                              + ++rk+Lk++G 
  PHY93_14695|PHY93_14695 133 FTQVRKHLKKDGA 145
                              ***********96 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.2   0.0   1.9e-09   5.7e-06      12     130 ..      48     174 ..      43     207 .. 0.79

  Alignments for each domain:
  == domain 1  score: 26.2 bits;  conditional E-value: 1.9e-09
          Methyltransf_31  12 CGtGeltfelaeelgpkaevvGiDiseeaielAre....naqklgldnveFeqgdiee.leklledekfDlilsnevl....nala 88 
                              CGtG  + ++     +k + +GiD + e i++  e    ++++ + +++eF  g++ +  +      k D+i+++++        a
  PHY93_14695|PHY93_14695  48 CGTGSMACAWV-AQSKKHKAHGIDLDMEPISYGVEnhlfKLEEEEQTRMEFILGNVMSnYD-----FKTDVIVAFNFSyflfKQRA 127
                              ***********.55567789************999777778889999**********9566.....559******7766678999* PP

          Methyltransf_31  89 dpdkileeiervlkpggilliedpr...llaelpakveeeskay..e 130
                              d+ k++ ++ + lk++g++ i+ +    + + l ++v+++s+ y   
  PHY93_14695|PHY93_14695 128 DLVKYFTQVRKHLKKDGAFFIDLFGgteTRKPLEESVKHKSHTYywD 174
                              **********************9996444444447777777755441 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.6   0.0   4.3e-08   0.00013       5      96 .]      48     148 ..      46     148 .. 0.79
   2 ?   -3.2   0.0       4.6   1.4e+04      49      89 ..     210     221 ..     190     228 .. 0.55

  Alignments for each domain:
  == domain 1  score: 22.6 bits;  conditional E-value: 4.3e-08
                              -TTSHHHHHHHHTT..SEEEEEES-HHHH......HHHHHHCCHHT-...EEEETTEECCC.TSS-TT-EEEEEEES-CCC-.... CS
          Methyltransf_11   5 cGtGrlaealakrg..arvvgvDlskeml......klakekaseegl...kvefvvadaek.lpfednsfDlvvssevlhhv.... 74 
                              cGtG++a+a+  +   ++  g+Dl+ e +       l k +     +   ++ef+ +++ +   f+    D++v++++  ++    
  PHY93_14695|PHY93_14695  48 CGTGSMACAWVAQSkkHKAHGIDLDMEPIsygvenHLFKLEE----EeqtRMEFILGNVMSnYDFKT---DVIVAFNFSYFLfkqr 126
                              ***********7777899*******99995443322223333....244589*******97235555...9999999888888878 PP

                              CCHHHHHHHHHHHEEEEEEEEE CS
          Methyltransf_11  75 edpekalkeiaRvLkpgGllvi 96 
                              +d+ k++ ++++ Lk++G ++i
  PHY93_14695|PHY93_14695 127 ADLVKYFTQVRKHLKKDGAFFI 148
                              8*****************9986 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 4.6
                              TEECCCTSS-TT-EEEEEEES-CCC-CCHHHHHHHHHHHEE CS
          Methyltransf_11  49 vadaeklpfednsfDlvvssevlhhvedpekalkeiaRvLk 89 
                                da++                             +  vLk
  PHY93_14695|PHY93_14695 210 MWDARE-----------------------------LQDVLK 221
                              444444.............................444444 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.9   0.2   1.7e-07   0.00051      31     161 ..      48     226 ..      47     227 .. 0.67

  Alignments for each domain:
  == domain 1  score: 19.9 bits;  conditional E-value: 1.7e-07
          Methyltransf_23  31 cGtGil.levlrengf.svtgvDlspeaveiaekakkaqkdqfdeqeaaepqg..............kfdlIvlrevlehvp.... 96 
                              cGtG++ +   ++  + +  g+Dl+ e ++     +  +++ f  +e+++  +              k+d+Iv++++ + +     
  PHY93_14695|PHY93_14695  48 CGTGSMaCAWVAQSKKhKAHGIDLDMEPIS-----YGVENHLFKLEEEEQT-RmefilgnvmsnydfKTDVIVAFNFSYFLFkqra 127
                              99**65266666664459******977777.....6777777744444443.257788888888899*******987665543446 PP

          Methyltransf_23  97 dppellrqiatllkpgGylllseplasl.........kedrllld..................wlyl...........vpagrhi. 143
                              d+ ++++q++++lk +G +++  ++            k      +                  +  l           v+ ++++ 
  PHY93_14695|PHY93_14695 128 DLVKYFTQVRKHLKKDGAFFIDLFGGTEtrkpleesvK------HkshtyywdcdkynpltadV--LyyihfkthkdqVK-HEKVf 204
                              9**********************976544554443331......35555554444444444441..04444444444322.24444 PP

          Methyltransf_23 144 ....sffsarslkelleeaGle 161
                                  ++++ar+l + l++aG++
  PHY93_14695|PHY93_14695 205 rydwRMWDARELQDVLKDAGFS 226
                              678899**************95 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   1.5e-05     0.045      40     137 ..      48     148 ..      45     170 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.5e-05
                              -TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHTTGC.....EEEEE-STTTTSTTS-EEEEEE.---STTTCHCHHHHHH CS
                      MTS  40 cGaGvlgaalakespeaevtlvdvdarAlesakenleankle.....vevvasdvleeveekkfdlivs.NPPfhagkatelavae 119
                              cG+G +++a  ++s++++ + +d d++ +    en   +  e     +e++  +v+++ +  k d+iv  N  f     ++ a   
  PHY93_14695|PHY93_14695  48 CGTGSMACAWVAQSKKHKAHGIDLDMEPISYGVENHLFKLEEeeqtrMEFILGNVMSNYD-FKTDVIVAfN--FSYFLFKQRADLV 130
                              ***************************99998888533222223446************9.****999625..4444433344555 PP

                              HHHHHHHHHEEEEEEEEE CS
                      MTS 120 eliaeAkeaLkegGeLli 137
                              + +++ +++Lk++G ++i
  PHY93_14695|PHY93_14695 131 KYFTQVRKHLKKDGAFFI 148
                              677888889999998877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (263 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       755  (0.0421105); expected 358.6 (0.02)
Passed bias filter:                      489  (0.0272742); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.54u 0.26s 00:00:00.80 Elapsed: 00:00:00.45
# Mc/sec: 1751.35
//
Query:       PHY93_21380|PHY93_21380  [L=149]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (149 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       657  (0.0366445); expected 358.6 (0.02)
Passed bias filter:                      320  (0.0178482); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.28s 00:00:00.80 Elapsed: 00:00:00.54
# Mc/sec: 838.04
//
Query:       PHY93_14700|PHY93_14700  [L=139]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (139 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       435  (0.0242624); expected 358.6 (0.02)
Passed bias filter:                      295  (0.0164538); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.29s 00:00:00.80 Elapsed: 00:00:00.53
# Mc/sec: 787.98
//
Query:       PHY93_14705|PHY93_14705  [L=162]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.4e-22   80.4   0.9    2.5e-22   79.5   0.9    1.4  1  NusB      NusB family


Domain annotation for each model (and alignments):
>> NusB  NusB family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.5   0.9   1.4e-26   2.5e-22       4     134 .]      15     160 ..      12     160 .. 0.84

  Alignments for each domain:
  == domain 1  score: 79.5 bits;  conditional E-value: 1.4e-26
                              HHHHHHHHHHHHHH-S-.................HHHHHHHHHHHT-.......--HHHHHHHHHHHHHHHHTHHHHHHHHHHTTT CS
                     NusB   4 Relalqalyqveinked.................eeekeailqealnklleeedldeedkafltelvkgvlrnleelDeliekllk 72 
                              Re+a++ +y+  +++                   +   +++ +e ++  + ++  d   k f+++l+ g lr++e   eliek+l 
  PHY93_14705|PHY93_14705  15 REYAFKFIYKHLLSDFVreknqiisdtksfedalNMFDQSYYEEDIE--HPDNVIDVHTKIFARDLILGSLRQEEANSELIEKYLS 98 
                              99*******99555444566676666555544444444444444444..7788899999*************************** PP

                              T--GGGS-HHHHHHHHHHHHHHTTS-SSHHHHHHH.HHHHHHHHS-HHHHHHHHHHHHHHHH CS
                     NusB  73 nwplerlskvdraiLrlavyellylddvPakvaineavelakkygdeksakFvNgVLrkvar 134
                                +l++++++ +a+L+l++ye+l+ +++ a+  ine+v++akky+  +s++F+N +L+k+a+
  PHY93_14705|PHY93_14705  99 TGNLQKVDRMNLAVLLLGTYEILHDKNTSANIFINEYVNIAKKYCPNDSQGFINSILDKLAK 160
                              ***********************************************************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (162 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       802  (0.044732); expected 358.6 (0.02)
Passed bias filter:                      477  (0.0266049); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.28s 00:00:00.81 Elapsed: 00:00:00.49
# Mc/sec: 991.20
//
Query:       PHY93_14710|PHY93_14710  [L=162]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.9e-16   60.4   0.1    2.7e-16   59.9   0.1    1.2  1  ATP-cone       ATP cone domain
  ------ inclusion threshold ------
      0.074   13.0   1.2       0.13   12.3   1.2    1.4  1  Zn_Tnp_IS1595  Transposase zinc-ribbon domain
       0.15   12.3   2.7          6    7.1   0.2    2.3  2  zf-Dof         Dof domain, zinc finger
       0.48   10.5   3.4        2.2    8.4   0.1    2.7  2  SapB_1         Saposin-like type B, region 1


Domain annotation for each model (and alignments):
>> ATP-cone  ATP cone domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.9   0.1     6e-20   2.7e-16       3      85 ..      51     136 ..      49     137 .. 0.97

  Alignments for each domain:
  == domain 1  score: 59.9 bits;  conditional E-value: 6e-20
                              EE-TTS-EEE--HHHHHHHHHHHHHH...-HHHHHHHHHHHHHHHHHHHIIT-BHHHHHHHHHHHHHHSS-HHHHHHHHHHHHHHH CS
                 ATP-cone   3 ViKRdGtvepfdvekIkraiekAceg...seeeideiaeeveaevrkrlrdgisteeIqdlvektliehpdyavaaayilyrnlrk 85 
                              ++K+dG++e++++ekI + ++kAc++   s ++i+ +++ ve  + +  + +++ +++++++++ l++ + +++++++++y+++++
  PHY93_14710|PHY93_14710  51 IVKKDGRRENYNREKIMKGLKKACQKrpiSIDDINLMINGVERSLLELSQTEVTASDLGEIIMDHLKKLDRVSYVRFASFYWDYQD 136
                              9*********************************************************************************9986 PP

>> Zn_Tnp_IS1595  Transposase zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   1.2   2.8e-05      0.13      20      44 ..       2      35 ..       1      37 [. 0.92

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 2.8e-05
            Zn_Tnp_IS1595 20 vCPhCgsrkayrikt.........rglfqCkeCr 44
                             +CP C  ++ + i +         r++ +C +C 
  PHY93_14710|PHY93_14710  2 HCPSCNAQETRVIDSrmlleensvRRRRKCDACE 35
                             6*******999998889****************6 PP

>> zf-Dof  Dof domain, zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.2   0.2    0.0052        23       5      15 ..       2      12 ..       1      14 [. 0.89
   2 ?    7.1   0.2    0.0013         6       7      36 ..      29      58 ..      23      67 .. 0.84

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.0052
                   zf-Dof  5 kCprCestntk 15
                             +Cp C++++t+
  PHY93_14710|PHY93_14710  2 HCPSCNAQETR 12
                             7*********8 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0013
                   zf-Dof  7 prCestntkFcYyNNyslsqPRyfCkaCrr 36
                              +C++ + +F  y N  ++ P  + k  rr
  PHY93_14710|PHY93_14710 29 RKCDACEMRFTTYENIHIQMPLIVKKDGRR 58
                             58*************999999777766665 PP

>> SapB_1  Saposin-like type B, region 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.9     0.074   3.3e+02       3       8 ..      31      36 ..      30      36 .. 0.89
   2 ?    8.4   0.1   0.00048       2.2      19      36 ..      59      76 ..      58      76 .. 0.91

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.074
                             HHHHHH CS
                   SapB_1  3 CdlCef 8 
                             Cd+Ce+
  PHY93_14710|PHY93_14710 31 CDACEM 36
                             *****8 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.00048
                             SS--HHHHHHHHHHHHHH CS
                   SapB_1 19 dNkTeeeIieaLekvCsk 36
                             +N + e+I++ L+k+C k
  PHY93_14710|PHY93_14710 59 ENYNREKIMKGLKKACQK 76
                             7999************75 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (162 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       973  (0.0542696); expected 358.6 (0.02)
Passed bias filter:                      619  (0.0345251); expected 358.6 (0.02)
Passed Vit filter:                        68  (0.00379274); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.51u 0.30s 00:00:00.81 Elapsed: 00:00:00.49
# Mc/sec: 1002.95
//
Query:       PHY93_14715|PHY93_14715  [L=418]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   1.5e-167  557.2   0.0   1.8e-167  557.0   0.0    1.0  1  SHMT             Serine hydroxymethyltransferase
    0.00053   19.3   0.0     0.0013   18.0   0.0    1.7  1  Aminotran_1_2    Aminotransferase class I and II
     0.0065   15.8   0.0      0.013   14.8   0.0    1.5  1  DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family


Domain annotation for each model (and alignments):
>> SHMT  Serine hydroxymethyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  557.0   0.0    3e-171  1.8e-167       3     399 .]      11     386 ..       9     386 .. 0.99

  Alignments for each domain:
  == domain 1  score: 557.0 bits;  conditional E-value: 3e-171
                              HHTHHHHHHHHHHHHHHHHSEE-STT-----HHHHHHHTSGGGG----EETTEESSST-HHHHHHHHHHHHHHHHHCT-STTTEEE CS
                     SHMT   3 esdpevaeiikkekerqkeeieliasenftskavlealGsvltnkyaeGyPGkryyGGcefvdeveelaqdrakelfkldpakwgv 88 
                                dpe++ ii+ e++rq++++eliasen+ts+av++a+Gs+ltnkyaeG+P kryyGGce+vd ve+la++ra +lf+ +    ++
  PHY93_14715|PHY93_14715  11 LIDPEIFGIIELERARQEDGLELIASENYTSPAVMQAQGSILTNKYAEGLPNKRYYGGCEYVDLVETLAIERANKLFNSK----FA 92 
                              57******************************************************************************....** PP

                              E---SSHHHHHHHHHHHHT-TT-EEEEESCTTTSTGGGT-BTSS-B-SHHHHHSEEEEE-B-TTTSSB-HHHHHHHHHHH--SEEE CS
                     SHMT  89 nvqplsGsqanlavytallepgdrilgldladGGhlthGakveskkisassklfesveykvdketglidydelekkakefkPkliv 174
                              nvqp+sGsqan+  y ++le gd++lg++la+GGhlthG++v++     s+klf++ +y++++et+ +d++ ++++a +++Pkliv
  PHY93_14715|PHY93_14715  93 NVQPHSGSQANMGAYFSMLEYGDKVLGMNLAEGGHLTHGSPVNF-----SGKLFKFSSYGLNPETERLDFNMIRETALAVRPKLIV 173
                              ********************************************.....************************************* PP

                              EE-SST-S---HHHHHHHHHHTT-EEEEE-GGGHHHHHTTSS--GCCTSSEEEEESSSTT-S-S-EEEEEC-SEEEEETTTEEEEH CS
                     SHMT 175 aGtsaysrlidyarlreiadevgayllvdmahiaGlvaagvipsPfeyadvvtttthktlrGprgglillrkgvksvdktgkevle 260
                              aG+say+r id++ +reiadevga l+vdmahiaGlva+g++ sP++ya+v+t+tthktlrGprgg+il++             +e
  PHY93_14715|PHY93_14715 174 AGASAYAREIDFKTFREIADEVGALLMVDMAHIAGLVATGLHNSPIPYAHVTTSTTHKTLRGPRGGIILTN-------------EE 246
                              ***********************************************************************.............69 PP

                              HHHHHHHHHHTTTT-SS--HHHHHHHHHHHHHCTSHHHHHHHHHHHHHHHHHHHHHHHTT-EEGGGS-SSSEEEEEGGGGTS-HHH CS
                     SHMT 261 elekkinsavfPglqGGPlnhviaakavalkealepefkvyqkqvlknakalaealkekgyklvsgGtdnhlvlvdlrekgldGkr 346
                              +l kk+ns +fPg+qGGPl hvia+kava+keal+  f +yqkqv++n+kala  l +kg+ lvsgGtdnhlvl++  + gl+Gk+
  PHY93_14715|PHY93_14715 247 DLFKKLNSNIFPGIQGGPLEHVIAGKAVAFKEALDSTFTTYQKQVIANSKALAASLIDKGIGLVSGGTDNHLVLLKTDSVGLSGKE 332
                              ************************************************************************************** PP

                              HHHHHHHTTEE-EEE--TTS.STTTT-SEEEEESHHHHHTT--HHHHHHHHHHH CS
                     SHMT 347 aekvlekvnitankntvPgd.ksalvtsGlrlGtpaltsrgfkeedlekvakfi 399
                              aek+le++ it+nkn +Pgd +s+++tsG+rlGtpa+t+rg++e+++  +a++i
  PHY93_14715|PHY93_14715 333 AEKALEHAGITCNKNMIPGDkRSPFITSGIRLGTPAITTRGLQEKHMVMLADWI 386
                              ********************99****************************9997 PP

>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.0   2.1e-07    0.0013     162     339 ..     180     351 ..      33     377 .. 0.61

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 2.1e-07
                              --B--HHHHHHHHHHHHHTTEEEEEEETTTTCBSSSSHTHHHHGGSTTSTTEEEEEESSSTTSSGGG-EEEEEE.EHHHHHHHHHH CS
            Aminotran_1_2 162 GtvatleeleklldlakkynlllfvDeaYagfvfgsldavatranveeepnllivgslsKafGlaGeRvGyilg.naavvsqlrkl 246
                                 ++ ++ +++   a++ ++ll+vD+a+ ++   +     ++    ++   + v++  +   l G R G+il   +++ + l++ 
  PHY93_14715|PHY93_14715 180 AREIDFKTFREI---ADEVGALLMVDMAHIAGLVAT----GLHNSPIPY---AHVTTSTTHKTLRGPRGGIILTnEEDLFKKLNSN 255
                              444555566666...****************99982....223333333...44555555556777788*****5559******** PP

                              HHHHTSSHHHHHHHH.HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSTEEEECCS.CSSEEEEEETHH..CHHHHHHHHHHTC CS
            Aminotran_1_2 247 srpflsssllqaava.aalsdallkqseleemrqrlqkrrkelrdeLaelglkvlasq.sgmflltdlsae..takelskkLleev 328
                                p++   +l +++a +a+  ++  +s +++ ++++++++k l ++L ++g+  ++    + ++l  ++    + ke+ k+L e+ 
  PHY93_14715|PHY93_14715 256 IFPGIQGGPLEHVIAgKAVAFKEALDSTFTTYQKQVIANSKALAASLIDKGIGLVSGGtDNHLVLLKTDSVglSGKEAEKAL-EHA 340
                              ******888888766255555555666********************99966555544344444445555554444444443.333 PP

                              TEEEEEGGGGT CS
            Aminotran_1_2 329 gvyvtpgtsft 339
                              g+ + ++ +++
  PHY93_14715|PHY93_14715 341 GITCNKNMIPG 351
                              66666655555 PP

>> DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.0   2.2e-06     0.013      93     203 ..     149     261 ..     146     285 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 2.2e-06
                              -TTTSSB-GGGC.GGG--TTEEEEEE.B-GGGB---HHHHHHHHHHCT-EEEEE-TT-TT-EETTEECCCSSSEEEEE-BTTSSS- CS
          DegT_DnrJ_EryC1  93 dpdtynidpaai.eaaitertkaIlp.VhlyGqvadmdalkaiaakhglkvieDaAhAlGatykgkkvGalgdaavfSFyptKnlt 176
                              +p+t  +d ++i e a+  r k I++ + +y +  d++  ++ia++ g  ++ D Ah  G    g +   +  a v      K+l 
  PHY93_14715|PHY93_14715 149 NPETERLDFNMIrETALAVRPKLIVAgASAYAREIDFKTFREIADEVGALLMVDMAHIAGLVATGLHNSPIPYAHVTTSTTHKTLR 234
                              577777888888345778888888864889999********************************9999999999999999***** PP

                              SSS-EEEEESTHHHHHHHHHHHBTTCE CS
          DegT_DnrJ_EryC1 177 tGeGGavvtndeelaekarvlrnhGlk 203
                                 GG+++tn+e+l +k++     G++
  PHY93_14715|PHY93_14715 235 GPRGGIILTNEEDLFKKLNSNIFPGIQ 261
                              **************9998876666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (418 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       480  (0.0267723); expected 358.6 (0.02)
Passed bias filter:                      453  (0.0252663); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.67u 0.25s 00:00:00.92 Elapsed: 00:00:00.49
# Mc/sec: 2553.40
//
Query:       PHY93_14720|PHY93_14720  [L=425]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.7e-55  188.3   0.3    2.6e-55  187.8   0.3    1.3  1  ketoacyl-synt    Beta-ketoacyl synthase, N-terminal domain
    5.7e-39  132.8   1.2      1e-38  132.0   1.2    1.4  1  Ketoacyl-synt_C  Beta-ketoacyl synthase, C-terminal domain
    4.2e-05   23.0   0.4     0.0001   21.8   0.4    1.6  1  Thiolase_N       Thiolase, N-terminal domain
  ------ inclusion threshold ------
      0.081   13.4   0.8        0.3   11.6   0.1    2.3  2  KAsynt_C_assoc   Ketoacyl-synthetase C-terminal extension


Domain annotation for each model (and alignments):
>> ketoacyl-synt  Beta-ketoacyl synthase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  187.8   0.3   5.8e-59   2.6e-55       2     253 .]      13     262 ..      12     262 .. 0.87

  Alignments for each domain:
  == domain 1  score: 187.8 bits;  conditional E-value: 5.8e-59
                              --EEEEEEEEEBTTBSSHHHHHHHHHTT---EEES-TTSSCGTTSBTSSTTEEE-BSS.EEE..STTEGGTTSTHHHHHHHCTS-H CS
            ketoacyl-synt   2 epvaivGmgarfPggndveefwelLlegrdaiselpadrwdadklydpparaagkiktklggfldvddfdpeffgispreaeamdp 87 
                              ++vai+Gmg+ +  g++++e+we+ ++g++++s +++      + ++  +++ag++k+          f  +   ++++ea + d+
  PHY93_14720|PHY93_14720  13 NRVAITGMGMITGLGHSLKETWENSIAGKSGVSLIEQ-----ANTEQMLTKIAGEVKN----------FSIAEHIMEAKEAGRYDR 83 
                              69*******************************9994.....3333357899999998..........77777778899******* PP

                              HHHHHHHHHHHHHHHHTS.-HHTC....TTGGEEEEEEESST.....HHHHHHHHHHHTTGGGSCTTHHHHHSTTHHHHHHHHHHT CS
            ketoacyl-synt  88 qqrllleaawealedagl.tpeel....dgsrvgvfiGvgag.....dyaalaaldedgsevkaspkavgavlanviagrisyalg 163
                              ++++++  a+eal+dagl t++++    d  r+g ++Gvg+g     + ++   + e+g ++++sp++++av++n++ g is+++g
  PHY93_14720|PHY93_14720  84 FIHFAMHSAYEALNDAGLiTDHKMnstyDAHRMGSIMGVGIGgfpeiE-RTAHIMFEKG-PKRVSPFFIPAVIPNMATGLISIRFG 167
                              *****************945555566666666**********655322.2233334444.8************************* PP

                              --SSEEEEESGGGHHHHHHHHHHHHHHTTS-SEEEEEEEE---SHHHHHHHHHTTBB-TT..SGGGTTBTTB...-SB-BB-EEEE CS
            ketoacyl-synt 164 lrGpsvtvdtACsSslvavhaavqslrsgeadvalaGGvellltpeavagfsaagllspd..grckafdpka...dGfvlGEGvGa 244
                              l+G ++t+++AC+Ss+ a+ aa+ +++ g++dv++ GG+e+ +++ ++ gf  +++ls+   ++++a++p++   dGfvlGEG+G+
  PHY93_14720|PHY93_14720 168 LKGLNYTISSACASSAHALTAACYEIMFGRQDVMISGGSEAVVGQLGMSGFITMKALSRRndEPERASRPFDtgrDGFVLGEGAGI 253
                              *******************************************************555554999********************** PP

                              EEEEECHHH CS
            ketoacyl-synt 245 vvLkrleda 253
                              ++L+ +++a
  PHY93_14720|PHY93_14720 254 LILENYDKA 262
                              ****99876 PP

>> Ketoacyl-synt_C  Beta-ketoacyl synthase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  132.0   1.2   2.3e-42     1e-38       1     117 [.     270     384 ..     270     385 .. 0.98

  Alignments for each domain:
  == domain 1  score: 132.0 bits;  conditional E-value: 2.3e-42
                              SEEEEEEEEEE--STSSSTSTTHHHHHHHHHHHHHHHT--GGGEEEEE-SS-SSHHHHHHHHHHHHHHHGGGGGSCTSEEE-THHH CS
          Ketoacyl-synt_C   1 yavikgsavnsdgahnsltapngeaqaraiekalaeagvdpedvdyveahgtgtplgDpiElealkkvfgekarkqplavgSvKsn 86 
                              ya+i+g++++sd++h+++++p+g+++ + ++ a+++ag++ ++v+yv+ahgt+tplgD  E++a+k++fg+++  ++l v+S+Ks+
  PHY93_14720|PHY93_14720 270 YAEIVGHGATSDAHHITAPHPEGDGAYNSMKMAVENAGINFNEVGYVNAHGTSTPLGDIGETKAIKRTFGDHS--KNLLVSSTKSM 353
                              8***********************************************************************9..67********* PP

                              H-B-GGGHHHHHHHHHHHHHHHTEE--BTT- CS
          Ketoacyl-synt_C  87 iGHleaAaGvaelikvvlalkhgvipptlnl 117
                              +GHl++AaG +e+i +++al++g+ippt+nl
  PHY93_14720|PHY93_14720 354 TGHLLGAAGGIETIYCAMALHTGIIPPTINL 384
                              ******************************8 PP

>> Thiolase_N  Thiolase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.8   0.4   2.3e-08    0.0001      79     114 ..     173     208 ..     160     222 .. 0.92

  Alignments for each domain:
  == domain 1  score: 21.8 bits;  conditional E-value: 2.3e-08
                              EEEEHGGGHHHHHHHHHHHHHHTTSHSEEEEEEEEE CS
               Thiolase_N  79 vtvnkvcsSglkavalaaqsiaageadvvvagGvEs 114
                               t+  +c+S+++a+++a+ +i+ g+ dv++ gG E 
  PHY93_14720|PHY93_14720 173 YTISSACASSAHALTAACYEIMFGRQDVMISGGSEA 208
                              69********************************96 PP

>> KAsynt_C_assoc  Ketoacyl-synthetase C-terminal extension
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.1      0.58   2.6e+03      21      40 ..     300     319 ..     296     355 .. 0.66
   2 ?   11.6   0.1   6.7e-05       0.3      30      44 ..     411     425 .]     396     425 .] 0.87

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.58
           KAsynt_C_assoc  21 pwpggivgvNsfGfGGsnvH 40 
                              ++  + +g+N   +G +n+H
  PHY93_14720|PHY93_14720 300 KMAVENAGINFNEVGYVNAH 319
                              55667789999999999999 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 6.7e-05
           KAsynt_C_assoc  30 NsfGfGGsnvHviLk 44 
                              NsfGfGG+n+ ++Lk
  PHY93_14720|PHY93_14720 411 NSFGFGGTNSSLVLK 425
                              9************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (425 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       469  (0.0261587); expected 358.6 (0.02)
Passed bias filter:                      397  (0.0221429); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.59u 0.24s 00:00:00.83 Elapsed: 00:00:00.46
# Mc/sec: 2796.19
//
Query:       PHY93_14725|PHY93_14725  [L=73]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.3e-16   59.4   0.7    3.6e-16   59.3   0.7    1.0  1  PP-binding       Phosphopantetheine attachment site
     0.0014   18.8   1.5     0.0015   18.7   1.5    1.1  1  PP-binding_2     Acyl-carrier
      0.007   16.8   0.5     0.0073   16.8   0.5    1.2  1  DUF1493          Protein of unknown function (DUF1493)
  ------ inclusion threshold ------
      0.049   13.3   0.1      0.051   13.2   0.1    1.1  1  MEIOC            Meiosis-specific coiled-coil domain-containi
      0.098   12.4   0.1      0.098   12.4   0.1    2.1  3  Ribosomal_L12_N  Ribosomal protein L7/L12 dimerisation domain


Domain annotation for each model (and alignments):
>> PP-binding  Phosphopantetheine attachment site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.3   0.7     1e-19   3.6e-16       1      67 []       3      70 ..       3      70 .. 0.96

  Alignments for each domain:
  == domain 1  score: 59.3 bits;  conditional E-value: 1e-19
               PP-binding  1 eklrelvaevlgvpleeidpdtdlf.dlGlDSllavellaaleeefgveiplsdlfehptlaelaayl 67
                             +k++ l++++++++ + i+++t++  dl lDSl++vel++++e+efgveip +d   ++t+++++ yl
  PHY93_14725|PHY93_14725  3 DKVIKLISDATKIDISKINLETSFVdDLNLDSLDIVELMMKMEDEFGVEIPEEDAEGLKTVKDIVTYL 70
                             68999********************77****************************88********997 PP

>> PP-binding_2  Acyl-carrier
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   1.5   4.2e-07    0.0015      22      82 ..       8      68 ..       1      72 [. 0.81

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 4.2e-07
             PP-binding_2 22 vlrkgekvtpsskleelrtredrlwdgldtvefvedveelfdvivsdevadnfetlqeiad 82
                             ++ +  k+  s    e    +d   d+ld ve+++ +e+ f v +++e a+ ++t+++i  
  PHY93_14725|PHY93_14725  8 LISDATKIDISKINLETSFVDDLNLDSLDIVELMMKMEDEFGVEIPEEDAEGLKTVKDIVT 68
                             4555566665555557777899999********************************9976 PP

>> DUF1493  Protein of unknown function (DUF1493)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.5     2e-06    0.0073       6      60 ..       3      52 ..       1      70 [. 0.82

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 2e-06
                  DUF1493  6 kevlelireelgtklfkgkeveltldtdldedlkldeddaedllekffkrfnVdr 60
                             ++v++li + +++        +++l+t+  +dl+ld  d+ +l+ k + +f V+ 
  PHY93_14725|PHY93_14725  3 DKVIKLISDATKID-----ISKINLETSFVDDLNLDSLDIVELMMKMEDEFGVEI 52
                             56666666544443.....4578999*************************9985 PP

>> MEIOC  Meiosis-specific coiled-coil domain-containing protein MEIOC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.1   1.4e-05     0.051      40     105 ..       7      68 ..       2      73 .] 0.88

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.4e-05
                    MEIOC  40 kkvsssnnipiprlpanpsrvdrLivdqlreharvitLlakmErLrgvplhanisaaleehleaik 105
                              k +s +++i i+++  ++s vd L  d+l     ++ L+ kmE   gv+++++ ++ l++  + ++
  PHY93_14725|PHY93_14725   7 KLISDATKIDISKINLETSFVDDLNLDSL----DIVELMMKMEDEFGVEIPEEDAEGLKTVKDIVT 68 
                              779999******************99998....69***************9998888888776665 PP

>> Ribosomal_L12_N  Ribosomal protein L7/L12 dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.1       1.2   4.3e+03       3      13 ..       3      13 ..       2      20 .. 0.69
   2 ?   12.4   0.1   2.7e-05     0.098      15      31 ..      35      51 ..      27      53 .. 0.92
   3 ?   -1.3   0.0      0.51   1.8e+03      18      27 ..      64      73 .]      62      73 .] 0.58

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 1.2
                             HHHHHHHHTSB CS
          Ribosomal_L12_N  3 eeiieaikelt 13
                             +++i+ i+  t
  PHY93_14725|PHY93_14725  3 DKVIKLISDAT 13
                             77787777766 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 2.7e-05
                             HHHHHHHHHHHHHTTHH CS
          Ribosomal_L12_N 15 LElseLvkalEekFGVs 31
                             L+++eL  ++E++FGV+
  PHY93_14725|PHY93_14725 35 LDIVELMMKMEDEFGVE 51
                             899*************7 PP

  == domain 3  score: -1.3 bits;  conditional E-value: 0.51
                             HHHHHHHHHH CS
          Ribosomal_L12_N 18 seLvkalEek 27
                             ++ v++lE+k
  PHY93_14725|PHY93_14725 64 KDIVTYLEKK 73
                             5666667665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (73 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       510  (0.0284455); expected 358.6 (0.02)
Passed bias filter:                      295  (0.0164538); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.44
# Mc/sec: 494.55
//
Query:       PHY93_14730|PHY93_14730  [L=251]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-63  214.8   4.0    1.4e-63  214.6   4.0    1.0  1  adh_short_C2     Enoyl-(Acyl carrier protein) reductase
    5.9e-54  182.5   6.9    6.8e-54  182.3   6.9    1.0  1  adh_short        short chain dehydrogenase
    3.2e-22   79.3   3.4    4.4e-22   78.9   3.4    1.1  1  KR               KR domain
    0.00018   21.1   0.5    0.00028   20.4   0.5    1.4  1  Epimerase        NAD dependent epimerase/dehydratase family
     0.0005   19.4   0.3     0.0043   16.4   0.0    2.2  2  THF_DHG_CYH_C    Tetrahydrofolate dehydrogenase/cyclohydrolas
  ------ inclusion threshold ------
      0.012   14.8   1.9      0.019   14.1   1.9    1.4  1  Polysacc_synt_2  Polysaccharide biosynthesis protein
      0.029   14.3   1.3      0.065   13.1   1.3    1.6  1  NAD_binding_10   NAD(P)H-binding


Domain annotation for each model (and alignments):
>> adh_short_C2  Enoyl-(Acyl carrier protein) reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  214.6   4.0   5.3e-67   1.4e-63       1     233 [.      17     251 .]      17     251 .] 0.93

  Alignments for each domain:
  == domain 1  score: 214.6 bits;  conditional E-value: 5.3e-67
                              TTTTSHHHHHHHHHHHTT-EEEEEESSGGH..HHHHHHHHHHTTSE.E..EE--TTSHHHHHHHHHHHHHHHSSEEEEEE-----E CS
             adh_short_C2   1 GaasgIGraiAkalaeeGaevvltdlneea..kkrveelaeelgae.v..lecDVtdeeqvealveevvekfgklDilvnnagiap 81 
                              Ga +g+Gr++A+ala++Ga+v++ ++++ea    + +el + lga+ v  l  DVt+++q++++ve+  e+ g + +lvnnagi++
  PHY93_14730|PHY93_14730  17 GASRGLGRKMAEALAAQGAHVIFNYRGDEAaaMTQKAELLK-LGASnVtaLFFDVTNTAQMKEAVEKFIETNGAITGLVNNAGISK 101
                              899**************************963334444444.5544456799********************************** PP

                              GCSS-GGGH-HHHHHHHHHHHTHHHHHHHHHHHH..HCTSCCEEEEEEEGGGTSBSTTTTHHHHHHHHHHHHHHHHHHHHGGGTEE CS
             adh_short_C2  82 klkgpfletsreefdraldvnlyslfllakaalp..lmkeggsivnlssvgaervvpnynaygaaKaalealtrylAvelgpkgiR 165
                              +  + +l +++e++ +++++nl ++++l++ + +  l +e+ s+vn+ss+ + ++ +++ ay+a+Ka+l+++t++ A+el++++iR
  PHY93_14730|PHY93_14730 102 D--QIVLRMKEEDVVQTINTNLVAAIMLTQILSRsfLKAENVSVVNISSIVGLMGNASQIAYSASKAGLIGFTKSYAKELASRNIR 185
                              *..*******************************9666677********************************************* PP

                              EEEEEE--BHCTGGGGSTTHHHHHHHHHHHSTTSS-B-HHHHHHHHHHHCSGGGTT--SEEEEESTTG CS
             adh_short_C2 166 vNavspgpikTlaasgikgfdelleelearaplgrlgtpeevaeaalfLasdeasyitGqtlvvDgGl 233
                              +Na++pg+i T+++ +++  ++ +++  +++pl+r+g+peeva++++fL+s+++syitG+t+ +DgGl
  PHY93_14730|PHY93_14730 186 CNAICPGFITTDMTHALD--EKTKDAYLNSIPLKRMGDPEEVANLVCFLLSKASSYITGETIKIDGGL 251
                              *****************8..8999*******************************************6 PP

>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  182.3   6.9   2.7e-57   6.8e-54       1     193 [.      11     205 ..      11     207 .. 0.94

  Alignments for each domain:
  == domain 1  score: 182.3 bits;  conditional E-value: 2.7e-57
                              SEEEEESTTSHHHHHHHHHHHHTT-EEEE.EESCHHHHHHHHHHHHHT.TSEEEEEE-TTTSHHHHHHHHHHHHHHHSSESEEEE- CS
                adh_short   1 kvvlvtGassGIGraiakelakeGakvvv.vdrseekleevakelkee.gakalaiqvDvtdreevealvekavkklgkldvLvnN 84 
                              k +l+tGas+G+Gr++a++la++Ga+v++ +   e+++ + ++el ++ +++++a+ +Dvt+ ++++++vek ++  g +  LvnN
  PHY93_14730|PHY93_14730  11 KNILITGASRGLGRKMAEALAAQGAHVIFnYRGDEAAAMTQKAELLKLgASNVTALFFDVTNTAQMKEAVEKFIETNGAITGLVNN 96 
                              789**************************55555555556677788888889********************************** PP

                              --SS--SSGGGCSHHHHHHHHHHHTHHHHHHHHHHHHHHHHCTTEEEEEEEEGGGTSB-TTBHHHHHHHHHHHHHHHHHHHHHGGG CS
                adh_short  85 AGitgsgpfselseeewervievNltgvflltravlpamlkqssGrIvnvsSvagkvpvagvaaYsAsKaavagltrslakelapt 170
                              AGi++++ + +++ee++ ++i++Nl+++++lt+ + + +lk+++ ++vn+sS++g++++a+++aYsAsKa+++g+t+s akela++
  PHY93_14730|PHY93_14730  97 AGISKDQIVLRMKEEDVVQTINTNLVAAIMLTQILSRSFLKAENVSVVNISSIVGLMGNASQIAYSASKAGLIGFTKSYAKELASR 182
                              ************************************************************************************** PP

                              TEEEEEEEESSBSSHHHHHHCTH CS
                adh_short 171 girvnavaPGlvdTdmakelrek 193
                              +ir+na++PG++ Tdm+++l ek
  PHY93_14730|PHY93_14730 183 NIRCNAICPGFITTDMTHALDEK 205
                              *****************999876 PP

>> KR  KR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.9   3.4   1.7e-25   4.4e-22       4     157 ..      14     169 ..      12     189 .. 0.84

  Alignments for each domain:
  == domain 1  score: 78.9 bits;  conditional E-value: 1.7e-25
                              EEETTTSHHHHHHHHHHHHHHS-EEEEE-SS..--HHHHHHHHHHHHTT-EEEE----TT-HHHHHHHHHHHHHHSS---EEEE-- CS
                       KR   4 litGGlGgLGlelarwlaekgarhlvllsRsaaadedskaliaelealgaevevvaaDvsdkdavealleeikaeeppikGvihaA 89 
                              litG+  gLG+++a+ la++ga+ +++  R   + ++++++ + l+    +v+++  Dv++ +++++++e++ +++++i+G ++ A
  PHY93_14730|PHY93_14730  14 LITGASRGLGRKMAEALAAQGAH-VIFNYRG-DEAAAMTQKAELLKLGASNVTALFFDVTNTAQMKEAVEKFIETNGAITGLVNNA 97 
                              9********************96.5555566.3455555455555554569*********************************** PP

                              -------TTT--HHHHHHHHTTTTHHHHHHHHHTTT....S--SEEEEEEEHHHHH--TT-HHHHHHHHHHH CS
                       KR  90 gvlrdklleemtaedleqvlapKvkGawnLhelled....esldffvlfSSiagllgsagqanYaaaNaflD 157
                              g+++d+ + +m++ed+ q ++  + +a  L ++l++     +   +v +SSi gl+g+a q +Y+a  a l 
  PHY93_14730|PHY93_14730  98 GISKDQIVLRMKEEDVVQTINTNLVAAIMLTQILSRsflkAENVSVVNISSIVGLMGNASQIAYSASKAGLI 169
                              ********************************9999564334446899******************877555 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.4   0.5   1.1e-07   0.00028       1     115 [.      13     148 ..      13     188 .. 0.80

  Alignments for each domain:
  == domain 1  score: 20.4 bits;  conditional E-value: 1.1e-07
                              EEEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHC........EEEE--TT-HH....HHHHHHHHH.T-SEEEE--S CS
                Epimerase   1 ilVtGatGfiGsalvkallekgyevigldrlssasntarledl........elveldltdrs....alerlfkee.qpdavihlAa 73 
                              il+tGa+  +G+ +++al+++g +vi   r  +a +  ++++l        +    d+t+ +    a+e++++++ +++  ++ A+
  PHY93_14730|PHY93_14730  13 ILITGASRGLGRKMAEALAAQGAHVIFNYRGDEAAAMTQKAELlklgasnvTALFFDVTNTAqmkeAVEKFIETNgAITGLVNNAG 98 
                              8******************************999999999999********88888888877667799999999999999999999 PP

                              ---H....HHHHHSHHHHHHHHTHHHHHHHHHHHHH.....TCTEEEEEEE CS
                Epimerase  74 vggv....aassedpadfieknlqgtlnlleaarka.....gvkrllflsS 115
                              ++      + + ed  ++i++nl+ +  l + ++++     +v  ++++sS
  PHY93_14730|PHY93_14730  99 ISKDqivlRMKEEDVVQTINTNLVAAIMLTQILSRSflkaeNV-SVVNISS 148
                              7765111145667777888899888888888888663322244.7777777 PP

>> THF_DHG_CYH_C  Tetrahydrofolate dehydrogenase/cyclohydrolase, NAD(P)-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.0   1.7e-06    0.0043      32      85 ..       6      58 ..       1      77 [. 0.88
   2 ?    1.2   0.1      0.08     2e+02      33      50 ..     135     152 ..      89     205 .. 0.76

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 1.7e-06
                             ---TT-EEEEE---TTTHHHHHHHHHCTT-EEEEE-TTSCCHHHHHCCSSEEEE CS
            THF_DHG_CYH_C 32 ielegkkvvvvGrsnivgkplallLleknatVtvchsktkdlaeitreadivvv 85
                             ++l+gk++++ G+s+ +g+ +a  L++++a V +++ + ++ a++t++a+++  
  PHY93_14730|PHY93_14730  6 TDLKGKNILITGASRGLGRKMAEALAAQGAHV-IFNYRGDEAAAMTQKAELLKL 58
                             689****************************9.568888999999999998855 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.08
                              --TT-EEEEE---TTTHH CS
            THF_DHG_CYH_C  33 elegkkvvvvGrsnivgk 50 
                               l+ ++v vv+ s+ivg 
  PHY93_14730|PHY93_14730 135 FLKAENVSVVNISSIVGL 152
                              467788888888888884 PP

>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   1.9   7.3e-06     0.019       1     113 [.      13     129 ..      13     150 .. 0.69

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 7.3e-06
                              EEEETTTSHHHHHHHHHHHHHB-SEEEEEES-HHHHHHHHHH......-TTEEEE....E--TT-HHHHHHHTT......T..-SE CS
          Polysacc_synt_2   1 vlvtGagGsiGselvrqilkkkpkkiillerdElklyeiekeleeelkkkklkveivpvigdvrdkerlekaleel....k..vdv 80 
                              +l+tGa+  +G+++ + ++++ ++ i+ +  dE + ++ + el +  ++ ++    +++  dv++++++++a+e++    +    +
  PHY93_14730|PHY93_14730  13 ILITGASRGLGRKMAEALAAQGAHVIFNYRGDEAAAMTQKAELLKLGAS-NV----TALFFDVTNTAQMKEAVEKFietnGaiTGL 93 
                              89*******************************9999999998544433.34....466788888888888777652221211234 PP

                              EEE------...HHHHHHSHHHHHHHHHHHHHHHHH CS
          Polysacc_synt_2  81 vfhaAAlKh...VPlveenpleaiktNvlgtenvie 113
                              v +a   K    + + ee ++++i+tN +++  + +
  PHY93_14730|PHY93_14730  94 VNNAGISKDqivLRMKEEDVVQTINTNLVAAIMLTQ 129
                              555555554332356678888888888777665554 PP

>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   1.3   2.5e-05     0.065       1      60 [.      17      82 ..      17     129 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 2.5e-05
                             TTTSHHHHHHHHHHHHC-T-EEEEEETTHHHCH........HHHCTTTCEEEE--TT-CCHHHHHHTT CS
           NAD_binding_10  1 GAtGkvGrllvkellargghevtalvRnpekla........eleaeeglevvegdvtdvedlaealkg 60
                             GA+ + Gr+ ++ l+a+g  +v    R  e +a        +l  +++++++  dvt++++++ea++ 
  PHY93_14730|PHY93_14730 17 GASRGLGRKMAEALAAQG-AHVIFNYRGDEAAAmtqkaellKL-GASNVTALFFDVTNTAQMKEAVEK 82
                             9****************6.889888888776663333322233.46899****************984 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (251 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       832  (0.0464053); expected 358.6 (0.02)
Passed bias filter:                      532  (0.0296726); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.54u 0.27s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 1629.37
//
Query:       PHY93_14735|PHY93_14735  [L=312]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.4e-30  104.4   0.0    1.8e-29  103.3   0.0    1.5  1  Acyl_transf_1  Acyl transferase domain


Domain annotation for each model (and alignments):
>> Acyl_transf_1  Acyl transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  103.3   0.0     1e-33   1.8e-29       3     238 ..       8     249 ..       6     299 .. 0.80

  Alignments for each domain:
  == domain 1  score: 103.3 bits;  conditional E-value: 1e-33
                              EE--TT---TTTTCCHHHC-HHHHHHHHHHHHHCCHHHT--HHHHHHS--TTGGGSHHHHHHHHHHHHHHHHHHH...HHTT.-TT CS
            Acyl_transf_1   3 vfsGqGsQwaGMGmeLlktskafaaviaradeafksqygfsvldvlrnnpeglldaiqfvqpaLaavqialaell...kskG.vrp 84 
                              +f+GqGsQ  GMG +L +t  +f    ++ +    +  gf + +++ + pe +l+ +  +qpa+    i   ++l    +k  v+ 
  PHY93_14735|PHY93_14735   8 LFPGQGSQYVGMGKDLDHT--LF----DKGN----EILGFDLKKLMHEGPEEELKLTHNTQPAILKHSITILNHLlpiLAKHnVKI 83 
                              7***************998..44....4444....457********************************9999854434447*** PP

                              SEEEE-TTHHHHHHHHCCSSSHHHHHHHHHHHHHHHHHHT..S-EECCEECS......HHHHHHH..T..T.EEEEEEECCCCECC CS
            Acyl_transf_1  85 aavvGHSlGElAaavvagalsseeallavvlrsrlmmqla..gpgdmaavel.....aeeeeklrcqd..dvvgavansprrvvis 161
                              + v+GHS+GE+Aa+v+ag ls+ +a+ av lr++ m+++   g g m a+       +   +k + ++  +v++a  n+p+++vis
  PHY93_14735|PHY93_14735  84 DRVLGHSVGEYAALVAAGVLSPYDAIHAVHLRGKYMQEAVpvGMGKMFAILKvpagvVVAACKNASKPgsEVMPANFNDPSQIVIS 169
                              **************************************997788999998888888756667776554238*************** PP

                              EEHHHHHHHHHHHH...HCC.CCEEECCCEECTTCCCCCCCCHHHHHHHHCCCHHCHHTTBEHCCCHHHHHHCHHHHHHH CS
            Acyl_transf_1 162 gsqealrelvervs...kegvgalvenvnvavhspqvdaiadalasaladiaprkpkvakisstsldesserelsaeywv 238
                              g++ea  + v+ +s   ke  +a + nv+  +hs  ++++ad+l++a a++  ++ k+++i+ + + e  +++  +++ +
  PHY93_14735|PHY93_14735 170 GESEACLRAVNWLSenfKEAHRAIELNVSAPFHSSLMKPAADKLKEAFAKFKWHENKIPYIANIDATEYATGTNPEIIIN 249
                              ****9777776665222333478888899999******************999999999998888888766665555543 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (312 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       463  (0.0258241); expected 358.6 (0.02)
Passed bias filter:                      433  (0.0241508); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.58u 0.23s 00:00:00.81 Elapsed: 00:00:00.45
# Mc/sec: 2060.62
//
Query:       PHY93_14740|PHY93_14740  [L=331]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      5e-35  119.5   0.1      5e-35  119.5   0.1    2.4  4  ACP_syn_III_C    3-Oxoacyl-[acyl-carrier-protein (ACP)] synth
    9.2e-27   92.7   0.4    1.6e-26   91.9   0.4    1.4  1  ACP_syn_III      3-Oxoacyl-[acyl-carrier-protein (ACP)] synth
    9.4e-07   28.4   0.7      4e-06   26.4   0.1    1.9  2  Thiolase_N       Thiolase, N-terminal domain
     0.0093   15.4   0.4      0.026   13.9   0.1    1.9  2  Chal_sti_synt_N  Chalcone and stilbene synthases, N-terminal 
  ------ inclusion threshold ------
      0.017   14.4   0.9      0.047   13.0   0.1    2.0  3  FAE1_CUT1_RppA   FAE1/Type III polyketide synthase-like prote
      0.039   13.6   0.8       0.79    9.4   0.1    2.5  2  Thiolase_C       Thiolase, C-terminal domain


Domain annotation for each model (and alignments):
>> ACP_syn_III_C  3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0       1.7   5.1e+03       2      16 ..      69      83 ..      68      87 .. 0.79
   2 ?   -2.1   0.1       1.5   4.4e+03      74      89 ..     118     133 ..     115     134 .. 0.84
   3 ?   -3.5   0.0         4   1.2e+04      63      82 ..     151     170 ..     143     173 .. 0.71
   4 !  119.5   0.1   1.7e-38     5e-35       2      88 ..     245     331 .]     244     331 .] 0.98

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 1.7
                             HHTT--GGG-SEEEE CS
            ACP_syn_III_C  2 ekagltpedidalvp 16
                             + a+l p+did++++
  PHY93_14740|PHY93_14740 69 KVANLVPNDIDLILF 83
                             56899999**99876 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 1.5
                              EEEEETTTEEEEEEEE CS
            ACP_syn_III_C  74 lvgfGaGltwgaallr 89 
                               +gf  G+++++a+++
  PHY93_14740|PHY93_14740 118 CSGFVYGFNMASAMIK 133
                              689999****999986 PP

  == domain 3  score: -3.5 bits;  conditional E-value: 4
                              TTSS-TT-EEEEEEEETTTE CS
            ACP_syn_III_C  63 egklkpgdlvllvgfGaGlt 82 
                              e + k+ ++++l+g G G+ 
  PHY93_14740|PHY93_14740 151 EVNWKDRNTCILFGDGCGVA 170
                              45567778888888888876 PP

  == domain 4  score: 119.5 bits;  conditional E-value: 1.7e-38
                              HHTT--GGG-SEEEE-SSSHHHHHHHHHHHT--GGGB--THHHH-B-GGGHHHHHHHHHHHTTSS-TT-EEEEEEEETTTEEEEEE CS
            ACP_syn_III_C   2 ekagltpedidalvphqanlriidavakklglpeekvvvnldeyGntsaasiplaLdeaveegklkpgdlvllvgfGaGltwgaal 87 
                              ++aglt edid+++phqan+rii+ +ak +g++++k+++n+++yGntsaa++p+a++eav +g++k+gd +l+ +fGaGlt ga+l
  PHY93_14740|PHY93_14740 245 AEAGLTLEDIDWVIPHQANIRIIETTAKLIGIEMDKMIINIHKYGNTSAATVPIAFHEAVTDGRIKRGDIILFDAFGAGLTAGATL 330
                              89**********************************************************************************98 PP

                              E CS
            ACP_syn_III_C  88 l 88 
                              l
  PHY93_14740|PHY93_14740 331 L 331
                              6 PP

>> ACP_syn_III  3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   91.9   0.4   5.4e-30   1.6e-26       1      80 []     112     192 ..     112     192 .. 0.94

  Alignments for each domain:
  == domain 1  score: 91.9 bits;  conditional E-value: 5.4e-30
                              EEEE-GGGHHHHHHHHHHHHHHTTS-SEEEEEEEEEGGGCS-TTTHHHHTTB-EEEEEEEEEEE.SSSSCEEEEEEEEE-G CS
              ACP_syn_III   1 fDlnaaCsgfvyalsvAdaliesgaakrvLvigaetlskilDwkdrstavlfGDGAgAvvleas.eeegarildselgsdg 80 
                              +D+ aaCsgfvy+ ++A+a+i++g++k++L+ig+e ls+ ++wkdr+t++lfGDG+g +++++  e++++++ +s l++dg
  PHY93_14740|PHY93_14740 112 LDIAAACSGFVYGFNMASAMIKTGMIKKALIIGSEMLSREVNWKDRNTCILFGDGCGVAIIGRAeETSESKVYASILSADG 192
                              59*************************************************************966667789888888886 PP

>> Thiolase_N  Thiolase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.4   0.1   1.4e-09     4e-06      24     122 ..      57     155 ..      42     193 .. 0.92
   2 ?    0.3   0.0      0.12   3.6e+02       9      49 ..     218     258 ..     214     297 .. 0.85

  Alignments for each domain:
  == domain 1  score: 26.4 bits;  conditional E-value: 1.4e-09
                              HHHHHHHHHHHHHHHTS-GGGCCEEEEEHSSCTTSTSCHHHHHHHHTTS-TTSEEEEEEHGGGHHHHHHHHHHHHHHTTSHSEEEE CS
               Thiolase_N  24 eeLlaealkallekagvdpeevdevivGnvlqagegqniarqaalkagipeevpavtvnkvcsSglkavalaaqsiaageadvvva 109
                              ++++  a  ++l+ a++ p+++d + ++ v   ++  n a  +++k+gi ++ ++  +  +cs  + + ++a  +i++g ++ +++
  PHY93_14740|PHY93_14740  57 SDMAMYATLDALKVANLVPNDIDLILFASVTPDVKLPNSATILQVKLGITNNCACLDIAAACSGFVYGFNMASAMIKTGMIKKALI 142
                              6788889999**************************************************************************** PP

                              EEEEESTTS-EEE CS
               Thiolase_N 110 gGvEsmsnaptae 122
                              +G E +s+    +
  PHY93_14740|PHY93_14740 143 IGSEMLSREVNWK 155
                              *******876555 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.12
                              E--EETTSTTTTS-HHHHHHHHHHHHHHHHTS-GGGCCEEE CS
               Thiolase_N   9 tpigkfggslkdlsaeeLlaealkallekagvdpeevdevi 49 
                              t + +++g      a+  lae +++++++ag++ e++d vi
  PHY93_14740|PHY93_14740 218 THFMQMKGKEMFKVATRTLAENAQKVIAEAGLTLEDIDWVI 258
                              6777777777777777778888899***********99887 PP

>> Chal_sti_synt_N  Chalcone and stilbene synthases, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.9   0.1   8.8e-06     0.026     101     222 ..      58     173 ..      23     176 .. 0.84
   2 ?   -1.3   0.0       0.4   1.2e+03      93     125 ..     227     258 ..     214     296 .. 0.72

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 8.8e-06
          Chal_sti_synt_N 101 klgkeaalkalkewGrPkskithlvfvs.ssevelPGadlklakklGlrpsvkrvmlyflGcygGatvlrlakdiaennkGarvlv 185
                              +++  a+l+alk      ++i  ++f s + +v+lP +   l  klG+ ++   + +    c+g + ++ +a  +       + l+
  PHY93_14740|PHY93_14740  58 DMAMYATLDALKVANLVPNDIDLILFASvTPDVKLPNSATILQVKLGITNNCACLDI-AAACSGFVYGFNMASAMIKTGMIKKALI 142
                              57888999999999999999******984679*******************998887.578************************* PP

          Chal_sti_synt_N 186 vaseitvlgfrgPskdrlddlvGaalfGdGaaaviiG 222
                              + se+     r     + +d     lfGdG+  +iiG
  PHY93_14740|PHY93_14740 143 IGSEMLS---RE---VNWKDRNTCILFGDGCGVAIIG 173
                              ****743...33...33344445679**********9 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 0.4
          Chal_sti_synt_N  93 eivnaevlklgkeaalkalkewGrPkskithlv 125
                              e+ +++   l++  a+k++ e G   ++i  ++
  PHY93_14740|PHY93_14740 227 EMFKVATRTLAE-NAQKVIAEAGLTLEDIDWVI 258
                              566666666654.56788999998888887654 PP

>> FAE1_CUT1_RppA  FAE1/Type III polyketide synthase-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.1   1.6e-05     0.047      83     180 ..      57     153 ..      36     189 .. 0.82
   2 ?   -1.0   0.0       0.3   8.8e+02     250     268 ..     225     243 ..     205     258 .. 0.74
   3 ?   -3.3   0.0       1.5   4.3e+03     146     166 ..     270     292 ..     263     297 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 1.6e-05
           FAE1_CUT1_RppA  83 aeevlfgavdellaktkvspkdidilvvncslf.sptPslsamvvnryklredvksynLsgmGCsAglisidlaknllqvhkntla 167
                              ++  +++++d  l+ +++ p+did++++++ +     P  + ++  + ++ ++   +++++  Cs  +   ++a+ ++++   + a
  PHY93_14740|PHY93_14740  57 SDMAMYATLDA-LKVANLVPNDIDLILFASVTPdVKLPNSATILQVKLGITNNCACLDIAA-ACSGFVYGFNMASAMIKTGMIKKA 140
                              56678888876.5888999*****88876654414557777777789************98.8*********************** PP

           FAE1_CUT1_RppA 168 lvvstEnitlnwY 180
                              l++ +E ++ ++ 
  PHY93_14740|PHY93_14740 141 LIIGSEMLSREVN 153
                              *******998764 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.3
           FAE1_CUT1_RppA 250 skdlvkvagealkknlttl 268
                               k++ kva+++l +n +++
  PHY93_14740|PHY93_14740 225 GKEMFKVATRTLAENAQKV 243
                              3888888888888887765 PP

  == domain 3  score: -3.3 bits;  conditional E-value: 1.5
           FAE1_CUT1_RppA 146 sAglisidlaknllqvhk..ntl 166
                              +A li i++ k ++++hk  nt 
  PHY93_14740|PHY93_14740 270 TAKLIGIEMDKMIINIHKygNTS 292
                              57889999999999888755554 PP

>> Thiolase_C  Thiolase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.0     0.049   1.5e+02      25      45 ..      61      81 ..      46     102 .. 0.84
   2 ?    9.4   0.1   0.00026      0.79      27      71 ..     239     283 ..     219     294 .. 0.87

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.049
                             HHHHHHHHHHHT--GGGESEE CS
               Thiolase_C 25 ayaikkvlkkagltvedidlf 45
                             +ya+  +lk a l  +didl+
  PHY93_14740|PHY93_14740 61 MYATLDALKVANLVPNDIDLI 81
                             699****************98 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.00026
                              HHHHHHHHHT--GGGESEEEE--SBHHHHHHHHHHHT--GGGBST CS
               Thiolase_C  27 aikkvlkkagltvedidlfEinEAFaaqaLavakaldldlekvNv 71 
                               ++kv+ +aglt+edid +  + A    + ++ak ++++++k+ +
  PHY93_14740|PHY93_14740 239 NAQKVIAEAGLTLEDIDWVIPHQANIRIIETTAKLIGIEMDKMII 283
                              5789********************999999999999999988644 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (331 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       587  (0.0327403); expected 358.6 (0.02)
Passed bias filter:                      495  (0.0276089); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.51u 0.22s 00:00:00.73 Elapsed: 00:00:00.40
# Mc/sec: 2468.51
//
Query:       PHY93_14745|PHY93_14745  [L=66]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.6e-18   65.2   5.8    5.3e-18   65.0   5.8    1.1  1  Ribosomal_L32p  Ribosomal L32p protein family
  ------ inclusion threshold ------
      0.015   15.3   0.2      0.016   15.2   0.2    1.2  1  zinc-ribbons_6  zinc-ribbons
      0.018   15.0   0.6      0.024   14.7   0.6    1.3  1  DZR             Double zinc ribbon
      0.051   13.3   1.9       0.17   11.6   0.1    2.2  2  DNA_RNApol_7kD  DNA directed RNA polymerase, 7 kDa subunit
      0.054   13.9   0.3       0.14   12.6   0.1    1.7  2  zf-C2HE         C2HE / C2H2 / C2HC zinc-binding finger
       0.19   11.9   3.8        2.9    8.1   3.8    2.1  1  zf-piccolo      Piccolo Zn-finger
       0.23   11.1   3.5        3.1    7.5   0.1    2.5  2  GATA            GATA zinc finger
       0.97    9.2   4.4         11    5.9   0.2    2.2  2  Rubredoxin_2    Rubredoxin metal binding domain


Domain annotation for each model (and alignments):
>> Ribosomal_L32p  Ribosomal L32p protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.0   5.8   2.4e-21   5.3e-18       1      55 [.       2      58 ..       2      59 .. 0.93

  Alignments for each domain:
  == domain 1  score: 65.0 bits;  conditional E-value: 2.4e-21
                             S--SS---HHHHHHHGG..GT------EEEETTTCCEECTTC-BTTTTBSSSBXSXX CS
           Ribosomal_L32p  1 AVPKrKtSksrrrkRra..hwklkapnlvecpncgelklpHrvcpscGyYkgrevie 55
                             AVPK+K S sr++ Rra  h+kl  ++ ++c+ncg + +pH vc +cG+Ykg++v+ 
  PHY93_14745|PHY93_14745  2 AVPKKKNSVSRKGLRRAgqHHKLYRKHPMTCSNCGVHVMPHAVCDACGFYKGKQVVT 58
                             9***************93346*****999**************************85 PP

>> zinc-ribbons_6  zinc-ribbons
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.2   0.2   7.1e-06     0.016      11      36 ..      24      49 ..      10      61 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 7.1e-06
                             EE-SSEEE-TTT--EEEEEEE-SSS- CS
           zinc-ribbons_6 11 ekrgeqyhCeaCqedlkkealCpeCe 36
                               r++ ++C++C  ++  +a+C+ C+
  PHY93_14745|PHY93_14745 24 LYRKHPMTCSNCGVHVMPHAVCDACG 49
                             3567899******************7 PP

>> DZR  Double zinc ribbon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.6   1.1e-05     0.024      28      49 .]      29      49 ..       5      50 .. 0.67

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1.1e-05
                      DZR 28 edrCpsCgekvdpearfCpeCG 49
                             + +C++Cg  v p  ++C++CG
  PHY93_14745|PHY93_14745 29 PMTCSNCGVHVMPH-AVCDACG 49
                             66666666666654.6666666 PP

>> DNA_RNApol_7kD  DNA directed RNA polymerase, 7 kDa subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.1   7.7e-05      0.17       7      28 ..      19      40 ..      17      40 .. 0.90
   2 ?    0.8   0.3      0.18   4.1e+02      20      25 ..      45      50 ..      44      52 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 7.7e-05
                             --B----SSS----SSS----- CS
           DNA_RNApol_7kD  7 gaevslkkgdpiRCkeCGhRil 28
                             g+ ++l ++ p  C +CG  ++
  PHY93_14745|PHY93_14745 19 GQHHKLYRKHPMTCSNCGVHVM 40
                             6788999***********9987 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.18
                             -SSS-- CS
           DNA_RNApol_7kD 20 CkeCGh 25
                             C  CG+
  PHY93_14745|PHY93_14745 45 CDACGF 50
                             999997 PP

>> zf-C2HE  C2HE / C2H2 / C2HC zinc-binding finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.1   6.2e-05      0.14      23      44 ..      15      36 ..       2      42 .. 0.71
   2 ?   -0.8   0.0      0.97   2.2e+03      40      54 ..      45      59 ..      43      61 .. 0.72

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 6.2e-05
                  zf-C2HE 23 slseeqskelilktpLkCtrCg 44
                              +   q+ +l +k+p++C  Cg
  PHY93_14745|PHY93_14745 15 LRRAGQHHKLYRKHPMTCSNCG 36
                             44456777788**********9 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 0.97
                  zf-C2HE 40 CtrCganfgnkfpkL 54
                             C  Cg   g++ +  
  PHY93_14745|PHY93_14745 45 CDACGFYKGKQVVTV 59
                             999997777776665 PP

>> zf-piccolo  Piccolo Zn-finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.1   3.8    0.0013       2.9      22      40 ..      31      54 ..       7      61 .. 0.71

  Alignments for each domain:
  == domain 1  score: 8.1 bits;  conditional E-value: 0.0013
               zf-piccolo 22 tCteCk.....kqvCnlCGFnptp 40
                             tC++C      + vC +CGF    
  PHY93_14745|PHY93_14745 31 TCSNCGvhvmpHAVCDACGFYKGK 54
                             677775222225689999997655 PP

>> GATA  GATA zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6   0.6     0.011        25       1      28 [.      32      37 ..      16      40 .. 0.78
   2 ?    7.5   0.1    0.0014       3.1      19      32 ..      41      54 ..      38      57 .. 0.78

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.011
                     GATA  1 CsnCgttkTplWRrgpdgnksLCnaCGl 28
                             CsnCg                      +
  PHY93_14745|PHY93_14745 32 CSNCG----------------------V 37
                             55555......................4 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0014
                     GATA 19 nksLCnaCGlyykk 32
                             +  +C aCG y  k
  PHY93_14745|PHY93_14745 41 PHAVCDACGFYKGK 54
                             5669*****99655 PP

>> Rubredoxin_2  Rubredoxin metal binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.5      0.01        23       3       8 ..      32      37 ..      31      39 .. 0.84
   2 ?    5.9   0.2    0.0048        11       2       8 ..      44      50 ..      44      54 .. 0.85

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.01
             Rubredoxin_2  3 CsqCGf 8 
                             Cs+CG 
  PHY93_14745|PHY93_14745 32 CSNCGV 37
                             9***95 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.0048
             Rubredoxin_2  2 vCsqCGf 8 
                             vC++CGf
  PHY93_14745|PHY93_14745 44 VCDACGF 50
                             7*****9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (66 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       571  (0.0318478); expected 358.6 (0.02)
Passed bias filter:                      318  (0.0177366); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.37u 0.23s 00:00:00.60 Elapsed: 00:00:00.40
# Mc/sec: 500.97
//
Query:       PHY93_21385|PHY93_21385  [L=348]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.1e-62  211.6   3.3    1.3e-62  211.4   3.3    1.0  1  Peptidase_M50  Peptidase family M50
    4.2e-10   39.8   1.1    9.7e-10   38.6   1.1    1.6  1  PDZ_2          PDZ domain
    3.9e-08   33.0   0.3    8.6e-08   31.9   0.3    1.7  1  PDZ_6          PDZ domain
    1.7e-06   28.4   0.1    3.3e-06   27.5   0.1    1.4  1  GRASP55_65     GRASP55/65 PDZ-like domain
    6.5e-06   26.4   0.6    1.8e-05   25.0   0.4    1.9  1  PDZ            PDZ domain
    0.00021   21.2   0.3     0.0004   20.3   0.3    1.4  1  Tricorn_PDZ    Tricorn protease PDZ domain
  ------ inclusion threshold ------
       0.71   10.3   3.6       0.97    9.9   0.2    2.7  2  DUF2583        Protein of unknown function (DUF2583)


Domain annotation for each model (and alignments):
>> Peptidase_M50  Peptidase family M50
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  211.4   3.3     5e-66   1.3e-62       2     250 .]       6     335 ..       5     335 .. 0.89

  Alignments for each domain:
  == domain 1  score: 211.4 bits;  conditional E-value: 5e-66
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX....XXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M50   2 filllgilvvvHElGHflvAklcgvkveefsigfGpkllsfkkgeteYaiallpLGGyVkmageepeeelseeeakaflkkspwqr 87 
                              fi++l+ilv+vHE+GHf++A+++gvkveef++g+ p++++ k ++t Y++  lp+GG++k+ ge+p++  + ++++ f  k+pwq+
  PHY93_21385|PHY93_21385   6 FIVALSILVLVHEWGHFIAARKTGVKVEEFGLGLPPRMIGKKIKGTIYSLNWLPIGGFCKLYGEDPTSPGNSDKSESFFYKKPWQK 91 
                              9************************************************************************************* PP

                              XXXXXXXXXXXXXXXXXXXXX.......-EEECECTTTSCEE-SEEEC-..................................... CS
                              xxxxxxxxxxxxxxxxxxxxx.......xxxxxxxxxxxxxxxxxxxxx..................................... RF
            Peptidase_M50  88 llivlAGplanfilailvfvv.......pkkskeseeekrgviGvspkp..................................... 129
                              l+ivl+G l+n++lai+vf v       p     +e ek +v+Gv+ ++                                     
  PHY93_21385|PHY93_21385  92 LIIVLGGVLMNLVLAIVVFSVvyailgvP-----KEIEKVKVVGVTENSpaqiaglkegdwivsvdgvqvsssdqltnevakykgk 172
                              *********************77777763.....6667777777777777777777777777777777777777777777777777 PP

                              ..........................................XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              ..........................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M50 130 ..........................................vkkegllealkegvektlkvvvltvkalgklitgklslktlggp 173
                                                                           eg+++ ++e+      +vv + ++lg+l+ g++ +k + gp
  PHY93_21385|PHY93_21385 173 svdleingdklvkvevrenppegegamgvaisnmemiklpwyRFYEGIGAGFQEAYYWGKIIVVGVGNMLGNLFSGQV-PKDVAGP 257
                              777777777777777777888888888888888*****999888899999999999999999999999********66.689**** PP

                              XXXXXXXXXXX.XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M50 174 isiaqlaseaa.eaglssflqllalisvnLgilNLlPipvLDGghllfalleairrkplserkeevanlvglalllll 250
                              i++++++s+   ++g+ ++++++ ++svnL+++N lP+p+LDGg+++f l+e+i+r++ ++++e+v+n vg+++ll+l
  PHY93_21385|PHY93_21385 258 IGMYEATSSINkNQGFLAVVHFFGIVSVNLAVVNVLPFPALDGGRIIFVLYEMISRRKANQKVEAVVNNVGMMILLAL 335
                              *****998775168999**********************************************************986 PP

>> PDZ_2  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.6   1.1   3.8e-13   9.7e-10      14      70 ..     124     179 ..     115     189 .. 0.86

  Alignments for each domain:
  == domain 1  score: 38.6 bits;  conditional E-value: 3.8e-13
                              .-EEEEEE-TTSGGGGT.--TT-EEEEETTB--SSHHHHHHHHHTS-TT-EEEEEEE CS
                    PDZ_2  14 ggvlvvsVkeggPaakaglkagDvilkvdgkkvksledlislllkkkpGdtVkltvl 70 
                              ++v vv V+e++Pa+ aglk gD i++vdg++v+s+++l ++++k+k G+ V l++ 
  PHY93_21385|PHY93_21385 124 EKVKVVGVTENSPAQIAGLKEGDWIVSVDGVQVSSSDQLTNEVAKYK-GKSVDLEIN 179
                              4799**************************************99765.888888775 PP

>> PDZ_6  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.9   0.3   3.4e-11   8.6e-08       2      53 ..     128     177 ..     127     186 .. 0.86

  Alignments for each domain:
  == domain 1  score: 31.9 bits;  conditional E-value: 3.4e-11
                    PDZ_6   2 VtaVdpgsPAdrAGlrvGDiilsvNGqpveglsladvaallrgsagesvvlv 53 
                              V  V ++sPA  AGl+ GD i+sv+G+ v   s +++ + ++   g+sv l+
  PHY93_21385|PHY93_21385 128 VVGVTENSPAQIAGLKEGDWIVSVDGVQV--SSSDQLTNEVAKYKGKSVDLE 177
                              7889*************************..999998777766666666665 PP

>> GRASP55_65  GRASP55/65 PDZ-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.5   0.1   1.3e-09   3.3e-06      45     129 ..     126     205 ..     116     213 .. 0.82

  Alignments for each domain:
  == domain 1  score: 27.5 bits;  conditional E-value: 1.3e-09
                              EEEEEEBTTSHHHHHT--TTTEEEEEEE.SSSSSTSCSHHHHTTTSSS-EEEEEEETTTTEEEEEEE---TTSSSSTTTSEEEE- CS
               GRASP55_65  45 whvldvlegsPaakagLvpksDYiiGldkgllkgeedlselveaheekelkLlvYnsesdevrevtvkpsrewGgegalGcdvgy 129
                              ++v+ v+e+sPa+ agL++  D+i+ +d   ++++++l++ v +++ k++ L +   + d++ +v+v  +    gega+G+ +++
  PHY93_21385|PHY93_21385 126 VKVVGVTENSPAQIAGLKE-GDWIVSVDGVQVSSSDQLTNEVAKYKGKSVDLEI---NGDKLVKVEVREN-PPEGEGAMGVAISN 205
                              79***************86.7******************************966...5677778888433.44557888887765 PP

>> PDZ  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.0   0.4   7.2e-09   1.8e-05      26      81 ..     124     178 ..     115     179 .. 0.80

  Alignments for each domain:
  == domain 1  score: 25.0 bits;  conditional E-value: 7.2e-09
                              SSEEEEEECTTSHHHHHTSSTTEEEEEETTEETTTS.HHHHHHHHHHTTTSEEEEEE CS
                      PDZ  26 kgifvsevlpggaaeadglkvGDkIlsvNgvdvenv.sheeavqaikgskgkvtLti 81 
                              + + v  v ++++a+ +glk+GD I+sv+gv v++  +++  v++ kg+  +v L+i
  PHY93_21385|PHY93_21385 124 EKVKVVGVTENSPAQIAGLKEGDWIVSVDGVQVSSSdQLTNEVAKYKGK--SVDLEI 178
                              567888999*************************994445555555555..788887 PP

>> Tricorn_PDZ  Tricorn protease PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.3   0.3   1.6e-07    0.0004      29      80 ..     133     182 ..     122     189 .. 0.89

  Alignments for each domain:
  == domain 1  score: 20.3 bits;  conditional E-value: 1.6e-07
                              -B-GGGGGS---.TT-EEEEETTEE-BTTB-HHHHHHTTTTSEEEEEEE-ST CS
              Tricorn_PDZ  29 arSPLaepGvnvreGdlilavdgepvskekgiaelLvgkagkeveLtvkrkd 80 
                              ++SP +  G++  eGd i++vdg++vs+++++ +  +  +gk+v L+++ ++
  PHY93_21385|PHY93_21385 133 ENSPAQIAGLK--EGDWIVSVDGVQVSSSDQLTNEVAKYKGKSVDLEINGDK 182
                              78999999999..**********************************99865 PP

>> DUF2583  Protein of unknown function (DUF2583)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.2   0.00038      0.97       4      33 ..      91     120 ..      89     166 .. 0.77
   2 ?   -0.2   0.4      0.52   1.3e+03       3      28 ..     314     339 ..     312     347 .. 0.67

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00038
                  DUF2583   4 kkalllGnvlmglGlllmvaslaysvlnql 33 
                              k  ++lG vlm l l+++v s++y++l   
  PHY93_21385|PHY93_21385  91 KLIIVLGGVLMNLVLAIVVFSVVYAILGVP 120
                              556799*******************98643 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.52
                  DUF2583   3 rkkalllGnvlmglGlllmvaslays 28 
                              rk  + +  v+  +G+++++a ++ +
  PHY93_21385|PHY93_21385 314 RKANQKVEAVVNNVGMMILLALIVLV 339
                              66667777777788888887766554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (348 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       781  (0.0435607); expected 358.6 (0.02)
Passed bias filter:                      439  (0.0244855); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.56u 0.26s 00:00:00.82 Elapsed: 00:00:00.45
# Mc/sec: 2310.28
//
Query:       PHY93_14750|PHY93_14750  [L=170]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.2e-13   49.9   1.5    4.5e-13   49.4   0.1    1.8  2  YceD      Large ribosomal RNA subunit accumulation protein Yc
  ------ inclusion threshold ------
        0.2   11.8   0.1       0.29   11.3   0.1    1.2  1  RFC1      Replication factor RFC1 C terminal domain


Domain annotation for each model (and alignments):
>> YceD  Large ribosomal RNA subunit accumulation protein YceD
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.2      0.17   1.5e+03      43      58 ..      41      56 ..      22      62 .. 0.63
   2 !   49.4   0.1   5.1e-17   4.5e-13       2      87 ..      78     168 ..      77     170 .] 0.86

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.17
                     YceD 43 edeedeedeeeilaee 58
                             e+ee+++de e++a e
  PHY93_14750|PHY93_14750 41 ELEEENDDEAEFPAAE 56
                             2333446666666655 PP

  == domain 2  score: 49.4 bits;  conditional E-value: 5.1e-17
                     YceD   2 dgrvsatvtleCdrClepvelpldveftelfveeeeeaedeedee.....deedeeeilaeedeiDlselireelllalPlkplck 82 
                              +++++a+ +l+C rCl p++++ld+++   f+ e++e+  e+ e+     d ++ e + + +++ D+ e+i+e++ +++++ p+c+
  PHY93_14750|PHY93_14750  78 RAQLKAHFHLPCGRCLYPLPQELDLDLAAAFIHESQEKLPEYVEAttvyaDGQEMELYFYHKGMADIREFIHEQIYIEVTPFPRCD 163
                              7899***************************99888887777766899964444444444888*********************** PP

                     YceD  83 pdckg 87 
                               +ck 
  PHY93_14750|PHY93_14750 164 GECKN 168
                              9**97 PP

>> RFC1  Replication factor RFC1 C terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.1   3.2e-05      0.29     108     156 ..      19      68 ..       4      69 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 3.2e-05
                              HHTTT--SHHHHHHHHHH-X...XXX.XXXXXXXXXXXXXXXXXXXXXXX CS
                     RFC1 108 ielmdeysLtkedvdslvelslvkge.kkkedplkkidtkvKaaftrkyn 156
                              +++++ey+L k  +  ++el +  +e +++e+ +  ++  +Ka++trk n
  PHY93_14750|PHY93_14750  19 MDVIEEYELDKTTTPWVNELLVELEEeNDDEAEFPAAEMTIKAQITRKTN 68 
                              7899***********9***988855559999999**************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (170 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       463  (0.0258241); expected 358.6 (0.02)
Passed bias filter:                      374  (0.0208601); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 1154.42
//
Query:       PHY93_14755|PHY93_14755  [L=169]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.6e-20   71.6   0.0    9.1e-20   71.4   0.0    1.0  1  SKI              Shikimate kinase
    3.7e-07   30.7   0.0    4.9e-07   30.3   0.0    1.2  1  AAA_18           AAA domain
    0.00031   20.9   0.0     0.0014   18.8   0.0    1.9  1  AAA_33           AAA domain
     0.0007   19.5   0.0        1.1    9.1   0.0    2.2  2  dNK              Deoxynucleoside kinase
  ------ inclusion threshold ------
       0.01   15.4   0.0      0.022   14.4   0.0    1.5  2  cobW             CobW/HypB/UreG, nucleotide-binding domain
      0.014   15.2   0.0      0.023   14.4   0.0    1.5  1  AAA_24           AAA domain
      0.023   15.0   0.0      0.051   13.8   0.0    1.7  2  AAA_22           AAA domain
      0.038   13.4   0.0      0.084   12.3   0.0    1.6  1  Arf              ADP-ribosylation factor family
       0.13   12.0   0.0       0.24   11.1   0.0    1.6  2  Viral_helicase1  Viral (Superfamily 1) RNA helicase
       0.14   12.1   0.0       0.22   11.5   0.0    1.2  1  STI1             STI1 domain
       0.15   11.3   0.0        1.5    8.0   0.0    2.1  2  ATP_bind_2       P-loop ATPase protein family
       0.15   12.5   0.0        6.5    7.2   0.0    2.2  2  AAA_17           AAA domain


Domain annotation for each model (and alignments):
>> SKI  Shikimate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   71.4   0.0   6.1e-23   9.1e-20       1     145 [.       9     157 ..       9     168 .. 0.87

  Alignments for each domain:
  == domain 1  score: 71.4 bits;  conditional E-value: 6.1e-23
                              TTSSHHHHHHHH.HHHHTSEEEEHHHHH..HHHHT.S-HHHHHHHHHHHHHHHHHHHHHHHHCCCS.SEEEEE-TTGGGSHHHHHH CS
                      SKI   1 mGaGKstvGkll.AkklglefiDlDeli..ekrtg.ksiaeifeeegeegFrelEsevlkelleee.glViatGGGavlseenrel 81 
                              mGaGKst+ +++  + lg+e+iDlD+ +  e r++  +  e + ++g   Fr+lE+  lk ll+++ +lVia+GGG+ l++e+ +l
  PHY93_14755|PHY93_14755   9 MGAGKSTLLRKFqPNNLGFECIDLDDALavELRIRpERLGEWILQNGFPLFRDLEKTKLKTLLRHKnSLVIALGGGS-LTPEILKL 93 
                              9******998873699**********77558888899999999**********************999*****9999.78889999 PP

                              HH..HHSEEEEEE--HHHHHHHHHHTTSSGGGCSCHHHHHHHHHHH.HHHHHHCCSSCEEEECTSSH CS
                      SKI  82 lk..ekgiviyLdvsleellerlkadkeRPllqekskeeelleela.ereplyeeaadvvvdesees 145
                              ++   ++ +++Ld+s+e  l+r+k+d++RP+ q + +  el+  l+ +r+  y  a+ vv++++ ++
  PHY93_14755|PHY93_14755  94 IHndPECKLVFLDTSFELCLARIKDDPTRPMSQISLE--ELK-RLFeSRRIGYLSADLVVSESEIKE 157
                              99667899***********************997766..555.555489999999999888887765 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.3   0.0   3.3e-10   4.9e-07       1     120 [.       3     126 ..       3     141 .. 0.86

  Alignments for each domain:
  == domain 1  score: 30.3 bits;  conditional E-value: 3.3e-10
                   AAA_18   1 IlltGtpGvGKttlakeLskrlgfgvnlrdvakenglllevdpealdeskrldedkldklldaleenss..aleegknlvidghla 84 
                              Il++G +G+GK+tl +  +   ++g++++d+      +l   pe  +  + + ++    l++ le+      l++ ++lvi    +
  PHY93_14755|PHY93_14755   3 ILICGFMGAGKSTLLRKFQPN-NLGFECIDLDDALAVELRIRPE--RLGEWILQNG-FPLFRDLEKTKLktLLRHKNSLVIALGGG 84 
                              99****************997.67********************..7777777777.67777777766677677778899999999 PP

                   AAA_18  85 eleseaakdikk......vvLtaspeelleRlekRgyeeaki 120
                               l +e +k i+       v+L++s e +l R++++ +++  +
  PHY93_14755|PHY93_14755  85 SLTPEILKLIHNdpecklVFLDTSFELCLARIKDDPTRPMSQ 126
                              999999999999***********************9998765 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.0   9.6e-07    0.0014       2      43 ..       3      46 ..       3     135 .. 0.65

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 9.6e-07
                   AAA_33  2 vllvGlpGsGKstlaer.llkklgavllssdtlrr.rlfgtdqq 43
                             +l++G  G+GKstl+++   ++lg++ ++ d+++   l+ + ++
  PHY93_14755|PHY93_14755  3 ILICGFMGAGKSTLLRKfQPNNLGFECIDLDDALAvELRIRPER 46
                             689**************4478888*******9665544443333 PP

>> dNK  Deoxynucleoside kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.1   0.0   0.00071       1.1       1      27 [.       3      30 ..       3      36 .. 0.81
   2 !    8.5   0.0    0.0011       1.6     126     162 ..     102     138 ..      87     157 .. 0.85

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.00071
                             EEEEESTTSSHHHHHHHHH.CCSTCEEE CS
                      dNK  1 ivveGnIgaGKstlvklLs.kklgvkvf 27
                             i + G +gaGKstl+  ++ ++lg++++
  PHY93_14755|PHY93_14755  3 ILICGFMGAGKSTLLRKFQpNNLGFECI 30
                             6789**********99765367778775 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.0011
                              EEEEE--HHHHHHHHHHCTTCCCTTS-HHHHHHHHHH CS
                      dNK 126 liYLkasletclerikkRgreeekkieldYlekLhek 162
                              l++L++s e cl rik        +i+l+ l++L e+
  PHY93_14755|PHY93_14755 102 LVFLDTSFELCLARIKDDPTRPMSQISLEELKRLFES 138
                              8***************988888789999999988765 PP

>> cobW  CobW/HypB/UreG, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0   1.5e-05     0.022       3      21 ..       3      21 ..       1      29 [. 0.85
   2 ?   -3.1   0.0       3.3     5e+03      84      98 ..      75      90 ..      61     106 .. 0.54

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 1.5e-05
                             EEEEESTTCCHHHHHHHHH CS
                     cobW  3 tvltGflGsGKTtLlnhll 21
                             ++++Gf+G+GK+tLl++  
  PHY93_14755|PHY93_14755  3 ILICGFMGAGKSTLLRKFQ 21
                             689************9865 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 3.3
                             SEEEEEECT.TTTHHH CS
                     cobW 84 dviliEttG.laePap 98
                             + ++i  +G  ++P  
  PHY93_14755|PHY93_14755 75 NSLVIALGGgSLTPEI 90
                             3444444444555554 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0   1.6e-05     0.023       4      73 ..       2     107 ..       1     127 [. 0.62

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 1.6e-05
                   AAA_24   4 kiliyGpsgiGKTtlakelgpkpl...fidtekGlksldadkfpdie.........swedfldevvel.................. 59 
                              kili G  g+GK+tl+++++p+ l   +id+++ l    +    ++e         +++ f+d  ++                   
  PHY93_14755|PHY93_14755   2 KILICGFMGAGKSTLLRKFQPNNLgfeCIDLDDAL---AVELRIRPErlgewilqnGFPLFRDLEKTKlktllrhknslvialggg 84 
                              9******************8877733355777744...222222223445555666444444443333555555555556667777 PP

                   AAA_24  60 .........aaeladyktlviDt 73 
                                         +++++k +++Dt
  PHY93_14755|PHY93_14755  85 sltpeilklIHNDPECKLVFLDT 107
                              77777776677777777777776 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   3.4e-05     0.051       8      26 ..       3      21 ..       2      44 .. 0.91
   2 ?   -3.8   0.0       9.6   1.4e+04     108     117 ..     128     137 ..     123     143 .. 0.69

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 3.4e-05
                   AAA_22  8 lvvtGesGtGKTtllrrll 26
                             ++++G  G+GK+tllr+++
  PHY93_14755|PHY93_14755  3 ILICGFMGAGKSTLLRKFQ 21
                             79**************997 PP

  == domain 2  score: -3.8 bits;  conditional E-value: 9.6
                   AAA_22 108 aleeLrslln 117
                               leeL++l++
  PHY93_14755|PHY93_14755 128 SLEELKRLFE 137
                              4777777766 PP

>> Arf  ADP-ribosylation factor family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   5.6e-05     0.084      15      39 ..       1      25 [.       1      29 [. 0.92

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 5.6e-05
                             EEEEEEESTTSSHHHHHHHHHHSSC CS
                      Arf 15 lrilllGLDnaGKtTilkklkleel 39
                             ++il+ G  +aGK+T+l k++ ++l
  PHY93_14755|PHY93_14755  1 VKILICGFMGAGKSTLLRKFQPNNL 25
                             69******************99875 PP

>> Viral_helicase1  Viral (Superfamily 1) RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   0.00016      0.24       1      22 [.       3      24 ..       3      79 .. 0.83
   2 ?   -3.6   0.0       4.8   7.2e+03      78      93 ..      90     105 ..      84     110 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00016
          Viral_helicase1  1 ivvhGvpGcGKStlirkllrts 22
                             i++ G+ G+GKStl+rk+  ++
  PHY93_14755|PHY93_14755  3 ILICGFMGAGKSTLLRKFQPNN 24
                             57889************99774 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 4.8
          Viral_helicase1  78 yilllaalskaklvil 93 
                              +++l+++++++klv+l
  PHY93_14755|PHY93_14755  90 ILKLIHNDPECKLVFL 105
                              4566777777777765 PP

>> STI1  STI1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00015      0.22       2      40 ..      88     126 ..      87     128 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00015
                     STI1   2 pelfaklaanPetrellsDPefvakleeiqsNPqalqqy 40 
                              pe+++ + ++Pe +  + D +f   l +i+ +P+  +++
  PHY93_14755|PHY93_14755  88 PEILKLIHNDPECKLVFLDTSFELCLARIKDDPTRPMSQ 126
                              889999***************************988765 PP

>> ATP_bind_2  P-loop ATPase protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   0.0     0.001       1.5       4      30 ..       3      31 ..       1      43 [. 0.86
   2 ?    1.5   0.0       0.1   1.5e+02      77     118 ..      94     132 ..      67     168 .. 0.67

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.001
                             EEEEESTTSSHHHHHHHH..HHHTXEEEB CS
               ATP_bind_2  4 vivsGlsGaGksvalral..edlGyyvvd 30
                             +++ G  GaGks+ lr +  ++lG+ ++d
  PHY93_14755|PHY93_14755  3 ILICGFMGAGKSTLLRKFqpNNLGFECID 31
                             799**************944589****98 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.1
                              SXTTSEEEEEEEEXXHHHHHHHCTSSSXSSTTSXXXSSHHHH CS
               ATP_bind_2  77 lekaitprilfleadddtlvrryedtrrshPlsakdlslegi 118
                              +++  + +++fl+++ +  + r +d   + P+s  ++sle +
  PHY93_14755|PHY93_14755  94 IHNDPECKLVFLDTSFELCLARIKDDP-TRPMS--QISLEEL 132
                              556667889999999999888888753.34544..3444433 PP

>> AAA_17  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2   0.0    0.0044       6.5       2      30 ..       7      36 ..       6      73 .. 0.85
   2 ?    3.6   0.0     0.057        86     103     136 .]     100     133 ..      85     133 .. 0.87

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.0044
                             E-TTSSHHHHHHHHH.HHHTEEEEEHHHHH CS
                   AAA_17  2 GgPGsGKgtqceklv.ekygfthlsaGdll 30
                             G  G+GK+t+++k +  ++gf+ +   d l
  PHY93_14755|PHY93_14755  7 GFMGAGKSTLLRKFQpNNLGFECIDLDDAL 36
                             788**********98677899888776666 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.057
                              SEEEEEE--HHHHHHHHHHHTTST-TS-SHHHHH CS
                   AAA_17 103 daiilleadpeeilerrlkdrtrgrdddneesik 136
                               ++++l+++ e +l+r + d tr  +  + e++k
  PHY93_14755|PHY93_14755 100 CKLVFLDTSFELCLARIKDDPTRPMSQISLEELK 133
                              6899************9999*****999999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (169 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       372  (0.0207485); expected 358.6 (0.02)
Passed bias filter:                      357  (0.0199119); expected 358.6 (0.02)
Passed Vit filter:                        84  (0.00468515); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.54u 0.27s 00:00:00.81 Elapsed: 00:00:00.48
# Mc/sec: 1059.13
//
Query:       PHY93_14760|PHY93_14760  [L=496]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (496 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       657  (0.0366445); expected 358.6 (0.02)
Passed bias filter:                      413  (0.0230353); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.63u 0.25s 00:00:00.88 Elapsed: 00:00:00.47
# Mc/sec: 3174.37
//
Query:       PHY93_14765|PHY93_14765  [L=378]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.2e-42  144.7   0.0    3.8e-42  144.4   0.0    1.1  1  Ala_racemase_N  Alanine racemase, N-terminal domain
      5e-22   78.0   0.0    8.3e-22   77.3   0.0    1.4  1  Ala_racemase_C  Alanine racemase, C-terminal domain


Domain annotation for each model (and alignments):
>> Ala_racemase_N  Alanine racemase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  144.4   0.0   4.2e-46   3.8e-42       1     218 [.       9     236 ..       9     237 .. 0.89

  Alignments for each domain:
  == domain 1  score: 144.4 bits;  conditional E-value: 4.2e-46
                              EEHHHHHHHHHHHHHHSCTTSEEEEE-HHHHHTTHHHHHHHHHHHT.TESEEEESSHHHHHHHHHTTS..CSEEEEESCSTGGGHH CS
           Ala_racemase_N   1 idldalrhNlrrlralagpgaklmavvKanayghgavevaralaeg.gadgfgvatleEalelreagi..tapilvlegfspeela 83 
                              ++l +l+hN+++++++a p+++++ +vKa++yghg++++ar + ++ g++ fg+at++Eal+lre     + +i v++ ++ e ++
  PHY93_14765|PHY93_14765   9 VNLHNLHHNYSVIKKMA-PETEVLFMVKADGYGHGMIPIARYAMTElGIKEFGCATISEALKLREELNdlEFDIYVFSDIQLELFE 93 
                              6899*************.9999*******************997667*****************98767799******96665555 PP

                              HHHH...TTEEEEESSHHHHHHHHHHHHHTTS-EEEEEEBESSSSSSSBSCHHHHHHHHHHHHTTTEEEEEEE-S-SSTTSTS..H CS
           Ala_racemase_N  84 alae...ydltvtvdsleqlealaaaareagkplrvhlkidtgmgRlGftpeeleellealaalpglrleglmtHfasadepd..e 164
                              ++     +++ +++++  +le + +  +   k++++++k++tgm+RlG++p++++++++ l+++ + ++  l +H a+a  p   +
  PHY93_14765|PHY93_14765  94 NADIylkRRIIPVISNVSELEYILHTPE--FKNFPICMKFNTGMNRLGLDPNDAPRIVSMLKNHGRTSVHHLISHYANASYPMdtN 177
                              54323339*******************8..9************************************************6655544 PP

                              HHHH.HHHHHHHHHHHHHHTTGGGSEEEEESHHHHHHS...GGG.TTEEEESGGGGT-S CS
           Ala_racemase_N 165 etea.qlarfeealeelekaglrppvvslanSaailla...aah.fdmvRpGialyGls 218
                              e +  q+ rf e+++ + ++g+  +  s +nS+ai +    + h  +++RpG+++yG +
  PHY93_14765|PHY93_14765 178 ERNVfQRTRFLEIKKLFTDSGIILERTSQSNSGAIEQNigfKEHgDTHIRPGLMMYGPT 236
                              55557*************9**999**************7553568999*********75 PP

>> Ala_racemase_C  Alanine racemase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.3   0.0   9.3e-26   8.3e-22       1     124 []     253     377 ..     253     377 .. 0.90

  Alignments for each domain:
  == domain 1  score: 77.3 bits;  conditional E-value: 9.3e-26
                              SEEEEEEEEEEEEESTTSEESGGGSEE-SSSEEEEEES--GGGTCGGGGT.TEEEETTEEEEEESEE-SSEEEEEEC..TSTT--T CS
           Ala_racemase_C   1 vmtlkarviqvkevkagegvgYgatyvaerdtriavvpiGYaDGlprals.gevlingkrvpvvGrvcMDqlmvdlt..eveevkv 83 
                              v +l++ +i + evkag+ +gYg+t ++++d  +av++iGY+DG++ +   ++ + +g +  + Grv MD++ v     + +++ +
  PHY93_14765|PHY93_14765 253 VSSLETYIIRTFEVKAGTPIGYGST-ICPHDGVVAVLAIGYGDGFSTRYGgAHLYHKGFEGVITGRVNMDMIQVLFPieARDHILA 337
                              5689*******************98.578999*************9988846999999**************99776423344778 PP

                              T-EEEEEEETEEEEHHHHHHHHTSEHHHHHHTSHTTSEEEE CS
           Ala_racemase_C  84 gdevvllgegeeitveelaeaagtisyeiltrlskrvprvy 124
                               +  +++g+ ++ ++ ++ e+++ti+ye++++l +rvprvy
  PHY93_14765|PHY93_14765 338 HEIFTIWGK-QDGDLLKFSEETKTIPYELFCSLLPRVPRVY 377
                              88999***7.699**************************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (378 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       362  (0.0201908); expected 358.6 (0.02)
Passed bias filter:                      345  (0.0192426); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.44
# Mc/sec: 2577.82
//
Query:       PHY93_14770|PHY93_14770  [L=265]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.8e-72  241.1  22.3    1.2e-71  240.7  22.3    1.1  1  MlaE      Permease MlaE


Domain annotation for each model (and alignments):
>> MlaE  Permease MlaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  240.7  22.3   6.8e-76   1.2e-71       1     211 [.      51     261 ..      51     262 .. 0.99

  Alignments for each domain:
  == domain 1  score: 240.7 bits;  conditional E-value: 6.8e-76
                     MlaE   1 lveqlefvgvkslpivlltalftGavlalqgasqlkqfgaesllgslvalalvrelgPvltallvagrvGsaiaAelGtmrvteei 86 
                              ++eql+f+g ks++i+ll ++ftG+vla q++  +k + ++sl+g++va++l +el+Pvlt+l+vagr+Gsa+aA++G+m+vte+i
  PHY93_14770|PHY93_14770  51 FFEQLYFIGNKSIMIILLAGMFTGMVLATQTYFGFKLINVDSLVGAIVAISLSKELAPVLTGLIVAGRAGSAMAAQIGSMKVTEQI 136
                              689*********************************************************************************** PP

                     MlaE  87 dAlevmgidpikylvvPrvlAlvialplLtviadlvgilggylvavlllgispgaylqsvqealslkdllvgllKalvfGliiali 172
                              dAlevmgi++i+yl vPr++A++ia+p+L ++++++g +g++l+++ +l i+ + +++++ +++ ++d+ +g +Ka vfG++ia+i
  PHY93_14770|PHY93_14770 137 DALEVMGINSIQYLAVPRIAAATIAVPMLSIVFLFIGNFGSWLIGTKTLMIDEALFFSKLGDFMYVSDIAQGAIKACVFGFVIAVI 222
                              ************************************************************************************** PP

                     MlaE 173 acyqGltakggaegvgrattravvtsivlilvvdlvltl 211
                              ++y G+++ +ga gvgr t+ avv+ ++ +l++d++lt 
  PHY93_14770|PHY93_14770 223 GTYFGFQVDKGAVGVGRGTNLAVVWGMISVLILDYFLTS 261
                              *************************************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (265 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       758  (0.0422779); expected 358.6 (0.02)
Passed bias filter:                      313  (0.0174578); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.46
# Mc/sec: 1718.71
//
Query:       PHY93_14775|PHY93_14775  [L=248]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    4.5e-32  111.4   0.0      6e-32  111.0   0.0    1.2  1  ABC_tran     ABC transporter
    0.00028   20.9   0.1    0.00057   19.8   0.1    1.5  1  RsgA_GTPase  RsgA GTPase
     0.0013   18.4   0.1     0.0023   17.6   0.1    1.4  1  AAA_29       P-loop containing region of AAA domain
     0.0031   17.1   0.0     0.0054   16.4   0.0    1.4  1  cobW         CobW/HypB/UreG, nucleotide-binding domain
     0.0063   16.9   0.0     0.0084   16.5   0.0    1.2  1  AAA_16       AAA ATPase domain
  ------ inclusion threshold ------
      0.011   16.2   0.7      0.025   15.1   0.7    1.5  1  AAA_23       AAA domain
      0.035   14.2   0.3       0.24   11.5   0.0    2.1  2  MMR_HSR1     50S ribosome-binding GTPase
      0.038   14.3   0.0      0.059   13.6   0.0    1.4  1  AAA_22       AAA domain
      0.038   13.7   0.0      0.075   12.7   0.0    1.4  1  AAA_30       AAA domain
       0.14   11.6   0.2        5.9    6.3   0.0    2.2  2  SMC_N        RecF/RecN/SMC N terminal domain
       0.17   12.0   0.0       0.26   11.5   0.0    1.4  1  AAA_33       AAA domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  111.0   0.0   3.7e-35     6e-32       1     136 [.      24     173 ..      24     174 .. 0.91

  Alignments for each domain:
  == domain 1  score: 111.0 bits;  conditional E-value: 3.7e-35
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG...B-HHHCCHCEEEE-SS--S-TTSBHHHH.... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxx.... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke...qeleslrkeigvlpqepqlfpeltvren.... 79 
                              lk++s+++ +++++ i+G +GaGKStLlk ++g +kpt+G++ + g+dl++    +l+++r+++g+l+q + lf+  t++en    
  PHY93_14775|PHY93_14775  24 LKDLSFDIARNKITTILGFSGAGKSTLLKHILGIVKPTSGHVYVLGQDLESldkVQLREFRRNFGMLFQYAALFDSFTAEENvafp 109
                              799**********************************************99998999***************************** PP

                              ..........HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              ..........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ..........esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                                        e  ++++++l ++g++e   +  k+ ps+LSgG+++rv lar l+  p+++l DEpt
  PHY93_14775|PHY93_14775 110 lqeftklskqEIAAKVKDLLLSVGISE---DSFKKLPSELSGGMRKRVGLARGLALGPDIMLYDEPT 173
                              ****98755555555777777777666...666777******************************9 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.8   0.1   3.5e-07   0.00057      90     122 ..      24      57 ..       7      69 .. 0.80

  Alignments for each domain:
  == domain 1  score: 19.8 bits;  conditional E-value: 3.5e-07
                              HHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT CS
              RsgA_GTPase  90 leelkellkd.ktsvlvGqSGvGKStLinallpe 122
                              l++l+  ++  k+++++G SG+GKStL++++l+ 
  PHY93_14775|PHY93_14775  24 LKDLSFDIARnKITTILGFSGAGKSTLLKHILGI 57 
                              67777777766******************99875 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.1   1.4e-06    0.0023      16      43 ..      28      55 ..      20      66 .. 0.79

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 1.4e-06
                   AAA_29 16 tieidlkgatlltGpsGsGKSTllDAiq 43
                             +++i ++ +t + G sG+GKSTll  i 
  PHY93_14775|PHY93_14775 28 SFDIARNKITTILGFSGAGKSTLLKHIL 55
                             67888888***************96555 PP

>> cobW  CobW/HypB/UreG, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.0   3.3e-06    0.0054       2      37 ..      36      73 ..      35      87 .. 0.78

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 3.3e-06
                             EEEEEESTTCCHHHHHHHHH..CT--SS-EEEEESS-S CS
                     cobW  2 vtvltGflGsGKTtLlnhll..enraglklavivNefg 37
                             +t + Gf G+GK+tLl+h+l   +  + ++ v+  ++ 
  PHY93_14775|PHY93_14775 36 ITTILGFSGAGKSTLLKHILgiVKPTSGHVYVLGQDLE 73
                             68899**************9776666666666666655 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   5.1e-06    0.0084      25      76 ..      35      94 ..      24     162 .. 0.66

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 5.1e-06
                   AAA_16 25 elvllsGesGvGKsslvrellralekd..ggiflrgkcdqlesa......ipysalaqal 76
                              ++ + G sG GKs+l++++l  ++ +  ++++l ++ ++l++       + + +l q++
  PHY93_14775|PHY93_14775 35 KITTILGFSGAGKSTLLKHILGIVKPTsgHVYVLGQDLESLDKVqlrefrRNFGMLFQYA 94
                             57889****************877777544555666666653223333332223344444 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.1   0.7   1.5e-05     0.025       7      39 ..      18      54 ..       9      58 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.5e-05
                   AAA_23  7 frsf...rdqeidF.skgltlItGpNGaGKTTildAi 39
                             f+ +   +d ++d   +++t I G  GaGK+T+l  i
  PHY93_14775|PHY93_14775 18 FGEHvilKDLSFDIaRNKITTILGFSGAGKSTLLKHI 54
                             44445557777777889*****************877 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00015      0.24       3      22 ..      38      57 ..      36      73 .. 0.84
   2 ?    0.3   0.0      0.44   7.2e+02      30      64 ..     172     198 ..     162     237 .. 0.55

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00015
                             EEEESTTSSHHHHHHHHHTS CS
                 MMR_HSR1  3 aivGrpNvGKStLinaltge 22
                              i+G + +GKStL++ ++g 
  PHY93_14775|PHY93_14775 38 TILGFSGAGKSTLLKHILGI 57
                             599*************9984 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.44
                              TTSSSSEEEEEEEETTEEEEEEECGGCSSHHHHHH CS
                 MMR_HSR1  30 pgtTrdinegrvklkgkeielvDtpGliegaseek 64 
                              p t +d+++ ++     +  +vDt+   +   +++
  PHY93_14775|PHY93_14775 172 PTTGLDPITTKMV----NNLIVDTAT-KH---KDR 198
                              5566666666554....235667766.22...122 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   3.6e-05     0.059       5      27 ..      34      56 ..      31     131 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 3.6e-05
                   AAA_22  5 agilvvtGesGtGKTtllrrlle 27
                              +i+++ G sG+GK+tll+ +l 
  PHY93_14775|PHY93_14775 34 NKITTILGFSGAGKSTLLKHILG 56
                             6899***************9875 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   4.6e-05     0.075      18      52 ..      34      68 ..      29      89 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 4.6e-05
                   AAA_30 18 drvavltGpAGtGKttalkalreaweaaggrvigl 52
                             ++++++ G  G+GK+t+lk++  +++   g+v +l
  PHY93_14775|PHY93_14775 34 NKITTILGFSGAGKSTLLKHILGIVKPTSGHVYVL 68
                             56999****************99999887777776 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.3   0.0    0.0036       5.9      23      44 ..      33      54 ..      16      65 .. 0.85
   2 ?    3.3   0.0     0.028        46     121     186 ..     123     191 ..     108     223 .. 0.71

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.0036
                             TSSEEEEEESTTSSHHHHHHHH CS
                             xxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 23 sksftaivGpNGSGKsnlldAi 44
                              +++t i+G  G+GKs ll  i
  PHY93_14775|PHY93_14775 33 RNKITTILGFSGAGKSTLLKHI 54
                             4679**************9877 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.028
                              HHHHHHHHCTT-STT.......CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxx.......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 121 kevsellesagiske.......lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkek 186
                              ++v++ll s+gis++       +LSgG ++ v la  +A+    p  ++l De    LD   +k v +l+  +
  PHY93_14775|PHY93_14775 123 AKVKDLLLSVGISEDsfkklpsELSGGMRKRVGLARGLALG---P-DIMLYDEPTTGLDPITTKMVNNLIVDT 191
                              56788888888888888888889*******99999998874...2.366778888888888888888777533 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00016      0.26       4      32 ..      39      72 ..      36     133 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00016
                   AAA_33  4 lvGlpGsGKstlaerl...lkklg..avllssdt 32
                             + G +G+GKstl++++   +k++   +++l +d 
  PHY93_14775|PHY93_14775 39 ILGFSGAGKSTLLKHIlgiVKPTSghVYVLGQDL 72
                             579***********98444444447777777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (248 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       580  (0.0323498); expected 358.6 (0.02)
Passed bias filter:                      529  (0.0295053); expected 358.6 (0.02)
Passed Vit filter:                        86  (0.0047967); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.55u 0.26s 00:00:00.81 Elapsed: 00:00:00.47
# Mc/sec: 1602.62
//
Query:       PHY93_14780|PHY93_14780  [L=454]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.4e-12   46.1   0.5    1.7e-11   44.3   0.5    2.0  1  MlaD            MlaD protein
     0.0085   16.4   0.2        0.3   11.4   0.0    2.8  3  Img2            Mitochondrial large subunit ribosomal protein
  ------ inclusion threshold ------
      0.013   15.6   1.1       0.11   12.6   0.1    2.6  3  CRIC_ras_sig    Connector enhancer of kinase suppressor of ra
      0.041   14.2   3.2        2.1    8.6   0.3    3.4  4  DUF4709         Domain of unknown function (DUF4709)
        0.1   12.9   0.3        1.6    9.1   0.0    2.4  2  Tox-REase-3     Restriction endonuclease fold toxin 3
       0.13   12.8   1.9        1.2    9.6   0.2    2.2  2  FlgN            FlgN protein
       0.29    9.1   2.0       0.42    8.5   2.0    1.2  1  Prominin        Prominin
       0.29   11.1   3.3       0.57   10.1   0.1    2.8  3  MIP-T3_C        Microtubule-binding protein MIP-T3 C-terminal
       0.34   11.0   6.2       0.32   11.1   3.2    2.3  2  ApoLp-III       Apolipophorin-III precursor (apoLp-III)
       0.39   10.6   1.8         15    5.5   0.1    3.3  3  RNA_pol_Rpb5_C  RNA polymerase Rpb5, C-terminal domain
       0.42   11.0   7.5       0.46   10.9   2.2    2.9  3  Syntaxin_2      Syntaxin-like protein
       0.53    9.3   4.8        1.2    8.2   4.3    1.8  1  APG17           Autophagy protein Apg17
       0.57   10.2   6.4        1.5    8.9   6.4    1.8  1  Baculo_PEP_C    Baculovirus polyhedron envelope protein, PEP,
        1.3    9.5   6.7        6.8    7.2   3.4    2.8  2  NPV_P10         Nucleopolyhedrovirus P10 protein
        1.5    9.5   5.8       0.26   11.9   0.9    2.3  2  DUF4665         Domain of unknown function (DUF4665)
        1.7    8.8   3.8        1.1    9.4   0.5    2.2  2  DUF848          Gammaherpesvirus protein of unknown function 
          4    7.6   7.9        1.2    9.3   0.5    2.9  4  Fib_alpha       Fibrinogen alpha/beta chain family


Domain annotation for each model (and alignments):
>> MlaD  MlaD protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.3   0.5   1.6e-14   1.7e-11       2      78 ..      34     106 ..      33     109 .. 0.96

  Alignments for each domain:
  == domain 1  score: 44.3 bits;  conditional E-value: 1.6e-14
                     MlaD   2 gytvtaqfdnangLkvgapVryrGvtvGrVtsitldpdtrrvtvtvdldkksetsipedsraqvstggllgekyial 78 
                              ++t++   ++a+g+ +++p++++G++ Gr+ +i+l  +++++ +t+++   +++ ++++s+  +++ g lg+kyi++
  PHY93_14780|PHY93_14780  34 YVTYRTIVKDASGIFPKTPIKVAGINAGRIVTIEL--QGNTALITFEIL--KQIQVTKNSKLRIKSVGFLGDKYIEI 106
                              678999999**************************..999999******..************************98 PP

>> Img2  Mitochondrial large subunit ribosomal protein (Img2)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.1       2.2   2.3e+03      40      40 ..     198     198 ..     157     236 .. 0.56
   2 ?    3.5   0.1     0.085        90      16      76 ..     211     271 ..     209     272 .. 0.82
   3 !   11.4   0.0   0.00029       0.3      23      76 ..     266     354 ..     252     357 .. 0.82

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 2.2
                     Img2  40 l 40 
                              l
  PHY93_14780|PHY93_14780 198 L 198
                              2 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.085
                     Img2  16 YtdvkrggtkkltvirkieGDiaalredLrkaleelvkvne.vtgkieikGdrveevkkfLe 76 
                              Y+  k++g   +  i+++  + ++l +d+++ +++ +k+ + + gk  ++ +  ++vk+ L+
  PHY93_14780|PHY93_14780 211 YQVDKNNGDSAMSDIKQVLANTKKLTSDMSSIVAD-LKLGKgTLGKMLVEDEIADQVKETLS 271
                              77789999***********************9995.55554255888888888888888776 PP

  == domain 3  score: 11.4 bits;  conditional E-value: 0.00029
                     Img2  23 gtkkltvirkieGDiaalredLrkalee..l.................................vkvnevtgkieikGdrveevkk 73 
                               +++l  ++ki G + alr++L+ + +   +                                  ++ ++t+ ++++ +++e+vk+
  PHY93_14780|PHY93_14780 266 VKETLSSVQKIVGKADALRTELSIYSGVnsKsggdteaslriypsperfyhlgiasaelgpdyeKTISTNTNGVIVNQNYKENVKN 351
                              5667889****************9999654155666667777777888888888888888888899999****************9 PP

                     Img2  74 fLe 76 
                               L+
  PHY93_14780|PHY93_14780 352 TLR 354
                              986 PP

>> CRIC_ras_sig  Connector enhancer of kinase suppressor of ras
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.1   0.00011      0.11      32      91 ..     157     216 ..     129     218 .. 0.85
   2 ?    1.1   0.1      0.41   4.4e+02       5      48 ..     198     246 ..     194     253 .. 0.76
   3 ?    0.8   0.1      0.52   5.4e+02      32      55 ..     260     283 ..     222     288 .. 0.67

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 0.00011
             CRIC_ras_sig  32 sssrklpndvLsavvelitaakallswLdRypfsqlsdfsatrnkiiklcleLttivqkd 91 
                              +   ++ +++L+ v el++++k++ + L R+   ++++  a+ +++ +   +L+  v k+
  PHY93_14780|PHY93_14780 157 EGEVSPLKKILTDVSELVANTKEVTASLKRVTTGNEEKINALMDNLQAFSEDLAYQVDKN 216
                              56678999*********************************9999999999999888775 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.41
             CRIC_ras_sig   5 ltekLrasarslqnaiqsrrrsnsydg.....sssrklpndvLsavvel 48 
                              l  +L+a ++ l   + + +  ++  +     ++++kl++d+ s v++l
  PHY93_14780|PHY93_14780 198 LMDNLQAFSEDLAYQVDKNNGDSAMSDikqvlANTKKLTSDMSSIVADL 246
                              6677778888887777777755554447778889999999999999987 PP

  == domain 3  score: 0.8 bits;  conditional E-value: 0.52
             CRIC_ras_sig  32 sssrklpndvLsavvelitaakal 55 
                              ++++   +++Ls+v +++++a al
  PHY93_14780|PHY93_14780 260 DEIADQVKETLSSVQKIVGKADAL 283
                              455566678899999999988877 PP

>> DUF4709  Domain of unknown function (DUF4709)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0       5.2   5.4e+03      28      54 ..     128     147 ..     122     156 .. 0.52
   2 ?    3.5   0.1     0.081        85      24      51 ..     158     185 ..     151     196 .. 0.87
   3 ?    8.6   0.3     0.002       2.1      13      65 ..     205     262 ..     198     285 .. 0.76
   4 ?    0.3   0.0      0.79   8.3e+02      25      52 ..     261     289 ..     258     293 .. 0.82

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 5.2
                  DUF4709  28 elkeltevtqkLvkevkslkrdfeflk 54 
                               l +l++ t++++ +vk +        
  PHY93_14780|PHY93_14780 128 GLENLIKDTSEVLADVKLI-------V 147
                              4445555555544444443.......3 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.081
                  DUF4709  24 sEilelkeltevtqkLvkevkslkrdfe 51 
                               E+ +lk++ + +++Lv ++k++   ++
  PHY93_14780|PHY93_14780 158 GEVSPLKKILTDVSELVANTKEVTASLK 185
                              5999****************99987765 PP

  == domain 3  score: 8.6 bits;  conditional E-value: 0.002
                  DUF4709  13 fatDhatQTdv....sEilelkeltevtqkLvkevkslkrdfeflkqll.qakyeekl 65 
                              f++D a Q d+    s + ++k++ ++t+kL+++++s+  d+++ k +l ++  e+++
  PHY93_14780|PHY93_14780 205 FSEDLAYQVDKnngdSAMSDIKQVLANTKKLTSDMSSIVADLKLGKGTLgKMLVEDEI 262
                              7788888888622225699************************999877334445555 PP

  == domain 4  score: 0.3 bits;  conditional E-value: 0.79
                  DUF4709  25 Eil.elkeltevtqkLvkevkslkrdfef 52 
                              Ei+ ++ke  +++qk+v + ++l++++++
  PHY93_14780|PHY93_14780 261 EIAdQVKETLSSVQKIVGKADALRTELSI 289
                              5552599999*************999876 PP

>> Tox-REase-3  Restriction endonuclease fold toxin 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.0      0.44   4.7e+02      33      70 ..     237     274 ..     199     294 .. 0.71
   2 ?    9.1   0.0    0.0015       1.6      46      83 ..     333     371 ..     328     393 .. 0.80

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 0.44
              Tox-REase-3  33 avsddaliqakralsqkpknflnkkvrkqikatieaae 70 
                              +     ++  k ++ +  k +++ ++ +q+k+t+   +
  PHY93_14780|PHY93_14780 237 SDMSSIVADLKLGKGTLGKMLVEDEIADQVKETLSSVQ 274
                              44455566666666667788899999999999987655 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.0015
              Tox-REase-3  46 lsqkpknflnkkvrkqikatieaaeqsGkra.efwfkee 83 
                               ++    ++n++ ++ +k+t++   q G+r  +f f ++
  PHY93_14780|PHY93_14780 333 STNTNGVIVNQNYKENVKNTLRFNAQIGRRInNFDFRGG 371
                              444455689********************9725778776 PP

>> FlgN  FlgN protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   0.2    0.0012       1.2      28     123 ..     117     204 ..     114     217 .. 0.85
   2 ?    2.5   0.1      0.18   1.9e+02      44     102 ..     222     279 ..     219     287 .. 0.70

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.0012
                              HHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SCHHHHHHHHCTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     FlgN  28 EteaLkagdieaLeelleekqellekleqleqkrakllaelglsaeeatlsellakeedeelkelwqelkelleelkelnelNgrl 113
                              + + + ++++++Le+l+++  e+l++++ + + +  ++a  g++     l+++l     + + el++  ke+++ lk++ + N++ 
  PHY93_14780|PHY93_14780 117 KYDFIDSEEAAGLENLIKDTSEVLADVKLIVRSMKDSIAPEGEV---SPLKKIL-----TDVSELVANTKEVTASLKRVTTGNEEK 194
                              6788899999*******************************999...4466666.....588888999999999999999999999 PP

                              HHHCCHHHHH CS
                     FlgN 114 ieqslefnqr 123
                              i++ ++ +q 
  PHY93_14780|PHY93_14780 195 INALMDNLQA 204
                              9999887765 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.18
                              HHHHHHHHHHHHHHHHHHHHHHHHTT--SCHHHHHHHHCT.TCCHHHHHHHHHHHHHHHH CS
                     FlgN  44 leekqellekleqleqkrakllaelglsaeeatlsellak.eedeelkelwqelkellee 102
                              + +++++l++ ++l  +++ ++a+l+l+  + tl ++l + e ++++ke  +++++++ +
  PHY93_14780|PHY93_14780 222 MSDIKQVLANTKKLTSDMSSIVADLKLG--KGTLGKMLVEdEIADQVKETLSSVQKIVGK 279
                              567889999999****************..677777774335555555555555555544 PP

>> Prominin  Prominin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.5   2.0    0.0004      0.42     234     352 ..     163     279 ..     124     290 .. 0.69

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.0004
                 Prominin 234 vlpaLaelerllenlkeakeqLeqvnklekeLrksgsqLrdglrgvkrdlnqalsnlCq..s.eeCskilssleiekldtskcldq 316
                              + + L+++ +l+ n+ke+ ++L+ v    +   ++ + L d+l++  +dl + + ++ +  + ++ +++l ++++ + d+s+ +  
  PHY93_14780|PHY93_14780 163 LKKILTDVSELVANTKEVTASLKRVTTGNE---EKINALMDNLQAFSEDLAYQVDKNNGdsAmSDIKQVLANTKKLTSDMSSIVAD 245
                              567899999999999999999998877665...47889999999999999999999555231245555555555544455544444 PP

                 Prominin 317 lpnvdevlealeevletnlssivkeglarlneipek 352
                              l+  +  l +   ++e++++ +vke l+++++i  k
  PHY93_14780|PHY93_14780 246 LKLGKGTLGK--MLVEDEIADQVKETLSSVQKIVGK 279
                              4444444433..356778888888888888888666 PP

>> MIP-T3_C  Microtubule-binding protein MIP-T3 C-terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.1   0.00054      0.57     108     152 ..     156     200 ..     144     202 .. 0.91
   2 ?   -0.2   0.0      0.82   8.6e+02     100     134 ..     210     244 ..     204     248 .. 0.74
   3 ?   -2.1   0.1       3.2   3.4e+03     122     141 ..     258     277 ..     256     284 .. 0.74

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00054
                 MIP-T3_C 108 teealeplkaqlaeleeaIkdqkekisnvrakilkNeakiqkllk 152
                               e++++plk+ l ++ e ++++ke +  +++    Ne+ki+ l+ 
  PHY93_14780|PHY93_14780 156 PEGEVSPLKKILTDVSELVANTKEVTASLKRVTTGNEEKINALMD 200
                              57889************************************9986 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.82
                 MIP-T3_C 100 elaeerrateealeplkaqlaeleeaIkdqkekis 134
                              + +  ++ +++a++++k+ la+ ++  +d  + + 
  PHY93_14780|PHY93_14780 210 AYQVDKNNGDSAMSDIKQVLANTKKLTSDMSSIVA 244
                              55667788889999999999998888888776655 PP

  == domain 3  score: -2.1 bits;  conditional E-value: 3.2
                 MIP-T3_C 122 leeaIkdqkekisnvrakil 141
                              +e++I+dq +++  + +ki+
  PHY93_14780|PHY93_14780 258 VEDEIADQVKETLSSVQKIV 277
                              68888888888777666665 PP

>> ApoLp-III  Apolipophorin-III precursor (apoLp-III)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   3.2    0.0003      0.32      27     107 ..     133     217 ..     122     247 .. 0.75
   2 ?   -0.5   0.0       1.1   1.2e+03      34      50 ..     262     278 ..     256     287 .. 0.55

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.0003
                ApoLp-III  27 iKensenlvdqlkqvikslqeelkk..ksdeleealkevkkkie...etadklseenPevkkkaqelqekvQsgvqslvkesqkla 107
                              i + +++++  +k +  s++++++   + + l+++l++v + ++   e++++l+    + ++k+++l  ++Q+  + l+ +++k  
  PHY93_14780|PHY93_14780 133 I-KDTSEVLADVKLIVRSMKDSIAPegEVSPLKKILTDVSELVAntkEVTASLKRVTTGNEEKINALMDNLQAFSEDLAYQVDKNN 217
                              4.457788899************984566789****9998766511156789999***********************99998853 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 1.1
                ApoLp-III  34 lvdqlkqvikslqeelk 50 
                              ++dq+k++ +s+q  + 
  PHY93_14780|PHY93_14780 262 IADQVKETLSSVQKIVG 278
                              34444444444444443 PP

>> RNA_pol_Rpb5_C  RNA polymerase Rpb5, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.0      0.17   1.7e+02      56      73 .]      23      40 ..      20      40 .. 0.87
   2 ?   -0.6   0.1       1.2   1.3e+03      45      64 ..      54      73 ..      51      89 .. 0.85
   3 ?    5.5   0.1     0.014        15      19      60 ..     238     279 ..     229     290 .. 0.86

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.17
                             EEEEEETTTEEEEEEEEE CS
           RNA_pol_Rpb5_C 56 kItrksetageavtYRlV 73
                             k+t +    g++vtYR +
  PHY93_14780|PHY93_14780 23 KVTSNQSGFGQYVTYRTI 40
                             888888899*******75 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 1.2
                             HCCT--TTSEEEEEEEETTT CS
           RNA_pol_Rpb5_C 45 rylglkkGdvvkItrkseta 64
                             +  g++ G++v I  +++ta
  PHY93_14780|PHY93_14780 54 KVAGINAGRIVTIELQGNTA 73
                             67789999999999888887 PP

  == domain 3  score: 5.5 bits;  conditional E-value: 0.014
                              HHHHHHHHTT--TTCSS-EETTSHHHHCCT--TTSEEEEEEE CS
           RNA_pol_Rpb5_C  19 ekkellkklkikeeqLPkisksDpvarylglkkGdvvkItrk 60 
                              +  ++++ lk+ +  L k++ +D +a  ++ +  +v kI+ k
  PHY93_14780|PHY93_14780 238 DMSSIVADLKLGKGTLGKMLVEDEIADQVKETLSSVQKIVGK 279
                              567889999*********************999999999977 PP

>> Syntaxin_2  Syntaxin-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.2      0.19     2e+02      45      88 ..     132     186 ..     122     199 .. 0.46
   2 ?   10.9   2.2   0.00044      0.46       7      95 ..     194     282 ..     160     287 .. 0.78
   3 ?   -2.8   0.1       7.9   8.4e+03      20      54 ..     330     364 ..     328     367 .. 0.60

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.19
               Syntaxin_2  45 likktnellkklsqldnsssds..........qqkl.qkekLkkdfkealqeFqk 88 
                              lik+t+e l +++ + +s +ds          +++l   + L+   ke+  ++++
  PHY93_14780|PHY93_14780 132 LIKDTSEVLADVKLIVRSMKDSiapegevsplKKILtDVSELVANTKEVTASLKR 186
                              4444444444444444444444444433444322223344444444444444444 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.00044
               Syntaxin_2   7 kinsnvstleklvkqLgtkkdteelreklhelieeinelikktnellkklsqldnsssds....qqklqkekLkkdfkealqeFqk 88 
                              kin ++ +l+ + ++L  + d    +++ ++ +++i++++ +t++l +++s++   ++       ++l ++ +++++ke l++ qk
  PHY93_14780|PHY93_14780 194 KINALMDNLQAFSEDLAYQVD----KNNGDSAMSDIKQVLANTKKLTSDMSSIVADLKLGkgtlGKMLVEDEIADQVKETLSSVQK 275
                              455555555555555555544....3555778889999999999999999998877754468888899****************** PP

               Syntaxin_2  89 iqrqyae 95 
                              i+ ++  
  PHY93_14780|PHY93_14780 276 IVGKADA 282
                              *988765 PP

  == domain 3  score: -2.8 bits;  conditional E-value: 7.9
               Syntaxin_2  20 kqLgtkkdteelreklhelieeinelikktnellk 54 
                              k+++t+++   ++++ +e+++++ +   ++ ++++
  PHY93_14780|PHY93_14780 330 KTISTNTNGVIVNQNYKENVKNTLRFNAQIGRRIN 364
                              56666666666666666666666666665555555 PP

>> APG17  Autophagy protein Apg17
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.2   4.3    0.0011       1.2     113     193 ..     118     245 ..      75     248 .. 0.70

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.0011
                              GGCS--TTTTHHHHHHHHH............................................HHHHHHHHHHHHTTHH..HHHHH CS
                    APG17 113 lDFvdedsveelkealkes............................................idelqaaqkkldssllefdtdlr 154
                              +DF+d ++   l++ +k+                                             ++ l+++ +  +++++++ ++l+
  PHY93_14780|PHY93_14780 118 YDFIDSEEAAGLENLIKDTsevladvklivrsmkdsiapegevsplkkiltdvselvantkevTASLKRVTTGNEEKINALMDNLQ 203
                              79999999999999998888887777777777777787777777777777777777666555566666666666666666667777 PP

                              HHHHHH....-------STCCHHHHHHHHHHHHHHHHHHHHHH CS
                    APG17 155 elkkel....sksksksessslipellkelesleeemAslLes 193
                              + ++ l    + +++++++ s i+++l++ ++l ++m s+   
  PHY93_14780|PHY93_14780 204 AFSEDLayqvD-KNNGDSAMSDIKQVLANTKKLTSDMSSIVAD 245
                              77777777532.4455578888888888888888888887665 PP

>> Baculo_PEP_C  Baculovirus polyhedron envelope protein, PEP, C terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   6.4    0.0014       1.5      29     138 ..     167     277 ..     128     279 .. 0.72

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.0014
             Baculo_PEP_C  29 nvqilaqlatlldaietqLnalsedlksllaeldtrldtlltnLtdalnalq.dtlrneLtnlnsiltnLlssvtNinstLnnllq 113
                              ++ + ++l +  +++  +L+ +++  ++ +++l ++l+++++ L  ++ + + d+  ++++ + ++   L+s++  i + L+    
  PHY93_14780|PHY93_14780 167 LTDV-SELVANTKEVTASLKRVTTGNEEKINALMDNLQAFSEDLAYQVDKNNgDSAMSDIKQVLANTKKLTSDMSSIVADLKLGKG 251
                              3334.444444444555555555555555666666677777777777766668888888888888888899999988888887777 PP

             Baculo_PEP_C 114 alnnl.dlgalsqeledaldtveeil 138
                              +l  +  +++++++ +++l++v++i+
  PHY93_14780|PHY93_14780 252 TLGKMlVEDEIADQVKETLSSVQKIV 277
                              77765578889999999999999887 PP

>> NPV_P10  Nucleopolyhedrovirus P10 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2   3.4    0.0065       6.8       6      66 ..     163     230 ..     160     243 .. 0.76
   2 ?    2.2   0.0      0.23   2.4e+02      28      51 ..     264     287 ..     254     294 .. 0.82

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.0065
                  NPV_P10   6 LlvIradikavddkVdalqqqvddvqe.nlpdvtelnekLdaqsaqLa.elet.....kvenIqdiLn 66 
                              L  I++d++++    + + +++++v++ n ++++ l ++L+a s+ La ++++     ++++I+++L 
  PHY93_14780|PHY93_14780 163 LKKILTDVSELVANTKEVTASLKRVTTgNEEKINALMDNLQAFSEDLAyQVDKnngdsAMSDIKQVLA 230
                              66788888888888888888888887536777888888888888887633444778888888888886 PP

  == domain 2  score: 2.2 bits;  conditional E-value: 0.23
                  NPV_P10  28 ddvqenlpdvtelnekLdaqsaqL 51 
                              d+v+e l  v+++  k da+ ++L
  PHY93_14780|PHY93_14780 264 DQVKETLSSVQKIVGKADALRTEL 287
                              889999999999999999998877 PP

>> DUF4665  Domain of unknown function (DUF4665)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.9   0.00024      0.26      28      68 ..     176     216 ..     169     242 .. 0.77
   2 ?   -1.3   0.2       3.2   3.4e+03      33      58 ..     222     247 ..     212     276 .. 0.67

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00024
                  DUF4665  28 KAkpVttnLKkinavkkekvenldkalvdiqkdlkslskkl 68 
                               +k Vt +LK++ + ++ek++ l   l+   +dl+    k 
  PHY93_14780|PHY93_14780 176 NTKEVTASLKRVTTGNEEKINALMDNLQAFSEDLAYQVDKN 216
                              689******************99999988888877555443 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 3.2
                  DUF4665  33 ttnLKkinavkkekvenldkalvdiq 58 
                               +++K++ a++k+ +++++ + +d++
  PHY93_14780|PHY93_14780 222 MSDIKQVLANTKKLTSDMSSIVADLK 247
                              45566666666666666666665554 PP

>> DUF848  Gammaherpesvirus protein of unknown function (DUF848)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.0       1.7   1.8e+03      79     113 ..     115     152 ..     102     162 .. 0.76
   2 ?    9.4   0.5     0.001       1.1      58     113 ..     163     218 ..     156     231 .. 0.88

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 1.7
                   DUF848  79 Lkk...lnrkkvarveeLtdkvlelkeevsleldslee 113
                              L+k   ++ ++ a +e+L     e+ ++v+l + s+++
  PHY93_14780|PHY93_14780 115 LRKydfIDSEEAAGLENLIKDTSEVLADVKLIVRSMKD 152
                              44333378888899999999999999999998888765 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.001
                   DUF848  58 ikalveavdteieakkkelslLkklnrkkvarveeLtdkvlelkeevsleldslee 113
                              +k+ ++ v + + ++k   ++Lk++   + +++++L+d+ +   e+++ ++d+ ++
  PHY93_14780|PHY93_14780 163 LKKILTDVSELVANTKEVTASLKRVTTGNEEKINALMDNLQAFSEDLAYQVDKNNG 218
                              6778888999999999999*********************************8655 PP

>> Fib_alpha  Fibrinogen alpha/beta chain family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.3   0.5    0.0011       1.2      25     116 ..     114     207 ..     111     215 .. 0.74
   2 ?    7.5   0.9    0.0042       4.5      37     119 ..     160     240 ..     156     248 .. 0.56
   3 ?    1.0   0.2      0.41   4.4e+02      33      62 ..     218     247 ..     208     281 .. 0.67
   4 ?   -2.1   0.1       3.8   4.1e+03      77     101 ..     340     363 ..     327     368 .. 0.53

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.0011
                              CCCCCCCCCCHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH...HHCCCHHHHHHHCCHHHHHHH CS
                Fib_alpha  25 lllkyekdvkkdlekleneleeisnstkeaeelvkeikdslrekqkskkdndnvikksskel...eeeilrlketidaqesnirvL 107
                              +l ky+   +++ + len +++ s+   +++ +v+++kds++++ + ++  +++++++s+ +   +e  + lk+  + +e++i++L
  PHY93_14780|PHY93_14780 114 MLRKYDFIDSEEAAGLENLIKDTSEVLADVKLIVRSMKDSIAPEGEVSPL-KKILTDVSELVantKEVTASLKRVTTGNEEKINAL 198
                              677777777888889999999999999*************9999999995.55555555444110445556666667777999999 PP

                              HHHHHHHHH CS
                Fib_alpha 108 qnvlesneq 116
                               ++l++ ++
  PHY93_14780|PHY93_14780 199 MDNLQAFSE 207
                              888887665 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0042
                              HCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHCCHHHHHHHHHHHHHHHHHHH CS
                Fib_alpha  37 lekleneleeisnstkeaeelvkeikdslrekqkskkdndnvikksskeleeeilrlketidaqesnirvLqnvlesneqkiq 119
                              ++ l++ l+++s+   +++e++ ++k +++ ++++ +     ++ +s++l   ++  k++ d+ +s i++   + +++ ++++
  PHY93_14780|PHY93_14780 160 VSPLKKILTDVSELVANTKEVTASLKRVTTGNEEKINALMDNLQAFSEDLA--YQVDKNNGDSAMSDIKQVLANTKKLTSDMS 240
                              455666666666666666666666666666666666655555666666665..333344444455555555555555555554 PP

  == domain 3  score: 1.0 bits;  conditional E-value: 0.41
                              CCHHHCCCCCCCCCCCCHHHHHHHHHHHHH CS
                Fib_alpha  33 vkkdlekleneleeisnstkeaeelvkeik 62 
                               +  ++++++ l++ ++ t++++++v ++k
  PHY93_14780|PHY93_14780 218 GDSAMSDIKQVLANTKKLTSDMSSIVADLK 247
                              456677888888888888888888887776 PP

  == domain 4  score: -2.1 bits;  conditional E-value: 3.8
                              HHHHHHHHHHHHCCCHHHHHHHCCH CS
                Fib_alpha  77 nvikksskeleeeilrlketidaqe 101
                               v ++++++++ + lr++++i + +
  PHY93_14780|PHY93_14780 340 IVNQNYKENVK-NTLRFNAQIGRRI 363
                              33445555555.6666666665555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (454 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       946  (0.0527637); expected 358.6 (0.02)
Passed bias filter:                      625  (0.0348597); expected 358.6 (0.02)
Passed Vit filter:                        69  (0.00384851); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              17  [number of targets reported over threshold]
# CPU time: 0.76u 0.29s 00:00:01.05 Elapsed: 00:00:00.48
# Mc/sec: 2827.18
//
Query:       PHY93_14785|PHY93_14785  [L=191]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (191 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       255  (0.0142228); expected 358.6 (0.02)
Passed bias filter:                      221  (0.0123264); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.42
# Mc/sec: 1363.88
//
Query:       PHY93_20715|PHY93_20715  [L=347]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
  ------ inclusion threshold ------
      0.038   14.2   0.0       0.09   12.9   0.0    1.6  1  Tubulin_C  Tubulin C-terminal domain


Domain annotation for each model (and alignments):
>> Tubulin_C  Tubulin C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0     5e-06      0.09      11      71 ..      23      83 ..      15      87 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 5e-06
                             ESSSCTTTTTCS-HHHHHHHHHTCSGGGBSSSTSTTTSSEEEEEEEEEESSSHHHHHHHHH CS
                Tubulin_C 11 aPlvsaekaavektsvqdvtrallepknimvkvdprkgkylaiallirGdvepkevnkavq 71
                             +P +++++a+ve++  +d++++l+++ + +vk+++ + k ++  ++  G +++ e++k ++
  PHY93_20715|PHY93_20715 23 SPKIERSTASVESNGCNDIIQDLFKAAHSIVKSNTTRTKAISKGMVDDGVIDSFELDKLLE 83
                             6888899***********************************9999999999988887665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (347 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       512  (0.0285571); expected 358.6 (0.02)
Passed bias filter:                      392  (0.021864); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.58u 0.23s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 2272.97
//
Query:       PHY93_20720|PHY93_20720  [L=345]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (345 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       485  (0.0270511); expected 358.6 (0.02)
Passed bias filter:                      333  (0.0185733); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.54u 0.25s 00:00:00.79 Elapsed: 00:00:00.46
# Mc/sec: 2276.41
//
Query:       PHY93_21390|PHY93_21390  [L=466]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (466 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       669  (0.0373138); expected 358.6 (0.02)
Passed bias filter:                      264  (0.0147247); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.59u 0.23s 00:00:00.82 Elapsed: 00:00:00.46
# Mc/sec: 3054.15
//
Query:       PHY93_20725|PHY93_20725  [L=117]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    0.00051   20.1   0.0    0.00073   19.6   0.0    1.2  1  HTH_20           Helix-turn-helix domain
    0.00078   19.3   0.0     0.0012   18.7   0.0    1.2  1  TrmB             Sugar-specific transcriptional regulator Trm
  ------ inclusion threshold ------
      0.035   14.0   0.0      0.063   13.2   0.0    1.5  1  HTH_11           HTH domain
      0.044   13.7   0.0      0.065   13.2   0.0    1.3  1  MarR             MarR family
      0.075   13.0   0.0       0.13   12.2   0.0    1.4  1  Phage_rep_org_N  N-terminal phage replisome organiser (Phage_
       0.16   10.8   0.0        0.2   10.5   0.0    1.1  1  Branch_AA_trans  Branched-chain amino acid transport protein


Domain annotation for each model (and alignments):
>> HTH_20  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   0.0   2.4e-07   0.00073       9      60 ..      50     101 ..      45     102 .. 0.94

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 2.4e-07
                              -HHHHHHHHHHSTCTTB-HHHHHHHHTS-HHHHHHHHHHHHHCTTEEEECTE CS
                   HTH_20   9 hPvRrrilraLaraegltaselaerldlskntlsyHLrvLeeagLvevvreg 60 
                              + vR+++l  ++++++ +  ela+ +  + +++++ ++ L++ gL+++ ++g
  PHY93_20725|PHY93_20725  50 SGVRLELLTIIRSKKPSSIQELARFVKRDYKNVYKDVKLLADFGLIDLKEQG 101
                              679*******************************************998776 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   0.0   3.9e-07    0.0012      19      61 ..      62     104 ..      54     110 .. 0.88

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 3.9e-07
                              HHCCCHHCHHCCCTTSSCHCHHHHHHHHHHCTSEEEESSTTTE CS
                     TrmB  19 klgpatadeiaeelgvprskvYevLrsLedkGlVerekgrpkl 61 
                              +++p++++e+a+ +++++ +vY+ ++ L d Gl++ +++ p++
  PHY93_20725|PHY93_20725  62 SKKPSSIQELARFVKRDYKNVYKDVKLLADFGLIDLKEQGPRK 104
                              789********************************99988875 PP

>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   2.1e-05     0.063       3      43 ..      54      93 ..      52     102 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 2.1e-05
                   HTH_11  3 lqilelLleargpisgeeLAeeLnvSrrtvrrdIkaLeelg 43
                             l +l+++ ++++p s++eLA+  ++  + v++d+k L + g
  PHY93_20725|PHY93_20725 54 LELLTII-RSKKPSSIQELARFVKRDYKNVYKDVKLLADFG 93
                             6678888.777789***********************9998 PP

>> MarR  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   2.2e-05     0.065       4      47 ..      52      95 ..      49     100 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 2.2e-05
                             HHHHHHHHHHHSTTEEHHHHHHHHTS-HHHHHHHHHHHHHTTSE CS
                     MarR  4 tqfviLrilyeqgplsvseLakklgvskstvtrvldrLekkGli 47
                             +++++L+i++++ p s++eLa++++ +  +v + ++ L + Gli
  PHY93_20725|PHY93_20725 52 VRLELLTIIRSKKPSSIQELARFVKRDYKNVYKDVKLLADFGLI 95
                             5789*********************9999998888888888887 PP

>> Phage_rep_org_N  N-terminal phage replisome organiser (Phage_rep_org_N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   4.2e-05      0.13      50      89 ..      62     101 ..      55     113 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 4.2e-05
          Phage_rep_org_N  50 enipytaemlalifnreletvrlaLkvlkdlelieisedk 89 
                               + p+  ++la  ++r+ ++v   +k+l+d++li+ +e++
  PHY93_20725|PHY93_20725  62 SKKPSSIQELARFVKRDYKNVYKDVKLLADFGLIDLKEQG 101
                              6788999****************************98865 PP

>> Branch_AA_trans  Branched-chain amino acid transport protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   6.5e-05       0.2      40      86 ..      44      89 ..      31      93 .. 0.88

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 6.5e-05
          Branch_AA_trans 40 ilgFlltgvglpllgiiavaksgkglkelaervskvfallfaiilyL 86
                             ++g +++gv l ll+ii   k   +++ela+ v++ +  ++  + +L
  PHY93_20725|PHY93_20725 44 TFGKVISGVRLELLTIIRSKKPS-SIQELARFVKRDYKNVYKDVKLL 89
                             57889***********9876666.***************99988877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (117 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       439  (0.0244855); expected 358.6 (0.02)
Passed bias filter:                      390  (0.0217525); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.45u 0.25s 00:00:00.70 Elapsed: 00:00:00.44
# Mc/sec: 804.45
//
Query:       PHY93_20730|PHY93_20730  [L=99]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.074   12.8   0.0       0.11   12.2   0.0    1.3  1  Cupin_2   Cupin domain


Domain annotation for each model (and alignments):
>> Cupin_2  Cupin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   6.1e-06      0.11      12      35 ..      64      87 ..      54      98 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 6.1e-06
                             EEECSSSEEEEEEEEESEEEEEEC CS
                  Cupin_2 12 pshrHpgedeffyVleGegeltvd 35
                             ++h H g  e++yV +G++el+ d
  PHY93_20730|PHY93_20730 64 GPHLHIGDKEIGYVFRGYAELKND 87
                             69******************9866 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (99 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       293  (0.0163422); expected 358.6 (0.02)
Passed bias filter:                      274  (0.0152825); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.44
# Mc/sec: 681.13
//
Query:       PHY93_20735|PHY93_20735  [L=59]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (59 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       203  (0.0113224); expected 358.6 (0.02)
Passed bias filter:                      179  (0.00998383); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.44
# Mc/sec: 401.73
//
Query:       PHY93_20740|PHY93_20740  [L=222]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.2e-06   26.7   1.0    5.7e-06   25.9   0.2    1.8  2  SWIM             SWIM zinc finger
    0.00081   18.9   0.0     0.0012   18.3   0.0    1.3  1  Diphthami_syn_2  Diphthamide synthase
  ------ inclusion threshold ------
       0.31   11.6   1.3        5.2    7.7   0.8    2.6  2  Ribosomal_L25p   Ribosomal L25p family


Domain annotation for each model (and alignments):
>> SWIM  SWIM zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0         1   6.2e+03      28      32 ..      52      56 ..      49      56 .. 0.76
   2 !   25.9   0.2   9.6e-10   5.7e-06      14      37 ..     157     177 ..     148     178 .. 0.90

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 1
                     SWIM 28 pCkHa 32
                              C+H+
  PHY93_20740|PHY93_20740 52 WCEHL 56
                             69996 PP

  == domain 2  score: 25.9 bits;  conditional E-value: 9.6e-10
                     SWIM  14 katCsCpefqkngipCkHalAvll 37 
                              k +CsCp+   + + CkH++Av++
  PHY93_20740|PHY93_20740 157 KLSCSCPD---GAYMCKHVAAVMY 177
                              789*****...***********86 PP

>> Diphthami_syn_2  Diphthamide synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.0   2.1e-07    0.0012     169     207 ..      75     114 ..      71     141 .. 0.87

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 2.1e-07
          Diphthami_syn_2 169 ekygidkagegGeaetlvlDaPlfkkrlevkelek.kwde 207
                              + y i+ a e+G +e+lv  + l+k ++ vke+ k kwd 
  PHY93_20740|PHY93_20740  75 NGYVIHLAIEEGQIEALVQGSSLYKVKITVKEATKkKWDS 114
                              5699***************************986516765 PP

>> Ribosomal_L25p  Ribosomal L25p family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   0.8   0.00087       5.2       3      59 ..      13     104 ..      12     120 .. 0.76
   2 ?    1.2   0.0     0.087   5.2e+02      21      48 ..     171     203 ..     169     221 .. 0.66

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.00087
                              EEECTS.SCCCHHHHHHTTEE.EEEEEESSSC.................................EEEEEEEHHHHHHHCH..CSE CS
           Ribosomal_L25p   3 aekRte.gkgaarrlRregkv.PavlyGggke.................................pisisvdakelrkllkt.stl 52 
                              a+kR++    a + +++ +k+ P+v+ G++++                                  i++++++ +++ l+ + s+l
  PHY93_20740|PHY93_20740  13 AQKRKKaEAAAKKLIKKGEKIsPVVIDGKKIAstfwgqawcehlesfsdyenrlprgrsyvkngyVIHLAIEEGQIEALV-QgSSL 97 
                              7899874454555555555664777778877799999999999999999999999999999999999*************.55888 PP

                              EEEEETT CS
           Ribosomal_L25p  53 ieLevdg 59 
                               ++++  
  PHY93_20740|PHY93_20740  98 YKVKITV 104
                              8888863 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.087
                              EEEEEEEESSSC.....EEEEEEEHHHHHHHCH CS
           Ribosomal_L25p  21 kvPavlyGggke.....pisisvdakelrkllk 48 
                               v av+yG g +      + +++ + +  +l++
  PHY93_20740|PHY93_20740 171 HVAAVMYGVGAKldhgpELLFTLRQVDQAELIT 203
                              6889***99888888876666666666655553 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (222 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       678  (0.0378158); expected 358.6 (0.02)
Passed bias filter:                      539  (0.030063); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.50u 0.28s 00:00:00.78 Elapsed: 00:00:00.46
# Mc/sec: 1456.07
//
Query:       PHY93_20745|PHY93_20745  [L=904]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.3e-51  174.6   0.0    6.2e-51  173.2   0.0    1.4  2  SNF2_N         SNF2 family N-terminal domain
    2.3e-27   95.5   0.0      1e-26   93.4   0.1    2.1  2  DUF3670        SNF2 Helicase protein
      6e-18   65.2   0.0    1.5e-17   63.9   0.0    1.8  1  Helicase_C     Helicase conserved C-terminal domain
     0.0078   15.5   0.0      0.016   14.4   0.0    1.4  1  ERCC3_RAD25_C  ERCC3/RAD25/XPB C-terminal helicase
  ------ inclusion threshold ------
       0.16   12.0   0.1       0.43   10.6   0.1    1.7  1  VHL_C          VHL box domain


Domain annotation for each model (and alignments):
>> SNF2_N  SNF2 family N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0      0.39   1.4e+03       1      14 [.     426     435 ..     426     442 .. 0.80
   2 !  173.2   0.0   1.7e-54   6.2e-51      53     348 ..     439     706 ..     435     708 .. 0.84

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 0.39
                              HHHHHHHHH..... CS
                              xxxxxxxxxxxxxx RF
                   SNF2_N   1 yQkeavkwmlkReq 14 
                              yQ ++v+w+    +
  PHY93_20745|PHY93_20745 426 YQLQGVNWL----N 435
                              9*******9....4 PP

  == domain 2  score: 173.2 bits;  conditional E-value: 1.7e-54
                              HTT--EEE---TTS--HHHHHHHHH...HHTTTS---.......S-EEEE--HHHHHHHHHHHHHH-TTS-EEE--SSHHHH---- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   SNF2_N  53 qsvrGGiLaDemGLGKTvqvlalilaqrakeekdkekkrkdtlagptLivvPaslldqWeneierhvsssalrvlvyggqkkmkkk 138
                              q + G  LaD+mGLGKT+qv++l l    ++++       ++ ++p L++vPasl+ +W+ e++r+++s +  + + +++      
  PHY93_20745|PHY93_20745 439 QLNLGACLADDMGLGKTIQVISLFL----IRKN------LKKDSNPNLLIVPASLIGNWKLELKRFAPSLKFFIAHSSEDG----- 509
                              6678999******************....2222......334579*************************98766666654..... PP

                              -------------EEEE-HHHHHHHT......TTS-S-S-SEEEES-GGGT--TTSHHHHHHHH---S-EEEE-S--SSS-HHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   SNF2_N 139 ntkvapklladydvvittYdvlsreaelqkkrsvlkqvewkrvvlDEghtlknstskaaeavskLstsnrwiltGTPiqnsledly 224
                                k   ++l  +d +ittY  l ++       s lk+++w  vvlDE++ +kn +sk ++ v++L+++nr+ ltGTP+ n   dl+
  PHY93_20745|PHY93_20745 510 -LKEPSDTLMSFDLIITTYGSLLTV-------SWLKEMSWGLVVLDEAQAIKNPDSKQSQLVKTLKSENRLALTGTPVENRFGDLW 587
                              .2345699***************55.......59**************************************************** PP

                              HHHHHH-TTTT--HHHHHHHTHHHHH...HHHHHHHHHHHTT-STTEE---GGGT..--S---EEEEEEEEE--HHHHHHHH.... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   SNF2_N 225 gLlkfLreepfgekqtfdkllqrpie...aqaekgrsrLlqllqrlmlrrakkdv..eknlPpkteeiiflklskverksYnrlle 305
                              +L++f+ ++ +g+   f + ++ + +   a+  k+   +++l+++++lrr k d     +lP+kte  ++++lsk +  +Y++  e
  PHY93_20745|PHY93_20745 588 SLFDFVAPGLLGSSSDFGRFMKVKNKedkAEISKKYGVIRNLVRPYILRRLKIDKaiINDLPDKTEIKTYCNLSKSQIYLYQECVE 673
                              *************99999988888774556667777889*************88754567**********************4333 PP

                              ................HHHHHH-HHH-HHHHHHHHHHHHH--- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   SNF2_N 306 vlrkkalakllkrseaalkssskskekilelllelrqacnhpq 348
                               lr+ +     ++++            il++l + +q+cnhp+
  PHY93_20745|PHY93_20745 674 GLREAI-----ENADGINRR-----GIILSYLIRFKQICNHPS 706
                              333322.....222222222.....339*************96 PP

>> DUF3670  SNF2 Helicase protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0         1   3.7e+03      14      34 ..     167     187 ..     162     199 .. 0.87
   2 !   93.4   0.1   2.9e-30     1e-26       4     135 ..     232     362 ..     229     363 .. 0.94

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 1
                  DUF3670  14 aefLkeaaeaLeaaGvgVllP 34 
                              ++fL++ +++L+++G + +lP
  PHY93_20745|PHY93_20745 167 FAFLATYSHKLSENGKSQHLP 187
                              689************999998 PP

  == domain 2  score: 93.4 bits;  conditional E-value: 2.9e-30
                  DUF3670   4 dalelddeeaaefLkeaaeaLeaaGvgVllPrwl..kkrarprltlklavkgpasaakesklgldalldfdwelalGdeeLseeEl 87 
                              ++  ++ ++a+++Lk+ ++ +e++G+ V++P+w+  k+ +rp++t++l+ k+p      + +g ++lldf++++ +G+ +L+e+E+
  PHY93_20745|PHY93_20745 232 HPQMWNSQQAFKLLKD-IPLFEKSGIVVRVPNWWkaKNPSRPQVTASLGDKSP------GVMGYNSLLDFSVSVKIGELDLTEKEI 310
                              6667999*********.9****************999999*********9999......9************************** PP

                  DUF3670  88 drLaeakrpLvrlrgqWvevdpeelrraleflkrreek....kltladaLra 135
                              ++L++++++Lv ++gqW+evd+e+l  +l+ +k+ e+k    +l++ + +r+
  PHY93_20745|PHY93_20745 311 RELMQKTENLVFFKGQWIEVDAEKLGLVLKKWKEIEKKtkkeGLSFLEGMRM 362
                              **********************************998888889999988886 PP

>> Helicase_C  Helicase conserved C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.9   0.0   4.3e-21   1.5e-17       3     111 .]     722     834 ..     720     834 .. 0.88

  Alignments for each domain:
  == domain 1  score: 63.9 bits;  conditional E-value: 4.3e-21
                              HHHHHHHH.HHTTTTSEEEEEESSHHHHHH.HHHHHHHTTSTEEEESTTSTHHHHHHHHHHHHTTSSS..EEEESGGGTSSSTSTT CS
               Helicase_C   3 leallell.kleeeggkilifvntidrlek.vklllekkgikvavlhgelpqnereeileqfnkgesd..vLiatdvaerGidipk 84 
                              +++l el+ + +++++kil+f++++++    +++l++ +g k ++lhg++p  +r+e +e+f+k+e    ++++ +++++G+++++
  PHY93_20745|PHY93_20745 722 FDRLRELIeTIKSKQEKILVFTQFQEMTGPlANFLENIFGQKGLILHGKTPVGKRKELVEEFQKEEGPpfFVLSLKAGGTGLNLTQ 807
                              566667766669**************8877677787777***********************965544459*************** PP

                              ESEEEESSSSSSHHHHHHHHTTSSSTT CS
               Helicase_C  85 vnlVinfdlprnvtsyiqriGRtgRag 111
                              +++Vi+fd ++n+++ +q+ +R+ R+g
  PHY93_20745|PHY93_20745 808 ASHVIHFDRWWNPATENQATDRAFRIG 834
                              *************************97 PP

>> ERCC3_RAD25_C  ERCC3/RAD25/XPB C-terminal helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.0   4.5e-06     0.016      44     149 ..     720     834 ..     705     845 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 4.5e-06
            ERCC3_RAD25_C  44 nkfracefLikyhekrgDkiivfsDnvfaLkeyakklkkpy......iyGetseaerlkilqkfkknpkvntifls.kvgDtsiDl 122
                               kf  +  Li++ +++++ki+vf+        +a+ l++ +      ++G+t+  +r++++++f+k++     +ls k g t ++l
  PHY93_20745|PHY93_20745 720 GKFDRLRELIETIKSKQEKILVFTQFQEMTGPLANFLENIFgqkgliLHGKTPVGKRKELVEEFQKEEGPPFFVLSlKAGGTGLNL 805
                              68999999**************997554444455544443333333389******************99999999989******** PP

            ERCC3_RAD25_C 123 Peanvliqiss..hfgsrrqeaqrlGriL 149
                               +a+ +i  +   + ++  q   r  ri 
  PHY93_20745|PHY93_20745 806 TQASHVIHFDRwwNPATENQATDRAFRIG 834
                              ******98875224455555555555555 PP

>> VHL_C  VHL box domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.1   0.00012      0.43      17      46 ..     625     654 ..     622     657 .. 0.91

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00012
                              HHHHHH-XXXXXXXXXXXXXXXXXXXXXXX CS
                    VHL_C  17 vvRkLVrpedyrrLeIarcLkeeLedsPnv 46 
                              v+R+LVrp  +rrL I + + ++L d+ ++
  PHY93_20745|PHY93_20745 625 VIRNLVRPYILRRLKIDKAIINDLPDKTEI 654
                              9***********************988666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (904 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       538  (0.0300073); expected 358.6 (0.02)
Passed bias filter:                      410  (0.022868); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.79u 0.27s 00:00:01.06 Elapsed: 00:00:00.48
# Mc/sec: 5639.76
//
Query:       PHY93_20750|PHY93_20750  [L=290]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00086   18.7   0.0     0.0032   16.8   0.0    1.9  1  YcaO      YcaO cyclodehydratase, ATP-ad Mg2+-binding
  ------ inclusion threshold ------
      0.043   14.0   0.0      0.088   13.0   0.0    1.4  1  DUF3952   Domain of unknown function (DUF3952)


Domain annotation for each model (and alignments):
>> YcaO  YcaO cyclodehydratase, ATP-ad Mg2+-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   3.6e-07    0.0032     111     153 ..      81     124 ..      69     193 .. 0.83

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 3.6e-07
                     YcaO 111 fletsnGlAaGntleeAilhGllEliERdafalawyer.lplpr 153
                              + e+ +G+A ++++e+   ++  EliERd+f +  y+  l+   
  PHY93_20750|PHY93_20750  81 VEESRSGMATHKNYEQCYQNAYEELIERDSFVMHLYASeLKTTM 124
                              456669*************************9999887544443 PP

>> DUF3952  Domain of unknown function (DUF3952)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   9.8e-06     0.088       9      47 ..     102     140 ..      97     145 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 9.8e-06
                  DUF3952   9 getkieyerlvkaldeGdmkkvmsasddGyayvkeevrd 47 
                              +e+ ie + +v  l   ++k+ m +sddG  ++k +++d
  PHY93_20750|PHY93_20750 102 YEELIERDSFVMHLYASELKTTMLTSDDGIDFIKLQSID 140
                              57889****************************988776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (290 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       429  (0.0239277); expected 358.6 (0.02)
Passed bias filter:                      302  (0.0168442); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.46
# Mc/sec: 1910.79
//
Query:       PHY93_20755|PHY93_20755  [L=156]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    7.4e-35  120.2   0.0    8.4e-35  120.0   0.0    1.0  1  UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family,
    4.8e-08   33.3   0.0    1.1e-07   32.1   0.0    1.6  1  NAD_binding_2   NAD binding domain of 6-phosphogluconate dehy
     0.0016   18.1   0.0     0.0021   17.7   0.0    1.2  1  ApbA            Ketopantoate reductase PanE/ApbA
     0.0095   15.0   0.1      0.066   12.2   0.1    2.0  1  PDH             Prephenate dehydrogenase
  ------ inclusion threshold ------
      0.011   15.1   0.1      0.019   14.3   0.1    1.5  1  2-Hacid_dh_C    D-isomer specific 2-hydroxyacid dehydrogenase
      0.019   15.8   0.0      0.034   15.0   0.0    1.5  1  GFO_IDH_MocA    Oxidoreductase family, NAD-binding Rossmann f
      0.035   14.0   0.0      0.053   13.4   0.0    1.2  1  3HCDH_N         3-hydroxyacyl-CoA dehydrogenase, NAD binding 
      0.047   14.1   0.0        0.1   13.0   0.0    1.5  2  Semialdhyde_dh  Semialdehyde dehydrogenase, NAD binding domai
        0.1   12.6   0.0       0.12   12.3   0.0    1.1  1  NAD_Gly3P_dh_N  NAD-dependent glycerol-3-phosphate dehydrogen


Domain annotation for each model (and alignments):
>> UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  120.0   0.0   4.2e-38   8.4e-35       3     144 ..      16     153 ..      14     156 .] 0.94

  Alignments for each domain:
  == domain 1  score: 120.0 bits;  conditional E-value: 4.2e-38
                              EEEE--STTHHHHHHHHHHCTSEEEEE-S-HHHHHHHCTTS-SS--TTHHHHHHHHCHTTTEEEES-HHHHHHC-SEEEE-----B CS
           UDPG_MGDP_dh_N   3 isviGlGYvGlvtaavlaeighevigvDideekvdklnsgkipiyepgLeelvkkavesgrlsfttdvekaveeadvifiaVgTPs 88 
                              i ++GlGYvGl+ a+ ++e  ++vig Did+ kv+k+n g++ i++   + + +++   + +++ttd++k +++ d+i+++V+TP 
  PHY93_20755|PHY93_20755  16 IGIVGLGYVGLPLALRYSEENFKVIGFDIDQFKVSKINDGQSFIEHISNAAVTAAKK--SGFEATTDFKK-ISDVDAIILCVPTPL 98 
                              89******************************************9999888777776..89********9.*************** PP

                              -TTTTCB-THHHHHHHHHHHHHHHCEEEEEE-S---TTHHHHCHHHHHHHHCSS-T CS
           UDPG_MGDP_dh_N  89 kkkgkaaDlkyvesaarsiaealkkgkvvvvkSTvpvgtaeelvkkileeaskkkg 144
                               k ++++Dl++v ++++si ++lk g++v ++ST+++gt+ee + + +e+   k g
  PHY93_20755|PHY93_20755  99 TK-YREPDLSFVLTTTESIIPYLKAGQIVSLESTTYPGTTEEELLPRIEKSGLKVG 153
                              **.*****************************************999999887765 PP

>> NAD_binding_2  NAD binding domain of 6-phosphogluconate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.1   0.0   5.7e-11   1.1e-07       2      99 ..      16     139 ..      15     152 .. 0.71

  Alignments for each domain:
  == domain 1  score: 32.1 bits;  conditional E-value: 5.7e-11
                              EEEE--SHHHHHHHHHHHHTT-EEEEE-SSHHHHHHHHHTT...............EEE-SSHHHHHHHC..............SE CS
            NAD_binding_2   2 igfiGlGvMGsnmalnllkagykvavynrtkekveelvaeg...............akaaesieelvasl..............dv 58 
                              ig++GlG  G ++al+  ++++kv++++ ++ kv ++ + +                                           d+
  PHY93_20755|PHY93_20755  16 IGIVGLGYVGLPLALRYSEENFKVIGFDIDQFKVSKINDGQsfiehisnaavtaakK------------SgfeattdfkkisdvDA 89 
                              9************************************99888877777765444431............133333344666666** PP

                              EEE-SSSH......HHHHHHHHS...HCCC--TT-EEEE-S---HHHHHH CS
            NAD_binding_2  59 vitmvkag......kavdevieg...llealkkgdilidgstsspedtre 99 
                              +i++v+        ++   v++    ++++lk+g+i+   st+ p +t+e
  PHY93_20755|PHY93_20755  90 IILCVPTPltkyrePDLSFVLTTtesIIPYLKAGQIVSLESTTYPGTTEE 139
                              *****975222222333333333666***********9999999987764 PP

>> ApbA  Ketopantoate reductase PanE/ApbA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   0.0   1.1e-06    0.0021       1      92 [.      16     110 ..      16     121 .. 0.83

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 1.1e-06
                              EEEES-SHHHHHHHHHHHHHTHCEEEE-SCH.HHHHHHHHCEEEEETT.CEEEEEECEEECCH.SCCCCS-ESEEEE-SSGGGHHH CS
                     ApbA   1 iailGaGaiGsllaakLakagadvtlilrsr.rlealkknGlrltseg.geeilrppealsae.ekselepidlvivtvKayqtee 83 
                              i i+G+G +G  la + ++ + +v+  + ++ ++ ++++  + ++  +   +++ ++  ++a+ + ++++++d +i++v++  t++
  PHY93_20755|PHY93_20755  16 IGIVGLGYVGLPLALRYSEENFKVIGFDIDQfKVSKINDGQSFIEHISnAAVTAAKKSGFEATtDFKKISDVDAIILCVPTPLTKY 101
                              89*************************************9999999997555555555555557999*************998887 PP

                              HHHHHGGGE CS
                     ApbA  84 aleeikpll 92 
                                 ++  +l
  PHY93_20755|PHY93_20755 102 REPDLSFVL 110
                              666665555 PP

>> PDH  Prephenate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.2   0.1   3.3e-05     0.066      29      58 ..      70      99 ..      26     112 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 3.3e-05
                             HTTSSSEEES-GGGGCCGSEEEE-S-GGGH CS
                      PDH 29 elglvdeatddieavkeadivvlavPvevi 58
                             +   ++eat+d++++++ d ++l+vP   +
  PHY93_20755|PHY93_20755 70 AKKSGFEATTDFKKISDVDAIILCVPTPLT 99
                             345689********************7655 PP

>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.1   9.6e-06     0.019      35      73 ..      12      50 ..       3     101 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 9.6e-06
                             TTSEEEEES-SHHHHHHHHHHHHTT-EEEEESSSHHHHH CS
             2-Hacid_dh_C 35 sgktvGiiGlGrIGqavakrlkafgmkviaydrskkkee 73
                             ++  +Gi+GlG +G  +a r ++ ++kvi++d  + k +
  PHY93_20755|PHY93_20755 12 KKAVIGIVGLGYVGLPLALRYSEENFKVIGFDIDQFKVS 50
                             67789***************************9866544 PP

>> GFO_IDH_MocA  Oxidoreductase family, NAD-binding Rossmann fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   0.0   1.7e-05     0.034       3      73 ..      16      97 ..      14     129 .. 0.79

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 1.7e-05
                             EEEETTSHHHHHHHHHHHHTTTTE...............EEEEEECSSHHHHHHHHHHTTHEEESSHHHHHTCTTESEEEE-S-GG CS
             GFO_IDH_MocA  3 vaiiGaGkigskhlrplnesqrle...............evvalldpdaeraeavaesfgveaysdleelladpeidavivatpng 73
                             ++i+G+G++g + +  + e++                  +   +++  +++a ++a++ g+ea +d++++++   +da+i ++p+ 
  PHY93_20755|PHY93_20755 16 IGIVGLGYVGLPLALRYSEENF-KvigfdidqfkvskinDGQSFIEHISNAAVTAAKKSGFEATTDFKKISD---VDAIILCVPTP 97
                             799******9999866666633.24799888887777776677777777888888***************99...*********93 PP

>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   2.7e-05     0.053       2      86 ..      16      94 ..      15     100 .. 0.80

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 2.7e-05
                             EEEE--SCCHHHHHHHHHHTT-EEEEE-S-HHHHHHHHHHHHHHHHCCTTTTSS-HHHHCCCHHCEEEES-HHHHHC-SEEEE-S CS
                  3HCDH_N  2 vaviGaGtmGagiaavfasagleVvlvdiseealekalekieksleklvekgklkeeeveaalarisfttdleeavdadlviEav 86
                             ++++G G +G  +a    +++++V  +di++ ++ k ++  +  + + +++ +++    +a  +  ++ttd++++ d+d +i +v
  PHY93_20755|PHY93_20755 16 IGIVGLGYVGLPLALRYSEENFKVIGFDIDQFKVSKINDGQS--FIEHISNAAVT----AAKKSGFEATTDFKKISDVDAIILCV 94
                             89***************************9999988877654..34444555555....44557788899999999999988666 PP

>> Semialdhyde_dh  Semialdehyde dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   5.1e-05       0.1       2      85 ..      16     105 ..      15     109 .. 0.84
   2 ?   -3.1   0.0       5.3     1e+04      75      93 ..     134     152 ..     131     152 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 5.1e-05
                              EEEETTTSHHHHHH.HHHHHCTSS...EEEEEEEESTTTTTSBHHHHSG..GGTTTECEBEEE.GGGGGCTT-SEEEE-SCHHHHH CS
           Semialdhyde_dh   2 vaivGatGyvGqel.lrlLeehpe...velvvllsssrsaGkklaeavk..aleegkdlkved.vdeeelkevdivflalpagvsk 80 
                              ++ivG  GyvG  l lr+ ee+++   +++  +  s+ ++G+ + e+ +  a++  k+  +e+ +d +++++vd ++l++p   +k
  PHY93_20755|PHY93_20755  16 IGIVG-LGYVGLPLaLRYSEENFKvigFDIDQFKVSKINDGQSFIEHISnaAVTAAKKSGFEAtTDFKKISDVDAIILCVPTPLTK 100
                              79***.9*******6666666888555688888888889****999999898889999999998899999***********98887 PP

                              HHHHH CS
           Semialdhyde_dh  81 elapk 85 
                                +p+
  PHY93_20755|PHY93_20755 101 YREPD 105
                              66665 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 5.3
                              CHHHHHHHHHHHHHTTSEE CS
           Semialdhyde_dh  75 pagvskelapklaeagvkv 93 
                              p+ + +el p++ ++g+kv
  PHY93_20755|PHY93_20755 134 PGTTEEELLPRIEKSGLKV 152
                              6777888999999999876 PP

>> NAD_Gly3P_dh_N  NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   6.3e-05      0.12       2      83 ..      16     100 ..      15     126 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 6.3e-05
                              EEEE--SHHHHHHHHHHHTTT--EEEE-S-HHHHHHHHHHSSBTTTBTT---....-TTEEEES-HHHHHTT--EEEE---HHHHH CS
           NAD_Gly3P_dh_N   2 iavlGaGswGtalAkvlaenghevrlwvreeelieeineehenvkyLpgikl....penlvattdlaealkgadiivlvvPsqalr 83 
                              i+++G G  G  lA   +e++ +v  +  ++  + +in+ +   + + + ++     +  +attd+++ ++++d i+l vP+  ++
  PHY93_20755|PHY93_20755  16 IGIVGLGYVGLPLALRYSEENFKVIGFDIDQFKVSKINDGQSFIEHISNAAVtaakKSGFEATTDFKK-ISDVDAIILCVPTPLTK 100
                              89*************************************99999999997762222456899***987.5679********97766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (156 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       486  (0.0271069); expected 358.6 (0.02)
Passed bias filter:                      429  (0.0239277); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.44
# Mc/sec: 1062.45
//
Query:       PHY93_20760|PHY93_20760  [L=361]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   2.3e-113  379.2   0.0   2.6e-113  379.0   0.0    1.0  1  DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
    1.6e-06   27.5   0.0    1.9e-06   27.3   0.0    1.2  1  Aminotran_1_2    Aminotransferase class I and II
    4.1e-05   22.7   0.0    5.9e-05   22.2   0.0    1.1  1  Aminotran_5      Aminotransferase class-V
      9e-05   21.2   0.1    0.00013   20.6   0.1    1.2  1  Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
  ------ inclusion threshold ------
      0.012   14.4   0.0       0.02   13.6   0.0    1.4  1  OKR_DC_1         Orn/Lys/Arg decarboxylase, major domain


Domain annotation for each model (and alignments):
>> DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  379.0   0.0  7.2e-117  2.6e-113       2     360 ..      13     357 ..      12     358 .. 0.97

  Alignments for each domain:
  == domain 1  score: 379.0 bits;  conditional E-value: 7.2e-117
                              HHHHHHHHHHHHHTSS-SSSSHHHHHHHHHHHHHHT-SEEEEESSHHHHHHHHHHHTTTTTT-EEEEESSS-THHHHHHHHTT-EE CS
          DegT_DnrJ_EryC1   2 ikeeeleaveevlksgwltsgpeveeFEkafaaylgvkhaiavssGtaAlhlaLralgvgpgdeVIvpsltFvatanavlelgakp 87 
                              ik+e+++++e v++ g ++ g+ev  +Ek++a+++++k++ia ++Gt+Al laLral++gpgdeVIvp++tF+ata+av+ +ga+p
  PHY93_20760|PHY93_20760  13 IKKEIMDSIESVIDRGHFILGEEVVILEKRLAEFTKSKFCIANANGTDALVLALRALEIGPGDEVIVPAFTFFATAEAVSLVGATP 98 
                              789*********************************************************************************** PP

                              EEE-B-TTTSSB-GGGCGGG--TTEEEEEEB-GGGB---HHHHHHHHHHCT-EEEEE-TT-TT-EETTEECCCSSSEEEEE-BTTS CS
          DegT_DnrJ_EryC1  88 vfvDvdpdtynidpaaieaaitertkaIlpVhlyGqvadmdalkaiaakhglkvieDaAhAlGatykgkkvGalgdaavfSFyptK 173
                              +fvD+++ tyni+p  ieaait++tkaI+pV lyG +ad++ +++ia+kh+l vieDaA+++Ga+y ++  + + ++++ SF+p+K
  PHY93_20760|PHY93_20760  99 IFVDINRSTYNIEPGLIEAAITTKTKAIIPVSLYGLSADFKTINQIASKHNLAVIEDAAQSFGAKYFDQISCGITTISTTSFFPSK 184
                              ************************************************************************************** PP

                              SS.-SSS-EEEEESTHHHHHHHHHHHBTTCECCTCSSCECCSS---B-B-BHHHHHHHHHHHCTHHHHHHHHHHHHHHHHHHHHTC CS
          DegT_DnrJ_EryC1 174 nl.ttGeGGavvtndeelaekarvlrnhGlkrkaekryvgevelGynyrlteiqAAiglaqLerldelvarRreiaelykeeLael 258
                              +l ++G+GGa++tn+e+la+k+  lr+hG++    kry++   +Gyn+r++ iqAAi+l++L+ + + ++ R+ ia++y+++L++ 
  PHY93_20760|PHY93_20760 185 PLgCYGDGGALFTNNEALAKKILELRAHGQE----KRYTHVS-IGYNSRMDTIQAAILLKKLDIFPSEIEARHLIAQRYSKALEGK 265
                              *****************************88....8999999.****************************************994 PP

                              CCCEESCGGTTSSSEEESCEEEEEHCCHHHCHHHHHHHHHHCCEE-B-SGSCHGGGSCCHHHHHHCCCHC-HHHHHHHHHEEEEEG CS
          DegT_DnrJ_EryC1 259 egtaelttpketkkhawhlyavlveeeaevkrdelvealkeegigtrvhypnplhrqpvyaerkeeasgdlpnaerlaervlsLpl 344
                                   +t p   + +++ ++++ v+     +rde++++lke+gi t +hyp+plh qpvy+e+++    +lp + ++++rv+sLp+
  PHY93_20760|PHY93_20760 266 F--KMQTIPSGYS-SVFAQFTLEVN-----NRDEFQNKLKEAGIPTAIHYPIPLHHQPVYKEKFGHI--NLPESVAASARVVSLPM 341
                              4..4456666666.8**********.....89********************************996..5**************** PP

                              GTTGSHHHHHHHHHHH CS
          DegT_DnrJ_EryC1 345 ypelteedvdrVveal 360
                              +p l+++++d ++e++
  PHY93_20760|PHY93_20760 342 HPYLDHKTQDFIIENV 357
                              **********999976 PP

>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.3   0.0   5.4e-10   1.9e-06      49     241 ..      39     204 ..      12     301 .. 0.85

  Alignments for each domain:
  == domain 1  score: 27.3 bits;  conditional E-value: 5.4e-10
                              HHHHHHHHHCTCTTCHTTGGEGEEEESHHHHHHHHHHHHHHHTTT-EEEEEESS-THHHHHHHHTTSEEEEEEBEETTTTEE-HHH CS
            Aminotran_1_2  49 leealakflgrseklklkreaavvvgsGagaliealifllklnpgdeilvpdptyasyknilrlsggevvryplyseedfhldlea 134
                              le++la+f +         +  +   +G++al  al +l  + pgde++vp+ t+    +++ l g++ + + ++   ++++    
  PHY93_20760|PHY93_20760  39 LEKRLAEFTK--------SKFCIANANGTDALVLALRALE-IGPGDEVIVPAFTFFATAEAVSLVGATPIFVDIN-RSTYNIEPGL 114
                              7888888888........665788899***9999999999.********************************88.8899****** PP

                              HHHHHTTHHCTTETEEEEEEESS-TTT--B--HHHHHHHHHHHHHTTEEEEEEETTTTCBSSSSHTHHHHGGSTTSTTEEEEEES. CS
            Aminotran_1_2 135 leealkeapegnkktkvilvesphNPtGtvatleeleklldlakkynlllfvDeaYagfvfgsldavatranveeepnllivgsl. 219
                              +e+a+++      ktk i+  s     G  a+ +++ ++   a k+nl ++ D a + ++           +++ ++ ++ ++s+ 
  PHY93_20760|PHY93_20760 115 IEAAITT------KTKAIIPVSL---YGLSADFKTINQI---ASKHNLAVIEDAAQSFGAKY-------FDQISCGITTISTTSFf 181
                              *******......9****96555...6************...*********99995555544.......67889999999999999 PP

                              .SSTTSSGGG-EEEEEE.EHHHHH CS
            Aminotran_1_2 220 .sKafGlaGeRvGyilg.naavvs 241
                               sK +G++G   G+++  n+a+++
  PHY93_20760|PHY93_20760 182 pSKPLGCYG-DGGALFTnNEALAK 204
                              999999999.67777774555544 PP

>> Aminotran_5  Aminotransferase class-V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.2   0.0   1.7e-08   5.9e-05      65     192 ..      53     172 ..      37     192 .. 0.82

  Alignments for each domain:
  == domain 1  score: 22.2 bits;  conditional E-value: 1.7e-08
                              EEESSHHHHHHHHHHHCCCC-TTTSEEEEETTSHGGGTHHHHHHHHHHTEEEEEEEBE.TTSCBEGGGHHHH--TTEEEEEEESBE CS
              Aminotran_5  65 iftsGtteainlvalslarslkpgdeivvteaehhanlvpwqelakrtgakvkvipld.eegeldldelekllnektklvaithvs 149
                              i   ++t+a+ l++++l  ++ pgde++v +    a+  +   +    ga+  ++ ++ ++ ++++  +e++++ ktk+++     
  PHY93_20760|PHY93_20760  53 IANANGTDALVLALRAL--EIGPGDEVIVPAFTFFATAEAVSLV----GATPIFVDINrSTYNIEPGLIEAAITTKTKAIIPV--- 129
                              55568999*********..5****************99444444....44444444441467999*************87654... PP

                              TTTTEB--HHHHHHHHHHTT-EEEEE-TTTTTTS---HHHHTE CS
              Aminotran_5 150 nvtGtiqpveeigklakkkgalvlvDaaqavghipidvkklgv 192
                              +  G   +++ i+++a k++  v+ Daaq++g + +d   +g+
  PHY93_20760|PHY93_20760 130 SLYGLSADFKTINQIASKHNLAVIEDAAQSFGAKYFDQISCGI 172
                              589*****************************99998777776 PP

>> Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.6   0.1   3.7e-08   0.00013      56     175 ..      38     157 ..      34     187 .. 0.83

  Alignments for each domain:
  == domain 1  score: 20.6 bits;  conditional E-value: 3.7e-08
                              HHHHHHHHHHT-SEEEEESSHHHHHHHHHHTT.S-TTEEEEEESTSSHHHHHHHHHTHHH.TTCEEEEEST.TSHHHHHHHCCTTE CS
          Cys_Met_Meta_PP  56 vleeriaaLeggeaalavssGmaAiaaailal.lkaGdeivvsddlYggtqrllkkvlkk.lgievkfvdt.sdleelekaikent 138
                               le+r+a+  +++ ++a + G+ A+ +a++al +  Gde++v    +  t + ++ v    + ++++      ++  +e+ai+ +t
  PHY93_20760|PHY93_20760  38 ILEKRLAEFTKSKFCIANANGTDALVLALRALeIGPGDEVIVPAFTFFATAEAVSLVGATpIFVDINRSTYnIEPGLIEAAITTKT 123
                              79***********************99999996778**************999998866545555544333147899********* PP

                              EEEEEESS-TTTT----HHHHHHHHHHTT-EEEEEGT CS
          Cys_Met_Meta_PP 139 klvylEtptnpllkvvDiekiaklakkagvlvvvDnt 175
                              k++    p +     +D+++i ++a k+++ v+ D++
  PHY93_20760|PHY93_20760 124 KAII---PVSLYGLSADFKTINQIASKHNLAVIEDAA 157
                              ***7...666677789*************99999875 PP

>> OKR_DC_1  Orn/Lys/Arg decarboxylase, major domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   5.6e-06      0.02      88     151 ..      56     119 ..      40     169 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 5.6e-06
                              SSHHHHHHHHHHHHH--TTEEEEEESS--HHHHHHHHHS-EEEEEE--EB-TTS-BE---GGGG CS
                 OKR_DC_1  88 vnGTsssnkvvlnavltpgdlvlvdRNcHKSiehalvlsgatPvylepernalgiiggidlkef 151
                               nGT +   ++    + pgd v+v+  +  + ++a+ l gatP+++  +r+ + i  g+ +  +
  PHY93_20760|PHY93_20760  56 ANGTDALVLALRALEIGPGDEVIVPAFTFFATAEAVSLVGATPIFVDINRSTYNIEPGLIEAAI 119
                              58888888888888999*************************************9877655444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (361 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       447  (0.0249317); expected 358.6 (0.02)
Passed bias filter:                      396  (0.0220871); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.44
# Mc/sec: 2441.52
//
Query:       PHY93_20765|PHY93_20765  [L=84]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.4e-21   76.6   1.4    1.7e-21   76.3   1.4    1.1  1  DUF4160   Domain of unknown function (DUF4160)


Domain annotation for each model (and alignments):
>> DUF4160  Domain of unknown function (DUF4160)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.3   1.4   9.3e-26   1.7e-21       1      66 []       9      71 ..       9      71 .. 0.93

  Alignments for each domain:
  == domain 1  score: 76.3 bits;  conditional E-value: 9.3e-26
                  DUF4160  1 GiriyfysnekdheppHvHvkyggdeakiwledvellegsglpkkelklieewveehqeellekWe 66
                             Gi+iy+y ++ +h+ppH+H++y + +a+i++++    +g  lp+k+lkl+++w e+h+ ell++W+
  PHY93_20765|PHY93_20765  9 GIKIYMY-WD-EHNPPHFHAEYAEFKAIISINESVATKG-FLPSKQLKLVLAWSEIHSIELLKNWN 71
                             9******.64.6*******************87777777.*************************7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (84 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       255  (0.0142228); expected 358.6 (0.02)
Passed bias filter:                      206  (0.0114898); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.25s 00:00:00.70 Elapsed: 00:00:00.45
# Mc/sec: 559.74
//
Query:       PHY93_20770|PHY93_20770  [L=92]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.7e-18   64.6   0.2    8.6e-18   64.4   0.2    1.1  1  DUF2442   Protein of unknown function (DUF2442)


Domain annotation for each model (and alignments):
>> DUF2442  Protein of unknown function (DUF2442)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.4   0.2   4.8e-22   8.6e-18       1      75 [.       4      81 ..       4      85 .. 0.93

  Alignments for each domain:
  == domain 1  score: 64.4 bits;  conditional E-value: 4.8e-22
                             EEEEEEETTTEEEEEETT--EEEE-TTTS.STTTT--TTTT.......TS-EE-TTSSSEEET........TTTEEE-HHHHHH CS
                  DUF2442  1 vveVkptddyklyvyfddGrellvdlswllprlenatfeqlkdkelF.aqvevspgggglhWp........dldlDlspegLye 75
                             v +V+p +d+k+yvyf+dG+++l+d+s l+     ++f+q+ d++ F ++ +v   +++l+W+        + +lD++pe++y 
  PHY93_20770|PHY93_20770  4 VNQVIPRNDFKVYVYFNDGKIKLFDMSHLI---GIGVFKQISDIDIFmKTCTV--LNHTLAWDvlgnqdtyN-CLDIDPETIYL 81
                             679***************************...**************955555..9**************99.*********95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (92 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       384  (0.0214178); expected 358.6 (0.02)
Passed bias filter:                      311  (0.0173462); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.24s 00:00:00.67 Elapsed: 00:00:00.43
# Mc/sec: 646.92
//
Query:       PHY93_17090|PHY93_17090  [L=82]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        0.2   10.0   0.0       0.23    9.8   0.0    1.0  1  DUF3556   Transmembrane protein of unknown function (DUF3556)


Domain annotation for each model (and alignments):
>> DUF3556  Transmembrane protein of unknown function (DUF3556)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.0   1.3e-05      0.23     442     514 ..       7      82 .]       2      82 .] 0.88

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 1.3e-05
                  DUF3556 442 aaeivlqkvl.af..RalhshgrallslllralddedeytlregelvcstlvgwnfGdghlhneqliaavqkrcef 514
                               ++i+lqk++ ++  R  + +g+   sl ++  ++ ++ +    e+ +  ++  nf     +  +li  +qk+c+f
  PHY93_17090|PHY93_17090   7 LVQIFLQKTMcCWkqRMKNXKGKXKKSLRVKSKKKSKSTNQSLKEISAHLMIKXNFICKRQKRRKLILTIQKKCSF 82 
                              678999998745644667899*********99999988888899******************************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (82 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2019  (0.112611); expected 358.6 (0.02)
Passed bias filter:                      461  (0.0257125); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.45
# Mc/sec: 553.31
//
Query:       PHY93_20775|PHY93_20775  [L=438]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.9e-49  168.2   0.7    3.1e-49  167.5   0.7    1.3  1  HipA_C       HipA-like C-terminal domain
    2.1e-23   82.8   0.0    1.4e-22   80.2   0.0    2.3  2  Couple_hipA  HipA N-terminal domain
  ------ inclusion threshold ------
       0.17   12.2   0.0       0.48   10.8   0.0    1.8  2  SMC_hinge    SMC proteins Flexible Hinge Domain


Domain annotation for each model (and alignments):
>> HipA_C  HipA-like C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  167.5   0.7   5.2e-53   3.1e-49       1     209 [.     176     413 ..     176     416 .. 0.85

  Alignments for each domain:
  == domain 1  score: 167.5 bits;  conditional E-value: 5.2e-53
                              CCSTSSSSEEEEEEC............ETT---SEEEEE........ECETTCHHH.......HHHHHHHHHHTT--B--EEEEEE CS
                   HipA_C   1 lslgGaqpKllladd............kgeapsthIlKf.s......ddlpdlven.......EylcmrlakaaGldvaevelvev 60 
                              +s gGa+ K+ +a +            ++++ s ++lK+        +      ++       Ey+++ +ak + ++++e++l++ 
  PHY93_20775|PHY93_20775 176 TSAGGARAKCIIAYNektgevrsgqvkTTSDFSYWLLKLdGvsnnkdK----ELKDpkgfgriEYAYHLMAKDCEIEMTECRLLHE 257
                              599*********988***********7669*********547653221....22225666777**********************9 PP

                              T.EEEEEEE-SSEEE..EE--EEEHHHHCT--..GGGCSCC--HHHHHHHHCCCTTHH..HHHHHHHHHHHHHHHCTBTT--GGGS CS
                   HipA_C  61 e.ekallveRFDrrk..erlhqedacqllgld..peekYekgsyeelakllrqlsataseedleelfrrmvfniligNtDdHlKNf 141
                              + + +++++RFDr++  e+lh++++c+++++d   +  Y   sye+ ++++r++ +++ +++le+ frr++fni+ +N+DdH+KN+
  PHY93_20775|PHY93_20775 258 NeRAHFMTKRFDRTDggEKLHMQSLCAMAHYDfnMAGAY---SYEQALQVIREVVTKNIKQALEQQFRRAIFNIVGRNQDDHTKNI 340
                              98778*********7899**************4323344...************87767*************************** PP

                              EEEE.CCCEEEE--B-S--BSGCCTTT....ECCEECCSSSEEEE...HHHHHHHCT--HHHHHHHHHHHHHHHH CS
                   HipA_C 142 sllr.gggrwrLaPaYDlvstaayedee...lalsiggekgrear...faelaeelglkekaaeeiieevveaav 209
                              ++l+ ++g+w+L+PaYDl+++   ++++   +++s++g k+++++   f e+ae++ lk+++a++ii++++e + 
  PHY93_20775|PHY93_20775 341 AFLMnKKGEWSLSPAYDLTYSFNPKGQWtskHQMSLNG-KRDDFTmsdFFEFAEKADLKKSQAKKIIDQIIE-VL 413
                              *99966689************6664444899*****76.666676899999******************965.44 PP

>> Couple_hipA  HipA N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   80.2   0.0   2.3e-26   1.4e-22       2      98 ..       9     119 ..       8     120 .. 0.88
   2 ?   -1.1   0.0       0.5     3e+03      59      95 ..     144     181 ..     131     181 .. 0.83

  Alignments for each domain:
  == domain 1  score: 80.2 bits;  conditional E-value: 2.3e-26
                              EEEETTEEEEEEEEETTT.EEEEEE-HHHHHTCS--SC.TTC-TTSTEB........-CHHHHHHHHTTSBSSHHHHHH....HHH CS
              Couple_hipA   2 dVflngervGalardeeg.varFeydpafleakgpelS.lslplsaepy........tskglpgffanlLPegelrell....arr 73 
                              +V+l+g+ vG +++deeg +++Fey+++fl+   +e S l++p +++ +        ++kglpg+++++LP++++++l+    a +
  PHY93_20775|PHY93_20775   9 RVYLWGTLVGFMTWDEEGeFSSFEYEQDFLN-APVEPSlLKMPKRKGVFsfrelskeSYKGLPGMLSDSLPDKFGNALIdvwlAGK 93 
                              79*************9988************.999***9******99777788888899***************777554444666 PP

                              HTSS.TTSHHHHHHHHTTCESTTEEE CS
              Couple_hipA  74 rgis.skdelelLaaiGadlmGalef 98 
                              ++ s s++++e+L++iG+++mGalef
  PHY93_20775|PHY93_20775  94 ARKSgSFNPVERLCYIGERGMGALEF 119
                              65556********************8 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.5
                              TTSBSSH.HHHHHHHHHTSSTTSHHHHHHHHTTCESTT CS
              Couple_hipA  59 nlLPege.lrellarrrgisskdelelLaaiGadlmGa 95 
                              ++L ++e + e+l+++ g + +++l  L ++G++  Ga
  PHY93_20775|PHY93_20775 144 EILTDREkFEEHLKHEDGKKLNEALTNLLVVGTSAGGA 181
                              66778877899999999999999999999999988776 PP

>> SMC_hinge  SMC proteins Flexible Hinge Domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       1.3   7.8e+03      25      74 ..     178     227 ..     174     241 .. 0.64
   2 ?   10.8   0.0     8e-05      0.48      14      66 ..     309     360 ..     299     409 .. 0.86

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 1.3
                SMC_hinge  25 algnrlqalvvedeetakkiieflkkknagratflpldrikqknkadgan 74 
                              a g+r+++++  +e+t +    ++k++      +l ld ++ +++++ ++
  PHY93_20775|PHY93_20775 178 AGGARAKCIIAYNEKTGEVRSGQVKTTSDFSYWLLKLDGVSNNKDKELKD 227
                              66777888888888877766666666655555556666555555555555 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 8e-05
                SMC_hinge  14 vdegyekAveaalgnrlqalvvedeetakkiieflkkknagratflpldrikq 66 
                              v++  ++A+e+ +  +++++v +++++ +k i fl  k +g  ++ p+ +++ 
  PHY93_20775|PHY93_20775 309 VTKNIKQALEQQFRRAIFNIVGRNQDDHTKNIAFLMNK-KGEWSLSPAYDLTY 360
                              6688899****************************999.89999999876554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (438 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       790  (0.0440627); expected 358.6 (0.02)
Passed bias filter:                      529  (0.0295053); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.62u 0.24s 00:00:00.86 Elapsed: 00:00:00.45
# Mc/sec: 2893.47
//
Query:       PHY93_20780|PHY93_20780  [L=117]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.7e-10   40.8   0.3    3.2e-10   39.9   0.3    1.5  1  HTH_3           Helix-turn-helix
    9.3e-06   25.9   0.0    1.4e-05   25.3   0.0    1.3  1  HTH_31          Helix-turn-helix domain
    0.00012   22.5   0.0     0.0002   21.7   0.0    1.4  1  HTH_26          Cro/C1-type HTH DNA-binding domain
     0.0085   16.0   0.3      0.012   15.5   0.3    1.3  1  HTH_37          Helix-turn-helix domain
  ------ inclusion threshold ------
      0.064   13.1   0.0       0.12   12.3   0.0    1.4  1  YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitox
      0.067   13.3   0.0      0.086   12.9   0.0    1.2  1  MqsA_antitoxin  Antitoxin component of bacterial toxin-antito


Domain annotation for each model (and alignments):
>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.9   0.3   1.1e-13   3.2e-10       1      49 [.      20      68 ..      20      72 .. 0.95

  Alignments for each domain:
  == domain 1  score: 39.9 bits;  conditional E-value: 1.1e-13
                             HHHHHHHTTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHT CS
                    HTH_3  1 lkelRkqlglsqeeLAeklGvsrstisriEnGernPsletlkklakaLg 49
                             +k +R q+ +sq eL++++Gvs ++i+r E G+ n+ le+l+ ++kaL 
  PHY93_20780|PHY93_20780 20 IKGRRIQQEISQVELSKLSGVSHASIARFETGKGNIALENLLSILKALE 68
                             566899*****************************************95 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.3   0.0   4.9e-09   1.4e-05       6      59 ..      20      72 ..      15      74 .. 0.89

  Alignments for each domain:
  == domain 1  score: 25.3 bits;  conditional E-value: 4.9e-09
                   HTH_31  6 LralReraGLsqeevAerlgvsestlsrlEqGrrgrpspavlealaralgldpa 59
                              + +R ++ +sq e+ +++gvs + + r E+G+  +  ++ l +++ al   ++
  PHY93_20780|PHY93_20780 20 IKGRRIQQEISQVELSKLSGVSHASIARFETGKG-NIALENLLSILKALEMADE 72
                             56789999**************************.699***********98765 PP

>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.7   0.0   6.9e-08    0.0002       7      52 ..      25      69 ..      20      70 .. 0.94

  Alignments for each domain:
  == domain 1  score: 21.7 bits;  conditional E-value: 6.9e-08
                   HTH_26  7 adrgitkseLargtgisaatlsrlvkgkpervsldtLdkiCdaLgc 52
                             ++ +i++ eL++ +g+s a+++r+ +gk  ++ l+ L  i +aL++
  PHY93_20780|PHY93_20780 25 IQQEISQVELSKLSGVSHASIARFETGK-GNIALENLLSILKALEM 69
                             5789***********************9.6**************86 PP

>> HTH_37  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.3   4.1e-06     0.012      23      77 ..      20      73 ..       6      76 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 4.1e-06
                             HHHHHHHCT--HHHHHHHHT--HHHHHHHHTT--TT--HHHHHHHHHHTTEEEEE CS
                   HTH_37 23 iaeliekrelsqseaaqllgiaqPkvsrllrgklsrfsldkLlnlltalGqkvei 77
                             i+  + ++e+sq e+ +l g++++++ r + gk  ++ l+ Ll++l+al +  e+
  PHY93_20780|PHY93_20780 20 IKGRRIQQEISQVELSKLSGVSHASIARFETGK-GNIALENLLSILKALEMADEL 73
                             666677899*********************988.58************9886555 PP

>> YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   3.9e-05      0.12       5      47 ..      25      67 ..      22      73 .. 0.93

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 3.9e-05
           YdaS_antitoxin  5 ieivGgqkaLAealgvsqqaVsqWlkgkkqvpaervpeIekat 47
                             i++  +q++L ++ gvs + + ++  gk+++  e  ++I ka 
  PHY93_20780|PHY93_20780 25 IQQEISQVELSKLSGVSHASIARFETGKGNIALENLLSILKAL 67
                             88999**********************************9985 PP

>> MqsA_antitoxin  Antitoxin component of bacterial toxin-antitoxin system, MqsA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   2.9e-05     0.086      71     123 ..      17      70 ..       1      77 [. 0.74

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 2.9e-05
           MqsA_antitoxin  71 pafiarvrkkleldqreaaeifGgGvnafsryekGkvrppl.alvkllklldrh 123
                              ++ i+  r + e++q e++++ G+   + +r+e+Gk +  l  l+ +lk l+  
  PHY93_20780|PHY93_20780  17 GSSIKGRRIQQEISQVELSKLSGVSHASIARFETGKGNIALeNLLSILKALEMA 70 
                              5667777888899**********************9875542466666666554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (117 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       674  (0.0375927); expected 358.6 (0.02)
Passed bias filter:                      353  (0.0196888); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.44
# Mc/sec: 806.24
//
Query:       PHY93_20785|PHY93_20785  [L=128]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.5e-05   22.2   0.0    0.00012   21.9   0.0    1.2  1  Methyltransf_31  Methyltransferase domain
    0.00022   20.8   0.0    0.00026   20.6   0.0    1.1  1  DOT1             Histone methylation protein DOT1
    0.00022   20.7   0.0    0.00026   20.5   0.0    1.1  1  PrmA             Ribosomal protein L11 methyltransferase (Prm
     0.0031   16.8   0.0     0.0036   16.6   0.0    1.1  1  CMAS             Mycolic acid cyclopropane synthetase
     0.0043   17.7   0.0     0.0062   17.2   0.0    1.2  1  Methyltransf_25  Methyltransferase domain
     0.0066   16.2   0.0     0.0079   15.9   0.0    1.2  1  N6_N4_Mtase      DNA methylase
  ------ inclusion threshold ------
      0.011   15.6   0.0      0.013   15.3   0.0    1.1  1  Methyltransf_23  Methyltransferase domain
      0.012   16.3   0.0      0.017   15.8   0.0    1.2  1  Methyltransf_11  Methyltransferase domain
      0.012   16.3   0.0      0.017   15.8   0.0    1.3  1  Methyltransf_12  Methyltransferase domain
      0.013   14.9   0.0      0.014   14.8   0.0    1.1  1  TehB             Tellurite resistance protein TehB
      0.019   14.5   0.0      0.023   14.2   0.0    1.1  1  Methyltransf_4   Putative methyltransferase
      0.049   13.6   0.0       0.06   13.3   0.0    1.1  1  Methyltransf_32  Methyltransferase domain
      0.095   11.8   0.0       0.13   11.4   0.0    1.1  1  DREV             DREV methyltransferase
       0.16   11.6   0.0       0.26   11.0   0.0    1.3  1  UPF0020          Putative RNA methylase family UPF0020


Domain annotation for each model (and alignments):
>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.9   0.0   9.3e-08   0.00012       5      58 ..      56     109 ..      52     125 .. 0.80

  Alignments for each domain:
  == domain 1  score: 21.9 bits;  conditional E-value: 9.3e-08
          Methyltransf_31   5 lrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielArenaqklgld...nveF 58 
                                ++DlG+G G++++++a ++  +++ +G + ++  ++++r++ +kl+l+    +eF
  PHY93_20785|PHY93_20785  56 DLLIDLGSGDGRIVIAAA-QM--GIKSIGYELDPILVKKSRQKIKKLNLSslaKIEF 109
                              5689**************.65..689*********************9985444444 PP

>> DOT1  Histone methylation protein DOT1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.6   0.0     2e-07   0.00026      31      84 ..      43      94 ..      30     123 .. 0.76

  Alignments for each domain:
  == domain 1  score: 20.6 bits;  conditional E-value: 2e-07
                             HHHHHHHTT--TT-EEEEES-TTSHHHHHHHHHH--SEEEEEE--HHHHHHHHH CS
                     DOT1 31 lsevldkvnlkkedvFvDLGSGvGnvvlqaalevgcklsvGvEimdnaselaek 84
                             + e+++  + kk d+ +DLGSG G++v+ aa+++g+k s+G E+     + +++
  PHY93_20785|PHY93_20785 43 VVEIIKLAKPKKTDLLIDLGSGDGRIVI-AAAQMGIK-SIGYELDPILVKKSRQ 94
                             567788888899*************997.67799**9.*****97666555444 PP

>> PrmA  Ribosomal protein L11 methyltransferase (PrmA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.5   0.0     2e-07   0.00026     160     215 ..      53     107 ..      38     125 .. 0.75

  Alignments for each domain:
  == domain 1  score: 20.5 bits;  conditional E-value: 2e-07
                     PrmA 160 kegeevlDvGtGSGiLaiaaakLgakkvvavDiDevAvkvakeNaelNkveaklev 215
                              k+++ ++D+G G G + iaaa++g k+ +++ +D++ vk +++ +++ ++++  ++
  PHY93_20785|PHY93_20785  53 KKTDLLIDLGSGDGRIVIAAAQMGIKS-IGYELDPILVKKSRQKIKKLNLSSLAKI 107
                              4556789*****************987.5**************9987777665544 PP

>> CMAS  Mycolic acid cyclopropane synthetase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   2.8e-06    0.0036      60     134 ..      52     125 ..      39     128 .] 0.84

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 2.8e-06
                              --TT-EEEEES-TTSHHHHHHHHHH--EEEEEES-HHHHHHHHHHHHTS-SSS-EEEEES-GGG-----SEEEEE CS
                     CMAS  60 lkpGmtlLdiGcGWGslvrraverydvkvvglTlSkeqaklakkrvdeldlerkvevklldyedldekvdrvvsv 134
                               k+ + l+d+G G G +v+ a++  ++k +g  l     k++++++++l+l+  ++++++++   d +  ++v +
  PHY93_20785|PHY93_20785  52 PKKTDLLIDLGSGDGRIVIAAAQM-GIKSIGYELDPILVKKSRQKIKKLNLSSLAKIEFKNFWKADFEKANIVCI 125
                              4677889***********999888.*********************************99997766666666665 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.0   4.8e-06    0.0062       2      51 ..      59     110 ..      58     126 .. 0.82

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 4.8e-06
                              EEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTT....TEEEE CS
          Methyltransf_25   2 LdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeegl....nvefv 51 
                              +dlG G Gr+++a+a+ +   k +g ++++ ++++ r+++++ +l    ++ef 
  PHY93_20785|PHY93_20785  59 IDLGSGDGRIVIAAAQMG--IKSIGYELDPILVKKSRQKIKKLNLsslaKIEFK 110
                              69*************995..********************99766665666664 PP

>> N6_N4_Mtase  DNA methylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.0   6.2e-06    0.0079     184     226 ..      46      89 ..      39     114 .. 0.89

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 6.2e-06
                              HHHHHS-T.T-EEEETT-TTTHHHHHHHHTT-EEEEEESSHHHH CS
              N6_N4_Mtase 184 lIklstkk.gdivlDpFaGSGtTavaakelgrkfiGieieeeyv 226
                              +Ikl  +k  d+ +D   G G +++aa+++g k+iG+e ++  v
  PHY93_20785|PHY93_20785  46 IIKLAKPKkTDLLIDLGSGDGRIVIAAAQMGIKSIGYELDPILV 89 
                              7777766559****************************998655 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.3   0.0     1e-05     0.013      19      71 ..      51     112 ..      34     127 .. 0.75

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 1e-05
          Methyltransf_23  19 klraggrvLdiGcGtGillevlrengfsvtgvDlspeaveiae.........kakkaqkdqf 71 
                              k ++   ++d+G G+G+    +++ g + +g++l+p++v++ +         +  k ++++f
  PHY93_20785|PHY93_20785  51 KPKKTDLLIDLGSGDGRIVIAAAQMGIKSIGYELDPILVKKSRqkikklnlsSLAKIEFKNF 112
                              356666789*******************************9988777776664444444444 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.8   0.0   1.3e-05     0.017       2      44 ..      60     106 ..      59     124 .. 0.83

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 1.3e-05
                              EET-TTSHHHHHHHHTTSEEEEEES-HHHHHHHHHHCCHHT-....E CS
          Methyltransf_11   2 dvGcGtGrlaealakrgarvvgvDlskemlklakekaseegl....k 44 
                              d+G+G Gr++ a a+ g + +g +l++ ++k +++k+++ +l    k
  PHY93_20785|PHY93_20785  60 DLGSGDGRIVIAAAQMGIKSIGYELDPILVKKSRQKIKKLNLsslaK 106
                              9************************************9998765553 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.8   0.0   1.4e-05     0.017       2      55 ..      60     111 ..      59     126 .. 0.92

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 1.4e-05
          Methyltransf_12   2 eiGcGtGsllralleklpdieytgvDispsaiedakeklakrennnnnnvelea 55 
                              ++G+G+G+++ a ++   +i+ +g++++p  +++ ++k++k +  + +++e+++
  PHY93_20785|PHY93_20785  60 DLGSGDGRIVIAAAQM--GIKSIGYELDPILVKKSRQKIKKLNLSSLAKIEFKN 111
                              9***************..*************************99999999987 PP

>> TehB  Tellurite resistance protein TehB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   0.0   1.1e-05     0.014      15      80 ..      36     104 ..      22     127 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 1.1e-05
                              -----HHHHHHCCCS-S-EE...EEES-TTSHHHHHHHHTT-EEEEEES-HHHHHHHHHHHHHTT-TTE CS
                     TehB  15 ltathsevveavkivkpgkv...ldlgcgqgrnslylsllgydvtawdknensiafleeikekenlkni 80 
                                +t  evve +k+ kp k+   +dlg g+gr  +  + +g +   ++ +   ++  ++ ++k nl+++
  PHY93_20785|PHY93_20785  36 YPSTDKEVVEIIKLAKPKKTdllIDLGSGDGRIVIAAAQMGIKSIGYELDPILVKKSRQKIKKLNLSSL 104
                              557889*************76658********9998888887777777777777776666666666654 PP

>> Methyltransf_4  Putative methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   1.8e-05     0.023       4      56 ..      57     107 ..      54     126 .. 0.83

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 1.8e-05
                              EEEEET-TTSHHHHHHHHHSTTSEEEEEES-HHHHHHHHHHHHHCTTSSEEEE CS
           Methyltransf_4   4 vvleiGcGkGeflvalAkknPdknflGiEirvkvvakvlkkiealelkNlril 56 
                              +++++G+G G++++a A++   ++ +G E+   +v+k  +ki++l+l+ l+ +
  PHY93_20785|PHY93_20785  57 LLIDLGSGDGRIVIAAAQM--GIKSIGYELDPILVKKSRQKIKKLNLSSLAKI 107
                              789**********988887..6899********************88777655 PP

>> Methyltransf_32  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   4.7e-05      0.06      18      85 ..      48     110 ..      40     123 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 4.7e-05
          Methyltransf_32  18 kelakesgaltvvDvGaGkgYLsfvlalkekeyklkvvgidakeelvekaekraeklgkkfnkrlsfa 85 
                              k  ak ++   ++D+G+G g    + a+    +++k +g ++   lv+k+++  +kl+    ++++f+
  PHY93_20785|PHY93_20785  48 KL-AKPKKTDLLIDLGSGDGRIVIAAAQ----MGIKSIGYELDPILVKKSRQKIKKLNLSSLAKIEFK 110
                              33.46678899*********87666555....8************************95554555555 PP

>> DREV  DREV methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   9.9e-05      0.13      88     147 ..      48     111 ..      38     126 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 9.9e-05
                     DREV  88 spasdqedkklldlGaGdGeitkrvaptfeevyate....lsetmrdrlkkkkynvlsalelqe 147
                              + a  +++  l+dlG+GdG i    a++  +    e    l ++ r+++kk++   l+++e+++
  PHY93_20785|PHY93_20785  48 KLAKPKKTDLLIDLGSGDGRIVIAAAQMGIKSIGYEldpiLVKKSRQKIKKLNLSSLAKIEFKN 111
                              5566678999***********9888877555444441122678999999*****99*9999875 PP

>> UPF0020  Putative RNA methylase family UPF0020
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0    0.0002      0.26      20      71 ..      46      98 ..      44     124 .. 0.70

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.0002
                             HHHHTT--TTS-EEETT-TTSHHHHHHHHHHTT--TTTT----SS.HHHHHHH CS
                  UPF0020 20 lvrlagwkpgepllDPmCGsGtilIEaallganiapgllrefvle.lkaeaee 71
                             +++la+ k+++ l+D  +G G i I aa++g + +   l +  ++  ++++++
  PHY93_20785|PHY93_20785 46 IIKLAKPKKTDLLIDLGSGDGRIVIAAAQMGIKSIGYELDPILVKkSRQKIKK 98
                             6799*****************************99544444444343333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (128 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1261  (0.070333); expected 358.6 (0.02)
Passed bias filter:                      769  (0.0428914); expected 358.6 (0.02)
Passed Vit filter:                        86  (0.0047967); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.49u 0.26s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 879.04
//
Query:       PHY93_20790|PHY93_20790  [L=237]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-60  204.6   0.0    1.3e-60  204.5   0.0    1.0  1  Thy1      Thymidylate synthase complementing protein


Domain annotation for each model (and alignments):
>> Thy1  Thymidylate synthase complementing protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  204.5   0.0   7.2e-65   1.3e-60       1     187 [.      10     203 ..      10     204 .. 0.93

  Alignments for each domain:
  == domain 1  score: 204.5 bits;  conditional E-value: 7.2e-65
                              EEEEEE.CHHHHHHHHHHHHHTTCSSHHHH...S.GCCHHHHHHHHHHTTGGGGGGG-EEEEEEEEEEHHHHHHHTT-TTSEEEE- CS
                     Thy1   1 kLldyt.dpeklvaaaarvcygsseeaeele..e.eekkeklikkllkhghgsplehasftfeiegvSravlrqlvrHRiasfsqq 82 
                              +Ll++t dpe +v+aa r+cy+s  +a+el+     e k++li++++++gh s+lehasftf+++gvSr+   +l+rHRiasfs q
  PHY93_20790|PHY93_20790  10 ELLSHTaDPEGIVVAAIRQCYSS-IGAKELKkkTgGEVKKRLIRQVIDSGHMSTLEHASFTFALDGVSRVTEIHLIRHRIASFSIQ 94 
                              699******************65.67777775323366679********************************************* PP

                              -TTTSGCCCTCBS--GGGC...C..HHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHGGGSBTTBEEEEEEEEEHHHHHHHHHHHSS CS
                     Thy1  83 SqRYvesskeafvippeie...q.keeleelyeeamekaleaykelleagvarEdaryvLPlatktklvvtmNlrsLlhflelrac 164
                              S RYv+  ++a+ ipp+ie   q +++l ++y +++++a+e y++l + g+  Edar++ P+++++k+vvtmN+r+Llhf++lr+c
  PHY93_20790|PHY93_20790  95 SGRYVKRGDAAYRIPPKIEalkQsNKKLYNDYLKHLDNAQELYNDLTDVGILAEDARFCQPQSVQVKIVVTMNARELLHFFSLRTC 180
                              *******9977********87654488889******************************************************** PP

                              TTS-HHHHHHHHHHHHHHHHHSH CS
                     Thy1 165 srAqwEirelaeemleelkkvaP 187
                               rAqwEi+e+a++ml ++kk+aP
  PHY93_20790|PHY93_20790 181 ARAQWEIQEIAKKMLALVKKKAP 203
                              **********************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (237 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       720  (0.0401584); expected 358.6 (0.02)
Passed bias filter:                      571  (0.0318478); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.25s 00:00:00.80 Elapsed: 00:00:00.46
# Mc/sec: 1555.45
//
Query:       PHY93_20795|PHY93_20795  [L=200]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.5e-42  143.8   0.2    5.1e-42  143.6   0.2    1.0  1  Thymidylate_kin  Thymidylate kinase
    1.9e-05   24.6   0.2    0.00027   20.9   0.2    2.0  1  dNK              Deoxynucleoside kinase
      2e-05   25.1   0.4    3.3e-05   24.3   0.4    1.4  1  AAA_17           AAA domain
    0.00025   21.3   0.0    0.00034   20.9   0.0    1.2  1  AAA_28           AAA domain
      0.001   18.6   0.1     0.0029   17.2   0.0    1.7  2  PPK2             Polyphosphate kinase 2 (PPK2)
     0.0018   17.9   0.0     0.0029   17.3   0.0    1.3  1  SRP54            SRP54-type protein, GTPase domain
  ------ inclusion threshold ------
      0.015   15.9   0.4      0.039   14.5   0.4    1.7  1  AAA_18           AAA domain
      0.017   14.4   0.7       0.24   10.6   0.1    2.1  2  Ploopntkinase2   P-loop Nucleotide Kinase2
      0.045   13.2   0.1      0.065   12.7   0.1    1.6  1  KTI12            Chromatin associated protein KTI12
      0.054   13.6   1.1       0.66   10.1   1.1    2.2  1  ADK              Adenylate kinase
      0.061   13.4   0.0      0.096   12.8   0.0    1.3  1  CNOT1_HEAT       CCR4-NOT transcription complex subunit 1 HEA
       0.13   12.4   0.0       0.23   11.6   0.0    1.5  1  AAA_33           AAA domain
       0.15   11.8   0.0       0.24   11.1   0.0    1.3  1  AAA_30           AAA domain


Domain annotation for each model (and alignments):
>> Thymidylate_kin  Thymidylate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  143.6   0.2   3.7e-45   5.1e-42       1     185 []      10     192 ..      10     192 .. 0.97

  Alignments for each domain:
  == domain 1  score: 143.6 bits;  conditional E-value: 3.7e-45
                              EEESTTSSHHHHHHHHHHHHHHTTE.EEEESSS.TTSHHHHHHHHHHHTCS---HHHHHHHHHHHHHHTTHHHHHHHHHTT-EEEE CS
          Thymidylate_kin   1 iEGlDGaGKttqaellkerlkeegikvvltrep.ggteiGekirelllkeeeleeqteallfaadriehleekikpalkqgktviv 85 
                              +EGlDG+GK tq+++lke+l+++ i+v++t e  ++ ++G++i ++l+k+e++ ++++ l f+ dr +h  ++i  al++gk vi+
  PHY93_20795|PHY93_20795  10 FEGLDGSGKGTQIKKLKEYLEKKNIEVLTTCEHtRDLPVGKVIEAVLNKKEKMGNLALQLAFVSDRRDHYDKVIGLALEEGKFVIS 95 
                              8*************************99999973689************************************************* PP

                              ES-HHHHHHHHHTTTTTTCHHHHHHGGGTTSE-SEEEEEESSHHHHHTSCCTTSSTTTSHHHHHHHHHHHHHHHHHHHH.TTSTEE CS
          Thymidylate_kin  86 dRylfSslaYqgakegvdldlvlslnedvllkPdltflldvdpevalkRlakrdeldeeeeeqldflrkvrerylelak.ederil 170
                              dRy+ S++aY++  +    +++l+lne+v++  dlt++ldv+pe a++R+  ++e d++++e++++lr+ r  yl   +   +++ 
  PHY93_20795|PHY93_20795  96 DRYYGSTVAYTEDDK---KQMMLELNEEVVPVADLTIFLDVSPESAIERIDNGRE-DKTIFEKKKKLRQCRNSYLWFCDhVGGEVA 177
                              ************988...5***********999**********************.****************************** PP

                              EEETTS-HHHHHHHH CS
          Thymidylate_kin 171 iidasksieevheeI 185
                              +i+ ++++e +h++I
  PHY93_20795|PHY93_20795 178 MINGNREVETIHQDI 192
                              *************98 PP

>> dNK  Deoxynucleoside kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.9   0.2     2e-07   0.00027       1     167 [.       8     169 ..       8     198 .. 0.71

  Alignments for each domain:
  == domain 1  score: 20.9 bits;  conditional E-value: 2e-07
                              EEEEESTTSSHHHHHHHHHCCSTCEEEE-HHHHCCSSSS.....HHHHHHHHSHHH.HHHHHHHHHHHHHHHHHHCHH....SSS- CS
                      dNK   1 ivveGnIgaGKstlvklLskklgvkvfeEpvdkwtnvqk.....nlLekfYkdpsr.wsfalqtyvllsrlkqqleal....atkq 76 
                              iv eG  g+GK t +k L++ l+ k + E+  +  ++ +     +++e + +++++   +alq  ++  r + + +++    ++++
  PHY93_20795|PHY93_20795   8 IVFEGLDGSGKGTQIKKLKEYLEKKNI-EVLTTC-EHTRdlpvgKVIEAVLNKKEKmGNLALQLAFVSDRRDHYDKVIglalEEGK 91 
                              789*******************85544.333333.333336677*******9999945699*************999999888888 PP

                              EEEEES-HHHHHHTHHHHHHHTTSS-HHHHHHHHHHHHHHHHHCCH-SEEEEEE--HHHHHHHHHHCTTCCCTTS-HHHHHHHHHH CS
                      dNK  77 vvvleRsiysdryiFakalaekgtlseeelkiykelldnlleelakpdlliYLkasletclerikkRgreeekkieldYlekLhek 162
                               v+ +R   s +           + ++ + +++ el + ++   +  dl i+L++s+e+  eri +  + +    +++ l++  ++
  PHY93_20795|PHY93_20795  92 FVISDRYYGSTV----------AYTEDDKKQMMLELNEEVV---PVADLTIFLDVSPESAIERIDNGREDKTIFEKKKKLRQCRNS 164
                              899998655544..........3555667777888888888...5569****************8743333334444555555555 PP

                              HHHHH CS
                      dNK 163 yeewl 167
                              y  + 
  PHY93_20795|PHY93_20795 165 YLWFC 169
                              55444 PP

>> AAA_17  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.3   0.4   2.4e-08   3.3e-05       2     129 ..      12     148 ..      11     156 .. 0.70

  Alignments for each domain:
  == domain 1  score: 24.3 bits;  conditional E-value: 2.4e-08
                              E-TTSSHHHHHHHHHHHH...TEEEEEHHHHHHHHHHTT..TS.HSSHHHHC..TSHHHHHHHHHHHHHHHHHHHHHSSEEEEEE- CS
                   AAA_17   2 GgPGsGKgtqceklveky...gfthlsaGdllreeakrg..gl.akardemr..klpleekkelqkeaaekiaeeakkkgvlvdgh 79 
                              G+ GsGKgtq++kl+e +   ++++l++ +  r+    +  ++  +++++m    l+l    + ++   + i  + +++++++   
  PHY93_20795|PHY93_20795  12 GLDGSGKGTQIKKLKEYLekkNIEVLTTCEHTRDLPVGKviEAvLNKKEKMGnlALQLAFVSDRRDHYDKVIGLALEEGKFVISDR 97 
                              899***********9655555************98877755443567788883434555577778888888888778899877776 PP

                              SEEEET...TEEEESSHHHHHHHH....SEEEEEE--HHHHHHHHHHHTTST-TS CS
                   AAA_17  80 prikeq...agfldglpkevleelkp..daiilleadpeeilerrlkdrtrgrdd 129
                              +   +    ++  +++  e  ee+ p  d+ i+l+++pe  +er  +    gr+d
  PHY93_20795|PHY93_20795  98 YYGSTVaytEDDKKQMMLELNEEVVPvaDLTIFLDVSPESAIERIDN----GRED 148
                              644443111233344444445666665699**********9999865....4444 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.9   0.0   2.5e-07   0.00034       2     128 ..       8     147 ..       7     173 .. 0.77

  Alignments for each domain:
  == domain 1  score: 20.9 bits;  conditional E-value: 2.5e-07
                   AAA_28   2 ivitGgestGKTtlleaLaar....gypvv..pEaareileeklakge.dalpwvedllafaervleeqleeeaaa.....aankv 75 
                              iv+ G  ++GK t +++L++     +++v+   E  r++   k  +   ++ ++    la++ +++  ++  + +      +++k+
  PHY93_20795|PHY93_20795   8 IVFEGLDGSGKGTQIKKLKEYlekkNIEVLttCEHTRDLPVGKVIEAVlNKKEK-MGNLALQLAFVSDRRDHYDKViglalEEGKF 92 
                              8999***************76666788877669*99999999984443032333.477888888888887776444556589**** PP

                   AAA_28  76 lfcDrglldtlaYarayggeaeaeleaaarekrydlvfllppapei...dddgeRr 128
                              +++Dr +  t+aY + + ++ + el++++     dl ++l+++pe    + d+ R+
  PHY93_20795|PHY93_20795  93 VISDRYYGSTVAYTEDDKKQMMLELNEEVVP-VADLTIFLDVSPESaieRIDNGRE 147
                              ********************99999998755.789999999988443476666664 PP

>> PPK2  Polyphosphate kinase 2 (PPK2)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.0   2.1e-06    0.0029      33      64 ..       7      38 ..       1      45 [. 0.86
   2 ?   -1.7   0.0       1.2   1.6e+03     139     159 ..     128     148 ..     107     159 .. 0.77

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 2.1e-06
                             EEEEEESTTS-HHHHHHHHHTTS-GGG-EEEE CS
                     PPK2 33 vvifegrDaAGKgGaikrvtealnprvarvva 64
                              ++feg D+ GKg  ik++ e+l++++++v +
  PHY93_20795|PHY93_20795  7 FIVFEGLDGSGKGTQIKKLKEYLEKKNIEVLT 38
                             689**********************9998865 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 1.2
                              EEEEE--HHHHHHHHHHHHHS CS
                     PPK2 139 KfwlsiskeeqleRfkeRred 159
                                +l++s+e   eR+ + red
  PHY93_20795|PHY93_20795 128 TIFLDVSPESAIERIDNGRED 148
                              568999999999998776554 PP

>> SRP54  SRP54-type protein, GTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   0.0   2.1e-06    0.0029       3      36 ..       7      40 ..       5      45 .. 0.89

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 2.1e-06
                             EEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEE CS
                    SRP54  3 villvGlqGaGKTttlaKLaallkkegkkvllva 36
                              i++ Gl G+GK t + KL ++l+k++ +vl  +
  PHY93_20795|PHY93_20795  7 FIVFEGLDGSGKGTQIKKLKEYLEKKNIEVLTTC 40
                             68999**********************9998766 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.4   2.8e-05     0.039       1     120 [.       8     151 ..       8     162 .. 0.67

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 2.8e-05
                   AAA_18   1 IlltGtpGvGKttlakeLskrlgf...gvnlrdvakenglllevdpe.aldeskrldedkldklldaleenss.........alee 73 
                              I+  G  G+GK t  k L++ l+     v  ++ ++ + ++  v ++   +++k  +   + + ++      +         alee
  PHY93_20795|PHY93_20795   8 IVFEGLDGSGKGTQIKKLKEYLEKkniEVLTTCEHTRDLPVGKVIEAvLNKKEKMGNLALQLAFVSDR----RdhydkviglALEE 89 
                              8899**************66652235577888888888888888887322222222333333333333....24555899987788 PP

                   AAA_18  74 gknlvidghlaeleseaakdikk.................vvLtaspeelleRlekRgyeeaki 120
                              gk  vi+++      ++  d kk                 ++L++spe  +eR+ + g+e++ i
  PHY93_20795|PHY93_20795  90 GKF-VISDRYYGSTVAYTEDDKKqmmlelneevvpvadltIFLDVSPESAIERIDN-GREDKTI 151
                              877.66665555555555555555889**************************987.4455554 PP

>> Ploopntkinase2  P-loop Nucleotide Kinase2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.1   0.00018      0.24       3      37 ..       6      40 ..       4      56 .. 0.78
   2 ?    2.4   0.1     0.054        75     122     171 ..      58     111 ..      48     126 .. 0.67

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00018
           Ploopntkinase2  3 klivikGtsGtGkGtrvvqfiewlrtklePeeley 37
                             k+iv  G  G+GkGt++ ++ e+l  k   ++ + 
  PHY93_20795|PHY93_20795  6 KFIVFEGLDGSGKGTQIKKLKEYLEKKNIEVLTTC 40
                             789*********************98865554444 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.054
           Ploopntkinase2 122 knykldnlal.lyfayadreqydariiG...rsGke.agdsGwarnesyskefek 171
                              k+ k+ nlal l f+ + r++yd+ i G     Gk    d  ++  + y+ + +k
  PHY93_20795|PHY93_20795  58 KKEKMGNLALqLAFVSDRRDHYDKVI-GlalEEGKFvISDRYYGSTVAYTEDDKK 111
                              66788999986788888888898755.4111345531356666666666666555 PP

>> KTI12  Chromatin associated protein KTI12
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   4.7e-05     0.065       4      35 ..       8      39 ..       6     147 .. 0.92

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 4.7e-05
                             EEEE--TTSSHHHHHHHHHHHHHHTT--EEEE CS
                    KTI12  4 vvltGlPssGKstrakeLakaleeekrsvvvi 35
                             +v+ Gl  sGK t  k+L+++le+++++v   
  PHY93_20795|PHY93_20795  8 IVFEGLDGSGKGTQIKKLKEYLEKKNIEVLTT 39
                             89***********************9999765 PP

>> ADK  Adenylate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   1.1   0.00048      0.66       3      53 ..      12      60 ..      10     172 .. 0.64

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00048
                             ESTTSSHHHHHHHHHHHHTSEEEEHHHHHHHHHHCT-HHHHHHHHHHHTTS CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                      ADK  3 GaPgaGKGtqaeklvkkyglahlstGdllRaevksgtelGkeakevmdkge 53
                             G  g+GKGtq +kl++ ++ +++    l   e +++ ++Gk +++v++k e
  PHY93_20795|PHY93_20795 12 GLDGSGKGTQIKKLKEYLEKKNIEV--LTTCEHTRDLPVGKVIEAVLNKKE 60
                             788***********99888887754..455566677777777777777654 PP

>> CNOT1_HEAT  CCR4-NOT transcription complex subunit 1 HEAT repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0     7e-05     0.096      19      87 ..       7      80 ..       1      83 [. 0.88

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 7e-05
                             GHHHHC--HHHHHHHHHS-S-........-SHHHHHHHHT...T-HHHHHHHS.-TT.CHHHCHHHHHHHT--- CS
               CNOT1_HEAT 19 alvlhklweidrqlllkalvdayakdplelsrIldvaqel...kilsellnkl.pfn.faldLaalasrreyld 87
                              +v++ l   ++   +k+l ++ +k++ e+    +++ +l   k+++++lnk+ ++  +al La++  rr+++d
  PHY93_20795|PHY93_20795  7 FIVFEGLDGSGKGTQIKKLKEYLEKKNIEVLTTCEHTRDLpvgKVIEAVLNKKeKMGnLALQLAFVSDRRDHYD 80
                             459999999999999************************95545********988878*************987 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00016      0.23       2     116 ..       8     143 ..       7     165 .. 0.58

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00016
                   AAA_33   2 vllvGlpGsGKstlaerl...lkklgavllssdt.........lrrrlfgtdqqskt..dytrvldrlyqilnelarkalsagrnv 73 
                              +++ Gl GsGK t +++l   l+k   ++l++ +         +++++ +++++  +   +  + ++ +++  +++  al++g+ v
  PHY93_20795|PHY93_20795   8 IVFEGLDGSGKGTQIKKLkeyLEKKNIEVLTTCEhtrdlpvgkVIEAVLNKKEKMGNlaLQLAFVSDRRDHYDKVIGLALEEGKFV 93 
                              799*************9966676777999999885566665655555555444433311333344445557777777777777777 PP

                   AAA_33  74 ildat......nlsrrerarflklarr.lgvpvrivvvetdeetlkeRla 116
                              i d        +++ ++ + +l+l ++   v+++ +++++++e + eR+ 
  PHY93_20795|PHY93_20795  94 ISDRYygstvaYTEDDKKQMMLELNEEvVPVADLTIFLDVSPESAIERID 143
                              77543222222222233333333333212233566777777776666664 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   0.00018      0.24      17      51 ..       4      38 ..       1      46 [. 0.86

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00018
                   AAA_30 17 gdrvavltGpAGtGKttalkalreaweaaggrvig 51
                             + ++ v +G  G+GK t +k+l+e +e+++ +v+ 
  PHY93_20795|PHY93_20795  4 KGKFIVFEGLDGSGKGTQIKKLKEYLEKKNIEVLT 38
                             4568999*********************9988875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (200 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       895  (0.0499191); expected 358.6 (0.02)
Passed bias filter:                      649  (0.0361983); expected 358.6 (0.02)
Passed Vit filter:                        88  (0.00490825); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.57u 0.28s 00:00:00.85 Elapsed: 00:00:00.46
# Mc/sec: 1305.23
//
Query:       PHY93_20800|PHY93_20800  [L=317]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.3e-45  152.7   0.0    4.6e-43  145.8   0.0    2.9  3  Pribosyltran_N  N-terminal domain of ribose phosphate pyropho
    1.1e-23   84.2   3.0    2.3e-21   76.6   0.1    3.0  3  Pribosyl_synth  Phosphoribosyl synthetase-associated domain
    5.7e-17   61.7   3.1    8.1e-16   57.9   2.1    2.4  2  Pribosyltran    Phosphoribosyl transferase domain
  ------ inclusion threshold ------
      0.042   13.3   0.0       0.11   12.0   0.0    1.7  1  UPRTase         Uracil phosphoribosyltransferase
        1.3    9.3   5.0        2.3    8.5   0.4    3.2  3  Cu              Cupiennin


Domain annotation for each model (and alignments):
>> Pribosyltran_N  N-terminal domain of ribose phosphate pyrophosphokinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  145.8   0.0   1.3e-46   4.6e-43       2     116 .]       5     120 ..       4     120 .. 0.98
   2 ?    0.2   0.0      0.19   6.9e+02      59      97 ..     140     178 ..     131     192 .. 0.79
   3 ?    2.6   0.0     0.034   1.2e+02      23      52 ..     241     270 ..     224     299 .. 0.80

  Alignments for each domain:
  == domain 1  score: 145.8 bits;  conditional E-value: 1.3e-46
           Pribosyltran_N   2 kifagssskeLaekiakrlgvelgkakvsrfadgEikveieesvrgkdvfiiqslskpvndnlmelllmidalrrasakritaViP 87 
                               +++g+s+ +La+kiak+l+ +l+ + +++f++ Ei+v+i ++vrg+dvf+iq++ ++vnd+lmell++idalrr+sa ri++V P
  PHY93_20800|PHY93_20800   5 HLISGTSHLDLAKKIAKKLDWPLTPVLIKKFPNSEIYVRIGKKVRGEDVFVIQTMGDNVNDSLMELLIIIDALRRSSAGRINVVCP 90 
                              689*********************************************************************************** PP

           Pribosyltran_N  88 ylgysrqdrk.ksrepisaklvaklLeaaG 116
                               lgysrqdrk +s episaklva+l+++aG
  PHY93_20800|PHY93_20800  91 NLGYSRQDRKtQSHEPISAKLVANLITTAG 120
                              **********899***************99 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.19
           Pribosyltran_N  59 pvndnlmelllmidalrrasakritaViPylgysrqdrk 97 
                               + d+l+   l+++ +++++ k  ++V P  g ++++ +
  PHY93_20800|PHY93_20800 140 IPLDHLVGYPLIAKYISKKKYKDLVVVAPDIGAAKKTHR 178
                              566889999999999999999********9999988776 PP

  == domain 3  score: 2.6 bits;  conditional E-value: 0.034
           Pribosyltran_N  23 elgkakvsrfadgEikveieesvrgkdvfi 52 
                              +++ a ++ f +gE+  +++es  ++ +f+
  PHY93_20800|PHY93_20800 241 KIIVAATHAFLNGEAVSRLKESAADQVIFL 270
                              5556778999************99987775 PP

>> Pribosyl_synth  Phosphoribosyl synthetase-associated domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.5   0.1     0.073   2.6e+02      85     147 ..      56     118 ..      30     134 .. 0.79
   2 !    5.4   0.0    0.0048        17       2      33 ..     160     191 ..     159     203 .. 0.91
   3 !   76.6   0.1   6.5e-25   2.3e-21      76     184 .]     204     311 ..     197     311 .. 0.94

  Alignments for each domain:
  == domain 1  score: 1.5 bits;  conditional E-value: 0.073
                              EEEEEEEEE-S-HHHHHHHHHHHHTT--EEEEEEEEE---TTHHHHHHHSS--EEEEESSS-- CS
           Pribosyl_synth  85 iaiivddliddvesfvaaaevlkerGaykiyvlathGllssdaprlleesaidevvvtntiph 147
                              i  + d++ d +  ++   + l+   a +i v++    +s ++ ++  + +i   +v+n i  
  PHY93_20800|PHY93_20800  56 IQTMGDNVNDSLMELLIIIDALRRSSAGRINVVCPNLGYSRQDRKTQSHEPISAKLVANLITT 118
                              566778888888889999999**********99999889999999999999999999998754 PP

  == domain 2  score: 5.4 bits;  conditional E-value: 0.0048
                              GGGEEEEESSGGGHHHHHHHHHHTT-EEEEE- CS
           Pribosyl_synth   2 yrnavivakspgsakkatsyaerlrlglavih 33 
                              y++ v+va + g+akk++  a+ l + +a++ 
  PHY93_20800|PHY93_20800 160 YKDLVVVAPDIGAAKKTHRMADLLGVPIAIVD 191
                              9999************************9985 PP

  == domain 3  score: 76.6 bits;  conditional E-value: 6.5e-25
                              -EES--TTSEEEEEEEEE-S-HHHHHHHHHHHHTT--EEEEEEEEE---TTHHHHHHHSS--EEEEESSS--HHHHHT-TTEEEE- CS
           Pribosyl_synth  76 tvvGdvgGriaiivddliddvesfvaaaevlkerGaykiyvlathGllssdaprlleesaidevvvtntipheiqklrcskiktvd 161
                               vvGdv+G+ a+++dd++d   s+  aa  +ke Ga ki+v ath  l  +a  +l+esa d+v+  +t+p    + + + +  + 
  PHY93_20800|PHY93_20800 204 HVVGDVKGKTALLLDDIVDGGGSIAGAAGAVKECGAKKIIVAATHAFLNGEAVSRLKESAADQVIFLDTVPIPK-HKKFKGMTIIS 288
                              69*********************************************************************865.44667788899 PP

                              -HHHHHHHHHHHHHT---TT-SS CS
           Pribosyl_synth 162 islllaeairrihngesmsylfr 184
                              i+ lla+ i+r+h + s++ lf+
  PHY93_20800|PHY93_20800 289 IAPLLAKIIKRVHTERSLGELFK 311
                              *********************96 PP

>> Pribosyltran  Phosphoribosyl transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.0     0.032   1.1e+02      43      63 ..      15      35 ..      13      59 .. 0.88
   2 !   57.9   2.1   2.2e-19   8.1e-16      18     125 ..     150     251 ..     148     298 .. 0.89

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.032
                             HHHHHHHHSTT-EE-EEEEEE CS
             Pribosyltran 43 fakiladeLevplayvrkvky 63
                             +ak++a++L+ pl+ v+++k+
  PHY93_20800|PHY93_20800 15 LAKKIAKKLDWPLTPVLIKKF 35
                             799***********9999986 PP

  == domain 2  score: 57.9 bits;  conditional E-value: 2.2e-19
                              TTEEEEEE--GGGEEEEEEETTTHHHHHHHHHHSTT-EE-EEEEEE-TTT--EE........EE----TTSEEEEE-SEESSSHHH CS
             Pribosyltran  18 laaeileeyngkpdvvvgiargGvpfakiladeLevplayvrkvkyrpdgseeaargssdesrlledpagkkVliVDDildtGgTl 103
                              l+a++++++++k  vvv+++ g+    +++ad L+vp+a+v+kv+  +++se a+          +d++gk+ l+ DDi+d Gg++
  PHY93_20800|PHY93_20800 150 LIAKYISKKKYKDLVVVAPDIGAAKKTHRMADLLGVPIAIVDKVRTGHGVSEAAH--------VVGDVKGKTALLLDDIVDGGGSI 227
                              789999999*********************************************8........99********************* PP

                              HHHHHHHHCC-BSEEEEEEEE..E CS
             Pribosyltran 104 laalelLkekgpeevriavlv..d 125
                                a+ ++ke+g++++++a+ +   
  PHY93_20800|PHY93_20800 228 AGAAGAVKECGAKKIIVAATHafL 251
                              ******************998441 PP

>> UPRTase  Uracil phosphoribosyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0     3e-05      0.11     112     171 ..     202     261 ..     185     274 .. 0.71

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 3e-05
                  UPRTase 112 ynkLPkkiaertvlllDpviaTGgsaaaaiqlLkergvgeekIlvlsvla..seegvkrlae 171
                                ++  +++ +t+lllD ++  Ggs+a a   +ke  +g +kI+v++  a    e+v+rl e
  PHY93_20800|PHY93_20800 202 AAHVVGDVKGKTALLLDDIVDGGGSIAGAAGAVKE--CGAKKIIVAATHAflNGEAVSRLKE 261
                              555666788899***********************..5567777776443114455555555 PP

>> Cu  Cupiennin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.5   0.4   0.00063       2.3       9      17 ..      15      23 ..      15      37 .. 0.76
   2 ?    0.8   0.1      0.16   5.8e+02      17      24 ..     151     158 ..     144     160 .. 0.87
   3 ?   -3.2   0.0         3   1.1e+04       3       7 ..     307     311 ..     307     312 .. 0.84

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.00063
                       Cu  9 LAKKvAKtv 17
                             LAKK+AK++
  PHY93_20800|PHY93_20800 15 LAKKIAKKL 23
                             9*******8 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.16
                       Cu  17 vakyiAkK 24 
                              +akyi kK
  PHY93_20800|PHY93_20800 151 IAKYISKK 158
                              59****99 PP

  == domain 3  score: -3.2 bits;  conditional E-value: 3
                       Cu   3 GsLFK 7  
                              G LFK
  PHY93_20800|PHY93_20800 307 GELFK 311
                              78**9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (317 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       455  (0.0253779); expected 358.6 (0.02)
Passed bias filter:                      378  (0.0210832); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.55u 0.26s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 2082.18
//
Query:       PHY93_20805|PHY93_20805  [L=383]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
   1.5e-139  465.0   0.0   1.7e-139  464.8   0.0    1.0  1  SHMT           Serine hydroxymethyltransferase
      2e-07   30.5   0.0    3.2e-07   29.8   0.0    1.3  1  Aminotran_1_2  Aminotransferase class I and II


Domain annotation for each model (and alignments):
>> SHMT  Serine hydroxymethyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  464.8   0.0  1.9e-143  1.7e-139       4     397 ..       2     376 ..       1     378 [. 0.97

  Alignments for each domain:
  == domain 1  score: 464.8 bits;  conditional E-value: 1.9e-143
                              HTHHHHHHHHHHHHHHHHSEE-STT-----HHHHHHHTSGGGG----EETTEESSST-HHHHHHHHHHHHHHHHHCT-STTTEEEE CS
                     SHMT   4 sdpevaeiikkekerqkeeieliasenftskavlealGsvltnkyaeGyPGkryyGGcefvdeveelaqdrakelfkldpakwgvn 89 
                               d+++ ++ikke+erq++ ++li+senf+s++v  alGs+ltnkyaeGyPG+ryy G+ f+de+e+la++r k++ +++    + n
  PHY93_20805|PHY93_20805   2 IDKKIRDLIKKEEERQEKLVHLIPSENFASEEVRMALGSCLTNKYAEGYPGRRYYQGNGFIDEIENLAIERGKKILGVE----HLN 83 
                              699****************************************************************************....*** PP

                              ---SSHHHHHHHHHHHHT-TT-EEEEESCTTTSTGGGT-BTSS-B-SHHHHHSEEEEE-B-TTTSSB-HHHHHHHHHHH--SEEEE CS
                     SHMT  90 vqplsGsqanlavytallepgdrilgldladGGhlthGakveskkisassklfesveykvdketglidydelekkakefkPkliva 175
                              vqp+sGs+an a+ +alle +d+i gl+l++GGhlthG +    ki++s+k+fe v+y v+ e+g idy++le+   + kPk+i+ 
  PHY93_20805|PHY93_20805  84 VQPYSGSPANSAIQMALLEREDKICGLKLSAGGHLTHGHP----KITFSGKFFENVQYDVE-EDGRIDYKKLEEFVLKEKPKMIMV 164
                              **************************************86....577*************9.99********************** PP

                              E-SST-S---HHHHHHHHHHTT-EEEEE-GGGHHHHHTTSS--GCCTSSEEEEESSSTT-S-S-EEEEEC-SEEEEETTTEEEEHH CS
                     SHMT 176 GtsaysrlidyarlreiadevgayllvdmahiaGlvaagvipsPfeyadvvtttthktlrGprgglillrkgvksvdktgkevlee 261
                              Gt+ay+ ++d++++ ei d+vga++++d++hi Gl+++gv+psP++y +v+ +tthk+lrGprg++i +        k+g e + e
  PHY93_20805|PHY93_20805 165 GTTAYPWILDFKKFGEIGDKVGAWVVADVSHIIGLIVGGVHPSPVDYVHVIMSTTHKSLRGPRGAFIGVT-------KKGLEKDPE 243
                              *****************************************************************99766.......99******* PP

                              HHHHHHHHHTTTT-SS--HHHHHHHHHHHHHCTSHHHHHHHHHHHHHHHHHHHHHHHTT-EEGGGS-SSSEEEEEGGGGTS-HHHH CS
                     SHMT 262 lekkinsavfPglqGGPlnhviaakavalkealepefkvyqkqvlknakalaealkekgyklvsgGtdnhlvlvdlrekgldGkra 347
                              l++ki++avfPglqGGP+   iaa+av++ ea +++f+ y++qv+knak+laealk++g k+   Gt+nhl++vd+ +    Gk++
  PHY93_20805|PHY93_20805 244 LSSKIDKAVFPGLQGGPHENNIAAMAVCFAEADTQNFRDYATQVVKNAKVLAEALKKNGLKVF--GTENHLMVVDVGKG--RGKEV 325
                              *************************************************************96..9*********9754..7**** PP

                              HHHHHHTTEE-EEE--TTS.STTTT-SEEEEESHHHHHTT--HHHHHHHHH CS
                     SHMT 348 ekvlekvnitankntvPgd.ksalvtsGlrlGtpaltsrgfkeedlekvak 397
                                 le+  i +n ntvP+d   ++ +sG+r+Gtpa+t++g ke+++e +ak
  PHY93_20805|PHY93_20805 326 AVRLEEEGIVCNANTVPHDkAGPFRPSGIRIGTPAMTTKGWKEKEFEDLAK 376
                              *******************778*************************9987 PP

>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.8   0.0   3.6e-11   3.2e-07      70     354 ..      83     364 ..      52     368 .. 0.77

  Alignments for each domain:
  == domain 1  score: 29.8 bits;  conditional E-value: 3.6e-11
                              GEEEESHHHHHHHHHHHHHHHTTT-EEEEEES...S-THHHHHHHHTTSE.EEEEEBEETTTTEE-HHHHHHHHTTHHCTTETEEE CS
            Aminotran_1_2  70 avvvgsGagaliealifllklnpgdeilvpdp...tyasyknilrlsgge.vvryplyseedfhldlealeealkeapegnkktkv 151
                              +v+  sG+ a+ ++ ++ll+  ++d+i   ++    +  + +      g+ +  + ++ eed ++d ++lee + +      k+k+
  PHY93_20805|PHY93_20805  83 NVQPYSGSPANSAIQMALLE--REDKICGLKLsagGHLTHGHPKITFSGKfFENVQYDVEEDGRIDYKKLEEFVLKE-----KPKM 161
                              56666666655555555444..66666544331113333322222222232555666677***********966553.....7899 PP

                              EEEESS-TTT--B--HHHHHHHHHHHHHTTEEEEEEETTTTCBSSSSHTHHHHGGSTTSTTEEEEEESSSTTSSGGG-EEEEEE.E CS
            Aminotran_1_2 152 ilvesphNPtGtvatleeleklldlakkynlllfvDeaYagfvfgsldavatranveeepnllivgslsKafGlaGeRvGyilg.n 236
                              i v +   P   +++ ++  ++    +k +++++ D  + ++         +++   ++++ +i+++  K++  +    G+++g +
  PHY93_20805|PHY93_20805 162 IMVGTTAYPW--ILDFKKFGEI---GDKVGAWVVADVSHIIGLIVG----GVHPSPVDYVH-VIMSTTHKSLRGPR---GAFIGvT 234
                              9999887774..6666666666...9999**********9998863....45888888999.99999999986666...5655525 PP

                              H.......HHHHHHHHHHHHHTS.SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSTEEEECCSCSSEEEEEETH CS
            Aminotran_1_2 237 a.......avvsqlrklsrpfls.ssllqaavaaalsdallkqseleemrqrlqkrrkelrdeLaelglkvlasqsgmflltdlsa 314
                              +       ++ s + k++ p+l    +   ++a a+  a+   +++ + + ++ k++k+l ++L++ glkv++ ++++ ++ +++ 
  PHY93_20805|PHY93_20805 235 KkglekdpELSSKIDKAVFPGLQgGPHENNIAAMAVCFAEADTQNFRDYATQVVKNAKVLAEALKKNGLKVFGTENHLMVVDVGKG 320
                              59******************999955666666666666666667*************************************99999 PP

                              HCHHHHHHHHHHTCTEEEEEGGGGTS......TTEEEEECTTS-HH CS
            Aminotran_1_2 315 etakelskkLleevgvyvtpgtsftv......pgrlRitvAgltee 354
                                 ke++  L ee g+++ ++t ++       p+ +Ri  +++t++
  PHY93_20805|PHY93_20805 321 R-GKEVAVRLEEE-GIVCNANTVPHDkagpfrPSGIRIGTPAMTTK 364
                              9.99999999999.***********99*****999*****999987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (383 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       659  (0.0367561); expected 358.6 (0.02)
Passed bias filter:                      603  (0.0336327); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.65u 0.25s 00:00:00.90 Elapsed: 00:00:00.47
# Mc/sec: 2431.20
//
Query:       PHY93_20810|PHY93_20810  [L=93]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (93 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       415  (0.0231469); expected 358.6 (0.02)
Passed bias filter:                      365  (0.0203581); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.45
# Mc/sec: 624.88
//
Query:       PHY93_14790|PHY93_14790  [L=348]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (348 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       297  (0.0165653); expected 358.6 (0.02)
Passed bias filter:                      124  (0.00691617); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.25s 00:00:00.78 Elapsed: 00:00:00.47
# Mc/sec: 2223.24
//
Query:       PHY93_14795|PHY93_14795  [L=522]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.6e-16   59.9   0.0    3.6e-09   36.5   0.0    2.3  2  adh_short_C2  Enoyl-(Acyl carrier protein) reductase
    3.2e-15   56.1   0.0    4.2e-08   32.9   0.0    2.3  2  adh_short     short chain dehydrogenase
  ------ inclusion threshold ------
       0.14   12.3   0.8       0.29   11.3   0.8    1.5  1  Zn-ribbon_8   Zinc ribbon domain


Domain annotation for each model (and alignments):
>> adh_short_C2  Enoyl-(Acyl carrier protein) reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.9   0.0   3.7e-08   0.00022       6      83 ..     178     261 ..     174     289 .. 0.75
   2 !   36.5   0.0     6e-13   3.6e-09      87     189 ..     371     481 ..     342     487 .. 0.85

  Alignments for each domain:
  == domain 1  score: 20.9 bits;  conditional E-value: 3.7e-08
                              HHHHHHHHHHHTT-EEEEEESSGGH.HHHHHHHHHHTT..SE..EEE--TTSHHHHHHHHHHHHHHHSSEEEEEE-----EG.C CS
             adh_short_C2   6 IGraiAkalaeeGaevvltdlneea.kkrveelaeelg..ae..vlecDVtdeeqvealveevvekfgklDilvnnagiapk.l 83 
                              IG+++   + + Ga+vv+t +   + + r ++ ++ ++  ++  +  +D +++ +ve +++ +++kf++lDil+nna+ + +  
  PHY93_14795|PHY93_14795 178 IGYHATLMMLRSGATVVATTRFPVDsAMRFAREKDFTEwsNRlhIHGLDLRHTPSVEIFASFIEHKFDRLDILINNAAQTVRrP 261
                              9***************9998766654555544444333324444599*******************************987742 PP

  == domain 2  score: 36.5 bits;  conditional E-value: 6e-13
                              GGGH-HHHHHHHHHHHTHHHHHHHHHHHHHCTSC....CEEEEEEEGGGTSB.STTTT...HHHHHHHHHHHHHHHHHHHHGGGTE CS
             adh_short_C2  87 fletsreefdraldvnlyslfllakaalplmkeg....gsivnlssvgaerv.vpnyn...aygaaKaalealtrylAvelgpkgi 164
                              + e++  e+ +++ vn+ + f l+++++ lm++       ivn++ + ++ + +++ +   + ++aKaal+ +t++ A +++++gi
  PHY93_14795|PHY93_14795 371 LGEIQTPEMLEVQLVNAIAPFVLCNRLVGLMRRDytgkKHIVNVTAMEGKFYrFKKEDrhpHTNMAKAALNMMTHTSASDFAKDGI 456
                              56777788999999*****************998897788*******99977433332456************************* PP

                              EEEEEEE--BHCTGGGGSTTHHHHH CS
             adh_short_C2 165 RvNavspgpikTlaasgikgfdell 189
                                Nav  g++  +  ++i++ ++ l
  PHY93_14795|PHY93_14795 457 FMNAVDTGWVTDEDPAEISNLKQQL 481
                              **********999888888766554 PP

>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.9   0.0     7e-12   4.2e-08       1      89 [.     167     258 ..     167     277 .. 0.84
   2 !   20.9   0.0   3.4e-08    0.0002      95     182 ..     373     466 ..     354     476 .. 0.84

  Alignments for each domain:
  == domain 1  score: 32.9 bits;  conditional E-value: 7e-12
                              SEEEEESTTSHHHHHHHHHHHHTT-EEEEEESCHHHHH.HHHHHHHHT..TSEEEEEE-TTTSHHHHHHHHHHHHHHHSSESEEEE CS
                adh_short   1 kvvlvtGassGIGraiakelakeGakvvvvdrseekle.evakelkee..gakalaiqvDvtdreevealvekavkklgkldvLvn 83 
                              +v+++tG    IG+     ++++Ga+vv++ r + + + + a e   +  ++++++  +D+++  +ve + + ++ k+++ld+L+n
  PHY93_14795|PHY93_14795 167 QVAIITGSRLKIGYHATLMMLRSGATVVATTRFPVDSAmRFAREKDFTewSNRLHIHGLDLRHTPSVEIFASFIEHKFDRLDILIN 252
                              69***************************7776554441444443333679*********************************** PP

                              ---SS- CS
                adh_short  84 NAGitg 89 
                              NA+ t 
  PHY93_14795|PHY93_14795 253 NAAQTV 258
                              **9854 PP

  == domain 2  score: 20.9 bits;  conditional E-value: 3.4e-08
                              GCSHHHHHHHHHHHTHHHHHHHHHHHHHHHHCTTE..EEEEEEEGGG....TSB-TTBHHHHHHHHHHHHHHHHHHHHHGGGTEEE CS
                adh_short  95 elseeewervievNltgvflltravlpamlkqssG..rIvnvsSvag....kvpvagvaaYsAsKaavagltrslakelaptgirv 174
                              e++  e+ +v  vN  ++f l+  ++  m +   G  +Ivnv+ + g    +++    +    +Kaa++++t++ a ++a++gi  
  PHY93_14795|PHY93_14795 373 EIQTPEMLEVQLVNAIAPFVLCNRLVGLMRRDYTGkkHIVNVTAMEGkfyrFKKEDRHPHTNMAKAALNMMTHTSASDFAKDGIFM 458
                              5666677778889*****************77777336*********5333345556788899*********************** PP

                              EEEEESSB CS
                adh_short 175 navaPGlv 182
                              nav +G v
  PHY93_14795|PHY93_14795 459 NAVDTGWV 466
                              ****9987 PP

>> Zn-ribbon_8  Zinc ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.8   4.9e-05      0.29       8      39 ..     129     158 ..     127     159 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 4.9e-05
              Zn-ribbon_8   8 CeeCghefevlqsisdapltaCPeCgs.evrrv 39 
                              C  C+ ef++l+ +    +t C+eCg  + +++
  PHY93_14795|PHY93_14795 129 CYVCKAEFTKLHFFY---DTMCKECGDfNYHKR 158
                              778999******777...788*****9998886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (522 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       972  (0.0542138); expected 358.6 (0.02)
Passed bias filter:                      670  (0.0373696); expected 358.6 (0.02)
Passed Vit filter:                        62  (0.00345808); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.67u 0.29s 00:00:00.96 Elapsed: 00:00:00.47
# Mc/sec: 3331.29
//
Query:       PHY93_17095|PHY93_17095  [L=306]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
     0.0078   16.4   1.3      0.011   15.8   1.3    1.2  1  OMP_b-brl  Outer membrane protein beta-barrel domain


Domain annotation for each model (and alignments):
>> OMP_b-brl  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   1.3   6.3e-07     0.011      36     175 ..     157     303 ..     133     305 .. 0.72

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 6.3e-07
                OMP_b-brl  36 dgvgsdsgfgfgvgagyefndn...vgvegglsysgdkdysgsgktdikinllsvpvnagyafnlsdsvlpyggaGlg..ytkvev 116
                              dg+ +d  +gfg+++ ++ +     +g +++++++++ + +         + +++  ++gy+   ++ +l+ + + l+    ++++
  PHY93_17095|PHY93_17095 157 DGSSKDHFTGFGISLIHRQTTGralWGAGYEYNALSTPTVKF--------TIYTLNPTVGYTPIRNPLFLVDLIFSLDfsI-SAQL 233
                              566655557888888877665335688888888888776555........6999********5447776666666666423.3556 PP

                OMP_b-brl 117 dvsgngasdsdtdfglglgaGveyaladnwslkaeYrytdlks........dadnd....lknntfqvgvg 175
                              +++   + +s  ++g ++ga +    ++++   +++ y  +k+        d++++     k n+++++ g
  PHY93_17095|PHY93_17095 234 KIQSI-NQSSAFAWGPQFGARMVLFPNQKYHPFGGIGYRSYKVmrldslldDNGTNvgaiTKINGINLNIG 303
                              66655.78999***********99****9999999999888888888887544444677666677776666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (306 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       295  (0.0164538); expected 358.6 (0.02)
Passed bias filter:                      276  (0.0153941); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.25s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1993.05
//
Query:       PHY93_14800|PHY93_14800  [L=240]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.3e-40  139.5   0.0    1.6e-40  139.2   0.0    1.0  1  Peptidase_M74  Penicillin-insensitive murein endopeptidase


Domain annotation for each model (and alignments):
>> Peptidase_M74  Penicillin-insensitive murein endopeptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  139.2   0.0   8.9e-45   1.6e-40       1     204 [.      20     228 ..      20     239 .. 0.85

  Alignments for each domain:
  == domain 1  score: 139.2 bits;  conditional E-value: 8.9e-45
                              EEEETTEEEEES-EE--S--SSEEES-GGG--BEE-HHHHHHHHHHHHHHHHT..TS--EEE---B-TT----SSS-S--TTS-EE CS
            Peptidase_M74   1 siGsyakGClaGaealpeegegyqvmrlsrnrnyghpeliaflerlakkakka..glkgllvgDlsqprGGpmlsgHaSHqiGLDv 84 
                              +iG+y++G laGa+++ e+g+  q + + r r y+  e+ ++l++ ++ +k++  + + l vgDls   GG +++gHaSHq+GLD 
  PHY93_14800|PHY93_14800  20 AIGFYSAGSLAGAQSVFEHGTPIQKLFVARGRLYTSDEMHNVLTDASEFIKNNfpDSEILQVGDLSARLGG-LAEGHASHQNGLDG 104
                              69************************************************99987888999*****99999.689*********** PP

                              EEES---.....--HHHHHS------B-TTSSSB-TTT--HHHHHHHHHHHHSTTEEEEEE-HHHHHHHHHHH........TT--G CS
            Peptidase_M74  85 DiwltlpaekrelseeereklsalslvkkdklkvdekkwteehaklirlaasdpeveRifvnpaiKkalCeea........kgdrs 162
                              Di +  + +++ +++ +  ++++  + k+d  +  ++  te++++l +   ++++v+Rifv+ +iKk lC+ a         +  +
  PHY93_14800|PHY93_14800 105 DIVYL-R-RNKYVQSPQAANWDEDFVTKTDLPT--KNFNTERNFALFKFLVKSTSVSRIFVDVSIKKLLCKFAddsgeirdPNTVE 186
                              **988.3.4566666666667666655544433..33358999***************************9883333221112346 PP

                              GGGGEEE-SS-SSEEEEEE---TT-TTB-------SS--TTH CS
            Peptidase_M74 163 wLrkvrPwlgHdaHfHvRlkCpagskeCeeqapvpagdGCge 204
                               Lr++rP   H++HfH+R++Cp +++eC++q+ ++ag GC++
  PHY93_14800|PHY93_14800 187 TLRRLRPQELHRTHFHLRISCPPNDHECTPQSGPEAGSGCDD 228
                              8***************************************95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (240 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       365  (0.0203581); expected 358.6 (0.02)
Passed bias filter:                      348  (0.0194099); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 1625.33
//
Query:       PHY93_14805|PHY93_14805  [L=202]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.03   14.6   0.2      0.055   13.7   0.2    1.6  1  DUF4976   Domain of unknown function (DUF4976)


Domain annotation for each model (and alignments):
>> DUF4976  Domain of unknown function (DUF4976)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.2   3.1e-06     0.055      40      85 ..      93     141 ..      61     155 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 3.1e-06
                  DUF4976  40 krhygvrteryklihfykdidewel...yDlkkDpkelknlyddpeyee 85 
                              + h  +  + y+l hfykd de e+   +   +D++e+  ++++++y++
  PHY93_14805|PHY93_14805  93 NTHKKIANKIYRLRHFYKDGDEGEIetfLVYLEDKAEMARIIEKSSYTK 141
                              579999***************998622244579***********99986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (202 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       849  (0.0473534); expected 358.6 (0.02)
Passed bias filter:                      474  (0.0264376); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1334.69
//
Query:       PHY93_14810|PHY93_14810  [L=417]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.027   13.9   0.7      0.094   12.1   0.0    1.9  2  XRN_N     XRN 5'-3' exonuclease N-terminus
       0.09   12.6   0.2       0.16   11.9   0.2    1.4  1  GAPT      GRB2-binding adapter (GAPT)


Domain annotation for each model (and alignments):
>> XRN_N  XRN 5'-3' exonuclease N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0     1e-05     0.094     143     186 ..     141     186 ..      91     205 .. 0.68
   2 ?   -0.3   0.1     0.065   5.9e+02     104     173 ..     269     338 ..     260     361 .. 0.61

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 1e-05
                              --GGGSSTTSHHHHHHHHHHHHHHHHHHHH-..GGGGG-EEEEE-T CS
                    XRN_N 143 fdsnvitpGtefmeklsealkafikkklked..pawknlkvilsda 186
                              +  ++itpG+ fm+k+++++ +fi++  + +  +   +++vi+s +
  PHY93_14810|PHY93_14810 141 IAIKSITPGSVFMYKIKARFGNFIRHTYNIKgiNDVGTFDVIYSTQ 186
                              44569*******************9976633225556677888766 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.065
                              HHHHHHHHHHHHHHHHHH.HHHHHHHHHHHT-BB--------GGGSSTTSHHHHHHHHHHHHHHHHHHHH- CS
                    XRN_N 104 qRsRRfrsakeakeekee.keelkeelekeekeeeeeeekfdsnvitpGtefmeklsealkafikkklked 173
                              + +R f++   +++++ e  ++  ++l++++ ++ ++ e+fd  +  +  + +++l e+l+    + l++d
  PHY93_14810|PHY93_14810 269 RMTRLFKTVCAEAQARVEyVNQGLNHLKETN-NKCMNYEEFDAYSTPARDQTLKELFEKLQRVYDDVLSSD 338
                              3355566666666665553444444444444.445788888888877777888888888888777777766 PP

>> GAPT  GRB2-binding adapter (GAPT)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.2   1.7e-05      0.16      57     118 ..     266     329 ..     251     357 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 1.7e-05
                     GAPT  57 vtktlslsaevisakhkisvq..tkdkksavkktdiednYEnvevgppkakeetdkelYentrq 118
                              +++ ++   ++++a+ ++ v+  +++ +   + ++ + nYE  ++ +  a+++t kel+e  ++
  PHY93_14810|PHY93_14810 266 SAQRMTRLFKTVCAEAQARVEyvNQGLNHLKETNNKCMNYEEFDAYSTPARDQTLKELFEKLQR 329
                              333344444445554444444216788888999999************************9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (417 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       865  (0.0482459); expected 358.6 (0.02)
Passed bias filter:                      662  (0.0369234); expected 358.6 (0.02)
Passed Vit filter:                        63  (0.00351386); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.65u 0.29s 00:00:00.94 Elapsed: 00:00:00.49
# Mc/sec: 2569.25
//
Query:       PHY93_14815|PHY93_14815  [L=426]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    3.5e-48  164.2   0.0    6.3e-48  163.4   0.0    1.4  1  Thiolase_N  Thiolase, N-terminal domain
    1.3e-31  108.8   0.1    2.2e-31  108.1   0.1    1.4  1  Thiolase_C  Thiolase, C-terminal domain


Domain annotation for each model (and alignments):
>> Thiolase_N  Thiolase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  163.4   0.0     7e-52   6.3e-48       1     260 []      10     278 ..      10     278 .. 0.92

  Alignments for each domain:
  == domain 1  score: 163.4 bits;  conditional E-value: 7e-52
                              EEEEEEEEE--EETTSTTTTS-HHHHHHHHHHHHHHHHTS-GGGCCEEEEEHSSCTTSTSCHHHHHHHHTTS-TTSEEEEEEHGGG CS
               Thiolase_N   1 vvivsaartpigkfggslkdlsaeeLlaealkallekagvdpeevdevivGnvlqagegqniarqaalkagipeevpavtvnkvcs 86 
                              v+ivs++rtp++++ +s++++s  eL +++l++l++k++++  ++ +v++G v++++e++n++r+ +lk+g+  ++p   v+++c+
  PHY93_14815|PHY93_14815  10 VAIVSGSRTPFTRSFTSYAKTSNIELMTATLRDLVSKNSLNGVQLGDVALGAVMKNAEDWNMSRECVLKSGLHPHTPGYDVQRACG 95 
                              89************************************************************************************ PP

                              HHHHHHHHHHHHHHTTSHSEEEEEEEEESTTS-EEETCTTT.................TGGSSSSEEEEEHHHHHHTEETTTTSEH CS
               Thiolase_N  87 SglkavalaaqsiaageadvvvagGvEsmsnaptaestdvr.................sglklgdekakdllipdgladafneehm 155
                               gl++ a++a +ia+ +++  +agG+ + s+   + + ++                  + ++l+ +++k    p  +++  +++ m
  PHY93_14815|PHY93_14815  96 TGLETAAQIALKIASFQIESGIAGGTDTNSDIAGVLPHEFSwvmieaqkaptligkfkKFIELKPQYLKPKF-P-VVQEPQTGMSM 179
                              ************************************988889999**9998888665444444444444333.3.48999****** PP

                              HHHHHHHHHHHT--HHHHHHHHHHHHHHHHHHHHTTTTTTTBE-EEEEESSSEEEE-S-TTS-TT--HHHHHTS-BSSSTT..SS- CS
               Thiolase_N 156 GltaenlakkykisReeqdefAvkshqkaaaaqkagkFkdeivPvkvkgkkgkktvdkdeairsevtaekLaklkpaFkke..Gtv 239
                              G + e + k++kis  eqd+ A +shqkaa+a ++  Fkd i  ++ kg      v+kd  +r+++t+ekLaklkpaF+    Gt 
  PHY93_14815|PHY93_14815 180 GQHCELMVKEWKISQAEQDQLAFESHQKAAKAYEKNFFKDLI--FEFKG------VKKDSILRPDTTIEKLAKLKPAFDFTgkGTL 257
                              ****************************************99..66666......78*********************97767*** PP

                              BTTSB--BEEEEEEEEEEEHH CS
               Thiolase_N 240 tAgnasqisDGaaavllmses 260
                              tAgn+  ++DGa+avll+se+
  PHY93_14815|PHY93_14815 258 TAGNSTALTDGASAVLLASED 278
                              ******************996 PP

>> Thiolase_C  Thiolase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  108.1   0.1   2.4e-35   2.2e-31       3     122 ..     287     426 .]     285     426 .] 0.95

  Alignments for each domain:
  == domain 1  score: 108.1 bits;  conditional E-value: 2.4e-35
                              -SEEEEEEEEEE--G...GGGGGHHHHHHHHHHHHHT--GGGESEEEE--SBHHHHHHHHHHHT--G.................GG CS
               Thiolase_C   3 plakirsyaevgvdp...eilglgPayaikkvlkkagltvedidlfEinEAFaaqaLavakaldldl.................ek 68 
                              +la++ + ++++vd    e l ++P+ a++++lk++ lt++d d++Ei+EAFa+q+L ++ka +++                   k
  PHY93_14815|PHY93_14815 287 ILAYFIDAQYSAVDYvlgEGLLMAPVTAVSELLKRNNLTLQDFDFYEIHEAFAGQVLCTLKAWESEVycrknlnrdtamgsidrAK 372
                              68888888888888655588**********************************************99****************** PP

                              BSTT--HHHH-B-TTTHHHHHHHHHHHHHHHCTTSEEEEEEEETTTEEEEEEEE CS
               Thiolase_C  69 vNvnGGaialGHPlGasGaRivvtllselkkeggklgvaalCigggqgvalvie 122
                              +NvnG ++alGHP+ a+G R+++tl++ l ++g+  g++++C++gg+gva++ie
  PHY93_14815|PHY93_14815 373 LNVNGSSLALGHPFAATGGRLIATLAKLLAEKGSGRGLISICTAGGMGVAAIIE 426
                              ****************************************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (426 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       531  (0.0296168); expected 358.6 (0.02)
Passed bias filter:                      474  (0.0264376); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.62u 0.25s 00:00:00.87 Elapsed: 00:00:00.47
# Mc/sec: 2753.27
//
Query:       PHY93_14820|PHY93_14820  [L=76]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.7e-33  114.6   0.0      2e-33  114.4   0.0    1.0  1  VF530          DNA-binding protein VF530
  ------ inclusion threshold ------
       0.12   11.9   0.0       0.12   11.9   0.0    1.0  1  FAD_binding_1  FAD binding domain


Domain annotation for each model (and alignments):
>> VF530  DNA-binding protein VF530
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  114.4   0.0   2.2e-37     2e-33       1      63 []       6      68 ..       6      68 .. 0.99

  Alignments for each domain:
  == domain 1  score: 114.4 bits;  conditional E-value: 2.2e-37
                             SS-TTSS--HHHHHHHHHHHT-HHHHHHHTTSSSTTSS--HHHHHHHHHHSHHHHHHHHHHHH CS
                    VF530  1 knnpLhGvklekileeLveeygweeLaerinircFksnpsikSslkFLrktpWArekvEelYl 63
                             +nnpLhGv+le++l+eLve+yg+ eLa+ i+i+cFks+p+ikSsl+FLr+tpWAr+kvE+lY+
  PHY93_14820|PHY93_14820  6 SNNPLHGVTLEMLLTELVEFYGYPELANLIDINCFKSDPTIKSSLTFLRRTPWARTKVENLYI 68
                             59************************************************************7 PP

>> FAD_binding_1  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   1.4e-05      0.12      91     138 ..       9      56 ..       2      75 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 1.4e-05
                              SSSSEEHHHHHHHTB--SS---HHHHHHHGGG-SSHHHHHHHHHHHH- CS
            FAD_binding_1  91 rleptTlrqalkyylditgppskqlleaLaefaseeeekqkLekLssd 138
                               l+ +Tl+ +l++ +++ g p+ + l  +  f s+++ k  L++L + 
  PHY93_14820|PHY93_14820   9 PLHGVTLEMLLTELVEFYGYPELANLIDINCFKSDPTIKSSLTFLRRT 56 
                              46678****************************************876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (76 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       291  (0.0162307); expected 358.6 (0.02)
Passed bias filter:                      256  (0.0142785); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.24s 00:00:00.65 Elapsed: 00:00:00.43
# Mc/sec: 534.37
//
Query:       PHY93_14825|PHY93_14825  [L=78]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      1e-29  102.6   0.8    1.2e-29  102.5   0.8    1.0  1  DUF1456   Protein of unknown function (DUF1456)
  ------ inclusion threshold ------
       0.11   12.7   0.0       0.13   12.5   0.0    1.0  1  CENP-L    Kinetochore complex Sim4 subunit Fta1


Domain annotation for each model (and alignments):
>> DUF1456  Protein of unknown function (DUF1456)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  102.5   0.8   1.3e-33   1.2e-29       1      68 []       4      71 ..       4      71 .. 1.00

  Alignments for each domain:
  == domain 1  score: 102.5 bits;  conditional E-value: 1.3e-33
                  DUF1456  1 NNdiLrrlRyaLdlkdedmveifklggvevtkeelsalLkkedeegyeeckdqvLesFLnGliikkRG 68
                             NNdiL++lR+aL++kd+d++e ++l+++++tk+elsal+++ d+++y+ec+dqvL++FLnGliik+RG
  PHY93_14825|PHY93_14825  4 NNDILKKLRVALSFKDTDIIECLELVDFKITKSELSALFRNIDHPNYKECGDQVLRNFLNGLIIKNRG 71
                             9******************************************************************9 PP

>> CENP-L  Kinetochore complex Sim4 subunit Fta1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   1.4e-05      0.13      62     123 ..       5      64 ..       2      68 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 1.4e-05
                   CENP-L  62 qslvkdlqltlsFavppeapglktlditipaedlreflragedsseeddttndeesqpFlea 123
                              +++ k+l++ lsF+     + l+ +d++i++++l++++r++ + +   ++  d+  ++Fl+ 
  PHY93_14825|PHY93_14825   5 NDILKKLRVALSFKDTDIIECLELVDFKITKSELSALFRNIDHPN--YKECGDQVLRNFLNG 64 
                              5799**********9999999*******************98765..556666666666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (78 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       459  (0.025601); expected 358.6 (0.02)
Passed bias filter:                      392  (0.021864); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.24s 00:00:00.67 Elapsed: 00:00:00.43
# Mc/sec: 547.57
//
Query:       PHY93_14830|PHY93_14830  [L=250]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.4e-10   41.2   0.2    2.8e-10   40.2   0.2    1.4  1  3D        3D domain


Domain annotation for each model (and alignments):
>> 3D  3D domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.2   0.2   1.6e-14   2.8e-10       1      58 [.     154     217 ..     154     219 .. 0.82

  Alignments for each domain:
  == domain 1  score: 40.2 bits;  conditional E-value: 1.6e-14
                              TEEEE-TTTS-TT-EEEEEEC.CEET....TT..CCEEEEEEEEE--TT--SSEEEEEEEESHHH CS
                       3D   1 rsiAvDpsviplGtpvlvege.plla....gk..kpvyrlviaqDtGgaIkGnriDlffgtgdea 58 
                              r++A+D   ip+Gt+++++ +    +    g       ++ +a D+GgaIk n+iD+f+gt+  a
  PHY93_14830|PHY93_14830 154 RTLATDGAKIPPGTVLYIPQArGA-KitlvGGrvIMHDGYFFAGDKGGAIKENHIDVFIGTHRSA 217
                              799***************996422.2235533456669***********************9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (250 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       377  (0.0210274); expected 358.6 (0.02)
Passed bias filter:                      363  (0.0202465); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.27s 00:00:00.75 Elapsed: 00:00:00.45
# Mc/sec: 1676.89
//
Query:       PHY93_14835|PHY93_14835  [L=214]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.2e-09   36.5   0.0    5.1e-09   35.8   0.0    1.2  1  SLT       Transglycosylase SLT domain


Domain annotation for each model (and alignments):
>> SLT  Transglycosylase SLT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.8   0.0   2.8e-13   5.1e-09      10      86 ..      85     164 ..      77     173 .. 0.84

  Alignments for each domain:
  == domain 1  score: 35.8 bits;  conditional E-value: 2.8e-13
                              HTS-HHHHHHHHHHHHTT-TT-B-TTS....EBTTTTBETTTHHHHHHHHT-SHHHHCSHHHHHHHHHHHHHHHHHTTTTH CS
                      SLT  10 ygvepsllaaiaqvESgfnpkAvsksg....avGLmQimpstakrlglrvklsedelldPeknisagakyLkslykqyngs 86 
                                 +  ++ a+ + ESgfn+kA s++     ++GL Q+ ++tak  +  + + e+++l+ ++n++ g+k++++ + +  +s
  PHY93_14835|PHY93_14835  85 SDFWVVFFSALTRAESGFNEKARSRKSrghrSLGLLQLASATAKT-QCGIIPPESSVLNAQDNLKCGIKLMSWQLHGAPTS 164
                              5566677899**************4444566*************9.44577**********************99988765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (214 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       410  (0.022868); expected 358.6 (0.02)
Passed bias filter:                      318  (0.0177366); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 1443.44
//
Query:       PHY93_14840|PHY93_14840  [L=38]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (38 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       430  (0.0239835); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.24s 00:00:00.64 Elapsed: 00:00:00.43
# Mc/sec: 265.71
//
Query:       PHY93_14845|PHY93_14845  [L=115]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.37   11.4   1.5       0.71   10.5   1.5    1.5  1  LPAM_1    Prokaryotic membrane lipoprotein lipid attachment s


Domain annotation for each model (and alignments):
>> LPAM_1  Prokaryotic membrane lipoprotein lipid attachment site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   1.5     4e-05      0.71       1      15 [.       1      16 [.       1      17 [. 0.80

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 4e-05
                   LPAM_1  1 MKKi.llalgalllLs 15
                             MKK+ +++l+a+l L+
  PHY93_14845|PHY93_14845  1 MKKSlFVFLFAILGLT 16
                             ****777888888887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (115 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       448  (0.0249875); expected 358.6 (0.02)
Passed bias filter:                      314  (0.0175135); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 776.83
//
Query:       PHY93_05305|PHY93_05305  [L=119]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.15   11.7   0.1       0.18   11.4   0.1    1.1  1  DUF4045   Domain of unknown function (DUF4045)


Domain annotation for each model (and alignments):
>> DUF4045  Domain of unknown function (DUF4045)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1     1e-05      0.18     128     167 ..      27      68 ..      12      75 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 1e-05
                  DUF4045 128 s..keetsPaspsktmdpkRwSPtkssWLEsALnrpesPkpk 167
                                  ++  Pas s  +++ R S t+s WL s+L+ +  P ++
  PHY93_05305|PHY93_05305  27 VlfLRAYVPASISTKVNESRLSATQSLWLISSLTNSRYPSES 68 
                              25567889**************************99888766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (119 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       378  (0.0210832); expected 358.6 (0.02)
Passed bias filter:                      288  (0.0160634); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.43
# Mc/sec: 827.34
//
Query:       PHY93_17100|PHY93_17100  [L=430]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.2e-14   53.0   0.0    9.7e-11   41.5   0.0    2.2  2  PfkB      pfkB family carbohydrate kinase
  ------ inclusion threshold ------
       0.15   12.2   0.0       0.29   11.3   0.0    1.4  1  DUF5367   Family of unknown function (DUF5367)


Domain annotation for each model (and alignments):
>> PfkB  pfkB family carbohydrate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.5   0.0   1.1e-14   9.7e-11      12     239 ..      66     295 ..      54     304 .. 0.81
   2 !    9.2   0.1   7.7e-05      0.69     251     272 ..     348     369 ..     342     378 .. 0.88

  Alignments for each domain:
  == domain 1  score: 41.5 bits;  conditional E-value: 1.1e-14
                              EEEEEECSSHTTSEE.EESEEEEEEESHHHHHHHHHHHTT.-EEEEEEEEESS.HHHHHHHHHHHHTT..EEETTEEEESSSEEEE CS
                     PfkB  12 idliavseklegelv.evktveksaGGagaNvAvalarlg.advafigavGdD.nfGeflleelkkeg..vdtdyvkidedtrtgl 92 
                              +  + v+e+++ el+  ++ +  +aGGa  N+ ++ + l   +++++ga+ +    G+   +++   +  vd +y+k +++ ++g 
  PHY93_17100|PHY93_17100  66 VMSDQVVEEIYRELKkSNSIIGEYAGGAIGNTLHNYSVLSdSRSVALGAISKNiSVGDYAFKYICTTNsfVDFSYLKPVDG-PMGR 150
                              5566777888889998899999******************9999999999887457888888876655559**99995555.**** PP

                              EEEEETTTSEEEEEEEEGGGGGHHHHHHHHHHHHHGCTSEEEEESEECTTSHHHHHHHHHHHHHHTTEEEEEECESSSHH.....H CS
                     PfkB  93 alivvdedgertivfnrgaaadltkeeleededlleeadllyisgllsselpeavleelaeaaknggtfdpnlldplgaq.....f 173
                              al++++ d er++ +  g +++l+++    +e+l++ a+ l +s+    + +++++++  +a++ +++++  ++ +lg +      
  PHY93_17100|PHY93_17100 151 ALCLLTPDRERSFAIGKGIMNELSPDF--IPEELIKGAAALLVSAYSLRDENSSIYKANLAACEFAKKYKVPVVLSLGTStlissK 234
                              *************************63..7***************55555566677777777777777555555555555577789 PP

                              HHHHHHHH.CTESEEEEEHHHHHHHHTSCTHSHHHHHHHHHHHHHTTSSEEEEEEGGGEEEEEETTE CS
                     PfkB 174 keallell.aladllkpneeElealtgekledieealaalhklkakgaktvvvtlGkeGalvvekdg 239
                              ke +++++ +++ l  +neeE+ al+ge+  d+  a +++        ++v+ t G +G +++ +++
  PHY93_17100|PHY93_17100 235 KEFFQKFIkEYVALCAMNEEEALALVGET--DPLLACEKILD----LCDLVLLTVGPRGLYLAGHVD 295
                              *****************************..66455444444....4589*********99986554 PP

  == domain 2  score: 9.2 bits;  conditional E-value: 7.7e-05
                              -SBGTTHHHHHHHHHHHHHHTT CS
                     PfkB 251 vvDttGAGDsfvggflaalleg 272
                              + +t+GAGD+  +g+l  ++++
  PHY93_17100|PHY93_17100 348 IKNTNGAGDAALAGLLHDIASN 369
                              569*************999875 PP

>> DUF5367  Family of unknown function (DUF5367)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   3.3e-05      0.29      47      76 ..     358     386 ..     348     391 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 3.3e-05
                  DUF5367  47 alpgmllDvlilvfFeeifpnlqpeaaslF 76 
                              al g+l D+++  f+ ++ pn +p++ + F
  PHY93_17100|PHY93_17100 358 ALAGLLHDIASNTFHRQVTPN-SPKHTTRF 386
                              89*******************.88887776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (430 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       373  (0.0208043); expected 358.6 (0.02)
Passed bias filter:                      333  (0.0185733); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.26s 00:00:00.84 Elapsed: 00:00:00.46
# Mc/sec: 2803.88
//
Query:       PHY93_14850|PHY93_14850  [L=267]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.2e-07   29.4   0.0    9.9e-07   28.7   0.0    1.2  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
    9.2e-07   29.1   0.1    1.6e-06   28.3   0.1    1.4  1  Acetyltransf_1   Acetyltransferase (GNAT) family
    7.2e-05   23.1   0.0    0.00013   22.4   0.0    1.4  1  Acetyltransf_7   Acetyltransferase (GNAT) domain
     0.0001   22.7   0.0    0.00019   21.8   0.0    1.4  1  DUF5613          Domain of unknown function (DUF5613)
     0.0006   19.9   0.1      0.048   13.7   0.0    2.9  3  Acetyltransf_9   Acetyltransferase (GNAT) domain


Domain annotation for each model (and alignments):
>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.7   0.0   2.8e-10   9.9e-07      10     109 ..     150     253 ..     140     258 .. 0.80

  Alignments for each domain:
  == domain 1  score: 28.7 bits;  conditional E-value: 2.8e-10
          Acetyltransf_10  10 ietf.kefispealrerieegealllvaeeggkivGviel.rdgs..hisllfVdpeyrgqGigkaLleaveeeaekdgikleltv 91 
                              +++f ++ i  +++r +i++++ + ++a+ ++ +vG +++ ++++  + + +  +p+yr+ G+ + Ll + +  a+++    ++ +
  PHY93_14850|PHY93_14850 150 YRKFaQKRI--DNYRLMIKAKKGFWMGAFLDDVLVGELGIfSENGlgRFQTVGTHPDYRRIGVCSTLLYQTLIFARENMCVSQFVM 233
                              366655554..59999999*********************888889999999***********99999999999755544446666 PP

          Acetyltransf_10  92 nasp..yavpfYeklGFkav 109
                               a+p  +a ++Ye++GF + 
  PHY93_14850|PHY93_14850 234 VADPeyHAAKIYESVGFIVS 253
                              6666689**********875 PP

>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.3   0.1   4.5e-10   1.6e-06       3     117 .]     132     250 ..     130     250 .. 0.81

  Alignments for each domain:
  == domain 1  score: 28.3 bits;  conditional E-value: 4.5e-10
                              HHHHHHHHHTHHHHHHHHHHHHHHH......HHSTTC.EEEE.EEETTEEEEEEEEEEEETTSTTEEEEEEEEESGGGTTSSHHHH CS
           Acetyltransf_1   3 dlvellvesffppnedaseeefees......fsleae.gllv.aeedgeliGfisllkipdekggvayieslaVspeyrgkGlGsa 80 
                              ++ e +v++   ++e+a+++ f++       + + a+ g+++ a  d+ l+G ++++  +      +    +  +p+yr+ G+ s+
  PHY93_14850|PHY93_14850 132 RVLENHVLCRDTHFEEAPYRKFAQKridnyrLMIKAKkGFWMgAFLDDVLVGELGIFSENG----LGRFQTVGTHPDYRRIGVCST 213
                              56666777777778888888844444455664444445999999999*******9999999....89999**************** PP

                              HHHHHHHHHHHTTE.SEEEEEEETTEHHHHHHHHHTTE CS
           Acetyltransf_1  81 Llealeerareegi.kkivlaveedndaairlYeklGF 117
                              Ll + + +are+ +    ++ v ++  +a + Ye +GF
  PHY93_14850|PHY93_14850 214 LLYQTLIFARENMCvSQ-FVMVADPEYHAAKIYESVGF 250
                              ************99777.5559999********99**9 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.4   0.0   3.5e-08   0.00013      12      75 ..     179     251 ..     162     252 .. 0.66

  Alignments for each domain:
  == domain 1  score: 22.4 bits;  conditional E-value: 3.5e-08
                              TEEEEEEEEEEES..TCTEE...EEE-GGGTTSSHHHHHHHH.....TTSE.EEEE.EEEETHH..HHHHHHHHTTEE CS
           Acetyltransf_7  12 gkivGfialslld..aeitr...laVdpeyrgkGiGraLlea.....aekg.iile.qlelnae..kaikfYeklGFe 75 
                              +  vG++++  ++  +   r   + ++p+yr+ G+ + Ll       + ++ +  +  + ++++  +a+k Ye+ GF+
  PHY93_14850|PHY93_14850 179 DVLVGELGIFSENglG---RfqtVGTHPDYRRIGVCSTLLYQtlifaR-ENmCV-SqFVMVADPeyHAAKIYESVGFI 251
                              4557877777766444...3445*****************53233321.33232.3223333335799*********7 PP

>> DUF5613  Domain of unknown function (DUF5613)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.8   0.0   5.2e-08   0.00019      12      71 ..      20      79 ..      14      96 .. 0.93

  Alignments for each domain:
  == domain 1  score: 21.8 bits;  conditional E-value: 5.2e-08
                  DUF5613 12 vveenelykiyhnpeallkYdsNflefkkmPtleefkedeeylkefhkkkgqkhlkfifP 71
                             vv e e+y ++++p+ + ++  N l f k Pt e++    e +++ +++++++h+ f++ 
  PHY93_14850|PHY93_14850 20 VVLEYEEYLVVKTPTNPTYFWGNLLYFPKPPTPESLTIWKEIFRDQFQAMNVEHMTFAWD 79
                             7999*****************************************************995 PP

>> Acetyltransf_9  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.0      0.14   4.9e+02      12      40 ..      53      83 ..      48     108 .. 0.67
   2 ?    1.4   0.0      0.09   3.2e+02      32      60 ..     160     188 ..     124     191 .. 0.70
   3 !   13.7   0.0   1.3e-05     0.048      78     125 ..     198     250 ..     193     252 .. 0.76

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.14
                             HHHHHHHHHTT----H....HHHHHHHHHHT CS
           Acetyltransf_9 12 evlellkyaFqdeespl..eeireyfrklle 40
                             e l ++k+ F d+ ++   e+++++++ + +
  PHY93_14850|PHY93_14850 53 ESLTIWKEIFRDQFQAMnvEHMTFAWDSIKG 83
                             3445555555555555543368888877665 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.09
                              HHHHHHHHTTSEEEEEEETTEEEEEEEEE CS
           Acetyltransf_9  32 reyfrklleesrvlgaedngelvgqlall 60 
                               ++++ + +++  +ga+ ++ lvg l+++
  PHY93_14850|PHY93_14850 160 NYRLMIKAKKGFWMGAFLDDVLVGELGIF 188
                              3455667778999***********99887 PP

  == domain 3  score: 13.7 bits;  conditional E-value: 1.3e-05
                              EEEE-CCGTTS-HHHHHHHHHHHHHHHTT--EEEE--.....SSHHHHHTTT- CS
           Acetyltransf_9  78 gVavapehrgrgvlskLlaraleemreegqplsllfP.....ssipiYrrfGy 125
                               V+++p++r+ gv s Ll ++l  +re+     + +       +++iY++ G+
  PHY93_14850|PHY93_14850 198 TVGTHPDYRRIGVCSTLLYQTLIFARENMCVSQFVMVadpeyHAAKIYESVGF 250
                              69************************996555555552445433477777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (267 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       441  (0.024597); expected 358.6 (0.02)
Passed bias filter:                      395  (0.0220313); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1792.64
//
Query:       PHY93_14855|PHY93_14855  [L=292]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-36  125.8  46.2    1.3e-19   70.7  17.8    2.0  2  EamA      EamA-like transporter family
    8.2e-08   31.9  17.7      5e-06   26.1   6.4    2.2  2  TPT       Triose-phosphate Transporter family
  ------ inclusion threshold ------
       0.34   10.1  26.5       0.43    9.7   6.7    2.7  2  PUNUT     Purine nucleobase transmembrane transport
        1.6    8.7  16.3        2.4    8.2   4.2    2.6  2  TMEM234   Putative transmembrane family 234


Domain annotation for each model (and alignments):
>> EamA  EamA-like transporter family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.4  20.4   2.1e-20   9.5e-17       2     136 ..       8     144 ..       7     145 .. 0.93
   2 !   70.7  17.8   2.9e-23   1.3e-19       3     136 ..     155     289 ..     153     290 .. 0.94

  Alignments for each domain:
  == domain 1  score: 61.4 bits;  conditional E-value: 2.1e-20
                     EamA   2 lgillallaalfwaiyfvlskillrkv.spltltfvrfliagillliiallkegkl.aklslkdwllllllgllgtvlafllffya 85 
                              +g + ++l+ +++a+ +++ k+++r++  p +l+ +r+ +++il  +++l+++ k    ls+ ++++ lllgl+g +l+ +++f+a
  PHY93_14855|PHY93_14855   8 IGFIQIILSGICFAFLGFFGKMAYRQHiTPGELLSLRYSLSAILTGLLILVTKPKSlFTLSRFEIICSLLLGLFGYALFSSFYFMA 93 
                              68899******************66544*****************99999999999556666669999****************** PP

                     EamA  86 lkktsasnaslitslePvftlilsvlllgekltlkqllgivlillGvllil 136
                              l+ +sas  +l++++ Pv+++i+s ++l+ek++ + l++++l+ +G++ ++
  PHY93_14855|PHY93_14855  94 LTGISASLTVLLLYTYPVMVTIFSRIFLKEKMGRLGLAALILVSVGLVGLV 144
                              ***********************************************9886 PP

  == domain 2  score: 70.7 bits;  conditional E-value: 2.9e-23
                     EamA   3 gillallaalfwaiyfvlskillrkvspltltfvrfliagillliiallkegkl.aklslkdwllllllgllgtvlafllffyalk 87 
                               +l+ + +a+f+a+y++ls++ lr v+ l  +f+  l ag +l++i +    ++  ++   ++ l++ +++l++++a+ lf+ +l+
  PHY93_14855|PHY93_14855 155 YLLFGIGSAIFYALYIILSRKYLRLVPALPSSFYVQLGAGGVLSFINFSGHPNRaVEILILHFPLIMAMAVLCSLMAMTLFLAGLQ 240
                              57899************************999999888888888888887777788999999************************ PP

                     EamA  88 ktsasnaslitslePvftlilsvlllgekltlkqllgivlillGvllil 136
                              k+++s+as+++++eP+f +i++  llge+++  q++g +lil+G ++i 
  PHY93_14855|PHY93_14855 241 KITSSEASILSTTEPIFGVIIATTLLGESIQTVQVIGGILILIGMIIIA 289
                              **********************************************986 PP

>> TPT  Triose-phosphate Transporter family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.9   4.1   2.4e-05      0.11      19     133 ..      25     141 ..      15     178 .. 0.74
   2 !   26.1   6.4   1.1e-09     5e-06      16     136 ..     168     290 ..     154     292 .] 0.81

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 2.4e-05
                      TPT  19 ilnKkilnvfpyPltvsavqllvgsvlilvlwal.glkkrpkisse.flkailplalvktlghvlavvslskvaVSfthtvKaseP 102
                              +++K++++    P  + +++     +l+ +l  + + k+   +s    + ++l   +  +l + +  ++l+ ++ S t  +  + P
  PHY93_14855|PHY93_14855  25 FFGKMAYRQHITPGELLSLRYSLSAILTGLLILVtKPKSLFTLSRFeIICSLLLGLFGYALFSSFYFMALTGISASLTVLLLYTYP 110
                              5677777777778777777777666666655554366666666666344444444445667788889******************* PP

                      TPT 103 iFtvilsrlllgeklsllvylsLlpivgGva 133
                              +   i+sr++l+ek+  l + +L+ + +G++
  PHY93_14855|PHY93_14855 111 VMVTIFSRIFLKEKMGRLGLAALILVSVGLV 141
                              **************************99986 PP

  == domain 2  score: 26.1 bits;  conditional E-value: 1.1e-09
                      TPT  16 vfnilnKkilnvfpyPltvsavqllvgsvlilvlwalglkkrpkisseflkailpla.lvktlghvlavvslskvaVSfthtvKas 100
                              ++ il +k l+++p       vql +g vl+++ ++ + +++ +i    +  i+ +a l+ +++  l    l+k++ S + ++ ++
  PHY93_14855|PHY93_14855 168 LYIILSRKYLRLVPALPSSFYVQLGAGGVLSFINFSGHPNRAVEILILHFPLIMAMAvLCSLMAMTLFLAGLQKITSSEASILSTT 253
                              5667788888888544444579***********************99988888777725888899999999*************** PP

                      TPT 101 ePiFtvilsrlllgeklsllvyls.LlpivgGvalas 136
                              ePiF vi+++ llge++++  ++  +l+++g +++a+
  PHY93_14855|PHY93_14855 254 EPIFGVIIATTLLGESIQTVQVIGgILILIGMIIIAT 290
                              ***************9877666651555555566665 PP

>> PUNUT  Purine nucleobase transmembrane transport
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.8  10.4   0.00073       3.3      72     147 ..      69     145 ..      50     202 .. 0.78
   2 ?    9.7   6.7   9.6e-05      0.43      64     148 ..     209     291 ..     195     292 .] 0.86

  Alignments for each domain:
  == domain 1  score: 6.8 bits;  conditional E-value: 0.00073
                    PUNUT  72 kklvllyivlGll.vavdnllyslgllylpvstfslilatqLaFtaifsalinkqkftrfiinsvvlltisaallal 147
                              +  ++++++lGl  +a+ + +y ++l+ +++s   l+l t  ++  ifs+++ k k+ r+ + +++l++++ + l+ 
  PHY93_14855|PHY93_14855  69 RFEIICSLLLGLFgYALFSSFYFMALTGISASLTVLLLYTYPVMVTIFSRIFLKEKMGRLGLAALILVSVGLVGLVW 145
                              34456777888764788899***********************************************9999776553 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 9.6e-05
                    PUNUT  64 ttssslslkklvllyivlGllvavdnllyslgllylpvstfslilatqLaFtaifsalinkqkftrfiinsvvlltisaallals 148
                                +  ++ + l+++  vl+ l+a+  +l   gl+++  s +s++++t  +F  i++  +    +  + ++  +l+ i++ ++a++
  PHY93_14855|PHY93_14855 209 AVEILILHFPLIMAMAVLCSLMAMTLFL--AGLQKITSSEASILSTTEPIFGVIIATTLLGESIQTVQVIGGILILIGMIIIATK 291
                              456677888999**********997666..688**********************************************999865 PP

>> TMEM234  Putative transmembrane family 234
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.2   4.2   0.00054       2.4      39     112 ..      64     140 ..      48     144 .. 0.82
   2 ?    7.1   2.8    0.0012       5.3      48     115 ..     222     288 ..     204     289 .. 0.73

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.00054
                  TMEM234  39 kflllrlkyliplllNqsg....SvlfflllgkadlslavpiaNslafvfTvltelllgekvlkkktvlgmllvvvgi 112
                               f+l+r++ + +lll + g    S ++f++l+ ++ sl+v +  +  +++T+    +l+ek+ +   ++ ++lv vg+
  PHY93_14855|PHY93_14855  64 LFTLSRFEIICSLLLGLFGyalfSSFYFMALTGISASLTVLLLYTYPVMVTIFSRIFLKEKMGRLG-LAALILVSVGL 140
                              467788888888888888755557789**********************************98764.55666776665 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0012
                  TMEM234  48 liplllNqsgSvlfflllgkadlslavpiaNslafvfTvltelllgekvlkkktvlgmllvvvgialc 115
                              ++++l  +++  lf + l+k+  s a++++ + + +f v+++++l  + +++ +v+g +l+++g++++
  PHY93_14855|PHY93_14855 222 AMAVLCSLMAMTLFLAGLQKITSSEASILS-TTEPIFGVIIATTLLGESIQTVQVIGGILILIGMIII 288
                              455566777888999999999988777655.6677888888755555566667788889999999987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (292 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       910  (0.0507558); expected 358.6 (0.02)
Passed bias filter:                      281  (0.0156729); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.62u 0.27s 00:00:00.89 Elapsed: 00:00:00.46
# Mc/sec: 1901.94
//
Query:       PHY93_14860|PHY93_14860  [L=112]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (112 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       704  (0.039266); expected 358.6 (0.02)
Passed bias filter:                      419  (0.02337); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.25s 00:00:00.70 Elapsed: 00:00:00.44
# Mc/sec: 758.41
//
Query:       PHY93_14865|PHY93_14865  [L=232]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.8e-31  109.2  11.1    3.2e-31  109.0  11.1    1.0  1  DUF481    Protein of unknown function, DUF481


Domain annotation for each model (and alignments):
>> DUF481  Protein of unknown function, DUF481
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  109.0  11.1   1.8e-35   3.2e-31       2     209 ..      25     231 ..      24     232 .] 0.96

  Alignments for each domain:
  == domain 1  score: 109.0 bits;  conditional E-value: 1.8e-35
                   DUF481   2 elGlslktGNtettslnaalk.lkrrtgrwrlslkaeyeygesngettaekyrvslqydyklserlylfalgsyetDrfsgldsra 86 
                              elG+ + +GN++++s+na+ +  +   + ++l++ ++y+++++++ ++a+ ++  l+yd+ l+erl +f+    e D+++g+++++
  PHY93_14865|PHY93_14865  25 ELGILIAKGNSDSESWNAKETaGTTFDEFNSLKFTGRYLQTKTKSIENARYWSTGLRYDRSLNERLGIFIGEMVESDKYAGYNQKY 110
                              89****************98845666669999****************************************************** PP

                   DUF481  87 tlgaGlGyrlidtdktklsleaGpgyrytkytdeeeeedeeevilrlsldyeykisdnvsftqdlevevnleggsnttlrsetglt 172
                                 +G++y li++ k  +++e+G+ y+ ++   +    +++   +r+ ++ ++ ++++vs +  +e+++n++ +s+++++se+++t
  PHY93_14865|PHY93_14865 111 NSDIGARYSLIKEAKLIWDAELGYRYTIENQIVG---AQKKLNYARGFTEATKYWMESVSTKFWFEYLPNFTTASDYQMNSELSIT 193
                              *****************************99999...999999******************************************* PP

                   DUF481 173 vkltdalslkisyevdydsdppegk.kktDtrlsvsLv 209
                              + l++ +s+k+ y ++yd+ p  g   ktDt +++ Lv
  PHY93_14865|PHY93_14865 194 AALNNVFSVKTGYLLRYDNLPNTGAvAKTDTLFTTALV 231
                              ***********************5559*******9997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (232 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       346  (0.0192983); expected 358.6 (0.02)
Passed bias filter:                      213  (0.0118802); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.25s 00:00:00.70 Elapsed: 00:00:00.42
# Mc/sec: 1643.31
//
Query:       PHY93_14870|PHY93_14870  [L=197]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0053   17.4   0.9      0.014   16.1   0.8    1.8  1  CxxCxxCC  Putative zinc- or iron-chelating domain


Domain annotation for each model (and alignments):
>> CxxCxxCC  Putative zinc- or iron-chelating domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.8   7.7e-07     0.014       1      67 [.      40     135 ..      40     163 .. 0.67

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 7.7e-07
                 CxxCxxCC   1 eCkeC.gaCCk................elkvklteedlerlkaaevaeeeeeskkiak............................ 41 
                              +C +C g+CC+                                     + e +++  +                            
  PHY93_14870|PHY93_14870  40 HCFNCsGTCCTfsansmqitpieafeiL-------------------ISLEVTEHNLSdlkaalqkniqdyrldheiflgkkinsi 106
                              6**********66433333333333330...................222222222222223456677777777777888888889 PP

                 CxxCxxCC  42 ..adgrCvfldeetklCkiYe.eRpkicr 67 
                                ++  C+f+   +k C+i +  +p  c 
  PHY93_14870|PHY93_14870 107 lrKTYTCPFFVAGSKGCTIKKdLKPYGCL 135
                              99999*******99****96645677765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (197 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       826  (0.0460706); expected 358.6 (0.02)
Passed bias filter:                      442  (0.0246528); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.45
# Mc/sec: 1314.52
//
Query:       PHY93_14875|PHY93_14875  [L=348]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.5e-25   86.9   2.8    1.1e-24   86.4   2.8    1.3  1  ADH_N            Alcohol dehydrogenase GroES-like domain
    1.7e-19   70.1   0.0    2.8e-19   69.4   0.0    1.3  1  ADH_zinc_N       Zinc-binding dehydrogenase
      1e-06   28.2   0.0    1.6e-06   27.6   0.0    1.2  1  AlaDh_PNT_C      Alanine dehydrogenase/PNT, C-terminal domain
    4.5e-05   22.9   0.0    7.2e-05   22.2   0.0    1.2  1  2-Hacid_dh_C     D-isomer specific 2-hydroxyacid dehydrogenas
     0.0011   19.2   0.0     0.0017   18.5   0.0    1.3  1  NAD_binding_2    NAD binding domain of 6-phosphogluconate deh
     0.0014   18.1   0.0     0.0022   17.5   0.0    1.2  1  Glu_dehyd_C      Glucose dehydrogenase C-terminus
     0.0084   16.2   0.0      0.013   15.5   0.0    1.3  1  Shikimate_DH     Shikimate / quinate 5-dehydrogenase
  ------ inclusion threshold ------
      0.011   16.2   0.0      0.025   15.0   0.0    1.6  2  NAD_binding_7    Putative NAD(P)-binding
       0.09   13.0   0.0       0.16   12.2   0.0    1.4  1  Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding doma


Domain annotation for each model (and alignments):
>> ADH_N  Alcohol dehydrogenase GroES-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.4   2.8   5.7e-28   1.1e-24       1     108 [.      28     144 ..      28     145 .. 0.92

  Alignments for each domain:
  == domain 1  score: 86.4 bits;  conditional E-value: 5.7e-28
                              TTEEEEEEEEEEE-HHHHHHHTTSTTTTSSSSEE---EEEEEEEEESTT-CS--TT-EEEE-SEEE.-SSSHHHHTT-GGG-TTBE CS
                    ADH_N   1 pgevlikvkaagiCgsDlhilkggkelevklplilGHEivGeveevgpevkklkvGdrVvveplis.cgeCaaCkegeenlCeeak 85 
                              p+++li++ ++g+C+sD+h +k+ ++    +p+++GHEivG v ++g++v+k+kvGd   v +l+  c  Ca+C+eg++++C +++
  PHY93_14875|PHY93_14875  28 PNDILIEIDYCGVCHSDIHQVKN-EWGASVYPMVPGHEIVGHVTKIGSNVSKFKVGDLAGVGCLVDsCRICANCQEGYQQFCLNGS 112
                              589*******************9.8999**********************************99988***************8888 PP

                              ETTTS.........S-SSSBSEEEECGGGEEE CS
                    ADH_N  86 llgvs.........ldGgfaeyvvvpekklvk 108
                              + +++         + Gg+++ +v++e++++k
  PHY93_14875|PHY93_14875 113 VGTYNsiekdgvtrTFGGYSKSIVLSEDFALK 144
                              88887888888888999999999999988776 PP

>> ADH_zinc_N  Zinc-binding dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.4   0.0   1.4e-22   2.8e-19       1     126 [.     186     306 ..     186     309 .. 0.94

  Alignments for each domain:
  == domain 1  score: 69.4 bits;  conditional E-value: 1.4e-22
                              HHHHHHHHHHHHTT-EEEEEESSHHHHHHHHHTTESEEEETTTCHHHHHHHHHTTTSSEEEEEESSCSHHHHHHHHHCEEEEEEEE CS
               ADH_zinc_N   1 gvGlaavqlAkalGaeviavdsseeklelakklGadevinykeadlverikeltggegvdvvfecvGsgatleaalkllkpgGrlv 86 
                              g+G++av++A+ +Ga+v++ ++s +k e a +lGa+e   + + ++++ ++ + g  ++d+++++v +++ l+ +l+llk+ G +v
  PHY93_14875|PHY93_14875 186 GLGHMAVKFAHSFGATVTVFSRSISKKEDAIRLGATEMALT-T-NPESLLATHAG--KFDFIIDTVSAPHDLNLYLRLLKREGIMV 267
                              89********************************9999999.3.69999999994..9**************************** PP

                              ECSCTSSEEEEEHHHHHHTT-EEEEE-SSCHHHHHHHHHH CS
               ADH_zinc_N  87 vvGggkgeeefdlrnlllkeksilGsllgslreefkeald 126
                              +vG++  + ++ ++nl++ +k++ Gsl g+   e +e+ld
  PHY93_14875|PHY93_14875 268 LVGLPDVPPQIEVGNLIFGRKTLAGSLIGG-IPETQEMLD 306
                              ******************************.677777765 PP

>> AlaDh_PNT_C  Alanine dehydrogenase/PNT, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.6   0.0   7.9e-10   1.6e-06      30     102 ..     178     250 ..     172     254 .. 0.95

  Alignments for each domain:
  == domain 1  score: 27.6 bits;  conditional E-value: 7.9e-10
                              EEEEESTSHHHHHHHHHHHHTT-EEEEEESSHHHHHHHHHTTTCECEEHCHHHHHHHHHHHH-SEEEE---BT CS
              AlaDh_PNT_C  30 kvlviGgGvaGlqAiatakglgakVtvlDvrparleqleslgakfvevlksqeellaeavkeadvvigtvlip 102
                              kv v+G G  G  A++ a+++ga+Vtv+  +++++e    lga+ + + ++ e+lla ++ + d +i tv  p
  PHY93_14875|PHY93_14875 178 KVGVVGLGGLGHMAVKFAHSFGATVTVFSRSISKKEDAIRLGATEMALTTNPESLLATHAGKFDFIIDTVSAP 250
                              899******************************************************************9876 PP

>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.2   0.0   3.6e-08   7.2e-05      36      83 ..     176     223 ..     167     234 .. 0.87

  Alignments for each domain:
  == domain 1  score: 22.2 bits;  conditional E-value: 3.6e-08
                              TSEEEEES-SHHHHHHHHHHHHTT-EEEEESSSHHHHHCHHHHTCEEC CS
             2-Hacid_dh_C  36 gktvGiiGlGrIGqavakrlkafgmkviaydrskkkeeeeeelgvelv 83 
                              g++vG++GlG +G+ + k +++fg+ v++++rs +k+e++ +lg++ +
  PHY93_14875|PHY93_14875 176 GQKVGVVGLGGLGHMAVKFAHSFGATVTVFSRSISKKEDAIRLGATEM 223
                              89*******************************998887766666544 PP

>> NAD_binding_2  NAD binding domain of 6-phosphogluconate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.5   0.0   8.7e-07    0.0017       1      70 [.     178     254 ..     178     267 .. 0.84

  Alignments for each domain:
  == domain 1  score: 18.5 bits;  conditional E-value: 8.7e-07
                              EEEEE--SHHHHHHHHHHHHTT-EEEEE-SSHHHHHHHHHTT...EEE-SSHHHHHHHC....SEEEE-SSSHHHHH CS
            NAD_binding_2   1 kigfiGlGvMGsnmalnllkagykvavynrtkekveelvaeg...akaaesieelvasl....dvvitmvkagkavd 70 
                              k+g++GlG +G+  ++   + g +v+v+ r+ +k e+++  g   + +++++e+l+a+     d++i  v+a ++ +
  PHY93_14875|PHY93_14875 178 KVGVVGLGGLGHMAVKFAHSFGATVTVFSRSISKKEDAIRLGateMALTTNPESLLATHagkfDFIIDTVSAPHDLN 254
                              69*********988888899****************99999877766777888777766677899999998887765 PP

>> Glu_dehyd_C  Glucose dehydrogenase C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.0   1.1e-06    0.0022      34     136 ..     179     275 ..     170     294 .. 0.79

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 1.1e-06
              Glu_dehyd_C  34 alvlGaGslGLLalalleaeerglervyvlgrrdrpdptidlveelGatYvdsretpvdeipeaseemdlvvEaTGsakhafeaie 119
                              + v+G G lG +a+  +++ + g  +v+v+ r    +++ d + +lGat +   ++p + ++    ++d+++++  +++ +   ++
  PHY93_14875|PHY93_14875 179 VGVVGLGGLGHMAV-KFAH-SFGA-TVTVFSRSI--SKKEDAI-RLGATEMALTTNPESLLATHAGKFDFIIDTVSAPHDLNLYLR 258
                              66999999**9994.4543.3444.578888754..4555555.7*******9999999999999********99999999999** PP

              Glu_dehyd_C 120 alapnGvaaLlGvpeds 136
                               l+ +G+++L+G+p   
  PHY93_14875|PHY93_14875 259 LLKREGIMVLVGLPDVP 275
                              *************9643 PP

>> Shikimate_DH  Shikimate / quinate 5-dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   6.7e-06     0.013      12      88 ..     176     252 ..     171     279 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 6.7e-06
                              T-EEEEES-SHHHHHHHHHHHCCT-CEEEEEESSHHHHHH.HHHHHT.ET-EEEEGCGHHHHHHT-SEEEE-SSSSS- CS
             Shikimate_DH  12 ekkvlliGaGemaelvakhLlakgvkkvvvaNRtlerake.laeelkgeeiealkleelkellaeadvvisataseep 88 
                              ++kv ++G G +++ ++k  ++ g++ v+v+ R++++ ++ ++    +  +++ + + l ++  ++d +i  +++++ 
  PHY93_14875|PHY93_14875 176 GQKVGVVGLGGLGHMAVKFAHSFGAT-VTVFSRSISKKEDaIRLGATEMALTTNPESLLATHAGKFDFIIDTVSAPHD 252
                              589**********************9.********98876144444555666777777999999******99999875 PP

>> NAD_binding_7  Putative NAD(P)-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   0.0   1.2e-05     0.025       7      89 ..     176     267 ..     174     280 .. 0.69
   2 ?   -3.4   0.0       6.9   1.4e+04      30      44 ..     314     325 ..     312     338 .. 0.67

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 1.2e-05
            NAD_binding_7   7 gkkvlvvGgGevAarkvrklleagakvtvvapevkeeleelvklaeee.........l.ekdlegadlviaatddrelneriaeaa 82 
                              g+kv vvG G ++   v+   ++ga+vtv +  ++++ e+ ++l  +e         l   +  ++d++i +++ ++  +   ++ 
  PHY93_14875|PHY93_14875 176 GQKVGVVGLGGLGHMAVKFAHSFGATVTVFSRSISKK-EDAIRLGATEmalttnpesLlATHAGKFDFIIDTVSAPHDLNLYLRLL 260
                              68999****************************6444.555555433311111112222455667778887777766666666666 PP

            NAD_binding_7  83 karrilv 89 
                              k+++i+v
  PHY93_14875|PHY93_14875 261 KREGIMV 267
                              6666665 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 6.9
            NAD_binding_7  30 gakvtvvapevkeel 44 
                              g+++ ++ap     +
  PHY93_14875|PHY93_14875 314 GCDIELIAPSR---I 325
                              78999999983...3 PP

>> Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   8.1e-05      0.16       1      82 [.     179     252 ..     179     259 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 8.1e-05
                              EEEE--SHHHHHHHHHHHCTCCT-GEEEEEESSHHHHHHHHCHHTTTCEEEEE--TTTHHHHHHHHHTTSSEEEE-SSGGGH CS
          Sacchrp_dh_NADP   1 vliiGaGsvGqavaellarhfdvdaeitvadrskeklealaakalgvrfeaialdaenyeavLaallkegdlvvnlsppiss 82 
                              v ++G G+ G+ +++  +  +    ++tv +rs +k e ++    +  ++ +al+  n+e++La +  + d++++ +    +
  PHY93_14875|PHY93_14875 179 VGVVGLGGLGHMAVKFAHSFGA---TVTVFSRSISKKEDAI----RLGATEMALTT-NPESLLATHAGKFDFIIDTVSAPHD 252
                              6799*******99988777665...6**********66665....67889999986.55666*************9877655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (348 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       408  (0.0227564); expected 358.6 (0.02)
Passed bias filter:                      308  (0.0171789); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.43
# Mc/sec: 2411.69
//
Query:       PHY93_14880|PHY93_14880  [L=1022]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.7e-51  175.1   0.0    2.5e-51  174.6   0.0    1.2  1  Pyridoxal_deC    Pyridoxal-dependent decarboxylase conserved 
    3.3e-17   62.9   5.1    1.8e-16   60.5   5.1    2.0  1  FGE-sulfatase    Sulfatase-modifying factor enzyme 1
    3.2e-05   24.4   0.2    6.4e-05   23.5   0.2    1.5  1  DinB_2           DinB superfamily
  ------ inclusion threshold ------
      0.036   13.0   0.0      0.071   12.0   0.0    1.4  1  Aminotran_5      Aminotransferase class-V
       0.04   13.2   0.0      0.072   12.4   0.0    1.3  1  Beta_elim_lyase  Beta-eliminating lyase
       0.47   10.3   2.0        2.2    8.1   0.1    2.2  2  RNA_pol_Rpb1_6   RNA polymerase Rpb1, domain 6


Domain annotation for each model (and alignments):
>> Pyridoxal_deC  Pyridoxal-dependent decarboxylase conserved domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  174.6   0.0   8.3e-55   2.5e-51       9     373 ..     611     962 ..     606     964 .. 0.94

  Alignments for each domain:
  == domain 1  score: 174.6 bits;  conditional E-value: 8.3e-55
                              CSSHHSSHH.HHHHHHHHHHCTGGGS--TTSTTBHCSSH....HHHHHHHHHHHHHT-BTSSTTTSHHHHHHHHHHHHHHHHHTT- CS
            Pyridoxal_deC   9 deaapekaesleqilediekilapgvttwhspefhkllpagnslisllgdlLadainkngftweesPaltelevvvldwlaellgl 94 
                               +++pe++e+ +++l+ i + +ap  +   +p f +++    + is  ++l+a++ n     +  +P l++le+ v++w   l+gl
  PHY93_14880|PHY93_14880 611 TKNFPERPENYNALLKLIFNEMAPLSQLPGHPGFAAYVAGSGNTISNTAQLIAQTLNPFTGHYMMAPGLVALEQEVIKWFIGLMGL 696
                              5789************************999******************************************************* PP

                              -GGGTCCT-EEEEESSHHHHHHHHHHHHHHHHHHHHHHHTTTS.HHHHHCCEEEEEETTS-HHHHHHHHHHT-E...EEEE--BTT CS
            Pyridoxal_deC  95 peeflekegggvlqvgssestllallAartkvikemkekgkelkeaeildklvlytsdqahssvekaalvlgvk...lrviplden 177
                                   ek++ g l++g+s +t+ al+ ar ++++ +            + k   y s++ah +v ka  +lg+k   lr++++ + 
  PHY93_14880|PHY93_14880 697 N----EKSALGYLTTGGSSATMNALIMARLNKLEGYD-----------YSKVTGYMSSEAHHCVAKAWVMLGFKkenLRLVKTVH- 766
                              9....44578*******************88765544...........557889********************9********96. PP

                              TBB-HHHHHHHHHHHHCTT.EEEEEEEEBS-TTT-BB--HHHHHHHHHHCT-EEEEE-TTGGGGGGSGGGGGGGTTGGGESEEEEE CS
            Pyridoxal_deC 178 gklrgaalekaieedkekGlipffvvatlGttvlgaFddlkelgdicekydlwlHvDAAyaGsaficpeirhllkgieradSitvn 263
                              +k+  a+l+k i +dk +Gl+pff v t+Gtt +g+ d l+ l+d+ +k++lwlH D Ay+   ++  + r ll+gieradSi++ 
  PHY93_14880|PHY93_14880 767 YKMDIAELKKVIANDKTQGLTPFFLVGTVGTTKTGSVDALDALADVAAKENLWLHADGAYGALFMLTGKGRDLLRGIERADSIALD 852
                              99***********************************************************98888999***************** PP

                              CCCCTS--SS-EEEEESSCCGCHHHH-EEECCCT.TTTTTSEECCCGSSSSSGHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
            Pyridoxal_deC 264 phKlllvlldcsalivkdkealqqalqleaeYLehedsdvaadlgtkaiplsrrvrilklwfvlralGveglqnqirksvelakyl 349
                              phK l ++ + ++l+vkd +++    + +  Y+  +      d+ +   +lsr  r l++w+ +++lG+  +   +++ ++l+  l
  PHY93_14880|PHY93_14880 853 PHKALSIPYGTGCLLVKDGSNMSFDYISDDSYMPPKPTMGDHDYADISPELSRDYRGLRVWLPIKTLGIAPFILNLEEKLNLSTWL 938
                              *********************************96556567999****************************************** PP

                              HHHHHTTTTEEECSTTBSSEEEEE CS
            Pyridoxal_deC 350 eklirkderfeivaevelglVcFr 373
                               ++++k e+  +v+ +el+  +F 
  PHY93_14880|PHY93_14880 939 CEELKKIEDLVVVSAPELTIQAFA 962
                              **********99999999887775 PP

>> FGE-sulfatase  Sulfatase-modifying factor enzyme 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.5   5.1     6e-20   1.8e-16      12     259 ..     258     512 ..     247     513 .. 0.74

  Alignments for each domain:
  == domain 1  score: 60.5 bits;  conditional E-value: 6e-20
                              EEEES-...TSTTGGCCC-S-EEEEES-EEEESS--BHHHHHHHHHHH....H................SSETTEEEEETSCTTBC CS
            FGE-sulfatase  12 sfemGs...eektandeeapahevtvraFaidkteVTnaqyaafveatgyete................aasqwwaeveganvrhp 78 
                              ++ +G+    +   +d+e+  + v+ ++F  +k+++Tn++y +fv++  y+++                + + +w  v  +   + 
  PHY93_14880|PHY93_14880 258 KVVVGKsksIPSFGWDNEYGERIVNTKDFQYTKFQITNREYLNFVASGAYVNNsywreegvlwrkfrntKRPTFWCGVGPEGSHEY 343
                              555566554566789999999**************************999999999***********9866777777766655555 PP

                              CTTC-..SSTT-TTSB--S--HHHHHHHHHHHCHHHT......S-EE---HHHHHHHHHTT-SSSSCTTBSTTSCCGB...SSTTT CS
            FGE-sulfatase  79 egrks..dikkradhPvvhVsweDavaYArwlgkktg......egyrLPteaEweyAArggkkgreypwgdelkpakniwqGslak 156
                              e r     i  + ++Pv+ V++ +avaY +w++++ +        yrL teaE+    r+++++++ + +            +++k
  PHY93_14880|PHY93_14880 344 ELRTIfeFIPMPWNWPVE-VNFHEAVAYSNWMNEQDKkkskakVHYRLMTEAEYD-SLRASQQDEVLQKKHF-A--------EYKK 418
                              544431146678899*86.7**************87799999999*********9.7888665554443333.3........2445 PP

                              TB--TTCGGS-SS.---TT-S-B-TTS-B-TTCSSEEEEEEE--...THCCH-.SSCS----SS-SSEEEEC--TTS.TTGGCTST CS
            FGE-sulfatase 157 fekeaaaadsqngrtspvgsfppnalGlyDmaGNvwEWtsdwyk...kyalap.aeelsqeaekgelrvvkGgswlkaelssllra 238
                              f++ +++ +   +  sp +          ++aGN+w W+ d ++   +++ ++ +++ s++ ++g+++++ Ggs++++   + +r 
  PHY93_14880|PHY93_14880 419 FNEFKPNFNFLWS--SPENVT-------EELAGNTWHWMEDQFNplpNFEINSlYDDFSTPCFDGKHQMILGGSFISTG-TEASRY 494
                              5555554333333..333333.......369*************99877766569999******************984.444333 PP

                              T-E.EEE-TT--BTTEEE--E CS
            FGE-sulfatase 239 afrasaetpdtaasdvGfRlv 259
                              a r+++     ++++ GfR++
  PHY93_14880|PHY93_14880 495 A-RFHFR--PHFNQHSGFRMA 512
                              3.33552..456789999987 PP

>> DinB_2  DinB superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.5   0.2   2.1e-08   6.4e-05       2     127 ..      71     215 ..      70     216 .. 0.81

  Alignments for each domain:
  == domain 1  score: 23.5 bits;  conditional E-value: 2.1e-08
                   DinB_2   2 lerararllalledlteeelnrqps..pgkwsiawllaHlgnveelllerlr...................geeap...rpgldpl 63 
                              ++ ++  ++ l+++l +ee   +p+  +++++++ +++H +      l+ +                    +       + + ++ 
  PHY93_14880|PHY93_14880  71 FNNSWTLTELLFQGLKTEEVYKRPPyhGLRHPLIFYYGHPAVLYLNKLRLAGfypdpinlylekvletgvdE---MswdDMAKNEM 153
                              56789999*******99999988855699**********999444444333356777766666555553332...14446777888 PP

                   DinB_2  64 tppsaaealaylaevrarllallealtdadldrpltaphpglgkltlgdvllfvlqHeqhHleq 127
                              ++p ++ ++ay++ v+  + +++++ +d d+ ++   +  +l + +  ++l++  +He  H e+
  PHY93_14880|PHY93_14880 154 EWPCVNAVHAYRKIVYTLVSQTIKTHPDLDFLNHADGN--KLLQNSPWWALWMGMEHEKIHFET 215
                              88******************************999999..*********************997 PP

>> Aminotran_5  Aminotransferase class-V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   2.4e-05     0.071      94     215 ..     738     870 ..     694     885 .. 0.72

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 2.4e-05
                              ETTSHGGGTHHHHHHHHHHTEEEEEEEBETTSCBEGGGHHHH--.TTEE.....EEEEESBETTTTEB--HHHHHHHHHHTT-EEE CS
              Aminotran_5  94 teaehhanlvpwqelakrtgakvkvipldeegeldldeleklln.ektk.....lvaithvsnvtGtiqpveeigklakkkgalvl 173
                              ++  hh+   +w++l  +++ +++ ++   + ++d+ el+k ++ +kt+      +  t   + tG ++ +++++++a k++ +++
  PHY93_14880|PHY93_14880 738 SSEAHHCVAKAWVMLG-FKKENLRLVKT-VHYKMDIAELKKVIAnDKTQgltpfFLVGTVGTTKTGSVDALDALADVAAKENLWLH 821
                              4456999999*****9.88999988887.78899*********547777333323455778899********************** PP

                              EE-TTTTTTS--....-.HHHH.TESEEEEETTT.TTSSTT-EEEEEEH CS
              Aminotran_5 174 vDaaqavghipi....d.vkkl.gvDflafsghK.llgPtGiGvlyvrk 215
                              +D+a +++ +      d ++ +  +D +a+  hK l  P G+G l v++
  PHY93_14880|PHY93_14880 822 ADGAYGALFMLTgkgrDlLRGIeRADSIALDPHKaLSIPYGTGCLLVKD 870
                              ****887544321111213444358999999999889999999999987 PP

>> Beta_elim_lyase  Beta-eliminating lyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   2.4e-05     0.072      98     213 ..     759     871 ..     714     898 .. 0.71

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 2.4e-05
                              EEEE-EBTTTBE-HHHHHHHS--S-T.TS-EEEEEEEESSBTTTTTB---HHHHHHHHHHHHHCT-EEEEEETTHHHHHHHHTS-C CS
          Beta_elim_lyase  98 lrdlknkeaGkmdlekleaaikevga.heekiklisltvTnntagGqvvsleelrevaaiakkygiplhlDgARfanaakslgeiv 182
                              lr +k+ +  kmd+++l+++i++++     +  l+ +  T++       s++ l+++a++a k+++ lh DgA  + a   l  + 
  PHY93_14880|PHY93_14880 759 LRLVKTVH-YKMDIAELKKVIANDKTqGLTPFFLVGTVGTTK-----TGSVDALDALADVAAKENLWLHADGA--YGALFMLTGKG 836
                              45555555.89************7773233333444444444.....46889999*****************9..45554444444 PP

                              HHHH...TTSSEEEEESSSTT--SS-.EEEEE-HH CS
          Beta_elim_lyase 183 kemf...syvDsvtmslkKdllanvG.gvlafrdd 213
                              ++++   + +Ds+ +   K l+++ G g l+++d 
  PHY93_14880|PHY93_14880 837 RDLLrgiERADSIALDPHKALSIPYGtGCLLVKDG 871
                              44443336677777777777777777655555554 PP

>> RNA_pol_Rpb1_6  RNA polymerase Rpb1, domain 6
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   0.2     0.092   2.8e+02      37      71 ..     370     404 ..     354     426 .. 0.70
   2 ?    8.1   0.1   0.00074       2.2     129     186 ..     945    1019 ..     929    1020 .. 0.76

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.092
                              -TTTSSSHH..HHTT-TTHHHHHHHHHHHHHHHHH CS
           RNA_pol_Rpb1_6  37 lkelleeevveeiredaelqelldeEyeqLkedRe 71 
                               +++++e+ +++ + +++++ + ++Ey+ L++ ++
  PHY93_14880|PHY93_14880 370 YSNWMNEQDKKKSKAKVHYRLMTEAEYDSLRASQQ 404
                              33799999999999999999999999999987653 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.00074
                               HTT--SS-S................SSHHHHHHHHH.TTTHHHHHHHHTS-HHHHHHTS---HHHHHHHHHHHHH CS
           RNA_pol_Rpb1_6  129 ldklvvvrg................ddklskeaqen.atllfkillrstLasKrvleeyrLskeaFdwllgeies 186 
                               +++lvvv+                 + +l k+ ++   ++l ++ll  +La + +l  yr + e ++  ++ei++
  PHY93_14880|PHY93_14880  945 IEDLVVVSApeltiqafahkkgdeaTRELMKKINTKgTLFLSSCLLEGHLAIRVCLLGYRVHYERLQTAVNEIRQ 1019
                               5677777766666666667776766555555555550556778******************************86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1022 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       616  (0.0343577); expected 358.6 (0.02)
Passed bias filter:                      446  (0.0248759); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.87u 0.30s 00:00:01.17 Elapsed: 00:00:00.56
# Mc/sec: 5540.28
//
Query:       PHY93_14885|PHY93_14885  [L=201]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      2e-24   86.3   0.0    2.2e-24   86.1   0.0    1.0  1  Aminotran_5      Aminotransferase class-V
    3.1e-08   33.2   0.0      4e-08   32.8   0.0    1.1  1  Aminotran_1_2    Aminotransferase class I and II
    7.2e-06   25.5   0.0      8e-06   25.4   0.0    1.1  1  DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
    6.2e-05   21.7   0.0    7.3e-05   21.5   0.0    1.0  1  Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
  ------ inclusion threshold ------
        0.1   11.3   0.0       0.11   11.1   0.0    1.1  1  SepSecS          O-phosphoseryl-tRNA(Sec) selenium transferas


Domain annotation for each model (and alignments):
>> Aminotran_5  Aminotransferase class-V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.1   0.0   6.1e-28   2.2e-24      40     189 ..      55     201 .]      28     201 .] 0.96

  Alignments for each domain:
  == domain 1  score: 86.1 bits;  conditional E-value: 6.1e-28
                              HHHHHHHHHHHHHHHHHT-STGGGEEEESSHHHHHHHHHHHCCCC-TTTSEEEEETTSHGGGTHHHHHHHHHHTEEEEEEEBETTS CS
              Aminotran_5  40 eatkaveearekvaelinaeseeeiiftsGtteainlvalslarslkpgdeivvteaehhanlvpwqelakrtgakvkvipldeeg 125
                              + ++ v+ ar+ + +li+     ei f ++t++ai+     +   l+  de+++ + e+ +nl pwqe++kr ga++ ++p d++ 
  PHY93_14885|PHY93_14885  55 DYMNDVQHARTSLSKLIGCGH-FEIAFFQSTASAISQLCFHF--PLSSVDEVLTWDQEYASNLYPWQEACKRAGAQLIIVPTDKNF 137
                              5678899*************7.***********999988888..6***************************************** PP

                              CBEGGGHHHH--TTEEEEEEESBETTTTEB--HHHHHHHHHHTT-EEEEE-TTTTTTS---HHH CS
              Aminotran_5 126 eldldelekllnektklvaithvsnvtGtiqpveeigklakkkgalvlvDaaqavghipidvkk 189
                              +  ++++ +++++ktk+vai++v+  tG + ++++++k+ ++k+++++vD+ q++g +p+d+k+
  PHY93_14885|PHY93_14885 138 TTPIEKIIEKITPKTKVVAISWVQFLTGAMTDLKALAKVTREKNIFLFVDSMQGLGLHPFDMKE 201
                              *************************************************************985 PP

>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.8   0.0   1.1e-11     4e-08      70     189 ..      77     189 ..      46     195 .. 0.89

  Alignments for each domain:
  == domain 1  score: 32.8 bits;  conditional E-value: 1.1e-11
                              GEEEESHHHHHHHHHHHHHHHTTT-EEEEEESS-TH....HHHHHHHTTSEEEEEEBEETTTTEE-HHHHHHHHTTHHCTTETEEE CS
            Aminotran_1_2  70 avvvgsGagaliealifllklnpgdeilvpdptyas....yknilrlsggevvryplyseedfhldlealeealkeapegnkktkv 151
                              ++ + + + ++i+ l f + l   de+l  d+ yas     +++++ +g++++ +p++  ++f+  +e+++e+++       ktkv
  PHY93_14885|PHY93_14885  77 EIAFFQSTASAISQLCFHFPLSSVDEVLTWDQEYASnlypWQEACKRAGAQLIIVPTD--KNFTTPIEKIIEKITP------KTKV 154
                              7889999***************************97554479**************77..***************9......**** PP

                              EEEESS-TTT--B--HHHHHHHHHHHHHTTEEEEEEET CS
            Aminotran_1_2 152 ilvesphNPtGtvatleeleklldlakkynlllfvDea 189
                              +++  ++  tG++ +l+ l k+   ++++n++lfvD +
  PHY93_14885|PHY93_14885 155 VAISWVQFLTGAMTDLKALAKV---TREKNIFLFVDSM 189
                              **********************...***********85 PP

>> DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.4   0.0   2.2e-09     8e-06      78     151 ..     119     194 ..      47     198 .. 0.82

  Alignments for each domain:
  == domain 1  score: 25.4 bits;  conditional E-value: 2.2e-09
                              HHHHHTT-EEEEE-B-TTTSSB-GGGCGGG--TTEE..EEEEB-.GGGB---HHHHHHHHHHCT-EEEEE-TT-TT- CS
          DegT_DnrJ_EryC1  78 navlelgakpvfvDvdpdtynidpaaieaaitertk..aIlpVh.lyGqvadmdalkaiaakhglkvieDaAhAlGa 151
                              +a  ++ga+ + v  d + ++   ++i ++it++tk  aI +V  l G++ d++al ++ +++++ ++ D+ ++lG 
  PHY93_14885|PHY93_14885 119 EACKRAGAQLIIVPTD-KNFTTPIEKIIEKITPKTKvvAISWVQfLTGAMTDLKALAKVTREKNIFLFVDSMQGLGL 194
                              5677889999999888.77888999**********6448999994579999************************96 PP

>> Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.0     2e-08   7.3e-05      71     174 ..      79     188 ..      41     198 .. 0.87

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 2e-08
                              EEESSHHHHHHHHHHTT.S-TTEEEEEESTSSHHHHHHHHHTHHHTTCEEEEEST.....TSHHHHHHHCCTTEEEEEEESS-TTT CS
          Cys_Met_Meta_PP  71 lavssGmaAiaaailal.lkaGdeivvsddlYggtqrllkkvlkklgievkfvdt.....sdleelekaikentklvylEtptnpl 150
                                + s  +Ai++  +++ l++ de+++ d+ Y +     ++ +k+ g +  +v t     + +e++ ++i+++tk+v +  +   +
  PHY93_14885|PHY93_14885  79 AFFQSTASAISQLCFHFpLSSVDEVLTWDQEYASNLYPWQEACKRAGAQLIIVPTdknftTPIEKIIEKITPKTKVVAISWVQFLT 164
                              4578889999999998857779***************************9999984344345789999999*************** PP

                              T----HHHHHHHHHHTT-EEEEEG CS
          Cys_Met_Meta_PP 151 lkvvDiekiaklakkagvlvvvDn 174
                                ++D++++ak+++++++ ++vD 
  PHY93_14885|PHY93_14885 165 GAMTDLKALAKVTREKNIFLFVDS 188
                              ***********************7 PP

>> SepSecS  O-phosphoseryl-tRNA(Sec) selenium transferase, SepSecS
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   3.1e-05      0.11     117     192 ..     120     188 ..      66     195 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 3.1e-05
                              HHHCTT-EEEEE-EEECTTEEEEHHHHHHHHHHCCTCCCEEEEEECSSTTTTB----HHHHHHHHHCCT--EEEEG CS
                  SepSecS 117 avelaGleialvekvlegDelitdvedveeiiekkreevilavlstlsffaprspDdvkeiakiCaeydvPhlvNg 192
                              a ++aG ++++v++ ++     t    +e+iiek+ + + ++ +s ++f ++ + D +k++ak+  e ++ + v +
  PHY93_14885|PHY93_14885 120 ACKRAGAQLIIVPTDKN---FTT---PIEKIIEKITPKTKVVAISWVQFLTGAMTD-LKALAKVTREKNIFLFVDS 188
                              66777777777776433...233...478999999999999***************.**********999888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (201 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       596  (0.0332422); expected 358.6 (0.02)
Passed bias filter:                      527  (0.0293937); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.57u 0.27s 00:00:00.84 Elapsed: 00:00:00.49
# Mc/sec: 1238.35
//
Query:       PHY93_14895|PHY93_14895  [L=468]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
      0.026   14.7   0.0      0.059   13.6   0.0    1.5  1  Suppressor_P21  RNA silencing suppressor P21 C-terminal domai


Domain annotation for each model (and alignments):
>> Suppressor_P21  RNA silencing suppressor P21 C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   3.3e-06     0.059      44      76 ..     240     271 ..     239     274 .. 0.92

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 3.3e-06
           Suppressor_P21  44 qhlSselklevsentFkqnalLrlkkglvkvvs 76 
                              +++S+e+ l+ ++++F+ n+ L +k+ +++ + 
  PHY93_14895|PHY93_14895 240 FRISKEYNLDETIKYFETNSTL-VKMDKLVKWR 271
                              689*******************.****988886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (468 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       625  (0.0348597); expected 358.6 (0.02)
Passed bias filter:                      310  (0.0172904); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.26s 00:00:00.83 Elapsed: 00:00:00.46
# Mc/sec: 3034.06
//
Query:       PHY93_17105|PHY93_17105  [L=233]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    4.8e-29  101.6   0.0    5.3e-29  101.4   0.0    1.0  1  OMPdecase  Orotidine 5'-phosphate decarboxylase / HUMPS famil
  ------ inclusion threshold ------
       0.17   11.9   0.0       0.28   11.2   0.0    1.5  1  DUF4840    Domain of unknown function (DUF4840)


Domain annotation for each model (and alignments):
>> OMPdecase  Orotidine 5'-phosphate decarboxylase / HUMPS family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  101.4   0.0     6e-33   5.3e-29       4     223 ..       7     227 ..       4     229 .. 0.90

  Alignments for each domain:
  == domain 1  score: 101.4 bits;  conditional E-value: 6e-33
                              EEEE-SSSHHHHHHHHHHHGGGSSEEEEEHHHHHHHTHH.HHTHHHHHHHHHT.SEEEEEEEE-S-HHHHHHHHHSTCHHHHTTES CS
                OMPdecase   4 clalDvatarelleladkvgpsivvlKthydlvegwgfegtgaklaalarkhg.flifeDrKfaDIGntvekqatagsarikewad 88 
                              ++alD ++ +e+  ++ + ++   ++K++++l+ ++g      +l+ +++k   ++if+D+K++DI+ tve++++       + +d
  PHY93_17105|PHY93_17105   7 IVALDQMSLDEIDLFLSHPDNTLPIVKIGLELFVKYG-----PDLVHKIHKDYkKKIFLDLKLHDIPVTVERAIH---SLKNLPID 84 
                              89*********9999999999****************.....**********98********************8...577***** PP

                              EEEEEGTGHHHHHHHHHHHHHHTT.S.EEEEEESTSSGGHHHHHH..H..SHHHHHHHHHHHHHHHTTESEEECCCHTHHHHHH.T CS
                OMPdecase  89 ivtvhavaGkasvkalaeaaekwg.nrgllilaqmsskgnlmlqe..k..gytqacveaarehkaedfvmGfvaqetlnateed.a 168
                              ++t+h+  G++++ka++++a+k+  + ++l +  ++s ++ +l+   +  ++++a +      +++++++G++++ ++ ++ ++ +
  PHY93_17105|PHY93_17105  85 FLTIHISGGEEMLKAALNEARKSIpDCKILGVSFLTSLEEKDLKTlfGitNIDEAFLRLFGV-AESSQIDGVICSPHEITLVKKhF 169
                              *********************99767899****************96485566666555555.5578**********995555569 PP

                              TCSCEEEHHHTT...EEEEECTTCCGGGHHHHHHHTTCSEEEESHHHHTSSSHHHHHH CS
                OMPdecase 169 ddfihltpgigl...eqggdgkgqqyntpekligiagadiiivGRgIlkagdpveeae 223
                              + ++++tpgi+        ++++q++  ++k++   gad++++GR+++ka +  e ++
  PHY93_17105|PHY93_17105 170 PRLLVITPGIRFsdeINSQNTQDQKRVATPKDALNLGADFLVIGRSLTKAINLSERLK 227
                              *************99899999*****************************99888776 PP

>> DUF4840  Domain of unknown function (DUF4840)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   3.1e-05      0.28      42      78 ..      77     113 ..      48     135 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 3.1e-05
                  DUF4840  42 tienfPvkdLaksivdeeeelkeaieavgdvtlkvky 78 
                              +++n+P++ L+ +i+++ee+lk+a++++ +    +k+
  PHY93_17105|PHY93_17105  77 SLKNLPIDFLTIHISGGEEMLKAALNEARKSIPDCKI 113
                              689************************9998888777 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (233 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       390  (0.0217525); expected 358.6 (0.02)
Passed bias filter:                      370  (0.020637); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1514.81
//
Query:       PHY93_14900|PHY93_14900  [L=194]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.9e-24   86.0   0.2    2.6e-24   85.5   0.2    1.2  1  Oxidored_q6  NADH ubiquinone oxidoreductase, 20 Kd subunit


Domain annotation for each model (and alignments):
>> Oxidored_q6  NADH ubiquinone oxidoreductase, 20 Kd subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.5   0.2   1.5e-28   2.6e-24      39     130 ..      78     163 ..      54     164 .. 0.84

  Alignments for each domain:
  == domain 1  score: 85.5 bits;  conditional E-value: 1.5e-28
                              HHTHTTTSEEEEEESBE...EEEHHHHHHHHGGGSSEEEEESHHHHH-TGGGSTT-TEE-HHHHHHHC.S-E.EEE-SSS--HHHH CS
              Oxidored_q6  39 ieakekeadvlvveGavtrkpkealellkelaekakaviavGtCAafGGipaaannpsvgeevgellevvpvdinipGCPphpeai 124
                              ++ + ++ d++++ G++t+k+++ l++++++++++k+via+G+CA++GG+++a++    +  v+++++++pvdi+ipGCPp+pea+
  PHY93_14900|PHY93_14900  78 VRFSPRQSDLMIIAGTITEKQAPVLRRIYDQMADPKWVIAMGACASSGGFYRAYH----V--VQGVSRDIPVDIYIPGCPPTPEAV 157
                              34445699*******************************************8888....6..679********************* PP

                              HHHHHH CS
              Oxidored_q6 125 letlla 130
                              l+++++
  PHY93_14900|PHY93_14900 158 LQGIMQ 163
                              ***987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (194 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       393  (0.0219198); expected 358.6 (0.02)
Passed bias filter:                      359  (0.0200234); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.28s 00:00:00.74 Elapsed: 00:00:00.45
# Mc/sec: 1290.81
//
Query:       PHY93_14905|PHY93_14905  [L=563]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
   5.6e-105  350.3   0.0     8e-105  349.8   0.0    1.2  1  Complex1_49kDa  Respiratory-chain NADH dehydrogenase, 49 Kd s
    1.1e-35  122.9   0.2    8.9e-35  120.0   0.1    2.2  2  Complex1_30kDa  Respiratory-chain NADH dehydrogenase, 30 Kd s
  ------ inclusion threshold ------
       0.15   10.9   0.2       0.29   10.0   0.1    1.4  2  NiFeSe_Hases    Nickel-dependent hydrogenase


Domain annotation for each model (and alignments):
>> Complex1_49kDa  Respiratory-chain NADH dehydrogenase, 49 Kd subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  349.8   0.0  1.3e-108    8e-105       1     269 [.     296     563 .]     296     563 .] 0.99

  Alignments for each domain:
  == domain 1  score: 349.8 bits;  conditional E-value: 1.3e-108
                              HTT-HHHHHHHHHHHHHHHHHHHHHHSSSSS-TTBESSBBSS---TTHHHHHHHHHHHHHHHHHHHHHHHHSSSSHHHHHSSSS-B CS
           Complex1_49kDa   1 DlGaltvflyafreRekildlleevtGaRltasyiriGGvarDlpegllekikeflkelekkldeleklltknrifkkRtkgvgvl 86 
                              DlGalt f+++f++Re++++l+e+++GaRlt s +riGG+a++lp g+++++ e++k ++k+++e+++lltkn+if++Rtk v+ +
  PHY93_14905|PHY93_14905 296 DLGALTSFWFCFEQRERVYELFEKLCGARLTVSLTRIGGMAQELPVGWVTDCLEVVKIISKNIEEVDRLLTKNKIFVERTK-VCPI 380
                              9******************************************************************************97.99** PP

                              SHHHHHHHTT-SSSSGGGT-TTTHHHHSS-SSGGGS-------SSBSHHHHHHHHHHHHHHHHHHHHHHHHT--.S-SB---TTTS CS
           Complex1_49kDa  87 skeealelgltGpvlRasGvkyDlRkaepYeaYdeldfdvpvgeegDvydRylvrveEmrqSlkIieqaleklpegpvlaedkkva 172
                              s+e+a+++g+tGp+lRa+Gv+yD+Rka+pY  Y++++f++p+g++gD ydRylvr+eEmrqSl+I++q+l++lp+gp+++ dk+v 
  PHY93_14905|PHY93_14905 381 SAEDAIAWGYTGPCLRAAGVNYDIRKANPYYFYKDVEFEIPIGQQGDNYDRYLVRMEEMRQSLRIVNQVLHNLPSGPYQSLDKRVC 466
                              ************************************************************************************** PP

                              ---GGGGGT-HHHHHHHHHHHHS-----SEEEEEEEEETTEEEEEEEEEESSSS-SEEEEE-HHHHTTTTHHHHTTTS-SGGGTHH CS
           Complex1_49kDa 173 lpkkeevkksmealihhfklvtegfkvpkgevyaavEapkGelgvylvsdgsskpyrlkirapsfvnlqaleellkgellaDvvai 258
                              +p+k+ev++++e l++hf+l+++g++ p ge+y+a+Ea++Gelg+y++sdg+ +pyr+k+r+p+f+ +q+++e++++++++D+va 
  PHY93_14905|PHY93_14905 467 IPPKKEVYTNIEGLMNHFMLIMKGVRPPVGEIYSATEAANGELGFYVISDGGPNPYRVKVRPPCFAIYQSFSEMIQDKMISDAVAE 552
                              ************************************************************************************** PP

                              HHTT---HHHH CS
           Complex1_49kDa 259 lgsldivlgev 269
                              lg ++i++ge+
  PHY93_14905|PHY93_14905 553 LGGMNIIAGEL 563
                              *********95 PP

>> Complex1_30kDa  Respiratory-chain NADH dehydrogenase, 30 Kd subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  120.0   0.1   1.5e-38   8.9e-35       4     119 ..      33     155 ..      30     158 .. 0.90
   2 ?    0.2   0.0      0.18   1.1e+03      84     104 ..     258     278 ..     256     290 .. 0.84

  Alignments for each domain:
  == domain 1  score: 120.0 bits;  conditional E-value: 1.5e-38
                              -HHHHHHHHHHHHH...TT--EEEEEEEEETT.........SSSEEEEEEEE--S-.-EEEEEE....-.S-BEE--TTT-STHHH CS
           Complex1_30kDa   4 epedllevakflkdeeelgfdvlsdltavDek.........eerfevvyhllsleknerirvkvevdee.epevpSvtdlfpgadw 79 
                              + ++ll+va+ lkd  e+gf++l d+++vD++         + rfe vyhll+++knerirv+v vd e  + vpSv+++++gadw
  PHY93_14905|PHY93_14905  33 DTKNLLNVAAKLKD--EFGFNMLLDVCGVDNSqrpkeewphGIRFESVYHLLNMDKNERIRVRVPVDVEaGEMVPSVMPFWKGADW 116
                              568899********..6*************5555666788999******************999996655778************* PP

                              HHHHHHHHSHHBCTTSSTSS-SSSSTTSSS-TTSTTS--- CS
           Complex1_30kDa  80 yEREayDmfGivfeghpdlrrillpedfeghPLRkdfpls 119
                              +EREa+DmfGi + g+++ +r+l++ +f+ghPLRkd+ ++
  PHY93_14905|PHY93_14905 117 FEREAWDMFGISYIGRKK-ERLLTHHEFVGHPLRKDYAAD 155
                              ****************98.69****************876 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.18
                              HHHHSHHBCTTSSTSS-SSSS CS
           Complex1_30kDa  84 ayDmfGivfeghpdlrrillp 104
                              + Dm+Gi+  ++ +  r++l 
  PHY93_14905|PHY93_14905 258 IEDMMGIEIPDRAKALRMVLA 278
                              57*******999988887775 PP

>> NiFeSe_Hases  Nickel-dependent hydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.1   4.9e-05      0.29       3      68 ..     223     288 ..     221     290 .. 0.80
   2 ?   -3.9   0.0      0.77   4.6e+03     186     214 ..     336     375 ..     321     381 .. 0.68

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 4.9e-05
                              HHHHTTTS-GGGHHHHHHTT-SSSTTHHHHHHHHHHHHHHT----HHHHHHHHHHHHHHHHHHHHH CS
             NiFeSe_Hases   3 lElilkgrdprdawalvqRiCGVCttvHalasvravedAlgikipknarlirnliaaalllhdhiv 68 
                              +E++ +++  +++  +++R   +   +  +   +a+ed +gi+ip+ a+ +r ++a    + dh+v
  PHY93_14905|PHY93_14905 223 FEKMCENHLYNQVIPYTDRLNYCSSPMNNIGWCKAIEDMMGIEIPDRAKALRMVLAELSRVIDHLV 288
                              6666666666666666777665556667777789******************************98 PP

  == domain 2  score: -3.9 bits;  conditional E-value: 0.77
                              SSGBGS...........BSHHHHHHHHHHHHHHHHHHHHT CS
             NiFeSe_Hases 186 tcaidl...........lnaerlaevkslikevkefveev 214
                              ++ + +           +  ++++ev++l+++ k fve++
  PHY93_14905|PHY93_14905 336 AQELPVgwvtdclevvkIISKNIEEVDRLLTKNKIFVERT 375
                              4444334444444446666788888888888888888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (563 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       376  (0.0209716); expected 358.6 (0.02)
Passed bias filter:                      357  (0.0199119); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.67u 0.26s 00:00:00.93 Elapsed: 00:00:00.48
# Mc/sec: 3557.67
//
Query:       PHY93_14910|PHY93_14910  [L=162]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.9e-42  142.9   0.0    6.8e-42  142.7   0.0    1.0  1  2Fe-2S_thioredx  Thioredoxin-like [2Fe-2S] ferredoxin


Domain annotation for each model (and alignments):
>> 2Fe-2S_thioredx  Thioredoxin-like [2Fe-2S] ferredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  142.7   0.0   3.8e-46   6.8e-42       2     141 ..      21     160 ..      20     162 .] 0.96

  Alignments for each domain:
  == domain 1  score: 142.7 bits;  conditional E-value: 3.8e-46
                              HHHHTTS--GGGGHHHHHHHHHHHHSS--HHHHHHHHHHHTS-HHHHHHHHTTSSSS-SS---SEEEEEE-SHHHHTTTHHHHHHH CS
          2Fe-2S_thioredx   2 keiiakypekrsaliplLklvQeeegwlpeealeevaellgvppaevyevatFYsmfnlkpvgkyviqvCtttpCalrgseeilea 87 
                              ke++++y++ +sal+p L+l+Qe++gwlpe++++++++l+++p ++++ev++FY mf   pvg+ ++qvCt+++C + g +ei++ 
  PHY93_14910|PHY93_14910  21 KELLTRYDDVESALLPTLHLAQEQNGWLPEHVVSYISKLMSIPEIKIKEVISFYDMFYDVPVGRNIVQVCTNISCSMFGGREIYQG 106
                              78999********************************************************************************* PP

                              HHHHHT--TT-B-TTSSEEEEEES--S-GGGSSEEEESSSSEEES-HHHHHHHH CS
          2Fe-2S_thioredx  88 lekklgikagettadgkftleeveClGaCanaPvvqindevyedltpekveeil 141
                              l k+ +      t+dg+++l+++eClG+C+ aP++ +nd+++++l+ +++ + l
  PHY93_14910|PHY93_14910 107 LLKHFDTGYLTPTRDGRISLQKMECLGSCELAPCMRVNDDFVGNLDLTSAIQKL 160
                              *********************************************988776665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (162 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       507  (0.0282782); expected 358.6 (0.02)
Passed bias filter:                      453  (0.0252663); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.45
# Mc/sec: 1072.66
//
Query:       PHY93_14915|PHY93_14915  [L=423]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.4e-49  166.0   0.0    7.6e-49  165.5   0.0    1.2  1  Complex1_51K  Respiratory-chain NADH dehydrogenase 51 Kd subu
    2.6e-27   94.7   0.1    5.3e-27   93.7   0.1    1.5  1  NADH_4Fe-4S   NADH-ubiquinone oxidoreductase-F iron-sulfur bi
    3.8e-15   55.5   0.0    7.5e-15   54.6   0.0    1.5  1  SLBB          SLBB domain


Domain annotation for each model (and alignments):
>> Complex1_51K  Respiratory-chain NADH dehydrogenase 51 Kd subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  165.5   0.0   1.3e-52   7.6e-49       1     151 [.      51     222 ..      51     223 .. 0.97

  Alignments for each domain:
  == domain 1  score: 165.5 bits;  conditional E-value: 1.3e-52
             Complex1_51K   1 vkeagivGrGGagfPthvKlkakakkkk..kylivNaaEcEPgltkDrllmreepheileGlkiaaealgaekgvigvrdekpeai 84 
                              vk++g++GrGGagfPt+vK+ + +k++k  kyl++Na+E+EPg++kDr+l++++ph ++eG++i a+alg++kg+i++r+e ++ +
  PHY93_14915|PHY93_14915  51 VKASGLRGRGGAGFPTGVKWGFFSKDRKalKYLLCNADESEPGTFKDRYLVEKNPHILIEGIIISAWALGIQKGYIYIRGEFYQQA 136
                              799******************999977799******************************************************** PP

             Complex1_51K  85 ealekalaeakaagl...........ldievvklagkYpaGeekaLiesltgr.evprgkpp..advgv.....vvnNveTlaavy 151
                                le+a++ea+a+g+           +d+ v+++ag+Y++Gee+ +i sl+g+ + p+ kpp  a +g+     +vnNve+laav+
  PHY93_14915|PHY93_14915 137 VILEHAIKEAYAKGYlgknilgsgfdFDLYVHRGAGAYICGEETGMISSLEGKkGQPKLKPPfpAIKGYrglptMVNNVESLAAVP 222
                              *****************************************************9*******98766777999************98 PP

>> NADH_4Fe-4S  NADH-ubiquinone oxidoreductase-F iron-sulfur binding region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   93.7   0.1   8.9e-31   5.3e-27       2      83 ..     335     416 ..     334     418 .. 0.97

  Alignments for each domain:
  == domain 1  score: 93.7 bits;  conditional E-value: 8.9e-31
                              HHHHHHHHHHHH--S--HHHHIIIIHHHHHHHHHTBT---HHHHHHHHHHHHHHSS--SSTHHHHHHHHHHHHHHHHHHHHH CS
              NADH_4Fe-4S   2 varrllefyaaesCGkCtpCreGtkrllelleriaagegteedldlleelaetikgtslCalgdsaanpvlsalrkFreefe 83 
                              v++  lefy++esCG+CtpCreGt +l+ +++r  +g+++++d+dll ++a++++g+++Cal+d+aa+p + +++ Free+e
  PHY93_14915|PHY93_14915 335 VLKWTLEFYHHESCGQCTPCREGTGWLESVFKRRDKGQAHKSDIDLLDKTANSMRGQTICALADAAAMPTQGMIKAFREELE 416
                              678899**************************************************************************98 PP

>> SLBB  SLBB domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.6   0.0   1.2e-18   7.5e-15       2      57 ..     246     295 ..     245     296 .. 0.96

  Alignments for each domain:
  == domain 1  score: 54.6 bits;  conditional E-value: 1.2e-18
                              EEEESSBSS-EEEEEETT-BHHHHHHTTT-SBSS.........-E.EEE-SSSSS-- CS
                     SLBB   2 VtVtGeVkrPgnyevpigttlsdlieqaGGltddadlksvnLarl.avipgGpmmgi 57 
                              + ++G+V++Pg++evp+gt+l+d+ie ++G+++ ++       +l avipgG++++i
  PHY93_14915|PHY93_14915 246 FSISGDVNKPGVIEVPLGTPLKDIIEIHCGGMRSGN-------KLkAVIPGGSSCPI 295
                              689*********************************.......************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (423 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       461  (0.0257125); expected 358.6 (0.02)
Passed bias filter:                      416  (0.0232026); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.60u 0.25s 00:00:00.85 Elapsed: 00:00:00.47
# Mc/sec: 2729.55
//
Query:       PHY93_14920|PHY93_14920  [L=474]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.4e-18   64.2   0.1    8.4e-18   64.2   0.1    1.9  2  Fer2_4           2Fe-2S iron-sulfur cluster binding domain
    4.7e-13   48.4   1.2    4.7e-13   48.4   1.2    1.9  2  NADH-G_4Fe-4S_3  NADH-ubiquinone oxidoreductase-G iron-sulfur
    3.1e-07   30.3   1.5    3.1e-07   30.3   1.5    2.5  2  Molybdop_Fe4S4   Molybdopterin oxidoreductase Fe4S4 domain
    3.8e-07   30.0   0.6    3.8e-07   30.0   0.6    2.7  3  Fer2             2Fe-2S iron-sulfur cluster binding domain
     0.0011   19.6   0.2     0.0011   19.6   0.2    2.3  2  Fer4_15          4Fe-4S single cluster domain
  ------ inclusion threshold ------
      0.025   14.4   7.5        1.3    8.9   0.3    3.7  3  Fer4             4Fe-4S binding domain
      0.028   14.3   0.0      0.056   13.3   0.0    1.4  1  DUF4823          Domain of unknown function (DUF4823)
      0.049   13.7   1.2      0.085   12.9   0.0    2.0  2  Fer4_19          Divergent 4Fe-4S mono-cluster
       0.17   12.5   0.1       0.17   12.5   0.1    2.5  2  Fer4_13          4Fe-4S single cluster domain of Ferredoxin I
        3.3    8.4  13.3        7.4    7.2   0.1    3.3  2  Fer4_7           4Fe-4S dicluster domain


Domain annotation for each model (and alignments):
>> Fer2_4  2Fe-2S iron-sulfur cluster binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.2   0.1   4.7e-21   8.4e-18       2      81 ..       2      78 ..       1      79 [. 0.96
   2 ?   -2.8   0.2       3.7   6.7e+03      48      63 ..     224     239 ..     220     245 .. 0.77

  Alignments for each domain:
  == domain 1  score: 64.2 bits;  conditional E-value: 4.7e-21
                   Fer2_4  2 rpvtltfDGkevtvpeGdtvasAllangvdvprsckygrprgelcaggeCrnClVevegepnv.racstpvedGlkvetqt 81
                             ++v+l+++Gk++++ +G+ +++A+l+ng++v + c++      l+  g+Cr C+Ve +g p+  ++c  ++++G++++ +t
  PHY93_14920|PHY93_14920  2 EKVNLKWNGKDIQADKGSNLLKAALDNGIEVAHYCYH----SGLTIAGVCRMCMVEQDGNPRAfPSCNATCAEGMVIHNDT 78
                             689**********************************....99*******************88*************9988 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 3.7
                   Fer2_4  48 ggeCrnClVevegepn 63 
                              +g +  C V+v + +n
  PHY93_14920|PHY93_14920 224 IGCETGCSVKVSQNKN 239
                              6788889999987665 PP

>> NADH-G_4Fe-4S_3  NADH-ubiquinone oxidoreductase-G iron-sulfur binding region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.4   1.2   2.6e-16   4.7e-13       4      37 ..      88     121 ..      86     124 .. 0.92
   2 ?   -3.7   0.8       5.1   9.2e+03      11      20 ..     147     156 ..     143     157 .. 0.57

  Alignments for each domain:
  == domain 1  score: 48.4 bits;  conditional E-value: 2.6e-16
          NADH-G_4Fe-4S_3   4 ilellLanHpldCltCdknGnCeLQdlayelgve 37 
                              +l++ L nHpldC++Cd++G+C LQd+++++g  
  PHY93_14920|PHY93_14920  88 TLQFHLLNHPLDCPVCDQAGECGLQDYYMKHGQY 121
                              89****************************9965 PP

  == domain 2  score: -3.7 bits;  conditional E-value: 5.1
          NADH-G_4Fe-4S_3  11 nHpldCltCd 20 
                              + +  C+ C 
  PHY93_14920|PHY93_14920 147 ERCILCTRCT 156
                              4555566665 PP

>> Molybdop_Fe4S4  Molybdopterin oxidoreductase Fe4S4 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.1       1.9   3.3e+03       5      13 ..      44      52 ..      42      53 .. 0.78
   2 !   30.3   1.5   1.7e-10   3.1e-07       3      54 ..     218     269 ..     216     270 .. 0.96

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 1.9
                             EEE-SSBTT CS
           Molybdop_Fe4S4  5 ktaCpyCgv 13
                               +C++C v
  PHY93_14920|PHY93_14920 44 AGVCRMCMV 52
                             579****87 PP

  == domain 2  score: 30.3 bits;  conditional E-value: 1.7e-10
                              EEEEE-SSBTT--EEEEEEETTEEEEEEE-TTSTTTTT---HHHHTCHHCCC CS
           Molybdop_Fe4S4   3 vvktaCpyCgvgCglevhvkdgkivkvegdpdhpvnegrlCvKGrtllervy 54 
                              +++t+C  C +gC+++v+ +++  ++v++  dh+vn   +C  Gr ++++v+
  PHY93_14920|PHY93_14920 218 EIQTTCIGCETGCSVKVSQNKNGAYRVKPIYDHEVNGHWMCDDGRGIYKHVS 269
                              689**********************************************997 PP

>> Fer2  2Fe-2S iron-sulfur cluster binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.0   0.6   2.1e-10   3.8e-07       2      63 ..       7      58 ..       6      73 .. 0.76
   2 ?    0.7   0.1      0.29   5.1e+02      14      52 ..      85     121 ..      72     144 .. 0.65
   3 ?   -4.7   0.8        10   1.8e+04      41      48 ..     227     235 ..     221     240 .. 0.61

  Alignments for each domain:
  == domain 1  score: 30.0 bits;  conditional E-value: 2.1e-10
                             ETTTEEEEEEEETTTHBHHHHHHHTTTTTSTTSSSS......SSSSTTEEEEEESCECTTSSSSTHHH CS
                     Fer2  2 tidgkevevevadgettlldaaeenggidipysCgg......ggCgtClvevlegevqsdetelegee 63
                             +++gk+++++  +g + ll+aa +n gi++ + C++      g C++C+ve             +g++
  PHY93_14920|PHY93_14920  7 KWNGKDIQAD--KGSN-LLKAALDN-GIEVAHYCYHsgltiaGVCRMCMVE------------QDGNP 58
                             5688866665..5666.******99.***************777******8............33444 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.29
                              TTTHBHHHHHHHTTTTTSTTSSSSSS.SSTTEEEEEESCE CS
                     Fer2  14 dgettlldaaeenggidipysCgggg.CgtClvevlegev 52 
                                e+tl   +  n+ +d p  C ++g Cg    ++++g++
  PHY93_14920|PHY93_14920  85 V-ESTLQFHLL-NHPLDCP-VCDQAGeCGLQDYYMKHGQY 121
                              3.443444444.5589998.8999888*986666666666 PP

  == domain 3  score: -4.7 bits;  conditional E-value: 10
                              ST.TEEEEE CS
                     Fer2  41 gt.Clvevl 48 
                               t C v+v 
  PHY93_14920|PHY93_14920 227 ETgCSVKVS 235
                              333666665 PP

>> Fer4_15  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   0.2   6.2e-07    0.0011       1      64 [.     142     202 ..     142     203 .. 0.86
   2 ?   -1.5   0.4       2.5   4.6e+03       5      12 ..     220     227 ..     216     236 .. 0.84

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 6.2e-07
                  Fer4_15   1 VvvDrdaCigcglCvaeapevfeldedglasvllddgeiaegevpddeeea.aqeAaraCPvdAI 64 
                              V +D ++Ci c +C +  +ev + +e g+     ++g+ ae +v+++++ + aq  ++ CPv+A+
  PHY93_14920|PHY93_14920 142 VMLDAERCILCTRCTRFTEEVTKTNELGIL----NRGDHAEITVNEELKNDyAQNLVDICPVGAL 202
                              789**********************99995....677778889*9999877256679******97 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 2.5
                  Fer4_15   5 rdaCigcg 12 
                              +++Cigc+
  PHY93_14920|PHY93_14920 220 QTTCIGCE 227
                              689****7 PP

>> Fer4  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   0.3   0.00074       1.3       3      15 ..     144     156 ..     142     158 .. 0.87
   2 ?    5.9   0.1    0.0067        12      15      24 .]     194     203 ..     194     203 .. 0.90
   3 ?    1.9   0.3      0.12   2.2e+02       6      12 ..     221     227 ..     218     228 .. 0.80

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.00074
                              EETTTSSS-THHH CS
                     Fer4   3 ideekCigCGaCv 15 
                               d e+Ci C +C 
  PHY93_14920|PHY93_14920 144 LDAERCILCTRCT 156
                              699*********6 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.0067
                              HHHSTTTEEE CS
                     Fer4  15 vevCPvgAIt 24 
                              v++CPvgA+t
  PHY93_14920|PHY93_14920 194 VDICPVGALT 203
                              799*****86 PP

  == domain 3  score: 1.9 bits;  conditional E-value: 0.12
                              TTSSS-T CS
                     Fer4   6 ekCigCG 12 
                                CigC 
  PHY93_14920|PHY93_14920 221 TTCIGCE 227
                              57****6 PP

>> DUF4823  Domain of unknown function (DUF4823)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   3.1e-05     0.056      52     104 ..     370     422 ..     359     429 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 3.1e-05
                  DUF4823  52 pldleealkearavgadYllyprilswedratewsdkedraevqlmlietetk 104
                               ++l+ +l++ ++ ++ Y+++p+il  ed ++++ +k ++a v++ l  +et 
  PHY93_14920|PHY93_14920 370 QAGLDIVLNSISSSDVVYVVIPEILYNEDHFNTLIGKVEKAGVRIALTPGETL 422
                              679999***************************************99887775 PP

>> Fer4_19  Divergent 4Fe-4S mono-cluster
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.3       5.2   9.2e+03      14      22 ..     102     110 ..     100     114 .. 0.83
   2 ?   12.9   0.0   4.8e-05     0.085       8      60 ..     142     203 ..     137     206 .. 0.85

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 5.2
                  Fer4_19  14 lCihsgnCv 22 
                              +C+ +g+C 
  PHY93_14920|PHY93_14920 102 VCDQAGECG 110
                              8*******6 PP

  == domain 2  score: 12.9 bits;  conditional E-value: 4.8e-05
                  Fer4_19   8 iednrelCihsgnCvkglpevFdpkrkpwi.........kpdeasteeiievverCPSGALs 60 
                              +  + e Ci  + C++  +ev ++++ ++            +e + + +++ v+ CP GAL+
  PHY93_14920|PHY93_14920 142 VMLDAERCILCTRCTRFTEEVTKTNELGILnrgdhaeitVNEELKNDYAQNLVDICPVGALT 203
                              5667899********************9997777666666666667999************7 PP

>> Fer4_13  4Fe-4S single cluster domain of Ferredoxin I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.1   9.4e-05      0.17       2      56 ..     145     202 ..     144     204 .. 0.79
   2 ?   -1.5   1.7       2.2     4e+03       4      11 ..     221     228 ..     219     232 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 9.4e-05
                  Fer4_13   2 DrdtCiacgaCvelaPdvFeeddeggasvvaeq..ptseee.kadaeeAadaCPvesI 56 
                              D ++Ci c+ C  +  +v + ++ g   +  +    ++ee+  + a++ +d CPv + 
  PHY93_14920|PHY93_14920 145 DAERCILCTRCTRFTEEVTKTNELGILNRGDHAeiTVNEELkNDYAQNLVDICPVGAL 202
                              889*******************9987766554322445666367789999*****986 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 2.2
                  Fer4_13   4 dtCiacga 11 
                               tCi+c++
  PHY93_14920|PHY93_14920 221 TTCIGCET 228
                              69****86 PP

>> Fer4_7  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   8.7      0.23   4.2e+02       8      45 ..      64     156 ..      31     158 .. 0.66
   2 ?    7.2   0.1    0.0041       7.4       9      44 ..     194     230 ..     194     234 .. 0.72

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.23
                   Fer4_7   8 CvaaC...................................................pvkaieldeeenekgt....ekveidpekC 38 
                              C a+C                                                    ++  ++d++ +++++    + v +d+e+C
  PHY93_14920|PHY93_14920  64 CNATCaegmvihndtpkikaavestlqfhllnhpldcpvcdqagecglqdyymkhgQYDSQMIDKKVHKSKVqdigKNVMLDAERC 149
                              666665555555555555555555555555555555555555556666666665554555555555444433344477799***** PP

                   Fer4_7  39 lgCgaCv 45 
                              + C++C 
  PHY93_14920|PHY93_14920 150 ILCTRCT 156
                              ******6 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.0041
                   Fer4_7   9 vaaCpvkaieldeeenekgtekveidpekClgCga.C 44 
                              v+ Cpv+a++ +++  ++++  ++  +++C+gC+  C
  PHY93_14920|PHY93_14920 194 VDICPVGALTSKDFRFKQRVWFLDEIQTTCIGCETgC 230
                              689*******999855555333455578999998767 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (474 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       606  (0.0338); expected 358.6 (0.02)
Passed bias filter:                      432  (0.024095); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.63u 0.26s 00:00:00.89 Elapsed: 00:00:00.47
# Mc/sec: 3000.63
//
Query:       PHY93_14925|PHY93_14925  [L=172]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.3e-12   46.8  23.0    5.7e-09   36.4  12.8    1.6  2  Fer4_7    4Fe-4S dicluster domain
    9.2e-12   44.3  14.1    6.3e-08   32.1   2.2    2.2  2  Fer4      4Fe-4S binding domain
    5.6e-09   36.8   6.7    5.1e-05   24.1   0.1    2.3  2  Fer4_16   4Fe-4S double cluster binding domain
    1.8e-08   34.7   4.0     0.0028   18.0   0.7    2.2  2  Fer4_8    4Fe-4S dicluster domain
    5.1e-07   29.7  19.1    0.00019   21.5  12.5    2.1  2  Fer4_10   4Fe-4S dicluster domain
    1.9e-06   27.9  11.9      4e-05   23.7  13.4    2.0  2  Fer4_9    4Fe-4S dicluster domain
    5.1e-06   26.5  12.0     0.0065   16.6   3.4    2.2  2  Fer4_21   4Fe-4S dicluster domain
    1.8e-05   24.5  11.5     0.0069   16.4   2.9    2.3  2  Fer4_2    4Fe-4S binding domain
    4.5e-05   23.3  16.7      0.014   15.5   2.3    2.3  2  Fer4_6    4Fe-4S binding domain
    0.00012   22.6  10.8      0.099   13.2   3.1    2.3  3  Fer4_17   4Fe-4S dicluster domain
     0.0013   19.0  13.0       0.14   12.7   1.1    2.3  2  Fer4_4    4Fe-4S binding domain
  ------ inclusion threshold ------
      0.073   13.2   3.1       0.14   12.3   3.1    1.5  1  ETF_QO    Electron transfer flavoprotein-ubiquinone oxidoredu
      0.087   13.8   4.5      0.087   13.8   4.5    2.3  2  Fer4_3    4Fe-4S binding domain
       0.63   10.9  13.2        1.9    9.4   1.3    2.3  3  Fer4_22   4Fe-4S dicluster domain
        3.1    8.0   9.2        7.5    6.8   1.6    2.2  2  Fer4_18   4Fe-4S dicluster domain


Domain annotation for each model (and alignments):
>> Fer4_7  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.4  12.8   4.7e-12   5.7e-09       1      52 []      68     124 ..      68     124 .. 0.79
   2 !   22.7   2.4   9.6e-08   0.00011       1      25 [.     109     133 ..     109     147 .. 0.78

  Alignments for each domain:
  == domain 1  score: 36.4 bits;  conditional E-value: 4.7e-12
                   Fer4_7   1 rCigCgaCvaaCpvkaieldeeenek.gt....ekveidpekClgCgaCvavCPtga 52 
                              rC+ C  C+ +Cp+++i++  +++ + ++     + ei++ +C++Cg C+++CP++a
  PHY93_14925|PHY93_14925  68 RCTSCMLCATYCPAQCIYIVAADDSDkEVekapVSFEIEMLRCVFCGFCEEACPVDA 124
                              8*****************996533331222222566999****************97 PP

  == domain 2  score: 22.7 bits;  conditional E-value: 9.6e-08
                   Fer4_7   1 rCigCgaCvaaCpvkaieldeeene 25 
                              rC+ Cg+C++aCpv+ai+l++e + 
  PHY93_14925|PHY93_14925 109 RCVFCGFCEEACPVDAIRLTNEYEM 133
                              8*****************9976443 PP

>> Fer4  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   4.3   1.8e-06    0.0021       7      24 .]      68      85 ..      66      85 .. 0.94
   2 !   32.1   2.2   5.3e-11   6.3e-08       3      24 .]     105     126 ..     103     126 .. 0.89

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 1.8e-06
                             TSSS-THHHHHSTTTEEE CS
                     Fer4  7 kCigCGaCvevCPvgAIt 24
                             +C+ C++C+  CP  +I+
  PHY93_14925|PHY93_14925 68 RCTSCMLCATYCPAQCIY 85
                             8**************996 PP

  == domain 2  score: 32.1 bits;  conditional E-value: 5.3e-11
                              EETTTSSS-THHHHHSTTTEEE CS
                     Fer4   3 ideekCigCGaCvevCPvgAIt 24 
                              i + +C++CG C+e+CPv+AI+
  PHY93_14925|PHY93_14925 105 IEMLRCVFCGFCEEACPVDAIR 126
                              66779****************6 PP

>> Fer4_16  4Fe-4S double cluster binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.3   2.9   5.1e-05     0.061       1      19 [.      68      86 ..      68     104 .. 0.80
   2 !   24.1   0.1   4.3e-08   5.1e-05       1      39 [.     109     146 ..     109     163 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 5.1e-05
                  Fer4_16  1 rCgtCgkCaevCPtnaike 19
                             rC++C  Ca  CP+++i  
  PHY93_14925|PHY93_14925 68 RCTSCMLCATYCPAQCIYI 86
                             6**************9964 PP

  == domain 2  score: 24.1 bits;  conditional E-value: 4.3e-08
                  Fer4_16   1 rCgtCgkCaevCPtnaikekkekeiearecisyntaekk 39 
                              rC+ Cg C e+CP++ai+ ++e+e+  ++++++ +a++ 
  PHY93_14925|PHY93_14925 109 RCVFCGFCEEACPVDAIRLTNEYEMSGHAEQEW-VADHY 146
                              6*******************9999998888877.44444 PP

>> Fer4_8  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.7   2.4e-06    0.0028      44      63 ..      55      81 ..      24      83 .. 0.70
   2 !   17.9   0.1   2.7e-06    0.0032       2      34 ..     107     139 ..     106     166 .. 0.69

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 2.4e-06
                   Fer4_8 44 e.......eealwsCttcgaCtevCpv 63
                             +       e++  +Ct+c+ C++ Cp 
  PHY93_14925|PHY93_14925 55 GkhvltvkEDGTLRCTSCMLCATYCPA 81
                             0344445578899*************7 PP

  == domain 2  score: 17.9 bits;  conditional E-value: 2.7e-06
                   Fer4_8   2 lekCieCgaCqsaCpvlrrtkkhlldargeaae 34 
                              + +C+ Cg+C++aCpv   +    ++  g a++
  PHY93_14925|PHY93_14925 107 MLRCVFCGFCEEACPVDAIRLTNEYEMSGHAEQ 139
                              789************644444333344444333 PP

>> Fer4_10  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5  12.5   1.6e-07   0.00019       8      56 .]      68     121 ..      61     121 .. 0.80
   2 !   18.9   0.5     1e-06    0.0012       4      40 ..     105     141 ..     102     145 .. 0.80

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 1.6e-07
                  Fer4_10   8 tCirCgkCvkaCPadl.....tsvgakgeaseeeavrkkvekCtgcgaCveaCP 56 
                              +C+ C  C + CPa+        ++ k+ ++     ++ + +C +cg C eaCP
  PHY93_14925|PHY93_14925  68 RCTSCMLCATYCPAQCiyivaADDSDKEVEKAPVSFEIEMLRCVFCGFCEEACP 121
                              7*************99999664445555555555556699*************9 PP

  == domain 2  score: 18.9 bits;  conditional E-value: 1e-06
                  Fer4_10   4 idddtCirCgkCvkaCPadltsvgakgeaseeeavrk 40 
                              i+  +C+ Cg C +aCP+d+ +  +++e s++++++ 
  PHY93_14925|PHY93_14925 105 IEMLRCVFCGFCEEACPVDAIRLTNEYEMSGHAEQEW 141
                              67789*************9988888888777777665 PP

>> Fer4_9  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   4.6     6e-05     0.072      30      51 .]      63      84 ..      38      84 .. 0.72
   2 !   23.7  13.4   3.3e-08     4e-05       1      51 []      68     125 ..      68     125 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 6e-05
                   Fer4_9 30 aase..eaCigCgaCveaCpkgai 51
                             +  +   +C++C+ C+  Cp ++i
  PHY93_14925|PHY93_14925 63 E--DgtLRCTSCMLCATYCPAQCI 84
                             2..24578************9987 PP

  == domain 2  score: 23.7 bits;  conditional E-value: 3.3e-08
                   Fer4_9   1 kCtgCgaCveaCpagvvvedaaerkarlraase.......eaCigCgaCveaCpkgai 51 
                              +Ct+C  C + Cpa+ +   aa   ++  ++          +C++Cg C+eaCp +ai
  PHY93_14925|PHY93_14925  68 RCTSCMLCATYCPAQCIYIVAADDSDKEVEKAPvsfeiemLRCVFCGFCEEACPVDAI 125
                              6**************998888877777665555899****99*************987 PP

>> Fer4_21  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   3.4   5.4e-06    0.0065      29      57 ..      54      84 ..      49      86 .. 0.80
   2 !   15.2   1.3   1.4e-05     0.017      37      58 ..     106     126 ..      85     127 .. 0.77

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 5.4e-06
                  Fer4_21 29 daktvlkvved...eCvGCnlCssvCPvedci 57
                             ++k+vl+v ed   +C+ C lC++ CP  +ci
  PHY93_14925|PHY93_14925 54 KGKHVLTVKEDgtlRCTSCMLCATYCPA-QCI 84
                             566777787665558************5.999 PP

  == domain 2  score: 15.2 bits;  conditional E-value: 1.4e-05
                  Fer4_21  37 vedeCvGCnlCssvCPvedcie 58 
                                 +Cv C  C + CPv d+i+
  PHY93_14925|PHY93_14925 106 EMLRCVFCGFCEEACPV-DAIR 126
                              4558************9.8886 PP

>> Fer4_2  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   2.9   5.8e-06    0.0069       7      22 .]      66      81 ..      60      81 .. 0.88
   2 !   13.1   1.5   6.6e-05     0.079       3      21 ..     103     121 ..     100     122 .. 0.86

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 5.8e-06
                   Fer4_2  7 tdrCigCgaCvsaCPa 22
                             t rC++C  C + CPa
  PHY93_14925|PHY93_14925 66 TLRCTSCMLCATYCPA 81
                             77*************8 PP

  == domain 2  score: 13.1 bits;  conditional E-value: 6.6e-05
                   Fer4_2   3 vvvdtdrCigCgaCvsaCP 21 
                              ++++  rC+ Cg C  aCP
  PHY93_14925|PHY93_14925 103 FEIEMLRCVFCGFCEEACP 121
                              5677889************ PP

>> Fer4_6  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   6.8   5.7e-05     0.069       8      24 .]      68      84 ..      67      84 .. 0.94
   2 !   15.5   2.3   1.2e-05     0.014       8      24 .]     109     125 ..     103     125 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 5.7e-05
                   Fer4_6  8 kCigCgdCvrvCPegai 24
                             +C++C+ C++ CP++ i
  PHY93_14925|PHY93_14925 68 RCTSCMLCATYCPAQCI 84
                             7*************986 PP

  == domain 2  score: 15.5 bits;  conditional E-value: 1.2e-05
                   Fer4_6   8 kCigCgdCvrvCPegai 24 
                              +C+ Cg C+ +CP +ai
  PHY93_14925|PHY93_14925 109 RCVFCGFCEEACPVDAI 125
                              8999**********998 PP

>> Fer4_17  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.2   3.1   8.3e-05     0.099      39      59 ..      62      82 ..      31      84 .. 0.73
   2 !   11.4  12.8   0.00029      0.35       2      58 ..      69     122 ..      69     125 .. 0.73
   3 !   11.4   1.7    0.0003      0.35       1      25 [.     109     133 ..     109     147 .. 0.66

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 8.3e-05
                  Fer4_17 39 keekaslCieCgeCerkCPqg 59
                             ke+   +C++C +C+++CP++
  PHY93_14925|PHY93_14925 62 KEDGTLRCTSCMLCATYCPAQ 82
                             4568889************75 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 0.00029
                  Fer4_17   2 CiqCgyClpeCps...yeaydnepkkllraaklglleeaekeekaslCieCgeCerkCPq 58 
                              C++C  C+  Cp    y+   ++ +k +++a ++       e ++ +C+ Cg Ce++CP 
  PHY93_14925|PHY93_14925  69 CTSCMLCATYCPAqciYIVAADDSDKEVEKAPVS------FEIEMLRCVFCGFCEEACPV 122
                              9999999999996333455555666666665664......345899*************6 PP

  == domain 3  score: 11.4 bits;  conditional E-value: 0.0003
                  Fer4_17   1 rCiqCgyClpeCpsyeaydnepkkl 25 
                              rC  Cg+C+++Cp  +++ +++ ++
  PHY93_14925|PHY93_14925 109 RCVFCGFCEEACPVDAIRLTNEYEM 133
                              5888888888888766655554444 PP

>> Fer4_4  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.0   4.8   0.00041      0.49       3      17 .]      68      82 ..      66      87 .. 0.94
   2 !   12.7   1.1   0.00012      0.14       3      16 ..     109     122 ..     107     131 .. 0.92

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00041
                   Fer4_4  3 rCigCgsCvaaCPqg 17
                             rC+ C+ C  +CP +
  PHY93_14925|PHY93_14925 68 RCTSCMLCATYCPAQ 82
                             8************75 PP

  == domain 2  score: 12.7 bits;  conditional E-value: 0.00012
                   Fer4_4   3 rCigCgsCvaaCPq 16 
                              rC+ Cg C+ aCP+
  PHY93_14925|PHY93_14925 109 RCVFCGFCEEACPV 122
                              8999*********6 PP

>> ETF_QO  Electron transfer flavoprotein-ubiquinone oxidoreductase, 4Fe-4S
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   3.1   0.00012      0.14      46      92 ..      75     127 ..      57     136 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00012
                              HHHH-TTS.-EEEEETTT.....TSSEEEEE-CCC--S--HHHHH-TT--EEE CS
                   ETF_QO  46 eqryCPag.vyeivedee.....akekklqinaqnCvhCktCdikdpsqniew 92 
                              ++ yCPa+ +y ++ d++     +  + ++i+   Cv C  C+   p + i+ 
  PHY93_14925|PHY93_14925  75 CATYCPAQcIYIVAADDSdkeveKAPVSFEIEMLRCVFCGFCEEACPVDAIRL 127
                              678****824555544432333244568***************9999998876 PP

>> Fer4_3  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.3   9.6      0.35   4.1e+02       1      12 [.      69      80 ..      69      83 .. 0.95
   2 ?   13.8   4.5   7.3e-05     0.087       1      15 []     110     124 ..     110     124 .. 0.97

  Alignments for each domain:
  == domain 1  score: 2.3 bits;  conditional E-value: 0.35
                   Fer4_3  1 CtgCgaCvevCP 12
                             Ct C++C   CP
  PHY93_14925|PHY93_14925 69 CTSCMLCATYCP 80
                             ***********9 PP

  == domain 2  score: 13.8 bits;  conditional E-value: 7.3e-05
                   Fer4_3   1 CtgCgaCvevCPvgA 15 
                              C+ Cg C+e+CPv+A
  PHY93_14925|PHY93_14925 110 CVFCGFCEEACPVDA 124
                              *************98 PP

>> Fer4_22  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.4   5.7     0.057        69      62      95 ..      49      82 ..      28      83 .. 0.76
   2 ?    6.4   4.3     0.014        16       1      24 [.      68      92 ..      68     102 .. 0.65
   3 ?    9.4   1.3    0.0016       1.9      77      94 ..     105     122 ..      94     125 .. 0.81

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.057
                  Fer4_22 62 lrqrllhklsefkekfgesgCvGCgRCieacpvk 95
                             +  r+  k   ++++ g+  C+ C  C + cp++
  PHY93_14925|PHY93_14925 49 YSDRFKGKHVLTVKEDGTLRCTSCMLCATYCPAQ 82
                             5667777777888888899999999999999875 PP

  == domain 2  score: 6.4 bits;  conditional E-value: 0.014
                  Fer4_22  1 rClsCgaCtlvCpt.CsCfdvedet 24
                             rC sC  C++ Cp+ C+ +   d++
  PHY93_14925|PHY93_14925 68 RCTSCMLCATYCPAqCIYIVAADDS 92
                             7************724433334433 PP

  == domain 3  score: 9.4 bits;  conditional E-value: 0.0016
                  Fer4_22  77 fgesgCvGCgRCieacpv 94 
                              +++  Cv Cg C+eacpv
  PHY93_14925|PHY93_14925 105 IEMLRCVFCGFCEEACPV 122
                              57788999*****99997 PP

>> Fer4_18  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.8   1.6    0.0063       7.5      53      74 ..      61      82 ..      44      88 .. 0.80
   2 ?    5.6   1.2     0.014        17      58      74 ..     107     123 ..      86     133 .. 0.72

  Alignments for each domain:
  == domain 1  score: 6.8 bits;  conditional E-value: 0.0063
                  Fer4_18 53 rkekgagdcidcescvkvcPtg 74
                              ke+g+  c++c  c + cP +
  PHY93_14925|PHY93_14925 61 VKEDGTLRCTSCMLCATYCPAQ 82
                             56778889***********975 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.014
                  Fer4_18  58 agdcidcescvkvcPtg 74 
                              +  c+ c++c + cP++
  PHY93_14925|PHY93_14925 107 MLRCVFCGFCEEACPVD 123
                              45688888888888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (172 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       577  (0.0321825); expected 358.6 (0.02)
Passed bias filter:                      309  (0.0172346); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.52u 0.26s 00:00:00.78 Elapsed: 00:00:00.46
# Mc/sec: 1125.40
//
Query:       PHY93_14930|PHY93_14930  [L=447]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.1e-16   61.4   0.0    3.3e-16   59.9   0.0    1.8  2  Peptidase_C92  Permuted papain-like amidase enzyme, YaeF/YiiX
  ------ inclusion threshold ------
      0.022   14.3   1.2      0.038   13.5   0.1    1.9  2  Topoisom_I_N   Eukaryotic DNA topoisomerase I, DNA binding fr


Domain annotation for each model (and alignments):
>> Peptidase_C92  Permuted papain-like amidase enzyme, YaeF/YiiX, C92 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0       0.4   3.6e+03      42      66 ..     140     164 ..     100     186 .. 0.71
   2 !   59.9   0.0   3.6e-20   3.3e-16       6     145 ..     253     402 ..     248     419 .. 0.91

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 0.4
            Peptidase_C92  42 rlvveaaakegvrvtpLseflarrs 66 
                              r++++++ ++  ++t L+e+  +++
  PHY93_14930|PHY93_14930 140 RIIFNFTNFPRYQLTKLKELYDHYT 164
                              5667777777777777777777733 PP

  == domain 2  score: 59.9 bits;  conditional E-value: 3.6e-20
            Peptidase_C92   6 diifqtsraslseainpatasefkHvgivvgeeg.....................derlvveaaakegvrvtpLseflarrssiav 70 
                              d+++++ ++ ls++ +p   + + Hv++++g+++                     ++  ++e  +k+g++ ++L +f++  ++iav
  PHY93_14930|PHY93_14930 253 DLLYEKRNFVLSNYTIP---GHWGHVAVWLGTKEeliemgiwdeeffepfrkaieEGKNIIEI-RKKGINFVSLHDFIN-LDEIAV 333
                              99***************...***********************************7799****.8**************.9***** PP

            Peptidase_C92  71 yrlkealtaeqrqkaaeaalrrlgkpYdfgFele.ddrlYCsklVakaykealgikvktvellgklllknpdsklk 145
                               r+ +a   +  +++ +   ++l+k Ydf+F+ + +d++ Cs+++a +y    +i++++ + lg++ +k++d   +
  PHY93_14930|PHY93_14930 334 TRMSNA--SNNEAEIYQEISEQLDKTYDFTFNAQtSDKITCSEFIAYSY---GDIHWPETQVLGQVGIKPDDL--A 402
                              *****9..688889999999************999**************...789**********99977663..4 PP

>> Topoisom_I_N  Eukaryotic DNA topoisomerase I, DNA binding fragment
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.1   4.3e-06     0.038      52     134 ..     283     370 ..     263     375 .. 0.78
   2 ?   -2.1   0.1      0.25   2.2e+03      56      74 ..     422     440 ..     410     445 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 4.3e-06
                              SSGGG-HHHHHHHHHHHHHHHHHTT----GGG..EE-HHHHHHHHHHHHHHT...T-----HHHHHHHHHHHHHHHHEEEETTEEE CS
             Topoisom_I_N  52 tdyakkevFqknffkdfkkvlkekekikelek..cdFskikeylekekekkk...altkeekkklkeekekleekygyalldgrke 132
                              ++ ++  ++ ++ff+ f+k ++e ++i e++k  ++F +++++++  + +     +++++e +  +e  e+l+++y +++  ++++
  PHY93_14930|PHY93_14930 283 EELIEMGIWDEEFFEPFRKAIEEGKNIIEIRKkgINFVSLHDFINLDEIAVTrmsNASNNEAEIYQEISEQLDKTYDFTFNAQTSD 368
                              557788899************99999988765459********99887555511144555556669999999****9988777777 PP

                              EE CS
             Topoisom_I_N 133 kv 134
                              k+
  PHY93_14930|PHY93_14930 369 KI 370
                              66 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 0.25
                              G-HHHHHHHHHHHHHHHHH CS
             Topoisom_I_N  56 kkevFqknffkdfkkvlke 74 
                              k++ F++  f+d+kk++ +
  PHY93_14930|PHY93_14930 422 KNHLFEQKSFDDWKKIFAT 440
                              6788999999999998854 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (447 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       724  (0.0403815); expected 358.6 (0.02)
Passed bias filter:                      469  (0.0261587); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.65u 0.25s 00:00:00.90 Elapsed: 00:00:00.48
# Mc/sec: 2774.36
//
Query:       PHY93_14935|PHY93_14935  [L=210]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.9e-62  209.1   0.0    3.4e-62  208.9   0.0    1.0  1  Leu_Phe_trans  Leucyl/phenylalanyl-tRNA protein transferase


Domain annotation for each model (and alignments):
>> Leu_Phe_trans  Leucyl/phenylalanyl-tRNA protein transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  208.9   0.0   1.9e-66   3.4e-62       2     169 .]      27     198 ..      26     198 .. 0.97

  Alignments for each domain:
  == domain 1  score: 208.9 bits;  conditional E-value: 1.9e-66
            Leu_Phe_trans   2 erlleayaqgifpwae.eeepilwwspdpRavleldelhisrslrktlrkkefevtidkaFeeVieacaekkrre..gtWiteeii 84 
                              ++ll ay+qgifpw   +e p+ w+spdpR++l +++lh+ +s+rk+l+++ +ev+++++Fe+Vi +ca+ kr e  +tWi++eii
  PHY93_14935|PHY93_14935  27 DSLLLAYSQGIFPWPIsDEYPLAWFSPDPRGILAFEKLHLGKSFRKFLKNNPYEVKFNTNFEAVIMNCARVKRPEqaSTWINQEII 112
                              6799**********987889**************************************************99655579******** PP

            Leu_Phe_trans  85 eaYteLheaglahSvEvw.egeLvGGlyGvalgkvffgeSmFsrksdaSkvalvalvellkekgfeliDcqvetphlaslGakeis 169
                              +aY++++++g+a+S+E++ e++LvGG+yGv +++++ geSmF+ +++aSkvalv l+ llk++++ +iD+q+ tp + +lG +ei+
  PHY93_14935|PHY93_14935 113 DAYIKMYQQGFAYSIETYlEDRLVGGVYGVCINRFYSGESMFHLEDNASKVALVSLLYLLKQRDIGWIDTQMVTPVVGNLGGIEIP 198
                              ***********************************************************************************996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (210 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       484  (0.0269954); expected 358.6 (0.02)
Passed bias filter:                      450  (0.025099); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.45
# Mc/sec: 1408.35
//
Query:       PHY93_14940|PHY93_14940  [L=374]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.3e-52  179.0   0.0    1.8e-52  178.5   0.0    1.1  1  Arginase    Arginase family
     0.0051   17.1   0.0     0.0087   16.3   0.0    1.4  1  UPF0489     UPF0489 domain
  ------ inclusion threshold ------
       0.12   12.0   0.1        1.1    8.8   0.0    2.2  2  STAR_dimer  Homodimerisation region of STAR domain protein


Domain annotation for each model (and alignments):
>> Arginase  Arginase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  178.5   0.0   3.1e-56   1.8e-52       2     271 ..      69     361 ..      68     369 .. 0.85

  Alignments for each domain:
  == domain 1  score: 178.5 bits;  conditional E-value: 3.1e-56
                              EEEEEEEE--TTTSSSGGGGGHHHHHHHHHHTSBTHCHEETTTTESCCSEEEEEEEEE--S.SCHHH.HHHHHHHHHHHHHHTTCE CS
                 Arginase   2 dvallGvPfdaagsgrpGarfGPraireasarleealeynlelgvleelkivdlgdvavtp.vdnee.vleqieeavaeilkagkl 85 
                              ++++lG+P+d +g  ++Ga+ GP ++re++ + +        ++    l+ +d+gd+ v p   +++ +++++ ++v+++l + ++
  PHY93_14940|PHY93_14940  69 KCVILGIPSDCGGGIQRGANWGPLYLREGLINSR--------ED----LRAYDVGDIRVVPqLLHDKyLNDETIKKVRHALYQSET 142
                              689**************************55444........45....999*****999975445554799999999999999444 PP

                              E..........................EEEESSGGGHHHHHHHHHHHH...STTEEEEEESSS----SSCTTTBSSSTTSHHHHHH CS
                 Arginase  86 p..........................ivlGGDHsialgilralaeky...gkplgvihfDAHaDlrtpetegsgnshGtpfrraa 142
                              +                           ++GGDHs++++++ra+ e+    gk+++++hfDAH+Dl ++   g  +  Gt+ ++++
  PHY93_14940|PHY93_14940 143 InlpvsplsiaydfaknfhqqfpsksiFMIGGDHSVSYPMVRAYLEAKkavGKKVALVHFDAHTDLLEER-MGIDICFGTWTSQIM 227
                              445555555555555555555556666*****************665556799***************99.9************** PP

                              HHTSECGCEEEEEEE-STCSHHHHHHHHTTSEEEEHHHHHHHHHHHHHHHHHHHHTC.TTSEEEEEEEGGGBBTTTSTSSSS-BSS CS
                 Arginase 143 eegllkpkklvqiGirsvdneeyelakelgirvitmreidelglkavveeilervga.eedpvylSfDiDvlDpavaPGtGtpepg 227
                                 l +p++l+qiGir+  +e  ++ k+ g   + ++e+ ++g + +++ei +++++ + + +y+SfDiD+lD+++a +tGtpepg
  PHY93_14940|PHY93_14940 228 -PFLESPSHLIQIGIRASGKERGHWEKKFGHVQYWAQEVFDRGPSSIADEIVAHLKKlGVEEIYISFDIDCLDQEYAGATGTPEPG 312
                              .999999**************9999999***************************776889************************* PP

                              -B-HHHHHHHHHHHHCHSEEEEEEEE-B-GGGSSTT......THHHHHHH CS
                 Arginase 228 GltlrellallrelaeklnlvgaDvvEvnPaldtea......eqtarlaa 271
                              Gl+++e + ++++l e+ +++g D+vE++P   +++      e+t +l+a
  PHY93_14940|PHY93_14940 313 GLSPHEPMVIMQTLFENFKITGSDIVEIAPMVKPSQikqiepETT-LLVA 361
                              *************9888**************99977776764433.3333 PP

>> UPF0489  UPF0489 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0   1.5e-06    0.0087       6      40 ..     175     210 ..     170     237 .. 0.84

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 1.5e-06
                  UPF0489   6 sHheaLeaiyraigskklp.sdlslvHlDaHpDlli 40 
                              +H    + ++ +++ kk   +++ lvH+DaH+Dll 
  PHY93_14940|PHY93_14940 175 DHSVSYPMVRAYLEAKKAVgKKVALVHFDAHTDLLE 210
                              56666677788889999889*************975 PP

>> STAR_dimer  Homodimerisation region of STAR domain protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   0.0   0.00019       1.1      28      48 ..     121     141 ..      96     144 .. 0.84
   2 ?    0.2   0.0     0.097   5.8e+02      24      37 ..     276     289 ..     270     290 .. 0.85

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.00019
               STAR_dimer  28 HlerLLdeEIsRVRkdlfnng 48 
                              H + L de I +VR +l++ +
  PHY93_14940|PHY93_14940 121 HDKYLNDETIKKVRHALYQSE 141
                              546677888**********44 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.097
               STAR_dimer  24 nvftHlerLLdeEI 37 
                              ++  Hl++L  eEI
  PHY93_14940|PHY93_14940 276 EIVAHLKKLGVEEI 289
                              4889*****99999 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (374 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       398  (0.0221987); expected 358.6 (0.02)
Passed bias filter:                      392  (0.021864); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.45
# Mc/sec: 2493.05
//
Query:       PHY93_14945|PHY93_14945  [L=317]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.3e-25   89.0   0.0    6.6e-25   87.5   0.0    1.7  1  2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, 


Domain annotation for each model (and alignments):
>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   87.5   0.0   3.7e-29   6.6e-25      20     178 .]     125     270 ..     112     270 .. 0.91

  Alignments for each domain:
  == domain 1  score: 87.5 bits;  conditional E-value: 3.7e-29
                              TTCCHTTCCGSBS-GTTSEEEEES-SHHHHHHHHHHHHTT-EEEEESSSHHHHHCHHHHTCEECSHHHHHHH-SEEEE-S--STTT CS
             2-Hacid_dh_C  20 egewksekallgkelsgktvGiiGlGrIGqavakrlkafgmkviaydrskkkeeeeeelgvelvsleellaesDivslhlpltpet 105
                              e +w+++++ + k l++  + i+G G+IG+ + + l+++   v +yd++           +   +l+  l++ D+++ ++ l++++
  PHY93_14945|PHY93_14945 125 EATWSESRKWPRKLLAELNILILGHGHIGRLLSESLAPLARVVRIYDPYAG---------F--PDLD--LQNIDVLIPACSLNKKN 197
                              55677777889999***********************************44.........2..2333..8999************* PP

                              TTSBSHHHHHCSTTTEEEEESS-GGGB-HHHHHHHHHTTSCCEEEES--SSSSSGTCHHHHHSTTEEE-SS-T CS
             2-Hacid_dh_C 106 rhlinaeelakmkkgailiNtaRGglvdeeaLleaLksgkiagaalDvfeeeplpedspllelpnviltPHia 178
                              +hli++++l k+ ++ +liN+aRG+lv++++Ll +L ++  a a+lDvfe+ep++ ++ + e++n+ +++Hia
  PHY93_14945|PHY93_14945 198 QHLIDEAMLLKLNEDFLLINAARGSLVNTKDLLSVLLKRPSAFAVLDVFEKEPADFNQLFKETKNIKFSSHIA 270
                              *******************************************************9988899*********98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (317 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       484  (0.0269954); expected 358.6 (0.02)
Passed bias filter:                      370  (0.020637); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.26s 00:00:00.82 Elapsed: 00:00:00.47
# Mc/sec: 2035.90
//
Query:       PHY93_17110|PHY93_17110  [L=1469]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.5e-77  257.3   0.1    1.6e-50  171.6   0.3    2.3  2  CPSase_L_D2      Carbamoyl-phosphate synthase L chain, ATP bi
    3.1e-33  114.7   0.1    8.6e-33  113.3   0.1    1.9  1  CPSase_L_D3      Carbamoyl-phosphate synthetase large chain, 
    3.9e-30  105.1   0.0    1.2e-29  103.5   0.0    1.8  1  GATase           Glutamine amidotransferase class-I
    4.1e-22   78.4   0.0    1.1e-21   76.9   0.0    1.8  1  CPSase_sm_chain  Carbamoyl-phosphate synthase small chain, CP
    8.7e-18   64.3   0.0      6e-16   58.4   0.0    3.2  3  MGS              MGS-like domain
    3.4e-11   43.0   0.1    1.3e-05   24.9   0.1    2.3  2  ATP-grasp        ATP-grasp domain
    3.2e-08   33.4   0.0    3.6e-05   23.5   0.0    2.5  2  ATPgrasp_Ter     ATP-grasp in the biosynthetic pathway with T
    2.6e-07   30.6   0.0    5.9e-07   29.5   0.0    1.6  1  Peptidase_C26    Peptidase C26
    9.4e-06   25.3   0.2      0.016   14.8   0.0    2.7  2  ATP-grasp_4      ATP-grasp domain
      3e-05   24.1   0.5       0.13   12.3   0.0    2.7  2  ATP-grasp_3      ATP-grasp domain
  ------ inclusion threshold ------
      0.019   14.2   0.1      0.042   13.1   0.1    1.5  1  GCH_III          GTP cyclohydrolase III
      0.022   14.8   0.1        0.8    9.8   0.0    3.1  3  HTH_7            Helix-turn-helix domain of resolvase
       0.19   11.8   0.2         28    4.8   0.0    3.2  2  B12-binding      B12 binding domain


Domain annotation for each model (and alignments):
>> CPSase_L_D2  Carbamoyl-phosphate synthase L chain, ATP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  171.6   0.3   1.2e-53   1.6e-50       1     210 [.     519     723 ..     519     724 .. 0.94
   2 !   83.5   0.0   1.1e-26   1.4e-23       1     208 [.    1071    1273 ..    1071    1276 .. 0.91

  Alignments for each domain:
  == domain 1  score: 171.6 bits;  conditional E-value: 1.2e-53
                              SHHHHHHHHHHTT-BBSSEECSSBSSHHHHHHHHHH.H-SSEEEEETTCCTTTTEEEESSHHHHHHHHHHHHHHHHHHHSTS-EEE CS
              CPSase_L_D2   1 Dkesakealkkinvpvvpssaapvetleealaiake.igyPviikaafglGGkGmrvarneeelaelvkkalaeakaafgnkqvlv 85 
                              D+  ++  l+k++ ++ + ++a  +++eeal +a e +++P ii+  f+lGGkG  +++n+eel+e++++ ++          v +
  PHY93_17110|PHY93_17110 519 DRALFALELDKLGYQTGKRFTA--KSEEEALVMAVEiVKFPLIIRRDFALGGKGAALVYNTEELKEVFTSDIKFP--------VTM 594
                              899999999*****99999999..888888777655279******************************999988........99* PP

                              EE--SSSEEEEEEEEEETTS-EEEEEEEEECCEC..TCCCCEEEES-SS--HHHHHHHHHHHHHHHHHHT-EEEE.EEEEEEET.T CS
              CPSase_L_D2  86 ekslkgpkeiEvevlrDakgnvitvcerenslql..rtqkvievAPsqtLtdeerqalreaavkvvrevgvvgag.tveflldp.k 167
                              eksl g keiE+ev+ D + n ++vc++en+++   +t+++i+vAP+ t++d+  q+lr+ ++++++++gvv++g +v+f++++ +
  PHY93_17110|PHY93_17110 595 EKSLVGQKEIELEVMVDCERNGVIVCSIENVDPCgiHTGDSITVAPAMTISDRCMQQLRNMTLTIAKHMGVVAGGaNVQFAINEfD 680
                              *********************************999**********************************997777*******966 PP

                              TTEEEEEEEESS--CCHHHHHHHHS--HHHHHHHHHTT--GCG CS
              CPSase_L_D2 168 skeyyviEvNtRlsvesalaekaTGldlvkeaakialgekLee 210
                              +++++viE+N+R+s++sala+kaTG++++k++a ++ g++L+e
  PHY93_17110|PHY93_17110 681 EDDITVIEMNPRVSRSSALASKATGYPIAKISALLSIGYTLKE 723
                              789**************************************97 PP

  == domain 2  score: 83.5 bits;  conditional E-value: 1.1e-26
                               SHHHHHHHHHHTT-BBSSEECSSBSSHHHHHHHHHHH-SSEEEEETTCCTTTTEEEESSHHHHHHHHHHHHHHHHHHHSTS-EE CS
              CPSase_L_D2    1 DkesakealkkinvpvvpssaapvetleealaiakeigyPviikaafglGGkGmrvarneeelaelvkkalaeakaafgnkqvl 84  
                               D+++++e+ +       +s +   +  ++ +++  +ig Pvii+++f +GG+ m + +++e+l+el k+  ++     g++   
  PHY93_17110|PHY93_17110 1071 DRKQFSELTRSTSLSHTHSREI--SGKKDLVNAMIDIGLPVIIRPSFVIGGESMYIFYSHEDLNELPKAFKDQL--QDGTAIFQ 1150
                               8889999999999888888888..889999*********************************99877665555..47888889 PP

                               EEE--SSSEEEEEEEEEETTS-.EEEEEEEEECCECTCCCCEEEES-SS--HHHHHHHHHHHHHHHHHHT-EEEEEEEEEEETT CS
              CPSase_L_D2   85 vekslkgpkeiEvevlrDakgn.vitvcerenslqlrtqkvievAPsqtLtdeerqalreaavkvvrevgvvgagtveflldpk 167 
                               ve +l++  e++v+++rD +gn +  +ce   +  ++ +++  + P  +Lt++++++l++ ++++++++++vg  +++f+++  
  PHY93_17110|PHY93_17110 1151 VETYLENAIEYDVDLVRDIYGNfCFAICEHIEFAGVHSGDSGMITPPVVLTQKNYDELKSISLEIANKLEIVGPINFQFAIK-- 1232
                               **********************77899******************************************************9.. PP

                               TTEEEEEEEESS--CCHHHHHHHHS--HHHHHHHHHTT--G CS
              CPSase_L_D2  168 skeyyviEvNtRlsvesalaekaTGldlvkeaakialgekL 208 
                               ++++y iE N+R s+  +  +ka  + + k+a    lgek+
  PHY93_17110|PHY93_17110 1233 EGKIYCIEANPRGSRTLPFLSKAYNISIPKIATDAMLGEKI 1273
                               59*****************9999988888877776666665 PP

>> CPSase_L_D3  Carbamoyl-phosphate synthetase large chain, oligomerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  113.3   0.1   6.2e-36   8.6e-33       2     122 .]     817     937 ..     816     937 .. 0.96

  Alignments for each domain:
  == domain 1  score: 113.3 bits;  conditional E-value: 6.2e-36
              CPSase_L_D3   2 elkeptdeRifaiaealrrglsveeiheltkidpwFLekleelvelekelkkkkk.eldeellreakklGfsDkqiaelleeeeee 86 
                              +l++p++  ++++ ealr g+sveei + +ki +wF+e++e +v +ek+lk++k+   ++e + e+kklGfsDk++a l++ ++++
  PHY93_17110|PHY93_17110 817 RLQTPRELSLLTVLEALRFGMSVEEICSHSKITKWFVEQMELVVVAEKNLKTEKDfFKNPESFLEIKKLGFSDKHMALLTN-KSQK 901
                              79999************************************************998888999*****************65.8889 PP

              CPSase_L_D3  87 evrelrkklgilpvykrvDtcAaeFeaetpYlYstY 122
                              ++ e+r  ++i pvyk vDtc++eF a tpY+YstY
  PHY93_17110|PHY93_17110 902 DILEYRFLHNIFPVYKAVDTCSGEFLAVTPYFYSTY 937
                              9**********************************9 PP

>> GATase  Glutamine amidotransferase class-I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  103.5   0.0   8.7e-33   1.2e-29       4     185 ..     184     363 ..     181     367 .. 0.93

  Alignments for each domain:
  == domain 1  score: 103.5 bits;  conditional E-value: 8.7e-33
                              ESSTSTHHHHHHHHHHTT-EEEEEETTSHHHHHHHTHHSTSEEEEEEESSCTT.TTTHHHHHHHHCTSTS-EEEETHHHHHHHHHT CS
                   GATase   4 DnydsvtenlvhalvelgvkvevvpidasaeeilellknpdgilvsgGpgspg.vegkieaikearenkiPiLGICLGmQllaief 88 
                              +++  ++++++++l+ lg+ +  +p++  a+    l+ np  i++s+Gpg+p  ++++i++++e++++kiPi  ICLG Ql+a ++
  PHY93_17110|PHY93_17110 184 NYG--IKQAIIDQLYTLGFPLVSLPNNVLASDV--LKLNPRLIFLSNGPGDPRnYHQEIAVVRELLQAKIPIRAICLGIQLIARAL 265
                              455..9*********************877777..579************************************************ PP

                              TTEEEEEECEEEEEEEEEEEETTTCGGTTTTSEEEEEEEEEEEEESG........CHHHTTEEEEEEEETTEEEEEEEEETTTEEE CS
                   GATase  89 grkvvkekekehhggtmrlgddetallyglknevierhrHryevnpk........elepaglevtakseddeelmeiiekknpfvg 166
                                +v+k   ++++g+++++ d      + +++  i++++H+y+++++        +l++++l + ++s  d++++ i   +  + +
  PHY93_17110|PHY93_17110 266 EIEVEKLP-FGQRGANHPVID------HITNKISITSQNHGYALEKNsfnqkksnNLLKRELYIQHTSLFDDSIESIATTDHFMKA 344
                              ********.************......7788899***********999******99***************98888888888799* PP

                              ESSBTTSTTSTTHHHHHHH CS
                   GATase 167 vQFHPEststpegpellfn 185
                              vQ+HPE+ ++p++++ +f 
  PHY93_17110|PHY93_17110 345 VQYHPEANPGPHDTHDFFF 363
                              *************997775 PP

>> CPSase_sm_chain  Carbamoyl-phosphate synthase small chain, CPSase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.9   0.0   8.3e-25   1.1e-21       2     124 ..      14     134 ..      13     137 .. 0.79

  Alignments for each domain:
  == domain 1  score: 76.9 bits;  conditional E-value: 8.3e-25
          CPSase_sm_chain   2 avLvLedGtvfeGksfga....kea....vGEvvfnTgmtGYqeiltDpsYagqilvltypliGnyGvneedv..esekikvaglv 77 
                              a+L++edGt f+G++  +    +       GE  f+Tgm+GYqe++tDps+ gq +++t ++iGny +n + +  +s+k  ++ ++
  PHY93_17110|PHY93_17110  14 AYLHFEDGTKFRGHVNRKahdpE-LqlgiWGESAFTTGMSGYQETITDPSFLGQHIIFTNAHIGNYEANPKINvaQSAKSFATCII 98 
                              79************988435551.1455699*************************************744330033444444444 PP

          CPSase_sm_chain  78 vrelseepsnwraeesLsewlkeekipgisgvDTRaLtkklrekgam 124
                              +r++           s +e+l++ +ip +sg+DTR+L++ l +k ++
  PHY93_17110|PHY93_17110  99 ARNF-----------SYNEFLNKLDIPLFSGLDTRRLVRYLTSKKST 134
                              4444...........3679*********************9988775 PP

>> MGS  MGS-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.0      0.21   2.8e+02      50      75 ..     414     447 ..     386     461 .. 0.73
   2 ?   -3.2   0.0       7.2   9.9e+03      52      72 ..     976     996 ..     951    1003 .. 0.75
   3 !   58.4   0.0   4.3e-19     6e-16       2      95 .]    1353    1439 ..    1352    1439 .. 0.97

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.21
                              H........HHHHHHHTTSCCEEEEE--THHHHH CS
                      MGS  50 v........eildaikngeidlvintlypfkatv 75 
                                       + l+a+k+++id+v  + +p + ++
  PHY93_17110|PHY93_17110 414 AsefdysgtQALKALKEEGIDVVLLNSNPATIMT 447
                              2555556668999***********9999987665 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 7.2
                              HHHHHHTTSCCEEEEE--THH CS
                      MGS  52 ildaikngeidlvintlypfk 72 
                                +++++++i+ + ++ +p++
  PHY93_17110|PHY93_17110 976 SCERLREKNIQSIMINSNPET 996
                              567899999997777766654 PP

  == domain 3  score: 58.4 bits;  conditional E-value: 4.3e-19
                               HHHHHHHHHHTTCEEEEEHHHHHHHHHTT--EEECCCCHSTGSGGTHCHHHHHHHHTTSCCEEEEE--THHHHHHCHHHHHHHH CS
                      MGS    2 lvelakklkelgfellATgGTakllkeagipvtevvektgegerlggrveildaikngeidlvintlypfkatvakdgykirra 85  
                               +++ +k l+++gf+  AT+GT +++k++gip +e+v+k++e+  l+    il+ +k++ +++v nt++++ + ++ dg  ir+ 
  PHY93_17110|PHY93_17110 1353 ILPYIKSLYKIGFTFAATRGTCDYIKKQGIP-CELVKKIDED-GLN----ILEVLKDESMKMVFNTPQNQGQSQK-DGEHIRNS 1429
                               7899***************************.**********.999....*********************9997.******** PP

                               HHHTTSHEES CS
                      MGS   86 aenidIplpt 95  
                               a+ + Ip++t
  PHY93_17110|PHY93_17110 1430 AIAYAIPCFT 1439
                               ********98 PP

>> ATP-grasp  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.9   0.1   9.1e-09   1.3e-05       3     161 ..     529     694 ..     527     702 .. 0.75
   2 !   15.6   0.0   6.4e-06    0.0088      10     159 ..    1088    1244 ..    1080    1248 .. 0.81

  Alignments for each domain:
  == domain 1  score: 24.9 bits;  conditional E-value: 9.1e-09
                              TTT--B-EEEEECCHH.HHHHHHHHH-SCEEEEESSS-CTTTTEEEECTCCGHHCHHHHCGTTCEEEEE----SE..EEEEEEEEE CS
                ATP-grasp   3 klglpvprflaveske.eleeaaeelglpvvvKarrlgydGkGqsvvrseedleqalealkeekvivEefvpfek..Elsvlvvrs 85 
                              klg ++ +  +++s+e +l  a+e +++p++++ r  +  GkG  +v + e+l+++++   + +v +E+    +k  El v+v  +
  PHY93_17110|PHY93_17110 529 KLGYQTGKRFTAKSEEeALVMAVEIVKFPLIIR-RDFALGGKGAALVYNTEELKEVFTSDIKFPVTMEKSLVGQKeiELEVMVDCE 613
                              66667765555555553788889999*******.9**********************************98666501556777779 PP

                              TTC-EEE--EEEEEEETTEE...EEEEECE.E-SCHHHHHHHHHHHHHHHHHTSS.EEEEEEEEEE..TTCTEEEEEEESS-- CS
                ATP-grasp  86 aeGetafypvvetvqedgil...rlsvapa.evsekaqkkaeeiakkiveeLggv.GvfavElFvl..edgellvnElapRpH 161
                              ++G  +++  +e+v   gi     + vapa ++s++  ++ ++++ +i++++g+v G   v + +   +++++ v E+ pR+ 
  PHY93_17110|PHY93_17110 614 RNG--VIVCSIENVDPCGIHtgdSITVAPAmTISDRCMQQLRNMTLTIAKHMGVVaGGANVQFAINefDEDDITVIEMNPRVS 694
                              999..444556777666655222456677626788899***************8746655655544323356*********85 PP

  == domain 2  score: 15.6 bits;  conditional E-value: 6.4e-06
                               EEEEECCHHHHHHHHHHH-SCEEEEESSS-CTTTTEEEECTCCGHHCHHHHC......GTTCEEEEE----SEEEEEEEEEETT CS
                ATP-grasp   10 rflaveskeeleeaaeelglpvvvKarrlgydGkGqsvvrseedleqaleal......keekvivEefvpfekElsvlvvrsae 87  
                               +   ++ k++l +a+ ++glpv+++ +     G   ++  s+edl+++ +a+      +   + vE + +   E  v  vr+  
  PHY93_17110|PHY93_17110 1088 HSREISGKKDLVNAMIDIGLPVIIR-PSFVIGGESMYIFYSHEDLNELPKAFkdqlqdGTAIFQVETYLENAIEYDVDLVRDIY 1170
                               5667778889999999********9.9999***************9999999888976333344777777777777778***** PP

                               C-EEE--EEEEEE....ETTEEEEEEECEE-SCHHHHHHHHHHHHHHHHHTSSEEEEEEEEEETTCTEEEEEEESS CS
                ATP-grasp   88 Getafypvvetvq....edgilrlsvapaevsekaqkkaeeiakkiveeLggvGvfavElFvledgellvnElapR 159 
                               G   ++++ e+++    ++g+  +   p  +++k+  + ++i  +i+++L++vG + + + ++ +g+++  E  pR
  PHY93_17110|PHY93_17110 1171 G-NFCFAICEHIEfagvHSGDSGMITPPVVLTQKNYDELKSISLEIANKLEIVGPINFQFAIK-EGKIYCIEANPR 1244
                               *.556677777762222556677889999999*************************986555.999999999998 PP

>> ATPgrasp_Ter  ATP-grasp in the biosynthetic pathway with Ter operon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.9   0.0    0.0035       4.8      48     114 ..     651     722 ..     645     736 .. 0.71
   2 !   23.5   0.0   2.6e-08   3.6e-05       8     121 ..    1152    1281 ..    1148    1290 .. 0.79

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.0035
             ATPgrasp_Ter  48 elielaerlaeefgl.dglvnvQvre...dedgpkLLEiNpRasGGlg.ysalaGvnlpylalklllglete 114
                              +l +++ ++a+++g+ +g  nvQ+     ded   ++E+NpR+s      s ++G  ++++++ l  g   +
  PHY93_17110|PHY93_17110 651 QLRNMTLTIAKHMGVvAGGANVQFAInefDEDDITVIEMNPRVSRSSAlASKATGYPIAKISALLSIGYTLK 722
                              56677788899998537899***9751225667**********96555055666888888888777775444 PP

  == domain 2  score: 23.5 bits;  conditional E-value: 2.6e-08
             ATPgrasp_Ter    8 meyLegp.EySvDvlae.kgevlaavpRrKe....kgglq............elekdeelielaerlaeefgldglvnvQvred 73  
                                 yLe++ Ey vD +++  g+   a+    e    +   +            + ++ +el +++ ++a+++++ g +n+Q+  +
  PHY93_17110|PHY93_17110 1152 ETYLENAiEYDVDLVRDiYGNFCFAICEHIEfagvH---SgdsgmitppvvlTQKNYDELKSISLEIANKLEIVGPINFQFAIK 1232
                               567776558888888888888888887777654331...233445558875455566799999********************* PP

             ATPgrasp_Ter   74 edgpkLLEiNpRasGGlgysala.Gvnlpylalklllgleteeveepee 121 
                               e++ + +E NpR s +l     a ++ +p++a +++lg++ ++ e+ ++
  PHY93_17110|PHY93_17110 1233 EGKIYCIEANPRGSRTLPFLSKAyNISIPKIATDAMLGEKIQNLEQLNS 1281
                               *****************9877666**************98888776655 PP

>> Peptidase_C26  Peptidase C26
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.5   0.0   4.3e-10   5.9e-07      88     216 .]     231     350 ..     223     350 .. 0.76

  Alignments for each domain:
  == domain 1  score: 29.5 bits;  conditional E-value: 4.3e-10
            Peptidase_C26  88 peRdalelaLiraalergvPilgiCrGlqllnvalGGtlyqdieeqsgltdhreheq.saashavkvekgsllaellgseeievns 172
                              p+    e+a++r+ l++++Pi +iC+G+ql++ a    l  ++e+ +  ++  +h   ++ + +++++++   +        e ns
  PHY93_17110|PHY93_17110 231 PRNYHQEIAVVRELLQAKIPIRAICLGIQLIARA----LEIEVEKLPFGQRGANHPViDHITNKISITSQNHGY------ALEKNS 306
                              5555679************************665....677777766666665665446666666666555444......455589 PP

            Peptidase_C26 173 lHhqaike.laeelrveAvae.DgviEaieseeakafvlgvQwHPE 216
                              + +   ++ l  el +  ++  D+ iE i +++   f+ +vQ+HPE
  PHY93_17110|PHY93_17110 307 FNQKKSNNlLKRELYIQHTSLfDDSIESIATTD--HFMKAVQYHPE 350
                              8876555538899999999999********999..59********9 PP

>> ATP-grasp_4  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.8   0.0    0.0017       2.3      64     151 ..     602     692 ..     556     698 .. 0.81
   2 !   14.8   0.0   1.2e-05     0.016       2     151 ..    1106    1244 ..    1105    1248 .. 0.79

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0017
              ATP-grasp_4  64 eEfavdayfdeeGepvilnilkkefaseedvsdrlyvtsa.kvieetlealeellkevnallglknfpvHiElrvse..dgkiipi 146
                              +E+ +++ +d e + vi+  ++       ++ d + v +a  ++   +++l +++ ++++++g+  + + + + ++e  + +i++i
  PHY93_17110|PHY93_17110 602 KEIELEVMVDCERNGVIVCSIENVDPCGIHTGDSITVAPAmTISDRCMQQLRNMTLTIAKHMGVVAGGANVQFAINEfdEDDITVI 687
                              57788888887777777777777777777788888888872466778999***********************999733569**** PP

              ATP-grasp_4 147 Evnpl 151
                              E+np+
  PHY93_17110|PHY93_17110 688 EMNPR 692
                              ****6 PP

  == domain 2  score: 14.8 bits;  conditional E-value: 1.2e-05
              ATP-grasp_4    2 slPvviKPsvgffSlGVykinneeewkaavaaieeeleqakeeykeevveeesflvEeyieGe.EfavdayfdeeGepvilnil 84  
                                lPv+i+Ps  ++   +y+  ++e++++  +a +++l+  +          + f vE y+e   E+ vd+  d  G+  ++   
  PHY93_17110|PHY93_17110 1106 GLPVIIRPSFVIGGESMYIFYSHEDLNELPKAFKDQLQDGT----------AIFQVETYLENAiEYDVDLVRDIYGNFCFAICE 1179
                               68999999999999999999999999998777776653333..........34667777764339***********99887666 PP

              ATP-grasp_4   85 kkefaseedvsdrlyvtsakv.ieetlealeellkevnallglknfpvHiElrvsedgkiipiEvnpl 151 
                               + efa  +   d   +t++ v ++++ ++l+++  e++++l++  +p+ + + ++e gki+ iE np+
  PHY93_17110|PHY93_17110 1180 HIEFAGVHSG-DSGMITPPVVlTQKNYDELKSISLEIANKLEIV-GPINFQFAIKE-GKIYCIEANPR 1244
                               5566666665.7777777766156677899************96.9*******997.9*********6 PP

>> ATP-grasp_3  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.2   0.1   0.00083       1.1      30     158 ..     549     693 ..     517     696 .. 0.68
   2 !   12.3   0.0   9.1e-05      0.13      33     157 ..    1108    1244 ..    1095    1247 .. 0.82

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.00083
                              -.....SSSEEEEESS-------B--SS--TTE............EEEE---SEEEEEEEEE.SSSEEEEEEEEEEEET....TEE CS
              ATP-grasp_3  30 e.....ekklvvKprdGaggesvrvveekeeaeaaieeve.....lvqefieGkplSvsllsdgekvlvlavnrqliekaekefvy 105
                                    + +l++    + gg+++ +v + ee+++ + ++      + +  +  k++ +++++d e++ v++++ + ++ ++ +   
  PHY93_17110|PHY93_17110 549 MaveivKFPLIIRRDFALGGKGAALVYNTEELKEVFTSDIkfpvtMEKSLVGQKEIELEVMVDCERNGVIVCSIENVDPCGIHTGD 634
                              14444488999*****************999999888877799877788888899******************9999987765333 PP

                              EEEEES----H...HHHHHHHHHHHHTTSTT--EEEEEEEEESS....SEEEEEEESS- CS
              ATP-grasp_3 106 aGnvtpietel...keevvelaeevvekleglaGyvGvDlvlkd...eepyviEvNPRl 158
                              +  v+p+ t      ++++++   + +++  +aG + v + +++   +++ viE NPR+
  PHY93_17110|PHY93_17110 635 SITVAPAMTISdrcMQQLRNMTLTIAKHMGVVAGGANVQFAINEfdeDDITVIEMNPRV 693
                              3344444433311133444444444555545667777999998888899*********8 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 9.1e-05
                               SEEEEESS-------B--SS--TTE.................EEEE---.SEEEEEEEEE.SSSEEEEEEEEEEEET....TEE CS
              ATP-grasp_3   33 klvvKprdGaggesvrvveekeeaeaaieeve..........lvqefie.GkplSvsllsdgekvlvlavnrqliekaekefvy 105 
                               ++++ p+   gges+ ++  +e++++  +  +           v  ++e   ++ v+l+ d   + ++a+++ +ie+a+ +   
  PHY93_17110|PHY93_17110 1108 PVIIRPSFVIGGESMYIFYSHEDLNELPKAFKdqlqdgtaifQVETYLEnAIEYDVDLVRDIYGNFCFAICE-HIEFAGVHSGD 1190
                               78999999999999999999988887777766888999994434478873689******************7.57788888999 PP

                               EEEEES----H...HHHHHHHHHHHHTTSTT--EEEEEEEEESS.SEEEEEEESS CS
              ATP-grasp_3  106 aGnvtpietel...keevvelaeevvekleglaGyvGvDlvlkdeepyviEvNPR 157 
                               +G +tp  +      +e+ ++  e+ +kl +++G     + +k++++y iE NPR
  PHY93_17110|PHY93_17110 1191 SGMITPPVVLTqknYDELKSISLEIANKL-EIVGPINFQFAIKEGKIYCIEANPR 1244
                               99999955322112567777778888888.99**********************9 PP

>> GCH_III  GTP cyclohydrolase III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.1   3.1e-05     0.042     128     198 ..     433     503 ..     416     515 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 3.1e-05
                              EEEEEEEETTHHHHTTTTS-HHHHHHHHHHHHHHHHHHH..HTTT---EEEETTEEEEE-TT--HHHHHHHHH CS
                  GCH_III 128 vqiahiDinnitgtltdivsavrtylevnkvkaklakkl..ekegallqfiGGDnilavcneleeedvldiin 198
                              + +  ++ n +t  +td +   rty+e    k ++ k +  e+ +a+l  +GG  +l  c eleee++l+ +n
  PHY93_17110|PHY93_17110 433 IDVVLLNSNPAT-IMTDPEMCTRTYIEPIT-KETIKKIIlkERVDAVLSTMGGQTALNLCVELEEENFLKNNN 503
                              555556667778.99*********998543.4556665545789************************99776 PP

>> HTH_7  Helix-turn-helix domain of resolvase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.0   0.00058       0.8       3      28 ..     231     255 ..     229     260 .. 0.92
   2 ?   -2.7   0.0       4.8   6.7e+03      11      25 ..     708     722 ..     701     727 .. 0.55
   3 ?    1.0   0.0      0.33   4.5e+02      12      35 ..     827     850 ..     817     851 .. 0.84

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00058
                              --SS-HHHHGGGGSSTTTT--STTTS CS
                    HTH_7   3 psklskndinrvvkLleeGisiskIA 28 
                              p+ +++ +i+ v++Ll+++i+i++I+
  PHY93_17110|PHY93_17110 231 PRNYHQ-EIAVVRELLQAKIPIRAIC 255
                              899***.8*****************9 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 4.8
                              HGGGGSSTTTT--ST CS
                    HTH_7  11 inrvvkLleeGisis 25 
                              i+ + +Ll+ G++ +
  PHY93_17110|PHY93_17110 708 IAKISALLSIGYTLK 722
                              344555555555555 PP

  == domain 3  score: 1.0 bits;  conditional E-value: 0.33
                              GGGGSSTTTT--STTTSSSS---S CS
                    HTH_7  12 nrvvkLleeGisiskIAkevnisR 35 
                               +v++ l+ G+s+ +I+  ++i++
  PHY93_17110|PHY93_17110 827 LTVLEALRFGMSVEEICSHSKITK 850
                              678888999***********9996 PP

>> B12-binding  B12 binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   0.0     0.069        95      22      65 ..     426     487 ..     418     507 .. 0.77
   2 ?    4.8   0.0     0.021        28      61      97 ..     642     678 ..     614     689 .. 0.85

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.069
              B12-binding  22 aalrdagfeVqllganven..................edivaairaekpdvvglSalltsql 65 
                               al+++g++V+ll+ n  +                  e+i + i +e++d+v+ +   ++ l
  PHY93_17110|PHY93_17110 426 KALKEEGIDVVLLNSNPATimtdpemctrtyiepitkETIKKIILKERVDAVLSTMGGQTAL 487
                              467777*******8888888888899999999999988888888999999998776555555 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.021
              B12-binding  61 ltsqleavkelvellkrirprvkvvvGGahpsldpee 97 
                              +t + +++++l ++  +i +++ vv+GGa ++++  e
  PHY93_17110|PHY93_17110 642 MTISDRCMQQLRNMTLTIAKHMGVVAGGANVQFAINE 678
                              899999********99*************99998666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1469 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       480  (0.0267723); expected 358.6 (0.02)
Passed bias filter:                      407  (0.0227007); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.95u 0.29s 00:00:01.24 Elapsed: 00:00:00.49
# Mc/sec: 9000.74
//
Query:       PHY93_14950|PHY93_14950  [L=581]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.5e-15   57.7   0.0    2.6e-15   56.9   0.0    1.4  1  Peptidase_C92  Permuted papain-like amidase enzyme, YaeF/YiiX


Domain annotation for each model (and alignments):
>> Peptidase_C92  Permuted papain-like amidase enzyme, YaeF/YiiX, C92 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.9   0.0   1.4e-19   2.6e-15       6     146 ..     325     480 ..     320     514 .. 0.89

  Alignments for each domain:
  == domain 1  score: 56.9 bits;  conditional E-value: 1.4e-19
            Peptidase_C92   6 diifqtsraslseainpatasefkHvgivvgeeg.....................derlvveaaakegvrvtpLseflarrssiav 70 
                              di+ ++s + l+++++p   + + H ++++g+++                     ++ +++ea   +gvr+++++ef++  +++++
  PHY93_14950|PHY93_14950 325 DILIEKSPFVLTDKFIP---GHYGHIAVYLGTREqleaidmwthpdivpyqediiAGKVILEA-VRSGVRLNTVEEFMN-IDELTI 405
                              9****************...*************99********************889*****.588************.888888 PP

            Peptidase_C92  71 yrlkea.ltaeqrqkaaeaalrrlgkpYdfgFele.ddrlYCsklVakaykealgikvktvellgklllknpdsklkl 146
                                  ++ ++ +   + +  +++++gk+Ydf+F+++  d++ Cs+l++  +    +++++t+ +lg+ +++++d++  l
  PHY93_14950|PHY93_14950 406 MTKVDGlSNPSLLIEEITRGMDQIGKDYDFNFDIStLDKIVCSELIYITF---GNVHWPTQYRLGRATITPDDVAEIL 480
                              88888867778888999******************99*************...7899************999987766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (581 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       656  (0.0365888); expected 358.6 (0.02)
Passed bias filter:                      357  (0.0199119); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.63u 0.26s 00:00:00.89 Elapsed: 00:00:00.46
# Mc/sec: 3798.68
//
Query:       PHY93_14955|PHY93_14955  [L=252]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.1e-50  170.4   0.3    4.6e-50  170.2   0.3    1.0  1  Peptidase_M24  Metallopeptidase family M24


Domain annotation for each model (and alignments):
>> Peptidase_M24  Metallopeptidase family M24
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  170.2   0.3   2.6e-54   4.6e-50       1     209 []      11     240 ..      11     240 .. 0.90

  Alignments for each domain:
  == domain 1  score: 170.2 bits;  conditional E-value: 2.6e-54
                              HHHHHHHHHHHHHHHHHHHHHHTTCBHHHHHHHHHHHHHHHTT.....TCEESSSSEEEEGGGGGSTTTBCS.SSB--TTEEEEEE CS
            Peptidase_M24   1 elirkaariasaaleavleaikpgvterelaaeieattlkrhg.....arglafppivasgenaavlhytpn.drvlkegdlvlid 80 
                              el+++ + +a + le++   + pgv+++el ++++++ + +hg      ++++fp++v+++ n+ ++h++p+ ++ lk+gd+++id
  PHY93_14955|PHY93_14955  11 ELMKATCTLATETLEYIEPFVVPGVSTEELNKLCHEF-ITKHGaypspLNYHGFPKSVCTSLNEVICHGIPSkNEILKDGDILNID 95 
                              68999************999***************99.889999***************************857779********* PP

                              EEEEETTEEEEEEEEEECSSGSHHHHHHHHHHHHHHHHHHHC-STTSBHHHHHHHHHHHHHHTTBCCGBSSCSEEEESSSSSEEEE CS
            Peptidase_M24  81 agaeydgyasDitrTvlvGkftpeqrelyeavleaqeaaikavkpGvtlseidaaarevlesaglakffphglGHgvGlevhdegp 166
                              ++  ++ +++D+  T+lvG+ +++ ++l++++ ++++a+i+ v pG ++++i+aa++e++ ++g+ +++  ++GHg+G+e+h+  p
  PHY93_14955|PHY93_14955  96 VTTYLNKFHGDTNKTFLVGNVSAAVKKLVDVTYQCMRAGIATVVPGGHIGDIGAAIQEIAYANGY-SVVEDYCGHGIGREFHEA-P 179
                              *****************************************************************.999*************98.* PP

                              EESS..STTCSSB--TTBEEEEEEEEE..EET......TT.......E.EEEEBEEEEEES CS
            Peptidase_M24 167 svsr..esndgrkleeGmvftiEpgiy..fap......ge.......g.gvriedtvlvte 209
                              +v +  ++++g +++ Gm+ftiEp+i   + +      g+       + ++++e+tvlvt+
  PHY93_14955|PHY93_14955 180 QVVHvgKRGTGPEMKVGMTFTIEPMINlgHKEgkvlkdGWtvvtrdkKwSAQFEHTVLVTP 240
                              *877655569**************7774422233333433666666655**********95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (252 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       491  (0.0273858); expected 358.6 (0.02)
Passed bias filter:                      453  (0.0252663); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 1681.30
//
Query:       PHY93_14960|PHY93_14960  [L=264]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00023   21.4   0.1    0.00056   20.2   0.0    1.7  2  Fer2_BFD  BFD-like [2Fe-2S] binding domain
  ------ inclusion threshold ------
        0.1   12.9   0.0       0.21   11.9   0.0    1.6  1  ASPRs     Ancylostoma-associated secreted protein related


Domain annotation for each model (and alignments):
>> Fer2_BFD  BFD-like [2Fe-2S] binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0       1.3   1.2e+04       9      17 ..      90      98 ..      89     106 .. 0.59
   2 !   20.2   0.0   6.3e-08   0.00056       2      46 ..     111     155 ..     110     160 .. 0.89

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 1.3
                 Fer2_BFD  9 tegeIrdai 17
                             t++ I+d  
  PHY93_14960|PHY93_14960 90 THQAIEDYL 98
                             667776655 PP

  == domain 2  score: 20.2 bits;  conditional E-value: 6.3e-08
                 Fer2_BFD   2 VCrCegvtegeIrdairraglttveevkrrtkagtgCggCrpaie 46 
                               C C+g+ + e+++ +      ++ +v ++t a++ Cg+C+  i 
  PHY93_14960|PHY93_14960 111 LCLCFGIGKSELKKQVLLRSDYDLPQVIAETFATSACGSCKGPII 155
                              6***************666689******************98765 PP

>> ASPRs  Ancylostoma-associated secreted protein related
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   2.3e-05      0.21      30      59 ..      37      66 ..       8     113 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 2.3e-05
                    ASPRs 30 skllkYdCeLEklaglllkdpekakvykes 59
                             s +l Y+CeLE+l +lll++        + 
  PHY93_14960|PHY93_14960 37 SLSLVYKCELEELKSLLLNQSYTIALNLKR 66
                             6789************99998765333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (264 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       614  (0.0342462); expected 358.6 (0.02)
Passed bias filter:                      535  (0.0298399); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.55u 0.25s 00:00:00.80 Elapsed: 00:00:00.47
# Mc/sec: 1687.27
//
Query:       PHY93_14965|PHY93_14965  [L=213]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (213 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       784  (0.043728); expected 358.6 (0.02)
Passed bias filter:                      325  (0.0181271); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.44
# Mc/sec: 1449.54
//
Query:       PHY93_14970|PHY93_14970  [L=245]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.8e-61  207.6  12.2    2.4e-61  207.2  12.2    1.1  1  TatC             Sec-independent protein translocase protein 
  ------ inclusion threshold ------
      0.028   14.0   0.4      0.056   13.1   0.4    1.4  1  Proton_antipo_C  NADH-dehyrogenase subunit F, TMs, (complex I


Domain annotation for each model (and alignments):
>> TatC  Sec-independent protein translocase protein (TatC)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  207.2  12.2   2.7e-65   2.4e-61       1     207 []       5     217 ..       5     217 .. 0.95

  Alignments for each domain:
  == domain 1  score: 207.2 bits;  conditional E-value: 2.7e-65
                              -HHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHCCHHHHC..CT.T.S-EE--SSS-HHHHHHHHHHHHHHHHSHHHHHHHHHCC CS
                     TatC   1 ehLeeLrkrlirallavaiafiitfvfaeeliafllepleea.ee.e.velivlspleafllklkvslvaglvlasPvilyqlwaf 83 
                              ehLeeLrk++ir++++++++fi+t v+ ++++++ll+pl+++  + +   ++++s++e  ++++ vs++++++++sP+++yq+w+f
  PHY93_14970|PHY93_14970   5 EHLEELRKTVIRIVAILGVTFIATSVYVDQITEWLLKPLRDSlHNtKsGIIVYHSIFEKAWVQVDVSIWWAIMISSPLWFYQIWRF 90 
                              8***************************************986642224566999******************************* PP

                              CTTTTS---STTTHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHT...TTTSSTTEEHHHHHHHHHHHHHHHHHHTTHHHHHHHHHH CS
                     TatC  84 vapgLykherrlvlvfliaslllfllGaafayfvvlplvlkfll...seevepllslseylsfvlllllafgiaFelPlvlvllar 166
                              ++pgL++he r+v++f+++ l+lfl+G+af+y+v +p+ +kfl     ++v+++++l++y+s + ++ll+ g++F++P vl++l+ 
  PHY93_14970|PHY93_14970  91 IKPGLHPHEIRAVKPFMFLGLVLFLGGMAFGYYVAFPFGFKFLSmlgVSDVQANINLRDYISSASMILLFLGVIFQFPNVLLILGF 176
                              ********************************************7775667999******************************** PP

                              TTSS-HHHHHTTHHHHHHHHHHHHHHH-S.SHHHHHHHHHH CS
                     TatC 167 lglvsaetlrkkrryaivvilvvaavltPpdvisqlllavP 207
                              +glv+ + lrk rry++v++ +vaa+++Ppdvis+l + +P
  PHY93_14970|PHY93_14970 177 MGLVTKQLLRKFRRYIYVGLSIVAAIFSPPDVISMLSVWIP 217
                              **************************************999 PP

>> Proton_antipo_C  NADH-dehyrogenase subunit F, TMs, (complex I) C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.4   6.3e-06     0.056     113     176 ..      17      82 ..      13      95 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 6.3e-06
          Proton_antipo_C 113 fvGliGipfnqegidldilskwL.tpsinllhknsnesvdwyefltnaifSvsial.fGifiAsll 176
                              +v ++G+ f   ++ +d +++wL  p  + lh++++ ++ +  ++++a + v +++ + i+i+s l
  PHY93_14970|PHY93_14970  17 IVAILGVTFIATSVYVDQITEWLlKPLRDSLHNTKSGIIVYHSIFEKAWVQVDVSIwWAIMISSPL 82 
                              6889*************999997257778************************9973589998865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (245 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       781  (0.0435607); expected 358.6 (0.02)
Passed bias filter:                      365  (0.0203581); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.25s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 1689.07
//
Query:       PHY93_14975|PHY93_14975  [L=162]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.2e-05   24.7   7.3    2.2e-05   24.7   7.3    1.9  2  DUF4149   Domain of unknown function (DUF4149)
  ------ inclusion threshold ------
      0.014   15.4   1.3      0.014   15.4   1.3    1.9  2  DUF3278   Protein of unknown function (DUF3278)
       0.11   11.4   9.6       0.17   10.8   9.6    1.2  1  MFS_1     Major Facilitator Superfamily


Domain annotation for each model (and alignments):
>> DUF4149  Domain of unknown function (DUF4149)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.7   7.3   3.7e-09   2.2e-05       5      96 ..      18     105 ..      15     111 .. 0.86
   2 ?    0.3   0.1      0.15     9e+02      43      53 ..     138     148 ..     121     161 .. 0.49

  Alignments for each domain:
  == domain 1  score: 24.7 bits;  conditional E-value: 3.7e-09
                  DUF4149   5 lllGsqlwvtfvvapvlfrsL.prhqfgelqsklFplyfglglalsvlllltevavgseklaseellqlllllvvllltllnafyl 89 
                              +++ + + v +v+ p++f+++ + +++g++   +F +++ + +++++++ll  +         + +l +++ +++lll+++ +fy 
  PHY93_14975|PHY93_14975  18 CWFFMSVLVDIVAIPTVFKNIsNLQEAGKIGMTVFGRFNLFEIFFGIFILLGVLS-----PRTKSKLMISIAVTLLLLSFFYTFYM 98 
                              799999**************97889**************************9993.....3455566677778888999999**** PP

                  DUF4149  90 epritsl 96 
                              +p+i+++
  PHY93_14975|PHY93_14975  99 TPMIAQT 105
                              ****987 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.15
                  DUF4149  43 glglalsvlll 53 
                              +  l+l+++ +
  PHY93_14975|PHY93_14975 138 TGKLLLLLVFA 148
                              32222222222 PP

>> DUF3278  Protein of unknown function (DUF3278)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.1      0.31   1.8e+03      67      78 ..      14      25 ..       4      40 .. 0.59
   2 ?   15.4   1.3   2.4e-06     0.014      27     104 ..      41     118 ..      37     136 .. 0.72

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.31
                  DUF3278 67 glvltnlllvvl 78
                              ++l+ ++++vl
  PHY93_14975|PHY93_14975 14 PFILCWFFMSVL 25
                             444444444443 PP

  == domain 2  score: 15.4 bits;  conditional E-value: 2.4e-06
                  DUF3278  27 rqeinrignnafillwlyllilslvalllakktpeselilglvltnlllvvlvsglYiliaskklglatkeveakdye 104
                               qe+++ig ++f    l+++ + + +ll + +  +++ ++  + + lll  +    Y++   ++  +++++++  d +
  PHY93_14975|PHY93_14975  41 LQEAGKIGMTVFGRFNLFEIFFGIFILLGVLSPRTKSKLMISIAVTLLLLSFFYTFYMTPMIAQTSIKIHQISVTDPQ 118
                              699********988888776655555443333333333334555677777777889***9999999999999987754 PP

>> MFS_1  Major Facilitator Superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   9.6   2.8e-05      0.17     212     297 ..      12     101 ..       2     115 .. 0.77

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 2.8e-05
                    MFS_1 212 llialllfffgfsg..lltllplylqevlgls.....glllaglllallalvgailallagrlsdrlgrrrrlllallllllaalg 290
                              +l  +l++f ++s     + +p+ ++   +l      g +++ + + l+ +++ i+ +l+g ls r++++ ++ +a+ llll+++ 
  PHY93_14975|PHY93_14975  12 ILPFILCWF-FMSVlvDIVAIPTVFKNISNLQeagkiG-MTVFGRFNLFEIFFGIF-ILLGVLSPRTKSKLMISIAVTLLLLSFFY 94 
                              333344443.3333357788888889999999999988.99999999999998665.9***********99999999999999999 PP

                    MFS_1 291 lallavt 297
                               +++ + 
  PHY93_14975|PHY93_14975  95 TFYMTPM 101
                              9988776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (162 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1057  (0.0589548); expected 358.6 (0.02)
Passed bias filter:                      418  (0.0233142); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1068.20
//
Query:       PHY93_14980|PHY93_14980  [L=323]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-41  142.8   0.0    1.5e-41  142.5   0.0    1.1  1  Epimerase        NAD dependent epimerase/dehydratase family
    1.1e-23   84.2   0.1    1.3e-23   83.9   0.1    1.1  1  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
    1.7e-14   53.5   0.0    6.5e-14   51.6   0.0    1.8  1  3Beta_HSD        3-beta hydroxysteroid dehydrogenase/isomeras
    7.6e-09   35.1   0.2    2.5e-06   26.9   0.0    2.2  2  NAD_binding_4    Male sterility protein
      4e-07   29.4   0.0    3.5e-06   26.3   0.0    2.2  1  RmlD_sub_bind    RmlD substrate binding domain
    3.8e-05   23.0   0.1    0.00069   18.8   0.1    2.7  3  Polysacc_synt_2  Polysaccharide biosynthesis protein
     0.0086   15.5   0.5       0.14   11.5   0.3    2.1  2  ThiF             ThiF family
  ------ inclusion threshold ------
      0.019   14.9   0.2       0.17   11.8   0.1    2.1  2  KR               KR domain
       0.11   12.8   0.0       0.19   12.0   0.0    1.3  1  TrkA_N           TrkA-N domain


Domain annotation for each model (and alignments):
>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  142.5   0.0   7.3e-45   1.5e-41       1     241 []       2     246 ..       2     246 .. 0.90

  Alignments for each domain:
  == domain 1  score: 142.5 bits;  conditional E-value: 7.3e-45
                              EEEETTTSHHHHHHHHHHHHCTSE.EEEEES-STTTTCHHCHHC...EEEE--TT-HHHHHHHHHHHT-SEEEE--S.---HHHHH CS
                Epimerase   1 ilVtGatGfiGsalvkallekgye.vigldrlssasntarledl...elveldltdrsalerlfkeeqpdavihlAa.vggvaass 81 
                              il+tG++GfiGs l+k+l+  g++ ++ +d+l+++ ++++l+ +   e +++d + + + ++l++  + d+++h++a  ++ + ++
  PHY93_14980|PHY93_14980   2 ILITGGAGFIGSVLAKQLNILGHTdLVIVDKLEDSIKWKNLRGIkylEYIHADELFNGDYDDLIA--DTDMIFHMGAcSSTTEKNM 85 
                              8*********************999******************9999999999999999******..79******88666666666 PP

                              HSHHHHHHHHTHHHHHHHHHHHHHTCTEEEEEEEGGGGTSCSSSSBSTCSTTS--.--SSHHHHHHHHHHHHHHHHHHHHT-EEEE CS
                Epimerase  82 edpadfieknlqgtlnlleaarkagvkrllflsSsevYGkdaeqpkeettltgpl.kpnspYaaaKlageklveayaaqyglnaii 166
                              +    ++++n+++t+ l+  a ++++  ++++sS+++YG++++   e++ ++ p   p +pY+++K+++++ + +   + + +   
  PHY93_14980|PHY93_14980  86 DF---LMKNNVAYTQALFRFAATKNI-PFIYASSAATYGAGEQG-YEDNHNEIPNlMPLNPYGYSKQLVDEWILKEESKPE-HWFG 165
                              65...888******************.************99995.55555555656*************999999877775.9*** PP

                              EEESEEESTTS-TTS.TTSHHHHHHHHHHTTSSSEEEET.......TST-EEEEEEHHHHHHHHHHHHHHHTT-STTEEEEES CS
                Epimerase 167 lrlfnlyGprngege.vsrvipalirkilegkqevtllg.......dgtalRdflyveDvaeaillvlehvdagdkgeiyniG 241
                              l+ fn+yGp+++++e +++++ +  ++il++  +v+l++       dg++lRdf+yv+Dv++a++ + + +d+  + +iyn+G
  PHY93_14980|PHY93_14980 166 LKFFNVYGPNEYHKEdMRSLVHKSYEQILAAG-KVKLFKsyksefkDGEQLRDFIYVKDVVRAMIELSD-PDKSIHSGIYNLG 246
                              **********888888**************99.8999988999999*******************7766.68888999***98 PP

>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   83.9   0.1   6.7e-27   1.3e-23       1     273 [.       3     271 ..       3     297 .. 0.74

  Alignments for each domain:
  == domain 1  score: 83.9 bits;  conditional E-value: 6.7e-27
                              EEETTTSHHHHHHHHHHHHCT-CCEE.EEEEESS-TTHHHHHCTTT...TTGCCEEEEE--TT-HHHHHHHHHHHT-SEEEE--S- CS
            GDP_Man_Dehyd   1 LiTGiaGfiGsylaelLlekgyevhg.ivrrsssfntgriehlakdpkeeleenlklhkgDltDssslerllaevqpdevynLAAq 85 
                              LiTG+aGfiGs la++L   g++  + ++++++s + ++++ ++  +  +     +l++gD  D      l+a++  d +++++A 
  PHY93_14980|PHY93_14980   3 LITGGAGFIGSVLAKQLNILGHTDLViVDKLEDSIKWKNLRGIKYLEYIH---ADELFNGDYDD------LIADT--DMIFHMGAC 77 
                              9****************999876555056788999999999887655444...34677777766......99998..9******** PP

                              --HHHHTTSHHHHHHHHTHHHHHHHHHHHHCT..TTSEEEEEEEGGGG-S-S...SSSB-TTS-----SHHHHHHHH.HHHHHHHH CS
            GDP_Man_Dehyd  86 shVdvsfekPeytaevnvlGtlrLLeairalglekkvrfyqaStsEvYGkvq...evpqtEttpfyPrsPYaaaKly.adwivvny 167
                              s   ++    +  +++nv  t+ L+  + +    k++ f+ aS++  YG  +   e   +E   + P +PY+ +K    +wi ++ 
  PHY93_14980|PHY93_14980  78 SSTTEKNM--DFLMKNNVAYTQALFRFAAT----KNIPFIYASSAATYGAGEqgyEDNHNEIPNLMPLNPYGYSKQLvDEWILKE- 156
                              *9988655..5899***********99977....5689***********9973445566888899**********7615677764. PP

                              HHHH---EEEEEE-EEESTTS-TT.....SCCCHHHHHHH..HHHTTS-C-EECTTTT-EEEEEEHHHHHHHHHHHHHCSS-...- CS
            GDP_Man_Dehyd 168 reayglfavngilfnhesprrget.....fvtrkitrava..rialgkqevlylGnldakRdwghvkDyveamwlmlqqdkp...e 243
                               e+   +     +fn ++p   ++      v +   +++a  +++l k  + ++ ++++ Rd+ +vkD+v+am  +   dk+    
  PHY93_14980|PHY93_14980 157 -ESKPEHWFGLKFFNVYGPNEYHKedmrsLVHKSYEQILAagKVKLFKSYKSEFKDGEQLRDFIYVKDVVRAMIELSDPDKSihsG 241
                              .667777777799**9999876542222234443333333003344445566789********************99888753337 PP

                              -EEE-TT-EEECHHCHHCCHHCCCHHHHHH CS
            GDP_Man_Dehyd 244 dyviatgethsvrefvelaflelgktiewe 273
                               y+++tg+  +  ++ +++f+++g+t + e
  PHY93_14980|PHY93_14980 242 IYNLGTGKARTFLDLTKATFKAMGITPNIE 271
                              799********************9976554 PP

>> 3Beta_HSD  3-beta hydroxysteroid dehydrogenase/isomerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.6   0.0   3.3e-17   6.5e-14       1     269 [.       3     265 ..       3     273 .. 0.74

  Alignments for each domain:
  == domain 1  score: 51.6 bits;  conditional E-value: 3.3e-17
                3Beta_HSD   1 vvtGgaGFlGralvkeLvrleelkevrvlDlrespelleelskvnvkkviegDvtdkdkleealegvdvvihlaslvdvagklted 86 
                              ++tGgaGF+G+ l k+L  l++  ++ ++D+ e++ + ++l+ ++  ++i++D + + + ++ + + d+++h+ ++  ++ + + d
  PHY93_14980|PHY93_14980   3 LITGGAGFIGSVLAKQLNILGH-TDLVIVDKLEDSIKWKNLRGIKYLEYIHADELFNGDYDDLIADTDMIFHM-GACSSTTEKNMD 86 
                              69***************99996.9999***9999998899*********************************.66667777999* PP

                3Beta_HSD  87 eimkvnvkGTrnvleacvkagvrvlvYtSsaevvgpnslgeeilngdEeleyeslhqdaypesKalaEklvlkaNgrtlknggrly 172
                               +mk nv  T+ +   + +++++ ++Y Ssa   g    ge+  + + ++  + ++ ++y +sK+l ++ +lk   +         
  PHY93_14980|PHY93_14980  87 FLMKNNVAYTQALFRFAATKNIP-FIYASSAATYGA---GEQGYEDNHNEIPNLMPLNPYGYSKQLVDEWILKEESK---PE---H 162
                              **********************8.69*******999...666664555555566799****************9983...22...3 PP

                3Beta_HSD 173 TcaLRpagiyGegd.......kllvpllkqlaklgl.alfk.....igdeevlsdrvYvgNvawahilAaralqdpkkkssvagqa 245
                                 L+   +yG+ +       +l+ ++++q++  g+ +lfk       d e+l d++Yv  v+ a i    +l dp  ++s++   
  PHY93_14980|PHY93_14980 163 WFGLKFFNVYGPNEyhkedmrSLVHKSYEQILAAGKvKLFKsykseFKDGEQLRDFIYVKDVVRAMI----ELSDP--DKSIHSGI 242
                              3568888888886522111112233455555544431333311111345677889999999988776....66666..66666666 PP

                3Beta_HSD 246 yfisddsPvesyddfnltllkelg 269
                              y     +  + + d+    +k++g
  PHY93_14980|PHY93_14980 243 YNLGTGKART-FLDLTKATFKAMG 265
                              6666555555.6666666666665 PP

>> NAD_binding_4  Male sterility protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.0   0.4    0.0029       5.7       1      16 [.       4      19 ..       4      28 .. 0.93
   2 !   26.9   0.0   1.2e-09   2.5e-06      79     182 ..      59     148 ..      55     184 .. 0.75

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.0029
                             EE-TTSHHHHHHHHHH CS
            NAD_binding_4  1 lTGaTGFLGkvLlekL 16
                             +TG+ GF+G+vL ++L
  PHY93_14980|PHY93_14980  4 ITGGAGFIGSVLAKQL 19
                             8***********9887 PP

  == domain 2  score: 26.9 bits;  conditional E-value: 1.2e-09
                              HHHHHHHHH--EEEE--SS-S.ST.TSSEEHHHHHHHHHHHHHHHTSSS--.-EEEEEEGGGTTS-TTT--SSS-H......HHH- CS
            NAD_binding_4  79 edlqelaeevdviihsaAtvnfde.pykellrvNveGtrevlelakklkklkvllhvSTayvngeregeveekvyeegekeeklde 163
                               d+++l++ +d+i+h++A  + +e +++ l++ Nv  t+ ++++a+ +k+  ++++ S+a+ +g+ e+  e++  e          
  PHY93_14980|PHY93_14980  59 GDYDDLIADTDMIFHMGACSSTTEkNMDFLMKNNVAYTQALFRFAA-TKNI-PFIYASSAATYGAGEQGYEDNHNEI--------- 133
                              58999************987776637888*****************.5666.9******988888887653332222......... PP

                              -EEEETTTCCCHHHHHHHH CS
            NAD_binding_4 164 deraklkglpntYeqsKal 182
                                   +    n Y +sK l
  PHY93_14980|PHY93_14980 134 ----PNLMPLNPYGYSKQL 148
                              ....222223455555544 PP

>> RmlD_sub_bind  RmlD substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.3   0.0   1.8e-09   3.5e-06       3     154 ..       2     174 ..       1     289 [. 0.74

  Alignments for each domain:
  == domain 1  score: 26.3 bits;  conditional E-value: 1.8e-09
                              EEEESTTSHHHHHHHHHCTTTSEEEEEE-TT...................T--TTSHHHHHHHHHHH--SEEEE------HHHHHH CS
            RmlD_sub_bind   3 ilvtGanGqlGseLakqlaeeglevlaltre...................eldltdaeavaellkeakpdvvvnaAAytavDkaEs 69 
                              il+tG+ G +Gs Lakql+  g+  l +  +                   ++d   +   ++l+++   d++ +++A       E+
  PHY93_14980|PHY93_14980   2 ILITGGAGFIGSVLAKQLNILGHTDLVIVDKledsikwknlrgikyleyiHADELFNGDYDDLIAD--TDMIFHMGACSS--TTEK 83 
                              89*****************97766555544447888888888777777666666666666777777..789******976..68** PP

                              SHHHHHHHHTHHHHHHHHHHHHCT-EEEEEEEGGGS-S-TTS-B-TTS....----SSHHHHHHHHHHHHHHH..H-SSEEE.EEE CS
            RmlD_sub_bind  70 eeeaayavnaeavealAeaaaavgalLihvStDyVFdGekkrpYeedd....etsPlnvYGrtKlaGEqavla..agkkali.vRt 148
                              + +  ++ n+  ++al + aa  ++++i+ S+   + +  ++ Ye ++    +  Pln YG +K +  +++l+  ++++++  + +
  PHY93_14980|PHY93_14980  84 NMDFLMKNNVAYTQALFRFAATKNIPFIYASSAATYGAG-EQGYEDNHneipNLMPLNPYGYSKQLVDEWILKeeSKPEHWFgLKF 168
                              **********************************99655.4446555411116789***************985555555543777 PP

                              -SEESS CS
            RmlD_sub_bind 149 swvyge 154
                                vyg 
  PHY93_14980|PHY93_14980 169 FNVYGP 174
                              777765 PP

>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.1   3.5e-07   0.00069       1     121 [.       2     109 ..       2     118 .. 0.78
   2 ?    0.0   0.0      0.18   3.7e+02     133     156 ..     137     160 ..     135     199 .. 0.81
   3 ?   -2.4   0.0         1     2e+03     222     248 ..     239     265 ..     210     273 .. 0.51

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 3.5e-07
                              EEEETTTSHHHHHHHHHHHHHB-SEEEEEES-HHHHHHHHHH......-TTEEEE....E--TT-HHHHHHHTT..T-SEEEE--- CS
          Polysacc_synt_2   1 vlvtGagGsiGselvrqilkkkpkkiillerdElklyeiekeleeelkkkklkveivpvigdvrdkerlekaleelkvdvvfhaAA 86 
                              +l+tG++G iGs l +q+     + ++++++ E ++   + +    +k   l      + +d   +   ++++   + d++fh  A
  PHY93_14980|PHY93_14980   2 ILITGGAGFIGSVLAKQLNILGHTDLVIVDKLEDSIKWKNLR---GIKY--L----EYIHADELFNGDYDDLIA--DTDMIFHMGA 76 
                              89******************************9876543333...2222..2....222344444555667777..899******* PP

                              ---HHHHHHSHHHHHHHHHHHHHHHHHHHHHTT-S CS
          Polysacc_synt_2  87 lKhVPlveenpleaiktNvlgtenvieaaieagvk 121
                                   + e+n+   +k+Nv  t+ + + a ++++ 
  PHY93_14980|PHY93_14980  77 CSS--TTEKNMDFLMKNNVAYTQALFRFAATKNIP 109
                              975..79********************99998885 PP

  == domain 2  score: 0.0 bits;  conditional E-value: 0.18
                              S--SHHHHHHHHHHHHHHHGGG-- CS
          Polysacc_synt_2 133 nPtnvmGatKrlaekllqalakes 156
                               P n +G +K+l +  + + +++ 
  PHY93_14980|PHY93_14980 137 MPLNPYGYSKQLVDEWILKEESKP 160
                              599*********999988766654 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 1
                              SS-EEEE--.-EEEHHHHHHHH..... CS
          Polysacc_synt_2 222 ggeifvldmGepvkivdlakalielsg 248
                              ++ i+ l  G++ + +dl ka  + +g
  PHY93_14980|PHY93_14980 239 HSGIYNLGTGKARTFLDLTKATFKAMG 265
                              233555555555555555555555555 PP

>> ThiF  ThiF family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.5   0.3   6.9e-05      0.14      25      58 ..       7      42 ..       2      44 .. 0.91
   2 ?    1.7   0.0     0.069   1.4e+02     119     147 ..      92     120 ..      58     134 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 6.9e-05
                             --SHHHHHHHHHHHHHTTTEEEEEES..SB--GGGG CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxx RF
                     ThiF 25 GaGglGsellknLalsGvgkltlvDn..DkielsNl 58
                             GaG +Gs l+k+L  +G   l +vD   D i ++Nl
  PHY93_14980|PHY93_14980  7 GAGFIGSVLAKQLNILGHTDLVIVDKleDSIKWKNL 42
                             9************************55599999998 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.069
                              SHHHHHHHHHHHHHHT-EEEEEEEETTEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     ThiF 119 niearrlvnracvkkgiplieagtlgfeg 147
                              n++   ++ r+++ k ip+i a+ ++++g
  PHY93_14980|PHY93_14980  92 NVAYTQALFRFAATKNIPFIYASSAATYG 120
                              678888999************99999888 PP

>> KR  KR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.1   8.4e-05      0.17       3      32 ..       2      31 ..       1      50 [. 0.88
   2 ?    0.8   0.0       0.2     4e+02      90     146 ..      70     124 ..      65     132 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 8.4e-05
                             EEEETTTSHHHHHHHHHHHHHHS-EEEEE- CS
                       KR  3 ylitGGlGgLGlelarwlaekgarhlvlls 32
                              litGG+G +G +la++l   g + lv++ 
  PHY93_14980|PHY93_14980  2 ILITGGAGFIGSVLAKQLNILGHTDLVIVD 31
                             69**********************999975 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.2
                              -------TTT--HHHHHHHHTTTTHHHHHHHHHTTTS--SEEEEEEEHHHHH--TT- CS
                       KR  90 gvlrdklleemtaedleqvlapKvkGawnLhelledesldffvlfSSiagllgsagq 146
                              ++++ ++ +++t+++++ +++  v+ ++ L ++ + +++ f+ + SS a+++g+ +q
  PHY93_14980|PHY93_14980  70 MIFHMGACSSTTEKNMDFLMKNNVAYTQALFRFAATKNIPFI-YASS-AATYGAGEQ 124
                              677778889999999999999999999999999998888764.4454.445666555 PP

>> TrkA_N  TrkA-N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   9.3e-05      0.19       5      48 ..       7      54 ..       2      57 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 9.3e-05
                             S-SHHHHHHHHHHHH.TTEEEEEEESSHHHHHHHHHTT...SEEEES- CS
                   TrkA_N  5 GlGrvGrslaeeLse.ggkdvvvidkdeerveelreeg...levvvgd 48
                             G+G +G+ la++L+  g+ d v++dk e+ ++    +g   le++++d
  PHY93_14980|PHY93_14980  7 GAGFIGSVLAKQLNIlGHTDLVIVDKLEDSIKWKNLRGikyLEYIHAD 54
                             79*************9**99*********9988776663334466665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (323 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       562  (0.0313459); expected 358.6 (0.02)
Passed bias filter:                      451  (0.0251548); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.61u 0.27s 00:00:00.88 Elapsed: 00:00:00.46
# Mc/sec: 2103.06
//
Query:       PHY93_14985|PHY93_14985  [L=199]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.7e-50  168.8   0.0    9.7e-50  168.7   0.0    1.0  1  Maf       Maf-like protein
  ------ inclusion threshold ------
        0.1   12.3   0.0       0.17   11.6   0.0    1.4  1  DUF1699   Protein of unknown function (DUF1699)
       0.14   12.2   0.1       0.38   10.9   0.0    1.8  2  SepRS_C   O-phosphoseryl-tRNA synthetase C-terminal domain


Domain annotation for each model (and alignments):
>> Maf  Maf-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  168.7   0.0   1.6e-53   9.7e-50       2     164 ..       4     190 ..       3     192 .. 0.94

  Alignments for each domain:
  == domain 1  score: 168.7 bits;  conditional E-value: 1.6e-53
                              EEEE---HHHHHHHHCT-..EEEE------......HHHHHHHHHHHHHHHHH........TCEEEEEEEEEE...CE---SSHHH CS
                      Maf   2 liLASaSprRkelLeqlg..fevvpsdvde......aeelvlrlAeaKaeava........alvigaDtvvvl...ilgKPkdeee 68 
                              liL+S+SprRkelL+ l+  f+++++d+de      +++++++lA +Ka+av+         +v+++Dt+vvl   i+gKPkd +e
  PHY93_14985|PHY93_14985   4 LILGSQSPRRKELLSWLNisFDILTADLDEisnesePTAIAVDLASQKAHAVFdklsksalPFVVASDTIVVLdgkIYGKPKDTNE 89 
                              8***************99899********99999998889****************9999988*********97766********* PP

                              HHHHHHHHTTSEEEEEEEEEEEE......EEE..EEEEEEEEEE----HHHHHHHHHCTSGCCSTTS--TTCGGGGGCEEEECS-H CS
                      Maf  69 alemLkklsgrthevvTgvavlk......ekevksfvettevtfkelsdeeieaYvatgepldkAGaygiqgllglalverieGsy 148
                              a+e+L++ls+rth+vvTgv+ l       + +++ f++ tevtf+e++ + +e+Y+ tg+ ldkAGaygiqg+ +l+++++++Gsy
  PHY93_14985|PHY93_14985  90 AREILSELSNRTHQVVTGVSFLFrdlttgKVREHLFYDATEVTFNEITPDLMESYLLTGDSLDKAGAYGIQGP-SLTFISKVNGSY 174
                              *******************988789*99866678899***********************************9.888********* PP

                              HHHHT--HHHHHHHHC CS
                      Maf 149 snVvGLPlaellelLk 164
                              snVvG+Pl ++++ Lk
  PHY93_14985|PHY93_14985 175 SNVVGFPLDKVVSELK 190
                              ***********99987 PP

>> DUF1699  Protein of unknown function (DUF1699)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   2.8e-05      0.17      52      99 ..      55     103 ..      19     109 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 2.8e-05
                  DUF1699  52 ykktlsksakmfl.eiqgiellegdvwghrkdineyyevseevierike 99 
                                 +lsksa  f+     i +l+g ++g+ kd ne  e+ +e+ +r ++
  PHY93_14985|PHY93_14985  55 VFDKLSKSALPFVvASDTIVVLDGKIYGKPKDTNEAREILSELSNRTHQ 103
                              5678999998886256789********************9999998776 PP

>> SepRS_C  O-phosphoseryl-tRNA synthetase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   6.4e-05      0.38       2      23 ..      72      94 ..      72     107 .. 0.84
   2 ?   -3.0   0.0       1.4   8.3e+03       9      18 ..     176     184 ..     175     186 .. 0.74

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 6.4e-05
                             EEEEETTEEEEEE.S-TTTCCHH CS
                  SepRS_C  2 EvyVYdGnIlGvP.dtekwkear 23
                             +++V dG+I+G P dt+  +e+ 
  PHY93_14985|PHY93_14985 72 TIVVLDGKIYGKPkDTNEAREIL 94
                             69***********9999888765 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 1.4
                              EEEEEES-TT CS
                  SepRS_C   9 nIlGvPdtek 18 
                              n++G P  +k
  PHY93_14985|PHY93_14985 176 NVVGFP-LDK 184
                              999999.444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (199 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       481  (0.026828); expected 358.6 (0.02)
Passed bias filter:                      470  (0.0262145); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.44
# Mc/sec: 1349.12
//
Query:       PHY93_14990|PHY93_14990  [L=68]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (68 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       335  (0.0186848); expected 358.6 (0.02)
Passed bias filter:                      191  (0.0106531); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.24s 00:00:00.64 Elapsed: 00:00:00.42
# Mc/sec: 482.58
//
Query:       PHY93_14995|PHY93_14995  [L=325]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.2e-38  131.5   0.0    4.2e-38  131.2   0.0    1.1  1  TAtT      TRAP transporter T-component
  ------ inclusion threshold ------
      0.046   14.6   0.0       0.65   11.0   0.0    2.5  2  TPR_14    Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> TAtT  TRAP transporter T-component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  131.2   0.0   4.6e-42   4.2e-38       2     229 ..      44     273 ..      43     283 .. 0.89

  Alignments for each domain:
  == domain 1  score: 131.2 bits;  conditional E-value: 4.6e-42
                              ---HHHHHHHHHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHHHHHHTHHHHHTS-GGGHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     TAtT   2 edDlelvedalPaaLklvealleedpahegLllaaaslftaYanaFvqaeaelleddeldakeaareRAkkLylrareyalraLet 87 
                              e+  e+ ++++P +L+l+e+ll+e+p++ ++l ++++++++Ya+a  +++++  +  el+  e  ++ A   y r ++++lr L  
  PHY93_14995|PHY93_14995  44 ESNFEVFKTGVPGNLLLIEGLLSESPESLDILATLTKGYAGYAFAINETDMQNEDWGELKT-EVGKSQALFNYTRSLNFGLRYLRV 128
                              6678999*******************************************77666666655.6677788888************** PP

                              HSTTHHHHHTSS-H.HHHHHHHHT...--GGGHHHHHHHHHHHHHHHHTS-TTSS-HHHHHHHHHHHHHHHHH-TTHHHHHHHHHH CS
                     TAtT  88 aydgltkalregea.deleaaLak...lkkedvpalywaaaawasaialdkedpallaelpkvealmervlelDesyseGalhefl 169
                              ++ +l + ++ +++ + +++ L+k   ++k+d +++  +a+++a+ i+l+k+++ ++a+lp ++a+  +v+  D++ ++G+ + f+
  PHY93_14995|PHY93_14995 129 NKIELNDLISRMNEpQGIAHFLEKrlsADKKDLDLVLFTAQSFAALINLQKDNISMVAQLPVAKAMFDWVCMKDPKINYGTCDIFY 214
                              999988877777662457777743233799******************************************************** PP

                              HHHHHHS-GGGT--HHHHHHHHHHHHHHS-TT-SHHHHHHHHHTTTTTT-HHHHHHHHHH CS
                     TAtT 170 gvfyaarpeslGGnpekaeahferalelskgkslgakvlyAesyavpaqdrelFdslLee 229
                              g+++a rp++lGGnp+k++  f ra+e    +++  + +y ++y++p++d+++F + Le 
  PHY93_14995|PHY93_14995 215 GAYEAGRPKMLGGNPDKGKEIFLRAIENH-PHNWLIRTSYMQYYLIPQNDKDGFGQQLEY 273
                              ***************************75.678889*******************99985 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.0      0.21   1.9e+03      16      43 ..     142     169 ..     138     170 .. 0.78
   2 ?   11.0   0.0   7.2e-05      0.65      14      43 ..     226     255 ..     219     256 .. 0.91

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.21
                   TPR_14  16 dpdeAiallrralalaPddaeawlllaq 43 
                              +p++ +  l+++l+++ +d+++ l+ aq
  PHY93_14995|PHY93_14995 142 EPQGIAHFLEKRLSADKKDLDLVLFTAQ 169
                              6667777899*********998877665 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 7.2e-05
                   TPR_14  14 lGdpdeAiallrralalaPddaeawlllaq 43 
                               G+pd+  +++ ra++ +P ++ +++ ++q
  PHY93_14995|PHY93_14995 226 GGNPDKGKEIFLRAIENHPHNWLIRTSYMQ 255
                              59*********************9987765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (325 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       621  (0.0346366); expected 358.6 (0.02)
Passed bias filter:                      397  (0.0221429); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.26s 00:00:00.80 Elapsed: 00:00:00.46
# Mc/sec: 2117.78
//
Query:       PHY93_17115|PHY93_17115  [L=319]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.4e-29  100.9   0.0    9.1e-29  100.4   0.0    1.2  1  OTCace_N      Aspartate/ornithine carbamoyltransferase, carba
    2.2e-16   60.3   0.0    4.7e-16   59.2   0.0    1.6  1  OTCace        Aspartate/ornithine carbamoyltransferase, Asp/O
     0.0052   16.2   0.0     0.0083   15.5   0.0    1.2  1  2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, 


Domain annotation for each model (and alignments):
>> OTCace_N  Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  100.4   0.0   1.5e-32   9.1e-29       5     148 .]      10     147 ..       7     147 .. 0.92

  Alignments for each domain:
  == domain 1  score: 100.4 bits;  conditional E-value: 1.5e-32
                              SGGGS-HHHHHHHHHHHHHHHHHHHTTT-STTTTT-EEEEEESS--HHHHHHHHHHHHHTTSEEEEEESTTTSCTTTGGSTTSSCH CS
                 OTCace_N   5 sledlskeeieelldlaaelkekvkkekkekllkgktlallFeepStRTrvSfevAakrlGgkvlslseaediqlssvskgrkEsl 90 
                              s++dl+k +ie ll+l+ ++k++ + e++  + ++ ++a+ F e+StRT+ Sf +A++++G+  + ++++    +ss++kg  Esl
  PHY93_17115|PHY93_17115  10 SIADLNKIQIEGLLSLSTKFKHRES-ESSLFTYRRPIIATSFLENSTRTKHSFAIAIQKMGAMYIDFNAE----TSSLKKG--ESL 88 
                              799******************8765.6777777999********************************55....89999**..*** PP

                              HHHHHHHHHHT.SEEEEEES.SHHHHHHHHHHHSSEEEEEEETSSB-HHHHHHHHHHHHH CS
                 OTCace_N  91 eDtarvlsryv.daiviRhp.gaeeleelakyasvpviNagdgdgeHPtQaLaDlltire 148
                              e+t+ +l + + +++++R++ ++ +l ++ +   + +iN+gdg +eHPtQaL+Dl+t+ e
  PHY93_17115|PHY93_17115  89 EETFLTLYNQGvNLCIFRSSvSH-QLGQFREALPIKIINGGDGINEHPTQALLDLQTLLE 147
                              *******99999********655.799999999************************976 PP

>> OTCace  Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.2   0.0   7.9e-20   4.7e-16       2     155 ..     154     303 ..     153     305 .. 0.90

  Alignments for each domain:
  == domain 1  score: 59.2 bits;  conditional E-value: 7.9e-20
                              C.EEEEESS.TTSHHHHHHHHHHHHCT-EEEEES-TTSSH-HHHHHHHHHHHHHHT-EEEEESSCHHHHTT-SEEEE--SSETTCC CS
                   OTCace   2 glkiafvGd.kknnvanslikllarlgmdvvlvaPkglepdkevleeakknakksggsititedleeavkgaDvvytdvwvsmgee 86 
                              g+++a+ Gd  +++v +slikll ++g++v l++P+++ pd  +l           + +++++d  e +k++D++y  +++     
  PHY93_17115|PHY93_17115 154 GKTLAIFGDnIHSRVGHSLIKLLPMFGLKVILCGPEAFLPDALTL----------PAGVELSSDRDETLKQCDFIYLLRIQ----- 224
                              89*******99**************************98854444..........57899999******************..... PP

                              GGHH..........HHHHHHCCCSB-HHHHHHS-TT-EEEE-S---BTTTB-HHHHTSTTBHHHHHHHHHHHHHHHHHH CS
                   OTCace  87 kere..........erlkklkdyqvteellklakkdaivlHcLPakrgeEvtdeVfdsprsvvfeqaeNrlhtikAllv 155
                              ker           e    l  y v  +llk+++k + vlH+ Pa+ g E++   ++s     + q++N + +++A++ 
  PHY93_17115|PHY93_17115 225 KERHlasginplsiEGDDYLGSYGVSLDLLKKMQKLVPVLHPGPANIGVELDLALIKSSLYKGYLQVQNSIPMRMAIIQ 303
                              5555556777777577777777*******************************************************96 PP

>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   1.4e-06    0.0083      31      98 ..     149     221 ..     139     229 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.4e-06
                              BS-GTTSEEEEES...-SHHHHHHHHHHHHTT-EEEEESSSHHHHH.CHHHHTCEEC.SHHHHHHH-SEEEE- CS
             2-Hacid_dh_C  31 gkelsgktvGiiG...lGrIGqavakrlkafgmkviaydrskkkee.eeeelgvelv.sleellaesDivslh 98 
                              + +lsgkt++i+G     r+G++++k+l  fg+kvi   +     +  +   gvel  + +e l+++D++ l 
  PHY93_17115|PHY93_17115 149 SPDLSGKTLAIFGdniHSRVGHSLIKLLPMFGLKVILCGPEAFLPDaLTLPAGVELSsDRDETLKQCDFIYLL 221
                              5689*********77779*********************998755544556677776699**********875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (319 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       348  (0.0194099); expected 358.6 (0.02)
Passed bias filter:                      326  (0.0181828); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.47
# Mc/sec: 2056.93
//
Query:       PHY93_15000|PHY93_15000  [L=326]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    7.9e-38  130.4   0.5    9.8e-38  130.1   0.5    1.0  1  DctP       Bacterial extracellular solute-binding protein, fa
  ------ inclusion threshold ------
      0.064   12.2   0.9        0.1   11.6   0.9    1.2  1  Phosducin  Phosducin
       0.41   10.3   2.6        3.1    7.5   0.1    2.8  3  P66_CC     Coiled-coil and interaction region of P66A and P66
       0.72   10.2   3.2         15    6.0   0.0    2.9  2  PriX       Primase X


Domain annotation for each model (and alignments):
>> DctP  Bacterial extracellular solute-binding protein, family 7
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  130.1   0.5   2.2e-41   9.8e-38       4     281 ..      30     307 ..      27     311 .. 0.96

  Alignments for each domain:
  == domain 1  score: 130.1 bits;  conditional E-value: 2.2e-41
                              SSTTTSHHHHHHHHHHHHHHHHTTTSEEEEEEETTTTTTHHHHHHHHHTTSSSEEEEEGGGGTTTSGGGGGGGSTTTS.CSHHHHH CS
                     DctP   4 vaaegspkhkaaekfaklveektnGkvkievypssqLggdeeviealknGtvdivatssakleglvpeigvldlPFlf.edeealk 88 
                               ++eg+ + k ++k+  +++e t+G+v+i++y  ++ g++++v+++++ G+++++++    l+ ++ ++ v+++PF f  ++e++ 
  PHY93_15000|PHY93_15000  30 LVPEGTGWAKIIKKMTGEIKEATKGNVEIKIYYGGSQGDEQDVLRKIRIGQLQGGIFTGKTLGDINGDVRVVEIPFTFnHNREKAL 115
                              679999999*********************************************************************55778888 PP

                              HHHHSHHHHHHHHHHHHHTEEEEEEEEEEEEEEEESSS--SSGGGGTTEEE.EETSSHHHHHHHHHHTSEEEE-TGGGHHHHHHTT CS
                     DctP  89 kvlegevgekllkslekkglkvLafwenGfrqftsnkkpinspeDlkglkl.RvpessvllevfkalGanptpipfgevytaLqtg 173
                              k l++      ++ +ek+ +k La++e G   ++s +k+i  +  +k  k+ +   ++v  ++f+a+    +p+++ +v  +L tg
  PHY93_15000|PHY93_15000 116 KTLQTL-TPVFNQNFEKNKFKSLAMFEVGQIYLVS-QKKISDLNAVKTVKIwSWEGDPVVNTMFEAMQLIGVPLALPDVLSSLTTG 199
                              888888.4899************************.6**************556789***************************** PP

                              SSSEEEEEHHHHHHTTGGGG-SEEEEEEEEEEEEEEEEEHHHHHHS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSE CS
                     DctP 174 vvDGqenplsniysqklyevqkyltltnhgyldllvlvnkktwdsLpedlqaileeaakeatelqrklveeleeealqklkeagve 259
                              v+D++  p+  i s   +  +ky+    + y+  ++++ ++ w ++++  q+i+  + k+++   +  +e++++ea +++k++++e
  PHY93_15000|PHY93_15000 200 VIDAAYAPGIGIISLQWNTKIKYVIDFPISYSIGAFVITSDAWSKISPADQQIVAGISKKYESEINSTNEKDNQEAFKSMKAQKIE 285
                              ************************************************************************************** PP

                              EEEGEHHHHHHHHHHHHHHHHH CS
                     DctP 260 vieltpedlaafrealkpvyke 281
                              +i+++++d+++++   ++++k+
  PHY93_15000|PHY93_15000 286 FIKFSDADIKQAQGYRQQIVKK 307
                              *************999999998 PP

>> Phosducin  Phosducin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.9   2.2e-05       0.1      61     120 ..     256     314 ..     239     323 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 2.2e-05
                              ........----------------S-HHHHHHHTT----HHHHHHHHHHHHHHHHHHH-- CS
                Phosducin  61 crshldeeeesrddkdlkekisrkmslkeyelidkdkddeeflrkyrkqrmdemrqklsk 120
                              +  + + e +s ++kd +e +   m  +++e+i+    d +  + yr+q +++++ kl  
  PHY93_15000|PHY93_15000 256 ISKKYESEINSTNEKDNQEAFK-SMKAQKIEFIKFSDADIKQAQGYRQQIVKKLKGKLFS 314
                              44567888999********995.799****************************999865 PP

>> P66_CC  Coiled-coil and interaction region of P66A and P66B with MBD2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   0.0     0.038   1.7e+02      27      36 ..      73      82 ..      72      84 .. 0.90
   2 ?   -2.7   0.1       1.1   4.8e+03       5      14 ..     110     119 ..     109     120 .. 0.84
   3 ?    7.5   0.1   0.00069       3.1       6      22 ..     301     317 ..     297     324 .. 0.91

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.038
                   P66_CC 27 LkKLRqSQqq 36
                             L+K+R+ Q+q
  PHY93_15000|PHY93_15000 73 LRKIRIGQLQ 82
                             9*******87 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 1.1
                   P66_CC   5 eRermikkLr 14 
                               Re+ +k L+
  PHY93_15000|PHY93_15000 110 NREKALKTLQ 119
                              6999999997 PP

  == domain 3  score: 7.5 bits;  conditional E-value: 0.00069
                   P66_CC   6 RermikkLreeLRnEEa 22 
                              R++++kkL+ +L +EEa
  PHY93_15000|PHY93_15000 301 RQQIVKKLKGKLFSEEA 317
                              9***************9 PP

>> PriX  Primase X
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.0    0.0035        15      19      47 ..     138     166 ..     127     179 .. 0.88
   2 ?    2.2   0.2     0.052   2.3e+02      55      85 ..     255     285 ..     248     294 .. 0.87

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.0035
                              HHHHTHHHHHHHTS---HHHHHHHHHHHH CS
                     PriX  19 lilyvisrYLvnvkklseeealkklkefl 47 
                               +++v   YLv  kk+s+ +a+k++k + 
  PHY93_15000|PHY93_15000 138 AMFEVGQIYLVSQKKISDLNAVKTVKIWS 166
                              57889999****************99885 PP

  == domain 2  score: 2.2 bits;  conditional E-value: 0.052
                              SSS---HHHHHHHHHHHHHHT-----HHHHH CS
                     PriX  55 nlskiyeswirsvikgvkekglkpislkklk 85 
                              + sk yes i+s  ++  ++ +k++  +k++
  PHY93_15000|PHY93_15000 255 GISKKYESEINSTNEKDNQEAFKSMKAQKIE 285
                              67899************99999999999886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (326 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1145  (0.063863); expected 358.6 (0.02)
Passed bias filter:                      580  (0.0323498); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.58u 0.26s 00:00:00.84 Elapsed: 00:00:00.46
# Mc/sec: 2137.82
//
Query:       PHY93_15005|PHY93_15005  [L=168]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-13   51.0   4.7    1.3e-13   51.0   4.7    1.5  1  DctQ      Tripartite ATP-independent periplasmic transporters
      5e-05   23.5   1.2      5e-05   23.5   1.2    2.4  2  DUF3792   Protein of unknown function (DUF3792)


Domain annotation for each model (and alignments):
>> DctQ  Tripartite ATP-independent periplasmic transporters, DctQ component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.0   4.7   1.5e-17   1.3e-13       7     126 ..      32     154 ..      26     159 .. 0.86

  Alignments for each domain:
  == domain 1  score: 51.0 bits;  conditional E-value: 1.5e-17
                     DctQ   7 aqvflRyllnsslpwteelarylfvwlvflgaalalrrgshirvdllverlpprvrrlleliadllallfaavliwagw.....le 87 
                                ++lR++ + +l+w++ ++r+l++  +flg+++a+ rg hi +dl+ + l  ++   +++i+  ++ll +a+++ +++     ++
  PHY93_15005|PHY93_15005  32 GAIILRWF-HLNLSWIDPFVRHLVLLSTFLGGVVATGRGNHIGIDLISKFLEIKGYDHAKVIVNRVILLSSAIVLIWLVkagldFM 116
                              6799****.66*********************************************999999999999988888888887974322 PP

                     DctQ  88 vaaalfeettpvlglplwwvylvlpigaallalvalarl 126
                                +++  ++  ++g+  ++  +++p+g++l+a+++   +
  PHY93_15005|PHY93_15005 117 -KVEMEFSKVEFWGIGSGYLVAMIPVGLGLIAIRFFTLF 154
                              .24555567789*********************987655 PP

>> DUF3792  Protein of unknown function (DUF3792)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.5   1.2   5.5e-09     5e-05       4      61 ..      13      70 ..      10      74 .. 0.92
   2 ?   -2.4   4.7      0.58   5.2e+03      66      86 ..     127     147 ..      90     163 .. 0.62

  Alignments for each domain:
  == domain 1  score: 23.5 bits;  conditional E-value: 5.5e-09
                  DUF3792  4 avlkgllialvitlilllilalllyftslsekvlsililiililsvfigGflagkkak 61
                             ++  +ll+a++++++++   a++l++++l+ + + +++  +++ls+f+gG++a  + +
  PHY93_15005|PHY93_15005 13 KISSTLLVACILSILFCSSGAIILRWFHLNLSWIDPFVRHLVLLSTFLGGVVATGRGN 70
                             677899**********************************************998865 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 0.58
                  DUF3792  66 lnGllvGllyflillllslli 86 
                              ++G+  G l  +i + l+l++
  PHY93_15005|PHY93_15005 127 FWGIGSGYLVAMIPVGLGLIA 147
                              556666666555544444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (168 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       665  (0.0370907); expected 358.6 (0.02)
Passed bias filter:                      369  (0.0205812); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.25s 00:00:00.75 Elapsed: 00:00:00.46
# Mc/sec: 1100.82
//
Query:       PHY93_15010|PHY93_15010  [L=418]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      3e-82  276.7  38.0    3.4e-82  276.5  38.0    1.0  1  DctM      Tripartite ATP-independent periplasmic transporter,


Domain annotation for each model (and alignments):
>> DctM  Tripartite ATP-independent periplasmic transporter, DctM component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  276.5  38.0   1.9e-86   3.4e-82       4     416 .]      10     414 ..       7     414 .. 0.96

  Alignments for each domain:
  == domain 1  score: 276.5 bits;  conditional E-value: 1.9e-86
                     DctM   4 llvllalgvpvaislalasllllallgelllgvpleqilaqrvveglssfallaipfFvlaGivlersGlakrlidlaaalvGrvr 89 
                              +l l  +gvp+ i+++la+l+ + + g       ++ ++aq++++  s  +l+ ip+F++aG+++ +s   krl++la   +G+++
  PHY93_15010|PHY93_15010  10 ILSLASIGVPLFIIMGLAALTAFSFSGVE-----VS-AVAQEMYRISSAPTLMTIPLFTFAGYLMAESHSPKRLMKLAETGLGWLP 89 
                              5667889*************555554444.....45.99*********************************************** PP

                     DctM  90 GGlakvsvvgsalfgaiSGsavAnvaavGsitipamkrsGykrefaaaviaasstlgqiiPPslglivfamavlgvsigdlfaaai 175
                              GG++ v+ +++a+f a +G +  + +a+G +++p+ +++Gy +++  + i+as+ lg ++PPsl++i++++ ++ v+i +lf a+i
  PHY93_15010|PHY93_15010  90 GGISIVTLIVCAFFTAFTGASGVTIIALGGVIYPILIKEGYSEKYTLGAITASGSLGLLFPPSLPIILYGL-MAKVDIDKLFKAGI 174
                              ***********************************************************************.************** PP

                     DctM 176 ipglllavglllavaiaakkenlrsktkaelkrlgqalkeaipalllpliiligillgiftpteagavavvyalviallvyrrltl 261
                              +pg+l++++l l  ++ + k+++  k+k+ lk++ qalke +   +lp+ +l+gi+ g+ t tea+a+ ++y ++i++++y++l++
  PHY93_15010|PHY93_15010 175 VPGFLIIFILSLWSIYNSPKKEI--KKKFILKDFIQALKESWLEAILPIAVLVGIYGGFVTVTEAAAFTALYIFIIEVFIYKDLSI 258
                              ******99999988888887777..56899******************************************************** PP

                     DctM 262 e.evaaallstakttaavlfilaaagifaglltltgvplklselllslsggkllfLilvnllvlvlGmfldttaaiiilvpilaPa 346
                              + +++++ ++t+ + a +l++l  a +f+ ++  ++vplk+ +l+ +   +k+ fL   n+++lv+G ++d+++aii++vp+++P+
  PHY93_15010|PHY93_15010 259 KkDIPRVSIETMSLVAGILLVLCCALAFTNFMVDEDVPLKIFALMKTYLTNKYSFLFFLNIFLLVVGSVMDIFSAIIVVVPLIIPV 344
                              73699********************************************************************************* PP

                     DctM 347 aaklgidpihfgvvivlnlsiglitPPvGlalfvassiakvsveeivkalvPflvvlvvalvlitlvpel 416
                              a+ +g+dp+h+ +++++nl+ig+++PPvG++lf+as+  k  +++++ a++Pflv+lv+al+lit++p +
  PHY93_15010|PHY93_15010 345 AHDFGVDPVHLAIIFLTNLEIGYLHPPVGINLFIASNRFKKPITDLYSASIPFLVLLVIALILITYIPSM 414
                              *******************************************************************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (418 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1026  (0.0572257); expected 358.6 (0.02)
Passed bias filter:                      403  (0.0224776); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.69u 0.29s 00:00:00.98 Elapsed: 00:00:00.49
# Mc/sec: 2564.34
//
Query:       PHY93_15015|PHY93_15015  [L=545]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (545 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       470  (0.0262145); expected 358.6 (0.02)
Passed bias filter:                      348  (0.0194099); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.66u 0.24s 00:00:00.90 Elapsed: 00:00:00.48
# Mc/sec: 3430.15
//
Query:       PHY93_15020|PHY93_15020  [L=213]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (213 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       160  (0.00892409); expected 358.6 (0.02)
Passed bias filter:                      129  (0.00719505); expected 358.6 (0.02)
Passed Vit filter:                         6  (0.000334653); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.42
# Mc/sec: 1518.22
//
Query:       PHY93_15025|PHY93_15025  [L=217]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.2e-28   99.5   0.0    2.7e-28   99.3   0.0    1.1  1  HAD_2            Haloacid dehalogenase-like hydrolase
      1e-11   45.5   0.0    9.4e-10   39.1   0.0    2.1  1  Hydrolase        haloacid dehalogenase-like hydrolase
      2e-08   34.9   0.0    3.6e-08   34.0   0.0    1.5  1  HAD              haloacid dehalogenase-like hydrolase
    6.1e-06   26.1   0.0    4.1e-05   23.4   0.0    2.0  1  NIF              NLI interacting factor-like phosphatase
  ------ inclusion threshold ------
      0.031   13.7   0.7       0.51    9.7   0.7    2.4  1  Put_Phosphatase  Putative Phosphatase
      0.083   13.0   0.0       0.16   12.0   0.0    1.5  1  Hydrolase_like   HAD-hyrolase-like


Domain annotation for each model (and alignments):
>> HAD_2  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   99.3   0.0   8.9e-32   2.7e-28       1     177 [.      14     198 ..      14     199 .. 0.87

  Alignments for each domain:
  == domain 1  score: 99.3 bits;  conditional E-value: 8.9e-32
                    HAD_2   1 iiFDlDgTlldteeliiqafnelleeyglselseeelrkliglslrellrklgeseeeee...........kieellrkyneekkk 75 
                              +iFD+DgT+++te+l++ a+  +l+  g++   e+ l++++g+++  +l+ + +     e           +i+ + +   +e   
  PHY93_15025|PHY93_15025  14 VIFDMDGTIVNTEPLHARAAVLVLKGLGIEIDLESCLDQFYGMTDTAVLKMSCPFLSDTEvdqaiaeknihLIKLFNKLSPSE--- 96 
                              7***********************99999666666789*******99999887765555566788887554444443333333... PP

                    HAD_2  76 kevkpydgvkelLeeLkeagyklgivTsksreaveekleqlgiesyFdvivtsedvekkKPdpeviekaleklklkkeeviyvGDs 161
                              k+    +g+ ++L+ Lk+++ +l++v+ +++  v+e l+ ++i+sy+d  ++ +++   KP+pe++++ +++lk+ ++++++++Ds
  PHY93_15025|PHY93_15025  97 KHQYTTPGLFDFLKFLKKENKQLAVVSASEDIIVNETLKCFEIHSYIDLQMGRHQTIFTKPHPEPYLEGMRRLKTGPSKTLIFEDS 182
                              5568999******************************************************************************* PP

                    HAD_2 162 ptDieaakkagikvia 177
                              pt++e+a + g  vi 
  PHY93_15025|PHY93_15025 183 PTGLESAVASGASVIR 198
                              ************9996 PP

>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.1   0.0   3.1e-13   9.4e-10       2     209 ..      12     192 ..      11     193 .. 0.82

  Alignments for each domain:
  == domain 1  score: 39.1 bits;  conditional E-value: 3.1e-13
                              SEEEEESBTTTBCHHHHHHHHHHHHCHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHETTTEHHHHTHHHHHHHH..HCHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxx RF
                Hydrolase   2 ktvvfDkdGTLttgepsvedvivsaalalaaaletgsehpigkalvaaakarsgaltgfatfigrgayaigkpewltal..dippd 85 
                              ++v+fD+dGT++++ep + ++ v +                      +  +++++l++        ++       + ++  ++ +d
  PHY93_15025|PHY93_15025  12 DAVIFDMDGTIVNTEPLHARAAVLV---------------------LKGLGIEIDLESCLD-----QFYGMTDTAVLKMscPFLSD 71 
                              79***********************.....................666666777755555.....55555555555554555555 PP

                              HHHHHHHHHHHCHHHHHHTTHHHHHHHHHHTHHBHTTHHHHHHHHHHTTEEEEEEESSEHHHHHHHHHHTT.GGGESEEEEHHCES CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxx RF
                Hydrolase  86 lgaaigsaqsqgrtvallqaralavftiadplkvkpeaaeavasLkaagievvlltgdnpetaeraanqlG.ddyfdaviasdiet 170
                               + +   a++  +   l   + l   + ++     p++ ++++ Lk+ + ++++++ ++   ++++++ +  + y+d   ++  + 
  PHY93_15025|PHY93_15025  72 TEVDQAIAEKNIHLIKLF--NKLSPSEKHQY--TTPGLFDFLKFLKKENKQLAVVSASEDIIVNETLKCFEiHSYIDLQMGRHQTI 153
                              566666666666666666..66777776666..**************************************888889999999999 PP

                              STTTSHHHHHHHHHHHTSTGGGEEEEESSHHHHHHHHHT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 171 vakpspegkvaaireLqgkpeevamVGDgvnDaaalaaA 209
                              + kp+pe +++ +r+L+  p++++ ++D++++++ + a 
  PHY93_15025|PHY93_15025 154 FTKPHPEPYLEGMRRLKTGPSKTLIFEDSPTGLESAVAS 192
                              *****************99************99998776 PP

>> HAD  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.0   0.0   1.2e-11   3.6e-08       1     151 [.      14     165 ..      14     193 .. 0.70

  Alignments for each domain:
  == domain 1  score: 34.0 bits;  conditional E-value: 1.2e-11
                      HAD   1 alfDfDgTLldgdslelllrfllrrgaprlwralreklllal......frellrldragl.aelleallaglseelaaelerfvae 79 
                              ++fD+DgT++++++l++ + +l+ +g     +  +e  l ++      +   l++++  l +  ++ + a  + +l++ ++++  +
  PHY93_15025|PHY93_15025  14 VIFDMDGTIVNTEPLHARAAVLVLKGLGI--EIDLESCLDQFygmtdtA--VLKMSCPFLsDTEVDQAIAEKNIHLIKLFNKLSPS 95 
                              79**************6666555554432..222222233331222331..22222222203333445555667777777777777 PP

                      HAD  80 virpklldpgalellaahraaGdrvvvvSgglrplvepllaelgadevlatelevdd.rltgelglegkpvrg 151
                              ++++   +pg+ ++l+  ++++ +++vvS++ +++v ++l+++ ++  ++ ++ +++  +t+   ++++   g
  PHY93_15025|PHY93_15025  96 EKHQY-TTPGLFDFLKFLKKENKQLAVVSASEDIIVNETLKCFEIHSYIDLQMGRHQtIFTKP--HPEPYLEG 165
                              77776.77********999*************************9999999999999999998..87777666 PP

>> NIF  NLI interacting factor-like phosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.4   0.0   1.4e-08   4.1e-05      28     136 ..      94     206 ..      12     214 .. 0.69

  Alignments for each domain:
  == domain 1  score: 23.4 bits;  conditional E-value: 1.4e-08
                      NIF  28 kvevsvlkRpgldefLkelskl.yevvifTasseeyaeavidildpekkllshrlyrescvkkkg...eyvKdLsllgrdlsrvvi 109
                              + e + +  pgl +fLk l k   ++ + +as    +++ ++ ++ +  +++ ++ r++++++k     y+  ++ l+   s+++i
  PHY93_15025|PHY93_15025  94 PSEKHQYTTPGLFDFLKFLKKEnKQLAVVSASEDIIVNETLKCFEIHS-YIDLQMGRHQTIFTKPhpePYLEGMRRLKTGPSKTLI 178
                              356678888*********9765499**********************8.7**********744333579***************** PP

                      NIF 110 vDdspdsfelqpe...ngipiksffsdkkD 136
                              ++dsp+  e+  +    +i+i+ f++  +D
  PHY93_15025|PHY93_15025 179 FEDSPTGLESAVAsgaSVIRITGFAH--SD 206
                              *****988775541116677777763..33 PP

>> Put_Phosphatase  Putative Phosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   0.7   0.00017      0.51      72     116 ..     101     143 ..      12     159 .. 0.78

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.00017
          Put_Phosphatase  72 lspglvelikslakkkleldliiiSDaNsffieeileaagledlF 116
                              ++pgl + +k+l+  k++ +l ++S +  + ++e+l+  +++++ 
  PHY93_15025|PHY93_15025 101 TTPGLFDFLKFLK--KENKQLAVVSASEDIIVNETLKCFEIHSYI 143
                              689*********4..56789******************9999875 PP

>> Hydrolase_like  HAD-hyrolase-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   5.5e-05      0.16       3      48 ..     155     199 ..     153     215 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 5.5e-05
                              STTSSHHHHHHHHHH---GGGEEEEES-TTTHHHHHHHCT-EEEEE CS
           Hydrolase_like   3 gKPepemydfalevlgsdpeevlmiGDrlatDiagAnnaGwksvLV 48 
                               KP+pe y + +++l+  p+++l+  D+  t +++A + G++ + +
  PHY93_15025|PHY93_15025 155 TKPHPEPYLEGMRRLKTGPSKTLIFEDS-PTGLESAVASGASVIRI 199
                              6***************************.9**********999866 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (217 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       425  (0.0237046); expected 358.6 (0.02)
Passed bias filter:                      372  (0.0207485); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.53u 0.26s 00:00:00.79 Elapsed: 00:00:00.45
# Mc/sec: 1440.84
//
Query:       PHY93_15030|PHY93_15030  [L=144]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (144 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       730  (0.0407162); expected 358.6 (0.02)
Passed bias filter:                      393  (0.0219198); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.26s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 1004.57
//
Query:       PHY93_15035|PHY93_15035  [L=335]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.5e-09   35.6   0.1    1.7e-08   34.6   0.1    1.5  1  DHH       DHH family
    2.4e-08   34.5   0.8    6.2e-08   33.2   0.6    1.7  1  DHHA1     DHHA1 domain


Domain annotation for each model (and alignments):
>> DHH  DHH family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.6   0.1   1.9e-12   1.7e-08       1     100 [.      16     162 ..      16     163 .. 0.85

  Alignments for each domain:
  == domain 1  score: 34.6 bits;  conditional E-value: 1.9e-12
                              EEEEE-ECSSSHHHHHHHHHHHH................................................CECS--TCGGCGCCH CS
                              xxxxxxxxxxxxxxxxxxxxxxx................................................xxxxxxxxxxxxxxx RF
                      DHH   1 kilivghknpDtDsigSaialan................................................llvDhneksqavege 38 
                              +i+i +h  pD+D+igS ial                                                  ++ D+n+ ++  ++ 
  PHY93_15035|PHY93_15035  16 NIVISTHIFPDADGIGSEIALCLamrslgknaicvneepllerykyldpqdcvisiedyhsfypdaevnlfIVTDTNSLERIGDKV 101
                              599**************777777678888888888888888888888888888888888888888888888899***999988776 PP

                              ..HCCCSEEEEEEE-S---SS---SS--EEEE-SSS-HHHHHHHHHHHTT----HHHHHHHHHH CS
                              ..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                      DHH  39 ..akeeaedviiiDHHrlgeefetlapilflnepvgstaeivaelleekkeeiskeiaellllg 100
                                + ++ ++ + iDHH  ++e+       +++++ ++t e++ +l++  ++e+++e+a  l+++
  PHY93_15035|PHY93_15035 102 rkFSSTIKEHLFIDHHPCPKEIMLS---NCIDTSKAATGELAGDLIKSIGVELTREMALPLYTA 162
                              44888888999*******8544444...79999*************************999988 PP

>> DHHA1  DHHA1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.2   0.6   6.9e-12   6.2e-08      62     132 ..     253     325 ..     237     331 .. 0.74

  Alignments for each domain:
  == domain 1  score: 33.2 bits;  conditional E-value: 6.9e-12
                              HHHTHGBT.TCEEEEEEEECTEEEEEEEESSHSS-HHHHHHHHHHHTTCCEEEETCEEEEEEE..........HCHHHHHHH CS
                    DHHA1  62 klksklkk.pvivfvakeegdkvkvsarskkdgvdagelakeaaaklgggGGGHdlAaGagip..........aekleeale 132
                               l+    +   +++ +k+ g+++kvs+rs +  +d+g +ak+      +gGGGHd  a++ i+          +ekl+ +le
  PHY93_15035|PHY93_15035 253 HLLV--LDnIKVAVMFKQIGPEIKVSLRSVG-VIDVGVMAKA------LGGGGHDHSAAFLIEgklddvikstIEKLQVLLE 325
                              5555..344789999999999*********9.**********......******8888888864455555555555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (335 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       586  (0.0326845); expected 358.6 (0.02)
Passed bias filter:                      520  (0.0290033); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.61u 0.28s 00:00:00.89 Elapsed: 00:00:00.49
# Mc/sec: 2038.71
//
Query:       PHY93_15040|PHY93_15040  [L=308]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.6e-28   97.7   0.0      2e-27   96.4   0.0    1.7  2  ABC_tran  ABC transporter
      2e-13   50.8   2.4    3.1e-07   30.5   0.2    2.2  2  AAA_21    AAA domain, putative AbiEii toxin, Type IV TA syste
     0.0027   17.3   0.0      0.012   15.2   0.0    1.9  2  AAA_27    AAA domain
  ------ inclusion threshold ------
      0.019   15.5   0.1      0.046   14.2   0.0    1.7  2  AAA_23    AAA domain
      0.056   13.2   0.4       0.17   11.6   0.1    1.7  2  AAA_30    AAA domain
      0.083   12.6   0.3       0.19   11.5   0.3    1.5  1  AAA_29    P-loop containing region of AAA domain
       0.16   11.4   0.9        6.1    6.2   0.2    2.4  2  SMC_N     RecF/RecN/SMC N terminal domain
       0.27   10.9   5.1       0.44   10.2   0.1    2.5  3  AAA_15    AAA ATPase domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   96.4   0.0     9e-31     2e-27       1     136 [.      24     158 ..      24     159 .. 0.95
   2 ?   -2.4   0.0       2.8   6.4e+03      85      85 ..     226     226 ..     173     264 .. 0.55

  Alignments for each domain:
  == domain 1  score: 96.4 bits;  conditional E-value: 9e-31
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH....... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren....... 79 
                              l+++s+++k+g++++++G+nGaGKSt +k+l+gl +  +Ge              +++ +ig+lp++p l p+++v++        
  PHY93_15040|PHY93_15040  24 LNDISFSVKKGSVHGFLGPNGAGKSTTMKILSGLIRESSGEF-------------KVNGKIGFLPEHPPLYPNMSVQDYlqfvlai 96 
                              799**************************************9.............7889*******************9******* PP

                              ........HHHTC.HHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              ........xxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ........esdee.iekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                                      +s++e + ++++k gl++++++ +     +LS+G +qrv +a+al+  p++++lDEpt
  PHY93_15040|PHY93_15040  97 ysppqgniQSNKEcVRDVMEKTGLSHVTERLI----GNLSKGYQQRVGIAQALVHSPEIIILDEPT 158
                              ****9998554446******************....*****************************9 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 2.8
                              H CS
                              x RF
                 ABC_tran  85 i 85 
                              i
  PHY93_15040|PHY93_15040 226 I 226
                              2 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.4   0.1   1.6e-07   0.00036       3      48 ..      38      77 ..      36     103 .. 0.74
   2 !   30.5   0.2   1.4e-10   3.1e-07     230     300 ..     124     190 ..      87     193 .. 0.87

  Alignments for each domain:
  == domain 1  score: 20.4 bits;  conditional E-value: 1.6e-07
                   AAA_21  3 vliGpNgsGKSnLLdaldllarldrdvegltdelsggggirkipsl 48
                             ++ GpNg+GKS+ +++l++l r       +  e+  +g+i+  p  
  PHY93_15040|PHY93_15040 38 GFLGPNGAGKSTTMKILSGLIR------ESSGEFKVNGKIGFLPEH 77
                             789**************99954......555555555555554444 PP

  == domain 2  score: 30.5 bits;  conditional E-value: 1.4e-10
                   AAA_21 230 qelparelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQviltTHSpl 300
                               e+ + +lS G ++  +++ al   +    ++++DEp  gL+P++++ + +l+ +l++ +  ++++TH+ +
  PHY93_15040|PHY93_15040 124 TERLIGNLSKGYQQRVGIAQALVHSP---EIIILDEPTVGLDPAAIADIRTLITKLKK-DHTILFSTHQLH 190
                              56667788888777778888999877...9***********************99988.9********975 PP

>> AAA_27  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0   5.2e-06     0.012      12      49 ..      20      57 ..      10      62 .. 0.86
   2 ?   -1.1   0.0      0.55   1.2e+03     153     178 ..     164     189 ..     162     196 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 5.2e-06
                   AAA_27 12 GkftdrsldfsaeeadlhliyGpNEAGKstalrAisdl 49
                             G+++ + ++fs ++ ++h  +GpN AGKst+++ +s l
  PHY93_15040|PHY93_15040 20 GRVALNDISFSVKKGSVHGFLGPNGAGKSTTMKILSGL 57
                             677778899***********************987766 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.55
                   AAA_27 153 aGlaslrevleaLeaeadelfkprks 178
                              a++a++r+++++L+++++ lf++++ 
  PHY93_15040|PHY93_15040 164 AAIADIRTLITKLKKDHTILFSTHQL 189
                              678999************99998875 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   2.1e-05     0.046      15      46 ..      27      61 ..       9     139 .. 0.77
   2 ?   -1.2   0.0       1.1   2.4e+03      98      98 ..     249     249 ..     168     303 .. 0.61

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 2.1e-05
                   AAA_23 15 idF...skgltlItGpNGaGKTTildAiklaLyge 46
                             i F   +  +  + GpNGaGK+T +  +     + 
  PHY93_15040|PHY93_15040 27 ISFsvkKGSVHGFLGPNGAGKSTTMKILSGLIRES 61
                             66666444577899*********998776555555 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 1.1
                   AAA_23  98 k 98 
                              +
  PHY93_15040|PHY93_15040 249 S 249
                              1 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.1   7.4e-05      0.17      19      46 ..      35      63 ..      28      72 .. 0.80
   2 ?   -1.3   0.0      0.66   1.5e+03      81     114 ..     132     178 ..     107     193 .. 0.61

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 7.4e-05
                   AAA_30 19 rvavltGpAGtGKttalkalreaweaa.g 46
                              v+   Gp G+GK+t++k l  +++++ g
  PHY93_15040|PHY93_15040 35 SVHGFLGPNGAGKSTTMKILSGLIRESsG 63
                             577889**************999998844 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 0.66
                   AAA_30  81 k.........grarlepgtllivDEagmv....dtkqlaallkaaek 114
                                        ++a +++ +++i DE  +     +++++++l+++++k
  PHY93_15040|PHY93_15040 132 SkgyqqrvgiAQALVHSPEIIILDEPTVGldpaAIADIRTLITKLKK 178
                              34455566665566667799999997654333356666666666655 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.3   8.3e-05      0.19      18      39 ..      30      51 ..      23      59 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 8.3e-05
                   AAA_29 18 eidlkg.atlltGpsGsGKSTll 39
                             +++ kg ++ + Gp+G+GKST +
  PHY93_15040|PHY93_15040 30 SVK-KGsVHGFLGPNGAGKSTTM 51
                             444.3458889**********75 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.2   0.2    0.0027       6.1      25      42 ..      35      52 ..       8      68 .. 0.76
   2 ?    3.5   0.0     0.018        40     160     199 ..     150     189 ..     103     205 .. 0.83

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.0027
                             SEEEEEESTTSSHHHHHH CS
                             xxxxxxxxxxxxxxxxxx RF
                    SMC_N 25 sftaivGpNGSGKsnlld 42
                             s+   +GpNG+GKs  + 
  PHY93_15040|PHY93_15040 35 SVHGFLGPNGAGKSTTMK 52
                             456679********9876 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.018
                              SEEEECTTTTTS-HHHHHHHHHHHHHHCTTSEEEEE-SSH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 160 plyllDeidaaLDeknvkkvaellkeksknaQfivislre 199
                               + +lDe    LD + ++ + +l+ + +k+  ++  +++ 
  PHY93_15040|PHY93_15040 150 EIIILDEPTVGLDPAAIADIRTLITKLKKDHTILFSTHQL 189
                              4789*************************99999999875 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.1    0.0002      0.44      25      51 ..      36      62 ..      23      88 .. 0.78
   2 ?    2.3   0.1      0.05   1.1e+02     296     366 ..     130     189 ..      85     191 .. 0.82
   3 ?   -1.5   0.1      0.71   1.6e+03     209     216 ..     255     262 ..     212     306 .. 0.44

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.0002
                   AAA_15 25 ltvliGkNnsGKSsilealdlFlnnke 51
                             +  + G+N++GKS+ +++l  ++ +++
  PHY93_15040|PHY93_15040 36 VHGFLGPNGAGKSTTMKILSGLIRESS 62
                             55689**************99999873 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.05
                   AAA_15 296 knGsGvqrllllillileaekkdekeeknvilliEEPEahLHpqaqkvlikllkelandnktQviitTHSp 366
                              + + G+q+ + ++  +++  +          ++++EP + L p a   +  l+ +l +d+   ++++TH  
  PHY93_15040|PHY93_15040 130 NLSKGYQQRVGIAQALVHSPEI---------IILDEPTVGLDPAAIADIRTLITKLKKDHT--ILFSTHQL 189
                              5667777777777777776655.........99*******************999999996..******65 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 0.71
                   AAA_15 209 edsekkss 216
                              +d++k ++
  PHY93_15040|PHY93_15040 255 DDKDKAKK 262
                              12222222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (308 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       550  (0.0306766); expected 358.6 (0.02)
Passed bias filter:                      474  (0.0264376); expected 358.6 (0.02)
Passed Vit filter:                        65  (0.00362541); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.61u 0.28s 00:00:00.89 Elapsed: 00:00:00.48
# Mc/sec: 1927.12
//
Query:       PHY93_15045|PHY93_15045  [L=244]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.5e-09   36.7  34.3    2.5e-09   36.7  34.3    2.4  2  ABC2_membrane_3  ABC-2 family transporter protein
    4.9e-09   35.9  23.4    4.7e-08   32.6  23.4    2.3  1  ABC2_membrane_2  ABC-2 family transporter protein
    0.00063   19.7  28.7    0.00075   19.5  25.9    2.1  1  ABC2_membrane_4  ABC-2 family transporter protein
  ------ inclusion threshold ------
      0.064   13.3   0.5      0.064   13.3   0.5    2.8  3  GPR_Gpa2_C       G protein-coupled glucose receptor regulatin
        2.4    8.0   5.3          9    6.2   4.0    2.4  2  DUF1418          Protein of unknown function (DUF1418)


Domain annotation for each model (and alignments):
>> ABC2_membrane_3  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -4.3   9.0         2   7.3e+03     234     281 ..      18      66 ..       6      72 .. 0.60
   2 !   36.7  34.3     7e-13   2.5e-09     163     310 ..      61     211 ..      39     239 .. 0.76

  Alignments for each domain:
  == domain 1  score: -4.3 bits;  conditional E-value: 2
          ABC2_membrane_3 234 pfgnlglllllfllfglayialgyllssl.fknsetaqilifivillls 281
                              +f+ l+++l  +++f++  +++ yl+ +   ++++++q++i++++  + 
  PHY93_15045|PHY93_15045  18 FFSPLIYILTGLFCFMMGWLFFNYLMQAKtLTTATMTQAVITPIFGNMN 66 
                              3445667777777777777777777755535555666666666655333 PP

  == domain 2  score: 36.7 bits;  conditional E-value: 7e-13
          ABC2_membrane_3 163 lvgliliilifitasfiavsiveEkesrikelqlvsgvsplqywlskilgdflvyllqlllilll..afglgipfg.nlglll... 242
                              ++g + +i++f++++ +++ ++eE+++ ++ l+l s++s  q++++k+++  ++ +++l +++++  +++  i+ + ++g++    
  PHY93_15045|PHY93_15045  61 IFGNMNFIFVFLCPLLTMRTFAEERKQSTLDLLLRSQLSEMQIIIGKFISNTVLVFFMLSFTFIFplILA--ISGYsDWGVVAssy 144
                              5667779999999************************************************9996669**..88888888877777 PP

          ABC2_membrane_3 243 llfllfglayialgyllsslfknsetaqilifivilllsgffgglfpledlp..salkwifsiiPffapg 310
                              l ++l  +ay+++g+++ssl++n+  a++l+f+++l  s  +++++++++ +    + ++ ++   f++ 
  PHY93_15045|PHY93_15045 145 LGVFLSVMAYLSVGLFCSSLTDNQIVASLLTFCILL-GS--MLMVITVNATNnyLLALIVQYLTVPFHYE 211
                              ****************************99999987.55..55555555555113333445555555555 PP

>> ABC2_membrane_2  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.6  23.4   1.3e-11   4.7e-08       3     237 ..       9     205 ..       7     242 .. 0.73

  Alignments for each domain:
  == domain 1  score: 32.6 bits;  conditional E-value: 1.3e-11
          ABC2_membrane_2   3 iakkEfrdlvrsrrfllltvllplidvalaylkdlgsslqseakaikeatlaleyveaasasdeaedtdqdlkvvstimavlipvi 88 
                              ++kkE++d+  s+ +++lt l+ ++      +  l ++  ++ak +  at ++++                   + + m ++++++
  PHY93_15045|PHY93_15045   9 LVKKELKDSFFSPLIYILTGLFCFM------MGWLFFNYLMQAKTLTTATMTQAVITP----------------IFGNMNFIFVFL 72 
                              7899999999999999999999999......444444555555555555555433322................35689******* PP

          ABC2_membrane_2  89 aalfgadaiagEkergTlkllLskPvsRdeillgKfigglaiglaiavallatvllalaiilalgivlaledllllvvasvlllll 174
                                l+++  +a+E+ + Tl llL +  s ++i++gKfi++ ++ ++ +++++ ++ l lai+ ++   + ++++l ++++++     
  PHY93_15045|PHY93_15045  73 CPLLTMRTFAEERKQSTLDLLLRSQLSEMQIIIGKFISNTVL-VFFMLSFTFIFPLILAISGYSDWGVVASSYLGVFLSVM----- 152
                              ******************************************.33444444444456888888888888888888777777..... PP

          ABC2_membrane_2 175 vvflalglllSsvarssreaaalalglfvvlailvpivlygvaellagpavpqeindflslls 237
                               ++l++gl+ Ss++ ++ +a +l + +++  +++v+ v ++ ++lla         +++++l+
  PHY93_15045|PHY93_15045 153 -AYLSVGLFCSSLTDNQIVASLLTFCILLGSMLMVITVNATNNYLLA---------LIVQYLT 205
                              .6799**********99888888888888888888877766444444.........3444444 PP

>> ABC2_membrane_4  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.5  25.9   2.1e-07   0.00075      12     176 ..      20     179 ..       9     210 .. 0.77

  Alignments for each domain:
  == domain 1  score: 19.5 bits;  conditional E-value: 2.1e-07
          ABC2_membrane_4  12 skivwllvlaallvpllallyfnllgktgldpaefysls...vfgftlllllplilgiiasylifrEeqndtlknLltiPvsrtkl 94 
                              s ++++l  + ++++ ++++  +l+++++l +a++++      fg ++ ++++++  +++ + + +E+++ tl  Ll    s++++
  PHY93_15045|PHY93_15045  20 SPLIYILTGLFCFMMGWLFFN-YLMQAKTLTTATMTQAVitpIFG-NMNFIFVFLCPLLTMRTFAEERKQSTLDLLLRSQLSEMQI 103
                              567778777777776654443.33455666666666643111344.45689999999***************************** PP

          ABC2_membrane_4  95 llaKlivllllsvllmlvtflitvlfallsgfvgfsvklvlellkkclelgllvffavlpiialvllkksyvlpliltlvyt 176
                              +++K+i   +l v++ml +++i  l+  +sg++  +++ v+     +l ++l v++ +++ ++ ++l+ +++++ +lt+ + 
  PHY93_15045|PHY93_15045 104 IIGKFISNTVL-VFFMLSFTFIFPLILAISGYS--DWGVVA---SSYLGVFLSVMAYLSVGLFCSSLTDNQIVASLLTFCIL 179
                              *******9886.777777776777777888888..454544...45788888888778877888999999999999998765 PP

>> GPR_Gpa2_C  G protein-coupled glucose receptor regulating Gpa2 C-term
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.5   1.8e-05     0.064       7      65 ..      10      68 ..       4      88 .. 0.90
   2 ?    0.8   0.1      0.14   5.1e+02      25      53 ..     123     154 ..     114     173 .. 0.65
   3 ?   -1.5   0.1      0.78   2.8e+03      46      46 ..     177     177 ..     143     224 .. 0.60

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.8e-05
               GPR_Gpa2_C  7 ierqlrsifiYPlaYiilwlfPfvahvlqydyelkekpviwllvvaavvqplnglVDtl 65
                             ++++l+  f  Pl Yi+  lf f++  l ++y ++ k+    ++ +av++p+ g  + +
  PHY93_15045|PHY93_15045 10 VKKELKDSFFSPLIYILTGLFCFMMGWLFFNYLMQAKTLTTATMTQAVITPIFGNMNFI 68
                             78999999*******************************************99988865 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.14
               GPR_Gpa2_C  25 wlfPfvahvlqydye...lkekpviwllvvaa 53 
                              ++fP+++ +  y+      + +  + l v+a 
  PHY93_15045|PHY93_15045 123 FIFPLILAISGYSDWgvvASSYLGVFLSVMAY 154
                              68999999988873322223333344444444 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 0.78
               GPR_Gpa2_C  46 i 46 
                              +
  PHY93_15045|PHY93_15045 177 C 177
                              1 PP

>> DUF1418  Protein of unknown function (DUF1418)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.2   4.0    0.0025         9      11      57 ..     139     186 ..     131     190 .. 0.81
   2 ?    1.0   1.1      0.11   3.9e+02      14      33 ..     177     196 ..     169     207 .. 0.86

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.0025
                  DUF1418  11 vlilevlGliLLvlayLsvndyls.LPgplsskeaaivmiflGvllll 57 
                              v+ + +lG+ L v+ayLsv  + s L ++    +  +  i lG +l++
  PHY93_15045|PHY93_15045 139 VVASSYLGVFLSVMAYLSVGLFCSsLTDNQIVASLLTFCILLGSMLMV 186
                              88899**************99975377766667777778888888887 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.11
                  DUF1418  14 levlGliLLvlayLsvndyl 33 
                              + +lG +L+v++  + n+yl
  PHY93_15045|PHY93_15045 177 CILLGSMLMVITVNATNNYL 196
                              557999******99999997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (244 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1127  (0.0628591); expected 358.6 (0.02)
Passed bias filter:                      325  (0.0181271); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.61u 0.27s 00:00:00.88 Elapsed: 00:00:00.46
# Mc/sec: 1581.93
//
Query:       PHY93_17120|PHY93_17120  [L=339]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (339 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       633  (0.0353059); expected 358.6 (0.02)
Passed bias filter:                      439  (0.0244855); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.58u 0.22s 00:00:00.80 Elapsed: 00:00:00.44
# Mc/sec: 2331.12
//
Query:       PHY93_15050|PHY93_15050  [L=508]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      2e-24   86.5   1.2    5.1e-24   85.2   1.2    1.7  1  ABC_transp_aux  ABC-type uncharacterized transport system
  ------ inclusion threshold ------
      0.029   14.3   0.0      0.067   13.2   0.0    1.5  1  Thioredoxin     Thioredoxin
        3.8    7.5   7.7         39    4.2   7.7    2.3  1  PIG-P           PIG-P


Domain annotation for each model (and alignments):
>> ABC_transp_aux  ABC-type uncharacterized transport system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.2   1.2   8.6e-28   5.1e-24       3     266 ..      97     318 ..      95     319 .. 0.85

  Alignments for each domain:
  == domain 1  score: 85.2 bits;  conditional E-value: 8.6e-28
           ABC_transp_aux   3 DlTadklYtLsdatkellknleepvtikvylsenlalppelkalekevkdlLeeyaaysggkisvefidpspneeeeeeaeaygit 88 
                              Dl+a k ++L+d+tk++lkn++ ++++k+++ +++               l+e y+a+++ ++++  +d++  +         ++ 
  PHY93_15050|PHY93_15050  97 DLSAYKMNSLTDQTKNVLKNMKGELKFKLFARKQD---------SLAWITLFEFYRAEKN-NLEISKVDIDVRP---------DLV 163
                              9*********************************7.........457799*******988.*********9777.........444 PP

           ABC_transp_aux  89 pvqisveekdelktkrvymglvieygdkeetipllkntsesnlEyeltsairkltdkkkpkvgfltghgelsls.s.pse.adfle 171
                              + ++  +       +++   lviey++k++++    +++    E ++t+a+ k+++ + p+ +f++ghge++++   ++  + + e
  PHY93_15050|PHY93_15050 164 A-DYHIT-------DTA--TLVIEYNGKRQYV----TER---DELNITNALIKISRASDPVAYFVQGHGEADINsVeTEGlKYIFE 232
                              4.33333.......233..57899****9997....333...59****************************98554444555889 PP

           ABC_transp_aux 172 elee.nYnveevdldsedilpedidvlviakptkdlseeelykldqflmnGgkllvfldpvaeeqdslsepsaaprtsnLedllae 256
                               +++   +v++++l s++++p d ++l++ +p+++l+++el+ +++fl++ g+llv++dp    +           ++ L +ll++
  PHY93_15050|PHY93_15050 233 AIKNsAIDVRPLNLLSTQEIPFDAKTLILWGPKTALQPTELKVIQRFLDRKGNLLVAIDPDLNLD----------PQPALRKLLER 308
                              99999*******************************************************87333..........34578888888 PP

           ABC_transp_aux 257 yGvrinpglV 266
                              y + i+++l+
  PHY93_15050|PHY93_15050 309 YRLIIRNDLI 318
                              8888888776 PP

>> Thioredoxin  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   1.1e-05     0.067      46      95 ..     144     191 ..     136     199 .. 0.80

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.1e-05
                              HCTTTSEEEEEETTTSHHHHHHTT-SSSSEEEEEETTEEEEEEESS-HHH CS
              Thioredoxin  46 elkdkvklakvdvdenedlakkyevegiPtlklfkngkevkkyegareke 95 
                              + k+++ + kvd+d  +dl+++y+++   tl++  ngk  ++y+ +r++ 
  PHY93_15050|PHY93_15050 144 AEKNNLEISKVDIDVRPDLVADYHITDTATLVIEYNGK--RQYVTERDEL 191
                              45679********************************9..4555555544 PP

>> PIG-P  PIG-P
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   7.7    0.0064        39      12      88 ..      37     113 ..       2     174 .. 0.71

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.0064
                    PIG-P  12 lstlafllyllwallPeevlhalgityypnryWalavpayllmlvlyiyvalaslnlevltpplds.....letivDeaakv 88 
                              l+++ ++l l+w++l  e    l+i yy ++++  + +a++ + +++++++ + +   ++ p  ++     ++ ++D+ ++v
  PHY93_15050|PHY93_15050  37 LTVFNLVLTLVWVYLNREG---LSI-YYQSQQFKKLTEALVFISLVFCLLGVVNYWA-FKHPIQKDlsaykMNSLTDQTKNV 113
                              5667788888888888874...445.7778889888888888777777777666655.444332223345588888888865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (508 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       993  (0.0553851); expected 358.6 (0.02)
Passed bias filter:                      546  (0.0304535); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.67u 0.28s 00:00:00.95 Elapsed: 00:00:00.45
# Mc/sec: 3426.32
//
Query:       PHY93_15055|PHY93_15055  [L=461]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (461 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       669  (0.0373138); expected 358.6 (0.02)
Passed bias filter:                      470  (0.0262145); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.65u 0.28s 00:00:00.93 Elapsed: 00:00:00.48
# Mc/sec: 2876.41
//
Query:       PHY93_15060|PHY93_15060  [L=200]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.077   12.8   0.2         17    5.2   0.5    2.4  2  Oleosin   Oleosin


Domain annotation for each model (and alignments):
>> Oleosin  Oleosin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   0.0     0.001        18      71     107 ..      95     131 ..      77     136 .. 0.81
   2 ?    5.2   0.5   0.00095        17      28      41 ..     172     185 ..     148     200 .] 0.83

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.001
                  Oleosin  71 sslswlykyvrgkhpagadkldqakrrladkasevke 107
                                +++ yk  +g  +  a+ +d+  +rl++ka+e+ +
  PHY93_15060|PHY93_15060  95 FLFQFAYKFWKGAFKFYANIFDYEDQRLEEKADEILN 131
                              457899**************************99866 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.00095
                  Oleosin  28 vigLavatPllvlf 41 
                                +L+++tPl++lf
  PHY93_15060|PHY93_15060 172 QASLVIITPLFLLF 185
                              5689********98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (200 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       858  (0.0478554); expected 358.6 (0.02)
Passed bias filter:                      330  (0.0184059); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.26s 00:00:00.79 Elapsed: 00:00:00.46
# Mc/sec: 1318.15
//
Query:       PHY93_15065|PHY93_15065  [L=214]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.2e-55  187.2   0.1    2.6e-55  187.0   0.1    1.0  1  TK        Thymidine kinase
  ------ inclusion threshold ------
       0.12   11.7   0.3       0.21   10.9   0.0    1.5  2  ApoL      Apolipoprotein L
       0.16   12.2   0.3        2.3    8.5   0.3    2.3  1  AAA_22    AAA domain


Domain annotation for each model (and alignments):
>> TK  Thymidine kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  187.0   0.1   4.4e-59   2.6e-55       1     176 [.      12     185 ..      12     186 .. 0.98

  Alignments for each domain:
  == domain 1  score: 187.0 bits;  conditional E-value: 4.4e-59
                       TK   1 gsielilgpmfaGKsteLlrrvkryqlaekkvvvikaakdnRysegkvvthdgisleakksktssleeikeeleeedvdvvlvDEa 86 
                              gsie+++gpmf+GK++eL+rrvkr+q+a+ kv ++k+a+dnRy+e++vv+h+  s+ea+   ++s+ ei +++ + ++ vv++DE+
  PHY93_15065|PHY93_15065  12 GSIEVVCGPMFSGKTEELIRRVKRAQIARLKVQIFKPAIDNRYHETEVVSHSAQSMEAT--PVNSSVEILQKVFD-STRVVAIDEV 94 
                              68*********************************************************..99999999999988.59******** PP

                       TK  87 qFfeqdivelseklanegkivivagLdtdFerklFenilkllalaekvkklkavCmkCgkkAsftkrln.kekeviliGgkekYvs 171
                              qFf+++i  + ekla  g++vi+agLd dF++ +F+++  lla+a++v k++a+C++Cg  As t r+n ke++++l+G  ++Y++
  PHY93_15065|PHY93_15065  95 QFFDENISIVVEKLARRGIRVIMAGLDQDFQGLPFGPMAALLAIADTVDKIHAICTICGAGASKTFRKNpKESTQVLVGETDLYEA 180
                              *********************************************************************99*************** PP

                       TK 172 vCrkc 176
                               Cr++
  PHY93_15065|PHY93_15065 181 RCRAH 185
                              ***98 PP

>> ApoL  Apolipoprotein L
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0      0.56   3.3e+03     232     232 ..      61      61 ..      23      93 .. 0.53
   2 ?   10.9   0.0   3.5e-05      0.21      80     100 ..     134     154 ..     131     160 .. 0.83

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 0.56
                     ApoL 232 s 232
                              s
  PHY93_15065|PHY93_15065  61 S 61 
                              1 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 3.5e-05
                     ApoL  80 kLralAdevdkvHrdctisnv 100
                               L a+Ad vdk+H  cti   
  PHY93_15065|PHY93_15065 134 ALLAIADTVDKIHAICTICGA 154
                              6889**************765 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.5   0.3   0.00038       2.3      91     129 ..      72     119 ..      10     127 .. 0.59

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.00038
                   AAA_22  91 v.............ielliiDEaqhlrseealeeLrsllnlsrkgvqliLvG 129
                              v             ++++ iDE+q++  +e+++ +++ l   r g+++i++G
  PHY93_15065|PHY93_15065  72 VnssveilqkvfdsTRVVAIDEVQFF--DENISIVVEKLA--RRGIRVIMAG 119
                              33333444444556788888888888..555555555555..6777777766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (214 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       510  (0.0284455); expected 358.6 (0.02)
Passed bias filter:                      409  (0.0228122); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 1427.00
//
Query:       PHY93_15070|PHY93_15070  [L=172]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.4e-23   81.0   0.1      8e-23   80.7   0.1    1.0  1  Pribosyltran  Phosphoribosyl transferase domain


Domain annotation for each model (and alignments):
>> Pribosyltran  Phosphoribosyl transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   80.7   0.1   4.5e-27     8e-23       9     158 ..      14     159 ..       8     160 .. 0.90

  Alignments for each domain:
  == domain 1  score: 80.7 bits;  conditional E-value: 4.5e-27
                              --EEEEEEETTEEEEEE--GGGEEEEEEETTTHHHHHHHHHHSTT-EE..-EEEEEE-TTT--EE........EE----TTSEEEE CS
             Pribosyltran   9 paildavarlaaeileeyngkpdvvvgiargGvpfakiladeLevpla..yvrkvkyrpdgseeaargssdesrlledpagkkVli 92 
                              + i+++v++la+ i++ey++++ ++v+++ g+++f  +l ++++vpl   +v+ ++y++  s++ +    d      ++ gk V++
  PHY93_15070|PHY93_15070  14 ELIEKRVKELAEMINSEYQNQEIIIVCVLNGSFIFCADLVRHITVPLQieMVSLSSYEGTESTGEVSFRLD---VRQSLIGKNVIL 96 
                              56789**************************************9997654888888888888888754444...9*********** PP

                              E-SEESSSHHHHHHHHHHHCC-BSEEEEEEEEE-HHHHHHHHHH-TTS.....EEEEEEE-SEE-T CS
             Pribosyltran  93 VDDildtGgTllaalelLkekgpeevriavlvdkpateeevdknakrvfslspdnfvavvgfelds 158
                              V+Di+dtG T+++ l+++k k+ ++++++ l+ k+a+ + +   ++ +f ++   +++v+g++ld+
  PHY93_15070|PHY93_15070  97 VEDIVDTGLTINYLLKHMKLKNLKSLKLCSLLLKRARLKIEVPVDYLGFDIE---DKFVIGYGLDY 159
                              *************************************999999999999888...88888888886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (172 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       661  (0.0368676); expected 358.6 (0.02)
Passed bias filter:                      472  (0.0263261); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1155.38
//
Query:       PHY93_15075|PHY93_15075  [L=348]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      1e-07   32.1   0.1    2.2e-07   31.0   0.1    1.6  1  GHMP_kinases_N  GHMP kinases N terminal domain
    0.00064   20.0   0.9     0.0015   18.8   0.0    2.1  2  GHMP_kinases_C  GHMP kinases C terminal


Domain annotation for each model (and alignments):
>> GHMP_kinases_N  GHMP kinases N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.0   0.1   2.4e-11   2.2e-07       2      66 .]     108     176 ..     107     176 .. 0.80

  Alignments for each domain:
  == domain 1  score: 31.0 bits;  conditional E-value: 2.4e-11
                              EEEEESSHTTSSSCHHHHHHHHHHHHHHHHTTEHHHH....HHH.HHHHHHHHHHHHHHSHHHHHHHHSS CS
           GHMP_kinases_N   2 ivikseiPvgaGLGSSAAlavalvaAllallglslee....akl.aleaerlaqggngsggDvaasvyGg 66 
                              ++++s  P+gaGLG+S+A+ v+  aAl ++ gl+++      k  ++ea r+   g  + +D +++++Gg
  PHY93_15075|PHY93_15075 108 LELESGSPPGAGLGGSSAMGVTCYAALSHFEGLDFDRidaiQKVnSIEA-RILDCGPAGYQDYYPAMFGG 176
                              7899999*************************99633356655524444.4444499***********98 PP

>> GHMP_kinases_C  GHMP kinases C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.4      0.57   5.1e+03      53      61 ..     115     123 ..     108     126 .. 0.76
   2 !   18.8   0.0   1.7e-07    0.0015       4      64 ..     251     312 ..     247     330 .. 0.80

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 0.57
           GHMP_kinases_C  53 lsGaGgGpt 61 
                               +GaG+G++
  PHY93_15075|PHY93_15075 115 PPGAGLGGS 123
                              589999998 PP

  == domain 2  score: 18.8 bits;  conditional E-value: 1.7e-07
           GHMP_kinases_C   4 alergdlellgellnlsqrs..elkavvgilppeleellealselG.algaklsGaGgGptvfa 64 
                               ++++d+  l  l+ l  +   +l    gil+p + +l +++++lG  +g k++GaGgG+++  
  PHY93_15075|PHY93_15075 251 SIQKKDYTGLIPLIGLEGEErrKL--FPGILTPTMQALHQEMKSLGnHFGMKVCGAGGGGCFLL 312
                              567788888888888777775544..889***************************88888754 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (348 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       286  (0.0159518); expected 358.6 (0.02)
Passed bias filter:                      269  (0.0150036); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.25s 00:00:00.79 Elapsed: 00:00:00.44
# Mc/sec: 2351.07
//
Query:       PHY93_15080|PHY93_15080  [L=313]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (313 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       719  (0.0401026); expected 358.6 (0.02)
Passed bias filter:                      503  (0.0280551); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.57u 0.26s 00:00:00.83 Elapsed: 00:00:00.45
# Mc/sec: 2068.59
//
Query:       PHY93_15085|PHY93_15085  [L=84]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.4e-06   25.0   0.0    1.1e-05   24.8   0.0    1.0  1  DUF3419   Protein of unknown function (DUF3419)


Domain annotation for each model (and alignments):
>> DUF3419  Protein of unknown function (DUF3419)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.8   0.0   6.2e-10   1.1e-05       9      77 ..       5      75 ..       3      82 .. 0.85

  Alignments for each domain:
  == domain 1  score: 24.8 bits;  conditional E-value: 6.2e-10
                  DUF3419  9 eliYaftWEDprvdeeaLklepd.drvlaItSaGdNaLsYllaspk.rihaVDlNpaqnaLleLKlaaira 77
                             +l +a++ EDp+++  ++k +++  ++l+I S+G+ a+s  l +p+ + + V  Npaq++L++ K   +++
  PHY93_15085|PHY93_15085  5 QLQFAVVREDPEIECDLIKNNSQiKKILMIGSGGCTAFSVRLMNPNiEQTLVEPNPAQIYLIKTKEKLLAE 75
                             5778999************9877589**************98888636789***********999776665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (84 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       297  (0.0165653); expected 358.6 (0.02)
Passed bias filter:                      205  (0.011434); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.43
# Mc/sec: 589.12
//
Query:       PHY93_20815|PHY93_20815  [L=403]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (403 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       320  (0.0178482); expected 358.6 (0.02)
Passed bias filter:                      143  (0.0079759); expected 358.6 (0.02)
Passed Vit filter:                         2  (0.000111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.56u 0.22s 00:00:00.78 Elapsed: 00:00:00.44
# Mc/sec: 2720.84
//
Query:       PHY93_20820|PHY93_20820  [L=108]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.9e-16   59.5   0.2    3.6e-16   59.1   0.2    1.0  1  Cupredoxin_1  Cupredoxin-like domain
  ------ inclusion threshold ------
       0.16   11.8   0.1       0.17   11.7   0.1    1.2  1  PAW           PNGase C-terminal domain, mannose-binding modul


Domain annotation for each model (and alignments):
>> Cupredoxin_1  Cupredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.1   0.2     4e-20   3.6e-16       3     102 ..       7     107 ..       5     107 .. 0.92

  Alignments for each domain:
  == domain 1  score: 59.1 bits;  conditional E-value: 4e-20
             Cupredoxin_1   3 aalavllllsskaaaaaektveitvkdggfePskievkagekvklki.knkdktp.eefesedlgeekvlapgktttitiaplkpG 86 
                              ++l++l+ l  ++aa + +t+++ ++++gfePs+i+v a+++v l + +n+d+t+ +e+ +++ + +++l+ +kt  i++ +lk+G
  PHY93_20820|PHY93_20820   7 MFLVILFSLNFASAATNIETIKVLASEKGFEPSTIKVDANKEVILAVtRNTDSTCaKEILIPSKKLKQELPLNKTVFIKLGKLKKG 92 
                              678899999999999*****************************997256777768****************************** PP

             Cupredoxin_1  87 eYeftcdmhmdakGkl 102
                              + +f c+m+m+  G++
  PHY93_20820|PHY93_20820  93 QVSFSCGMDMF-TGVI 107
                              **********9.7865 PP

>> PAW  PNGase C-terminal domain, mannose-binding module PAW
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.1   1.9e-05      0.17      97     147 ..      11      61 ..       6      96 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 1.9e-05
                              EEEEEE-GGGTEEEEEEEEEEEEEE-TT-EEEEEEE-SS-EEEE--.ECEE CS
                      PAW  97 isWkfdlsesglkvksvklkaksktfekgkveiklesdkakvelksedkel 147
                              i + ++++++ ++++++k+ a++k fe +++++  +++    + +++d+++
  PHY93_20820|PHY93_20820  11 ILFSLNFASAATNIETIKVLASEKGFEPSTIKVDANKEVILAVTRNTDSTC 61 
                              78999***************************9999865544444444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (108 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       404  (0.0225333); expected 358.6 (0.02)
Passed bias filter:                      302  (0.0168442); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.42
# Mc/sec: 767.98
//
Query:       PHY93_17125|PHY93_17125  [L=176]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    6.4e-10   39.0   0.0    7.2e-10   38.8   0.0    1.2  1  PNK3P           Polynucleotide kinase 3 phosphatase
    1.5e-07   31.4   0.1    1.4e-06   28.3   0.0    2.3  2  Hydrolase_like  HAD-hyrolase-like
    0.00025   21.2   0.7     0.0023   18.1   0.0    2.6  2  HAD_2           Haloacid dehalogenase-like hydrolase
  ------ inclusion threshold ------
       0.12   12.5   0.0       0.21   11.7   0.0    1.6  1  Hydrolase_6     Haloacid dehalogenase-like hydrolase
       0.21   11.4   0.0       0.32   10.7   0.0    1.2  1  FAD_binding_4   FAD binding domain


Domain annotation for each model (and alignments):
>> PNK3P  Polynucleotide kinase 3 phosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.8   0.0     2e-13   7.2e-10      26     130 ..      31     133 ..      11     170 .. 0.82

  Alignments for each domain:
  == domain 1  score: 38.8 bits;  conditional E-value: 2e-13
                    PNK3P  26 dwkllsesvlekLkklkeegykivifsNqggvvek.ktkkslekfkekieallke..ldvpllvyaatkkdkyRKPetGmweelkk 108
                              d ++++  + e ++  +++g  +++++Nq+gv++   ++ ++  + + ++++l++  l+v+ +vy+   +   RKP++Gm+ e  +
  PHY93_17125|PHY93_17125  31 DIQWVD-GIFELIHFANTHGLLVIVLTNQSGVAQGkYQEADVIALHNEMKKFLEArnLRVDDWVYCTEYDSDRRKPRPGMMIEARD 115
                              555554.6899999999****************97577888999999999999752278889*******99*********876654 PP

                    PNK3P 109 dleekleidkeksfyvGDaagr 130
                              +     +id ++s+ +GD a  
  PHY93_17125|PHY93_17125 116 K----HNIDLSQSYMIGDKASD 133
                              4....4689*********9975 PP

>> Hydrolase_like  HAD-hyrolase-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.0      0.15   5.2e+02      47      59 ..      60      72 ..      42      84 .. 0.56
   2 !   28.3   0.0   3.8e-10   1.4e-06       3      35 ..     103     134 ..     101     168 .. 0.95

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.15
                             EESSSSS-TTTHH CS
           Hydrolase_like 47 LVltGvtrpedle 59
                              V++G+++++d+ 
  PHY93_17125|PHY93_17125 60 GVAQGKYQEADVI 72
                             4666677776655 PP

  == domain 2  score: 28.3 bits;  conditional E-value: 3.8e-10
                              STTSSHHHHHHHHHH---GGGEEEEES-TTTHH CS
           Hydrolase_like   3 gKPepemydfalevlgsdpeevlmiGDrlatDi 35 
                              +KP p+m+ +a+ ++++d ++++miGD+ a+D+
  PHY93_17125|PHY93_17125 103 RKPRPGMMIEARDKHNIDLSQSYMIGDK-ASDL 134
                              8***************************.*997 PP

>> HAD_2  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.0   6.3e-07    0.0023     126     165 ..      95     134 ..       5     136 .. 0.88
   2 ?    0.4   0.1      0.17     6e+02      73      93 ..     155     175 ..     149     176 .] 0.76

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 6.3e-07
                    HAD_2 126 vtsedvekkKPdpeviekaleklklkkeeviyvGDsptDi 165
                              +t+ d  ++KP p ++ +a +k +++ ++  ++GD+ +D+
  PHY93_17125|PHY93_17125  95 CTEYDSDRRKPRPGMMIEARDKHNIDLSQSYMIGDKASDL 134
                              345578899****************************996 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.17
                    HAD_2  73 kkkkevkpydgvkelLeeLke 93 
                              +k+k+ ++++ +k++Le Lk+
  PHY93_17125|PHY93_17125 155 EKNKKAEIFSSLKDILERLKK 175
                              444578999999999999987 PP

>> Hydrolase_6  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   5.8e-05      0.21       2      49 ..      12      68 ..      11      95 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 5.8e-05
                             EEESTTTSE.........ETTEE-TTHHHHHHHHHHTT-EEEEEE---SS-HHHHHH CS
              Hydrolase_6  2 lfDidGvLw.........rgdkaipgaaealnalraagkpvvllTNnsskseeeyak 49
                             ++D dG L          ++ + ++g  e++++ + +g  v++lTN+s+  + +y++
  PHY93_17125|PHY93_17125 12 FLDRDGILNidkayvyrfEDIQWVDGIFELIHFANTHGLLVIVLTNQSGVAQGKYQE 68
                             6788888887777777666778999************************99888876 PP

>> FAD_binding_4  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   8.9e-05      0.32      14      58 ..      39      83 ..      33      90 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 8.9e-05
                             HHHHHHHHHCTSCEEEESSSTTEESTTCSCCEEEEEETT.S--EEE CS
            FAD_binding_4 14 aaalrlaneaglpvlvrGgGssllgqavatggvvldlsr.lnrile 58
                              +++++an +gl v+v+ + s+++++++ +++ v+ l++ ++++le
  PHY93_17125|PHY93_17125 39 FELIHFANTHGLLVIVLTNQSGVAQGKY-QEADVIALHNeMKKFLE 83
                             5789********************7776.66666666655999877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (176 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       485  (0.0270511); expected 358.6 (0.02)
Passed bias filter:                      365  (0.0203581); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.42
# Mc/sec: 1268.93
//
Query:       PHY93_20825|PHY93_20825  [L=157]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.18    9.9   0.4       0.19    9.8   0.4    1.0  1  UPF0182   Uncharacterised protein family (UPF0182)


Domain annotation for each model (and alignments):
>> UPF0182  Uncharacterised protein family (UPF0182)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.4     1e-05      0.19     187     275 ..      38     124 ..      11     136 .. 0.65

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 1e-05
                  UPF0182 187 hlsvllallllllalsywLdryellyskrgvvtGagYtdvnavlpaktilavialvvavlllvaivlkklklplialallvllail 272
                              hl   +++l ++  l+    + +l + ++  ++Ga+Y d++  + ++ + +vial++     +++++ + k+ ++++++l+ l++ 
  PHY93_20825|PHY93_20825  38 HLGSAIGTLSICPQLGASTFKTHLNLIHHLNFFGAKYCDLTCGIFFTGVSMVIALLILSRDEIRVLKFN-KFYTASVLILFSLSF- 121
                              5555555555555555444444555556778***************99999999988777666663333.233333333333333. PP

                  UPF0182 273 lgv 275
                              l +
  PHY93_20825|PHY93_20825 122 LLM 124
                              344 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (157 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       806  (0.0449551); expected 358.6 (0.02)
Passed bias filter:                      399  (0.0222544); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1058.50
//
Query:       PHY93_20830|PHY93_20830  [L=773]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.8e-53  180.8   4.0    1.8e-53  180.8   4.0    2.6  2  E1-E2_ATPase     E1-E2 ATPase
    1.7e-27   97.1   1.6    6.4e-27   95.2   0.3    2.5  2  Hydrolase        haloacid dehalogenase-like hydrolase
    5.6e-17   61.6   0.0    1.5e-16   60.2   0.0    1.7  1  Cation_ATPase    Cation transport ATPase (P-type)
    3.4e-16   59.5   0.0    3.4e-16   59.5   0.0    2.4  3  Cation_ATPase_C  Cation transporting ATPase, C-terminus
      7e-13   48.1   0.5    2.4e-12   46.4   0.5    2.0  1  Cation_ATPase_N  Cation transporter/ATPase, N-terminus
    7.6e-07   29.1   3.0     0.0066   16.2   0.2    2.9  3  Hydrolase_3      haloacid dehalogenase-like hydrolase
    1.5e-05   25.5   0.0    3.7e-05   24.2   0.0    1.7  1  HAD              haloacid dehalogenase-like hydrolase
  ------ inclusion threshold ------
      0.031   14.2   0.0       0.58   10.1   0.0    2.6  2  DBB              Dof, BCAP, and BANK (DBB) motif,
       0.17   12.2   0.1       0.52   10.6   0.1    1.8  1  DUF4099          Protein of unknown function (DUF4099)
        4.5    7.6   7.5        7.5    6.9   1.6    2.7  2  DUF4395          Domain of unknown function (DUF4395)


Domain annotation for each model (and alignments):
>> E1-E2_ATPase  E1-E2 ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.9      0.33   5.9e+02     108     137 ..      44      73 ..      37      95 .. 0.52
   2 !  180.8   4.0   9.9e-57   1.8e-53       2     181 .]     109     301 ..     108     301 .. 0.99

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 0.33
                              --HHHHHHHHHHHHHHHHHHHHHHHHHHS- CS
             E1-E2_ATPase 108 ktplqkkldklgkvlvpvvlliallvflia 137
                                +lq+ l++l + ++++ l+++++ + + 
  PHY93_20830|PHY93_20830  44 MGNLQRLLNQLKSPVIIILLVATIVSITLG 73 
                              556666666666655555554444444333 PP

  == domain 2  score: 180.8 bits;  conditional E-value: 9.9e-57
                              SS--EEEEE-TTS-EEEEGGG--TTSEEEEETT-B--SEEEEEEE-S.EEE-TTTS---S-EE-............G-TTEE-TT- CS
             E1-E2_ATPase   2 llpptakvirdgteeeidakelvpGDivllkagdrvpaDgrivegsa.evdesaLTGEslpvek............ekgdmvfsGt 74 
                              l++p+a+v+r+g++ ei ++e+ +GDi++l+agd v+aD+ri+++s+ + de +LTGEslpv k            ++++m+f+Gt
  PHY93_20830|PHY93_20830 109 LSAPKARVMREGNISEISSSEITIGDIIVLEAGDYVSADARIIKSSQlSADEIILTGESLPVNKitsplpiqsvmaDRKNMLFAGT 194
                              789*********************************************************************************** PP

                              EEEE-EEEEEEEE-TTTSTTTTTSTTS--------HHHHHHHHHHHHHHHHHHHHHHHHHHS-STTTSSTTHHHHHHHHHHHHHS- CS
             E1-E2_ATPase  75 vvvsgeakavVtatgedtelgkiarlveeakskktplqkkldklgkvlvpvvlliallvflialllgkslaeallralallvaaiP 160
                               +  g+ +avVta+g+++e+gkia ++e+a+s++tplq  l+++++ l +++  ++l+v+++ l++g+++++ l+ a++l+vaaiP
  PHY93_20830|PHY93_20830 195 AISTGSTHAVVTAIGMSSEMGKIAGMLESAESSQTPLQAHLEQVSNKLLLFCAGVVLIVAILGLIHGEGWINVLMTAISLAVAAIP 280
                              ************************************************************************************** PP

                              TTHHHHHHHHHHHHHHHHHHT CS
             E1-E2_ATPase 161 caLplavplalalgarrlakk 181
                              ++Lp++v+lal+l++ r+ak+
  PHY93_20830|PHY93_20830 281 EGLPAIVTLALSLATHRMAKR 301
                              *******************96 PP

>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.0       0.7   1.3e+03     106     193 ..      86     116 ..      45     123 .. 0.56
   2 !   95.2   0.3   3.6e-30   6.4e-27       2     209 ..     318     621 ..     317     622 .. 0.71

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.7
                              HHHHHHHHHHTHHBHTTHHHHHHHHHHTTEEEEEEESSEHHHHHHHHHHTTGGGESEEEEHHCESSTTTSHHHHHHHHHHHTSTGG CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 106 ralavftiadplkvkpeaaeavasLkaagievvlltgdnpetaeraanqlGddyfdaviasdietvakpspegkvaaireLqgkpe 191
                               + av+ +                                                         v +   e+ v+a+++L ++++
  PHY93_20830|PHY93_20830  86 IINAVIGF---------------------------------------------------------VQETRAEAAVEALKQLSAPKA 114
                              23333333.........................................................555555666666666655555 PP

                              GE CS
                              xx RF
                Hydrolase 192 ev 193
                              +v
  PHY93_20830|PHY93_20830 115 RV 116
                              55 PP

  == domain 2  score: 95.2 bits;  conditional E-value: 3.6e-30
                              SEEEEESBTTTBCHHHHHHHHHHHH................................CHHHHHHHHHH................HH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxx................................xxxxxxxxxxx................xx RF
                Hydrolase   2 ktvvfDkdGTLttgepsvedvivsa................................alalaaaletg................se 39 
                              ++++ Dk+GTLttg+++ ++++                                   +                           +
  PHY93_20830|PHY93_20830 318 NVICTDKTGTLTTGKMRARETFTLDngivsesdtkesnpkiqvliqsavlcsnaslnD---------DdsatgdptevallysgKN 394
                              89******************77777666666676666555555555554333333330.........2444222222224444455 PP

                              CHHHHHHHHHHHHH......HHHHHHHHHETTTE.............HHHHTHHHHHHHH.....HCHHHHHHHHHHHHHHCHHHH CS
                              xxxxxxxxxxxxxx......xxxxxxxxxxxxxx.............xxxxxxxxxxxxx.....xxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase  40 hpigkalvaaakar......sgaltgfatfigrg.............ayaigkpewltal.....dippdlgaaigsaqsqgrtva 101
                              h+i ++  aa + r           +++                     a+g pe +  l        ++ ++  +++ sqgr   
  PHY93_20830|PHY93_20830 395 HHIEQRKLAAENPRlsewtfD----SNR-----KrmsvavkssvgvvLHAKGAPESILPLcqltdIELKKINEFLEKLSSQGRRLL 471
                              555555555555554422220....222.....12234444455566666666664444444442223444555666666777666 PP

                              HH.........................TTHHHHHHHHHHTHHBHTTHHHHHHHHHHTTEEEEEEESSEHHHHHHHHHHTT...GGG CS
                              xx.........................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxx RF
                Hydrolase 102 ll.........................qaralavftiadplkvkpeaaeavasLkaagievvlltgdnpetaeraanqlG...ddy 159
                               +                         + + l+++ iadp  +k e  ea+++ kaagi vv++tgd+p+ta+++a++lG   +  
  PHY93_20830|PHY93_20830 472 AVatknllpntkefntedfkesssvenNLNFLGLISIADP--PKVESIEAIKQCKAAGIIVVMITGDHPSTAKAIARELGiikEGE 555
                              669999**************999999999***********..****************************************9888 PP

                              ESEEEEHHCES................STTTSHHHHHHHHHHHT..STGGGEEEEESSHHHHHHHHHT CS
                              xxxxxxxxxxx................xxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 160 fdaviasdiet................vakpspegkvaaireLq..gkpeevamVGDgvnDaaalaaA 209
                              fd v+++ + +                 a + pe+k+++++  q  g++  vam GDgvnDa+al++A
  PHY93_20830|PHY93_20830 556 FDQVLTGLELEalpqtelykrvekiavYARVTPEHKLRIVEAWQhlGNI--VAMTGDGVNDAPALKKA 621
                              8777777777779988999998889999999*************55555..***************98 PP

>> Cation_ATPase  Cation transport ATPase (P-type)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.2   0.0   8.3e-20   1.5e-16       2      89 ..     367     447 ..     360     449 .. 0.92

  Alignments for each domain:
  == domain 1  score: 60.2 bits;  conditional E-value: 8.3e-20
            Cation_ATPase   2 lcNsaafsensekdevkllGnktEsALlvlaeklgldteelreetkkvqeipFnssrKrmsvvlklepekkvrlyvKGApeiilkr 87 
                              lc++a++     +d+ +++G++tE+ALl   ++ ++++ +l +e++++ e  F+s+rKrmsv++k   + +v+l  KGApe+il  
  PHY93_20830|PHY93_20830 367 LCSNASL-----NDDDSATGDPTEVALLYSGKNHHIEQRKLAAENPRLSEWTFDSNRKRMSVAVKS--SVGVVLHAKGAPESILPL 445
                              5556666.....788899***********************************************5..6****************9 PP

            Cation_ATPase  88 Ct 89 
                              C+
  PHY93_20830|PHY93_20830 446 CQ 447
                              96 PP

>> Cation_ATPase_C  Cation transporting ATPase, C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.1       2.5   4.6e+03      90     101 ..      76      87 ..      49     104 .. 0.53
   2 ?   -1.1   0.1      0.76   1.4e+03     124     140 ..     239     255 ..     178     293 .. 0.69
   3 !   59.5   0.0   1.9e-19   3.4e-16       1      74 [.     692     765 ..     692     772 .. 0.94

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 2.5
          Cation_ATPase_C  90 aqtmaFitlvls 101
                              a ++a +t+v++
  PHY93_20830|PHY93_20830  76 ADSIAIVTIVII 87 
                              333344444433 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.76
          Cation_ATPase_C 124 snkllllaillslllqv 140
                              snklll+++ + l++++
  PHY93_20830|PHY93_20830 239 SNKLLLFCAGVVLIVAI 255
                              55555555555444333 PP

  == domain 3  score: 59.5 bits;  conditional E-value: 1.9e-19
          Cation_ATPase_C   1 plplsaiqiLwinLvtDllpalaLaleppekdimkrpPrkkkepliskkmlrriliqgllqalvtllvffltll 74 
                              p pl ++++LwinLvtD+lp+laLa ep  k+i+  + r+  +  ++k+++++++++g++++++tl+v+ + l+
  PHY93_20830|PHY93_20830 692 PAPLAPVHLLWINLVTDGLPSLALAAEPVPKNILGFSKRPSPQGFFDKSFYKEMAFVGIVTSVLTLAVYVYSLK 765
                              78*******************************************************************88776 PP

>> Cation_ATPase_N  Cation transporter/ATPase, N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.4   0.5   1.3e-15   2.4e-12      18      69 .]      18      69 ..       6      69 .. 0.93

  Alignments for each domain:
  == domain 1  score: 46.4 bits;  conditional E-value: 1.3e-15
          Cation_ATPase_N 18 enGLtqaeaaerlkkyGpNelkekkkkslwvkllkqftnplvilLlvaalvs 69
                             e+GL+++e++ r+ k+G N l  +kk   +++ll+q+++p++i+Llva +vs
  PHY93_20830|PHY93_20830 18 ERGLSSSEVKLRQNKFGLNSLRIEKKMGNLQRLLNQLKSPVIIILLVATIVS 69
                             89************************************************98 PP

>> Hydrolase_3  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.1       2.1   3.8e+03      79     121 ..     451     492 ..     447     502 .. 0.66
   2 !   12.3   0.0   5.7e-05       0.1      19      54 ..     515     550 ..     508     555 .. 0.93
   3 !   16.2   0.2   3.7e-06    0.0066     205     248 ..     604     647 ..     592     655 .. 0.82

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 2.1
                              B-HHHHHHHHHHHHHTTCEEEEEESSEEEESTT.THHHHHHHH CS
              Hydrolase_3  79 iskedvkeiikllkennveillytedkvyvlnkeksekkkkee 121
                              i+ ++++e+++ l++++ ++l + +++++ ++k +++++  +e
  PHY93_20830|PHY93_20830 451 IELKKINEFLEKLSSQGRRLLAVATKNLLPNTK-EFNTEDFKE 492
                              777888889999999888888888888887777.333333333 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 5.7e-05
                              HHHHHHHHHHHTTSEEEEE-SS-HHHHHHHHHHCCC CS
              Hydrolase_3  19 ktkeaikklkekgikvviATGRslravlpvleelgl 54 
                              +++eaik++k++gi vv  TG ++++++ +++elg+
  PHY93_20830|PHY93_20830 515 ESIEAIKQCKAAGIIVVMITGDHPSTAKAIARELGI 550
                              789*******************************96 PP

  == domain 3  score: 16.2 bits;  conditional E-value: 3.7e-06
                              GEEEEESSGGGHHHHHHSSEEEEETTS-HHHHHHSSEEE--GGG CS
              Hydrolase_3 205 eviafGDgeNDieMLeaaglgvAmgnaseevkkaAdyvtksnne 248
                               v+  GDg ND + L++a +g+ mg +  ev   A+ ++ + ++
  PHY93_20830|PHY93_20830 604 IVAMTGDGVNDAPALKKASIGISMGKGGTEVARQASSMILTDDN 647
                              56778**************************9999988777766 PP

>> HAD  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.2   0.0   2.1e-08   3.7e-05      88     188 .]     511     619 ..     452     619 .. 0.81

  Alignments for each domain:
  == domain 1  score: 24.2 bits;  conditional E-value: 2.1e-08
                      HAD  88 p...galellaahraaGdrvvvvSgglrplvepllaelg......adevlatelevddrltgelglegkpvrgegkvaalre.... 160
                              p   +  e++++++aaG+ vv+++g +   ++++++elg      +d+vl         l  e+ ++  + ++ +k+a+ ++    
  PHY93_20830|PHY93_20830 511 PpkvESIEAIKQCKAAGIIVVMITGDHPSTAKAIARELGiikegeFDQVLTG-------LELEALPQTELYKRVEKIAVYARvtpe 589
                              335577899******************************4444444444444.......555577888888889999888885555 PP

                      HAD 161 .wlaaegegidleevvay.GDspsDlpllr 188
                               +l   ++  +l ++va  GD+++D p+l+
  PHY93_20830|PHY93_20830 590 hKLRIVEAWQHLGNIVAMtGDGVNDAPALK 619
                              5444455555556699999*********96 PP

>> DBB  Dof, BCAP, and BANK (DBB) motif,
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.0   0.00032      0.58      65     112 ..      22      69 ..       6      79 .. 0.83
   2 ?    0.9   0.0      0.22   3.9e+02      68      99 ..     195     226 ..     145     234 .. 0.87

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00032
                      DBB  65 vkvtlekggsslgerklkyeskleeleqlLkkaadPvefmCqalkiss 112
                               + +++  + + g ++l +e k+++l++lL++ ++Pv ++     i+s
  PHY93_20830|PHY93_20830  22 SSSEVKLRQNKFGLNSLRIEKKMGNLQRLLNQLKSPVIIILLVATIVS 69 
                              566788889999*************************98876666666 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.22
                      DBB  68 tlekggsslgerklkyeskleeleqlLkkaad 99 
                               +++g++   ++ + + s++++++ +L++a++
  PHY93_20830|PHY93_20830 195 AISTGSTHAVVTAIGMSSEMGKIAGMLESAES 226
                              678889999999***************88754 PP

>> DUF4099  Protein of unknown function (DUF4099)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.1   0.00029      0.52      12      39 ..      31      59 ..      26      68 .. 0.90

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00029
                  DUF4099 12 eklGiskedlek.sgdldkLlkgrktpll 39
                             +k+G++  ++ek +g+l++Ll+  k+p++
  PHY93_20830|PHY93_20830 31 NKFGLNSLRIEKkMGNLQRLLNQLKSPVI 59
                             59************************976 PP

>> DUF4395  Domain of unknown function (DUF4395)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   0.4     0.065   1.2e+02      14      60 ..      60     113 ..      52     122 .. 0.73
   2 ?    6.9   1.6    0.0042       7.5       7      63 ..     244     300 ..     238     309 .. 0.81

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.065
                  DUF4395  14 vvllvlalltg.......apwllallavvfalralagprlsplgllarrlvapr 60 
                              ++llv+++++        ++++++++++  +++++   r++      ++l ap+
  PHY93_20830|PHY93_20830  60 IILLVATIVSItlgevadSIAIVTIVIINAVIGFVQETRAEAAVEALKQLSAPK 113
                              333333333335568888999999999999999999999998888888887774 PP

  == domain 2  score: 6.9 bits;  conditional E-value: 0.0042
                  DUF4395   7 Rfnaalvvvllvlalltgapwllallavvfalralagprlsplgllarrlvaprlgp 63 
                               f a++v+++++l l+ g  w+ +l++++ ++ a++ + l  +  la  l++ r+++
  PHY93_20830|PHY93_20830 244 LFCAGVVLIVAILGLIHGEGWINVLMTAISLAVAAIPEGLPAIVTLALSLATHRMAK 300
                              5789**********************9999999998887877777777777766554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (773 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       934  (0.0520944); expected 358.6 (0.02)
Passed bias filter:                      570  (0.0317921); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.84u 0.27s 00:00:01.10 Elapsed: 00:00:00.49
# Mc/sec: 4782.99
//
Query:       PHY93_15090|PHY93_15090  [L=286]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (286 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       477  (0.0266049); expected 358.6 (0.02)
Passed bias filter:                      239  (0.0133304); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.26s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 1906.21
//
Query:       PHY93_15095|PHY93_15095  [L=446]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.9e-16   58.5   0.0    1.4e-15   57.9   0.0    1.2  1  Lactamase_B    Metallo-beta-lactamase superfamily
      4e-06   26.9   0.0    9.4e-06   25.7   0.0    1.6  1  NUDIX          NUDIX domain
      0.006   16.5   0.0      0.013   15.4   0.0    1.6  1  BLACT_WH       Beta-lactamase associated winged helix domain
  ------ inclusion threshold ------
      0.011   15.6   0.0      0.022   14.7   0.0    1.5  1  Lactamase_B_3  Beta-lactamase superfamily domain
      0.012   15.1   0.0      0.021   14.3   0.0    1.4  1  Lactamase_B_2  Beta-lactamase superfamily domain


Domain annotation for each model (and alignments):
>> Lactamase_B  Metallo-beta-lactamase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.9   0.0   3.8e-19   1.4e-15       6     197 .]     206     379 ..     202     379 .. 0.95

  Alignments for each domain:
  == domain 1  score: 57.9 bits;  conditional E-value: 3.8e-19
                              SEEEEEE..ET.TCEEEES--SCHHHHHHHHHHHHHTSGGGGEEEEE-SBSSHHHHTTGGGCTTHHCCEETCCEHHHHCCHCHHHH CS
              Lactamase_B   6 vnsylie..gd.ggviLiDtGtsteaaraalelaalglkpkdvdavilTHlHlDHiGglgglveatdvpvgavaeeapalfmeead 88 
                              +ns++i   gd  + iLiD+    ea++++   +++ +++   d ++lTH+H+DH+  +++++++++v +   ++++   +++ ++
  PHY93_15095|PHY93_15095 206 TNSFIIGdgGDlAKKILIDPSPKDEAELKK---FLNSVGQIGFDSIFLTHHHPDHYQFAAEIAREFKVGIELSSDTLMRIKKNSGE 288
                              7999999765567888************97...8***************************************************8 PP

                              HHHHHCCHHTTCHCGCCEEEEETTTEECCCTEEEEEHECTTSTSCCEEEEEETTCCEEEECTTTSSHHCCCCCC.TTCEEE-SHCH CS
              Lactamase_B  89 daasrkglllagvsadkpdvdeeeldgnaggrralyvtggpghghghgvveygggkvlftGDallagetgridltlrgaevrdpsd 174
                               +++           ++  + +e++ ++   ++++ v+  pgh  g++ +  ++ ++ ++GD++ +  t+ i          + +d
  PHY93_15095|PHY93_15095 289 SYFE----------NIPLTIRKEGDIITKSLGQDVRVYEVPGHDEGQLALAPENLNWFLAGDLIQTIGTVVIQA--------PEGD 356
                              8655..........56899*******************************************************........**** PP

                              HHHHHHHHHHHHHHCHSEEEESS CS
              Lactamase_B 175 aekyldsllklaglkaevlvpgH 197
                               +ky +sl+++++l+++ l+p+H
  PHY93_15095|PHY93_15095 357 MKKYFHSLERVIALNPKNLIPSH 379
                              **********************9 PP

>> NUDIX  NUDIX domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.7   0.0   2.6e-09   9.4e-06       4     114 ..       3     136 ..       1     148 [. 0.63

  Alignments for each domain:
  == domain 1  score: 25.7 bits;  conditional E-value: 2.6e-09
                              EEEEEE.EEETTSEEEEEEES..SSSTTT.EESSEEECBT...............TS.HHHHHHHHHHHHHHSEEE.EEEEEEEEE CS
                    NUDIX   4 ravgvv.llnekgevLlvrrs..kkpfpg.WelPgGkvep...............gE.tpeeAArREleEEtGlea.ellellgrl 68 
                               +v++v +++ k  v+ ++r+   + fpg +++PgGkv++                +  +  A++RE+ EE+++   e +e  +++
  PHY93_15095|PHY93_15095   3 ESVSAVfVTEAK--VFFIKRQnyLSVFPGyYATPGGKVDKtdseaplagtiwptdVKpQILHALIREVSEELNYHLlEAIESGEVI 86 
                              466666477777..*******9*******778*********************97344777************7444444333333 PP

                              EEEEEEEEEEEE...EEEEE.EEEEEEECSGCSST...STTTEEEEEEEEHHH CS
                    NUDIX  69 hylapydgpygd...eheil.yvfleevegelepn...denevsevrwvplee 114
                                   + ++ ++    ++   y+f   + +e + +   +e+e+ e+   ++ +
  PHY93_15095|PHY93_15095  87 SIDNIGIAITPEfnpYRF-KnYYFKITLASEKKFDldaNEAEFGEWN--TPVD 136
                              333333333333433222.2355553333333444324467766663..3333 PP

>> BLACT_WH  Beta-lactamase associated winged helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   3.7e-06     0.013       3      35 ..     414     446 .]     413     446 .] 0.93

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 3.7e-06
                 BLACT_WH   3 eelVkviYkdvpeslhpaAergvlahLeKLeee 35 
                              +++ + iY  +  sl p+A+++++ah +K  +e
  PHY93_15095|PHY93_15095 414 DQILESIYEGLELSLIPFARKTIQAHIKKINSE 446
                              6999*************************8765 PP

>> Lactamase_B_3  Beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.0   6.1e-06     0.022       8      53 ..     207     261 ..     205     321 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 6.1e-06
            Lactamase_B_3   8 nsflletag...arilvDPfkanlgyeppa.......eeaDlvlisqaledHahle 53 
                              nsf + ++g   ++il+DP   + + e ++          D + ++++++dH++ +
  PHY93_15095|PHY93_15095 207 NSFIIGDGGdlaKKILIDPSP-KDEAELKKflnsvgqIGFDSIFLTHHHPDHYQFA 261
                              8999999766779******95.33333333556667799**************865 PP

>> Lactamase_B_2  Beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0   5.8e-06     0.021       2      51 ..     220     265 ..     219     331 .. 0.72

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 5.8e-06
                              EEEES--TTHHHHHTCGGS--SSS--..SEEEEE-SS--HHHHGGGGCCC CS
            Lactamase_B_2   2 riLiDagpdlrqqalralqPvelrdelppidaVllthaHyDHlaglltlr 51 
                               iLiD++p   + +++ l   + + +    d ++lth H DH++ +  ++
  PHY93_15095|PHY93_15095 220 KILIDPSPKDEAELKKFL---NSVGQ-IGFDSIFLTHHHPDHYQFAAEIA 265
                              69******9333333333...22222.3679***********96444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (446 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       426  (0.0237604); expected 358.6 (0.02)
Passed bias filter:                      386  (0.0215294); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.62u 0.25s 00:00:00.87 Elapsed: 00:00:00.46
# Mc/sec: 2934.98
//
Query:       PHY93_15100|PHY93_15100  [L=123]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.8e-12   47.2  11.9    1.9e-06   28.0   0.9    2.6  2  Cys_rich_FGFR  Cysteine rich repeat
  ------ inclusion threshold ------
       0.55   10.4   5.6        9.5    6.5   0.5    2.9  3  CHCH           CHCH domain
       0.58   10.5  11.6        8.2    6.8   3.9    3.0  2  Pet191_N       Cytochrome c oxidase assembly protein PET191


Domain annotation for each model (and alignments):
>> Cys_rich_FGFR  Cysteine rich repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.0   0.9   3.1e-10   1.9e-06      26      55 ..      26      55 ..      23      58 .. 0.92
   2 !   25.2   2.3   2.3e-09   1.4e-05      24      57 ..      79     112 ..      76     113 .. 0.93

  Alignments for each domain:
  == domain 1  score: 28.0 bits;  conditional E-value: 3.1e-10
            Cys_rich_FGFR 26 kaCkddiekfCsdieegegqvleCLeehle 55
                              +C+ d++kfC+++e+g+g++++CL+eh +
  PHY93_15100|PHY93_15100 26 MSCAADVKKFCASVEKGQGRIVKCLKEHEK 55
                             68*************************965 PP

  == domain 2  score: 25.2 bits;  conditional E-value: 2.3e-09
            Cys_rich_FGFR  24 LqkaCkddiekfCsdieegegqvleCLeehledl 57 
                              +++ Ckdd++k C++ + g+g  l+CLe+++++l
  PHY93_15100|PHY93_15100  79 IYTNCKDDLQKLCKEAAAGKGGKLKCLENKKDQL 112
                              799***************************9986 PP

>> CHCH  CHCH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   0.0    0.0029        17       9      26 ..      47      65 ..      45      67 .. 0.83
   2 ?   -2.5   0.2       1.1   6.4e+03      24      28 ..      85      89 ..      81      94 .. 0.50
   3 ?    6.5   0.5    0.0016       9.5       9      25 ..     102     119 ..     102     120 .. 0.90

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.0029
                             HHHHHHCTSS.TTTTHHHH CS
                     CHCH  9 lkClkdnsde.fskCrkef 26
                              kClk+++ e + +C +++
  PHY93_15100|PHY93_15100 47 VKCLKEHEKEiSPDCLGQL 65
                             69*******9888887776 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 1.1
                             HHHHH CS
                     CHCH 24 kefea 28
                             + +++
  PHY93_15100|PHY93_15100 85 DDLQK 89
                             44333 PP

  == domain 3  score: 6.5 bits;  conditional E-value: 0.0016
                              HHHHHHCTSS.TTTTHHH CS
                     CHCH   9 lkClkdnsde.fskCrke 25 
                              lkCl+++ d+ + kC++ 
  PHY93_15100|PHY93_15100 102 LKCLENKKDQlSAKCKET 119
                              69********999**985 PP

>> Pet191_N  Cytochrome c oxidase assembly protein PET191
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.8   3.9    0.0014       8.2      21      55 ..      39      85 ..      26      99 .. 0.73
   2 ?    6.1   1.9    0.0023        14      30      46 ..     103     119 ..      91     122 .. 0.87

  Alignments for each domain:
  == domain 1  score: 6.8 bits;  conditional E-value: 0.0014
                 Pet191_N 21 vkkerktpkeClkekaeelpeeCk............qlrkayfeCkr 55
                             v+k++ ++ +Clke+++e++ +C             ++++ y++Ck 
  PHY93_15100|PHY93_15100 39 VEKGQGRIVKCLKEHEKEISPDCLgqlaaskekmraKAKDIYTNCKD 85
                             45556678899999999999999855555555555556666666665 PP

  == domain 2  score: 6.1 bits;  conditional E-value: 0.0023
                 Pet191_N  30 eClkekaeelpeeCkql 46 
                              +Cl++k+++l+++Ck+ 
  PHY93_15100|PHY93_15100 103 KCLENKKDQLSAKCKET 119
                              8*************985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (123 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1076  (0.0600145); expected 358.6 (0.02)
Passed bias filter:                      553  (0.0308439); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 841.60
//
Query:       PHY93_15105|PHY93_15105  [L=356]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.3e-21   75.3   0.0    2.4e-20   72.9   0.0    2.1  2  AAA_14          AAA domain
    1.9e-10   41.0   0.0    2.9e-09   37.1   0.0    2.2  1  DUF4143         Domain of unknown function (DUF4143)
     0.0021   18.0   0.0     0.0059   16.5   0.0    1.7  1  HTH_36          Helix-turn-helix domain
      0.003   17.2   0.0      0.006   16.2   0.0    1.5  1  Sigma70_r4_2    Sigma-70, region 4
     0.0054   16.6   0.0      0.012   15.5   0.0    1.6  1  HTH_11          HTH domain
  ------ inclusion threshold ------
      0.018   15.2   0.0      0.039   14.1   0.0    1.6  1  HTH_28          Helix-turn-helix domain
       0.02   14.9   0.0      0.036   14.0   0.0    1.5  1  HSDR_N          Type I restriction enzyme R protein N terminu
      0.026   14.0   0.0      0.051   13.0   0.0    1.5  1  HTH_Tnp_ISL3    Helix-turn-helix domain of transposase family
      0.067   13.1   0.0       0.14   12.0   0.0    1.5  1  YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitox


Domain annotation for each model (and alignments):
>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.9   0.0   1.2e-23   2.4e-20       5     130 ..       2     117 ..       1     118 [. 0.87
   2 ?   -0.7   0.0      0.68   1.4e+03      70      97 ..     264     292 ..     243     294 .. 0.83

  Alignments for each domain:
  == domain 1  score: 72.9 bits;  conditional E-value: 1.2e-23
                   AAA_14   5 lvitGaRrvGKTtllkqlikellvkkesilyinldderdkkladpekllelileklkeekktylflDEiqevpewekalkslvdeg 90 
                              ++i G+R+vGKTtl+  ++k+    + +  y+n+d+e  +kl         i++   ++++ ++++DEi++ ++w++++k++ d+ 
  PHY93_15105|PHY93_15105   2 VFIGGPRQVGKTTLAISFLKKFH--DGHPAYLNWDNELSRKL---------IQKGDWPKDEPLIVFDEIHKRKGWQSFVKGIWDTW 76 
                              7899***************9887..9**********777643.........444433347899*********************77 PP

                   AAA_14  91 kn.ldvivtGSnskllskeiatslagrvaeielyplsfaEf 130
                              kn  ++ivtGS+ +++ ++  +s+ gr+ +++++p+++ E+
  PHY93_15105|PHY93_15105  77 KNtQRFIVTGSARLDIFRKGGDSMLGRYHYYRIHPFTLPEL 117
                              44269*******************************99885 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.68
                   AAA_14  70 lDEiqevpewekalkslvdeg.knldviv 97 
                               D +q v + ++ l+++ de+ k++d++v
  PHY93_15105|PHY93_15105 264 CDYWQDVLGYRSELRYIRDEKgKEVDFVV 292
                              5778999999999******8879999987 PP

>> DUF4143  Domain of unknown function (DUF4143)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.1   0.0   1.4e-12   2.9e-09      18     122 .]     175     307 ..     151     307 .. 0.70

  Alignments for each domain:
  == domain 1  score: 37.1 bits;  conditional E-value: 1.4e-12
                              x.......................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                  DUF4143  18 k.......................................glverlppwsespnskkrlrkspKlyfvDtGLlvallgldkeelle 64 
                                                                      + ++ +pp    + + k+++k+ Kly+ D +               
  PHY93_15105|PHY93_15105 175 LlaealvskvgshfsykslaedlevsdktvkrwvqildslYYCYLIPPL--GSTKIKAIKKAQKLYLWDWS--------------- 243
                              3555555555555555655556666666666666666666666666666..55666666666666666642............... PP

                              xxxxxxxxxxxxxxxxxxxx.......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                  DUF4143  65 dsenkGallEnlVaqeLlky.......sekegaklyyyrdkngaEvDfvielkggkivpiEvKss 122
                              + e+ G+ +En+Va++Llk         ++ + +l y rd++g+EvDfv+ ++ + ++++E+K+s
  PHY93_15105|PHY93_15105 244 QVEDPGFRFENMVASHLLKLcdywqdvLGY-RSELRYIRDEKGKEVDFVVLRNRKPLFAVECKLS 307
                              22567**************99999776444.789****************99***********86 PP

>> HTH_36  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0     3e-06    0.0059      23      49 ..     185     211 ..     178     216 .. 0.87

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 3e-06
                   HTH_36  23 gcfpsqetlakrlglsknTvsraikeL 49 
                              g  +s++ la++l++s++Tv r+++ L
  PHY93_15105|PHY93_15105 185 GSHFSYKSLAEDLEVSDKTVKRWVQIL 211
                              5678*******************9987 PP

>> Sigma70_r4_2  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0     3e-06     0.006      17      48 ..     178     209 ..     174     209 .. 0.85

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 3e-06
                              HHHHHHHTS---HHHHHHHHT--HHHHHHHHH CS
             Sigma70_r4_2  17 eifllryleglsykEIAellgisegtVksrls 48 
                              e+++ +   ++syk  Ae l++s++tVk++++
  PHY93_15105|PHY93_15105 178 EALVSKVGSHFSYKSLAEDLEVSDKTVKRWVQ 209
                              56666677789******************985 PP

>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   6.3e-06     0.012      14      42 ..     186     214 ..     174     221 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 6.3e-06
                   HTH_11  14 gpisgeeLAeeLnvSrrtvrrdIkaLeel 42 
                              +++s + LAe L+vS +tv r +++L +l
  PHY93_15105|PHY93_15105 186 SHFSYKSLAEDLEVSDKTVKRWVQILDSL 214
                              56999*******************99876 PP

>> HTH_28  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0     2e-05     0.039      13      36 ..     187     211 ..     172     214 .. 0.83

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 2e-05
                   HTH_28  13 h.svreaArelgisrrtvyrWikry 36 
                              h s++ +A+ l +s  tv+rW++ +
  PHY93_15105|PHY93_15105 187 HfSYKSLAEDLEVSDKTVKRWVQIL 211
                              45********************975 PP

>> HSDR_N  Type I restriction enzyme R protein N terminus (HSDR_N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   1.8e-05     0.036     112     142 ..     275     306 ..     188     321 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.8e-05
                              E----S.SSS---EEEEEEETTEEEEEEEE-- CS
                   HSDR_N 112 nQvtvt.gnqkrrpDivlfvnglplvviElKr 142
                              +++++  +++ + +D+v++ n +pl+ +E+K 
  PHY93_15105|PHY93_15105 275 SELRYIrDEKGKEVDFVVLRNRKPLFAVECKL 306
                              34444479999********************7 PP

>> HTH_Tnp_ISL3  Helix-turn-helix domain of transposase family ISL3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   2.5e-05     0.051      21      48 ..     181     208 ..     174     211 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 2.5e-05
             HTH_Tnp_ISL3  21 lelllesrsvkavArqlgvSwtTVwril 48 
                              +  + ++ s k+ A++l vS++TV+r++
  PHY93_15105|PHY93_15105 181 VSKVGSHFSYKSLAEDLEVSDKTVKRWV 208
                              55555666889****************8 PP

>> YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   7.1e-05      0.14      11      30 ..     190     209 ..     178     224 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 7.1e-05
           YdaS_antitoxin  11 qkaLAealgvsqqaVsqWlk 30 
                               k LAe l+vs ++V +W++
  PHY93_15105|PHY93_15105 190 YKSLAEDLEVSDKTVKRWVQ 209
                              589***************95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (356 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       475  (0.0264934); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        73  (0.00407162); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.60u 0.24s 00:00:00.84 Elapsed: 00:00:00.45
# Mc/sec: 2394.61
//
Query:       PHY93_15110|PHY93_15110  [L=104]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (104 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       397  (0.0221429); expected 358.6 (0.02)
Passed bias filter:                      351  (0.0195772); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.43
# Mc/sec: 733.73
//
Query:       PHY93_15115|PHY93_15115  [L=119]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00073   19.5   0.0     0.0011   18.9   0.0    1.4  1  HTH_37    Helix-turn-helix domain
     0.0066   16.5   0.0      0.013   15.5   0.0    1.5  1  HTH_3     Helix-turn-helix


Domain annotation for each model (and alignments):
>> HTH_37  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.0   1.2e-07    0.0011      30      71 ..      62     103 ..      38     115 .. 0.91

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 1.2e-07
                              CT--HHHHHHHHT--HHHHHHHHTT--TT--HHHHHHHHHHT CS
                   HTH_37  30 relsqseaaqllgiaqPkvsrllrgklsrfsldkLlnlltal 71 
                               + +++e a+ l i+  ++s +lr++ ++fsld +++++++l
  PHY93_15115|PHY93_15115  62 SKFTKAEYAKELDITPGQLSLILRYDHRKFSLDFMIQIIEKL 103
                              6789***********************************998 PP

>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   1.5e-06     0.013       7      48 ..      61     103 ..      58     110 .. 0.92

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.5e-06
                              HTTHHHHHHHHHHTSSHHHHHHHHTT.SSCSBHHHHHHHHHHH CS
                    HTH_3   7 qlglsqeeLAeklGvsrstisriEnG.ernPsletlkklakaL 48 
                              q + +++e A++l++++ ++s i +  +r+ sl+ ++ + + L
  PHY93_15115|PHY93_15115  61 QSKFTKAEYAKELDITPGQLSLILRYdHRKFSLDFMIQIIEKL 103
                              77899**********************************9988 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (119 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       732  (0.0408277); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.42
# Mc/sec: 842.73
//
Query:       PHY93_15120|PHY93_15120  [L=115]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-19   69.9   0.0    1.9e-19   69.7   0.0    1.1  1  DUF86     Protein of unknown function DUF86


Domain annotation for each model (and alignments):
>> DUF86  Protein of unknown function DUF86
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.7   0.0   1.1e-23   1.9e-19       1     119 []      14     110 ..      14     110 .. 0.98

  Alignments for each domain:
  == domain 1  score: 69.7 bits;  conditional E-value: 1.1e-23
                              HHHHHHHHCCHH...TSTSCCGSHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT----SSCHHHHHHHTTSS-HHHHHHHHHHHCCH CS
                    DUF86   1 ikealeklkefteeldeeeflsdeleydavernlqvigEaaidiakhlakklgikkpgdyifeilaekgviaeepeepwrkmiglR 86 
                              i+ea + + +f +++++e f++d l    v ++l++igEa++ ++ +                      +++++ ++pw+km+glR
  PHY93_15120|PHY93_15120  14 ILEASRNIAQFIKGKTFESFEKDILVLSGVHHQLMIIGEATKLLPFE----------------------LRNTYTDVPWKKMAGLR 77 
                              68999******************************************......................***************** PP

                              HHHHT-CCCTTHHHHHHHHHHTCHHHHHHHHHH CS
                    DUF86  87 NrLvHgYlgidpeivwsiikenlpdleeflesi 119
                              ++L+H+Y + d ++ w+i++ ++p l e le+i
  PHY93_15120|PHY93_15120  78 DILIHQYHSADSKETWKIASLDVPNLTEKLEKI 110
                              ***************************999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (115 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       404  (0.0225333); expected 358.6 (0.02)
Passed bias filter:                      339  (0.0189079); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.30s 00:00:00.76 Elapsed: 00:00:00.48
# Mc/sec: 727.29
//
Query:       PHY93_15125|PHY93_15125  [L=105]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.1e-13   51.2   1.4    1.3e-13   51.0   1.4    1.0  1  NTP_transf_2  Nucleotidyltransferase domain
    1.5e-10   41.1   0.6    1.7e-10   40.8   0.6    1.1  1  Polbeta       Polymerase beta, Nucleotidyltransferase
  ------ inclusion threshold ------
      0.011   15.6   0.1      0.019   14.8   0.1    1.4  1  SpoOE-like    Spo0E like sporulation regulatory protein


Domain annotation for each model (and alignments):
>> NTP_transf_2  Nucleotidyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.0   1.4   2.2e-17   1.3e-13       6      93 ..      15     100 ..      11     102 .. 0.88

  Alignments for each domain:
  == domain 1  score: 51.0 bits;  conditional E-value: 2.2e-17
                              HHHHHHTTTSEEEEEHHHHCTTSCTT.SSEEEEEEESTTCHHHHHHEHHHHHHHHCCCEEECTTEEEEEECEEECCC...CTEEEE CS
             NTP_transf_2   6 eelkelepvakvvlfGSyarGtalkg.SDiDllvvlpeevsrekkeegleklaeiikfleellglevdlvtrekled...pllvks 87 
                              ++++++++v++  lfGS+ r+++ ++ SD+D+l+++  e      ++  ++++ + ++le ++ ++vd v +e +e+   p+++ks
  PHY93_15125|PHY93_15125  15 KDFCQKWKVKEFSLFGSVIRDDFSPEkSDVDVLITFFPE------QVLGWDIVDMKEELETIFNRKVDMVNKEVIEKshnPYRKKS 94 
                              677889****************************99999......3889*********************5555555555****** PP

                              EECEEE CS
             NTP_transf_2  88 ileerp 93 
                              ile++ 
  PHY93_15125|PHY93_15125  95 ILEHYE 100
                              **9975 PP

>> Polbeta  Polymerase beta, Nucleotidyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.8   0.6   2.9e-14   1.7e-10       2      89 ..      13     104 ..      12     105 .] 0.88

  Alignments for each domain:
  == domain 1  score: 40.8 bits;  conditional E-value: 2.9e-14
                              STTTTHHHHHHHHSTTEEEEEE-S----.--EEEEEEEESS-.--HHHHHHHHHHHHHH.SSSEEEEEE...TT.TS-HHHHHHHH CS
                  Polbeta   2 kikeilekekeielaylFGSrakgkare.eSDiDlavllkek.ldleeelelaaelediklgkkvDlvd...ln.eapplllyeil 81 
                              kik++++k  +++   lFGS+ ++++ + +SD+D+ + +  +     + +++++ele i  ++kvD+v+   ++ + +p+ +++il
  PHY93_15125|PHY93_15125  13 KIKDFCQKW-KVKEFSLFGSVIRDDFSPeKSDVDVLITFFPEqVLGWDIVDMKEELETI-FNRKVDMVNkevIEkSHNPYRKKSIL 96 
                              9********.***************99559*******999884444469**********.89******8666776788999***** PP

                              HS-EEEES CS
                  Polbeta  82 kegkllys 89 
                              ++ +++y+
  PHY93_15125|PHY93_15125  97 EHYEVIYE 104
                              ******98 PP

>> SpoOE-like  Spo0E like sporulation regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   0.1   3.2e-06     0.019       5      31 ..      60      87 ..      58      88 .. 0.92

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 3.2e-06
                             HHHHHHHHHHHHHHC.C--HHHHHHHHH CS
               SpoOE-like  5 IEelRkeLnelaekk.gltdpeVlelSq 31
                             I  +++eL+ + ++k ++ ++eV+e+S+
  PHY93_15125|PHY93_15125 60 IVDMKEELETIFNRKvDMVNKEVIEKSH 87
                             66799**********************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (105 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       521  (0.0290591); expected 358.6 (0.02)
Passed bias filter:                      303  (0.0169); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.50u 0.25s 00:00:00.75 Elapsed: 00:00:00.46
# Mc/sec: 679.57
//
Query:       PHY93_17130|PHY93_17130  [L=708]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.5e-24   86.5   0.0    3.1e-24   85.5   0.0    1.5  1  DUF4105        Domain of unknown function (DUF4105)
     0.0026   17.4   0.6     0.0079   15.8   0.6    1.8  1  Peptidase_M90  Glucose-regulated metallo-peptidase M90
  ------ inclusion threshold ------
       0.79   10.2   3.2         41    4.6   0.0    3.3  3  IMPa_helical   Immunomodulating metalloprotease helical domai


Domain annotation for each model (and alignments):
>> DUF4105  Domain of unknown function (DUF4105)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.5   0.0   5.2e-28   3.1e-24       9     166 ..     255     433 ..     251     437 .. 0.92

  Alignments for each domain:
  == domain 1  score: 85.5 bits;  conditional E-value: 5.2e-28
                  DUF4105   9 tldldslslv.lfasaylnnpaSmfGHtlLrfgfkdgeed........................ravnysaevrkeenelfyalkg 69 
                              +ld+++++ + +++++ +++ +  fGH+++r+  ++ ++                          +v+y a+v++ +   + +lkg
  PHY93_17130|PHY93_17130 255 KLDPKRVYRIdYLMASAGKELSAGFGHSMFRIVLCAPDRFdpitnkniaatpfgpkcledrlfhMVVSYRANVEDAT---LNYLKG 337
                              789**********************************65599********************888888888666666...****** PP

                  DUF4105  70 lfggyegsfvvapyrdkireytnvekrdvweyrLnltpeevrallahiwelk.nkpfdYyflteNCatrllelldaarpgllllse 154
                              +fggy+  +++  + d+++ey++ e rdv +y+Lnl+  e++ +++++ e + n+   Y f+t+NCa++ ++ll+ a +++ l+  
  PHY93_17130|PHY93_17130 338 MFGGYPSMLFILNFGDVLDEYNRDELRDVVSYPLNLSTVEREDFINKVIEEHwNYRGSYKFFTNNCAVESYDLLKSALDRSQLQ-- 421
                              ****************************************************9**************************98888.. PP

                  DUF4105 155 fe.lwvlPldtvr 166
                                   v+P  +++
  PHY93_17130|PHY93_17130 422 -GlSSVTPKGVLE 433
                              .445678876665 PP

>> Peptidase_M90  Glucose-regulated metallo-peptidase M90
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.6   1.3e-06    0.0079     145     242 ..     137     225 ..     116     228 .. 0.69

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 1.3e-06
            Peptidase_M90 145 dkenvviHEfaHkLDmedgeadGvPplaeras.aeeWaevlseeyeklrerveakeeslidpYgatnpaEFFAVasEaFFekpekl 229
                              ++ ++++HE++H  D ++ ++    ++ +ra  ++   +v ++++e++         +  dpY   n aE FAV  E+F  +pe  
  PHY93_17130|PHY93_17130 137 QAISTIVHELTHAYDFNNQNISNKSEFIRRAGfKKGLLKVKTKNIEAM---------RSADPYELVNIAEAFAVNMEYFTMDPEY- 212
                              467899*************99988888543330222333333333333.........4559*****************9999875. PP

            Peptidase_M90 230 keehpelyelLaa 242
                              + + p++++  ++
  PHY93_17130|PHY93_17130 213 ACRKPSMFDFYKK 225
                              4555666666655 PP

>> IMPa_helical  Immunomodulating metalloprotease helical domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0       1.3   7.7e+03      25      58 ..     128     158 ..     119     163 .. 0.55
   2 ?    4.6   0.0    0.0069        41      74     100 ..     361     387 ..     358     393 .. 0.86
   3 ?    4.2   0.3    0.0094        56      41      71 ..     532     562 ..     522     570 .. 0.79

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 1.3
                              E-TTSTTH.HHHHHHHHHH.HHHHHHHHHTT--GG CS
             IMPa_helical  25 sCdeeaklkeefkkaaesi.rsalealdsskidlf 58 
                              +C++++     + +a+++i ++  +a+d +++++ 
  PHY93_17130|PHY93_17130 128 NCQHKSL----YDQAISTIvHELTHAYDFNNQNIS 158
                              5555444....445554441333456777777665 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.0069
                              HHHHHH--S-B-T.TTTHHHHHHHHHH CS
             IMPa_helical  74 DkyRqeiryPmdkattdttaflralfa 100
                              D+ R  ++yP++ +t ++++f++ +  
  PHY93_17130|PHY93_17130 361 DELRDVVSYPLNLSTVEREDFINKVIE 387
                              899******************987665 PP

  == domain 3  score: 4.2 bits;  conditional E-value: 0.0094
                              HHHHHHHHHHHHTT--GGGSS.S-HHHHHHHH CS
             IMPa_helical  41 esirsalealdsskidlfaee.gyrlekllvL 71 
                              + +rs+++ + ++++dlf+++ + +++kl+ L
  PHY93_17130|PHY93_17130 532 QILRSKISDFRKKAADLFQNSkDEKVQKLI-L 562
                              679****************99566666654.4 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (708 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       776  (0.0432818); expected 358.6 (0.02)
Passed bias filter:                      363  (0.0202465); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.67u 0.29s 00:00:00.96 Elapsed: 00:00:00.45
# Mc/sec: 4699.24
//
Query:       PHY93_15130|PHY93_15130  [L=81]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.017   15.6   0.3       0.02   15.3   0.3    1.2  1  FtsA      Cell division protein FtsA
      0.032   14.4   2.9      0.038   14.2   2.9    1.3  1  Cnn_1N    Centrosomin N-terminal motif 1
       0.12   12.7   3.7       0.17   12.2   2.5    1.7  2  Csm1_N    Csm1 N-terminal domain
       0.14   12.0   2.6       0.19   11.5   2.3    1.5  1  DivIC     Septum formation initiator


Domain annotation for each model (and alignments):
>> FtsA  Cell division protein FtsA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.3   0.3   4.4e-06      0.02       5      51 ..       3      64 ..       1      79 [. 0.76

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 4.4e-06
                             E-SSSEEEEEEETTEEEE.......EEEES--HHHHHHH........HHHHHT--HHHHHHH CS
                             xxxxxxxxxxxxxxxxxx.......xxxxxxxxxxxxxx........xxxxxxxxxxxxxxx RF
                     FtsA  5 iGagktdvavaedgalvh.......lrvigvggngitkd........iakalrtaveeAeri 51
                             iG+g +++++a+  +  +       +rvig++g+ i kd            l+  v++Ae+ 
  PHY93_15130|PHY93_15130  3 IGHGNITAVLAKAIQELYgqlkavvSRVIGLEGKDIEKDraiasvkaENVQLKARVDKAEKE 64
                             9***********9665558888899**************88665553222357777777765 PP

>> Cnn_1N  Centrosomin N-terminal motif 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   2.9   8.4e-06     0.038      36      72 ..      42      78 ..      15      79 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 8.4e-06
                   Cnn_1N 36 eqkeellkenielkveveslqkelkekkkllreaeka 72
                             + + ++ +en++lk +v + +ke+ + k +l++ eka
  PHY93_15130|PHY93_15130 42 RAIASVKAENVQLKARVDKAEKENASTKIRLEKIEKA 78
                             6788999***************************998 PP

>> Csm1_N  Csm1 N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0      0.41   1.8e+03      41      57 ..      14      30 ..      10      40 .. 0.65
   2 ?   12.2   2.5   3.8e-05      0.17      19      56 ..      41      78 ..      36      80 .. 0.93

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.41
                   Csm1_N 41 qeiesLkeqlaeleekv 57
                             + i++L  ql+++ ++v
  PHY93_15130|PHY93_15130 14 KAIQELYGQLKAVVSRV 30
                             45666777776666655 PP

  == domain 2  score: 12.2 bits;  conditional E-value: 3.8e-05
                   Csm1_N 19 dllvsklvhENsvLsqkletkdqeiesLkeqlaeleek 56
                             d +++ +  EN+ L+ ++++ ++e  s k +l+++e+ 
  PHY93_15130|PHY93_15130 41 DRAIASVKAENVQLKARVDKAEKENASTKIRLEKIEKA 78
                             889999****************************9986 PP

>> DivIC  Septum formation initiator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   2.3   4.3e-05      0.19      28      52 ..      39      63 ..      22      78 .. 0.61

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 4.3e-05
                             HHHHHHHHHHHHHHHHHHHHCC-XX CS
                    DivIC 28 alqaelaklkaeneeLeaevkdLks 52
                             ++ + +a++kaen +L+a+v++ ++
  PHY93_15130|PHY93_15130 39 EKDRAIASVKAENVQLKARVDKAEK 63
                             4455555555555555555555532 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (81 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1454  (0.0810977); expected 358.6 (0.02)
Passed bias filter:                      681  (0.0379832); expected 358.6 (0.02)
Passed Vit filter:                        80  (0.00446204); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.45
# Mc/sec: 537.90
//
Query:       PHY93_15135|PHY93_15135  [L=177]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.5e-44  150.5   0.0    4.1e-44  150.3   0.0    1.0  1  DUF4154   YfiR/HmsC-like


Domain annotation for each model (and alignments):
>> DUF4154  YfiR/HmsC-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  150.3   0.0   2.3e-48   4.1e-44       2     143 .]      34     176 ..      33     176 .. 0.99

  Alignments for each domain:
  == domain 1  score: 150.3 bits;  conditional E-value: 2.3e-48
                              HHHHHHHHHHHTTEE-SS--SS...EEEEEES-BSSTHHHHT-EE-TTS..-EEEEEEE-TT-TTHH-SEEEE-S--HHHHHHHHH CS
                  DUF4154   2 qlkaaflynfakyteWpeeagssp.lrlcvlgddpfaaaleallegkkvrgrpievrrlddsseaeechvlyigesearelaailk 86 
                              ++ka +lynfak+++Wpe + +++ + lc++g++++ ++le+l+ gk++++rp++vr+ld+ +e+++ch+l+ig++ +++l++il+
  PHY93_15135|PHY93_15135  34 EIKATYLYNFAKFIDWPEGKLEKDpIYLCIMGKESLKSSLERLAMGKSIKNRPLHVRQLDSIDEIKSCHILFIGAAASKNLPEILR 119
                              89********************99************************************************************** PP

                              HHTTS--EEEESSTSGGSSS-SEEEEESSSSEEEEEEHHHHHHSSSEE-GGGGHHHH CS
                  DUF4154  87 alagkpvLtvsdgegfaeqggminLvredgrlrfeiNldaarraglkisskLLrLAr 143
                              +l+ ++vL v+d+++f+eqgg i+++++++++ fe+Nl a+++aglki++++L++A+
  PHY93_15135|PHY93_15135 120 KLRFEKVLCVGDTPDFIEQGGQIQFFVNENKVGFEVNLPAVKQAGLKIDARVLNIAK 176
                              *******************************************************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (177 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       416  (0.0232026); expected 358.6 (0.02)
Passed bias filter:                      364  (0.0203023); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 1205.55
//
Query:       PHY93_15140|PHY93_15140  [L=495]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.2e-20   72.7   0.1    6.1e-20   71.8   0.1    1.4  1  HATPase_c      Histidine kinase-, DNA gyrase B-, and HSP90-li
    7.2e-12   45.5   0.0    1.5e-11   44.4   0.0    1.6  1  CHASE8         Periplasmic sensor domain
    2.1e-08   34.0   0.5    2.1e-08   34.0   0.5    2.2  2  HisKA          His Kinase A (phospho-acceptor) domain
    2.6e-06   27.7   0.1      5e-06   26.8   0.1    1.5  1  HAMP           HAMP domain
     0.0064   16.9   2.1      0.069   13.6   1.9    2.3  2  UPF0184        Uncharacterised protein family (UPF0184)
     0.0071   16.1   0.0      0.015   15.0   0.0    1.5  1  Peptidase_M24  Metallopeptidase family M24
  ------ inclusion threshold ------
      0.082   12.7   0.0       0.16   11.8   0.0    1.4  1  HATPase_c_3    Histidine kinase-, DNA gyrase B-, and HSP90-li
       0.13   12.3   0.0       0.26   11.3   0.0    1.4  1  HATPase_c_2    Histidine kinase-like ATPase domain


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   71.8   0.1   2.7e-23   6.1e-20       6     111 ..     389     492 ..     385     493 .. 0.94

  Alignments for each domain:
  == domain 1  score: 71.8 bits;  conditional E-value: 2.7e-23
                              HHHHHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHHHHHTTTE CS
                HATPase_c   6 LrqiisnlvdNavkfatkageieveikaseddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkklvelmgGe 91 
                              ++qi+ n+ +Na+k+ + ++ i+v++++ + + ++ ++D GiGi++e+ +k+f+kf +  ++ r+  g GlGl+i+k++++ ++G 
  PHY93_15140|PHY93_15140 389 IEQIVMNIFTNAIKY-GAGKPIDVTVSKVDRKAKLMIRDYGIGITEENYEKIFQKFGR-VASIRNFRGLGLGLYISKEYASVHNGI 472
                              78*************.9999*******745799*************************.89999**************9999**** PP

                              EEEEEETTTEEEEEEEEESS CS
                HATPase_c  92 iwvesepgrGttftftlple 111
                              i+v+s+ ++G+ ft++lp e
  PHY93_15140|PHY93_15140 473 IQVKSTLDEGSIFTVELPIE 492
                              ****************9975 PP

>> CHASE8  Periplasmic sensor domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.4   0.0   6.7e-15   1.5e-11       7     101 ..      55     152 ..      49     153 .. 0.82

  Alignments for each domain:
  == domain 1  score: 44.4 bits;  conditional E-value: 6.7e-15
                   CHASE8   7 qnlellarilaenveAAlvFeDaaaAreiLaaLkaepeiaaaavydaegkllaeyaresseakeeleallaslllpepves...pi 89 
                              +  ++la +++ n++AAl+F+Da+  +eiL+aL+ epei   ++y++++klla+y ++++  + ++   + + +++    s    i
  PHY93_15140|PHY93_15140  55 HSISTLAGVIGSNSTAALAFQDAKVGNEILNALTLEPEILLGCLYTNKKKLLATYLKKEHYEQCPIFVPPYKHNFETGKLSyseAI 140
                              56789**************************************************9998888766555555555554444445578 PP

                   CHASE8  90 lhdgeriGtvvl 101
                              ++++e+ G++++
  PHY93_15140|PHY93_15140 141 VRENENYGSLYI 152
                              888888887776 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.2       1.7   3.7e+03      39      54 ..     233     248 ..     214     258 .. 0.73
   2 !   34.0   0.5   9.6e-12   2.1e-08       1      66 [.     265     338 ..     265     339 .. 0.90

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 1.7
                              HHHHHHHHHHHHHHHH CS
                    HisKA  39 eyletiesearrldhl 54 
                              ++l+ i++ ++ ld+l
  PHY93_15140|PHY93_15140 233 RMLDAIQEREEELDRL 248
                              4566677666666666 PP

  == domain 2  score: 34.0 bits;  conditional E-value: 9.6e-12
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHC..........T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHHH CS
                    HisKA   1 slgrflagvaHELrtPLsailgnaeaLkre........gklteelkeyletiesearrldhlvedlLdlsriea 66 
                              ++ +fl   +HELrtP++ i+   ++Lk +        ++  e l +++++ e++   l++l edlL  sri a
  PHY93_15140|PHY93_15140 265 MRDDFLLIASHELRTPITPIKIHFQLLKHQmealepntVPHQEALLKAFNISERQLYNLEKLTEDLLSVSRILA 338
                              57899999*******************777889*9998666788888************************966 PP

>> HAMP  HAMP domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.8   0.1   2.2e-09     5e-06       4      53 .]     190     240 ..     187     240 .. 0.92

  Alignments for each domain:
  == domain 1  score: 26.8 bits;  conditional E-value: 2.2e-09
                              HTTHHHHHHHHHHHHHHT.TTBTSSTCCTTSSSHHHHHHHHHHHHHHHHHH CS
                     HAMP   4 rrilrPLrrLaraarria.aGdldtrlpvsgrDEiGeLarafNaMldrLre 53 
                              + ++ P+ rLa++ar i+ +G ++ r + s+  Ei  L+ afN+Mld+++e
  PHY93_15140|PHY93_15140 190 HLVTGPILRLAETARFISeEGKYSLRAELSTEVEINSLVNAFNRMLDAIQE 240
                              67899*************55999999999*******************985 PP

>> UPF0184  Uncharacterised protein family (UPF0184)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.6   1.9   3.1e-05     0.069      30      72 ..     223     261 ..     211     266 .. 0.87
   2 ?    0.6   0.0      0.35   7.8e+02      25      44 ..     462     481 ..     460     483 .. 0.92

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 3.1e-05
                  UPF0184  30 ainsmLDqinsaLDalEernDdlnskLrELlesnRqiRlefae 72 
                              +ins +++ n +LDa+ er+++l      Ll s R++Rle ++
  PHY93_15140|PHY93_15140 223 EINSLVNAFNRMLDAIQEREEEL----DRLLVSEREARLEAEK 261
                              69*****************9875....689*********9765 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.35
                  UPF0184  25 eeEyeainsmLDqinsaLDa 44 
                              ++Ey+ + + + q+ s+LD+
  PHY93_15140|PHY93_15140 462 SKEYASVHNGIIQVKSTLDE 481
                              68****************96 PP

>> Peptidase_M24  Metallopeptidase family M24
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   6.7e-06     0.015     112     188 ..     393     489 ..     385     494 .. 0.83

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 6.7e-06
                              HHHHHHHHHH..C-ST.TSBHHHHHHHHHHHHHHTTB................CCGBSSCSEEEESSSSSEEEEEESSSTT...CS CS
            Peptidase_M24 112 vleaqeaaik..avkp.Gvtlseidaaarevlesagl................akffphglGHgvGlevhdegpsvsresn...dg 175
                              v ++  +aik  a kp +vt+s++d++a   ++++g+                ++ ++++ G g+Gl + +e  sv++  +    +
  PHY93_15140|PHY93_15140 393 VMNIFTNAIKygAGKPiDVTVSKVDRKAKLMIRDYGIgiteenyekifqkfgrVASIRNFRGLGLGLYISKEYASVHN--GiiqVK 476
                              55566666665344899*****************98888999999999999*99999**********99999788875..334457 PP

                              SB--TTBEEEEEE CS
            Peptidase_M24 176 rkleeGmvftiEp 188
                               +l eG +ft+E 
  PHY93_15140|PHY93_15140 477 STLDEGSIFTVEL 489
                              89*********97 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   7.2e-05      0.16       5      60 ..     391     447 ..     387     460 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 7.2e-05
              HATPase_c_3   5 kAlaelvdNsldAdaen.vkievnknrgktgeivieDdGkGmseeelknal.rlatss 60 
                              + ++ +  N++   a + ++++v+k +  ++++ i+D G G++ee+ ++ + ++++ +
  PHY93_15140|PHY93_15140 391 QIVMNIFTNAIKYGAGKpIDVTVSKVD-RKAKLMIRDYGIGITEENYEKIFqKFGRVA 447
                              56888899999955544499***9986.699***************999773466654 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00011      0.26      11     107 ..     357     464 ..     346     469 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00011
              HATPase_c_2  11 vrevaeavlrraglseelld...........eirlaveEactNavehayleapegpvevrlesdeealtvevaDsGpgfdpetlpd 85 
                              v e ++   + ag+  +l++            i+  v  ++tNa++++      +p+ v+++  +++ ++ ++D G g + e+ ++
  PHY93_15140|PHY93_15140 357 VLEHFKTESQIAGCRVNLVAepnviglwdklMIEQIVMNIFTNAIKYGAG----KPIDVTVSKVDRKAKLMIRDYGIGITEENYEK 438
                              4555555545566666666677777777777788889999********97....99********************9976665544 PP

              HATPase_c_2  86 pteeep.....keslkegGrGlalikg 107
                                ++         + +  G+Gl++ k+
  PHY93_15140|PHY93_15140 439 IFQK-FgrvasIRNFRGLGLGLYISKE 464
                              3332.1345556677777777777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (495 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1016  (0.056668); expected 358.6 (0.02)
Passed bias filter:                      633  (0.0353059); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.67u 0.28s 00:00:00.95 Elapsed: 00:00:00.46
# Mc/sec: 3241.18
//
Query:       PHY93_15145|PHY93_15145  [L=116]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.7e-18   65.4   0.1    5.6e-18   65.1   0.1    1.1  1  Response_reg  Response regulator receiver domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.1   0.1   3.1e-22   5.6e-18       1     110 [.       6     112 ..       6     114 .. 0.92

  Alignments for each domain:
  == domain 1  score: 65.1 bits;  conditional E-value: 3.1e-22
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCT..TTSEEEEEESSTSHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireed..pelpviiltahseee 84 
                              +li++Dd ++ e+l+ ++e egy +v +a++g+e le l + ++ lillD++mp mdG  +++ +++++  +++p +++ta +e++
  PHY93_15145|PHY93_15145   6 ILIIEDDADISEILKFAIELEGY-TVYTAANGQEGLEALSKIEPCLILLDLMMPIMDGWAFAEALEKDPtlNKIPFVVITAFAESA 90 
                              8**********************.*******************************************999999*******999844 PP

                              HHHHHHHCTESEEEESSG-HHHHHHH CS
             Response_reg  85 davealkagaddflsKpfdpeeLlka 110
                                       a +++ Kp++ e L + 
  PHY93_15145|PHY93_15145  91 IN----IKKARGIIKKPVELELLNST 112
                              43....346899*****999888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (116 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       298  (0.0166211); expected 358.6 (0.02)
Passed bias filter:                      261  (0.0145574); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.24s 00:00:00.72 Elapsed: 00:00:00.44
# Mc/sec: 794.34
//
Query:       PHY93_15150|PHY93_15150  [L=698]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    6.5e-43  148.3  32.4    8.8e-43  147.8  32.4    1.1  1  TonB_dep_Rec    TonB dependent receptor
    1.8e-19   70.3   0.1      4e-19   69.2   0.1    1.6  1  Plug            TonB-dependent Receptor Plug Domain
    1.7e-12   47.0  16.5    6.6e-12   45.1  16.5    1.8  1  OMP_b-brl_3     Outer membrane protein beta-barrel family
     0.0019   17.2   1.1     0.0035   16.3   1.1    1.5  1  Legionella_OMP  Legionella pneumophila major outer membrane p


Domain annotation for each model (and alignments):
>> TonB_dep_Rec  TonB dependent receptor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  147.8  32.4     2e-46   8.8e-43      40     469 ..     282     698 .]     238     698 .] 0.66

  Alignments for each domain:
  == domain 1  score: 147.8 bits;  conditional E-value: 2e-46
                              EEEEEEECCCEECCCEEECECCE.EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE..........EEEEEEEE........ CS
             TonB_dep_Rec  40 gtnplyygdnysetdnkrlrlgy.dydlddnlswklslraglnYsstdgdsdynnsglgg..........grsynrdn........ 106
                              ++n+       + + + + +l+y d++l++   +  ++++ l+Y++    +d+ +  ++           +     +         
  PHY93_15150|PHY93_15150 282 DPNG------RRSVARETIDLTYhDLKLGEY--L--DFTSKLAYQHESVEFDNYALIFPPganlgkgvfpN-----GAlgspeffg 352
                              2222......223334444444412223333..3..44445556633333333333222224444444331.....2244453333 PP

                              .CEEEEEEEEEEEEEE.....EEEEEEEEEEEEEEEEE.E.EEE.....EECCBEESCCTC........CSEEEEEEEEEEEEEEE CS
             TonB_dep_Rec 107 .dyyglgnvlaaeldl.....ngdlwfGsnladgldyr.k.lsd.....dgydaydplnps........gdasdsvdrdsyglyaq 171
                               +++ +++ l   ++l      g++++G       +yr k +++     ++++       +        + +s +++++ yg yaq
  PHY93_15150|PHY93_15150 353 rQFWFNNSLLFTGIELhrlrlAGGYYLG------QQYRvKnSKNstpdfTPLPD------IinvsgtalNFNSKKTRNSYYG-YAQ 425
                              3444444445555555422224444477......88994222223333333333......2455677966666666666666.*** PP

                              EEEEEETTEEEEEEEEEEEETTCSSSS...EEECCCEEEEEEEEEEEECETTEEEEEEEEEEEE-STTCTTCEEEECCCCCEEEEC CS
             TonB_dep_Rec 172 dnikltdrltltlGlRydhysvfgkdlragafsrsgsafsPsvglryrptddlslrasysrgfraPslgelyaggsngaggalsng 257
                              d+++++d++ +t G+R dhys+f            gs+f+P+ +l+++ t dl+ +  y+r+fraP++ ely+      ++ ++ g
  PHY93_15150|PHY93_15150 426 DEWRIADNFEFTYGARIDHYSDF------------GSTFNPRTALVWKTTSDLTMKLLYGRAFRAPTFLELYN-----INNLITLG 494
                              ***********************............6888**********************************.....6899999* PP

                              STT---EEEEEEEEEEEEEE.TTEEEEEEEEEEEEEEEEEEESSSSCSTTTCSEEEEEEEEEEEEEEEEEEEEEEETTEE..EEEE CS
             TonB_dep_Rec 258 npdLkPEtsknyelGlkldd.drlnltlayFridiknfittdpdgpslgglgdfqyqNvgkarikGvElelsyrltpgWg..lgls 340
                              np+L+PEt ++yelG ++++ +++++++++F+ + + +i ++ d + ++     + qN+g++   G+ le +       +  + l+
  PHY93_15150|PHY93_15150 495 NPNLRPETIDTYELGGDYRFtSNWQANFNFFHYRANELINFVKDHNATT----ATAQNIGSQNGNGFSLETNIK----MSqdILLT 572
                              *****************88866666**********************99....9999************99988....55555558 PP

                              EEEEEEEEECECEEECTTTTSSTTEESEEEEEEEEEECSEEEEEEEESEEEEEEECCSSEEEEECECCEEEE--EEEEEEEE.EEE CS
             TonB_dep_Rec 341 gggytYydagddsdaddggnplpnvPkhtanlgltYkfpaggWgaglllagarYvavggrrygdaantfrrvpgYtlldlsl.gYk 425
                              ++ y+Y +++++ ++ + g++    P ++  +  +++f   +W   +  +  +++  g  r++++++  ++++gY++ dl l +  
  PHY93_15150|PHY93_15150 573 AN-YSYIKTTNENSGKSAGDY----PNQKIYARSDWEF-RPNWY--W-DTQITWI--GI-RDREPTDPRDPLKGYATADLVLrR-- 644
                              88.***888666333333333....4444443344533.33455..2.1566775..44.5566664444899*********63.. PP

                              ES...SSEEEEEEEESTTE.........TCSCEEESTTTTTCCEB--SEEEEEEEE CS
             TonB_dep_Rec 426 lp...knltlslgvnNLfd.........kryyassgyyglggypgpgRtfrlglry 469
                               +   k++   + v+NLfd           ++++++   ++  p +gR+f+  l+y
  PHY93_15150|PHY93_15150 645 -KsffKHFDAMATVRNLFDadvrepsagPGPTSQTAAI-PNDLPMAGRNFYGELSY 698
                              .435599************8775443332255555566.9999999*****99987 PP

>> Plug  TonB-dependent Receptor Plug Domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.2   0.1     9e-23     4e-19       3     108 .]      52     161 ..      50     161 .. 0.94

  Alignments for each domain:
  == domain 1  score: 69.2 bits;  conditional E-value: 9e-23
                              GCCSSEEEEEEHHHHHHTTTSSHHHHHTTSTTEEEECCCCSTTSEEEEETTB-G....GCSEEEETTEEESC..CCCSCTCGCSSB CS
                     Plug   3 kdtpgsvsvvtaediekqgatsladalqgvpgvnvsssgggggassisiRGlgs....nrvlvlvDGvpian..ggsgagdlssid 82 
                               ++p+  sv+ta++i+++gat+l+++l+  pg++  +s g+g++s++ i G+gs       l++++G pi     g++     +++
  PHY93_15150|PHY93_15150  52 AEAPAIASVITAQEIDAMGATTLDEVLEAAPGLH--VSVGQGYGSTYLINGIGSrpfnPEALLMINGTPIKLlyTGDTIMRSGFLP 135
                              6889999***************************..7*********************************99666666668889** PP

                              GGGEEEEEEEESSCHCTTSSTGSSEE CS
                     Plug  83 pedierievlkGpasalyGsdaigGv 108
                              + +i+rie+++Gp salyG+da  Gv
  PHY93_15150|PHY93_15150 136 VKMISRIEIIRGPGSALYGADAFSGV 161
                              ************************98 PP

>> OMP_b-brl_3  Outer membrane protein beta-barrel family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.1  16.5   1.5e-15   6.6e-12     161     380 ..     454     667 ..     378     698 .] 0.78

  Alignments for each domain:
  == domain 1  score: 45.1 bits;  conditional E-value: 1.5e-15
              OMP_b-brl_3 161 PsvslsyklndknklqlslsYyrriinRPsisqLnPfrnysdplnisqGNPnLkPeftnsfelg....yskkwkltlslsyrytnd 242
                              P   l +k +++   +++l  y r  + P++ +L  +     ++ i+ GNPnL+Pe ++ +elg    ++ +w+ +++ ++++ n+
  PHY93_15150|PHY93_15150 454 PRTALVWKTTSDL--TMKLL-YGRAFRAPTFLELYNI-----NNLITLGNPNLRPETIDTYELGgdyrFTSNWQANFNFFHYRANE 531
                              6666666655544..44444.4455566666666544.....567999****************6633333677888888888877 PP

              OMP_b-brl_3 243 niqitvitddnnnvllttyeNlgksqsyglelslslnptkwwslnanlnlyynkskidgslnsdvsnkgfswnlnntftlpkkisl 328
                               i++    + + n+++ t +N+g+++  g++l +++++++   l+an +    +++ +g+  +d+ n+++++++   f+ ++ ++ 
  PHY93_15150|PHY93_15150 532 LINF----VKDHNATTATAQNIGSQNGNGFSLETNIKMSQDILLTANYSYIKTTNENSGKSAGDYPNQKIYARSDWEFRPNWYWDT 613
                              7754....4578889999**************************9999988788888888888*********************** PP

              OMP_b-brl_3 329 qlngfyrspqv.taqgk.rkafysvdlglsksflkkkltlslnvnDifntrkrr 380
                              q++      ++ t   +  k++ + dl l+++ + k + + ++v+++f+   r+
  PHY93_15150|PHY93_15150 614 QITWIGIRDREpTDPRDpLKGYATADLVLRRKSFFKHFDAMATVRNLFDADVRE 667
                              *999875555514444468***********999999************988765 PP

>> Legionella_OMP  Legionella pneumophila major outer membrane protein precursor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   1.1   7.9e-07    0.0035      39     114 ..     492     569 ..     457     580 .. 0.73

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 7.9e-07
           Legionella_OMP  39 ssevkevdpdwdwGfrlegsYhFntGnDinvnWthldtsssallla.aeqegelaataksklknkfd.avnlelGqhv 114
                              +  + +++p+    ++l+g+Y+F +++  n+n++h+++++  ++++ +++++++a+++ s++ n f    n+++ q++
  PHY93_15150|PHY93_15150 492 TLGNPNLRPETIDTYELGGDYRFTSNWQANFNFFHYRANELINFVKdHNATTATAQNIGSQNGNGFSlETNIKMSQDI 569
                              56667778888888**************************96555577888888888888988888746788888876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (698 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       247  (0.0137766); expected 358.6 (0.02)
Passed bias filter:                      188  (0.0104858); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.70u 0.27s 00:00:00.97 Elapsed: 00:00:00.48
# Mc/sec: 4327.71
//
Query:       PHY93_15155|PHY93_15155  [L=133]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    9.6e-08   32.2   0.0    2.1e-07   31.2   0.0    1.6  1  Peptidase_S74  Chaperone of endosialidase


Domain annotation for each model (and alignments):
>> Peptidase_S74  Chaperone of endosialidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.2   0.0   1.2e-11   2.1e-07      27      58 .]      11      39 ..       6      39 .. 0.87

  Alignments for each domain:
  == domain 1  score: 31.2 bits;  conditional E-value: 1.2e-11
                             E-BCCHHHHHGGGGS-BEEE--HHHHHHHHHH CS
            Peptidase_S74 27 YrykdesirkskdsgrrevGfIAQeveavlpe 58
                             Y+++d    k+++++ +++GfIAQevea++p+
  PHY93_15155|PHY93_15155 11 YHWRD---SKRDKEEGEKLGFIAQEVEAIFPQ 39
                             ***99...57777888**************95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (133 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       798  (0.0445089); expected 358.6 (0.02)
Passed bias filter:                      506  (0.0282224); expected 358.6 (0.02)
Passed Vit filter:                        55  (0.00306766); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.26s 00:00:00.78 Elapsed: 00:00:00.48
# Mc/sec: 830.08
//
Query:       PHY93_15160|PHY93_15160  [L=410]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.1e-07   32.7   0.0    2.9e-07   31.3   0.0    1.7  1  Fic             Fic/DOC family
  ------ inclusion threshold ------
      0.017   15.0   0.2      0.056   13.4   0.2    1.9  1  HTH_11          HTH domain
        0.1   12.2   0.0       0.19   11.3   0.0    1.3  1  Glyco_hydro_46  Glycosyl hydrolase family 46


Domain annotation for each model (and alignments):
>> Fic  Fic/DOC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.3   0.0   4.9e-11   2.9e-07       2      94 ..     178     272 ..     177     274 .. 0.77

  Alignments for each domain:
  == domain 1  score: 31.3 bits;  conditional E-value: 4.9e-11
                              -SHHHHHHHHCHS-S----...--TS--SS-ST..EEEE---SCCCHHHHH.HHHHHHHC.HHT-S-HHHHHHHHHHHHHHH--SS CS
                      Fic   2 ltledllelhrlllqdige...eagefrdeevsegklesalappeevpael.eelleyln.elekeeplekaaalhyefekiHPFa 82 
                              l+++ ++++h+ll ++i     ++g+ r+ +v+++++ + + +   +p+ l ee++ +l+ +++ ++p+e+  ++++ + +i  F 
  PHY93_15160|PHY93_15160 178 LSPSIIKSIHALLSENIIRnksAQGAVRTIPVGITGTSYIPLA---IPQLLeEEFDIFLKkASQIKNPIEQSFFILIFVSYIQFFE 260
                              78999********99999988766999**99944444444333...333331244444446679999******************* PP

                              S-HHHHHHHHHH CS
                      Fic  83 DGNgRtarllln 94 
                              D N+Rt+r+ +n
  PHY93_15160|PHY93_15160 261 DLNKRTSRVSCN 272
                              ********9887 PP

>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.2   9.5e-06     0.056      12      50 ..       9      47 ..       6      55 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 9.5e-06
                   HTH_11 12 argpisgeeLAeeLnvSrrtvrrdIkaLeelgvpIesep 50
                             +++ +s e+ +++ n+S+r  +r Ik+L  l   I s++
  PHY93_15160|PHY93_15160  9 TDKEFSVEDYSKKYNISERSAQRKIKELLNLNEIIFSKK 47
                             4555999999********************999999886 PP

>> Glyco_hydro_46  Glycosyl hydrolase family 46
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   3.2e-05      0.19      61      92 ..     292     323 ..     287     327 .. 0.94

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 3.2e-05
           Glyco_hydro_46  61 kylpaLrkvdgsdshegLdenfekawkaaaed 92 
                              +y+ aL++v +s++++gL++ f++ +k+ a+d
  PHY93_15160|PHY93_15160 292 SYVLALKNVYESNNVSGLKTLFINSIKKSAQD 323
                              7*****************************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (410 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1156  (0.0644765); expected 358.6 (0.02)
Passed bias filter:                      383  (0.021362); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.61u 0.25s 00:00:00.86 Elapsed: 00:00:00.48
# Mc/sec: 2591.69
//
Query:       PHY93_15165|PHY93_15165  [L=280]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (280 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       336  (0.0187406); expected 358.6 (0.02)
Passed bias filter:                      134  (0.00747392); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.45
# Mc/sec: 1866.35
//
Query:       PHY93_15170|PHY93_15170  [L=132]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (132 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       642  (0.0358079); expected 358.6 (0.02)
Passed bias filter:                      380  (0.0211947); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 908.31
//
Query:       PHY93_15175|PHY93_15175  [L=447]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
       0.14   12.1   0.5       0.35   10.9   0.5    1.6  1  Zn_Tnp_IS1595  Transposase zinc-ribbon domain


Domain annotation for each model (and alignments):
>> Zn_Tnp_IS1595  Transposase zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.5     2e-05      0.35      20      46 .]       6      31 ..       3      31 .. 0.90

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 2e-05
            Zn_Tnp_IS1595 20 vCPhCgsrkayriktrglfqCkeCrkq 46
                              C  C+ +++ ++++ +lf C+eC++q
  PHY93_15175|PHY93_15175  6 KCSVCK-KEVVKLTNVKLFLCYECSEQ 31
                             599999.89999999*********987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (447 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       670  (0.0373696); expected 358.6 (0.02)
Passed bias filter:                      379  (0.0211389); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.62u 0.25s 00:00:00.87 Elapsed: 00:00:00.48
# Mc/sec: 2771.45
//
Query:       PHY93_17135|PHY93_17135  [L=139]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0006   19.7   0.4     0.0011   18.8   0.4    1.5  1  OEP       Outer membrane efflux protein


Domain annotation for each model (and alignments):
>> OEP  Outer membrane efflux protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.4   6.3e-08    0.0011       3      97 ..      46     135 ..      44     139 .] 0.74

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 6.3e-08
                      OEP   3 ellalalennpdlkaaeaeieaaeanlkaakaeflPtlslsgsygyegngsegggddggtgtt...svgltlsqplfdggkrrarv 85 
                              e+  +a e+n d+++a+ ++ +a+ n+ +a+a+f+P  +  + +  +g ++         +t+    + l++   +++  k+++  
  PHY93_17135|PHY93_17135  46 EMKVIANERNTDINIAFENYLIAKKNVSIARAQFNPITTGHLLGIAMGLSYL--------WTPlaiEAVLSIPTKIYNVSKNKYLT 123
                              667789***************************9998887777777777764........22333346666666677777777777 PP

                      OEP  86 kaakaqleaaea 97 
                              + a ++l  a++
  PHY93_17135|PHY93_17135 124 QVATYNLNEARE 135
                              777776666666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (139 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       472  (0.0263261); expected 358.6 (0.02)
Passed bias filter:                      292  (0.0162865); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.46
# Mc/sec: 911.72
//
Query:       PHY93_15180|PHY93_15180  [L=107]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.5e-09   38.1   0.6      2e-09   37.7   0.6    1.2  1  HTH_26    Cro/C1-type HTH DNA-binding domain
     0.0098   16.2   1.2      0.012   15.9   0.2    1.7  2  Mnd1      Mnd1 HTH domain
  ------ inclusion threshold ------
      0.046   13.6   0.1      0.059   13.3   0.1    1.2  1  MLIP      Muscular LMNA-interacting protein


Domain annotation for each model (and alignments):
>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.7   0.6   3.4e-13     2e-09       7      62 ..      13      75 ..       6      76 .. 0.84

  Alignments for each domain:
  == domain 1  score: 37.7 bits;  conditional E-value: 3.4e-13
                   HTH_26  7 adrgi.tkseLar......gtgisaatlsrlvkgkpervsldtLdkiCdaLgctpgDLleyep 62
                             +++ i ++++L +      g+ is +++ +++++ p  ++l+tL+ iC+a +c+++D+l+++p
  PHY93_15180|PHY93_15180 13 KKHSIySATDLKKmihkktGVSISLQNICNYLNKDPAMIRLETLEIICTAIDCNLQDILKITP 75
                             46788******87444444445**************************************998 PP

>> Mnd1  Mnd1 HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.2     2e-06     0.012       2      30 ..       8      35 ..       7      54 .. 0.80
   2 ?   -2.1   0.1      0.82   4.9e+03      13      24 ..      66      77 ..      66      83 .. 0.72

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 2e-06
                     Mnd1  2 leifqeskefytlKeleklapkekgivsq 30
                              +++++++++y+  +l+k+++k++g++  
  PHY93_15180|PHY93_15180  8 KKFIEKKHSIYSATDLKKMIHKKTGVS-I 35
                             5799999***************99965.3 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 0.82
                     Mnd1 13 tlKeleklapke 24
                             +l+++ k+ p +
  PHY93_15180|PHY93_15180 66 NLQDILKITPTK 77
                             578999988873 PP

>> MLIP  Muscular LMNA-interacting protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.1   9.9e-06     0.059     135     179 ..      47      92 ..      29     100 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 9.9e-06
                     MLIP 135 spaqlrqqtee.lcavidqvlqdpltmvtsessadepkvllssetv 179
                               pa +r  t e +c+ id  lqd l ++ ++ ++++ ++l  ++t 
  PHY93_15180|PHY93_15180  47 DPAMIRLETLEiICTAIDCNLQDILKITPTKKTSKSTRKLSYKNTP 92 
                              59999*9996637******************999999999888775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (107 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       738  (0.0411624); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.44u 0.27s 00:00:00.71 Elapsed: 00:00:00.43
# Mc/sec: 741.01
//
Query:       PHY93_15185|PHY93_15185  [L=370]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.7e-16   60.5   0.0    3.8e-16   59.4   0.0    1.6  2  Phage_integrase  Phage integrase family
    2.9e-05   24.4   0.5    0.00011   22.5   0.2    2.2  3  Phage_int_SAM_4  Phage integrase, N-terminal SAM-like domain


Domain annotation for each model (and alignments):
>> Phage_integrase  Phage integrase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0      0.66   5.9e+03     137     156 ..      94     113 ..      93     113 .. 0.87
   2 !   59.4   0.0   4.2e-20   3.8e-16      20     170 ..     193     355 ..     171     357 .. 0.89

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 0.66
                              HHHHHHHHCTSHHHHHHHHT CS
          Phage_integrase 137 fataLleagvdlrvvqkllG 156
                              ++ aL+ +++ +++v ++lG
  PHY93_15185|PHY93_15185  94 YSNALIDSEITIKTVRSYLG 113
                              57889999999999999998 PP

  == domain 2  score: 59.4 bits;  conditional E-value: 4.2e-20
                              HHHHHHHHHHHHHHT--HHHHTT-BGGGEECTTTEEEEE...EEECSSSSEEEEECTHHHHHHHHHHHHHH...CHCCTTTSBSSB CS
          Phage_integrase  20 kirdklllellyetGlRisEllsLrvkdldlengvilvh...eregKgskeravplseealellkellska...leeaeksellfa 99 
                              + r++++l l+ e+GlRi E++ L+v+dl +e + i       ++g g+++r+  ++  a   +k +l+ +   l+ +e+s+llf+
  PHY93_15185|PHY93_15185 193 ANRNYAMLVLAGESGLRIDEIIHLEVQDLFFESKKIQTRyakGTRGSGKRARVTIFTPLARDTIKYYLKIReelLQGKEESKLLFP 278
                              4589999*****************************997666666667777888888888888888888888889999******** PP

                              ETTSSB--HHHHHHHHHHHHHHCT-S.....SC--TTHHHHHHHHHHHHHC.TSHHHHHHHHT-SSCCHHHHHHCCC CS
          Phage_integrase 100 skrgkplsrqtvrkafkraveeagie.....kpltpHtlRhsfataLleag.vdlrvvqkllGHssisttqiYthva 170
                               + g  l  ++++ a+k++ + a++e     ++++ H +R+ fat+ +e+    l+v+ +llGH   +t+  Y++++
  PHY93_15185|PHY93_15185 279 TRSGGILDYSSAYLALKKIEKIANKEgfsilSHFSWHWMRRIFATRFIEKFpHQLSVLISLLGHVTPNTVHCYIRHS 355
                              *************************************************9526799*****************9876 PP

>> Phage_int_SAM_4  Phage integrase, N-terminal SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.5   0.2   1.3e-08   0.00011       1      83 [.      37     127 ..      37     128 .. 0.89
   2 ?   -3.6   0.0       1.9   1.7e+04      14      23 ..     251     260 ..     248     262 .. 0.77
   3 ?   -2.8   0.0         1   8.9e+03      13      24 ..     342     353 ..     337     354 .. 0.79

  Alignments for each domain:
  == domain 1  score: 22.5 bits;  conditional E-value: 1.3e-08
          Phage_int_SAM_4   1 LlerfrealrlaglserTiksYlsaikrflrflk..kk.......apeeltkedieaYlnyLanerklsastqknalnalsffykk 77 
                              Ll+r+ +  r++++s++Ti   +s ++   + +   ++         +  +++ i+ Y n L+ +   + +t++ +l +ls++++ 
  PHY93_15185|PHY93_15185  37 LLKRYFDSHRMKNYSPKTISREKSFLNNWFELHGpgNRtmftweaMASVTGRQRIINYSNALI-DSEITIKTVRSYLGILSQYFSY 121
                              799999***************************533447888884556667999*********.********************** PP

          Phage_int_SAM_4  78 vlerel 83 
                              vle ++
  PHY93_15185|PHY93_15185 122 VLEFPY 127
                              **9887 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 1.9
          Phage_int_SAM_4  14 lserTiksYl 23 
                              l+  Tik+Yl
  PHY93_15185|PHY93_15185 251 LARDTIKYYL 260
                              5678999997 PP

  == domain 3  score: -2.8 bits;  conditional E-value: 1
          Phage_int_SAM_4  13 glserTiksYls 24 
                              + +++T+++Y++
  PHY93_15185|PHY93_15185 342 HVTPNTVHCYIR 353
                              678899999975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (370 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       375  (0.0209158); expected 358.6 (0.02)
Passed bias filter:                      305  (0.0170115); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.47
# Mc/sec: 2383.46
//
Query:       PHY93_15190|PHY93_15190  [L=125]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.011   15.6   0.1      0.017   15.0   0.0    1.3  1  NinB      NinB protein


Domain annotation for each model (and alignments):
>> NinB  NinB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   0.0   9.3e-07     0.017      19      77 ..      39      97 ..      23     105 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 9.3e-07
                     NinB 19 aiaslpvdekkplvveikeetRslaqNallwallkdiarqvewagekldaeeWKdllta 77
                               ++  +d+ ++   ei+ ++R ++    l ++lk i+  v++ g+k++ e+ K+ +t 
  PHY93_15190|PHY93_15190 39 SWKQKHLDQYDKEYHEIQRDKRDKEIEDILNSILKCIEVGVKFLGQKIEYENFKAYFTT 97
                             446666788899999***************************************99986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (125 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1782  (0.099392); expected 358.6 (0.02)
Passed bias filter:                      666  (0.0371465); expected 358.6 (0.02)
Passed Vit filter:                        67  (0.00373696); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.28s 00:00:00.74 Elapsed: 00:00:00.44
# Mc/sec: 854.50
//
Query:       PHY93_20835|PHY93_20835  [L=179]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (179 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       342  (0.0190752); expected 358.6 (0.02)
Passed bias filter:                      280  (0.0156172); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.27s 00:00:00.76 Elapsed: 00:00:00.48
# Mc/sec: 1132.78
//
Query:       PHY93_20840|PHY93_20840  [L=91]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (91 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       521  (0.0290591); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.46
# Mc/sec: 594.31
//
Query:       PHY93_20845|PHY93_20845  [L=168]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (168 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       633  (0.0353059); expected 358.6 (0.02)
Passed bias filter:                      438  (0.0244297); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.27s 00:00:00.72 Elapsed: 00:00:00.44
# Mc/sec: 1143.96
//
Query:       PHY93_20850|PHY93_20850  [L=81]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (81 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       524  (0.0292264); expected 358.6 (0.02)
Passed bias filter:                      398  (0.0221987); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.26s 00:00:00.67 Elapsed: 00:00:00.43
# Mc/sec: 564.67
//
Query:       PHY93_20855|PHY93_20855  [L=306]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (306 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       601  (0.0335211); expected 358.6 (0.02)
Passed bias filter:                      350  (0.0195214); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 2055.11
//
Query:       PHY93_20860|PHY93_20860  [L=241]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      0.003   17.7   0.1     0.0081   16.4   0.1    1.8  1  HALZ          Homeobox associated leucine zipper
  ------ inclusion threshold ------
       0.07   12.6   0.4      0.093   12.2   0.4    1.3  1  Allexi_40kDa  Allexivirus 40kDa protein
        2.1    8.5   5.9       0.49   10.5   1.2    2.2  3  TFR_dimer     Transferrin receptor-like dimerisation domain
        5.1    7.2  19.4        7.9    6.6   6.6    3.0  2  TPR_MLP1_2    TPR/MLP1/MLP2-like protein
        5.5    6.6  11.3       0.36   10.5   3.4    2.3  2  Syntaxin      Syntaxin
        6.4    6.8   7.1       0.36   10.8   0.6    2.0  2  DUF4446       Protein of unknown function (DUF4446)


Domain annotation for each model (and alignments):
>> HALZ  Homeobox associated leucine zipper
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.1   2.7e-06    0.0081       3      27 ..      24      48 ..      23      55 .. 0.92

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 2.7e-06
                     HALZ  3 LErDYdvLKasYdaLksdydsLkke 27
                             +E++++vLK++  +L+++++ +++e
  PHY93_20860|PHY93_20860 24 TEKECRVLKKDVQKLTAENEKIQEE 48
                             7***************999999988 PP

>> Allexi_40kDa  Allexivirus 40kDa protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.4   3.1e-05     0.093      71     159 ..      19     107 ..      10     172 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 3.1e-05
             Allexi_40kDa  71 vsllsqttlLselrdalrtltklldklksvekklelsaetasdskllkklesietsleelhakldelsssetsesegPsssptkas 156
                              +s++s++++   l++++++lt + +k+++   +++l +++a+ + +  k++ + +s e+l  k+++   ++ +  +  ++ p+k++
  PHY93_20860|PHY93_20860  19 TSAFSTEKECRVLKKDVQKLTAENEKIQEEAGRQSLTMDKAQRKAVNAKMAKLARSAEDLIPKINKANCNQYEWFADTNNQPKKEE 104
                              5677888888899***************************************************9988877766666666666665 PP

             Allexi_40kDa 157 sae 159
                              s+e
  PHY93_20860|PHY93_20860 105 SKE 107
                              544 PP

>> TFR_dimer  Transferrin receptor-like dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   1.2   0.00016      0.49      11      56 ..      29      74 ..      23     109 .. 0.84
   2 ?   -0.6   0.0      0.46   1.4e+03      11      61 ..     161     197 ..     144     208 .. 0.61
   3 ?   -2.9   0.0       2.4   7.2e+03       9      21 ..     216     228 ..     206     238 .. 0.49

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00016
                TFR_dimer 11 kkfkkaaeefdkwadkwedvggaessllavrkrrkiNdklmrfera 56
                               +kk++++++++ +k+++++g +s  ++  +r+++N k++++ r+
  PHY93_20860|PHY93_20860 29 RVLKKDVQKLTAENEKIQEEAGRQSLTMDKAQRKAVNAKMAKLARS 74
                             5578888888888888886567777888888999*******99885 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.46
                TFR_dimer  11 kkfkkaaeefdkwadkwedvggaessllavrkrrkiNdklmrferafldpe 61 
                              k++k++              ++  s+ +a+++ +   dk +++e +  d+e
  PHY93_20860|PHY93_20860 161 KRLKNK--------------TELFSNFVAIKETKGTDDKVVKIEINKADKE 197
                              333333..............3455566666666666666666665555555 PP

  == domain 3  score: -2.9 bits;  conditional E-value: 2.4
                TFR_dimer   9 aikkfkkaaeefd 21 
                                ++fk +a++ +
  PHY93_20860|PHY93_20860 216 ETESFKATAKKEE 228
                              3333444333333 PP

>> TPR_MLP1_2  TPR/MLP1/MLP2-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   4.9    0.0096        29       7     105 ..      25      68 ..      20     112 .. 0.62
   2 ?    6.6   6.6    0.0026       7.9      14     101 ..     128     220 ..     120     240 .. 0.74

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.0096
               TPR_MLP1_2   7 eeeikslkeekeeaeaklqklqedlekqaeiakeaqqkYerelvkhaedvkelqalreelnelkaeiaelkaeaesakaeleesee 92 
                              e+e   lk++ ++++a+ +k+qe+   q+  + +aq+k                                                
  PHY93_20860|PHY93_20860  25 EKECRVLKKDVQKLTAENEKIQEEAGRQSLTMDKAQRKA----------------------------------------------- 63 
                              445555555555555555555555555555555555543............................................... PP

               TPR_MLP1_2  93 sweeqkeelekel 105
                                         ++
  PHY93_20860|PHY93_20860  64 --------VNAKM 68 
                              ........33333 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.0026
               TPR_MLP1_2  14 keekeeaeaklqklqedlekqaeiakeaqqkYerelvkhaedvkelqalreel....nelkaeiaelkaeaesaka.eleeseesw 94 
                              + +ke ae++++  ++dl++++eia +    Y++ l ++ e   +  a++e      + +k ei+++ +e +sa + +  + ++  
  PHY93_20860|PHY93_20860 128 LGKKEYAEEQIADQRRDLKTETEIAGKPAPEYAKRLKNKTELFSNFVAIKETKgtddKVVKIEINKADKEGNSAGSaTYFRTKKDC 213
                              568899***************************************99999987666666677777776666665430333444444 PP

               TPR_MLP1_2  95 eeqkeel 101
                              e++ e++
  PHY93_20860|PHY93_20860 214 EKETESF 220
                              4444444 PP

>> Syntaxin  Syntaxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   3.4   0.00012      0.36      10      74 ..      23      88 ..      17     109 .. 0.84
   2 ?    0.9   0.4       0.1   3.1e+02      24      60 ..     190     226 ..     167     236 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00012
                 Syntaxin 10 eikkeiekleeevkklkkqneesktstraksvk.lkkrmesdikeikkraesvkarLeaLdksnke 74
                             + +ke + l+++v+kl+++ne++ +   ++s+   k++ ++  ++  k a+s +  + +++k+n +
  PHY93_20860|PHY93_20860 23 STEKECRVLKKDVQKLTAENEKIQEEAGRQSLTmDKAQRKAVNAKMAKLARSAEDLIPKINKANCN 88
                             56789999***********************98778888888888899999999999888888765 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.1
                 Syntaxin  24 klkkqneesktstraksvklkkrmesdikeikkraes 60 
                              +++k+ +e  ++ +a   ++kk++e+++++ k +a++
  PHY93_20860|PHY93_20860 190 EINKADKEGNSAGSATYFRTKKDCEKETESFKATAKK 226
                              5778888888888889999999999999999988875 PP

>> DUF4446  Protein of unknown function (DUF4446)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.6   0.00012      0.36       5      94 ..       9      97 ..       4      99 .. 0.76
   2 ?   -1.1   1.0      0.57   1.7e+03      39      73 ..     195     229 ..     161     239 .. 0.54

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00012
                  DUF4446  5 vlavlvvillillivllvklkklkkkykklmkgkdgksleellkekleeveelkees.eelekeieeleeklkkslqkvglvrYdAFe 91
                             ++ vl++ +l  ++ +  +++ lkk+++kl+   ++++++e   ++  ++++++++  ++ ++++++  e+l  +++k +  +Y+ F+
  PHY93_20860|PHY93_20860  9 LFPVLTIFILTSAFSTEKECRVLKKDVQKLTA--ENEKIQEEAGRQSLTMDKAQRKAvNAKMAKLARSAEDLIPKINKANCNQYEWFA 94
                             4557788888889999999***********87..566666666666666666655442777888999999999999999999999999 PP

                  DUF4446 92 emG 94
                             ++ 
  PHY93_20860|PHY93_20860 95 DTN 97
                             875 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.57
                  DUF4446  39 dgksleellkekleeveelkeeseelekeieelee 73 
                              d++      ++++++ ++ ++e+e+ +++ ++ e+
  PHY93_20860|PHY93_20860 195 DKEGNSAGSATYFRTKKDCEKETESFKATAKKEED 229
                              44444444556666666666666666655555444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (241 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2017  (0.112499); expected 358.6 (0.02)
Passed bias filter:                      546  (0.0304535); expected 358.6 (0.02)
Passed Vit filter:                        57  (0.00317921); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.58u 0.27s 00:00:00.85 Elapsed: 00:00:00.46
# Mc/sec: 1587.33
//
Query:       PHY93_20865|PHY93_20865  [L=124]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.15   11.9   1.2       0.26   11.1   1.2    1.3  1  DivIC     Septum formation initiator


Domain annotation for each model (and alignments):
>> DivIC  Septum formation initiator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   1.2   1.5e-05      0.26      12      43 ..      87     118 ..      82     123 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 1.5e-05
                              XXXXXXHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                    DivIC  12 gkkgllaykqlkqeiaalqaelaklkaeneeL 43 
                              + k + +y+++ +e a+ q+el+++k+e e+ 
  PHY93_20865|PHY93_20865  87 YSKEVTTYQEVSAEHAQRQRELVEKKKETEKS 118
                              667889**********************9975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (124 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1861  (0.103798); expected 358.6 (0.02)
Passed bias filter:                      600  (0.0334653); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 854.75
//
Query:       PHY93_17140|PHY93_17140  [L=382]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.6e-17   64.0  33.7      6e-09   36.0   9.3    4.0  3  OEP             Outer membrane efflux protein
  ------ inclusion threshold ------
      0.015   15.3   1.7      0.077   13.1   0.0    3.1  3  DUF2443         Protein of unknown function (DUF2443)
      0.017   14.6   0.4      0.017   14.6   0.4    2.0  2  Pneumovirus_M2  Pneumovirus matrix protein 2 (M2)
       0.35   11.7   5.1        2.8    8.8   0.2    3.2  3  Colicin-DNase   DNase/tRNase domain of colicin-like bacterioc


Domain annotation for each model (and alignments):
>> OEP  Outer membrane efflux protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.0   9.3   1.3e-12     6e-09       1     171 [.      26     178 ..      26     194 .. 0.88
   2 !    4.3   0.0    0.0071        32       2      35 ..     222     256 ..     221     258 .. 0.86
   3 !   27.1  12.9   7.3e-10   3.3e-06      76     188 .]     259     373 ..     251     373 .. 0.94

  Alignments for each domain:
  == domain 1  score: 36.0 bits;  conditional E-value: 1.3e-12
                      OEP   1 ldellalalennpdlkaaeaeieaaeanlkaakaeflPtlslsgsygyegngsegggddggtgttsvgltlsqplfdggkrrarvk 86 
                              l+ + +++++nn  + +a  ++ + +++ +a+  + lPtls+     ++++++  +                  +   ++r+ +v 
  PHY93_17140|PHY93_17140  26 LEKAREQVANNNIKVSIAYEQYVQVKNEEQAKTLQLLPTLSVDMLVLNYQYTILRS-----------------IIPE-PSRFFEVS 93 
                              57788899999999999999999999999999999999999998888877776433.................3444.******** PP

                      OEP  87 aakaqleaaeaqleqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislldvlqaqvrllqaraelae 171
                              a+k   eaa+ ++  ++ +l ++++++++  + +ke++e  ++ ++   +++++ +++y++G+is +d+ +aq+++  a+ + ++
  PHY93_17140|PHY93_17140  94 AQKDLAEAAKVNRTIVKKNLLEDLEETFYLHQFHKEMIESFKKEADITGQIAARSQEAYDLGAISFSDYYRAQRNVITAKTQSVN 178
                              *******************************************************************************999776 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.0071
                      OEP   2 dellalalennpdlkaaeaeieaa.eanlkaakae 35 
                              +e++++a++n+ ++ +  + i+aa ++ + +a ++
  PHY93_17140|PHY93_17140 222 QEAVTIAVNNSKEVEQFGHLIDAAnKQKKGVALSW 256
                              79**********************66666666665 PP

  == domain 3  score: 27.1 bits;  conditional E-value: 7.3e-10
                      OEP  76 fdg..gkrrarvkaakaqleaaeaqleqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislldvlqaq 159
                              + g    +++rv +ak+++ + e+++++a+++++++va  y q++++ke  + + ++l+ a+  ++la a+    l s ++  +a+
  PHY93_17140|PHY93_17140 259 WGGvgFDYFSRVSIAKLEVNKLELNKKKAVLEIKNQVAAQYVQIESHKEKMAYQSQLLAMAQAEYTLALASQTDLLNSFINTKRAE 344
                              55555889***********************************************************************99***** PP

                      OEP 160 vrllqaraelaeaeqqlqlaraqLeyllg 188
                               +l  a++e  + +++l+l + +L++llg
  PHY93_17140|PHY93_17140 345 LSLMTAQREDSKLKYELELKYIKLKRLLG 373
                              ***************************98 PP

>> DUF2443  Protein of unknown function (DUF2443)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.0      0.54   2.4e+03      25      38 ..     154     167 ..     128     171 .. 0.73
   2 ?   13.1   0.0   1.7e-05     0.077      33      76 ..     207     252 ..     191     256 .. 0.84
   3 ?   -1.7   0.1      0.67     3e+03      49      62 ..     296     309 ..     271     324 .. 0.66

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.54
                              HHT--HHHHHHHHT CS
                  DUF2443  25 lakislvdyilikr 38 
                              l  is++dy   +r
  PHY93_17140|PHY93_17140 154 LGAISFSDYYRAQR 167
                              56788888876655 PP

  == domain 2  score: 13.1 bits;  conditional E-value: 1.7e-05
                              HHHHHTTSS---TTS-HHHHHHH..HHHHHHHHHHHHHHHHHHGGG CS
                  DUF2443  33 yilikrGsldmPesldvafltqi..deevekLkeaidaLnkikkel 76 
                               +    G+ld Pe+ + a+   +  ++eve++   ida nk kk++
  PHY93_17140|PHY93_17140 207 SLKFYNGTLDYPETAQEAVTIAVnnSKEVEQFGHLIDAANKQKKGV 252
                              5566689*******99888776622679****************97 PP

  == domain 3  score: -1.7 bits;  conditional E-value: 0.67
                              HHHHHHHHHHHHHH CS
                  DUF2443  49 vafltqideevekL 62 
                               a + qi+ + ek+
  PHY93_17140|PHY93_17140 296 AAQYVQIESHKEKM 309
                              34566666666665 PP

>> Pneumovirus_M2  Pneumovirus matrix protein 2 (M2)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.1      0.35   1.6e+03      86     127 ..      29      68 ..      22      85 .. 0.54
   2 ?   14.6   0.4   3.8e-06     0.017      10     123 ..     118     234 ..     110     254 .. 0.86

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.35
           Pneumovirus_M2  86 lrdnkvddskkvalynlvlsyiessrktnkslinllkklpke 127
                              +r+   ++  kv +      y++++  +++++++ll  l  +
  PHY93_17140|PHY93_17140  29 AREQVANNNIKVSI--AYEQYVQVKNEEQAKTLQLLPTLSVD 68 
                              44444333333333..23345555555556666666555555 PP

  == domain 2  score: 14.6 bits;  conditional E-value: 3.8e-06
           Pneumovirus_M2  10 rsnyllnkllkstdksidtlseisGaaeldrteeyvlGivnvlesyidsienitkasacvalskllk..elneddvkklrdnkvd. 92 
                               + + l ++ k++  s    + i+G       e y lG+++  + y  + + it ++  v   +llk  e   + + +++dn    
  PHY93_17140|PHY93_17140 118 EETFYLHQFHKEMIESFKKEADITGQIAARSQEAYDLGAISFSDYYRAQRNVITAKTQSVNGNELLKseEYGLKLILQVKDNTDTl 203
                              578999*******************999989999********************************93234457799*****7654 PP

           Pneumovirus_M2  93 dskkvalynlvlsyiessrktnkslinllkk 123
                              d   ++ yn  l y e+++ +    +n+ k 
  PHY93_17140|PHY93_17140 204 DIDSLKFYNGTLDYPETAQEAVTIAVNNSKE 234
                              8999*************97777777777665 PP

>> Colicin-DNase  DNase/tRNase domain of colicin-like bacteriocin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.1       1.3   5.7e+03      53      65 ..      42      54 ..      20      64 .. 0.45
   2 ?    8.8   0.2   0.00063       2.8       9      67 ..      84     140 ..      81     145 .. 0.84
   3 ?    3.7   0.1     0.025   1.1e+02       7      61 ..     263     318 ..     260     326 .. 0.77

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 1.3
            Colicin-DNase 53 ftkeqleqikkgk 65
                             +  eq  q+k+++
  PHY93_17140|PHY93_17140 42 IAYEQYVQVKNEE 54
                             2333333333332 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.00063
            Colicin-DNase   9 PvFdsaakvkleeellkksrevqfksankklkeelakdpklankftkeqleqikkgkkp 67 
                              P ++++++v  +++ l ++ +v+ + ++k+l+e+l++ + l  +f ke +e +kk+  +
  PHY93_17140|PHY93_17140  84 PEPSRFFEVSAQKD-LAEAAKVNRTIVKKNLLEDLEETFYLH-QFHKEMIESFKKEADI 140
                              88999999966555.77789*****************98875.68*******9887665 PP

  == domain 3  score: 3.7 bits;  conditional E-value: 0.025
            Colicin-DNase   7 GfPvFdsaakvkleeellkksrevqfksankklkeelakdpklank.ftkeqleqi 61 
                              Gf  F++++ +kle ++l+  +++ + ++++++++++ + +  ++k   ++ql ++
  PHY93_17140|PHY93_17140 263 GFDYFSRVSIAKLEVNKLELNKKKAVLEIKNQVAAQYVQIESHKEKmAYQSQLLAM 318
                              8999****999999999999999999999999999888776666662345565555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (382 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1200  (0.0669307); expected 358.6 (0.02)
Passed bias filter:                      382  (0.0213063); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.44
# Mc/sec: 2614.46
//
Query:       PHY93_20870|PHY93_20870  [L=142]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (142 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       609  (0.0339673); expected 358.6 (0.02)
Passed bias filter:                      369  (0.0205812); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.26s 00:00:00.76 Elapsed: 00:00:00.48
# Mc/sec: 891.27
//
Query:       PHY93_20875|PHY93_20875  [L=253]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.4e-42  145.1   0.2    3.5e-42  143.8   0.1    1.6  2  AbiEi_3    Transcriptional regulator, AbiEi antitoxin, Type I
    2.2e-24   85.3   0.0    3.2e-24   84.8   0.0    1.3  1  AbiEi_3_N  Transcriptional regulator, AbiEi antitoxin N-termi


Domain annotation for each model (and alignments):
>> AbiEi_3  Transcriptional regulator, AbiEi antitoxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0      0.23   2.1e+03      14      43 ..      18      49 ..       9      69 .. 0.64
   2 !  143.8   0.1   3.9e-46   3.5e-42       3     159 .]      97     247 ..      95     247 .. 0.97

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.23
                  AbiEi_3 14 lPaWfkel..dldvkieyvktsllkeedtkla 43
                               +Wfke   ++++ ++y+k+  l++   ++ 
  PHY93_20875|PHY93_20875 18 SLSWFKERgiPQNLAYQYFKNGTLEKRGPGIY 49
                             45788875114455566666666666655554 PP

  == domain 2  score: 143.8 bits;  conditional E-value: 3.9e-46
                  AbiEi_3   3 kvvLfgekkaklPaWfkeldldvkieyvktsllkeedtkladkekklktleekgkslkvSspErAvlEllsdvpkkisleeadelm 88 
                               v L + +k++lP+Wf ++d  ++ +++++ l+ ++  +l +++      +e+g ++++Ss E A+lE ++++  ++s+e+a++ m
  PHY93_20875|PHY93_20875  97 IVSLTSYHKENLPKWFSNIDFSCEFKFKNSVLFTKD-VELFNYS------DESGTTVQISSRELAILEFINELDLRYSFETAENYM 175
                              57899999********************99999999.8999999......89********************************** PP

                  AbiEi_3  89 egLvnLrprklqeLLeacssvkvkRLflvlaekaghewvkrLdeekldlGsgkrqvv.keGvydkkyqitvp 159
                              +gL  Lr + lq+LLe+cssvkvkR+fl+laek +++++k+Ld +k+dlG+gkrqv  ++++ydkkyqitvp
  PHY93_20875|PHY93_20875 176 NGLLGLRSDLLQDLLEKCSSVKVKRVFLYLAEKLNYDYFKKLDLSKIDLGKGKRQVIlQNSQYDKKYQITVP 247
                              *******************************************************999*************9 PP

>> AbiEi_3_N  Transcriptional regulator, AbiEi antitoxin N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   84.8   0.0   3.6e-28   3.2e-24       3      93 .]       2      92 ..       1      92 [. 0.98

  Alignments for each domain:
  == domain 1  score: 84.8 bits;  conditional E-value: 3.6e-28
                AbiEi_3_N  3 sklksLlaslppgtvvtaswLaeqGisadlakkyvksgwLerlatGvyarpgdelswegvvasLqrqlklpvhvGglsALelqGlshy 90
                             sk++++l+++ pg     sw +e+Gi ++la +y k+g+Le+ + G+y+r++++l+w g+v  Lq+ l++++h++g +ALel G shy
  PHY93_20875|PHY93_20875  2 SKINQILTEWVPGDTHSLSWFKERGIPQNLAYQYFKNGTLEKRGPGIYSRKNEKLNWLGGVRLLQNELGKKIHISGRTALELHGHSHY 89
                             79************************************************************************************** PP

                AbiEi_3_N 91 lsl 93
                             ++l
  PHY93_20875|PHY93_20875 90 MPL 92
                             986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (253 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       551  (0.0307323); expected 358.6 (0.02)
Passed bias filter:                      382  (0.0213063); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.26s 00:00:00.78 Elapsed: 00:00:00.46
# Mc/sec: 1648.83
//
Query:       PHY93_20880|PHY93_20880  [L=184]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      6e-31  108.2   0.1    6.8e-31  108.0   0.1    1.0  1  AbiEii    Nucleotidyl transferase AbiEii toxin, Type IV TA sy


Domain annotation for each model (and alignments):
>> AbiEii  Nucleotidyl transferase AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  108.0   0.1   3.8e-35   6.8e-31       3     172 ..      12     174 ..      10     183 .. 0.86

  Alignments for each domain:
  == domain 1  score: 108.0 bits;  conditional E-value: 3.8e-35
                   AbiEii   3 Lfa.lslsaladklvFkGGTaLslayglipRfSeDIDlsllr.gdrkellealkealeeiaaalaeeglkvklaasigegedyegl 86 
                              L + l  s  + + ++kGGTa++l++++ pR+S+DIDl +l+  dr++ +++l e+l +i++++++++  +    ++ +g++  +l
  PHY93_20880|PHY93_20880  12 LLDvLEISLVDSRVALKGGTAINLFHRNFPRYSVDIDLCYLPiEDRETTFKNLHEILGKIKEKIEKDLGYNVKVTNPLDGKKETKL 97 
                              555588899999****************************99************************99998777777766455555 PP

                   AbiEii  87 rlrypaefggyarqkikieigfreavppaerreippyleelggpafevpvysleellaeKllalldrgrdrsraRDlyDlalLlea 172
                               ++      g++++ki+ ++++r++++ +e +++++ +  + g ++++++++ ++++++K++a+l    dr+++RDl+D+ +Lle 
  PHY93_20880|PHY93_20880  98 IVT-----KGKVEIKIEPNFTLRGSLYSPELKQLSQEAIKELGRDITINCLNYADTYGGKMCAAL----DRQHPRDLFDIKFLLEE 174
                              552.....67777777777*******8888888888888888***********************....***************94 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (184 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       621  (0.0346366); expected 358.6 (0.02)
Passed bias filter:                      498  (0.0277762); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.45
# Mc/sec: 1223.93
//
Query:       PHY93_20885|PHY93_20885  [L=85]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.026   14.6   0.4      0.031   14.3   0.4    1.2  1  SUIM_assoc  Unstructured region C-term to UIM in Ataxin3
      0.029   12.5   0.2      0.033   12.3   0.2    1.0  1  Pox_F12L    Poxvirus F12L protein


Domain annotation for each model (and alignments):
>> SUIM_assoc  Unstructured region C-term to UIM in Ataxin3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.4   3.5e-06     0.031      10      30 ..       2      63 ..       1      81 [. 0.73

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 3.5e-06
               SUIM_assoc 10 sgtqltsEeLrkrreaYFEK.........................................q 30
                             s t+ +  e ++ r+ +FEK                                          
  PHY93_20885|PHY93_20885  2 SKTEVSLDEIKRVRDEFFEKirtilntndkkflmgfvdnnpdwslvrdnkiknypsikwkmL 63
                             78999***************888888888888888888877777777777777777766541 PP

>> Pox_F12L  Poxvirus F12L protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.2   3.7e-06     0.033     245     313 ..       4      75 ..       2      83 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 3.7e-06
                 Pox_F12L 245 afvdfdskkrliedfLkwlreimeeertiilvGylSslFDipLLraswp...adkgWtligedtlvsrdglk 313
                              + v+ d  kr+  +f++ +r+i + + +  l+G++ +  D +L r        +  W++++++++  +++ k
  PHY93_20885|PHY93_20885   4 TEVSLDEIKRVRDEFFEKIRTILNTNDKKFLMGFVDNNPDWSLVRDNKIknyPSIKWKMLNQEKMSKEKREK 75 
                              56788999*************999999999**************986532256899******9998887776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (85 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1205  (0.0672095); expected 358.6 (0.02)
Passed bias filter:                      463  (0.0258241); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.45
# Mc/sec: 570.48
//
Query:       PHY93_20890|PHY93_20890  [L=347]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (347 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       149  (0.00831056); expected 358.6 (0.02)
Passed bias filter:                       83  (0.00462937); expected 358.6 (0.02)
Passed Vit filter:                         4  (0.000223102); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.27s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 2280.21
//
Query:       PHY93_20895|PHY93_20895  [L=202]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      1e-34  120.5   0.0    1.2e-34  120.2   0.0    1.1  1  RNase_T         Exonuclease
    9.7e-12   45.2   0.1    1.9e-11   44.2   0.1    1.5  1  DUF5051         3' exoribonuclease, RNase T-like
    5.5e-05   23.2   0.0    0.00016   21.7   0.0    1.6  1  RNase_H_2       RNase_H superfamily
    0.00024   20.8   0.1     0.0011   18.7   0.0    2.1  2  DNA_pol_A_exo1  3'-5' exonuclease


Domain annotation for each model (and alignments):
>> RNase_T  Exonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  120.2   0.0   2.8e-38   1.2e-34       1     164 [.       7     162 ..       7     163 .. 0.97

  Alignments for each domain:
  == domain 1  score: 120.2 bits;  conditional E-value: 2.8e-38
                              EEEEEEESSSTTCTTS-EEEEEEEEEETTCCEEEEEEEEEEEHSSHCSSSHHHHHHHHHCHHHHHTCEBHHHHHHHHHHHHHHHTC CS
                  RNase_T   1 vviDlEttgldakekdeiieiaaisidggeneigetfhfyvkptelakltdecteftgitqemldeapsfkevleefkellrklal 86 
                              v+iD+Ettgl+++  d+ ie++a+ + +++  i+++f+++ +p+    ++ ++ +ftgi+++ml +aps+ke+  ++k +++ ++ 
  PHY93_20895|PHY93_20895   7 VIIDFETTGLSPNMGDRTIEVGAVLVSNNQ--IIDRFQSLMNPEMR--VSGFIENFTGISNKMLSTAPSIKEAMGKLKTFIG-DHQ 87 
                              89****************************..9999**********..**********************************.*** PP

                              CCETTTCEEEESSHHHHHHHHHHHHHHHHHCSEHCECHHHHHHHHHCHHHHHHHHHTTCHSSSSTSSHHHHHHHHHHH CS
                  RNase_T  87 lvahnaafdvgflraadkrilkkevpkrnqfldtlildkatlkelartsldklaeklgleedgraHrAldDaeatakl 164
                              lvahnaafd+ fl+a++ ri  k   ++n+f +++  ++++++e ++ +l+ l ++ +l++dg +HrAl+Dae+ta l
  PHY93_20895|PHY93_20895  88 LVAHNAAFDLRFLDAEFNRIKHK---RENEFACSMLTSRRIYPEAPNCKLETLVRYKKLKTDGVHHRALADAEMTAHL 162
                              *******************9555...89***********************************************975 PP

>> DUF5051  3' exoribonuclease, RNase T-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.2   0.1   4.3e-15   1.9e-11       3     163 ..       7     164 ..       5     167 .. 0.71

  Alignments for each domain:
  == domain 1  score: 44.2 bits;  conditional E-value: 4.3e-15
                  DUF5051   3 lmiDiEtlgne..etaelvsIGaVffpetG...eFyaeidlesdeeagidaetieWWlkqskearaellkdtqeakslkdalqale 83 
                              ++iD+Et+g     +   +++GaV+++++     F + +++e     g          +  + + +++l +   a+s+k+a+ +l+
  PHY93_20895|PHY93_20895   7 VIIDFETTGLSpnMGDRTIEVGAVLVSNNQiidRFQSLMNPEMRV-SG--------FIENFTGISNKML-S--TAPSIKEAMGKLK 80 
                              68*******995556689******996666799********7664.45........3333444555555.3..47*********** PP

                  DUF5051  84 eFlekslkvwangasfDlviLraafel............lipwkywndrdvrtlvala...........pelekgeekkreipfeg 146
                              +F+  + +++a++a+fDl+ L a f++            +               +++           + l       ++++++g
  PHY93_20895|PHY93_20895  81 TFI-GDHQLVAHNAAFDLRFLDAEFNRikhkrenefacsM--------------LTSRriypeapncklETLV----RYKKLKTDG 147
                              ***.5789******************98776655433330..............2222244332221122222....23466677* PP

                  DUF5051 147 vkHnALaDAkhqakavs 163
                              v+H ALaDA+  a+++ 
  PHY93_20895|PHY93_20895 148 VHHRALADAEMTAHLWI 164
                              *************9995 PP

>> RNase_H_2  RNase_H superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.7   0.0   3.6e-08   0.00016       2     109 ..       8     136 ..       7     149 .. 0.76

  Alignments for each domain:
  == domain 1  score: 21.7 bits;  conditional E-value: 3.6e-08
                RNase_H_2   2 ffDiEttGlspkknl.iyliGvldvdekeiek.ltqllaeepeeekailelf...................lellekkkalvtfng 66 
                               +D+EttGlsp+ +   + +G++ v+ ++i+  +  l+++e++   +i+ +                    l+++  +++lv++n 
  PHY93_20895|PHY93_20895   8 IIDFETTGLSPNMGDrTIEVGAVLVSNNQIIDrFQSLMNPEMRVSGFIENFTgisnkmlstapsikeamgkLKTFIGDHQLVAHN- 92 
                              79*********9988678899999999999766999*************6556666666777777676788888888899****9. PP

                RNase_H_2  67 ksFDvpflkrlfkkyklde.eefrhiDLlkelrkkklesysLks 109
                              ++FD++fl   f+++k +  +ef +  L  +    ++ +++L++
  PHY93_20895|PHY93_20895  93 AAFDLRFLDAEFNRIKHKReNEFACSMLTSRRIYPEAPNCKLET 136
                              99**********77666653355554444333334445556655 PP

>> DNA_pol_A_exo1  3'-5' exonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   0.0   2.4e-07    0.0011      64     126 ..      68     139 ..       1     146 [. 0.72
   2 ?   -1.7   0.0      0.46   2.1e+03     157     174 ..     152     169 ..     141     171 .. 0.80

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 2.4e-07
                              -......HGHHHHHHHT-TTSEEEESSHHHHHHHHHHH...HTS--SSEEEH.HHHHHHTTHSTT.SSHHHHHH CS
           DNA_pol_A_exo1  64 v......alealkrlledenitkvghnakfDlevlard...fgielenlfdt.mlaayvldyers.hsLdsLae 126
                              +      a+++lk+++ d   + v hna fDl++l+ +   ++++ en f   ml ++ + +e    +L++L++
  PHY93_20895|PHY93_20895  68 TapsikeAMGKLKTFIGDH--QLVAHNAAFDLRFLDAEfnrIKHKRENEFACsMLTSRRIYPEAPnCKLETLVR 139
                              03344557*********86..6**************99888666666666554887776666665788888886 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 0.46
                              HHHHHHTHHHHHHHHHHH CS
           DNA_pol_A_exo1 157 AaeDadvllrlfkkLtke 174
                              A +Da+++++l+ kL + 
  PHY93_20895|PHY93_20895 152 ALADAEMTAHLWIKLIED 169
                              778999999999888665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (202 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       496  (0.0276647); expected 358.6 (0.02)
Passed bias filter:                      411  (0.0229238); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.44
# Mc/sec: 1373.60
//
Query:       PHY93_20900|PHY93_20900  [L=141]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.1e-26   91.3  18.2    1.9e-14   53.5   5.4    2.4  3  DUF347           Repeat of Unknown Function (DUF347)
  ------ inclusion threshold ------
      0.036   14.2   6.8      0.077   13.2   6.2    1.7  2  DUF3792          Protein of unknown function (DUF3792)
      0.039   13.1   6.5        0.2   10.8   3.3    2.0  2  DUF2232          Predicted membrane protein (DUF2232)
       0.12   12.4   8.2       0.45   10.5   0.3    2.1  2  Colicin_V        Colicin V production protein
        1.7    8.8   6.8         11    6.2   2.8    2.2  2  Col_cuticle_N    Nematode cuticle collagen N-terminal domain


Domain annotation for each model (and alignments):
>> DUF347  Repeat of Unknown Function (DUF347)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0       1.7     6e+03      43      52 .]       1      10 [.       1      10 [. 0.82
   2 !   53.5   5.4   5.4e-18   1.9e-14       1      50 [.      24      73 ..      24      75 .. 0.97
   3 !   45.5   2.7   1.7e-15   6.3e-12       1      42 [.      79     125 ..      79     128 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 1.7
                   DUF347 43 vlaqfltkrs 52
                             +++++ t++s
  PHY93_20900|PHY93_20900  1 LAIWYKTEKS 10
                             589**99985 PP

  == domain 2  score: 53.5 bits;  conditional E-value: 5.4e-18
                   DUF347  1 lfWiaiiltttlGttaGDflsqglglgyavgaaifgalllvvvlaqfltk 50
                             ++W+a+++++tlGt+aGD+ls++l lg++++aa+ +++l+++ l+++ tk
  PHY93_20900|PHY93_20900 24 FYWLAFLVANTLGTAAGDYLSDNLELGFMISAALIAVILVITALFHLYTK 73
                             8********************************************99998 PP

  == domain 3  score: 45.5 bits;  conditional E-value: 1.7e-15
                   DUF347   1 lfWiaiiltttlGttaGDflsq.....glglgyavgaaifgalllvv 42 
                              lfWia++lt+++G+t+GD+l++     gl+lg+ ++++ f ++l+ +
  PHY93_20900|PHY93_20900  79 LFWIAFVLTRPFGATFGDLLTKthdkgGLDLGTIGSSLFFSLILIYA 125
                              7********************999999******88888888887655 PP

>> DUF3792  Protein of unknown function (DUF3792)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.0      0.52   1.9e+03      97     112 ..      22      37 ..       6      40 .. 0.67
   2 ?   13.2   6.2   2.2e-05     0.077       8      84 ..      50     126 ..      46     139 .. 0.89

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.52
                  DUF3792  97 llikllllllagaiGG 112
                               l ++l+ l+a ++G 
  PHY93_20900|PHY93_20900  22 ELFYWLAFLVANTLGT 37 
                              4557777777777775 PP

  == domain 2  score: 13.2 bits;  conditional E-value: 2.2e-05
                  DUF3792   8 gllialvitlilllilalllyftslsekvlsililiililsvfigGflagkkakkkgllnGllvGllyflillllsl 84 
                              g++i+ ++++++l+i al+  +t++s   l +++++++    +  G l+ k  +k gl  G +   l+f ++l+ +l
  PHY93_20900|PHY93_20900  50 GFMISAALIAVILVITALFHLYTKVSGILLFWIAFVLTRPFGATFGDLLTKTHDKGGLDLGTIGSSLFFSLILIYAL 126
                              7899**********************************9999999**********************9999655443 PP

>> DUF2232  Predicted membrane protein (DUF2232)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   3.3   5.5e-05       0.2      63     112 ..      28      77 ..      15      83 .. 0.86
   2 ?    4.0   0.2    0.0067        24      64     118 ..      84     138 ..      77     141 .] 0.86

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 5.5e-05
                  DUF2232  63 llilfgllGlvlGyllkkkksaertliagtlafllgillafallalllgv 112
                               ++   +lG + G +l+ + + + ++ a+ +a++l+i++ f l+++++g+
  PHY93_20900|PHY93_20900  28 AFLVANTLGTAAGDYLSDNLELGFMISAALIAVILVITALFHLYTKVSGI 77 
                              45566689****************************************98 PP

  == domain 2  score: 4.0 bits;  conditional E-value: 0.0067
                  DUF2232  64 lilfgllGlvlGyllkkkksaertliagtlafllgillafallalllgvnllaqv 118
                              ++l  ++G  +G ll k + ++   + +++++l++ l+ +++l++ ++++ l+++
  PHY93_20900|PHY93_20900  84 FVLTRPFGATFGDLLTKTHDKGGLDLGTIGSSLFFSLILIYALYKEIQIEKLKKI 138
                              6777889************************************999998866665 PP

>> Colicin_V  Colicin V production protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   2.8    0.0036        13      30      74 ..      24      67 ..      19      76 .. 0.51
   2 ?   10.5   0.3   0.00012      0.45      24      76 ..      73     125 ..      70     138 .. 0.75

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.0036
                Colicin_V 30 gwvvafvvasllypslaellaelilspalaaiiaflllfllvlli 74
                             ++ +af+va  l+  ++++l + +l+  ++  +a +++ l++ ++
  PHY93_20900|PHY93_20900 24 FYWLAFLVANTLGTAAGDYLSD-NLELGFMISAALIAVILVITAL 67
                             4556666666666666666666.2333333333333333333333 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 0.00012
                Colicin_V  24 evlsllgwvvafvvasllypslaellaelilspalaaiiaflllfllvllivs 76 
                               v ++l + +afv+++ ++ ++++ll++ + +  l  +     lf+  +li +
  PHY93_20900|PHY93_20900  73 KVSGILLFWIAFVLTRPFGATFGDLLTKTHDKGGLDLGTIGSSLFFSLILIYA 125
                              67899999********************6555555555555555555555544 PP

>> Col_cuticle_N  Nematode cuticle collagen N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.2   2.8     0.003        11       4      27 ..      53      76 ..      51      78 .. 0.88
   2 ?    4.3   0.1     0.012        43       9      26 ..     114     131 ..     110     132 .. 0.90

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.003
            Col_cuticle_N  4 valStvailsslitlpsiyndiqs 27
                             ++++++a++ ++ +l ++y +++ 
  PHY93_20900|PHY93_20900 53 ISAALIAVILVITALFHLYTKVSG 76
                             78899***************9975 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.012
            Col_cuticle_N   9 vailsslitlpsiyndiq 26 
                               ++++sli +  +y +iq
  PHY93_20900|PHY93_20900 114 SSLFFSLILIYALYKEIQ 131
                              689*************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (141 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       904  (0.0504211); expected 358.6 (0.02)
Passed bias filter:                      384  (0.0214178); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.50u 0.27s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 918.34
//
Query:       PHY93_20905|PHY93_20905  [L=339]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.1e-18   66.6   0.0    4.3e-18   65.6   0.0    1.5  2  rve            Integrase core domain
    1.1e-10   41.1   0.0    2.5e-10   40.0   0.0    1.6  1  rve_3          Integrase core domain
    2.7e-05   24.4   0.1    7.5e-05   23.0   0.0    1.7  2  DDE_Tnp_IS240  DDE domain
     0.0011   19.1   1.2     0.0055   16.8   0.1    2.4  2  rve_2          Integrase core domain
     0.0026   18.3   0.2     0.0093   16.6   0.0    2.0  2  HTH_32         Homeodomain-like domain


Domain annotation for each model (and alignments):
>> rve  Integrase core domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.6   0.0   1.2e-21   4.3e-18       3     116 ..     126     240 ..     124     242 .. 0.98
   2 ?   -3.6   0.0       3.5   1.2e+04      25      47 ..     265     287 ..     260     291 .. 0.74

  Alignments for each domain:
  == domain 1  score: 65.6 bits;  conditional E-value: 1.2e-21
                      rve   3 rpgelwqvDvtvvripdgggkayllvvvddfsrlilaealsdemdastvlalleravarfggve.pervlsDngseytskafrefl 87 
                               p+++++ D+t++r    g+++yl+  +d +sr i++  + d ++ +   al+er ++  g ++  ++++sDng +++  ++ ++l
  PHY93_20905|PHY93_20905 126 GPNQIYSWDITYLRSDIAGKFYYLYMYMDIYSRKIVGQEVFDVESMEYSSALIERICECEGIQKnQLILHSDNGGAMKGATMLATL 211
                              69************999999******************************************99********************** PP

                      rve  88 adlgirvsftrpgrpqdnGkvErfhrtlk 116
                              ++lgi +sf+rp+ ++dn + E  ++tlk
  PHY93_20905|PHY93_20905 212 QKLGIVPSFSRPRVSDDNPYSEALFKTLK 240
                              ****************************9 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 3.5
                      rve  25 yllvvvddfsrlilaealsdemd 47 
                              + +  +  +s+  ++ ++s++++
  PHY93_20905|PHY93_20905 265 FWYNNIHLHSGIKFVTPTSRHAM 287
                              56677888999999999988854 PP

>> rve_3  Integrase core domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.0   0.0   6.8e-14   2.5e-10       2      67 .]     215     281 ..     214     281 .. 0.97

  Alignments for each domain:
  == domain 1  score: 40.0 bits;  conditional E-value: 6.8e-14
                    rve_3   2 gielsyiapgkPqqNglvEsfngtlrdellneel.frslaearekleawredYNteRPHssLgykTP 67 
                              gi +s+++p+   +N + E +++tl++   + +  f s++ea++++++++ +YN+ + Hs+++ +TP
  PHY93_20905|PHY93_20905 215 GIVPSFSRPRVSDDNPYSEALFKTLKYCPEYPSRpFASIEEANAWVNKFVFWYNNIHLHSGIKFVTP 281
                              7889************************9999989*****************************999 PP

>> DDE_Tnp_IS240  DDE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.0   0.0   2.1e-08   7.5e-05       7     135 ..     134     269 ..     128     274 .. 0.81
   2 ?   -2.0   0.1       1.1   3.8e+03      57     101 ..     287     323 ..     276     333 .. 0.48

  Alignments for each domain:
  == domain 1  score: 23.0 bits;  conditional E-value: 2.1e-08
            DDE_Tnp_IS240   7 DETyvk..ikGkwaYlyravDkegr.ildflvskrRdtkaakaflrkalkkek.lepeeivt.Dkasayasalkelkreg..elfd 85 
                              D Ty++  i+Gk +Yly+ +D  +r i++  v++   ++   a+++++ + e  ++++ i+  D  +a + ++  l   +      
  PHY93_20905|PHY93_20905 134 DITYLRsdIAGKFYYLYMYMDIYSRkIVGQEVFDVESMEYSSALIERICECEGiQKNQLILHsDNGGAMK-GATMLATLQklGIVP 218
                              668887669****************9*************************9976666555415555554.444444432125579 PP

            DDE_Tnp_IS240  86 evshvqvkylnnriEsdhrtlKkrl.rptrgfkslksaaktlagfeavknl 135
                              + s+  v   n   E+ ++tlK     p+r f s+++a+++++ f+  +n 
  PHY93_20905|PHY93_20905 219 SFSRPRVSDDNPYSEALFKTLKYCPeYPSRPFASIEEANAWVNKFVFWYNN 269
                              9999999999************9875899****************998875 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 1.1
            DDE_Tnp_IS240  57 lepeeivtDkasayasa.lkelkregelfdevshvqvkylnnriEs 101
                               ++ +i+ +  ++y++a l++ +r        s+ ++ +  n iE+
  PHY93_20905|PHY93_20905 287 MKDDKILENRKKVYEEArLRNPNR-------WSQETRNW--NKIEK 323
                              555666666666666551222222.......12222222..44444 PP

>> rve_2  Integrase core domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.1      0.26   9.4e+02       2      10 ..      94     102 ..      93     111 .. 0.86
   2 !   16.8   0.1   1.5e-06    0.0055       1      44 [.     233     281 ..     233     285 .. 0.81

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 0.26
                    rve_2   2 sfFgsLKtE 10 
                              sf+++LK++
  PHY93_20905|PHY93_20905  94 SFYKILKEK 102
                              9******86 PP

  == domain 2  score: 16.8 bits;  conditional E-value: 1.5e-06
                    rve_2   1 EsfFgsLKtElvyge.tfktleeleaaiedYIewYNnkRlk....glsP 44 
                              E+ F++LK    y   +f+++ee++a ++ ++ wYNn  l+     ++P
  PHY93_20905|PHY93_20905 233 EALFKTLKYCPEYPSrPFASIEEANAWVNKFVFWYNNIHLHsgikFVTP 281
                              78899999877777779********************997532225565 PP

>> HTH_32  Homeodomain-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   2.6e-06    0.0093      17      73 .]      38      99 ..      29      99 .. 0.83
   2 ?   -1.7   0.1       1.3   4.7e+03      22      34 ..     304     316 ..     293     318 .. 0.56

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 2.6e-06
                   HTH_32 17 Lkdrprrg..rpr.klsdevrariiallreep..rWsprqlaarlaeregvkvShstvyriL 73
                             ++d++r++   p  kl++ ++++ii++ +++   ++ p q+++ la+++ +++ +s++y+iL
  PHY93_20905|PHY93_20905 38 IEDKRRGPlsIPAnKLTEVEVQEIIRVSTSAEyvDLAPTQIVPSLADKGIYIACESSFYKIL 99
                             567766657644469*************6655899*************************98 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 1.3
                   HTH_32  22 rrgrprklsdevr 34 
                              r + p+++s+e+r
  PHY93_20905|PHY93_20905 304 RLRNPNRWSQETR 316
                              2334446666666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (339 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       706  (0.0393775); expected 358.6 (0.02)
Passed bias filter:                      467  (0.0260472); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.45
# Mc/sec: 2254.45
//
Query:       PHY93_20910|PHY93_20910  [L=157]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    9.8e-12   45.0   0.2    1.2e-05   25.5   0.0    2.3  2  HTH_Tnp_1  Transposase
     0.0043   16.4   1.0      0.074   12.4   0.0    2.1  2  GAS        Growth-arrest specific micro-tubule binding
     0.0098   15.9   0.0      0.055   13.5   0.0    2.0  2  HTH_29     Winged helix-turn helix
  ------ inclusion threshold ------
       0.11   12.4   0.0       0.17   11.8   0.0    1.3  1  DUF1314    Protein of unknown function (DUF1314)


Domain annotation for each model (and alignments):
>> HTH_Tnp_1  Transposase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.5   0.0   2.7e-09   1.2e-05       6      64 ..       4      64 ..       1      70 [. 0.79
   2 !   21.2   0.1   6.2e-08   0.00028       1      70 [.      52     124 ..      52     129 .. 0.86

  Alignments for each domain:
  == domain 1  score: 25.5 bits;  conditional E-value: 2.7e-09
                HTH_Tnp_1  6 rwsdefKariVres.lepgksvsevArrhgvspnqLykWrrqyr..egeeaspaefeltale 64
                             + s+efK++iV+     +g s+ +   + gv++++ ++W++ y   +g+++s    ++++l+
  PHY93_20910|PHY93_20910  4 HHSAEFKESIVQKItTPGGPSIMQMSVKTGVHHASIRNWVKSYAntSGMKKSNEW-TPKKLQ 64
                             679**********94555689999*******************976666666555.555555 PP

  == domain 2  score: 21.2 bits;  conditional E-value: 6.2e-08
                HTH_Tnp_1   1 mrrrrrwsdefKariVreslepgksvsevArrhgvspnqLykWrrqyregeeaspae....feltaleeenrel 70 
                              m++ + w++   ++i +    + k+  e  r+ g++ + L +W++ +  ++ +sp +    +el+ l +e +el
  PHY93_20910|PHY93_20910  52 MKKSNEWTPKKLQAIAHTITMNEKQLGEFLRSNGLHSSDLEQWKQDF-YSSQQSPGRprldPELVTLRAEKKEL 124
                              78889999998888888889***************************.9********77777777777777766 PP

>> GAS  Growth-arrest specific micro-tubule binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.4   0.0   1.7e-05     0.074     144     185 ..      56      97 ..      36     104 .. 0.86
   2 ?    2.9   0.2     0.013        59      30      53 ..     116     139 ..     107     148 .. 0.53

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 1.7e-05
                      GAS 144 nllLekklkalqeelEkkeaqleevlaaanldpaalsavsek 185
                              n    kkl+a+ +++  +e+ql e l++++l  ++l+++++ 
  PHY93_20910|PHY93_20910  56 NEWTPKKLQAIAHTITMNEKQLGEFLRSNGLHSSDLEQWKQD 97 
                              556679********************************9986 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.013
                      GAS  30 slKeeieelkkkeernekelseis 53 
                              +l+ e +el    +r++k l+e++
  PHY93_20910|PHY93_20910 116 TLRAEKKELSSDLKRKDKALAEMA 139
                              344444444444444444444444 PP

>> HTH_29  Winged helix-turn helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.5   0.0   1.2e-05     0.055      12      39 ..      22      49 ..      20      57 .. 0.88
   2 ?   -0.6   0.0      0.31   1.4e+03      49      60 ..     104     113 ..      98     114 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 1.2e-05
                   HTH_29 12 vstvsqiAkllglsrrtvyrwlkrfeeg 39
                             +++++q+   +g++  ++++w+k + ++
  PHY93_20910|PHY93_20910 22 GPSIMQMSVKTGVHHASIRNWVKSYANT 49
                             456**********************875 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.31
                   HTH_29  49 rsgrprnrlsee 60 
                              ++grpr  l++e
  PHY93_20910|PHY93_20910 104 SPGRPR--LDPE 113
                              579997..9997 PP

>> DUF1314  Protein of unknown function (DUF1314)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   3.8e-05      0.17      31     113 ..      13     102 ..       3     110 .. 0.66

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 3.8e-05
                  DUF1314  31 iigkyskaGerlslarlvGrartdGlarefvil.....amkekdstilG....venasglhllaqslgeflrktGlsnrdlmltrG 107
                              i+ k +++G    +++ v         r++v        m  k+s+ +        a ++ +  ++lgeflr +Gl   dl  ++ 
  PHY93_20910|PHY93_20910  13 IVQKITTPGGPSIMQMSVKTGVHHASIRNWVKSyantsGM--KKSNEWTpkklQAIAHTITMNEKQLGEFLRSNGLHSSDLEQWKQ 96 
                              6667777777666666666666666666666431111123..333333311112345667777889******************** PP

                  DUF1314 108 tiydyh 113
                              ++y   
  PHY93_20910|PHY93_20910  97 DFYSSQ 102
                              *99865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (157 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       922  (0.0514251); expected 358.6 (0.02)
Passed bias filter:                      563  (0.0314016); expected 358.6 (0.02)
Passed Vit filter:                        60  (0.00334653); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.44
# Mc/sec: 1070.46
//
Query:       PHY93_15195|PHY93_15195  [L=122]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.8e-59  199.3   6.2      2e-59  199.2   6.2    1.0  1  DUF1348   Protein of unknown function (DUF1348)
    4.7e-07   30.4   0.1    5.6e-07   30.2   0.1    1.1  1  SnoaL_2   SnoaL-like domain
  ------ inclusion threshold ------
      0.035   14.5   0.0      0.045   14.2   0.0    1.2  1  DUF4440   Domain of unknown function (DUF4440)


Domain annotation for each model (and alignments):
>> DUF1348  Protein of unknown function (DUF1348)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  199.2   6.2   3.3e-63     2e-59       1     113 [.       9     121 ..       9     122 .] 0.99

  Alignments for each domain:
  == domain 1  score: 199.2 bits;  conditional E-value: 3.3e-63
                  DUF1348   1 PpftaetaakkvraaedaWntrdpekvalaytedsvWrnrdeflkgreeiveflkkkwekeldyrlikelfaftdnriavrfayey 86 
                              Ppf++eta++kvr+aedaWn+rdp+k++layt+ds+Wrnr+efl+gre+i++fl++kw +el+yrlikel+af+dnri+vrfaye+
  PHY93_15195|PHY93_15195   9 PPFNKETAIQKVRLAEDAWNSRDPDKIVLAYTKDSKWRNRSEFLEGRENIHAFLNRKWGRELKYRLIKELWAFNDNRISVRFAYEW 94 
                              9************************************************************************************* PP

                  DUF1348  87 kdesgqwfrsyGnenWefdeeGlmkkr 113
                              +d+sgqwfrsyGnenWefd++Glmk r
  PHY93_15195|PHY93_15195  95 HDDSGQWFRSYGNENWEFDSNGLMKVR 121
                              ************************998 PP

>> SnoaL_2  SnoaL-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.2   0.1   9.3e-11   5.6e-07       6      94 ..      25     112 ..      20     120 .. 0.77

  Alignments for each domain:
  == domain 1  score: 30.2 bits;  conditional E-value: 9.3e-11
                              HHHHTTCHHHHHHTEEEEEEEEETTSEEESHHHHHHHHHHHHHHEEEEEEE.EEEE.EEETTEEEEEEEEEEEEETTSSEEEE..E CS
                  SnoaL_2   6 aalnagdldalaalfapdvvwedpggelrGreairaffralfaafpdlrfe.ihdv.vadgdrvavewtvtgtipatgrgvtv..r 87 
                              +a+n++d+d+++  ++ d  w++    l+Gre i+af+ + +    +l+++ i+++ + +++r+ v++ ++    ++++g ++   
  PHY93_15195|PHY93_15195  25 DAWNSRDPDKIVLAYTKDSKWRNRSEFLEGRENIHAFLNRKWG--RELKYRlIKELwAFNDNRISVRFAYE---WHDDSGQWFrsY 105
                              7***********************999***************7..77888855555789999999997765...455555555225 PP

                              EEEEEEE CS
                  SnoaL_2  88 gvdvfrv 94 
                              g + +++
  PHY93_15195|PHY93_15195 106 GNENWEF 112
                              5555555 PP

>> DUF4440  Domain of unknown function (DUF4440)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   7.5e-06     0.045       8      81 ..      23      96 ..      17     112 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 7.5e-06
                             HHHHHHCT-HHHHHHCEEEEEEEE-TTS-EEEHHHHHHHHHCCHCEEEEEEEEEEEEEEETTEEEEEEEEEEEE CS
                  DUF4440  8 leeafvagdaealaallapdavlvgpsgtvldkeellealeagfaagrslelteeevrvlgdlAvvtgrytfeg 81
                              e+a++++d++++   +++d  + ++s+ + ++e++ + l +++ +   ++l  e  ++ ++   v++ y ++ 
  PHY93_15195|PHY93_15195 23 AEDAWNSRDPDKIVLAYTKDSKWRNRSEFLEGRENIHAFLNRKWGRELKYRLIKELWAFNDNRISVRFAYEWHD 96
                             579************************97779***********9999999999999999999999998888775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (122 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       454  (0.0253221); expected 358.6 (0.02)
Passed bias filter:                      325  (0.0181271); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.43u 0.28s 00:00:00.71 Elapsed: 00:00:00.45
# Mc/sec: 815.90
//
Query:       PHY93_17145|PHY93_17145  [L=1061]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.2e-05   25.4   0.8    4.3e-05   23.6   0.0    2.4  2  DUF4091   Domain of unknown function (DUF4091)


Domain annotation for each model (and alignments):
>> DUF4091  Domain of unknown function (DUF4091)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.2      0.33   5.9e+03       7      16 ..     434     446 ..     433     463 .. 0.70
   2 !   23.6   0.0   2.4e-09   4.3e-05       5      66 .]     945    1002 ..     941    1002 .. 0.95

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 0.33
                  DUF4091   7 yWgydfwns...d 16 
                              yW++ fw +    
  PHY93_17145|PHY93_17145 434 YWDVPFWSDrtvY 446
                              8******995330 PP

  == domain 2  score: 23.6 bits;  conditional E-value: 2.4e-09
                  DUF4091    5 flyWgydfwnsdpltdtsargafpaGDgflvYPgedgkpvsSlRlealrdGiedyeylklle 66  
                               +l W  +++n+ p+ d + r+     D ++++P  dgk ++SlR+e   +G+  ++++klle
  PHY93_17145|PHY93_17145  945 YLEWHATAFNNYPYYDFDGRE----SDAVMFFPTLDGKLLNSLRFELATEGLHAFKKMKLLE 1002
                               799*************99999....5**********************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1061 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       486  (0.0271069); expected 358.6 (0.02)
Passed bias filter:                      352  (0.019633); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.80u 0.26s 00:00:01.06 Elapsed: 00:00:00.48
# Mc/sec: 6617.20
//
Query:       PHY93_15200|PHY93_15200  [L=180]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.8e-35  121.1   0.0    4.8e-35  120.8   0.0    1.1  1  PBP              Phosphatidylethanolamine-binding protein
  ------ inclusion threshold ------
      0.083   11.4   0.1       0.13   10.8   0.1    1.2  1  Nucleoporin_FG2  Nucleoporin FG repeated region


Domain annotation for each model (and alignments):
>> PBP  Phosphatidylethanolamine-binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  120.8   0.0   5.3e-39   4.8e-35       7     132 .]      46     178 ..      33     178 .. 0.94

  Alignments for each domain:
  == domain 1  score: 120.8 bits;  conditional E-value: 5.3e-39
                              CSBGGS-EEEEES--TTSSEEEEEEEETTSCCTCTTEEEEEEEEEETTSSEE-TTC...........EE-B-TTSSCCCCS---B- CS
                      PBP   7 egentsPplswsdvpegtksyalvviDpDapkvsetflHwvvtnipasvtslpega...........vqgknslgeesesgYlgpc 81 
                               g+n+sP l+w++ p gtks+a++v+DpDap+ s+ ++Hw v+nip svt+l++g+           ++g++++g+    g++g+c
  PHY93_15200|PHY93_15200  46 FGKNISPLLQWKNPPIGTKSFAVTVYDPDAPTGSG-WWHWTVFNIPSSVTQLEQGSgsnskklplnaIEGRTDFGK---PGFGGAC 127
                              689****************************8888.*****************99999999999999********9...******* PP

                              -STTS..EEEEEEEEEESSSG--BGSS-SHHHHHHHHCTTEEEEEEEEEEE CS
                      PBP  82 PpkgdgkHrYvfllyaldvealdlkagftraelgaaiaghvlakatlagnY 132
                              Pp gd++HrY+f+lyal++e+ldl ++++ a +g+ + ++++ak tl++++
  PHY93_15200|PHY93_15200 128 PPVGDKPHRYIFTLYALKIEKLDLTSEASGALVGFYLGQNTIAKSTLTAKF 178
                              *****99****************9999999******************998 PP

>> Nucleoporin_FG2  Nucleoporin FG repeated region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.1   1.5e-05      0.13     547     594 ..      16      64 ..       7      66 .. 0.88

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 1.5e-05
          Nucleoporin_FG2 547 ssssGfnfsnpGinasaGltfGvsnqpasgfgtg.gqllqlkkppaGnk 594
                                s Gf++s p i+  a lt     +   +fg   ++llq k pp+G k
  PHY93_15200|PHY93_15200  16 IPSFGFELSSPDIKDGARLTDQQVFNGFGCFGKNiSPLLQWKNPPIGTK 64 
                              5678****************98888888889887799**********98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (180 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       210  (0.0117129); expected 358.6 (0.02)
Passed bias filter:                      193  (0.0107647); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.43
# Mc/sec: 1270.09
//
Query:       PHY93_15205|PHY93_15205  [L=141]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.1e-09   35.3   0.0    1.3e-08   34.6   0.0    1.4  1  MarR      MarR family
    8.5e-09   35.2   0.0    1.3e-08   34.6   0.0    1.3  1  MarR_2    MarR family
    1.8e-06   28.3   0.0    2.7e-06   27.8   0.0    1.3  1  HTH_27    Winged helix DNA-binding domain
    7.8e-06   25.7   0.0    1.3e-05   25.0   0.0    1.4  1  TrmB      Sugar-specific transcriptional regulator TrmB
     0.0025   17.9   0.1      0.082   13.1   0.1    2.1  2  HTH_34    Winged helix DNA-binding domain
  ------ inclusion threshold ------
      0.017   15.0   0.2      0.036   13.9   0.1    1.6  2  HxlR      HxlR-like helix-turn-helix
       0.12   11.9   0.0       0.23   11.0   0.0    1.5  1  HTH_24    Winged helix-turn-helix DNA-binding


Domain annotation for each model (and alignments):
>> MarR  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.6   0.0   5.2e-12   1.3e-08       1      58 [.      34      91 ..      34      92 .. 0.97

  Alignments for each domain:
  == domain 1  score: 34.6 bits;  conditional E-value: 5.2e-12
                             --HHHHHHHHHHHHSTTEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEEETTSTTS CS
                     MarR  1 ltltqfviLrilyeqgplsvseLakklgvskstvtrvldrLekkGlieRskspeDrRe 58
                             lt+ q  iL++ly ++++ ++eL +++ v+k+t+  +l+ L   G+ie  k+p+D R+
  PHY93_15205|PHY93_15205 34 LTPLQAGILVNLYLHEEMAQAELMNAIIVDKATINAMLKSLRLSGFIEMVKNPNDLRV 91
                             799999*************************************************995 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.6   0.0     5e-12   1.3e-08       2      61 ..      33      90 ..      32      91 .. 0.98

  Alignments for each domain:
  == domain 1  score: 34.6 bits;  conditional E-value: 5e-12
                             T--HHHHHHHHHHHCTTTSEEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEEEESSSSSS CS
                   MarR_2  2 gltpaqarvLaaLgrrpgrdltvgelarrlglsksavsrilkrLvaaGLverrpgpeDkR 61
                             +ltp qa +L +L+ +++  ++++el  +  ++k++++ +lk L   G++e +++p+D+R
  PHY93_15205|PHY93_15205 33 DLTPLQAGILVNLYLHEE--MAQAELMNAIIVDKATINAMLKSLRLSGFIEMVKNPNDLR 90
                             79****************..***************************************9 PP

>> HTH_27  Winged helix DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.8   0.0   1.1e-09   2.7e-06       1      68 []      34     100 ..      34     100 .. 0.98

  Alignments for each domain:
  == domain 1  score: 27.8 bits;  conditional E-value: 1.1e-09
                   HTH_27   1 ltrqqalvLhlirhrrrrkkladlcgrlnvedshisyslkkLtekGLvertgdeadrrekrvrlTdkG 68 
                              lt++qa +L +++  ++++++a+l+ +  v++++i  +lk L   G++e+ + + d r  +++lT kG
  PHY93_15205|PHY93_15205  34 LTPLQAGILVNLY-LHEEMAQAELMNAIIVDKATINAMLKSLRLSGFIEMVKNPNDLRVWQITLTSKG 100
                              79***********.***************************************************998 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.0   0.0     5e-09   1.3e-05       1      57 [.      29      85 ..      29     109 .. 0.93

  Alignments for each domain:
  == domain 1  score: 25.0 bits;  conditional E-value: 5e-09
                             HHHCHHHHHCCCHCHHHHHHCCCHHCHHCCCTTSSCHCHHHHHHHHHHCTSEEEESS CS
                     TrmB  1 LqklGLseyEakvYlaLlklgpatadeiaeelgvprskvYevLrsLedkGlVerekg 57
                             L+k++L+   a + + L  ++++   e+ +++ v++++++ +L+sL   G++e +k 
  PHY93_15205|PHY93_15205 29 LEKIDLTPLQAGILVNLYLHEEMAQAELMNAIIVDKATINAMLKSLRLSGFIEMVKN 85
                             789**************************************************9875 PP

>> HTH_34  Winged helix DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.0     0.046   1.2e+02      52      78 ..       5      31 ..       1      32 [. 0.80
   2 !   13.1   0.1   3.2e-05     0.082       4      68 ..      40     103 ..      37     110 .. 0.90

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.046
                   HTH_34 52 gkkprtllriTpeGreafkkyvkaLks 78
                               kp + + iT+ Gr    +y   L++
  PHY93_15205|PHY93_15205  5 LEKPSIGYLITKVGRYISRDYNLHLEK 31
                             4679***********988888877776 PP

  == domain 2  score: 13.1 bits;  conditional E-value: 3.2e-05
                   HTH_34   4 avlsyLasvdeadfvelkealeatdgnLsvhlkkLekagYievdkefkgkkprtllriTpeGrea 68 
                              ++l  L+  +e+  +el +a+ + ++ + + lk L   g+ie+ k+ ++  +   +++T++G++ 
  PHY93_15205|PHY93_15205  40 GILVNLYLHEEMAQAELMNAIIVDKATINAMLKSLRLSGFIEMVKNPNDL-RVWQITLTSKGKKL 103
                              588999***************************************98887.88889999999976 PP

>> HxlR  HxlR-like helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0       1.8   4.6e+03      60      72 ..       9      21 ..       5      23 .. 0.77
   2 ?   13.9   0.1   1.4e-05     0.036      17      81 ..      49     112 ..      38     121 .. 0.81

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 1.8
                             EEEEEE-TCGGGG CS
                     HxlR 60 kveYsltekGrsl 72
                              + Y +t+ Gr +
  PHY93_15205|PHY93_15205  9 SIGYLITKVGRYI 21
                             4789999999976 PP

  == domain 2  score: 13.9 bits;  conditional E-value: 1.4e-05
                              S-EEHHHHHHHSTTS-HHHHHHHHHHHHHTTSEEEEEESSSS-EEEEEE-TCGGGGHHHHHHHHH CS
                     HxlR  17 gkkRfselkralpkisqkmLaqrLreLeqdglierevypevPpkveYsltekGrslepvlqelkk 81 
                               ++   el +a+  + + ++ + L+ L  +g+ie +  p+     + +lt kG++l p + ++ +
  PHY93_15205|PHY93_15205  49 EEMAQAELMNAI-IVDKATINAMLKSLRLSGFIEMVKNPNDLRVWQITLTSKGKKLIPTIMKIDE 112
                              555566777777.788889999*****************999999**************999876 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0     9e-05      0.23       9      48 .]      42      81 ..      35      81 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 9e-05
                   HTH_24  9 LelLqknprisqreLAerlglSpstvnrrlkrLeeeGlIk 48
                             L  L+ +  + q+eL  ++ + ++t+n+ lk L  +G+I+
  PHY93_15205|PHY93_15205 42 LVNLYLHEEMAQAELMNAIIVDKATINAMLKSLRLSGFIE 81
                             55566677899***************************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (141 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       523  (0.0291706); expected 358.6 (0.02)
Passed bias filter:                      391  (0.0218082); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.46u 0.26s 00:00:00.72 Elapsed: 00:00:00.44
# Mc/sec: 967.42
//
Query:       PHY93_15210|PHY93_15210  [L=576]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (576 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       814  (0.0454013); expected 358.6 (0.02)
Passed bias filter:                      439  (0.0244855); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.65u 0.28s 00:00:00.93 Elapsed: 00:00:00.48
# Mc/sec: 3580.87
//
Query:       PHY93_15215|PHY93_15215  [L=121]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0016   18.6   0.0     0.0025   18.0   0.0    1.4  1  DUF333    Domain of unknown function (DUF333)


Domain annotation for each model (and alignments):
>> DUF333  Domain of unknown function (DUF333)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.0   1.4e-07    0.0025       3      44 ..      79     121 .]      77     121 .] 0.91

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 1.4e-07
                   DUF333   3 aNPAsvyCvk.qGGkleiakdadGgqvgyCqlpdGkrceEwaL 44 
                               NP s  C   ++G++++ +d++G++   C ++d + +++ +L
  PHY93_15215|PHY93_15215  79 KNPSSLLCSLgHHGEVVVLQDSKGNENSFCLFADHTMISASDL 121
                              69******7626*************************999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (121 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       625  (0.0348597); expected 358.6 (0.02)
Passed bias filter:                      473  (0.0263818); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.43
# Mc/sec: 852.69
//
Query:       PHY93_15220|PHY93_15220  [L=426]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0038   16.7   2.0     0.0073   15.8   2.0    1.5  1  Not3      Not1 N-terminal domain, CCR4-Not complex component
  ------ inclusion threshold ------
       0.13   12.0   6.3       0.12   12.2   4.5    2.0  1  Poxvirus  dsDNA Poxvirus
       0.39   10.7   2.0       0.51   10.4   0.2    2.1  3  DUF4312   Domain of unknown function (DUF4312)


Domain annotation for each model (and alignments):
>> Not3  Not1 N-terminal domain, CCR4-Not complex component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   2.0   1.2e-06    0.0073      14     109 ..     151     247 ..     148     280 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 1.2e-06
                     Not3  14 kkvaegveeFdeiye.klesaenqsqkeKleadLKkeikKLqrlRdqiktwlssneik.dkkkLlenrkliEeamerFkavEkesK 97 
                              k +a+   +F++i++  l++ en++   K++a+ ++ i KLq   dqik  + s +i  +  +++ ++k+i  am++ k++ ++  
  PHY93_15220|PHY93_15220 151 KEIANFSPSFKKIFDfSLQQLENSRRLLKINAQ-RRSIAKLQMEMDQIKFIIGSFKIYkEHGPISFSKKNISIAMDQIKSLRRDDL 235
                              666666777777777456777888888888776.99******************99853779*******************99998 PP

                     Not3  98 tKafSkeglaka 109
                                +f +  + + 
  PHY93_15220|PHY93_15220 236 FGKFKNITIDNV 247
                              888887777644 PP

>> Poxvirus  dsDNA Poxvirus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   4.5     2e-05      0.12      14      85 ..      95     166 ..       5     222 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 2e-05
                 Poxvirus  14 fkevfknnidfsdyd.dptkkevik.kkfnyiiadkivkndsikdileeYfrwrkniglnrkkiGklFkeLmky 85 
                              ++e+  + +++  ++  ++++ vik +++n+++a+k  ++++i  il+eYf+   n  +++ +  + Fk++  +
  PHY93_15220|PHY93_15220  95 LVEDVPKDVYVVFDEkASKEEAVIKlFEINLTNANKSDADHNIPIILHEYFHLILN--KEIANFSPSFKKIFDF 166
                              34444444444444444555556669**************************9999..8888888888888776 PP

>> DUF4312  Domain of unknown function (DUF4312)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0      0.99   5.9e+03      29      44 ..      40      55 ..      38      57 .. 0.80
   2 ?   10.4   0.2   8.5e-05      0.51       3      63 ..      61     121 ..      59     123 .. 0.93
   3 ?   -3.5   0.0       1.9   1.1e+04      35      59 ..     175     199 ..     161     201 .. 0.73

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 0.99
                  DUF4312 29 vlketeevllriePvd 44
                             + ++t++ +l+i+P  
  PHY93_15220|PHY93_15220 40 IFHRTKDPILKIAPSL 55
                             667889999***9975 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 8.5e-05
                  DUF4312   3 ttvtvsgkGetkeeafakalskvqkkvlketeevllriePvdvkvvkaeeeeytEkFLffF 63 
                              t++++ gk + +++ + + l + q+ + k ++ +l+   P+dv+vv  e+ +++E  + +F
  PHY93_15220|PHY93_15220  61 TQLRLGGKQKPQKTSITDDLRSAQQAINKANSILLVEDVPKDVYVVFDEKASKEEAVIKLF 121
                              678999*************************99999******************9988777 PP

  == domain 3  score: -3.5 bits;  conditional E-value: 1.9
                  DUF4312  35 evllriePvdvkvvkaeeeeytEkF 59 
                              + ll+i+ +  ++ k++ e  + kF
  PHY93_15220|PHY93_15220 175 RRLLKINAQRRSIAKLQMEMDQIKF 199
                              4577888887777777777777666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (426 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       931  (0.051927); expected 358.6 (0.02)
Passed bias filter:                      513  (0.0286129); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.62u 0.25s 00:00:00.87 Elapsed: 00:00:00.46
# Mc/sec: 2765.61
//
Query:       PHY93_15225|PHY93_15225  [L=420]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    8.1e-54  182.9   2.2    1.1e-53  182.5   2.2    1.1  1  Peptidase_S8  Subtilase family
  ------ inclusion threshold ------
      0.031   15.0   0.0       0.99   10.2   0.0    2.4  2  N_BRCA1_IG    Ig-like domain from next to BRCA1 gene
       0.12   13.1   0.1        3.2    8.5   0.0    2.6  2  Inhibitor_I9  Peptidase inhibitor I9


Domain annotation for each model (and alignments):
>> Peptidase_S8  Subtilase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  182.5   2.2   1.8e-57   1.1e-53       2     286 ..     141     402 ..     140     412 .. 0.83

  Alignments for each domain:
  == domain 1  score: 182.5 bits;  conditional E-value: 1.8e-57
                              TT-EEEEECS-B-TT-TTTGGGEEE..EEEE---TTSG.GGEETT-SS-TT-SC-S.....SS..........HHHHHHHHHH-B. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....xxxxxx......xxxxxxxxxxxxx RF
             Peptidase_S8   2 kgvlvavlDtGvdpshpdlsvttdgerklvdvideegagfngadsettstnwardd.....ngnsie......HGthvAGiaaana 76 
                              k+v++avlD+G+d++hpdl+    ++ ++ +  +++g   +++d++ ++++++  d          +      HGth+AG+++a+ 
  PHY93_15225|PHY93_15225 141 KEVKIAVLDSGIDYNHPDLK----NQIEINEA-EKNGLPGVDDDNNGYIDDIYGYDfnakkP----DpmdgngHGTHCAGVIGAQ- 216
                              78******************....34444333.33344455666666666666665333330....1444555************. PP

                              .SSSSSB-SSTTSEEEEEE-SSTTSB-HH..HHHHHHHHHHHHCT-SEEEE-EESCETTCHHCHHHHHHHHHHHH.CCT-EEEEE- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8  77 peegekngvapgakilsvkvldtsggsmetgteliraieeaaedkvdvinmslgestslpktgrsiealainravnkkgvlvviSa 162
                               +  +++gv  ++k++ vk+ld++g       + ++ai++a++ +++v+++s+g + +++  ++     ai++a+ k g+++v++a
  PHY93_15225|PHY93_15225 217 HDGLGVVGVMANVKLIPVKFLDDKGAGED--IDAVAAIDYAIKRGAKVMSNSWGSDEKVQALYD-----AIKAAE-KAGIVFVVAA 294
                              99*******************99997654..89999******************5555555554.....899999.99******** PP

                              -SS-T-HHEEE-TTCEECTTTST..TCEEEEEESTTSSB-TT--B-TT.......-EEEE-S-CCCCCCCCCHHHTTTHHEEEE-S CS
                              xxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8 163 GNngktgsslqagspvgtpstsk..nvitvgayttegkiapfSsrGpssdgklkpdivapGgnivstwsrqsnnsaglssyqsmsG 246
                              GN+g       +  + ++p +++  n+i+vga ++ g+ a+fS++G+++     +++ apG++i+st+++ +        y+ msG
  PHY93_15225|PHY93_15225 295 GNDGA-----DNDRTPSYPNNFDisNIIAVGASNNRGNRASFSNYGSKT-----VHVFAPGEDIFSTVNNGE--------YDWMSG 362
                              ****3.....455777788889888***********************9.....7*****************........****** PP

                              HHHCHHHHHHHHHHHHHHHTT--HHHHHHHHHCCS-EE.. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8 247 TSmAsPnaagaaAlllsalpkltpetvraallntAqdlgk 286
                              TSmA+P+++g++ llls+ p+l+p+++r+ l++t  d +k
  PHY93_15225|PHY93_15225 363 TSMAAPFVSGIVGLLLSKEPNLSPKEIRERLIRTSVDNKK 402
                              ***********************************77533 PP

>> N_BRCA1_IG  Ig-like domain from next to BRCA1 gene
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0   0.00017      0.99       8      35 ..     102     129 ..      97     157 .. 0.79
   2 ?    2.2   0.0      0.05     3e+02      17      39 ..     348     372 ..     337     396 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00017
               N_BRCA1_IG   8 vppgteftktWrlrNtGseaWpagtklv 35 
                              vp +t f+k+W l+NtG+++ + g  + 
  PHY93_15225|PHY93_15225 102 VPSDTFFEKQWGLKNTGDHDTKLGEDIN 129
                              8999*************98766665555 PP

  == domain 2  score: 2.2 bits;  conditional E-value: 0.05
               N_BRCA1_IG  17 tWrlrNtGseaWpagtklv..fvgG 39 
                              ++   N+G+ +W +gt+++  fv+G
  PHY93_15225|PHY93_15225 348 IFSTVNNGEYDWMSGTSMAapFVSG 372
                              56778***********998666665 PP

>> Inhibitor_I9  Peptidase inhibitor I9
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.1     0.072   4.3e+02      43      58 ..      16      32 ..      14      35 .. 0.79
   2 ?    8.5   0.0   0.00053       3.2      56      81 ..      68      93 ..      25      94 .. 0.84

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.072
                             EEESS.SSSEEEEEE-G CS
             Inhibitor_I9 43 ysYki.lfnGfavklte 58
                             +sY    fnG+ vkl +
  PHY93_15225|PHY93_15225 16 HSYAAtPFNGYIVKLKN 32
                             77887789999999875 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.00053
                             E-GGGHHHHHTSTTEEEEEEEEEEEE CS
             Inhibitor_I9 56 lteeqaeklrkrpeVesVepDqsvrl 81
                             + e+++e l+k+p +e++ep+ +  l
  PHY93_15225|PHY93_15225 68 FLEQSLESLKKNPNIEYIEPNYIITL 93
                             56899****************99876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (420 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       596  (0.0332422); expected 358.6 (0.02)
Passed bias filter:                      488  (0.0272185); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.60u 0.26s 00:00:00.86 Elapsed: 00:00:00.46
# Mc/sec: 2722.50
//
Query:       PHY93_15230|PHY93_15230  [L=334]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.7e-55  186.7   0.1    6.4e-50  169.7   0.1    2.1  2  CCP_MauG        Di-haem cytochrome c peroxidase
    8.3e-06   26.9   0.0      0.002   19.2   0.0    2.5  2  Cytochrom_C     Cytochrome c
     0.0012   18.8   0.1       0.93    9.5   0.1    2.4  2  Cytochrome_C7   Cytochrome c7 and related cytochrome c
  ------ inclusion threshold ------
      0.028   14.6   0.2      0.057   13.6   0.2    1.5  1  DUF2852         Protein of unknown function (DUF2852)
       0.24   11.2   2.1         11    5.8   0.1    2.4  2  Paired_CXXCH_1  Doubled CXXCH motif (Paired_CXXCH_1)


Domain annotation for each model (and alignments):
>> CCP_MauG  Di-haem cytochrome c peroxidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  169.7   0.1   1.8e-53   6.4e-50       2     149 ..      50     196 ..      49     197 .. 0.98
   2 !   15.1   0.0   7.4e-06     0.027       7     102 ..     206     322 ..     202     332 .. 0.61

  Alignments for each domain:
  == domain 1  score: 169.7 bits;  conditional E-value: 1.8e-53
                              HHHHHHHHHHC-GGGSTTSS--HHHHSGCCCTTS-SSSSBBEGGGEBSSS----STTGGGSSSBSTTEEBSSHHHHHHHHHHHTTT CS
                 CCP_MauG   2 ekveLGkkLFfdkrLSgngkisCasCHdpaagftdglkvslgvegrlgarnaptllnaafnkglfwdgraesleeqalgPllnpve 87 
                              +kveLGk+LFfd+rLS +g+isC+sCH  +++ft+g +v++gv +++g+rn+ptl+n a++k +fwdgra+sle+qa gP+lnp+e
  PHY93_15230|PHY93_15230  50 KKVELGKMLFFDPRLSVDGSISCSSCHLSSHAFTNGAEVAVGVRKQTGDRNVPTLFNRAYSKIQFWDGRASSLEDQAWGPILNPKE 135
                              589*********************************99************************************************ PP

                              TH.SSHHHHHHHHHTSHHHHHHHHHHCTSCCSHHHHHHHHHHHHTT--STTSHHHHHHTTSC CS
                 CCP_MauG  88 mgnaskeevverlaaspeYaelfeaafgekitfaniakAiaayertlvsaeskfDrylkgde 149
                              mg ++ +++++++++++ Y++ f++ f+ek + +n+a A++a+ertl+s +s fD+y +g++
  PHY93_15230|PHY93_15230 136 MG-NTVDNALQTIRKISGYQKFFQQTFQEKANKKNVALALSAFERTLLSGNSAFDQYKAGNK 196
                              *9.899**********************999**************************99986 PP

  == domain 2  score: 15.1 bits;  conditional E-value: 7.4e-06
                              HHHHHC-GGGSTTSS--HHHHSGCCCTTS-S....SSSBBE...........GGGEBSSS----STTGGGSSSBSTTEEBSSHHHH CS
                 CCP_MauG   7 GkkLFfdkrLSgngkisCasCHdpaagftdg....lkvslg...........vegrlgarnaptllnaafnkglfwdgraesleeq 77 
                              G +LFfd       k +C +CH+ +  ft++    +   +g           v ++++  ++ptl n+a++  ++++g+ ++l e 
  PHY93_15230|PHY93_15230 206 GMNLFFD-------KFKCVNCHQGS-NFTNEklspRCYPKGlelassdfpgdVSKKRVLYKVPTLRNIALSGPYMHNGKLATLREV 283
                              5566666.......799*****854.5544323321122333333333333336677779**********99*********99877 PP

                              H.......HHHHHH.......TTTTH.SSHHHHHHHHHT CS
                 CCP_MauG  78 a.......lgPlln.......pvemgnaskeevverlaa 102
                              +       ++P +        + em++++k++++e l++
  PHY93_15230|PHY93_15230 284 IefynhsgKAPAVLgnsidfpKIEMNESDKNDLIEFLNQ 322
                              722222222333212233343788887777777777765 PP

>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.4   0.0     0.012        41       4      51 ..      55     124 ..      52     163 .. 0.71
   2 !   19.2   0.0   5.7e-07     0.002       3      91 ..     205     323 ..     203     324 .. 0.84

  Alignments for each domain:
  == domain 1  score: 5.4 bits;  conditional E-value: 0.012
                              HHHHH.HT........TGGGTB-SSSBSSS.................--HHHHHHHTTT-HHHHHHHHTT CS
              Cytochrom_C   4 Gkelf.ta........nCaaCHgvegggakqgg.............gptlsgaaerasaasigasvanpa 51 
                              Gk lf +          C +CH      +++++             +ptl + a  + ++++g+  +   
  PHY93_15230|PHY93_15230  55 GKMLFfDPrlsvdgsiSCSSCHLSSHAFTNGAEvavgvrkqtgdrnVPTLFNRAYSKIQFWDGRASSLED 124
                              66666443566666668*****554444443336788999999999999999988888888888877664 PP

  == domain 2  score: 19.2 bits;  conditional E-value: 5.7e-07
                              -HHHHH.HT.TGGGTB-SSSBSSS...............................--HHHHHHHTTT-HHHHHHHHTTSS--SSSH CS
              Cytochrom_C   3 rGkelf.ta.nCaaCHgvegggakqgg...........................gptlsgaaerasaasigasvanpaavsaprdd 59 
                              rG +lf ++ +C++CH+     +++ +                           +ptl+++a   ++ ++g+  +  +  +   + 
  PHY93_15230|PHY93_15230 205 RGMNLFfDKfKCVNCHQGSNFTNEKLSprcypkglelassdfpgdvskkrvlykVPTLRNIALSGPYMHNGKLATLREVIEFYNHS 290
                              7889998877******555555554446***********************************************99888877666 PP

                              HHHHHHGGGGGGG..TT--HHHHHHHHHHHHTT CS
              Cytochrom_C  60 fekkkltaempark.erlteqeiadlaaYLksl 91 
                               +   + ++++ +   +++e + +dl+++L++l
  PHY93_15230|PHY93_15230 291 GKAPAVLGNSIDFPkIEMNESDKNDLIEFLNQL 323
                              66666666666544489*************998 PP

>> Cytochrome_C7  Cytochrome c7 and related cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.9   0.0    0.0017         6      47      61 ..      68      83 ..      42     101 .. 0.71
   2 !    9.5   0.1   0.00026      0.93      46      68 ..     211     234 ..     182     236 .. 0.65

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.0017
            Cytochrome_C7 47 s.ltCgaCHdgknafs 61
                                +C +CH +++af+
  PHY93_15230|PHY93_15230 68 GsISCSSCHLSSHAFT 83
                             3344777777777773 PP

  == domain 2  score: 9.5 bits;  conditional E-value: 0.00026
            Cytochrome_C7  46 es.ltCgaCHdgknafsvakkaeC 68 
                              ++ ++C +CH+g+n  +++   +C
  PHY93_15230|PHY93_15230 211 FDkFKCVNCHQGSNFTNEKLSPRC 234
                              233669999999998876666666 PP

>> DUF2852  Protein of unknown function (DUF2852)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.2   1.6e-05     0.057      48      93 ..     154     201 ..     131     216 .. 0.69

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 1.6e-05
                  DUF2852  48 eekvkelfskakrere..aaraskraaassGNaaFdeyreeeLerLee 93 
                              ++ ++++f++ +++++   a ++ + +  sGN+aFd+y++ +   L+e
  PHY93_15230|PHY93_15230 154 QKFFQQTFQEKANKKNvaLALSAFERTLLSGNSAFDQYKAGNKTALNE 201
                              44555555555555553333445566778**********988777766 PP

>> Paired_CXXCH_1  Doubled CXXCH motif (Paired_CXXCH_1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   0.1    0.0032        11       8      18 ..      71      82 ..      65      98 .. 0.72
   2 ?    4.5   0.3     0.008        29       8      22 ..     215     229 ..     211     238 .. 0.74

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.0032
           Paired_CXXCH_1  8 eClsCH.nphgs 18
                             +C+sCH + h+ 
  PHY93_15230|PHY93_15230 71 SCSSCHlSSHAF 82
                             599999666654 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.008
           Paired_CXXCH_1   8 eClsCHnphgsdnpk 22 
                              +C +CH+    +n+k
  PHY93_15230|PHY93_15230 215 KCVNCHQGSNFTNEK 229
                              799999766655555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (334 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       935  (0.0521501); expected 358.6 (0.02)
Passed bias filter:                      780  (0.0435049); expected 358.6 (0.02)
Passed Vit filter:                        78  (0.00435049); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.62u 0.27s 00:00:00.89 Elapsed: 00:00:00.48
# Mc/sec: 2076.14
//
Query:       PHY93_15235|PHY93_15235  [L=256]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    6.9e-34  117.3   0.0    9.7e-34  116.8   0.0    1.2  1  ABC_tran     ABC transporter
    5.1e-07   29.8   0.2     0.0042   16.9   0.2    2.2  2  AAA_21       AAA domain, putative AbiEii toxin, Type IV TA sy
    5.4e-07   29.3   0.7    3.9e-06   26.5   0.7    2.0  1  SMC_N        RecF/RecN/SMC N terminal domain
     0.0003   21.4   1.7    0.00047   20.7   1.6    1.5  1  AAA_23       AAA domain
    0.00081   19.3   0.1     0.0037   17.2   0.1    2.0  2  RsgA_GTPase  RsgA GTPase
     0.0013   18.5   0.0     0.0024   17.6   0.0    1.5  1  AAA_29       P-loop containing region of AAA domain
     0.0055   17.0   0.0      0.023   15.0   0.0    1.9  2  AAA_22       AAA domain
     0.0086   16.5   0.0      0.013   15.9   0.0    1.6  1  AAA_16       AAA ATPase domain
  ------ inclusion threshold ------
      0.013   15.4   0.1      0.021   14.7   0.1    1.4  1  Rad17        Rad17 P-loop domain
      0.016   15.8   0.0      0.033   14.7   0.0    1.6  1  AAA_18       AAA domain
      0.034   13.3   0.1      0.068   12.3   0.1    1.5  2  Fibrillarin  Fibrillarin
      0.052   13.0   0.0       0.66    9.4   0.0    2.0  2  PhoH         PhoH-like protein
      0.063   12.1   1.7        4.4    6.0   0.1    2.8  2  ABC_ATPase   Predicted ATPase of the ABC class
       0.08   12.6   3.3       0.57    9.8   1.0    2.2  2  AAA_15       AAA ATPase domain
       0.11   12.2   0.0       0.28   10.9   0.0    1.6  1  PduV-EutP    Ethanolamine utilisation - propanediol utilisati
       0.15   12.4   0.1        1.4    9.3   0.0    2.4  2  Yos1         Yos1-like
       0.16   12.0   0.7       0.58   10.3   0.2    2.1  3  MMR_HSR1     50S ribosome-binding GTPase


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  116.8   0.0   9.2e-37   9.7e-34       1     137 []      26     183 ..      26     183 .. 0.93

  Alignments for each domain:
  == domain 1  score: 116.8 bits;  conditional E-value: 9.2e-37
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG...........B-HHHCCHCEEEE-SS--S-TTSB CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...........xxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke...........qeleslrkeigvlpqepqlfpelt 75 
                              l+++++++k+g  + i+G++G+GKStLl++l gl+  ++G+i ++g  l++           ++ +++rk +g+++q  qlfp++t
  PHY93_15235|PHY93_15235  26 LDDINFTFKAGGFYSIIGKSGCGKSTLLRCLNGLEILDQGRIDVNGIVLENnpsdsdkknllENCQKVRKYVGMVFQSFQLFPHMT 111
                              799***************************************777777777777779999999*********************** PP

                              HHHH..............HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              xxxx..............xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  76 vren..............esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                              + +n              e+++ + ++l+k+gl+  +++      ++LSgGq+qr ++aral+ +pk++l DEpt+
  PHY93_15235|PHY93_15235 112 LLDNvikpqmivnkingeEARVSAMRFLNKVGLSSHQEKYP----YQLSGGQQQRGSIARALALRPKIMLYDEPTS 183
                              *************99988888889********999555555....*****************************96 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.2     4e-06    0.0042       3      25 ..      40      62 ..      38      89 .. 0.72
   2 !   11.0   0.0   0.00025      0.26     233     295 ..     151     211 ..      91     214 .. 0.77

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 4e-06
                   AAA_21  3 vliGpNgsGKSnLLdaldllarl 25
                              +iG+ g+GKS+LL++l +l  l
  PHY93_15235|PHY93_15235 40 SIIGKSGCGKSTLLRCLNGLEIL 62
                             69***************999544 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.00025
                   AAA_21 233 parelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllell.kelsrngaQvilt 295
                               +++lS G+++  + ++  l++++  ++ l DEp + L+P+l+ ++ +++ ++ ++  +Q+++t
  PHY93_15235|PHY93_15235 151 YPYQLSGGQQQR-GSIARALALRP--KIMLYDEPTSALDPQLVDEVHQVMrDIDHDSMTQIVVT 211
                              489999999999.88888888887..7****************999999964444445666655 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.5   0.7   3.7e-09   3.9e-06      24     209 ..      36     224 ..      10     234 .. 0.72

  Alignments for each domain:
  == domain 1  score: 26.5 bits;  conditional E-value: 3.7e-09
                              SSEEEEEESTTSSHHHHHHHHHHHCTT.TTTTTTCHCCCCCC--.....BTTCSSTTEEEEEEEEEETTEE......SSSSSSCEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....xxxxxxxxxxxxxxxxxxxxxx......xxxxxxxxx RF
                    SMC_N  24 ksftaivGpNGSGKsnlldAilFvLGersakklrseklsdlihk.....skekasvkkaeveitfdnedkk......lkiekeevs 98 
                               +f +i+G+ G+GKs ll  +    G +   + r  +++ ++ +     s++k+ +++++      +  k       + +  ++++
  PHY93_15235|PHY93_15235  36 GGFYSIIGKSGCGKSTLLRCL---NGLEILDQGRI-DVNGIVLEnnpsdSDKKNLLENCQ------KVRKYvgmvfqSFQLFPHMT 111
                              46999*************999...45555544444.556666653655444444444443......22222222222344558899 PP

                              EEEEEETTSEEEEEETTEEE-HHHHHHHHHCTT-STT......CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N  99 isrrvkrkgeseykingkevtkkevsellesagiske......lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkk 178
                              +  +v++ +    king+e++ + + ++l+++g+s++      +LSgG+++  ++a  +A++      ++l De  +aLD + v +
  PHY93_15235|PHY93_15235 112 LLDNVIKPQMIVNKINGEEARVSAM-RFLNKVGLSSHqekypyQLSGGQQQRGSIARALALRP----KIMLYDEPTSALDPQLVDE 192
                              999999999999********99875.799*****999899999**************999854....37889************** PP

                              HHHHHHHHCTT.SEEEEE-SSHHHCCC-SCEE CS
                              xxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 179 vaellkekskn.aQfivislreemlekadklv 209
                              v ++++   ++ +  iv++++ ++ ++   +v
  PHY93_15235|PHY93_15235 193 VHQVMRDIDHDsMTQIVVTHEMRFAREIADIV 224
                              ******65544377799999988887765544 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.7   1.6   4.5e-07   0.00047       3      40 ..      12      57 ..      11     141 .. 0.84

  Alignments for each domain:
  == domain 1  score: 20.7 bits;  conditional E-value: 4.5e-07
                   AAA_23  3 kienf.rsf......rdqeidF.skgltlItGpNGaGKTTildAik 40
                             k+en+ +sf      +d ++ F   g++ I+G+ G+GK+T+l+++ 
  PHY93_15235|PHY93_15235 12 KLENVsKSFskelilDDINFTFkAGGFYSIIGKSGCGKSTLLRCLN 57
                             66666566764444455555665559******************96 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.1   3.5e-06    0.0037      83     125 ..      19      62 ..       3      71 .. 0.76
   2 ?   -0.8   0.0       1.2   1.3e+03      43      63 ..     129     149 ..     110     174 .. 0.69

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 3.5e-06
                              -TTTHTTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT--- CS
              RsgA_GTPase  83 saktkegleelkellkd.ktsvlvGqSGvGKStLinallpelel 125
                              s +++  l++++  +k   +  ++G+SG GKStL+  l++ + l
  PHY93_15235|PHY93_15235  19 SFSKELILDDINFTFKAgGFYSIIGKSGCGKSTLLRCLNGLEIL 62 
                              4555566788888888778999**************99986555 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 1.2
                              HHTT-EEEEEEE-GGG--HHH CS
              RsgA_GTPase  43 eekgiepvivlnKiDlleeee 63 
                              ee++++ +  lnK+ l +++e
  PHY93_15235|PHY93_15235 129 EEARVSAMRFLNKVGLSSHQE 149
                              455666666677777666666 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.0   2.3e-06    0.0024      16      39 ..      30      53 ..      24      70 .. 0.87

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 2.3e-06
                   AAA_29 16 tieidlkgatlltGpsGsGKSTll 39
                              ++++  g++ ++G+sG GKSTll
  PHY93_15235|PHY93_15235 30 NFTFKAGGFYSIIGKSGCGKSTLL 53
                             57888788***************8 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   2.1e-05     0.023       5      26 ..      36      57 ..      31      93 .. 0.82
   2 ?   -0.8   0.0       1.6   1.7e+03      96     111 ..     189     207 ..     143     238 .. 0.75

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 2.1e-05
                   AAA_22  5 agilvvtGesGtGKTtllrrll 26
                              g+  ++G sG+GK+tllr l 
  PHY93_15235|PHY93_15235 36 GGFYSIIGKSGCGKSTLLRCLN 57
                             68999*************9885 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 1.6
                   AAA_22  96 iiDEaqhlr...seealee 111
                              ++DE++ ++    ++ +++
  PHY93_15235|PHY93_15235 189 LVDEVHQVMrdiDHDSMTQ 207
                              4677777443442444433 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.0   1.3e-05     0.013      25      63 ..      37      81 ..      20     231 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 1.3e-05
                   AAA_16 25 elvllsGesGvGKsslvrellr.alekd.....ggiflrgkcdql 63
                             +   ++G sG+GKs+l+r+l   ++ ++     +gi+l+ +  ++
  PHY93_15235|PHY93_15235 37 GFYSIIGKSGCGKSTLLRCLNGlEILDQgridvNGIVLENNPSDS 81
                             56789**************98545555555555455555555555 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.1     2e-05     0.021      50     109 ..      41     104 ..      11     134 .. 0.74

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 2e-05
                    Rad17  50 isGPsGCgkstvvkvLsk.elgiklrewlnpvslkepdn..qksdfkgltekesrflsqi.esf 109
                              i G sGCgkst ++ L   e   + r  +n++ l + +    k++++  ++k  +++ ++ +sf
  PHY93_15235|PHY93_15235  41 IIGKSGCGKSTLLRCLNGlEILDQGRIDVNGIVLENNPSdsDKKNLLENCQKVRKYVGMVfQSF 104
                              88**************8625566788899***99876653567777788888777743321333 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.0   3.2e-05     0.033       3      55 ..      41      96 ..      40     117 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 3.2e-05
                   AAA_18  3 ltGtpGvGKttlakeLskrlgf....gvnlrdvakenglllevdpealdeskrlded 55
                             + G++G+GK+tl + L+ + ++     + ++ ++ en++++++ ++ l++++++++ 
  PHY93_15235|PHY93_15235 41 IIGKSGCGKSTLLRCLNGL-EIldqgRIDVNGIVLENNPSDSDKKNLLENCQKVRKY 96
                             78**************666.567999999************9999988888887765 PP

>> Fibrillarin  Fibrillarin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.0       3.8     4e+03     147     183 ..      15      51 ..      13      52 .. 0.78
   2 ?   12.3   0.1   6.5e-05     0.068     136     200 ..     188     252 ..     176     256 .] 0.93

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 3.8
                              ESSSTTHHHHHHHHHHHHEEEEEEEEEEEEHHHHHSS CS
              Fibrillarin 147 Dvaqpdqarilaknaklflkeggyllisikarsidvt 183
                              +v+++   +++ ++ ++  k+gg + i+ k+ +  +t
  PHY93_15235|PHY93_15235  15 NVSKSFSKELILDDINFTFKAGGFYSIIGKSGCGKST 51 
                              5777777888889999999999999988888776665 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 6.5e-05
                              TTS--EEEEEEESSSTTHHHHHHHHHHHHEEEEEEEEEEEEHHHHHSSSSHHHHHHHHHHHHHHT CS
              Fibrillarin 136 alvekvDvifaDvaqpdqarilaknaklflkeggyllisikarsidvtkepeevfkeeveklkee 200
                              +lv++v  +  D+ + + ++i+++    f +e + ++i++    i  + +p+e+f + +e+l ++
  PHY93_15235|PHY93_15235 188 QLVDEVHQVMRDIDHDSMTQIVVTHEMRFAREIADIVIYMDKGKIVEAGDPDEIFSNPKEELTRQ 252
                              6899************************************9999999***********9999876 PP

>> PhoH  PhoH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4   0.0   0.00063      0.66      20      64 ..      37      84 ..      17     134 .. 0.70
   2 ?    1.4   0.1      0.18   1.9e+02      46     105 ..     162     223 ..     158     229 .. 0.81

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.00063
                             SEEEEE--TTSST.THHHHHHHHHHHHTTS..-SEEEEEE-S--TT-- CS
                     PhoH 20 divfaiGpaGtGK.tylavalavealkkkk..vkriiltrpaveagee 64
                              +  +iG++G+GK t+l +  ++e+l +++  v+ i+l  +  +++++
  PHY93_15235|PHY93_15235 37 GFYSIIGKSGCGKsTLLRCLNGLEILDQGRidVNGIVLENNPSDSDKK 84
                             47789********66788999*******76115689988877776554 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.18
                              TTS-SEEEEEE-S--T.T----SS---------TTTHHH.HHHHTTTS-TTCHHHHHHTTSE CS
                     PhoH  46 kkkvkriiltrpavea.geelGflpgdleekvdpylrpl.ydaLkdllgaekvekllekgki 105
                              ++++ r + +rp+++  +e   +l+ +l + v+  +r + +d++++++ +++++ + e   i
  PHY93_15235|PHY93_15235 162 RGSIARALALRPKIMLyDEPTSALDPQLVDEVHQVMRDIdHDSMTQIVVTHEMRFAREIADI 223
                              57788889999999887999999999999999999999967999999999888777666655 PP

>> ABC_ATPase  Predicted ATPase of the ABC class
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   0.1     0.019        20     245     265 ..      37      57 ..      32      65 .. 0.88
   2 ?    6.0   0.1    0.0042       4.4     324     413 ..     156     229 ..     131     251 .. 0.66

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.019
                              SEEEEEE-TTSSHHHHHHHHH CS
               ABC_ATPase 245 GvtlIvGggfhGKsTLLeAle 265
                              G   I+G    GKsTLL+ l+
  PHY93_15235|PHY93_15235  37 GFYSIIGKSGCGKSTLLRCLN 57 
                              4778**************986 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.0042
                              -HHHHHHHHHHHHHHTT-SEEEEEGGGS-HHHH---HHHHHHS-GGG--B--HHHCHHHHHHHH--EEEEEESS-GCCTTT-SEEE CS
               ABC_ATPase 324 SGStsqAanimealeagakllLiDEDtsAtNlmirDermqelvskekepitplvdrvrelykklgvstilvvggsgdyldvAdtvi 409
                              SG   q  +i++al ++ k++L DE tsA    + De  q +                +++++  ++ i+v+  +    ++Ad vi
  PHY93_15235|PHY93_15235 156 SGGQQQRGSIARALALRPKIMLYDEPTSALDPQLVDEVHQVM----------------RDIDHDSMTQIVVTHEMRFAREIADIVI 225
                              677777777777777777777777777776544444444444................4444444455555555555555555555 PP

                              EEET CS
               ABC_ATPase 410 lmee 413
                              +m++
  PHY93_15235|PHY93_15235 226 YMDK 229
                              5554 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   1.0   0.00055      0.57      24      44 ..      34      57 ..      12     118 .. 0.75
   2 ?    3.2   0.3     0.058        61     324     362 ..     173     211 ..      81     213 .. 0.88

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00055
                   AAA_15 24 e...ltvliGkNnsGKSsileald 44
                             +   +  +iGk ++GKS++l+ l+
  PHY93_15235|PHY93_15235 34 KaggFYSIIGKSGCGKSTLLRCLN 57
                             2456778*************9985 PP

  == domain 2  score: 3.2 bits;  conditional E-value: 0.058
                   AAA_15 324 nvilliEEPEahLHpqaqkvlikllkelandnktQviit 362
                              ++i l++EP   L pq+  ++++ ++++  d+ tQ+++t
  PHY93_15235|PHY93_15235 173 PKIMLYDEPTSALDPQLVDEVHQVMRDIDHDSMTQIVVT 211
                              6899****************************99*9987 PP

>> PduV-EutP  Ethanolamine utilisation - propanediol utilisation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   0.00026      0.28       6      26 ..      41      61 ..      39      70 .. 0.92

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00026
                PduV-EutP  6 liGkvgsGKttLtqalkgeel 26
                             +iGk+g+GK tL + l+g e+
  PHY93_15235|PHY93_15235 41 IIGKSGCGKSTLLRCLNGLEI 61
                             69****************987 PP

>> Yos1  Yos1-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.0      0.97     1e+03       9      23 ..      53      67 ..      49     113 .. 0.72
   2 ?    9.3   0.0    0.0013       1.4      19      41 ..     134     156 ..     119     176 .. 0.70

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 0.97
                     Yos1  9 lLliNaiaiLsedRf 23
                             l ++N++ iL++ R+
  PHY93_15235|PHY93_15235 53 LRCLNGLEILDQGRI 67
                             558999999998885 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.0013
                     Yos1  19 sedRfLariglssssaesafges 41 
                              s  RfL+++glss++++  ++ s
  PHY93_15235|PHY93_15235 134 SAMRFLNKVGLSSHQEKYPYQLS 156
                              668********999944444333 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.2   0.00055      0.58       3      20 ..      40      57 ..      38      69 .. 0.87
   2 ?   -1.2   0.0         2   2.1e+03      52      79 ..      68     100 ..      60     141 .. 0.53
   3 ?   -2.6   0.0       5.4   5.7e+03      65      65 ..     209     209 ..     163     235 .. 0.59

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00055
                             EEEESTTSSHHHHHHHHH CS
                 MMR_HSR1  3 aivGrpNvGKStLinalt 20
                              i+G++  GKStL++ l 
  PHY93_15235|PHY93_15235 40 SIIGKSGCGKSTLLRCLN 57
                             69************9885 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 2
                              ECGGCS.S...HHHHHHHHHHHHHHHHC.TSEE CS
                 MMR_HSR1  52 DtpGli.e...gaseekglgkaflalee.adli 79 
                              D+ G++ e   ++s++k+l ++ +++++ + ++
  PHY93_15235|PHY93_15235  68 DVNGIVlEnnpSDSDKKNLLENCQKVRKyVGMV 100
                              666643322233444444555555444422222 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 5.4
                              H CS
                 MMR_HSR1  65 g 65 
                               
  PHY93_15235|PHY93_15235 209 V 209
                              1 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (256 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       728  (0.0406046); expected 358.6 (0.02)
Passed bias filter:                      627  (0.0349713); expected 358.6 (0.02)
Passed Vit filter:                        86  (0.0047967); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              17  [number of targets reported over threshold]
# CPU time: 0.76u 0.35s 00:00:01.10 Elapsed: 00:00:00.64
# Mc/sec: 1205.88
//
Query:       PHY93_15240|PHY93_15240  [L=505]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.6e-56  190.1   0.1    5.3e-56  189.6   0.1    1.2  1  SBP_bac_3        Bacterial extracellular solute-binding prote
      7e-19   68.3  13.2    1.2e-18   67.5  13.2    1.4  1  BPD_transp_1     Binding-protein-dependent transport system i
    2.9e-09   37.1   0.0    4.8e-08   33.2   0.0    2.3  1  Lig_chan-Glu_bd  Ligated ion channel L-glutamate- and glycine
  ------ inclusion threshold ------
      0.037   13.6   0.0       0.17   11.4   0.0    2.1  2  Phosphonate-bd   ABC transporter, phosphonate, periplasmic su


Domain annotation for each model (and alignments):
>> SBP_bac_3  Bacterial extracellular solute-binding proteins, family 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  189.6   0.1   1.2e-59   5.3e-56       8     222 ..      38     246 ..      30     248 .. 0.95

  Alignments for each domain:
  == domain 1  score: 189.6 bits;  conditional E-value: 1.2e-59
                              -BTTTBEE-T..TS-EESHHHHHHHHHHHHCT-EEEEEE-SGGGHHHHHHTTSSSEEESSEB--HHHHTTEEEESESEEEEEEEEE CS
                              xxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                SBP_bac_3   8 dypPfsykde..ngeltGfdvdlakaiakrlgvkvefvpvswdelipalksgkvDiaiaaititpeReekvdFsqpyfsagqvllv 91 
                              + +Pf ++++  ++ l Gf+v++++ai ++lgvk+efv + wd+lip+lk++++D+ai++i itp+R+++v Fs+py+s+ ++l+v
  PHY93_15240|PHY93_15240  38 SGAPFAMITNdsKNPLIGFEVEIIQAISEELGVKLEFVQNAWDGLIPGLKNNNYDLAINGIEITPDRQAEVSFSRPYYSTFEQLVV 123
                              568****99988999***********************77********************************************** PP

                              EETTSHGTCCHSSCGCGTTSEEEEETTSHHHHHHHHHHHCTSEEEEESSHHHHHHHHHTTSSSEEEEEHHHHHHHHHHCCGCCEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                SBP_bac_3  92 rkkdaskissiksladLkgkkvgvqagstaeellkeelkkgaeivefdtleealqaLkngrvdavvadspvlaylvkknpdkkvvl 177
                              r+++    ++i+sl d k kkvg+ + s a+ +l+ e   ++e+ ++++  +a+ +Lkn+r dav+ dsp++ y++k + ++k+v 
  PHY93_15240|PHY93_15240 124 RSNQ----EGIESLGDCKKKKVGTLKFSLAQRILEAEG--DIEVLTYESEVAAYSDLKNKRTDAVLLDSPIAIYYAKPDMELKLVG 203
                              *543....6899999****************9999843..9************************************999999999 PP

                              EECGGCECEEEEEEETTTHHHHHHHHHHHHHHHHTTHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                SBP_bac_3 178 veeplsseeyaiavrkgdseLrkainkalaelkadgtlakisekW 222
                                 p+ +  y+ia++k+++eL ka++kal+++ ++g+l +i ++W
  PHY93_15240|PHY93_15240 204 --SPIGQILYGIAINKENKELGKAVDKALKKISENGKLREILDRW 246
                              ..******************************************* PP

>> BPD_transp_1  Binding-protein-dependent transport system inner membrane component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.5  13.2   2.7e-22   1.2e-18       1     184 [.     315     497 ..     315     498 .. 0.93

  Alignments for each domain:
  == domain 1  score: 67.5 bits;  conditional E-value: 2.7e-22
             BPD_transp_1   1 gillGilaa...lnrnkkldkllrpliivllslPsfvlaillvlvfvilsilghlilpviillllsaapyvrlirraalrslpkdl 83 
                              +i+lG+++a    + ++++++  +++i++++++P ++ ++++++ +  l+i  + + ++i+ l l +a+y   ++ra++ s+pk +
  PHY93_15240|PHY93_15240 315 AIILGFILAvmkIYGSSFISWTATFYIEIIRGTPLLIQLFFIFYGLPYLGIKFSPFVAGILGLGLNYAAYEAENYRAGIFSVPKAQ 400
                              589********9999****************************999999888899999**************************** PP

             BPD_transp_1  84 veaaralGasrwqifrkvvlPnalppiitglilafggllggavlleflgswpGlgtllleailgydyseisnggvlalviavllln 169
                              veaa alG++ +q +++v+lP+a++ +++ + + f++ll++++l++ ++           a+ +ydy     g+ + ++ ++l l 
  PHY93_15240|PHY93_15240 401 VEAAIALGMNQRQALFHVILPQAFRIALPPMTNDFISLLKDSSLVSAITMVELTKVYGQLASTYYDYF----GTGILVASIYLFLG 482
                              *************************************************4443445555666677777....99************ PP

             BPD_transp_1 170 lvadilqrlldprvr 184
                              l +  ++r++++++ 
  PHY93_15240|PHY93_15240 483 LPFIRIARYFERKLN 497
                              ************985 PP

>> Lig_chan-Glu_bd  Ligated ion channel L-glutamate- and glycine-binding site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.2   0.0   1.1e-11   4.8e-08      11     112 ..      40     124 ..      33     127 .. 0.81

  Alignments for each domain:
  == domain 1  score: 33.2 bits;  conditional E-value: 1.1e-11
                              TTTBEES..S---GGGGEESHHHHHHHHHHHHHT-EEEEEE-TT-----BETTTTEB-HHHHHHHTTS-SEE-SS-B--HHHHTTS CS
          Lig_chan-Glu_bd  11 ePyvmlkkeeelegneryeGfcidLlkelakklgfkYelklvedgkyGskkekkkewnGmigellekkadlavapltitaeReevv 96 
                              +P++m+    + ++++ + Gf ++++++++++lg+k e+ +             + w+G+i  l +++ dla+  + it++R+  v
  PHY93_15240|PHY93_15240  40 APFAMI----TNDSKNPLIGFEVEIIQAISEELGVKLEFVQ-------------NAWDGLIPGLKNNNYDLAINGIEITPDRQAEV 108
                              678773....3445566888888888888888888887744.............37****************************** PP

                              EEESESEEE-EEEEEE CS
          Lig_chan-Glu_bd  97 dFtkpfmelgisilik 112
                               F++p++++  +++++
  PHY93_15240|PHY93_15240 109 SFSRPYYSTFEQLVVR 124
                              ******9987777666 PP

>> Phosphonate-bd  ABC transporter, phosphonate, periplasmic substrate-binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   3.8e-05      0.17      18     109 ..      59     142 ..      43     147 .. 0.81
   2 ?   -2.0   0.0      0.48   2.1e+03     196     227 ..     213     243 ..     155     252 .. 0.61

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 3.8e-05
                              HHHHHHHHHHSSEEEEE--SSHHHHHHHHHTTS-SEEE--HHHHHHHHHHS-EEEEEEEEETT--SEEEEEEEEETTSS.--SHHH CS
           Phosphonate-bd  18 pladyLseelGvevelvvatdyaavvealragqvDiaflgplayvqardqagveplatrvrsdGsasyrsviivradsd.iqsled 102
                              ++++++seelGv+ e+v  +  ++++ +l+++++D+a  g + +   +++   + + ++       s + +++vr +++ i+sl d
  PHY93_15240|PHY93_15240  59 EIIQAISEELGVKLEFVQNA-WDGLIPGLKNNNYDLAINGIEITPDRQAE---VSFSRPYY-----STFEQLVVRSNQEgIESLGD 135
                              57899***********9986.9***************9887777665543...34555554.....555667777776449***** PP

                              HGG-EEE CS
           Phosphonate-bd 103 Lkgktia 109
                              +k k+++
  PHY93_15240|PHY93_15240 136 CKKKKVG 142
                              *999987 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.48
                              EEEETTS-HHHHHHHHHHHHH---SHHHHHHH CS
           Phosphonate-bd 196 vvvrkelseelkekiqdallslaeteegkkll 227
                              ++++ke  +el +++ +al +++e+ + +++l
  PHY93_15240|PHY93_15240 213 IAINKE-NKELGKAVDKALKKISENGKLREIL 243
                              344444.4556666666666666655555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (505 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       823  (0.0459033); expected 358.6 (0.02)
Passed bias filter:                      534  (0.0297841); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.71u 0.34s 00:00:01.05 Elapsed: 00:00:00.58
# Mc/sec: 2641.67
//
Query:       PHY93_15245|PHY93_15245  [L=264]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.1e-14   53.8   0.0    3.4e-14   53.1   0.0    1.3  1  Glucosaminidase  Mannosyl-glycoprotein endo-beta-N-acetylgluc


Domain annotation for each model (and alignments):
>> Glucosaminidase  Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.1   0.0   1.9e-18   3.4e-14       3      81 ..     124     247 ..     122     253 .. 0.74

  Alignments for each domain:
  == domain 1  score: 53.1 bits;  conditional E-value: 1.9e-18
                              HHHHHHHHCT.-H.HHHHHHHHHHHTTTTCHHHHHCT-TSE....B..........HCTE-SSHHHHHHHH.SHHHH......... CS
          Glucosaminidase   3 aaleaakkygipp.svalaqaalEsgwgtsrlakeqnNlfGi...k..........kfrkydsveesirah.kllss......... 64 
                              a++e++++ +i p +++l qaalEsgwg+    +++nNlfGi   +          k++ +ds+++s+  h  +l++         
  PHY93_15245|PHY93_15245 124 ALKELKRRINIVPlDLILTQAALESGWGQAPAVEKCNNLFGIhgnNgleicdtpskKIAHFDSIQASVSFHiLNLNRnagytefrv 209
                              6789999***9999***************************956515555555555789************559997666544444 PP

                              .HCC....................HE.CECTHCCHHHHH CS
          Glucosaminidase  65 .skk....................ya.tdpaYaekliai 81 
                               + +                    y+  ++aY ++li++
  PHY93_15245|PHY93_15245 210 hR-QkilensdsltgiklmpdlinYSiRKKAYTDELISL 247
                              31.155555666666666666655444678898888876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (264 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       990  (0.0552178); expected 358.6 (0.02)
Passed bias filter:                      538  (0.0300073); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.59u 0.25s 00:00:00.84 Elapsed: 00:00:00.49
# Mc/sec: 1629.70
//
Query:       PHY93_05310|PHY93_05310  [L=242]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.6e-07   29.5   1.1    7.5e-05   22.6   0.1    2.1  2  PapD_N    Pili and flagellar-assembly chaperone, PapD N-termi


Domain annotation for each model (and alignments):
>> PapD_N  Pili and flagellar-assembly chaperone, PapD N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.6   0.1   4.2e-09   7.5e-05      13     115 ..      37     142 ..      26     151 .. 0.79
   2 !    5.8   0.2   0.00069        12      11      41 ..     160     191 ..     155     202 .. 0.78

  Alignments for each domain:
  == domain 1  score: 22.6 bits;  conditional E-value: 4.2e-09
                              TTSSEEEEEEEE-SSS-EEEEEEEEC..TTSS.STCCSSCS.SEEEESSEEEE-TTEEEEEEEEE.SS---SSS-EEEEEEEEEE- CS
                   PapD_N  13 adekeasvtvkNtgkepylvqswvdd..gdee.aedekakaspfvvtPPlfrlepgeeqvlRivtagkklpkdrEslfwlnvkeiP 95 
                              + +++a + ++N++++++ vq+++ +   d +  e++ + ++++++ P    + p+e+++++++  gk     +E  ++l+ +++P
  PHY93_05310|PHY93_05310  37 GPNSSALFFLENDSNQAIAVQVSLAKreMDVNgVESNPKISDELTLYPSQLIIPPNEKRSVKVAWFGKI-LPTKELAYRLIAEQLP 121
                              5667788889**************9944333334555666778********************663665.5568************ PP

                              ---.-.TCEEEEEEEEEEEEE CS
                   PapD_N  96 pkk.kkkekknklqlalrsri 115
                               +  k+k+kk ++++ lr+  
  PHY93_05310|PHY93_05310 122 IELeKSKNKKASIKVLLRYIA 142
                              988455888999999888755 PP

  == domain 2  score: 5.8 bits;  conditional E-value: 0.00069
                              EETTSSEEEEEEEE-SS.S-EEEEEEEECTTS CS
                   PapD_N  11 ynadekeasvtvkNtgk.epylvqswvddgde 41 
                              +++++k++s++v+N+gk +++l++  ++  +e
  PHY93_05310|PHY93_05310 160 VKNSDKKISIQVENSGKkHQVLANLNLKFINE 191
                              567999***********899999888877444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (242 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       888  (0.0495287); expected 358.6 (0.02)
Passed bias filter:                      458  (0.0255452); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.26s 00:00:00.81 Elapsed: 00:00:00.48
# Mc/sec: 1531.65
//
Query:       PHY93_17150|PHY93_17150  [L=334]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    4.8e-06   26.3   0.1      0.041   13.8   0.0    2.4  2  SLBB         SLBB domain
     0.0036   17.5   0.0       0.13   12.5   0.0    2.4  2  Poly_export  Polysaccharide biosynthesis/export protein


Domain annotation for each model (and alignments):
>> SLBB  SLBB domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.3   0.0   5.4e-05      0.48       2      32 ..     138     168 ..     137     173 .. 0.93
   2 !   13.8   0.0   4.6e-06     0.041       1      54 [.     230     281 ..     230     284 .. 0.90

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 5.4e-05
                              EEEESSBSS-EEEEEETT-BHHHHHHTTT-S CS
                     SLBB   2 VtVtGeVkrPgnyevpigttlsdlieqaGGl 32 
                              V V G Vk+Pg y +++  tl  +++ aGG 
  PHY93_17150|PHY93_17150 138 VEVRGLVKKPGRYLIRPTDTLDLVVDTAGGI 168
                              7799*************************96 PP

  == domain 2  score: 13.8 bits;  conditional E-value: 4.6e-06
                              EEEEESSBSS-EEEEEETT-BHHHHHHTTT-SBSS..........-E.EEE-SSSS CS
                     SLBB   1 vVtVtGeVkrPgnyevpigttlsdlieqaGGltdd.adlksvnLarl.avipgGpm 54 
                              +Vt+ G V + g + +++ ++l + ie+ GGl +  ++ + + + r  +   +G++
  PHY93_17150|PHY93_17150 230 FVTIIGGVMKAGKVLYQKDASLFYYIEKSGGLIQGlGY-DECYIFRNnK---DGAN 281
                              59*********************************666.9999999888...8765 PP

>> Poly_export  Polysaccharide biosynthesis/export protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.5   0.0   1.4e-05      0.13      32      74 ..      80     122 ..      51     130 .. 0.84
   2 ?    2.4   0.0      0.02   1.8e+02       3      20 ..     146     163 ..     144     193 .. 0.72

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 1.4e-05
              Poly_export  32 qgylVdpdGtIslPllGkikvaGltveelreeieeklskylkd 74 
                              ++++ d +G+++lP+  +++v  +t +e++e + +++++++++
  PHY93_17150|PHY93_17150  80 GRFRADFNGMLHLPYKVNVNVTNKTFDEVKEIVLNEYRSFFQK 122
                              56777889*************************9999776655 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.02
              Poly_export   3 aeseyrigpgDvLsItvw 20 
                              ++  y i p D+L+ +v 
  PHY93_17150|PHY93_17150 146 KPGRYLIRPTDTLDLVVD 163
                              5678**********9994 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (334 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       714  (0.0398237); expected 358.6 (0.02)
Passed bias filter:                      571  (0.0318478); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.25s 00:00:00.83 Elapsed: 00:00:00.46
# Mc/sec: 2167.01
//
Query:       PHY93_15250|PHY93_15250  [L=575]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    9.1e-16   58.2  35.2      7e-07   29.8   1.5    7.5  8  VCBS        Repeat domain in Vibrio, Colwellia, Bradyrhizobiu
    1.5e-11   44.1   0.0    3.9e-11   42.8   0.0    1.7  1  UnbV_ASPIC  ASPIC and UnbV
     0.0011   19.0  12.6     0.0022   18.1   1.7    3.5  4  FG-GAP      FG-GAP repeat
  ------ inclusion threshold ------
       0.82   10.0   3.4        5.5    7.3   0.0    3.4  4  DUF1828     Domain of unknown function DUF1828


Domain annotation for each model (and alignments):
>> VCBS  Repeat domain in Vibrio, Colwellia, Bradyrhizobium and Shewanella
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.0   0.1   1.3e-05     0.057      43      60 ..      74      91 ..      12      92 .. 0.68
   2 !   29.8   1.5   1.6e-10     7e-07       1      61 []      81     149 ..      81     149 .. 0.80
   3 !    4.8   0.1    0.0094        42       1      60 [.     138     197 ..     138     198 .. 0.84
   4 !    6.7   3.9    0.0025        11       3      53 ..     189     265 ..     187     268 .. 0.63
   5 !   12.5   1.5   3.9e-05      0.17       3      57 ..     262     318 ..     261     322 .. 0.82
   6 !   14.7   0.2   7.6e-06     0.034      19      61 .]     336     380 ..     321     380 .. 0.77
   7 !   12.5   0.3   3.8e-05      0.17      23      61 .]     436     475 ..     415     475 .. 0.82
   8 ?   -2.7   0.0       2.1   9.2e+03      18      25 ..     551     558 ..     539     571 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.3e-05
                     VCBS 43 gtgvavgDlDgDGdlDll 60
                             g gvav+D++gD ++D++
  PHY93_15250|PHY93_15250 74 GPGVAVADFNGDHRMDFI 91
                             236*************98 PP

  == domain 2  score: 29.8 bits;  conditional E-value: 1.6e-10
                     VCBS   1 DldgDGrlDlvvan.dgglrvyrnngdGtftdvtk.tslgg......sgggtgvavgDlDgDGdlDllv 61 
                              D++gD r+D+++ n dggl +y+n+g+G+f+ + + + l++      +  + ++++ D+ ++ ++ l+v
  PHY93_15250|PHY93_15250  81 DFNGDHRMDFIIPNsDGGLDLYLNTGNGQFKLADEsWGLSHlsdsdsDSLMLSPVIYDYLNNNRPSLFV 149
                              9************989***************98773444445555534444589999999999887776 PP

  == domain 3  score: 4.8 bits;  conditional E-value: 0.0094
                     VCBS   1 DldgDGrlDlvvandgglrvyrnngdGtftdvtkt.slggsgggtgvavgDlDgDGdlDll 60 
                              D+ ++ r+ l+va+ g  +++r++gd +ftdv+k+ ++ +  ++ ++++  ++g  + Dl+
  PHY93_15250|PHY93_15250 138 DYLNNNRPSLFVAGLGCSKLLRHDGD-HFTDVSKNsEIIDCKNSQSAVPIQFNGKDQVDLF 197
                              788889999999999999******99.8****99757777888888888888888888877 PP

  == domain 4  score: 6.7 bits;  conditional E-value: 0.0025
                     VCBS   3 dgDGrlDlvva.........................ndgglrvyrnngdGtftdvtkt.slggsgggtgvavgDlDg 53 
                              +g    Dl+++                         n g+  +  n g+G+f+++t+   ++++ ++  + ++ lDg
  PHY93_15250|PHY93_15250 189 NGKDQVDLFIIryfndsnvfdqshknflhenrfnakNGGQSSLIKNLGNGNFKNITSSkGITSTPWSLDAGWANLDG 265
                              55555666666555444444444444444444444345779**************9852666666666777777777 PP

  == domain 5  score: 12.5 bits;  conditional E-value: 3.9e-05
                     VCBS   3 dgDGrlDlvva.nd.gglrvyrnngdGtftdvtk.tslggsgggtgvavgDlDgDGdl 57 
                              + DG   ++++ nd g+  +yr + dG f d++k   +++   g++v + DlDg G +
  PHY93_15250|PHY93_15250 262 NLDGENNYLYLaNDfGPDSLYRMTDDG-FIDASKsLGFPDRRLGMNVSFIDLDGSGIP 318
                              668888888885545*********888.666665269*****************9875 PP

  == domain 6  score: 14.7 bits;  conditional E-value: 7.6e-06
                     VCBS  19 rvyrnng.dGtftdvtkt.slggsgggtgvavgDlDgDGdlDllv 61 
                               ++ ++  + +ftd +    l+   +++gva+gD+D DG  +++v
  PHY93_15250|PHY93_15250 336 FLWKYDSsKKQFTDHARDlGLHNCLWAFGVAAGDFDLDGNQEMYV 380
                              4555555256788876543777889999*************9997 PP

  == domain 7  score: 12.5 bits;  conditional E-value: 3.8e-05
                     VCBS  23 nngdGtftdvtkt.slggsgggtgvavgDlDgDGdlDllv 61 
                              n+++++ftd ++   + ++++ ++va+ D  ++G+lDl+v
  PHY93_15250|PHY93_15250 436 NQQQNHFTDYATEsGIIDPNDDRAVAMIDTENNGRLDLIV 475
                              67788999986542666699******************98 PP

  == domain 8  score: -2.7 bits;  conditional E-value: 2.1
                     VCBS  18 lrvyrnng 25 
                              l++y+nn+
  PHY93_15250|PHY93_15250 551 LNIYWNNK 558
                              78999985 PP

>> UnbV_ASPIC  ASPIC and UnbV
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.8   0.0   8.6e-15   3.9e-11       2      67 ..     507     572 ..     506     573 .. 0.87

  Alignments for each domain:
  == domain 1  score: 42.8 bits;  conditional E-value: 8.6e-15
               UnbV_ASPIC   2 iGArVtvtya.gatqlrevdpgrG.ylsssdprlhFGLGkatkidsvevrWpdGkvqtlenvkanqtl 67 
                              iG+++++  + + + +r+ ++g + ++  sdpr+hFGL ++t +d + ++W + kv++l+++k+ +++
  PHY93_15250|PHY93_15250 507 IGTKIEII-QnNRKFYRWNTGGKSgFMAYSDPRIHFGLPNNTPVD-LNIYWNNKKVSHLTQLKTGKYY 572
                              9******5.6344888999966655***************99776.*****************99876 PP

>> FG-GAP  FG-GAP repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   1.7   4.8e-07    0.0022       1      24 [.      73      94 ..      73     106 .. 0.87
   2 ?   -1.4   0.4      0.63   2.8e+03      11      18 ..     161     168 ..     161     168 .. 0.94
   3 !    7.0   0.3    0.0015       6.7       4      21 ..     364     381 ..     361     395 .. 0.83
   4 ?   -2.6   0.0       1.4   6.3e+03      14      21 ..     469     476 ..     467     480 .. 0.85

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 4.8e-07
                             TTSSEEEESTSSSSS-EEEEEETT CS
                   FG-GAP  1 fGyslavgDvNGDGyaDLavGApe 24
                             fG ++av+D+NGD   D+++   +
  PHY93_15250|PHY93_15250 73 FGPGVAVADFNGDHRMDFIIP--N 94
                             99*****************96..3 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.63
                              SSSSS-EE CS
                   FG-GAP  11 NGDGyaDL 18 
                              +GD ++D+
  PHY93_15250|PHY93_15250 161 DGDHFTDV 168
                              9******8 PP

  == domain 3  score: 7.0 bits;  conditional E-value: 0.0015
                              SEEEESTSSSSS-EEEEE CS
                   FG-GAP   4 slavgDvNGDGyaDLavG 21 
                              ++a+gD++ DG ++  v+
  PHY93_15250|PHY93_15250 364 GVAAGDFDLDGNQEMYVA 381
                              89*********8876666 PP

  == domain 4  score: -2.6 bits;  conditional E-value: 1.4
                              SS-EEEEE CS
                   FG-GAP  14 GyaDLavG 21 
                              G  DL+v+
  PHY93_15250|PHY93_15250 469 GRLDLIVT 476
                              999***97 PP

>> DUF1828  Domain of unknown function DUF1828
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3   0.0    0.0012       5.5      11      40 ..      99     127 ..      90     134 .. 0.84
   2 ?   -3.4   0.0       2.8   1.3e+04       4      23 ..     187     205 ..     185     232 .. 0.71
   3 ?    0.6   0.1      0.15   6.8e+02       7      30 ..     264     289 ..     261     292 .. 0.72
   4 ?   -0.8   0.0      0.43   1.9e+03      32      76 ..     421     467 ..     415     470 .. 0.69

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0012
                  DUF1828  11 iqiyvkkkegdeirLtDdGltlmdLsysgi 40 
                              +++y+ +  +++++L D+++ l +Ls s+ 
  PHY93_15250|PHY93_15250  99 LDLYL-NTGNGQFKLADESWGLSHLSDSDS 127
                              799**.6667***************98865 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 2.8
                  DUF1828   4 ldedgDsiqiyvkkkegdei 23 
                               ++  D++++++++   ++ 
  PHY93_15250|PHY93_15250 187 QFNGKDQVDLFIIRYF-NDS 205
                              5666788888886654.333 PP

  == domain 3  score: 0.6 bits;  conditional E-value: 0.15
                  DUF1828   7 dgDsiqiyvkkkeg..deirLtDdGl 30 
                              dg++ ++y+ ++ g  + +r+tDdG 
  PHY93_15250|PHY93_15250 264 DGENNYLYLANDFGpdSLYRMTDDGF 289
                              5666667776654455999*****95 PP

  == domain 4  score: -0.8 bits;  conditional E-value: 0.43
                  DUF1828  32 lmdLsysgidldl.skkRkellesilakfgvtl.edgelsvkvteen 76 
                              + +L ++++d    s + ++ +++ + + g+ + +d+  ++++++en
  PHY93_15250|PHY93_15250 421 ISHLGQNQVDCLFsSNQQQNHFTDYATESGIIDpNDDRAVAMIDTEN 467
                              56777777776665666667776666666666658888888888877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (575 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       386  (0.0215294); expected 358.6 (0.02)
Passed bias filter:                      307  (0.0171231); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.64u 0.25s 00:00:00.89 Elapsed: 00:00:00.49
# Mc/sec: 3530.37
//
Query:       PHY93_15255|PHY93_15255  [L=175]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.6e-07   31.0  12.9    4.6e-07   29.5   8.0    2.0  2  NQR2_RnfD_RnfE  NQR2, RnfD, RnfE family
  ------ inclusion threshold ------
          3    6.0  12.3        3.3    5.9  12.3    1.1  1  DUF2070         Predicted membrane protein (DUF2070)


Domain annotation for each model (and alignments):
>> NQR2_RnfD_RnfE  NQR2, RnfD, RnfE family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    3.9   1.1    0.0034        30     114     134 ..      15      35 ..      13      54 .. 0.79
   2 !   29.5   8.0   5.1e-11   4.6e-07     171     278 ..      49     157 ..      36     164 .. 0.78

  Alignments for each domain:
  == domain 1  score: 3.9 bits;  conditional E-value: 0.0034
           NQR2_RnfD_RnfE 114 NifNPAlvgrafllisfpaqm 134
                               ++NPA +g +f+l  f+++ 
  PHY93_15255|PHY93_15255  15 HFLNPATFGLVFVLQFFAGHA 35 
                              79************9998665 PP

  == domain 2  score: 29.5 bits;  conditional E-value: 5.1e-11
           NQR2_RnfD_RnfE 171 salalllgglyLlvrkiiswripvsvlatvavlsllfn....llaapplfhllsGglllgafFmatdpvtspitkkGklifglliG 252
                              + l l+lg +  ++    ++ri +s++++++++ ll      +  +++l  +++  + l  f m+ dpvt+p +++ k++ g++++
  PHY93_15255|PHY93_15255  49 TILFLVLGLITSFYA--RQLRISLSFILGYLLMGLLRLvlfnVPLVSILGIMITPTFYLFSFHMLSDPVTAPKNNNDKIYAGAIVA 132
                              344444444444444..367888888888888885544433355577999999********************************* PP

           NQR2_RnfD_RnfE 253 lltvliRvfgaypeGvafaiLlmNll 278
                              l+  ++R+  ++p G ++a L+  ++
  PHY93_15255|PHY93_15255 133 LIDGIFRMA-EIPYGQFYASLITGCI 157
                              *******98.7999****99997665 PP

>> DUF2070  Predicted membrane protein (DUF2070)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.9  12.3   0.00037       3.3      22     148 ..      22     110 ..       1     165 [. 0.39

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.00037
                  DUF2070  22 illalligllaflssklfgillfglpalvaflltlpvlrilggrltykrslflalltelivviisllaillsallqalvllalvls 107
                              + l+++                               l+++ g+  + ++lf a+++++i+++  +l++++s     ++   l +s
  PHY93_15255|PHY93_15255  22 FGLVFV-------------------------------LQFFAGHAISTQKLFSAYIITTILFL--VLGLITS-----FYARQLRIS 69 
                              333333...............................33333333333444444444444433..2222222.....122333333 PP

                  DUF2070 108 lalvfalrllvlvavsdesllkavlpaliqpllailllvly 148
                              l++++++ l+ l+ +   +++ ++++ ++++ +++l+++ +
  PHY93_15255|PHY93_15255  70 LSFILGYLLMGLLRLVLFNVPLVSILGIMITPTFYLFSFHM 110
                              33333333333333333333333322222222222222222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (175 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       802  (0.044732); expected 358.6 (0.02)
Passed bias filter:                      287  (0.0160076); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.28s 00:00:00.78 Elapsed: 00:00:00.46
# Mc/sec: 1148.69
//
Query:       PHY93_15260|PHY93_15260  [L=589]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
     0.0016   17.9   0.0     0.0028   17.1   0.0    1.3  1  Spermine_synth  Spermine/spermidine synthase domain
     0.0063   15.9   0.2     0.0099   15.2   0.2    1.2  1  CbiK            Cobalt chelatase (CbiK)


Domain annotation for each model (and alignments):
>> Spermine_synth  Spermine/spermidine synthase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.0   3.1e-07    0.0028      15     153 ..      99     247 ..      86     258 .. 0.81

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 3.1e-07
                              CSSST-EEEEESSTTSHHHHHHTTSTT-SEEEEEES-HHHHHHHHHHSHHHHTTCGGCTTEEEEESTCHHHHCTCSS-EEEEEEEC CS
           Spermine_synth  15 lhknpkevLiiGGgDGgvlrevvkhntvekitlvdiDqkvidfskkflpslaisafndarvklvlgdgfkflkayekkfdvvivds 100
                              +++n k+vL++  g Gg + ++ ++     ++ v+i +k  ++  k+ p  a   ++d++ k + +d+  fl++ +kk+d +i   
  PHY93_15260|PHY93_15260  99 FNPNVKNVLVLMAGAGGDADKIKQLIPNVFVDNVEINEKYKNLVYKNVPASARYIYEDSKSKFIFEDARIFLEKNKKKYDSIIFSF 184
                              567999999998888888888888876678999*******************999****************************998 PP

                              CS.TT....CSSCG....CSSHHHHHHHHHTEEEEEEEEEEE.EETTTCHHHHHHHHHHHHTT CS
           Spermine_synth 101 ld.pv....gpaen....lFskeffdllkkvlkedGviilqa.ekpelekelvinvdksgkqv 153
                                 p+    g++++    l++ e f   +++l++ G i + + +k+ +   l   v +s+k++
  PHY93_15260|PHY93_15260 185 HGsPIanflGTSSHyndyLYTVESFSKAISALTPQGSILVLSgNKIQILTTLYNIVGNSLKEN 247
                              887763333344447788899999999999998877655544488887777777777777665 PP

>> CbiK  Cobalt chelatase (CbiK)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.2   1.1e-06    0.0099      65     188 ..     136     260 ..     119     271 .. 0.76

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 1.1e-06
                              HHHHHCT--EEEEEE--SCSSHH....HHHHHHHHHHHGGGSSEEEE...E--SCS......SHHHHHHHHHHHHTTS----.TTE CS
                     CbiK  65 eklkeegykevivqplhiipGee....yeklkreVkkfkkkfekikl...grPlldykGvedsteDykevvealkdeierar.kde 142
                              ek k+  yk+v   + +i++ ++    +e+   + +k kkk+++i     g P+ ++ G+ ++ +Dy + ve++++ i  ++ + +
  PHY93_15260|PHY93_15260 136 EKYKNLVYKNVPASARYIYEDSKskfiFEDARIFLEKNKKKYDSIIFsfhGSPIANFLGTSSHYNDYLYTVESFSKAISALTpQGS 221
                              68899999999999999999887444467777778**********6533389**************************97775555 PP

                              EEEEEE---SCH.HHHHHHHHHHHHHHCT-S.EEEEETTSSS-HHHH CS
                     CbiK 143 alvfvgHGtehe.snavyaeldkvlkekdfkqvvvgtvegyPeveev 188
                              +lv+   G++ +  ++ y+ +++ lke+      v+ +e +P v+ +
  PHY93_15260|PHY93_15260 222 ILVL--SGNKIQiLTTLYNIVGNSLKEN------VVILEVDPLVNGI 260
                              5554..5565541567788888888776......4455666666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (589 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1008  (0.0562218); expected 358.6 (0.02)
Passed bias filter:                      424  (0.0236488); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.71u 0.30s 00:00:01.01 Elapsed: 00:00:00.50
# Mc/sec: 3557.64
//
Query:       PHY93_15265|PHY93_15265  [L=214]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.4e-07   30.2   1.3     0.0032   17.5   0.1    2.4  2  LysM      LysM domain


Domain annotation for each model (and alignments):
>> LysM  LysM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.1   1.8e-07    0.0032       1      41 [.      77     121 ..      77     122 .. 0.93
   2 !   11.5   0.2   1.3e-05      0.23       1      40 [.     139     183 ..     139     187 .. 0.87

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 1.8e-07
                              EEE-TT--HHHHHHHC...TCHHHHHHHHC..TCSSCGG--TTEEE CS
                     LysM   1 YtVkkGDTLwsIAkry...gitveklleaN..nlsspdkifpGqkL 41 
                              Y + +GDTL  I+++    ++ ++ ++++N   ++s+d + pG+ L
  PHY93_15265|PHY93_15265  77 YYIEQGDTLMLISQKLlgnHLKWRSIRKWNkqYVRSTD-LIPGTPL 121
                              7789***************************9999999.9999876 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 1.3e-05
                              EEE-TT--HHHHHHHC...TCHHHHHHHHC..TCSSCGG--TTEE CS
                     LysM   1 YtVkkGDTLwsIAkry...gitveklleaN..nlsspdkifpGqk 40 
                              Y +kk+DTL +I++++     +++ +   N   ++spd+i+ G  
  PHY93_15265|PHY93_15265 139 YLIKKNDTLPRISGKVygaRKSWDVIYFNNkdIIKSPDLIYSGLI 183
                              779**************9988889999888988999999998865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (214 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       360  (0.0200792); expected 358.6 (0.02)
Passed bias filter:                      293  (0.0163422); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.25s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 1437.22
//
Query:       PHY93_15270|PHY93_15270  [L=131]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0058   16.4   1.6     0.0058   16.4   1.6    2.0  2  PYST-C1   Plasmodium yoelii subtelomeric region (PYST-C1)
  ------ inclusion threshold ------
       0.08   13.4   1.5        0.1   13.1   1.5    1.4  1  DUF3245   Protein of unknown function (DUF3245)
       0.14   11.7   1.9       0.21   11.1   1.9    1.2  1  DUF1002   Protein of unknown function (DUF1002)


Domain annotation for each model (and alignments):
>> PYST-C1  Plasmodium yoelii subtelomeric region (PYST-C1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.6      0.33     2e+03      34      38 ..      48      52 ..      32      64 .. 0.64
   2 !   16.4   1.6   9.7e-07    0.0058      30      50 ..      83     103 ..      79     125 .. 0.88

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.33
                  PYST-C1 34 kNnNp 38
                             kN Np
  PHY93_15270|PHY93_15270 48 KNTNP 52
                             55555 PP

  == domain 2  score: 16.4 bits;  conditional E-value: 9.7e-07
                  PYST-C1  30 etqLkNnNpkDdkddkddkkr 50 
                              + qL+ +N+ Dd+dd+dd+++
  PHY93_15270|PHY93_15270  83 RKQLNPKNSQDDDDDDDDDND 103
                              579*******99999999933 PP

>> DUF3245  Protein of unknown function (DUF3245)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   1.5   1.7e-05       0.1      91     138 ..      62     109 ..      28     124 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 1.7e-05
                  DUF3245  91 ekekaeakkpvnaskrkaakvkkeakekakeakdddddddedesRska 138
                              ek+ +  + p++ ++ +   + k+ + k+++ +ddddddd+de  ++ 
  PHY93_15270|PHY93_15270  62 EKKIIYIEVPFDSVNPNSFLLRKQLNPKNSQDDDDDDDDDNDEVIASP 109
                              4455666677888888888899999*****888888888888866555 PP

>> DUF1002  Protein of unknown function (DUF1002)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   1.9   3.5e-05      0.21     173     217 ..      19      63 ..       8      64 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 3.5e-05
                  DUF1002 173 eikkiveevanelninlsdeqiqqivnllkkiqkldldlkelkkq 217
                              +i + + +v  +l+ +l+++q+++i++l+k+ + +  ++++lk++
  PHY93_15270|PHY93_15270  19 DILEKILNVDISLKSDLTKKQKDKIISLIKNTNPSITNWNQLKEK 63 
                              5666666777778888*******************99*****985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (131 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1255  (0.0699983); expected 358.6 (0.02)
Passed bias filter:                      594  (0.0331307); expected 358.6 (0.02)
Passed Vit filter:                        59  (0.00329076); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.47u 0.27s 00:00:00.74 Elapsed: 00:00:00.44
# Mc/sec: 890.55
//
Query:       PHY93_15275|PHY93_15275  [L=267]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (267 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       326  (0.0181828); expected 358.6 (0.02)
Passed bias filter:                      110  (0.00613531); expected 358.6 (0.02)
Passed Vit filter:                         5  (0.000278878); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.24s 00:00:00.72 Elapsed: 00:00:00.44
# Mc/sec: 1807.15
//
Query:       PHY93_15280|PHY93_15280  [L=210]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.6e-06   25.9  11.5    1.4e-05   25.1  11.5    1.3  1  UPF0259   Uncharacterised protein family (UPF0259)


Domain annotation for each model (and alignments):
>> UPF0259  Uncharacterised protein family (UPF0259)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.1  11.5   7.5e-10   1.4e-05      97     240 ..      59     200 ..      26     208 .. 0.81

  Alignments for each domain:
  == domain 1  score: 25.1 bits;  conditional E-value: 7.5e-10
                  UPF0259  97 nalLlgnlitliqlvsekkrvsilnaiglsllllPklliLiflttlliqlGllllliPGiivaillslsPiillkekksildsika 182
                               a  lg+ i+l q+v  +k+       g    ++P +l  +   ++l   Gll+l++PG+ v+i++s+ P + + ++       k 
  PHY93_15280|PHY93_15280  59 IAATLGTFIILSQVVLIQKKSH--GGTGELKYFVPTFLLYNLYYSFLFFAGLLFLVVPGFYVLIFFSMVPFVAVLDDECQGSFFKE 142
                              4556788899989888777653..3445556788*****************************************99999999*** PP

                  UPF0259 183 svnitfknikliaPavllWllvklllllliskfsllskkiaflllnllsnlisailii 240
                              s  +  kni l+a a +  llv +  ll++   +   k +a + +++   + + ++ +
  PHY93_15280|PHY93_15280 143 SKLLVKKNIGLVAWASVTNLLVEFSALLVSPIQNQTIKGVANFFISIPDAFFTLLMTV 200
                              **********************998877766666666777777777766666655555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (210 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       799  (0.0445647); expected 358.6 (0.02)
Passed bias filter:                      267  (0.0148921); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1362.85
//
Query:       PHY93_15285|PHY93_15285  [L=176]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    8.3e-31  107.0   0.0    9.9e-31  106.8   0.0    1.0  1  Asparaginase  Asparaginase, N-terminal
  ------ inclusion threshold ------
      0.038   13.6   0.0      0.066   12.9   0.0    1.3  1  DUF1241       Protein of unknown function (DUF1241)


Domain annotation for each model (and alignments):
>> Asparaginase  Asparaginase, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  106.8   0.0   1.1e-34   9.9e-31       2     162 ..      14     172 ..      13     175 .. 0.91

  Alignments for each domain:
  == domain 1  score: 106.8 bits;  conditional E-value: 1.1e-34
                              EEEEEEESGGGEEECTTS--CCEE..S-HHHHHCCTTTCCCCSEEEEEEEEEE-GGG--HHHHHHHHHHHHHHCCT-SEEEEE--S CS
             Asparaginase   2 vlvlatGGTiasekdesggalapa..lsaeellealpelekiaeleseqlanidSsnmtpadwlklaeaieealeeydgfVvlhGT 85 
                              v++++tGGTi  + de  g+l+ +    ++ +l++l +l  + ++++e l ++dS  m+ +d + ++++i ++ ++ + +VvlhGT
  PHY93_15285|PHY93_15285  14 VIIITTGGTIEKTYDEFDGSLENHgtSIKNRILSKL-RL-PYTNIHVEPLLSKDSLFMDDSDRELICKTIGQEAHKNAPIVVLHGT 97 
                              89****************999996544456666777.34.3569****************************************** PP

                              TTHHHHHHHHHHHEES.SSEEEEE--SS-TTSTT-SHHHHHHHHHHHHHCGGTTSECEEEETTEEEETTTEEE-BSS CS
             Asparaginase  86 DTlaytAsaLslmlknldkpvvltGsqrplselrsDgpeNlldAllvaasseriagvlvvfngkllranrvtKvhts 162
                              DT+a tA +    +k+l+ pvv+tG+++p+    +D+++N+++All+a      +g ++ f++++++   v+K + +
  PHY93_15285|PHY93_15285  98 DTMAVTARYCFDEIKHLSIPVVFTGAMVPMGFDDTDATQNVTEALLAAKLL--KPGFYISFHNQIFTVPHVQKNKEK 172
                              *********************************************999876..9*****************998765 PP

>> DUF1241  Protein of unknown function (DUF1241)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   7.3e-06     0.066       4      55 ..     111     162 ..     109     173 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 7.3e-06
                  DUF1241   4 vaslvlqvllrpvldklekkdvaaaqtLraalskaekesPgltqdlvkgllk 55 
                              +++l+++v++++++  +  +d++a+q++ +al  a   +Pg+   + +++ +
  PHY93_15285|PHY93_15285 111 IKHLSIPVVFTGAMVPMGFDDTDATQNVTEALLAAKLLKPGFYISFHNQIFT 162
                              67899**************************************999998876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (176 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       357  (0.0199119); expected 358.6 (0.02)
Passed bias filter:                      294  (0.016398); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 1196.55
//
Query:       PHY93_15290|PHY93_15290  [L=638]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    5.2e-52  177.4   9.8      6e-51  173.9   7.9    2.2  2  HSP90        Hsp90 protein
      9e-13   48.2   0.2      2e-12   47.1   0.2    1.6  1  HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like
    2.3e-09   37.7   0.1    4.9e-09   36.7   0.1    1.6  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like


Domain annotation for each model (and alignments):
>> HSP90  Hsp90 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    3.9   0.0    0.0033        20       1      31 [.     182     212 ..     182     221 .. 0.84
   2 !  173.9   7.9     1e-54     6e-51      77     487 ..     220     634 ..     209     638 .] 0.81

  Alignments for each domain:
  == domain 1  score: 3.9 bits;  conditional E-value: 0.0033
                              GGGSHHHHHHHHHHCCTTSSS-EEEEEEEEX CS
                    HSP90   1 eyleekklkelvkkySeFinfpiyllkekee 31 
                              e+l++ k+ + +kk+ +F+ ++i +l  + +
  PHY93_15290|PHY93_15290 182 EFLNAWKVSTTLKKFCDFMPYEIFVLDAEAT 212
                              79*********************99876554 PP

  == domain 2  score: 173.9 bits;  conditional E-value: 1e-54
                              EEEEESXXSXGGGSXGGGSXHHHHHHHHHHTTTTTSXXSEEEEEEEXSSSXEEEEEEEXSSXXTTTTTTTTTSXXTTEEEEETTEE CS
                    HSP90  77 ewellNkqkpiWlrkpkevteeeYkeFYkslskdsedplavkhfsaegevefkaiLfvPkrapsdlfekykkkkknnikLYvrrVf 162
                              +  l+N+++p+W ++p+ +t+ +Yk+FYk+l     dpl ++h +++   +++ iL+ Pk +p++ f++      +ni+LY ++Vf
  PHY93_15290|PHY93_15290 220 NPGLVNDTQPLWKKDPTTLTDADYKDFYKKLFPMDPDPLFWIHLKVDHPFTLEGILYFPKLNPNKPFNE------SNIRLYNKQVF 299
                              55689***************************************************************5......78********* PP

                              EESXXTTSSXGGGTTXEEEEEESSSXSSSTHHHHHTCHHHHHHHHHHHHHHHHHHHTSXH.HH..HHTHHHHHHHHHHHHHHHXGG CS
                    HSP90 163 itdefedllPkyLsFvkGvvdsddLPLNvsREtlqqnkilkvikkklvrKvlemlkklae.ekeeykkfykefsknlklGiiedsa 247
                              ++++++d++P++Ls +kG +ds d+PLNvsR +lq +  +k i++ +++Kv e lkkl + ++ +y  ++++ s  +k+G i d++
  PHY93_15290|PHY93_15290 300 VSNNVKDIVPEFLSLLKGCIDSSDIPLNVSRSSLQGDPNIKKISNYVIKKVAESLKKLFNnDRARYVAIWEDISLFIKYGAISDTK 385
                              *********************************************************96615567********************* PP

                              GHHHHHTTXEEEETTEEEEEEEHHHHHH......HSXTTXXEEEEEEXSSHHHHHTSGGGHHHHHTTXXEEEEXSTTHHHHHHTXS CS
                    HSP90 248 nrkklakLlrfksskseeeltsLedYve......rmkekqksiYyiageskeevekspflerlkkkgyevlylvdpiDeyvvqqlk 327
                                + + + + fk s+  +++++L +Y e      ++k + k +Y+  g+s  +++k+   + l++ + e       +  + +++l 
  PHY93_15290|PHY93_15290 386 FDEMMRDYVVFKDSE--NKFITLPEYKEsipemyKIKMENKVLYFEKGKSDFALRKELHANGLHAIETESYIDPHFMQHVEMTKLG 469
                              ************776..789******6622222245778899************99988888888777764444445555566666 PP

                              EETTEEEEETTBSTXXXXXXHHHHHHHHHHHHHHHH.HHHHHHHTTTTT.............ESEEEEXSSXSSXSEEEEBXTTSX CS
                    HSP90 328 eyegkklvnvakegleleeeeeekkkkeelkkkfee.ltkllkevlkdk.............vekvkvserlvdsPcvlvtseygw 399
                              e    ++ +v  e  +l +++ + +++ ++k+ f+e l+    e  +d+             +e vk+++  ++sP+      + +
  PHY93_15290|PHY93_15290 470 E-ATYHFASVDSEIGSLLDQDATTDSDIKVKELFTEvLIGKTTEKTEDEedmdslnhgglkdIEIVKIKN--STSPAY-----FKV 547
                              6.45689999999888866666666666655555441333333333333234444444433366666666..566665.....567 PP

                              XHHHHHHHHHHHHHHHSSTSSSSSXEEEEEXTTSHHHHHHHHHHHHTTTXHHHHHHHHHHHHHHHHHT.TXXXSXHHHHHHHHHHH CS
                    HSP90 400 sanmerimkaqalrdkskssymsskktleinprhpiikeLkkkveedkedeeakdlaellyetalles.Gfsledpasfakrierl 484
                                +m+r+ +    +   + ++   kktl inp  p+i++ +k  e+ ++   +k++++ + + a ++s G + ed ++f +r ++l
  PHY93_15290|PHY93_15290 548 DEQMKRMHQMA--KGMGNDAMFPIKKTLVINPGSPLIQNALKLHEKGTNIPLVKKIVHHVEDLAQISSeGLKHEDREAFVSRTQEL 631
                              78999986544..444444555679*****************************************9989**************** PP

                              HTT CS
                    HSP90 485 lkl 487
                              +++
  PHY93_15290|PHY93_15290 632 MQE 634
                              986 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.1   0.2   3.3e-16     2e-12       6      99 ..      30     145 ..      24     181 .. 0.80

  Alignments for each domain:
  == domain 1  score: 47.1 bits;  conditional E-value: 3.3e-16
              HATPase_c_3   6 AlaelvdNsldAdaen...............vkievnknrgktgeivieDdGkGmseeelknal.rlatsskeakr.......... 65 
                               l elv N++dA  ++               +++++nk     ++i+ eD+G Gm+e+e+++++ +la s   +            
  PHY93_15290|PHY93_15290  30 FLRELVANATDAITKRatmarvanfeiptgkINVTINKTA---KTITLEDNGIGMTEAEVEKYIaQLAFSGAAEFVnkmkdqgstp 112
                              578*********9999999**********99999999975...8******************664899887763312333334444 PP

              HATPase_c_3  66 kstslGkkGiGlklAslslgkkltvitkkegess 99 
                              +s+++Gk+G+G + ++++++ +++v+t + +e  
  PHY93_15290|PHY93_15290 113 NSDIIGKFGLG-FYSAFMVSTRVEVETLSMNEGA 145
                              5777*******.***************8766544 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.7   0.1   8.1e-13   4.9e-09       4     111 ..      29     179 ..      26     180 .. 0.62

  Alignments for each domain:
  == domain 1  score: 36.7 bits;  conditional E-value: 8.1e-13
                              HHHHHHHHHHHHHHHHH.......HS..TTTEEEEEEEEEETEEEEEEEESSSSSTTHHHT.......GTCSTTCH.......... CS
                HATPase_c   4 krLrqiisnlvdNavkf.......at..kageieveikaseddlvisveDnGiGipkedlk.......klfekfsq.......... 63 
                              ++Lr+++ n+ d+  k        +   ++g+i v+i+  +  ++i+ eDnGiG+++++++             s           
  PHY93_15290|PHY93_15290  29 IFLRELVANATDAITKRatmarvaNFeiPTGKINVTIN--KTAKTITLEDNGIGMTEAEVEkyiaqlaF-----SGaaefvnkmkd 107
                              68999999999999998877777511457779999999..779******************76666542.....444444447776 PP

                              ....HCSTCHTSTSSSHHHHHHHHHHHH.......TTTEEEE....................EEETTTEEEEEEEEESS CS
                HATPase_c  64 ....ddstkrggggtGlGlsivkklvel.......mgGeiwv....................esepgrGttftftlple 111
                                   +s+ +  g +GlG++ +  ++++       m                          ++++++Gt++t+++ +e
  PHY93_15290|PHY93_15290 108 qgstPNSDII--GKFGLGFYSAFMVSTRvevetlsM-----NegatpakwicegetdysfeeSTRSEIGTKITLHINEE 179
                              4433344444..556665555544333211123341.....033333344444444446665555589******99875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (638 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       796  (0.0443973); expected 358.6 (0.02)
Passed bias filter:                      519  (0.0289475); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.73u 0.25s 00:00:00.98 Elapsed: 00:00:00.47
# Mc/sec: 4083.14
//
Query:       PHY93_15295|PHY93_15295  [L=304]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.9e-39  133.1   0.6    1.4e-38  132.2   0.6    1.3  1  DUF4423   Domain of unknown function (DUF4423)
     0.0016   18.6   0.1     0.0038   17.4   0.1    1.6  1  Rio2_N    Rio2, N-terminal
  ------ inclusion threshold ------
      0.035   14.6   0.8      0.098   13.2   0.3    1.9  2  Pox_H7    Late protein H7


Domain annotation for each model (and alignments):
>> DUF4423  Domain of unknown function (DUF4423)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  132.2   0.6   2.4e-42   1.4e-38       7     165 ..     138     298 ..     133     299 .. 0.95

  Alignments for each domain:
  == domain 1  score: 132.2 bits;  conditional E-value: 2.4e-42
                  DUF4423   7 irkLdeeefeyfssWyypvirellplkdfkadpeelakrlrpkisaeevekalefLlklgllkkdedgkyrqtekslt.tssevks 91 
                               ++L ++++ yfs+Wy ++irel+++++fk+++e+++k+lr+kis++e ++a+  L +lgllk++ +gk+ q+e+++t t+++ + 
  PHY93_15295|PHY93_15295 138 AFELLKSQYNYFSHWYLVAIRELVAVENFKENYEWVSKKLRNKISKKEMHEAIADLINLGLLKRQDNGKLLQAEEFVTfTDNSMNY 223
                              568999************************************************************************9999999* PP

                  DUF4423  92 eavrsyhkqmlelAiealervpkeeRdissltlaiskedyekikkeirefrkkilaiaeeske.aerVyqLnlql 165
                              ++v+++h+q+l+lA+e+l +++ ++R+ s++++a  ke+++ki++ei++fr+ il++  +++   + V +L +ql
  PHY93_15295|PHY93_15295 224 TVVNALHSQFLDLAKESLSEDQYKDRSASCVVIATEKENFDKIREEIKAFREHILNKYGTNSGkLDCVLNLGIQL 298
                              *******************************************************877666554899****9998 PP

>> Rio2_N  Rio2, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.1   6.4e-07    0.0038      10      58 ..     158     203 ..     155     209 .. 0.88

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 6.4e-07
                   Rio2_N  10 rvLtavEmgmrnhevVptelieeisrlkeeevkkrlsrllkaklisrkt 58 
                              r L avE    n+e+V+++l ++is   ++e+++++ +l++ +l++r++
  PHY93_15295|PHY93_15295 158 RELVAVENFKENYEWVSKKLRNKIS---KKEMHEAIADLINLGLLKRQD 203
                              5699***************988877...588***************964 PP

>> Pox_H7  Late protein H7
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0      0.63   3.8e+03      83     109 ..     158     181 ..     142     196 .. 0.65
   2 ?   13.2   0.3   1.6e-05     0.098      49     100 ..     221     275 ..     196     280 .. 0.85

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.63
                              HHHHHHHHHHH-HHHHHHH-HHHHHHH CS
                   Pox_H7  83 keltaadiilediedyikeskklkrvi 109
                              +el+a++  +e+   y   skkl++ i
  PHY93_15295|PHY93_15295 158 RELVAVENFKEN---YEWVSKKLRNKI 181
                              566666666666...777777777654 PP

  == domain 2  score: 13.2 bits;  conditional E-value: 1.6e-05
                              EEEE-SS-BGGGGGT---EE--HHHHHHTHH...HHHHHHHHHHHHHH-HHHHHH CS
                   Pox_H7  49 idfeYdgflaSdylnaklkkltpdeyaahsa...aiakeltaadiilediedyik 100
                              ++++  + l S++l+   + l+ d+y++ sa   +ia+e  + d i e+i+++ +
  PHY93_15295|PHY93_15295 221 MNYTVVNALHSQFLDLAKESLSEDQYKDRSAscvVIATEKENFDKIREEIKAFRE 275
                              56667799******************9988744469**************99965 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (304 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1145  (0.063863); expected 358.6 (0.02)
Passed bias filter:                      532  (0.0296726); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.59u 0.24s 00:00:00.83 Elapsed: 00:00:00.46
# Mc/sec: 1988.57
//
Query:       PHY93_17155|PHY93_17155  [L=365]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.7e-20   73.7   0.0    2.9e-20   72.9   0.0    1.3  1  Glyco_transf_4   Glycosyltransferase Family 4
    6.7e-18   64.8   0.0    1.4e-17   63.8   0.0    1.4  1  Glycos_transf_1  Glycosyl transferases group 1
    3.5e-12   46.9   0.0    8.6e-12   45.6   0.0    1.7  2  Glyco_trans_1_4  Glycosyl transferases group 1
    3.4e-07   30.8   0.0    6.7e-07   29.9   0.0    1.5  1  Glyco_trans_4_4  Glycosyl transferase 4-like domain
    9.2e-05   22.2   0.1        0.4   10.3   0.0    2.4  2  Glyco_transf_5   Starch synthase catalytic domain
    9.2e-05   22.8   0.0    0.00017   21.9   0.0    1.4  1  Glyco_trans_1_2  Glycosyl transferases group 1
  ------ inclusion threshold ------
      0.061   13.2   0.0      0.086   12.7   0.0    1.3  1  Methyltransf_23  Methyltransferase domain
        0.1   12.6   0.1       0.31   11.0   0.1    1.8  1  Glyco_trans_4_2  Glycosyl transferase 4-like


Domain annotation for each model (and alignments):
>> Glyco_transf_4  Glycosyltransferase Family 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.9   0.0   1.3e-23   2.9e-20       1     168 [.      12     172 ..      12     172 .. 0.88

  Alignments for each domain:
  == domain 1  score: 72.9 bits;  conditional E-value: 1.3e-23
           Glyco_transf_4   1 vGGverhvleLaraLarrGheVtvvtpgddgpleeevelvvrvprvplpllkrllrslaflrrlrrllkrekpDvvHahspaalga 86 
                              vGG e  +++La + ++rGh++ v+  ++d+   +      ++  v +p+ k+l+++++ l+++ + l     D++H+h+  +l++
  PHY93_17155|PHY93_17155  12 VGGLEKIIYHLALEQQKRGHNIAVYIYDYDRSWVDF--FRSSGLTVITPKIKKLGYDYSLLKAMNHDLF--SADIIHSHDLNPLLY 93 
                              7******************************99999..6677778888999**************9999..8**********9988 PP

           Glyco_transf_4  87 allalrr.....rlgiplVltvHglyekrllkarlkplsrllralerrllrradrviavSeatadelrerygvppekitVipnGvD 167
                               +  +++     +++++l++t Hgl++           +++ + + r + r ad+ i vSe++ + ++e  +++++++ VipnGv 
  PHY93_17155|PHY93_17155  94 LGPLSLWkkltfQKRPKLIHTTHGLEH--------IDNYPRGKLYQRIFSRLADKMIGVSETIGNFYLEDIKLSAKNVMVIPNGVS 171
                              6644444499****************4........44455555556666888*********************************7 PP

           Glyco_transf_4 168 l 168
                              +
  PHY93_17155|PHY93_17155 172 T 172
                              6 PP

>> Glycos_transf_1  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.8   0.0   6.1e-21   1.4e-17       7     161 ..     191     336 ..     186     346 .. 0.84

  Alignments for each domain:
  == domain 1  score: 63.8 bits;  conditional E-value: 6.1e-21
                              HHTTTTTT-EEEEEESS-TTTTTHHHHHHHHHCCCCCHCSCEEEEEES....STTHHHHHHHHHHHCTTCGGGEEECCHSSSHHHH CS
          Glycos_transf_1   7 kklgknekkkiilsvgrlekeKgvdllikafallkkqlnpnvklviaG...ngeeekelkklaeelelsdnviflgevsredleel 89 
                              +++g++++++iils++r+++ K++  l +a+++     +p+++l+i+G   + ++ +el    ++le  +n++++g ++   l   
  PHY93_17155|PHY93_17155 191 QRHGLDSNRPIILSLSRVVPLKDQRFLMTALKH-----RPDYQLIIVGpsgDHDYYNEL----KNLED-KNIKLIGSQE---LVLE 263
                              6788999*************************5.....8*********54444444444....45554.789******8...8888 PP

                              HHC.ESEEEEEESSBSS-HHHHHHHHTT--EEEETTTTHCHHCHTTTSEEEE-TT..-HHHHHHHHHHHHHSHHH CS
          Glycos_transf_1  90 lkn.adifvlpsisEgfGivllEAmaaglpviasnaggpaevvkdgetGllvkpn..naealaeairklledeel 161
                              +++ +d++v  s+ Eg ++++lEAma+  p+++s ++g + ++k+g   ++   +  ++e++ ++++ + ++ e+
  PHY93_17155|PHY93_17155 264 YNMgSDMYVSASTHEGIPVAVLEAMAVENPCLISEIPGHMTLLKHGS--FVETFKlgDIEDFLKKFDLMFKNIED 336
                              8888*******************************************..6666666699**99999999998744 PP

>> Glyco_trans_1_4  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0       2.6   5.9e+03      64      93 ..      42      75 ..       7      78 .. 0.61
   2 !   45.6   0.0   3.9e-15   8.6e-12       1     127 [.     199     326 ..     199     333 .. 0.76

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 2.6
                             THHHHHHHH-SEEEE--...-.--SHHHHHHHHT CS
          Glyco_trans_1_4 64 edlaellaaadvfvaPs...e.gfglkllEamaa 93
                              +  ++++++ ++v++    + g  ++ll am +
  PHY93_17155|PHY93_17155 42 RSWVDFFRSSGLTVITPkikKlGYDYSLLKAMNH 75
                             4456677777777777656425888888888876 PP

  == domain 2  score: 45.6 bits;  conditional E-value: 3.9e-15
                              SEEEEEES---GG.GTHHHHHHHHHHHH.HHEEEEEES---..HHHHHHHTT-T..TEEEE---THHHHHHHH-SEEEE--..--- CS
          Glyco_trans_1_4   1 rpvilfvGrleenvkgvdllleavpllrkkdvrlvivGdgprpeeleelaagle.erveftGfvedlaellaaadvfvaPs..egf 83 
                              rp+il ++r+  + k +++l+ a+++    d++l+ivG + +++ ++ ++++le +++++ G  e + e+   +d++v  s  eg+
  PHY93_17155|PHY93_17155 199 RPIILSLSRV-VPLKDQRFLMTALKHRP--DYQLIIVGPSGDHDYYN-ELKNLEdKNIKLIGSQELVLEYNMGSDMYVSASthEGI 280
                              6899999999.567*******9998777..69******443332333.333555156*******88****************99** PP

                              SHHHHHHHHTT-EEEE-TGGGTTT--TTSS...EE--TT-HHHHHHH CS
          Glyco_trans_1_4  84 glkllEamaaglpvVatdvggiaevvgeng...llvppgdpealaea 127
                              ++++lEama++ p+  ++++g   ++ ++g     ++ gd e++ ++
  PHY93_17155|PHY93_17155 281 PVAVLEAMAVENPCLISEIPGHMTLL-KHGsfvETFKLGDIEDFLKK 326
                              *******************9955554.34411123455577777766 PP

>> Glyco_trans_4_4  Glycosyl transferase 4-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.9   0.0     3e-10   6.7e-07       1     160 []      13     169 ..      13     169 .. 0.78

  Alignments for each domain:
  == domain 1  score: 29.9 bits;  conditional E-value: 3e-10
          Glyco_trans_4_4   1 gGigryvaelaraLaarGheVtvltpapapg.apeleedgvrvhrlpvprrpspladlaalralrrllrqrrerpdvvhahspt.. 83 
                              gG ++ +++la ++++rGh + v++ +++++  +  +  g++v+  ++   +   +d++ l a+     ++ +  d++h+h++   
  PHY93_17155|PHY93_17155  13 GGLEKIIYHLALEQQKRGHNIAVYIYDYDRSwVDFFRSSGLTVITPKIKKLG---YDYSLLKAM----NHDLFSADIIHSHDLNpl 91 
                              89***********************99999963349999***9986666554...344444444....4677**********5324 PP

          Glyco_trans_4_4  84 ..aglaarlar..rrrgiplvvtlhglllrrgsgavrrlyralerrllrradavlvvseaeaeelra.lgvpadrvvvvpng 160
                                +g++ ++ +   +++++l++t hgl++ + + +++ ly   +r   r ad  + vse +   + +   + a +v v+png
  PHY93_17155|PHY93_17155  92 lyLGPLSLWKKltFQKRPKLIHTTHGLEHID-NYPRGKLY---QRIFSRLADKMIGVSETIGNFYLEdIKLSAKNVMVIPNG 169
                              6655555555423468**********87443.33556677...777****************877766*************8 PP

>> Glyco_transf_5  Starch synthase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.3   0.0   0.00018       0.4      10      44 ..       7      41 ..       4      56 .. 0.89
   2 !    9.2   0.1   0.00039      0.86     123     184 ..      70     130 ..      64     151 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00018
           Glyco_transf_5 10 aplaktGGLadvvgaLpkaLaklghdvrvilPryg 44
                             + +  +GGL +++++L+ + +k+gh++ v + +y+
  PHY93_17155|PHY93_17155  7 TQFLGVGGLEKIIYHLALEQQKRGHNIAVYIYDYD 41
                             67899**************************9994 PP

  == domain 2  score: 9.2 bits;  conditional E-value: 0.00039
           Glyco_transf_5 123 lelleklgwkpdvihahDWhtalvpallkelykerglfkkiktvftiHNlayqgrfpkdela 184
                              l+++++  +  d+ih hD    l    l  + k+ ++ k+ k+++t H l++  ++p+ +l 
  PHY93_17155|PHY93_17155  70 LKAMNHDLFSADIIHSHDLNPLLYLGPLSLW-KKLTFQKRPKLIHTTHGLEHIDNYPRGKLY 130
                              67777744579*******9998886666654.46789999***********99999977664 PP

>> Glyco_trans_1_2  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.9   0.0   7.7e-08   0.00017       4      92 .]     273     363 ..     270     363 .. 0.93

  Alignments for each domain:
  == domain 1  score: 21.9 bits;  conditional E-value: 7.7e-08
          Glyco_trans_1_2   4 npsrsespnlrlfEaaacGafaltddaegleelftpgkevilfe..dleelaekiryllanpeerraiaeaarervlaehtydhra 87 
                                s +e++ + ++Ea+a   + l ++++g+  l++ g  v +f+  d e++++k++ + +n e+ + +a++ r  v++ +++++ +
  PHY93_17155|PHY93_17155 273 SASTHEGIPVAVLEAMAVENPCLISEIPGHMTLLKHGSFVETFKlgDIEDFLKKFDLMFKNIEDTKTRAKKSRVLVEEYYSVKKMV 358
                              56777888999***********************************************************************9999 PP

          Glyco_trans_1_2  88 eqlla 92 
                              +++l+
  PHY93_17155|PHY93_17155 359 NNYLQ 363
                              99875 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   3.8e-05     0.086      79     114 ..     105     142 ..      27     196 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 3.8e-05
          Methyltransf_23  79 pqgkfdlIvlrevlehvpdpp..ellrqiatllkpgGy 114
                               q++++lI+ +++leh++++p  +l ++i++ l++   
  PHY93_17155|PHY93_17155 105 FQKRPKLIHTTHGLEHIDNYPrgKLYQRIFSRLADKMI 142
                              4789***************8877777777777776544 PP

>> Glyco_trans_4_2  Glycosyl transferase 4-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.1   0.00014      0.31      14     125 ..      20     134 ..      14     144 .. 0.70

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00014
          Glyco_trans_4_2  14 lrlakeLakrgyeVhvitpkkga..kdeleaegihvhrlkvdrkgpleylk.afkl.kklikkikPDvvhahyakpygllg..sla 93 
                              ++la e +krg++++v + + ++   d+ ++ g++v+  k  +k    + + ++++     + ++ D++h h  +p+ +lg  sl 
  PHY93_17155|PHY93_17155  20 YHLALEQQKRGHNIAVYIYDYDRswVDFFRSSGLTVITPK--IKKLGYDYSlLKAMnH---DLFSADIIHSHDLNPLLYLGplSLW 100
                              5677777888888888888555546788888888888887..4443333331223322...34567************99944455 PP

          Glyco_trans_4_2  94 ar..lsgvipvvlsvwGldvlkfpkksklkklll 125
                              ++  + + ++++ + +Gl  +++ +++kl++ ++
  PHY93_17155|PHY93_17155 101 KKltFQKRPKLIHTTHGLEHIDNYPRGKLYQRIF 134
                              66567888**********9999988887666554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (365 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       479  (0.0267165); expected 358.6 (0.02)
Passed bias filter:                      348  (0.0194099); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.59u 0.25s 00:00:00.84 Elapsed: 00:00:00.47
# Mc/sec: 2334.30
//
Query:       PHY93_15300|PHY93_15300  [L=279]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (279 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       505  (0.0281667); expected 358.6 (0.02)
Passed bias filter:                      334  (0.018629); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.44
# Mc/sec: 1926.31
//
Query:       PHY93_15305|PHY93_15305  [L=360]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.067   12.8   0.0       0.11   12.0   0.0    1.4  1  DUF2268   Predicted Zn-dependent protease (DUF2268)


Domain annotation for each model (and alignments):
>> DUF2268  Predicted Zn-dependent protease (DUF2268)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   6.1e-06      0.11      49     107 ..     100     149 ..      68     185 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 6.1e-06
                  DUF2268  49 dkiflflleneyskerlaallaHEyhHvvrlkqlekeeksiTllesivlEGlAesfate 107
                               ki++     + + + l++llaHE+ H+v ++ + +e          v EG+A+ f++ 
  PHY93_15305|PHY93_15305 100 HKIIVQ--LIQINSNGLKSLLAHEFFHAVHFEINANE-------APWVREGMAQLFEYI 149
                              455555..45677889***************988865.......556777777777664 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (360 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       565  (0.0315132); expected 358.6 (0.02)
Passed bias filter:                      430  (0.0239835); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.58u 0.27s 00:00:00.85 Elapsed: 00:00:00.48
# Mc/sec: 2270.08
//
Query:       PHY93_15310|PHY93_15310  [L=375]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (375 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       513  (0.0286129); expected 358.6 (0.02)
Passed bias filter:                      415  (0.0231469); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.59u 0.24s 00:00:00.83 Elapsed: 00:00:00.47
# Mc/sec: 2413.04
//
Query:       PHY93_15315|PHY93_15315  [L=461]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.018   14.6   1.0      0.026   14.0   1.0    1.2  1  PIEZO     Piezo


Domain annotation for each model (and alignments):
>> PIEZO  Piezo
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   1.0   1.5e-06     0.026     114     185 ..     250     323 ..     209     358 .. 0.68

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.5e-06
                    PIEZO 114 qlkrqmerikakqqkikkgkkeseeee.lakeeeee...eeeaeeekkksekkkwwrPwvdhasvvrsgdYylFes 185
                              ++k+ ++r+  +++ + ++k+e+++++ l +++ee+   e+e+++++++s++ +  +P  d++s +++gdY++F s
  PHY93_15315|PHY93_15315 250 KVKETLNRLELNKK-LAEAKNEADKQDiLRRQREEDerlEREKQASNDRSNSGTVNQPAADNSS-INKGDYVVFGS 323
                              34555666655544.555556666666444333333467788888888999999****988765.789******86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (461 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1192  (0.0664845); expected 358.6 (0.02)
Passed bias filter:                      484  (0.0269954); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.65u 0.28s 00:00:00.93 Elapsed: 00:00:00.49
# Mc/sec: 2842.03
//
Query:       PHY93_15320|PHY93_15320  [L=431]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (431 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       498  (0.0277762); expected 358.6 (0.02)
Passed bias filter:                      315  (0.0175693); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.58u 0.25s 00:00:00.83 Elapsed: 00:00:00.47
# Mc/sec: 2784.97
//
Query:       PHY93_15325|PHY93_15325  [L=246]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (246 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       405  (0.0225891); expected 358.6 (0.02)
Passed bias filter:                      353  (0.0196888); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1602.97
//
Query:       PHY93_15330|PHY93_15330  [L=231]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.9e-35  121.1   0.8      3e-35  120.5   0.8    1.3  1  Pirin      Pirin
      2e-12   47.1   0.0    1.6e-11   44.2   0.0    2.0  2  Pirin_C_2  Quercetinase C-terminal cupin domain
    4.1e-05   23.2   0.1    0.00039   20.1   0.1    2.1  2  Cupin_2    Cupin domain


Domain annotation for each model (and alignments):
>> Pirin  Pirin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  120.5   0.8     5e-39     3e-35       5     108 .]       6     118 ..       2     118 .. 0.94

  Alignments for each domain:
  == domain 1  score: 120.5 bits;  conditional E-value: 5e-39
                              CCGTCC...TTCCEECTCEECCEEESS.S.ETT.....EEEE..T-EEEEEEEBSEEEEEEEECSEEEEEETTS-EEEEETT-EEE CS
                    Pirin   5 rralgk..aaelqsvdpFlfldefdpaelevge.....edvi..gagfpphphrgletvtylleGevehrDslGnkgvirpGdvqw 81 
                              ++++g+   ++l+s+++F+f +++dp+   + +     ed+i  ++gf++hphr++e++ty+++Ge++h+Ds+Gn g i+pG++q+
  PHY93_15330|PHY93_15330   6 SEERGHnvISWLNSWHSFSFGQYYDPKWQGFHQllvinEDYIapSMGFGTHPHRDMEILTYVISGELKHQDSMGNLGIIKPGEIQV 91 
                              4555556689******************999999*********99***************************************** PP

                              EE-TT-EEEEEEE-SSSS-EEEEEEEE CS
                    Pirin  82 mtAgsGivhsEmneeeeesleglqlWv 108
                              m+Ag+Gi+hsE+n+++   +++lq+Wv
  PHY93_15330|PHY93_15330  92 MSAGTGITHSEHNNKNVDLTHLLQIWV 118
                              **************************8 PP

>> Pirin_C_2  Quercetinase C-terminal cupin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   0.0     0.099   5.9e+02      44      70 ..      66     105 ..      54     116 .. 0.75
   2 !   44.2   0.0   2.7e-15   1.6e-11       2      85 ..     146     231 .]     145     231 .] 0.90

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.099
                Pirin_C_2  44 qvieGevevng.............eslaagDGlaiedess 70 
                               vi+Ge++ ++             + ++ag G++ ++ ++
  PHY93_15330|PHY93_15330  66 YVISGELKHQDsmgnlgiikpgeiQVMSAGTGITHSEHNN 105
                              5899999999877777777777777777888888777665 PP

  == domain 2  score: 44.2 bits;  conditional E-value: 2.7e-15
                Pirin_C_2   2 vaSpdgrd.gslkinQdarlyaakldegesleyelaagrkaYlqvieGevevngeslaagDGlaiedesslslt.aeedaevLlfD 85 
                              +a+p +++   +++n++a++++++ d+ ++++y+     ++++q+++G+++vng+s + gD++a++ +++ +++ +++ ae+L+++
  PHY93_15330|PHY93_15330 146 IAAPFKEEtAGVSLNANAKFWLGRYDQASQITYKPTLFTHYWIQIVKGAISVNGKSYNFGDAVAFDASEESRIEiGDKGAEFLIIE 231
                              56665555167*************************999**********************************955667****997 PP

>> Cupin_2  Cupin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.1   0.1   6.6e-08   0.00039       5      64 ..      47     109 ..      45     117 .. 0.85
   2 ?    0.6   0.0      0.08   4.8e+02      41      68 ..     202     228 ..     190     231 .] 0.68

  Alignments for each domain:
  == domain 1  score: 20.1 bits;  conditional E-value: 6.6e-08
                              EETTEEEEEECSSSEEEEEEEEESEEEEE.ECTEEEEEETTEEEEE-TT..-EEEEEE-SSS- CS
                  Cupin_2   5 lppGesapshrHpgedeffyVleGegelt.vdgeeveleaGdsvyfpag..tpHrfrNtgdep 64 
                              ++p   ++ h H++ + + yV++Ge++ +   g+  ++++G++ +  ag    H  +N+ + +
  PHY93_15330|PHY93_15330  47 IAPSMGFGTHPHRDMEILTYVISGELKHQdSMGNLGIIKPGEIQVMSAGtgITHSEHNNKNVD 109
                              567668899********************888****************966777778777654 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.08
                              EETTEEEEE-TT-EEEEEE-SSS-EEEE CS
                  Cupin_2  41 leaGdsvyfpagtpHrfrNtgdeparll 68 
                              ++ Gd+v f+a ++ r++  gd+ a++l
  PHY93_15330|PHY93_15330 202 YNFGDAVAFDASEESRIE-IGDKGAEFL 228
                              56799**99999887774.366666666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (231 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       303  (0.0169); expected 358.6 (0.02)
Passed bias filter:                      285  (0.015896); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.24s 00:00:00.72 Elapsed: 00:00:00.44
# Mc/sec: 1592.45
//
Query:       PHY93_15335|PHY93_15335  [L=377]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      8e-22   77.9   0.0    1.9e-21   76.7   0.0    1.6  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    7.2e-09   35.6   1.1    7.2e-09   35.6   1.1    2.1  2  HisKA        His Kinase A (phospho-acceptor) domain
    9.3e-05   23.1   1.4    0.00028   21.5   1.4    1.8  1  RsbRD_N      RsbT co-antagonist protein rsbRD N-terminal doma
    9.7e-05   22.2   0.2    0.00031   20.6   0.0    1.9  2  HATPase_c_5  GHKL domain


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.7   0.0   4.2e-25   1.9e-21       4     110 ..     254     359 ..     252     361 .. 0.96

  Alignments for each domain:
  == domain 1  score: 76.7 bits;  conditional E-value: 4.2e-25
                              HHHHHHHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHHHHHTT CS
                HATPase_c   4 krLrqiisnlvdNavkfatkageieveikaseddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkklvelmg 89 
                              k+L+++i nl  Na+k+ + +++i+++++ s+d++ +sv + G  ip ed++ lf++f +  +++ ++ g GlGl+iv+++++ ++
  PHY93_15335|PHY93_15335 254 KGLKRLIENLAINAIKYGSADTDITITLDNSSDEIILSVHNEGSSIPLEDQEALFDRFRR-PYYTEEKTGWGLGLTIVQAMARAHN 338
                              789**************88999*******8779***************************.************************* PP

                              TEEEEEEETTTEEEEEEEEES CS
                HATPase_c  90 GeiwvesepgrGttftftlpl 110
                              G+++ves +g+Gttf +++p+
  PHY93_15335|PHY93_15335 339 GSVEVESLEGEGTTFSVKFPK 359
                              *****************9986 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.1       1.4   6.1e+03      38      43 ..      14      19 ..       4      55 .. 0.53
   2 !   35.6   1.1   1.6e-12   7.2e-09       2      67 .]     146     208 ..     145     208 .. 0.94

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 1.4
                             HHHHHH CS
                    HisKA 38 keylet 43
                             ++ l++
  PHY93_15335|PHY93_15335 14 EKILDR 19
                             333333 PP

  == domain 2  score: 35.6 bits;  conditional E-value: 1.6e-12
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHC..T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH CS
                    HisKA   2 lgrflagvaHELrtPLsailgnaeaLkregklteelkeyletiesearrldhlvedlLdlsrieag 67 
                              +++++ ++aH+Lr P++a +  a+ L+r      + +e  ++i ++ +rld +++dlLd +r+ ag
  PHY93_15335|PHY93_15335 146 QQELIHTLAHDLRGPVTAAKIIAQQLQR---KLINEEEIAKRITKNMDRLDLMIQDLLDVGRLKAG 208
                              5799************************...4688899************************9886 PP

>> RsbRD_N  RsbT co-antagonist protein rsbRD N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   1.4   6.2e-08   0.00028       4     103 ..       8     109 ..       6     110 .. 0.77

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 6.2e-08
                  RsbRD_N   4 lLrekkeailekWleevlatypiesag..llseaelreqlrelldallaalaseqldleseeeeelrealdelsrsRarq.gftps 86 
                               Lre++e+il++W +++ a+ +  +++  ll ++el eql  + +al++++a ++    + + +e +++ + ++++Ra q  +t  
  PHY93_15335|PHY93_15335   8 RLRENSEKILDRWEKRAKAEIKAATNQdtLLLRNELPEQLLHIANALTTTIARTDI-RVRWDLNEAHRLGKLHGQTRAGQaSYTID 92 
                              69***********9988888765443335666677777777777777777776665.45667778889999999***976379*** PP

                  RsbRD_N  87 etasfvfaLKealfevl 103
                              + + +++ L++++ +v+
  PHY93_15335|PHY93_15335  93 QLIFEYHILRQVICDVM 109
                              *************9987 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.1       1.5   6.8e+03      25      41 ..     116     133 ..     107     153 .. 0.63
   2 !   20.6   0.0   6.8e-08   0.00031      13      91 ..     259     347 ..     254     357 .. 0.79

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 1.5
              HATPase_c_5  25 ee.ekrfIrltvrekkks 41 
                              ++ e+++I++t++++ ++
  PHY93_15335|PHY93_15335 116 SDiEREIITCTIEQSVND 133
                              444566677777666554 PP

  == domain 2  score: 20.6 bits;  conditional E-value: 6.8e-08
              HATPase_c_5  13 lLdN.AieacskieeekrfIrltvrekkksliisieNsyeg.....ek...kkle..sskskkeehGiGlksireivkkykgnlsi 87 
                              l++N Ai+a +  + ++  I++t+ ++++ +i+s++N+ ++     ++   ++++    +++k   G+Gl+ ++ +++ ++g++++
  PHY93_15335|PHY93_15335 259 LIENlAINAIKYGS-ADTDITITLDNSSDEIILSVHNEGSSipledQEalfDRFRrpYYTEEKTGWGLGLTIVQAMARAHNGSVEV 343
                              67777888888888.5999*******************77766665334565554556688999********************98 PP

              HATPase_c_5  88 eaed 91 
                              e  +
  PHY93_15335|PHY93_15335 344 ESLE 347
                              7644 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (377 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       904  (0.0504211); expected 358.6 (0.02)
Passed bias filter:                      511  (0.0285013); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.62u 0.24s 00:00:00.86 Elapsed: 00:00:00.47
# Mc/sec: 2407.83
//
Query:       PHY93_15340|PHY93_15340  [L=155]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.3e-09   35.9   4.8    8.5e-09   35.2   4.8    1.4  1  zf-dskA_traR  Prokaryotic dksA/traR C4-type zinc finger
  ------ inclusion threshold ------
       0.28   11.0   1.2       0.63    9.9   0.0    2.2  3  zf_C2HC_14    C2HC Zing finger domain


Domain annotation for each model (and alignments):
>> zf-dskA_traR  Prokaryotic dksA/traR C4-type zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.2   4.8   9.5e-13   8.5e-09       1      33 [.      75     107 ..      75     110 .. 0.95

  Alignments for each domain:
  == domain 1  score: 35.2 bits;  conditional E-value: 9.5e-13
             zf-dskA_traR   1 giygsCeeCGEpIpeaRlralPgarlCveCqek 33 
                              g++g+C+eC   I  +Rlra+P a+ C++C+e+
  PHY93_15340|PHY93_15340  75 GTFGTCDECDGQIEINRLRARPVATQCIACKEE 107
                              79****************************997 PP

>> zf_C2HC_14  C2HC Zing finger domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.0     7e-05      0.63       3      21 ..      76      94 ..      74      94 .. 0.92
   2 ?   -2.9   0.3      0.67     6e+03       5      12 ..      99     106 ..      97     107 .. 0.71
   3 ?   -1.9   0.0      0.34   3.1e+03      16      23 ..     116     123 ..     115     123 .. 0.82

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 7e-05
               zf_C2HC_14  3 tegnCkgCekqVcLSkMRa 21
                             t+g+C +C+ q+ + + Ra
  PHY93_15340|PHY93_15340 76 TFGTCDECDGQIEINRLRA 94
                             79***********999996 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 0.67
               zf_C2HC_14   5 gnCkgCek 12 
                              ++C  C++
  PHY93_15340|PHY93_15340  99 TQCIACKE 106
                              57888876 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 0.34
               zf_C2HC_14  16 LSkMRaHi 23 
                              L++ R+H+
  PHY93_15340|PHY93_15340 116 LYEKRSHT 123
                              7888***7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (155 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       558  (0.0311228); expected 358.6 (0.02)
Passed bias filter:                      427  (0.0238162); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.26s 00:00:00.74 Elapsed: 00:00:00.46
# Mc/sec: 1013.34
//
Query:       PHY93_15345|PHY93_15345  [L=149]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.012   15.8   0.0      0.088   12.9   0.0    2.1  2  Coatomer_g_Cpla  Coatomer subunit gamma-1 C-terminal appendag


Domain annotation for each model (and alignments):
>> Coatomer_g_Cpla  Coatomer subunit gamma-1 C-terminal appendage platform
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.0     0.043   7.8e+02      77      99 ..      29      51 ..      19      59 .. 0.77
   2 ?   12.9   0.0   4.9e-06     0.088      37      84 ..      95     141 ..      77     147 .. 0.84

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.043
                             S-EEEEEEEEEE..SS.EEEEEE CS
          Coatomer_g_Cpla 77 gekvlvrarlalssskgvtlklt 99
                              + +l  a+++++s + +++++ 
  PHY93_15345|PHY93_15345 29 SQSILTIAEFMIDSAEDMAIQVR 51
                             56889999999999887777765 PP

  == domain 2  score: 12.9 bits;  conditional E-value: 4.9e-06
                              HHHHHHHHHHHHT-EE-TTTT---SS-SEEEEEEEEEETTS-..EEEEEE CS
          Coatomer_g_Cpla  37 leeavdkliellgmqplegsdkvpenassHtLklaGkfvgge..kvlvra 84 
                              +eea + li++lg  pl++ d  ++n +   +klaG+++ ++  +v v++
  PHY93_15345|PHY93_15345  95 VEEALSDLIDYLGTTPLKKCDIFQSNDR---MKLAGVYIFDSsnQVHVKV 141
                              69*******************8887766...8*******96645777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (149 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       705  (0.0393218); expected 358.6 (0.02)
Passed bias filter:                      471  (0.0262703); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 1005.90
//
Query:       PHY93_17160|PHY93_17160  [L=376]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.4e-28   98.0   0.0      7e-28   97.3   0.0    1.3  1  Glycos_transf_1  Glycosyl transferases group 1
    3.8e-22   79.2   0.0    7.3e-22   78.2   0.0    1.4  1  Glyco_trans_1_4  Glycosyl transferases group 1
    2.5e-13   50.4   0.0    3.9e-13   49.8   0.0    1.3  1  Glyco_transf_4   Glycosyltransferase Family 4
      3e-06   27.5   0.0    4.4e-05   23.8   0.0    2.3  2  Glyco_trans_1_2  Glycosyl transferases group 1
    0.00016   22.1   0.0    0.00029   21.3   0.0    1.4  1  Glyco_trans_4_4  Glycosyl transferase 4-like domain


Domain annotation for each model (and alignments):
>> Glycos_transf_1  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   97.3   0.0     2e-31     7e-28       6     170 ..     193     350 ..     188     357 .. 0.89

  Alignments for each domain:
  == domain 1  score: 97.3 bits;  conditional E-value: 2e-31
                              HHHTTTTTT-EEEEEESS-TTTTTHHHHHHHHHCCCCCHCSCEEEEEES.STTHHHHHHHHHHHCTTCGGGEEECCHSSSHHHHHH CS
          Glycos_transf_1   6 rkklgknekkkiilsvgrlekeKgvdllikafallkkqlnpnvklviaGngeeekelkklaeelelsdnviflgevsredleellk 91 
                              + + ++n++   ++++grl++eKg+  +++ + ++ +  ++++ l + G+g e+  ++k + e++ls +v ++g+v   d   ++ 
  PHY93_17160|PHY93_17160 193 STQVQLNNNIIKLIYIGRLSPEKGLLPFLECLSKFHA--KDRFFLMVLGDGVERPLVEKFILEHNLSSQVAIHGFVT--DPSDFFI 274
                              5677788888999**********************86..6************************************9..******* PP

                              CESEEEEEESSBSS-HHHHHHHHTT--EEEETTTTHCHHCHTTTSEEEE-TT-HHHHHHHHHHHHHSHHHHHHHHHHHH CS
          Glycos_transf_1  92 nadifvlpsisEgfGivllEAmaaglpviasnaggpaevvkdgetGllvkpnnaealaeairklledeelrerlgenar 170
                              + di+++ps++Eg++++l+EA+a+g+pvia n+g ++ ++++g++G+l   +++e++ + ++  +e+   ++++++na+
  PHY93_17160|PHY93_17160 275 SPDILIMPSQREGLPMTLIEALASGVPVIANNVGAISSLITHGHNGFLAVDHSIESWDKVLDTSIES---YKDWKQNAT 350
                              ***************************************************9666666555555555...466666654 PP

>> Glyco_trans_1_4  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.2   0.0     2e-25   7.3e-22       3     124 ..     204     331 ..     203     340 .. 0.88

  Alignments for each domain:
  == domain 1  score: 78.2 bits;  conditional E-value: 2e-25
                              EEEEES---GG.GTHHHHHHHHHHHH.HH.EEEEEES---...HHHHHHHT..T-T.TEEEE---THHHHHHHH-SEEEE--..-- CS
          Glyco_trans_1_4   3 vilfvGrleenvkgvdllleavpllrkkd.vrlvivGdgp.rpeeleelaa..gleerveftGfvedlaellaaadvfvaPs..eg 82 
                              +++++Grl+ ++kg+  +le + + ++kd + l++ Gdg  rp  +e+ +   +l+++v ++Gfv+d ++++ + d++++Ps  eg
  PHY93_17160|PHY93_17160 204 KLIYIGRLS-PEKGLLPFLECLSKFHAKDrFFLMVLGDGVeRP-LVEKFILehNLSSQVAIHGFVTDPSDFFISPDILIMPSqrEG 287
                              689*****5.56**************99669*******98555.6666553479999**************************99* PP

                              -SHHHHHHHHTT-EEEE-TGGGTTT--..TTSSEE--TT-HHHH CS
          Glyco_trans_1_4  83 fglkllEamaaglpvVatdvggiaevv..gengllvppgdpeal 124
                              ++++l+Ea+a+g+pv+a +vg+i+ ++  g ng+l+ +++ e++
  PHY93_17160|PHY93_17160 288 LPMTLIEALASGVPVIANNVGAISSLIthGHNGFLAVDHSIESW 331
                              ********************99***99*******9986666655 PP

>> Glyco_transf_4  Glycosyltransferase Family 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.8   0.0   1.1e-16   3.9e-13       3     166 ..      25     180 ..      23     184 .. 0.85

  Alignments for each domain:
  == domain 1  score: 49.8 bits;  conditional E-value: 1.1e-16
           Glyco_transf_4   3 GverhvleLaraLarrGheVtvv.tpgddgpleeev.elvvrvprvplpllkrllrslaflrrlrrllkrekpDvv.Hahspaalg 85 
                              G+e +vl+ ++aL ++G +  ++   +++ p+  ++ + v      ++ ++    +++  + +l+ +lk+e+  +v H+h++ +l+
  PHY93_17160|PHY93_17160  25 GAEKVVLTGINALYELGLNPLMIiIKETRAPHFANEfKKVLPEYIENITIDSTKALDIKLPYKLKDVLKNERLPIVlHSHGFKSLI 110
                              9999999999*******9988776444444444444578888889999999999******************************** PP

           Glyco_transf_4  86 aallalrrrlgiplVltvHglyekrllkarlkplsrllralerrllrradrviavSeatadelrerygvppekitVipnGv 166
                               +++      ++p+ +t Hg          + ++ r+++++   +++ + +viavS+++ del++ +  p +ki Vi n  
  PHY93_17160|PHY93_17160 111 TCYIIK---GKCPHLHTHHGNT-------AHTFKVRIYEKIAMMTMKTCSQVIAVSNKMNDELKT-MLSPYKKIMVIENML 180
                              998755...59***********.......56777777777777789*******************.66699******9965 PP

>> Glyco_trans_1_2  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.0      0.16   5.7e+02      23      52 ..     152     182 ..     122     192 .. 0.76
   2 !   23.8   0.0   1.2e-08   4.4e-05       3      84 ..     280     363 ..     278     374 .. 0.89

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.16
          Glyco_trans_1_2  23 afaltdda.egleelftpgkevilfedleel 52 
                              ++a++++  ++l  +++p k+++++e++ +l
  PHY93_17160|PHY93_17160 152 VIAVSNKMnDELKTMLSPYKKIMVIENMLSL 182
                              556666558999999********99976544 PP

  == domain 2  score: 23.8 bits;  conditional E-value: 1.2e-08
          Glyco_trans_1_2   3 LnpsrsespnlrlfEaaacGafaltddaegleelftpgkevilfe..dleelaekiryllanpeerraiaeaarervlaehtyd 84 
                              + ps++e++ + l Ea+a+G++++++   ++  l+t g+ ++l+   + e++ + ++  +++ +++++ a+   e ++a+++ +
  PHY93_17160|PHY93_17160 280 IMPSQREGLPMTLIEALASGVPVIANNVGAISSLITHGHNGFLAVdhSIESWDKVLDTSIESYKDWKQNATLEAEAIEARFSTK 363
                              569999*********************************99998889******************************9999654 PP

>> Glyco_trans_4_4  Glycosyl transferase 4-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.0   8.1e-08   0.00029      61     159 ..      86     178 ..      66     179 .. 0.88

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 8.1e-08
          Glyco_trans_4_4  61 ralrrllrqrrerpdvvhahsptaglaarlarrrrgiplvvtlhglllrrgsgavrrlyralerrllrradavlvvseaeaeelra 146
                                l+++l   ++ p v+h+h++++ + + +++   + p+++t hg++     +++ r+y  + + +++ + +v++vs+ + +el  
  PHY93_17160|PHY93_17160  86 YKLKDVL-KNERLPIVLHSHGFKSLITCYIIK--GKCPHLHTHHGNTA---HTFKVRIYEKIAMMTMKTCSQVIAVSNKMNDELKT 165
                              5566676.455668899**************9..59********9865...489******************************** PP

          Glyco_trans_4_4 147 lgvpadrvvvvpn 159
                              +  p  ++ v+ n
  PHY93_17160|PHY93_17160 166 MLSPYKKIMVIEN 178
                              ********99987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (376 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       757  (0.0422221); expected 358.6 (0.02)
Passed bias filter:                      437  (0.0243739); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.62u 0.24s 00:00:00.86 Elapsed: 00:00:00.48
# Mc/sec: 2359.17
//
Query:       PHY93_15350|PHY93_15350  [L=57]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (57 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       449  (0.0250432); expected 358.6 (0.02)
Passed bias filter:                      353  (0.0196888); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.24s 00:00:00.64 Elapsed: 00:00:00.43
# Mc/sec: 401.71
//
Query:       PHY93_15355|PHY93_15355  [L=140]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.2e-20   72.9   2.6    3.2e-20   72.3   0.9    1.8  2  FliG_C    FliG C-terminal domain
  ------ inclusion threshold ------
       0.11   12.7   0.0        5.3    7.3   0.0    2.5  2  HTH_17    Helix-turn-helix domain


Domain annotation for each model (and alignments):
>> FliG_C  FliG C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    3.7   0.1    0.0074        67      45      67 ..      11      33 ..       7      36 .. 0.76
   2 !   72.3   0.9   3.6e-24   3.2e-20       3     108 .]      29     133 ..      27     133 .. 0.95

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.0074
                             HHHHCTS-HHHHHHHHTTS-HHH CS
                   FliG_C 45 alaLkgaseelrekilsnmSkra 67
                             a  L+g s+  rekil+ +Sk+ 
  PHY93_15355|PHY93_15355 11 AKMLAGLSRSAREKILDIISKKD 33
                             56788888888999998888875 PP

  == domain 2  score: 72.3 bits;  conditional E-value: 3.6e-24
                              HHHH-HHHHHHHHHHHS-GGGGGGS-HHHHHHHHTTS-HHHHHHHHCTS-HHHHHHHHTTS-HHHHHHHHHHHHHC-S--HHHHHH CS
                   FliG_C   3 LeeedpelaeeirkkmftfedlvrlddraiqrllrevdkedLalaLkgaseelrekilsnmSkraaemlreelealgpvrlsdvee 88 
                              ++++dp +ae++ k m+tfedl+ l++  + +llre++  d+ laL+ +s+el+++il+n ++ ++++++e +    p   s+ve+
  PHY93_15355|PHY93_15355  29 ISKKDPRMAEALHKSMYTFEDLQFLTPMMLIELLREIKIPDMGLALRISSNELKDFILKNSPRGMRQEMEEIMTG-PPQLASKVED 113
                              789*****************************************************************9998885.588899**** PP

                              HHHHHHHHHHHHHCTTSS-B CS
                   FliG_C  89 aqkeivaiirrleeeGeIel 108
                              aq++i++++r   ++G++ +
  PHY93_15355|PHY93_15355 114 AQERIMTVVRSKLDRGQLII 133
                              ****************9876 PP

>> HTH_17  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.8   0.0     0.015   1.3e+02       4      16 ..       7      20 ..       6      26 .. 0.81
   2 ?    7.3   0.0   0.00059       5.3      18      50 ..      58      88 ..      53      89 .. 0.85

  Alignments for each domain:
  == domain 1  score: 2.8 bits;  conditional E-value: 0.015
                   HTH_17  4 veEaAelLg.vsrs 16
                             v+EaA++L  +srs
  PHY93_15355|PHY93_15355  7 VKEAAKMLAgLSRS 20
                             89***999646765 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.00059
                   HTH_17 18 vyrlirrgelpaak.iGrrwriprsdleewlekr 50
                             + +l+r+ ++p ++     +ri+ ++l +++ k+
  PHY93_15355|PHY93_15355 58 LIELLREIKIPDMGlA---LRISSNELKDFILKN 88
                             5678999999999744...************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (140 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       489  (0.0272742); expected 358.6 (0.02)
Passed bias filter:                      361  (0.020135); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 981.78
//
Query:       PHY93_15360|PHY93_15360  [L=63]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (63 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       485  (0.0270511); expected 358.6 (0.02)
Passed bias filter:                      387  (0.0215851); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.44
# Mc/sec: 426.17
//
Query:       PHY93_15365|PHY93_15365  [L=68]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (68 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                        87  (0.00485247); expected 358.6 (0.02)
Passed bias filter:                       80  (0.00446204); expected 358.6 (0.02)
Passed Vit filter:                         3  (0.000167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.37u 0.26s 00:00:00.63 Elapsed: 00:00:00.42
# Mc/sec: 487.57
//
Query:       PHY93_15370|PHY93_15370  [L=216]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
     0.0005   19.9   0.2     0.0037   17.1   0.2    2.1  1  Peptidase_M48  Peptidase family M48
  ------ inclusion threshold ------
      0.092   12.4   0.1       0.13   11.9   0.1    1.2  1  Reprolysin_4   Metallo-peptidase family M12B Reprolysin-like


Domain annotation for each model (and alignments):
>> Peptidase_M48  Peptidase family M48
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.2   4.1e-07    0.0037      31      85 ..       6      61 ..       3     170 .. 0.78

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 4.1e-07
                             -GGGT-EEEEESSS-EEEEEEHHHH.-SSB-HHHHHHHHHHHHHHHHTTHHHHHHH CS
                             xxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48 31 nspkrNAFalgggknkrivltdgLl.kqllseeelaaVlGHElGHikhrhsvvsli 85
                             +++++NA+a   g + ++ ++ gL  +  ++++  + V  HE+GH+  +  ++s +
  PHY93_15370|PHY93_15370  6 DDETVNAYANRTGSTWHVNMFGGLArHPEVTDDGFLLVVCHETGHHLGGAPRFSGS 61
                             56788********888********9445799***************9998877743 PP

>> Reprolysin_4  Metallo-peptidase family M12B Reprolysin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.1   1.4e-05      0.13     123     201 ..      24     112 ..       4     114 .. 0.63

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 1.4e-05
             Reprolysin_4 123 nkkasgvaas...rdey.difAHEiGHtfGaaHdlsdegegl..sskteegsgqt..IMs..yaseasqeafapisirliavsics 198
                              n+ ++ ++      d++  ++ HE GH++G a   s ++ g+    + + + + +   M    a++++q  +a+++i+  a s c+
  PHY93_15370|PHY93_15370  24 NMFGGLARHPevtDDGFlLVVCHETGHHLGGAPRFSGSAGGAwaANEGQADYFGSlkCMKrvLANDDNQAIVAQMTIDPEAKSKCE 109
                              55443333334545688566***********9999877666632222244444431246522467888888888888888888888 PP

             Reprolysin_4 199 qln 201
                              +++
  PHY93_15370|PHY93_15370 110 MVY 112
                              776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (216 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       347  (0.0193541); expected 358.6 (0.02)
Passed bias filter:                      302  (0.0168442); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.27s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 1488.24
//
Query:       PHY93_15375|PHY93_15375  [L=152]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    0.00075   19.9   0.1     0.0011   19.3   0.1    1.3  1  Copper-bind  Copper binding proteins, plastocyanin/azurin fam


Domain annotation for each model (and alignments):
>> Copper-bind  Copper binding proteins, plastocyanin/azurin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.3   0.1   6.4e-08    0.0011      13      88 ..      41     116 ..      30     120 .. 0.84

  Alignments for each domain:
  == domain 1  score: 19.3 bits;  conditional E-value: 6.4e-08
                              EEESSEEEEETTEEEEEEEESSSSBEEEEETTSSTTTGGGTTSCTTCEEEEBSTTEEEEEEEESSEEEEEEETTTT CS
              Copper-bind  13 qFetkeitvkkgekvtfvnlavmgHNvvldkdgvpagvdkdkvkaedetkliggGekdsvtfdeagtYkffCsPHa 88 
                              +F + ++++k+g++v+++n +   H vv d    + g+ k +  ++  ++  g     + tf+++g + ++C  H+
  PHY93_15375|PHY93_15375  41 KFIPFAMQIKAGDTVQWTNGDTDDHTVVSDDAFTSPGFGKMNALISGTDHNGGHPGVLKKTFNHPGIFVYYCRFHS 116
                              79999**************************888888877777666555556666778899***********9887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (152 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       300  (0.0167327); expected 358.6 (0.02)
Passed bias filter:                      270  (0.0150594); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 1056.93
//
Query:       PHY93_15380|PHY93_15380  [L=95]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.2e-07   30.3   0.0    5.5e-07   29.5   0.0    1.4  2  HTH_3     Helix-turn-helix
  ------ inclusion threshold ------
      0.014   15.4   0.0      0.028   14.4   0.0    1.5  1  HTH_19    Helix-turn-helix domain


Domain annotation for each model (and alignments):
>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.5   0.0   6.2e-11   5.5e-07       1      55 []      11      68 ..      11      68 .. 0.96
   2 ?   -3.6   0.0       1.4   1.2e+04      44      51 ..      80      87 ..      79      89 .. 0.65

  Alignments for each domain:
  == domain 1  score: 29.5 bits;  conditional E-value: 6.2e-11
                             HHHHHH..HTTHHHHHHHHHHT.SSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHHHH CS
                    HTH_3  1 lkelRk..qlglsqeeLAeklG.vsrstisriEnGernPsletlkklakaLgvsldel 55
                             ++ +R    ++++q +L+ +lG    + is+ E+G  +  l+++kk++++L++sldel
  PHY93_15380|PHY93_15380 11 IRTKRIghPQDYTQSDLSLLLGyKNGQFISNVERGMCCVPLKMMKKISEVLDISLDEL 68
                             678888889***********************************************98 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 1.4
                             HHHHHTSE CS
                    HTH_3 44 lakaLgvs 51
                             l ++L+ s
  PHY93_15380|PHY93_15380 80 LINYLNKS 87
                             56777776 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0   3.1e-06     0.028      13      59 ..      22      68 ..      21      71 .. 0.90

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 3.1e-06
                   HTH_19 13 ltqeelaerlgis.rskisaiEngkkdvpsaelllkiaealgidleyl 59
                             +tq +l+  lg     +is+ E g     + ++++ki+e l+i+l++l
  PHY93_15380|PHY93_15380 22 YTQSDLSLLLGYKnGQFISNVERGMC-CVPLKMMKKISEVLDISLDEL 68
                             699*********99**********66.4557**************998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (95 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       568  (0.0316805); expected 358.6 (0.02)
Passed bias filter:                      397  (0.0221429); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.45
# Mc/sec: 635.22
//
Query:       PHY93_15385|PHY93_15385  [L=245]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.4e-34  116.3   0.0    1.5e-33  115.7   0.0    1.3  1  Lysine_decarbox  Possible lysine decarboxylase
    1.3e-20   73.6   0.0    1.7e-20   73.2   0.0    1.1  1  LDcluster4       SLOG cluster4 family
     0.0028   16.9   0.0     0.0046   16.2   0.0    1.3  1  DNA_processg_A   DNA recombination-mediator protein A
  ------ inclusion threshold ------
      0.091   13.2   0.0       0.19   12.1   0.0    1.5  1  Imm63            Immunity protein 63


Domain annotation for each model (and alignments):
>> Lysine_decarbox  Possible lysine decarboxylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  115.7   0.0   3.4e-37   1.5e-33       1     130 [.      88     216 ..      88     218 .. 0.97

  Alignments for each domain:
  == domain 1  score: 115.7 bits;  conditional E-value: 3.4e-37
                              HHHHHHHHHHTTS-EEEEEECCHHH.HHCCTTT-SEEEEESSHHHHHHHHHHHESEEEE-S-SHHHHHHHHHHHHHHHTTSS-S.E CS
          Lysine_decarbox   1 meavakgaleaggrviGiipkilla.eeapneevnelvivedmeeRkealveladafvilPGGiGTleElleiltliqlgkhqkvP 85 
                              mea+++ga eaggr+iG   +i+l+ e+ pn++++  v++++++ Rk +l++++ af+++PGG+GTl+E++ei tliq+gk + +P
  PHY93_15385|PHY93_15385  88 MEAANRGAKEAGGRSIGC--NIILPkEQTPNPYLDLWVEFRYFFVRKVMLAKYSYAFIVMPGGFGTLDEFFEIATLIQTGKIKGFP 171
                              9*****************..9999989999******************************************************** PP

                              EEEEEGGGCCHHHHHHHH.HHHHTTSS-GGGGGCEEEESSHHHHHH CS
          Lysine_decarbox  86 iillnpkgyydkllefle.tlveegtisekareliivvddpeevle 130
                              i+l++ k+y++ ll+fl   +  +g i+ +++e ++++dd++e+le
  PHY93_15385|PHY93_15385 172 IVLVG-KEYWQGLLAFLTdPVFATGSIALTDLESLKLTDDADEALE 216
                              *****.66*********97899*********************987 PP

>> LDcluster4  SLOG cluster4 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.2   0.0   3.8e-24   1.7e-20       3     114 ..      46     156 ..      44     174 .. 0.92

  Alignments for each domain:
  == domain 1  score: 73.2 bits;  conditional E-value: 3.8e-24
               LDcluster4   3 kigVmGsaeteakeealelaeelGrliAkegavlltGgrtGvmeaaskGakeagGltvGilpassekehsnkyvdiiiyTGlglag 88 
                               i+V+Gsa+ e k+  + la+++G  iAk+g++++tGg +G+meaa +GakeagG ++G      ++++ n+y+d+ +     +  
  PHY93_15385|PHY93_15385  46 CITVFGSARFEEKHPYYLLAQQIGANIAKRGFTVITGGGPGLMEAANRGAKEAGGRSIGCNIILPKEQTPNPYLDLWVEFRYFFV- 130
                              599******776666788*****************************************9888888999*********9988888. PP

               LDcluster4  89 RnlilvlssdvviaiggrsGTlsEia 114
                              R ++l++ s + i+++g+ GTl E+ 
  PHY93_15385|PHY93_15385 131 RKVMLAKYSYAFIVMPGGFGTLDEFF 156
                              ***********************984 PP

>> DNA_processg_A  DNA recombination-mediator protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0     1e-06    0.0046      42     100 ..      44     104 ..      30     114 .. 0.80

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 1e-06
           DNA_processg_A  42 kravaiVGtRkaseygke..vakklakelaeagitivSGlAlGiDaaahraaleaggktva 100
                               +++++ G+ +  e++    +a+++ +++a++g+t++ G+  G  +aa r+a eagg+ ++
  PHY93_15385|PHY93_15385  44 GPCITVFGSARFEEKHPYylLAQQIGANIAKRGFTVITGGGPGLMEAANRGAKEAGGRSIG 104
                              68888889888887775422689**********************************9986 PP

>> Imm63  Immunity protein 63
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   4.3e-05      0.19      18      45 ..     206     233 ..     203     239 .. 0.91

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 4.3e-05
                    Imm63  18 krTkdldEvlYwilediirtlalrlerk 45 
                              k T+d+dE l wi e +i++ +l++++ 
  PHY93_15385|PHY93_15385 206 KLTDDADEALEWISEAVIEKYGLKYAQV 233
                              89********************999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (245 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       335  (0.0186848); expected 358.6 (0.02)
Passed bias filter:                      317  (0.0176809); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.49u 0.23s 00:00:00.72 Elapsed: 00:00:00.43
# Mc/sec: 1712.08
//
Query:       PHY93_15390|PHY93_15390  [L=140]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    6.1e-06   26.0   2.0    6.1e-06   26.0   2.0    1.6  1  Sulf_transp  Sulphur transport
  ------ inclusion threshold ------
        1.5    8.6   6.5        0.5   10.2   2.3    2.3  2  DUF2062      Uncharacterized protein conserved in bacteria (D


Domain annotation for each model (and alignments):
>> Sulf_transp  Sulphur transport
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.0   2.0   6.8e-10   6.1e-06      28      93 ..      50     121 ..      29     138 .. 0.69

  Alignments for each domain:
  == domain 1  score: 26.0 bits;  conditional E-value: 6.8e-10
              Sulf_transp  28 aiavaavgf.......qllaaaglidlpksafpvvglivGGllFGvGMalaGgCasgtlyrvGeGslralitl 93 
                              ai+v+ v++       ++l + +++  +k+ ++  +l++G+++FGvG al+G C++ +l+ +++ ++r li +
  PHY93_15390|PHY93_15390  50 AIGVHFVTYrlirkrkFPLLHSEWLVPTKKDIT-PALMIGSFIFGVGWALGGFCPGPALTSLASFEVRPLIFV 121
                              566666666222333334445555555555665.799************************999888877764 PP

>> DUF2062  Uncharacterized protein conserved in bacteria (DUF2062)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   2.3   5.6e-05       0.5      73     132 ..      44     101 ..       4     112 .. 0.64
   2 ?   -0.4   0.1       0.1   9.4e+02     115     127 ..     118     130 ..     107     135 .. 0.77

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 5.6e-05
                  DUF2062  73 iyylayklGalllgeeaeal.....slseleelglewlleslleiglplllGslilglilallgY 132
                              i+++   +G ++       +     +  ++  l++ewl+ + ++i+++l++Gs+i+g+  al g+
  PHY93_15390|PHY93_15390  44 IFVMGGAIGVHF-------VtyrliRKRKFPLLHSEWLVPTKKDITPALMIGSFIFGVGWALGGF 101
                              333333444444.......15566644556666669*********************98887666 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 0.1
                  DUF2062 115 plllGslilglil 127
                               +++Gs+++g++l
  PHY93_15390|PHY93_15390 118 LIFVGSMLCGILL 130
                              5788999999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (140 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       393  (0.0219198); expected 358.6 (0.02)
Passed bias filter:                      233  (0.0129957); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.26s 00:00:00.74 Elapsed: 00:00:00.46
# Mc/sec: 923.78
//
Query:       PHY93_15395|PHY93_15395  [L=138]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    5.4e-07   29.5  17.1      9e-07   28.8  17.1    1.3  1  Sulf_transp  Sulphur transport
  ------ inclusion threshold ------
       0.81    9.5   7.3        0.3   10.9   3.4    2.1  3  IncD         Inclusion membrane protein D


Domain annotation for each model (and alignments):
>> Sulf_transp  Sulphur transport
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.8  17.1     1e-10     9e-07     208     308 ..      28     127 ..       2     129 .. 0.75

  Alignments for each domain:
  == domain 1  score: 28.8 bits;  conditional E-value: 1e-10
              Sulf_transp 208 ftvpgakilqylvlgtskflnwgvvlvlGiilGaflaallsgefkleapkarellaallGGllMGfGarlAgGCniGaglsgiasl 293
                               ++    i++ l++ ++    w   ++lG+i G +l  +++ +    a   ++  ++++ Gll+GfG+ ++ GC++G+g+ gi+ l
  PHY93_15395|PHY93_15395  28 RVTGICGIVNGLITPQKGDTAWRFTFILGLIGGGLLLKVIAPQVFSGAL-TTPTSTVVAAGLLVGFGTTMGSGCTSGHGVCGISRL 112
                              334456678889999999999*******************998544333.4445566788************************** PP

              Sulf_transp 294 slsgwlalvflllGa 308
                              s  +++a++  +  +
  PHY93_15395|PHY93_15395 113 SPRSIVATLIYVGAG 127
                              ******988776655 PP

>> IncD  Inclusion membrane protein D
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.1       0.2   1.8e+03      46      62 ..      13      29 ..       6      63 .. 0.64
   2 ?   10.9   3.4   3.4e-05       0.3      49      88 ..      63     103 ..      47     112 .. 0.84
   3 ?   -0.9   0.0      0.15   1.3e+03      64      79 ..     113     128 ..     105     133 .. 0.73

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.2
                     IncD 46 lavallvvagllfsgvl 62
                             + + l v   llf g +
  PHY93_15395|PHY93_15395 13 MIIGLSVSIMLLFNGRV 29
                             44455555556666543 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 3.4e-05
                     IncD  49 allvvagllfsgvlcspvs.vlaaslffgvgafllggalvg 88 
                               l v+a  +fsg l +p s v+aa l++g g+ +  g+  g
  PHY93_15395|PHY93_15395  63 LLKVIAPQVFSGALTTPTStVVAAGLLVGFGTTMGSGCTSG 103
                              46799************9757899*******9988777665 PP

  == domain 3  score: -0.9 bits;  conditional E-value: 0.15
                     IncD  64 spvsvlaaslffgvga 79 
                              sp s++a+ +++g g 
  PHY93_15395|PHY93_15395 113 SPRSIVATLIYVGAGM 128
                              7888888888877775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (138 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       465  (0.0259356); expected 358.6 (0.02)
Passed bias filter:                      221  (0.0123264); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.43
# Mc/sec: 963.19
//
Query:       PHY93_17165|PHY93_17165  [L=399]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.8e-21   77.0   0.0    2.9e-21   76.3   0.0    1.3  1  Glyco_trans_1_4  Glycosyl transferases group 1
    5.7e-08   32.5   0.0    1.4e-07   31.3   0.0    1.6  2  Glycos_transf_1  Glycosyl transferases group 1
  ------ inclusion threshold ------
      0.024   14.6   2.1        0.2   11.5   2.1    2.1  1  PS_pyruv_trans   Polysaccharide pyruvyl transferase
       0.15   12.0   0.0       0.28   11.2   0.0    1.4  1  Glyco_transf_4   Glycosyltransferase Family 4


Domain annotation for each model (and alignments):
>> Glyco_trans_1_4  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.3   0.0   6.4e-25   2.9e-21       3     105 ..     238     342 ..     236     367 .. 0.83

  Alignments for each domain:
  == domain 1  score: 76.3 bits;  conditional E-value: 6.4e-25
                              EEEEES--.-G.G.GTHHHHHHHH.HHHH.HHEEEEEES---..HHHHHHHTT-T.TEEEE---THHHHHHHH-SEEEE--...-- CS
          Glyco_trans_1_4   3 vilfvGrl.ee.nvkgvdllleav.pllrkkdvrlvivGdgprpeeleelaagleerveftGfvedlaellaaadvfvaPs...eg 82 
                              ++lf+G++ ++ n++g++++l++v p + +++++l+ivG+g+ +    el +  +++++f Gfv+dl++++a++d  ++P+    g
  PHY93_17165|PHY93_17165 238 KLLFLGKMdWApNIDGLKWFLKEVwPMVNHQKFELHIVGSGDAK-WGTELFK--APGIKFFGFVSDLEAVYANCDFSIIPIrygSG 320
                              69******7557*****************999*******99632.3333444..499************************7666* PP

                              -SHHHHHHHHTT-EEEE-TGGGT CS
          Glyco_trans_1_4  83 fglkllEamaaglpvVatdvggi 105
                              +++k++E+ + g+pvV+t++ g+
  PHY93_17165|PHY93_17165 321 TRIKVIESISKGVPVVSTKM-GV 342
                              *******************9.53 PP

>> Glycos_transf_1  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0         1   4.5e+03       3      21 ..     198     216 ..     196     217 .. 0.80
   2 !   31.3   0.0     3e-11   1.4e-07       7     134 ..     228     350 ..     223     369 .. 0.89

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 1
                              HHHHHHTTTTTT-EEEEEE CS
          Glycos_transf_1   3 ekkrkklgknekkkiilsv 21 
                              + kr+k+ +n+++k ++++
  PHY93_17165|PHY93_17165 198 DLKRFKSLLNDNDKKLIFL 216
                              6789999999999998875 PP

  == domain 2  score: 31.3 bits;  conditional E-value: 3e-11
                              HHTTTTTT-EEEEEESS-TTTTTHHHHHHHHHCCCCC.HCSCEEEEEES.STTHHHHHHHHHHHCTTCGGGEEECCHSSSHHHHHH CS
          Glycos_transf_1   7 kklgknekkkiilsvgrlekeKgvdllikafallkkq.lnpnvklviaGngeeekelkklaeelelsdnviflgevsredleellk 91 
                              kk+ k +    +l++g ++   ++d l   +++++    ++++ l+i+G+g+      k+  el     ++f+g+vs  dle+++ 
  PHY93_17165|PHY93_17165 228 KKEIKGDSTIKLLFLGKMDWAPNIDGLKWFLKEVWPMvNHQKFELHIVGSGDA-----KWGTELFKAPGIKFFGFVS--DLEAVYA 306
                              5666777888999*************9999999998889**********8887.....888889999999*******..******* PP

                              CESEEEEEESS.BSS-HHHHHHHHTT--EEEETTTTHCHHCHTT CS
          Glycos_transf_1  92 nadifvlpsis.EgfGivllEAmaaglpviasnaggpaevvkdg 134
                              n+d  ++p ++  g  i ++E+++ g+pv+++++g     ++d+
  PHY93_17165|PHY93_17165 307 NCDFSIIPIRYgSGTRIKVIESISKGVPVVSTKMGVQGSGLTDY 350
                              ***********99999*****************99876665555 PP

>> PS_pyruv_trans  Polysaccharide pyruvyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   2.1   4.5e-05       0.2       8     104 ..      23     144 ..      18     238 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 4.5e-05
                              HHHHHHHHHHTT-EEEEEESSTTT--HHHHHHHHHTS-GGGEE........................................... CS
           PS_pyruv_trans   8 lealvklLrelgpdaeiivltpdpsetkkllkvktpilkklskvllkrlrkkdi................................ 61 
                              + al+k +r+++++ +i  + +d+s++ +l+ +++  ++  +++l+k  +k++i                                
  PHY93_17165|PHY93_17165  23 NLALLKAIRSHFIEIDIMLFIEDDSDKLYLETYNSEFNPCNVYFLKKTSYKNKIkkliflglnflkssnlpvttgyfhteklkkev 108
                              689*********************************************************************************** PP

                              ..........EEE--E....EEEETT-HHHHHHHHHHHHHS-SSEEEE CS
           PS_pyruv_trans  62 .....ddaddviivGgdgtlgndgdlsrlpdalrllflakkagkpvii 104
                                    + +d+i+  g         l ++    +++ l +++++pv+ 
  PHY93_17165|PHY93_17165 109 slvltHRQYDLIVFDG---------LHPY---TAFMNLIEFKNIPVVY 144
                              *****55555555555.........2222...5555555555555543 PP

>> Glyco_transf_4  Glycosyltransferase Family 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   6.3e-05      0.28      64     109 ..     108     156 ..      73     192 .. 0.69

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 6.3e-05
           Glyco_transf_4  64 lrrllkrekpDvvHahspaalgaallalrrrlgiplVltvHglye....k 109
                              +  +l + ++D++   + ++  a +  +   ++ip+V+ +H+ +     +
  PHY93_17165|PHY93_17165 108 VSLVLTHRQYDLIVFDGLHPYTAFMNLIE-FKNIPVVYRAHNVEGdlwsT 156
                              44567777*****7766655544433333.36***********9543332 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (399 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       520  (0.0290033); expected 358.6 (0.02)
Passed bias filter:                      414  (0.0230911); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.60u 0.26s 00:00:00.86 Elapsed: 00:00:00.47
# Mc/sec: 2539.33
//
Query:       PHY93_15400|PHY93_15400  [L=384]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    7.4e-20   71.5   0.1    2.1e-19   70.1   0.0    1.8  2  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    1.3e-12   47.6   0.6    2.9e-12   46.4   0.6    1.6  1  HisKA        His Kinase A (phospho-acceptor) domain
    6.6e-07   29.6   0.0    1.3e-06   28.6   0.0    1.5  1  PAS_4        PAS fold
     0.0016   18.3   0.0     0.0039   17.1   0.0    1.6  1  HATPase_c_5  GHKL domain
     0.0018   18.2   0.0     0.0036   17.2   0.0    1.4  1  HATPase_c_2  Histidine kinase-like ATPase domain


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0       1.4   5.1e+03       5       5 ..     228     228 ..     178     257 .. 0.59
   2 !   70.1   0.0   5.8e-23   2.1e-19       4     111 ..     264     372 ..     262     373 .. 0.93

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 1.4
                              H CS
                HATPase_c   5 r 5  
                              r
  PHY93_15400|PHY93_15400 228 R 228
                              2 PP

  == domain 2  score: 70.1 bits;  conditional E-value: 5.8e-23
                              HHHHHHHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCH.HCSTCHTSTSSSHHHHHHHHHHHHT CS
                HATPase_c   4 krLrqiisnlvdNavkfatkageieveikaseddlvisveDnGiGipkedlkklfekfsq.ddstkrggggtGlGlsivkklvelm 88 
                              + ++++i nl +Na+k+ ++++ + + +++++++++isv + G  i+ ed++ lf ++ + + +t++g++g G+Gl++vk+l+e +
  PHY93_15400|PHY93_15400 264 DAIHRLIENLASNAIKYGSPETPVVIGLTQQNNWIEISVHNKGETISLEDQQSLFNHYRRtNFATTSGQKGWGIGLALVKALTEAH 349
                              6799*************8899999999996669***********************9999877888999***************** PP

                              TTEEEEEEETTTEEEEEEEEESS CS
                HATPase_c  89 gGeiwvesepgrGttftftlple 111
                              gGe++ves+ + Gttf ++lpl+
  PHY93_15400|PHY93_15400 350 GGEVRVESQMEFGTTFFIRLPLD 372
                              *********************97 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.4   0.6   8.2e-16   2.9e-12       2      64 ..     152     214 ..     151     215 .. 0.90

  Alignments for each domain:
  == domain 1  score: 46.4 bits;  conditional E-value: 8.2e-16
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHC..T-HSSCHH...HHHHHHHHHHHHHHHHHHHHHHCCH CS
                    HisKA   2 lgrflagvaHELrtPLsailgnaeaLkregklteelke...yletiesearrldhlvedlLdlsri 64 
                              ++rf+++++H+LrtPL+  + n+++Lkr+    e+ k    + e+i+ + +r+d++++d+Ld  ri
  PHY93_15400|PHY93_15400 152 RERFVSSLSHDLRTPLTLAKINTQILKRK---AEDAKVvisMAEKIVVNMDRVDRMIHDMLDANRI 214
                              68**************************4...556665788*********************9887 PP

>> PAS_4  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.6   0.0   3.7e-10   1.3e-06       7     108 ..      25     131 ..      21     133 .. 0.93

  Alignments for each domain:
  == domain 1  score: 28.6 bits;  conditional E-value: 3.7e-10
                    PAS_4   7 alavldpdgrvlyaNaaaaelfgappeellGktlaellpeedaarleralrrvlegeepiefleelll.......pgeerhyelrl 85 
                              ++++l+ +++++ +N+ ++e   +p  +llGk++ae +pe    ++  +l++v e++ep ++ e l +         eer++++++
  PHY93_15400|PHY93_15400  25 MVLFLGLEFVYEMYNEKYQE--LYPSRDLLGKPFAEAVPELKESAFPGILKKVYETGEPFYSREGLAHicnpingQLEERYFDTTF 108
                              78999***************..9*****************************************99999999*98899******** PP

                    PAS_4  86 lPlrdesGevigvlvisrDiTer 108
                              ++++  + ++  +l+  r++T+r
  PHY93_15400|PHY93_15400 109 SRIDFGDNGPYRILANPREVTDR 131
                              99988888888888888888887 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.0   1.1e-06    0.0039       6      90 ..     266     358 ..     262     367 .. 0.72

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 1.1e-06
              HATPase_c_5   6 lcvilgnlLdNAieacsk.......ieeekrfIrltvrekkksliisieNsyegek.kklesskskkeehGiGlksireivkkykg 83 
                              + +++ nl  NAi   s        +++++  I+++v++k +++ ++ + s  ++  ++ + ++s ++  GiGl  ++ +++ ++g
  PHY93_15400|PHY93_15400 266 IHRLIENLASNAIKYGSPetpvvigLTQQNNWIEISVHNKGETISLEDQQSLFNHYrRTNFATTSGQKGWGIGLALVKALTEAHGG 351
                              66778888888888766655666554445777777777777776666666544433255557788999****************** PP

              HATPase_c_5  84 nlsieae 90 
                              ++++e +
  PHY93_15400|PHY93_15400 352 EVRVESQ 358
                              **99876 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.0     1e-06    0.0036      35     110 ..     269     347 ..     261     360 .. 0.81

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 1e-06
              HATPase_c_2  35 aveEactNavehayleapegpvevrlesdeealtvevaDsGpgfdpetlpdpteeep.......keslkegGrGlalikglvD 110
                               +e + +Na++++ +e    pv + l++++++++++v+++G+   +e+++      +       +  +k  G+Glal+k+l++
  PHY93_15400|PHY93_15400 269 LIENLASNAIKYGSPE---TPVVIGLTQQNNWIEISVHNKGETISLEDQQSLFN-HYrrtnfatTSGQKGWGIGLALVKALTE 347
                              5666789*******85...67**********************99987655443.336899997777788899*****99986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (384 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       665  (0.0370907); expected 358.6 (0.02)
Passed bias filter:                      544  (0.0303419); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.61u 0.27s 00:00:00.88 Elapsed: 00:00:00.48
# Mc/sec: 2419.92
//
Query:       PHY93_15405|PHY93_15405  [L=142]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      2e-16   59.4   0.0    2.8e-16   59.0   0.0    1.2  1  Cupin_2          Cupin domain
    1.3e-05   25.2   0.0    1.8e-05   24.6   0.0    1.2  1  MannoseP_isomer  Mannose-6-phosphate isomerase
    7.1e-05   22.7   0.0    8.5e-05   22.5   0.0    1.1  1  AraC_binding     AraC-like ligand binding domain
  ------ inclusion threshold ------
      0.048   13.3   0.0      0.075   12.6   0.0    1.4  1  Cupin_1          Cupin
      0.076   12.7   0.0       0.12   12.1   0.0    1.3  1  Cupin_3          Protein of unknown function (DUF861)


Domain annotation for each model (and alignments):
>> Cupin_2  Cupin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.0   0.0   7.7e-20   2.8e-16       2      71 .]      32     101 ..      31     101 .. 0.97

  Alignments for each domain:
  == domain 1  score: 59.0 bits;  conditional E-value: 7.7e-20
                              EEEEETTEEEEEECSSSEEEEEEEEESEEEEEECTEEEEEETTEEEEE-TT-EEEEEE-SSS-EEEEEEE CS
                  Cupin_2   2 lvelppGesapshrHpgedeffyVleGegeltvdgeeveleaGdsvyfpagtpHrfrNtgdeparllvvy 71 
                              l+ l pGe++++++H++ d+ff V +G+g+  +dg  + ++  d+v++pag  H+++Ntg+ep+ l+ +y
  PHY93_15405|PHY93_15405  32 LMALRPGEDIGEEVHKDRDQFFRVEKGQGKAVIDGVATNIKGEDAVVVPAGAKHNIINTGNEPLLLYTIY 101
                              799**************************************************************99987 PP

>> MannoseP_isomer  Mannose-6-phosphate isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.6   0.0   5.1e-09   1.8e-05      56     133 ..      21      98 ..      15     102 .. 0.94

  Alignments for each domain:
  == domain 1  score: 24.6 bits;  conditional E-value: 5.1e-09
          MannoseP_isomer  56 vldegeryqvkritvkPgeklslqkhhhraehWvvvkGtakvtvddevlllkenestyiplgaihrlenpGkipleli 133
                              vl +g++ q+  + ++Pge +  + h  r + + v kG  k  +d   + +k ++ + +p+ga h + n G+ pl l 
  PHY93_15405|PHY93_15405  21 VLYTGKNLQLVLMALRPGEDIGEEVHKDRDQFFRVEKGQGKAVIDGVATNIKGEDAVVVPAGAKHNIINTGNEPLLLY 98 
                              67889999*****************************************************************99875 PP

>> AraC_binding  AraC-like ligand binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.5   0.0   2.4e-08   8.5e-05      23      84 ..      49     110 ..      31     133 .. 0.88

  Alignments for each domain:
  == domain 1  score: 22.5 bits;  conditional E-value: 2.4e-08
                              SEEEEEEEEE-EEEEETTEEEEE-TT-EEEE-TTS-EEEEE-TTSEEEEEEEEE---GGGGG CS
             AraC_binding  23 eyvihyvteGtgrlrlngrtydlgpGdlfLlppgepHdyesdsedgweyrwlyfegelleri 84 
                                ++  v++G+g+  ++g   ++++ d + +p g  H +   +++++ ++++y ++e +e +
  PHY93_15405|PHY93_15405  49 RDQFFRVEKGQGKAVIDGVATNIKGEDAVVVPAGAKHNIINTGNEPLLLYTIYGPPEHVEGL 110
                              5577779**************************************************99877 PP

>> Cupin_1  Cupin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   2.1e-05     0.075      83     115 ..      71     103 ..      44     133 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 2.1e-05
                              EETTEEEEE-TT-EEEEEEESSSSEEEEEEEES CS
                  Cupin_1  83 lreGdvfvvPaglvhfqynsgdepavaivvfdt 115
                              ++  d++vvPag  h ++n+g+ep++ + +++ 
  PHY93_15405|PHY93_15405  71 IKGEDAVVVPAGAKHNIINTGNEPLLLYTIYGP 103
                              666799******************999987765 PP

>> Cupin_3  Protein of unknown function (DUF861)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   3.4e-05      0.12      21      61 ..      45      84 ..      31      92 .. 0.92

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 3.4e-05
                             ECESSEEEEEEEECEEEEEETTTEEEEEETTEEEEE-TTEE CS
                  Cupin_3 21 ltyeedEfcyileGevkvtpeggetvelraGDlvvlpkgls 61
                             ++ ++d+f+ + +G+ k +  +g +  ++  D+vv+p+g +
  PHY93_15405|PHY93_15405 45 VHKDRDQFFRVEKGQGKAVI-DGVATNIKGEDAVVVPAGAK 84
                             67789***************.******************86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (142 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       320  (0.0178482); expected 358.6 (0.02)
Passed bias filter:                      273  (0.0152267); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.46
# Mc/sec: 924.42
//
Query:       PHY93_15410|PHY93_15410  [L=575]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-65  221.7  10.6    6.9e-29  101.0   0.0    4.1  4  dCache_2         Cache domain
    9.6e-63  210.7   3.8    6.3e-17   61.8   0.0    4.2  4  sCache_2         Single Cache domain 2
    2.7e-15   56.4   1.2    8.2e-05   22.0   0.0    4.1  4  Cache_3-Cache_2  Cache 3/Cache 2 fusion domain
  ------ inclusion threshold ------
       0.12   12.7   5.6         15    6.0   0.0    4.1  4  CKS              Cyclin-dependent kinase regulatory subunit
       0.18   11.9   0.2       0.58   10.3   0.0    1.9  2  CRM1_repeat_3    CRM1 / Exportin repeat 3


Domain annotation for each model (and alignments):
>> dCache_2  Cache domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.3   0.2   9.1e-20   3.3e-16      89     196 ..      60     174 ..      37     200 .. 0.80
   2 !  101.0   0.0   1.9e-32   6.9e-29      89     277 ..     195     415 ..     189     417 .. 0.93
   3 !   30.5   0.0   5.4e-11   1.9e-07      90     160 ..     337     408 ..     314     447 .. 0.85
   4 !   59.1   1.1   1.1e-19     4e-16      90     190 ..     470     572 ..     433     575 .] 0.89

  Alignments for each domain:
  == domain 1  score: 59.3 bits;  conditional E-value: 9.1e-20
                 dCache_2  89 r.ydggegyyfiidskgtlilhpdspsleGknlldlkdkdGryiiremikla...kkkgeGfveytwpkpdekkprkkisyvkyfe 170
                              + + +++ y+f++++kg +++hpd+  leGk +ldlkd + r iir +i++a    +k++G ++y+wpkpde  pr k s+vk+ +
  PHY93_15410|PHY93_15410  60 SkWRQKDTYIFVLNTKGHMFVHPDP-ALEGKVTLDLKDINDRPIIRGLIEAAtsvPNKQKGWYHYQWPKPDEILPRWKSSFVKLVK 144
                              448899******************8.************************9953235556************************99 PP

                 dCache_2 171 pld...wiIGtgaylddieeelk.qellkt 196
                              + +   +i+G+g y d  e+    +++++ 
  PHY93_15410|PHY93_15410 145 TSEgksYIVGSGMYNDRMEKSFVvDMVKEA 174
                              8644449********999987664444444 PP

  == domain 2  score: 101.0 bits;  conditional E-value: 1.9e-32
                 dCache_2  89 rydggegyyfiidskgtlilhpdspsleGknlldlkdkdGryiiremiklakkkgeGfveytwpkpdekkprkkisyvk..yfepl 172
                              r+  ++ y+f++d +g+ + +p++p+leG+nlld kd +++ ++rem++l+++k +G v+y wpkp+e  p +k syv   +fe+ 
  PHY93_15410|PHY93_15410 195 RFMAKDAYIFVFDPNGVDLINPAYPNLEGRNLLDTKDVHNKPLVREMLNLVQTKSTGWVNYMWPKPGESVPTEKSSYVEkaKFENS 280
                              777899************************************************************************73369999 PP

                 dCache_2 173 dwiIGtgaylddieeelk.........................qellktlksir...ygnngyifiydtdgniilhplkkelngkn 230
                               + +G+g+yl+d+ +                            +e+++++++     ++++ y+f  d+dgn  +h   ++l+g+n
  PHY93_15410|PHY93_15410 281 WLLVGAGVYLSDAPKAAHaeslvsapelmelvragatllelegEEVYAEFRKKGskwFSDGTYFFTWDMDGNRSFHAAAPTLEGTN 366
                              99*****************************************999999998653337899************************* PP

                 dCache_2 231 llevkdkkgkl.lqelleaakkkge.gfveYkwpkpsgdkerkKisyvr 277
                                + kd  g    + +le ak+  e g+v+Y++p+p++  +  K ++++
  PHY93_15410|PHY93_15410 367 AKDAKDILGRAyGKMFLEVAKSPTEeGWVHYMYPEPGQIFPAWKSAFAK 415
                              ***9999999989999******9999***********988888888887 PP

  == domain 3  score: 30.5 bits;  conditional E-value: 5.4e-11
                 dCache_2  90 ydggegyyfiidskgtlilhpdspsleGknlldlkdkdGryiiremikla.kkkgeGfveytwpkpdekkpr 160
                              +  +  y+f  d++g+  +h++ p leG+n  d kd  Gr + + +++ a +   eG v+y +p p++  p 
  PHY93_15410|PHY93_15410 337 WFSDGTYFFTWDMDGNRSFHAAAPTLEGTNAKDAKDILGRAYGKMFLEVAkSPTEEGWVHYMYPEPGQIFPA 408
                              667778********************************************555666********99665555 PP

  == domain 4  score: 59.1 bits;  conditional E-value: 1.1e-19
                 dCache_2  90 ydggegyyfiidskgtlilhpdspsleGknlldlkdkdGryiiremiklakkkgeGfveytwpkpdekkprkkisyvkyfepld.. 173
                              +++ + y+f+ + +g+ +++   p leGkn+ dlkd++G+ + r+ ik+a ++ +  vey+w+kp++++p  k +yv++    +  
  PHY93_15410|PHY93_15410 470 FYFMDTYIFVDSPHGVELVNSGAPYLEGKNIADLKDAKGKTLARDYIKAAMENEKKWVEYYWYKPGSNEPTLKKAYVRKVQSGNdi 555
                              78999*********************************************999999************************998877 PP

                 dCache_2 174 wiIGtgaylddieeelk 190
                              +i+G+g y+++  ++++
  PHY93_15410|PHY93_15410 556 YIVGSGFYVEEQSKKVQ 572
                              99*********999998 PP

>> sCache_2  Single Cache domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.2   0.1   6.9e-17   2.5e-13      40     147 ..      54     164 ..      21     173 .. 0.79
   2 !   61.8   0.0   1.8e-20   6.3e-17      53     149 ..     194     297 ..     167     302 .. 0.85
   3 !   37.7   0.0   4.7e-13   1.7e-09      19     125 ..     308     413 ..     299     417 .. 0.80
   4 !   59.1   0.5   1.2e-19   4.3e-16      52     150 ..     467     572 ..     437     575 .] 0.86

  Alignments for each domain:
  == domain 1  score: 50.2 bits;  conditional E-value: 6.9e-17
                 sCache_2  40 evkelvnglkfgdGkgYffvldedgtllvhPfnpqleGknasnlkDanGkyiirelvkeak...kkgggfvtylwkkpgegeveek 122
                              e+++  ++ +++d   Y+fvl+ +g++ vhP +p leGk   +lkD n++ iir l+++a    +k++g ++y+w+kp+e  ++ k
  PHY93_15410|PHY93_15410  54 EFRKSGSKWRQKD--TYIFVLNTKGHMFVHP-DPALEGKVTLDLKDINDRPIIRGLIEAATsvpNKQKGWYHYQWPKPDEILPRWK 136
                              4444444445555..9**************9.7***************************99999***************888888 PP

                 sCache_2 123 layvk...yfepWdwvigtgvylddink 147
                               ++vk     e+   ++g+g+y d  +k
  PHY93_15410|PHY93_15410 137 SSFVKlvkTSEGKSYIVGSGMYNDRMEK 164
                              7776511155666788999999876665 PP

  == domain 2  score: 61.8 bits;  conditional E-value: 1.8e-20
                 sCache_2  53 G.....kgYffvldedgtllvhPfnpqleGknasnlkDanGkyiirelvkeakkkgggfvtylwkkpgegeveeklayvky..fep 131
                              G     + Y+fv+d +g  l++P+ p+leG+n+ ++kD++ k ++re+++ +++k  g v y+w+kpge+ + ek +yv++  fe+
  PHY93_15410|PHY93_15410 194 GrfmakDAYIFVFDPNGVDLINPAYPNLEGRNLLDTKDVHNKPLVREMLNLVQTKSTGWVNYMWPKPGESVPTEKSSYVEKakFEN 279
                              15555589**********************************************************************98711455 PP

                 sCache_2 132 Wdwvigtgvylddinkav 149
                                  +g+gvyl+d  ka+
  PHY93_15410|PHY93_15410 280 SWLLVGAGVYLSDAPKAA 297
                              4456899******98876 PP

  == domain 3  score: 37.7 bits;  conditional E-value: 4.7e-13
                 sCache_2  19 lieavykqvesgkiteeeaqeevkelvnglkfgdGkgYffvldedgtllvhPfnpqleGknasnlkDanGkyiirelvkeak.kkg 103
                              l+e v++ +   ++  ee  +e++++  +  f+d   Yff +d+dg+   h + p+leG+na++ kD  G+ + +  ++ ak   +
  PHY93_15410|PHY93_15410 308 LMELVRAGATLLELEGEEVYAEFRKK-GSKWFSD-GTYFFTWDMDGNRSFHAAAPTLEGTNAKDAKDILGRAYGKMFLEVAKsPTE 391
                              55555555555566666666666665.3445777.89*********************************************9999 PP

                 sCache_2 104 ggfvtylwkkpgegeveeklay 125
                              +g v+y++++pg+  +  k a+
  PHY93_15410|PHY93_15410 392 EGWVHYMYPEPGQIFPAWKSAF 413
                              ***********99666555555 PP

  == domain 4  score: 59.1 bits;  conditional E-value: 1.2e-19
                 sCache_2  52 dG.....kgYffvldedgtllvhPfnpqleGknasnlkDanGkyiirelvkeakkkgggfvtylwkkpgegeveeklayvkyfepW 132
                               G     + Y+fv    g +lv++  p leGkn+ +lkDa+Gk+++r+++k+a++++++ v+y+w kpg++e+  k ayv++++  
  PHY93_15410|PHY93_15410 467 LGpfyfmDTYIFVDSPHGVELVNSGAPYLEGKNIADLKDAKGKTLARDYIKAAMENEKKWVEYYWYKPGSNEPTLKKAYVRKVQSG 552
                              336666689*************************************************************************9976 PP

                 sCache_2 133 d..wvigtgvylddinkave 150
                              +   ++g+g+y+++ +k+v+
  PHY93_15410|PHY93_15410 553 NdiYIVGSGFYVEEQSKKVQ 572
                              6445789******9998876 PP

>> Cache_3-Cache_2  Cache 3/Cache 2 fusion domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.0   0.0   2.3e-08   8.2e-05     198     283 ..      68     163 ..      41     167 .. 0.85
   2 !   13.5   0.0     9e-06     0.032     196     284 ..     200     295 ..     196     300 .. 0.80
   3 ?    0.8   0.0     0.068   2.4e+02     214     248 ..     358     397 ..     339     420 .. 0.72
   4 !   15.4   0.1   2.3e-06    0.0084     215     276 ..     492     560 ..     448     572 .. 0.76

  Alignments for each domain:
  == domain 1  score: 22.0 bits;  conditional E-value: 2.3e-08
          Cache_3-Cache_2 198 ylyvldgkgdkkgkliihptlk..gknvldlkdadgesvvkkllkk.......ksgsleyelk..kdekgreklav...ftyfepw 269
                              y++vl++k    g++ +hp+++  gk  ldlkd + ++++  l+++       ++g ++y++   ++  +r+k ++   +++ e+ 
  PHY93_15410|PHY93_15410  68 YIFVLNTK----GHMFVHPDPAleGKVTLDLKDINDRPIIRGLIEAatsvpnkQKGWYHYQWPkpDEILPRWKSSFvklVKTSEGK 149
                              9*******....****************************************9**********98777777776651115566777 PP

          Cache_3-Cache_2 270 dWvivasvyedefq 283
                                ++++++y+d ++
  PHY93_15410|PHY93_15410 150 SYIVGSGMYNDRME 163
                              78888888887765 PP

  == domain 2  score: 13.5 bits;  conditional E-value: 9e-06
          Cache_3-Cache_2 196 tGylyvldgkgdkkgkliihptlk...gknvldlkdadgesvvkkllkk....ksgsleyelk..kdekgreklavft..yfepwd 270
                              + y++v+d +    g  +i p      g+n+ld+kd  +++ v ++l+      +g + y +    ++ ++ek ++++  +fe+  
  PHY93_15410|PHY93_15410 200 DAYIFVFDPN----GVDLINPAYPnleGRNLLDTKDVHNKPLVREMLNLvqtkSTGWVNYMWPkpGESVPTEKSSYVEkaKFENSW 281
                              569*******....7777776555555********************98888899*******999788888888887622577877 PP

          Cache_3-Cache_2 271 Wvivasvyedefqe 284
                                ++a+vy ++  +
  PHY93_15410|PHY93_15410 282 LLVGAGVYLSDAPK 295
                              88889999998755 PP

  == domain 3  score: 0.8 bits;  conditional E-value: 0.068
          Cache_3-Cache_2 214 ihptlkgknvldlkdadgesvvkkllkk.....ksgsley 248
                              + ptl+g+n+ d+kd  g+++ k  l+      ++g ++y
  PHY93_15410|PHY93_15410 358 AAPTLEGTNAKDAKDILGRAYGKMFLEVaksptEEGWVHY 397
                              57999**********9999666665554444665555555 PP

  == domain 4  score: 15.4 bits;  conditional E-value: 2.3e-06
          Cache_3-Cache_2 215 hptlkgknvldlkdadge....svvkkllkkksgsleyelk..kdekgreklavftyfep.wdWvivas 276
                               p l+gkn+ dlkda+g+    +++k  +++++  +ey +    +++++ k+a++++++   d +iv+s
  PHY93_15410|PHY93_15410 492 APYLEGKNIADLKDAKGKtlarDYIKAAMENEKKWVEYYWYkpGSNEPTLKKAYVRKVQSgNDIYIVGS 560
                              46778*************888888888888888888888888988888888888888875156777765 PP

>> CKS  Cyclin-dependent kinase regulatory subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.3     0.082   2.9e+02      46      58 ..     117     129 ..     115     132 .. 0.82
   2 ?    6.0   0.0    0.0041        15      37      58 ..     240     261 ..     233     264 .. 0.82
   3 ?    3.9   0.0     0.019        67      47      57 ..     392     402 ..     381     405 .. 0.85
   4 ?   -0.4   0.0      0.41   1.5e+03      46      60 ..     523     537 ..     506     544 .. 0.81

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.082
                      CKS  46 skgWehyeihkpe 58 
                               kgW hy++ kp+
  PHY93_15410|PHY93_15410 117 QKGWYHYQWPKPD 129
                              58******99885 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.0041
                      CKS  37 ewraLgIqqskgWehyeihkpe 58 
                              e+ +L  + s+gW++y++ kp 
  PHY93_15410|PHY93_15410 240 EMLNLVQTKSTGWVNYMWPKPG 261
                              666777789*********9985 PP

  == domain 3  score: 3.9 bits;  conditional E-value: 0.019
                      CKS  47 kgWehyeihkp 57 
                               gW+hy++ +p
  PHY93_15410|PHY93_15410 392 EGWVHYMYPEP 402
                              69*****9876 PP

  == domain 4  score: -0.4 bits;  conditional E-value: 0.41
                      CKS  46 skgWehyeihkpeph 60 
                               k W+ y+++kp ++
  PHY93_15410|PHY93_15410 523 EKKWVEYYWYKPGSN 537
                              578*******99765 PP

>> CRM1_repeat_3  CRM1 / Exportin repeat 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0   0.00016      0.58      21      51 .]     155     184 ..     152     184 .. 0.93
   2 ?   -2.5   0.0       1.6   5.7e+03      37      48 ..     238     249 ..     237     250 .. 0.84

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00016
            CRM1_repeat_3  21 SgamseedEkrfLvtvikdLLnLceekrgkd 51 
                              Sg  ++ +Ek+f+v ++k+ + L+e k+gkd
  PHY93_15410|PHY93_15410 155 SGMYNDRMEKSFVVDMVKEAVGLIE-KSGKD 184
                              8999*********************.88876 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 1.6
            CRM1_repeat_3  37 ikdLLnLceekr 48 
                              ++++LnL+++k+
  PHY93_15410|PHY93_15410 238 VREMLNLVQTKS 249
                              589*****9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (575 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       426  (0.0237604); expected 358.6 (0.02)
Passed bias filter:                      375  (0.0209158); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.67u 0.26s 00:00:00.93 Elapsed: 00:00:00.50
# Mc/sec: 3475.27
//
Query:       PHY93_15415|PHY93_15415  [L=337]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.9e-52  178.6   0.0    2.2e-52  178.4   0.0    1.0  1  GDPD      Glycerophosphoryl diester phosphodiesterase family


Domain annotation for each model (and alignments):
>> GDPD  Glycerophosphoryl diester phosphodiesterase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  178.4   0.0   1.2e-56   2.2e-52       1     258 [.      22     320 ..      22     321 .. 0.94

  Alignments for each domain:
  == domain 1  score: 178.4 bits;  conditional E-value: 1.2e-56
                              TTTTTTTSSTTSHHHHHHHHHTT-SEEEEEEEE-TTS-EEE-SSSBSTTTCSCCCH..................BGGGS-HHHHHT CS
                     GDPD   1 HRGasgnlpEnTlesfakAaelGadyiEfDvqlTkDgvpVvlHDfnldrttdvagr.................ldvkdltleelkr 69 
                              HRGa g++pE+T++s++ A++ GadyiE D+++TkD v+++ H+  +  ttdva +                  +++d+tl+e k+
  PHY93_15415|PHY93_15415  22 HRGACGYRPEHTIASYELAISMGADYIEPDLVMTKDKVLMCRHENEISGTTDVAEKfparkttkkvdgkeitgWFIEDFTLKEMKT 107
                              ************************************************************************************** PP

                              STECCTTCCCCSCCCSSGCCB...BHHHHHHHHHHCCSEEEEEEECCCCCCCHHHH.HHTCHHHCCCCCSCHHTT..STTCSCEEE CS
                     GDPD  70 ldkiakenkaqlsenrvrlefpfptleevlkkpqnvglnieikipmlseakeeeel.qivkeilksvdeilkkvlkkadkrkvifs 154
                              l+   ++++ +++++ ++++f +pt++evl+      ++  +k+++++e+k++++   i   + +++ + l++ + +++++ v+++
  PHY93_15415|PHY93_15415 108 LR---AKERLAFRDHSYDGKFEVPTFSEVLDL----VKKQKRKVGVYPETKHPTYFqSIGLPLEEALVKELTDHSLNKKGAAVFIQ 186
                              **...55559********************75....66667788888888888887767777777766666666678999****** PP

                              ESTHHHHHHHHHTCTCTEEEEEEHHHHHHC-E....EECHCCCCCCCTCCCCHHCCCHCCCE.................B.CHHHH CS
                     GDPD 155 sfnpdilkllrekqpklpllflteggteaead...ssleraakfakadallgevsavaeglg.................dpdlVkr 220
                              sf+ ++lk+l+++++ lpl+ l+++++  + d   s ++r++k + ++a l+e+sa   g+g                 ++ l+k+
  PHY93_15415|PHY93_15415 187 SFEMTNLKKLKTLTK-LPLIYLIDDPEVIPFDhvvSGDKRSYKDMLTPASLKEISATVYGIGpykryilpenekrealpATNLIKD 271
                              ***************.************99999***************************************************** PP

                              HHHTT-EEEEBSB-THS...........HHHHHHHHCCC-SEEEES-HH CS
                     GDPD 221 aksrglvvhvytvnned...........eeemkrlleagvdgvitDfpd 258
                              a++ gl+vh+yt++ e+           ++e  ++ e+gvd+++ Df d
  PHY93_15415|PHY93_15415 272 AHAVGLKVHPYTFRSEAqyllkdyqgdpQKEYLQFFELGVDALFSDFAD 320
                              ****************************888889************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (337 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       459  (0.025601); expected 358.6 (0.02)
Passed bias filter:                      413  (0.0230353); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.21s 00:00:00.77 Elapsed: 00:00:00.43
# Mc/sec: 2328.83
//
Query:       PHY93_15420|PHY93_15420  [L=332]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.4e-26   93.4   0.7    1.9e-26   93.0   0.7    1.2  1  SBP_bac_6   Bacterial extracellular solute-binding protein
    1.5e-16   60.9   0.2    2.3e-16   60.3   0.2    1.2  1  SBP_bac_11  Bacterial extracellular solute-binding protein
    3.1e-15   56.7   3.8    4.8e-15   56.1   3.8    1.3  1  SBP_bac_8   Bacterial extracellular solute-binding protein
    2.2e-08   34.4   6.4    5.6e-08   33.1   6.3    1.6  1  SBP_bac_1   Bacterial extracellular solute-binding protein
  ------ inclusion threshold ------
      0.067   13.0   1.0        0.1   12.4   0.3    1.6  2  Maf         Maf-like protein
      0.089   12.8   0.1       0.18   11.8   0.1    1.5  1  DUF4995     Domain of unknown function


Domain annotation for each model (and alignments):
>> SBP_bac_6  Bacterial extracellular solute-binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   93.0   0.7   6.3e-30   1.9e-26       4     220 ..      82     296 ..      79     316 .. 0.88

  Alignments for each domain:
  == domain 1  score: 93.0 bits;  conditional E-value: 6.3e-30
                SBP_bac_6   4 pdlilsfdkdflekfieeglfqpldpanlpnvnkdfaeeglkdpdgkyypygvgplvlavnkdrlkgrpvPksWaDLldPeykgkv 89 
                              +d+++s d+ ++e ++++g + +++p+  ++v      e++k   g y++++   +v+a+n+++++  ++Pk++a+L dP++k+kv
  PHY93_15420|PHY93_15420  82 ADILISSDRFWYEDMAAKGTLLAYKPKGTEKVE-----EHFKNTSGFYTAVSLPVMVMAYNSEAVTSAEAPKTFAELKDPKWKDKV 162
                              8********************************.....999********************************************* PP

                SBP_bac_6  90 alpgnng.sdlfealllalykdfgedgvkkllrnlkanlhpaq..mvkaagslesgepavsvvpyffadilpekkkgknlkvvwPe 172
                              +  ++   +++f++++   +k      ++++  +l++n+  a+  + + + +l+s+e   +v++    ++l+  +k  ++k+++Pe
  PHY93_15420|PHY93_15420 163 SSGSPLAsGTSFTTVAFLSKK-----YGWDYYSALRKNNFIAEggNSGVIRRLQSKE--RPVGIVLLENLLRLTEKDPRIKLIVPE 241
                              ****99966666666665555.....88999999*********99999*********..****************999******** PP

                SBP_bac_6 173 dGalvspifmlvkkg.kkkelakafidfllspevqailakaggvfPvv.......t 220
                              dGa+   ++++++k+  ++   k+++d+++ + +q+ ++ +++ + ++        
  PHY93_15420|PHY93_15420 242 DGAVMQANVLAIVKKdGEQLASKKIADWMFAKVGQETMVQSFM-YATMpgfaapkG 296
                              **************99999999*******************98.655444454432 PP

>> SBP_bac_11  Bacterial extracellular solute-binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.3   0.2   7.7e-20   2.3e-16      10     226 ..      38     281 ..      30     285 .. 0.86

  Alignments for each domain:
  == domain 1  score: 60.3 bits;  conditional E-value: 7.7e-20
                              HHHHHHHHHHHHHH.H---EEEEESSHHHHHHHHHHH.......-SEEEESSH.HHHHHHHHGGGGG.................GG CS
               SBP_bac_11  10 aaalrelaaaFeah.tgvkvevsaggsgklarqiadga.....rpDvwipassawlellaaaglvqa.................es 72 
                              + ++++l  ++e++ ++++v++  +gs ++a++++++a     ++D++i+ +  w e++aa+g + a                 + 
  PHY93_15420|PHY93_15420  38 KDTVNDLKVKMEKEfPNIDVQIYQAGSEEVAAKVQAEAlagkiQADILISSDRFWYEDMAAKGTLLAykpkgtekveehfkntsGF 123
                              567778888898877*****************98555444559********************99999************777666 PP

                              -EEEEEEEEEEEESTT-...TT---SHHHHHHSS-..-EEEE--T-TTTTHH.HHHHGGG--HHHHHHHHHTEEEEESSHHHHHHH CS
               SBP_bac_11  73 avplassplviavpkgn...pkkikgwadLlkpgl..klavadPttspsGlaalalleaagaqellkalekkvvklgessrqllta 153
                              ++++    +v+a++ ++   ++ +k++a+L++p++  k+   +P +s++   ++a+l +  + +++ al+k+    +++ + ++ +
  PHY93_15420|PHY93_15420 124 YTAVSLPVMVMAYNSEAvtsAEAPKTFAELKDPKWkdKVSSGSPLASGTSFTTVAFLSKKYGWDYYSALRKNNFIAEGGNSGVIRR 209
                              66666677*****9999887789************888********************8765889*******6667888899**** PP

                              HHTTT-SEEEEEHHHHH...HSTTSSEEEE--TTT--...EEEEEEEE-TT--HHHHHHHHHTTSHHHHHHHHH CS
               SBP_bac_11 154 veageadagivyeseakaa.engdkleavylpeglnldpldypaavlkkaakreaAraFlafLrspeaqailrk 226
                              ++++e  +giv + ++++  e+ ++++++ + +g +    + ++a++kk++++ a ++ ++++  + +q+++ +
  PHY93_15420|PHY93_15420 210 LQSKERPVGIVLLENLLRLtEKDPRIKLIVPEDGAVM--QANVLAIVKKDGEQLASKKIADWMFAKVGQETMVQ 281
                              **********998888766367778888888888884..666788999999******************99876 PP

>> SBP_bac_8  Bacterial extracellular solute-binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.1   3.8   1.6e-18   4.8e-15       4     269 ..      46     292 ..      43     306 .. 0.79

  Alignments for each domain:
  == domain 1  score: 56.1 bits;  conditional E-value: 1.6e-18
                              HHHHHH-.TEEEEEEE--SSSHHHHHHHHHHTT---SEE.EEE-HHHHHHHHHTTSB--GGGSTTHHH-HH.HHHTT--TS.---- CS
                SBP_bac_8   4 kefekkt.gvkvnvvtaasndleqklkaalaagtapdidvvwanedalatlaeeglladlsdldnlddltd.alaavgydgklygv 87 
                               + ek+  +++v++ +a+s+++++k++a++ ag+ ++ ++++ ++ +   +a++g l + +  +  ++++  ++++        g+
  PHY93_15420|PHY93_15420  46 VKMEKEFpNIDVQIYQAGSEEVAAKVQAEALAGKIQADILISSDRFWYEDMAAKGTLLAYK-PKGTEKVEEhFKNT-------SGF 123
                              57899999******999******************87566666666777788888777655.35555554413333.......444 PP

                              EEEEE.EE-EEEEEHHHHHHS.---BHHHHHHHHHHHHHH-SEGG--.-GGGGGGTHHETTEE---H..HHH.HHHHHHHHHHHHT CS
                SBP_bac_8  88 Pyase.tpyvliynkdllekaedpktwdellaaakklkgkfglpdpa.sgwlqaallakdgksldddggkdglkealellkklkdn 171
                                a++   +v++yn +++  ae pkt++el++  +k+k k+    p  sg+ +++  + +            +k  ++++  l++n
  PHY93_15420|PHY93_15420 124 YTAVSlPVMVMAYNSEAVTSAEAPKTFAELKD--PKWKDKVSSGSPLaSGTSFTTVAF-L-----------SKKYGWDYYSALRKN 195
                              444442258**********999**********..*******85554424555555555.4...........23789********** PP

                              T-EE-S...--SSTTTTTSBSEEEE-TTHHHHHH-TTTSEEEE--S--EEEEEEEEEEBTTS-HHHHHHHHHHHHHTTSHHHHHHH CS
                SBP_bac_8 172 gktydtg.adavsefanGevaftingswdiaaaqkagkklgaivpkqgsfaggkglavpknaknedlaAldFlkwltspenqaala 256
                                + + g + ++  ++++e   +i   +++  +++++++++ ivp +g++ +++ la+ k+ +++  a+++ + w+  + +q+ ++
  PHY93_15420|PHY93_15420 196 NFIAEGGnSGVIRRLQSKERPVGIVLLENLLRLTEKDPRIKLIVPEDGAVMQANVLAIVKKDGEQL-ASKKIADWMFAKVGQETMV 280
                              *777655156666*****************************************************.6****************99 PP

                              HHH---BS-S-TT CS
                SBP_bac_8 257 ektgyipvnksaa 269
                              + + +  +++++a
  PHY93_15420|PHY93_15420 281 Q-SFMYATMPGFA 292
                              9.44445555554 PP

>> SBP_bac_1  Bacterial extracellular solute-binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.1   6.3   1.9e-11   5.6e-08      18     311 ..      48     273 ..      33     277 .. 0.70

  Alignments for each domain:
  == domain 1  score: 33.1 bits;  conditional E-value: 1.9e-11
                              HHHHHTTEEEEEEEECHHHHHHHHHHHHHTTSSSCSEEEE.CGGHHHHHHHTTSBECCHHHHHHTTECTTCCTEEEEHHHHTHHHH CS
                SBP_bac_1  18 fekehpgikVeiesvgsgslaqkltlaiaaGdgpaDviav.dndwiarlakaglllpldpyvkaylapgvkdaadklsssvlpkil 102
                               eke p+i+V+i + gs ++a k+++   aG+ +aD+ ++ d +w+ ++a +g ll   p   ++    v++ +++ s+ +++  l
  PHY93_15420|PHY93_15420  48 MEKEFPNIDVQIYQAGSEEVAAKVQAEALAGKIQADILISsDRFWYEDMAAKGTLLAYKPKGTEK----VEEHFKNTSGFYTAVSL 129
                              48899***************************666*****9999999*****9999998866666....55557777777777777 PP

                              CEEEESEEEEEEEEEEEETTTHHCTTGGGSHBHHHHHHHHHHHHHHCTCTHCCHCCEEHHHHHHHHHHHHHHHHTGGGEECCCTHH CS
                SBP_bac_1 103 dskvlyvPlyaargliYNkdlfekagldppwtWdelveaakklkekgkkpiggarggsasgtayyfalalakslggkvfdkdgggl 188
                                         +++++YN   +  a+  +p+t+ el ++  k k + ++p        asgt + +  +l+k +g           
  PHY93_15420|PHY93_15420 130 P----------VMVMAYNSEAVTSAE--APKTFAELKDPKWKDKVSSGSP-------LASGTSFTTVAFLSKKYG----------- 185
                              7..........99*****99999544..499*******************.......888888888777777777........... PP

                              CSHHHHSHHHHHHHHHHHHHHHHHHHTTEEECSSHHHHHHHHHTTSCSEEEEEHHHHHHHHCEEEEECHHCHHHHTTSTEEEECEE CS
                SBP_bac_1 189 dnpegvtaatylvklyavanltkelkgkgaenkdgaaalalfeaGeaamaivglwaalaamkvapkvafaadkekpkeelgvaplP 274
                                               +++ ++  k++  ++ +++ + + +++ e +++iv l   l         +++ +k           l 
  PHY93_15420|PHY93_15420 186 -----------------WDYYSALRKNNFIAEGGNSGVIRRLQSKERPVGIVLLENLLRL-----TEKDPRIK-----------LI 238
                              .................3333445566666666666666666666666665554442222.....12222222...........22 PP

                              BETTTTSEEEEEEEEEEBTTCSTHHHHHHHHHHHTSH CS
                SBP_bac_1 275 agkggkpgilgayglaipkgsknpeaAkkFldfllsp 311
                                ++g+ +   a  lai+k+  ++ a kk  d+++++
  PHY93_15420|PHY93_15420 239 VPEDGAVM--QANVLAIVKKDGEQLASKKIADWMFAK 273
                              22222222..666666666666666666666666665 PP

>> Maf  Maf-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.3   3.5e-05       0.1      36     130 ..      67     174 ..      10     184 .. 0.74
   2 ?   -2.1   0.0         1     3e+03      35      82 ..     259     313 ..     234     328 .. 0.59

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 3.5e-05
                              HHHHHHHHHHH.....TCEEEEEEEEE....EC....E---SSHHHHHHHHHHHTTSEEEEEEEEEEEE.EEE..EEEEEEEEEE- CS
                      Maf  36 rlAeaKaeava.....alvigaDtvvv....li....lgKPkdeeealemLkklsgrthevvTgvavlk.ekevksfvettevtfk 107
                                A+ +aea+a     +++i++D   +     +      KPk  e+  e +k+ sg    v   v+v++ + +++ ++ ++  tf+
  PHY93_15420|PHY93_15420  67 VAAKVQAEALAgkiqaDILISSDRFWYedmaAKgtllAYKPKGTEKVEEHFKNTSGFYTAVSLPVMVMAyN-SEAVTSAEAPKTFA 151
                              2233444444466668899****9988554311445599****************9888888888888763.444556777789** PP

                              ---HHHHHHHHHCTSGCCSTTS- CS
                      Maf 108 elsdeeieaYvatgepldkAGay 130
                              el+d + ++ v++g+pl +  ++
  PHY93_15420|PHY93_15420 152 ELKDPKWKDKVSSGSPLASGTSF 174
                              *************9998776666 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 1
                              HHHHHHHHHHHHTCEEEEEEEEEE....C...E---SSHHHHHHHHHHHTTSEEE CS
                      Maf  35 lrlAeaKaeavaalvigaDtvvvl....i...lgKPkdeeealemLkklsgrthe 82 
                              ++lA +K  + +   +g  t+v      +   +  Pk +    e Lk+ +  ++e
  PHY93_15420|PHY93_15420 259 EQLASKKIADWMFAKVGQETMVQSfmyaTmpgFAAPKGAPALNELLKNAQPWSQE 313
                              5667777666664457777777643322134455555555555555555544444 PP

>> DUF4995  Domain of unknown function
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.1     6e-05      0.18       1      33 [.       1      35 [.       1      46 [. 0.82

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 6e-05
                  DUF4995  1 mkkkl..llafaaaaialasCqtspkeeysWikka 33
                             m+k+l  ll  +a++ +++sC ++ ++e+ Wi  +
  PHY93_15420|PHY93_15420  1 MRKTLihLLVIVATFSSISSCTKKNEKEKVWIYTS 35
                             55554226799*********************765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (332 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       863  (0.0481343); expected 358.6 (0.02)
Passed bias filter:                      604  (0.0336884); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.63u 0.25s 00:00:00.88 Elapsed: 00:00:00.47
# Mc/sec: 2113.53
//
Query:       PHY93_15425|PHY93_15425  [L=539]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.7e-22   79.0  44.4    1.5e-12   47.6  22.3    3.5  3  BPD_transp_1  Binding-protein-dependent transport system inne


Domain annotation for each model (and alignments):
>> BPD_transp_1  Binding-protein-dependent transport system inner membrane component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.5  14.0   3.8e-16   6.7e-12       2     174 ..      65     244 ..      62     255 .. 0.79
   2 ?   -9.6  14.9         1   1.8e+04      19      71 ..     283     360 ..     274     363 .. 0.51
   3 !   47.6  22.3   8.3e-17   1.5e-12      11     172 ..     362     531 ..     351     537 .. 0.84

  Alignments for each domain:
  == domain 1  score: 45.5 bits;  conditional E-value: 3.8e-16
             BPD_transp_1   2 illGilaalnrnkkldkllrpliivllslPsfvlaillvlvf..........vilsilghlilpviillllsaapyvrlirraalr 77 
                              i++++++  +   + +k +r  + +++++P+fv ai ++ ++          + l    +++++++ + + +++ +v+l+   +l+
  PHY93_15425|PHY93_15425  65 IPISWILT-RTDLPMKKNFRSWFCLPYAIPPFVGAIGWIILAnptsgvlnlwFGLHLNIYTFWGLVWVETSFLFTFVLLTSLTILD 149
                              66666666.6666677778899999********55555544466777777766777778999999********************* PP

             BPD_transp_1  78 slpkdlveaaralGasrwqifrkvvlPnalppiitglilafggllggavlleflgswpGlgtllleailgydyseis...nggvla 160
                               ++++l+eaar+ Ga+  ++f  ++lP ++p i+ g+il+  +    + ++ ++g+   + +++++++ ++ +       +     
  PHY93_15425|PHY93_15425 150 RMDSSLEEAARLSGANGLRVFIDIALPILKPAIFNGFILSCLATAASFGVPALIGGPARIYLMTTQIYTYQRMGTSDgiqM----- 230
                              *******************************************************77779999999988888887774432..... PP

             BPD_transp_1 161 lviavlllnlvadi 174
                               +++ +ll l++ i
  PHY93_15425|PHY93_15425 231 SIAVSALLGLSTLI 244
                              22222222222222 PP

  == domain 2  score: -9.6 bits;  conditional E-value: 1
             BPD_transp_1  19 llrpliivllslPsfvlaillvlvf..................................vilsilghlilp..viillllsaapyv 68 
                              +l+ li+v+l +P+f         +                                  +     ++lil+  +++++++++++++
  PHY93_15425|PHY93_15425 283 VLSLLIFVILFIPIFG--------VllsafspvqgswtlsnlsfsnfvrvlfkteetvrA---LSQSLILGlaAAFICTIFSFFFN 357
                              3444444444444444........034444555777777777778888888888885543...33333333114444445555555 PP

             BPD_transp_1  69 rli 71 
                              +++
  PHY93_15425|PHY93_15425 358 YFL 360
                              544 PP

  == domain 3  score: 47.6 bits;  conditional E-value: 8.3e-17
             BPD_transp_1  11 nrnkkldkllrpliivllslPsfvlaillvlvf.....vilsilghlilpviillllsaapyvrlirraalrslpkdlveaaralG 91 
                              + +++++ + ++ + +++s+P  vla+ l+l f      i  +l+++ + +++++++ ++ + + ++ ++ +++  +l+eaar+ G
  PHY93_15425|PHY93_15425 362 RTSWRGRTIASIAVSIPFSTPGTVLALALILSFsrgffGIGPSLYNTLWIILLAYVIKYMSLSLKTIGDGYQQIHPSLEEAARISG 447
                              667889999999******************999***98777788888888************************************ PP

             BPD_transp_1  92 asrwqifrkvvlPnalppiitglilafggllggavlleflgswpG...lgtllleailgydyseis.nggvlalviavlllnlva 172
                              a+ w+i++++  P++ + ++++++l+f+ ++ + +++ +l+ +pG   +g l++++++++d+  +   +++++++++vllln+ +
  PHY93_15425|PHY93_15425 448 AGWWTIMHTIYWPLLSSALMASAFLVFMPVISELTMTILLT-GPGldtIGPLIFQFQEYSDVGGGGaSVLSAIVIFFVLLLNFTL 531
                              ************************************99999.7897777778888888888874444444444444444444443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (539 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       974  (0.0543254); expected 358.6 (0.02)
Passed bias filter:                      411  (0.0229238); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.69u 0.28s 00:00:00.97 Elapsed: 00:00:00.47
# Mc/sec: 3469.42
//
Query:       PHY93_15430|PHY93_15430  [L=244]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.6e-32  112.2   0.1    1.4e-31  109.8   0.0    1.8  2  ABC_tran     ABC transporter
    6.9e-05   22.8   0.2      0.051   13.4   0.1    2.1  2  AAA_21       AAA domain, putative AbiEii toxin, Type IV TA sy
    0.00035   20.8   1.1     0.0022   18.3   1.1    1.9  1  AAA_22       AAA domain
    0.00047   20.6   0.2      0.062   13.7   0.0    2.3  2  AAA          ATPase family associated with various cellular a
     0.0032   16.9   1.3      0.011   15.2   1.3    1.8  1  SMC_N        RecF/RecN/SMC N terminal domain
     0.0077   16.0   0.2      0.019   14.7   0.2    1.7  1  AAA_15       AAA ATPase domain
     0.0094   15.9   0.1      0.016   15.2   0.1    1.5  1  Rad17        Rad17 P-loop domain
  ------ inclusion threshold ------
      0.013   15.7   0.2       0.35   11.1   0.2    2.4  1  SbcCD_C      Putative exonuclease SbcCD, C subunit
      0.013   15.8   0.1      0.021   15.2   0.1    1.5  1  AAA_16       AAA ATPase domain
      0.019   15.5   2.5      0.027   15.0   0.0    2.1  2  AAA_23       AAA domain
      0.022   14.2   0.1          3    7.3   0.0    2.2  2  PhoH         PhoH-like protein
      0.028   14.3   0.0      0.047   13.6   0.0    1.4  1  ATPase_2     ATPase domain predominantly from Archaea
      0.032   14.1   0.0      0.072   13.0   0.0    1.6  1  RsgA_GTPase  RsgA GTPase
       0.04   13.1   0.0      0.056   12.6   0.0    1.3  1  G-alpha      G-protein alpha subunit
      0.066   13.4   0.1        0.3   11.3   0.1    1.9  1  AAA_33       AAA domain
       0.12   12.7   0.0       0.23   11.7   0.0    1.5  1  AAA_28       AAA domain
       0.13   12.0   0.0       0.38   10.4   0.0    1.7  2  AAA_30       AAA domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  109.8   0.0   1.3e-34   1.4e-31       2     136 ..      21     168 ..      20     169 .. 0.84
   2 ?    0.2   0.1      0.97     1e+03      53      74 ..     175     196 ..     170     235 .. 0.71

  Alignments for each domain:
  == domain 1  score: 109.8 bits;  conditional E-value: 1.3e-34
                              EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG....B-HHHCCHCEEEE-SS--S-TTSBHHHH.... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxx.... RF
                 ABC_tran   2 knvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke....qeleslrkeigvlpqepqlfpeltvren.... 79 
                              k+ +l++k+ge v ++G++G+GK+t l+++agl+++t G+i +d++ +++    + l   ++++g+++q   ++p+++v +n    
  PHY93_15430|PHY93_15430  21 KDFNLEVKNGEFVSFLGPSGCGKTTTLRMIAGLEENTHGKIFFDDEIVSDpqskTFLLPEKRNVGMVFQSYAVWPHMNVFDNvayp 106
                              899**************************************999988888755444556789************************ PP

                              .........HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              .........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 .........esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                                       + +ee+ k+l+ ++l++l+ ++     ++LSgGq+qrvalar l+ +p++lllDEp 
  PHY93_15430|PHY93_15430 107 lklkkmskeKIREEVMKILKIVELDGLELRK----SHELSGGQQQRVALARGLVMRPRILLLDEPL 168
                              ***9864444444455555555555555555....5*****************************7 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.97
                              -HHHCCHCEEEE-SS--S-TTS CS
                              xxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  53 eleslrkeigvlpqepqlfpel 74 
                               +e++rk i+ ++qe +l   +
  PHY93_15430|PHY93_15430 175 LREKMRKDIRAIQQEFKLTMVY 196
                              5789999999999997766554 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.1   0.0     0.002       2.1       4      22 ..      35      53 ..      32      82 .. 0.76
   2 !   13.4   0.1   4.9e-05     0.051     220     279 ..     124     180 ..      60     201 .. 0.73

  Alignments for each domain:
  == domain 1  score: 8.1 bits;  conditional E-value: 0.002
                   AAA_21  4 liGpNgsGKSnLLdaldll 22
                             + Gp g+GK++ L+ + +l
  PHY93_15430|PHY93_15430 35 FLGPSGCGKTTTLRMIAGL 53
                             78**************888 PP

  == domain 2  score: 13.4 bits;  conditional E-value: 4.9e-05
                   AAA_21 220 gvvflengdgqelparelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrll 279
                               + ++e ++   + ++elS G+++  al+  l  ++   ++ll+DEp ++L+ kl ++  
  PHY93_15430|PHY93_15430 124 ILKIVELDGLELRKSHELSGGQQQRVALARGLVMRP---RILLLDEPLSNLDAKLREKMR 180
                              556666677778888999******99***9999999...**************9987765 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   1.1     2e-06    0.0022       6     128 ..      31     197 ..      26     203 .. 0.72

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 2e-06
                   AAA_22   6 gilvvtGesGtGKTtllrrlleqldeeakaee.....................................erpevvfvtlpsst.ss 53 
                               ++   G+sG+GKTt+lr+++   ++   + +                                     +  + v + l+ ++ s 
  PHY93_15430|PHY93_15430  31 EFVSFLGPSGCGKTTTLRMIAGLEEN--THGKiffddeivsdpqsktfllpekrnvgmvfqsyavwphmNVFDNVAYPLKLKKmSK 114
                              567788**************998743..344468999*************999999999999999966644444444444444555 PP

                   AAA_22  54 kdllrellralglelka..erlsseell.ealeqalrarav...ielliiDEaqh.lr...seealeeLrsllnlsrkgvqliLv 128
                              +++++e+ ++l+    +  e  +s+el   + ++ + ar+    +++l++DE    l+   +e++ +++r ++   ++++++++v
  PHY93_15430|PHY93_15430 115 EKIREEVMKILKIVELDglELRKSHELSgGQQQRVALARGLvmrPRILLLDEPLSnLDaklREKMRKDIRAIQQ--EFKLTMVYV 197
                              5555555555554444454466666666666666666666699999*****96555877556999999999999..988888876 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.7   0.0   5.9e-05     0.062       3      20 ..      35      52 ..      33      92 .. 0.90
   2 ?    5.1   0.1     0.028        30      24      67 ..     125     167 ..      99     214 .. 0.73

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 5.9e-05
                             EESSTTSSHHHHHHHHHH CS
                      AAA  3 lyGppGtGKTllakavak 20
                             + Gp G+GKT++ + +a 
  PHY93_15430|PHY93_15430 35 FLGPSGCGKTTTLRMIAG 52
                             89*************996 PP

  == domain 2  score: 5.1 bits;  conditional E-value: 0.028
                              HEEEEEETTTCSSSSTTHHHHHHHHHHHHHHHTSTSEEEEEETG CS
                      AAA  24 vefleisgsellskyvgesekkirelfkeakekakpsilfiDEi 67 
                               +++e++g el++++   + ++ r  +++   ++ p il++DE 
  PHY93_15430|PHY93_15430 125 LKIVELDGLELRKSHELSGGQQQRVALARGLVMR-PRILLLDEP 167
                              56899*******7766666677777776666665.9******94 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   1.3     1e-05     0.011      26     210 ..      32     213 ..      19     220 .. 0.69

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 1e-05
                              EEEEEESTTSSHHHHHHHHHHHCTT.TTTTTTCHCCCCCC--..BTTCSSTTEEEEEEEEEETTEESSSSSSCEEEEEEEETTSEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N  26 ftaivGpNGSGKsnlldAilFvLGersakklrseklsdlihk..skekasvkkaeveitfdnedkklkiekeevsisrrvkrkges 109
                              f + +Gp G+GK+  l  i    G +++++ +    +++++   sk+    +k +v ++f+      +  +   ++   +k k+ s
  PHY93_15430|PHY93_15430  32 FVSFLGPSGCGKTTTLRMI---AGLEENTHGKIFFDDEIVSDpqSKTFLLPEKRNVGMVFQSYAVW-PHMNVFDNVAYPLKLKKMS 113
                              6677788888888877777...67767766666666677777444444456778888888776665.5555556677777777888 PP

                              EEEETTEEE-HHHHHHHHHCTT-STTCS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTTSEE..E CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..x RF
                    SMC_N 110 eykingkevtkkevsellesagiskelLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkeksknaQf..i 193
                              + ki ++ ++  ++ el   +  ++++LSgG+++ vala  +    ++p  + llDe  ++LD+k ++k+ + +++ ++++ +  +
  PHY93_15430|PHY93_15430 114 KEKIREEVMKILKIVELDGLELRKSHELSGGQQQRVALARGLV---MRP-RILLLDEPLSNLDAKLREKMRKDIRAIQQEFKLtmV 195
                              888888888888888877777778889*******999986643...344.4789****************9999977776554103 PP

                              EE-SS.HHHCCC-SCEEE CS
                              xxxxx.xxxxxxxxxxxx RF
                    SMC_N 194 vislr.eemlekadklvg 210
                               ++++ +e ++ +dk+v 
  PHY93_15430|PHY93_15430 196 YVTHDqKEAFQMSDKIVV 213
                              444440444555555554 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.2   1.8e-05     0.019      14      79 ..      20      82 ..      19     205 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1.8e-05
                   AAA_15 14 lkdveidlsee.ltvliGkNnsGKSsilealdlFlnnkekknkkvikiekedleifeniseskdikI 79
                              kd+ +++++  +  + G+ ++GK++ l+++  + +n+    + +i++++e +++ +++ +  + k 
  PHY93_15430|PHY93_15430 20 VKDFNLEVKNGeFVSFLGPSGCGKTTTLRMIAGLEENT----HGKIFFDDEIVSDPQSKTFLLPEKR 82
                             5889999999889******************9999999....8999999999999988888777664 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.1   1.5e-05     0.016      40      66 ..      25      51 ..      15     133 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 1.5e-05
                    Rad17 40 LesrkkriLLisGPsGCgkstvvkvLs 66
                             Le ++ + +   GPsGCgk+t++++++
  PHY93_15430|PHY93_15430 25 LEVKNGEFVSFLGPSGCGKTTTLRMIA 51
                             566666677788************987 PP

>> SbcCD_C  Putative exonuclease SbcCD, C subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.2   0.00033      0.35      61      84 ..     156     179 ..     125     185 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00033
                  SbcCD_C  61 epalrlvfLDEAFsklDeesiatl 84 
                                ++r+++LDE  s+lD++ ++++
  PHY93_15430|PHY93_15430 156 VMRPRILLLDEPLSNLDAKLREKM 179
                              34699**************99987 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.2   0.1     2e-05     0.021      25      51 ..      31      56 ..      21     166 .. 0.89

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 2e-05
                   AAA_16 25 elvllsGesGvGKsslvrellralekd 51
                             e v + G+sG+GK++ +r+++  le++
  PHY93_15430|PHY93_15430 31 EFVSFLGPSGCGKTTTLRMIA-GLEEN 56
                             78999*************998.45555 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   0.0   2.6e-05     0.027       2      39 ..       4      50 ..       3      53 .. 0.80
   2 ?   -0.2   1.1       1.1   1.2e+03     129     129 ..     147     147 ..      54     210 .. 0.53

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 2.6e-05
                   AAA_23  2 Lkienfrsf........rdqeidF.skgltlItGpNGaGKTTildAi 39
                             L+ en++++        +d++++  +  ++ + Gp G+GKTT l+ i
  PHY93_15430|PHY93_15430  4 LRFENVGKLygkdawavKDFNLEVkNGEFVSFLGPSGCGKTTTLRMI 50
                             7889999998876666667777775556889************9987 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 1.1
                   AAA_23 129 k 129
                              +
  PHY93_15430|PHY93_15430 147 Q 147
                              1 PP

>> PhoH  PhoH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3   0.0    0.0028         3      16      44 ..      27      56 ..      20     130 .. 0.86
   2 ?    5.2   0.1     0.012        13      51     107 ..     153     213 ..     139     220 .. 0.72

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0028
                             HHH-SEEEEE--TTSSTTH.HHHHHHHHHH CS
                     PhoH 16 lkkndivfaiGpaGtGKty.lavalaveal 44
                             +k+ ++v  +Gp+G+GKt  l + +++e  
  PHY93_15430|PHY93_15430 27 VKNGEFVSFLGPSGCGKTTtLRMIAGLEEN 56
                             45778999*********8526666666654 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.012
                              EEEEEE-S--T.T----SS---------TTTHHHHHHHTTTS...-TTCHHHHHHTTSEEE CS
                     PhoH  51 riiltrpavea.geelGflpgdleekvdpylrplydaLkdll...gaekvekllekgkiev 107
                              r +++rp +   +e l  l+ +l+ek++  +r++ ++ k ++    +++ e +  ++ki v
  PHY93_15430|PHY93_15430 153 RGLVMRPRILLlDEPLSNLDAKLREKMRKDIRAIQQEFKLTMvyvTHDQKEAFQMSDKIVV 213
                              446678877556************************9887774443444444444555555 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   4.5e-05     0.047      21      67 ..      31      77 ..      24     145 .. 0.66

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 4.5e-05
                 ATPase_2 21 eiyfiYGpegsGKtaLlkeiienledkdkyviyyialreesisklde 67
                             e++   Gp g+GKt+ l+ i+   e+ + ++++ +++ ++ +sk+  
  PHY93_15430|PHY93_15430 31 EFVSFLGPSGCGKTTTLRMIAGLEENTHGKIFFDDEIVSDPQSKTFL 77
                             555567************99999888776555555555555555444 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   6.8e-05     0.072      90     127 ..      20      58 ..       8      66 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 6.8e-05
                              HHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT----- CS
              RsgA_GTPase  90 leelkellkd.ktsvlvGqSGvGKStLinallpelelkt 127
                              +++ + ++k+ +++ ++G+SG GK+t + ++++ +e   
  PHY93_15430|PHY93_15430  20 VKDFNLEVKNgEFVSFLGPSGCGKTTTLRMIAGLEENTH 58 
                              55566666666999**************99998666555 PP

>> G-alpha  G-protein alpha subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   5.3e-05     0.056      27     140 ..      34     189 ..      22     225 .. 0.51

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 5.3e-05
                              EEEESTTSSHHHHHHHHHHHCS--.....--HH.............HHHCCHHHHHHHHHHHHHHHHHHHHHTT.......HHHC- CS
                  G-alpha  27 lllGqseSGKsTilkqlkllykkg.....fsee.............elatwraviqlnivrsiktilealesleselsesfelqel 94 
                               +lG s++GK+T+l+ +  l++++     f++e             e+++   v q+  v    ++++++  + +   ++++++++
  PHY93_15430|PHY93_15430  34 SFLGPSGCGKTTTLRMIAGLEENThgkifFDDEivsdpqsktfllpEKRNVGMVFQSYAVWPHMNVFDNVAYPLKL--KKMSKEKI 117
                              58****************9998887778644441111111111111222222234443333333333333332111..22355555 PP

                              SS-SCCCS-HCHHHH....................................HHCCHHC.....-HCHHHHHHHHCCS CS
                  G-alpha  95 kerldplkkveasliaklssateee..........................qeiefnp.....raevgedikaLwnd 140
                              +e++ +++k+ +    +l +++e +                          +     +     r+++++di+a+ ++
  PHY93_15430|PHY93_15430 118 REEVMKILKIVELDGLELRKSHELSggqqqrvalarglvmrprillldeplS-----NldaklREKMRKDIRAIQQE 189
                              5555555555555444444333333555555555544444444444333220.....13333344555566666554 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.1   0.00028       0.3       2      33 ..      33     108 ..      32     208 .. 0.50

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00028
                   AAA_33   2 vllvGlpGsGKstlaerl..lkklg.......avllssdt...................................l 33 
                              v + G++G+GK+t ++ +  l++++        +++s ++                                    
  PHY93_15430|PHY93_15430  33 VSFLGPSGCGKTTTLRMIagLEENThgkiffdDEIVSDPQsktfllpekrnvgmvfqsyavwphmnvfdnvayplK 108
                              5689**********99874444444555555555555555566665555555555555555555555555544440 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00022      0.23       2      21 ..      33      52 ..      32      70 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00022
                   AAA_28  2 ivitGgestGKTtlleaLaa 21
                             + ++G++++GKTt+l+ +a 
  PHY93_15430|PHY93_15430 33 VSFLGPSGCGKTTTLRMIAG 52
                             6799***********99983 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0   0.00036      0.38      20      48 ..      32      60 ..      24      64 .. 0.80
   2 ?   -1.6   0.0       1.8   1.9e+03     123     159 ..     143     179 ..     123     211 .. 0.58

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00036
                   AAA_30 20 vavltGpAGtGKttalkalreaweaaggr 48
                             ++   Gp G GKtt+l+ ++ + e+  g+
  PHY93_15430|PHY93_15430 32 FVSFLGPSGCGKTTTLRMIAGLEENTHGK 60
                             66678**************9998887555 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 1.8
                   AAA_30 123 GDerQlasVeaGgvlrdlveaagigtaeLtevvRqke 159
                              G ++Q  +  +G v+r  +   + +  +L+   R k 
  PHY93_15430|PHY93_15430 143 GGQQQRVALARGLVMRPRILLLDEPLSNLDAKLREKM 179
                              5555555555555555433333334444444444443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (244 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       842  (0.046963); expected 358.6 (0.02)
Passed bias filter:                      586  (0.0326845); expected 358.6 (0.02)
Passed Vit filter:                        85  (0.00474092); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              17  [number of targets reported over threshold]
# CPU time: 0.62u 0.30s 00:00:00.92 Elapsed: 00:00:00.47
# Mc/sec: 1554.53
//
Query:       PHY93_15435|PHY93_15435  [L=147]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.8e-15   55.0   0.2    7.5e-15   54.4   0.2    1.3  1  Cupin_2          Cupin domain
    1.4e-06   28.3   0.0    1.7e-06   28.0   0.0    1.3  1  MannoseP_isomer  Mannose-6-phosphate isomerase
    0.00011   22.1   0.0    0.00012   21.9   0.0    1.1  1  EutQ             Ethanolamine utilisation protein EutQ
    0.00072   19.2   0.0     0.0011   18.6   0.0    1.3  1  Cupin_1          Cupin
     0.0022   18.1   0.0     0.0037   17.4   0.0    1.5  1  CENP-C_C         Mif2/CENP-C like
     0.0028   17.4   0.0     0.0033   17.2   0.0    1.3  1  Cupin_6          Cupin
     0.0055   16.4   0.0     0.0096   15.7   0.0    1.3  1  Cupin_8          Cupin-like domain
     0.0059   16.3   0.0     0.0089   15.7   0.0    1.3  1  Cupin_3          Protein of unknown function (DUF861)
     0.0067   16.9   0.1      0.087   13.3   0.0    2.1  2  JmjC             JmjC domain, hydroxylase
  ------ inclusion threshold ------
      0.016   15.1   0.2      0.025   14.5   0.1    1.4  1  AraC_binding     AraC-like ligand binding domain
      0.029   13.8   0.0      0.053   13.0   0.0    1.4  1  Cupin_4          Cupin superfamily protein
       0.12   12.3   0.1       0.22   11.5   0.1    1.5  1  Cupin_7          ChrR Cupin-like domain


Domain annotation for each model (and alignments):
>> Cupin_2  Cupin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.4   0.2     5e-18   7.5e-15       3      70 ..      70     138 ..      68     139 .. 0.87

  Alignments for each domain:
  == domain 1  score: 54.4 bits;  conditional E-value: 5e-18
                              EEEETTEEEEEEC.SSSEEEEEEEEESEEEEEECTEEEEEETTEEEEE-TT-EEEEEE-SSS-EEEEEE CS
                  Cupin_2   3 velppGesapshr.HpgedeffyVleGegeltvdgeeveleaGdsvyfpagtpHrfrNtgdeparllvv 70 
                              v  +p +s++    H+g de++ Vl+G++e+ + +++ +l++Gds+++p+gt Hr+ Ntg+  a+ ++v
  PHY93_15435|PHY93_15435  70 VLAEPTQSTGDKFlHHGGDETLLVLSGHLEVDLHDHKEKLNPGDSLFIPRGTLHRVTNTGTVNAEAIFV 138
                              55567775555555***********************************************99998876 PP

>> MannoseP_isomer  Mannose-6-phosphate isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.0   0.0   1.2e-09   1.7e-06      80     135 ..      83     138 ..      33     146 .. 0.83

  Alignments for each domain:
  == domain 1  score: 28.0 bits;  conditional E-value: 1.2e-09
          MannoseP_isomer  80 khhhraehWvvvkGtakvtvddevlllkenestyiplgaihrlenpGkipleliev 135
                               hh   e  +v++G  +v  +d++ +l+  +s +ip g++hr+ n G ++ e i v
  PHY93_15435|PHY93_15435  83 LHHGGDETLLVLSGHLEVDLHDHKEKLNPGDSLFIPRGTLHRVTNTGTVNAEAIFV 138
                              466678999****************************************9998866 PP

>> EutQ  Ethanolamine utilisation protein EutQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.9   0.0     8e-08   0.00012      10     149 ..       1     143 [.       1     146 [. 0.78

  Alignments for each domain:
  == domain 1  score: 21.9 bits;  conditional E-value: 8e-08
                     EutQ  10 vrkvikeklglekaeqsesfkkkvdksGilsvklidvkvkkedrldt.gnPkdvvltkdlvtleeskrlgaGlmemkettfdwtln 94 
                              ++++i  ++ +ek++ +++ k+  ++  i   k i+++v+++ +l   g P +  + k    + +s  + + l e  ++t d +l+
  PHY93_15435|PHY93_15435   1 MKEIIMPQQEQEKENITNKNKSMLQQPDIALDKAIVTRVNQRRKLSIhGTPIQ--YQKITPPGTKSMAMFMVLAEPTQSTGDKFLH 84 
                              67899999999999999999999999999999999******999985255543..3333345666667777788889999*****9 PP

                     EutQ  95 y..deidyvieGrldvlidGrkvvaeaGdviliPkgskiefsvtd..eakflyvayPad 149
                              +  de  +v+ G+l+v    +k   ++Gd ++iP+g+  + + t+  +a  ++v  P +
  PHY93_15435|PHY93_15435  85 HggDETLLVLSGHLEVDLHDHKEKLNPGDSLFIPRGTLHRVTNTGtvNAEAIFVLSPPE 143
                              7679*************999999*************86655554411566777777766 PP

>> Cupin_1  Cupin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.0   7.2e-07    0.0011      56     115 ..      89     141 ..      56     146 .. 0.77

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 7.2e-07
                              EEEEEEESEEEEEEEETTSS.EEEEEEEETTEEEEE-TT-EEEEEEESSSSEEEEEEEES CS
                  Cupin_1  56 eiayvlqGegrvgfvvpgngnrdfhkklreGdvfvvPaglvhfqynsgdepavaivvfdt 115
                              e + vl G +    v      +d + kl++Gd + +P+g  h + n+g  +a ai+v++ 
  PHY93_15435|PHY93_15435  89 ETLLVLSGHLE---VDL----HDHKEKLNPGDSLFIPRGTLHRVTNTGTVNAEAIFVLSP 141
                              45555555555...333....355567*********************999999999876 PP

>> CENP-C_C  Mif2/CENP-C like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.0   2.5e-06    0.0037      37      84 ..      91     138 ..      52     139 .. 0.85

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 2.5e-06
                              EEEEESEEEEEETTEEEEEETT-EEEE-TT-EEEEEE-SSS-EEEEEE CS
                 CENP-C_C  37 FyViqGrvevtvsktsfvigkgsvFqvPagneysieNklnkeaklfFv 84 
                                V+ G++ev++++++  + +g++  +P+g    ++N++  +a+  Fv
  PHY93_15435|PHY93_15435  91 LLVLSGHLEVDLHDHKEKLNPGDSLFIPRGTLHRVTNTGTVNAEAIFV 138
                              579***********************************9999888775 PP

>> Cupin_6  Cupin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.0   2.2e-06    0.0033      36      86 ..      90     137 ..      60     147 .] 0.81

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 2.2e-06
                  Cupin_6  36 lhvvlrGscwlidpasgepvrLsagdvvllpggephvladspgtaplavie 86 
                               ++vl+G++ + +++  +  +L++gd +++p+g+ h++  ++gt  +++i 
  PHY93_15435|PHY93_15435  90 TLLVLSGHLEVDLHD--HKEKLNPGDSLFIPRGTLHRV-TNTGTVNAEAIF 137
                              5799********888..557******************.666665555554 PP

>> Cupin_8  Cupin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   6.4e-06    0.0096     213     239 ..     106     130 ..      97     140 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 6.4e-06
                  Cupin_8 213 evtlnaGevLylPalWfHeVkslaeep 239
                              + +ln+G+ L++P++ +H+V+++  + 
  PHY93_15435|PHY93_15435 106 KEKLNPGDSLFIPRGTLHRVTNT--GT 130
                              5689*****************98..43 PP

>> Cupin_3  Protein of unknown function (DUF861)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   5.9e-06    0.0089      24      61 ..      86     128 ..      75     138 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 5.9e-06
                              SSEEEEEEEECEEEEEETTTEEEEEETTEEEEE-TTE......E CS
                  Cupin_3  24 eedEfcyileGevkvtpeggetvelraGDlvvlpkgl......s 61 
                              + dE+  +l+G+ +v   +  + +l +GD++++p g+      +
  PHY93_15435|PHY93_15435  86 GGDETLLVLSGHLEVDL-HDHKEKLNPGDSLFIPRGTlhrvtnT 128
                              679**************.89999*************97766443 PP

>> JmjC  JmjC domain, hydroxylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   0.1      0.25   3.7e+02      36      63 ..       5      32 ..       2      61 .. 0.56
   2 !   13.3   0.0   5.8e-05     0.087      84     111 ..     108     135 ..      94     138 .. 0.91

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.25
                             EE-GGGHHHHHHHHHHHHHCCSTTGCCT CS
                     JmjC 36 iipeekkeklekvlskknskeqpdllrh 63
                             i+p++++ek ++ ++ k+  +qpd    
  PHY93_15435|PHY93_15435  5 IMPQQEQEKENITNKNKSMLQQPDIALD 32
                             5556666665555555555566665322 PP

  == domain 2  score: 13.3 bits;  conditional E-value: 5.8e-05
                              EE-TT-EEEE-TT-EEEEEESSSEEEEE CS
                     JmjC  84 vqkpgefVfvfpgayHsvfnlgfniaea 111
                              + +pg+ +f++ g+ H v n+g+  aea
  PHY93_15435|PHY93_15435 108 KLNPGDSLFIPRGTLHRVTNTGTVNAEA 135
                              569*******************999987 PP

>> AraC_binding  AraC-like ligand binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.1   1.7e-05     0.025      27      63 ..      91     127 ..      70     143 .. 0.88

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 1.7e-05
                              EEEEEE-EEEEETTEEEEE-TT-EEEE-TTS-EEEEE CS
             AraC_binding  27 hyvteGtgrlrlngrtydlgpGdlfLlppgepHdyes 63 
                               +v++G+  + l ++   l+pGd +++p+g++H+   
  PHY93_15435|PHY93_15435  91 LLVLSGHLEVDLHDHKEKLNPGDSLFIPRGTLHRVTN 127
                              6899*****************************9875 PP

>> Cupin_4  Cupin superfamily protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   3.5e-05     0.053     176     197 ..     105     126 ..      94     137 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 3.5e-05
                              EEEEE-TT-EEEE-TT-EEEEE CS
                  Cupin_4 176 edfvLepGDlLYlPrgviHqgv 197
                              + + L+pGD L++Prg+ H+  
  PHY93_15435|PHY93_15435 105 HKEKLNPGDSLFIPRGTLHRVT 126
                              5678***************975 PP

>> Cupin_7  ChrR Cupin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   0.00015      0.22      41      78 ..      84     125 ..      60     139 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00015
                              E-TT-EEEEEEEEEEEETTEEE....ETTEEEEE-TT-EE-- CS
                  Cupin_7  41 kHpggeeilVLeGvfsdeegdy....paGsylrnppgsshap 78 
                              +H g e  lVL+G+++ + +d+    + G+ l+ p+g+ h+ 
  PHY93_15435|PHY93_15435  84 HHGGDETLLVLSGHLEVDLHDHkeklNPGDSLFIPRGTLHRV 125
                              355556679****99887777744336788888888888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (147 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       543  (0.0302861); expected 358.6 (0.02)
Passed bias filter:                      425  (0.0237046); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.48u 0.24s 00:00:00.72 Elapsed: 00:00:00.43
# Mc/sec: 1021.92
//
Query:       PHY93_15440|PHY93_15440  [L=143]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (143 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       358  (0.0199677); expected 358.6 (0.02)
Passed bias filter:                      275  (0.0153383); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.45
# Mc/sec: 960.57
//
Query:       PHY93_15445|PHY93_15445  [L=46]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (46 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       819  (0.0456802); expected 358.6 (0.02)
Passed bias filter:                      333  (0.0185733); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.24s 00:00:00.64 Elapsed: 00:00:00.42
# Mc/sec: 326.09
//
Query:       PHY93_17170|PHY93_17170  [L=380]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.1e-26   90.7   0.0    1.5e-25   90.0   0.0    1.3  1  Glycos_transf_2  Glycosyl transferase family 2
    8.5e-18   65.1   0.0    1.1e-17   64.7   0.0    1.1  1  Glyco_tranf_2_3  Glycosyltransferase like family 2
    2.9e-06   27.4   0.9      5e-06   26.6   0.9    1.4  1  Glyco_trans_2_3  Glycosyl transferase family group 2
    3.1e-06   26.8   0.0    7.3e-06   25.6   0.0    1.7  1  Glyco_transf_21  Glycosyl transferase family 21
    4.4e-05   23.1   0.1    6.3e-05   22.6   0.1    1.2  1  Glyco_tranf_2_2  Glycosyltransferase like family 2
     0.0027   18.2   0.0     0.0051   17.3   0.0    1.5  1  Glyco_tranf_2_4  Glycosyl transferase family 2


Domain annotation for each model (and alignments):
>> Glycos_transf_2  Glycosyl transferase family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   90.0   0.0     5e-29   1.5e-25       1     166 [.      45     208 ..      45     211 .. 0.95

  Alignments for each domain:
  == domain 1  score: 90.0 bits;  conditional E-value: 5e-29
                              EEEEEESS-TTTHHHHHHHHHHH.GGCCEEEEEEEEES-SSCHHHHHGGGCHC-TTEEEEEESSS-HHHHHHHHHHHH--SSEEEE CS
          Glycos_transf_2   1 svviptyNeektlletlesllaq.dpypdfeiivvDDgStDetveileelakedprvrvirreenvGkagalnaglraatgdyilf 85 
                              s  i +yNee+t+++ ++  l+  +p++++eiivv DgStD+t +i+ ++   + ++r++r e +vGk  a+n+++ a + ++i+f
  PHY93_17170|PHY93_17170  45 SLLIAAYNEESTIAAKIKNSLELdYPKEKIEIIVVSDGSTDKTDQIVNSFE--NLGIRLFRVEGRVGKTEARNQAVLAMRKEIIVF 128
                              6789**********************************************6..7******************************** PP

                              EESSEEE-TTHHHHHHHHHHH.TTCEEEEEEEEEECCCCCCCHC-SSEEEECCHCCCCHCCCCCCSTTCSTCCCEEEEHHH CS
          Glycos_transf_2  86 lDaDdepdpdwleklvealekdgadvvlgqrprifgetdeiernkrvgenerlyfkerkrslkgnlsfeigsaallrreal 166
                               Da  ++++d + klv+ + ++ +++v g+  ++++e+ ++  +++  +++   + ++ +s+ ++l++ +g+  ++rr+++
  PHY93_17170|PHY93_17170 129 SDATAVYEKDAILKLVRNFADPSVGMVSGNLSYFEKEKSTMGFATKL-YWTYETTIKKAQSRLYSLTGAVGCINAFRRRLY 208
                              *******************************************9995.788888888888999999999999999999865 PP

>> Glyco_tranf_2_3  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.7   0.0   3.6e-21   1.1e-17       1     228 [.      42     259 ..      42     261 .. 0.84

  Alignments for each domain:
  == domain 1  score: 64.7 bits;  conditional E-value: 3.6e-21
          Glyco_tranf_2_3   1 prdlavlVptfneedvlgevlesllaqeypr..vevvvvvdesdaetlevaeelaaalpdvrvrvvvnarnlgstgksralnealr 84 
                              p  +++l++++nee+++ + + + l  +yp   +e++vv d+s+++t + +      +++ ++r+ ++ +  g+ gk +a n+a+ 
  PHY93_17170|PHY93_17170  42 PE-VSLLIAAYNEESTIAAKIKNSLELDYPKekIEIIVVSDGSTDKTDQIVN----SFENLGIRLFRV-E--GRVGKTEARNQAVL 119
                              55.9*************************7778*************988776....59*99***8644.3..566899999***** PP

          Glyco_tranf_2_3  85 avksdlvllvDdDtvvePdtlkrllqffltpkvgavgtpv.fllnrstlvsalgalefaerhlrflaarral.gvltlnGsgslir 168
                              a + +++++ D+ +v e+d++ +l++ f++p+vg+v ++  +++ +++++ ++++l+ + + + + +a+ +l + +   G + ++r
  PHY93_17170|PHY93_17170 120 AMRKEIIVFSDATAVYEKDAILKLVRNFADPSVGMVSGNLsYFEKEKSTMGFATKLYWTYETT-IKKAQSRLySLTGAVGCINAFR 204
                              ********************999999999**********978899888888888885444444.2222222202233338899*** PP

          Glyco_tranf_2_3 169 revlkelegldplflltdDyelglrlrragfrtayvpgaavrevfpsslkayikqrnRwv 228
                              r+++  l    p   + +D+   l++ ++g+r++y ++a+ +e ++++ ++ ++ r R +
  PHY93_17170|PHY93_17170 205 RRLYYVL----P-PKIIEDFTEPLMIIAQGYRIVYEEEAVSYERTTQKASQEFHMRVRVI 259
                              ****999....4.7899***********************99999998888888887765 PP

>> Glyco_trans_2_3  Glycosyl transferase family group 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.6   0.9   1.7e-09     5e-06       1     193 [.     125     328 ..     125     338 .. 0.61

  Alignments for each domain:
  == domain 1  score: 26.6 bits;  conditional E-value: 1.7e-09
          Glyco_trans_2_3   1 iilllDaDtvlppdclreiaaelaspevaivqgpvlvm.nvanwleelaalffaedhgkdilvrealgrvvpsvGsgaflrrsalq 85 
                              ii++ Da  v   d ++++++ +a+p v++v+g+  +    ++ +    +l ++   + +   +++l + +  vG + ++rr++  
  PHY93_17170|PHY93_17170 125 IIVFSDATAVYEKDAILKLVRNFADPSVGMVSGNLSYFeKEKSTMGFATKLYWTYE-TTIKKAQSRLYSLTGAVGCINAFRRRLYY 209
                              68999999999***********************8886244444433333333322.22333444555555555666666655433 PP

          Glyco_trans_2_3  86 evggwdgdessvsEDfdmglrlqrkGyrvrfvpeslvkekspltlraalrQrkRwayGc.........el....eklil....lvr 154
                                      +  + EDf   l + ++Gyr+++ +e++ +e +      ++  r R ++G          +l    ++ il     ++
  PHY93_17170|PHY93_17170 210 V------LPPKIIEDFTEPLMIIAQGYRIVYEEEAVSYERTTQKASQEFHMRVRVIRGGmegflfafkKLnfkkHYFILfqlfGHK 289
                              3......4678***********************************************8655443332113332111112222222 PP

          Glyco_trans_2_3 155 llgylgsllwsalplhlallllfslla...lalvllllllla 193
                               l++l  l++  l+++ + l+++s ++   +   ll ++ll+
  PHY93_17170|PHY93_17170 290 VLRWLIPLFLIFLFAANMTLFISSNNMgvdI---LLGMQLLF 328
                              2344444444444444444444444445552...22222222 PP

>> Glyco_transf_21  Glycosyl transferase family 21
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.6   0.0   2.4e-09   7.3e-06      22     111 ..     114     206 ..     103     252 .. 0.81

  Alignments for each domain:
  == domain 1  score: 25.6 bits;  conditional E-value: 2.4e-09
          Glyco_transf_21  22 llqaleaakydllvisDsdvrvkpdyLeellaaledpkvglVts.lpvgsdak...glaaaleaaflntlagvlqaklsglgfavG 103
                               +qa+ a +++++v+sD++++ ++d++ +l+++++dp vg+V++ l++  ++k   g+a++l   + +t  ++ ++ l  l  avG
  PHY93_17170|PHY93_17170 114 RNQAVLAMRKEIIVFSDATAVYEKDAILKLVRNFADPSVGMVSGnLSYFEKEKstmGFATKLYWTYETTIKKAQSR-LYSLTGAVG 198
                              56889999***********************************955565555522235555544444555555544.777777888 PP

          Glyco_transf_21 104 ksmalrre 111
                                 a+rr+
  PHY93_17170|PHY93_17170 199 CINAFRRR 206
                              88888875 PP

>> Glyco_tranf_2_2  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.6   0.1   2.1e-08   6.3e-05       1     103 [.      45     144 ..      45     171 .. 0.86

  Alignments for each domain:
  == domain 1  score: 22.6 bits;  conditional E-value: 2.1e-08
          Glyco_tranf_2_2   1 svviplraseerhyieervlqkaky.y.deeielivvddgSsekfleevssiidlnllvylkdeddkayslaaarNrGaskaesdl 84 
                              s++i+ +++e +  i  ++++     y  e+ie+ivv dgS++k+ + v+s+ +l  + +     +   +++ arN+ +     ++
  PHY93_17170|PHY93_17170  45 SLLIAAYNEEST--IAAKIKNSLELdYpKEKIEIIVVSDGSTDKTDQIVNSFENLGIRLFRV---EGRVGKTEARNQAVLAMRKEI 125
                              578889999999..999997654431459***********************9999888722...3589***************** PP

          Glyco_tranf_2_2  85 vlFlDaDcfissDkfekil 103
                              ++F Da   +  D + k++
  PHY93_17170|PHY93_17170 126 IVFSDATAVYEKDAILKLV 144
                              ******9999999877665 PP

>> Glyco_tranf_2_4  Glycosyl transferase family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   0.0   1.7e-06    0.0051       1      65 [.      51     117 ..      51     135 .. 0.68

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 1.7e-06
          Glyco_tranf_2_4   1 rneadiLpeflahhlalgf....drilvydndstDgtrailkelpe..vkllhvdksyederrqvellkal 65 
                              +ne+ ++ + ++  l+l++     +i+v++++stD+t++i+ + ++  ++l++v++ + +     e+++++
  PHY93_17170|PHY93_17170  51 YNEESTIAAKIKNSLELDYpkekIEIIVVSDGSTDKTDQIVNSFENlgIRLFRVEGRVGK----TEARNQA 117
                              5888888888888899987543225******************99944557777776643....2222222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (380 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       728  (0.0406046); expected 358.6 (0.02)
Passed bias filter:                      447  (0.0249317); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.55u 0.27s 00:00:00.82 Elapsed: 00:00:00.45
# Mc/sec: 2540.60
//
Query:       PHY93_15450|PHY93_15450  [L=417]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.9e-61  207.8   0.0    1.3e-60  206.0   0.0    1.7  1  Erythro_esteras  Erythromycin esterase


Domain annotation for each model (and alignments):
>> Erythro_esteras  Erythromycin esterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  206.0   0.0   7.4e-65   1.3e-60       1     344 []      59     392 ..      59     392 .. 0.88

  Alignments for each domain:
  == domain 1  score: 206.0 bits;  conditional E-value: 7.4e-65
                              HHHC---EEEEEEEHHHHHHHHHHHHHS-S-GGGT............S-CCC-CHHHHHHHHHHHHHHHSTT-SS--EEEEEE-S- CS
          Erythro_esteras   1 veehGfrtvalEadwpdalrvdryvrggtgdaeea.........krfptwmWrneevlelveWlReyNagrpkkervrfyGlDlqs 77 
                              + +hGf++v +E+dwpd + +++y+ +++g+ ++           r+p+wmW+n+e++e+++  R +N + + ++rv+f+GlDl+s
  PHY93_15450|PHY93_15450  59 IRNHGFQFVSFEGDWPDFEGINKYLLSEAGESKKSindllkenfARWPQWMWANQEMKEFINEVRLHNLSVTPDRRVKFHGLDLYS 144
                              679**************************9999999********************************99999999********** PP

                              --HHHHHHHHHHHHCHCCCCHHHHHHHCCHGGCS......TSSCCCCCHHHHHHHHHHHHCCHGGG.....GGTSHHHHHHHHHHH CS
          Erythro_esteras  78 lresldavldyLakvdpelagaareryaclapladpraarsaeaaelrscedevvallkellakreeyaaedgeaeeffsaeqnar 163
                              +++s++++   L++ dp  a+  ++r+  +   +                +++  +l +++ + ++e+++         sa+qna+
  PHY93_15450|PHY93_15450 145 IQKSAKQIPVLLEELDPIIAKLTSNRLIDI---D---------------FAENTLKLINKIPRPETERKQ-----WLLLSAKQNAK 207
                              *************************96666...3...............223334455554443332333.....34689****** PP

                              HHHHHHHHC.....CSSSSSCHHHHHHHHHHHHHHHHHHHH...HHSSEEEEEEHHHHSSS-STTTT-S..S-HHHHHHHHHGGG. CS
          Erythro_esteras 164 lvknaeryyra...gdeeswnlrllalRDrhMaenleallehe.argkivvwAHNsHigdaratdmgkerglnaGqllrerlgde. 244
                              +v n +r+ ++   +d+  wn      RDrhM+++l  l++h  ++++ +vwAH +H++d r   + + + +++G l++++lgde 
  PHY93_15450|PHY93_15450 208 AVLNGLRFKKSsgiDDDRPWNI-----RDRHMMDTLTSLFNHYgEKARGIVWAHINHVSDIRRVGGMS-T-ISLGGLAKDALGDEa 286
                              **************999*****.....**************99*99*************888777764.4.9*************9 PP

                              EEEEEEEEEEEEEEEC-.......EEEE----TTSHHHHHHCSS-SEEEEEG....-.CHHHHHHEE............EEE---S CS
          Erythro_esteras 245 yvaiGftfgtgtvaaasewgepmevmtvrppppgslEallhaagppdflldl....rneelrewleeprleraiGv..rpeterqs 324
                              + +i+f +++g+v+a s+w++ +++m+v+p+ pgs+E++l  ++ ++ + +l    ++ + +  +++p+  +++ v  +p+ ++q+
  PHY93_15450|PHY93_15450 287 VSLIAFMTYSGKVTASSKWDGSVKTMNVPPAIPGSMESALNLVSLKRNAKNLlllfEKFDKQGPISRPLMYHFVAVvyNPNFDQQE 372
                              999***************************************99666666664434444445555778888999999********* PP

                              B-BTTSHHHH-SEEEEEEEE CS
          Erythro_esteras 325 hyveaslaeqfDalifvdet 344
                              +yv  sl+++fDal f+d+t
  PHY93_15450|PHY93_15450 373 NYVYGSLPNRFDALFFIDKT 392
                              ******************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (417 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       554  (0.0308997); expected 358.6 (0.02)
Passed bias filter:                      477  (0.0266049); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.62u 0.25s 00:00:00.87 Elapsed: 00:00:00.47
# Mc/sec: 2676.22
//
Query:       PHY93_15455|PHY93_15455  [L=168]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.5e-26   91.9   0.3    2.5e-12   47.2   0.1    2.0  2  Nitroreductase  Nitroreductase family
    8.6e-15   54.9   0.0    5.6e-14   52.2   0.0    1.8  1  TM1586_NiRdase  Putative TM nitroreductase
  ------ inclusion threshold ------
      0.097   11.9   0.0       0.12   11.6   0.0    1.2  1  Malic_M         Malic enzyme, NAD binding domain


Domain annotation for each model (and alignments):
>> Nitroreductase  Nitroreductase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.9   0.0   2.1e-15   1.2e-11       1      59 [.       7      65 ..       7      67 .. 0.96
   2 !   47.2   0.1   4.2e-16   2.5e-12      82     170 .]      64     148 ..      61     148 .. 0.89

  Alignments for each domain:
  == domain 1  score: 44.9 bits;  conditional E-value: 2.1e-15
                             HHH--B---B-S----HHHHHHHHHHHHTS--GGG---EEEEEE.-CCCHHHHHHHHHH CS
           Nitroreductase  1 irkRrSiRkFddepvpkeelekileaarraPsagnlqpwrfvvvqdkelryklaeaale 59
                             i kR+SiR+Fd++ ++  +le++l+  + aPsag lq+ ++v+v+d+  r++la aal+
  PHY93_15455|PHY93_15455  7 IHKRHSIRQFDSKEIDVKKLESLLQIISSAPSAGDLQSYELVLVKDQSHREALAHAALG 65
                             679**************************************************999876 PP

  == domain 2  score: 47.2 bits;  conditional E-value: 4.2e-16
                              HHHHHHHHSSEEEEE---TTS---HHHHHH.HHHHHHHHHHHHHHHHHHHHHTT-EEEEE-GGGGGHHHHHHHHT-S..SEEEEEE CS
           Nitroreductase  82 kaqkalagapvlivivatldkserkaaera.yryalldagaaaqnllLaAtalGlgscpiggfdeaaeevrkllglpdeeeivvli 166
                              + q+++++apv++v+ a++d++++k++ r+   y+++da +aa+  +LaA +lGl++ ++g+fde++  vr++ g     ++++++
  PHY93_15455|PHY93_15455  64 LGQEFIHTAPVVLVFCANADRAKQKYGHRGeILYSVQDATIAATYAQLAAVELGLATTWVGAFDEEY--VRDIVGEL---KPICIM 144
                              6799***********888888888887665168**********************************..**999844...79**** PP

                              EEE- CS
           Nitroreductase 167 avGy 170
                              ++Gy
  PHY93_15455|PHY93_15455 145 PIGY 148
                              ***9 PP

>> TM1586_NiRdase  Putative TM nitroreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.2   0.0   9.5e-18   5.6e-14       3     151 ..       4     167 ..       2     168 .] 0.80

  Alignments for each domain:
  == domain 1  score: 52.2 bits;  conditional E-value: 9.5e-18
                              HHHHHH--B---B--S---HHHHHHHHH-----S....S-----EE.E................-SSSSEEEE----SSHHHHHHH CS
           TM1586_NiRdase   3 yeaiekRhsvRkYkdealeeelleelkeaieeinkes.glelqlvidenkafkskvakl...gkfkgvpnyialvgekkedleeka 84 
                              ++ i+kRhs+R++++++++ ++le l + i++  ++    +++lv  + ++ ++++a+    ++f  ++ ++++++ + +++++k+
  PHY93_15455|PHY93_15455   4 LDVIHKRHSIRQFDSKEIDVKKLESLLQIISSAPSAGdLQSYELVLVKDQSHREALAHAalgQEFIHTAPVVLVFCANADRAKQKY 89 
                              679*****************************9998843457777777777777777662223566777888888888899***** PP

                              HHHHHHHH.............HHHHHTT-EEEEES--SST...........T-S-EEEEE-BS----.-----HHHHBSS CS
           TM1586_NiRdase  85 GYygeqlv.............LkltalGlgtcWvggtykkkkakvelkkgeklvivIalGyaktklveakrkpleelcev 151
                              G  ge l              L +++lGl+t Wvg+ ++++++  ++  + k ++++ +Gy+++k  ++ r+p+++++++
  PHY93_15455|PHY93_15455  90 GHRGEILYsvqdatiaatyaqLAAVELGLATTWVGA-FDEEYV-RDIVGELKPICIMPIGYPAEKPEPTPRRPIKDITHY 167
                              *999965333333333444449999**********6.777777.899*****************************9987 PP

>> Malic_M  Malic enzyme, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   2.1e-05      0.12     112     156 ..     114     159 ..      74     166 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 2.1e-05
                              EEEE-.SSSSS-S-HHHHHHHHHHSSS-EEEE--SSGGGSSS-HHH CS
                  Malic_M 112 vliGl.sgvagafteeivremaksterPiilplSNPtskaEataed 156
                              v +Gl ++  gaf+ee vr++    +   i+p+  P +k E t++ 
  PHY93_15455|PHY93_15455 114 VELGLaTTWVGAFDEEYVRDIVGELKPICIMPIGYPAEKPEPTPRR 159
                              5567615668***************9999************99975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (168 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       559  (0.0311785); expected 358.6 (0.02)
Passed bias filter:                      506  (0.0282224); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.53u 0.25s 00:00:00.78 Elapsed: 00:00:00.47
# Mc/sec: 1083.62
//
Query:       PHY93_15460|PHY93_15460  [L=290]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.4e-37  129.7  26.4    1.7e-37  129.5  26.4    1.0  1  Virul_fac_BrkB  Virulence factor BrkB
  ------ inclusion threshold ------
      0.096   13.1   0.2        1.1    9.7   0.0    2.2  2  FhuF            Ferric iron reductase FhuF-like transporter


Domain annotation for each model (and alignments):
>> Virul_fac_BrkB  Virulence factor BrkB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  129.5  26.4   1.9e-41   1.7e-37       2     256 ..      28     283 ..      27     284 .. 0.90

  Alignments for each domain:
  == domain 1  score: 129.5 bits;  conditional E-value: 1.9e-41
           Virul_fac_BrkB   2 eddlsllAaalayytllSlfPlllvllavlgllglddelqeqlldllaevlpegaaevvedilqrllnqaslgllglavllwsasg 87 
                              +++++llA+a+ayy+llSl+Pll++++  l+ +  + el ++l ++l+  lp++   ++ ++ + l+++  +g + l+++l+ +s 
  PHY93_15460|PHY93_15460  28 SNQGFLLAGAVAYYSLLSLVPLLIIVVIALSHVIDQAELLQTLGRYLEWALPGQSKPILIELANFLAHRDVVGWMLLVTMLFFSSL 113
                              5899**************************984436677777777777779987777777777777788899999999999***** PP

           Virul_fac_BrkB  88 gvsalrralnkiygv...eesrsflrkrllsllllllllvllllslvlsvflqslllasapllglglelsellllqllrwlvalll 170
                              ++s l++a+  i+ +    ++r+fl++ +l  ++ + l++ lll++++s  lq +  +++ +++ +++l+   +  +l +l+ l+ 
  PHY93_15460|PHY93_15460 114 AFSVLENAMSVIFIHrvaIRRRHFLVSAILPYCYNVFLGIGLLLMTLVSGRLQTMGSENIEFMNHHWSLTG--ISGVLLYLLGLCG 197
                              ***********985555766899*******************************99999988887776633..578888889999* PP

           Virul_fac_BrkB 171 lvlafallYrvlpnvkvrlraalpGallaallwllvkilfslylsnfasynaiYGslgaliilllWlylsalilLlGaelnaelqe 256
                               +l+++ +Y+v+p  k +lr+al+G++ aallw+++++++++y++  ++++ +YGsl++ i++ll l + al+lL+Ga+++ e+++
  PHY93_15460|PHY93_15460 198 EILVITSIYMVMPVGKISLRHALIGGVTAALLWEITRHILVWYFATLSKVSVVYGSLTTAIVVLLSLEIAALFLLFGAQVISEYEQ 283
                              ***********************************************************************************987 PP

>> FhuF  Ferric iron reductase FhuF-like transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   0.1      0.05   4.5e+02     102     124 ..      56      78 ..      38      98 .. 0.83
   2 ?    9.7   0.0   0.00012       1.1     105     130 ..     222     247 ..     213     278 .. 0.87

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.05
                              HHTTSS-HHHHHHHHHHHHHHHH CS
                     FhuF 102 aaagglsekllWsnvaellewyl 124
                              a  + +++++l++ ++++lew+l
  PHY93_15460|PHY93_15460  56 ALSHVIDQAELLQTLGRYLEWAL 78 
                              446778999************97 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.00012
                              TSS-HHHHHHHHHHHHHHHHHHSGGG CS
                     FhuF 105 gglsekllWsnvaellewylaelpel 130
                              gg++ +llW++++ +l wy+a+l + 
  PHY93_15460|PHY93_15460 222 GGVTAALLWEITRHILVWYFATLSKV 247
                              7999*****************99655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (290 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       722  (0.04027); expected 358.6 (0.02)
Passed bias filter:                      242  (0.0134977); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1913.57
//
Query:       PHY93_15465|PHY93_15465  [L=66]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.3e-09   37.0   0.3    5.8e-09   36.6   0.3    1.2  1  ABC_tran        ABC transporter
    5.4e-05   22.8   0.2    6.2e-05   22.7   0.2    1.2  1  AAA_29          P-loop containing region of AAA domain
     0.0016   18.4   0.1     0.0016   18.4   0.1    1.2  1  RsgA_GTPase     RsgA GTPase
     0.0089   15.8   0.0     0.0089   15.8   0.0    1.0  1  IstB_IS21       IstB-like ATP binding protein
     0.0092   16.4   0.0       0.01   16.2   0.0    1.1  1  AAA_16          AAA ATPase domain
  ------ inclusion threshold ------
      0.022   15.3   0.1      0.022   15.3   0.1    1.1  1  AAA_23          AAA domain
      0.027   14.2   0.1       0.03   14.1   0.1    1.1  1  Cytidylate_kin  Cytidylate kinase
      0.031   14.6   0.0      0.042   14.1   0.0    1.2  1  AAA_22          AAA domain
      0.035   14.0   0.0      0.045   13.7   0.0    1.1  1  NACHT           NACHT domain
      0.042   13.6   0.2      0.052   13.3   0.2    1.2  1  AAA_24          AAA domain
      0.054   12.7   0.2      0.071   12.3   0.2    1.3  1  NB-ARC          NB-ARC domain
      0.063   13.0   0.1      0.069   12.9   0.1    1.1  1  AAA_30          AAA domain
      0.065   13.0   0.0      0.079   12.7   0.0    1.2  1  AAA_21          AAA domain, putative AbiEii toxin, Type IV TA
      0.074   13.4   0.1        0.1   13.0   0.1    1.3  1  RNA_helicase    RNA helicase
      0.075   12.5   0.1      0.075   12.5   0.1    1.2  1  SMC_N           RecF/RecN/SMC N terminal domain
      0.091   12.2   0.1      0.091   12.2   0.1    1.1  1  PhoH            PhoH-like protein
      0.094   13.3   0.4       0.16   12.6   0.2    1.4  1  AAA_18          AAA domain
        0.1   11.9   0.2       0.11   11.8   0.2    1.0  1  FtsK_SpoIIIE    FtsK/SpoIIIE family
        0.1   12.1   0.0       0.12   12.0   0.0    1.1  1  AAA_25          AAA domain
       0.12   12.5   0.0       0.17   12.0   0.0    1.3  1  MMR_HSR1        50S ribosome-binding GTPase
       0.12   12.5   0.1       0.12   12.4   0.1    1.2  1  DUF87           Helicase HerA, central domain
       0.12   11.4   0.0       0.14   11.2   0.0    1.1  1  DUF3987         Protein of unknown function (DUF3987)
       0.13   11.3   0.1       0.13   11.3   0.1    1.0  1  T2SSE           Type II/IV secretion system protein
       0.14   12.3   0.2       0.19   11.9   0.2    1.1  1  AAA_33          AAA domain
       0.14   12.1   0.0       0.15   12.0   0.0    1.1  1  Rad17           Rad17 P-loop domain
       0.17   11.6   0.1        0.3   10.8   0.0    1.4  2  ATP_bind_1      Conserved hypothetical ATP binding protein
       0.23   11.7   0.0       0.28   11.4   0.0    1.1  1  AAA_28          AAA domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.6   0.3   8.7e-12   5.8e-09       1      43 [.      21      63 ..      21      66 .] 0.92

  Alignments for each domain:
  == domain 1  score: 36.6 bits;  conditional E-value: 8.7e-12
                             EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEE CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeil 43
                             l+ +sl++ eg  vai+G++G+GKStL+ ++  l  pt G+ +
  PHY93_15465|PHY93_15465 21 LQGISLTILEGDYVAIMGPSGSGKSTLMHIMGLLDIPTGGSYK 63
                             689****************************999999999865 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.7   0.2   9.4e-08   6.2e-05      17      39 ..      26      48 ..      18      62 .. 0.76

  Alignments for each domain:
  == domain 1  score: 22.7 bits;  conditional E-value: 9.4e-08
                   AAA_29 17 ieidlkg.atlltGpsGsGKSTll 39
                             ++i + g  + ++GpsGsGKSTl+
  PHY93_15465|PHY93_15465 26 LTILE-GdYVAIMGPSGSGKSTLM 48
                             55543.4499*************9 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.1   2.4e-06    0.0016      95     117 ..      27      49 ..       2      60 .. 0.82

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 2.4e-06
                              HHCTTSEEEEECSTTSSHHHHHH CS
              RsgA_GTPase  95 ellkdktsvlvGqSGvGKStLin 117
                              + l+++ ++++G+SG GKStL+ 
  PHY93_15465|PHY93_15465  27 TILEGDYVAIMGPSGSGKSTLMH 49 
                              4678899**************86 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.0   1.3e-05    0.0089      29      73 ..      12      57 ..       2      65 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 1.3e-05
                IstB_IS21 29 sldkrkvkeLatlsf.iekkenivllGpsGvGKshlaialgveavr 73
                             ++ +++v++L++ s  i + + ++++GpsG GKs l   +g   + 
  PHY93_15465|PHY93_15465 12 KMGENIVHALQGISLtILEGDYVAIMGPSGSGKSTLMHIMGLLDIP 57
                             5567778888887763678899**************9999986665 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0   1.6e-05      0.01       7      41 ..      16      48 ..      13      55 .. 0.80

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 1.6e-05
                   AAA_16  7 eeleqLlsalervrsgrpelvllsGesGvGKsslv 41
                             + +++L+ +  ++ +g   +v + G+sG+GKs+l+
  PHY93_15465|PHY93_15465 16 NIVHALQGISLTILEG--DYVAIMGPSGSGKSTLM 48
                             5666666666677777..58*************97 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.3   0.1   3.2e-05     0.022      21      37 ..      33      49 ..       2      54 .. 0.76

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 3.2e-05
                   AAA_23 21 ltlItGpNGaGKTTild 37
                              ++I Gp G+GK+T++ 
  PHY93_15465|PHY93_15465 33 YVAIMGPSGSGKSTLMH 49
                             579************95 PP

>> Cytidylate_kin  Cytidylate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.1   4.5e-05      0.03       1      19 [.      34      52 ..      34      65 .. 0.88

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 4.5e-05
                             EEEE-STTSSHHHHHHHHH CS
           Cytidylate_kin  1 iaiDGPagsGKssvarala 19
                             +ai GP+gsGKs++ ++++
  PHY93_15465|PHY93_15465 34 VAIMGPSGSGKSTLMHIMG 52
                             79************98875 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   6.3e-05     0.042       8      23 ..      34      49 ..      29      55 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 6.3e-05
                   AAA_22  8 lvvtGesGtGKTtllr 23
                             ++++G+sG+GK+tl+ 
  PHY93_15465|PHY93_15465 34 VAIMGPSGSGKSTLMH 49
                             689**********986 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   6.8e-05     0.045       2      18 ..      33      49 ..      32      56 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 6.8e-05
                             CEEEEC-TTTCHHHHHH CS
                    NACHT  2 lvilqGeaGsGKTtLlq 18
                             +v++ G++GsGK+tL++
  PHY93_15465|PHY93_15465 33 YVAIMGPSGSGKSTLMH 49
                             799************97 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.2   7.8e-05     0.052       5      22 ..      34      51 ..      31      63 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 7.8e-05
                   AAA_24  5 iliyGpsgiGKTtlakel 22
                             ++i+Gpsg+GK+tl+  +
  PHY93_15465|PHY93_15465 34 VAIMGPSGSGKSTLMHIM 51
                             79************9766 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.2   0.00011     0.071      21      38 ..      32      49 ..      12      54 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00011
                             EEEEEEESTTSSHHHHHH CS
                   NB-ARC 21 lvvalvGmgGvGKttlak 38
                             + va++G  G+GK+tl++
  PHY93_15465|PHY93_15465 32 DYVAIMGPSGSGKSTLMH 49
                             589*************85 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.1    0.0001     0.069      16      37 ..      30      50 ..      21      62 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 0.0001
                   AAA_30 16 sgdrvavltGpAGtGKttalka 37
                             +gd ++++ Gp G+GK+t++  
  PHY93_15465|PHY93_15465 30 EGD-YVAIMGPSGSGKSTLMHI 50
                             444.899************975 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   0.00012     0.079       3      22 ..      35      54 ..      33      65 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 0.00012
                   AAA_21  3 vliGpNgsGKSnLLdaldll 22
                             ++ Gp gsGKS+L+ ++ ll
  PHY93_15465|PHY93_15465 35 AIMGPSGSGKSTLMHIMGLL 54
                             689***********999887 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.1   0.00016       0.1       2      17 ..      35      50 ..      34      63 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 0.00016
             RNA_helicase  2 wlyGpsgeGKStlake 17
                              + Gpsg GKStl++ 
  PHY93_15465|PHY93_15465 35 AIMGPSGSGKSTLMHI 50
                             689***********97 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.1   0.00011     0.075      25      42 ..      32      49 ..       4      54 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 0.00011
                             SEEEEEESTTSSHHHHHH CS
                             xxxxxxxxxxxxxxxxxx RF
                    SMC_N 25 sftaivGpNGSGKsnlld 42
                                ai+Gp GSGKs l+ 
  PHY93_15465|PHY93_15465 32 DYVAIMGPSGSGKSTLMH 49
                             5789**********9986 PP

>> PhoH  PhoH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.1   0.00014     0.091      16      41 ..      28      53 ..       7      64 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 0.00014
                             HHH-SEEEEE--TTSSTTHHHHHHHH CS
                     PhoH 16 lkkndivfaiGpaGtGKtylavalav 41
                             + + d v ++Gp+G+GK+ l   +++
  PHY93_15465|PHY93_15465 28 ILEGDYVAIMGPSGSGKSTLMHIMGL 53
                             4478899************9999887 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.2   0.00023      0.16       1      15 [.      34      48 ..      34      53 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 0.00023
                   AAA_18  1 IlltGtpGvGKttla 15
                             ++++G++G+GK+tl 
  PHY93_15465|PHY93_15465 34 VAIMGPSGSGKSTLM 48
                             789**********97 PP

>> FtsK_SpoIIIE  FtsK/SpoIIIE family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.2   0.00017      0.11      27      59 ..      13      51 ..       5      54 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00017
                             TS-EEEEEGGGS-.......SEEEE--TTSSHHHHHHHH CS
             FtsK_SpoIIIE 27 sgnplvldlkkma......shllvaGatgsGKStalntL 59
                             +g+++v+ l++          + ++G +gsGKSt ++ +
  PHY93_15465|PHY93_15465 13 MGENIVHALQGISltilegDYVAIMGPSGSGKSTLMHIM 51
                             66666666666666677777899***********98865 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   0.00017      0.12      30      50 ..      28      48 ..      16      54 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00017
                   AAA_25 30 lpagelallaGapgtGKttla 50
                             + +g+ ++++G++g+GK+tl 
  PHY93_15465|PHY93_15465 28 ILEGDYVAIMGPSGSGKSTLM 48
                             668999*************96 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   0.00025      0.17       2      17 ..      34      49 ..      33      55 .. 0.91

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00025
                             EEEEESTTSSHHHHHH CS
                 MMR_HSR1  2 vaivGrpNvGKStLin 17
                             vai+G + +GKStL+ 
  PHY93_15465|PHY93_15465 34 VAIMGPSGSGKSTLMH 49
                             89************96 PP

>> DUF87  Helicase HerA, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   0.00018      0.12      26      42 ..      34      50 ..      11      52 .. 0.93

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.00018
                    DUF87 26 lAilgsTGsGKSntvav 42
                             +Ai+g +GsGKS+++ +
  PHY93_15465|PHY93_15465 34 VAIMGPSGSGKSTLMHI 50
                             7*************976 PP

>> DUF3987  Protein of unknown function (DUF3987)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   0.00021      0.14      38      56 ..      33      51 ..      25      55 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00021
                  DUF3987 38 ytlvvapsGerKSpvdklv 56
                             y+++++psG++KS+++ ++
  PHY93_15465|PHY93_15465 33 YVAIMGPSGSGKSTLMHIM 51
                             899*************665 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.1    0.0002      0.13     104     148 ..       3      50 ..       1      61 [. 0.71

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.0002
                    T2SSE 104 tlddlgaeealkekiaevlr...kavrerglilvsGgTgsGKttllya 148
                              +l++++++ ++ e+i ++l+     + e   + + G+ gsGK+tl+ +
  PHY93_15465|PHY93_15465   3 ELKNISKSYKMGENIVHALQgisLTILEGDYVAIMGPSGSGKSTLMHI 50 
                              5666666667776666665511146677778889**********9865 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.2   0.00028      0.19       3      17 ..      35      49 ..      34      53 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00028
                   AAA_33  3 llvGlpGsGKstlae 17
                              + G++GsGKstl +
  PHY93_15465|PHY93_15465 35 AIMGPSGSGKSTLMH 49
                             578*********975 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   0.00022      0.15      30      65 ..      16      51 ..       5      57 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00022
                    Rad17 30 evkewlkadvLesrkkriLLisGPsGCgkstvvkvL 65
                             ++ ++l+  +L   +   + i GPsG gkst ++++
  PHY93_15465|PHY93_15465 16 NIVHALQGISLTILEGDYVAIMGPSGSGKSTLMHIM 51
                             56667777777777777889***********99986 PP

>> ATP_bind_1  Conserved hypothetical ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0       4.6     3e+03      53      65 ..       4      16 ..       1      27 [. 0.60
   2 ?   10.8   0.0   0.00045       0.3       1      15 [.      36      50 ..      36      55 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 4.6
               ATP_bind_1 53 ledvmedlglgpn 65
                             l+++++ +++g+n
  PHY93_15465|PHY93_15465  4 LKNISKSYKMGEN 16
                             5555566666655 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 0.00045
               ATP_bind_1  1 vvGpaGsGKttfvga 15
                             ++Gp GsGK+t+++ 
  PHY93_15465|PHY93_15465 36 IMGPSGSGKSTLMHI 50
                             79**********986 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00043      0.28       2      17 ..      34      49 ..      33      58 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00043
                   AAA_28  2 ivitGgestGKTtlle 17
                             ++i+G++++GK+tl+ 
  PHY93_15465|PHY93_15465 34 VAIMGPSGSGKSTLMH 49
                             89************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (66 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       341  (0.0190195); expected 358.6 (0.02)
Passed bias filter:                      324  (0.0180713); expected 358.6 (0.02)
Passed Vit filter:                       108  (0.00602376); expected 17.9 (0.001)
Passed Fwd filter:                        27  (0.00150594); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              27  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.43
# Mc/sec: 457.54
//
Query:       PHY93_15470|PHY93_15470  [L=121]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.8e-17   64.0   1.3    2.2e-17   63.7   1.3    1.1  1  Ribosomal_S4  Ribosomal protein S4/S9 N-terminal domain
  ------ inclusion threshold ------
      0.029   14.1   0.0       0.22   11.3   0.0    2.2  2  S4            S4 domain
      0.084   13.4   0.0       0.12   12.9   0.0    1.1  1  DUF4996       Domain of unknown function


Domain annotation for each model (and alignments):
>> Ribosomal_S4  Ribosomal protein S4/S9 N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.7   1.3   3.7e-21   2.2e-17       5      71 ..       9      82 ..       6      95 .. 0.89

  Alignments for each domain:
  == domain 1  score: 63.7 bits;  conditional E-value: 3.7e-21
                             -CHHHHCHCTS-STSSS.......S-S-SSTTTTS-----CHCHHHHHHHHHHHHHT-SHHHHHHHHHHHHHCC CS
             Ribosomal_S4  5 pkckllRrvgfklflkg.......reyppGqhgkrrkklseYgkqlrekqklkrrYgllekqfrryfkearrir 71
                              ++k+ R +g++l + g       r+y pGqhg++rkk+s+++++++ekqkl+++Yg++e q+ +y+k+a++ +
  PHY93_15470|PHY93_15470  9 SRFKIQRSLGIELPGLGkagalerRPYGPGQHGNKRKKISDFAVRMKEKQKLRYHYGIREGQLVNYVKKAKKDK 82
                             68999*****997666699***************************************************9966 PP

>> S4  S4 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.0      0.13   8.1e+02       3      16 ..      71      84 ..      71      89 .. 0.89
   2 ?   11.3   0.0   3.7e-05      0.22       1      26 [.      96     121 .]      96     121 .] 0.98

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 0.13
                             HHHHHHHTTSSSSH CS
                       S4  3 Ldkvlarlglassr 16
                             L ++++++++ +sr
  PHY93_15470|PHY93_15470 71 LVNYVKKAKKDKSR 84
                             7899999*999999 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 3.7e-05
                              EEHHHHHHHTTSSSSHHHHHHHHHTT CS
                       S4   1 rRLdkvlarlglassrreArqlIehG 26 
                              rRL + ++rl  a+s + A q+++hG
  PHY93_15470|PHY93_15470  96 RRLANAIFRLNWAPSMPAANQMVSHG 121
                              7************************9 PP

>> DUF4996  Domain of unknown function
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   1.9e-05      0.12      10      62 ..      41      94 ..      37     101 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 1.9e-05
                             TTHHHHHHHHH.HHT--SEEEEEB--TT-SSHHHHHHHHTTTSEEEEE-SSGGG CS
                  DUF4996 10 peaeelleeyl.kklkpvavevkfkddtsellkkikklkkkgsrlWvntlwasl 62
                             ++++++++++  ++ + + +   +   + +l++++kk+kk++sr W++tl  +l
  PHY93_15470|PHY93_15470 41 GNKRKKISDFAvRMKEKQKLRYHYGIREGQLVNYVKKAKKDKSRAWMETLLITL 94
                             566777777775666677778888889999*******************97655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (121 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       590  (0.0329076); expected 358.6 (0.02)
Passed bias filter:                      434  (0.0242066); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.43
# Mc/sec: 835.62
//
Query:       PHY93_15475|PHY93_15475  [L=283]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.3e-52  178.8   0.1    1.6e-52  178.6   0.1    1.1  1  Aminotran_4  Amino-transferase class IV


Domain annotation for each model (and alignments):
>> Aminotran_4  Amino-transferase class IV
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  178.6   0.1   8.9e-57   1.6e-52       2     223 .]      33     257 ..      32     257 .. 0.93

  Alignments for each domain:
  == domain 1  score: 178.6 bits;  conditional E-value: 8.9e-57
              Aminotran_4   2 lfEtmrvyngeiffldeHleRLrksaellglelpfdeeelrkileelleannsengrlrllvsrgggglg....aatsepsvavyv 83 
                              ++E  r+ n+ +f++++Hl+RL  sa+ ++lel++++e++  ++e++++a + +   lr+++srg ++      + +s+++++++ 
  PHY93_15475|PHY93_15475  33 VYEATRTFNRIPFRIQHHLDRLFFSAQKIELELTYSREDILVLIEQTIKASPHNDIFLRIILSRGTNKDLgldpELSSKNNLIIIT 118
                              9****************************************************************988779*************** PP

              Aminotran_4  84 salppgpeseke..lplvtssdvrrdapsplpgaKtlnyldnvlarreakergadevllvdedgnvtEgstsNvfivkggelitPp 167
                              +a++p p+ +    ++ + ++      +   p  Kt ny +n+la + a ++ga+++++++++g vtEg+tsN+++++++ ++tP+
  PHY93_15475|PHY93_15475 119 KAITPNPDWWLTkgISMIFYQ---KKGHERGPLPKTGNYQENILAYKDAIKKGANDAIMINSEGLVTEGTTSNIWMIRNNIIYTPS 201
                              *******99999444444444...4444444558**************************************************** PP

              Aminotran_4 168 lssgiLpGitrrallelakalgleveereitlkdleeadeafltntlrgvlpvrsi 223
                              l++g+L+G tr++l++la++++l +ee+ +t++d +ea+e+f+++t+r+++pv+ i
  PHY93_15475|PHY93_15475 202 LQDGVLEGLTRKTLIQLAQCKNLAFEEKSLTPNDFQEASECFISSTTRNLVPVTTI 257
                              *****************************************************976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (283 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       307  (0.0171231); expected 358.6 (0.02)
Passed bias filter:                      279  (0.0155614); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.26s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 1910.97
//
Query:       PHY93_15480|PHY93_15480  [L=422]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (422 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       668  (0.0372581); expected 358.6 (0.02)
Passed bias filter:                      396  (0.0220871); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.45
# Mc/sec: 2824.06
//
Query:       PHY93_15485|PHY93_15485  [L=123]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.8e-22   78.0   0.1    6.6e-22   77.8   0.1    1.0  1  Response_reg  Response regulator receiver domain
  ------ inclusion threshold ------
       0.16   12.1   0.0       0.22   11.6   0.0    1.2  1  BRCT_3        BRCA1 C Terminus (BRCT) domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.8   0.1   7.3e-26   6.6e-22       1     111 [.       9     117 ..       9     118 .. 0.95

  Alignments for each domain:
  == domain 1  score: 77.8 bits;  conditional E-value: 7.3e-26
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseeeda 86 
                              vlivdD+p+++el+++ ++  gy ++ +a  g++a+++l+++k+d+++ D +mp+ +G+ +l+ +++     p+ ++ + +++  +
  PHY93_15485|PHY93_15485   9 VLIVDDEPDILELMEEEFKYCGY-TTLTAICGNDAIKILESQKIDIVVSDYKMPNGNGMAVLSFVNKMA-VRPIFFFVSGQADVSV 92 
                              8**********************.999***************************************999.77888888788889** PP

                              HHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  87 vealkagaddflsKpfdpeeLlkal 111
                              ++al+aga++f sKpfd +eL+k +
  PHY93_15485|PHY93_15485  93 EDALRAGAKKFFSKPFDLDELIKEI 117
                              **********************988 PP

>> BRCT_3  BRCA1 C Terminus (BRCT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   2.4e-05      0.22       4      59 ..       5      62 ..       3      77 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 2.4e-05
                   BRCT_3  4 kdlkillvseqkefeelWseilklaGaavvkkekseaee..islgkldvvvtdsscpe 59
                             k+l +l+v +++++ el +e  k +G ++++++  +     ++ +k+d+vv+d ++p+
  PHY93_15485|PHY93_15485  5 KNLTVLIVDDEPDILELMEEEFKYCGYTTLTAICGNDAIkiLESQKIDIVVSDYKMPN 62
                             6899*************************998876555458999**********9996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (123 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       495  (0.0276089); expected 358.6 (0.02)
Passed bias filter:                      430  (0.0239835); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.25s 00:00:00.72 Elapsed: 00:00:00.45
# Mc/sec: 828.79
//
Query:       PHY93_15490|PHY93_15490  [L=120]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.8e-18   64.9   0.0    7.5e-18   64.5   0.0    1.2  1  Glutaredoxin  Glutaredoxin
  ------ inclusion threshold ------
      0.021   14.5   0.0      0.027   14.1   0.0    1.2  1  DUF1411       Protein of unknown function (DUF1411)


Domain annotation for each model (and alignments):
>> Glutaredoxin  Glutaredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.5   0.0   8.4e-22   7.5e-18       1      60 []      37     101 ..      37     101 .. 0.98

  Alignments for each domain:
  == domain 1  score: 64.5 bits;  conditional E-value: 8.4e-22
                              EEEEES.....TSSHHHHHHHHHHHHTTGGEEEEEGCCSHHHHHHHHHHHTSSSSSEEEETTEEE CS
             Glutaredoxin   1 vvlftk.....ptCpyCkkakrlLkelgvkfeeidvdkdeeireelkelsgvrtvPqvfidgkhv 60 
                              ++lf+k     p+C+++++++++L+  gv+f  ++++ d++ir+ +k++s+++t Pq++++g++v
  PHY93_15490|PHY93_15490  37 IMLFMKgtpdmPQCGFSANVVKILNHVGVSFNAFNILSDMDIRDGIKQYSNWPTYPQLYVKGQLV 101
                              799***********************************************************987 PP

>> DUF1411  Protein of unknown function (DUF1411)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0     3e-06     0.027     117     151 ..      24      63 ..      13      77 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 3e-06
                  DUF1411 117 lnkriavllkk.....vtnygPdsPdfgvsenivkvlnkk 151
                              ln ria+l++        + +Pd P+ g s n+vk+ln+ 
  PHY93_15490|PHY93_15490  24 LNTRIATLINSapimlFMKGTPDMPQCGFSANVVKILNHV 63 
                              688999998863322246789*****************86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (120 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       327  (0.0182386); expected 358.6 (0.02)
Passed bias filter:                      297  (0.0165653); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.26s 00:00:00.70 Elapsed: 00:00:00.44
# Mc/sec: 819.27
//
Query:       PHY93_15495|PHY93_15495  [L=84]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-14   54.2   0.1      2e-14   53.6   0.1    1.4  1  BolA      BolA-like protein


Domain annotation for each model (and alignments):
>> BolA  BolA-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.6   0.1   1.1e-18     2e-14      25      73 ..      25      73 ..      10      76 .. 0.88

  Alignments for each domain:
  == domain 1  score: 53.6 bits;  conditional E-value: 1.1e-18
                     BolA 25 aggetHFkvvivseaFegkslvarhRlvyalLkeelakgiHALslktkt 73
                             +g+  H++++ivs++F gk l+++h+lv +lL++ l+++iHA++lkt++
  PHY93_15495|PHY93_15495 25 TGTRDHLDLLIVSDQFIGKMLIQQHQLVMNLLSDSLKAEIHAVQLKTMS 73
                             56789*****************************************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (84 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       432  (0.024095); expected 358.6 (0.02)
Passed bias filter:                      269  (0.0150036); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.25s 00:00:00.68 Elapsed: 00:00:00.43
# Mc/sec: 589.52
//
Query:       PHY93_17175|PHY93_17175  [L=484]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-13   50.6   7.7    1.6e-13   50.6   7.7    3.7  2  Wzy_C     O-Antigen ligase


Domain annotation for each model (and alignments):
>> Wzy_C  O-Antigen ligase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?  -15.4  18.7         1   1.8e+04      23      56 ..      53      86 ..      49     226 .. 0.72
   2 !   50.6   7.7   8.7e-18   1.6e-13       2     155 .]     273     408 ..     272     408 .. 0.75

  Alignments for each domain:
  == domain 1  score: -15.4 bits;  conditional E-value: 1
                    Wzy_C 23 lvalivlliifykrripfllllgilvgvilliil 56
                             +v ++++++++y++  + ++l+++++++i+l i+
  PHY93_17175|PHY93_17175 53 GVFIGLFMLFLYEWGKSGVILPLGFALLITLSIF 86
                             4445555555555555446666666666666555 PP

  == domain 2  score: 50.6 bits;  conditional E-value: 8.7e-18
                    Wzy_C   2 alllsllalflstsRsgiigllvalivlliifykrripfllllgilvgvilliilfvlstnletlknitkafgkldkkkgkdksgs 87 
                              ++ + + ++  s sR++i+g++ +++ +l++  + +   +  l+++vg+ + + +++    +++ +            +  ++s+s
  PHY93_17175|PHY93_17175 273 IFSFYFYLIWQSKSRGAILGIGTLVVSWLWLKARDKK--VATLIVVVGMGISLGVMS---LIQRNA------------EDVEGSTS 341
                              6788999999***********8888888888888888..222223333322222222...222222............8899**** PP

                    Wzy_C  88 sRlyiwkralplikdspilGtGvfdfpqgdligkyyaydtpnivvdkaHNlyLqilvetGiiGlvlfl 155
                               R  +w  al++  ++p+lG+G+ ++ + +li++   +  ++++v+ aH+ +L  l+etG++G+v++l
  PHY93_17175|PHY93_17175 342 NRKIYWIAALNMGIRNPLLGVGYRGYHL-NLIRYTDGNIGTEGQVKTAHSTWLLALAETGLVGFVFYL 408
                              **********************555555.555555556666777899******************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (484 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       822  (0.0458475); expected 358.6 (0.02)
Passed bias filter:                      297  (0.0165653); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.67u 0.24s 00:00:00.91 Elapsed: 00:00:00.49
# Mc/sec: 2943.83
//
Query:       PHY93_15500|PHY93_15500  [L=126]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    0.00095   19.5   6.7     0.0021   18.3   6.7    1.5  1  DUF420          Protein of unknown function (DUF420)
  ------ inclusion threshold ------
      0.012   15.7   4.5      0.034   14.3   4.5    1.8  1  Cytochrom_B561  Eukaryotic cytochrome b561
       0.15   11.6   7.0       0.85    9.1   0.8    2.0  2  ELO             GNS1/SUR4 family
       0.21   11.6   3.5       0.15   12.0   0.7    1.9  2  MRAP            Melanocortin-2 receptor accessory protein fam


Domain annotation for each model (and alignments):
>> DUF420  Protein of unknown function (DUF420)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   6.7   4.7e-07    0.0021      11     125 ..       9     122 ..       1     125 [. 0.71

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 4.7e-07
                   DUF420  11 laavllllglva.i.kkgkieaHrklmllafvlsalFlv.lYllkhalagetkfggpeeegvirpvYlaiLitHivLavvvvplvl 93 
                              +  +l+++ +v+ i k+++++ H  +m++ ++  +l ++ + l ++a+ +          +v   +  +iL +H+ Lav +v++ +
  PHY93_15500|PHY93_15500   9 IQSFLIYALMVFgIsKRKQRRVHVPTMITVLTWDILLILqIELNRKAVEK----------AVKALINPIILNIHVSLAVSCVVFYV 84 
                              33333333222223267889999999999988876654404444444442..........2345666789**************** PP

                   DUF420  94 vtlvlalkg......kfekHrkiaritvpiwlyvavtG 125
                              + ++++ k       +  +Hr +++ ++ +  ++++t 
  PHY93_15500|PHY93_15500  85 LLIYTGRKLlkgqntYRLRHRLFGWTAFALRTLTLITS 122
                              **9999988888988899***********999999986 PP

>> Cytochrom_B561  Eukaryotic cytochrome b561
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   4.5   7.5e-06     0.034      10     130 ..       4     123 ..       1     125 [. 0.71

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 7.5e-06
                              HTHHHHHHHTHHHHS-S...-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT.......--SS-SHHHHHHHHHHHHHHHHHH CS
           Cytochrom_B561  10 fvllmgeaiLvyrvsstrklskktkkllHlilqllalilavvgllavfkskneke.......ianlyslHswlGlvtvilfllqlv 88 
                               v+++ ++ L+y  +++   sk+ ++++H+   +++l+  ++ +l +  ++++ e        + + ++H  l +++v++++l + 
  PHY93_15500|PHY93_15500   4 AVVFQIQSFLIYALMVF-GISKRKQRRVHVPTMITVLTWDILLILQIELNRKAVEkavkaliNPIILNIHVSLAVSCVVFYVLLIY 88 
                              5788899******7555.8899999*****99999999888777666555555542333333355556666666666666665555 PP

                              HHHHHHTSS---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
           Cytochrom_B561  89 lGfvlfllpklskklralllplHvllGlvifvlaivtallGl 130
                              +G       +   k ++++++ H+l+G ++f l ++t+++++
  PHY93_15500|PHY93_15500  89 TG-------RKLLKGQNTYRLRHRLFGWTAFALRTLTLITSF 123
                              55.......3444578889999**************999876 PP

>> ELO  GNS1/SUR4 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.4   0.7    0.0013       5.8       4      48 ..       3      47 ..       1      49 [. 0.89
   2 ?    9.1   0.8   0.00019      0.85       5      46 ..      72     113 ..      68     126 .] 0.83

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.0013
                      ELO  4 sspkvpiliallYlllvllgpklmknrkpfklkalvilhnlflav 48
                             s++ + i  +l+Y+l+v+ ++k  ++r  ++   +v+ + ++l++
  PHY93_15500|PHY93_15500  3 SAVVFQIQSFLIYALMVFGISKRKQRRVHVPTMITVLTWDILLIL 47
                             6677889999*****************99999999****999976 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.00019
                      ELO   5 spkvpiliallYlllvllgpklmknrkpfklkalvilhnlfl 46 
                              ++++++ ++++Y+ll+++g+kl+k ++ ++l++ +  + +f 
  PHY93_15500|PHY93_15500  72 HVSLAVSCVVFYVLLIYTGRKLLKGQNTYRLRHRLFGWTAFA 113
                              67788999****************9999*9999999888775 PP

>> MRAP  Melanocortin-2 receptor accessory protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.1      0.16   7.3e+02      47      69 ..       5      27 ..       2      45 .. 0.70
   2 ?   12.0   0.7   3.4e-05      0.15      28      62 ..      57      91 ..      38     115 .. 0.78

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.16
                     MRAP 47 avfvvllflvLlylsksGspqqr 69
                              vf +  fl+  ++    s +++
  PHY93_15500|PHY93_15500  5 VVFQIQSFLIYALMVFGISKRKQ 27
                             57888889999988776554443 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 3.4e-05
                     MRAP 28 ekkLkankysiviafWvsLavfvvllflvLlylsk 62
                             ek +ka    i++ + vsLav  v+++++L+y  +
  PHY93_15500|PHY93_15500 57 EKAVKALINPIILNIHVSLAVSCVVFYVLLIYTGR 91
                             7889999999************9998888888655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (126 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       928  (0.0517597); expected 358.6 (0.02)
Passed bias filter:                      418  (0.0233142); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.49u 0.28s 00:00:00.77 Elapsed: 00:00:00.47
# Mc/sec: 806.93
//
Query:       PHY93_15505|PHY93_15505  [L=982]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      4e-22   79.2   0.0    9.1e-22   78.0   0.0    1.6  1  Helicase_C_2     Helicase C-terminal domain
    8.3e-16   59.0   0.4    9.9e-15   55.5   0.0    2.8  3  RNase_T          Exonuclease
    2.8e-06   27.2   0.1    0.00019   21.3   0.0    2.9  3  DEAD             DEAD/DEAH box helicase
    0.00021   21.3   0.4      0.013   15.5   0.1    2.8  2  ResIII           Type III restriction enzyme, res subunit
     0.0037   16.1   0.0     0.0061   15.4   0.0    1.2  1  T4SS-DNA_transf  Type IV secretory system Conjugative DNA tra
  ------ inclusion threshold ------
       0.16   11.2   0.0        0.3   10.3   0.0    1.4  1  SecA_DEAD        SecA DEAD-like domain


Domain annotation for each model (and alignments):
>> Helicase_C_2  Helicase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.0   0.0   3.1e-25   9.1e-22       4     159 ..     791     936 ..     788     950 .. 0.91

  Alignments for each domain:
  == domain 1  score: 78.0 bits;  conditional E-value: 3.1e-25
             Helicase_C_2   4 llevvpggvlvffpSyklleevverlkeeleskkieifveekeesrekvleeykekkkkgaillavcrGklsEGidfsddllravi 89 
                              l+++ +g++l++f+  +  e ++e l +e e  +i++f +      ++v+e+yk+  +   ill++   ++ EGid+++d+l+ ++
  PHY93_15505|PHY93_15505 791 LIRKLNGKTLLLFSAKARFEIAREILLKEFE-GQIPLFIQ---GMGTSVVEDYKR--SGSGILLGME--SFGEGIDIPGDALQFIF 868
                              788999********************99985.89*****9...77899*******..*********9..***************** PP

             Helicase_C_2  90 ivglPfpnpkdpeveakreyldekgkknsgkewylpealravnQaiGRliRhkdDygaivllDeRfakee 159
                              i ++P   + d  v+++r++++++ + n++ ++yl +  r + Q +GRl+R++ Dyg ++++D+R+++ +
  PHY93_15505|PHY93_15505 869 IDKIPDLRM-DLVVNERRDFFEANLG-NEFTDYYLAHRTRSLHQKLGRLLRTESDYGGVIIVDNRVKSWK 936
                              *****9998.9***************.***************************************9733 PP

>> RNase_T  Exonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.5   0.0   3.3e-18   9.9e-15       2     164 ..      14     166 ..      13     167 .. 0.94
   2 ?   -0.8   0.0      0.66     2e+03      86     135 ..     245     299 ..     220     310 .. 0.68
   3 ?   -0.9   0.1      0.73   2.2e+03      83     132 ..     626     672 ..     562     688 .. 0.74

  Alignments for each domain:
  == domain 1  score: 55.5 bits;  conditional E-value: 3.3e-18
                              EEEEEESSSTTCTTS-EEEEEEEEEETTCCEEEEEEEEEEEHSSHCSSSHHHHHHHHHCHHHHHTCEBHHHHHHHHHHHHHHHTCC CS
                  RNase_T   2 viDlEttgldakekdeiieiaaisidggeneigetfhfyvkptelakltdecteftgitqemldeapsfkevleefkellrklall 87 
                              viD+Et g d+  +d++i ++  ++dg +    ++++++++  +   l+ +++++tgit++ml +aps k+v  e++el++  a+l
  PHY93_15505|PHY93_15505  14 VIDVETSGADP-SYDQVIDVGYLEFDGIKL--TKKYSSLIQYPHE--LSSFIQKLTGITNKMLSKAPSWKQVEGEIQELFG--AKL 92 
                              8**********.8***************95..6668888887777..8*********************************..78* PP

                              CETTTCEEEESSHHHHHHHHHHHHHHHHHCSEHCECHHHHHHHHHCHHHHHHHHHTTCHSSSSTSSHHHHHHHHHHH CS
                  RNase_T  88 vahnaafdvgflraadkrilkkevpkrnqfldtlildkatlkelartsldklaeklgleedgraHrAldDaeatakl 164
                              +ahn  f   fl++ + +i   + ++r++f+dtl ++   ++e+a+ +l+   +  g+ e+ + Hr+ +Da+ ++k+
  PHY93_15505|PHY93_15505  93 IAHNSDFESAFLKKSFDKI--DDGSEREEFCDTLLFLGLLFPEYASLKLEHFIQDWGIAETEM-HRGFEDAQDLLKV 166
                              ******************9..44568***********************************98.********99987 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 0.66
                              CCCETTTCEEEESSHHHHHHHHHHHHH......HHHHCSEHCECHHHHHHHHHC..HH CS
                  RNase_T  86 llvahnaafdvgflraadkrilkkevp......krnqfldtlildkatlkelar..ts 135
                              +l+   ++f ++f+ +++k i++ e++         +   +++l++++ +++++  +s
  PHY93_15505|PHY93_15505 245 KLM---KNFSLEFSGQNIKNIFNDETKiktlfpSYRKRQSQIDLAVKVGQSFKNsiHS 299
                              344...3677788888888888887776666665555666666666666666664444 PP

  == domain 3  score: -0.9 bits;  conditional E-value: 0.73
                              HHTCCCETTTCEEEESSHHHHHHHHHHHHHHHHHCSEHCECHHHHHHHHH CS
                  RNase_T  83 klallvahnaafdvgflraadkrilkkevpkrnqfldtlildkatlkela 132
                              +l+ l+++  +fd+++l+ + + i      + ++f+ +l   + ++ +l 
  PHY93_15505|PHY93_15505 626 YLNQLIPYAGRFDAKNLKSENEIIAFT---RFESFFAQLSDYVLCFDKLI 672
                              457788888899999999888877655...56677777776666666665 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.0   6.3e-08   0.00019      17      66 ..     299     344 ..     283     379 .. 0.80
   2 ?    2.3   0.0     0.043   1.3e+02     125     141 ..     494     510 ..     462     519 .. 0.78
   3 ?   -3.2   0.0         2   6.1e+03      53      73 ..     571     591 ..     554     638 .. 0.59

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 6.3e-08
                              EEEEESTTSSHHHHHHHHHHHHHHHSTTSTS-EEEEEESSHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  17 vlvaaeTGsGKTlaflipvlqivyetkgktgpkalivePtreLaeqtlnn 66 
                               lv+a+TG+GKT  +lip++        ++++ +li + t+ L +q +n+
  PHY93_15505|PHY93_15505 299 SLVQAPTGTGKTFGYLIPAVLFA----LEDKKPVLIATGTKTLQHQAFNK 344
                              589*****************444....578888*************9985 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.043
                              EEEETHHHHHHTTTHHH CS
                              xxxxxxxxxxxxxxxxx RF
                     DEAD 125 lVlDEadrlldqgfsdf 141
                              +V+DEa+++ d+  + f
  PHY93_15505|PHY93_15505 494 IVVDEAHKIEDEATKAF 510
                              8*********9966554 PP

  == domain 3  score: -3.2 bits;  conditional E-value: 2
                              EESSHHHHHHHHHHHHHHTTT CS
                              xxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  53 vePtreLaeqtlnnlkkfkky 73 
                              ++P+re++   ++++ k+++ 
  PHY93_15505|PHY93_15505 571 LAPLREMISMYFKRMPKYTEL 591
                              677788877777777777774 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.1   4.4e-06     0.013       5      72 ..     279     344 ..     275     392 .. 0.70
   2 ?    2.5   0.0     0.042   1.3e+02     135     147 ..     493     505 ..     426     529 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 4.4e-06
                              -HHHHHHHHHHT......TTSEEEEEESTTSTHHHHHHHHHHHH-S.....-EEEEESSHHHHHHHH.H CS
                   ResIII   5 reyQeeaienlleklkskrdkrglikmaTGtGKTlvaaklierllkkgkeekflflvprkslleqtl.e 72 
                              r+ Q++   ++ +++  k+  + l++++TGtGKT+ ++  +  ++ + +++ +l+   +k+l  q+  +
  PHY93_15505|PHY93_15505 279 RQSQIDLAVKVGQSF--KNSIHSLVQAPTGTGKTFGYLIPAVLFALE-DKKPVLIATGTKTLQHQAFnK 344
                              666777777777888..5999*************9886544444443.456888888999999999851 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.042
                              EEEEETGGGTTS. CS
                   ResIII 135 viiiDEaHrlgak 147
                               i++DEaH++ ++
  PHY93_15505|PHY93_15505 493 NIVVDEAHKIEDE 505
                              69*******9994 PP

>> T4SS-DNA_transf  Type IV secretory system Conjugative DNA transfer
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0     2e-06    0.0061      30      68 ..     281     320 ..     244     329 .. 0.70

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 2e-06
          T4SS-DNA_transf  30 k....alyaggllntdGdfehvlvvAptrsgKgvgvviPnllk 68 
                                   a+++g+ +++     h+lv Apt+ gK+ g+ iP +l+
  PHY93_15505|PHY93_15505 281 SqidlAVKVGQSFKNS---IHSLVQAPTGTGKTFGYLIPAVLF 320
                              2555556666633333...6********************996 PP

>> SecA_DEAD  SecA DEAD-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0    0.0001       0.3      94     153 ..     300     361 ..     203     380 .. 0.90

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.0001
                              xxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxx RF
                SecA_DEAD  94 iaemkTGEGKtlvatlpaylnaltgk.gvhvvtvndYLakrdae.wmgpvyeflGlsvgvie 153
                              +++  TG GKt    +pa+l al++k +v + t    L ++ ++  + +v eflGl+ + i+
  PHY93_15505|PHY93_15505 300 LVQAPTGTGKTFGYLIPAVLFALEDKkPVLIATGTKTLQHQAFNkDVPQVREFLGLTDDEIK 361
                              56678******************986268888888999888765258889999999977665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (982 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       602  (0.0335769); expected 358.6 (0.02)
Passed bias filter:                      503  (0.0280551); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.82u 0.27s 00:00:01.08 Elapsed: 00:00:00.48
# Mc/sec: 6177.62
//
Query:       PHY93_15510|PHY93_15510  [L=245]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.011   15.8   0.3      0.032   14.4   0.1    1.8  2  HEPN_RnaseLS  RnaseLS-like HEPN


Domain annotation for each model (and alignments):
>> HEPN_RnaseLS  RnaseLS-like HEPN
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.1   1.8e-06     0.032      76     132 ..       2      59 ..       1      74 [. 0.83
   2 ?   -0.9   0.0     0.087   1.6e+03      55      82 ..      64      91 ..      57     119 .. 0.63

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 1.8e-06
             HEPN_RnaseLS  76 npslekrlreresvydklvel.cggkelaeklWetWkegRnlvfHyfpkekkalslee 132
                              +p  +k++r+++++y+    +  ++++ ae+l++++k  R + +Hy  +   ++++ e
  PHY93_15510|PHY93_15510   2 EPWTTKTYRKEDKIYRGAFAYfRNESSYAEELFDVYKDKREQSYHYVSQAIVKVTTGE 59 
                              6778899********9887772557899*******************99988887766 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.087
             HEPN_RnaseLS 55 dlgliseedyesdhfRiGkalnpslekr 82
                              +++i ++dy+ +   i k++  + +++
  PHY93_15510|PHY93_15510 64 HVEYIVNKDYIPQAVVIEKIMGKESTRE 91
                             5677888888888888877776554443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (245 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       741  (0.0413297); expected 358.6 (0.02)
Passed bias filter:                      366  (0.0204139); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.26s 00:00:00.80 Elapsed: 00:00:00.48
# Mc/sec: 1540.36
//
Query:       PHY93_15515|PHY93_15515  [L=118]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.6e-05   22.6  10.7    0.00011   22.3  10.7    1.1  1  SirB      Invasion gene expression up-regulator, SirB
  ------ inclusion threshold ------
       0.13   12.5   0.1        0.2   11.9   0.1    1.3  1  MAP17     Membrane-associated protein 117 kDa, PDZK1-interact
        2.7    8.1   8.0        3.5    7.8   0.4    2.6  3  DUF1206   Domain of Unknown Function (DUF1206)
        7.9    6.8  13.2       0.28   11.5   2.1    2.2  2  VirB3     Type IV secretory pathway, VirB3-like protein


Domain annotation for each model (and alignments):
>> SirB  Invasion gene expression up-regulator, SirB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.3  10.7   2.4e-08   0.00011       4     116 ..       7     116 ..       4     118 .] 0.72

  Alignments for each domain:
  == domain 1  score: 22.3 bits;  conditional E-value: 2.4e-08
                     SirB   4 lkhlHlllvllslllFilrgllllkgsallqkkllkilphivdtlLllsgiaLlvllglspftka..WltaKlvllvvyivlgvva 87 
                              +k +H++++l   ++F   g++++ +s+l qkkl k l  +   l++++g++L++ lg+++ ++   W+  K+  +v+  +l +  
  PHY93_15515|PHY93_15515   7 YKAMHIFFIL---CFFSSMGFVSC-QSKLIQKKLGKWLVGLASFLIFVAGMGLIARLGFKHDQAFplWVKLKIGNWVAVNILFICL 88 
                              5666666553...45555555555.8*********************************99954467***********99999999 PP

                     SirB  88 lkrakskklrl..lafvlAlvvflyivslAl 116
                              ++ + + + ++  + ++l l++f+  + lA+
  PHY93_15515|PHY93_15515  89 FRLK-TIEYKAviTSIILLLAWFA--IWLAV 116
                              9544.4444440044555555554..44555 PP

>> MAP17  Membrane-associated protein 117 kDa, PDZK1-interacting protein 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.1   4.4e-05       0.2       7      45 ..      14      50 ..       8      65 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 4.4e-05
                    MAP17  7 lllllllllspaeaQqat.ekrlkPWlvGliAvvgFLflv 45
                              +l+++  ++ +++Q  + +k+l  WlvGl+    FL+ v
  PHY93_15515|PHY93_15515 14 FILCFFSSMGFVSCQSKLiQKKLGKWLVGLAS---FLIFV 50
                             5788999999*****8862558888*****96...55544 PP

>> DUF1206  Domain of Unknown Function (DUF1206)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   0.4   0.00077       3.5      39      64 ..      31      56 ..      28      59 .. 0.84
   2 ?   -2.7   0.0       1.4   6.3e+03      45      50 ..      76      81 ..      64      91 .. 0.55
   3 ?    4.6   0.6    0.0074        33       9      23 ..     103     117 ..      98     118 .] 0.86

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.00077
                  DUF1206 39 lleqpfGrvllglvglgllgyglwql 64
                             l +   G++l+gl+ + ++++g+  +
  PHY93_15515|PHY93_15515 31 LIQKKLGKWLVGLASFLIFVAGMGLI 56
                             778899********999999998665 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 1.4
                  DUF1206 45 Grvllg 50
                             G+++ +
  PHY93_15515|PHY93_15515 76 GNWVAV 81
                             555433 PP

  == domain 3  score: 4.6 bits;  conditional E-value: 0.0074
                  DUF1206   9 vylllgllalqaalg 23 
                              + lll+++a+++a++
  PHY93_15515|PHY93_15515 103 IILLLAWFAIWLAVN 117
                              5799********985 PP

>> VirB3  Type IV secretory pathway, VirB3-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   2.1   6.2e-05      0.28      25      72 ..      12      74 ..       6      85 .. 0.81
   2 ?   -0.9   5.6      0.45     2e+03      27      43 ..      99     115 ..      77     117 .. 0.58

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 6.2e-05
                    VirB3 25 lnllvsvilfl................vglslwillllvplhlvlrliakrDpqmfrvlllrlk 72
                             + ++++++  +                + ++l+ +l++v+ +++  ++  +++q+f ++ ++lk
  PHY93_15515|PHY93_15515 12 IFFILCFFSSMgfvscqskliqkklgkWLVGLASFLIFVAGMGLIARLGFKHDQAFPLW-VKLK 74
                             44444444444666899999***************************************.5554 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.45
                    VirB3  27 llvsvilflvglslwil 43 
                              +++s+il l+++++w++
  PHY93_15515|PHY93_15515  99 VITSIILLLAWFAIWLA 115
                              34555555555555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (118 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       871  (0.0485805); expected 358.6 (0.02)
Passed bias filter:                      327  (0.0182386); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.43u 0.25s 00:00:00.68 Elapsed: 00:00:00.43
# Mc/sec: 830.33
//
Query:       PHY93_15520|PHY93_15520  [L=222]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0031   18.2   0.0     0.0068   17.1   0.0    1.6  1  Methyltransf_25  Methyltransferase domain
  ------ inclusion threshold ------
      0.015   15.9   0.0      0.031   14.9   0.0    1.6  1  Methyltransf_11  Methyltransferase domain
      0.016   16.0   0.0      0.034   14.9   0.0    1.6  1  Methyltransf_12  Methyltransferase domain
      0.027   14.3   0.0      0.035   13.9   0.0    1.3  1  Methyltransf_23  Methyltransferase domain
       0.11   11.8   0.0       0.15   11.3   0.0    1.3  1  Methyltransf_2   O-methyltransferase domain
       0.17   11.5   0.0       0.34   10.5   0.0    1.6  1  NodS             Nodulation protein S (NodS)


Domain annotation for each model (and alignments):
>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.0   2.3e-06    0.0068       1      84 [.      55     144 ..      55     154 .. 0.79

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 2.3e-06
                              EEEET-TTSHHHHHHHCTS.TSSEEEEEESSHHHHHHHHHHHHH..TTTTEEEEESBCCGBS....SSTTTEEEEEEESTGGGSSH CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrl.gkakvtgvDiseemleaareraee..eglnvefvqgdaedlp....fedgsfDlvvssgalhhlsd 79 
                              v+dlG G G l ++++k + + ++ +g+++s+ + + + ++  +  e+ ++ +++ d+ ++       ++ fDl +++ +l++lsd
  PHY93_15520|PHY93_15520  55 VIDLGFGLGILFEEVLKTFiP-YRAHGIEPSKHAYDLVVKKDIRpaESTKLIMENTDLVSWAtsgmKREKVFDLGLCTSVLQYLSD 139
                              89*****************55.*************99776654433334788888888776533435788*******877*****9 PP

                              HHHHH CS
          Methyltransf_25  80 edlek 84 
                              e+++ 
  PHY93_15520|PHY93_15520 140 EEIKI 144
                              99865 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.0     1e-05     0.031       2      76 ..      57     139 ..      56     156 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 1e-05
                              EET-TTSHHHHHHHHTT..SEEEEEES-HHHHHHHHHHCCHHT-..........EEEETTEECCCTSS-TT-EEEEEEES-CCC-C CS
          Methyltransf_11   2 dvGcGtGrlaealakrg..arvvgvDlskemlklakekaseegl..........kvefvvadaeklpfednsfDlvvssevlhhve 75 
                              d+G G G+l+e++ k++  +r  g+++sk + +l+ +k  ++ +               v+ a++   +++ fDl ++++vl+++ 
  PHY93_15520|PHY93_15520  57 DLGFGLGILFEEVLKTFipYRAHGIEPSKHAYDLVVKKDIRPAEstklimentdL----VSWATSGMKREKVFDLGLCTSVLQYLS 138
                              9*************999***************98855544444447555553322....233333234678*************95 PP

                              C CS
          Methyltransf_11  76 d 76 
                              d
  PHY93_15520|PHY93_15520 139 D 139
                              4 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.0   1.2e-05     0.034       2      80 ..      57     140 ..      56     154 .. 0.72

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 1.2e-05
          Methyltransf_12   2 eiGcGtGsllralleklpdieytgvDispsai...edakeklakrennnnnnvelealdlldldgg.....ssfDlvvasnvlhhl 79 
                              ++G G G l +++l+ +++ + +g+++s++a    ++     +++++   +++  e++dl + + +     + fDl ++ +vl++l
  PHY93_15520|PHY93_15520  57 DLGFGLGILFEEVLKTFIPYRAHGIEPSKHAYdlvVK-----KDIRPAESTKLIMENTDLVSWATSgmkreKVFDLGLCTSVLQYL 137
                              99******************************33322.....233333344444444444333333566779************** PP

          Methyltransf_12  80 ..k 80 
                                +
  PHY93_15520|PHY93_15520 138 sdE 140
                              544 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   1.2e-05     0.035      24     140 ..      53     180 ..      23     206 .. 0.69

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 1.2e-05
          Methyltransf_23  24 grvLdiGcGtGillevl.ren.gfsvtgvDlspeaveiaekakkaqkdqfdeqeaae...........pqgkfdlIvlrevlehvp 96 
                              ++v+d+G G Gil e+  +++ ++   g+++s +a +++ k++  + +++  + +              ++ fdl  ++ vl  + 
  PHY93_15520|PHY93_15520  53 SSVIDLGFGLGILFEEVlKTFiPYRAHGIEPSKHAYDLVVKKDIRPAESTKLIMENTdlvswatsgmkREKVFDLGLCTSVLQYLS 138
                              48*********8766663666556***********999995555555555222111123333335554556999999999999998 PP

          Methyltransf_23  97 dppellrqiatllkpg.Gylllseplaslkedrllldwlylvpag 140
                              d  e ++ i   l+    yl+ls+p+ +l+ +r ++++++ ++  
  PHY93_15520|PHY93_15520 139 D--EEIKIIMPVLASRvRYLYLSVPT-DLELKRQIEEVEFKDEYA 180
                              8..66777777777666788888885.566666666655554444 PP

>> Methyltransf_2  O-methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0     5e-05      0.15      21      84 ..      13      73 ..       3     128 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 5e-05
                             HS--HHHHHTSSHHHHHHHHHHHHTTHHHHHHHHHHSS-GGG-SEEEEET-TTSHHHHHHHHH- CS
           Methyltransf_2 21 fGislfeaikrdeeerakfnkglqessslvakkvleafdleglkslvDvGGGtGalakaivsay 84
                             f  + +++++ d+ee++   ++ ++   +    +lea+d+   +s++D+G G G l +++ +++
  PHY93_15520|PHY93_15520 13 FSHEYWDVNYADPEEMDNIVNASEHAAYMKSIFALEAVDI---SSVIDLGFGLGILFEEVLKTF 73
                             3344899************999999988888888888885...6789************99887 PP

>> NodS  Nodulation protein S (NodS)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   0.00011      0.34      78     123 ..      99     141 ..      17     157 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00011
                     NodS  78 iararervkesshiswivsdvqqfstdekfdlivvaevlyyiedva 123
                               + ++  ++++  +sw +s +   + ++ fdl +++ vl y++d +
  PHY93_15520|PHY93_15520  99 AESTKLIMENTDLVSWATSGM---KREKVFDLGLCTSVLQYLSDEE 141
                              356788899999999999875...56899*************9853 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (222 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       421  (0.0234815); expected 358.6 (0.02)
Passed bias filter:                      343  (0.019131); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.55u 0.22s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 1477.03
//
Query:       PHY93_15525|PHY93_15525  [L=159]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.4e-30  106.0   0.4    1.7e-30  105.7   0.4    1.1  1  UPF0225   UPF0225 domain
    2.2e-12   46.6  23.4    5.4e-08   32.6  12.1    2.3  2  SEC-C     SEC-C motif


Domain annotation for each model (and alignments):
>> UPF0225  UPF0225 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  105.7   0.4   1.9e-34   1.7e-30       1      99 []      28     127 ..      28     127 .. 0.98

  Alignments for each domain:
  == domain 1  score: 105.7 bits;  conditional E-value: 1.9e-34
                  UPF0225   1 taeaLmRsRysAyvlkdadYlvatthpetreaeeeaeleatakkvkflkleiletek.eekedeatVeFkarlkekgkektlhErS 85 
                              ta+aLmRsRy+A++++++dY+++t+h++tr++ + + ++++a+++++l+lei+et k +ek++e++VeFk +++ +g e+++hE S
  PHY93_15525|PHY93_15525  28 TAVALMRSRYTAFAVGEMDYIYKTHHESTRKELDMDGVKTWAQNSEWLGLEIRETIKgTEKDTEGQVEFKCKFNFNGAEQAHHELS 113
                              799****************************************************99788999*********************** PP

                  UPF0225  86 rFvredgrWlYvdg 99 
                              +F +e+g+W++vdg
  PHY93_15525|PHY93_15525 114 TFIKEKGEWFFVDG 127
                              ************98 PP

>> SEC-C  SEC-C motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.9   3.4   5.7e-08   0.00051       4      18 ..       3      17 ..       2      18 .. 0.92
   2 !   32.6  12.1     6e-12   5.4e-08       1      17 [.     143     159 .]     143     159 .] 0.99

  Alignments for each domain:
  == domain 1  score: 19.9 bits;  conditional E-value: 5.7e-08
                    SEC-C  4 pCPCGSGkKYKkCCg 18
                             +C CGS k+Y +CC+
  PHY93_15525|PHY93_15525  3 LCACGSEKNYSDCCE 17
                             8*************7 PP

  == domain 2  score: 32.6 bits;  conditional E-value: 6e-12
                    SEC-C   1 RNdpCPCGSGkKYKkCC 17 
                              RNdpCPCGSGkK KkCC
  PHY93_15525|PHY93_15525 143 RNDPCPCGSGKKAKKCC 159
                              9**************** PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (159 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       611  (0.0340789); expected 358.6 (0.02)
Passed bias filter:                      330  (0.0184059); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 1101.79
//
Query:       PHY93_15530|PHY93_15530  [L=909]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      4e-55  186.9   0.1    5.9e-55  186.3   0.1    1.2  1  E1_dh            Dehydrogenase E1 component
    7.2e-55  185.4   0.0    1.3e-54  184.5   0.0    1.5  1  Transket_pyr     Transketolase, pyrimidine binding domain
      4e-41  140.2   0.1    7.7e-41  139.3   0.1    1.5  1  OxoGdeHyase_C    2-oxoglutarate dehydrogenase C-terminal
    3.2e-10   39.4   0.4    7.6e-10   38.2   0.4    1.7  1  2-oxogl_dehyd_N  2-oxoglutarate dehydrogenase N-terminus


Domain annotation for each model (and alignments):
>> E1_dh  Dehydrogenase E1 component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  186.3   0.1   1.3e-58   5.9e-55       8     297 ..     191     507 ..     184     510 .. 0.86

  Alignments for each domain:
  == domain 1  score: 186.3 bits;  conditional E-value: 1.3e-58
                              HHHHHHHHHHHTTSS-S-----TT-HHHHHHHHHTS-TT..SEEEES.S--HHHHHHTT--..HHHHHHHHTT-T........... CS
                    E1_dh   8 rvedaldalykrkkrigfyhlsagqealkvgiaaaleke..Dliite.YReagvllargls..leeilaeltgkv........... 77 
                               +e++l+ +y  +kr++++  +  ++al  +i++  e +  ++ii + +R++ ++la+ +    e i+ e+ g             
  PHY93_15530|PHY93_15530 191 VFENFLQTKYVGQKRFSLEGGETTIPALDAIINKGAELGahEFIIGMaHRGRLNVLANTVGktYEYIFTEFEGGSieemqghsgdv 276
                              578999***************************998877669999777*********988776999*******9999997444444 PP

                              TTSSGTT-....-E..BTT..BEEE-SSTTTHHHHHHHHHHHHH.....HHTS---EEEEEEGGG.TT-HHHHHHHHHHHHTT--E CS
                    E1_dh  78 kgkggsrh...elmyaekesrilggngivgaqvplvaGialaak.....iegkkevailliGDgA.anqGdvyealnlaalwklpv 154
                              k++ g       ++++e  +++l+  + + +++p++ G  +a        ++ k++ i+++GD++ a+qG vyeal++++l+++ v
  PHY93_15530|PHY93_15530 277 KYHMGFTTvqkTMNDQEVFVKLLPNPSHLETVAPVAIGYCRALIdnhynGDQSKVIPIIIHGDASiAGQGVVYEALQMSKLKGYAV 362
                              333332211113333333334555555555556666677776658886566678899***************************** PP

                              ...EEEEEEESEETTEEHHHH-S---GGG..TTTTS-EEEEETTSHHHHHHHHHHHHHHHHTTT--EEEEEEE--SS-SSTTSHSH CS
                    E1_dh 155 ...ifvveNNkygisTeaekasaskeladrargvgipglrVdgnDplavyeAvkfAaeraregkgpllielvtYRyggHsesDdps 237
                                 i++v NN++g++T+ e +++s++   +a++v++p+++V+g+Dp+av +A   A+e+++++k ++ i++v+YR +gH+e D+p 
  PHY93_15530|PHY93_15530 363 ggsIHFVINNQIGFTTDFEDGRSSQYCDSVAKVVEAPIIQVNGDDPEAVVYAIELAVEFRQKFKEDIFIDMVCYRKYGHNEGDEPR 448
                              ************************************************************************************** PP

                              SSSHHHHHHHHHHHH-HHHHHHHHHHHTTSS-HHHHHHHHHHHHHHHHHHHHHHHHS--- CS
                    E1_dh 238 tyrtreeveevrkkkdpiqrlkelLvkkgvvseeelkeiekevrkeveeavkkaeskkel 297
                               ++ +  +e + k+k+p + + + L ++g ++ +   e+++ +++   + ++++ +++++
  PHY93_15530|PHY93_15530 449 YTQ-PSLYELITKHKNPRELYLDSLLTSGKIESQLASEMIEAYKQLLSDRFNNVRQNEIP 507
                              ***.*************************************************9998877 PP

>> Transket_pyr  Transketolase, pyrimidine binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  184.5   0.0     3e-58   1.3e-54       2     176 ..     576     769 ..     575     771 .. 0.98

  Alignments for each domain:
  == domain 1  score: 184.5 bits;  conditional E-value: 3e-58
                              EEEHHHHHHHHHHHHHCTTTTEEEEESSTHHHHTTCHCCHHEGGT................TEGEEE--S-HHHHHHHHHHHHHHC CS
             Transket_pyr   2 kiawrkaeaealaellkedpevvligaDvaggtfsvrkgllhdqg................egrvidsgisEqavlgfavGaalag 71 
                              k++w+ ae +a+++ll+e++ ++ +g+D+ +gtfs+r+++++d+                 +  +++s +sE+avlgf+ G++ a 
  PHY93_15530|PHY93_15530 576 KLDWASAELLAYGSLLDEGHPLRFTGQDIIRGTFSHRHAKVFDDRtneaycglefisekqgKVSLYNSLLSEYAVLGFEFGYSWAT 661
                              79*********************************************************99999********************** PP

                              T.TEEEEEEEEHHHHGGGHHGGHHHHHCHHHHHT--EEEEESBSGGGSTTGTTTSBSSHHHHHHTSTT..EEEE--SSHHHHHHHH CS
             Transket_pyr  72 p.llviveaqFgdFangAqiyadqairsgeakgklkvgvvtrlpigvgedGpehqsaeleaflrlipg..lkvvrPsdpaetkhll 154
                              p +l+i+eaqFgdF+ngAqi++dq i+s e k+++++g++++lp+g ++ Gpeh+sa++e++l++ ++  + v+++s+pa+++hl+
  PHY93_15530|PHY93_15530 662 PnSLTIWEAQFGDFSNGAQIMIDQYITSAEVKWQRMSGLLMLLPHGHEGAGPEHSSARPERYLQMAAEnnIIVANCSTPANMFHLI 747
                              *****************************************************************98777**************** PP

                              HHHHHSSS.SEEEEEE-SSEEC CS
             Transket_pyr 155 rrairredrkPvvlrlpksllr 176
                              rr+++ ++rkP ++++pksllr
  PHY93_15530|PHY93_15530 748 RRQLTWSFRKPAMVLTPKSLLR 769
                              ********************98 PP

>> OxoGdeHyase_C  2-oxoglutarate dehydrogenase C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  139.3   0.1   1.7e-44   7.7e-41       2     152 .]     775     909 .]     774     909 .] 0.93

  Alignments for each domain:
  == domain 1  score: 139.3 bits;  conditional E-value: 1.7e-44
            OxoGdeHyase_C   2 SsleelaegtsFqrvledeeeealkepekvkrvvlcsGkvyydLlkerekkekekdvaivriEqlyPfpfeelkeelekYpnakel 87 
                              S+ +e+ +g +Fq++++d ++      ++v+rv++c+Gk+yy+L++++ ++++ +dvaivr+Eql+P+p  ++k++l+kY+  +e 
  PHY93_15530|PHY93_15530 775 STRDEFIKG-KFQELIDDANT-----GKNVSRVIFCTGKIYYELYDKKMAEKR-DDVAIVRLEQLHPLPLVQIKKVLAKYKG-AEN 852
                              8889*****.******99988.....589********************8876.****************************.79* PP

            OxoGdeHyase_C  88 vWvQeEpkNqGawsfveprletvlkekkkkkkklryvgreasaspAtGskkvhkkeqealleeaf 152
                              vW+QeEp+NqG+w+++ + +e ++        +++ ++r+asa+pAtG ++vhkkeq++++++af
  PHY93_15530|PHY93_15530 853 VWLQEEPMNQGYWTYLLRFIE-IFG-------TFKLISRKASAAPATGFSNVHKKEQAEIITKAF 909
                              ****************65555.554.......389****************************98 PP

>> 2-oxogl_dehyd_N  2-oxoglutarate dehydrogenase N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.2   0.4   1.7e-13   7.6e-10       3      40 ..       9      46 ..       8      47 .. 0.94

  Alignments for each domain:
  == domain 1  score: 38.2 bits;  conditional E-value: 1.7e-13
          2-oxogl_dehyd_N  3 fLsgtnaaYiEelYeayleDPsSVdesWrayFknledg 40
                             +Ls +  ++i+ lY++y++ P+ VdesW+ +F+++e g
  PHY93_15530|PHY93_15530  9 HLSSSDITFIDSLYDSYRNSPDAVDESWQRFFQGFEFG 46
                             8999999****************************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (909 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       530  (0.029561); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.76u 0.31s 00:00:01.07 Elapsed: 00:00:00.49
# Mc/sec: 5549.97
//
Query:       PHY93_15535|PHY93_15535  [L=400]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.8e-84  282.8   0.4    2.4e-84  282.4   0.4    1.2  1  2-oxoacid_dh   2-oxoacid dehydrogenases acyltransferase (cata
    2.9e-18   65.5   1.0    5.3e-18   64.6   1.0    1.5  1  Biotin_lipoyl  Biotin-requiring enzyme
    2.5e-12   46.9   1.1    1.4e-11   44.5   0.6    2.3  2  E3_binding     e3 binding domain
  ------ inclusion threshold ------
      0.014   15.3   0.5      0.039   13.8   0.1    1.9  1  GCV_H          Glycine cleavage H-protein


Domain annotation for each model (and alignments):
>> 2-oxoacid_dh  2-oxoacid dehydrogenases acyltransferase (catalytic domain)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  282.4   0.4   5.4e-88   2.4e-84       4     233 .]     173     400 .]     170     400 .] 0.98

  Alignments for each domain:
  == domain 1  score: 282.4 bits;  conditional E-value: 5.4e-88
                              XXXXXXXXXXXXXXXXXXXXX.XXXEEEEEEEEE-HHHHHHHHHHHHHHHHTT-----HHHHHHHHHHHHHHH-GGGG-EE.EESE CS
             2-oxoacid_dh   4 eervplsgirkaiakrlteskqeiphftlsdevdvtallelrkelkekeakeekakltlldflikavalAlkefPelnasvdeeek 89 
                              ++++++s++rk+ia +l e+k++++++t+++evd+ +l++lrk++k++++k++ + l +++++ kav+ Alk+fP +na+++++e 
  PHY93_15535|PHY93_15535 173 MRSEKMSRLRKTIATKLVEAKNTTAMLTTFNEVDMYELMNLRKKYKDAFTKKHGVGLGFMSLFTKAVTVALKDFPSVNAQINGDE- 257
                              67899********************************************98888*******************************. PP

                              EEE--SS--EEEE--------EEEE--GGG--HHHHHHHHHHHHHHHTTT---GGGTSS-SEEEE---------------TT-SEE CS
             2-oxoacid_dh  90 eivvkkhvniGvAvatprGLlvPviknadkkslleiakelkelaekaregklkpedleggtftisNlGmlGvtsftPiinppqvaI 175
                               i+++++ +iG+Av+tp+GL+vPv++na+++sl++i+ke+ +la+kar+gk++ ed++ggtf+i+N G++G+  +tPiin pq+aI
  PHY93_15535|PHY93_15535 258 -IIYHDYADIGIAVSTPKGLVVPVVRNAESMSLAQIEKEILALATKARDGKITIEDMQGGTFSITNGGVFGSMLSTPIINIPQSAI 342
                              .************************************************************************************* PP

                              EEE---.B--TTSTT-HT---EEEEEEEEETTT--HHHHHHHHHHHHHTT-HHXXXXX CS
             2-oxoacid_dh 176 lgvgrikerpvvkegelvvrkvmtlslsaDHRvidGaeaarFlntlkkllenpeelll 233
                              lg+++i erp++ +g++v+r++m+l ls+DHR+idG e ++Fl+++k+lle+p++lll
  PHY93_15535|PHY93_15535 343 LGMHNIIERPIALNGQVVIRPMMYLALSYDHRIIDGRESVSFLKQVKELLEDPSRLLL 400
                              *******************************************************985 PP

>> Biotin_lipoyl  Biotin-requiring enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.6   1.0   1.2e-21   5.3e-18       2      72 ..       4      74 ..       3      75 .. 0.94

  Alignments for each domain:
  == domain 1  score: 64.6 bits;  conditional E-value: 1.2e-21
                             EEEESSSEEEEEE..ECSESSSTTCEE-TTSEEEEEECTTEEEEEEBSSSEEEEEESSTTTEEE-TTCEEEE CS
            Biotin_lipoyl  2 eiksPmiGesveeg.vvevlvkvGdkVkagqvlaeveamKmemeieapkaGvvkeilvkeGdtvevgdllak 72
                             e+k+P iGesv+e    ++l+k+Gd V++g+ ++e+e++K++me++ap+aGv+k i+++ G++++ g  + +
  PHY93_15535|PHY93_15535  4 ELKIPVIGESVTEVtLSSWLKKDGDYVAEGEAVCEIESDKASMELPAPSAGVLK-IMAEAGSELKIGAKIGE 74
                             789************************************************985.99999*******99876 PP

>> E3_binding  e3 binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.5   0.6   3.1e-15   1.4e-11       5      36 .]     115     146 ..     114     146 .. 0.97
   2 ?   -0.5   0.0      0.36   1.6e+03      25      35 ..     303     313 ..     291     314 .. 0.83

  Alignments for each domain:
  == domain 1  score: 44.5 bits;  conditional E-value: 3.1e-15
                              HHHHHHHHHCT--TTTS---CTTTBE-HHHHC CS
               E3_binding   5 PaaRklAkelGidLsdvkGtGpgGRItkeDVl 36 
                              PaaRk+  e+G+++++v+G+G++GRItkeD l
  PHY93_15535|PHY93_15535 115 PAARKILDEKGVSPESVSGSGKDGRITKEDAL 146
                              ******************************75 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.36
                              CTTTBE-HHHH CS
               E3_binding  25 GpgGRItkeDV 35 
                               ++G It eD 
  PHY93_15535|PHY93_15535 303 ARDGKITIEDM 313
                              589****9996 PP

>> GCV_H  Glycine cleavage H-protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.1   8.7e-06     0.039      38      70 ..      23      55 ..      12      69 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 8.7e-06
                             ---TT-EE-TT-EEEEEEESS-EEEEE-SSSEE CS
                    GCV_H 38 lpevgtkvkkgeslaavEsvKaasevyapvsGe 70
                             l+++g+ v++ge++  +Es Ka  e++ap  G 
  PHY93_15535|PHY93_15535 23 LKKDGDYVAEGEAVCEIESDKASMELPAPSAGV 55
                             89***************************9995 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (400 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       813  (0.0453455); expected 358.6 (0.02)
Passed bias filter:                      530  (0.029561); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.59u 0.27s 00:00:00.86 Elapsed: 00:00:00.46
# Mc/sec: 2633.59
//
Query:       PHY93_15540|PHY93_15540  [L=274]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.9e-23   81.6   0.0    8.5e-23   80.8   0.0    1.4  1  Methyltransf_11  Methyltransferase domain
    3.4e-21   75.8   0.1      7e-21   74.8   0.0    1.5  2  Methyltransf_23  Methyltransferase domain
    2.5e-20   73.0   0.0    5.2e-20   72.0   0.0    1.5  1  Methyltransf_25  Methyltransferase domain
    6.4e-20   71.7   0.0    1.3e-19   70.8   0.0    1.5  1  Methyltransf_12  Methyltransferase domain
    3.2e-16   59.5   0.0    5.8e-16   58.7   0.0    1.4  1  Methyltransf_31  Methyltransferase domain
    1.5e-12   47.4   0.0    2.2e-12   46.8   0.0    1.3  1  Ubie_methyltran  ubiE/COQ5 methyltransferase family
    1.5e-05   24.5   0.0    3.1e-05   23.4   0.0    1.5  2  CMAS             Mycolic acid cyclopropane synthetase
    6.7e-05   22.6   0.0    0.00012   21.8   0.0    1.3  1  MetW             Methionine biosynthesis protein MetW
    0.00011   21.6   0.0    0.00028   20.2   0.0    1.6  1  Methyltransf_2   O-methyltransferase domain
    0.00014   21.4   0.0    0.00031   20.3   0.0    1.5  1  MTS              Methyltransferase small domain
     0.0014   17.6   0.0     0.0026   16.8   0.0    1.4  1  Methyltransf_9   Protein of unknown function (DUF1698)
     0.0039   16.3   0.0     0.0071   15.4   0.0    1.4  1  RrnaAD           Ribosomal RNA adenine dimethylase
     0.0045   15.6   0.1     0.0084   14.7   0.0    1.4  2  Methyltransf_29  Putative S-adenosyl-L-methionine-dependent m
     0.0058   16.5   0.0     0.0084   16.0   0.0    1.4  1  Methyltransf_8   Hypothetical methyltransferase
  ------ inclusion threshold ------
      0.012   15.2   0.0      0.019   14.5   0.0    1.3  1  Methyltransf_PK  AdoMet dependent proline di-methyltransferas
      0.076   12.5   0.0       0.44   10.0   0.0    2.1  1  Methyltransf_4   Putative methyltransferase
      0.086   12.3   0.0       0.13   11.7   0.0    1.2  1  Methyltransf_5   MraW methylase family
        0.1   12.3   0.0       0.16   11.7   0.0    1.3  1  PCMT             Protein-L-isoaspartate(D-aspartate) O-methyl
       0.13   11.8   0.0       0.18   11.4   0.0    1.2  1  NodS             Nodulation protein S (NodS)


Domain annotation for each model (and alignments):
>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   80.8   0.0     9e-26   8.5e-23       1      96 []      45     145 ..      45     145 .. 0.98

  Alignments for each domain:
  == domain 1  score: 80.8 bits;  conditional E-value: 9e-26
                              EEET-TTSHHHHHHHHTT..SEEEEEES-HHHHHHHHHHCCHHT-...EEEETTEECCCTSS-TT-EEEEEEES-CCC-CCHHHHH CS
          Methyltransf_11   1 LdvGcGtGrlaealakrg..arvvgvDlskemlklakekaseegl...kvefvvadaeklpfednsfDlvvssevlhhvedpekal 81 
                              L+vGcG G+ +e l +r+   +++g+Dls+++l++ak    +  +   + e+ +++ae+l+f  +sfD  ++ +vl+hv+dp+++l
  PHY93_15540|PHY93_15540  45 LEVGCGVGAQSEILLRRFpdIKLTGIDLSDKQLAAAKLSLGQLAFakdRYELKQMSAEDLKFDAESFDGAFLCFVLEHVPDPRRVL 130
                              89*************9999***********************999*999999********************************** PP

                              HHHHHHEEEEEEEEE CS
          Methyltransf_11  82 keiaRvLkpgGllvi 96 
                              +e++RvL pgG+++i
  PHY93_15540|PHY93_15540 131 SEVRRVLSPGGIVYI 145
                              ************986 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.8   0.0   7.4e-24     7e-21      20     164 ..      38     199 ..      18     200 .. 0.86
   2 ?   -2.8   0.0       5.2   4.9e+03     128     148 ..     204     224 ..     201     228 .. 0.83

  Alignments for each domain:
  == domain 1  score: 74.8 bits;  conditional E-value: 7.4e-24
          Methyltransf_23  20 lraggrvLdiGcGtGillevlrengf..svtgvDlspeaveiae........kakkaqkdqfdeqeaaepqgkfdlIvlrevlehv 95 
                                a+++vL++GcG+G  +e+l +++   ++tg+Dls+++ + a+         ++ ++ +q+ +++ ++++++fd + l +vlehv
  PHY93_15540|PHY93_15540  38 FSASKKVLEVGCGVGAQSEILLRRFPdiKLTGIDLSDKQLAAAKlslgqlafAKDRYELKQMSAEDLKFDAESFDGAFLCFVLEHV 123
                              46789**********9999996655558*********9999988********666666777779********************** PP

          Methyltransf_23  96 pdppellrqiatllkpgGylllseplasl.....kedrllldwlylvpag..rhisffsarslkelleeaGlevve 164
                              pdp ++l+ +++ l+pgG ++++e+l+s+     ++ + l++w + ++    +++  f    l++ll ++G++++e
  PHY93_15540|PHY93_15540 124 PDPRRVLSEVRRVLSPGGIVYITEVLNSSffldpYSPNVLKYWMAFNDYQydQKGDPFMGAKLGNLLMQNGYQNIE 199
                              ************************999999999989999999977666556799999999*************997 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 5.2
          Methyltransf_23 128 rllldwlylvpagrhisffsa 148
                               ++ld++ + ++ + i f+s+
  PHY93_15540|PHY93_15540 204 TWFLDNRHPQKRKEIIEFWSE 224
                              689999999999999999985 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.0   0.0   5.5e-23   5.2e-20       1      97 []      44     141 ..      44     141 .. 0.94

  Alignments for each domain:
  == domain 1  score: 72.0 bits;  conditional E-value: 5.5e-23
                              EEEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTT...TEEEEESBCCGBSSSTTTEEEEEEESTGGGSSHHHHH CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeegl...nvefvqgdaedlpfedgsfDlvvssgalhhlsdedle 83 
                              vL++GcG G  ++ l++r+++ k+tg+D+s+++l+aa+  + +  +   + e+ q++aedl+f+++sfD  +++++l+h++  d +
  PHY93_15540|PHY93_15540  44 VLEVGCGVGAQSEILLRRFPDIKLTGIDLSDKQLAAAKLSLGQLAFakdRYELKQMSAEDLKFDAESFDGAFLCFVLEHVP--DPR 127
                              9******************99*****************99988555677*************************9****98..667 PP

                              HHHHHHHHHEEEEE CS
          Methyltransf_25  84 kalkeiarvLkpgG 97 
                              ++l+e++rvL pgG
  PHY93_15540|PHY93_15540 128 RVLSEVRRVLSPGG 141
                              9************9 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.8   0.0   1.4e-22   1.3e-19       1      98 [.      45     142 ..      45     143 .. 0.96

  Alignments for each domain:
  == domain 1  score: 70.8 bits;  conditional E-value: 1.4e-22
          Methyltransf_12   1 LeiGcGtGsllralleklpdieytgvDispsaiedakeklakrennnnnnvelealdlldldgg.ssfDlvvasnvlhhlkdirev 85 
                              Le+GcG+G+ ++ ll+++pdi++tg+D+s +++++ak  l +      +++el++ +++dl+   +sfD  ++++vl+h++d+r+v
  PHY93_15540|PHY93_15540  45 LEVGCGVGAQSEILLRRFPDIKLTGIDLSDKQLAAAKLSLGQLAF-AKDRYELKQMSAEDLKFDaESFDGAFLCFVLEHVPDPRRV 129
                              8********************************999999999997.779********99998889********************* PP

          Methyltransf_12  86 ldnirklLkpgGr 98 
                              l+++r++L+pgG+
  PHY93_15540|PHY93_15540 130 LSEVRRVLSPGGI 142
                              ************7 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.7   0.0   6.1e-19   5.8e-16       4     112 ..      41     148 ..      38     194 .. 0.92

  Alignments for each domain:
  == domain 1  score: 58.7 bits;  conditional E-value: 6.1e-19
          Methyltransf_31   4 glrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielArenaqklgld..nveFeqgdieeleklledekfDlilsnevlnal 87 
                               ++vl++GCG G+ +  l  + +p+++++GiD s + +  A+  + +l +   ++e++q ++e+l+  +  e+fD  +   vl ++
  PHY93_15540|PHY93_15540  41 SKKVLEVGCGVGAQSEILL-RRFPDIKLTGIDLSDKQLAAAKLSLGQLAFAkdRYELKQMSAEDLK--FDAESFDGAFLCFVLEHV 123
                              689****************.779***************************999*************..999*****9999999*** PP

          Methyltransf_31  88 adpdkileeiervlkpggilliedp 112
                              +dp  +l e+ rvl+pggi+ i+++
  PHY93_15540|PHY93_15540 124 PDPRRVLSEVRRVLSPGGIVYITEV 148
                              *********************9986 PP

>> Ubie_methyltran  ubiE/COQ5 methyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.8   0.0   2.3e-15   2.2e-12      40     156 ..      33     150 ..      21     202 .. 0.86

  Alignments for each domain:
  == domain 1  score: 46.8 bits;  conditional E-value: 2.3e-15
                              HHH--S--TTEEEEES-TT-HHHHHHHHHHHHHHEEEEEES-HHHHHHHHHHHHHHTSS..TEEEEE--TTT-TTS-T-EEEEEEE CS
          Ubie_methyltran  40 eklvavkrgakvlDvagGtgDlafklsdsvgekgkvvvlDinenmLkvgekklkeegki..nieflqanaeeLpfeddsfDvvtvs 123
                               +  +   ++kvl+v +G g  +  l++      k++++D++++ L  ++  l + ++   + e+ q +ae+L+f+ +sfD   + 
  PHY93_15540|PHY93_15540  33 YQNINFSASKKVLEVGCGVGAQSEILLRRF-PDIKLTGIDLSDKQLAAAKLSLGQLAFAkdRYELKQMSAEDLKFDAESFDGAFLC 117
                              55556677889*********9887777765.678*******************9999887789999******************** PP

                              S-GGG-S-HHHHHHHHHHHEEEEEEEEEEEE-- CS
          Ubie_methyltran 124 fGlrnvtDklkaLkeayrvlkpGGrlvvlefsk 156
                              f l  v+D  ++L e++rvl pGG++++ e+ +
  PHY93_15540|PHY93_15540 118 FVLEHVPDPRRVLSEVRRVLSPGGIVYITEVLN 150
                              ***************************999744 PP

>> CMAS  Mycolic acid cyclopropane synthetase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.4   0.0   3.3e-08   3.1e-05      53     164 ..      31     145 ..      17     153 .. 0.79
   2 ?   -2.8   0.0       3.2     3e+03     226     245 ..     219     240 ..     209     251 .. 0.63

  Alignments for each domain:
  == domain 1  score: 23.4 bits;  conditional E-value: 3.3e-08
                              HHHTTTT--TT-EEEEES-TTSHHHHHHHHHH.--EEEEEES-HHHHHHHHHHHHTS-SS.S-EEEEES-GGG---...--SEEEE CS
                     CMAS  53 lileklelkpGmtlLdiGcGWGslvrravery.dvkvvglTlSkeqaklakkrvdeldle.rkvevklldyedlde...kvdrvvs 133
                              +i++ ++  + +++L++GcG G+      +r+ d+k  g+ lS++q + ak ++ +l ++ ++ e+k +  edl+     +d    
  PHY93_15540|PHY93_15540  31 TIYQNINFSASKKVLEVGCGVGAQSEILLRRFpDIKLTGIDLSDKQLAAAKLSLGQLAFAkDRYELKQMSAEDLKFdaeSFDGAFL 116
                              5788999999*********************999*******************999887515678888888888633347887777 PP

                              ES-GGGTSGGGHHHHHHHHHHHS-TT-EEEE CS
                     CMAS 134 vgafehvgkenydtffkklkkllkedGllll 164
                                ++ehv   +  +  +++ ++l ++G++ +
  PHY93_15540|PHY93_15540 117 CFVLEHVPDPR--RVLSEVRRVLSPGGIVYI 145
                              77777776544..456677777777777655 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 3.2
                              HHHHHHHHHHTHHHHHHH..SH CS
                     CMAS 226 LkaWaealqenkdeaial..vs 245
                              ++ W+e l+++ +++++   v+
  PHY93_15540|PHY93_15540 219 IEFWSELLMSASEQLVQAkyVD 240
                              4556666666666665543334 PP

>> MetW  Methionine biosynthesis protein MetW
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.8   0.0   1.3e-07   0.00012      13     101 ..      40     136 ..      28     145 .. 0.76

  Alignments for each domain:
  == domain 1  score: 21.8 bits;  conditional E-value: 1.3e-07
                     MetW  13 pgsrvldlGcGdGelle.llkeekqvdgrGleldeegvaec........vakGlsviqgdldkdlenfedksfdyvvlsqtlqatr 89 
                              +  +vl++GcG G   e ll+   +++  G++l+++ +a++         ak  + +++   +dl +f+ +sfd + l   l  + 
  PHY93_15540|PHY93_15540  40 ASKKVLEVGCGVGAQSEiLLRRFPDIKLTGIDLSDKQLAAAklslgqlaFAKDRYELKQMSAEDL-KFDAESFDGAFLCFVLEHVP 124
                              5679*********98872567889***********999876321111113444444555555666.5999**************** PP

                     MetW  90 npkevldellri 101
                              +p++vl+e+ r+
  PHY93_15540|PHY93_15540 125 DPRRVLSEVRRV 136
                              *********998 PP

>> Methyltransf_2  O-methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.2   0.0     3e-07   0.00028      46     168 ..      24     149 ..      13     169 .. 0.69

  Alignments for each domain:
  == domain 1  score: 20.2 bits;  conditional E-value: 3e-07
                              THHHHHHHHHHSS-GGG-SEEEEET-TTSHHHHHHHHH-TT-EEEEEE-HHH.HHHHHHHS....-----TTEEEEES-TTTS--- CS
           Methyltransf_2  46 ssslvakkvleafdleglkslvDvGGGtGalakaivsayPtikvivfDlpeV.veaAkehl....sageeervefvgGdffkdslP 126
                              + +   +++ ++++++  k++++vG G+Ga  +   + +P ik++  Dl++   +aAk  l     a+ + +++ +  +  k    
  PHY93_15540|PHY93_15540  24 QARFAEHTIYQNINFSASKKVLEVGCGVGAQSEILLRRFPDIKLTGIDLSDKqLAAAKLSLgqlaFAKDRYELKQMSAEDLKFDAE 109
                              56667778899999***********************************9751566665553211112222222222222223334 PP

                              --SEEEEESSGGGS-HHHHHHHHHHHHHH--TT-EEEEEE-- CS
           Methyltransf_2 127 eaDaillkrvlhDwsdekcvklLkrvkkalpagGkvivveav 168
                              + D  +l  vl    d   +++L +v++ l +gG v + e++
  PHY93_15540|PHY93_15540 110 SFDGAFLCFVLEHVPDP--RRVLSEVRRVLSPGGIVYITEVL 149
                              55666666666555543..56777777777777777776665 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.3   0.0   3.3e-07   0.00031      25      79 ..      34      88 ..      27     112 .. 0.82

  Alignments for each domain:
  == domain 1  score: 20.3 bits;  conditional E-value: 3.3e-07
                             HHCHCCTCSEEEEET-TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHTT CS
                      MTS 25 etlpkelsgkvlDlGcGaGvlgaalakespeaevtlvdvdarAlesakenleank 79
                             ++++ ++s+kvl +GcG+G+ +  l+++ p++++t +d + + l++ak  l + +
  PHY93_15540|PHY93_15540 34 QNINFSASKKVLEVGCGVGAQSEILLRRFPDIKLTGIDLSDKQLAAAKLSLGQLA 88
                             566666899******************************9999999998876655 PP

>> Methyltransf_9  Protein of unknown function (DUF1698)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   2.7e-06    0.0026     115     216 ..      40     144 ..      22     153 .. 0.85

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 2.7e-06
                              TT-EEEEET-TTSHHHHHHHHCT-SE.EEEE---HHHHHHHH.HHHCCTTTTSSEEEE---GGGS-T.---EEEEEEES-GGG-S- CS
           Methyltransf_9 115 kgrtildvGcgnGyhlwrmvgegakl.vvGidPselfliqfe.avrkllgedqrahllplgieqlpe.leafdtvfsmGvlyhrrs 197
                                +++l+vGcg G     ++ + +++   Gid s   l   + ++ +l   + r  l  ++ e+l+   e+fd  f+  vl h   
  PHY93_15540|PHY93_15540  40 ASKKVLEVGCGVGAQSEILLRRFPDIkLTGIDLSDKQLAAAKlSLGQLAFAKDRYELKQMSAEDLKFdAESFDGAFLCFVLEHVPD 125
                              6799**********999999998886256***999988877646888888888888889******9889***************** PP

                              HHHHHHHHHCTEEEEEEEE CS
           Methyltransf_9 198 PldhllqlkdqlvkgGelv 216
                              P   l++++  l  gG + 
  PHY93_15540|PHY93_15540 126 PRRVLSEVRRVLSPGGIVY 144
                              ************9999653 PP

>> RrnaAD  Ribosomal RNA adenine dimethylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   7.5e-06    0.0071      22      53 ..      32      65 ..      27      85 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 7.5e-06
                             HHHHH-GGTTSEEEEES-TTTCCHHHHHCC-..S CS
                   RrnaAD 22 IldklnleekltvleigpGkGilTeeLakra..k 53
                             I +++n + +++vle+g G+G+++e+L+ r+   
  PHY93_15540|PHY93_15540 32 IYQNINFSASKKVLEVGCGVGAQSEILLRRFpdI 65
                             788999**********************998543 PP

>> Methyltransf_29  Putative S-adenosyl-L-methionine-dependent methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.0   8.9e-06    0.0084     116     214 ..      39     142 ..      24     152 .. 0.77
   2 ?   -3.2   0.1       2.4   2.3e+03     305     341 ..     212     249 ..     196     255 .. 0.68

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 8.9e-06
          Methyltransf_29 116 gkvrtvlDvGCgvasfgayllsr..dvltlslapkDeheaqvqfaLeRgvpa....ilavlgtkrlpyPsrsfdlihCsrCri.dw 194
                              +  ++vl+vGCgv + + +ll r  d+    +   D+  a  +++L +   a     l  ++++ l + ++sfd +    C + ++
  PHY93_15540|PHY93_15540  39 SASKKVLEVGCGVGAQSEILLRRfpDIKLTGIDLSDKQLAAAKLSLGQLAFAkdryELKQMSAEDLKFDAESFDGAFL--CFVlEH 122
                              56789****************987788888888888888877777766554422225899**************9874..666155 PP

          Methyltransf_29 195 teedgilllevdRvlRpgGy 214
                                +   +l ev Rvl pgG 
  PHY93_15540|PHY93_15540 123 VPDPRRVLSEVRRVLSPGGI 142
                              556678999**********6 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 2.4
          Methyltransf_29 305 eeeaaeklekwpeRleavperlkeve.ikkvskekfke 341
                               ++++e +e w+e l+++ e+l +++ + + + + +k+
  PHY93_15540|PHY93_15540 212 PQKRKEIIEFWSELLMSASEQLVQAKyVDQETVDGMKK 249
                              36677788888888888888877766344555555555 PP

>> Methyltransf_8  Hypothetical methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.0   8.9e-06    0.0084     115     160 ..     103     149 ..      40     182 .. 0.86

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 8.9e-06
                              S-S--TT-EEEEEEES--.-SS-HHHHHHHHHHHEEEEEEEEEEEEG CS
           Methyltransf_8 115 kvPledesvdvavfclsl.mgtnladflkeanrvlkvGGllkvaevk 160
                               +  + es d a +c+ l  + + +  l e++rvl +GG+++++ev 
  PHY93_15540|PHY93_15540 103 DLKFDAESFDGAFLCFVLeHVPDPRRVLSEVRRVLSPGGIVYITEVL 149
                              566788999******999447899*********************94 PP

>> Methyltransf_PK  AdoMet dependent proline di-methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0     2e-05     0.019      25     163 ..      11     149 ..       5     169 .. 0.79

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 2e-05
          Methyltransf_PK  25 GGygavskiDvkgsrkflkklkkeslpgkrevkvaldcGaGiGrvtknlLlkll.skvDlvepvekflekakeelae..ekkkvgk 107
                               G+  +++  +    +f ++  ++  ++++  k +l++G+G+G  ++ lL ++   k+  ++  +k l++ak +l++    k   +
  PHY93_15540|PHY93_15540  11 HGFSPIEQERLRRQARFAEHTIYQ-NINFSASKKVLEVGCGVGAQSEILLRRFPdIKLTGIDLSDKQLAAAKLSLGQlaFAKDRYE 95 
                              577777777788888888877777.5699999***********9998877776432333356667788888888887653555567 PP

          Methyltransf_PK 108 vyvvglqeftPeegrYdliWiqWcvghLtDedlvaflkrckkalkpnGlivvkenv 163
                              + +++ ++   +++++d  +  +++ h++D   v  l+ + + l p+G++ + e +
  PHY93_15540|PHY93_15540  96 LKQMSAEDLKFDAESFDGAFLCFVLEHVPDPRRV--LSEVRRVLSPGGIVYITEVL 149
                              7789999999********************9866..888999999*9999998865 PP

>> Methyltransf_4  Putative methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.0   0.00047      0.44       4      48 ..      43      87 ..      40     151 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.00047
                             EEEEET-TTSHHHHHHHHHSTTSEEEEEES-HHHHHHHHHHHHHC CS
           Methyltransf_4  4 vvleiGcGkGeflvalAkknPdknflGiEirvkvvakvlkkieal 48
                              vle+GcG G     l  ++Pd+++ Gi+++ k +a++  + ++l
  PHY93_15540|PHY93_15540 43 KVLEVGCGVGAQSEILLRRFPDIKLTGIDLSDKQLAAAKLSLGQL 87
                             689****************************99999887776666 PP

>> Methyltransf_5  MraW methylase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00014      0.13      15      75 ..      35      98 ..      28     116 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00014
                             HT---TT-EEEES--TTSHHHHHHHTT--TTEEEEEES-HHHHHHHTT.....-...--EEEEE CS
           Methyltransf_5 15 llepkedgvyiDaTlGaggHsealLeqlselrligidrDksalarakerLkefe...krltlvk 75
                             +++  + +  + +  G g  se lL+++++ +l+gid  ++ la+ak  L + +   +r++l +
  PHY93_15540|PHY93_15540 35 NINFSASKKVLEVGCGVGAQSEILLRRFPDIKLTGIDLSDKQLAAAKLSLGQLAfakDRYELKQ 98
                             566666677788889********************************98865432213344444 PP

>> PCMT  Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00017      0.16      65     120 ..      32      86 ..       4     101 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00017
                              HHHHTT--TT-EEEEES-TTSHHHHHHHHHHCTTCEEEEEESBHHHHHHHHHHHHH CS
                     PCMT  65 alellelkkgarvLevGsGsGyltavlarlvgekgrvvsierikelveeakrnlkk 120
                              + + +++++ ++vLevG+G G ++ +l r +  + ++ +i+ + +  ++ak  l +
  PHY93_15540|PHY93_15540  32 IYQNINFSASKKVLEVGCGVGAQSEILLRRFP-DIKLTGIDLSDKQLAAAKLSLGQ 86 
                              5566778999**************99999875.45678888887777777766655 PP

>> NodS  Nodulation protein S (NodS)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00019      0.18      44     108 ..      41     107 ..       6     146 .. 0.69

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00019
                     NodS  44 iadalevGcaaGalterlapyc..krltvvdvveeaiararervkesshiswivsdvqqfstde.kfd 108
                                ++levGc  Ga +e l       +lt +d+ ++ +a a+  + +    +    +++q+s+++ kfd
  PHY93_15540|PHY93_15540  41 SKKVLEVGCGVGAQSEILLRRFpdIKLTGIDLSDKQLAAAKLSLGQL-AFAKDRYELKQMSAEDlKFD 107
                              3579************98755412589*************9999884.45556677888876542455 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (274 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       508  (0.028334); expected 358.6 (0.02)
Passed bias filter:                      412  (0.0229795); expected 358.6 (0.02)
Passed Vit filter:                        64  (0.00356964); expected 17.9 (0.001)
Passed Fwd filter:                        19  (0.00105974); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              19  [number of targets reported over threshold]
# CPU time: 0.57u 0.26s 00:00:00.83 Elapsed: 00:00:00.46
# Mc/sec: 1784.77
//
Query:       PHY93_15545|PHY93_15545  [L=465]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.5e-78  264.0   3.8    1.9e-78  263.7   3.8    1.1  1  Pyr_redox_2     Pyridine nucleotide-disulphide oxidoreductase
    1.1e-38  131.9   0.0    2.3e-38  130.8   0.0    1.6  1  Pyr_redox_dim   Pyridine nucleotide-disulphide oxidoreductase
    2.9e-23   82.2   8.1    4.4e-21   75.2   1.4    3.1  3  Pyr_redox       Pyridine nucleotide-disulphide oxidoreductase
    5.9e-14   52.0   5.5    5.9e-10   38.9   0.2    2.4  2  Pyr_redox_3     Pyridine nucleotide-disulphide oxidoreductase
    1.5e-10   41.1   1.7    3.3e-09   36.6   0.1    2.4  3  FAD_oxidored    FAD dependent oxidoreductase
    4.1e-10   38.9   6.9    2.6e-06   26.4   0.3    4.2  4  HI0933_like     HI0933-like protein
    1.6e-09   37.4   9.1    6.2e-08   32.1   0.5    3.5  4  FAD_binding_2   FAD binding domain
    1.1e-08   35.2   0.9    2.6e-05   24.3   0.1    2.5  2  NAD_binding_8   NAD(P)-binding Rossmann-like domain
    2.3e-08   33.7   7.3     0.0023   17.2   0.2    3.3  3  FAD_binding_3   FAD binding domain
    5.1e-08   32.4   6.7      2e-05   23.9   4.5    3.2  2  GIDA            Glucose inhibited division protein A
    1.6e-06   27.6   1.0    0.00054   19.3   0.1    2.7  2  AlaDh_PNT_C     Alanine dehydrogenase/PNT, C-terminal domain
    2.4e-06   27.4   9.4      0.016   14.8   0.1    3.7  4  DAO             FAD dependent oxidoreductase
    3.7e-06   27.0   0.5     0.0014   18.5   0.1    2.6  2  3HCDH_N         3-hydroxyacyl-CoA dehydrogenase, NAD binding 
    8.2e-06   25.2   0.4     0.0012   18.0   0.1    2.7  3  K_oxygenase     L-lysine 6-monooxygenase (NADPH-requiring)
    3.5e-05   23.2   0.8    0.00012   21.4   0.1    2.1  2  Thi4            Thi4 family
     0.0013   17.9   1.4       0.19   10.8   0.4    2.3  2  Lycopene_cycl   Lycopene cyclase protein
     0.0013   18.1   0.0     0.0033   16.8   0.0    1.6  2  Amino_oxidase   Flavin containing amine oxidoreductase
     0.0066   15.8   0.7        2.2    7.6   0.0    2.5  2  2-Hacid_dh_C    D-isomer specific 2-hydroxyacid dehydrogenase
     0.0094   15.5   4.3      0.075   12.6   0.2    2.3  2  UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family,
  ------ inclusion threshold ------
      0.076   13.5   0.1        2.2    8.8   0.0    2.8  3  XdhC_C          XdhC Rossmann domain
      0.097   13.1   4.7        1.6    9.2   1.2    3.7  2  NAD_binding_7   Putative NAD(P)-binding
       0.14   12.1   0.0       0.26   11.3   0.0    1.4  1  Translat_reg    Bacteriophage translational regulator
       0.24   11.7   0.1       0.24   11.7   0.1    3.1  4  TrkA_N          TrkA-N domain


Domain annotation for each model (and alignments):
>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  263.7   3.8   2.4e-81   1.9e-78       1     294 []       4     328 ..       4     328 .. 0.98

  Alignments for each domain:
  == domain 1  score: 263.7 bits;  conditional E-value: 2.4e-81
                              CSEEEE--SHHHHHHHHHHHHHTS-EEEEE....TTHCHHHCSHHHHCHHHHHHHHHHHHH......................... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxx......................... RF
              Pyr_redox_2   1 kdvvviGgGpAGlaaaltlaqagakvtlve....legtclnggcllskallgvaedaeias......................... 57 
                              +dvvviG+Gp+G+ +a++ aq g+kv+++e    l+gtcln+gc++ska+l ++e+ ++++                         
  PHY93_15545|PHY93_15545   4 YDVVVIGSGPGGYICAIRCAQLGMKVAIIEkyknLGGTCLNVGCIPSKAWLDSSEKFHELThsfadhgisagsvaldfnkmrdrvk 89 
                              69***************************99999************************999************************* PP

                              HHHHCHHHHCCCCHCCTCEEEEESCEEEEETEEEC....TCEEEEEESEEEE---EEE-BCTCTTC.TTBEECCSECHHHHHHCCS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2  58 evvkklnqgielllgeevvkidpgkkkvklekkke....gdeekiaydklvlAtGssprdlgipGvaenvgklvrtldsaealklk 139
                              +vv+ ++ g+ +l+++++++++ g + +k+ ++++    +d+++i+ +k+v+AtGs+p  l  pGv    ++  r+++s+eal l 
  PHY93_15545|PHY93_15545  90 KVVSDVSGGVSFLMKKNKIDVYVGLGSFKDANTVSikgeNDNQEIKGKKIVIATGSKPSSL--PGV---IIDKKRIITSTEALVLS 170
                              99********************************9***99999***************998..***...88999************ PP

                              S-TSEEEEES-SHHHHHHHHHHHHHT-EEEEEESSSSSSTTS-HHHHHHHHHHHHHTTEEEEESCEEEEEEETTEEEEEEETTSCE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 140 llpkrivvvGgGyiGvElAaalaklgkevtlveardrllraldkelsaaleealekeGvevklgtsvkeidgngeklevvledgee 225
                              + pk+++v+GgG+iG+El++++++lg+evt+ve +d +  ++d+els+ l++ l+k+Gve+ lg+ v+ei+++g+k++v+ +d+++
  PHY93_15545|PHY93_15545 171 EAPKKLIVIGGGVIGLELTSVFRRLGSEVTVVEFADSIIATMDSELSKNLHKILKKDGVEFFLGHGVTEIKSDGKKVTVKAKDKKS 256
                              ***************************************************************************999*****999 PP

                              .....EEESEEEE-S-EEES-HHCS.HCCT-EEEETTEEE--TTSBESSTTEEE-GGGCTECCSS--HHHHHHHH CS
                              .....xxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 226 .....idadlvvvavGvrpstelle.eklglelderggivvdeflrtnvpgiyaiGDvaggkggpelaqaAvqqG 294
                                   ++ d+++vavG+rp te+l+ e++g++ld+rg++ +d +l+tnvp+iyaiGDv+   +g +la++A ++G
  PHY93_15545|PHY93_15545 257 eniitLEGDYCLVAVGRRPYTEGLNlEAAGVKLDDRGRVHTDTHLQTNVPHIYAIGDVV---KGAMLAHKAEEEG 328
                              9**********************************************************...*********9998 PP

>> Pyr_redox_dim  Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  130.8   0.0     3e-41   2.3e-38       1     109 [.     347     455 ..     347     456 .. 0.99

  Alignments for each domain:
  == domain 1  score: 130.8 bits;  conditional E-value: 3e-41
                              BEEEEESSSEEEEEES-HHHHHHHHSGEEEEEEEEECGHHHCHTTHTEEEEEEEEETTTTBEEEEEEECTTHHHHHHHHHHHHHTT CS
            Pyr_redox_dim   1 iptvvftdpevasvGlteeeAkaagieikvgkfpfkangralayaetkgfvKlvadaktgkvlGahivGpgageliqelavaikag 86 
                              ip vv+t pevasvG te+++kaag e+k g+fpfka+gra+a++e++gfvK++ad+kt+++lG+h++Gp++++li e+ +a++++
  PHY93_15545|PHY93_15545 347 IPGVVYTWPEVASVGQTEDQLKAAGREYKSGSFPFKASGRARASNESDGFVKVLADKKTDEILGVHMIGPRCADLIGEAVLAMEYR 432
                              79************************************************************************************ PP

                              SBHHHHHTSBSSSSSTGGGGHCH CS
            Pyr_redox_dim  87 ltvedladtihihPtlsealkea 109
                              +++ed+a+t h+hPt+se+lkea
  PHY93_15545|PHY93_15545 433 ASAEDIARTSHAHPTYSESLKEA 455
                              ********************997 PP

>> Pyr_redox  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.8   0.2    0.0014       1.1       2      34 ..       6      38 ..       5      43 .. 0.92
   2 ?   -1.8   0.0       6.2   4.8e+03      49      58 ..     102     111 ..      73     139 .. 0.65
   3 !   75.2   1.4   5.6e-24   4.4e-21       1      79 [.     175     252 ..     175     256 .. 0.95

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.0014
                             EEEECSSHHHHHHHHHHHHTTSEEEEEESSSSS CS
                Pyr_redox  2 vvvvGgGyiglElAgalaelgkkVtvversdkl 34
                             vvv+G+G  g  +A   a+lg kV ++e  ++l
  PHY93_15545|PHY93_15545  6 VVVIGSGPGGYICAIRCAQLGMKVAIIEKYKNL 38
                             8**************************987766 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 6.2
                              HHHHTTEEEE CS
                Pyr_redox  49 klekngievl 58 
                               ++kn+i+v+
  PHY93_15545|PHY93_15545 102 LMKKNKIDVY 111
                              4555655555 PP

  == domain 3  score: 75.2 bits;  conditional E-value: 5.6e-24
                              EEEEECSSHHHHHHHHHHHHTTSEEEEEESSSSSSTTSSHHHHHHHHHHHHHTTEEEECSEEEEEEEEETTSEEEEEEE CS
                Pyr_redox   1 kvvvvGgGyiglElAgalaelgkkVtvversdkllrllDeeaskilqeklekngievllntkveeiegsedgvesvklk 79 
                              k++v+GgG+iglEl +++++lg++Vtvve +d +   +D e+sk+l++ l+k g+e+ l++ v+ei+ ++++v+ vk k
  PHY93_15545|PHY93_15545 175 KLIVIGGGVIGLELTSVFRRLGSEVTVVEFADSIIATMDSELSKNLHKILKKDGVEFFLGHGVTEIKSDGKKVT-VKAK 252
                              689******************************************************************99865.7766 PP

>> Pyr_redox_3  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   1.2   1.4e-05     0.011       1      32 [.       7      38 ..       7      44 .. 0.88
   2 !   38.9   0.2   7.5e-13   5.9e-10     118     305 .]     129     312 ..     109     312 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 1.4e-05
              Pyr_redox_3  1 iIiGaGPaGlaaaielkkagledylilEkg.ni 32
                             ++iG GP G  +ai + ++g+ ++ i+Ek  n+
  PHY93_15545|PHY93_15545  7 VVIGSGPGGYICAIRCAQLGM-KVAIIEKYkNL 38
                             79*******************.79****97555 PP

  == domain 2  score: 38.9 bits;  conditional E-value: 7.5e-13
              Pyr_redox_3 118 tsketyeAkkviiAtGefdkPnklnipGeeklvkhyskvkefhkyagqkvvViGgknSavDaAlelvrkgaeVtvvtrgseiekee 203
                               ++++++ kk++iAtG   kP  l     +k+ + +s+   +   a +k++ViGg+  + +    + r g+eVtvv   ++i ++ 
  PHY93_15545|PHY93_15545 129 NDNQEIKGKKIVIATGS--KPSSLPGVIIDKKRIITSTEALVLSEAPKKLIVIGGGVIGLELTSVFRRLGSEVTVVEFADSIIAT- 211
                              45679***********9..8877766666668999988888888999*****************************998765554. PP

              Pyr_redox_3 204 sdpsyslkpdienrleelvkeekikvlfnaevkeikekeeeykvktedgkkvev....kddvvlatGykpdlsflkk..slfelde 283
                                    +     ++l++++k++ +++   + v+eik + ++++vk++d+k+ ++     d  ++a+G +p ++ l+   ++++ld+
  PHY93_15545|PHY93_15545 212 ------MDSELSKNLHKILKKDGVEFFLGHGVTEIKSDGKKVTVKAKDKKSENIitleGDYCLVAVGRRPYTEGLNLeaAGVKLDD 291
                              ......44455567777777777**********************98876644455656777888*****9987654449999977 PP

              Pyr_redox_3 284 dgrpvlteeteetnvpglflaG 305
                               gr+  t+   +tnvp ++ +G
  PHY93_15545|PHY93_15545 292 RGRV-HTDTHLQTNVPHIYAIG 312
                              6665.5677889*******999 PP

>> FAD_oxidored  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.6   0.1   4.2e-12   3.3e-09       1      41 [.       5      45 ..       5     144 .. 0.86
   2 ?   -3.0   0.0       4.5   3.5e+03       3      29 ..     177     203 ..     176     211 .. 0.86
   3 ?    3.8   0.0     0.037        29      91     139 ..     218     267 ..     189     348 .. 0.83

  Alignments for each domain:
  == domain 1  score: 36.6 bits;  conditional E-value: 4.2e-12
             FAD_oxidored  1 DvvVvGGgpaGvaAAiaAaraGakvlLveergvlGGlltsg 41
                             DvvV+G+gp+G+++Ai +a+ G kv+++e+++ lGG+  + 
  PHY93_15545|PHY93_15545  5 DVVVIGSGPGGYICAIRCAQLGMKVAIIEKYKNLGGTCLNV 45
                             9***********************************97655 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 4.5
             FAD_oxidored   3 vVvGGgpaGvaAAiaAaraGakvlLve 29 
                              +V+GGg+ G+       r G +v +ve
  PHY93_15545|PHY93_15545 177 IVIGGGVIGLELTSVFRRLGSEVTVVE 203
                              89*****99999999999999999998 PP

  == domain 3  score: 3.8 bits;  conditional E-value: 0.037
             FAD_oxidored  91 avleemlaeagvtvllntrlvevekegkriesvtveske.g.rktirAkvf 139
                              + l+++l+++gv+ +l++ ++e++ +g +   v++++k+ +  +t+++++ 
  PHY93_15545|PHY93_15545 218 KNLHKILKKDGVEFFLGHGVTEIKSDG-KKVTVKAKDKKsEnIITLEGDYC 267
                              5579999******************98.55567777777556777777665 PP

>> HI0933_like  HI0933-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.4   0.3   3.4e-09   2.6e-06       1      36 [.       4      39 ..       4      46 .. 0.93
   2 ?    3.6   0.0     0.028        22     140     165 ..     120     146 ..      98     158 .. 0.80
   3 ?    4.9   0.1     0.011       8.6       2      35 ..     175     208 ..     174     213 .. 0.91
   4 ?    5.1   0.0      0.01       7.9     111     163 ..     216     272 ..     209     279 .. 0.72

  Alignments for each domain:
  == domain 1  score: 26.4 bits;  conditional E-value: 3.4e-09
                             -SEEEE--SHHHHHHHHHHHHTT--EEEE-SSSSS- CS
              HI0933_like  1 kdviviGgGaAGlmaAisaakrgkrVlllekakklg 36
                             +dv+viG G+ G  +Ai++a+ g +V+++ek k+lg
  PHY93_15545|PHY93_15545  4 YDVVVIGSGPGGYICAIRCAQLGMKVAIIEKYKNLG 39
                             59******************************9998 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.028
                              TE.EEEEE..TTEEEEESEEEE----S CS
              HI0933_like 140 dgkfrvkt.kseeeleadklvlAtGGl 165
                               +++++k  ++++e++ +k+v+AtG++
  PHY93_15545|PHY93_15545 120 ANTVSIKGeNDNQEIKGKKIVIATGSK 146
                              4446666667999************87 PP

  == domain 3  score: 4.9 bits;  conditional E-value: 0.011
                              SEEEE--SHHHHHHHHHHHHTT--EEEE-SSSSS CS
              HI0933_like   2 dviviGgGaAGlmaAisaakrgkrVlllekakkl 35 
                              ++iviGgG  Gl  +   ++ g++V+++e a+++
  PHY93_15545|PHY93_15545 175 KLIVIGGGVIGLELTSVFRRLGSEVTVVEFADSI 208
                              78**************************987765 PP

  == domain 4  score: 5.1 bits;  conditional E-value: 0.01
                              HHHHHHHHHHHHT-EEE-S--EEEEECETTE.EEEEE.TTE.....EEEESEEEE--- CS
              HI0933_like 111 ivdallkelkeagvklrletevksvekeedgkfrvktksee.....eleadklvlAtG 163
                              + + l k lk+ gv++ l + v++++++ ++ ++vk+k+++     +le d+ ++A+G
  PHY93_15545|PHY93_15545 216 LSKNLHKILKKDGVEFFLGHGVTEIKSDGKK-VTVKAKDKKseniiTLEGDYCLVAVG 272
                              556788999****************765555.88888432211233567777777777 PP

>> FAD_binding_2  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.1   0.5     8e-11   6.2e-08       1      37 [.       5      41 ..       5      46 .. 0.96
   2 ?    2.3   0.4     0.091        71       2      29 ..     176     203 ..     175     212 .. 0.91
   3 ?   -2.0   0.0       1.9   1.5e+03     146     197 ..     219     269 ..     206     276 .. 0.71
   4 !    6.7   0.1    0.0043       3.3     373     406 ..     284     319 ..     275     328 .. 0.83

  Alignments for each domain:
  == domain 1  score: 32.1 bits;  conditional E-value: 8e-11
                             SEEEE--SHHHHHHHHHHHHTTT-EEEEESSSGGGSG CS
            FAD_binding_2  1 DviViGsGlAGLaAAleaaeaGlkvavvekeqefgga 37
                             Dv+ViGsG +G+ +A+++a+ G kva++ek ++ gg+
  PHY93_15545|PHY93_15545  5 DVVVIGSGPGGYICAIRCAQLGMKVAIIEKYKNLGGT 41
                             9*******************************99986 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.091
                              EEEE--SHHHHHHHHHHHHTTT-EEEEE CS
            FAD_binding_2   2 viViGsGlAGLaAAleaaeaGlkvavve 29 
                              +iViG+G+ GL  +   ++ G +v+vve
  PHY93_15545|PHY93_15545 176 LIVIGGGVIGLELTSVFRRLGSEVTVVE 203
                              69************************98 PP

  == domain 3  score: -2.0 bits;  conditional E-value: 1.9
                              HHHHHHHTCTEEEEESEEEEEEEECTTEEEEEEEEETTTTCEEEEEESEEEE CS
            FAD_binding_2 146 rlvesarkagvdfqerteadeLivedgrvtGavvenpesgrevrirakavvl 197
                               l++ ++k gv+f+  + ++e+   dg+ +++ +++++s+++ +++ +  ++
  PHY93_15545|PHY93_15545 219 NLHKILKKDGVEFFLGHGVTEIKS-DGKKVTVKAKDKKSENIITLEGDYCLV 269
                              556666777799999999999966.666667788877777777766665555 PP

  == domain 4  score: 6.7 bits;  conditional E-value: 0.0043
                              S-EEEBETTSBE..STTEEESSBTEEE-STCEESSS CS
            FAD_binding_2 373 mgGvetdengrv..ldadgqpipGLYAaGevaaggv 406
                              ++Gv+ d++grv  + + ++++p  YA+G v  g +
  PHY93_15545|PHY93_15545 284 AAGVKLDDRGRVhtDTHLQTNVPHIYAIGDVVKGAM 319
                              57999999999987777788***********96655 PP

>> NAD_binding_8  NAD(P)-binding Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.3   0.1   3.4e-08   2.6e-05       1      36 [.       8      43 ..       8      55 .. 0.95
   2 !    9.0   0.1     0.002       1.6       1      36 [.     178     213 ..     178     236 .. 0.86

  Alignments for each domain:
  == domain 1  score: 24.3 bits;  conditional E-value: 3.4e-08
                             EE--SHHHHHHHHHHHCCTEEEEEE-SSSSSSGGG- CS
            NAD_binding_8  1 IvGaGlsGlvaAylLakagfdvlllekrdrlGGraa 36
                             ++G+G +G  +A ++a+ g +v ++ek   lGG + 
  PHY93_15545|PHY93_15545  8 VIGSGPGGYICAIRCAQLGMKVAIIEKYKNLGGTCL 43
                             8********************************996 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.002
                              EE--SHHHHHHHHHHHCCTEEEEEE-SSSSSSGGG- CS
            NAD_binding_8   1 IvGaGlsGlvaAylLakagfdvlllekrdrlGGraa 36 
                              ++G+G+ Gl + +  ++ g +v+++e +d++   + 
  PHY93_15545|PHY93_15545 178 VIGGGVIGLELTSVFRRLGSEVTVVEFADSIIATMD 213
                              8*************************9888755555 PP

>> FAD_binding_3  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.2     3e-06    0.0023       1      34 [.       3      36 ..       3      41 .. 0.94
   2 !    6.0   0.9    0.0076       5.9       5      31 ..     177     203 ..     174     212 .. 0.91
   3 !   12.9   0.0   6.1e-05     0.048     105     214 ..     214     329 ..     205     342 .. 0.68

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 3e-06
                             EEEEEEE--SHHHHHHHHHHHHTTHHEEEEESSS CS
            FAD_binding_3  1 etdVlIVGaGpaGlmlallLseaGvrvvlvekrs 34
                             e+dV+++G+Gp G + a   ++ G +v ++ek++
  PHY93_15545|PHY93_15545  3 EYDVVVIGSGPGGYICAIRCAQLGMKVAIIEKYK 36
                             589*****************************97 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.0076
                              EEE--SHHHHHHHHHHHHTTHHEEEEE CS
            FAD_binding_3   5 lIVGaGpaGlmlallLseaGvrvvlve 31 
                              +++G+G  Gl l+++ ++ G +v++ve
  PHY93_15545|PHY93_15545 177 IVIGGGVIGLELTSVFRRLGSEVTVVE 203
                              79************************9 PP

  == domain 3  score: 12.9 bits;  conditional E-value: 6.1e-05
                              HHHHHHHHHHHHHHTEEETCSEEEECCEECCCCCCCEEEECCTTEEEEEEEEEEEE--GTT-HHH....HHHTGGEEEEEEEEEEE CS
            FAD_binding_3 105 teleriLvehaeerglqvrfktevesleqdeegvtaevrdketgeeetvrakYlvGaDGgrStvr....ktlgiefegeetvyeag 186
                              +el + L + +++ g+++  ++ v+ ++ d+++vt +++dk+++++ t++ +Y   a G r  +     +++g+++   ++v + +
  PHY93_15545|PHY93_15545 214 SELSKNLHKILKKDGVEFFLGHGVTEIKSDGKKVTVKAKDKKSENIITLEGDYCLVAVGRRPYTEglnlEAAGVKLDDRGRVHTDT 299
                              688899999999*****************************************999999885322111144444444444443333 PP

                              EEEEEEEC..-SCCCTTCCEEEEECCTTEE CS
            FAD_binding_3 187 vldvlfda..dlsdiveplvlilsaesrgv 214
                               l++++     + d+v++ +l ++ae++gv
  PHY93_15545|PHY93_15545 300 HLQTNVPHiyAIGDVVKGAMLAHKAEEEGV 329
                              333333222333333333555555555555 PP

>> GIDA  Glucose inhibited division protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.9   4.5   2.5e-08     2e-05       1     150 [.       5     145 ..       5     166 .. 0.64
   2 ?    5.0   0.0     0.013        10       2      33 ..     176     207 ..     175     249 .. 0.84

  Alignments for each domain:
  == domain 1  score: 23.9 bits;  conditional E-value: 2.5e-08
                              CEEEE-SSHHHHHHHHHHHHTT--EEEE...ES-GGGTT--SSSSEEE-TTHHHHHHHHHHHT-SHHHHHHHHEEEEEEESTTS-C CS
                     GIDA   1 dviViGgGhAGceAAlaaarlGakvlLi...thkldtiaelsCnpsiggiakgllvrEidalggliikaadkagiqfrilNrskGp 83 
                              dv+ViG G  G+ +A+ +a+lG+kv++i    +  +t+++++C ps   + +++  +E+ +     +  a + ++ f+        
  PHY93_15545|PHY93_15545   5 DVVVIGSGPGGYICAIRCAQLGMKVAIIekyKNLGGTCLNVGCIPSKAWLDSSEKFHELTHSFADHGISAGSVALDFNK------- 83 
                              79**************************88777889**********988877777777777444444444444442222....... PP

                              CC-EEEEEE-HHHHHHHHHHHHHTSTTEEEEES-EEEEEECTTEEEEEEETTS-EEEECEEEE--TT CS
                     GIDA  84 avralraqvdrelyskevteklenepnleiieeeveeliveekkvkgvvtedgetikakavviatGt 150
                                +  r++   + +s  v   +++ +++++  +  +  +   ++v+    +d+++ik k++viatG+
  PHY93_15545|PHY93_15545  84 --MRDRVKKVVSDVSGGVSFLMKK-NKIDVYVGLGSFKDA--NTVSIKGENDNQEIKGKKIVIATGS 145
                              ..2222233333334444333333.444444443332222..3333334556666777777777776 PP

  == domain 2  score: 5.0 bits;  conditional E-value: 0.013
                              EEEE-SSHHHHHHHHHHHHTT--EEEEES-GG CS
                     GIDA   2 viViGgGhAGceAAlaaarlGakvlLithkld 33 
                              +iViGgG  G+e      rlG +v+ +    +
  PHY93_15545|PHY93_15545 176 LIVIGGGVIGLELTSVFRRLGSEVTVVEFADS 207
                              79**********************99943333 PP

>> AlaDh_PNT_C  Alanine dehydrogenase/PNT, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.5   0.0    0.0059       4.6      30      60 ..       5      35 ..       1     100 [. 0.93
   2 !   19.3   0.1   6.9e-07   0.00054      27      77 ..     172     223 ..     157     261 .. 0.80

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.0059
                             EEEEESTSHHHHHHHHHHHHTT-EEEEEESS CS
              AlaDh_PNT_C 30 kvlviGgGvaGlqAiatakglgakVtvlDvr 60
                              v+viG G  G   +  +++lg kV ++++ 
  PHY93_15545|PHY93_15545  5 DVVVIGSGPGGYICAIRCAQLGMKVAIIEKY 35
                             69**********9999999********9875 PP

  == domain 2  score: 19.3 bits;  conditional E-value: 6.9e-07
                              ---EEEEESTSHHHHHHHHHHHHTT-EEEEEESSHHHHHHHHH.TTTCECEE CS
              AlaDh_PNT_C  27 epakvlviGgGvaGlqAiatakglgakVtvlDvrparleqles.lgakfvev 77 
                              +p k +viGgGv Gl+  ++ ++lg +Vtv++   + +  ++s l ++  ++
  PHY93_15545|PHY93_15545 172 APKKLIVIGGGVIGLELTSVFRRLGSEVTVVEFADSIIATMDSeLSKNLHKI 223
                              57899*****************************999999999766663343 PP

>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.1   2.1e-05     0.016       1      36 [.       5      41 ..       5      72 .. 0.90
   2 ?   -2.2   0.0       3.1   2.4e+03     183     204 ..     124     147 ..     105     170 .. 0.64
   3 ?    4.8   2.2     0.023        18       2      27 ..     176     203 ..     175     213 .. 0.79
   4 !   10.0   0.0    0.0006      0.47     148     201 ..     216     272 ..     210     290 .. 0.74

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 2.1e-05
                             EEEEECTSHHHHHHHHHHHHTT..EEEEESSSSTTSSG CS
                      DAO  1 dvviiGGGiiGlstAyeLarrg..Vtllekgdiagsga 36
                             dvv+iG+G  G  +A   a+ g  V+++ek + +g g+
  PHY93_15545|PHY93_15545  5 DVVVIGSGPGGYICAIRCAQLGmkVAIIEKYKNLG-GT 41
                             9*****************************98888.65 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 3.1
                              E....EECTEEEEEEEEEEE--GGGH CS
                      DAO 183 e....rttpgendaadavVnaaGaws 204
                                   ++++++  + +++V+a+G   
  PHY93_15545|PHY93_15545 124 SikgeNDNQEI--KGKKIVIATGSKP 147
                              33332222243..3578999999654 PP

  == domain 3  score: 4.8 bits;  conditional E-value: 0.023
                              EEEECTSHHHHHHHHHHHHTT..EEEEE CS
                      DAO   2 vviiGGGiiGlstAyeLarrg..Vtlle 27 
                              +++iGGG+iGl       r g  Vt++e
  PHY93_15545|PHY93_15545 176 LIVIGGGVIGLELTSVFRRLGseVTVVE 203
                              69********987777744477899998 PP

  == domain 4  score: 10.0 bits;  conditional E-value: 0.0006
                              HHHHHHHHHHHTT-EEEESECEEEEEEEETCEEEEE..EECT.EEEE..EEEEEEE--G CS
                      DAO 148 ltaalaraaealGveilegtevtgleeedgkvwgve..rttp.gend..aadavVnaaG 201
                              l + l + +++ Gve+++g+ vt+++  dgk ++v+  + ++ +++   + d++ +a G
  PHY93_15545|PHY93_15545 216 LSKNLHKILKKDGVEFFLGHGVTEIKS-DGKKVTVKakD-KKsENIItlEGDYCLVAVG 272
                              5677888899***************65.67778887743.3323332355577888877 PP

>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.3   0.0      0.01       8.1       2      33 ..       6      37 ..       5     108 .. 0.77
   2 !   18.5   0.1   1.8e-06    0.0014       3      54 ..     177     228 ..     175     257 .. 0.90

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.01
                             EEEE--SCCHHHHHHHHHHTT-EEEEE-S-HH CS
                  3HCDH_N  2 vaviGaGtmGagiaavfasagleVvlvdisee 33
                             v viG+G  G   a  +a+ g++V +++  ++
  PHY93_15545|PHY93_15545  6 VVVIGSGPGGYICAIRCAQLGMKVAIIEKYKN 37
                             89************************998554 PP

  == domain 2  score: 18.5 bits;  conditional E-value: 1.8e-06
                              EEE--SCCHHHHHHHHHHTT-EEEEE-S-HHHHHHHHHHHHHHHHCCTTTTS CS
                  3HCDH_N   3 aviGaGtmGagiaavfasagleVvlvdiseealekalekieksleklvekgk 54 
                               viG G++G ++++vf + g eV++v+ +++++++  ++++k+l+k  +k  
  PHY93_15545|PHY93_15545 177 IVIGGGVIGLELTSVFRRLGSEVTVVEFADSIIATMDSELSKNLHKILKKDG 228
                              69*******************************************9988865 PP

>> K_oxygenase  L-lysine 6-monooxygenase (NADPH-requiring)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.0      0.81   6.3e+02       2      30 ..       3      29 ..       2      38 .. 0.65
   2 !   18.0   0.1   1.6e-06    0.0012     134     211 ..     122     193 ..      88     222 .. 0.76
   3 ?    4.3   0.0     0.024        19     288     339 ..     222     272 ..     204     275 .. 0.84

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 0.81
              K_oxygenase  2 ilDligiGiGpsnLsLailleevkkelka 30
                              +D++ iG Gp     ai+ ++    +k+
  PHY93_15545|PHY93_15545  3 EYDVVVIGSGPGGYICAIRCAQLG--MKV 29
                             578888888887766666666665..444 PP

  == domain 2  score: 18.0 bits;  conditional E-value: 1.6e-06
              K_oxygenase 134 tveskdaegeeeelearnlvlgvGtep.kiPevleklegkervvHsseylerkeellakkriaVvGsGqSaaeifedll 211
                              tv+  + e++++e++ +++v+++G++p ++P v+ +   k+r++ s e+l      +a+k+++V+G+G  + e++    
  PHY93_15545|PHY93_15545 122 TVSI-KGENDNQEIKGKKIVIATGSKPsSLPGVIID---KKRIITSTEALVLS---EAPKKLIVIGGGVIGLELTSVFR 193
                              4554.3467789************888369999985...579*****999987...799*********99999876444 PP

  == domain 3  score: 4.3 bits;  conditional E-value: 0.024
              K_oxygenase 288 kvkgeerlrllpnrevesaeaegkgeveltlrneesgeeetlevdavvlATG 339
                              k+ +++ +++   + v++++++gk +v+++ ++++s++  tle d+ ++A G
  PHY93_15545|PHY93_15545 222 KILKKDGVEFFLGHGVTEIKSDGK-KVTVKAKDKKSENIITLEGDYCLVAVG 272
                              55667789999999*********7.************************998 PP

>> Thi4  Thi4 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.4   0.1   1.6e-07   0.00012      17      59 ..       3      44 ..       1      59 [. 0.89
   2 ?   -0.6   0.1      0.84   6.6e+02      17      48 ..     173     203 ..     158     250 .. 0.78

  Alignments for each domain:
  == domain 1  score: 21.4 bits;  conditional E-value: 1.6e-07
                             EEEEEEE--SHHHHHHHHHHHHCTTS-EEEEESSSS--TTTTT CS
                     Thi4 17 esDvvivGaGssGLtaayylakkpdlkvailersvspGGGawl 59
                             e Dvv++G+G+ G  +a   a+  ++kvai+e+   +GG    
  PHY93_15545|PHY93_15545  3 EYDVVVIGSGPGGYICAIRCAQL-GMKVAIIEKYKNLGGTCLN 44
                             78********************9.************9997655 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.84
                              EEEEEEE--SHHHHHHHHHHHHCTTS-EEEEE CS
                     Thi4  17 esDvvivGaGssGLtaayylakkpdlkvaile 48 
                                 ++++G+G  GL  + ++ +  + +v+++e
  PHY93_15545|PHY93_15545 173 PKKLIVIGGGVIGLELTSVFRRL-GSEVTVVE 203
                              56689999999999888777666.55566655 PP

>> Lycopene_cycl  Lycopene cyclase protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.8   0.4   0.00024      0.19       1      32 [.       5      34 ..       5      47 .. 0.93
   2 !    5.9   0.0    0.0071       5.5       2      39 ..     176     211 ..     175     223 .. 0.92

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00024
            Lycopene_cycl  1 DvvviGaGpAglslAarlteakpglkvvliea 32
                             DvvviG+Gp g   A r   a+ g+kv +ie 
  PHY93_15545|PHY93_15545  5 DVVVIGSGPGGYICAIRC--AQLGMKVAIIEK 34
                             9*****************..**********96 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.0071
            Lycopene_cycl   2 vvviGaGpAglslAarlteakpglkvvlieaspsllfp 39 
                              ++viG+G  gl l       + g +v+++e ++s++ +
  PHY93_15545|PHY93_15545 176 LIVIGGGVIGLELTSVF--RRLGSEVTVVEFADSIIAT 211
                              79***********9999..***********99999765 PP

>> Amino_oxidase  Flavin containing amine oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0       4.2   3.3e+03       5      28 ..      17      40 ..      15      42 .. 0.86
   2 !   16.8   0.0   4.3e-06    0.0033     210     261 ..     214     272 ..     180     277 .. 0.89

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 4.2
                             HHHHHHHHTTEEEEEEESSSSSBT CS
            Amino_oxidase  5 aaArqLlsaGfdVtvlEardrvGG 28
                             ++A + ++ G++V ++E    +GG
  PHY93_15545|PHY93_15545 17 ICAIRCAQLGMKVAIIEKYKNLGG 40
                             578888999*********999999 PP

  == domain 2  score: 16.8 bits;  conditional E-value: 4.3e-06
                              HHHHHHHHH..TTTTEEEETSEEEEEEEEETTCEEEEETTSTEE.....EESEEEE-S- CS
            Amino_oxidase 210 sqlpealae..elrgldirlntrVkeikregdgvtvtledgevv.....eaDaVvvTvp 261
                              s+l ++l++  ++ g+++ l++ V+eik +g +vtv+ +d ++      e+D+++v+v 
  PHY93_15545|PHY93_15545 214 SELSKNLHKilKKDGVEFFLGHGVTEIKSDGKKVTVKAKDKKSEniitlEGDYCLVAVG 272
                              788899999999***************************9999999***********96 PP

>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.0   0.2    0.0089       6.9      37      70 ..       4      37 ..       1      48 [. 0.89
   2 !    7.6   0.0    0.0029       2.2      36      69 ..     173     206 ..     156     227 .. 0.80

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.0089
                             SEEEEES-SHHHHHHHHHHHHTT-EEEEESSSHH CS
             2-Hacid_dh_C 37 ktvGiiGlGrIGqavakrlkafgmkviaydrskk 70
                               v +iG G  G   a r++++gmkv +++++k+
  PHY93_15545|PHY93_15545  4 YDVVVIGSGPGGYICAIRCAQLGMKVAIIEKYKN 37
                             5689*************************99976 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0029
                              TSEEEEES-SHHHHHHHHHHHHTT-EEEEESSSH CS
             2-Hacid_dh_C  36 gktvGiiGlGrIGqavakrlkafgmkviaydrsk 69 
                               k++ +iG G IG ++  +++ +g +v++++   
  PHY93_15545|PHY93_15545 173 PKKLIVIGGGVIGLELTSVFRRLGSEVTVVEFAD 206
                              68999**********************9987664 PP

>> UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   0.6     0.036        28       3      30 ..       6      33 ..       4      37 .. 0.91
   2 !   12.6   0.2   9.6e-05     0.075       2      48 ..     175     221 ..     174     249 .. 0.88

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.036
                             EEEE--STTHHHHHHHHHHCTSEEEEE- CS
           UDPG_MGDP_dh_N  3 isviGlGYvGlvtaavlaeighevigvD 30
                             ++viG+G  G ++a+  a++g++v ++ 
  PHY93_15545|PHY93_15545  6 VVVIGSGPGGYICAIRCAQLGMKVAIIE 33
                             89**********************9986 PP

  == domain 2  score: 12.6 bits;  conditional E-value: 9.6e-05
                              EEEEE--STTHHHHHHHHHHCTSEEEEE-S-HHHHHHHCTTS-SS-- CS
           UDPG_MGDP_dh_N   2 kisviGlGYvGlvtaavlaeighevigvDideekvdklnsgkipiye 48 
                              k+ viG G +Gl    v+ ++g ev++v   ++ ++++ s+ ++  +
  PHY93_15545|PHY93_15545 175 KLIVIGGGVIGLELTSVFRRLGSEVTVVEFADSIIATMDSELSKNLH 221
                              678*********************************99988766554 PP

>> XdhC_C  XdhC Rossmann domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.0      0.54   4.2e+02       1      32 [.       6      37 ..       6      90 .. 0.84
   2 ?    8.8   0.0    0.0028       2.2       1      31 [.     176     206 ..     176     270 .. 0.89
   3 ?   -2.4   0.0       8.5   6.6e+03      64      97 ..     300     333 ..     286     338 .. 0.79

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.54
                             EEEE--STTHHHHHHHHHHHTEEEEEEES-GG CS
                   XdhC_C  1 lvifGaghvaqalarlaaalgfrvtvvdpree 32
                             +v++G g+ +  +a   a+lg++v ++++ ++
  PHY93_15545|PHY93_15545  6 VVVIGSGPGGYICAIRCAQLGMKVAIIEKYKN 37
                             6899**********************998765 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.0028
                              EEEE--STTHHHHHHHHHHHTEEEEEEES-G CS
                   XdhC_C   1 lvifGaghvaqalarlaaalgfrvtvvdpre 31 
                              l+++G+g ++ +l ++ ++lg +vtvv+  +
  PHY93_15545|PHY93_15545 176 LIVIGGGVIGLELTSVFRRLGSEVTVVEFAD 206
                              79************************98655 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 8.5
                              HSSS--SEEEESS-HHHHHHHCTTS.--...... CS
                   XdhC_C  64 alrkkaayigllGSrkkaarrlerlraaglseee 97 
                               l+++++ i ++G   k a + ++ +++g+ ++e
  PHY93_15545|PHY93_15545 300 HLQTNVPHIYAIGDVVKGAMLAHKAEEEGVMAAE 333
                              4666788899999999999999999888886654 PP

>> NAD_binding_7  Putative NAD(P)-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.8   0.1       0.2   1.6e+02       6      39 ..       2      35 ..       1     149 [. 0.79
   2 ?    9.2   1.2     0.002       1.6       7      40 ..     173     206 ..     167     331 .. 0.78

  Alignments for each domain:
  == domain 1  score: 2.8 bits;  conditional E-value: 0.2
            NAD_binding_7  6 kgkkvlvvGgGevAarkvrklleagakvtvvape 39
                             k+  v+v+G G+ ++  + + ++ g kv ++ + 
  PHY93_15545|PHY93_15545  2 KEYDVVVIGSGPGGYICAIRCAQLGMKVAIIEKY 35
                             566899*****99999999999999999999775 PP

  == domain 2  score: 9.2 bits;  conditional E-value: 0.002
            NAD_binding_7   7 gkkvlvvGgGevAarkvrklleagakvtvvapev 40 
                               kk +v+GgG ++++  + + + g +vtvv  + 
  PHY93_15545|PHY93_15545 173 PKKLIVIGGGVIGLELTSVFRRLGSEVTVVEFAD 206
                              5899*************************85442 PP

>> Translat_reg  Bacteriophage translational regulator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00033      0.26      33      86 ..     217     271 ..     198     285 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00033
                              EE-EE.EEEETTE.EEEEEHHHHHHHTT------HHHHHHHHHHHHHHHHTTS-EE CS
             Translat_reg  33 yqsch.ilqkkgl.yylvhfkellaldgrqveiteedivrrdsiaklledwnliki 86 
                               +  h il+k g+ ++l h    ++ dg++v + ++d++  ++i  l  d+ l+ +
  PHY93_15545|PHY93_15545 217 SKNLHkILKKDGVeFFLGHGVTEIKSDGKKVTVKAKDKK-SENIITLEGDYCLVAV 271
                              44444399****956788999999***********9975.6788899999999876 PP

>> TrkA_N  TrkA-N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.2       1.5   1.2e+03       1      29 [.       6      34 ..       6      38 .. 0.87
   2 ?   11.7   0.1    0.0003      0.24       2      41 ..     177     216 ..     176     230 .. 0.84
   3 ?   -2.6   0.0       8.2   6.4e+03      88     106 ..     243     261 ..     232     266 .. 0.72
   4 ?   -2.1   0.0       5.7   4.4e+03      41      61 ..     438     458 ..     429     461 .. 0.75

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 1.5
                             EEEES-SHHHHHHHHHHHH.TTEEEEEEES CS
                   TrkA_N  1 iiiiGlGrvGrslaeeLse.ggkdvvvidk 29
                             +++iG G  G+  a +  + g  +v +i+k
  PHY93_15545|PHY93_15545  6 VVVIGSGPGGYICAIRCAQlGM-KVAIIEK 34
                             79*****************555.6****98 PP

  == domain 2  score: 11.7 bits;  conditional E-value: 0.0003
                              EEES-SHHHHHHHHHHHH.TTEEEEEEESSHHHHHHHHHTT CS
                   TrkA_N   2 iiiGlGrvGrslaeeLse.ggkdvvvidkdeerveelreeg 41 
                              i+iG G +G +l+  +++ g+ +v+v++  ++ ++++  e 
  PHY93_15545|PHY93_15545 177 IVIGGGVIGLELTSVFRRlGS-EVTVVEFADSIIATMDSEL 216
                              9*****************777.6******999998887665 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 8.2
                              SSSEEEEEESSGGGHHHHH CS
                   TrkA_N  88 pkkkiiaraqdpehaellk 106
                              ++kk+ ++a+d++ ++++ 
  PHY93_15545|PHY93_15545 243 DGKKVTVKAKDKKSENIIT 261
                              4478888888888877764 PP

  == domain 4  score: -2.1 bits;  conditional E-value: 5.7
                              TSEEEES-TTSHHHHHHTTGG CS
                   TrkA_N  41 glevvvgdatdeevLeeagie 61 
                               +++ ++++t  e L+ea ++
  PHY93_15545|PHY93_15545 438 IARTSHAHPTYSESLKEACLA 458
                              367889999999999999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (465 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       598  (0.0333538); expected 358.6 (0.02)
Passed bias filter:                      500  (0.0278878); expected 358.6 (0.02)
Passed Vit filter:                        65  (0.00362541); expected 17.9 (0.001)
Passed Fwd filter:                        23  (0.00128284); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              23  [number of targets reported over threshold]
# CPU time: 0.74u 0.29s 00:00:01.03 Elapsed: 00:00:00.48
# Mc/sec: 2884.99
//
Query:       PHY93_17180|PHY93_17180  [L=140]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.11   13.0   0.1       0.17   12.3   0.1    1.4  1  DUF4094   Domain of unknown function (DUF4094)


Domain annotation for each model (and alignments):
>> DUF4094  Domain of unknown function (DUF4094)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.1   9.6e-06      0.17      11      47 ..      66     104 ..      59     134 .. 0.63

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 9.6e-06
                  DUF4094  11 asflagllftnRlwtvpsdiirqsk...eelklvsedcds 47 
                               sf +g++f+ +lw+    + +++    ++   +s +c  
  PHY93_17180|PHY93_17180  66 XSFALGMCFSAKLWSXA-RLKERRIwpvTSNANTSGQCLI 104
                              59************444.3333331334333335555543 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (140 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       194  (0.0108205); expected 358.6 (0.02)
Passed bias filter:                      140  (0.00780858); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.45
# Mc/sec: 929.40
//
Query:       PHY93_15550|PHY93_15550  [L=256]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      7e-43  146.7   0.1    7.9e-43  146.5   0.1    1.0  1  DLH            Dienelactone hydrolase family
    2.9e-07   30.2   0.0     0.0024   17.4   0.0    2.2  2  Peptidase_S9   Prolyl oligopeptidase family
    0.00025   20.9   0.0    0.00052   19.9   0.0    1.5  2  Abhydrolase_2  Phospholipase/Carboxylesterase
  ------ inclusion threshold ------
      0.012   14.9   0.0        3.7    6.7   0.0    2.1  2  Hydrolase_4    Serine aminopeptidase, S33
      0.055   13.6   0.2       0.19   11.9   0.1    1.9  1  TM_PBP2_N      N-terminal of TM subunit in PBP-dependent ABC 
      0.074   13.6   0.0       0.09   13.4   0.0    1.1  1  Abhydrolase_6  Alpha/beta hydrolase family
       0.11   12.4   0.3        6.3    6.6   0.0    2.2  2  BAAT_C         BAAT / Acyl-CoA thioester hydrolase C terminal


Domain annotation for each model (and alignments):
>> DLH  Dienelactone hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  146.5   0.1   3.1e-46   7.9e-43      10     215 ..      44     255 ..      35     256 .] 0.93

  Alignments for each domain:
  == domain 1  score: 146.5 bits;  conditional E-value: 3.1e-46
                      DLH  10 na..kkpvvvviqeifGvndnikdiserlaeeGYvalaPdlYarqaldpndeaeaaraldelvskvaeekvlddlkaavaylksvp 93 
                              +   kk +v+v+++++G+ ++ +     la+ GYva+a+dlY ++  +p+d++ea ++ + l++++  + + ++ k a+a+l++++
  PHY93_15550|PHY93_15550  44 SLkgKKAGVIVFPNWMGIASEAESKITELAKLGYVAMAADLYGKGT-RPKDAKEAGELSTILKNDR--QLLRERSKLALATLAKNS 126
                              3335899************99999999******************9.9***********8888888..777777788********* PP

                      DLH  94 evstkkvgvvGfCmGGalalllaaevpevdaavafYGlspekeleeaakikapilalfgeeDefipadevekleealkaanvdlel 179
                              +v+++k+ +vG+C+GG+ al+l + ++ v + v f+G   +++ ++a++ika + + +ge D+f++ +ev  +++++ +a+v++ l
  PHY93_15550|PHY93_15550 127 KVDSSKLLAVGYCFGGTAALELGRSGADVLGIVTFHGALSNPTPADAKNIKAQVEVYHGEIDPFVTVEEVAAFKKEMDEAKVTYSL 212
                              **************************99*********99999999***************************************** PP

                      DLH 180 kvYpgagHaFandsre.......syneeaaedawervlelfkq 215
                               v++ga+H+F+   +         yn+ a++++we ++++f++
  PHY93_15550|PHY93_15550 213 TVFSGAVHSFTDSGAGhditkgqAYNAIADRRSWEGMKSFFHE 255
                              ***********99998999***9******************86 PP

>> Peptidase_S9  Prolyl oligopeptidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.6   0.0   0.00011      0.28       7      78 ..      69     145 ..      63     151 .. 0.80
   2 !   17.4   0.0   9.6e-07    0.0024     131     194 ..     165     228 ..     160     239 .. 0.88

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00011
                              HHHHHCCT-EEEEE--TTSSTTHCHHHHTTSG....GGGHHHHHHHHHHHHHHHHTT.S--GGGEEEEEETHHHHHH CS
             Peptidase_S9   7 lqlladrGyvvvvanirGsggyGeafhdagkr....klgqnefdDfiaaaealakeg.yvdserlaitGgSyGGylt 78 
                              +  la++Gyv ++a++ G g + ++ ++ag+     k+  + ++   + a a  +++  vds++l + G  +GG+ +
  PHY93_15550|PHY93_15550  69 ITELAKLGYVAMAADLYGKGTRPKDAKEAGELstilKNDRQLLRERSKLALATLAKNsKVDSSKLLAVGYCFGGTAA 145
                              555789**********************997522226677778888887666555555****************976 PP

  == domain 2  score: 17.4 bits;  conditional E-value: 9.6e-07
                              HHHH-CGGG-----EEEEEEETT-SSS-THHHHHHHHHHH--S-SEEEEEETTS-SSTTSSHHH CS
             Peptidase_S9 131 lspyspldnvkaypplLlihGlaDdrvppaealklvaaLqkkgknvlllifpdegHgvgkprak 194
                              ls+ +p+d++++++++ + hG+ D  v+++e + + ++++++++++ l +f ++ H++ ++ a 
  PHY93_15550|PHY93_15550 165 LSNPTPADAKNIKAQVEVYHGEIDPFVTVEEVAAFKKEMDEAKVTYSLTVFSGAVHSFTDSGAG 228
                              6777888888899*******************************************99876655 PP

>> Abhydrolase_2  Phospholipase/Carboxylesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       1.8   4.7e+03     127     156 ..      46      74 ..      41      80 .. 0.78
   2 !   19.9   0.0     2e-07   0.00052     101     201 ..     118     222 ..      89     227 .. 0.82

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 1.8
                              SS--SEEEEES---TTGGGTTTTS-GGGGG CS
            Abhydrolase_2 127 pkklggivafsgalplsqklessatavtkk 156
                              + k +g++ f  ++ ++++ es+ t+++ k
  PHY93_15550|PHY93_15550  46 KGKKAGVIVFPNWMGIASEAESKITELA-K 74 
                              5577899999999999999998888887.4 PP

  == domain 2  score: 19.9 bits;  conditional E-value: 2e-07
                              T.........--GGGEEEEEETHHHHHHHHHHHT-SS--SEEEEES---TTGGGTTTTS-GGGGG-EEEEEEETT-SSS-HHHHHH CS
            Abhydrolase_2 101 g.........ipssriiigGFSqGaalalylaltlpkklggivafsgalplsqklessatavtkklpilqiHgeeDpvvplalgka 177
                                        ++ss+ + +G+  G+  al+l+ +    + giv f gal+ ++    + ++ +    +   Hge Dp v +   +a
  PHY93_15550|PHY93_15550 118 AlatlaknskVDSSKLLAVGYCFGGTAALELGRSG-ADVLGIVTFHGALSNPTPADAKNIKAQ----VEVYHGEIDPFVTVEEVAA 198
                              23333444679*******************99765.56789********99998886555555....8889*************** PP

                              HHHHHHTTS-GEEEEEETT--SS- CS
            Abhydrolase_2 178 akevlkkllkkvelksyeglaHsi 201
                              +k+ + ++   ++l+++ g  Hs 
  PHY93_15550|PHY93_15550 199 FKKEMDEAKVTYSLTVFSGAVHSF 222
                              *******999************96 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.4   0.0    0.0019       4.7      23     105 ..      68     159 ..      47     170 .. 0.65
   2 ?    6.7   0.0    0.0015       3.7     184     233 ..     170     221 ..     160     224 .. 0.85

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.0019
              Hydrolase_4  23 laeaLaaqGfavyalDhrGhGrse.......gkrghvpsfddyvdDlaafv.ekvkeehpel...plfllGhSmGGliallyllry 97 
                               + +La+ G+  +a D  G G  +            +++  ++++  +++   +++++++     +l  +G   GG+ al+++   
  PHY93_15550|PHY93_15550  68 KITELAKLGYVAMAADLYGKGTRPkdakeagELSTILKNDRQLLRERSKLAlATLAKNSK-VdssKLLAVGYCFGGTAALELGRSG 152
                              5789*******************9665555322233444455555554443233332222.2357999999999999998887766 PP

              Hydrolase_4  98 pdkvagli 105
                              +d v g++
  PHY93_15550|PHY93_15550 153 AD-VLGIV 159
                              66.55555 PP

  == domain 2  score: 6.7 bits;  conditional E-value: 0.0015
              Hydrolase_4 184 eeraakitlPllllhGeaDkvvdpeasrelyerlgsk..dktlklypglyHe 233
                               ++a++i++ + ++hGe D+ v  e+ +++ +++  +    +l+++ g+ H+
  PHY93_15550|PHY93_15550 170 PADAKNIKAQVEVYHGEIDPFVTVEEVAAFKKEMDEAkvTYSLTVFSGAVHS 221
                              5789999********************9999999988445567889999997 PP

>> TM_PBP2_N  N-terminal of TM subunit in PBP-dependent ABC transporters
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.1   7.3e-05      0.19      15      39 ..     218     242 ..     208     251 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 7.3e-05
                TM_PBP2_N  15 istafTNyGdGhrgtkeeaiaaiqa 39 
                              +  +fT  G Gh +tk +a +ai  
  PHY93_15550|PHY93_15550 218 AVHSFTDSGAGHDITKGQAYNAIAD 242
                              5679***************999975 PP

>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   3.5e-05      0.09      21     122 ..      71     197 ..      55     249 .. 0.63

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 3.5e-05
                              HHHCCTCEEEEE--TTSTS-GGCS--HHHCHHH....HHHHCCTT..............TTSEEEEEETCHHHHHHHHHHCC.... CS
            Abhydrolase_6  21 allaagvhvlapDlpGhGrsdpppldledladl....aalldelaa............gggpvvlvGHSlGGalalaaapla.... 86 
                              +l+  g+   a Dl G G+++ ++ +  +l ++    ++ll+e  +            +  +  +vG+++GG+ al+++++     
  PHY93_15550|PHY93_15550  71 ELAKLGYVAMAADLYGKGTRPKDAKEAGELSTIlkndRQLLRERSKlalatlaknskvDSSKLLAVGYCFGGTAALELGRSGadvl 156
                              555556544578888887444444444443333322133333332255555666888888999**************777778777 PP

                              .....EEEEES-..----TTTS----TTHHHHHHTT-C....C CS
            Abhydrolase_6  87 ...lvvgvlldppptalpagllaaalelllallallrl....l 122
                                   +g l +p  t ++a ++ a +e++++ ++++++    +
  PHY93_15550|PHY93_15550 157 givTFHGALSNP--TPADAKNIKAQVEVYHGEIDPFVTveevA 197
                              776556688888..66677778888888887777666643332 PP

>> BAAT_C  BAAT / Acyl-CoA thioester hydrolase C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.6   0.0    0.0025       6.3       9      68 ..     118     177 ..     116     224 .. 0.74
   2 ?    3.8   0.1     0.018        47     190     209 ..     236     255 ..     228     256 .] 0.92

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.0025
                              HHHHHHCSTTB--SSEEEEEETHHHHHHHHHHHHSSSEEEEEEES--SB--SSEEEETTE CS
                   BAAT_C   9 ainyllrhpkvkkdkigllGiSkGgelalllasflkkisavvlingsavvvegklvykde 68 
                              a++ l +++kv  +k   +G ++Gg+ al l+    ++  +v   g+  +   +++++ +
  PHY93_15550|PHY93_15550 118 ALATLAKNSKVDSSKLLAVGYCFGGTAALELGRSGADVLGIVTFHGALSNPTPADAKNIK 177
                              566789999***********************9999999999999988887666555544 PP

  == domain 2  score: 3.8 bits;  conditional E-value: 0.018
                              HHHHHHHHHHHHHHHHHHHH CS
                   BAAT_C 190 kahakAqedsWkkilkFlkk 209
                              +++a A+  sW+ +  F+++
  PHY93_15550|PHY93_15550 236 AYNAIADRRSWEGMKSFFHE 255
                              579***************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (256 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       539  (0.030063); expected 358.6 (0.02)
Passed bias filter:                      477  (0.0266049); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.56u 0.26s 00:00:00.82 Elapsed: 00:00:00.46
# Mc/sec: 1678.39
//
Query:       PHY93_15555|PHY93_15555  [L=90]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (90 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       329  (0.0183502); expected 358.6 (0.02)
Passed bias filter:                      285  (0.015896); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.44
# Mc/sec: 616.77
//
Query:       PHY93_15560|PHY93_15560  [L=244]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (244 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       572  (0.0319036); expected 358.6 (0.02)
Passed bias filter:                      437  (0.0243739); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.26s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 1667.97
//
Query:       PHY93_15565|PHY93_15565  [L=368]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      1e-52  178.9   0.0    1.3e-52  178.5   0.0    1.1  1  Semialdhyde_dhC  Semialdehyde dehydrogenase, dimerisation dom
    1.5e-22   80.2   0.0    3.4e-22   79.1   0.0    1.6  1  Semialdhyde_dh   Semialdehyde dehydrogenase, NAD binding doma
     0.0037   16.9   0.0      0.007   16.0   0.0    1.5  1  Gp_dh_C          Glyceraldehyde 3-phosphate dehydrogenase, C-


Domain annotation for each model (and alignments):
>> Semialdhyde_dhC  Semialdehyde dehydrogenase, dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  178.5   0.0   2.2e-56   1.3e-52       1     184 []     145     354 ..     145     354 .. 0.97

  Alignments for each domain:
  == domain 1  score: 178.5 bits;  conditional E-value: 2.2e-56
                              HHHHHHCTT.EEEEEEEEEEEGGGCHHHHHHHHHHH.........................HHHHHHSTTS.CTTTSSHHTTSEES CS
          Semialdhyde_dhC   1 LkPLldalgelervivatyqavSGaGkkgvreLlkq.........................vaelqrsdeakpgvfgvpiagNlip 61 
                              L++L++  + +e+++ +tyqa+SGaG+++++eLl+q                         v++l+ +++++ ++fg+p+a+Nl+p
  PHY93_15565|PHY93_15565 145 LGGLFKS-DSIEWITSMTYQAASGAGARHMNELLRQmkfvtdrvmadgenlseqilqvekkVKKLLYDPQFPSENFGAPLAFNLLP 229
                              7899**7.****************************************************************************** PP

                              TCSTBTTTTCHCBHHHHHHHHHHHHHCTESC..SEEEEEEEESBSSEEEEEEEEEESSSHHHHHHHHHHHHCS.TTEEEEESS... CS
          Semialdhyde_dhC  62 yidkeedkgepetreelkavaetkkilefte..kvsatcvrVPvlrGhseavtiklklkdveveeveellaaa.pevkvvvne... 141
                              +id+e+d+g  +++ee+ka ae +kil++++  ++ +tcvrV ++r+hs+a+tiklk kd++++e+e+ ++++ ++vk v+n+   
  PHY93_15565|PHY93_15565 230 WIDSELDNG--QSKEEWKAGAEANKILQRKSliPIDGTCVRVSAMRCHSQALTIKLK-KDIPMDEIESMIKEHnEWVKFVPNTkee 312
                              *********..********************86666********************7.***************9********9988 PP

                              HCHHSSHHHHTTCSSSEEEEEEEEETTCTTEEEEEEEEETTTT CS
          Semialdhyde_dhC 142 eedrPtpaavaggtnsvsVGRirkdemgdeglklvvvgDNllk 184
                              + + +tp+  +g ++++++GR+rk + g+++l++++vgD+ll+
  PHY93_15565|PHY93_15565 313 SVKTLTPQFTSG-SLQIPIGRMRKMNLGPTYLNAFTVGDQLLW 354
                              8999*******9.9***************************98 PP

>> Semialdhyde_dh  Semialdehyde dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.1   0.0   5.8e-26   3.4e-22       1     120 [.       3     122 ..       3     123 .. 0.91

  Alignments for each domain:
  == domain 1  score: 79.1 bits;  conditional E-value: 5.8e-26
                              EEEEETTTSHHHHHHHHHHHC..TSSEEEEEEEESTTTTTSBHHHHSGGGTTTECEBEEE.GGGGGCTT-SEEEE-SCHHHHHHHH CS
           Semialdhyde_dh   1 kvaivGatGyvGqellrlLee..hpevelvvllsssrsaGkklaeavkaleegkdlkved.vdeeelkevdivflalpagvskela 83 
                              k +ivG++G+vGq+l++++ e  +++  ++ ++s+s+ +G++   +v+    +++  ++d  d +elk++di++++++++++k+++
  PHY93_15565|PHY93_15565   3 KLGIVGWRGMVGQVLMERMIEssDFNHFESIFFSTSQ-KGENNPIKVP----NSNPILQDaFDLNELKKMDIILTCQGGDYTKKVH 83 
                              579************9888876877766777788888.8999999999....899999999************************* PP

                              HHHHHTTS..EEEESSSTTTTSTTSEBE-HHHHGGGGGG CS
           Semialdhyde_dh  84 pklaeagv..kviDlssdfRlkddavyvlpevnreaikk 120
                               +l+++g+  ++iD++s++R++d+a+++l+++n++ i++
  PHY93_15565|PHY93_15565  84 GELRASGFkgYWIDAASTLRMEDNAIIILDPLNKNIIQS 122
                              ********999**********************998765 PP

>> Gp_dh_C  Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.0   1.2e-06     0.007      71     111 ..     261     301 ..     245     326 .. 0.83

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 1.2e-06
                              TEEEEEEEESSSSEEEEEEEEEESSTS-HHHHHHHHHHHHH CS
                  Gp_dh_C  71 kldglAvrVPtpnvsvvdlvvelekevtveevnaalkeaae 111
                               +dg+ vrV  +  +   l+++l+k+  ++e+ +++ke  e
  PHY93_15565|PHY93_15565 261 PIDGTCVRVSAMRCHSQALTIKLKKDIPMDEIESMIKEHNE 301
                              489**********************************9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (368 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       616  (0.0343577); expected 358.6 (0.02)
Passed bias filter:                      529  (0.0295053); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.59u 0.25s 00:00:00.84 Elapsed: 00:00:00.46
# Mc/sec: 2396.07
//
Query:       PHY93_15570|PHY93_15570  [L=455]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    5.9e-45  153.7   0.2    8.9e-45  153.2   0.2    1.3  1  AA_kinase  Amino acid kinase family
     0.0016   18.3   0.0     0.0025   17.7   0.0    1.2  1  DUF3346    Protein of unknown function (DUF3346)
     0.0041   16.9   0.2      0.014   15.1   0.1    2.1  2  ACT        ACT domain
  ------ inclusion threshold ------
      0.014   14.1   0.3        1.2    7.7   0.1    2.2  2  CdhD       CO dehydrogenase/acetyl-CoA synthase delta subunit
      0.057   13.2   0.2        9.3    6.1   0.0    3.1  3  ACT_7      ACT domain


Domain annotation for each model (and alignments):
>> AA_kinase  Amino acid kinase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  153.2   0.2   2.5e-48   8.9e-45       1     240 [.       4     289 ..       4     290 .. 0.83

  Alignments for each domain:
  == domain 1  score: 153.2 bits;  conditional E-value: 2.5e-48
                              TEEEEEE-TTCCCCTCCHHHHHHHHHHHHHHHHTTEEEEEE--HHHHHHHHHH.....TCCCCCHHHC.................. CS
                AA_kinase   1 krvVvKlGGssltdkeeaslrrlaeqiaalkesgnklvvVhGggsftdgllal.....ksglssgelaa................. 64 
                              k++V K+GG+s++d+e+  ++r ae   +   ++ klvvV++ +++t+ l++l     k+ ++                       
  PHY93_15570|PHY93_15570   4 KMIVSKFGGTSMGDAEC--MKRSAEVAFK---QNSKLVVVSATSGTTNDLIELattseKNTWE-----Naqliltkikikhlkiar 79 
                              689**************..8887776544...58999****************6665533333.....133344666666666666 PP

                              ............E..HHHHHHHHH.............HHHHHHHHHHHHHHHHTTH...........GEEEE-GGGTCEECCCE.. CS
                AA_kinase  65 .........glrstleeagevatr.............dalaslgerlvaallaagl...........pavglsaaaldateagrde 117
                                       + +++l e++e  +r             d++ s+gerl++ l+++++            a+  +a+++++t++++  
  PHY93_15570|PHY93_15570  80 dlemtpekiDGLNQLFEELESMSRgvhllkdcslkalDSIQSIGERLSSLLFTEAMsiilrkenslrIAKWFDARDVLITDNQF-- 163
                              666666666667777777777777*************************************99777777777777777777777.. PP

                              HHHTTTCEEECCHHHHHH....HTT-EEEEESEEEEETTTE...EEEE-HHHHHHHHHHHCTSSEEEEEESSSSCESSTTTTCCTT CS
                AA_kinase 118 gsdgnvesvdaeaieell....eagvvpvltgfigldeege...lgrgssDtiaallAealgAdkliiltdVdGVydadpkkvpda 196
                               ++++++   ++ + e l    + + v v++gfig + eg    lgrg+sD++aa+lAe lgAd l+i+tdV G+ + dp++++da
  PHY93_15570|PHY93_15570 164 SKARPLTTEIKALCLEHLamvkHTDLVLVTQGFIGRTKEGMtttLGRGGSDYSAAILAEGLGADILEIWTDVAGIATTDPRICSDA 249
                              5555555444444444444664889**************99********************************************* PP

                              CECCEEEHHHCHHCSSS.TTTHHHHCHHHHHHHHHCTT-EEEEE CS
                AA_kinase 197 rllpeisvdeaeesaselatgGmkvkhpaalaaarrggipvvIt 240
                              r ++eis++ea e    lat+G+k++hpa+l +a r+ ipv++ 
  PHY93_15570|PHY93_15570 250 RAISEISFKEASE----LATFGAKILHPATLLPAIRAHIPVFVG 289
                              *************....*************************96 PP

>> DUF3346  Protein of unknown function (DUF3346)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   0.0   6.8e-07    0.0025      76     158 ..     325     404 ..     315     442 .. 0.80

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 6.8e-07
                              ---TTGGGS-HHHHHHHHHHHHCTSS-SEEEEEHHHHHHHHHTTS-HHHHHHHHHHHHHHTCTTTSBTTEEEEEETTEEEEEE CS
                  DUF3346  76 lfppeilkqhtlvfqlysffrsrlsrratdslllselnqklarniewrrfsldlirelrklaegkvtedlfvvnlfgyhltik 158
                              l  pe+l  h +++q++  f     +   d++  se+   l+ + +   +  dli +l k+a+ +v e+l +v l g  +   
  PHY93_15570|PHY93_15570 325 LSTPEMLYSHGFLYQIFKVFNDH--KVSIDAITTSEISVSLTLD-DSTLLNRDLITDLEKIADVQVEENLALVSLIGNNINHT 404
                              678*****************986..5678**********99977.678899**************************876533 PP

>> ACT  ACT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.1     4e-06     0.014      11      39 ..     334     362 ..     333     386 .. 0.73
   2 ?   -3.0   0.0       1.9   6.8e+03      26      38 ..     418     430 ..     417     450 .. 0.56

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 4e-06
                              TTHHHHHHHHHHHTTSEEEEEEEEEESTT CS
                      ACT  11 PGlLarvfgaladrgiNidsieqrssedk 39 
                              +G L ++f ++ d+ ++id i++++   +
  PHY93_15570|PHY93_15570 334 HGFLYQIFKVFNDHKVSIDAITTSEISVS 362
                              6999********************99554 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 1.9
                              SEEEEEEEEEEST CS
                      ACT  26 iNidsieqrssed 38 
                              iN+++i  + s+ 
  PHY93_15570|PHY93_15570 418 INVRMICLGASKH 430
                              7887775555533 PP

>> CdhD  CO dehydrogenase/acetyl-CoA synthase delta subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   0.1   0.00034       1.2     106     146 ..      10      58 ..       1      88 [. 0.79
   2 ?    4.5   0.0    0.0033        12     129     167 ..     375     413 ..     360     424 .. 0.86

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.00034
                              S......SHHHHHHHHTTT..CCC--EEEEE-TTTHHHHHHHHHHTT-- CS
                     CdhD 106 s......dpevlkaalevv..ederpllyaAtkddykeiaelaleykvp 146
                              +      d+e++k+++ev+  ++++ ++ +At  + ++++ela   +++
  PHY93_15570|PHY93_15570  10 FggtsmgDAECMKRSAEVAfkQNSKLVVVSATSGTTNDLIELATTSEKN 58 
                              3445677***********9545678999***************987776 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.0033
                              -TTTHHHHHHHHHHTT--EEEE-.SSHHHHHHHHHHHHC CS
                     CdhD 129 tkddykeiaelaleykvpvvllsindleelkelarkllk 167
                                 d+++ia++ +e + ++v+l  n++++ + la+k+ +
  PHY93_15570|PHY93_15570 375 LITDLEKIADVQVEENLALVSLIGNNINHTAGLAKKIFE 413
                              55699****************999************976 PP

>> ACT_7  ACT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0      0.63   2.2e+03      33      44 ..     281     292 ..     277     293 .. 0.88
   2 ?    3.3   0.0     0.019        69      20      46 ..     333     360 ..     317     363 .. 0.79
   3 ?    6.1   0.0    0.0026       9.3       2      65 .]     387     450 ..     386     450 .. 0.93

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.63
                              TTT---EEEE-S CS
                    ACT_7  33 eagIsifqiSty 44 
                              +a+I++f+ S++
  PHY93_15570|PHY93_15570 281 RAHIPVFVGSSF 292
                              699*****9987 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.019
                              S--HHHHHHHHHHTTT---EEEE.-SS- CS
                    ACT_7  20 vtGivaklaspLaeagIsifqiS.tyrt 46 
                              + G++ +++++ +++++si +i+ ++++
  PHY93_15570|PHY93_15570 333 SHGFLYQIFKVFNDHKVSIDAITtSEIS 360
                              679999***************9977766 PP

  == domain 3  score: 6.1 bits;  conditional E-value: 0.0026
                              EEEEEEEEEE-S-.---SS--HHHHHHHHHHTTT---EEEE.-SS-EEEEEEGGGHHHHHHHHHH CS
                    ACT_7   2 sedgwiklsvvgsglpfdvtGivaklaspLaeagIsifqiS.tyrtdyiLVpeedlekAveaLhe 65 
                              +e++ + +s++g++++  + G ++k+++   + ++ +  +  + +   +++ e++  ++++ Lh+
  PHY93_15570|PHY93_15570 387 VEENLALVSLIGNNINH-TAGLAKKIFETIPDINVRMICLGaSKHNFCFMITEDKGVEVINRLHN 450
                              79999********9977.99******************99999999999************9996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (455 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       531  (0.0296168); expected 358.6 (0.02)
Passed bias filter:                      411  (0.0229238); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.63u 0.26s 00:00:00.89 Elapsed: 00:00:00.47
# Mc/sec: 2899.93
//
Query:       PHY93_15575|PHY93_15575  [L=224]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.1e-24   86.8   0.1    1.6e-24   86.3   0.1    1.3  1  DapB_C          Dihydrodipicolinate reductase, C-terminus
    1.9e-06   28.0   0.0    9.6e-05   22.5   0.0    2.3  1  DapB_N          Dihydrodipicolinate reductase, N-terminus
  ------ inclusion threshold ------
      0.054   13.9   0.0       0.33   11.4   0.0    2.1  1  Semialdhyde_dh  Semialdehyde dehydrogenase, NAD binding domai


Domain annotation for each model (and alignments):
>> DapB_C  Dihydrodipicolinate reductase, C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.3   0.1   2.6e-28   1.6e-24       4     119 ..     108     217 ..     102     219 .. 0.86

  Alignments for each domain:
  == domain 1  score: 86.3 bits;  conditional E-value: 2.6e-28
                              HHHHHHHHHCCCSTTT-EEEEEEEESTT--SSS-HHHHHHHHHHH....-S-ETTCCCEEEETTT--CCCCEEEECTTEEEEEEEE CS
                   DapB_C   4 lllklveeaakllkeaydveiiEkHhnkKaDaPSGTAlalaeaiaegkearkkkeigihsvRgggvvgehevlfagegevieikhe 89 
                               ++ ++++a+k++++ y+ +i E+Hh+kK+D+PSGTAl+  + +         +e++i+s R g+v g he +++  +e+i+++he
  PHY93_15575|PHY93_15575 108 QMILIMNKASKIFDN-YKFNIHEIHHTKKLDVPSGTALSWKSWAG--------HEMEITSDRIGDVAGIHELTLTTPHEIISLRHE 184
                              344467899999888.***********************999998........59******************************* PP

                              EESCHHHHHHHHHHHHHH.HCT...SSEESHHH CS
                   DapB_C  90 alsreiFaeGallaaewlakkk...kglysmed 119
                              al+r+iFaeGal aa+++ ++k   +gl  ++d
  PHY93_15575|PHY93_15575 185 ALDRKIFAEGALYAANKIFNDKslaPGLHLFQD 217
                              *****************8665545566665555 PP

>> DapB_N  Dihydrodipicolinate reductase, N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.5   0.0   1.6e-08   9.6e-05      62     124 .]      37      99 ..       1      99 [. 0.71

  Alignments for each domain:
  == domain 1  score: 22.5 bits;  conditional E-value: 1.6e-08
                              HHHHHH-SEEEE-S-HHHHHHHHHHHHHTT-EEEE--SS-..-HHHHHHHHHHTTTSEEEE-S-- CS
                   DapB_N  62 eevlekadvliDFTtpeavlenlklalekgvklViGTTGl..seeelaeleelakkigvviapNf 124
                              ++ l+  dv+i F   ea++ +l l++e+++++++G+TG+   +e  ++l+e  k+i+ ++a+Nf
  PHY93_15575|PHY93_15575  37 NDKLKGHDVIISFLPGEAFKTYLPLLVETKIPVICGSTGMtwPSEFDSQLKE--KEIKWIYATNF 99 
                              3445569********************************9334666677777..99*******98 PP

>> Semialdhyde_dh  Semialdehyde dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   5.6e-05      0.33      33      94 ..       8      70 ..       2      96 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 5.6e-05
                             STTTTTSBHHHHSGGGTTTECEBEEE.GGGGGCTT-SEEEE-SCHHHHHHHHHHHHHTTSEEE CS
           Semialdhyde_dh 33 ssrsaGkklaeavkaleegkdlkved.vdeeelkevdivflalpagvskelapklaeagvkvi 94
                             + +  Gk l+  ++a  +++ +  ++ +++++lk+ d++++ lp+++ k + p l+e+++ vi
  PHY93_15575|PHY93_15575  8 KGKTGGKVLELIHEARLSYTLFDSKNiPSNDKLKGHDVIISFLPGEAFKTYLPLLVETKIPVI 70
                             45557777888888777888888888889999*****************************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (224 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       379  (0.0211389); expected 358.6 (0.02)
Passed bias filter:                      316  (0.0176251); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.45
# Mc/sec: 1506.80
//
Query:       PHY93_15580|PHY93_15580  [L=294]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.7e-50  171.4   0.0    2.2e-50  171.0   0.0    1.0  1  DHDPS     Dihydrodipicolinate synthetase family


Domain annotation for each model (and alignments):
>> DHDPS  Dihydrodipicolinate synthetase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  171.0   0.0   1.2e-54   2.2e-50       6     275 ..      10     274 ..       7     287 .. 0.93

  Alignments for each domain:
  == domain 1  score: 171.0 bits;  conditional E-value: 1.2e-54
                              EEE----B-TTSSB-HHHHHHHHHHHHHCT-SEEEESSCCCTGGGS-HHHHHHHHHHHHHHHTTSSEEEEE---SSHHHHHHHHHC CS
                    DHDPS   6 italvtpfdedgkldkealrklieflinkgvdglvvaGttGEsatlsteekeqlveiaveaakgripviagvGsnstseaiklakk 91 
                               ta+vtp++ed ++d  + +k+ + + ++  +g+v++G+tGE+  l  ee ++++e+  +  k +ipv++g+G+ + +e ++   +
  PHY93_15580|PHY93_15580  10 WTAIVTPMNEDSTVDYPSFEKILREQ-EAAKNGVVILGSTGEALNLTKEECKKVLEYGLS-LKLNIPVMTGIGGFNQKEILEYVSY 93 
                              69********************9987.8889**************************998.599********************** PP

                              CCCCT-SEEEEE---SS---HHHHHHHHHHHHHCHSS-EEEEE-HHHHSHHHHHHHHHHHHTSTTEEEEEE-SS-CTHHHHHHCCC CS
                    DHDPS  92 aeeaGadgvlavtPYYnkpsqeglyqhfkaiieatdlpvilYnvpsrtgadlspetvkrLaelenivgvKeavgdleevikikkev 177
                               +   +d++l+vtP Y kp  +g  ++fkai+     p +lYnvpsrtg++++ + vk+La  +n  ++Kea+g++e   k ++  
  PHY93_15580|PHY93_15580  94 LNTLPLDAYLVVTPLYAKPGEHGQTEWFKAILDLSTKPCMLYNVPSRTGVKMNFNAVKNLAGHKNFWAIKEASGSVEDFKKYVEA- 178
                              ********************************8888****************************************999998877. PP

                              STTSEEEES-GGGHHHHHHTT-SEEEESCHHCHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHCCCCSCCHHHHHHHHCTTSSS CS
                    DHDPS 178 gkdlviysGddelllsalslGadGvisvtsniagermrqlikalkeGdlaeaaelnekllplikilfaepnvilvktalellGlvv 263
                              +++  +ysGdd +++++ ++G  G +sv+ n  +++ r+ + ++ e +l+ a++      +  + lf + n+++vk  +++ G  +
  PHY93_15580|PHY93_15580 179 NPKARLYSGDDGMVPDYTPYGCVGLVSVAGNSWPVETRAYVVKALEKKLSPAEAA--LWKKACDTLFIAANPVPVKNLMAVQGRIK 262
                              9*************************************99888888788888543..33456799********************* PP

                              BB.--TTS--S- CS
                    DHDPS 264 eatlrkPltple 275
                              +++lr Pl  ++
  PHY93_15580|PHY93_15580 263 TNVLRAPLSHKD 274
                              *******98765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (294 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       380  (0.0211947); expected 358.6 (0.02)
Passed bias filter:                      363  (0.0202465); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.22s 00:00:00.78 Elapsed: 00:00:00.46
# Mc/sec: 1925.21
//
Query:       PHY93_15585|PHY93_15585  [L=245]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.1e-09   37.8   6.9    3.3e-09   36.3   0.5    3.2  3  Hexapep_2  Hexapeptide repeat of succinyl-transferase
    6.2e-09   35.2   7.9    2.3e-05   23.9   0.5    3.7  3  Hexapep    Bacterial transferase hexapeptide (six repeats)
    0.00034   20.8   0.2    0.00059   20.0   0.2    1.3  1  THDPS_N_2  Tetrahydrodipicolinate N-succinyltransferase N-ter
  ------ inclusion threshold ------
       0.14   12.0   0.7       0.69    9.8   0.6    2.1  2  Nuc_N      Nuclease N terminal


Domain annotation for each model (and alignments):
>> Hexapep_2  Hexapeptide repeat of succinyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   0.2     0.011        50      17      32 ..      74      89 ..      67      91 .. 0.85
   2 ?   -0.9   0.1      0.33   1.5e+03       7      17 ..     110     120 ..     104     132 .. 0.66
   3 !   36.3   0.5   7.3e-13   3.3e-09       1      33 [.     142     176 ..     142     177 .. 0.95

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.011
                             SEEE-TT-EE-TT-EE CS
                Hexapep_2 17 GvslGdncvvgaGvvi 32
                             G+s+++++ ++ Gv+i
  PHY93_15585|PHY93_15585 74 GTSVRRGSYIAKGVII 89
                             9*************98 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.33
                              T-EE-TT-EES CS
                Hexapep_2   7 nCliGanagiG 17 
                               +liG+ a iG
  PHY93_15585|PHY93_15585 110 HVLIGSCAQIG 120
                              56777766665 PP

  == domain 3  score: 36.3 bits;  conditional E-value: 7.3e-13
                              .EEE-TT-EE-TT-EE..SEEE-TT-EE-TT-EE- CS
                Hexapep_2   1 pviIGdnCliGanagi..GvslGdncvvgaGvvit 33 
                              pviI+d  +iGa a+i  G+++ +++v+++Gv++ 
  PHY93_15585|PHY93_15585 142 PVIIEDEAFIGAGAIIveGIQIKRRAVIAPGVILS 176
                              8**************889**************997 PP

>> Hexapep  Bacterial transferase hexapeptide (six repeats)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   0.1     0.012        54      10      22 ..      77      89 ..      65      96 .. 0.53
   2 !   10.3   0.1   0.00011      0.47       2      29 ..      99     126 ..      98     133 .. 0.63
   3 !   23.9   0.5   5.1e-09   2.3e-05       2      35 ..     143     176 ..     142     177 .. 0.94

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.012
                             E-TTEEEETTEEE CS
                  Hexapep 10 IgpfaviggnVkI 22
                             ++ +++i+ +V+I
  PHY93_15585|PHY93_15585 77 VRRGSYIAKGVII 89
                             2333333333333 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 0.00011
                              EEEETTEEE-TTEEEETTEEE-TTEEEE CS
                  Hexapep   2 tvIGsnvlIgpfaviggnVkIGdnvkIg 29 
                              +++ ++++I++ + ig+ ++IG+ v++ 
  PHY93_15585|PHY93_15585  99 AFVDEGTMIDSHVLIGSCAQIGKKVHLS 126
                              5666777777777777777777766654 PP

  == domain 3  score: 23.9 bits;  conditional E-value: 5.1e-09
                              EEEETTEEE-TTEEEETTEEE-TTEEEETTEEEE CS
                  Hexapep   2 tvIGsnvlIgpfaviggnVkIGdnvkIgagvvig 35 
                              ++I++ ++Ig++a+i ++++I ++++I++gv + 
  PHY93_15585|PHY93_15585 143 VIIEDEAFIGAGAIIVEGIQIKRRAVIAPGVILS 176
                              79*****************************875 PP

>> THDPS_N_2  Tetrahydrodipicolinate N-succinyltransferase N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.0   0.2   1.3e-07   0.00059      30      65 ..       5      40 ..       1      41 [. 0.89

  Alignments for each domain:
  == domain 1  score: 20.0 bits;  conditional E-value: 1.3e-07
                             HHHHHHHHTTSS-SEEEETTEEEE-HHHHHHHHHHH CS
                THDPS_N_2 30 eevleaLdaGelRvAekkdgeWevneWvKkAiLLsF 65
                             e++l++L+aG++R A+  dg+W++n  vK  iL  F
  PHY93_15585|PHY93_15585  5 EKTLNDLEAGRVRSANFIDGAWVANLEVKTQILEAF 40
                             899**************9***********9998555 PP

>> Nuc_N  Nuclease N terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.6   0.00015      0.69       8      24 ..      65      81 ..      62      87 .. 0.88
   2 ?   -0.2   0.0       0.2   8.9e+02       7      30 ..      83     111 ..      81     112 .. 0.66

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00015
                    Nuc_N  8 akGvevladGalvRkGt 24
                              +Gv + ++G+ vR+G+
  PHY93_15585|PHY93_15585 65 DRGVRIVPGGTSVRRGS 81
                             69**************8 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.2
                    Nuc_N   7 iakGvevlad.....GalvRkGtnysakv 30 
                              iakGv + +      Ga v  Gt  +++v
  PHY93_15585|PHY93_15585  83 IAKGVIIMPPsyvnvGAFVDEGTMIDSHV 111
                              66676665532333388999999999887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (245 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       291  (0.0162307); expected 358.6 (0.02)
Passed bias filter:                      256  (0.0142785); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.51u 0.27s 00:00:00.78 Elapsed: 00:00:00.46
# Mc/sec: 1598.72
//
Query:       PHY93_15590|PHY93_15590  [L=314]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.6e-18   65.5  18.4    6.6e-18   65.5  18.4    1.6  2  FA_desaturase  Fatty acid desaturase
     0.0051   17.2   0.9       0.25   11.7   0.0    2.3  2  DUF1689        Protein of unknown function (DUF1689)
     0.0083   16.7   2.4       0.24   12.0   0.4    2.7  2  Rab5ip         Rab5-interacting protein (Rab5ip)
  ------ inclusion threshold ------
       0.18   11.0   4.3       0.46    9.6   0.2    2.2  2  EIID-AGA       PTS system mannose/fructose/sorbose family IID


Domain annotation for each model (and alignments):
>> FA_desaturase  Fatty acid desaturase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.0      0.42   1.9e+03      39      63 ..      31      55 ..      22      60 .. 0.58
   2 !   65.5  18.4   1.5e-21   6.6e-18       6     239 ..      67     281 ..      61     286 .. 0.70

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 0.42
            FA_desaturase 39 nrwlndllgallglplgisysawri 63
                               wln+l+ +l+ +++ i ++++ +
  PHY93_15590|PHY93_15590 31 IDWLNTLFLTLTPVAAVILSWIYFK 55
                             4577777755555555555555544 PP

  == domain 2  score: 65.5 bits;  conditional E-value: 1.5e-21
            FA_desaturase   6 llla.lllglfllgitgslaHeaaHgalfkkrklnrwlndllgal.lglplgisysawrisHlrHHaytngpdeDpdlaplalsrf 89 
                               +++ ++ g    +it+++++ ++H+a++      +++ ++l  +  + +++ s   w+++H+ HH+++ g+ +Dp+        +
  PHY93_15590|PHY93_15590  67 GIAFyFITG---IAITAGYHRLLSHRAYR----AGNIV-KFLYLIfGAAAYQNSALKWSADHRIHHRHVDGD-KDPY------NIN 137
                              332323333...35656888888888888....55555.55544449999999*********99****6666.****......567 PP

            FA_desaturase  90 eglfryllrlllgllvlgwllalvlglwlrrlarrrapsksrrrkwrllawlllllawlglwlalllllglalllwlvplllllfl 175
                              +g+f+ ++++ +   +         + + ++l   +  +++ r ++++  ++ ++l  ++++++ ++l+glal + ++ +++++++
  PHY93_15590|PHY93_15590 138 KGFFYAHIGWIFFKDQNT-----ETAHYPKDLLNDKLVMWQHRNYYTIAFIVGFILPTIIGYFLGSALGGLAL-AGVLRIVFVHHC 217
                              777777666666555555.....12338888888888888877655555555554444555555555555543.444444444444 PP

            FA_desaturase 176 lalvlnyveHyggdwgerqvetsasirsaswllnlltgnlnyHieHHlfP.....gvpwyrLpelhrrl 239
                              + ++ n + H     g+r++ +s+++r +s ++++++++ +yH+ HH+fP     g++wy+++  ++ +
  PHY93_15590|PHY93_15590 218 TFFI-NSLCHV---VGNRPYTDSNTAR-DSYVMAFFSYGEGYHNYHHYFPsdyrnGIRWYHFDPTKWLI 281
                              4444.888886...5************.**********************************9988766 PP

>> DUF1689  Protein of unknown function (DUF1689)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.7   0.0   5.6e-05      0.25      21      89 ..      16      84 ..      15     138 .. 0.82
   2 ?    4.1   0.2     0.012        55      32      73 ..     173     209 ..     162     267 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 5.6e-05
                  DUF1689 21 eLakklqsiaraqllggwlgfsavflaptayrryktgaikgvkvprs.fllGlvalvvssqlaakyaykk 89
                             e+++++qsi +++l ++wl ++   l+p+a+  ++   +kg  +++s +llG++ ++  + +a    y++
  PHY93_15590|PHY93_15590 16 EISSEIQSIKKEKLAIDWLNTLFLTLTPVAAVILSWIYFKGHGLEISqILLGIAFYF-ITGIAITAGYHR 84
                             799**************************************9999961455555554.455555555555 PP

  == domain 2  score: 4.1 bits;  conditional E-value: 0.012
                  DUF1689  32 aqllggwlgfsavflaptayrryktgaikgvkvprsfllGlv 73 
                              ++  +   +f+++f++pt++ ++  +a+ g  +       ++
  PHY93_15590|PHY93_15590 173 QHRNYYTIAFIVGFILPTIIGYFLGSALGGLALAG-----VL 209
                              555566789*************9877777765443.....33 PP

>> Rab5ip  Rab5-interacting protein (Rab5ip)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.9   0.1     0.018        82      25      48 ..      65      88 ..      59     125 .. 0.81
   2 !   12.0   0.4   5.3e-05      0.24       6      52 ..     189     235 ..     184     286 .. 0.79

  Alignments for each domain:
  == domain 1  score: 3.9 bits;  conditional E-value: 0.018
                   Rab5ip 25 lsGflfylllsllvsllfyalkvk 48
                             l+G++fy++  + +++ ++ l+ +
  PHY93_15590|PHY93_15590 65 LLGIAFYFITGIAITAGYHRLLSH 88
                             579*************99964433 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 5.3e-05
                   Rab5ip   6 rsltalllGvvaGilgLeslsGflfylllsllvsllfyalkvkgksk 52 
                               ++++ +lG + G l+L +++ ++f   ++++++ l++++  ++++ 
  PHY93_15590|PHY93_15590 189 PTIIGYFLGSALGGLALAGVLRIVFVHHCTFFINSLCHVVGNRPYTD 235
                              578999********************************866655553 PP

>> EIID-AGA  PTS system mannose/fructose/sorbose family IID component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   0.2    0.0001      0.46     209     261 ..      25      77 ..       8      82 .. 0.77
   2 ?    2.6   0.6     0.015        66     110     157 ..     182     229 ..     181     238 .. 0.89

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.0001
                 EIID-AGA 209 ettvslq.dildkilpgllpllltllvywllkkkkvspikiilllvvigivgsl 261
                              ++  +l  d l++++  l p+++++l ++++k +++++ +i+l++    i g +
  PHY93_15590|PHY93_15590  25 KK-EKLAiDWLNTLFLTLTPVAAVILSWIYFKGHGLEISQILLGIAFYFITGIA 77 
                              33.3444489*******************************9999877776654 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.015
                 EIID-AGA 110 lfwgtlrpilaaiaaslAlqgnilGpilflvvfnvvrlalryyllelG 157
                              +++g + p +++ +++ Al+g +l+ +l +v++  ++++++ ++  +G
  PHY93_15590|PHY93_15590 182 FIVGFILPTIIGYFLGSALGGLALAGVLRIVFVHHCTFFINSLCHVVG 229
                              788999999**************************9999988776655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (314 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       794  (0.0442858); expected 358.6 (0.02)
Passed bias filter:                      486  (0.0271069); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.58u 0.25s 00:00:00.83 Elapsed: 00:00:00.47
# Mc/sec: 2028.23
//
Query:       PHY93_15595|PHY93_15595  [L=801]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.3e-09   34.5   0.1    2.5e-06   26.3   0.1    3.2  1  Ribonuc_red_lgC  Ribonucleotide reductase, barrel domain
  ------ inclusion threshold ------
       0.14   11.8   0.2       0.41   10.3   0.0    1.8  2  TMEM71           TMEM71 protein family


Domain annotation for each model (and alignments):
>> Ribonuc_red_lgC  Ribonucleotide reductase, barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.3   0.1   2.8e-10   2.5e-06      67     303 ..     317     531 ..     257     541 .. 0.73

  Alignments for each domain:
  == domain 1  score: 26.3 bits;  conditional E-value: 2.8e-10
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX..XXXXXXXXXXXXXXXXXXXXXXX...XXXXXXXXXXXXXX....... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC  67 advvkqgGkRrGAamvylevwHpDiekfidaKekntgeeenrlsnlnisvgvpdlFmeavke...dkdwtLfsPrtvvkleklyge 149
                              a++v  gG+Rr+A m++ +     i++fi++K +  g     l + n+sv+v  +F++ v++   d ++ L + +        +  
  PHY93_15595|PHY93_15595 317 AECVLVGGARRAARMATKSWRDSSIFDFINLK-R--G---GFLWSSNNSVTVDAEFWNYVRNpsiDTQMALHARK-------AFTA 389
                              45677899************************.5..3...79********************8777777777655.......4445 PP

                              ...................XXXXXXX.XXXXXXXXXXXXXXXXXXXXXXXXXXXXXX..XXXXXXXXXXXXXXXXXXXXXX...XX CS
                              xxxxxxxxxxxxxxxx.xxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC 150 efeeeyeeleekakik.kkevkakeL.feeiaesawetgePgvlfkDtiNrrnvlek..akggkIratNlCgEiplleyesvavCn 231
                                e +y++   ++ i  +++ + +e+ +++ +   ++  + + +  +t    + l +  ++++  + tN+CgEi+l+       C 
  PHY93_15595|PHY93_15595 390 ITEAAYHDGTGEPGIInQDKLTHNEIgLDKYLDGEFAESKKFKIDTETLPLTKILAAitKDMQYHQITNPCGEITLNLLGG--YCV 473
                              5677888888886555245666666656777888888888888877777777666431133555678**********9998..999 PP

                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC 232 LasinLakfvkkdeegkkefdwdelkkviqlvvraLdnvidvnkyplpeiekntkktRriGlGvmgladala 303
                              +a ++ +++       ++e       ++  ++++aL  v  ++ +     +k+  +t riG+G++g++++  
  PHY93_15595|PHY93_15595 474 IADVVPYHAQ------NDEDAC----DAFATATKALMRVNLMDSV----YKKEVLRTNRIGVGITGFHEWAW 531
                              9999877776......223333....4444555555544444333....4567789999********98765 PP

>> TMEM71  TMEM71 protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.8   0.0         1   9.1e+03     125     136 ..     332     343 ..     330     348 .. 0.82
   2 ?   10.3   0.0   4.6e-05      0.41      11      55 ..     692     736 ..     689     745 .. 0.73

  Alignments for each domain:
  == domain 1  score: -3.8 bits;  conditional E-value: 1
                   TMEM71 125 asksWlegsifg 136
                              a+ksW ++sif+
  PHY93_15595|PHY93_15595 332 ATKSWRDSSIFD 343
                              6899*****997 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 4.6e-05
                   TMEM71  11 pvassskseeelagels.ldcifpslafdfldgdssfeccsidplt 55 
                              p+a+ s ++  ++ ++   +++f  ++ +fl+g+ss+ ccs+ p t
  PHY93_15595|PHY93_15595 692 PLAE-SGNQVSYTLKYNpSKVSFGEFVETFLEGQSSVRCCSVMPQT 736
                              5665.444444444444156889999***************99877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (801 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       687  (0.0383178); expected 358.6 (0.02)
Passed bias filter:                      516  (0.0287802); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.76u 0.29s 00:00:01.05 Elapsed: 00:00:00.47
# Mc/sec: 5084.02
//
Query:       PHY93_21395|PHY93_21395  [L=175]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.7e-07   31.6   0.1    2.9e-07   30.8   0.1    1.4  1  HTH_26        Cro/C1-type HTH DNA-binding domain
     0.0022   18.0   0.1      0.004   17.1   0.1    1.4  1  HTH_19        Helix-turn-helix domain
  ------ inclusion threshold ------
       0.02   14.9   0.0       0.04   14.0   0.0    1.5  1  HTH_3         Helix-turn-helix
      0.058   13.1   0.0       0.14   11.9   0.0    1.6  1  Sigma70_r4_2  Sigma-70, region 4
      0.084   12.8   0.0       0.17   11.9   0.0    1.5  1  HTH_37        Helix-turn-helix domain


Domain annotation for each model (and alignments):
>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.8   0.1   8.2e-11   2.9e-07       2      59 ..      13      68 ..      12      72 .. 0.96

  Alignments for each domain:
  == domain 1  score: 30.8 bits;  conditional E-value: 8.2e-11
                   HTH_26  2 LrelmadrgitkseLargtgisaatlsrlvkgkpervsldtLdkiCdaLgctpgDLle 59
                             L++++++ g +++eLa ++ +s++ +++l + +   +sl+ ++kiC+  g+++ DL+ 
  PHY93_21395|PHY93_21395 13 LKRIIKTQGFSYKELALALRMSESGFKKLINSE--DCSLGKIEKICKFVGIRITDLFQ 68
                             899****************************98..*********************85 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.1   1.1e-06     0.004       4      62 ..      13      69 ..      11      72 .. 0.95

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 1.1e-06
                   HTH_19  4 LkeaReelgltqeelaerlgisrskisaiEngkkdvpsaelllkiaealgidleyllqg 62
                             Lk++++  g++ +ela  l++s s   +++  ++++ s +++ ki++++gi ++ l+q 
  PHY93_21395|PHY93_21395 13 LKRIIKTQGFSYKELALALRMSESGFKKLI--NSEDCSLGKIEKICKFVGIRITDLFQS 69
                             89****************************..778*********************986 PP

>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   1.1e-05      0.04       1      55 []      13      66 ..      13      66 .. 0.94

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.1e-05
                             HHHHHHHTTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHHHH CS
                    HTH_3  1 lkelRkqlglsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvsldel 55
                             lk++ k +g s +eLA +l +s s   +++n e   sl +++k++k+ g+ +++l
  PHY93_21395|PHY93_21395 13 LKRIIKTQGFSYKELALALRMSESGFKKLINSED-CSLGKIEKICKFVGIRITDL 66
                             7889999*************************88.************99998876 PP

>> Sigma70_r4_2  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   3.9e-05      0.14      24      46 ..      19      41 ..      17      43 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 3.9e-05
                             TS---HHHHHHHHT--HHHHHHH CS
             Sigma70_r4_2 24 leglsykEIAellgisegtVksr 46
                              +g+sykE A  l +se+  k+ 
  PHY93_21395|PHY93_21395 19 TQGFSYKELALALRMSESGFKKL 41
                             59***************988876 PP

>> HTH_37  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   4.7e-05      0.17      19      62 ..       9      50 ..       6      64 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 4.7e-05
                             HHHHHHHHHHHCT--HHHHHHHHT--HHHHHHHHTT--TT--HH CS
                   HTH_37 19 lalaiaeliekrelsqseaaqllgiaqPkvsrllrgklsrfsld 62
                             l+++++++i+ ++ s +e+a +l ++++ + +l   + +++sl 
  PHY93_21395|PHY93_21395  9 LISELKRIIKTQGFSYKELALALRMSESGFKKLI--NSEDCSLG 50
                             7899****************************99..56666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (175 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       423  (0.0235931); expected 358.6 (0.02)
Passed bias filter:                      344  (0.0191868); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.44u 0.27s 00:00:00.71 Elapsed: 00:00:00.43
# Mc/sec: 1213.77
//
Query:       PHY93_15600|PHY93_15600  [L=605]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.7e-36  125.3  44.4    3.5e-36  125.0  44.4    1.1  1  AA_permease_2   Amino acid permease
  ------ inclusion threshold ------
      0.057   12.6   0.0      0.099   11.8   0.0    1.3  1  Methyltransf_3  O-methyltransferase
       0.11   11.2   0.0       0.16   10.7   0.0    1.1  1  SNF2_N          SNF2 family N-terminal domain


Domain annotation for each model (and alignments):
>> AA_permease_2  Amino acid permease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  125.0  44.4   5.9e-40   3.5e-36       4     403 ..      28     425 ..      25     446 .. 0.83

  Alignments for each domain:
  == domain 1  score: 125.0 bits;  conditional E-value: 5.9e-40
            AA_permease_2   4 lsafalvigsvigsgifvkn........laasggpalilwvwiavligslavllvy.aElssalprsgGiyvytkaafgkkvafls 80 
                              ++a+a+ ++++++s  +++         l +++ ++++   +++++++ l+  l y  ++s+  p+ gG+y+++k+  g+ ++ ++
  PHY93_15600|PHY93_15600  28 WKALAVLSSDALSSVAYATEevliallaLSTAAMAWSMPMAVGVAILL-LIITLSYqQTISA-YPHGGGAYTVAKENLGETAGLVA 111
                              899999********9999999999875333335555888888888888.7899999455599.*********************** PP

            AA_permease_2  81 awfnwfayvpvlasilsvaasyllnalgpdlqgntwltyliaiaililvalinirgikesakiqnilgilkillpliiliilglit 166
                              + +++++y++++++++s++++++ +a++    +   + ++i+++++++++++n+rgi+es++i  + +++ i+  +++li+ g++ 
  PHY93_15600|PHY93_15600 112 GAALLIDYILTVSVSVSAGVENIGSAFHII-AE---HKVIIGVFFILVIMALNLRGIRESSNIFAYPTYFFIF-SIVVLIVMGFYK 192
                              **************************9854.33...579*********************************5.8899999***** PP

            AA_permease_2 167 vdgggfsslstetdtffpngwpg.vllgllivlwsfdGfesaanvseevkk...kdvpkaifigllivlvlyllvniaflgvvpdd 248
                              +  g   ++s + +   p++  +  l++++  + +++G+e+++n +   kk   k+++++++++++i ++++l+++++ + v ++ 
  PHY93_15600|PHY93_15600 193 IMTGEVVQHSPIFHENYPEVPLFlLLRAFASGCSALTGIEAISNGVPIFKKpsqKNAKITMIWMGAILGCFFLGITLL-AHVYGIA 277
                              988766654556666777777775699*********************7766679********************766.3344444 PP

            AA_permease_2 249 eianlsnlgsvaalffeavggk.vvaiivvilialsllgaintavigssrvlealardgvlPrffakvnkfgspiraiiltaivsl 333
                               +   +   +v++ + + v+g+ ++ +  +++ial+ll+a+nt ++  +r+   la+d++lPr +++   +   +++i+   i ++
  PHY93_15600|PHY93_15600 278 PVHG-E---TVMSQLSRSVFGTnFMYYGTQVAIALILLLAANTSYADFPRLSSLLAKDRFLPRQLSSFGDRLVFSNGIMGLTIAAS 359
                              4442.2...24666777777666**********************************************999***********998 PP

            AA_permease_2 334 illllfllassaaynfllsvsslgliisyllliigalilrkkrphl.krpgkilvaiigalfllfllvalf 403
                               l+++f      +  +l  ++++g+++s++l  +g++++ +k ++   ++g+i ++++ga++++++l+++ 
  PHY93_15600|PHY93_15600 360 MLIIIFK----GSTHLLIPLYAVGVFLSFTLSQLGMIVHHYKYKDPhWKKGFI-INAMGAITTFVVLIVIT 425
                              7776664....567******************************994446666.66666555555544433 PP

>> Methyltransf_3  O-methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   1.7e-05     0.099      62     117 ..     494     549 ..     470     563 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 1.7e-05
                              HHHHHTTS-TT-EEEEEES-HHHHHHHHHHHHHTT-GGGEEEEES-HHHHHHHHHT CS
           Methyltransf_3  62 lLatalalPeDGkilaididreayeialkfiqkagvaekieliegdalkvLeelvk 117
                              +++ al++ +D +i  +d+dr+a+e  +k+++k + +  +++ +++ ++vL  l++
  PHY93_15600|PHY93_15600 494 AVQYALTISDDVRICYVDVDRDATEKMQKVWEKWSQGLPLNILKSPYRSVLGPLLD 549
                              56789*****************************************9999988765 PP

>> SNF2_N  SNF2 family N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   2.7e-05      0.16      42     117 ..     390     581 ..     369     597 .. 0.88

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 2.7e-05
                              .......HHHHHTT--EEE---TTS--HHHHHHHHH........................................HHTTTS---. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....................................xxxxxxxxxx RF
                   SNF2_N  42 gevveesaeakqsvrGGiLaDemGLGKTvqvlalilaqr.....................................akeekdkekk 90 
                              g++v+ +  ++++++ G +   mG+  T  vl +i+  +                                     ++++ + +++
  PHY93_15600|PHY93_15600 390 GMIVHHYKYKDPHWKKGFIINAMGAITTFVVLIVITITKfvhgawiivvlipslvfffklikrhylavghqlardtYHHDLNIANE 475
                              788899999999***********************98889*********************9999999998888765444444446 PP

                              ......S-.............................................................................. CS
                              xxxxxxxx.............................................................................. RF
                   SNF2_N  91 rkdtlagp.............................................................................. 98 
                              +k t+ +p                                                                              
  PHY93_15600|PHY93_15600 476 KKYTAIVPisgihpgvvmavqyaltisddvricyvdvdrdatekmqkvwekwsqglplnilkspyrsvlgplldyidqvhidsgke 561
                              77777777999999999999999999999999999999999999999999999999999999999999999999999999999999 PP

                              .EEEE--HHHHHHHHHHHHH CS
                              .xxxxxxxxxxxxxxxxxxx RF
                   SNF2_N  99 .tLivvPaslldqWeneier 117
                               + +vvP  + ++W++++ +
  PHY93_15600|PHY93_15600 562 mVSVVVPEFITRHWYHQFLH 581
                              999**************976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (605 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1013  (0.0565006); expected 358.6 (0.02)
Passed bias filter:                      367  (0.0204696); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.70u 0.32s 00:00:01.02 Elapsed: 00:00:00.49
# Mc/sec: 3717.04
//
Query:       PHY93_15605|PHY93_15605  [L=328]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
   2.5e-116  388.0   5.0   2.9e-116  387.8   5.0    1.0  1  Ribonuc_red_sm  Ribonucleotide reductase, small chain
  ------ inclusion threshold ------
      0.026   14.1   0.2      0.051   13.2   0.1    1.5  1  DUF4417         Domain of unknown function (DUF4417)
       0.13   13.1   0.0       0.25   12.2   0.0    1.4  1  DUF4744         Domain of unknown function (DUF4744)


Domain annotation for each model (and alignments):
>> Ribonuc_red_sm  Ribonucleotide reductase, small chain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  387.8   5.0  4.9e-120  2.9e-116       1     279 []      18     287 ..      18     287 .. 0.99

  Alignments for each domain:
  == domain 1  score: 387.8 bits;  conditional E-value: 4.9e-120
                              TT-TTS-SSHHHHHHHHHHHCT---GGGS-GHHHHHHHHSTS-HHHHHHHHHHHHHHHHHHHHHHHCHHHCHHCCBSSHHHHHHHH CS
           Ribonuc_red_sm   1 rfvlfpikypeiwelykkleanfWtpeevdlskDlkdwkekLsedekefikkvlaflalldtivnenlverllsevqipearafyg 86 
                              rfvlfpiky+++we+ykk++a fWt ee+dl  Dl+dw++kL++de++fi+++laf+a++d+ivnenl++r++++vqipear+fyg
  PHY93_15605|PHY93_15605  18 RFVLFPIKYHQVWEMYKKHMAVFWTSEEIDLVPDLNDWENKLNNDERHFISNILAFFAASDGIVNENLALRFYNDVQIPEARCFYG 103
                              79************************************************************************************ PP

                              HHHHHHHHHHHHHHHHHHHHT.-HHHHHHHHCHHHH-HHHHHHHHHHHHHHCTTTSCHHHHHHHHHHHHHHHCCCHHHHHHHHHHH CS
           Ribonuc_red_sm  87 fqaamEniHaesYsllletlvkdekekdelfnaieenpalqkkaewikkwyeskkdeekfaerlvafallegilfysgFaailwlk 172
                              fq+amEniH+e+Ysll++t++kd+kekd+lfna++++ ++ kka+w++kw++s+k+   fa+r vafa++egi+f+++F+ai+wlk
  PHY93_15605|PHY93_15605 104 FQIAMENIHSETYSLLIDTYIKDPKEKDKLFNATQNMACIAKKAAWAMKWIKSDKS---FAHRAVAFAAVEGIFFSGSFCAIYWLK 186
                              ****************************************************8777...*************************** PP

                              HTTSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTT.BTTCHHHHHHHHHHHH CS
           Ribonuc_red_sm 173 krgllpglaeiielilrDeglHtdfagllfkelkeenelenkeleeeveelikeavelEkefitdalpvellglnkedvkqYieyv 258
                              krgl+ gl++++e+i+rDeglH++fa+l+ + l       ++ + e++ ++i+eav +Ekefi ++lpv+l+g+n++ ++qYie+v
  PHY93_15605|PHY93_15605 187 KRGLMAGLCTSNEFISRDEGLHCQFACLMHSLLSVD----EQVSAETITQIITEAVAIEKEFILESLPVSLIGMNSDSMSQYIEFV 268
                              *********************************555....99******************************************** PP

                              HHHHHHCTT---SS-TT---C CS
           Ribonuc_red_sm 259 adrllmnlgyeklYnveeenP 279
                              ad  l++lg  ++Y++  +nP
  PHY93_15605|PHY93_15605 269 ADHWLQQLGAAPVYKT--KNP 287
                              ****************..898 PP

>> DUF4417  Domain of unknown function (DUF4417)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.1   8.6e-06     0.051      68     112 ..       9      53 ..       1      62 [. 0.85

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 8.6e-06
                  DUF4417  68 savlsPdfSlysdaPla.mqlwniyrsraiaeylqeaGisviPtln 112
                              s +l P+ S ++ +P+  +q+w +y+++ +a ++ ++ i  +P+ln
  PHY93_15605|PHY93_15605   9 SSILAPNDSRFVLFPIKyHQVWEMYKKH-MAVFWTSEEIDLVPDLN 53 
                              789************7539******987.699************98 PP

>> DUF4744  Domain of unknown function (DUF4744)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   4.2e-05      0.25      38      59 ..     105     126 ..      93     128 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 4.2e-05
                  DUF4744  38 aesepnkpsssFdlaidnYLKD 59 
                              +  + n  s +++l+id+Y+KD
  PHY93_15605|PHY93_15605 105 QIAMENIHSETYSLLIDTYIKD 126
                              55688999*************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (328 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       666  (0.0371465); expected 358.6 (0.02)
Passed bias filter:                      504  (0.0281109); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.46
# Mc/sec: 2162.45
//
Query:       PHY93_15610|PHY93_15610  [L=785]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   6.6e-186  618.9   0.0   8.2e-186  618.6   0.0    1.1  1  Ribonuc_red_lgC  Ribonucleotide reductase, barrel domain
    3.7e-22   78.1   0.2    9.5e-22   76.8   0.2    1.8  1  Ribonuc_red_lgN  Ribonucleotide reductase, all-alpha domain
    2.1e-17   63.5   0.1      5e-17   62.2   0.1    1.7  1  ATP-cone         ATP cone domain


Domain annotation for each model (and alignments):
>> Ribonuc_red_lgC  Ribonucleotide reductase, barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  618.6   0.0  1.4e-189  8.2e-186       1     524 []     216     742 ..     216     742 .. 0.98

  Alignments for each domain:
  == domain 1  score: 618.6 bits;  conditional E-value: 1.4e-189
                              EEE......BSS-EEEE-X..............XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.XXXXXXXXXX CS
                              xxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxx RF
          Ribonuc_red_lgC   1 ssCfvlsv.edslesIletvkeaallskaggGvGlnlsklRakgslvkgtegaasGpvsfmklidavadvvkqgG.kRrGAamvyl 84 
                              ssCf+l++ +ds+e+I+et+k++al+s+++gG+Gl ++++Rakg  +kgt+g+++G+v+++k+++++a++v+qgG kR+GA +vyl
  PHY93_15610|PHY93_15610 216 SSCFLLTMkDDSIEGIYETLKQTALISQSAGGIGLAIHNIRAKGTQIKGTNGTSNGIVPMLKVFNDTARYVDQGGgKRKGAFAVYL 301
                              8*******8999**************************************************************99********** PP

                              XXXXXXXXXXXXXXXXXXX..XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.........................XXX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC  85 evwHpDiekfidaKekntgeeenrlsnlnisvgvpdlFmeavkedkdwtLfsPrtvvkleklygeefeeeyeeleekakikkkevk 170
                              e+wH+Di++f+++K kntg+ee+r+++l++++++pdlFm++v+ed++w+Lf+P++++ l+++yg++fee y+++eek  ++kk ++
  PHY93_15610|PHY93_15610 302 EPWHADIFDFLEMK-KNTGKEEQRARDLFYALWIPDLFMKRVEEDGMWSLFCPHEAPGLSDCYGKKFEELYTSYEEK-GLAKKVIR 385
                              **************.**************************************************************.77789*** PP

                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX....XXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC 171 akeLfeeiaesawetgePgvlfkDtiNrrnvlekakggkIratNlCgEiplleyes.vavCnLasinLakfvkkdeegkkefdwde 255
                              a++++++++es++etg+P++l+kD++N+++++  ++ g+I+++NlC+Ei+ ++ ++ vavCnLas+ L++fv + ++gk++++ ++
  PHY93_15610|PHY93_15610 386 AQDIWFAVLESQIETGSPYMLYKDAANEKSNQ--KNLGTIKSSNLCTEILEYTAPDeVAVCNLASVALNRFV-DFANGKASYNHKK 468
                              ********************************..999******************999**************.6669********* PP

                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC 256 lkkviqlvvraLdnvidvnkyplpeiekntkktRriGlGvmgladalaklgipydseealkfarkitelltyyaykaSvelAkerg 341
                              l +v+  ++ +L+ +id+n+yp++e++++++++R+iGlGv+glad+++++++p++s++alk++++i+e+++++a++aS + A++ g
  PHY93_15610|PHY93_15610 469 LYDVVYQMTVNLNRIIDINYYPVEEARNSNMRHRPIGLGVQGLADTFFEMRLPFESRDALKLNNDIFETIYFAAVTASKDQAQKDG 554
                              ************************************************************************************** PP

                              XXXXXXXXXXXXXXXXXXXX...X......XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC 342 pfplfekskyskgilpvdef...eekekedweeLreeikkyGlrnamvtalaPTgsiSliagtssgiePifalvykksvtvgefle 424
                              ++++f +s++s+gi+++d++   + + ++dw  L++e+k +G+rn+ ++a +PT+s+S+i g+++++ePi++++y+++v +gef +
  PHY93_15610|PHY93_15610 555 AYSTFAGSPMSQGIFQFDMWnvqPTSGNWDWAALKAEVKIHGVRNSLLVAPMPTASTSQILGNNECFEPITSNIYVRRVLSGEFAI 640
                              ********************55433449********************************************************** PP

                              XXXXXXXXXXXXXXXXXXXXXXX...XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC 425 vnpvfeeeLkklglwseellkki...lesvqgleeipeeikrvfktaldidqedhikaqaaiqkwidqsiSktinlpneatvedvk 507
                              vn++++++L k glw+++++++i    +svq++++ip+e+k+++kt+++i+q++++++   + ++idq++S+++++ ++ ++ +++
  PHY93_15610|PHY93_15610 641 VNRYLVNDLIKIGLWDDKMRNEIianNGSVQNVNSIPDEVKALYKTVWEIKQKAVVDMSQGRGPFIDQGQSLNVFM-EDPNFGKLS 725
                              ***********************765555***********************************************.********* PP

                              XXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC 508 elyllAwklGlKgvtyY 524
                              +++++Awk+GlK+ +yY
  PHY93_15610|PHY93_15610 726 SMHFYAWKAGLKTGMYY 742
                              ****************9 PP

>> Ribonuc_red_lgN  Ribonucleotide reductase, all-alpha domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.8   0.2   1.6e-25   9.5e-22       2      82 ..     142     212 ..     141     213 .. 0.96

  Alignments for each domain:
  == domain 1  score: 76.8 bits;  conditional E-value: 1.6e-25
          Ribonuc_red_lgN   2 kltynalkvledrYllkdengeivEspqqmfmRvAlalaiaealydkleedkdlaeefydlmssqkflpasPtlmnaGtel 82 
                              +++y+++k+le++Yllk +n+ ivE+p qm mRv+l+++          ++ + a+ +y+lms+++f++asPtl+n+Gt +
  PHY93_15610|PHY93_15610 142 NYDYFGFKTLEKSYLLKMNNK-IVERPGQMLMRVSLGIHS---------NNIEAAIVTYNLMSEKYFTHASPTLFNSGTTK 212
                              689****************66.*****************9.........9****************************975 PP

>> ATP-cone  ATP cone domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.2   0.1   8.4e-21     5e-17       1      86 []       1      89 [.       1      89 [. 0.98

  Alignments for each domain:
  == domain 1  score: 62.2 bits;  conditional E-value: 8.4e-21
                             -EEE-TTS-EEE--HHHHHHHHHHHHHH.-HHHHHHHHHHHHHHHHHHHIIT-BHHHHHHHHHHHHH....HSS-HHHHHHHHHHHHH CS
                 ATP-cone  1 ikViKRdGtvepfdvekIkraiekAceg.seeeideiaeeveaevrkrlrdgisteeIqdlvektli....ehpdyavaaayilyrnl 83
                             ++Vi R G++ep++ +kI+++ie  c   ++  id++  +++++v ++++dgi+t+e+++l ++t++    +hp+ya++a++i ++nl
  PHY93_15610|PHY93_15610  1 MYVITRSGEKEPIKFDKITERIEQLCFDlDRSFIDPM--KIAKKVIEGIYDGITTKELDQLAAETAAylstQHPQYATLAGRIAVSNL 86
                             89**************************99999****..************************************************* PP

                             HHH CS
                 ATP-cone 84 rke 86
                             +ke
  PHY93_15610|PHY93_15610 87 HKE 89
                             *97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (785 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       512  (0.0285571); expected 358.6 (0.02)
Passed bias filter:                      409  (0.0228122); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.74u 0.28s 00:00:01.02 Elapsed: 00:00:00.50
# Mc/sec: 4749.63
//
Query:       PHY93_15615|PHY93_15615  [L=811]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (811 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1004  (0.0559987); expected 358.6 (0.02)
Passed bias filter:                      202  (0.0112667); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.72u 0.26s 00:00:00.98 Elapsed: 00:00:00.47
# Mc/sec: 5227.13
//
Query:       PHY93_03350|PHY93_03350  [L=791]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    9.3e-56  188.9   0.1    4.1e-55  186.8   0.1    1.9  1  FtsK_SpoIIIE  FtsK/SpoIIIE family
    1.7e-28   98.2   0.1    4.3e-28   96.9   0.1    1.8  1  FtsK_gamma    Ftsk gamma domain
    9.5e-19   67.4   0.0    2.2e-18   66.3   0.0    1.6  1  FtsK_alpha    FtsK alpha domain
    1.2e-09   37.6   0.0    0.00053   19.0   0.0    2.2  2  AAA_10        AAA-like domain
    1.3e-05   25.4   4.1    4.1e-05   23.8   0.3    2.6  2  DUF87         Helicase HerA, central domain
  ------ inclusion threshold ------
      0.015   15.7   0.0      0.038   14.3   0.0    1.6  1  AAA_19        AAA domain
      0.017   14.2   0.0      0.028   13.5   0.0    1.2  1  T2SSE         Type II/IV secretion system protein
      0.026   13.8   0.0       0.11   11.7   0.0    1.9  1  DUF2075       Uncharacterized conserved protein (DUF2075)
      0.052   13.3   0.6       0.11   12.3   0.1    1.8  1  AAA_29        P-loop containing region of AAA domain
      0.096   12.6   0.2       0.21   11.5   0.2    1.5  1  TrmB          Sugar-specific transcriptional regulator TrmB
       0.11   12.4   0.0       0.36   10.7   0.0    1.8  1  NACHT         NACHT domain
       0.13   12.5   0.0       0.42   10.9   0.0    1.8  1  AAA_22        AAA domain
       0.17   11.4   0.0       0.31   10.5   0.0    1.3  1  AAA_7         P-loop containing dynein motor region


Domain annotation for each model (and alignments):
>> FtsK_SpoIIIE  FtsK/SpoIIIE family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  186.8   0.1   2.9e-58   4.1e-55       4     243 .]     414     620 ..     412     620 .. 0.95

  Alignments for each domain:
  == domain 1  score: 186.8 bits;  conditional E-value: 2.9e-58
                              HHHTSHHHHT---TTEEEEEEETTS-EEEEEGGGS-.SEEEE--TTSSHHHHHHHHHHHHHTT--TTTEEEEEE-TTSSSCGGGTT CS
             FtsK_SpoIIIE   4 evleskkfrtessqlpvalgkeisgnplvldlkkmashllvaGatgsGKStalntLilSlatthtPeeVqliliDykgvelsaled 89 
                              e++ sk f    +qlp+a+gk+  g+++v+dl++m+ h+lvaG+tg GKS+++n++++Sl+ +++P++ +liliD+k +el+ + +
  PHY93_03350|PHY93_03350 414 EIISSKDFVHTVHQLPLAMGKDAHGEAVVVDLASMP-HMLVAGSTGAGKSVFINSILVSLLIKKSPNQMKLILIDPKQLELALYAR 498
                              77889999999*************************.************************************************* PP

                              -TTBSS.S-B-SHHHHHHHHHHHHHHHHHHHHHHHHTT-SSHHHHHHHHHHHHHTT---B-TT-...................... CS
             FtsK_SpoIIIE  90 iphllsvavatdperalraleeLvkemeeryalfreagvrsiaaydgeiaedpldifgdvflvlDnyddlaaeneritsLsnqgps 175
                              +phll  +v+t++++a+  l + ++eme+ry++++e+gvr+i++++ + +++p ++       +D  +++++              
  PHY93_03350|PHY93_03350 499 LPHLLM-PVITEAKTAATSLLWACQEMERRYSIMSEFGVRNIEGFNHKLKQAPREL-------VDKIRKFYEY------------- 563
                              ******.************************************************4.......6888888874............. PP

                              -----------B--.---EEEEEEC-HHHHHHHHHHH....HHHHHHHHHHHCGGGTEEEEEEES---T CS
             FtsK_SpoIIIE 176 ygvhvlvtagrele.krpslvvivderieLrlaapkdssvlvedaivRlarkgraaglHlllatqrlsv 243
                                         e++ ++p++v ivde+++L+l+++++    +e+ i+Rla k+raag+Hl+latqr+sv
  PHY93_03350|PHY93_03350 564 ---------STEDTyELPYIVIIVDEFADLILTQKGK---DIETHICRLAGKARAAGVHLILATQRPSV 620
                              .........334555******************9988...7**************************96 PP

>> FtsK_gamma  Ftsk gamma domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   96.9   0.1   3.1e-31   4.3e-28       2      62 ..     727     787 ..     726     788 .. 0.98

  Alignments for each domain:
  == domain 1  score: 96.9 bits;  conditional E-value: 3.1e-31
               FtsK_gamma   2 eeDelfeeavelvveegkaStSllQRrlriGYnRAarlidqLeeeGiVgpaegskpReVli 62 
                              e+D+ ++eav++vve++ aS+SllQRrl +GYnRAa+li+++e++G+Vgpa+gskpR+Vl+
  PHY93_03350|PHY93_03350 727 ERDDKYDEAVRVVVEHRSASASLLQRRLGVGYNRAANLIEEMESKGVVGPAQGSKPRKVLM 787
                              79**********************************************************8 PP

>> FtsK_alpha  FtsK alpha domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.3   0.0   1.6e-21   2.2e-18      12     100 ..     315     403 ..     306     404 .. 0.94

  Alignments for each domain:
  == domain 1  score: 66.3 bits;  conditional E-value: 1.6e-21
               FtsK_alpha  12 kekkkedeeelekkaklieetleefgieakvveisvGPvvtqyevepapgvkvskiaaleddlalaLaaksirieapipGksvvGi 97 
                              ++ ++ d++ +++ +++i+++l ef+i ++++++ +GPvv ++e e+  g kvs++++ ++dl+laL+ + ir++ p++G+++vGi
  PHY93_03350|PHY93_03350 315 QKFSQPDDKYFHDIITKIQDKLGEFKILGRIINVLKGPVVDTFEWELGVGEKVSRLTSTSEDLSLALSGSPIRMVYPMKGRTTVGI 400
                              4447899999**************************************************************************** PP

               FtsK_alpha  98 evP 100
                              evP
  PHY93_03350|PHY93_03350 401 EVP 403
                              **9 PP

>> AAA_10  AAA-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.0   0.0   3.8e-07   0.00053      22      70 ..     449     501 ..     439     516 .. 0.86
   2 !   16.2   0.0   2.8e-06    0.0039     243     319 ..     575     655 ..     559     658 .. 0.88

  Alignments for each domain:
  == domain 1  score: 19.0 bits;  conditional E-value: 3.8e-07
                   AAA_10  22 sasliiGdlGnGKSvlakllvlyisllg....gkaliiDpkkerekfketlpe 70 
                              +++l+ G++G+GKSv+++ + + +++ +     k+++iDpk+ +   + +lp+
  PHY93_03350|PHY93_03350 449 PHMLVAGSTGAGKSVFINSILVSLLIKKspnqMKLILIDPKQLELALYARLPH 501
                              899*****************9999998889889********977766666665 PP

  == domain 2  score: 16.2 bits;  conditional E-value: 2.8e-06
                   AAA_10 243 vvifDEawiftssaeGkkllkelvR.iG..Rsynaavylvtqsad.DvlkeelknniglklaFretdkeeikkvLeflgld 319
                              v+i+DE   +  +++Gk ++ ++ R +G  R+    ++l+tq ++ Dv    +k n+++++ Fr t   + + +L+ +g++
  PHY93_03350|PHY93_03350 575 VIIVDEFADLILTQKGKDIETHICRlAGkaRAAGVHLILATQRPSvDVITGLIKSNFPTRVSFRVTSAIDSRTILNAMGAE 655
                              7899*********************557556777778999**9765********************999999999999987 PP

>> DUF87  Helicase HerA, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.3      0.13   1.8e+02      64     173 ..     178     301 ..     174     361 .. 0.60
   2 !   23.8   0.3     3e-08   4.1e-05      14      60 ..     441     488 ..     432     592 .. 0.91

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.13
                    DUF87  64 Ygkalekllsekvkvitpspsa.................kdkelkinpwsldpeelldllee..ddkpaaavqrsvleealdqaka 130
                              Y+++l++++s++ k+i++++++                 +++ ++i p ++ ++el+ + ++   d+++  +++++ + ++++a +
  PHY93_03350|PHY93_03350 178 YFTILKEKISPQSKLIEIDHEDapidhegvgqnsavmkdENRVIQIAPERVPVNELILVQKVaiIDNELVVEHDDF-AVVITTANE 262
                              77777888899999999988889999999999999999889999************99988875555554445544.444444553 PP

                    DUF87 131 keekeklssdepveklleelkkekeelrklknqaiarlldkle 173
                               +++e++  d+ +    +e +    +l+ ++n++i++ +d+++
  PHY93_03350|PHY93_03350 263 -NKIEEFIDDDGDDDYVDESE---IGLSLKSNKTISKFNDDKY 301
                              .44444444444443333333...1333333333333333332 PP

  == domain 2  score: 23.8 bits;  conditional E-value: 3e-08
                    DUF87  14 vyldlnklvtrHlAilgsTGsGKSntvavLleelle...kkgatililDp 60 
                              v +dl ++   H+++ gsTG+GKS ++ ++l +ll     ++ +++++Dp
  PHY93_03350|PHY93_03350 441 VVVDLASM--PHMLVAGSTGAGKSVFINSILVSLLIkksPNQMKLILIDP 488
                              67788788..9**********************99867444559*****9 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0   2.7e-05     0.038       7     116 ..     445     586 ..     438     590 .. 0.66

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 2.7e-05
                   AAA_19   7 alkekvllvtaGpGtGKTrvlkhivallvelggvkpeeillvaftgrAak.elrerlaalgaeatTiHrlal.............. 77 
                               ++ +++lv +  G GK+  ++ i+  l+  ++  p+++ l+    +  +  l  rl  l+++  T  + a               
  PHY93_03350|PHY93_03350 445 LASMPHMLVAGSTGAGKSVFINSILVSLLIKKS--PNQMKLILIDPKQLElALYARLPHLLMPVITEAKTAAtsllwacqemerry 528
                              5667889999*************9998888884..455555555444443267777777778755555555555578888888888 PP

                   AAA_19  78 ......................ldfddlltealelle.........eaeeekklqeeellivDEfqdvde 116
                                                     ++                     ++e++ +l    ++ivDEf d+  
  PHY93_03350|PHY93_03350 529 simsefgvrniegfnhklkqapREL-----------VdkirkfyeySTEDTYEL-PYIVIIVDEFADLIL 586
                              8888888899866665544333222...........123335554355555566.555*******99865 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0     2e-05     0.028     127     153 ..     446     472 ..     416     499 .. 0.70

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 2e-05
                    T2SSE 127 rerglilvsGgTgsGKttllyallkei 153
                              ++   +lv+G Tg GK+++++++l  +
  PHY93_03350|PHY93_03350 446 ASMPHMLVAGSTGAGKSVFINSILVSL 472
                              466789**************9988543 PP

>> DUF2075  Uncharacterized conserved protein (DUF2075)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   7.9e-05      0.11       4     102 ..     451     587 ..     449     612 .. 0.56

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 7.9e-05
                  DUF2075   4 vlVtGvaGtGKtvvllnllael.............edde......................eertavylsvNhplvlvlrealakk 54 
                              +lV G +G+GK+v  +++l+ l                +                       +  a+ l+   ++++  ++ +++ 
  PHY93_03350|PHY93_03350 451 MLVAGSTGAGKSVFINSILVSLlikkspnqmklilI--DpkqlelalyarlphllmpviteAKTAATSLLWACQEMERRYSIMSEF 534
                              68********************85444433333330..033333333333333444444333333334444444444333333332 PP

                  DUF2075  55 e...ekkkkkeafeklssfinnlsef.kkaeekkeepkedvvivDE.Ahrllt 102
                                   +    +  + +++++ ++++f ++ +e+  e +  v+ivDE A ++lt
  PHY93_03350|PHY93_03350 535 GvrnIEGFNHKLKQAPRELVDKIRKFyEYSTEDTYELPYIVIIVDEfADLILT 587
                              23323444444455566666666666666666666666666666665555555 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.1     8e-05      0.11      18      47 ..     442     473 ..     434     480 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 8e-05
                   AAA_29  18 eidlkg..atlltGpsGsGKSTllDAiqalLv 47 
                               +dl++   +l++G +G+GKS ++ +i + L+
  PHY93_03350|PHY93_03350 442 VVDLASmpHMLVAGSTGAGKSVFINSILVSLL 473
                              4444444589**************99877555 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.2   0.00015      0.21      17      59 ..     739     782 ..     734     786 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00015
                              HHHHCCCHHCHHCCCTTSSCHCHHHHHHHHHHCTSEEEESST.T CS
                     TrmB  17 LlklgpatadeiaeelgvprskvYevLrsLedkGlVerekgr.p 59 
                              ++++ +a+a+ + ++lgv ++++ + ++++e+kG+V   +g+ p
  PHY93_03350|PHY93_03350 739 VVEHRSASASLLQRRLGVGYNRAANLIEEMESKGVVGPAQGSkP 782
                              789*********************************98887644 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   0.00026      0.36       3     132 ..     451     646 ..     450     668 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00026
                              EEEEC-TTTCHHHHHHHHHHHHCTS-SCCCC-SEEEEEETTTTTTS-...-HCHHHCCCCTS--SSS-C................. CS
                    NACHT   3 vilqGeaGsGKTtLlqklalawaegklpqgafklvFflslrelsrsgnarsladllfsqlpepaapvse................. 71 
                              +++ G  G GK++++ ++ + +  +k p+++ k ++++  ++l+    a +l  ll+ +  e + + +                  
  PHY93_03350|PHY93_03350 451 MLVAGSTGAGKSVFINSILVSLLIKKSPNQM-K-LILIDPKQLELALYA-RLPHLLMPVITEAKTAATSllwacqemerrysimse 533
                              6899**************9999999989864.4.556677777776666.888888888888888888877777777777777777 PP

                              .......CHHHHCCSCCCEE......................EEEE-S.TT-SS-TCH............................ CS
                    NACHT  72 .......vwavllelperlL......................lilDgl.Delvtdlgq......................kekqpv 105
                                     ++++ l+++ r L                      +i+D + D + t+ g+                      ++++p+
  PHY93_03350|PHY93_03350 534 fgvrnieGFNHKLKQAPRELvdkirkfyeystedtyelpyivIIVDEFaDLILTQKGKdiethicrlagkaraagvhlilATQRPS 619
                              77777776666666666666788888888888888888888888888646667777778888888888888888888888888888 PP

                              ...HHHHHCTTTTT--EEEEEEECCCH CS
                    NACHT 106 rtlLselirkkllpeasllltvrpral 132
                               +++++li+ + ++++s+ +t+  +++
  PHY93_03350|PHY93_03350 620 VDVITGLIKSNFPTRVSFRVTSAIDSR 646
                              888888888888888888887766655 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0    0.0003      0.42       7     129 ..     450     615 ..     447     622 .. 0.62

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.0003
                   AAA_22   7 ilvvtGesGtGKTtllrrlleqldeeakaee.................erpevvfvtlpsstsskdllrellralglelka..... 70 
                              +++v G +G+GK++ ++ +l +l + +++++                 + p+++   +++ ++ ++ l + +++++++ +      
  PHY93_03350|PHY93_03350 450 HMLVAGSTGAGKSVFINSILVSLLIKKSPNQmklilidpkqlelalyaRLPHLLMPVITEAKTAATSLLWACQEMERRYSImsefg 535
                              7899*******************988888888888888877777777533333322222222444444555555554444477777 PP

                   AAA_22  71 .............erlsseellealeqalrarav.............ielliiDEaqhlr...s.eealeeLrsllnl.srkgvql 125
                                           +    +el+++++       +               ++i+DE+  l+   + +++ +++ +l+   +  gv+l
  PHY93_03350|PHY93_03350 536 vrniegfnhklkqA---PRELVDKIR-------KfyeystedtyelpYIVIIVDEFADLIltqKgKDIETHICRLAGKaRAAGVHL 611
                              77766766653332...333333333.......22223334666899999999999998886424555555555544456777777 PP

                   AAA_22 126 iLvG 129
                              iL+ 
  PHY93_03350|PHY93_03350 612 ILAT 615
                              7765 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   0.00023      0.31      34      58 ..     449     473 ..     442     485 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00023
                    AAA_7  34 kpvllvGptGtGKtviikdllkkld 58 
                               ++l+ G+tG GK+v i+++l +l 
  PHY93_03350|PHY93_03350 449 PHMLVAGSTGAGKSVFINSILVSLL 473
                              5899***************776664 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (791 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       781  (0.0435607); expected 358.6 (0.02)
Passed bias filter:                      560  (0.0312343); expected 358.6 (0.02)
Passed Vit filter:                        79  (0.00440627); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.83u 0.28s 00:00:01.10 Elapsed: 00:00:00.47
# Mc/sec: 5048.42
//
Query:       PHY93_03355|PHY93_03355  [L=262]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.4e-90  300.1   0.0      8e-90  299.8   0.0    1.1  1  Ribosomal_S2     Ribosomal protein S2
  ------ inclusion threshold ------
        0.1   13.1   0.0       0.26   11.7   0.0    1.7  1  Glyco_trans_1_4  Glycosyl transferases group 1


Domain annotation for each model (and alignments):
>> Ribosomal_S2  Ribosomal protein S2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  299.8   0.0     9e-94     8e-90       1     215 []      10     225 ..      10     225 .. 0.99

  Alignments for each domain:
  == domain 1  score: 299.8 bits;  conditional E-value: 9e-94
             Ribosomal_S2   1 LLeagvhfGhqtrrwnpkmkpyIygerngihiidlektlaalrraykvvkevaakggkilfvgtkkqakeavkeaakrangyyvne 86 
                              LLeag+hfGhqt++wnpkmk+y+yge+ngi+iidl kt++  + ay+++k++a +g+ +lfvgtk+qa+++v++aa  +++yyv++
  PHY93_03355|PHY93_03355  10 LLEAGAHFGHQTEKWNPKMKKYVYGEKNGIYIIDLAKTIPLAKSAYDFLKKTAGEGKPVLFVGTKRQAADVVTKAAIDCGAYYVTS 95 
                              8************************************************************************************* PP

             Ribosomal_S2  87 rWlgGtLTNfktikksikklkeleeleedgeld.ltkkealklkkekekleknlggikkmkklPdlvvvldpkkekiavkEakklg 171
                              rWlgG+LTN+kt++ si+k++++e+++e+g++  ltkke+++++ke  klek+lggik+m+klP +++++dp++e+ia+ Ea++lg
  PHY93_03355|PHY93_03355  96 RWLGGMLTNWKTVSLSIDKIRKVEKMKETGDFGlLTKKERINIEKEVVKLEKTLGGIKDMRKLPGAIFIIDPNNERIAILEANNLG 181
                              ********************************99**************************************************** PP

             Ribosomal_S2 172 ipviaivDtnvdpdlvdypIpaNddsirsiklilgvladaieeg 215
                              ipv+ai+Dtn+dp+ vdy++p+Ndd+++s++++++++a+++ eg
  PHY93_03355|PHY93_03355 182 IPVVAITDTNCDPTGVDYVVPGNDDAMKSVSMFTEYFANSVSEG 225
                              ****************************************9997 PP

>> Glyco_trans_1_4  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   2.9e-05      0.26       7     120 ..      98     205 ..      94     220 .. 0.59

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 2.9e-05
                              ES---GG.GTHHHHHHHHHHHH.HH..EEEEEES---..HHHHHHHTT-T.TEEEE---THHHHHHHH-SEEEE.--.---SHHHH CS
          Glyco_trans_1_4   7 vGrleenvkgvdllleavpllrkkd..vrlvivGdgprpeeleelaagleerveftGfvedlaellaaadvfva.Ps.egfglkll 88 
                              +G +  n+k v l ++++ ++ k +    + +  ++ ++ ++e+++ +le   + +G ++d+++l  a  +f++ P+ e  ++++l
  PHY93_03355|PHY93_03355  98 LGGMLTNWKTVSLSIDKIRKVEKMKetGDFGLLTKK-ERINIEKEVVKLE---KTLGGIKDMRKLPGA--IFIIdPNnE--RIAIL 175
                              566645667777777777777744223345555533.2223333332333...455555777776544..455515554..8**** PP

                              HHHHTT-EEEE-TGGGTTT--TTSSEE--TT- CS
          Glyco_trans_1_4  89 EamaaglpvVatdvggiaevvgengllvppgd 120
                              Ea  +g+pvVa +    ++  g++ ++vp +d
  PHY93_03355|PHY93_03355 176 EANNLGIPVVAITDTN-CDPTGVD-YVVPGND 205
                              ***********85424.4422665.6776443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (262 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       761  (0.0424452); expected 358.6 (0.02)
Passed bias filter:                      536  (0.0298957); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.26s 00:00:00.80 Elapsed: 00:00:00.45
# Mc/sec: 1753.45
//
Query:       PHY93_03360|PHY93_03360  [L=217]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.5e-38  131.8  10.9    1.3e-36  126.2  10.9    3.1  1  EF_TS     Elongation factor TS
  ------ inclusion threshold ------
       0.11   12.5   0.1       0.23   11.5   0.1    1.4  1  HOIP-UBA  HOIP UBA domain pair


Domain annotation for each model (and alignments):
>> EF_TS  Elongation factor TS
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  126.2  10.9   1.4e-40   1.3e-36      73     208 .]      56     198 ..       3     198 .. 0.88

  Alignments for each domain:
  == domain 1  score: 126.2 bits;  conditional E-value: 1.4e-40
                    EF_TS  73 kleaekevvasYiHgngrigvlvalegksdea.....lkelakqiAmhiaAmnPqylsedevdaevlekekeilkeqakeegkpek 153
                              ++  ++++v+sYiHg g++gvlv++++++d       +++++k++AmhiaA+ P++++++e+d++++++e +i+++q+keegkpe+
  PHY93_03360|PHY93_03360  56 RIA-AEGAVGSYIHG-GKLGVLVEINCETDFVaksedFQTFVKDVAMHIAAADPKFVRSSEMDQAFVDREVAIYTAQLKEEGKPEA 139
                              333.47888******.***********99866677889************************************************ PP

                    EF_TS 154 iiekiveGrlekflkevcLleQeyvkddkktVeqvlkeaske....lkvvkfvrfevGe 208
                              +i kiveG+++k  +evcLl+Q+++k+++ tV+++++e   +    ++v +fv+f++Ge
  PHY93_03360|PHY93_03360 140 MIPKIVEGKVKKLASEVCLLDQKFIKNPDITVQDLINELTVKvgekIDVRRFVKFTLGE 198
                              **************************************99888889************8 PP

>> HOIP-UBA  HOIP UBA domain pair
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   2.6e-05      0.23     102     143 ..       8      49 ..       3      54 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 2.6e-05
                 HOIP-UBA 102 kKvkelaslgffdreevveaLrqsgGdvegAlveLqrplLep 143
                              k v el+++      ++ +aL + +Gd+e+A+  L ++ L +
  PHY93_03360|PHY93_03360   8 KLVSELREKTGAGMMDCKKALGEVNGDIEKAIDYLRQKGLAA 49 
                              567899999999999********************9999976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (217 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       582  (0.0324614); expected 358.6 (0.02)
Passed bias filter:                      462  (0.0257683); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.47
# Mc/sec: 1400.62
//
Query:       PHY93_03365|PHY93_03365  [L=234]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-26   93.7   4.1    1.5e-26   93.5   4.1    1.0  1  AA_kinase        Amino acid kinase family
  ------ inclusion threshold ------
      0.077   12.9   0.1        6.7    6.6   0.0    2.5  2  Transketolase_C  Transketolase, C-terminal domain


Domain annotation for each model (and alignments):
>> AA_kinase  Amino acid kinase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   93.5   4.1   1.6e-30   1.5e-26       2     241 .]       5     213 ..       4     213 .. 0.90

  Alignments for each domain:
  == domain 1  score: 93.5 bits;  conditional E-value: 1.6e-30
                              EEEEEE-TTCCC.CTCC....HHHHHHHHHHHHHHHHTTEEEEEE--HHHHHHHHHHTCCCCCHHHC....E..HHHHHHHHHHHH CS
                AA_kinase   2 rvVvKlGGsslt.dkee....aslrrlaeqiaalkesgnklvvVhGggsftdgllalksglssgelaaglrstleeagevatrdal 82 
                              r+ +Kl G +l+ dk+     ++l+ +  +i++l e g ++++V+Ggg++ +g + +  g++++ +                 d +
  PHY93_03365|PHY93_03365   5 RILLKLSGEALAgDKGHgislDVLNTISSEIKELIEMGVEVAIVIGGGNIHRGVAGATVGMDRTTS-----------------DHM 73 
                              899*********99999****************************************666666655.................9** PP

                              HHHHHHHHHHHHHTTHGEEEE-GGGTCEECCCE..HHHTTTCEEECCHHHHHHHTT-EEEEESEEEEETTTEEEEE-HHHHHHHHH CS
                AA_kinase  83 aslgerlvaallaaglpavglsaaaldateagrdegsdgnvesvdaeaieelleagvvpvltgfigldeegelgrgssDtiaallA 168
                              ++l++ +++  l+  ++  g++ + l a++ +         e + ++   + le++ v++++ +    ++     +++Dt+aal A
  PHY93_03365|PHY93_03365  74 GMLATVINSLALSDSMERNGINTRVLSAIDMQE------IAEPYIRRRAVRHLEKKRVVIFAAGT--GNP----YFTTDTAAALRA 147
                              ******************************999......66666666666666776555555533..344....78********** PP

                              HHCTSSEEEEEESSSSCESSTTTTCCTTCECCEEEHHHCHHCSSS.TTTHHHHCHHHHHHHHHCTT-EEEEEE CS
                AA_kinase 169 ealgAdkliiltdVdGVydadpkkvpdarllpeisvdeaeesaselatgGmkvkhpaalaaarrggipvvItn 241
                              ++++A+ ++ +t VdG+yd+dp k +da+++++i++ ++++        G  v++  a+ +++ ++i++ ++n
  PHY93_03365|PHY93_03365 148 NEIDANVIMKATKVDGIYDKDPMKFKDAVKIDKIKFIDVLN-------KGLQVMDSTAISLCMDNEIDILVFN 213
                              *****************************************.......***********************98 PP

>> Transketolase_C  Transketolase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.4   0.0    0.0037        33      20      56 ..      78     114 ..      74     120 .. 0.83
   2 ?    6.6   0.0   0.00074       6.7       3      41 ..     116     155 ..     114     159 .. 0.86

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.0037
                              HHHHHHHHHHHHHTTTTCEEEEE-SEEESHHHHHHHH CS
          Transketolase_C  20 mveealeAaeeLekegisaeVvdlrtvkplDketile 56 
                              +v ++l+  +  e++gi+++V++++ ++ + +  i+ 
  PHY93_03365|PHY93_03365  78 TVINSLALSDSMERNGINTRVLSAIDMQEIAEPYIRR 114
                              56678999999*************9999998888874 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.00074
                              EEEEETTSSEEEEEETTHH.HHHHHHHHHHHTTTTCEEEE CS
          Transketolase_C   3 aeilregkdvtlvayGsmv.eealeAaeeLekegisaeVv 41 
                              a+++ e+k+v+++a G+   ++ ++ a++L+++ i+a V+
  PHY93_03365|PHY93_03365 116 AVRHLEKKRVVIFAAGTGNpYFTTDTAAALRANEIDANVI 155
                              5666799*********987257889*************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (234 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       541  (0.0301746); expected 358.6 (0.02)
Passed bias filter:                      384  (0.0214178); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.25s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 1585.51
//
Query:       PHY93_03370|PHY93_03370  [L=183]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.5e-59  198.8   3.6    7.3e-59  198.3   3.6    1.2  1  RRF            Ribosome recycling factor
  ------ inclusion threshold ------
        0.1   12.4   3.2      0.081   12.8   1.8    1.5  2  Peptidase_M41  Peptidase family M41
       0.23   11.5   1.1       0.29   11.2   0.2    1.7  2  Spectrin_like  Spectrin like domain
       0.34   11.4   6.8       0.38   11.2   2.9    2.5  3  HsbA           Hydrophobic surface binding protein A
       0.38   10.2   5.4       0.88    9.0   3.9    1.9  2  14-3-3         14-3-3 protein


Domain annotation for each model (and alignments):
>> RRF  Ribosome recycling factor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  198.3   3.6     2e-62   7.3e-59       1     162 []      20     183 .]      20     183 .] 0.99

  Alignments for each domain:
  == domain 1  score: 198.3 bits;  conditional E-value: 2e-62
                              HHHHHHHSS-SSSSCGGGTTSEEEETTEEEEGGGTEEEEESSTTEEEEEESSCCHHHHHHHHHHHSCC-SEEEEESSEEEEE--SS CS
                      RRF   1 lkkelsklrtgranpslldnikVeyygkktpLnqlAqvsvkeartllitpfdkslvkaiekaIlksdlglnpqqdgevlrvpippl 86 
                              lk++l+k+rtgra+ ++ld ++V+yyg+  pL+ql+q+s++ear+l+i+pfdks++ aiekaI  ++lg++p++dg+ +r+++p l
  PHY93_03370|PHY93_03370  20 LKHQLTKVRTGRASVNILDGVQVDYYGSLSPLSQLGQISTPEARLLQIQPFDKSMLGAIEKAIFGANLGVTPTNDGNLIRLNFPSL 105
                              799*********************************************************************************** PP

                              SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH.C.S-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT CS
                      RRF  87 TeErrkelvkeakkaaekakvairniRrdankklkklek.k.iseDdvkkaekeiqkltdkyikeidellkakekell 162
                              Te++rk+l+ke+kk++e++kv +rn Rrd n+++kk+ek k +seDd+kk++ eiq +tdk++ke+d ++++keke+l
  PHY93_03370|PHY93_03370 106 TEDKRKDLAKEIKKIGEDTKVILRNLRRDQNDAVKKSEKdKaVSEDDAKKIQAEIQTITDKFTKEVDIIIANKEKEVL 183
                              ***************************************669**********************************86 PP

>> Peptidase_M41  Peptidase family M41
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0       1.4     5e+03      59      70 ..      17      28 ..       4      40 .. 0.46
   2 ?   12.8   1.8   2.3e-05     0.081     102     169 ..     117     181 ..     108     183 .] 0.81

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 1.4
                             HHHHHHHHHHHH CS
            Peptidase_M41 59 keellarlavll 70
                              ++l ++l+ + 
  PHY93_03370|PHY93_03370 17 IDSLKHQLTKVR 28
                             223333333333 PP

  == domain 2  score: 12.8 bits;  conditional E-value: 2.3e-05
                              HHTS---TTT-S--------..----.------SS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHH CS
            Peptidase_M41 102 vtefGmsdklGpvsleeeeeeevflgkelkkekelseetaeeideevkelveeayerakeileekree 169
                              +++ G   k+ + +l+++++      k+++k+k++se+ a++i +e++++ ++  +++  i+ +k++e
  PHY93_03370|PHY93_03370 117 IKKIGEDTKVILRNLRRDQND---AVKKSEKDKAVSEDDAKKIQAEIQTITDKFTKEVDIIIANKEKE 181
                              566666677777777776663...4578999************************9999999988876 PP

>> Spectrin_like  Spectrin like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.1       1.7   6.2e+03      22      39 ..       6      23 ..       2      26 .. 0.63
   2 ?   11.2   0.2   8.2e-05      0.29      27      73 ..     122     168 ..     111     172 .. 0.90

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 1.7
            Spectrin_like 22 ktmkpeeyrqvlknLelh 39
                             kt   +  ++++++L+ +
  PHY93_03370|PHY93_03370  6 KTSLNDSMKKAIDSLKHQ 23
                             555566677777777665 PP

  == domain 2  score: 11.2 bits;  conditional E-value: 8.2e-05
            Spectrin_like  27 eeyrqvlknLelhyqdFlrdSqeSelFteedrkqlerevekaqehye 73 
                              e+++ +l+nL    +d +++S+  +  +e+d k+++ e+++ +++++
  PHY93_03370|PHY93_03370 122 EDTKVILRNLRRDQNDAVKKSEKDKAVSEDDAKKIQAEIQTITDKFT 168
                              78999**********************************99888776 PP

>> HsbA  Hydrophobic surface binding protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.9   0.1      0.16   5.9e+02      72      87 ..       8      23 ..       2      42 .. 0.63
   2 ?   -0.5   0.0      0.46   1.6e+03      56      85 ..     103     132 ..     100     142 .. 0.72
   3 ?   11.2   2.9    0.0001      0.38      40      89 ..     130     179 ..     111     180 .. 0.91

  Alignments for each domain:
  == domain 1  score: 0.9 bits;  conditional E-value: 0.16
                             HCHHHHHHHHHHHHHT CS
                     HsbA 72 tLepdvkaaldaliaK 87
                             +L++++k+a+d+l+ +
  PHY93_03370|PHY93_03370  8 SLNDSMKKAIDSLKHQ 23
                             5667777777777654 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.46
                              ----HHHHHHHHHHHHHCHHHHHHHHHHHH CS
                     HsbA  56 apltdeealalaqavqtLepdvkaaldali 85 
                              ++lt++  ++la +++++  d+k  l +l 
  PHY93_03370|PHY93_03370 103 PSLTEDKRKDLAKEIKKIGEDTKVILRNLR 132
                              567888888888888887777777777665 PP

  == domain 3  score: 11.2 bits;  conditional E-value: 0.0001
                              HHHHHHHHHHHHHHTS----HHHHHHHHHHHHHCHHHHHHHHHHHHHTHH CS
                     HsbA  40 alvsaikkattdaqasapltdeealalaqavqtLepdvkaaldaliaKkp 89 
                              +l ++ ++a ++ ++   +++++a+++++++qt+++++++ +d +ia k+
  PHY93_03370|PHY93_03370 130 NLRRDQNDAVKKSEKDKAVSEDDAKKIQAEIQTITDKFTKEVDIIIANKE 179
                              567778889999999999*****************************997 PP

>> 14-3-3  14-3-3 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.0       0.1   3.6e+02      78     119 ..       4      45 ..       1      52 [. 0.67
   2 ?    9.0   3.9   0.00025      0.88      26     100 ..     103     177 ..      96     182 .. 0.87

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.1
                              HHHHHHHHHHHHHHHHHHHCCHCH.-SHHHHHHHH.HHHHHHH CS
                   14-3-3  78 kiekeLkeiceevlelldktlipkatseeskvfyl.kmkgDyy 119
                              k ++ L++  +++++ l+++l + + +  + v  l  ++ Dyy
  PHY93_03370|PHY93_03370   4 KTKTSLNDSMKKAIDSLKHQLTK-VRTGRASVNILdGVQVDYY 45 
                              66778888888888888888886.5566666633325556665 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.00025
                              S---HCHHHHHHHHHHHHHHHHHHHCHHHHHHHCCCCTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHC CS
                   14-3-3  26 eeLskeernlLsvayKnvvgarRaswrvlssieqkeeskeekkvelikeyrekiekeLkeiceevlelldktlip 100
                              ++L++++r+ L+  +K++ +     +r l+  +++  +k+ek +++ ++  +ki+ e+++i +++ + +d ++ +
  PHY93_03370|PHY93_03370 103 PSLTEDKRKDLAKEIKKIGEDTKVILRNLRRDQNDAVKKSEKDKAVSEDDAKKIQAEIQTITDKFTKEVDIIIAN 177
                              57999*************************988888788799999********************9999966654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (183 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1871  (0.104356); expected 358.6 (0.02)
Passed bias filter:                      699  (0.0389871); expected 358.6 (0.02)
Passed Vit filter:                        75  (0.00418317); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.55u 0.25s 00:00:00.80 Elapsed: 00:00:00.45
# Mc/sec: 1223.63
//
Query:       PHY93_03375|PHY93_03375  [L=253]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.9e-69  233.6   0.0    2.2e-69  233.4   0.0    1.0  1  Prenyltransf  Putative undecaprenyl diphosphate synthase


Domain annotation for each model (and alignments):
>> Prenyltransf  Putative undecaprenyl diphosphate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  233.4   0.0   1.2e-73   2.2e-69       1     224 []      16     231 ..      16     231 .. 0.96

  Alignments for each domain:
  == domain 1  score: 233.4 bits;  conditional E-value: 1.2e-73
                              EE--HHHHHHHTT.S-HHHHHHHHHHHHHHHHHHHHHTT-SEEEEEEEEGGGGGS-HHHHHHHHHHHHHHHHHHHHHHHHHTTEEE CS
             Prenyltransf   1 imDGNrRwAkkrgleereeGhkaGaealkeilelclelgvkvvtvYafSteNfkRskeevdalmellkeellkeelkellkegvrv 86 
                              imDGN+RwAk r+ ++r  Gh +G   +++i+e + ++g++++t+YafSteN++R+++e++ l++ll+ ++lk+e +++lk+++r+
  PHY93_03375|PHY93_03375  16 IMDGNGRWAKMRS-HPRVWGHVRGSGVVADIVEEADSCGISALTMYAFSTENWSRPQTEIRVLFNLLH-KFLKRERDRILKNNIRF 99 
                              9************.99999************************************************5.5**************** PP

                              EEESSGGGS-HHHHHHHHHHHHHHT.TTTSEEEEEEEEE-HHHHHHHHHHHHHHTT..SSSGGGHSHHHHHCTSTT..TSSS-SEE CS
             Prenyltransf  87 rviGdlellpedvlealekaeeatkknnkklvlniavnYgsrdeiveavrelvkekseekkkeeideetlekhlytakalpdpDll 172
                              +++Gd+++lp+++++ ++++e+++   n++l+l++a+ Yg+r+ei++a+++++k++    k  ei+ee+l+k+l    +l d+Dll
  PHY93_03375|PHY93_03375 100 KIMGDITNLPSQTKNLISQLEAESM-FNTGLKLTFAFGYGGRAEITQALNRFIKAN--PGK--EITEEELAKNLLI-PDLGDVDLL 179
                              *************************.7777**********************9987..333..4789********8.446****** PP

                              EEESS--S-TTSSTTTTTT-EEEEESSSGGG--HHHHHHHHHHHHHCHHHTT CS
             Prenyltransf 173 iRtsGeeRlSnFllwqlayselyfldvlWPdfskedllealleyqkrerrfg 224
                              iRt+G++R+SnFllwq+ay+e+yf+++ WPdfs +++ e+l++ ++rerrfg
  PHY93_03375|PHY93_03375 180 IRTGGDHRVSNFLLWQIAYAEFYFTETKWPDFSTHEFREILENVSQRERRFG 231
                              **************************************************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (253 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       588  (0.032796); expected 358.6 (0.02)
Passed bias filter:                      523  (0.0291706); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.44
# Mc/sec: 1738.96
//
Query:       PHY93_21400|PHY93_21400  [L=321]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (321 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       535  (0.0298399); expected 358.6 (0.02)
Passed bias filter:                      481  (0.026828); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 2088.95
//
Query:       PHY93_03380|PHY93_03380  [L=275]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      9e-56  189.6  18.4      1e-55  189.4  18.4    1.0  1  CTP_transf_1  Cytidylyltransferase family
  ------ inclusion threshold ------
        3.3    5.9  12.7        3.9    5.6  12.7    1.2  1  DUF2070       Predicted membrane protein (DUF2070)


Domain annotation for each model (and alignments):
>> CTP_transf_1  Cytidylyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  189.4  18.4   1.1e-59     1e-55       1     265 [.       5     270 ..       5     271 .. 0.76

  Alignments for each domain:
  == domain 1  score: 189.4 bits;  conditional E-value: 1.1e-59
                              HHHHHHHHHHHHHHHHTTTSH.HHHHHHHHHHHHHHHHHHH.HTT--SHHHHHHHHH....HHHHHHHHHHTTTSSSHHHHHHHHH CS
             CTP_transf_1   1 kqRvitalvlilivliilllgglvflllvavvvilalkEli.rlvrlkkrekrllll.llslvlllllllflylesliallklvll 84 
                              kqR+i+al+++++v++++++g++ +l+lv++v il++ El+ ++++l ++++ + ++ + + +++l++++f+ ++    ++++ +l
  PHY93_03380|PHY93_03380   5 KQRIISALIMAILVVLCVFFGKMPTLILVMLVGILCIDELLvNFAELTRKSFFYKYIiFFFTLFFLFINVFFEAKLSRSFFTISAL 90 
                              79*************************************85366666666655555554666677777777777666666666555 PP

                              HHHHHHHHH---........HHHHHHHHHHHHHHHHHTHHHH...TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH---B- CS
             CTP_transf_1  85 lvlvllllvlkvl.....kskskklervilallallyvvlllq..slllienikeglllvllllalvvaaDigaYffGklfGktkl 163
                              ++ ++l+ +l  +     ++ +kk ++    ll ++ ++ +++  +++ ++++++   ++ lll+++++ D+ga+ffGk fG+ kl
  PHY93_03380|PHY93_03380  91 FLNIFLIYYL--FkiplqENFMKKSTEKNPGLLSVIAILPIVSfgIHFETDHWRH---ILGLLLIVTISMDTGAWFFGKNFGRVKL 171
                              5555444433..2236664444444444444444444444441003334444444...344566788999**************** PP

                              S-TTS---BHHHHHHHHHHHHHHHHHHHHHHHCTS---TTSHHHHHHHHHHHHHHHHHHHHHHHHHHT-SSS-S-SSSSS-HHHHH CS
             CTP_transf_1 164 lpkiSPkKTveGfigGlvaavvvglllalvlskalalsllhllllslllslvavfGDLveSglKRafgiKDsGkliPGhGGilDRl 249
                              +p+iSPkKTveGf+gG+++++++g+l +++l ++    ++   ++ +  + v+++GDLv+S +KR+fgiKDs++liPGhGGi DR+
  PHY93_03380|PHY93_03380 172 WPEISPKKTVEGFVGGMFTTALLGTLAWHYLFND---YQWYYSVIFAACGAVSQVGDLVQSKIKREFGIKDSSNLIPGHGGIYDRI 254
                              ******************************9995...566666666678999********************************** PP

                              HHHHHHHHHHHHHHHH CS
             CTP_transf_1 250 Dsllfaapvvylllel 265
                              Dsl+f  p++ +++++
  PHY93_03380|PHY93_03380 255 DSLIFLSPFFVFVVKY 270
                              ***********99986 PP

>> DUF2070  Predicted membrane protein (DUF2070)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6  12.7   0.00044       3.9      19     222 ..       9     123 ..       2     237 .. 0.49

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.00044
                  DUF2070  19 lliillalligllaflssklfgillfglpalvaflltlpvlrilggrltykrslflalltelivviisllaillsallqalvllal 104
                              + ++++a+l+ l +f  +  + il++++ +l    l+  + +++++       +f  +++ ++ ++++++ +++            
  PHY93_03380|PHY93_03380   9 ISALIMAILVVLCVFFGKMPTLILVMLVGILCIDELLVNFAELTRKS------FFYKYIIFFFTLFFLFINVFFE----------- 77 
                              33333333333333333322223333333333333333333333333......3333333333333333333333........... PP

                  DUF2070 105 vlslalvfalrllvlvavsdesllkavlpaliqpllailllvlyfspesfllllllslifalavylfivvvdrplkrnlgvsaldl 190
                                                                                                       +l r++   +  +
  PHY93_03380|PHY93_03380  78 ------------------------------------------------------------------------AKLSRSFFTISALF 91 
                              ........................................................................22222222222222 PP

                  DUF2070 191 lsaFlahilegskelEeffeeigeeadvpvkv 222
                              l+ Fl + l +    E+f+++  e+     +v
  PHY93_03380|PHY93_03380  92 LNIFLIYYLFKIPLQENFMKKSTEKNPGLLSV 123
                              22222222222211122222222222222222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (275 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       985  (0.0549389); expected 358.6 (0.02)
Passed bias filter:                      318  (0.0177366); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.28s 00:00:00.84 Elapsed: 00:00:00.46
# Mc/sec: 1789.07
//
Query:       PHY93_03385|PHY93_03385  [L=522]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.6e-80  268.8   0.9    4.5e-80  268.5   0.9    1.1  1  Peptidase_M50   Peptidase family M50
    3.7e-15   55.5   0.0    1.1e-07   31.5   0.0    2.5  2  PDZ_6           PDZ domain
    3.6e-11   43.2   0.9      7e-06   26.3   0.1    2.4  2  PDZ_2           PDZ domain
    1.3e-06   28.6   0.1      0.012   16.0   0.0    2.4  2  PDZ             PDZ domain
    0.00073   19.5   0.4        1.8    8.6   0.0    2.5  2  Tricorn_PDZ     Tricorn protease PDZ domain
     0.0009   18.9   3.4      0.014   15.1   0.0    3.0  3  Peptidase_M50B  Peptidase M50B-like
  ------ inclusion threshold ------
      0.093   12.7   0.1       0.23   11.5   0.0    1.7  2  Toxin_ToxA      Proteinaceous host-selective toxin ToxA
       0.11   12.8   0.0       0.21   11.9   0.0    1.4  1  GRASP55_65      GRASP55/65 PDZ-like domain


Domain annotation for each model (and alignments):
>> Peptidase_M50  Peptidase family M50
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  268.5   0.9     2e-83   4.5e-80       2     250 .]       9     511 ..       8     511 .. 0.88

  Alignments for each domain:
  == domain 1  score: 268.5 bits;  conditional E-value: 2e-83
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.......XXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxx RF
            Peptidase_M50   2 filllgilvvvHElGHflvAklcgvkveefsigfGpkllsfkkgeteYaiallpLGGyVkmageepeeelseeeaka...flkksp 84 
                              fil lg lv++HElGHfl+A+l+gv+ve fsigfGpkl++ k g+teYa++++pLGGyVkm g++p ++   +e+++   f+++  
  PHY93_03385|PHY93_03385   9 FILFLGPLVFFHELGHFLFARLFGVRVEVFSIGFGPKLFKKKFGNTEYAVSAIPLGGYVKMYGDDPFTKDDVPESERhhsFTHQGK 94 
                              99***************************************************************988877666666778****** PP

                              XXXXXXXXXXXXXXXXXXXXXXXX.............................................................. CS
                              xxxxxxxxxxxxxxxxxxxxxxxx.............................................................. RF
            Peptidase_M50  85 wqrllivlAGplanfilailvfvv.............................................................. 108
                              ++r+ ivl+Gplanfila+++f+                                                               
  PHY93_03385|PHY93_03385  95 FARFCIVLGGPLANFILAFFIFFSllisgeripeiklgaipvessiykaglrtgdillkvndtevynptdlmvegkgeiksitvkr 180
                              ************************************************************99999999999999999999999999 PP

                              ...................................................................................... CS
                              ...................................................................................... RF
            Peptidase_M50 109 ...................................................................................... 108
                                                                                                                    
  PHY93_03385|PHY93_03385 181 adqpvvlavdfkgdkffedilkyppflrkpflidsnshrylmsfekdkvnlkdsieemsmrtstkfaylypvlpgqdisseelkid 266
                              99999999999999999999999999999999999999999999999999999999999999999999999998888888888888 PP

                              ...................................................................................... CS
                              ...................................................................................... RF
            Peptidase_M50 109 ...................................................................................... 108
                                                                                                                    
  PHY93_03385|PHY93_03385 267 mksgievplnftdlksmligldskgfktidlmvrsvnmnspadkvgirendvfvslegekvysfedlrtrlqtiekksvnveiwnk 352
                              88888888888888888888888888888887777777777777777777777777777777777777776666666655555555 PP

                              .....-EEECECTTTSCEE-SEEEC-...............................XXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              .....xxxxxxxxxxxxxxxxxxxxx...............................xxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M50 109 .....pkkskeseeekrgviGvspkp...............................vkkegllealkegvektlkvvvltvkalg 158
                                                       +                               +k++gl+ ++k++v +t+++v+ t++ ++
  PHY93_03385|PHY93_03385 353 gqvkkL-------------------VvtpdvtiqegktlrllgvysyieiqkinfvhTKSKGLFGSIKYSVIRTWDSVKKTIDGFV 419
                              444440...................03444444444444444444444999999999***************************** PP

                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M50 159 klitgklslktlggpisiaqlaseaaeaglssflqllalisvnLgilNLlPipvLDGghllfalleairrkplserkeevanlvgl 244
                              kl+t+++slkt+ggp++i+++a ++++++ls+f+ql+alisvnLg++NL+PipvLDGgh+lf +le i++ pls+rk+e+a++vgl
  PHY93_03385|PHY93_03385 420 KLLTNQISLKTIGGPLAIGKVAHDSFNTSLSYFFQLMALISVNLGVINLFPIPVLDGGHILFIALELINGGPLSRRKMEIAQQVGL 505
                              ************************************************************************************** PP

                              XXXXXX CS
                              xxxxxx RF
            Peptidase_M50 245 alllll 250
                               +ll+l
  PHY93_03385|PHY93_03385 506 SILLML 511
                              ***986 PP

>> PDZ_6  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.0   6.6e-08   0.00015      13      38 ..     142     165 ..     139     180 .. 0.80
   2 !   31.5   0.0     5e-11   1.1e-07       2      55 ..     299     350 ..     298     351 .. 0.96

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 6.6e-08
                    PDZ_6  13 rAGlrvGDiilsvNGqpveglsladv 38 
                              +AGlr GDi+l+vN+++v  ++++d+
  PHY93_03385|PHY93_03385 142 KAGLRTGDILLKVNDTEV--YNPTDL 165
                              8*****************..999994 PP

  == domain 2  score: 31.5 bits;  conditional E-value: 5e-11
                    PDZ_6   2 VtaVdpgsPAdrAGlrvGDiilsvNGqpveglsladvaallrgsagesvvlvvr 55 
                              V++V  +sPAd+ G+r +D+ +s+ G+ v  +s +d++  l++ + +sv ++++
  PHY93_03385|PHY93_03385 299 VRSVNMNSPADKVGIRENDVFVSLEGEKV--YSFEDLRTRLQTIEKKSVNVEIW 350
                              899999***********************..******************99986 PP

>> PDZ_2  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.1   9.6e-06     0.022      29      53 ..     142     166 ..     133     194 .. 0.76
   2 !   26.3   0.1   3.1e-09     7e-06      13      80 ..     294     360 ..     275     361 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 9.6e-06
                              GT.--TT-EEEEETTB--SSHHHHH CS
                    PDZ_2  29 kaglkagDvilkvdgkkvksledli 53 
                              kagl++gD++lkv++++v + +dl 
  PHY93_03385|PHY93_03385 142 KAGLRTGDILLKVNDTEVYNPTDLM 166
                              8*****************9999987 PP

  == domain 2  score: 26.3 bits;  conditional E-value: 3.1e-09
                              ..-EEEEEE-TTSGGGGT.--TT-EEEEETTB--SSHHHHHHHHHTS-TT-EEEEEEEETTEEEEEEE CS
                    PDZ_2  13 tggvlvvsVkeggPaakaglkagDvilkvdgkkvksledlislllkkkpGdtVkltvlRdgkkktvev 80 
                              t  + v sV+ ++Pa+k g++ +Dv ++++g kv s edl+++l++ ++ + V++++  +g+ k++ v
  PHY93_03385|PHY93_03385 294 TIDLMVRSVNMNSPADKVGIRENDVFVSLEGEKVYSFEDLRTRLQTIEK-KSVNVEIWNKGQVKKLVV 360
                              5578999************************************997654.679999999999998876 PP

>> PDZ  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.2   0.0   0.00034      0.77      37      64 ..     138     165 ..     129     176 .. 0.85
   2 !   16.0   0.0   5.2e-06     0.012      28      81 ..     297     349 ..     281     350 .. 0.85

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00034
                              SHHHHHTSSTTEEEEEETTEETTTSHHH CS
                      PDZ  37 gaaeadglkvGDkIlsvNgvdvenvshe 64 
                              ++  ++gl+ GD++l+vN++ v n +++
  PHY93_03385|PHY93_03385 138 SSIYKAGLRTGDILLKVNDTEVYNPTDL 165
                              5667888************999886665 PP

  == domain 2  score: 16.0 bits;  conditional E-value: 5.2e-06
                              EEEEEECTTSHHHHHTSSTTEEEEEETTEETTTSHHHHHHHHHHTTTSEEEEEE CS
                      PDZ  28 ifvsevlpggaaeadglkvGDkIlsvNgvdvenvsheeavqaikgskgkvtLti 81 
                              + v +v+ +++a++ g++++D+ +s  g++v ++++++  +++ ++k +v ++i
  PHY93_03385|PHY93_03385 297 LMVRSVNMNSPADKVGIRENDVFVSLEGEKVYSFEDLRTRLQTIEKK-SVNVEI 349
                              68999****8999888**********************999999987.666665 PP

>> Tricorn_PDZ  Tricorn protease PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.6   0.0   0.00078       1.8      30      81 ..     137     183 ..     133     194 .. 0.80
   2 !    8.4   0.1   0.00092       2.1      28      87 ..     303     359 ..     298     361 .. 0.88

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.00078
                              B-GGGGGS---.TT-EEEEETTEE-BTTB-HHHHHHTTTTSEEEEEEE-STT CS
              Tricorn_PDZ  30 rSPLaepGvnvreGdlilavdgepvskekgiaelLvgkagkeveLtvkrkdg 81 
                              +S++ + G++  +Gd++l+v++ +v    ++  l+v+ +g+  ++tvkr+d+
  PHY93_03385|PHY93_03385 137 ESSIYKAGLR--TGDILLKVNDTEVY---NPTDLMVEGKGEIKSITVKRADQ 183
                              6889999999..9*********9976...57778888777777788877765 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.00092
                              S-B-GGGGGS---.TT-EEEEETTEE-BTTB-HHHHHHTTTTSEEEEEEE-STT-EEEEE CS
              Tricorn_PDZ  28 earSPLaepGvnvreGdlilavdgepvskekgiaelLvgkagkeveLtvkrkdgkarrvv 87 
                              +++SP  + G++  e d+ ++++ge+v + +++   L   ++k+v++++ +k+ +++++v
  PHY93_03385|PHY93_03385 303 NMNSPADKVGIR--ENDVFVSLEGEKVYSFEDLRTRLQTIEKKSVNVEIWNKG-QVKKLV 359
                              789999999*99..99*********************************9966.555544 PP

>> Peptidase_M50B  Peptidase M50B-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0     6e-06     0.014      25      48 ..      17      40 ..       4      67 .. 0.90
   2 ?   -0.1   0.0      0.26   5.9e+02      59      88 ..      92     119 ..      85     133 .. 0.71
   3 ?    2.5   0.2     0.042        94     123     162 ..     430     469 ..     420     517 .. 0.77

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 6e-06
           Peptidase_M50B 25 vffHElGHalaalLtGgrvkgiel 48
                             vffHElGH l+a L+G rv+ +++
  PHY93_03385|PHY93_03385 17 VFFHELGHFLFARLFGVRVEVFSI 40
                             8******************98876 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.26
           Peptidase_M50B  59 rgpgglgqiltllaGYlgpallGlllills 88 
                              +g   + +++++l+G+l+  +l  ++++++
  PHY93_03385|PHY93_03385  92 QG--KFARFCIVLGGPLANFILAFFIFFSL 119
                              34..77788888888888777766666544 PP

  == domain 3  score: 2.5 bits;  conditional E-value: 0.042
           Peptidase_M50B 123 lgallllvlllaedelleflllflgvflllgsvrdiddli 162
                              ++++ l++ ++a+d++++ l++f+ +++l+++ + + +l+
  PHY93_03385|PHY93_03385 430 TIGGPLAIGKVAHDSFNTSLSYFFQLMALISVNLGVINLF 469
                              5666678888888888888888888888887766555554 PP

>> Toxin_ToxA  Proteinaceous host-selective toxin ToxA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0    0.0001      0.23      46      94 ..     335     382 ..     316     395 .. 0.88
   2 ?   -3.4   0.0       4.1   9.2e+03      67      86 ..     401     420 ..     397     435 .. 0.67

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.0001
               Toxin_ToxA  46 vglsrvvdnslrvditntgranrlivtewdssltrgdvyellgdyalit 94 
                                l+ + ++s++v+i n g+ ++l+vt  d ++ +g++  llg y+ i+
  PHY93_03385|PHY93_03385 335 TRLQTIEKKSVNVEIWNKGQVKKLVVTP-DVTIQEGKTLRLLGVYSYIE 382
                              567778899*****************96.99**************9876 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 4.1
               Toxin_ToxA  67 nrlivtewdssltrgdvyel 86 
                              +  ++  wds   + d+++ 
  PHY93_03385|PHY93_03385 401 KYSVIRTWDSVKKTIDGFVK 420
                              55678888887777777653 PP

>> GRASP55_65  GRASP55/65 PDZ-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   9.4e-05      0.21      47     115 ..     299     364 ..     285     378 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 9.4e-05
                              EEEEBTTSHHHHHT--TTTEEEEEEE.SSSSSTSCSHHHHTTTSSS-EEEEEEETTTTEEEEEEE---T CS
               GRASP55_65  47 vldvlegsPaakagLvpksDYiiGldkgllkgeedlselveaheekelkLlvYnsesdevrevtvkpsr 115
                              v  v+++sPa+k g+ + +D  + l+ + + + edl++++++ e+k++++ ++n+   +v++ +v+p+ 
  PHY93_03385|PHY93_03385 299 VRSVNMNSPADKVGIRE-NDVFVSLEGEKVYSFEDLRTRLQTIEKKSVNVEIWNKG--QVKKLVVTPDV 364
                              55799*********987.688899*****************************975..68888888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (522 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       557  (0.031067); expected 358.6 (0.02)
Passed bias filter:                      431  (0.0240393); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.60u 0.27s 00:00:00.87 Elapsed: 00:00:00.45
# Mc/sec: 3447.87
//
Query:       PHY93_03390|PHY93_03390  [L=192]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
       0.25   11.0   0.0       0.34   10.6   0.0    1.1  1  Peptidase_M22  Glycoprotease family


Domain annotation for each model (and alignments):
>> Peptidase_M22  Glycoprotease family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   1.9e-05      0.34      31      78 ..      36      82 ..      30      95 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 1.9e-05
                             HHHHHHHHHHHHHHTSTGGGEEEEEEEEESS-HHHHHHHHHHHHHHHH CS
            Peptidase_M22 31 erllplieealaeaglsledldaIavtkgPGlftgLrvGvsfAkglal 78
                             e++   i ++l++  l+l+d+++  v++gPG++tg+r     A+ + l
  PHY93_03390|PHY93_03390 36 EIIHFEIFNLLKKYSLNLADMQCF-VSNGPGSYTGMRLSEGLAQVFEL 82
                             666667788999999999999986.89**********99888887765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (192 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       323  (0.0180155); expected 358.6 (0.02)
Passed bias filter:                      280  (0.0156172); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.43
# Mc/sec: 1339.58
//
Query:       PHY93_03395|PHY93_03395  [L=217]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.2e-06   25.5   0.0    0.00016   21.3   0.0    2.1  2  PS_Dcarbxylase   Phosphatidylserine decarboxylase
  ------ inclusion threshold ------
      0.026   14.3   0.0       0.15   11.9   0.0    2.2  3  Biotin_lipoyl_2  Biotin-lipoyl like
      0.041   13.6   0.0        4.5    7.0   0.0    2.2  2  PTS_EIIA_1       phosphoenolpyruvate-dependent sugar phosphot


Domain annotation for each model (and alignments):
>> PS_Dcarbxylase  Phosphatidylserine decarboxylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.0     0.014        86      15      36 ..      55      75 ..      41      92 .. 0.74
   2 !   21.3   0.0   2.6e-08   0.00016     152     199 ..     167     212 ..      98     213 .. 0.86

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.014
           PS_Dcarbxylase 15 pidddpgaivsPaDgrilqige 36
                             pi ++ g i+sPa g++++i++
  PHY93_03395|PHY93_03395 55 PI-STRGVIFSPANGKVVHIEH 75
                             55.5556799999999999954 PP

  == domain 2  score: 21.3 bits;  conditional E-value: 2.6e-08
           PS_Dcarbxylase 152 lkgdelkkGeelGyFqfGStvvlvfeagkfieslvekgqkvkmGeklg 199
                               +gd+  +  ++GyF fG tv+l+++++  +e lv+ +++v++Ge++ 
  PHY93_03395|PHY93_03395 167 MPGDRGGRRVNIGYFPFGGTVMLYLPKK--YEILVKTNDEVNAGETIF 212
                              56777777789***************99..***************986 PP

>> Biotin_lipoyl_2  Biotin-lipoyl like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.0      0.35   2.1e+03       5      16 ..      62      73 ..      61      75 .. 0.85
   2 ?   -3.4   0.0       1.5   9.2e+03       8      22 ..     104     118 ..     101     118 .. 0.73
   3 ?   11.9   0.0   2.5e-05      0.15      15      32 ..     196     213 ..     195     216 .. 0.92

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.35
          Biotin_lipoyl_2  5 IaapvsGrVaql 16
                             I +p +G+V+ +
  PHY93_03395|PHY93_03395 62 IFSPANGKVVHI 73
                             779999***987 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 1.5
          Biotin_lipoyl_2   8 pvsGrVaqlnVkdGq 22 
                              p+s  ++ l+V  Gq
  PHY93_03395|PHY93_03395 104 PLSCEIKNLLVLKGQ 118
                              667778889988777 PP

  == domain 3  score: 11.9 bits;  conditional E-value: 2.5e-05
          Biotin_lipoyl_2  15 qlnVkdGqrVkaGdvLae 32 
                              +++Vk +++V+aG +++ 
  PHY93_03395|PHY93_03395 196 EILVKTNDEVNAGETIFA 213
                              699*************96 PP

>> PTS_EIIA_1  phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.0    0.0041        25      38      53 ..      60      75 ..      55     130 .. 0.65
   2 ?    7.0   0.0   0.00076       4.5      82     103 ..     193     214 ..     182     217 .] 0.81

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.0041
                             SEEEES--EEEEE--S CS
               PTS_EIIA_1 38 gkvvapvdGkvekvfp 53
                             g +++p++Gkv+++ +
  PHY93_03395|PHY93_03395 60 GVIFSPANGKVVHIEH 75
                             5666777777666643 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.00076
                              TTEEES----SEE-SEEEEEEE CS
               PTS_EIIA_1  82 egFellvkegdkVkagdklvev 103
                              + +e+lvk++d+V+ag++++ v
  PHY93_03395|PHY93_03395 193 KKYEILVKTNDEVNAGETIFAV 214
                              8899*************99876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (217 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       649  (0.0361983); expected 358.6 (0.02)
Passed bias filter:                      418  (0.0233142); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.45
# Mc/sec: 1460.10
//
Query:       PHY93_03400|PHY93_03400  [L=256]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.5e-14   53.3   0.2    3.5e-14   53.3   0.2    2.9  2  CDP-OH_P_transf  CDP-alcohol phosphatidyltransferase
     0.0004   19.3   1.1     0.0004   19.3   1.1    1.5  2  EcsB             Bacterial ABC transporter protein EcsB


Domain annotation for each model (and alignments):
>> CDP-OH_P_transf  CDP-alcohol phosphatidyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.3   0.2   3.9e-18   3.5e-14       2      66 .]      12      75 ..      11      75 .. 0.90
   2 ?   -2.0   5.0      0.73   6.6e+03      20      27 ..     178     195 ..      81     240 .. 0.68

  Alignments for each domain:
  == domain 1  score: 53.3 bits;  conditional E-value: 3.9e-18
                             -HHHHHHHHHHHHHHHHHGGGS-H..HHHHHHHHHHHHHTTHHHHHHHHTT---HHHHHHHHHHH CS
          CDP-OH_P_transf  2 lPnaiTllrlllsvlailllltyyplvlailllliasltDalDGklARrlnqvstlGkllDslaD 66
                             lPn++T l++++++++i+l  +   ++ a +lll+ +++D++DG++AR ++++s +G+++Ds+ D
  PHY93_03400|PHY93_03400 12 LPNTFTALNMACGFFSIILG-WKGEFYPASMLLLLGAIFDSVDGRVARMTHTQSAFGEQFDSISD 75
                             8****************644.555589999999999999*************999********98 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.73
                              GGGS-H............ CS
          CDP-OH_P_transf  20 llltyyp..........l 27 
                              ++++++           +
  PHY93_03400|PHY93_03400 178 PFNSFKKsewvrshkkrV 195
                              333333255555555531 PP

>> EcsB  Bacterial ABC transporter protein EcsB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.6   0.4      0.43   3.9e+03     352     382 ..      17      47 ..      15      48 .. 0.77
   2 !   19.3   1.1   4.5e-08    0.0004     111     222 ..     144     250 ..     133     255 .. 0.77

  Alignments for each domain:
  == domain 1  score: -3.6 bits;  conditional E-value: 0.43
                     EcsB 352 illliqalllslvvliltgsllallllllil 382
                              ++l +++ ++s+++++++  + a +llll++
  PHY93_03400|PHY93_03400  17 TALNMACGFFSIILGWKGEFYPASMLLLLGA 47 
                              5666788889999999999888888888876 PP

  == domain 2  score: 19.3 bits;  conditional E-value: 4.5e-08
                     EcsB 111 llvllillPlllettglsiaelllllllllllkl.lnlllkweelrlqgkkkrridrlirlllnalllylllalapllallli.ll 194
                              l ++ + +P ++e+  + + +++l++++l++  + +n ++k e++r ++k        + +++ ++++   ++ +++++l++  ++
  PHY93_03400|PHY93_03400 144 LTLFTLEYPEVMEISPFVFVAYVLFFAFLMISNIpFNSFKKSEWVRSHKK-------RVLFIIFLVMILTFVKEQIMIGLIINtYV 222
                              55778889999999999999999999999999999999999999998885.......34455555555566666666666665689 PP

                     EcsB 195 lllvlllllkrkkkkklldWeklieeEq 222
                              ++ +l+++ +r + + +++W+   +eE 
  PHY93_03400|PHY93_03400 223 FASLLYFVKNRGALQDMFQWNSEDDEES 250
                              9999999999999*******98766665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (256 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       912  (0.0508673); expected 358.6 (0.02)
Passed bias filter:                      374  (0.0208601); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.23s 00:00:00.81 Elapsed: 00:00:00.47
# Mc/sec: 1651.50
//
Query:       PHY93_03405|PHY93_03405  [L=323]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.1e-05   25.6   6.9    1.1e-05   25.6   6.9    2.2  2  OMP_b-brl  Outer membrane protein beta-barrel domain


Domain annotation for each model (and alignments):
>> OMP_b-brl  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.0     0.043   7.7e+02       3      36 ..      10      52 ..       8     111 .. 0.44
   2 !   25.6   6.9   6.2e-10   1.1e-05      53     178 .]     174     322 ..     114     322 .. 0.65

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 0.043
                OMP_b-brl  3 llllaalsaaaaa...assfggfyvggglglskvkv......d 36
                             llll+++ ++a a    +  +g  v+ +l++sk++       +
  PHY93_03405|PHY93_03405 10 LLLLTVFFQQASAtdlDQVVSGGDVEDSLATSKATEsspyiiH 52
                             5555665555555333222244444444444444433333331 PP

  == domain 2  score: 25.6 bits;  conditional E-value: 6.2e-10
                OMP_b-brl  53 efndnvgvegglsysgdkdysgs...gktdikinllsvpvnagyafnlsdsvlpyggaGlg...............ytkvevdvsg 120
                              ++n+ ++++ggl+y++++ ++++     t++k +   v + +g+ +++s+++++ + aG++               +         
  PHY93_03405|PHY93_03405 174 FINPFWSLGGGLGYNSGRGIFVTgerSDTTFKLWEIPVDLGLGVEIPISHWFKVSAAAGPSvtalyqnrndllageK--------- 250
                              34667************9999998666666666666677778888999*************6665444444444441......... PP

                OMP_b-brl 121 ngasdsdtdfglglg..aGveyala..................dnwslkaeYrytdlksdadndlknntfqvgvgyrF 178
                                    +++  +++g  a ++++++                   n+++++e ry ++ ++ ++++k ++ ++g g+ F
  PHY93_03405|PHY93_03405 251 -----GRNKMQVSYGqfANAQFKINlsgfsadtaytlfteskiTNLYMNLEARYQNY-RNFQDEIKISGTSIGIGFTF 322
                              .....4444444443112333333333444444444445554459999999999999.467788***********999 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (323 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       593  (0.0330749); expected 358.6 (0.02)
Passed bias filter:                      374  (0.0208601); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.46
# Mc/sec: 2091.09
//
Query:       PHY93_03410|PHY93_03410  [L=262]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.1e-32  110.9   0.0      1e-23   83.9   0.0    2.1  2  PseudoU_synth_1  tRNA pseudouridine synthase
  ------ inclusion threshold ------
      0.043   13.7   0.0      0.066   13.1   0.0    1.3  1  DUF2344          Uncharacterized protein conserved in bacteri


Domain annotation for each model (and alignments):
>> PseudoU_synth_1  tRNA pseudouridine synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.0   0.0   2.2e-09   1.9e-05       4     107 ..      15     110 ..      13     111 .. 0.90
   2 !   83.9   0.0   1.1e-27     1e-23       2     108 .]     151     262 .]     151     262 .] 0.94

  Alignments for each domain:
  == domain 1  score: 25.0 bits;  conditional E-value: 2.2e-09
          PseudoU_synth_1   4 elvGthdfgsfckqkqekkntvrtileaaieevsgeekellvvtvkgsgFldhqVRamvgvl.favgqgklspedvkellnakkrk 88 
                              ++ Gt + g f  q q+ ++t++  l+ a++ +s+++     ++  gsg++d++V+a  +v+ +++   ++++  + +++n+++++
  PHY93_03410|PHY93_03410  15 QYKGTSYLG-F--QVQSVGQTIQGELNKALKILSKTD----SIKSIGSGRTDSGVHAFAQVVrIEI-PVDIPVGSLVRAINSHLPH 92 
                              699******.9..99999*************888775....9********************4444.679**************** PP

          PseudoU_synth_1  89 kiavetapavglvlfhvrY 107
                              +i v+ a  +    fh ++
  PHY93_03410|PHY93_03410  93 DIRVTAATRCTN-EFHPIF 110
                              ****99999987.777766 PP

  == domain 2  score: 83.9 bits;  conditional E-value: 1.1e-27
          PseudoU_synth_1   2 akelvGthdfgsfckqkqekkntvrtileaaieevsgeekell.......vvtvkgsgFldhqVRamvgvlfavgqgklspedvke 80 
                              +k ++G+h+f +f+  ++e ++tvr+i+++++ ++++  +++        v++v gsgFl+++VR m+g+l   g+g+++ ed+++
  PHY93_03410|PHY93_03410 151 CKIFCGEHNFINFQCTGTEVETTVRQIFSCELVHYQSA-GHWGhmlsdyyVFHVIGSGFLKQMVRLMMGALWSLGRGRITLEDLEK 235
                              689******************************77766.45558999*************************************** PP

          PseudoU_synth_1  81 llnakkrkkiavetapavglvlfhvrYd 108
                              +l + + k+  + tap++gl+l +v+Y+
  PHY93_03410|PHY93_03410 236 ALRIPQTKR-LGATAPPQGLYLKEVHYP 262
                              ******888.*****************8 PP

>> DUF2344  Uncharacterized protein conserved in bacteria (DUF2344)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   7.4e-06     0.066      56     117 ..      61     129 ..      59     177 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 7.4e-06
                  DUF2344  56 GveSegEyldielteevdpeevverLnaqlpegikileveeieek.akslmallaaaeYrve......e 117
                              Gv + + ++ ie+  ++++ ++v+++n++lp++i++++++++ ++ ++  +a+ ++ +Y ++       
  PHY93_03410|PHY93_03410  61 GVHAFAQVVRIEIPVDIPVGSLVRAINSHLPHDIRVTAATRCTNEfHPIFSAQSKEYNYVFSteqnisP 129
                              777888999*****99************************99998677777888888887753344440 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (262 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       505  (0.0281667); expected 358.6 (0.02)
Passed bias filter:                      472  (0.0263261); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.25s 00:00:00.77 Elapsed: 00:00:00.44
# Mc/sec: 1769.34
//
Query:       PHY93_03415|PHY93_03415  [L=425]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    3.4e-31  108.5   6.9    3.4e-31  108.5   6.9    3.5  2  Trigger_N  Bacterial trigger factor protein (TF)
    1.5e-23   83.6   9.6    1.5e-23   83.6   9.6    2.0  3  Trigger_C  Bacterial trigger factor protein (TF) C-terminus
      2e-11   44.1   0.4    6.3e-11   42.5   0.4    1.9  1  FKBP_C     FKBP-type peptidyl-prolyl cis-trans isomerase
  ------ inclusion threshold ------
       0.26   11.4   1.8        2.1    8.4   0.2    2.4  2  SurA_N     SurA N-terminal domain


Domain annotation for each model (and alignments):
>> Trigger_N  Bacterial trigger factor protein (TF)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  108.5   6.9   7.5e-35   3.4e-31       1     139 [.       1     142 [.       1     144 [. 0.96
   2 !    4.8   0.1    0.0074        33      15      45 ..     300     330 ..     287     340 .. 0.83

  Alignments for each domain:
  == domain 1  score: 108.5 bits;  conditional E-value: 7.5e-35
                              -EEEEEEEETTEEEEEEEE-HHHCHHHHHHHHHHHHTTS-BTTC-TT---CCCHHHHCTCCCHHHHHHHHHHCCCCCCCCCS..-E CS
                Trigger_N   1 mkvtvekleglkvkltvevpaeevekavekalkklakkvkipGFRkGkvPrsiiekrygkevleealeellnealeeaieeeklep 86 
                              m++tv++ +g+++k+++++   +++k++++a+ k + + +i+GFRkGk+P +++e+ yg +++++al+  ++++l ea+++ek+++
  PHY93_03415|PHY93_03415   1 MSYTVKSVNGCTKKIEFNFATLDLSKEIKAAVVKKQTTTNIKGFRKGKAPLAMVEQVYGPQIESDALNTFVQSQLFEAVTKEKFKT 86 
                              899******9**************************************************************************** PP

                              E.EE.E...EEETTC.EEEEEEEEE--EEEE.XCCCSEEEEEXHHHHHHHHHHHHH CS
                Trigger_N  87 vgqpei...eleegkdleftvevevkPevelgdykglevekeevevtdeevdeele 139
                              vg p +   ++e+gk+++f++ vev+Pe++l+dy+  + +ke++evt+++ d+  +
  PHY93_03415|PHY93_03415  87 VGYPAFenvKYETGKSVSFEAVVEVFPEIKLADYSTYTFKKEKAEVTKDDLDKVTK 142
                              *****9743489999************************************99766 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.0074
                              EEEEE-HHHCHHHHHHHHHHHHTTS-BTTC- CS
                Trigger_N  15 ltvevpaeevekavekalkklakkvkipGFR 45 
                               +++vpa+ v+++v+   ++lak++k +GF 
  PHY93_03415|PHY93_03415 300 NKFDVPATLVQNQVKYLQEDLAKNLKSQGFN 330
                              5789**************************6 PP

>> Trigger_C  Bacterial trigger factor protein (TF) C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.1      0.99   4.4e+03     105     121 ..     126     142 ..     125     153 .. 0.78
   2 ?   -4.1   0.1       3.1   1.4e+04     107     127 ..     240     260 ..     237     262 .. 0.57
   3 !   83.6   9.6   3.3e-27   1.5e-23       1     161 [.     264     421 ..     264     422 .. 0.95

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 0.99
                              HHTT----HHHHHHHHH CS
                Trigger_C 105 keekievteeelkeele 121
                              k+ek evt ++l++  +
  PHY93_03415|PHY93_03415 126 KKEKAEVTKDDLDKVTK 142
                              89999999999987655 PP

  == domain 2  score: -4.1 bits;  conditional E-value: 3.1
                              TT----HHHHHHHHHHHCCCT CS
                Trigger_C 107 ekievteeelkeeleelasqy 127
                              e +e++e++  e  +e+a+++
  PHY93_03415|PHY93_03415 240 ELLEIKEKKFPELNDEMAKEF 260
                              455566666666666666655 PP

  == domain 3  score: 83.6 bits;  conditional E-value: 3.3e-27
                              CHHHHHHHHCCCCHHHHHHHHHHHHHCCCHCCCGCGEEEEE-HHHHHHHHHHHHHHHHHCT...TSSHHCHHHHHCTHCCCHCHHC CS
                Trigger_C   1 tLeeLkedlrkqleeekeeatkeelkealldkLvekaeidiPeslveeeidrllrqakqqleqqGldleeylelsgsseeelreel 86 
                              +++++ e+ + +l ++ke+++ e+l +++l+kLv  +++d+P +lv+++++ l ++++++l+ qG++++++ e      e  + + 
  PHY93_03415|PHY93_03415 264 SVADFNEKNKVSLLAQKERQASEKLHQEILEKLVSFNKFDVPATLVQNQVKYLQEDLAKNLKSQGFNEAMVAEYF----ERWKSDI 345
                              688999999************************************************************975554....8888888 PP

                              HHHHHHHHHHHHHHHHHHHHTT----HHHHHHHHHHHCCCTTSXHHHHHHHHHHXHHHH.HHHHHHHHHHHHHHHC CS
                Trigger_C  87 keeAekrVklgLvleeiakeekievteeelkeeleelasqygmepeevkeflkkneqls.alkedileekvvdlll 161
                               ++A+ +V+ gL+l+ +a++ +ie t+++ ++++ee a + gm++e vk++++ n q + +l  +i+eek+++ ++
  PHY93_03415|PHY93_03415 346 TTKADFQVRSGLILDHLAQQFNIETTDADFNKKIEESAASAGMDVETVKKYYSTNSQIKnNLMYAIREEKTFEEIK 421
                              8899999****************************************************************99886 PP

>> FKBP_C  FKBP-type peptidyl-prolyl cis-trans isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.5   0.4   1.4e-14   6.3e-11       6      94 .]     162     242 ..     158     242 .. 0.93

  Alignments for each domain:
  == domain 1  score: 42.5 bits;  conditional E-value: 1.4e-14
                              -TTCEEEEEEEEEETTSSEEEEHCCHTSEEEEETTSSSSCHHHHHHHTTSBTT-EEEEEEEGGGTTTTTTBCTTTB.TTSEEEEEE CS
                   FKBP_C   6 kegdtVtvhykgkledgkvfdssrsrakplefkvGsgqvikGfeealegmkvGekrtltippelaYgekglaggvippnatLvFev 91 
                              ++g ++ ++++g  e+g+  ++   +++++ +++Gsgq+i+Gfe+++ g+k+Gek+ +  ++++ Y++ +l+      n ++ Fev
  PHY93_03415|PHY93_03415 162 AKGHFAVFNFEGVKENGERPENM--KGSEYLLEIGSGQFIPGFEDGMIGLKKGEKKNIVLTFPADYHAVELQ------NGKVTFEV 239
                              67899999********9999999..**********************************************5......57999999 PP

                              EEE CS
                   FKBP_C  92 eLl 94 
                              eLl
  PHY93_03415|PHY93_03415 240 ELL 242
                              996 PP

>> SurA_N  SurA N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   0.1     0.052   2.3e+02      75     102 ..     273     300 ..     251     331 .. 0.68
   2 ?    8.4   0.2   0.00048       2.1      57     116 ..     360     419 ..     350     421 .. 0.85

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.052
                   SurA_N  75 aiaeiAkeNkltldqlraalaedGlsyd 102
                               ++ +A++ ++  ++l++++ e+ +s++
  PHY93_03415|PHY93_03415 273 KVSLLAQKERQASEKLHQEILEKLVSFN 300
                              4444555555555555555555555544 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.00048
                   SurA_N  57 lqeaektgirvddeelnqaiaeiAkeNkltldqlraalaedGlsydefreqiRkEiiisr 116
                                 a++ +i+ +d++ n+ i+e A++ +++++ +++  +++ +  +++   iR+E + ++
  PHY93_03415|PHY93_03415 360 DHLAQQFNIETTDADFNKKIEESAASAGMDVETVKKYYSTNSQIKNNLMYAIREEKTFEE 419
                              4579999****************************9999998888888888888876665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (425 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1498  (0.0835518); expected 358.6 (0.02)
Passed bias filter:                      492  (0.0274416); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.62u 0.26s 00:00:00.88 Elapsed: 00:00:00.46
# Mc/sec: 2749.57
//
Query:       PHY93_03420|PHY93_03420  [L=155]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (155 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       535  (0.0298399); expected 358.6 (0.02)
Passed bias filter:                      398  (0.0221987); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 1085.41
//
Query:       PHY93_03425|PHY93_03425  [L=886]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   1.1e-200  668.0  10.1   5.1e-199  662.4  10.1    2.7  1  tRNA-synt_1      tRNA synthetases class I (I, L, M and V)
    9.1e-39  132.8   2.4    2.1e-38  131.7   2.4    1.7  1  Anticodon_1      Anticodon-binding domain of tRNA
    2.9e-21   75.7   9.1    8.1e-10   38.0   6.7    4.4  2  tRNA-synt_1g     tRNA synthetases class I (M)
    3.8e-14   52.6   0.1    6.4e-08   32.3   0.0    3.2  3  tRNA-synt_1_2    Leucyl-tRNA synthetase, Domain 2
    1.2e-12   47.9   5.8    3.5e-12   46.4   5.8    1.9  1  Val_tRNA-synt_C  Valyl tRNA synthetase tRNA binding arm
      5e-05   22.8   0.0     0.0057   16.0   0.0    2.5  2  tRNA-synt_1e     tRNA synthetases class I (C) catalytic domai
  ------ inclusion threshold ------
       0.12   12.8   4.6       0.37   11.2   4.6    1.8  1  YlqD             YlqD protein


Domain annotation for each model (and alignments):
>> tRNA-synt_1  tRNA synthetases class I (I, L, M and V)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  662.4  10.1    2e-202  5.1e-199       1     601 [.      20     571 ..      20     572 .. 0.96

  Alignments for each domain:
  == domain 1  score: 662.4 bits;  conditional E-value: 2e-202
              tRNA-synt_1   1 klyekWeeedvfkkelekekekkefilvdgPPyvtGslHiGhalaktlkdivirykrmkGkevlyvpGwDhaGlaieakvekklga 86 
                              k+y+ We  ++fk++  k k +k ++++++PP+vtG+lH Ghal+ t +d +ir+krmkG+e+l++pG+DhaG+a++++vek++++
  PHY93_03425|PHY93_03425  20 KWYAAWESGKYFKPK--KGKANKAYCIIVPPPNVTGKLHAGHALDLTTQDALIRFKRMKGYETLFLPGLDHAGIATQSVVEKMVWE 103
                              69*************..88889**************************************************************** PP

              tRNA-synt_1  87 kekkerkklgreefrekvrewkaeyaeeirkqvkrlGvsvDfdreylTldkeleeavkevfvrladkgliyrgkklvnwstklkta 172
                              +ekk+r +++reef +k+++wk+ey + i +q++ +G+s+D+d   +Tld+  ++avk+ fv l+++ liy++ ++vnw+++l++a
  PHY93_03425|PHY93_03425 104 QEKKTRRDFTREEFLKKIWAWKEEYGNAILDQQRAMGASCDWDYLTFTLDPIPNQAVKKFFVDLYNQKLIYQSDYIVNWDPALQSA 189
                              ************************************************************************************** PP

              tRNA-synt_1 173 lselEveykdkkdalihvafpladkeevklviaTTtPeTllgdtavavnpeldyvitkeklilaeallkslvkkesekkilederg 258
                              +s++Eve+k++++a++h+++ ++d+e+ +l++aTT+PeTl+gdtavavnpe                               der 
  PHY93_03425|PHY93_03425 190 VSDAEVEHKEVQGAFYHLKYRIKDSED-TLEVATTRPETLFGDTAVAVNPE-------------------------------DERF 243
                              ***************************.***********************...............................9*** PP

              tRNA-synt_1 259 keLegkevelplvnrkipiiaddyvdkeaGtGvVkiaPahdedDyevgkkynlevinildedgtlteeaaefeglkvfdarkkvve 344
                              k+L+gk+++ pl nr++pii d++vd e+GtG+ k++P+hd++D+e+gk++nl++ini+++dgtl+e+  ef+g++ ++arkkv +
  PHY93_03425|PHY93_03425 244 KHLIGKTAIIPLCNREVPIIGDEHVDLEKGTGCLKVTPGHDFNDFEIGKRHNLPIINIINKDGTLNEHGMEFQGMSAKEARKKVSK 329
                              ************************************************************************************** PP

              tRNA-synt_1 345 elkekglllkaekiehsvpfcerskkpiiyrateqWfvrvkeladaalkave..kvqfvpkskekryaswleniqdWciSRqrwWG 428
                              +l+e g ll ++ ++h v+++ers+++i++++++qWfv vk++ + a++ave  +++f+pk  e++y+swl++ +dWciSRq+wWG
  PHY93_03425|PHY93_03425 330 KLEELGILLDTKIHMHPVGHGERSGAVIEPMISKQWFVDVKDMSKRAVEAVEkdETKFYPKEWENTYFSWLRDPKDWCISRQLWWG 415
                              ****************************************************999******************************* PP

              tRNA-synt_1 429 hriplfvsketeevvvreelkelvagreeeeaekkalekeakdklkkekgelekdedvlDvWFsSgswpfstlgypee...dteel 511
                              h+ip+f+ +++ +         ++      e+  ++++  + +++     ++++d+dvlD+WFsSg+w +stlg+p+    +++++
  PHY93_03425|PHY93_03425 416 HQIPVFYCDNNHQ---------WAS-----EN--NEIQCPTCKSF-----TVHQDPDVLDTWFSSGLWAMSTLGWPNAdamKEKKF 480
                              *******999652.........222.....11..22222334455.....89************************9844457899 PP

              tRNA-synt_1 512 kkffpadmlleGlDiirgWvarlillslaltgsePfkevlvhglvrdeeGrKmSKslgNvidpldvikkygadalRltli.lsdvg 596
                              ++ffp ++l++G+Dii++Wvar++++sl++++++Pfk+v++h++vrd+ GrKmSKslgN idp ++i++yg+d+ R+ l+  + + 
  PHY93_03425|PHY93_03425 481 ETFFPNSVLITGFDIIFFWVARMMMMSLKTQNQVPFKDVYIHAIVRDKLGRKMSKSLGNGIDPFEMIEQYGTDSFRFSLAsGAGYN 566
                              ********************************************************************************888888 PP

              tRNA-synt_1 597 rdinl 601
                              r inl
  PHY93_03425|PHY93_03425 567 RGINL 571
                              88877 PP

>> Anticodon_1  Anticodon-binding domain of tRNA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  131.7   2.4   8.3e-42   2.1e-38       1     151 [.     614     762 ..     614     763 .. 0.87

  Alignments for each domain:
  == domain 1  score: 131.7 bits;  conditional E-value: 8.3e-42
              Anticodon_1   1 drwilselnklvkevteayeeyrfnkaasalyeffwndlcdwylelvkprlysesaedkraaq..evllevletllrllaPfmPfi 84 
                              +rwilseln++ k ++e++e yrf++a +a+y+f+++++c+w++el+k++l++e+ e +  aq  +vl+ v++++l ll+P++Pfi
  PHY93_03425|PHY93_03425 614 ERWILSELNSTTKIMNESLEIYRFDDASAAAYSFVYDKYCSWFIELSKNILKGENVEIR--AQrnSVLKFVFKKILALLHPITPFI 697
                              69*************************************************88776554..4445********************* PP

              Anticodon_1  85 tEelwqr...eeeelgkkesimlaewpe.kaeel.ekeleeeevellkeivkairklrselkikpsselkvv 151
                              tEelw +         +++ ++ +++pe +++ + + + ++e+++ + e+v+ ir+lr++ +ikp+ e++v+
  PHY93_03425|PHY93_03425 698 TEELWSHlkdA-----NEDLLITQDYPEyDSAIEfK-N-DQEQMNKFVEVVTSIRNLRASVNIKPKDEVSVE 762
                              *****664320.....346678899**877755542.2.268**************************9987 PP

>> tRNA-synt_1g  tRNA synthetases class I (M)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.7   0.0   2.5e-11   6.4e-08       6     136 ..      47     196 ..      42     203 .. 0.74
   2 !   38.0   6.7   3.2e-13   8.1e-10     177     370 ..     358     575 ..     320     589 .. 0.82

  Alignments for each domain:
  == domain 1  score: 31.7 bits;  conditional E-value: 2.5e-11
                              --B--SS---HHHHHHHHHHHHHHHHHHHTT-EEEEEEEE---SHHHHHHHHH..........TTS-HHHHHHHH.......HHHH CS
             tRNA-synt_1g   6 alpYangklHlGhllevisaDifaRykrlrgeevlfvcgtDehGtpielkAek..........egvtpeelvekv.......heei 74 
                              + p ++gklH Gh+l     D+++R+kr++g+e+lf+ g D+ G++++   ek          ++ t ee+ +k+        ++i
  PHY93_03425|PHY93_03425  47 PPPNVTGKLHAGHALDLTTQDALIRFKRMKGYETLFLPGLDHAGIATQSVVEKmvweqekktrRDFTREEFLKKIwawkeeyGNAI 132
                              567799**************************************998765443111111111145666777766522211112222 PP

                              HHHHHH..TT---SEEEETTSHHHHHHHHHHHHHHHHTT-EEEEEEEEEEETTTTEEE-GGG-E CS
             tRNA-synt_1g  75 kelfkk..lnisfdkygrttseehkelvqeifkklkekgliyekeieqlycpkderflpdryve 136
                               ++ +    +  +d+ + t +   +++v+++f  l++++liy++++ + ++p+ ++  +d +ve
  PHY93_03425|PHY93_03425 133 LDQQRAmgASCDWDYLTFTLDPIPNQAVKKFFVDLYNQKLIYQSDYIVNWDPALQSAVSDAEVE 196
                              222233125677899999**************************************99999987 PP

  == domain 2  score: 38.0 bits;  conditional E-value: 3.2e-13
                              EEE.EEEEEE-GGGGHHHHHHHH.HH-TT.SHHHHHHHH.HHHHT----EE-ESS-SSS-EET....................... CS
             tRNA-synt_1g 177 evketehlffklskfekklkewieeeeke.leenvkkivkewlkegLkdlaisrdldwGipvP....................... 238
                              e   ++++f ++++++k+  e +e++e++  +++ +++  +wl++  kd++isr+l wG ++P                       
  PHY93_03425|PHY93_03425 358 EPMISKQWFVDVKDMSKRAVEAVEKDETKfYPKEWENTYFSWLRD-PKDWCISRQLWWGHQIPvfycdnnhqwasenneiqcptck 442
                              4445799****************99999999************99.8************999666666666666666666666888 PP

                              ....TECCEEE-HHHHHHHHHHHTTTTT-...TTSGGGG.G--S......EEEEEGGGHHHHHTHHHHHHHHTT----.S-EEEE- CS
             tRNA-synt_1g 239 ....gaekkvlYVWldAligYisatkelakkkgeeekwkeyWakdkevelvhfigkdiikFHtifwPaillgaelklp.kkvvahe 319
                                   ++  vl  W+   +  +s+++     + +e+k+++++ +      v + g dii F      ++ l ++ ++p k v+ h 
  PHY93_03425|PHY93_03425 443 sftvHQDPDVLDTWFSSGLWAMSTLGWPNADAMKEKKFETFFPN-----SVLITGFDIIFFWVARMMMMSLKTQNQVPfKDVYIHA 523
                              88888889999**************99998899999******44.....78899*****999887777766655555437899999 PP

                              -EEE-.-------------HHHHHHHH-HHHHHHHHHHHS-TTS-EEE-HHH CS
             tRNA-synt_1g 320 yltve.gkKlSkSrgvvvkakealerldadllRYylaaeapekkDldfswed 370
                               +  + g+K+SkS g+++++ e++e++ +d +R+ la+ a  ++ +++  e 
  PHY93_03425|PHY93_03425 524 IVRDKlGRKMSKSLGNGIDPFEMIEQYGTDSFRFSLASGAGYNRGINLDPER 575
                              8875559******************************988888877776655 PP

>> tRNA-synt_1_2  Leucyl-tRNA synthetase, Domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   1.5e-06    0.0038      11      49 ..     206     244 ..     201     250 .. 0.88
   2 !   32.3   0.0   2.5e-11   6.4e-08      86     146 ..     248     308 ..     245     332 .. 0.82
   3 ?   -2.4   0.0       1.1   2.9e+03      49      83 ..     725     759 ..     719     765 .. 0.77

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 1.5e-06
            tRNA-synt_1_2  11 eiefkveeseeklevfttrpdtlfGvtfvalapehplve 49 
                              ++++++++se++lev ttrp+tlfG t va+ pe +  +
  PHY93_03425|PHY93_03425 206 HLKYRIKDSEDTLEVATTRPETLFGDTAVAVNPEDERFK 244
                              57899****************************987655 PP

  == domain 2  score: 32.3 bits;  conditional E-value: 2.5e-11
            tRNA-synt_1_2  86 glkaihPitgekipiwvanyvlmeygtgavmavPahdqrDfeFakkynlpikqvikpedee 146
                              g +ai P+ ++++pi   ++v  e gtg++   P+hd +Dfe  k++nlpi+++i+++++ 
  PHY93_03425|PHY93_03425 248 GKTAIIPLCNREVPIIGDEHVDLEKGTGCLKVTPGHDFNDFEIGKRHNLPIINIINKDGTL 308
                              7899***************************************************965532 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 1.1
            tRNA-synt_1_2  49 eklaekkkelaafieevkkksesereletkekeGv 83 
                               + +++++++++f+e v++ ++ +++++ k k+ v
  PHY93_03425|PHY93_03425 725 IEFKNDQEQMNKFVEVVTSIRNLRASVNIKPKDEV 759
                              56688999999***999999999988887777655 PP

>> Val_tRNA-synt_C  Valyl tRNA synthetase tRNA binding arm
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.4   5.8   1.4e-15   3.5e-12       1      64 [.     822     885 ..     822     886 .] 0.98

  Alignments for each domain:
  == domain 1  score: 46.4 bits;  conditional E-value: 1.4e-15
          Val_tRNA-synt_C   1 DvekeraRLeKeLaklekeiervqkKLanpgFveKAPaeVVeeekaklaeleeqaeklkerLsk 64 
                              D+++ +aRLeKeLak + +  + ++K++n++F++ AP+++ ee+k+ + el e+ + l+e L++
  PHY93_03425|PHY93_03425 822 DLKEQIARLEKELAKSTIDYNKNESKINNENFMKNAPENIREETKQTKIELTEKIKSLTENLNQ 885
                              899**********************************************************987 PP

>> tRNA-synt_1e  tRNA synthetases class I (C) catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.1   0.0    0.0097        25      14      51 ..      46      83 ..      31     119 .. 0.86
   2 !   16.0   0.0   2.2e-06    0.0057     214     296 ..     492     576 ..     462     581 .. 0.81

  Alignments for each domain:
  == domain 1  score: 4.1 bits;  conditional E-value: 0.0097
                             EEEEBTTS--BHHHHHHHHHHHHHHHHHHHTT-EEEEE CS
             tRNA-synt_1e 14 vCGptvydashlGhaRslvafDilrrilqalgYdvqfv 51
                             v  p v  + h Gha  l + D l r+ +++gY+  f+
  PHY93_03425|PHY93_03425 46 VPPPNVTGKLHAGHALDLTTQDALIRFKRMKGYETLFL 83
                             45678999**************************9886 PP

  == domain 2  score: 16.0 bits;  conditional E-value: 2.2e-06
                              EGGGTTTHHHHHHHHHHHHSS.S--EEEEEEE--EEETTBE--TTTT---BHHHHHTTS-HHHHHHHHHS.S-TTS-EEE-HHHH CS
             tRNA-synt_1e 214 GiDLafPhhenelaqseaafd.kqlvkyflhnghlkiegekmsksLknfitikdvlkkfdprqlRlllls.ahyrsqldfkeell 296
                              G D++f      + +s  + +  ++   ++h+ +    g+kmsksL+n i   ++++++ +  +R+ l+s a y++ ++++ e +
  PHY93_03425|PHY93_03425 492 GFDIIFFWVARMMMMSLKTQNqVPFKDVYIHAIVRDKLGRKMSKSLGNGIDPFEMIEQYGTDSFRFSLASgAGYNRGINLDPERI 576
                              666666666666666655555478888999999999999****************************998356998888877665 PP

>> YlqD  YlqD protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   4.6   0.00014      0.37      24      85 ..     822     885 ..     820     886 .] 0.91

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00014
                     YlqD  24 qlqaqieqldkelqqLefqakrlikeikkqsaq..qieeiqeqvekekserlekkkqllqqleq 85 
                              +l++qi +l+kel++ +++ ++ +++i++++    + e+i+e+ ++ k e++ek+k+l+++l+q
  PHY93_03425|PHY93_03425 822 DLKEQIARLEKELAKSTIDYNKNESKINNENFMknAPENIREETKQTKIELTEKIKSLTENLNQ 885
                              5899*************99999999998887666799************************998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (886 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1040  (0.0580066); expected 358.6 (0.02)
Passed bias filter:                      510  (0.0284455); expected 358.6 (0.02)
Passed Vit filter:                        64  (0.00356964); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.85u 0.27s 00:00:01.12 Elapsed: 00:00:00.54
# Mc/sec: 4953.44
//
Query:       PHY93_21405|PHY93_21405  [L=339]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.1e-11   42.9  26.6    8.8e-11   42.1  26.6    1.4  1  FA_desaturase  Fatty acid desaturase
     0.0018   17.6   0.0      0.003   16.9   0.0    1.3  1  SBF_like       SBF-like CPA transporter family (DUF4137)


Domain annotation for each model (and alignments):
>> FA_desaturase  Fatty acid desaturase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.1  26.6   9.8e-15   8.8e-11       3     224 ..      50     247 ..      19     250 .. 0.79

  Alignments for each domain:
  == domain 1  score: 42.1 bits;  conditional E-value: 9.8e-15
            FA_desaturase   3 wlalllalllglfllgitgslaHeaaHgalfkkrklnrwlndllgallglplgisysawrisHlrHHaytngpdeDpdlaplalsr 88 
                              w ++l  +l+ + +++i +s+ H+++Hg+++     + ++n++lg ++g ++g++++ +   H  HH+y ++++ Dp +       
  PHY93_21405|PHY93_21405  50 WHGFL--FLFSIPTGWIIASFLHNTGHGNIK-----SLFINNFLGEFCGHFVGYGFTNFILVHTLHHNY-SDQQFDPVS-----PE 122
                              55555..444444345557*********999.....999************************77****.8888****9.....56 PP

            FA_desaturase  89 feglfryllrlllgllvlgwllalvlglwlrrlarrrapsksrrrkwrllawlllllawlglwlalllllglalllwlvplllllf 174
                              + ++  ++l+     + +  + ++    +l ++    ++ k++  +++++    l+l+ l++w++ll+ ++++  ++++p+++ ++
  PHY93_21405|PHY93_21405 123 GMSFLCFALAP----TKYMIARTK---DYLLFVHGKNKHYKVILNTQTVIFYINLILR-LIFWFLLLGPHFFL--FFYLPAVASNI 198
                              66666663332....222222222...3899999999999999999999999999997.88888888876666..88888888877 PP

            FA_desaturase 175 llalvlnyveHyggdwgerqvetsasirsaswllnlltgnlnyHieHHlf 224
                              l+    nyv H   ++g  +v++ +    + ++ n++t +  yH  HHl 
  PHY93_21405|PHY93_21405 199 LILAHINYVCHRDFEDGSVEVFNMDHNL-YYKIANFITIGGYYHKSHHLK 247
                              665555*****77555555555555555.8**********99******95 PP

>> SBF_like  SBF-like CPA transporter family (DUF4137)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0   3.3e-07     0.003      63     139 ..      18      95 ..       1     118 [. 0.81

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 3.3e-07
                 SBF_like  63 hllvllisflltplivlalvsllk.aaldpelliGllllaalPtTvssnvvmtsqAgGnealalceavignllGvflt 139
                               l   l  f+l +++ + l+ + + ++  p+l+ G+l+l+++Pt   ++  + +  +Gn     ++ ++g+++G f+ 
  PHY93_21405|PHY93_21405  18 LLKHYLRDFFLLSIVNYLLYTFHSpFHFHPQLWHGFLFLFSIPTGWIIASFLHNTGHGNIKSLFINNFLGEFCGHFVG 95 
                              555566679999*****99998874678999********************************************985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (339 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       632  (0.0352502); expected 358.6 (0.02)
Passed bias filter:                      325  (0.0181271); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 2208.08
//
Query:       PHY93_03430|PHY93_03430  [L=434]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.9e-40  138.5   0.0    4.4e-40  137.9   0.0    1.2  1  tRNA-synt_His   Histidyl-tRNA synthetase
    3.2e-11   43.2   0.1      8e-11   41.9   0.1    1.6  1  HGTP_anticodon  Anticodon binding domain
    3.8e-09   36.8   0.0    5.7e-09   36.2   0.0    1.5  1  tRNA-synt_2b    tRNA synthetase class II core domain (G, H, P


Domain annotation for each model (and alignments):
>> tRNA-synt_His  Histidyl-tRNA synthetase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  137.9   0.0   7.4e-44   4.4e-40       1     305 [.      10     320 ..      10     323 .. 0.85

  Alignments for each domain:
  == domain 1  score: 137.9 bits;  conditional E-value: 7.4e-44
                              T---EETCHHHHHHHHHHHHHHHHHHTT-EEEE--SEEEHHHHCTTSTCCHH..HS-EEE-TTSSEEEE-SSSHHHHHHHHHHHHH CS
            tRNA-synt_His   1 glrdllpeeaekieelrrrlldlfeswGYelVspPllEyldslltgagedld..qtfklvDqsgrllglRaDiTpqvaRiaahrln 84 
                              g+rd+ p++ + +  l + +++++es GYe    PllE ++ + +++ge+l   q++ ++D  +r +++R+++Tp  aR++a+  +
  PHY93_03430|PHY93_03430  10 GTRDFFPKDKRVRDYLFAVMTKTAESFGYESYDGPLLEEVELYKAKSGEELIneQIYSFTDRGERFVAIRPEMTPTLARMVAQIHR 95 
                              789***********************************************63369****************************998 PP

                              .TSS-EEEEEEEEEEESS-SSTT--CCEEEEEEEEESS-SHHHHHHHHHHHHHHHHHHCTS..SSEEEEEEETCHHHHHHH.HTT- CS
            tRNA-synt_His  85 .rerplRlcYaGsvlrtrpdglgrsreplQvGaEliGaegleadlEvlslllealeaaagv..kelrldlghvglvralle.aagl 166
                                ++plR+ ++ +++r ++ + gr re  Q+ + ++G+ g   ++E+l++++e+++ + g   +++++ l++ ++ +a+++  ++ 
  PHY93_03430|PHY93_03430  96 eSSKPLRWFSIPNLMRYEKPQRGRVREHWQLNCDVFGCPGRLGEVEILQVAVELFQ-SYGAnsTHFEILLNDRAIADAVFKtMMKA 180
                              8******************************************************7.877533889999**********9957889 PP

                              -HHHHHHHHHHHHCT-...HHHHHHHHHCCTTHHHCCHCC....HCCHCCCHHHHCHCCHCTHHHHHHHHHHHHHHHHHHHHHHHH CS
            tRNA-synt_His 167 sesleeallaalarkd...laelkelaaeaglkealrellkal.elygdaevleealealaaapalqaaldeleelaallealakp 248
                              +++++++l++++++ +    ++l+++ +e gl++ + +++ ++ +l+  +e ++  le+  ++++++++ + + e  + +      
  PHY93_03430|PHY93_03430 181 TSEQTHRLYKIVDKAKkitHEALQKMFGEVGLDSVAENIFYSYlQLKTFDE-VKIFLEKN-EQNEIAELFSIFVEFTKKAG----L 260
                              9999*******98754222579999****9999988888877767754433.33333322.33344444444444444333....5 PP

                              -TTEEE-TT--TTTTT--SEEEEEEETT..-SS-SEEEEEECTTTGGG.T---EEEEEEE CS
            tRNA-synt_His 249 evrvtlDlaelrgyeYytGlvFaayaeg..vgqaiarGGrYdelgaaf.grarpAtGfsl 305
                              +  +++D++ +rg++YytG+vF+++ ++   ++a+ +GG Y +l++ f  ++ p++Gf l
  PHY93_03430|PHY93_03430 261 SEYLKYDPTIVRGLDYYTGIVFEIFDKHpdNRRALCGGGAYANLLQIFnEEPLPGVGFGL 320
                              679**********************98733556***************8899******76 PP

>> HGTP_anticodon  Anticodon binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.9   0.1   1.3e-14     8e-11      10      92 ..     345     432 ..     340     433 .. 0.91

  Alignments for each domain:
  == domain 1  score: 41.9 bits;  conditional E-value: 1.3e-14
                              S.....HHHHHHHHHHHHHHHHTTTSEEEEESSSSTHHHHHHHHHHTT-SEEEEE-HHHHHHTEEEEEETTTCEEEEEETTHHHHH CS
           HGTP_anticodon  10 k.....aeeleeyakklaeeLraagirvelddsnesigkkireadllgipfavvvGekelekgtvtvrdrdtreqervsldelvek 90 
                                    ++++++ a kla+ Lr+++++++   +  +++k +  a+++g+ f+   G +el k+++++++++++eq ++ l++++e+
  PHY93_03430|PHY93_03430 345 VfvtfqEDDCLDAALKLAQLLRKNNLKIVTSLEPLKFKKVFPTAEKKGVKFVTLMGSDELAKNQIQLKNLASKEQHTLNLSDVEEI 430
                              33333345799************************************************************************999 PP

                              HH CS
           HGTP_anticodon  91 lk 92 
                              lk
  PHY93_03430|PHY93_03430 431 LK 432
                              86 PP

>> tRNA-synt_2b  tRNA synthetase class II core domain (G, H, P, S and T)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.2   0.0   9.6e-13   5.7e-09       1     132 [.      66     192 ..      66     408 .. 0.84

  Alignments for each domain:
  == domain 1  score: 36.2 bits;  conditional E-value: 9.6e-13
                              EEEEETTSEEEEE-SSSHHHHHHHHHHHEEEBGGSSEEEEEEEEEEBTTTSTBCTTTB-SEEEEEEEEEEESGGGHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             tRNA-synt_2b   1 YkledrndreyiLkPtneetfvelirdevlrskrLPlklyqiqtkyRdEksdsrGLlRvreFhqkdgyvfhaeaslddslrdlika 86 
                              Y + dr +r  +++P+ ++t+++++ +   r+   Pl+ + i  + R+Ek+ +rG  Rvre  q ++ vf+ +++l ++  +++++
  PHY93_03430|PHY93_03430  66 YSFTDRGERFVAIRPEMTPTLARMVAQI-HRESSKPLRWFSIPNLMRYEKP-QRG--RVREHWQLNCDVFGCPGRLGEV--EILQV 145
                              8999*********************955.666667****************.***..*****************88775..999** PP

                              HHHHHHHTT.SCEEEEEE.GTTSCBTTSEEEEEEEEETTTSEEEEEE CS
                              xxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             tRNA-synt_2b  87 isriferlglefraiiel.msaksadykdkkefeavsesltkgieig 132
                              + ++f++ g +  + + l +++  ad+  k+ ++a+se+  +  +i+
  PHY93_03430|PHY93_03430 146 AVELFQSYGANSTHFEILlNDRAIADAVFKTMMKATSEQTHRLYKIV 192
                              *********97655444336666677777777777777644444433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (434 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       621  (0.0346366); expected 358.6 (0.02)
Passed bias filter:                      410  (0.022868); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.61u 0.26s 00:00:00.87 Elapsed: 00:00:00.48
# Mc/sec: 2697.21
//
Query:       PHY93_03435|PHY93_03435  [L=296]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.035   14.4   0.3       0.22   11.8   0.1    2.3  2  Mnd1           Mnd1 HTH domain
      0.058   13.8   0.3       0.11   12.9   0.3    1.4  1  Ribosomal_L33  Ribosomal protein L33


Domain annotation for each model (and alignments):
>> Mnd1  Mnd1 HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.0       0.3   2.7e+03      20      42 ..     110     129 ..     102     133 .. 0.68
   2 ?   11.8   0.1   2.5e-05      0.22      10      42 ..     226     256 ..     223     259 .. 0.88

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 0.3
                     Mnd1  20 lapkekgivsqsVkdvlqsLvdD 42 
                               ++k+   +   Vk  lq+L++D
  PHY93_03435|PHY93_03435 110 AIKKA---RDPFVKWFLQALLQD 129
                              44442...347788899999987 PP

  == domain 2  score: 11.8 bits;  conditional E-value: 2.5e-05
                     Mnd1  10 efytlKeleklapkekgivsqsVkdvlqsLvdD 42 
                              +f+tlKe+  +apk++ +++++V+d+l   +d+
  PHY93_03435|PHY93_03435 226 KFFTLKEV--KAPKKAVVSKKTVEDILAPIIDE 256
                              69****98..5899899999*******999998 PP

>> Ribosomal_L33  Ribosomal protein L33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.3   1.3e-05      0.11       6      37 ..     135     163 ..     128     168 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 1.3e-05
                              EET.........EEEEETT..--S--EEEEEETTT CS
            Ribosomal_L33   6 eCtecksrn...YtttknkkntperLelkKYcprc 37 
                               +t     n   Y  +kn     erLelkK ++++
  PHY93_03435|PHY93_03435 135 GST-----NykdYLLQKNN-GRLERLELKKMDKKV 163
                              444.....3344*******.88********99987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (296 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       634  (0.0353617); expected 358.6 (0.02)
Passed bias filter:                      491  (0.0273858); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.27s 00:00:00.83 Elapsed: 00:00:00.47
# Mc/sec: 1907.79
//
Query:       PHY93_03440|PHY93_03440  [L=366]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.049   13.5   0.1       0.12   12.2   0.1    1.6  1  DUF473    Protein of unknown function (DUF473)


Domain annotation for each model (and alignments):
>> DUF473  Protein of unknown function (DUF473)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.1   6.6e-06      0.12       7      84 ..      19      98 ..      14     123 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 6.6e-06
                   DUF473  7 tGiseevi.ee.LkknklrtielrsahNvitllklevgdlvFlTsvsleDltkGteGiiaevlsveistkrvvessesfi 84
                              G+  +++  e L k+    i +      +t  +   g+l+F T+ +++++ kG+ G   ++   +  +k++v ++ +f+
  PHY93_03440|PHY93_03440 19 FGVEARIVlPElLTKQAANNIRFLTKDGKFTYYQKRSGSLLFSTNYKVQEMIKGDIGTAYTIFASSARKKMIVLQNTNFH 98
                             55554433244145566778888888888999999********************************9999999888665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (366 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       533  (0.0297284); expected 358.6 (0.02)
Passed bias filter:                      334  (0.018629); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.60u 0.25s 00:00:00.85 Elapsed: 00:00:00.49
# Mc/sec: 2244.04
//
Query:       PHY93_03445|PHY93_03445  [L=596]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (596 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       806  (0.0449551); expected 358.6 (0.02)
Passed bias filter:                      441  (0.024597); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.69u 0.27s 00:00:00.96 Elapsed: 00:00:00.47
# Mc/sec: 3826.44
//
Query:       PHY93_03450|PHY93_03450  [L=673]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.7e-31  106.9   2.0      2e-14   53.6   0.1    2.5  2  CCG              Cysteine-rich domain
    3.7e-11   43.0   9.0    5.1e-05   23.3   0.5    3.6  4  Fer4_10          4Fe-4S dicluster domain
    5.9e-11   42.7   3.6    5.9e-11   42.7   3.6    2.0  2  Fer4_8           4Fe-4S dicluster domain
    1.1e-09   38.2   6.3    1.1e-09   38.2   6.3    2.3  3  Fer4_9           4Fe-4S dicluster domain
    2.1e-07   31.7   7.0    2.1e-07   31.7   7.0    2.1  1  Fer4_16          4Fe-4S double cluster binding domain
    1.2e-06   28.9  22.0    1.2e-05   25.8  12.8    2.9  3  Fer4_7           4Fe-4S dicluster domain
    2.1e-06   27.3  18.4    0.00099   18.8   1.3    3.0  3  Fer4             4Fe-4S binding domain
    4.4e-06   26.4   4.9    7.5e-06   25.6   4.9    1.3  1  Nitrate_red_gam  Nitrate reductase gamma subunit
    9.2e-06   26.1  20.7    5.1e-05   23.7  11.3    3.5  4  Fer4_17          4Fe-4S dicluster domain
    2.3e-05   25.1   5.6     0.0052   17.6   0.1    3.2  3  Fer4_22          4Fe-4S dicluster domain
    9.1e-05   22.6   0.4       0.37   11.0   0.0    2.7  2  Fer4_18          4Fe-4S dicluster domain
     0.0004   21.1   1.7       0.19   12.5   0.2    2.7  2  Fer4_15          4Fe-4S single cluster domain
    0.00064   19.7   2.5    0.00064   19.7   2.5    3.2  2  Fer4_2           4Fe-4S binding domain
     0.0026   17.7  20.9      0.019   15.1   2.3    3.0  2  Fer4_6           4Fe-4S binding domain
     0.0063   16.6  10.6       0.26   11.4   1.1    3.0  2  Fer4_21          4Fe-4S dicluster domain
     0.0082   16.7   7.4       0.52   10.9   0.1    2.5  2  Fer4_13          4Fe-4S single cluster domain of Ferredoxin I
  ------ inclusion threshold ------
      0.012   16.0  17.7      0.041   14.4   1.9    2.8  2  Fer4_4           4Fe-4S binding domain
        2.2    9.4  26.8       0.68   11.0   5.0    3.1  2  Fer4_3           4Fe-4S binding domain


Domain annotation for each model (and alignments):
>> CCG  Cysteine-rich domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.6   0.1     2e-17     2e-14       1      84 [.     436     521 ..     436     522 .. 0.96
   2 !   52.6   0.2     4e-17     4e-14       2      84 ..     562     648 ..     561     649 .. 0.97

  Alignments for each domain:
  == domain 1  score: 53.6 bits;  conditional E-value: 2e-17
                      CCG   1 vayfdgCh.llraaypevrkalkkllealgveleel.ekesCCGagggrsgkeelaealakrnvetaeetgadaivtacpgCllql 84 
                              ++y++gC+  +++++++v k + +l++++gv + ++ + e+C+G++ +r g e  ++++a +n++++++++  ++vt+cp+Cl ++
  PHY93_03450|PHY93_03450 436 YLYYVGCAgSYDGSNQKVVKDTIALMKKAGVSFAVMgKTEKCNGDPVRRFGDEYSFNEIAIENIANMNQYDFGKVVTHCPHCLHTI 521
                              68*****8888888********************************************************************9987 PP

  == domain 2  score: 52.6 bits;  conditional E-value: 4e-17
                      CCG   2 ayfdgChllraa..ypevrkalkkllealgveleel.ekesCCGagggrsgkee.laealakrnvetaeetgadaivtacpgCllq 83 
                              +++d+C+l+r++  y ++r +l  + + +  e+++  +k+ CCG ggg++++e  + e +a+++++ + e+++++++tac+ C ++
  PHY93_03450|PHY93_03450 562 TFHDPCYLGRHHgqYNAPRAILNSIQGIKIKEMVRSkDKALCCGMGGGNMWYELpEGEHVANNRLRDIGEKEVNKLATACSYCMIN 647
                              8**********************************************************************************988 PP

                      CCG  84 l 84 
                              +
  PHY93_03450|PHY93_03450 648 F 648
                              7 PP

>> Fer4_10  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.6   0.2   8.5e-08   8.5e-05       4      24 ..     292     325 ..     289     345 .. 0.70
   2 !   23.3   0.5   5.1e-08   5.1e-05       5      33 ..     353     381 ..     350     398 .. 0.84
   3 ?   -1.7   0.0       3.3   3.3e+03      42      48 ..     511     517 ..     500     534 .. 0.66
   4 ?   -0.5   0.1       1.4   1.4e+03      27      48 ..     623     644 ..     604     650 .. 0.80

  Alignments for each domain:
  == domain 1  score: 22.6 bits;  conditional E-value: 8.5e-08
                  Fer4_10   4 idddtCirCgkCvkaCPadl.............t 24 
                              +d  +C++Cg+C+++CPa+l             t
  PHY93_03450|PHY93_03450 292 LDLLSCVECGRCTQVCPANLagkpldpkliitkT 325
                              57779*************8877777777766552 PP

  == domain 2  score: 23.3 bits;  conditional E-value: 5.1e-08
                  Fer4_10   5 dddtCirCgkCvkaCPadltsvgakgeas 33 
                              + d C+ Cg+C++ CPa++++v+ + ea+
  PHY93_03450|PHY93_03450 353 ELDACTTCGACMEECPANIEHVNLIMEAK 381
                              6799*************998887777665 PP

  == domain 3  score: -1.7 bits;  conditional E-value: 3.3
                  Fer4_10  42 vekCtgc 48 
                              v +C++c
  PHY93_03450|PHY93_03450 511 VTHCPHC 517
                              4455554 PP

  == domain 4  score: -0.5 bits;  conditional E-value: 1.4
                  Fer4_10  27 gakgeaseeeavrkkvekCtgc 48 
                              +++  + +e++v+k   +C  c
  PHY93_03450|PHY93_03450 623 NNRLRDIGEKEVNKLATACSYC 644
                              5566677788888888888887 PP

>> Fer4_8  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.7   3.6   5.9e-14   5.9e-11       2      65 .]     294     371 ..     293     371 .. 0.75
   2 ?   -2.5   0.0       7.3   7.2e+03      46      55 ..     636     645 ..     608     646 .. 0.53

  Alignments for each domain:
  == domain 1  score: 42.7 bits;  conditional E-value: 5.9e-14
                   Fer4_8   2 lekCieCgaCqsaCp.............vlrrtk.khlldargeaaedvqeeqvleeeealwsCttcgaCtevCpvgi 65 
                              l +C+eCg+C++ Cp             + ++++      a+ge+ +d + e  l +++ l++CttcgaC e+Cp +i
  PHY93_03450|PHY93_03450 294 LLSCVECGRCTQVCPanlagkpldpkliITKTRDlASATAAKGEKDADIWGETPLFTANELDACTTCGACMEECPANI 371
                              679***********9777777777776444444445555555555556666666666******************997 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 7.3
                   Fer4_8  46 ealwsCttcg 55 
                              + + +C+ c+
  PHY93_03450|PHY93_03450 636 KLATACSYCM 645
                              3344454444 PP

>> Fer4_9  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.2   6.3   1.1e-12   1.1e-09       2      49 ..     297     370 ..     296     372 .. 0.96
   2 ?   -2.7   0.0       6.8   6.8e+03      34      39 ..     512     517 ..     490     520 .. 0.60
   3 ?   -2.4   0.0       5.6   5.6e+03       4       9 ..     640     645 ..     622     647 .. 0.68

  Alignments for each domain:
  == domain 1  score: 38.2 bits;  conditional E-value: 1.1e-12
                   Fer4_9   2 CtgCgaCveaCpagvvvedaaerkarlraase..........................eaCigCgaCveaCpkg 49 
                              C++Cg+C+++Cpa+++ +   ++ +  + ++                           +aC++CgaC+e Cp +
  PHY93_03450|PHY93_03450 297 CVECGRCTQVCPANLAGKPLDPKLIITKTRDLasataakgekdadiwgetplftanelDACTTCGACMEECPAN 370
                              *************************9988887****************************************87 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 6.8
                   Fer4_9  34 eaCigC 39 
                              + C +C
  PHY93_03450|PHY93_03450 512 THCPHC 517
                              344444 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 5.6
                   Fer4_9   4 gCgaCv 9  
                               C +C+
  PHY93_03450|PHY93_03450 640 ACSYCM 645
                              455553 PP

>> Fer4_16  4Fe-4S double cluster binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.7   7.0   2.2e-10   2.1e-07       2      67 .]     297     370 ..     296     370 .. 0.69

  Alignments for each domain:
  == domain 1  score: 31.7 bits;  conditional E-value: 2.2e-10
                  Fer4_16   2 CgtCgkCaevCPtnaikekkekeiearecisy......ntaekkdlaede..ekckkqeaitgCdiCqdvCPan 67 
                              C++Cg+C++vCP+n   ++ ++++ + ++ +       + +++ d+  ++  ++ ++  a+t C++C++ CPan
  PHY93_03450|PHY93_03450 297 CVECGRCTQVCPANLAGKPLDPKLIITKTRDLasataaKGEKDADIWGETplFTANELDACTTCGACMEECPAN 370
                              *****************99777765555433344563333333343333322455566999***********98 PP

>> Fer4_7  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   1.7   6.1e-06    0.0061      29      51 ..     288     310 ..     263     311 .. 0.70
   2 !   25.8  12.8   1.2e-08   1.2e-05       1      52 []     296     371 ..     296     371 .. 0.62
   3 ?   -2.0   0.0       5.8   5.7e+03      34      41 ..     637     644 ..     615     654 .. 0.69

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 6.1e-06
                   Fer4_7  29 ekveidpekClgCgaCvavCPtg 51 
                              +k ++d  +C+ Cg+C +vCP++
  PHY93_03450|PHY93_03450 288 MKHNLDLLSCVECGRCTQVCPAN 310
                              66678888999999999999976 PP

  == domain 2  score: 25.8 bits;  conditional E-value: 1.2e-08
                   Fer4_7   1 rCigCgaCvaaCpvkaield..............eeenekgtekv..........eidpekClgCgaCvavCPtga 52 
                              +C++Cg+C+++Cp++    +               ++ +kg +++          + + + C++CgaC+++CP+++
  PHY93_03450|PHY93_03450 296 SCVECGRCTQVCPANLAGKPldpkliitktrdlaSATAAKGEKDAdiwgetplftANELDACTTCGACMEECPANI 371
                              5***********9887774433333332222222233333333334445556664556899************985 PP

  == domain 3  score: -2.0 bits;  conditional E-value: 5.8
                   Fer4_7  34 dpekClgC 41 
                               ++ C++C
  PHY93_03450|PHY93_03450 637 LATACSYC 644
                              55555555 PP

>> Fer4  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   1.3   9.9e-07   0.00099       6      21 ..     295     310 ..     291     311 .. 0.88
   2 !   17.5   4.4   2.6e-06    0.0026       6      21 ..     355     370 ..     353     371 .. 0.92
   3 ?   -2.8   0.2         7   6.9e+03      10      15 ..     640     645 ..     639     646 .. 0.54

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 9.9e-07
                              TTSSS-THHHHHSTTT CS
                     Fer4   6 ekCigCGaCvevCPvg 21 
                                C+ CG+C +vCP +
  PHY93_03450|PHY93_03450 295 LSCVECGRCTQVCPAN 310
                              57************87 PP

  == domain 2  score: 17.5 bits;  conditional E-value: 2.6e-06
                              TTSSS-THHHHHSTTT CS
                     Fer4   6 ekCigCGaCvevCPvg 21 
                              + C+ CGaC+e CP +
  PHY93_03450|PHY93_03450 355 DACTTCGACMEECPAN 370
                              89************98 PP

  == domain 3  score: -2.8 bits;  conditional E-value: 7
                              S-THHH CS
                     Fer4  10 gCGaCv 15 
                              +C +C+
  PHY93_03450|PHY93_03450 640 ACSYCM 645
                              455564 PP

>> Nitrate_red_gam  Nitrate reductase gamma subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.6   4.9   7.6e-09   7.5e-06      88     211 ..     125     257 ..      91     261 .. 0.78

  Alignments for each domain:
  == domain 1  score: 25.6 bits;  conditional E-value: 7.6e-09
          Nitrate_red_gam  88 lvaGliagvlalvGlllLllRRltnkrvraats..asDkvvlllLllqillGllttlvsal....dygseretispwlrslltlqp 167
                               ++  iag+++l+Gl+l   RR +++ v  +++  +++++++ +L++ ++lG l+  +  +     + ++  + + w   +++ + 
  PHY93_03450|PHY93_03450 125 SFLSDIAGIMVLLGLALAYKRRYVDRPVYLSATkpKQELYMYSMLVALVVLGYLIEGLRIVgnnfPINEAHWSPVGWSVAVVLSKI 210
                              456789********************99866552258899*************998777666644223345555667766666655 PP

          Nitrate_red_gam 168 d...aellaevplifklHvllglllfalfPFtrLvHvlsapleYllr 211
                                  +++  +  +++ lH++  ++ +a + ++++ H+l++p++ l+ 
  PHY93_03450|PHY93_03450 211 GlsdTSVAYTHRTLWFLHMVNTMVFIASLGYSKFSHILTLPFAALVT 257
                              43224444455667779************************987765 PP

>> Fer4_17  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   1.8     1e-05    0.0099      40      60 ..     291     311 ..     267     312 .. 0.74
   2 !   23.7  11.3   5.1e-08   5.1e-05       2      60 ..     297     371 ..     296     372 .. 0.71
   3 ?   -1.7   0.0       4.4   4.4e+03      12      50 ..     567     607 ..     565     608 .. 0.66
   4 ?   -1.5   0.0         4     4e+03       4       9 ..     640     645 ..     620     653 .. 0.74

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 1e-05
                  Fer4_17  40 eekaslCieCgeCerkCPqgl 60 
                              +    +C+eCg+C+++CP++l
  PHY93_03450|PHY93_03450 291 NLDLLSCVECGRCTQVCPANL 311
                              346789************998 PP

  == domain 2  score: 23.7 bits;  conditional E-value: 5.1e-08
                  Fer4_17   2 CiqCgyClpeCpsyea.ydnepkkllraakl........glleeaeke.......ekaslCieCgeCerkCPqgl 60 
                              C +Cg C+++Cp + a  + +pk ++ +++         g++++ +         ++ + C++Cg C ++CP+++
  PHY93_03450|PHY93_03450 297 CVECGRCTQVCPANLAgKPLDPKLIITKTRDlasataakGEKDADIWGetplftaNELDACTTCGACMEECPANI 371
                              ************999876677775555543334444334344444333778887789***************997 PP

  == domain 3  score: -1.7 bits;  conditional E-value: 4.4
                  Fer4_17  12 Cpsyeaydn..epkkllraaklglleeaekeekaslCieCg 50 
                              C  ++ +++   p+ +l+ ++  +++e+ +++   lC+++g
  PHY93_03450|PHY93_03450 567 CYLGRHHGQynAPRAILNSIQGIKIKEMVRSKDKALCCGMG 607
                              55555555411466788888776777777888888888876 PP

  == domain 4  score: -1.5 bits;  conditional E-value: 4
                  Fer4_17   4 qCgyCl 9  
                               C+yC+
  PHY93_03450|PHY93_03450 640 ACSYCM 645
                              455554 PP

>> Fer4_22  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.1   5.3e-06    0.0052      68      95 ..     281     310 ..     263     311 .. 0.73
   2 !    8.7   0.4    0.0031       3.1      78      96 .]     353     371 ..     345     371 .. 0.85
   3 ?   -2.0   0.1       6.9   6.9e+03      68      86 ..     589     607 ..     563     612 .. 0.79

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 5.3e-06
                  Fer4_22  68 hkls..efkekfgesgCvGCgRCieacpvk 95 
                               kls  ++k++ +  +Cv CgRC+++cp++
  PHY93_03450|PHY93_03450 281 GKLSelTMKHNLDLLSCVECGRCTQVCPAN 310
                              5555224556668999***********987 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 0.0031
                  Fer4_22  78 gesgCvGCgRCieacpvki 96 
                              +  +C+ Cg C+e cp++i
  PHY93_03450|PHY93_03450 353 ELDACTTCGACMEECPANI 371
                              5678***********9987 PP

  == domain 3  score: -2.0 bits;  conditional E-value: 6.9
                  Fer4_22  68 hklsefkekfgesgCvGCg 86 
                               k++e++++ ++  C+G g
  PHY93_03450|PHY93_03450 589 IKIKEMVRSKDKALCCGMG 607
                              5888999999999999987 PP

>> Fer4_18  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.0   0.0   0.00037      0.37      52      74 ..     288     310 ..     254     314 .. 0.81
   2 !    8.9   0.1    0.0017       1.7      54      76 ..     350     372 ..     324     404 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00037
                  Fer4_18  52 erkekgagdcidcescvkvcPtg 74 
                               +++ +   c++c+ c +vcP +
  PHY93_03450|PHY93_03450 288 MKHNLDLLSCVECGRCTQVCPAN 310
                              555666678************86 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 0.0017
                  Fer4_18  54 kekgagdcidcescvkvcPtgid 76 
                              ++++   c++c++c++ cP +i+
  PHY93_03450|PHY93_03450 350 TANELDACTTCGACMEECPANIE 372
                              5667788************9996 PP

>> Fer4_15  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.0   0.1    0.0096       9.6       4      38 ..     293     337 ..     291     348 .. 0.70
   2 !   12.5   0.2   0.00019      0.19       5      23 ..     354     372 ..     352     396 .. 0.91

  Alignments for each domain:
  == domain 1  score: 7.0 bits;  conditional E-value: 0.0096
                  Fer4_15   4 DrdaCigcglCvaea..........pevfeldedglasvllddge 38 
                              D   C  cg+C +++          p+++  + ++las ++++ge
  PHY93_03450|PHY93_03450 293 DLLSCVECGRCTQVCpanlagkpldPKLIITKTRDLASATAAKGE 337
                              6678***********666666666666666666666666655544 PP

  == domain 2  score: 12.5 bits;  conditional E-value: 0.00019
                  Fer4_15   5 rdaCigcglCvaeapevfe 23 
                               daC+ cg+C++e+p  +e
  PHY93_03450|PHY93_03450 354 LDACTTCGACMEECPANIE 372
                              59************98887 PP

>> Fer4_2  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.7   2.5   6.4e-07   0.00064       6      22 .]     293     309 ..     290     309 .. 0.90
   2 !   14.3   3.1   3.4e-05     0.034       7      22 .]     354     369 ..     347     369 .. 0.88

  Alignments for each domain:
  == domain 1  score: 19.7 bits;  conditional E-value: 6.4e-07
                   Fer4_2   6 dtdrCigCgaCvsaCPa 22 
                              d  +C++Cg C+++CPa
  PHY93_03450|PHY93_03450 293 DLLSCVECGRCTQVCPA 309
                              6679************8 PP

  == domain 2  score: 14.3 bits;  conditional E-value: 3.4e-05
                   Fer4_2   7 tdrCigCgaCvsaCPa 22 
                               d+C+ CgaC   CPa
  PHY93_03450|PHY93_03450 354 LDACTTCGACMEECPA 369
                              68*************8 PP

>> Fer4_6  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   2.3   1.9e-05     0.019       8      22 ..     296     310 ..     293     312 .. 0.92
   2 !   14.5   3.4   2.8e-05     0.028       7      22 ..     355     370 ..     351     373 .. 0.92

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.9e-05
                   Fer4_6   8 kCigCgdCvrvCPeg 22 
                              +C+ Cg+C+ vCP++
  PHY93_03450|PHY93_03450 296 SCVECGRCTQVCPAN 310
                              6************97 PP

  == domain 2  score: 14.5 bits;  conditional E-value: 2.8e-05
                   Fer4_6   7 dkCigCgdCvrvCPeg 22 
                              d+C+ Cg+C+  CP++
  PHY93_03450|PHY93_03450 355 DACTTCGACMEECPAN 370
                              89************98 PP

>> Fer4_21  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.4   1.1   0.00026      0.26       7      52 ..     296     308 ..     286     313 .. 0.63
   2 !   10.8   0.3   0.00041       0.4      38      53 ..     354     369 ..     332     376 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00026
                  Fer4_21   7 kCigCgkCliaCedtshqaieidaktvlkvvedeCvGCnlCssvCP 52 
                              +                                 Cv C  C++vCP
  PHY93_03450|PHY93_03450 296 S---------------------------------CVECGRCTQVCP 308
                              4.................................555555555555 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 0.00041
                  Fer4_21  38 edeCvGCnlCssvCPv 53 
                               d C+ C  C++ CP 
  PHY93_03450|PHY93_03450 354 LDACTTCGACMEECPA 369
                              489999*99*999995 PP

>> Fer4_13  4Fe-4S single cluster domain of Ferredoxin I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.9   0.1   0.00052      0.52       5      33 ..     296     324 ..     292     340 .. 0.81
   2 !    7.1   3.2    0.0081       8.1       4      18 ..     355     369 ..     353     374 .. 0.89

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00052
                  Fer4_13   5 tCiacgaCvelaPdvFeeddeggasvvae 33 
                              +C++cg C +++P   + ++ + + ++++
  PHY93_03450|PHY93_03450 296 SCVECGRCTQVCPANLAGKPLDPKLIITK 324
                              7************9998888887777766 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0081
                  Fer4_13   4 dtCiacgaCvelaPd 18 
                              d C+ cgaC e +P 
  PHY93_03450|PHY93_03450 355 DACTTCGACMEECPA 369
                              79************6 PP

>> Fer4_4  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   1.9   4.1e-05     0.041       3      16 ..     296     309 ..     294     313 .. 0.92
   2 ?   12.4   1.7   0.00018      0.18       2      16 ..     355     369 ..     354     375 .. 0.92

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 4.1e-05
                   Fer4_4   3 rCigCgsCvaaCPq 16 
                              +C++Cg+C+ +CP 
  PHY93_03450|PHY93_03450 296 SCVECGRCTQVCPA 309
                              6************6 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 0.00018
                   Fer4_4   2 erCigCgsCvaaCPq 16 
                              + C+ Cg+C+  CP 
  PHY93_03450|PHY93_03450 355 DACTTCGACMEECPA 369
                              89************6 PP

>> Fer4_3  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   5.7    0.0007       0.7       1      12 [.     297     308 ..     297     311 .. 0.93
   2 ?   11.0   5.0   0.00068      0.68       1      14 [.     357     370 ..     357     371 .. 0.92

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.0007
                   Fer4_3   1 CtgCgaCvevCP 12 
                              C+ Cg+C +vCP
  PHY93_03450|PHY93_03450 297 CVECGRCTQVCP 308
                              ************ PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.00068
                   Fer4_3   1 CtgCgaCvevCPvg 14 
                              Ct CgaC+e CP +
  PHY93_03450|PHY93_03450 357 CTTCGACMEECPAN 370
                              ************65 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (673 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       848  (0.0472977); expected 358.6 (0.02)
Passed bias filter:                      552  (0.0307881); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              18  [number of targets reported over threshold]
# CPU time: 0.73u 0.28s 00:00:01.01 Elapsed: 00:00:00.47
# Mc/sec: 4280.53
//
Query:       PHY93_03455|PHY93_03455  [L=348]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (348 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       402  (0.0224218); expected 358.6 (0.02)
Passed bias filter:                      356  (0.0198561); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.56u 0.27s 00:00:00.83 Elapsed: 00:00:00.46
# Mc/sec: 2269.46
//
Query:       PHY93_03460|PHY93_03460  [L=270]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.6e-29  100.6   0.0    1.2e-28  100.3   0.0    1.0  1  HSP33     Hsp33 protein


Domain annotation for each model (and alignments):
>> HSP33  Hsp33 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  100.3   0.0   6.5e-33   1.2e-28       3     265 ..       1     264 [.       1     265 [. 0.87

  Alignments for each domain:
  == domain 1  score: 100.3 bits;  conditional E-value: 6.5e-33
                              EEEEEETTTTEEEEEEE-HHHHHHHHHHHT--HHHHHHHHHHHHHHHHHHCCS-.T-EEEEEEEESSTT-EEEEEEETTSEEEEEE CS
                    HSP33   3 llrflledgsvRgrlvrltelveealkrhdlppavtallgealaaaallastlkfegrltlqikgdgplgllvaeadsdgevRgya 88 
                              l++f+ ++  + +++++ ++l++++  +h       +++  +++   l+ s lk  + l + i+++ p   l +e++++g++R ++
  PHY93_03460|PHY93_03460   1 LYSFIDQKDGFTLHFLEGQKLINDLAIIHSSRGGGFHYFRDTILSIQLMISYLKPGEGLGIYIDSEEPYFRLKVEMSEQGQMRTLL 86 
                              57899999**********************************************99****************************** PP

                              S-TT-.--.HH-SCEEEEEEE..TC..EEEEEEE-SSSSSHHHHHHHHHHCC-S-EEEEEEEEEETSCEEEEEEEEEEESTTTSCC CS
                    HSP33  89 rnpav.elpavgkGvlavtkdq.kegepyqGivelvsgeiaedlehYfaqSEQiptavalavlvdkrsvkaagGlllQlLPgadee 172
                                ++  e+p   +G+++++k++ +e +py++i+el++ + +e +++ +++S Q ++ + l+ + d +      ++++ +LP+ + +
  PHY93_03460|PHY93_03460  87 LPENFnEFPKSISGRCRIVKTMpNEAHPYTSIIELKDVNSHEVVNSILRESYQFNSEIFLSEESD-Q------SVMIMKLPDININ 165
                              *666678884448******87568999********9999************************88.5......8*******99944 PP

                              HHHHHH......HHHCCS-.-HHH.HC.CC-HHHHHHHHHHSTS--EEEEEEE-EE-----HHHHHHHHHTT-CHH.HHHH.HHCC CS
                    HSP33 173 liedle......erlkalaatlteeelleelpaeellerlfheedvevleekpvefkCrCsrervekaLkslgkee.leei.leed 250
                              +i++ +      +  ++ ++ ++e ++ ++++  ++++  +++ ++  l++++++fkC+Csrer+ + L s+ k+  l++i l  +
  PHY93_03460|PHY93_03460 166 KIKT-DynlsvlDYWQKHKEYISE-LFKQHTSEYDIIQSHLEKLGLLYLGSREIKFKCNCSRERMVQGLWSIAKTSgLDQIfLPGE 249
                              4444.3123333344444555555.443447779**************************************99988****55569 PP

                              TEEEEE-TTT--EEE CS
                    HSP33 251 gkievtCefCgkkYr 265
                               +ie +C++C++ Y 
  PHY93_03460|PHY93_03460 250 TEIETKCDYCKTSYL 264
                              *************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (270 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       554  (0.0308997); expected 358.6 (0.02)
Passed bias filter:                      355  (0.0198003); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.23s 00:00:00.80 Elapsed: 00:00:00.46
# Mc/sec: 1767.39
//
Query:       PHY93_03465|PHY93_03465  [L=758]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.2e-25   88.4   0.1    1.4e-24   87.4   0.1    1.5  1  PDDEXK_1  PD-(D/E)XK nuclease superfamily


Domain annotation for each model (and alignments):
>> PDDEXK_1  PD-(D/E)XK nuclease superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   87.4   0.1   7.6e-29   1.4e-24       2     254 ..     495     753 ..     494     754 .. 0.76

  Alignments for each domain:
  == domain 1  score: 87.4 bits;  conditional E-value: 7.6e-29
                 PDDEXK_1   2 lSvsrletfleCplrfflryllgl..reeeelea.p.dlGtlvHaaleefyewkkldke.dleelleeaveelwpellleeei..l 80 
                              +S+srl+ f++Cp++++++y++++  r++e+l+  + ++Gt+ H+++e+++  +k+d    +e ++ e++ +l+ e++ ++++  l
  PHY93_03465|PHY93_03465 495 ISASRLQIFMDCPRKYYFSYIEKIdhRPIERLKIaAdEMGTIEHEIIEKYFIGRKIDSSlIFEPIIHEEFCRLALEEFISSHKiiL 580
                              7***********************9988777777535***************6666666666666666666666665555555557 PP

                 PDDEXK_1  81 essarlrylaeklkevleklverlaeeleakrgfrpvalelefg.g.ekvrLkGriDrvd.dkegelriiDyKtgsappkskelae 163
                              +++++l  + e l +  ++ +e l    ++++    +++e+e + g +   L+G iD++   +++++ + D+K + a   sk+++ 
  PHY93_03465|PHY93_03465 581 NEKTKLTTFYELL-HFSQNGIEFLVNFCHKNQA---LGIEFESSlGeNPWGLVGSIDCLVyLADNKIALFDFKRSGAAIGSKRDTL 662
                              7777777777766.5556666777776666666...444432224335566*******98877778*******8888889998899 PP

                 PDDEXK_1 164 lkeglQlllYllalaegeelkeegepagalylrleepkvkdeevvkkm...alteeeleallqeleelaeeilag.efparpskk. 244
                                + +Q  +Yl ++++   +++        yl+l e  ++ +++++++   +l+e+++++++  le+++ee++++ +f+a+p ++ 
  PHY93_03465|PHY93_03465 663 AFDKIQIWAYLIVMQRF--QEKS--IHTWGYLNLSE--IEASQIYNEAearVLDEAKMDDFQICLEKVIEEMKREvHFQATPRTNk 742
                              99999**********98..3322..45566666644..4433333333444889*****************************99* PP

                 PDDEXK_1 245 .CeyCpyksvC 254
                               C++C+++  C
  PHY93_03465|PHY93_03465 743 vCDFCEVQLFC 753
                              ********999 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (758 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       606  (0.0338); expected 358.6 (0.02)
Passed bias filter:                      361  (0.020135); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.67u 0.30s 00:00:00.97 Elapsed: 00:00:00.47
# Mc/sec: 4861.86
//
Query:       PHY93_03470|PHY93_03470  [L=1088]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-52  179.4   2.1    3.1e-52  178.1   2.1    1.7  1  UvrD-helicase    UvrD/REP helicase N-terminal domain
    2.1e-22   80.1   0.0    9.5e-22   77.9   0.0    2.0  1  AAA_19           AAA domain
    6.4e-20   72.1   0.1    8.4e-19   68.5   0.1    2.5  1  PDDEXK_1         PD-(D/E)XK nuclease superfamily
    1.1e-17   64.5  15.5    1.7e-10   40.8   0.0    3.8  4  UvrD_C           UvrD-like helicase C-terminal domain
    3.5e-06   26.7   0.0      0.029   14.2   0.0    2.4  2  UvrD_C_2         UvrD-like helicase C-terminal domain
    1.7e-05   24.7   0.0       0.13   11.9   0.0    2.5  2  AAA_30           AAA domain
    2.5e-05   23.7   0.1    7.3e-05   22.2   0.0    1.7  2  DUF2800          Protein of unknown function (DUF2800)
  ------ inclusion threshold ------
      0.013   15.3   0.8         15    5.2   0.1    3.6  3  Viral_helicase1  Viral (Superfamily 1) RNA helicase
      0.022   14.4   0.0        1.2    8.7   0.0    2.8  2  AAA_12           AAA domain


Domain annotation for each model (and alignments):
>> UvrD-helicase  UvrD/REP helicase N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  178.1   2.1   1.5e-55   3.1e-52       2     308 ..      11     427 ..      10     432 .. 0.84

  Alignments for each domain:
  == domain 1  score: 178.1 bits;  conditional E-value: 1.5e-55
                              SHHHHHHHHS-SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGG..............EEEEESSHHHHHHHHHHHHHHHHHCC CS
            UvrD-helicase   2 npeqreaiaslggpilveAsAGsGKTfvlaerilrlikeeeiepdr..............ilvvTFTnkAaeElkeRieealkkae 73 
                              n+eq++ai + gg  l++A+AGsGKTfvl+e  ++l+ e + +  +              i+++TFT+kAa E+  R  +++++  
  PHY93_03470|PHY93_03470  11 NEEQQKAIYH-GGGKLLSAGAGSGKTFVLIEHLIYLLSEVQKKSASssewnkqisselskIVLMTFTKKAAGEMSVRMMKRIEEMI 95 
                              799*******.777789********************99875555567899**********************9987777555433 PP

                              HHCTT-H......HHHHHHHHCTTSEEEEHHHHHHHHHHHHHGGTTSHTTTEEECHHHHHHCCHHHHHHHHHSCHSHTTTTHHHHH CS
            UvrD-helicase  74 qessdde......rlrlalqnlseanisTlHsfcqkilkkeanrigldpnfrildeedeedlkqqellkelleksaddslnldkkk 153
                              +e  ++e        rl  qnls +ni T+H+fc+++l+   +++++ +++++ +  ++ + k q+++ + ++   +++++ld  +
  PHY93_03470|PHY93_03470  96 EEFQSNEsesdlaYWRLVRQNLSSLNITTIHGFCHRLLRL-GFWSDFPQEINLVSAIEH-KDKIQKIFDKWFT---ENQKSLDPIF 176
                              222222233558889999********************86.668888888888888884.4556666666665...3344444444 PP

                              HHHHHHHHHCCCCCH....................................................................... CS
            UvrD-helicase 154 leklikelsksrnik....................................................................... 168
                              l +      +   i+                                                                       
  PHY93_03470|PHY93_03470 177 LASSH--SLLAAMIEifsspelrvlwsnpklsasaeveidqfflqlvdvkgygslfedsmdlsapekekskkwyelliqfnevlin 260
                              44331..12222222445555557888888888888888888889999999999999999999999999999999*********** PP

                              ...........................HHHCCCHHHHHCHHHHHHHHHHHTTCCTTHHCHSSTSCSHHHHHHHHHHHHHHHHHHHH CS
            UvrD-helicase 169 ...........................keelslskskaeelrelvskakekqlspkelkkafekasdlqkkiaeflkeyqeqkkee 227
                                                         ke  s +k  ++ +re+ +++ke   + k l ++fe+ ++    i +++k + ++  e 
  PHY93_03470|PHY93_03470 261 hglisssnyqayndffktisrfpvtnsKEISSHQKVTLNAIREFKNDLKELSEDLKALSENFEIYKKWVATISHLFKYIDSHYFEI 346
                              *************************999999999999***************9999999999999999****************** PP

                              TCEEHHHHHHHHHHHHHHCHHHHHHHHHHSSEEEESSGGG-BHHHHHHHHHHHTTTTT.EEEEE-GGG--GGGGTB-THHHH CS
            UvrD-helicase 228 nalDfsdllhallelleeneelaealrerykeiliDEyQDTnkiQyrilkllasghee.lfmvGDpkQsIYgFRgAdielfl 308
                              + + fsdl +++le l++  e++++++e + +  +DE+QDT+ iQ++ilk l+ +++e +f+vGD kQ+IYgFRg+++++f 
  PHY93_03470|PHY93_03470 347 DGFSFSDLEYYVLEGLKK-LEVLAKVQESFSYFIVDEFQDTSFIQFEILKNLIGSKSEkIFCVGDRKQAIYGFRGGELQVFA 427
                              *****************8.899*******************************999888*******************9986 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.9   0.0   4.8e-25   9.5e-22       1     146 []      14     419 ..      14     419 .. 0.95

  Alignments for each domain:
  == domain 1  score: 77.9 bits;  conditional E-value: 4.8e-25
                   AAA_19   1 qreavealkekvllvtaGpGtGKTrv.lkhivallvelggvkp.............eeillvaftgrAakelrerlaalgae.... 68 
                              q++a+   + +  l+ aG+G+GKT v ++h + ll e+++ ++              +i+l++ft++Aa e++ r+ +  +e    
  PHY93_03470|PHY93_03470  14 QQKAI--YHGGGKLLSAGAGSGKTFVlIEHLIYLLSEVQKKSAsssewnkqisselSKIVLMTFTKKAAGEMSVRMMKRIEEmiee 97 
                              56666..56666799*********98357788888888877779*****************************9994433449999 PP

                   AAA_19  69 ........................atTiHrlal..................................................... 77 
                                                      +tTiH++                                                       
  PHY93_03470|PHY93_03470  98 fqsnesesdlaywrlvrqnlsslnITTIHGFCHrllrlgfwsdfpqeinlvsaiehkdkiqkifdkwftenqksldpiflasshsl 183
                              *******************************88***************************************************** PP

                   AAA_19  78 ...................................................................................... 77 
                                                                                                                    
  PHY93_03470|PHY93_03470 184 laamieifsspelrvlwsnpklsasaeveidqfflqlvdvkgygslfedsmdlsapekekskkwyelliqfnevlinhglisssny 269
                              ************************************************************************************** PP

                   AAA_19  78 ...............................................................................ldfddll 84 
                                                                                                               f dl+
  PHY93_03470|PHY93_03470 270 qayndffktisrfpvtnskeisshqkvtlnairefkndlkelsedlkalsenfeiykkwvatishlfkyidshyfeidgFSFSDLE 355
                              *******************************************************************************9999999 PP

                   AAA_19  85 tealelleeaeeekklqeee.llivDEfqdvdelqyrLlkallgek.kklllvGDpdQliyvfr 146
                                 le l++ e   k+qe + ++ivDEfqd++  q+++lk+l g+k +k++ vGD++Q+iy fr
  PHY93_03470|PHY93_03470 356 YYVLEGLKKLEVLAKVQESFsYFIVDEFQDTSFIQFEILKNLIGSKsEKIFCVGDRKQAIYGFR 419
                              999999999999999999999*************************999************996 PP

>> PDDEXK_1  PD-(D/E)XK nuclease superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.5   0.1   4.2e-22   8.4e-19       1     255 []     857    1080 ..     857    1080 .. 0.74

  Alignments for each domain:
  == domain 1  score: 68.5 bits;  conditional E-value: 4.2e-22
                 PDDEXK_1    1 rlSvsrletfleCplrfflryllgl.re................eeelea...p.dlGtlvHaaleefyewkkldkedleelle 63  
                               +lSv+rl t ++Cp++f+l+ + ++ +e                    e    +  +Gt vH++l +++        +  +l  
  PHY93_03470|PHY93_03470  857 ELSVTRLATIADCPFKFYLQNICKIdSEkkapnikfdeeesegeV---EIfysSkKRGTEVHSLLSKLFL-------KEIDLN- 929 
                               59***********************93345778988877774431...3355544999999999998888.......444444. PP

                 PDDEXK_1   64 eaveelwpellleeeilessarlrylaeklkevleklverlaeeleakrgfrpvalelefggekvrLkGriDrvd.dkegelri 146 
                                   ++ ++  ++e+i        +  + + +   k+ e+++e        r++++   fg     + G  D+v  dk+ e+++
  PHY93_03470|PHY93_03470  930 ----RVPAK--EKEKI-------SWAHNLADRFQNKY-EVISE--------RMIKFS-FFG---QMISGTPDLVFiDKDAEIVV 987 
                               ....44444..34444.......55555554444444.66666........889999.677...67*******99899999*** PP

                 PDDEXK_1  147 iDyKtgsappkskelaelkeglQlllYllalaegeelkeegepagalylrleepkvkdeevvkkmalteeeleallqeleelae 230 
                               +D+Ktg    +++e  e ++ +Ql+ Y++a+a  ++  +++ ++++ +l l      d+ +v+   l+ +e++++l  ++ + e
  PHY93_03470|PHY93_03470  988 WDFKTGI---RNPE-GEASYWFQLMSYAYAYASLKQFTPDK-KIELSLLYL------DQTEVATKNLSLNEITQILFSYWIKTE 1060
                               *******...4444.3557888************7666665.777777777......778888887888888777777777656 PP

                 PDDEXK_1  231 eilagefparpskkCeyCpyksvCr 255 
                               ++     +++ + +C++C+y+s+Cr
  PHY93_03470|PHY93_03470 1061 SLN----QVNSN-HCSHCEYSSICR 1080
                               666....66666.7**********7 PP

>> UvrD_C  UvrD-like helicase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.2      0.68   1.4e+03     244     293 ..      72     126 ..      34     127 .. 0.50
   2 ?   -2.2   3.6         1     2e+03     204     256 ..     266     316 ..      54     343 .. 0.60
   3 !   30.9   1.6     9e-11   1.8e-07       2     130 ..     440     590 ..     439     635 .. 0.77
   4 !   40.8   0.0   8.7e-14   1.7e-10     282     343 ..     691     785 ..     662     787 .. 0.78

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 0.68
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....xxxx.xxxxxxxxx RF
                   UvrD_C 244 LysllkelekkeeeeeveeklneileiatLseselee.....skkk.ekipiiTiH 293
                              L++++k++   e++ +++++++e++e+ + +ese++      ++++ ++ +i+TiH
  PHY93_03470|PHY93_03470  72 LMTFTKKAAG-EMSVRMMKRIEEMIEEFQSNESESDLaywrlVRQNlSSLNITTIH 126
                              2233333333.566666666777777775555554421111133446888888888 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 1
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   UvrD_C 204 qalvskyadlfkelaeklaelkekseskrkkeeklenlreLysllkelekkee 256
                               + +++y+d fk++++   +  ++ +s++  +  l+ +re+ + lkel+++ +
  PHY93_03470|PHY93_03470 266 SSNYQAYNDFFKTISRFPVTNSKEISSHQ--KVTLNAIREFKNDLKELSEDLK 316
                              33344455555555443333333333333..2255555555555555554322 PP

  == domain 3  score: 30.9 bits;  conditional E-value: 9e-11
                              xxxxxxxxxxxxxxxxxxxxxxxxxx.xxxx.xxx..............xxxxxxx....xxxxxxxxx....xxxxxxxxxxxxx RF
                   UvrD_C   2 vLekNyRStksLlkaankflenilnr.rale.kek..............ktvekge....kivvleaet....eeeEaekiaatik 63 
                               L+ N+RS +s+++  n+++e++++     e   +              +++  ge    k +++ +++    +++E+    + ik
  PHY93_03470|PHY93_03470 440 FLKNNFRSFSSIIEFNNQLFEQVFPLgLKFEgV-DphsvememqvipdkASAHLGEvvalKTEITGNNSdidlDQNESTVLSEHIK 524
                              69***********************95444452.1467899999999987777777888877777666522225789999999999 PP

                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   UvrD_C  64 allekneklediavLvRsnkdadkiskaLkkegipfnvvdeekfFkreeikdilaylkllankqdki 130
                               ll   ++l++i++L+R+ k + ++ ++L +++i f    + kf + + i  +l++++l +nk+d +
  PHY93_03470|PHY93_03470 525 ILL-ARTDLQTICILYRKLKPSSLLLEHLLNNDIAFAAQIKIKFTDDPLINIFLYLIELHLNKNDLN 590
                              999.9********************************999***********************9843 PP

  == domain 4  score: 40.8 bits;  conditional E-value: 8.7e-14
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxx..........................xxxxxx..........xxxxxxxxxx RF
                   UvrD_C 282 kkkekipiiTiHqAKGlEFdvVflagle.egtfP..........................syrskk..........ekrleEEkRl 330
                              + k++i i++ H++KGlEFd V l g+  +g++                           s               +k+ +E kRl
  PHY93_03470|PHY93_03470 691 NGKKRIIIMSAHASKGLEFDAVLLGGVHtNGRYNgmkdhvgkfphsfkwkktfdqkrffkS----PfyhleseiltLKDFSESKRL 772
                              4459**********************96355666777777777777777765555555550....0555555567799******** PP

                              xxxxxxxxxxxxx RF
                   UvrD_C 331 fYVaiTRAkkrLf 343
                              +YVa TRA k L 
  PHY93_03470|PHY93_03470 773 LYVACTRAVKHLA 785
                              ********99885 PP

>> UvrD_C_2  UvrD-like helicase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.9   0.0   0.00032      0.63       4      28 ..     698     722 ..     696     729 .. 0.76
   2 !   14.2   0.0   1.5e-05     0.029      32      49 ..     767     784 ..     757     786 .. 0.83

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00032
                 UvrD_C_2   4 altihkaQGsefpaVivfdpdlaaa 28 
                              +++ h ++G+ef+aV +  + +  +
  PHY93_03470|PHY93_03470 698 IMSAHASKGLEFDAVLLGGVHTNGR 722
                              7899***********9955555555 PP

  == domain 2  score: 14.2 bits;  conditional E-value: 1.5e-05
                 UvrD_C_2  32 elrrrlLYtavTRArekl 49 
                               +++rlLY+a+TRA ++l
  PHY93_03470|PHY93_03470 767 SESKRLLYVACTRAVKHL 784
                              4689**********9987 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.2   0.0   0.00023      0.45       3      63 ..      11      84 ..       9     131 .. 0.75
   2 !   11.9   0.0   6.6e-05      0.13      82     128 ..     367     414 ..     294     431 .. 0.83

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00023
                   AAA_30  3 naeQaaavealltsgdrvavltGpAGtGKttalka.lreaweaag.................grviglAptgkaAkvLa 63
                             n+eQ++a+   +++g   ++l ++AG+GKt++l + l  ++ + +                  ++++++ t+kaA +++
  PHY93_03470|PHY93_03470 11 NEEQQKAIY--HGGG---KLLSAGAGSGKTFVLIEhLIYLLSEVQkksasssewnkqisselSKIVLMTFTKKAAGEMS 84
                             678888873..3444...79***********975414444444334667888899999998888999999999988887 PP

  == domain 2  score: 11.9 bits;  conditional E-value: 6.6e-05
                   AAA_30  82 grarlepg.tllivDEagmvdtkqlaallkaaekagakvilvGDerQl 128
                                a+++++ + +ivDE   +++ q++ l + + +++ k+ +vGD++Q 
  PHY93_03470|PHY93_03470 367 VLAKVQESfSYFIVDEFQDTSFIQFEILKNLIGSKSEKIFCVGDRKQA 414
                              55678888899***********************************95 PP

>> DUF2800  Protein of unknown function (DUF2800)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0      0.85   1.7e+03     282     338 ..     288     344 ..     282     347 .. 0.74
   2 !   22.2   0.0   3.7e-08   7.3e-05      87     232 ..     944    1084 ..     924    1088 .] 0.83

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.85
                  DUF2800 282 kevpGfKlVeGrsnRkyt.deeavaealkaaglkeeqiyekklisitalekllgkkkf 338
                              ke++    V+  + R+++ d +++ e lka   +  +iy+k + +i++l k ++ + f
  PHY93_03470|PHY93_03470 288 KEISSHQKVTLNAIREFKnDLKELSEDLKALSEN-FEIYKKWVATISHLFKYIDSHYF 344
                              5666666677778899983557778888777654.59999999999999999987766 PP

  == domain 2  score: 22.2 bits;  conditional E-value: 3.7e-08
                  DUF2800   87 ekieeakkdalvlvEqrvdfskyvpegfGtaDvviia.ddvLeviDlKyGkg.vkVsaekNpQlalYAlGAleefdllydiktV 168 
                               +++ +++++ +v  E+ ++fs + +   Gt D+v i  d ++ v D+K G    + +a    Ql++YA  A+ +++ +   k++
  PHY93_03470|PHY93_03470  944 NLADRFQNKYEVISERMIKFSFFGQMISGTPDLVFIDkDAEIVVWDFKTGIRnPEGEASYWFQLMSYAY-AYASLKQFTPDKKI 1026
                               55566678889999**********************96789*********8868999***********9.567777788889** PP

                  DUF2800  169 rltIvQPrldnvseweisveeLlewaeevlkpkaekaaegegefvpgehcrFCkakatCrarae 232 
                               +l+       +v + ++s++e++++  ++  ++      ++ + v ++hc  C   + Cr+ ++
  PHY93_03470|PHY93_03470 1027 ELSLLYLDQTEVATKNLSLNEITQILFSYWIKT------ESLNQVNSNHCSHCEYSSICRKGEK 1084
                               *****9999999999999999999775533222......3346788899999999999997554 PP

>> Viral_helicase1  Viral (Superfamily 1) RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.0      0.12   2.4e+02       4      39 ..      27      60 ..      24      94 .. 0.66
   2 ?    4.7   0.0     0.011        22      48     102 ..     360     416 ..     302     447 .. 0.77
   3 ?    5.2   0.1    0.0077        15     212     232 ..     766     786 ..     755     788 .. 0.81

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.12
          Viral_helicase1  4 hGvpGcGKStlirkllrtsliltvnrptaelltegk 39
                             ++ +G+GK+ ++ + l     l+++++  +  +e+ 
  PHY93_03470|PHY93_03470 27 SAGAGSGKTFVLIEHLIY--LLSEVQKKSASSSEWN 60
                             67799***9998877755..4444444455555554 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.011
          Viral_helicase1  48 rtvdsflmalvkstkgkililDEylllhaGyill.laal...skaklvilfGDplQipf 102
                              +++++++  ++ + ++ + i+DE++      i++ ++++   sk++ ++++GD++Q  +
  PHY93_03470|PHY93_03470 360 EGLKKLEVLAKVQESFSYFIVDEFQDTSF--IQFeILKNligSKSEKIFCVGDRKQAIY 416
                              56666676666677899*******99885..5555444324468899*********766 PP

  == domain 3  score: 5.2 bits;  conditional E-value: 0.0077
          Viral_helicase1 212 isesrenllvAlTRhrkslvi 232
                              +ses+  l+vA+TR+ k l +
  PHY93_03470|PHY93_03470 766 FSESKRLLYVACTRAVKHLAY 786
                              56789************9987 PP

>> AAA_12  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.3   0.0     0.056   1.1e+02      14      38 ..     435     459 ..     424     541 .. 0.83
   2 ?    8.7   0.0   0.00061       1.2     135     192 ..     688     784 ..     634     786 .. 0.83

  Alignments for each domain:
  == domain 1  score: 2.3 bits;  conditional E-value: 0.056
                   AAA_12  14 kekvvlLdtqYRmhpeIsrfpsklf 38 
                              +e++ +L+ ++R+ ++I +f ++lf
  PHY93_03470|PHY93_03470 435 DENNYFLKNNFRSFSSIIEFNNQLF 459
                              678999**************99987 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 0.00061
                   AAA_12 135 eeeksekeievntvdgfQGrekdviilslVRsnekk.......................................eigflkderrl 181
                              +  + +k+i + +  +  G e d+++l  V++n +                                           f +++r l
  PHY93_03470|PHY93_03470 688 AGINGKKRIIIMSAHASKGLEFDAVLLGGVHTNGRYngmkdhvgkfphsfkwkktfdqkrffkspfyhleseiltLKDFSESKRLL 773
                              444455669999********************9444456677999999999999*****************9994445******** PP

                   AAA_12 182 NValTRAkskl 192
                               Va TRA ++l
  PHY93_03470|PHY93_03470 774 YVACTRAVKHL 784
                              *******9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1088 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       857  (0.0477997); expected 358.6 (0.02)
Passed bias filter:                      446  (0.0248759); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.93u 0.29s 00:00:01.22 Elapsed: 00:00:00.53
# Mc/sec: 6150.37
//
Query:       PHY93_03475|PHY93_03475  [L=233]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.4e-07   31.8   7.7    2.3e-07   31.1   7.7    1.5  1  OMP_b-brl  Outer membrane protein beta-barrel domain


Domain annotation for each model (and alignments):
>> OMP_b-brl  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.1   7.7   1.3e-11   2.3e-07      16     175 ..      49     232 ..       6     233 .] 0.61

  Alignments for each domain:
  == domain 1  score: 31.1 bits;  conditional E-value: 1.3e-11
                OMP_b-brl  16 assfggfyvggglglskvkvdgvgsdsgfgfgvgagyefndnvgvegglsysgdkdysgs...........gktdikinlls.... 86 
                              ++ ++++++ggg+++s +      + +++++++++gy++++ +g+eg +s++ +k++ +            g         +    
  PHY93_03475|PHY93_03475  49 KAGHVHVNAGGGITTSGAF-----V-NSTAIQGRVGYFISEDFGLEGIYSKNTGKENDTAkgvqtsgpqgtG---------Ttpfr 119
                              4445677777777544433.....2.589*********************9555444443355555543221.........12444 PP

                OMP_b-brl  87 ..vpvnagyafnlsds..........vlpyggaGlgytkvevdvsgng.......asdsdtdfglglgaGveyaladnwslkaeYr 153
                                v  ++g  f +s+           v+    +G+gy++++  +++          ++++t++g +++aG++++l + +s++ + +
  PHY93_03475|PHY93_03475 120 riVDSYMGAMFLWSPFyskintfnkiVYMDWIFGVGYAQLKEHNNKLKiqtgvdiTETTETHSGIMWEAGLKFYLDQSFSIRTDLT 205
                              44333344443333322222332336555555566655556665555566777789****************************** PP

                OMP_b-brl 154 ytdlksdadnd........lknntfqvgvg 175
                               ++++   +n+         +n + +v++g
  PHY93_03475|PHY93_03475 206 AVHYS---ANNisipgssfKSNYDATVSLG 232
                              99994...4553334434444455555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (233 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       399  (0.0222544); expected 358.6 (0.02)
Passed bias filter:                      288  (0.0160634); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.25s 00:00:00.80 Elapsed: 00:00:00.47
# Mc/sec: 1479.04
//
Query:       PHY93_05315|PHY93_05315  [L=797]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.8e-12   45.9   8.0    1.2e-11   44.2   8.0    1.7  1  Usher     Outer membrane usher protein


Domain annotation for each model (and alignments):
>> Usher  Outer membrane usher protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.2   8.0   6.6e-16   1.2e-11       3     530 ..     160     685 ..     158     698 .. 0.77

  Alignments for each domain:
  == domain 1  score: 44.2 bits;  conditional E-value: 6.6e-16
                              EEEEEEEETTEEEEEEE..EEEEEE----EEEEEEEEEEEEETTTTEEEEEEEEE--SSSS-.--EEEEEEEEE-GGGS-CCCCCE CS
                    Usher   3 nlqsGlNlgaWrLrsdsqlswsksegnenkwkssrtylqraipqlkskLtlGesytssdiFd.svsfrGvsLasddnmlPdslrgy 87 
                              + +s +N+++ ++ +++  ++ +++ n n w ++++ l+ + p+   +L +G+ +     F  s  + Gvs ++d ++ P+ + g 
  PHY93_05315|PHY93_05315 160 QTDSFMNIKGVVVENQM--NYLSTRPN-NPWYRQNSKLTYDRPNRMQRLEMGDINYPIIGFQqSRPLGGVSFYRDFSLNPYRATGP 242
                              66778899999999999..99999997.99************************99988786267899*****************9 PP

                              EEEEEEEESSSEEEEEECTTEEEEEEEE-SEEEEE-S---TTTTCEEEEEEEETTS-EEEEEEEE---TT---TT-EEEEEEEEEE CS
                    Usher  88 aPevrGiArtnAkVtirqnGyviYqtlVppGpFeiqdlnptsssgdLdVtveEadGsvqeftvpyasvplllreGqvrYklaaGry 173
                              +   +   +t++ V    n+ +   ++  pG + ++d++  ++  +  ++ ++  G+++  + + a    ll +G  rY+la+G +
  PHY93_05315|PHY93_05315 243 TSSFEYDVETRSLVRTYVNNTILKTEYMNPGRYSVKDIPLNNGINKIIIELTDDFGKKKILIFNEAGSLDLLAPGLNRYSLAVGYP 328
                              99999999***********************************9****************************************** PP

                              E-S.....STTB---EEEEEEEEEE-GGGEEEEEEEEEESSEEEEEEEEEEEEETTEEEEEEEEEEEEEETTSEEEEEEEEEEEEE CS
                    Usher 174 rsn.....nsqqekpffiqaevsyGlpngltlYgGlllaedYqAlalglgknlgelGalSvdvtqsrskldkqskekGqsyrlsYa 254
                              +++     + +++++ f ++ +++G+ + +++ g ++++++++ l      ++ ++G  ++d+  s+ k       +G+  +++Y+
  PHY93_05315|PHY93_05315 329 STDndtikKYDEKNGAFLTGFYQHGFGRRWSAGGYAQGNKNFTLLGTNNILAT-SYGNWAFDAVGSKNKN-----NTGEAAQVTYQ 408
                              99966776678999******************9999**999986666655555.89******99887654.....46788888886 PP

                              E-B-T...TSEEEEEEEEEEE-TT---HHHHSBSSEE----EETTS-EE..EEEEEEEEEEESSSEEEEEEEEEEEESSS--EEEE CS
                    Usher 255 kslne...tgtniqlagyrystkgfvtlsdaldarkkekdennltnnkk..eklqlnvsqslgdygslylsgsrqtYwktsqknkn 335
                               +l     ++++  + + +y +  f +                ++ +++     ++++s  l +  +l l g+ q+    ++ +  
  PHY93_05315|PHY93_05315 409 LNLFGsywYDSHTLTSKIEYRSPWFNEAG--------------ENFENRfdIITSISYSVPLFEKFNLALGGNYQNPRIGNDAKLG 480
                              55541111344444444444444444444..............4444442144567777778777888888888888888888888 PP

                              EEEEEEEEETT.EEEEEEEEEEE-SSS-SEEEEEEEEEEEESGGGS-TEEEEEEEEEESSSTEEEEEEEEEEESSTTEEEEEEEEE CS
                    Usher 336 lqlsyntnigr.vsvslslsaskseneneeddllslnlSiPlgrllsranasysltrnnsgktssetgvsgtllddnlsYsvnagl 420
                              +++s++ ++ +  s+++ l ++++en+     +l++ l++ +g+      +++   + +++++++   v  ++ ++ ++ +++a+ 
  PHY93_05315|PHY93_05315 481 FDTSLTAKVFEsSSLTFYLARNRDENKLW-STQLYFFLNMTFGD-----SSTFASAFYEKQSQTKRLTVIHDNGKQLNNLKMSASV 560
                              88888888777566666666666666553.99************.....5666666666777777788888888888999999999 PP

                              EESTSS-.EEEEEEEETSSEEEEEEEEEESS.....EEEEEEE.EEEEEE...EETTEEEEES---SSEEEEE-T.T-T....S-B CS
                    Usher 421 ssdgkes.lsanlsyqasygevslsysysrd.....ysqlnls.lsGgvv...ahakGvtlsqelgdtrvlikad.gva....gvr 491
                              +++  +  + + l+y+++++++ +  +  +       ++ +l  ls  +     ++ G  +s++++++ vl k + g +    gv+
  PHY93_05315|PHY93_05315 561 DNNISTRdGTLDLQYNTTLADLGAREEVIHIkgrqtGTKTSLRfLSAFAFvhnGTDAGFSISRPIANSYVLFKPQvGWKgqrfGVQ 646
                              99988878************9987654332220101233333312333331223566999***********985434551112566 PP

                              BTTSTT-B--TTSEEEES---TTS-EEEEB-GGGS-TTE CS
                    Usher 492 venqtgvktdrrGyavvpyltpYrenrveldtnklpedv 530
                               ++ t   t   G ++v+ ltpY+  r++ld+++l+   
  PHY93_05315|PHY93_05315 647 STGGTDSSTGLLGESLVSGLTPYQFRRLQLDPSQLEPGY 685
                              666667788889**********************98765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (797 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       436  (0.0243181); expected 358.6 (0.02)
Passed bias filter:                      344  (0.0191868); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.74u 0.29s 00:00:01.03 Elapsed: 00:00:00.51
# Mc/sec: 4722.65
//
Query:       PHY93_21410|PHY93_21410  [L=114]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
  ------ inclusion threshold ------
      0.024   14.5   0.0       0.27   11.1   0.0    2.3  2  DUF433       Protein of unknown function (DUF433)
       0.11   13.5   0.0       0.13   13.3   0.0    1.1  1  LAGLIDADG_1  LAGLIDADG endonuclease


Domain annotation for each model (and alignments):
>> DUF433  Protein of unknown function (DUF433)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.0     0.057   5.1e+02      15      27 ..      36      48 ..      35      50 .. 0.87
   2 ?   11.1   0.0   3.1e-05      0.27      22      49 ..      81     108 ..      74     110 .. 0.92

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.057
                             TTT--BTHHHHHH CS
                   DUF433 15 rgtRipVetilel 27
                             +g  i+V+ti+el
  PHY93_21410|PHY93_21410 36 KGDGIRVRTIAEL 48
                             6889******986 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 3.1e-05
                              HHHHHHHHTT--HHHHHHHH.TS-HHHH CS
                   DUF433  22 etilellaaGesieeiledyPdLtledi 49 
                              +++l + a+ +s +ei + yP+ + e i
  PHY93_21410|PHY93_21410  81 QDLLYMRAHKMSTQEIKKLYPHFSTEMI 108
                              58999******************99988 PP

>> LAGLIDADG_1  LAGLIDADG endonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   1.4e-05      0.13      27      92 ..      48     113 ..      25     114 .] 0.86

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.4e-05
                              EEEEEEEEEEGGGHHHHHHHHHHHTECEEEEETTTEEEEEEE-S.HHHHHHTHHHHHHHST-SSTHH CS
              LAGLIDADG_1  27 vqlefqielkkkdesllekikeylglgsikkrkkdkyvsyiisn.sskslkilipyfdkypllssKy 92 
                              + ++ q+ +++  + ++ekik+  +l+ +   ++d   +++ ++ s++++k+l+p+f +  +l +K 
  PHY93_21410|PHY93_21410  48 LPPQAQLPQHSTVLAFIEKIKANAELKAMDVLDQD-LLYMRAHKmSTQEIKKLYPHFSTEMILRKKS 113
                              66788999**************************9.9999999999************998888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (114 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       604  (0.0336884); expected 358.6 (0.02)
Passed bias filter:                      395  (0.0220313); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.27s 00:00:00.76 Elapsed: 00:00:00.46
# Mc/sec: 739.99
//
Query:       PHY93_03480|PHY93_03480  [L=471]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    6.8e-05   22.7   1.7      0.072   13.2   0.1    4.2  4  TPR_2        Tetratricopeptide repeat
     0.0019   17.8   3.3     0.0045   16.5   3.3    1.6  1  Cir_Bir_Yir  Plasmodium variant antigen protein Cir/Yir/Bir
     0.0042   16.9   1.5      0.054   13.3   0.4    3.1  3  TPR_1        Tetratricopeptide repeat
     0.0051   17.0   0.1      0.028   14.7   0.0    2.4  2  ANAPC3       Anaphase-promoting complex, cyclosome, subunit 3
  ------ inclusion threshold ------
      0.032   14.5   0.0       0.13   12.6   0.0    2.1  1  TPR_12       Tetratricopeptide repeat
      0.034   13.8   1.1      0.096   12.4   0.1    2.3  2  TPR_21       Tetratricopeptide repeat-like domain
      0.038   14.6   0.0       0.11   13.1   0.0    1.8  1  TPR_16       Tetratricopeptide repeat
      0.052   13.8   1.9         16    6.0   0.0    3.7  3  TPR_8        Tetratricopeptide repeat
       0.15   12.6   0.5       0.65   10.5   0.1    2.4  2  TPR_19       Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.2   0.1   3.6e-05     0.072       5      26 ..     105     126 ..     101     126 .. 0.90
   2 ?    3.5   0.0     0.048        95       2      33 ..     137     168 ..     136     169 .. 0.88
   3 ?   -2.3   0.2       3.3   6.6e+03      10      24 ..     196     210 ..     195     212 .. 0.72
   4 ?    2.0   0.0      0.14   2.9e+02       1      18 [.     221     238 ..     221     239 .. 0.91

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 3.6e-05
                    TPR_2   5 ynlGlayyklgdyeeAleafek 26 
                              y l++ ++++g+y++Al++++k
  PHY93_03480|PHY93_03480 105 YILARKAFRQGKYDQALKYLDK 126
                              78999**************987 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.048
                    TPR_2   2 ealynlGlayyklgdyeeAleafekAleldPn 33 
                               al   G +y  +++ e+A + f++++  +++
  PHY93_03480|PHY93_03480 137 FALLLEGSIYSVSKREEQATRVFKECVDVAET 168
                              688999*******************9987765 PP

  == domain 3  score: -2.3 bits;  conditional E-value: 3.3
                    TPR_2  10 ayyklgdyeeAleaf 24 
                              a ++l++++ A   +
  PHY93_03480|PHY93_03480 196 AQFALQKFDAAYSSY 210
                              567888888887665 PP

  == domain 4  score: 2.0 bits;  conditional E-value: 0.14
                    TPR_2   1 aealynlGlayyklgdye 18 
                              +e+l++ ++  ++l+dy+
  PHY93_03480|PHY93_03480 221 PEILFEEAWNSFYLKDYN 238
                              689**************7 PP

>> Cir_Bir_Yir  Plasmodium variant antigen protein Cir/Yir/Bir
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   3.3   2.3e-06    0.0045      81     131 ..     266     317 ..     260     329 .. 0.81

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 2.3e-06
              Cir_Bir_Yir  81 LsykLnlkkeeeitnlndFYnkyiennekYkkkindv.teyknykdlIdkkk 131
                              Lsy+      +++++++dFY+ky ++ne Ykk i++  ++yk+y  l++ + 
  PHY93_03480|PHY93_03480 266 LSYMELCLWGDSKKTVEDFYTKYEKDNEAYKKFIDSMgKDYKQYYSLVKDHS 317
                              566655555567789********************77357****99998765 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.4   2.7e-05     0.054       7      29 ..     107     129 ..     102     129 .. 0.84
   2 ?   -0.6   0.0       0.7   1.4e+03       3      33 ..     138     168 ..     136     169 .. 0.83
   3 ?   -0.8   0.2      0.77   1.5e+03      10      24 ..     196     210 ..     195     211 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 2.7e-05
                              HHHHHHHTT-HHHHHHHHHHHHH CS
                    TPR_1   7 lGnayfklgkydeAleyyekALe 29 
                              l+   f++gkyd+Al+y +k +e
  PHY93_03480|PHY93_03480 107 LARKAFRQGKYDQALKYLDKNIE 129
                              677789************99775 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.7
                              HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT CS
                    TPR_1   3 alynlGnayfklgkydeAleyyekALelnPn 33 
                              al   G +y   ++ ++A   +++++ + ++
  PHY93_03480|PHY93_03480 138 ALLLEGSIYSVSKREEQATRVFKECVDVAET 168
                              6666799999999*****9999999887765 PP

  == domain 3  score: -0.8 bits;  conditional E-value: 0.77
                              HHHHTT-HHHHHHHH CS
                    TPR_1  10 ayfklgkydeAleyy 24 
                              a f l+k+d A   y
  PHY93_03480|PHY93_03480 196 AQFALQKFDAAYSSY 210
                              6799*******8776 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.0   1.4e-05     0.028      52      81 ..      97     126 ..      87     170 .. 0.79
   2 ?   -2.5   0.0       3.2   6.3e+03      37      60 ..     304     326 ..     302     334 .. 0.69

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1.4e-05
                              HHC-HHHHHHHHHHHHHTT-HHHHHHHH-S CS
                   ANAPC3  52 nskslgcrylfAqcllkLkkyeeAiaaLek 81 
                              +s+ + +ry++A+ ++ ++ky++A++ L+k
  PHY93_03480|PHY93_03480  97 KSNAPTIRYILARKAFRQGKYDQALKYLDK 126
                              335567788888888888888888877765 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 3.2
                              T-HHHHHHHHHCTSHHHC-HHHHH CS
                   ANAPC3  37 gqykrAyellrkaklnskslgcry 60 
                              ++yk+ y l++++ +++k+++ ++
  PHY93_03480|PHY93_03480 304 KDYKQYYSLVKDH-SEGKTKKNAI 326
                              6899999999999.4445544443 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   6.6e-05      0.13      13      76 ..     111     167 ..     101     168 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 6.6e-05
                   TPR_12  13 lrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleealaiae 76 
                               +r+g+yd+Al++l+k +e ++       p    +l   g +y+ ++r e+A + ++e++++ae
  PHY93_03480|PHY93_03480 111 AFRQGKYDQALKYLDKNIEDWN-------PVKPFALLLEGSIYSVSKREEQATRVFKECVDVAE 167
                              689**************99994.......44556899999999988899999999999988876 PP

>> TPR_21  Tetratricopeptide repeat-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   4.8e-05     0.096     110     179 ..      98     169 ..      58     185 .. 0.81
   2 ?   -1.5   0.1      0.89   1.8e+03      60      91 ..     293     323 ..     282     376 .. 0.63

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 4.8e-05
                   TPR_21 110 elkalarlRLarvllaekkydeAlktLeakkee..afaalvaelrGDilvaqgkldeAraaYqaAlaaleek 179
                              + +  +r  Lar  + ++kyd+Alk L+++ e+    +  +  l+G i++  ++ ++A   +++ ++  e++
  PHY93_03480|PHY93_03480  98 SNAPTIRYILARKAFRQGKYDQALKYLDKNIEDwnPVKPFALLLEGSIYSVSKREEQATRVFKECVDVAETH 169
                              556678889******************988765114566788899999999999999999999988766655 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.89
                   TPR_21  60 eaaeeladeyggtaYaalaaLllAkaaveagd 91 
                              ea+++++d+ g+  Y ++ +L++ +++ ++++
  PHY93_03480|PHY93_03480 293 EAYKKFIDSMGKD-YKQYYSLVKDHSEGKTKK 323
                              4455555555544.555555554444433333 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   5.6e-05      0.11       3      51 ..     107     153 ..     105     164 .. 0.80

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 5.6e-05
                   TPR_16   3 laraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrla 51 
                              lar a+r+g+yd+A+++l+  ++++   P+ + Alll g ++ + +r +
  PHY93_03480|PHY93_03480 107 LARKAFRQGKYDQALKYLDKNIEDW--NPVKPFALLLEGSIYSVSKREE 153
                              7999**************7666666..4666669999999988877765 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.2     0.019        38       7      26 ..     107     126 ..     102     129 .. 0.81
   2 ?    6.0   0.0     0.008        16       4      33 ..     139     168 ..     138     169 .. 0.89
   3 ?   -1.8   0.2       2.6   5.1e+03      11      25 ..     197     211 ..     195     215 .. 0.79

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.019
                              HHHHHHHTT-HHHHHHHHHH CS
                    TPR_8   7 lgsiylklgdyeeAkeyyek 26 
                              l++  + +g+y++A +y+ k
  PHY93_03480|PHY93_03480 107 LARKAFRQGKYDQALKYLDK 126
                              56667889*********987 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.008
                              HHHHHHHHHHTT-HHHHHHHHHHHHHHHHH CS
                    TPR_8   4 yynlgsiylklgdyeeAkeyyekaleldpd 33 
                              +++ gsiy+  ++ e+A  +++++++ +++
  PHY93_03480|PHY93_03480 139 LLLEGSIYSVSKREEQATRVFKECVDVAET 168
                              66779********************99876 PP

  == domain 3  score: -1.8 bits;  conditional E-value: 2.6
                              HHHTT-HHHHHHHHH CS
                    TPR_8  11 ylklgdyeeAkeyye 25 
                               + l+++++A ++y 
  PHY93_03480|PHY93_03480 197 QFALQKFDAAYSSYL 211
                              577999999999886 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.1   0.00033      0.65      20      50 ..      96     126 ..      92     130 .. 0.88
   2 ?   -3.5   0.1       7.8   1.5e+04      47      64 ..     326     343 ..     325     344 .. 0.62

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00033
                   TPR_19  20 edpknaearllLAeallalgqldeAealLda 50 
                              e+ + + +r+ LA+  + +g +d+A + Ld+
  PHY93_03480|PHY93_03480  96 EKSNAPTIRYILARKAFRQGKYDQALKYLDK 126
                              55678999******************99985 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 7.8
                   TPR_19  47 lLdalpeedpddaryasL 64 
                              +L++++++ + d++y  L
  PHY93_03480|PHY93_03480 326 ILNTALASIARDPAYLEL 343
                              677777776667776554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (471 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1019  (0.0568353); expected 358.6 (0.02)
Passed bias filter:                      587  (0.0327403); expected 358.6 (0.02)
Passed Vit filter:                        65  (0.00362541); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.68u 0.27s 00:00:00.95 Elapsed: 00:00:00.47
# Mc/sec: 3022.92
//
Query:       PHY93_03485|PHY93_03485  [L=959]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-15   55.9  32.3     0.0063   16.6   0.3    9.9  9  TPR_8     Tetratricopeptide repeat
    2.7e-15   56.4   2.9      0.001   19.3   0.0    7.0  5  TPR_12    Tetratricopeptide repeat
    1.2e-14   53.2   0.2      0.057   13.5   0.0    6.4  5  TPR_7     Tetratricopeptide repeat
    7.4e-13   47.6  29.7     0.0032   17.5   0.0    9.5 10  TPR_2     Tetratricopeptide repeat
    1.7e-12   47.7   2.5      0.062   13.8   0.0    8.6 10  TPR_19    Tetratricopeptide repeat
    5.6e-12   44.9  22.7     0.0017   18.1   0.0    7.7  7  TPR_1     Tetratricopeptide repeat
    2.5e-10   39.9   0.2        1.6    8.7   0.0    6.7  7  TPR_10    Tetratricopeptide repeat
    7.3e-10   39.3   3.2        5.6    7.7   0.0    7.5  7  TPR_16    Tetratricopeptide repeat
    1.1e-08   35.2   3.0          1   10.4   0.0    7.6  8  TPR_14    Tetratricopeptide repeat
    1.9e-07   31.3  20.5      0.057   14.1   0.0    8.4  8  TPR_6     Tetratricopeptide repeat
    8.5e-07   29.1   7.1      0.019   15.2   0.0    5.6  7  ANAPC3    Anaphase-promoting complex, cyclosome, subunit 3
    2.2e-05   24.5   3.3          9    6.9   0.0    7.6  8  TPR_17    Tetratricopeptide repeat
     0.0026   17.9   8.3       0.39   10.9   0.0    4.1  4  KapB      Kinase associated protein B
     0.0047   16.6   9.3        7.1    6.4   0.2    5.2  5  TPR_11    TPR repeat
  ------ inclusion threshold ------
       0.21   12.0   1.1        2.2    8.7   0.1    2.6  2  FAM25     FAM25 family


Domain annotation for each model (and alignments):
>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.0       2.5     3e+03       1      16 [.      63      78 ..      61      80 .. 0.84
   2 !   13.8   1.4   4.2e-05      0.05       1      29 [.     126     154 ..     126     158 .. 0.93
   3 !   16.6   0.3   5.3e-06    0.0063       5      33 ..     168     196 ..     165     197 .. 0.90
   4 !   13.3   0.1   6.2e-05     0.074       5      33 ..     204     232 ..     203     233 .. 0.87
   5 !    7.0   0.1    0.0064       7.7       7      26 ..     246     265 ..     245     265 .. 0.90
   6 ?    4.6   0.0     0.039        47       2      24 ..     272     294 ..     271     302 .. 0.91
   7 !   13.5   0.1   5.2e-05     0.062       4      34 .]     404     434 ..     404     434 .. 0.94
   8 ?    2.5   0.0      0.18   2.1e+02       3      23 ..     606     626 ..     605     633 .. 0.83
   9 ?   -2.1   0.1       5.3   6.3e+03      10      27 ..     691     708 ..     690     708 .. 0.89

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 2.5
                             CCHHHHHHHHHHHTT- CS
                    TPR_8  1 aeayynlgsiylklgd 16
                             a++++ +g+++++l++
  PHY93_03485|PHY93_03485 63 AQVLLEKGRLLKDLEN 78
                             6788999999999987 PP

  == domain 2  score: 13.8 bits;  conditional E-value: 4.2e-05
                              CCHHHHHHHHHHHTT-HHHHHHHHHHHHH CS
                    TPR_8   1 aeayynlgsiylklgdyeeAkeyyekale 29 
                              a+ayy l++  ++ ++ e++k++++kal+
  PHY93_03485|PHY93_03485 126 ADAYYILAYNAKEIKQEEQSKKFFQKALD 154
                              78*************************97 PP

  == domain 3  score: 16.6 bits;  conditional E-value: 5.3e-06
                              HHHHHHHHHTT-HHHHHHHHHHHHHHHHH CS
                    TPR_8   5 ynlgsiylklgdyeeAkeyyekaleldpd 33 
                                l+ iy+++g ++++++ ye al+ ++d
  PHY93_03485|PHY93_03485 168 IALAEIYFNKGSFDKSMSLYEAALKSKRD 196
                              679**********************9886 PP

  == domain 4  score: 13.3 bits;  conditional E-value: 6.2e-05
                              HHHHHHHHHTT-HHHHHHHHHHHHHHHHH CS
                    TPR_8   5 ynlgsiylklgdyeeAkeyyekaleldpd 33 
                              +nlg+ y+k+g+y++A+  + +  +l+++
  PHY93_03485|PHY93_03485 204 FNLGWSYFKMGKYDKAIGIMTESYDLSKN 232
                              79**************9888888877765 PP

  == domain 5  score: 7.0 bits;  conditional E-value: 0.0064
                              HHHHHHHTT-HHHHHHHHHH CS
                    TPR_8   7 lgsiylklgdyeeAkeyyek 26 
                              l+  y + g+ +eA+++y+k
  PHY93_03485|PHY93_03485 246 LAFFYTEAGRSDEAIAFYKK 265
                              677899************98 PP

  == domain 6  score: 4.6 bits;  conditional E-value: 0.039
                              CHHHHHHHHHHHTT-HHHHHHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeAkeyy 24 
                              e++++ g+ ++++g+y +A++++
  PHY93_03485|PHY93_03485 272 EVMFKVGRYLKTQGKYAAAEKTL 294
                              789999**************986 PP

  == domain 7  score: 13.5 bits;  conditional E-value: 5.2e-05
                              HHHHHHHHHHTT-HHHHHHHHHHHHHHHHH. CS
                    TPR_8   4 yynlgsiylklgdyeeAkeyyekaleldpdn 34 
                              y++ g +y+  g+y++A+  y + ++ +++n
  PHY93_03485|PHY93_03485 404 YFHAGETYFAIGKYDKAVPLYAESIKRAQKN 434
                              899***********************99875 PP

  == domain 8  score: 2.5 bits;  conditional E-value: 0.18
                              HHHHHHHHHHHTT-HHHHHHH CS
                    TPR_8   3 ayynlgsiylklgdyeeAkey 23 
                              a yn++ +  ++gdy+++ ++
  PHY93_03485|PHY93_03485 606 AAYNIAVLFYETGDYKQMFSW 626
                              569************998665 PP

  == domain 9  score: -2.1 bits;  conditional E-value: 5.3
                              HHHHTT-HHHHHHHHHHH CS
                    TPR_8  10 iylklgdyeeAkeyyeka 27 
                              iyl   +++++k  + ka
  PHY93_03485|PHY93_03485 691 IYLAERQFDKSKNLLAKA 708
                              899999******999887 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.3   0.2    0.0099        12      19      73 ..     142     192 ..     124     196 .. 0.56
   2 !   19.3   0.0   8.6e-07     0.001       8      76 ..     169     231 ..     161     232 .. 0.88
   3 !   10.6   0.0   0.00044      0.52       6      68 ..     243     294 ..     237     302 .. 0.85
   4 !   13.4   0.0   6.1e-05     0.073      49      77 .]     405     433 ..     402     442 .. 0.75
   5 ?    4.0   0.0      0.05        60      46      63 ..     605     622 ..     590     634 .. 0.63

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.0099
                   TPR_12  19 ydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleeala 73 
                               +++ ++++kal+  r      +  +  ++++L+++y+  g +++  +l+e al+
  PHY93_03485|PHY93_03485 142 EEQSKKFFQKALDESR----SGSVVADKSRIALAEIYFNKGSFDKSMSLYEAALK 192
                              5555666666655553....22444555666666666666666666666666665 PP

  == domain 2  score: 19.3 bits;  conditional E-value: 8.6e-07
                   TPR_12   8 nlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleealaiae 76 
                               la++++  g +d++ +l+e+al   r    +++ +t    +nLg+ y+++g+y++A+ + +e++++ +
  PHY93_03485|PHY93_03485 169 ALAEIYFNKGSFDKSMSLYEAALKSKR----DKW-WT-KDAFNLGWSYFKMGKYDKAIGIMTESYDLSK 231
                              59********************99994....446.66.6789***********************9976 PP

  == domain 3  score: 10.6 bits;  conditional E-value: 0.00044
                   TPR_12   6 lnnlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlell 68 
                               + la +++++gr deA+++++k          +++  ++++++  gr++  +g+y++A++ l
  PHY93_03485|PHY93_03485 243 ERDLAFFYTEAGRSDEAIAFYKKN---------GKS--VSEVMFKVGRYLKTQGKYAAAEKTL 294
                              446999************999998.........778..9999999999999999999999866 PP

  == domain 4  score: 13.4 bits;  conditional E-value: 6.1e-05
                   TPR_12  49 rnLgrlyralgryeeAlelleealaiaek 77 
                              +  g++y+a g+y++A+ l+ e++++a+k
  PHY93_03485|PHY93_03485 405 FHAGETYFAIGKYDKAVPLYAESIKRAQK 433
                              56677777777777777777777777664 PP

  == domain 5  score: 4.0 bits;  conditional E-value: 0.05
                   TPR_12  46 ttlrnLgrlyralgryee 63 
                              t+ +n++ l++++g+y++
  PHY93_03485|PHY93_03485 605 TAAYNIAVLFYETGDYKQ 622
                              556666666666666654 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.7   0.0   0.00017      0.21       4      29 ..     169     194 ..     167     197 .. 0.85
   2 !   13.5   0.0   4.8e-05     0.057       3      26 ..     204     227 ..     204     235 .. 0.86
   3 ?    4.9   0.0     0.025        30       9      24 ..     250     265 ..     246     272 .. 0.90
   4 !   12.4   0.0   0.00011      0.13       4      26 ..     406     428 ..     404     438 .. 0.82
   5 ?    1.4   0.0      0.35   4.2e+02       3      17 ..     608     622 ..     606     623 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00017
                    TPR_7   4 nLarlysrlGdyeeAielyeqsLalt 29 
                              +La++y++ G +++  +lye++L   
  PHY93_03485|PHY93_03485 169 ALAEIYFNKGSFDKSMSLYEAALKSK 194
                              7********************66444 PP

  == domain 2  score: 13.5 bits;  conditional E-value: 4.8e-05
                    TPR_7   3 lnLarlysrlGdyeeAielyeqsL 26 
                              +nL+  y+++G+y++Ai++ ++s 
  PHY93_03485|PHY93_03485 204 FNLGWSYFKMGKYDKAIGIMTESY 227
                              59***************9998865 PP

  == domain 3  score: 4.9 bits;  conditional E-value: 0.025
                    TPR_7   9 ysrlGdyeeAielyeq 24 
                              y + G+ +eAi +y++
  PHY93_03485|PHY93_03485 250 YTEAGRSDEAIAFYKK 265
                              8999**********98 PP

  == domain 4  score: 12.4 bits;  conditional E-value: 0.00011
                    TPR_7   4 nLarlysrlGdyeeAielyeqsL 26 
                                +++y++ G+y++A+ ly +s+
  PHY93_03485|PHY93_03485 406 HAGETYFAIGKYDKAVPLYAESI 428
                              6799***************9954 PP

  == domain 5  score: 1.4 bits;  conditional E-value: 0.35
                    TPR_7   3 lnLarlysrlGdyee 17 
                              +n+a+l+ + Gdy++
  PHY93_03485|PHY93_03485 608 YNIAVLFYETGDYKQ 622
                              79***********97 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.2       1.6   1.9e+03      17      28 ..      98     109 ..      94     111 .. 0.85
   2 !    9.1   0.8    0.0013       1.6       1      29 [.     126     154 ..     126     158 .. 0.94
   3 !   11.1   0.1   0.00029      0.35       6      29 ..     169     192 ..     165     196 .. 0.92
   4 !   17.5   0.0   2.7e-06    0.0032       5      33 ..     204     232 ..     201     233 .. 0.87
   5 ?    4.2   0.2     0.047        56       7      26 ..     246     265 ..     244     265 .. 0.91
   6 ?    2.6   0.0      0.15   1.8e+02       2      22 ..     272     292 ..     271     299 .. 0.88
   7 !   14.2   0.2     3e-05     0.036       3      33 ..     403     433 ..     401     434 .. 0.90
   8 ?    2.4   0.0      0.17   2.1e+02       3      18 ..     606     621 ..     605     622 .. 0.90
   9 ?   -0.9   0.1       2.1   2.5e+03      10      27 ..     691     708 ..     690     708 .. 0.90
  10 ?   -2.3   0.0       5.6   6.6e+03       7      22 ..     762     777 ..     760     778 .. 0.85

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 1.6
                    TPR_2  17 yeeAleafekAl 28 
                              ++e +++f++A 
  PHY93_03485|PHY93_03485  98 FKESRRYFDQAQ 109
                              799*******96 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.0013
                    TPR_2   1 aealynlGlayyklgdyeeAleafekAle 29 
                              a+a+y l++ + + ++ e+ +++f+kAl 
  PHY93_03485|PHY93_03485 126 ADAYYILAYNAKEIKQEEQSKKFFQKALD 154
                              79*************************97 PP

  == domain 3  score: 11.1 bits;  conditional E-value: 0.00029
                    TPR_2   6 nlGlayyklgdyeeAleafekAle 29 
                              +l+++y+++g +++   ++e+Al+
  PHY93_03485|PHY93_03485 169 ALAEIYFNKGSFDKSMSLYEAALK 192
                              79*********************8 PP

  == domain 4  score: 17.5 bits;  conditional E-value: 2.7e-06
                    TPR_2   5 ynlGlayyklgdyeeAleafekAleldPn 33 
                              +nlG++y+k+g+y++A+  + ++  l  n
  PHY93_03485|PHY93_03485 204 FNLGWSYFKMGKYDKAIGIMTESYDLSKN 232
                              8****************988888887765 PP

  == domain 5  score: 4.2 bits;  conditional E-value: 0.047
                    TPR_2   7 lGlayyklgdyeeAleafek 26 
                              l+  y ++g+ +eA+++++k
  PHY93_03485|PHY93_03485 246 LAFFYTEAGRSDEAIAFYKK 265
                              788999************97 PP

  == domain 6  score: 2.6 bits;  conditional E-value: 0.15
                    TPR_2   2 ealynlGlayyklgdyeeAle 22 
                              e+ +  G+ +  +g+y+ A++
  PHY93_03485|PHY93_03485 272 EVMFKVGRYLKTQGKYAAAEK 292
                              678999*************98 PP

  == domain 7  score: 14.2 bits;  conditional E-value: 3e-05
                    TPR_2   3 alynlGlayyklgdyeeAleafekAleldPn 33 
                               ++  G+ y++ g+y++A+ ++ ++++ + +
  PHY93_03485|PHY93_03485 403 DYFHAGETYFAIGKYDKAVPLYAESIKRAQK 433
                              6999**********************98765 PP

  == domain 8  score: 2.4 bits;  conditional E-value: 0.17
                    TPR_2   3 alynlGlayyklgdye 18 
                              a yn++ + y+ gdy+
  PHY93_03485|PHY93_03485 606 AAYNIAVLFYETGDYK 621
                              679************8 PP

  == domain 9  score: -0.9 bits;  conditional E-value: 2.1
                    TPR_2  10 ayyklgdyeeAleafekA 27 
                              +y++  ++++ ++++ kA
  PHY93_03485|PHY93_03485 691 IYLAERQFDKSKNLLAKA 708
                              7999********999987 PP

  == domain 10  score: -2.3 bits;  conditional E-value: 5.6
                    TPR_2   7 lGlayyklgdyeeAle 22 
                              l+  +++ g+ ++A++
  PHY93_03485|PHY93_03485 762 LAIELENIGRVDDAKK 777
                              78889999*****997 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.0     0.034        41      22      41 ..      53      72 ..      41      74 .. 0.87
   2 ?   -0.2   0.0       1.2   1.5e+03      41      57 ..     105     121 ..     102     134 .. 0.82
   3 !   10.0   0.0    0.0008      0.96      12      57 ..     147     196 ..     140     201 .. 0.86
   4 !   13.8   0.0   5.2e-05     0.062       2      48 ..     211     263 ..     210     268 .. 0.93
   5 ?    1.5   0.1      0.37   4.4e+02      37      57 ..     283     303 ..     277     308 .. 0.73
   6 ?    1.0   0.0      0.51   6.1e+02       5      24 ..     415     434 ..     405     443 .. 0.62
   7 ?   -0.0   0.0       1.1   1.3e+03      13      58 ..     467     515 ..     465     526 .. 0.76
   8 ?   -2.8   0.0       7.9   9.5e+03      25      43 ..     604     622 ..     591     622 .. 0.82
   9 ?    3.7   0.0     0.074        89       7      53 ..     659     710 ..     653     711 .. 0.64
  10 ?   -1.8   0.0         4   4.8e+03      30      47 ..     761     778 ..     747     788 .. 0.83

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.034
                   TPR_19 22 pknaearllLAeallalgql 41
                              + +++ l++A++ll+ g+l
  PHY93_03485|PHY93_03485 53 SQRPDLMLRMAQVLLEKGRL 72
                             6799**************97 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 1.2
                   TPR_19  41 ldeAealLdalpeedpd 57 
                              +d+A++++  l++++p+
  PHY93_03485|PHY93_03485 105 FDQAQKTVLVLLKKFPK 121
                              89***********9998 PP

  == domain 3  score: 10.0 bits;  conditional E-value: 0.0008
                   TPR_19  12 alleqalqedpk....naearllLAeallalgqldeAealLdalpeedpd 57 
                              +++++al+e+       +  r++LAe++++ g +d+ + l +a++++++d
  PHY93_03485|PHY93_03485 147 KFFQKALDESRSgsvvADKSRIALAEIYFNKGSFDKSMSLYEAALKSKRD 196
                              788888888777777777888899**********************9998 PP

  == domain 4  score: 13.8 bits;  conditional E-value: 5.2e-05
                   TPR_19   2 laegdyaeAlalleqalqedpk......naearllLAeallalgqldeAealL 48 
                              +++g+y+ A+ ++++ ++ + +      +  +  +LA  + ++g+ deA+a  
  PHY93_03485|PHY93_03485 211 FKMGKYDKAIGIMTESYDLSKNskfidmSKSIERDLAFFYTEAGRSDEAIAFY 263
                              689****************999999999999999***************9975 PP

  == domain 5  score: 1.5 bits;  conditional E-value: 0.37
                   TPR_19  37 algqldeAealLdalpeedpd 57 
                               +g +++Ae++L++  + +++
  PHY93_03485|PHY93_03485 283 TQGKYAAAEKTLSDGAQFKQN 303
                              568888888888877666665 PP

  == domain 6  score: 1.0 bits;  conditional E-value: 0.51
                   TPR_19   5 gdyaeAlalleqalqedpkn 24 
                              g+y+ A++l+++ ++ + kn
  PHY93_03485|PHY93_03485 415 GKYDKAVPLYAESIKRAQKN 434
                              55566666665555554444 PP

  == domain 7  score: -0.0 bits;  conditional E-value: 1.1
                   TPR_19  13 lleqalqedpk...naearllLAeallalgqldeAealLdalpeedpdd 58 
                              ++e+ l+++pk   ++ +  +L  a+++ +++ +A  +L  +  + p +
  PHY93_03485|PHY93_03485 467 AYESFLSANPKgekSSVVYQRLFSAHMEKKNVSAASSVLMNYKSALPAE 515
                              6777788888888677777799*************99998777776664 PP

  == domain 8  score: -2.8 bits;  conditional E-value: 7.9
                   TPR_19  25 aearllLAeallalgqlde 43 
                                a+++ A + +++g++++
  PHY93_03485|PHY93_03485 604 KTAAYNIAVLFYETGDYKQ 622
                              568899999999***9986 PP

  == domain 9  score: 3.7 bits;  conditional E-value: 0.074
                   TPR_19   7 yaeAlalleqalqe....dpknaearllLA.eallalgqldeAealLdalpe 53 
                              ++e ++l e+++++    d kn ++    A  ++la  q+d+ ++lL+++p+
  PHY93_03485|PHY93_03485 659 FTESANLSEKIFDKlctgDSKNKRVFFKNAnVIYLAERQFDKSKNLLAKAPK 710
                              5555555555444344446666666664440479999***********9986 PP

  == domain 10  score: -1.8 bits;  conditional E-value: 4
                   TPR_19  30 lLAeallalgqldeAeal 47 
                              lLA+ l + g++d+A+++
  PHY93_03485|PHY93_03485 761 LLAIELENIGRVDDAKKV 778
                              567777788******986 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.4   1.5      0.03        36       1      29 [.     126     154 ..     126     157 .. 0.95
   2 !    8.6   0.1    0.0014       1.6       7      29 ..     170     192 ..     165     196 .. 0.91
   3 !   18.1   0.0   1.4e-06    0.0017       5      21 ..     204     220 ..     204     221 .. 0.96
   4 !    6.5   0.1    0.0067         8       7      26 ..     246     265 ..     245     266 .. 0.90
   5 ?   -1.3   0.0       1.8   2.2e+03      11      22 ..     281     292 ..     276     295 .. 0.83
   6 !   13.0   0.2   5.7e-05     0.068       6      34 .]     406     434 ..     403     434 .. 0.88
   7 ?    3.6   0.0     0.054        64       5      19 ..     608     622 ..     605     622 .. 0.90

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.03
                              HHHHHHHHHHHHHTT-HHHHHHHHHHHHH CS
                    TPR_1   1 akalynlGnayfklgkydeAleyyekALe 29 
                              a+a+y l++   + ++ ++  ++++kAL 
  PHY93_03485|PHY93_03485 126 ADAYYILAYNAKEIKQEEQSKKFFQKALD 154
                              89*************************96 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0014
                              HHHHHHHTT-HHHHHHHHHHHHH CS
                    TPR_1   7 lGnayfklgkydeAleyyekALe 29 
                              l+ +yf++g +d+    ye AL+
  PHY93_03485|PHY93_03485 170 LAEIYFNKGSFDKSMSLYEAALK 192
                              899******************98 PP

  == domain 3  score: 18.1 bits;  conditional E-value: 1.4e-06
                              HHHHHHHHHTT-HHHHH CS
                    TPR_1   5 ynlGnayfklgkydeAl 21 
                              +nlG  yfk+gkyd+A+
  PHY93_03485|PHY93_03485 204 FNLGWSYFKMGKYDKAI 220
                              6***************8 PP

  == domain 4  score: 6.5 bits;  conditional E-value: 0.0067
                              HHHHHHHTT-HHHHHHHHHH CS
                    TPR_1   7 lGnayfklgkydeAleyyek 26 
                              l+  y + g+ deA+++y+k
  PHY93_03485|PHY93_03485 246 LAFFYTEAGRSDEAIAFYKK 265
                              5677999***********98 PP

  == domain 5  score: -1.3 bits;  conditional E-value: 1.8
                              HHHTT-HHHHHH CS
                    TPR_1  11 yfklgkydeAle 22 
                              +  +gky  A++
  PHY93_03485|PHY93_03485 281 LKTQGKYAAAEK 292
                              5679******97 PP

  == domain 6  score: 13.0 bits;  conditional E-value: 5.7e-05
                              HHHHHHHHTT-HHHHHHHHHHHHHHSTTH CS
                    TPR_1   6 nlGnayfklgkydeAleyyekALelnPnn 34 
                                G +yf  gkyd+A+  y + ++   +n
  PHY93_03485|PHY93_03485 406 HAGETYFAIGKYDKAVPLYAESIKRAQKN 434
                              5599******************9988765 PP

  == domain 7  score: 3.6 bits;  conditional E-value: 0.054
                              HHHHHHHHHTT-HHH CS
                    TPR_1   5 ynlGnayfklgkyde 19 
                              yn+++++++ g+y++
  PHY93_03485|PHY93_03485 608 YNIAVLFYETGDYKQ 622
                              9************86 PP

>> TPR_10  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.2   0.0     0.004       4.8       7      31 ..     169     193 ..     165     196 .. 0.88
   2 !    8.7   0.0    0.0013       1.6       7      32 ..     205     230 ..     205     233 .. 0.90
   3 ?    4.1   0.0     0.037        44       7      26 ..     245     264 ..     244     265 .. 0.91
   4 ?    1.3   0.1      0.29   3.4e+02       9      23 ..     278     292 ..     276     292 .. 0.91
   5 !    8.7   0.0    0.0014       1.7       9      34 ..     408     433 ..     406     433 .. 0.92
   6 ?   -2.2   0.0       3.5   4.2e+03       4      19 ..     606     621 ..     605     631 .. 0.85
   7 ?   -1.7   0.0       2.4   2.9e+03      12      27 ..     653     668 ..     650     671 .. 0.85

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.004
                   TPR_10   7 NLanalrqrgrydeAealleealai 31 
                               La ++++ g +d+++ l+e al  
  PHY93_03485|PHY93_03485 169 ALAEIYFNKGSFDKSMSLYEAALKS 193
                              69********************986 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 0.0013
                   TPR_10   7 NLanalrqrgrydeAealleealair 32 
                              NL+  ++++g+yd+A  ++ e++++ 
  PHY93_03485|PHY93_03485 205 NLGWSYFKMGKYDKAIGIMTESYDLS 230
                              9***************9999988765 PP

  == domain 3  score: 4.1 bits;  conditional E-value: 0.037
                   TPR_10   7 NLanalrqrgrydeAealle 26 
                              +La  +++ gr deA a+++
  PHY93_03485|PHY93_03485 245 DLAFFYTEAGRSDEAIAFYK 264
                              69**************9987 PP

  == domain 4  score: 1.3 bits;  conditional E-value: 0.29
                   TPR_10   9 analrqrgrydeAea 23 
                              +++l  +g+y++Ae+
  PHY93_03485|PHY93_03485 278 GRYLKTQGKYAAAEK 292
                              8999*********96 PP

  == domain 5  score: 8.7 bits;  conditional E-value: 0.0014
                   TPR_10   9 analrqrgrydeAealleealairrr 34 
                              + ++++ g+yd+A+ l+ e++ + ++
  PHY93_03485|PHY93_03485 408 GETYFAIGKYDKAVPLYAESIKRAQK 433
                              779******************99875 PP

  == domain 6  score: -2.2 bits;  conditional E-value: 3.5
                   TPR_10   4 slnNLanalrqrgryd 19 
                              +  N+a++ +++g+y+
  PHY93_03485|PHY93_03485 606 AAYNIAVLFYETGDYK 621
                              6789*********997 PP

  == domain 7  score: -1.7 bits;  conditional E-value: 2.4
                   TPR_10  12 lrqrgrydeAeallee 27 
                              l+qr++++e+ +l e+
  PHY93_03485|PHY93_03485 653 LFQRRQFTESANLSEK 668
                              89********999776 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0       5.2   6.3e+03      32      50 ..      54      72 ..      52      76 .. 0.81
   2 ?    5.9   0.1     0.017        21      13      44 ..     105     136 ..      97     160 .. 0.82
   3 !    7.7   0.0    0.0047       5.6       2      27 ..     169     194 ..     168     198 .. 0.87
   4 !    7.4   0.0    0.0056       6.7       2      58 ..     205     264 ..     204     266 .. 0.91
   5 ?    2.2   0.0      0.25     3e+02       3      20 ..     277     294 ..     275     299 .. 0.83
   6 ?    5.8   0.0     0.018        22       4      27 ..     408     431 ..     404     435 .. 0.70
   7 ?    0.6   0.0       0.8   9.5e+02      33      51 ..     603     621 ..     575     622 .. 0.80

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 5.2
                   TPR_16 32 daaeAllllgdaalrqgrl 50
                             ++++ +l  ++++l++grl
  PHY93_03485|PHY93_03485 54 QRPDLMLRMAQVLLEKGRL 72
                             5778888999999999998 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.017
                   TPR_16  13 yddAaaaleaalkrdpssPdaaeAllllgdaa 44 
                              +d+A++    +lk++p+  + a+A++ l+  a
  PHY93_03485|PHY93_03485 105 FDQAQKTVLVLLKKFPKFDEKADAYYILAYNA 136
                              8999999999******************9876 PP

  == domain 3  score: 7.7 bits;  conditional E-value: 0.0047
                   TPR_16   2 alaraalragdyddAaaaleaalkrd 27 
                              ala ++++ g +d+   ++eaalk+ 
  PHY93_03485|PHY93_03485 169 ALAEIYFNKGSFDKSMSLYEAALKSK 194
                              79999999999999999999999986 PP

  == domain 4  score: 7.4 bits;  conditional E-value: 0.0056
                   TPR_16   2 alaraalragdyddAaaaleaalkrdpssPd...aaeAllllgdaalrqgrlaeAaalyr 58 
                              +l+ ++++ g+yd+A+   ++  ++ + s +          l+  + ++gr +eA+a+y+
  PHY93_03485|PHY93_03485 205 NLGWSYFKMGKYDKAIGIMTESYDLSKNSKFidmSKSIERDLAFFYTEAGRSDEAIAFYK 264
                              7999************99999999999999999999999999999999999999999997 PP

  == domain 5  score: 2.2 bits;  conditional E-value: 0.25
                   TPR_16   3 laraalragdyddAaaal 20 
                               +r++  +g+y++A++ l
  PHY93_03485|PHY93_03485 277 VGRYLKTQGKYAAAEKTL 294
                              689999999999999876 PP

  == domain 6  score: 5.8 bits;  conditional E-value: 0.018
                   TPR_16   4 araalragdyddAaaaleaalkrd 27 
                              +  +++ g+yd+A++++ + +kr+
  PHY93_03485|PHY93_03485 408 GETYFAIGKYDKAVPLYAESIKRA 431
                              556777777777777777777765 PP

  == domain 7  score: 0.6 bits;  conditional E-value: 0.8
                   TPR_16  33 aaeAllllgdaalrqgrla 51 
                                 A+++ ++++++ g+++
  PHY93_03485|PHY93_03485 603 KKTAAYNIAVLFYETGDYK 621
                              56899***********996 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0       7.6   9.1e+03       2      17 ..      57      72 ..      56      74 .. 0.82
   2 ?   -1.7   0.0       6.3   7.6e+03      14      35 ..     102     123 ..      96     154 .. 0.65
   3 !   10.4   0.0   0.00085         1       5      29 ..     168     192 ..     165     203 .. 0.87
   4 ?   -0.6   0.0       2.9   3.4e+03       7      23 ..     206     222 ..     203     232 .. 0.85
   5 ?    5.6   0.0     0.029        34       5      25 ..     244     264 ..     242     265 .. 0.91
   6 ?    3.7   0.0      0.11   1.4e+02       8      32 ..     278     301 ..     272     317 .. 0.81
   7 ?    6.1   0.0      0.02        24       5      32 ..     405     432 ..     402     436 .. 0.85
   8 ?   -1.3   0.0       4.8   5.8e+03      10      27 ..     691     708 ..     690     711 .. 0.87

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 7.6
                   TPR_14  2 eallalaeallalGdp 17
                             ++ l++a++ll+ G++
  PHY93_03485|PHY93_03485 57 DLMLRMAQVLLEKGRL 72
                             677899***9999975 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 6.3
                   TPR_14  14 lGdpdeAiallrralalaPdda 35 
                              ++ +d+A +    +l+++P+++
  PHY93_03485|PHY93_03485 102 RRYFDQAQKTVLVLLKKFPKFD 123
                              3345555555555566666653 PP

  == domain 3  score: 10.4 bits;  conditional E-value: 0.00085
                   TPR_14   5 lalaeallalGdpdeAiallrrala 29 
                               alae++++ G +d+++ l+++al+
  PHY93_03485|PHY93_03485 168 IALAEIYFNKGSFDKSMSLYEAALK 192
                              69*********************98 PP

  == domain 4  score: -0.6 bits;  conditional E-value: 2.9
                   TPR_14   7 laeallalGdpdeAial 23 
                              l++ ++  G++d+Ai +
  PHY93_03485|PHY93_03485 206 LGWSYFKMGKYDKAIGI 222
                              788999********976 PP

  == domain 5  score: 5.6 bits;  conditional E-value: 0.029
                   TPR_14   5 lalaeallalGdpdeAiallr 25 
                              ++la ++ ++G+ deAia ++
  PHY93_03485|PHY93_03485 244 RDLAFFYTEAGRSDEAIAFYK 264
                              6899**************997 PP

  == domain 6  score: 3.7 bits;  conditional E-value: 0.11
                   TPR_14   8 aeallalGdpdeAiallrralalaP 32 
                              +++l ++G++++A++ l +  + + 
  PHY93_03485|PHY93_03485 278 GRYLKTQGKYAAAEKTLSDGAQ-FK 301
                              8999**************9844.44 PP

  == domain 7  score: 6.1 bits;  conditional E-value: 0.02
                   TPR_14   5 lalaeallalGdpdeAiallrralalaP 32 
                                ++e ++a G++d+A+ l+ + +++a 
  PHY93_03485|PHY93_03485 405 FHAGETYFAIGKYDKAVPLYAESIKRAQ 432
                              567999****************999875 PP

  == domain 8  score: -1.3 bits;  conditional E-value: 4.8
                   TPR_14  10 allalGdpdeAiallrra 27 
                              ++la +++d++ +ll +a
  PHY93_03485|PHY93_03485 691 IYLAERQFDKSKNLLAKA 708
                              589999*****9999987 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.1       8.9   1.1e+04       3      14 ..      59      70 ..      57      83 .. 0.77
   2 !    8.3   0.6    0.0033         4       1      29 [.     127     155 ..     127     157 .. 0.94
   3 ?    2.5   0.0      0.23   2.7e+02       6      28 ..     170     192 ..     168     193 .. 0.91
   4 !   14.1   0.0   4.8e-05     0.057       4      23 ..     204     223 ..     203     225 .. 0.91
   5 ?    0.9   0.1      0.73   8.7e+02       8      25 ..     248     265 ..     246     265 .. 0.81
   6 ?    1.8   0.1       0.4   4.7e+02       1      23 [.     272     294 ..     272     296 .. 0.83
   7 !    7.1   0.1    0.0079       9.5       3      29 ..     404     430 ..     404     433 .. 0.87
   8 ?    3.1   0.0      0.15   1.8e+02       2      18 ..     606     622 ..     605     624 .. 0.90

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 8.9
                             HHHHHHHHHHHH CS
                    TPR_6  3 lyklalsyrklg 14
                             ++++a+ +++ g
  PHY93_03485|PHY93_03485 59 MLRMAQVLLEKG 70
                             889998888754 PP

  == domain 2  score: 8.3 bits;  conditional E-value: 0.0033
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   1 dAlyklalsyrklgdtdkAlealerlike 29 
                              dA+y la+  ++ ++ +++++ +++ ++e
  PHY93_03485|PHY93_03485 127 DAYYILAYNAKEIKQEEQSKKFFQKALDE 155
                              8***********88***********9986 PP

  == domain 3  score: 2.5 bits;  conditional E-value: 0.23
                              HHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   6 lalsyrklgdtdkAlealerlik 28 
                              la+ y++ g  dk++ ++e  +k
  PHY93_03485|PHY93_03485 170 LAEIYFNKGSFDKSMSLYEAALK 192
                              799****88**********9887 PP

  == domain 4  score: 14.1 bits;  conditional E-value: 4.8e-05
                              HHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   4 yklalsyrklgdtdkAleal 23 
                              ++l++sy+k+g++dkA+ ++
  PHY93_03485|PHY93_03485 204 FNLGWSYFKMGKYDKAIGIM 223
                              89**************9987 PP

  == domain 5  score: 0.9 bits;  conditional E-value: 0.73
                              HHHHHHHHHHHHHHHHHH CS
                    TPR_6   8 lsyrklgdtdkAlealer 25 
                                y ++g++d+A++ +++
  PHY93_03485|PHY93_03485 248 FFYTEAGRSDEAIAFYKK 265
                              5577889*******9986 PP

  == domain 6  score: 1.8 bits;  conditional E-value: 0.4
                              HHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   1 dAlyklalsyrklgdtdkAleal 23 
                              ++++k ++ ++ +g++++A ++l
  PHY93_03485|PHY93_03485 272 EVMFKVGRYLKTQGKYAAAEKTL 294
                              6899****66669******9987 PP

  == domain 7  score: 7.1 bits;  conditional E-value: 0.0079
                              HHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   3 lyklalsyrklgdtdkAlealerlike 29 
                              ++++++ y++ g++dkA+ ++ + ik+
  PHY93_03485|PHY93_03485 404 YFHAGETYFAIGKYDKAVPLYAESIKR 430
                              6899******88******999876665 PP

  == domain 8  score: 3.1 bits;  conditional E-value: 0.15
                              HHHHHHHHHHHHHHHHH CS
                    TPR_6   2 Alyklalsyrklgdtdk 18 
                              A y++a +++++gd+ +
  PHY93_03485|PHY93_03485 606 AAYNIAVLFYETGDYKQ 622
                              78*********99*987 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.0      0.18   2.2e+02      24      50 ..     165     192 ..     162     197 .. 0.82
   2 !   15.2   0.0   1.6e-05     0.019       4      57 ..     179     235 ..     176     266 .. 0.77
   3 ?   -0.9   0.0       1.7     2e+03      32      79 ..     249     294 ..     237     296 .. 0.62
   4 !    8.3   0.2    0.0022       2.6       5      50 ..     384     429 ..     380     438 .. 0.84
   5 ?    3.6   0.0     0.067        80      24      49 ..     605     630 ..     593     641 .. 0.85
   6 ?   -2.2   0.0       4.3   5.1e+03      23      51 ..     643     672 ..     629     691 .. 0.80
   7 ?   -1.9   0.0       3.4     4e+03      10      49 ..     668     708 ..     655     713 .. 0.64

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.18
                              HHHHHHHHHHHHTT-HHHHHHHHHCT.S CS
                   ANAPC3  24 edayllAlclylngqykrAyellrka.k 50 
                              +++ +lA+ +++ g +++ + l++ a k
  PHY93_03485|PHY93_03485 165 KSRIALAEIYFNKGSFDKSMSLYEAAlK 192
                              567889*************999998833 PP

  == domain 2  score: 15.2 bits;  conditional E-value: 1.6e-05
                              -HHHHHHHHHHHH...HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-HH CS
                   ANAPC3   4 nyknAiflaerlla..aetespedayllAlclylngqykrAyellrka.klnskslg 57 
                               +++ + l+e +l+  ++++  +da+ l+ +++++g+y++A+ +  ++ +l ++s+ 
  PHY93_03485|PHY93_03485 179 SFDKSMSLYEAALKskRDKWWTKDAFNLGWSYFKMGKYDKAIGIMTESyDLSKNSKF 235
                              56666777888885447788899************************9888888874 PP

  == domain 3  score: -0.9 bits;  conditional E-value: 1.7
                              HHHHTT-HHHHHHHHHCTSHHHC-HHHHHHHHHHHHHTT-HHHHHHHH CS
                   ANAPC3  32 clylngqykrAyellrkaklnskslgcrylfAqcllkLkkyeeAiaaL 79 
                               + ++g+ ++A+ +++k+   ++  ++ +  ++ l  ++ky  A+++L
  PHY93_03485|PHY93_03485 249 FYTEAGRSDEAIAFYKKN--GKSVSEVMFKVGRYLKTQGKYAAAEKTL 294
                              567778888888888888..2233334444444444556666666555 PP

  == domain 4  score: 8.3 bits;  conditional E-value: 0.0022
                              HHHHHHHHHHHH.HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCT.S CS
                   ANAPC3   5 yknAiflaerllaaetespedayllAlclylngqykrAyellrka.k 50 
                                n +f+++ ll   t+s ed +  +++++  g+y++A  l+ ++ k
  PHY93_03485|PHY93_03485 384 ASNEYFMINALL-NPTKSQEDYFHAGETYFAIGKYDKAVPLYAESiK 429
                              567899999999.999999999999*************988888755 PP

  == domain 5  score: 3.6 bits;  conditional E-value: 0.067
                              HHHHHHHHHHHHTT-HHHHHHHHHCT CS
                   ANAPC3  24 edayllAlclylngqykrAyellrka 49 
                               +ay  A  +y++g+yk+ + +++++
  PHY93_03485|PHY93_03485 605 TAAYNIAVLFYETGDYKQMFSWADRS 630
                              578889****************9988 PP

  == domain 6  score: -2.2 bits;  conditional E-value: 4.3
                              HHHHHHHHHHHHHTT-HHHHHHHHHCT.SH CS
                   ANAPC3  23 pedayllAlclylngqykrAyellrka.kl 51 
                              ++d  l++  l+++ q+++  +l +k  ++
  PHY93_03485|PHY93_03485 643 EKDYILFSTDLFQRRQFTESANLSEKIfDK 672
                              566777888899999999888888776544 PP

  == domain 7  score: -1.9 bits;  conditional E-value: 3.4
                              HHHHHHH.HHH--HHHHHHH.HHHHHHTT-.HHHHHHHHHCT CS
                   ANAPC3  10 flaerllaaetespedayll.Alclylngq.ykrAyellrka 49 
                               ++++l+ +    ++ ++++ A + yl+++ +++  +ll ka
  PHY93_03485|PHY93_03485 668 KIFDKLC-TGDSKNKRVFFKnANVIYLAERqFDKSKNLLAKA 708
                              4667777.5555556666666666665543266666666655 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.0         3   3.6e+03      14      29 ..      57      72 ..      55      78 .. 0.80
   2 ?    0.1   0.0       1.2   1.4e+03       7      31 ..     117     144 ..     114     147 .. 0.73
   3 ?   -1.7   0.0       4.4   5.3e+03      18      28 ..     169     179 ..     165     183 .. 0.68
   4 !    6.9   0.0    0.0075         9       2      33 ..     187     220 ..     186     221 .. 0.82
   5 ?    1.7   0.0      0.35   4.2e+02      19      33 ..     246     260 ..     244     261 .. 0.91
   6 ?    5.7   0.0     0.019        22       4      34 .]     258     292 ..     256     292 .. 0.90
   7 ?   -0.0   0.0       1.3   1.5e+03      16      32 ..     404     420 ..     394     421 .. 0.82
   8 ?    1.2   0.1      0.52   6.2e+02      15      31 ..     606     622 ..     605     623 .. 0.90

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 3
                   TPR_17 14 daynnLAelllknGdl 29
                             d++  +A++ll++G+l
  PHY93_03485|PHY93_03485 57 DLMLRMAQVLLEKGRL 72
                             6788899999999875 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 1.2
                   TPR_17   7 eldPnn...adaynnLAelllknGdlmt 31 
                              ++ P+    aday+ LA+  +++++ ++
  PHY93_03485|PHY93_03485 117 KKFPKFdekADAYYILAYNAKEIKQEEQ 144
                              6666666679*******97777776555 PP

  == domain 3  score: -1.7 bits;  conditional E-value: 4.4
                   TPR_17  18 nLAelllknGd 28 
                               LAe++ ++G 
  PHY93_03485|PHY93_03485 169 ALAEIYFNKGS 179
                              67888877775 PP

  == domain 4  score: 6.9 bits;  conditional E-value: 0.0075
                   TPR_17   2 ylkalel..dPnnadaynnLAelllknGdlmtAr 33 
                              y+ al+   d+   +  +nL++ + k G++++A+
  PHY93_03485|PHY93_03485 187 YEAALKSkrDKWWTKDAFNLGWSYFKMGKYDKAI 220
                              66666665577778889***************97 PP

  == domain 5  score: 1.7 bits;  conditional E-value: 0.35
                   TPR_17  19 LAelllknGdlmtAr 33 
                              LA ++ ++G++++A+
  PHY93_03485|PHY93_03485 246 LAFFYTEAGRSDEAI 260
                              9*************8 PP

  == domain 6  score: 5.7 bits;  conditional E-value: 0.019
                   TPR_17   4 kaleldPnn....adaynnLAelllknGdlmtArq 34 
                              +a++ +++n    +++++  +++l+ +G+++ A++
  PHY93_03485|PHY93_03485 258 EAIAFYKKNgksvSEVMFKVGRYLKTQGKYAAAEK 292
                              6888888888889*******************985 PP

  == domain 7  score: -0.0 bits;  conditional E-value: 1.3
                   TPR_17  16 ynnLAelllknGdlmtA 32 
                              y+  +e++  +G++++A
  PHY93_03485|PHY93_03485 404 YFHAGETYFAIGKYDKA 420
                              78889**********99 PP

  == domain 8  score: 1.2 bits;  conditional E-value: 0.52
                   TPR_17  15 aynnLAelllknGdlmt 31 
                              a +n A+l+++ Gd+++
  PHY93_03485|PHY93_03485 606 AAYNIAVLFYETGDYKQ 622
                              789***********986 PP

>> KapB  Kinase associated protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.2       4.3   5.2e+03      93     101 ..     145     153 ..      91     201 .. 0.60
   2 !    9.0   0.1    0.0012       1.5      15      90 ..     357     440 ..     348     452 .. 0.64
   3 ?   -0.4   0.2       1.1   1.3e+03      52      96 ..     491     530 ..     475     546 .. 0.57
   4 !   10.9   0.0   0.00032      0.39      68     106 ..     885     923 ..     873     926 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 4.3
                     KapB  93 ksefaeksl 101
                              +++f +k+l
  PHY93_03485|PHY93_03485 145 SKKFFQKAL 153
                              333333333 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.0012
                     KapB  15 eqkllvkvlaVlk.hPtqGDLHnpke.advvfFheRkALsy...kEktnvpke...avkpyegevpdYeeSlkealeklkekLk 90 
                              + ++l++ + V k + +qGD+ ++k  a + +F     L+    +E    + e   a+ +y+++vp Y+eS+k+a +++ +k++
  PHY93_03485|PHY93_03485 357 KMSALIQRQLVDKiYDHQGDIRDKKAdASNEYFMINALLNPtksQEDYFHAGEtyfAIGKYDKAVPLYAESIKRAQKNTDKKIE 440
                              556666666666645678888766541455555554444331112332222221226899***************999988875 PP

  == domain 3  score: -0.4 bits;  conditional E-value: 1.1
                     KapB  52 sykEktnvpkeavkpyegevpdYeeSlkealeklkekLkeeksef 96 
                              +++Ek+n     v +    +++Y+++l +  e++++ L++ ++ +
  PHY93_03485|PHY93_03485 491 AHMEKKN-----VSAASSVLMNYKSALPAENETQEKMLAQVMDFY 530
                              4455544.....444445555565555555555555554444444 PP

  == domain 4  score: 10.9 bits;  conditional E-value: 0.00032
                     KapB  68 egevpdYeeSlkealeklkekLkeeksefaeksleelee 106
                              eg+ p+Y +S k++++kl e L+++  +f e +++++e+
  PHY93_03485|PHY93_03485 885 EGKSPEYIASFKKSMTKLVEPLSKQARDFRETAINKIEK 923
                              6789*****************************999875 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.7   0.0    0.0098        12       2      23 ..     172     193 ..     171     197 .. 0.89
   2 ?    4.6   0.0     0.023        27       3      14 ..     209     220 ..     207     221 .. 0.91
   3 ?    1.4   0.1      0.22   2.7e+02       4      19 ..     250     265 ..     250     265 .. 0.92
   4 !    6.4   0.2    0.0059       7.1       1      22 [.     408     429 ..     408     434 .. 0.87
   5 ?   -3.0   0.1       5.2   6.2e+03      32      42 .]     608     618 ..     606     620 .. 0.81

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.0098
                   TPR_11   2 dayyeqGkyeeAieaYkkAlkl 23 
                               +y+ +G +++++  Y++Alk 
  PHY93_03485|PHY93_03485 172 EIYFNKGSFDKSMSLYEAALKS 193
                              59******************95 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.023
                   TPR_11   3 ayyeqGkyeeAi 14 
                               y++ Gky++Ai
  PHY93_03485|PHY93_03485 209 SYFKMGKYDKAI 220
                              69*********9 PP

  == domain 3  score: 1.4 bits;  conditional E-value: 0.22
                   TPR_11   4 yyeqGkyeeAieaYkk 19 
                              y+e G+ +eAi+ Ykk
  PHY93_03485|PHY93_03485 250 YTEAGRSDEAIAFYKK 265
                              8899********9997 PP

  == domain 4  score: 6.4 bits;  conditional E-value: 0.0059
                   TPR_11   1 GdayyeqGkyeeAieaYkkAlk 22 
                              G  y++ Gky++A+  Y + +k
  PHY93_03485|PHY93_03485 408 GETYFAIGKYDKAVPLYAESIK 429
                              789***********98877665 PP

  == domain 5  score: -3.0 bits;  conditional E-value: 5.2
                   TPR_11  32 ynLGlayykqG 42 
                              yn+++++y+ G
  PHY93_03485|PHY93_03485 608 YNIAVLFYETG 618
                              88888888877 PP

>> FAM25  FAM25 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.1      0.52   6.2e+02      25      40 ..     425     440 ..     417     446 .. 0.82
   2 ?    8.7   0.1    0.0018       2.2       6      48 ..     520     563 ..     516     572 .. 0.86

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.52
                    FAM25  25 adalKkAqesgekvvK 40 
                              a+ +K+Aq   +k++ 
  PHY93_03485|PHY93_03485 425 AESIKRAQKNTDKKIE 440
                              899**********986 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 0.0018
                    FAM25   6 eevvkevveHaKeaGEKA.iadalKkAqesgekvvKevtekvtn 48 
                              e +  +v++  K+ G+KA +a+ +Kk    + kv  e ++kv  
  PHY93_03485|PHY93_03485 520 EKMLAQVMDFYKDKGDKAsLANWVKKIDSNEFKVSPEYAKKVKT 563
                              667789***********989******999999999999998865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (959 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1086  (0.0605723); expected 358.6 (0.02)
Passed bias filter:                      431  (0.0240393); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                        16  (0.000892409); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.87u 0.27s 00:00:01.14 Elapsed: 00:00:00.51
# Mc/sec: 5693.47
//
Query:       PHY93_03490|PHY93_03490  [L=308]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.3e-13   50.2   2.8    0.00015   22.0   0.3    4.8  5  TPR_12    Tetratricopeptide repeat
    6.2e-13   49.0   0.9     0.0003   21.2   0.0    3.5  3  TPR_19    Tetratricopeptide repeat
    4.3e-12   45.2   7.7    0.00013   21.9   0.0    5.1  5  TPR_2     Tetratricopeptide repeat
    3.1e-11   43.7   0.0     0.0098   16.5   0.0    3.6  3  TPR_16    Tetratricopeptide repeat
    4.3e-11   42.1  17.4    1.9e-06   27.4   0.2    4.6  5  TPR_1     Tetratricopeptide repeat
      2e-10   40.3   6.0      0.056   13.8   0.0    5.6  5  TPR_17    Tetratricopeptide repeat
    1.4e-09   37.4   5.0    0.00071   19.6   0.0    4.5  4  TPR_8     Tetratricopeptide repeat
    1.5e-09   37.9   2.5    7.1e-07   29.4   2.5    3.1  3  ANAPC3    Anaphase-promoting complex, cyclosome, subunit 3
    1.1e-08   34.5   0.5    0.00068   19.5   0.0    4.6  5  TPR_7     Tetratricopeptide repeat
    4.4e-07   30.2   0.0       0.83   10.6   0.0    4.4  4  TPR_14    Tetratricopeptide repeat
    6.5e-07   29.0   0.0     0.0011   18.8   0.0    3.7  4  TPR_10    Tetratricopeptide repeat
      2e-06   27.3   5.1      0.038   13.7   0.1    5.1  6  TPR_11    TPR repeat
    3.2e-05   23.3   2.1    0.00048   19.4   2.0    2.9  2  TPR_15    Tetratricopeptide repeat
    0.00015   22.2   8.0          5    8.0   0.1    5.5  6  TPR_6     Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.028   14.3   0.1      0.087   12.7   0.1    1.9  2  ATP13     Mitochondrial ATPase expression
       0.12   12.0   0.0       0.24   11.0   0.0    1.4  1  CDKN3     Cyclin-dependent kinase inhibitor 3 (CDKN3)
       0.14   12.3   0.0        1.6    8.9   0.0    2.4  3  TPR_9     Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0       5.7     6e+03      39      54 ..      69      84 ..      63      88 .. 0.71
   2 !   22.0   0.3   1.4e-07   0.00015      12      75 ..     102     157 ..     100     159 .. 0.84
   3 !   18.5   0.0   1.7e-06    0.0018      49      74 ..     165     190 ..     164     192 .. 0.86
   4 ?    5.1   0.0     0.027        28      18      68 ..     210     252 ..     193     253 .. 0.61
   5 ?   -2.0   0.0       4.5   4.7e+03      50      68 ..     268     286 ..     265     293 .. 0.62

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 5.7
                   TPR_12 39 pdhpltattlrnLgrl 54
                               h+l+ ++l nL+ +
  PHY93_03490|PHY93_03490 69 SSHALVKESLANLSAV 84
                             6688888888888876 PP

  == domain 2  score: 22.0 bits;  conditional E-value: 1.4e-07
                   TPR_12  12 vlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleealaia 75 
                              +++++ ++deAl++ + ++ ++     +++    ++ + Lg++y++  +y++A+ +++++ +++
  PHY93_03490|PHY93_03490 102 IECYQNKFDEALKIADDVYSQY-----KNN---TSYWNQLGTCYYLKADYAKAILFYNKSRDLD 157
                              6778888889999999998888.....444...3689***********************9986 PP

  == domain 3  score: 18.5 bits;  conditional E-value: 1.7e-06
                   TPR_12  49 rnLgrlyralgryeeAlelleealai 74 
                              +nLg +y++lg++++Al+++++a ++
  PHY93_03490|PHY93_03490 165 NNLGVVYSKLGKFQKALAAFKKAADM 190
                              69999999999999999999999887 PP

  == domain 4  score: 5.1 bits;  conditional E-value: 0.027
                   TPR_12  18 rydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlell 68 
                                 +Al ++       + l+ +++p  +++  +L+ + ++ g+++ A++++
  PHY93_03490|PHY93_03490 210 TVGKALPIF-------QGLQ-KKSPKDIEVNSALASANLLKGELATAIQIY 252
                              444444444.......4443.556777777777788877778877777776 PP

  == domain 5  score: -2.0 bits;  conditional E-value: 4.5
                   TPR_12  50 nLgrlyralgryeeAlell 68 
                              n++ ++ +++r+ +Al ++
  PHY93_03490|PHY93_03490 268 NYAVALKLSNRPVDALTIF 286
                              4555555556666665544 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.1   1.3e-05     0.013       4      53 ..     106     155 ..     104     167 .. 0.89
   2 !   21.2   0.0   2.9e-07    0.0003       5      66 ..     175     236 ..     171     238 .. 0.96
   3 !    8.7   0.1    0.0023       2.5       4      55 ..     242     293 ..     239     302 .. 0.82

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 1.3e-05
                   TPR_19   4 egdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpe 53 
                              +++++eAl++   +++++ +n   + +L  +++   ++++A+   ++  +
  PHY93_03490|PHY93_03490 106 QNKFDEALKIADDVYSQYKNNTSYWNQLGTCYYLKADYAKAILFYNKSRD 155
                              889**************************************977776655 PP

  == domain 2  score: 21.2 bits;  conditional E-value: 2.9e-07
                   TPR_19   5 gdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeedpddaryasLlA 66 
                              g+++ Ala++++a + +  +    ++LA+++l  g + +A  + + l+++ p+d ++ s+lA
  PHY93_03490|PHY93_03490 175 GKFQKALAAFKKAADMSTFSVTPTYNLAQLYLRFGTVGKALPIFQGLQKKSPKDIEVNSALA 236
                              89***********999999***************************************9998 PP

  == domain 3  score: 8.7 bits;  conditional E-value: 0.0023
                   TPR_19   4 egdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeed 55 
                               g +a A++++  + ++    + + l++A al  ++++ +A  +   + ++ 
  PHY93_03490|PHY93_03490 242 KGELATAIQIYGGMDKDTLAKPSIGLNYAVALKLSNRPVDALTIFGNVTAAS 293
                              6999**********666666*********************99877666655 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.3   0.2       0.1   1.1e+02      12      32 ..     104     124 ..     101     126 .. 0.71
   2 !   19.3   0.3     8e-07   0.00084       3      32 ..     129     158 ..     127     160 .. 0.93
   3 !   21.9   0.0   1.2e-07   0.00013       5      28 ..     165     188 ..     164     191 .. 0.93
   4 ?    0.1   0.0       1.1   1.1e+03       5      25 ..     199     219 ..     198     228 .. 0.71
   5 ?   -0.3   0.0       1.4   1.5e+03       2      24 ..     230     252 ..     229     253 .. 0.85

  Alignments for each domain:
  == domain 1  score: 3.3 bits;  conditional E-value: 0.1
                    TPR_2  12 yklgdyeeAleafekAleldP 32 
                               ++++++eAl+  + + + + 
  PHY93_03490|PHY93_03490 104 CYQNKFDEALKIADDVYSQYK 124
                              689999999997666665555 PP

  == domain 2  score: 19.3 bits;  conditional E-value: 8e-07
                    TPR_2   3 alynlGlayyklgdyeeAleafekAleldP 32 
                              ++++lG +yy + dy++A+ +++k+  ld 
  PHY93_03490|PHY93_03490 129 YWNQLGTCYYLKADYAKAILFYNKSRDLDS 158
                              7***********************999985 PP

  == domain 3  score: 21.9 bits;  conditional E-value: 1.2e-07
                    TPR_2   5 ynlGlayyklgdyeeAleafekAl 28 
                              +nlG +y klg++++Al+af+kA 
  PHY93_03490|PHY93_03490 165 NNLGVVYSKLGKFQKALAAFKKAA 188
                              69*********************7 PP

  == domain 4  score: 0.1 bits;  conditional E-value: 1.1
                    TPR_2   5 ynlGlayyklgdyeeAleafe 25 
                              ynl+++y++ g   +Al  f+
  PHY93_03490|PHY93_03490 199 YNLAQLYLRFGTVGKALPIFQ 219
                              89*****99776666666665 PP

  == domain 5  score: -0.3 bits;  conditional E-value: 1.4
                    TPR_2   2 ealynlGlayyklgdyeeAleaf 24 
                              e++ +l+ a + +g+++ A++ +
  PHY93_03490|PHY93_03490 230 EVNSALASANLLKGELATAIQIY 252
                              67789999999*****9999865 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   9.3e-06    0.0098       9      63 ..     105     156 ..      97     159 .. 0.91
   2 !   10.5   0.0   0.00072      0.76      39      64 ..     166     191 ..     164     195 .. 0.85
   3 !   12.4   0.0   0.00018      0.19       1      57 [.     199     252 ..     199     253 .. 0.94

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 9.3e-06
                   TPR_16   9 ragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraalra 63 
                              +++++d+A++ ++ +  ++     +   ++ lg +++ + ++a+A+ +y++  + 
  PHY93_03490|PHY93_03490 105 YQNKFDEALKIADDVYSQY---KNNTSYWNQLGTCYYLKADYAKAILFYNKSRDL 156
                              79*****************...99999**********************997765 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 0.00072
                   TPR_16  39 llgdaalrqgrlaeAaalyraalraa 64 
                              +lg+++ ++g +++A+a++++a++ +
  PHY93_03490|PHY93_03490 166 NLGVVYSKLGKFQKALAAFKKAADMS 191
                              79999999999999999999998865 PP

  == domain 3  score: 12.4 bits;  conditional E-value: 0.00018
                   TPR_16   1 lalaraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaaly 57 
                              ++la+++lr g   +A++ ++ + k+    P + e   +l+ a l +g+la A++ y
  PHY93_03490|PHY93_03490 199 YNLAQLYLRFGTVGKALPIFQGLQKKS---PKDIEVNSALASANLLKGELATAIQIY 252
                              799************************...99999******************9654 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.1      0.15   1.5e+02      13      22 ..     105     114 ..     101     115 .. 0.83
   2 !   21.5   0.9   1.3e-07   0.00014       4      33 ..     130     159 ..     128     160 .. 0.93
   3 !   27.4   0.2   1.8e-09   1.9e-06       5      27 ..     165     187 ..     165     190 .. 0.95
   4 ?   -0.7   0.3       1.4   1.4e+03       5      12 ..     199     206 ..     199     209 .. 0.88
   5 ?   -1.9   0.0       3.2   3.4e+03       7      23 ..     235     251 ..     233     252 .. 0.80

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.15
                              HTT-HHHHHH CS
                    TPR_1  13 klgkydeAle 22 
                              +++k+deAl+
  PHY93_03490|PHY93_03490 105 YQNKFDEALK 114
                              799*****97 PP

  == domain 2  score: 21.5 bits;  conditional E-value: 1.3e-07
                              HHHHHHHHHHTT-HHHHHHHHHHHHHHSTT CS
                    TPR_1   4 lynlGnayfklgkydeAleyyekALelnPn 33 
                              +++lG +y+ + +y +A+ +y+k   l+ +
  PHY93_03490|PHY93_03490 130 WNQLGTCYYLKADYAKAILFYNKSRDLDSK 159
                              ***********************9999976 PP

  == domain 3  score: 27.4 bits;  conditional E-value: 1.8e-09
                              HHHHHHHHHTT-HHHHHHHHHHH CS
                    TPR_1   5 ynlGnayfklgkydeAleyyekA 27 
                              +nlG++y klgk+++Al++++kA
  PHY93_03490|PHY93_03490 165 NNLGVVYSKLGKFQKALAAFKKA 187
                              7*********************9 PP

  == domain 4  score: -0.7 bits;  conditional E-value: 1.4
                              HHHHHHHH CS
                    TPR_1   5 ynlGnayf 12 
                              ynl+++y+
  PHY93_03490|PHY93_03490 199 YNLAQLYL 206
                              9******8 PP

  == domain 5  score: -1.9 bits;  conditional E-value: 3.2
                              HHHHHHHTT-HHHHHHH CS
                    TPR_1   7 lGnayfklgkydeAley 23 
                              l+ a + +g++  A++ 
  PHY93_03490|PHY93_03490 235 LASANLLKGELATAIQI 251
                              67788899999999985 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.7   0.7   0.00052      0.55       8      33 ..     122     147 ..     116     147 .. 0.91
   2 !   13.8   0.0   5.3e-05     0.056       2      33 ..     150     181 ..     149     182 .. 0.87
   3 ?    6.4   0.0     0.013        14       2      28 ..     184     210 ..     183     215 .. 0.82
   4 ?    6.4   0.0     0.013        13       7      34 .]     223     250 ..     217     250 .. 0.91
   5 ?    0.3   0.0       1.1   1.2e+03      18      33 ..     268     283 ..     267     284 .. 0.88

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00052
                   TPR_17   8 ldPnnadaynnLAelllknGdlmtAr 33 
                              +++nn   +n+L+++++ + d+++A+
  PHY93_03490|PHY93_03490 122 QYKNNTSYWNQLGTCYYLKADYAKAI 147
                              5789******************9996 PP

  == domain 2  score: 13.8 bits;  conditional E-value: 5.3e-05
                   TPR_17   2 ylkaleldPnnadaynnLAelllknGdlmtAr 33 
                              y k+ +ld + +++ nnL+++++k+G++++A+
  PHY93_03490|PHY93_03490 150 YNKSRDLDSKFVPPVNNLGVVYSKLGKFQKAL 181
                              66666789999*******************97 PP

  == domain 3  score: 6.4 bits;  conditional E-value: 0.013
                   TPR_17   2 ylkaleldPnnadaynnLAelllknGd 28 
                              ++ka++    ++ + +nLA+l+l+ G 
  PHY93_03490|PHY93_03490 184 FKKAADMSTFSVTPTYNLAQLYLRFGT 210
                              788888899999999*******98875 PP

  == domain 4  score: 6.4 bits;  conditional E-value: 0.013
                   TPR_17   7 eldPnnadaynnLAelllknGdlmtArq 34 
                              ++ P++ ++   LA + l +G+l+tA+q
  PHY93_03490|PHY93_03490 223 KKSPKDIEVNSALASANLLKGELATAIQ 250
                              789***********************98 PP

  == domain 5  score: 0.3 bits;  conditional E-value: 1.1
                   TPR_17  18 nLAelllknGdlmtAr 33 
                              n+A++l+  +++ +A+
  PHY93_03490|PHY93_03490 268 NYAVALKLSNRPVDAL 283
                              9*******99999885 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.6   0.5   5.7e-05      0.06       2      31 ..     128     157 ..     127     160 .. 0.88
   2 !   19.6   0.0   6.8e-07   0.00071       5      31 ..     165     191 ..     162     193 .. 0.93
   3 ?    1.5   0.0      0.43   4.5e+02       5      23 ..     199     217 ..     199     226 .. 0.82
   4 ?    0.5   0.1      0.89   9.3e+02       4      24 ..     232     252 ..     229     253 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 5.7e-05
                              CHHHHHHHHHHHTT-HHHHHHHHHHHHHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeAkeyyekaleld 31 
                              +++++lg +y  + dy +A+ +y+k  +ld
  PHY93_03490|PHY93_03490 128 SYWNQLGTCYYLKADYAKAILFYNKSRDLD 157
                              58**********************986665 PP

  == domain 2  score: 19.6 bits;  conditional E-value: 6.8e-07
                              HHHHHHHHHTT-HHHHHHHHHHHHHHH CS
                    TPR_8   5 ynlgsiylklgdyeeAkeyyekaleld 31 
                              +nlg +y+klg++++A ++++ka +++
  PHY93_03490|PHY93_03490 165 NNLGVVYSKLGKFQKALAAFKKAADMS 191
                              79*********************8875 PP

  == domain 3  score: 1.5 bits;  conditional E-value: 0.43
                              HHHHHHHHHTT-HHHHHHH CS
                    TPR_8   5 ynlgsiylklgdyeeAkey 23 
                              ynl+++yl  g   +A   
  PHY93_03490|PHY93_03490 199 YNLAQLYLRFGTVGKALPI 217
                              89*****998877777655 PP

  == domain 4  score: 0.5 bits;  conditional E-value: 0.89
                              HHHHHHHHHHTT-HHHHHHHH CS
                    TPR_8   4 yynlgsiylklgdyeeAkeyy 24 
                                 l+s+ l +g++  A++ y
  PHY93_03490|PHY93_03490 232 NSALASANLLKGELATAIQIY 252
                              5679999999********988 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.4   2.5   6.7e-10   7.1e-07       2      81 ..     106     186 ..     105     187 .. 0.94
   2 ?    5.3   0.0     0.022        24       5      51 ..     177     224 ..     176     231 .. 0.84
   3 ?    4.4   0.0     0.041        43       9      81 ..     215     288 ..     210     289 .. 0.76

  Alignments for each domain:
  == domain 1  score: 29.4 bits;  conditional E-value: 6.7e-10
                              TT-HHHHHHHHHHHH.HHH--HHHHHH..HHHHHHHTT-HHHHHHHHHCT.SHHHC-HHHHHHHHHHHHHTT-HHHHHHHH-S CS
                   ANAPC3   2 qnnyknAiflaerllaaetespedayl..lAlclylngqykrAyellrka.klnskslgcrylfAqcllkLkkyeeAiaaLek 81 
                              qn++++A+ +a+ ++  +++ ++ +y+  l+ c+yl  +y +A+ +++k+ +l+sk       ++ ++ kL+k+++A+aa++k
  PHY93_03490|PHY93_03490 106 QNKFDEALKIADDVY--SQYKNNTSYWnqLGTCYYLKADYAKAILFYNKSrDLDSKFVPPVNNLGVVYSKLGKFQKALAAFKK 186
                              799************..9999999999778********************9999999999999*****************998 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.022
                              HHHHHHHHHHHH.HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCT.SH CS
                   ANAPC3   5 yknAiflaerllaaetespedayllAlclylngqykrAyellrka.kl 51 
                              +++A+  + ++  ++t s   +y lA+ +++ g   +A+ +++ + k+
  PHY93_03490|PHY93_03490 177 FQKALAAFKKAADMSTFSVTPTYNLAQLYLRFGTVGKALPIFQGLqKK 224
                              688999999999999999999******************999998433 PP

  == domain 3  score: 4.4 bits;  conditional E-value: 0.041
                              HHHHHHHH.HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCTSHHHC-HHHHHHHHHHHHHT.T-HHHHHHHH-S CS
                   ANAPC3   9 iflaerllaaetespedayllAlclylngqykrAyellrkaklnskslgcrylfAqcllkL.kkyeeAiaaLek 81 
                              + ++  l+++++++ e   +lA + +l g+  +A++++  ++++   + +  l   ++lkL ++  +A++++++
  PHY93_03490|PHY93_03490 215 LPIFQGLQKKSPKDIEVNSALASANLLKGELATAIQIYGGMDKDTLAKPSIGLNYAVALKLsNRPVDALTIFGN 288
                              55555566778888888999*******************99555555566666667778887888888888876 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.0       2.6   2.8e+03      11      20 ..     105     114 ..     102     120 .. 0.71
   2 ?    5.5   0.3     0.019        20       2      24 ..     130     152 ..     128     157 .. 0.89
   3 !   19.5   0.0   6.4e-07   0.00068       3      31 ..     165     191 ..     164     196 .. 0.87
   4 ?    3.0   0.0      0.12   1.2e+02       3      24 ..     199     220 ..     198     230 .. 0.79
   5 ?   -1.2   0.0       2.6   2.7e+03       5      22 ..     235     252 ..     233     255 .. 0.73

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 2.6
                    TPR_7  11 rlGdyeeAie 20 
                               +++++eA++
  PHY93_03490|PHY93_03490 105 YQNKFDEALK 114
                              4677777765 PP

  == domain 2  score: 5.5 bits;  conditional E-value: 0.019
                    TPR_7   2 LlnLarlysrlGdyeeAielyeq 24 
                              +++L+ +y    dy++Ai +y +
  PHY93_03490|PHY93_03490 130 WNQLGTCYYLKADYAKAILFYNK 152
                              489***************99965 PP

  == domain 3  score: 19.5 bits;  conditional E-value: 6.4e-07
                    TPR_7   3 lnLarlysrlGdyeeAielyeqsLaltkd 31 
                              +nL+++ys+lG++++A+  +++  a + +
  PHY93_03490|PHY93_03490 165 NNLGVVYSKLGKFQKALAAFKK--AADMS 191
                              7*********************..66655 PP

  == domain 4  score: 3.0 bits;  conditional E-value: 0.12
                    TPR_7   3 lnLarlysrlGdyeeAielyeq 24 
                              +nLa+ly r G   +A+ +++ 
  PHY93_03490|PHY93_03490 199 YNLAQLYLRFGTVGKALPIFQG 220
                              69*******9988888887775 PP

  == domain 5  score: -1.2 bits;  conditional E-value: 2.6
                    TPR_7   5 LarlysrlGdyeeAiely 22 
                              La++    G+ ++Ai++y
  PHY93_03490|PHY93_03490 235 LASANLLKGELATAIQIY 252
                              556555569999999999 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.4   0.0    0.0084       8.9      15      43 ..     107     135 ..     103     136 .. 0.91
   2 ?    6.0   0.0     0.025        26       7      28 ..     167     188 ..     166     192 .. 0.89
   3 !   10.6   0.0   0.00079      0.83       5      42 ..     199     236 ..     197     238 .. 0.93
   4 ?    1.6   0.0      0.64   6.8e+02       6      24 ..     234     252 ..     230     255 .. 0.89

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.0084
                   TPR_14  15 GdpdeAiallrralalaPddaeawlllaq 43 
                               ++deA+++++++ +++ ++  +w +l+ 
  PHY93_03490|PHY93_03490 107 NKFDEALKIADDVYSQYKNNTSYWNQLGT 135
                              679*********************99985 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.025
                   TPR_14   7 laeallalGdpdeAiallrral 28 
                              l+ ++  lG++++A+a++++a 
  PHY93_03490|PHY93_03490 167 LGVVYSKLGKFQKALAAFKKAA 188
                              677999*************995 PP

  == domain 3  score: 10.6 bits;  conditional E-value: 0.00079
                   TPR_14   5 lalaeallalGdpdeAiallrralalaPddaeawllla 42 
                              + la+++l+ G   +A+ +++ + ++ P+d e++ +la
  PHY93_03490|PHY93_03490 199 YNLAQLYLRFGTVGKALPIFQGLQKKSPKDIEVNSALA 236
                              569*****************************999888 PP

  == domain 4  score: 1.6 bits;  conditional E-value: 0.64
                   TPR_14   6 alaeallalGdpdeAiall 24 
                              ala+a l  G++++Ai+++
  PHY93_03490|PHY93_03490 234 ALASANLLKGELATAIQIY 252
                              8999************987 PP

>> TPR_10  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   0.0     0.021        22      13      29 ..     104     120 ..     101     124 .. 0.85
   2 !   18.8   0.0     1e-06    0.0011       6      31 ..     165     190 ..     165     192 .. 0.94
   3 ?   -0.7   0.0       1.3   1.4e+03       7      25 ..     200     218 ..     199     219 .. 0.84
   4 ?   -2.6   0.0       5.3   5.6e+03       7      24 ..     268     285 ..     267     287 .. 0.82

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.021
                   TPR_10  13 rqrgrydeAealleeal 29 
                              + ++++deA++++++++
  PHY93_03490|PHY93_03490 104 CYQNKFDEALKIADDVY 120
                              689*********99886 PP

  == domain 2  score: 18.8 bits;  conditional E-value: 1e-06
                   TPR_10   6 nNLanalrqrgrydeAealleealai 31 
                              nNL+++++++g++++A+a +++a ++
  PHY93_03490|PHY93_03490 165 NNLGVVYSKLGKFQKALAAFKKAADM 190
                              9*********************9876 PP

  == domain 3  score: -0.7 bits;  conditional E-value: 1.3
                   TPR_10   7 NLanalrqrgrydeAeall 25 
                              NLa ++ + g   +A+ ++
  PHY93_03490|PHY93_03490 200 NLAQLYLRFGTVGKALPIF 218
                              9*****9999888888776 PP

  == domain 4  score: -2.6 bits;  conditional E-value: 5.3
                   TPR_10   7 NLanalrqrgrydeAeal 24 
                              N a+al   +r  +A+ +
  PHY93_03490|PHY93_03490 268 NYAVALKLSNRPVDALTI 285
                              789999999999999877 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.0       1.6   1.7e+03      19      32 ..      12      25 ..      10      26 .. 0.83
   2 ?    2.6   0.0       0.1   1.1e+02       2      15 ..     101     114 ..     101     114 .. 0.90
   3 !   13.7   0.1   3.6e-05     0.038       4      42 .]     137     175 ..     134     175 .. 0.95
   4 !   13.1   0.0   5.3e-05     0.056       4      40 ..     171     207 ..     170     209 .. 0.93
   5 ?   -0.4   0.0      0.91   9.6e+02      24      42 .]     225     243 ..     223     243 .. 0.85
   6 ?   -1.8   0.0       2.5   2.7e+03       7      17 ..     242     252 ..     237     252 .. 0.83

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 1.6
                   TPR_11 19 kAlkldPdnaeayy 32
                              A++ +Pdn ++y 
  PHY93_03490|PHY93_03490 12 SACASSPDNKNVYR 25
                             699999***99996 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.1
                   TPR_11   2 dayyeqGkyeeAie 15 
                              ++ + q+k++eA++
  PHY93_03490|PHY93_03490 101 NIECYQNKFDEALK 114
                              78999*******96 PP

  == domain 3  score: 13.7 bits;  conditional E-value: 3.6e-05
                   TPR_11   4 yyeqGkyeeAieaYkkAlkldPdnaeayynLGlayykqG 42 
                              yy + +y +Ai  Y+k  +ld++++   +nLG++y k+G
  PHY93_03490|PHY93_03490 137 YYLKADYAKAILFYNKSRDLDSKFVPPVNNLGVVYSKLG 175
                              888889*******************************98 PP

  == domain 4  score: 13.1 bits;  conditional E-value: 5.3e-05
                   TPR_11   4 yyeqGkyeeAieaYkkAlkldPdnaeayynLGlayyk 40 
                              y ++Gk+ +A++a+kkA + +  +++  ynL+++y++
  PHY93_03490|PHY93_03490 171 YSKLGKFQKALAAFKKAADMSTFSVTPTYNLAQLYLR 207
                              7789*******************************86 PP

  == domain 5  score: -0.4 bits;  conditional E-value: 0.91
                   TPR_11  24 dPdnaeayynLGlayykqG 42 
                              +P++ e+ ++L+ a + +G
  PHY93_03490|PHY93_03490 225 SPKDIEVNSALASANLLKG 243
                              799********99988776 PP

  == domain 6  score: -1.8 bits;  conditional E-value: 2.5
                   TPR_11   7 qGkyeeAieaY 17 
                              +G++  Ai+ Y
  PHY93_03490|PHY93_03490 242 KGELATAIQIY 252
                              89999999855 PP

>> TPR_15  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.4   2.0   4.6e-07   0.00048      56     267 ..      72     282 ..      47     285 .. 0.82
   2 ?   -0.1   0.0       0.4   4.2e+02     211     248 ..     260     297 ..     255     302 .. 0.84

  Alignments for each domain:
  == domain 1  score: 19.4 bits;  conditional E-value: 4.6e-07
                   TPR_15  56 alqqedearkAyrqLlasgkaraedyerliellydaepkeaarlaekgwrrfrsprlLssalellerakdydriaellksleeeea 141
                              al +e  a+  + +L ++  ++ + + ++    y+++++ea+++a + + ++++   + + l + + +k+  + a l+ + +++ +
  PHY93_03490|PHY93_03490  72 ALVKESLANLSAVRLEETLTRNDDVLTKMNIECYQNKFDEALKIADDVYSQYKNNTSYWNQLGTCYYLKADYAKAILFYNKSRDLD 157
                              555566666666666666667666666664447********************988888888777766666666777777566655 PP

                   TPR_15 142 aeqsaafllaraelyrqegqtdaAlrdyreAlalapdsselraallWlliDlgrraeLrellkawkaraesdasLwgplaaAlllL 227
                               +  + +   ++ +y++ g+ ++Al ++++A +++  s +   +l  l++  g+  ++ ++ + +++++ +d +   +la+A ll 
  PHY93_03490|PHY93_03490 158 SKFVPPV-NNLGVVYSKLGKFQKALAAFKKAADMSTFSVTPTYNLAQLYLRFGTVGKALPIFQGLQKKSPKDIEVNSALASANLLK 242
                              5555555.567899************************99999999999999********************************** PP

                   TPR_15 228 grpkkALeylrkqakenrkdplwllaYADaleqagradeA 267
                              g+ + A + +    k   + p++ l YA al+ + r   A
  PHY93_03490|PHY93_03490 243 GELATAIQIYGGMDKDTLAKPSIGLNYAVALKLSNRPVDA 282
                              *****************************99998887555 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.4
                   TPR_15 211 esdasLwgplaaAlllLgrpkkALeylrkqakenrkdp 248
                               +++s+ + +a Al l +rp  AL  + + +++ ++d+
  PHY93_03490|PHY93_03490 260 LAKPSIGLNYAVALKLSNRPVDALTIFGNVTAASSADI 297
                              6778888999999999999******9999999998887 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.1      0.64   6.7e+02      13      32 ..     106     125 ..     101     126 .. 0.82
   2 !    7.3   0.1    0.0078       8.2       5      25 ..     132     152 ..     132     155 .. 0.86
   3 !    8.0   0.1    0.0048         5       5      26 ..     166     187 ..     166     189 .. 0.90
   4 ?    4.7   0.0     0.052        54       4      32 ..     199     227 ..     198     228 .. 0.90
   5 ?   -0.5   0.1       2.4   2.5e+03       7      23 ..     236     252 ..     233     253 .. 0.76
   6 ?   -1.4   0.0       4.7     5e+03       5      26 ..     268     289 ..     267     291 .. 0.75

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.64
                              HHHHHHHHHHHHHHHHH-TT CS
                    TPR_6  13 lgdtdkAlealerlikeYPd 32 
                              +++ d+Al++ +++ ++Y +
  PHY93_03490|PHY93_03490 106 QNKFDEALKIADDVYSQYKN 125
                              4599*******999999865 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.0078
                              HHHHHHHH.HHHHHHHHHHHHH CS
                    TPR_6   5 klalsyrk.lgdtdkAlealer 25 
                              +l+ +y+  + d++kA+  +++
  PHY93_03490|PHY93_03490 132 QLGTCYYLkA-DYAKAILFYNK 152
                              69*****856.*****988875 PP

  == domain 3  score: 8.0 bits;  conditional E-value: 0.0048
                              HHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   5 klalsyrklgdtdkAlealerl 26 
                              +l+  y klg+ +kAl+a+++ 
  PHY93_03490|PHY93_03490 166 NLGVVYSKLGKFQKALAAFKKA 187
                              5899****99*********986 PP

  == domain 4  score: 4.7 bits;  conditional E-value: 0.052
                              HHHHHHHHHHHHHHHHHHHHHHHHHH-TT CS
                    TPR_6   4 yklalsyrklgdtdkAlealerlikeYPd 32 
                              y+la++y++ g   kAl +++ l k+ P+
  PHY93_03490|PHY93_03490 199 YNLAQLYLRFGTVGKALPIFQGLQKKSPK 227
                              99*******65999*********999997 PP

  == domain 5  score: -0.5 bits;  conditional E-value: 2.4
                              HHHHHHHHHHHHHHHHH CS
                    TPR_6   7 alsyrklgdtdkAleal 23 
                              a + +  g+ ++A++++
  PHY93_03490|PHY93_03490 236 ASANLLKGELATAIQIY 252
                              5556665799****998 PP

  == domain 6  score: -1.4 bits;  conditional E-value: 4.7
                              HHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   5 klalsyrklgdtdkAlealerl 26 
                              + a +++  +++ +Al+++ ++
  PHY93_03490|PHY93_03490 268 NYAVALKLSNRPVDALTIFGNV 289
                              5677777756889999999887 PP

>> ATP13  Mitochondrial ATPase expression
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   8.2e-05     0.087      64      97 ..     103     133 ..      67     146 .. 0.85
   2 ?   -2.9   0.0       5.7     6e+03      56      76 ..     231     251 ..     212     253 .. 0.71

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 8.2e-05
                    ATP13  64 fsynneiesAlklvdkfskkYpeielkkefWeel 97 
                               +y+n++++Alk++d++ ++Y+   ++ + W++l
  PHY93_03490|PHY93_03490 103 ECYQNKFDEALKIADDVYSQYK---NNTSYWNQL 133
                              599*******************...678889887 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 5.7
                    ATP13  56 lLkaivssfsynneiesAlkl 76 
                              +  a++s+   ++e+++A+++
  PHY93_03490|PHY93_03490 231 VNSALASANLLKGELATAIQI 251
                              445777777778888888876 PP

>> CDKN3  Cyclin-dependent kinase inhibitor 3 (CDKN3)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   0.00023      0.24      83     151 ..     189     262 ..     176     276 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00023
                              HHHHTT-T...THHHHHHHTT-EEEE----TTS---HHHHHHHHHHHHHH..HHTT--EEEE-SSSSSHHHHHH CS
                    CDKN3  83 elskyrvp...nlldlyqqygivthhhpiadggtpdiascleimeelatc..lknyrktlihcygglgrsclva 151
                              ++s + v    nl +ly ++g v +  pi +g        +e+   la++  lk +  t i+ ygg+ +  l  
  PHY93_03490|PHY93_03490 189 DMSTFSVTptyNLAQLYLRFGTVGKALPIFQGLQKKSPKDIEVNSALASAnlLKGELATAIQIYGGMDKDTLAK 262
                              55666553233999********************9999999*99999764339***************999854 PP

>> TPR_9  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0       4.9   5.1e+03       9      40 ..     107     138 ..     106     148 .. 0.63
   2 ?    8.9   0.0    0.0015       1.6      25      58 ..     157     190 ..     133     202 .. 0.79
   3 ?    0.5   0.0      0.66     7e+02      32      66 ..     198     232 ..     194     239 .. 0.81

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 4.9
                    TPR_9   9 edweralavverllllaPddpeerrdRGllla 40 
                              +++++al++++ +     +  + +   G +++
  PHY93_03490|PHY93_03490 107 NKFDEALKIADDVYSQYKNNTSYWNQLGTCYY 138
                              67888999888766665566666666666665 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 0.0015
                    TPR_9  25 aPddpeerrdRGlllaqlGclsaAladLeaylal 58 
                              +++ +  +   G+++ +lG +++Ala++  ++++
  PHY93_03490|PHY93_03490 157 DSKFVPPVNNLGVVYSKLGKFQKALAAFKKAADM 190
                              55555566678*****************999886 PP

  == domain 3  score: 0.5 bits;  conditional E-value: 0.66
                    TPR_9  32 rrdRGlllaqlGclsaAladLeaylalapdapdae 66 
                               +  ++l+ + G + +Al  ++    ++p++ ++ 
  PHY93_03490|PHY93_03490 198 TYNLAQLYLRFGTVGKALPIFQGLQKKSPKDIEVN 232
                              67889*************99998888888877665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (308 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       853  (0.0475766); expected 358.6 (0.02)
Passed bias filter:                      451  (0.0251548); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              17  [number of targets reported over threshold]
# CPU time: 0.64u 0.25s 00:00:00.89 Elapsed: 00:00:00.50
# Mc/sec: 1843.53
//
Query:       PHY93_03495|PHY93_03495  [L=97]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (97 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       464  (0.0258799); expected 358.6 (0.02)
Passed bias filter:                      397  (0.0221429); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.27s 00:00:00.75 Elapsed: 00:00:00.47
# Mc/sec: 623.53
//
Query:       PHY93_03500|PHY93_03500  [L=151]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.043   13.8   0.9        2.4    8.2   0.3    2.3  2  Phage_holin_2_1  Bacteriophage P21 holin S
        0.7   10.5   0.2        0.7   10.5   0.2    3.2  4  OAD_gamma        Oxaloacetate decarboxylase, gamma chain
        2.1    8.8   7.1    2.1e+02    2.3   7.1    2.2  1  MerC             MerC mercury resistance protein
        9.8    5.9   8.0        4.8    6.9   1.4    2.1  2  TMEM208_SND2     SRP-independent targeting protein 2/TMEM208


Domain annotation for each model (and alignments):
>> Phage_holin_2_1  Bacteriophage P21 holin S
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.2   0.3   0.00053       2.4      41      58 ..      47      64 ..      46      68 .. 0.88
   2 ?    3.9   0.0     0.012        54      24      45 ..     127     148 ..     122     151 .] 0.88

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.00053
          Phage_holin_2_1 41 lvigllTyltnlYFKrke 58
                             +v++++ +l  lYFK+k 
  PHY93_03500|PHY93_03500 47 VVFIFVLFLNDLYFKIKR 64
                             6899999*********96 PP

  == domain 2  score: 3.9 bits;  conditional E-value: 0.012
          Phage_holin_2_1  24 ldklspeeWsaigvlgglvigl 45 
                              +++ ++++W +++ l+ l+i++
  PHY93_03500|PHY93_03500 127 YKQTHSKQWLVFANLAMLMIIV 148
                              57899***********999987 PP

>> OAD_gamma  Oxaloacetate decarboxylase, gamma chain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -5.7   3.5         4   1.8e+04      15      25 ..      27      37 ..      21      39 .. 0.60
   2 ?   -0.9   0.5      0.57   2.6e+03      12      21 ..      46      55 ..      45      64 .. 0.84
   3 ?   10.5   0.2   0.00016       0.7       9      26 ..      78      95 ..      77     103 .. 0.88
   4 ?    1.4   1.1      0.11   4.9e+02      14      28 ..     137     151 .]     135     151 .] 0.87

  Alignments for each domain:
  == domain 1  score: -5.7 bits;  conditional E-value: 4
                OAD_gamma 15 FvvLilLslvi 25
                             F vL+l  ++i
  PHY93_03500|PHY93_03500 27 FSVLMLFQFMI 37
                             66676666655 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.57
                OAD_gamma 12 gvVFvvLilL 21
                             +vVF++ ++L
  PHY93_03500|PHY93_03500 46 LVVFIFVLFL 55
                             6899998887 PP

  == domain 3  score: 10.5 bits;  conditional E-value: 0.00016
                OAD_gamma  9 lGmgvVFvvLilLslvis 26
                             l+m++VF++L+lL +++ 
  PHY93_03500|PHY93_03500 78 LAMSTVFLGLFLLPFIFD 95
                             68***********99986 PP

  == domain 4  score: 1.4 bits;  conditional E-value: 0.11
                OAD_gamma  14 VFvvLilLslvislf 28 
                              VF+ L++L++++ +f
  PHY93_03500|PHY93_03500 137 VFANLAMLMIIVGAF 151
                              9*********99765 PP

>> MerC  MerC mercury resistance protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.3   7.1     0.048   2.1e+02     106     106 ..      88      88 ..       1     151 [] 0.44

  Alignments for each domain:
  == domain 1  score: 2.3 bits;  conditional E-value: 0.048
                     MerC 106 a 106
                              +
  PHY93_03500|PHY93_03500  88 F 88 
                              1 PP

>> TMEM208_SND2  SRP-independent targeting protein 2/TMEM208
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   0.7     0.016        72      16      56 ..      15      54 ..      13      82 .. 0.63
   2 ?    6.9   1.4    0.0011       4.8      12      59 ..     100     147 ..      96     151 .] 0.87

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.016
             TMEM208_SND2 16 tLknlrlislavnalylllrlllrsslrprslllylllslp 56
                              +++l+l++l++  + +l+++++   + ++++l+++++ l 
  PHY93_03500|PHY93_03500 15 NMTRLKLVLLVSFSVLMLFQFMI-GFRDFEDYLVVFIFVLF 54
                             56778888888888888888888.22333333333333333 PP

  == domain 2  score: 6.9 bits;  conditional E-value: 0.0011
             TMEM208_SND2  12 eNkatLknlrlislavnalylllrlllrsslrprslllylllslpall 59 
                              +N+++L+ ++l++++   + l+ ++l +++++++++l+++ l++++++
  PHY93_03500|PHY93_03500 100 SNTTRLTLYKLGFVLWAQVLLIDSFLHYKQTHSKQWLVFANLAMLMII 147
                              8**************999999999999888888899999998888876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (151 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       777  (0.0433376); expected 358.6 (0.02)
Passed bias filter:                      266  (0.0148363); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.53u 0.25s 00:00:00.78 Elapsed: 00:00:00.47
# Mc/sec: 973.27
//
Query:       PHY93_03505|PHY93_03505  [L=189]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.4e-30  105.3   0.1    3.2e-30  104.9   0.1    1.1  1  SIS_2     SIS domain
    2.3e-06   27.5   0.0    5.2e-06   26.4   0.0    1.5  1  SIS       SIS domain


Domain annotation for each model (and alignments):
>> SIS_2  SIS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  104.9   0.1   3.6e-34   3.2e-30       4     138 .]       8     143 ..       6     143 .. 0.93

  Alignments for each domain:
  == domain 1  score: 104.9 bits;  conditional E-value: 3.6e-34
                              HHHHHHHHHHHHH..SHHHHHHHHHHHHHHHHTT--EEEEESGGGHHHHHHTSSSTT-BTTEEEE--GGGSSSSST..THHHHHTT CS
                    SIS_2   4 aevteilerivet..qaeaiekaaeliadslenggkvlvfGsGhSaalaeelaaragglaeferialpalalhtdaeatkssaler 87 
                              +e++++l+++v+   + e+i+ a+ ++++s +n+g+++  G+G+S+ +a+++a ++ g++  er  lpa+a  +da  ++ +++++
  PHY93_03505|PHY93_03505   8 QEAQKVLNKFVSDqtNLENINSAISMMVESYKNNGRIFSAGNGGSMCDAMHFAEELTGRFRKERAPLPAMAI-NDA--SHLTCVSN 90 
                              678888888876511568******************************************************.666..8******* PP

                              -TTHHHHHHHHTT-..-TT-EEEEE-SS--SHHHHHHHHHHHHHT-EEEEEE- CS
                    SIS_2  88 degyakqilrlvrl..kpgDvLlviSnsGnnavvveaaeaakergmkviAlts 138
                              d gy  +++r  ++  ++gDvLl iS+sGn+++++ a+eaak++gmkv++l++
  PHY93_03505|PHY93_03505  91 DYGYEFIFSRYIEAwgNKGDVLLAISTSGNSKNIILAVEAAKKKGMKVVGLLG 143
                              ***********88778**********************************986 PP

>> SIS  SIS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.4   0.0   5.8e-10   5.2e-06      52     106 ..     107     161 ..     104     169 .. 0.93

  Alignments for each domain:
  == domain 1  score: 26.4 bits;  conditional E-value: 5.8e-10
                              STTCEEEEEESSSHHHHHHHHHHHHHHTTSEEEEEESSTTSHHHHHSSEEEEEEE CS
                      SIS  52 deddlvilisfsgetkdlvaaaelakergakiiaITdskgsplareadlalyina 106
                              +++d++++is+sg++k+ ++a+e ak++g+k++++ ++ g +l  + d+al++ +
  PHY93_03505|PHY93_03505 107 NKGDVLLAISTSGNSKNIILAVEAAKKKGMKVVGLLGKGGGALKDMVDVALIVDS 161
                              589*******************************************999998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (189 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       774  (0.0431703); expected 358.6 (0.02)
Passed bias filter:                      665  (0.0370907); expected 358.6 (0.02)
Passed Vit filter:                        55  (0.00306766); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.25s 00:00:00.82 Elapsed: 00:00:00.46
# Mc/sec: 1246.04
//
Query:       PHY93_03510|PHY93_03510  [L=105]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.1e-32  111.2   0.0    2.3e-32  111.1   0.0    1.0  1  Thioredoxin    Thioredoxin
    5.9e-11   42.8   0.1    2.6e-10   40.7   0.1    1.8  1  Thioredoxin_2  Thioredoxin-like domain
    5.5e-08   33.0   0.0    6.2e-05   23.3   0.0    2.2  2  Thioredoxin_8  Thioredoxin-like
    2.8e-06   27.1   0.0      3e-06   27.0   0.0    1.1  1  Thioredoxin_9  Thioredoxin
    1.2e-05   25.2   0.0    1.7e-05   24.8   0.0    1.2  1  Thioredoxin_3  Thioredoxin domain
    2.8e-05   24.2   0.0    5.6e-05   23.2   0.0    1.6  1  Thioredoxin_7  Thioredoxin-like
    6.6e-05   22.7   0.0    0.00013   21.7   0.0    1.5  1  Redoxin        Redoxin
    6.8e-05   22.8   0.0     0.0001   22.2   0.0    1.4  1  AhpC-TSA       AhpC/TSA family
    0.00011   22.1   0.0    0.00014   21.7   0.0    1.2  1  HyaE           Hydrogenase-1 expression protein HyaE
    0.00019   21.3   0.1    0.00026   20.8   0.0    1.3  1  DSBA           DSBA-like thioredoxin domain
    0.00032   21.0   0.0    0.00049   20.5   0.0    1.3  1  DUF836         Glutaredoxin-like domain (DUF836)
     0.0018   18.0   0.0     0.0019   18.0   0.0    1.1  1  DIM1           Mitosis protein DIM1
     0.0019   18.0   0.0     0.0022   17.9   0.0    1.1  1  TraF           F plasmid transfer operon protein
     0.0071   15.7   0.0     0.0083   15.5   0.0    1.1  1  OST3_OST6      OST3 / OST6 family, transporter family
     0.0098   15.6   0.0      0.014   15.1   0.0    1.2  1  KaiB           KaiB domain
  ------ inclusion threshold ------
      0.027   14.5   0.0      0.034   14.2   0.0    1.1  1  TrbC_Ftype     Type-F conjugative transfer system pilin assem
      0.033   13.8   0.0       0.17   11.5   0.0    1.9  1  DUF953         Eukaryotic protein of unknown function (DUF953


Domain annotation for each model (and alignments):
>> Thioredoxin  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  111.1   0.0   2.1e-35   2.3e-32       4     102 ..       6     104 ..       3     105 .] 0.96

  Alignments for each domain:
  == domain 1  score: 111.1 bits;  conditional E-value: 2.1e-35
                              ESSHHHHHHHHTTTSSEEEEEEE-TTSHHHHCHHHHHHHHHHHCTTTSEEEEEETTTSHHHHHHTT-SSSSEEEEEETTEEEEEEE CS
              Thioredoxin   4 vltkenFeeevakekklvlveFyApwCghCkalaPeleklaeelkdkvklakvdvdenedlakkyevegiPtlklfkngkevkkye 89 
                              ++  ++Fe++v k++k+vlv+F+A+wCg+C+ l P l+++a+el +k  ++kv+vd+n++la+ky+v+giPt+++fkng+++k+++
  PHY93_03510|PHY93_03510   6 KTDVAHFENDVLKANKPVLVDFWAEWCGPCRVLGPILDEVARELGEKADILKVNVDDNPELAQKYGVRGIPTMIFFKNGQASKTLV 91 
                              566789******************************************************************************** PP

                              SS-HHHHHHHHHH CS
              Thioredoxin  90 garekeklaaflk 102
                              g + ke++++ l+
  PHY93_03510|PHY93_03510  92 GVQAKEEIKKSLE 104
                              *********9987 PP

>> Thioredoxin_2  Thioredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.7   0.1   2.5e-13   2.6e-10       3     108 ..      18     102 ..      16     103 .. 0.81

  Alignments for each domain:
  == domain 1  score: 40.7 bits;  conditional E-value: 2.5e-13
            Thioredoxin_2   3 gngkpvlvvftdpdCpyCkklkkelkelddvtvrvllfplkpsfepkavaiwcakekkkafkdieenvelarkygvrgtPtiv.fl 87 
                              + +kpvlv+f++++C+ C+ l   l+e+           l++++++  v+++ ++e             la+kygvrg Pt++ f 
  PHY93_03510|PHY93_03510  18 KANKPVLVDFWAEWCGPCRVLGPILDEV---ARE-----LGEKADILKVNVDDNPE-------------LAQKYGVRGIPTMIfFK 82 
                              679*****************99988888...555.....88887777777776665.............68**********66277 PP

            Thioredoxin_2  88 dgkeivarlpGyvpaeeleal 108
                              +g+    +l+G   +ee+++ 
  PHY93_03510|PHY93_03510  83 NGQ-ASKTLVGVQAKEEIKKS 102
                              777.77799***999999875 PP

>> Thioredoxin_8  Thioredoxin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.3   0.0   5.9e-08   6.2e-05       1      46 [.      20      63 ..      20      65 .. 0.93
   2 !   10.9   0.0   0.00041      0.43      66      90 ..      58      82 ..      51      86 .. 0.79

  Alignments for each domain:
  == domain 1  score: 23.3 bits;  conditional E-value: 5.9e-08
                             .SEEEEEE--SSSHHHHHHHHHHHHHHHHHHHTTSEEEEEEE-SS- CS
            Thioredoxin_8  1 gkvvlLyfgaswcppckaftpklkelyeklkkkkkveivyvsldkk 46
                             +k vl+ f+a+wc pc+   p l+e+ ++l    k  i+ v++d +
  PHY93_03510|PHY93_03510 20 NKPVLVDFWAEWCGPCRVLGPILDEVARELG--EKADILKVNVDDN 63
                             799***************************9..8999999999976 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.00041
                             E-TT-HHHHTT-S--TT-SEEEEE- CS
            Thioredoxin_8 66 fddkkrnklkkkynvkaiPtlvvld 90
                             ++ +++ +l++ky+v +iPt++  +
  PHY93_03510|PHY93_03510 58 VNVDDNPELAQKYGVRGIPTMIFFK 82
                             5556778*************98765 PP

>> Thioredoxin_9  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.0   0.0   2.9e-09     3e-06      49     108 ..      28      86 ..      10     104 .. 0.86

  Alignments for each domain:
  == domain 1  score: 27.0 bits;  conditional E-value: 2.9e-09
                              --TT-HHHHHHHHHHHHHH.HH-TTEEEEEE-HHHHHHHTTTTTT-SS--SSEEEEE-TT.- CS
            Thioredoxin_9  49 tedwCgDaavnvPvlakia.elnpnievkillrdenlelmdqyltngaraiPtliildee.g 108
                               ++wCg ++v  P+l+++a el ++ ++  +  d+n+el ++y   g r iPt+i+++++ +
  PHY93_03510|PHY93_03510  28 WAEWCGPCRVLGPILDEVArELGEKADILKVNVDDNPELAQKY---GVRGIPTMIFFKNGqA 86 
                              579***************9677889999999************...99*********98743 PP

>> Thioredoxin_3  Thioredoxin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.8   0.0   1.6e-08   1.7e-05      10      75 ..      32     103 ..      23     104 .. 0.87

  Alignments for each domain:
  == domain 1  score: 24.8 bits;  conditional E-value: 1.6e-08
                              STTCHHHHHHHHHHCHCCTCECEEECC..TTHHHH.HHCT-SSSSEE..ECTTCE..EEESS---CCHHHHHH CS
            Thioredoxin_3  10 CakCpklekavkeaaaekgikaevekv..tdfeei.ekygVmsvPal..vidgkv..vvsGkvpseeeirkll 75 
                              C  C+ l  ++ e+a e+g ka++ kv   d++e+ +kygV+ +P++  + +g+   + +G v  +eei+k l
  PHY93_03510|PHY93_03510  32 CGPCRVLGPILDEVARELGEKADILKVnvDDNPELaQKYGVRGIPTMifFKNGQAskTLVG-VQAKEEIKKSL 103
                              999*******************99988779****************96556888633689*.*******9987 PP

>> Thioredoxin_7  Thioredoxin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.2   0.0   5.3e-08   5.6e-05      14      81 ..      17      81 ..       5      83 .. 0.76

  Alignments for each domain:
  == domain 1  score: 23.2 bits;  conditional E-value: 5.3e-08
                             HHHT--EEEEE--TT-HHHHHHHHHHHH-HHHHH.HHHT-EEEEESS--S-GGG.-TT-.--SSEEEEE CS
            Thioredoxin_7 14 aergkpvlvffgaswcftCqalerdflsdeevkaalaekfvllrvdvterdanilelde.qgvPvvafl 81
                              + +kpvlv+f a+wc++C++l   + +  + ++ l ek   l+v+v+ + +   + ++ +g+P+ +f+
  PHY93_03510|PHY93_03510 17 LKANKPVLVDFWAEWCGPCRVLGPILDE--VARE-LGEKADILKVNVDDNPELA-QKYGvRGIPTMIFF 81
                             5889******************986644..4666.7777777777776666644.43345789999998 PP

>> Redoxin  Redoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.7   0.0   1.2e-07   0.00013      27      78 ..      19      68 ..       5      98 .. 0.82

  Alignments for each domain:
  == domain 1  score: 21.7 bits;  conditional E-value: 1.2e-07
                             TTSEEEEEEESTTT-HHHHHTHHHHHTHHHHHHCSTTTEEEEEESSSHHHHH CS
                  Redoxin 27 kgkkvvvnfvpgafcPtCsaehpyleklaellkekgvdvvavvadndafvke 78
                             ++k+v+v f++  +c++C+   p l+++a++l+ek  d++ v++d+++   +
  PHY93_03510|PHY93_03510 19 ANKPVLVDFWAE-WCGPCRVLGPILDEVARELGEK-ADILKVNVDDNPELAQ 68
                             6899********.*******999********8888.8999999999998444 PP

>> AhpC-TSA  AhpC/TSA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.2   0.0   9.7e-08    0.0001      22      76 ..      15      69 ..       4     100 .. 0.81

  Alignments for each domain:
  == domain 1  score: 22.2 bits;  conditional E-value: 9.7e-08
                             HH..TTSEEEEEEESTST-CCHHHHHHHHHHCHHHCCCTTEEEEEEESSSCHHHHHH CS
                 AhpC-TSA 22 dy..kgkpvvlffypkdwcpvCttelpalaklyeefkergvevigvsvdspeshkkf 76
                             d+  ++kpv++ f+++ wc +C+   p l +++ e+  ++++++ v+vd+  ++++ 
  PHY93_03510|PHY93_03510 15 DVlkANKPVLVDFWAE-WCGPCRVLGPILDEVARELG-EKADILKVNVDDNPELAQK 69
                             444456**********.********************.579*******998866654 PP

>> HyaE  Hydrogenase-1 expression protein HyaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.7   0.0   1.4e-07   0.00014      49     104 ..      41      95 ..      37      99 .. 0.91

  Alignments for each domain:
  == domain 1  score: 21.7 bits;  conditional E-value: 1.4e-07
                              HHHHHHCT-TTS-EEEEEETHHHHHHHHHCCT-TSSSEEEEEETTEEEEEEESSST CS
                     HyaE  49 vlpEllkaFpnalraavvadreqeealaerfgvlktPsllflrdgeylgvlakird 104
                              +l E+ ++  + ++++ v+  +++ +la+++gv+  P+++f+++g+   +l +++ 
  PHY93_03510|PHY93_03510  41 ILDEVARELGEKADILKVN-VDDNPELAQKYGVRGIPTMIFFKNGQASKTLVGVQA 95 
                              7899**********99999.9999*********************99998888875 PP

>> DSBA  DSBA-like thioredoxin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.8   0.0   2.5e-07   0.00026     150     192 ..      57     103 ..      39     104 .. 0.85

  Alignments for each domain:
  == domain 1  score: 20.8 bits;  conditional E-value: 2.5e-07
                              HHHHHHHHHHHHHTT-SSSSEEEE..TTC..EEEESSSSHHHHHHHH CS
                     DSBA 150 keavrentaaaqslgvtGvPtvvv..dgk..rmvfGadrldtladal 192
                              k  v++n ++aq++gv+G+Pt+++  +g+  ++++G++  + +++ l
  PHY93_03510|PHY93_03510  57 KVNVDDNPELAQKYGVRGIPTMIFfkNGQasKTLVGVQAKEEIKKSL 103
                              667999******************998877889****9999988876 PP

>> DUF836  Glutaredoxin-like domain (DUF836)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.5   0.0   4.7e-07   0.00049       8      64 ..      30      95 ..      27     105 .] 0.77

  Alignments for each domain:
  == domain 1  score: 20.5 bits;  conditional E-value: 4.7e-07
                             TT-HHHHHHHHHHHHHCCCTT..EEEEEEETTT-CCCHCCCCTT.TTEEEECTTCGGB.......T CS
                   DUF836  8 pgChlCeqakekLkelkleeg..leleviDIakdeeleakYgle.ipvlalegvkktss......l 64
                             + C+ C  +  +L e++ e g   +++++++++++el +kYg++ ip + + ++ + s+      +
  PHY93_03510|PHY93_03510 30 EWCGPCRVLGPILDEVARELGekADILKVNVDDNPELAQKYGVRgIPTMIFFKNGQASKtlvgvqA 95
                             56999**********77666666*******************977999988886666554444443 PP

>> DIM1  Mitosis protein DIM1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.0   1.8e-06    0.0019      20      99 ..      20      99 ..       3     105 .] 0.81

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 1.8e-06
                             SSEEEEEEE-TT-HHHHHHHHHHHHHHHHTTTTEEEEEEETTT--TTSCCCTT-SSSEEEEEETTEEEEEE-SSS--SSB CS
                     DIM1 20 erlvviRFGrdedaeClklDelLakiaeklknfaviylvdidevpdfnkmyeledpvtilffyrnkhmkvDfgtgdnnKl 99
                             ++ v++ F  ++   C  l  +L ++a++l + a i  v++d+ p++ + y ++   t++ff +++  k  +g + ++ +
  PHY93_03510|PHY93_03510 20 NKPVLVDFWAEWCGPCRVLGPILDEVARELGEKADILKVNVDDNPELAQKYGVRGIPTMIFFKNGQASKTLVGVQAKEEI 99
                             566778999999999***************************************77777788788777766666666555 PP

>> TraF  F plasmid transfer operon protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.0   2.1e-06    0.0022     130     219 ..      21      99 ..      13     103 .. 0.81

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 2.1e-06
                     TraF 130 eygLlfFyrgkcpyceaqapilqafadkyg..levraVsvdgrplpelpnarvdkgqaarlgvkrtPalvlvdpksqkvvpvaaGl 213
                              +  L+ F ++ c+ c+ + pil+++a++ g   +++ V+vd++p   l++         ++gv+ +P++++++  +   + v  G+
  PHY93_03510|PHY93_03510  21 KPVLVDFWAEWCGPCRVLGPILDEVARELGekADILKVNVDDNPE--LAQ---------KYGVRGIPTMIFFKNGQASKTLV--GV 93 
                              55677899999*****************97226688899999987..888.........**************997666655..56 PP

                     TraF 214 lsldel 219
                               + +e+
  PHY93_03510|PHY93_03510  94 QAKEEI 99 
                              666666 PP

>> OST3_OST6  OST3 / OST6 family, transporter family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   7.9e-06    0.0083      46     109 ..      32      88 ..      26     104 .. 0.83

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 7.9e-06
                OST3_OST6  46 CelCrefepefelvakswrkdekskskklfFakvdfdegkdvFqklglnsaPhlllfppkkgpk 109
                              C +Cr + p ++ va+   ++ +         kv++d+++++ qk+g++ +P +++f+  +  k
  PHY93_03510|PHY93_03510  32 CGPCRVLGPILDEVARELGEK-A------DILKVNVDDNPELAQKYGVRGIPTMIFFKNGQASK 88 
                              999999999999999999999.3......389*************************9954433 PP

>> KaiB  KaiB domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0   1.3e-05     0.014      25      76 ..      48     100 ..      38     104 .. 0.79

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.3e-05
                              HCTTTEEEEEEETTTSHCHHCCTCEESCCCCCCC.CSCCHCCCCCCHHHCCHH CS
                     KaiB  25 dlgfqyeLqvvdvleqPelaeedrlvatPaLikl.sPePkqrlaGdlilqqlk 76 
                              +lg + ++  v+v ++Pela+++ +  +P++i   + +  ++l+G + +++ k
  PHY93_03510|PHY93_03510  48 ELGEKADILKVNVDDNPELAQKYGVRGIPTMIFFkNGQASKTLVGVQAKEEIK 100
                              46777777779********************9651567888888888777766 PP

>> TrbC_Ftype  Type-F conjugative transfer system pilin assembly protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   3.2e-05     0.034      51      94 ..      54      97 ..      35     103 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 3.2e-05
               TrbC_Ftype 51 emekasvqidPllFrqfkitaVPalvlaeedkaseeddecaaka 94
                             +  k++v+ +P+l ++++++ +P++++ ++ +as+   +++ak+
  PHY93_03510|PHY93_03510 54 DILKVNVDDNPELAQKYGVRGIPTMIFFKNGQASKTLVGVQAKE 97
                             4457788889*******************999998755555544 PP

>> DUF953  Eukaryotic protein of unknown function (DUF953)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00016      0.17      36      99 ..      30      84 ..      26     105 .] 0.77

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00016
                             BSSHHHHHHHHHHHHHHHH-SS-EEEEEEE---HHHHT-TTSHHHH..TS---SSSEEEEETSS CS
                   DUF953 36 sWCPdCvkaepvieealkeapedvklvrvdvGdrevWkdpanpfRkdpklkltgvPtLlrwkgk 99
                              WC  C +  p++ e+ +e+ e + +++v+v d +   +         k+ + g+Pt++ +k+ 
  PHY93_03510|PHY93_03510 30 EWCGPCRVLGPILDEVARELGEKADILKVNVDDNPELAQ---------KYGVRGIPTMIFFKNG 84
                             5******************************99875432.........4667778888877765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (105 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       330  (0.0184059); expected 358.6 (0.02)
Passed bias filter:                      286  (0.0159518); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              17  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.42
# Mc/sec: 742.43
//
Query:       PHY93_03515|PHY93_03515  [L=164]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    4.6e-10   39.9   3.0    9.2e-10   38.9   0.4    1.9  2  RDD          RDD family
  ------ inclusion threshold ------
        1.3    9.1   7.0        3.5    7.7   7.0    1.7  1  Potass_KdpF  F subunit of K+-transporting ATPase (Potass_KdpF
        5.1    7.6   7.4       0.22   12.0   1.6    1.7  2  PhoR         Phosphate regulon sensor protein PhoR


Domain annotation for each model (and alignments):
>> RDD  RDD family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.3     0.035   2.1e+02       6      23 ..      17      34 ..      13      37 .. 0.85
   2 !   38.9   0.4   1.5e-13   9.2e-10      49     140 ..      34     136 ..      32     137 .. 0.80

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.035
                      RDD  6 rRllAfliDlvllliisl 23
                              Rl+A  iDl+++l +s+
  PHY93_03515|PHY93_03515 17 TRLIAKGIDLFIVLCFSI 34
                             69**********998876 PP

  == domain 2  score: 38.9 bits;  conditional E-value: 1.5e-13
                      RDD  49 lllllvlllvllvyqllllsk.kgqTlGklllglkvvd.edgrklglaqaliRalllllllv........lglslvlllllligfl 124
                              ++l+ + l+++++y+ l     +gq+ Gk+ +g  v + edg++++++q++iR+l ++l+l+        ++l+ +l+++l+   l
  PHY93_03515|PHY93_03515  34 IWLYPLGLILGIIYISLSDGLgNGQSAGKKFMGFAVKSlEDGSPCSYKQSVIRNLPFILPLIlaivpfwgWILGGILAVALIGLEL 119
                              57788999999******99999*********************************9999988999999985555555555544444 PP

                      RDD 125 fvlf.srkrqalhDkla 140
                              ++l+  ++  +l D +a
  PHY93_03515|PHY93_03515 120 YLLYnLDSGHRLGDVMA 136
                              44443555567888777 PP

>> Potass_KdpF  F subunit of K+-transporting ATPase (Potass_KdpF)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   7.0   0.00059       3.5       1      16 [.     105     123 ..     105     123 .. 0.97

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.00059
                              HHHHHHHHHHHH...HHHH CS
              Potass_KdpF   1 illllvavaLlv...YLfy 16 
                              il++++avaL++   YL+y
  PHY93_03515|PHY93_03515 105 ILGGILAVALIGlelYLLY 123
                              89****************9 PP

>> PhoR  Phosphate regulon sensor protein PhoR
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.4      0.93   5.6e+03      22      22 ..      35      35 ..      16      51 .. 0.52
   2 ?   12.0   1.6   3.6e-05      0.22       8      49 ..      91     132 ..      84     141 .. 0.81

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 0.93
                     PhoR 22 l 22
                             +
  PHY93_03515|PHY93_03515 35 W 35
                             1 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 3.6e-05
                     PhoR   8 rlallllaallvgllvgalaallllalllllawhlyqllrLs 49 
                              +l l+l+++ + g+++g + a+ l++l l+l+++l   +rL 
  PHY93_03515|PHY93_03515  91 ILPLILAIVPFWGWILGGILAVALIGLELYLLYNLDSGHRLG 132
                              444555555589**********************99988885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (164 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       536  (0.0298957); expected 358.6 (0.02)
Passed bias filter:                      336  (0.0187406); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.45
# Mc/sec: 1103.59
//
Query:       PHY93_03520|PHY93_03520  [L=885]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
   1.2e-147  491.9   0.3   1.8e-147  491.3   0.3    1.3  1  DNA_pol_A       DNA polymerase family A
    4.7e-50  169.6   0.2    3.3e-49  166.9   0.0    2.3  2  5_3_exonuc_N    5'-3' exonuclease, N-terminal resolvase-like 
    2.3e-26   92.2   1.1    6.6e-26   90.8   0.1    2.3  2  5_3_exonuc      5'-3' exonuclease, C-terminal SAM fold
     0.0017   18.1   0.4     0.0033   17.1   0.4    1.4  1  DNA_pol_A_exo1  3'-5' exonuclease


Domain annotation for each model (and alignments):
>> DNA_pol_A  DNA polymerase family A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  491.3   0.3    4e-151  1.8e-147       2     376 .]     508     885 .]     507     885 .] 0.98

  Alignments for each domain:
  == domain 1  score: 491.3 bits;  conditional E-value: 4e-151
                              HHHHHHHHHHHHHHHHHHHHHHHHSS.C-STTTCCCCHHHHTCCCCS.TTSBETTSBTTTCCHHHHHT..S..CHHHHHHHHHHHH CS
                DNA_pol_A   2 eeleelseeleeeleeleeeiyelag.efnlnSpkqlaevLfeklklpekkktktgystdeevLekla..k.hplaklileyrels 83 
                              ++l+e++ el++e++++e++i+e+ g e+nlnSpkq++ +Lf+kl+lp  +ktktgystd++vLe+l+  +  +++ l+l++re++
  PHY93_03520|PHY93_03520 508 NYLREFEVELAKEIKRVETKIFEVSGgEINLNSPKQVGALLFDKLQLPVLRKTKTGYSTDADVLEELDgmNiSEIPGLLLTHREYG 593
                              579999*******************989***************************************975489************* PP

                              HHHHHTTTTGGGCCBTTTSEE--EEESSSSSSSS-EEESS-GGGS-TTSCCHHHHHHTBCG.TTCCEEEEEEETTHHHHHHHHHCT CS
                DNA_pol_A  84 klkstyvdallklinkktgrihtsfnqtvtatGrlsssepnlqnipirteegrriRkafvaeegghvllsaDysqiELRilAhlsg 169
                              k+ styv+al++l+n+ t+riht++n tv++tGrlss++pnlqnip+r+  g+++Rkaf+a++g  +ll+aDysq+ELR+lAh+s+
  PHY93_03520|PHY93_03520 594 KILSTYVKALPDLVNPTTKRIHTNYNLTVAQTGRLSSTNPNLQNIPVRSPMGEKVRKAFIAKPG-RILLAADYSQVELRLLAHFSE 678
                              ***************************************************************5.67******************* PP

                              .HHHHHHHHTTH-HHHHHHHHHCTS.GGGHHHHHHHHHHHHHHHHHTT--HHHHHHHHTSSHHHHHHHHHHHHHHSHHHHHHHHHH CS
                DNA_pol_A 170 deklieafkegeDiHsktAsevfgvpveevtkeqRrqaKainfGiiYGagakgLaeqlgiseeeAkefiekyferypgvksyleet 255
                              d+++++ f+e+ DiH++tAsev+++p+++vt+++R+ aK++nfG++YG +++gLa +l+is++ Ak++i+kyf+r++ +k++l++ 
  PHY93_03520|PHY93_03520 679 DPTMLKSFQEDLDIHTQTASEVMDIPLSQVTSKDRSMAKTVNFGLMYGQSSFGLASTLKISRTAAKAYIDKYFARFSSIKTFLDTL 764
                              ************************************************************************************** PP

                              HHHCCCECCEEETTCSEEEECTTT-CCHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEEEEEEETTEEEEEEECC CS
                DNA_pol_A 256 leeakekgyvetllgrrrylpeiksknaalrekaeraavNapiQGsAaDiiklamikieealkeeklkarlllqvHDElvfevpee 341
                              +++a+++gy et  gr+r+lp+i+s+n++ +++aer+a+N+piQG+AaDiik+ami+i++++++++lk+++llqvHDEl+fev+ee
  PHY93_03520|PHY93_03520 765 KDKAEQTGYAETYHGRKRFLPDIHSQNRTIKAQAERMAINSPIQGTAADIIKIAMINIDAEIEKRQLKSKMLLQVHDELIFEVEEE 850
                              ************************************************************************************** PP

                              CHHHHHHHHHHHHHHHHHSSS--EEEEEEESSCCC CS
                DNA_pol_A 342 eveevaelvkeamesaveldvplkvevkvGknWge 376
                              e++ ++elvk+ me++v+l+vplkve+++G nW++
  PHY93_03520|PHY93_03520 851 EIDIMKELVKRGMETVVDLKVPLKVEMGFGVNWYD 885
                              *********************************85 PP

>> 5_3_exonuc_N  5'-3' exonuclease, N-terminal resolvase-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  166.9   0.0   7.3e-53   3.3e-49       2     159 .]       6     168 ..       5     168 .. 0.95
   2 ?   -0.6   0.2      0.25   1.1e+03      52     109 ..     760     815 ..     737     865 .. 0.73

  Alignments for each domain:
  == domain 1  score: 166.9 bits;  conditional E-value: 7.3e-53
             5_3_exonuc_N   2 llLiDgsslifRayyal...lttsdgeptnavygflnmllklleeekpthlavvfDakkktfRhelypeYKanReetpeelkeqlp 84 
                              l+++D s++ifRay+a+   +t+++g pt+avyg+ +m+lk+l+e+kpth++ + D+k+ tfR+++yp+YKanR++ pe+l +q+p
  PHY93_03520|PHY93_03520   6 LIIVDVSNFIFRAYFAIqrpMTSPTGVPTKAVYGVQSMMLKMLSEHKPTHIFLARDTKGGTFRNKIYPQYKANRSAPPEDLVPQFP 91 
                              89**************88**************************************9899************************** PP

             5_3_exonuc_N  85 likevlealgikvlevegyEADDvigtlakrae.e.egvvivsgDkDllQlvednvrvldvkkeelldeeevaekyg 159
                              li ++++ +++++++ ++yEADD+ig+ + + + + ++++i sgDkDl+Q v  n+r+ld+ k++l+++++v+ek+g
  PHY93_03520|PHY93_03520  92 LIDRLINLMNLPTFSHDEYEADDIIGSACVQWKdKfDEIYIASGDKDLMQFVGGNIRMLDTMKDKLYTPADVEEKMG 168
                              *******************************6636455**************99******556778*********97 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.25
             5_3_exonuc_N  52 vfDa.kkktfRhelypeYKanReetpeelkeqlplikevlealgikvlevegyEADDvi 109
                               +D+ k+k+  +   ++Y   R+   +++++q   ik+ +e++ i+   ++g  A D+i
  PHY93_03520|PHY93_03520 760 FLDTlKDKAEQTGYAETY-HGRKRFLPDIHSQNRTIKAQAERMAINSP-IQGTAA-DII 815
                              556434434344444444.578999999999******99999999876.566544.444 PP

>> 5_3_exonuc  5'-3' exonuclease, C-terminal SAM fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   90.8   0.1   1.5e-29   6.6e-26       1      89 [.     169     257 ..     169     265 .. 0.96
   2 ?   -2.5   0.1       1.8   7.9e+03      65      89 ..     827     852 ..     808     871 .. 0.58

  Alignments for each domain:
  == domain 1  score: 90.8 bits;  conditional E-value: 1.5e-29
               5_3_exonuc   1 vkPeqiidlkaLvGDssDnipGvpgiGektAakLlkeygsleeilenldelkekklkekLeenkeearlskkLatiktdvplelel 86 
                              v+Peqi+d++++vGD+sDnipG +giG+  A+kLlkeyg+le+i++++d+lk+kk+ e+++++ e   lskkL++i td++l  + 
  PHY93_03520|PHY93_03520 169 VRPEQIVDYLSIVGDASDNIPGMKGIGAVGATKLLKEYGTLENIIAHTDQLKGKKVIEAFTDHLELGLLSKKLVQIITDLDLGHTP 254
                              79********************************************************************************9988 PP

               5_3_exonuc  87 edl 89 
                              e++
  PHY93_03520|PHY93_03520 255 EET 257
                              885 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 1.8
               5_3_exonuc  65 eearl.skkLatiktdvpleleledl 89 
                              e+ +l sk L ++++++ +e+e e++
  PHY93_03520|PHY93_03520 827 EKRQLkSKMLLQVHDELIFEVEEEEI 852
                              33333345555555555544444443 PP

>> DNA_pol_A_exo1  3'-5' exonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.4   7.4e-07    0.0033      65     145 ..     381     460 ..     328     472 .. 0.74

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 7.4e-07
                              HGHHHHHHHT-TTSEEEESSHHHHHHHHHHHHTS--SSEEEHHHHHHHTTHSTTSSHHHHHHHHHSB---GHCCTTSSTTT CS
           DNA_pol_A_exo1  65 alealkrlledenitkvghnakfDlevlardfgielenlfdtmlaayvldyershsLdsLaekylgdleldkeeqiakwqk 145
                              + +++ +++++++i+++g n+k D  +   ++++     fd +la+  ++++  h+ d La++yl+ +e+  +e  a +q 
  PHY93_03520|PHY93_03520 381 VSQLIPKIWSNPEIEVIGENLKRDFVYSLINKIEFKAARFDISLAHFNINTNTRHDVDLLAKEYLQ-IEMGADEHLACGQR 460
                              4567899******************99888899999999*******99999999************.66655555544443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (885 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       471  (0.0262703); expected 358.6 (0.02)
Passed bias filter:                      330  (0.0184059); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.74u 0.28s 00:00:01.02 Elapsed: 00:00:00.47
# Mc/sec: 5691.90
//
Query:       PHY93_03525|PHY93_03525  [L=94]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.4e-33  114.0   0.7    2.7e-33  113.9   0.7    1.0  1  Cpn10     Chaperonin 10 Kd subunit


Domain annotation for each model (and alignments):
>> Cpn10  Chaperonin 10 Kd subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  113.9   0.7   1.5e-37   2.7e-33       2      92 ..       4      94 .]       3      94 .] 0.98

  Alignments for each domain:
  == domain 1  score: 113.9 bits;  conditional E-value: 1.5e-37
                             -EE-TTEEEEEESGG-TTS-TT----HHHHHSEEEEEEEEE-T........TS-TTS--T-EEEEEGGGTSS-GG---.EEEEEGGG- CS
                    Cpn10  2 ikplgdrVlvkraeeeekteggiilpdsakekpeqGvVvaVGegarnekgedvplevkvgdkVlfpkyagtkvkvdgkeylilkekdI 89
                             ++pl+drV+v+r  ee+kt+ggii+pds  ekp+qG++vaVG+g rn++g+  +l+vkvgd+Vlf ky+gt vkv+gke l++ke++I
  PHY93_03525|PHY93_03525  4 LRPLQDRVVVQRLDEETKTAGGIIIPDSHTEKPSQGKIVAVGTGYRNTDGSIRNLDVKVGDTVLFGKYSGTPVKVEGKEVLVMKEDEI 91
                             79************************************************************************************** PP

                             -EE CS
                    Cpn10 90 lav 92
                             l++
  PHY93_03525|PHY93_03525 92 LGI 94
                             *86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (94 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       322  (0.0179597); expected 358.6 (0.02)
Passed bias filter:                      270  (0.0150594); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.27s 00:00:00.74 Elapsed: 00:00:00.47
# Mc/sec: 599.03
//
Query:       PHY93_17185|PHY93_17185  [L=137]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (137 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       416  (0.0232026); expected 358.6 (0.02)
Passed bias filter:                      329  (0.0183502); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.22s 00:00:00.75 Elapsed: 00:00:00.46
# Mc/sec: 899.57
//
Query:       PHY93_03530|PHY93_03530  [L=546]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
   4.4e-103  345.5  18.8   6.4e-103  345.0  18.8    1.2  1  Cpn60_TCP1  TCP-1/cpn60 chaperonin family
     0.0012   18.0   3.0     0.0096   15.1   0.5    2.8  3  Lar_N       Lactate racemase N-terminal domain


Domain annotation for each model (and alignments):
>> Cpn60_TCP1  TCP-1/cpn60 chaperonin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  345.0  18.8  7.1e-107  6.4e-103       1     489 [.      22     523 ..      22     525 .. 0.94

  Alignments for each domain:
  == domain 1  score: 345.0 bits;  conditional E-value: 7.1e-107
                              HHHHHHCCSSTTXXEEEEEETTSEEEEEXSHHHHHHCSXXXSHH....HHHHHHHHHHCCCCCTTCHHHHHHHHHHHHHHHHHHHH CS
               Cpn60_TCP1   1 ladivkttlGPkGmdKmlvnkggkvvvTnDGatilkeleiehPa....akllveaaesqdeevGDGTttvviLageLleeaeklia 82 
                              la++vk+tlGPkG+++++++++g++ +T+DG+t++ke+e+e+      a+++ e+a++++e +GDGTtt+++La+++ +e+ kl++
  PHY93_03530|PHY93_03530  22 LANAVKVTLGPKGRNVVIQKSFGAPHITKDGVTVAKEIELENNFenmgAQMVKEVAQKTNEDAGDGTTTATVLAQAIYREGVKLVS 107
                              79*****************************************9999*************************************** PP

                              CTXXHHHHHHHHHHHHHHHHHHHHHHXEEBXSCSTT.HHHHHHHHHHCTTSSXXSTHHHHHHHHHHHHHCHCCCSEECSCCCEECC CS
               Cpn60_TCP1  83 agvhpttiiegyekalekaleaLkeiaveisseekdreeLlkvartslsskltskeaeelsklvvdAvklieenekeldlgrikvv 168
                              ag +p ++++g++ a+ek++  Lke+++e++++    ee+++v ++s +++       e++kl+ +A+          ++g+ +v+
  PHY93_03530|PHY93_03530 108 AGHNPMDLKRGIDLAVEKVVTRLKEMSKEVKTS----EEIAQVGTISGNND------IEIGKLISEAM---------AKVGNNGVI 174
                              **************************9999988....9*************......89*********.........99******* PP

                              CCEECECTTSEEE..SEEEESS--SST.......TSSCEEECEEEEEESS-BS--HHCCHHHCCCCSCCHHHHHHHHHHHHHHHHH CS
               Cpn60_TCP1 169 kieggsledselv..eGlvldkgvlsp.......dmpkklenakvllldvsLeiektetkttvvlsdaeeleklekaeekqleell 245
                              +ie+++  +++l+  +G+++d+g+lsp       +m+ +++n+++l+++++++  k+                        +++ll
  PHY93_03530|PHY93_03530 175 TIEESKTAETTLEvvRGMQFDRGYLSPyfvnnpeKMEVTFDNCNILITEKKISSMKE------------------------ILPLL 236
                              *******77765555***************9999999999*****************........................***** PP

                              HHHHHTTECEEEESS-B-HHHHHHHHHCT-EEE-S-...........-HHHHHHHHHHHT--EBSCG..GGGGCGC...-EEEEEE CS
               Cpn60_TCP1 246 ekiiksgvnvvvcqkgiddlalhflakngilalrrv...........kkkdlerlakatGatavssl..edltpee...lGtakkv 315
                              ek ++sg+++++++++id +al++l+ n++++  +v           +k++l+++a++tGat++s+   ++l+ +    +G+ak++
  PHY93_03530|PHY93_03530 237 EKTVQSGKQLLIIAEDIDGEALTTLVVNKLRGTLQVaavkapgfgdrRKEMLKDIAIITGATVISEElgMSLETSGvevMGSAKRI 322
                              ******************************************************************96744443224559****** PP

                              EECCETTCCEEEEE...................................CESSSSXEEEEEEESTCCCHHHHHHHHHHHHHHHHHH CS
               Cpn60_TCP1 316 eeekigsekttiie...................................evksgkiatillrgatdtvldeieraiedAlnvvkna 366
                                 +i +ekt+i++                                      +g++a+i+++++t+t+++e+++++edA +++++a
  PHY93_03530|PHY93_03530 323 ---TIDKEKTIIVDgngtkadiqarvgaikaqiadttsdydkeklkerlAKIDGGVAVIKVGAPTETEMKEKKDRVEDAFHATRAA 405
                              ...***********8888888888877777777776666666666555522899******************************** PP

                              HHHHEEEETTTCHHHHHHHHHHCCCCTSXCCHHHHHHHHHHHHTHHHHHHHHHCTSXHHHHHHHHHHHHHTTXTTEEEETTTTCEE CS
               Cpn60_TCP1 367 iedekvvpGGGatelelakklkeyaksvsgeeqlaieafakALevipktLaeNaGldpievlaklraahnkgekelgidvesgeii 452
                              +e e++v+GGG+++l+++  l +  k  ++ee+++i+++++ALe++++++a+NaGl++  v+++++a  nk+  ++g+++++++++
  PHY93_03530|PHY93_03530 406 VE-EGIVVGGGSALLHASLVL-ADLKGRNEEENFGIRIIRRALEEPLRQIATNAGLEGSVVVNEVKA--NKDA-SFGFNARDEKYE 486
                              **.******************.888889***************************************..6666.99********** PP

                              ECCCCTXEEEHHHHHHHHHHHHHHHHHHHCEEEEEXX CS
               Cpn60_TCP1 453 dlveagvvDplkvkrqalksAteaastiLrideiika 489
                              +l+ ag+vDp+kv+r+al++A+++a ++L+++ +i +
  PHY93_03530|PHY93_03530 487 NLILAGIVDPTKVVRSALQNASSIAGLMLTTETMIAD 523
                              **********************************986 PP

>> Lar_N  Lactate racemase N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.5   1.1e-06    0.0096      86     162 ..      98     172 ..      89     176 .. 0.87
   2 ?    1.6   0.0     0.014   1.3e+02      47      87 ..     236     276 ..     228     301 .. 0.90
   3 ?   -1.8   0.0      0.16   1.4e+03      31      48 ..     439     456 ..     426     465 .. 0.75

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.1e-06
                    Lar_N  86 vkdeditilvAtGlHrkqteeelkkilGeevvkrikvvnhdaedksslvklGttskGtpveinklvaeadlviltGf 162
                              + +e ++++ A   H +++ +  +++  e+vv r+k ++++ + +++++++Gt s + ++ei kl+ ea  ++  + 
  PHY93_03530|PHY93_03530  98 IYREGVKLVSA--GHNPMDLKRGIDLAVEKVVTRLKEMSKEVKTSEEIAQVGTISGNNDIEIGKLISEAMAKVGNNG 172
                              55666777666..4999****************************************************99987665 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.014
                    Lar_N  47 leelvkekekvvivvsDiTRptpskiilpllleelkeagvk 87 
                              le++v+++++++i+ +Di     +  ++++l  +l+ a+vk
  PHY93_03530|PHY93_03530 236 LEKTVQSGKQLLIIAEDIDGEALTTLVVNKLRGTLQVAAVK 276
                              7899**************99999999999999888887776 PP

  == domain 3  score: -1.8 bits;  conditional E-value: 0.16
                    Lar_N  31 eeaieeaLenpigsekle 48 
                                +i++aLe+p+++ + +
  PHY93_03530|PHY93_03530 439 IRIIRRALEEPLRQIATN 456
                              579********9886655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (546 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       666  (0.0371465); expected 358.6 (0.02)
Passed bias filter:                      400  (0.0223102); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.67u 0.27s 00:00:00.94 Elapsed: 00:00:00.46
# Mc/sec: 3552.22
//
Query:       PHY93_03535|PHY93_03535  [L=180]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.4e-06   28.5   8.9    2.1e-06   27.9   8.9    1.4  1  DUF1640         Protein of unknown function (DUF1640)
    0.00014   21.8   1.7    0.00038   20.4   0.2    1.9  2  Apolipoprotein  Apolipoprotein A1/A4/E domain
    0.00094   17.3   0.7     0.0011   17.0   0.7    1.1  1  Prominin        Prominin
  ------ inclusion threshold ------
      0.034   14.2   3.0      0.047   13.7   3.0    1.2  1  DUF1451         Zinc-ribbon containing domain
      0.079   13.4   4.4       0.15   12.5   0.3    2.4  2  SAPIS-gp6       Pathogenicity island protein gp6 in Staphyloc
       0.11   12.6   7.1        1.2    9.3   6.6    2.1  2  PKK             Polo kinase kinase
       0.13   11.6   1.4        3.7    6.8   0.2    2.0  2  DUF3810         Protein of unknown function (DUF3810)
       0.37   11.6   4.5       0.86   10.5   2.6    2.3  3  FliT            Flagellar protein FliT
       0.88    9.7   6.2        8.8    6.5   0.1    3.5  4  Col_cuticle_N   Nematode cuticle collagen N-terminal domain
        1.2    9.6   5.4         13    6.3   0.2    3.1  3  COMP            Cartilage oligomeric matrix protein
        3.8    7.1  11.6        6.9    6.2  11.5    1.5  1  DUF4795         Domain of unknown function (DUF4795)


Domain annotation for each model (and alignments):
>> DUF1640  Protein of unknown function (DUF1640)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.9   8.9   1.3e-09   2.1e-06      50     129 ..      50     137 ..      14     169 .. 0.85

  Alignments for each domain:
  == domain 1  score: 27.9 bits;  conditional E-value: 1.3e-09
                  DUF1640  50 kseylqkaalselrkevqisersefaalrseteklqreleklkqkLreeidklkadirldlnleKgrireelakleaki....... 128
                               + +  k  l+e+r+e++  ++s   ++++ +    ++++k k +++ e++ l+++i+ ++n+ +++i+ e++ l+a+        
  PHY93_03535|PHY93_03535  50 HMDLDLKTGLQEVRDEIRQDRESNKLEFQKIRHDSAVDMDKFKVEMKTEMTGLRSEIKSEMNDLRTEIKSEMNDLRAEFkadvgil 135
                              5566778889*****************************************************************99985555555 PP

                  DUF1640 129 .q 129
                               +
  PHY93_03535|PHY93_03535 136 kT 137
                              51 PP

>> Apolipoprotein  Apolipoprotein A1/A4/E domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.1       0.3   4.9e+02      42      59 ..      55      72 ..      50      80 .. 0.60
   2 !   20.4   0.2   2.4e-07   0.00038      27      94 ..      91     158 ..      77     161 .. 0.87

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.3
                             HHHHHHHHHHHCCCCHHH CS
           Apolipoprotein 42 lraeleevrarlepyrde 59
                             l++ l+evr+ + ++r+ 
  PHY93_03535|PHY93_03535 55 LKTGLQEVRDEIRQDRES 72
                             445555666666665554 PP

  == domain 2  score: 20.4 bits;  conditional E-value: 2.4e-07
                              HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHCCCHHHHHHHHHCCHHHHHHHHHHHHCHHCCH CS
           Apolipoprotein  27 lrdrlskeleelrarlraeleevrarlepyrdevqeqlgqnleelrqrlapyteelrerlaadaeelq 94 
                              ++  +  e  +lr ++++e++++r  +++ ++++++++++ +  l+ +l +  + +  +++++ + + 
  PHY93_03535|PHY93_03535  91 FKVEMKTEMTGLRSEIKSEMNDLRTEIKSEMNDLRAEFKADVGILKTELRSEMDYRFGQVDKRFDRIN 158
                              66678889999**************************************9999999999999988775 PP

>> Prominin  Prominin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.7   6.8e-07    0.0011     303     423 ..      44     170 ..      15     173 .. 0.76

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 6.8e-07
                 Prominin 303 leiekldtskcl.dqlpnvdevlealeevletnlssivkeglarlneipekvknqtaevvpdlkkalakgreqikklakkip.rea 386
                              ++++++ ++ +l   l++v +++++ +e  + ++++i +++  ++++ +  +k++++++ +++k+++++ r++ik++ ++++ + +
  PHY93_03535|PHY93_03535  44 QTNHFYHMDLDLkTGLQEVRDEIRQDRESNKLEFQKIRHDSAVDMDKFKVEMKTEMTGLRSEIKSEMNDLRTEIKSEMNDLRaEFK 129
                              445566666666668899999999999999***************************************************74333 PP

                 Prominin 387 ldavi..sdle.nterssktfddvvekyekyr.wliglivc 423
                              +d  i   +l  ++  +  + d+ +++ ++y  wl+gliv+
  PHY93_03535|PHY93_03535 130 ADVGIlkTELRsEMDYRFGQVDKRFDRINQYFiWLAGLIVA 170
                              44333113444444455556666666666663366666665 PP

>> DUF1451  Zinc-ribbon containing domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   3.0   2.9e-05     0.047      13     109 ..      54     150 ..      44     153 .. 0.96

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 2.9e-05
                  DUF1451  13 eleelvekakeklseaeeltkeelelvaeylkrDleeaarsleeskeeleewlsldlelieesllealasiaDktqvelaelaedl 98 
                              +l+  ++++++++++  e +k e +++++    D+ +++ +++++   l+++ + +++ ++ ++ +++ ++  + + ++  l+++l
  PHY93_03535|PHY93_03535  54 DLKTGLQEVRDEIRQDRESNKLEFQKIRHDSAVDMDKFKVEMKTEMTGLRSEIKSEMNDLRTEIKSEMNDLRAEFKADVGILKTEL 139
                              68999********************************************************************************* PP

                  DUF1451  99 ehagvyqsGev 109
                              +++  y+ G+v
  PHY93_03535|PHY93_03535 140 RSEMDYRFGQV 150
                              *******9997 PP

>> SAPIS-gp6  Pathogenicity island protein gp6 in Staphylococcus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.3   9.3e-05      0.15      31      59 ..      51      79 ..      41      87 .. 0.91
   2 ?    2.0   0.5      0.17   2.8e+02      33      61 ..      93     121 ..      81     128 .. 0.62

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 9.3e-05
                SAPIS-gp6 31 vdlDiKnnmqeiskElreneqekkkeyqe 59
                             +dlD+K  +qe+  E+r+ + ++k e+q+
  PHY93_03535|PHY93_03535 51 MDLDLKTGLQEVRDEIRQDRESNKLEFQK 79
                             69********************9999875 PP

  == domain 2  score: 2.0 bits;  conditional E-value: 0.17
                SAPIS-gp6  33 lDiKnnmqeiskElreneqekkkeyqesl 61 
                               ++K  m+ + +E++ +  + + e + ++
  PHY93_03535|PHY93_03535  93 VEMKTEMTGLRSEIKSEMNDLRTEIKSEM 121
                              34677777777777776666666655555 PP

>> PKK  Polo kinase kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.3   6.6   0.00072       1.2      43     105 ..      68     127 ..      42     131 .. 0.69
   2 ?    6.8   0.4    0.0041       6.7      47      79 ..     108     140 ..     102     156 .. 0.42

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.00072
                      PKK  43 qeqaqelrelpkriraEqkkelakFkesLkqekkelkqevreklkkfqrkeklrqkkeeleqe 105
                              q+ +   + +  +ir +   ++ kFk ++k e++ l++e   k   ++ + +++ +++ l++e
  PHY93_03535|PHY93_03535  68 QDRE-SNKLEFQKIRHDSAVDMDKFKVEMKTEMTGLRSEI--KSEMNDLRTEIKSEMNDLRAE 127
                              3333.34556677999999999999999999999999998..555555555666666666554 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.0041
                      PKK  47 qelrelpkriraEqkkelakFkesLkqekkelk 79 
                              +e+ +l   i++E++   a+Fk    + k+el+
  PHY93_03535|PHY93_03535 108 SEMNDLRTEIKSEMNDLRAEFKADVGILKTELR 140
                              233333333333333333333333333333333 PP

>> DUF3810  Protein of unknown function (DUF3810)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   0.2     0.014        23     233     275 ..      40      81 ..      37      97 .. 0.82
   2 ?    6.8   0.2    0.0022       3.7      96     149 ..     103     160 ..      85     164 .. 0.74

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.014
                  DUF3810 233 alsyvlnalykadeeayeellktispevledlkeereywekye 275
                              +l+  +n +y +d +  +  l+++++e+++d ++++  ++k++
  PHY93_03535|PHY93_03535  40 ILKAQTNHFYHMDLD-LKTGLQEVRDEIRQDRESNKLEFQKIR 81 
                              678889999999999.89999***************9999952 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.0022
                  DUF3810  96 eeyseeelaelaeklveklnelreqverde....eevrkeakkaykklgeeypllsgf 149
                              +++ ++e+ +l++++ +++n+lr++++ d     +e+r+e+   + ++++++++++++
  PHY93_03535|PHY93_03535 103 RSEIKSEMNDLRTEIKSEMNDLRAEFKADVgilkTELRSEMDYRFGQVDKRFDRINQY 160
                              3444778888888888888888888888888988779999999999999888887665 PP

>> FliT  Flagellar protein FliT
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.2      0.47   7.7e+02      66      80 ..      60      74 ..      50      87 .. 0.57
   2 ?   10.5   2.6   0.00052      0.86      28      78 ..      81     127 ..      60     131 .. 0.83
   3 ?   -2.8   0.0       7.5   1.2e+04      56      74 ..     138     156 ..     135     159 .. 0.65

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.47
                             HHHHHHHCHTHHHHH CS
                     FliT 66 delqkllgalrrqrk 80
                             +e+++++++ r ++k
  PHY93_03535|PHY93_03535 60 QEVRDEIRQDRESNK 74
                             444444444444433 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 0.00052
                              HCS--ST--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHTHHH CS
                     FliT  28 reldaaplspaereekrellrrilandaeirallqprldelqkllgalrrq 78 
                              r+    + + ++ + k e++ ++  +  ei++ ++  ++e+++++++lr +
  PHY93_03535|PHY93_03535  81 RH----DSAVDMDKFKVEMKTEMTGLRSEIKSEMNDLRTEIKSEMNDLRAE 127
                              33....3477888999********************************987 PP

  == domain 3  score: -2.8 bits;  conditional E-value: 7.5
                              HHHHHHHHHHHHHHHHHCH CS
                     FliT  56 eirallqprldelqkllga 74 
                              e+r+ ++ r  ++ k +++
  PHY93_03535|PHY93_03535 138 ELRSEMDYRFGQVDKRFDR 156
                              6777777777777776665 PP

>> Col_cuticle_N  Nematode cuticle collagen N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0       2.1   3.4e+03      25      35 ..      59      69 ..      57      72 .. 0.80
   2 ?    4.3   0.1     0.027        44      25      42 ..      77      94 ..      76      97 .. 0.88
   3 ?    6.5   0.1    0.0054       8.8      23      41 ..     108     126 ..     105     130 .. 0.87
   4 ?   -1.2   0.0       1.3   2.2e+03      28      38 ..     135     145 ..     131     145 .. 0.81

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 2.1
            Col_cuticle_N 25 iqsfqsevlde 35
                             +q++++e+ ++
  PHY93_03535|PHY93_03535 59 LQEVRDEIRQD 69
                             58999999877 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.027
            Col_cuticle_N 25 iqsfqsevldemdefktr 42
                              q ++ +   +md fk++
  PHY93_03535|PHY93_03535 77 FQKIRHDSAVDMDKFKVE 94
                             5899************86 PP

  == domain 3  score: 6.5 bits;  conditional E-value: 0.0054
            Col_cuticle_N  23 ndiqsfqsevldemdefkt 41 
                              ++++++++e+ +em++ ++
  PHY93_03535|PHY93_03535 108 SEMNDLRTEIKSEMNDLRA 126
                              799***********98776 PP

  == domain 4  score: -1.2 bits;  conditional E-value: 1.3
            Col_cuticle_N  28 fqsevldemde 38 
                              +++e+ +emd+
  PHY93_03535|PHY93_03535 135 LKTELRSEMDY 145
                              68899999986 PP

>> COMP  Cartilage oligomeric matrix protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.3   0.2    0.0082        13      13      28 ..      55      70 ..      53      75 .. 0.81
   2 ?    4.3   0.4     0.034        55      20      31 ..     106     117 ..      90     130 .. 0.57
   3 ?   -3.1   0.0       7.3   1.2e+04      20      25 ..     135     140 ..     132     143 .. 0.55

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.0082
                     COMP 13 ltqllkeLreelrqQv 28
                             l   l+e+r+e+rq +
  PHY93_03535|PHY93_03535 55 LKTGLQEVRDEIRQDR 70
                             55569********976 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.034
                     COMP  20 LreelrqQvkEi 31 
                              ++ e+ + + Ei
  PHY93_03535|PHY93_03535 106 IKSEMNDLRTEI 117
                              444444444443 PP

  == domain 3  score: -3.1 bits;  conditional E-value: 7.3
                     COMP  20 Lreelr 25 
                              L++elr
  PHY93_03535|PHY93_03535 135 LKTELR 140
                              555555 PP

>> DUF4795  Domain of unknown function (DUF4795)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.2  11.5    0.0042       6.9      81     162 ..      26     130 ..       7     147 .. 0.60

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.0042
                  DUF4795  81 vsrdq.................fDeakkeLekmleellekle....eqeealkkaldtLqeelke.kld.rlelepLkeqleerlk 143
                              v+r+                  f ++  +L+ +l+e+++ +     ++  + +k+  +   ++++ k++ + e++ L+++++++++
  PHY93_03535|PHY93_03535  26 VDREAisteemivlilkaqtnhFYHMDLDLKTGLQEVRDEIRqdreSNKLEFQKIRHDSAVDMDKfKVEmKTEMTGLRSEIKSEMN 111
                              44444444444444444444446666666666666666665544445555555555555566665455588888888888888888 PP

                  DUF4795 144 elqkelqeamekedkedea 162
                               l++e+++ m+ ++ e++a
  PHY93_03535|PHY93_03535 112 DLRTEIKSEMNDLRAEFKA 130
                              8888888777776654333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (180 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1109  (0.0618551); expected 358.6 (0.02)
Passed bias filter:                      516  (0.0287802); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.57u 0.30s 00:00:00.86 Elapsed: 00:00:00.47
# Mc/sec: 1163.32
//
Query:       PHY93_03540|PHY93_03540  [L=301]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    6.1e-09   35.7   0.0    8.6e-09   35.3   0.0    1.2  1  DUF900       Alpha/beta hydrolase of unknown function (DUF900
  ------ inclusion threshold ------
      0.016   14.5   0.0      0.076   12.3   0.0    1.8  1  Hydrolase_4  Serine aminopeptidase, S33
      0.028   14.0   0.0      0.043   13.3   0.0    1.5  1  DUF676       Putative serine esterase (DUF676)


Domain annotation for each model (and alignments):
>> DUF900  Alpha/beta hydrolase of unknown function (DUF900)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.3   0.0   1.4e-12   8.6e-09       8     223 ..      39     263 ..      33     273 .. 0.72

  Alignments for each domain:
  == domain 1  score: 35.3 bits;  conditional E-value: 1.4e-12
                   DUF900   8 alakelkksaakeilvfvhGynnsFedavlraaqiaddlknqgaivvfsWPsagklldynyDresaeasrdalekllrylatk... 90 
                               l+k+ + +++k+il +vhG n + e+   +++ + ++++  +++v++ W +  ++l   +   +ae +++ l +++r+++     
  PHY93_03540|PHY93_03540  39 ILEKFASENPEKNILFYVHGRNHHMEKEWDKLSVLENSYN--VKVVMLHWDAWSSFLSRAVA--NAEVTAEPLSEAFREIRDFkes 120
                              578899999************************9988875..5788999********99875..5667788899999999876334 PP

                   DUF900  91 ....ksakkihllaHSmGtwlvlealrqlaieadepavea.kikeviLaAPDidvdvfkkqleslgkeskeltvyvsrdDraLklS 171
                                    ++ki+ll+HSmG+ ++ +  ++   +++  +++   +++++ +++D+ +    + + s  + +++ ++++ ++D +L lS
  PHY93_03540|PHY93_03540 121 hrefFINHKISLLCHSMGNLVLKNFTEKYLDRDQY-NIDSpLFENYLGVSADVPLIDH-RYWLSRFNLARNKHIIMNNRDIVLLLS 204
                              444444689******************99999986.67667***********998333.444455566777899999999999999 PP

                   DUF900 172 aliegd.....asRlGaldpdee.reellskgvevvDlskvkesdl..lnhskfasnpev 223
                               ++        + RlG   ++   + +   kg  v D++ ++ s++   +h++f+ +  v
  PHY93_03540|PHY93_03540 205 YSLDLKdrnpfQYRLGLGFDNYPgK-KDQIKGKLVNDVTYIDLSGVleSQHGYFLPKTPV 263
                              9886441222245888766555532.2222333333444444333311246677665555 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   1.3e-05     0.076       4      98 ..      50     150 ..      47     163 .. 0.70

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 1.3e-05
              Hydrolase_4   4 kavvvlvHGlaehsgryaelaeaL.aaqGfavyalDhrGhGrse.....gkrghvpsfddyvdDlaafvekvkeehpelplfllGh 83 
                              k +++ vHG++ h+++  +    L +  +++v++l +  +         ++ +  +++++  + ++ f e ++e   + ++ ll+h
  PHY93_03540|PHY93_03540  50 KNILFYVHGRNHHMEKEWDKLSVLeNSYNVKVVMLHWDAWSSFLsravaNAEVTAEPLSEAFREIRDFKESHREFFINHKISLLCH 135
                              556666666666666555544444133455555554444432223356667777889999999*********************** PP

              Hydrolase_4  84 SmGGliallyllryp 98 
                              SmG l+  +++++y 
  PHY93_03540|PHY93_03540 136 SMGNLVLKNFTEKYL 150
                              ******999998875 PP

>> DUF676  Putative serine esterase (DUF676)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   7.2e-06     0.043      66     101 ..     113     150 ..      36     170 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 7.2e-06
                   DUF676  66 evlevvkkkkdk..nkkiSfvghSlGgliaraaiaklk 101
                              e++++ ++ ++   n kiS++ hS+G+l+ +    k  
  PHY93_03540|PHY93_03540 113 EIRDFKESHREFfiNHKISLLCHSMGNLVLKNFTEKYL 150
                              4444444444439999************9876665555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (301 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       573  (0.0319594); expected 358.6 (0.02)
Passed bias filter:                      419  (0.02337); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.44
# Mc/sec: 2037.60
//
Query:       PHY93_03545|PHY93_03545  [L=112]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (112 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       355  (0.0198003); expected 358.6 (0.02)
Passed bias filter:                      274  (0.0152825); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.24s 00:00:00.72 Elapsed: 00:00:00.44
# Mc/sec: 760.97
//
Query:       PHY93_03550|PHY93_03550  [L=265]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.5e-09   37.9   0.1    2.3e-09   37.3   0.1    1.4  1  Peptidase_M10  Matrixin
     0.0001   22.0   0.0    0.00017   21.3   0.0    1.3  1  Reprolysin_4   Metallo-peptidase family M12B Reprolysin-like
     0.0008   18.7   0.1     0.0013   18.0   0.1    1.3  1  DUF4953        Met-zincin
     0.0023   17.9   0.0     0.0034   17.4   0.0    1.3  1  Peptidase_M54  Peptidase family M54
     0.0023   16.6   0.2     0.0053   15.4   0.1    1.5  2  Metallopep     Putative peptidase family
     0.0029   18.1   0.1     0.0083   16.6   0.1    1.7  1  Reprolysin_3   Metallo-peptidase family M12B Reprolysin-like
     0.0067   16.6   0.5       0.01   16.0   0.5    1.4  1  Reprolysin_5   Metallo-peptidase family M12
  ------ inclusion threshold ------
      0.012   15.7   0.0      0.022   14.9   0.0    1.4  1  Zincin_1       Zincin-like metallopeptidase
      0.014   14.4   0.6      0.025   13.6   0.6    1.5  1  Peptidase_M66  Peptidase M66


Domain annotation for each model (and alignments):
>> Peptidase_M10  Matrixin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.3   0.1   1.2e-12   2.3e-09     104     155 ..     143     191 ..      51     193 .. 0.78

  Alignments for each domain:
  == domain 1  score: 37.3 bits;  conditional E-value: 1.2e-12
                              SSSEEHHHHHHHHHHHHTTBESXSSTTSTTSSSCTXTTTXSSXHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M10 104 eqgvslflVaaHEiGHalGLeHssdkdalmyplykeekkvrlskdDvkgiqe 155
                              + g  l +  +HEiGH+lGL+Hss  +a+m++ +++   ++l++dD++g+++
  PHY93_03550|PHY93_03550 143 NWGNTLKTTILHEIGHTLGLDHSS-ANAIMAANLSS--LTTLQQDDIQGVNA 191
                              5567789999************76.567******75..678********986 PP

>> Reprolysin_4  Metallo-peptidase family M12B Reprolysin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.0   8.6e-08   0.00017     135     191 ..     143     212 ..     121     221 .. 0.63

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 8.6e-08
             Reprolysin_4 135 ey....di.fAHEiGHtfGaaHdlsdegeglsskt....eegsgqtIMsyaseasq....eafapisirl 191
                              ++    ++ + HEiGHt+G++H+ ++    ++ +     +++  q + + + e  +     +++p s++ 
  PHY93_03550|PHY93_03550 143 NWgntlKTtILHEIGHTLGLDHSSANAIMAANLSSlttlQQDDIQGVNAVVDETIKrqstGYVSPYSVTT 212
                              44433344599**************776665444333554444444444443322222346777777766 PP

>> DUF4953  Met-zincin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.1   6.6e-07    0.0013       9      30 ..     144     165 ..     138     184 .. 0.85

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 6.6e-07
                  DUF4953   9 mgallrfvvaHEvGhtLGLrhN 30 
                               g+ l+  + HE+GhtLGL+h 
  PHY93_03550|PHY93_03550 144 WGNTLKTTILHEIGHTLGLDHS 165
                              578899***************6 PP

>> Peptidase_M54  Peptidase family M54
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.0   1.7e-06    0.0034     148     171 ..     151     174 ..     116     187 .. 0.89

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 1.7e-06
                              HHHHHHHHHTT----S-TSTTS-- CS
            Peptidase_M54 148 evlhelGhlyGLshCkedCvmnfs 171
                               +lhe+Gh++GL h + + +m   
  PHY93_03550|PHY93_03550 151 TILHEIGHTLGLDHSSANAIMAAN 174
                              589*****************9764 PP

>> Metallopep  Putative peptidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0      0.73   1.4e+03       6      26 ..     119     139 ..     116     150 .. 0.81
   2 !   15.4   0.1   2.7e-06    0.0053     318     342 ..     152     177 ..     138     186 .. 0.82

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 0.73
               Metallopep   6 nlqdneevsqpvvlvkGkise 26 
                               +++++ ++q+v++++G++s 
  PHY93_03550|PHY93_03550 119 RYNQGTYFQQTVIILNGSLSY 139
                              67889999*********9875 PP

  == domain 2  score: 15.4 bits;  conditional E-value: 2.7e-06
               Metallopep 318 flHEiGHllglpHqed.Gvmlrdyda 342
                              +lHEiGH+lgl H ++  +m+ + + 
  PHY93_03550|PHY93_03550 152 ILHEIGHTLGLDHSSAnAIMAANLSS 177
                              69***********98779**987765 PP

>> Reprolysin_3  Metallo-peptidase family M12B Reprolysin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.1   4.2e-06    0.0083     101     124 .]     142     165 ..     115     165 .. 0.75

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 4.2e-06
             Reprolysin_3 101 svlgkvgadtvaHEiGHnfganHt 124
                              +  g++ + t+ HEiGH +g++H+
  PHY93_03550|PHY93_03550 142 QNWGNTLKTTILHEIGHTLGLDHS 165
                              334556679**************6 PP

>> Reprolysin_5  Metallo-peptidase family M12
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.5   5.1e-06      0.01     132     163 ..     115     169 ..      41     211 .. 0.65

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 5.1e-06
             Reprolysin_5 132 s......................nsvvvstatevq.vvaHElGHnfGavHDcdss 163
                                                      + +++++++++ ++ HE+GH++G  H  ++ 
  PHY93_03550|PHY93_03550 115 AitirynqgtyfqqtviilngslSYLRQNWGNTLKtTILHEIGHTLGLDHSSANA 169
                              133444444555566666677777888888888651679***********88765 PP

>> Zincin_1  Zincin-like metallopeptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.0   1.1e-05     0.022      65      89 ..     141     165 ..     126     172 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 1.1e-05
                              T--HHHHHHHHHHHHHHHHHTT-HH CS
                 Zincin_1  65 reeleeevretllHEighhfGldde 89 
                              r+++ +  ++t+lHEigh +Gld  
  PHY93_03550|PHY93_03550 141 RQNWGNTLKTTILHEIGHTLGLDHS 165
                              6789999***************975 PP

>> Peptidase_M66  Peptidase M66
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.6   1.2e-05     0.025     188     212 ..     145     168 ..      42     177 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 1.2e-05
            Peptidase_M66 188 gdatltgefiHEqGHalGLpHylag 212
                              g +tl+ + +HE GH lGL H+ a 
  PHY93_03550|PHY93_03550 145 G-NTLKTTILHEIGHTLGLDHSSAN 168
                              4.7899999************7664 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (265 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       669  (0.0373138); expected 358.6 (0.02)
Passed bias filter:                      494  (0.0275531); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.60u 0.24s 00:00:00.84 Elapsed: 00:00:00.46
# Mc/sec: 1746.39
//
Query:       PHY93_03555|PHY93_03555  [L=154]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (154 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       665  (0.0370907); expected 358.6 (0.02)
Passed bias filter:                      388  (0.0216409); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.46
# Mc/sec: 1012.86
//
Query:       PHY93_03560|PHY93_03560  [L=136]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.12   12.1   0.1       0.18   11.6   0.1    1.2  1  DUF2299   Uncharacterized conserved protein (DUF2299)


Domain annotation for each model (and alignments):
>> DUF2299  Uncharacterized conserved protein (DUF2299)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.1   9.9e-06      0.18      53     103 ..       1      50 [.       1      55 [. 0.92

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 9.9e-06
                              EEEE--HHHHHHHHHS-HHHHHHHHHHHHHHHTTTT-EEEEE-TTS--.-E CS
                  DUF2299  53 mgvkvseehkkalsslkeeerkeflselkrdLlrlcvdfqlipqdeelpqs 103
                              m++k+se+ +++l+ lk + r+ f +++k++  ++ +df l  + ++ p+ 
  PHY93_03560|PHY93_03560   1 MKIKISEDTQRMLMLLKLDARRLF-ERIKYRAPEYMYDFSLKRSRDHFPEI 50 
                              89*******************988.****************9999877755 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (136 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       439  (0.0244855); expected 358.6 (0.02)
Passed bias filter:                      310  (0.0172904); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.24s 00:00:00.74 Elapsed: 00:00:00.45
# Mc/sec: 902.80
//
Query:       PHY93_03565|PHY93_03565  [L=165]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (165 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       672  (0.0374812); expected 358.6 (0.02)
Passed bias filter:                      465  (0.0259356); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.24s 00:00:00.74 Elapsed: 00:00:00.44
# Mc/sec: 1127.60
//
Query:       PHY93_03570|PHY93_03570  [L=226]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.023   13.3   0.8      0.026   13.1   0.8    1.1  1  FapA        Flagellar Assembly Protein A
      0.045   13.3   0.1       0.47   10.0   0.0    2.3  2  DUF4283     Domain of unknown function (DUF4283)
       0.11   12.5   5.5        1.2    9.2   2.0    2.3  2  Nup54       Nucleoporin complex subunit 54
       0.57   10.2   4.2        0.4   10.7   2.3    1.7  2  Laminin_II  Laminin Domain II
        1.2    9.7   9.5       0.17   12.4   5.7    1.5  2  APG6_N      Apg6 coiled-coil region


Domain annotation for each model (and alignments):
>> FapA  Flagellar Assembly Protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.8   7.3e-06     0.026     336     412 ..     136     207 ..      91     225 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 7.3e-06
                     FapA 336 keklkeleeeleeleeeleklkkkikklpklkaekqlesekkeqlkklletkeklkeeleeleeelkelkeeleskk 412
                              + +l+  ++e+ +  e+++ ++++++ l++     +l++e +++l+ l e+k   +++ ++le++++e++++le++k
  PHY93_03570|PHY93_03570 136 QGQLAGRNKEITAHVERVNAINARYQTLRE-----KLDQEWQKELHALDEDKTYAVRSFKDLERRRDEIDQKLEQYK 207
                              455566678888889999999999999988.....7899999********************************992 PP

>> DUF4283  Domain of unknown function (DUF4283)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.0      0.11   3.9e+02       3      46 ..      67     114 ..      65     122 .. 0.62
   2 ?   10.0   0.0   0.00013      0.47      14      85 ..     150     221 ..     143     224 .. 0.88

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.11
                  DUF4283   3 eeeaeelklclvgrfsgkk....pslsalrrvlakaWklkggvkikel 46 
                              +++++++k ++vgr s+      p+lsa +++l  + + + ++   +l
  PHY93_03570|PHY93_03570  67 KNNTQKCKSYIVGRTSDYLllkvPELSACEKYLYFVSGSYFKFYSEDL 114
                              678889999999988553334447777776666666665555555555 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00013
                  DUF4283  14 vgrfsgkkpslsalrrvlakaWklkggvkikelgdglflfrfsseedlekvleg..gpwlingkplilkrwspk 85 
                              v r++  + ++++lr+ l++ W+  ++++  + ++++ +  f+  e +++ +++  +++ i++  l+l rws +
  PHY93_03570|PHY93_03570 150 VERVNAINARYQTLREKLDQEWQ--KELHALDEDKTYAVRSFKDLERRRDEIDQklEQYKIKDENLTLDRWSLD 221
                              7788888899*************..99*****************9999998877335899999********976 PP

>> Nup54  Nucleoporin complex subunit 54
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   2.0   0.00033       1.2      40      78 ..     141     179 ..     128     183 .. 0.80
   2 ?    4.4   0.1      0.01        37      27      51 ..     185     209 ..     179     215 .. 0.86

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.00033
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                    Nup54  40 aQqkevaqhrerlkeisdrleeleqkhqletsvrlekak 78 
                                +ke+++h er+++i+ r++ l++k ++e +++l+ + 
  PHY93_03570|PHY93_03570 141 GRNKEITAHVERVNAINARYQTLREKLDQEWQKELHALD 179
                              34789****************************999875 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.01
                              EEECHHHHHHHHHHHHHHHHHHHHH CS
                    Nup54  27 pvkGFedLakRvkaQqkevaqhrer 51 
                               v++F+dL++R +  +++++q++ +
  PHY93_03570|PHY93_03570 185 AVRSFKDLERRRDEIDQKLEQYKIK 209
                              689***********99999999865 PP

>> Laminin_II  Laminin Domain II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0       1.3   4.6e+03      88     103 ..      29      44 ..      20      51 .. 0.70
   2 ?   10.7   2.3   0.00011       0.4      24      84 ..     151     212 ..     122     217 .. 0.77

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 1.3
                              HHHHHHHHHHHHHHHH CS
               Laminin_II  88 lsdniseikelIaqAR 103
                               s  is+i   I++ R
  PHY93_03570|PHY93_03570  29 FSGRISRINRAINVVR 44 
                              5667777777777766 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 0.00011
                              XXXXXXXXXXXXXXXXXX.XXXXXXXXXXXXXXXXXXXXXXX--TTTTTGGGHHHHHHHHHH CS
               Laminin_II  24 qnlentkeklseinrsve.etnekvkdankairdArrsvkkLeklapqLldklkelkqleea 84 
                              ++++ +++ +++++++++ e +++++++ +    A rs k+Le+  +++ +kl++ k + e+
  PHY93_03570|PHY93_03570 151 ERVNAINARYQTLREKLDqEWQKELHALDEDKTYAVRSFKDLERRRDEIDQKLEQYKIKDEN 212
                              3455667788888888852567889999999999********************99988887 PP

>> APG6_N  Apg6 coiled-coil region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.1       3.9   1.4e+04      98     109 ..      60      71 ..      58      73 .. 0.76
   2 ?   12.4   5.7   4.7e-05      0.17      15      94 ..     136     213 ..     129     219 .. 0.82

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 3.9
                   APG6_N  98 eerfwreynelq 109
                              + +fw e n+ q
  PHY93_03570|PHY93_03570  60 KIEFWDEKNNTQ 71 
                              568999999876 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 4.7e-05
                   APG6_N  15 dkqleqaekerdaYeeflkklkkekkeeekqdeeleeleeeleklekeeeelleeLkelekereeleaelaaleeeleal 94 
                              + ql+  +ke+ a  e  + ++++ ++ +  ++ ++e ++el +l++++  +++  k+le+ r+e++++l++++ + e+l
  PHY93_03570|PHY93_03570 136 QGQLAGRNKEITAHVERVNAINARYQTLR--EKLDQEWQKELHALDEDKTYAVRSFKDLERRRDEIDQKLEQYKIKDENL 213
                              56677777777777777777777755544..6777999**********************************99887776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (226 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1217  (0.0678789); expected 358.6 (0.02)
Passed bias filter:                      570  (0.0317921); expected 358.6 (0.02)
Passed Vit filter:                        72  (0.00401584); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.45
# Mc/sec: 1524.83
//
Query:       PHY93_03575|PHY93_03575  [L=538]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.4e-74  251.3   7.1    1.8e-74  251.0   7.1    1.1  1  SBP_bac_5  Bacterial extracellular solute-binding proteins, f


Domain annotation for each model (and alignments):
>> SBP_bac_5  Bacterial extracellular solute-binding proteins, family 5 Middle
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  251.0   7.1     1e-78   1.8e-74       1     364 [.      71     446 ..      71     458 .. 0.92

  Alignments for each domain:
  == domain 1  score: 251.0 bits;  conditional E-value: 1e-78
                              SEEESSEEEEEEEETTTTEEEEEE-TT-B-TTSSB-SHHHHHHHHHHHHTGGGHCTTHHHHHCTCTEEEEEEEETTEEEEEESSET CS
                SBP_bac_5   1 evvpaLAeswwevsdDgktytfkLRkgvkFsDGtpltAeDvvfsferlldpdtasgyaslleedqdikkveavddytvrftlkkpn 86 
                              e++paLA+s +++ +Dg++++f+LR+gvk++DG+plt eDv+fsf+ ++dp +++++a++  ++++ik++  v ++++rft  kp+
  PHY93_03575|PHY93_03575  71 EWEPALASS-YQIAKDGRSFEFTLRDGVKWQDGKPLTIEDVKFSFDAIMDPTNKYKTADKKPYYENIKSADIVGPNKIRFTVGKPY 155
                              579******.8*************************************************************************** PP

                              TTTTTHCHHHHHHHGCCHTCTCTTTTTGTTTSE-BSSSEEEEEEETTTEEEEEE-TTST......TTSCSSSSEEEEEE-.SHHHH CS
                SBP_bac_5  87 alfltllaavpasiakkaaekeddkdkdtnekpvgtGPYklkefkpgqkivlernpdYw......gggkpkldriefkvipdsdar 166
                              +++++++a +   + +  ++ +++++k  n+ ++gtGPY l++f++ + i+l+ np++w      ++g  ++  i +++i+d + +
  PHY93_03575|PHY93_03575 156 FDNFSVVATLTVVPMHLYKNPSKEQEKVLNKTLIGTGPYILQDFDRAKGITLKLNPEWWgrkdpsKKGIYNFQTISMRFIQDTTIA 241
                              *888888888887777778999999**********************************66666555666**********888888 PP

                              HHHHHTTSSSEEESTTCCTHCHHHHHTTEEE........EEEEEEEEEEEEEETTTSTGGGSHHHHHHHHHHS-HHHHHHHCTTTS CS
                SBP_bac_5 167 aaalqsGeiddvaepppsdieqlkeakglkv........lyespgggvtylafNtkkppfddkrvRqAlsyAiDreeivkavlegy 244
                              ++  ++G+id++    ++  +++k+++g k+        ++++   g+ +++fN ++p+f+ k+ R+A+ + ++r  ++k++l  +
  PHY93_03575|PHY93_03575 242 IQRIEKGDIDYID---LGAEDYMKKTSGPKWgkevikvkTQNKGVRGYAFVGFNLTNPIFASKKTREAMVHLFNRRGMIKKFLFDL 324
                              8888*****8884...5556666666666666678888999999****************************************** PP

                              SEEESSSSTTTSTTCCSCHCCCSHHSHHHHHHHHHHHTT-BCSSTSCEETC.....EEEEEEEEETTSHHHHHHHHHHHHHHHHTT CS
                SBP_bac_5 245 atpansllppsspgadeeykpaykaydpekAkklLkeaGykdgdggglrek.....klkltlllasgspaekaiaeliqqqlkkiG 325
                                pa+++l  +s +ad++ kp   +ydp+ A klLke G+k   g+++ +k     k +l +++   ++   + +++++++ k++G
  PHY93_03575|PHY93_03575 325 SLPATGPLYLQSEYADPNVKPF--EYDPKIALKLLKEDGWKVEAGDKFLSKmvggkKINLSFTIIEPDAEFVKYLTIFKEDAKQAG 408
                              ********************98..78*****************************999999************************* PP

                              EEEEEEEECHHHHHHHHHHCTTESEEEEEEECTTSTTHH CS
                SBP_bac_5 326 ikvevktvdwaatylervkdgdfdmillgwgadypdpdn 364
                              ++v+vk+v+w + + +  ++++f ++ l+wg++  d d+
  PHY93_03575|PHY93_03575 409 VDVNVKVVEW-NSFIKLLDERKFEAVRLSWGGGDLDWDP 446
                              **********.9999*****************9776554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (538 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       605  (0.0337442); expected 358.6 (0.02)
Passed bias filter:                      498  (0.0277762); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.65u 0.25s 00:00:00.90 Elapsed: 00:00:00.44
# Mc/sec: 3679.23
//
Query:       PHY93_17190|PHY93_17190  [L=129]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.1e-17   63.3   0.2    5.6e-08   32.2   0.1    2.2  2  Lipoprotein_15  Secreted repeat of unknown function
  ------ inclusion threshold ------
       0.14   10.9   0.1       0.26   10.0   0.0    1.4  2  RNA12           RNA12 protein


Domain annotation for each model (and alignments):
>> Lipoprotein_15  Secreted repeat of unknown function
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.2   0.1   6.2e-12   5.6e-08      10      45 ..      37      70 ..      29      71 .. 0.92
   2 !   29.4   0.0   4.7e-11   4.3e-07       3      45 ..      88     127 ..      86     129 .] 0.94

  Alignments for each domain:
  == domain 1  score: 32.2 bits;  conditional E-value: 6.2e-12
           Lipoprotein_15 10 kqvaykGmPLYtFakDkkpgdktGdgvgaCagvWpv 45
                              + +  G++LY F+ D+  g +t  ++g+Ca+vWp+
  PHY93_17190|PHY93_17190 37 LLADSIGKTLYVFDLDA--GSVTPKCTGDCAEVWPP 70
                             577888***********..****************8 PP

  == domain 2  score: 29.4 bits;  conditional E-value: 4.7e-11
           Lipoprotein_15   3 vtrddGtkqvaykGmPLYtFakDkkpgdktGdgvgaCagvWpv 45 
                              + r++ + q++y+G+P+Yt+  D   gd  Gd +g   gvW+ 
  PHY93_17190|PHY93_17190  88 IVRANKKAQLTYEGRPVYTYIFDRIVGDDHGDAIG---GVWHY 127
                              789999*****************************...***95 PP

>> RNA12  RNA12 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.1       0.2   1.8e+03     338     367 ..       6      35 ..       2      42 .. 0.61
   2 ?   10.0   0.0   2.9e-05      0.26     376     409 ..      83     116 ..      74     121 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 0.2
                    RNA12 338 aWklikklskkgsieynellleelfkgsae 367
                               W+l+ +ls+    +++  l++++   ++e
  PHY93_17190|PHY93_17190   6 LWTLMVSLSSLTLAHAEGTLTTQVQNDEQE 35 
                              577777777766666666666665555444 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 2.9e-05
                    RNA12 376 aelisvstedgrpskikagkPvyraafkrlvsdk 409
                              a l s+++ + +++  + g+Pvy ++f r+v d+
  PHY93_17190|PHY93_17190  83 APLGSIVRANKKAQLTYEGRPVYTYIFDRIVGDD 116
                              557799*************************996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (129 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       460  (0.0256568); expected 358.6 (0.02)
Passed bias filter:                      440  (0.0245412); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.23s 00:00:00.72 Elapsed: 00:00:00.44
# Mc/sec: 883.75
//
Query:       PHY93_03580|PHY93_03580  [L=342]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.3e-35  121.1  10.8    4.3e-35  121.1  10.8    1.8  2  BPD_transp_1  Binding-protein-dependent transport system inne


Domain annotation for each model (and alignments):
>> BPD_transp_1  Binding-protein-dependent transport system inner membrane component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.2     0.093   1.7e+03      28     119 ..      11      22 ..       1      49 [. 0.57
   2 !  121.1  10.8   2.4e-39   4.3e-35       2     183 ..     135     341 ..     134     342 .] 0.99

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.093
             BPD_transp_1  28 lslPsfvlaillvlvfvilsilghlilpviillllsaapyvrlirraalrslpkdlveaaralGasrwqifrkvvlPnalppiitg 113
                               ++P+++                                                                               
  PHY93_03580|PHY93_03580  11 IMIPTLI------------------------------------------------------------------------------- 17 
                              2333333............................................................................... PP

             BPD_transp_1 114 lilafg 119
                               +++++
  PHY93_03580|PHY93_03580  18 -GVTIV 22 
                              .22222 PP

  == domain 2  score: 121.1 bits;  conditional E-value: 2.4e-39
             BPD_transp_1   2 illGilaalnrnkkldkllrpliivllslPsfvlaillvlvf..........................vilsilghlilpviilll 61 
                              i++G+l a++ ++++d +++++ i+l+s+P f laill++ f                          +i++ ++h ilp+i  ++
  PHY93_03580|PHY93_03580 135 IIFGVLKAVKNGSTFDFISSFFLIALYSIPGFMLAILLIVYFaggsffswfpigelysdnyydlslwgKIIDRVHHFILPLICYMI 220
                              789*********************************************************************************** PP

             BPD_transp_1  62 lsaapyvrlirraalrslpkdlveaaralGasrwqifrkvvlPnalppiitglilafggllggavlleflgswpGlgtllleailg 147
                               s++ +++l+ ++ l+++ kd++++ara+G s++ ++ k++l+nal+pi+tg++  ++ ++ g++lle +++  G+g+l + +il+
  PHY93_03580|PHY93_03580 221 GSFTVLTMLMKNSLLDEIKKDYIRTARAKGISEKSVYLKHALRNALIPIVTGIGGFLAVFFAGSLLLESIFQLDGIGLLSFKSILQ 306
                              ************************************************************************************** PP

             BPD_transp_1 148 ydyseisnggvlalviavlllnlvadilqrlldprv 183
                              +dy+ i+ g++++  i++l+ nl++di + l+dpr+
  PHY93_03580|PHY93_03580 307 RDYNVIM-GLLFIESILLLIGNLLSDIAYILVDPRI 341
                              *******.***************************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (342 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       690  (0.0384851); expected 358.6 (0.02)
Passed bias filter:                      321  (0.017904); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.59u 0.24s 00:00:00.83 Elapsed: 00:00:00.45
# Mc/sec: 2275.99
//
Query:       PHY93_03585|PHY93_03585  [L=338]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.5e-33  114.3  10.8    5.5e-33  114.3  10.8    1.9  2  BPD_transp_1     Binding-protein-dependent transport system i
     0.0002   21.3  13.4    0.00039   20.3   0.3    3.5  3  OppC_N           N-terminal TM domain of oligopeptide transpo
  ------ inclusion threshold ------
        3.2    6.9   4.1         22    4.1   0.0    2.4  2  Bac_export_2     FlhB HrpN YscU SpaS Family
        7.3    6.5  15.6       0.75    9.7   7.5    2.7  3  ABC2_membrane_4  ABC-2 family transporter protein
        9.3    4.9  10.4         15    4.2   2.5    2.9  3  DUF2207          Predicted membrane protein (DUF2207)


Domain annotation for each model (and alignments):
>> BPD_transp_1  Binding-protein-dependent transport system inner membrane component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.2      0.48   1.7e+03      19      26 ..      31      38 ..      18      64 .. 0.50
   2 !  114.3  10.8   1.5e-36   5.5e-33       1     181 [.     157     337 ..     157     338 .] 0.96

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.48
             BPD_transp_1 19 llrpliiv 26
                             ll++l+i+
  PHY93_03585|PHY93_03585 31 LLLFLVIM 38
                             11111111 PP

  == domain 2  score: 114.3 bits;  conditional E-value: 1.5e-36
             BPD_transp_1   1 gillGilaalnrnkkldkllrpliivllslPsfvlaillvlvfvilsilghlilp.viillllsaapyvrlirraalrslpkdlve 85 
                              g++lG  ++ ++++k+d + ++++++l+++Psf l+i+l+      si+  + ++ +ii +++s++ + +++r ++l+++++++ve
  PHY93_03585|PHY93_03585 157 GTILGGTMG-FFGGKIDFIGQRFVEILSTVPSFFLLIILI------SIFAPSLWMlIIISCVFSWINISYYVRGEFLKNRNREFVE 235
                              7899*****.******************************......9999666666****************************** PP

             BPD_transp_1  86 aaralGasrwqifrkvvlPnalppiitglilafggllggavlleflgswpGlgtllleailgydyseis..........nggvlal 161
                              aaralGas + i++k++lPn+l+piit+++++++g + g ++l +lg    +g+++ ++++g  +s+++            ++lal
  PHY93_03585|PHY93_03585 236 AARALGASNRSIIFKHILPNSLTPIITFAPFTIAGEIVGLAALDYLG----FGLQVPTPSWGELLSQAQknytiawwlaLYPSLAL 317
                              ***********************************************....**************************9999***** PP

             BPD_transp_1 162 viavlllnlvadilqrlldp 181
                               i++ llnl+   + ++ dp
  PHY93_03585|PHY93_03585 318 FIVLTLLNLIGQGVRDAMDP 337
                              *********99999998887 PP

>> OppC_N  N-terminal TM domain of oligopeptide transport permease C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.3   0.3   1.1e-07   0.00039       6      42 ..      15      53 ..      11      69 .. 0.83
   2 !    6.0   3.3    0.0032        11      22      36 ..     188     202 ..     187     220 .. 0.90
   3 ?   -0.8   0.1      0.42   1.5e+03      20      32 ..     315     327 ..     314     333 .. 0.66

  Alignments for each domain:
  == domain 1  score: 20.3 bits;  conditional E-value: 1.1e-07
                   OppC_N  6 awrrFkrNklAvvglvilllllliaifaPliaPydp..q 42
                              w+ Fk+ k  +++ ++ll+l+++ +  Plia+  p   
  PHY93_03585|PHY93_03585 15 RWKIFKSRKSTIFASILLLFLVIMTFCSPLIANSRPmiL 53
                             5******************************97666551 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.0032
                   OppC_N  22 illlllliaifaPli 36 
                              ++ll++li+ifaP +
  PHY93_03585|PHY93_03585 188 FFLLIILISIFAPSL 202
                              7899*********98 PP

  == domain 3  score: -0.8 bits;  conditional E-value: 0.42
                   OppC_N  20 lvilllllliaif 32 
                              l+++++l+l+ ++
  PHY93_03585|PHY93_03585 315 LALFIVLTLLNLI 327
                              6677777776555 PP

>> Bac_export_2  FlhB HrpN YscU SpaS Family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.1   0.0    0.0061        22      13      58 ..      10      55 ..       7      90 .. 0.82
   2 ?    1.5   3.1     0.038   1.4e+02      34     192 ..     146     197 ..     132     320 .. 0.68

  Alignments for each domain:
  == domain 1  score: 4.1 bits;  conditional E-value: 0.0061
                             XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
             Bac_export_2 13 rdarekGqvakskelssalvllaglllllllgpslveelaellrev 58
                             + +r++ +++ks+  + ++++l+++l+++ + + l+++ + ++ ++
  PHY93_03585|PHY93_03585 10 ELSRKRWKIFKSRKSTIFASILLLFLVIMTFCSPLIANSRPMILKY 55
                             567999999******************9999999988887766655 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.038
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
             Bac_export_2  34 laglllllllgpslveelaellrevlsalelllelllallllllplllvlllaallanllqvgflfstkalkpklsklnplkglkr 119
                              ++++ +++l +++++   + ++   +++                                                          
  PHY93_03585|PHY93_03585 146 AVAVWFISLSIGTILGGTMGFFGGKIDF---------------------------------------------------------- 173
                              3333333444444444444444443333.......................................................... PP

                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
             Bac_export_2 120 ifslrslvellksllkvvlvgavaylvlkseleellalaeldleaalelllslllkllllvllallviallDl 192
                                                                               +++ ++++l +v  ++l+i l+ +
  PHY93_03585|PHY93_03585 174 -------------------------------------------------IGQRFVEILSTVPSFFLLIILISI 197
                              .................................................333333333333332222222221 PP

>> ABC2_membrane_4  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   0.1     0.067   2.4e+02      51      69 ..      24      42 ..       5      61 .. 0.58
   2 ?    9.7   7.5   0.00021      0.75      99     178 ..     135     215 ..     127     216 .. 0.81
   3 ?   -3.4   0.1       2.2     8e+03      23      30 ..     314     321 ..     297     329 .. 0.45

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.067
          ABC2_membrane_4 51 vfgftlllllplilgiias 69
                             ++ f  +lll l++  ++s
  PHY93_03585|PHY93_03585 24 STIFASILLLFLVIMTFCS 42
                             2333333334444444444 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.00021
          ABC2_membrane_4  99 livllllsvllmlvtflitvlfallsgfv.gfsvklvlellkkclelgllvffavlpiialvllkksyvlpliltlvytia 178
                              l++ + +s+ + ++ ++i++ ++ ++g++ gf ++++ ++ ++++e+  +v  ++l ii+++++  s ++ +i++ v++ +
  PHY93_03585|PHY93_03585 135 LLYGFKYSITYAVAVWFISLSIGTILGGTmGFFGGKIDFIGQRFVEILSTVPSFFLLIILISIFAPSLWMLIIISCVFSWI 215
                              6667788999999999999988888877515655666677778889999999999********************999865 PP

  == domain 3  score: -3.4 bits;  conditional E-value: 2.2
          ABC2_membrane_4  23 llvpllal 30 
                               l+ +++l
  PHY93_03585|PHY93_03585 314 SLALFIVL 321
                              22222222 PP

>> DUF2207  Predicted membrane protein (DUF2207)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.6   0.2    0.0064        23     197     244 ..      10      55 ..       2      98 .. 0.59
   2 ?    4.2   2.5    0.0041        15     382     421 ..     141     207 ..     105     242 .. 0.67
   3 ?    1.2   0.1     0.035   1.2e+02     199     236 ..     298     329 ..     285     337 .. 0.74

  Alignments for each domain:
  == domain 1  score: 3.6 bits;  conditional E-value: 0.0064
                  DUF2207 197 treraarlslallillilllilllllllllliklllwkkygrepkvke 244
                              + +r++++ +     +i++ illl+l+++ +++ l+   + r    k+
  PHY93_03585|PHY93_03585  10 ELSRKRWKIFKSRKSTIFASILLLFLVIMTFCSPLIA--NSRPMILKY 55 
                              3334444444445555555555555555555543332..334444444 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.0041
                  DUF2207 382 klsalglgliilglilillallllvll...........................lvfllilllilll 421
                              +++++++++++++l +++++ ++++++                           +++++  l++l++
  PHY93_03585|PHY93_03585 141 YSITYAVAVWFISLSIGTILGGTMGFFggkidfigqrfveilstvpsfflliilISIFAPSLWMLII 207
                              4555555555555555555555555557788888889998888666444444432222222222222 PP

  == domain 3  score: 1.2 bits;  conditional E-value: 0.035
                  DUF2207 199 eraarlslallillilllilllllllllliklllwkky 236
                              ++++++++a++++l  +l l+++l ll li        
  PHY93_03585|PHY93_03585 298 QAQKNYTIAWWLALYPSLALFIVLTLLNLIG------Q 329
                              5667777777777777777778877777776......4 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (338 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       998  (0.055664); expected 358.6 (0.02)
Passed bias filter:                      506  (0.0282224); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.62u 0.27s 00:00:00.89 Elapsed: 00:00:00.46
# Mc/sec: 2189.11
//
Query:       PHY93_03590|PHY93_03590  [L=618]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      1e-32  114.7  28.3    1.4e-32  114.2  28.3    1.2  1  TonB_dep_Rec  TonB dependent receptor
    4.2e-23   82.0   1.6    4.2e-23   82.0   1.6    2.4  3  Plug          TonB-dependent Receptor Plug Domain


Domain annotation for each model (and alignments):
>> TonB_dep_Rec  TonB dependent receptor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  114.2  28.3   1.5e-36   1.4e-32      36     468 ..     199     617 ..     162     618 .] 0.71

  Alignments for each domain:
  == domain 1  score: 114.2 bits;  conditional E-value: 1.5e-36
                              E........EEEEEEEEEECCC..EECCCEEECECCEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE.EEEEEEEEEEEECEEE CS
             TonB_dep_Rec  36 r........gylgtnplyygdn..ysetdnkrlrlgydydlddnlswklslraglnYsstdgdsdynns.glgggrsynrdndyyg 110
                                       g+ + +   +++n   +++++ +++lg+ +dl+++  +  sl+a+ +Ys++  d d  ++ g++++++ +++++ y+
  PHY93_03590|PHY93_03590 199 FgadimrtrGFSAADE-KFNPNaeKDGDQRESFDLGAVLDLSEQ--Y--SLDANIRYSHNSADLDKGGGaGSDDPNDQQTEEEIYS 279
                              1334444543333333.444444466667999999999999999..9..9999999**7777777777755555666666664444 PP

                              ............EEEEEEEEEEEEEEEE................EE..EEEEEEEEEEEEEEEECCBEESCCTCCSEEEEEEEEEE CS
             TonB_dep_Rec 111 ............lgnvlaaeldlngdlw................fG..snladgldyrklsddgydaydplnpsgdasdsvdrdsy 166
                                           +++la++++  ++l+                +G     +++ +y+ + + + + + ++ + +d+s+ ++++ +
  PHY93_03590|PHY93_03590 280 kvqltknweagnAQTKLAYNFSKHYRLLevlydakhpqssttksTGeiKIVSANHTYYMTENLTQNVNVDFQGENDQSGHYNQNLS 365
                              44443333223333444444433444438888888888888888777533333345664444355555555555455555555555 PP

                              EEEEEEEEEEETTEEEEEEEEEEEETTCSSSS...EEECCCEEEEEEEEEEEECETTEEEEEEEEEEEE-STTCTTCEEEECCCCC CS
             TonB_dep_Rec 167 glyaqdnikltdrltltlGlRydhysvfgkdlragafsrsgsafsPsvglryrptddlslrasysrgfraPslgelyaggsngagg 252
                                ++  ++ l+d+  ++ GlR dh ++f            +++f+++++++y++  +  l+ sys+gfraPsl++ly         
  PHY93_03590|PHY93_03590 366 -GFLYHQYELADKI-FNFGLRLDHNKFF------------DDHFTYKAAAGYKFE-SALLKLSYSTGFRAPSLNQLYD-------- 428
                              .5********6666.*************............8999********955.677899****************........ PP

                              EEEECSTT---EEEEEEEEEEE..EEETTEEEEEEEEEEEEEEEEEEESSSSCSTTTCSEEEEEEEEEEEEEEEEEEEEEEETTEE CS
             TonB_dep_Rec 253 alsngnpdLkPEtsknyelGlk..ldddrlnltlayFridiknfittdpdgpslgglgdfqyqNvgkarikGvElelsyrltpgWg 336
                                s+gn+ L PEts++ el+++  +  + +    ++F+++i+n++++ p++        f++ N gka+  G E  ls++    W 
  PHY93_03590|PHY93_03590 429 -PSYGNKSLHPETSQSPELSFEkkWS-GAFKTVSTLFYTKINNRLSYNPNT--------FVNINSGKAEMMGSENKLSAD----WL 500
                              .89*******************9887.5554888***************99........999999***************....** PP

                              ..EEEEEEEEEEEEECECEEECTTTTSSTTEESEEEE.EEEEEECSEEE...EEEEESEEEEEEECCSSEEEEECECCEE..EE-- CS
             TonB_dep_Rec 337 ..lglsgggytYydagddsdaddggnplpnvPkhtan.lgltYkfpagg...WgaglllagarYvavggrrygdaantfr..rvpg 414
                                +++s + +t ++++d     + g++l++ P+++ + + ++Y    g+   ++       ++Y+  g+r + d++      + ++
  PHY93_03590|PHY93_03590 501 tnFNQSLS-FTLLKTRDL----NLGQKLARRPDLNIKnI-FSY--LIGNshyFS-----YELSYT--GKRNDVDNQ--GLavKMDS 569
                              88888888.888888777....99*************75.678..222222133.....455665..664444444..2235**** PP

                              EEEEEEEEEEEESSSEEEEEEEESTTE...TCSCEEESTTTTTCCEB--SEEEEEEE CS
             TonB_dep_Rec 415 YtlldlslgYklpknltlslgvnNLfd...kryyassgyyglggypgpgRtfrlglr 468
                              Y+l +l+ +Y ++++  ++l ++NL d   +         +++g+   gR +++g+ 
  PHY93_03590|PHY93_03590 570 YLLSNLNYRYLVNNQNEFYLKIKNLADidyE---------EIYGFGTGGRAITVGAH 617
                              **********888555***********4322.........47788888999999985 PP

>> Plug  TonB-dependent Receptor Plug Domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.0      0.15   1.4e+03       7      28 ..      32      53 ..      30      53 .. 0.86
   2 !   82.0   1.6   4.7e-27   4.2e-23       4     108 .]      48     154 ..      45     154 .. 0.96
   3 ?   -2.0   0.1      0.59   5.3e+03       6      42 ..     316     357 ..     313     369 .. 0.65

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 0.15
                             SEEEEEEHHHHHHTTTSSHHHH CS
                     Plug  7 gsvsvvtaediekqgatslada 28
                               ++v+ta+ i++  ++s++d+
  PHY93_03590|PHY93_03590 32 EDITVITADRIKSYSDKSTSDV 53
                             5689*********999999885 PP

  == domain 2  score: 82.0 bits;  conditional E-value: 4.7e-27
                              CCSSEEEEEEHHHHHHTTTSSHHHHHTTSTTEEEECCCCSTTSEEEEETTB-GGCSEEEETTEEESC..CCCSCTCGCSSBGGGEE CS
                     Plug   4 dtpgsvsvvtaediekqgatsladalqgvpgvnvsssgggggassisiRGlgsnrvlvlvDGvpian..ggsgagdlssidpedie 87 
                              ++++ v ++t+e+i ++ +++l ++l++ + ++v ssg++g+++s+++RG++s+++lv++DGv +++  ++++++d+  +++++ie
  PHY93_03590|PHY93_03590  48 KSTSDVRIITSEEIGATSSHTLPELLSRESDLSVVSSGPNGSNTSLFLRGTDSSHTLVVIDGVIMNDpsNPNRQFDIGRLSLNNIE 133
                              56788999**************************99999999***********************99*9***************** PP

                              EEEEEESSCHCTTSSTGSSEE CS
                     Plug  88 rievlkGpasalyGsdaigGv 108
                              rie+lkG++   yGs+aigGv
  PHY93_03590|PHY93_03590 134 RIEILKGSQGLAYGSNAIGGV 154
                              ********************8 PP

  == domain 3  score: -2.0 bits;  conditional E-value: 0.59
                              SSEEEEEEHHHHHHTTTSSHHHHHTT.STTEEE....ECCCC CS
                     Plug   6 pgsvsvvtaediekqgatsladalqg.vpgvnv....sssgg 42 
                              p+s ++ ++ +i+   a+++  + ++ + +vnv    +++++
  PHY93_03590|PHY93_03590 316 PQSSTTKSTGEIKIVSANHTYYMTENlTQNVNVdfqgENDQS 357
                              777777788888888888888888888888888543322222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (618 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       569  (0.0317363); expected 358.6 (0.02)
Passed bias filter:                      341  (0.0190195); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.68u 0.27s 00:00:00.95 Elapsed: 00:00:00.46
# Mc/sec: 4017.28
//
Query:       PHY93_03595|PHY93_03595  [L=373]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.1e-11   42.9   0.0    6.2e-11   42.3   0.0    1.2  1  Peripla_BP_2  Periplasmic binding protein


Domain annotation for each model (and alignments):
>> Peripla_BP_2  Periplasmic binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.3   0.0   3.4e-15   6.2e-11      44     225 ..     134     322 ..      96     325 .. 0.86

  Alignments for each domain:
  == domain 1  score: 42.3 bits;  conditional E-value: 3.4e-15
                              SBESSSB-H....HHHHHH--SEEEE-GGG....GGGHHHHHHHS-EEE----TTS..HHHHHHHHHHHHHTT-HHHHHHHHHHHH CS
             Peripla_BP_2  44 vgadgeidv....EklaalkPDlvilskgl.gltdedeellksgiptvivessntg..eslkeqiralgellgledeaeklvaeid 122
                              +++ +e+++    E l+ lk Dlv +  +  ++t++   l++++ip+vi    ++    ++ e++  +   +++  +a  +++ i+
  PHY93_03595|PHY93_03595 134 LDQIKEVPFkfnpEYLLGLKADLVMGYDSNlSTTKQRQILRSLKIPVVINKDFEEKtpLGRAEWLIFISSFYDQDTKAMNIFNSIQ 219
                              4555556666666************9887779999*************9666665566**************************** PP

                              HHHHHHHHTS-TT.-EEEEEEEETTE..EEEE-TTSTTTHHHHTS--EESTTT--STT-EEE-HHHHHH..H--SEEEEEEHHHHT CS
             Peripla_BP_2 123 sklaaaksaidsekpkpvlvfggadeggyvvagsnsyigdlldalgieniaaeskkseyeeisaEqila..sdpdvifvsgraead 206
                              + + a+k++  +++pk+ +++g+ ++g +v  g  s+ g+++ ++g+e + + +++   ++is E+++      dv++ + +  a+
  PHY93_03595|PHY93_03595 220 ESYLALKAKNLKLTPKAKVIVGEIQNGYWVTCGAASDLGQMIKDAGGELV-PKHPSALTQKISLEELSQikIIFDVWLTHNM-WAS 303
                              ************************************************99.8888**************77778********.99* PP

                              -S--HHHHT-SHHHHTSHH CS
             Peripla_BP_2 207 nktgleflkenpllaelpA 225
                              +k+  e++k++  +  + A
  PHY93_03595|PHY93_03595 304 KKELNEAMKKDKRYTLISA 322
                              **********999888776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (373 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       633  (0.0353059); expected 358.6 (0.02)
Passed bias filter:                      358  (0.0199677); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.44
# Mc/sec: 2557.14
//
Query:       PHY93_03600|PHY93_03600  [L=313]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.4e-63  212.6  36.7    8.5e-63  212.2  36.7    1.1  1  FecCD     FecCD transport family
    1.5e-06   27.9  14.9    1.5e-06   27.9  14.9    1.7  1  ABC-3     ABC 3 transport family
  ------ inclusion threshold ------
       0.66    9.8   9.5       0.69    9.7   3.0    3.8  3  DUF4190   Domain of unknown function (DUF4190)


Domain annotation for each model (and alignments):
>> FecCD  FecCD transport family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  212.2  36.7   1.4e-66   8.5e-63      31     311 ..      27     308 ..       5     309 .. 0.94

  Alignments for each domain:
  == domain 1  score: 212.2 bits;  conditional E-value: 1.4e-66
                    FecCD  31 dsleaeivlelrlprvlaallvGaaLavaGallQtvtrNpLadPsilGissgaalgavlallll...lgslslfalplaaflgall 113
                               +l+ +++++lrlp+v + +++G++La+aG+l+Q  ++NpLa P+ilG+ssg++l++++ ++     ++s+  +++++++flgal+
  PHY93_03600|PHY93_03600  27 FNLDLNLIWQLRLPKVTVCFFAGGMLAIAGLLMQIFFQNPLAGPDILGVSSGSSLFVAFWMMASvgfSQSIMDWGMSAMSFLGALT 112
                              5677889***************************************************99988788999999************** PP

                    FecCD 114 alllvlllarkrkgasplkliLaGiavsallsaltsllllllneealesilfwllGslsgaswskvllllvllllllllllllark 199
                              +++++++++  +k++s+++li++G+ +s+++s+ +s+l+ ++++ +l+++l w +Gs+ +++  ++  ++ l+l+++l +l++++ 
  PHY93_03600|PHY93_03600 113 VFFILVFFV--NKNMSRVSLIITGLLISSFASSGISILVSMSQALQLKNYLVWSMGSFRNVTGPELPRFIFLSLISTLPVLFFIKS 196
                              *99999999..9************************************************************************** PP

                    FecCD 200 ldllalgdetAkslGvnvervrllllllvalltavavalvGpigFvGLivPhiarllvg.adhrkllplsallGallllladllar 284
                              l+ + l+++ Aks+Gvnv+r+rl+++ ++al ++v++ ++GpigF+G+i Ph+ar++++ ++ + llp+ +++G++l  +a++++ 
  PHY93_03600|PHY93_03600 197 LNQFLLSENYAKSMGVNVKRMRLVFVSVAALQISVVTLFCGPIGFIGIISPHLARQFLKrSQLSVLLPAVFFIGVILSFVAETIIV 282
                              ***********************************************************99***********************99 PP

                    FecCD 285 lllsptelpvgivtaliGapffiylll 311
                              l   +  ++v +++ liGap+ ++ l+
  PHY93_03600|PHY93_03600 283 LT-PSWSISVNAILGLIGAPVIVLYLY 308
                              77.57999*************997766 PP

>> ABC-3  ABC 3 transport family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.9  14.9   2.6e-10   1.5e-06      69     233 ..     116     275 ..      88     298 .. 0.77

  Alignments for each domain:
  == domain 1  score: 27.9 bits;  conditional E-value: 2.6e-10
                    ABC-3  69 valellkrktklkedtaigivlsvflalglvlvslikkskvdldsyL...fGniltisqedliliaiieavvllllllfwkellli 151
                              + + +++++    + +++g+++s+f + g+ ++  ++  + +l++yL   +G+   ++  +l   + ++++  l +l+f k+l  +
  PHY93_03600|PHY93_03600 116 ILVFFVNKNMSRVSLIITGLLISSFASSGISILVSMS-QALQLKNYLvwsMGSFRNVTGPELPRFIFLSLISTLPVLFFIKSLNQF 200
                              233456777777778999************8888777.7999****9666699********************************* PP

                    ABC-3 152 tfdeelAkveglsvkllkllllalialavvvalqavGviLvialliiPaatArrltrslesllivAillglvsvvaGlllSy 233
                               ++e++Ak+ g++vk+++l+++ + al ++v+  + G i  i ++  P  +Ar++ ++ +    +++ll +v  ++G++lS+
  PHY93_03600|PHY93_03600 201 LLSENYAKSMGVNVKRMRLVFVSVAALQISVVTLFCGPIGFIGII-SP-HLARQFLKRSQ----LSVLLPAV-FFIGVILSF 275
                              *******************************99999998877653.34.44555444332....22233222.233444444 PP

>> DUF4190  Domain of unknown function (DUF4190)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.9   0.1     0.065   3.9e+02      41      51 ..      49      59 ..      43      63 .. 0.79
   2 ?    9.7   3.0   0.00012      0.69       2      38 ..     223     258 ..     222     284 .. 0.88
   3 ?   -0.6   0.6      0.19   1.1e+03      22      31 ..     269     278 ..     259     305 .. 0.69

  Alignments for each domain:
  == domain 1  score: 0.9 bits;  conditional E-value: 0.065
                  DUF4190 41 GkglAiaGivl 51
                             G  lAiaG+ +
  PHY93_03600|PHY93_03600 49 GGMLAIAGLLM 59
                             78889999876 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.00012
                  DUF4190   2 AiasLvlgilgllfliitgivavilGhvAlrqirrsg 38 
                              ++a+L +++++l++ +++g +++i  h+A++  +rs+
  PHY93_03600|PHY93_03600 223 SVAALQISVVTLFC-GPIGFIGIISPHLARQFLKRSQ 258
                              699********999.6***************999987 PP

  == domain 3  score: -0.6 bits;  conditional E-value: 0.19
                  DUF4190  22 vavilGhvAl 31 
                              ++vil +vA 
  PHY93_03600|PHY93_03600 269 IGVILSFVAE 278
                              4566665554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (313 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       999  (0.0557198); expected 358.6 (0.02)
Passed bias filter:                      318  (0.0177366); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.65u 0.27s 00:00:00.92 Elapsed: 00:00:00.47
# Mc/sec: 2014.85
//
Query:       PHY93_03605|PHY93_03605  [L=240]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    4.5e-26   92.0   0.0    6.5e-26   91.5   0.0    1.2  1  ABC_tran     ABC transporter
      1e-13   51.8   1.4    4.1e-09   36.7   0.2    2.2  2  AAA_21       AAA domain, putative AbiEii toxin, Type IV TA sy
    1.6e-07   31.4   0.3    0.00048   19.9   0.1    2.1  2  AAA_15       AAA ATPase domain
    2.5e-06   27.1   0.3    4.2e-06   26.4   0.3    1.3  1  SMC_N        RecF/RecN/SMC N terminal domain
    0.00023   21.6   0.5      0.011   16.1   0.5    2.4  1  AAA          ATPase family associated with various cellular a
      0.001   19.5   0.2     0.0023   18.4   0.2    1.6  1  AAA_16       AAA ATPase domain
      0.002   18.2   0.2       0.86    9.6   0.0    2.1  2  AAA_14       AAA domain
     0.0037   17.5   1.1      0.046   14.0   1.1    2.1  1  AAA_22       AAA domain
     0.0057   15.9   1.7        1.4    8.0   0.1    2.1  2  NB-ARC       NB-ARC domain
      0.007   16.3   0.6      0.016   15.1   0.1    1.8  2  RsgA_GTPase  RsgA GTPase
     0.0078   15.9   0.0      0.014   15.1   0.0    1.4  1  AAA_30       AAA domain
  ------ inclusion threshold ------
      0.016   14.2   0.1       0.46    9.4   0.2    2.1  2  AAA_10       AAA-like domain
      0.021   14.5   0.1      0.052   13.3   0.1    1.6  1  AAA_29       P-loop containing region of AAA domain
      0.028   14.4   2.1        1.1    9.2   0.2    2.2  2  NACHT        NACHT domain
      0.095   11.7   0.1       0.14   11.1   0.1    1.4  1  MeaB         Methylmalonyl Co-A mutase-associated GTPase MeaB


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   91.5   0.0   5.4e-29   6.5e-26       2     136 ..      20     167 ..      19     168 .. 0.91

  Alignments for each domain:
  == domain 1  score: 91.5 bits;  conditional E-value: 5.4e-29
                              EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH........ CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx........ RF
                 ABC_tran   2 knvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren........ 79 
                              ++++ k ++g+++a++G nG GKS Llk++ +l +  +G ++l gk+l e +   + k  + +  e++  + l+v e         
  PHY93_03605|PHY93_03605  20 EKINAKASAGTITALMGVNGVGKSCLLKTIGHLISARQGLVRLHGKELGEYSALDFAKVASLVLTEKFQVDFLRVDELlylgrspy 105
                              578999********************************************7777777777777777788888889999******** PP

                              ........HHHTC.HHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              ........xxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ........esdee.iekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                                      +sd+e ++++++++gl +l+++      ++LS Gqkq+v +aral++kp+ll+lDEpt
  PHY93_03605|PHY93_03605 106 tnwmgeieKSDREvVNQVMEQIGLLDLANRFF----AELSDGQKQKVLIARALAQKPTLLILDEPT 167
                              *****9974444469****************9....*****************************9 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.1   2.1e-05     0.025       1      25 [.      31      55 ..      31      92 .. 0.79
   2 !   36.7   0.2   3.4e-12   4.1e-09     234     303 .]     137     204 ..     110     204 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 2.1e-05
                   AAA_21  1 lnvliGpNgsGKSnLLdaldllarl 25
                             +++l G Ng+GKS LL+++ +l ++
  PHY93_03605|PHY93_03605 31 ITALMGVNGVGKSCLLKTIGHLISA 55
                             799****************999776 PP

  == domain 2  score: 36.7 bits;  conditional E-value: 3.4e-12
                   AAA_21 234 arelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllell.kelsrngaQviltTHSpllld 303
                              ++elSdG+k+   l++  l  ++k++ll++DEp + L+     +l++ll k++++n++ +i++TH+ +l++
  PHY93_03605|PHY93_03605 137 FAELSDGQKQK-VLIARAL--AQKPTLLILDEPTTYLDIPSKIELIKLLkKIATENNVAIIMSTHDLELIE 204
                              6799*******.3333333..3444************************888888************9985 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.3   0.0   0.00035      0.42      19      50 ..      22      56 ..       6     127 .. 0.78
   2 !   19.9   0.1     4e-07   0.00048     321     368 ..     155     202 ..     132     203 .. 0.88

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00035
                   AAA_15 19 idlsee...ltvliGkNnsGKSsilealdlFlnnk 50
                             i+ + +   +t l G N++GKS +l+ +  +++  
  PHY93_03605|PHY93_03605 22 INAKASagtITALMGVNGVGKSCLLKTIGHLISAR 56
                             3333336779******************9998854 PP

  == domain 2  score: 19.9 bits;  conditional E-value: 4e-07
                   AAA_15 321 eeknvilliEEPEahLHpqaqkvlikllkelandnktQviitTHSphi 368
                               +k+ +l+++EP ++L +  + +likllk++a +n+  +i++TH   +
  PHY93_03605|PHY93_03605 155 AQKPTLLILDEPTTYLDIPSKIELIKLLKKIATENNVAIIMSTHDLEL 202
                              467899**************************************8766 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.4   0.3   3.5e-09   4.2e-06      19     204 ..      24     205 ..       6     217 .. 0.72

  Alignments for each domain:
  == domain 1  score: 26.4 bits;  conditional E-value: 3.5e-09
                              EEETTSSEEEEEESTTSSHHHHHHHHHHHCTT.TTTTTTCHCCCCCC--BTTCSSTTEEEEEEEEEETTEESSSSSSCEEEEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N  19 ilpfsksftaivGpNGSGKsnlldAilFvLGersakklrseklsdlihkskekasvkkaeveitfdnedkklkiekeevsisrrvk 104
                                  +  +ta++G NG GKs ll  i ++++ r+   l + + ++l  + ++ +++k a++ +t ++ + ++   +e +++ r+ +
  PHY93_03605|PHY93_03605  24 AKASAGTITALMGVNGVGKSCLLKTIGHLISARQG--LVRLHGKELGEY-SALDFAKVASLVLT-EKFQVDFLRVDELLYLGRSPY 105
                              33344579***********************6665..888888999888.55555555555554.444555666777799999999 PP

                              TTSEEEEEETTEEE-H..HHHHHHHHCTT-STTCS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHH..HH CS
                              xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xx RF
                    SMC_N 105 rkgeseykingkevtk..kevsellesagiskelLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellk..ek 186
                              ++   e++  ++ev +   e   ll  a+    +LS G+k+ v +a  +A    ++  l +lDe    LD     ++ +llk  ++
  PHY93_03605|PHY93_03605 106 TNWMGEIEKSDREVVNqvMEQIGLLDLANRFFAELSDGQKQKVLIARALA----QKPTLLILDEPTTYLDIPSKIELIKLLKkiAT 187
                              9988777665555544155666678888888889*****99766655544....666799**********************4435 PP

                              CTTSEEEEE-SSHHHCCC CS
                              xxxxxxxxxxxxxxxxxx RF
                    SMC_N 187 sknaQfivislreemlek 204
                              ++n+ +i+ +++ e++e 
  PHY93_03605|PHY93_03605 188 ENNVAIIMSTHDLELIES 205
                              556777777887777765 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.5   9.4e-06     0.011       3     117 ..      34     205 ..      32     210 .. 0.70

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 9.4e-06
                              EESSTTSSHHHHHHHHHHHHT..HEEEEEETTTCSSSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGHHHHH....TTCCCHHH CS
                      AAA   3 lyGppGtGKTllakavakelg..vefleisgsellskyvgesekkirelfkeakekakpsilfiDEidalaksr....sgseseee 82 
                              l+G  G+GK+ l k + + ++  + ++++ g+el  +y     +k++ l+ + k   +   l +DE+  l++s      g+ ++++
  PHY93_03605|PHY93_03605  34 LMGVNGVGKSCLLKTIGHLISarQGLVRLHGKELG-EYSALDFAKVASLVLTEKF--QVDFLRVDELLYLGRSPytnwMGEIEKSD 116
                              89****************98733559*******99.6666666666666644233..35899999999998888888877788888 PP

                              HHHHHHHHHHHHHTTTS......................................................SSTEEEEEEESSGGG CS
                      AAA  83 ervvnqLlteldgvkkk......................................................eskvivigatnrpdk 114
                              ++vvnq ++++  ++                                                        e++v +i+ t++ + 
  PHY93_03605|PHY93_03605 117 REVVNQVMEQIGLLDLAnrffaelsdgqkqkvliaralaqkptllildepttyldipskielikllkkiatENNVAIIMSTHDLEL 202
                              88888888888766665556666666666666666666666666666666666666666666666666666666777777777766 PP

                              STH CS
                      AAA 115 ldp 117
                              +++
  PHY93_03605|PHY93_03605 203 IES 205
                              665 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.2   1.9e-06    0.0023      19     143 ..      24     165 ..      16     194 .. 0.53

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 1.9e-06
                   AAA_16  19 vrsgrpelvllsGesGvGKsslvrellralekdggif.lrgkcdqlesaipysalaqalareellrqllde.....aesaeleawr 98 
                              ++++ + ++ l G  GvGKs l++++ + ++++ g++ l gk     sa+ ++ +a++  +e++  + l+      +         
  PHY93_03605|PHY93_03605  24 AKASAGTITALMGVNGVGKSCLLKTIGHLISARQGLVrLHGKELGEYSALDFAKVASLVLTEKFQVDFLRVdellyL--------- 100
                              34444599*******************99999977777777777764444443322222232333333222222222......... PP

                   AAA_16  99 ekleeala........................avpelagaea..srllell.....krll.allsrderplvlvlDd 143
                                     +                        +++ l       +r++++l     ++ l a++   ++p++l+lD+
  PHY93_03605|PHY93_03605 101 -------GrspytnwmgeieksdrevvnqvmeQIGLL----DlaNRFFAELsdgqkQKVLiARALA-QKPTLLILDE 165
                              .......133333433444433334444222222222....1334444333111112333355555.5688888886 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.6   0.0   0.00072      0.86       3      59 ..      30      85 ..      28     114 .. 0.72
   2 !    7.0   0.1    0.0047       5.6      31      98 ..     125     196 ..     106     210 .. 0.74

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.00072
                   AAA_14  3 kilvitGaRrvGKTtllkqlikellvkkesilyinldderdkkladpekllelilek 59
                              i +++G+  vGK+ llk++  +l+  ++  + +  ++  ++++ d++k+ +l+l +
  PHY93_03605|PHY93_03605 30 TITALMGVNGVGKSCLLKTIG-HLISARQGLVRLHGKELGEYSALDFAKVASLVLTE 85
                             68899************9987.55556677777777776666666676666666665 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.0047
                   AAA_14  31 esilyinldderdkkladpekllelileklkeekktylflDEiqev......pewekalkslvdegknldvivt 98 
                              e+i  ++l +  +++l+d +k   li + l + k t+l+lDE   +       e+ k lk++  e+ n+ +i++
  PHY93_03605|PHY93_03605 125 EQIGLLDLANRFFAELSDGQKQKVLIARALAQ-KPTLLILDEPTTYldipskIELIKLLKKIATEN-NVAIIMS 196
                              66677777777777777655444455554555.99*******999988888888888888888888.8888876 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.0   1.1   3.8e-05     0.046       5     127 ..      29     195 ..      24     203 .. 0.71

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 3.8e-05
                   AAA_22   5 agilvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsstsskdl.lrellralglelka................... 70 
                               +i++++G  G+GK+ ll+++ +   +       r ++v+   +++++ + l + ++++ +  e+                     
  PHY93_03605|PHY93_03605  29 GTITALMGVNGVGKSCLLKTIGHLISA-------RQGLVRLHGKELGEYSALdFAKVASLVLTEKFQvdflrvdellylgrspytn 107
                              6899*******************9964.......5555555555555666666777777777666667777777777777777777 PP

                   AAA_22  71 ...............................erlsseellealeqalraravielliiDEaqh.lr...seealeeLrsllnlsrk 121
                                                             e  + +    ++++al ++ +  lli+DE    l+   + e+++ L++++   + 
  PHY93_03605|PHY93_03605 108 wmgeieksdrevvnqvmeqiglldlanrffaELSDGQKQKVLIARALAQKPT--LLILDEPTTyLDipsKIELIKLLKKIAT--EN 189
                              7777777777777777777777777666665444444444555555555555..9999998887888744888898888888..88 PP

                   AAA_22 122 gvqliL 127
                              +v++i+
  PHY93_03605|PHY93_03605 190 NVAIIM 195
                              888876 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.0   0.1    0.0012       1.4       8      42 ..      18      51 ..      14      61 .. 0.81
   2 !    7.5   0.1    0.0017         2      65     144 ..     120     203 ..      77     219 .. 0.71

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.0012
                             HHHHHHCTTTSCSEEEEEEESTTSSHHHHHHHHCC CS
                   NB-ARC  8 viekLlekdelqslvvalvGmgGvGKttlakqiln 42
                             + ek   k + +  + al+G  GvGK+ l+k i +
  PHY93_03605|PHY93_03605 18 IFEKINAKASAG-TITALMGVNGVGKSCLLKTIGH 51
                             666777666677.899**************99865 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0017
                              HHHHHHXXHHHHHCCCTTSSSS-STTSHHHHHHHHCCCTTEEEEEEEE-SHHH....H.....HHH.HCHTTSEEEEEESBCCCC CS
                   NB-ARC  65 seeiletilkeLslseddleekeeveslkrklvrlLltkrfllvlDDVweeed....wdkigvvlp.arenrlrvllTTRdeeva 144
                               ++++e+i   L l++    e +++++ k  + r+L +k +ll+lD   ++ d     + i++  + a en + +++ T d e+ 
  PHY93_03605|PHY93_03605 120 VNQVMEQIG-LLDLANRFFAELSDGQKQKVLIARALAQKPTLLILDEPTTYLDipskIELIKLLKKiATENNVAIIMSTHDLELI 203
                              344444432.233444455555666668999***************655554443334445544333578888888888887765 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.1   1.4e-05     0.016      90     123 ..      19      53 ..       5      67 .. 0.77
   2 ?   -1.9   0.0       2.3   2.7e+03      12      36 ..     184     208 ..     170     214 .. 0.65

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.4e-05
                              HHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT- CS
              RsgA_GTPase  90 leelkellkd.ktsvlvGqSGvGKStLinallpel 123
                              +e+++++ +   +++l+G  GvGKS L++++    
  PHY93_03605|PHY93_03605  19 FEKINAKASAgTITALMGVNGVGKSCLLKTIGHLI 53 
                              5667666665599***************9986655 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 2.3
                              TEES--EEEEEEESTTTT--HHHHH CS
              RsgA_GTPase  12 kvaNvdqllivvslkepelslnlld 36 
                              k+a  +++ i++s+++ el ++ +d
  PHY93_03605|PHY93_03605 184 KIATENNVAIIMSTHDLELIESKVD 208
                              3555566777777776665555554 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0   1.2e-05     0.014      16     114 ..      27     187 ..      20     199 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1.2e-05
                   AAA_30  16 sgdrvavltGpAGtGKttalkalreaweaa.g.........grviglAptgkaAkvLaeelgieastiakllkrlk.......... 81 
                              s   +++l G+ G GK+ +lk++ +++ a+ g         g+  +l   + a+ vL+e+++++  ++++ll+  +          
  PHY93_03605|PHY93_03605  27 SAGTITALMGVNGVGKSCLLKTIGHLISARqGlvrlhgkelGEYSALDFAKVASLVLTEKFQVDFLRVDELLYLGRspytnwmgei 112
                              455699******************99999966999999999888888888999999999999999999999988889999999999 PP

                   AAA_30  82 ......................................grarlepgtllivDEagmv....dtkqlaallkaaek 114
                                                                    +ra  ++ tlli DE        +  +l +llk++++
  PHY93_03605|PHY93_03605 113 eksdrevvnqvmeqiglldlanrffaelsdgqkqkvliARALAQKPTLLILDEPTTYldipSKIELIKLLKKIAT 187
                              999999999999999999999999999999999999975444555599999997766555545555555555444 PP

>> AAA_10  AAA-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4   0.2   0.00038      0.46      16      50 ..      24      58 ..      13      70 .. 0.82
   2 ?    2.6   0.0     0.043        51     239     284 ..     156     201 ..     147     221 .. 0.87

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.00038
                   AAA_10 16 gsktnasasliiGdlGnGKSvlakllvlyisllgg 50
                              + +    ++++G  G GKS l k++ + is+++g
  PHY93_03605|PHY93_03605 24 AKASAGTITALMGVNGVGKSCLLKTIGHLISARQG 58
                             4444445569*******************999875 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.043
                   AAA_10 239 kefkvvifDEawiftssaeGkkllkelvRiGRsynaavylvtqsad 284
                              ++ +  i+DE  ++ +++   +l+k l++i   +n a+++ t++ +
  PHY93_03605|PHY93_03605 156 QKPTLLILDEPTTYLDIPSKIELIKLLKKIATENNVAIIMSTHDLE 201
                              5567789************************************976 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.1   4.3e-05     0.052      19      48 ..      26      55 ..      17      61 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 4.3e-05
                   AAA_29 19 idlkg.atlltGpsGsGKSTllDAiqalLvp 48
                              + +g +t l+G +G+GKS ll  i  l+ +
  PHY93_03605|PHY93_03605 26 AS-AGtITALMGVNGVGKSCLLKTIGHLISA 55
                             44.4569**************9888777666 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   0.2   0.00091       1.1       3      27 ..      32      56 ..      30      61 .. 0.85
   2 ?    5.0   0.1     0.018        21      68     141 ..     144     209 ..     119     221 .. 0.78

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.00091
                             EEEEC-TTTCHHHHHHHHHHHHCTS CS
                    NACHT  3 vilqGeaGsGKTtLlqklalawaeg 27
                              +l G +G+GK+ Ll+ + +++ ++
  PHY93_03605|PHY93_03605 32 TALMGVNGVGKSCLLKTIGHLISAR 56
                             5789*************98887665 PP

  == domain 2  score: 5.0 bits;  conditional E-value: 0.018
                              SS-CCHHHHCCSCCCEEEEEE-STT-SS-TCH.........HHHHHCTTTTT--EEEEEEECCCHHHHCTTSSC CS
                    NACHT  68 pvsevwavllelperlLlilDglDelvtdlgqkekqpvrtlLselirkkllpeasllltvrpralrdleeqlee 141
                              + ++v + ++  ++ +LlilD      +++++         L +l++k + +e+ + +++++  l+ +e+++ +
  PHY93_03605|PHY93_03605 144 QKQKVLIARALAQKPTLLILDEPTTYLDIPSK-------IELIKLLKK-IATENNVAIIMSTHDLELIESKVDQ 209
                              3455888899999999***9987777776666.......666688888.9999999999999988777766655 PP

>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.1   0.00012      0.14      15      56 ..      15      56 ..       2     130 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00012
                             HHHHHHHHGGG-S-SEEEEEEE-TTSSHHHHHHHHHHHHHCT CS
                     MeaB 15 akellerllakaGraqvvGltGvPGaGkstlvealglelrrr 56
                              ++++e++ aka   +   l Gv G+Gks l++ +g  + +r
  PHY93_03605|PHY93_03605 15 KRTIFEKINAKASAGTITALMGVNGVGKSCLLKTIGHLISAR 56
                             57899***************************9999877655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (240 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       562  (0.0313459); expected 358.6 (0.02)
Passed bias filter:                      497  (0.0277205); expected 358.6 (0.02)
Passed Vit filter:                        61  (0.00340231); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.60u 0.30s 00:00:00.89 Elapsed: 00:00:00.46
# Mc/sec: 1561.54
//
Query:       PHY93_03610|PHY93_03610  [L=355]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.2e-32  112.5   0.1    4.6e-32  112.0   0.1    1.2  1  Trypsin_2      Trypsin-like peptidase domain
    5.2e-15   55.8   0.0      8e-15   55.2   0.0    1.2  1  Trypsin        Trypsin
    6.6e-14   52.0   0.0    1.7e-13   50.7   0.0    1.7  1  PDZ_2          PDZ domain
    0.00047   20.0   0.2        1.7    8.6   0.0    3.5  3  PDZ_6          PDZ domain
  ------ inclusion threshold ------
       0.14   11.3   1.2         12    5.0   0.4    2.2  2  Peptidase_S32  Equine arteritis virus serine endopeptidase S3
          2    6.9   4.8        1.7    7.2   3.2    1.6  2  Peptidase_S46  Peptidase S46


Domain annotation for each model (and alignments):
>> Trypsin_2  Trypsin-like peptidase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  112.0   0.1   1.5e-35   4.6e-32       1     150 []      76     215 ..      76     215 .. 0.96

  Alignments for each domain:
  == domain 1  score: 112.0 bits;  conditional E-value: 1.5e-35
                Trypsin_2   1 GsGflvgsdglilTnaHvvdsadgaavkaikkkveeagadgrevpakvvaadpelDlAllkvssderaglpplplgpsealkggep 86 
                              GsGf++++ g+i+Tn+Hvvd+ d+  +          ++++++++ak+++adp +D+A+lk+ ++ + +l+p+ +g+s++l++g++
  PHY93_03610|PHY93_03610  76 GSGFVWDKSGYIVTNFHVVDGGDSFLI--------TFKDNKKQFRAKLIGADPKKDIAVLKL-DEIPQDLRPIIPGDSKSLQVGQK 152
                              9**************************........7999*************999*******.9999******************* PP

                Trypsin_2  87 vyvvGyplggeksgsvssGivsgvve.sesaasgegesflqtdaatspGsSGGplfdsdGrvvGl 150
                              + ++G+plg ++  s+++G+vs++++  +++ + + ++++qtda+++pG+SGG+l+ds+G+++G+
  PHY93_03610|PHY93_03610 153 ALAIGNPLGFDH--SLTTGSVSALDRsIKGYGGVSINGMIQTDASINPGNSGGALLDSQGKLIGI 215
                              ************..9***********77778888888888************************8 PP

>> Trypsin  Trypsin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.2   0.0   2.7e-18     8e-15      26     220 ..      75     243 ..      59     244 .. 0.79

  Alignments for each domain:
  == domain 1  score: 55.2 bits;  conditional E-value: 2.7e-18
                              EEEEEEEETT.EEEEEGGGTTTGGGEEEEESESBTTSCTTTEEEEEEEEEEEETTEBTTTTTTTEEEEEESSSSTSBSSBHCCBBC CS
                  Trypsin  26 lCgGslisen.wvlTAaHCvsnasdvkvvlgehnlkksegkeqklkvekvivhpnynpstldnDiallklkepvklgdtvrpiclp 110
                              + +G++ +++ +++T+ H+v++ +++ + ++      +++k+ ++k+         +p++   Dia+lkl+e     +  rpi   
  PHY93_03610|PHY93_03610  75 MGSGFVWDKSgYIVTNFHVVDGGDSFLITFK------DNKKQFRAKLIG------ADPKK---DIAVLKLDEI---PQDLRPIIPG 142
                              55799999999***********777755222......233233344444......68887...********97...9******999 PP

                              STTHTTSTTTEEEEEESSBSSTSSBSSBEEEEEEEEEEHHHHHHHTTTTSTTTEEEEESTTSSSBCTTTTTTSEEEETTTEEEEEE CS
                  Trypsin 111 aassslpvgttclvsGwgrtkekgksdtlqevevpvvsretcksaykgkvtenmlcagakeggkdacqGDSGGPlvcsdgelvGiv 196
                              + s+sl+vg++ l++G +  ++    ++l+++ v++++r ++k  y+g   + m++++a     ++++G+SGG+l+ s+g+l+Gi+
  PHY93_03610|PHY93_03610 143 D-SKSLQVGQKALAIGNPLGFD----HSLTTGSVSALDR-SIKG-YGGVSINGMIQTDA-----SINPGNSGGALLDSQGKLIGIN 216
                              9.7779***9999888888644....56**********9.6666.788888********.....9********************* PP

                              EEE.SSSSCTTS..EEEEEEGGGGHHH CS
                  Trypsin 197 swg.kgcakgnr..pgvytkvssyldw 220
                              +   +g +       g++++v++++++
  PHY93_03610|PHY93_03610 217 TIIfNGAGASSSagLGFAIPVDTVKSV 243
                              *88533333333559******999876 PP

>> PDZ_2  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.7   0.0   5.6e-17   1.7e-13       3      82 .]     258     354 ..     256     354 .. 0.88

  Alignments for each domain:
  == domain 1  score: 50.7 bits;  conditional E-value: 5.6e-17
                              ..XX------........-EEEEEE-TTSGGGGT.--T...........T-EEEEETTB--SSHHHHHHHHHTS-TT-EEEEEEEE CS
                    PDZ_2   3 lGvsvsdeed......tggvlvvsVkeggPaakaglka...........gDvilkvdgkkvksledlislllkkkpGdtVkltvlR 71 
                              lG+ v ++         +gv    V+++gPaak g++            gD+i+ vd++ +ks +dl s + k+k+GdtVk++++R
  PHY93_03610|PHY93_03610 258 LGIVVLEDYYaarfglREGVMLKYVDPKGPAAKVGMRGitrnrfgeyflGDIITGVDSNSIKSYDDLFSIIDKYKIGDTVKIKYIR 343
                              555554444456666566777777************999*********************************************** PP

                              TTEEEEEEEE- CS
                    PDZ_2  72 dgkkktvevkl 82 
                              ++k+kt+++kl
  PHY93_03610|PHY93_03610 344 ENKEKTTSIKL 354
                              *********97 PP

>> PDZ_6  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.0      0.15   4.5e+02       5      19 ..     262     276 ..     259     276 .. 0.89
   2 !    6.1   0.0    0.0033       9.9       3      17 ..     280     294 ..     278     295 .. 0.90
   3 !    8.6   0.0   0.00056       1.7      19      43 ..     307     329 ..     306     343 .. 0.87

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.15
                    PDZ_6   5 VdpgsPAdrAGlrvG 19 
                              V ++ +A+r Glr G
  PHY93_03610|PHY93_03610 262 VLEDYYAARFGLREG 276
                              788999*******98 PP

  == domain 2  score: 6.1 bits;  conditional E-value: 0.0033
                    PDZ_6   3 taVdpgsPAdrAGlr 17 
                              + Vdp +PA++ G+r
  PHY93_03610|PHY93_03610 280 KYVDPKGPAAKVGMR 294
                              579**********97 PP

  == domain 3  score: 8.6 bits;  conditional E-value: 0.00056
                    PDZ_6  19 GDiilsvNGqpveglsladvaallr 43 
                              GDii+ v+  ++  +s++d+ +++ 
  PHY93_03610|PHY93_03610 307 GDIITGVDSNSI--KSYDDLFSIID 329
                              9***********..*******9996 PP

>> Peptidase_S32  Equine arteritis virus serine endopeptidase S32
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.9   0.0    0.0042        13     107     149 ..      69     110 ..      44     135 .. 0.74
   2 ?    5.0   0.4    0.0039        12     206     226 ..     197     217 ..     183     241 .. 0.84

  Alignments for each domain:
  == domain 1  score: 4.9 bits;  conditional E-value: 0.0042
                              EEESSSEEEEEEEECTTEEEEEEEHHHH-.TSEEEEEETTEEEE CS
            Peptidase_S32 107 svvGsslGsGgvftidgevvvvtashvlg.dnkarvsivgasqt 149
                              + v s +GsG v+ + g   +vt  hv+  +++  ++ ++ +++
  PHY93_03610|PHY93_03610  69 TEVESGMGSGFVWDKSG--YIVTNFHVVDgGDSFLITFKDNKKQ 110
                              44567888888887666..789******9456666676666655 PP

  == domain 2  score: 5.0 bits;  conditional E-value: 0.0039
                              -GGGTT-EEEETTE.EEEEEE CS
            Peptidase_S32 206 kcGDsGspvvdedgelvGvht 226
                              ++G+sG +++d +g+l+G+ t
  PHY93_03610|PHY93_03610 197 NPGNSGGALLDSQGKLIGINT 217
                              79*****************98 PP

>> Peptidase_S46  Peptidase S46
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0      0.35   1.1e+03      43      67 ..      71      94 ..      49      96 .. 0.78
   2 ?    7.2   3.2   0.00057       1.7     627     651 ..     192     216 ..     182     233 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.35
                             -EETTTEE-EE-STT-EEEE-HHHH CS
            Peptidase_S46 43 vsflggCtasfVSpeGLvlTNHHCa 67
                             v+  g  ++ +  ++G ++TN H++
  PHY93_03610|PHY93_03610 71 VE-SGMGSGFVWDKSGYIVTNFHVV 94
                             55.688899999999********87 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.00057
                              ES----TT-TT-EEE-TTS-EEEEE CS
            Peptidase_S46 627 stnDitGGNSGSPvlngkgelvGla 651
                              +++ i  GNSG ++l+++g+l+G++
  PHY93_03610|PHY93_03610 192 TDASINPGNSGGALLDSQGKLIGIN 216
                              6778899****************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (355 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       423  (0.0235931); expected 358.6 (0.02)
Passed bias filter:                      348  (0.0194099); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.44
# Mc/sec: 2400.73
//
Query:       PHY93_03615|PHY93_03615  [L=300]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    5.9e-42  143.5   0.0    6.8e-42  143.3   0.0    1.1  1  PS_Dcarbxylase  Phosphatidylserine decarboxylase


Domain annotation for each model (and alignments):
>> PS_Dcarbxylase  Phosphatidylserine decarboxylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  143.3   0.0   3.8e-46   6.8e-42       1     180 [.      91     278 ..      91     300 .] 0.91

  Alignments for each domain:
  == domain 1  score: 143.3 bits;  conditional E-value: 3.8e-46
           PS_Dcarbxylase   1 lneffvrklkdgaRpidddpgaivsPaDgrilqigeieegsviqvKgityslrdLlgeasessadsfkngyfvviyLspgdyHryh 86 
                              +n+ff+rk+k g+Rp+ ++p+ + + +++r  ++  i +++ + vKg+ ++ r+Ll +      + f++g ++ ++L+p dyHr+h
  PHY93_03615|PHY93_03615  91 FNQFFIRKFKAGKRPFVEGPNELAAFSEARYYGYSSIGDDEKVPVKGSFLKPRELLSNPAW--ENTFHDGPLLLARLCPVDYHRFH 174
                              8********************************************************9877..66********************* PP

           PS_Dcarbxylase  87 aPvsgkveerrhipGellsvnpsalkelrglftlneRvvlvie.w.kGkvavvpvGatnvgsivln..vlkgdelkkGeelGyFqf 168
                               P +g + +   i G l+svnp alk  ++++  neR v+++e + +Gk a+++vGa+ vg+iv++  + kg+++++Gee GyF f
  PHY93_03615|PHY93_03615 175 YPDDGIILDDYRISGLLHSVNPLALKAKQDILITNERHVTILEtKnFGKLAYIEVGAICVGKIVQSkpLFKGQTFSRGEEKGYFLF 260
                              *******************************************6368*******************99669*************** PP

           PS_Dcarbxylase 169 .GStvvlvfeag.....k 180
                               GStv+++ e+g     +
  PHY93_03615|PHY93_03615 261 gGSTVIVIGEKGkwtpsQ 278
                              **********99443332 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (300 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       296  (0.0165096); expected 358.6 (0.02)
Passed bias filter:                      291  (0.0162307); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.44
# Mc/sec: 2056.24
//
Query:       PHY93_03620|PHY93_03620  [L=252]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      2e-11   43.8   0.0    2.9e-11   43.4   0.0    1.2  1  Exo_endo_phos  Endonuclease/Exonuclease/phosphatase family
  ------ inclusion threshold ------
      0.069   13.3   0.1        1.6    8.8   0.1    2.1  2  DUF563         Protein of unknown function (DUF563)


Domain annotation for each model (and alignments):
>> Exo_endo_phos  Endonuclease/Exonuclease/phosphatase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.4   0.0   3.2e-15   2.9e-11      14     233 .]      21     244 ..       9     244 .. 0.85

  Alignments for each domain:
  == domain 1  score: 43.4 bits;  conditional E-value: 3.2e-15
                              THHHHHHHHHHHHHHCTTSEEEEEEEBSCTCHHHHHHHHH..............TTCEEEEECCHECSSSTTSSEEEEEECSTE.. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..............xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.. RF
            Exo_endo_phos  14 gssrrsdrladlltaydaDvlgLQEvdddelsriplllal..............ggflgasstsptgggggggnggavlsrfpl.. 83 
                              ++ +r   l++++t +++D+l+ QE +  +   +  ll l              + +l+ +       +  +  g   ls  pl  
  PHY93_03620|PHY93_03620  21 SWENRRPLLQKIITDFHPDILATQEGREHQIKSLGKLLPLklieshrewiedrmYPCLYVNEE----QMKVKSSGDIWLSETPLtp 102
                              57777788*****************777775555555555**999999999999777777776....7999999999999999999 PP

                              ..EEEEEEEEEETSSSSGCEEEEEEEEEEEEEEECCCHHGHHHHHHHHHHHHHHHHHHHHHTTSEEEEEEE-SSSTSGGGBSCGHH CS
                              ..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Exo_endo_phos  84 ..tslfrrtfiefndlvaalrreplaakleqlniashrdhdlvrdlqllalllqvealnadrgapvivaGDfNarpsdddsrvlrt 167
                                +s++   +  f +  +++  ++ ++  ++    +   + +  +l+++ +l +  ++ + ++ p+i++GDfNa p + +  ++ +
  PHY93_03620|PHY93_03620 103 gsFSFKSSFPRLFTWIQVTHLVNNQDYFIVNT---HLDHVLEETRLEQIKVLIREVEKLNTEKLPLILMGDFNASPMSKVREFILN 185
                              99999999999999999999999999999987...47888999999**************************************** PP

                              HHHHCTTTHHSSCESCETTTTTTTTTTTEB-BEEEEEECHHHCCEEEEEEECCHHEEC........TSSCSSSB CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx........xxxxxxxx RF
            Exo_endo_phos 168 rglalapapvglyllgggptptyvtraggsrlDrilaspalalfrsgvlppplalvrr........ealtlSDH 233
                                ++ +p+    +++  ++  +   +++g r+D il   a+a+              +        +++ +SDH
  PHY93_03620|PHY93_03620 186 SLNLKDPW--IEAGFSEETSHHGFKQGPGDRIDWILIPQAFAVS-------------GihlekksfNGIFPSDH 244
                              ********..9*************************99532222.............13344444557899998 PP

>> DUF563  Protein of unknown function (DUF563)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   0.1   0.00018       1.6       6      87 ..      32     117 ..      28     153 .. 0.80
   2 ?    2.8   0.0     0.013   1.1e+02      73     101 ..     164     192 ..     119     211 .. 0.76

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.00018
                   DUF563   6 wlvdvlprlllleqlvlddd....drilvpalaspqpfqrell.kllgirpekrikveldepvhveklivpvpprssggfqgallp 86 
                               ++d+ p +l++++ +  +     + + +  ++s+ +++++ +   l + +e+++kv+++ ++++++  +   ++s  +++++l+ 
  PHY93_03620|PHY93_03620  32 IITDFHPDILATQEGREHQIkslgKLLPLKLIESHREWIEDRMyPCLYV-NEEQMKVKSSGDIWLSETPLTPGSFSFKSSFPRLFT 116
                              589999***999999999997775333355555888****9999*****.****************99998888877777777766 PP

                   DUF563  87 k 87 
                              +
  PHY93_03620|PHY93_03620 117 W 117
                              4 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.013
                   DUF563  73 pprssggfqgallpklrdrlrerlnlekr 101
                              p+ + g+f++++ +k+r++++++lnl+++
  PHY93_03620|PHY93_03620 164 PLILMGDFNASPMSKVREFILNSLNLKDP 192
                              3345588999999************9985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (252 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       511  (0.0285013); expected 358.6 (0.02)
Passed bias filter:                      453  (0.0252663); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.25s 00:00:00.79 Elapsed: 00:00:00.44
# Mc/sec: 1715.85
//
Query:       PHY93_03625|PHY93_03625  [L=111]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.036   13.4   0.1      0.047   13.0   0.1    1.2  1  ATPase    KaiC


Domain annotation for each model (and alignments):
>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.1   2.6e-06     0.047     161     214 ..      50     106 ..      19     109 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 2.6e-06
                   ATPase 161 vsekssseeaaggygveefivdgvivLdlkeiee...elvRtleivkmRgtkhskke 214
                              + + +++e+   +  +ee + d+ ++L  + i++    l+R +ei+k+  ++++k++
  PHY93_03625|PHY93_03625  50 IFQHKVKEKMGLTDTLEEMAFDCSLKLSPEAIKDieiFLRRKMEIWKIKHATTQKNK 106
                              4566667777778899************9999999889**********999988775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (111 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       526  (0.0293379); expected 358.6 (0.02)
Passed bias filter:                      285  (0.015896); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.42
# Mc/sec: 787.17
//
Query:       PHY93_17195|PHY93_17195  [L=593]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    0.00017   21.2   0.0    0.00077   19.2   0.0    2.1  2  HTH_DeoR     DeoR-like helix-turn-helix domain
    0.00044   20.3   0.0      0.013   15.6   0.0    2.5  2  Trans_reg_C  Transcriptional regulatory protein, C terminal
     0.0068   15.8   7.7     0.0072   15.7   4.9    2.2  2  TPR_MalT     MalT-like TPR region
  ------ inclusion threshold ------
       0.16   12.3   6.1        4.6    7.6   0.1    4.4  5  TPR_12       Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> HTH_DeoR  DeoR-like helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       1.1   4.9e+03       3      23 ..      17      37 ..      16      39 .. 0.84
   2 !   19.2   0.0   1.7e-07   0.00077      22      47 ..     554     579 ..     536     585 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 1.1
                 HTH_DeoR  3 eqilellkqqgklsveelvel 23
                             ++i+   ++  ++s+e+ v+l
  PHY93_17195|PHY93_17195 17 QKIIAHMRSAKTCSLEDQVAL 37
                             78999999999***9997776 PP

  == domain 2  score: 19.2 bits;  conditional E-value: 1.7e-07
                 HTH_DeoR  22 ellgvSeaTiRRDLneLeeqglltRt 47 
                                + +S++T+ RDL+ L+++gl++Rt
  PHY93_17195|PHY93_17195 554 KSFSISTMTAFRDLTHLHQKGLVIRT 579
                              679********************997 PP

>> Trans_reg_C  Transcriptional regulatory protein, C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.0     0.062   2.8e+02       4      27 ..     273     296 ..     271     298 .. 0.86
   2 !   15.6   0.0   2.9e-06     0.013      25      69 ..     443     486 ..     423     490 .. 0.77

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.062
                              EE-SHHHHHHHHHHHHTTTSEEEH CS
              Trans_reg_C   4 veltpkefklLelLlenpgrvvsr 27 
                              ++  + ef l+  Ll+++++ v r
  PHY93_17195|PHY93_17195 273 ISYHQGEFHLMNHLLQSAKKTVDR 296
                              556678**************9987 PP

  == domain 2  score: 15.6 bits;  conditional E-value: 2.9e-06
                              EEHHHHHHHHTTTTS..TSHTHHHHHHHHHHHHHHHTTTTSSSSEEE CS
              Trans_reg_C  25 vsreeLleevwgede..dvddrtvdvhisrLRkkLeddekkprlIet 69 
                               ++e L+e vwg+ +     d+ ++ +i +LRk L++ +   ++I t
  PHY93_17195|PHY93_17195 443 ATKEYLIETVWGYAYdpLRHDSLIHNAIGKLRKILGPVA---SWIVT 486
                              589***********9777899***************943...46666 PP

>> TPR_MalT  MalT-like TPR region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.0      0.19   8.7e+02      43      75 ..      35      66 ..      17      88 .. 0.72
   2 !   15.7   4.9   1.6e-06    0.0072      13     192 ..     116     295 ..     111     307 .. 0.86

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.19
                 TPR_MalT 43 tavlGeasllqGdleaAlqalqeaeklarqads 75
                              a++G a+   G++e+A + ++ +e+ + + ++
  PHY93_17195|PHY93_17195 35 VALIG-AHCFLGQMEQAFELWRVHETSLHGDNR 66
                             45667.888899999999988888877665554 PP

  == domain 2  score: 15.7 bits;  conditional E-value: 1.6e-06
                 TPR_MalT  13 asgdaeralelArqALal.lpeddllariaatavlGeasllqGdleaAlqalqeaekla.rqadslhvallallqqaeilvaqGrL 96 
                              ++g++++a+  +++AL++ l+ ++ +   +a+ +lG++ + +G++ ++l+ ++ea +la ++ ++   a++   q++  + a   L
  PHY93_17195|PHY93_17195 116 FQGNFKQAIGWSQKALHQsLKAKENYIEFLAMDLLGHTVVQTGRRFEGLRLMKEANRLAlLNGNNNFSAAFNNAQLI--YEAEIGL 199
                              79**************983677788999*****************************98456666666777766665..4554467 PP

                 TPR_MalT  97 heAletyeqalqlateqglqqlplvgfllvlladllyEwndLeeAeqhlqeGielleql.epeaaldayvllarialaqGdleeAe 181
                              + A  ++++ ++   +++l+   ++  l  +l++    ++++e+A++ l+     + ++ ++++ +  ++ la+i++ qG+     
  PHY93_17195|PHY93_17195 200 R-APTIMTELQEALNHPKLADSYTHSNLILELSRQMTLRGQFEKAKTLLNFEASAIYSFgNKRQEMMLQLRLAEISYHQGEFHLMN 284
                              6.558999999999***********************************9777766666488999********************* PP

                 TPR_MalT 182 tllekaeelar 192
                              +ll+ a+++++
  PHY93_17195|PHY93_17195 285 HLLQSAKKTVD 295
                              *****999876 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   0.1      0.19   8.6e+02      15      33 ..      12      30 ..       7      52 .. 0.55
   2 ?    3.8   0.0     0.016        72      12      68 ..      40      90 ..      28      92 .. 0.71
   3 ?    7.6   0.1     0.001       4.6      13      60 ..     113     159 ..     104     173 .. 0.86
   4 ?   -3.2   0.0       2.5   1.1e+04      16      68 ..     237     247 ..     227     255 .. 0.67
   5 ?   -0.6   0.1      0.37   1.7e+03       4      36 ..     265     297 ..     262     308 .. 0.69

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 0.19
                   TPR_12 15 rlgrydeAlellekaleia 33
                             r+g+y++ +++ + a    
  PHY93_17195|PHY93_17195 12 RQGKYQKIIAHMRSAKTCS 30
                             6777777777766664444 PP

  == domain 2  score: 3.8 bits;  conditional E-value: 0.016
                   TPR_12 12 vlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlell 68
                             +++ lg++++A+el + ++e    l+G++    + +++ Lg+++ +  ++++A+ +l
  PHY93_17195|PHY93_17195 40 AHCFLGQMEQAFELWR-VHETS--LHGDN---RIYAQFFLGIALTRISKFKKARVFL 90
                             6667777777777764.33444..55544...6889999999999999999998665 PP

  == domain 3  score: 7.6 bits;  conditional E-value: 0.001
                   TPR_12  13 l.rrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgr 60 
                              + + +g++ +A+ + +kal +  ++  ++++ +  ++  Lg +  ++gr
  PHY93_17195|PHY93_17195 113 YsYFQGNFKQAIGWSQKALHQSLKA--KENYIEFLAMDLLGHTVVQTGR 159
                              4378**************8888777..9999**********99999998 PP

  == domain 4  score: -3.2 bits;  conditional E-value: 2.5
                   TPR_12  16 lgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlell 68 
                              +g++++A +l                                          l
  PHY93_17195|PHY93_17195 237 RGQFEKAKTL------------------------------------------L 247
                              4455555444..........................................3 PP

  == domain 5  score: -0.6 bits;  conditional E-value: 0.37
                   TPR_12   4 talnnlaavlrrlgrydeAlellekaleiarrl 36 
                               ++ +la++ +++g+++    ll+ a   + rl
  PHY93_17195|PHY93_17195 265 MLQLRLAEISYHQGEFHLMNHLLQSAKKTVDRL 297
                              5667899999***99987766666666655555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (593 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       450  (0.025099); expected 358.6 (0.02)
Passed bias filter:                      367  (0.0204696); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.68u 0.26s 00:00:00.94 Elapsed: 00:00:00.47
# Mc/sec: 3793.58
//
Query:       PHY93_03630|PHY93_03630  [L=171]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0091   16.0   1.1      0.014   15.4   1.1    1.3  1  HTH_45    Winged helix-turn-helix


Domain annotation for each model (and alignments):
>> HTH_45  Winged helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   1.1   7.8e-07     0.014      11      59 ..      12      60 ..       5      79 .. 0.87

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 7.8e-07
                   HTH_45 11 ILeaisegeakkTkimykanLsykllnkYLdmLvekglikkskekYvlT 59
                             I e++s+++ +  +i+ + nL+ +ll + L  L+ k++i+ + ++Y+l 
  PHY93_03630|PHY93_03630 12 IIESLSKKDRNLQEIIHDTNLEHSLLLNILPNLLMKNMIRYTRGTYSLE 60
                             789999****************************************984 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (171 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       625  (0.0348597); expected 358.6 (0.02)
Passed bias filter:                      368  (0.0205254); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.25s 00:00:00.75 Elapsed: 00:00:00.45
# Mc/sec: 1144.18
//
Query:       PHY93_03635|PHY93_03635  [L=77]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
  ------ inclusion threshold ------
       0.36    8.7   1.1       0.33    8.9   1.1    1.0  1  Dicty_REP  Dictyostelium (Slime Mold) REP protein
          4    5.5  16.2          4    5.5  16.2    1.0  1  SSP160     Special lobe-specific silk protein SSP160
        4.1    8.1  13.6    2.3e+02    2.4  13.6    2.3  1  OAD_gamma  Oxaloacetate decarboxylase, gamma chain


Domain annotation for each model (and alignments):
>> Dicty_REP  Dictyostelium (Slime Mold) REP protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   1.1   5.5e-05      0.33     243     272 ..      20      49 ..      10      76 .. 0.61

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 5.5e-05
                Dicty_REP 243 qrensqpskeknkttttttttttttsqart 272
                              ++e+   +  +++ tt+tttttttt++a  
  PHY93_03635|PHY93_03635  20 KKEEATTEAAPAAATTETTTTTTTTEAAPA 49 
                              455555555566656655555555555443 PP

>> SSP160  Special lobe-specific silk protein SSP160
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.5  16.2   0.00068         4     670     708 ..      26      64 ..       6      71 .. 0.79

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.00068
                   SSP160 670 pgsvpdeattttssttttttttttaaptttttkaanapf 708
                                + p++att t++ttttt ++ +aap++ t  a  ap 
  PHY93_03635|PHY93_03635  26 TEAAPAAATTETTTTTTTTEAAPAAAPAAGTEAAPAAPA 64 
                              445699999999999999999999999999888888875 PP

>> OAD_gamma  Oxaloacetate decarboxylase, gamma chain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4  13.6     0.039   2.3e+02      18      58 ..       4      49 ..       2      77 .] 0.76

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.039
                OAD_gamma 18 LilLslvislfskiikkkakkkkkkakaaaaaaaaaaaaa.....e 58
                             L+ L+l++s++s+  +kk+++ +++a+aaa  ++++++++     +
  PHY93_03635|PHY93_03635  4 LLALVLIVSAVSFGCSKKEEATTEAAPAAATTETTTTTTTteaapA 49
                             88999999*9999999999988888888888888776654433330 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (77 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1044  (0.0582297); expected 358.6 (0.02)
Passed bias filter:                      466  (0.0259914); expected 358.6 (0.02)
Passed Vit filter:                        57  (0.00317921); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.42
# Mc/sec: 546.57
//
Query:       PHY93_03640|PHY93_03640  [L=152]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (152 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       469  (0.0261587); expected 358.6 (0.02)
Passed bias filter:                      415  (0.0231469); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1135.73
//
Query:       PHY93_03645|PHY93_03645  [L=1232]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
   2.2e-106  355.3   0.0   3.4e-106  354.7   0.0    1.3  1  Met_synt_B12    Vitamin B12 dependent methionine synthase, ac
    1.2e-77  261.4   0.0    2.2e-77  260.5   0.0    1.5  1  S-methyl_trans  Homocysteine S-methyltransferase
      2e-53  181.6   0.2    7.9e-53  179.6   0.1    2.1  2  Pterin_bind     Pterin binding enzyme
      4e-23   81.6   0.1    1.2e-22   80.1   0.1    1.9  1  B12-binding_2   B12 binding domain
    9.3e-19   67.7   0.4    3.2e-18   65.9   0.4    2.0  1  B12-binding     B12 binding domain
  ------ inclusion threshold ------
       0.28   11.1   1.7       0.82    9.6   1.7    1.8  1  SH3_17          Restriction endonuclease SH3 domain


Domain annotation for each model (and alignments):
>> Met_synt_B12  Vitamin B12 dependent methionine synthase, activation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  354.7   0.0  1.1e-109  3.4e-106       2     273 .]     948    1215 ..     947    1215 .. 0.96

  Alignments for each domain:
  == domain 1  score: 354.7 bits;  conditional E-value: 1.1e-109
             Met_synt_B12    2 leelveyidWtpffqawelkgkypkiledeevgeeakklfkdaqallkriieekllkakavvglfpAnsegddievytdesrse 85  
                               leel++yidW+pff +welkg+ypki+ ++++geea+klf+daq llk+i+++k ++ k vvg+fpA s+gdd++v     +++
  PHY93_03645|PHY93_03645  948 LEELIPYIDWSPFFWTWELKGSYPKIFGNTTYGEEAQKLFHDAQLLLKDIVKNKIFTPKVVVGIFPAYSRGDDVIVE---YSAD 1028
                               89**************************************************************************5...3445 PP

             Met_synt_B12   86 vlatlhtLRqqeeke.eeepnlcLaDfvapkesgikdyiGlFavtagigieelaekfeaekddYssilvkaladrLaeAfaell 168 
                               +++tlh+LRqq+ek  ++  + cLaDf+ap     +dyiG Favtag+++e++a++f+++ ddYssi+vka+ drLaeA+ae  
  PHY93_03645|PHY93_03645 1029 KTTTLHFLRQQKEKVgDDGVYNCLADFIAPD-PTYQDYIGGFAVTAGHEVESYAKSFQDKLDDYSSIMVKAIGDRLAEALAEFT 1111
                               6789*******99985667789********5.6689************************************************ PP

             Met_synt_B12  169 hekvrkelWgyakdeklsneelikekyqgirpApGYpacpdhtekktlfelldaeekigieLteslamvPaasvsGlyfahpea 252 
                               h+kvr+ ++gy   e+l+neelikeky+g+rpApG pacpdhtekk l++ll+a++ + i+Lte++am Pa+svsG++f hp+a
  PHY93_03645|PHY93_03645 1112 HKKVRE-YFGYGLTENLTNEELIKEKYRGVRPAPGDPACPDHTEKKILWDLLNAQALTAISLTENFAMNPASSVSGFFFNHPDA 1194
                               *****7.9**************************************************************************** PP

             Met_synt_B12  253 rYfavgkigkdqvedyakrkg 273 
                               rYf+vg +g dq+e+ya+rkg
  PHY93_03645|PHY93_03645 1195 RYFNVGSLGLDQIESYAARKG 1215
                               *******************97 PP

>> S-methyl_trans  Homocysteine S-methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  260.5   0.0   7.4e-81   2.2e-77       2     267 ..      21     329 ..      20     330 .. 0.87

  Alignments for each domain:
  == domain 1  score: 260.5 bits;  conditional E-value: 7.4e-81
                              EB---SHHHHHHT----ST.TH.............HCCHH..H-HHHHHHHHHHHHHHT-SEEE-TTTT--GG...T--HHHHH.H CS
           S-methyl_trans   2 ilDGgmgteLerradlsee.lw.............saell..trpelikeihrdyleaGadiieTnTyqaskik..gleeeeevee 69 
                               +DG+mgt+++++ +l+e  ++             +++ll  trp++ikeih++yleaGadiieTnT++ ++ +  +++ e+ v++
  PHY93_03645|PHY93_03645  21 FMDGAMGTMIQTY-KLQEIdFRqgffdshskdlkgNNDLLvfTRPHIIKEIHTQYLEAGADIIETNTFSGTRLAqkDYDLEDIVYD 105
                              79*********98.66655555667778888888999999888****************************6665556667***** PP

                              HHHHHHHHHHHHHHHH.........HEEEEE--HHHHCTS---........--HHHHHHHHHHHHHHHHHCT-SEEEEEEE--HHH CS
           S-methyl_trans  70 lnraavelareaadeaaa.....plfvagsvGpygatlsdgyd.....l..lsfeelveahreqiralleagvDlllietipdlle 143
                              ln +a+++area+de+ +     +++vag++Gp+++tls ++d     +  ++f+elve + eq ral+++gvD+ll et++d+l+
  PHY93_03645|PHY93_03645 106 LNFRAAKIAREACDEFMKknpdrKCYVAGALGPTNRTLSLSPDvnnpaFraVTFDELVENYYEQTRALIAGGVDILLPETVFDTLN 191
                              ****************8899988777**************87555676357*********************************** PP

                              HHHHHHHHT......T....--EEEEE-ECCT...TETTS-BHHH.HHHHHCT-TEEEEEEES--.GGGHHHHHHHHHTT--S-.. CS
           S-methyl_trans 144 akaavellaa.....e....lpvwisftikdes..tlrsGetleeavaalaaatqplavgvNCak.peelepllkelksetalpa. 216
                              +ka+  ++a+     e     p+++s+ti+d+s  tl sG+t+e++++++++a +pl+vg+NCa  ++e++p+++el s++a ++ 
  PHY93_03645|PHY93_03645 192 LKAC--IFAIekfqdEmntkYPLMLSVTITDASgrTL-SGQTVEAFWHSVRHA-KPLSVGINCALgAKEMRPYIEEL-STIA-DCy 271
                              ****..6655336551566799*********987447.**************9.77*********************.8888.888 PP

                              EEEE---.S-.......----------....-HHHTT.EEEE---TT--HHHHHHHHH. CS
           S-methyl_trans 217 vivypnsage.......vydltpeewaesaeewleag.aniiGGCCgttpehIraiaea 267
                              v++ypn+ g         yd+tp + a+++ e++e+g +n++GGCCgttp hI+ai ++
  PHY93_03645|PHY93_03645 272 VSCYPNA-GLpnplsptGYDETPLKTAQFVGEFAESGfINLLGGCCGTTPPHIAAIVKK 329
                              ******3.3334555669**************************************986 PP

>> Pterin_bind  Pterin binding enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  179.6   0.1   2.7e-56   7.9e-53       1     244 []     367     605 ..     367     605 .. 0.97
   2 ?   -2.2   0.0      0.88   2.6e+03      35      57 ..     807     829 ..     779     846 .. 0.52

  Alignments for each domain:
  == domain 1  score: 179.6 bits;  conditional E-value: 2.7e-56
                              EEEEETTTTTCHCCHHC.THHHHHHHHHHHHHHTT-SEEEEESS-TSTT--CCHHHHHHHHHHHHHHHHHHHCTSEEEEE-S-HHH CS
              Pterin_bind   1 mgilNvtpdsfsdggkf.edldkalaqarkmveeGAdilDiggestrPgaervdeeeelervvpvlealrdeadvpisiDttkaev 85 
                              ++++Nvt++  + ++++  + d+al++ar++v +GA+i+Di+ +++      +d+++ +  +++++++++d ++vpi+iD++k+ev
  PHY93_03645|PHY93_03645 367 GERTNVTGSPLFAKLIKaGNFDEALSVARQQVVNGANIIDINFDEG-----LLDSKACMVHFLNLVASEPDISRVPIMIDSSKWEV 447
                              699**************9****************************.....*********************************** PP

                              HHHHHHT..TSEEEEETTTTS...SSTTHHHHHHHHT-EEEEESECSSTTTHCCCC.CCCSSHHHHHHHHHHHHHHHHHHTT--GG CS
              Pterin_bind  86 aeaAlka..gadivNdvsgee...rdpkmlelvaeagaavvvmhmrgtpktmqeee.gqyedvveeveaflearveaaeeaGvape 165
                              +ea+lk+  g++ivN++s++e   ++ k ++l++++gaavv+m+++         e gq+ + +e+v+++ +a+   +++  ++p+
  PHY93_03645|PHY93_03645 448 IEAGLKCvqGKSIVNSISLKEgeeQFLKQARLAQQYGAAVVIMAFD---------EqGQASTKDEKVRICKRAYDLLLAKLNFEPN 524
                              *******************9988899999*****************.........4489*************************** PP

                              GEEEETTTTS..STTHHHHHHHHHTHHHHHHTTS....SEBEEEGTTGHHHHHHHCTTCHGHHHHHHHHHHHHHHHTT-SEEEES CS
              Pterin_bind 166 rillDpgigf..gkteehnlellrrldelreale....vpvllGvSrksflgrllelgkaeeRdagtaaflalaaaaGadivrVh 244
                              +i++D +i++  ++ eeh+ + ++++++++e ++    + ++ GvS+ sf++r+++      R+a++  fl++a++aG+d+ +V+
  PHY93_03645|PHY93_03645 525 DIIFDANILTvaTGIEEHDPYGVNFIEAVKELKKvcpgALTSGGVSNLSFSFRGNN----IVREAIHTIFLYHAIKAGLDMGIVN 605
                              *********999*****************99999999999*************973....48*********************97 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 0.88
                              -SEEEEESS-TSTT--CCHHHHH CS
              Pterin_bind  35 AdilDiggestrPgaervdeeee 57 
                              Adi+ ++g  t +  e++ +++e
  PHY93_03645|PHY93_03645 807 ADIVGLSGLITPSLDEMIHVAKE 829
                              33333333333222233333333 PP

>> B12-binding_2  B12 binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   80.1   0.1     4e-26   1.2e-22       2      75 .]     665     738 ..     664     738 .. 0.98

  Alignments for each domain:
  == domain 1  score: 80.1 bits;  conditional E-value: 4e-26
            B12-binding_2   2 aerlhwaivhgdkegieelidealaqgsaavdvlndvllpamkeVGdlfgagelflpqvllsaevmkkavahLe 75 
                              +er+ +++v+g ++ ++ +++ea+ ++ +++ v++++l+ +mk+VGdlfg+g++flpqv++sa+vmkkava+Le
  PHY93_03645|PHY93_03645 665 EERISHSLVKGLDAYVDVDTEEARVKYGRPLNVIEGPLMEGMKIVGDLFGQGKMFLPQVVKSARVMKKAVAYLE 738
                              79**********************99999*******************************************97 PP

>> B12-binding  B12 binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.9   0.4   1.1e-21   3.2e-18       3      94 ..     758     849 ..     756     858 .. 0.94

  Alignments for each domain:
  == domain 1  score: 65.9 bits;  conditional E-value: 1.1e-21
              B12-binding   3 vllatvggdlhplGlavlaaalrdagfeVqllganvenedivaairaekpdvvglSalltsqleavkelvellkrirprvkvvvGG 88 
                              +++atv+gd+h++G++++  +l  +g++V++lg+ ++ ++i++a++++k+d+vglS l+t +l+++ +++++ +r +  +++++GG
  PHY93_03645|PHY93_03645 758 FVIATVKGDVHDIGKNIVGVVLACNGYKVIDLGVMTSCQKILDAAIEHKADIVGLSGLITPSLDEMIHVAKEMERQGLTLPLLIGG 843
                              799*********************************************************************999999******** PP

              B12-binding  89 ahpsld 94 
                              a  s +
  PHY93_03645|PHY93_03645 844 ATTSKA 849
                              876554 PP

>> SH3_17  Restriction endonuclease SH3 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   1.7   0.00028      0.82       6      30 ..     758     784 ..     755     791 .. 0.84

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.00028
                   SH3_17   6 FVIan..kqldnvvkNSVGvikAlNGk 30 
                              FVIa+   ++ ++ kN VGv+ A NG 
  PHY93_03645|PHY93_03645 758 FVIATvkGDVHDIGKNIVGVVLACNGY 784
                              999863268*****************6 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1232 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       584  (0.0325729); expected 358.6 (0.02)
Passed bias filter:                      554  (0.0308997); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.97u 0.27s 00:00:01.24 Elapsed: 00:00:00.48
# Mc/sec: 7694.59
//
Query:       PHY93_03650|PHY93_03650  [L=313]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-60  205.4   0.0    1.3e-60  205.2   0.0    1.1  1  MTHFR     Methylenetetrahydrofolate reductase


Domain annotation for each model (and alignments):
>> MTHFR  Methylenetetrahydrofolate reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  205.2   0.0   7.2e-65   1.3e-60       5     285 ..       6     312 ..       2     313 .] 0.95

  Alignments for each domain:
  == domain 1  score: 205.2 bits;  conditional E-value: 7.2e-65
                              HHT..SS-EEEEEE---SSHHHHHHHHHHHHHHGGGG-SEEEE---CCC................TTHHHHHHHHHHHHHHH-S-E CS
                    MTHFR   5 ale.egkalisfEffpPkteegernLleridrleevkplfvdvTwgagg................staeltssiakviqqelglea 73 
                              +l  ++++l+s+E  pP   + ++ +++ ++ +  ++p ++dvT +a +                +++  t+ i   iq+++++++
  PHY93_03650|PHY93_03650   6 HLSnAKNPLFSYEIVPPPRGRSVQDIIDIVEAVMPLNPPWIDVTAHASAayyneredgtierkiyKKRPGTIGICGIIQNRFKIDT 91 
                              4443899*****************************************9*************9999999***************** PP

                              EEEEESTTS-HHHHHHHHHHHHHCT--EEEEE--S--TT-GGC---S----SHHHHHHHHHH.............HHCGGSEEEEE CS
                    MTHFR  74 ilhlTctdaskeeldkalekakelGirnilALrGDppkdedkweekeeefkyaldLvrlire.............eygdlfdigva 146
                              ++hl +   skee+++al + + lGi+n+lALrGD p+ +++++++ ++ + a++Lv+ + +                d f++gva
  PHY93_03650|PHY93_03650  92 VAHLLSLGFSKEETEDALLELNFLGIHNVLALRGDGPNYKKEISKSRHQNNFASELVEQVYQmnqgkfldeisdgAKFD-FCVGVA 176
                              ***************************************9999999999*********999998899999664332233.9***** PP

                              E-TT--TT-S-HHHHHHHHHHHHHCT--EEEEEE-S-HHHHHHHHHHHHHCT-SS-EEEEE---SSHHHHHHHHHHHT----HHHH CS
                    MTHFR 147 aYPevhpeaksleadlkylkeKvdaGAdfiitQlffdvdkflkfveqvreagidipiipgimpiksykslkrlaklskvkiPqell 232
                              +YPe h ea++l+ d+ +lk+K+daGAd+++tQ+ffd+ ++++fv+  re gi+ipiipgi  +k+ ++l  + k   +++P++l+
  PHY93_03650|PHY93_03650 177 GYPEKHFEAPNLKLDVLNLKRKIDAGADYVVTQMFFDNKNYYEFVKLARESGITIPIIPGIKVLKNTTQLVSIPKNFYIDLPDQLV 262
                              ************************************************************************************** PP

                              CCCTCHCT-HHHHHHHHHHHHHHHHHHHHHCT--EEEEE-TT--HHHHHHHHH CS
                    MTHFR 233 drleeikdddeavkkigielavemvkkllaegvkglHlytlnkekaileileq 285
                              d++     d++ v +ig e a+++v++ll++g + +H+y +n    i  i+++
  PHY93_03650|PHY93_03650 263 DAVT---RDPKNVAAIGKEWATNQVEDLLNKGAPCVHFYIMNDTGTIVDIVKK 312
                              9877...9****************************************99986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (313 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       538  (0.0300073); expected 358.6 (0.02)
Passed bias filter:                      491  (0.0273858); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.44
# Mc/sec: 2122.73
//
Query:       PHY93_03655|PHY93_03655  [L=292]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.2e-25   90.4   0.1    1.4e-25   90.2   0.1    1.1  1  Aldose_epim  Aldose 1-epimerase


Domain annotation for each model (and alignments):
>> Aldose_epim  Aldose 1-epimerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   90.2   0.1   7.8e-30   1.4e-25       3     255 ..       5     240 ..       3     282 .. 0.76

  Alignments for each domain:
  == domain 1  score: 90.2 bits;  conditional E-value: 7.8e-30
                              EEEEETTEEEEEECTCTTEEEEEEETT.STEESB-B-ST..HHHHHHSCCSSCEECSS-SEEETTEEEETTEEEECCCCBTTTCEE CS
              Aldose_epim   3 itlkngaglsakislyGAtllslkvpdkeqrevllgsdd..aeeylkdsyfgatlgrvanRianGeFeldGkpyqlpqneegknpl 86 
                              ++++n+ ++++++++ GA++  l  +  + re+l++  d  a++ +++s   ++l+++ ++       l++  y+l  +  +++p+
  PHY93_03655|PHY93_03655   5 YQIENS-YFTVQVTSTGAEIKRLFAKPWH-RELLWNPYDetAKKIWNRS--SPILFPIVGK-------LKDDSYNLKEKI-YQMPQ 78 
                              789996.9**************9888755.9****99885666777765..7999999999.......5699*****999.***** PP

                              TBSGGGSB-EEEEEEETTEEEEEEEEEEETC.HC.STSEEEEEEEEEEETTEEEEEEEEEEESS.S-EEEEEEEEEEEETSSCTCT CS
              Aldose_epim  87 HGgargreWeveevkeddgvtvslvlkpdge.eg.ypgdlevrvtytLnednelkieyeatndg.kptpfnltnHtYFnlsgesid 169
                              HG+ar+r++++ e+++ +++++ l+   d e  + yp+ +e+rv+y L++++ ++i y+++n + ++  f++++H++F  +  +i+
  PHY93_03655|PHY93_03655  79 HGFARDRNFKCLECSS-SEMEFLLEA--DQEtFKlYPFCFELRVQYILEDKK-INIIYSVKNVDrQDIYFSIGAHPAFDTA--KIE 158
                              ***************4.555555555..4443447***************99.****************************..9** PP

                              GGEEEEEE.EEEEEECTTSGEEEEEEECTTCCCCCCSSEEHCSSETEEEEEEEESSC.SEEEEEETTTTEEEEEEEE.TTSSEEEE CS
              Aldose_epim 170 shelqiea.deylevdeeliptgelkdvkgtpfdfrqpkaigedlkglDhayllksk.lkaviidpdkksgiklevs.ttepalvv 252
                              + e+ +e  ++++ ++++      l+++k+ +  +++ + ++++   + ++ l  ++ + + i ++d+k++ +++v+ t+ p l +
  PHY93_03655|PHY93_03655 159 NYEIHFEKkEKGFFQLSN-----GLVNWKQVNA-LDNDTLVPDRE-LFSKDALIFKNiKSKYIDLVDQKRHEVIRVHgTNTPYLGI 237
                              ********8555555553.....4567776666.44445555444.3333333333335666666666666666665145566666 PP

                              EEC CS
              Aldose_epim 253 ytg 255
                              +  
  PHY93_03655|PHY93_03655 238 WGK 240
                              655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (292 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       466  (0.0259914); expected 358.6 (0.02)
Passed bias filter:                      328  (0.0182944); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.22s 00:00:00.75 Elapsed: 00:00:00.42
# Mc/sec: 2076.87
//
Query:       PHY93_03660|PHY93_03660  [L=230]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.2e-10   40.1   0.9    6.6e-08   33.0   0.1    2.1  2  UPF0489   UPF0489 domain


Domain annotation for each model (and alignments):
>> UPF0489  UPF0489 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.0   0.1   3.7e-12   6.6e-08       1      46 [.      27      70 ..      27     119 .. 0.71
   2 !    6.6   0.1   0.00047       8.4     131     178 .]     118     164 ..      88     164 .. 0.79

  Alignments for each domain:
  == domain 1  score: 33.0 bits;  conditional E-value: 3.7e-12
                  UPF0489  1 vvivesHheaLeaiyraigskklpsdlslvHlDaHpDllipk..kmsa 46
                             ++++++H+ aL+++ + ++++   s  +l+H+DaHpDl  ++  +  +
  PHY93_03660|PHY93_03660 27 IFVMDNHRLALWCWFQELKKG---SRYNLLHIDAHPDLSESAlkN-FS 70
                             69*******************...8*************8886532.22 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.00047
                  UPF0489 131 eeeleelkqlelevleveeaslsekqdlilavleksksfildiDlDyF 178
                              +++l + k+l++e+  ++  +++ +  +  +   ++ ++i ++DlDyF
  PHY93_03660|PHY93_03660 118 THHLGSAKELSVEIKPFDLVKRCSEIFS-GKEYVNDFEWIVNLDLDYF 164
                              5667777888888888888888888888.677778899*********9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (230 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       319  (0.0177924); expected 358.6 (0.02)
Passed bias filter:                      284  (0.0158403); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.20s 00:00:00.76 Elapsed: 00:00:00.44
# Mc/sec: 1553.43
//
Query:       PHY93_03665|PHY93_03665  [L=411]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-24   86.4   0.0      3e-24   85.5   0.0    1.5  1  AAA_14    AAA domain
    2.5e-17   63.2   0.0    4.3e-17   62.4   0.0    1.4  1  DUF4143   Domain of unknown function (DUF4143)
     0.0052   17.1   0.0       0.15   12.3   0.0    2.4  2  AAA_22    AAA domain
  ------ inclusion threshold ------
      0.082   12.5   0.5       0.22   11.1   0.5    1.7  1  GerE      Bacterial regulatory proteins, luxR family
      0.084   13.4   0.0       0.24   11.9   0.0    1.8  1  NERD      Nuclease-related domain
       0.15   12.0   0.1       0.34   10.9   0.1    1.6  1  HTH_11    HTH domain


Domain annotation for each model (and alignments):
>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.5   0.0     1e-27     3e-24       3     130 ..      20     136 ..      18     137 .. 0.86

  Alignments for each domain:
  == domain 1  score: 85.5 bits;  conditional E-value: 1e-27
                   AAA_14   3 kilvitGaRrvGKTtllkqlikellvkkesilyinldderdkkladpekllelileklkeekktylflDEiqevpewekalkslvd 88 
                              +i+vi G R++GK+t++k +  +         y++l++ +d+++ ++ + + +++e+      + +++DE+q++p+++++l+++vd
  PHY93_03665|PHY93_03665  20 PIVVILGTRQCGKSTIAKIVGPDW-------KYFDLENYQDYDRIHE-DPILFFKEN-----SSNVIIDEAQKSPKLFETLRGIVD 92 
                              79**************98887555.......5*******99875544.345555554.....344********************* PP

                   AAA_14  89 eg..knldvivtGSnskllskeiatslagrvaeielyplsfaEf 130
                              ++  k++++i+tGS+s  l k++++slagrva++el p++++Ef
  PHY93_03665|PHY93_03665  93 KDrqKKGRFILTGSASFELIKNVSESLAGRVATLELSPFKVNEF 136
                              665689*************************************9 PP

>> DUF4143  Domain of unknown function (DUF4143)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.4   0.0   1.5e-20   4.3e-17       2     122 .]     207     366 ..     206     366 .. 0.91

  Alignments for each domain:
  == domain 1  score: 62.4 bits;  conditional E-value: 1.5e-20
                              xxxxxxxxxxxxxxxxx.......................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                  DUF4143   2 rDirklagvrdpeelrk.......................................glverlppwsespnskkrlrkspKlyfvDt 48 
                              rDir l +  d+ + r+                                       +  ++l p+   + + k  +k pK +fvD+
  PHY93_03665|PHY93_03665 207 RDIRSLFPGLDIVKYRRvlamlssvsgtiinkaeiarsveisektvseyidiiagtYFWRNLLPF--QTTKIKTTQKLPKGHFVDS 290
                              78888888877777777888888899999999999999999999999999999999999999999..9999999************ PP

                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                  DUF4143  49 GLlvallgldkeelledsenkGallEnlVaqeLlky...sekegaklyyyrdkngaEvDfvielkggkivpiEvKss 122
                              GL+  l ++ + ++l++ +  G+ +E+++++e+++    +++ ++++y+ r+k g E+D+v+e ++  + piE+K++
  PHY93_03665|PHY93_03665 291 GLALFLQNIFTMDQLDKMPAIGRYFETFIVEEVIRGvqaTKAVNVQFYHLRTKAGGEIDLVLE-GSFGLLPIEIKYG 366
                              **********************************999997777*********99*********.688999*****96 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.1     0.068     2e+02       7      23 ..      21      37 ..      17      71 .. 0.86
   2 !   12.3   0.0   5.1e-05      0.15      95     134 ..      72     110 ..      65     112 .. 0.91

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.068
                   AAA_22  7 ilvvtGesGtGKTtllr 23
                             i+v+ G   +GK+t ++
  PHY93_03665|PHY93_03665 21 IVVILGTRQCGKSTIAK 37
                             7899**********998 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 5.1e-05
                   AAA_22  95 liiDEaqhlrseealeeLrsllnl.srkgvqliLvGtpelr 134
                              +iiDEaq+   ++++e+Lr +++  ++k+ ++iL G  +++
  PHY93_03665|PHY93_03665  72 VIIDEAQKS--PKLFETLRGIVDKdRQKKGRFILTGSASFE 110
                              8*******9..*************************98765 PP

>> GerE  Bacterial regulatory proteins, luxR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.5   7.4e-05      0.22      21      38 ..     239     256 ..     236     260 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 7.4e-05
                              HHHHHHHTS-HHHHHHHH CS
                     GerE  21 keIAeelniSekTVkvhk 38 
                               eIA++ +iSekTV+ ++
  PHY93_03665|PHY93_03665 239 AEIARSVEISEKTVSEYI 256
                              69************9886 PP

>> NERD  Nuclease-related domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0     8e-05      0.24      23      68 ..     334     378 ..     312     405 .. 0.69

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 8e-05
                     NERD  23 vlhdvrlrpgtg.eiDhlvispkgifviEvKnwsGwifgdkegrwtq 68 
                                + + lr++ g eiD+++ + +g++ iE+K+  G+ +++++ ++ q
  PHY93_03665|PHY93_03665 334 NVQFYHLRTKAGgEIDLVLEGSFGLLPIEIKY--GSSTSKSKLKFLQ 378
                              3444555555335******************9..5333333555555 PP

>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.1   0.00011      0.34       4      39 ..     223     259 ..     220     264 .. 0.92

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00011
                   HTH_11   4 qilelLleargp.isgeeLAeeLnvSrrtvrrdIkaL 39 
                               +l +L +  g+ i+ +e+A+  ++S++tv  +I+++
  PHY93_03665|PHY93_03665 223 RVLAMLSSVSGTiINKAEIARSVEISEKTVSEYIDII 259
                              6899999999************************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (411 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       651  (0.0363099); expected 358.6 (0.02)
Passed bias filter:                      564  (0.0314574); expected 358.6 (0.02)
Passed Vit filter:                        65  (0.00362541); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.61u 0.28s 00:00:00.89 Elapsed: 00:00:00.45
# Mc/sec: 2726.90
//
Query:       PHY93_03670|PHY93_03670  [L=106]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.8e-14   53.3   0.2    3.2e-14   53.1   0.2    1.1  1  DUF4143          Domain of unknown function (DUF4143)
  ------ inclusion threshold ------
      0.034   12.8   0.1      0.037   12.7   0.1    1.1  1  Glyco_hydro_100  Alkaline and neutral invertase


Domain annotation for each model (and alignments):
>> DUF4143  Domain of unknown function (DUF4143)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.1   0.2   3.6e-18   3.2e-14      40     113 ..       8      85 ..       1      89 [. 0.82

  Alignments for each domain:
  == domain 1  score: 53.1 bits;  conditional E-value: 3.6e-18
                              xxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxx RF
                  DUF4143  40 spKlyfvDtGLlvallgldkeelleds....enkGallEnlVaqeLlkysekegaklyyyrdk...ngaEvDfvielkggk 113
                                K yf+D+GL++a+++ld e + ++     + kG+++E++Vaq+L    ++ g++l y+ ++   ++ E+Df+i++k++ 
  PHY93_03670|PHY93_03670   8 YSKNYFLDVGLVNAMMRLDLEVIDQEMknnfNIKGMIAEQFVAQHLAF--TV-GPELVYWLRDkgsQKGEIDFIIQKKDKS 85 
                              68****************98875555589999***************9..55.8888888666585599*******87654 PP

>> Glyco_hydro_100  Alkaline and neutral invertase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   4.1e-06     0.037     226     271 ..       9      54 ..       1      68 [. 0.86

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 4.1e-06
                              HHHTEE-HHHHHHHHT--SS--SSS-S-TT---GGGS-HHHHHHS- CS
          Glyco_hydro_100 226 reyyWldlkklneiyrykteeygeeavnkfniypesipdwlqewlp 271
                               + y+ld+  +n++ r   e   +e+ n+fni+    ++ ++++l 
  PHY93_03670|PHY93_03670   9 SKNYFLDVGLVNAMMRLDLEVIDQEMKNNFNIKGMIAEQFVAQHLA 54 
                              689*****************************99888888887775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (106 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       369  (0.0205812); expected 358.6 (0.02)
Passed bias filter:                      276  (0.0153941); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.25s 00:00:00.72 Elapsed: 00:00:00.45
# Mc/sec: 711.10
//
Query:       PHY93_15620|PHY93_15620  [L=173]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.2e-26   92.0   0.0    3.8e-26   91.7   0.0    1.1  1  AHSA1     Activator of Hsp90 ATPase homolog 1-like protein


Domain annotation for each model (and alignments):
>> AHSA1  Activator of Hsp90 ATPase homolog 1-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   91.7   0.0   2.1e-30   3.8e-26       1     125 []      30     173 .]      30     173 .] 0.96

  Alignments for each domain:
  == domain 1  score: 91.7 bits;  conditional E-value: 2.1e-30
                              SS-HHHHHHHHH-HHHHHHH.....EEEEEEEE--STTEEEEE.EETTTSEEEEEEEEEEEEETTTEEEEEEEEETSET....... CS
                    AHSA1   1 dapperVfraltdpellkrW.....ftlteaemdlrpGgkfrl.rdspdgkefgnegeylevvpperlvytwrledepe....... 73 
                              dap++ V++a++++el+k+W      t+++a++d+r+Ggk+    ++  gk ++ +g+y+e++ ++++v t ++ de+        
  PHY93_15620|PHY93_15620  30 DAPIDFVWKAWSNEELMKQWwgpegHTCPNAKIDFREGGKYVSaIKDLAGKVVWSSGIYKEIETYKKIVCTDHFSDENGnpilasd 115
                              69*****************99***********************888************************988866668****** PP

                              .......EEEEEEEEEEEE.ETTEEEEEEEEEEEEHCHHHHHHHHHHHHHHHHHHHHHHH CS
                    AHSA1  74 .......eeestvtielee.egggTrltlthtglprkqkeeegveeGweqsldqLkalle 125
                                     +e+  +tie+   ++g+T+++++h g+p++ +++  +ee w++s+++L++l+e
  PHY93_15620|PHY93_15620 116 vgmagdwPEDLLITIEFSNtHSGQTKMIIEHVGIPKEMHDK--CEESWNSSINKLQKLVE 173
                              *******99**********99999*****************..*************9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (173 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       366  (0.0204139); expected 358.6 (0.02)
Passed bias filter:                      315  (0.0175693); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.45
# Mc/sec: 1148.63
//
Query:       PHY93_17200|PHY93_17200  [L=875]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.9e-30  103.5   0.0    1.9e-28   99.2   0.0    2.3  2  HATPase_c      Histidine kinase-, DNA gyrase B-, and HSP90-li
    8.3e-13   48.8   0.3    2.1e-12   47.5   0.3    1.8  1  GAF_2          GAF domain
    1.1e-12   47.7   4.5    7.8e-12   45.1   0.0    3.8  4  HisKA          His Kinase A (phospho-acceptor) domain
    4.8e-07   30.5   0.1    9.4e-07   29.5   0.1    1.5  1  GAF            GAF domain
    1.1e-06   29.0   0.1      3e-06   27.6   0.1    1.9  1  GAF_3          GAF domain
    7.1e-05   22.8   0.0    0.00027   20.9   0.0    2.1  1  PAS            PAS fold
    0.00033   20.7   0.0     0.0045   17.0   0.0    2.4  2  SpoVT_C        Stage V sporulation protein T C-terminal, tran
     0.0064   16.7   0.1       0.13   12.5   0.0    2.9  3  PAS_4          PAS fold
  ------ inclusion threshold ------
      0.043   14.1   0.1       0.31   11.3   0.0    2.5  3  PAS_9          PAS domain
      0.052   13.5   0.0       0.13   12.2   0.0    1.6  1  HATPase_c_5    GHKL domain
      0.084   12.8   0.0       0.17   11.8   0.0    1.4  1  HATPase_c_2    Histidine kinase-like ATPase domain
       0.12   12.2   0.0       0.35   10.7   0.0    1.7  1  HPTransfase    Histidine phosphotransferase C-terminal domain
        1.3    8.9  20.4       0.42   10.5   4.3    2.8  3  7TMR-DISM_7TM  7TM diverse intracellular signalling


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.0      0.23   3.2e+02       7      21 ..     329     347 ..     325     427 .. 0.83
   2 !   99.2   0.0   1.4e-31   1.9e-28       3     111 ..     748     854 ..     746     855 .. 0.94

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.23
                              HHHHHHHHHHHHHH....H CS
                HATPase_c   7 rqiisnlvdNavkf....a 21 
                              rqi+s+l++N+ +f     
  PHY93_17200|PHY93_17200 329 RQIFSELIENSSDFigiaD 347
                              8************966641 PP

  == domain 2  score: 99.2 bits;  conditional E-value: 1.4e-31
                              HHHHHHHHHHHHHHHHHHHSTTTEEEEEEEEEE..TEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHHHH CS
                HATPase_c   3 ekrLrqiisnlvdNavkfatkageieveikase..ddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkklve 86 
                               +r+ q++snl++Na+kf++++g+i+v+ +  e  d++ isv+D+G+Gip+e+l+k+f+ + q  ++ +++ gtGlGlsi+k +ve
  PHY93_17200|PHY93_17200 748 ARRINQVLSNLLGNAIKFTPNGGTIRVTAR--EaiDEIIISVSDTGPGIPPEQLPKIFDLYWQ--AQGTKHLGTGLGLSIAKGIVE 829
                              5899**************88********99..5579***************************..7788999************** PP

                              HTTTEEEEEEETTTEEEEEEEEESS CS
                HATPase_c  87 lmgGeiwvesepgrGttftftlple 111
                               +g +iwves+ g+G++f ft+pl+
  PHY93_17200|PHY93_17200 830 AHGAKIWVESQVGKGSSFFFTIPLA 854
                              **********************986 PP

>> GAF_2  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.5   0.3   1.5e-15   2.1e-12       3     138 .]     469     619 ..     467     619 .. 0.73

  Alignments for each domain:
  == domain 1  score: 47.5 bits;  conditional E-value: 1.5e-15
                              HHHHHHHHHHHHHHHSS...EEEEEEE-TTS-EEEE.......EEEES-TTSTT-S-B--...-TTHHHHHHHHTS-EEES-.GGG CS
                    GAF_2   3 dleelldlvldelvelg.aalgyillvdddgglrla.......awgeaeeefgaaldrpl...geglvgealrtgrpvilnd.lee 76 
                              + e++l+ + + +v+ + a+l+++ + +d+g++r +             +  +  l+ pl      l+g++++t+++ ++++ ++e
  PHY93_17200|PHY93_17200 469 NYEDTLKKMAQLAVR-DlADLCVVEIAEDNGEIRRLvatgrdsN---SAKVSDLLLRIPLdrkLPTLLGRVIETRKAQLIEHvSPE 550
                              568999999999999.8789********9999775555543221...22222222222335536669***************8888 PP

                              -S-HHHHH......HHHHTT--EEEEEE-TTS---EEEEES.......--HHHHHHHHHHHHHHHHHHH CS
                    GAF_2  77 dpdkkglp......aghaglrsflavPlisegrvvGvlnlyankppa.fdeedlelLeelaeqiaiaie 138
                                ++ ++       + +++++s + vPl+  g+v+G+++l+++  ++ + ++dl l+eela+ +aiaie
  PHY93_17200|PHY93_17200 551 IIASLSQSeehlqaLLAVNFKSLILVPLLVHGEVMGAIALASSTSSRvYGPSDLILAEELAQRAAIAIE 619
                              44444444222234566666666*****88789*******77777777********************8 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.0       1.3   1.8e+03      13      35 ..     210     230 ..     209     250 .. 0.74
   2 ?   -2.5   0.1         4   5.5e+03      19      49 ..     597     622 ..     596     626 .. 0.80
   3 !   45.1   0.0   5.7e-15   7.8e-12       2      67 .]     634     700 ..     633     700 .. 0.91
   4 ?    1.7   0.1       0.2   2.8e+02      16      59 ..     711     759 ..     710     761 .. 0.66

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 1.3
                              HHHHHHHHHHHHHHHHC..T-HS CS
                    HisKA  13 LrtPLsailgnaeaLkregklte 35 
                              ++t + +il+ a +L+ +   +e
  PHY93_17200|PHY93_17200 210 INTTIGFILLSAALLSAR--PNE 230
                              79999**********773..344 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 4
                              HHHHHHHHHHC..T-HSSCHHHHHHHHHHHH CS
                    HisKA  19 ailgnaeaLkregklteelkeyletiesear 49 
                               ++g ++++       eel++  ++++++ar
  PHY93_17200|PHY93_17200 597 RVYGPSDLILA-----EELAQRAAIAIENAR 622
                              57888888866.....999999999999886 PP

  == domain 3  score: 45.1 bits;  conditional E-value: 5.7e-15
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHC.....T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH CS
                    HisKA   2 lgrflagvaHELrtPLsailgnaeaLkre...gklteelkeyletiesearrldhlvedlLdlsrieag 67 
                              +++ la v+H+L++PL+++ ++a+ Lkr    +    +  e+ ++i++ +++++ l+ dlLd+++i++g
  PHY93_17200|PHY93_17200 634 REEVLAIVSHDLKNPLTVVGLMAQQLKRIkqfDF--NQPNEFANRIQRAVDQMEMLIGDLLDFAKIQGG 700
                              6789***********************9875433..77788*************************987 PP

  == domain 4  score: 1.7 bits;  conditional E-value: 0.2
                              HHHHHHHHHHHHHC.......T-HSSCHHHHHHHHHHHHHHHHHHHHHH CS
                    HisKA  16 PLsailgnaeaLkre.....gklteelkeyletiesearrldhlvedlL 59 
                              P+ +i+  +e+L+ +     ++l  +    l +i  earr+++++++lL
  PHY93_17200|PHY93_17200 711 PIDVISPVIELLSTRleakgQNLEIDISPSLPDIACEARRINQVLSNLL 759
                              56666666677744333333333344444899999***********997 PP

>> GAF  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.5   0.1   6.9e-10   9.4e-07      48     133 .]     529     618 ..     469     618 .. 0.66

  Alignments for each domain:
  == domain 1  score: 29.5 bits;  conditional E-value: 6.9e-10
                              TSHHHHHHHHHSSSEEESTGG........TSTTHHTTHHHHHHHHTTESEEEEEEEEETTEEEEEEEEEE.SSS.CSHHHHHHHHH CS
                      GAF  48 grgicgqvlatgqplvipdst........pdprfaqynrrdllenmgirsslvvPlvndgelwGllvlhn.psp.pftreelellq 123
                              ++ + g+v++t+++ +i++++        +++     ++++ l + +++s++ vPl+++ge++G+++l + +s   + +++l l++
  PHY93_17200|PHY93_17200 529 PT-LLGRVIETRKAQLIEHVSpeiiaslsQSE-----EHLQALLAVNFKSLILVPLLVHGEVMGAIALASsTSSrVYGPSDLILAE 608
                              33.46788888999999974433322222333.....56669999*************************6333578********* PP

                              HHHHHHHHHH CS
                      GAF 124 vladqvaval 133
                              +la+++a+a+
  PHY93_17200|PHY93_17200 609 ELAQRAAIAI 618
                              ********98 PP

>> GAF_3  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.6   0.1   2.2e-09     3e-06      79     129 .]     569     620 ..     475     620 .. 0.87

  Alignments for each domain:
  == domain 1  score: 27.6 bits;  conditional E-value: 2.2e-09
                    GAF_3  79 pdraalavPLvagrqviGvlalastkpra.fdaedlelleslArqiataier 129
                              +  ++++vPL ++ +v G +alas+  +  ++++dl l e+lA+++a+aie+
  PHY93_17200|PHY93_17200 569 NFKSLILVPLLVHGEVMGAIALASSTSSRvYGPSDLILAEELAQRAAIAIEN 620
                              567889******55********98877767*********************8 PP

>> PAS  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.9   0.0     2e-07   0.00027       3      77 ..     332     407 ..     330     444 .. 0.81

  Alignments for each domain:
  == domain 1  score: 20.9 bits;  conditional E-value: 2e-07
                              HHHHHHHSSSEEEEEETTSBEEEECHHHHHHHSSTH.HHCTTSBGGGGBSTTHHHHHHHHHHHHHHHTT-ECCCCE CS
                      PAS   3 lraileslpdpifvvDedgrilyvNaaaeellGlsr.eevlgkslldliheeddaelaelleqlleqgeesragei 77 
                              +++++e++ d+i + D +g+ +y+N+a +++ G s    v +  +  ++++++++   + + + + ++ +++++  
  PHY93_17200|PHY93_17200 332 FSELIENSSDFIGIADPNGKPTYINRAGRRMIGMSDdYPVENTQIPQYYPHDQRSFASDVIFKSMVEQGHWEGETY 407
                              6789********************************8889999************888888888888888887654 PP

>> SpoVT_C  Stage V sporulation protein T C-terminal, transcription factor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.0      0.44   6.1e+02      81     105 ..      66      91 ..      61     105 .. 0.77
   2 !   17.0   0.0   3.2e-06    0.0045      41     118 ..     524     611 ..     514     615 .. 0.79

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.44
                  SpoVT_C  81 viaPIiaeGdviGaVill.skeekkk 105
                              +++PI a G ++Ga  ++ s+ee+++
  PHY93_17200|PHY93_17200  66 AMQPITALGLAMGALSIIlSREENHS 91 
                              679***********977657777663 PP

  == domain 2  score: 17.0 bits;  conditional E-value: 3.2e-06
                  SpoVT_C  41 lekeiskeleklmeerktvlakkeekklv...veeek.......eeysaqviaPIiaeGdviGaVillskeekkklgelekklaet 116
                              l++++   l +++e rk  l+++ + +++    + e+        ++++ +++P++++G+v+Ga++l s+++++  g ++  lae 
  PHY93_17200|PHY93_17200 524 LDRKLPTLLGRVIETRKAQLIEHVSPEIIaslSQSEEhlqallaVNFKSLILVPLLVHGEVMGAIALASSTSSRVYGPSDLILAEE 609
                              567777788999******999996666665642222235555545999***********************999999999888876 PP

                  SpoVT_C 117 aA 118
                               A
  PHY93_17200|PHY93_17200 610 LA 611
                              55 PP

>> PAS_4  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.5   0.0   9.5e-05      0.13       2      33 ..     337     368 ..     336     423 .. 0.87
   2 ?   -2.3   0.0       3.8   5.3e+03      94     110 .]     433     449 ..     426     449 .. 0.85
   3 ?    0.5   0.0      0.51     7e+02      56     108 ..     532     597 ..     497     598 .. 0.71

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 9.5e-05
                    PAS_4   2 dslpdalavldpdgrvlyaNaaaaelfgappe 33 
                              ++++d + + dp+g+ +y+N+a+++++g++++
  PHY93_17200|PHY93_17200 337 ENSSDFIGIADPNGKPTYINRAGRRMIGMSDD 368
                              89***********************9998876 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 3.8
                    PAS_4  94 evigvlvisrDiTerrr 110
                              +++g   i+rDi+e++r
  PHY93_17200|PHY93_17200 433 RILGMGTITRDISELKR 449
                              5789999*******986 PP

  == domain 3  score: 0.5 bits;  conditional E-value: 0.51
                    PAS_4  56 lrrvlegeepiefleelll.....pgeerhyelrl.........lPlrdesGevigvlvisrDiTer 108
                              l rv+e+++++  +++        +++e+h++  l         +Pl+  +Gev+g+++++  ++ r
  PHY93_17200|PHY93_17200 532 LGRVIETRKAQLIEHVSPEiiaslSQSEEHLQALLavnfkslilVPLL-VHGEVMGAIALASSTSSR 597
                              566666666665555555566666666666665555555556668986.899999999988777665 PP

>> PAS_9  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00023      0.31       3     103 ..     342     445 ..     340     446 .. 0.55
   2 ?   -2.4   0.0         4   5.6e+03      39     101 ..     488     509 ..     474     529 .. 0.65
   3 ?   -2.0   0.0         3   4.2e+03      34      79 ..     662     705 ..     650     715 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00023
                    PAS_9   3 gilidnpdgrilyaNeaalrllGyspee.vlgksitdlfvtdpeanerlraaleqgrk.kerevevvlir.kngetfwvlltaspv 85 
                               i i +p+g+ +y+N+a +r++G+s +  v +++i + + +++++    + +++++ +   +e+e+ +++  +++ ++v  + + +
  PHY93_17200|PHY93_17200 342 FIGIADPNGKPTYINRAGRRMIGMSDDYpVENTQIPQYY-PHDQRSFASDVIFKSMVEqGHWEGETYFRNwQTEKSIPVSDSHFMI 426
                              566889*****************8833347788888888.3333333333333333323245554444441344666644444444 PP

                    PAS_9  86 kdd.dgelvgiivilrDit 103
                              ++  ++++ g+  i rDi+
  PHY93_17200|PHY93_17200 427 HEPgSERILGMGTITRDIS 445
                              4444555555556666665 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 4
                    PAS_9  39 lf.vtdpeanerlraaleqgrkkerevevvlirkngetfwvlltaspvkdddgelvgiivilrD 101
                              l+ v+ +e+                                          +ge+++++++ rD
  PHY93_17200|PHY93_17200 488 LCvVEIAED------------------------------------------NGEIRRLVATGRD 509
                              334444444..........................................5555555555554 PP

  == domain 3  score: -2.0 bits;  conditional E-value: 3
                    PAS_9  34 ksitdlfvtdpeanerlraaleqgrkkerevevvlirkngetfwvl 79 
                               +++d+  ++ e ++r+++a++q++     + +++ +  g+tf+++
  PHY93_17200|PHY93_17200 662 IKQFDFN-QPNEFANRIQRAVDQME-MLIGDLLDFAKIQGGTFLIE 705
                              4556666.88899999999999999.66677777777777777765 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   9.5e-05      0.13       6      89 ..     751     839 ..     747     850 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 9.5e-05
              HATPase_c_5   6 lcvilgnlLdNAieacskieeekrfIrltvrekkksliisieNsyeg....ekkkle.....sskskkeehGiGlksireivkkyk 82 
                              +  +l+nlL NAi    +       Ir+t+re  + +iis++ +  g    +  k++      + +k+   G+Gl+  + iv+ ++
  PHY93_17200|PHY93_17200 751 INQVLSNLLGNAIKFTPNGG----TIRVTAREAIDEIIISVSDTGPGippeQLPKIFdlywqAQGTKHLGTGLGLSIAKGIVEAHG 832
                              5679*********8877755....8*******************8887775333333333335567788899***********999 PP

              HATPase_c_5  83 gnlsiea 89 
                               ++++e 
  PHY93_17200|PHY93_17200 833 AKIWVES 839
                              9998876 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   0.00012      0.17      42     110 ..     761     829 ..     744     842 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00012
              HATPase_c_2  42 NavehayleapegpvevrlesdeealtvevaDsGpgfdpetlpdpteeep....keslkegGrGlalikglvD 110
                              Na++   +    g+++v+++ + +++ ++v+D Gpg +pe+lp+     +     ++    G+Gl + kg+v+
  PHY93_17200|PHY93_17200 761 NAIKFTPN---GGTIRVTAREAIDEIIISVSDTGPGIPPEQLPKIFDL-YwqaqGTKHLGTGLGLSIAKGIVE 829
                              44444444...688*************************999886542.256667888889999999988876 PP

>> HPTransfase  Histidine phosphotransferase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   0.00026      0.35      31      76 ..     750     795 ..     740     801 .. 0.87

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00026
                              HHHHHHHHHHHHHHHC-TT--EEEEEEEEETTCEEEEEEEESTT-- CS
              HPTransfase  31 nkvKlllnllliaedalprGGtitvsaegeegageirvrakGerar 76 
                              + +++l nll  a ++ p+GGti+v+a++  ++  i+v  +G+ + 
  PHY93_17200|PHY93_17200 750 RINQVLSNLLGNAIKFTPNGGTIRVTAREAIDEIIISVSDTGPGIP 795
                              5678999*********************998888888888888765 PP

>> 7TMR-DISM_7TM  7TM diverse intracellular signalling
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   4.3    0.0003      0.42      83     168 ..      27     109 ..      21     129 .. 0.79
   2 ?    7.2   3.6     0.003       4.2      70     147 ..     149     221 ..     138     228 .. 0.84
   3 ?   -1.2   0.1       1.2   1.6e+03      41      58 ..     279     296 ..     247     304 .. 0.64

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.0003
            7TMR-DISM_7TM  83 Farsf.lelkkkprllklllllavllsllllllpllpyteslslaqllallvillllligikawrkgnkparyfliawlllligvl 167
                              ++rs+ l+l     ++ ll+ l++++++++ +  l++ + sl+ +q +++l++ + +l++i++  ++++p r f+++ ++++i  l
  PHY93_17200|PHY93_17200  27 YSRSLsLSL----AVFSLLFPLMTAIGWIFKIPLLTYGHPSLPAMQPITALGLAMGALSIILSREENHSPKRSFMASSFAMIILLL 108
                              556655556....78888888999988888887778***************************************66666655544 PP

            7TMR-DISM_7TM 168 i 168
                               
  PHY93_17200|PHY93_17200 109 G 109
                              3 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.003
            7TMR-DISM_7TM  70 yltlllllilfll.Farsflelkkkprllklllllavllsllllllpllpyteslslaqllallvillllligikawrk 147
                              ++++ll+  +++l F  +f+      +l ++  +l  + sl++++  ++ + +s+ +  +l++ ++ + ++ig++++  
  PHY93_17200|PHY93_17200 149 FNFFLLG--VAALsFHVQFIPK----YLRQVCAILIGVNSLIAATGYIFSTAQSYGFPVYLSATGMAINTTIGFILLSA 221
                              3444555..56666*******9....9******************9999999*****99**************998755 PP

  == domain 3  score: -1.2 bits;  conditional E-value: 1.2
            7TMR-DISM_7TM  41 fllyllslngllfqylwp 58 
                              ++l+ ++++gl+fq  w+
  PHY93_17200|PHY93_17200 279 VSLFAVVIFGLIFQTTWK 296
                              344444555555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (875 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       549  (0.0306208); expected 358.6 (0.02)
Passed bias filter:                      372  (0.0207485); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.78u 0.30s 00:00:01.08 Elapsed: 00:00:00.48
# Mc/sec: 5496.56
//
Query:       PHY93_15625|PHY93_15625  [L=216]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.4e-38  130.4   0.9    2.4e-38  130.4   0.9    1.9  3  Sod_Fe_C  Iron/manganese superoxide dismutases, C-terminal do
      5e-30  103.8   1.8    1.2e-29  102.6   1.8    1.7  1  Sod_Fe_N  Iron/manganese superoxide dismutases, alpha-hairpin


Domain annotation for each model (and alignments):
>> Sod_Fe_C  Iron/manganese superoxide dismutases, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0      0.79   7.1e+03      78      94 ..      27      43 ..      24      45 .. 0.78
   2 ?   -2.2   0.1      0.54   4.9e+03      69      79 ..      74      84 ..      57      91 .. 0.71
   3 !  130.4   0.9   2.7e-42   2.4e-38       5     101 ..      98     194 ..      94     195 .. 0.97

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 0.79
                             HHTT-HHHHHHHHGGGB CS
                 Sod_Fe_C 78 dyqnkradYieafwnvv 94
                             +y ++ ++Y++++ +++
  PHY93_15625|PHY93_15625 27 HYGKHHKNYVSKLNELI 43
                             57888899999887766 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 0.54
                             E-SGGGTHHHH CS
                 Sod_Fe_C 69 DvwehAYyldy 79
                               w+h +y + 
  PHY93_15625|PHY93_15625 74 QAWNHDFYWHC 84
                             56888887665 PP

  == domain 3  score: 130.4 bits;  conditional E-value: 2.7e-42
                              HHHHHHHHHSSHHHHHHHHHHHHHHSSSSEEEEEEEETTTEEEEEEEETTTBGGGGTTCEEEEEE-SGGGTHHHHTT-HHHHHHHH CS
                 Sod_Fe_C   5 laeaieedfgslekfkkefkaaalavfgsGwawLvldkkkkLeivttknqdnplvkeakplLalDvwehAYyldyqnkradYieaf 90 
                              + + i++++gs++++k +f+++a ++fgsGw+wLvl+++++L+i+++kn+d+pl+++++plL++DvwehAYyldyqn+r++Y+++f
  PHY93_15625|PHY93_15625  98 FINLINKNYGSVDNLKIQFTNSAKKLFGSGWTWLVLNSDGSLSIQNMKNADTPLAHDQVPLLTCDVWEHAYYLDYQNERPKYLTNF 183
                              5678********************************************************************************** PP

                              GGGBBHHHHHH CS
                 Sod_Fe_C  91 wnvvnWkevee 101
                              w++v+W++ve+
  PHY93_15625|PHY93_15625 184 WEIVDWHFVED 194
                              *********96 PP

>> Sod_Fe_N  Iron/manganese superoxide dismutases, alpha-hairpin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  102.6   1.8   1.3e-33   1.2e-29       1      81 [.       2      85 ..       2      86 .. 0.95

  Alignments for each domain:
  == domain 1  score: 102.6 bits;  conditional E-value: 1.3e-33
                             S------SS-TTTTTTTS-HHHHHHHHHTHHHHHHHHHHHHHHCHHHHCHCCHHHHHH...HHHHHHHHHHHHHHHHHHHHHTB CS
                 Sod_Fe_N  1 kyeLpeLpYaydaLePhisketlelHhdkHhktYvnnlNkalekleeakkkleelvlk...klekalrnnagghvnHslfwknl 81
                             ++eLp+LpY +daL+P+is++tle+H++kHhk Yv +lN++++++  +k +l+e++ +    ++++++nna++++nH+++w+++
  PHY93_15625|PHY93_15625  2 TFELPSLPYSMDALQPYISQRTLEFHYGKHHKNYVSKLNELIRDTPYEKMELDEIIREsahMSDEDIFNNAAQAWNHDFYWHCF 85
                             69*****************************************************9887767899****************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (216 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       566  (0.031569); expected 358.6 (0.02)
Passed bias filter:                      323  (0.0180155); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.27s 00:00:00.80 Elapsed: 00:00:00.48
# Mc/sec: 1358.40
//
Query:       PHY93_15630|PHY93_15630  [L=292]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      6e-30  104.8   0.3    8.1e-30  104.4   0.3    1.1  1  Cupin_4   Cupin superfamily protein
    1.6e-08   34.6   0.2    1.1e-06   28.6   0.2    2.3  1  Cupin_8   Cupin-like domain
  ------ inclusion threshold ------
       0.12   12.4   0.6       0.71    9.8   0.3    2.1  2  DUF1796   Putative papain-like cysteine peptidase (DUF1796)
       0.12   12.1   0.0       0.68    9.7   0.0    2.0  2  Cupin_2   Cupin domain


Domain annotation for each model (and alignments):
>> Cupin_4  Cupin superfamily protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  104.4   0.3   1.8e-33   8.1e-30       2     283 ..      14     284 ..      13     291 .. 0.81

  Alignments for each domain:
  == domain 1  score: 104.4 bits;  conditional E-value: 1.8e-33
                              HHHHHHTTTTS-EEE--S-CCCCCCHHHHHHHHCCHHCHHCCC.EECTCCEEEEECCCCEEEE-SSB-SCCCHHHHHHCCHCC.CT CS
                  Cupin_4   2 eeFlreyWqkkpllirralpafagllspddLaeLaeeeevearlikgerdkaewkvsrgpleerrlrklpakdwtlLvqgvslwkk 87 
                              e Fl +y+ + p    ++ ++f+++l++  +++ +e++    r++k     +  + ++++++ ++ + ++++ +tlL + +++ ++
  PHY93_15630|PHY93_15630  14 EVFLPKYFTRLPYSRPNDAKDFVDFLNWGIVQKVVEKKMSILRVVK----DGVLTKESTDINFDEAKTYYKQGHTLLLRYAERSHP 95 
                              67999*********99*****************9999999999994....345555556666666888999************666 PP

                              TEEEEC-HHHC-HHHHHHHHHHHH.S-EEEEEEEE-TTBBSS-SEE-SSEEEEEEEEC-EEEEEE-SCCCTTSSSEE--TTCCG-- CS
                  Cupin_4  88 avaqLlqpfrfepewrlddvmesf.slvgsnvYatpggsqgvgpHyDdyDVfllQleGrkrWrvykptvpelelkseeplkildef 172
                               ++ L   f            esf + v   +Y tp+g++ +g HyD  DVf++Q  G kr  +  +tv++ +l  + p++   e+
  PHY93_15630|PHY93_15630  96 LLKMLADDF-----------SESFkTEVDIQLYCTPEGHNAFGWHYDVEDVFIIQTRGSKRYTIRPNTVHPRPLLASMPEDLEYEK 170
                              666666666...........4555566777789*********************************77777766666665554444 PP

                              ...S-SEEEEE-TT-EEEE-TT-EEEEEBBT-CCEEEEEECCEEHCCHHHCHHHHHHHHHHHHHHHCTSCHHCTC.GTTTGGGTT. CS
                  Cupin_4 173 ...epvedfvLepGDlLYlPrgviHqgvaedesltlSvglraptaaellesvldllldklpeiderlrdallrav.qargeidsd. 253
                                 e   d+ L+ GD LY+P+g++H ++++ es+++S+gl + +a ++l ++l+  +   p    rlr +  +++ ++++ei+   
  PHY93_15630|PHY93_15630 171 esgELFLDILLKEGDWLYIPSGWWHVARTQTESMHISIGLMPRSAIDIL-NFLPKYMAHQPYW--RLRLPFHKDFnNEEDEIKFYq 253
                              4459999****************************************99.5555555556665..677777777767777776544 PP

                              S-.HHHHHHHHHHHHHHHHHHHCS-HHHHCC CS
                  Cupin_4 254 si.dalaaqlsellrdpalleeflgqlltss 283
                              ++ ++l + l+ +++dp  + efl ++ +++
  PHY93_15630|PHY93_15630 254 ETfQRLGEDLATHVMDPHFIREFLSHINNKK 284
                              44599999**999999999999998876666 PP

>> Cupin_8  Cupin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.6   0.2   2.4e-10   1.1e-06     132     244 ..     113     208 ..      27     210 .. 0.74

  Alignments for each domain:
  == domain 1  score: 28.6 bits;  conditional E-value: 2.4e-10
                  Cupin_8 132 avnlWlGnsa.svsslHkDhyeNlycvvrGrKkftLfpPsdapflyeaslsptedgtvvssvdveepdlekfprlkdakkalevtl 216
                               ++l++ +++    + H+D+ + + ++ rG K+ t+ p +  p+   a            s     p++ ++++ + +   l++ l
  PHY93_15630|PHY93_15630 113 DIQLYCTPEGhNAFGWHYDVEDVFIIQTRGSKRYTIRPNTVHPRPLLA------------S----MPEDLEYEKESGE-LFLDILL 181
                              456777766645778899999999999999999999987655443333............2....3456667776677.7999*** PP

                  Cupin_8 217 naGevLylPalWfHeVkslaeeplhlav 244
                              ++G+ Ly+P++W+H +++   e +h+++
  PHY93_15630|PHY93_15630 182 KEGDWLYIPSGWWHVARTQ-TESMHISI 208
                              **************99977.56678765 PP

>> DUF1796  Putative papain-like cysteine peptidase (DUF1796)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.0      0.16   7.1e+02      38      53 ..      96     111 ..      91     140 .. 0.82
   2 ?    9.8   0.3   0.00016      0.71      92     134 ..     237     279 ..     223     291 .. 0.85

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 0.16
                  DUF1796  38 lveliangFssfldpe 53 
                              l++++a++Fs++++ e
  PHY93_15630|PHY93_15630  96 LLKMLADDFSESFKTE 111
                              789999***9999865 PP

  == domain 2  score: 9.8 bits;  conditional E-value: 0.00016
                  DUF1796  92 fthhDlanneevkakfrrrirrfeallssperkvlFirtviae 134
                               +h D++n+e+  +++++ ++r+ + l++  +  +Fir  ++ 
  PHY93_15630|PHY93_15630 237 PFHKDFNNEEDEIKFYQETFQRLGEDLATHVMDPHFIREFLSH 279
                              5899**888889999**********************987654 PP

>> Cupin_2  Cupin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.0      0.22     1e+03       5      35 ..     119     149 ..     115     156 .. 0.72
   2 ?    9.7   0.0   0.00015      0.68      38      61 ..     178     201 ..     165     208 .. 0.78

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.22
                              EETTE.EEEEECSSSEEEEEEEEESEEEEEEC CS
                  Cupin_2   5 lppGe.sapshrHpgedeffyVleGegeltvd 35 
                               p G+  +++h+  +   f++  +G  ++t+ 
  PHY93_15630|PHY93_15630 119 TPEGHnAFGWHYDVED-VFIIQTRGSKRYTIR 149
                              5778888899995554.888888888888865 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.00015
                              EEEEETTEEEEE-TT-EEEEEE-S CS
                  Cupin_2  38 eveleaGdsvyfpagtpHrfrNtg 61 
                              ++ l++Gd +y+p+g +H  r  +
  PHY93_15630|PHY93_15630 178 DILLKEGDWLYIPSGWWHVARTQT 201
                              6789**************876655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (292 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       459  (0.025601); expected 358.6 (0.02)
Passed bias filter:                      368  (0.0205254); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.58u 0.25s 00:00:00.83 Elapsed: 00:00:00.46
# Mc/sec: 1924.37
//
Query:       PHY93_15635|PHY93_15635  [L=315]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.5e-39  136.1   0.0      2e-39  135.7   0.0    1.0  1  PfkB          pfkB family carbohydrate kinase
     0.0022   17.5   0.0     0.0031   17.0   0.0    1.1  1  Carb_kinase   Carbohydrate kinase
     0.0085   15.5   0.0      0.015   14.7   0.0    1.3  1  Phos_pyr_kin  Phosphomethylpyrimidine kinase


Domain annotation for each model (and alignments):
>> PfkB  pfkB family carbohydrate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  135.7   0.0   3.3e-43     2e-39      13     297 ..      15     293 ..      11     298 .. 0.95

  Alignments for each domain:
  == domain 1  score: 135.7 bits;  conditional E-value: 3.3e-43
                              EEEEECSSH.TTSEEEESEEEEEEESHHHHHHHHHHHTT-EEEEEEEEESSHHHHHHHHHHHHTTEEETTEEEESSSEEEEEEEEE CS
                     PfkB  13 dliavsekl.egelvevktveksaGGagaNvAvalarlgadvafigavGdDnfGeflleelkkegvdtdyvkidedtrtglalivv 97 
                              dl +v+++l ++e ++v++ ++s+GG+++N A++l rl + v + g++G+++ Ge+++ +l+ egv++++vki+++ r ++ +   
  PHY93_15635|PHY93_15635  15 DLGGVVDNLkPNEKSYVHDETRSPGGNAINAARILTRLKIPVIATGFLGGST-GEEIKGLLDFEGVKNKFVKIKGHSRICVSVSNK 99 
                              788899999556666*************************************.********************************* PP

                              TTTSEEEEEEEEGGGGGHHHHHHHHHHHHHGCTSEEEEESEECTTSHHHHHHHHHHHHHHTTEEEEEECESSSHHHHHHHHHHH.C CS
                     PfkB  98 dedgertivfnrgaaadltkeeleededlleeadllyisgllsselpeavleelaeaaknggtfdpnlldplgaqfkeallell.a 182
                              ++++++ ++f  +++ +++ke+l   +++ ++ +++ i+g++++++    + +l + ak+ +  + +++d+ g      l++l+  
  PHY93_15635|PHY93_15635 100 ENHKQTRLTFPGPQITHQEKENLFRLLKNQKNISFILIGGSFPQGMQAIDVLALMSFAKARN--IKCIVDCPG----NILRTLIaG 179
                              *99***********************************************************..99*******....589999999 PP

                              TESEEEEEHHHHHHHHTSCTHSHHHHHHHHHHHHHTTSSEEEEEEGGGEEEEEETTEEEEEEE.SSSS-SBGTTHHHHHHHHHHHH CS
                     PfkB 183 ladllkpneeElealtgekledieealaalhklkakgaktvvvtlGkeGalvvekdgelkvpavpkvkvvDttGAGDsfvggflaa 268
                              +++l+kpn +E++ lt++  +++ ++  +++k++++ +  + v+  + Gal+v++d++++ +  pk+k+ +t+GAGDs+ g++ a+
  PHY93_15635|PHY93_15635 180 GPTLIKPNLTEFQDLTQSRVTSMRSVCIQAQKFLEE-VPYICVSSVEGGALLVTRDNSYFGHI-PKIKIRSTVGAGDSMLGAMSAQ 263
                              ********************9999999999**9986.689*************9999888887.********************** PP

                              HHT.THHHHHHHHHHHHHHHHHHTSSSSST CS
                     PfkB 269 lle.gksleealrfanavAalvvqkkgaia 297
                              l + + s  ++lr + a A +++ ++g+++
  PHY93_15635|PHY93_15635 264 LYKnNTSADDILRWGLASATASLAQPGTAF 293
                              **988999*******************987 PP

>> Carb_kinase  Carbohydrate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.0   5.1e-07    0.0031      46     221 ..     112     284 ..      91     304 .. 0.74

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 5.1e-07
                              TTCEECCTTHTTTS...--SSS-SEEEE-TT-SSSHCHHH...HCHHHCCCCS-EEEEGGGGGSGGGG...TTTTSSEEEE--HHH CS
              Carb_kinase  46 pevivhplledeqakileklerldavviGpGLgrdekikk...lleevlekdeplviDAdgLnllaqknelserkaeviLTPhkkE 128
                              p+ i+h+ + ++ +  l++++ ++ ++iG   ++  ++     l+ ++ +++  +++D  g  l++         +++ + P+  E
  PHY93_15635|PHY93_15635 112 PQ-ITHQEK-ENLFRLLKNQKNISFILIGGSFPQGMQAIDvlaLMSFAKARNIKCIVDCPGNILRTLI-----AGGPTLIKPNLTE 190
                              33.334433.34447889999999999998777766544445488888888888****9997777764.....789********** PP

                              HHHHCTTTCHHCCSHHHHHHHHHHHHTTEEEEE.STTSEEEECTTEEEEE----GGG-STTHHHHHHHHHHHHHHCTSSHHHHHHH CS
              Carb_kinase 129 fkrLlkaivkkeddrlelarelaqklnavvllk.gekdvivspegevlinstgssalakGGsGDvLaGligalLaqneasyeaaia 213
                              f+ L+++ v++  ++   a+++ ++++ + +       ++v+ ++  +        + + G GD + G+++a L+ n++s++  + 
  PHY93_15635|PHY93_15635 191 FQDLTQSRVTSMRSVCIQAQKFLEEVPYICVSSvEGGALLVTRDNSYFGHIPKIKIRSTVGAGDSMLGAMSAQLYKNNTSADDILR 276
                              *********999999999999999999888854133455566677777667778899999*****************988876655 PP

                              HHHHHHHH CS
              Carb_kinase 214 aawlhgaa 221
                                 + ++a
  PHY93_15635|PHY93_15635 277 WGLASATA 284
                              55555555 PP

>> Phos_pyr_kin  Phosphomethylpyrimidine kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.0   2.4e-06     0.015     119     216 ..     180     269 ..     168     288 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 2.4e-06
                              G-SEEE-BHHHHHHHHT---SSHHHHHHHHHHHHHTT-SEEEEEEGGS-SSSEEEEEEEETSSEEEEEEEE----S--BTHHHHHH CS
             Phos_pyr_kin 119 latvitPNlpEaeaLlgekikteedmkeaakkllklgakaVlikGghlegeeavvtdvlydgeeveeleaerietknthGtGCtls 204
                                t+i PNl E + L+++++++  ++  +a+k+l+  + ++ +   +          +l+++++ +  + ++i+ ++t G+G+++ 
  PHY93_15635|PHY93_15635 180 GPTLIKPNLTEFQDLTQSRVTSMRSVCIQAQKFLEE-VPYICVSSVEG----G---ALLVTRDNSYFGHIPKIKIRSTVGAGDSML 257
                              5689******************************95.67888776652....3...4789999999999999999*********** PP

                              HHHHHHHHCTSS CS
             Phos_pyr_kin 205 saiaaelakges 216
                               a+ a+l k+++
  PHY93_15635|PHY93_15635 258 GAMSAQLYKNNT 269
                              ******999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (315 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       522  (0.0291148); expected 358.6 (0.02)
Passed bias filter:                      471  (0.0262703); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.66u 0.36s 00:00:01.02 Elapsed: 00:00:00.63
# Mc/sec: 1495.34
//
Query:       PHY93_15640|PHY93_15640  [L=315]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.5e-16   60.0   0.0    8.3e-16   57.6   0.0    2.0  2  DUF1731          Domain of unknown function (DUF1731)
    5.8e-15   55.4   0.0    1.7e-12   47.3   0.0    2.1  2  Epimerase        NAD dependent epimerase/dehydratase family
      1e-06   28.8   0.0    1.4e-06   28.3   0.0    1.3  1  NAD_binding_10   NAD(P)H-binding
    4.1e-06   26.4   0.1    0.00011   21.7   0.0    2.4  2  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
    9.9e-06   24.9   0.0    1.9e-05   24.0   0.0    1.5  1  NAD_binding_4    Male sterility protein
    2.2e-05   24.1   0.0    3.5e-05   23.5   0.0    1.3  1  NmrA             NmrA-like family
     0.0012   18.1   0.0     0.0098   15.0   0.0    2.1  2  RmlD_sub_bind    RmlD substrate binding domain
     0.0014   18.1   0.0      0.003   17.1   0.0    1.5  1  adh_short        short chain dehydrogenase
  ------ inclusion threshold ------
      0.021   14.8   0.0       0.33   10.9   0.0    2.1  2  KR               KR domain
      0.022   13.8   0.0      0.033   13.2   0.0    1.4  1  3Beta_HSD        3-beta hydroxysteroid dehydrogenase/isomeras
      0.024   13.8   0.0      0.082   12.0   0.0    1.8  2  Polysacc_synt_2  Polysaccharide biosynthesis protein
      0.079   13.1   0.0       0.17   12.1   0.0    1.4  1  NAD_binding_2    NAD binding domain of 6-phosphogluconate deh
       0.14   12.6   0.0       0.24   11.8   0.0    1.4  1  Semialdhyde_dh   Semialdehyde dehydrogenase, NAD binding doma


Domain annotation for each model (and alignments):
>> DUF1731  Domain of unknown function (DUF1731)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.0      0.84   1.2e+03      26      34 ..      18      26 ..      15      27 .. 0.87
   2 !   57.6   0.0     6e-19   8.3e-16       1      47 []     256     302 ..     256     302 .. 0.97

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.84
                  DUF1731 26 krLleaGFq 34
                             ++Lle GF+
  PHY93_15640|PHY93_15640 18 AKLLEKGFE 26
                             79******6 PP

  == domain 2  score: 57.6 bits;  conditional E-value: 6e-19
                  DUF1731   1 vPafalklllGemaellLegqrVlPkrLleaGFqFrypdleeALrdl 47 
                              +P+ +lk++lGema ++Le+q V +krLl+++F F+yp++++AL+++
  PHY93_15640|PHY93_15640 256 IPKLVLKIVLGEMASIILESQMVTSKRLLDLNFYFQYPTVDKALNAI 302
                              7*******************************************976 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.3   0.0   1.2e-15   1.7e-12       1     128 [.       3     134 ..       3     146 .. 0.80
   2 !    6.1   0.0    0.0047       6.4     203     228 ..     195     220 ..     173     229 .. 0.81

  Alignments for each domain:
  == domain 1  score: 47.3 bits;  conditional E-value: 1.2e-15
                              EEEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHCEEEE--TT-HHHHHHHHHHHT-SEEEE-.-S.---HHHHHHSH CS
                Epimerase   1 ilVtGatGfiGsalvkallekgyevigldrlssasntarledlelveldltdrsalerlfkeeqpdavihl.Aa.vggvaassedp 84 
                              il+tGatGfiG+ l+ +llekg e+ +l+r++++ ++   +  ++    ++++ +l  + + e++  +i+l +  +g+ ++s +++
  PHY93_15640|PHY93_15640   3 ILITGATGFIGKRLTAKLLEKGFEINVLTRDKQKAKKLFPQ-EKVLVFAWKNNLELPPIEAFEGISGIINLkGEnIGDHRWSKNQK 87 
                              8*********************8877777774444433333.367777777777777777777********8889*********** PP

                              HHHHHHHTHHHHHHHHHHHHH...TCTEEEEEEEGGGGTSCSSSSBS CS
                Epimerase  85 adfieknlqgtlnlleaarka...gvkrllflsSsevYGkdaeqpke 128
                              ++f e+ +  t nl++ + ++    ++ ++++s + +Y+ ++++  +
  PHY93_15640|PHY93_15640  88 KKFKESRVDSTINLVKQIEQTlksPLNFFIQASAVGIYPVNTKKVST 134
                              ****************999654337779***********88884222 PP

  == domain 2  score: 6.1 bits;  conditional E-value: 0.0047
                              ETTST-EEEEEEHHHHHHHHHHHHHH CS
                Epimerase 203 lgdgtalRdflyveDvaeaillvleh 228
                              +g+g++   +++ +D+++++  +++ 
  PHY93_15640|PHY93_15640 195 IGNGNQMISWIHLDDLVNIYANAIDD 220
                              68****************99988887 PP

>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.3   0.0   1.1e-09   1.4e-06       1     102 [.       7     125 ..       7     162 .. 0.67

  Alignments for each domain:
  == domain 1  score: 28.3 bits;  conditional E-value: 1.1e-09
                              TTTSHHHHHHHHHHHHC-T-EEEEEETTHHHCHHHHCTTTCEEEE--TT-CCHHHHHHTT-SEEEES---TCCHHHH......... CS
           NAD_binding_10   1 GAtGkvGrllvkellargghevtalvRnpeklaeleaeeglevvegdvtdvedlaealkgadaVvsalggggkdeeg......... 77 
                              GAtG +G++l+++ll++ g+e+ +l+R+++k+++l  +e++ v+    + +    ea++g++ ++   g + +d++          
  PHY93_15640|PHY93_15640   7 GATGFIGKRLTAKLLEK-GFEINVLTRDKQKAKKLFPQEKVLVFAWKNNLELPPIEAFEGISGIINLKGENIGDHRWsknqkkkfk 91 
                              9****************.5***************9855555555444444444568888888887777555443333222234444 PP

                              ......HHHHHHHHHH...CT--EEEEEEETTTT CS
           NAD_binding_10  78 ......aknivdaake...agvkRfvlvsaigvg 102
                                    ++n+v+  ++   +  + f+  sa+g++
  PHY93_15640|PHY93_15640  92 esrvdsTINLVKQIEQtlkSPLNFFIQASAVGIY 125
                              4455666666555554222455666666666666 PP

>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.7   0.0   7.9e-08   0.00011       1      34 [.       4      37 ..       4     139 .. 0.87
   2 ?    2.3   0.0     0.063        87     214     241 ..     195     222 ..     188     246 .. 0.84

  Alignments for each domain:
  == domain 1  score: 21.7 bits;  conditional E-value: 7.9e-08
                             EEETTTSHHHHHHHHHHHHCT-CCEEEEEEESS- CS
            GDP_Man_Dehyd  1 LiTGiaGfiGsylaelLlekgyevhgivrrsssf 34
                             LiTG +GfiG  l+ +Llekg+e+ +++r++++ 
  PHY93_15640|PHY93_15640  4 LITGATGFIGKRLTAKLLEKGFEINVLTRDKQKA 37
                             9***********************9998877654 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.063
                              CTTTT-EEEEEEHHHHHHHHHHHHHCSS CS
            GDP_Man_Dehyd 214 lGnldakRdwghvkDyveamwlmlqqdk 241
                              +Gn+++  +w h +D v+++ +++  ++
  PHY93_15640|PHY93_15640 195 IGNGNQMISWIHLDDLVNIYANAIDDER 222
                              79****************9999887765 PP

>> NAD_binding_4  Male sterility protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.0   0.0   1.4e-08   1.9e-05       1      36 [.       5      38 ..       5      65 .. 0.85

  Alignments for each domain:
  == domain 1  score: 24.0 bits;  conditional E-value: 1.4e-08
                             EE-TTSHHHHHHHHHHHHHS-.TEEEEEE-SSSHHH CS
            NAD_binding_4  1 lTGaTGFLGkvLlekLLrttpevkiyllvRaksges 36
                             +TGaTGF+Gk+L +kLL++    +i +l R k++++
  PHY93_15640|PHY93_15640  5 ITGATGFIGKRLTAKLLEKGF--EINVLTRDKQKAK 38
                             8****************9986..8******997754 PP

>> NmrA  NmrA-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.5   0.0   2.5e-08   3.5e-05       1      38 [.       3      38 ..       3      81 .. 0.84

  Alignments for each domain:
  == domain 1  score: 23.5 bits;  conditional E-value: 2.5e-08
                             EEESSTTSHHHHHHHHHHHHHT-EEEEEES-S-SHHHH CS
                     NmrA  1 IlviGaTGrqGksvvrallkaghkvralvRdtkselak 38
                             Il++GaTG +Gk +++ ll++g+++ +l+Rd ++   k
  PHY93_15640|PHY93_15640  3 ILITGATGFIGKRLTAKLLEKGFEINVLTRDKQKA--K 38
                             89*****************************8653..3 PP

>> RmlD_sub_bind  RmlD substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   7.1e-06    0.0098       1      35 [.       1      35 [.       1      47 [. 0.90
   2 ?    0.6   0.0      0.18   2.5e+02     129     157 ..     150     178 ..     115     185 .. 0.87

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 7.1e-06
                             EEEEEESTTSHHHHHHHHHCTTTSEEEEEE-TTT- CS
            RmlD_sub_bind  1 mkilvtGanGqlGseLakqlaeeglevlaltreel 35
                             mkil+tGa+G +G+ L+++l e+g+e+  ltr++ 
  PHY93_15640|PHY93_15640  1 MKILITGATGFIGKRLTAKLLEKGFEINVLTRDKQ 35
                             89*************************99998764 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.18
                              HHHHHHHHHHH-SSEEEEEE-SEESSSSS CS
            RmlD_sub_bind 129 KlaGEqavlaagkkalivRtswvygekgk 157
                              K++G  a l + k+ +i+R + v+ ++g 
  PHY93_15640|PHY93_15640 150 KWEGATASLTKAKRKVIIRNGIVLEKNGG 178
                              9999999999***********99988764 PP

>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.0   2.2e-06     0.003       3      42 ..       3      42 ..       1      56 [. 0.88

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 2.2e-06
                             EEEESTTSHHHHHHHHHHHHTT-EEEEEESCHHHHHHHHH CS
                adh_short  3 vlvtGassGIGraiakelakeGakvvvvdrseekleevak 42
                             +l+tGa++ IG+ +  +l+++G+++ v+ r ++k++++  
  PHY93_15640|PHY93_15640  3 ILITGATGFIGKRLTAKLLEKGFEINVLTRDKQKAKKLFP 42
                             8********************************9988754 PP

>> KR  KR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   0.00024      0.33       4      35 ..       4      34 ..       2      47 .. 0.80
   2 ?    1.6   0.0      0.17   2.3e+02     103     138 ..      85     123 ..      60     134 .. 0.72

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00024
                             EEETTTSHHHHHHHHHHHHHHS-EEEEE-SS. CS
                       KR  4 litGGlGgLGlelarwlaekgarhlvllsRsa 35
                             litG++G +G+ l+  l+ekg + + +l+R++
  PHY93_15640|PHY93_15640  4 LITGATGFIGKRLTAKLLEKGFE-INVLTRDK 34
                             9********************74.66666773 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.17
                              HHHHHHHTTTTHHHHHHHHHTTT...S--SEEEEEEEHH CS
                       KR 103 edleqvlapKvkGawnLhelled...esldffvlfSSia 138
                              ++ ++  ++ v+ + nL + +e+   ++l+ff+  S ++
  PHY93_15640|PHY93_15640  85 NQKKKFKESRVDSTINLVKQIEQtlkSPLNFFIQASAVG 123
                              3444555678999999998888777799****9988765 PP

>> 3Beta_HSD  3-beta hydroxysteroid dehydrogenase/isomerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   2.4e-05     0.033       1      37 [.       4      40 ..       4     138 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 2.4e-05
                3Beta_HSD  1 vvtGgaGFlGralvkeLvrleelkevrvlDlrespel 37
                             ++tG++GF+G++l  +L++ +   +v   D+++ ++l
  PHY93_15640|PHY93_15640  4 LITGATGFIGKRLTAKLLEKGFEINVLTRDKQKAKKL 40
                             69******************97666666676666655 PP

>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0     6e-05     0.082       1      36 [.       3      37 ..       3      57 .. 0.78
   2 ?   -1.3   0.0      0.68   9.4e+02     158     181 ..     159     182 ..     142     203 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 6e-05
                             EEEETTTSHHHHHHHHHHHHHB-SEEEEEES-HHHH CS
          Polysacc_synt_2  1 vlvtGagGsiGselvrqilkkkpkkiillerdElkl 36
                             +l+tGa+G iG++l+ ++l+k   +i +l rd +k 
  PHY93_15640|PHY93_15640  3 ILITGATGFIGKRLTAKLLEKGF-EINVLTRDKQKA 37
                             89*****************9876.455555555554 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 0.68
                              SS--EEEEEEE-EETTGTTSSHHH CS
          Polysacc_synt_2 158 ekktkfvvvRfGNVlgSrGSvipl 181
                              +k ++ v++R G Vl  +G v+ +
  PHY93_15640|PHY93_15640 159 TKAKRKVIIRNGIVLEKNGGVLKK 182
                              455788999**********99865 PP

>> NAD_binding_2  NAD binding domain of 6-phosphogluconate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   0.00012      0.17       8      42 ..      10      44 ..       4      60 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00012
                             SHHHHHHHHHHHHTT-EEEEE-SSHHHHHHHHHTT CS
            NAD_binding_2  8 GvMGsnmalnllkagykvavynrtkekveelvaeg 42
                             G +G+ +  +ll++g+++ v  r+k+k+++l  ++
  PHY93_15640|PHY93_15640 10 GFIGKRLTAKLLEKGFEINVLTRDKQKAKKLFPQE 44
                             889***************************99876 PP

>> Semialdhyde_dh  Semialdehyde dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   0.00017      0.24       1      36 [.       2      36 ..       2      67 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00017
                             EEEEETTTSHHHHHH.HHHHHCTSSEEEEEEEESTTT CS
           Semialdhyde_dh  1 kvaivGatGyvGqel.lrlLeehpevelvvllsssrs 36
                             k+ i GatG +G++l ++lLe+ +e++  vl+  +++
  PHY93_15640|PHY93_15640  2 KILITGATGFIGKRLtAKLLEKGFEIN--VLTRDKQK 36
                             67899**********556666666555..55555553 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (315 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       611  (0.0340789); expected 358.6 (0.02)
Passed bias filter:                      494  (0.0275531); expected 358.6 (0.02)
Passed Vit filter:                        57  (0.00317921); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.63u 0.29s 00:00:00.92 Elapsed: 00:00:00.52
# Mc/sec: 1837.40
//
Query:       PHY93_15645|PHY93_15645  [L=65]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (65 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       573  (0.0319594); expected 358.6 (0.02)
Passed bias filter:                      337  (0.0187964); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.24s 00:00:00.68 Elapsed: 00:00:00.44
# Mc/sec: 448.42
//
Query:       PHY93_15650|PHY93_15650  [L=609]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.6e-32  112.8   0.3    6.6e-32  110.8   0.1    1.9  2  Acyl-CoA_dh_1  Acyl-CoA dehydrogenase, C-terminal domain
    3.8e-22   78.3   0.0    8.3e-22   77.2   0.0    1.6  1  Acyl-CoA_dh_M  Acyl-CoA dehydrogenase, middle domain
    1.3e-17   64.4   0.0      3e-17   63.3   0.0    1.6  1  Acyl-CoA_dh_N  Acyl-CoA dehydrogenase, N-terminal domain
    0.00058   20.1   0.1      0.002   18.4   0.0    2.1  2  Acyl-CoA_dh_2  Acyl-CoA dehydrogenase, C-terminal domain
     0.0078   15.9   0.0      0.019   14.7   0.0    1.6  1  HpaB_N         4-hydroxyphenylacetate 3-hydroxylase N termina
  ------ inclusion threshold ------
      0.016   14.8   0.0      0.026   14.1   0.0    1.2  1  DUF1974        Domain of unknown function (DUF1974)


Domain annotation for each model (and alignments):
>> Acyl-CoA_dh_1  Acyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  110.8   0.1   2.2e-35   6.6e-32       1     148 [.     268     425 ..     268     427 .. 0.97
   2 ?   -0.7   0.0       0.5   1.5e+03      50      84 ..     513     547 ..     497     564 .. 0.76

  Alignments for each domain:
  == domain 1  score: 110.8 bits;  conditional E-value: 2.2e-35
                              TBHHHHHTTTT--S-----..-SHHHHHHHHHHHHHHHTSB-CC-BGGGSHHHHHHHHHHHHHHHHHHHHHHHHHH--------HH CS
            Acyl-CoA_dh_1   1 gkGfrvametlnheRlavaaaalglarraleealeyarrrkafgkplidhqlvreklaemaaeleaarllvyraaealdagkpdra 86 
                              g+G++va+ tln +Rla+ aa  gl ++ le a+ ++r+r++ gkp+ +h+++++k+a++a    a+  +   a++++d++++ r 
  PHY93_15650|PHY93_15650 268 GNGLKVALVTLNTGRLALPAAISGLVKKNLEIARLWSREREQWGKPIYKHEAIAHKIADLASSSFAVETISDLATALYDNHQDIRL 353
                              68************************************************************************************ PP

                              HHHHHHHHHHHHHHHHHHHHHHHHGGGTT..........SGGGHHHHHHHHTHHHHHSSS-HHHHHHHHHHH CS
            Acyl-CoA_dh_1  87 easmaKlfaselaqevadlamqllGgaGy..........leeypverlyrdarvlrigeGtseiqrniiarr 148
                              ea++aKlf+se+ +e++d  +q+ Gg+Gy          ++  pve+l+rd r++ri+eGt+ei+ + iar 
  PHY93_15650|PHY93_15650 354 EAAVAKLFCSEIGWECIDTLLQIRGGRGYetadslktrgEANIPVEKLMRDFRINRIFEGTTEIMHLFIARE 425
                              *********************************99977667777**************************97 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.5
                              SHHHHHHHHHHHHHHHHHHHHHHHHHH-------- CS
            Acyl-CoA_dh_1  50 hqlvreklaemaaeleaarllvyraaealdagkpd 84 
                              +q+  ++++++a+el ++ + + +a +++ a++ +
  PHY93_15650|PHY93_15650 513 KQVFLFRIVDIAVELYVMAACISKARQRQTAEHRN 547
                              67777788888888888887777777766666554 PP

>> Acyl-CoA_dh_M  Acyl-CoA dehydrogenase, middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.2   0.0   2.8e-25   8.3e-22       1      97 []     164     256 ..     164     256 .. 0.95

  Alignments for each domain:
  == domain 1  score: 77.2 bits;  conditional E-value: 2.8e-25
                              EEE---SS-SS-GGG---EEEEETT.EEEEEEEEEEEETTTT-SEEEEEEETS-------EEEEEEE..GGGEEE-----BSS-TT CS
            Acyl-CoA_dh_M   1 afalTEpqaGsdvasvkttaaerdggeyvlnGeKiwitnaaiatlalvlartekpdrarglslflvprdapgvsvrrieeklGlrg 86 
                              afalTE +aGsd a+++t ++  +g+ y+lnGeK w+tn++ia++++v+ar  +p+ ++ ls f+v+ + +gv+v++  + +Glr 
  PHY93_15650|PHY93_15650 164 AFALTETNAGSDPANLST-TVVDEGDYYILNGEKLWCTNVTIADVIVVMAR--HPE-DDLLSAFIVEMNFEGVKVEHRCHFMGLRA 245
                              79****************.66666778************************..888.99****************9999******* PP

                              S-EEEEEEE.. CS
            Acyl-CoA_dh_M  87 lptgelvfedv 97 
                              l++g + f++v
  PHY93_15650|PHY93_15650 246 LENGVVSFKNV 256
                              *********97 PP

>> Acyl-CoA_dh_N  Acyl-CoA dehydrogenase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.3   0.0   9.9e-21     3e-17       2     112 ..      51     160 ..      50     161 .. 0.95

  Alignments for each domain:
  == domain 1  score: 63.3 bits;  conditional E-value: 9.9e-21
                              HHHHHHHHHHHHHHHHHTHHHHHHHHHHTSGHHHHHHHHHHTTCTSTTS-GGGTS--S-HHHHHHHHHHHHHH-HHHHHHHHHHHH CS
            Acyl-CoA_dh_N   2 eeqealrdtvrefaeeelaphaaewdeegefprelwkklaelGllgitvpeeygGagldyleaaivaeelaradaglalllgvhss 87 
                              ee  ++ +  ++f+ ee+   a+ +d+eg++p++++++l+e+ l+++ + +eygG+g++  e+  ++   +  d+ l++ll++h+s
  PHY93_15650|PHY93_15650  51 EEYLEFYKNYKRFLIEEVD--ADLIDREGKIPKNIIDRLKEMKLFALKIGKEYGGLGFTQAEYNEILKLTSSKDSNLSALLSAHQS 134
                              56778999999*******6..89999999********************************************************* PP

                              TTH.HHHHHHS-HHHHHHHHHHHHTT CS
            Acyl-CoA_dh_N  88 lva.pailrfGteeqkrryLpklasg 112
                              +++ ++++ fGt+eqk++yL ++a g
  PHY93_15650|PHY93_15650 135 IGVpQPLILFGTKEQKEKYLTRIALG 160
                              **989******************976 PP

>> Acyl-CoA_dh_2  Acyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0   6.8e-07     0.002      11     114 ..     293     386 ..     283     416 .. 0.80
   2 ?   -3.1   0.0         3     9e+03      16      35 ..     531     549 ..     529     555 .. 0.68

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 6.8e-07
                              HHHHHHHHHHHHHHHHCTTT-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT----HHHHHHHHHHHHHHHHHHHH CS
            Acyl-CoA_dh_2  11 AraalaefvelarervrassgekladdpatqlalaeaaarldAAralleraaaraealaaagkevtvedraearraaalavelaia 96 
                               +  l+ +  + rer +   g+++  ++a+ +++a++a++  A +++   a+a      ++++ +    r+ea++a+++ +e+  +
  PHY93_15650|PHY93_15650 293 VKKNLEIARLWSREREQ--WGKPIYKHEAIAHKIADLASSSFAVETISDLATAL----YDNHQDI----RLEAAVAKLFCSEIGWE 368
                              55555555556666666..99******************999999888888777....8889998....***************** PP

                              HHHHHHHHCGGGGGBTT- CS
            Acyl-CoA_dh_2  97 avdalfeaaGgsalrkes 114
                              ++d l ++ Gg+++ +++
  PHY93_15650|PHY93_15650 369 CIDTLLQIRGGRGYETAD 386
                              *************98765 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 3
                              HHHHHHHHHHHCTTT----- CS
            Acyl-CoA_dh_2  16 aefvelarervrassgekla 35 
                              a+ ++ ar+r++ ++++++a
  PHY93_15650|PHY93_15650 531 AACISKARQRQT-AEHRNVA 549
                              677888888888.4444444 PP

>> HpaB_N  4-hydroxyphenylacetate 3-hydroxylase N terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.0   6.2e-06     0.019     180     268 ..     191     261 ..     171     264 .. 0.78

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 6.2e-06
                              EEEEEEEEEE-.--SSEEEE---SS-..TTSGGG-EEEEEETT-TTEEEEE------.-S..-TTT-TTTTT----EEEEEEEEEE CS
                   HpaB_N 180 vVrGakvlaTgaaladeilvlptramlkeedkdyavafavpvdapGlklicresfed.kleesefdyplssrfdendalvvfDdVf 264
                              + +G k+  T++ +ad i+v+   ++    ++d   af+v+++ +G+k+  r +f   ++               ++ +v f +V 
  PHY93_15650|PHY93_15650 191 ILNGEKLWCTNVTIADVIVVMAR-HP----EDDLLSAFIVEMNFEGVKVEHRCHFMGlRA--------------LENGVVSFKNVK 257
                              679******************98.66....789***************999988876221..............124455555555 PP

                              EEGG CS
                   HpaB_N 265 VPwe 268
                              +P e
  PHY93_15650|PHY93_15650 258 IPKE 261
                              5555 PP

>> DUF1974  Domain of unknown function (DUF1974)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   8.6e-06     0.026      62     155 ..     480     572 ..     466     581 .. 0.90

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 8.6e-06
                  DUF1974  62 etkryyrqlnrlSaafAllaDlallvLGGeLKrkerlsaRlgDvlSqLYlasavLkrfedegrqeedlplvhwalqdalaqaeeal 147
                              e  ++ r +nr  +++A      +++ G  L++k+ +  R+ D+  +LY++ a++ +   + + +e +++++  ++ +  ++++ +
  PHY93_15650|PHY93_15650 480 EFSHHLRFINRSTKKLARQIFHGMIIYGPGLQNKQVFLFRIVDIAVELYVMAACISKAR-QRQTAEHRNVADIFCTSSTIRVKKLF 564
                              667889999**********99**********************************9975.5567788999**************** PP

                  DUF1974 148 dellaNfp 155
                              ++l +N +
  PHY93_15650|PHY93_15650 565 NDLWSNCD 572
                              **999976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (609 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       503  (0.0280551); expected 358.6 (0.02)
Passed bias filter:                      398  (0.0221987); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.65u 0.27s 00:00:00.92 Elapsed: 00:00:00.47
# Mc/sec: 3907.04
//
Query:       PHY93_15655|PHY93_15655  [L=152]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (152 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       325  (0.0181271); expected 358.6 (0.02)
Passed bias filter:                      288  (0.0160634); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.26s 00:00:00.72 Elapsed: 00:00:00.44
# Mc/sec: 1035.73
//
Query:       PHY93_15660|PHY93_15660  [L=107]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.7e-25   88.9   0.0    2.2e-25   88.7   0.0    1.1  1  DUF4242   Protein of unknown function (DUF4242)


Domain annotation for each model (and alignments):
>> DUF4242  Protein of unknown function (DUF4242)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.7   0.0   1.2e-29   2.2e-25       1      76 []       5      81 ..       5      81 .. 0.99

  Alignments for each domain:
  == domain 1  score: 88.7 bits;  conditional E-value: 1.2e-29
                             EEEEE---TT..--HHHHHHHHHHHHHHHGG..GT-EEEEEEEETTTTEEEEEEE-S-HHHHHHHHHHHT---SEEEE- CS
                  DUF4242  1 Ymierdlpgg..itaeelaaaaakslavlael.egvqwlrsyvtedkgkvfClyeApdeeavrehaeraGlpadrIieV 76
                             ++ier++pg    ++e+++++a+ks++v a+l +g+qw +syvt+dk  ++C+y+A++++ v+eha++aG+pad+I+e+
  PHY93_15660|PHY93_15660  5 FIIERNIPGVgrSSEEQMREMAQKSNSVIAQLgTGIQWRESYVTDDK--IYCVYMAENKDLVKEHAKKAGFPADKISEI 81
                             9********99************************************..***************************996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (107 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       572  (0.0319036); expected 358.6 (0.02)
Passed bias filter:                      391  (0.0218082); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.44
# Mc/sec: 736.44
//
Query:       PHY93_15665|PHY93_15665  [L=105]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
       0.24   11.1   0.0       0.28   10.9   0.0    1.1  1  Collagen_mid  Bacterial collagen, middle region


Domain annotation for each model (and alignments):
>> Collagen_mid  Bacterial collagen, middle region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   1.6e-05      0.28     104     131 ..      14      41 ..       2      50 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 1.6e-05
             Collagen_mid 104 tLttalssgpvqqltqqlssaitPitst 131
                              + ++a+s+g++q++ qq+s++i+P ts 
  PHY93_15665|PHY93_15665  14 AANSAISEGRLQKIIQQVSKIISPETSF 41 
                              45889*******************8875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (105 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       331  (0.0184617); expected 358.6 (0.02)
Passed bias filter:                      302  (0.0168442); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.25s 00:00:00.68 Elapsed: 00:00:00.43
# Mc/sec: 729.20
//
Query:       PHY93_15670|PHY93_15670  [L=151]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    9.2e-10   38.8   0.1    1.4e-09   38.2   0.1    1.3  1  Glyoxalase    Glyoxalase/Bleomycin resistance protein/Dioxyge
    6.5e-08   33.3   0.0    9.5e-08   32.8   0.0    1.3  1  Glyoxalase_6  Glyoxalase-like domain
  ------ inclusion threshold ------
      0.013   15.4   0.0      0.017   15.0   0.0    1.2  1  BBS2_N        Ciliary BBSome complex subunit 2, N-terminal
      0.043   14.3   0.0      0.065   13.8   0.0    1.2  1  3-dmu-9_3-mt  3-demethylubiquinone-9 3-methyltransferase
      0.046   13.7   0.0      0.064   13.2   0.0    1.2  1  Glyoxalase_2  Glyoxalase-like domain
      0.096   13.0   0.0       0.22   11.8   0.0    1.6  1  Glyoxalase_4  Glyoxalase/Bleomycin resistance protein/Dioxyge
       0.11   12.0   0.1       0.21   11.1   0.1    1.3  1  E1-E2_ATPase  E1-E2 ATPase


Domain annotation for each model (and alignments):
>> Glyoxalase  Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.2   0.1   5.6e-13   1.4e-09       8     127 ..      19     131 ..      10     132 .. 0.81

  Alignments for each domain:
  == domain 1  score: 38.2 bits;  conditional E-value: 5.6e-13
                              EESHHHHHHHHHHHHHTSEEEEEEEEEESTEEEEEEEEETTTSEEEEEEEE.CCTTSCTHHCCBSCTSEEEEEEEEEHCHHHHHHH CS
               Glyoxalase   8 lvgdleksldFYtkvLGfklvkktdnteeteglriaffhaggghielvlne.apsgaakhvkkieetvhhvafialdvedvgkald 92 
                                ++ +++++FY+k++G+  + ++d  +e+ ++++a + +g+  ++++++    +++ +    +++t   v +    ve+v++ ++
  PHY93_15670|PHY93_15670  19 TIRNCAEAIEFYKKAFGAVQTVRID--GEDNKVMHAELKIGDSILMMTDENiKMDHKGPEL--LKGTPVSVLLY---VENVDDVFN 97 
                              567899*******************..***************9999998651444444444..33344555555...5555559** PP

                              HHHHTTGEEEEEEECHHCTEEEEEEEEETTSEEEE CS
               Glyoxalase  93 rlkeagvkvvaepgrhyfgalysfyfrDpdGille 127
                              r+ +ag  vv ++++++fg++++   +Dp G+ + 
  PHY93_15670|PHY93_15670  98 RAVKAGATVVSKVEDQFFGDRMGT-LKDPYGHIWS 131
                              ***********************9.******9986 PP

>> Glyoxalase_6  Glyoxalase-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.8   0.0   3.7e-11   9.5e-08       8     104 ..      22     130 ..      17     133 .. 0.84

  Alignments for each domain:
  == domain 1  score: 32.8 bits;  conditional E-value: 3.7e-11
             Glyoxalase_6   8 dpaalaaFwaaalgwevereeaaledpegvgpaaedaatllfqrvpe..........paknrvHldlavedldaevarlvalGArv 83 
                              + a++++F+++a+g + + +    ed ++++++ + + ++l+ + ++           + ++v + l ve++d   +r+v++GA+v
  PHY93_15670|PHY93_15670  22 NCAEAIEFYKKAFGAVQTVRI-DGEDNKVMHAELKIGDSILMMTDENikmdhkgpelLKGTPVSVLLYVENVDDVFNRAVKAGATV 106
                              668899*******99988888.667777777777777788888877788988777773344799********************** PP

             Glyoxalase_6  84 lreprdgthgr...vlaDPeGneF 104
                              +++ +d+  g+   +l+DP G+ +
  PHY93_15670|PHY93_15670 107 VSKVEDQFFGDrmgTLKDPYGHIW 130
                              *******9999**********976 PP

>> BBS2_N  Ciliary BBSome complex subunit 2, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   0.0   6.5e-06     0.017      42     102 ..      48     107 ..      11     109 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 6.5e-06
                   BBS2_N  42 esevslLninkevtalaagklkekqekdiLligtqtnllaYdveeNsdlFykevpDGvnvi 102
                              +   + L+i++++  ++  ++k +++   Ll gt  ++l+Y ve+  d+F + v+ G+ v+
  PHY93_15670|PHY93_15670  48 KVMHAELKIGDSILMMTDENIKMDHKGPELLKGTPVSVLLY-VENVDDVFNRAVKAGATVV 107
                              445578***********************************.9***************998 PP

>> 3-dmu-9_3-mt  3-demethylubiquinone-9 3-methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   2.5e-05     0.065      12     115 ..      22     132 ..      13     133 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 2.5e-05
             3-dmu-9_3-mt  12 eaeeAaefYvsvfenseilsvarypeeepskegkvltveFtlagqefvalnggpefkfneavSllveckdqeevdrlwnalseegg 97 
                              +  eA+efY + f   + +++   +++  + e k+  +   ++++++     gpe+     vS+l+ ++   +vd+++n+ ++ g+
  PHY93_15670|PHY93_15670  22 NCAEAIEFYKKAFGAVQTVRIDGEDNKVMHAELKIGDSILMMTDENIKMDHKGPELLKGTPVSVLLYVE---NVDDVFNRAVKAGA 104
                              6779*********99999999988888888888888888999999988888889999999999999875...69999*******99 PP

             3-dmu-9_3-mt  98 ..........ees.kcgWvkDkfGvswQi 115
                                            ++g +kD +G  w i
  PHY93_15670|PHY93_15670 105 tvvskvedqfF-GdRMGTLKDPYGHIWSI 132
                              99999988633.3599********99987 PP

>> Glyoxalase_2  Glyoxalase-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   2.5e-05     0.064       6     116 ..      18     135 ..      14     137 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 2.5e-05
                              -EES-HHHHHHHHHHTT-..--EEEE-SSEEEETTS-EEEEHHHHHH....----..---S--SS-EEEEEES-HHHHHHHH..GG CS
             Glyoxalase_2   6 lvvkdieeskkFYedvle..lkikldfGenvsfetgfalkedlkeli....nlde..siaeqsnnfeLyFevedvdaflqklkeae 83 
                              +++++  e+ +FY++ +   + ++ d  +n + ++++++ + +  ++    ++d+   +  +   + +   ve+vd+++++  +a+
  PHY93_15670|PHY93_15670  18 MTIRNCAEAIEFYKKAFGavQTVRIDGEDNKVMHAELKIGDSILMMTdeniKMDHkgPELLKGTPVSVLLYVENVDDVFNRAVKAG 103
                              6788999999999999965588999999998888888887765555533225555334555777788888899*******998877 PP

                              GS-EEEEEEE-TTS-EEEEEE-TT--EEEEEE- CS
             Glyoxalase_2  84 niellhelkekpWgqrvirfyDpDkhiiEiges 116
                                 ++ +++ + +g r+  + Dp +hi  i+  
  PHY93_15670|PHY93_15670 104 -ATVVSKVEDQFFGDRMGTLKDPYGHIWSISTH 135
                              .899***********************999876 PP

>> Glyoxalase_4  Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   8.7e-05      0.22       8      99 ..      21     111 ..      18     121 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 8.7e-05
                              S-HHHHHHHHHH.TT-EESS--E.EETTTTEEEEEEEETTEEEEEEEESSTT-THHH.....TS-EEEEEEEEES-HHHHHHHHCT CS
             Glyoxalase_4   8 eDleaavarfsallGvgpwqryrdepqevdlafallgsgsvqieLieplegpeflae.....hgeglhhlaywvddldaavarlee 88 
                              ++  +a++++++++G  ++ r+  e+ +v  a ++ g++     L+ ++e+ ++ ++     +g+    + + v+++d +  r+ +
  PHY93_15670|PHY93_15670  21 RNCAEAIEFYKKAFGAVQTVRIDGEDNKVMHAELKIGDS----ILMMTDENIKMDHKgpellKGT-PVSVLLYVENVDDVFNRAVK 101
                              57789************************9999999996....3666666544433334443333.33455778************ PP

                              TTEEEEEEEE- CS
             Glyoxalase_4  89 qGfevvqkgvr 99 
                              +G++vv+k  +
  PHY93_15670|PHY93_15670 102 AGATVVSKV-E 111
                              *****9875.3 PP

>> E1-E2_ATPase  E1-E2 ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.1   8.1e-05      0.21       8      40 ..      39      71 ..      35      74 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 8.1e-05
                             EEE-TTS-EEEEGGG--TTSEEEEETT-B--SE CS
             E1-E2_ATPase  8 kvirdgteeeidakelvpGDivllkagdrvpaD 40
                             +v+ dg+  ++  +el++GD +l+ + +++ +D
  PHY93_15670|PHY93_15670 39 TVRIDGEDNKVMHAELKIGDSILMMTDENIKMD 71
                             6778**************************999 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (151 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       503  (0.0280551); expected 358.6 (0.02)
Passed bias filter:                      415  (0.0231469); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 1042.53
//
Query:       PHY93_17205|PHY93_17205  [L=199]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    9.6e-07   29.1   0.4    1.2e-06   28.7   0.4    1.1  1  OMP_b-brl  Outer membrane protein beta-barrel domain


Domain annotation for each model (and alignments):
>> OMP_b-brl  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.7   0.4   6.9e-11   1.2e-06       5     174 ..       7     195 ..       5     197 .. 0.69

  Alignments for each domain:
  == domain 1  score: 28.7 bits;  conditional E-value: 6.9e-11
                OMP_b-brl   5 llaalsaaaaaassfggfyvg....gglglskvkv....dgvgsd.sgfgfgvgagyef.ndn.vgvegglsysgdkdysgsgktd 79 
                              +l++ls+ a ++ + +g  v+       g+ ++++    + ++s+ +gfg+g++ag ++ n +  g++g++s  + kd+s   ++d
  PHY93_17205|PHY93_17205   7 ALFILSTLAVTKVEASGLFVEpmvtYETGSGDINFpapiNSSDSKvKGFGVGARAGGQVwNMIfAGIDGRYSIPKLKDTSL--NQD 90 
                              555555555555555555444330044444455555555333333259********9985665689999999988888777..78* PP

                OMP_b-brl  80 ikinllsvpvnagyafnlsdsvlpyggaGlgytkvevdvsgng..asdsdtdfglglgaGveyaladnwslkaeYrytdlks.... 159
                              ik++ ++ +  +g++++++  +++ + +    +  e+d +++   +++ ++ +g++lg G+++al   +sl++eY++ +++     
  PHY93_17205|PHY93_17205  91 IKSKAWNAGPMVGLQMPTA--LGLRFWGSWILA-GELDPDKDKgvDEKFKSGNGFRLGGGLRVAL---VSLNVEYQHLKYDEteiq 170
                              ****************965..556666666543.677766666689***************9999...99**********777777 PP

                OMP_b-brl 160 ........dadnd..lknntfqvgv 174
                                       ++n+  lknntf  +v
  PHY93_17205|PHY93_17205 171 eagvftpgYTTNNivLKNNTFIMSV 195
                              6766655544444667777776665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (199 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       308  (0.0171789); expected 358.6 (0.02)
Passed bias filter:                      279  (0.0155614); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.47
# Mc/sec: 1283.19
//
Query:       PHY93_15675|PHY93_15675  [L=586]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      9e-36  123.3  24.5      9e-36  123.3  24.5    4.1  3  MCPsignal        Methyl-accepting chemotaxis protein (MCP) si
      1e-11   44.7   0.1      1e-11   44.7   0.1    4.3  4  4HB_MCP_1        Four helix bundle sensory module for signal 
    2.2e-07   31.0  16.3    1.8e-05   24.7   0.0    3.3  3  TarH             Tar ligand binding domain homologue
    0.00026   20.1   7.4    0.00026   20.1   7.4    3.6  4  Vps53_N          Vps53-like, N-terminal
     0.0018   18.4   0.5     0.0018   18.4   0.5    2.9  3  GAGBD            GAG-binding domain on surface antigen
     0.0075   16.5   0.9       0.07   13.4   0.0    2.6  2  Hpt              Hpt domain
  ------ inclusion threshold ------
      0.035   14.5   0.3       0.24   11.8   0.3    2.5  1  YbbR             YbbR-like protein
       0.16   12.5   1.4         19    5.8   0.0    3.0  3  Phage_int_SAM_4  Phage integrase, N-terminal SAM-like domain
          1    9.5  13.2       0.73    9.9   0.8    4.0  4  ETRAMP           Malarial early transcribed membrane protein 
        1.3    7.7  13.1       0.19   10.4   3.7    2.5  2  Tweety           Tweety
        1.8    8.2   9.0       0.98    9.1   3.1    2.7  2  IFT46_B_C        Intraflagellar transport complex B protein 4
        6.7    6.6  16.8        2.5    8.0   3.7    3.3  3  CHASE3           CHASE3 domain
        9.7    5.3  14.9       0.65    9.2   5.5    2.9  2  ISG65-75         Invariant surface glycoprotein


Domain annotation for each model (and alignments):
>> MCPsignal  Methyl-accepting chemotaxis protein (MCP) signalling domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.3   8.3    0.0014       1.9     120     171 ..     222     273 ..     175     274 .. 0.68
   2 !  123.3  24.5   6.5e-39     9e-36       4     172 .]     288     485 ..     284     485 .. 0.90
   3 ?   -2.3   1.5       2.4   3.2e+03      82     140 ..     493     551 ..     486     568 .. 0.71

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0014
                              HHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal 120 selveetgealkeiveavaevadlvqeiaaaseeqsasieevnqaveevakv 171
                               e+v++ + +  ++++a++++a+  +e+++a +eq+as++e++++vee++++
  PHY93_15675|PHY93_15675 222 NEIVHSLQGSAGDVSAAATQIASASEELSQANTEQAASLQETSSSVEEINSM 273
                              3455666667778999999*****************************9986 PP

  == domain 2  score: 123.3 bits;  conditional E-value: 6.5e-39
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHH.....................HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCCCH CS
                MCPsignal   4 aeeaseeAeeggkevanvvkqmeeieks.....................skeisdiieVideiadQTNlLALNAaiEAARAGeqGr 68 
                              ++++ e+ e+g+k+v+ ++k++ +i++s                       ei + ++Vi++i +QT lL  NA++EAARAGe+G+
  PHY93_15675|PHY93_15675 288 STQSLENTERGQKVVERMIKAIGDINTSnnnimlqinesnneiedivklIGEIGNKTKVINDIVFQTKLLSFNASVEAARAGENGK 373
                              567889999************************************98888889999****************************** PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHH.......H...............HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHH CS
                MCPsignal  69 GFaVVAdEVrkLAersaqaakeieal.......iieiqkeindsv.esleetrqrveegselveetgealkeiveavaevadlvqe 146
                              GFaVVA+EV +LA+ s  aa ei+++       ++ i+k++++ v + ++e + +ve+g+ ++ e g++l+eiv++va+v+ +v+e
  PHY93_15675|PHY93_15675 374 GFAVVAEEVGNLAAMSGAAALEISSMldnsiqkVETIVKNSKEKVgSLISEGKINVENGTRIAGECGQVLNEIVSSVASVTRSVTE 459
                              ***********************9872333222344555554444156899999******************************** PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal 147 iaaaseeqsasieevnqaveevakvt 172
                              i+ as+eq+ +++e+++a++++++vt
  PHY93_15675|PHY93_15675 460 ISIASQEQALGVQEITKAIAQLDQVT 485
                              ***********************996 PP

  == domain 3  score: -2.3 bits;  conditional E-value: 2.4
                              HHHHHHHHHHHHHH..............HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHH CS
                MCPsignal  82 ersaqaakeiealiieiqkeindsvesleetrqrveegselveetgealkeiveavaev 140
                              ++sa+aa+ +++  i +++ +++ v +++ + ++ e++ +   +t++  ++++++ +++
  PHY93_15675|PHY93_15675 493 AESANAAELLSQQAITLNQLVQRLVLTIDGSSSKLESADKSEVTTRNRKSDLSDNKKKI 551
                              46777777777766677777777777888777777777766666666666666655555 PP

>> 4HB_MCP_1  Four helix bundle sensory module for signal transduction
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.7   0.1   7.5e-15     1e-11       5     162 ..       8     169 ..       4     185 .. 0.86
   2 !    6.8   7.4    0.0032       4.4       3     103 ..     186     286 ..     184     296 .. 0.79
   3 ?    0.0   0.4      0.39   5.4e+02      76      98 ..     315     337 ..     303     345 .. 0.71
   4 ?    1.1   1.2      0.18   2.5e+02      81     148 ..     440     506 ..     393     521 .. 0.72

  Alignments for each domain:
  == domain 1  score: 44.7 bits;  conditional E-value: 7.5e-15
                4HB_MCP_1   5 rkKLillflllallliivGvvGlyslkkinknletmYedrllpikdlgeikanlrelradllelilt.kdkaekdellkdieelea 89 
                              + KLill ++++++ + ++v+ + +l+ ++++ + + e     ++ ++++  + r++r++++ l l    k++ d+ +kd  +  +
  PHY93_15675|PHY93_15675   8 KAKLILLCIAMSFVSLTISVLAYQGLHEVQNSNKRISEGVVPNLELVNSMALHYRRIRIQVRSLGLPgISKQDADASIKDALDEIN 93 
                              78*****************************************************************9899999999999988888 PP

                4HB_MCP_1  90 eidkllekyektilteeEkelleefkeqlnaYrevrkkvlelakegkkd...eAyqlyetegrparekliealeel 162
                                ++  ++ye+ ++ + Ekel+e+++++++ ++e+ +++++l ++g  +      +++  + ++a++ ++++l+++
  PHY93_15675|PHY93_15675  94 AYENDNKAYESGSFYPGEKELYEQLNSNWKHFKEIGERAIALYQSGTAEnreAMLKIFFINCPEAAKVYTASLNNM 169
                              899999****************************************998553223444444444444555555554 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.0032
                4HB_MCP_1   3 kirkKLillflllallliivG.vvGlyslkkinknletmYedrllpikdlgeikanlrelradlleli..ltkdkaekdellkdie 85 
                              ki++K  ll++l++ + ii +  +G+++ ++i+k++++++          g+++a ++++ ++ +el   +t++ a  +e+ +++e
  PHY93_15675|PHY93_15675 186 KISQKTNLLIILISSIGIIASiTIGFIFATSISKSINEIVHSLQG---SAGDVSAAATQIASASEELSqaNTEQAASLQETSSSVE 268
                              899******999999999999799***************986544...455666666666666666541155677889******** PP

                4HB_MCP_1  86 eleaeidkllekyektil 103
                              e++  i++++e+ +++ +
  PHY93_15675|PHY93_15675 269 EINSMINSNTENAKQSAF 286
                              ********9998777665 PP

  == domain 3  score: 0.0 bits;  conditional E-value: 0.39
                4HB_MCP_1  76 ekdellkdieeleaeidklleky 98 
                               +++++ +i+e ++ei+++ + +
  PHY93_15675|PHY93_15675 315 SNNNIMLQINESNNEIEDIVKLI 337
                              45677777888888888877755 PP

  == domain 4  score: 1.1 bits;  conditional E-value: 0.18
                4HB_MCP_1  81 lkdieeleaeidkllekyektilteeEke.lleefkeqlnaYrevrkkvlelakegkkdeAyqlyeteg 148
                               + ++e+  ++ + +++  ++++ ++E+   ++e+ +++++ ++v ++  ++a++ +  +A +l+++++
  PHY93_15675|PHY93_15675 440 GQVLNEIVSSVASVTRSVTEISIASQEQAlGVQEITKAIAQLDQVTQE--NTANSAESANAAELLSQQA 506
                              556677777777777777788888888775578888888888777776..5555555556666666666 PP

>> TarH  Tar ligand binding domain homologue
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.7   0.0   1.3e-08   1.8e-05       1     145 [.       1     142 [.       1     174 [. 0.88
   2 !    6.9   3.4    0.0039       5.3       9      96 ..     191     283 ..     184     296 .. 0.71
   3 !    5.7   2.6     0.009        12      27      72 ..     468     513 ..     466     534 .. 0.85

  Alignments for each domain:
  == domain 1  score: 24.7 bits;  conditional E-value: 1.3e-08
                              XXXXXXXXXXXXXXXXXXXXXXXXXXSSSSSSHHHHHHHCHHHHHHH.HHHHHHHHHHHHHHHHHHHHHHHHHHHTTTSSSSSSHH CS
                     TarH   1 mlkrisIrtrLllvlallgvLllvsgglglsglsrsndalrevytnrlqqqaaLaearvsllqaRltLnragiaaladeaedakel 86 
                              m++r s ++ L+l+ + ++   l +++l + gl++ +++ +++++  +++ + ++++ ++  + R+++   g   + ++ +da   
  PHY93_15675|PHY93_15675   1 MFNRYSFKAKLILLCIAMSFVSLTISVLAYQGLHEVQNSNKRISEGVVPNLELVNSMALHYRRIRIQVRSLGLPGISKQDADA--S 84 
                              9*********************************************************************7777777666666..8 PP

                              HHHHHHHHHHHHHHHHHHHTS---GGGHH.HHHHHHHHHHHHHHHHHHHHHHHHTT-HH CS
                     TarH  87 laraeeslaqseeawkaYlalprtaeeeealaaelkakykalqdglapliaaleagnle 145
                              ++ a + +++ e   kaY++ +  +  e++l ++l+++ k +++  + +ia+ ++g +e
  PHY93_15675|PHY93_15675  85 IKDALDEINAYENDNKAYESGSFYP-GEKELYEQLNSNWKHFKEIGERAIALYQSGTAE 142
                              99999999999**************.9999*********99999888888888777554 PP

  == domain 2  score: 6.9 bits;  conditional E-value: 0.0039
                              XXXXXXXXXXXXXXXXXXSSSSSSHHHHHHHCHHH.HHHH.HHHHHHHHHHHHHHHHHHHHHHHHHHHTTTSSSSS......SHHH CS
                     TarH   9 trLllvlallgvLllvsgglglsglsrsndalrev.ytnrlqqqaaLaearvsllqaRltLnragiaaladeaeda......kell 87 
                              t Ll++  + ++ +++s  +g+++ ++   +++e+ ++ +  ++ +++ a ++ ++a+  L++a++  +a+ +e++      ++++
  PHY93_15675|PHY93_15675 191 TNLLII-LISSIGIIASITIGFIFATSISKSINEIvHSLQ-GSAGDVSAAATQIASASEELSQANTEQAASLQETSssveeiNSMI 274
                              555544.455677777778888877777777777614555.8999********************998888888876777774444 PP

                              HHHHHHHHH CS
                     TarH  88 araeeslaq 96 
                              +   e+ +q
  PHY93_15675|PHY93_15675 275 NSNTENAKQ 283
                              443333333 PP

  == domain 3  score: 5.7 bits;  conditional E-value: 0.009
                              SSSSSSHHHHHHHCHHHHHHH.HHHHHHHHHHHHHHHHHHHHHHHH CS
                     TarH  27 glglsglsrsndalrevytnrlqqqaaLaearvsllqaRltLnrag 72 
                              +lg+  ++++  +l++v +++++++a+ a+a   l q+ +tLn+  
  PHY93_15675|PHY93_15675 468 ALGVQEITKAIAQLDQVTQENTANSAESANAAELLSQQAITLNQLV 513
                              689999999999*******************************944 PP

>> Vps53_N  Vps53-like, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.2      0.18   2.5e+02     305     337 ..     159     191 ..     112     207 .. 0.81
   2 ?    3.7   3.9     0.018        25      13      84 ..     212     285 ..     199     294 .. 0.72
   3 ?   -0.1   3.8      0.25   3.4e+02      32      95 ..     268     331 ..     255     340 .. 0.63
   4 !   20.1   7.4   1.9e-07   0.00026      17     130 ..     401     515 ..     393     518 .. 0.91

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.18
                  Vps53_N 305 vkllllalqsTleFEklldkrFsntiskakkkk 337
                               k++ ++l++ l+F k+  k+F+++ sk+ +k+
  PHY93_15675|PHY93_15675 159 AKVYTASLNNMLQFHKVNLKKFTEESSKISQKT 191
                              589999****************99999887765 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.018
                  Vps53_N  13 llpteqslanidelikklqeeikkldd...eiksvvraqanvgekgkealeeaqkaieelfqkikeikdkaekse 84 
                              ++ t +s + i+e++++lq++   + +   +i+s+ ++ ++  ++   +l+e  +++ee+ + i++  + a++s 
  PHY93_15675|PHY93_15675 212 IFATSIS-KSINEIVHSLQGSAGDVSAaatQIASASEELSQANTEQAASLQETSSSVEEINSMINSNTENAKQSA 285
                              4555554.6799999999986655555111566666655555556667899999999999999999999999875 PP

  == domain 3  score: -0.1 bits;  conditional E-value: 0.25
                  Vps53_N  32 eeikklddeiksvvraqanvgekgkealeeaqkaieelfqkikeikdkaekseemvkeitrdIk 95 
                              eei+ + ++  +  +++a +++++ e+ e  qk++e++ + i +i +  ++    ++e  ++I 
  PHY93_15675|PHY93_15675 268 EEINSMINSNTENAKQSAFSSTQSLENTERGQKVVERMIKAIGDINTSNNNIMLQINESNNEIE 331
                              3444444455555556666666667777777888888888888888877777777776666654 PP

  == domain 4  score: 20.1 bits;  conditional E-value: 1.9e-07
                  Vps53_N  17 eqslanidelikklqeeikklddeiksvvraqanvgekgkealeeaqkaieelfqkikeikdkaekseemvkeitrdIkqLDiA.K 101
                              ++s+++++ ++k+ +e++  l  e k  v++ + ++ +  + l+e+ +++ +++++++ei   +++    v+eit+ I qLD    
  PHY93_15675|PHY93_15675 401 DNSIQKVETIVKNSKEKVGSLISEGKINVENGTRIAGECGQVLNEIVSSVASVTRSVTEISIASQEQALGVQEITKAIAQLDQVtQ 486
                              7899*******************************9999*******************************************7515 PP

                  Vps53_N 102 knlttsiTtlkrLkmLvtavesleallsk 130
                               n + s    +  ++L +  + l++l+++
  PHY93_15675|PHY93_15675 487 ENTANSAESANAAELLSQQAITLNQLVQR 515
                              67788889999999999999999999886 PP

>> GAGBD  GAG-binding domain on surface antigen
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.5   1.3e-06    0.0018       4      68 ..      83     147 ..      80     189 .. 0.90
   2 ?   -1.2   0.3       1.4   1.9e+03      91     127 ..     256     292 ..     246     319 .. 0.66
   3 ?   -2.5   0.1       3.4   4.7e+03      39      60 ..     549     570 ..     511     574 .. 0.64

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 1.3e-06
                    GAGBD   4 elkklveeeleelekalaelekleeyPkdkskYkiQdslweegkriskeeikrykelkeesskae 68 
                              + +k++ +e++++e++ ++ e    yP +k  Y+  +s w+ +k+i++++i+ y++   e+ +a 
  PHY93_15675|PHY93_15675  83 ASIKDALDEINAYENDNKAYESGSFYPGEKELYEQLNSNWKHFKEIGERAIALYQSGTAENREAM 147
                              567888999*********************************************99877766555 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 1.4
                    GAGBD  91 qvaqYrkkYpdnteiekliksnlkqtkngnYaslegn 127
                              q+a  ++  +  +ei+ +i+sn +++k+  ++s +  
  PHY93_15675|PHY93_15675 256 QAASLQETSSSVEEINSMINSNTENAKQSAFSSTQSL 292
                              5555555666677888888888877777777765544 PP

  == domain 3  score: -2.5 bits;  conditional E-value: 3.4
                    GAGBD  39 Qdslweegkriskeeikrykel 60 
                               + +++e+ ++ k++i++ +++
  PHY93_15675|PHY93_15675 549 KKITFQEKVKLPKKKIEEISTK 570
                              2334555555555555555444 PP

>> Hpt  Hpt domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.4   0.0   5.1e-05      0.07      25      79 ..     217     274 ..     177     278 .. 0.76
   2 ?    0.3   0.4      0.63   8.8e+02      43      77 ..     469     511 ..     463     530 .. 0.57

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 5.1e-05
                              HHHHHHHHHHHHHHHHHHTT..BHHHHHHHHHHHHHHH...HCTSCHHHHHHHHHHHHHH CS
                      Hpt  25 dlqelaraaHtLKGsagmlG..ltelaelahelEdlld...ragelelepellealkall 79 
                                +++ +++H+L+Gsag +   +t++a + +el +      +a +l+ + + +e+++ ++
  PHY93_15675|PHY93_15675 217 ISKSINEIVHSLQGSAGDVSaaATQIASASEELSQ--AnteQAASLQETSSSVEEINSMI 274
                              5678899**********776225666666666666..14588888888888888888876 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.63
                              TTBHHHHHHHHHHHHHHHHCTSCHHHHHHHH........HHHH CS
                      Hpt  43 lGltelaelahelEdlldragelelepelle........alka 77 
                              lG++e++++ ++l ++ +++   ++e ++++         l++
  PHY93_15675|PHY93_15675 469 LGVQEITKAIAQLDQVTQENTANSAESANAAellsqqaiTLNQ 511
                              6677777777777776663322222222222232344443444 PP

>> YbbR  YbbR-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.3   0.00017      0.24      22      74 ..     512     567 ..     501     579 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00017
                              -.-EEEEEEEE-HHHHHHHTTS----...EEE-TT--BEEE-EEESS-TTSEEEES CS
                     YbbR  22 tpepvtVtvtGpesvldkieevkaev...yvDlsglkedvtvevklllpdgnveve 74 
                               ++    t+ G++s l++ ++ +++      Dls+ k+ +t + k++lp++++e +
  PHY93_15675|PHY93_15675 512 LVQRLVLTIDGSSSKLESADKSEVTTrnrKSDLSDNKKKITFQEKVKLPKKKIEEI 567
                              56777789****************8888877*******************999987 PP

>> Phage_int_SAM_4  Phage integrase, N-terminal SAM-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   0.0     0.014        19      30      57 ..     118     143 ..     107     149 .. 0.82
   2 ?    4.2   0.0     0.045        62      17      44 ..     157     183 ..     155     186 .. 0.86
   3 ?   -2.0   0.1       3.7   5.1e+03       7      36 ..     525     554 ..     522     571 .. 0.65

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.014
          Phage_int_SAM_4  30 lrflkkkapeeltkedieaYlnyLaner 57 
                              l+ ++ k+++e++++ i +Y++  a e+
  PHY93_15675|PHY93_15675 118 LNSNW-KHFKEIGERAIALYQSGTA-EN 143
                              56667.9***************988.44 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.045
          Phage_int_SAM_4  17 rTiksYlsaikrflrflkkkapeeltke 44 
                              +  k+Y+  ++ +l+f+k  + +++t+e
  PHY93_15675|PHY93_15675 157 EAAKVYTASLNNMLQFHK-VNLKKFTEE 183
                              5679*************9.888888876 PP

  == domain 3  score: -2.0 bits;  conditional E-value: 3.7
          Phage_int_SAM_4   7 ealrlaglserTiksYlsaikrflrflkkk 36 
                               +l++a++se T ++ +s + +  ++++ +
  PHY93_15675|PHY93_15675 525 SKLESADKSEVTTRNRKSDLSDNKKKITFQ 554
                              578888999999888888777766666433 PP

>> ETRAMP  Malarial early transcribed membrane protein (ETRAMP)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.0    0.0092        13      14      55 ..      23     101 ..       9     105 .. 0.83
   2 ?    9.9   0.8   0.00053      0.73      33      78 ..     174     218 ..     119     223 .. 0.79
   3 ?   -0.7   0.6       1.1   1.5e+03      43      61 ..     271     289 ..     249     348 .. 0.67
   4 ?   -1.1   0.3       1.5   2.1e+03      33      55 ..     542     564 ..     446     570 .. 0.71

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.0092
                   ETRAMP  14 lavnlltpeslcdevnkkk.....................................ekakkaikkiddkiekkkkkkKl 55 
                              l +++l+ + l++++n +k                                     ++a+++ik+  d+i++ ++ +K+
  PHY93_15675|PHY93_15675  23 LTISVLAYQGLHEVQNSNKrisegvvpnlelvnsmalhyrririqvrslglpgiskQDADASIKDALDEINAYENDNKA 101
                              45556666666666666667***********************************9*****************999995 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 0.00053
                   ETRAMP  33 ekakkaikkiddkiekkkkkkKliiistiatalallvasalGlgiy 78 
                              ++++k++++   ki +k ++  +i+is+i++++ + ++ +++  i 
  PHY93_15675|PHY93_15675 174 KVNLKKFTEESSKISQK-TNLLIILISSIGIIASITIGFIFATSIS 218
                              78889999999999999.899999*************999887665 PP

  == domain 3  score: -0.7 bits;  conditional E-value: 1.1
                   ETRAMP  43 ddkiekkkkkkKliiisti 61 
                              +  i+ ++ + K    s++
  PHY93_15675|PHY93_15675 271 NSMINSNTENAKQSAFSST 289
                              4444444444443333332 PP

  == domain 4  score: -1.1 bits;  conditional E-value: 1.5
                   ETRAMP  33 ekakkaikkiddkiekkkkkkKl 55 
                               + +++ kki+ + + k  kkK+
  PHY93_15675|PHY93_15675 542 SDLSDNKKKITFQEKVKLPKKKI 564
                              44455555555555556566665 PP

>> Tweety  Tweety
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   3.7   0.00014      0.19      59     167 ..     189     298 ..     171     337 .. 0.82
   2 ?    2.4   2.0     0.036        50     102     183 ..     401     483 ..     382     534 .. 0.70

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00014
                   Tweety  59 sccvtwsvviatlvccaaigvGfYGNsetndGvlqltyslrkanhtlagikklvseteesleekleeeLtkleeifakrtdlletl 144
                                +  + + i+ + + a+i++Gf     ++  +++++ sl+     +++  +++ + +e+l+++ +e+ ++l+e  ++ +++ +++
  PHY93_15675|PHY93_15675 189 QKTNLLIILISSIGIIASITIGFIFATSISKSINEIVHSLQGSAGDVSAAATQIASASEELSQANTEQAASLQETSSSVEEINSMI 274
                              3344455667788899**************************************************************99999999 PP

                   Tweety 145 rlvqeqve.evvqqlselpflkkk 167
                              +  +e+++ ++ +++++l+++++ 
  PHY93_15675|PHY93_15675 275 NSNTENAKqSAFSSTQSLENTERG 298
                              887777751466777777766544 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.036
                   Tweety 102 nhtlagikklvseteesleekleeeLtkleeifakrtdlletlrlvqeqveevvqqlselp.flkkkdvsltelaeqvelvel 183
                              ++ ++ +++ v++++e++ + ++e   ++e+      +  ++l+ + + v +v+++++e++   +++ + ++e+++  +++++
  PHY93_15675|PHY93_15675 401 DNSIQKVETIVKNSKEKVGSLISEGKINVENGTRIAGECGQVLNEIVSSVASVTRSVTEISiASQEQALGVQEITKAIAQLDQ 483
                              55666667777777777777777777777777777777777777777777777777777774444556666666666655554 PP

>> IFT46_B_C  Intraflagellar transport complex B protein 46 C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   3.1   0.00071      0.98      94     151 ..     278     335 ..     253     348 .. 0.81
   2 ?    1.5   0.3      0.15   2.1e+02     122     183 ..     457     517 ..     403     546 .. 0.61

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.00071
                              XXXXXX.XXXXXXXXXXXXXXHHHHHHHHHHHHHHHHHH-TT----SS----TTGGGS CS
                IFT46_B_C  94 kksaakekskvvksienaeknpkkidkWiedieelhkkkppptveyskkmpdieelmq 151
                              +++a++++ + ++s+en+e+ +k +++ i+ i ++++++++  ++ ++++ +ie++++
  PHY93_15675|PHY93_15675 278 TENAKQSAFSSTQSLENTERGQKVVERMIKAIGDINTSNNNIMLQINESNNEIEDIVK 335
                              23334445677889********************************999999998875 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.15
                              HHHHHHHHHHH-TT----SS----TTGGGS---HHHHHHHTT----TT-TT--HHHHHHHHH CS
                IFT46_B_C 122 iedieelhkkkppptveyskkmpdieelmqewpeefeealkkvklpsaeldlsLeeyvkiic 183
                              +++i+   +++     e +k   +++++ qe  ++  e ++  +l s ++ ++L+++v+ ++
  PHY93_15675|PHY93_15675 457 VTEISIASQEQALGVQEITKAIAQLDQVTQENTANSAESANAAELLS-QQAITLNQLVQRLV 517
                              22222222222222223344444444444444444444444444443.45556666665554 PP

>> CHASE3  CHASE3 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.0      0.41   5.6e+02      50     104 ..      84     147 ..      79     150 .. 0.65
   2 ?    8.0   3.7    0.0018       2.5      49     134 ..     240     322 ..     234     326 .. 0.85
   3 ?    3.9   2.8     0.035        48      47      92 ..     470     516 ..     465     542 .. 0.74

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.41
                   CHASE3  50 eiqealeelreltadnp.........eqqerldrlealieqklaeleetialrreggleaalal 104
                              +i++al+e+ +   dn+          ++e +++l+++ +   ++ e+ ial ++g+ e+ +a+
  PHY93_15675|PHY93_15675  84 SIKDALDEINAYENDNKayesgsfypGEKELYEQLNSNWKHFKEIGERAIALYQSGTAENREAM 147
                              5555555555555544422222222267777999999999999999999999999777766555 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.0018
                   CHASE3  49 aeiqealeelreltadnpeqqerldrlealieqklaeleetialrreggleaalalvrsdegkelmdeiraliaemrdeerrllaq 134
                              ++i  a eel+   + n eq++ l++ ++ +e+  + ++   + +++  + + + l  +++g+++++++ ++i ++++ ++  + q
  PHY93_15675|PHY93_15675 240 TQIASASEELS---QANTEQAASLQETSSSVEEINSMINSNTENAKQSAFSSTQSLENTERGQKVVERMIKAIGDINTSNNNIMLQ 322
                              44445555555...99*******************************9**************************999888776665 PP

  == domain 3  score: 3.9 bits;  conditional E-value: 0.035
                   CHASE3  47 araeiqealeelreltadnpeqqerldrlealieqkl.aeleetial 92 
                              +++ei +a+++l+++t++n +  +  + + +l  q   ++ + + +l
  PHY93_15675|PHY93_15675 470 GVQEITKAIAQLDQVTQENTANSAESANAAELLSQQAiTLNQLVQRL 516
                              7899****************999998888888888873444444444 PP

>> ISG65-75  Invariant surface glycoprotein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   5.5   0.00047      0.65      45     149 ..     215     317 ..     213     330 .. 0.88
   2 ?    1.4   0.5      0.11   1.6e+02      65     131 ..     403     465 ..     395     499 .. 0.80

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.00047
                 ISG65-75  45 dkvreetadyllketkdklayienakekvdyyvekleslleeakekgtltesdaeklkkaceeAkaknkkarekakkalekaekas 130
                              +++ +++ ++++ + +  ++ +  a  ++   +e+l +  +e+ +  + t+s +e++++ ++   + +k++   +++ le+ e+  
  PHY93_15675|PHY93_15675 215 TSI-SKSINEIVHSLQGSAGDVSAAATQIASASEELSQANTEQAASLQETSSSVEEINSMINSNTENAKQSAFSSTQSLENTERGQ 299
                              667.778899********************************99999***************999999999999999999999876 PP

                 ISG65-75 131 kkakeaakkAlGeeleeen 149
                               k++e   kA+G+ ++ +n
  PHY93_15675|PHY93_15675 300 -KVVERMIKAIGDINTSNN 317
                              .56677778****888654 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.11
                 ISG65-75  65 yienakekvdyyvekleslleeakekgtltesdaeklkkaceeAkaknkkarekakkalekaekask 131
                              +i++    v++ +ek++sl+ e    g+++ ++ +++  +c ++++++ ++ + ++  ++++  as+
  PHY93_15675|PHY93_15675 403 SIQKVETIVKNSKEKVGSLISE----GKINVENGTRIAGECGQVLNEIVSSVASVTRSVTEISIASQ 465
                              5666666788888999999888....77777888899999999999999998888888888776655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (586 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2479  (0.138268); expected 358.6 (0.02)
Passed bias filter:                      610  (0.0340231); expected 358.6 (0.02)
Passed Vit filter:                        70  (0.00390429); expected 17.9 (0.001)
Passed Fwd filter:                        27  (0.00150594); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.94u 0.31s 00:00:01.25 Elapsed: 00:00:00.49
# Mc/sec: 3571.19
//
Query:       PHY93_15680|PHY93_15680  [L=173]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.8e-27   95.4   0.0    3.5e-27   95.1   0.0    1.1  1  AHSA1     Activator of Hsp90 ATPase homolog 1-like protein


Domain annotation for each model (and alignments):
>> AHSA1  Activator of Hsp90 ATPase homolog 1-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   95.1   0.0   1.9e-31   3.5e-27       1     125 []      30     173 .]      30     173 .] 0.96

  Alignments for each domain:
  == domain 1  score: 95.1 bits;  conditional E-value: 1.9e-31
                              SS-HHHHHHHHH-HHHHHHH.....EEEEEEEE--STTEEEEE.EETTTSEEEEEEEEEEEEETTTEEEEEEEEETSET....... CS
                    AHSA1   1 dapperVfraltdpellkrW.....ftlteaemdlrpGgkfrl.rdspdgkefgnegeylevvpperlvytwrledepe....... 73 
                              +a+++rVf+a++d+el+k+W      t+++a++d+r+Ggk  l +++p gk    +g+y+e++ ++++v t ++ de+        
  PHY93_15680|PHY93_15680  30 KATVDRVFKAFSDEELVKQWwgpegHTCPSAKIDFREGGKSVLaMKDPSGKVIFSSGIYKEIETNKKIVTTDHFSDENGnlipakd 115
                              5899***************99**************************************************988866668****** PP

                              .......EEEEEEEEEEEE.ETTEEEEEEEEEEEEHCHHHHHHHHHHHHHHHHHHHHHHH CS
                    AHSA1  74 .......eeestvtielee.egggTrltlthtglprkqkeeegveeGweqsldqLkalle 125
                                     + +  +tie+   ++g+T++++ h+g+p++ +++  + +Gw++s+++L++l+e
  PHY93_15680|PHY93_15680 116 vgmdgdwPDDLLITIEFSNtHSGETKMVIGHEGIPKEMHDD--CVKGWNSSINKLQKLVE 173
                              *******99**********99999*****************..*************9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (173 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       373  (0.0208043); expected 358.6 (0.02)
Passed bias filter:                      317  (0.0176809); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 1177.63
//
Query:       PHY93_15685|PHY93_15685  [L=604]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.2e-27   95.6   3.3    3.5e-20   72.5   1.8    2.6  2  RicinB_lectin_2  Ricin-type beta-trefoil lectin domain-like
    9.3e-17   61.5   4.0      2e-16   60.4   4.0    1.6  1  Ricin_B_lectin   Ricin-type beta-trefoil lectin domain
    0.00011   21.8   3.3      0.047   13.3   0.2    2.9  3  CDtoxinA         Cytolethal distending toxin A/C domain
  ------ inclusion threshold ------
       0.22   11.5   1.4       0.43   10.6   1.4    1.4  1  DUF1951          Domain of unknown function (DUF1951)


Domain annotation for each model (and alignments):
>> RicinB_lectin_2  Ricin-type beta-trefoil lectin domain-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.5   1.8   7.9e-24   3.5e-20      11      89 .]     462     542 ..     455     542 .. 0.93
   2 !   30.3   0.2   1.2e-10   5.2e-07      35      89 .]     535     590 ..     528     590 .. 0.92

  Alignments for each domain:
  == domain 1  score: 72.5 bits;  conditional E-value: 7.9e-24
                              TTTEEEEECTSSSEEEECGCCTBCTTEEEEEE-TT.T-GGCEEEEECCESSEEEEEETTTTEEEEECGCS-.STTEEEEEE CS
          RicinB_lectin_2  11 gdgyytiknvasgkvLdvaggstanganvqqwtcs.gaanqqWrledtgdgtyrivnkasgkvLdvaggst.anGtnvqqw 89 
                              ++  y++kn++s+k+Ld++ggs +ng+++qq++c  g++nq+W+l++ +dg +++v++ s+k+Ld + ++  ++G  vqqw
  PHY93_15685|PHY93_15685 462 SGKLYSLKNAGSQKCLDITGGSSTNGTRIQQYDCIhGDPNQTWKLVSRSDGVWSFVSQISQKCLDFSAQQIfSDGNVVQQW 542
                              4568******************************99*******************************6666********** PP

  == domain 2  score: 30.3 bits;  conditional E-value: 1.2e-10
                              TTEEEEEE-TTT-GGCEEEEECCESSEEEEEETTTTEEEEECGCS-.STTEEEEEE CS
          RicinB_lectin_2  35 nganvqqwtcsgaanqqWrledtgdgtyrivnkasgkvLdvaggst.anGtnvqqw 89 
                              +g  vqqw+csga nq + l + g + y+i++   + +Ldv+ +s  +nG+ +++w
  PHY93_15685|PHY93_15685 535 DGNVVQQWNCSGAINQSFSLIERGANLYQIKAITPNECLDVPAQSIdSNGALLHTW 590
                              6889********************9*****************77779****99999 PP

>> Ricin_B_lectin  Ricin-type beta-trefoil lectin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.4   4.0   4.4e-20     2e-16       3     126 ..     466     599 ..     464     600 .. 0.86

  Alignments for each domain:
  == domain 1  score: 60.4 bits;  conditional E-value: 4.4e-20
                              EEEEETTTGEEEEETTCTTS.TEBEEEEE-TSCCGGGEEEEE..TTSEEEETT..TTEEEEES...SSSTTSBEEEEETTTTSGGG CS
           Ricin_B_lectin   3 geirnvasgkCLdvegeska.gapvglydChgskgkQlwtlt..kdgeirska.qselCldvs...staegakvvlakChkgkgnq 81 
                              + ++n+ s+kCLd++g+s++ g+++++ydC +++ +Q w+l   +dg    ++  s++Cld s     ++g+ v++++C+ g  nq
  PHY93_15685|PHY93_15685 466 YSLKNAGSQKCLDITGGSSTnGTRIQQYDCIHGDPNQTWKLVsrSDGVWSFVSqISQKCLDFSaqqIFSDGNVVQQWNCS-GAINQ 550
                              5799**************************555566****886677877777667*******98766799*********9.999** PP

                              CEEEETTTTEEEETT...TSEEEEESTTSSTTT..BEEEEEE.TSSGGGB CS
           Ricin_B_lectin  82 rWefdkdgtqirhkk...sgkCLdvkgasksne..klilkkcdsgsdsQk 126
                               +++ + g ++++ k    + CLdv  +s +++   l++++c   +++Q 
  PHY93_15685|PHY93_15685 551 SFSLIERGANLYQIKaitPNECLDVPAQSIDSNgaLLHTWAC-GPQTNQD 599
                              *****9**9999988887899*****9998777788999999.7777775 PP

>> CDtoxinA  Cytolethal distending toxin A/C domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.1       1.1   4.9e+03     119     143 ..     331     355 ..     319     357 .. 0.76
   2 !   12.1   0.1   2.3e-05       0.1      53     109 ..     465     526 ..     454     533 .. 0.87
   3 !   13.3   0.2   1.1e-05     0.047      53     131 ..     513     596 ..     509     603 .. 0.80

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 1.1
                              -B-EEEE-----EETTEE--EEEE- CS
                 CDtoxinA 119 aktltlekCdlakevnleqlwlitp 143
                               + + + +C++  +++ +  wl+++
  PHY93_15685|PHY93_15685 331 SNLIWMWNCPGCSFSESSSAWLLNE 355
                              5567788999999999999999986 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 2.3e-05
                              -EEEEETTT--EEEE....ETTEEEEE-..--TT-GGG-EEEEEBTTS-EEEEETTT--EEE CS
                 CDtoxinA  53 lvqfknvdegtClaa....yenGvialkk.CdeddketvFsliptttgavqikslssgeCit 109
                              l  +kn+  ++Cl +      nG+  ++  C + d ++ ++l+  + g   + s  s++C+ 
  PHY93_15685|PHY93_15685 465 LYSLKNAGSQKCLDItggsSTNGTRIQQYdCIHGDPNQTWKLVSRSDGVWSFVSQISQKCLD 526
                              5679**********9777778999888878************************99****96 PP

  == domain 3  score: 13.3 bits;  conditional E-value: 1.1e-05
                              -EEEEETTT--EEEE.....ETTEEEEE-..--TT-GGG-EEEEEBTTS-EEEEETTT--EEEE-SS-SS.S-B-EEEE-----E CS
                 CDtoxinA  53 lvqfknvdegtClaa.....yenGvialkk.CdeddketvFsliptttgavqikslssgeCitanflsrlpiaktltlekCdlak 131
                              +  f+ +  ++Cl +     + +G + ++  C+    ++ Fsli      +qik +  +eC+  +  s       l +  C+ ++
  PHY93_15685|PHY93_15685 513 VWSFVSQISQKCLDFsaqqiFSDGNVVQQWnCSGAI-NQSFSLIERGANLYQIKAITPNECLDVPAQSIDSNGALLHTWACGPQT 596
                              567888889999988777779999887776699876.8************************99988865666777777775555 PP

>> DUF1951  Domain of unknown function (DUF1951)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   1.4   9.5e-05      0.43      71     105 ..       7      41 ..       2      57 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 9.5e-05
                  DUF1951  71 ieeikdvlslfkknkevlikfclsyllykfsflfd 105
                              i  +k++  +f+ +ke++ ++c+s++ ++   +  
  PHY93_15685|PHY93_15685   7 IHLLKNISYKFNLHKEIIAILCISFFAFQNCVMNT 41 
                              666899999*******************9766554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (604 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       356  (0.0198561); expected 358.6 (0.02)
Passed bias filter:                      314  (0.0175135); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.66u 0.26s 00:00:00.92 Elapsed: 00:00:00.45
# Mc/sec: 4011.71
//
Query:       PHY93_15690|PHY93_15690  [L=290]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.8e-29  102.1   0.0    1.2e-28  100.5   0.0    1.7  1  Abhydrolase_1  alpha/beta hydrolase fold
    2.3e-20   74.2   0.0    2.8e-20   73.9   0.0    1.1  1  Abhydrolase_6  Alpha/beta hydrolase family
    3.4e-16   59.2   0.0    1.9e-15   56.8   0.0    1.9  1  Hydrolase_4    Serine aminopeptidase, S33
  ------ inclusion threshold ------
      0.016   14.5   0.1      0.039   13.3   0.0    1.6  2  DUF915         Alpha/beta hydrolase of unknown function (DUF9
      0.026   14.6   0.0      0.057   13.5   0.0    1.6  1  Abhydrolase_4  TAP-like protein
      0.034   13.8   0.0      0.057   13.1   0.0    1.4  1  FSH1           Serine hydrolase (FSH1)
       0.04   13.8   0.0       0.25   11.2   0.0    2.0  2  Ser_hydrolase  Serine hydrolase
       0.11   12.0   0.0       0.26   10.8   0.0    1.6  2  DUF900         Alpha/beta hydrolase of unknown function (DUF9
       0.31   10.7   1.4          1    9.0   0.2    2.1  2  PGAP1          PGAP1-like protein


Domain annotation for each model (and alignments):
>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  100.5   0.0   5.9e-32   1.2e-28       2     256 ..      26     262 ..      25     263 .. 0.87

  Alignments for each domain:
  == domain 1  score: 100.5 bits;  conditional E-value: 5.9e-32
                              EEEEE-STTTCGGGGTTGHHHHHHHHTTSEEEEEEETTSTTSSSTTTGB.CHHSHHHHHHHHHHHHHHCTTSSEEEEEETHHHHHH CS
            Abhydrolase_1   2 vlvilhGlpgssdvwaerglapaLakdgfdvillDlrGvgySspapacinddygtasvaddldrildalgddkltlvGhSmGGmia 87 
                              ++v++hG+p s+ vw +      L k+g++v+ +D rG+g+Ss ++      y+ +++addl+++l  lg++ +tlvGhSmG+   
  PHY93_15690|PHY93_15690  26 PVVLIHGFPFSGAVWEK--QEAVLLKAGHRVVSYDRRGFGQSSQPSI----GYNYDTFADDLQQLLMELGLEDVTLVGHSMGTGEI 105
                              89***************..77789999******************94....699999***************************** PP

                              HHHHHHH.GGGEEEEEEESECSSCCHHHHHHHHHHHHHHCHHCHHHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHCHHHCCHH CS
            Abhydrolase_1  88 layaaey.perVkalvllgaidpaaslieaqrqqaksfpdffdgyaadcarnpagplladelaaleqrhrlvdalkfpdkskrfps 172
                              + y+  +  +r+++ v++++   ++ l ++++++   + + f+g+  +    +   ++++  +++++  +l ++      sk    
  PHY93_15690|PHY93_15690 106 ARYLGTFgSKRISRAVFISP--IPPFLLKTEDNITGVDGTVFEGIKSAIVDDRPLFIAEFIKNFYHTDKNLGKSV-----SKEKTI 184
                              ********************..88889999999999999*****9999999999999999999999998886443.....333333 PP

                              HHHHHCHH.HHHHHHHHHHHHHHCCHHHHHHHHHCTHHHHSEEEEEEETTCSSSCH.HHHHHHHHCHTSEEEEEEETCSSSHHHHS CS
            Abhydrolase_1 173 sgsdnass.latgalksieqwpttdsaklllrlrelknvlaptlvisgtsDplvpp.kaledlaqllpkkrlvvisdagHlafleg 256
                               +++  +s +a   l ++++w t++++  + ++++      p lvi+g+ D++ p+ + +  la++l+  rlv+i+d+ H + +++
  PHY93_15690|PHY93_15690 185 LDFNLGTSaSAIATLACVSTWLTDFRRD-IPKIDI------PCLVIHGDADRILPIeSTGPLLAKALKA-RLVTIPDGPHGIPWTH 262
                              4444444404445556777777777766.99*9*9......****************************.**********988876 PP

>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.9   0.0   1.4e-23   2.8e-20       1     217 [.      27     266 ..      27     269 .. 0.60

  Alignments for each domain:
  == domain 1  score: 73.9 bits;  conditional E-value: 1.4e-23
                              EEEE--GC.....GC.HHHHHHHHCCTCEEEEE--TTSTS-GGCS--HHHCHHHHHHHCCTT....TTSEEEEEETCHHH.HHHHH CS
            Abhydrolase_6   1 vlllHGagssassWl.vapLaallaagvhvlapDlpGhGrsdpppldledladlaalldelaa..gggpvvlvGHSlGGa.lalaa 82 
                              v+l+HG+++s+ +W  +  +  ll ag++v+++D++G+G s+ p  +++  +++a+ l+ l +  g  +v lvGHS+G+  +a   
  PHY93_15690|PHY93_15690  27 VVLIHGFPFSGAVWEkQEAV--LLKAGHRVVSYDRRGFGQSSQPSIGYNY-DTFADDLQQLLMelGLEDVTLVGHSMGTGeIARY- 108
                              8*************444444..34555566*********77777766655.888777777777789************6524444. PP

                              HHCC........EE.EEES-..----TTT.........S----TTHHHHHHTT-C........CCCHCCH......S-HSCCCCHH CS
            Abhydrolase_6  83 apla......lvvg.vlldppptalpagl.........laaalelllallallrl........lawlsre......plprlflade 138
                                 +      ++++ v+++p   ++p++l            ++e ++ ++   r+          +++ +      +  +++l+  
  PHY93_15690|PHY93_15690 109 ---LgtfgskRISRaVFISP---IPPFLLktednitgvDGTVFEGIKSAIVDDRPlfiaefikNFYHTDKnlgksvSKEKTILD-- 186
                              ...335557755558*****...4444444334443343333333332222222212111222333322233332222224444.. PP

                              HCCCCHCHCCCGHHHHCC..HHCHTTCCHHTT-TTGCEEE.CTT-CHHH.....HCHHCCCHSTTEEETCE...SSS.-HHHHSHH CS
            Abhydrolase_6 139 dadaawrarlarlaalla..glgllpaaawadlpvpllvl.ggeDplvp.....rllerllaqagarlpvvlpgaGH.lphleepd 215
                                    ++  ++ a l++   + +  +++++ +  p+lv+ g++D+++p     +ll++   + +arl v++p++ H  p+  +++
  PHY93_15690|PHY93_15690 187 ---FNLGTSASAIATLACvsTWLTDFRRDIPKIDIPCLVIhGDADRILPiestgPLLAK---ALKARL-VTIPDGPHgIPWT-HAE 264
                              ...777777777776666334444457788888888888868****8885444455444...4569**.********76666.666 PP

                              HH CS
            Abhydrolase_6 216 ev 217
                               v
  PHY93_15690|PHY93_15690 265 IV 266
                              55 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.8   0.0   9.6e-19   1.9e-15       7     233 ..      27     257 ..      24     259 .. 0.77

  Alignments for each domain:
  == domain 1  score: 56.8 bits;  conditional E-value: 9.6e-19
              Hydrolase_4   7 vvlvHGlaehsgryaelaeaLaaqGfavyalDhrGhGrsegkrghvpsfddyvdDlaafvekvkeehpelplfllGhSmGGliall 92 
                              vvl+HG+  +    ++  + L ++G  v+ +D rG+G+s  +     ++d++ dDl++++ ++      + ++l+GhSmG    ++
  PHY93_15690|PHY93_15690  27 VVLIHGFPFSGAVWEKQEAVLLKAGHRVVSYDRRGFGQSS-QPSIGYNYDTFADDLQQLLMELG----LEDVTLVGHSMGTGEIAR 107
                              89*************************************5.4444689***********97777....5579********998888 PP

              Hydrolase_4  93 yl.lrypdkvaglilsaPalkikakl..kappllkl.llkllgkllpklqv...........snnlkadslsrdpevvaayeadpl 163
                              yl +  +++++++++++P      k+  +++ +    +  + + ++ + ++           +++ + +s+s+++  ++      l
  PHY93_15690|PHY93_15690 108 YLgTFGSKRISRAVFISPIPPFLLKTedNITGVDGTvFEGIKSAIVDDRPLfiaefiknfyhTDKNLGKSVSKEKTILD----FNL 189
                              886777779********98443333332233332222444444444444447777775555577777777777776666....455 PP

              Hydrolase_4 164 vhgkitvrlllelldamkrleeraakitlPllllhGeaDkvvdpeasrelyerlgskdktlklypglyHe 233
                               + +  + +l+ + + + + +++ +ki++P+l++hG+aD++ + e +  l++++   + +l ++p + H 
  PHY93_15690|PHY93_15690 190 GTSASAIATLACVSTWLTDFRRDIPKIDIPCLVIHGDADRILPIESTGPLLAKAL--KARLVTIPDGPHG 257
                              588888899999999999999************************9977777776..4788888888886 PP

>> DUF915  Alpha/beta hydrolase of unknown function (DUF915)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0       2.1   4.2e+03      10      20 ..      23      33 ..      18      35 .. 0.83
   2 ?   13.3   0.0     2e-05     0.039      93     128 ..      81     116 ..      66     123 .. 0.85

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 2.1
                   DUF915 10 keiPtifihGy 20
                             +  P+++ihG+
  PHY93_15690|PHY93_15690 23 NGSPVVLIHGF 33
                             678*******8 PP

  == domain 2  score: 13.3 bits;  conditional E-value: 2e-05
                   DUF915  93 lseLkkkYnikkfnavGhSmGglaltsYleeyaddk 128
                              l++L  + +++ + +vGhSmG  ++++Yl + ++++
  PHY93_15690|PHY93_15690  81 LQQLLMELGLEDVTLVGHSMGTGEIARYLGTFGSKR 116
                              556666778999*****************9888775 PP

>> Abhydrolase_4  TAP-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   2.8e-05     0.057      27      96 ..     214     279 ..     190     286 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 2.8e-05
            Abhydrolase_4  27 destakgaapvLllqnerDpaTPyegakklakalggavlvtvegeGHgalaagntCvdkavdaYLltGel 96 
                              +++    ++p L++ +  D + P e++  l  +  +a+lvt  ++ Hg   ++ + v+k + +++++  +
  PHY93_15690|PHY93_15690 214 PKI----DIPCLVIHGDADRILPIESTGPLLAKALKARLVTIPDGPHGIPWTHAEIVNKEILEFMREQAV 279
                              332....57****************99887777667************9889**********99998665 PP

>> FSH1  Serine hydrolase (FSH1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   2.9e-05     0.057     156     206 ..     212     262 ..     166     268 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 2.9e-05
                     FSH1 156 eedkiqtptLhvlGelDtvvdeerseaLaeafknsskvlkHpggHfvPnkk 206
                              + +ki +p L ++G++D + + e +  L  +  + + v   +g H +P ++
  PHY93_15690|PHY93_15690 212 DIPKIDIPCLVIHGDADRILPIESTGPLLAKALKARLVTIPDGPHGIPWTH 262
                              45899****************99988888877776888888999****766 PP

>> Ser_hydrolase  Serine hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   0.00012      0.25      43      92 ..      78     128 ..      39     146 .. 0.84
   2 ?    0.1   0.0      0.31   6.2e+02     112     152 ..     215     256 ..     197     257 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00012
                              HHHHHHHHHC-S.TTEEEEEETCHHHHHHHHHHHTTSSSEEEEEEET--SG CS
            Ser_hydrolase  43 vaaleaaveaae.ekvvlvAHSlgclavlhaaelqlakkvagalLVapadv 92 
                              ++ l++ + ++  e+v+lv HS+g   +++++     k++ +a++++p  +
  PHY93_15690|PHY93_15690  78 ADDLQQLLMELGlEDVTLVGHSMGTGEIARYLGTFGSKRISRAVFISPIPP 128
                              5566666555542679****************999************9765 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.31
                              HHCCHCEEEEETTBTTC-HHHHH.HHHHHCT-EEEEETT-TT CS
            Ser_hydrolase 112 klpfpslvvaSenDpyvsfeeae.elaeawgaelvdlgeaGH 152
                              k  +p lv+  + D ++++e     la+a+ a+lv ++   H
  PHY93_15690|PHY93_15690 215 KIDIPCLVIHGDADRILPIESTGpLLAKALKARLVTIPDGPH 256
                              457888999999999999998751579999999998877665 PP

>> DUF900  Alpha/beta hydrolase of unknown function (DUF900)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       1.6   3.1e+03      18      36 ..      23      39 ..      10      47 .. 0.72
   2 ?   10.8   0.0   0.00013      0.26      72     112 ..      69     109 ..      54     126 .. 0.83

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 1.6
                   DUF900 18 akeilvfvhGynnsFedav 36
                             + + +v +hG+  +F++av
  PHY93_15690|PHY93_15690 23 NGSPVVLIHGF--PFSGAV 39
                             55668999*99..566666 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 0.00013
                   DUF900  72 saeasrdalekllrylatkksakkihllaHSmGtwlvleal 112
                              s+ +  d +++ l++l  + + ++++l+ HSmGt  ++  l
  PHY93_15690|PHY93_15690  69 SIGYNYDTFADDLQQLLMELGLEDVTLVGHSMGTGEIARYL 109
                              66777889999999999999*************97776666 PP

>> PGAP1  PGAP1-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.1      0.33   6.6e+02       3      15 ..      23      35 ..      21      88 .. 0.77
   2 ?    9.0   0.2   0.00052         1      91     111 ..      91     112 ..      85     124 .. 0.81

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.33
                    PGAP1  3 sGipVlFvpGnag 15
                             +G pV++++G   
  PHY93_15690|PHY93_15690 23 NGSPVVLIHGFPF 35
                             799******9655 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.00052
                    PGAP1  91 tsviliGHSmG.Givaraaltl 111
                              ++v l+GHSmG G +ar + t 
  PHY93_15690|PHY93_15690  91 EDVTLVGHSMGtGEIARYLGTF 112
                              789********99999987665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (290 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       363  (0.0202465); expected 358.6 (0.02)
Passed bias filter:                      352  (0.019633); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.58u 0.25s 00:00:00.83 Elapsed: 00:00:00.44
# Mc/sec: 1978.27
//
Query:       PHY93_15695|PHY93_15695  [L=136]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      1e-09   39.1   0.2    1.3e-09   38.8   0.2    1.1  1  Hemerythrin  Hemerythrin HHE cation binding domain


Domain annotation for each model (and alignments):
>> Hemerythrin  Hemerythrin HHE cation binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.8   0.2     7e-14   1.3e-09       2     125 ..      13     125 ..      12     128 .. 0.89

  Alignments for each domain:
  == domain 1  score: 38.8 bits;  conditional E-value: 7e-14
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHCCHHHHHHHHHHHHHHHHHHHHHHCHHHHH.CCC.HHHHHHHHHHHHHHHHHH CS
              Hemerythrin   2 ivealdeeHralrallerlraladaaaevhgalrklaelldelvdeleaHhaaEEellfPlledrpggravldvlereHdeirell 87 
                              +++ +d +H+ l+ l++rl + + ++++    + +  e+ldel ++++ H+  EE+  f  +     ++++ + +++eH  + +++
  PHY93_15695|PHY93_15695  13 GIQEIDSQHQSLFLLINRLYRQMIRVSD----PIEDNEILDELIKYTKVHFSFEENF-FDKIS---FAESDKKLHKMEHLNFCAKI 90 
                              68899**************777777443....77899********************.99999...999999************** PP

                              HHHH.HHCHTCGGSTCHHHHHHHHHHHHHHHHHHHHHHH CS
              Hemerythrin  88 eelr.ellkgleepsaaafaelleeladllreHiakEes 125
                              ee++ + l g e    + ++ ++  l d+l++Hi k + 
  PHY93_15695|PHY93_15695  91 EEFQeKMLSGEE----GLTTSMMIFLKDWLKNHILKTDM 125
                              ****88888877....88888*************99886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (136 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       567  (0.0316247); expected 358.6 (0.02)
Passed bias filter:                      240  (0.0133861); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.24s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 985.96
//
Query:       PHY93_15700|PHY93_15700  [L=445]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.7e-14   53.8   0.0    6.3e-14   52.0   0.0    2.0  2  HD_5          HD domain
      1e-11   45.1   0.2    2.8e-11   43.7   0.0    1.8  2  HD            HD domain
    1.6e-11   44.3   0.3    5.6e-11   42.6   0.0    2.1  2  Response_reg  Response regulator receiver domain
     0.0041   16.6   0.3      0.026   14.0   0.1    2.3  2  HDOD          HDOD domain
  ------ inclusion threshold ------
      0.046   13.8   0.0      0.075   13.2   0.0    1.3  1  HD_6          HD domain


Domain annotation for each model (and alignments):
>> HD_5  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.0   0.0   1.7e-17   6.3e-14       2      62 ..     335     395 ..     334     396 .. 0.95
   2 ?   -2.7   0.0       2.1   7.6e+03      31      45 ..     421     435 ..     414     437 .. 0.78

  Alignments for each domain:
  == domain 1  score: 52.0 bits;  conditional E-value: 1.7e-17
                     HD_5   2 tLtpeerellqehpeaaarlLsklprlpkdvaeiigqhhErldGsGyPrglkgeeIpleaR 62 
                              t+++ee++l++ h+  +a++L +++ +pk+v +ii+qhhE  dGsGyP g+++  I   a+
  PHY93_15700|PHY93_15700 335 TFSEEELRLYENHTILGAEILTRIENIPKEVFQIIMQHHECIDGSGYPFGITNVNIFPLAK 395
                              789**************************************************99988876 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 2.1
                     HD_5  31 dvaeiigqhhErldG 45 
                               ++ i ++  E++d+
  PHY93_15700|PHY93_15700 421 AIKYIEYNEKEKFDS 435
                              688888999999997 PP

>> HD  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0       1.2   4.2e+03      36      61 ..     209     230 ..     209     275 .. 0.52
   2 !   43.7   0.0   7.7e-15   2.8e-11       2     118 ..     282     402 ..     281     429 .. 0.81

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 1.2
                              TTTHHHHTS..HHHHHHCTCCHHHHH CS
                       HD  36 DiGkgpfgdafekkeeefekflaHek 61 
                              Di+k++ + ++ekk+    kf  H+ 
  PHY93_15700|PHY93_15700 209 DIIKDKKNISIEKKT----KFFIHVS 230
                              677777666666652....2222322 PP

  == domain 2  score: 43.7 bits;  conditional E-value: 7.7e-15
                              HHHHHHHHHHHHHHHHHHHH..HHHHHHHHHHHHHTTTTHHHHTS..HHH......HHHCTCCHHHHHHHHHHHHHHHHHHHHHHH CS
                       HD   2 leHsleVaklarrlaedlge..eedrellllaaLlHDiGkgpfgdafekk......eeefekflaHekvgaeilrevekrlgldle 79 
                              + H+l+V  ++  la++l+   ++   +l +++ lHDiGk  f+++   k      eee +  ++H++ gaeil ++e+ +    +
  PHY93_15700|PHY93_15700 282 YAHCLAVSIYSVLLAKKLQWstDKTTGILAIGGFLHDIGKKNFPEELRTKpystfsEEELRLYENHTILGAEILTRIENIP----K 363
                              78******************99999999****************866666999997445555556****************....4 PP

                              HHHHHHHTTCCHHHHHHHHHHHHCCTSCHHHHHHHHHHH CS
                       HD  80 dvaklirehheswegkkrprglaerqlslearivklaDr 118
                              +v ++i +hhe ++g+++p g    ++ ++a++v l  r
  PHY93_15700|PHY93_15700 364 EVFQIIMQHHECIDGSGYPFGITNVNIFPLAKVVGLVNR 402
                              5******************54444444444444444443 PP

>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.6   0.0   1.5e-14   5.6e-11       1     111 [.       8     117 ..       8     118 .. 0.97
   2 ?   -2.5   0.0       1.6   5.8e+03      57      77 ..     350     370 ..     348     375 .. 0.74

  Alignments for each domain:
  == domain 1  score: 42.6 bits;  conditional E-value: 1.5e-14
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseeeda 86 
                              +livd d+ + + l+++l + ++ ++ + ++  +a +l+ ++++dli+  + +p+ +G++l++ ++++ p+ + i++t+  +  + 
  PHY93_15700|PHY93_15700   8 ILIVDPDHNAFDFLNTQLIRFQL-TILSSRNLVDAKKLIISDRPDLIIAEMYLPDGSGVDLFSWMEKNFPKAKSILVTSDVNVITN 92 
                              89***999999999999999***.************************************************************** PP

                              HHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  87 vealkagaddflsKpfdpeeLlkal 111
                              +  ++ + ++ l+Kpf  +eL   +
  PHY93_15700|PHY93_15700  93 NTTYDHDLYELLVKPFPTTELDRVI 117
                              ******************9997665 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 1.6
                              EHHHHHHHHHHCTTTSEEEEE CS
             Response_reg  57 dGlellkeireedpelpviil 77 
                               G e+l++i++ ++e+  ii+
  PHY93_15700|PHY93_15700 350 LGAEILTRIENIPKEVFQIIM 370
                              599999999999976655555 PP

>> HDOD  HDOD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.0      0.31   1.1e+03      63      87 ..     146     170 ..     145     188 .. 0.79
   2 !   14.0   0.1   7.3e-06     0.026      95     195 ..     281     374 ..     254     375 .. 0.73

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.31
                              HHHHHHHHHHHHHHHHHHHHHS--. CS
                     HDOD  63 llGlkevrnlvlalslkrlfkgkee 87 
                              l+G+k++++l l ls+++++k  ++
  PHY93_15700|PHY93_15700 146 LVGTKALMSLYLKLSVTKFVKIVHK 170
                              69**************999886664 PP

  == domain 2  score: 14.0 bits;  conditional E-value: 7.3e-06
                              HHHHHHHHHHHHHHHHHHT..T-S-.HHHHHHHHHTTTHHHHHHHHHSHHHHHHHHHHHHHH---HHHHHHHHHSS-HHHHHHHHH CS
                     HDOD  95 lwehslavAlvarelaeel..gled.peeaflaGLLhdiGklvllsllpeeleellekvaeeelslleaeeellgtdhaevGaall 177
                                +h+lav++++  la++l  + ++ +  + ++G LhdiGk      +peel +  +       s  + ee  l  +h+ +Ga++l
  PHY93_15700|PHY93_15700 281 HYAHCLAVSIYSVLLAKKLqwSTDKtTGILAIGGFLHDIGKK----NFPEELRTKPY-------STFSEEELRLYENHTILGAEIL 355
                              56899*************944333324999**********95....45555544433.......4444566677789999999998 PP

                              HHT.T--HHHHHHHHHTT- CS
                     HDOD 178 ekW.nlPeelveaiayhhe 195
                              ++  n+P+e+ ++i +hhe
  PHY93_15700|PHY93_15700 356 TRIeNIPKEVFQIIMQHHE 374
                              8853799999999999996 PP

>> HD_6  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   2.1e-05     0.075      38     120 ..     295     373 ..     258     380 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 2.1e-05
                              HHHHC.TS-HHHHHHHHHHHHHCCCGGGSSHHHHTTS--.--TTS-.....-GGGT----HHHHHHHHHH...HHHHHHHHHHHTT CS
                     HD_6  38 larllrgleeealrrllaflaalHDlGKaspaFqakvpe.laekleeaglelekelekarHdslgaalle...evarslaaavggH 119
                              la++l +++++++  +la+  +lHD+GK +  F  + +   ++  +e++l+        +H+ lga +l+   +  ++++++++ H
  PHY93_15700|PHY93_15700 295 LAKKL-QWSTDKTTGILAIGGFLHDIGKKN--FPEELRTkPYSTFSEEELR-----LYENHTILGAEILTrieNIPKEVFQIIMQH 372
                              67777.9999******************65..7666533145545544444.....5689********888888889********* PP

                              T CS
                     HD_6 120 H 120
                              H
  PHY93_15700|PHY93_15700 373 H 373
                              * PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (445 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       698  (0.0389313); expected 358.6 (0.02)
Passed bias filter:                      353  (0.0196888); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.59u 0.25s 00:00:00.84 Elapsed: 00:00:00.44
# Mc/sec: 3012.85
//
Query:       PHY93_15705|PHY93_15705  [L=114]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.9e-07   31.2   4.5    2.2e-07   31.0   4.5    1.0  1  Y1_Tnp    Transposase IS200 like
  ------ inclusion threshold ------
      0.077   13.3   0.1       0.12   12.7   0.1    1.3  1  DUF4362   Domain of unknown function (DUF4362)
       0.27   11.8   2.0          7    7.3   2.0    2.7  1  Ank       Ankyrin repeat


Domain annotation for each model (and alignments):
>> Y1_Tnp  Transposase IS200 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.0   4.5   3.7e-11   2.2e-07       6     117 ..       9     114 .]       5     114 .] 0.87

  Alignments for each domain:
  == domain 1  score: 31.0 bits;  conditional E-value: 3.7e-11
                   Y1_Tnp   6 yhivlvtkyRrkvltge.veerlkeiikeiaekkevkilelelmpDHvHllvelppklsiskivkalkgassrlinkefpelkkkk 90 
                               h+++ +++ +  ++++ + + l++ ik  a+ k+ +i+++ ++ +HvHllve+ ++  ++k ++al  + s+ +n      k ++
  PHY93_15705|PHY93_15705   9 LHLTIKVRESKANIKNKrILKALHHAIK-RARLKKLRIIHYTIEYNHVHLLVEASNNEILHKGMQALGISLSKAVN------KISQ 87 
                              6888888888888888879999999995.578899*****************************************......4445 PP

                   Y1_Tnp  91 lkkeslWqrgYfvstvgea.sletvkrY 117
                              lk +  ++++Y+   + +  +l++v +Y
  PHY93_15705|PHY93_15705  88 LK-GGVYKHRYHFRKINSRcELKNVIHY 114
                              55.45899*****999998899999888 PP

>> DUF4362  Domain of unknown function (DUF4362)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   1.9e-05      0.12      10      56 ..      21      67 ..      13      70 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 1.9e-05
                  DUF4362 10 eisNvdklekFienveqkkkdkirivsyTeeGdpiledleydgkklk 56
                             +i+N   l+   + +++ +  k+ri++yT+e + +   +e +++++ 
  PHY93_15705|PHY93_15705 21 NIKNKRILKALHHAIKRARLKKLRIIHYTIEYNHVHLLVEASNNEIL 67
                             555656667777778889999**************999999999986 PP

>> Ank  Ankyrin repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3   2.0    0.0012         7       4      21 ..       7      31 ..       7      69 .. 0.81

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0012
                             BHHHHHH.......HHTTHHHHHHH CS
                      Ank  4 TPLHlAa.......tngkkriiklL 21
                             T+LHl +       ++++kri+k+L
  PHY93_15705|PHY93_15705  7 TALHLTIkvreskaNIKNKRILKAL 31
                             8999987777766678888999887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (114 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       796  (0.0443973); expected 358.6 (0.02)
Passed bias filter:                      394  (0.0219756); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.23s 00:00:00.72 Elapsed: 00:00:00.43
# Mc/sec: 803.48
//
Query:       PHY93_15710|PHY93_15710  [L=317]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (317 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       604  (0.0336884); expected 358.6 (0.02)
Passed bias filter:                      457  (0.0254894); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.59u 0.21s 00:00:00.80 Elapsed: 00:00:00.44
# Mc/sec: 2150.65
//
Query:       PHY93_15715|PHY93_15715  [L=229]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.6e-15   56.3   0.0    6.9e-15   55.7   0.0    1.3  1  YkuD      L,D-transpeptidase catalytic domain


Domain annotation for each model (and alignments):
>> YkuD  L,D-transpeptidase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.7   0.0   3.9e-19   6.9e-15       2     141 ..      56     190 ..      55     206 .. 0.83

  Alignments for each domain:
  == domain 1  score: 55.7 bits;  conditional E-value: 3.9e-19
                              EEEEEETTTT....EEEEEEETTEEEEEEE-BEB...........TTS.TTSE---EEEEECEEEEEEE..EEGGGGT--TTSTT. CS
                     YkuD   2 kyivvdlaeq....rllvlyengklvlsfpvsvG...........gkkegdreTPlGtfrikskvrnptwnvppsiarkeiypklr 72 
                              +++vv++a+     +   +ye+g+l+   +vs+G           +k++ ++ TP+G+++++  +++++++ +   + + +     
  PHY93_15715|PHY93_15715  56 YVVVVNKANSgndaQSIKVYEYGNLIIIGKVSTGrdefeaagehhAKRDSWSVTPTGYYTPSFLDKDHKSGAYAGKWSWLV----- 136
                              6899998887777788899**************************88888*******************998888655443..... PP

                              EEEEEEEECCCTTCECCCCEEE-STTS-EEEE.ETCSS...CT.HHC.BSSSEEE-HHHHHHHHHHHHTT CS
                     YkuD  73 kdpeyldkknskvalgkvkfvfpngsgiyiHgtgapdlfergk.garrShGCirlseedakelyelvlvg 141
                                  +           k++f++ ++++i++H+ +  +       g+++S GC+rl+ + a e++ ++++ 
  PHY93_15715|PHY93_15715 137 ---GG----------VKMPFAIFFNGDIALHQAPRGTES---AlGKKASGGCVRLPGDIASEIFARIQET 190
                              ...33..........4589************55555443...258999*******999999999999854 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (229 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       348  (0.0194099); expected 358.6 (0.02)
Passed bias filter:                      292  (0.0162865); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1529.72
//
Query:       PHY93_15720|PHY93_15720  [L=342]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.07   13.2   0.8        6.6    6.9   0.0    2.6  2  Flu_M2    Influenza Matrix protein (M2)


Domain annotation for each model (and alignments):
>> Flu_M2  Influenza Matrix protein (M2)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.9   0.0   0.00037       6.6      24      59 ..      53      88 ..      34      95 .. 0.82
   2 ?    4.0   0.1    0.0028        51      31      58 ..     237     265 ..     226     272 .. 0.79

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.00037
                             XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                   Flu_M2 24 dplvvaasiigilhlilwildrlffkciyrrlkygl 59
                               +++aa+++  +h++l      + k ++ r+ky +
  PHY93_15720|PHY93_15720 53 YWFAIAATLLTHMHVLLVFTRSHLNKSVFMRYKYRF 88
                             4479***********9999999999*********76 PP

  == domain 2  score: 4.0 bits;  conditional E-value: 0.0028
                              XXXXXXX.XXXXXXXXXXXXXXXXXXXXX CS
                   Flu_M2  31 siigilh.lilwildrlffkciyrrlkyg 58 
                               i  il   i+ i d +ff  iy+ l+y 
  PHY93_15720|PHY93_15720 237 GITTILTaSIFTIADGIFFGNIYHALQYV 265
                              56666651578899************995 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (342 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       593  (0.0330749); expected 358.6 (0.02)
Passed bias filter:                      223  (0.0124379); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.26s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 2241.49
//
Query:       PHY93_17210|PHY93_17210  [L=97]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.96   10.1   5.0        1.5    9.5   4.9    1.4  1  DUF883    Bacterial protein of unknown function (DUF883)


Domain annotation for each model (and alignments):
>> DUF883  Bacterial protein of unknown function (DUF883)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   4.9   8.3e-05       1.5       8      54 ..      47      93 ..      35      97 .] 0.88

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 8.3e-05
                   DUF883  8 eslladleellkeaadeageeaeelRerleerlerarerlrdaeeav 54
                             ++++++  el++++a+  +e+ae l++++ +++++ + ++++a++++
  PHY93_17210|PHY93_17210 47 RKARDESCELTEDKAKCEKEKAEHLKANAADKIDTKKRKMEKATKEY 93
                             677888999******************************99998775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (97 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2020  (0.112667); expected 358.6 (0.02)
Passed bias filter:                      574  (0.0320152); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.26s 00:00:00.74 Elapsed: 00:00:00.43
# Mc/sec: 672.71
//
Query:       PHY93_15725|PHY93_15725  [L=432]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.9e-41  142.5   0.0    2.7e-41  142.0   0.0    1.2  1  Lyase_1   Lyase
  ------ inclusion threshold ------
      0.044   14.3   0.0       0.13   12.8   0.0    1.8  1  ADSL_C    Adenylosuccinate lyase C-terminus


Domain annotation for each model (and alignments):
>> Lyase_1  Lyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  142.0   0.0     3e-45   2.7e-41      34     307 ..      29     282 ..       4     285 .. 0.83

  Alignments for each domain:
  == domain 1  score: 142.0 bits;  conditional E-value: 3e-45
                              HHHHHHHHTTSSTHHHHHHHHHHHHHHHCHCHHCGGHHHBSSSSSHHHHHHHHHHHHHHHHTTHSSGIIIIITTT--HHHHHHHHH CS
                  Lyase_1  34 alkkaaakanvdlkeeaaaiikaldevleegklddqfvlkviqegsgtavnmnlnevigellgekvepndkvhtgqSsnDqvpTal 119
                               l +a++++ ++++ +a+ i    ++ ++ + ++   ++++ ++++  a+   ++e +        ++ ++ h+g +s D+++ al
  PHY93_15725|PHY93_15725  29 ELLRALEEKQMIPNGIADVI----SQTAKIFPSR-IDEIESVTRHDVIAFCTSITEQLP------ADIGKYFHYGVTSSDVIDSAL 103
                              45566666666663333333....3333322222.446666666666666666666666......89******************* PP

                              HHHHHHHHHHTHHHHHHHHHHHHHHHHHHTTT-EEEEEETTEEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHTCEETTTTTTTS CS
                  Lyase_1 120 rlalkkalsekLlpaleqLidalkekakefkdvvkiGrThlqdAtPvtlgqelsayaealerdrerlkellkrllvellgggtavg 205
                               l++k++l e+ ++  + +  alk++a+e k  + +Gr h+  A+P+ +gq+l ++ ++++r r  l+e +k++l+ +l+g+++++
  PHY93_15725|PHY93_15725 104 TLQIKASL-EVAMKSFDLFLLALKARAVETKMLMTLGRSHGMYAEPMSFGQKLLGHYAEFKRRRHDLEEFYKNELTIQLSGAVGNY 188
                              ********.99**********************************************************************77777 PP

                              STTTSCCTHHHHHHHHHHHHHCSTEESSSHHHHHHC-HHHHHHHHHHHHHHHHHHHHHHHHHHHTSTTTSSEEEEGCCTSSC-TTS CS
                  Lyase_1 206 tglnadpefaelvakelakvtglpvkapnsfeavsdrDavvellgalkllatsLskfaeDlrllssgeaglvelslaesepGSSiM 291
                              t l  d e  e va++l+ v     k ++  +++ +rD++++l+++ +l+a  + ++a ++r l  +++ +v + ++ +++GSS+M
  PHY93_15725|PHY93_15725 189 TILTPDIE--ESVARKLG-V-----KVEDVSTQIIPRDRIAKLISITSLIANAIERLAVEIRHLHHSDVKEVAEGFRPGQKGSSTM 266
                              77777777..********.4.....5588888****************************************************** PP

                              TTTEBTHHHHHHHHHH CS
                  Lyase_1 292 PgKvNPvqlElltgva 307
                              P+K+NP+++E+ltg a
  PHY93_15725|PHY93_15725 267 PHKKNPISSENLTGLA 282
                              *************987 PP

>> ADSL_C  Adenylosuccinate lyase C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   1.5e-05      0.13      13      72 ..     365     432 .]     357     432 .] 0.73

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 1.5e-05
                              HHTH-HHHHHHHHHHHHHHHHHC........HHHHHHT-HHHH.C.HHCHHHHHT-GGGCCTTHHHHHHH CS
                   ADSL_C  13 vkglgReeAyelVqeaamkawee........llelLaadpevk.k.seeeldalfdpayylgsadeivdr 72 
                               ++++Ree y ++q+a+ +  ++        +++  ++ +++  k  e   + l d   yl+s+d+i++r
  PHY93_15725|PHY93_15725 365 CQAITREELYTIIQAASFDPEAKsspvkyreFIQESLKKQKIDlKlPEVTPEGLKDI--YLKSVDHIFNR 432
                              4589*****************99*****55544444455666644644445555554..99999999987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (432 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       395  (0.0220313); expected 358.6 (0.02)
Passed bias filter:                      325  (0.0181271); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.44
# Mc/sec: 2967.80
//
Query:       PHY93_15730|PHY93_15730  [L=214]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (214 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       341  (0.0190195); expected 358.6 (0.02)
Passed bias filter:                      240  (0.0133861); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1420.89
//
Query:       PHY93_15735|PHY93_15735  [L=584]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.3e-25   87.9  10.7    1.7e-12   47.5   0.2    2.3  2  OEP       Outer membrane efflux protein


Domain annotation for each model (and alignments):
>> OEP  Outer membrane efflux protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.3   5.6   1.9e-15   3.4e-11      28     174 ..     180     334 ..     151     348 .. 0.82
   2 !   47.5   0.2   9.5e-17   1.7e-12       1     188 []     370     567 ..     370     567 .. 0.91

  Alignments for each domain:
  == domain 1  score: 43.3 bits;  conditional E-value: 1.9e-15
                      OEP  28 nlkaakae.flPtlslsgsygyegngsegggddggtgtt......svgltl.sqplfdggkrrarvkaakaqleaaeaqleqarqq 105
                              +++ ak++ +lP+l ++++  +++ ++  +   ++ + +      s+gl+l ++++f++gk +a +   k+ +   ++ +++++++
  PHY93_15735|PHY93_15735 180 QYQGAKNAfWLPELKINLTTTNQRISTLRSSSRPPADPNpttpsgSLGLSLgNYTVFNWGKDYALYLNKKSLYSRNKQIFDESKRE 265
                              3444444447*******9999999888888877777777899*88999999*********************************** PP

                      OEP 106 lrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislldvlqaqvrllqaraelaeaeq 174
                              l+l++ ++y+ l ++k++ ++++++l++a  +++l +++   G++s+ ++  a++++l+a++++  a+ 
  PHY93_15735|PHY93_15735 266 LKLDLISTYFFLMSSKNIEKIRQDQLRQASFLYRLNKEKITIGKTSKQEYYLARSEYLKAQNDYHDAKI 334
                              ***********************************************5566666666666666655555 PP

  == domain 2  score: 47.5 bits;  conditional E-value: 9.5e-17
                      OEP   1 ldellalalennpdlkaaeaeieaaeanlkaakae.f.lPtlslsgsygyegngsegggddggtgtt......svgltlsqplfdg 78 
                              ld+++++ ++nnp l+  +  ie ae+ +++a +e + lP+++++++  +   g+++++ +  t ++       ++l++++ l  g
  PHY93_15735|PHY93_15735 370 LDDSISISAKNNPTLLTNKTLIENAERSYDVALKEnMpLPKFTVNLGAYNKKFGPTTNTTTYETYSGsgnvelVASLNATWSLT-G 454
                              7999*********************888888888878999999999999999999999999888888******77777777775.3 PP

                      OEP  79 ...gkrrarvkaakaqleaaeaqleqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislldvlqaqvr 161
                                   +++++++ +  +e+a  ++e+    +++ ++q+yl++l++++q+ ++e+ l +++ka++ + + y  G++ + d   +  +
  PHY93_15735|PHY93_15735 455 edgFLNSNKLAIGRIGKEIAFKEFEKNSHFTQSIIRQTYLSILSLQNQIVILEARLPSLQKAFDTILENYLSGKTKYYDFHLVLDE 540
                              355**************************************************************************999999999 PP

                      OEP 162 llqaraelaeaeqqlqlaraqLeyllg 188
                              l  +++  ++ + q  + + +L++l g
  PHY93_15735|PHY93_15735 541 LTTTKILFEQTKLQHLKEKINLAKLAG 567
                              999999999999999999999888866 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (584 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1242  (0.0692732); expected 358.6 (0.02)
Passed bias filter:                      355  (0.0198003); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.68u 0.30s 00:00:00.98 Elapsed: 00:00:00.48
# Mc/sec: 3669.41
//
Query:       PHY93_15740|PHY93_15740  [L=118]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.059   13.1   0.0        0.1   12.3   0.0    1.3  1  CTV_P6    Citrus tristeza virus 6-kDa protein
       0.12   11.7   0.1       0.15   11.4   0.1    1.0  1  DUF3179   Protein of unknown function (DUF3179)


Domain annotation for each model (and alignments):
>> CTV_P6  Citrus tristeza virus 6-kDa protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   1.1e-05       0.1       9      20 ..      10      21 ..       7      29 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 1.1e-05
                   CTV_P6  9 LtfLvGiavfsa 20
                             L fLvGiavfs+
  PHY93_15740|PHY93_15740 10 LSFLVGIAVFSS 21
                             89********96 PP

>> DUF3179  Protein of unknown function (DUF3179)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1   1.6e-05      0.15     145     230 ..      17     103 ..      15     113 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 1.6e-05
                  DUF3179 145 kVlseetgssrdYgrdPygsyepasdrplfpvekrddrlppkerVvgv..evgddavaypkaelkeegvvedtvgdkevvvvldad 228
                              +V+s++t +++dY+r  +++    s+r  + +ekr++++++k+r++ +  + +  ++  p++++  ++ +e+++g  e  ++l++ 
  PHY93_15740|PHY93_15740  17 AVFSSKTTYAEDYKRTVITDPS-ISRRCELLTEKRQEKIANKQRIMAMieRNKHLQKITPENKVTVKKKLEANLGHLEHELILTQT 101
                              599************8777766.666788999999999999999998855455556667899999999999999998888877666 PP

                  DUF3179 229 ae 230
                              + 
  PHY93_15740|PHY93_15740 102 QI 103
                              54 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (118 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1286  (0.0717274); expected 358.6 (0.02)
Passed bias filter:                      515  (0.0287244); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.27s 00:00:00.74 Elapsed: 00:00:00.44
# Mc/sec: 811.43
//
Query:       PHY93_15745|PHY93_15745  [L=259]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.1e-41  141.3   0.0      5e-41  141.0   0.0    1.0  1  CTP_transf_3  Cytidylyltransferase
      4e-05   24.0   0.0    4.6e-05   23.8   0.0    1.2  1  NTP_transf_3  MobA-like NTP transferase domain


Domain annotation for each model (and alignments):
>> CTP_transf_3  Cytidylyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  141.0   0.0   5.6e-45     5e-41       2     221 .]       8     232 ..       7     240 .. 0.92

  Alignments for each domain:
  == domain 1  score: 141.0 bits;  conditional E-value: 5.6e-45
                              EEEEE-SSSSSSTTGGGSEETTEEHHHHHHHHHHHTTT....TSEEEEEES-HHHHHHHHHTTSEEEE--TTCSSHHHHHHHHHHH CS
             CTP_transf_3   2 aIipARsgSkRlpgKnlldlggkpliayvleaalkska....fekvivaTDseeiknvakefgasvlvtrsslesdterflevvka 83 
                              ++ipAR++S+R+pgK+l++++g  +i++vle+   + a    fe+ +v TD+ ++++++k+f   v++ + +  s+t r+  + ++
  PHY93_15745|PHY93_15745   8 ILIPARFASTRFPGKPLAKILGISMIQRVLENCSHASApgfeFES-FVVTDDPKVEEHIKSFSSNVVRVDDDVISGTLRIQLAYER 92 
                              79******************************9887643333666.**************************************** PP

                              HTTT.TTS....EEEEE-TT-TT--HHHHHHHHHHHHHSTTSSEEEEEE.ETTSHHHHTSTTSTEEEETTT.SBEEEEESSESSEE CS
             CTP_transf_3  84 flmsenee....iivnlqGdnPllqeevikkaietlkenqedylstlvk.kvgkeeevlnandlkvlldda.gkalyfeesvipyi 163
                              f  + n+e    +++n+qGd+Pll+++++ k+++ ++++   +++tlvk ++g ee   + n++kv+ +++ g a yf+++ ipy+
  PHY93_15745|PHY93_15745  93 FFKDRNNErnydLVINVQGDEPLLDSSDLVKLAQFHLKSSF-DITTLVKkQMGFEEDFHDYNKVKVAMSEEtGTAFYFSRAAIPYK 177
                              ****99999******************************88.6666665156777888899******999989************* PP

                              HHHHHCTSTTTSEEEEEEEEEEHHHHHHHHHHSHHHHHSHHHHHT-TTHHHHHTT-EE CS
             CTP_transf_3 164 reeplelsrrlylshagiytfrkeqplkelvidtptseilekiekleqlrvllegkki 221
                              r+ ++ l+++   +h+g+y +r +  l ++++ ++t+  le++ekleqlr+l+ g +i
  PHY93_15745|PHY93_15745 178 RDTNADLENDYWFLHIGVYSYRPN-ALTRFSSHPETR--LENLEKLEQLRALEIGLTI 232
                              ********999************8.************..*************999655 PP

>> NTP_transf_3  MobA-like NTP transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.8   0.0   5.1e-09   4.6e-05       9     123 ..      16     140 ..      12     226 .. 0.83

  Alignments for each domain:
  == domain 1  score: 23.8 bits;  conditional E-value: 5.1e-09
                              -TTTTTTHHHHCCCCCCHHHHHHHHHCTT.-C....EEEEECSHCHHHHHHTTCTS-EEE-TTSS-SHHHHHHHHH.........H CS
             NTP_transf_3   9 SsRmggdKallplggkpllervldalraagvd....evvvvggdeevlaalarlgvrvvededpgkgplaslaaal.........r 81 
                              S+R+   K+l+++ g ++++rvl++ ++a+++    e +vv++d++v+++++++   vv+ +d    ++++l+  l         +
  PHY93_15745|PHY93_15745  16 STRFP-GKPLAKILGISMIQRVLENCSHASAPgfefESFVVTDDPKVEEHIKSFSSNVVRVDD--DVISGTLRIQLayerffkdrN 98 
                              55552.5**********************6657889*******************99999985..666777666665566665431 PP

                              HH...SSSCEEEEETT-TT--HHHHHHHHHCHHHHTSSEEEEES CS
             NTP_transf_3  82 aaa..dadavlvlacDmPlltpelverllaaaaasgadvvvpty 123
                                +  + d v+ + +D Pll+++ + +l++ + +s+ d++ ++ 
  PHY93_15745|PHY93_15745  99 --NerNYDLVINVQGDEPLLDSSDLVKLAQFHLKSSFDITTLVK 140
                              ..1357899*******************9998888888877665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (259 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       529  (0.0295053); expected 358.6 (0.02)
Passed bias filter:                      428  (0.0238719); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.46
# Mc/sec: 1703.74
//
Query:       PHY93_15750|PHY93_15750  [L=537]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
   2.1e-117  391.1   0.0   2.8e-117  390.7   0.0    1.1  1  CTP_synth_N    CTP synthase N-terminus
    2.1e-50  171.2   0.1    3.9e-50  170.3   0.1    1.5  1  GATase         Glutamine amidotransferase class-I
    1.4e-07   31.5   0.0    7.6e-07   29.1   0.0    2.2  1  Peptidase_C26  Peptidase C26
     0.0005   20.1   0.0     0.0011   19.1   0.0    1.6  1  CbiA           CobQ/CobB/MinD/ParA nucleotide binding domain


Domain annotation for each model (and alignments):
>> CTP_synth_N  CTP synthase N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  390.7   0.0  6.3e-121  2.8e-117       1     264 [.       9     270 ..       9     271 .. 0.99

  Alignments for each domain:
  == domain 1  score: 390.7 bits;  conditional E-value: 6.3e-121
                              EEEEEEE--STTTTHHHHHHHHHHHHHCTT--EEEEEEE-SSSSSSTT--CCCC--EEE-TT--EEETHHHHHHHHHT----GGGE CS
              CTP_synth_N   1 kyilvtGGvvSglGkGiiaaslgallksrglkvtlikiDPYlnvdagtlsplehGEvfvlddGaetDlDlGnYeRfldikltkenn 86 
                              k+i++tGGv+S+lGkG++aas+++ll++rg+kv+++k+DPY+nvd+gt+sp++hGEvfv+ddGaetDlDlG+YeRf++++l++e+n
  PHY93_15750|PHY93_15750   9 KFIFITGGVASSLGKGLAAASIASLLERRGIKVAMLKMDPYINVDPGTMSPTQHGEVFVTDDGAETDLDLGHYERFTSLTLKRESN 94 
                              8************************************************************************************* PP

                              EEHHHHHHHHHHHHHTTTTTT----CCCHHHHHHHHHHHHHH.HCT-SEEEEEE-S-TTSGGGHHHHHHHHHHHHHH-TTTEEEEE CS
              CTP_synth_N  87 ittGkiyksviekerrGdylGktvqviphvtdeikeriekvakkveadvviveigGtvgdieslpfleairqlklelgkenvllih 172
                              +ttG++y +vie+er+G+ylGktvqv+ph+t+eik+ri+ +a+  ++d++i eigGtvgdieslpf+e+irql+++ g +nvl+ih
  PHY93_15750|PHY93_15750  95 FTTGQVYLKVIENEREGKYLGKTVQVVPHITNEIKRRIHIAAE--NSDLLIGEIGGTVGDIESLPFIESIRQLAHDEGPDNVLFIH 178
                              ***************************************9998..8**************************************** PP

                              EEE--B-TTTSSB-HHHHHHHHHHHHHHT---SEEEEEESS---HHHHHHHHHHCT--GGGEEEEE--S-GGGHHHHHHHCTHHHH CS
              CTP_synth_N 173 vtlvpvlkaagelktkptqhsvkelrslGiqpdiivcrsekeleeevkekialfcnvekeavisvkdvesiyevpllleeqglael 258
                              + l+p+++aagelk+kp+qhsvkel s G++p+ii+ rs++  +e++ +ki+ fcnv +++v+++ d++siy+vpl +++qgl++ 
  PHY93_15750|PHY93_15750 179 LVLLPYIAAAGELKSKPAQHSVKELMSQGLSPHIIISRSDRVADEDTLDKISRFCNVARKNVFQSIDMDSIYKVPLEFHKQGLDQR 264
                              ************************************************************************************** PP

                              HHHHTT CS
              CTP_synth_N 259 ileklk 264
                              i+e l 
  PHY93_15750|PHY93_15750 265 IAELLG 270
                              *99886 PP

>> GATase  Glutamine amidotransferase class-I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  170.3   0.1   8.8e-54   3.9e-50       2     189 ..     306     530 ..     305     531 .. 0.94

  Alignments for each domain:
  == domain 1  score: 170.3 bits;  conditional E-value: 8.8e-54
                              EEESSTSTHHHHHHHHHHTT-EEEEEETTSHHHHHHH....THHSTSEEEEEEESSCTTTTTHHHHHHHHCTSTS-EEEETHHHHH CS
                   GATase   2 liDnydsvtenlvhalvelgvkvevvpidasaeeile....llknpdgilvsgGpgspgvegkieaikearenkiPiLGICLGmQl 83 
                              l ++y+s+ e+l h ++++++k + v id++ +e+      + k+++gilv+gG+g++g+egki+ai++ar+nkiP+LGICLG+Ql
  PHY93_15750|PHY93_15750 306 LTESYKSLDEALNHGAIANQLKFKPVYIDSELLEKNAnldeIFKDVQGILVPGGFGERGTEGKIKAIEYARTNKIPFLGICLGLQL 391
                              6799***************************999954565459******************************************* PP

                              HHHHTTTEEE.......................EEECEEEEEEEEEEEETTT........CGGTTTTSEEEEEEEEEEEEESG... CS
                   GATase  84 laiefgrkvv.......................kekekehhggtmrlgddet........allyglknevierhrHryevnpk... 135
                               +ie++r+v                        + ++ + +gg+mrlg++ +        +++y+  + ++erhrHr+evn++   
  PHY93_15750|PHY93_15750 392 SVIEYARNVLgiqdatseefksggshlihymegQ-RSDGAKGGSMRLGSYACaledgtlaKKIYHA-DIIHERHRHRLEVNNMymd 475
                              *******9999999999**************955.558*********************9999999.***************9*** PP

                              CHHHTTEEEEEEEETTEEEEEEEEETT.T.EEEESSBTTSTTSTTHHHHHHHHHHH CS
                   GATase 136 elepaglevtakseddeelmeiiekkn.p.fvgvQFHPEststpegpellfnflik 189
                              ++ ++ l+v++ +++   l+e+ie+++ p f+++Q+HPE++s+p  p++lf+ +i+
  PHY93_15750|PHY93_15750 476 KFTNTSLVVSGFNKEL-NLVEVIELNDhPfFIACQYHPEFKSKPFSPHPLFKAFIE 530
                              *************887.7*********9************************9986 PP

>> Peptidase_C26  Peptidase C26
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.1   0.0   1.7e-10   7.6e-07      95     216 .]     369     513 ..     297     513 .. 0.83

  Alignments for each domain:
  == domain 1  score: 29.1 bits;  conditional E-value: 1.7e-10
            Peptidase_C26  95 laLiraalergvPilgiCrGlqllnvalGGtl..yqdiee...qsgltdhrehe............q....saashavkvekgsll 159
                              ++ i+ a ++++P lgiC+Glql  + +  ++   qd+ +   + +   h                +       s a  +e g+l 
  PHY93_15750|PHY93_15750 369 IKAIEYARTNKIPFLGICLGLQLSVIEYARNVlgIQDATSeefK-SGGSH---LihymegqrsdgaKggsmRLGSYACALEDGTLA 450
                              566888999*************9877766554123444331211.12222...1444566565555155557778999999***** PP

            Peptidase_C26 160 aellgseeievnslHhqaike......laeelrveAvae.DgviEaieseeakafvlgvQwHPE 216
                              ++++ ++ i+    H+  +++       +++l v+   +  +++E ie+++++ f+++ Q+HPE
  PHY93_15750|PHY93_15750 451 KKIYHADIIHERHRHRLEVNNmymdkfTNTSLVVSGFNKeLNLVEVIELNDHP-FFIACQYHPE 513
                              ****999999999999999999988888999*****99989**********88.*********9 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   2.4e-07    0.0011       7      55 ..      18     152 ..      11     284 .. 0.65

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 2.4e-07
                              STTSSHHHHHHHHHHHHHHTT--EEEEEEEESSCCCCHHTTEB-HHHH...................................... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...................................... RF
                     CbiA   7 kGGvGKTtlaanLaralarrglrVllvDaDpqannlaileglendiep...................................... 54 
                               +  GK   aa++a +l rrg +V+++++Dp  n +    g+    +                                       
  PHY93_15750|PHY93_15750  18 ASSLGKGLAAASIASLLERRGIKVAMLKMDPYINVDP---GTMSPTQHgevfvtddgaetdldlghyerftsltlkresnfttgqv 100
                              5778***************************999887...3333333345555555666666666666666666666666665555 PP

                              ...................................................C CS
                              ...................................................x RF
                     CbiA  55 ...................................................d 55 
                                                                                 d
  PHY93_15750|PHY93_15750 101 ylkvieneregkylgktvqvvphitneikrrihiaaensdlligeiggtvgD 152
                              5555555555555555555555555555555555555555555555555550 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (537 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       597  (0.033298); expected 358.6 (0.02)
Passed bias filter:                      559  (0.0311785); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.72u 0.28s 00:00:01.00 Elapsed: 00:00:00.51
# Mc/sec: 3151.44
//
Query:       PHY93_15755|PHY93_15755  [L=264]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    8.6e-57  192.1   0.0    1.1e-56  191.8   0.0    1.0  1  DAHP_synth_1  DAHP synthetase I family


Domain annotation for each model (and alignments):
>> DAHP_synth_1  DAHP synthetase I family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  191.8   0.0   5.9e-61   1.1e-56      21     259 ..       8     252 ..       3     262 .. 0.94

  Alignments for each domain:
  == domain 1  score: 191.8 bits;  conditional E-value: 5.9e-61
                              EEEEESC-S-HHHHHHHHHHHHHHHHHHTTTEEEEEESSSC-S..SSTTS-SHTTHHHTHHHHHHHHHHHT-EEEEEESSCCTHHH CS
             DAHP_synth_1  21 viaGPCsiedpeaaleyAerlkklgeklkddleiimrayfeKp.RrstvgfkGlindpdlkilsrikkelglpiatevldpisvqy 105
                              + +G C++e++e al++A+rl k  + ++d++ i ++ +f+K+ R+s+++++G++ d+++ il++ik ++glp++t++++++++  
  PHY93_15755|PHY93_15755   8 FYIGSCVLESEELALTIADRLIKDLKPFEDKITITYKGSFDKAnRTSINSYRGPGIDEGMRILEKIKTTFGLPVLTDFHETSQAMK 93 
                              569*********************************************************************************** PP

                              HHHHESEEEE-CTCTTBHHHH....HHHHTTSSEEEEEE-TTHHHHHHHHHHHHHHHTTEEE--EEEEEEEEEESTSSSSSCHCHH CS
             DAHP_synth_1 106 ladvvdiiqiGArttesqdll....elasglskpvglKngtdvaidemkaaaekilflgvetkgiilcerglrggkktnrdvedva 187
                              la +vd++q++A++++++d+     e+ +++ ++ ++K+g++++++e k++ +k   +     +i l+erg+++g+  n+   d+a
  PHY93_15755|PHY93_15755  94 LATIVDVLQVPAFLCRQTDMIaagaEACAKYGRILKVKKGQFLSPEETKNIVDKATTFLP-KGQILLTERGSSFGY--NNLIVDMA 176
                              ********************733336678999*******************999988885.899************..******** PP

                              HHHHHHHHCTSS-EEEESCHHHTTCG......GGGHHHHHHHHHHHHHTTESEEEEEBBSSCCC-SSTGGGGBBCTCB CS
             DAHP_synth_1 188 avkilkeetgklpvmvDvsHansrkd......ykrqkkvlklakaaiaaGiaGvmiEshlnpgkalsdgkqalkygks 259
                              +++i+k++   ++ + D++H ++r++      +++++++l la+aaiaaG++G+++E+h+np+kalsd++ +l +++ 
  PHY93_15755|PHY93_15755 177 SFQIMKSFG--VKTVHDATHCVQRPGglgtatGGKREQILVLARAAIAAGADGIFMETHPNPDKALSDAATSLPLDSI 252
                              *********..699*********************************************************9998554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (264 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       436  (0.0243181); expected 358.6 (0.02)
Passed bias filter:                      429  (0.0239277); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.29s 00:00:00.80 Elapsed: 00:00:00.47
# Mc/sec: 1693.26
//
Query:       PHY93_15760|PHY93_15760  [L=184]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.1e-09   38.4   0.0    2.6e-09   37.2   0.0    1.7  2  Hydrolase_3  haloacid dehalogenase-like hydrolase
    0.00045   20.6   0.1       0.29   11.4   0.0    2.2  2  Hydrolase    haloacid dehalogenase-like hydrolase


Domain annotation for each model (and alignments):
>> Hydrolase_3  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0      0.21   1.9e+03       2      11 ..      29      38 ..      10      55 .. 0.72
   2 !   37.2   0.0   2.9e-13   2.6e-09     185     253 ..     100     167 ..      63     169 .. 0.93

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.21
                             EEEIIIIIS- CS
              Hydrolase_3  2 alDlDGTLln 11
                             a+D+DG L n
  PHY93_15760|PHY93_15760 29 AFDIDGILTN 38
                             5677766655 PP

  == domain 2  score: 37.2 bits;  conditional E-value: 2.9e-13
                              T-SHHHHHHHHHHHCT--GGGEEEEESSGGGHHHHHHSSEEEEETTS-HHHHHHSSEEE--GGGTHHHH CS
              Hydrolase_3 185 gvsKgtalkklakelnisleeviafGDgeNDieMLeaaglgvAmgnaseevkkaAdyvtksnnedGVak 253
                              + +K  a kk++  l++s ee++ +GD+  D++ L+++g++  + nas e+++a dy+t   + d+ a+
  PHY93_15760|PHY93_15760 100 NEDKRDAYKKIL-ALGYSDEEILFMGDEFIDLPILKRVGFSATVPNASYEIQEAVDYITHREAGDACAR 167
                              568999999999.9*********************************************9988887765 PP

>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.1   0.1   0.00066       5.9       1      15 [.      25      39 ..      25      48 .. 0.91
   2 !   11.4   0.0   3.2e-05      0.29     128     210 .]      63     137 ..      61     137 .. 0.87

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.00066
                             SSEEEEESBTTTBCH CS
                             xxxxxxxxxxxxxxx RF
                Hydrolase  1 iktvvfDkdGTLttg 15
                             ik+++fD+dG Lt+g
  PHY93_15760|PHY93_15760 25 IKVCAFDIDGILTNG 39
                             89***********98 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 3.2e-05
                              HHHHHTTEEEEEEESSEHHHHH.HHHHHTTGGGESEEEEHHCESSTTTSHHHHHHHHHHHTSTGGGEEEEESSHHHHHHHHHTT CS
                              xxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 128 asLkaagievvlltgdnpetae.raanqlGddyfdaviasdietvakpspegkvaaireLqgkpeevamVGDgvnDaaalaaAg 210
                              + L++ag+ v++++g+++   + r ++ l           d +  +  ++++  ++i  L+ + ee+++ GD + D++ l+++g
  PHY93_15760|PHY93_15760  63 KILREAGLLVGIISGGDSVGMRkRFIDTLK---------LDFVFLGNEDKRDAYKKILALGYSDEEILFMGDEFIDLPILKRVG 137
                              789***********8888666669999999.........3444488899999999999**********************9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (184 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       443  (0.0247086); expected 358.6 (0.02)
Passed bias filter:                      416  (0.0232026); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.26s 00:00:00.74 Elapsed: 00:00:00.45
# Mc/sec: 1223.12
//
Query:       PHY93_15765|PHY93_15765  [L=93]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.3e-05   24.9   0.4    7.6e-05   23.2   0.4    1.8  1  DUF493    Protein of unknown function (DUF493)
  ------ inclusion threshold ------
      0.048   13.7   0.0      0.051   13.6   0.0    1.1  1  Gp138_N   Phage protein Gp138 N-terminal domain


Domain annotation for each model (and alignments):
>> DUF493  Protein of unknown function (DUF493)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.2   0.4   8.5e-09   7.6e-05       2      73 ..      23      85 ..      22      93 .] 0.78

  Alignments for each domain:
  == domain 1  score: 23.2 bits;  conditional E-value: 8.5e-09
                   DUF493  2 elieFPcdfpikviGkaeedfaqavvevverhapdfdeetvevresskgkYlSvtvtvrveseeqldalyqe 73
                             e ++FP+++ +k i   +e  +++++ ++           +  r+ss+gkY+Sv+ + + e+++++ a+y++
  PHY93_15765|PHY93_15765 23 ETVKFPTEYLFKFIVPVSE--VHQIMLILHGMD-------IDERASSGGKYISVSGRKVFENSDEIIAIYKR 85
                             6789999999999998443..345555555443.......45588*************************97 PP

>> Gp138_N  Phage protein Gp138 N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   5.7e-06     0.051      22      86 ..       6      70 ..       1      82 [. 0.83

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 5.7e-06
                  Gp138_N 22 kkklsdgetvelpllvdvpvvfprgggvtltfpvkaGdeclvvfseraidawlqsGgvqepader 86
                             k+ ++ ++  +l l++d  v fp+   + + +pv +  + ++++   +id+  +sGg+  +++ r
  PHY93_15765|PHY93_15765  6 KAAIEADRLFKLKLVMDETVKFPTEYLFKFIVPVSEVHQIMLILHGMDIDERASSGGKYISVSGR 70
                             55666778889999*****************************************9987766655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (93 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       305  (0.0170115); expected 358.6 (0.02)
Passed bias filter:                      249  (0.0138881); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.42
# Mc/sec: 668.09
//
Query:       PHY93_15770|PHY93_15770  [L=346]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.9e-46  157.3   0.1    5.5e-46  156.4   0.1    1.5  1  NAD_Gly3P_dh_C   NAD-dependent glycerol-3-phosphate dehydroge
    3.3e-24   85.6   0.0      6e-24   84.8   0.0    1.4  1  NAD_Gly3P_dh_N   NAD-dependent glycerol-3-phosphate dehydroge
  ------ inclusion threshold ------
      0.013   15.8   0.0       0.23   11.7   0.0    2.2  2  Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding doma
      0.026   14.6   0.1       0.28   11.2   0.0    2.1  2  Shikimate_DH     Shikimate / quinate 5-dehydrogenase
      0.073   13.0   0.1        1.2    9.0   0.0    2.3  2  3HCDH_N          3-hydroxyacyl-CoA dehydrogenase, NAD binding
      0.081   12.6   0.0       0.17   11.5   0.0    1.5  1  ApbA             Ketopantoate reductase PanE/ApbA


Domain annotation for each model (and alignments):
>> NAD_Gly3P_dh_C  NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  156.4   0.1   1.8e-49   5.5e-46       1     141 [.     195     335 ..     195     336 .. 0.98

  Alignments for each domain:
  == domain 1  score: 156.4 bits;  conditional E-value: 1.8e-49
                              -HHHHHHHHHHHHHHHHHHHHHHHTTH-HHHHHHHHHHHHHHHHHHHHHHTSSGGGGGSTTTHHHHHHHHHSCT.HHHHHHHHHHC CS
           NAD_Gly3P_dh_C   1 DviGvelagalKNviAiaaGivdglglgdntkaalitrglaEmarlakalgakpetflglaglgDlivtctsgksRNrrfGeelgk 86 
                              Dv Gv l+galKN++Aia G+++glg+++nt+aa+itrg+aEm r++  ++a+petf+gl+g+gDli+t t++ sRN +fG e++k
  PHY93_15770|PHY93_15770 195 DVKGVLLGGALKNILAIAGGVIEGLGYNHNTRAAMITRGIAEMLRFGAVYNARPETFYGLSGMGDLILTTTGDLSRNKTFGLEIAK 280
                              9************************************************************************************* PP

                              T--HHHHHHHHCC--HHHHHHHHHHHHHHHTT.G.HHHHHHHHHHHS---HHHHH CS
           NAD_Gly3P_dh_C  87 gesleeiekelnqvleGvetakevyellkkkgvemplleavykilyegkspeeli 141
                              g++ e+i+++ ++++eG++tak+v+ + ++++++ ++++ vy++lye++sp+e+i
  PHY93_15770|PHY93_15770 281 GRRPEDIIRSQRNIVEGYKTAKAVHFISERYEIKAQIFNGVYEVLYENHSPNEVI 335
                              *********8889***************************************987 PP

>> NAD_Gly3P_dh_N  NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   84.8   0.0     2e-27     6e-24       4     155 ..      14     174 ..      10     176 .. 0.87

  Alignments for each domain:
  == domain 1  score: 84.8 bits;  conditional E-value: 2e-27
                              EE--SHHHHHHHHHHHTTT--EEEE-S-HHHHHHHHHHSSBTTTBTT----TTEEEES-HHHH..HTT--..EEEE---HHHHHHH CS
           NAD_Gly3P_dh_N   4 vlGaGswGtalAkvlaenghevrlwvreeelieeineehenvkyLpgiklpenlvattdlaea..lkgad..iivlvvPsqalrev 85 
                              v+GaG++Gta+A+vla n  +v + vr+e+   +i++  en+ yLpg+k+ +n+ a    +e+   +++d  +iv ++P++ ++e 
  PHY93_15770|PHY93_15770  14 VIGAGAFGTAMAQVLATNFDKVIIKVRSEDIYLAIKN-GENSVYLPGLKIASNIDAALTWEEVdaHNESDieLIVSALPTSGIAEY 98 
                              8*********************************975.79***************988777652155554227999****999999 PP

                              HHHHCCC-....-TT-EEEE---SEET.TTEEHHHHHHHHH-S--..EEEEESS--HHHHHTT--EEEEEEES-HH CS
           NAD_Gly3P_dh_N  86 lkklkgll....kkkailvsliKGieegtlkllsevieeelkeek..vavlsGpslAeEvakgkptavviaskdke 155
                              +k++ +       k  +l+sl+KGi ++tl+l  +   ++ ++ k   ++lsGps+A+E+++g++t v++a  +k+
  PHY93_15770|PHY93_15770  99 FKEHYDRFlaylIKGIPLLSLSKGIDPETLELSDDLFYDMYPHFKelFCFLSGPSFAHEIMQGQITLVTVAGRSKK 174
                              887765443444999***************************98889***********************987765 PP

>> Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   7.8e-05      0.23       2      35 ..      13      43 ..      12      87 .. 0.85
   2 ?    1.7   0.0     0.094   2.8e+02      12      50 ..     153     189 ..     150     197 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 7.8e-05
                             EEE--SHHHHHHHHHHHCTCCT-GEEEEEESSHH CS
          Sacchrp_dh_NADP  2 liiGaGsvGqavaellarhfdvdaeitvadrske 35
                             l+iGaG+ G a+a++la +fd    +++  rs++
  PHY93_15770|PHY93_15770 13 LVIGAGAFGTAMAQVLATNFDK---VIIKVRSED 43
                             89******************95...666666655 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.094
                              HHHHHHHCTCCT-GEEEEEESSHHHHHHHHCHHTTTCEE CS
          Sacchrp_dh_NADP  12 avaellarhfdvdaeitvadrskeklealaakalgvrfe 50 
                              ++a+++ + +     +tva+rsk+ le+++  a+ + f+
  PHY93_15770|PHY93_15770 153 SFAHEIMQGQIT--LVTVAGRSKKVLENVITMANTTYFK 189
                              566666666555..79***********999777666655 PP

>> Shikimate_DH  Shikimate / quinate 5-dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   9.5e-05      0.28      10      47 ..       7      43 ..       2      67 .. 0.84
   2 ?    0.8   0.0      0.16   4.8e+02      28      59 ..     155     186 ..     151     200 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 9.5e-05
                             .TT-EEEEES-SHHHHHHHHHHHCCT-CEEEEEESSHH CS
             Shikimate_DH 10 lkekkvlliGaGemaelvakhLlakgvkkvvvaNRtle 47
                              k+k +l+iGaG  ++ +a+ L+  +++kv++  R+ +
  PHY93_15770|PHY93_15770  7 PKRKIALVIGAGAFGTAMAQVLA-TNFDKVIIKVRSED 43
                             567889**************998.67888999999875 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.16
                              HHHHHCCT-CEEEEEESSHHHHHHHHHHHT.E CS
             Shikimate_DH  28 akhLlakgvkkvvvaNRtlerakelaeelkge 59 
                              a+ +++ +++ v+va+R+ +  +++ +  +++
  PHY93_15770|PHY93_15770 155 AHEIMQGQITLVTVAGRSKKVLENVITMANTT 186
                              66788899999******998888877766554 PP

>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0   0.0    0.0004       1.2       4      34 ..      14      44 ..      10      78 .. 0.82
   2 ?    1.4   0.0     0.084   2.5e+02      82     104 ..     303     325 ..     278     330 .. 0.76

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.0004
                             EE--SCCHHHHHHHHHHTT-EEEEE-S-HHH CS
                  3HCDH_N  4 viGaGtmGagiaavfasagleVvlvdiseea 34
                             viGaG  G+ +a+v+a +  +V +  +se++
  PHY93_15770|PHY93_15770 14 VIGAGAFGTAMAQVLATNFDKVIIKVRSEDI 44
                             9***************987777766666554 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.084
                              EEE-S-SSHHHHHHHHHHHHCCS CS
                  3HCDH_N  82 viEavvEnlelKrkvfaelekia 104
                               +  + E++e+K+++f+ + +++
  PHY93_15770|PHY93_15770 303 AVHFISERYEIKAQIFNGVYEVL 325
                              556689**********9987776 PP

>> ApbA  Ketopantoate reductase PanE/ApbA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   5.7e-05      0.17       2      83 ..      13      97 ..      12     109 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 5.7e-05
                             EEES-SHHHHHHHHHHHHHTHCEEEE-SCH.HHHHHHHHCEEEEETT.CEEEEEECEEECCH.SCCCCS-ESEEEE-SSGGGHHH CS
                     ApbA  2 ailGaGaiGsllaakLakagadvtlilrsr.rlealkknGlrltseg.geeilrppealsae.ekselepidlvivtvKayqtee 83
                             +++GaGa G+ +a  La +  +v++ +rs+  + a+k+   +++ +g +   + + + +++e + ++ ++i+l++ ++++   +e
  PHY93_15770|PHY93_15770 13 LVIGAGAFGTAMAQVLATNFDKVIIKVRSEdIYLAIKNGENSVYLPGlKIASNIDAALTWEEvDAHNESDIELIVSALPTSGIAE 97
                             79**************999999********99999***99999999975555544444444467778888888887776665555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (346 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       421  (0.0234815); expected 358.6 (0.02)
Passed bias filter:                      366  (0.0204139); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.58u 0.25s 00:00:00.83 Elapsed: 00:00:00.47
# Mc/sec: 2205.07
//
Query:       PHY93_17215|PHY93_17215  [L=57]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      3e-11   43.3  19.1      4e-11   42.9  19.1    1.2  1  DUF1328        Protein of unknown function (DUF1328)
  ------ inclusion threshold ------
        4.9    6.8   9.5        5.6    6.6   9.5    1.0  1  Tetraspanin    Tetraspanin family


Domain annotation for each model (and alignments):
>> DUF1328  Protein of unknown function (DUF1328)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.9  19.1   4.4e-15     4e-11       1      39 []       6      44 ..       6      44 .. 0.98

  Alignments for each domain:
  == domain 1  score: 42.9 bits;  conditional E-value: 4.4e-15
                  DUF1328  1 liFLviAliAgvLGFgGiagaaagiAkiLFfiFlvlfvi 39
                             + F+++A+iA +LG+ Giag +++i +iL+f+Flvl+vi
  PHY93_17215|PHY93_17215  6 IAFFILAIIAFFLGANGIAGISMEIGRILLFVFLVLAVI 44
                             78************************************8 PP

>> Tetraspanin  Tetraspanin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.6   9.5   0.00062       5.6      51      97 ..       6      53 ..       2      54 .. 0.83

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.00062
                             ..XXXXXXXXXXXXXXXXXXXXXXX.XXXXXXXXXXXXXXXXXXXXXX CS
                             xxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxx RF
              Tetraspanin 51 illivvGvllfllgflGcigalken.kcllltfsllllvlfllelaag 97
                             i+++++ ++ f+lg  G+ g+  e  ++ll++f++l ++ f+  +a g
  PHY93_17215|PHY93_17215  6 IAFFILAIIAFFLGANGIAGISMEIgRILLFVFLVLAVISFVGSIATG 53
                             5699999*************6666516999999999999999998865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (57 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       999  (0.0557198); expected 358.6 (0.02)
Passed bias filter:                      480  (0.0267723); expected 358.6 (0.02)
Passed Vit filter:                        62  (0.00345808); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.25s 00:00:00.70 Elapsed: 00:00:00.44
# Mc/sec: 389.03
//
Query:       PHY93_15775|PHY93_15775  [L=148]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.025   14.4   0.5      0.037   13.9   0.2    1.4  2  BAH       BAH domain
      0.051   13.9   0.4      0.066   13.5   0.4    1.2  1  DUF5625   Domain of unknown function (DUF5625)


Domain annotation for each model (and alignments):
>> BAH  BAH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0       0.7   6.3e+03      20      34 ..      35      49 ..      27      58 .. 0.70
   2 ?   13.9   0.2   4.1e-06     0.037      20      70 ..      90     134 ..      67     145 .. 0.77

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 0.7
                             EEEEEEEEEEEETTS CS
                      BAH 20 yqirrIeeLkenakn 34
                             +    I+eLke    
  PHY93_15775|PHY93_15775 35 PELISIKELKERGVT 49
                             455678888877655 PP

  == domain 2  score: 13.9 bits;  conditional E-value: 4.1e-06
                              EEEEEEEEEEEETTSTCEEEEEEEEEEECGGGS...TTTTHCCCTTEEEEEEEE CS
                      BAH  20 yqirrIeeLkenakneeaeatvlvdwflrpeet...ksalklrqkrElfltrqs 70 
                                i+++e ++ n+kne    tv++d +++  ++   ++ l++++k      +q+
  PHY93_15775|PHY93_15775  90 EAIAKVETIERNQKNE---NTVFIDVYFTQYDIgewQKILNEYEK------NQE 134
                              579*************...**************444333444443......333 PP

>> DUF5625  Domain of unknown function (DUF5625)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.4   7.4e-06     0.066       6      93 ..      43     130 ..      38     143 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 7.4e-06
                              TTSTTEEEEEEEEE-SSEEEEEEEEE----CCCCTTHHHHHH-TT--T---EEEEEEEEE.-TTS-EEEEEEEEEEE-S--SSTT. CS
                  DUF5625   6 lskaGsvvetdveieekgsyqlaLlfavndqkeemervekllGstdkdgvivpvklkivk.nkkndkkvildkkinakglgsgaa. 89 
                              l+  G + e+ ++i +kg+ +l L+f   d   em+ +   +G++++ +  +  k++ +  n+kn+++v++d    + + g +++ 
  PHY93_15775|PHY93_15775  43 LKERGVTLEVPINICQKGH-NLTLFFICLDA--EMTSRLPDFGHFKDAKFEAIAKVETIErNQKNENTVFIDVYFTQYDIGEWQKi 125
                              6777888899999999875.899*******9..9**************8888888876666***********88776666555431 PP

                              .E... CS
                  DUF5625  90 .teye 93 
                               +eye
  PHY93_15775|PHY93_15775 126 lNEYE 130
                              14555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (148 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       976  (0.0544369); expected 358.6 (0.02)
Passed bias filter:                      452  (0.0252106); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.42
# Mc/sec: 1056.97
//
Query:       PHY93_15780|PHY93_15780  [L=450]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-06   27.8   3.2       0.36   11.1   0.1    4.0  4  TPR_2     Tetratricopeptide repeat
    6.5e-05   22.6   1.4      0.047   13.5   0.1    3.6  3  TPR_1     Tetratricopeptide repeat
    0.00065   19.7   6.2       0.71   10.2   0.2    4.6  4  TPR_8     Tetratricopeptide repeat
    0.00076   20.1   0.0     0.0016   19.1   0.0    1.6  1  TPR_16    Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.038   13.7   0.9       0.45   10.2   0.0    2.6  2  TPR_11    TPR repeat
        0.2   12.6   0.0        3.7    8.6   0.0    2.6  2  TPR_14    Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.7   0.0   0.00016      0.48       8      31 ..     159     182 ..     156     185 .. 0.87
   2 !   11.1   0.1   0.00012      0.36       2      31 ..     187     216 ..     186     219 .. 0.91
   3 ?    4.0   0.1     0.023        67       3      20 ..     222     239 ..     220     241 .. 0.87
   4 ?   -2.3   0.0       2.3   6.9e+03       4      25 ..     298     319 ..     295     324 .. 0.77

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00016
                    TPR_2   8 GlayyklgdyeeAleafekAleld 31 
                              G+  y +g+++ A+e f+ Al+l 
  PHY93_15780|PHY93_15780 159 GRDRYINGHLDSARESFQTALSLH 182
                              7778999**************996 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 0.00012
                    TPR_2   2 ealynlGlayyklgdyeeAleafekAleld 31 
                              e++y lG++y  +   +eA++ +e+++ ++
  PHY93_15780|PHY93_15780 187 EGHYFLGKIYSDNHLQDEAIHSYEESIYHN 216
                              78***********************99776 PP

  == domain 3  score: 4.0 bits;  conditional E-value: 0.023
                    TPR_2   3 alynlGlayyklgdyeeA 20 
                               l nl  +yy++++y +A
  PHY93_15780|PHY93_15780 222 SLKNLSSLYYQKKEYIKA 239
                              6889***********999 PP

  == domain 4  score: -2.3 bits;  conditional E-value: 2.3
                    TPR_2   4 lynlGlayyklgdyeeAleafe 25 
                              l  lG+  ++ +d e+ +ea++
  PHY93_15780|PHY93_15780 298 LAILGKYFLNCNDSEKGIEALK 319
                              5568888999999999998876 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   0.0     0.014        42      14      31 ..     165     182 ..     162     185 .. 0.86
   2 !   13.5   0.1   1.6e-05     0.047       2      33 ..     187     218 ..     186     219 .. 0.92
   3 ?    1.4   0.2      0.11   3.3e+02       4      21 ..     223     240 ..     220     242 .. 0.79

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.014
                              TT-HHHHHHHHHHHHHHS CS
                    TPR_1  14 lgkydeAleyyekALeln 31 
                              +g +d A e ++ AL+l 
  PHY93_15780|PHY93_15780 165 NGHLDSARESFQTALSLH 182
                              68899**********996 PP

  == domain 2  score: 13.5 bits;  conditional E-value: 1.6e-05
                              HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT CS
                    TPR_1   2 kalynlGnayfklgkydeAleyyekALelnPn 33 
                              + +y lG +y  +   deA+  ye+ + +n +
  PHY93_15780|PHY93_15780 187 EGHYFLGKIYSDNHLQDEAIHSYEESIYHNSE 218
                              689************************99976 PP

  == domain 3  score: 1.4 bits;  conditional E-value: 0.11
                              HHHHHHHHHHTT-HHHHH CS
                    TPR_1   4 lynlGnayfklgkydeAl 21 
                              l+nl  +y+++++y +A 
  PHY93_15780|PHY93_15780 223 LKNLSSLYYQKKEYIKAY 240
                              5666679*******9996 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   0.0     0.021        63      14      30 ..     165     181 ..     163     184 .. 0.91
   2 !   10.2   0.2   0.00024      0.71       2      28 ..     187     213 ..     186     217 .. 0.92
   3 ?    1.4   0.4      0.17     5e+02       6      20 ..     225     239 ..     221     241 .. 0.88
   4 ?    3.0   0.1     0.049   1.5e+02       6      30 ..     300     324 ..     296     327 .. 0.86

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.021
                              TT-HHHHHHHHHHHHHH CS
                    TPR_8  14 lgdyeeAkeyyekalel 30 
                               g +++A e+++ al+l
  PHY93_15780|PHY93_15780 165 NGHLDSARESFQTALSL 181
                              5899***********98 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 0.00024
                              CHHHHHHHHHHHTT-HHHHHHHHHHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeAkeyyekal 28 
                              e +y lg+iy++    +eA+ +ye+ +
  PHY93_15780|PHY93_15780 187 EGHYFLGKIYSDNHLQDEAIHSYEESI 213
                              6789********************998 PP

  == domain 3  score: 1.4 bits;  conditional E-value: 0.17
                              HHHHHHHHTT-HHHH CS
                    TPR_8   6 nlgsiylklgdyeeA 20 
                              nl+s+y ++++y +A
  PHY93_15780|PHY93_15780 225 NLSSLYYQKKEYIKA 239
                              899*******99887 PP

  == domain 4  score: 3.0 bits;  conditional E-value: 0.049
                              HHHHHHHHTT-HHHHHHHHHHHHHH CS
                    TPR_8   6 nlgsiylklgdyeeAkeyyekalel 30 
                               lg+  l+ +d e+ +e+++  l+ 
  PHY93_15780|PHY93_15780 300 ILGKYFLNCNDSEKGIEALKGSLKF 324
                              689999*************988875 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   5.3e-07    0.0016       3      62 ..     158     215 ..     156     219 .. 0.89

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 5.3e-07
                   TPR_16   3 laraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAa.alyraalr 62 
                              ++r+++ +g+ d A++ +++al ++      +e +++lg ++  +   +eA+  + ++ + 
  PHY93_15780|PHY93_15780 158 EGRDRYINGHLDSARESFQTALSLH---KHPYEGHYFLGKIYSDNHLQDEAIhSYEESIYH 215
                              7999999******************...88999*******************888777665 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0   0.00015      0.45       1      39 [.     159     197 ..     159     199 .. 0.93
   2 ?    1.1   0.2      0.11   3.1e+02      11      40 ..     203     232 ..     202     236 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00015
                   TPR_11   1 GdayyeqGkyeeAieaYkkAlkldPdnaeayynLGlayy 39 
                              G+  y  G ++ A e++++Al l     e +y LG++y 
  PHY93_15780|PHY93_15780 159 GRDRYINGHLDSARESFQTALSLHKHPYEGHYFLGKIYS 197
                              6778999*****************************996 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.11
                   TPR_11  11 eeAieaYkkAlkldPdnaeayynLGlayyk 40 
                              +eAi +Y++ +  ++++   + nL  +yy+
  PHY93_15780|PHY93_15780 203 DEAIHSYEESIYHNSEFFKSLKNLSSLYYQ 232
                              899****99998888888888777777776 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   0.0    0.0012       3.7      14      43 ..     165     194 ..     159     195 .. 0.91
   2 ?    0.8   0.0      0.39   1.2e+03       4      29 ..     298     323 ..     295     330 .. 0.86

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.0012
                   TPR_14  14 lGdpdeAiallrralalaPddaeawlllaq 43 
                              +G +d A++ ++ al+l+  + e +++l++
  PHY93_15780|PHY93_15780 165 NGHLDSARESFQTALSLHKHPYEGHYFLGK 194
                              799*****************9999999987 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.39
                   TPR_14   4 llalaeallalGdpdeAiallrrala 29 
                              l+ l++++l+  d ++ i++l+  l+
  PHY93_15780|PHY93_15780 298 LAILGKYFLNCNDSEKGIEALKGSLK 323
                              67899***************997776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (450 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       644  (0.0359195); expected 358.6 (0.02)
Passed bias filter:                      401  (0.022366); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.60u 0.26s 00:00:00.86 Elapsed: 00:00:00.47
# Mc/sec: 2862.03
//
Query:       PHY93_15785|PHY93_15785  [L=737]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.3e-13   50.2   0.2    5.1e-13   49.1   0.2    1.5  1  DsbC            Disulphide bond corrector protein DsbC
    4.5e-13   49.2   0.1    8.4e-13   48.3   0.1    1.5  1  Thioredoxin_7   Thioredoxin-like
    9.3e-12   45.3  18.0    1.9e-11   44.3  18.0    1.5  1  DsbD            Cytochrome C biogenesis protein transmembrane
     0.0093   15.9   0.0      0.019   14.9   0.0    1.5  1  Thioredoxin     Thioredoxin
  ------ inclusion threshold ------
      0.011   15.7   0.1      0.023   14.6   0.1    1.4  1  Thioredox_DsbH  Protein of unknown function, DUF255
      0.083   13.3   0.0       0.17   12.3   0.0    1.5  1  Thioredoxin_2   Thioredoxin-like domain


Domain annotation for each model (and alignments):
>> DsbC  Disulphide bond corrector protein DsbC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.1   0.2   1.7e-16   5.1e-13      16     116 ..      41     150 ..      28     153 .. 0.85

  Alignments for each domain:
  == domain 1  score: 49.1 bits;  conditional E-value: 1.7e-16
                              EECCCEEEEEEEE-TTEEEECCCE..CE......EEESCCCC.CEEEEE---EEEECCCTEEEEEEECSEEEEEEEEECEC..... CS
                     DsbC  16 agdtntlalrweiapgyylYwdkp..sg......eltlsagvalgelqlPapeekedeffglevevYegevtlplplkaaad.... 89 
                               +++  la++++  p +++Yw++p  +g       l + + ++l e ++Pap+++ +++++   ++Y g++tl  +l++++     
  PHY93_15785|PHY93_15785  41 LENKPYLAISYQNFPHWHTYWKNPgdAGlavknqFLVNNKEIKLTEEEWPAPKRFIENGTQ-WAYGYVGSYTLFYRLEKTDLnklt 125
                              45555688889999**********8755888887566666669**************9998.**************9999988999 PP

                              SSEEEEEEEEEEEETTTEEEEEEEEEE CS
                     DsbC  90 paelklkvtyqgCaeaglCyppetklv 116
                              +++++l+ t+++C++  +C+p ++k++
  PHY93_15785|PHY93_15785 126 GKTIELNSTWLVCKH--ICIPGQKKST 150
                              ***************..******9975 PP

>> Thioredoxin_7  Thioredoxin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.3   0.1   2.8e-16   8.4e-13       2      80 ..     632     715 ..     631     718 .. 0.90

  Alignments for each domain:
  == domain 1  score: 48.3 bits;  conditional E-value: 2.8e-16
                              --SSHHHHHHHHHHHT--EEEEE--TT-HHHHHHHHHHHH-HHHHH.HH.HT-EEEEESS--S-GGG.....-TT---SSEEEE CS
            Thioredoxin_7   2 wlsdldealakaaergkpvlvffgaswcftCqalerdflsdeevkaala.ekfvllrvdvterdani....leldeqgvPvvaf 80 
                              w+++  +++ +++e+++ v+++f+a wcftC+ +e+ +l++ee+k+ +  ++  ll  d+t rd+ i    ++ +  gvP++++
  PHY93_15785|PHY93_15785 632 WEAWSFDKMKEHKENQQVVFIDFTAKWCFTCKINEKLVLDTEEFKQFVGdNNLKLLIGDWTKRDEVIgsflRQNKLVGVPAYFI 715
                              788888899*************************************777899*************9977655555589****97 PP

>> DsbD  Cytochrome C biogenesis protein transmembrane region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.3  18.0   6.3e-15   1.9e-11       1     207 [.     348     550 ..     348     556 .. 0.68

  Alignments for each domain:
  == domain 1  score: 44.3 bits;  conditional E-value: 6.3e-15
                     DsbD   1 aflaGllsflsPCilpliPaylsyisgvsvedvktekkkvkvllkallFvlGlslvfvslglsa...afl.gqllkdvkevirrva 82 
                              af +Gl+  + PC+lp+i + l  + +   e++k       +l + l + lG+  +f  +g+ +     + +q+  +++      +
  PHY93_15785|PHY93_15785 348 AFIGGLILNIMPCVLPVISLKLFGLVKYRNESRKR------ILEHNLSYTLGILSTFFIFGCIVlafKSIgTQVGWGFQLQSPNFI 427
                              699***************99987666555555554......467777777776666666664321112221233335555555555 PP

                     DsbD  83 glivi...llGlhflgvfkievleklklllkikkkaelsvlgalllGltFalgwsPCigPvlasvlalaaskeslakgallllvyv 165
                              ++++i   ++ l++ g f+++    ++l  +ik+++   ++g +l G++ ++ ++PC++P l++ l++a ++  +++  l+++   
  PHY93_15785|PHY93_15785 428 AIMIIvlfIFSLNMFGFFEFSTPGGKSLG-NIKTEEG--FVGDFLSGVLATILSTPCSAPFLGTALTFAFTSS-TSSIFLIFITIG 509
                              54444111467777777776655544444.5555544..59****************************9998.333334444567 PP

                     DsbD 166 lGlaipfllvglllellkkklkslkkyskaveiaggvllvll 207
                              lGla pf+l g++ +l+  +l    ++++ +++  g+ l+l 
  PHY93_15785|PHY93_15785 510 LGLASPFILTGFFPSLVS-FLPRPGNWMNLIKKFLGLTLILT 550
                              89999********99887.99999999999999888877765 PP

>> Thioredoxin  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.0   6.4e-06     0.019      16      35 ..     645     664 ..     633     736 .. 0.68

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 6.4e-06
                              TTSSEEEEEEE-TTSHHHHC CS
              Thioredoxin  16 kekklvlveFyApwCghCka 35 
                              ++++ v+++F+A+wC  Ck 
  PHY93_15785|PHY93_15785 645 ENQQVVFIDFTAKWCFTCKI 664
                              4688999***********94 PP

>> Thioredox_DsbH  Protein of unknown function, DUF255
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.1   7.9e-06     0.023       7      70 ..     617     680 ..     613     699 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 7.9e-06
           Thioredox_DsbH   7 ekspYllqhaknpvdWypwgeealekakeedkpillsiGysachWChvmekesfedeevaalln 70 
                              ++ + ++ ++   ++W +w+ + +++ ke+++ ++++    +c  C++ ek   + ee  +++ 
  PHY93_15785|PHY93_15785 617 DQTALIRDKKARGLNWEAWSFDKMKEHKENQQVVFIDFTAKWCFTCKINEKLVLDTEEFKQFVG 680
                              5677788999999**********************************99988777777766665 PP

>> Thioredoxin_2  Thioredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   5.7e-05      0.17       2      90 ..     644     719 ..     643     727 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 5.7e-05
            Thioredoxin_2   2 kgngkpvlvvftdpdCpyCkklkkelkelddvtvrvllfplkpsfepkavaiwcakekkkafkdieenvelarkygvrgtPtivfl 87 
                              k+n++ v+++ft+ +C  Ck  +k + + ++++++     ++++  +  +  w++++++           ++r+ ++ g+P+ ++ 
  PHY93_15785|PHY93_15785 644 KENQQVVFIDFTAKWCFTCKINEKLVLDTEEFKQF-----VGDNNLKLLIGDWTKRDEV--------IGSFLRQNKLVGVPAYFIQ 716
                              689999******************99999999999.....8888777777777777776........5667777777777776665 PP

            Thioredoxin_2  88 dgk 90 
                               ++
  PHY93_15785|PHY93_15785 717 KKD 719
                              555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (737 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       690  (0.0384851); expected 358.6 (0.02)
Passed bias filter:                      364  (0.0203023); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.74u 0.26s 00:00:01.00 Elapsed: 00:00:00.49
# Mc/sec: 4534.20
//
Query:       PHY93_20915|PHY93_20915  [L=648]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (648 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       618  (0.0344693); expected 358.6 (0.02)
Passed bias filter:                      361  (0.020135); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.64u 0.28s 00:00:00.92 Elapsed: 00:00:00.46
# Mc/sec: 4214.03
//
Query:       PHY93_20920|PHY93_20920  [L=88]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0017   18.5   7.5     0.0021   18.2   7.5    1.1  1  TrbC      TrbC/VIRB2 family
  ------ inclusion threshold ------
       0.25   11.1   5.5       0.37   10.5   5.5    1.3  1  Yip1      Yip1 domain


Domain annotation for each model (and alignments):
>> TrbC  TrbC/VIRB2 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   7.5   2.4e-07    0.0021      17      99 .]       3      82 ..       1      82 [. 0.87

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 2.4e-07
                     TrbC 17 lalvllllaspalAqaaggdpvetvlqnivdfltgplakviatiaiivaGimlafgrls.wrtlvmvviGiviifgAssivsti 99
                             +++++l+++++ +A a    + ++ ++++ +  +  l+++i++i +++aG  l +g+++  +++ + ++Gi +i +A+ i+st+
  PHY93_20920|PHY93_20920  3 VIFLFLISSFQNFALA---GSLKGTADALGSEASH-LGIAIGLISLVIAGTYLHMGKQDgGQKVTQAILGILVILAAPVIISTL 82
                             5666667777777755...5799999999999999.********************************************9986 PP

>> Yip1  Yip1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   5.5   4.1e-05      0.37      56     116 ..      23      82 ..       1      85 [. 0.59

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 4.1e-05
                     Yip1  56 gltlssllga..iiggylglllgllllalllhliakllggkgsfkqtlsvvgyallPlilgal 116
                              g++      +    +g++++l++l++ + +lh ++k+ gg+     +l +++  ++P+i++ l
  PHY93_20920|PHY93_20920  23 GTADALG--SeaSHLGIAIGLISLVIAGTYLH-MGKQDGGQKVTQAILGILVILAAPVIISTL 82 
                              2222222..13333444445899999999999.699999999989999999999*****9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (88 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       550  (0.0306766); expected 358.6 (0.02)
Passed bias filter:                      285  (0.015896); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.24s 00:00:00.67 Elapsed: 00:00:00.44
# Mc/sec: 601.47
//
Query:       PHY93_20925|PHY93_20925  [L=532]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.3e-09   35.0   0.2     0.0025   16.8   0.0    2.2  2  AAA_10           AAA-like domain
    0.00072   18.6   0.0     0.0012   17.8   0.0    1.2  1  TrwB_AAD_bind    Type IV secretion-system coupling protein DN
     0.0032   17.5   0.0      0.006   16.6   0.0    1.6  1  CbiA             CobQ/CobB/MinD/ParA nucleotide binding domai
     0.0034   17.5   0.0     0.0094   16.1   0.0    1.7  1  DUF87            Helicase HerA, central domain
     0.0036   17.0   0.1     0.0093   15.7   0.0    1.6  2  Sigma54_activat  Sigma-54 interaction domain
     0.0048   16.8   0.0      0.011   15.7   0.0    1.6  1  DUF3875          Domain of unknown function, B. Theta Gene de
     0.0056   16.6   0.0      0.011   15.6   0.0    1.4  1  APS_kinase       Adenylylsulphate kinase
      0.008   16.6   0.1       0.48   10.8   0.0    2.6  2  RNA_helicase     RNA helicase
  ------ inclusion threshold ------
      0.029   13.4   0.0      0.047   12.7   0.0    1.2  1  MeaB             Methylmalonyl Co-A mutase-associated GTPase 
      0.035   13.5   0.0      0.069   12.5   0.0    1.4  1  ATPase           KaiC
      0.068   12.9   0.0       0.13   12.0   0.0    1.4  1  IstB_IS21        IstB-like ATP binding protein
      0.085   12.6   0.1        0.2   11.4   0.1    1.5  1  AAA_29           P-loop containing region of AAA domain
       0.12   12.7   0.0       0.35   11.2   0.0    1.7  1  AAA_22           AAA domain
       0.14   11.3   0.3       0.39    9.9   0.1    1.7  2  NB-ARC           NB-ARC domain
       0.17   11.2   0.0        0.3   10.4   0.0    1.3  1  Mg_chelatase     Magnesium chelatase, subunit ChlI


Domain annotation for each model (and alignments):
>> AAA_10  AAA-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.0   3.6e-06    0.0043      21      80 ..     303     364 ..     299     371 .. 0.79
   2 !   16.8   0.0   2.1e-06    0.0025     236     293 ..     466     521 ..     458     530 .. 0.84

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 3.6e-06
                   AAA_10  21 asasliiGdlGnGKSvlakllvlyisllggkaliiDpkkerekfketl..peiakkinvvtL 80 
                              + + li+G  G+GKS++a+ ++   + +g k++i+D  +  +k +  l   ++ +++n ++L
  PHY93_20925|PHY93_20925 303 NFNLLITGTSGQGKSMIANKIIKDEVERGRKVVILDLGNSFKKTVSYLdgCNFSRSFNPLQL 364
                              56789*******************************98886666555533335556665555 PP

  == domain 2  score: 16.8 bits;  conditional E-value: 2.1e-06
                   AAA_10 236 sdkkefkvvifDEawiftssaeGkkllkelvRiGRsynaavylvtqsadDvlkeelkn 293
                              ++ + +k+ +fDE+w + + +  +  + e+ R  R+++a ++ ++q+ +D l + l+ 
  PHY93_20925|PHY93_20925 466 KNIEGQKIFVFDECWQLLTKN--ADYVAESFRTFRKHQASAVAISQNLEDFLSSALGR 521
                              556678999*******99865..6788999********************99887665 PP

>> TrwB_AAD_bind  Type IV secretion-system coupling protein DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.0     1e-06    0.0012      18      55 ..     306     343 ..     300     362 .. 0.92

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 1e-06
            TrwB_AAD_bind  18 ilivGttGsGKtqalekllrairargdraivlDltGaf 55 
                              +li+Gt G GK+  ++k+++   +rg ++++lDl+  f
  PHY93_20925|PHY93_20925 306 LLITGTSGQGKSMIANKIIKDEVERGRKVVILDLGNSF 343
                              69*******************************98776 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0     5e-06     0.006       4      41 ..     308     345 ..     306     505 .. 0.88

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 5e-06
                              EESSTTSSHHHHHHHHHHHHHHTT--EEEEEEEESSCC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     CbiA   4 astkGGvGKTtlaanLaralarrglrVllvDaDpqann 41 
                              + +++G GK+++a ++++   +rg++V+ +D+++  + 
  PHY93_20925|PHY93_20925 308 ITGTSGQGKSMIANKIIKDEVERGRKVVILDLGNSFKK 345
                              6799****************************998554 PP

>> DUF87  Helicase HerA, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   7.8e-06    0.0094      19      64 ..     299     343 ..     282     365 .. 0.83

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 7.8e-06
                    DUF87  19 nklvtrHlAilgsTGsGKSntvavLleellekkgatililDpHGEY 64 
                              + +++  l+i g++G GKS  +  +++  + ++g +++ilD  + +
  PHY93_20925|PHY93_20925 299 DGAINFNLLITGTSGQGKSMIANKIIKDEV-ERGRKVVILDLGNSF 343
                              566677789*********************.99********86655 PP

>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   7.8e-06    0.0093      22      60 ..     303     341 ..     294     349 .. 0.87
   2 ?   -3.5   0.0       6.2   7.4e+03      86      98 ..     380     392 ..     379     396 .. 0.89

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 7.8e-06
                              SS-EEEECSTTSSHHHHHHHHHHHSTTTTS-EEEEETTT CS
          Sigma54_activat  22 dlsvlitGesGtGKellaraiheaskrkekpfvavncaa 60 
                              + ++litG sG GK+++a++i + + ++ +++v ++ ++
  PHY93_20925|PHY93_20925 303 NFNLLITGTSGQGKSMIANKIIKDEVERGRKVVILDLGN 341
                              6789*******************9999999999888775 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 6.2
                              EHHHHHTTTSEEE CS
          Sigma54_activat  86 kGlfekadgGtlf 98 
                               G f++ad+G lf
  PHY93_20925|PHY93_20925 380 DGFFSRADEGKLF 392
                              599*******999 PP

>> DUF3875  Domain of unknown function, B. Theta Gene description (DUF3875)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   9.2e-06     0.011      12      47 ..       3      38 ..       1      42 [. 0.93

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 9.2e-06
                  DUF3875 12 fPilaienncivSkdaditvafevelPEiFtvseke 47
                             fPil+i+++ i S  +d++  fe+e P +  v ++e
  PHY93_20925|PHY93_20925  3 FPILEINEGKITSIRGDVSKMFEIETPDLSQVGDAE 38
                             9***************************99988877 PP

>> APS_kinase  Adenylylsulphate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   9.2e-06     0.011       4      38 ..     305     340 ..     303     355 .. 0.88

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 9.2e-06
                              EEEEESSTTSSHHHHHHHHHHHHHHTT--EEEEE.H CS
               APS_kinase   4 vvwltGlsgsGKstianalekkLvekgisvylLd.G 38 
                               +++tG sg GKs ian++ k  ve+g++v++Ld G
  PHY93_20925|PHY93_20925 305 NLLITGTSGQGKSMIANKIIKDEVERGRKVVILDlG 340
                              5899*****************************944 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.8   0.0    0.0004      0.48       2      22 ..     307     327 ..     306     355 .. 0.83
   2 ?    2.8   0.0      0.13   1.5e+02      42      71 ..     463     491 ..     461     506 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.0004
             RNA_helicase   2 wlyGpsgeGKStlakeLakal 22 
                              +++G sg+GKS++a++++k+ 
  PHY93_20925|PHY93_20925 307 LITGTSGQGKSMIANKIIKDE 327
                              799*************99875 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.13
             RNA_helicase  42 dfwdgYtgqevvvidDfgqvkdeenpsdla 71 
                              +++++ +gq++ v+d+  q  ++ n + +a
  PHY93_20925|PHY93_20925 463 EYFKNIEGQKIFVFDECWQLLTK-NADYVA 491
                              79999*************99877.444444 PP

>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   3.9e-05     0.047      32      65 ..     306     339 ..     285     349 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 3.9e-05
                              EEEEE-TTSSHHHHHHHHHHHHHCTT--EEEEEE CS
                     MeaB  32 vGltGvPGaGkstlvealglelrrrGkrvavlav 65 
                              + +tG+ G Gks + ++++   ++rG++v +l +
  PHY93_20925|PHY93_20925 306 LLITGTSGQGKSMIANKIIKDEVERGRKVVILDL 339
                              669**************************99966 PP

>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   5.8e-05     0.069      22      55 ..     306     338 ..     295     355 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 5.8e-05
                   ATPase  22 vlitGepGtGKtifalqFlikgaekygepgvfvt 55 
                               litG++G+GK+++a + +   +e+ g+++v+  
  PHY93_20925|PHY93_20925 306 LLITGTSGQGKSMIANKIIKDEVER-GRKVVILD 338
                              69********************999.***99865 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   0.00011      0.13      49      80 ..     305     336 ..     300     363 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00011
                IstB_IS21  49 nivllGpsGvGKshlaialgveavraglsvlf 80 
                              n++++G sG GKs +a  + ++ v++g +v+ 
  PHY93_20925|PHY93_20925 305 NLLITGTSGQGKSMIANKIIKDEVERGRKVVI 336
                              99***************************975 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1   0.00017       0.2       7      38 ..     292     319 ..     288     322 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00017
                   AAA_29   7 vNWgtfdghtieidlkgatlltGpsGsGKSTl 38 
                              +N   fd+  i+++     l+tG+sG GKS +
  PHY93_20925|PHY93_20925 292 INFNLFDDGAINFN----LLITGTSGQGKSMI 319
                              67777888778886....9***********76 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   0.00029      0.35       8      51 ..     306     343 ..     305     353 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00029
                   AAA_22   8 lvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsst 51 
                              l++tG sG GK++ ++++ +  +e+      +++vv  +l +s 
  PHY93_20925|PHY93_20925 306 LLITGTSGQGKSMIANKIIKDEVER------GRKVVILDLGNSF 343
                              79****************9998876......7777777776665 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.1   0.00033      0.39       8      48 ..     292     329 ..     286     337 .. 0.78
   2 ?   -2.1   0.0       1.4   1.7e+03     158     171 ..     473     486 ..     468     495 .. 0.77

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00033
                              HHHHHHCTTTSCSEEEEEEESTTSSHHHHHHHHCCSHCCCC CS
                   NB-ARC   8 viekLlekdelqslvvalvGmgGvGKttlakqilnksdeve 48 
                              +  +L+  + ++ + + + G  G GK+ +a++i+++  eve
  PHY93_20925|PHY93_20925 292 INFNLFDDGAIN-FNLLITGTSGQGKSMIANKIIKD--EVE 329
                              555677555555.8899******************9..555 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 1.4
                              S--HHHHHHHHHHC CS
                   NB-ARC 158 lLekdeawellenk 171
                              ++  de+w+ll + 
  PHY93_20925|PHY93_20925 473 IFVFDECWQLLTKN 486
                              55568899998775 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0   0.00025       0.3      22      42 ..     303     323 ..     299     326 .. 0.89

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00025
             Mg_chelatase  22 gHnlllvGppGsGKtmlakrl 42 
                              + nll++G++G GK+m+a+++
  PHY93_20925|PHY93_20925 303 NFNLLITGTSGQGKSMIANKI 323
                              579***************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (532 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       748  (0.0417201); expected 358.6 (0.02)
Passed bias filter:                      573  (0.0319594); expected 358.6 (0.02)
Passed Vit filter:                        95  (0.00529868); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.67u 0.30s 00:00:00.97 Elapsed: 00:00:00.47
# Mc/sec: 3400.73
//
Query:       PHY93_20930|PHY93_20930  [L=291]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0089   16.3   0.0      0.016   15.4   0.0    1.3  1  MAP17            Membrane-associated protein 117 kDa, PDZK1-i
  ------ inclusion threshold ------
      0.014   15.8   1.1      0.029   14.8   1.1    1.5  1  FeoB_associated  FeoB-associated Cys-rich membrane protein
      0.084   13.1   0.0       0.15   12.2   0.0    1.4  1  Pox_A28          Poxvirus A28 family


Domain annotation for each model (and alignments):
>> MAP17  Membrane-associated protein 117 kDa, PDZK1-interacting protein 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   2.7e-06     0.016      36     119 ..      10      94 ..       3      98 .. 0.73

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 2.7e-06
                    MAP17  36 iAvvgFLflvfvlllvnrvWcskaraedeeeetfrmeankeedvslskeekke..eekekkekkaakegrsneglele.enesede 118
                              i v++FL + +++ lv+    +k+ +++  + ++r  +++ +++s+++++  +  +++++ e+ +  +gr+++ +++e e+e+e++
  PHY93_20930|PHY93_20930  10 IIVAVFLAVCAIVSLVKNYREKKEYNRSFGKFSYRKDSSEGSQISSQGSS--SypSRSDESERINYLNGRDKLSEDVEpEEEPEED 93 
                              569**************988888555444444444444444444444444..44589999999***************99999887 PP

                    MAP17 119 e 119
                              e
  PHY93_20930|PHY93_20930  94 E 94 
                              7 PP

>> FeoB_associated  FeoB-associated Cys-rich membrane protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   1.1   4.8e-06     0.029       2      26 ..       5      30 ..       4      35 .. 0.74

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 4.8e-06
          FeoB_associated  2 tiIVgliiaa.avafvirrlikkkkk 26
                             +iI+g+i+a+ +++ +i++l+k+ ++
  PHY93_20930|PHY93_20930  5 WIIIGIIVAVfLAVCAIVSLVKNYRE 30
                             79999999964777779999988443 PP

>> Pox_A28  Poxvirus A28 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   2.6e-05      0.15       8      48 ..       6      46 ..       1      56 [. 0.85

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 2.6e-05
                  Pox_A28  8 livlataavcllllqlyaiyenydnikefndahsaleysks 48
                             +i+ + +av l +  + ++ +ny + ke+n  + ++ y k 
  PHY93_20930|PHY93_20930  6 IIIGIIVAVFLAVCAIVSLVKNYREKKEYNRSFGKFSYRKD 46
                             56667788999999999*********************985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (291 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       994  (0.0554409); expected 358.6 (0.02)
Passed bias filter:                      800  (0.0446204); expected 358.6 (0.02)
Passed Vit filter:                        86  (0.0047967); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.59u 0.29s 00:00:00.87 Elapsed: 00:00:00.48
# Mc/sec: 1836.16
//
Query:       PHY93_20935|PHY93_20935  [L=122]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (122 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       434  (0.0242066); expected 358.6 (0.02)
Passed bias filter:                      368  (0.0205254); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.42
# Mc/sec: 882.44
//
Query:       PHY93_20940|PHY93_20940  [L=105]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (105 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       253  (0.0141112); expected 358.6 (0.02)
Passed bias filter:                      235  (0.0131073); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.26s 00:00:00.68 Elapsed: 00:00:00.43
# Mc/sec: 733.08
//
Query:       PHY93_20945|PHY93_20945  [L=76]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (76 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       536  (0.0298957); expected 358.6 (0.02)
Passed bias filter:                      377  (0.0210274); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.26s 00:00:00.69 Elapsed: 00:00:00.44
# Mc/sec: 521.70
//
Query:       PHY93_17220|PHY93_17220  [L=68]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.9e-13   50.1   6.1    2.3e-13   49.8   6.1    1.1  1  CsbD      CsbD-like


Domain annotation for each model (and alignments):
>> CsbD  CsbD-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.8   6.1   1.3e-17   2.3e-13       2      48 ..       7      53 ..       6      58 .. 0.95

  Alignments for each domain:
  == domain 1  score: 49.8 bits;  conditional E-value: 1.3e-17
                     CsbD  2 kikgkaeqvkGkvKeaaGkaTgdekleaeGkadqlkGkaqqkygdak 48
                               kgk+ ++kG v++a+Gk+T+d+  + +G  ++ +G +qq+yg ++
  PHY93_17220|PHY93_17220  7 TTKGKWLEIKGDVQKAWGKLTDDDLEKSKGDMKKIAGLIQQRYGETQ 53
                             579*****************************************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (68 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       466  (0.0259914); expected 358.6 (0.02)
Passed bias filter:                      300  (0.0167327); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.25s 00:00:00.67 Elapsed: 00:00:00.43
# Mc/sec: 471.32
//
Query:       PHY93_20950|PHY93_20950  [L=116]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (116 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       429  (0.0239277); expected 358.6 (0.02)
Passed bias filter:                      388  (0.0216409); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.28s 00:00:00.72 Elapsed: 00:00:00.46
# Mc/sec: 764.50
//
Query:       PHY93_20955|PHY93_20955  [L=68]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (68 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       299  (0.0166769); expected 358.6 (0.02)
Passed bias filter:                      211  (0.0117686); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.25s 00:00:00.69 Elapsed: 00:00:00.44
# Mc/sec: 461.12
//
Query:       PHY93_20960|PHY93_20960  [L=288]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (288 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       275  (0.0153383); expected 358.6 (0.02)
Passed bias filter:                      140  (0.00780858); expected 358.6 (0.02)
Passed Vit filter:                         5  (0.000278878); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.43
# Mc/sec: 2003.73
//
Query:       PHY93_15795|PHY93_15795  [L=104]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (104 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       712  (0.0397122); expected 358.6 (0.02)
Passed bias filter:                      457  (0.0254894); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.24s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 755.26
//
Query:       PHY93_15800|PHY93_15800  [L=375]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.9e-19   69.7   0.0    5.7e-19   68.7   0.0    1.5  1  PseudoU_synth_2  RNA pseudouridylate synthase
    1.5e-11   43.8   0.7    5.5e-11   42.0   0.1    2.2  2  S4               S4 domain
  ------ inclusion threshold ------
      0.017   15.6   0.0      0.029   14.8   0.0    1.4  1  SUKH-3           SUKH-3 immunity protein
       0.07   12.9   0.1       0.24   11.2   0.1    1.9  1  S4_2             S4 domain


Domain annotation for each model (and alignments):
>> PseudoU_synth_2  RNA pseudouridylate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.7   0.0   1.3e-22   5.7e-19       2     160 .]      92     224 ..      91     224 .. 0.90

  Alignments for each domain:
  == domain 1  score: 68.7 bits;  conditional E-value: 1.3e-22
          PseudoU_synth_2   2 lvvvnKPagvpvqpeakdgsekekettatssraeeekkelklvhRLDkatsGllllAksseaanklakafeerkvrKkYlalvfga 87 
                              +++++KP g+ ++  +       ++++   +  +e ++++++v+RLD+ ++Glll+++++e+an  ++  ++ +v+K+Y + vf  
  PHY93_15800|PHY93_15800  92 YLMLHKPRGMMTTLND------PEGRETVMNLVKEISERIYPVGRLDYLSEGLLLMTNDGEFANMIMH--PKFNVTKVYEVKVF-- 167
                              899*************......6666666666778899******************************..*************9.. PP

          PseudoU_synth_2  88 peeeegaikkkiskdtekqegarrkaeeldgkkavtylkvlksgsseksakvslveleletGrkhQiRvhlaa 160
                                + + +i++k+++           a  ++g  + t ++v+k+       + +++e +l++Gr+++iR+ ++a
  PHY93_15800|PHY93_15800 168 -GSVTETIMNKLKA----------GAYLEEGLVKPTSVRVIKQL-----PTKTWIEFRLNEGRNREIRRLCEA 224
                              .5667778888888..........78999999999999999999.....999*****************9985 PP

>> S4  S4 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.0   0.1   1.2e-14   5.5e-11       1      47 [.      29      75 ..      29      76 .. 0.92
   2 ?   -1.6   0.1      0.52   2.3e+03      17      32 ..     216     231 ..     213     234 .. 0.85

  Alignments for each domain:
  == domain 1  score: 42.0 bits;  conditional E-value: 1.2e-14
                             EEHHHHHHHTTSSSSHHHHHHHHHTTTEEETTEEE--TT-EE-.TTCE CS
                       S4  1 rRLdkvlarlglassrreArqlIehGrVlVNGkvvkdpsyrVk.pgDv 47
                             +RL+k++a  g+ s rr+A+  I +GrV+VNG++vk  +++V+  +D+
  PHY93_15800|PHY93_15800 29 VRLQKFIADCGITS-RRKAEGYITQGRVTVNGEIVKELGTKVDpKNDI 75
                             6************9.****************************55554 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 0.52
                              HHHHHHHHTTTEEETT CS
                       S4  17 reArqlIehGrVlVNG 32 
                              re+r+l+e+ + +V++
  PHY93_15800|PHY93_15800 216 REIRRLCEAVGLTVDK 231
                              899****998888875 PP

>> SUKH-3  SUKH-3 immunity protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   0.0   6.5e-06     0.029      83     141 ..     104     179 ..      53     181 .. 0.77

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 6.5e-06
                   SUKH-3  83 a.......etlaeleealgeeliPiGseadg.eatlaidedGrvfaldhtg..........ewflGedidealnnLl 141
                              +       et+ +l++++ e+++P+G++    e +l+++ dG++     ++           +++G+  ++ +n+L 
  PHY93_15800|PHY93_15800 104 TlndpegrETVMNLVKEISERIYPVGRLDYLsEGLLLMTNDGEFANM-IMHpkfnvtkvyeVKVFGSVTETIMNKLK 179
                              144555558999****************6658**********98655.23333567778888889998888888886 PP

>> S4_2  S4 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.1   5.4e-05      0.24      25      56 ..      45      77 ..      27      83 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 5.4e-05
                     S4_2 25 eaKafiaegeVkvNGevetrRgkKlra.GdvVe 56
                             +a  +i++g V+vNGe+ ++ g K+ + +d++ 
  PHY93_15800|PHY93_15800 45 KAEGYITQGRVTVNGEIVKELGTKVDPkNDIIL 77
                             67789*******************986245555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (375 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       784  (0.043728); expected 358.6 (0.02)
Passed bias filter:                      457  (0.0254894); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.61u 0.25s 00:00:00.86 Elapsed: 00:00:00.47
# Mc/sec: 2375.97
//
Query:       PHY93_15805|PHY93_15805  [L=507]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.9e-48  163.1   0.1    7.3e-48  162.2   0.1    1.5  1  SMC_ScpB       Segregation and condensation complex subunit S
  ------ inclusion threshold ------
      0.081   12.8   0.1       0.21   11.4   0.1    1.7  1  Phi-29_GP16_7  Bacteriophage phi-29 early protein GP16.7


Domain annotation for each model (and alignments):
>> SMC_ScpB  Segregation and condensation complex subunit ScpB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  162.2   0.1   8.1e-52   7.3e-48       2     159 ..      91     249 ..      90     250 .. 0.97

  Alignments for each domain:
  == domain 1  score: 162.2 bits;  conditional E-value: 8.1e-52
                 SMC_ScpB   2 iiEAiLfvageplsleeLakilels..keeveealeeLkeeyeeedrglelvevaggyrlvtkpelaevvkklvkekkktrLsqaa 85 
                              +iE i+f+ ++p+s+++++++++ +   + ++e l++L++eyee+++gl+l eva+gy+ +tk+ ++++v++++k  ++  Ls  a
  PHY93_15805|PHY93_15805  91 AIETIIFMNDKPVSIQKIKALIDEDmpLKVIHESLQRLQAEYEEKHHGLRLLEVAEGYQYRTKATYSKYVQDIFKI-NSLVLSPTA 175
                              69********************855669************************************************.999****** PP

                 SMC_ScpB  86 letLaiIaykqpvtraeieeiRGvnsdsvvrtLlerglieekgrkeepgrpilYgtTekFleyfglksleeLpk 159
                              le+Lai aykqpv++ e+++iRGv+s ++vr L++++l++++gr++e grp+lYgtT++Fle f+l +l+ Lp+
  PHY93_15805|PHY93_15805 176 LEVLAILAYKQPVSKVEVDKIRGVDSGHIVRALMDKRLVRVVGRSDELGRPVLYGTTNEFLEVFNLPELAALPP 249
                              ************************************************************************96 PP

>> Phi-29_GP16_7  Bacteriophage phi-29 early protein GP16.7
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1   2.4e-05      0.21      53     108 ..     291     347 ..     272     355 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 2.4e-05
                              XXXXXXXXX..XSSXSSS-HHHHHHHHHHHHTT----HHHHHHHHTT--SSHHHHHHH CS
            Phi-29_GP16_7  53 lnevisnrs..idktvnlsacevavldlyeqsniripsdiiedlvnqrlqseqevlny 108
                              l e i n s   d t  l   e   l   + s+i+   d++e++vn+rl seq+ l +
  PHY93_15805|PHY93_15805 291 LSESIKNISseTDFTASLKIEEKKRLS-SDGSEIKSAFDLLEEFVNKRLISEQNKLAF 347
                              444454444114566666666666664.57899********************99987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (507 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       822  (0.0458475); expected 358.6 (0.02)
Passed bias filter:                      504  (0.0281109); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.64u 0.26s 00:00:00.90 Elapsed: 00:00:00.45
# Mc/sec: 3365.07
//
Query:       PHY93_15810|PHY93_15810  [L=346]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.8e-18   65.7   8.0    9.7e-18   65.0   8.0    1.3  1  SMC_ScpA  Segregation and condensation protein ScpA


Domain annotation for each model (and alignments):
>> SMC_ScpA  Segregation and condensation protein ScpA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.0   8.0   5.4e-22   9.7e-18       1     240 [.      23     252 ..      23     253 .. 0.86

  Alignments for each domain:
  == domain 1  score: 65.0 bits;  conditional E-value: 5.4e-22
                              HHHHHHHHHTSSSSXXXXHHHHHHHHHH.HHHHHHHHHHHHHHHHHHHHHHHHHSXXXXXXXXXXXXXXXXXXX..XXXXXXXXXX CS
                 SMC_ScpA   1 LiiakeldvtdvavakvtdqflayiktllnkleleesteylviastlvelKaasLlpleqveeeedeeleleel..rdkLiarLle 84 
                              Li ++e+++ + ++  +t q+l+y+  + + l+ + +++yl +astl+ lK++     e+ ++e d+ +e + +  + +Li rL e
  PHY93_15810|PHY93_15810  23 LIEKEEMNIRELDLTRITKQYLEYLAQM-RDLNFDVAGDYLFLASTLLLLKSKICITEEEANLELDLGIEGLHItsQSELIRRLEE 107
                              78899***********************.**************************************999876522789******* PP

                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX...HHHHHHHHHHHH CS
                 SMC_ScpA  85 Yrkykeeaklfkeleaerlksfskarsdleefikeveevavkieksvfklieafnkllkrakivalaekqiseleisieeqleell 170
                               + y++  k + el ++  + f k+r+d +  ++ +   +++++   + +   f ++ +r+ +v  ++      ++si+e+   l+
  PHY93_15810|PHY93_15810 108 LQLYQKMSKRLWELDKKGHQIFLKPRVDRKAIVNSILT-PMDLNSLTMTM-VDFLFRQRRKYTVVKRD------RLSIKEK---LI 182
                              ***************9*9**************999975.56676654444.46778888886776666......4688876...56 PP

                              ...............HHHTS-EEGGGSSTT............--HHH.HHHHHHHHHHHHHTT-EEEEESSTTS-EEEEE CS
                 SMC_ScpA 171 aqleqflqarlkevLldlrswvdlseLladn.........kledkke.lvgvFlAlLeLiknqavaleQeeflddLqvsl 240
                                   fl++ lk     +++ + +++Ll+ n         +++d+ + +v +F+ lLeL + + +++ Q+e  + ++v +
  PHY93_15810|PHY93_15810 183 -----FLKTNLK-----VGEQTTFDTLLELNgqpevsesgEVKDPTDnIVITFISLLELARLKRINVFQNEDRSTIYVNV 252
                              .....7788887.....76688888888888888888888667766527889*************************976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (346 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       479  (0.0267165); expected 358.6 (0.02)
Passed bias filter:                      306  (0.0170673); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.23s 00:00:00.79 Elapsed: 00:00:00.46
# Mc/sec: 2279.38
//
Query:       PHY93_15815|PHY93_15815  [L=227]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    7.8e-11   41.7   9.6    8.4e-08   31.8   0.5    3.0  2  Peptidase_M50  Peptidase family M50
  ------ inclusion threshold ------
      0.064   13.5   0.2      0.064   13.5   0.2    1.8  2  DUF1269        Protein of unknown function (DUF1269)
       0.19   11.6   0.0       0.26   11.2   0.0    1.2  1  Amidase_5      Bacteriophage peptidoglycan hydrolase


Domain annotation for each model (and alignments):
>> Peptidase_M50  Peptidase family M50
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.6   3.3   4.2e-05      0.25       6     107 ..      20     122 ..      16     135 .. 0.68
   2 !   31.8   0.5   1.4e-11   8.4e-08     187     248 ..     140     196 ..     127     201 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 4.2e-05
                              XXXXXXXXXXXXXXXXXXXXXXXXXXX..XXXXXXXXXXXXXXXXXXXXXXX..XX.XXXXXXXXXXXXXXXXX....XXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxx..xx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M50   6 lgilvvvHElGHflvAklcgvkveefs..igfGpkllsfkkgeteYaiallp..LG.GyVkmageepeeelseeeakaflkkspwq 86 
                              +++ +v HE +H+++A ++g    ++   + + p +     g + + ++     +G G   m+g+    ++ + ++++f++ +   
  PHY93_15815|PHY93_15815  20 FLLAIVCHEAAHAWMASRFGDPTAKMQgrLTLNPAVHYDLMGTVIFPLIGAAmsVGsGGGAMFGWA---KPVPVDSRRFKNIRA-G 101
                              678899**************9888754114444444333344444433322233221123677777...667788888999886.5 PP

                              XXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M50  87 rllivlAGplanfilailvfv 107
                               + + +AGplan++l il ++
  PHY93_15815|PHY93_15815 102 IFWVSFAGPLANVVLMILSAL 122
                              6999***********998765 PP

  == domain 2  score: 31.8 bits;  conditional E-value: 1.4e-11
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M50 187 glssflqllalisvnLgilNLlPipvLDGghllfalleairrkplserkeevanlvglalll 248
                               + s+l+  + i+v L+++NL+P+p+LDG ++++a+l+  +     +rk e ++++++++++
  PHY93_15815|PHY93_15815 140 IFMSMLKQSVTINVLLAVFNLIPFPPLDGSKMVSAMLDYNA-----ARKFEELQRFSFVFIF 196
                              4668899999***************************9888.....3333333344443333 PP

>> DUF1269  Protein of unknown function (DUF1269)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.2   1.1e-05     0.064      10      50 ..      59     100 ..      51     115 .. 0.87
   2 ?   -3.9   0.2         3   1.8e+04      13      23 ..     197     207 ..     194     209 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 1.1e-05
                  DUF1269  10 lvGllflnPllG..aavGAaaGAlvgalsdvgidddflkelge 50 
                              l+G+++  Pl+G  + vG + GA+ g ++ v +d++  k++++
  PHY93_15815|PHY93_15815  59 LMGTVI-FPLIGaaMSVGSGGGAMFGWAKPVPVDSRRFKNIRA 100
                              778766.6****55559*******************9999986 PP

  == domain 2  score: -3.9 bits;  conditional E-value: 3
                  DUF1269  13 llflnPllGaa 23 
                              +l+l P+lG +
  PHY93_15815|PHY93_15815 197 ILILTPVLGYI 207
                              57889999964 PP

>> Amidase_5  Bacteriophage peptidoglycan hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   4.4e-05      0.26       2      49 ..      27      76 ..      26     103 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 4.4e-05
                Amidase_5  2 ieaaiawlearkGkvtysmdarlGPn...sydcsssvyfaliaaGalsaGs 49
                             +eaa aw+++r G  t  m+ rl  n    yd   +v f li a ++  Gs
  PHY93_15815|PHY93_15815 27 HEAAHAWMASRFGDPTAKMQGRLTLNpavHYDLMGTVIFPLIGAAMS-VGS 76
                             78999*****************87553346***********987654.444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (227 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       642  (0.0358079); expected 358.6 (0.02)
Passed bias filter:                      292  (0.0162865); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.25s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 1509.70
//
Query:       PHY93_15820|PHY93_15820  [L=133]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.1e-15   56.9   0.0    2.6e-15   56.6   0.0    1.0  1  NUDIX     NUDIX domain


Domain annotation for each model (and alignments):
>> NUDIX  NUDIX domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.6   0.0   1.4e-19   2.6e-15      13     118 ..      15     115 ..       6     129 .. 0.81

  Alignments for each domain:
  == domain 1  score: 56.6 bits;  conditional E-value: 1.4e-19
                              TTSEEEEEEESSSSTTTEESSEEECBTTSHHHHHHHHHHHHHHSEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEECSGCSS CS
                    NUDIX  13 ekgevLlvrrskkpfpgWelPgGkvepgEtpeeAArREleEEtGleaellellgrlhylapydgpygdeheilyvfleevegelep 98 
                               ++++Ll++ +k +  g++ + G ve++Et+ eAArREl EE+ +      +++ +h+++ +++++gd+ e   vfl+ ++  +  
  PHY93_15820|PHY93_15820  15 AQNQLLLLQFAKIHNEGFQNITGSVEYDETFMEAARRELLEEISVAS---PVID-IHHEFHFHDRWGDDVEE-KVFLCLLNKIPII 95 
                              45569999988888888***************************955...4444.6668889999**74444.4889999****** PP

                              TSTTTEEEEEEEEHHHHHHH CS
                    NUDIX  99 ndenevsevrwvpleellke 118
                              + ++e+++++w+p+e + ++
  PHY93_15820|PHY93_15820  96 TLSEEHQSFKWIPIENVTPA 115
                              ***************99443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (133 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       317  (0.0176809); expected 358.6 (0.02)
Passed bias filter:                      257  (0.0143343); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.43
# Mc/sec: 932.33
//
Query:       PHY93_17225|PHY93_17225  [L=190]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    2.4e-05   24.6   1.0    2.4e-05   24.6   1.0    2.0  3  OmpA        OmpA family
    3.1e-05   23.8   1.0      5e-05   23.1   0.8    1.4  1  Pilus_CpaD  Pilus biogenesis CpaD protein (pilus_cpaD)


Domain annotation for each model (and alignments):
>> OmpA  OmpA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.1      0.98   8.8e+03      76      79 ..      34      38 ..      22      54 .. 0.44
   2 !   24.6   1.0   2.7e-09   2.4e-05       2      69 ..      60     137 ..      59     158 .. 0.82
   3 ?   -1.4   0.0      0.34   3.1e+03       2      25 ..     152     176 ..     151     188 .. 0.67

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 0.98
                             -TT.- CS
                     OmpA 76 yGa.e 79
                             y + +
  PHY93_17225|PHY93_17225 34 YEEaK 38
                             33321 PP

  == domain 2  score: 24.6 bits;  conditional E-value: 2.7e-09
                              B-TTS--B-GGGHHHHHHHHHHHH..S-S--EEEEE---S---HHH.......HHHHHHHHHHHHHHHHHH.TTSSGG CS
                     OmpA   2 FapgsseLtpkaksaldkiaellk..kpeqkitveGhtdaagseer.......nweLSqkRAeaVanylqn.egvpps 69 
                              F+ gss+L+++ak+ l+++ +  +   + + ++v   +d++  +++       + +L+++R +++++yl++ + v+ +
  PHY93_17225|PHY93_17225  60 FNEGSSNLSDSAKDSLRSVLSEARreGKVDEVIVLSWADENYPSKEvkklskeQRDLANQRNKNIKEYLKMmRDVDVN 137
                              9****************99998885444455******9995555555666666*****************97877755 PP

  == domain 3  score: -1.4 bits;  conditional E-value: 0.34
                              B-TTS--B.-GGGHHHHHHHHHHHH CS
                     OmpA   2 FapgsseL.tpkaksaldkiaellk 25 
                              F++ +seL +  ++  l+++a+   
  PHY93_17225|PHY93_17225 152 FNTADSELkSSMIEAGLSTTADKAD 176
                              8888888844667777777777665 PP

>> Pilus_CpaD  Pilus biogenesis CpaD protein (pilus_cpaD)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.1   0.8   5.6e-09     5e-05       4     104 ..      13     120 ..      11     144 .. 0.77

  Alignments for each domain:
  == domain 1  score: 23.1 bits;  conditional E-value: 5.6e-09
               Pilus_CpaD   4 lalllagCastaasnrettgsi...dyrsrhpivvee..aeasldlkvasgdggLtaaqrarlealaeeyrrega..gaivisvps 82 
                              + ll+agC+++++ ++++++s      r + + + +e  a++ +++k+++g+++L++++++ l+++++e rreg+  ++iv+s   
  PHY93_17225|PHY93_17225  13 AFLLVAGCSHEKKVSQSEAKSYeeaKSRVTTETTASEagAKNYVEIKFNEGSSNLSDSAKDSLRSVLSEARREGKvdEVIVLSWAD 98 
                              56899*****99997665555553423333333333311345699****************************7533899999999 PP

               Pilus_CpaD  83 gssneaaaaaaaaeiravlaaa 104
                              ++  +++++++ +e r++++++
  PHY93_17225|PHY93_17225  99 ENYPSKEVKKLSKEQRDLANQR 120
                              9999999999999999988776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (190 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1744  (0.0972726); expected 358.6 (0.02)
Passed bias filter:                      639  (0.0356406); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.25s 00:00:00.79 Elapsed: 00:00:00.45
# Mc/sec: 1261.46
//
Query:       PHY93_15825|PHY93_15825  [L=293]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.07   12.6   0.0        0.1   12.0   0.0    1.2  1  RecT      RecT family


Domain annotation for each model (and alignments):
>> RecT  RecT family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   5.8e-06       0.1      27      86 ..      50     106 ..      35     125 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 5.8e-06
                     RecT  27 aalmqaaqlgLnPfkkqaYlvpykgkgkgeaqlivgykgfiklakrsgqyagieaevvye 86 
                              +  + a++l LnP+ +  + v     ++g +q +v   g++++a++     gi+ae vy 
  PHY93_15825|PHY93_15825  50 SKGIYAKVLELNPNRRDLFNVYD---KNGVIQYQVTAVGLVEIAEEIKILPGIDAEKVYP 106
                              555789***************66...99****************************9997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (293 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       440  (0.0245412); expected 358.6 (0.02)
Passed bias filter:                      358  (0.0199677); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.47
# Mc/sec: 1884.80
//
Query:       PHY93_15830|PHY93_15830  [L=324]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (324 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       410  (0.022868); expected 358.6 (0.02)
Passed bias filter:                      316  (0.0176251); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.44
# Mc/sec: 2221.89
//
Query:       PHY93_15835|PHY93_15835  [L=72]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (72 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       444  (0.0247643); expected 358.6 (0.02)
Passed bias filter:                      361  (0.020135); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.27s 00:00:00.66 Elapsed: 00:00:00.42
# Mc/sec: 510.64
//
Query:       PHY93_15840|PHY93_15840  [L=62]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (62 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1071  (0.0597356); expected 358.6 (0.02)
Passed bias filter:                      537  (0.0299515); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.44
# Mc/sec: 423.17
//
Query:       PHY93_15845|PHY93_15845  [L=372]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.8e-76  255.7   0.0    9.5e-76  255.4   0.0    1.0  1  DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
    9.5e-06   25.0   0.1    1.9e-05   24.0   0.0    1.6  2  Aminotran_1_2    Aminotransferase class I and II
    0.00015   20.9   0.1    0.00024   20.2   0.1    1.2  1  Aminotran_5      Aminotransferase class-V
  ------ inclusion threshold ------
      0.038   14.3   0.0        9.2    6.7   0.0    2.3  2  HHH_7            Helix-hairpin-helix motif


Domain annotation for each model (and alignments):
>> DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  255.4   0.0   2.1e-79   9.5e-76      13     361 .]      29     369 ..      19     369 .. 0.94

  Alignments for each domain:
  == domain 1  score: 255.4 bits;  conditional E-value: 2.1e-79
                              HHTSS-SSSSHHHHHHHHHHHHHHT-SEEEEESSHHHHHHHHHHHTTTTTT-EEEEESSS-THHHHHHHHTT-EEEEE-B-TTTSS CS
          DegT_DnrJ_EryC1  13 vlksgwltsgpeveeFEkafaaylgvkhaiavssGtaAlhlaLralgvgpgdeVIvpsltFvatanavlelgakpvfvDvdpdtyn 98 
                              + +  ++   p ++e E+++ +y+++k+ai++++Gt+A+++aLra+gv+++d V+vp +tF at +av+++ga+p+ vDv+++t+ 
  PHY93_15845|PHY93_15845  29 LFEKTQFVGAPVIAEMEAELVNYTKAKYAIGCANGTDAIQIALRAVGVEKNDRVLVPDMTFWATFEAVVNVGANPITVDVNRETCH 114
                              55566667778899************************************************************************ PP

                              B-GGGCGGG--TTE.EEEEEB-GGGB--.-HHHHHHHHHHCT-EEEEE-TT-TT-EETTEECCCSSSEEEEE-BTTSSS.-SSS-E CS
          DegT_DnrJ_EryC1  99 idpaaieaaitert.kaIlpVhlyGqva.dmdalkaiaakhglkvieDaAhAlGatykgkkvGalgdaavfSFyptKnl.ttGeGG 181
                               d ++ ++a+te   ka ++VhlyG ++ +  +++++a++ ++ ++eD A+ +G++++g+++ a + +++ SFyp+K+l + G++G
  PHY93_15845|PHY93_15845 115 WDLETFKKAVTEFKpKAAVMVHLYGWASpETLEIRKYAKENNVLLVEDGAQCFGTEINGEPILAGALISTTSFYPAKVLgASGDAG 200
                              ************988***********9999******************************************************** PP

                              EEEESTHHHHHHHHHHHBTTCECCTCSSCECCSS---B-B-BHHHHHHHHHHHCTHHHHHHHHHHHHHHHHHHHHTCCCCEESCGG CS
          DegT_DnrJ_EryC1 182 avvtndeelaekarvlrnhGlkrkaekryvgevelGynyrlteiqAAiglaqLerldelvarRreiaelykeeLaelegtaelttp 267
                              av+tnde+l + +r+l nhG+     + y + + +G n+r+   ++  +   Le+++  +++Rr+++++y+e+L++l+   ++t++
  PHY93_15845|PHY93_15845 201 AVFTNDEKLNQACRILINHGRT----DHYSHGM-IGWNSRIGAYESLFLKLSLEHINARLESRRNAVKYYTEALQGLPF-KPVTAK 280
                              ********************88....9******.********************************************5.466666 PP

                              TTSSSEEESCEEEEEHCCHHHCHHHHHHHHHHCCEE-B-SGSCHGGGSCCHHHHHHCCCHC-HHHHHHHHHEEEEEGGTTGSHHHH CS
          DegT_DnrJ_EryC1 268 ketkkhawhlyavlveeeaevkrdelvealkeegigtrvhypnplhrqpvyaerkeeasgdlpnaerlaervlsLplypelteedv 353
                               + k ++ ++ + +v+      r +l+e lk+++ig  ++yp ++++q   +    + s d+ na+++++ vl+Lp+   +t+e++
  PHY93_15845|PHY93_15845 281 SNIK-ENGYCAVGMVDPA---LRPALIETLKKANIGYGTIYPGAMSLQGGAKGHM-VGSIDYGNAHHISQAVLNLPCFAYITNEEL 361
                              6665.7899999999987...89******************98999888877775.6688************************** PP

                              HHHHHHHH CS
          DegT_DnrJ_EryC1 354 drVvealr 361
                              ++V++++r
  PHY93_15845|PHY93_15845 362 EYVCQTVR 369
                              ****9986 PP

>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.0   0.0   4.3e-09   1.9e-05      44     154 ..      39     136 ..      17     161 .. 0.88
   2 ?   -3.3   0.0      0.86   3.8e+03     347     362 ..     352     367 ..     352     368 .. 0.88

  Alignments for each domain:
  == domain 1  score: 24.0 bits;  conditional E-value: 4.3e-09
                              THHHHHHHHHHHHHCTCTTCHTTGGEGEEEESHHHHHHHHHHHHHHHTTT-EEEEEESS-THHHHHHHHTTSEEEEEEBEETTTTE CS
            Aminotran_1_2  44 dglpeleealakflgrseklklkreaavvvgsGagaliealifllklnpgdeilvpdptyasyknilrlsggevvryplyseedfh 129
                               + +e+e +l  + +        ++ a+ + +G++a++ al ++  +++ d++lvpd t+    +++ + g+  +++ ++  e++h
  PHY93_15845|PHY93_15845  39 PVIAEMEAELVNYTK--------AKYAIGCANGTDAIQIALRAVG-VEKNDRVLVPDMTFWATFEAVVNVGANPITVDVN-RETCH 114
                              447788888888888........7779******************.9*************99999*************77.9**** PP

                              E-HHHHHHHHTTHHCTTETEEEEEE CS
            Aminotran_1_2 130 ldlealeealkeapegnkktkvilv 154
                               dle +++a++e++++ +   v+++
  PHY93_15845|PHY93_15845 115 WDLETFKKAVTEFKPKAA---VMVH 136
                              ************988877...7766 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 0.86
                              ECTTS-HHHHHHHHHH CS
            Aminotran_1_2 347 tvAglteeeleelvea 362
                              ++A  t+eele++++ 
  PHY93_15845|PHY93_15845 352 CFAYITNEELEYVCQT 367
                              77999*********86 PP

>> Aminotran_5  Aminotransferase class-V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.2   0.1   5.4e-08   0.00024      53     181 ..      46     168 ..      41     174 .. 0.83

  Alignments for each domain:
  == domain 1  score: 20.2 bits;  conditional E-value: 5.4e-08
                              HHHHT-STGGGEEEESSHHHHHHHHHHHCCCC-TTTSEEEEETTSHGGGTHHHHHHHHHHTEEEEEEEBETTSCBEGGGHHHH--. CS
              Aminotran_5  53 aelinaeseeeiiftsGtteainlvalslarslkpgdeivvteaehhanlvpwqelakrtgakvkvipldeegeldldeleklln. 137
                              ael+n ++++  i + ++t+ai++++++++  +++ d+++v ++  +a++ + +++  +  ++v+v    e+ + dl++++k+++ 
  PHY93_15845|PHY93_15845  46 AELVNYTKAKYAIGCANGTDAIQIALRAVG--VEKNDRVLVPDMTFWATFEAVVNVG-ANPITVDVN--RETCHWDLETFKKAVTe 126
                              78899999999999***************5..9*****************9999998.445555554..45677788899988873 PP

                              TTEEEEEEESBETTTTE.B--HHHHHHHHHHTT-EEEEE-TTTTT CS
              Aminotran_5 138 ektklvaithvsnvtGt.iqpveeigklakkkgalvlvDaaqavg 181
                               k+k+  + h     G    ++ ei k+ak++++l++ D+aq +g
  PHY93_15845|PHY93_15845 127 FKPKAAVMVH---LYGWaSPETLEIRKYAKENNVLLVEDGAQCFG 168
                              4666666666...4788567789*******************887 PP

>> HHH_7  Helix-hairpin-helix motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.2   0.0    0.0058        26       9      60 ..      77     129 ..      70     149 .. 0.78
   2 ?    6.7   0.0    0.0021       9.2      37      84 ..     215     262 ..     204     267 .. 0.91

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.0058
                              -TTGGGS-HHHHHHHHHHHHHHH.HHHH-EEHHHHCT-HHHHGGGGGSTT--H CS
                    HHH_7   9 hPlqellskeellkaletalvdi.vnlvgvdvnkavankyeaallkyiaGlGp 60 
                              +     l+++  ++a   a+v++ +n ++vdvn+ + +   ++  k ++ + p
  PHY93_15845|PHY93_15845  77 EKNDRVLVPDMTFWATFEAVVNVgANPITVDVNRETCHWDLETFKKAVTEFKP 129
                              55667899999999999999*984689*******9988666666666666555 PP

  == domain 2  score: 6.7 bits;  conditional E-value: 0.0021
                              EEHHHHCT-HHHHGGGGGSTT--HHHHHHHHHHHHHC-S----TTHHH CS
                    HHH_7  37 vdvnkavankyeaallkyiaGlGprkatdllkklkrlnerlearsqli 84 
                              + +n+  +++y+  ++ + + +G   +  l  +l++ n rle+r + +
  PHY93_15845|PHY93_15845 215 ILINHGRTDHYSHGMIGWNSRIGAYESLFLKLSLEHINARLESRRNAV 262
                              6799999********************99999************9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (372 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       412  (0.0229795); expected 358.6 (0.02)
Passed bias filter:                      393  (0.0219198); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.60u 0.24s 00:00:00.84 Elapsed: 00:00:00.47
# Mc/sec: 2403.91
//
Query:       PHY93_15850|PHY93_15850  [L=280]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (280 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       622  (0.0346924); expected 358.6 (0.02)
Passed bias filter:                      398  (0.0221987); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.26s 00:00:00.78 Elapsed: 00:00:00.45
# Mc/sec: 1872.66
//
Query:       PHY93_15855|PHY93_15855  [L=229]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.5e-38  130.1   0.0    6.4e-38  129.9   0.0    1.1  1  Methyltransf_4   Putative methyltransferase
    0.00098   18.5   0.0     0.0024   17.2   0.0    1.6  2  GidB             rRNA small subunit methyltransferase G
     0.0016   19.1   0.0     0.0027   18.4   0.0    1.4  1  Methyltransf_25  Methyltransferase domain
     0.0098   16.6   0.0      0.047   14.4   0.0    1.9  1  Methyltransf_12  Methyltransferase domain
  ------ inclusion threshold ------
      0.033   14.8   0.0      0.061   14.0   0.0    1.5  1  Methyltransf_11  Methyltransferase domain
      0.083   12.7   0.0       0.13   12.0   0.0    1.4  1  Methyltransf_31  Methyltransferase domain


Domain annotation for each model (and alignments):
>> Methyltransf_4  Putative methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  129.9   0.0   2.1e-41   6.4e-38       3     167 ..      52     217 ..      50     223 .. 0.89

  Alignments for each domain:
  == domain 1  score: 129.9 bits;  conditional E-value: 2.1e-41
                              EEEEEET-TTSHHHHHHHHHSTTSEEEEEES-HHHHHHHHHHHHHCTTSSEEEEES-CCCHHHHCS-TTSEEEEEEES-----SGG CS
           Methyltransf_4   3 pvvleiGcGkGeflvalAkknPdknflGiEirvkvvakvlkkiealelkNlrilrgdalkvllelledgslekifilFPDPwfKkr 88 
                               ++leiG+G G+f+++   ++P+ nf+G++ r+k++ ++ kk +al+lkN+r+lr    + ++ ++ +++l++if +FPDPw+K++
  PHY93_15855|PHY93_15855  52 NLFLEIGTGAGHFMIDYCVDHPNDNFVGLDYRFKRSFYLAKKLAALDLKNFRYLRAKG-ERIEFMFGENELDGIFYFFPDPWPKTK 136
                              689******************************************************9.9999*********************** PP

                              GGGGSTTSHHHHHHHHHHEEEEEEEEEEESHHHHHHHHHHHHHCSTTEEESSCCCSCC.TCHCHHC.CCSSTTCCCCCCTT CS
           Methyltransf_4  89 hhKrRllqpellkelarvLkkgGvlelaTDveeyaeemlkvleeeplferlskeeele.eeplsvl.riatkyeqkvqskg 167
                              h+K+Rl+q+++lk + ++Lk+g++++++TD+ +ya +m  ++++  lf +l ++++l  ++p + l + +t +e+ + ++g
  PHY93_15855|PHY93_15855 137 HNKKRLIQEHFLKSAYSALKPGAIFYIKTDHDDYAAWMEREIKKCGLFDILLESKDLRlDHPEHLLsKYTTGFERIFLEQG 217
                              **************************************************9888776425555443134455666666665 PP

>> GidB  rRNA small subunit methyltransferase G
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.0   8.1e-07    0.0024      43     109 ..      45     111 ..      38     126 .. 0.85
   2 ?   -2.0   0.0      0.64   1.9e+03      26      39 ..     138     151 ..     135     180 .. 0.75

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 8.1e-07
                              GCS-CCC-.EEEETSTTTTTHHHHHHH-TTSEEEEEES-HHHHHHHHHHHHHCT-SSEEEEES-CCC CS
                     GidB  43 ellkekrdkviDvGsGaGlPGipLaiarpelkltLleslekkiaFLeevkeelklenveivearaee 109
                              e++k++ + ++ +G+GaG   i   + +p+ +++ l+ + k+  +L++  ++l+l+n ++++a+ e 
  PHY93_15855|PHY93_15855  45 EVFKRDGNLFLEIGTGAGHFMIDYCVDHPNDNFVGLDYRFKRSFYLAKKLAALDLKNFRYLRAKGER 111
                              567777755****************************************************987665 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.64
                              SHHHHHHHCHHHHH CS
                     GidB  26 epeellerhlldsl 39 
                              ++++l++ h+l s+
  PHY93_15855|PHY93_15855 138 NKKRLIQEHFLKSA 151
                              66777777777765 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0     9e-07    0.0027       2      96 ..      55     158 ..      54     158 .. 0.76

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 9e-07
                              EEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTT.TEEEEESBCCGBS..SSTTTEEEEEEEST.GG....G.SS CS
          Methyltransf_25   2 LdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeegl.nvefvqgdaedlp..fedgsfDlvvssga.lh....h.ls 78 
                              L++G+G G+++++     ++ +++g+D+  +   + ++++++ +l n+++++++ e+++  f +++ D ++ ++        h  +
  PHY93_15855|PHY93_15855  55 LEIGTGAGHFMIDYCVDHPNDNFVGLDYRFKRSFYLAKKLAALDLkNFRYLRAKGERIEfmFGENELDGIFYFFPdPWpktkHnKK 140
                              9********99998877679********988877777777777778***********9844699********65421122223122 PP

                              HHHHHHHHHHHHHHEEEE CS
          Methyltransf_25  79 dedlekalkeiarvLkpg 96 
                              +  +e++lk ++++Lkpg
  PHY93_15855|PHY93_15855 141 RLIQEHFLKSAYSALKPG 158
                              223477999999999998 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.0   1.6e-05     0.047       1      97 [.      55     159 ..      55     161 .. 0.79

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 1.6e-05
          Methyltransf_12   1 LeiGcGtGsllralleklpdieytgvDispsaiedakeklakrennnnnnvelealdlldldggssfDlvvasnvlhhl....... 79 
                              LeiG+G G+++   + ++p+ +++g+D+  +     ++kla+ + +n+  ++ + + ++  +g++  D ++ ++   +        
  PHY93_15855|PHY93_15855  55 LEIGTGAGHFMIDYCVDHPNDNFVGLDYRFKRSFYLAKKLAALDLKNFRYLRAKGERIEFMFGENELDGIFYFFPDPWPktkhnkk 140
                              8*********99999999*********97666668**********************99999999999998665444444444445 PP

          Methyltransf_12  80 kdir.evldnirklLkpgG 97 
                              + i+  +l++++++Lkpg+
  PHY93_15855|PHY93_15855 141 RLIQeHFLKSAYSALKPGA 159
                              4444566777777777776 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0     2e-05     0.061       1      96 []      55     163 ..      55     163 .. 0.79

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 2e-05
                              EEET-TTSHHHHHHH.HTT.SEEEEEES-HHHH.HHHHHHCCHHT-EEEETTEECCCTS..S-TT-EEEEEEES.....-CCC-.. CS
          Methyltransf_11   1 LdvGcGtGrlaeala.krg.arvvgvDlskeml.klakekaseeglkvefvvadaeklp..fednsfDlvvsse.....vlhhv.. 74 
                              L++G+G+G ++ ++  ++   + vg+D+  +    lak+ a  +  ++++++a  e++   f +n  D ++ ++        h   
  PHY93_15855|PHY93_15855  55 LEIGTGAGHFMIDYCvDHPnDNFVGLDYRFKRSfYLAKKLAALDLKNFRYLRAKGERIEfmFGENELDGIFYFFpdpwpKTKHNkk 140
                              89******9999988655589******987777356666655555599********86444************9888884555433 PP

                              .CCHHHHHHHHHHHEEEEEEEEE CS
          Methyltransf_11  75 .edpekalkeiaRvLkpgGllvi 96 
                                 +e++lk ++  Lkpg +++i
  PHY93_15855|PHY93_15855 141 rLIQEHFLKSAYSALKPGAIFYI 163
                              336899************99986 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   4.4e-05      0.13       4     111 ..      51     165 ..      48     204 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 4.4e-05
          Methyltransf_31   4 glrvlDlGCGtGeltfelaeelgpkaevvGiDis.eeaielArenaqklgldnveFeqgdieeleklledekfDlilsn......e 82 
                              g+ +l++G+G+G++ +       p+ ++vG+D+  +++  lA++ a+ l l+n++  ++  e +e  + ++  D i+ +       
  PHY93_15855|PHY93_15855  51 GNLFLEIGTGAGHFMIDYC-VDHPNDNFVGLDYRfKRSFYLAKKLAA-LDLKNFRYLRAKGERIEFMFGENELDGIFYFfpdpwpK 134
                              56689**************.9999********975889999999755.9999*999999999988558889999999886654442 PP

          Methyltransf_31  83 vl..naladpdkileeiervlkpggillied 111
                              +        ++ +l+++ ++lkpg i+ i +
  PHY93_15855|PHY93_15855 135 TKhnKKRLIQEHFLKSAYSALKPGAIFYIKT 165
                              2232333334556668888888888888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (229 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       328  (0.0182944); expected 358.6 (0.02)
Passed bias filter:                      279  (0.0155614); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.50u 0.25s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 1573.48
//
Query:       PHY93_15860|PHY93_15860  [L=648]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.5e-29  100.4   0.4    1.8e-28   99.1   0.4    1.7  1  Toprim_N  DNA primase catalytic core, N-terminal domain
    2.9e-28   97.5   0.1    1.1e-27   95.7   0.1    2.0  2  zf-CHC2   CHC2 zinc finger
      4e-14   52.9   0.3    1.5e-13   51.0   0.0    2.2  2  Toprim_4  Toprim domain
    4.9e-14   52.5   0.0    1.7e-13   50.8   0.0    2.0  1  Toprim_2  Toprim-like
    8.2e-07   29.3   0.0    1.6e-06   28.4   0.0    1.5  1  Toprim_3  Toprim domain
     0.0028   17.8   1.7      0.016   15.4   0.0    3.1  4  Toprim    Toprim domain
  ------ inclusion threshold ------
      0.045   13.7   2.4       0.14   12.1   2.4    1.9  1  DEK_C     DEK C terminal domain
      0.046   13.8   0.0       0.25   11.4   0.0    2.2  2  Imm71     Immunity protein 71


Domain annotation for each model (and alignments):
>> Toprim_N  DNA primase catalytic core, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   99.1   0.4   8.1e-32   1.8e-28       2     128 .]     121     254 ..     120     254 .. 0.83

  Alignments for each domain:
  == domain 1  score: 99.1 bits;  conditional E-value: 8.1e-32
                              HHHHHHCSCHHHHHHHHHCTT--HHHHHHCT-EEE-SHSCHHHHHH......HHCT-HHHHHCCTTCEECSTT..T-EEETTTTEE CS
                 Toprim_N   2 ykeelkseegekaleYLkkRglseetiekFqlGyapkswdnllkll......kkkkvseeelleagllskkek..gklydrFrnRi 79 
                              y+++ ++++     +++kkRgl+ee++  ++lG+a+++ ++l ++l      k++++    +le+gl++k+++  +++yd+Fr+Ri
  PHY93_15860|PHY93_15860 121 YRKTATTHKFPPYDDFIKKRGLNEEIAGLYNLGFAQSR-NSLCDYLgsipneKEREFALLIALELGLIKKDRHnnESHYDTFRDRI 205
                              556666777778899********************977.3444443111111345566678899****9987666899******** PP

                              EEEEE-TTS-EEEEEEEESSS-SS.SEEE--SBTTB-CCC-EETHHHHH CS
                 Toprim_N  80 mfPikdakgkvvgFgGRaleeeekaKYlNspetelFkKselLYgldeak 128
                              +fPi d+ g+v+gF +Ra+++++kaKY+Ns ++ +F+K+++LYg++ ak
  PHY93_15860|PHY93_15860 206 IFPIWDQFGQVIGFTSRAIRDDQKAKYMNSVDSFIFNKRNILYGFHLAK 254
                              *********************************************9885 PP

>> zf-CHC2  CHC2 zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   95.7   0.1     5e-31   1.1e-27       8      95 ..       9      96 ..       3      99 .. 0.96
   2 ?   -3.6   0.0       4.7     1e+04      64      87 ..     538     561 ..     536     565 .. 0.81

  Alignments for each domain:
  == domain 1  score: 95.7 bits;  conditional E-value: 5e-31
                  zf-CHC2  8 elkeridivdvveeyvkLkkkgkdyvalCPFHeektpsftvspekqfyyCfgCgagGdaikFlmeieklsfveaveklakklglelea 95
                             ++ke+i i++v+++y+++kk+g++  +lCPFH++  ps++++++k++++Cf+C a+Gdai F+m++ +l+f +a++++++k g++++ 
  PHY93_15860|PHY93_15860  9 KIKEEIPISSVIGNYLTIKKSGSSLLSLCPFHSDSKPSMHINDTKKMFKCFACDAAGDAIGFVMKYRNLDFIDALKEICQKQGINFDS 96
                             6899*******************************************************************************99875 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 4.7
                  zf-CHC2  64 GdaikFlmeieklsfveaveklak 87 
                              G + k + ei++ +++ ++++l++
  PHY93_15860|PHY93_15860 538 GKVRKVILEIDESEYSSVISNLTS 561
                              667788899999999999998875 PP

>> Toprim_4  Toprim domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.0   0.0   6.5e-17   1.5e-13       2      87 ..     262     336 ..     261     338 .. 0.88
   2 ?   -2.2   0.1       2.7   6.1e+03      29      62 ..     514     548 ..     490     551 .. 0.68

  Alignments for each domain:
  == domain 1  score: 51.0 bits;  conditional E-value: 6.5e-17
                 Toprim_4   2 eiiiVEgyaDvlalekagiknvvavlggalspldgirpeklktenlveaekkvkevilaldgDaeGeataerlaellleegvkvtr 87 
                              ++i+VEg++D +al++ g++++vav+g al  +  ++++   t          k+++lald+D++G +++er+ +++++ gv +++
  PHY93_15860|PHY93_15860 262 AVILVEGNMDQIALYNNGFHHTVAVMGVAL-GAPSLERLLGMT----------KNIYLALDSDGAGFTAMERINRQFASSGVVAKY 336
                              79****************************.777777555555..........**********************99888887665 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 2.7
                 Toprim_4  29 galspldgirpeklkt.enlveaekkvkevilald 62 
                                +s ++ +++++l + ++++++ +kv++vil  d
  PHY93_15860|PHY93_15860 514 VLFSEEKTLELLDLVSsDEVKKYIGKVRKVILEID 548
                              45555666666666664555557788888888666 PP

>> Toprim_2  Toprim-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.8   0.0   7.4e-17   1.7e-13       1      90 []     264     349 ..     264     349 .. 0.94

  Alignments for each domain:
  == domain 1  score: 50.8 bits;  conditional E-value: 7.4e-17
                 Toprim_2   1 vvfEgaiDalSlaqlgikektnvvalgGtalteaalkllerypekkvvlalDnDkaGrkaakrlaellreagvrekirelpegkDw 86 
                              +++Eg +D ++l+  g++   + va++G+al    l+ l    +k+++lalD+D aG +a++r+++++ + gv  k++e++ +kD+
  PHY93_15860|PHY93_15860 264 ILVEGNMDQIALYNNGFH---HTVAVMGVALGAPSLERLLGM-TKNIYLALDSDGAGFTAMERINRQFASSGVVAKYLEFSPQKDP 345
                              69***************8...********9888777777777.699**************************************** PP

                 Toprim_2  87 nell 90 
                              +e+l
  PHY93_15860|PHY93_15860 346 DEFL 349
                              **97 PP

>> Toprim_3  Toprim domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.4   0.0   7.2e-10   1.6e-06       2      94 ..     263     354 ..     262     355 .. 0.86

  Alignments for each domain:
  == domain 1  score: 28.4 bits;  conditional E-value: 7.2e-10
                 Toprim_3   2 liivEGietaLsileartgaaviAllsaanlkaiawp..ergkrvviaaDnDaandGreaaeklaerleaagieavllepaegeDw 85 
                              +i+vEG  + ++++++ +++ ++A++++a  +          k++++a+D D+a  G  a+e++  +++++g+ a +le   ++D 
  PHY93_15860|PHY93_15860 263 VILVEGNMDQIALYNNGFHH-TVAVMGVALGAPSLERllGMTKNIYLALDSDGA--GFTAMERINRQFASSGVVAKYLEFSPQKDP 345
                              799**********7777777.67777776655333334479*************..************************9999** PP

                 Toprim_3  86 ndvlqkeGa 94 
                              +++lq++Ga
  PHY93_15860|PHY93_15860 346 DEFLQAQGA 354
                              ******996 PP

>> Toprim  Toprim domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.0         1   2.3e+03      48      80 ..      51      69 ..      10      90 .. 0.63
   2 !   15.4   0.0   7.1e-06     0.016       2      83 ..     263     323 ..     262     340 .. 0.90
   3 ?   -2.9   0.0       3.6     8e+03      37      56 ..     410     448 ..     387     461 .. 0.55
   4 ?   -2.1   0.5       2.1   4.7e+03      37      37 ..     587     587 ..     519     622 .. 0.54

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 1
                             TTHHHHHHHHHHHHHHSEEEEECSSSHHHHHHH CS
                   Toprim 48 dkkkvlkalkelakradeiilatDpDreGeaia 80
                             d+              ++ + ++ +D +G ai+
  PHY93_15860|PHY93_15860 51 DT--------------KKMFKCFACDAAGDAIG 69
                             33..............44455555566666555 PP

  == domain 2  score: 15.4 bits;  conditional E-value: 7.1e-06
                              EEEESSHHHHHHHHHTHTSTEEEEEEESSSSEEEHSTTEEEEEECTTTHHHHHHHHHHHHHHSEEEEECSSSHHHHHHHHHH CS
                   Toprim   2 lvivEgpsdaktiakalgsgfqavtaslGhildletefkpvyeeiedkkkvlkalkelakradeiilatDpDreGeaiawel 83 
                              +++vEg++d +++ +    gf  ++a++G +l  ++                  l++l+   ++i+la+D D +G ++  ++
  PHY93_15860|PHY93_15860 263 VILVEGNMDQIALYNN---GFHHTVAVMGVALGAPS------------------LERLLGMTKNIYLALDSDGAGFTAMERI 323
                              79**********9999...9****************..................*********************8877665 PP

  == domain 3  score: -2.9 bits;  conditional E-value: 3.6
                              S...............TTEEEEE....ECTTTHHHHHHH CS
                   Toprim  37 t...............efkpvye....eiedkkkvlkal 56 
                                              ++ + ye    +ie k+k+ + l
  PHY93_15860|PHY93_15860 410 RvvglakrlglkaepaQIVKTYEefleKIEAKEKAAARL 448
                              355555555555555544455554444555555555554 PP

  == domain 4  score: -2.1 bits;  conditional E-value: 2.1
                              S CS
                   Toprim  37 t 37 
                              +
  PHY93_15860|PHY93_15860 587 S 587
                              1 PP

>> DEK_C  DEK C terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   2.4   6.3e-05      0.14      19      48 ..     585     615 ..     568     616 .. 0.91

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 6.3e-05
                    DEK_C  19 LdtvTkkkvReqLeeklgvd.LsekKafIka 48 
                              Ld+ Tkkk+   L  kl+++ L+ kK++Ik+
  PHY93_15860|PHY93_15860 585 LDSKTKKKILYDLKTKLQMElLKNKKDEIKK 615
                              8888****************99********8 PP

>> Imm71  Immunity protein 71
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00011      0.25      23      91 ..     391     465 ..     388     554 .. 0.83
   2 ?   -1.1   0.1      0.77   1.7e+03      49      80 ..     615     646 ..     585     648 .] 0.68

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00011
                    Imm71  23 lnrildlyr...afldaterevrrapekgqleleaayandyvrilkgLahmeeaverLr...kgdkrifkfDang 91 
                              lnr++++     ++l a er v  a++ g + ++a+ ++ y ++l+ +   e+a  rLr   k+ +  +k+D  +
  PHY93_15860|PHY93_15860 391 LNRAFEMMSplgNHLAASERVVGLAKRLGLKAEPAQIVKTYEEFLEKIEAKEKAAARLRpkiKPLESTSKYDESE 465
                              67777775433378999*****************************************96667888899999433 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.77
                    Imm71  49 qleleaayandyvrilkgLahmeeaverLrkg 80 
                              +l++  +++ ++ r+l+ L + e + + L+k 
  PHY93_15860|PHY93_15860 615 KLQQTCESQVEMTRLLQSLSELEVSLQALKKA 646
                              33444455566678888888888888888876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (648 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1482  (0.0826594); expected 358.6 (0.02)
Passed bias filter:                      608  (0.0339115); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.76u 0.30s 00:00:01.06 Elapsed: 00:00:00.50
# Mc/sec: 3934.28
//
Query:       PHY93_15865|PHY93_15865  [L=129]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.3e-10   39.0   4.9      1e-09   38.3   4.9    1.5  1  Sigma70_r1_1  Sigma-70 factor, region 1.1
      1e-08   35.0   0.0    3.4e-08   33.4   0.0    1.9  1  Sigma70_r1_2  Sigma-70 factor, region 1.2


Domain annotation for each model (and alignments):
>> Sigma70_r1_1  Sigma-70 factor, region 1.1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.3   4.9   1.2e-13     1e-09       5      64 ..      16      75 ..      13     105 .. 0.83

  Alignments for each domain:
  == domain 1  score: 38.3 bits;  conditional E-value: 1.2e-13
                             HHHHHHHHHHHHHSCEEHHHHHHHGCCSS--HHHHHHHHHHHHCCT-EEE-SS-...... CS
             Sigma70_r1_1  5 aavkeLikkgKkkGyLtyeEindaLpddeldseqiediiemLedmgIdvveeaededell 64
                             ++  +L+ kgK++ ++t eEindaLp  ++ +  i++++  + ++ Idv e a +e+e +
  PHY93_15865|PHY93_15865 16 KEFSRLLIKGKDQSSITAEEINDALPAGIVLASDIDEVMNRFIELKIDVTEAAVEEEEDE 75
                             67889**********************************************988444422 PP

>> Sigma70_r1_2  Sigma-70 factor, region 1.2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.4   0.0   3.8e-12   3.4e-08       1      26 [.     104     129 .]     104     129 .] 0.98

  Alignments for each domain:
  == domain 1  score: 33.4 bits;  conditional E-value: 3.8e-12
                              HHHHHHHHHHHHSX--THHHHHHHHH CS
             Sigma70_r1_2   1 DpvrlYLrEIGriPLLtaeEEveLAk 26 
                              Dpv+lYL+ +G++ LLt+e Ev +Ak
  PHY93_15865|PHY93_15865 104 DPVKLYLKRMGSVALLTREGEVVIAK 129
                              9***********************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (129 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       740  (0.0412739); expected 358.6 (0.02)
Passed bias filter:                      496  (0.0276647); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.47
# Mc/sec: 816.84
//
Query:       PHY93_15870|PHY93_15870  [L=414]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.7e-31  107.5   1.6    9.8e-31  105.7   1.6    2.0  1  Sigma70_r3    Sigma-70 region 3
    1.1e-22   79.5   0.5    2.6e-22   78.4   0.5    1.6  1  Sigma70_r2    Sigma-70 region 2
    5.3e-19   67.5   3.3    2.1e-17   62.4   0.9    2.7  2  Sigma70_r4    Sigma-70, region 4
  ------ inclusion threshold ------
      0.032   13.9   0.1        8.2    6.2   0.0    2.9  2  Sigma70_r4_2  Sigma-70, region 4
       0.27   10.8   0.0       0.27   10.8   0.0    2.2  2  Exonuc_VII_L  Exonuclease VII, large subunit
          1    9.7   6.1         15    6.0   0.6    3.2  3  Syntaxin_2    Syntaxin-like protein


Domain annotation for each model (and alignments):
>> Sigma70_r3  Sigma-70 region 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  105.7   1.6   3.3e-34   9.8e-31       1      77 [.     261     337 ..     261     338 .. 0.98

  Alignments for each domain:
  == domain 1  score: 105.7 bits;  conditional E-value: 3.3e-34
                              XHHHHHHHHHHHHHHHHSSXXXHHHHHHHHTXXHHHHHHHHHHHXXXEETTXBSSSSTTXBSTTTXBXSSSXXHHHC CS
               Sigma70_r3   1 EklnkikraqreLeqelgrePtpeEiAeeLglseekVrevleaarepvSldlpvgeeedtelgdlleddeaespeea 77 
                              E++nk  r++r+L qelgrePtpeEiAe+++l+++kV++v ++++ep+Sl++p+geeed++lgd++ed+++ sp++a
  PHY93_15870|PHY93_15870 261 ETINKMVRTSRQLIQELGREPTPEEIAEKMELPVDKVKKVQKISKEPISLETPIGEEEDSSLGDFIEDKKIISPADA 337
                              89************************************************************************997 PP

>> Sigma70_r2  Sigma-70 region 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.4   0.5   8.6e-26   2.6e-22       1      70 [.     182     251 ..     182     252 .. 0.98

  Alignments for each domain:
  == domain 1  score: 78.4 bits;  conditional E-value: 8.6e-26
                              HHHHHHHHHHHHHHHCT-THHHHHHHHHHHHHHHHHHGGGTSTTTCHHHHHHHHHHHHHHHHHHHHTSST CS
               Sigma70_r2   1 lverylplvkrlarrllgsgadaeDlvQeaflrlwraverfdpergvsfsawllriarnaaidrlRkrrr 70 
                              lve++l+lv+++a++++++g+++ Dl+Qe++++l++av++f+  rg++fs+++++++r+a+ +++ +++r
  PHY93_15870|PHY93_15870 182 LVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQAR 251
                              79****************************************************************9998 PP

>> Sigma70_r4  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.5   0.1    0.0085        25      18      41 ..     278     301 ..     268     303 .. 0.81
   2 !   62.4   0.9     7e-21   2.1e-17       1      50 []     350     403 ..     350     403 .. 0.98

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.0085
                              TTT--HHHHHHHHTS-HHHHHHHH CS
               Sigma70_r4  18 geglTleEIgerlgiSrerVrqie 41 
                              g++ T eEI+e++ ++   V+  +
  PHY93_15870|PHY93_15870 278 GREPTPEEIAEKMELPVDKVKKVQ 301
                              556688**********99999765 PP

  == domain 2  score: 62.4 bits;  conditional E-value: 7e-21
                              HHHHS-HHHHHHHHHHH....TTT--HHHHHHHHTS-HHHHHHHHHHHHHHHHH CS
               Sigma70_r4   1 aLasLpererevlelrf....geglTleEIgerlgiSrerVrqiekrAlrkLRk 50 
                              +La+L++re +vl++rf      ++TleE+g+ + ++rer+rqie++AlrkLR+
  PHY93_15870|PHY93_15870 350 VLATLTPREEKVLRMRFgigeKSDHTLEEVGQDFFVTRERIRQIEAKALRKLRH 403
                              59*****************9999******************************7 PP

>> Sigma70_r4_2  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.0    0.0093        28      30      45 ..     284     299 ..     282     299 .. 0.89
   2 ?    6.2   0.0    0.0028       8.2       3      23 ..     346     366 ..     344     370 .. 0.89

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.0093
                              HHHHHHHT--HHHHHH CS
             Sigma70_r4_2  30 kEIAellgisegtVks 45 
                              +EIAe++++++  Vk+
  PHY93_15870|PHY93_15870 284 EEIAEKMELPVDKVKK 299
                              8**********99995 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.0028
                              HHHHHHTTS-HHHHHHHHHHH CS
             Sigma70_r4_2   3 alrealaeLperqreifllry 23 
                              + r+ la+L++r+ +++ +r+
  PHY93_15870|PHY93_15870 346 QTRAVLATLTPREEKVLRMRF 366
                              66899**************85 PP

>> Exonuc_VII_L  Exonuclease VII, large subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.8      0.22   6.4e+02     177     201 ..     160     184 ..      82     280 .. 0.56
   2 ?   10.8   0.0   8.9e-05      0.27      97     189 ..     300     395 ..     292     412 .. 0.69

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.22
             Exonuc_VII_L 177 rlkspeellerkrqrldeleerler 201
                              ++++  +++ + + + d+++++l +
  PHY93_15870|PHY93_15870 160 EIEKVYKIIIHGETKADKAKAQLVE 184
                              1112222222222222222222222 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 8.9e-05
             Exonuc_VII_L  97 araiaaskiPvisavGHEtDttiaDfvAdlrapTPtaaAelvvpdkaeleeqleelerrlekaikrll...eekkqrleklasrlk 179
                              +++i + +i + + +G E D ++ Df+ d+++  P  a   ++  +++ ++ l++l+ r ek ++ ++   e++ + le++ +++ 
  PHY93_15870|PHY93_15870 300 VQKISKEPISLETPIGEEEDSSLGDFIEDKKIISPADAVMSIT-LSEQTRAVLATLTPREEKVLRMRFgigEKSDHTLEEVGQDFF 384
                              578888999999**************************99999.566666677777666666666655555555556666655553 PP

             Exonuc_VII_L 180 .speellerkr 189
                               + e++ + ++
  PHY93_15870|PHY93_15870 385 vTRERIRQIEA 395
                              12222222223 PP

>> Syntaxin_2  Syntaxin-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.6    0.0049        15      23      86 ..       8      79 ..       4      90 .. 0.77
   2 ?   -1.1   0.1      0.82   2.5e+03      61      81 ..     138     153 ..     119     181 .. 0.54
   3 ?    5.0   0.0     0.011        32       5      48 ..     260     303 ..     257     327 .. 0.81

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.0049
               Syntaxin_2 23 gtkkdteelreklhelieeinelikktnel...lkklsqldnsssds.....qqklqkekLkkdfkealqeF 86
                             +t++d +++++++  +i++i  ++++t++    lk ls +++++ ds     +  +   k+ ++f e ++++
  PHY93_15870|PHY93_15870  8 STPQDIKKTKDRIYAVIDQIAVILQETEKAdgtLKALSVDQKKLMDSislelADLTFNRKIINSFVEPVKKY 79
                             599***********************9764122666666666665558888777777777777777777766 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.82
               Syntaxin_2  61 nsssdsqqklqkekLkkdfke 81 
                              ++++d        kL++   +
  PHY93_15870|PHY93_15870 138 RNQED-----VTRKLRRLTVD 153
                              22222.....22333333333 PP

  == domain 3  score: 5.0 bits;  conditional E-value: 0.011
               Syntaxin_2   5 lqkinsnvstleklvkqLgtkkdteelreklhelieeinelikk 48 
                              + +in+ v+t ++l++ Lg     ee+ ek++  +++++++ k 
  PHY93_15870|PHY93_15870 260 IETINKMVRTSRQLIQELGREPTPEEIAEKMELPVDKVKKVQKI 303
                              78899999999999999999999999998887666666665444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (414 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1158  (0.0645881); expected 358.6 (0.02)
Passed bias filter:                      573  (0.0319594); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.66u 0.30s 00:00:00.96 Elapsed: 00:00:00.48
# Mc/sec: 2584.13
//
Query:       PHY93_05320|PHY93_05320  [L=314]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      4e-11   43.5  16.7      2e-07   31.5   6.7    2.4  2  SCPU      Spore Coat Protein U domain


Domain annotation for each model (and alignments):
>> SCPU  Spore Coat Protein U domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.5   6.7   1.1e-11     2e-07      27     138 ..      33     153 ..      12     154 .. 0.75
   2 !   17.3   2.3   2.6e-07    0.0047      49     139 .]     221     311 ..     186     311 .. 0.69

  Alignments for each domain:
  == domain 1  score: 31.5 bits;  conditional E-value: 1.1e-11
                     SCPU  27 svsapvvaasltssgtisvtCt..ngtsyt...ialdgGangsggtaRrlksttgaaylaYnLYqdaarttvwgdgtsvslaattv 107
                              ++s  v++ ++ts++t+s+t +  ng++ +   +a+++G  gs +  Rr ++ ++ +++ Yn+Y++++ t +++++++ s   +t+
  PHY93_05320|PHY93_05320  33 TLSYRVSDYNSTSQSTVSITRNkdNGNPCSlffLAFTKGGAGSYN--RRATNLSNGNTIYYNIYKNSNSTGILKESSDISSPDETF 116
                              445557777888888888888666555555100555666555544..78888888999*************************999 PP

                     SCPU 108 .....tgtsqtlpvYgrilaaqqtvp.aGtYtDtvtv 138
                                   + +++ +++Y+  ++ ++ +p aGtY D+++v
  PHY93_05320|PHY93_05320 117 fgtinKDQTNYYTYYMTLAPFGSIPPaAGTYVDNIQV 153
                              9988777777999*****999998888********98 PP

  == domain 2  score: 17.3 bits;  conditional E-value: 2.6e-07
                     SCPU  49 ngtsytialdgGangsggtaRrlksttgaa.ylaYnLYqdaarttvwgdgtsvslaattv....tgtsqtlpvYgrilaaqqtvpa 129
                              +++ y +++++++ng      +l +++g++ +++Y+ Y++ +    +g+++s  ++  ++     ++ +++p+   i +  +t ++
  PHY93_05320|PHY93_05320 221 SNAGYRLKISSSNNGH----LKLIGASGSKsQIDYSFYSNGTQV-GLGNSSSSPVTIASGsgvtPAQGVKVPIRVVIGTVDNTKVP 301
                              4555555555555544....356777777779******987765.5888877777666555665555558888888877778888* PP

                     SCPU 130 GtYtDtvtvt 139
                              GtY+D +t+t
  PHY93_05320|PHY93_05320 302 GTYQDYITLT 311
                              *******987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (314 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       510  (0.0284455); expected 358.6 (0.02)
Passed bias filter:                      291  (0.0162307); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.25s 00:00:00.79 Elapsed: 00:00:00.46
# Mc/sec: 2073.19
//
Query:       PHY93_17230|PHY93_17230  [L=230]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (230 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1283  (0.07156); expected 358.6 (0.02)
Passed bias filter:                      616  (0.0343577); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.46
# Mc/sec: 1489.60
//
Query:       PHY93_15875|PHY93_15875  [L=534]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.029   14.1   0.1      0.046   13.5   0.1    1.3  1  NIF       NLI interacting factor-like phosphatase


Domain annotation for each model (and alignments):
>> NIF  NLI interacting factor-like phosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.1   2.6e-06     0.046      31      99 ..     332     407 ..     300     443 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 2.6e-06
                      NIF  31 vsvlkRpgldefLkel.......sklyevvifTasseeyaeavidildpekkllshrlyrescvkkkgeyvKdLsl 99 
                               +++k   + ef + +       +  y+ +i +as++  a++ i +l+++++ +++  + +  ++++++ vK+L l
  PHY93_15875|PHY93_15875 332 SHFKKKQDAYEFVQAVadsfkngNDGYKKFIVSASKKVKAQQLITELQKNRETVTYDQMSKVLCRYDNNIVKELFL 407
                              55555555555555554444444778**************************9888855555547799****9965 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (534 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       851  (0.047465); expected 358.6 (0.02)
Passed bias filter:                      589  (0.0328518); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.58u 0.26s 00:00:00.84 Elapsed: 00:00:00.42
# Mc/sec: 3792.66
//
Query:       PHY93_20965|PHY93_20965  [L=390]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (390 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       390  (0.0217525); expected 358.6 (0.02)
Passed bias filter:                      203  (0.0113224); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 2843.59
//
Query:       PHY93_20970|PHY93_20970  [L=67]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.027   14.0   0.0       0.03   13.9   0.0    1.0  1  DUF334    Domain of unknown function (DUF334)


Domain annotation for each model (and alignments):
>> DUF334  Domain of unknown function (DUF334)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   1.7e-06      0.03      95     153 ..       6      63 ..       1      66 [. 0.89

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 1.7e-06
                   DUF334  95 rndfvdllqkklkrvdaeelkiilrkdvykvreeidrmlrevkrshehyqkrqkqlftg 153
                              ++df+d+ q+ +++   e  kii  ++     e+i + l +  +s e  qkr+  +f+ 
  PHY93_20970|PHY93_20970   6 KEDFLDVAQRCINNSSKEGRKIINPNGAIATAEDIAKRLSNTLNSEEARQKRKE-FFSS 63 
                              68***********************************************99964.5555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (67 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       755  (0.0421105); expected 358.6 (0.02)
Passed bias filter:                      415  (0.0231469); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.43
# Mc/sec: 463.74
//
Query:       PHY93_20975|PHY93_20975  [L=101]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (101 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       475  (0.0264934); expected 358.6 (0.02)
Passed bias filter:                      370  (0.020637); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.45
# Mc/sec: 668.70
//
Query:       PHY93_20980|PHY93_20980  [L=469]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
       0.01   16.1   0.0      0.033   14.5   0.0    1.9  1  NTP_transf_2  Nucleotidyltransferase domain
  ------ inclusion threshold ------
      0.011   15.5   0.5       0.39   10.6   0.0    3.0  3  BESS          BESS motif


Domain annotation for each model (and alignments):
>> NTP_transf_2  Nucleotidyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.5   0.0   3.7e-06     0.033      14      46 ..     340     373 ..     321     414 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 3.7e-06
                              TSEEEEEHHHHCTTSCTT.SSEEEEEEESTTCHH CS
             NTP_transf_2  14 vakvvlfGSyarGtalkg.SDiDllvvlpeevsr 46 
                                ++ l GS a+G+a+ + SDiDl+ +++  +  
  PHY93_20980|PHY93_20980 340 EDSILLCGSLANGKAKLNtSDIDLIATGNFGKAY 373
                              568999******************9998877544 PP

>> BESS  BESS motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   4.3e-05      0.39       8      34 ..     234     260 ..     231     260 .. 0.91
   2 ?    1.6   0.0     0.028   2.5e+02      21      33 ..     274     286 ..     272     287 .. 0.88
   3 ?   -1.3   0.1      0.23     2e+03       7      14 ..     422     429 ..     422     429 .. 0.92

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 4.3e-05
                     BESS   8 lSllPtmkrLpplqklkfKikilqlll 34 
                              lS +  +++ p++++l++K ki +ll+
  PHY93_20980|PHY93_20980 234 LSTASALRSIPEKENLEAKKKIIELLQ 260
                              788999******************997 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.028
                     BESS  21 qklkfKikilqll 33 
                              +k +f+++++qll
  PHY93_20980|PHY93_20980 274 HKVLFESEFQQLL 286
                              6889********8 PP

  == domain 3  score: -1.3 bits;  conditional E-value: 0.23
                     BESS   7 LlSllPtm 14 
                              LlS++P++
  PHY93_20980|PHY93_20980 422 LLSIHPDI 429
                              8*****97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (469 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       620  (0.0345808); expected 358.6 (0.02)
Passed bias filter:                      491  (0.0273858); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.63u 0.26s 00:00:00.89 Elapsed: 00:00:00.47
# Mc/sec: 2983.39
//
Query:       PHY93_03675|PHY93_03675  [L=67]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (67 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       303  (0.0169); expected 358.6 (0.02)
Passed bias filter:                      242  (0.0134977); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.42
# Mc/sec: 477.92
//
Query:       PHY93_03680|PHY93_03680  [L=108]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (108 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1216  (0.0678231); expected 358.6 (0.02)
Passed bias filter:                      444  (0.0247643); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.26s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 741.77
//
Query:       PHY93_03685|PHY93_03685  [L=302]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.1e-42  142.8   0.1    2.8e-41  141.0   0.0    1.7  2  Peptidase_S49  Peptidase family S49
    9.8e-09   35.3   0.2    1.3e-06   28.5   0.0    2.3  2  CLP_protease   Clp protease
  ------ inclusion threshold ------
      0.031   14.5   0.0      0.058   13.7   0.0    1.4  1  OKR_DC_1_N     Orn/Lys/Arg decarboxylase, N-terminal domain
       0.12   13.0   1.1       0.24   12.0   1.1    1.5  1  OAD_gamma      Oxaloacetate decarboxylase, gamma chain


Domain annotation for each model (and alignments):
>> Peptidase_S49  Peptidase family S49
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.0      0.41   1.8e+03      36      55 ..      50      69 ..      39      79 .. 0.81
   2 !  141.0   0.0   6.3e-45   2.8e-41       4     149 ..     106     252 ..     104     257 .. 0.94

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 0.41
                             T-EEE---EEEEEEE-HHHH CS
            Peptidase_S49 36 stivgsiGvitqllnlenll 55
                              ++v++ Gvi++  +  +ll
  PHY93_03685|PHY93_03685 50 IAVVEVEGVIMDSKDTIDLL 69
                             689999****9987776666 PP

  == domain 2  score: 141.0 bits;  conditional E-value: 6.3e-45
                              HTT--EEEEEEEEEETHHHHHHTTSSEEEE-TT-EEE---EEEEEEE-HHHHHHTT-EEEEEESSTTCCCCCTTSS--HHHHHHHH CS
            Peptidase_S49   4 kakkPvvasaenvaaSggYylasaadkivanpstivgsiGvitqllnlenlldklgvevqvvkaGeyksavslrrelteeereilq 89 
                              ++kkP++as+ ++aaSggYy+++a  ki+a+p t++gsiGvi++ ++l++l++ ++v+ ++vkaG yk+a++++r+lt+ee ++++
  PHY93_03685|PHY93_03685 106 DKKKPIYASFAGIAASGGYYIGAATRKIWASPGTLTGSIGVIMEFMDLSKLYEFAKVSPHTVKAGRYKDAGNPSRALTPEESDMMN 191
                              79************************************************************************************ PP

                              HHHHHHHHHHHHHHHHHHTS-HH.HHHCHHCCHEEEHHHHHHTTSSSEETSHHHHHHHHHH CS
            Peptidase_S49  90 rlldetyqqFvqtVaknRnlsve.qvdkiAegrvltgqqAlklgLvdelgtvddavaelee 149
                              +l+  ++qqF++ + k+R+  ++ ++++iA+g++++g+ A+++gLvde+g++ +a + + +
  PHY93_03685|PHY93_03685 192 KLIAGVHQQFIDDIMKKRGDRIKgDIKEIAQGQIFSGESAKTNGLVDEMGSLWTAGRAIHK 252
                              ******************8665439*************************98887666655 PP

>> CLP_protease  Clp protease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.5   0.0   2.8e-10   1.3e-06      30      98 ..      62     132 ..      41     139 .. 0.87
   2 !    4.8   0.0    0.0052        23     135     178 ..     197     240 ..     176     243 .. 0.67

  Alignments for each domain:
  == domain 1  score: 28.5 bits;  conditional E-value: 2.8e-10
                              HHHHHHHHHHHHHH-SSS-EEEEEEE--B-HHHHHHHHHHHHHS..SS-EEEEEEEEEETHHHHHHHTS-T CS
             CLP_protease  30 ankiiaqLllLeaedpdkdillyinspGGsvtaglaIydtmqyi..kpdvsticlGlaaSmgslllaagek 98 
                              +++ i  L ++e  ++++ i l +nspGG v  + +Iy+ +  i  k +++    G+aaS g  + aa  k
  PHY93_03685|PHY93_03685  62 SKDTIDLLQTAEDDKQIEAIILRVNSPGGAVGPTQEIYEEIGRIdkKKPIYASFAGIAASGGYYIGAATRK 132
                              56778889999*********************************76666777778********99998765 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.0052
                              HHHH.HHHHHHHHHTS-HHHHHHHHCSTEEEEHHHHHHHTSSSEE CS
             CLP_protease 135 iker.lneilakhtgqslekiekdldrdtflsaeeAveyGLidev 178
                              ++++ + +i++k+ ++   +i k++ + +++s e A++ GL+de 
  PHY93_03685|PHY93_03685 197 VHQQfIDDIMKKRGDRIKGDI-KEIAQGQIFSGESAKTNGLVDEM 240
                              444414444444444444455.567889999************96 PP

>> OKR_DC_1_N  Orn/Lys/Arg decarboxylase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   1.3e-05     0.058      20      68 ..      59     113 ..      41     117 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1.3e-05
               OKR_DC_1_N  20 vvgvtstdDllsvieqnsriaavvlsvd......deaaelldeirernedlPvFl 68 
                              +++ ++t Dll+ +e + +i a++l v+        ++e+ +ei ++ ++ P+++
  PHY93_03685|PHY93_03685  59 IMDSKDTIDLLQTAEDDKQIEAIILRVNspggavGPTQEIYEEIGRIDKKKPIYA 113
                              67889999*********************************************98 PP

>> OAD_gamma  Oxaloacetate decarboxylase, gamma chain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   1.1   5.4e-05      0.24       8      69 ..      13      82 ..       9      83 .. 0.62

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 5.4e-05
                OAD_gamma  8 llGmgvVFvvLilLslvislfskiikkkakkkkkkakaaaaaaaaaaaaa............eldddeelvAvI 69
                             +++m++VF+v+++L ++++ +++++ + +++k+++ +  a  + +    +             ++dd ++ A+I
  PHY93_03685|PHY93_03685 13 VFAMVFVFFVILVL-FAFYTMNAFNETSSAEKNANRAHIAVVEVEG---VimdskdtidllqTAEDDKQIEAII 82
                             67888998776666.5566677777777776666666665555443...2334666777776666666666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (302 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1102  (0.0614647); expected 358.6 (0.02)
Passed bias filter:                      775  (0.0432261); expected 358.6 (0.02)
Passed Vit filter:                        88  (0.00490825); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.59u 0.27s 00:00:00.86 Elapsed: 00:00:00.45
# Mc/sec: 2009.62
//
Query:       PHY93_03690|PHY93_03690  [L=408]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      3e-11   43.1   0.0        1.6    9.8   0.0    6.6  7  TPR_14          Tetratricopeptide repeat
    8.9e-11   42.1   0.2      0.088   13.3   0.0    4.4  4  TPR_19          Tetratricopeptide repeat
    4.1e-10   39.2   7.3    6.6e-10   38.5   7.3    1.3  1  Rubredoxin_2    Rubredoxin metal binding domain
    5.5e-09   35.5   5.9       0.43   10.8   0.0    7.0  7  TPR_2           Tetratricopeptide repeat
    1.2e-07   31.4   8.2        2.5    8.5   0.0    6.6  6  TPR_8           Tetratricopeptide repeat
    7.8e-07   28.7   0.1       0.05   13.3   0.0    4.1  4  TPR_11          TPR repeat
    2.4e-06   27.7   0.8        1.2    9.5   0.3    4.4  4  ANAPC3          Anaphase-promoting complex, cyclosome, subuni
    9.6e-06   25.8   0.0      0.015   15.5   0.0    4.1  3  TPR_12          Tetratricopeptide repeat
    1.8e-05   24.4   2.1       0.27   11.3   0.0    4.4  4  TPR_7           Tetratricopeptide repeat
    2.7e-05   23.8   9.4       0.55   10.2   0.0    5.8  7  TPR_1           Tetratricopeptide repeat
     0.0062   16.5   1.2      0.026   14.5   1.2    2.1  1  HypA            Hydrogenase/urease nickel incorporation, meta
     0.0071   16.7   3.3        7.6    6.9   0.2    4.2  4  TPR_20          Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.011   15.5   2.9        1.3    8.7   0.0    2.8  3  TPR_21          Tetratricopeptide repeat-like domain
      0.038   14.7   0.7       0.15   12.9   0.3    2.0  2  zinc_ribbon_15  zinc-ribbon family
      0.054   13.8   0.1       0.69   10.2   0.0    2.8  3  DUF2280         Uncharacterized conserved protein (DUF2280)
      0.069   13.5   0.7       0.88    9.9   0.2    2.9  2  DUF3725         Protein of unknown function (DUF3725)
        0.1   12.5   7.0       0.34   10.8   0.4    3.9  4  Clathrin        Region in Clathrin and VPS
       0.12   12.5   8.2        1.8    8.8   0.0    4.1  3  USP8_dimer      USP8 dimerisation domain
        1.3    9.0   5.0        9.4    6.2   1.5    2.6  2  Cnd1            non-SMC mitotic condensation complex subunit 


Domain annotation for each model (and alignments):
>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.8   0.0       0.3   2.8e+02       9      42 ..      58      91 ..      57      93 .. 0.89
   2 ?    6.5   0.0     0.018        17       2      32 ..      85     115 ..      84     130 .. 0.76
   3 !    9.8   0.0    0.0017       1.6       2      43 ..     123     164 ..     122     165 .. 0.88
   4 !    8.8   0.0    0.0035       3.3       6      34 ..     200     228 ..     196     237 .. 0.84
   5 ?    4.4   0.0     0.091        86       6      32 ..     233     259 ..     228     262 .. 0.89
   6 ?    5.4   0.0     0.043        41       8      37 ..     314     343 ..     308     351 .. 0.84
   7 ?   -1.4   0.0       6.3     6e+03       7      25 ..     348     366 ..     343     375 .. 0.75

  Alignments for each domain:
  == domain 1  score: 2.8 bits;  conditional E-value: 0.3
                   TPR_14  9 eallalGdpdeAiallrralalaPddaeawllla 42
                               +l +G+ d Ai+ +  a++ + +  e++++l+
  PHY93_03690|PHY93_03690 58 TQYLISGNKDLAIKEFLSAVDINRETIETYFALG 91
                             579999***************9999999999886 PP

  == domain 2  score: 6.5 bits;  conditional E-value: 0.018
                   TPR_14   2 eallalaeallalGdpdeAiallrralalaP 32 
                              e + al+ +++ +G+ ++Ai + r ++a+  
  PHY93_03690|PHY93_03690  85 ETYFALGGLFRSNGEIEKAISIHRSLIAREN 115
                              67899******************99999653 PP

  == domain 3  score: 9.8 bits;  conditional E-value: 0.0017
                   TPR_14   2 eallalaeallalGdpdeAiallrralalaPddaeawlllaq 43 
                              +al++la  +   G  d+Ai+ ++++l+ + d+ e+  +l +
  PHY93_03690|PHY93_03690 123 RALKELAVDFDKGGFVDKAIETYKDVLKINRDQFEVIQALCR 164
                              57788888888999*******************999988876 PP

  == domain 4  score: 8.8 bits;  conditional E-value: 0.0035
                   TPR_14   6 alaeallalGdpdeAiallrralalaPdd 34 
                              + a+ ++++Gd+++ ++ l++a + aP+ 
  PHY93_03690|PHY93_03690 200 QKAKQYFERGDFKKCEEDLEDAFKFAPSV 228
                              67999*******************99984 PP

  == domain 5  score: 4.4 bits;  conditional E-value: 0.091
                   TPR_14   6 alaeallalGdpdeAiallrralalaP 32 
                              ++++++l +Gd+++A  ll ++l+ +P
  PHY93_03690|PHY93_03690 233 LRLKLYLVSGDLEQAKFLLLEILKEHP 259
                              67889999****************998 PP

  == domain 6  score: 5.4 bits;  conditional E-value: 0.043
                   TPR_14   8 aeallalGdpdeAiallrralalaPddaea 37 
                              +++l ++G  + A +ll+++ +++ ++ e+
  PHY93_03690|PHY93_03690 314 VRLLKESGMIESAFDLLKEWMDQNKNSSEV 343
                              68999***************9999988765 PP

  == domain 7  score: -1.4 bits;  conditional E-value: 6.3
                   TPR_14   7 laeallalGdpdeAiallr 25 
                              + ++l +l++ deA+a  +
  PHY93_03690|PHY93_03690 348 YIKLLIELQKKDEALAQTK 366
                              6778888888888888765 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.0      0.62   5.9e+02      10      66 ..      69     124 ..      60     125 .. 0.73
   2 !   10.9   0.0   0.00052      0.49       8      44 ..     139     175 ..     136     191 .. 0.95
   3 !   13.3   0.0   9.4e-05     0.088       3      57 ..     207     260 ..     205     265 .. 0.81
   4 !   11.2   0.1   0.00042       0.4       3      55 ..     319     372 ..     309     378 .. 0.88

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 0.62
                   TPR_19  10 AlalleqalqedpknaearllLAeallalgqldeAealLdalpeedpddaryasLlA 66 
                              A++ + +a + + +  e   +L  +  ++g++++A+ +   l + +   +++++L+A
  PHY93_03690|PHY93_03690  69 AIKEFLSAVDINRETIETYFALGGLFRSNGEIEKAISIHRSLIARENI-SEAHRLRA 124
                              666666777888888888888889999999999999887777776665.66666665 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.00052
                   TPR_19   8 aeAlalleqalqedpknaearllLAeallalgqldeA 44 
                              + A++ ++ +l+ + ++ e+  +L++++    ++d+A
  PHY93_03690|PHY93_03690 139 DKAIETYKDVLKINRDQFEVIQALCRIYEDIEDWDQA 175
                              78**********************************9 PP

  == domain 3  score: 13.3 bits;  conditional E-value: 9.4e-05
                   TPR_19   3 aegdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeedpd 57 
                              ++gd+    + le a++ +p +  a++l  +++l +g+l++A+ lL ++++e p 
  PHY93_03690|PHY93_03690 207 ERGDFKKCEEDLEDAFKFAP-SVSAKILRLKLYLVSGDLEQAKFLLLEILKEHPM 260
                              66777777777788877777.677777789*********************9986 PP

  == domain 4  score: 11.2 bits;  conditional E-value: 0.00042
                   TPR_19   3 aegdyaeAlalleqalqedpknaearl.lLAeallalgqldeAealLdalpeed 55 
                              ++g  ++A +ll++ ++++ +++e+    ++++l++l   deA a  + l+e  
  PHY93_03690|PHY93_03690 319 ESGMIESAFDLLKEWMDQNKNSSEVMKvEYIKLLIELQKKDEALAQTKGLLENL 372
                              5788999*******99**9998888877***************99888887765 PP

>> Rubredoxin_2  Rubredoxin metal binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.5   7.3     7e-13   6.6e-10       3      27 ..     381     405 ..     379     405 .. 0.95

  Alignments for each domain:
  == domain 1  score: 38.5 bits;  conditional E-value: 7e-13
             Rubredoxin_2   3 CsqCGfesakwfGrCpsCgsWntlk 27 
                              C+qCG+ s + f+rCp+C++W+t++
  PHY93_03690|PHY93_03690 381 CRQCGYNSDSIFWRCPQCHEWETIQ 405
                              ***********************95 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.9   0.0     0.035        33      10      32 ..      59      81 ..      54      83 .. 0.87
   2 ?    3.3   0.0      0.12   1.1e+02       2      21 ..      85     104 ..      84     105 .. 0.93
   3 ?    6.3   0.0     0.012        12       3      33 ..     124     154 ..     122     155 .. 0.88
   4 ?    0.4   0.1      0.99   9.4e+02       5      23 ..     160     178 ..     156     178 .. 0.82
   5 !   10.8   0.0   0.00045      0.43       4      32 ..     198     226 ..     196     228 .. 0.90
   6 ?    4.9   0.0     0.035        33      10      32 ..     237     259 ..     236     261 .. 0.90
   7 ?   -0.8   0.1       2.4   2.3e+03      10      23 ..     351     364 ..     350     370 .. 0.81

  Alignments for each domain:
  == domain 1  score: 4.9 bits;  conditional E-value: 0.035
                    TPR_2 10 ayyklgdyeeAleafekAleldP 32
                              y+ +g+ + A++ f  A+ ++ 
  PHY93_03690|PHY93_03690 59 QYLISGNKDLAIKEFLSAVDINR 81
                             58999*************99986 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.12
                    TPR_2   2 ealynlGlayyklgdyeeAl 21 
                              e +++lG + + +g+ e+A+
  PHY93_03690|PHY93_03690  85 ETYFALGGLFRSNGEIEKAI 104
                              689****************8 PP

  == domain 3  score: 6.3 bits;  conditional E-value: 0.012
                    TPR_2   3 alynlGlayyklgdyeeAleafekAleldPn 33 
                              al +l+    k g  ++A+e ++ +l+++ +
  PHY93_03690|PHY93_03690 124 ALKELAVDFDKGGFVDKAIETYKDVLKINRD 154
                              777888888999999*************975 PP

  == domain 4  score: 0.4 bits;  conditional E-value: 0.99
                    TPR_2   5 ynlGlayyklgdyeeAlea 23 
                               +l ++y+   d+++A ++
  PHY93_03690|PHY93_03690 160 QALCRIYEDIEDWDQAYNY 178
                              678999*********9765 PP

  == domain 5  score: 10.8 bits;  conditional E-value: 0.00045
                    TPR_2   4 lynlGlayyklgdyeeAleafekAleldP 32 
                              l + ++ y+++gd+++++e++e A + +P
  PHY93_03690|PHY93_03690 198 LVQKAKQYFERGDFKKCEEDLEDAFKFAP 226
                              5678999*****************99998 PP

  == domain 6  score: 4.9 bits;  conditional E-value: 0.035
                    TPR_2  10 ayyklgdyeeAleafekAleldP 32 
                              +y+ +gd+e+A+ ++ + l+  P
  PHY93_03690|PHY93_03690 237 LYLVSGDLEQAKFLLLEILKEHP 259
                              69999**************9887 PP

  == domain 7  score: -0.8 bits;  conditional E-value: 2.4
                    TPR_2  10 ayyklgdyeeAlea 23 
                              ++++l++ +eAl+ 
  PHY93_03690|PHY93_03690 351 LLIELQKKDEALAQ 364
                              5789999****975 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.6   0.0     0.011        10      11      33 ..      60      82 ..      60      83 .. 0.91
   2 ?    6.4   0.0     0.013        12       2      22 ..      85     105 ..      84     110 .. 0.93
   3 ?    6.1   0.0     0.016        15      18      33 ..     139     154 ..     138     155 .. 0.92
   4 !    8.5   0.0    0.0027       2.5       3      33 ..     197     227 ..     195     228 .. 0.90
   5 ?    2.2   0.1      0.28   2.6e+02       7      28 ..     234     255 ..     228     257 .. 0.79
   6 ?   -1.3   0.1       3.6   3.4e+03      10      20 ..     351     361 ..     346     363 .. 0.56

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.011
                             HHHTT-HHHHHHHHHHHHHHHHH CS
                    TPR_8 11 ylklgdyeeAkeyyekaleldpd 33
                             yl  g+++ A++ +  a++++++
  PHY93_03690|PHY93_03690 60 YLISGNKDLAIKEFLSAVDINRE 82
                             7788****************986 PP

  == domain 2  score: 6.4 bits;  conditional E-value: 0.013
                              CHHHHHHHHHHHTT-HHHHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeAke 22 
                              e y+ lg + ++ g++e+A++
  PHY93_03690|PHY93_03690  85 ETYFALGGLFRSNGEIEKAIS 105
                              79*****************97 PP

  == domain 3  score: 6.1 bits;  conditional E-value: 0.016
                              HHHHHHHHHHHHHHHH CS
                    TPR_8  18 eeAkeyyekaleldpd 33 
                              ++A+e+y+ +l++++d
  PHY93_03690|PHY93_03690 139 DKAIETYKDVLKINRD 154
                              89************97 PP

  == domain 4  score: 8.5 bits;  conditional E-value: 0.0027
                              HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH CS
                    TPR_8   3 ayynlgsiylklgdyeeAkeyyekaleldpd 33 
                              +++++++ y++ gd+++ +e +e a + +p+
  PHY93_03690|PHY93_03690 197 ILVQKAKQYFERGDFKKCEEDLEDAFKFAPS 227
                              67889999******************99985 PP

  == domain 5  score: 2.2 bits;  conditional E-value: 0.28
                              HHHHHHHTT-HHHHHHHHHHHH CS
                    TPR_8   7 lgsiylklgdyeeAkeyyekal 28 
                                ++yl  gd+e+Ak  + + l
  PHY93_03690|PHY93_03690 234 RLKLYLVSGDLEQAKFLLLEIL 255
                              56788889*******9988776 PP

  == domain 6  score: -1.3 bits;  conditional E-value: 3.6
                              HHHHTT-HHHH CS
                    TPR_8  10 iylklgdyeeA 20 
                              ++++l++++eA
  PHY93_03690|PHY93_03690 351 LLIELQKKDEA 361
                              44555555555 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.0   5.3e-05      0.05       4      38 ..      60      94 ..      58      98 .. 0.87
   2 ?    1.4   0.0      0.27   2.5e+02       3      14 ..      93     104 ..      91     105 .. 0.88
   3 !    9.2   0.0   0.00097      0.92      10      29 ..     138     157 ..     134     162 .. 0.88
   4 ?   -0.9   0.0       1.5   1.4e+03       2      12 ..     203     213 ..     202     226 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 5.3e-05
                   TPR_11  4 yyeqGkyeeAieaYkkAlkldPdnaeayynLGlay 38
                             y   G+ + Ai+++  A++++ +  e y++LG ++
  PHY93_03690|PHY93_03690 60 YLISGNKDLAIKEFLSAVDINRETIETYFALGGLF 94
                             667888899***********************665 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.27
                   TPR_11   3 ayyeqGkyeeAi 14 
                              ++++ G++e+Ai
  PHY93_03690|PHY93_03690  93 LFRSNGEIEKAI 104
                              699********9 PP

  == domain 3  score: 9.2 bits;  conditional E-value: 0.00097
                   TPR_11  10 yeeAieaYkkAlkldPdnae 29 
                               ++Aie Yk  lk++ d+ e
  PHY93_03690|PHY93_03690 138 VDKAIETYKDVLKINRDQFE 157
                              699*************9987 PP

  == domain 4  score: -0.9 bits;  conditional E-value: 1.5
                   TPR_11   2 dayyeqGkyee 12 
                              + y+e+G++++
  PHY93_03690|PHY93_03690 203 KQYFERGDFKK 213
                              679****9875 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.4   0.0     0.094        89      20      61 ..      81     122 ..      37     134 .. 0.79
   2 ?    1.8   0.0      0.31   2.9e+02      18      77 ..     117     177 ..      97     179 .. 0.68
   3 !    9.5   0.3    0.0012       1.2      27      79 ..     199     251 ..     174     254 .. 0.79
   4 !    8.9   0.0    0.0018       1.7      36      77 ..     320     363 ..     299     367 .. 0.87

  Alignments for each domain:
  == domain 1  score: 3.4 bits;  conditional E-value: 0.094
                              H--HHHHHHHHHHHHHTT-HHHHHHHHHCTSHHHC-HHHHHH CS
                   ANAPC3  20 tespedayllAlclylngqykrAyellrkaklnskslgcryl 61 
                              +e  e  ++l+  + +ng+ ++A+ + r++  +++  +++ l
  PHY93_03690|PHY93_03690  81 RETIETYFALGGLFRSNGEIEKAISIHRSLIARENISEAHRL 122
                              566677888999999999999999999988666665566655 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.31
                              HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCTSHHHC-HHHHHHHHHHHH..HTT-HHHHHH CS
                   ANAPC3  18 aetespedayllAlclylngqykrAyellrkaklnskslgcrylfAqcll..kLkkyeeAia 77 
                              +e++++ ++  lA  + + g  ++A+e +++  l+ +  +  ++ A c +  +++ +++A++
  PHY93_03690|PHY93_03690 117 SEAHRLRALKELAVDFDKGGFVDKAIETYKDV-LKINRDQFEVIQALCRIyeDIEDWDQAYN 177
                              56666777777777777777888999999999.66666666666665554348899999875 PP

  == domain 3  score: 9.5 bits;  conditional E-value: 0.0012
                              HHHHHHHHHTT-HHHHHHHHHCTSHHHC-HHHHHHHHHHHHHTT-HHHHHHHH CS
                   ANAPC3  27 yllAlclylngqykrAyellrkaklnskslgcrylfAqcllkLkkyeeAiaaL 79 
                                +A+ ++++g++k++ e l++a +   s  + +l  + +l  + +e+A  +L
  PHY93_03690|PHY93_03690 199 VQKAKQYFERGDFKKCEEDLEDAFKFAPSVSAKILRLKLYLVSGDLEQAKFLL 251
                              346********************999999999999988888888888886666 PP

  == domain 4  score: 8.9 bits;  conditional E-value: 0.0018
                              TT-HHHHHHHHHCT.SHHHC-HHHHHHHH.HHHHHTT-HHHHHH CS
                   ANAPC3  36 ngqykrAyellrka.klnskslgcrylfA.qcllkLkkyeeAia 77 
                              +g  ++A++ll+++ ++n++s ++  +   + l++L+k +eA+a
  PHY93_03690|PHY93_03690 320 SGMIESAFDLLKEWmDQNKNSSEVMKVEYiKLLIELQKKDEALA 363
                              56789*********9999999987777666999*********96 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.6   0.0    0.0011       1.1      43      71 ..      82     110 ..      52     113 .. 0.82
   2 !   15.5   0.0   1.6e-05     0.015       3      76 ..      84     153 ..      82     154 .. 0.89
   3 ?    4.5   0.0     0.047        44       3      32 ..     195     224 ..     193     248 .. 0.87

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.0011
                   TPR_12  43 ltattlrnLgrlyralgryeeAlelleea 71 
                              +t++t+++Lg l+r  g+ e+A+++++  
  PHY93_03690|PHY93_03690  82 ETIETYFALGGLFRSNGEIEKAISIHRSL 110
                              699********************999865 PP

  == domain 2  score: 15.5 bits;  conditional E-value: 1.6e-05
                   TPR_12   3 atalnnlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleealaiae 76 
                                ++  l+ + r  g+ ++A+++++    iar+   + h   +++l  L+  +++ g  ++A+e ++++l+i +
  PHY93_03690|PHY93_03690  84 IETYFALGGLFRSNGEIEKAISIHRSL--IARENISEAH--RLRALKELAVDFDKGGFVDKAIETYKDVLKINR 153
                              567778********************9..5555666889..*****************************9976 PP

  == domain 3  score: 4.5 bits;  conditional E-value: 0.047
                   TPR_12   3 atalnnlaavlrrlgrydeAlellekalei 32 
                              + +l++ a  ++++g++ +++e le a   
  PHY93_03690|PHY93_03690 195 SHILVQKAKQYFERGDFKKCEEDLEDAFKF 224
                              6788999999***************99875 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.3   0.0   0.00029      0.27       1      24 [.      86     109 ..      86     134 .. 0.87
   2 ?    5.3   0.0     0.024        23      12      34 ..     135     157 ..     124     159 .. 0.76
   3 ?    4.5   0.2     0.044        42       7      22 ..     164     179 ..     158     190 .. 0.88
   4 ?   -2.5   0.1       7.5   7.1e+03       9      15 ..     205     211 ..     200     219 .. 0.65

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00029
                    TPR_7   1 aLlnLarlysrlGdyeeAielyeq 24 
                              ++++L+ l+++ G+ e+Ai++++ 
  PHY93_03690|PHY93_03690  86 TYFALGGLFRSNGEIEKAISIHRS 109
                              799*******************98 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.024
                    TPR_7  12 lGdyeeAielyeqsLaltkdped 34 
                               G  ++Aie y+ +L + +d+++
  PHY93_03690|PHY93_03690 135 GGFVDKAIETYKDVLKINRDQFE 157
                              55569***********9999987 PP

  == domain 3  score: 4.5 bits;  conditional E-value: 0.044
                    TPR_7   7 rlysrlGdyeeAiely 22 
                              r+y++  d+++A  + 
  PHY93_03690|PHY93_03690 164 RIYEDIEDWDQAYNYR 179
                              89**********9986 PP

  == domain 4  score: -2.5 bits;  conditional E-value: 7.5
                    TPR_7   9 ysrlGdy 15 
                              y+++Gd+
  PHY93_03690|PHY93_03690 205 YFERGDF 211
                              4555555 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.0      0.36   3.4e+02      11      32 ..      60      81 ..      57      82 .. 0.87
   2 ?    5.4   0.0     0.019        18       2      21 ..      85     104 ..      84     105 .. 0.93
   3 !    7.4   0.0    0.0042         4      18      33 ..     139     154 ..     123     155 .. 0.81
   4 ?   -1.8   0.1       3.4   3.2e+03      10      22 ..     165     177 ..     162     178 .. 0.80
   5 !   10.2   0.0   0.00058      0.55       6      33 ..     200     227 ..     197     228 .. 0.89
   6 ?   -0.5   0.1       1.4   1.3e+03      10      32 ..     237     259 ..     236     261 .. 0.77
   7 ?   -3.1   0.1         9   8.5e+03      13      21 ..     354     362 ..     351     363 .. 0.77

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.36
                             HHHTT-HHHHHHHHHHHHHHST CS
                    TPR_1 11 yfklgkydeAleyyekALelnP 32
                             y+  g+ d A++ +  A+ +n 
  PHY93_03690|PHY93_03690 60 YLISGNKDLAIKEFLSAVDINR 81
                             8889********9999999986 PP

  == domain 2  score: 5.4 bits;  conditional E-value: 0.019
                              HHHHHHHHHHHHTT-HHHHH CS
                    TPR_1   2 kalynlGnayfklgkydeAl 21 
                              ++++ lG +++++g+ ++A+
  PHY93_03690|PHY93_03690  85 ETYFALGGLFRSNGEIEKAI 104
                              789****************9 PP

  == domain 3  score: 7.4 bits;  conditional E-value: 0.0042
                              HHHHHHHHHHHHHSTT CS
                    TPR_1  18 deAleyyekALelnPn 33 
                              d+A+e y+ +L++n +
  PHY93_03690|PHY93_03690 139 DKAIETYKDVLKINRD 154
                              9*************87 PP

  == domain 4  score: -1.8 bits;  conditional E-value: 3.4
                              HHHHTT-HHHHHH CS
                    TPR_1  10 ayfklgkydeAle 22 
                              +y   +++d+A  
  PHY93_03690|PHY93_03690 165 IYEDIEDWDQAYN 177
                              7999999999976 PP

  == domain 5  score: 10.2 bits;  conditional E-value: 0.00058
                              HHHHHHHHTT-HHHHHHHHHHHHHHSTT CS
                    TPR_1   6 nlGnayfklgkydeAleyyekALelnPn 33 
                              +++  yf+ g++++++e+ e A +  P+
  PHY93_03690|PHY93_03690 200 QKAKQYFERGDFKKCEEDLEDAFKFAPS 227
                              68889****************9999886 PP

  == domain 6  score: -0.5 bits;  conditional E-value: 1.4
                              HHHHTT-HHHHHHHHHHHHHHST CS
                    TPR_1  10 ayfklgkydeAleyyekALelnP 32 
                              +y+  g++++A     + L+  P
  PHY93_03690|PHY93_03690 237 LYLVSGDLEQAKFLLLEILKEHP 259
                              68999******877777666555 PP

  == domain 7  score: -3.1 bits;  conditional E-value: 9
                              HTT-HHHHH CS
                    TPR_1  13 klgkydeAl 21 
                              +l+k deAl
  PHY93_03690|PHY93_03690 354 ELQKKDEAL 362
                              688999998 PP

>> HypA  Hydrogenase/urease nickel incorporation, metallochaperone, hypA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.5   1.2   2.8e-05     0.026      39      95 ..     344     401 ..     288     406 .. 0.77

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 2.8e-05
                              --HHHHHHHHHHHHCC.TTTT-E.EE..EEEE--EEEETTTS-EEECHHHHHS-TTTSSS CS
                     HypA  39 vepeaLefafellaegtvlegae.Le..ieevpvkvrCreCgkefeleekalrCpkCgsa 95 
                              ++ e+++   el +++++l++++ L   ++++ +k +Cr+Cg++ ++     rCp+C++ 
  PHY93_03690|PHY93_03690 344 MKVEYIKLLIELQKKDEALAQTKgLLenLHQTLAKHYCRQCGYNSDSI--FWRCPQCHEW 401
                              45566777777777888866555332357888999*******888866..359****986 PP

>> TPR_20  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.4   0.0       0.1        99      27      54 ..      55      82 ..      36     106 .. 0.87
   2 ?   -1.2   0.0       2.9   2.7e+03      27      55 ..     127     155 ..     117     185 .. 0.75
   3 ?    3.8   0.0     0.075        71      24      55 ..     230     261 ..     215     293 .. 0.73
   4 !    6.9   0.2    0.0081       7.6      32      85 ..     317     369 ..     296     372 .. 0.85

  Alignments for each domain:
  == domain 1  score: 3.4 bits;  conditional E-value: 0.1
                   TPR_20 27 dlAlallaagryeeAleqLleilkrdrk 54
                               A+++l  g+++ A++++l+ +  +r+
  PHY93_03690|PHY93_03690 55 LNATQYLISGNKDLAIKEFLSAVDINRE 82
                             56999***************99999886 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 2.9
                   TPR_20  27 dlAlallaagryeeAleqLleilkrdrkw 55 
                              +lA    ++g +++A+e   ++lk +r+ 
  PHY93_03690|PHY93_03690 127 ELAVDFDKGGFVDKAIETYKDVLKINRDQ 155
                              67777778888899999999999988875 PP

  == domain 3  score: 3.8 bits;  conditional E-value: 0.075
                   TPR_20  24 arldlAlallaagryeeAleqLleilkrdrkw 55 
                              a++   +++l  g+ e+A  +Lleilk++  +
  PHY93_03690|PHY93_03690 230 AKILRLKLYLVSGDLEQAKFLLLEILKEHPMY 261
                              555555789999***************99877 PP

  == domain 4  score: 6.9 bits;  conditional E-value: 0.0081
                   TPR_20  32 llaagryeeAleqLleilkrdrkweddaarkqllkifealgsqdplvakyRrkL 85 
                              l + g  e A+++L e++ ++++   + ++ + +k++  l ++d++ a+ +  L
  PHY93_03690|PHY93_03690 317 LKESGMIESAFDLLKEWMDQNKNS-SEVMKVEYIKLLIELQKKDEALAQTKGLL 369
                              5567899**************998.899*********99999999988876655 PP

>> TPR_21  Tetratricopeptide repeat-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0       2.8   2.6e+03      62     104 ..      35      78 ..      31      90 .. 0.73
   2 ?    8.7   0.0    0.0014       1.3      80     127 ..     199     245 ..     181     264 .. 0.84
   3 ?    6.2   0.3    0.0082       7.7      81     137 ..     312     366 ..     257     378 .. 0.82

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 2.8
                   TPR_21  62 aeeladeyggtaYaalaaLll.AkaaveagdlaaAkaqLewvle 104
                               ++l ++y+++ + a+++++l A +   +g+ + A +++ ++++
  PHY93_03690|PHY93_03690  35 GAKLSKRYRNSIFEAQSKIFLnATQYLISGNKDLAIKEFLSAVD 78 
                              57888899999998888875437777788888888887777766 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 0.0014
                   TPR_21  80 LllAkaaveagdlaaAkaqLewvlekakdeelkalarlRLarvllaek 127
                               ++Ak+ +e+gd+++ ++ Le + + a++   +++ rl+L  v  + +
  PHY93_03690|PHY93_03690 199 VQKAKQYFERGDFKKCEEDLEDAFKFAPSV-SAKILRLKLYLVSGDLE 245
                              578**********************99887.67899999877765554 PP

  == domain 3  score: 6.2 bits;  conditional E-value: 0.0082
                   TPR_21  81 llAkaaveagdlaaAkaqLewvlekakdeelkalarlRLarvllaekkydeAlktLe 137
                               + +   e+g +++A   L++ ++++k+   ++++++   ++l++ +k deAl++ +
  PHY93_03690|PHY93_03690 312 SKVRLLKESGMIESAFDLLKEWMDQNKNS--SEVMKVEYIKLLIELQKKDEALAQTK 366
                              44445568899999**********99888..9*********************9865 PP

>> zinc_ribbon_15  zinc-ribbon family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.0       3.4   3.3e+03      66      83 ..     209     226 ..     177     228 .. 0.69
   2 ?   12.9   0.3   0.00015      0.15      40      85 ..     346     398 ..     332     399 .. 0.66

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 3.4
           zinc_ribbon_15  66 keCknCgkeveeefkyCp 83 
                                 k+C++ +e+ fk+ p
  PHY93_03690|PHY93_03690 209 GDFKKCEEDLEDAFKFAP 226
                              445788888888888866 PP

  == domain 2  score: 12.9 bits;  conditional E-value: 0.00015
           zinc_ribbon_15  40 cskCkslleaskelgkeiekkesse...........kkeCknCgkeveeefkyCpkC 85 
                              ++  k l+e +k+ + ++ ++   +           k++C++Cg + ++ f  Cp+C
  PHY93_03690|PHY93_03690 346 VEYIKLLIELQKKDE-ALAQT---KgllenlhqtlaKHYCRQCGYNSDSIFWRCPQC 398
                              455555555554222.22222...1333567788889******************** PP

>> DUF2280  Uncharacterized conserved protein (DUF2280)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0   0.00073      0.69      33      81 ..      16      65 ..       5      84 .. 0.79
   2 ?   -1.0   0.0       2.2   2.1e+03      82      96 ..     118     132 ..     111     138 .. 0.78
   3 ?   -1.9   0.0       4.2     4e+03      53      84 ..     278     309 ..     273     320 .. 0.73

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00073
                  DUF2280 33 fgvkvsrqqvesydPtkaagkdLskkwre.lFeetRkaFledtaeipian 81
                               + ++   v +y  +k++g++Lsk++r+ +Fe+  k Fl+ t+ +   n
  PHY93_03690|PHY93_03690 16 VATAITMVLVYHYLIEKETGAKLSKRYRNsIFEAQSKIFLNATQYLISGN 65
                             566788888999999************96489999999999988765555 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 2.2
                  DUF2280  82 ravRLraLerlaeka 96 
                               a RLraL++la + 
  PHY93_03690|PHY93_03690 118 EAHRLRALKELAVDF 132
                              588999999988765 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 4.2
                  DUF2280  53 kdLskkwrelFeetRkaFledtaeipianrav 84 
                              ++L k ++   e  Rk Fle  ++  ++  +v
  PHY93_03690|PHY93_03690 278 QELKKTYQGRLEILRKYFLEMNDKDLVSSASV 309
                              78899999999999999998766655555555 PP

>> DUF3725  Protein of unknown function (DUF3725)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.0       1.2   1.1e+03      30      52 ..      37      59 ..      11      75 .. 0.74
   2 ?    9.9   0.2   0.00093      0.88      34      70 ..     367     403 ..     346     407 .. 0.77

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 1.2
                  DUF3725 30 EgnrfvRanileivrktlvgrLg 52
                              ++++ R+ i+e   k +  +  
  PHY93_03690|PHY93_03690 37 KLSKRYRNSIFEAQSKIFLNATQ 59
                             57899999999988777666655 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 0.00093
                  DUF3725  34 fvRanileivrktlvgrLgYdfeeElfeCheCdntse 70 
                              +   n+ + + k  + + gY+ ++  + C +C + ++
  PHY93_03690|PHY93_03690 367 GLLENLHQTLAKHYCRQCGYNSDSIFWRCPQCHEWET 403
                              444555566667778999**************98665 PP

>> Clathrin  Region in Clathrin and VPS
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.0      0.88   8.3e+02      91     115 ..      89     115 ..      72     132 .. 0.73
   2 ?    1.4   0.1      0.27   2.6e+02      85     116 ..     158     191 ..     147     202 .. 0.71
   3 ?   -1.7   0.0       2.5   2.3e+03      16      39 ..     237     260 ..     235     271 .. 0.76
   4 ?   10.8   0.4   0.00036      0.34      14      86 ..     314     387 ..     286     400 .. 0.90

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.88
                              H...HHHTTXTHSSHSSXSSSSHCSCHH CS
                 Clathrin  91 i...lykkinefkkaisllkklkdfdda 115
                                  l++ ++e++kais +++    +++
  PHY93_03690|PHY93_03690  89 AlggLFRSNGEIEKAIS-IHRSLIAREN 115
                              355689999******99.5665555555 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.27
                              SHHHHHHHHHTTXTHSSHSS..XSSSSHCSCHHH CS
                 Clathrin  85 lyeeavilykkinefkkais..llkklkdfddai 116
                               ++ ++ +y +i+++++a +  ++  +   ++++
  PHY93_03690|PHY93_03690 158 VIQALCRIYEDIEDWDQAYNyrIMLSKVGHQNQA 191
                              56677779999****9999876444444455555 PP

  == domain 3  score: -1.7 bits;  conditional E-value: 2.5
                              HHHCTT-HHHHCHHHCCHHHCHTS CS
                 Clathrin  16 lfeeaglleelleyLekvlkedsk 39 
                              l+   g le+++ +L ++lke ++
  PHY93_03690|PHY93_03690 237 LYLVSGDLEQAKFLLLEILKEHPM 260
                              566678899999999999987655 PP

  == domain 4  score: 10.8 bits;  conditional E-value: 0.00036
                              HHHHHCTT-HHHHCHHHCCHHHCHTS--HHHHHHHHHHHHHTT-HHHHHHTTS.S---S-TTHHHHHHHT-SSH CS
                 Clathrin  14 vklfeeaglleelleyLekvlkedskenpalqtallelyakyddpqeleeflk.knnnydlekvaklcekadly 86 
                              v+l++e g++e ++ +L++ +++++  +  +  ++++l+++ ++ +e+++  k  ++n ++  + ++c++ ++ 
  PHY93_03690|PHY93_03690 314 VRLLKESGMIESAFDLLKEWMDQNKNSSEVMKVEYIKLLIELQKKDEALAQTKgLLENLHQTLAKHYCRQCGYN 387
                              88999*****************9999999*************9999999999989999**********998876 PP

>> USP8_dimer  USP8 dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.1      0.15   1.4e+02      29      63 ..      41      75 ..      27      87 .. 0.74
   2 ?    8.8   0.0    0.0019       1.8      22      60 ..     186     224 ..     180     226 .. 0.81
   3 ?    1.9   1.8      0.26   2.5e+02      28     113 ..     297     381 ..     272     383 .. 0.59

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.15
               USP8_dimer 29 ksikrllrsaeklfkkAeeyrlegdeEkAYvlymk 63
                             +  + +++   k+f +A +y   g++  A + ++ 
  PHY93_03690|PHY93_03690 41 RYRNSIFEAQSKIFLNATQYLISGNKDLAIKEFLS 75
                             34455899999**************9988776665 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.0019
               USP8_dimer  22 lkkdkknksikrllrsaeklfkkAeeyrlegdeEkAYvl 60 
                               ++++ ++  ++l+++a++ f+  + ++ e+d E+A+++
  PHY93_03690|PHY93_03690 186 GHQNQAETISHILVQKAKQYFERGDFKKCEEDLEDAFKF 224
                              4455555566679************************97 PP

  == domain 3  score: 1.9 bits;  conditional E-value: 0.26
               USP8_dimer  28 nksikrllrsaeklfkkAeeyrlegdeEkAYvlymkylnllelIrkksdykekkasvkellgdkkankvildk....lekLkesLk 109
                              +++ k l++sa  ++ k    +  g  E+A+ l+  ++   +   ++s+   k +++k l++ +k+ +++  +    le+L++ L 
  PHY93_03690|PHY93_03690 297 EMNDKDLVSSASVVLSKVRLLKESGMIESAFDLLKEWMDQNK---NSSE-VMKVEYIKLLIELQKKDEAL-AQtkglLENLHQTLA 377
                              555555677777777777777777777777766666654321...1222.12223334444444445553.333677999999999 PP

               USP8_dimer 110 krYe 113
                              k+Y 
  PHY93_03690|PHY93_03690 378 KHYC 381
                              9985 PP

>> Cnd1  non-SMC mitotic condensation complex subunit 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.3   0.1     0.078        74      98     144 ..     156     201 ..     102     209 .. 0.76
   2 ?    6.2   1.5      0.01       9.4      67     145 ..     296     376 ..     278     385 .. 0.84

  Alignments for each domain:
  == domain 1  score: 3.3 bits;  conditional E-value: 0.078
                     Cnd1  98 pdiisklsdalnecsewgqitilefLlsyipkdkqeaeslveklcpr 144
                               ++i+ l    ++++ w+q + ++++ls +  ++q ae++   l+++
  PHY93_03690|PHY93_03690 156 FEVIQALCRIYEDIEDWDQAYNYRIMLSKVGHQNQ-AETISHILVQK 201
                              3455666667778***************9999999.99988777765 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.01
                     Cnd1  67 leDenprVvanalaalteiseksenaiynllpdiisklsdalnecsewgqitilefLlsyipkdkq..eaeslveklcprl 145
                              le +++  v++a  +l+++   +e+ ++++  d+++   d+ ++ se   ++ +++L++ ++kd+   +++ l+e+l + l
  PHY93_03690|PHY93_03690 296 LEMNDKDLVSSASVVLSKVRLLKESGMIESAFDLLKEWMDQNKNSSEVMKVEYIKLLIELQKKDEAlaQTKGLLENLHQTL 376
                              466788999*************999***************************************98445667777777666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (408 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1444  (0.0805399); expected 358.6 (0.02)
Passed bias filter:                      790  (0.0440627); expected 358.6 (0.02)
Passed Vit filter:                        94  (0.0052429); expected 17.9 (0.001)
Passed Fwd filter:                        20  (0.00111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              19  [number of targets reported over threshold]
# CPU time: 0.73u 0.29s 00:00:01.02 Elapsed: 00:00:00.51
# Mc/sec: 2422.92
//
Query:       PHY93_03695|PHY93_03695  [L=146]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-07   31.5   0.0      3e-07   30.6   0.0    1.4  1  SH3_3     Bacterial SH3 domain
  ------ inclusion threshold ------
      0.024   14.5   0.0      0.028   14.3   0.0    1.2  1  dNK       Deoxynucleoside kinase


Domain annotation for each model (and alignments):
>> SH3_3  Bacterial SH3 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.6   0.0   3.4e-11     3e-07       4      55 .]      44     104 ..      42     104 .. 0.95

  Alignments for each domain:
  == domain 1  score: 30.6 bits;  conditional E-value: 3.4e-11
                    SH3_3   4 nvRsgPstssevigtlpyGekVevleetggge..........WykvrtddgteGwvssgyls 55 
                              nv+++Ps  s+v++t++ +++V+v +et  ++          W  v t + +eG+v ++yl+
  PHY93_03695|PHY93_03695  44 NVHQNPSRYSQVLTTISCNHPVKVMKETSKDGkdfvlygedkWNLV-TVGPYEGYVMADYLT 104
                              9***********************999999999*************.99***********95 PP

>> dNK  Deoxynucleoside kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0   3.2e-06     0.028      39      73 ..      37      82 ..      12     131 .. 0.72

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 3.2e-06
                             S..HHHHHHHHSHHHHHHHHHHHHHHHHHHHHHCHH.........S CS
                      dNK 39 k..nlLekfYkdpsrwsfalqtyvllsrlkqqleal.........a 73
                                +++ +++++psr+s  l t  +++ +k+++e++          
  PHY93_03695|PHY93_03695 37 YfsEIMGNVHQNPSRYSQVLTTISCNHPVKVMKETSkdgkdfvlyG 82
                             24488999**************************985555554444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (146 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       452  (0.0252106); expected 358.6 (0.02)
Passed bias filter:                      342  (0.0190752); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.26s 00:00:00.74 Elapsed: 00:00:00.47
# Mc/sec: 943.59
//
Query:       PHY93_17235|PHY93_17235  [L=682]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.5e-35  119.9   0.1    3.7e-16   59.0   0.0    2.7  2  cNMP_binding  Cyclic nucleotide-binding domain
  ------ inclusion threshold ------
      0.023   14.4   1.4        2.4    7.9   0.1    3.6  4  Cupin_3       Protein of unknown function (DUF861)
      0.051   13.3   1.7         10    5.9   0.1    3.3  3  Cupin_2       Cupin domain
      0.063   13.2   0.1       0.21   11.5   0.1    1.9  1  HTH_5         Bacterial regulatory protein, arsR family


Domain annotation for each model (and alignments):
>> cNMP_binding  Cyclic nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.3   0.1   1.3e-19     6e-16       2      88 ..     453     539 ..     452     540 .. 0.96
   2 !   59.0   0.0   8.2e-20   3.7e-16       3      89 .]     584     665 ..     582     665 .. 0.93

  Alignments for each domain:
  == domain 1  score: 58.3 bits;  conditional E-value: 1.3e-19
                              EEE-TT-EEE-TTSB-SEEEEEEES-EEEEEEETTS.EEEEEEE-TTEEESHHHHHHTS--SSEEEESSTEEEEEEEHHHHHHHHH CS
             cNMP_binding   2 rsfkagevifrqGdpadslyivlsGevrvyrlsedgkevvlavlgpGdlfGelalltgeprtatvvAltdsellalprddflellq 87 
                              r +k g  +++qGd+++ +y++l+G+v v+ +++ g+ + +  lg++ ++Gela+l++ +rta+v+A ++ + l+lp + f el++
  PHY93_17235|PHY93_17235 453 RAIKEGNNLITQGDRGRDVYFLLKGRVNVTVRENTGRFKHIVNLGANTVIGELAILEKCKRTANVTAAEEIVFLELPEKVFAELMS 538
                              6789999***********************999***99******************999*************************98 PP

                              H CS
             cNMP_binding  88 q 88 
                              +
  PHY93_17235|PHY93_17235 539 R 539
                              6 PP

  == domain 2  score: 59.0 bits;  conditional E-value: 8.2e-20
                              EE-TT-EEE-TTSB-SEEEEEEES-EEEEEEETTS.EEEEEEE-TTEEESHHHHHHTS--SSEEEESSTEEEEEEEHHHHHHHHHH CS
             cNMP_binding   3 sfkagevifrqGdpadslyivlsGevrvyrlsedgkevvlavlgpGdlfGelalltgeprtatvvAltdsellalprddflellqq 88 
                               f++g+ i+ +G+  +++y++++G+v vy     g++  +a+lg+Gd+fGe+al+ + prta++ ++++s  l ++ ++f+++l++
  PHY93_17235|PHY93_17235 584 IFPRGHNIVDEGEDDKTFYLLIKGKVDVY----KGDQ-KIAELGQGDFFGEVALIANVPRTASIHTVEESLFLYIEDKKFWKILSE 664
                              699*************************6....5544.899**************99**************************987 PP

                              - CS
             cNMP_binding  89 d 89 
                              +
  PHY93_17235|PHY93_17235 665 N 665
                              6 PP

>> Cupin_3  Protein of unknown function (DUF861)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0      0.96   4.3e+03      29      43 ..      17      33 ..      15      43 .. 0.70
   2 ?    0.7   0.0     0.097   4.3e+02      29      44 ..     472     486 ..     463     500 .. 0.79
   3 ?    1.9   0.0     0.041   1.9e+02      48      60 ..     577     589 ..     574     596 .. 0.87
   4 ?    7.9   0.1   0.00053       2.4      24      54 ..     596     627 ..     590     628 .. 0.80

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 0.96
                             EEEEECEEEEEET..TT CS
                  Cupin_3 29 cyileGevkvtpe..gg 43
                             c + eGe  +++e  ++
  PHY93_17235|PHY93_17235 17 CSFFEGERNIVVEghES 33
                             77889999999984333 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.097
                              EEEEECEEEEEETTTE CS
                  Cupin_3  29 cyileGevkvtpegge 44 
                               ++l+G+v vt+  ++
  PHY93_17235|PHY93_17235 472 YFLLKGRVNVTVR-EN 486
                              6899*******94.44 PP

  == domain 3  score: 1.9 bits;  conditional E-value: 0.041
                              EETTEEEEE-TTE CS
                  Cupin_3  48 lraGDlvvlpkgl 60 
                              ++aGDlv +p g 
  PHY93_17235|PHY93_17235 577 VEAGDLVIFPRGH 589
                              68********985 PP

  == domain 4  score: 7.9 bits;  conditional E-value: 0.00053
                              SSEEEE.EEEECEEEEEETTTEEEEEETTEEE CS
                  Cupin_3  24 eedEfc.yileGevkvtpeggetvelraGDlv 54 
                              e d ++  +++G+v+v+  + +  el++GD++
  PHY93_17235|PHY93_17235 596 EDDKTFyLLIKGKVDVYKGDQKIAELGQGDFF 627
                              5577772467********77777*******96 PP

>> Cupin_2  Cupin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   0.0     0.068   3.1e+02      21      37 ..     470     486 ..     463     497 .. 0.82
   2 ?    3.2   0.0     0.016        71      41      52 ..     577     588 ..     574     598 .. 0.85
   3 ?    5.9   0.1    0.0023        10      20      47 ..     597     627 ..     591     631 .. 0.83

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.068
                              EEEEEEESEEEEEECTE CS
                  Cupin_2  21 effyVleGegeltvdge 37 
                               +++ l+G++ +tv ++
  PHY93_17235|PHY93_17235 470 DVYFLLKGRVNVTVREN 486
                              6899*********9877 PP

  == domain 2  score: 3.2 bits;  conditional E-value: 0.016
                              EETTEEEEE-TT CS
                  Cupin_2  41 leaGdsvyfpag 52 
                              +eaGd+v+fp+g
  PHY93_17235|PHY93_17235 577 VEAGDLVIFPRG 588
                              89********97 PP

  == domain 3  score: 5.9 bits;  conditional E-value: 0.0023
                              E..EEEEEEESEEEEE.ECTEEEEEETTEEE CS
                  Cupin_2  20 d..effyVleGegelt.vdgeeveleaGdsv 47 
                              d   f+  ++G++ ++  d +  el++Gd++
  PHY93_17235|PHY93_17235 597 DdkTFYLLIKGKVDVYkGDQKIAELGQGDFF 627
                              44489999********7778899******98 PP

>> HTH_5  Bacterial regulatory protein, arsR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   4.6e-05      0.21       9      35 ..      47      73 ..      46      73 .. 0.95

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 4.6e-05
                             HHHTTSSEEHHHHHHHHTS-HHHHHHH CS
                    HTH_5  9 klLaegelcvcelaeelglsqstvShH 35
                              +L +ge++v e++ el  +q+ vS H
  PHY93_17235|PHY93_17235 47 LSLLDGEHTVKEISSELYNTQGQVSFH 73
                             6899*********************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (682 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       515  (0.0287244); expected 358.6 (0.02)
Passed bias filter:                      295  (0.0164538); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.67u 0.28s 00:00:00.95 Elapsed: 00:00:00.49
# Mc/sec: 4175.16
//
Query:       PHY93_03700|PHY93_03700  [L=288]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
       0.21   11.2   0.3       0.37   10.4   0.0    1.6  2  PnpCD_PnpD_N  Hydroquinone 1,2-dioxygenase large subunit N-te


Domain annotation for each model (and alignments):
>> PnpCD_PnpD_N  Hydroquinone 1,2-dioxygenase large subunit N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.1      0.28     5e+03      53      66 ..      75      89 ..      69      99 .. 0.73
   2 ?   10.4   0.0     2e-05      0.37      77     117 ..     205     246 ..     137     251 .. 0.81

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 0.28
             PnpCD_PnpD_N 53 rdvawgffyg.wvnf 66
                             +dv w ff   w+  
  PHY93_03700|PHY93_03700 75 QDVFWSFFSElWLVK 89
                             699999996436554 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 2e-05
             PnpCD_PnpD_N  77 gkvdlyagtfngvlkeagvdyieqfetpkim.atfkailrdw 117
                                +d +   +n vl e g  + eqfet k +   +k+ l+ w
  PHY93_03700|PHY93_03700 205 KMIDTHLKKYNQVLFEKGFSFQEQFETTKEIdLLLKSDLKIW 246
                              447888999*****************9985515567777777 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (288 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       757  (0.0422221); expected 358.6 (0.02)
Passed bias filter:                      328  (0.0182944); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.42
# Mc/sec: 2041.13
//
Query:       PHY93_03705|PHY93_03705  [L=284]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (284 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       719  (0.0401026); expected 358.6 (0.02)
Passed bias filter:                      237  (0.0132188); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.60u 0.24s 00:00:00.84 Elapsed: 00:00:00.46
# Mc/sec: 1836.67
//
Query:       PHY93_03710|PHY93_03710  [L=229]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.2e-34  116.5   0.1    9.2e-34  115.9   0.1    1.2  1  MotA_ExbB        MotA/TolQ/ExbB proton channel family
  ------ inclusion threshold ------
      0.054   13.2   0.0       0.41   10.4   0.0    2.1  2  Oleosin          Oleosin
      0.069   13.1   1.0       0.14   12.1   1.0    1.5  1  Holin_BlyA       holin, BlyA family
        5.5    7.0   5.5         21    5.2   0.8    3.1  3  Gram_pos_anchor  LPXTG cell wall anchor motif


Domain annotation for each model (and alignments):
>> MotA_ExbB  MotA/TolQ/ExbB proton channel family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  115.9   0.1     2e-37   9.2e-34      27     126 ..     117     215 ..     101     216 .. 0.94

  Alignments for each domain:
  == domain 1  score: 115.9 bits;  conditional E-value: 2e-37
                              HHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSSGGCTHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MotA_ExbB  27 lrraleealsreeerlekglsilatigslaPllGLlGTVlGlieafqaladagsadlakvapgiaeALiaTalGlvvAipavlayn 112
                              l+r l++ +++ +++l   ls+la+igs+aP++GL+GTV+G+i af+ la  g  ++++vapgiaeALi+Ta+Gl++Aipav +yn
  PHY93_03710|PHY93_03710 117 LERGLKKGVNESNAELGGLLSTLASIGSVAPFIGLFGTVWGIIDAFSGLAGGG-GSIDAVAPGIAEALITTAIGLAAAIPAVWFYN 201
                              678899999*****************************************955.67****************************** PP

                              HHHHHHHHHHHHHX CS
                MotA_ExbB 113 klkrkverlvlele 126
                              +++++++++ +++e
  PHY93_03710|PHY93_03710 202 YFNNQNDKVNSDME 215
                              *********99998 PP

>> Oleosin  Oleosin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.0   0.0      0.16   7.2e+02      13      29 ..      16      32 ..       7      56 .. 0.58
   2 ?   10.4   0.0   9.2e-05      0.41      58      92 ..     181     215 ..     174     224 .. 0.85

  Alignments for each domain:
  == domain 1  score: -0.0 bits;  conditional E-value: 0.16
                  Oleosin 13 ggilLlLsGltLagtvi 29
                             g+++ l+ Gl ++++v 
  PHY93_03710|PHY93_03710 16 GVVVKLVLGLLILASVF 32
                             33333333333333333 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 9.2e-05
                  Oleosin  58 gflasgafgvaalsslswlykyvrgkhpagadkld 92 
                                l+++a+g+aa     w+y+y+++++++++  ++
  PHY93_03710|PHY93_03710 181 EALITTAIGLAAAIPAVWFYNYFNNQNDKVNSDME 215
                              568899******************99888877776 PP

>> Holin_BlyA  holin, BlyA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   1.0   3.1e-05      0.14      12      59 ..       5      51 ..       2      53 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 3.1e-05
               Holin_BlyA 12 tldeiKLiilgiFvvllvlgvllllKPllkdiLilliqKllKNiNkke 59
                             +ld  KLi   + vv lvlg+l+l    +   +i    Kl+K +  ++
  PHY93_03710|PHY93_03710  5 NLDIFKLILQSGVVVKLVLGLLIL-ASVFSWAIIFKKRKLFKEVEANN 51
                             8999****************9886.56888888889999999887665 PP

>> Gram_pos_anchor  LPXTG cell wall anchor motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.2   0.8    0.0046        21      21      40 ..      21      42 ..      21      42 .. 0.86
   2 ?   -0.9   0.1      0.36   1.6e+03      22      32 ..     132     142 ..     126     145 .. 0.75
   3 ?    2.3   0.0     0.038   1.7e+02      18      34 ..     183     199 ..     180     207 .. 0.81

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.0046
                             XXXXXXXXXXXXXX..XXXXXX CS
          Gram_pos_anchor 21 taaGllallggllL..lvkrRK 40
                             +++Gll+l++ + +   +k+RK
  PHY93_03710|PHY93_03710 21 LVLGLLILASVFSWaiIFKKRK 42
                             689***********99777776 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.36
                              XXXXXXXXXXX CS
          Gram_pos_anchor  22 aaGllallggl 32 
                              ++Gll +l+++
  PHY93_03710|PHY93_03710 132 LGGLLSTLASI 142
                              78999888876 PP

  == domain 3  score: 2.3 bits;  conditional E-value: 0.038
                              XXXXXXXXXXXXXXXXX CS
          Gram_pos_anchor  18 ifltaaGllallggllL 34 
                              +++ta Gl+a++ ++ +
  PHY93_03710|PHY93_03710 183 LITTAIGLAAAIPAVWF 199
                              589******99866655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (229 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       704  (0.039266); expected 358.6 (0.02)
Passed bias filter:                      488  (0.0272185); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.44
# Mc/sec: 1555.95
//
Query:       PHY93_03715|PHY93_03715  [L=136]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      1e-23   83.9   0.3    1.1e-23   83.8   0.3    1.0  1  ExbD      Biopolymer transport protein ExbD/TolR
  ------ inclusion threshold ------
       0.16   12.2   0.9       0.25   11.6   0.9    1.4  1  DUF2149   Uncharacterized conserved protein (DUF2149)


Domain annotation for each model (and alignments):
>> ExbD  Biopolymer transport protein ExbD/TolR
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   83.8   0.3   1.3e-27   1.1e-23       2     128 ..       9     133 ..       8     135 .. 0.95

  Alignments for each domain:
  == domain 1  score: 83.8 bits;  conditional E-value: 1.3e-27
                     ExbD   2 kresaeinltpmiDvvflLLifFlvtaklkkpeplevdlPsssstqkeveekelirisisadgsiyldkkavsveelaqklkerka 87 
                              k   ++in+tp++Dv+++LLi+F+vta+l  +  +++dlP+ ++        +++++s s    ++l+k++++ +e+  ++k++ +
  PHY93_03715|PHY93_03715   9 KGAISDINVTPLVDVMLVLLIIFMVTAPLMLNG-IKLDLPKTREVNPINLSATQVILSFSRSEDYFLGKDKILANEIIPEIKKQFK 93 
                              667799**************************9.********9999878888999999999999********************** PP

                     ExbD  88 kppdkltvaikadkdvsygklvevldtlkkagiekvslvtt 128
                              +++++ t+ ++ad + +ygk+ + ++ lk+ gi ++slvt 
  PHY93_03715|PHY93_03715  94 SNKTE-TLFLRADFNLPYGKVARLMSFLKRGGIHQISLVTV 133
                              *****.*********************************96 PP

>> DUF2149  Uncharacterized conserved protein (DUF2149)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.9   2.8e-05      0.25       4      26 ..      17      39 ..      15      65 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 2.8e-05
                  DUF2149  4 vaNLfDvalVlavallvalvssl 26
                             v+ L+Dv+lVl + ++v++   l
  PHY93_03715|PHY93_03715 17 VTPLVDVMLVLLIIFMVTAPLML 39
                             5679*************976655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (136 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       494  (0.0275531); expected 358.6 (0.02)
Passed bias filter:                      369  (0.0205812); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.45
# Mc/sec: 918.11
//
Query:       PHY93_03720|PHY93_03720  [L=283]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.2e-12   46.5   0.1    1.1e-11   44.8   0.0    1.9  2  TonB_2    TonB C terminal
    6.1e-06   26.6   0.0    1.4e-05   25.4   0.0    1.6  1  TonB_C    Gram-negative bacterial TonB protein C-terminal
      0.003   17.1   0.1     0.0046   16.5   0.1    1.2  1  Z1        Z1 domain
  ------ inclusion threshold ------
       0.02   15.1   0.0      0.038   14.2   0.0    1.4  1  TolA      TolA C-terminal


Domain annotation for each model (and alignments):
>> TonB_2  TonB C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0       1.9   8.7e+03      46      56 ..     147     157 ..     142     159 .. 0.77
   2 !   44.8   0.0   2.5e-15   1.1e-11       1      72 [.     195     267 ..     195     276 .. 0.92

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 1.9
                   TonB_2  46 vksSgneafDk 56 
                                sSgn++ Dk
  PHY93_03720|PHY93_03720 147 ITSSGNQKADK 157
                              56999999987 PP

  == domain 2  score: 44.8 bits;  conditional E-value: 2.5e-15
                   TonB_2   1 sdeYaakvrarikenwafpsq.isgnleavveitidpdGeivsvrlvksSgneafDkavkrAiekasplPppp 72 
                              ++ Y a++ + ++++++ ps   +++l + v+++++ dGe+ ++++ +sSg++++D+ + +A++++sp+P + 
  PHY93_03720|PHY93_03720 195 YQVYVARLPDLVRPHFKLPSFlKEKKLNCRVRVWVASDGEVTRTEVYQSSGDSEYDQRAVEAVRASSPFPRLS 267
                              5779************99977799****************99****************************886 PP

>> TonB_C  Gram-negative bacterial TonB protein C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.4   0.0   3.2e-09   1.4e-05      18      60 ..     223     265 ..     215     273 .. 0.90

  Alignments for each domain:
  == domain 1  score: 25.4 bits;  conditional E-value: 3.2e-09
                              EEEEEEE-TTSBEEEEEEEEESSSSCSHHHHHHHHTT-EE-TT CS
                   TonB_C  18 vtveftidpdGnvtnvkvvkssgseiLdkaAleavrkwkfkpa 60 
                              ++v++ + +dG+vt  +v +ssg+++ d+ A+eavr+ + +p 
  PHY93_03720|PHY93_03720 223 CRVRVWVASDGEVTRTEVYQSSGDSEYDQRAVEAVRASSPFPR 265
                              789**********************************766665 PP

>> Z1  Z1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.1     1e-06    0.0046      24     146 ..      48     183 ..      26     185 .. 0.66

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 1e-06
                       Z1  24 khnsmLvhvsrfkdeqekvaelieelleelkkelkesaeekkeellkeleklweke..kts........tkseeeelsfeev.... 95 
                              ++n  Lv  s+++d  +  +  ++el + l++ ++e+++e+++    +le   e +  + +        +++++++++fee     
  PHY93_03720|PHY93_03720  48 EKNMELVQASVRVDMVAMPKYTLNELKN-LSSGVEEAKKEQSTPEPVKLEPKVEPKieP-KvepkpgpkEEKADTSPTFEEAnklk 131
                              3344488888888888877777777655.788888888888888888888888888542.14688999855666666777652223 PP

                       Z1  96 keelkealeki..evvvvNsskkkerldYeeeeeeglsvIavGGnkLsRGlTl 146
                              ++ +k+ l++i  + ++  +++k+++  Y e+ +++l++ +v GnkLs+G+ +
  PHY93_03720|PHY93_03720 132 RQSFKSLLKQIgnKKITSSGNQKADKGLYGEK-STDLKNLVVAGNKLSKGVQM 183
                              44556666666543333333444478889986.55899999*********865 PP

>> TolA  TolA C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   8.4e-06     0.038      16      81 ..     198     267 ..     185     277 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 8.4e-06
                              HHHHHHHHHHTTTTTGGGGTT-..-EEEEEEEETTSEEE..EEEEEEE-HHHHHHHHHH.HCTS-----S CS
                     TolA  16 Yaavikkaiqsrllkedsfkgk..tCrvkikLapdGtll..svkkegGdpalCqAalaAvakvakiPkpp 81 
                              Y a +  +++ ++   + +k k  +Crv++ +a dG ++  +v + +Gd++  q a+ Av   + +P   
  PHY93_03720|PHY93_03720 198 YVARLPDLVRPHFKLPSFLKEKklNCRVRVWVASDGEVTrtEVYQSSGDSEYDQRAVEAVRASSPFPRLS 267
                              5555555666666556666666336***********9862256789*************98888888655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (283 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       682  (0.0380389); expected 358.6 (0.02)
Passed bias filter:                      463  (0.0258241); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.57u 0.25s 00:00:00.82 Elapsed: 00:00:00.46
# Mc/sec: 1857.70
//
Query:       PHY93_03725|PHY93_03725  [L=442]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.3e-26   90.2   6.5    4.4e-06   26.5   0.1    6.5  6  PD40      WD40-like Beta Propeller Repeat
    1.7e-05   23.8   0.0       0.09   11.5   0.0    2.9  2  DPPIV_N   Dipeptidyl peptidase IV (DPP IV) N-terminal region


Domain annotation for each model (and alignments):
>> PD40  WD40-like Beta Propeller Repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    3.6   0.0    0.0072        64      22      32 ..     167     178 ..     166     186 .. 0.84
   2 !   12.1   0.0   1.7e-05      0.15       2      37 ..     196     234 ..     195     235 .. 0.84
   3 !    3.5   0.0    0.0081        73       5      37 ..     247     278 ..     245     278 .. 0.91
   4 !   22.9   0.0   6.6e-09   5.9e-05       1      37 [.     287     322 ..     287     323 .. 0.94
   5 !   19.3   0.2   8.6e-08   0.00077       9      37 ..     341     368 ..     333     369 .. 0.83
   6 !   26.5   0.1   4.9e-10   4.4e-06       2      29 ..     378     405 ..     377     418 .. 0.88

  Alignments for each domain:
  == domain 1  score: 3.6 bits;  conditional E-value: 0.0072
                              EEEEEEECT..T CS
                     PD40  22 rlaFsSdRg.sG 32 
                              +++F SdR+ +G
  PHY93_03725|PHY93_03725 167 KIVFISDRNtRG 178
                              8*******9877 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 1.7e-05
                              EE--SSSS.EEEEEE-TTSSEEEEEEECT..TCEE..EE CS
                     PD40   2 krltntpgnegaPsfSPDGkrlaFsSdRg.sGkpd..Iy 37 
                              +++t++ g+ ++Ps S DG  l++s   + sGk +  +y
  PHY93_03725|PHY93_03725 196 TQITSHGGIAISPSMSQDGHHLVYSLILNsSGKRNnnLY 234
                              79**********************987777666655555 PP

  == domain 3  score: 3.5 bits;  conditional E-value: 0.0081
                              -SSSS.EEEEEE-TTSSEEEEEEECT.TCEEEE CS
                     PD40   5 tntpgnegaPsfSPDGkrlaFsSdRgsGkpdIy 37 
                               + +g++ +  f P Gk++a + + + G+ +Iy
  PHY93_03725|PHY93_03725 247 SSKDGINSGAIFLPGGKSIALTLTVS-GNAEIY 278
                              56789*******************99.999999 PP

  == domain 4  score: 22.9 bits;  conditional E-value: 6.6e-09
                              EEE--SSSS.EEEEEE-TTSSEEEEEEECT.TCEEEE CS
                     PD40   1 lkrltntpgnegaPsfSPDGkrlaFsSdRgsGkpdIy 37 
                              l+r+tn+ + + +Ps++ DGk ++F SdR  Gk  Iy
  PHY93_03725|PHY93_03725 287 LRRITNHFASDVDPSVTYDGKLMTFLSDRA-GKAMIY 322
                              69****************************.*98777 PP

  == domain 5  score: 19.3 bits;  conditional E-value: 8.6e-08
                              S.EEEEEE-TTSSEEEEEEECT.TCEEEE CS
                     PD40   9 gnegaPsfSPDGkrlaFsSdRgsGkpdIy 37 
                              + +  P+fSPDGk ++FsS  +  ++dI+
  PHY93_03725|PHY93_03725 341 QFNATPRFSPDGKEIVFSSWLD-NSFDIF 368
                              46899**************888.888887 PP

  == domain 6  score: 26.5 bits;  conditional E-value: 4.9e-10
                              EE--SSSS.EEEEEE-TTSSEEEEEEEC CS
                     PD40   2 krltntpgnegaPsfSPDGkrlaFsSdR 29 
                               rlt+  g +++PsfS+DG  +aF+S+R
  PHY93_03725|PHY93_03725 378 SRLTKDFGSNEDPSFSNDGEFIAFTSQR 405
                              699999*********************9 PP

>> DPPIV_N  Dipeptidyl peptidase IV (DPP IV) N-terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.5   0.0     1e-05      0.09      20      83 ..     180     254 ..     164     259 .. 0.79
   2 !    8.7   0.0   7.1e-05      0.64     246     347 ..     305     403 ..     285     408 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 1e-05
                              EETTEEEEEETTTEECEEEETTTT.BSEEEEESSTTEEEEE........ETTEEEEESTTTSEEEECES.-S..T CS
                  DPPIV_N  20 sytaeyyiydletneveelspgeeklqlakwSPagdklafv........rnnnLyvrelatgkeiqlTs.dg..s 83 
                              ++ +e+y+ d+  ++v++++++ + +  + +S +g+ l++         rnnnLy+ +l t++++ ++s dg  s
  PHY93_03725|PHY93_03725 180 KTIKEVYMMDFDGKNVTQITSHGGIAISPSMSQDGHHLVYSlilnssgkRNNNLYMMDLRTKESHVISSkDGinS 254
                              45678899999999******9999999*************65555555589***********9888887577533 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 7.1e-05
                              TSSEEEEEEETTSSEEEEEEESSS-C.EE..ESS-SSS-EEEEEEEETTTTEEEEEESSSETTEBEEEEEESSCTTEEEESSTTTS CS
                  DPPIV_N 246 desgflwisekdGfkHLylfdldgkseik..qlTsGeweVtsilavdekrdlvyFtatkdsPlerhlYsvslesggeltrltdeeg 329
                              d++ + ++s++ G   +y +d +g++++       G+++     +++ + +++ F++  d+     ++++  + g  l+rlt++ g
  PHY93_03725|PHY93_03725 305 DGKLMTFLSDRAGKAMIYTMDPSGEEKNVkrISFVGQFNA--TPRFSPDGKEIVFSSWLDN--SFDIFKIGSD-GSGLSRLTKDFG 385
                              5666777888999999999999999944422444455555..89999************99..789*******.************ PP

                              EEEEEEE-TTSSEEEEEE CS
                  DPPIV_N 330 dhysasfspsgkyyvlky 347
                              ++ + sfs++g+++  + 
  PHY93_03725|PHY93_03725 386 SNEDPSFSNDGEFIAFTS 403
                              *99********9987665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (442 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       465  (0.0259356); expected 358.6 (0.02)
Passed bias filter:                      355  (0.0198003); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.63u 0.27s 00:00:00.90 Elapsed: 00:00:00.47
# Mc/sec: 2803.09
//
Query:       PHY93_03730|PHY93_03730  [L=508]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.6e-35  120.8   0.2    1.2e-34  119.4   0.2    1.8  1  Sigma54_activat  Sigma-54 interaction domain
      6e-20   71.8   0.0    1.4e-19   70.6   0.0    1.6  1  Sigma54_activ_2  Sigma-54 interaction domain
    1.1e-11   44.4   0.0    2.4e-11   43.2   0.0    1.6  1  HTH_8            Bacterial regulatory protein, Fis family
    4.5e-06   27.0   0.0    7.9e-06   26.2   0.0    1.4  1  GAF_2            GAF domain
     0.0015   19.2   0.0     0.0027   18.3   0.0    1.4  1  GAF              GAF domain
  ------ inclusion threshold ------
      0.011   16.1   0.0      0.028   14.8   0.0    1.7  1  AAA_16           AAA ATPase domain
      0.071   13.2   0.0       0.29   11.3   0.0    2.0  2  HTH_7            Helix-turn-helix domain of resolvase
       0.11   12.3   0.0       0.25   11.1   0.0    1.6  1  HTH_30           PucR C-terminal helix-turn-helix domain


Domain annotation for each model (and alignments):
>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  119.4   0.2   5.3e-38   1.2e-34       1     167 [.     203     360 ..     203     361 .. 0.98

  Alignments for each domain:
  == domain 1  score: 119.4 bits;  conditional E-value: 5.3e-38
                              ----SHHHHHHHHHHHHHCTSSS-EEEECSTTSSHHHHHHHHHHHSTTTTS-EEEEETTTS-TTCHHHHHHEBSSSSSTTTSS-BE CS
          Sigma54_activat   1 ligesealkelleqikkvaktdlsvlitGesGtGKellaraiheaskrkekpfvavncaaipeelleseLFGhekGaFtGAekekk 86 
                              +ig+s+a+k+ll+ ++++ ++d+s +i+Ge  tGKe++ar ih +s+r+++ fva++c+ ++e+ l+ e+FG          ++++
  PHY93_03730|PHY93_03730 203 IIGRSQAMKDLLALVDRICDKDISAFIMGEAATGKEMIARRIHCRSHRRDRAFVAIDCSTMNEKQLDIEIFGD---------ETHM 279
                              799*********************************************************************6.........5799 PP

                              HHHHHTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEESBTSSSEEE--EEEEEEESS-HHHHHHTTSS-HHHHHHHTSEEE CS
          Sigma54_activat  87 GlfekadgGtlfLDeigelplelQekLlrvlqegevervGsskeikvdvriiaatnedleeaveegkfredLyyrlnviei 167
                              G++e a+ Gtlf++  +++p+++Q+kL++ + ++   + Gs++  k dvri++a+++dl + v++  fredLy+ l+++ +
  PHY93_03730|PHY93_03730 280 GMLEVANFGTLFINSTESMPANIQNKLMQYMTSKMGIKAGSQSFFKSDVRIVSASTKDLMDLVKASAFREDLYFALSTVVL 360
                              ****************************************************************************98865 PP

>> Sigma54_activ_2  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.6   0.0   6.1e-23   1.4e-19       1     138 []     204     365 ..     204     365 .. 0.97

  Alignments for each domain:
  == domain 1  score: 70.6 bits;  conditional E-value: 6.1e-23
                              X---HHHHHHHHHHHHHHT-SS-EEEEEETT--HHHHHHCC--TTS-EE--SSTTHHHH-H..............HHHHHHTTTSE CS
          Sigma54_activ_2   1 lgasaaiqelkerLeqaaqsklpvfltGekGsgkelvArlLhknsgpwleifvverlaklp..............ldlleqakggt 72 
                              +g+s+a+++l   ++ +  +    f++Ge+ +gke++Ar +h  s + +  fv +++++++              + +le a+ gt
  PHY93_03730|PHY93_03730 204 IGRSQAMKDLLALVDRICDKDISAFIMGEAATGKEMIARRIHCRSHRRDRAFVAIDCSTMNekqldieifgdethMGMLEVANFGT 289
                              79*********************************************************999999999999999999********* PP

                              EEEEE-TT--HHHHHHHHHHHHH..........HTTTT-EEEEEEEE-TTT..----HHHHHHHHSSSEEEEE--- CS
          Sigma54_activ_2  73 LylkdiadlskaeqkeLlellak..........aeksslrlVstsskdleqlleagafdekLlkeLselrlhvPpL 138
                              L+++  ++++++ q +L++++ +            ks++r+Vs+s kdl  l++a+af e L+++Ls ++l+ P+L
  PHY93_03730|PHY93_03730 290 LFINSTESMPANIQNKLMQYMTSkmgikagsqsFFKSDVRIVSASTKDLMDLVKASAFREDLYFALSTVVLKAPAL 365
                              ******************************976339**************************************98 PP

>> HTH_8  Bacterial regulatory protein, Fis family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.2   0.0   1.1e-14   2.4e-11       1      40 [.     461     500 ..     461     502 .. 0.95

  Alignments for each domain:
  == domain 1  score: 43.2 bits;  conditional E-value: 1.1e-14
                              HHHHHHHHHHHHHHHHTTT-HHHHHHHHTS-HHHHHHHHH CS
                    HTH_8   1 sleevEkelIeaALertgGnkskAArlLGisRrtLyrKLk 40 
                              +lee+Ek +I+ +Le  gGnk+k+A+ LGi+ +tLy+KL 
  PHY93_03730|PHY93_03730 461 TLEELEKGHIMCTLENLGGNKTKTAKVLGITVKTLYNKLH 500
                              69************************************96 PP

>> GAF_2  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.2   0.0   3.5e-09   7.9e-06      41     134 ..      61     153 ..      29     157 .. 0.81

  Alignments for each domain:
  == domain 1  score: 26.2 bits;  conditional E-value: 3.5e-09
                              ES-TTSTT-S-B---TTHHHHHHHHTS-EEES-GGG-S-HHHHHHHHHTT--EEEEEE-TTS---EEEEES.......--HHHHHH CS
                    GAF_2  41 eaeeefgaaldrplgeglvgealrtgrpvilndleedpdkkglpaghaglrsflavPlisegrvvGvlnlyankppa.fdeedlel 125
                              e +e++  a+  ++g g vg+++rt++  + n +e+dp   ++  +  g++++l++P+  +g v+G ++ + n+ ++ f++ed+++
  PHY93_03730|PHY93_03730  61 ENGESVLNAIILDKGVGAVGYIARTKKGYFSNTVERDPVFTRE--ATLGIKAELCLPISVDGVVIGSIHCQMNDSSReFSREDMTF 144
                              4455555555456788999***********999***9999888..6************999********954444446******99 PP

                              HHHHHHHHH CS
                    GAF_2 126 Leelaeqia 134
                                ++ + i+
  PHY93_03730|PHY93_03730 145 GVSIINSIS 153
                              888777765 PP

>> GAF  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.0   1.2e-06    0.0027      43     121 ..      70     144 ..      24     156 .. 0.73

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 1.2e-06
                              EEEETTSHHHHHHHHHSSSEEESTGGTSTTHHTTHHHHHHHHTTESEEEEEEEEETTEEEEEEEEEE..SSSCSHHHHHHH CS
                      GAF  43 lfmkngrgicgqvlatgqplvipdstpdprfaqynrrdllenmgirsslvvPlvndgelwGllvlhn..psppftreelel 121
                              +    g g +g++++t++    + + +dp f +       +  gi++ l++P+ +dg ++G + +     s++f+re++ +
  PHY93_03730|PHY93_03730  70 IILDKGVGAVGYIARTKKGYFSNTVERDPVFTR------EATLGIKAELCLPISVDGVVIGSIHCQMndSSREFSREDMTF 144
                              333336667779999999999998889****99......578************************9654448*****988 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   0.0   1.2e-05     0.028       3      63 ..     204     263 ..     202     286 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 1.2e-05
                   AAA_16   3 vGReeeleqLlsalervrsgrpelvllsGesGvGKsslvrellralekdggiflrgkcdql 63 
                              +GR + ++ Ll++++r+++ +  + ++ Ge+++GK  ++r+++ +  +++  f++ +c   
  PHY93_03730|PHY93_03730 204 IGRSQAMKDLLALVDRICDKDI-SAFIMGEAATGKEMIARRIHCRSHRRDRAFVAIDCSTM 263
                              8********************6.999*****************777777788887777655 PP

>> HTH_7  Helix-turn-helix domain of resolvase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0       2.2   4.9e+03      13      23 ..      46      56 ..      44      57 .. 0.85
   2 ?   11.3   0.0   0.00013      0.29      20      43 ..     477     500 ..     465     501 .. 0.84

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 2.2
                             GGGSSTTTT-- CS
                    HTH_7 13 rvvkLleeGis 23
                             ++ kLle+G++
  PHY93_03730|PHY93_03730 46 QAYKLLENGQA 56
                             6789*****86 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 0.00013
                              TT--STTTSSSS---SSSS--SS- CS
                    HTH_7  20 eGisiskIAkevnisRsTvYRyla 43 
                               G  ++k+Ak ++i++ T+Y +l+
  PHY93_03730|PHY93_03730 477 LGGNKTKTAKVLGITVKTLYNKLH 500
                              566789**************9998 PP

>> HTH_30  PucR C-terminal helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   0.00011      0.25      12      34 ..     478     500 ..     470     502 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00011
                              TT-HHHHHHHHTS-HHHHHHHHH CS
                   HTH_30  12 ggnisatAkaLhvHrnTlryRLr 34 
                              ggn+++tAk L++ + Tl++ L+
  PHY93_03730|PHY93_03730 478 GGNKTKTAKVLGITVKTLYNKLH 500
                              79*****************9985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (508 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       808  (0.0450667); expected 358.6 (0.02)
Passed bias filter:                      484  (0.0269954); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.68u 0.26s 00:00:00.94 Elapsed: 00:00:00.48
# Mc/sec: 3208.80
//
Query:       PHY93_03735|PHY93_03735  [L=74]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (74 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1467  (0.0818227); expected 358.6 (0.02)
Passed bias filter:                      371  (0.0206927); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 503.70
//
Query:       PHY93_03740|PHY93_03740  [L=484]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.1e-08   33.9   0.6    9.5e-08   32.3   0.6    1.9  1  HD        HD domain


Domain annotation for each model (and alignments):
>> HD  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.3   0.6   5.3e-12   9.5e-08       1     121 [.      62     208 ..      62     209 .. 0.84

  Alignments for each domain:
  == domain 1  score: 32.3 bits;  conditional E-value: 5.3e-12
                              HHHHHHHHHHHHHHHHHHHHH................HHHHHHHHHHHHHTTTTHHHHTS..HHH........HHH...CTCCHHH CS
                       HD   1 rleHsleVaklarrlaedlge................eedrellllaaLlHDiGkgpfgdafekk........eee...fekflaH 59 
                              r+ Hs++V++ a ++ e+ g+                      l+laaL+HD+G  +f+++ e +        +     ++   +H
  PHY93_03740|PHY93_03740  62 RFHHSIGVMYNAHKILESCGRavsekdlmdldcltpeAIYHKSLRLAALMHDLGTFLFSHTTEGAyidygettH-SkggKGLPDDH 146
                              799********************************99666677*****************99999999976551.0567666679* PP

                              HHHHHHHHHHHHHHHHHH.........HHHHHHHHHTTCCHHHHHHHHHHHHCCTSCHHHHHHHHHHHHHH CS
                       HD  60 ekvgaeilrevekrlgld.........ledvaklirehheswegkkrprglaerqlslearivklaDrlaa 121
                              e  g  i+++  ++ g +          + +++l++   es+          + q+ +++ + +++D+l +
  PHY93_03740|PHY93_03740 147 ENLGSFIIKNTDYDGGIAhilkkygisPQRISDLVKGVDESIL---------ANQILHSEVDCDRMDYLLR 208
                              *************997767777777776666666666666666.........5599999********9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (484 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       623  (0.0347482); expected 358.6 (0.02)
Passed bias filter:                      528  (0.0294495); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.67u 0.25s 00:00:00.92 Elapsed: 00:00:00.48
# Mc/sec: 3032.29
//
Query:       PHY93_03745|PHY93_03745  [L=237]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.9e-26   91.0   0.0    1.2e-25   90.6   0.0    1.2  1  ABC_tran         ABC transporter
    1.3e-10   41.6   0.5    0.00014   21.8   0.0    2.1  2  AAA_21           AAA domain, putative AbiEii toxin, Type IV T
    2.6e-05   24.7   0.1    3.8e-05   24.1   0.1    1.4  1  AAA_16           AAA ATPase domain
    0.00029   20.6   0.1      0.017   14.8   0.0    2.1  2  AAA_30           AAA domain
    0.00045   20.5   0.6     0.0019   18.4   0.6    1.9  1  AAA_22           AAA domain
     0.0011   19.0   0.1     0.0019   18.1   0.1    1.5  1  RsgA_GTPase      RsgA GTPase
     0.0016   19.0   0.5     0.0029   18.2   0.4    1.6  1  AAA_18           AAA domain
     0.0019   17.9   0.0     0.0039   16.9   0.0    1.6  1  AAA_29           P-loop containing region of AAA domain
     0.0033   17.2   0.0        1.7    8.3   0.0    2.2  2  IstB_IS21        IstB-like ATP binding protein
     0.0036   17.2   0.1     0.0045   16.9   0.1    1.4  1  ATPase_2         ATPase domain predominantly from Archaea
     0.0047   16.0   0.8     0.0094   15.0   0.1    1.7  2  T2SSE            Type II/IV secretion system protein
     0.0085   16.3   0.1      0.015   15.5   0.1    1.4  1  AAA_28           AAA domain
      0.009   15.3   0.0      0.015   14.5   0.0    1.4  1  Zeta_toxin       Zeta toxin
  ------ inclusion threshold ------
      0.011   15.0   0.1      0.022   14.0   0.0    1.5  2  PIF1             PIF1-like helicase
      0.011   14.5   0.0       0.73    8.4   0.0    2.1  2  AAA_13           AAA domain
      0.014   15.6   0.5      0.059   13.5   0.5    1.9  1  AAA_33           AAA domain
      0.015   15.2   0.0      0.022   14.7   0.0    1.4  1  Rad17            Rad17 P-loop domain
      0.018   15.5   0.7      0.034   14.7   0.2    1.5  1  AAA_23           AAA domain
      0.028   14.1   0.0      0.047   13.4   0.0    1.3  1  Sigma54_activat  Sigma-54 interaction domain
      0.038   13.6   0.0      0.077   12.6   0.0    1.5  1  AAA_25           AAA domain
      0.039   13.8   0.3       0.13   12.2   0.2    1.8  2  NTPase_1         NTPase
       0.06   12.9   0.1        0.1   12.2   0.1    1.4  1  cobW             CobW/HypB/UreG, nucleotide-binding domain
      0.066   13.2   0.1       0.17   11.9   0.1    1.6  1  TsaE             Threonylcarbamoyl adenosine biosynthesis pro
      0.066   13.1   0.0       0.12   12.3   0.0    1.4  1  NACHT            NACHT domain
      0.079   13.0   0.0       0.15   12.1   0.0    1.6  1  AAA_14           AAA domain
      0.085   12.1   0.0        0.1   11.8   0.0    1.2  1  DUF2075          Uncharacterized conserved protein (DUF2075)
       0.09   12.5   0.0       0.12   12.1   0.0    1.3  1  AAA_24           AAA domain
      0.092   11.8   0.0       0.13   11.4   0.0    1.2  1  Plant_NMP1       Plant nuclear matrix protein 1 (NMP1)
       0.12   11.5   0.0       0.16   11.1   0.0    1.3  1  G-alpha          G-protein alpha subunit
       0.15   12.0   0.1       0.28   11.1   0.1    1.4  1  APS_kinase       Adenylylsulphate kinase
       0.15   11.2   0.2       0.62    9.2   0.0    1.8  2  NB-ARC           NB-ARC domain
       0.17   11.6   0.0       0.21   11.3   0.0    1.3  1  PRK              Phosphoribulokinase / Uridine kinase family
        0.2   12.0   0.6       0.84   10.0   0.6    1.9  1  AAA_19           AAA domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   90.6   0.0   2.3e-28   1.2e-25       1     137 []      39     180 ..      39     180 .. 0.88

  Alignments for each domain:
  == domain 1  score: 90.6 bits;  conditional E-value: 2.3e-28
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH....... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren....... 79 
                              lkn++l++++ge++ ++G +GaGK+tLlkll+gl +pt+G+i ++ + +      + +  i+ ++q+ +l  ++t++en       
  PHY93_03745|PHY93_03745  39 LKNIQLTVERGEIIFVTGASGAGKTTLLKLLSGLQEPTSGKI-IRPNFFAG----KKNLYISNVFQDLRLMGKYTCEENlmfayds 119
                              79****************************************.66555554....677889************************9 PP

                              ...HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              ...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ...esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                                 ++++e+ + +++l  +   +++++ + ++  gG +q+va++r+ll++p++l++DEpt+
  PHY93_03745|PHY93_03745 120 siyKDKAEFIQDMHELTRILGIKDRLHLKINQANGGLQQKVAIVRSLLTRPDVLIADEPTS 180
                              998667776666666655555677778899*****************************96 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.3     3e-06    0.0016       2      25 ..      52      75 ..      51     105 .. 0.69
   2 !   21.8   0.0   2.6e-07   0.00014     240     301 ..     155     214 ..     111     216 .. 0.82

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 3e-06
                   AAA_21  2 nvliGpNgsGKSnLLdaldllarl 25
                              +++G+ g+GK++LL++l++l+  
  PHY93_03745|PHY93_03745 52 IFVTGASGAGKTTLLKLLSGLQEP 75
                             689******************853 PP

  == domain 2  score: 21.8 bits;  conditional E-value: 2.6e-07
                   AAA_21 240 GtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsr.ngaQviltTHSpll 301
                              G ++  a++ +ll ++   ++l+ DEp ++L+ +  rrl++++++ ++ +g  v+ +TH+ +l
  PHY93_03745|PHY93_03745 155 GLQQKVAIVRSLLTRP---DVLIADEPTSSLDTENARRLFDVFNLYNAkRGLTVVWATHNKEL 214
                              6677778888999888...9***********************5555558*********9766 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.1   0.1     7e-08   3.8e-05       7      51 ..      34      75 ..      34     200 .. 0.71

  Alignments for each domain:
  == domain 1  score: 24.1 bits;  conditional E-value: 7e-08
                   AAA_16  7 eeleqLlsalervrsgrpelvllsGesGvGKsslvrellralekd 51
                             +e+++L+++  +v +g  e+++++G+sG GK++l++ l   l++ 
  PHY93_03745|PHY93_03745 34 NEIRALKNIQLTVERG--EIIFVTGASGAGKTTLLKLLS-GLQEP 75
                             5899999999999999..8****************9887.45544 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.0   3.2e-05     0.017      14      46 ..      45      77 ..      39      88 .. 0.80
   2 ?    3.8   0.0     0.074        40      81     118 ..     157     200 ..     122     205 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 3.2e-05
                   AAA_30 14 ltsgdrvavltGpAGtGKttalkalreaweaag 46
                             + ++  + ++tG+ G+GKtt+lk l  + e   
  PHY93_03745|PHY93_03745 45 TVERGEIIFVTGASGAGKTTLLKLLSGLQEPTS 77
                             44555699***************9988877664 PP

  == domain 2  score: 3.8 bits;  conditional E-value: 0.074
                   AAA_30  81 k.....grarlepgtllivDE.agmvdtkqlaallkaaekagak 118
                              +      r  l++ ++li DE ++ +dt+++++l++  + ++ak
  PHY93_03745|PHY93_03745 157 QqkvaiVRSLLTRPDVLIADEpTSSLDTENARRLFDVFNLYNAK 200
                              04455544567788*******77899********9988776665 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.6   3.6e-06    0.0019       4      29 ..      48      73 ..      45     214 .. 0.60

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 3.6e-06
                   AAA_22  4 tagilvvtGesGtGKTtllrrlleql 29
                             +  i++vtG sG+GKTtll+ l    
  PHY93_03745|PHY93_03745 48 RGEIIFVTGASGAGKTTLLKLLSGLQ 73
                             5689****************998765 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.1   3.6e-06    0.0019      85     126 ..      34      76 ..      24     124 .. 0.75

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 3.6e-06
                              TTHTTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT---- CS
              RsgA_GTPase  85 ktkegleelkellkd.ktsvlvGqSGvGKStLinallpelelk 126
                              ++ ++l++++  ++  +++++ G SG+GK+tL++ l + +e  
  PHY93_03745|PHY93_03745  34 NEIRALKNIQLTVERgEIIFVTGASGAGKTTLLKLLSGLQEPT 76 
                              555677888888877699999**************99964433 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.4   5.3e-06    0.0029       1      22 [.      52      73 ..      52     144 .. 0.78

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 5.3e-06
                   AAA_18  1 IlltGtpGvGKttlakeLskrl 22
                             I++tG++G+GKttl k Ls + 
  PHY93_03745|PHY93_03745 52 IFVTGASGAGKTTLLKLLSGLQ 73
                             99****************8664 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0   7.1e-06    0.0039      16      39 ..      43      66 ..      30      77 .. 0.83

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 7.1e-06
                   AAA_29 16 tieidlkgatlltGpsGsGKSTll 39
                             ++++++ +++++tG+sG+GK+Tll
  PHY93_03745|PHY93_03745 43 QLTVERGEIIFVTGASGAGKTTLL 66
                             566775569**************8 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.3   0.0    0.0032       1.7      30      63 ..      31      65 ..      22      78 .. 0.79
   2 !    6.8   0.0    0.0093         5      90     140 ..     147     200 ..     139     219 .. 0.67

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0032
                IstB_IS21 30 ldkrkvkeLatlsf.iekkenivllGpsGvGKshl 63
                             ++ +++++L + +  +e+ e i ++G sG+GK+ l
  PHY93_03745|PHY93_03745 31 VEFNEIRALKNIQLtVERGEIIFVTGASGAGKTTL 65
                             55566777777665378899999**********87 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.0093
                IstB_IS21  90 lkrarrdgklaral....krllkvdllilDdlgllpldqaeaellfeviekryer 140
                              lk+++++g l++++    + l+++d+li D+  +  ld ++a+ lf+v +    +
  PHY93_03745|PHY93_03745 147 LKINQANGGLQQKVaivrSLLTRPDVLIADEP-TSSLDTENARRLFDVFNLYNAK 200
                              444444444444331111457899******96.6789999999**9998754444 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.1   8.2e-06    0.0045       6      39 ..      37      68 ..      33     177 .. 0.88

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 8.2e-06
                 ATPase_2  6 kelkeleeilerepneiyfiYGpegsGKtaLlke 39
                             ++lk+++  +er   ei+f++G  g GKt+Llk 
  PHY93_03745|PHY93_03745 37 RALKNIQLTVER--GEIIFVTGASGAGKTTLLKL 68
                             566777766666..99****************95 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.1   1.7e-05    0.0094     120     153 ..      40      73 ..      28      82 .. 0.79
   2 ?   -1.3   0.0       1.6   8.7e+02     173     204 ..     143     174 ..     123     177 .. 0.74

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 1.7e-05
                    T2SSE 120 evlrkavrerglilvsGgTgsGKttllyallkei 153
                              + ++  v++  +i v+G+ g GKttll  l    
  PHY93_03745|PHY93_03745  40 KNIQLTVERGEIIFVTGASGAGKTTLLKLLSGLQ 73 
                              567888999999***************8776654 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 1.6
                    T2SSE 173 ganqvqlnakkakvtfadllraaLRlrPDrim 204
                              +   +++n+++++++ + ++  +L  rPD+++
  PHY93_03745|PHY93_03745 143 DRLHLKINQANGGLQQKVAIVRSLLTRPDVLI 174
                              44556677777888888888888889999987 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.1   2.8e-05     0.015       2      22 ..      52      72 ..      51      93 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 2.8e-05
                   AAA_28  2 ivitGgestGKTtlleaLaar 22
                             i +tG++++GKTtll+ L+  
  PHY93_03745|PHY93_03745 52 IFVTGASGAGKTTLLKLLSGL 72
                             789**************9854 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.5   0.0   2.8e-05     0.015       7      37 ..      41      70 ..      34      82 .. 0.77

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 2.8e-05
               Zeta_toxin  7 dkkypsqerPklillgGqpGAGKselaellk 37
                             +++  + er  +i++ G++GAGK++l++ll 
  PHY93_03745|PHY93_03745 41 NIQ-LTVERGEIIFVTGASGAGKTTLLKLLS 70
                             333.6678999****************9986 PP

>> PIF1  PIF1-like helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0     4e-05     0.022      12      45 ..      41      72 ..      32      82 .. 0.80
   2 ?   -3.5   0.0       8.2   4.5e+03     179     217 ..     191     229 ..     180     231 .. 0.74

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 4e-05
                             HH......HCTS-EEEEESTTSSCHHHHHHHHHH CS
                     PIF1 12 aiieavlnekgklfFvtGsgGtgKtflwkallkk 45
                             +i  +++ e+g+++FvtG +G+gKt l+k l+  
  PHY93_03745|PHY93_03745 41 NI--QLTVERGEIIFVTGASGAGKTTLLKLLSGL 72
                             55..566799******************998765 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 8.2
                              --EEEE-S-STTTT...........HHHHHHHHHHHCT- CS
                     PIF1 179 vkvlkLtknmRllsesldetekkelkeFskwllkigdGk 217
                              + v++L +  R l+    +++k+  k+F+  + ++ +G+
  PHY93_03745|PHY93_03745 191 FDVFNLYNAKRGLTVVWATHNKELCKSFTGRIIHLDNGR 229
                              567777777777777777777777888888888888886 PP

>> AAA_13  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.4   0.0    0.0013      0.73      20      53 ..      53      85 ..      41     132 .. 0.75
   2 ?    4.2   0.0     0.025        14     526     579 ..     169     220 ..     162     229 .. 0.74

  Alignments for each domain:
  == domain 1  score: 8.4 bits;  conditional E-value: 0.0013
                   AAA_13 20 liYGwNGaGKTtLSrllrslelgetepkfangsi 53
                             ++ G+ GaGKTtL +ll+ l++  t+ k   +++
  PHY93_03745|PHY93_03745 53 FVTGASGAGKTTLLKLLSGLQE-PTSGKIIRPNF 85
                             556999**************75.55666666666 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.025
                   AAA_13 526 kdkivviDDPvSSLDsns...lfivfsliksrllkkkkakQlfiLTHnleffkevkk 579
                                 + + D P SSLD++    lf vf+l +++         +   THn e+ k ++ 
  PHY93_03745|PHY93_03745 169 RPDVLIADEPTSSLDTENarrLFDVFNLYNAKR-----GLTVVWATHNKELCKSFTG 220
                              5678999********974333899998877664.....4456677888888777765 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.5   0.00011     0.059       2     109 ..      52     213 ..      51     218 .. 0.54

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 0.00011
                   AAA_33   2 vllvGlpGsGKstlaerl..lkklg.avllssdt................................................lrrr 36 
                              +++ G++G+GK+tl++ l  l++ + + +++ +                                                 +++r
  PHY93_03745|PHY93_03745  52 IFVTGASGAGKTTLLKLLsgLQEPTsGKIIRPNFfagkknlyisnvfqdlrlmgkytceenlmfaydssiykdkaefiqdmhELTR 137
                              8999***********98855555555555555556666666666666666666666666666666555555555553333333333 PP

                   AAA_33  37 lfg.tdqqsktdytrvldrlyqilnelarkalsagrnvildatnls..rrerarflklarrlgvpv..rivvvetdee 109
                              + g +d+ +++  ++++  l q + +++r+ l++   +i+d +  s   ++ +r++ +++ +++++  ++v+ +   e
  PHY93_03745|PHY93_03745 138 ILGiKDRLHLK-INQANGGLQQKV-AIVRSLLTRPDVLIADEPTSSldTENARRLFDVFNLYNAKRglTVVWATHNKE 213
                              33333333322.222333344444.66666666666677777755532344456666666666653225555555555 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.0     4e-05     0.022      34      75 ..      38      79 ..      27     136 .. 0.83

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 4e-05
                    Rad17 34 wlkadvLesrkkriLLisGPsGCgkstvvkvLskelgiklre 75
                             +lk   L  ++ +i+ ++G sG gk+t +k Ls    +   +
  PHY93_03745|PHY93_03745 38 ALKNIQLTVERGEIIFVTGASGAGKTTLLKLLSGLQEPTSGK 79
                             5666677777788*******************9776665555 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.2   6.2e-05     0.034       2      38 ..      31      68 ..      30      72 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 6.2e-05
                   AAA_23  2 LkienfrsfrdqeidFsk.gltlItGpNGaGKTTildA 38
                             ++ + +r +++ ++  ++  +  +tG  GaGKTT+l  
  PHY93_03745|PHY93_03745 31 VEFNEIRALKNIQLTVERgEIIFVTGASGAGKTTLLKL 68
                             56677888888888886636999************976 PP

>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   8.6e-05     0.047      11      71 ..      38      98 ..      31     110 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 8.6e-05
                             HHHHHHHHCTSSS-EEEECSTTSSHHHHHHHHHHHSTTTTS-EEEEETTTS-TTCHHHHHH CS
          Sigma54_activat 11 lleqikkvaktdlsvlitGesGtGKellaraiheaskrkekpfvavncaaipeelleseLF 71
                             +l++i+ +++    +++tG sG+GK++l +++   ++ +++++++ n  a +++l  s++F
  PHY93_03745|PHY93_03745 38 ALKNIQLTVERGEIIFVTGASGAGKTTLLKLLSGLQEPTSGKIIRPNFFAGKKNLYISNVF 98
                             566777778888899****************************************999999 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   0.00014     0.077      25      50 ..      41      66 ..      28      71 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 0.00014
                   AAA_25 25 lvkgllpagelallaGapgtGKttla 50
                              ++  + +ge++ ++Ga+g+GKttl+
  PHY93_03745|PHY93_03745 41 NIQLTVERGEIIFVTGASGAGKTTLL 66
                             56667899****************97 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.2   0.00023      0.13       2      19 ..      52      69 ..      51      78 .. 0.87
   2 ?   -1.6   0.0       4.2   2.3e+03      88     103 ..     162     177 ..     155     214 .. 0.69

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 0.00023
                             EEEE--TTSSHHHHHHHH CS
                 NTPase_1  2 vfiTGppGvGKtTlvkkv 19
                             +f+TG +G GKtTl+k +
  PHY93_03745|PHY93_03745 52 IFVTGASGAGKTTLLKLL 69
                             89************9865 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 4.2
                              HHHHHHHHH-EEEE-- CS
                 NTPase_1  88 alrkalseadviviDE 103
                              ++r  l+++dv++ DE
  PHY93_03745|PHY93_03745 162 IVRSLLTRPDVLIADE 177
                              4555556666666666 PP

>> cobW  CobW/HypB/UreG, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.1   0.00019       0.1       2      21 ..      51      70 ..      50      89 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 0.00019
                             EEEEEESTTCCHHHHHHHHH CS
                     cobW  2 vtvltGflGsGKTtLlnhll 21
                             ++ +tG  G+GKTtLl+ l 
  PHY93_03745|PHY93_03745 51 IIFVTGASGAGKTTLLKLLS 70
                             5789************9776 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.1    0.0003      0.17      18      39 ..      46      69 ..      32      89 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.0003
                             H..TEEEEEEESTTSSHHHHHHHH CS
                     TsaE 18 l..gdvilLeGdLGaGKTtlvrgl 39
                             +  g++i+ +G  GaGKTtl + l
  PHY93_03745|PHY93_03745 46 VerGEIIFVTGASGAGKTTLLKLL 69
                             244889**************9966 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   0.00022      0.12       2      20 ..      51      69 ..      50      86 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00022
                             CEEEEC-TTTCHHHHHHHH CS
                    NACHT  2 lvilqGeaGsGKTtLlqkl 20
                             +++++G++G GKTtLl+ l
  PHY93_03745|PHY93_03745 51 IIFVTGASGAGKTTLLKLL 69
                             689*************754 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   0.00028      0.15       2      37 ..      49      84 ..      48     138 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00028
                   AAA_14  2 rkilvitGaRrvGKTtllkqlikellvkkesilyin 37
                             ++i+++tGa  +GKTtllk l   +  ++ +i+  n
  PHY93_03745|PHY93_03745 49 GEIIFVTGASGAGKTTLLKLLSGLQEPTSGKIIRPN 84
                             5799*************9887543334445555544 PP

>> DUF2075  Uncharacterized conserved protein (DUF2075)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   0.00019       0.1       2      22 ..      50      69 ..      49     151 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00019
                  DUF2075  2 avvlVtGvaGtGKtvvllnll 22
                             ++++VtG++G+GKt +l +ll
  PHY93_03745|PHY93_03745 50 EIIFVTGASGAGKTTLL-KLL 69
                             589***********875.444 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   0.00021      0.12       5      39 ..      52      93 ..      48     133 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00021
                   AAA_24  5 iliyGpsgiGKTtlakel.......gpkplfidtekGlksld 39
                             i+++G sg+GKTtl+k l         k++  ++++G k+l+
  PHY93_03745|PHY93_03745 52 IFVTGASGAGKTTLLKLLsglqeptSGKIIRPNFFAGKKNLY 93
                             899*************99887766555555556666666665 PP

>> Plant_NMP1  Plant nuclear matrix protein 1 (NMP1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00023      0.13      39     127 ..     101     188 ..      65     202 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00023
               Plant_NMP1  39 fkllgdkspftqqnlqgdaldrdeetsriqylaeiakflgitptvdteaiqgrgsyedrvellrlivdlveaslvadnpewsvdeq 124
                              ++l+g  +   +  +  d+    ++++ iq + e++++lgi   + ++  q +g  +++v ++r ++   +  l+ad+p  s+d +
  PHY93_03745|PHY93_03745 101 LRLMGKYTCEENLMFAYDSSIYKDKAEFIQDMHELTRILGIKDRLHLKINQANGGLQQKVAIVRSLLTRPD-VLIADEPTSSLDTE 185
                              5666666666666666777777788999*************************************998765.5899******9987 PP

               Plant_NMP1 125 vak 127
                               a+
  PHY93_03745|PHY93_03745 186 NAR 188
                              665 PP

>> G-alpha  G-protein alpha subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   0.00029      0.16      26      83 ..      52     113 ..      30     212 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00029
                              EEEEESTTSSHHHHHHHHHHHCS--....--HHHHHCCHHHHHHHHHHHHHHHHHHHHHTT. CS
                  G-alpha  26 llllGqseSGKsTilkqlkllykkg....fseeelatwraviqlnivrsiktilealesles 83 
                              + + G+s+ GK+T+lk l  l +++    ++ +  a  +++ ++n+ ++++++ +   +++ 
  PHY93_03745|PHY93_03745  52 IFVTGASGAGKTTLLKLLSGLQEPTsgkiIRPNFFAGKKNLYISNVFQDLRLMGKYTCEENL 113
                              7889***************9999988887676655779999999*99999998877766433 PP

>> APS_kinase  Adenylylsulphate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.1   0.00051      0.28       1      22 [.      48      69 ..      48      78 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00051
                             S-EEEEEESSTTSSHHHHHHHH CS
               APS_kinase  1 rgvvvwltGlsgsGKstianal 22
                             rg ++++tG sg+GK+t+ + l
  PHY93_03745|PHY93_03745 48 RGEIIFVTGASGAGKTTLLKLL 69
                             5789*************97766 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   0.0    0.0011      0.62      18      38 ..      48      67 ..      34      75 .. 0.81
   2 ?   -0.3   0.0      0.91   4.9e+02      85     147 ..     151     218 ..     116     225 .. 0.60

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.0011
                             SCSEEEEEEESTTSSHHHHHH CS
                   NB-ARC 18 lqslvvalvGmgGvGKttlak 38
                              +  ++++ G  G GKttl+k
  PHY93_03745|PHY93_03745 48 RG-EIIFVTGASGAGKTTLLK 67
                             44.59**************86 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.91
                              SS-STTSHHHHHHHHCCCTTEEEEEEEE-SHHH......H.....HHHHCHTTSEEEEEESBCCCCCCS CS
                   NB-ARC  85 ekeeveslkrklvrlLltkrfllvlDDVweeed......wdkigvvlparenrlrvllTTRdeevanav 147
                              + + + + k  +vr Llt+  +l+ D    + d      +  +   + + +++l v+  T ++e++++ 
  PHY93_03745|PHY93_03745 151 QANGGLQQKVAIVRSLLTRPDVLIADEPTSSLDtenarrLFDVFNLY-NAKRGLTVVWATHNKELCKSF 218
                              33444446677777777777777777644333311122222222233.367777888888888887765 PP

>> PRK  Phosphoribulokinase / Uridine kinase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00039      0.21       1      20 [.      51      70 ..      51     130 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00039
                      PRK  1 vIgvagsSGaGkttvarkle 20
                             +I v+g+SGaGktt+ + l 
  PHY93_03745|PHY93_03745 51 IIFVTGASGAGKTTLLKLLS 70
                             799***********988764 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.6    0.0015      0.84      10      30 ..      49      69 ..      40     206 .. 0.71

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.0015
                   AAA_19 10 ekvllvtaGpGtGKTrvlkhi 30
                              ++++vt+  G GKT++lk  
  PHY93_03745|PHY93_03745 49 GEIIFVTGASGAGKTTLLKLL 69
                             57899***********99865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (237 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       518  (0.0288917); expected 358.6 (0.02)
Passed bias filter:                      496  (0.0276647); expected 358.6 (0.02)
Passed Vit filter:                       118  (0.00658152); expected 17.9 (0.001)
Passed Fwd filter:                        33  (0.00184059); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              33  [number of targets reported over threshold]
# CPU time: 0.62u 0.29s 00:00:00.90 Elapsed: 00:00:00.47
# Mc/sec: 1512.12
//
Query:       PHY93_17240|PHY93_17240  [L=159]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.4e-32  113.1   8.2    1.6e-32  112.9   8.2    1.0  1  PHO4      Phosphate transporter family


Domain annotation for each model (and alignments):
>> PHO4  Phosphate transporter family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  112.9   8.2     9e-37   1.6e-32     186     335 ..       7     145 ..       2     147 .. 0.90

  Alignments for each domain:
  == domain 1  score: 112.9 bits;  conditional E-value: 9e-37
                     PHO4 186 eklfkflqvvsaalvsfahGanDvanaiGpllaalisiykaskevplwvlllgglaialGlllgGkrviktvGekitkkltpsrGf 271
                               k++ +l+ +sa+lv+fa G nD+ +  ++l +++   +  s      + +l+++a+a G l+  +r+ +t+++k+t +++  +Gf
  PHY93_17240|PHY93_17240   7 AKALDALHFLSAGLVCFARGLNDTPKLAALL-LMVPF-L--S---TERMTALIAIAMASGGLIHSRRIAETMSHKVT-SMNSKQGF 84 
                              5677899***********************9.54521.1..1...22477999************************.6******* PP

                     PHO4 272 aaelaaaltvllasklglPvStThvlvgavvGvGlakkresavnwklvrnivlaWvlTlpvsal 335
                              aa++++a++v + sk++lPvStThv vg  +GvGl  k   + nw ++r+i++aW++Tlpv+a+
  PHY93_17240|PHY93_17240  85 AANFITAVVVNMRSKFQLPVSTTHVSVGTLFGVGLQTK---SANWITIRSILTAWIVTLPVAAM 145
                              ***********************************993...9********************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (159 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       757  (0.0422221); expected 358.6 (0.02)
Passed bias filter:                      373  (0.0208043); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.42
# Mc/sec: 1140.64
//
Query:       PHY93_03750|PHY93_03750  [L=262]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        6.8    6.3  11.0       0.57    9.8   5.0    1.9  2  PRA1      PRA1 family protein


Domain annotation for each model (and alignments):
>> PRA1  PRA1 family protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.3     0.043   7.7e+02      48      74 ..       5      31 ..       1      65 [. 0.53
   2 ?    9.8   5.0   3.2e-05      0.57      49     130 ..     175     256 ..     167     260 .. 0.65

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.043
                     PRA1 48 lvlllslltnplslivllllvlawlfl 74
                             + ++ +l+ +pl  ++l+++ ++++f 
  PHY93_03750|PHY93_03750  5 IQFFKILFKSPLRGFFLFFFSILMVFS 31
                             445555555555544433333333332 PP

  == domain 2  score: 9.8 bits;  conditional E-value: 3.2e-05
                     PRA1  49 vlllslltnplslivllllvlawlflyf.lr.seplvlfgrel.sdrvvlivllvvsvlllfltgavlvllwalliglllvllHA 130
                               l++++l+  +sl+ + + ++ + +l    + ++++   g ++ s    li++l v   +++ +  vl+l +al+i ++ +llH+
  PHY93_03750|PHY93_03750 175 YLFIIFLFWLISLLSVRVKIAEASYLLEsYQrKRKV---GIKMaSFGLSLIFVLSVGSTFILGIPQVLNLSVALMIFVVGILLHS 256
                              344444444555555555555444444423335555...445536667777777777777777889******************7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (262 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       976  (0.0544369); expected 358.6 (0.02)
Passed bias filter:                      501  (0.0279436); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.44
# Mc/sec: 1793.19
//
Query:       PHY93_03755|PHY93_03755  [L=380]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.8e-16   58.7   0.4    8.5e-16   57.9   0.4    1.4  1  Peptidase_M23  Peptidase family M23


Domain annotation for each model (and alignments):
>> Peptidase_M23  Peptidase family M23
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.9   0.4   4.8e-20   8.5e-16       3      95 ..     272     366 ..     270     367 .. 0.92

  Alignments for each domain:
  == domain 1  score: 57.9 bits;  conditional E-value: 4.8e-20
                              ESSEEEEETTT-EEEESSSEEEEEEEEETTTEEEEEEEECTCEEEEEEEESEESS-TTEEE-TTCEEEEEBSTSSCS..SSEEEEE CS
            Peptidase_M23   3 hkGidiaapkgtpVlAaadGtVvfagkkegyGnvviidhgdgystlyahlskisvkegqkVkaGqvIGtvgstgrst..gphLhfe 86 
                              +kG+ ++ + +++V+A+++G+Vv+ g   +yGnv++idhg+ + t+ +   +++vk g+ ++a q +G++  + ++     +++fe
  PHY93_03755|PHY93_03755 272 KKGVTFNFQGKNEVRAPKAGKVVYTGSLASYGNVLMIDHGNDTRTVLLGQFDYNVKNGDPIQAAQLVGYTNPRSHNGlgDGKIYFE 357
                              79*************************99******************************************7776556677***** PP

                              EEETTEEE- CS
            Peptidase_M23  87 irkngkavd 95 
                              +rkn+ a +
  PHY93_03755|PHY93_03755 358 VRKNNLAQN 366
                              ***988766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (380 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1874  (0.104523); expected 358.6 (0.02)
Passed bias filter:                      459  (0.025601); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.69u 0.24s 00:00:00.93 Elapsed: 00:00:00.48
# Mc/sec: 2396.22
//
Query:       PHY93_03760|PHY93_03760  [L=472]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    7.5e-52  175.3   1.2    1.7e-51  174.1   1.2    1.6  1  Peptidase_S41  Peptidase family S41
    4.1e-11   43.1   0.7    1.2e-10   41.6   0.7    1.8  1  PDZ            PDZ domain
      5e-11   42.3   0.0    1.1e-10   41.2   0.0    1.6  1  PDZ_6          PDZ domain
    4.3e-08   33.4   0.4    1.3e-07   31.8   0.4    1.8  1  PDZ_2          PDZ domain
  ------ inclusion threshold ------
      0.012   15.9   0.0      0.012   15.9   0.0    2.7  3  TSP_NTD        Tail specific protease N-terminal domain
      0.093   12.4   0.1       0.63    9.7   0.0    2.2  2  DUF3394        Domain of unknown function (DUF3394)


Domain annotation for each model (and alignments):
>> Peptidase_S41  Peptidase family S41
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  174.1   1.2   5.7e-55   1.7e-51       1     165 [.     196     364 ..     196     365 .. 0.96

  Alignments for each domain:
  == domain 1  score: 174.1 bits;  conditional E-value: 5.7e-55
                              EEEEEEES-BCCTHHHHHHHHHHHHHH.....TTSSEEEEE-TTB-EBEHHHHHHHHHCCSSSSEEEEEECTTSEEEEEEH.TCSS CS
            Peptidase_S41   1 kiGyiripsfsektkeelakalkelkk.....knvkglilDlRnNgGGlldeavelaslflddglivstrgrdgkkkkksk.teka 80 
                              +++yir+++f++k++e + +a+ ++++     +++kg++lDlR+N+GGlldeav+++s fl+dg +vst+grd k+k+ +  ++++
  PHY93_03760|PHY93_03760 196 NYAYIRLTQFQKKSAEYIIEAILKIRAqikdkAGLKGIVLDLRSNPGGLLDEAVDVSSIFLKDGIVVSTEGRDPKNKEIRYvKKSG 281
                              589*******99*************99999999********************************************999966666 PP

                              -STT-BSSEEEEEE-TTBBTHHHHHHHHHHHTTSEEEEES--SB-EEEEEEEE-TTSSEEEEEEEEEEETTSBCTTTTS---SEE CS
            Peptidase_S41  81 seevqykgplvvLvnegsaSaseifagalkdngratlvGertfGkgtvqsvvelndgsalkltiakyltpdgrsiekkGvePdie 165
                              +  ++ + p+vvL+n+ +aSasei++gal+d +ra+++G ++fGkg+vqsv++++d+ ++kltia+y+tp+g++i+++G++Pd++
  PHY93_03760|PHY93_03760 282 H--KELDVPVVVLINGSTASASEIVSGALQDSKRAIIMGAQSFGKGSVQSVAKIDDQIGVKLTIAQYMTPSGKKIQAEGIKPDVV 364
                              6..68******************************************************************************97 PP

>> PDZ  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.6   0.7     4e-14   1.2e-10       8      81 ..      96     165 ..      88     166 .. 0.84

  Alignments for each domain:
  == domain 1  score: 41.6 bits;  conditional E-value: 4e-14
                              TTSESSEEEEEETTSSSSSSEEEEEECTTSHHHHHTSSTTEEEEEETTEETTTSHHHHHHHHHHTTTS.EEEEEE CS
                      PDZ   8 grgglGfslkggsdqrgdkgifvsevlpggaaeadglkvGDkIlsvNgvdvenvsheeavqaikgskg.kvtLti 81 
                              + gglG+++   +       +++    ++++a ++g+k+GDkI+++N +++++vs+e+a++ ++g+++ k+ L i
  PHY93_03760|PHY93_03760  96 EFGGLGIEVTQKDG-----LLVIITPIEDSPAYKAGIKPGDKIVEINHESMVGVSLEQAIDHLRGKTKsKIILGI 165
                              55778888886555.....68999999999999999******************************998988877 PP

>> PDZ_6  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.2   0.0   3.5e-14   1.1e-10       2      56 .]     113     167 ..     112     167 .. 0.94

  Alignments for each domain:
  == domain 1  score: 41.2 bits;  conditional E-value: 3.5e-14
                    PDZ_6   2 VtaVdpgsPAdrAGlrvGDiilsvNGqpveglsladvaallrgsagesvvlvvrr 56 
                              + +++++sPA++AG+++GD i+++N ++  g sl+++++ lrg++ +++ l ++r
  PHY93_03760|PHY93_03760 113 IITPIEDSPAYKAGIKPGDKIVEINHESMVGVSLEQAIDHLRGKTKSKIILGIAR 167
                              678899**********************99*******************999987 PP

>> PDZ_2  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.8   0.4   4.4e-11   1.3e-07       1      73 [.      98     169 ..      98     173 .. 0.81

  Alignments for each domain:
  == domain 1  score: 31.8 bits;  conditional E-value: 4.4e-11
                              ....XX------..-EEEEEE-TTSGGGGT.--TT-EEEEETTB--SSHHHHHHHHH..TS-TT-EEEEEEEETT CS
                    PDZ_2   1 pylGvsvsdeedtggvlvvsVkeggPaakaglkagDvilkvdgkkvksledlislll..kkkpGdtVkltvlRdg 73 
                              ++lG++v+++++   +++++  e++Pa kag+k+gD+i+++++  +  + +l++++   ++k  +++ l + Rdg
  PHY93_03760|PHY93_03760  98 GGLGIEVTQKDG--LLVIITPIEDSPAYKAGIKPGDKIVEINHESM-VGVSLEQAIDhlRGKTKSKIILGIARDG 169
                              68*********9..9***************************9988.5555666555445556666666666665 PP

>> TSP_NTD  Tail specific protease N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.9   0.0   4.1e-06     0.012     138     191 ..      29      82 ..       3      84 .. 0.66
   2 ?   -1.9   0.1       1.2   3.4e+03      31      72 ..     170     212 ..     167     227 .. 0.50
   3 ?    3.5   1.7     0.025        75      99     166 ..     363     430 ..     340     440 .. 0.59

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 4.1e-06
                  TSP_NTD 138 dkeikkskeelekryeeqlkrlsq..rlekkksedvfelflnalassfDPHTsYfs 191
                              ++++k+ +e+le    +++ +l +  ++++ + e+++e  +n + +++DPH+++++
  PHY93_03760|PHY93_03760  29 EAAKKSRYEKLE--LFNKVLYLIEsqYYREVDTEKLIEGAMNGMMNTLDPHSAFLD 82 
                              222222222222..22444443335699999***********************96 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 1.2
                  TSP_NTD  31 LDpqklyflqsDidefekyrekld.dalkngdlsfaeeiynly 72 
                              LD  k++ l  +i  +++ +++l  +++   +l+ +++  + y
  PHY93_03760|PHY93_03760 170 LDGVKNFELTREIVYLKPVKYELLhNNYAYIRLTQFQKKSAEY 212
                              5666666666666666633333332555555555554433332 PP

  == domain 3  score: 3.5 bits;  conditional E-value: 0.025
                  TSP_NTD  99 leldrekapwakneaelkelwr.krlkneilaelklkskkdkeikkskeelekryeeqlkrlsq..rlekk 166
                              + +d+ +a+++ n+ +    +r k lk ++ a+++++++ +   +++ +el++r+e++ ++++   + +k 
  PHY93_03760|PHY93_03760 363 VVIDEVEAEFVDNNRKESTFIReKDLKGHLTATIETEEERK---AREVTELKERIERTERYKQLreKKKKG 430
                              67788888888766555555541689988888888774322...222344444444333322221112233 PP

>> DUF3394  Domain of unknown function (DUF3394)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   0.0   0.00021      0.63     108     151 ..      96     139 ..      67     143 .. 0.87
   2 ?   -0.5   0.0      0.27   8.2e+02     135     162 ..     355     383 ..     328     429 .. 0.67

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.00021
                  DUF3394 108 rLeaaGltlleedgkvlvdevefgspaekagldfdfeivevevp 151
                               +  +G++++++dg +++ ++  +spa kag++ +++ive++ +
  PHY93_03760|PHY93_03760  96 EFGGLGIEVTQKDGLLVIITPIEDSPAYKAGIKPGDKIVEINHE 139
                              46679**********************************99765 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.27
                  DUF3394 135 ekagldfdfeivevevpa.drppkelvyi 162
                              +++g++ d  i eve++  d+  ke ++i
  PHY93_03760|PHY93_03760 355 QAEGIKPDVVIDEVEAEFvDNNRKESTFI 383
                              55555555555555555445544544444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (472 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1342  (0.0748508); expected 358.6 (0.02)
Passed bias filter:                      618  (0.0344693); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.70u 0.24s 00:00:00.94 Elapsed: 00:00:00.45
# Mc/sec: 3151.64
//
Query:       PHY93_03765|PHY93_03765  [L=427]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.6e-73  247.3   0.0    3.4e-73  246.9   0.0    1.2  1  Exonuc_VII_L     Exonuclease VII, large subunit
    1.3e-23   83.0   0.1    2.4e-23   82.2   0.1    1.5  1  tRNA_anti_2      OB-fold nucleic acid binding domain
    1.1e-05   25.4   0.0      2e-05   24.5   0.0    1.5  1  tRNA_anti-codon  OB-fold nucleic acid binding domain


Domain annotation for each model (and alignments):
>> Exonuc_VII_L  Exonuclease VII, large subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  246.9   0.0   5.7e-77   3.4e-73       1     300 [.     124     422 ..     124     426 .. 0.88

  Alignments for each domain:
  == domain 1  score: 246.9 bits;  conditional E-value: 5.7e-77
             Exonuc_VII_L   1 lfdeerkkplpklpkrigvvtsptgaairDilrtlkrrgplveillfpalvQGeeaaaeiikalekanalkea.......Dvliia 79 
                              lfd +rkk +p lpkr++++t+  gaa++D++++ krr   + ++++p+lvQGe+aa++i + l+k+ +++ +       D+++++
  PHY93_03765|PHY93_03765 124 LFDLDRKKLIPPLPKRVAIITALRGAALQDFINIYKRRSIWMDLVVLPTLVQGEDAARSIRASLHKIIKYSLDaepakkiDIIVLT 209
                              79****************************************************************76665556667778****** PP

             Exonuc_VII_L  80 RGGGSleDLwaFndeelaraiaaskiPvisavGHEtDttiaDfvAdlrapTPtaaAelvvpdkaeleeqleelerrlekaikrlle 165
                              RGGGSleDLwaFnde la  +++++iP+isavGHE D++iaDfv+dlra+TP+aaAe+++++++ ++e++++l+ rl ++i+ +++
  PHY93_03765|PHY93_03765 210 RGGGSLEDLWAFNDEGLAWDLFNCPIPTISAVGHEVDFSIADFVCDLRAETPSAAAEVITHQQTLIKEKMRTLKGRLLSNIEIKIS 295
                              *************************************************************************************9 PP

             Exonuc_VII_L 166 ekkqrleklasrlkspeellerkrqrldeleerleralkkqlkkkrerleelkerlkekleekkerlkklkerle.lleekkerle 250
                              + ++rl+ +     +p+++l+     ++++++rl+r     ++k+ ++l++l+    e +++ +e++ +lk  l+ +l++ ++rl+
  PHY93_03765|PHY93_03765 296 RVNNRLKYA-----HPHTILNIIWGVYNSYQKRLNR---CDIQKRLNELTHLH----EFYQRLDESIIDLKILLKeKLATLNHRLD 369
                              999999854.....7999999999999999999999...44666666666666....23334444444444445556999****** PP

             Exonuc_VII_L 251 eleeklealsplkvLkrGyaivrkedgkvvtsakdlkk...gdeleirladge 300
                              + +  l+ l+p++vL+rGy +v++ +g vv s +dl k   +++l++ ++dg+
  PHY93_03765|PHY93_03765 370 KSSGLLNVLNPKNVLERGYGYVETLEGAVVASGHDLDKlphDTQLNLCFHDGK 422
                              ************************77****99887654222899999999997 PP

>> tRNA_anti_2  OB-fold nucleic acid binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   82.2   0.1     4e-27   2.4e-23       2      94 ..       7     100 ..       6     101 .. 0.89

  Alignments for each domain:
  == domain 1  score: 82.2 bits;  conditional E-value: 4e-27
              tRNA_anti_2   2 sVseltraikelleaelkkavwvrGeisnlkrkasghvYftLkDekakisavifrsra.aklk.ftledGmkVlvkgrlsvYeprG 85 
                              +Vs++ + ik+lle+e+++ +++ Ge +nl+ ++sgh+YftL+D++a+isa++f+ +a ++    +++dG+kV+v g ++vY++rG
  PHY93_03765|PHY93_03765   7 NVSQVISEIKNLLETEFTN-ITIVGETTNLSLSSSGHWYFTLSDKDASISAALFKMDAlRNPLiKQIKDGEKVIVVGDINVYPKRG 91 
                              59***************66.**********6367*********************66623333466******************** PP

              tRNA_anti_2  86 syqlivedi 94 
                              ++q+iv++i
  PHY93_03765|PHY93_03765  92 TFQVIVKKI 100
                              ******998 PP

>> tRNA_anti-codon  OB-fold nucleic acid binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.5   0.0   3.4e-09     2e-05       2      75 ..      27     102 ..      26     103 .. 0.92

  Alignments for each domain:
  == domain 1  score: 24.5 bits;  conditional E-value: 3.4e-09
                              EEEEEEEEEEEEEETTEEEEEEEETTEEEEEEEET..HHHHHHHTTS-TTSEEEEEEEEEECTTS.SEEEEEEEEEE CS
          tRNA_anti-codon   2 tvaGrvtsisdrsggkvifidlrDgtgriqvvlfr..eeatklaenlkeGdvvrvtGrvkrrpgg.elelkveeiel 75 
                              t++G+ t+ s  s++++ +++l D+ ++i + lf+  +    l +++k G  v v G ++ +p++  ++++v++i +
  PHY93_03765|PHY93_03765  27 TIVGETTNLS-LSSSGHWYFTLSDKDASISAALFKmdALRNPLIKQIKDGEKVIVVGDINVYPKRgTFQVIVKKIVP 102
                              899******9.99**********************9888889999*****************55559*******976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (427 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       858  (0.0478554); expected 358.6 (0.02)
Passed bias filter:                      721  (0.0402142); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.58u 0.26s 00:00:00.84 Elapsed: 00:00:00.41
# Mc/sec: 3109.90
//
Query:       PHY93_03770|PHY93_03770  [L=560]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.5e-10   38.9   0.3    5.9e-09   35.8   0.0    2.8  3  HisKA     His Kinase A (phospho-acceptor) domain


Domain annotation for each model (and alignments):
>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.8   0.0   3.3e-13   5.9e-09       6      63 ..     368     425 ..     363     428 .. 0.85
   2 ?   -1.6   0.1      0.16   2.9e+03      10      24 ..     470     484 ..     465     496 .. 0.84
   3 ?   -3.4   0.0      0.56     1e+04      52      65 ..     535     548 ..     533     548 .. 0.86

  Alignments for each domain:
  == domain 1  score: 35.8 bits;  conditional E-value: 3.3e-13
                              HHHHHHHHHHHHHHHHHHHHHH..HC..T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCC CS
                    HisKA   6 lagvaHELrtPLsailgnaeaL..kregklteelkeyletiesearrldhlvedlLdlsr 63 
                               +++aHEL++PL++il+++++L  ++  + +e+    l++++++a+r+ +lve +L +s+
  PHY93_03770|PHY93_03770 368 SSSIAHELNNPLAGILAALSLLslED--DWSEDALIDLDDMKNGAKRCKELVEIFLGFSK 425
                              678*******************6433..45677777******************999998 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 0.16
                              HHHHHHHHHHHHHHH CS
                    HisKA  10 aHELrtPLsailgna 24 
                              +H+++  + ++++++
  PHY93_03770|PHY93_03770 470 SHQINSSIMSMILYL 484
                              999999999998886 PP

  == domain 3  score: -3.4 bits;  conditional E-value: 0.56
                              HHHHHHHHHHCCHH CS
                    HisKA  52 dhlvedlLdlsrie 65 
                              ++l++ lL ++++e
  PHY93_03770|PHY93_03770 535 SKLIQHLLAFEKLE 548
                              589999*9999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (560 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       647  (0.0360868); expected 358.6 (0.02)
Passed bias filter:                      259  (0.0144459); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.23s 00:00:00.80 Elapsed: 00:00:00.41
# Mc/sec: 4101.14
//
Query:       PHY93_03775|PHY93_03775  [L=429]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    9.7e-31  107.5   0.4    9.7e-31  107.5   0.4    1.8  2  RNase_T    Exonuclease
     0.0091   16.0   0.1      0.056   13.4   0.1    2.2  1  RNase_H_2  RNase_H superfamily


Domain annotation for each model (and alignments):
>> RNase_T  Exonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  107.5   0.4   1.1e-34   9.7e-31       2     165 .]      17     171 ..      16     171 .. 0.96
   2 ?   -1.3   0.1      0.31   2.8e+03      85     109 ..     323     348 ..     250     392 .. 0.55

  Alignments for each domain:
  == domain 1  score: 107.5 bits;  conditional E-value: 1.1e-34
                              EEEEEESSSTTCTTS-EEEEEEEEEETTCCEEEEEEEEEEEHSSHCSSSHHHHHHHHHCHHHHHTCEBHHHHHHHHHHHHHHHTCC CS
                  RNase_T   2 viDlEttgldakekdeiieiaaisidggeneigetfhfyvkptelakltdecteftgitqemldeapsfkevleefkellrklall 87 
                              v+DlEttg ++  +d+iiei+ ++i++ +  i ++ +f++kp+ +  ++d+++++t i   ++++ap +++v++e+ e+++ +++l
  PHY93_03775|PHY93_03775  17 VFDLETTGGNH-LHDKIIEIGLVKIENLK--IVDQKSFLIKPEMH--IPDFIQKLTSIKESDVNDAPLIEDVIDEILEFMG-DSIL 96 
                              89*********.8***************9..9999**********..**********************************.**** PP

                              CETTTCEEEESSHHHHHHHHHHHHHHHHHCSEHCECHHHHHHHHHCHHHHHHHHHTTCHSSSSTSSHHHHHHHHHHHH CS
                  RNase_T  88 vahnaafdvgflraadkrilkkevpkrnqfldtlildkatlkelartsldklaeklgleedgraHrAldDaeataklf 165
                              vahn++fdv f +  ++r+  + ++ +n+ ++t  + k  +++  + +l+++ + + l++++ aHrAldD++a+a+l+
  PHY93_03775|PHY93_03775  97 VAHNTSFDVPFFNSVLRRL-DR-AELTNKSICTNLMTKYMIPNILSSNLNYMSKIFNLTHQK-AHRALDDTLASAELL 171
                              ******************9.44.4568*********************************99.6***********986 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 0.31
                              TCCCETT.TCEEEESSHHHHHHHHHH CS
                  RNase_T  85 allvahn.aafdvgflraadkrilkk 109
                              + l++ + + + +  l +++++++ +
  PHY93_03775|PHY93_03775 323 NHLIPEQfVIYPLRSLHHKMELVFRY 348
                              33444333333344444444444433 PP

>> RNase_H_2  RNase_H superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.4   0.1   6.3e-06     0.056       2     114 ..      17     150 ..      16     163 .. 0.68

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 6.3e-06
                RNase_H_2   2 ffDiEttGlspkknliyliGvldvdekeiekltq.llaeepeeekailelf...................lellekkkalvtfngk 67 
                               fD+EttG ++ ++ i+ iG++ ++  +i+  +  l+++e++  ++i++l                       +  ++ lv++n +
  PHY93_03775|PHY93_03775  17 VFDLETTGGNHLHDKIIEIGLVKIENLKIVDQKSfLIKPEMHIPDFIQKLTsikesdvndapliedvideILEFMGDSILVAHN-T 101
                              69************************7777755525667889999999755555444444444444433323333445578877.8 PP

                RNase_H_2  68 sFDvpflkrlfkkyklde..eefrhiDLlkel.rkkklesysLksvekel 114
                              sFDvpf ++ +++ +  e  ++  +  L++ +   + l+s +L  + k +
  PHY93_03775|PHY93_03775 102 SFDVPFFNSVLRRLDRAEltNKSICTNLMTKYmIPNILSS-NLNYMSKIF 150
                              99*****999966665555557788888876623344455.666665555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (429 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       533  (0.0297284); expected 358.6 (0.02)
Passed bias filter:                      315  (0.0175693); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.59u 0.25s 00:00:00.84 Elapsed: 00:00:00.47
# Mc/sec: 2772.85
//
Query:       PHY93_03780|PHY93_03780  [L=428]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0011   18.6   0.1       0.03   14.0   0.0    2.3  2  SLT       Transglycosylase SLT domain


Domain annotation for each model (and alignments):
>> SLT  Transglycosylase SLT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.0   0.0   1.7e-06      0.03       3      50 ..     119     169 ..     117     192 .. 0.82
   2 !    2.4   0.0    0.0064   1.1e+02      86     102 ..     311     327 ..     253     340 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.7e-06
                              HHHHHHHHTS-HHHHHHHHHHHHTT-TT-B-TTS...EBTTTTBETTTHHH CS
                      SLT   3 iikaekkygvepsllaaiaqvESgfnpkAvsksg...avGLmQimpstakr 50 
                              i+ a+ kyg++p++l   +++ES +    vs+ g   + G+ Q++ +   +
  PHY93_03780|PHY93_03780 119 IQSASLKYGIPPQILIGAMKQESLMSSLGVSPDGgnySCGMSQLNIQEWCQ 169
                              78999**************************555555*******9776555 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.0064
                              HHHHHHHHHHH-HHHHH CS
                      SLT  86 slllalaAYNaGegtvk 102
                               +lla+a YNaG+ + k
  PHY93_03780|PHY93_03780 311 GWLLAVAMYNAGPVQAK 327
                              68999*******98755 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (428 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       577  (0.0321825); expected 358.6 (0.02)
Passed bias filter:                      535  (0.0298399); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.59u 0.23s 00:00:00.82 Elapsed: 00:00:00.42
# Mc/sec: 3042.13
//
Query:       PHY93_03785|PHY93_03785  [L=480]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.2e-22   78.3   0.0    8.8e-22   77.3   0.0    1.5  1  Polysacc_deac_1  Polysaccharide deacetylase


Domain annotation for each model (and alignments):
>> Polysacc_deac_1  Polysaccharide deacetylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.3   0.0   4.9e-26   8.8e-22       5     111 ..     280     387 ..     277     399 .. 0.95

  Alignments for each domain:
  == domain 1  score: 77.3 bits;  conditional E-value: 4.9e-26
                              TSTEEEEEEEESS.CSCHHHHHHHHHHCT--EEEEE-HHHHCH-HHHHHHHHHTTEEEEE--SS--EGGGSHHHHHHHHHHHHHHH CS
          Polysacc_deac_1   5 gkksvalTfDdgp.rdntteilpvLkkykvkatffvigglvedypdevremaasGveignHtinhsnlkrlseeevrreierakda 89 
                              +k+++alT+Ddgp +  t++i++ L++ ++katff + ++v +y++ v  ++++G   +nH+++h++l +l+  ++++ei +++++
  PHY93_03785|PHY93_03785 280 PKNVWALTYDDGPnPVHTPAIVKNLNDLGIKATFFWLAENVIRYQSVVDLVKENGLPRANHSWSHPQLPKLTDVQLQKEIVQSTEV 365
                              7899*********77889******************************************************************** PP

                              HHHHHS----EEE-GGGEE-HH CS
          Polysacc_deac_1  90 lrkalgreprlfryPygsasat 111
                                ka+g++p+ fr Pyg+ + +
  PHY93_03785|PHY93_03785 366 DTKAFGEKPKFFRCPYGAGNSV 387
                              ******************9875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (480 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       744  (0.041497); expected 358.6 (0.02)
Passed bias filter:                      433  (0.0241508); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.59u 0.24s 00:00:00.83 Elapsed: 00:00:00.42
# Mc/sec: 3431.81
//
Query:       PHY93_03790|PHY93_03790  [L=132]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (132 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       684  (0.0381505); expected 358.6 (0.02)
Passed bias filter:                      462  (0.0257683); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1028.06
//
Query:       PHY93_03795|PHY93_03795  [L=463]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.9e-07   30.0   0.4    1.3e-06   28.8   0.1    1.7  2  YkuD      L,D-transpeptidase catalytic domain
    0.00045   20.4   1.9    0.00057   20.1   0.1    2.1  2  SH3_3     Bacterial SH3 domain


Domain annotation for each model (and alignments):
>> YkuD  L,D-transpeptidase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.8   0.1   1.5e-10   1.3e-06       2     144 ..     119     304 ..     118     307 .. 0.72
   2 ?   -2.8   0.0      0.86   7.7e+03      54      81 ..     316     343 ..     309     375 .. 0.64

  Alignments for each domain:
  == domain 1  score: 28.8 bits;  conditional E-value: 1.5e-10
                              EEEEEETTTTEEEEEEETTE........EEEEEE-BEB......TTS.TTSE---EEEEEC...EEEEEEE..EEGGGGT--TTST CS
                     YkuD   2 kyivvdlaeqrllvlyengk........lvlsfpvsvG......gkkegdreTPlGtfrik...skvrnptwnvppsiarkeiypk 70 
                              +++vv++a++ + +lye+           +++  v+vG      ++++g+ +  lG++r++    ++++p    ++++++k+ yp+
  PHY93_03795|PHY93_03795 119 YFVVVNVATE-TIRLYERLCadnscpnkMIMESEVVVGedidhpKDEKGKGRSILGSYRVTgwtKFYQDPE--GHYPAWYKNGYPD 201
                              7899999995.44776643322236655888888**********8888899**********5332222222..4444444444444 PP

                              T.EEEEEEEECCCTT.......................CECCCCEEE-STTS-EEEE.ETCSS...CT..............HHC. CS
                     YkuD  71 lrkdpeyldkknskv.......................algkvkfvfpngsgiyiHgtgapdlfergk..............garr 119
                              +++   ++                                    fv p  +g + Hgt   + ++  +              +++r
  PHY93_03795|PHY93_03795 202 TPGPDANW------SewlskksmpldeagkaegkmrgaFGWFTAFVAPEPYGQWTHGTLGWGSDK--DkfikrvkkplinivSDPR 279
                              44333333......13455668999************65566679***********664433332..2579*************** PP

                              BSSSEEE-HHHHHHHHHHHHTTEEE CS
                     YkuD 120 ShGCirlseedakelyelvlvgtpv 144
                              S+GC r ++e +  l + +  g p+
  PHY93_03795|PHY93_03795 280 SSGCTRNNNEAIAFLRKMINIGAPI 304
                              ************9999999988766 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 0.86
                              EE..EEGGGGT--TTSTT.EEEEEEEEC CS
                     YkuD  54 ptwnvppsiarkeiypklrkdpeyldkk 81 
                              pt + +p++  ++ y ++++++ ++d++
  PHY93_03795|PHY93_03795 316 PTYKNYPNETEEWNYVMTKNRNHAVDRE 343
                              5555556666666666666666666643 PP

>> SH3_3  Bacterial SH3 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.1   0.1   6.4e-08   0.00057       2      39 ..      45      83 ..      44      97 .. 0.85
   2 ?   -2.7   0.2      0.82   7.4e+03      31      49 ..     175     195 ..     170     200 .. 0.48

  Alignments for each domain:
  == domain 1  score: 20.1 bits;  conditional E-value: 6.4e-08
                    SH3_3  2 glnvRsgPstssevigtlpyGekVevleetggge.Wykv 39
                             +++vRs+P+  ++++g l+ ++kV+++  t +++ ++ v
  PHY93_03795|PHY93_03795 45 SVRVRSAPDGTGKILGELSLNDKVKIINPTVINNkFVEV 83
                             689************************977777778777 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 0.82
                    SH3_3  31 tgggeWykv.rtddgte.Gwv 49 
                               + ++W k  +++ g+  +w 
  PHY93_03795|PHY93_03795 175 YRVTGWTKFyQDPEGHYpAWY 195
                              444456666333333323444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (463 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       401  (0.022366); expected 358.6 (0.02)
Passed bias filter:                      339  (0.0189079); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.21s 00:00:00.77 Elapsed: 00:00:00.40
# Mc/sec: 3450.45
//
Query:       PHY93_17245|PHY93_17245  [L=319]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (319 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       680  (0.0379274); expected 358.6 (0.02)
Passed bias filter:                      564  (0.0314574); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.55u 0.21s 00:00:00.76 Elapsed: 00:00:00.40
# Mc/sec: 2367.16
//
Query:       PHY93_03800|PHY93_03800  [L=434]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.4e-21   75.1   0.4    1.5e-13   50.3   0.4    2.3  2  Peptidase_S13  D-Ala-D-Ala carboxypeptidase 3 (S13) family
  ------ inclusion threshold ------
      0.087   13.3   0.0        9.6    6.8   0.0    2.6  2  ImmE5          Colicin-E5 Imm protein


Domain annotation for each model (and alignments):
>> Peptidase_S13  D-Ala-D-Ala carboxypeptidase 3 (S13) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.7   0.0     4e-09   3.6e-05      37     114 ..      63     132 ..      29     154 .. 0.90
   2 !   50.3   0.4   1.7e-17   1.5e-13     261     439 ..     217     392 ..     197     397 .. 0.84

  Alignments for each domain:
  == domain 1  score: 22.7 bits;  conditional E-value: 4e-09
                              TTSEB--GGGHHHHHHHHHHHHT-TT-EEEEEEEESSEEETTEEESCEEEEECSBTTBBHHHHHHHHHHHHHTT-SEE CS
            Peptidase_S13  37 gdtpllPAStqKllTAaaAlltLganfrftTevvaegtvenrnlegnlvlvgsGDPtLsaedldalaeelkksGvtki 114
                               d++++ AS  KllT + A+++Lg ++++ T++  +g         nl + gs DP L +e++  l+ +l + G +k 
  PHY93_03800|PHY93_03800  63 LDMRIRLASVSKLLTSLWAVEKLGVDHKYDTKLFIKG--------SNLHIQGSYDPYLGNEKMFFLISQLNELGYEKF 132
                              5788999****************************98........9************************99998876 PP

  == domain 2  score: 50.3 bits;  conditional E-value: 1.7e-17
                              TTSEEEEEEEECEHHHHHHHHHHHT-HHHHHHHHHHHHHHHCS-BSHHHHHHHHHHHH.HHTT--CTTSB-S-SSS-S.......T CS
            Peptidase_S13 261 esaevlashqSaPLsellkkmmkkSdNliAesllrevakeikrpgsfeagldavrerL.skagidtanlvLeDgSGLS.......r 338
                               ++  ++   S+ L + lk+m+ kS+N +Ae+++r+ +           g++   + L   +g+  +++    gSGL        +
  PHY93_03800|PHY93_03800 217 DDSVKVLTLSSPGLYKYLKQMNVKSNNFVAETVFRQNG-----------GVANFSQFLsDRFGLTADQILFYSGSGLPtvidgvrK 291
                              567789999**************************988...........7777777775678999999999999988533333326 PP

                              T-BBEHHHHHHHHHHHH..CTCCHHHHHHCS-BTTTS.GGGTTSSTHCTTTTTTTEEEEEEEETTEEEEEEEEESTTSEEEEEEEE CS
            Peptidase_S13 339 knlvtaktlaqlLeaia..dqpalqalldsLPvAGes.GtlenrfkltstpavGkvraKTGsLtgvssLaGyvttasGeklaFsfl 421
                              +n  t   + +l+ + +   +++ +++ d+ +v G + Gt +nr+       +    aKTG+L   s LaG ++t++G    F ++
  PHY93_03800|PHY93_03800 292 DNYATCGVMLDLISELKnsIEKQGKTIEDLVAVPGSDgGTFRNRVF--PSDFKNSFVAKTGTLMHTSTLAGAMNTQNGFSF-FGVF 374
                              7889999******999943456677899999******99******9..778899999*********************976.8888 PP

                              EESSSCCCTHHHHHHHHH CS
            Peptidase_S13 422 lngldeedgknirdalde 439
                              ++ +d + +k +++a+++
  PHY93_03800|PHY93_03800 375 NQSTDISGSKIVQNAMVK 392
                              888999999999999986 PP

>> ImmE5  Colicin-E5 Imm protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.8   0.0    0.0011       9.6       5      71 ..     145     211 ..     141     216 .. 0.84
   2 ?    3.8   0.0    0.0091        81      26      57 ..     402     433 ..     381     434 .] 0.77

  Alignments for each domain:
  == domain 1  score: 6.8 bits;  conditional E-value: 0.0011
                    ImmE5   5 PkaaievcqeatkrnlfigriegGhwlnpGfrPdGnaswdgksklvdeskikenndlaieninedas 71 
                              P  a e  +  t   + +gr+    + +  ++Pd + +++ + +l + +k +++ +  ++n+++  s
  PHY93_03800|PHY93_03800 145 PDVAYEADEYPTINSVTMGRVLRNYFNTKTWTPDSKNEYSNFYNLAKTGKFRKTVNFEVQNVKKVES 211
                              566667667777778888888888889999******************************9987655 PP

  == domain 2  score: 3.8 bits;  conditional E-value: 0.0091
                    ImmE5  26 egGhwlnpGfrPdGnaswdgksklvdeskike 57 
                              ++ ++ + Gf+Pd   + ++++++ d s i+e
  PHY93_03800|PHY93_03800 402 KTFNYEVEGFHPDNGDTLKSFEEVSDFSPIEE 433
                              5568999*************999998887765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (434 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       454  (0.0253221); expected 358.6 (0.02)
Passed bias filter:                      315  (0.0175693); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 3213.45
//
Query:       PHY93_03805|PHY93_03805  [L=39]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (39 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       139  (0.0077528); expected 358.6 (0.02)
Passed bias filter:                      138  (0.00769703); expected 358.6 (0.02)
Passed Vit filter:                         6  (0.000334653); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.37u 0.21s 00:00:00.57 Elapsed: 00:00:00.38
# Mc/sec: 307.03
//
Query:       PHY93_03810|PHY93_03810  [L=110]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
     0.0058   15.6   0.2     0.0058   15.6   0.2    1.0  1  DNA_topoisoIV  DNA gyrase/topoisomerase IV, subunit A


Domain annotation for each model (and alignments):
>> DNA_topoisoIV  DNA gyrase/topoisomerase IV, subunit A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.2   3.3e-07    0.0058     349     400 ..      45      98 ..      15     108 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 3.3e-07
            DNA_topoisoIV 349 devievir.kskk.ekkakkeLieelseeqaeyllemrlrrLtkeeveklekei 400
                              d++i  i+ +s+  +k +++++++ lse+q+ ++l+m + ++ +e++e++++e+
  PHY93_03810|PHY93_03810  45 DKMIRDINeDSSIvNKLSEDNICHILSEAQFSKILDMTMEDIERENQESIDREL 98 
                              4444444404444688899999999************************99986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (110 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       737  (0.0411066); expected 358.6 (0.02)
Passed bias filter:                      413  (0.0230353); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 840.27
//
Query:       PHY93_03815|PHY93_03815  [L=333]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.092   11.8   0.0       0.14   11.2   0.0    1.2  1  PAE       Pectinacetylesterase


Domain annotation for each model (and alignments):
>> PAE  Pectinacetylesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   7.9e-06      0.14     164     207 ..     210     253 ..     205     282 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 7.9e-06
                      PAE 164 lhcdklrellpkeakvkclsdaGfFldakdisgketlksiyeev 207
                              l ++ + +++ + a  kc+sdaGf +++++i+ ++ +k i+++ 
  PHY93_03815|PHY93_03815 210 LLLNGFDSVYRNVADYKCISDAGFLFEKNKINYTNLIKGIWAGK 253
                              5678899999999**********************999987754 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (333 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       630  (0.0351386); expected 358.6 (0.02)
Passed bias filter:                      529  (0.0295053); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.21s 00:00:00.76 Elapsed: 00:00:00.42
# Mc/sec: 2367.06
//
Query:       PHY93_03820|PHY93_03820  [L=295]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.088   12.6   4.0      0.065   13.1   1.0    2.1  2  DUF4897   Domain of unknown function (DUF4897)


Domain annotation for each model (and alignments):
>> DUF4897  Domain of unknown function (DUF4897)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.1     0.068   1.2e+03      35      72 ..      30      68 ..      10     102 .. 0.52
   2 ?   13.1   1.0   3.6e-06     0.065      29     103 ..     188     264 ..     177     281 .. 0.84

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 0.068
                  DUF4897 35 eeyieqYqkasee.tfekylsqlseevgreikvvsless 72
                             +++ ++++++  + + e  l++  e+++r++k++ l+  
  PHY93_03820|PHY93_03820 30 TNLTNTFANTPANtNPEIVLTKDLERLERNLKIETLQDE 68
                             455666655544423344455555666666666666543 PP

  == domain 2  score: 13.1 bits;  conditional E-value: 3.6e-06
                  DUF4897  29 kdekkeeeyieqYqkaseetfekylsqlseevgreikvvslessate.reg.ileveEkavlkglvkvengvvetsl 103
                               d+++  +++++Y+ +++++    ls+ s++ +r+++v sle  +   + + ++ v+Ek +  +l  +e  +v+ +l
  PHY93_03820|PHY93_03820 188 SDPENLFKLVDNYKGNAKADALTELSKNSSSSERQLLVNSLEKAFAAdDPNtVISVVEKLKKMNLSVDEMTKVSKNL 264
                              577788899**********99999******************988775555599*****999999888877777666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (295 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       945  (0.0527079); expected 358.6 (0.02)
Passed bias filter:                      474  (0.0264376); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.42
# Mc/sec: 2084.21
//
Query:       PHY93_03825|PHY93_03825  [L=180]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.1e-12   45.4   0.0    1.5e-11   44.6   0.0    1.4  1  TonB_C    Gram-negative bacterial TonB protein C-terminal
  ------ inclusion threshold ------
      0.072   13.4   0.0       0.14   12.4   0.0    1.5  1  TonB_2    TonB C terminal


Domain annotation for each model (and alignments):
>> TonB_C  Gram-negative bacterial TonB protein C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.6   0.0   1.6e-15   1.5e-11       2      59 ..     109     166 ..     108     178 .. 0.94

  Alignments for each domain:
  == domain 1  score: 44.6 bits;  conditional E-value: 1.6e-15
                              -----HHHHHHTEEEEEEEEEEE-TTSBEEEEEEEEESSSSCSHHHHHHHHTT-EE-T CS
                   TonB_C   2 epeYPeeArrrgieGtvtveftidpdGnvtnvkvvkssgseiLdkaAleavrkwkfkp 59 
                              ep YP  Ar++g+eG+v+++   + +G +t+v +++ssg ++Ld+ + ++++ wk + 
  PHY93_03825|PHY93_03825 109 EPPYPPIARQKGYEGKVKIKAYYNQEGLITKVDIIESSGIKMLDETVKKTASDWKISS 166
                              799***************************************************9875 PP

>> TonB_2  TonB C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   1.6e-05      0.14      26      61 ..     123     158 ..     106     178 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 1.6e-05
                   TonB_2  26 leavveitidpdGeivsvrlvksSgneafDkavkrA 61 
                               +++++   ++ G i +v +  sSg +++D++vk+ 
  PHY93_03825|PHY93_03825 123 GKVKIKAYYNQEGLITKVDIIESSGIKMLDETVKKT 158
                              45566667899**********************996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (180 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       285  (0.015896); expected 358.6 (0.02)
Passed bias filter:                      247  (0.0137766); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.19s 00:00:00.62 Elapsed: 00:00:00.38
# Mc/sec: 1415.65
//
Query:       PHY93_03830|PHY93_03830  [L=281]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.5e-41  142.2   0.0    1.9e-41  141.9   0.0    1.0  1  Hydrolase_4    Serine aminopeptidase, S33
    7.5e-13   48.7   0.0    2.2e-10   40.6   0.0    2.1  2  Abhydrolase_1  alpha/beta hydrolase fold
    6.5e-10   40.0   0.0    8.4e-10   39.6   0.0    1.1  1  Abhydrolase_6  Alpha/beta hydrolase family
    9.4e-07   28.4   0.0    1.8e-06   27.5   0.0    1.4  1  DUF915         Alpha/beta hydrolase of unknown function (DUF9
    0.00012   21.4   0.0    0.00018   20.8   0.0    1.2  1  LCAT           Lecithin:cholesterol acyltransferase
     0.0003   20.4   0.0     0.0021   17.7   0.0    1.9  2  DLH            Dienelactone hydrolase family
     0.0011   18.6   0.0     0.0015   18.1   0.0    1.2  1  DUF900         Alpha/beta hydrolase of unknown function (DUF9
     0.0097   15.8   0.0      0.015   15.2   0.0    1.2  1  VirJ           Bacterial virulence protein (VirJ)
  ------ inclusion threshold ------
      0.027   14.6   0.0      0.042   13.9   0.0    1.3  1  Thioesterase   Thioesterase domain
        0.2   11.4   0.0       0.29   10.8   0.0    1.3  1  PGAP1          PGAP1-like protein


Domain annotation for each model (and alignments):
>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  141.9   0.0   1.1e-44   1.9e-41       7     238 ..      27     261 ..      24     262 .. 0.89

  Alignments for each domain:
  == domain 1  score: 141.9 bits;  conditional E-value: 1.1e-44
              Hydrolase_4   7 vvlvHGlaehsgryaelaeaLaaqGfavyalDhrGhGrsegkrghvpsfddyvdDlaafvekvkeehpelplfllGhSmGGliall 92 
                              +v  HG++eh++r  + + +L  ++f+++ +D rGhGrs g+r+++++f++y++Dl+++++ ++e+++  + +l+GhSmG+li+++
  PHY93_03830|PHY93_03830  27 IVATHGIGEHMERH-KYIPELFGHDFNIFQYDLRGHGRSTGRRAWIQDFSQYMEDLKEIIRFLEEKYRMDRYILFGHSMGALITCA 111
                              899**********5.67899****************************************************************** PP

              Hydrolase_4  93 yl......lrypdkvaglilsaPalkikaklkappllkl....llkllgkllpklqvsnnlkadslsrdpevvaayeadplvhgki 168
                              ++      +ry    ++l++ aP ++      + +++k+    l k +  l  ++++ + ++ + ls+dp+  + y +d+l + k+
  PHY93_03830|PHY93_03830 112 FMqnfvedARY---PERLVVNAPPCGASGL--LGKIVKVippaLFKGACDLPYSIPIGGLIDLAHLSHDPRTSEDYVRDELNSMKL 192
                              **777433333...45*********99866..4455555122255555666666666999************************** PP

              Hydrolase_4 169 tvrlllelldamkrleeraakitlPllllhGeaDkvvdpeasrelyerlgskdktlklypglyHellnEp 238
                              + +l+ el+++++++ +r  + + P +   G++D+vv  ++  e++ ++ +   ++k+++g+yHe++nE 
  PHY93_03830|PHY93_03830 193 QSKLVFELMKTAQSTFARPIRSKCPSFATVGGSDRVVGAADVIEYFTNVDK-SFNFKVFDGAYHEIHNEI 261
                              **************************************************5.****************96 PP

>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.6   0.0   1.2e-13   2.2e-10       3      95 ..      27     117 ..      25     128 .. 0.84
   2 !    6.2   0.0    0.0041       7.3     195     253 ..     178     258 ..     166     260 .. 0.71

  Alignments for each domain:
  == domain 1  score: 40.6 bits;  conditional E-value: 1.2e-13
                              EEEE-STTTCGGGGTTGHHHHHHHHTTSEEEEEEETTSTTSSSTTTGB...CHHSHHHHHHHHHHHHHHCTTSSEEEEEETHHHHH CS
            Abhydrolase_1   3 lvilhGlpgssdvwaerglapaLakdgfdvillDlrGvgySspapacin..ddygtasvaddldrildalgddkltlvGhSmGGmi 86 
                              +v  hG+++  +  ++   +p L  ++f ++ +DlrG+g+S+ + a+i+  ++  + ++ ++++++ +++  d+ +l GhSmG +i
  PHY93_03830|PHY93_03830  27 IVATHGIGEHME-RHK--YIPELFGHDFNIFQYDLRGHGRSTGRRAWIQdfSQ-YMEDLKEIIRFLEEKYRMDRYILFGHSMGALI 108
                              677788888555.455..67777788**********************87544.5668**************************** PP

                              HHHHHHHHG CS
            Abhydrolase_1  87 alayaaeyp 95 
                               +a+ + + 
  PHY93_03830|PHY93_03830 109 TCAFMQNFV 117
                              ****99983 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.0041
                              CCHHHHHHHHHC.....................THHHHSEEEEEEETTCSSSCH.HHHHHHHHCHTSEEEEEEETCSSSHH CS
            Abhydrolase_1 195 tdsaklllrlre.....................lknvlaptlvisgtsDplvpp.kaledlaqllpkkrlvvisdagHlaf 253
                              t ++++ ++l++                     +   ++p++   g sD++v   +++e++++  ++   +v+++a+H ++
  PHY93_03830|PHY93_03830 178 TSEDYVRDELNSmklqsklvfelmktaqstfarPIRSKCPSFATVGGSDRVVGAaDVIEYFTNVDKSFNFKVFDGAYHEIH 258
                              444444444444455555555555555555666667899***********************99555589********986 PP

>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.6   0.0   4.7e-13   8.4e-10       2     184 ..      28     230 ..      27     265 .. 0.52

  Alignments for each domain:
  == domain 1  score: 39.6 bits;  conditional E-value: 4.7e-13
                              EEE--GC.....GC.HHHHHHHHCCTCEEEEE--TTSTS-GGCS--HHHCHHHHHHHCCTT...........TTSEEEEEETCHHH CS
            Abhydrolase_6   2 lllHGagssassWl.vapLaallaagvhvlapDlpGhGrsdpppldledladlaalldelaa.........gggpvvlvGHSlGGa 77 
                              +  HG g +      +  + +l+++++ ++ +Dl+GhG +++   ++  ++d++++ ++l++         + ++ +l+GHS+G++
  PHY93_03830|PHY93_03830  28 VATHGIGEH---MErHKYIPELFGHDFNIFQYDLRGHG-RSTGRRAW--IQDFSQYMEDLKEiirfleekyRMDRYILFGHSMGAL 107
                              667888843...32345889999999888*********.66777777..666666666665555566669999999********** PP

                              HHHHHHHCC..........EEEEES-..............----TTTS----TTHHHHHHTT-CCCCHCCHS-HSCCCCHHH.CCC CS
            Abhydrolase_6  78 lalaaapla........lvvgvlldppp............talpagllaaalelllallallrllawlsreplprlfladed.ada 142
                              + +a               +++++++pp            +++pa++  a   ++  +++ l++la l          +d+   + 
  PHY93_03830|PHY93_03830 108 ITCA---FMqnfvedarYPERLVVNAPPcgasgllgkivkVIPPALFKGACDLPYSIPIGGLIDLAHL---------SHDPRtSED 181
                              9999...4444444445445688888776555444444422222222222222222222222222333.........222221235 PP

                              CHCHCCCGHHHHCCHHC.......HTTCCHHTT-TTGCEEECTT-CHHH CS
            Abhydrolase_6 143 awrarlarlaallaglg.......llpaaawadlpvpllvlggeDplvp 184
                              ++r+ l  +  + + ++          a++++   +++ ++gg+D++v 
  PHY93_03830|PHY93_03830 182 YVRDELNSMKLQSKLVFelmktaqSTFARPIRSKCPSFATVGGSDRVVG 230
                              5555555555444433322111112223344444444445577777444 PP

>> DUF915  Alpha/beta hydrolase of unknown function (DUF915)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.5   0.0   9.9e-10   1.8e-06      82     132 ..      74     124 ..      66     127 .. 0.93

  Alignments for each domain:
  == domain 1  score: 27.5 bits;  conditional E-value: 9.9e-10
                   DUF915  82 lkkqakwlkkvlseLkkkYnikkfnavGhSmGglaltsYleeyaddkslPq 132
                              ++++ + lk+++  L++kY +++  + GhSmG+l    ++++  +d  +P+
  PHY93_03830|PHY93_03830  74 FSQYMEDLKEIIRFLEEKYRMDRYILFGHSMGALITCAFMQNFVEDARYPE 124
                              67778889*****************************************96 PP

>> LCAT  Lecithin:cholesterol acyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.8   0.0     1e-07   0.00018      98     146 ..      71     120 ..      55     143 .. 0.85

  Alignments for each domain:
  == domain 1  score: 20.8 bits;  conditional E-value: 1e-07
                     LCAT  98 leerdkYfskLkelieealk.lsgkkvvliaHSmGnllvlyflkwveaea 146
                               ++  +Y++ Lke i    +  + ++ +l++HSmG+l++  f+++ +++a
  PHY93_03830|PHY93_03830  71 IQDFSQYMEDLKEIIRFLEEkYRMDRYILFGHSMGALITCAFMQNFVEDA 120
                              567789*********9998868999*******************998876 PP

>> DLH  Dienelactone hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.0      0.25   4.4e+02      75     117 ..      74     114 ..      43     120 .. 0.78
   2 !   17.7   0.0   1.1e-06    0.0021     133     192 ..     204     260 ..     195     271 .. 0.88

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.25
                      DLH  75 eekvlddlkaavaylksvpevstkkvgvvGfCmGGalalllaa 117
                               ++ ++dlk  +++l+++     ++  + G  mG+ ++ ++ +
  PHY93_03830|PHY93_03830  74 FSQYMEDLKEIIRFLEEKY--RMDRYILFGHSMGALITCAFMQ 114
                              4677899999999999988..66799999*****999987765 PP

  == domain 2  score: 17.7 bits;  conditional E-value: 1.1e-06
                      DLH 133 pekeleeaakikapilalfgeeDefipadevekleealkaanvdlelkvYpgagHaFand 192
                              ++++ ++  ++k+p +a +g+ D ++ a+   ++ e +++  + +++kv++ga+H  +n+
  PHY93_03830|PHY93_03830 204 AQSTFARPIRSKCPSFATVGGSDRVVGAA---DVIEYFTNVDKSFNFKVFDGAYHEIHNE 260
                              5777888999******************9...588999999**************87776 PP

>> DUF900  Alpha/beta hydrolase of unknown function (DUF900)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.0   8.5e-07    0.0015      77     121 ..      78     122 ..      65     146 .. 0.86

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 8.5e-07
                   DUF900  77 rdalekllrylatkksakkihllaHSmGtwlvlealrqlaieade 121
                               ++l++++r l++k + ++  l+ HSmG  +++  +++ +  a+ 
  PHY93_03830|PHY93_03830  78 MEDLKEIIRFLEEKYRMDRYILFGHSMGALITCAFMQNFVEDARY 122
                              689**********************************99988875 PP

>> VirJ  Bacterial virulence protein (VirJ)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0   8.5e-06     0.015      48      91 ..      75     118 ..      62     128 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 8.5e-06
                     VirJ  48 eevaaDldrlikkyakrwkkkkvvliGysfGaDvlPaaynkLka 91 
                               +  +Dl+ +i++ +++++  + +l G+s+Ga +  a ++++ +
  PHY93_03830|PHY93_03830  75 SQYMEDLKEIIRFLEEKYRMDRYILFGHSMGALITCAFMQNFVE 118
                              67889***************************998887776655 PP

>> Thioesterase  Thioesterase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   2.4e-05     0.042      54      99 ..      83     128 ..      55     133 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 2.4e-05
                              HHHHHHHHH-SSSSEEEEEETHHHHHHHHHHHHHHHCT-SEEEEEE CS
             Thioesterase  54 eyaealrqiqpegPyalfGhSlGgllAfevArqLesqGlavkslfl 99 
                              e++  l++    + y lfGhS+G+l++ ++ +  ++ ++ + +l++
  PHY93_03830|PHY93_03830  83 EIIRFLEEKYRMDRYILFGHSMGALITCAFMQNFVEDARYPERLVV 128
                              56666666777778************98888888888777777765 PP

>> PGAP1  PGAP1-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   0.00016      0.29      33     108 ..      38     112 ..      17     135 .. 0.72

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00016
                    PGAP1  33 elrkllknqnkkeldfftvdfneelsal.dGrtlldqaeylndaIkyIlslysssekeptsviliGHSmGGivaraa 108
                              e +k +++  +++++ f +d+            ++d  +y++d +k+I++   +++ +  + il GHSmG ++  a 
  PHY93_03830|PHY93_03830  38 ERHKYIPELFGHDFNIFQYDLRGHGRSTgRRAWIQDFSQYMED-LKEIIRFL-EEKYRMDRYILFGHSMGALITCAF 112
                              5556666666677777777776655444023357777888666.57778887.778889999********9998443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (281 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       477  (0.0266049); expected 358.6 (0.02)
Passed bias filter:                      442  (0.0246528); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.45
# Mc/sec: 1862.11
//
Query:       PHY93_03835|PHY93_03835  [L=418]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-55  188.1   6.8    1.3e-55  188.1   6.8    1.8  2  Peptidase_M48_N  CAAX prenyl protease N-terminal, five membra
    2.9e-40  138.1   0.0    4.8e-40  137.4   0.0    1.4  1  Peptidase_M48    Peptidase family M48
     0.0006   19.1   0.6     0.0099   15.1   0.3    2.6  3  Peptidase_M56    BlaR1 peptidase M56
     0.0032   17.1   0.0     0.0057   16.2   0.0    1.4  1  DUF2268          Predicted Zn-dependent protease (DUF2268)
  ------ inclusion threshold ------
      0.068   13.0   0.0       0.13   12.1   0.0    1.4  1  SprT-like        SprT-like family
        2.1    8.9   5.9        4.9    7.8   0.1    3.2  3  DUF1240          Protein of unknown function (DUF1240)
        6.4    7.2  11.9         13    6.2   0.0    2.9  2  MgtE             Divalent cation transporter


Domain annotation for each model (and alignments):
>> Peptidase_M48_N  CAAX prenyl protease N-terminal, five membrane helices
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  188.1   6.8     5e-59   1.3e-55       6     182 .]      35     207 ..      30     207 .. 0.97
   2 ?   -1.5   0.1       0.8   2.1e+03      78      99 ..     329     350 ..     280     361 .. 0.51

  Alignments for each domain:
  == domain 1  score: 188.1 bits;  conditional E-value: 5e-59
          Peptidase_M48_N   6 ketkkvPeeladaitkekfdksraYgldksrfglvsslyslilllallllgllpflwklsgkllgldaeseilqslvfllllslis 91 
                              ++++ vPe++a++i++++++k+++Y+++k++++ + +l++l++ l+++l g+l++l+++s +      +sei+++l+f+ ll +is
  PHY93_03835|PHY93_03835  35 NNRSAVPEKFASQISLADHQKAADYSVEKIKVNQYFHLFDLVVFLLWTLGGGLEVLNRISIT----FGKSEIATGLIFFGLLGVIS 116
                              44445*********************************************************....689***************** PP

          Peptidase_M48_N  92 tlislPfslYstFviEekhGfnkqtlklfikdklkslllalviglpllaallwiiewggeyfylylwlfllvfslllmtiyPtlIa 177
                               l+slP slY tFviEek+Gfnk+t+k+ ++d+ k+++la+v+g+p+++a+lwi+ ++g++++ly+++fl+v++lll++iyPt+Ia
  PHY93_03835|PHY93_03835 117 ALLSLPQSLYMTFVIEEKYGFNKTTWKTLLSDMAKGTVLAVVLGGPIAYAVLWIMGKLGTHWWLYAFIFLSVIQLLLVFIYPTFIA 202
                              ************************************************************************************** PP

          Peptidase_M48_N 178 PLFnK 182
                              P+FnK
  PHY93_03835|PHY93_03835 203 PIFNK 207
                              ****9 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.8
          Peptidase_M48_N  78 lqslvfllllslistlislPfs 99 
                              + +l ++ +++ + t++  P+s
  PHY93_03835|PHY93_03835 329 YMALTLFSMVAGVYTFFLTPVS 350
                              2233333333333344444444 PP

>> Peptidase_M48  Peptidase family M48
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  137.4   0.0   1.9e-43   4.8e-40       1     194 [.     210     414 ..     210     416 .. 0.90

  Alignments for each domain:
  == domain 1  score: 137.4 bits;  conditional E-value: 1.9e-43
                              E--SSHHHHHHHHHHHHTT-..-EEEEEEE-GGGT....-EEEEESSS-EEEEEEHHHH-SSB-HHHHHHHHHHHHHHHHTTHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48   1 plreaelkevveelakeaglpkpltkvyvvnspkr....NAFalgggknkrivltdgLlkqllseeelaaVlGHElGHikhrhsvv 82 
                              pl+e+e+ke++ +l+++ g+  ++ +++v++++kr    NA+++g+gknkriv++d+Ll ++l+ ee++aVl+HElGH+k++h ++
  PHY93_03835|PHY93_03835 210 PLEEGEVKEKIINLLSRCGF--KSSGLFVMDASKRsghgNAYFTGFGKNKRIVFFDTLL-NTLDSEEVEAVLAHELGHMKRKHILK 292
                              6899****************..*************************************.************************** PP

                              HHHHHHHHHHHHHHHHHHHTT-SHHHHHTT--S---HHHHHHHHHHTT.............HHHHHHHHHHHHHHHHTTT.HHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.............xxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48  83 slivsllasillllglallisraeedaagafldalavliglliillfl.............alSRkrEyqADeagvellkrakdlv 155
                               +i + + s+l + +l  +  +   ++  ++++   +  ++l +++ +             ++SR+ Ey+ADe++ +  k a +l+
  PHY93_03835|PHY93_03835 293 GMIKGFIFSFLGFALLGYFKDNLMFFQGHGVHTPSNY--MALTLFSMVagvytffltpvsaYFSRRYEYEADEFASQNSK-ASKLI 375
                              ******9999999988766666555555555544444..4455555556789****************************.***** PP

                              HHHHHHHHHTT--S---HHHHHHS-SS--HHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48 156 raliklakdlerqdvsaslrsellstHPplleRiqalke 194
                              +al+k+ kd+++    +  +s+++ +HPp leR++ l++
  PHY93_03835|PHY93_03835 376 SALVKMYKDNASSLTPDPIYSKFYFSHPPALERVSYLEK 414
                              ***********************************9987 PP

>> Peptidase_M56  BlaR1 peptidase M56
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.0     0.085   2.2e+02      54     105 ..      21      73 ..       7      95 .. 0.74
   2 ?   -1.8   0.1      0.55   1.4e+03      29      62 ..     176     210 ..     154     226 .. 0.66
   3 !   15.1   0.3   3.9e-06    0.0099     179     217 ..     257     295 ..     178     306 .. 0.82

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.085
            Peptidase_M56  54 vs.lpvkfetskinsaaskaplasaaskvlddkasalatdvkkvewktilkil 105
                              +  +  k + + i +++s++p++ a + +l+d+++a + +v+k+++++  +  
  PHY93_03835|PHY93_03835  21 IEsVLDKRNLDHIVNNRSAVPEKFASQISLADHQKAADYSVEKIKVNQYFHLF 73 
                              4445567888999999*******************999999999999876543 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 0.55
            Peptidase_M56  29 saiaaYalWlivllallipfipesavs.lpvkfet 62 
                                 + Ya  ++ +++ll+ fi+   +  ++ kf+ 
  PHY93_03835|PHY93_03835 176 THWWLYAFIFLSVIQLLLVFIYPTFIApIFNKFSP 210
                              45566777777778888888886666655555555 PP

  == domain 3  score: 15.1 bits;  conditional E-value: 3.9e-06
            Peptidase_M56 179 prIvlPadflkklsdeeleyillHElaHlkrkDllvnll 217
                               rIv  + +l++l+ ee e +l+HEl H+krk +l  ++
  PHY93_03835|PHY93_03835 257 KRIVFFDTLLNTLDSEEVEAVLAHELGHMKRKHILKGMI 295
                              58999999***********************98776555 PP

>> DUF2268  Predicted Zn-dependent protease (DUF2268)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0   2.2e-06    0.0057      25      80 ..     234     289 ..     213     297 .. 0.71

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 2.2e-06
                  DUF2268  25 ilpvneenrklieekgykgglaipdkiflfl.leneyskerlaallaHEyhHvvrlk 80 
                              +++++ ++r+   + +  +g++ +++i++f  l n+ + e+++a+laHE+ H+ r +
  PHY93_03835|PHY93_03835 234 LFVMDASKRSGHGNAYF-TGFGKNKRIVFFDtLLNTLDSEEVEAVLAHELGHMKRKH 289
                              45666666555555555.55555555555555********************98865 PP

>> SprT-like  SprT-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0     5e-05      0.13      34      76 ..     246     286 ..     213     296 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 5e-05
                SprT-like  34 GranlkratvrhhasIeLseklldsrsedrllntLaHElcHla 76 
                              G a++     +++++I +  +ll++ ++++++ +LaHEl H+ 
  PHY93_03835|PHY93_03835 246 GNAYFTG--FGKNKRIVFFDTLLNTLDSEEVEAVLAHELGHMK 286
                              4444444..78999***************************85 PP

>> DUF1240  Protein of unknown function (DUF1240)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   0.1    0.0019       4.9      46      71 ..     109     134 ..      88     144 .. 0.84
   2 ?   -0.3   0.1      0.61   1.6e+03      10      39 ..     183     212 ..     178     232 .. 0.74
   3 ?    2.0   0.4      0.12   3.1e+02      11      67 ..     300     356 ..     293     376 .. 0.75

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0019
                  DUF1240  46 laiiailsfvlslflslYvdyklkse 71 
                              + ++ ++s++lsl+ slY+ + ++++
  PHY93_03835|PHY93_03835 109 FGLLGVISALLSLPQSLYMTFVIEEK 134
                              567899*************9988764 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.61
                  DUF1240  10 vlllfssPlllYfsvlvvlvaitnklakvn 39 
                              +++l    lll f++ +++  i+nk   ++
  PHY93_03835|PHY93_03835 183 FIFLSVIQLLLVFIYPTFIAPIFNKFSPLE 212
                              677778889999999999999999876554 PP

  == domain 3  score: 2.0 bits;  conditional E-value: 0.12
                  DUF1240  11 lllfssPlllYfsvlvvlvaitnklakvndklvkllaiiailsfvlslflslYvdyk 67 
                              + ++ + ll Yf   +++++ +   +  n +   l++++a + +++  ++s Y + +
  PHY93_03835|PHY93_03835 300 FSFLGFALLGYFKDNLMFFQGHGVHTPSNYMALTLFSMVAGVYTFFLTPVSAYFSRR 356
                              567788888898888888888887777888888888898888888888999997643 PP

>> MgtE  Divalent cation transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.0   9.5      0.41   1.1e+03      30      83 ..     139     196 ..      75     209 .. 0.61
   2 ?    6.2   0.0     0.005        13      33      93 ..     283     344 ..     250     366 .. 0.59

  Alignments for each domain:
  == domain 1  score: 0.0 bits;  conditional E-value: 0.41
                              GGHHHHHHHHHHHHHHHHHHHHHHHH.HHHHHHT-....CTSHHHHHHHHHHHHHHHH CS
                     MgtE  30 kklkkvllkelrvvlllgvilgllif.llalllgw...slllalvvglalvlvllaaa 83 
                              k+++k ll+ ++ + +l+v+lg  i+ ++ +++g+    + l +++ l+++ +ll+ +
  PHY93_03835|PHY93_03835 139 KTTWKTLLSDMAKGTVLAVVLGGPIAyAVLWIMGKlgtHWWLYAFIFLSVIQLLLVFI 196
                              2235555555555666666665444303445555566544444445554443333322 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.005
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-.CTSHHHHHHHHHHHHHHHHHH....HHHHHH CS
                     MgtE  33 kkvllkelrvvlllgvilgllifllalllgwslllalvvglalvlvllaaall..ilgvllpl 93 
                               ++ +k ++ ++++g+i ++l f+l  ++  +l+++   g+    +++a +l+  ++gv++ +
  PHY93_03835|PHY93_03835 283 GHMKRKHILKGMIKGFIFSFLGFALLGYFKDNLMFFQGHGVHTPSNYMALTLFsmVAGVYT-F 344
                              44556677779************99666666444443333333333333333332222222.2 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (418 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       970  (0.0541023); expected 358.6 (0.02)
Passed bias filter:                      564  (0.0314574); expected 358.6 (0.02)
Passed Vit filter:                        67  (0.00373696); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.61u 0.24s 00:00:00.85 Elapsed: 00:00:00.43
# Mc/sec: 2912.57
//
Query:       PHY93_03840|PHY93_03840  [L=257]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.8e-14   53.2   0.2    5.8e-14   52.5   0.2    1.3  1  Lactamase_B    Metallo-beta-lactamase superfamily
    5.3e-11   42.9   4.0    8.2e-11   42.3   4.0    1.3  1  HAGH_C         Hydroxyacylglutathione hydrolase C-terminus
     0.0095   15.5   0.3      0.015   14.9   0.3    1.4  1  Lactamase_B_2  Beta-lactamase superfamily domain
  ------ inclusion threshold ------
      0.017   15.0   0.2      0.033   14.1   0.2    1.6  1  Lactamase_B_3  Beta-lactamase superfamily domain
       0.15   11.8   0.2       0.31   10.8   0.2    1.4  1  TUDOR_5        Histone methyltransferase Tudor domain 1


Domain annotation for each model (and alignments):
>> Lactamase_B  Metallo-beta-lactamase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.5   0.2   1.6e-17   5.8e-14       7     197 .]      15     176 ..      12     176 .. 0.86

  Alignments for each domain:
  == domain 1  score: 52.5 bits;  conditional E-value: 1.6e-17
                              EEEEEE.ETTCEEEES--SCHHHHHHHHHHHHHTSGGGGEEEEE-SBSSHHHHTTGGGCTTHHCCEETCCEHHHHCCHCHHHHHHH CS
              Lactamase_B   7 nsylie.gdggviLiDtGtsteaaraalelaalglkpkdvdavilTHlHlDHiGglgglveatdvpvgavaeeapalfmeeaddaa 91 
                              ++yli+ +dg  + iD+  s +           +lk   ++a+i+TH H DH++g+++lv a+++pv a+a ++  ++++ + d  
  PHY93_03840|PHY93_03840  15 FCYLITfDDGAIYCIDPFASLPIIN--------YLKEQTLSAIINTHDHCDHYSGNEELVLAYQCPVMAHAQALVPHKNRNLAD-- 90 
                              5777775555555777777777776........6899*********************************************44.. PP

                              HHCCHHTTCHCGCCEEEEETTTEECCCTEEEEEHECTTSTSCCEEEEEETTCC...EEEECTTTSSHHCCCCCC.TTCEEE-SHCH CS
              Lactamase_B  92 srkglllagvsadkpdvdeeeldgnaggrralyvtggpghghghgvveygggk...vlftGDallagetgridltlrgaevrdpsd 174
                                                +  + + ag  ++l+ +++pgh+ +h++v ++  +    lftGD ++++  g  +  ++++ev+++s+
  PHY93_03840|PHY93_03840  91 ----------------QEIIYHGTHAGIEWTLKSVHTPGHTLSHICVLLEKNDkafALFTGDCFFNAGVGNCHN-GGDPEVLYQSI 159
                              ................88889999999999999999999999999998855444449*****************.99999999999 PP

                              HHHHHHHHHHHHHHCHSEEEE.SS CS
              Lactamase_B 175 aekyldsllklaglkaevlvp.gH 197
                               +          +l++++l++ gH
  PHY93_03840|PHY93_03840 160 STIFE-------KLPDDLLIYpGH 176
                              99999.......888888888799 PP

>> HAGH_C  Hydroxyacylglutathione hydrolase C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.3   4.0   2.3e-14   8.2e-11       1      78 [.     177     257 .]     177     257 .] 0.90

  Alignments for each domain:
  == domain 1  score: 42.3 bits;  conditional E-value: 2.3e-14
                   HAGH_C   1 EYtlsNlkFalsvepdnealkkrlkevkelrakgeptvpstladEkktNpFLRldepevqkavg..ee..vevfaaLRelKd 78 
                              EY + Nl+F+++ ep+n   +++lke+++l+  +e+ +  t++ E+++N FLRl+++++ ++++  ++   +vf +LRel++
  PHY93_03840|PHY93_03840 177 EYLKRNLEFTKNYEPHNLVAQNFLKEISTLNL-DEHFFINTMKTEREINTFLRLKSRDLLETLNlvNSneKQVFLTLRELRN 257
                              9*****************************55.6788889**************9999988877753367**********98 PP

>> Lactamase_B_2  Beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.3   4.1e-06     0.015      29      67 ..      44      80 ..      28     136 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 4.1e-06
                             .SEEEEE-SS--HHHHGGGGCCCCC--EEEEEEEEHHHH CS
            Lactamase_B_2 29 ppidaVllthaHyDHlaglltlrelrpkklplyapkgvl 67
                             + + a++ th+H DH+ g   l   ++   p++a+++ l
  PHY93_03840|PHY93_03840 44 QTLSAIINTHDHCDHYSGNEELVLAYQ--CPVMAHAQAL 80
                             3799************99999988444..7788876544 PP

>> Lactamase_B_3  Beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.2   9.1e-06     0.033       9     132 ..      16     155 ..      11     196 .. 0.67

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 9.1e-06
            Lactamase_B_3   9 sflleta.garilvDPfka.nlgyeppaeeaDlvlisqaledHahletlkqlaenvkvleeges......levg..gleiravats 84 
                              ++l++ + ga   +DPf    +  + ++++  +++ ++++ dH+  ++   la + +v+++ ++       +++  ++ + ++++ 
  PHY93_03840|PHY93_03840  16 CYLITFDdGAIYCIDPFASlPIINYLKEQTLSAIINTHDHCDHYSGNEELVLAYQCPVMAHAQAlvphknRNLAdqEIIYHGTHAG 101
                              89999963777789***98777778889*****************99888887777777775443222222222012222222222 PP

            Lactamase_B_3  85 h......davggsergenngflleqdgltiyhlGhlahelsseelkelgrvDvv 132
                              +        ++g++    ++ l + d+   ++ G++  +    + ++ g+++v+
  PHY93_03840|PHY93_03840 102 IewtlksVHTPGHTLSHICVLLEKNDKAFALFTGDCFFNAGVGNCHNGGDPEVL 155
                              244443333455555555555555566666666666665555555555555555 PP

>> TUDOR_5  Histone methyltransferase Tudor domain 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.2   8.6e-05      0.31      34      46 ..      14      26 ..       8      30 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 8.6e-05
                  TUDOR_5 34 ryRYlifFDDGya 46
                             ++ Yli+FDDG  
  PHY93_03840|PHY93_03840 14 NFCYLITFDDGAI 26
                             578********76 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (257 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       568  (0.0316805); expected 358.6 (0.02)
Passed bias filter:                      399  (0.0222544); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 1864.61
//
Query:       PHY93_03845|PHY93_03845  [L=155]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    8.6e-35  119.4   0.0      1e-34  119.1   0.0    1.1  1  AhpC-TSA    AhpC/TSA family
    9.5e-22   77.3   0.0      1e-21   77.2   0.0    1.0  1  Redoxin     Redoxin
  ------ inclusion threshold ------
      0.026   14.7   0.0      0.035   14.2   0.0    1.3  1  AhpC-TSA_2  AhpC/TSA antioxidant enzyme
       0.11   12.4   0.0       0.22   11.5   0.0    1.6  1  SCO1-SenC   SCO1/SenC


Domain annotation for each model (and alignments):
>> AhpC-TSA  AhpC/TSA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  119.1   0.0   2.3e-38     1e-34       1     121 [.       6     132 ..       6     135 .. 0.97

  Alignments for each domain:
  == domain 1  score: 119.1 bits;  conditional E-value: 2.3e-38
                              TTSB----EEESTTCEEEECHHHTTSEEEEEEESTST-CCHHHHHHHHHHCHHHCCCTTEEEEEEESSSCHHHHHHHHH-H.SSEE CS
                 AhpC-TSA   1 vgdkapdfelknadgetvslsdykgkpvvlffypkdwcpvCttelpalaklyeefkergvevigvsvdspeshkkfiekeslnfpl 86 
                              vg+ ap f+l n+dg + +l+ ++g++vvl+fypk+ +p+Ct +++ +++  +ef++++  v+g+s+d+p+++ kfieke+lnf+l
  PHY93_03845|PHY93_03845   6 VGNLAPAFNLLNQDGVETDLKSLRGSIVVLYFYPKAMTPGCTVQACGIRDFKKEFAKLNTVVLGLSPDEPKKLLKFIEKEKLNFNL 91 
                              7999********************************************************************************** PP

                              EE-TTSHHHHHTT-EETT......TTECSCEEEEE-TTSBE CS
                 AhpC-TSA  87 lsDeegkvakaygvlkee......kglalratfvidkegki 121
                              lsD+++ +a++ygv+  +      +++ lr+tf+i ++g +
  PHY93_03845|PHY93_03845  92 LSDPDHGIAEKYGVWGLKkfmgreYMGILRTTFIIGSDGRL 132
                              ***************8889*******************987 PP

>> Redoxin  Redoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.2   0.0   2.3e-25     1e-21       1     130 [.       5     135 ..       5     152 .. 0.91

  Alignments for each domain:
  == domain 1  score: 77.2 bits;  conditional E-value: 2.3e-25
                              -TTSBB---ECCEETTCEEEEEHHHHTTSEEEEEEESTTT-HHHHHTHHHHHTHHHHHHCSTTTEEEEEESSSHHHHHHHHHTT-T CS
                  Redoxin   1 kagdkaPdftlplaatdgnsvslsefkgkkvvvnfvpgafcPtCsaehpyleklaellkekgvdvvavvadndafvkefwgkeglk 86 
                              k+g+ aP+f+l  +++dg +++l++++g  vv++f+p a +P C+ +++ ++++++++++ +  v++++ d+     +f++ke+l+
  PHY93_03845|PHY93_03845   5 KVGNLAPAFNL--LNQDGVETDLKSLRGSIVVLYFYPKAMTPGCTVQACGIRDFKKEFAKLNTVVLGLSPDEPKKLLKFIEKEKLN 88 
                              69********8..78*********************************************************************** PP

                              SEEEE-TTSHHHHHTT-TTEEE.GGG....EEE-EEEEEEETTEEEEE CS
                  Redoxin  87 fpvlsDgsaaftkalGlrleedaseg....lrtpryavidedgkvvyl 130
                              f +lsD+++ +++++G  +  ++ +g      ++++++i  dg++ ++
  PHY93_03845|PHY93_03845  89 FNLLSDPDHGIAEKYG-VWGLKKFMGreymGILRTTFIIGSDGRLLHI 135
                              ****************.556666666899778999********99887 PP

>> AhpC-TSA_2  AhpC/TSA antioxidant enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   7.9e-06     0.035       3      55 ..      54     107 ..      52     146 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 7.9e-06
               AhpC-TSA_2   3 srdkpeldaagvklvaigigdp.sakkFvkltgfpfelyvDpsaklyqalglkr 55 
                              ++ k+e+++ ++ + + + ++p ++ kF++ ++ +f+l+ Dp+  + ++ g++ 
  PHY93_03845|PHY93_03845  54 RDFKKEFAKLNTVVLGLSPDEPkKLLKFIEKEKLNFNLLSDPDHGIAEKYGVWG 107
                              566999****************66*******************99999998874 PP

>> SCO1-SenC  SCO1/SenC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   4.8e-05      0.22       3      94 ..      12      97 ..      10     132 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 4.8e-05
                SCO1-SenC  3 pFelvdqdgeavteedlegkpslvffgFthCpdvCpttlanmaevldalgeeaekvqplfiTvDPerDtpevlkeyleafdpriiglt 90
                              F+l++qdg + + ++l+g++++++f     +  C+++   +++  ++++    k++ ++  + P  D+p++l +++e+ + ++  l+
  PHY93_03845|PHY93_03845 12 AFNLLNQDGVETDLKSLRGSIVVLYFYPKAMTPGCTVQACGIRDFKKEFA----KLNTVVLGLSP--DEPKKLLKFIEKEKLNFNLLS 93
                             7*************************866666666666655555444443....44555555555..566666666666666666666 PP

                SCO1-SenC 91 Gske 94
                             ++  
  PHY93_03845|PHY93_03845 94 DPDH 97
                             5555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (155 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       321  (0.017904); expected 358.6 (0.02)
Passed bias filter:                      306  (0.0170673); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 1172.56
//
Query:       PHY93_17250|PHY93_17250  [L=105]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00058   20.2   0.0     0.0011   19.3   0.0    1.5  1  DUF4258   Domain of unknown function (DUF4258)


Domain annotation for each model (and alignments):
>> DUF4258  Domain of unknown function (DUF4258)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.3   0.0   6.3e-08    0.0011       1      62 [.      33     101 ..      33     105 .] 0.67

  Alignments for each domain:
  == domain 1  score: 19.3 bits;  conditional E-value: 6.3e-08
                  DUF4258   1 fsaHArermaeRgIseedieevlenG..eiieeys................lvlgktsegrplhvvvapdedpv..vviTvy 62 
                              fs+HA+ ++a +g++++d  +vl++   +i  + +                l             v++++  ++  +viT++
  PHY93_17250|PHY93_17250  33 FSKHALSELANDGLTTTDAVNVLKSCnaRILRDGEfengsfryrletayilL-------------VISFNQAGTkiIVITAW 101
                              8***********************6655555555566666655455544444.............55555555544555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (105 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       345  (0.0192426); expected 358.6 (0.02)
Passed bias filter:                      302  (0.0168442); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.23s 00:00:00.63 Elapsed: 00:00:00.40
# Mc/sec: 790.00
//
Query:       PHY93_03850|PHY93_03850  [L=382]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.034   13.7   0.0      0.041   13.4   0.0    1.2  1  Exo_endo_phos  Endonuclease/Exonuclease/phosphatase family
       0.07   13.1   0.0       0.28   11.1   0.0    1.9  2  PIG-P          PIG-P


Domain annotation for each model (and alignments):
>> Exo_endo_phos  Endonuclease/Exonuclease/phosphatase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   4.5e-06     0.041      22     162 ..      90     237 ..      24     296 .. 0.72

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 4.5e-06
                              HHHHHHHCTT..SEEEEEEEBSCTCHHHHHHHHHTTCEEEEECCHECSSSTTSSEEEEEECSTE........EEEEEEEEEETSSS CS
                              xxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx........xxxxxxxxxxxxxx RF
            Exo_endo_phos  22 ladlltayda..DvlgLQEvdddelsriplllalggflgasstsptgggggggnggavlsrfpl........tslfrrtfiefndl 97 
                              + d++t+ +   D lgL Ev ++    +++     g+ +++ t     +  +g  +a+l++ +          +++  ++   n+l
  PHY93_03850|PHY93_03850  90 INDVVTKERSlpDFLGLVEVENSNVVGRLAKK--LGYENFEIT---ESPDERGVDVALLYKNTKdvrkisrtEHIVPVDYATRNIL 170
                              4555555533449999***9999854444444..555555554...6899**************7654444444444444444444 PP

                              SGCEEEEEEEEEEEEEEE.........CCCHHGHHHHHHHHHHHHHHHHHHHHHTTSEEEE.EEE-SSSTSGGGB CS
                              xxxxxxxxxxxxxxxxxx.........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxx RF
            Exo_endo_phos  98 vaalrreplaakleqlni.........ashrdhdlvrdlqllalllqvealnadrgapviv.aGDfNarpsddds 162
                               ++  +           +         +s +++d+ r   + +l+ + ++  + +++ +i  +GDfN+  +  + 
  PHY93_03850|PHY93_03850 171 EVEFLIDEK--------YpltifvnhwPSLANPDSWRIKAAEILVKRSQEILRKNPKMAIMaLGDFNTIDDNSPH 237
                              444444444........344566666988888888888888777777777766666666666******5544444 PP

>> PIG-P  PIG-P
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   3.1e-05      0.28      57     119 ..       5      93 ..       1      94 [. 0.76
   2 ?   -0.9   0.0      0.16   1.4e+03      70      87 ..     164     201 ..     159     295 .. 0.57

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 3.1e-05
                    PIG-P  57 lyiyvalaslnlevltpplds..letivDeaakv........................eeeeeeeelkeyaseetdavmDlpigeV 116
                               + +++l+s++l++ t+++ s  +e+++D +  v                         e++++++ +  as+ tda +Dl+i+++
  PHY93_03850|PHY93_03850   5 YLSVIVLISFQLQARTLQVMSynVENLFDAKHDVinnidkkdwtflpkdapgkkeaclGEKNKHHRKECLASDWTDAKVDLKISQI 90 
                              45678899999999999988777999***99944555555555556666666666777667888999999**************** PP

                    PIG-P 117 nev 119
                              n+v
  PHY93_03850|PHY93_03850  91 NDV 93 
                              *98 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.16
                    PIG-P  70 vltppldsletivDeaa....................k 87 
                              ++t ++ ++e ++De+                     k
  PHY93_03850|PHY93_03850 164 YATRNILEVEFLIDEKYpltifvnhwpslanpdswriK 201
                              66666666666666665444333333333333333330 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (382 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       476  (0.0265492); expected 358.6 (0.02)
Passed bias filter:                      314  (0.0175135); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.22s 00:00:00.75 Elapsed: 00:00:00.42
# Mc/sec: 2752.16
//
Query:       PHY93_03855|PHY93_03855  [L=261]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.1e-40  139.5   0.0    1.4e-40  139.2   0.0    1.1  1  Peptidase_M48  Peptidase family M48


Domain annotation for each model (and alignments):
>> Peptidase_M48  Peptidase family M48
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  139.2   0.0   7.7e-45   1.4e-40       3     194 ..      59     242 ..      57     244 .. 0.97

  Alignments for each domain:
  == domain 1  score: 139.2 bits;  conditional E-value: 7.7e-45
                              -SSHHHHHHHHHHHHTT-..-EEEEEEE-GGGT-EEEEESSS-EEEEEEHHHH-SSB-HHHHHHHHHHHHHHHHTTHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48   3 reaelkevveelakeaglpkpltkvyvvnspkrNAFalgggknkrivltdgLlkqllseeelaaVlGHElGHikhrhsvvslivsl 88 
                              +++ ++++ +++a+ a+ p+ ++++  ++s++ NAF+l+gg   ++++++g++k +++e+ la+V+GHE+GH+ +rh   ++ ++ 
  PHY93_03855|PHY93_03855  59 EAKMVEAIGKRIAAIANQPDFKWEFKTLQSDTPNAFCLPGG---KVAVYTGIFKYAKNEAGLATVMGHEIGHAIARHGGQRMTQAM 141
                              5678999**********************************...****************************************** PP

                              HHHHHHHHHHHHHTT-SHHHHHTT--S---HHHHHHHHHHTTHHHHHHHHHHHHHHHHTTT.HHHHHHHHHHHHHHTT--S---HH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48  89 lasillllglallisraeedaagafldalavliglliillflalSRkrEyqADeagvellkrakdlvraliklakdlerqdvsasl 174
                                +++l  ++a+ ++ ++ d+ g +++al+v +++ iil   ++SR++E++ADe+g+ l++ra+++++++++++++++++  ++ +
  PHY93_03855|PHY93_03855 142 ATNVALAGLAAVGLAKMDPDKKGLVMAALGVGATIGIIL---PFSRANETEADEIGLTLMSRAGYDPQEAVNFWDRFSQAGGKSPP 224
                              ************************************999...***********************************999988887 PP

                              HHHHS-SS--HHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48 175 rsellstHPplleRiqalke 194
                                ++lstHPp+++R ++l++
  PHY93_03855|PHY93_03855 225 --AFLSTHPPSPQRKEHLQS 242
                              ..7**************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (261 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       694  (0.0387082); expected 358.6 (0.02)
Passed bias filter:                      592  (0.0330191); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.41
# Mc/sec: 1890.05
//
Query:       PHY93_03860|PHY93_03860  [L=268]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      4e-05   24.2   0.0    0.00018   22.1   0.0    2.2  2  TPR_16       Tetratricopeptide repeat
    0.00023   20.9   0.6    0.00038   20.2   0.0    1.6  2  TPR_21       Tetratricopeptide repeat-like domain
    0.00055   19.9   2.2     0.0023   18.0   0.0    3.0  3  TPR_8        Tetratricopeptide repeat
    0.00083   18.9   0.0     0.0015   18.1   0.0    1.3  1  T6SS_VasJ    Type VI secretion, EvfE, EvfF, ImpA, BimE, VC_A0
    0.00085   19.3   0.8     0.0059   16.6   0.1    2.8  3  TPR_2        Tetratricopeptide repeat
     0.0013   19.4   0.1      0.014   16.1   0.0    2.6  2  TPR_14       Tetratricopeptide repeat
     0.0014   19.1   0.1     0.0058   17.1   0.1    2.1  1  TPR_19       Tetratricopeptide repeat
     0.0018   18.0   0.1      0.013   15.3   0.1    2.5  3  TPR_1        Tetratricopeptide repeat
     0.0021   17.9   0.7       0.41   10.8   0.0    3.3  3  TPR_7        Tetratricopeptide repeat
     0.0054   17.3   0.1     0.0054   17.3   0.1    2.6  3  TPR_6        Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.014   15.1   3.1      0.036   13.7   0.1    2.9  3  TPR_11       TPR repeat
      0.042   13.5   0.1      0.097   12.3   0.0    1.6  2  Clenterotox  Clostridium enterotoxin
      0.047   13.6   0.0       0.25   11.3   0.0    2.3  3  TPR_10       Tetratricopeptide repeat
       0.18   11.9   0.7        5.7    7.1   0.0    2.4  2  SLT_L        Soluble lytic murein transglycosylase L domain


Domain annotation for each model (and alignments):
>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.2       7.4   9.4e+03      52      67 ..     125     140 ..     123     141 .. 0.70
   2 !   22.1   0.0   1.4e-07   0.00018       3      65 ..     170     231 ..     168     234 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 7.4
                   TPR_16  52 eAaalyraalraapda 67 
                              +A++ ++a+ +++p+a
  PHY93_03860|PHY93_03860 125 AALDSVDALKAESPQA 140
                              4558888888888876 PP

  == domain 2  score: 22.1 bits;  conditional E-value: 1.4e-07
                   TPR_16   3 laraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraalraap 65 
                              + +++++ +++d A+ +l   l++ ++    ++A + lgd+++ qg++++A ++y++ ++ ++
  PHY93_03860|PHY93_03860 170 EVQELVKVNKFDSALTLL-KELENSKEKQIVVRAKMMLGDLLFNQGEYDLASQVYEEVIKKYA 231
                              678999************.77777778899**************************9998876 PP

>> TPR_21  Tetratricopeptide repeat-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.1       2.9   3.8e+03      36      56 ..      56      75 ..      51      85 .. 0.51
   2 !   20.2   0.0     3e-07   0.00038     108     177 ..     159     231 ..     133     247 .. 0.85

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 2.9
                   TPR_21 36 aeeAsalYqqlqeaveakdaa 56
                              +e +  Yq+l++ +++++ a
  PHY93_03860|PHY93_03860 56 YDELARKYQELLN-LSKNQLA 75
                             4455556666664.3333333 PP

  == domain 2  score: 20.2 bits;  conditional E-value: 3e-07
                   TPR_21 108 deelkalarlRLarvllaekkydeAlktL...eakkeeafaalvaelrGDilvaqgkldeAraaYqaAlaale 177
                              d+  +++ rlR  + l++ +k+d Al++L   e++ke++  ++++ + GD+l++qg+ d A + Y++ +++ +
  PHY93_03860|PHY93_03860 159 DDIDEQITRLREVQELVKVNKFDSALTLLkelENSKEKQIVVRAKMMLGDLLFNQGEYDLASQVYEEVIKKYA 231
                              4445789999999999*********876644488999999999***********************9998865 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0       9.1   1.2e+04      13      22 ..     186     195 ..     179     195 .. 0.66
   2 !   18.0   0.0   1.8e-06    0.0023       2      29 ..     201     228 ..     200     228 .. 0.94
   3 ?   -0.4   0.2       1.4   1.8e+03       7      24 ..     243     260 ..     237     262 .. 0.76

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 9.1
                              HTT-HHHHHH CS
                    TPR_8  13 klgdyeeAke 22 
                               l+++e++ke
  PHY93_03860|PHY93_03860 186 LLKELENSKE 195
                              5677777765 PP

  == domain 2  score: 18.0 bits;  conditional E-value: 1.8e-06
                              CHHHHHHHHHHHTT-HHHHHHHHHHHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeAkeyyekale 29 
                              +a ++lg++++++g+y+ A ++ye++++
  PHY93_03860|PHY93_03860 201 RAKMMLGDLLFNQGEYDLASQVYEEVIK 228
                              7889*********************997 PP

  == domain 3  score: -0.4 bits;  conditional E-value: 1.4
                              HHHHHHHTT-HHHHHHHH CS
                    TPR_8   7 lgsiylklgdyeeAkeyy 24 
                              l  + +kl++ e+  +yy
  PHY93_03860|PHY93_03860 243 LVACSEKLKQPEKQAKYY 260
                              555668999***999999 PP

>> T6SS_VasJ  Type VI secretion, EvfE, EvfF, ImpA, BimE, VC_A0119, VasJ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.0   1.2e-06    0.0015     165     234 ..     158     229 ..     134     233 .. 0.81

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 1.2e-06
                T6SS_VasJ 165 sesadedl...aealelaaeegleaalsllqqalaratspRerflwrlllarlleqagkhelAlalleeldeq 234
                              +++ de+     e+ el++ ++++ al ll++  + ++++   +++++ l +ll ++g ++lA++++ee+ ++
  PHY93_03860|PHY93_03860 158 TDDIDEQItrlREVQELVKVNKFDSALTLLKELEN-SKEKQIVVRAKMMLGDLLFNQGEYDLASQVYEEVIKK 229
                              233333336669999****************9988.888888899999999******************9876 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.1       3.6   4.6e+03      22      31 ..      61      70 ..      54      72 .. 0.66
   2 ?   -2.1   0.0       4.7     6e+03      15      26 ..     178     189 ..     174     190 .. 0.77
   3 !   16.6   0.1   4.6e-06    0.0059       3      30 ..     202     229 ..     200     231 .. 0.90

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 3.6
                    TPR_2 22 eafekAleld 31
                             + +++ l l 
  PHY93_03860|PHY93_03860 61 RKYQELLNLS 70
                             5677777776 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 4.7
                    TPR_2  15 gdyeeAleafek 26 
                              ++++ Al ++++
  PHY93_03860|PHY93_03860 178 NKFDSALTLLKE 189
                              789999988876 PP

  == domain 3  score: 16.6 bits;  conditional E-value: 4.6e-06
                    TPR_2   3 alynlGlayyklgdyeeAleafekAlel 30 
                              a ++lG++++++g+y+ A + +e++++ 
  PHY93_03860|PHY93_03860 202 AKMMLGDLLFNQGEYDLASQVYEEVIKK 229
                              6678*********************996 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.0       2.6   3.3e+03      14      27 ..     177     190 ..     166     193 .. 0.77
   2 !   16.1   0.0   1.1e-05     0.014       2      43 ..     201     242 ..     200     243 .. 0.88

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 2.6
                   TPR_14  14 lGdpdeAiallrra 27 
                                ++d A++ll+++
  PHY93_03860|PHY93_03860 177 VNKFDSALTLLKEL 190
                              56899999999975 PP

  == domain 2  score: 16.1 bits;  conditional E-value: 1.1e-05
                   TPR_14   2 eallalaeallalGdpdeAiallrralalaPddaeawlllaq 43 
                              +a ++l+++l+++G++d A ++++++++++  + +++ +l++
  PHY93_03860|PHY93_03860 201 RAKMMLGDLLFNQGEYDLASQVYEEVIKKYAFSGQVLKALGK 242
                              7889************************99877777777776 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.1   4.5e-06    0.0058       5      68 .]     178     243 ..     174     243 .. 0.82

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 4.5e-06
                   TPR_19   5 gdyaeAlalleqalqedpk...naearllLAeallalgqldeAealLdalpeedpddaryasLlAkl 68 
                              +++++Al ll+++ + + +     +a++ L ++l+++g++d A ++ +++ ++++ + ++ ++l+kl
  PHY93_03860|PHY93_03860 178 NKFDSALTLLKEL-ENSKEkqiVVRAKMMLGDLLFNQGEYDLASQVYEEVIKKYAFSGQVLKALGKL 243
                              68999*******6.43333457889999*********************999998887777777765 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0       7.1   9.1e+03      16      22 ..     116     122 ..     115     123 .. 0.76
   2 ?   -2.4   0.0         4   5.1e+03      13      23 ..     176     186 ..     174     189 .. 0.73
   3 !   15.3   0.1     1e-05     0.013       3      29 ..     202     228 ..     200     230 .. 0.89

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 7.1
                              -HHHHHH CS
                    TPR_1  16 kydeAle 22 
                              + d+A+ 
  PHY93_03860|PHY93_03860 116 RIDKAIP 122
                              7899997 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 4
                              HTT-HHHHHHH CS
                    TPR_1  13 klgkydeAley 23 
                              k +k+d Al  
  PHY93_03860|PHY93_03860 176 KVNKFDSALTL 186
                              56899999865 PP

  == domain 3  score: 15.3 bits;  conditional E-value: 1e-05
                              HHHHHHHHHHHTT-HHHHHHHHHHHHH CS
                    TPR_1   3 alynlGnayfklgkydeAleyyekALe 29 
                              a   lG ++f++g+yd A + ye++++
  PHY93_03860|PHY93_03860 202 AKMMLGDLLFNQGEYDLASQVYEEVIK 228
                              66779*******************997 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.2      0.16     2e+02      14      31 ..      55      72 ..      53      80 .. 0.78
   2 ?    0.8   0.0      0.49   6.2e+02      11      24 ..     176     189 ..     173     198 .. 0.83
   3 !   10.8   0.0   0.00032      0.41       5      27 ..     206     226 ..     204     242 .. 0.90

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.16
                    TPR_7 14 dyeeAielyeqsLaltkd 31
                             +y+e+++ y+++L l k 
  PHY93_03860|PHY93_03860 55 QYDELARKYQELLNLSKN 72
                             799999999997776654 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.49
                    TPR_7  11 rlGdyeeAielyeq 24 
                              ++++++ A++l+++
  PHY93_03860|PHY93_03860 176 KVNKFDSALTLLKE 189
                              7899*******998 PP

  == domain 3  score: 10.8 bits;  conditional E-value: 0.00032
                    TPR_7   5 LarlysrlGdyeeAielyeqsLa 27 
                              L++l +++G+y+ A ++ye+  +
  PHY93_03860|PHY93_03860 206 LGDLLFNQGEYDLASQVYEE--V 226
                              9******************9..4 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.1       9.6   1.2e+04      23      30 ..      56      63 ..      53      69 .. 0.56
   2 ?   -2.4   0.0       7.9     1e+04      14      26 ..     178     190 ..     167     192 .. 0.77
   3 !   17.3   0.1   4.2e-06    0.0054       4      31 ..     204     231 ..     201     233 .. 0.91

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 9.6
                             HHHHHHH- CS
                    TPR_6 23 lerlikeY 30
                             +++l ++Y
  PHY93_03860|PHY93_03860 56 YDELARKY 63
                             55555555 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 7.9
                              HHHHHHHHHHHHH CS
                    TPR_6  14 gdtdkAlealerl 26 
                              ++ d Al++l++l
  PHY93_03860|PHY93_03860 178 NKFDSALTLLKEL 190
                              4678899999876 PP

  == domain 3  score: 17.3 bits;  conditional E-value: 4.2e-06
                              HHHHHHHHHHHHHHHHHHHHHHHHHH-T CS
                    TPR_6   4 yklalsyrklgdtdkAlealerlikeYP 31 
                              ++l+ +++++g++d A + +e++ik+Y 
  PHY93_03860|PHY93_03860 204 MMLGDLLFNQGEYDLASQVYEEVIKKYA 231
                              789************************5 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.4   0.4      0.75   9.6e+02       8      26 ..      54      72 ..      52      73 .. 0.82
   2 ?   -1.6   0.0       1.8   2.3e+03       4      19 ..     174     189 ..     172     192 .. 0.79
   3 ?   13.7   0.1   2.8e-05     0.036       1      22 [.     207     228 ..     207     229 .. 0.96

  Alignments for each domain:
  == domain 1  score: -0.4 bits;  conditional E-value: 0.75
                   TPR_11  8 GkyeeAieaYkkAlkldPd 26
                              +y+e   +Y++ l+l+ +
  PHY93_03860|PHY93_03860 54 EQYDELARKYQELLNLSKN 72
                             578888889******9976 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 1.8
                   TPR_11   4 yyeqGkyeeAieaYkk 19 
                              +++ +k++ A++ +k+
  PHY93_03860|PHY93_03860 174 LVKVNKFDSALTLLKE 189
                              5666899999998886 PP

  == domain 3  score: 13.7 bits;  conditional E-value: 2.8e-05
                   TPR_11   1 GdayyeqGkyeeAieaYkkAlk 22 
                              Gd+++ qG+y+ A ++Y++ +k
  PHY93_03860|PHY93_03860 207 GDLLFNQGEYDLASQVYEEVIK 228
                              9******************997 PP

>> Clenterotox  Clostridium enterotoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   7.6e-05     0.097     104     174 ..      67     135 ..      59     140 .. 0.84
   2 ?   -3.2   0.0       4.1   5.3e+03      99     116 ..     212     229 ..     205     239 .. 0.67

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 7.6e-05
              Clenterotox 104 YlpslgylevtdapslgaevvetpidedsliqtGpeeeivvgvidPsenieeintaisdtytynipdavns 174
                                +s   l +t+ap++ a+vv tp + d+ +qt pe     + +dPs+ ++ i +ai+dt  ++  da++ 
  PHY93_03860|PHY93_03860  67 LNLSKNQLAKTEAPAAMAPVV-TPHNIDGNVQTKPEVGASSA-LDPSDLVNRIDKAIPDTAALDSVDALKA 135
                              567888999*********999.567778899***98776655.5********************9999876 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 4.1
              Clenterotox  99 dkaeyYlpslgylevtda 116
                              +++ey l s +y ev++ 
  PHY93_03860|PHY93_03860 212 NQGEYDLASQVYEEVIKK 229
                              677777777777777654 PP

>> TPR_10  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.1         6   7.7e+03      26      36 ..      57      67 ..      54      70 .. 0.63
   2 ?   -2.0   0.0       2.8   3.6e+03      15      27 ..     177     189 ..     174     189 .. 0.83
   3 ?   11.3   0.0   0.00019      0.25       6      32 ..     204     230 ..     199     231 .. 0.88

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 6
                   TPR_10 26 eealairrrll 36
                             +e  + +++ll
  PHY93_03860|PHY93_03860 57 DELARKYQELL 67
                             55556677776 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 2.8
                   TPR_10  15 rgrydeAeallee 27 
                              ++++d A+ ll+e
  PHY93_03860|PHY93_03860 177 VNKFDSALTLLKE 189
                              7899****99976 PP

  == domain 3  score: 11.3 bits;  conditional E-value: 0.00019
                   TPR_10   6 nNLanalrqrgrydeAealleealair 32 
                                L+ +l+++g+yd A + +ee++  +
  PHY93_03860|PHY93_03860 204 MMLGDLLFNQGEYDLASQVYEEVIKKY 230
                              57999******************9876 PP

>> SLT_L  Soluble lytic murein transglycosylase L domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.7   0.2      0.11   1.4e+02       7      26 ..      59      78 ..      53      84 .. 0.77
   2 ?    7.1   0.0    0.0045       5.7       7      55 ..     167     219 ..     163     222 .. 0.83

  Alignments for each domain:
  == domain 1  score: 2.7 bits;  conditional E-value: 0.11
                    SLT_L  7 alarirELralgrdaeArre 26
                               +  +EL+ l +++ A++e
  PHY93_03860|PHY93_03860 59 LARKYQELLNLSKNQLAKTE 78
                             344579***********998 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0045
                    SLT_L   7 alarirELralgrdaeArreWrhllkrlskee....qlalakyAkdqgWhdla 55 
                               l+ ++EL++ +++++A +   +l ++ +k+     +++l+++  +qg +dla
  PHY93_03860|PHY93_03860 167 RLREVQELVKVNKFDSALTLLKELENSKEKQIvvraKMMLGDLLFNQGEYDLA 219
                              6899*************998877766655554888899999999999999998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (268 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1080  (0.0602376); expected 358.6 (0.02)
Passed bias filter:                      698  (0.0389313); expected 358.6 (0.02)
Passed Vit filter:                        67  (0.00373696); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.42
# Mc/sec: 1899.89
//
Query:       PHY93_03865|PHY93_03865  [L=716]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.6e-10   38.5   0.0    2.8e-09   36.9   0.0    1.9  2  LysM      LysM domain
    2.5e-05   24.7   0.0      0.023   15.2   0.0    3.2  3  FlgT_C    Flagellar assembly protein T, C-terminal domain


Domain annotation for each model (and alignments):
>> LysM  LysM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.9   0.0   3.1e-13   2.8e-09       1      41 [.     170     214 ..     170     216 .. 0.97
   2 ?   -3.9   0.0       1.8   1.6e+04       2       7 ..     374     379 ..     374     381 .. 0.88

  Alignments for each domain:
  == domain 1  score: 36.9 bits;  conditional E-value: 3.1e-13
                              EEE-TT--HHHHHHHC...TCHHHHHHHHC.TCSSCGG--TTEEE CS
                     LysM   1 YtVkkGDTLwsIAkry...gitveklleaN.nlsspdkifpGqkL 41 
                              Y V++GD Lw+I+k+    g  ++k++++N ++ +p+ i+pG+ L
  PHY93_03865|PHY93_03865 170 YEVQRGDYLWKISKKLfgsGFYYSKIWALNpQIANPHEIEPGTIL 214
                              99****************************************987 PP

  == domain 2  score: -3.9 bits;  conditional E-value: 1.8
                              EE-TT- CS
                     LysM   2 tVkkGD 7  
                              +Vk+GD
  PHY93_03865|PHY93_03865 374 KVKPGD 379
                              69***9 PP

>> FlgT_C  Flagellar assembly protein T, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.7   0.0         2   1.8e+04      65      74 ..     168     177 ..     162     179 .. 0.74
   2 !    5.9   0.0    0.0021        19       3      30 ..     364     391 ..     363     436 .. 0.68
   3 !   15.2   0.0   2.5e-06     0.023       2      67 ..     473     537 ..     472     544 .. 0.85

  Alignments for each domain:
  == domain 1  score: -3.7 bits;  conditional E-value: 2
                   FlgT_C  65 sllniQvnDv 74 
                              + +++Q++D+
  PHY93_03865|PHY93_03865 168 EKYEVQRGDY 177
                              6789999997 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.0021
                   FlgT_C   3 rvvinlGrkhGvkkGDklqlvrsasfid 30 
                              +++++  + + vk+GD ++++ +   i+
  PHY93_03865|PHY93_03865 364 TIYVSFDKSAKVKPGDLFSVYTAGGEIK 391
                              56777778999**********8765555 PP

  == domain 3  score: 15.2 bits;  conditional E-value: 2.5e-06
                   FlgT_C   2 nrvvinlGrkhGvkkGDklqlvrsasfidq..lgetraelnkseatltVeqVyeetavltlvdensll 67 
                              + v+++ Gr+ Gv  G  + ++   sf+d+  + +  +  + + ++ltV ++++++a++ +++++++ 
  PHY93_03865|PHY93_03865 473 DVVYLDRGRADGVELGNLFEVY---SFVDRgtNRKITPSPTYKVGELTVINITDNFATALVTNSSNEI 537
                              66999**************998...67777656666677799*******************9887665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (716 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1625  (0.0906353); expected 358.6 (0.02)
Passed bias filter:                      390  (0.0217525); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.73u 0.27s 00:00:01.00 Elapsed: 00:00:00.45
# Mc/sec: 4814.06
//
Query:       PHY93_03870|PHY93_03870  [L=838]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   1.1e-124  416.6   2.6   1.5e-124  416.2   2.6    1.2  1  Topoisom_bac     DNA topoisomerase
    9.5e-30  102.1  39.1    1.3e-10   40.9   3.0    5.3  4  zf-C4_Topoisom   Topoisomerase DNA binding C4 zinc finger
    2.7e-25   88.5   0.2    1.1e-24   86.7   0.2    2.1  1  Toprim           Toprim domain
     0.0013   19.1   0.1     0.0069   16.8   0.1    2.3  2  Toprim_2         Toprim-like
     0.0089   16.0  12.5       0.43   10.6   0.5    3.6  3  HypA             Hydrogenase/urease nickel incorporation, met
  ------ inclusion threshold ------
      0.024   15.1   0.4       0.12   12.8   0.0    2.3  2  Toprim_4         Toprim domain
       0.35   10.9  14.8       0.41   10.7   0.8    3.2  3  zinc-ribbons_6   zinc-ribbons
        7.1    6.7  24.7       0.12   12.3   4.1    4.3  4  Zn_Tnp_IS1595    Transposase zinc-ribbon domain


Domain annotation for each model (and alignments):
>> Topoisom_bac  DNA topoisomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  416.2   2.6  6.8e-128  1.5e-124       2     412 ..     189     626 ..     188     627 .. 0.88

  Alignments for each domain:
  == domain 1  score: 416.2 bits;  conditional E-value: 6.8e-128
             Topoisom_bac   2 inenlvdaaeaRrelDwliGinlsrlltkklkgkkvlsaGRVqtptLaliveRereienFvpeeyweveatlkkekkeke...... 81 
                              +n++++d++++Rr+lD+l+G+++s++l+ k++  + +saGRVq+++L++iv+Re+ i++F+pe++++++++l+k++ ++e      
  PHY93_03870|PHY93_03870 189 LNQQMYDSQKTRRVLDRLVGYKISPILWDKVQ--RGISAGRVQSVALRVIVDREDVIKAFTPEKWFSIQGELEKKNINFEvryyge 272
                              79***************************999..8************************************977777777899643 PP

             Topoisom_bac  82 .kkkkkkkerikdkeea....eaileklkkkeakvesvekkekkkppplpfdtttLqkeasrklglsakktlsiaqkLYe...... 156
                                     k++  d  ea    ++il+++k k++k  +v+kke+k++p  pf+t++Lq+ea++klg++akkt++iaq LYe      
  PHY93_03870|PHY93_03870 273 eA----GKKTDLDGPEAevlsKKILTDIKGKTLKAIEVKKKERKQNPTAPFTTSKLQQEAANKLGFTAKKTMMIAQMLYEgvqlrd 354
                              32....333333444440111666677755699999************************************************** PP

             Topoisom_bac 157 ...kaglitYpRTdstrlseeaelkailealakkygkeylefaekllkktkkksvvknkkveaHeAIrPteelp.klkels..... 233
                                 + glitY+RTds r ++ea +ka++e++ +kygk++l+  e ++kk k++    + + +aHeAIrPt + + +  e+      
  PHY93_03870|PHY93_03870 355 hglQ-GLITYMRTDSVRTEPEA-MKALREFIPNKYGKDFLSTEEITYKK-KGT---SKVQ-DAHEAIRPT-SFEfTP-EEVrgdld 431
                              9966.*****************.9*****************99999984.434...3556.*********.555553.33335566 PP

             Topoisom_bac 234 ddekklYelIvrrflaslmkdakyeettvkleveeeefkasgktilekGfkkvy.......keekkeeeee............elp 300
                               d++klYe+I+++f+ s+m++a++++t+v++e++++ fk++g++++++Gf++vy       +++k     e             lp
  PHY93_03870|PHY93_03870 432 PDQQKLYEMIWNKFISSQMSPAIIDQTSVTFESGGHFFKSNGSIVKFPGFRTVYldslaekQSRK-----EadsedveesksgLLP 512
                              88999*************************************************98775442222.....13455699999999** PP

             Topoisom_bac 301 elkegeevkvke.veleekkTkppkryteasLikamekagiGtpaTraeiieklvergYverkkkslvptelGkalvell.ekfkd 384
                              e++ege+++ k+ +++ee++T+pp+r++easL+ka+e+ giG+p+T+a+ii+++++rgYve+ +++++ptelG++++++l e f+d
  PHY93_03870|PHY93_03870 513 EISEGETFTQKKlIDMEEHWTSPPPRFNEASLVKALEEDGIGRPSTYAAIISNIQDRGYVEKIENRFIPTELGTVVCKMLvESFPD 598
                              *******87755267***********************************************889***************9999** PP

             Topoisom_bac 385 lvspelTaeleekLdeIaegkadakevl 412
                              +++ e+Ta++ee Ld+I+eg+ ++k+vl
  PHY93_03870|PHY93_03870 599 VMDIEFTAKVEELLDKIEEGEVNWKKVL 626
                              **************************98 PP

>> zf-C4_Topoisom  Topoisomerase DNA binding C4 zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.5   3.2   2.8e-12   6.4e-09       2      39 .]     656     694 ..     655     694 .. 0.95
   2 !   40.9   3.0   5.7e-14   1.3e-10       4      35 ..     711     742 ..     708     744 .. 0.94
   3 !   40.2   3.8   9.3e-14   2.1e-10       2      38 ..     747     785 ..     746     785 .. 0.94
   4 ?    0.9   5.6      0.17   3.9e+02       4      18 ..     790     805 ..     789     821 .. 0.77

  Alignments for each domain:
  == domain 1  score: 35.5 bits;  conditional E-value: 2.8e-12
                              EE-SSS-.-EEEEEE-SSSEEEEESST.T----EEB-GG CS
           zf-C4_Topoisom   2 ekCPkCg.gdLvlkrgkkGkFvGCsnYPeCkftkklkkn 39 
                              + C kC  g+ ++k gk+G F +CsnYP+C+ t+ +kkn
  PHY93_03870|PHY93_03870 656 VHCRKCAdGEYQIKWGKNGQFFACSNYPDCNSTEDFKKN 694
                              68********************************99986 PP

  == domain 2  score: 40.9 bits;  conditional E-value: 5.7e-14
                              -SSS--EEEEEE-SSSEEEEESST.T----EE CS
           zf-C4_Topoisom   4 CPkCggdLvlkrgkkGkFvGCsnYPeCkftkk 35 
                              CP Cg+ + +k+gk+GkF++C  YP C +t +
  PHY93_03870|PHY93_03870 711 CPTCGKRMAIKKGKYGKFLACEEYPTCATTLP 742
                              ****************************9987 PP

  == domain 3  score: 40.2 bits;  conditional E-value: 9.3e-14
                              EE-SSS-.-EEEEEE-SSS.EEEEESST.T----EEB-G CS
           zf-C4_Topoisom   2 ekCPkCg.gdLvlkrgkkG.kFvGCsnYPeCkftkklkk 38 
                              + CP+C+ g+  +k++++G  F+GCs YP C ++ ++k+
  PHY93_03870|PHY93_03870 747 IHCPECKvGKFAEKKSRYGkFFYGCSTYPTCSNAMWTKP 785
                              57********************************99885 PP

  == domain 4  score: 0.9 bits;  conditional E-value: 0.17
                              -SSS-.-EEEEEE-SS CS
           zf-C4_Topoisom   4 CPkCg.gdLvlkrgkk 18 
                              CPkCg + + +k +kk
  PHY93_03870|PHY93_03870 790 CPKCGyAVMGEKFTKK 805
                              *****99999999887 PP

>> Toprim  Toprim domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.7   0.2   4.7e-28   1.1e-24       2     102 ..      67     173 ..      66     174 .. 0.90

  Alignments for each domain:
  == domain 1  score: 86.7 bits;  conditional E-value: 4.7e-28
                              EEEESSHHHHHHHHHTHTSTEEEEEEESSSSEEEHS.....TTEEEEE....ECTTTHHHHHHHHHHHHHHSEEEEECSSSHHHHH CS
                   Toprim   2 lvivEgpsdaktiakalgsgfqavtaslGhildlet.....efkpvye....eiedkkkvlkalkelakradeiilatDpDreGea 78 
                              lvivE+ps+akti+k+lg  +++v+as Ghi dl++     ++k+ +      i +kk++++ ++ela+ a++i+la D DreGea
  PHY93_03870|PHY93_03870  67 LVIVESPSKAKTIKKYLG-RNYQVVASNGHIKDLPKsklgvDVKDDFAldlvPITGKKDKIERIQELARYANQIYLAPDMDREGEA 151
                              8*****************.9****************9999955555556666********************************** PP

                              HHHHHHHHHTHHHTTTEEEEEESS CS
                   Toprim  79 iawellevlkellenkigrvefse 102
                              ia++l+e ++   +++i rv+f+ 
  PHY93_03870|PHY93_03870 152 IAFHLAEEIG--KKKNIHRVVFNA 173
                              ******9999..44459*****96 PP

>> Toprim_2  Toprim-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.1   3.1e-06    0.0069      33      72 ..     101     164 ..      55     184 .. 0.72
   2 ?   -4.4   0.0         8   1.8e+04      57      74 ..     799     816 ..     798     820 .. 0.74

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 3.1e-06
                 Toprim_2  33 e.........................aalkllerypekkvvlalDnDkaGrkaakrlaellreag 72 
                              +                         +++++l+ry +++++la D D+ G++ a  lae + +++
  PHY93_03870|PHY93_03870 101 KsklgvdvkddfaldlvpitgkkdkiERIQELARY-ANQIYLAPDMDREGEAIAFHLAEEIGKKK 164
                              2445555555555555555555555599*******.888*******************9997776 PP

  == domain 2  score: -4.4 bits;  conditional E-value: 8
                 Toprim_2  57 Grkaakrlaellreagvr 74 
                              G+k++k+l ++l+ +++r
  PHY93_03870|PHY93_03870 799 GEKFTKKLGKQLECPKCR 816
                              889999998888766654 PP

>> HypA  Hydrogenase/urease nickel incorporation, metallochaperone, hypA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.6   0.5   0.00019      0.43      48     102 ..     633     723 ..     587     724 .. 0.77
   2 !    7.1   1.4    0.0023       5.1      56      95 ..     694     755 ..     685     763 .. 0.84
   3 !    8.2   0.7    0.0011       2.5      66      95 ..     783     818 ..     775     830 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00019
                              HHHHHCC.TTTT-EEEEEEE--EEEETTTS-.EEECHHH.HH....................................S-TTTSSS CS
                     HypA  48 fellaegtvlegaeLeieevpvkvrCreCgk.efeleek.al....................................rCpkCgsa 95 
                              fel  e+   e ++L+ +++p  v+Cr+C   e++++   +                                      Cp+Cg+ 
  PHY93_03870|PHY93_03870 633 FELTLEKAKEEMKNLKKQSIPTGVHCRKCADgEYQIK-WgKNgqffacsnypdcnstedfkknldgsylivdkvfandPCPTCGK- 716
                              56666777788899***************94133333.22225669999999999999999999999999999999999999998. PP

                              -EEEEES CS
                     HypA  96 dveivsG 102
                              ++ i++G
  PHY93_03870|PHY93_03870 717 RMAIKKG 723
                              4566666 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0023
                              TTTT-EEEEEEE--EEEETTTS-EEECHH.HHH......................S-TTTSSS CS
                     HypA  56 vlegaeLeieevpvkvrCreCgkefelee.kal......................rCpkCgsa 95 
                               l+g+ L +++v ++  C +Cgk++ +++ k +                      +Cp+C+  
  PHY93_03870|PHY93_03870 694 NLDGSYLIVDKVFANDPCPTCGKRMAIKKgK-YgkflaceeyptcattlpftldiHCPECKVG 755
                              5789999999****************88743.3456899999999999999999999999865 PP

  == domain 3  score: 8.2 bits;  conditional E-value: 0.0011
                              EE--EEEETTTS-EEECHH...H...HHS-TTTSSS CS
                     HypA  66 evpvkvrCreCgkefelee...k...alrCpkCgsa 95 
                              ++p  + C +Cg+ +  e+   k   +l+CpkC ++
  PHY93_03870|PHY93_03870 783 TKPFPFACPKCGYAVMGEKftkKlgkQLECPKCRHR 818
                              5688899*****9998666443133455*****874 PP

>> Toprim_4  Toprim domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   5.4e-05      0.12      52      85 ..     134     166 ..     112     170 .. 0.72
   2 ?   -2.0   0.1       2.4   5.3e+03       4      16 ..     591     603 ..     591     610 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 5.4e-05
                 Toprim_4  52 kkvkevilaldgDaeGeataerlaellleegvkv 85 
                                +++++la d D eGea a++lae+++ ++ ++
  PHY93_03870|PHY93_03870 134 RYANQIYLAPDMDREGEAIAFHLAEEIG-KKKNI 166
                              33599********************664.34444 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 2.4
                 Toprim_4   4 iiVEgyaDvlale 16 
                              ++VE++ Dv+ +e
  PHY93_03870|PHY93_03870 591 MLVESFPDVMDIE 603
                              78********998 PP

>> zinc-ribbons_6  zinc-ribbons
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.4      0.48   1.1e+03      15      25 ..     654     665 ..     638     690 .. 0.67
   2 ?    7.6   2.1    0.0017       3.7       3      36 ..     711     753 ..     709     773 .. 0.74
   3 ?   10.7   0.8   0.00018      0.41       4      41 ..     775     821 ..     771     824 .. 0.84

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.48
                              SEEE-TTT--.E CS
           zinc-ribbons_6  15 eqyhCeaCqe.d 25 
                              + +hC++C + +
  PHY93_03870|PHY93_03870 654 TGVHCRKCADgE 665
                              678888887642 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0017
                              -SSS-S--E.E-S...SEEE-T...TT--..EEEEEEE-SSS- CS
           zinc-ribbons_6   3 CpeCqqele.krg...eqyhCe...aCqe..dlkkealCpeCe 36 
                              Cp+C + +  k+g   + + Ce   +C +   ++   +CpeC+
  PHY93_03870|PHY93_03870 711 CPTCGKRMAiKKGkygKFLACEeypTCATtlPFTLDIHCPECK 753
                              *********666655533445422245557789999******7 PP

  == domain 3  score: 10.7 bits;  conditional E-value: 0.00018
                              SSS-S--EE-SSEEE-TTT--.........EEEEEEE-SSS-S---E CS
           zinc-ribbons_6   4 peCqqelekrgeqyhCeaCqe.........dlkkealCpeCeqelev 41 
                              p+C +++ ++   + C +C           +l k+  Cp+C++++++
  PHY93_03870|PHY93_03870 775 PTCSNAMWTKPFPFACPKCGYavmgekftkKLGKQLECPKCRHRVDM 821
                              78999999999999999999888888888888889999999988876 PP

>> Zn_Tnp_IS1595  Transposase zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.6       0.2   4.4e+02      16      42 ..     653     681 ..     644     688 .. 0.67
   2 ?    5.6   0.2    0.0071        16      14      42 ..     705     733 ..     700     740 .. 0.63
   3 ?   -0.4   2.4      0.54   1.2e+03      20      41 ..     748     772 ..     743     780 .. 0.71
   4 ?   12.3   4.1   5.4e-05      0.12      13      45 ..     780     817 ..     772     818 .. 0.79

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.2
            Zn_Tnp_IS1595  16 pngfvCPhCgsrkayrikt...rglfqCke 42 
                              p+g++C +C+ +  y+ik     + f C+ 
  PHY93_03870|PHY93_03870 653 PTGVHCRKCA-DGEYQIKWgknGQFFACSN 681
                              78999****9.5455555445556666765 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.0071
            Zn_Tnp_IS1595  14 rWpngfvCPhCgsrkayrikt...rglfqCke 42 
                              +++n + CP Cg+r a  ik+    + + C+e
  PHY93_03870|PHY93_03870 705 VFANDP-CPTCGKRMA--IKKgkyGKFLACEE 733
                              677888.*****7733..33322455666666 PP

  == domain 3  score: -0.4 bits;  conditional E-value: 0.54
            Zn_Tnp_IS1595  20 vCPhCgsrkayrikt...rglfqCk 41 
                              +CP C++ k+ + k+    + + C+
  PHY93_03870|PHY93_03870 748 HCPECKVGKFAEKKSrygKFFYGCS 772
                              7*****9877666665556667676 PP

  == domain 4  score: 12.3 bits;  conditional E-value: 5.4e-05
            Zn_Tnp_IS1595  13 lrWpng..fvCPhCgsr....kayriktrglfqCkeCrk 45 
                              + W     f CP+Cg++    k+++    ++++C +Cr+
  PHY93_03870|PHY93_03870 780 AMWTKPfpFACPKCGYAvmgeKFTKKL-GKQLECPKCRH 817
                              6788888799*******9754444444.6*********9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (838 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1180  (0.0658152); expected 358.6 (0.02)
Passed bias filter:                      754  (0.0420548); expected 358.6 (0.02)
Passed Vit filter:                        97  (0.00541023); expected 17.9 (0.001)
Passed Fwd filter:                        34  (0.00189637); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.85u 0.29s 00:00:01.13 Elapsed: 00:00:00.48
# Mc/sec: 5201.69
//
Query:       PHY93_03875|PHY93_03875  [L=322]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (322 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       569  (0.0317363); expected 358.6 (0.02)
Passed bias filter:                      434  (0.0242066); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.42
# Mc/sec: 2282.83
//
Query:       PHY93_03880|PHY93_03880  [L=419]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.1e-32  113.3  30.9    2.3e-16   59.7  19.3    2.0  2  MFS_1       Major Facilitator Superfamily
    6.6e-09   35.1  26.2    2.1e-05   23.6   3.4    3.1  3  Sugar_tr    Sugar (and other) transporter
    2.2e-08   33.4  24.7    1.7e-06   27.2   0.4    2.1  2  MFS_1_like  MFS_1 like family
     0.0015   17.0   2.0     0.0015   17.0   2.0    2.0  3  MFS_3       Transmembrane secretion effector


Domain annotation for each model (and alignments):
>> MFS_1  Major Facilitator Superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.0   7.9   3.4e-19   1.5e-15       2     226 ..      46     264 ..      45     272 .. 0.88
   2 !   59.7  19.3   5.2e-20   2.3e-16      23     174 ..     269     417 ..     249     419 .] 0.86

  Alignments for each domain:
  == domain 1  score: 57.0 bits;  conditional E-value: 3.4e-19
                    MFS_1   2 llaaflsalarsilgpalplalaedlgispseigllltlyalgaavaslplGrlsdrfGrrr.vlllglllfalg.lllllfassl 85 
                              +l+ f+  +++ +l+p++p ++ ++ g+ +  ig+l ++  + a+++   +G lsd  Grr  ++++g++l++++ ++++lf++++
  PHY93_03880|PHY93_03880  46 SLVSFFGDISSELLYPIMP-LYLKSIGMGALYIGMLEGVADAIAGISKSYFGKLSDVSGRRMpFVWFGYVLSSFSkAAIGLFVNPV 130
                              688999999**********.666999*******************************************************98888 PP

                    MFS_1  86 wlllvlrvlqGlgagalfpagaaliadwfpkeergraigllsagfslGailgpllggllasslg...Wravfyilaivsllafvlf 168
                              w +l+ r    lg g+ +++  a++++ +++e +g ++g+  +   +Ga +gp+l+ + + ++    +r +f  + i ++++  +f
  PHY93_03880|PHY93_03880 131 W-VLFTRSADRLGKGVRTASRDAMLSAEATPETKGAVFGFHRSLDTFGAFVGPILALVYL-HFHpgeYRRLFTYALIPAIFV--VF 212
                              8.******************************************************9777.333358999999999999999..67 PP

                    MFS_1 169 llllpeepperkrkspkeeekgtgpaplvpawkallkdpvlwillialllfffgfsg.l 226
                               l ++ e++ +++++   +    ++++l+  wk   +d     ++  +llf++++s+ +
  PHY93_03880|PHY93_03880 213 SLMFVKEKKVERKVENGNL----FWSSLTY-WKTASSDYKR--IISLILLFTLVNSSdM 264
                              7888888888888888888....9999999.****999966..6666666655555533 PP

  == domain 2  score: 59.7 bits;  conditional E-value: 5.2e-20
                    MFS_1  23 laedlgispseigllltlyalgaavaslplGrlsdrfGrrrvlllglllfalglllllfasslw.lllvlrvlqGlgagalfpaga 107
                               a++ g+s  +   l+ +y + +a +s+ +G +sd +G ++v+l+gl++f+++ + ++f ++   ++++l ++ Gl+a++   +  
  PHY93_03880|PHY93_03880 269 KARASGLSDVQTISLYIFYNFIYAGSSYQMGKISDTIGKKKVFLMGLVFFVITYAGMAF-NTRMdVFYFLFFFYGLFAASTEGITK 353
                              355567777777888999***********************************444447.666669******************** PP

                    MFS_1 108 aliadwfpkeergraigllsagfslGailgpllggllasslgWravfyilaivsllafvlfllllpe 174
                              a+++ +  k + + a+g+ s++ sl+++l+  ++gl+  s+g ++vf+++ +v+++ ++   ll++e
  PHY93_03880|PHY93_03880 354 AWVSNLCEKVDMATALGFQSTTQSLASMLASFIAGLIWYSFGSQYVFILASLVTFIIAI---LLFRE 417
                              *********************************************************99...66655 PP

>> Sugar_tr  Sugar (and other) transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.6   3.4   4.7e-09   2.1e-05      46     193 ..      75     219 ..      36     222 .. 0.87
   2 !   17.8   3.8   2.7e-07    0.0012      30     123 ..     263     352 ..     232     370 .. 0.74
   3 !    3.8   6.3    0.0046        21      47      93 ..     368     414 ..     336     418 .. 0.72

  Alignments for each domain:
  == domain 1  score: 23.6 bits;  conditional E-value: 4.7e-09
                              .HHHHHHHTHHHHHHHHHHHHHHHHHHTTHHHHHHH.HHHHHHHHHHHHH-TTTTSS-TGGGGGHHHHHHHHHHHHHHHHHHHHTT CS
                 Sugar_tr  46 vlsglivsiflvGaiiGslfagllgdrfGRkkslli.aavlfvigavlqaaakgknsvevlivgRvlvGigvGlasvlvPmyisEi 130
                              +++g++ +++ ++a i+  ++g+l+d+ GR+  ++  + vl++ + + +++    n v+vl+  R    +g G+ ++     +s  
  PHY93_03880|PHY93_03880  75 LYIGMLEGVADAIAGISKSYFGKLSDVSGRRMPFVWfGYVLSSFSKAAIGLFV--NPVWVLF-TRSADRLGKGVRTASRDAMLSAE 157
                              56777777888888899999***********9988646677777777776666..5688776.699999*****999998888888 PP

                              S-SCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTSS-TTHHHHHHHCCHHHHHHHHHHGGGS-- CS
                 Sugar_tr 131 ApkklRgalvslyqlaitfGilvaaifglglnktsnadgwrillglqlvpallllilllflPE 193
                              A+++  ga+ +++ +  tfG +v+ i+ l++ +++   ++r+l+  +l+pa+++++ l+f+ E
  PHY93_03880|PHY93_03880 158 ATPETKGAVFGFHRSLDTFGAFVGPILALVYLHFHP-GEYRRLFTYALIPAIFVVFSLMFVKE 219
                              999999******************************.9**********************987 PP

  == domain 2  score: 17.8 bits;  conditional E-value: 2.7e-07
                              HTSTT--SHHHHHH...HHHHHHHTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHH-TTTTSS-TGGGGGHHHHHHH CS
                 Sugar_tr  30 knfglsksksskeessvlsglivsiflvGaiiGslfagllgdrfGRkkslliaavlfvigavlqaaakgknsvevlivgRvlvGig 115
                               +f l k+++s   s+v++  +  +++++ + +s+ +g+++d++G+kk++l++ v+fvi  + +a+ +    + v+++  ++ G++
  PHY93_03880|PHY93_03880 263 DMFLLLKARASGL-SDVQTISLYIFYNFIYAGSSYQMGKISDTIGKKKVFLMGLVFFVITYAGMAFNT---RMDVFYFLFFFYGLF 344
                              3333444443332.899999999999*****************************************9...455555555556665 PP

                              HHHHHHHH CS
                 Sugar_tr 116 vGlasvlv 123
                              +  + +++
  PHY93_03880|PHY93_03880 345 AASTEGIT 352
                              55555555 PP

  == domain 3  score: 3.8 bits;  conditional E-value: 0.0046
                              HHHHHHHTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHH CS
                 Sugar_tr  47 lsglivsiflvGaiiGslfagllgdrfGRkkslliaavlfvigavlq 93 
                               +g+     ++ +++ s++agl+   fG +++++ a+++++i a+l 
  PHY93_03880|PHY93_03880 368 ALGFQSTTQSLASMLASFIAGLIWYSFGSQYVFILASLVTFIIAILL 414
                              45555666688999999999999999999999999888888877765 PP

>> MFS_1_like  MFS_1 like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.2   0.4   3.8e-10   1.7e-06      11      84 ..      50     125 ..      42     174 .. 0.87
   2 !   10.5  18.1   4.3e-05      0.19     161     384 ..     176     401 ..     171     402 .. 0.81

  Alignments for each domain:
  == domain 1  score: 27.2 bits;  conditional E-value: 3.8e-10
               MFS_1_like  11 ffaalgs..llPYltiylkskglkaseigiitlilpltsilsppiwgvlaDrfgkrkkvvilslllsavlflsllf 84 
                              ff+ ++s  l+P + +ylks+g+ a  ig++  ++ +++ +s+  +g l+D +g+r++ v ++ +ls  + +++ +
  PHY93_03880|PHY93_03880  50 FFGDISSelLYPIMPLYLKSIGMGALYIGMLEGVADAIAGISKSYFGKLSDVSGRRMPFVWFGYVLSSFSKAAIGL 125
                              6788886669********************************************************9988776644 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 4.3e-05
               MFS_1_like 161 fafitGilidhysvnllp..ysallyvlaallvisllvvlilnetekesklkvtksl...qvllnilknpeviifllvalilgmsw 241
                              f +++G ++  ++ ++ p  y+ l+  +++  + ++++++ ++e++ e+k++  +        +++ +       ++ +++l +++
  PHY93_03880|PHY93_03880 176 FGAFVGPILALVYLHFHPgeYRRLFTYALIPAIFVVFSLMFVKEKKVERKVENGNLFwssLTYWKTASSDY--KRIISLILLFTLV 259
                              7789999*******999999877776665555555555555666666666665544421144444444333..3345555666788 PP

               MFS_1_like 242 giienFlflYLkelgasntllGslvalgvvaeiplfffaeklleklGhvklliiallayilrfllyaiienawlvlpievLhgisf 327
                              +  + Fl l     g s     sl ++  +      + + k+ +++G  k+ +++l+++++++ ++a+ + + +  ++ +++g+  
  PHY93_03880|PHY93_03880 260 NSSDMFLLLKARASGLSDVQTISLYIFYNFIYAGSSYQMGKISDTIGKKKVFLMGLVFFVITYAGMAFNTRMDVFYFLFFFYGLFA 345
                              99999999999999*99999999999999999999999*******************************9999999999******* PP

               MFS_1_like 328 gllwaaaveyvskiapksleatgqgllsglyfglGralGsliGGllwdlksaiflFr 384
                              + + ++   +vs++  k   at  g+ s+ + +l + l s+i+Gl+w  ++++++F 
  PHY93_03880|PHY93_03880 346 ASTEGITKAWVSNLCEKVDMATALGFQST-TQSLASMLASFIAGLIWYSFGSQYVFI 401
                              *************************7665.59***************99***99996 PP

>> MFS_3  Transmembrane secretion effector
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0      0.36   1.6e+03     473     494 ..     123     144 ..     118     162 .. 0.80
   2 ?   -2.0   0.1       0.2   8.8e+02     172     241 ..     200     267 ..     179     275 .. 0.73
   3 !   17.0   2.0   3.5e-07    0.0015      65     190 ..     298     418 ..     289     419 .] 0.85

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 0.36
                    MFS_3 473 vEtflvetWleylRlnkRltka 494
                              + +f+ + W+ + R  +Rl k+
  PHY93_03880|PHY93_03880 123 IGLFVNPVWVLFTRSADRLGKG 144
                              56899999*******9999876 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.2
                    MFS_3 172 favnalsylalivallrwkrevrksslprEkllealraglRftaasreikavlvRaalFglsasavlaLL 241
                              f+ + +  +++++ l+ +k ++ ++++ + +l+ +      +  as++ k ++    lF l  s+ + LL
  PHY93_03880|PHY93_03880 200 FTYALIPAIFVVFSLMFVKEKKVERKVENGNLFWSSLT--YWKTASSDYKRIISLILLFTLVNSSDMFLL 267
                              56666778899999999999999999999988765333..234567777777777788888777766665 PP

  == domain 3  score: 17.0 bits;  conditional E-value: 3.5e-07
                    MFS_3  65 aGalaDnfdrRkvllavqlllalvsvlltvlaalgllspwlllaltlligiGaalndPaWqAsvgelvkrrdvpaAvaLnsvgini 150
                               G ++D++ ++kv+l++ ++ +++ + ++  + ++   ++    l ++ g+ aa ++   +A v++l ++ d+ +A   +s    +
  PHY93_03880|PHY93_03880 298 MGKISDTIGKKKVFLMGLVFFVITYAGMAFNTRMD---VFYF--LFFFYGLFAASTEGITKAWVSNLCEKVDMATALGFQSTTQSL 378
                              699**************999887665555555444...4443..4567788899999999999*********************** PP

                    MFS_3 151 aRsvGPAlgGvlvaavGaalafavnalsylalivallrwk 190
                              a      ++G++  ++G+ ++f +++l  +++ + l r k
  PHY93_03880|PHY93_03880 379 ASMLASFIAGLIWYSFGSQYVFILASLVTFIIAILLFREK 418
                              *************************999988887777766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (419 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       926  (0.0516482); expected 358.6 (0.02)
Passed bias filter:                      374  (0.0208601); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.61u 0.28s 00:00:00.89 Elapsed: 00:00:00.43
# Mc/sec: 2913.21
//
Query:       PHY93_03885|PHY93_03885  [L=296]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.3e-11   41.4   0.0    1.9e-10   40.4   0.0    1.4  1  Methyltrans_SAM  S-adenosylmethionine-dependent methyltransfe
    0.00076   19.2   0.0      0.001   18.8   0.0    1.3  1  Cons_hypoth95    Conserved hypothetical protein 95
  ------ inclusion threshold ------
      0.039   13.5   0.0      0.057   13.0   0.0    1.2  1  Methyltransf_15  RNA cap guanine-N2 methyltransferase


Domain annotation for each model (and alignments):
>> Methyltrans_SAM  S-adenosylmethionine-dependent methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.4   0.0   3.2e-14   1.9e-10     125     212 ..     129     216 ..      75     233 .. 0.76

  Alignments for each domain:
  == domain 1  score: 40.4 bits;  conditional E-value: 3.2e-14
          Methyltrans_SAM 125 knvlnlfaytcgfsvaaiaggaskvvnvdmargslnkgrdnhrlnghdlrrvsflgydifkswgk..ikksgpydlviidppsfqk 208
                               + lnlf yt   s+a ++ ga+ v  vd +rg l+ g++n  +   d ++++f+  d+ k++ k  ++k+ +yd ++ dpps+ +
  PHY93_03885|PHY93_03885 129 LKFLNLFGYTGCASLAVLSAGAE-VFHVDSSRGVLSWGKENVDISLLDAKNIKFVQEDV-KAFVKhsLRKGFKYDGILADPPSWGH 212
                              4689****************995.99*****************************9998.55554349****************99 PP

          Methyltrans_SAM 209 gsfa 212
                              g+  
  PHY93_03885|PHY93_03885 213 GANK 216
                              9765 PP

>> Cons_hypoth95  Conserved hypothetical protein 95
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.0   1.7e-07     0.001      40     122 ..     126     208 ..     107     260 .. 0.84

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 1.7e-07
                              HCC-EEEETT-TTSHHHHHHHHTT-SEEEEEES-HHHHHHHHHHHCCCT--T.TTEEEEES-HHHHCTS--SS-EEEEEEE--S CS
            Cons_hypoth95  40 iegarvLDlfaGsGalglEAlSRgakkavlvekdkeavkilkenleelklee.etaelkedaleallklakkkeefdivflDPP 122
                              ++  ++L+lf+ +G  +l  lS ga ++  v++++ +++  ken++   l++ +++ ++ed +  +++  +k+ ++d +  DPP
  PHY93_03885|PHY93_03885 126 GRPLKFLNLFGYTGCASLAVLSAGA-EVFHVDSSRGVLSWGKENVDISLLDAkNIKFVQEDVKAFVKHSLRKGFKYDGILADPP 208
                              67789*******************6.6889**************986655553577777777777788889999********** PP

>> Methyltransf_15  RNA cap guanine-N2 methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   9.6e-06     0.057       5      95 ..     132     222 ..     129     262 .. 0.80

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 9.6e-06
          Methyltransf_15   5 lDlfsGaGGnviqfalvfekviaieinleklacaqhNaevYgv.sdkitlvlgdvfellaklklekikvdlvflSpPwGGpsYkkq 89 
                              l lf+ +G  + +    + +v+ +++++  l   ++N  +    +++i++v+ dv+  +++   +  k+d +++ pP  G +  ++
  PHY93_03885|PHY93_03885 132 LNLFGYTGCASLAVLSAGAEVFHVDSSRGVLSWGKENVDISLLdAKNIKFVQEDVKAFVKHSLRKGFKYDGILADPPSWGHGA-NK 216
                              7889999999999999999********************99776789******************************777664.34 PP

          Methyltransf_15  90 ekfdlk 95 
                              e++++ 
  PHY93_03885|PHY93_03885 217 EVWEFD 222
                              455542 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (296 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       432  (0.024095); expected 358.6 (0.02)
Passed bias filter:                      392  (0.021864); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.53u 0.22s 00:00:00.75 Elapsed: 00:00:00.43
# Mc/sec: 2072.28
//
Query:       PHY93_03895|PHY93_03895  [L=64]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
       0.06   13.9   0.1      0.064   13.8   0.1    1.1  1  RPA_interact_M  Replication protein A interacting middle


Domain annotation for each model (and alignments):
>> RPA_interact_M  Replication protein A interacting middle
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.1   3.6e-06     0.064      26      60 ..      13      59 ..       2      64 .] 0.76

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 3.6e-06
           RPA_interact_M 26 d.dDm...........seseelllemerllyedirqElireeldiie 60
                             +  D+           + see++ ++ r++ + +  E +++++di +
  PHY93_03895|PHY93_03895 13 KsTDIkmeligvpatpQKSEEIKYYLTRIMVNGMFTEKEKKDMDIKD 59
                             1245555669999999***************************7744 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (64 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       741  (0.0413297); expected 358.6 (0.02)
Passed bias filter:                      381  (0.0212505); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.39
# Mc/sec: 489.94
//
Query:       PHY93_17255|PHY93_17255  [L=162]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.8e-08   34.6   0.5    2.1e-08   34.3   0.5    1.1  1  MqsA_antitoxin  Antitoxin component of bacterial toxin-antito
     0.0005   20.4   0.0    0.00084   19.6   0.0    1.3  1  HTH_31          Helix-turn-helix domain
      0.001   19.1   0.0     0.0017   18.4   0.0    1.4  1  HTH_3           Helix-turn-helix
     0.0014   18.6   0.0     0.0023   17.9   0.0    1.4  1  HTH_19          Helix-turn-helix domain
  ------ inclusion threshold ------
      0.077   12.9   2.9       0.25   11.2   0.5    2.2  2  zf-HIT          HIT zinc finger
       0.17   11.6   0.0       0.22   11.3   0.0    1.1  1  DUF4018         Domain of unknown function (DUF4018)
       0.66    9.9   2.7        2.2    8.2   0.2    2.3  2  TFIIS_C         Transcription factor S-II (TFIIS)
        5.4    6.8   9.9        1.1    9.1   0.6    2.7  3  A2L_zn_ribbon   A2L zinc ribbon domain
        5.7    7.3   6.4         21    5.4   6.4    1.9  1  DUF2197         Uncharacterized protein conserved in bacteria


Domain annotation for each model (and alignments):
>> MqsA_antitoxin  Antitoxin component of bacterial toxin-antitoxin system, MqsA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.3   0.5   1.1e-11   2.1e-08       2     120 ..       2     122 ..       1     134 [. 0.85

  Alignments for each domain:
  == domain 1  score: 34.3 bits;  conditional E-value: 1.1e-11
           MqsA_antitoxin   2 kCpvCgkaelvrdtrdvpytykg...ektvikavtgdfCarCGegvldeeeedrlseell.efrkkvnaelvdpafiarvrkklel 83 
                              kC++C + +++++    ++ yk    e+++++ +t+  C++CGe +l+  + ++l + ++ ++ +  +a++ ++++i+ +rk+l+ 
  PHY93_17255|PHY93_17255   2 KCSMCDNDKILKKETIATHRYKEcglENVILHGITSYKCKKCGEHYLSFGDIEQLHNMIAtALTR--KASVLKGKEIRFLRKHLGY 85 
                              9********************9434588999******************9999988765514444..678889************* PP

           MqsA_antitoxin  84 dqreaaeifGgGvnafsryekGkvrpplalvkllkll 120
                              + +  a++ G   + +sr e+ k   +    +l+++l
  PHY93_17255|PHY93_17255  86 SAAVFAKLVGYENEHLSRIENDKNAVQEVFDRLVRML 122
                              ***********************99888877777765 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   0.0   4.2e-07   0.00084       3      53 ..      73     121 ..      73     127 .. 0.87

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 4.2e-07
                   HTH_31   3 GalLralReraGLsqeevAerlgvsestlsrlEqGrrgrpspavlealara 53 
                              G + r lR+  G s +  A+++g+   +lsr+E+ ++  +  +v ++l+r 
  PHY93_17255|PHY93_17255  73 GKEIRFLRKHLGYSAAVFAKLVGYENEHLSRIENDKNA-V-QEVFDRLVRM 121
                              667889*****************************994.7.6777777776 PP

>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0   8.4e-07    0.0017       1      35 [.      76     110 ..      76     122 .. 0.90

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 8.4e-07
                              HHHHHHHTTHHHHHHHHHHTSSHHHHHHHHTTSSC CS
                    HTH_3   1 lkelRkqlglsqeeLAeklGvsrstisriEnGern 35 
                              ++ lRk lg+s + +A+++G    ++sriEn++ +
  PHY93_17255|PHY93_17255  76 IRFLRKHLGYSAAVFAKLVGYENEHLSRIENDKNA 110
                              6789***************************9764 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.0   1.2e-06    0.0023       1      37 [.      73     109 ..      73     123 .. 0.88

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 1.2e-06
                   HTH_19   1 GerLkeaReelgltqeelaerlgisrskisaiEngkk 37 
                              G+ ++ +R++lg++ +  a+ +g     +s iEn+k+
  PHY93_17255|PHY93_17255  73 GKEIRFLRKHLGYSAAVFAKLVGYENEHLSRIENDKN 109
                              6779******************************964 PP

>> zf-HIT  HIT zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.1      0.15     3e+02       4      10 ..       2       8 ..       1      12 [. 0.78
   2 ?   11.2   0.5   0.00013      0.25      13      23 ..      37      47 ..      34      49 .. 0.93

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.15
                             B-TTT-S CS
                   zf-HIT  4 lCgvCgf 10
                             +C++C +
  PHY93_17255|PHY93_17255  2 KCSMCDN 8 
                             6999987 PP

  == domain 2  score: 11.2 bits;  conditional E-value: 0.00013
                             SEE-TTT--EE CS
                   zf-HIT 13 kYkCpkCntry 23
                              YkC kC+++y
  PHY93_17255|PHY93_17255 37 SYKCKKCGEHY 47
                             6********99 PP

>> DUF4018  Domain of unknown function (DUF4018)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00011      0.22     108     177 ..      68     139 ..      53     146 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00011
                  DUF4018 108 vsflivlllPyirlilsyilyvvalGfGyalepllki.aelkdaeevveklGy.gekpkledakkdydpvvi 177
                              +s+l  + + ++r  l+y   v a  +Gy  e l +i  +++  +ev+++l   +   kl+d k d + + +
  PHY93_17255|PHY93_17255  68 ASVLKGKEIRFLRKHLGYSAAVFAKLVGYENEHLSRIeNDKNAVQEVFDRLVRmLVMEKLPDRKYDLQDLFL 139
                              5677777899***************************4455666899999875167899***9998877765 PP

>> TFIIS_C  Transcription factor S-II (TFIIS)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.5   0.2      0.14   2.8e+02       2      11 ..       2      11 ..       1      14 [. 0.78
   2 ?    8.2   0.2    0.0011       2.2      27      38 ..      36      47 ..      34      48 .. 0.84

  Alignments for each domain:
  == domain 1  score: 1.5 bits;  conditional E-value: 0.14
                  TFIIS_C  2 kCpkCgsrea 11
                             kC  C+++++
  PHY93_17255|PHY93_17255  2 KCSMCDNDKI 11
                             7889988875 PP

  == domain 2  score: 8.2 bits;  conditional E-value: 0.0011
                  TFIIS_C 27 vfykCtkCghrW 38
                             + ykC+kCg+++
  PHY93_17255|PHY93_17255 36 TSYKCKKCGEHY 47
                             679*****9986 PP

>> A2L_zn_ribbon  A2L zinc ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   0.6   0.00055       1.1       5      18 ..       2      14 ..       1      17 [. 0.85
   2 ?   -2.1   0.0       1.8   3.5e+03      26      30 ..      24      28 ..      23      31 .. 0.62
   3 ?    2.8   1.1     0.049        98       4      10 ..      38      44 ..      36      47 .. 0.79

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.00055
            A2L_zn_ribbon  5 vCsvCggngilnse 18
                             +Cs C++++il ++
  PHY93_17255|PHY93_17255  2 KCSMCDNDKIL-KK 14
                             8*********9.54 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 1.8
            A2L_zn_ribbon 26 eCgas 30
                             eCg++
  PHY93_17255|PHY93_17255 24 ECGLE 28
                             78765 PP

  == domain 3  score: 2.8 bits;  conditional E-value: 0.049
            A2L_zn_ribbon  4 kvCsvCg 10
                             ++C++Cg
  PHY93_17255|PHY93_17255 38 YKCKKCG 44
                             6888887 PP

>> DUF2197  Uncharacterized protein conserved in bacteria (DUF2197)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.4   6.4     0.011        21       3      38 ..       1      44 [.       1      47 [. 0.68

  Alignments for each domain:
  == domain 1  score: 5.4 bits;  conditional E-value: 0.011
                  DUF2197  3 vkCvlCdkveeiddesllaKr.....LrN...rpihtYmCkeCe 38
                             vkC++Cd+ + + +e++ + r     L N   + i  Y Ck+C 
  PHY93_17255|PHY93_17255  1 VKCSMCDNDKILKKETIATHRykecgLENvilHGITSYKCKKCG 44
                             9******9999999999998833333445333345567777775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (162 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       980  (0.05466); expected 358.6 (0.02)
Passed bias filter:                      727  (0.0405488); expected 358.6 (0.02)
Passed Vit filter:                        84  (0.00468515); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 1195.56
//
Query:       PHY93_03900|PHY93_03900  [L=133]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.23   12.0   0.8       0.51   10.9   0.8    1.6  1  LPAM_1    Prokaryotic membrane lipoprotein lipid attachment s


Domain annotation for each model (and alignments):
>> LPAM_1  Prokaryotic membrane lipoprotein lipid attachment site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.8   2.8e-05      0.51       1      16 [.       1      16 [.       1      16 [. 0.97

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 2.8e-05
                   LPAM_1  1 MKKillalgalllLsG 16
                             MK  +l+l+++l Ls+
  PHY93_03900|PHY93_03900  1 MKQAILFLSLVLGLSA 16
                             **************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (133 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       216  (0.0120475); expected 358.6 (0.02)
Passed bias filter:                      168  (0.00937029); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 1022.56
//
Query:       PHY93_03905|PHY93_03905  [L=238]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.3e-08   33.1   0.0    8.2e-08   32.2   0.0    1.5  1  HTH_3           Helix-turn-helix
    6.2e-06   25.8   0.0     0.0011   18.7   0.0    2.7  3  HTH_23          Homeodomain-like domain
    8.5e-06   26.1   0.3    4.1e-05   23.9   0.1    2.2  2  HTH_26          Cro/C1-type HTH DNA-binding domain
    6.5e-05   23.2   0.0    0.00013   22.2   0.0    1.4  1  HTH_31          Helix-turn-helix domain
    0.00046   20.1   0.1     0.0011   18.8   0.1    1.7  1  HTH_37          Helix-turn-helix domain
      0.001   18.6   0.0       0.09   12.3   0.0    2.4  2  GerE            Bacterial regulatory proteins, luxR family
     0.0018   18.4   0.0       0.12   12.5   0.0    2.3  2  HTH_28          Helix-turn-helix domain
      0.002   18.0   0.0       0.09   12.8   0.0    2.4  2  HTH_36          Helix-turn-helix domain
     0.0024   18.3   0.3        1.1    9.7   0.0    3.3  3  HTH_40          Helix-turn-helix domain
     0.0037   16.9   0.0      0.038   13.7   0.0    2.3  2  Sigma70_r4_2    Sigma-70, region 4
     0.0039   17.2   0.0        2.5    8.2   0.0    2.3  2  HTH_29          Winged helix-turn helix
  ------ inclusion threshold ------
       0.03   13.7   0.0       0.36   10.3   0.0    2.2  2  HTH_Tnp_ISL3    Helix-turn-helix domain of transposase family
      0.041   13.8   0.0       0.52   10.3   0.0    2.3  2  HTH_11          HTH domain
      0.069   13.1   0.0         17    5.5   0.0    2.5  2  HTH_Crp_2       Crp-like helix-turn-helix domain
      0.078   12.9   0.0       0.16   11.8   0.0    1.5  1  Sigma70_ECF     ECF sigma factor
       0.11   12.6   0.0       0.79    9.8   0.0    2.3  2  HTH_20          Helix-turn-helix domain
       0.14   12.0   0.0       0.29   11.0   0.0    1.5  1  YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitox


Domain annotation for each model (and alignments):
>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.2   0.0   7.8e-11   8.2e-08       1      54 [.       9      61 ..       9      62 .. 0.95

  Alignments for each domain:
  == domain 1  score: 32.2 bits;  conditional E-value: 7.8e-11
                             HHHHHHHTTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHHH CS
                    HTH_3  1 lkelRkqlglsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvslde 54
                             +k  +k +g++qee+A+ + vs+ ti r+ +Ge     + l+++++ Lg+ l+e
  PHY93_03905|PHY93_03905  9 IKNVLKLQGITQEEFAQQMKVSVPTIKRWLKGEG-VLFTDLIRMLDCLGLRLSE 61
                             79999***************************99.*************999987 PP

>> HTH_23  Homeodomain-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   0.0   1.1e-06    0.0011      14      39 ..      14      39 ..       9      43 .. 0.88
   2 ?   -2.4   0.0       4.3   4.5e+03      11      24 ..      49      63 ..      48      63 .. 0.85
   3 ?    4.2   0.0     0.037        39      14      33 ..      97     116 ..      90     129 .. 0.80

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 1.1e-06
                   HTH_23 14 laeGlsvreIAreLgvsrrTvyrwlk 39
                              ++G++++e A+++ vs  T+ rwlk
  PHY93_03905|PHY93_03905 14 KLQGITQEEFAQQMKVSVPTIKRWLK 39
                             457**********************9 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 4.3
                   HTH_23 11 llllae.GlsvreIA 24
                             +++l+  Gl+ +e+A
  PHY93_03905|PHY93_03905 49 IRMLDClGLRLSEVA 63
                             889998899999998 PP

  == domain 3  score: 4.2 bits;  conditional E-value: 0.037
                   HTH_23  14 laeGlsvreIAreLgvsrrT 33 
                              l++G s+++IAr +  ++  
  PHY93_03905|PHY93_03905  97 LLKGRSPSQIARTYSLTEKS 116
                              4459********99887765 PP

>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.9   0.1   3.9e-08   4.1e-05       2      56 ..       9      61 ..       8      64 .. 0.95
   2 ?   -1.7   0.0       3.8     4e+03      11      37 ..     179     205 ..     176     209 .. 0.77

  Alignments for each domain:
  == domain 1  score: 23.9 bits;  conditional E-value: 3.9e-08
                   HTH_26  2 LrelmadrgitkseLargtgisaatlsrlvkgkpervsldtLdkiCdaLgctpgD 56
                             ++++++  git+ e+a++  +s +t++r++kg+   v +++L +  d Lg ++++
  PHY93_03905|PHY93_03905  9 IKNVLKLQGITQEEFAQQMKVSVPTIKRWLKGE--GVLFTDLIRMLDCLGLRLSE 61
                             7899****************************9..***************99987 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 3.8
                   HTH_26  11 itkseLargtgisaatlsrlvkgkper 37 
                              i +++L++ + +  +++   v++k++ 
  PHY93_03905|PHY93_03905 179 IGIYSLSKESQLKVNSMLIEVTEKVRG 205
                              557899999999999998777777655 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.2   0.0   1.2e-07   0.00013      13      62 ..      16      63 ..      13      65 .. 0.93

  Alignments for each domain:
  == domain 1  score: 22.2 bits;  conditional E-value: 1.2e-07
                   HTH_31 13 aGLsqeevAerlgvsestlsrlEqGrrgrpspavlealaralgldpaera 62
                             +G++qee A++  vs+ t+ r+  G+  +    +l ++++ lgl  +e+a
  PHY93_03905|PHY93_03905 16 QGITQEEFAQQMKVSVPTIKRWLKGEG-VL-FTDLIRMLDCLGLRLSEVA 63
                             699************************.46.8************999986 PP

>> HTH_37  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.1   1.1e-06    0.0011      21      75 ..       7      59 ..       3      64 .. 0.91

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 1.1e-06
                             HHHHHHHHHCT--HHHHHHHHT--HHHHHHHHTT--TT--HHHHHHHHHHTTEEE CS
                   HTH_37 21 laiaeliekrelsqseaaqllgiaqPkvsrllrgklsrfsldkLlnlltalGqkv 75
                             ++i+ +++ ++++q+e aq ++++ P + r l  k + +  + L+++l+ lG+++
  PHY93_03905|PHY93_03905  7 KQIKNVLKLQGITQEEFAQQMKVSVPTIKRWL--KGEGVLFTDLIRMLDCLGLRL 59
                             6899****************************..678888889*****9999987 PP

>> GerE  Bacterial regulatory proteins, luxR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   0.0     0.041        43      15      35 ..      15      35 ..      10      39 .. 0.90
   2 !   12.3   0.0   8.5e-05      0.09      13      41 ..      96     124 ..      92     126 .. 0.91

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.041
                             CTTS-HHHHHHHHTS-HHHHH CS
                     GerE 15 aeGksnkeIAeelniSekTVk 35
                              +G + +e A+++ +S  T+k
  PHY93_03905|PHY93_03905 15 LQGITQEEFAQQMKVSVPTIK 35
                             5899*************9998 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 8.5e-05
                              HHCTTS-HHHHHHHHTS-HHHHHHHHHHH CS
                     GerE  13 llaeGksnkeIAeelniSekTVkvhksni 41 
                               l +G s  +IA+ +++ ek+V +++s++
  PHY93_03905|PHY93_03905  96 QLLKGRSPSQIARTYSLTEKSVVFYLSHL 124
                              5789**********************987 PP

>> HTH_28  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.5   0.0   0.00011      0.12      10      34 ..      15      39 ..      11      41 .. 0.91
   2 ?    3.4   0.0     0.082        87       8      40 ..      96     128 ..      92     139 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 0.00011
                   HTH_28 10 aaGhsvreaArelgisrrtvyrWik 34
                             ++G ++ e A+++ +s  t++rW+k
  PHY93_03905|PHY93_03905 15 LQGITQEEFAQQMKVSVPTIKRWLK 39
                             6888*******************98 PP

  == domain 2  score: 3.4 bits;  conditional E-value: 0.082
                   HTH_28   8 llaaGhsvreaArelgisrrtvyrWikryeegG 40 
                              +l++G+s +++Ar + +++ +v   ++ +++ G
  PHY93_03905|PHY93_03905  96 QLLKGRSPSQIARTYSLTEKSVVFYLSHLDKSG 128
                              689**********99999999887777777666 PP

>> HTH_36  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.8   0.0   8.5e-05      0.09      27      47 ..      19      39 ..      14      40 .. 0.94
   2 ?    2.7   0.0      0.12   1.2e+02      29      55 .]     104     130 ..      99     130 .. 0.93

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 8.5e-05
                   HTH_36 27 sqetlakrlglsknTvsraik 47
                             +qe +a+++++s+ T+ r++k
  PHY93_03905|PHY93_03905 19 TQEEFAQQMKVSVPTIKRWLK 39
                             699*****************8 PP

  == domain 2  score: 2.7 bits;  conditional E-value: 0.12
                   HTH_36  29 etlakrlglsknTvsraikeLeqlGyi 55 
                              + +a+ + l +++v+ ++  L + G+i
  PHY93_03905|PHY93_03905 104 SQIARTYSLTEKSVVFYLSHLDKSGLI 130
                              5799******************99998 PP

>> HTH_40  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.0      0.23   2.5e+02      10      32 ..      15      37 ..       7      39 .. 0.86
   2 !    9.7   0.0    0.0011       1.1       8      45 ..      96     132 ..      92     145 .. 0.86
   3 ?    2.4   0.1      0.21   2.3e+02      26      60 ..     160     195 ..     155     222 .. 0.69

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.23
                   HTH_40 10 eeglsieeIAkerglkesTIegH 32
                              +g + ee A++ ++++ TI + 
  PHY93_03905|PHY93_03905 15 LQGITQEEFAQQMKVSVPTIKRW 37
                             6999***************9765 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.0011
                   HTH_40   8 lleeglsieeIAkerglkesTIegHLaelieegeeidl 45 
                               l +g s+ +IA+  +l+e+ ++ +L +l ++g  i++
  PHY93_03905|PHY93_03905  96 QLLKGRSPSQIARTYSLTEKSVVFYLSHLDKSGL-IEW 132
                              5789************************999986.665 PP

  == domain 3  score: 2.4 bits;  conditional E-value: 0.21
                   HTH_40  26 esTIegHLaelieegeeidlerl.vseeeekeIeea 60 
                              ++ I gH+a+++ + + +++  + +s+e + ++ + 
  PHY93_03905|PHY93_03905 160 RQIIDGHIANYVDDRDHLKIGIYsLSKESQLKVNSM 195
                              677999********8878774442355555555444 PP

>> Sigma70_r4_2  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.7   0.0   3.6e-05     0.038      23      47 ..      14      38 ..      12      39 .. 0.92
   2 ?    0.3   0.0      0.52   5.5e+02      24      44 ..      98     118 ..      97     123 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 3.6e-05
                             HTS---HHHHHHHHT--HHHHHHHH CS
             Sigma70_r4_2 23 yleglsykEIAellgisegtVksrl 47
                              l+g +++E A+++++s+ t+k++l
  PHY93_03905|PHY93_03905 14 KLQGITQEEFAQQMKVSVPTIKRWL 38
                             589********************98 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.52
                              TS---HHHHHHHHT--HHHHH CS
             Sigma70_r4_2  24 leglsykEIAellgisegtVk 44 
                              l+g s  +IA+   ++e++V 
  PHY93_03905|PHY93_03905  98 LKGRSPSQIARTYSLTEKSVV 118
                              5789999****9999999985 PP

>> HTH_29  Winged helix-turn helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.2   0.0    0.0024       2.5      10      34 ..      16      39 ..      10      40 .. 0.88
   2 !    6.7   0.0    0.0071       7.5       8      40 ..      97     128 ..      95     145 .. 0.80

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.0024
                   HTH_29 10 eGvstvsqiAkllglsrrtvyrwlk 34
                             +G  t  + A+++ +s +t+ rwlk
  PHY93_03905|PHY93_03905 16 QGI-TQEEFAQQMKVSVPTIKRWLK 39
                             455.78899**************98 PP

  == domain 2  score: 6.7 bits;  conditional E-value: 0.0071
                   HTH_29   8 laeGvstvsqiAkllglsrrtvyrwlkrfeegG 40 
                              l +G s +sqiA+ + l++++v  +l   ++ G
  PHY93_03905|PHY93_03905  97 LLKGRS-PSQIARTYSLTEKSVVFYLSHLDKSG 128
                              568998.**************987777777766 PP

>> HTH_Tnp_ISL3  Helix-turn-helix domain of transposase family ISL3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0   0.00034      0.36      27      49 ..      17      39 ..      11      40 .. 0.87
   2 ?    0.8   0.0      0.32   3.4e+02      23      44 ..      96     117 ..      92     123 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00034
             HTH_Tnp_ISL3 27 srsvkavArqlgvSwtTVwrild 49
                             +++  + A+q+ vS  T++r+l+
  PHY93_03905|PHY93_03905 17 GITQEEFAQQMKVSVPTIKRWLK 39
                             5688889**************96 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.32
             HTH_Tnp_ISL3  23 lllesrsvkavArqlgvSwtTV 44 
                              +ll++rs +++Ar + +++++V
  PHY93_03905|PHY93_03905  96 QLLKGRSPSQIARTYSLTEKSV 117
                              45555599******99999988 PP

>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0    0.0005      0.52       8      35 ..      12      37 ..       6      40 .. 0.80
   2 ?    1.1   0.0      0.37   3.9e+02      13      43 ..     101     128 ..      90     147 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.0005
                   HTH_11  8 lLleargpisgeeLAeeLnvSrrtvrrd 35
                              L + +g i+ ee A++++vS  t+ r 
  PHY93_03905|PHY93_03905 12 VL-KLQG-ITQEEFAQQMKVSVPTIKRW 37
                             44.7777.*****************985 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.37
                   HTH_11  13 rgpisgeeLAeeLnvSrrtvrrdIkaLeelg 43 
                              r   s +++A+  +++++ v+ ++  L ++g
  PHY93_03905|PHY93_03905 101 R---SPSQIARTYSLTEKSVVFYLSHLDKSG 128
                              4...56999************9999999998 PP

>> HTH_Crp_2  Crp-like helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.5   0.0     0.016        17      22      43 ..      18      39 ..       4      59 .. 0.84
   2 ?    4.9   0.0     0.024        25      25      54 ..     104     136 ..     101     143 .. 0.81

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.016
                             HHHHHHHHHTTSSHHHHHHHHH CS
                HTH_Crp_2 22 ltqeelAsmlGltretvsrils 43
                             +tqee A+ + ++  t+ r l+
  PHY93_03905|PHY93_03905 18 ITQEEFAQQMKVSVPTIKRWLK 39
                             8****************99875 PP

  == domain 2  score: 4.9 bits;  conditional E-value: 0.024
                              HHHHHHTTSSHHHHHHHHHHHHHTTSEE...ET CS
                HTH_Crp_2  25 eelAsmlGltretvsrilseLkreglis...rg 54 
                               ++A+   lt  +v   ls+L + gli+   ++
  PHY93_03905|PHY93_03905 104 SQIARTYSLTEKSVVFYLSHLDKSGLIEwlpKN 136
                              6899999********************985323 PP

>> Sigma70_ECF  ECF sigma factor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   0.00015      0.16     145     172 ..      11      38 ..       2      40 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00015
              Sigma70_ECF 145 elrkleGlsveEiAeklgvskrtverrl 172
                              ++ kl+G + eE A++++vs  t++r l
  PHY93_03905|PHY93_03905  11 NVLKLQGITQEEFAQQMKVSVPTIKRWL 38 
                              46799********************966 PP

>> HTH_20  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.0       1.4   1.5e+03      17      34 ..      36      52 ..      15      67 .. 0.64
   2 ?    9.8   0.0   0.00075      0.79      14      55 ..      92     131 ..      89     132 .. 0.92

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 1.4
                             HHHSTCTTB-HHHHHHHH CS
                   HTH_20 17 raLaraegltaselaerl 34
                             r+L  +eg+ +++l + l
  PHY93_03905|PHY93_03905 36 RWL-KGEGVLFTDLIRML 52
                             555.55666665555555 PP

  == domain 2  score: 9.8 bits;  conditional E-value: 0.00075
                              HHHHHHSTCTTB-HHHHHHHHTS-HHHHHHHHHHHHHCTTEE CS
                   HTH_20  14 rilraLaraegltaselaerldlskntlsyHLrvLeeagLve 55 
                              ++++ L   +g+++s++a++ +l+ +++ + L  L + gL+e
  PHY93_03905|PHY93_03905  92 AFFDQL--LKGRSPSQIARTYSLTEKSVVFYLSHLDKSGLIE 131
                              677778..89*************************99***98 PP

>> YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   0.00027      0.29      10      32 ..      19      41 ..       9      50 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00027
           YdaS_antitoxin 10 gqkaLAealgvsqqaVsqWlkgk 32
                             +q ++A++  vs +++ +Wlkg+
  PHY93_03905|PHY93_03905 19 TQEEFAQQMKVSVPTIKRWLKGE 41
                             799*****************985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (238 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       656  (0.0365888); expected 358.6 (0.02)
Passed bias filter:                      552  (0.0307881); expected 358.6 (0.02)
Passed Vit filter:                        76  (0.00423894); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              17  [number of targets reported over threshold]
# CPU time: 0.50u 0.24s 00:00:00.74 Elapsed: 00:00:00.42
# Mc/sec: 1721.47
//
Query:       PHY93_03910|PHY93_03910  [L=183]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
  ------ inclusion threshold ------
      0.026   14.8   0.0      0.058   13.7   0.0    1.5  2  AlaDh_PNT_N  Alanine dehydrogenase/PNT, N-terminal domain


Domain annotation for each model (and alignments):
>> AlaDh_PNT_N  Alanine dehydrogenase/PNT, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0      0.45   8.1e+03      79      96 ..      34      51 ..      26      65 .. 0.69
   2 ?   13.7   0.0   3.2e-06     0.058      42      94 ..      98     147 ..      95     155 .. 0.89

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 0.45
                             GGGS-TTCEEEEE--GGC CS
              AlaDh_PNT_N 79 lellkegqtlisflhlaa 96
                             l+ll+ +++lis+ ++  
  PHY93_03910|PHY93_03910 34 LKLLNGNEILISYHSPSD 51
                             567777788888877764 PP

  == domain 2  score: 13.7 bits;  conditional E-value: 3.2e-06
                              C-HHHHHHTTEEEESCHHHHCTTSSEEEESS--.CHCGGGS-TTCEEEEE--G CS
              AlaDh_PNT_N  42 fsdeeYeeaGaeivesaeevlaeadlilkVkepseeelellkegqtlisflhl 94 
                              ++d+ + e G+ i +  ++ ++++++i+ Vke    el  lk++q+ i f+  
  PHY93_03910|PHY93_03910  98 LNDDTFPEIGIAIWNGGTASWEASAIIFSVKEN---ELVFLKKQQINIEFSRS 147
                              5799***********999**************9...8999******9999865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (183 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       593  (0.0330749); expected 358.6 (0.02)
Passed bias filter:                      419  (0.02337); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 1369.17
//
Query:       PHY93_03915|PHY93_03915  [L=227]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.1e-14   52.6   0.0    6.8e-14   51.5   0.0    1.5  1  SLT              Transglycosylase SLT domain
  ------ inclusion threshold ------
      0.027   14.5   0.0      0.038   14.0   0.0    1.3  1  Phage_lysozyme2  Phage tail lysozyme
      0.046   12.7   0.0      0.071   12.1   0.0    1.3  1  DUF4993          Domain of unknown function


Domain annotation for each model (and alignments):
>> SLT  Transglycosylase SLT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.5   0.0   1.1e-17   6.8e-14      12      95 ..     102     204 ..      96     215 .. 0.95

  Alignments for each domain:
  == domain 1  score: 51.5 bits;  conditional E-value: 1.1e-17
                              S-HHHHHHHHHHHHTT-TT-B-...TTSEBTTTTBETTTHHHHHHHHT............-SHHHHCSHHHHHHHHHHHHHHHHHT CS
                      SLT  12 vepsllaaiaqvESgfnpkAvs...ksgavGLmQimpstakrlglrvk............lsedelldPeknisagakyLkslykq 82 
                              ++p l+++i++ ES+fnp  +    +s a GLmQ++++t ++l  + +            l++++l+dP+ ni ag++ L+  y++
  PHY93_03915|PHY93_03915 102 LDPLLIKTIIAIESRFNPAIKTkdpRSTATGLMQVTNRTRQDLSGKSEdskynlhdsfldLEMSDLKDPIVNIAAGIRWLSYKYTK 187
                              7899***************999999999**************99888899999********************************* PP

                              TTT....HHHHHHHHHH CS
                      SLT  83 yng....slllalaAYN 95 
                               ++    +l+ +l +YN
  PHY93_03915|PHY93_03915 188 PKTgnpkNLFNMLRGYN 204
                              *9999***********9 PP

>> Phage_lysozyme2  Phage tail lysozyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   6.4e-06     0.038      27      74 ..     111     154 ..     107     213 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 6.4e-06
          Phage_lysozyme2  27 iqqEsgfnpgavesalskggggyGlvQWtgsrrtallkyakakgknwk 74 
                              i  Es+fnp++    ++  +++ Gl+Q t+ +r++l     +++++++
  PHY93_03915|PHY93_03915 111 IAIESRFNPAIKT--KDPRSTATGLMQVTNRTRQDLSGK--SEDSKYN 154
                              678********99..79*************999877663..3333333 PP

>> DUF4993  Domain of unknown function
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   1.2e-05     0.071      85     117 ..      79     111 ..      73     140 .. 0.91

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 1.2e-05
                  DUF4993  85 snkalneffdrfwkagGyssledvdplilkill 117
                                 a+ +f+  fwk +G ++ +d+dpl++k ++
  PHY93_03915|PHY93_03915  79 ELDAVIQFWLDFWKNEGLKFPKDLDPLLIKTII 111
                              5578999**********************9887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (227 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       350  (0.0195214); expected 358.6 (0.02)
Passed bias filter:                      314  (0.0175135); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.42
# Mc/sec: 1637.57
//
Query:       PHY93_03920|PHY93_03920  [L=378]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.6e-27   95.0   0.0    8.7e-27   93.7   0.0    1.7  1  AAA_14           AAA domain
    3.1e-11   43.5   0.0      4e-10   39.9   0.0    2.3  1  DUF4143          Domain of unknown function (DUF4143)
     0.0003   20.8   0.0      0.036   14.0   0.0    2.4  2  ATPase_2         ATPase domain predominantly from Archaea
     0.0012   18.1   0.2          1    8.5   0.0    3.0  3  NB-ARC           NB-ARC domain
      0.003   17.5   0.0     0.0058   16.6   0.0    1.5  1  HSDR_N           Type I restriction enzyme R protein N termin
     0.0066   16.4   0.0      0.015   15.3   0.0    1.5  1  HSDR_N_2         Type I restriction enzyme R protein N termin
  ------ inclusion threshold ------
      0.012   15.8   0.0        3.4    7.9   0.0    2.6  3  AAA_22           AAA domain
      0.036   13.5   0.0      0.083   12.4   0.0    1.5  1  Sulfotransfer_1  Sulfotransferase domain
       0.08   13.3   0.0       0.24   11.8   0.0    1.7  2  AAA_16           AAA ATPase domain
       0.11   12.8   0.0       0.34   11.1   0.0    1.8  2  Roc              Ras of Complex, Roc, domain of DAPkinase
       0.11   11.3   0.1        4.8    5.9   0.0    2.1  2  AAA_35           AAA-like domain


Domain annotation for each model (and alignments):
>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   93.7   0.0   5.3e-30   8.7e-27       2     130 ..      18     137 ..      17     138 .. 0.90

  Alignments for each domain:
  == domain 1  score: 93.7 bits;  conditional E-value: 5.3e-30
                   AAA_14   2 rkilvitGaRrvGKTtllkqlikellvkkesilyinldderdkkladpekllelileklkeekktylflDEiqevpewekalkslv 87 
                              +k+++i G+R+vGKTtl  q++k++  +++++ y+n+d+ +d++l         ++++l +  + +l++DEi+++++w++ lk+l+
  PHY93_03920|PHY93_03920  18 KKMVFIGGPRQVGKTTLSLQFFKKNA-SEKNVGYLNWDHLPDRSLI--------LKNQL-PLTEPVLIFDEIHKYRNWRSLLKGLY 93 
                              689**********************9.9***********9997533........23332.225579******************** PP

                   AAA_14  88 deg.knldvivtGSnskllskeiatslagrvaeielyplsfaEf 130
                              d++ k++++ivtGS+ ++  ++  +sl gr+ +++l+pls+ E+
  PHY93_03920|PHY93_03920  94 DKYkKDIRFIVTGSARLDHFRKGGDSLLGRYHYYRLHPLSLMEL 137
                              *98789**********************************9996 PP

>> DUF4143  Domain of unknown function (DUF4143)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.9   0.0   2.5e-13     4e-10      18     121 ..     197     328 ..      98     329 .. 0.80

  Alignments for each domain:
  == domain 1  score: 39.9 bits;  conditional E-value: 2.5e-13
                              x.......................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                  DUF4143  18 k.......................................glverlppwsespnskkrlrkspKlyfvDtGLlvallgldkeelle 64 
                                                                      +l +r++p+   + + ++++k  K+yf D                +
  PHY93_03920|PHY93_03920 197 LlvetlpskvgsplslknlagdlqvsqptiarwvtildnlYLTFRISPY--GAPKIRAVKKEQKIYFWDW---------------T 265
                              3555666666666666666666666666666677777777777777777..5555555777777777773...............3 PP

                              xxxxxxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                  DUF4143  65 dsenkGallEnlVaqeLlky......sekegaklyyyrdkngaEvDfvielkggkivpiEvKs 121
                              ++e  G  +EnlVa++Llky      +e  + +l + rd++++EvDfv+ ++++ ++++E+K 
  PHY93_03920|PHY93_03920 266 QNEEVGPRFENLVASHLLKYchyredTEGYKMELRFLRDTDKREVDFVVLQNKKPLFAVECKT 328
                              45679******************9985555899****************889**********7 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.0   0.0   2.2e-05     0.036      13      53 ..      11      50 ..       8      55 .. 0.82
   2 ?    4.3   0.0     0.019        32     118     164 ..      70     106 ..      60     155 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 2.2e-05
                 ATPase_2 13 eilerepneiyfiYGpegsGKtaLlkeiienledkdkyviy 53
                             +i++  +++++fi Gp+++GKt+L  ++ ++  + +k+v y
  PHY93_03920|PHY93_03920 11 NIAQDLEKKMVFIGGPRQVGKTTLSLQFFKKNAS-EKNVGY 50
                             677888899*******************998844.455555 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.019
                 ATPase_2 118 kkiiiiiDelqklidlglngaellvkeLlnliesltkekhlcvvicl 164
                              +++++i+De+ k +     + ++l+k L++ +++     ++++++ +
  PHY93_03920|PHY93_03920  70 TEPVLIFDEIHKYR-----NWRSLLKGLYDKYKK-----DIRFIVTG 106
                              57***********9.....477999999876655.....55555555 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.5   0.0   0.00062         1      15      46 ..      13      43 ..       7      56 .. 0.83
   2 ?    1.5   0.0     0.086   1.4e+02     104     137 ..      71     105 ..      49     109 .. 0.75
   3 ?    4.4   0.0     0.011        18     183     224 ..     194     236 ..     172     249 .. 0.82

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.00062
                             TTTSCSEEEEEEESTTSSHHHHHHHHCCSHCC CS
                   NB-ARC 15 kdelqslvvalvGmgGvGKttlakqilnksde 46
                              ++l++ +v++ G   vGKttl+ q ++k   
  PHY93_03920|PHY93_03920 13 AQDLEKKMVFIGGPRQVGKTTLSLQFFKKN-A 43
                             5788999********************994.3 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.086
                              TEEEEEEEE-SHHHH.....HHHHC.HTTSEEEEE CS
                   NB-ARC 104 rfllvlDDVweeedwdkigvvlpar.enrlrvllT 137
                                +l++D + ++ +w+++   l ++ ++ +r ++T
  PHY93_03920|PHY93_03920  71 EPVLIFDEIHKYRNWRSLLKGLYDKyKKDIRFIVT 105
                              5689***********99887766541555677776 PP

  == domain 3  score: 4.4 bits;  conditional E-value: 0.011
                              CHHHHHHHHHHCTT-HHHHHHHHHHHC-T.CSCCHHHHHHHHH CS
                   NB-ARC 183 leevakeivekckGlPlalkvlggllstk.ktveewkkvlekl 224
                              l e++ e+  +  G+Pl+lk l+g l+    t+ +w  +l++l
  PHY93_03920|PHY93_03920 194 LIELLVETLPSKVGSPLSLKNLAGDLQVSqPTIARWVTILDNL 236
                              6677788888889********9998888779******999988 PP

>> HSDR_N  Type I restriction enzyme R protein N terminus (HSDR_N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   3.5e-06    0.0058     117     143 ..     298     329 ..     227     360 .. 0.80

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 3.5e-06
                              S.....SSS---EEEEEEETTEEEEEEEE--T CS
                   HSDR_N 117 t.....gnqkrrpDivlfvnglplvviElKrp 143
                              +     +++kr +D+v+++n +pl+ +E+K  
  PHY93_03920|PHY93_03920 298 ElrflrDTDKREVDFVVLQNKKPLFAVECKTG 329
                              144446899*********************94 PP

>> HSDR_N_2  Type I restriction enzyme R protein N terminus (HSDR_N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   8.9e-06     0.015      11      64 ..     280     334 ..     276     351 .. 0.77

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 8.9e-06
                 HSDR_N_2  11 kyLveelgypkeliavekelqlg..skkkraDivvykkdkkpllivecKapsvkis 64 
                              + L++ ++y ++     +el++   + k+ +D+vv +++ kpl +vecK+ +  +s
  PHY93_03920|PHY93_03920 280 SHLLKYCHYREDTEGYKMELRFLrdTDKREVDFVVLQNK-KPLFAVECKTGERVLS 334
                              678888888887776667777443477777*******99.*********9876554 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9   0.0    0.0021       3.4       5      33 ..      18      46 ..      14      68 .. 0.81
   2 ?    5.3   0.0     0.013        22      92     134 ..      71     111 ..      53     113 .. 0.76
   3 ?   -2.9   0.0       4.7   7.7e+03      44      60 ..     180     197 ..     166     235 .. 0.54

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.0021
                   AAA_22  5 agilvvtGesGtGKTtllrrlleqldeea 33
                             ++++++ G+  +GKTtl  ++++++  e+
  PHY93_03920|PHY93_03920 18 KKMVFIGGPRQVGKTTLSLQFFKKNASEK 46
                             78999*************99999986554 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.013
                   AAA_22  92 ielliiDEaqhlrseealeeLrsllnlsrkgvqliLvGtpelr 134
                               ++li DE+++    +  + L+ l++  +k++++i+ G   l+
  PHY93_03920|PHY93_03920  71 EPVLIFDEIHKY--RNWRSLLKGLYDKYKKDIRFIVTGSARLD 111
                              589*********..4555555666777779******9998876 PP

  == domain 3  score: -2.9 bits;  conditional E-value: 4.7
                   AAA_22  44 fvtlpsstsskdl.lrel 60 
                              + +l  +++ k++ l el
  PHY93_03920|PHY93_03920 180 YEDLRDLETVKEIsLIEL 197
                              444444444444433333 PP

>> Sulfotransfer_1  Sulfotransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   5.1e-05     0.083     118     180 ..     120     184 ..     114     195 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 5.1e-05
                              HHHHHHHHHHBT..TSTTT-S.-HHHHHHHHHTTHSTTC-HHHHHHHHHHHTTTTTEEEEEHHHHH CS
          Sulfotransfer_1 118 avSryhfsrslk..klkepet.pfeeffdlflegrvvcgsyfdhvkswlklrkkgnvlflrYEdlk 180
                              +  ryh+ r +      e +  p++e +++ l+  + ++++f+  +++l++++k+++  + YEdl+
  PHY93_03920|PHY93_03920 120 LLGRYHYYRLHPlsL-MELNKnPISEDLKNLLTYSGFPEPFFEKDETFLRRWQKERIQKVVYEDLR 184
                              555777777776641.23333467788899999*******************************97 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   0.00014      0.24      25      60 ..      19      56 ..       8      95 .. 0.77
   2 ?   -2.0   0.0       2.5   4.1e+03     137     149 ..      72      84 ..      51     119 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00014
                   AAA_16 25 elvllsGesGvGKsslvrellr.alekdg.giflrgkc 60
                              +v++ G++ vGK++l  ++++  +++++ g++ + + 
  PHY93_03920|PHY93_03920 19 KMVFIGGPRQVGKTTLSLQFFKkNASEKNvGYLNWDHL 56
                             79**************9777753666665355555554 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 2.5
                   AAA_16 137 lvlvlDdlqwade 149
                               vl++D++++ + 
  PHY93_03920|PHY93_03920  72 PVLIFDEIHKYRN 84 
                              4899999997654 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   0.00021      0.34       1      28 [.      19      47 ..      19      65 .. 0.82
   2 ?   -2.0   0.0       2.4   3.9e+03      54      69 ..     255     270 ..     245     318 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00021
                             EEEEES.STTSSHHHHHHCHCT-CCC-EE CS
                      Roc  1 KvvlvG.dsgvGKtsllkrfvedkfseke 28
                             K+v++G   +vGKt+l  +f +++ sek+
  PHY93_03920|PHY93_03920 19 KMVFIGgPRQVGKTTLSLQFFKKNASEKN 47
                             6677752678*************999886 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 2.4
                              TCEEEEEEEE-SGGCT CS
                      Roc  54 kkvklniWDtaGqerf 69 
                              k+ k+ +WD   +e++
  PHY93_03920|PHY93_03920 255 KEQKIYFWDWTQNEEV 270
                              4456778887766654 PP

>> AAA_35  AAA-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.9   0.0    0.0029       4.8      32      67 ..      19      53 ..      10      67 .. 0.74
   2 ?    3.2   0.1      0.02        32     134     201 ..     144     215 ..     134     223 .. 0.82

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.0029
                   AAA_35 32 alirikapkkmGKtSLlarilakakqqgyktvsldl 67
                             +++ i +p+++GKt L  +  +k +++ +++ +l+ 
  PHY93_03920|PHY93_03920 19 KMVFIGGPRQVGKTTLSLQFFKKNASE-KNVGYLNW 53
                             57899***********99998765544.44555555 PP

  == domain 2  score: 3.2 bits;  conditional E-value: 0.02
                   AAA_35 134 devdrlfeypeiakdfls....lLRswheeaknkeiwqkLrLvvvhstevyipldinqSpfnvGlpieLpeF 201
                              +++++l++y+ + + f++     LR w+ e+ +k +++ Lr +        i+l ++  p  vG p++L+++
  PHY93_03920|PHY93_03920 144 EDLKNLLTYSGFPEPFFEkdetFLRRWQKERIQKVVYEDLRDLETVKEISLIELLVETLPSKVGSPLSLKNL 215
                              56778888888888888533338*****************97777777778999999999999999999987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (378 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       539  (0.030063); expected 358.6 (0.02)
Passed bias filter:                      474  (0.0264376); expected 358.6 (0.02)
Passed Vit filter:                        76  (0.00423894); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.43
# Mc/sec: 2663.13
//
Query:       PHY93_03925|PHY93_03925  [L=51]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.11   13.0   0.1       0.11   13.0   0.1    1.1  1  DUF1211   Protein of unknown function (DUF1211)


Domain annotation for each model (and alignments):
>> DUF1211  Protein of unknown function (DUF1211)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.1   5.9e-06      0.11       7      25 ..       2      29 ..       1      49 [. 0.66

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 5.9e-06
                             HHHHHHHHHHHHHHS...---......H CS
                  DUF1211  7 DavfAIaiTLlvlei...kvp......e 25
                             D  +AIa+TL vl +   ++p       
  PHY93_03925|PHY93_03925  2 DKLIAIAVTLAVLTVstgQLPkvlrqlR 29
                             889**********994443455543330 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (51 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       368  (0.0205254); expected 358.6 (0.02)
Passed bias filter:                      251  (0.0139997); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.36u 0.23s 00:00:00.59 Elapsed: 00:00:00.39
# Mc/sec: 387.74
//
Query:       PHY93_03930|PHY93_03930  [L=129]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.7e-07   30.2   0.1    7.6e-07   29.5   0.1    1.3  1  Recombinase     Recombinase
  ------ inclusion threshold ------
      0.019   15.0   0.1          1    9.5   0.0    2.3  2  MerR_1          MerR HTH family regulatory protein
      0.025   14.3   0.2        0.8    9.5   0.0    3.0  3  HTH_38          Helix-turn-helix domain
       0.03   14.1   0.0       0.07   12.9   0.0    1.6  2  HTH_IclR        IclR helix-turn-helix domain
      0.034   14.2   0.0        3.3    7.8   0.0    2.3  2  HTH_35          Winged helix-turn-helix DNA-binding
       0.15   12.3   0.0       0.23   11.7   0.0    1.2  1  Myb_DNA-bind_6  Myb-like DNA-binding domain


Domain annotation for each model (and alignments):
>> Recombinase  Recombinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.5   0.1   2.5e-10   7.6e-07       1      52 [.      65     115 ..      65     118 .. 0.96

  Alignments for each domain:
  == domain 1  score: 29.5 bits;  conditional E-value: 2.5e-10
              Recombinase   1 peeaeivrrifelylegkslksiaryLneegiktprgkekWskstvkriLtn 52 
                              p e++ivr+i  l  +g+s+++i   L +++i+++ gk+ W+ +tv  i++ 
  PHY93_03930|PHY93_03930  65 PREIKIVRKILALHQKGMSFNAISIHLSNQKIPSKLGKR-WNDKTVASIIRK 115
                              679************************************.*********985 PP

>> MerR_1  MerR HTH family regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.3   0.0     0.029        86       1      18 [.       1      18 [.       1      20 [. 0.89
   2 ?    9.5   0.0   0.00034         1      39      67 ..      64      92 ..      62      94 .. 0.89

  Alignments for each domain:
  == domain 1  score: 3.3 bits;  conditional E-value: 0.029
                             EEHHHHHHHHTS-HHHHH CS
                   MerR_1  1 ysigevakilgvtthtlr 18
                             + ++e + ++g++++t+r
  PHY93_03930|PHY93_03930  1 MPLREISLETGIPKSTIR 18
                             56789999*********9 PP

  == domain 2  score: 9.5 bits;  conditional E-value: 0.00034
                             EHHHHHHHHHHHHHHHTT--GGG---XXX CS
                   MerR_1 39 tdedierLklikyLlkrGltlkgikklln 67
                             ++++i+ +++i +L+++G+++ +i+  l+
  PHY93_03930|PHY93_03930 64 DPREIKIVRKILALHQKGMSFNAISIHLS 92
                             57899*******************87765 PP

>> HTH_38  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.0      0.16   4.8e+02      21      37 ..       1      17 [.       1      20 [. 0.88
   2 ?    9.5   0.0   0.00027       0.8      11      27 ..      72      88 ..      71      96 .. 0.89
   3 ?   -0.7   0.0      0.41   1.2e+03      25      35 ..     108     118 ..     104     118 .. 0.88

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.16
                   HTH_38 21 lslreIArrLgrspsTI 37
                             + lreI  + g  +sTI
  PHY93_03930|PHY93_03930  1 MPLREISLETGIPKSTI 17
                             67999999999999**9 PP

  == domain 2  score: 9.5 bits;  conditional E-value: 0.00027
                   HTH_38 11 eeIerllaeGlslreIA 27
                             ++I +l+++G+s+ +I 
  PHY93_03930|PHY93_03930 72 RKILALHQKGMSFNAIS 88
                             589************95 PP

  == domain 3  score: -0.7 bits;  conditional E-value: 0.41
                   HTH_38  25 eIArrLgrsps 35 
                              ++A ++ ++ps
  PHY93_03930|PHY93_03930 108 TVASIIRKHPS 118
                              68999****98 PP

>> HTH_IclR  IclR helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   2.4e-05      0.07      19      37 ..       1      19 [.       1      22 [. 0.89
   2 ?   -2.3   0.0       1.3   3.9e+03      11      25 ..      74      88 ..      73      91 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 2.4e-05
                             -BHHHHHHHHTS-HHHHHH CS
                 HTH_IclR 19 ltlselArrtglpkStvhR 37
                             + l+e++ +tg+pkSt + 
  PHY93_03930|PHY93_03930  1 MPLREISLETGIPKSTIRD 19
                             78**************975 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 1.3
                             T-CTTBSS-BHHHHH CS
                 HTH_IclR 11 alaeapqeltlselA 25
                             +la ++ ++++  ++
  PHY93_03930|PHY93_03930 74 ILALHQKGMSFNAIS 88
                             578888999988886 PP

>> HTH_35  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   0.0     0.014        42      17      38 ..       2      23 ..       1      42 [. 0.77
   2 ?    7.8   0.0    0.0011       3.3      10      55 ..      76     117 ..      71     119 .. 0.76

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.014
                   HTH_35 17 tLaalsreaglssstlsnaltr 38
                              L+++s e g+ +st++ +l  
  PHY93_03930|PHY93_03930  2 PLREISLETGIPKSTIRDVLVL 23
                             599**************99864 PP

  == domain 2  score: 7.8 bits;  conditional E-value: 0.0011
                   HTH_35  10 aLrkrgttLaalsreaglssstlsnaltrpwpkgEalIAeaLgvpp 55 
                              aL+++g++  a+s +  ls++++ + l ++w    + +A+++  +p
  PHY93_03930|PHY93_03930  76 ALHQKGMSFNAISIH--LSNQKIPSKLGKRWN--DKTVASIIRKHP 117
                              8***********965..778888888888875..466777776666 PP

>> Myb_DNA-bind_6  Myb-like DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   7.6e-05      0.23       3      47 ..      65     112 ..      63     123 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 7.6e-05
           Myb_DNA-bind_6   3 eeEdeiLlklvekygn..dWknIaeal.nrRtpkqcfdrwknkLrpki 47 
                              + E +i +k+   +++   ++ I+ +l n++ p+ +  rw+ k  ++i
  PHY93_03930|PHY93_03930  65 PREIKIVRKILALHQKgmSFNAISIHLsNQKIPSKLGKRWNDKTVASI 112
                              5677888999999976669********77************9876664 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (129 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       470  (0.0262145); expected 358.6 (0.02)
Passed bias filter:                      402  (0.0224218); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.40u 0.24s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 987.02
//
Query:       PHY93_03935|PHY93_03935  [L=163]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.2e-07   28.7   0.3      6e-06   26.0   0.3    1.9  1  DUF2204   Nucleotidyl transferase of unknown function (DUF220


Domain annotation for each model (and alignments):
>> DUF2204  Nucleotidyl transferase of unknown function (DUF2204)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.0   0.3   3.4e-10     6e-06       4     152 ..       4     159 ..       1     162 [. 0.78

  Alignments for each domain:
  == domain 1  score: 26.0 bits;  conditional E-value: 3.4e-10
                  DUF2204   4 alaevlkvLeekgvkfvviGgtvvelalgrkrlekDvDlFit......ek..sqlleedfyreiaeeedwdvgs.telgtvkliak 80 
                              +++ +l++L e+ ++f+viGg  +  a+g+  +++D+D+ ++      ek   +l++ + ++ ia+++   +    ++++++ +  
  PHY93_03935|PHY93_03935   4 DFKLLLSKLAENDFDFIVIGGF-AAAAYGSSFVTSDLDVCAIltpdniEKlrTALVDLHPLHRIANNKPSFLEIpKSVEGINNLY- 87 
                              566789**************86.6679***********98752222223222578999999999988765333313444444443. PP

                  DUF2204  81 vekeevevdlleNildlyvpeeiLerakeveiggvevkvislEdyivlKaraareeaeeeldeiarlikelk 152
                              ++ ++  +dll N+ ++   +e+ ++  e++i g++ k+is+ d+i  K    r ++ e  +e++ + ++l+
  PHY93_03935|PHY93_03935  88 LQTDAGVLDLLSNVTGVGDFQELSKSCIEIKIYGYQCKIISINDLIKAKLALKRPKDLEVAKELEVIQNSLN 159
                              44555569***********************************************99999999876665555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (163 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       469  (0.0261587); expected 358.6 (0.02)
Passed bias filter:                      393  (0.0219198); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.42
# Mc/sec: 1173.64
//
Query:       PHY93_03940|PHY93_03940  [L=120]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.4e-05   23.4   0.0    7.2e-05   22.7   0.0    1.4  1  Glyoxalase_2  Glyoxalase-like domain
     0.0079   16.0   0.0      0.014   15.3   0.0    1.3  1  Sorb          Sorbin homologous domain
  ------ inclusion threshold ------
      0.029   14.5   0.0       0.22   11.7   0.0    1.9  1  Glyoxalase    Glyoxalase/Bleomycin resistance protein/Dioxyge


Domain annotation for each model (and alignments):
>> Glyoxalase_2  Glyoxalase-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.7   0.0   1.2e-08   7.2e-05       3     114 ..      10     117 ..       8     120 .] 0.89

  Alignments for each domain:
  == domain 1  score: 22.7 bits;  conditional E-value: 1.2e-08
                              ----EES-HHHHHHHHHHTT---EEEE-SSEEEETTS-EEEEHHHHHH-------S--SS-EEEEEES-HHHHHHHH..GGGS-EE CS
             Glyoxalase_2   3 lillvvkdieeskkFYedvlelkikldfGenvsfetgfalkedlkelinldesiaeqsnnfeLyFevedvdaflqklkeaeniell 88 
                              +i + v ++++s+++Y++++e + ++d  ++vsf    +l++   ++   de+       +  y+ v+d+ ++l+k+++ +   + 
  PHY93_03940|PHY93_03940  10 TIRMSVSNVSKSRDWYKQLFEIEPIEDIENFVSF----KLQNVCFDICLADEKSPVSEGGSVGYWFVDDLASLLDKVHRLGGSVYR 91 
                              566789**************************97....5888888888888888888888889999******************** PP

                              EEEEE-TTS-EEEEEE-TT--EEEEE CS
             Glyoxalase_2  89 helkekpWgqrvirfyDpDkhiiEig 114
                               +lk+ +   +++++ Dp ++ii   
  PHY93_03940|PHY93_03940  92 GPLKVIEIQRTIVQIIDPFGNIIGFE 117
                              **********************9765 PP

>> Sorb  Sorbin homologous domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   2.3e-06     0.014      18      34 ..      11      29 ..       9      30 .. 0.77

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 2.3e-06
                     Sorb 18 lrntve..drskDWYktmF 34
                             +r+ v    +s+DWYk++F
  PHY93_03940|PHY93_03940 11 IRMSVSnvSKSRDWYKQLF 29
                             566665557*********9 PP

>> Glyoxalase  Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   3.6e-05      0.22       5     125 ..      11     113 ..       7     116 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 3.6e-05
                              EEEEESHHHHHHHHHHHHHTSEEEEEEEEEESTEEEEEEEEETTTSEEEEEEEECCTTSCTHHCCBSCTSEEEEEEEEEHCHHHHH CS
               Glyoxalase   5 vallvgdleksldFYtkvLGfklvkktdnteeteglriaffhaggghielvlneapsgaakhvkkieetvhhvafialdvedvgka 90 
                              + + v++++ks d+Y++ +  + +++++         +  +++    i l+++ +p ++  +v        + +     v+d++  
  PHY93_03940|PHY93_03940  11 IRMSVSNVSKSRDWYKQLFEIEPIEDIE------NFVSFKLQNVCFDICLADEKSPVSEGGSV--------GYW----FVDDLASL 78 
                              5578999*********************......44555555566666666666665555555........333....36788888 PP

                              HHHHHHTTGEEEEEEECHHCTEEEEEEEEETTSEE CS
               Glyoxalase  91 ldrlkeagvkvvaepgrhyfgalysfyfrDpdGil 125
                              ld++ + g++v ++p +    ++ ++ + Dp+G+ 
  PHY93_03940|PHY93_03940  79 LDKVHRLGGSVYRGPLKVIEIQRTIVQIIDPFGNI 113
                              88888888888888877777777777777777775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (120 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       354  (0.0197445); expected 358.6 (0.02)
Passed bias filter:                      340  (0.0189637); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.41
# Mc/sec: 888.62
//
Query:       PHY93_03945|PHY93_03945  [L=137]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0092   15.6   0.2        5.1    6.8   0.0    2.4  2  AbrB_C    AbrB C-terminal domain
  ------ inclusion threshold ------
      0.011   16.0   0.3         15    6.0   0.0    3.1  3  SH3_15    Mind bomb SH3 repeat domain
       0.03   14.7   0.1        8.7    6.8   0.0    2.3  2  DUF3696   Protein of unknown function (DUF3696)
       0.12   12.5   0.0       0.65   10.1   0.0    1.9  2  DUF2111   Uncharacterized protein conserved in archaea (DUF21


Domain annotation for each model (and alignments):
>> AbrB_C  AbrB C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.5   0.0    0.0015       6.6      14      26 ..      47      59 ..      41      60 .. 0.89
   2 !    6.8   0.0    0.0011       5.1      15      26 ..     106     117 ..     100     118 .. 0.93

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.0015
                   AbrB_C 14 sLanGkivLSkeG 26
                              ++nGk+  S++G
  PHY93_03945|PHY93_03945 47 IFNNGKVRISPDG 59
                             59**********9 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.0011
                   AbrB_C  15 LanGkivLSkeG 26 
                              ++nGk+  S++G
  PHY93_03945|PHY93_03945 106 FNNGKVSISPDG 117
                              9**********9 PP

>> SH3_15  Mind bomb SH3 repeat domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.0    0.0034        15      35      50 ..      41      56 ..      29      60 .. 0.90
   2 ?    2.8   0.0     0.034   1.5e+02       1      11 [.      83      93 ..      83      98 .. 0.86
   3 ?    4.0   0.0     0.014        64      35      50 ..      99     114 ..      95     118 .. 0.89

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.0034
                   SH3_15 35 vGtVlkvdadgdlrVk 50
                             +G+Vl++ ++g++r+ 
  PHY93_03945|PHY93_03945 41 TGSVLEIFNNGKVRIS 56
                             79************96 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.034
                   SH3_15  1 fevGDwVrvkd 11
                             ++vGD+V +k 
  PHY93_03945|PHY93_03945 83 LCVGDRVSFKG 93
                             69******996 PP

  == domain 3  score: 4.0 bits;  conditional E-value: 0.014
                   SH3_15  35 vGtVlkvdadgdlrVk 50 
                               GtVl++ ++g++ + 
  PHY93_03945|PHY93_03945  99 SGTVLEIFNNGKVSIS 114
                              59***********985 PP

>> DUF3696  Protein of unknown function (DUF3696)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.8   0.0    0.0019       8.7      27      43 ..      43      61 ..      29      69 .. 0.76
   2 ?    5.8   0.1    0.0042        19      29      43 ..     105     119 ..      97     120 .. 0.88

  Alignments for each domain:
  == domain 1  score: 6.8 bits;  conditional E-value: 0.0019
                  DUF3696 27 sp..iddnGrisnWPeGFF 43
                             s   i +nG+++  P+GFF
  PHY93_03945|PHY93_03945 43 SVleIFNNGKVRISPDGFF 61
                             4445889************ PP

  == domain 2  score: 5.8 bits;  conditional E-value: 0.0042
                  DUF3696  29 iddnGrisnWPeGFF 43 
                              i +nG++s  P+GFF
  PHY93_03945|PHY93_03945 105 IFNNGKVSISPDGFF 119
                              779***********9 PP

>> DUF2111  Uncharacterized protein conserved in archaea (DUF2111)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.0   0.00014      0.65      17      46 ..      25      53 ..      20      69 .. 0.81
   2 ?   -0.1   0.0      0.22     1e+03      31      45 ..      97     110 ..      92     124 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00014
                  DUF2111 17 kkGvriekgkvvdedYtgpvLeevleegkv 46
                             kkG+r+  +  + + Ytg vLe ++++gkv
  PHY93_03945|PHY93_03945 25 KKGIRVVYDGSLGTTYTGSVLE-IFNNGKV 53
                             79*******************7.5666665 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.22
                  DUF2111  31 dYtgpvLeevleegk 45 
                              dY+g+vLe ++++gk
  PHY93_03945|PHY93_03945  97 DYSGTVLE-IFNNGK 110
                              79999997.455555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (137 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       319  (0.0177924); expected 358.6 (0.02)
Passed bias filter:                      272  (0.015171); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 1036.51
//
Query:       PHY93_17260|PHY93_17260  [L=270]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.3e-42  145.7   0.0    1.7e-42  145.4   0.0    1.1  1  PAPS_reduct  Phosphoadenosine phosphosulfate reductase family


Domain annotation for each model (and alignments):
>> PAPS_reduct  Phosphoadenosine phosphosulfate reductase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  145.4   0.0   9.6e-47   1.7e-42       2     173 ..      31     226 ..      30     227 .. 0.95

  Alignments for each domain:
  == domain 1  score: 145.4 bits;  conditional E-value: 9.6e-47
                              EEEE--SSCTCHHHHHHHHHHCTTH...EEEEEE-STB-HHHHHHHHHHHHHTT-EEEEEE-SCHHHHHHHHHH-S-THHHCHHHH CS
              PAPS_reduct   2 lvvsvsgGkdslVllhLalkafkpv...pvvfvdtghefpetiefvdeleeryglrlkvyepeeevaekinaekhgsslyeeaaer 84 
                              l++++s+Gkds+V+l L++kaf  +   p++++dt  + pe+i+f+de + + gl+l + ++e   ae++n      +l   ++++
  PHY93_17260|PHY93_17260  31 LAMLWSMGKDSTVMLWLVRKAFFGRapfPMIHIDTTFKIPEMIKFRDEKALEWGLNLMLSKNETALAEGMNHTIG--RL---ECCT 111
                              789*******************995566****************************************9998873..55...8*** PP

                              HHTHHHHHHHHHCTTECEEE----CCCTTTTTTSSSEEECTTT-S......................CEEE-CCCT--HHHHHHHH CS
              PAPS_reduct  85 iaKveplkkaLekldedalltGaRrdesksraklpiveidedfek......................slrvfPllnWteedvwqyi 148
                                K+e+lk+ L+ + ++a+++ +Rrde+ +rak+++++ +++  k                      ++rv+Pll+W+e d+w+yi
  PHY93_17260|PHY93_17260 112 ALKTEALKQFLQANPFQAIFVAIRRDEEGTRAKERYFSPRDESFKwdfveqppelwdqyntdfpsdvHVRVHPLLHWSELDIWRYI 197
                              **************************************99998888**************************************** PP

                              HHCT--B-CCCCTT....-SS--BCTTB- CS
              PAPS_reduct 149 lrenipynpLydqg....frsiGcvpctg 173
                               renip   Ly  +    +rs+Gc pct+
  PHY93_17260|PHY93_17260 198 ERENIPTLDLYYSKdgtrYRSVGCAPCTK 226
                              ***********9999999*********96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (270 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       372  (0.0207485); expected 358.6 (0.02)
Passed bias filter:                      335  (0.0186848); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 2046.49
//
Query:       PHY93_03950|PHY93_03950  [L=118]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (118 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       332  (0.0185175); expected 358.6 (0.02)
Passed bias filter:                      285  (0.015896); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 874.94
//
Query:       PHY93_03955|PHY93_03955  [L=280]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (280 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       338  (0.0188521); expected 358.6 (0.02)
Passed bias filter:                      307  (0.0171231); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 2039.39
//
Query:       PHY93_03960|PHY93_03960  [L=156]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.1e-32  111.2   0.3    4.5e-32  111.1   0.3    1.0  1  DUF4423   Domain of unknown function (DUF4423)
    0.00049   19.9   0.0    0.00095   19.0   0.0    1.5  1  TrmB      Sugar-specific transcriptional regulator TrmB
  ------ inclusion threshold ------
      0.058   13.3   0.2          3    7.8   0.0    2.4  2  HTH_5     Bacterial regulatory protein, arsR family
      0.092   12.9   0.0       0.22   11.7   0.0    1.6  2  TolB_N    TolB amino-terminal domain


Domain annotation for each model (and alignments):
>> DUF4423  Domain of unknown function (DUF4423)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  111.1   0.3     1e-35   4.5e-32      22     168 .]       5     148 ..       1     148 [. 0.98

  Alignments for each domain:
  == domain 1  score: 111.1 bits;  conditional E-value: 1e-35
                  DUF4423  22 yypvirellplkdfkadpeelakrlrpkisaeevekalefLlklgllkkdedgkyrqtekslttssevkseavrsyhkqmlelAie 107
                               ++++ +l ++  f+a+++e++ rl+  i++ ++e  l+ Ll +gl+kk+ +g++ ++++++ t+++v+s+a+++ h + l+++++
  PHY93_03960|PHY93_03960   5 SITAVITLFDVDGFNAEVSEISIRLG--ITKNRTEVVLNNLLTCGLVKKTDEGNLIKAHAKIRTTEDVTSQALKDSHLETLKMGKN 88 
                              57899*********************..********************************************************** PP

                  DUF4423 108 alervpkeeRdissltlaiskedyekikkeirefrkkilaiaeeskeaerVyqLnlqlFpl 168
                               le++++e Rd+s++t+a++ e ++++k  irefr+k+ a+++  ++ ++V+qL +q++pl
  PHY93_03960|PHY93_03960  89 KLEEIEIELRDFSAMTIAMDLERMPEVKTIIREFRQKLSALLRDGQK-TDVCQLAIQFYPL 148
                              ***********************************************.************8 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.0   0.0   2.1e-07   0.00095      22      57 ..      19      54 ..      16      67 .. 0.90

  Alignments for each domain:
  == domain 1  score: 19.0 bits;  conditional E-value: 2.1e-07
                             CCHHCHHCCCTTSSCHCHHHHHHHHHHCTSEEEESS CS
                     TrmB 22 patadeiaeelgvprskvYevLrsLedkGlVerekg 57
                             +a+++ei+ +lg+ +++   vL++L+ +GlV++ ++
  PHY93_03960|PHY93_03960 19 NAEVSEISIRLGITKNRTEVVLNNLLTCGLVKKTDE 54
                             5789****************************9876 PP

>> HTH_5  Bacterial regulatory protein, arsR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   0.0   0.00066         3      17      47 .]      21      51 ..      19      51 .. 0.94
   2 ?    3.1   0.0      0.02        90      10      22 ..     128     142 ..     124     145 .. 0.76

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.00066
                             EHHHHHHHHTS-HHHHHHHHHHHHHTTSEEE CS
                    HTH_5 17 cvcelaeelglsqstvShHLkkLreaGLVek 47
                              v+e++  lg+++  +   L+ L  +GLV+k
  PHY93_03960|PHY93_03960 21 EVSEISIRLGITKNRTEVVLNNLLTCGLVKK 51
                             59***************************87 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.02
                              HHTT..SSEEHHHHH CS
                    HTH_5  10 lLae..gelcvcela 22 
                              +L +  +++ vc+la
  PHY93_03960|PHY93_03960 128 ALLRdgQKTDVCQLA 142
                              55555777******8 PP

>> TolB_N  TolB amino-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   4.8e-05      0.22      29      84 ..      31      89 ..      15     102 .. 0.84
   2 ?   -1.9   0.0      0.82   3.7e+03       2      17 ..      92     107 ..      91     121 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 4.8e-05
                             -SS-HHHHHHHHHHHTTSEEE--GGG-S---SS...GGG--HHHHHTTT-SEEEEEEEE CS
                   TolB_N 29 laediseviaaDLerSGlFrpldksafpqkpss...eaevdfadWkalgadalvtGsvt 84
                             + ++ +ev+ ++L  +Gl ++ d++++++ +++   +++v+ ++ k+   ++l +G+ +
  PHY93_03960|PHY93_03960 31 ITKNRTEVVLNNLLTCGLVKKTDEGNLIKAHAKirtTEDVTSQALKDSHLETLKMGKNK 89
                             567789***********************999998899999999999999999999876 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 0.82
                              XXEEEESGGGSEEEEE CS
                   TolB_N   2 eieItkggaealpiAv 17 
                              eieI+   ++a+ iA+
  PHY93_03960|PHY93_03960  92 EIEIELRDFSAMTIAM 107
                              5777777777777775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (156 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       867  (0.0483574); expected 358.6 (0.02)
Passed bias filter:                      544  (0.0303419); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1147.83
//
Query:       PHY93_03965|PHY93_03965  [L=117]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    6.4e-06   26.1   0.0    9.8e-06   25.5   0.0    1.3  1  HTH_3           Helix-turn-helix
     0.0012   19.1   0.0     0.0016   18.7   0.0    1.1  1  HTH_31          Helix-turn-helix domain
     0.0042   16.7   0.0     0.0085   15.7   0.0    1.5  1  CENP-B_N        CENP-B N-terminal DNA-binding domain
     0.0074   16.1   0.0      0.011   15.5   0.0    1.2  1  YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitox
  ------ inclusion threshold ------
      0.035   14.1   0.0       0.08   13.0   0.0    1.7  1  HTH_19          Helix-turn-helix domain
      0.081   13.0   0.1        0.1   12.7   0.1    1.3  1  AAA_lid_5       Midasin AAA lid domain


Domain annotation for each model (and alignments):
>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.5   0.0   3.3e-09   9.8e-06       9      52 ..      25      68 ..      18      70 .. 0.89

  Alignments for each domain:
  == domain 1  score: 25.5 bits;  conditional E-value: 3.3e-09
                             THHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEH CS
                    HTH_3  9 glsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvsl 52
                              +s++  A+ lGv+ st+s+i nG+r+  l+++ ++   L++ +
  PHY93_03965|PHY93_03965 25 QYSLRAYAKHLGVHSSTLSQILNGKRSLPLKNATAVVSKLNLGP 68
                             589999******************************99999876 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   0.0   5.4e-07    0.0016      10      61 ..      21      71 ..      18      74 .. 0.87

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 5.4e-07
                   HTH_31 10 ReraGLsqeevAerlgvsestlsrlEqGrrgrpspavlealaralgldpaer 61
                             R+    s+++ A++lgv  stls++ +G+r   ++   +a++  l+l p er
  PHY93_03965|PHY93_03965 21 RTNPQYSLRAYAKHLGVHSSTLSQILNGKRS-LPLKNATAVVSKLNLGPKER 71
                             666778999*********************6.77999999998888888876 PP

>> CENP-B_N  CENP-B N-terminal DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   2.8e-06    0.0085      24      49 ..      27      52 ..      17      55 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 2.8e-06
                             -HHHHHHHHT--CCHHHHHHHCHHHH CS
                 CENP-B_N 24 SkaelarrfnvpestlsdilknKkkl 49
                             S ++ a+ ++v  stls+il+ K++l
  PHY93_03965|PHY93_03965 27 SLRAYAKHLGVHSSTLSQILNGKRSL 52
                             77888******************997 PP

>> YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   3.8e-06     0.011      12      43 ..      29      60 ..      26      65 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 3.8e-06
           YdaS_antitoxin 12 kaLAealgvsqqaVsqWlkgkkqvpaervpeI 43
                             +a A++lgv++++ sq l+gk+++p +   ++
  PHY93_03965|PHY93_03965 29 RAYAKHLGVHSSTLSQILNGKRSLPLKNATAV 60
                             577********************998876665 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   2.7e-05      0.08      11      41 ..      24      54 ..       9      69 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 2.7e-05
                   HTH_19 11 lgltqeelaerlgisrskisaiEngkkdvps 41
                              ++++++ a++lg+  s +s+i ngk+  p 
  PHY93_03965|PHY93_03965 24 PQYSLRAYAKHLGVHSSTLSQILNGKRSLPL 54
                             57999********************996664 PP

>> AAA_lid_5  Midasin AAA lid domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   3.3e-05       0.1      36      75 ..      13      52 ..       2      86 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 3.3e-05
                AAA_lid_5 36 erkeltdgagqkphfSlRtlsraLsyartilkl.aglrral 75
                             + ++l+  ++ +p++SlR++ + L + + +l   ++ +r+l
  PHY93_03965|PHY93_03965 13 K-EDLSHKQRTNPQYSLRAYAKHLGVHSSTLSQiLNGKRSL 52
                             3.689999999*************98777665447777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (117 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       613  (0.0341904); expected 358.6 (0.02)
Passed bias filter:                      432  (0.024095); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.41u 0.23s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 885.09
//
Query:       PHY93_03970|PHY93_03970  [L=555]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   2.7e-221  735.5  36.4   3.2e-221  735.3  36.4    1.0  1  KdpA      Potassium-transporting ATPase A subunit
  ------ inclusion threshold ------
       0.14   12.6   0.2       0.54   10.7   0.1    2.0  2  DUF3390   Domain of unknown function (DUF3390)


Domain annotation for each model (and alignments):
>> KdpA  Potassium-transporting ATPase A subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  735.3  36.4  3.6e-225  3.2e-221       3     546 ..      12     548 ..      10     549 .. 0.97

  Alignments for each domain:
  == domain 1  score: 735.3 bits;  conditional E-value: 3.6e-225
                              HHHHHHHHHHHHHHHHHHHHTT-...--SS-SHHHHHHHHHHT---.----HHHHHHHHHHHHHHHHHHHHHHHHTTTTSS--SS- CS
                     KdpA   3 llllllllalplgkylakvfegektlldkllkpverllyrllgvdeeeemtwkeYalalllfnlvlllllylllrlqgvlplnpeg 88 
                              ++  +++l+ +lgky+akvfeg+ t    + + +e+++yr+lg+d+ +em+w +Y+l+l++fnl+++l+++ +l++q++lp+np++
  PHY93_03970|PHY93_03970  12 TFGSIIVLTPILGKYMAKVFEGKIT----IYNDIENFIYRILGLDAYKEMNWVDYTLNLIVFNLIGFLFVISILMFQAHLPFNPQH 93 
                              6677899****************75....67799**************************************************** PP

                              -----HHHHHHHHHHHHTT-----S-HHHH--HHHHHTTHHHHHHHHHHHHHHHHHHHHHHH.....HS-S-S----HHHHHHHHH CS
                     KdpA  89 lealspdlafntavSFvtntnlQhYsgestlsylsqmlgltvlnFvsaatGlavavalirgl.....arketkelGnfyvdlvrai 169
                              + +ls  lafn avSFvtntn+Q+Y gest+sy+sqm++l ++nF+saatG++v++al+rgl     a++e+k+lGnf++dl+r++
  PHY93_03970|PHY93_03970  94 FVGLSLPLAFNVAVSFVTNTNWQSYGGESTMSYFSQMMALGTQNFLSAATGITVLLALVRGLsrksiAERESKTLGNFWKDLTRST 179
                              **************************************************************4444445567************** PP

                              HHTHHHHHHHHHHHHHHHT--------EEEE-SSS-EEEE--SSHHHHHHHHHHTT----SSSSTTTSTTTS-SHHHHHHHHHHHH CS
                     KdpA 170 lrvLLPlslvvalllvaqGvpqtlsgkaevttlegakqtialGpvAsleaIkqlGtnGGGffgaNsahpfenptaltnlleilail 255
                              l++L+Pls+v+al+lv qG++q++s++ +++t+e + q ++ Gp+As++aIkqlGtnGGGff++Nsahpfenpt+l+n+l++++il
  PHY93_03970|PHY93_03970 180 LFILIPLSIVLALILVKQGTIQNFSSYIHAATIESKDQLLPGGPAASQIAIKQLGTNGGGFFNVNSAHPFENPTPLANWLSLISIL 265
                              ************************************************************************************** PP

                              HHHHHHHHHHHHHTS-THHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHH..-----TTB-SSS-HHHHHHHHHHHHHTT----S CS
                     KdpA 256 lipaalvftfGrmvkdkrqglailavmlvlflvllvvvvvaeaagnpalaeeqaggnmeGkEvrfGiaasalfavvttatstGavn 341
                              lipaal++t+G m++ k+qg+ai+a+m+++++v++++++ ++ a            +meGkE+r+Gi +s+++++ tta+s+G+vn
  PHY93_03970|PHY93_03970 266 LIPAALTYTYGLMIGAKKQGWAIFAAMMITLMVGTFIIIKSDLAV----------NMMEGKETRLGIINSSMWTSWTTAASNGSVN 341
                              ************************************999888663..........469**************************** PP

                              S-GGGS-HHHHHHHHHHHHT.S-TT-TTTHHHHHHHHHHHHHHHHHHHHHTS--EETTEE--HHHHHHHHHHHHHHHHHHHHHHHH CS
                     KdpA 342 amhdsltplgglvpllnmml.evvfGGvGvGllnllvfvilavFiagLmvGrtPeylgkkiearevklaalaiLvhpllilvgtal 426
                              +m++s  p++g v++ln+ml e++fGGvG+Gl+++++fvil+vF++gLmvGrtPeylgkkie+re+k+++laiL+ +++il+g+al
  PHY93_03970|PHY93_03970 342 SMISSQAPIAGGVAMLNIMLgEIIFGGVGSGLYGMILFVILTVFLSGLMVGRTPEYLGKKIESREIKMIILAILAPSACILLGSAL 427
                              ************************************************************************************** PP

                              HTTSH.HHTT--S-THHHHHHHHHHHHHHHTT-----S-S---SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTS------TT-- CS
                     KdpA 427 alalp.alaslsnpgahglsevLYeftSaaanNGSafeGlgdntvfwnltlglamllgRflpiiavlaiAgslaakkkvpesagtl 511
                              a++++ +l+sls++g+hglse+LY+ftSaa+nNGSa++Gl++nt f+n++lg++m++gRf+++i+v+aiAgs+  kk +p s gtl
  PHY93_03970|PHY93_03970 428 AISTKvGLSSLSHQGPHGLSEILYAFTSAAGNNGSALAGLNANTNFYNYLLGFTMIIGRFAILIPVMAIAGSMIVKKATPPSFGTL 513
                              *****88999**************************************************************************** PP

                              -SSHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHH CS
                     KdpA 512 ktdtplFvvllvgvilivgaLtFlPalaLGPiaeh 546
                              +td+p+Fvvll+gvi+ivgaLtFlPal+LGPi+e+
  PHY93_03970|PHY93_03970 514 ETDNPIFVVLLIGVIIIVGALTFLPALSLGPIVEQ 548
                              *********************************98 PP

>> DUF3390  Domain of unknown function (DUF3390)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0      0.59   5.3e+03      50      67 ..     245     260 ..     235     265 .. 0.83
   2 ?   10.7   0.1     6e-05      0.54      14      56 ..     311     353 ..     304     358 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 0.59
                  DUF3390  50 latrlrgllPkklkaWts 67 
                               a+ +++++P  l +W s
  PHY93_03970|PHY93_03970 245 SAHPFENPTP--LANWLS 260
                              5677899999..9***86 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 6e-05
                  DUF3390  14 kvikgkgakasaaEklamkgfalaasspalYrlgtklatrlrg 56 
                              + + gk+++  ++ + ++  +++aas+++++ ++++ a++++g
  PHY93_03970|PHY93_03970 311 NMMEGKETRLGIINSSMWTSWTTAASNGSVNSMISSQAPIAGG 353
                              4677899999*************************99998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (555 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       747  (0.0416643); expected 358.6 (0.02)
Passed bias filter:                      283  (0.0157845); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.61u 0.21s 00:00:00.82 Elapsed: 00:00:00.42
# Mc/sec: 3921.24
//
Query:       PHY93_03975|PHY93_03975  [L=693]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.5e-32  113.6   0.2    2.6e-32  112.8   0.2    1.4  1  Hydrolase     haloacid dehalogenase-like hydrolase
    2.6e-31  108.5   1.5    2.6e-31  108.5   1.5    2.6  3  E1-E2_ATPase  E1-E2 ATPase
    0.00011   22.0   0.8    0.00057   19.7   0.5    2.2  2  Hydrolase_3   haloacid dehalogenase-like hydrolase
    0.00026   21.4   0.0     0.0025   18.2   0.0    2.6  2  HAD           haloacid dehalogenase-like hydrolase
  ------ inclusion threshold ------
      0.029   13.3   0.0      0.061   12.2   0.0    1.4  1  DUF759        Borrelia burgdorferi protein of unknown functio


Domain annotation for each model (and alignments):
>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  112.8   0.2   7.3e-36   2.6e-32       1     210 []     304     537 ..     304     537 .. 0.83

  Alignments for each domain:
  == domain 1  score: 112.8 bits;  conditional E-value: 7.3e-36
                              SSEEEEESBTTTBCHHHHHHHHHHHHCHHHHHHHHHH......HHCHHHHHHHHHHHHH.................HHHHHHHHHE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxx.................xxxxxxxxxx RF
                Hydrolase   1 iktvvfDkdGTLttgepsvedvivsaalalaaaletg......sehpigkalvaaakar.................sgaltgfatf 63 
                              i+++++Dk+GT+t g++   ++ vs  +++    +t+       e+p g+ +v  a+                       t     
  PHY93_03975|PHY93_03975 304 IDVLLLDKTGTITIGNRMASEFRVSPGVSETLLARTAllsslsDETPEGRSIVSLAQSKykidditipneqlefipF---TAQ--- 383
                              789*************7777777776444444444444455699********9999999888877665544442220...222... PP

                              TTTE..............HHHHTHHHHHHHH......HCHHHHHHHHHHHHHHCHHHHHH..TTHHHHHHHHHHTHHBHTTHHHHH CS
                              xxxx..............xxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase  64 igrg..............ayaigkpewltal......dippdlgaaigsaqsqgrtvall..qaralavftiadplkvkpeaaeav 127
                                                 + +g  + ++        d+p+  ++ ++   + g t  ++  ++++l+v+ ++d   vkp++ e +
  PHY93_03975|PHY93_03975 384 ---TrmsgiditengkitSIRKGASDSVKNYiesiggDFPSGAQDIVDNIARGGGTPLVVceNNKILGVIYLKDI--VKPGINERF 464
                              ...24444446666688877777777666667777*********************99999*99***********..********* PP

                              HHHHHTTEEEEEEESSEHHHHHHHHHHTTGGGESEEEEHHCES.STTTSHHHHHHHHHHHTSTGGGEEEEESSHHHHHHHHHTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 128 asLkaagievvlltgdnpetaeraanqlGddyfdaviasdiet.vakpspegkvaaireLqgkpeevamVGDgvnDaaalaaAg 210
                              a+L+++gi++v++tgdnp ta ++a ++G           ++   a + pe+k+a ire q+k++ vam GDg nDa+ala+A+
  PHY93_03975|PHY93_03975 465 AELRKMGIRTVMITGDNPLTAAAIAAEAG-----------VDDfLAQATPEMKLARIREEQAKGHLVAMTGDGTNDAPALAQAD 537
                              *****************************...........6667***************************************8 PP

>> E1-E2_ATPase  E1-E2 ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.5      0.33   1.2e+03     114     150 ..      27      63 ..       3      78 .. 0.49
   2 !  108.5   1.5   7.2e-35   2.6e-31       5     181 .]     103     288 ..      98     288 .. 0.90
   3 ?   -1.5   0.4      0.43   1.5e+03     145     163 ..     630     649 ..     587     653 .. 0.63

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.33
                              HHHHHHHHHHHHHHHHHHHHHHS-STTTSSTTHHHHH CS
             E1-E2_ATPase 114 kldklgkvlvpvvlliallvflialllgkslaeallr 150
                              + + l k  v++++++++lv  i  ++++ + +  ++
  PHY93_03975|PHY93_03975  27 NPQTLLKNPVMFITWVCALVTTIISIRNGLTGHHSFF 63 
                              4444555544455555544444443333333322222 PP

  == domain 2  score: 108.5 bits;  conditional E-value: 7.2e-35
                              -EEEEE-TTS-EEEEGGG--TTSEEEEETT-B--SEEEEEEE-SEEE-TTTS---S-EE-G...-TTEE-TT-EEEE-EEEEEEEE CS
             E1-E2_ATPase   5 ptakvirdgteeeidakelvpGDivllkagdrvpaDgrivegsaevdesaLTGEslpveke...kgdmvfsGtvvvsgeakavVta 87 
                              ++a++++++ e+ i+a el+ +Div++++gd +p Dg++veg a+vdesa+TGEs pv +e    +++v++Gt v+s+++ ++++ 
  PHY93_03975|PHY93_03975 103 TKARLMNGKHETIINALELKKNDIVVCESGDLIPGDGEVVEGIATVDESAITGESAPVIREsggDRSSVTGGTLVISDKILIRIVS 188
                              5677777888888***********************************************64448899****************** PP

                              -TTTSTTTTTSTTS--------HHHHHHHHHHHHHHHHHHHHHHHHHHS-STTTSSTT......HHHHHHHHHHHHHS-TTHHHHH CS
             E1-E2_ATPase  88 tgedtelgkiarlveeakskktplqkkldklgkvlvpvvlliallvflialllgksla......eallralallvaaiPcaLplav 167
                                 +++l+++++lve+a+++ktp +  l+ l + l++v +l++ ++ ++a + g  +        ++   ++llv+ iP  ++ ++
  PHY93_03975|PHY93_03975 189 EPGSSFLDRMISLVESASRQKTPNEIALSILLSGLTLVFVLAVTTLKFYADYSGIAAHqdlshiITVPVLISLLVCLIPTTIGGLL 274
                              ************************************9999999988888877776666888864444449**************** PP

                              HHHHHHHHHHHHHT CS
             E1-E2_ATPase 168 plalalgarrlakk 181
                              + + + g+ rl +k
  PHY93_03975|PHY93_03975 275 SAIGISGMDRLIRK 288
                              ********999775 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 0.43
                              T.HHHHHHHHHHHHHS-TTH CS
             E1-E2_ATPase 145 a.eallralallvaaiPcaL 163
                              +  a+++   ++va iP aL
  PHY93_03975|PHY93_03975 630 IlSAVIFNALVIVALIPLAL 649
                              13444444556677777776 PP

>> Hydrolase_3  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.0      0.33   1.2e+03      20      58 ..     460     498 ..     453     501 .. 0.85
   2 !   19.7   0.5   1.6e-07   0.00057     206     242 ..     520     556 ..     510     562 .. 0.88

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.33
                              HHHHHHHHHHTTSEEEEE-SS-HHHHHHHHHHCCCCSEE CS
              Hydrolase_3  20 tkeaikklkekgikvviATGRslravlpvleelgldlpv 58 
                              + e +++l++ gi  v  TG ++ ++  ++ e g+d ++
  PHY93_03975|PHY93_03975 460 INERFAELRKMGIRTVMITGDNPLTAAAIAAEAGVDDFL 498
                              56778899********************99999998765 PP

  == domain 2  score: 19.7 bits;  conditional E-value: 1.6e-07
                              EEEEESSGGGHHHHHHSSEEEEETTS-HHHHHHSSEE CS
              Hydrolase_3 206 viafGDgeNDieMLeaaglgvAmgnaseevkkaAdyv 242
                              v+  GDg ND + L +a++gvAm+ +++ +k+a ++v
  PHY93_03975|PHY93_03975 520 VAMTGDGTNDAPALAQADVGVAMNTGTQAAKEAGNMV 556
                              6778****************************98876 PP

>> HAD  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0       1.5   5.4e+03     131     160 ..     374     402 ..     360     415 .. 0.81
   2 !   18.2   0.0   7.1e-07    0.0025      83     187 ..     453     533 ..     444     534 .. 0.73

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 1.5
                      HAD 131 elevddrltgelglegkpvrgegkvaalre 160
                              +le+   +t++ +++g ++ ++gk++++r+
  PHY93_03975|PHY93_03975 374 QLEFI-PFTAQTRMSGIDITENGKITSIRK 402
                              55555.7999999************99998 PP

  == domain 2  score: 18.2 bits;  conditional E-value: 7.1e-07
                      HAD  83 pklldpgalellaahraaGdrvvvvSgglrplvepllaelgadevlatelevddrltgelglegkpvrgegkvaalrewlaaegeg 168
                              + + +pg+ e++a+ r+ G+r+v+++g +   + +++ae g+d++la         t e            k+a++re  ++++  
  PHY93_03975|PHY93_03975 453 KDIVKPGINERFAELRKMGIRTVMITGDNPLTAAAIAAEAGVDDFLAQ-------ATPE-----------MKLARIRE--EQAK-- 516
                              44678************************************8888887.......3333...........23455666..1112.. PP

                      HAD 169 idleevvay.GDspsDlpll 187
                                 + +va  GD+ +D p+l
  PHY93_03975|PHY93_03975 517 --GH-LVAMtGDGTNDAPAL 533
                              ..22.344447777777765 PP

>> DUF759  Borrelia burgdorferi protein of unknown function (DUF759)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   1.7e-05     0.061     264     346 ..     516     598 ..     505     615 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 1.7e-05
                   DUF759 264 kavnsvlggdgselfdllkksgvgdkyiedakmawqsgaqvdldsritkmmemfkdfksfgltkkvnnaesiqsnlasaeqtl 346
                              k     + gdg++    l ++ vg      ++ a ++g  vdlds  tk++e+ +  k + +t+    + s+  ++a     l
  PHY93_03975|PHY93_03975 516 KGHLVAMTGDGTNDAPALAQADVGVAMNTGTQAAKEAGNMVDLDSNPTKLIEIVETGKQLLMTRGALTTFSVANDVAKYFAIL 598
                              555567899**************************************************999998888888877777655555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (693 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       614  (0.0342462); expected 358.6 (0.02)
Passed bias filter:                      391  (0.0218082); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.67u 0.24s 00:00:00.91 Elapsed: 00:00:00.43
# Mc/sec: 4855.72
//
Query:       PHY93_03980|PHY93_03980  [L=182]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.8e-63  212.6   0.0    4.3e-63  212.5   0.0    1.0  1  KdpC      K+-transporting ATPase, c chain


Domain annotation for each model (and alignments):
>> KdpC  K+-transporting ATPase, c chain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  212.5   0.0   2.4e-67   4.3e-63       3     182 .]       6     182 .]       4     182 .] 0.92

  Alignments for each domain:
  == domain 1  score: 212.5 bits;  conditional E-value: 2.4e-67
                              HHHHHHHHHHHHHHTHHHHHHHHHHHHH-HHHHTT-EEE.ETEEEEETTT------SSS--------ST-TTT-------SS-HHH CS
                     KdpC   3 kalrlllvltvllgliYplavtgiaqllfpeqAnGslieadgkvvGseligqeftsdkYfhgRpsavnynaaasggsnlgpsnpel 88 
                              + l+++l+++vl+g++Ypl++t+i+q++f+++AnGsli+++gkvvGsel++qef++++Yf++Rpsa+ny+ ++s++snl+p++++l
  PHY93_03980|PHY93_03980   6 NNLKIFLFFIVLTGIAYPLFITVISQAIFKDEANGSLITKNGKVVGSELLAQEFKRKQYFWPRPSAANYDSTSSAASNLSPDSKAL 91 
                              67899********************************************************************************* PP

                              HHHHHHHHHHHHHH-TTS..-SB-HHHHS-BSSS---EE-HHHHHHTHHHHHHHHT--H...HHHHHHHHHTEE--SSTTT---EE CS
                     KdpC  89 lerveervaalraenpekkkeevPadlvtaSgSGLDPhIspeaAelQvarvakarglse...eeveklvaentegrllgilGeprV 171
                               e++++r+ a       +   +   dl++aSgSGLDPhIsp +Ae Q++r+a+ar+l++   ee++kl+ +nte+r++g+lG +r+
  PHY93_03980|PHY93_03980  92 NETIAKRAVANG----LD--IKSNDDLLYASGSGLDPHISPISAERQIDRIAEARHLDArkiEELKKLIVDNTESRQFGVLGRKRI 171
                              ****99987665....22..23458*******************************98711245678899**************** PP

                              EHHHHHHHHHH CS
                     KdpC 172 nVlklNlaLdk 182
                              nVlklNl+Ldk
  PHY93_03980|PHY93_03980 172 NVLKLNLELDK 182
                              *********95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (182 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       543  (0.0302861); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1382.10
//
Query:       PHY93_03985|PHY93_03985  [L=885]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.2e-90  302.5   0.2    2.5e-90  301.5   0.2    1.6  1  KdpD         Osmosensitive K+ channel His kinase sensor domai
    7.5e-20   71.5   0.1    2.9e-19   69.6   0.0    2.0  2  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    7.2e-16   57.9   6.9    1.2e-15   57.2   6.9    1.3  1  DUF4118      Domain of unknown function (DUF4118)
    2.1e-13   50.1   0.4    5.4e-13   48.8   0.4    1.7  1  HisKA        His Kinase A (phospho-acceptor) domain
    5.2e-05   23.6   0.0    0.00014   22.2   0.0    1.8  1  GAF_3        GAF domain
      0.001   19.3   0.0     0.0023   18.2   0.0    1.6  1  GAF_2        GAF domain
      0.002   17.9   0.0     0.0057   16.5   0.0    1.8  1  HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like
      0.009   16.5   0.5        0.4   11.2   0.1    2.8  1  Usp          Universal stress protein family
  ------ inclusion threshold ------
      0.023   14.6   0.0      0.055   13.4   0.0    1.6  1  HATPase_c_2  Histidine kinase-like ATPase domain
      0.049   14.3   0.0       0.12   13.0   0.0    1.6  1  GAF          GAF domain
      0.062   13.3   2.1       0.65   10.0   0.1    2.8  3  ResIII       Type III restriction enzyme, res subunit


Domain annotation for each model (and alignments):
>> KdpD  Osmosensitive K+ channel His kinase sensor domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  301.5   0.2   1.6e-93   2.5e-90       2     210 .]      25     233 ..      24     233 .. 0.99

  Alignments for each domain:
  == domain 1  score: 301.5 bits;  conditional E-value: 1.6e-93
                     KdpD   2 rGrlkiflGaapGvGktyamLeeaqelkeegvdvviglvethgrketeallegleviprkeveykgkeleeldldailarkpevvl 87 
                              rG ++if+G++pGvGktyamL +aqe+++ g++v++g+vethgr et+++legl+vip+k+++y+++ l eld+d+il+ kp++vl
  PHY93_03985|PHY93_03985  25 RGAFRIFFGMCPGVGKTYAMLGAAQEQHKLGKQVIVGVVETHGRIETDKMLEGLTVIPKKRISYRETVLFELDIDKILESKPDIVL 110
                              9************************************************************************************* PP

                     KdpD  88 vDelahtnapgsrhekryqdveelLeagidVittvnvqhleslndvvekitgvrvretvPdevleeAdevelvDltpeeLlerLke 173
                              +Delah+napgsrh+kryqdv e+L+agi+V+tt+nvqh+es +d+v++itg++vretvPd++ + Ad+vel+Dl+p+eL++rLke
  PHY93_03985|PHY93_03985 111 IDELAHSNAPGSRHNKRYQDVMEILDAGISVYTTLNVQHIESRADIVQQITGIQVRETVPDSLWDLADQVELIDLSPQELIKRLKE 196
                              ************************************************************************************** PP

                     KdpD 174 gkvykkekaeralknffrkgnLtaLRelaLrrvAdrv 210
                              gkvy  +ka ra +nff+++ L+aLRe++Lr +A++v
  PHY93_03985|PHY93_03985 197 GKVYLGDKAARAEENFFKEAYLIALREISLRFTAEKV 233
                              **********************************997 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0       7.3   1.2e+04       3      20 ..     656     673 ..     655     691 .. 0.77
   2 !   69.6   0.0   1.8e-22   2.9e-19       4     109 ..     772     876 ..     769     878 .. 0.90

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 7.3
                              HHHHHHHHHHHHHHHHHH CS
                HATPase_c   3 ekrLrqiisnlvdNavkf 20 
                              +++L+q + n v++ +++
  PHY93_03985|PHY93_03985 656 SEKLHQTLLNSVSHEMRI 673
                              568999999999987765 PP

  == domain 2  score: 69.6 bits;  conditional E-value: 1.8e-22
                              HHHHHHHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCH..HCSTCHTSTSSSHHHHHHHHHHHH CS
                HATPase_c   4 krLrqiisnlvdNavkfatkageieveikaseddlvisveDnGiGipkedlkklfekfsq..ddstkrggggtGlGlsivkklvel 87 
                                L++++ nl+ Na+ ++ ++++i++ei+  e+++ i+v D G+Gip+++l+++f+kf++       +  gg+GlGlsivk +ve 
  PHY93_03985|PHY93_03985 772 LLLEHALMNLLLNAIAYSEENSTITIEIELVEEKINIRVIDQGKGIPEDKLDLIFDKFYRlpG----SPAGGVGLGLSIVKGIVEA 853
                              5699*************8899********9778***************************531....4479*************** PP

                              TTTEEEEEEET.TTEEEEEEEEE CS
                HATPase_c  88 mgGeiwvesep.grGttftftlp 109
                              ++G++  +++  ++G  ft++lp
  PHY93_03985|PHY93_03985 854 HNGRVFGHNRVdQQGAVFTIELP 876
                              ***99997777799*****9997 PP

>> DUF4118  Domain of unknown function (DUF4118)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.2   6.9   7.2e-19   1.2e-15       2     102 ..     400     500 ..     399     505 .. 0.95

  Alignments for each domain:
  == domain 1  score: 57.2 bits;  conditional E-value: 7.2e-19
                  DUF4118   2 llavlllalatllallldkllslanivllfllavllvallgglgpgllaallsvllfnyfftpPyftltiadpeylltlvvflvva 87 
                              + ++ +l+++t+++l+l+++++ + + +l+l+ v++v ++  lgp l+aa+ ++l+++y+f+pP+f+++i++ e+ +  + f++v+
  PHY93_03985|PHY93_03985 400 FYTLYFLIMVTIISLFLNPYIGYRAVGFLYLMSVIVVGFRSTLGPILFAAFSGALIWDYVFIPPLFAFRINEVEDRMMCLSFVLVG 485
                              567788999********999999*************************************************************** PP

                  DUF4118  88 llvstlvararrqar 102
                              +l + l+ + ++++r
  PHY93_03985|PHY93_03985 486 VLSGFLARKTKTKER 500
                              *********999887 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.8   0.4   3.3e-16   5.4e-13       4      67 .]     662     727 ..     660     727 .. 0.96

  Alignments for each domain:
  == domain 1  score: 48.8 bits;  conditional E-value: 3.3e-16
                              HHHHHHHHHHHHHHHHHHHHHHHHHC....T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH CS
                    HisKA   4 rflagvaHELrtPLsailgnaeaLkre..gklteelkeyletiesearrldhlvedlLdlsrieag 67 
                               +l +v+HE+r PL++i+g ++aL++e  ++++e+ k + + ++++ +rl++++e+lLd+ r+ +g
  PHY93_03985|PHY93_03985 662 TLLNSVSHEMRIPLTSIMGSVSALQDEkiQNYPEKIKLLNQELIDSCQRLNRVIENLLDMNRLSSG 727
                              6899**********************************************************9876 PP

>> GAF_3  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.2   0.0   8.9e-08   0.00014      53     129 .]     568     640 ..     526     640 .. 0.73

  Alignments for each domain:
  == domain 1  score: 22.2 bits;  conditional E-value: 8.9e-08
                    GAF_3  53 dsalarralssgevvsepsfaeedglpdraalavPLvagrqviGvlalastkprafdaedlelleslArqiataier 129
                              + ala + ++ + ++   ++  +++l  ++ l +PL+++ + +G+l+++ + ++ ++ ed+ ll+s++ q+a+a+e+
  PHY93_03985|PHY93_03985 568 EFALALWSFDNKKPA---GWS-TQTLSESHCLSIPLIVPGKILGILLFYPDMKKTLSLEDENLLNSICLQLANALEH 640
                              445666666666553...332.456777888999****99**********99999********************96 PP

>> GAF_2  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.0   1.4e-06    0.0023      80     138 .]     581     639 ..     567     639 .. 0.87

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 1.4e-06
                              HHHHHHHHHTT--EEEEEE-TTS---EEEEES......--HHHHHHHHHHHHHHHHHHH CS
                    GAF_2  80 kkglpaghaglrsflavPlisegrvvGvlnlyankppafdeedlelLeelaeqiaiaie 138
                              + g+  +     ++l++Pli  g+++G+l +y + + +++ ed  lL++++ q+a a+e
  PHY93_03985|PHY93_03985 581 PAGWSTQTLSESHCLSIPLIVPGKILGILLFYPDMKKTLSLEDENLLNSICLQLANALE 639
                              55666667778899*******779*******9888889*******************97 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   3.5e-06    0.0057       4      52 ..     775     824 ..     772     833 .. 0.78

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 3.5e-06
              HATPase_c_3   4 ekAlaelvdNsldAdaen....vkievnknrgktgeivieDdGkGmseeelkn 52 
                              e Al+ l+ N++  + en    ++ie+ +   ++ +i++ D GkG++e++l+ 
  PHY93_03985|PHY93_03985 775 EHALMNLLLNAIAYSEENstitIEIELVE---EKINIRVIDQGKGIPEDKLDL 824
                              78**********98888855334444444...568**************9875 PP

>> Usp  Universal stress protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.2   0.1   0.00024       0.4       2     114 ..     253     348 ..     252     364 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00024
                              -SEEEEEE-SSHHHHHHHHHHHHHHHHCTSEEEEEEEEESSHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCTTCEEEEEEE CS
                      Usp   2 ykrIlVavDgseeskkAlewAlelakargaelillhvidprasgavsdadeeaeeeeleleeaeleadaakaaaeaggvkvevvve 87 
                              ++r +Vav +s++s+k+++ A ++a + +a+ i++h+    + ++ +++        + + +a                 +++ + 
  PHY93_03985|PHY93_03985 253 NERLMVAVSHSPHSTKLIRAARRMAFSLEAPWIAVHIDNGLRLSQFDQSTLFQNINLARELGA-----------------EVISLY 321
                              5799********************************988887776666555555554444444.................445555 PP

                              ESSHHHHHHHHHHHTTSSEEEEESCCS CS
                      Usp  88 egdpaeeilevaeeedadliVvGsrgr 114
                              + d   ++++va e+++  i++G+  r
  PHY93_03985|PHY93_03985 322 DSDIVAALNRVALEKNVTQIILGRPER 348
                              555555555555555555555555555 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   3.4e-05     0.055      39     112 ..     781     854 ..     740     874 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 3.4e-05
              HATPase_c_2  39 actNavehayleapegpvevrlesdeealtvevaDsGpgfdpe...tlpdpteeepkeslkegGrGlalikglvDev 112
                              ++ Na+ +  ++    ++++++e  ee++ ++v D+G+g +      + d+    p  ++   G+Gl ++kg+v+  
  PHY93_03985|PHY93_03985 781 LLLNAIAYSEEN---STITIEIELVEEKINIRVIDQGKGIPEDkldLIFDKFYRLPGSPAGGVGLGLSIVKGIVEAH 854
                              578999888874...679999999*************9955540113344444455889999999999999999865 PP

>> GAF  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   7.2e-05      0.12      89     133 .]     593     638 ..     577     638 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 7.2e-05
                              EEEEEEEEETTEEEEEEEEEE..SSSCSHHHHHHHHHHHHHHHHHHH CS
                      GAF  89 sslvvPlvndgelwGllvlhn..psppftreelellqvladqvaval 133
                               +l++Pl++ g+++G+l ++   +++  + e+++ll +++ q+a+al
  PHY93_03985|PHY93_03985 593 HCLSIPLIVPGKILGILLFYPdmKKT-LSLEDENLLNSICLQLANAL 638
                              69*******************85555.9****************997 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.1    0.0004      0.65      17      54 ..      19      57 ..       9      67 .. 0.72
   2 ?    1.7   0.0      0.14   2.3e+02     128     159 ..     101     137 ..      62     144 .. 0.78
   3 ?   -3.4   0.1       5.1   8.3e+03      93     114 ..     657     681 ..     628     716 .. 0.48

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.0004
                             .......TTSEEEEEESTTSTHHHHHHHHHHHH-S.... CS
                   ResIII 17 eklks.krdkrglikmaTGtGKTlvaaklierllkkgke 54
                             e++k+ ++  r+++ m  G+GKT+ ++ ++++ +k gk+
  PHY93_03985|PHY93_03985 19 EEIKNnRGAFRIFFGMCPGVGKTYAMLGAAQEQHKLGKQ 57
                             34443344559*******************999987663 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.14
                              HHTTT-SEEEEETGGGTTS......TTTHHHHHT--- CS
                   ResIII 128 llrdrfdviiiDEaHrlgak.....kswreilekfke 159
                               l+++ d+++iDE  +++a      k ++ ++e +++
  PHY93_03985|PHY93_03985 101 ILESKPDIVLIDELAHSNAPgsrhnKRYQDVMEILDA 137
                              5667778***********9877766699999887766 PP

  == domain 3  score: -3.4 bits;  conditional E-value: 5.1
                              -B--..........-SEEEEEHHHH CS
                   ResIII  93 kkka...kekdstnkkilvttiqsl 114
                              +k +    ++ s++++i +t+i   
  PHY93_03985|PHY93_03985 657 EKLHqtlLNSVSHEMRIPLTSIMGS 681
                              2222233334455555555544443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (885 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       798  (0.0445089); expected 358.6 (0.02)
Passed bias filter:                      470  (0.0262145); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.76u 0.26s 00:00:01.02 Elapsed: 00:00:00.46
# Mc/sec: 5746.56
//
Query:       PHY93_03990|PHY93_03990  [L=224]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    8.2e-27   93.6   0.4    1.2e-26   93.1   0.4    1.2  1  Response_reg  Response regulator receiver domain
    1.6e-20   72.9   0.3    3.4e-20   71.9   0.3    1.6  1  Trans_reg_C   Transcriptional regulatory protein, C terminal
  ------ inclusion threshold ------
       0.12   10.3   0.0       0.14   10.0   0.0    1.1  1  Nup188        Nucleoporin subcomplex protein binding to Pom34
       0.12   12.7   0.2       0.18   12.2   0.2    1.4  1  FleQ          Flagellar regulatory protein FleQ


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   93.1   0.4   2.6e-30   1.2e-26       1     111 [.       4     112 ..       4     113 .. 0.98

  Alignments for each domain:
  == domain 1  score: 93.1 bits;  conditional E-value: 2.6e-30
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseeeda 86 
                              +l++dD+  +r+llr  le ++y ++ eae+++e ++++ ee++ +illD+ +p+ +Gl+++ke+r+ + ++p+i+lt +++++d+
  PHY93_03990|PHY93_03990   4 ILVIDDENSIRKLLRVSLEANNY-QIIEAENAQEGIQKIIEERPEIILLDLGLPDKNGLTVIKEVRQWS-STPIIVLTVQDSDQDK 87 
                              89*********************.999****************************************88.**************** PP

                              HHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  87 vealkagaddflsKpfdpeeLlkal 111
                              +eal+ gadd+++K f++ eLl ++
  PHY93_03990|PHY93_03990  88 IEALDGGADDYITKSFSIPELLVRI 112
                              *********************9887 PP

>> Trans_reg_C  Transcriptional regulatory protein, C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   71.9   0.3   7.7e-24   3.4e-20       2      77 .]     147     222 ..     146     222 .. 0.98

  Alignments for each domain:
  == domain 1  score: 71.9 bits;  conditional E-value: 7.7e-24
                              EEEE-SHHHHHHHHHHHHTTTSEEEHHHHHHHHTTTTSTSHTHHHHHHHHHHHHHHHTTTTSSSSEEEETTTEEEE CS
              Trans_reg_C   2 eeveltpkefklLelLlenpgrvvsreeLleevwgededvddrtvdvhisrLRkkLeddekkprlIetvrgvGYrl 77 
                              ++++lt++ef++L++L++++grvv++  Ll+evwg ++    + ++v+  +LRkkL+ +++ ++lI t  gvGYrl
  PHY93_03990|PHY93_03990 147 QPIKLTATEFDILKVLIRYKGRVVTHRVLLNEVWGPNSVEHVHYLRVYLGNLRKKLKSETSVEELISTEAGVGYRL 222
                              79********************************************************99999***********97 PP

>> Nup188  Nucleoporin subcomplex protein binding to Pom34
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.0   3.1e-05      0.14     742     838 ..      35     146 ..      12     170 .. 0.65

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 3.1e-05
                   Nup188 742 eekvtkvlssaaecilslfltedsvvragqsllniiesgsdnlesielsdis........gqlydqliqlslslanllisirssln 819
                              +e ++k+++++ e il  +  +    ++g ++++ +   s++ + +++ + s        +   d  i +s+s+ +ll++ir  l+
  PHY93_03990|PHY93_03990  35 QEGIQKIIEERPEIILLDLGLP---DKNGLTVIKEVRQWSSTPIIVLTVQDSdqdkiealDGGADDYITKSFSIPELLVRIRVALR 117
                              5555666666666555444444...356666666666666665555555555566666665567899******************9 PP

                   Nup188 820 ..........lspSplEkaLfsqspkLVd 838
                                         +  plE+ L  ++ k+ +
  PHY93_03990|PHY93_03990 118 httpqeqgpvFKCGPLEMDLAAHVVKIDS 146
                              86555555554555******999777533 PP

>> FleQ  Flagellar regulatory protein FleQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.2   4.1e-05      0.18       1      83 [.       3      87 ..       3     120 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 4.1e-05
                     FleQ  1 kiLvidddaerrrdletiLeFlgeeveavsseel...saaleesssealavilgsvs.sleealealaekdphlPvlllgesdea.ee 83
                             kiLvidd+++ r+ l + Le    ++++++ e++    ++  e++ e++++ lg  + +  + ++++ +++ + P+++l+ +d++ ++
  PHY93_03990|PHY93_03990  3 KILVIDDENSIRKLLRVSLEA--NNYQIIEAENAqegIQKIIEERPEIILLDLGLPDkNGLTVIKEVRQWS-STPIIVLTVQDSDqDK 87
                             7*******************6..555556555554478888899999999999998867777888887776.5688888877776333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (224 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       432  (0.024095); expected 358.6 (0.02)
Passed bias filter:                      380  (0.0211947); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.48
# Mc/sec: 1393.14
//
Query:       PHY93_03995|PHY93_03995  [L=640]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.4e-19   69.0  42.0      5e-19   68.4  42.0    1.3  1  AA_permease_2  Amino acid permease
  ------ inclusion threshold ------
      0.079   12.4   0.1        0.3   10.5   0.1    2.0  1  SKG6           Transmembrane alpha-helix domain


Domain annotation for each model (and alignments):
>> AA_permease_2  Amino acid permease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.4  42.0   5.6e-23     5e-19      15     422 ..      42     470 ..      27     485 .. 0.72

  Alignments for each domain:
  == domain 1  score: 68.4 bits;  conditional E-value: 5.6e-23
            AA_permease_2  15 igsgifvkn.........laasggpalilwvwiavligslavllvyaElssalprsgGiyvytkaafgkkvaflsawfnwfayvpv 91 
                              ++s  +++          ++ +   +l + ++i+ l+ +l++++    +++  p+ gG+y ++k   g+ +a +++ +++++y+++
  PHY93_03995|PHY93_03995  42 LSSVAYATQeillilaiaGVSAFHLSLPIAGVIILLLAILTMSYRQTIFAY--PDGGGAYIVAKDNLGEGAAQTAGAALLMDYILT 125
                              444444444455432111122333334555555555555666666555566..********************************* PP

            AA_permease_2  92 lasilsvaasyllnalgpdlqgntwltyliaiaililvalinirgikesakiqnilgilkillpliiliilglitvdgggfssl.. 175
                              +a+++s+++  +++++ p+l +++   + +  +++ + +++n+rg+kes+++  + +++ + ++  + + +gl+  +++g   +  
  PHY93_03995|PHY93_03995 126 VAVSISSGTDQIVSVF-PNLLPHQ---VTLCLGLIGFMMIMNLRGVKESGTAFAFPTYFFV-IVSSFTVGFGLWK-SFNGTLMAvq 205
                              **************76.9998876...444469****************************.7888888666666.5566666644 PP

            AA_permease_2 176 .stetdtffpngwpg....vllgllivlwsfdGfesaanvseevkk...kdvpkaifigllivlvlyllvniaflgvvpddeianl 253
                               +   + + ++  p+    +l++++  + +++G+e+++n  +  k+   k++  ++++++li ++l+l+++ +++ +     + + 
  PHY93_03995|PHY93_03995 206 gV---EMIKTTLQPLtmflILRAFSSGCTALTGVEAISNGITAFKEprsKNAANTMVFMGLILGFLFLGITYLSVHI---HALPSD 285
                              42...33444555542114699*****************99997754367888888888888888888886665543...333332 PP

            AA_permease_2 254 snlgsvaalffeavggkvvaiivvilialsllgaintavigssrvlealardgvlPrffakvn.kfgspiraiiltaivslillll 338
                              s+++ + +l  + +g++++  +++++++++l+ a+nt ++  +r+    a dg+lPr +   + +    +++i+l++    +l+  
  PHY93_03995|PHY93_03995 286 SETI-ISQLARAIYGKGIMYNLLMAGTTIILIMAANTSYADFPRLCALHAGDGFLPRQLTYKSgRLVFSWGIIFLSVSAG-ALI-- 367
                              2323.244555555666****************************************99999856555555555555555.544.. PP

            AA_permease_2 339 fllassaaynfllsvsslgliisyllliigalilrkk..rphlkr.....................pgki.lvaiigalfllfllv 400
                              f++  +a  ++l  ++++g++ s++l  +g+++ + k  +    +                     +++  +++++ga+ + ++++
  PHY93_03995|PHY93_03995 368 FIF--NAHTSALIPLYAIGVFMSFTLSQFGMVVRWQKigK----KllnstykhvsngqeeahhlqgWRFKqMINLLGAIASGLVMA 447
                              455..5678*******************998865544222....223333334555556677777655534799999999999999 PP

            AA_permease_2 401 alffppkgpatqssliyt.iilt 422
                              ++++   ++ ++ ++++   +++
  PHY93_03995|PHY93_03995 448 IFAITKFTSGAWVTVFLIpAMVW 470
                              98876555556666666544444 PP

>> SKG6  Transmembrane alpha-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.1   3.4e-05       0.3      19      36 ..      69      86 ..      68      88 .. 0.94

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 3.4e-05
                     SKG6 19 PVaViiivLlailifvrR 36
                             P+a +ii+Llail + +R
  PHY93_03995|PHY93_03995 69 PIAGVIILLLAILTMSYR 86
                             9**************999 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (640 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       886  (0.0494171); expected 358.6 (0.02)
Passed bias filter:                      422  (0.0235373); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.66u 0.29s 00:00:00.95 Elapsed: 00:00:00.44
# Mc/sec: 4363.31
//
Query:       PHY93_17265|PHY93_17265  [L=620]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.6e-68  227.4   0.0    1.8e-67  226.2   0.0    1.6  1  APS_kinase       Adenylylsulphate kinase
    5.3e-42  143.6   0.0    9.5e-42  142.7   0.0    1.4  1  GTP_EFTU         Elongation factor Tu GTP binding domain
    8.4e-10   38.7   0.3      2e-07   31.1   0.0    3.3  3  MMR_HSR1         50S ribosome-binding GTPase
    1.2e-08   35.2   0.0    2.6e-08   34.1   0.0    1.5  1  GTP_EFTU_D3      Elongation factor Tu C-terminal domain
    1.5e-08   35.2   0.2    1.7e-07   31.8   0.1    2.3  2  AAA_18           AAA domain
    8.2e-07   29.3   0.0    1.4e-05   25.3   0.0    2.3  2  AAA_33           AAA domain
    3.3e-06   27.1   2.7       0.36   10.7   0.1    4.1  3  RsgA_GTPase      RsgA GTPase
    2.8e-05   24.7   0.2     0.0016   19.0   0.0    2.6  2  ABC_tran         ABC transporter
    3.1e-05   23.8   0.0     0.0001   22.1   0.0    1.8  2  SWI2_SNF2        SWI2/SNF2 ATPase
    4.5e-05   22.8   0.0    9.3e-05   21.8   0.0    1.5  1  Zeta_toxin       Zeta toxin
    6.9e-05   22.8   0.3       0.83    9.5   0.0    3.2  3  dNK              Deoxynucleoside kinase
    0.00018   21.7   0.3       0.95    9.7   0.1    3.4  2  Roc              Ras of Complex, Roc, domain of DAPkinase
     0.0007   19.3   0.8       0.13   12.0   0.2    2.7  2  AAA_29           P-loop containing region of AAA domain
    0.00075   19.8   0.2        0.2   11.9   0.0    2.7  2  AAA_22           AAA domain
     0.0023   17.5   0.4       0.65    9.6   0.0    3.2  3  cobW             CobW/HypB/UreG, nucleotide-binding domain
     0.0032   17.8   0.0       0.01   16.2   0.0    1.9  1  GTP_EFTU_D2      Elongation factor Tu domain 2
     0.0033   17.2   0.1       0.52   10.1   0.0    3.2  3  ATP_bind_1       Conserved hypothetical ATP binding protein
     0.0047   16.4   1.6        1.6    8.2   0.0    3.1  4  SRPRB            Signal recognition particle receptor beta su
     0.0051   17.2   0.1       0.66   10.4   0.0    2.8  2  RNA_helicase     RNA helicase
      0.008   16.0   0.5       0.13   12.1   0.5    2.5  1  CPT              Chloramphenicol phosphotransferase-like prot
     0.0091   15.5   0.3        0.3   10.6   0.2    3.0  2  FeoB_N           Ferrous iron transport protein B
  ------ inclusion threshold ------
      0.012   15.6   0.1          3    7.9   0.0    2.7  2  AAA_14           AAA domain
      0.016   14.7   0.0      0.036   13.5   0.0    1.7  1  KTI12            Chromatin associated protein KTI12
      0.021   13.8   0.2        1.4    7.8   0.0    2.8  3  MeaB             Methylmalonyl Co-A mutase-associated GTPase 
      0.023   14.3   0.1       0.55    9.8   0.0    2.5  2  SRP54            SRP54-type protein, GTPase domain
      0.026   14.3   0.1       0.43   10.3   0.0    2.7  3  CLP1_P           mRNA cleavage and polyadenylation factor CLP
      0.029   13.7   0.3         17    4.7   0.0    3.1  3  AIG1             AIG1 family
      0.029   14.7   0.0       0.41   11.0   0.0    2.3  2  AAA_16           AAA ATPase domain
      0.031   14.4   0.4       0.13   12.4   0.1    2.2  2  DUF87            Helicase HerA, central domain
      0.036   14.5   0.0       0.11   12.9   0.0    1.9  1  AAA_17           AAA domain
      0.037   14.1   0.7        6.1    6.9   0.1    2.5  2  CbiA             CobQ/CobB/MinD/ParA nucleotide binding domai
      0.052   13.5   0.0       0.27   11.1   0.0    2.2  2  Rad17            Rad17 P-loop domain
      0.054   13.2   0.0       0.43   10.3   0.0    2.2  2  AAA_24           AAA domain
      0.064   13.0   0.0       0.14   11.9   0.0    1.5  1  PRK              Phosphoribulokinase / Uridine kinase family
       0.11   12.2   0.0       0.32   10.6   0.0    1.8  1  Thymidylate_kin  Thymidylate kinase


Domain annotation for each model (and alignments):
>> APS_kinase  Adenylylsulphate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  226.2   0.0   3.4e-70   1.8e-67       1     154 [.     444     596 ..     444     599 .. 0.98

  Alignments for each domain:
  == domain 1  score: 226.2 bits;  conditional E-value: 3.4e-70
                              S-EEEEEESSTTSSHHHHHHHHHHHHHHTT--EEEEEHHHHTTTTTTT--SSHHHHHHHHHHHHHHHHHHHHTT-EEEEE----SH CS
               APS_kinase   1 rgvvvwltGlsgsGKstianalekkLvekgisvylLdGdnvRhgLnkdLgfseedRkenirrvaevaklladaglivlvafisPyr 86 
                              +g+v+wltGlsg+GKstia+ lek+L+e++++ ++LdGdn+R+g++kdLgfs+ dRkenirr+aev+kl+ad+g+++++a+isP++
  PHY93_17265|PHY93_17265 444 QGAVLWLTGLSGAGKSTIAKILEKRLFEMNTHSVVLDGDNLRKGICKDLGFSAVDRKENIRRTAEVSKLIADSGAVAIAALISPFK 529
                              689*********************************************************************************** PP

                              HHHHHHHHHHHCHTEEEEEEEE--HHHHHHHTTTSHHHHHHTTSSSSHTTTSS-----SS-SEEEETT CS
               APS_kinase  87 eeReaarelleealkfievfvdtplevceerDpkglYkkareGeikeftGidspYeaPenpelvvdtd 154
                              ++Re ar+l++++ +fievfvd++le+ce+rD kglYkkar+Geik+ftGids+YeaP+++e+++d++
  PHY93_17265|PHY93_17265 530 SDREIARKLMNDK-SFIEVFVDCSLEECERRDTKGLYKKARTGEIKGFTGIDSKYEAPTTAEIIIDSN 596
                              ***********95.***************************************************975 PP

>> GTP_EFTU  Elongation factor Tu GTP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  142.7   0.0   1.8e-44   9.5e-42       5     182 ..      13     194 ..      10     288 .. 0.88

  Alignments for each domain:
  == domain 1  score: 142.7 bits;  conditional E-value: 1.8e-44
                              EEEEEESTTSSHHHHHHHHHHHTTSSCHHHHHH..HHHST.............HCHSHHHHHHTSCSSCEEEEEETTCSSEEEEEE CS
                 GTP_EFTU   5 nigiighvDhGKtTLtdrLlyktgaiskkgeka..eeerv.............lDtlkeErergiTiksaaisleketkkylinli 75 
                               i+i+ghvDhGK+TL++rLl ++g+i +++ ++  +   +             lD  +eE++ giTi+ + i  +  ++ +++ +i
  PHY93_17265|PHY93_17265  13 RIVIAGHVDHGKSTLVGRLLSDSGQIFQERIEKvkK---IcessgkqfefaflLDAFEEEQKEGITIDKTEIPWS--YQGKEFLII 93 
                              799*************************88777531...23556778899*************************..********* PP

                              EESSSGGGHHHHHHHHHT-SEEEEEEETTTBSTHHHHHHHHHHHHTTTE.EEEEEESCGST...HHHHHHHHHHHHHHHHHHHHHH CS
                 GTP_EFTU  76 DtPGHvdFskevirglrvlDgavlvvdaveGvepqteevlrlalkegvp.iivfiNKmDrl...kaelkeiveevkqklsrkeekl 157
                              DtPGH++F k++i g++++++a++++da+eGv +q +++++++  +g++ iiv+iNKmD +   ++ ++++ +e+   +       
  PHY93_17265|PHY93_17265  94 DTPGHKEFLKNMISGASTAEIALIMLDAKEGVREQFKRHAYIVGMLGIKnIIVVINKMDLVnysQTHFEKLEREALAIF------- 172
                              *************************************************************777777777777777666....... PP

                              HHHHHTTTTTEEEEEEBTTTTBTHH CS
                 GTP_EFTU 158 ekygekgekevpvvfgSalkgegvk 182
                              ++ + k     +++++Sa+ ge++ 
  PHY93_17265|PHY93_17265 173 NELKIK---AAHIIPVSAFAGENLL 194
                              333334...4689999999999865 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.1   0.0     4e-10     2e-07       1     114 []      13     150 ..      13     150 .. 0.73
   2 ?    3.4   0.0      0.15        77       4      21 ..     450     467 ..     447     480 .. 0.80
   3 ?   -1.8   0.0       6.2   3.2e+03      47      67 ..     555     580 ..     518     614 .. 0.64

  Alignments for each domain:
  == domain 1  score: 31.1 bits;  conditional E-value: 4e-10
                              EEEEEESTTSSHHHHHHHHHT..............................STEEESSSTTSSSSEEEEEEEETTEEEEEEECGGC CS
                 MMR_HSR1   1 evaivGrpNvGKStLinaltg..............................ekaivsdkpgtTrdinegrvklkgkeielvDtpGl 56 
                              +++i+G+   GKStL+ +l+                               ++ + ++k g T+d +e+ ++++gke+ ++DtpG 
  PHY93_17265|PHY93_17265  13 RIVIAGHVDHGKSTLVGRLLSdsgqifqeriekvkkicessgkqfefafllDAFEEEQKEGITIDKTEIPWSYQGKEFLIIDTPG- 97 
                              699*****************555555556666666677777777877666557899*****************************. PP

                              SSHHHHHHHHHHHHHHHHCTSEEEEEEETT...TTCSHHHHHHHHHHHHHTTSEEEEEEES CS
                 MMR_HSR1  57 iegaseekglgkaflaleeadlillvvdas...eeklkpldeeleelleeakkplilvlnk 114
                               +    ++ l++ +     a+++l+++da+   +e++k+    +  +l    k++i+v+nk
  PHY93_17265|PHY93_17265  98 -H----KEFLKNMISGASTAEIALIMLDAKegvREQFKRH-AYIVGML--GIKNIIVVINK 150
                              .4....345666667677799*******883332233333.2233333..34678888887 PP

  == domain 2  score: 3.4 bits;  conditional E-value: 0.15
                              EEESTTSSHHHHHHHHHT CS
                 MMR_HSR1   4 ivGrpNvGKStLinaltg 21 
                              + G + +GKSt+ + l +
  PHY93_17265|PHY93_17265 450 LTGLSGAGKSTIAKILEK 467
                              78*********9887755 PP

  == domain 3  score: -1.8 bits;  conditional E-value: 6.2
                              EEEEEECGGCSSHHHHHH.....HHH CS
                 MMR_HSR1  47 eielvDtpGliegaseek.....glg 67 
                              e+e  Dt Gl+++a++++     g+ 
  PHY93_17265|PHY93_17265 555 ECERRDTKGLYKKARTGEikgftGID 580
                              45566888888744444432223333 PP

>> GTP_EFTU_D3  Elongation factor Tu C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.1   0.0   5.1e-11   2.6e-08       6     109 ..     317     418 ..     312     420 .. 0.86

  Alignments for each domain:
  == domain 1  score: 34.1 bits;  conditional E-value: 5.1e-11
                              CCEEEEEEESSS..SS-BSTT-EEEEESSS-EEEEEEEEEEECCSSTTSB-BS.S-SSCCSTT-CEEEEEEECCEEEE--TTTHCC CS
              GTP_EFTU_D3   6 tkfeAqvyilekerhtpitagYrpvlyirtadvtgkvveLlskldkktekvse.kkpefvkpGdnvivevelikpialekgseypq 90 
                              ++++A++  ++  ++ ++ ++Y+  + + t + ++k++++ +  +++t +v++ +++  + pG++++v ++ +k i+++ + ++++
  PHY93_17265|PHY93_17265 317 HQMHASLFWMSN-KQLELGKNYK--FKMLTQESECKIESIFKVFNPQTFGVESnTESLTLGPGEAAEVIIKFQKNIVCDAFLDFEN 399
                              566677777776.6778888887..777899****************99985535667789************************* PP

                              CCEEEEECTTCEEEEEEEE CS
              GTP_EFTU_D3  91 lGrFaiReggrTvaaGvvt 109
                               GrF + +  r v+ Gvv 
  PHY93_17265|PHY93_17265 400 TGRFVLLDDHRIVGGGVVL 418
                              *****************96 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.9   0.0       1.2   6.1e+02       1      25 [.      14      43 ..      14     131 .. 0.57
   2 !   31.8   0.1   3.4e-10   1.7e-07       2     120 ..     449     570 ..     448     576 .. 0.88

  Alignments for each domain:
  == domain 1  score: 0.9 bits;  conditional E-value: 1.2
                   AAA_18  1 IlltGtpGvGKttlakeL.skrlgf....g 25
                             I+++G    GK+tl  +L s+++++     
  PHY93_17265|PHY93_17265 14 IVIAGHVDHGKSTLVGRLlSDSGQIfqerI 43
                             778888888999987666455543333331 PP

  == domain 2  score: 31.8 bits;  conditional E-value: 3.4e-10
                   AAA_18   2 lltGtpGvGKttlakeLskrl.gf....gvnlrdvakenglllevdpealdeskrldedkldklldaleenssaleegknlvidgh 82 
                              +ltG +G+GK+t+ak L+krl ++    +v  +d+++++ + +  + +     +++++ +++++++++  +       + + i  +
  PHY93_17265|PHY93_17265 449 WLTGLSGAGKSTIAKILEKRLfEMnthsVVLDGDNLRKGICKDLGFSA---VDRKENIRRTAEVSKLIADS-------GAVAIAAL 524
                              69******************98889**99999************9999...77777888877888888885.......6789**** PP

                   AAA_18  83 laeleseaakdikk........vvLtaspeelleRlekRgyeeaki 120
                              ++ + s++ + +k         v++++s ee+ +R  k  y++a++
  PHY93_17265|PHY93_17265 525 ISPFKSDREIARKLmndksfieVFVDCSLEECERRDTKGLYKKART 570
                              ****999999988899******************988877777665 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.5   0.0      0.58     3e+02       4      25 ..      16      40 ..      14     140 .. 0.85
   2 !   25.3   0.0   2.7e-08   1.4e-05       1     116 [.     447     561 ..     447     572 .. 0.74

  Alignments for each domain:
  == domain 1  score: 1.5 bits;  conditional E-value: 0.58
                   AAA_33  4 lvGlpGsGKstlaerllkklg...a 25
                             + G+   GKstl+ rll   g    
  PHY93_17265|PHY93_17265 16 IAGHVDHGKSTLVGRLLSDSGqifQ 40
                             5667777*********988775544 PP

  == domain 2  score: 25.3 bits;  conditional E-value: 2.7e-08
                   AAA_33   1 lvllvGlpGsGKstlaerllkklg.....avllssdtlrrrlfgtdqqsktdytrvldrlyqilnelarkalsagrnvildatnls 81 
                              +++l Gl+G+GKst a+ l k+l       v+l+ d+lr+ ++++   s  d+++   r+ +   +l+   + +g+ +i  a ++s
  PHY93_17265|PHY93_17265 447 VLWLTGLSGAGKSTIAKILEKRLFemnthSVVLDGDNLRKGICKDLGFSAVDRKENIRRTAEVS-KLI---ADSGAVAI--AALIS 526
                              67899************998888888889**************988888877666666666554.444...33444444..34444 PP

                   AAA_33  82 ..rrerarflklarrlgvpvrivvvetdeetlkeRla 116
                                +++r+  +kl ++ +  +  v+v+++ e++++R  
  PHY93_17265|PHY93_17265 527 pfKSDREIARKLMNDKS--FIEVFVDCSLEECERRDT 561
                              22466666666666445..677999999999999875 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.2   0.1    0.0084       4.3      97     123 ..       9      45 ..       3     104 .. 0.69
   2 ?    5.5   0.0     0.028        14      37      70 ..     131     166 ..     106     191 .. 0.72
   3 !   10.7   0.1    0.0007      0.36      98     129 ..     444     476 ..     418     487 .. 0.77

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.0084
                              CTTSEEEEECSTTSSHHHHHHHHCTT..........- CS
              RsgA_GTPase  97 lkdktsvlvGqSGvGKStLinallpe..........l 123
                              l+   +v++G+   GKStL+ +ll++          +
  PHY93_17265|PHY93_17265   9 LSYTRIVIAGHVDHGKSTLVGRLLSDsgqifqerieK 45 
                              55567899***************99844444443330 PP

  == domain 2  score: 5.5 bits;  conditional E-value: 0.028
                              HHHHHHHHTT-.EEEEEEE-GGG--HHH.HHHHHHH CS
              RsgA_GTPase  37 rfLvlaeekgi.epvivlnKiDlleeee.eleelke 70 
                              r   ++   gi ++++v+nK+Dl++ ++ ++e+l+ 
  PHY93_17265|PHY93_17265 131 RHAYIVGMLGIkNIIVVINKMDLVNYSQtHFEKLER 166
                              55555555667467889*******998854444444 PP

  == domain 3  score: 10.7 bits;  conditional E-value: 0.0007
                              TTSEEEEECSTTSSHHHHHHHHCTT-.----S- CS
              RsgA_GTPase  98 kdktsvlvGqSGvGKStLinallpel.elktge 129
                              ++ +  l G SG+GKSt+ + l  +l e++t++
  PHY93_17265|PHY93_17265 444 QGAVLWLTGLSGAGKSTIAKILEKRLfEMNTHS 476
                              568899*************99988654666655 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.0      0.46   2.3e+02      12      33 ..      12      33 ..       9      65 .. 0.73
   2 !   19.0   0.0   3.1e-06    0.0016      10      51 ..     444     486 ..     439     541 .. 0.79

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.46
                             SEEEEEESTTSSHHHHHHHHTT CS
                             xxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran 12 ekvaivGenGaGKStLlkllag 33
                             ++++i G+   GKStL+  l+ 
  PHY93_17265|PHY93_17265 12 TRIVIAGHVDHGKSTLVGRLLS 33
                             578999*********9865544 PP

  == domain 2  score: 19.0 bits;  conditional E-value: 3.1e-06
                              TTSEEEEEESTTSSHHHHHHHHTTSS.--SEEEEEETTCEGGG CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxx RF
                 ABC_tran  10 egekvaivGenGaGKStLlkllagll.kpteGeilldgkdlke 51 
                              +g ++ ++G +GaGKSt++k+l + l + +  ++ ldg++l++
  PHY93_17265|PHY93_17265 444 QGAVLWLTGLSGAGKSTIAKILEKRLfEMNTHSVVLDGDNLRK 486
                              79999*****************976515577778888888877 PP

>> SWI2_SNF2  SWI2/SNF2 ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       6.8   3.5e+03      49      75 ..     141     167 ..     132     175 .. 0.77
   2 !   22.1   0.0   1.9e-07    0.0001      17     142 ..     442     569 ..     425     592 .. 0.78

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 6.8
                SWI2_SNF2  49 npkvvvvtDRkdLdkQlsktfakagee 75 
                               ++++vv+ + dL +  +++f+k+++e
  PHY93_17265|PHY93_17265 141 IKNIIVVINKMDLVNYSQTHFEKLERE 167
                              567889999999988888888877665 PP

  == domain 2  score: 22.1 bits;  conditional E-value: 1.9e-07
                SWI2_SNF2  17 drkgGviWHt..qGSGKsltmvflakklleeelknpkvvvvtDRkdLdkQlsktfakageekpkqaesrkeLkellekesekiift 100
                               ++g v+W t   G+GKs    +l k+l e  +   +  vv D ++L k + k +  +  ++++++++++e+ +l++++ +  i +
  PHY93_17265|PHY93_17265 442 GHQGAVLWLTglSGAGKSTIAKILEKRLFE--M--NTHSVVLDGDNLRKGICKDLGFSAVDRKENIRRTAEVSKLIADSGAVAIAA 523
                              478999**9955699***999999999998..4..4555778***********988777666779***********8888888999 PP

                SWI2_SNF2 101 tiqKfeeeekeklevlsereniivlvD....EaHRsqygelakklr 142
                              +i  f+++++ + + +++++ i v+vD    E+ R  +++l kk r
  PHY93_17265|PHY93_17265 524 LISPFKSDREIARKLMNDKSFIEVFVDcsleECERRDTKGLYKKAR 569
                              *****988776779999999999***96666777777666655544 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.8   0.0   1.8e-07   9.3e-05      17      75 ..     446     505 ..     433     517 .. 0.79

  Alignments for each domain:
  == domain 1  score: 21.8 bits;  conditional E-value: 1.8e-07
               Zeta_toxin  17 klillgGqpGAGKselaellkdele.rqgnvvrldpDdlRelhPeyeeilkadpkkasel 75 
                              +++ l G +GAGKs++a+ l+++l  ++   v+ld+D+lR+ + +  +  + d k++ + 
  PHY93_17265|PHY93_17265 446 AVLWLTGLSGAGKSTIAKILEKRLFeMNTHSVVLDGDNLRKGICKDLGFSAVDRKENIRR 505
                              567799******************999*************98766666555565555555 PP

>> dNK  Deoxynucleoside kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.9   0.0    0.0048       2.4       1      34 [.      14      49 ..      14      76 .. 0.69
   2 !    9.5   0.0    0.0016      0.83       4      28 ..     451     474 ..     448     486 .. 0.84
   3 ?    1.5   0.0      0.43   2.2e+02     126     155 ..     546     583 ..     530     586 .. 0.80

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.0048
                             EEEEESTTSSHHHHHHHHHCCST..CEEEE-HHHHC CS
                      dNK  1 ivveGnIgaGKstlvklLskklg..vkvfeEpvdkw 34
                             iv+ G +  GKstlv +L    g  ++   E v+k 
  PHY93_17265|PHY93_17265 14 IVIAGHVDHGKSTLVGRLLSDSGqiFQERIEKVKKI 49
                             89*************966555532444444444444 PP

  == domain 2  score: 9.5 bits;  conditional E-value: 0.0016
                              EESTTSSHHHHHHHHHCCSTCEEEE CS
                      dNK   4 eGnIgaGKstlvklLskklgvkvfe 28 
                               G  gaGKst++k+L+k+l +++ +
  PHY93_17265|PHY93_17265 451 TGLSGAGKSTIAKILEKRL-FEMNT 474
                              6889*************99.77655 PP

  == domain 3  score: 1.5 bits;  conditional E-value: 0.43
                              EEEEE--HHHHHHH....HHHCTTCCCT....TS-HHH CS
                      dNK 126 liYLkasletcler....ikkRgreeek....kieldY 155
                               +++++sle+c++r    ++k++r+ e     +i+ +Y
  PHY93_17265|PHY93_17265 546 EVFVDCSLEECERRdtkgLYKKARTGEIkgftGIDSKY 583
                              489*********99888899999999986666666666 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.7   0.1    0.0019      0.95      26     119 ..      68     152 ..      13     153 .. 0.68
   2 ?    2.9   0.0      0.23   1.2e+02       4      31 ..     450     477 ..     448     499 .. 0.85

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.0019
                              -EEETTTTEEEEEEECGGSGGCTTBTTTTCEEEEEEEE-SGGCTTTT-HHHHCTSCEEEEEEEGHHH.HCHHHHHHHHHHHCSSS- CS
                      Roc  26 ekekstigvdfltkevtkikgvendkkvkkvklniWDtaGqerfrslhplylreaalailvydsrss.enlkeWlkelkkvagksp 110
                              e++k+            +i+++e  ++ +  ++ i Dt G+++f + + +  + a++a++++d+++  ++  +    +  + g ++
  PHY93_17265|PHY93_17265  68 EEQKE----------GITIDKTEIPWSYQGKEFLIIDTPGHKEFLKNMISGASTAEIALIMLDAKEGvREQFKRHAYIVGMLGIKN 143
                              33333..........23344444445555567899999999999998889999999999999966542555566777888888899 PP

                              EEEEEE-TT CS
                      Roc 111 vilvgnkiD 119
                              +i+v+nk+D
  PHY93_17265|PHY93_17265 144 IIVVINKMD 152
                              999999998 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.23
                              EESSTTSSHHHHHHCHCT-CCC-EEETT CS
                      Roc   4 lvGdsgvGKtsllkrfvedkfsekekst 31 
                              l G sg+GK++++k + ++ f+ +++s 
  PHY93_17265|PHY93_17265 450 LTGLSGAGKSTIAKILEKRLFEMNTHSV 477
                              7899**********99999998777664 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.0     0.048        25      25      39 ..      14      28 ..       5      32 .. 0.86
   2 !   12.0   0.2   0.00026      0.13      17      38 ..     439     461 ..     433     463 .. 0.84

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.048
                   AAA_29 25 tlltGpsGsGKSTll 39
                             ++++G+   GKSTl+
  PHY93_17265|PHY93_17265 14 IVIAGHVDHGKSTLV 28
                             689**********98 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 0.00026
                   AAA_29  17 ieidlkg.atlltGpsGsGKSTl 38 
                               ++  +g +  ltG sG+GKST+
  PHY93_17265|PHY93_17265 439 TRFGHQGaVLWLTGLSGAGKSTI 461
                              56777888889***********8 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.0   0.1     0.053        27       8      71 ..      14     118 ..      10     183 .. 0.64
   2 !   11.9   0.0   0.00039       0.2       5      61 ..     445     493 ..     440     522 .. 0.74

  Alignments for each domain:
  == domain 1  score: 5.0 bits;  conditional E-value: 0.053
                   AAA_22   8 lvvtGesGtGKTtllrrlleqldeeakaee.erpevvfvtlpsstsskdl.lrellralglelka..................... 70 
                              +v+ G++  GK+tl+ rll+   + +     er e v+  + ss+  k++ +  ll a+++e+k+                     
  PHY93_17265|PHY93_17265  14 IVIAGHVDHGKSTLVGRLLSDSGQ-I---FqERIEKVKKICESSG--KQFeFAFLLDAFEEEQKEgitidkteipwsyqgkeflii 93 
                              78999999**********998632.2...1367777777777777..556568888888887777777777777777777777777 PP

                   AAA_22  71 ........................e 71 
                                                       
  PHY93_17265|PHY93_17265  94 dtpghkeflknmisgastaeialiM 118
                              5444444444444444444444432 PP

  == domain 2  score: 11.9 bits;  conditional E-value: 0.00039
                   AAA_22   5 agilvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsstsskdllrell 61 
                                +l +tG sG+GK+t ++ l ++l         +  + +v l +++ +k ++++l 
  PHY93_17265|PHY93_17265 445 GAVLWLTGLSGAGKSTIAKILEKRLF--------EMNTHSVVLDGDNLRKGICKDLG 493
                              567889****************9994........66666666666666666666664 PP

>> cobW  CobW/HypB/UreG, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.0      0.41   2.1e+02       3      23 ..      14      34 ..      12      44 .. 0.86
   2 !    9.6   0.0    0.0013      0.65     104     173 ..     104     175 ..      63     178 .. 0.81
   3 ?    2.7   0.0      0.17        85       2      17 ..     447     462 ..     446     480 .. 0.80

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.41
                             EEEEESTTCCHHHHHHHHHCT CS
                     cobW  3 tvltGflGsGKTtLlnhllen 23
                             +v++G +  GK+tL+ +ll++
  PHY93_17265|PHY93_17265 14 IVIAGHVDHGKSTLVGRLLSD 34
                             7999*************9965 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 0.0013
                              HHHHHCCCECEEEEEEETTTH.CCHCCHHHHHHHHHHTSSEE.EEE-HHHHCHC...HHHHHHHHHHHHTTS CS
                     cobW 104 eelksdltldavvavvDaknleaeeekieekaedqlaaadll.vlnKtDlldee.allekleerlrqlnpea 173
                              + ++ + t+++ + ++Dak+  +e+ k +  +  +l   +++ v+nK+Dl++++ +  ekle+++ ++ +e+
  PHY93_17265|PHY93_17265 104 NMISGASTAEIALIMLDAKEGVREQFKRHAYIVGMLGIKNIIvVINKMDLVNYSqTHFEKLEREALAIFNEL 175
                              556667777888889999998888888888888899888865279*********888899998887776655 PP

  == domain 3  score: 2.7 bits;  conditional E-value: 0.17
                              EEEEEESTTCCHHHHH CS
                     cobW   2 vtvltGflGsGKTtLl 17 
                              v+ ltG  G+GK+t+ 
  PHY93_17265|PHY93_17265 447 VLWLTGLSGAGKSTIA 462
                              6789*********964 PP

>> GTP_EFTU_D2  Elongation factor Tu domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0     2e-05      0.01       4      39 ..     242     272 ..     239     293 .. 0.82

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 2e-05
                              EEEEEEESEEETTEEEEEEC.TCTTSEEEEEEEEEEE CS
              GTP_EFTU_D2   4 algrvysGtlkkGdevrilg.ndtskkeivtrissle 39 
                                g+v+sG l +Gde+++l+  +   +   +ri+s+e
  PHY93_17265|PHY93_17265 242 YAGKVESGSLSVGDEIKFLPsGS---T---SRIKSIE 272
                              5699**************66444...4...8888887 PP

>> ATP_bind_1  Conserved hypothetical ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0         2     1e+03       1      17 [.      16      32 ..      16      41 .. 0.87
   2 !   10.1   0.0     0.001      0.52      90     179 ..      87     165 ..      72     236 .. 0.76
   3 ?    2.9   0.0      0.16        81       2      33 ..     451     480 ..     450     484 .. 0.79

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 2
               ATP_bind_1  1 vvGpaGsGKttfvgals 17
                             ++G++  GK+t+vg+l 
  PHY93_17265|PHY93_17265 16 IAGHVDHGKSTLVGRLL 32
                             6799999******9985 PP

  == domain 2  score: 10.1 bits;  conditional E-value: 0.001
               ATP_bind_1  90 eddyllfDtPGQielfthseslakiveeLesefalvvvyLvDsqrltdptkfisgllsalsamlrlel.PhvvvlnkfDllkek.l 173
                               +++l++DtPG  e+ + + s+a        + a +++ ++D++      +f  +      ++ +l++   +vv+nk+Dl++ + +
  PHY93_17265|PHY93_17265  87 GKEFLIIDTPGHKEFLKNMISGA--------STAEIALIMLDAKEGVR-EQFKRH----AYIVGMLGIkNIIVVINKMDLVNYSqT 159
                              4689*******************........88889999999887666.566666....2233334441578899*****883333 PP

               ATP_bind_1 174 ekelef 179
                              ++e   
  PHY93_17265|PHY93_17265 160 HFEKLE 165
                              333322 PP

  == domain 3  score: 2.9 bits;  conditional E-value: 0.16
               ATP_bind_1   2 vGpaGsGKttfvgalseilelrgrsvavvNLD 33 
                              +G  G+GK+t+ + l + l +   + + v LD
  PHY93_17265|PHY93_17265 451 TGLSGAGKSTIAKILEKRLFEM--NTHSVVLD 480
                              6999*********999999888..44444454 PP

>> SRPRB  Signal recognition particle receptor beta subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.3   0.0     0.011       5.8       4      31 ..      12      39 ..      10      62 .. 0.76
   2 !    8.2   0.0     0.003       1.6      36      69 ..      78     108 ..      49     153 .. 0.72
   3 ?   -3.2   0.0       9.2   4.7e+03       8      26 ..     450     468 ..     446     477 .. 0.73
   4 ?   -2.8   0.1       7.2   3.7e+03      85     129 ..     495     537 ..     495     546 .. 0.67

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.011
                             -EEEEE-STTSSHHHHHHHHHHSS---B CS
                    SRPRB  4 pavllvGlsdsGKTslftrLttdsvkkt 31
                              +++++G  d GK +l  rL++ds +  
  PHY93_17265|PHY93_17265 12 TRIVIAGHVDHGKSTLVGRLLSDSGQIF 39
                             5799******************975544 PP

  == domain 2  score: 8.2 bits;  conditional E-value: 0.003
                              S-EEETTG...GGTT-SEEEETT-GCCSHHHHHH CS
                    SRPRB  36 essaalkvksekgskltliDfPGheklrqkllek 69 
                              ++++  ++   +g+++ +iD PGh+++ ++++  
  PHY93_17265|PHY93_17265  78 KTEIPWSY---QGKEFLIIDTPGHKEFLKNMISG 108
                              45555555...9**************99988877 PP

  == domain 3  score: -3.2 bits;  conditional E-value: 9.2
                              EE-STTSSHHHHHHHHHHS CS
                    SRPRB   8 lvGlsdsGKTslftrLttd 26 
                              l Gls +GK ++ + L + 
  PHY93_17265|PHY93_17265 450 LTGLSGAGKSTIAKILEKR 468
                              7899999999988777655 PP

  == domain 4  score: -2.8 bits;  conditional E-value: 7.2
                              TTS-HH.HHHHHHHHHHHHHHHHHHHTT---EEEEEE-TTSTT--- CS
                    SRPRB  85 Stidpk.evkevAEllyeilliteklkdavdiliACnKqelflaks 129
                              S++d k +++ +AE    i+        a+  li   K++  +a++
  PHY93_17265|PHY93_17265 495 SAVDRKeNIRRTAEVSKLIADSG---AVAIAALISPFKSDREIARK 537
                              66776635888888755444333...35777888888888888875 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.9   0.0      0.14        71       1      27 [.      14      47 ..      14     136 .. 0.66
   2 !   10.4   0.0    0.0013      0.66       1      24 [.     448     471 ..     448     486 .. 0.84

  Alignments for each domain:
  == domain 1  score: 3.9 bits;  conditional E-value: 0.14
             RNA_helicase  1 iwlyGpsgeGKStlakeLakallkkl.......k 27
                             i++ G+   GKStl+ +L ++  + +       k
  PHY93_17265|PHY93_17265 14 IVIAGHVDHGKSTLVGRLLSDSGQIFqeriekvK 47
                             688999999******9998887754444444440 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 0.0013
             RNA_helicase   1 iwlyGpsgeGKStlakeLakallk 24 
                              +wl+G sg GKSt+ak L k+l +
  PHY93_17265|PHY93_17265 448 LWLTGLSGAGKSTIAKILEKRLFE 471
                              6****************9998873 PP

>> CPT  Chloramphenicol phosphotransferase-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.1   0.5   0.00026      0.13       2     128 ..     446     561 ..     445     569 .. 0.69

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00026
                              -EEEEEE-TTSSHHHHHHHHHHHSSS-EEEEEHHHHHHHS-GGGGTSTTSEEEETTSEEE-HHHHHHHHHHHHHHHHHHHTT-EEE CS
                      CPT   2 riilLnGgsssGKsslaralqevldepwlhlgvDafvealppkrqdeadglefeteleeigpeldlllaalyeavaamaraGnnvi 87 
                               ++ L G s +GKs++a++l + l e    +++ + v    + r+   ++l f+++    + +++++++      + +a+ G+  i
  PHY93_17265|PHY93_17265 446 AVLWLTGLSGAGKSTIAKILEKRLFE----MNTHSVVLDGDNLRKGICKDLGFSAVDR--KENIRRTAE----VSKLIADSGAVAI 521
                              67889************999877644....4444444333333333445666665555..445555443....3456788998888 PP

                              EEE--TTTHHHHHHHHHHHTTS-EEEEEEE--HHHHHHHHH CS
                      CPT  88 vDdvilekewlvdllrrllsgldvllVGvrcplevlerRel 128
                              +   i   +   +++r+l+++  ++ V v c+le+ erR++
  PHY93_17265|PHY93_17265 522 AAL-ISPFKSDREIARKLMNDKSFIEVFVDCSLEECERRDT 561
                              873.333333589999***********************97 PP

>> FeoB_N  Ferrous iron transport protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.0      0.82   4.2e+02       2      21 ..      13      32 ..      12      39 .. 0.84
   2 !   10.6   0.2   0.00059       0.3      32     123 ..      73     159 ..      70     195 .. 0.62

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.82
                             EEEEEESTTSSHHHHHHHHH CS
                   FeoB_N  2 tvalvGnpnvGkttlfnalt 21
                             +++++G  + Gk+tl+ +l 
  PHY93_17265|PHY93_17265 13 RIVIAGHVDHGKSTLVGRLL 32
                             6899***********98875 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 0.00059
                              TSSSEEEEEEEEETTEEEEEEE----SSS.SSSSHHHHHHHHHHHCTSSSEEEEEEEGGGHHHHHHHHHHHHHTTSSEEEEEETHH CS
                   FeoB_N  32 GvtvekkegklklkgkeveivDlPGiYsl.sayseeekvardflleeepdvvvnvvdatnlernLyLtlqllelgvpvvlalnmid 116
                              G+t++k+e   +++gke+ i+D PG  ++ +++ +  + a+  l+  +++  v     ++++r+ y++   l + +++++++n++d
  PHY93_17265|PHY93_17265  73 GITIDKTEIPWSYQGKEFLIIDTPGHKEFlKNMISGASTAEIALIMLDAKEGV----REQFKRHAYIVGM-LGI-KNIIVVINKMD 152
                              9************************8665222222222222222222222222....2345555554432.222.45666667777 PP

                              HHHHTTE CS
                   FeoB_N 117 eaekkgi 123
                               ++ +++
  PHY93_17265|PHY93_17265 153 LVNYSQT 159
                              6666555 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.9   0.0      0.05        25       5      71 ..      14      94 ..      10     113 .. 0.68
   2 ?    7.9   0.0    0.0058         3       3      43 ..     446     486 ..     444     514 .. 0.76

  Alignments for each domain:
  == domain 1  score: 4.9 bits;  conditional E-value: 0.05
                   AAA_14  5 lvitGaRrvGKTtllkqlikell.vkkesilyinldderdkkladpekllelileklke.............ekktylflD 71
                             +vi G    GK+tl+ +l++++  + +e+i  ++   e+  k+ +++ ll+++ e+ ke             ++k++l++D
  PHY93_17265|PHY93_17265 14 IVIAGHVDHGKSTLVGRLLSDSGqIFQERIEKVKKICESSGKQFEFAFLLDAFEEEQKEgitidkteipwsyQGKEFLIID 94
                             789999999*********999887666666666666555555555544556665553223444444555555555555555 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.0058
                   AAA_14   3 kilvitGaRrvGKTtllkqlikellvkkesilyinldderd 43 
                               +l +tG+  +GK+t++k l k+l+  + + + ++ d+ r+
  PHY93_17265|PHY93_17265 446 AVLWLTGLSGAGKSTIAKILEKRLFEMNTHSVVLDGDNLRK 486
                              6899************8777766665566666666666554 PP

>> KTI12  Chromatin associated protein KTI12
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0     7e-05     0.036       5      58 ..     449     505 ..     446     589 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 7e-05
                              EEE--TTSSHHHHHHHHHHHHHHTT--EEEE-THHHH...TTSS.S--GGGHHHHHH CS
                    KTI12   5 vltGlPssGKstrakeLakaleeekrsvvviddeslg..iekds.ykdsakekalRs 58 
                               ltGl  +GKst+ak L+k l e + + vv+d + l+  i kd  +    + +++R 
  PHY93_17265|PHY93_17265 449 WLTGLSGAGKSTIAKILEKRLFEMNTHSVVLDGDNLRkgICKDLgFSAVDRKENIRR 505
                              58****************************998888765333323555555555554 PP

>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0       1.1   5.8e+02      31      50 ..      13      32 ..      10      49 .. 0.81
   2 ?    2.2   0.0      0.14        72     163     216 ..     136     191 ..      88     225 .. 0.72
   3 ?    7.8   0.0    0.0027       1.4      29      58 ..     445     474 ..     427     483 .. 0.80

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 1.1
                             EEEEEE-TTSSHHHHHHHHH CS
                     MeaB 31 vvGltGvPGaGkstlvealg 50
                             ++ + G    Gkstlv +l 
  PHY93_17265|PHY93_17265 13 RIVIAGHVDHGKSTLVGRLL 32
                             7889999999******9985 PP

  == domain 2  score: 2.2 bits;  conditional E-value: 0.14
                              CCCHHH-SEE.EEE---HHHHHHHH..HHHHHHHHHCSTTBTTB--EEEEEBCCCTB CS
                     MeaB 163 kGileiaDii.vvnkaDkkeaekaa..relraaleleeekekeWrpkvlktsavege 216
                               G+l i +ii v+nk D+ + ++++  +  r al + +e  k   ++++ +sa  ge
  PHY93_17265|PHY93_17265 136 VGMLGIKNIIvVINKMDLVNYSQTHfeKLEREALAIFNEL-KIKAAHIIPVSAFAGE 191
                              5888898875268****66655543103345555555443.3335566666666665 PP

  == domain 3  score: 7.8 bits;  conditional E-value: 0.0027
                              SEEEEEEE-TTSSHHHHHHHHHHHHHCTT- CS
                     MeaB  29 aqvvGltGvPGaGkstlvealglelrrrGk 58 
                                v+ ltG+ GaGkst+ + l  +l +  +
  PHY93_17265|PHY93_17265 445 GAVLWLTGLSGAGKSTIAKILEKRLFEMNT 474
                              56889************9999998877655 PP

>> SRP54  SRP54-type protein, GTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.0      0.31   1.6e+02      81     105 ..      85     109 ..      42     151 .. 0.80
   2 ?    9.8   0.0    0.0011      0.55       3      52 ..     447     496 ..     445     526 .. 0.81

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.31
                              HTTSSEEEEEE--SSTTHHHHHHHH CS
                    SRP54  81 eekidvvlvDTaGrlqndkelmeel 105
                               ++ +++++DT G+ +  k++++  
  PHY93_17265|PHY93_17265  85 YQGKEFLIIDTPGHKEFLKNMISGA 109
                              457799********99988888655 PP

  == domain 2  score: 9.8 bits;  conditional E-value: 0.0011
                              EEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEEESTSSTTHHHHHHHHH CS
                    SRP54   3 villvGlqGaGKTttlaKLaallkkegkkvllvaaDtfRaaAveQLktla 52 
                              v+ l Gl GaGK t +  L ++l +++++ ++   D  R + ++ L   a
  PHY93_17265|PHY93_17265 447 VLWLTGLSGAGKSTIAKILEKRLFEMNTHSVVLDGDNLRKGICKDLGFSA 496
                              67899********99999999999999999999******99888886665 PP

>> CLP1_P  mRNA cleavage and polyadenylation factor CLP1 P-loop
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.0       1.3   6.7e+02       1      15 [.      18      32 ..      18      35 .. 0.84
   2 ?   -1.3   0.0       3.2   1.6e+03     102     113 ..      87      98 ..      81     135 .. 0.77
   3 ?   10.3   0.0   0.00084      0.43       3      32 ..     454     483 ..     452     511 .. 0.87

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 1.3
                   CLP1_P  1 GpkdsGKSTlarlLl 15
                             G++d GKSTl+  Ll
  PHY93_17265|PHY93_17265 18 GHVDHGKSTLVGRLL 32
                             899*******86665 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 3.2
                   CLP1_P 102 kasgliIntpGw 113
                              ++++liI+tpG 
  PHY93_17265|PHY93_17265  87 GKEFLIIDTPGH 98 
                              578899***995 PP

  == domain 3  score: 10.3 bits;  conditional E-value: 0.00084
                   CLP1_P   3 kdsGKSTlarlLlNyalrkgrkpvyvDlDv 32 
                              + +GKST+a++L  ++++++   v++D D 
  PHY93_17265|PHY93_17265 454 SGAGKSTIAKILEKRLFEMNTHSVVLDGDN 483
                              679************************995 PP

>> AIG1  AIG1 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.9   0.1      0.46   2.3e+02       2      41 ..      13      52 ..      12      58 .. 0.79
   2 ?    4.7   0.0     0.033        17      25      59 ..      65      98 ..      62     126 .. 0.78
   3 ?    4.0   0.0     0.053        27       5      31 ..     450     475 ..     447     487 .. 0.84

  Alignments for each domain:
  == domain 1  score: 0.9 bits;  conditional E-value: 0.46
                             EEEEESSTTSSHHHHHHHHHTS..--SS--TTTS---SS-EE CS
                     AIG1  2 tivlvGktgnGkSaTgNsilgk..kaFesklsaqsvtkkcqk 41
                             +iv+ G    GkS+ +  +l +  ++F+ ++  ++v k c++
  PHY93_17265|PHY93_17265 13 RIVIAGHVDHGKSTLVGRLLSDsgQIFQERI--EKVKKICES 52
                             8*************99999987224688886..777777776 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.033
                             -SS--TTTS---SS-EEEEEEETTEEEEEEE--SC CS
                     AIG1 25 aFesklsaqsvtkkcqkksrtwdgkkinViDTPgl 59
                             aFe + +++++t   ++  ++ +gk+  +iDTPg 
  PHY93_17265|PHY93_17265 65 AFEEE-QKEGITIDKTEIPWSYQGKEFLIIDTPGH 98
                             67777.78999999999999*************95 PP

  == domain 3  score: 4.0 bits;  conditional E-value: 0.053
                              EESSTTSSHHHHHHHHHTS--SS--TT CS
                     AIG1   5 lvGktgnGkSaTgNsilgkkaFeskls 31 
                              l G +g+GkS T+  il+k+ Fe +++
  PHY93_17265|PHY93_17265 450 LTGLSGAGKS-TIAKILEKRLFEMNTH 475
                              7899*****8.8999*******99864 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.0      0.96   4.9e+02      27      46 ..      14      33 ..       7      93 .. 0.69
   2 ?   11.0   0.0    0.0008      0.41      23      52 ..     444     473 ..     432     550 .. 0.72

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.96
                   AAA_16 27 vllsGesGvGKsslvrellr 46
                             +++ G+   GKs+lv +ll 
  PHY93_17265|PHY93_17265 14 IVIAGHVDHGKSTLVGRLLS 33
                             567777778******99985 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.0008
                   AAA_16  23 rpelvllsGesGvGKsslvrellralekdg 52 
                              ++ ++ l+G sG GKs++++ l ++l + +
  PHY93_17265|PHY93_17265 444 QGAVLWLTGLSGAGKSTIAKILEKRLFEMN 473
                              447899*************99998887763 PP

>> DUF87  Helicase HerA, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0       7.3   3.7e+03      35      45 ..      23      33 ..      22      35 .. 0.89
   2 ?   12.4   0.1   0.00025      0.13      30      59 ..     452     480 ..     448     483 .. 0.92

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 7.3
                    DUF87 35 GKSntvavLle 45
                             GKS++v+ Ll+
  PHY93_17265|PHY93_17265 23 GKSTLVGRLLS 33
                             9******9986 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 0.00025
                    DUF87  30 gsTGsGKSntvavLleellekkgatililD 59 
                              g +G+GKS+ +++L ++l  +++++ ++lD
  PHY93_17265|PHY93_17265 452 GLSGAGKSTIAKILEKRLF-EMNTHSVVLD 480
                              668****************.*********9 PP

>> AAA_17  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   0.00022      0.11       1      59 [.     451     511 ..     451     561 .. 0.70

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 0.00022
                              EE-TTSSHHHHHHHHHHHH....TEEEEEHHHHHHHHHHTT.TS..HSSHHHHCTSHHHHHHHHHH CS
                   AAA_17   1 lGgPGsGKgtqceklveky....gfthlsaGdllreeakrg.gl..akardemrklpleekkelqk 59 
                              +G+ G+GK+t+++ l +++      +++  Gd lr+ + ++ g   ++ ++++r+  ++      k
  PHY93_17265|PHY93_17265 451 TGLSGAGKSTIAKILEKRLfemnTHSVVLDGDNLRKGICKDlGFsaVDRKENIRRTAEVS-----K 511
                              69**********777776676654555666*****7665553642244444454444333.....3 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.9   0.1     0.012       6.1      73     108 ..     132     171 ..      15     187 .. 0.78
   2 ?    5.3   0.1     0.038        19       6      37 ..     452     483 ..     447     529 .. 0.88

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.012
                              H..........EEEEEEEEESS...-TTCHHHHHHHHHHCTS-E CS
                              x........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     CbiA  73 l........lkiagvvlnrvdgeneetllkealeelkqrygvpv 108
                              +        +k + vv+n+ d  n+++ + e le++       +
  PHY93_17265|PHY93_17265 132 HayivgmlgIKNIIVVINKMDLVNYSQTHFEKLEREAL----AI 171
                              233344555889**********************9853....33 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.038
                              SSTTSSHHHHHHHHHHHHHHTT--EEEEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     CbiA   6 tkGGvGKTtlaanLaralarrglrVllvDaDp 37 
                              + +G+GK+t+a  L + l + + + +++D D+
  PHY93_17265|PHY93_17265 452 GLSGAGKSTIAKILEKRLFEMNTHSVVLDGDN 483
                              669********999999999999999999886 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0       5.5   2.8e+03      48      81 ..      14      47 ..       2      69 .. 0.75
   2 ?   11.1   0.0   0.00053      0.27      45      69 ..     443     469 ..     421     500 .. 0.81

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 5.5
                    Rad17 48 LLisGPsGCgkstvvkvLskelgiklrewlnpvs 81
                             ++i+G    gkst v  L    g  ++e +  v+
  PHY93_17265|PHY93_17265 14 IVIAGHVDHGKSTLVGRLLSDSGQIFQERIEKVK 47
                             5688888899999999998888988888888775 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 0.00053
                    Rad17  45 kr..iLLisGPsGCgkstvvkvLskel 69 
                              ++  +L ++G sG gkst+ k+L k l
  PHY93_17265|PHY93_17265 443 HQgaVLWLTGLSGAGKSTIAKILEKRL 469
                              33669*******************987 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.0   0.0       1.2   5.9e+02       3      22 ..      12      31 ..      10      41 .. 0.87
   2 ?   10.3   0.0   0.00084      0.43       3      31 ..     446     474 ..     444     491 .. 0.80

  Alignments for each domain:
  == domain 1  score: 0.0 bits;  conditional E-value: 1.2
                   AAA_24  3 lkiliyGpsgiGKTtlakel 22
                              +i+i G    GK+tl+ +l
  PHY93_17265|PHY93_17265 12 TRIVIAGHVDHGKSTLVGRL 31
                             69*************98765 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 0.00084
                   AAA_24   3 lkiliyGpsgiGKTtlakelgpkplfidt 31 
                              + ++++G sg+GK+t+ak l+++ + ++t
  PHY93_17265|PHY93_17265 446 AVLWLTGLSGAGKSTIAKILEKRLFEMNT 474
                              689*****************666555554 PP

>> PRK  Phosphoribulokinase / Uridine kinase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   0.00027      0.14       4      37 ..     450     483 ..     447     510 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00027
                      PRK   4 vagsSGaGkttvarklekifgrekvkaaeiegds 37 
                              ++g SGaGk+t+a+ lek++ + + ++++ +gd 
  PHY93_17265|PHY93_17265 450 LTGLSGAGKSTIAKILEKRLFEMNTHSVVLDGDN 483
                              79*******************9999999888775 PP

>> Thymidylate_kin  Thymidylate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   0.00063      0.32       3      29 ..     452     479 ..     450     516 .. 0.90

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00063
                              ESTTSSHHHHHHHHHHHHHHTTE..EEE CS
          Thymidylate_kin   3 GlDGaGKttqaellkerlkeegik.vvl 29 
                              Gl GaGK+t+a++l +rl e+  + vvl
  PHY93_17265|PHY93_17265 452 GLSGAGKSTIAKILEKRLFEMNTHsVVL 479
                              999**************99988876776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (620 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       635  (0.0354175); expected 358.6 (0.02)
Passed bias filter:                      546  (0.0304535); expected 358.6 (0.02)
Passed Vit filter:                        87  (0.00485247); expected 17.9 (0.001)
Passed Fwd filter:                        35  (0.00195214); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              35  [number of targets reported over threshold]
# CPU time: 0.79u 0.28s 00:00:01.07 Elapsed: 00:00:00.47
# Mc/sec: 3958.68
//
Query:       PHY93_04000|PHY93_04000  [L=46]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (46 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       194  (0.0108205); expected 358.6 (0.02)
Passed bias filter:                      171  (0.00953762); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.36u 0.21s 00:00:00.56 Elapsed: 00:00:00.37
# Mc/sec: 369.41
//
Query:       PHY93_04005|PHY93_04005  [L=138]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      6e-15   54.9   0.7    1.1e-14   54.0   0.1    1.8  2  CSD              'Cold-shock' DNA-binding domain
     0.0014   18.2   1.6     0.0025   17.5   0.7    2.0  2  OB_RNB           Ribonuclease B OB domain
  ------ inclusion threshold ------
      0.018   15.0   0.1      0.034   14.1   0.1    1.5  1  S1-like          S1-like
       0.05   13.7   0.1      0.066   13.4   0.1    1.2  1  MaoC_dehydrat_N  N-terminal half of MaoC dehydratase


Domain annotation for each model (and alignments):
>> CSD  'Cold-shock' DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0       1.7   7.6e+03      47      57 ..       9      19 ..       7      22 .. 0.66
   2 !   54.0   0.1   2.5e-18   1.1e-14       2      64 ..      76     135 ..      75     137 .. 0.94

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 1.7
                             EEEEEEECSSC CS
                      CSD 47 VeFevvegkkg 57
                             V++++++ k++
  PHY93_04005|PHY93_04005  9 VKYDMTKTKNR 19
                             88888885554 PP

  == domain 2  score: 54.0 bits;  conditional E-value: 2.5e-18
                              EEEEEEEETTTTEEEEEETTSS-EEEEETTTS-STT.TS--STSEEEEEEEECSSCEEEEEEE CS
                      CSD   2 tGtVkwfnakkgfGFItredgdkdvFvHvsaiqgdgfrsLqegqeVeFevvegkkgpeAanVt 64 
                               G+Vk f+ +kgfGFI ++++ +d+F+H sa+ g       ++++VeF+++eg kg  A++++
  PHY93_04005|PHY93_04005  76 YGKVKFFDIEKGFGFILPDEEMEDLFFHLSAFAGGA---PFQNDRVEFKISEGPKGLCAIQIK 135
                              69********************************99...5679****************9875 PP

>> OB_RNB  Ribonuclease B OB domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       1.2   5.4e+03      39      51 ..      10      22 ..       8      24 .. 0.62
   2 !   17.5   0.7   5.5e-07    0.0025       7      25 ..      85     103 ..      77     128 .. 0.77

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 1.2
                             EEEEEESSSEEEE CS
                   OB_RNB 39 lvritkgdrrgrr 51
                                +tk+++r+r+
  PHY93_04005|PHY93_04005 10 KYDMTKTKNRNRK 22
                             4567777777665 PP

  == domain 2  score: 17.5 bits;  conditional E-value: 5.5e-07
                              SSS-EEEEECT.TEEEEE- CS
                   OB_RNB   7 kkGFGFlipdegkeDifip 25 
                              +kGFGF+ pde++eD+f +
  PHY93_04005|PHY93_04005  85 EKGFGFILPDEEMEDLFFH 103
                              89**************965 PP

>> S1-like  S1-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.1   7.7e-06     0.034      12      45 ..      85     123 ..      72     128 .. 0.78

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 7.7e-06
                  S1-like  12 qdtfGfv..D...eevfFqrsvvkGrlpkvgdrVlveAv 45 
                                 fGf+  D   e+ fF+ s+  G  p  +drV+++ +
  PHY93_04005|PHY93_04005  85 EKGFGFIlpDeemEDLFFHLSAFAGGAPFQNDRVEFKIS 123
                              5678888774223679******************99865 PP

>> MaoC_dehydrat_N  N-terminal half of MaoC dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.1   1.5e-05     0.066      67     118 ..      33      85 ..      13      88 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 1.5e-05
          MaoC_dehydrat_N  67 algidlsrllhgeqefeyhepiraGDelttesriadvydkkg.vGalefivve 118
                              a+  +l+r+ +geq ++ he i    ++  ++r+a++ +k +  G+++f   e
  PHY93_04005|PHY93_04005  33 AVIAQLERIHKGEQVVTIHEIIWDEKQIKETARLAKIDQKHTfYGKVKFFDIE 85 
                              5667899999**************************************98765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (138 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       768  (0.0428356); expected 358.6 (0.02)
Passed bias filter:                      429  (0.0239277); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 1021.67
//
Query:       PHY93_04010|PHY93_04010  [L=325]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.1e-19   69.6   0.0    1.9e-10   41.3   0.0    2.5  2  PolyA_pol        Poly A polymerase head domain
    3.2e-07   30.0   1.0    8.6e-07   28.6   0.2    2.1  2  PolyA_pol_RNAbd  Probable RNA and SrmB- binding site of polym
  ------ inclusion threshold ------
       0.15   11.9   0.0       0.29   11.0   0.0    1.4  1  UPF0126          UPF0126 domain


Domain annotation for each model (and alignments):
>> PolyA_pol  Poly A polymerase head domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.9   0.0   1.8e-09   1.1e-05       2      33 ..       4      36 ..       3      41 .. 0.87
   2 !   41.3   0.0   3.1e-14   1.9e-10      85     126 .]      59     102 ..      42     102 .. 0.80

  Alignments for each domain:
  == domain 1  score: 25.9 bits;  conditional E-value: 1.8e-09
                             EEETHHHHHHHTT---CEEE.EEECS-HHHHHH CS
                PolyA_pol  2 ylvGGaVRDlllgkepkDvD.latdaapeelak 33
                             +lvGGaVRD+ll+++p D+D ++++ +pee+ k
  PHY93_04010|PHY93_04010  4 FLVGGAVRDILLNQTPRDYDyVVLNSSPEEMVK 36
                             89******************4456899999865 PP

  == domain 2  score: 41.3 bits;  conditional E-value: 3.1e-14
                              ....HHHHHHCTSSBGGGS-EEECTTTCEE-TTSHHHHHHTTEE- CS
                PolyA_pol  85 e...sleeDlkrRDftiNalaynlnkgkvlDlfgGikdLkskvir 126
                                  +leeDl+rRD+tiN++a++ + ++++D+++G+ dLk+k++r
  PHY93_04010|PHY93_04010  59 VlafDLEEDLARRDLTINSMAMD-EAQNLIDPYNGQLDLKQKILR 102
                              13449******************.6677**************997 PP

>> PolyA_pol_RNAbd  Probable RNA and SrmB- binding site of polymerase A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.6   0.2   1.4e-10   8.6e-07       1      62 [.     127     190 ..     127     192 .. 0.97
   2 ?   -1.2   0.0      0.29   1.8e+03      31      54 ..     271     294 ..     251     296 .. 0.71

  Alignments for each domain:
  == domain 1  score: 28.6 bits;  conditional E-value: 1.4e-10
          PolyA_pol_RNAbd   1 gFtIepeTaaairklap..lLkkispeRifeEllKlLlsghpeaglelLretgLlkylfPelaa 62 
                              +F+I+ eT++  +kl +  + k++ +eRi  El+  L+s  p+  +++L +  +l++ fPe+++
  PHY93_04010|PHY93_04010 127 DFSIADETLELCKKLGKsdEFKNLKSERILSELEGSLSSTMPSLFFDTLSKIEALSIHFPEIKS 190
                              7**************9999******************************************976 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 0.29
          PolyA_pol_RNAbd  31 llKlLlsghpeaglelLretgLlk 54 
                              llK+L   +++++  lL  + +lk
  PHY93_04010|PHY93_04010 271 LLKILDKLYGAKTAVLLQSFEILK 294
                              677777777777777777777765 PP

>> UPF0126  UPF0126 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   4.9e-05      0.29      39      53 ..       6      19 ..       5      45 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 4.9e-05
                             HHHHHHHHHTTSSSS CS
                  UPF0126 39 gGGvlRDvllgrevP 53
                              GG +RD+ll++ +P
  PHY93_04010|PHY93_04010  6 VGGAVRDILLNQ-TP 19
                             7**********6.99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (325 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       484  (0.0269954); expected 358.6 (0.02)
Passed bias filter:                      424  (0.0236488); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 2388.26
//
Query:       PHY93_04015|PHY93_04015  [L=219]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (219 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       345  (0.0192426); expected 358.6 (0.02)
Passed bias filter:                      273  (0.0152267); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 1539.39
//
Query:       PHY93_15880|PHY93_15880  [L=648]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (648 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       531  (0.0296168); expected 358.6 (0.02)
Passed bias filter:                      449  (0.0250432); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.63u 0.24s 00:00:00.87 Elapsed: 00:00:00.42
# Mc/sec: 4625.81
//
Query:       PHY93_15885|PHY93_15885  [L=391]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.9e-09   37.4   0.0    3.6e-09   36.5   0.0    1.4  1  Cons_hypoth95    Conserved hypothetical protein 95
    3.5e-08   33.0   0.5    7.7e-08   31.8   0.3    1.5  1  Methyltrans_SAM  S-adenosylmethionine-dependent methyltransfe
    1.4e-06   28.0   0.0      3e-06   26.9   0.0    1.5  1  MTS              Methyltransferase small domain
      2e-06   27.7   0.1    3.9e-06   26.7   0.1    1.4  1  Methyltransf_31  Methyltransferase domain
  ------ inclusion threshold ------
      0.034   13.9   0.5       0.07   12.9   0.1    1.7  2  N6-adenineMlase  Probable N6-adenine methyltransferase
      0.098   12.3   0.0       0.16   11.6   0.0    1.3  1  UPF0020          Putative RNA methylase family UPF0020


Domain annotation for each model (and alignments):
>> Cons_hypoth95  Conserved hypothetical protein 95
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.5   0.0   1.2e-12   3.6e-09      39     157 ..     215     339 ..     203     359 .. 0.76

  Alignments for each domain:
  == domain 1  score: 36.5 bits;  conditional E-value: 1.2e-12
                              CHCC-EEEETT-TTSHHHHHHHHTT-SEEEEEES-HHHHHHHHHHHCCCT--TTTEEEEES-HHHHCTS--SS-EEEEEEE--S.S CS
            Cons_hypoth95  39 eiegarvLDlfaGsGalglEAlSRgakkavlvekdkeavkilkenleelkleeetaelkedaleallklakkkeefdivflDPP.y 123
                              +i++ + LDlf+  G+ gl  lS g+  + +v++ + ++ ++++nle  k++++ + ++ d ++ l++   ++++fd++  DPP +
  PHY93_15885|PHY93_15885 215 NIKKDKGLDLFSYVGSWGLHLLSAGVGTVEFVDQGQ-MQVAVETNLELNKFSGRGQFVRADVFKYLDQALIENKKFDVIVSDPPaF 299
                              4888999**************************976.55689******************************************77 PP

                              STTCH.HHHHHHHH........HTT-EEEEEEEEEEEECCSS CS
            Cons_hypoth95 124 akellieevlelle........ekkllkenalvvvetekeke 157
                               k++  ++ +++l+        + kll++++++vv + ++ +
  PHY93_15885|PHY93_15885 300 TKSE--KNKVKALQgyeklhmkSMKLLNDQGIMVVASCTHYA 339
                              6665..455555540000000044555566666666555544 PP

>> Methyltrans_SAM  S-adenosylmethionine-dependent methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.8   0.3   2.6e-11   7.7e-08      81     235 ..     170     331 ..     139     352 .. 0.82

  Alignments for each domain:
  == domain 1  score: 31.8 bits;  conditional E-value: 2.6e-11
          Methyltrans_SAM  81 eldespvvvesglkyqldigrnqnfglfldmrlgrdwvqe.....nakdknvlnlfaytcgfsvaaiaggaskvvnvdmargslnk 161
                              e+d   +vve+ l+y++     q++g + d r  r+ ++      n k+ + l+lf+y   + +  ++ g   v  vd  + +++ 
  PHY93_15885|PHY93_15885 170 EIDGDLEVVENDLQYKIPKNVLQKIGYYYDHRENRSRLKSllmrlNIKKDKGLDLFSYVGSWGLHLLSAGVGTVEFVDQGQMQVAV 255
                              6677789**************************998755433333999999***************************99888765 PP

          Methyltrans_SAM 162 grdnhrlnghdlrrvsflgydifkswgk.ikksgpydlviidppsfqkgs...faltkdykkilrrlpellveggevl 235
                                 n  ln+   +r +f+  d+fk   + +  + ++d+++ dpp+f k         + y k+  +  +ll + g ++
  PHY93_15885|PHY93_15885 256 -ETNLELNKFS-GRGQFVRADVFKYLDQaLIENKKFDVIVSDPPAFTKSEknkVKALQGYEKLHMKSMKLLNDQGIMV 331
                              .5799999987.7899********99763778899***********98751115556789999999999998877543 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.9   0.0     1e-09     3e-06      23     155 ..     210     350 ..     204     360 .. 0.79

  Alignments for each domain:
  == domain 1  score: 26.9 bits;  conditional E-value: 1e-09
                              HHHHCHCCTCSEEEEET-TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHTTGC..EEEEE-STTTT.....STTS-EEEE CS
                      MTS  23 LletlpkelsgkvlDlGcGaGvlgaalakespeaevtlvdvdarAlesakenleankle..vevvasdvlee.....veekkfdli 101
                              Ll  l+  +++k lDl + +G  g++l+++    +v++vd+  + +++ ++nle nk++  +++v  dv++      +e+kkfd+i
  PHY93_15885|PHY93_15885 210 LLMRLNI-KKDKGLDLFSYVGSWGLHLLSAGVG-TVEFVDQGQMQVAV-ETNLELNKFSgrGQFVRADVFKYldqalIENKKFDVI 292
                              5555555.66789***************98777.8*********9985.789*****99999******9875111224689***** PP

                              EE---.STTTCHCHHHH...HHHHHHHHHHHEEEEEEEEEEEETTSCHHHHHHHHHS- CS
                      MTS 102 vsNPP.fhagkatelav...aeeliaeAkeaLkegGeLliVanrklgyeslleelfgn 155
                              vs PP f ++++ + ++    e+l  ++ + L+++G +++   ++    + l++++++
  PHY93_15885|PHY93_15885 293 VSDPPaFTKSEKNKVKAlqgYEKLHMKSMKLLNDQGIMVVASCTHYASFEELDKTVQD 350
                              *****55555555555411157899***********9999888888888888888775 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.7   0.1   1.3e-09   3.9e-06      46     126 ..     257     352 ..     245     380 .. 0.79

  Alignments for each domain:
  == domain 1  score: 26.7 bits;  conditional E-value: 1.3e-09
          Methyltransf_31  46 enaqklgld.nveFeqgdiee.lekl.ledekfDlilsnevl..naladpdkile.......eiervlkpggilliedpr...lla 116
                              +n++ ++++ + +F ++d+++ l+++ +e +kfD+i+s+ +      +++ k+l+       +  ++l+++gi++++++      +
  PHY93_15885|PHY93_15885 257 TNLELNKFSgRGQFVRADVFKyLDQAlIENKKFDVIVSDPPAftKSEKNKVKALQgyeklhmKSMKLLNDQGIMVVASCThyaSFE 342
                              466677777799***************************776777777777777788888888899**************555455 PP

          Methyltransf_31 117 elpakveees 126
                              el++ v++  
  PHY93_15885|PHY93_15885 343 ELDKTVQDAA 352
                              5556665544 PP

>> N6-adenineMlase  Probable N6-adenine methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.1       1.8   5.3e+03      64      79 ..     143     158 ..     140     172 .. 0.65
   2 ?   12.9   0.1   2.3e-05      0.07      58     117 ..     258     328 ..     244     362 .. 0.64

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 1.8
          N6-adenineMlase  64 lygeekfvfYdlnnpe 79 
                               +++++ vfYd ++  
  PHY93_15885|PHY93_15885 143 SFETHQVVFYDNEEYR 158
                              5567778999876654 PP

  == domain 2  score: 12.9 bits;  conditional E-value: 2.3e-05
          N6-adenineMlase  58 DkrFealygeekfvfYdlnnpeelpeel..kgkfdviviDPPFlseeclkklaktaklllk............k 117
                              +   ++++g+ +fv  d+++ ++  + l  ++kfdviv DPP +++   +k++ +   + k             
  PHY93_15885|PHY93_15885 258 NLELNKFSGRGQFVRADVFKYLD--QALieNKKFDVIVSDPPAFTKSEKNKVKALQG-YEKlhmksmkllndqG 328
                              55567788999999999999887..4555799**********877777766444322.2122233443444441 PP

>> UPF0020  Putative RNA methylase family UPF0020
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   5.3e-05      0.16      94     174 ..     257     343 ..     247     359 .. 0.67

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 5.3e-05
                              HHHHHTT-GGGEEEEE--GGG--....STTS---EEEE---.-------HHHHHHHHHHHHHHHHHH-TT..-EEEE.EESSHHHH CS
                  UPF0020  94 eNaekagvgdliefsqadaakLr....lkegevdvivtnpP.YGerlgskkalekLYseflrelkrvlrgggrlvll.tsenkale 173
                              +N+e  + +++ +f+ ad+ k       +++++dviv++pP + ++ ++k +  + Y+++  +  + l+ +g +v++  +++ ++e
  PHY93_15885|PHY93_15885 257 TNLELNKFSGRGQFVRADVFKYLdqalIENKKFDVIVSDPPaFTKSEKNKVKALQGYEKLHMKSMKLLNDQGIMVVAsCTHYASFE 342
                              56666666666677777664432255446779*********888888888777777888866666667776655554144555555 PP

                              H CS
                  UPF0020 174 k 174
                              +
  PHY93_15885|PHY93_15885 343 E 343
                              4 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (391 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       630  (0.0351386); expected 358.6 (0.02)
Passed bias filter:                      442  (0.0246528); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.53u 0.21s 00:00:00.74 Elapsed: 00:00:00.38
# Mc/sec: 3053.89
//
Query:       PHY93_15890|PHY93_15890  [L=315]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-63  212.9   0.1      2e-63  212.0   0.1    1.4  1  AAA_3            ATPase family associated with various cellul
    2.5e-13   49.7   0.0      5e-13   48.7   0.0    1.5  1  AAA_lid_2        AAA lid domain
    4.6e-12   46.1   0.0      1e-11   45.0   0.0    1.6  1  AAA_5            AAA domain (dynein-related subfamily)
    1.5e-06   28.0   0.0    4.6e-06   26.5   0.0    1.7  1  Sigma54_activat  Sigma-54 interaction domain
    0.00035   21.0   0.0    0.00071   20.0   0.0    1.6  1  AAA              ATPase family associated with various cellul
    0.00083   18.8   0.2      0.093   12.1   0.0    2.3  2  Mg_chelatase     Magnesium chelatase, subunit ChlI
     0.0015   18.3   0.1      0.019   14.7   0.1    2.5  1  RuvB_N           Holliday junction DNA helicase RuvB P-loop d
      0.007   15.5   0.0      0.018   14.2   0.0    1.8  2  MCM              MCM P-loop domain
     0.0097   16.3   0.0      0.014   15.8   0.0    1.4  1  AAA_16           AAA ATPase domain
  ------ inclusion threshold ------
      0.027   14.8   0.0        7.6    6.9   0.0    2.4  2  AAA_19           AAA domain
       0.09   12.6   0.1       0.31   10.9   0.1    1.9  2  LemA             LemA family
       0.12   12.6   0.1       0.44   10.8   0.1    1.9  1  AAA_22           AAA domain


Domain annotation for each model (and alignments):
>> AAA_3  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  212.0   0.1   1.4e-66     2e-63       1     131 []      41     171 ..      41     171 .. 1.00

  Alignments for each domain:
  == domain 1  score: 212.0 bits;  conditional E-value: 1.4e-66
                    AAA_3   1 hvllegvPGlaktllvkalakaldlefkriqftpdllPsdilGtevfeekekefefkkGpvfanllladeinrappktqsalleam 86 
                              h+l+eg+PGl+ktl v +++k  dl+fkriqftpdllPsd++Gt+++++k++ef++k Gp+f++llladeinrap+k+q+alleam
  PHY93_15890|PHY93_15890  41 HLLIEGMPGLGKTLSVATISKLCDLSFKRIQFTPDLLPSDLIGTMIYSQKNEEFHTKFGPIFTQLLLADEINRAPAKVQAALLEAM 126
                              9************************************************************************************* PP

                    AAA_3  87 eerqvtvegethklpepflvlatqnPieqeGtyplpeaqldrfll 131
                              +e+qvt++++th+l++pf+v+atqnPieqeGty+lpeaqldrf++
  PHY93_15890|PHY93_15890 127 AEKQVTIGDDTHRLSSPFVVMATQNPIEQEGTYNLPEAQLDRFMM 171
                              *******************************************98 PP

>> AAA_lid_2  AAA lid domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.7   0.0   3.4e-16     5e-13       9      63 ..     247     302 ..     244     311 .. 0.89

  Alignments for each domain:
  == domain 1  score: 48.7 bits;  conditional E-value: 3.4e-16
                AAA_lid_2   9 ielgvsgrRadlallraArAlAalegrdyVtpeDvkeaaplVLaHRlr..repeaeg 63 
                              i  g+s+r a + l+r+++ +A++eg+++Vtp++v +++p VL HRl+  +e++ ++
  PHY93_15890|PHY93_15890 247 ITSGASPR-AVIWLYRVSKFMAFMEGKEFVTPDHVLKIVPSVLGHRLIlsYEAAIDN 302
                              5679****.***************************************987777766 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.0   0.0   6.9e-15     1e-11       1     138 []      41     169 ..      41     169 .. 0.90

  Alignments for each domain:
  == domain 1  score: 45.0 bits;  conditional E-value: 6.9e-15
                              EEEEE--SSSSHHHHHHHGGGGBS--EEEEE--TT--HHHHH--B--...........--------G-SEEEEESGGG--HHHHHH CS
                    AAA_5   1 dvlLvGppGtgKselaerlaaalnreveyvqltrdtteedlkgrreikngttslvd..splvraaregeilvlDEveraesevlns 84 
                              ++l+ G pG gK+  +  ++++   ++  +q+t d+ ++dl+g + +++++++++   +p+       ++l+ DE++ra+ +v+++
  PHY93_15890|PHY93_15890  41 HLLIEGMPGLGKTLSVATISKLCDLSFKRIQFTPDLLPSDLIGTMIYSQKNEEFHTkfGPIF-----TQLLLADEINRAPAKVQAA 121
                              799********************************************977777665124444.....789**************** PP

                              HHHHHHSSEEE..-SSSEEE---......-EEEEEESS--..-TT-TTHHHHTT- CS
                    AAA_5  85 Llslleerrllleeggelvkaknddllerfrviatanpld.rslnelspalrsRf 138
                              Ll  + e+++ + + +++ + +       f v+at np +  +  +l +a ++Rf
  PHY93_15890|PHY93_15890 122 LLEAMAEKQVTIGDDTHRLSSP-------FVVMATQNPIEqEGTYNLPEAQLDRF 169
                              ****************999775.......***********878888888888888 PP

>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.5   0.0   3.1e-09   4.6e-06      12     148 ..      29     156 ..      24     166 .. 0.84

  Alignments for each domain:
  == domain 1  score: 26.5 bits;  conditional E-value: 3.1e-09
                              HHHHHHHCTSSS-EEEECSTTSSHHHHHHHHHHHSTTTTS-EEEEETTTS-TTCHHHHHHEBSSSSSTTTSS-BEHHHHHTTTSEE CS
          Sigma54_activat  12 leqikkvaktdlsvlitGesGtGKellaraiheaskrkekpfvavncaaipeelleseLFGhekGaFtGAekekkGlfekadgGtl 97 
                              l+ i ++   + ++li+G  G GK+l   +i +  +       ++   +++++ll s+L G+    ++  ++e + +f       l
  PHY93_15890|PHY93_15890  29 LDAIMAALVCEGHLLIEGMPGLGKTLSVATISKLCDL------SFKRIQFTPDLLPSDLIGTMI--YSQKNEEFHTKFGPIFTQLL 106
                              5667777888899*************99999988874......334445678888888888764..6666666677888888899* PP

                              EEETGGGS-HHHHHHHHHHHHHSEEESBTSSSEEE--EEEEEEESS-HHHH CS
          Sigma54_activat  98 fLDeigelplelQekLlrvlqegevervGsskeikvdvriiaatnedleea 148
                              + Dei++ p+++Q+ Ll+++ e++v+ +G+++++  +  +++at++ +e++
  PHY93_15890|PHY93_15890 107 LADEINRAPAKVQAALLEAMAEKQVT-IGDDTHRLSSPFVVMATQNPIEQE 156
                              ***********************996.9*****************999886 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.0   0.0   4.7e-07   0.00071       1     131 [.      42     176 ..      42     177 .. 0.77

  Alignments for each domain:
  == domain 1  score: 20.0 bits;  conditional E-value: 4.7e-07
                              EEEESSTTSSHHHHHHHHHHHHTHEEEEEET.TTCS.SS.....STTHHHHHHHHHHHHHHHTSTSEEEEEETGGGHHHHHTTCCC CS
                      AAA   1 vllyGppGtGKTllakavakelgvefleisg.sell.sk.....yvgesekkirelfkeakekakpsilfiDEidalaksrsgses 79 
                              +l+ G pG GKTl +  + k ++ +f +i+  ++ll s+     + ++++++++  f  + ++     l+ DEi +   +      
  PHY93_15890|PHY93_15890  42 LLIEGMPGLGKTLSVATISKLCDLSFKRIQFtPDLLpSDligtmIYSQKNEEFHTKFGPIFTQ----LLLADEINRAPAK------ 117
                              5889********************999999636777444777777777888888888887765....6*******99555...... PP

                              HHHHHHHHHHHHHHHHTTTS........SSTEEEEEEESS.....GGGSTHHHHSTTSSEEEETT CS
                      AAA  80 eeeervvnqLlteldgvkkk........eskvivigatnr.....pdkldpallrgRfdrkieie 131
                                   v+++Ll+++ + +          +s+++v+++ n        +l++a l +Rf +k++++
  PHY93_15890|PHY93_15890 118 -----VQAALLEAMAEKQVTigddthrlSSPFVVMATQNPieqegTYNLPEAQL-DRFMMKVNVD 176
                              .....5999999999999999999999766566655555565555556788888.8888887765 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.1   0.0   6.2e-05     0.093       5      45 ..      22      62 ..      20      71 .. 0.88
   2 ?    4.5   0.0     0.014        20     109     159 ..     105     153 ..     101     177 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 6.2e-05
             Mg_chelatase  5 vkGqeeakraleiaaaGgHnlllvGppGsGKtmlakrlpsl 45
                             + Gq++   a+  a   + +ll+ G pG GKt+  + +++l
  PHY93_15890|PHY93_15890 22 IFGQDNLLDAIMAALVCEGHLLIEGMPGLGKTLSVATISKL 62
                             679999999************************99888765 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.014
             Mg_chelatase 109 vLfLDElpefkrkvlevLRePledgevtisrakakvefparfqlvaamNpc 159
                              +L+ DE+    +kv  +L e + +++vti   +++++ p  f ++a+ Np 
  PHY93_15890|PHY93_15890 105 LLLADEINRAPAKVQAALLEAMAEKQVTIGDDTHRLSSP--FVVMATQNPI 153
                              6888*************************9888877655..8888999986 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.1   1.3e-05     0.019      34     115 ..      40     133 ..      25     142 .. 0.72

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1.3e-05
                   RuvB_N  34 dhvllyGpPGlGkttlakiiakelgvklk.itsgPvlekagdlaa.lltnleek...........dvlfideihrlsraveevlys 106
                               h+l+ G PGlGkt   + i+k  + ++k i  +P l  ++dl++ ++ + +++           ++l+ dei r   +v+  l  
  PHY93_15890|PHY93_15890  40 GHLLIEGMPGLGKTLSVATISKLCDLSFKrIQFTPDLL-PSDLIGtMIYSQKNEefhtkfgpiftQLLLADEINRAPAKVQAALLE 124
                              6*************999999999999986245678876.55665514444433312222222222578999*****999*999999 PP

                   RuvB_N 107 amedfrldi 115
                              am + ++ i
  PHY93_15890|PHY93_15890 125 AMAEKQVTI 133
                              999888765 PP

>> MCM  MCM P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.2   0.0   1.2e-05     0.018      58     180 ..      40     161 ..       3     175 .. 0.79
   2 ?   -3.5   0.0       2.9   4.4e+03      20      37 ..     209     226 ..     197     239 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 1.2e-05
                              -EEEEEESSTSTHHHHHHHHHHHSSSEEEEE..SSSSSSSHSSSEEEEESSSSSEEEEETHHHHTTTSEEEEESGGGSTCHHHHHH CS
                      MCM  58 invllvgdpgtaKsqlLkyveklapravyts..gkgssaagLtaavvrdeetgefvleaGalvladkGvcciDefdkmkeedrsal 141
                               ++l+ g pg++K+  + +++kl + +            ++L  ++  +++++ef ++ G + +    +++ De+++   + + al
  PHY93_15890|PHY93_15890  40 GHLLIEGMPGLGKTLSVATISKLCDLSFKRIqfTPDLLPSDLIGTMIYSQKNEEFHTKFGPIFTQ---LLLADEINRAPAKVQAAL 122
                              57788888888888777777777665543320023344578888888888888899999988765...7899************** PP

                              HHHHHHSEEEEESSSCEEEEE--EEEEEEE--S..SSSCCT CS
                      MCM 142 hEamEqqtisiaKaGivatLnartsvlaAanpk..agrydk 180
                              +Eam +++++i        L++   v+a  np+  +g y+ 
  PHY93_15890|PHY93_15890 123 LEAMAEKQVTIGDDT--HRLSSPFVVMATQNPIeqEGTYNL 161
                              ***********8876..99*************955677775 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 2.9
                              HHSSTTSSS-HHHHHHHH CS
                      MCM  20 ksiapsiyghedvkkail 37 
                              + i+ +iy +e++k  i+
  PHY93_15890|PHY93_15890 209 QEIVDAIYVDEKIKDLIV 226
                              567778888888887554 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.0   9.2e-06     0.014       4     101 ..      24     130 ..      22     257 .. 0.67

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 9.2e-06
                   AAA_16   4 GReeeleqLlsalervrsgrpelvllsGesGvGKsslvrellralekd................ggiflrgkcdqlesaipysa.l 72 
                              G ++ l+++ +al   +   ++ +l+ G++G GK+  v ++ +    +                g    ++k++++   + + + +
  PHY93_15890|PHY93_15890  24 GQDNLLDAIMAALV--C---EGHLLIEGMPGLGKTLSVATISKLCDLSfkriqftpdllpsdliGTMIYSQKNEEF--HTKFGPiF 102
                              66777777766664..3...368*******************7333333333333434444333333333333333..24444434 PP

                   AAA_16  73 aqalareellrqlldeaesaeleawrekl 101
                              +q+l + + ++   ++ ++a+lea +ek 
  PHY93_15890|PHY93_15890 103 TQLLLA-DEINRAPAKVQAALLEAMAEKQ 130
                              444433.3333333333444444444433 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.9   0.0    0.0051       7.6       7      33 ..      36      62 ..      30      74 .. 0.82
   2 ?    5.5   0.0     0.013        20     103     139 ..     103     137 ..      79     143 .. 0.81

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.0051
                   AAA_19  7 alkekvllvtaGpGtGKTrvlkhival 33
                              + e++ll+ + pG GKT  + +i +l
  PHY93_15890|PHY93_15890 36 LVCEGHLLIEGMPGLGKTLSVATISKL 62
                             5668899***********999888765 PP

  == domain 2  score: 5.5 bits;  conditional E-value: 0.013
                   AAA_19 103 eellivDEfqdvd.elqyrLlkallgekkklllvGDpd 139
                              ++ll+ DE+     ++q +Ll+a++ ek+  + +GD+ 
  PHY93_15890|PHY93_15890 103 TQLLLADEINRAPaKVQAALLEAMA-EKQ--VTIGDDT 137
                              56899********9***********.555..7899975 PP

>> LemA  LemA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.1   0.00021      0.31      56      97 ..     158     200 ..     110     203 .. 0.73
   2 ?   -1.9   0.0       1.8   2.6e+03      13      38 ..     222     247 ..     218     252 .. 0.84

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00021
                     LemA  56 aenqlssalsrll.avaEnYPdLkanenfleLqeelegtEnri 97 
                              + n  +++l r++  v  +YP++ka++n+leL+++ +++E  +
  PHY93_15890|PHY93_15890 158 TYNLPEAQLDRFMmKVNVDYPSFKAEKNILELKKSSSRVEAVL 200
                              4455566677776256679****************99999765 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 1.8
                     LemA  13 aDlipnLvetvkgyakhEketleevt 38 
                               Dli ++v++ +   +h ++ ++ v+
  PHY93_15890|PHY93_15890 222 KDLIVKIVHATRPSSEHFRKEFSGVI 247
                              699*****999999999888888887 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.1    0.0003      0.44       6     103 ..      40     140 ..      38     150 .. 0.62

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.0003
                   AAA_22   6 gilvvtGesGtGKTtllrrlleqldeeakaee.....erpevv.fvtlpsstsskdllrellralglelkaerlsseellealeqa 85 
                              g+l++ G +G GKT++++++ +  d   k  +      +++++ ++  ++  + +++ +++  ++++ l a  ++  +  ++++ a
  PHY93_15890|PHY93_15890  40 GHLLIEGMPGLGKTLSVATISKLCDLSFKRIQftpdlLPSDLIgTMIYSQ--KNEEFHTKFGPIFTQLLLA--DEINRAPAKVQAA 121
                              89****************99988776666666433333333332222222..3455555555555555555..5555555666666 PP

                   AAA_22  86 lrarav.ielliiDEaqhl 103
                              l ++++ +++ i D+ ++l
  PHY93_15890|PHY93_15890 122 LLEAMAeKQVTIGDDTHRL 140
                              6666666666666666666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (315 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       535  (0.0298399); expected 358.6 (0.02)
Passed bias filter:                      463  (0.0258241); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.55u 0.26s 00:00:00.81 Elapsed: 00:00:00.42
# Mc/sec: 2266.34
//
Query:       PHY93_15895|PHY93_15895  [L=279]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.3e-15   57.4   0.0    2.3e-15   56.6   0.0    1.3  1  DUF58         Protein of unknown function DUF58
  ------ inclusion threshold ------
       0.12   11.8   0.8       0.42   10.1   0.8    1.8  1  Hpr_kinase_C  HPr Serine kinase C-terminal domain
       0.17   11.7   0.1        2.8    7.8   0.0    2.3  2  DUF2618       Protein of unknown function (DUF2618)


Domain annotation for each model (and alignments):
>> DUF58  Protein of unknown function DUF58
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.6   0.0   3.8e-19   2.3e-15       1      81 [.      37     117 ..      37     121 .. 0.93

  Alignments for each domain:
  == domain 1  score: 56.6 bits;  conditional E-value: 3.8e-19
                    DUF58   1 gldfaglReYvpgDplrrIdWkatARtgelyvrefeaerartvllvldlspemslgstgdekletavsaaaslarqlldeg 81 
                              gl+f++   Y  gD++r IdWk  A+t ++yv+ f++er+ ++++v+d+++ m  g +g +kl +a+++++ l   + d++
  PHY93_15895|PHY93_15895  37 GLQFKEHQVYNFGDDIRFIDWKILAKTSHPYVKTFNEERNVEIVVVIDATATMLTGYNGVSKLQAAIEICCLLYLLAKDTN 117
                              5789999***************************************************************99877776665 PP

>> Hpr_kinase_C  HPr Serine kinase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.8   7.1e-05      0.42      18     109 ..      85     188 ..      70     218 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 7.1e-05
                              TEEEEEEESTCHHHHHHHHH......HHTTT.....-.EEEEESSEEEEEETTE.EEEEE-TTTTTEEEETTTEEEEHHHHH-GGG CS
             Hpr_kinase_C  18 gvGvLitGesgvGKselale......Likrg.....h.rLvaDDaveikridektlvGrapellkhllevrglGiidvkklfGaea 91 
                               +  ++tG +gv K ++a+e      L+ +      h  +vaD ++++ +++ +  + +  ++l++   +   G++++++  G +a
  PHY93_15895|PHY93_15895  85 ATATMLTGYNGVSKLQAAIEiccllyLLAKDtndfvHaLIVADEIIHVPKKSGEAGISHFISVLEDKKILTEHGLVNLERELGDGA 170
                              45667888888888888877333333344432223342468*************99999999**9999999*************** PP

                              B-SEEEEEEEEEEESTT- CS
             Hpr_kinase_C  92 vrekkeielvveLeewek 109
                               + +k ++++ +L++  +
  PHY93_15895|PHY93_15895 171 NKMQKYLSVMTHLNRKRE 188
                              *************98766 PP

>> DUF2618  Protein of unknown function (DUF2618)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   0.0   0.00046       2.8       4      19 ..     178     193 ..     175     197 .. 0.90
   2 ?    1.1   0.0     0.059   3.5e+02      26      32 ..     230     236 ..     228     240 .. 0.84

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.00046
                  DUF2618   4 SlmAHiRRTRHimmPS 19 
                              S+m H+ R R i+m S
  PHY93_15895|PHY93_15895 178 SVMTHLNRKREIVMLS 193
                              9************966 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.059
                  DUF2618  26 YSlFaSq 32 
                              YSlFaS 
  PHY93_15895|PHY93_15895 230 YSLFASS 236
                              *****96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (279 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       520  (0.0290033); expected 358.6 (0.02)
Passed bias filter:                      359  (0.0200234); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.21s 00:00:00.76 Elapsed: 00:00:00.42
# Mc/sec: 1986.54
//
Query:       PHY93_15900|PHY93_15900  [L=255]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.17   11.9   2.5          2    8.5   0.1    2.7  3  ID        Intracellular delivery domain


Domain annotation for each model (and alignments):
>> ID  Intracellular delivery domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0      0.31   5.5e+03       4      12 ..      36      44 ..      34      46 .. 0.71
   2 ?    2.5   0.1    0.0085   1.5e+02      16      34 ..      73      91 ..      62      95 .. 0.85
   3 ?    8.5   0.1   0.00011         2      19      50 ..     169     200 ..     162     201 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 0.31
                       ID  4 eEGktyeGi 12
                             +EG ++eG+
  PHY93_15900|PHY93_15900 36 KEGDIVEGT 44
                             677778876 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.0085
                       ID 16 agdesfaIntkddlVickk 34
                             +  e+  ++t+++ V+++k
  PHY93_15900|PHY93_15900 73 TEVENIEVSTNNADVVEAK 91
                             56788889********876 PP

  == domain 3  score: 8.5 bits;  conditional E-value: 0.00011
                       ID  19 esfaIntkddlVickkeelepeqLktLkkGDf 50 
                              +sf  + k+d++   k++l++++ k+ k+ D+
  PHY93_15900|PHY93_15900 169 QSFIQKFKNDPIADRKKKLDEKFSKAIKREDY 200
                              5677788**********************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (255 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1248  (0.0696079); expected 358.6 (0.02)
Passed bias filter:                      667  (0.0372023); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.40
# Mc/sec: 1933.71
//
Query:       PHY93_15905|PHY93_15905  [L=324]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.2e-25   88.0   0.0    1.3e-24   87.4   0.0    1.3  1  VWA       von Willebrand factor type A domain
    9.4e-20   71.3   0.1    3.7e-19   69.4   0.0    1.8  2  VWA_2     von Willebrand factor type A domain
    0.00013   21.9   0.1    0.00024   21.0   0.0    1.5  2  Ssl1      Ssl1-like
     0.0027   17.7   0.0     0.0083   16.1   0.0    1.8  2  VWA_3     von Willebrand factor type A domain
     0.0056   15.9   0.1      0.014   14.6   0.0    1.6  2  DUF1194   Protein of unknown function (DUF1194)


Domain annotation for each model (and alignments):
>> VWA  von Willebrand factor type A domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   87.4   0.0   3.7e-28   1.3e-24       1     174 [.      85     278 ..      85     279 .. 0.90

  Alignments for each domain:
  == domain 1  score: 87.4 bits;  conditional E-value: 3.7e-28
                              EEEEEEE-STTSCHHHHH.HHHHHHHHHHHHHTBTTTTEEEEEEEESSSEEEEEETTSHCHHHHHHHHHHTG..SGGGGSSC-HHH CS
                      VWA   1 DivfvlDgSgsmgeenfe.kvkefikklveklevgpegtrvglvqfssevktefslndysskeellsalnnl..kysgggttntgk 83 
                              Di +vlD S sm +e+++ ++ e++k+ v ++    +++r+g++ f++ v t  +l+++   e +++ ++++     g gt+ +g+
  PHY93_15905|PHY93_15905  85 DIFIVLDLSRSMMAEDLKpNRVEAAKQKVVDFVALFPKDRIGIIIFAERVFTLLPLSTDL--ELIKKMVDQIklGPLGDGTN-IGD 167
                              9***********99999997777777777777777779********************55..66666666665588899999.*** PP

                              HHHHHHHHHHHHHGTSSTTSEEEEEEEESS--CSS..HTHHHHHHHHGCTEEEEEEEE.........................SSS CS
                      VWA  84 alkyaleklfkssagaRenakkviilltdGksndg..dpkeaaneakeqgikvfavGv.........................gna 142
                              al+ a+ +l++s+a+     +k+i+lltdG sn g   p++aa+ a +++ik+++vG+                         g++
  PHY93_15905|PHY93_15905 168 ALALAVGRLIQSQAK-----SKIILLLTDGVSNVGtlTPLQAAEMALANKIKIYTVGIggdkdaripvgpnmfgvqryqiipgGSV 248
                              ***************.....**************77**********************************************6666 PP

                              HHHHHHHHHSSSSCHHCEEEESSHHHHHHHHH CS
                      VWA 143 dekelLnkiasepgeghvftvtdfeeleelfe 174
                              d k  L++i+ +++ g+++ +++ ++l+++ +
  PHY93_15905|PHY93_15905 249 DAKG-LKEISDMTH-GKAYMASNNKALQNVLD 278
                              6666.****99999.*************9876 PP

>> VWA_2  von Willebrand factor type A domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.4   0.0     1e-22   3.7e-19       2     106 ..      87     192 ..      86     193 .. 0.96
   2 ?   -0.9   0.0      0.71   2.6e+03      58      93 ..     269     284 ..     249     296 .. 0.52

  Alignments for each domain:
  == domain 1  score: 69.4 bits;  conditional E-value: 1e-22
                    VWA_2   2 vfvlDtSgSmrngdygptrleaakdaveallkslpgdrvglvtfsdgpevlipltkdkakilnalrnleak..gggtnlaaaLqla 85 
                               +vlD S Sm ++d++p+r eaak+ v ++++ +p+dr+g++ f++++ +l+pl++d + i++ +++++    g+gtn+++aL la
  PHY93_15905|PHY93_15905  87 FIVLDLSRSMMAEDLKPNRVEAAKQKVVDFVALFPKDRIGIIIFAERVFTLLPLSTDLELIKKMVDQIKLGplGDGTNIGDALALA 172
                              69*******************************************************************8899************* PP

                    VWA_2  86 rkalkkrrkgekrvivlitDg 106
                                 l + +  ++++i+l+tDg
  PHY93_15905|PHY93_15905 173 VGRLIQSQ-AKSKIILLLTDG 192
                              *9887776.89*********9 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.71
                    VWA_2  58 dkakilnalrnleakgggtnlaaaLqlarkalkkrr 93 
                              +++                    aLq + ++++k+ 
  PHY93_15905|PHY93_15905 269 NNK--------------------ALQNVLDEINKME 284
                              333....................3333333333332 PP

>> Ssl1  Ssl1-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.0   0.0   6.6e-08   0.00024       1     107 [.      89     189 ..      89     223 .. 0.71
   2 ?   -3.0   0.0       1.5   5.4e+03      75      88 ..     266     279 ..     253     293 .. 0.63

  Alignments for each domain:
  == domain 1  score: 21.0 bits;  conditional E-value: 6.6e-08
                              EEE-SGGGGSSSSSS-HHHHHHHHHHHHHHHHHHHSTT-EEEEEEEETTEEEEEEEEES-HHHHHHHHHHHTTS---S-.--HHHH CS
                     Ssl1   1 vlDlsrameekdlkpsrlavviklleefveeffdqnPisqlgliavkdkkaekltelsGnprkhikaLkslreveakge.psLqna 85 
                              vlDlsr+m  +dlkp+r++   + + +fv  f    P  ++g+i+  +++   l  ls + + +ik++    +  + g+ + + +a
  PHY93_15905|PHY93_15905  89 VLDLSRSMMAEDLKPNRVEAAKQKVVDFVALF----PKDRIGIIIFAERVFTLL-PLSTDLE-LIKKMVDQIKLGPLGDgTNIGDA 168
                              89**************************9988....8889****9988876544.5666655.45555555557777763568899 PP

                              HHHHHHHHSSS-TTSEEEEEEE CS
                     Ssl1  86 LelalasLkkvpshasrevlii 107
                              L la+  L +  +  s+ +l++
  PHY93_15905|PHY93_15905 169 LALAVGRLIQSQAK-SKIILLL 189
                              99999988664443.3334444 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 1.5
                              ---S---HHHHHHH CS
                     Ssl1  75 eakgepsLqnaLel 88 
                               a+ + +Lqn L+ 
  PHY93_15905|PHY93_15905 266 MASNNKALQNVLDE 279
                              45566777777764 PP

>> VWA_3  von Willebrand factor type A domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   2.3e-06    0.0083       2     140 ..      85     227 ..      84     230 .. 0.73
   2 ?   -2.7   0.0       1.4   4.9e+03      53      69 ..     265     281 ..     246     286 .. 0.60

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 2.3e-06
                    VWA_3   2 evvivvDvsssmsaen...klvkdaLsvalrq......Lptndkiavllfgtkprplfpgsravsaaelqealqkikelels..lg 76 
                              ++ iv+D s sm ae    +       +a ++      L ++d+i +++f  ++  l p s     ++l+ +++ +++++l    +
  PHY93_15905|PHY93_15905  85 DIFIVLDLSRSMMAEDlkpN----RVEAAKQKvvdfvaLFPKDRIGIIIFAERVFTLLPLS-----TDLELIKKMVDQIKLGplGD 161
                              78899999999988855542....3333333333344588899999999999987777765.....56668888888855443388 PP

                    VWA_3  77 asnlegaLkealrqp.akpgevrsvilltDgss.aqgeervsdlisrarekirfhalglgsslsaa 140
                              ++n   aL+ a+    ++++  + ++lltDg s + + + + ++  + + ki++ ++g+g + +a+
  PHY93_15905|PHY93_15905 162 GTNIGDALALAVGRLiQSQAKSKIILLLTDGVSnVGTLTPLQAAEMALANKIKIYTVGIGGDKDAR 227
                              ************8667999*************9555665555555466699*********988876 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 1.4
                    VWA_3  53 sravsaaelqealqkik 69 
                               +a + + lq +l++i+
  PHY93_15905|PHY93_15905 265 YMASNNKALQNVLDEIN 281
                              34555556666666665 PP

>> DUF1194  Protein of unknown function (DUF1194)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0      0.94   3.4e+03       7      22 ..      87     102 ..      85     110 .. 0.81
   2 !   14.6   0.0   3.8e-06     0.014      93     160 ..     161     226 ..     136     246 .. 0.83

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 0.94
                  DUF1194   7 vLavDvSgSvdeeElr 22 
                               + +D S+S+ +e+l+
  PHY93_15905|PHY93_15905  87 FIVLDLSRSMMAEDLK 102
                              5789*****9988765 PP

  == domain 2  score: 14.6 bits;  conditional E-value: 3.8e-06
                  DUF1194  93 rrtaigeAlefaaallaenpveglrrviDvSGDGpnneglepvtaardaaeakgvtingLaietkeae 160
                              + t ig Al+ a+  l +++   + ++i +  DG +n g+ +  +a + a a+++ i  + i+ ++++
  PHY93_15905|PHY93_15905 161 DGTNIGDALALAVGRLIQSQA--KSKIILLLTDGVSNVGTLTPLQAAEMALANKIKIYTVGIGGDKDA 226
                              459************999988..89**************8777799***********99999988764 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (324 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       762  (0.042501); expected 358.6 (0.02)
Passed bias filter:                      637  (0.035529); expected 358.6 (0.02)
Passed Vit filter:                        55  (0.00306766); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.43
# Mc/sec: 2264.72
//
Query:       PHY93_17270|PHY93_17270  [L=392]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.8e-33  115.1   0.1    5.5e-33  114.2   0.0    1.5  2  NAD_binding_9   FAD-NAD(P)-binding
    5.2e-06   25.9   0.0    3.6e-05   23.2   0.0    2.0  1  Pyr_redox_2     Pyridine nucleotide-disulphide oxidoreductase
     0.0002   21.0   0.0     0.0066   16.1   0.0    2.2  2  DAO             FAD dependent oxidoreductase
    0.00028   19.9   0.1     0.0004   19.4   0.1    1.2  1  Trp_halogenase  Tryptophan halogenase
     0.0098   15.1   0.1       0.29   10.2   0.1    2.6  2  K_oxygenase     L-lysine 6-monooxygenase (NADPH-requiring)
  ------ inclusion threshold ------
      0.014   15.9   0.2        7.4    7.2   0.0    2.8  3  Pyr_redox       Pyridine nucleotide-disulphide oxidoreductase
      0.014   15.6   0.3       0.03   14.6   0.0    1.7  2  NAD_binding_8   NAD(P)-binding Rossmann-like domain


Domain annotation for each model (and alignments):
>> NAD_binding_9  FAD-NAD(P)-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  114.2   0.0   2.1e-36   5.5e-33       2     154 ..       6     148 ..       5     150 .. 0.94
   2 ?   -3.8   0.1       4.4   1.1e+04       2      29 ..     169     193 ..     169     205 .. 0.65

  Alignments for each domain:
  == domain 1  score: 114.2 bits;  conditional E-value: 2.1e-36
            NAD_binding_9   2 ivGaGprGlavlerLlarakkkspleitlfdpsepgagrvwrtdqseelllNvpasemslftddpptfaeWlrergaleeaeeldp 87 
                              ivG+G++G++++  L++++  +++l+i l++++++ +g+++ +  +++lllNv+a++m +f+dd  +f++Wl++++      e++ 
  PHY93_17270|PHY93_17270   6 IVGGGFSGTMTAVWLMKNS--TEKLQIYLIEKDHLARGQAYADI-DPHLLLNVRADQMGAFPDDIGHFYRWLQDKKI-----ECSA 83 
                              9*****************7..************99977777766.789***************************94.....689* PP

            NAD_binding_9  88 ddfvpRalyGrYlrdlfeellarlpegvtvevhraevvdleeradgqavlladgaslaadaVvLAlG 154
                              +df++R++yG+Yl++l+++++++   +v ve+++++v+dl+ ++++  ++ ++ + +++d+VvLA+G
  PHY93_17270|PHY93_17270  84 SDFISRKIYGDYLSELLAKAIKESAGRVLVEIIKDQVIDLDAENKK--LVFETHTPIQVDEVVLAIG 148
                              *****************************************99887..67899************99 PP

  == domain 2  score: -3.8 bits;  conditional E-value: 4.4
            NAD_binding_9   2 ivGaGprGlavlerLlarakkkspleit 29 
                              i+G G + + v+  L +    +++ +it
  PHY93_17270|PHY93_17270 169 IIGTGLSMVDVVVYLHSI---GHQGKIT 193
                              788888777777766665...3444444 PP

>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.2   0.0   1.4e-08   3.6e-05       4     166 ..       5     188 ..       2     223 .. 0.73

  Alignments for each domain:
  == domain 1  score: 23.2 bits;  conditional E-value: 1.4e-08
                              EEE--SHHHHHHHHHHHH...HTS-EEEEE...TTHCHHHCSHHH...HCHHHHHHHHHHHHH....................... CS
                              xxxxxxxxxxxxxxxxxx...xxxxxxxxx...xxxxxxxxxxxx...xxxxxxxxxxxxxxx....................... RF
              Pyr_redox_2   4 vviGgGpAGlaaaltlaq...agakvtlve...legtclnggcll...skallgvaedaeias....................... 57 
                               ++GgG+ G+ +a  l +    +++++l+e   l +   +        ++ ll+v++d+  a                        
  PHY93_17270|PHY93_17270   5 GIVGGGFSGTMTAVWLMKnstEKLQIYLIEkdhLARGQAY----AdidPHLLLNVRADQMGAFpddighfyrwlqdkkiecsasdf 86 
                              59***************97766*******54443333333....2444567888888887777899999***************** PP

                              ...............HHHHCHHHH..CCCCHCCTCEEEEESCEEEEETEEECTCEEEEEESEEEE---EEE-BCTCTTC.TTBEEC CS
                              ...............xxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2  58 ...............evvkklnqg..ielllgeevvkidpgkkkvklekkkegdeekiaydklvlAtGssprdlgipGvaenvgkl 126
                                             + +k+      +e ++  +v+++d ++kk++      + ++ i+ d++vlA+G     l++p++    +  
  PHY93_17270|PHY93_17270  87 isrkiygdylsellaKAIKESAGRvlVEIIK-DQVIDLDAENKKLVF-----ETHTPIQVDEVVLAIG-----LKLPAE----F-- 155
                              ********99999996666665554344444.49************9.....45679***********.....444554....1.. PP

                              CSECHHHHHHCCSS-TSEEEEES-SHHHHHHHHHHHHHT- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 127 vrtldsaealklkllpkrivvvGgGyiGvElAaalaklgk 166
                                   +  ++k    p  i+++G G+  v++  +l+++g+
  PHY93_17270|PHY93_17270 156 -----NFTEIKAGPGP--ITIIGTGLSMVDVVVYLHSIGH 188
                              .....12333334444..6666666666666666666655 PP

>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   2.6e-06    0.0066       2      36 ..       4      42 ..       3      46 .. 0.83
   2 ?    2.6   0.0     0.031        80     148     204 ..     100     151 ..      93     176 .. 0.74

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 2.6e-06
                             EEEECTSHHHHHHHHHHHHTT.....EEEEESSSSTTSSG CS
                      DAO  2 vviiGGGiiGlstAyeLarrg.....Vtllekgdiagsga 36
                             + i+GGG  G  tA +L +       + l+ek+  +++g+
  PHY93_17270|PHY93_17270  4 IGIVGGGFSGTMTAVWLMKNSteklqIYLIEKD-HLARGQ 42
                             66***************776456799*******.666676 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.031
                              HHHHHHHHHHHTT-EEEESECEEEEEEEETCEEEEE.EECTEEEEEEEEEEE--GGGH CS
                      DAO 148 ltaalaraaealGveilegtevtgleeedgkvwgve.rttpgendaadavVnaaGaws 204
                              l++a+ + a +  vei++  +v +l++e++k   v+ ++tp +  ++d vV+a G+  
  PHY93_17270|PHY93_17270 100 LAKAIKESAGRVLVEIIKD-QVIDLDAENKK--LVFeTHTP-I--QVDEVVLAIGLKL 151
                              5667777777777999999.9****887755..44434444.2..3799******975 PP

>> Trp_halogenase  Tryptophan halogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.4   0.1   1.6e-07    0.0004       2      38 ..       4      40 ..       3      43 .. 0.93

  Alignments for each domain:
  == domain 1  score: 19.4 bits;  conditional E-value: 1.6e-07
                             EEEE--SHHHHHHHHHHHHHTTTSSEEEEEE-SSS-- CS
           Trp_halogenase  2 ivivGGGtaGwlaAaalakalkgklevtlveseeigt 38
                             i ivGGG +G ++A  l k  ++kl++ l+e++++ +
  PHY93_17270|PHY93_17270  4 IGIVGGGFSGTMTAVWLMKNSTEKLQIYLIEKDHLAR 40
                             89*******************999********98865 PP

>> K_oxygenase  L-lysine 6-monooxygenase (NADPH-requiring)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.0     0.045   1.1e+02     192     224 ..       2      35 ..       1      57 [. 0.81
   2 !   10.2   0.1   0.00011      0.29     190     227 ..     163     200 ..      80     224 .. 0.92

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.045
              K_oxygenase 192 kriaVvGsGqSaaeifedllrr.qkkvelklvtr 224
                              k i +vG+G S+   +  l+++  +k ++ l+ +
  PHY93_17270|PHY93_17270   2 KAIGIVGGGFSGTMTAVWLMKNsTEKLQIYLIEK 35 
                              5789*********999999999455688877755 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 0.00011
              K_oxygenase 190 akkriaVvGsGqSaaeifedllrrqkkvelklvtrsea 227
                               +  i+++G G S  +++  l++  ++ +++ v+r+ +
  PHY93_17270|PHY93_17270 163 GPGPITIIGTGLSMVDVVVYLHSIGHQGKITAVSRRGR 200
                              56679******************************976 PP

>> Pyr_redox  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   0.0    0.0084        21       2      29 ..       4      34 ..       3      48 .. 0.72
   2 ?   -2.5   0.0       3.1   7.8e+03      35      55 ..     100     121 ..      90     135 .. 0.56
   3 ?    7.2   0.0    0.0029       7.4       2      44 ..     167     214 ..     166     224 .. 0.81

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.0084
                             EEEECSSHHHHHHHHHH...HHTTSEEEEEE CS
                Pyr_redox  2 vvvvGgGyiglElAgal...aelgkkVtvve 29
                             + +vGgG++g + A  l   +  + +++++e
  PHY93_17270|PHY93_17270  4 IGIVGGGFSGTMTAVWLmknSTEKLQIYLIE 34
                             579*********9988854322334566665 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 3.1
                              S.TTSSHHHHHHHHHHHHHTTE CS
                Pyr_redox  35 l.rllDeeaskilqeklekngi 55 
                              l +++ e a+++l e ++++ i
  PHY93_17270|PHY93_17270 100 LaKAIKESAGRVLVEIIKDQVI 121
                              4444444444444444444433 PP

  == domain 3  score: 7.2 bits;  conditional E-value: 0.0029
                              EEEECSSHHHHHHHHHHHHTTS..EEEEEESSSSSS...TTSSHHHHH CS
                Pyr_redox   2 vvvvGgGyiglElAgalaelgk..kVtvversdkll...rllDeeask 44 
                              ++++G G++ +++  +l+ +g+  k+t v r+ +     + +D+++++
  PHY93_17270|PHY93_17270 167 ITIIGTGLSMVDVVVYLHSIGHqgKITAVSRRGRAPlahQFYDATVAR 214
                              78*******************655999999988744367777777765 PP

>> NAD_binding_8  NAD(P)-binding Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.0   1.2e-05      0.03       1      42 [.       6      50 ..       6      75 .. 0.80
   2 ?   -3.4   0.2       4.7   1.2e+04       1       7 [.     169     175 ..     169     175 .. 0.91

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 1.2e-05
                             EE--SHHHHHHHHHHHCC...TEEEEEE-SSSSSSGGG-EECETT CS
            NAD_binding_8  1 IvGaGlsGlvaAylLaka...gfdvlllekrdrlGGraasyevpg 42
                             IvG+G+sG  +A  L k+   ++++ l+ek +   G+a+   +p 
  PHY93_17270|PHY93_17270  6 IVGGGFSGTMTAVWLMKNsteKLQIYLIEKDHLARGQAYADIDPH 50
                             9********99988877546699*******998989998776665 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 4.7
                              EE--SHH CS
            NAD_binding_8   1 IvGaGls 7  
                              I+G+Gls
  PHY93_17270|PHY93_17270 169 IIGTGLS 175
                              9****97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (392 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       583  (0.0325172); expected 358.6 (0.02)
Passed bias filter:                      540  (0.0301188); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.59u 0.26s 00:00:00.85 Elapsed: 00:00:00.43
# Mc/sec: 2767.30
//
Query:       PHY93_15910|PHY93_15910  [L=644]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      2e-15   57.3   0.4      2e-15   57.3   0.4    2.3  3  VWA_2     von Willebrand factor type A domain
    1.1e-08   35.5   0.3    1.1e-08   35.5   0.3    1.9  2  VWA       von Willebrand factor type A domain
    0.00014   22.3   0.5    0.00035   21.0   0.5    1.7  1  TPR_19    Tetratricopeptide repeat
     0.0019   17.6   1.4     0.0025   17.2   0.1    1.7  2  VWA_CoxE  VWA domain containing CoxE-like protein
     0.0026   18.0   0.4     0.0051   17.0   0.4    1.5  1  ANAPC3    Anaphase-promoting complex, cyclosome, subunit 3
  ------ inclusion threshold ------
        0.1   12.4   0.0       0.23   11.3   0.0    1.6  1  Ssl1      Ssl1-like
        7.6    7.1   7.1         37    4.9   2.0    2.3  2  FtsX      FtsX-like permease family


Domain annotation for each model (and alignments):
>> VWA_2  von Willebrand factor type A domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.3   0.4   7.9e-19     2e-15       1     107 []      83     196 ..      83     196 .. 0.95
   2 ?   -2.3   0.0       2.7   6.8e+03      65      93 ..     369     395 ..     361     403 .. 0.71
   3 ?   -3.1   0.1         5   1.3e+04      61      82 ..     431     452 ..     417     469 .. 0.53

  Alignments for each domain:
  == domain 1  score: 57.3 bits;  conditional E-value: 7.9e-19
                    VWA_2   1 lvfvlDtSgSmrngdygptrleaakdaveallkslpgdrvglvtfsdgpevlipltkdkakilnalrnleak...gggtnlaaaLq 83 
                              +++++D+S Sm ++d++p+r+ +  +++++++k+ +g ++++v fsd  ++lip+t+d + i+++l +le     +gg+n+ +a++
  PHY93_15910|PHY93_15910  83 TIILIDSSTSMLAEDVRPNRFVKSLQLARHFVKNAAGHQISIVLFSDIQKRLIPFTDDIDLIDSRLAALEKNnsvAGGSNISQAIE 168
                              68********************************************************************99************** PP

                    VWA_2  84 larkalkkrr....kgekrvivlitDge 107
                               a + ++ ++    k+++  ++++tD+e
  PHY93_15910|PHY93_15910 169 EAIQYFEFDSsdddKSKSGNMLVFTDAE 196
                              *****965555677999*********75 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 2.7
                    VWA_2  65 alrnleakgggtnlaaaLqlarkalkkrr 93 
                               l+ ++  +g+ + +  L++a+k+l+++ 
  PHY93_15910|PHY93_15910 369 DLELIQ--EGKADREYVLKTAEKMLRAKD 395
                              455555..488888999999999998776 PP

  == domain 3  score: -3.1 bits;  conditional E-value: 5
                    VWA_2  61 kilnalrnleakgggtnlaaaL 82 
                              + l ++++l   +++ +l + L
  PHY93_15910|PHY93_15910 431 DALPIIQDLMKNSKNEDLKDKL 452
                              3333344444334444444444 PP

>> VWA  von Willebrand factor type A domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.5   0.3   4.3e-12   1.1e-08       3     127 ..      84     213 ..      84     225 .. 0.85
   2 ?   -2.2   0.6       1.7   4.4e+03      60      99 ..     428     466 ..     410     474 .. 0.68

  Alignments for each domain:
  == domain 1  score: 35.5 bits;  conditional E-value: 4.3e-12
                              EEEEE-STTS.....CHHHHHHHHHHHHHHHHHHTBTTTTEEEEEEEESSSEEEEEETTSHCHH.HHHHHHHHTGSGGGGSSC-HH CS
                      VWA   3 vfvlDgSgsm.....geenfekvkefikklveklevgpegtrvglvqfssevktefslndyssk.eellsalnnlkysgggttntg 82 
                              ++++D+S sm     ++++f k ++ + ++v++      g ++++v fs+ +k  ++++d+ +  ++ l al++ +   gg++ + 
  PHY93_15910|PHY93_15910  84 IILIDSSTSMlaedvRPNRFVKSLQLARHFVKNAA----GHQISIVLFSDIQKRLIPFTDDIDLiDSRLAALEKNNSVAGGSN-IS 164
                              58********8888888888899999999999999....*********************99655999999999777777777.** PP

                              HHHHHHHHHHHHHHGTSSTTSEEEEEEEESS--CSS....HTHHHHHHH CS
                      VWA  83 kalkyaleklfkssagaRenakkviilltdGksndg....dpkeaanea 127
                              +a+++a++ +   s+   +  +  ++++td ++++g    ++ +++n a
  PHY93_15910|PHY93_15910 165 QAIEEAIQYFEFDSSDDDKSKSGNMLVFTDAEESEGafkvNIPPNVNLA 213
                              ********8776666655578999******9998876777777777766 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 1.7
                              HHHHHHHHHHTGSGGGGSSC-HHHHHHHHHHHHHHHHGTS CS
                      VWA  60 skeellsalnnlkysgggttntgkalkyaleklfkssaga 99 
                                +++l  +++l+  +++++ +++ l + l++++++++++
  PHY93_15910|PHY93_15910 428 RLKDALPIIQDLMKNSKNED-LKDKLRKNLRTHIEQKKKQ 466
                              44677777888766666666.8999988888888888773 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.0   0.5   1.4e-07   0.00035       2      64 ..     391     451 ..     390     454 .. 0.91

  Alignments for each domain:
  == domain 1  score: 21.0 bits;  conditional E-value: 1.4e-07
                   TPR_19   2 laegdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeedpddaryasL 64 
                              l ++d  +A +l+++ ++++++++e+r ++A  ll++++l++A  ++++l++  ++ +++++ 
  PHY93_15910|PHY93_15910 391 LRAKDAKRATELYSE-YAKKNDSEEVRFNYATSLLKSNRLKDALPIIQDLMKNSKN-EDLKDK 451
                              67899**********.9***********************************9999.776655 PP

>> VWA_CoxE  VWA domain containing CoxE-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.1   9.7e-07    0.0025      57     164 ..      80     199 ..      43     204 .. 0.80
   2 ?   -2.0   0.1      0.76   1.9e+03      26      43 ..     444     461 ..     440     475 .. 0.78

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 9.7e-07
                 VWA_CoxE  57 prelvllvDvSgSmaaysaiflallhAllqqlp........rtevfaFdt...rlvdlTralrerDpaeaLarvsaavedlgGgTr 131
                              +++ ++l+D S Sm a  +   +++++l+  ++        ++++++F++   rl+  T++++    ++ La ++ + + + Gg++
  PHY93_15910|PHY93_15910  80 DQRTIILIDSSTSMLAEDVRPNRFVKSLQLARHfvknaaghQISIVLFSDiqkRLIPFTDDID--LIDSRLAALE-KNNSVAGGSN 162
                              458899********987777788888888777777777789999****975558999999998..4555666666.5678****** PP

                 VWA_CoxE 132 igaalaeflelvtrpaL....srravvvlvsDglerg 164
                              i++a++e+++ +++ +     s+   +++++D++e++
  PHY93_15910|PHY93_15910 163 ISQAIEEAIQYFEFDSSdddkSKSGNMLVFTDAEESE 199
                              ************9987311113455789999988876 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.76
                 VWA_CoxE  26 rriDlrrtlranlrhgge 43 
                              ++ Dl+  lr+nlr+  e
  PHY93_15910|PHY93_15910 444 KNEDLKDKLRKNLRTHIE 461
                              56699********99755 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.4     2e-06    0.0051      22      80 ..     379     437 ..     370     439 .. 0.85

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 2e-06
                              -HHHHHHHHHHHHHTT-HHHHHHHHHCTSHHHC-HHHHHHHHHHHHHTT-HHHHHHHH- CS
                   ANAPC3  22 spedayllAlclylngqykrAyellrkaklnskslgcrylfAqcllkLkkyeeAiaaLe 80 
                              + e ++  A+ ++++++ krA el++++ +++ s+++r+ +A +llk +++++A+ +++
  PHY93_15910|PHY93_15910 379 DREYVLKTAEKMLRAKDAKRATELYSEYAKKNDSEEVRFNYATSLLKSNRLKDALPIIQ 437
                              34444455999*****************999999********************97765 PP

>> Ssl1  Ssl1-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   8.9e-05      0.23       2      31 ..      87     116 ..      86     173 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 8.9e-05
                              EE-SGGGGSSSSSS-HHHHHHHHHHHHHHH CS
                     Ssl1   2 lDlsrameekdlkpsrlavviklleefvee 31 
                              +D s +m  +d++p+r++  ++l+++fv++
  PHY93_15910|PHY93_15910  87 IDSSTSMLAEDVRPNRFVKSLQLARHFVKN 116
                              8**************************986 PP

>> FtsX  FtsX-like permease family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.9   2.0     0.015        37      23      81 ..       6      63 ..       1      67 [. 0.79
   2 ?    4.8   0.2     0.015        38      66      93 ..     302     330 ..     266     333 .. 0.73

  Alignments for each domain:
  == domain 1  score: 4.9 bits;  conditional E-value: 0.015
                     FtsX 23 teillitlvalviGlglgllaaqllsdvllssvfsselkisidlitvliiivlllllal 81
                             t++l +++va+++  +l++ +   +++++ s++f +  +++  ++tvl +i l+l+++ 
  PHY93_15910|PHY93_15910  6 TQYLTYAFVAIIVFGILLNRLNSQFFKWVKSYWF-FDRTMTSRISTVLYTISLFLMMTA 63
                             8899999999999988888888889*******99.777777777777777777776655 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.015
                     FtsX  66 litvlii.ivlllllallagllsiskilk 93 
                              ++++++i ++ll +l +l+g ++i+k++k
  PHY93_15910|PHY93_15910 302 FSHYILIpAILLYCLSILIGRFPIFKVSK 330
                              4555555055566999999*******987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (644 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      3560  (0.198561); expected 358.6 (0.02)
Passed bias filter:                      845  (0.0471303); expected 358.6 (0.02)
Passed Vit filter:                       393  (0.0219198); expected 17.9 (0.001)
Passed Fwd filter:                       104  (0.00580066); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 2.00u 0.36s 00:00:02.36 Elapsed: 00:00:00.57
# Mc/sec: 3388.73
//
Query:       PHY93_15915|PHY93_15915  [L=577]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.1e-64  216.6   5.9    7.6e-64  216.3   5.9    1.0  1  BatD      Oxygen tolerance


Domain annotation for each model (and alignments):
>> BatD  Oxygen tolerance
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  216.3   5.9   4.3e-68   7.6e-64       3     470 ..      15     500 ..      13     508 .. 0.80

  Alignments for each domain:
  == domain 1  score: 216.3 bits;  conditional E-value: 4.3e-68
                     BatD   3 lalaaaaaeftasvdknevevgetfrLtftvngasgepdfsapslekdfevlsg....sqssstqiinGkssssssktwtytLapk 84 
                              +++++ a e++++v++ e  ++e+f +tf+++++  + +  + s++    v++g    ++s st++inGk ++s+++++ y L + 
  PHY93_15915|PHY93_15915  15 IIPTLRAEEVEVEVSPPEPLMNESFFVTFKIKTTG-NVEPYI-SFTPSGAVVQGkseqGVSISTTVINGKFTTSREQSYVYELFAD 98 
                              67788999**************************4.333333.465666666666999999************************* PP

                     BatD  85 keGtltIpaatievdgktyksnpitikVlkseasqsssaisdedlflraevskksvYvqeqvlvtlklytrvnvnledgkl...pd 167
                              ++G+  +  +++e++gk    + + ++Vl+       +a++  d+f++a++sk++vY++e++ v ++ly++  +++ ++++   p+
  PHY93_15915|PHY93_15915  99 HQGQAVLRNIKVEIGGKVTNVKDVHVNVLA-------QARKVPDAFMEATASKTKVYLGEAIDVNYYLYFK--TSIAANDVkefPK 175
                              ****************************55.......45555689**************************..55433333336** PP

                     BatD 168 legflveelglpekkqyeetvnGrryrvvelrryalfPqksGkltIpplefdgtvevrsqrrd...fngggyrevkkrvsspavti 250
                              l+ f+  +  + +   ++ +++G+ ++ +  ++  lfP+k G+ +++p+++++++  ++ ++    f++g++  ++k + sp ++i
  PHY93_15915|PHY93_15915 176 LNKFIK-RFHHINSPVETVQYKGQVFKRILAYSAKLFPEKVGNAVLDPMTISVQIVENDYSSPfggFGMGSQHYKNKDLASPRIEI 260
                              ****65.555347889999************************************77777774445666699************** PP

                     BatD 251 tVkplPaeglPadFsgavgsfslsaslskdelkvgepltltvtisGtGNlkllqlPelnfpegfevYdpkpedntkktgnglsGsr 336
                              +V+plP+e+ Pa+F+g+vg+ +++ s+ k+++ v+ep+ ++++++G+G l+++ +P + + +++e++d k e    ++ +   +++
  PHY93_15915|PHY93_15915 261 EVLPLPSENVPAGFTGMVGEHEFNLSIAKNKYLVNEPIEVKLEVKGKGALENMDAPAIYTDNSLEQFDTKSE---VTELGTQAAKK 343
                              **********************************************************************33...33344557888 PP

                     BatD 337 teeyalvPrkaGkytipaiefsyFDtatkkyetatlpeitikVekga..aaasspasstsaspaqkeevkllgkdirfi.k...ge 416
                              ++ey++ +r + +++   +++ yFD+++++y   +++   i+V+  a  +++s+ a++ ++++ +k +   +++d+  + k   ++
  PHY93_15915|PHY93_15915 344 VFEYTYLARGPISLKSRDLNLAYFDPSSGRYIEKKVNIPGIEVSGVAavSNTSNGANQGQNQNINKDQSG-TENDF--LsKlfsSN 426
                              8*******************************99999999999333344344443344444444433333.33333..32234433 PP

                     BatD 417 aslkkkgs.ff..........lfw.........lllllplllfvvllllwrkrrrenadvaaskkkkanklark 470
                               s kk ++ ++          + w         + l ++ ++++  +++  k+  +n d+a+  +k  +++  k
  PHY93_15915|PHY93_15915 427 DSSKKIEKnTIglvgpmikgeTKWfdrwfdvlnFGLGAITIVILGKWYFESKNIIRNGDHATEVRKIIAHMKNK 500
                              33333333333355888888855577779998855544444445788999999999999999988866666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (577 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       574  (0.0320152); expected 358.6 (0.02)
Passed bias filter:                      358  (0.0199677); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.63u 0.26s 00:00:00.89 Elapsed: 00:00:00.45
# Mc/sec: 3837.44
//
Query:       PHY93_15920|PHY93_15920  [L=308]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.4e-39  133.2   0.1    8.1e-39  132.4   0.1    1.5  1  Flavokinase      Riboflavin kinase
    8.3e-39  133.0   0.1    1.6e-38  132.1   0.1    1.4  1  FAD_syn          FAD synthetase
    6.5e-05   23.2   0.0    0.00018   21.7   0.0    1.8  2  CTP_transf_like  Cytidylyltransferase-like
     0.0074   16.0   0.0      0.022   14.5   0.0    1.7  2  Citrate_ly_lig   Citrate lyase ligase C-terminal domain


Domain annotation for each model (and alignments):
>> Flavokinase  Riboflavin kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  132.4   0.1   1.8e-42   8.1e-39       1     109 [.     185     306 ..     185     308 .] 0.95

  Alignments for each domain:
  == domain 1  score: 132.4 bits;  conditional E-value: 1.8e-42
                              HTS-EEEEEEEES-SSCHTTTT--EEEEE-.S-B-.GTSEEEEEEEE.......EEEEEEEETTTSSE....EEEEETT--S--TT CS
              Flavokinase   1 LgrpyslsgkVvkGkkrGrelgfpTaNlel.ekll.pkkGVYavrvk.......gvaniGvrptfknk....vEvhildfsedlyg 73 
                              Lgrpy l+g+V+kG++rG+++gfpTaN++  ++l+ p +GVY+++++       +v+niG++ptf+      +E+h+ldf++d+yg
  PHY93_15920|PHY93_15920 185 LGRPYFLTGRVIKGQGRGKQIGFPTANIDYgKELItPGNGVYITQTTihdmtynSVTNIGINPTFNMGaevnIETHLLDFNRDIYG 270
                              89***************************9977777*****************************87456789************* PP

                              SEEEEEEEEEEEE----SSHHHHHHHHHHHHHHHHH CS
              Flavokinase  74 kelrvellkflRpekkFdsleaLkaqikkDvekare 109
                              +e+rv++l++lR+ekkF+s+++L++qi++D++ a+ 
  PHY93_15920|PHY93_15920 271 EEMRVSFLRKLRDEKKFSSVNDLVSQIDNDIQSAKF 306
                              ********************************9985 PP

>> FAD_syn  FAD synthetase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  132.1   0.1   3.6e-42   1.6e-38       5     157 ..      16     167 ..      13     168 .. 0.98

  Alignments for each domain:
  == domain 1  score: 132.1 bits;  conditional E-value: 3.6e-42
                  FAD_syn   5 degavvtlGnFDGvHlGHqallkkaveaakekglpsvvvtFephPrevlakekaparLttleeklelleelgvdavlvvdFtkefa 90 
                              +e+  vt+GnFDGvH+GH++ l+++ +  k ++ + vv+tF phP ++l+  +  + ++t +e+ ell+++gvd++l vdFt++f+
  PHY93_15920|PHY93_15920  16 EEKVQVTIGNFDGVHIGHREFLSRISQDCKLSKSKFVVITFVPHPVQILK-AQSGFLINTFSERRELLAQCGVDYLLEVDFTRDFS 100
                              67889*********************************************.8999******************************* PP

                  FAD_syn  91 elsaeeFiekllveklkvkavvvGfdfrfGkkregdvellkelgaklgfevevvpkveleeekisst 157
                               l +e+F+ek++ +  ++k + +G df fG++++gd +l k+l++k ++ +   +++ l+++ +ss+
  PHY93_15920|PHY93_15920 101 TLLPEDFLEKYVFSFSGIKKIYLGHDFVFGANKSGDYKLAKNLCEKENIILILQDEFRLDNHSVSSS 167
                              *****************************************************************97 PP

>> CTP_transf_like  Cytidylyltransferase-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.7   0.0     4e-08   0.00018       2      80 ..      22     111 ..      21     172 .. 0.76
   2 ?   -1.9   0.0      0.77   3.4e+03      43      71 ..     266     294 ..     255     304 .. 0.69

  Alignments for each domain:
  == domain 1  score: 21.7 bits;  conditional E-value: 4e-08
                              EEE--TT--HHHHHHHHHHHHHSSES.....EEEEEESSTHCSST-..SCSSTHHHHHHHHHHHTTCTTEEEEEEESEHH.....H CS
          CTP_transf_like   2 agGtFDpiHlGHlrlleqakklleed.....livgvpsdeppkkkk..kplasaeeRlemlelakevdevisvdpweltr.....e 75 
                              + G+FD +H+GH + l ++ +  +++     +i +vp +++  k +    + + +eR e l ++  vd++++vd+          +
  PHY93_15920|PHY93_15920  22 TIGNFDGVHIGHREFLSRISQDCKLSkskfvVITFVPHPVQILKAQsgFLINTFSERRELLAQC-GVDYLLEVDFTRDFStllpeD 106
                              78********************999999999999999999998885578999************.999999888754433455565 PP

                              HHHHT CS
          CTP_transf_like  76 vlkkl 80 
                              +l+k+
  PHY93_15920|PHY93_15920 107 FLEKY 111
                              55555 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 0.77
                              SCSSTHHHHHHHHHHHTTCTTEEEEEEES CS
          CTP_transf_like  43 kplasaeeRlemlelakevdevisvdpwe 71 
                              +++  +e R+  l+++++++++ sv++ +
  PHY93_15920|PHY93_15920 266 RDIYGEEMRVSFLRKLRDEKKFSSVNDLV 294
                              56667777888888887777766666654 PP

>> Citrate_ly_lig  Citrate lyase ligase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.5   0.0   4.8e-06     0.022      93     174 ..     103     185 ..      87     190 .. 0.82
   2 ?   -2.0   0.0      0.56   2.5e+03     148     175 ..     268     295 ..     229     299 .. 0.72

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 4.8e-06
           Citrate_ly_lig  93 lDlklfkeriakalgitkryvGeeplsevtaaYnqalkevlekae.ievveierkekeeelisaskvrkllkeknleklaelv 174
                              l  +  ++++    gi+k y+G++ +    +  + +l++ l ++e i ++  +  + +++ +s+s vr++++++++ek+ +l+
  PHY93_15920|PHY93_15920 103 LPEDFLEKYVFSFSGIKKIYLGHDFVFGANKSGDYKLAKNLCEKEnIILILQDEFRLDNHSVSSSVVRSAISKGEMEKVISLL 185
                              555667788888899*********999999999989988886665377777777799**********************9997 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.56
           Citrate_ly_lig 148 keeelisaskvrkllkeknleklaelvP 175
                                +e +  s  rkl  ek+++++++lv 
  PHY93_15920|PHY93_15920 268 IYGEEMRVSFLRKLRDEKKFSSVNDLVS 295
                              4455666778888888888888888886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (308 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       549  (0.0306208); expected 358.6 (0.02)
Passed bias filter:                      451  (0.0251548); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.41
# Mc/sec: 2238.88
//
Query:       PHY93_15925|PHY93_15925  [L=234]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.9e-09   36.6   0.0    8.7e-09   35.5   0.0    1.6  1  Shikimate_dh_N  Shikimate dehydrogenase substrate binding dom
  ------ inclusion threshold ------
      0.087   11.6   0.0       0.12   11.2   0.0    1.1  1  DUF2957         Protein of unknown function (DUF2957)


Domain annotation for each model (and alignments):
>> Shikimate_dh_N  Shikimate dehydrogenase substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.5   0.0   9.8e-13   8.7e-09       1      83 []       6      83 ..       6      83 .. 0.84

  Alignments for each domain:
  == domain 1  score: 35.5 bits;  conditional E-value: 9.8e-13
                             EEESS-TT-SHHHHHHHHHHHCTSSEEEEEEE-S.CCTHHHHHHHHHHTTESEEEE-TTSCCHHHGGSSEE-HHHHHHT--SEE CS
           Shikimate_dh_N  1 viGnpikhSlSPaihnaafkalglngsyeafeve.edelekaveelralglaGlnvTiPfKeaviplldelseeAkaigAvNti 83
                             ++G++i+hS+SP i++ ++   g +++y +++ + + e+++a e l+   ++G+++T P+K++ +p ++ l++ A  +gAvN++
  PHY93_15925|PHY93_15925  6 LVGKNIQHSRSPDIYQGIL---GNEVEYGLLDFAdATEIPSAKELLS--IYDGVSITSPYKKHFLPDIE-LTSCASLVGAVNCL 83
                             79*************9885...7788888888883345555555554..89*****************7.************96 PP

>> DUF2957  Protein of unknown function (DUF2957)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   1.4e-05      0.12     143     229 ..     105     190 ..      89     194 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 1.4e-05
                  DUF2957 143 qnfapaavdaketlnaDGscdtigekadgsckttgtpftlrgsadgafvsknyes..sakyptlgqasplvlaasakgilivGkLr 226
                              +n+ ++  + +  +  DG  +t++++a ++c+ t+ ++  r ++++ f   n+    ++++pt+   + +v++++++ ++  G L 
  PHY93_15925|PHY93_15925 105 ENWIQEYKQLNIIILGDGVMSTVTQQALNKCRVTSFKVFSR-KTSNYFDQLNIPKifETQFPTA--RQRIVINTCSRDFIFKGCLD 187
                              6899999999*************************999977.7788999998654227777887..555678999**999999998 PP

                  DUF2957 227 gql 229
                               q 
  PHY93_15925|PHY93_15925 188 KQT 190
                              876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (234 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       438  (0.0244297); expected 358.6 (0.02)
Passed bias filter:                      355  (0.0198003); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 1754.55
//
Query:       PHY93_15930|PHY93_15930  [L=555]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      2e-80  269.8   0.0    2.8e-80  269.3   0.0    1.2  1  T2SSE     Type II/IV secretion system protein
      6e-11   42.6   0.1    1.6e-10   41.2   0.1    1.7  1  T2SSE_N   Type II secretion system (T2SS), protein E, N-termi
     0.0066   16.7   0.0      0.041   14.2   0.0    2.1  2  AAA_22    AAA domain
      0.007   16.7   0.0      0.017   15.5   0.0    1.6  1  AAA_19    AAA domain
  ------ inclusion threshold ------
      0.011   15.4   0.0      0.024   14.3   0.0    1.5  1  AAA_30    AAA domain
      0.011   15.4   0.0      0.023   14.4   0.0    1.4  1  AAA_29    P-loop containing region of AAA domain
      0.015   15.1   0.0      0.028   14.2   0.0    1.6  1  AAA_11    AAA domain
      0.023   15.1   0.0      0.052   13.9   0.0    1.7  1  AAA_16    AAA ATPase domain
      0.028   14.4   0.1       0.11   12.6   0.0    2.0  2  AAA_14    AAA domain
      0.082   12.6   0.0       0.17   11.6   0.0    1.5  1  AAA_24    AAA domain
      0.091   12.8   0.1       0.22   11.5   0.1    1.6  1  ResIII    Type III restriction enzyme, res subunit
      0.093   13.1   0.0       0.27   11.7   0.0    1.8  1  AAA       ATPase family associated with various cellular acti
       0.11   13.0   2.5       0.12   12.9   0.0    2.1  2  AAA_23    AAA domain
       0.12   12.1   0.0       0.27   11.0   0.0    1.7  1  DEAD      DEAD/DEAH box helicase
       0.17   11.8   0.8       0.54   10.1   0.2    2.1  2  NTPase_1  NTPase


Domain annotation for each model (and alignments):
>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  269.3   0.0   2.3e-83   2.8e-80       5     272 ..     180     443 ..     176     444 .. 0.98

  Alignments for each domain:
  == domain 1  score: 269.3 bits;  conditional E-value: 2.3e-83
                    T2SSE   5 leallddekvsdihvekper.vkvrervdgielreveelekaalerlisriaalakldiseerplqdarlp....ekgvrlrvvll 85 
                               ea+   +k sdih+e++e+ +++r r dg +l e+++++++++  +isr+++la++dise+r++qd+r++    +k ++ rv+ l
  PHY93_15930|PHY93_15930 180 AEAF--VTKCSDIHIEPYENnFRIRYRQDG-SLVEAAKPPRNLMLPIISRVKILAQMDISEKRKPQDGRIKleigGKPIDYRVSSL 262
                              5555..6789********************.*******************************************99********** PP

                    T2SSE  86 PvvagealviR..kksakeltlddlgaeealkekiaevlrkavrerglilvsGgTgsGKttllyallkeinksderivtvEDpvEi 169
                              P++ ge++v+R  ++s+ +l++ +lg+e+++ e ++e + ++   +g+ lv+G+TgsGKtt+ly++++e+n+ d +i t+EDpvE 
  PHY93_15930|PHY93_15930 263 PTLFGEKIVLRllDSSNLQLDMTKLGFEQKQLEVFKEGIYRP---YGMCLVTGPTGSGKTTTLYSAIAELNTIDTNISTAEDPVEF 345
                              ******************************************...***************************************** PP

                    T2SSE 170 qleganqvqlnakkakvtfadllraaLRlrPDrimvGEiRdketlei.lkAvnTGHlgslsTlHansaagalerLeqlgaeveaae 254
                              +leg+nqv+++++  ++tfa++l+++LR++PD+imvGEiRd e+ ei ++A+ TGHl+ lsTlH+n+a ++++rL ++g  +e++ 
  PHY93_15930|PHY93_15930 346 NLEGINQVNVKKD-IGLTFAAALKSFLRQDPDIIMVGEIRDGEVGEIaIEAALTGHLV-LSTLHTNDAPSTITRLINMG--IEPFL 427
                              *************.********************************************.********************..***** PP

                    T2SSE 255 lkssilavvdivvrlvrk 272
                              ++  ++ +  +++rl r+
  PHY93_15930|PHY93_15930 428 VAAAVNVI--VAQRLCRR 443
                              ******99..*****997 PP

>> T2SSE_N  Type II secretion system (T2SS), protein E, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.2   0.1   1.4e-13   1.6e-10       5     102 ..      42     138 ..      38     144 .. 0.92

  Alignments for each domain:
  == domain 1  score: 41.2 bits;  conditional E-value: 1.4e-13
                  T2SSE_N   5 gllseeqlleaLaeqlglpfldldqleidpsllqllpleflrrygvlPlreedgkllvavvdPldlaaldelqrllgkkgvkpvla 90 
                              ++ +   +++ Lae ++l ++dl+  +i++++++ ++ + + +y+v+P++ ++ ++ +a+ dP+   ++ elq l+++ +++++l+
  PHY93_15930|PHY93_15930  42 KFFDDIRFAKQLAENYNLTYIDLSKAKIPERIFKIVKKSDIIKYRVIPIQKNAKAVSIAIYDPSLIKLQAELQSLFQY-PIEFILT 126
                              55666678999*******************************************************************.******* PP

                  T2SSE_N  91 tksdidalldrl 102
                              + s +++++ r+
  PHY93_15930|PHY93_15930 127 SLSSWADMFARV 138
                              ******999987 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.0       1.6   1.9e+03      45      71 ..     123     153 ..     110     184 .. 0.68
   2 !   14.2   0.0   3.4e-05     0.041       6      28 ..     306     328 ..     302     356 .. 0.82

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 1.6
                   AAA_22  45 vtlpsstsskdllrellralglelka....e 71 
                              + l+s++s++d++ ++ + +++ l++    +
  PHY93_15930|PHY93_15930 123 FILTSLSSWADMFARVPESIEDVLETireiK 153
                              5677888888888888888887776655551 PP

  == domain 2  score: 14.2 bits;  conditional E-value: 3.4e-05
                   AAA_22   6 gilvvtGesGtGKTtllrrlleq 28 
                              g+++vtG++G+GKTt+l     +
  PHY93_15930|PHY93_15930 306 GMCLVTGPTGSGKTTTLYSAIAE 328
                              899***********998655555 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   1.4e-05     0.017       9      38 ..     304     333 ..     298     341 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.4e-05
                   AAA_19   9 kekvllvtaGpGtGKTrvlkhivallvelg 38 
                              + +++lvt++ G+GKT++l  ++a+l+ + 
  PHY93_15930|PHY93_15930 304 PYGMCLVTGPTGSGKTTTLYSAIAELNTID 333
                              56789*******************998775 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0     2e-05     0.024       3      38 ..     290     325 ..     288     339 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 2e-05
                   AAA_30   3 naeQaaavealltsgdrvavltGpAGtGKttalkal 38 
                              +++Q +++++ +  +  ++++tGp G+GKtt+l ++
  PHY93_15930|PHY93_15930 290 EQKQLEVFKEGIYRPYGMCLVTGPTGSGKTTTLYSA 325
                              578999999999999****************99766 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0   1.9e-05     0.023      21      39 ..     304     322 ..     295     339 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 1.9e-05
                   AAA_29  21 lkgatlltGpsGsGKSTll 39 
                              + g++l+tGp+GsGK+T l
  PHY93_15930|PHY93_15930 304 PYGMCLVTGPTGSGKTTTL 322
                              55899**********9976 PP

>> AAA_11  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   2.4e-05     0.028       4      43 ..     291     335 ..     288     444 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 2.4e-05
                   AAA_11   4 dsqreaiksalsese.itliqGPPGtgKTktivellsqll....s 43 
                              ++q+e +k+ + ++  ++l+ GP G+gKT+t+ + +++l+    +
  PHY93_15930|PHY93_15930 291 QKQLEVFKEGIYRPYgMCLVTGPTGSGKTTTLYSAIAELNtidtN 335
                              66777775555555459*********************9644430 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   4.3e-05     0.052      23      45 ..     303     327 ..     290     425 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 4.3e-05
                   AAA_16  23 rp.elvllsGesGvGKsslv.rell 45 
                              rp +++l++G+ G+GK++ +  +++
  PHY93_15930|PHY93_15930 303 RPyGMCLVTGPTGSGKTTTLySAIA 327
                              45689*************9944444 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.1       5.8   6.9e+03      28      41 ..      54      67 ..      41      86 .. 0.57
   2 ?   12.6   0.0     9e-05      0.11       4      47 ..     307     356 ..     305     387 .. 0.75

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 5.8
                   AAA_14 28 vkkesilyinldde 41
                             +++ +  yi+l + 
  PHY93_15930|PHY93_15930 54 AENYNLTYIDLSKA 67
                             24445555555554 PP

  == domain 2  score: 12.6 bits;  conditional E-value: 9e-05
                   AAA_14   4 ilvitGaRrvGKTtllkqlikell......vkkesilyinldderdkkla 47 
                              ++++tG+  +GKTt l+  i el        ++e+ +++nl+  ++ + +
  PHY93_15930|PHY93_15930 307 MCLVTGPTGSGKTTTLYSAIAELNtidtniSTAEDPVEFNLEGINQVNVK 356
                              679*****************999988888777788888888887775544 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00014      0.17       5      42 ..     308     357 ..     305     381 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00014
                   AAA_24   5 iliyGpsgiGKTtlakel.............gpkplfidtekGlksldadk 42 
                              +l++Gp g+GKTt+++++              ++p+ +++e+  ++++++k
  PHY93_15930|PHY93_15930 308 CLVTGPTGSGKTTTLYSAiaelntidtnistAEDPVEFNLEG-INQVNVKK 357
                              799**************9888788877777777777777776.66666665 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   0.00019      0.22      27      49 ..     307     330 ..     280     336 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00019
                              EE.EEESTTSTHHHHHHHHHHHH- CS
                   ResIII  27 gl.ikmaTGtGKTlvaaklierll 49 
                              ++ +  +TG+GKT +++++i++l 
  PHY93_15930|PHY93_15930 307 MClVTGPTGSGKTTTLYSAIAELN 330
                              444889**************9987 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00022      0.27       2      66 ..     309     382 ..     308     385 .. 0.57

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00022
                              EEESSTTSSHHHHHHHHHHHHT.........HEEEEEETTTCSSSSTTHHHHHHHHHHHHHHHTS...TSEEEEEET CS
                      AAA   2 llyGppGtGKTllakavakelg.........vefleisgsellskyvgesekkirelfkeakeka...kpsilfiDE 66 
                              l++Gp G GKT++  + + el+          + +e+++  +    + + +k+i  +f++a ++    +p i+++ E
  PHY93_15930|PHY93_15930 309 LVTGPTGSGKTTTLYSAIAELNtidtnistaEDPVEFNLEGIN---QVNVKKDIGLTFAAALKSFlrqDPDIIMVGE 382
                              89***********999999985322222222224444444444...3445555555555543222444566666666 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.7       2.4   2.8e+03     123     174 ..      35      92 ..      18     167 .. 0.54
   2 ?   12.9   0.0   9.7e-05      0.12      20      36 ..     306     322 ..     288     327 .. 0.83

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 2.4
                   AAA_23 123 ellgskkiilnlilflgqerfeefel......kdkkerleelekeleeledekkllek 174
                              el   +++ ++ i f +q  ++++++      ++ +er+ ++ k+ + ++ +   ++k
  PHY93_15930|PHY93_15930  35 ELALLQFKFFDDIRFAKQLAENYNLTyidlskAKIPERIFKIVKKSDIIKYRVIPIQK 92 
                              5555555555556555555554444444444344444444444444444333333332 PP

  == domain 2  score: 12.9 bits;  conditional E-value: 9.7e-05
                   AAA_23  20 gltlItGpNGaGKTTil 36 
                              g+ l+tGp+G+GKTT l
  PHY93_15930|PHY93_15930 306 GMCLVTGPTGSGKTTTL 322
                              7889**********977 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   0.00023      0.27       6      36 ..     295     327 ..     290     479 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00023
                              HHHHHHH..TTCEEEEEESTTSSHHHHHHHHHH CS
                              xxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD   6 eaiplil..gggdvlvaaeTGsGKTlaflipvl 36 
                              e++++ +    g +lv ++TGsGKT+    ++ 
  PHY93_15930|PHY93_15930 295 EVFKEGIyrPYGMCLVTGPTGSGKTTTLYSAIA 327
                              55555553333799***********98655554 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.2   0.00045      0.54       3      27 ..     309     333 ..     307     338 .. 0.84
   2 ?   -2.0   0.0       2.5     3e+03      93     105 ..     371     384 ..     350     426 .. 0.57

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00045
                              EEE--TTSSHHHHHHHHHHHH...G CS
                 NTPase_1   3 fiTGppGvGKtTlvkkvlellkssg 27 
                              ++TGp G+GKtT +  ++ +l+  +
  PHY93_15930|PHY93_15930 309 LVTGPTGSGKTTTLYSAIAELNTID 333
                              79***********999999997655 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 2.5
                              H.HHH-EEEE---S CS
                 NTPase_1  93 l.seadviviDEiG 105
                              l +++d+i++ Ei 
  PHY93_15930|PHY93_15930 371 LrQDPDIIMVGEIR 384
                              34566777776663 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (555 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       572  (0.0319036); expected 358.6 (0.02)
Passed bias filter:                      457  (0.0254894); expected 358.6 (0.02)
Passed Vit filter:                        66  (0.00368119); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.67u 0.22s 00:00:00.89 Elapsed: 00:00:00.42
# Mc/sec: 3951.82
//
Query:       PHY93_15935|PHY93_15935  [L=380]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.3e-40  137.2   0.3    1.4e-39  135.8   0.3    1.7  1  T2SSE          Type II/IV secretion system protein
    3.9e-05   23.9   0.0    7.4e-05   23.0   0.0    1.6  1  AAA_22         AAA domain
    8.6e-05   23.1   0.1    0.00036   21.1   0.0    2.0  2  AAA_23         AAA domain
    9.6e-05   22.8   0.0    0.00022   21.7   0.0    1.6  1  AAA_16         AAA ATPase domain
     0.0006   20.3   0.1     0.0012   19.4   0.1    1.6  1  ABC_tran       ABC transporter
    0.00068   19.8   0.2     0.0014   18.8   0.2    1.8  1  DUF87          Helicase HerA, central domain
     0.0012   18.6   0.1      0.003   17.3   0.1    1.7  1  AAA_29         P-loop containing region of AAA domain
     0.0052   16.5   0.0       0.01   15.6   0.0    1.5  1  AAA_30         AAA domain
     0.0059   15.8   0.0      0.014   14.6   0.0    1.6  1  DAP3           Mitochondrial ribosomal death-associated prote
     0.0068   16.0   0.0      0.019   14.6   0.0    1.8  2  SRP54          SRP54-type protein, GTPase domain
  ------ inclusion threshold ------
      0.011   14.6   0.0      0.019   13.9   0.0    1.3  1  TrwB_AAD_bind  Type IV secretion-system coupling protein DNA-
      0.012   15.0   0.1      0.023   14.1   0.1    1.4  1  FtsK_SpoIIIE   FtsK/SpoIIIE family
      0.014   15.4   0.0      0.032   14.3   0.0    1.7  1  AAA_14         AAA domain
      0.015   15.7   0.1      0.046   14.1   0.0    1.8  1  AAA_19         AAA domain
      0.015   15.2   0.2       0.11   12.3   0.1    2.2  2  NTPase_1       NTPase
      0.017   14.7   0.0      0.051   13.1   0.0    1.8  1  AAA_7          P-loop containing dynein motor region
      0.018   15.1   0.0      0.046   13.7   0.0    1.8  2  ResIII         Type III restriction enzyme, res subunit
      0.027   14.2   0.0      0.054   13.3   0.0    1.5  1  ATP_bind_1     Conserved hypothetical ATP binding protein
       0.03   14.1   0.0      0.065   13.0   0.0    1.6  1  AAA_11         AAA domain
      0.032   14.4   0.0      0.054   13.6   0.0    1.5  1  AAA_33         AAA domain
      0.033   14.8   0.0      0.059   13.9   0.0    1.5  1  AAA_18         AAA domain
      0.052   13.5   0.0       0.22   11.4   0.0    2.0  2  ATPase_2       ATPase domain predominantly from Archaea
      0.052   13.9   0.0       0.14   12.6   0.0    1.7  1  RNA_helicase   RNA helicase
      0.062   13.2   0.0       0.11   12.4   0.0    1.4  1  NACHT          NACHT domain
      0.064   12.5   0.0       0.15   11.2   0.0    1.4  1  KAP_NTPase     KAP family P-loop domain
      0.069   12.4   0.0       0.13   11.6   0.0    1.3  1  Zeta_toxin     Zeta toxin
      0.084   12.5   0.0       0.17   11.5   0.0    1.4  1  AAA_27         AAA domain
      0.098   12.1   0.0       0.22   10.9   0.0    1.6  1  SMC_N          RecF/RecN/SMC N terminal domain
        0.1   13.1   0.0       0.26   11.7   0.0    1.7  1  AAA            ATPase family associated with various cellular
        0.1   12.0   0.0       0.18   11.2   0.0    1.3  1  KTI12          Chromatin associated protein KTI12
        0.1   12.5   0.0       0.21   11.5   0.0    1.5  1  Rad17          Rad17 P-loop domain
       0.15   12.1   0.3       0.29   11.2   0.2    1.9  1  CbiA           CobQ/CobB/MinD/ParA nucleotide binding domain


Domain annotation for each model (and alignments):
>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  135.8   0.3   2.6e-42   1.4e-39      10     270 ..      38     296 ..      31     299 .. 0.73

  Alignments for each domain:
  == domain 1  score: 135.8 bits;  conditional E-value: 2.6e-42
                    T2SSE  10 ddekvsdihvekpervkvrervdgielreveelekaalerlisriaalakldiseerplqdarlp.ekgvrlrvvllPvvagealv 94 
                               d+++sd+h+    +  +r   ++i   +   l+ + ++rli++i +  +++  e+++ +d ++  ++ +r+r+++  +  + a+v
  PHY93_15935|PHY93_15935  38 VDSNASDLHITSGTSPGLRV-HGEIIKVKTIPLTGEDTKRLIYQILSEDQKNEFEKKLELDFSFGiKGLARFRANVFNSKGAVAAV 122
                              56677777777666644422.34434444444556666777777777777777777777777776555667777777777777777 PP

                    T2SSE  95 iR.kksakeltlddlgaeealkekiaevlrkavrerglilvsGgTgsGKttllyallkeinks.derivtvEDpvEiqleganqvq 178
                               R    +   +++ l   +     + ++   +   +glilv+G+TgsGK+t+l +l+ ++n++   +i+t+EDpvE   +++ ++ 
  PHY93_15935|PHY93_15935 123 FRiI-PSIIPDFKSLNLPN----VLLKMCDVS---NGLILVTGPTGSGKSTTLASLIDYLNQHeAGHIITLEDPVEFVHAHKSCL- 199
                              7732.23332444444333....333444444...99**************************789***********99998776. PP

                    T2SSE 179 lnak...kakvtfadllraaLRlrPDrimvGEiRdketlei.lkAvnTGHlgslsTlHansaagalerLeqlgae...veaaelks 257
                              +n++   + +++f+++l+++LR++PD+++vGE+Rd+et+e+ l  ++TGHl+ ++TlH+ns +++++r+ +       ++  +l s
  PHY93_15935|PHY93_15935 200 VNQReigTDSLNFSSALKSLLRQDPDIVLVGELRDQETIEAaLTIAETGHLV-FGTLHTNSCVQTINRVINVFPAhqqIQIRTLMS 284
                              4555588899******************************************.****************99986623344444444 PP

                    T2SSE 258 silavvdivvrlv 270
                               +l+   ++++l+
  PHY93_15935|PHY93_15935 285 FVLQG-IVSQQLI 296
                              44444.4666665 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.0   0.0   1.3e-07   7.4e-05       5      56 ..     150     205 ..     146     288 .. 0.82

  Alignments for each domain:
  == domain 1  score: 23.0 bits;  conditional E-value: 1.3e-07
                   AAA_22   5 agilvvtGesGtGKTtllrrlleqldeeakaee..erpevvfvtlpsst..sskdl 56 
                               g+++vtG++G+GK+t+l+ l + l+++++      +++v fv + +s+  +++++
  PHY93_15935|PHY93_15935 150 NGLILVTGPTGSGKSTTLASLIDYLNQHEAGHIitLEDPVEFVHAHKSClvNQREI 205
                              799********************998776555588777777777777766665555 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.0       5.6   3.1e+03      97     100 ..      85      88 ..      10     126 .. 0.65
   2 !   21.1   0.0   6.3e-07   0.00036      15      39 ..     146     170 ..     130     179 .. 0.86

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 5.6
                   AAA_23  97 skkk 100
                               +k+
  PHY93_15935|PHY93_15935  85 DQKN 88 
                              1111 PP

  == domain 2  score: 21.1 bits;  conditional E-value: 6.3e-07
                   AAA_23  15 idFskgltlItGpNGaGKTTildAi 39 
                              +d s+gl l+tGp+G+GK+T l  +
  PHY93_15935|PHY93_15935 146 CDVSNGLILVTGPTGSGKSTTLASL 170
                              678*****************99766 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.7   0.0   3.9e-07   0.00022      23      86 ..     149     224 ..     138     286 .. 0.54

  Alignments for each domain:
  == domain 1  score: 21.7 bits;  conditional E-value: 3.9e-07
                   AAA_16  23 rpelvllsGesGvGKsslvrellralekd............ggiflrgkcdqlesaipy..salaqalareellrqll 86 
                              + +l+l++G+ G+GKs+ + +l ++l+++            +++ +   c  ++++i    + + +al + +llrq  
  PHY93_15935|PHY93_15935 149 SNGLILVTGPTGSGKSTTLASLIDYLNQHeaghiitledpvEFVHAHKSCLVNQREIGTdsLNFSSAL-K-SLLRQDP 224
                              4479*************************543333333322222233333333333222212244444.3.3444333 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.4   0.1   2.1e-06    0.0012      14      67 ..     153     223 ..     147     344 .. 0.72

  Alignments for each domain:
  == domain 1  score: 19.4 bits;  conditional E-value: 2.1e-06
                              EEEEESTTSSHHHHHHHHTTSS--.SEEEE................EETTCEGGGB-HHHCCHCEEEE-SS CS
                              xxxxxxxxxxxxxxxxxxxxxxxx.xxxxx................xxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  14 vaivGenGaGKStLlkllagllkp.teGei................lldgkdlkeqeleslrkeigvlpqe 67 
                              + ++G++G+GKSt l+ l+  l++ ++G+i                l++++++ +++l+++++  + l q+
  PHY93_15935|PHY93_15935 153 ILVTGPTGSGKSTTLASLIDYLNQhEAGHIitledpvefvhahkscLVNQREIGTDSLNFSSALKSLLRQD 223
                              6789********988777765554499***55555555544444444444444444444444444444444 PP

>> DUF87  Helicase HerA, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.2   2.5e-06    0.0014      27      58 ..     154     185 ..     140     363 .. 0.87

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 2.5e-06
                    DUF87  27 AilgsTGsGKSntvavLleellekkgatilil 58 
                              ++ g TGsGKS+t a+L++ l +   ++i+ l
  PHY93_15935|PHY93_15935 154 LVTGPTGSGKSTTLASLIDYLNQHEAGHIITL 185
                              7899******************8777788866 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   0.1   5.3e-06     0.003      22      39 ..     150     167 ..     143     176 .. 0.81

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 5.3e-06
                   AAA_29  22 kgatlltGpsGsGKSTll 39 
                              +g +l+tGp+GsGKST l
  PHY93_15935|PHY93_15935 150 NGLILVTGPTGSGKSTTL 167
                              5689************87 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   1.8e-05      0.01      16      51 ..     148     184 ..     140     246 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 1.8e-05
                   AAA_30  16 sgdrvavltGpAGtGKttalkalreaweaa.ggrvig 51 
                               ++ + ++tGp G+GK+t+l++l + ++++  g++i 
  PHY93_15935|PHY93_15935 148 VSNGLILVTGPTGSGKSTTLASLIDYLNQHeAGHIIT 184
                              5667999****************98888875666665 PP

>> DAP3  Mitochondrial ribosomal death-associated protein 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.6   0.0   2.5e-05     0.014      26      75 ..     153     203 ..     148     222 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 2.5e-05
                              EEEE-SSSSSTTTTHHHHHHHGGGS.--EEEEES-GGGGTSS-S--EEEST CS
                     DAP3  26 lvltGekgsGKSvlLlqalayAlek.gwvvlhvpeaedlvngtteyapses 75 
                              +++tG +gsGKS++L+ ++ y  +     ++++ ++ ++v+++++ + ++ 
  PHY93_15935|PHY93_15935 153 ILVTGPTGSGKSTTLASLIDYLNQHeAGHIITLEDPVEFVHAHKSCLVNQR 203
                              579******************888756789**************9988774 PP

>> SRP54  SRP54-type protein, GTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0       7.8   4.4e+03      48      84 ..      55      90 ..      51      92 .. 0.77
   2 !   14.6   0.0   3.4e-05     0.019       3      33 ..     152     182 ..     150     211 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 7.8
                             HHHHHHHTTEEEEESSTTSCHHHHHHHHHHHHHHTTS CS
                    SRP54 48 Lktlaeklgvpvikkkeeadpaavakeavekakeeki 84
                             L++++e ++v+ i   +++d+  ++++ +++ +++++
  PHY93_15935|PHY93_15935 55 LRVHGEIIKVKTIP-LTGEDTKRLIYQILSEDQKNEF 90
                             77889999999884.5577888888888888887765 PP

  == domain 2  score: 14.6 bits;  conditional E-value: 3.4e-05
                              EEEEEESTTSSHHHHHHHHHHHHHHTTS-EE CS
                    SRP54   3 villvGlqGaGKTttlaKLaallkkegkkvl 33 
                              +il+ G++G+GK ttla L ++l++++   +
  PHY93_15935|PHY93_15935 152 LILVTGPTGSGKSTTLASLIDYLNQHEAGHI 182
                              589********************99866555 PP

>> TrwB_AAD_bind  Type IV secretion-system coupling protein DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   3.4e-05     0.019      18      48 ..     153     183 ..     137     195 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 3.4e-05
            TrwB_AAD_bind  18 ilivGttGsGKtqalekllrairargdraiv 48 
                              il++G tGsGK+++l +l++ +++ +  +i+
  PHY93_15935|PHY93_15935 153 ILVTGPTGSGKSTTLASLIDYLNQHEAGHII 183
                              899**********************999998 PP

>> FtsK_SpoIIIE  FtsK/SpoIIIE family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.1   4.1e-05     0.023      42      60 ..     153     171 ..     136     180 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 4.1e-05
                              EEEE--TTSSHHHHHHHHH CS
             FtsK_SpoIIIE  42 llvaGatgsGKStalntLi 60 
                              +lv G tgsGKSt+l +Li
  PHY93_15935|PHY93_15935 153 ILVTGPTGSGKSTTLASLI 171
                              899***************9 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0   5.8e-05     0.032       3      45 ..     151     192 ..     149     242 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 5.8e-05
                   AAA_14   3 kilvitGaRrvGKTtllkqlikellvkkesilyinldderdkk 45 
                               ++++tG+  +GK+t l  li+ l  ++e    i+l+d+ +  
  PHY93_15935|PHY93_15935 151 GLILVTGPTGSGKSTTLASLIDYLN-QHEAGHIITLEDPVEFV 192
                              6799*****************8777.88888888888876644 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   8.2e-05     0.046       8      38 ..     148     178 ..     143     186 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 8.2e-05
                   AAA_19   8 lkekvllvtaGpGtGKTrvlkhivallvelg 38 
                              ++++++lvt++ G+GK+++l   + +l++ +
  PHY93_15935|PHY93_15935 148 VSNGLILVTGPTGSGKSTTLASLIDYLNQHE 178
                              67899*******************9998876 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.1    0.0002      0.11       2      26 ..     153     177 ..     152     186 .. 0.88
   2 ?    0.4   0.0      0.96   5.4e+02     108     135 ..     231     258 ..     184     280 .. 0.64

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.0002
                              EEEE--TTSSHHHHHHHHHHHH... CS
                 NTPase_1   2 vfiTGppGvGKtTlvkkvlellkss 26 
                              +++TGp G+GK+T +  +++ l+++
  PHY93_15935|PHY93_15935 153 ILVTGPTGSGKSTTLASLIDYLNQH 177
                              78******************99765 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.96
                              GGG-HHHHHHHHHHHTTTSEEEEE--SS CS
                 NTPase_1 108 ElkskkfkeaveevLksekpvlavihrr 135
                              El  ++ +ea  ++ +++  v +++h +
  PHY93_15935|PHY93_15935 231 ELRDQETIEAALTIAETGHLVFGTLHTN 258
                              4555566666666666666666666666 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   9.2e-05     0.051      24      61 ..     141     178 ..     128     186 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 9.2e-05
                    AAA_7  24 yllelllknkkpvllvGptGtGKtviikdllkkldkek 61 
                              +ll+++  ++  +l++GptG+GK++++ +l++ l++ +
  PHY93_15935|PHY93_15935 141 VLLKMCDVSNGLILVTGPTGSGKSTTLASLIDYLNQHE 178
                              56666666777899***************999988654 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   8.1e-05     0.046      27      56 ..     153     181 ..     127     259 .. 0.80
   2 ?   -2.7   0.0       9.2   5.1e+03      56      71 ..     307     322 ..     289     356 .. 0.46

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 8.1e-05
                              EEEEESTTSTHHHHHHHHHHHH-S.....- CS
                   ResIII  27 glikmaTGtGKTlvaaklierllkkgkeek 56 
                              +l+  +TG+GK+ ++a+li++l +++   +
  PHY93_15935|PHY93_15935 153 ILVTGPTGSGKSTTLASLIDYLNQHEAG-H 181
                              67899*****************996443.3 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 9.2
                              -EEEEESSHHHHHHHH CS
                   ResIII  56 kflflvprkslleqtl 71 
                               + +lvp++ + +  +
  PHY93_15935|PHY93_15935 307 AMEILVPNNGIRNLIR 322
                              4444444444443333 PP

>> ATP_bind_1  Conserved hypothetical ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   9.7e-05     0.054       1      33 [.     155     186 ..     155     205 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 9.7e-05
               ATP_bind_1   1 vvGpaGsGKttfvgalseilelrgrsvavvNLD 33 
                              v+Gp GsGK+t   +l+++l++     +++ L 
  PHY93_15935|PHY93_15935 155 VTGPTGSGKSTTLASLIDYLNQH-EAGHIITLE 186
                              89******************998.777777774 PP

>> AAA_11  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   0.00012     0.065      16      44 ..     149     177 ..     140     230 .. 0.80

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 0.00012
                   AAA_11  16 eseitliqGPPGtgKTktivellsqllsr 44 
                              ++++ l+ GP G+gK++t+++l+ +l+++
  PHY93_15935|PHY93_15935 149 SNGLILVTGPTGSGKSTTLASLIDYLNQH 177
                              55688*********************865 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   9.7e-05     0.054       1      53 [.     152     214 ..     152     279 .. 0.74

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 9.7e-05
                   AAA_33   1 lvllvGlpGsGKstlaerl...lkklg......avllssdt....lrrrlfgtdqqsktdytrvld 53 
                              l+l+ G+ GsGKst + +l   l           ++l+ ++    +++ + +++++  td+ ++++
  PHY93_15935|PHY93_15935 152 LILVTGPTGSGKSTTLASLidyL---NqheaghIITLEDPVefvhAHKSCLVNQREIGTDSLNFSS 214
                              7999**************95553...4344656777777775555444444466666655555444 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0    0.0001     0.059       1      37 [.     153     198 ..     153     260 .. 0.63

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 0.0001
                   AAA_18   1 IlltGtpGvGKttlakeL....skrlgf......gvnlrdvakengl 37 
                              Il+tG+ G+GK+t    L    ++++         + + +v++++ +
  PHY93_15935|PHY93_15935 153 ILVTGPTGSGKSTTLASLidylNQHE-AghiitlEDPVEFVHAHKSC 198
                              99**********98777744443332.03356663333333333333 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0       3.5     2e+03     141     172 ..      29      58 ..      21     100 .. 0.69
   2 ?   11.4   0.0   0.00039      0.22      12      51 ..     143     181 ..     139     212 .. 0.83

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 3.5
                 ATPase_2 141 lvkeLlnliesltkekhlcvviclsSeglfie 172
                               +++L++l+++  ++    ++  ++S gl   
  PHY93_15935|PHY93_15935  29 KIQQLFKLMVD--SNASDLHITSGTSPGLRVH 58 
                              57788888888..6677778888888777544 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 0.00039
                 ATPase_2  12 eeilerepneiyfiYGpegsGKtaLlkeiienledkdkyv 51 
                              +++++  +n  ++++Gp gsGK++ l  +i  l++++  +
  PHY93_15935|PHY93_15935 143 LKMCDV-SNGLILVTGPTGSGKSTTLASLIDYLNQHEAGH 181
                              566666.5667899****************9998776644 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   0.00024      0.14       1      26 [.     153     178 ..     153     202 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 0.00024
             RNA_helicase   1 iwlyGpsgeGKStlakeLakallkkl 26 
                              i+++Gp+g GKSt+  +L++ l ++ 
  PHY93_15935|PHY93_15935 153 ILVTGPTGSGKSTTLASLIDYLNQHE 178
                              6899**************99999654 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0    0.0002      0.11       2      28 ..     152     178 ..     151     204 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.0002
                              CEEEEC-TTTCHHHHHHHHHHHHCTS- CS
                    NACHT   2 lvilqGeaGsGKTtLlqklalawaegk 28 
                              l++++G+ GsGK+t l++l++ + + +
  PHY93_15935|PHY93_15935 152 LILVTGPTGSGKSTTLASLIDYLNQHE 178
                              689*****************9998865 PP

>> KAP_NTPase  KAP family P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   0.00028      0.15      23      56 ..     153     184 ..     136     201 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00028
               KAP_NTPase  23 vgLygkWGsGKssllnkledelkefakpvrflfa 56 
                              + ++g+ GsGKs+ l++l+d+l+++  +  ++++
  PHY93_15935|PHY93_15935 153 ILVTGPTGSGKSTTLASLIDYLNQH--EAGHIIT 184
                              7799999******************..4444444 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00023      0.13      18      48 ..     152     184 ..     149     203 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00023
               Zeta_toxin  18 lillgGqpGAGKselaellkdele..rqgnvvr 48 
                              lil+ G +G+GKs++++ l d+l+  ++g +++
  PHY93_15935|PHY93_15935 152 LILVTGPTGSGKSTTLASLIDYLNqhEAGHIIT 184
                              79********************98555555555 PP

>> AAA_27  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0    0.0003      0.17      23      51 ..     147     175 ..     137     204 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.0003
                   AAA_27  23 aeeadlhliyGpNEAGKstalrAisdllf 51 
                                +++l l+ Gp  +GKst+l+++ d l 
  PHY93_15935|PHY93_15935 147 DVSNGLILVTGPTGSGKSTTLASLIDYLN 175
                              56789*******************99984 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   0.00039      0.22       7      50 ..     130     176 ..     125     201 .. 0.77

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00039
                              EESETTEECEEEEE...ETTSSEEEEEESTTSSHHHHHHHHHHHCTT CS
                              xxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N   7 ienFksyagktvil...pfsksftaivGpNGSGKsnlldAilFvLGe 50 
                              i +Fks++  +v l   ++s+++  ++Gp GSGKs  l ++  +L +
  PHY93_15935|PHY93_15935 130 IPDFKSLNLPNVLLkmcDVSNGLILVTGPTGSGKSTTLASLIDYLNQ 176
                              5677777666654411167889999***********99998766665 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00047      0.26       1      67 [.     153     232 ..     153     240 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00047
                              EEEESSTTSSHHHHHHHHHHHHTHE.............EEEEETTTCS.SSSTTHHHHHHHHHHHHHHHTSTSEEEEEETG CS
                      AAA   1 vllyGppGtGKTllakavakelgve.............fleisgsell.skyvgesekkirelfkeakekakpsilfiDEi 67 
                              +l++Gp G GK+++  +++  l+++             f+    s l+ +  +g  + +++  +k++ ++  p i+++ E+
  PHY93_15935|PHY93_15935 153 ILVTGPTGSGKSTTLASLIDYLNQHeaghiitledpveFVHAHKSCLVnQREIGTDSLNFSSALKSLLRQD-PDIVLVGEL 232
                              699******************96333334444444444999999999955688888888888888877776.888888776 PP

>> KTI12  Chromatin associated protein KTI12
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   0.00032      0.18       3      44 ..     152     193 ..     151     230 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00032
                              EEEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-THHHH.TT CS
                    KTI12   3 LvvltGlPssGKstrakeLakaleeekrsvvviddeslgiek 44 
                              L+++tG   sGKst  + L ++l++++   ++  ++ +++ +
  PHY93_15935|PHY93_15935 152 LILVTGPTGSGKSTTLASLIDYLNQHEAGHIITLEDPVEFVH 193
                              9************************98888888777777433 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00038      0.21      46      66 ..     151     171 ..     134     202 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00038
                    Rad17  46 riLLisGPsGCgkstvvkvLs 66 
                               ++L++GP+G gkst++  L 
  PHY93_15935|PHY93_15935 151 GLILVTGPTGSGKSTTLASLI 171
                              489*************98875 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.2   0.00052      0.29       2      27 ..     153     178 ..     152     355 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00052
                              EEEESSTTSSHHHHHHHHHHHHHHTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     CbiA   2 aiastkGGvGKTtlaanLaralarrg 27 
                              +++ +  G+GK+t++a+L+ +l++++
  PHY93_15935|PHY93_15935 153 ILVTGPTGSGKSTTLASLIDYLNQHE 178
                              5667788***************9964 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (380 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       676  (0.0377043); expected 358.6 (0.02)
Passed bias filter:                      557  (0.031067); expected 358.6 (0.02)
Passed Vit filter:                       118  (0.00658152); expected 17.9 (0.001)
Passed Fwd filter:                        32  (0.00178482); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              32  [number of targets reported over threshold]
# CPU time: 0.65u 0.25s 00:00:00.90 Elapsed: 00:00:00.42
# Mc/sec: 2686.86
//
Query:       PHY93_15940|PHY93_15940  [L=402]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.3e-61  203.5   6.0      4e-30  104.3   0.1    2.5  3  T2SSF     Type II secretion system (T2SS), protein F


Domain annotation for each model (and alignments):
>> T2SSF  Type II secretion system (T2SS), protein F
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.1      0.31   5.6e+03      89     108 ..      23      42 ..      20      44 .. 0.79
   2 !  104.3   0.1   2.3e-34     4e-30       1     125 []      73     195 ..      73     195 .. 0.99
   3 !  102.2   0.4     1e-33   1.9e-29       1     125 []     275     397 ..     275     397 .. 0.99

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 0.31
                              HHHHHHHHHHHHHHHTTXXX CS
                    T2SSF  89 eeerelrrkllaalleplll 108
                              e ere r+ l++++l ++ +
  PHY93_15940|PHY93_15940  23 ETEREVRKSLRSQSLRVAKV 42 
                              77899999999999988766 PP

  == domain 2  score: 104.3 bits;  conditional E-value: 2.3e-34
                              HHHHHHHHHHTT--HHHHHHHHHHHHSSHHHHHHHHHHHHHHHTTSSHHHHHCT-TT.TS-HHHHHHHHHHHHHT-HHHHHHHHHH CS
                    T2SSF   1 flrqlatllsaGvplveaLellaeeaengplaeelkriarrlraGgslsealertpssefpelvvqlirageeggnLaevLerlae 86 
                              f+ qla+++saGvp++++Le+l ++ +n+ l+ ++k+ia ++ +G++++ea+++ +   f++l+++l+ age+gg L+ +L++la 
  PHY93_15940|PHY93_15940  73 FTKQLAIMISAGVPILQSLEILYRSEKNPSLKVAIKKIAVDVGEGKTIAEAMQSQK--GFSKLYCNLVKAGEAGGILEGILKKLAI 156
                              889**************************************************987..9*************************** PP

                              HHHHHHHHHHHHHHHHHTTXXXXXXXXXXXXXXXXXXXX CS
                    T2SSF  87 yleeerelrrkllaallepllllvvallvllillaillp 125
                              ++ +++++++++++a+++p ++  v+++v+++++++++p
  PHY93_15940|PHY93_15940 157 HMDKQEKTKAQIKSAMMYPSIVCGVGAVVIWAMMVFVVP 195
                              *************************************98 PP

  == domain 3  score: 102.2 bits;  conditional E-value: 1e-33
                              HHHHHHHHHHTT--HHHHHHHHHHHHSSHHHHHHHHHHHHHHHTTSSHHHHHCT-TT.TS-HHHHHHHHHHHHHT-HHHHHHHHHH CS
                    T2SSF   1 flrqlatllsaGvplveaLellaeeaengplaeelkriarrlraGgslsealertpssefpelvvqlirageeggnLaevLerlae 86 
                              f+ +latll+aGv l eaL+++ e+ +ng++a+ l+++++++ +G++l e l++ +   fpelv+q+ir+ge++g+++e+L r+a+
  PHY93_15940|PHY93_15940 275 FSSTLATLLGAGVALIEALDICIETLDNGVIARDLREVKKKVVEGKTLTEPLSKIE--YFPELVTQMIRVGEQTGQIDEMLARVAD 358
                              7899*************************************************997..99************************** PP

                              HHHHHHHHHHHHHHHHHTTXXXXXXXXXXXXXXXXXXXX CS
                    T2SSF  87 yleeerelrrkllaallepllllvvallvllillaillp 125
                               +eee ++    +++l+ep++++v++++++ il+a++lp
  PHY93_15940|PHY93_15940 359 VFEEEVDTLVGGMTKLIEPIIIVVLGGIIATILVAMYLP 397
                              *************************************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (402 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       846  (0.0471861); expected 358.6 (0.02)
Passed bias filter:                      555  (0.0309554); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.59u 0.24s 00:00:00.83 Elapsed: 00:00:00.42
# Mc/sec: 2877.85
//
Query:       PHY93_04020|PHY93_04020  [L=90]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      0.001   18.6   0.0     0.0012   18.4   0.0    1.1  1  LNS2      LNS2 (Lipin/Ned1/Smp2)


Domain annotation for each model (and alignments):
>> LNS2  LNS2 (Lipin/Ned1/Smp2)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0   6.7e-08    0.0012      45      90 ..      27      75 ..      13      79 .. 0.78

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 6.7e-08
                     LNS2 45 sddkivisdidgtitksdvlGhil...pllgkdwthkgvaklyskiken 90
                              ++ ivisdid t+ k + +G+      ++ k+    ++ +l+++ik+n
  PHY93_04020|PHY93_04020 27 FSKTIVISDIDDTLKKANSMGKAQgqaYHFLKKIPYIEMRDLFNEIKNN 75
                             3578*************99998751113456788889999999999998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (90 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       664  (0.037035); expected 358.6 (0.02)
Passed bias filter:                      421  (0.0234815); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 690.55
//
Query:       PHY93_04025|PHY93_04025  [L=190]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
     0.0026   17.5   0.3     0.0034   17.1   0.3    1.1  1  Yip1         Yip1 domain
  ------ inclusion threshold ------
      0.037   13.7   0.5      0.056   13.1   0.5    1.3  1  Oxidored_q2  NADH-ubiquinone/plastoquinone oxidoreductase cha


Domain annotation for each model (and alignments):
>> Yip1  Yip1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.3   3.8e-07    0.0034      17      85 ..      26      96 ..      11     112 .. 0.73

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 3.8e-07
                     Yip1 17 p..ilrapdlallllalltlllgllas......lnlgqtlasgeevqgltlssllgaiiggylglllgllllalllh 85
                                il+ ++l+++++  l+++l++++s      +++++       +++ +++ +l++++ + l+ l +++ll+++++
  PHY93_04025|PHY93_04025 26 KtiILKTYGLPMVFWSYLAAILVVIGSmwlaskSAIQK-----LLSYEDHGLQALAYLVQFTLI-LTPIVLLGFFFY 96
                             2679999********************65444433333.....455568888888887777775.888888888877 PP

>> Oxidored_q2  NADH-ubiquinone/plastoquinone oxidoreductase chain 4L
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.5   6.2e-06     0.056       2      55 ..      40      97 ..      39     120 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 6.2e-06
                             HHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHHHHHHHC.............. CS
              Oxidored_q2  2 lllliallfliGlygvllrrnllkvliglelisnavnlllvlagvftegtlvi.......t 55
                             +++l+a+l++iG + +  +++++++l+++e  ++ +  +lv ++     t+++       +
  PHY93_04025|PHY93_04025 40 WSYLAAILVVIGSMWLA-SKSAIQKLLSYEDHGLQALAYLVQFTLIL--TPIVllgfffyE 97
                             6789*************.************99988888888887776..232245666664 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (190 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       737  (0.0411066); expected 358.6 (0.02)
Passed bias filter:                      404  (0.0225333); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1428.85
//
Query:       PHY93_04030|PHY93_04030  [L=334]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.8e-33  115.8   0.0    2.3e-33  115.4   0.0    1.1  1  Hydrolase_4    Serine aminopeptidase, S33
      1e-10   41.7   0.0    1.7e-10   41.0   0.0    1.3  1  Abhydrolase_1  alpha/beta hydrolase fold
    0.00025   21.7   0.0    0.00027   21.6   0.0    1.1  1  Abhydrolase_6  Alpha/beta hydrolase family
  ------ inclusion threshold ------
       0.21   11.2   0.0        0.3   10.7   0.0    1.3  1  Esterase       Putative esterase


Domain annotation for each model (and alignments):
>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  115.4   0.0   5.2e-37   2.3e-33       2     239 .]      63     321 ..      62     321 .. 0.84

  Alignments for each domain:
  == domain 1  score: 115.4 bits;  conditional E-value: 5.2e-37
              Hydrolase_4   2 epkavvvlvHGlaehsgryaelaeaLaa....qGfavyalDhrGhGrse.....gkrghvpsfddyvdDlaafvekvkeehpelpl 78 
                              ++   +v+++G++e +++yae++++L +    ++ ++y +DhrG+G s+        g+v++f+ yv+D+++fv+  k +++  + 
  PHY93_04030|PHY93_04030  63 KANNCLVILPGRTEPVEKYAEVVYDLLQtnagKNLNFYLMDHRGQGSSDrmkapLDMGYVDRFENYVADVESFVTLQKLDQNCDQK 148
                              567789********************6622226789***************9988899********************9999999* PP

              Hydrolase_4  79 fllGhSmGGliallyllrypdkvaglilsaPalkikakl..........kappllkl.........llkllgkllpklqvsnnlka 145
                              fll+hS+G+ ia++++l++p+ ++++ +s+P+lkik+            +      +         ++   +++ p+ ++++n+ +
  PHY93_04030|PHY93_04030 149 FLLAHSLGAGIATAFILKNPHTFDRVAFSSPMLKIKTAPypygvartivE------AstiagrgakFAIGQKSFNPDSKFEENTFT 228
                              ************************************76445544433321......122222233344444555555555888888 PP

              Hydrolase_4 146 dslsrdpevvaayeadplv.hgkitvrlllelldamkrleeraakitlPllllhGeaDkvvdpeasrelyerlgskdktlklypgl 230
                              +s  r    +  ++  p    g++ +r++le++++++ l++r ++i++P+ ++ ++ +   +p++  +l +++   +++ +  +  
  PHY93_04030|PHY93_04030 229 TSPERFSMTMSMFDLYPKSrLGGVANRWILEVMKGTNPLRSRYHEISVPMHVFNAGIEVYSEPSEMIKLCDEAV--NCKRTFLETS 312
                              888888888888888888888*****************************************************..799999**** PP

              Hydrolase_4 231 yHellnEpd 239
                               He+++++d
  PHY93_04030|PHY93_04030 313 KHEVMMDRD 321
                              *****9986 PP

>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.0   0.0   3.8e-14   1.7e-10       2     106 ..      67     179 ..      66     201 .. 0.85

  Alignments for each domain:
  == domain 1  score: 41.0 bits;  conditional E-value: 3.8e-14
                              EEEEE-STTTCGGGGTTGHHHHHHHHT....TSEEEEEEETTSTTSSSTTTGB.....CHHSHHHHHHHHH.HH.HHHCTT..SSE CS
            Abhydrolase_1   2 vlvilhGlpgssdvwaerglapaLakd....gfdvillDlrGvgySspapacin....ddygtasvaddld.ri.ldalgd..dkl 75 
                               lvil+G ++  +++ae  ++++L ++       ++l+D+rG g+S++ +a+ +    d++++  + +d++ ++ l++l++  d+ 
  PHY93_04030|PHY93_04030  67 CLVILPGRTEPVEKYAE--VVYDLLQTnagkNLNFYLMDHRGQGSSDRMKAPLDmgyvDRFEN--YVADVEsFVtLQKLDQncDQK 148
                              59********9999999..999999999999*********************99998876665..888888655755555444455 PP

                              EEEEETHHHHHHHHHHHHHGGGEEEEEEESE CS
            Abhydrolase_1  76 tlvGhSmGGmialayaaeyperVkalvllga 106
                               l++hS+G  ia+a+ +++p+  +++++ ++
  PHY93_04030|PHY93_04030 149 FLLAHSLGAGIATAFILKNPHTFDRVAFSSP 179
                              5***************************999 PP

>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.6   0.0   6.1e-08   0.00027      26      95 ..      95     179 ..      68     287 .. 0.64

  Alignments for each domain:
  == domain 1  score: 21.6 bits;  conditional E-value: 6.1e-08
                              T...CEEEEE--TTSTS-GGCS--HHH.........CHHHHH..HHCCTT....TTSEEEEEETCHHHHHHHHHHCC........E CS
            Abhydrolase_6  26 g...vhvlapDlpGhGrsdpppldled.........ladlaa..lldelaa..gggpvvlvGHSlGGalalaaapla......lvv 89 
                                  +  + +D +G+G+sd++   l+          +ad++   +l++     ++++ +l++HSlG+ +a+a           +++
  PHY93_04030|PHY93_04030  95 KnlnF--YLMDHRGQGSSDRMKAPLDMgyvdrfenyVADVESfvTLQK--LdqNCDQKFLLAHSLGAGIATA---FIlknphtFDR 173
                              24446..99*******99888855544431132223455544234444..26599999************99...55555554433 PP

                              EEEES- CS
            Abhydrolase_6  90 gvlldp 95 
                                + +p
  PHY93_04030|PHY93_04030 174 VAFSSP 179
                              344444 PP

>> Esterase  Putative esterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   6.7e-05       0.3     117     156 ..     148     187 ..     131     233 .. 0.83

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 6.7e-05
                              EEEEEETHHHHHHHHHHHCSTTTCCEEEEES--S-CCHCH CS
                 Esterase 117 ravaGqSmGGlgALilalkhpdrFgsvssfSpivnpsnam 156
                              + ++ +S+G+ +A    lk+p  F +v+  Sp+++   a+
  PHY93_04030|PHY93_04030 148 KFLLAHSLGAGIATAFILKNPHTFDRVAFSSPMLKIKTAP 187
                              567779***************************9877554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (334 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       490  (0.02733); expected 358.6 (0.02)
Passed bias filter:                      455  (0.0253779); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.42
# Mc/sec: 2401.55
//
Query:       PHY93_17275|PHY93_17275  [L=205]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (205 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       956  (0.0533214); expected 358.6 (0.02)
Passed bias filter:                      470  (0.0262145); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.40
# Mc/sec: 1523.35
//
Query:       PHY93_04035|PHY93_04035  [L=233]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      7e-12   45.1   0.2    1.4e-11   44.1   0.2    1.6  1  Fer2      2Fe-2S iron-sulfur cluster binding domain
     0.0061   16.6   0.1       0.02   14.9   0.0    1.9  2  Fer2_4    2Fe-2S iron-sulfur cluster binding domain


Domain annotation for each model (and alignments):
>> Fer2  2Fe-2S iron-sulfur cluster binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.1   0.2   1.6e-15   1.4e-11       2      77 ..       8      87 ..       7      88 .. 0.79

  Alignments for each domain:
  == domain 1  score: 44.1 bits;  conditional E-value: 1.6e-15
                             ETTTEEEEEEEETTTHBHHHHHHHTTTTTSTTSSSSSS.SSTTEEEEEESCE...CTTSSSSTHHHHHTTEE....EEGGGSEE CS
                     Fer2  2 tidgkevevevadgettlldaaeenggidipysCgggg.CgtClvevlegev...qsdetelegeeldegkl....rlaCqtiv 77
                             t+++++  vev++g++ ll a++e+ +i i+ sCgg + C  C +++++ge    +  +++ e + l + +     rlaCqt +
  PHY93_04035|PHY93_04035  8 TLQPSGEVVEVEEGKN-LLVALREQ-NIYIKSSCGGHAtCTDCIIKIVSGEDyitP--PPFSELKLLGNVFHitkeRLACQTCL 87
                             6788999999999999.*******9.9*********999**********9875422..445555544444447777******87 PP

>> Fer2_4  2Fe-2S iron-sulfur cluster binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.0   2.3e-06      0.02       3      50 ..       6      44 ..       4      58 .. 0.85
   2 ?   -2.0   0.0      0.44     4e+03      48      55 ..      80      87 ..      75      98 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 2.3e-06
                   Fer2_4  3 pvtltfDGkevtvpeGdtvasAllangvdvprsckygrprgelcagge 50
                             +vtl+  G+ v+v+eG+ ++ Al ++++++  sc  ++          
  PHY93_04035|PHY93_04035  6 KVTLQPSGEVVEVEEGKNLLVALREQNIYIKSSCGGHA---------T 44
                             6899999***************************9964.........3 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.44
                   Fer2_4 48 ggeCrnCl 55
                             + +C++Cl
  PHY93_04035|PHY93_04035 80 RLACQTCL 87
                             56788887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (233 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1467  (0.0818227); expected 358.6 (0.02)
Passed bias filter:                      384  (0.0214178); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.22s 00:00:00.73 Elapsed: 00:00:00.42
# Mc/sec: 1656.51
//
Query:       PHY93_04040|PHY93_04040  [L=92]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.1e-05   24.7   0.1    2.2e-05   24.6   0.1    1.1  1  PHA_gran_rgn  Putative polyhydroxyalkanoic acid system protei
  ------ inclusion threshold ------
      0.032   14.4   0.0      0.046   13.9   0.0    1.4  1  CHASE4        CHASE4 domain


Domain annotation for each model (and alignments):
>> PHA_gran_rgn  Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.6   0.1   2.5e-09   2.2e-05      13      83 ..      15      90 ..       3      92 .] 0.79

  Alignments for each domain:
  == domain 1  score: 24.6 bits;  conditional E-value: 2.5e-09
             PHA_gran_rgn 13 eArerae.elaekleeefglelewe....gdtlkfkrsgvdGqlevepdkvrleakLglllkafkgkieseiekkL 83
                             eA ++++ +++ ++ ++f+++   +    ++ +k ++sg + +l++ + + +++++L+lll+a+k+ki ++ie+++
  PHY93_04040|PHY93_04040 15 EAFSKIKsHITPEYIQKFQVKAVVTyddaKKIVKATGSGFTLTLSFLDTHCDVDLELSLLLRALKSKILAKIEDQI 90
                             55544441455677788887777776566777788888***********************************985 PP

>> CHASE4  CHASE4 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   5.1e-06     0.046      23      62 ..       7      48 ..       6      90 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 5.1e-06
                   CHASE4 23 yafvqdrdpd..yiesnlgdetletlgldlvlfldadgklvy 62
                             y++v++rd++   i+s +++e  + +++ +v+ +d ++k+v 
  PHY93_04040|PHY93_04040  7 YKNVTNRDEAfsKIKSHITPEYIQKFQVKAVVTYDDAKKIVK 48
                             899999999955599*************************93 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (92 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       697  (0.0388756); expected 358.6 (0.02)
Passed bias filter:                      421  (0.0234815); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 710.98
//
Query:       PHY93_04045|PHY93_04045  [L=154]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.9e-26   91.3   0.0    4.7e-26   91.0   0.0    1.1  1  dUTPase   dUTPase
  ------ inclusion threshold ------
       0.12   12.3   0.0       0.18   11.7   0.0    1.2  1  PGDH_C    Phosphogluconate dehydrogenase (decarboxylating) C-


Domain annotation for each model (and alignments):
>> dUTPase  dUTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   91.0   0.0   5.2e-30   4.7e-26       3     129 .]      20     154 .]      18     154 .] 0.89

  Alignments for each domain:
  == domain 1  score: 91.0 bits;  conditional E-value: 5.2e-30
                              CTBEBESSTT-SSEEEE-S....SSEEEETTEEEEEEEEEEEE--TTEEEEEEE-HHHHHHHEEEEE...EEEETTBTSEEEEEEE CS
                  dUTPase   3 aeiptrkspesAgyDlsaa....kdltvkpgetvlvptdisiklpdglaalilpRSglaakglivvp...gvidsdyrGevkvvlf 81 
                              +++p+++++++Ag D++a+    +   +kpge+vlvpt++s+++p g    + pRSgl+ k +++v    g idsdyrGevk+++ 
  PHY93_04045|PHY93_04045  20 FPLPNYETRGAAGADVRASlgtgESQLIKPGERVLVPTGLSMEIPFGFEVQVRPRSGLSFKTGLMVLnspGTIDSDYRGEVKIIIG 105
                              789************998633337889********************************99766543366**************** PP

                              E-SSS-EEE-TT-EEEEEEEEEBEC.GEEEEESSTTTESSBTTXTTTTX CS
                  dUTPase  82 nltkkdvkikkgdRiAqLifarilt.aeleevetlkatergeggfgssg 129
                              nl++kd  i+ gdR+AqL++a++ + + +  +  l++t rg ggfgs+g
  PHY93_04045|PHY93_04045 106 NLSNKDEVINHGDRVAQLVLAPVTQaHYVVSEAPLSETLRGGGGFGSTG 154
                              *************************6666666666***********997 PP

>> PGDH_C  Phosphogluconate dehydrogenase (decarboxylating) C-term
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0     2e-05      0.18      21      57 ..     101     137 ..      93     143 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 2e-05
                              EEEEEEEES-TTHHHHHHHHHHHHT-SEEEEEE--HH CS
                   PGDH_C  21 sivaallqgpeekyalgeevaktiyaPverayrvtve 57 
                              +i++  l+ ++e  + g++va+ + aPv++a+ v  e
  PHY93_04045|PHY93_04045 101 KIIIGNLSNKDEVINHGDRVAQLVLAPVTQAHYVVSE 137
                              79999999************************99765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (154 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       222  (0.0123822); expected 358.6 (0.02)
Passed bias filter:                      213  (0.0118802); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.20s 00:00:00.63 Elapsed: 00:00:00.38
# Mc/sec: 1209.33
//
Query:       PHY93_04050|PHY93_04050  [L=704]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    4.3e-41  140.5   0.0    4.3e-22   79.0   0.0    3.0  3  RNase_PH    3' exoribonuclease family, domain 1
    1.4e-22   79.4   0.3    6.1e-12   45.4   0.0    2.8  2  RNase_PH_C  3' exoribonuclease family, domain 2
    2.6e-17   62.9   0.6    2.6e-17   62.9   0.6    2.3  2  S1          S1 RNA binding domain
    1.8e-11   43.7   4.5    1.9e-11   43.6   0.7    2.9  4  KH_1        KH domain
    2.1e-07   31.3   0.3    6.2e-07   29.8   0.3    1.9  1  PNPase      Polyribonucleotide nucleotidyltransferase, RNA bi
     0.0003   20.5   0.9     0.0014   18.4   0.9    2.1  1  KH_2        KH domain
  ------ inclusion threshold ------
      0.072   13.2   0.1       0.25   11.5   0.1    2.0  1  KH_5        NusA-like KH domain


Domain annotation for each model (and alignments):
>> RNase_PH  3' exoribonuclease family, domain 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.0   0.0   5.5e-19   1.4e-15       3     132 .]      15     145 ..      13     145 .. 0.95
   2 !   79.0   0.0   1.7e-25   4.3e-22       1     132 []     331     464 ..     331     464 .. 0.94
   3 ?   -1.4   0.0       1.2   3.2e+03     104     122 ..     603     620 ..     582     622 .. 0.81

  Alignments for each domain:
  == domain 1  score: 58.0 bits;  conditional E-value: 5.5e-19
                              EEEEEEES.SSSTTSEEEEEEECCEEEEEEEEEEEEEE-TCCG.--CCEEEECCCCECCCCEC-C........S...HHHHHHHHH CS
                 RNase_PH   3 Rslsietg.vlsqanGSaylelGdtkvlasvtgpieerpseer.ddaegaldveveyapfasger.....rregrpsdeeielsrl 81 
                              +++ ietg +++qa+G ++++++ t+vl++v   +e    ++  d+++  l ve++ + + +g++     +re+rps  ei+++r+
  PHY93_04050|PHY93_04050  15 KEVVIETGrLAKQADGAVLVSCNGTQVLVAVCSAREL---KDGqDFFP--LLVEYQEKFYGAGKFlggfmKRENRPSTAEILTCRI 95 
                              6789********************************9...5555999*..********9999999*****999************* PP

                              HHHHHCCTC-CCGCCTCEEEEEEEEEECCCS-CHHHCHHHHHHHHHCTCEE CS
                 RNase_PH  82 leralrpsillekkpkstididitvlssdggslldalinaaslALadagip 132
                              ++r lrp+++ +    + + +++   +  g  +  ++ ++as+A+a ++ip
  PHY93_04050|PHY93_04050  96 IDRGLRPMFPSDYMFDTVVTCSVLSYNPAG-DPEVLAGLGASAAIAISDIP 145
                              ************999899999999999999.******************99 PP

  == domain 2  score: 79.0 bits;  conditional E-value: 1.7e-25
                              EEEEEEEEESSSSTTSEEEEEEECCEEEEEEEEEEEEEE-TCCG--CC....EEEECCCCECCCCEC-C...S...HHHHHHHHHH CS
                 RNase_PH   1 elRslsietgvlsqanGSaylelGdtkvlasvtgpieerpseerddae....galdveveyapfasgerrregrpsdeeielsrll 82 
                              e+R+++ e gvl++ +GS++++ G+t+v+a+vt++    + +++d+ +    +++ ++++++ f+ ge++    ++++e    +l 
  PHY93_04050|PHY93_04050 331 EVRKIETEVGVLAAPHGSSLFTRGETQVMATVTVGGSL-GDQMQDRITgltyNKFYLHYNFPGFSVGEAKGSRGAGRRELGHGNLA 415
                              78**********************************99.444548777899999***************77677************ PP

                              HHHHCCTC-CCGCCTCEEEEEEEEEECCCS-CHHHCHHHHHHHHHCTCEE CS
                 RNase_PH  83 eralrpsillekkpkstididitvlssdggslldalinaaslALadagip 132
                              eral+++ + ++   +t +i+++vl+s+g s  + ++++ slAL+dagip
  PHY93_04050|PHY93_04050 416 ERALKAVMPSQETFSYTTRIVCEVLESNG-SSSMGSVCSGSLALMDAGIP 464
                              **********99999**************.*******************9 PP

  == domain 3  score: -1.4 bits;  conditional E-value: 1.2
                              EEEEECCCS-CHHHCHHHH CS
                 RNase_PH 104 itvlssdggslldalinaa 122
                              + vl sd   +l a+++a+
  PHY93_04050|PHY93_04050 603 VKVLGSDK-EVLKACVTAV 620
                              67888899.*******997 PP

>> RNase_PH_C  3' exoribonuclease family, domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.4   0.0   2.4e-15   6.1e-12       4      66 ..     151     211 ..     148     212 .. 0.96
   2 !   31.4   0.1   5.5e-11   1.4e-07       2      67 .]     468     537 ..     467     537 .. 0.94

  Alignments for each domain:
  == domain 1  score: 45.4 bits;  conditional E-value: 2.4e-15
                              EEEEEEEETTEEEES--HHHHHHSSEEEEEEEETTSEEEEEEEECSSC.EEHHHHHHHHHHHHH CS
               RNase_PH_C   4 iavtvgkvddqfvlDptkeEedlsegdltlavagtkevvtlmkeggsq.ldeetlleaielAkk 66 
                              + + v+++d++++++p++eE  ++++dl +a++ + e   lm eg+++ ++e+++l+ai ++++
  PHY93_04050|PHY93_04050 151 GTCKVARIDGKLLVNPNLEE--WAKSDLEIAITASSEA-ILMVEGEAHiVPEKDVLAAINFGHE 211
                              6799****************..**************99.***********************97 PP

  == domain 2  score: 31.4 bits;  conditional E-value: 5.5e-11
                              --EEEEEEEETTE....EEES--HHHHHHSSEEEEEEEETTSEEEEEEEECSSC..EEHHHHHHHHHHHHHH CS
               RNase_PH_C   2 pviavtvgkvddq....fvlDptkeEedlsegdltlavagtkevvtlmkeggsq..ldeetlleaielAkkg 67 
                              pv+++++g++ d     ++ D   +E++l+  dl++ vagtk+ vt ++++ +   l+++ +++ai  A+kg
  PHY93_04050|PHY93_04050 468 PVAGIAMGLITDGanykILTDILGDEDHLG--DLDFKVAGTKDGVTAIQMDIKItgLTPQIIEDAINQAYKG 537
                              9*********8766778*********9988..********************9999*************996 PP

>> S1  S1 RNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.1       1.1   2.9e+03      44      66 ..     589     611 ..     566     617 .. 0.82
   2 !   62.9   0.6     1e-20   2.6e-17       2      75 .]     627     697 ..     626     697 .. 0.97

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 1.1
                              SCHHHCEETTEEEEEEEEEEETT CS
                       S1  44 edpdevlkvGdevkvkvlkvdkd 66 
                              e+ + ++ + +e  vkvl+ dk+
  PHY93_04050|PHY93_04050 589 EEYKVTIEITEEGMVKVLGSDKE 611
                              55667888889999999999987 PP

  == domain 2  score: 62.9 bits;  conditional E-value: 1e-20
                              STTTCEEEEEEEEEETTEEEEEETTTEEEEEEGGGSSSSCEESCHHHCEETTEEEEEEEEEEETTTTEEEEEEC CS
                       S1   2 pekgevveGeVtsvtkgGafVelgngvegfvpaselsrdarvedpdevlkvGdevkvkvlkvdkdrrriilsik 75 
                              pe+g ++e+ V s+ ++GafVe+  g++g+v++sels+d rv++ ++ l++G+++kvkv ++dk  r i ls k
  PHY93_04050|PHY93_04050 627 PEIGSIFEARVDSIKEYGAFVEFA-GISGLVHVSELSDD-RVQNVGDYLTEGQMIKVKVMEIDKMGR-IKLSAK 697
                              799*********************.**************.*************************88.999975 PP

>> KH_1  KH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       1.5   3.9e+03      13      31 ..     323     341 ..     322     349 .. 0.86
   2 ?   -1.3   0.0      0.79     2e+03      48      63 ..     517     533 ..     509     535 .. 0.86
   3 !   43.6   0.7   7.3e-15   1.9e-11       3      61 ..     565     616 ..     563     620 .. 0.87
   4 ?   -3.7   0.0       4.4   1.1e+04      24      51 ..     639     659 ..     636     671 .. 0.60

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 1.5
                              HHHTGGGHHHHHHHHHHT- CS
                     KH_1  13 riIGkgGsnIkeIreetga 31 
                              ri G++   +++I+ e g+
  PHY93_04050|PHY93_04050 323 RIAGRKLDEVRKIETEVGV 341
                              7889999999999986575 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 0.79
                              EEEEE.SHHHHHHHHHH CS
                     KH_1  48 vtisG.speavekAkel 63 
                              + i+G +p+ +e+A+++
  PHY93_04050|PHY93_04050 517 IKITGlTPQIIEDAINQ 533
                              89******999999875 PP

  == domain 3  score: 43.6 bits;  conditional E-value: 7.3e-15
                              EEEEGGGHHHHHHTGGGHHHHHHHHHHT-EEEEESSTT...T.-EEEEEE.SHHHHHHHH CS
                     KH_1   3 rilvPsslvgriIGkgGsnIkeIreetgakIkvpksedegsderevtisG.speavekAk 61 
                              ++ +P++++g++IG+gG+nIk+++ee+++ I +  +      e +v + G ++e v kA+
  PHY93_04050|PHY93_04050 565 TVMIPTDKIGALIGPGGKNIKKLQEEYKVTIEIT-E------EGMVKVLGsDKE-VLKAC 616
                              799**********************99*****87.4......569*****5555.88875 PP

  == domain 4  score: -3.7 bits;  conditional E-value: 4.4
                              HHHHHHT-EEEEESSTT...T.-EEEEE CS
                     KH_1  24 eIreetgakIkvpksedegsderevtis 51 
                              +I+e +ga + + +++        v++s
  PHY93_04050|PHY93_04050 639 SIKE-YGAFVEFAGIS------GLVHVS 659
                              5777.89999987532......244444 PP

>> PNPase  Polyribonucleotide nucleotidyltransferase, RNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.8   0.3   2.4e-10   6.2e-07       2      83 .]     243     328 ..     242     328 .. 0.84

  Alignments for each domain:
  == domain 1  score: 29.8 bits;  conditional E-value: 2.4e-10
                              HHHHHHTTTHHHHHHHTTSSSHHHHHHHHHHHHHHHHHHHH...H....HSTTS-HHHHHHHHHHHHHHHHHHHHHHTS-TTTS-- CS
                   PNPase   2 leekvaelaeerisealtiteKqeRyaaldeikekvveafaaele....eedeedekeikeifkalekkvvRsrildegvRiDGRe 83 
                              l ek+++ ++++   al i +K++R++a+++++++++ a+ a+       +d+  +ke  +  ++l ++++R+ il eg Ri GR+
  PHY93_04050|PHY93_04050 243 LSEKIKSTFTTNARAALGISDKMQRQDAVRALNKAAADAIKADPSafglKDDKGASKEAYKGIDELLYNMMRNDILVEGKRIAGRK 328
                              679******************************9999999865431111345777777777778999******************7 PP

>> KH_2  KH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.9   5.4e-07    0.0014      28      68 ..     565     605 ..     559     613 .. 0.91

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 5.4e-07
                              EEEEEESCHHHHHTGGGHHHHHHHHHHHHHHHHHHTTCEEE CS
                     KH_2  28 iiviresqpgivIGkgGsnikkigkelrkdieklegkkVkl 68 
                              +++i + + g +IG gG+nikk+++e +  ie+ e++ Vk+
  PHY93_04050|PHY93_04050 565 TVMIPTDKIGALIGPGGKNIKKLQEEYKVTIEITEEGMVKV 605
                              6889999************************9999988875 PP

>> KH_5  NusA-like KH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   9.7e-05      0.25      12      37 ..     569     591 ..     558     607 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 9.7e-05
                     KH_5  12 hnpnvdpvGaivgkkGsrikavsseL 37 
                                   d +Ga++g +G++ik++ +e 
  PHY93_04050|PHY93_04050 569 PT---DKIGALIGPGGKNIKKLQEEY 591
                              44...99***************9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (704 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       460  (0.0256568); expected 358.6 (0.02)
Passed bias filter:                      379  (0.0211389); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.61u 0.27s 00:00:00.88 Elapsed: 00:00:00.42
# Mc/sec: 5089.85
//
Query:       PHY93_04055|PHY93_04055  [L=90]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      4e-27   94.2   0.0    4.7e-27   94.0   0.0    1.1  1  Ribosomal_S15  Ribosomal protein S15


Domain annotation for each model (and alignments):
>> Ribosomal_S15  Ribosomal protein S15
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   94.0   0.0   2.6e-31   4.7e-27       5      80 ..      15      90 .]      11      90 .] 0.97

  Alignments for each domain:
  == domain 1  score: 94.0 bits;  conditional E-value: 2.6e-31
                             HHHHSSSTT-TSSHHHHHHHHHHHHHHHHHHHHCTTT-HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHCTS CS
            Ribosomal_S15  5 ikefqrhekDtGspevqiallterInnltehlkenkkDkhsrrgLlklvskRrkllkYLkrkdverYkklieklgl 80
                              kef+ +ekD G + vq+al+t+rI nl  h+ ++k+D+   rgLlkl+++R++ll YL r++ ++Y++li+klgl
  PHY93_04055|PHY93_04055 15 GKEFGSSEKDSGCTAVQVALITARIANLAPHFAKHKHDYTGNRGLLKLIGQRKRLLTYLSRTNAPKYQALIKKLGL 90
                             589***********************************************************************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (90 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       315  (0.0175693); expected 358.6 (0.02)
Passed bias filter:                      297  (0.0165653); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.23s 00:00:00.62 Elapsed: 00:00:00.38
# Mc/sec: 702.63
//
Query:       PHY93_04060|PHY93_04060  [L=334]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.5e-16   57.9   0.3    1.1e-15   57.1   0.3    1.3  1  Sigma70_r2    Sigma-70 region 2
    7.9e-12   44.5   2.7    9.3e-12   44.3   1.1    2.0  2  Sigma70_r4    Sigma-70, region 4
      4e-06   26.7   1.6    9.8e-06   25.5   1.6    1.7  1  Sigma70_r1_2  Sigma-70 factor, region 1.2
      0.007   16.6   0.0      0.045   14.0   0.0    2.2  2  KORA          TrfB plasmid transcriptional repressor
  ------ inclusion threshold ------
      0.025   14.4   0.1      0.056   13.3   0.1    1.6  1  MCR_D         Methyl-coenzyme M reductase operon protein D
      0.065   13.4   0.7       0.12   12.5   0.1    1.9  2  SesA          N-terminal domain on NACHT_NTPase and P-loop NT
      0.085   12.7   0.1       0.45   10.4   0.0    2.1  2  HTH_23        Homeodomain-like domain


Domain annotation for each model (and alignments):
>> Sigma70_r2  Sigma-70 region 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.1   0.3   4.2e-19   1.1e-15       1      67 [.     103     169 ..     103     172 .. 0.96

  Alignments for each domain:
  == domain 1  score: 57.1 bits;  conditional E-value: 4.2e-19
                              HHHHHHHHHHHHHHHCT-THHHHHHHHHHHHHHHHHHGGGTSTTTCHHHHHHHHHHHHHHHHHHHHT CS
               Sigma70_r2   1 lverylplvkrlarrllgsgadaeDlvQeaflrlwraverfdpergvsfsawllriarnaaidrlRk 67 
                              lv ++l+lv+++a  + + ++++ Dl+Qe++++l++av ++d+++g ++s ++ +++r  ++ ++ +
  PHY93_04060|PHY93_04060 103 LVLANLRLVVKIALEYRSAWQNVMDLIQEGNIGLMKAVSKYDATKGAKLSYYASWWIRSYILKYILD 169
                              6789**********************************************************99865 PP

>> Sigma70_r4  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       1.2     3e+03      25      36 ..     207     218 ..     205     219 .. 0.78
   2 !   44.3   1.1   3.6e-15   9.3e-12       2      49 ..     279     328 ..     278     329 .. 0.97

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 1.2
                              HHHHHHTS-HHH CS
               Sigma70_r4  25 EIgerlgiSrer 36 
                               I+ +lg+S+  
  PHY93_04060|PHY93_04060 207 IISSTLGVSEKS 218
                              58899****975 PP

  == domain 2  score: 44.3 bits;  conditional E-value: 3.6e-15
                              HHHS-HHHHHHHHHHH..TTT--HHHHHHHHTS-HHHHHHHHHHHHHHHH CS
               Sigma70_r4   2 LasLpererevlelrf..geglTleEIgerlgiSrerVrqiekrAlrkLR 49 
                              L+ L +r+re++e r   + + +l+ I++++g+Srer+rqie r +++L+
  PHY93_04060|PHY93_04060 279 LEDLKQRDREIFEKRLlsEVPASLQSIADQYGVSRERIRQIEERLINNLK 328
                              899*******************************************9997 PP

>> Sigma70_r1_2  Sigma-70 factor, region 1.2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.5   1.6   3.8e-09   9.8e-06       1      22 [.      64      85 ..      64      94 .. 0.89

  Alignments for each domain:
  == domain 1  score: 25.5 bits;  conditional E-value: 3.8e-09
                             HHHHHHHHHHHHSX--THHHHH CS
             Sigma70_r1_2  1 DpvrlYLrEIGriPLLtaeEEv 22
                             Dp+++Y +EI+r++LLt eEE 
  PHY93_04060|PHY93_04060 64 DPLTQYVKEISRYKLLTIEEEE 85
                             9*****************9995 PP

>> KORA  TrfB plasmid transcriptional repressor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0       1.6   4.1e+03      37      54 ..     208     225 ..     204     229 .. 0.79
   2 !   14.0   0.0   1.7e-05     0.045      10      58 ..     276     326 ..     273     330 .. 0.84

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 1.6
                     KORA  37 vatelgltkqavsqavkr 54 
                              +   lg++ + v  + +r
  PHY93_04060|PHY93_04060 208 ISSTLGVSEKSVAVMDRR 225
                              667899999999888766 PP

  == domain 2  score: 14.0 bits;  conditional E-value: 1.7e-05
                     KORA  10 ikgleelaeqtveiargvLVegkkq..advatelgltkqavsqavkrvwaa 58 
                                 le+l+++ +ei  + L  ++    + +a++ g++++++ q+++r +++
  PHY93_04060|PHY93_04060 276 KTFLEDLKQRDREIFEKRLLSEVPAslQSIADQYGVSRERIRQIEERLINN 326
                              567999********999999887651258******************9876 PP

>> MCR_D  Methyl-coenzyme M reductase operon protein D
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.1   2.2e-05     0.056      17      98 ..      35     117 ..      23     126 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 2.2e-05
                    MCR_D  17 klLnelv.elegikrvvihGprLPkkvpygpakGkevehkerkvievkgeeveLkvkvGrilleledeeviekieeiceevlp 98 
                               +Ln+++ ele + rv+  G  LP++ +++p +    e ++ k++++++ee+ +k +  +  +e+ ++ v+ +++ +++ +l+
  PHY93_04060|PHY93_04060  35 AVLNSMSnELEIVARVLNGGADLPSTASQDPLTQYVKEISRYKLLTIEEEEILIKEMQESGDIEVAKKLVLANLRLVVKIALE 117
                              57888752689999*9999***************99999999**********9998777777788888888888877776665 PP

>> SesA  N-terminal domain on NACHT_NTPase and P-loop NTPases
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.1   4.8e-05      0.12       6      59 ..      15      68 ..      11     106 .. 0.87
   2 ?   -2.8   0.0       2.6   6.7e+03      55      55 ..     295     295 ..     268     323 .. 0.51

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 4.8e-05
                     SesA  6 aiveaaiklydaikdikglpeaFrevgkrLplvqetLedaksqlesskldedte 59
                             + v++++k+ +a+k++++lp  ++  +++L++v  +L+   +  +++++d+ t+
  PHY93_04060|PHY93_04060 15 TKVTKSSKVTKALKSDSSLPAVLNSMSNELEIVARVLNGGADLPSTASQDPLTQ 68
                             568999*******************************98888888887777655 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 2.6
                     SesA  55 d 55 
                               
  PHY93_04060|PHY93_04060 295 L 295
                              1 PP

>> HTH_23  Homeodomain-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.0         1   2.6e+03      23      34 ..     208     219 ..     206     220 .. 0.85
   2 ?   10.4   0.0   0.00017      0.45      19      40 ..     301     322 ..     294     327 .. 0.90

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 1
                   HTH_23  23 IAreLgvsrrTv 34 
                              I+  Lgvs+  v
  PHY93_04060|PHY93_04060 208 ISSTLGVSEKSV 219
                              8899****9877 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 0.00017
                   HTH_23  19 svreIAreLgvsrrTvyrwlkr 40 
                              s + IA+++gvsr  ++++ +r
  PHY93_04060|PHY93_04060 301 SLQSIADQYGVSRERIRQIEER 322
                              7788**************9888 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (334 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1011  (0.0563891); expected 358.6 (0.02)
Passed bias filter:                      638  (0.0355848); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.41
# Mc/sec: 2474.64
//
Query:       PHY93_04065|PHY93_04065  [L=554]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (554 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       449  (0.0250432); expected 358.6 (0.02)
Passed bias filter:                      337  (0.0187964); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.40
# Mc/sec: 4197.92
//
Query:       PHY93_04070|PHY93_04070  [L=483]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.019   14.7   0.0       0.92    9.2   0.0    2.3  2  TPR_21    Tetratricopeptide repeat-like domain
       0.11   12.7   0.8        8.5    6.8   0.2    3.4  3  TPR_2     Tetratricopeptide repeat
       0.17   11.8   0.9       0.78    9.7   0.5    2.4  2  TPR_1     Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> TPR_21  Tetratricopeptide repeat-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   0.0   0.00015      0.92      74     140 ..      64     128 ..      35     131 .. 0.80
   2 ?    2.8   0.0     0.014        82     145     180 ..     271     306 ..     255     315 .. 0.83

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.00015
                   TPR_21  74 YaalaaLllAkaaveagdlaaAkaqLewvlekakdeelkalarlRLarvllaekkydeAlktLeakk 140
                                ++ +L+ Ak  +  gdl+ Ak  L+++ +k+    +  + +  La + + e+++d+ l+ L++k+
  PHY93_04070|PHY93_04070  64 GSDIDNLIRAKYRMIGGDLKLAKFYLNRIDDKK--SRVYPIKKRYLAIISFIEGHFDQSLEHLKDKH 128
                              357889********************9877666..5589************************9876 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.014
                   TPR_21 145 aalvaelrGDilvaqgkldeAraaYqaAlaaleeka 180
                              +a +++++G+i +++++ + A  +++ Al+++++++
  PHY93_04070|PHY93_04070 271 SANAENIKGNINLQNKEYELAFGHFRLALQKKQDSN 306
                              47899*************************999876 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.0     0.043   2.6e+02       6      25 ..     106     125 ..     104     126 .. 0.90
   2 ?    6.8   0.2    0.0014       8.5       7      30 ..     278     301 ..     272     305 .. 0.88
   3 ?   -2.4   0.0       1.2   7.1e+03      12      23 ..     351     362 ..     350     364 .. 0.79

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.043
                    TPR_2   6 nlGlayyklgdyeeAleafe 25 
                              +l+ + +  g++++ le+++
  PHY93_04070|PHY93_04070 106 YLAIISFIEGHFDQSLEHLK 125
                              799999***********985 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.0014
                    TPR_2   7 lGlayyklgdyeeAleafekAlel 30 
                               G++ +++++ye A  +f+ Al+ 
  PHY93_04070|PHY93_04070 278 KGNINLQNKEYELAFGHFRLALQK 301
                              799*******************96 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 1.2
                    TPR_2  12 yklgdyeeAlea 23 
                              ++ +++ eA++ 
  PHY93_04070|PHY93_04070 351 IREKNFTEAERE 362
                              67899***9875 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.0      0.46   2.7e+03       7      24 ..     107     124 ..     106     125 .. 0.78
   2 ?    9.7   0.5   0.00013      0.78       1      31 [.     272     302 ..     272     305 .. 0.89

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 0.46
                              HHHHHHHTT-HHHHHHHH CS
                    TPR_1   7 lGnayfklgkydeAleyy 24 
                              l+ + f  g +d+ le+ 
  PHY93_04070|PHY93_04070 107 LAIISFIEGHFDQSLEHL 124
                              667778889999999986 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.00013
                              HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS CS
                    TPR_1   1 akalynlGnayfklgkydeAleyyekALeln 31 
                              a+a + +Gn+ +++++y+ A  +++ AL+  
  PHY93_04070|PHY93_04070 272 ANAENIKGNINLQNKEYELAFGHFRLALQKK 302
                              6778889*********************966 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (483 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       648  (0.0361426); expected 358.6 (0.02)
Passed bias filter:                      379  (0.0211389); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.40
# Mc/sec: 3661.82
//
Query:       PHY93_04075|PHY93_04075  [L=622]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.3e-16   61.0   0.1    3.4e-16   59.7   0.1    1.8  1  FecR       FecR protein
     0.0019   18.4   3.3     0.0051   17.0   3.3    1.7  1  OMP_b-brl  Outer membrane protein beta-barrel domain


Domain annotation for each model (and alignments):
>> FecR  FecR protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.7   0.1   3.7e-20   3.4e-16       3      95 ..      59     157 ..      57     158 .. 0.89

  Alignments for each domain:
  == domain 1  score: 59.7 bits;  conditional E-value: 3.7e-20
                     FecR   3 irTgagsraeilleDgsvvrlnensslekaadsskrrrevsllkGevlfdvakdkkrp....fevktpsatigvrgtef..rvrks 82 
                              i Tga+s  +i+l D+s ++l+++s++  +  +++    +sllkG+++++v+kd+++p    f+vkt++a  gvrgt+f    + +
  PHY93_04075|PHY93_04075  59 ILTGAKSFIKIKLIDNSEINLGPESKIVISEMKKNSVGIISLLKGRIRTEVEKDSAKPnsnkFFVKTRTAALGVRGTDFqtIYNPE 144
                              78*************************666666666667*****************888899*****************8444799 PP

                     FecR  83 dkqtevavleGeV 95 
                              +k t++ +++GeV
  PHY93_04075|PHY93_04075 145 NKMTSLLTYRGEV 157
                              99999*9****99 PP

>> OMP_b-brl  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   3.3   5.7e-07    0.0051      27     159 ..     422     557 ..     407     571 .. 0.69

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 5.7e-07
                OMP_b-brl  27 glglskvkvdgvgsdsgfgfgvgagyefndn....vgvegglsysgdkdysgsgktdikinllsvpvnagyafnlsdsvlpyggaG 108
                              + +++++++ + +s+ ++ f++++ + +n++    vg+++g+ + +d  ++g     ++ +   +++ +g+++   ++++ y ++G
  PHY93_04075|PHY93_04075 422 NKNSNNASFLELNSSGSVRFQFEWQMATNNRfsplVGIDYGIVKFKDQAIKG----VTQASDKLLGLSYGIQYAATKNINFYSKLG 503
                              3333344433444444699999999999998333455555555555555555....34445555777777777766789******* PP

                OMP_b-brl 109 lg...ytkvevdvsgngasdsdtdfglglgaGveyala..dnwslkaeYrytdlks 159
                              l+   y +++ ++++    + ++    +l +G++++++  ++ws++++   + +++
  PHY93_04075|PHY93_04075 504 LHqehYLDQTASGNNA--YTLRKVVLTRLSLGANAEFWrlKKWSMDGSAGGVFTFR 557
                              **98766666666666..9999999999*********9666******999888865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (622 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       596  (0.0332422); expected 358.6 (0.02)
Passed bias filter:                      364  (0.0203023); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.63u 0.22s 00:00:00.85 Elapsed: 00:00:00.41
# Mc/sec: 4543.23
//
Query:       PHY93_04080|PHY93_04080  [L=497]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   2.4e-144  481.1   9.2   2.8e-144  480.9   9.2    1.0  1  SpoVR     SpoVR like protein


Domain annotation for each model (and alignments):
>> SpoVR  SpoVR like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  480.9   9.2  1.6e-148  2.8e-144       6     417 ..      11     439 ..       6     440 .. 0.90

  Alignments for each domain:
  == domain 1  score: 480.9 bits;  conditional E-value: 1.6e-148
                    SpoVR   6 eleeakeeieeiakelgLdfypnqfeiitaeqmleaaayvgmPlrysHWsfGkeyeklkksykyglsklaYElViNsdPciaylle 91 
                              el +++eei+ +a e+gLdf+p++fe++++++++ +aa++g+P ry+HW+fG++y++l+k y ygl+k+ YE+ViN++Pc+ayll+
  PHY93_04080|PHY93_04080  11 ELLRIREEIHGYALEFGLDFHPVRFEVCDYDTINILAAQGGFPNRYPHWRFGMDYDQLSKGYAYGLQKI-YEMVINTNPCYAYLLN 95 
                              68899****************************************************************.**************** PP

                    SpoVR  92 eNslvqqklviAHvygHndFFknNalFkkttdarkildslalaaerireyeeryGeeeVEklldaalaleelvdrykrkekkklee 177
                               N++v+qk+v+AHvygH+dFFknNa+F++t+  r+++  +a++ ++ir+y+eryG+++VE+++d +l++e+l+d    +e+++l++
  PHY93_04080|PHY93_04080  96 ANHIVDQKIVMAHVYGHADFFKNNAWFSNTD--RNMMAVMANHGTKIRRYMERYGQNKVEEFVDRVLSIENLIDVGVLFETQELRR 179
                              *******************************..*****************************************999885555544 PP

                    SpoVR 178 eekrk.........kereeyesqvedlwrtleekkkkeeeekek....eekfpeepeedlllFleknapeLeeWqrdilrivreea 250
                              +++++         +e +e ++  ++++r++e++ k +  ++e+     +  + +  +d++ +l +nap LeeW+ dil i+r+ea
  PHY93_04080|PHY93_04080 180 QSDERmktsaaeiaNEADERSTALKSFMRVKERTGKMNGPKEEEevtdLRDKKINTPRDVMFYLLENAP-LEEWESDILGILRDEA 264
                              4444433344433334444445566666666653333333322234443344445668***********.**************** PP

                    SpoVR 251 qYFlPQrqtkimNEGwAsywHstilnelkltdeeileflkshsgvvapsksglNPYalGlklfedierrv..........eeptee 326
                              +YFlPQr tkimNEGwAsywHs+i+++ +l+ +ei++++++h+gv+a+sk+++NPY++G++l++die r+          ++++++
  PHY93_04080|PHY93_04080 265 YYFLPQRLTKIMNEGWASYWHSHIMTNRALKASEIIDYADHHAGVMAMSKQNINPYKIGIELYRDIEYRWntgrfgkeynDCEDMH 350
                              ********************************************************************************9***** PP

                    SpoVR 327 erekfdkkagegreklfevrelekDesfirqyLtkelvrelklfslkkkeeeeeveaiidekgykkvrekLlkqltnaglpaiqve 412
                               +++++k+++ gr+k+fevr++++D+sfi++++t+e++++++lf++k + ++   +++i+++++ ++++kLl+ql+n+g p+i+ve
  PHY93_04080|PHY93_04080 351 VKHNWNKELNLGRQKIFEVRKTHNDVSFIDEFFTPEFCERQQLFTYKYNPRTG--RSEIETRDFLEIKNKLLTQLSNFGSPVIEVE 434
                              ***************************************************99..******************************* PP

                    SpoVR 413 dvdle 417
                              +++++
  PHY93_04080|PHY93_04080 435 SGNYQ 439
                              ***98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (497 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       757  (0.0422221); expected 358.6 (0.02)
Passed bias filter:                      487  (0.0271627); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.58u 0.28s 00:00:00.86 Elapsed: 00:00:00.43
# Mc/sec: 3452.55
//
Query:       PHY93_21230|PHY93_21230  [L=80]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.2e-14   52.4   0.0    4.8e-14   52.3   0.0    1.0  1  Glycos_transf_1  Glycosyl transferases group 1
    4.3e-10   39.9   0.0    4.7e-10   39.7   0.0    1.0  1  Glyco_trans_1_2  Glycosyl transferases group 1
    6.7e-08   33.0   0.0    8.8e-08   32.7   0.0    1.2  1  Glyco_trans_1_4  Glycosyl transferases group 1


Domain annotation for each model (and alignments):
>> Glycos_transf_1  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.3   0.0   8.1e-18   4.8e-14     111     171 ..       1      61 [.       1      62 [. 0.98

  Alignments for each domain:
  == domain 1  score: 52.3 bits;  conditional E-value: 8.1e-18
                              HHHHTT--EEEETTTTHCHHCHTTTSEEEE-TT-HHHHHHHHHHHHHSHHHHHHHHHHHHH CS
          Glycos_transf_1 111 EAmaaglpviasnaggpaevvkdgetGllvkpnnaealaeairklledeelrerlgenark 171
                              EAm+ag+++i++++gg++e+++d e+G+lvkp ++ +l++a+r+++ ++ lre+lg++a++
  PHY93_21230|PHY93_21230   1 EAMKAGCCIISTDVGGLPELITDTESGILVKPRSVSELSAALREAILNPTLREQLGRAAKE 61 
                              9**********************************************************97 PP

>> Glyco_trans_1_2  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.7   0.0   7.9e-14   4.7e-10      17      81 ..       1      67 [.       1      75 [. 0.96

  Alignments for each domain:
  == domain 1  score: 39.7 bits;  conditional E-value: 7.9e-14
          Glyco_trans_1_2 17 EaaacGafaltddaegleelftpgkevilfe..dleelaekiryllanpeerraiaeaarervlaeh 81
                             Ea+ +G++++++d  gl+el+t+ +++il++  ++ el +++r+++ np +r+++++aa+e++ +++
  PHY93_21230|PHY93_21230  1 EAMKAGCCIISTDVGGLPELITDTESGILVKprSVSELSAALREAILNPTLREQLGRAAKEKFDQQF 67
                             89************************************************************99987 PP

>> Glyco_trans_1_4  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.7   0.0   1.5e-11   8.8e-08      89     132 ..       1      46 [.       1      48 [. 0.93

  Alignments for each domain:
  == domain 1  score: 32.7 bits;  conditional E-value: 1.5e-11
                              HHHHTT-EEEE-TGGGTTT--..TTSSEE--TT-HHHHHHHHHHHH CS
          Glyco_trans_1_4  89 EamaaglpvVatdvggiaevv..gengllvppgdpealaeailrLl 132
                              Eam ag+++++tdvgg++e++   e+g+lv+p+++++l +a+ + +
  PHY93_21230|PHY93_21230   1 EAMKAGCCIISTDVGGLPELItdTESGILVKPRSVSELSAALREAI 46 
                              9********************98799**************998865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (80 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       464  (0.0258799); expected 358.6 (0.02)
Passed bias filter:                      402  (0.0224218); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.38
# Mc/sec: 631.58
//
Query:       PHY93_05325|PHY93_05325  [L=330]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.7e-54  183.7   0.0    5.9e-54  183.4   0.0    1.1  1  tRNA-synt_1b  tRNA synthetases class I (W and Y)
  ------ inclusion threshold ------
        0.1   13.1   0.0       0.15   12.5   0.0    1.4  1  FtsA          Cell division protein FtsA


Domain annotation for each model (and alignments):
>> tRNA-synt_1b  tRNA synthetases class I (W and Y)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  183.4   0.0   6.6e-58   5.9e-54       8     292 ..       6     286 ..       2     287 .. 0.92

  Alignments for each domain:
  == domain 1  score: 183.4 bits;  conditional E-value: 6.6e-58
                              EEEEEETSSS-BGG.GHHHHHHHHHHHHTT.SEEEEEEEHHHHHTTTTT-SSHHHHHHHHHHHHHHHHHHHHHTCHTTTEEEEETH CS
             tRNA-synt_1b   8 vysGidPTgklHlG.ylvplkklvelqkag.hevffliaDlhAiigdpskaeerklrkreevlenaikaqlakgldpekaevvlqs 91 
                              +++Gi++Tg +HlG y++++k+ +++ ++g +e + +iaD h +i  ++   ++ +r+ + ++++a   +la gldp+k++++ qs
  PHY93_05325|PHY93_05325   6 CLTGIKATGMPHLGnYIGAIKPAIDMANSGlYESYYFIADYHSLISIHD---PKLMRSYSYEVAAA---WLAMGLDPSKVTLYKQS 85 
                              79**************************7769*****************...99************...***************** PP

                              HHHTTHHHHHHHHHHHTTCBHHHHHHHHHCCHHCSS.S....C--BHHHHHHHHHHHHHHHHTCHSEEEEEGGGHHHHHHHHHHHH CS
             tRNA-synt_1b  92 ewlehlelaellrdlgklgslnrmlqfksvkkrlee.g....egislgeftYplLqaaDilllkadlvpgGsDQkqnielgrdlar 172
                              +++e lel+++ ++++  g +nr  ++k+v+++ ee +     ++++g+ tYp+L+aaDi+ l+ad+vp+G DQ q+ie++rd+a 
  PHY93_05325|PHY93_05325  86 DIPEILELHWISSCFTIKGLMNRAHAYKAVVQDNEEhErdpdHSVNIGLYTYPVLMAADIMILNADVVPVGADQLQHIEIARDIAT 171
                              *****************************888887745899999****************************************** PP

                              HHHHH..STTSS-EEEEET...-BBSTTSSSBTTCETTCGC-BTTCCHHHHHHHHHHCHCSTTCSHHHHHHHHHTHHHCHHHHHHH CS
             tRNA-synt_1b 173 rfnkk..evfkkpegltvp...lltgldGekKmSKSagnsaIfLddekesvkkkiqkavtdsdeevekllklktelsnelierlea 253
                              +fn     ++k p++++ +   ll gldG  KmSKS +n  I L  + ++ kk+i++++tds       ++ k+e s  +++ +++
  PHY93_05325|PHY93_05325 172 AFNNAygVKLKLPKAIVREgnkLLAGLDGR-KMSKSYSN-HIPLFSSDKDLKKLINRITTDSSG---PTEPKKPEESL-IFDFYSE 251
                              *****99899*******99999********.********.**********************99...55666777777.7778888 PP

                              HCCSEEESSHHHHHHHHHCCCCHHHHHHHHHHHHHHHHH CS
             tRNA-synt_1b 254 vsgkkpkreaeellaeevtklvhggdlkkalaealnell 292
                              + + ++    e+l a + ++ +++g++k +l ++ln++l
  PHY93_05325|PHY93_05325 252 FATPEQ---TETLRAWYHRG-IGWGEAKMELLSVLNKTL 286
                              877665...57777777777.9********999999987 PP

>> FtsA  Cell division protein FtsA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   1.7e-05      0.15       3      85 ..     130     227 ..     129     321 .. 0.71

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 1.7e-05
                              EEE-SSSEEEEEEETTEEEEEEEES--HHHHHHH.HHHHHT--HHHHHHHHHHH--S--...................EEEEEHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxx...................xxxxxxxx RF
                     FtsA   3 vDiGagktdvavaedgalvhlrvigvggngitkd.iakalrtaveeAerikikyGsala...................ekeigrke 68 
                              v+iG  +  v++a d  + + +v++vg++++++  ia+ + ta+++A  +k k  +a+                    +       
  PHY93_05325|PHY93_05325 130 VNIGLYTYPVLMAADIMILNADVVPVGADQLQHIeIARDIATAFNNAYGVKLKLPKAIVregnkllagldgrkmsksyS------- 208
                              899999999******99****************88****************6655555555555556666444422220....... PP

                              HH...GGGGSTTHHHHHHHH CS
                              xx...xxxxxxxxxxxxxxx RF
                     FtsA  69 ls...ggsalpnleelaera 85 
                               +     s+ + l++l++r+
  PHY93_05325|PHY93_05325 209 -NhipLFSSDKDLKKLINRI 227
                              .1333333333333333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (330 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       548  (0.030565); expected 358.6 (0.02)
Passed bias filter:                      525  (0.0292822); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.40
# Mc/sec: 2482.29
//
Query:       PHY93_17280|PHY93_17280  [L=868]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.3e-55  188.7   0.1    4.9e-55  186.8   0.0    1.9  3  Aminotran_3     Aminotransferase class-III
    2.3e-06   27.7   1.6    5.3e-06   26.5   1.6    1.6  1  Shikimate_DH    Shikimate / quinate 5-dehydrogenase
    0.00032   21.1   0.2     0.0008   19.8   0.2    1.7  1  Semialdhyde_dh  Semialdehyde dehydrogenase, NAD binding domai
  ------ inclusion threshold ------
      0.051   12.9   1.6        1.3    8.3   0.1    2.4  2  THF_DHG_CYH_C   Tetrahydrofolate dehydrogenase/cyclohydrolase
      0.053   13.4   0.0        1.4    8.8   0.0    2.7  2  Lipase_3        Lipase (class 3)


Domain annotation for each model (and alignments):
>> Aminotran_3  Aminotransferase class-III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  186.8   0.0   1.4e-58   4.9e-55      20     403 ..      38     478 ..      22     481 .. 0.83
   2 ?   -3.5   0.0      0.88   3.1e+03     292     314 ..     652     674 ..     652     684 .. 0.82
   3 ?   -2.0   0.1      0.31   1.1e+03      42      85 ..     688     732 ..     674     739 .. 0.77

  Alignments for each domain:
  == domain 1  score: 186.8 bits;  conditional E-value: 1.4e-58
                              EEEETTS-E..EEESSHHHHTTTT-BT-HHHHHHHHHHHTT-S---TTTCEEHHHHHHHHHHHHHCT-..S.....EEEEESSHHH CS
              Aminotran_3  20 yltdvdgkr..ylDlvssiavvnlGhahPkvvkavkeqaaklshvsfgaltnepalklaekllklapkgld.....kvflansGse 98 
                               ++ ++g +  + D+++++ +++lGh+hP+++k  ++ + +l     +   ++ +++la kl++l+  +l       + lansG+e
  PHY93_17280|PHY93_17280  38 LIYKKNGIEipVSDFLGGFGSTILGHNHPEILKTSEDCIRELRPQHAQGSLKAVSAHLAAKLNSLVKAKLYddrdfVTTLANSGTE 123
                              4567777663357***************************99988888888889999999998877776633565667899***** PP

                              HHHHHHHHHHH.HHHHTSHCTT-..................................EEEEETTT---SSHHHHHHSS--TTTTTT CS
              Aminotran_3  99 AvetAlKlark.yarekkatekt..................................kiiafkgafHGrtlgalsvtgskkkyktl 149
                              Ave+AlK +   ++ +kk                                        i++++++fHG+t ga+++t++ + y++ 
  PHY93_17280|PHY93_17280 124 AVEVALKHCLLeWTEKKK----RfilkiktqvihsrveglvkksiedycekienlspVILSLEKSFHGKTSGAIAMTAN-ATYRKM 204
                              ********9870333333....246667889************************************************.****** PP

                              CTTB-TSEEEE-TTBGGGTB-HHHHHHHHHHHHHHHHCHTCCCEEEEEE-SCETTTTSEB--CCHHHHHHHHHHHHT-EEEEE-TT CS
              Aminotran_3 150 fgpflpevvrlkypdeevlkeneeeeaalleelealekkkkdevaAvivEpiqgegGvvvaspeflaklrelckkhdvllivDEvq 235
                              ++  + ev+++  +   ++ +    ++ l+ +l+  +  +   + ++i EpiqgegG+   +++fl+++    kk  + +i DE+q
  PHY93_17280|PHY93_17280 205 YQTAPVEVKFFSVDE-LNILSDVVIKSDLELALSPDQTLSFSPIVGFIYEPIQGEGGIAEIPESFLKEVSRKLKKRHIPMISDEIQ 289
                              ************995.44433333334444444444488899******************************************** PP

                              TTTTTTSSSSGGGGCTS--SEEEE-GGGGTT.SS-EEEE.EEHHHHTTS-TTSB--TTTT-HHHHHHHHHHHHHHHH..TTHHHHH CS
              Aminotran_3 236 tGfGrTGklfAlehagvspDlmtlaKaltgG.lplsavl.ataevmqalapgshgsTfgGnplacavalavleiiee..ekllena 317
                              +G+ rTGk+ + e++g++pD ++l+K+l+gG   +sa++ a++  ++ +    h sTf+ +    ++a+ +lei+ee  +   e+a
  PHY93_17280|PHY93_17280 290 SGLFRTGKFLCSEWFGIKPDYILLGKSLGGGiAKISATMiANNHYVDEF-GWIHTSTFSEDDWSSSIAIRALEILEEneQVISERA 374
                              *******************************988888761566666677.444**********************9963445689* PP

                              HHHHHHHHHHHHHHCTT-.TTEEEEEEETTEEEEEEBCCCETTC..................HHHHHHHHHCTEE-EEETTTEEEE CS
              Aminotran_3 318 qelgaalkegLeelqkky.evikevRgkGlmiaielkeeaevke..................keilkkakekGvlilsaGdnvirl 384
                              q+ +++++ + ++lq+k  +vik+++g+G+++++e+  ++   +                  +++l   ++  + +  + +++ir+
  PHY93_17280|PHY93_17280 375 QAFEKRIRLEFSKLQSKFpNVIKQIKGRGFFLGVEFNFDSS-SPltdllnglyehghvtyvyTSYLLHHHDVRLGVTLSAPEIIRM 459
                              *****************99****************998888.33577999999999999998556666666655555677799999 PP

                              ---TT--HHHHHHHHHHHH CS
              Aminotran_3 385 lppliitdeeidelleilk 403
                               p+ ++t+e i +l+  + 
  PHY93_17280|PHY93_17280 460 EPSAFVTEESISKLIAGFD 478
                              9999999999999887765 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 0.88
                              TT-HHHHHHHHHHHHHHHHTTHH CS
              Aminotran_3 292 gGnplacavalavleiieeekll 314
                              +Gn l +a+a+++++ i +ek +
  PHY93_17280|PHY93_17280 652 TGNSLTAAMAIEAIRSISKEKKI 674
                              59999999999999999988755 PP

  == domain 3  score: -2.0 bits;  conditional E-value: 0.31
                              -BT-HHHHHHHHHHHTT-S---TTTC.EEHHHHHHHHHHHHHCT- CS
              Aminotran_3  42 GhahPkvvkavkeqaaklshvsfgal.tnepalklaekllklapk 85 
                              G+    +++++++ + +l+++ ++al +n+++++++++ll+++  
  PHY93_17280|PHY93_17280 688 GNICNVLTQIIADDVTNLVLIHRKALiHNQKYQEAVDQLLDQTNL 732
                              666667899999999999999998762677899999999888765 PP

>> Shikimate_DH  Shikimate / quinate 5-dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.5   1.6   1.5e-09   5.3e-06       5     128 ..     671     794 ..     667     797 .. 0.75

  Alignments for each domain:
  == domain 1  score: 26.5 bits;  conditional E-value: 1.5e-09
                              HHHS..TT-EEEEES-SHHHHHHHHHHHCCT-CEEEEEESSH....HHHHHHHHHH.T.ET-EEEEG..CGHHHHHHT-SEEEE-S CS
             Shikimate_DH   5 kkleslkekkvlliGaGemaelvakhLlakgvkkvvvaNRtl....erakelaeel.kgeeiealkl..eelkellaeadvvisat 83 
                              +k  +lk++k+ ++G    +  v+++++a  v+++v + R      ++ +e +++l ++++++  +l      + l+++++vi+ t
  PHY93_17280|PHY93_17280 671 EKKIDLKKAKIGVVGFTGNICNVLTQIIADDVTNLVLIHRKAlihnQKYQEAVDQLlDQTNLKKENLvfGHELTDLKDCEIVIVGT 756
                              444479*********88888888889999999999888886333335555555555344444444431144445799********* PP

                              SSSS-SB-HHHHHCCHHH.S..EEEEE--SS-SB-TTGGGSTTCC CS
             Shikimate_DH  84 aseepilekeeveealkkrkkplllvDiavPRdvepevaeledvr 128
                              +s   i+ +e+++          +++Di+vP +v++ev++ +dv 
  PHY93_17280|PHY93_17280 757 NSAAEIIVSEHIKFGA-------IVLDISVPSNVQSEVKKRKDVT 794
                              ************9765.......99**************998886 PP

>> Semialdhyde_dh  Semialdehyde dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.8   0.2   2.2e-07    0.0008       1      99 [.     680     780 ..     680     802 .. 0.79

  Alignments for each domain:
  == domain 1  score: 19.8 bits;  conditional E-value: 2.2e-07
                              EEEEETTTSHHHHHHHHHHHCTSSEEEEEEEESTT.TTTSBHHHHSGGGTTTECEBEEE....GGGGGCTT-SEEEE-SCHHHHHH CS
           Semialdhyde_dh   1 kvaivGatGyvGqellrlLeehpevelvvllsssr.saGkklaeavkaleegkdlkved....vdeeelkevdivflalpagvske 81 
                              k+++vG tG++  +l ++++++  v+ +vl+ ++   + +k++eav +l ++++lk e+     +  +lk+++iv+  ++ ++++ 
  PHY93_17280|PHY93_17280 680 KIGVVGFTGNICNVLTQIIADD--VTNLVLIHRKAlIHNQKYQEAVDQLLDQTNLKKENlvfgHELTDLKDCEIVIVGTN-SAAEI 762
                              79******************94..455555555555999*******96666555555555444488999*********96.67888 PP

                              HHHHHHHTTSEEEESSST CS
           Semialdhyde_dh  82 lapklaeagvkviDlssd 99 
                              ++ + ++ g++v D s  
  PHY93_17280|PHY93_17280 763 IVSEHIKFGAIVLDISVP 780
                              999999********9965 PP

>> THF_DHG_CYH_C  Tetrahydrofolate dehydrogenase/cyclohydrolase, NAD(P)-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.3   0.1     0.013        47      16      71 ..     658     713 ..     649     728 .. 0.80
   2 ?    8.3   0.1   0.00036       1.3      77     112 ..     746     782 ..     739     798 .. 0.77

  Alignments for each domain:
  == domain 1  score: 3.3 bits;  conditional E-value: 0.013
                              --HHHHHHHHHHHHCT---TT-EEEEE---TTTHHHHHHHHHCTT-EEEEE-TTSC CS
            THF_DHG_CYH_C  16 lpctpkgvvellketgielegkkvvvvGrsnivgkplallLleknatVtvchsktk 71 
                              ++   +++ ++ ke++i+l+ +k+ vvG    + + l+++++ +     ++h+k+ 
  PHY93_17280|PHY93_17280 658 AAMAIEAIRSISKEKKIDLKKAKIGVVGFTGNICNVLTQIIADDVTNLVLIHRKAL 713
                              455567899999***********************999999999888888888774 PP

  == domain 2  score: 8.3 bits;  conditional E-value: 0.00036
                              HCCSSEEEE-SS.-TT-B-GGGS-TT-EEEE---EEC CS
            THF_DHG_CYH_C  77 treadivvvavG.kpelikaemvkegavviDvGinrv 112
                              ++  +iv+v++   +e+i +e++k ga+v+D+ + + 
  PHY93_17280|PHY93_17280 746 LKDCEIVIVGTNsAAEIIVSEHIKFGAIVLDISVPSN 782
                              567889999886157899*************987554 PP

>> Lipase_3  Lipase (class 3)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   0.0   0.00039       1.4      68      93 ..     311     336 ..     299     348 .. 0.85
   2 ?    1.1   0.0     0.091   3.2e+02      69     103 ..     651     687 ..     629     706 .. 0.81

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.00039
                              EEEEETHHHHHHHHHHHHHHHTT-SS CS
                 Lipase_3  68 vvtGHSLGgalAlLaaldlvengene 93 
                              ++ G SLGg++A ++a+++++n+  +
  PHY93_17280|PHY93_17280 311 ILLGKSLGGGIAKISATMIANNHYVD 336
                              6779****************998765 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.091
                              EEEETHHHHHHHHHHHHHHHTT-SS..---EEEEEES CS
                 Lipase_3  69 vtGHSLGgalAlLaaldlvengene..kkkvtvvtfG 103
                               tG SL +a+A+ a   + ++++ +  k k++vv f 
  PHY93_17280|PHY93_17280 651 TTGNSLTAAMAIEAIRSISKEKKIDlkKAKIGVVGFT 687
                              49*********98888888888777778888888775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (868 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       668  (0.0372581); expected 358.6 (0.02)
Passed bias filter:                      510  (0.0284455); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.76u 0.25s 00:00:01.01 Elapsed: 00:00:00.43
# Mc/sec: 6070.55
//
Query:       PHY93_04085|PHY93_04085  [L=369]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.4e-88  296.2   3.7    1.7e-60  205.3   0.4    2.0  2  DUF444          Protein of unknown function (DUF444)
  ------ inclusion threshold ------
        0.1   13.0   0.0        3.6    8.0   0.0    2.9  3  Linker_histone  linker histone H1 and H5 family


Domain annotation for each model (and alignments):
>> DUF444  Protein of unknown function (DUF444)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   92.3   0.2   3.9e-30   3.5e-26      15     178 ..       7     165 ..       3     170 .. 0.92
   2 !  205.3   0.4   1.9e-64   1.7e-60     227     419 ..     177     368 ..     170     369 .] 0.95

  Alignments for each domain:
  == domain 1  score: 92.3 bits;  conditional E-value: 3.9e-30
                   DUF444  15 enrqRflrrvkeqikeavadavsersikdiskgekikipikdikepefeygkggeregVlpGnkefkeGdkierpeeggggggsge 100
                               +  Rf++ vk +i++++++ vs++++   + + ++kip+ +i+ p+f+ g +++++g+++Gn+  +eGd+++ +e++g   gsg+
  PHY93_04085|PHY93_04085   7 RDHARFRKIVKGRIRDNLRKYVSKGEMPSPKGDGTFKIPMPSIDTPRFKFG-DRNQGGMGQGNG--EEGDPVDGQEGEGP--GSGK 87 
                              6899***********************************************.9999*******9..69****88765543..4456 PP

                   DUF444 101 gseaGegedefefelsreEfldllfedLeLPdLekkklekveekktkragytrkGspsnldvkrtlrealkRrialkr 178
                              +  +  g+ e e+ ls +E++++l e+L+LP++e+k+++ + ++++k + +  +G++s  ++krt+rea+kR+ia ++
  PHY93_04085|PHY93_04085  88 EVGNSAGNKELEVDLSLDELASILGEELALPKIEPKGKKAMPSVTNKYTSIGMTGPNSLKHFKRTYREAMKRQIASGS 165
                              6666789*******************************************************************9865 PP

  == domain 2  score: 205.3 bits;  conditional E-value: 1.9e-64
                   DUF444 227 delDlRYrrvekepkpesnaVmfclmDvSGSMdetkkdlakrfFilLylFLkrkYekvevvFirHtteAkeVdeeeFFysresGGT 312
                              +  D RYr  + + + e++aV++ +mDvSGSM +++k++++   ++++l+Lk +Y+++ev +i H+++AkeVd e+FF+ resGGT
  PHY93_04085|PHY93_04085 177 KR-DFRYRASDAKVEFENSAVVIYMMDVSGSMGDEQKEIVRTESFWINLWLKSQYKDIEVRYIIHDATAKEVDAETFFKTRESGGT 261
                              44.8********************************************************************************** PP

                   DUF444 313 vvSsalelmkeiieerYppseWNiYaaqasDgdnwseD.sekavellaekilplvqyfaYveitpsaseeeqtlweeyekvaeeee 397
                              ++Ssal+l +eii+  Y+pseWNiY ++ sDgdnws+D ++ + e+l +++lp++++f Y ++++  + + q  ++ ++++ e++e
  PHY93_04085|PHY93_04085 262 LISSALKLCREIIQTDYDPSEWNIYPFHFSDGDNWSADdTKLCLEILDQDLLPASNVFCYGQVES-RYGSGQFYKDLVSRYGEDDE 346
                              ***********************************96516779*********************9.8888999999999999999* PP

                   DUF444 398 nfamakvkekediypvfrellk 419
                              ++  +k+k+ke i++ ++++l 
  PHY93_04085|PHY93_04085 347 KVILSKIKNKEAILDSIKDFLG 368
                              *******************986 PP

>> Linker_histone  linker histone H1 and H5 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   0.0    0.0004       3.6      42      73 ..      16      44 ..       5      45 .. 0.82
   2 ?   -0.6   0.0       0.2   1.8e+03      38      57 ..     145     164 ..     131     169 .. 0.76
   3 ?    0.4   0.0     0.093   8.4e+02      26      66 ..     222     259 ..     219     265 .. 0.81

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.0004
           Linker_histone 42 fksllkkalkkgvekgelvqpkgkGasGsfKL 73
                             +k +++  l+k v+kge+  pkg    G+fK+
  PHY93_04085|PHY93_04085 16 VKGRIRDNLRKYVSKGEMPSPKG---DGTFKI 44
                             38899*****************7...677776 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.2
           Linker_histone  38 dvskfksllkkalkkgvekg 57 
                              + ++fk   + a+k+ +++g
  PHY93_04085|PHY93_04085 145 SLKHFKRTYREAMKRQIASG 164
                              67888889999999998888 PP

  == domain 3  score: 0.4 bits;  conditional E-value: 0.093
           Linker_histone  26 IkkyikakykvvdvskfksllkkalkkgvekgelvqpkgkG 66 
                              I+ ++k++yk  d   +++ +  a +k v+ +++ +++ +G
  PHY93_04085|PHY93_04085 222 INLWLKSQYK--D-IEVRYIIHDATAKEVDAETFFKTRESG 259
                              5567888888..4.4567999*************9998766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (369 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       416  (0.0232026); expected 358.6 (0.02)
Passed bias filter:                      357  (0.0199119); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.21s 00:00:00.77 Elapsed: 00:00:00.41
# Mc/sec: 2712.55
//
Query:       PHY93_04090|PHY93_04090  [L=683]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.8e-93  313.3   0.1    1.8e-93  313.3   0.1    1.7  2  AAA_PrkA  PrkA AAA domain
    5.9e-83  278.4   5.9    9.7e-83  277.7   5.9    1.4  1  PrkA      PrkA serine protein kinase C-terminal domain
     0.0024   18.3   0.0     0.0069   16.8   0.0    1.7  1  AAA_16    AAA ATPase domain
  ------ inclusion threshold ------
      0.051   12.5   0.0      0.089   11.7   0.0    1.3  1  HTS       Homoserine O-succinyltransferase


Domain annotation for each model (and alignments):
>> AAA_PrkA  PrkA AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  313.3   0.1   4.1e-97   1.8e-93       2     358 .]      27     417 ..      26     417 .. 0.92
   2 ?   -2.3   0.8      0.35   1.6e+03       4      53 ..     514     564 ..     511     579 .. 0.75

  Alignments for each domain:
  == domain 1  score: 313.3 bits;  conditional E-value: 4.1e-97
                 AAA_PrkA   2 slaeyleivkedksvaksaaerlldlikdkglelvdtaederlsrifsnetikkypafeedffGleetiekiveyfraaaqrleer 87 
                              ++++yl++v e++ ++++a +r+ d+i+  g +     ++e l+  f ++ i++    ++ +fG++  ++k+v++f++aa +   +
  PHY93_04090|PHY93_04090  27 TFQDYLDLVTENPRITRNAFQRVHDMIMTYGSTNYTEYKKEVLRYHFFDDPIQNG---KDAVFGIDVHLMKLVNFFKSAAAGYGTE 109
                              8*****************************9977666777777778888888765...4578************************ PP

                 AAA_PrkA  88 kqilyllGPvggGksslverlkklleaa......piyal................egsPvfeePlhlipeelrkkleeeygi.... 147
                              k++l+l GPvg+ kss+  ++kk le++      ++y++                  sP++eePl+l+p ++rk + +e +     
  PHY93_04090|PHY93_04090 110 KRVLLLHGPVGSAKSSISRMIKKGLEHYsktdqgALYTFewfddhesdilggqkiFPSPMHEEPLKLLPIDVRKAFLDEINKgkke 195
                              **************************999999999***9********99999866579***************9997664333333 PP

                 AAA_PrkA 148 ....rlegllsPlatkrl...eeefgGdiek....fkvekilfsilkrigiakvePgdennqdisalvGkvdirkleey.sendpd 221
                                  +++++++P   + l    ++++Gd +k    ++v+++l s+++rigi++++P de+nqd ++l+G ++ rk+++y s++dp+
  PHY93_04090|PHY93_04090 196 gykvNIKAEVCPADRYILgayLKKYNGDWKKvlshVRVKRLLLSEKDRIGIGTFQPKDEKNQDSTELTGDINYRKIAQYgSDSDPR 281
                              3333********999977333489***9765222279******************************************99***** PP

                 AAA_PrkA 222 aysysGalnranrGllefvemfkadikvlhplltatqegnyksteklslipfdgiilahsnesewkkfksnkknealldrivvvkv 307
                              a++++G++n anrG++ef+em+k d+ +l+ ll a qe+++k  +k++   +d++il h+ne e++k++sn+  eal dr v+++v
  PHY93_04090|PHY93_04090 282 AFNFDGEFNIANRGIVEFIEMLKLDVAFLYDLLGASQEQSIKP-KKFAQTDIDEVILGHTNEPEFRKLQSNEFMEALRDRTVKIDV 366
                              *****************************************97.9***************************************** PP

                 AAA_PrkA 308 PyclrvseekkiyekllkeseladahiaPetlevlarfsiltrlkeseksd 358
                              Py  r+++e kiy+k +++ ++ ++hiaP+t+e++a +siltrl+e++ksd
  PHY93_04090|PHY93_04090 367 PYITRLDQEVKIYQKDFNSEKIPHVHIAPHTIEMAATWSILTRLEEPKKSD 417
                              *************************************************97 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 0.35
                 AAA_PrkA   4 aeyleivkedksvaksaaerlldlikdkgl.elvdtaederlsrifsneti 53 
                              +ey +ivk+d ++a s +e  ++ +  + + ++   +++e++++ +sn+  
  PHY93_04090|PHY93_04090 514 QEYEDIVKNDVQKAISVDESAIQTLCANYIdNVKAFTQKEKIRNKYSNKLE 564
                              899999999999999998888888888877444445677888888888755 PP

>> PrkA  PrkA serine protein kinase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  277.7   5.9   2.2e-86   9.7e-83       1     257 []     421     672 ..     421     672 .. 0.98

  Alignments for each domain:
  == domain 1  score: 277.7 bits;  conditional E-value: 2.2e-86
                     PrkA   1 leKmklYdgeelpdsleeedvkeLreeaeereGmsGispRyvikilsealssseakeekcinpldvlealeeglkehevis.eeer 85 
                              l+K+klY+g++lp+++e+ +vkeLr+ea  reG +GispRy++++ls+ l+++   +  c+np++v+++le+glk+h+ i+  e+ 
  PHY93_04090|PHY93_04090 421 LQKLKLYNGKTLPGYNED-NVKELRKEA-IREGLEGISPRYIQDKLSNSLVKNG--HVGCLNPFMVFNELESGLKHHGLINsPEQL 502
                              69****************.*********.99*******************9776..89***********************77888 PP

                     PrkA  86 ekyleflevvreeydervkkevqeAllyseeeqieelvenYldhveayikkekvkdpiTgeelepderflrsiEeqigiseeakkd 171
                              ++y+e+l+ +r+ey+++vk++vq+A+  ++e +i++l++nY+d+v+a+++kek+++++ ++ +++derf+rsiEe+i+i+e++k+d
  PHY93_04090|PHY93_04090 503 DHYREMLAIARQEYEDIVKNDVQKAIS-VDESAIQTLCANYIDNVKAFTQKEKIRNKYSNKLEDADERFMRSIEEKIDIPESRKDD 587
                              *************************66.********************************************************** PP

                     PrkA 172 FRrevikelaasalaregkkidytsierlkealekklfedvkdllklis.stktpdkeqqkkveevverLvekfgYceacArevle 256
                              FRre+++++   ala egk +dy+ +erl++ale klfed+kd +kl++  +k+ dke+q+k++ v  rL++++gYce cA+++l+
  PHY93_04090|PHY93_04090 588 FRREIMNYI--GALAIEGKVFDYKMNERLHRALELKLFEDQKDSIKLTTiISKVVDKETQEKIDVVKSRLIKNHGYCEICATDALN 671
                              *********..**************************************9999*******************************98 PP

                     PrkA 257 Y 257
                              +
  PHY93_04090|PHY93_04090 672 F 672
                              7 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   1.5e-06    0.0069      10      66 ..      93     157 ..      85     196 .. 0.83

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 1.5e-06
                   AAA_16  10 eqLlsalervrsgrp...elvllsGesGvGKsslvrellr...alekd..ggiflrgkcdqlesa 66 
                               +L + ++++++g +   +++ll+G+ G+ Kss+ r++++   +++k+  g++++ +++d++es+
  PHY93_04090|PHY93_04090  93 MKLVNFFKSAAAGYGtekRVLLLHGPVGSAKSSISRMIKKgleHYSKTdqGALYTFEWFDDHESD 157
                              578888998999988899*********************966644444667888******99777 PP

>> HTS  Homoserine O-succinyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0     2e-05     0.089     148     203 ..     540     595 ..     500     603 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 2e-05
                              HHHHH----EEEEEEEEEEEEEEES.S--GGGTT--SEEEEEEEEEEE--HHHHTT CS
                      HTS 148 lyylygvekkklpeKlfGvfehkvlkekspllrgfddeflvphsRytevkeediee 203
                               +y ++v+  +++eK+   +++k+++ +++++r +++++ +p sR  ++++e ++ 
  PHY93_04090|PHY93_04090 540 ANYIDNVKAFTQKEKIRNKYSNKLEDADERFMRSIEEKIDIPESRKDDFRREIMNY 595
                              368899999****************************************9998865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (683 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       759  (0.0423336); expected 358.6 (0.02)
Passed bias filter:                      423  (0.0235931); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.69u 0.26s 00:00:00.95 Elapsed: 00:00:00.44
# Mc/sec: 4655.56
//
Query:       PHY93_04095|PHY93_04095  [L=245]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.6e-16   59.9   0.0    3.8e-16   59.4   0.0    1.2  1  PP2C_2    Protein phosphatase 2C
    2.6e-15   56.8   0.1    2.2e-11   43.9   0.0    2.1  2  PP2C      Protein phosphatase 2C
    2.4e-09   37.4   0.1    1.8e-08   34.5   0.1    1.9  1  SpoIIE    Stage II sporulation protein E (SpoIIE)


Domain annotation for each model (and alignments):
>> PP2C_2  Protein phosphatase 2C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.4   0.0   6.3e-20   3.8e-16       8     183 ..      14     199 ..      11     243 .. 0.73

  Alignments for each domain:
  == domain 1  score: 59.4 bits;  conditional E-value: 6.3e-20
                   PP2C_2   8 rglpcqDalavwtdsggsllaVaDGaGSakrSerGariaveavvealaelleseeeeeeallraleaailadvlkeeaeaqdaelk 93 
                              +++ +qD++ +  +   +l++VaDG+G ++++++++++av+++ e+++++l+ e+     ll+   ++ ++++  ++  +  ael 
  PHY93_04095|PHY93_04095  14 KRKTNQDSWYMGLET--KLFVVADGMGGHNGGDIASQMAVKVLPEYVEKNLNMEPVL---LLTGSIKESNRTI--KSFGEANAELT 92 
                              6789*****844444..589*******************************999999...5554444444343..24445578*** PP

                   PP2C_2  94 dyatTllaavvtpdeivalqiGDGaivvrdrdgevqllgepds........geyanqttfltsedaeeel...........rirrl 160
                               ++tT ++++++++ i ++++GD+ + +   ++ +++l+ ++s        g y+++ ++l+ +   ++            ++ ++
  PHY93_04095|PHY93_04095  93 GMGTTIVCFFFKGQNIYIGNVGDSRA-YLINQKRIFQLSRDHSlvqeklnyGVYTREQAALDPQ---KNVlvrtvgfeddvEVDVF 174
                              **************************.5678999999999888887776776666665555544...2224445666677755555 PP

                   PP2C_2 161 k..ledgdalllmTDGlanslrdee 183
                                 +++ d +l++TDGl  +++de+
  PHY93_04095|PHY93_04095 175 VykVNKNDIFLCCTDGLHGKVSDED 199
                              554899999********96666555 PP

>> PP2C  Protein phosphatase 2C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.9   0.0   3.7e-15   2.2e-11      34     142 ..      28     135 ..      14     139 .. 0.79
   2 !   11.1   0.1   3.7e-05      0.22     204     258 .]     181     239 ..     169     239 .. 0.86

  Alignments for each domain:
  == domain 1  score: 43.9 bits;  conditional E-value: 3.7e-15
                              CEEEEEEEEESSSHHHHHHHHHHHHHHHHHHHCHTTHHHHHHHHHHHHHHHHHHHHH.HHHHCHCCT-EEEEEEEEEETTEEEEEE CS
                     PP2C  34 vsffavfdghggseaakyarehleeilksqksfeelekleqalrksfladtdeelks.skantepsksGstavvalirgtklyvAn 118
                               ++f v dg+gg+   ++a++   ++l +  +++   ++   l  s+ + +  ++ks  +an+e    G+t v+ ++ g+++y++n
  PHY93_04095|PHY93_04095  28 TKLFVVADGMGGHNGGDIASQMAVKVLPEYVEKNLNMEPVLLLTGSIKE-SNRTIKSfGEANAELTGMGTTIVCFFFKGQNIYIGN 112
                              5788899999999988888888887777777777774444444444444.56667774444458999******************* PP

                              ESS-EEEEEETTEEEEECS---ST CS
                     PP2C 119 vGDSravLcrkgnakkeltedHkp 142
                              vGDSra L+ ++++  +l++dH  
  PHY93_04095|PHY93_04095 113 VGDSRAYLINQKRIF-QLSRDHSL 135
                              ***************.******85 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 3.7e-05
                              TEEEEEEE-HHHHTTSHHHHHHHHHHHHHHHHT.....HHHHHHHHHHHHHHHCCHHCHC CS
                     PP2C 204 edefliLacdGlwdvlsdqeavdlvrdelekkk.....speevaeelvdeaiargsedni 258
                              +d  ++  +dGl  ++sd+++  +v++++ + +     ++++v ++l+d+a ++g +dni
  PHY93_04095|PHY93_04095 181 NDI-FLCCTDGLHGKVSDEDMLYIVNKHIPDPStatqkDADKVVQALIDQANENGGQDNI 239
                              444.44579*********************98899999*****************99997 PP

>> SpoIIE  Stage II sporulation protein E (SpoIIE)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.5   0.1     3e-12   1.8e-08       6     189 ..      30     243 ..      27     245 .] 0.82

  Alignments for each domain:
  == domain 1  score: 34.5 bits;  conditional E-value: 3e-12
                              EEEEEECSSSSHHHHHHHHHHHHHHHHHHHTTTS......HHHHHHHHHHHCHCTTSTT......TTCEEEEEEEETTTTEEEEEE CS
                   SpoIIE   6 alvvgDvvGhGleAalimgllrsalrelatagle......paevlkrlnralardleee.....erfaTavlavydpstgkleyan 80 
                              ++vv+D++G   +  + + ++ ++l e+++++l+      ++  +k+ nr++ ++++e+      +++T+v++    + +++++ n
  PHY93_04095|PHY93_04095  30 LFVVADGMGGHNGGDIASQMAVKVLPEYVEKNLNmepvllLTGSIKESNRTI-KSFGEAnaeltGMGTTIVCFF--FKGQNIYIGN 112
                              589******99999999*****************99***999999*******.999999999966666666655..666679**** PP

                              ESSSSEEEEETTS......................TEEEEE--SS--...TTTSSST-EEEEEEE--TTEEEEEESCCCCSSSHHH CS
                   SpoIIE  81 aGhpppllvrpdg......................gtklllastglp...lGilpeadyetaelelepgdtlllyTDGvtEardsd 141
                              +G++  +l+++++                      ++  l+ +++++   +G+ ++ ++++  ++++++d+ l++TDG+    +++
  PHY93_04095|PHY93_04095 113 VGDSRAYLINQKRifqlsrdhslvqeklnygvytrEQAALDPQKNVLvrtVGFEDDVEVDVFVYKVNKNDIFLCCTDGLHGKVSDE 198
                              ***********889999777777777777777776444444455555577788777************************999999 PP

                              HHHCCCHHCH...HHHCT.....HCCHHHHHHHHHHHHTTSSSSS-EEEEE CS
                   SpoIIE 142 gelfgkerll...allasaegesleelldalveellelgsgeleDDitllv 189
                              + l+ +++ +    +   a++++++++++al++++ e+g    +D it ++
  PHY93_04095|PHY93_04095 199 DMLYIVNKHIpdpST---ATQKDADKVVQALIDQANENG---GQDNITAIL 243
                              999999999954433...445679999999999999855...788888776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (245 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       562  (0.0313459); expected 358.6 (0.02)
Passed bias filter:                      453  (0.0252663); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.23s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 1814.91
//
Query:       PHY93_04100|PHY93_04100  [L=371]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.4e-35  120.6   2.2    3.9e-35  119.9   2.2    1.4  1  Peptidase_M23    Peptidase family M23
  ------ inclusion threshold ------
      0.082   12.1   1.5       0.19   10.9   0.3    1.8  2  NUP214           Nucleoporin or Nuclear pore complex subunit 
       0.28   11.6   1.6        2.8    8.4   1.7    2.1  1  CCDC53           Subunit CCDC53 of WASH complex
       0.33   10.8   0.0       0.33   10.8   0.0    2.3  3  Biotin_lipoyl_2  Biotin-lipoyl like
        1.1    9.4   6.0       0.89    9.7   1.1    2.3  2  TssO             Type VI secretion system, TssO


Domain annotation for each model (and alignments):
>> Peptidase_M23  Peptidase family M23
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  119.9   2.2   1.1e-38   3.9e-35       2      96 .]     273     367 ..     272     367 .. 0.99

  Alignments for each domain:
  == domain 1  score: 119.9 bits;  conditional E-value: 1.1e-38
                              EESSEEEEETTT-EEEESSSEEEEEEEEETTTEEEEEEEECTCEEEEEEEESEESS-TTEEE-TTCEEEEEBSTSSCSSSEEEEEE CS
            Peptidase_M23   2 fhkGidiaapkgtpVlAaadGtVvfagkkegyGnvviidhgdgystlyahlskisvkegqkVkaGqvIGtvgstgrstgphLhfei 87 
                              +h+G+di ap+gtp++A+adG+V+f+g k+g+Gn+v+idhg g++t+++h s++svk+gqkV +G++I+tvgstg+stgph+h+e+
  PHY93_04100|PHY93_04100 273 MHEGLDIGAPNGTPIVAPADGVVTFSGAKQGFGNFVQIDHGYGVETIFGHASSVSVKKGQKVYRGDKIATVGSTGNSTGPHVHYEV 358
                              8****************************9******************************************************** PP

                              EETTEEE-C CS
            Peptidase_M23  88 rkngkavdp 96 
                              r ng++vdp
  PHY93_04100|PHY93_04100 359 RVNGTPVDP 367
                              ********9 PP

>> NUP214  Nucleoporin or Nuclear pore complex subunit NUP214=Nup159
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.3   5.2e-05      0.19     110     201 ..      53     147 ..      42     191 .. 0.74
   2 ?   -0.3   0.0      0.13   4.8e+02     135     182 ..     199     247 ..     187     260 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 5.2e-05
                              .EEETTEEEEEETTSEEEEEETT....EEEECSEEEEEE-SSEEEEEETTS-EEEEEEEEEEE...EEE---HHHH....TS-TTT CS
                   NUP214 110 lkllkstlllldsnnqLsaldlskkelkslaenvasfDvledkLvvllkdksvqvfeleneeeekskelslPselk....eelkde 191
                               ++++++ ll+++ +  + ++l + +l+s++e++  ++v+e kL +++  + ++ + +++ +     +  lPs+l+    +e + +
  PHY93_04100|PHY93_04100  53 SQVYENKHLLVENRQLKEQVQLFQMKLNSITEDLERINVFERKLRAITGLEAIRATTVDAGSGA--DKSMLPSKLQsnsiAEPDRD 136
                              478899999998888888999**999*****************************999977774..55567777762112456778 PP

                              SEE.EEEEESS CS
                   NUP214 192 yep.lsikvLs 201
                              y+p   ikv++
  PHY93_04100|PHY93_04100 137 YSPgAMIKVFK 147
                              88634567765 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.13
                              ..EEEECSEEEEEE-SSEEEEEETTS-EEEEEEEEEEE....EEE---H CS
                   NUP214 135 elkslaenvasfDvledkLvvllkdksvqvfeleneeee.kskelslPs 182
                              ++ s+a   a fD  +d +v +lk+ +v+v+el++   + +s+  s+Ps
  PHY93_04100|PHY93_04100 199 QTLSMAPLYAEFDFKYDVVVNFLKEVEVHVHELDQYLLDkESFMHSTPS 247
                              556666777899********************99776652445556666 PP

>> CCDC53  Subunit CCDC53 of WASH complex
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.4   1.7   0.00078       2.8      21     124 ..      77     168 ..      43     181 .. 0.48

  Alignments for each domain:
  == domain 1  score: 8.4 bits;  conditional E-value: 0.00078
                   CCDC53  21 ekLvevekrlqrleitlalLEakLsSipgleeveaeaaeastsddn............aarkgppppppsseaaaaaaqaeeasqa 94 
                               kL ++++ l+r+    ++ E kL++i gle ++a +++a + +d+            a                 ++  + ++ a
  PHY93_04100|PHY93_04100  77 MKLNSITEDLERI----NVFERKLRAITGLEAIRATTVDAGSGADKsmlpsklqsnsiA-----------------EPDRDYSPGA 141
                              3444444444444....667777777777777777766655554443333332222221.................1111111111 PP

                   CCDC53  95 eesaeeeaeeqeesesknvltvkdDpryak 124
                                +  ++ +++   +s++ +++++D +y++
  PHY93_04100|PHY93_04100 142 MIKVFKSVPKK---ASEKLVQFEEDKKYQE 168
                              11111111111...1224555555555554 PP

>> Biotin_lipoyl_2  Biotin-lipoyl like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.1      0.45   1.6e+03      35      50 .]      58      73 ..      55      73 .. 0.84
   2 ?   -3.7   0.1         3   1.1e+04       4      14 ..     286     296 ..     285     296 .. 0.82
   3 ?   10.8   0.0   9.3e-05      0.33      14      33 ..     324     343 ..     321     346 .. 0.89

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.45
          Biotin_lipoyl_2 35 sralqlalaqaeaqla 50
                              ++l+++ +q+++q++
  PHY93_04100|PHY93_04100 58 NKHLLVENRQLKEQVQ 73
                             6789999******986 PP

  == domain 2  score: -3.7 bits;  conditional E-value: 3
          Biotin_lipoyl_2   4 sIaapvsGrVa 14 
                              +I ap +G+V+
  PHY93_04100|PHY93_04100 286 PIVAPADGVVT 296
                              678999**997 PP

  == domain 3  score: 10.8 bits;  conditional E-value: 9.3e-05
          Biotin_lipoyl_2  14 aqlnVkdGqrVkaGdvLael 33 
                              +++ Vk Gq V  Gd +a+ 
  PHY93_04100|PHY93_04100 324 SSVSVKKGQKVYRGDKIATV 343
                              589**************985 PP

>> TssO  Type VI secretion system, TssO
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   1.1   0.00025      0.89      14      75 ..      30      90 ..      21      98 .. 0.65
   2 ?    1.6   0.3     0.075   2.7e+02      30      67 ..     144     180 ..     140     198 .. 0.87

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.00025
                     TssO 14 lllFlvtvlllflivffffks..splqekeillkelerkkkfeekqkelkkkvdsiykkIdsLk 75
                             l+ ++vt ++l  i+ +++ +  s++ e++     l ++++++e+ + ++ k+ si +++++++
  PHY93_04100|PHY93_04100 30 LIFLVVTFVILLGILTYDYWNvlSQVYENK---HLLVENRQLKEQVQLFQMKLNSITEDLERIN 90
                             333334444444455555554114444444...5599999999999999999999999999885 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.075
                     TssO  30 fffkssplqekeillkelerkkkfeekqkelkkkvdsi 67 
                              + fks+p + +e+l  + e+ kk +e +k +++k+ + 
  PHY93_04100|PHY93_04100 144 KVFKSVPKKASEKL-VQFEEDKKYQETKKLYEEKIANS 180
                              55788999999999.99************999999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (371 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       990  (0.0552178); expected 358.6 (0.02)
Passed bias filter:                      667  (0.0372023); expected 358.6 (0.02)
Passed Vit filter:                        69  (0.00384851); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.63u 0.23s 00:00:00.86 Elapsed: 00:00:00.43
# Mc/sec: 2581.06
//
Query:       PHY93_04105|PHY93_04105  [L=852]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
   4.6e-127  423.3   1.0   4.6e-127  423.3   1.0    1.9  2  SecA_DEAD     SecA DEAD-like domain
      5e-61  206.3   3.0      5e-61  206.3   3.0    2.6  3  SecA_SW       SecA Wing and Scaffold domain
    2.5e-37  127.9   0.5    2.5e-37  127.9   0.5    2.6  3  SecA_PP_bind  SecA preprotein cross-linking domain
    2.1e-10   40.3   7.3    3.6e-10   39.5   7.3    1.4  1  SEC-C         SEC-C motif
    6.1e-05   22.9   1.4    0.00011   22.0   0.0    2.1  3  DEAD          DEAD/DEAH box helicase
    0.00065   20.0   0.2      0.025   14.9   0.3    3.2  2  Helicase_C    Helicase conserved C-terminal domain


Domain annotation for each model (and alignments):
>> SecA_DEAD  SecA DEAD-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  423.3   1.0  1.6e-130  4.6e-127       3     290 .]       6     382 ..       4     382 .. 0.99
   2 ?   -2.0   0.7      0.58   1.7e+03      26      62 ..     786     817 ..     762     833 .. 0.47

  Alignments for each domain:
  == domain 1  score: 423.3 bits;  conditional E-value: 1.6e-130
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                SecA_DEAD   3 kllgsknerelkklkkiveeineleeelkalsdeeLrakteelkerlaegealdellpeafalvreaakrvlgmrhydvQliGglv 88 
                               ++g+k +r+lkklk++ve in+le+++++++d+eL+a+t +lke la+g+   +llpeafa++rea+krvlgmrh+dvQl+Gg+ 
  PHY93_04105|PHY93_04105   6 LIFGTKYDRDLKKLKPFVELINALEPKMQKMTDDELKAQTPKLKELLAKGTPSVDLLPEAFATIREASKRVLGMRHFDVQLMGGVT 91 
                              5899********************************************************************************** PP

                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                SecA_DEAD  89 lhegkiaemkTGEGKtlvatlpaylnaltgkgvhvvtvndYLakrdaewmgpvyeflGlsvgvieseleseerreaYeaditYgtn 174
                              l + +iaemkTGEGKtl+atlp+yl al+g+g hvvtvndYLakrda++mg +y++lGl+vg+i s++++eer+ aY+aditYgtn
  PHY93_04105|PHY93_04105  92 LYNASIAEMKTGEGKTLTATLPLYLVALEGRGAHVVTVNDYLAKRDAAEMGVLYNWLGLTVGCILSQISDEERQVAYNADITYGTN 177
                              ************************************************************************************** PP

                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.............. RF
                SecA_DEAD 175 nelgfdyLrDnlalskeelvqrglnfaivDEvDsvLiDeArtpLiisgpaeeeselyeeakklvkeleeeed.............. 246
                              ne++fdyLrDn+++s ee vqr+++f+ivDEvDs+LiDeArtpL+isgp+e +++ly  a++++ +l+++ +              
  PHY93_04105|PHY93_04105 178 NEFAFDYLRDNMKFSLEEYVQREHHFCIVDEVDSILIDEARTPLLISGPSEGDASLYYVANDIIPQLQKDVHytvdekarnamftd 263
                              *********************************************************************999999999******** PP

                              ...........................................................................xxxxxxxxxxx RF
                SecA_DEAD 247 ...........................................................................akegveieees 257
                                                                                                         akegv+i++e+
  PHY93_04105|PHY93_04105 264 dgivkvqeitkienlfnvehsnllhhlnqalkahslfkkdvdyvnrdgqiiivdeftgrlkegsrwsdglhqsveAKEGVQIKSEN 349
                              ************************************************************************************** PP

                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                SecA_DEAD 258 qtlatitlqnffrlYeklaGmtGTaeteaeefk 290
                              qtla+it+qn+f+lY+kl+GmtGTa+teaeef+
  PHY93_04105|PHY93_04105 350 QTLASITFQNYFKLYKKLSGMTGTADTEAEEFQ 382
                              *******************************96 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.58
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                SecA_DEAD  26 leeelkalsdeeLrakteelkerlaegealdellpea 62 
                                +el++ + eeL+++ e+ k+ +++++       e 
  PHY93_04105|PHY93_04105 786 EIDELQRRHTEELEEQLEAHKRMIEAETI-----KEE 817
                              33334444444444444444433332222.....222 PP

>> SecA_SW  SecA Wing and Scaffold domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.2      0.65   1.9e+03     120     120 ..     308     308 ..     208     388 .. 0.58
   2 !  206.3   3.0   1.7e-64     5e-61       1     198 [.     568     779 ..     568     780 .. 0.93
   3 ?   -4.1   0.7       4.8   1.4e+04     105     125 ..     789     809 ..     783     826 .. 0.46

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 0.65
                              H CS
                  SecA_SW 120 k 120
                              +
  PHY93_04105|PHY93_04105 308 N 308
                              1 PP

  == domain 2  score: 206.3 bits;  conditional E-value: 1.7e-64
                              -B-SCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTHHCHHHHHHHHHHHHHHHHHCHHHHS.SS.C.. CS
                  SecA_SW   1 piesklvsksienaQkkvEernfdiRknlleYDdVmnkQRkviYkqRrevLegesedlrerildliedvveeiveesvpeeeke.. 84 
                              pie+k++s++i++aQkkvE++nfdiRk+lleYD+Vmn+QR++iYk Rr++L++  +d    i +++edv+ e+++ + p+++ +  
  PHY93_04105|PHY93_04105 568 PIEHKMISNAIAKAQKKVEAHNFDIRKHLLEYDNVMNEQRRIIYKIRRDILND--TDNLGFISEMVEDVAVELLNVYRPDKKVPle 651
                              8**************************************************44..577899*************999998766678 PP

                              SHHHHHHHHHCCCSSSTSST............HHHHHHHHHHHHHHHHHHHHC..HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                  SecA_SW  85 ewdleglleelkeefsvele............elaeellekaekayekkeeei..ellrelervvlLevlDkaWkehLdamdeLre 156
                              +wd+ ++++ +k  f++++e            el++++ e a+  +++k +++  e+++   r++lL+++D++Wk+hL +md+++e
  PHY93_04105|PHY93_04105 652 SWDWPEMKTGFKVAFNTNYEvslqeciksydgELEHYFGEIAKGIMTEKFAQYepEQVKYALREILLSAFDQHWKDHLLQMDHIKE 737
                              *************999988898999999999988888888888888888887788889999************************* PP

                              HCCCTTSSSS-CCHHHHHHHHHHHHHHHHHHHHHHHHHCCCT CS
                  SecA_SW 157 giglrgygqkdPlqeYkkegfelFeemlarikeevvkkllkv 198
                              gi+lr+y+qkdPl+eYkke+f lFe+m  ++k+++v+++++v
  PHY93_04105|PHY93_04105 738 GINLRAYAQKDPLTEYKKESFGLFETMKGEVKKSIVTNIFTV 779
                              ****************************************87 PP

  == domain 3  score: -4.1 bits;  conditional E-value: 4.8
                              HHHHHHHHHHHHHHHHHHHHC CS
                  SecA_SW 105 elaeellekaekayekkeeei 125
                              el+++ +e++e+++e++++ i
  PHY93_04105|PHY93_04105 789 ELQRRHTEELEEQLEAHKRMI 809
                              444444444444444444333 PP

>> SecA_PP_bind  SecA preprotein cross-linking domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0       3.8   1.1e+04      77      92 ..     194     209 ..     188     213 .. 0.86
   2 !  127.9   0.5   8.2e-41   2.5e-37       3     111 .]     231     338 ..     229     338 .. 0.98
   3 ?   -1.8   0.2       1.7   4.9e+03      29      72 ..     786     807 ..     751     827 .. 0.51

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 3.8
                              TTEEECTTCEEEBSTT CS
             SecA_PP_bind  77 vdYivkdgeviivDef 92 
                              ++Y+ ++++  ivDe 
  PHY93_04105|PHY93_04105 194 EEYVQREHHFCIVDEV 209
                              5899999999999985 PP

  == domain 2  score: 127.9 bits;  conditional E-value: 8.2e-41
                              HHHHHHHHHHHCCCHTTCCECCCTTTSEEEESHHHHHHHHHCCT-SSSTTSCCHCCHHHHHHHHHHHHHCSTTTTTEEECTTCEEE CS
             SecA_PP_bind   3 eelyekanklvkklkeeedyevdekkktveltekGvekvekllkvkeelydeenlelvhhvnqaLkAhtlferdvdYivkdgevii 88 
                              ++ly+ an+++++l+++ +y+vdek++++ +t++G+ kv+++ k+ e+l+++e+ +l+hh+nqaLkAh lf++dvdY+ +dg++ii
  PHY93_04105|PHY93_04105 231 ASLYYVANDIIPQLQKDVHYTVDEKARNAMFTDDGIVKVQEITKI-ENLFNVEHSNLLHHLNQALKAHSLFKKDVDYVNRDGQIII 315
                              579******************************************.**************************************** PP

                              BSTTTSSEBTS--SSTTHHHHHH CS
             SecA_PP_bind  89 vDeftGRlmegrrysdGLhqaie 111
                              vDeftGRl+eg r+sdGLhq +e
  PHY93_04105|PHY93_04105 316 VDEFTGRLKEGSRWSDGLHQSVE 338
                              *********************98 PP

  == domain 3  score: -1.8 bits;  conditional E-value: 1.7
                              SEEEESHHHHHHHHHCCT-SSSTTSCCHCCHHHHHHHHHHHHHC CS
             SecA_PP_bind  29 ktveltekGvekvekllkvkeelydeenlelvhhvnqaLkAhtl 72 
                              +  el  + +e                       +++ L+Ah+ 
  PHY93_04105|PHY93_04105 786 EIDELQRRHTE----------------------ELEEQLEAHKR 807
                              22233333344......................44444444433 PP

>> SEC-C  SEC-C motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.5   7.3   1.2e-13   3.6e-10       1      18 [.     834     851 ..     834     851 .. 0.98

  Alignments for each domain:
  == domain 1  score: 39.5 bits;  conditional E-value: 1.2e-13
                    SEC-C   1 RNdpCPCGSGkKYKkCCg 18 
                              RNdpCPCGSGkK+K+C+g
  PHY93_04105|PHY93_04105 834 RNDPCPCGSGKKFKQCHG 851
                              9****************8 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.0   0.0   3.7e-08   0.00011      18     134 ..      97     213 ..      83     221 .. 0.78
   2 ?   -2.7   0.0       1.5   4.3e+03     123     149 ..     312     337 ..     289     391 .. 0.65
   3 ?   -4.0   0.3       3.5   1.1e+04     127     153 ..     787     813 ..     782     824 .. 0.60

  Alignments for each domain:
  == domain 1  score: 22.0 bits;  conditional E-value: 3.7e-08
                              EEEESTTSSHHHHHHHHHHHHHHHSTTSTS-EEEEEESSHHHHHHHHHHHHHHTTTSTSEEEEEETTSSHHHHHHHHHTTCSEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  18 lvaaeTGsGKTlaflipvlqivyetkgktgpkalivePtreLaeqtlnnlkkfkkyidlrvlliiggvaardqlskldngvdivvg 103
                              +++++TG GKTl + +p++         +g  a +v+    La+  + ++  + + ++l+v +i+++ +   + +++  ++di++g
  PHY93_04105|PHY93_04105  97 IAEMKTGEGKTLTATLPLYLVA-----LEGRGAHVVTVNDYLAKRDAAEMGVLYNWLGLTVGCILSQISD--EERQVAYNADITYG 175
                              7899***************444.....668889999999***********************99996555..55555589****** PP

                              EHHHHHH.HH.HCTSSH.....CTTEEEEEEETHHHHH CS
                              xxxxxxx.xx.xxxxxx.....xxxxxxxxxxxxxxxx RF
                     DEAD 104 tpgrldd.ll.stgkln.....lsqvrflVlDEadrll 134
                              t   ++   l ++ k++      ++  f ++DE+d +l
  PHY93_04105|PHY93_04105 176 TNNEFAFdYLrDNMKFSleeyvQREHHFCIVDEVDSIL 213
                              *97765425564444552222255569********987 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 1.5
                              EEEEEETHHHHHHTTTHHHHHHHHHHS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD 123 rflVlDEadrlldqgfsdfinrilnql 149
                              +++++DE  + l++  s++ + +++++
  PHY93_04105|PHY93_04105 312 QIIIVDEFTGRLKE-GSRWSDGLHQSV 337
                              56777777777776.344444444444 PP

  == domain 3  score: -4.0 bits;  conditional E-value: 3.5
                              EETHHHHHHTTTHHHHHHHHHHSHHHC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD 127 lDEadrlldqgfsdfinrilnqlpqit 153
                              +DE +r   ++ ++++++  + ++  t
  PHY93_04105|PHY93_04105 787 IDELQRRHTEELEEQLEAHKRMIEAET 813
                              566666666777777777555443333 PP

>> Helicase_C  Helicase conserved C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.3   8.4e-06     0.025       2      84 ..     414     495 ..     413     530 .. 0.63
   2 ?    0.6   0.0      0.23     7e+02      54      83 ..     713     742 ..     693     744 .. 0.88

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 8.4e-06
                              HHHHHHHHH.HHTTTTSEEEEEESSHHHHHHHHHH...HHHTTSTEEEESTTSTHHHHH.HHHHHHHTTSSSEEEESGGGTSSSTS CS
               Helicase_C   2 kleallell.kleeeggkilifvntidrlekvkll...lekkgikvavlhgelpqnere.eileqfnkgesdvLiatdvaerGidi 82 
                              k++a++el+ +l+e+g+ +l+ +  i++ e   ll   l+k g+   vl++  +q ere ei+++   ++  + iat++a+rG di
  PHY93_04105|PHY93_04105 414 KYRAVVELIkTLHEKGQPVLVGTIAIETSE---LLsaeLSKAGVPHEVLNA--KQHEREaEIIKNA-GQKGSITIATNMAGRGTDI 493
                              677888998788899999999999999884...442224466888888888..4444441444444.3444599************ PP

                              TT CS
               Helicase_C  83 pk 84 
                              + 
  PHY93_04105|PHY93_04105 494 KL 495
                              84 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.23
                              HHHHHHHHHHTTSSSEEEESGGGTSSSTST CS
               Helicase_C  54 ereeileqfnkgesdvLiatdvaerGidip 83 
                               re  l++f ++  d L+  d + +Gi++ 
  PHY93_04105|PHY93_04105 713 LREILLSAFDQHWKDHLLQMDHIKEGINLR 742
                              58889999*999999*************85 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (852 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1407  (0.0784762); expected 358.6 (0.02)
Passed bias filter:                      750  (0.0418317); expected 358.6 (0.02)
Passed Vit filter:                        62  (0.00345808); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.84u 0.26s 00:00:01.10 Elapsed: 00:00:00.44
# Mc/sec: 5810.56
//
Query:       PHY93_04110|PHY93_04110  [L=445]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.12   13.0   0.0         13    6.5   0.1    2.4  2  YbjQ_1    Putative heavy-metal-binding


Domain annotation for each model (and alignments):
>> YbjQ_1  Putative heavy-metal-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.5   0.1   0.00071        13       1      26 [.     317     342 ..     317     352 .. 0.87
   2 ?    4.0   0.0    0.0043        77      49      87 ..     381     419 ..     362     435 .. 0.82

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.00071
                   YbjQ_1   1 mivtttesiegkeivevlgivtgetv 26 
                              +iv+tt+ +eg+ i++++g+ t+ ++
  PHY93_04110|PHY93_04110 317 IIVSTTSALEGHVIKKYIGVQTSFAI 342
                              699****************9877665 PP

  == domain 2  score: 4.0 bits;  conditional E-value: 0.0043
                   YbjQ_1  49 ayeeeleeareeAlerlkeeAeelGAnAvvgvrldtsei 87 
                               y++ ++   ++ +++lk +A +  AnA +g++++ +++
  PHY93_04110|PHY93_04110 381 DYQNSFNLLFTDLCDQLKVKAMKEKANALLGLNYQLTSL 419
                              566666666666788999**************9998877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (445 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       539  (0.030063); expected 358.6 (0.02)
Passed bias filter:                      314  (0.0175135); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.58u 0.22s 00:00:00.80 Elapsed: 00:00:00.41
# Mc/sec: 3232.24
//
Query:       PHY93_04115|PHY93_04115  [L=472]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.9e-46  157.1   0.0    1.2e-45  156.7   0.0    1.2  1  DAO            FAD dependent oxidoreductase
    1.5e-05   24.4   0.1    0.00014   21.2   0.1    2.0  1  Pyr_redox_2    Pyridine nucleotide-disulphide oxidoreductase
     0.0031   16.7   0.0       0.26   10.4   0.0    2.1  2  K_oxygenase    L-lysine 6-monooxygenase (NADPH-requiring)
     0.0034   16.7   0.0     0.0098   15.2   0.0    1.7  2  FAD_binding_3  FAD binding domain
  ------ inclusion threshold ------
       0.07   13.4   0.1       0.23   11.7   0.1    1.9  1  NAD_binding_8  NAD(P)-binding Rossmann-like domain
        0.1   12.5   0.0       0.19   11.6   0.0    1.5  1  3HCDH_N        3-hydroxyacyl-CoA dehydrogenase, NAD binding d


Domain annotation for each model (and alignments):
>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  156.7   0.0     4e-49   1.2e-45       2     321 ..       8     339 ..       7     386 .. 0.79

  Alignments for each domain:
  == domain 1  score: 156.7 bits;  conditional E-value: 4e-49
                              EEEECTSHHHHHHHHHHHHTT..EEEEESSSSTTSSGGGSSEEEEESSSSTHHSTHHHHHHHHHHHHHHHHHHHHHSSTTSEEEEE CS
                      DAO   2 vviiGGGiiGlstAyeLarrg..VtllekgdiagsgaSgrnsgllhsglrylpeaselarlslealeelreleeelgididyrrtG 85 
                               v+iGGGi+G+++ ++La +g  ++l+ek+ +++s++S r+s++lh+g+ryl++  ++  l++eal+e   + +   +++  + + 
  PHY93_04115|PHY93_04115   8 TVVIGGGIVGAGIFRDLALHGvdTLLIEKK-DFSSQTSERSSKMLHGGIRYLENL-DF-ALVFEALHEKNLWLKL-TPHLAQEVPF 89 
                              69****************************.8888***************99986.76.******9999999987.799******* PP

                              EEEEESSHHHHHHHHHHHHHH........HHTTT.TEEEEEHHHHHHHSTTST..TTSEEEEETTEEEEEHHHHHHHHHHHH.HHT CS
                      DAO  86 llslaadeeelealdkllall........leagl.daelldaeevrelepalp..gllgalfypdtgqvdpakltaalaraa.eal 159
                              +l+++ d++ ++ + ++l++         +     ++++ +a+ v +l p l+  gl+ga +y+d g++d+ak t  +  +a +++
  PHY93_04115|PHY93_04115  90 YLPVFKDAK-RPLWMIRLGMFlydflssfE---NsPHQIKSAQDVHALIPDLKtsGLAGAGVYYD-GIMDDAKITLEVIYDAlKEN 170
                              ****98775.999*9999998888875321...23668889989******84456999*******.*******9999877751666 PP

                              T-EEEESECEEEE.EEEETCEEEEE.EECTEEE..EEEEEEEE--GGGHH.HHHTTCTT.....TSEEEEEEEEEEEEEECCTHST CS
                      DAO 160 Gveilegtevtgl.eeedgkvwgve.rttpgen..daadavVnaaGawsd.llgllkel.....dlpispvrgqvlvlkplseklv 235
                               ++  ++tevt + + +d+ + + + + t g +  +++d+vV a G+++d +l+    +     +  + p +g++l ++++++   
  PHY93_04115|PHY93_04115 171 CAHAMTYTEVTTVtKVHDKNIIHCKnVLT-GKVftVTCDQVVYALGPFTDrFLNS---IpmynwQNVLLPSKGSHLWISNKDL--- 249
                              69**********94446666555555344.5553337899**********77744...4334555678**********76655... PP

                              GSGCSEEEEEEEETTTTEEEEEETTSEEEEEESSE..EETTCSSTSCSHHHHHHHHHHHHHHSGGG....CGEEEEEEEEEEE..T CS
                      DAO 236 spaailpvpetdddgrgvyvtprkdgrvlvGgtad..eesgdddpevdeedidellealrklfPql....gdvlrkwaGlrpl..p 313
                               p + +p+ +t++d+r+++v+p   +++lvG+t++    + +d+ +++e++id+ll+al+++fP+l     ++l+++aG+rpl   
  PHY93_04115|PHY93_04115 250 -P-LKYPIVITTNDDRVIFVIPHG-DQILVGTTEVafNGDYFDV-KPSEAEIDYLLSALNDYFPKLglshNHILSSFAGIRPLvkE 331
                              .3.7899999************96.67******98866666666.********************6556677**********5333 PP

                              TSSEEEEE CS
                      DAO 314 dglplige 321
                              +g+   g+
  PHY93_04115|PHY93_04115 332 NGDGNRGK 339
                              33322233 PP

>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.2   0.1   4.6e-08   0.00014       1     114 [.       6     222 ..       6     252 .. 0.88

  Alignments for each domain:
  == domain 1  score: 21.2 bits;  conditional E-value: 4.6e-08
                              CSEEEE--SHHHHHHHHHHHHHTS-EEEEETTHCHHHCSHHHHCHHHHHHHHHHHHH............................. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx............................. RF
              Pyr_redox_2   1 kdvvviGgGpAGlaaaltlaqagakvtlvelegtclnggcllskallgvaedaeias............................. 57 
                              ++ vviGgG+ G    ++la +g++++l+ +++ +  ++   s+++l+ + ++ + +                             
  PHY93_04115|PHY93_04115   6 YKTVVIGGGIVGAGIFRDLALHGVDTLLI-EKKDFSSQTSERSSKMLHGGIRYLENLdfalvfealheknlwlkltphlaqevpfy 90 
                              578**************************.8888888888887777777777644447899999999******************* PP

                              ..........................................................................HHHHCHHHHCCC CS
                              ..........................................................................xxxxxxxxxxxx RF
              Pyr_redox_2  58 ..........................................................................evvkklnqgiel 69 
                                                                                                        + +k+  ++ ++
  PHY93_04115|PHY93_04115  91 lpvfkdakrplwmirlgmflydflssfensphqiksaqdvhalipdlktsglagagvyydgimddakitleviyDALKENCAHAMT 176
                              **********************************************************************9999667777778888 PP

                              CHCCT.CEEEEESCEEEEETEEECTCEEEEEESEEEE---.EEE-BC CS
                              xxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxx RF
              Pyr_redox_2  70 llgee.vvkidpgkkkvklekkkegdeekiaydklvlAtG.ssprdl 114
                              +++++ v+k+ ++k  +++++  +g+ +++++d++v A G ++ r l
  PHY93_04115|PHY93_04115 177 YTEVTtVTKV-HDKNIIHCKNVLTGKVFTVTCDQVVYALGpFTDRFL 222
                              8887746666.8888****99999****************4444444 PP

>> K_oxygenase  L-lysine 6-monooxygenase (NADPH-requiring)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.1   0.0    0.0073        22     191     212 ..       5      26 ..       2      44 .. 0.85
   2 !   10.4   0.0   8.7e-05      0.26     221     339 ..     102     215 ..      91     216 .. 0.82

  Alignments for each domain:
  == domain 1  score: 4.1 bits;  conditional E-value: 0.0073
              K_oxygenase 191 kkriaVvGsGqSaaeifedllr 212
                              + + +V+G+G  +a if+dl+ 
  PHY93_04115|PHY93_04115   5 HYKTVVIGGGIVGAGIFRDLAL 26 
                              56789**************975 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 8.7e-05
              K_oxygenase 221 lvtrsealeplddspfvneifsPeyvdyfyslpeekreallkeqkatnykgvdae...lieelyeelyeqkvkgeerlrllpnrev 303
                              +++r   +     s+f n+  + +  + +++l  + + + l+      y+g+  +   ++e +y++l e+        + ++++ev
  PHY93_04115|PHY93_04115 102 WMIRLGMFLYDFLSSFENSPHQIKSAQDVHALIPDLKTSGLAGA-GVYYDGIMDDakiTLEVIYDALKENCA------HAMTYTEV 180
                              66777777777778888888889999999999999999999997.579999976533368888888877665......66789999 PP

              K_oxygenase 304 esaeaegkgeveltlrneesgeeetlevdavvlATG 339
                              +++++ ++ +  ++++n  +g+ +t+++d vv+A G
  PHY93_04115|PHY93_04115 181 TTVTKVHD-KNIIHCKNVLTGKVFTVTCDQVVYALG 215
                              99999987.778*********************977 PP

>> FAD_binding_3  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0   3.3e-06    0.0098       3      56 ..       7      61 ..       5     140 .. 0.83
   2 ?   -1.3   0.0      0.34     1e+03     109     159 ..     161     211 ..     148     216 .. 0.68

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 3.3e-06
                             EEEEE--SHHHHHHHHHHHHTTHHEEEEESSSSSCCSS.S--EEEHHHHHHHHHT CS
            FAD_binding_3  3 dVlIVGaGpaGlmlallLseaGvrvvlvekrsttvvlp.radglnqrtmellrql 56
                             +++++G+G +G+   + L+ +Gv+++l+ek +  ++++ r++ +    ++ l++l
  PHY93_04115|PHY93_04115  7 KTVVIGGGIVGAGIFRDLALHGVDTLLIEKKDFSSQTSeRSSKMLHGGIRYLENL 61
                             689******************************9999998887777777777766 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 0.34
                              HHHHHHHHHHTEEETCSEEEECCEECCCCCCCEEEECCTTEEEEEEEEEEE CS
            FAD_binding_3 109 riLvehaeerglqvrfktevesleqdeegvtaevrdketgeeetvrakYlv 159
                               +++++++e  +     tev+++++  ++     ++  tg+  tv+++ +v
  PHY93_04115|PHY93_04115 161 EVIYDALKENCAHAMTYTEVTTVTKVHDKNIIHCKNVLTGKVFTVTCDQVV 211
                              455566666666666667777777777777777777777777777777666 PP

>> NAD_binding_8  NAD(P)-binding Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.1   7.6e-05      0.23       1      29 [.      10      38 ..      10      64 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 7.6e-05
                             EE--SHHHHHHHHHHHCCTEEEEEE-SSS CS
            NAD_binding_8  1 IvGaGlsGlvaAylLakagfdvlllekrd 29
                             ++G+G+ G+ + + La +g+d ll+ek d
  PHY93_04115|PHY93_04115 10 VIGGGIVGAGIFRDLALHGVDTLLIEKKD 38
                             8**************************86 PP

>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   6.5e-05      0.19       3      37 ..       9      46 ..       7      73 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 6.5e-05
                             EEE--SCCHHHHHHHHHHTT-EEEEE-S...-HHHHHH CS
                  3HCDH_N  3 aviGaGtmGagiaavfasagleVvlvdi...seealek 37
                              viG G++Gagi   +a +g+++ l++    s+++ e+
  PHY93_04115|PHY93_04115  9 VVIGGGIVGAGIFRDLALHGVDTLLIEKkdfSSQTSER 46
                             69***********************9983333333344 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (472 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       476  (0.0265492); expected 358.6 (0.02)
Passed bias filter:                      426  (0.0237604); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.60u 0.24s 00:00:00.84 Elapsed: 00:00:00.41
# Mc/sec: 3460.41
//
Query:       PHY93_04120|PHY93_04120  [L=384]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
          1    9.0   7.8        1.4    8.6   7.8    1.1  1  BSP_II    Bone sialoprotein II (BSP-II)
        2.6    8.8   6.5        5.3    7.7   6.5    1.6  1  DUF4592   Domain of unknown function (DUF4592)


Domain annotation for each model (and alignments):
>> BSP_II  Bone sialoprotein II (BSP-II)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   7.8   0.00015       1.4      83     173 ..     127     222 ..     111     232 .. 0.72

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.00015
                   BSP_II  83 edeeseaenttlsattpgygeektqgkgsiGlaaiklpkkagdieekatkeeesdeeeeeee....eeeneeeeaevde..neqgv 162
                               d+ + ++++  ++tt++  e+++++ + +Gl+++  p k+++ ++  tk +es+e    ee       n++++ ev    n +++
  PHY93_04120|PHY93_04120 127 TDKMDMGDAAAEATTTSKINEDEQKELEGMGLEESGRPAKKETPAKS-TKGKESKEVSIMEEtpvhGGTNKSKNWEVWGllNLDSI 211
                              455555677888999999999999***********999998765544.4444444444444436675667777777864449**** PP

                   BSP_II 163 ngtstnsteae 173
                               gt+tn+t + 
  PHY93_04120|PHY93_04120 212 SGTQTNTTSTT 222
                              *******9865 PP

>> DUF4592  Domain of unknown function (DUF4592)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   6.5   0.00059       5.3      12      91 ..     106     177 ..      97     234 .. 0.76

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.00059
                  DUF4592  12 isskrtedagasseddglprsPpeilllqellssdteskssetpkqlsslslagtgseeeeqsstsssrpvsPvkpsspk 91 
                               + k+t+d+ +s  d+++p    ++ +   +  ++t+sk +e+ ++    +l+g+g ee+      ++++ +P+k+++ k
  PHY93_04120|PHY93_04120 106 SPVKITDDPSKSMKDEPIPAGTDKMDMGDAAAEATTTSKINEDEQK----ELEGMGLEESGR----PAKKETPAKSTKGK 177
                              589**********************988888888888776655444....444555444444....44445666555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (384 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       466  (0.0259914); expected 358.6 (0.02)
Passed bias filter:                      312  (0.017402); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.21s 00:00:00.75 Elapsed: 00:00:00.40
# Mc/sec: 2865.91
//
Query:       PHY93_04125|PHY93_04125  [L=519]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (519 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       691  (0.0385409); expected 358.6 (0.02)
Passed bias filter:                      422  (0.0235373); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.60u 0.23s 00:00:00.83 Elapsed: 00:00:00.42
# Mc/sec: 3738.65
//
Query:       PHY93_04130|PHY93_04130  [L=70]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (70 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       535  (0.0298399); expected 358.6 (0.02)
Passed bias filter:                      345  (0.0192426); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.24s 00:00:00.64 Elapsed: 00:00:00.42
# Mc/sec: 496.97
//
Query:       PHY93_17285|PHY93_17285  [L=261]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.6e-05   23.1   0.1    0.00028   21.0   0.1    2.0  1  HAD_2     Haloacid dehalogenase-like hydrolase
  ------ inclusion threshold ------
      0.022   15.1   0.0      0.057   13.8   0.0    1.7  1  DUF3269   Protein of unknown function (DUF3269)
      0.025   15.0   0.0      0.044   14.2   0.0    1.4  1  HAD       haloacid dehalogenase-like hydrolase
      0.097   12.9   0.0       0.27   11.5   0.0    1.7  1  CaMBD     Calmodulin binding domain


Domain annotation for each model (and alignments):
>> HAD_2  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.0   0.1   6.2e-08   0.00028       2     175 ..      37     234 ..      36     237 .. 0.68

  Alignments for each domain:
  == domain 1  score: 21.0 bits;  conditional E-value: 6.2e-08
                    HAD_2   2 iFDlDgTlldteeliiqafnel.....leeyglselseeelrkliglslrellrklgeseeeee.................kieel 65 
                              + DlDgT+l    +++++f +      l+++g++ l+   + +++ l +r+   + +   +  +                 ki + 
  PHY93_17285|PHY93_17285  37 LIDLDGTILGAHSFWLSIFFTFnfvnsLRKHGFPVLEAIRILHKLKLAMRQPSHQKNGIINWTKavtffsqlsgksfedskKILTS 122
                              67999999999999999875431111145555555555555555555555444333333222224566666666666654544444 PP

                    HAD_2  66 lrkyneekkkkevkpydgvkelLeeLkeagyklgivTsk..sreaveekleqlgie.syFdvivtsedvekkKPdpeviekalekl 148
                               + +  +k + ++    ++ke++ +  ++ y+l ++T+     e+v   l+  +i+ + F++i  + +++ +KP+ e ++++    
  PHY93_17285|PHY93_17285 123 TSLICFQKSRATLYAQTEAKEFIAWA-KNHYRLILATNPlwPLEVVLYRLSIAEIHeDNFEFITHAGNMSASKPHVEYYQELQSMK 207
                              344444444467999999*******8.889********965567887788877775499*************************** PP

                    HAD_2 149 klkkeeviyvG.DsptDieaakkagikv 175
                              +l + +++++G D+++D   a+++g++v
  PHY93_17285|PHY93_17285 208 DLAAGSCLMIGnDEKKD-GPAREIGVEV 234
                              ***********555566.4567777766 PP

>> DUF3269  Protein of unknown function (DUF3269)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   1.3e-05     0.057      19      62 ..      95     138 ..      84     143 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 1.3e-05
                  DUF3269  19 vikykdnvnevysltgahfsdekkimtdrdlkrfkgahgllyeq 62 
                              +i +   v     l+g  f d kki+t + l  f+ +   ly q
  PHY93_17285|PHY93_17285  95 IINWTKAVTFFSQLSGKSFEDSKKILTSTSLICFQKSRATLYAQ 138
                              56777777777889****************************98 PP

>> HAD  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   9.7e-06     0.044       2     109 ..      37     159 ..      36     184 .. 0.66

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 9.7e-06
                      HAD   2 lfDfDgTLldgdsle...lllrfllrrgaprlwralreklllalfrellrldraglaellea......llaglseelaaelerfv. 77 
                              l D+DgT+l   s++   +++++++ +  ++ +  ++e+++  +  +l+ ++ ++ ++ + +      ++++ls++  ++ ++++ 
  PHY93_17285|PHY93_17285  37 LIDLDGTILGAHSFWlsiFFTFNFVNS-LRKHGFPVLEAIRILHKLKLAMRQPSHQKNGIINwtkavtFFSQLSGKSFEDSKKILt 121
                              67**************97555544444.4444556666655555333333333333333333566677888888666666666665 PP

                      HAD  78 .......aevirpklldpgalellaahraaGdrvvvvSg 109
                                     ++ +++ + + +a+e++a ++++++r+++ ++
  PHY93_17285|PHY93_17285 122 stslicfQKSRATLYAQTEAKEFIA-WAKNHYRLILATN 159
                              766765544444334445*******.66*******9996 PP

>> CaMBD  Calmodulin binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0     6e-05      0.27      36      73 ..      63     100 ..      50     101 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 6e-05
                    CaMBD  36 rvrkhqRklLqAihrlRkvkmeqrklnDqantlvdlak 73 
                               +rkh   +L+Ai+ l+k+k+ +r+ + q+n +++  k
  PHY93_17285|PHY93_17285  63 SLRKHGFPVLEAIRILHKLKLAMRQPSHQKNGIINWTK 100
                              57999999***********************9998877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (261 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       625  (0.0348597); expected 358.6 (0.02)
Passed bias filter:                      441  (0.024597); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 1948.97
//
Query:       PHY93_04135|PHY93_04135  [L=312]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    9.5e-48  162.9   0.0    1.1e-47  162.7   0.0    1.0  1  Pyr_redox_2     Pyridine nucleotide-disulphide oxidoreductase
    4.2e-21   75.5   0.1    8.3e-15   54.8   0.0    2.1  2  Pyr_redox_3     Pyridine nucleotide-disulphide oxidoreductase
    3.9e-17   62.6   0.1      4e-14   52.9   0.0    2.6  2  Pyr_redox       Pyridine nucleotide-disulphide oxidoreductase
      1e-08   34.7   0.3    7.5e-06   25.3   0.1    3.2  3  FAD_binding_2   FAD binding domain
    6.9e-07   29.0   0.1    7.8e-06   25.5   0.0    2.1  2  FAD_oxidored    FAD dependent oxidoreductase
    1.2e-05   24.8   0.1    0.00044   19.6   0.1    2.3  2  FAD_binding_3   FAD binding domain
      2e-05   23.9   1.9     0.0012   18.0   0.0    3.6  5  GIDA            Glucose inhibited division protein A
    2.7e-05   23.1   0.0     0.0023   16.7   0.1    2.5  2  HI0933_like     HI0933-like protein
    3.1e-05   23.7   0.8      0.012   15.3   0.3    2.5  3  DAO             FAD dependent oxidoreductase
    3.9e-05   23.8   0.0    0.00016   21.9   0.0    2.0  2  NAD_binding_8   NAD(P)-binding Rossmann-like domain
    0.00015   21.1   0.1      0.001   18.3   0.1    2.2  3  Thi4            Thi4 family
    0.00024   21.5   0.0       0.26   11.8   0.0    2.9  3  NAD_binding_7   Putative NAD(P)-binding
     0.0013   17.9   0.0       0.91    8.5   0.1    2.3  2  Lycopene_cycl   Lycopene cyclase protein
  ------ inclusion threshold ------
       0.15   10.9   0.1       0.34    9.7   0.1    1.5  2  Trp_halogenase  Tryptophan halogenase


Domain annotation for each model (and alignments):
>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  162.7   0.0   8.7e-51   1.1e-47       1     294 []       4     294 ..       4     294 .. 0.90

  Alignments for each domain:
  == domain 1  score: 162.7 bits;  conditional E-value: 8.7e-51
                              CSEEEE--SHHHHHHHHHHHHHTS-EEEEETTHCHHHCSHHHHCHHHHHHHHHHHHH.........HHHHCHHHHCCCCHCCTCEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.........xxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2   1 kdvvviGgGpAGlaaaltlaqagakvtlvelegtclnggcllskallgvaedaeias.........evvkklnqgielllgeevvk 77 
                              k+v++iG+GpAG++aal++++ag+k +++  eg+ ++g+   ++ ++++++++e +          ++   l+ g e+l + +vv+
  PHY93_04135|PHY93_04135   4 KQVIIIGSGPAGYTAALYASRAGLKPIII--EGHEPGGQLTTTTDVENFPGFPEGIMgpdlmanmkNQ--VLRFGTEFLST-KVVD 84 
                              58***************************..999********************999**999887644..35555566666.8*** PP

                              EEESCEEEEETEEECTCEEEEEESEEEE---EEE-BCTCTTC.TTBEECCSECHHHHHHCCSS-TSEEEEES-SHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2  78 idpgkkkvklekkkegdeekiaydklvlAtGssprdlgipGvaenvgklvrtldsaealklkllpkrivvvGgGyiGvElAaalak 163
                              i  +k+ +++   k+++++ + ++++++ tG+s++ lg+p +++  gk+v+++++++++ +  +   + vvGgG +++E A +l++
  PHY93_04135|PHY93_04135  85 IALAKRPFHV---KCENGQGFLAETIIISTGASAKYLGLPNEMQLIGKGVSACATCDGFFYRGKI--VHVVGGGDTALEEANFLTR 165
                              **********...789999******************************************9998..******************* PP

                              HT-EEEEEESSSSSSTTS-HHHHHHHHHHHHHTTEEEEESCEEEEEEETTE...EEE...EEETTSCEEEESEEEE-S-EEES-HH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxx...xxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 164 lgkevtlveardrllraldkelsaaleealekeGvevklgtsvkeidgnge...kle...vvledgeeidadlvvvavGvrpstel 243
                              ++++v l+++ +++      + + +  + +++ ++ev ++t+vkei  +++    l+    ++++ +e ++d  ++++G +p+t++
  PHY93_04135|PHY93_04135 166 FADKVILLHRKEHFR-----ATRPMQDRTFNNPKIEVIWNTEVKEILFDDSgvnGLRvwnNKTNQMTERKTDGFFLGIGHEPNTKF 246
                              **************7.....4555555566666*************9999988855555678888888****************** PP

                              CSHCCT-EEEETTEEE--TTS.BESSTTEEE-GGGCTECCSS--HHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 244 leeklglelderggivvdefl.rtnvpgiyaiGDvaggkggpelaqaAvqqG 294
                              l  k +l+ld++g+i++  +   t++pg++a+GDv+  +  +++a  A  +G
  PHY93_04135|PHY93_04135 247 L--KGQLALDDHGYILTQGKHpDTSIPGVFACGDVQ--DPYYRQAISAAGSG 294
                              8..999*********999888699************..88888888887765 PP

>> Pyr_redox_3  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.5   0.2   7.4e-07   0.00094       1      33 [.       7      38 ..       7      46 .. 0.89
   2 !   54.8   0.0   6.4e-18   8.3e-15     101     305 .]      79     277 ..      75     277 .. 0.80

  Alignments for each domain:
  == domain 1  score: 18.5 bits;  conditional E-value: 7.4e-07
              Pyr_redox_3  1 iIiGaGPaGlaaaielkkagledylilEkgnig 33
                             iIiG GPaG +aa+ + +agl+  +i+E ++ g
  PHY93_04135|PHY93_04135  7 IIIGSGPAGYTAALYASRAGLK-PIIIEGHEPG 38
                             8********************5.78***99876 PP

  == domain 2  score: 54.8 bits;  conditional E-value: 6.4e-18
              Pyr_redox_3 101 feeVesvkkedegfevetske.tyeAkkviiAtG....efdkPnklnipGeeklvkhyskvkefhkyagqkvvViGgknSavDaAl 181
                               ++V +++ +++ f+v+++++  + A+++ii+tG    + + Pn ++  G+   v   ++ + f  y+g+ v V+Gg+++a + A 
  PHY93_04135|PHY93_04135  79 STKVVDIALAKRPFHVKCENGqGFLAETIIISTGasakYLGLPNEMQLIGKG--VSACATCDGF-FYRGKIVHVVGGGDTALEEAN 161
                              6899***************98679**********444445667777777776..3344444445.699****************** PP

              Pyr_redox_3 182 elvrkgaeVtvvtrgseiekeesdpsyslkpdienrleelvkeekikvlfnaevkeikekeeey...kvktedgkkvev.kddvvl 263
                               l r   +V +++r+++ +++        +p+    +++     ki+v+ n+evkei  +++ +   +v  ++++++++ k+d ++
  PHY93_04135|PHY93_04135 162 FLTRFADKVILLHRKEHFRAT--------RPMQDRTFNN----PKIEVIWNTEVKEILFDDSGVnglRVWNNKTNQMTErKTDGFF 235
                              ***************976665........7888888876....5799999999999998887763333444444444333555555 PP

              Pyr_redox_3 264 a.tGykpdlsflkkslfeldedgrpvlteeteetnvpglflaG 305
                              + +G +p+++flk  +++ld+ g+++ + +  +t +pg+f +G
  PHY93_04135|PHY93_04135 236 LgIGHEPNTKFLK-GQLALDDHGYILTQGKHPDTSIPGVFACG 277
                              55**********9.999999********************999 PP

>> Pyr_redox  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.0   0.0    0.0067       8.6       2      30 ..       6      34 ..       5      41 .. 0.92
   2 !   52.9   0.0   3.1e-17     4e-14       3      78 ..     148     218 ..     146     222 .. 0.95

  Alignments for each domain:
  == domain 1  score: 7.0 bits;  conditional E-value: 0.0067
                             EEEECSSHHHHHHHHHHHHTTSEEEEEES CS
                Pyr_redox  2 vvvvGgGyiglElAgalaelgkkVtvver 30
                             v+++G+G  g  +A ++++ g k  ++e 
  PHY93_04135|PHY93_04135  6 VIIIGSGPAGYTAALYASRAGLKPIIIEG 34
                             89*********************999985 PP

  == domain 2  score: 52.9 bits;  conditional E-value: 3.1e-17
                              EEECSSHHHHHHHHHHHHTTSEEEEEESSSSSSTTSSHHHHHHHHHHHHHT.TEEEECSEEEEEEEEETTSEEEEEE CS
                Pyr_redox   3 vvvGgGyiglElAgalaelgkkVtvversdkllrllDeeaskilqeklekn.gievllntkveeiegsedgvesvkl 78 
                               vvGgG+++lE+A++l+++++kV +++r+++++      a + +q++  +n +iev++nt+v+ei  +++gv+++++
  PHY93_04135|PHY93_04135 148 HVVGGGDTALEEANFLTRFADKVILLHRKEHFR------ATRPMQDRTFNNpKIEVIWNTEVKEILFDDSGVNGLRV 218
                              69*******************************......*********9999**************99999988775 PP

>> FAD_binding_2  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.3   0.1   5.9e-09   7.5e-06       2      37 ..       6      40 ..       5      47 .. 0.90
   2 ?    4.2   0.0     0.014        18     147     188 ..     185     227 ..     165     239 .. 0.78
   3 ?    1.3   0.0      0.11   1.4e+02     387     402 ..     265     280 ..     242     294 .. 0.79

  Alignments for each domain:
  == domain 1  score: 25.3 bits;  conditional E-value: 5.9e-09
                             EEEE--SHHHHHHHHHHHHTTT-EEEEESSSGGGSG CS
            FAD_binding_2  2 viViGsGlAGLaAAleaaeaGlkvavvekeqefgga 37
                             vi+iGsG AG++AAl a++aGlk +++e  ++ gg+
  PHY93_04135|PHY93_04135  6 VIIIGSGPAGYTAALYASRAGLKPIIIEGHEP-GGQ 40
                             9***************************9998.665 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.014
                              HHHHHHTCT.EEEEESEEEEEEEECTTEEEEEEEEETTTTCEE CS
            FAD_binding_2 147 lvesarkag.vdfqerteadeLivedgrvtGavvenpesgrev 188
                              + ++  +++ +++  +te++e++ +d +v+G  v+n ++ + +
  PHY93_04135|PHY93_04135 185 MQDRTFNNPkIEVIWNTEVKEILFDDSGVNGLRVWNNKTNQMT 227
                              55555555569************************88544443 PP

  == domain 3  score: 1.3 bits;  conditional E-value: 0.11
                              TEEESSBTEEE-STCE CS
            FAD_binding_2 387 adgqpipGLYAaGeva 402
                              + ++ ipG +A+G v 
  PHY93_04135|PHY93_04135 265 HPDTSIPGVFACGDVQ 280
                              45788********986 PP

>> FAD_oxidored  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.5   0.0   6.1e-09   7.8e-06       2      40 ..       6      43 ..       5      80 .. 0.91
   2 ?    1.3   0.0      0.13   1.7e+02      97     130 ..     190     223 ..     161     231 .. 0.83

  Alignments for each domain:
  == domain 1  score: 25.5 bits;  conditional E-value: 6.1e-09
             FAD_oxidored  2 vvVvGGgpaGvaAAiaAaraGakvlLveergvlGGllts 40
                             v+++G+gpaG++AA+ A raG k +++e     GG+lt 
  PHY93_04135|PHY93_04135  6 VIIIGSGPAGYTAALYASRAGLKPIIIEG-HEPGGQLTT 43
                             9**************************85.678999996 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.13
             FAD_oxidored  97 laeagvtvllntrlvevekegkriesvtveskeg 130
                               ++++++v+ nt+++e+  ++  +++++v++++ 
  PHY93_04135|PHY93_04135 190 FNNPKIEVIWNTEVKEILFDDSGVNGLRVWNNKT 223
                              47899***************999******99874 PP

>> FAD_binding_3  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   0.1   3.5e-07   0.00044       3      34 ..       5      36 ..       3      43 .. 0.93
   2 ?    2.5   0.0     0.056        71       4      35 ..     147     178 ..     145     205 .. 0.75

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 3.5e-07
                             EEEEE--SHHHHHHHHHHHHTTHHEEEEESSS CS
            FAD_binding_3  3 dVlIVGaGpaGlmlallLseaGvrvvlvekrs 34
                             +V+I+G+GpaG ++al  s+aG + +++e ++
  PHY93_04135|PHY93_04135  5 QVIIIGSGPAGYTAALYASRAGLKPIIIEGHE 36
                             8****************************886 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.056
                              EEEE--SHHHHHHHHHHHHTTHHEEEEESSSS CS
            FAD_binding_3   4 VlIVGaGpaGlmlallLseaGvrvvlvekrst 35 
                              V +VG+G + l  a++L++   +v+l+ + + 
  PHY93_04135|PHY93_04135 147 VHVVGGGDTALEEANFLTRFADKVILLHRKEH 178
                              789****************9555666655544 PP

>> GIDA  Glucose inhibited division protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.0   9.7e-07    0.0012       1      28 [.       5      32 ..       5      54 .. 0.82
   2 ?    1.3   0.0      0.11   1.5e+02     116     150 ..      80     113 ..      63     133 .. 0.80
   3 ?    0.2   0.0      0.25   3.2e+02       2      29 ..     147     174 ..     146     183 .. 0.85
   4 ?   -0.1   0.0      0.29   3.7e+02      99     136 ..     183     221 ..     169     231 .. 0.75
   5 ?   -3.1   0.1       2.4     3e+03     373     386 ..     290     303 ..     269     307 .. 0.63

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 9.7e-07
                             CEEEE-SSHHHHHHHHHHHHTT--EEEE CS
                     GIDA  1 dviViGgGhAGceAAlaaarlGakvlLi 28
                             +vi+iG G AG+ AAl a+r+G+k ++i
  PHY93_04135|PHY93_04135  5 QVIIIGSGPAGYTAALYASRAGLKPIII 32
                             69*********************99888 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.11
                              S-EEEEEECTTEEEEEEETTS-EEEECEEEE--TT CS
                     GIDA 116 eeveeliveekkvkgvvtedgetikakavviatGt 150
                               +v ++ +  k+   v+ e+g+ + a++++i+tG+
  PHY93_04135|PHY93_04135  80 TKVVDIAL-AKRPFHVKCENGQGFLAETIIISTGA 113
                              55666655.566677999****************9 PP

  == domain 3  score: 0.2 bits;  conditional E-value: 0.25
                              EEEE-SSHHHHHHHHHHHHTT--EEEEE CS
                     GIDA   2 viViGgGhAGceAAlaaarlGakvlLit 29 
                              v+V+GgG   +e A  + r   kv+L+ 
  PHY93_04135|PHY93_04135 147 VHVVGGGDTALEEANFLTRFADKVILLH 174
                              89************99999999999983 PP

  == domain 4  score: -0.1 bits;  conditional E-value: 0.29
                              HHHHHHHHTSTTEEEE.ES-EEEEEECTTEEEEEEETTS CS
                     GIDA  99 kevteklenepnleii.eeeveeliveekkvkgvvtedg 136
                              + ++++  n+p++e+i + ev+e++ +++ v+g++  ++
  PHY93_04135|PHY93_04135 183 RPMQDRTFNNPKIEVIwNTEVKEILFDDSGVNGLRVWNN 221
                              5689999999***9753889******9999999655443 PP

  == domain 5  score: -3.1 bits;  conditional E-value: 2.4
                              HHHHHHHHHHHHHH CS
                     GIDA 373 aaaqGllAGinaar 386
                              aa++G+ A+i a r
  PHY93_04135|PHY93_04135 290 AAGSGCQAAIRAER 303
                              44455555555554 PP

>> HI0933_like  HI0933-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.1   1.8e-06    0.0023       2      33 ..       5      36 ..       4      44 .. 0.89
   2 ?    3.7   0.0     0.016        20     128     165 ..      78     114 ..      53     124 .. 0.78

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 1.8e-06
                             SEEEE--SHHHHHHHHHHHHTT--EEEE-SSS CS
              HI0933_like  2 dviviGgGaAGlmaAisaakrgkrVlllekak 33
                             +vi+iG G+AG  aA+ a+++g + +++e  +
  PHY93_04135|PHY93_04135  5 QVIIIGSGPAGYTAALYASRAGLKPIIIEGHE 36
                             89**************************9764 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.016
                              -S--EEEEECETTE.EEEEE.TTEEEEESEEEE----S CS
              HI0933_like 128 letevksvekeedgkfrvktkseeeleadklvlAtGGl 165
                              l+t+v +++  +   f+vk+++++ + a++++++tG  
  PHY93_04135|PHY93_04135  78 LSTKVVDIALAKR-PFHVKCENGQGFLAETIIISTGAS 114
                              5678888866555.5*******************9864 PP

>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.3   9.1e-06     0.012       2      35 ..       6      39 ..       5      46 .. 0.89
   2 !    6.3   0.0    0.0049       6.3     147     207 ..      61     119 ..      52     196 .. 0.73
   3 ?   -2.2   0.0       1.9   2.4e+03     157     185 ..     191     222 ..     174     250 .. 0.69

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 9.1e-06
                             EEEECTSHHHHHHHHHHHHTT..EEEEESSSSTTSS CS
                      DAO  2 vviiGGGiiGlstAyeLarrg..Vtllekgdiagsg 35
                             v+iiG+G +G ++A++++r+g   +++e + ++g g
  PHY93_04135|PHY93_04135  6 VIIIGSGPAGYTAALYASRAGlkPIIIEGH-EPG-G 39
                             9***************************99.777.4 PP

  == domain 2  score: 6.3 bits;  conditional E-value: 0.0049
                              HHHHHHHHHHHHTT-EEEESECEEEEEEEETCEEEEE.EECTEEEEEEEEEEE--GGGHH.HH CS
                      DAO 147 kltaalaraaealGveilegtevtgleeedgkvwgve.rttpgendaadavVnaaGawsd.ll 207
                               l+a + +++ + G e+l  t+v+++    ++  +v+ ++ +g    a+++++++Ga ++ l 
  PHY93_04135|PHY93_04135  61 DLMANMKNQVLRFGTEFLS-TKVVDIAL-AKRPFHVKcENGQGFL--AETIIISTGASAKyLG 119
                              5888899999999999998.5****944.4678888553222544..699********98543 PP

  == domain 3  score: -2.2 bits;  conditional E-value: 1.9
                              HHTT-EEEESECEEEEEEEETCEEEEE...EE CS
                      DAO 157 ealGveilegtevtgleeedgkvwgve...rt 185
                               +  +e++ +tev+++  +d +v g++   ++
  PHY93_04135|PHY93_04135 191 NNPKIEVIWNTEVKEILFDDSGVNGLRvwnNK 222
                              45567888899999986666666666665433 PP

>> NAD_binding_8  NAD(P)-binding Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.9   0.0   1.2e-07   0.00016       1      41 [.       8      51 ..       8      73 .. 0.85
   2 ?   -1.6   0.0       2.5   3.3e+03       1      17 [.     149     165 ..     149     179 .. 0.73

  Alignments for each domain:
  == domain 1  score: 21.9 bits;  conditional E-value: 1.2e-07
                             EE--SHHHHHHHHHHHCCTEEEEEE-SSSSSSGGG-EECE....T CS
            NAD_binding_8  1 IvGaGlsGlvaAylLakagfdvlllekrdrlGGraasyev....p 41
                             I+G+G +G +aA ++++ag++  ++e +  +GG++++ ++    p
  PHY93_04135|PHY93_04135  8 IIGSGPAGYTAALYASRAGLKPIIIEGH-EPGGQLTTTTDvenfP 51
                             9************************875.9******997755444 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 2.5
                              EE--SHHHHHHHHHHHC CS
            NAD_binding_8   1 IvGaGlsGlvaAylLak 17 
                              +vG+G ++l  A +L++
  PHY93_04135|PHY93_04135 149 VVGGGDTALEEANFLTR 165
                              89999988888888777 PP

>> Thi4  Thi4 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.1   8.1e-07     0.001      18      50 ..       4      35 ..       1      43 [. 0.87
   2 ?   -0.7   0.0      0.55   7.1e+02      20      50 ..     147     176 ..     140     181 .. 0.82
   3 ?   -1.8   0.0       1.2   1.5e+03     101     136 ..     183     217 ..     153     228 .. 0.74

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 8.1e-07
                             EEEEEE--SHHHHHHHHHHHHCTTS-EEEEESS CS
                     Thi4 18 sDvvivGaGssGLtaayylakkpdlkvailers 50
                               v+i+G+G++G taa y +++ +lk +i+e +
  PHY93_04135|PHY93_04135  4 KQVIIIGSGPAGYTAALYASRA-GLKPIIIEGH 35
                             579***************9999.*******976 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.55
                              EEEE--SHHHHHHHHHHHHCTTS-EEEEESS CS
                     Thi4  20 vvivGaGssGLtaayylakkpdlkvailers 50 
                              v +vG+G + L  a  l++    kv++l r+
  PHY93_04135|PHY93_04135 147 VHVVGGGDTALEEANFLTRF-ADKVILLHRK 176
                              679*************9998.5588877765 PP

  == domain 3  score: -1.8 bits;  conditional E-value: 1.2
                              HHHHHHHHTSTTEEEEESEEEEEEEEETBTEEEEEE CS
                     Thi4 101 stllskvlqlanvkllnavaveDlivregegvaGvv 136
                                +  ++++ + + ++  + v ++++ + +gv+G+ 
  PHY93_04135|PHY93_04135 183 RPMQDRTFNNPKIEVIWNTEVKEILFDD-SGVNGLR 217
                              4466678888899999999999998888.8888874 PP

>> NAD_binding_7  Putative NAD(P)-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.3   0.0      0.01        13       5      38 ..       1      34 [.       1     101 [. 0.88
   2 !   11.8   0.0    0.0002      0.26       6      40 ..     143     177 ..     141     238 .. 0.80
   3 ?   -0.9   0.0       1.7   2.2e+03      13      30 ..     291     308 ..     286     310 .. 0.87

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.01
            NAD_binding_7  5 lkgkkvlvvGgGevAarkvrklleagakvtvvap 38
                             +++k+v+++G G+ +++ +    +ag k +++  
  PHY93_04135|PHY93_04135  1 METKQVIIIGSGPAGYTAALYASRAGLKPIIIEG 34
                             5789**************9999999999888765 PP

  == domain 2  score: 11.8 bits;  conditional E-value: 0.0002
            NAD_binding_7   6 kgkkvlvvGgGevAarkvrklleagakvtvvapev 40 
                              +gk v vvGgG+ A++ ++ l ++  kv+++  + 
  PHY93_04135|PHY93_04135 143 RGKIVHVVGGGDTALEEANFLTRFADKVILLHRKE 177
                              688999**********************9998882 PP

  == domain 3  score: -0.9 bits;  conditional E-value: 1.7
            NAD_binding_7  13 vGgGevAarkvrklleag 30 
                              +G G  Aa +++++lea+
  PHY93_04135|PHY93_04135 291 AGSGCQAAIRAERFLEAE 308
                              699999*********986 PP

>> Lycopene_cycl  Lycopene cyclase protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.5   0.1   0.00071      0.91       2      33 ..       6      35 ..       5      45 .. 0.89
   2 !    7.1   0.0    0.0018       2.4      88     145 ..      61     116 ..      55     136 .. 0.86

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.00071
            Lycopene_cycl  2 vvviGaGpAglslAarlteakpglkvvlieas 33
                             v++iG+GpAg   A     +++glk ++ie+ 
  PHY93_04135|PHY93_04135  6 VIIIGSGPAGYTAALYA--SRAGLKPIIIEGH 35
                             8***********99988..9*****9999874 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0018
            Lycopene_cycl  88 rlkeellerlvengvklleakvesveeeeageslvvleggrkirarlvvdarglaslk 145
                              +l +++++++   g ++l+ kv  ++ ++     v +e+g+   a +++ ++g+ s+k
  PHY93_04135|PHY93_04135  61 DLMANMKNQVLRFGTEFLSTKVVDIALAKR-PFHVKCENGQGFLAETIIISTGA-SAK 116
                              78899*********************9999.99********************5.443 PP

>> Trp_halogenase  Tryptophan halogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   0.1   0.00026      0.34       1      22 [.       5      26 ..       5      36 .. 0.86
   2 ?   -3.4   0.0       2.5   3.2e+03       2      23 ..     147     168 ..     147     178 .. 0.78

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.00026
                             EEEEE--SHHHHHHHHHHHHHT CS
           Trp_halogenase  1 kivivGGGtaGwlaAaalakal 22
                             +++i+G G+aG++aA + ++a+
  PHY93_04135|PHY93_04135  5 QVIIIGSGPAGYTAALYASRAG 26
                             599**************99987 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 2.5
                              EEEE--SHHHHHHHHHHHHHTT CS
           Trp_halogenase   2 ivivGGGtaGwlaAaalakalk 23 
                              + +vGGG  +   A+ l +  +
  PHY93_04135|PHY93_04135 147 VHVVGGGDTALEEANFLTRFAD 168
                              57999*9999999999988774 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (312 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       405  (0.0225891); expected 358.6 (0.02)
Passed bias filter:                      401  (0.022366); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.53u 0.27s 00:00:00.80 Elapsed: 00:00:00.42
# Mc/sec: 2252.40
//
Query:       PHY93_04140|PHY93_04140  [L=261]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.9e-13   49.3   0.1      9e-13   48.1   0.1    1.5  1  ECH_1     Enoyl-CoA hydratase/isomerase
    7.3e-06   25.7   0.0      9e-06   25.4   0.0    1.2  1  ECH_2     Enoyl-CoA hydratase/isomerase


Domain annotation for each model (and alignments):
>> ECH_1  Enoyl-CoA hydratase/isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.1   0.1     1e-16     9e-13      17     243 ..      32     257 ..      25     260 .. 0.89

  Alignments for each domain:
  == domain 1  score: 48.1 bits;  conditional E-value: 1e-16
                              TTEE-HHHHHHHHHHHHHHHHSTTECEEEEEEBTSEEEEEB-HHHHHHHHC.HHHHHHHCCHHHHHHHHHHSSSEEEEEE-SEEET CS
                    ECH_1  17 vNalsaelltEliqalekleddksvravvLtGgdkaFaaGadlkemaeeek.akqallkeevlelwtklytvpkpviaavnGaaig 101
                              +N l+ae+l+El   l+ + +  +v+   +t+ +  F  G d  e+   ++ + ++++ +     ++ l  ++ +v+ + +G   g
  PHY93_04140|PHY93_04140  32 QNFLNAETLFELESILAWAATHTEVQSLFITSFGDEFIQGFDPAEIKSLSEeKLKKQFTKISTIAQSFLCLSQTIVVDMKKGT-RG 116
                              699*****************************9999******99999987645566666666666777777888888888885.8* PP

                              HHHHHHHHSSEEEEETTTEEE-GGGGGTS--CTTCHHHHHHHHHHHHHHHHHHHT-EEEHHHHHHCTSSSEEESGGGHHHHHHHHH CS
                    ECH_1 102 GGlelalacDiviaadnasfglnelklGlipgaggtqilarkvGkskAeeilllgkkisaqealkvGlvdkvvpeeqlleealela 187
                               Glel la+Di+ia  +a+f    l lGl+p  g+  +l   + ++  + +ll g +++ +  l  G         ++ + a +++
  PHY93_04140|PHY93_04140 117 VGLELSLAADIRIAKSDAVFCFDHLSLGLTPTCGMFSFLKSYLNQNVLRSLLLSGVEFGKDSFLALGGW------CEFDKDACSIL 196
                              ****************************************************************99965......4677899**** PP

                              HHHHHSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTSHHHH.....HHHHHHHTC CS
                    ECH_1 188 eklaekspaalrqlkealnakledalaeqleaeaklfestfskddik.....eGlqaflEk 243
                              +++  ++p a  q+k  l    + a ++ le+e +lf+++++++d       +    f+Ek
  PHY93_04140|PHY93_04140 197 TNIFTQAPIARMQAKRGLYGINQTAHQKDLEVENQLFNAVVHSKDYTkeadfMNPSEFKEK 257
                              *******************9999******************99998756666677777776 PP

>> ECH_2  Enoyl-CoA hydratase/isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.4   0.0     1e-09     9e-06      12     166 ..      32     183 ..      25     244 .. 0.90

  Alignments for each domain:
  == domain 1  score: 25.4 bits;  conditional E-value: 1e-09
                              TT-B-HHHHHHHHHHHHHHCC-TT-SEEEEEESSSSECE--B--HHHHHHHHCS-THHHHHHHHHHHHHHHHHC-SS-EEEEE-BE CS
                    ECH_2  12 lNaLslemvralkealkewekddevklvvlkgagekafCAGgDvralyeaakegkkeeeeffreeYklnyliatypkpvvalmdGi 97 
                               N L+ e + +l+++l   +++ ev+ +++++ g   f  G D +++ +  +e+ k+    f++  ++ +    +++++v  m   
  PHY93_04140|PHY93_04140  32 QNFLNAETLFELESILAWAATHTEVQSLFITSFG-DEFIQGFDPAEIKSLSEEKLKK---QFTKISTIAQSFLCLSQTIVVDMKKG 113
                              5899****************************88.789*********9999997655...58888899999999999999999988 PP

                              EETHHHHHHTTSSEEEE-TT-EEE--GGGGT----TTHHHHHHC.SSTTHHHHHHHH---B-HHHHHHTT CS
                    ECH_2  98 vmGgGvGlsvhgsfrvvtertvfAmPEtaIGlfPDvGgsyfLsr.lpgelGlylalTGarlkgadalaag 166
                              + G G+ ls+ + +r++  ++vf     ++Gl+P +G+  fL+  l++++ + l l+G ++++   la+g
  PHY93_04140|PHY93_04140 114 TRGVGLELSLAADIRIAKSDAVFCFDHLSLGLTPTCGMFSFLKSyLNQNVLRSLLLSGVEFGKDSFLALG 183
                              99************************************99999835889988888988888777776665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (261 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       599  (0.0334096); expected 358.6 (0.02)
Passed bias filter:                      473  (0.0263818); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.23s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 1926.66
//
Query:       PHY93_04145|PHY93_04145  [L=304]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    5.3e-05   23.4   0.0    0.00012   22.3   0.0    1.7  1  GHMP_kinases_N  GHMP kinases N terminal domain
    0.00018   21.8   0.0     0.0012   19.2   0.0    2.2  2  GHMP_kinases_C  GHMP kinases C terminal
  ------ inclusion threshold ------
      0.085   13.3   0.1         16    6.0   0.0    2.5  2  Herpes_HEPA     Herpesvirus DNA helicase/primase complex asso


Domain annotation for each model (and alignments):
>> GHMP_kinases_N  GHMP kinases N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.3   0.0     2e-08   0.00012       3      64 ..      88     151 ..      86     153 .. 0.78

  Alignments for each domain:
  == domain 1  score: 22.3 bits;  conditional E-value: 2e-08
                              EEEESSHTTSSSCHHHHHHHHHHHHHHHHTTEHHHH...HHHHHHHHHHHHHHHHHSHHHHHHHH CS
           GHMP_kinases_N   3 vikseiPvgaGLGSSAAlavalvaAllallglslee...aklaleaerlaqggngsggDvaasvy 64 
                               ++s+iP g G GSS+Al++a+ a   + +   l+     ++  + e +++ g++sg+D   s++
  PHY93_04145|PHY93_04145  88 FFDSTIPQGYGVGSSGALVAAIFARYEQENPSILDIkrlKNIFSQLESHFH-GSSSGVDPLISYL 151
                              689******************999988888433522345666667777899.9999999887775 PP

>> GHMP_kinases_C  GHMP kinases C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0      0.31   1.9e+03      52      66 ..     100     110 ..      89     137 .. 0.66
   2 !   19.2   0.0     2e-07    0.0012      19      76 ..     241     295 ..     223     298 .. 0.78

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.31
           GHMP_kinases_C  52 klsGaGgGptvfalf 66 
                              + s    G+ v+a+f
  PHY93_04145|PHY93_04145 100 GSS----GALVAAIF 110
                              444....55666666 PP

  == domain 2  score: 19.2 bits;  conditional E-value: 2e-07
           GHMP_kinases_C  19 lsqrselkavvgilppeleelleal.selGalgaklsGaGgGptvfalfkdkdeaeqva 76 
                               +q+   ++  + +p   ++l++a  s+++ +++kl+GaGgG+++ ++++d +++++v+
  PHY93_04145|PHY93_04145 241 AFQH---EHFSPMIPKLYRDLWSAGlSSND-YSFKLCGAGGGGFLMGITDDFQKVKRVL 295
                              4455...44555556666777777768999.******************9999999886 PP

>> Herpes_HEPA  Herpesvirus DNA helicase/primase complex associated protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.0    0.0027        16      44      71 ..     125     152 ..     109     172 .. 0.82
   2 ?    4.7   0.1    0.0069        41       4      55 ..     211     261 ..     206     271 .. 0.81

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.0027
              Herpes_HEPA  44 allaffralhekvfgekevlapiflyig 71 
                               l+++f++l ++ +g+  ++ p++ y+ 
  PHY93_04145|PHY93_04145 125 RLKNIFSQLESHFHGSSSGVDPLISYLN 152
                              58899*********************95 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.0069
              Herpes_HEPA   4 difkvvdvelvlageqvtvrvllpkafdlLvtndesksnlallaffralhek 55 
                              d++ +++++   +  +v++ +ll + f+lL + +++  ++++++++r l+++
  PHY93_04145|PHY93_04145 211 DVLTPITNHCIDNFLNVNIELLLKN-FKLLSAFQHEHFSPMIPKLYRDLWSA 261
                              5566666666555567999999988.*********************99875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (304 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       404  (0.0225333); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.24s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 2247.04
//
Query:       PHY93_04150|PHY93_04150  [L=345]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      2e-12   47.3   0.0    3.8e-12   46.3   0.0    1.5  1  MDD_C           Mevalonate 5-diphosphate decarboxylase C-term
     0.0025   18.0   2.4     0.0063   16.7   2.4    1.8  1  GHMP_kinases_N  GHMP kinases N terminal domain


Domain annotation for each model (and alignments):
>> MDD_C  Mevalonate 5-diphosphate decarboxylase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.3   0.0   4.2e-16   3.8e-12       3     131 ..     194     319 ..     193     340 .. 0.92

  Alignments for each domain:
  == domain 1  score: 46.3 bits;  conditional E-value: 4.2e-16
                    MDD_C   3 ilvvsdekkkvsStsGmqrsvetSeLlkhrakevvperieelekAikekdFetfaeitmkdSnqlhavcldtyPpifYlndtSrai 88 
                              il+v+d +k+vsS +G    +e +++ ++r  +  ++ + +l  A+++ d ++f ei+ +++ +lha+ ++++P+   l  +S  +
  PHY93_04150|PHY93_04150 194 ILIVDDGEKSVSSRAGH-GLMENHPYKDQRFLR-AKNNLIQLVAALQSGDLNSFIEIVEEEALTLHALMMTSIPSYILLRPQSLWL 277
                              89***********9995.56999********99.8999999********************************************* PP

                    MDD_C  89 ielvhelNeaagkikvAYtFDAGpNavlyleekdveellsllk 131
                              i+ ++++   +++i v++t DAGpN  l++ ++  + + + ++
  PHY93_04150|PHY93_04150 278 IDRIKKFR-LEKNIPVCFTIDAGPNIHLLYPQSYKSIVRAWIQ 319
                              *******8.99****************9999887776666665 PP

>> GHMP_kinases_N  GHMP kinases N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   2.4     7e-07    0.0063       2      50 ..      94     149 ..      93     169 .. 0.71

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 7e-07
                              EEEEESSHTTSSSCHHHHHHHHHHHHHHHHT....TEHH.HH..HHHHHHHHHHHH CS
           GHMP_kinases_N   2 ivikseiPvgaGLGSSAAlavalvaAllall....glsl.ee..aklaleaerlaq 50 
                              i++++++P+++G++SSA+   al + ll+      g++l ++  ++ a e  rla 
  PHY93_04150|PHY93_04150  94 IHSSNTFPHSSGIASSASSMSALCLSLLSVDefltGIKLdRTkfFESASELSRLAS 149
                              899***********************998652223444432245555555555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (345 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       374  (0.0208601); expected 358.6 (0.02)
Passed bias filter:                      326  (0.0181828); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.25s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 2513.19
//
Query:       PHY93_04155|PHY93_04155  [L=345]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
      0.094   13.0   0.9       0.75   10.1   0.9    2.3  1  GHMP_kinases_N  GHMP kinases N terminal domain


Domain annotation for each model (and alignments):
>> GHMP_kinases_N  GHMP kinases N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.9   4.2e-05      0.75       2      21 ..     126     145 ..     123     178 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 4.2e-05
                              EEEEESSHTTSSSCHHHHHH CS
           GHMP_kinases_N   2 ivikseiPvgaGLGSSAAla 21 
                              ++++  +P++ GLGSS++l+
  PHY93_04155|PHY93_04155 126 VETRLGFPLSWGLGSSSSLI 145
                              4445556***********86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (345 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       444  (0.0247643); expected 358.6 (0.02)
Passed bias filter:                      384  (0.0214178); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.22s 00:00:00.77 Elapsed: 00:00:00.45
# Mc/sec: 2318.56
//
Query:       PHY93_04160|PHY93_04160  [L=447]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      2e-86  290.3   0.0    2.5e-86  290.0   0.0    1.1  1  HMG-CoA_red  Hydroxymethylglutaryl-coenzyme A reductase


Domain annotation for each model (and alignments):
>> HMG-CoA_red  Hydroxymethylglutaryl-coenzyme A reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  290.0   0.0   1.4e-90   2.5e-86      21     366 ..      44     405 ..      22     406 .. 0.91

  Alignments for each domain:
  == domain 1  score: 290.0 bits;  conditional E-value: 1.4e-90
                              TT----...HHHHHHHSSS---------EEEEEEEETTEEEEEEE---STTHHHHHHHHHHHHHHTT-B.EEEE----EEEEEEEE CS
              HMG-CoA_red  21 keesld...eevadkmiEnviGyvqlPlGvagpllingkeylvPmAteEgslvAsasrgakainesgGvkttvlkdgmtraqvvll 103
                              k+++ d   ++++d++ En+++++  PlGv++++l+ng+ + vPm++eE+s+vA+  r a+++  +gG++++v+++   ++qv+++
  PHY93_04160|PHY93_04160  44 KYWHADetiQKTIDEFSENTLTNFLFPLGVVPNILLNGELLCVPMVIEESSVVAASARSANFWLTRGGFHAEVIST-TKIGQVHFI 128
                              34555555799**********************************************************9999998.899****99 PP

                              .--S-HHHHHHHH.HTHHHHHHHHHHCSHH..CCT-EEEEEEE.EE-...SSEEEEEEEEE-TTC--HHHHHHHHHHHHHHHHHHH CS
              HMG-CoA_red 104 esvedaaelkkwi.ekkeeleelanaaest..srggglkdiev.vla...grlvvlrlkvdtgDAmGaNmvnkateaaaelieeef 182
                                  + ++l + + e k+el++ +++ + +  +rggg+ ++++   +     +++l  +++t+DAmGaN++n+++e + + ++e++
  PHY93_04160|PHY93_04160 129 -WNGETSKLCDLFnEIKDELITSTKSLTDNmeKRGGGIISLNLiDRTldePGYYQLLAEFETCDAMGANFINSILEVIGRKFKEIV 213
                              .8889999999998889999888888877779********99954446665599*************************9999997 PP

                              T.........S..EEEEEEE-S--GGGEEEEEEEEEHHHH..-SSTTHHHHHHHHHHHHHHHHHH-HHHH..HHHHHHH....... CS
              HMG-CoA_red 183 g.........e..eellsilsNlctdkkasainaiegrgksvvaeatigeevvekilkasaealvdlnranigtankGiggfnaha 257
                              +         +  + +++ilsN++ ++++++ +++++++++  +  ++ ee++ek+++a ++++vd+ ra  +t+nkGi       
  PHY93_04160|PHY93_04160 214 TtaknftdeeKdlQIIMAILSNYTPNCRVKTYVECDISDLNDPSLGMSAEEFAEKFARAIRISKVDITRA--TTHNKGI------- 290
                              656666665515699*************************99999*************************..*******....... PP

                              HHHHHHHHHHTT--HHHHHHHHHHHTT.......SEEE..TTTEEEEEEEEE.----SBSHHHHH-HHHHHH.HHTT---HH...H CS
              HMG-CoA_red 258 aNgiaAvflAtGqDlaaveesshaiaa.......leev..edgdlygsvtlPsleVGtvGGgtklppqaell.kllgvkgaknake 333
                              +Ngi+Av++AtG+D++ave++ ha+aa       l++v  e+g++ +s+++P l++GtvGG t+l+p a+l+ ++lg ++a    e
  PHY93_04160|PHY93_04160 291 FNGIDAVVVATGNDYRAVEACGHAYAArdgqyrgLSDVslENGKFRFSLEMP-LAIGTVGGLTSLHPLARLSlNMLGRPKAP---E 372
                              **********************************9999999***********.*****************************...* PP

                              HHHHHHHHHHHHHHHHHHHHT-----HHHHHHH CS
              HMG-CoA_red 334 LaeiiaavgLAqelsalrALaaeglqkgHmklh 366
                              L++i+a++gLAq+++a+r+L ++g+qkgHmk+h
  PHY93_04160|PHY93_04160 373 LMQIVATIGLAQNFAAVRSLITSGIQKGHMKMH 405
                              *******************************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (447 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       675  (0.0376485); expected 358.6 (0.02)
Passed bias filter:                      532  (0.0296726); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.59u 0.23s 00:00:00.82 Elapsed: 00:00:00.42
# Mc/sec: 3164.63
//
Query:       PHY93_04165|PHY93_04165  [L=343]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00019   20.6   0.0      0.055   12.5   0.0    2.1  2  FMN_dh    FMN-dependent dehydrogenase


Domain annotation for each model (and alignments):
>> FMN_dh  FMN-dependent dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.5   0.0   3.1e-06     0.055      44      95 ..      43      94 ..      23     101 .. 0.85
   2 !    6.2   0.0   0.00025       4.5     205     282 ..     176     278 ..     123     281 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 3.1e-06
                             SS-B--EEETTEEESSSEEE--BSTGGGTSTTHHHHHHHHHHHHTS-EEEET CS
                   FMN_dh 44 skvdlsttllGqklslPvliaPvglaklahpdgelalaraaakagipfvlst 95
                             ++ dls  +lG+kl++P+ ++++      +++ + +lar ++++g+ ++l++
  PHY93_04165|PHY93_04165 43 EETDLSLLFLGKKLKAPLWVSSMTGGVGPARHINQNLARLCHEFGLGMGLGS 94
                             6779*******************5555555569999************9987 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.00025
                              HHHHHHHHHHHSSEEEEEEE...-SHHHHHHHHHTTESEEEE--GGG.......................TSSTT---HHHCHHHH CS
                   FMN_dh 205 wddikwlreqtklplvvKGv...ltaedakraveaGvdgivvSNHGG.......................RqldgapatidvLpei 264
                               +++++l +  k +++vK+v     +e  k ++++ +++i ++  GG                       +    +++ ++ L + 
  PHY93_04165|PHY93_04165 176 IETLAKLCDFFKSKIIVKEVgqgFGPESLKALLDLPIEAIELAAFGGtnftkleqmrgegvwmeslskvgHTAPEMVSMLNLLLRA 261
                              57899999999*********88888****************************999999999999995555555555555555555 PP

                              HHHH..SS-EEEESS--S CS
                   FMN_dh 265 veavggrievlvDgGirr 282
                                + + + +++++gG+ +
  PHY93_04165|PHY93_04165 262 HPEYK-QKQIIISGGVEN 278
                              55555.899999999976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (343 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       302  (0.0168442); expected 358.6 (0.02)
Passed bias filter:                      296  (0.0165096); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.22s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 2362.56
//
Query:       PHY93_04170|PHY93_04170  [L=235]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.1e-08   34.4   0.0    2.6e-08   34.1   0.0    1.2  1  TP_methylase     Tetrapyrrole (Corrin/Porphyrin) Methylases
  ------ inclusion threshold ------
       0.14   11.4   0.0       0.33   10.2   0.0    1.5  2  Peptidase_M16_M  Middle or third domain of peptidase_M16
       0.17   12.2   0.0       0.25   11.7   0.0    1.3  1  Radical_SAM      Radical SAM superfamily


Domain annotation for each model (and alignments):
>> TP_methylase  Tetrapyrrole (Corrin/Porphyrin) Methylases
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.1   0.0   4.3e-12   2.6e-08      68     186 ..      77     192 ..      25     219 .. 0.85

  Alignments for each domain:
  == domain 1  score: 34.1 bits;  conditional E-value: 4.3e-12
             TP_methylase  68 iaealaealragkdVvllv.sGDPlvygtgselvealrareagieveviPGvsslqaaaarlgiplteggevlsvllpglakeeer 152
                              +a+ l  al++gk+V l++ +G P +y++g elv+ + +  + i+v   P   s+ +a a +g++  ++  + ++ l++  +e+ +
  PHY93_04170|PHY93_04170  77 VARELLSALESGKNVFLMSdGGLPAFYDPGVELVKMCHQ--NRIKVTSTPFCNSVVLALALSGFSHKKFWFEGFLPLDA--AERST 158
                              566679****************************99999..88************************999998888454..5799* PP

             TP_methylase 153 eleallangdtlvllkaprklaelaelLkealyd 186
                               +++lla+++t +l+++p ++++++e+ +e+++ 
  PHY93_04170|PHY93_04170 159 VIKKLLAQKHTSILMDTPYRMKRVLEEFAECWGS 192
                              ****************************999554 PP

>> Peptidase_M16_M  Middle or third domain of peptidase_M16
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0      0.43   2.5e+03     203     213 ..     131     141 ..     126     146 .. 0.82
   2 ?   10.2   0.0   5.5e-05      0.33      65     112 ..     167     227 ..     147     232 .. 0.79

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 0.43
          Peptidase_M16_M 203 lelsvsGYndk 213
                              l l +sG+++k
  PHY93_04170|PHY93_04170 131 LALALSGFSHK 141
                              7899******9 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 5.5e-05
          Peptidase_M16_M  65 dekekwygteYsvekiseelleewksae.............eneeLhLPepNpFiptdfsl 112
                              +++   ++t+Y+++++ ee+ e w s               e+eeL+L +pN+ + +  s+
  PHY93_04170|PHY93_04170 167 KHTSILMDTPYRMKRVLEEFAECWGSNTagkklflamdlnsETEELKLGTPNELLSSIASM 227
                              5667779******************55456899********899********988776666 PP

>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   4.1e-05      0.25      28      75 ..      71     126 ..      55     190 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 4.1e-05
                              HHHHHHHHHHHHHHHHHTTSEEEEEE.SSTGGGSTTHHHHHHHHHHTC........C CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxx........x RF
              Radical_SAM  28 slsveeileevkelkaekgvkevilg.ggepllypdfvellerlakla........v 75 
                              + +   +++e+ ++  e g+++++++ gg p +y++ vel++++++++         
  PHY93_04170|PHY93_04170  71 EHTASVVARELLSA-LESGKNVFLMSdGGLPAFYDPGVELVKMCHQNRikvtstpfC 126
                              56677788999999.788888888889*******************97554444441 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (235 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       368  (0.0205254); expected 358.6 (0.02)
Passed bias filter:                      354  (0.0197445); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1757.90
//
Query:       PHY93_04175|PHY93_04175  [L=276]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    7.2e-22   77.9   0.1    8.3e-22   77.7   0.1    1.0  1  SBP_bac_3       Bacterial extracellular solute-binding protei
    0.00011   22.2   0.1    0.00098   19.1   0.1    2.2  2  NMT1            NMT1/THI5 like
  ------ inclusion threshold ------
      0.034   13.7   0.0       0.42   10.2   0.0    2.3  2  Phosphonate-bd  ABC transporter, phosphonate, periplasmic sub
      0.038   13.6   0.0      0.085   12.4   0.0    1.5  1  Peptidase_C47   Staphopain peptidase C47


Domain annotation for each model (and alignments):
>> SBP_bac_3  Bacterial extracellular solute-binding proteins, family 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.7   0.1   1.8e-25   8.3e-22       8     222 ..      38     246 ..      32     249 .. 0.89

  Alignments for each domain:
  == domain 1  score: 77.7 bits;  conditional E-value: 1.8e-25
                              -BTTTBEE-TTS-EESHHHHHHHHHHHHCT-EEEEEE-SGGGHHHHHHTTSSSEEESSEB--HHHHTTEEEESESEEEEEEEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                SBP_bac_3   8 dypPfsykdengeltGfdvdlakaiakrlgvkvefvpvswdelipalksgkvDiaiaaititpeReekvdFsqpyfsagqvllvrk 93 
                              d  Pf+y  ++g+ tG  +++ ++ia+  g++++ +  ++   i +lk+g++D++i    +t +   k++F      + q+++  +
  PHY93_04175|PHY93_04175  38 DIFPFGYTSPDGQATGLIYEISNKIAQTAGFTFTNILAPYPRTIINLKNGNADFVI---RYTNAELNKIAFPVASIISFQTIIFGN 120
                              567*****************************888867*****************8...6999999*****999999999999986 PP

                              TTSHGTCCHSSCGCGTTSEEEEETTSHHHHHHHHHHHCTSEEEEESSHHHHHHHHHTTSSSEEEEEHHHHHHHHHHCCGCCEEEE. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx. RF
                SBP_bac_3  94 kdaskissiksladLkgkkvgvqagstaeellkeelkkgaeivefdtleealqaLkngrvdavvadspvlaylvkknpdkkvvlv. 178
                              kd      +ksl+dL gk++g  +g   ++ ++e   k++e  e++++++++++L ++r+da++++s+ l+  +kk +   ++l  
  PHY93_04175|PHY93_04175 121 KDG----HFKSLKDLRGKTIGKIRGGIFDDHFEED--KEIEKYEVNDYDQLFKMLLAKRYDAIIGSSIGLYSNAKKMNISRKELGr 200
                              653....577777********************93..47888899***************************************66 PP

                              ..ECGGCECEEEEEEETTTHHHHHHHHHHHHHHHHTTHHHHHHHHH CS
                              ..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                SBP_bac_3 179 ..eeplsseeyaiavrkgdseLrkainkalaelkadgtlakisekW 222
                                + +     +    ++ d++  +a+  a+ +l a+g++ +i + +
  PHY93_04175|PHY93_04175 201 plHLQHKFFVLHLTKKNIDQKTIEALKLAIHKLEANGEILRIVKSY 246
                              5555555555666778899***********************9988 PP

>> NMT1  NMT1/THI5 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   0.0     0.011        50     128     156 ..      76     103 ..      51     114 .. 0.76
   2 !   19.1   0.1   2.2e-07   0.00098      37     148 ..      83     181 ..      72     205 .. 0.76

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.011
                              .TT-HHHHHHCTSSSEEECEETTTHHHHH CS
                     NMT1 128 ggtslakalltgkvDaaiggyenwegvel 156
                               +  ++  l +g++D++i  y+n e++++
  PHY93_04175|PHY93_04175  76 PYPRTIINLKNGNADFVI-RYTNAELNKI 103
                              4555666999********.9999999876 PP

  == domain 2  score: 19.1 bits;  conditional E-value: 2.2e-07
                              HHHCTS-SEEEE-HHHHHHHHHTT--EEEEEEEE-S--EEEEEECCC--SSGGGGTTSEEEE-S-TTHHHHHHHHHHHTT--GGG- CS
                     NMT1  37 lvasgkadfgvsyqesllaarakglpvvsvaallqeplsglivlkdsgikspkDLkGkrigyvgspfekallkallakdggdpsdv 122
                               + +g+adf + y++  l   +  +pv s+ ++     + ++ +kd+  ks+kDL+Gk+ig      + ++ +++ + + +  +++
  PHY93_04175|PHY93_04175  83 NLKNGNADFVIRYTNAEL--NKIAFPVASIISFQ----TIIFGNKDGHFKSLKDLRGKTIGKIR---GGIFDDHFEEDKEI--EKY 157
                              577888888888888888..55668888887766....6777788888*************998...45555666666666..888 PP

                              EEEE-.TT-HHHHHHCTSSSEEECEE CS
                     NMT1 123 tlvnvggtslakalltgkvDaaiggy 148
                              ++ +  +++l+k ll+++ Da+ig  
  PHY93_04175|PHY93_04175 158 EVND--YDQLFKMLLAKRYDAIIGSS 181
                              8844..58888899999999999754 PP

>> Phosphonate-bd  ABC transporter, phosphonate, periplasmic substrate-binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0   9.3e-05      0.42      42     109 ..      80     137 ..      55     138 .. 0.72
   2 ?    1.0   0.0     0.058   2.6e+02     136     170 ..     152     186 ..     143     254 .. 0.69

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 9.3e-05
                              HHHHHHTTS-SEEE--HHHHHHHHHHS-EEEEEEEEETT--SEEEEEEEEETTSS--SHHHHGG-EEE CS
           Phosphonate-bd  42 vvealragqvDiaflgplayvqardqagveplatrvrsdGsasyrsviivradsdiqsledLkgktia 109
                              ++ +l++g++D++      y +a+ ++ + p+a         s++++i+ ++d   +sl+dL+gkti+
  PHY93_04175|PHY93_04175  80 TIINLKNGNADFVI----RYTNAELNKIAFPVASII------SFQTIIFGNKDGHFKSLKDLRGKTIG 137
                              55555555555553....455555444444444444......79**********************95 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.058
                              HHSSEEEE--HHHHHHHHHTTSSSEEEEEHHHHHH CS
           Phosphonate-bd 136 ddfsevfsgshdaavlavlsgdadaaavsadaled 170
                              + +++  ++++d+  + +l++++da   s+  l++
  PHY93_04175|PHY93_04175 152 KEIEKYEVNDYDQLFKMLLAKRYDAIIGSSIGLYS 186
                              44555566677777777777777766555444444 PP

>> Peptidase_C47  Staphopain peptidase C47
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   1.9e-05     0.085      22      80 ..      63     125 ..      54     134 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 1.9e-05
            Peptidase_C47  22 swcaGytmsalln....atkntnkynaedvmrflypelreqdlqftgltpnemiefGksqGrd 80 
                              +  aG+t++++l     +  n ++ na+ v+r+   el++  ++ +++++ + i fG+ +G  
  PHY93_04175|PHY93_04175  63 AQTAGFTFTNILApyprTIINLKNGNADFVIRYTNAELNKIAFPVASIISFQTIIFGNKDGHF 125
                              5679999999996333256788999*********************************99975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (276 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       541  (0.0301746); expected 358.6 (0.02)
Passed bias filter:                      396  (0.0220871); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 2043.53
//
Query:       PHY93_04180|PHY93_04180  [L=372]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.9e-18   66.6   0.0    4.4e-18   65.4   0.0    1.7  1  OmpA      OmpA family
    1.3e-12   48.5   2.6    3.9e-11   43.7   0.1    2.8  2  DUF937    Bacterial protein of unknown function (DUF937)
  ------ inclusion threshold ------
      0.019   14.6   0.2       0.05   13.3   0.1    1.6  1  DUF4869   Domain of unknown function (DUF4869)


Domain annotation for each model (and alignments):
>> OmpA  OmpA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.4   0.0   7.4e-22   4.4e-18       1      95 []     270     365 ..     270     365 .. 0.97

  Alignments for each domain:
  == domain 1  score: 65.4 bits;  conditional E-value: 7.4e-22
                              .B-TTS--B-GGGHHHHHHHHHHHH.S-S--EEEEE---S---HHHHHHHHHHHHHHHHHHHHHTTSSGGGEEEEE-TT------- CS
                     OmpA   1 yFapgsseLtpkaksaldkiaellk.kpeqkitveGhtdaagseernweLSqkRAeaVanylqnegvppsrisvsgyGaerpitan 85 
                              +F+ g++ L p ++ +l++ia++lk  p+  +++eG+td+ g +  n +LS++RA  V+n l+++g+++ ri+++g+G+  pi++n
  PHY93_04180|PHY93_04180 270 NFEMGTTALVPGSEVELNQIAATLKnYPAATVKIEGFTDNVGPTLNNLALSTSRALEVKNELMARGIEAGRIEATGVGSASPIATN 355
                              599**********************777777******************************************************* PP

                              -------EE. CS
                     OmpA  86 ntaekkarnr 95 
                              +tae++a+nr
  PHY93_04180|PHY93_04180 356 TTAEGRAENR 365
                              ********98 PP

>> DUF937  Bacterial protein of unknown function (DUF937)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.7   0.1   6.5e-15   3.9e-11       7     135 ..      15     129 ..      10     131 .. 0.91
   2 ?    3.7   0.3     0.015        87      12      60 ..     139     188 ..     132     255 .. 0.69

  Alignments for each domain:
  == domain 1  score: 43.7 bits;  conditional E-value: 6.5e-15
                   DUF937   7 lggapiqqlaqqlGedeaqaesalsaalpallgalaqnaaspgGlgdLlgallggglggggLgdllsllqngglgeqaqswdgpai 92 
                              l+++ +q+ ++++    ++++  l++++p++l ++ ++ ++p+G+++L + +  ++         + +++ +++++++    +++ 
  PHY93_04180|PHY93_04180  15 LSPDIVQKFSSEIQRPIDKTKVILKSIIPTVLMGIISKGSTPEGAESLVNLA--NK--------QGPVVSPESINQNQ----STEV 86 
                              789999********************************************55..23........34678888888865....799* PP

                   DUF937  93 LasllGakqqqvisalsqqtGlsrgevlqlLallaPevmsqLt 135
                              ++ ++G++ ++v  +l+ +tGl++g++ ++L ++ P++ms L+
  PHY93_04180|PHY93_04180  87 VNGIFGSNINNVVTNLGLSTGLNSGSITKILGMVTPMIMSVLG 129
                              *****************************************98 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.015
                   DUF937  12 iqqlaqqlGedeaqaesalsaalpallgalaqna.aspgGlgdLlgallg 60 
                              +++l + lG+++ +  + + a l  l+g+l   + + +  +g L +++++
  PHY93_04180|PHY93_04180 139 ASGLMNFLGQQKSSLVGMVPASLSGLFGGLTGASaSVSSTAGALQDQISK 188
                              45555666666666666666666666666655542334444444444433 PP

>> DUF4869  Domain of unknown function (DUF4869)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.1   8.3e-06      0.05      17      71 ..      19      73 ..      12      86 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 8.3e-06
                  DUF4869 17 ltdelakeiikdiDksevlseeviespvlGkispkklsgGvktLlllanedekif 71
                             + ++++ ei + iDk++v+ +++i + ++G+is  +   G+ +L+ lan++  ++
  PHY93_04180|PHY93_04180 19 IVQKFSSEIQRPIDKTKVILKSIIPTVLMGIISKGSTPEGAESLVNLANKQGPVV 73
                             5678999***************************************999987665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (372 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       485  (0.0270511); expected 358.6 (0.02)
Passed bias filter:                      348  (0.0194099); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.40
# Mc/sec: 2798.74
//
Query:       PHY93_17290|PHY93_17290  [L=338]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.3e-09   36.9   0.0    6.5e-09   36.3   0.0    1.3  1  AIRS      AIR synthase related protein, N-terminal domain


Domain annotation for each model (and alignments):
>> AIRS  AIR synthase related protein, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.3   0.0   3.6e-13   6.5e-09      23      91 ..      56     138 ..      30     141 .. 0.77

  Alignments for each domain:
  == domain 1  score: 36.3 bits;  conditional E-value: 3.6e-13
                              C........HHHHHHHHHHHHHHTTTEEEEEEEEEEEEC......HHHHHHHHHHHHHHHTT-EEEEEEEEEESSEEEEEEEE CS
                     AIRS  23 f........iGakavavnlsDlaamGArPlalllslalp......wleevvrglaeaaeelgvplvgGdtsfsneptisvtav 91 
                                        G+ +v+  +sDlaa G +Pl+l+ +  ++      + +  ++ l+ a+++++vpl+gGdt  + +   + +++
  PHY93_17290|PHY93_17290  56 LglyreietWGWMTVMSSVSDLAASGSTPLGLTIAAQWKygtaleIQNLYYKALNLACKKANVPLLGGDTGNGVSHAFTSSII 138
                              3333445558*********************99999999***99555557899*****************9875555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (338 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       363  (0.0202465); expected 358.6 (0.02)
Passed bias filter:                      354  (0.0197445); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.22s 00:00:00.75 Elapsed: 00:00:00.41
# Mc/sec: 2476.48
//
Query:       PHY93_04185|PHY93_04185  [L=181]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.5e-23   81.3   0.9    9.2e-23   81.0   0.9    1.1  1  DUF2796   Protein of unknown function (DUF2796)


Domain annotation for each model (and alignments):
>> DUF2796  Protein of unknown function (DUF2796)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   81.0   0.9   5.1e-27   9.2e-23       1     158 [.      24     171 ..      24     180 .. 0.88

  Alignments for each domain:
  == domain 1  score: 81.0 bits;  conditional E-value: 5.1e-27
                  DUF2796   1 gaHvHGvaelnvalegselelelesPaanlvGFEhapetdeqkaklakavakLekae.alfalpeaakCkleeaevessleeeeed 85 
                              gaH+HG  +l +a+e++ ++++l+ P+  ++ FE+ p+t+++k++ a+++++ +k+  +l++++++ +Ck++e+++++ ++++e++
  PHY93_04185|PHY93_04185  24 GAHEHGSIKLGMAVEKNIVDIDLDGPTESFISFEYLPKTEKEKKIFAAVENQWNKKLfELITFDKKLNCKITETSFKQIIDQKETA 109
                              69***************************************************99988*******************999865543 PP

                  DUF2796  86 eeeeedehdheheeeskkkdhdheeaeHsdieaeyefeCakpealkkldvklfeafpslekiqvqlitdagqg 158
                              e      ++++ +     +  +++   Hsdiea+ +++Ca++   ++++v+l + f++++k++v++i+++  +
  PHY93_04185|PHY93_04185 110 E------AQSKIK-----ETAKKASGVHSDIEAKAKVTCASNLVGSNVEVALKKYFQNIKKLTVEIISNESKS 171
                              2......222222.....234557899****************************************987654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (181 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1604  (0.089464); expected 358.6 (0.02)
Passed bias filter:                      455  (0.0253779); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1362.82
//
Query:       PHY93_04190|PHY93_04190  [L=394]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.8e-18   64.7   0.0    1.3e-17   64.2   0.0    1.2  1  UPF0020          Putative RNA methylase family UPF0020
     0.0058   16.1   0.0      0.046   13.2   0.0    2.0  1  AviRa            RRNA methyltransferase AviRa
     0.0068   15.7   0.0      0.027   13.7   0.0    1.8  1  N6_Mtase         N-6 DNA Methylase
  ------ inclusion threshold ------
      0.011   15.5   0.0        3.3    7.5   0.0    2.4  2  Methyltransf_31  Methyltransferase domain
       0.35   10.4   1.8       0.94    9.0   0.4    2.1  2  IlvGEDA_leader   IlvGEDA operon leader peptide


Domain annotation for each model (and alignments):
>> UPF0020  Putative RNA methylase family UPF0020
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.2   0.0   3.5e-21   1.3e-17       2     142 ..     180     333 ..     179     370 .. 0.74

  Alignments for each domain:
  == domain 1  score: 64.2 bits;  conditional E-value: 3.5e-21
                              SSS-SS---SS-HHHHHHHHH......HTT--TTS-EEETT-TTSHHHHHHHHHHTT--TTTT----SS..........HHHHHHH CS
                  UPF0020   2 gyRefngpapLketLAaalvr......lagwkpgepllDPmCGsGtilIEaallganiapgllrefvle..........lkaeaee 71 
                              + +  +g ap++e+LAa l+r      ++   ++ +l+DPmCGsGt+l+Ea     n++  + r+f +           +++++e+
  PHY93_04190|PHY93_04190 180 HEKTLTGLAPIRESLAALLLRelqshmRTTDAATYTLIDPMCGSGTFLLEAHES--NAV-TTGRDFSYLhtpvafddktILKKLEK 262
                              56677889***********86332221455566779**************9544..333.46999999999********7777777 PP

                              HHH...HH--.EEEEES-HHHHHHHHHHHHHTT-GGGEEEEE--GGG--STTS---EEEE----------HHHHH CS
                  UPF0020  72 ear...aelk.lygsDldrrvvqgareNaekagvgdliefsqadaakLrlkegevdvivtnpPYGerlgskkale 142
                              +++   +  k + g++ +++vv++a +N e ++++  ie+ +  ++  ++ + +  v++ npPYG+r+g+ ++ e
  PHY93_04190|PHY93_04190 263 KEKsllEPFKeFLGFEVNPEVVKQALKNCEGTKIK--IEAGD-LFQGAPQIN-NHSVVIINPPYGIRVGERGSGE 333
                              77744533337*****************9977654..44444.233344233.4567************998764 PP

>> AviRa  RRNA methyltransferase AviRa
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.2   0.0   1.3e-05     0.046      31     188 ..     189     334 ..     172     353 .. 0.70

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.3e-05
                    AviRa  31 PvR..lasEilqralellekkeegapltlyDpCCGgayLltvlgllhgkkikkv.lasDvdeevlelakkNLsLLtkeglakreee 113
                              P+R  la  +l   ++++ +++++a++tl Dp CG++ +l     l +++ ++v ++ D++     +a +  ++L k  l+k+e++
  PHY93_04190|PHY93_04190 189 PIResLAALLLRELQSHM-RTTDAATYTLIDPMCGSGTFL-----LEAHESNAVtTGRDFSYLHTPVAFDDKTILKK--LEKKEKS 266
                              555445555555555566.5555599**********9664.....33333333315888888888899999999865..9999999 PP

                    AviRa 114 lrelaeeyekeshaealesaerleellakkgeekeievfkaditekeeeaekevdivitDlPYGelvswqgesee 188
                              l e ++e+            e +++ l k+ e ++i++ + d+++  ++ + +  +vi   PYG  v  +g+ ee
  PHY93_04190|PHY93_04190 267 LLEPFKEFLGFEV-----NPEVVKQAL-KNCEGTKIKIEAGDLFQGAPQIN-NHSVVIINPPYGIRVGERGSGEE 334
                              9998888854332.....223455666.5666778899999***6665555.6999999*****99887776544 PP

>> N6_Mtase  N-6 DNA Methylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.7   0.0   7.6e-06     0.027      49     138 ..     215     325 ..     198     349 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 7.6e-06
                 N6_Mtase  49 svyDpacGsggllvqaekvlkee........................dgktkelsiy.......GqeknettyrLakmNlllhgie 103
                              + +Dp cGsg +l++a++    +                        +   ke+s+        G e+n++ ++ a     l++ e
  PHY93_04190|PHY93_04190 215 TLIDPMCGSGTFLLEAHESNAVTtgrdfsylhtpvafddktilkkleK---KEKSLLepfkeflGFEVNPEVVKQA-----LKNCE 292
                              589*************98644447899**********99999996642...3333333335666999999988765.....77789 PP

                 N6_Mtase 104 ykkvkirlgdtlekpkfekdkkfdvvvaNppfnqk 138
                                k+ki+ gd ++   +   ++  vv+ Npp++++
  PHY93_04190|PHY93_04190 293 GTKIKIEAGDLFQGAPQI--NNHSVVIINPPYGIR 325
                              9999999***99865555..68899*******986 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   0.0    0.0035        13       4      33 ..     213     239 ..     210     244 .. 0.75
   2 ?    7.5   0.0   0.00091       3.3      27      68 ..     270     309 ..     256     349 .. 0.84

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.0035
          Methyltransf_31   4 glrvlDlGCGtGeltfelaeelgpkaevvG 33 
                              +++++D+ CG+G++++e++e   ++a  +G
  PHY93_04190|PHY93_04190 213 TYTLIDPMCGSGTFLLEAHE---SNAVTTG 239
                              5789**************95...2444455 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.00091
          Methyltransf_31  27 pkaevvGiDiseeaielArenaqklgldnveFeqgdiee.lek 68 
                              p +e+ G++ ++e++++A +n++  g   ++ e+gd ++ +++
  PHY93_04190|PHY93_04190 270 PFKEFLGFEVNPEVVKQALKNCE--GT-KIKIEAGDLFQgAPQ 309
                              55789****************88..44.366888888877764 PP

>> IlvGEDA_leader  IlvGEDA operon leader peptide
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.4   0.0      0.22     8e+02      18      24 ..     216     222 ..     215     224 .. 0.84
   2 ?    9.0   0.4   0.00026      0.94      16      30 ..     315     329 ..     314     330 .. 0.89

  Alignments for each domain:
  == domain 1  score: -0.4 bits;  conditional E-value: 0.22
           IlvGEDA_leader  18 IIiPlCG 24 
                               I P+CG
  PHY93_04190|PHY93_04190 216 LIDPMCG 222
                              599**** PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.00026
           IlvGEDA_leader  16 VVIIiPlCGvALGRR 30 
                              VVII+P+ G+  G R
  PHY93_04190|PHY93_04190 315 VVIINPPYGIRVGER 329
                              9********998876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (394 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       475  (0.0264934); expected 358.6 (0.02)
Passed bias filter:                      447  (0.0249317); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.57u 0.23s 00:00:00.80 Elapsed: 00:00:00.42
# Mc/sec: 2808.66
//
Query:       PHY93_04195|PHY93_04195  [L=397]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.8e-19   68.8   0.0    7.5e-19   67.8   0.0    1.4  1  Peptidase_U32  Peptidase family U32
  ------ inclusion threshold ------
      0.087   12.9   1.0       0.19   11.8   1.0    1.6  1  DUF2603        Protein of unknown function (DUF2603)


Domain annotation for each model (and alignments):
>> Peptidase_U32  Peptidase family U32
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.8   0.0   8.4e-23   7.5e-19      10     192 ..      88     267 ..      82     275 .. 0.87

  Alignments for each domain:
  == domain 1  score: 67.8 bits;  conditional E-value: 8.4e-23
            Peptidase_U32  10 klaelgvdavivqDpgvlelareeapelelhlStqanitnseavrflkel...GasrvvlaRElsleeikaikekvpdvelEvfvh 92 
                              +l   +  a+ vqDpg++e++++++p l++ l  +   +n  ++  ++e+    ++r+vl+ Els e +++ ++ +  + lEv+ +
  PHY93_04195|PHY93_04195  88 RLPLHDFKAIRVQDPGAVEYIKHIYPWLKIQLILENGNHNLIGLTKWSEYlgkQCERLVLSNELSREMLRDYAKVL-TIPLEVLAF 172
                              5555677899***********************************9999985559*********************.********* PP

            Peptidase_U32  93 GalcvaysGrcllssylsgrsanrgecaqpcrldyrlieekekgeeepieedekgtyllspkdlclieelpelleaGvdslKIeGR 178
                              G + ++ys r+lls +       + +  ++   + +  +e+ + +  p  e+ +gt++++ kdl l+++l+e+ e+G+++ +++ R
  PHY93_04195|PHY93_04195 173 GRILLFYSPRKLLSPL-------EKKNIESKSIEASGSSEESPHSGFPLIENTHGTFMFNVKDLYLLDHLDEIREMGIEHQRVDLR 251
                              ****************.......3333444444444557888899999999********************************999 PP

            Peptidase_U32 179 mks..peyvatvvrvY 192
                                +   +y+++v +++
  PHY93_04195|PHY93_04195 252 FDEsfDNYAESVFNLF 267
                              8876667777777666 PP

>> DUF2603  Protein of unknown function (DUF2603)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   1.0   2.1e-05      0.19      25      86 ..      17      75 ..       1      77 [. 0.71

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 2.1e-05
                  DUF2603 25 neklLelkkGsleskepwfvideedkkyvllpeellsklvellkkakeerlelkLEkdilqq 86
                              ekl++lk  +l+s+ p  +i    ++ +  ++++l++++el ++ak++++e+ LE d l+q
  PHY93_04195|PHY93_04195 17 LEKLIVLK--ALHSETPVEIIVGAREL-TRYSKTSLEEMLELTQQAKKNNFEVVLEWDALNQ 75
                             56666666..45666666666555555.67899***********************987765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (397 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       647  (0.0360868); expected 358.6 (0.02)
Passed bias filter:                      498  (0.0277762); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.41
# Mc/sec: 2918.49
//
Query:       PHY93_04200|PHY93_04200  [L=401]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.3e-74  248.3   0.1    7.2e-74  247.9   0.1    1.1  1  Peptidase_U32    Peptidase family U32
      6e-06   26.4   0.0    1.9e-05   24.8   0.0    1.9  2  Peptidase_U32_C  Peptidase family U32 C-terminal domain


Domain annotation for each model (and alignments):
>> Peptidase_U32  Peptidase family U32
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  247.9   0.1     8e-78   7.2e-74       1     229 [.      77     302 ..      77     305 .. 0.93

  Alignments for each domain:
  == domain 1  score: 247.9 bits;  conditional E-value: 8e-78
            Peptidase_U32   1 leklrkyleklaelgvdavivqDpgvlelareeapelelhlStqanitnseavrflkelGasrvvlaRElsleeikaikekvpdve 86 
                              le+l ++l  l+el+vdaviv+D+gv++ ++++  +l +hlStqa++ n e++++++++Ga+r+vl RE++++e ++ik ++ ++e
  PHY93_04200|PHY93_04200  77 LEELPEFLGLLEELKVDAVIVSDLGVIATLQKH-SKLVVHLSTQASCLNIESAKLWQKMGAQRIVLGREVTIKEAAKIKMAT-GLE 160
                              578999999********************9999.9***********************************************.*** PP

            Peptidase_U32  87 lEvfvhGalcvaysGrcllssylsgrsanrgecaqpcrldyrlieekekgeeepieedekgtyllspkdlclieelpelleaGvds 172
                              +E+fvhG++c+++sG+c++s+y +gr+ nrg ca++cr++y++  ++ ++e      d k +y++s+kdl +i+ lpe++eaG+ds
  PHY93_04200|PHY93_04200 161 IEMFVHGSMCMSFSGNCVISNYTQGRDSNRGGCAHSCRFEYSIDFKNGSNES----SDLKKAYFMSSKDLEGIRMLPEFIEAGIDS 242
                              ******************************************5555554444....466789************************ PP

            Peptidase_U32 173 lKIeGRmkspeyvatvvrvYreaidallagr...eevkeelkeeleklanrgltsgfllg 229
                              lK+eGR ks +y++t+ +vY ea+  + ++    ++    ++eel+k+++r++t+g l++
  PHY93_04200|PHY93_04200 243 LKVEGRNKSHHYAGTISKVYSEALRYYQSHGnflSSDMLVWEEELRKVSHRDYTTGSLDE 302
                              ****************************999776666669****************8875 PP

>> Peptidase_U32_C  Peptidase family U32 C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.9   0.0         2   1.8e+04      33      49 ..       7      23 ..       7      27 .. 0.77
   2 !   24.8   0.0   2.1e-09   1.9e-05       2      82 .]     319     398 ..     318     398 .. 0.94

  Alignments for each domain:
  == domain 1  score: -3.9 bits;  conditional E-value: 2
          Peptidase_U32_C 33 EvltPkgenveftveel 49
                             E+l+P g+  +++v  l
  PHY93_04200|PHY93_04200  7 ELLSPAGSLEKLKVSVL 23
                             89999998888888766 PP

  == domain 2  score: 24.8 bits;  conditional E-value: 2.1e-09
          Peptidase_U32_C   2 eydfvGevlsydeeglaeveqRNkfsvGdelEvltPkgenveftveelydedgeeievaphpgqkvkiklpvelepgdilR 82 
                              ey + G+vl++  ++ + v+++  f  Gd lEv+   g+  +++v+ l    g ++e+  +pg  vki+ ++ +e++ i+R
  PHY93_04200|PHY93_04200 319 EYVVSGIVLEASVGQHLLVDVKSAFHPGDILEVMPFIGQTEKLKVDFLKSLSGVSLEKS-KPGSVVKIPYQAGAEKFNIIR 398
                              68889****777777*******************99***********************.9********9999*******9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (401 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       525  (0.0292822); expected 358.6 (0.02)
Passed bias filter:                      446  (0.0248759); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.40
# Mc/sec: 3032.38
//
Query:       PHY93_04205|PHY93_04205  [L=376]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    0.00072   19.5   0.1     0.0049   16.9   0.0    2.5  2  TPR_2       Tetratricopeptide repeat
     0.0023   18.0   0.1      0.012   15.7   0.1    2.3  1  TPR_8       Tetratricopeptide repeat
     0.0096   15.7   0.1      0.072   12.9   0.0    2.4  2  TPR_1       Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.012   15.0   0.0      0.019   14.4   0.0    1.3  1  DUF5040     Domain of unknown function (DUF5040)
      0.081   13.0   0.2       0.44   10.6   0.0    2.2  2  MGDG_synth  Monogalactosyldiacylglycerol (MGDG) synthase


Domain annotation for each model (and alignments):
>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.1      0.97   3.5e+03      11      20 ..     253     262 ..     252     263 .. 0.86
   2 !   16.9   0.0   1.4e-06    0.0049       2      28 ..     278     304 ..     277     310 .. 0.89

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.97
                    TPR_2  11 yyklgdyeeA 20 
                              ++k g++++A
  PHY93_04205|PHY93_04205 253 LLKEGNFKKA 262
                              6799****99 PP

  == domain 2  score: 16.9 bits;  conditional E-value: 1.4e-06
                    TPR_2   2 ealynlGlayyklgdyeeAleafekAl 28 
                                 y lG+a + lgd++ A+e f+kA 
  PHY93_04205|PHY93_04205 278 LSFYLLGQASMGLGDLAMARESFQKAT 304
                              5689*********************96 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.1   3.4e-06     0.012       3      27 ..     279     303 ..     277     304 .. 0.93

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 3.4e-06
                              HHHHHHHHHHHTT-HHHHHHHHHHH CS
                    TPR_8   3 ayynlgsiylklgdyeeAkeyyeka 27 
                              + y+lg++ + lgd+ +A e+++ka
  PHY93_04205|PHY93_04205 279 SFYLLGQASMGLGDLAMARESFQKA 303
                              679*********************9 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.1      0.36   1.3e+03      11      20 ..     253     262 ..     251     264 .. 0.85
   2 !   12.9   0.0     2e-05     0.072       1      27 [.     277     303 ..     277     307 .. 0.93

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.36
                              HHHTT-HHHH CS
                    TPR_1  11 yfklgkydeA 20 
                              ++k g++++A
  PHY93_04205|PHY93_04205 253 LLKEGNFKKA 262
                              6899*****9 PP

  == domain 2  score: 12.9 bits;  conditional E-value: 2e-05
                              HHHHHHHHHHHHHTT-HHHHHHHHHHH CS
                    TPR_1   1 akalynlGnayfklgkydeAleyyekA 27 
                              a ++y lG+a + lg++  A e ++kA
  PHY93_04205|PHY93_04205 277 ALSFYLLGQASMGLGDLAMARESFQKA 303
                              5679**********************9 PP

>> DUF5040  Domain of unknown function (DUF5040)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0   5.2e-06     0.019     130     169 ..     302     340 ..     295     368 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 5.2e-06
                  DUF5040 130 pavivlctdwhdartvynesirklaakwglplvefdryig 169
                               a++  ct+w    +vyn+ ++  a+k  + l++fd+y+ 
  PHY93_04205|PHY93_04205 302 KATVFDCTHWRG-NAVYNSIMKSTAKKRQVTLIDFDQYMA 340
                              688899****85.68***********************86 PP

>> MGDG_synth  Monogalactosyldiacylglycerol (MGDG) synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   0.00012      0.44      51     101 ..     178     227 ..     158     236 .. 0.83
   2 ?   -2.4   0.0       1.3   4.5e+03      95     119 ..     308     332 ..     290     340 .. 0.70

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00012
                              ---------------------------HHHHHHHHHHH--SEEEE-STTTT CS
               MGDG_synth  51 alyrllyygteekiqkksilaklatflakelaalleeeqPDiiisthplva 101
                              + y+  + +t+ ki +k+ ++kl+ + ++el++l+++++ ++i+ t pl  
  PHY93_04205|PHY93_04205 178 KEYQNRLPSTS-KILEKEVSFKLFDYELRELIDLVKDKKSNLILITTPLNL 227
                              56666666655.9*********************************99854 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 1.3
                              E-STTTTHHHHHHHHTTT-TTTSEE CS
               MGDG_synth  95 sthplvaelplsvLkskellkrvlv 119
                              +th+ + ++  s++ks  ++ +v++
  PHY93_04205|PHY93_04205 308 CTHWRGNAVYNSIMKSTAKKRQVTL 332
                              6777777776666677666655543 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (376 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       722  (0.04027); expected 358.6 (0.02)
Passed bias filter:                      532  (0.0296726); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.41
# Mc/sec: 2735.75
//
Query:       PHY93_04210|PHY93_04210  [L=147]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.4e-16   58.2   0.0    9.7e-16   57.6   0.0    1.3  1  cNMP_binding  Cyclic nucleotide-binding domain


Domain annotation for each model (and alignments):
>> cNMP_binding  Cyclic nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.6   0.0   5.4e-20   9.7e-16       3      83 ..       9      88 ..       7      91 .. 0.91

  Alignments for each domain:
  == domain 1  score: 57.6 bits;  conditional E-value: 5.4e-20
                             EE-TT-EEE-TTSB-SEEEEEEES-EEEEEEETTS.E.EEEEEE-TTEEESHHHHHHTS--SSEEEESSTEEEEEEEHHHHH CS
             cNMP_binding  3 sfkagevifrqGdpadslyivlsGevrvyrlsedgke.vvlavlgpGdlfGelalltgeprtatvvAltdsellalprddfl 83
                              +k+++++f + ++ + lyiv++G+v v+   + g e   +a+lg+G+++Gel++++++ r+a+++ l+dse ++++  +++
  PHY93_04210|PHY93_04210  9 ALKKDDILFLAEEKDNDLYIVQKGKVMVF--VQKGSEiIPVAYLGKGEYIGELSFFDNDARSASIICLEDSEFIKISTTEMN 88
                             589*************************6..66666657999**********************************988876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (147 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       460  (0.0256568); expected 358.6 (0.02)
Passed bias filter:                      382  (0.0213063); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 1093.65
//
Query:       PHY93_04215|PHY93_04215  [L=62]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (62 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       420  (0.0234257); expected 358.6 (0.02)
Passed bias filter:                      282  (0.0157287); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.20s 00:00:00.60 Elapsed: 00:00:00.39
# Mc/sec: 480.33
//
Query:       PHY93_04220|PHY93_04220  [L=328]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.7e-34  119.1   0.2    2.6e-34  118.6   0.2    1.2  1  Ldh_1_C   lactate/malate dehydrogenase, alpha/beta C-terminal
    5.6e-33  114.0   0.1    8.9e-33  113.3   0.1    1.3  1  Ldh_1_N   lactate/malate dehydrogenase, NAD binding domain


Domain annotation for each model (and alignments):
>> Ldh_1_C  lactate/malate dehydrogenase, alpha/beta C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  118.6   0.2   2.9e-38   2.6e-34       1     165 [.     158     326 ..     158     327 .. 0.93

  Alignments for each domain:
  == domain 1  score: 118.6 bits;  conditional E-value: 2.9e-38
                              THHHHHHHHHHHHHHHTS.-GGGEE--EEBSSST........ETTEEHHHHHTTSTTSTHHHHHHHHHHHHHHHHHHHHHHTTSSS CS
                  Ldh_1_C   1 TtLDivRaktflaekagv.tprsvkvtViGgHsg........vtiipllsqvkellklsekqleeliervqnggdevvkakkGags 77 
                              T LD +Rakt+la+kagv  ++  ++ ++G+Hs          +i ++   + e + ++e+ ++++ie+vq++g++v+ka+    s
  PHY93_04220|PHY93_04220 158 TMLDENRAKTQLAQKAGVdVTAITNMAIWGNHSAtqypdfytAKINGK--SASEVITDTEWLKTTFIETVQKRGAAVIKARG--LS 239
                              89****************777778****************86555555..778889*************************6..** PP

                              S-HHHHHHHHHHHHHHHTTH..TEEEEEEEEEESCCCECCSSEEEEEEEEEEETTEEEEE-------HHHHHHHHHHHHHHHHHHH CS
                  Ldh_1_C  78 atlsmAvAgakfveallrdt..keilsagvyldgevglkdqeieyfsvPvvlgknGvekvleilklndfeeekleksvkeLkkeie 161
                              +++s+A+A+++ + al ++t  ++ +s+   +dg++g+++    +fs+P++l  nG  +v++++k ndf++ek++ + +eL++e +
  PHY93_04220|PHY93_04220 240 SAASAANAVVDGIFALTHETktGNTFSMCLASDGQYGVDKG--LIFSFPCTLV-NGKLSVVDGIKHNDFSMEKFNLTLNELRSERD 322
                              ***********999999998888999**************8..9*********.******************************99 PP

                              HHHC CS
                  Ldh_1_C 162 kgle 165
                              +++e
  PHY93_04220|PHY93_04220 323 TVKE 326
                              9876 PP

>> Ldh_1_N  lactate/malate dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  113.3   0.1     1e-36   8.9e-33       1     135 [.       7     149 ..       7     154 .. 0.94

  Alignments for each domain:
  == domain 1  score: 113.3 bits;  conditional E-value: 1e-36
                              EEEEEETTTSHHHHHHHHHHHHT.TSSSE....EEEE-SSHH..HHHHHHHHHHHCHCCSTS-EEEEESSGGGGTTESEEEE--S- CS
                  Ldh_1_N   1 vkvavvGaaGgiGqslalllank.klade....laLlDiake..kleGvaldlshistflsvkvkvsekeeealkdadvvvitagv 79 
                              vkvav+GaaG+iG++l++ +a+  +++ e    l+L++++ +  +l+Gva++l++++++l+ k+  +++    + ++++++++++v
  PHY93_04220|PHY93_04220   7 VKVAVTGAAGQIGYALLFRIASVqMFGPEteveLQLIELEAAipALKGVAMELEDCAFPLLKKIVCTSDYAVGFGNVNWAILVGSV 92 
                              69*******************986888888999*******9999****************9999999999999************* PP

                              SS-TTTTHHHHHHHHHHHHHHHHHHHHHHT.TTSEEEE-SSSHHHHHHHHHHHHTS- CS
                  Ldh_1_N  80 prkpGetRddLlkvNakIvkeiveaiakva.pnaivlvvsNPvdiltevlkkasglp 135
                              prk+G++R+dLlk+N +I++++++aia++a +++ + vv+NP+++++ ++ +a++ +
  PHY93_04220|PHY93_04220  93 PRKDGMERADLLKINGGIFTTQGQAIAANAaKDVRIFVVGNPCNTNALICMNAAKGI 149
                              ***************************9999*******************9998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (328 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       564  (0.0314574); expected 358.6 (0.02)
Passed bias filter:                      467  (0.0260472); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.23s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 2449.62
//
Query:       PHY93_04225|PHY93_04225  [L=263]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.059   13.3   0.1       0.14   12.0   0.1    1.6  1  SF3a60_bindingd  Splicing factor SF3a60 binding domain
        1.9    8.4  10.8        1.8    8.5  10.8    1.1  1  TFIIA            Transcription factor IIA, alpha/beta subunit
        8.8    5.9  23.4         34    4.0  20.2    2.7  2  Spt20            Spt20 family


Domain annotation for each model (and alignments):
>> SF3a60_bindingd  Splicing factor SF3a60 binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.1   2.4e-05      0.14      10      21 ..     175     186 ..     174     186 .. 0.95

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 2.4e-05
          SF3a60_bindingd  10 eFYkrLkeIKdy 21 
                              +FY+ L++I+d+
  PHY93_04225|PHY93_04225 175 NFYNTLNDIRDF 186
                              8**********9 PP

>> TFIIA  Transcription factor IIA, alpha/beta subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.5  10.8    0.0003       1.8     137     242 ..       6     126 ..       1     247 [. 0.55

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.0003
                    TFIIA 137 asgqlykvnv...qasgaqqiaaqplqqvvqq.sqgsaaqssvaalqaq..sqqaqalaepqqqlekq.............qqqqq 203
                              asg+++ +     ++++ +++ +q+   + q  + g++ q++  + q+q  s+q ++ ++p qq++ q              ++q 
  PHY93_04225|PHY93_04225   6 ASGNNNDTRPpasNNPNNNSRRNQNSRRRPQGgGGGPRPQQQQGQAQPQgqSPQGSGGPRPPQQQQGQgrppgqspqggggPRPQL 91 
                              44433333223333344444444444444343433333333333333332122323333333332222333322222345533333 PP

                    TFIIA 204 qqqqqqqqq.qvqqqqqeesqqaqqasqeqvagsqvessq 242
                              qqq q+ q    q+   +++++++++++     ++++++q
  PHY93_04225|PHY93_04225  92 QQQGQNPQGgGGQRRRPNRNSNRPRNPN-----PGANPNQ 126
                              3434443332222222222222222212.....2222222 PP

>> Spt20  Spt20 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.0  20.2    0.0056        34     113     209 ..      46     178 ..       3     198 .. 0.68
   2 ?   -0.7   0.1      0.15   8.7e+02      24      53 ..     234     263 .]     227     263 .] 0.91

  Alignments for each domain:
  == domain 1  score: 4.0 bits;  conditional E-value: 0.0056
                    Spt20 113 nqqqqqqqqqqqqqqqq.......................................qqeqqqqqnekdsttteekekksksknnss 159
                              +qq q+q+q q++   q                                       q    q    +++++   + ++  ++n+++
  PHY93_04225|PHY93_04225  46 QQQGQAQPQGQSP---QgsggprppqqqqgqgrppgqspqggggprpqlqqqgqnpQGGGGQRRRPNRNSNRPRNPNPGANPNQNI 128
                              1111111111111...1222333333334567788888889999999887777666777777777788888888889999999999 PP

                    Spt20 160 ksktttkkpkvyrtLLrptpqslladlqllastsrlsdedylelEselll 209
                              + ++ +++ ++y   L+ ++q+l a  +++    r ++  + +lE ++++
  PHY93_04225|PHY93_04225 129 NGPQGINIERIYEKYLNLLDQHLIARRKYHDLFFRADPGQKNKLERNFYN 178
                              99*********************998777765555555566666665555 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.15
                    Spt20  24 hfrfslklnlqsqekkkensseslrlpyns 53 
                              hf++s +l ++  +k++ + s +  l+y++
  PHY93_04225|PHY93_04225 234 HFTYSQQLADYAGDKEESTGSLDDYLKYKN 263
                              9***************99999999999987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (263 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       618  (0.0344693); expected 358.6 (0.02)
Passed bias filter:                      358  (0.0199677); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.42
# Mc/sec: 1898.25
//
Query:       PHY93_04230|PHY93_04230  [L=102]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-06   28.6   0.0    1.8e-06   27.9   0.0    1.4  1  HTH_3     Helix-turn-helix
    0.00025   21.0   0.0    0.00041   20.3   0.0    1.3  1  HTH_19    Helix-turn-helix domain
  ------ inclusion threshold ------
      0.065   12.4   0.0      0.067   12.4   0.0    1.1  1  CofC      Guanylyl transferase CofC like
      0.094   13.1   0.0       0.12   12.7   0.0    1.2  1  HTH_31    Helix-turn-helix domain


Domain annotation for each model (and alignments):
>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.9   0.0     4e-10   1.8e-06       1      55 []      11      68 ..      11      68 .. 0.96

  Alignments for each domain:
  == domain 1  score: 27.9 bits;  conditional E-value: 4e-10
                             HHHHHH..HTTHHHHHHHHHHT.SSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHHHH CS
                    HTH_3  1 lkelRk..qlglsqeeLAeklG.vsrstisriEnGernPsletlkklakaLgvsldel 55
                             ++ +R    +++sq +L+ +lG    + is+ E+G  n  l+++k+++++L++ +del
  PHY93_04230|PHY93_04230 11 IRSKRIghPKNYSQSDLSLLLGyKNGQFISNVERGLCNVPLKMMKRISEVLDINPDEL 68
                             788899999***********************************************98 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.3   0.0   9.2e-08   0.00041      11      59 ..      20      68 ..      18      74 .. 0.92

  Alignments for each domain:
  == domain 1  score: 20.3 bits;  conditional E-value: 9.2e-08
                   HTH_19 11 lgltqeelaerlgis.rskisaiEngkkdvpsaelllkiaealgidleyl 59
                             ++++q +l+  lg     +is+ E g  +vp  +++++i+e l+i++++l
  PHY93_04230|PHY93_04230 20 KNYSQSDLSLLLGYKnGQFISNVERGLCNVP-LKMMKRISEVLDINPDEL 68
                             79*************9**********87466.6***************98 PP

>> CofC  Guanylyl transferase CofC like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   1.5e-05     0.067      37      82 ..      42      87 ..      11      95 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 1.5e-05
                     CofC 37 vidalkrldvlvvsedeevleyaldelgvevvkekekdlntaveka 82
                             v   l ++ + ++ ++ evl+ + del++ ++k++e+ l +  +ka
  PHY93_04230|PHY93_04230 42 VERGLCNVPLKMMKRISEVLDINPDELKAAILKDHEETLTNYFNKA 87
                             55566667788999***************************99998 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   2.7e-05      0.12      15      62 ..      22      69 ..       9      71 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 2.7e-05
                   HTH_31 15 LsqeevAerlgv.sestlsrlEqGrrgrpspavlealaralgldpaera 62
                              sq ++  +lg+     +s +E+G + ++++    ++ ++l+  p+e+ 
  PHY93_04230|PHY93_04230 22 YSQSDLSLLLGYkNGQFISNVERGLC-NVPLKMMKRISEVLDINPDELK 69
                             57888888888767899*********.599*************999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (102 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       623  (0.0347482); expected 358.6 (0.02)
Passed bias filter:                      479  (0.0267165); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.42u 0.24s 00:00:00.65 Elapsed: 00:00:00.41
# Mc/sec: 745.26
//
Query:       PHY93_17295|PHY93_17295  [L=323]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.6e-30  106.1   0.1      2e-30  105.8   0.1    1.1  1  3Beta_HSD        3-beta hydroxysteroid dehydrogenase/isomeras
    1.5e-29  103.1   0.0    2.2e-29  102.6   0.0    1.2  1  Epimerase        NAD dependent epimerase/dehydratase family
    4.6e-21   75.1   0.1    9.5e-12   44.6   0.0    2.2  2  NAD_binding_4    Male sterility protein
    5.2e-21   75.4   0.0    7.1e-21   74.9   0.0    1.3  1  NAD_binding_10   NAD(P)H-binding
    7.9e-16   58.4   0.0    1.8e-15   57.2   0.0    1.6  1  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
    3.9e-15   55.8   0.1    2.8e-10   39.8   0.1    3.3  3  Polysacc_synt_2  Polysaccharide biosynthesis protein
      5e-14   52.4   0.1    2.7e-12   46.7   0.0    2.1  2  NmrA             NmrA-like family
      5e-10   39.0   0.1    1.2e-08   34.5   0.0    2.4  2  RmlD_sub_bind    RmlD substrate binding domain
    1.5e-06   28.3   0.3      4e-06   26.8   0.3    1.7  1  KR               KR domain
    2.8e-06   26.9   0.2    2.8e-05   23.7   0.1    2.4  2  adh_short        short chain dehydrogenase
    0.00011   22.3   1.6    0.00019   21.5   0.1    2.2  3  Ldh_1_N          lactate/malate dehydrogenase, NAD binding do
  ------ inclusion threshold ------
      0.014   15.5   0.1      0.059   13.5   0.0    2.0  3  DapB_N           Dihydrodipicolinate reductase, N-terminus
       0.05   13.9   0.0       0.14   12.5   0.0    1.9  1  TrkA_N           TrkA-N domain


Domain annotation for each model (and alignments):
>> 3Beta_HSD  3-beta hydroxysteroid dehydrogenase/isomerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  105.8   0.1   1.4e-33     2e-30       1     231 [.       4     221 ..       4     245 .. 0.87

  Alignments for each domain:
  == domain 1  score: 105.8 bits;  conditional E-value: 1.4e-33
                3Beta_HSD   1 vvtGgaGFlGralvkeLvrleelkevrvlDlrespelleelskvnvkkviegDvtdkdkleealegvdvvihlaslvdvagklted 86 
                              +vtG++GFlG++lvk+L++ +      vl l+ +++ l++l+++n + v+ gD++d ++l    eg d v+h+a+++ +     ++
  PHY93_17295|PHY93_17295   4 LVTGASGFLGSYLVKALLEQK----FEVLALVRNSSELDSLKNLNCQ-VVIGDILDLQSLLPHFEGLDGVFHVAGAMSSSP-KDRQ 83 
                              69****************988....4677777777777*********.*************************99988877.6677 PP

                3Beta_HSD  87 eimkvnvkGTrnvleacvkagvrvlvYtSsaevvgpnslgeeilngdEeleyeslhqdaypesKalaEklvlkaNgrtlknggrly 172
                              ++ +vnv+G +n+++ac+++++++lv++Ss+ +vg n ++ + l  + + ++ +       +sK+l E+lvl+a        ++l+
  PHY93_17295|PHY93_17295  84 RLFEVNVEGVKNIISACTQKNIKKLVHVSSVVAVGSNLKSSDPLLTESSINITKDRGFGNYDSKRLGEELVLAAAK-----KAQLN 164
                              7************************************9877666688888888888888889************99.....668** PP

                3Beta_HSD 173 TcaLRpagiyGegdkllvpllkqlaklglalfkigdeevlsdrvYvgNvawahilAara 231
                               + + p  iyG gd +   +  +++  + +l  + +  v  + v v+ v+  +i A ++
  PHY93_17295|PHY93_17295 165 AVVVNPGLIYGAGDAKKIIRHGNVLAAKGKLPLYPSGGV--NIVAVEDVTAGIIEAFKK 221
                              **************9999888888888877777766666..778888888888777765 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  102.6   0.0   1.6e-32   2.2e-29       1     238 [.       3     228 ..       3     231 .. 0.85

  Alignments for each domain:
  == domain 1  score: 102.6 bits;  conditional E-value: 1.6e-32
                              EEEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHCEEEE--TT-HHHHHHHHHHHT-SEEEE--S---HHHHHHSHHH CS
                Epimerase   1 ilVtGatGfiGsalvkallekgyevigldrlssasntarledlelveldltdrsalerlfkeeqpdavihlAavggvaassedpad 86 
                              +lVtGa+Gf+Gs+lvkalle++ ev++l r+ss+  + ++ + ++v +d++d ++l   f+  + d v+h+   g  + s +d+++
  PHY93_17295|PHY93_17295   3 VLVTGASGFLGSYLVKALLEQKFEVLALVRNSSELDSLKNLNCQVVIGDILDLQSLLPHFE--GLDGVFHV--AGAMSSSPKDRQR 84 
                              79*****************************777776666666******************..9*******..5688888899*** PP

                              HHHHHTHHHHHHHHHHHHHTCTEEEEEEEGGGGTSCSS..SS..BSTCSTTS----SSHHHHHHHHHHHHHHHHHHHHT-EEEEEE CS
                Epimerase  87 fieknlqgtlnlleaarkagvkrllflsSsevYGkdae..qp..keettltgplkpnspYaaaKlageklveayaaqyglnaiilr 168
                              ++e n++g+ n+++a+ ++++k+l+++sS+   G + +   p  +e++++ ++ +    Y  +K++ge+lv a+a++ +lna++++
  PHY93_17295|PHY93_17295  85 LFEVNVEGVKNIISACTQKNIKKLVHVSSVVAVGSNLKssDPllTESSINITKDRGFGNYD-SKRLGEELVLAAAKKAQLNAVVVN 169
                              ******************************9999888853479777777677779999999.************************ PP

                              ESEEESTTS-TTSTTSHHHHHHHHHHTTSSSEEEETTST-EEEEEEHHHHHHHHHHHHHHHTT-STTEEE CS
                Epimerase 169 lfnlyGprngegevsrvipalirkilegkqevtllgdgtalRdflyveDvaeaillvlehvdagdkgeiy 238
                              +  +yG++     ++++i +  + ++++  ++ l+ +g      + veDv  +i+ + ++   g++ge y
  PHY93_17295|PHY93_17295 170 PGLIYGAG-----DAKKIIRHGNVLAAKG-KLPLYPSGGV--NIVAVEDVTAGIIEAFKK---GKNGERY 228
                              ********.....5555554444444444.5888877766..688888888888888888...6666655 PP

>> NAD_binding_4  Male sterility protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.7   0.0   5.1e-10   7.1e-07       1      43 [.       5      45 ..       5      58 .. 0.88
   2 !   44.6   0.0   6.9e-15   9.5e-12      86     216 ..      63     178 ..      53     223 .. 0.76

  Alignments for each domain:
  == domain 1  score: 28.7 bits;  conditional E-value: 5.1e-10
                             EE-TTSHHHHHHHHHHHHHS-.TEEEEEE-SSSHHHHHHHHHH CS
            NAD_binding_4  1 lTGaTGFLGkvLlekLLrttpevkiyllvRaksgesaeeRlee 43
                             +TGa+GFLG++L++ LL+++   ++ +lvR++s+ + ++ l+ 
  PHY93_17295|PHY93_17295  5 VTGASGFLGSYLVKALLEQKF--EVLALVRNSSELDSLKNLNC 45
                             7*****************987..8*********9999888765 PP

  == domain 2  score: 44.6 bits;  conditional E-value: 6.9e-15
                              HH--EEEE--SS-S.ST.TSSEEHHHHHHHHHHHHHHHTSSS--.-EEEEEEGGGTTS-TTT--SSS-H......HHH--EEEETT CS
            NAD_binding_4  86 eevdviihsaAtvnfde.pykellrvNveGtrevlelakklkklkvllhvSTayvngeregeveekvyeegekeekldederaklk 170
                              e +d ++h+a+ ++    + ++l++vNveG++++++ +++ + +  l+hvS+ ++ g + +  ++ ++        +++ + +k++
  PHY93_17295|PHY93_17295  63 EGLDGVFHVAGAMSSSPkDRQRLFEVNVEGVKNIISACTQKNIK-KLVHVSSVVAVGSNLK-SSDPLLT-------ESSINITKDR 139
                              66899****9999877637888*****************77666.*******666666663.3445554.......7888888888 PP

                              TCCCHHHHHHHHHHHHHHHHHHHH---EEEEEE-EEE--SSST--- CS
            NAD_binding_4 171 glpntYeqsKalaEklvrearrrsglpvvivRpsiitgesktGwin 216
                              g+ n    sK l+E+lv +a+++ +l++v+v p+ i+g     + +
  PHY93_17295|PHY93_17295 140 GFGN--YDSKRLGEELVLAAAKKAQLNAVVVNPGLIYG-----AGD 178
                              8887..48****************************87.....333 PP

>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.9   0.0   5.1e-24   7.1e-21       1     149 [.       7     176 ..       7     221 .. 0.76

  Alignments for each domain:
  == domain 1  score: 74.9 bits;  conditional E-value: 5.1e-24
                              TTTSHHHHHHHHHHHHC-T-EEEEEETTHHHCHHHHCTTTCEEEE--TT-CCHHHHHHTT-SEEEES---TCC...HHHH...... CS
           NAD_binding_10   1 GAtGkvGrllvkellargghevtalvRnpeklaeleaeeglevvegdvtdvedlaealkgadaVvsalggggk...deeg...... 77 
                              GA+G  G++lvk ll++ ++ev alvRn+++l++l+ + +++vv gd++d ++l  +++g d V+  +g+ ++   d++       
  PHY93_17295|PHY93_17295   7 GASGFLGSYLVKALLEQ-KFEVLALVRNSSELDSLK-NLNCQVVIGDILDLQSLLPHFEGLDGVFHVAGAMSSspkDRQRlfevnv 90 
                              9****************.5***************97.8***************************999776666653333567777 PP

                              ..HHHHHHHHHHCT--EEEEEEETTT.TSGCGCHHHHHHHHCCHHH.......HHHHHHHHHHHHH....SSSEEEEEEE-CEE-S CS
           NAD_binding_10  78 ..aknivdaakeagvkRfvlvsaigv.gdevpgefgewnkellkay.......laakraaeellra....sgldwTivrpggLtde 149
                                +kni+ a+ ++++k++v vs++ + g + +++ + ++++ ++ +       ++ kr  eel+ a     +l+ ++v pg +   
  PHY93_17295|PHY93_17295  91 egVKNIISACTQKNIKKLVHVSSVVAvGSNLKSSDPLLTESSINITkdrgfgnYDSKRLGEELVLAaakkAQLNAVVVNPGLIYGA 176
                              77********************9755155444443333333222112223333799999999873334448999999999987654 PP

>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.2   0.0   1.3e-18   1.8e-15       1     322 [.       4     306 ..       4     314 .. 0.79

  Alignments for each domain:
  == domain 1  score: 57.2 bits;  conditional E-value: 1.3e-18
                              EEETTTSHHHHHHHHHHHHCT-CCEEEEEEESS-TTHHHHHCTTT...TTGCCEEEEE--TT-HHHHHHHHHHHT-SEEEE--S-- CS
            GDP_Man_Dehyd   1 LiTGiaGfiGsylaelLlekgyevhgivrrsssfntgriehlakdpkeeleenlklhkgDltDssslerllaevqpdevynLAAqs 86 
                              L+TG +Gf Gsyl++ Lle+++ev  +vr+ss++  +++++l          n +++ gD+ D +sl   ++    d v++ A+  
  PHY93_17295|PHY93_17295   4 LVTGASGFLGSYLVKALLEQKFEVLALVRNSSEL--DSLKNL----------NCQVVIGDILDLQSLLPHFEGL--DGVFHVAGA- 74 
                              9****************************99983..355554..........5789*******99999999987..9*****985. PP

                              -HHHHTTSHHHHHHHHTHHHHHHHHHHHHCT..TTSEEEEEEEGGGG-S-S..SSS.B-TT....S-----SHHHHHHHHHHHHHH CS
            GDP_Man_Dehyd  87 hVdvsfekPeytaevnvlGtlrLLeairalglekkvrfyqaStsEvYGkvq..evp.qtEt....tpfyPrsPYaaaKlyadwivv 165
                                + s ++ ++ +evnv G+ +++ a+ + ++   ++++++S+    G+    + p  tE+    t+ +    Y  +K   + +v 
  PHY93_17295|PHY93_17295  75 -MSSSPKDRQRLFEVNVEGVKNIISACTQKNI---KKLVHVSSVVAVGSNLksSDPlLTESsiniTKDRGFGNYD-SKRLGEELVL 155
                              .4578888899****************98766...59***********995233443699754444445555564.9********* PP

                              HHHHHH---EEEEEE-EEESTTS-TTSCCCHHHHHHHHHHTTS-C-EECTTTT-EEEEEEHHHHHHHHHHHHHCSS---EEE-TT- CS
            GDP_Man_Dehyd 166 nyreayglfavngilfnhesprrgetfvtrkitravarialgkqevlylGnldakRdwghvkDyveamwlmlqqdkpedyviatge 251
                              +  ++ +l av+ +    ++        ++ i ++ + +a+gk + +  G  +       v+D+  ++  +++++k+ + ++ tg+
  PHY93_17295|PHY93_17295 156 AAAKKAQLNAVVVNPGLIYGAGD----AKKIIRHGNVLAAKGKLPLYPSGGVN----IVAVEDVTAGIIEAFKKGKNGERYLLTGD 233
                              ***********999999999884....33455566777888999999889886....679************************** PP

                              EEECHHCHHCCHHCCCHHHHHH............TTGGCCCEECGG--S...S--SB--B-THHHHHHH----S CS
            GDP_Man_Dehyd 252 thsvrefvelaflelgktiewegkgeeevgrakesgkvvvevdpkyfrp...gevdlllgdaskakeeLgWkpk 322
                              + +++++++     +g +   + +  +   +  ++  ++  ++ +  r+   +  ++ + d++ka++eLg+kp+
  PHY93_17295|PHY93_17295 234 NITIKDLLTTISNLAGAKAPSK-ELPTGLFKFLATMLDYLGFKTELCREnifSASTFHWYDNTKARRELGFKPR 306
                              ******9987666666554433.223333334455555666666666664445667889**************8 PP

>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.8   0.1     2e-13   2.8e-10       1     132 [.       3     117 ..       3     124 .. 0.83
   2 !    4.8   0.0    0.0097        13     141     177 ..     146     194 ..     141     200 .. 0.82
   3 !    7.2   0.0    0.0017       2.3     206     252 ..     208     253 ..     204     261 .. 0.85

  Alignments for each domain:
  == domain 1  score: 39.8 bits;  conditional E-value: 2e-13
                              EEEETTTSHHHHHHHHHHHHHB-SEEEEEES-HHHHHHHHHH......-TTEEEE....E--TT-HHHHHHHTT..T-SEEEE--. CS
          Polysacc_synt_2   1 vlvtGagGsiGselvrqilkkkpkkiillerdElklyeiekeleeelkkkklkveivpvigdvrdkerlekaleelkvdvvfhaA. 85 
                              vlvtGa+G +Gs lv+ +l++k + + l+ ++  +l+++++          l+++  +vigd+ d ++l   +e  + d vfh+A 
  PHY93_17295|PHY93_17295   3 VLVTGASGFLGSYLVKALLEQKFEVLALVRNS-SELDSLKN----------LNCQ--VVIGDILDLQSLLPHFE--GLDGVFHVAg 73 
                              89********************9999888654.44555544..........3334..78***************..*******984 PP

                              ----HHHHHHSHHHHHHHHHHHHHHHHHHHHHTT-SEEEEEEEGGGS CS
          Polysacc_synt_2  86 AlKhVPlveenpleaiktNvlgtenvieaaieagvkkvvliStDKAv 132
                              A+   P         ++ Nv g +n+i+a++++++kk+v +S+  Av
  PHY93_17295|PHY93_17295  74 AMSSSPK---DRQRLFEVNVEGVKNIISACTQKNIKKLVHVSSVVAV 117
                              6666665...45566778************************87666 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.0097
                              HHHHHHHHHHHGGG--SSS-............-EEEEEEE-EETTGTTS CS
          Polysacc_synt_2 141 tKrlaekllqalakeseekk............tkfvvvRfGNVlgSrGS 177
                              +Krl e l+ a+ak+++ +              +  ++R+GNVl+++G 
  PHY93_17295|PHY93_17295 146 SKRLGEELVLAAAKKAQLNAvvvnpgliygagDAKKIIRHGNVLAAKGK 194
                              7889888888888887555578889999988877889*********996 PP

  == domain 3  score: 7.2 bits;  conditional E-value: 0.0017
                              HHHHHHHHHHHHHH--SS-EEEE--.-EEEHHHHHHHH......... CS
          Polysacc_synt_2 206 ieeavqLvlqalalakggeifvldmGepvkivdlakalielsgleek 252
                              +e+ +  +++a++++k+ge ++l  G+ ++i+dl +++ +l+g +  
  PHY93_17295|PHY93_17295 208 VEDVTAGIIEAFKKGKNGERYLLT-GDNITIKDLLTTISNLAGAKAP 253
                              666677799************997.6***************998754 PP

>> NmrA  NmrA-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.7   0.0     2e-15   2.7e-12       1     102 [.       3     113 ..       3     129 .. 0.90
   2 ?    3.7   0.0     0.028        38     179     228 ..     203     251 ..     181     272 .. 0.84

  Alignments for each domain:
  == domain 1  score: 46.7 bits;  conditional E-value: 2e-15
                              EEESSTTSHHHHHHHHHHHHHT-EEEEEES-S-SHHHHHHHHSTTEEEES-TT-HHHHHHHHTT-SEEEE---GG........... CS
                     NmrA   1 IlviGaTGrqGksvvrallkaghkvralvRdtkselakslkeaGvelvkgdlddkeslvealkgvdvvfsvtgfy........... 75 
                              +lv+Ga+G +G+++v+all+++++v alvR++   +++slk+   ++v gd+ d +sl   ++g d+vf v g++           
  PHY93_17295|PHY93_17295   3 VLVTGASGFLGSYLVKALLEQKFEVLALVRNS--SELDSLKNLNCQVVIGDILDLQSLLPHFEGLDGVFHVAGAMssspkdrqrlf 86 
                              79****************************96..5689***********************************9899999999999 PP

                              S-HHHHHHHHHHHHHHHS-SEEEEEE- CS
                     NmrA  76 skeiedgkklvdAakeaGvkhfiySsl 102
                              + ++e  k++++A  +  +k+++  s 
  PHY93_17295|PHY93_17295  87 EVNVEGVKNIISACTQKNIKKLVHVSS 113
                              999999999999999999999997443 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.028
                              EE.-HHHHHHHHHHHHHHHHHHHTTEEEEE-SEEE-HHHHHHHHHHHHTS- CS
                     NmrA 179 ll.daeeDiGafvikilkdprklkgkriklagntlsgneivelfekkigkt 228
                              ++ +a+eD+ a +i+++k+ +  +g+r+ l+g+ ++ +++++ ++  +g +
  PHY93_17295|PHY93_17295 203 VNiVAVEDVTAGIIEAFKKGK--NGERYLLTGDNITIKDLLTTISNLAGAK 251
                              344688999999999998655..79****************9999988876 PP

>> RmlD_sub_bind  RmlD substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.5   0.0   8.4e-12   1.2e-08       2     154 ..       2     176 ..       1     192 [. 0.73
   2 ?    1.8   0.0     0.078   1.1e+02     259     283 ..     293     317 ..     289     321 .. 0.89

  Alignments for each domain:
  == domain 1  score: 34.5 bits;  conditional E-value: 8.4e-12
                              EEEEESTTSHHHHHHHHHCTTTSEEEEEE-TT...............T--TTSHHHHHHHHHHH--SEEEE------HHHHHHSHH CS
            RmlD_sub_bind   2 kilvtGanGqlGseLakqlaeeglevlaltre...............eldltdaeavaellkeakpdvvvnaAAytavDkaEseee 72 
                              k+lvtGa+G lGs L+k+l e+++evlal r+                 d+ d +++   ++    d v ++A   a+    ++++
  PHY93_17295|PHY93_17295   2 KVLVTGASGFLGSYLVKALLEQKFEVLALVRNsseldslknlncqvvIGDILDLQSLLPHFEG--LDGVFHVAG--AMSSSPKDRQ 83 
                              79***************************9997777777777774444444444444444444..678***996..7888999*** PP

                              HHHHHHTHHHHHHHHHHHHCT-.EEEEEEEGGGS-S-..TTS-B-TTS----SSHHH....HHHHHHHHHHHH....H-SSEEEEE CS
            RmlD_sub_bind  73 aayavnaeavealAeaaaavga.lLihvStDyVFdGe..kkrpYeeddetsPlnvYG....rtKlaGEqavla....agkkalivR 147
                              + ++vn+e+v+++  a+++ ++ +L+hvS+      +   ++p  +++  +    +G     +K +GE+ vla    a+ +a++v 
  PHY93_17295|PHY93_17295  84 RLFEVNVEGVKNIISACTQKNIkKLVHVSSVVAVGSNlkSSDPLLTESSINITKDRGfgnyDSKRLGEELVLAaakkAQLNAVVVN 169
                              *******************99846*****976555556644555555444444444322335888899888883322333556666 PP

                              E-SEESS CS
            RmlD_sub_bind 148 tswvyge 154
                               + +yg+
  PHY93_17295|PHY93_17295 170 PGLIYGA 176
                              6666665 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.078
                              --HHHHHCCT----BHHHHHHHHHH CS
            RmlD_sub_bind 259 dtekleatfgiklrewrealkevlk 283
                              d++k++++ g+k+r++r+alk++++
  PHY93_17295|PHY93_17295 293 DNTKARRELGFKPRSYRKALKSSVD 317
                              68999****************9987 PP

>> KR  KR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.8   0.3   2.9e-09     4e-06       3     143 ..       3     120 ..       2     125 .. 0.85

  Alignments for each domain:
  == domain 1  score: 26.8 bits;  conditional E-value: 2.9e-09
                              EEEETTTSHHHHHHHHHHHHHHS-EEEEE-SS..--HHHHHHHHHHHHTT-EEEE----TT-HHHHHHHHHHHHHHSS---EEEE- CS
                       KR   3 ylitGGlGgLGlelarwlaekgarhlvllsRsaaadedskaliaelealgaevevvaaDvsdkdavealleeikaeeppikGviha 88 
                              +l+tG+ G LG  l++ l+e+  + l+l+  s        +++++l++l+++v +   D     ++++ll +++     + Gv+h 
  PHY93_17295|PHY93_17295   3 VLVTGASGFLGSYLVKALLEQKFEVLALVRNS--------SELDSLKNLNCQVVI--GD---ILDLQSLLPHFE----GLDGVFHV 71 
                              69********************9999998666........569999999888864..44...556777777776....788***** PP

                              --------TTT--HHHHHHHHTTTTHHHHHHHHHTTTS--SEEEEEEEHHHHH-- CS
                       KR  89 AgvlrdklleemtaedleqvlapKvkGawnLhelledesldffvlfSSiagllgs 143
                              Ag++  +       +d +++++  v+G++n+  ++++++++ +v +SS+ ++  +
  PHY93_17295|PHY93_17295  72 AGAMSSS------PKDRQRLFEVNVEGVKNIISACTQKNIKKLVHVSSVVAVGSN 120
                              **98765......6778999*****************************997554 PP

>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.7   0.1     2e-08   2.8e-05       3     136 ..       3     119 ..       1     124 [. 0.79
   2 ?   -2.4   0.0         2   2.8e+03     107     129 ..     203     225 ..     200     226 .. 0.89

  Alignments for each domain:
  == domain 1  score: 23.7 bits;  conditional E-value: 2e-08
                              EEEESTTSHHHHHHHHHHHHTT-EEEEEESCHHHHHHHHHHHHHTTSEEEEEE-TTTSHHHHHHHHHHHHHHHSSESEEEE---SS CS
                adh_short   3 vlvtGassGIGraiakelakeGakvvvvdrseekleevakelkeegakalaiqvDvtdreevealvekavkklgkldvLvnNAGit 88 
                              vlvtGas+ +G  ++k+l+++ ++v+++ r++++l    ++lk++  +  ++ +D+ d ++          ++++ld + + AG  
  PHY93_17295|PHY93_17295   3 VLVTGASGFLGSYLVKALLEQKFEVLALVRNSSEL----DSLKNL--NCQVVIGDILDLQS-------LLPHFEGLDGVFHVAGA- 74 
                              9******************************9999....555554..25566677776443.......4567799**********. PP

                              --SSGGGCSHHHHHHHHHHHTHHHHHHHHHHHHHHHHC..TTEEEEEEEE CS
                adh_short  89 gsgpfselseeewervievNltgvflltravlpamlkq..ssGrIvnvsS 136
                                    + s ++ +r++evN+ gv +++ a++++ +k+  +  ++v v+S
  PHY93_17295|PHY93_17295  75 -----MSSSPKDRQRLFEVNVEGVKNIISACTQKNIKKlvHVSSVVAVGS 119
                              .....4678899**************999999885532114455555555 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 2
                              HHTHHHHHHHHHHHHHHHHCTTE CS
                adh_short 107 vNltgvflltravlpamlkqssG 129
                              vN+++v  +t+ +++a++k+++G
  PHY93_17295|PHY93_17295 203 VNIVAVEDVTAGIIEAFKKGKNG 225
                              89999999999999999999998 PP

>> Ldh_1_N  lactate/malate dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.1   1.4e-07   0.00019       1     116 [.       1     111 [.       1     117 [. 0.83
   2 ?   -3.6   0.0         8   1.1e+04      24      43 ..     148     167 ..     146     169 .. 0.73
   3 ?   -3.5   0.0       7.3     1e+04      74     102 ..     215     241 ..     205     250 .. 0.57

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 1.4e-07
                              EEEEEETTTSHHHHHHHHHHHHTTSSSEEEEE-SSHHHHHHHHHHHHHCHCCSTS-EEEEE.SSGGGGTTESEEEE--S-SS-TTT CS
                  Ldh_1_N   1 vkvavvGaaGgiGqslalllankkladelaLlDiakekleGvaldlshistflsvkvkvse.keeealkdadvvvitagvprkpGe 85 
                              vkv v+Ga+G+ G+ l  +l+++k+   laL+         +   l++ +  +++  +    +    +++ d v  +ag+     +
  PHY93_17295|PHY93_17295   1 VKVLVTGASGFLGSYLVKALLEQKFEV-LALVRNS-----SELDSLKNLNCQVVIGDILDLqSLLPHFEGLDGVFHVAGAMSSSPK 80 
                              69*********************9998.8887555.....45555666666665554444349999******************** PP

                              THHHHHHHHHHHHHHHHHHHHHHTTTSEEEE CS
                  Ldh_1_N  86 tRddLlkvNakIvkeiveaiakvapnaivlv 116
                              +R+ L++vN++ vk+i++a+ + + + +v v
  PHY93_17295|PHY93_17295  81 DRQRLFEVNVEGVKNIISACTQKNIKKLVHV 111
                              ********************99987766665 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 8
                              TSSSEEEEE-SSHHHHHHHH CS
                  Ldh_1_N  24 kladelaLlDiakekleGva 43 
                               l++el+L  ++k++l++v+
  PHY93_17295|PHY93_17295 148 RLGEELVLAAAKKAQLNAVV 167
                              67888888888888877765 PP

  == domain 3  score: -3.5 bits;  conditional E-value: 7.3
                              EE--S-SS-TTTTHHHHHHHHHHHHHHHH CS
                  Ldh_1_N  74 vitagvprkpGetRddLlkvNakIvkeiv 102
                              +i a  + k+G +R  L  +N++I k++ 
  PHY93_17295|PHY93_17295 215 IIEAFKKGKNG-ERYLLTGDNITI-KDLL 241
                              45554444555.466677777766.4444 PP

>> DapB_N  Dihydrodipicolinate reductase, N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   4.3e-05     0.059       1      38 [.       1      36 [.       1      63 [. 0.82
   2 ?   -3.4   0.0       7.3     1e+04      82      93 ..      95     106 ..      86     120 .. 0.56
   3 ?   -1.9   0.0       2.4   3.3e+03      11      36 ..     148     171 ..     148     188 .. 0.65

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 4.3e-05
                             EEEEEETTTSHHHHHHHHHHHHSTTEEEEEEEETTCST CS
                   DapB_N  1 ikvavvGasGrmGkevvkaveeaedlelvaavdrkese 38
                             +kv+v+GasG +G+ +vka+ e +++e+ a v +++ e
  PHY93_17295|PHY93_17295  1 VKVLVTGASGFLGSYLVKALLE-QKFEVLALVRNSS-E 36
                             69********************.9999999988876.2 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 7.3
                              HHHHHHHHTT-E CS
                   DapB_N  82 enlklalekgvk 93 
                              + ++++++k++k
  PHY93_17295|PHY93_17295  95 NIISACTQKNIK 106
                              444444444332 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 2.4
                              HHHHHHHHHHHHSTTEEEEEEEETTC CS
                   DapB_N  11 rmGkevvkaveeaedlelvaavdrke 36 
                              r+G+e+v a+ +  +++l a+v +++
  PHY93_17295|PHY93_17295 148 RLGEELVLAAAK--KAQLNAVVVNPG 171
                              678888777766..666666666665 PP

>> TrkA_N  TrkA-N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   9.9e-05      0.14       7      55 ..      10      58 ..       3     108 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 9.9e-05
                             SHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHTTSEEEES-TTSHHHH CS
                   TrkA_N  7 GrvGrslaeeLseggkdvvvidkdeerveelreeglevvvgdatdeevL 55
                             G +G+ l++ L e++ +v++  ++ + +++l++ +++vv+gd  d + L
  PHY93_17295|PHY93_17295 10 GFLGSYLVKALLEQKFEVLALVRNSSELDSLKNLNCQVVIGDILDLQSL 58
                             568**********7756*************************9998776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (323 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       584  (0.0325729); expected 358.6 (0.02)
Passed bias filter:                      535  (0.0298399); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.60u 0.29s 00:00:00.88 Elapsed: 00:00:00.45
# Mc/sec: 2152.47
//
Query:       PHY93_04235|PHY93_04235  [L=257]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.9e-17   62.6   0.1    6.2e-17   61.9   0.1    1.3  1  Exo_endo_phos    Endonuclease/Exonuclease/phosphatase family
    0.00017   21.4   0.3    0.00099   18.9   0.3    2.1  1  Exo_endo_phos_2  Endonuclease-reverse transcriptase


Domain annotation for each model (and alignments):
>> Exo_endo_phos  Endonuclease/Exonuclease/phosphatase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.9   0.1   6.9e-21   6.2e-17       2     233 .]       5     250 ..       4     250 .. 0.78

  Alignments for each domain:
  == domain 1  score: 61.9 bits;  conditional E-value: 6.9e-21
                              EEEESTGCHHHHTHHHHHHHHHHHHHHCTTSEEEEEEEBSCTCHHHHHHHHH.....TTCEEEEECCHECSSSTTSSEEEEEECST CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....xxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Exo_endo_phos   2 twNvngqaspalgssrrsdrladlltaydaDvlgLQEvdddelsriplllal.....ggflgasstsptgggggggnggavlsrfp 82 
                              +wNvng       +s +++    +++++ +Dv++LQE++  e ++ +l l++      + ++a        + +g+ g a+l++ +
  PHY93_04235|PHY93_04235   5 SWNVNGL------RSVSTKGFELWFRQNLPDVIALQEIKATEKDVEALILNWsdvydVHLYPA--------VKKGYSGTALLIKKT 76 
                              8*****7......6688999*****************99999877766666686665555555........779************ PP

                              EEEEEEEEEEETSSSSGCEEEEEEEEEEEEEEE..........CCCHHGHHHHHHHHHHHHHHHHHHHHHTTSEEEEEEE-SSSTS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Exo_endo_phos  83 ltslfrrtfiefndlvaalrreplaakleqlni..........ashrdhdlvrdlqllalllqvealnadrgapvivaGDfNarps 158
                                 l    ++  ++ v +  +e      e+ ni           + +   +      ++++  + +l + +++ vi++GD N+++ 
  PHY93_04235|PHY93_04235  77 AAPL----YVKRGIGVSEYDNEGRLIYAEFENIifingyfpngQRDHTRVEFKLDFSRRVVALAHELHLKTKKEVIITGDINTAHC 158
                              *666....223333333333333333333333355567788877777777777777888888888999999999************ PP

                              GGGBSCGHHHHHHCTTTH..........H..............SSCESCETTTTTTTTTTTEB-BEEEEEEC.HHHCCEEEEEEEC CS
                              xxxxxxxxxxxxxxxxxx..........x..............xxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxx RF
            Exo_endo_phos 159 dddsrvlrtrglalapap..........v..............glyllgggptptyvtraggsrlDrilasp.alalfrsgvlppp 219
                              + d  ++ ++ + +   p          v                ++++++++  ++ r+ g+rlD+ +a++  l ++ + ++ ++
  PHY93_04235|PHY93_04235 159 EIDLSNPKANSKTTGFLPnerafidemiVggltdvfrhfhpglPDQYTWWTYRGDCRERNIGWRLDYFFATKnLLSKVKTVEHHHQ 244
                              ******************777766666515667778888999******************************88888877777777 PP

                              CHHEECTSSCSSSB CS
                              xxxxxxxxxxxxxx RF
            Exo_endo_phos 220 lalvrrealtlSDH 233
                              +         +SDH
  PHY93_04235|PHY93_04235 245 V--------LGSDH 250
                              6........46999 PP

>> Exo_endo_phos_2  Endonuclease-reverse transcriptase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.3   1.1e-07   0.00099      24     118 ..     138     253 ..     105     254 .. 0.73

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 1.1e-07
          Exo_endo_phos_2  24 llselkspkiiilGDfNakhplWgsedtds.......sargeeLiefleehslsll.....nllksgptfkssng.......ssti 90 
                               l  ++++++ii+GD+N  h + + ++ +          +++ +i+ +   +l+ +       l+ + t+++ +g          +
  PHY93_04235|PHY93_04235 138 ELHLKTKKEVIITGDINTAHCEIDLSNPKAnskttgfLPNERAFIDEMIVGGLTDVfrhfhPGLPDQYTWWTYRGdcrerniGWRL 223
                              444444459***********88765222224477889888999999888888886677765444466899999988988666677* PP

          Exo_endo_phos_2  91 Dltltsdnlals..kleleeedlgSDHrpi 118
                              D +++++nl+ +  + e++++ lgSDH pi
  PHY93_04235|PHY93_04235 224 DYFFATKNLLSKvkTVEHHHQVLGSDHCPI 253
                              ************9988899999******99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (257 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       441  (0.024597); expected 358.6 (0.02)
Passed bias filter:                      418  (0.0233142); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 1891.29
//
Query:       PHY93_04240|PHY93_04240  [L=177]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.032   14.5   0.2       0.15   12.3   0.0    2.2  2  DUF1031   Protein of unknown function (DUF1031)
       0.11   12.4   0.1       0.18   11.7   0.0    1.4  2  CBM9_1    Carbohydrate family 9 binding domain-like


Domain annotation for each model (and alignments):
>> DUF1031  Protein of unknown function (DUF1031)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   1.7e-05      0.15       1      45 [.       1      45 [.       1      77 [. 0.77
   2 ?   -0.7   0.2      0.19   1.7e+03      52      65 ..      77      90 ..      64      95 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 1.7e-05
                  DUF1031  1 mvktriitlkkLfnLakkarfdvnykelsvkisvrtkgsheLvel 45
                             m k+ +i+  +     +  + ++ny+e sv++s r k+   L +l
  PHY93_04240|PHY93_04240  1 MAKFSLIPFTQENAPDITIEAELNYNEESVYVSYRIKKGTPLIDL 45
                             677777777776666666677778*************99888876 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.19
                  DUF1031 52 kynnskdmkWneLy 65
                              +n s + +Wn +y
  PHY93_04240|PHY93_04240 77 EFNFSPNFEWNCFY 90
                             68999999999776 PP

>> CBM9_1  Carbohydrate family 9 binding domain-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   2.1e-05      0.18      23      85 ..       9      81 ..       1     104 [. 0.86
   2 ?   -3.2   0.0      0.73   6.5e+03     103     120 ..     138     153 ..     127     158 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 2.1e-05
                             S-T..TTS-EEEEEEEE-SSEEEEEEEEE-SS.----SSSG.........GGSSEEEEEEETT----SS--TT CS
                   CBM9_1 23 gtvpsssdasgtfkvlwdekaLYvlvevtDdv.lndssadp.........wedDsvEiflDennsktteynan 85
                              t+ ++ d++ ++ + ++e+ +Yv ++++    l d +  +         we+ + E f+ ++n++  e+n +
  PHY93_04240|PHY93_04240  9 FTQENAPDITIEAELNYNEESVYVSYRIKKGTpLIDLGCSTpnksrvlklWEKTCFELFIKNKNDQYIEFNFS 81
                             5677889999*******************99988887766668999*******************98888765 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 0.73
                              -...-GGGEEEEEEEETT CS
                   CBM9_1 103 kkkliaegvtsaskkseg 120
                              +  ++++g+ts+ k+++g
  PHY93_04240|PHY93_04240 138 S--ELNAGITSVIKDKSG 153
                              3..688888888887765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (177 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       353  (0.0196888); expected 358.6 (0.02)
Passed bias filter:                      255  (0.0142228); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.21s 00:00:00.66 Elapsed: 00:00:00.44
# Mc/sec: 1200.71
//
Query:       PHY93_04245|PHY93_04245  [L=127]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (127 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       591  (0.0329634); expected 358.6 (0.02)
Passed bias filter:                      395  (0.0220313); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.42
# Mc/sec: 916.09
//
Query:       PHY93_04250|PHY93_04250  [L=70]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.039   13.9   0.1      0.055   13.5   0.1    1.2  1  OppC_N    N-terminal TM domain of oligopeptide transport perm
       0.15   12.2   0.0       0.16   12.1   0.0    1.1  1  DUF2973   Protein of unknown function (DUF2973)


Domain annotation for each model (and alignments):
>> OppC_N  N-terminal TM domain of oligopeptide transport permease C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.1   6.1e-06     0.055      20      51 .]      13      53 ..      11      53 .. 0.68

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 6.1e-06
                   OppC_N 20 lvilllllliaifaPlia......Pydp..qdli.qnllpP 51
                             l+i+++++++ai  P  +      P+d     ++ +n +pP
  PHY93_04250|PHY93_04250 13 LFIIAFIAVMAITTPIRSmaqddmPNDEetIIPSsNNSAPP 53
                             8************9988755555555546522232446666 PP

>> DUF2973  Protein of unknown function (DUF2973)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   1.8e-05      0.16       3      35 ..       9      45 ..       7      63 .. 0.74

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 1.8e-05
                  DUF2973  3 hllYilaftvlaflAvanLirslitlsadsqr....k 35
                             h+ Y++++ ++a++A+   irs+   ++ +++    +
  PHY93_04250|PHY93_04250  9 HFSYLFIIAFIAVMAITTPIRSMAQDDMPNDEetiiP 45
                             666888888899***********99998888733331 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (70 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       456  (0.0254337); expected 358.6 (0.02)
Passed bias filter:                      335  (0.0186848); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.40u 0.22s 00:00:00.62 Elapsed: 00:00:00.40
# Mc/sec: 526.67
//
Query:       PHY93_04255|PHY93_04255  [L=87]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (87 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       694  (0.0387082); expected 358.6 (0.02)
Passed bias filter:                      238  (0.0132746); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.41
# Mc/sec: 632.61
//
Query:       PHY93_04260|PHY93_04260  [L=210]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.8e-06   26.4   0.1    1.1e-05   25.2   0.0    1.7  2  TrmB           Sugar-specific transcriptional regulator TrmB
    1.6e-05   24.7   0.5    1.6e-05   24.7   0.5    1.8  2  HTH_5          Bacterial regulatory protein, arsR family
    0.00047   20.1   0.1    0.00099   19.1   0.1    1.5  1  HTH_20         Helix-turn-helix domain
     0.0046   16.8   0.0      0.009   15.9   0.0    1.5  1  MarR_2         MarR family
  ------ inclusion threshold ------
      0.016   15.4   3.6      0.018   15.2   1.4    2.1  3  OSCP           ATP synthase delta (OSCP) subunit
      0.039   13.8   0.3       0.21   11.4   0.1    2.1  2  HTH_IclR       IclR helix-turn-helix domain
       0.04   13.9   0.0      0.086   12.8   0.0    1.5  1  HTH_11         HTH domain
      0.051   13.4   0.1        0.1   12.4   0.1    1.5  1  LexA_DNA_bind  LexA DNA binding domain
      0.051   13.5   0.1      0.093   12.7   0.1    1.4  1  MarR           MarR family
      0.074   13.0   0.1       0.17   11.9   0.1    1.6  1  Dimerisation2  Dimerisation domain
       0.15   12.6   0.4        3.4    8.3   0.4    2.4  1  WWE            WWE domain


Domain annotation for each model (and alignments):
>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.2   0.0   6.9e-09   1.1e-05       4      56 ..      21      74 ..      18      87 .. 0.92
   2 ?   -2.6   0.0       3.3   5.4e+03      14      31 ..     168     185 ..     164     187 .. 0.74

  Alignments for each domain:
  == domain 1  score: 25.2 bits;  conditional E-value: 6.9e-09
                             CHHHHHCCCHCHHHH.HHCCCHHCHHCCCTTSSCHCHHHHHHHHHHCTSEEEES CS
                     TrmB  4 lGLseyEakvYlaLl.klgpatadeiaeelgvprskvYevLrsLedkGlVerek 56
                             +G++  + +v+  L+ +++p+t +ei e+l++++s v  +L+ L   G +e+++
  PHY93_04260|PHY93_04260 21 IGFKRIDGSVFGLLVlAQKPLTSEEIEEALKLSQSAVSLSLKTLAHFGAIETKD 74
                             89*********99999**********************************9875 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 3.3
                              CHHHHHHCCCHHCHHCCC CS
                     TrmB  14 YlaLlklgpatadeiaee 31 
                              Y a++k+ p+  d ia  
  PHY93_04260|PHY93_04260 168 YEAIVKRLPKALDLIATT 185
                              888898888887777765 PP

>> HTH_5  Bacterial regulatory protein, arsR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.7   0.5   9.9e-09   1.6e-05       8      39 ..      33      64 ..      33      71 .. 0.92
   2 ?   -3.0   0.1       4.3     7e+03      18      24 ..     138     144 ..     137     145 .. 0.79

  Alignments for each domain:
  == domain 1  score: 24.7 bits;  conditional E-value: 9.9e-09
                             HHHHTTSSEEHHHHHHHHTS-HHHHHHHHHHH CS
                    HTH_5  8 LklLaegelcvcelaeelglsqstvShHLkkL 39
                             L  La+++l++ e+ e+l+lsqs+vS  Lk L
  PHY93_04260|PHY93_04260 33 LLVLAQKPLTSEEIEEALKLSQSAVSLSLKTL 64
                             5679**************************98 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 4.3
                              HHHHHHH CS
                    HTH_5  18 vcelaee 24 
                               ce+ae 
  PHY93_04260|PHY93_04260 138 TCEIAES 144
                              79**985 PP

>> HTH_20  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.1   6.1e-07   0.00099      21      57 ..      37      73 ..      26      77 .. 0.90

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 6.1e-07
                             TCTTB-HHHHHHHHTS-HHHHHHHHHHHHHCTTEEEE CS
                   HTH_20 21 raegltaselaerldlskntlsyHLrvLeeagLvevv 57
                               ++lt +e+ e+l ls++ +s  L++L+  g++e+ 
  PHY93_04260|PHY93_04260 37 AQKPLTSEEIEEALKLSQSAVSLSLKTLAHFGAIETK 73
                             679*******************************985 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.0   5.5e-06     0.009      11      59 ..      33      74 ..      22      81 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 5.5e-06
                             HHHHHCTTTSEEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEEEESSSS CS
                   MarR_2 11 LaaLgrrpgrdltvgelarrlglsksavsrilkrLvaaGLverrpgpeD 59
                             L++L+  p   lt  e++++l+ls+savs  lk L   G +e++    D
  PHY93_04260|PHY93_04260 33 LLVLAQKP---LTSEEIEEALKLSQSAVSLSLKTLAHFGAIETK----D 74
                             55666666...9***********************999999988....3 PP

>> OSCP  ATP synthase delta (OSCP) subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       3.1     5e+03     151     163 ..      20      32 ..      20      40 .. 0.83
   2 ?    0.5   0.2      0.34   5.6e+02      13      99 ..      37     120 ..      31     126 .. 0.61
   3 ?   15.2   1.4   1.1e-05     0.018      52     130 ..     127     205 ..      76     209 .. 0.77

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 3.1
                     OSCP 151 kvgdkviDgSvkg 163
                              ++g k iDgSv g
  PHY93_04260|PHY93_04260  20 RIGFKRIDGSVFG 32 
                              689999****966 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.34
                     OSCP  13 AkekgaleeveeelealeavlaedkklaellsnpavsaeekkdlleelfkeklseavknflkllaenkRlalLpeiaeefeellae 98 
                              A++  + ee+ee l+  ++++  + +l++l +  a++++++++  ++ + + ++e   n ++ l+ ++ ++++ +     +++l++
  PHY93_04260|PHY93_04260  37 AQKPLTSEEIEEALKLSQSAV--SLSLKTLAHFGAIETKDLRENSKARVHT-AKEDSLNIVASLFRKREEEYIVDFKLMAQRVLDK 119
                              555555666666666554444..4455555555666666666666666665.6777777777777777777776666666665555 PP

                     OSCP  99 a 99 
                              +
  PHY93_04260|PHY93_04260 120 S 120
                              5 PP

  == domain 3  score: 15.2 bits;  conditional E-value: 1.1e-05
                     OSCP  52 ekkdlleelfke.klseavknflkllaenkRlalLpeiaeefeellaeargiveaeVtsavpLtdeqlekleaalakklg 130
                               +k+ +++++++ ++ e v nf+ ++a+nk  +  ++ a+++e+++++  + ++   t+a pL d +   l+++l  +++
  PHY93_04260|PHY93_04260 127 ARKKRMQSIISTcEIAESVMNFVITIAQNKSRENHEQYAAQYEAIVKRLPKALDLIATTAGPLADMTI-SLKETLTTTFK 205
                              356666776666799************************************************98764.46666655555 PP

>> HTH_IclR  IclR helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1   0.00013      0.21      15      50 ..      37      72 ..      29      74 .. 0.88
   2 ?   -0.1   0.0      0.52   8.4e+02       8      19 ..     178     189 ..     172     198 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00013
                             TBSS-BHHHHHHHHTS-HHHHHHHHHHHHHTTSEE. CS
                 HTH_IclR 15 apqeltlselArrtglpkStvhRlLqtLvelGyveq 50
                             a+ +lt  e+ +++ l+ S+v+  L+tL + G +e+
  PHY93_04260|PHY93_04260 37 AQKPLTSEEIEEALKLSQSAVSLSLKTLAHFGAIET 72
                             6788999*************************9986 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.52
                              HHCT-CTTBSS- CS
                 HTH_IclR   8 iLdalaeapqel 19 
                               Ld++a+++++l
  PHY93_04260|PHY93_04260 178 ALDLIATTAGPL 189
                              5999**999994 PP

>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   5.3e-05     0.086       9      45 ..      34      69 ..      30      74 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 5.3e-05
                   HTH_11  9 LleargpisgeeLAeeLnvSrrtvrrdIkaLeelgvp 45
                             L  a++p+++ee+ e L++S ++v   +k+L   g  
  PHY93_04260|PHY93_04260 34 LVLAQKPLTSEEIEEALKLSQSAVSLSLKTLAHFG-A 69
                             6678899******************9999998777.4 PP

>> LexA_DNA_bind  LexA DNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   6.3e-05       0.1      25      60 ..      40      74 ..      36      82 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 6.3e-05
                             ---HHHHHHHHTS-.HHHHHHHHHHHHHTTSEE-GG CS
            LexA_DNA_bind 25 pPsireiaralglkSpsaveehLkaLerKGyierdp 60
                             p +  ei +al+l+  sav   Lk+L+  G+ie ++
  PHY93_04260|PHY93_04260 40 PLTSEEIEEALKLS-QSAVSLSLKTLAHFGAIETKD 74
                             55778********7.9*****************987 PP

>> MarR  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   5.7e-05     0.093      15      50 ..      38      73 ..      33      81 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 5.7e-05
                             STTEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEE CS
                     MarR 15 qgplsvseLakklgvskstvtrvldrLekkGlieRs 50
                             q pl+  e+ ++l++s+s+v+  l++L + G ie +
  PHY93_04260|PHY93_04260 38 QKPLTSEEIEEALKLSQSAVSLSLKTLAHFGAIETK 73
                             78999***********************99999855 PP

>> Dimerisation2  Dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.1    0.0001      0.17      22      66 ..      29      74 ..      23      91 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.0001
            Dimerisation2 22 gvFdlLke.eeplsaeevaeelgasvkGterLldacvaLgLLerek 66
                              vF lL   ++pl++ee+ e+l++s ++++  l++++ +g  e++ 
  PHY93_04260|PHY93_04260 29 SVFGLLVLaQKPLTSEEIEEALKLSQSAVSLSLKTLAHFGAIETKD 74
                             5899998889***************************999998663 PP

>> WWE  WWE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   0.4    0.0021       3.4      30      58 ..      86     117 ..      38     123 .. 0.60

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0021
                              TT-SEE...EHHHHTTSTTEEEETTTTEEEET CS
                      WWE  30 kkkksv...elsfsvagapYtvdfnsmvQtnk 58 
                              +k++s+      f+   + Y+vdf+ m Q+  
  PHY93_04260|PHY93_04260  86 AKEDSLnivASLFRKREEEYIVDFKLMAQRVL 117
                              3444443332234455599********99865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (210 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1241  (0.0692175); expected 358.6 (0.02)
Passed bias filter:                      683  (0.0380947); expected 358.6 (0.02)
Passed Vit filter:                        76  (0.00423894); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.51u 0.22s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 1520.53
//
Query:       PHY93_04265|PHY93_04265  [L=415]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.5e-34  119.7   0.9    6.3e-34  117.7   0.5    2.1  2  ketoacyl-synt    Beta-ketoacyl synthase, N-terminal domain
    7.7e-25   87.2   0.0    1.8e-24   86.0   0.0    1.7  1  Ketoacyl-synt_C  Beta-ketoacyl synthase, C-terminal domain
    0.00054   19.4   0.4     0.0016   17.8   0.1    1.9  2  Thiolase_N       Thiolase, N-terminal domain
  ------ inclusion threshold ------
      0.012   15.2   2.1      0.026   14.2   0.1    2.4  3  Thiolase_C       Thiolase, C-terminal domain


Domain annotation for each model (and alignments):
>> ketoacyl-synt  Beta-ketoacyl synthase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  117.7   0.5   1.4e-37   6.3e-34       2     253 .]      10     252 ..       9     252 .. 0.84
   2 ?   -2.7   0.0      0.79   3.5e+03      94     120 ..     285     314 ..     283     348 .. 0.72

  Alignments for each domain:
  == domain 1  score: 117.7 bits;  conditional E-value: 1.4e-37
                              --EEEEEEEEEBTTBSSHHHHHHHHHTT---EEES-TTSSCGTTSBTSSTTEEE-BSS.EEE..STTEGGTTSTHHHHHHHCTS-H CS
            ketoacyl-synt   2 epvaivGmgarfPggndveefwelLlegrdaiselpadrwdadklydpparaagkiktklggfldvddfdpeffgispreaeamdp 87 
                              ++++i+G+g + P gn+++ef + Ll+++++i++ +      ++       aag +k           fd++ ++ ++++ ++  +
  PHY93_04265|PHY93_04265  10 QRIVITGIGLTSPMGNNLSEFRDGLLNNGSGITHTE-----IRHM---GVVAAGLCK-----------FDEARYQ-PKKMRRRGTR 75 
                              69*******************************666.....4444...667777765...........5666555.5566678999 PP

                              HHHHHHHHHHHHHHHHTS-HHTCTTGGEEEEEEESSTHH....HHHHHHHHHTT.GGGSCT.THHHHHSTTHHHHHHHHHHT--SS CS
            ketoacyl-synt  88 qqrllleaawealedagltpeeldgsrvgvfiGvgagdy....aalaaldedgs.evkasp.kavgavlanviagrisyalglrGp 167
                              +  +++ +a ea+ d+g++ + +d++rvgv++G++ + +    +++  l+++++ +v+ ++ + ++ ++an  ag +++ +g++G+
  PHY93_04265|PHY93_04265  76 AGAISIYCANEAVVDSGIDFAGVDKNRVGVYLGITEHGNveteNEIHDLYNEHKmDVSLWShHHNPRTVANNPAGEVTLNMGITGA 161
                              999********************************994444456666666666668888888888889****************** PP

                              EEEEESGGGHHHHHHHHHHHHHHTTS-SEEEEEEEE---.SHHHHHHHHHTTBB-TT.SGGGTTBTTB...-SB-BB-EEEEEEEE CS
            ketoacyl-synt 168 svtvdtACsSslvavhaavqslrsgeadvalaGGvelll.tpeavagfsaagllspd.grckafdpka...dGfvlGEGvGavvLk 248
                               +t+ +AC++++  + + vq+l   e+d+alaGGv+ ++ t + +a+f+a+g+l ++ ++  a +p +   +G v++EG ++ vL+
  PHY93_04265|PHY93_04265 162 HYTIGAACAAGNLGIIQGVQQLLLDEVDIALAGGVSESTeTFGIFAAFKAQGALGHHeDPALATRPLDvnrNGIVVSEGGAVYVLE 247
                              ***********66666666***************9876615567899*****8888779977777777777*************** PP

                              ECHHH CS
            ketoacyl-synt 249 rleda 253
                              rl+da
  PHY93_04265|PHY93_04265 248 RLSDA 252
                              ***98 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 0.79
                              HHHHHHHHHHTS-HHTCTTGG...EEEEEE CS
            ketoacyl-synt  94 eaawealedagltpeeldgsr...vgvfiG 120
                              e+ + a+++ag++ +e+d  +   +g ++G
  PHY93_04265|PHY93_04265 285 ECIRMAIKKAGIEINEIDIVNmhaTGTVLG 314
                              677889999999888885544334666665 PP

>> Ketoacyl-synt_C  Beta-ketoacyl synthase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.0   0.0   3.9e-28   1.8e-24       1     115 [.     260     369 ..     260     372 .. 0.94

  Alignments for each domain:
  == domain 1  score: 86.0 bits;  conditional E-value: 3.9e-28
                              SEEEEEEEEEE--STSSSTSTTHHHHHHHHHHHHHHHT--GGGEEEEE-SS-SSHHHHHHHHHHHHHHHGGGGGSCTSEEE-THHH CS
          Ketoacyl-synt_C   1 yavikgsavnsdgahnsltapngeaqaraiekalaeagvdpedvdyveahgtgtplgDpiElealkkvfgekarkqplavgSvKsn 86 
                              y++i g+ +nsd++   +  pn e q ++i+ a+++ag++ +++d+v++h+tgt lgD +E+ a++k+fge     +++v+++K  
  PHY93_04265|PHY93_04265 260 YGEIIGYHSNSDAS--DFVLPNTERQIECIRMAIKKAGIEINEIDIVNMHATGTVLGDIQECDAVQKLFGECP---NVYVNATKGF 340
                              899********664..566789*************************************************99...6********* PP

                              H-B-GGGHHHHHHHHHHHHHHHTEE--BT CS
          Ketoacyl-synt_C  87 iGHleaAaGvaelikvvlalkhgvipptl 115
                              iGH+ +AaG++el+  + ++ +g+i+p  
  PHY93_04265|PHY93_04265 341 IGHAMGAAGALELAGNIPSFTDGYIHPCK 369
                              *************************9975 PP

>> Thiolase_N  Thiolase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.1   3.7e-07    0.0016      60     113 ..     146     197 ..     128     207 .. 0.89
   2 ?   -2.0   0.0      0.41   1.8e+03      29      50 ..     285     306 ..     278     320 .. 0.77

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 3.7e-07
                              SCHHHHHHHHTTS-TTSEEEEEEHGGGHHHHHHHHHHHHHHTTSHSEEEEEEEE CS
               Thiolase_N  60 qniarqaalkagipeevpavtvnkvcsSglkavalaaqsiaageadvvvagGvE 113
                              +n+a +++l++gi  + +  t+  +c+ g+ ++++++q++   e+d+++agGv 
  PHY93_04265|PHY93_04265 146 NNPAGEVTLNMGI--TGAHYTIGAACAAGNLGIIQGVQQLLLDEVDIALAGGVS 197
                              5689999999999..78889********************************95 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.41
                              HHHHHHHHHHTS-GGGCCEEEE CS
               Thiolase_N  29 ealkallekagvdpeevdeviv 50 
                              e ++ +++kag++ +e+d v +
  PHY93_04265|PHY93_04265 285 ECIRMAIKKAGIEINEIDIVNM 306
                              57888999***99999987765 PP

>> Thiolase_C  Thiolase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.0       1.8   7.9e+03      96     109 ..      68      81 ..      63      91 .. 0.57
   2 ?   -0.9   0.3      0.27   1.2e+03      96     117 ..     155     176 ..     149     182 .. 0.79
   3 ?   14.2   0.1   5.8e-06     0.026      27      87 ..     286     350 ..     266     361 .. 0.81

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 1.8
                              HHHHCTTSEEEEEE CS
               Thiolase_C  96 elkkeggklgvaal 109
                              +++++g++ g +++
  PHY93_04265|PHY93_04265  68 KMRRRGTRAGAISI 81 
                              45566665555554 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.27
                              HHHHCTTSEEEEEEEETTTEEE CS
               Thiolase_C  96 elkkeggklgvaalCigggqgv 117
                              ++   g+++++ a+C++g  g+
  PHY93_04265|PHY93_04265 155 NMGITGAHYTIGAACAAGNLGI 176
                              5666789999******998875 PP

  == domain 3  score: 14.2 bits;  conditional E-value: 5.8e-06
                              HHHHHHHHHT--GGGESEEEE--SBHHHHHHHHHHHT--G......GGBSTT--HHHH-B-TTTHHH CS
               Thiolase_C  27 aikkvlkkagltvedidlfEinEAFaaqaLavakaldldl......ekvNvnGGaialGHPlGasGa 87 
                               i++++kkag+++++id++ ++   ++ +L  ++++d  +        v vn     +GH +Ga+Ga
  PHY93_04265|PHY93_04265 286 CIRMAIKKAGIEINEIDIVNMHA--TGTVLGDIQECDAVQklfgecPNVYVNATKGFIGHAMGAAGA 350
                              6899***************9996..578899999998877778866444444444468********9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (415 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       488  (0.0272185); expected 358.6 (0.02)
Passed bias filter:                      419  (0.02337); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.43
# Mc/sec: 2870.18
//
Query:       PHY93_04270|PHY93_04270  [L=81]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    6.8e-06   26.3   0.6    7.9e-06   26.1   0.6    1.1  1  PP-binding  Phosphopantetheine attachment site


Domain annotation for each model (and alignments):
>> PP-binding  Phosphopantetheine attachment site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.1   0.6   4.4e-10   7.9e-06       2      58 ..      10      68 ..       9      77 .. 0.80

  Alignments for each domain:
  == domain 1  score: 26.1 bits;  conditional E-value: 4.4e-10
               PP-binding  2 klrelvaevlgv.pleeidpdtdlfd.lGlDSllavellaaleeefgveiplsdlfehp 58
                             k+++++a++    +++ ++++  l++ l lDS+++++++++l+++ ++e+p +d   + 
  PHY93_04270|PHY93_04270 10 KVLDIIADIALDdDVSNLKDEVALREqLDLDSMDFLDIVMELKKRHKIEVPQEDYSRLV 68
                             78899999877625555889999**66************************99975455 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (81 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       698  (0.0389313); expected 358.6 (0.02)
Passed bias filter:                      456  (0.0254337); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.23s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 620.14
//
Query:       PHY93_04275|PHY93_04275  [L=468]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.6e-11   43.6   0.5    5.6e-11   42.5   0.0    1.9  2  NAD_binding_8  NAD(P)-binding Rossmann-like domain
    1.1e-08   34.8   0.0    2.1e-08   33.9   0.0    1.4  2  Amino_oxidase  Flavin containing amine oxidoreductase
    1.2e-08   34.1   0.3     0.0036   16.1   0.2    2.2  2  HI0933_like    HI0933-like protein
    1.3e-06   28.3   0.0     0.0028   17.3   0.1    2.1  2  DAO            FAD dependent oxidoreductase
    1.6e-06   27.5   0.0    1.9e-05   24.0   0.0    2.1  2  FAD_binding_2  FAD binding domain
    2.7e-06   26.9   0.0     0.0016   17.8   0.0    2.2  2  Pyr_redox_2    Pyridine nucleotide-disulphide oxidoreductase
    4.5e-06   26.1   0.0      6e-05   22.5   0.1    2.1  2  Pyr_redox_3    Pyridine nucleotide-disulphide oxidoreductase
    9.1e-05   21.8   0.1    0.00019   20.7   0.1    1.5  1  Thi4           Thi4 family
    0.00084   18.8   0.0     0.0013   18.2   0.0    1.2  1  FAD_oxidored   FAD dependent oxidoreductase
     0.0011   18.3   0.1     0.0067   15.7   0.2    2.0  2  FAD_binding_3  FAD binding domain
  ------ inclusion threshold ------
      0.029   14.9   0.8        1.3    9.7   0.2    2.5  2  Pyr_redox      Pyridine nucleotide-disulphide oxidoreductase
      0.051   12.6   0.1        6.5    5.7   0.1    2.1  2  Lycopene_cycl  Lycopene cyclase protein
      0.061   12.4   0.3       0.22   10.6   0.1    1.8  2  GIDA           Glucose inhibited division protein A
        0.1   12.4   0.0       0.21   11.4   0.0    1.4  1  TetR_C_1       Tetracyclin repressor-like, C-terminal domain


Domain annotation for each model (and alignments):
>> NAD_binding_8  NAD(P)-binding Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.5   0.0   4.4e-14   5.6e-11       1      55 [.       8      62 ..       8      79 .. 0.86
   2 ?   -2.9   0.2       6.6   8.5e+03       1      13 [.     450     462 ..     450     463 .. 0.87

  Alignments for each domain:
  == domain 1  score: 42.5 bits;  conditional E-value: 4.4e-14
                             EE--SHHHHHHHHHHHCCTEEEEEE-SSSSSSGGG-EECETTCEECTS---EEET CS
            NAD_binding_8  1 IvGaGlsGlvaAylLakagfdvlllekrdrlGGraasyevpgvrvdygahifhgs 55
                             I+GaG+sGl+a  +L+ ++++v++lek++  GG  + y ++++++d+g h+++ +
  PHY93_04275|PHY93_04275  8 IIGAGMSGLAAGIRLSMYNKKVVILEKHTISGGLNSYYARGKRKFDVGLHALTNF 62
                             9********************************9999999***********9876 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 6.6
                              EE--SHHHHHHHH CS
            NAD_binding_8   1 IvGaGlsGlvaAy 13 
                              IvG+ lsG ++A 
  PHY93_04275|PHY93_04275 450 IVGSILSGISMAN 462
                              99**99**99985 PP

>> Amino_oxidase  Flavin containing amine oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.9   0.0   1.6e-11   2.1e-08       1     262 [.      13     261 ..      13     300 .. 0.80
   2 ?   -3.2   0.0       2.9   3.7e+03     414     448 ..     432     461 ..     371     462 .. 0.68

  Alignments for each domain:
  == domain 1  score: 33.9 bits;  conditional E-value: 1.6e-11
                              HHHHHHHHHHHHTTEEEEEEESSSSSBTTS-EEEETTEEEESS--EEET......TTHHHHHHHHHTTCCCCEEEESCCGCEEEEE CS
            Amino_oxidase   1 laGLaaArqLlsaGfdVtvlEardrvGGRirtvrsdGylielGamwftg......agnpllellkelgledslslpdpgapkrvls 80 
                              ++GLaa  +L+  + +V++lE     GG  + + ++  ++++G + +t+       g p+ +l+k+l ++ ++ ++++ + + v+ 
  PHY93_04275|PHY93_04275  13 MSGLAAGIRLSMYNKKVVILEKHTISGGLNSYYARGKRKFDVGLHALTNfidpteRGKPFNKLMKQLRIPYDQ-FKLHPQNYSVIQ 97 
                              8***************************777777778*********************************766.799888888888 PP

                              TTEECCTTEECHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCHHHHHHHHHHHHHH.HHHHHHHHH CS
            Amino_oxidase  81 kggrefpgdlspvpaewealleqgalsaellsleeklrlgleallqktldeldldskslaesleelgrrepgdvev.wdrliepel 165
                                   fp +  ++ + ++ l+e+++++     ++ ++   + +l    ++ +++ + s + ++++   +++ ++e   ++++ p  
  PHY93_04275|PHY93_04275  98 -----FPDKKLKFTNDIDFLIEEVRIN-----FPHEIDGFMSLLN--HIQNFNEVDLSNKMAMAKIVVKNFIKDESlIEMIFCP-- 169
                              .....5888899999999999955555.....4444444444444..5555777777777777777777777744424445555.. PP

                              HHHHHHHHHCHTSTTTTCBHHHHTCCCCHHHHHTSCCCEETTHTHHHHHHHHH..TTTTEEEETSEEEEEEEEETTCEEEEETTST CS
            Amino_oxidase 166 faklefasglfagdpselsaklalpllwelegfggslllprgGlsqlpealae..elrgldirlntrVkeikregdgvtvtledge 249
                                 l +  g  + + +++s+ + +++  +legf+++    +gG +++++ l +  e+ g+++r+ ++V++i   +  v+    +g+
  PHY93_04275|PHY93_04275 170 ---LLIY-GSAWENDMDFSQFVVMFKSIFLEGFSRP----EGGVRTIIDLLLKrfEECGGELRFKSEVTRIISANAQVSAVEINGN 247
                              ...3333.3334444899999999999999999999....88888888888888888****************6666555556777 PP

                              EE.EESEEEE-S-H CS
            Amino_oxidase 250 vv.eaDaVvvTvpl 262
                              ++ e+D +++ + l
  PHY93_04275|PHY93_04275 248 EIiECDNILSSMGL 261
                              777***99887766 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 2.9
                              HCHHCSTTEEE.SGGGCTTTTTSHHHHHHHHHHHH CS
            Amino_oxidase 414 akpegdprlffAGehtsreypgtvegAilSGlraA 448
                                   +++lf++G    +++  ++ g ilSG++ A
  PHY93_04275|PHY93_04275 432 TT--DIGGLFICGTD--QGF-LGIVGSILSGISMA 461
                              33..37788887777..334.44667888887766 PP

>> HI0933_like  HI0933-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.2   2.8e-06    0.0036       2      33 ..       5      36 ..       4      40 .. 0.92
   2 !   15.9   0.0   3.1e-06    0.0039     109     163 ..     206     260 ..     201     265 .. 0.94

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 2.8e-06
                             SEEEE--SHHHHHHHHHHHHTT--EEEE-SSS CS
              HI0933_like  2 dviviGgGaAGlmaAisaakrgkrVlllekak 33
                             d ++iG+G +Gl a i+++  +k+V++lek +
  PHY93_04275|PHY93_04275  5 DCVIIGAGMSGLAAGIRLSMYNKKVVILEKHT 36
                             89***************************986 PP

  == domain 2  score: 15.9 bits;  conditional E-value: 3.1e-06
                              HHHHHHHHHHHHHHT-EEE-S--EEEEECETTE.EEEEE.TTEEEEESEEEE--- CS
              HI0933_like 109 edivdallkelkeagvklrletevksvekeedgkfrvktkseeeleadklvlAtG 163
                              ++i+d+llk+ +e g +lr ++ev+++ + + ++  v+++++e +e+d+++ ++G
  PHY93_04275|PHY93_04275 206 RTIIDLLLKRFEECGGELRFKSEVTRIISANAQVSAVEINGNEIIECDNILSSMG 260
                              68***********************************************998877 PP

>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   0.1   2.2e-06    0.0028       1      33 [.       5      39 ..       5      50 .. 0.85
   2 !    9.1   0.0   0.00067      0.85     150     202 ..     210     261 ..     109     326 .. 0.85

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 2.2e-06
                             EEEEECTSHHHHHHHHHHHHTT..EEEEESSSSTT CS
                      DAO  1 dvviiGGGiiGlstAyeLarrg..Vtllekgdiag 33
                             d viiG+G+ Gl++   L+  +  V++lek+ i g
  PHY93_04275|PHY93_04275  5 DCVIIGAGMSGLAAGIRLSMYNkkVVILEKHTISG 39
                             78****************976558*******6655 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.00067
                              HHHHHHHHHTT-EEEESECEEEEEEEETCEEEEE.EECTEEE.EEEEEEEE--GG CS
                      DAO 150 aalaraaealGveilegtevtgleeedgkvwgve.rttpgen.daadavVnaaGa 202
                                l++++e+ G+e+++++evt++   + +v+ ve +   g++  ++d +  ++G+
  PHY93_04275|PHY93_04275 210 DLLLKRFEECGGELRFKSEVTRIISANAQVSAVEiN---GNEiIECDNILSSMGL 261
                              569999****************97777899999664...4433466889999996 PP

>> FAD_binding_2  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.0   0.0   1.5e-08   1.9e-05       1      43 [.       5      48 ..       5      52 .. 0.95
   2 ?    1.0   0.0      0.14   1.7e+02     139     180 ..     204     245 ..     196     260 .. 0.87

  Alignments for each domain:
  == domain 1  score: 24.0 bits;  conditional E-value: 1.5e-08
                             SEEEE--SHHHHHHHHHHHHTTT-EEEEESSSGGGS.GGGG--S CS
            FAD_binding_2  1 DviViGsGlAGLaAAleaaeaGlkvavvekeqefgg.atawsqG 43
                             D ++iG+G++GLaA+++++  ++kv+++ek    gg ++ ++ G
  PHY93_04275|PHY93_04275  5 DCVIIGAGMSGLAAGIRLSMYNKKVVILEKHTISGGlNSYYARG 48
                             88******************************999999999988 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.14
                              HHHHHHHHHHHHHHTCTEEEEESEEEEEEEECTTEEEEEEEE CS
            FAD_binding_2 139 tghallarlvesarkagvdfqerteadeLivedgrvtGavve 180
                                ++++  l++++++ g +++++ e++++i  + +v+ ++++
  PHY93_04275|PHY93_04275 204 GVRTIIDLLLKRFEECGGELRFKSEVTRIISANAQVSAVEIN 245
                              56789999************************9999999876 PP

>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.0   1.2e-06    0.0016       1      36 [.       4      38 ..       4     120 .. 0.76
   2 !    7.0   0.0    0.0024       3.1     185     244 ..     208     268 ..     192     279 .. 0.83

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 1.2e-06
                             CSEEEE--SHHHHHHHHHHHHHTS-EEEEETTHCHH CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2  1 kdvvviGgGpAGlaaaltlaqagakvtlvelegtcl 36
                             +d+v+iG+G+ Glaa ++l+ ++ kv+++ ++ t+ 
  PHY93_04275|PHY93_04275  4 YDCVIIGAGMSGLAAGIRLSMYNKKVVIL-EKHTIS 38
                             689**************************.444433 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.0024
                              HHHHHHHHHHHTTEEEEESCEEEEEEETTEEEE.EEETTSCEEEESEEEE-S-EEES-HHC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 185 lsaaleealekeGvevklgtsvkeidgngekle.vvledgeeidadlvvvavGvrpstell 244
                              + + l +++e+ G e++++++v++i++ + +++ v+ + +e i++d ++ + G+    + l
  PHY93_04275|PHY93_04275 208 IIDLLLKRFEECGGELRFKSEVTRIISANAQVSaVEINGNEIIECDNILSSMGLPETISVL 268
                              677889999*****************9999888566666666***********87666555 PP

>> Pyr_redox_3  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.5   0.1   4.6e-08     6e-05       1      43 [.       7      48 ..       7      71 .. 0.92
   2 ?    1.1   0.0      0.14   1.8e+02     218     277 ..     213     271 ..     192     288 .. 0.73

  Alignments for each domain:
  == domain 1  score: 22.5 bits;  conditional E-value: 4.6e-08
              Pyr_redox_3  1 iIiGaGPaGlaaaielkkagledylilEkgnignsiyrypkem 43
                             +IiGaG  Glaa+i l   +  +++ilEk++i+  +  y+++ 
  PHY93_04275|PHY93_04275  7 VIIGAGMSGLAAGIRLSMYNK-KVVILEKHTISGGLNSYYARG 48
                             7*******************9.7**********9999999765 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.14
              Pyr_redox_3 218 leelvkeekikvlfnaevkeikekeeeykvktedgkkvevkddvvlatGykpdlsflkks 277
                              l++  + +  ++ f++ev++i   + ++   + +g+++ + d+++  +G   ++s+l++ 
  PHY93_04275|PHY93_04275 213 LKRFEECG-GELRFKSEVTRIISANAQVSAVEINGNEIIECDNILSSMGLPETISVLDQD 271
                              44433332.48899*********9999999999999998866666669999999988864 PP

>> Thi4  Thi4 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.7   0.1   1.5e-07   0.00019      16      55 ..       2      40 ..       1      47 [. 0.92

  Alignments for each domain:
  == domain 1  score: 20.7 bits;  conditional E-value: 1.5e-07
                             TEEEEEEE--SHHHHHHHHHHHHCTTS-EEEEESSSS--T CS
                     Thi4 16 aesDvvivGaGssGLtaayylakkpdlkvailersvspGG 55
                             a+ D vi+GaG sGL+a+  l+   + kv+ile++   GG
  PHY93_04275|PHY93_04275  2 AKYDCVIIGAGMSGLAAGIRLSMY-NKKVVILEKHTISGG 40
                             678********************9.9********988887 PP

>> FAD_oxidored  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.0     1e-06    0.0013       1      39 [.       5      43 ..       5      58 .. 0.94

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 1e-06
             FAD_oxidored  1 DvvVvGGgpaGvaAAiaAaraGakvlLveergvlGGllt 39
                             D v++G+g++G+aA i      +kv+++e++   GGl +
  PHY93_04275|PHY93_04275  5 DCVIIGAGMSGLAAGIRLSMYNKKVVILEKHTISGGLNS 43
                             89**********************************976 PP

>> FAD_binding_3  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.2   5.3e-06    0.0067       2      34 ..       4      36 ..       3      41 .. 0.94
   2 ?   -0.5   0.0      0.46   5.8e+02     108     141 ..     209     242 ..     204     252 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 5.3e-06
                             EEEEEE--SHHHHHHHHHHHHTTHHEEEEESSS CS
            FAD_binding_3  2 tdVlIVGaGpaGlmlallLseaGvrvvlvekrs 34
                             +d +I+GaG +Gl ++  Ls++  +vv++ek++
  PHY93_04275|PHY93_04275  4 YDCVIIGAGMSGLAAGIRLSMYNKKVVILEKHT 36
                             6889***************************96 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.46
                              HHHHHHHHHHHTEEETCSEEEECCEECCCCCCCE CS
            FAD_binding_3 108 eriLvehaeerglqvrfktevesleqdeegvtae 141
                                +L+++ ee+g ++rfk ev+ +   + +v+a+
  PHY93_04275|PHY93_04275 209 IDLLLKRFEECGGELRFKSEVTRIISANAQVSAV 242
                              56899999**************999999999886 PP

>> Pyr_redox  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   0.2   0.00099       1.3       3      30 ..       7      34 ..       5      43 .. 0.92
   2 ?    3.1   0.0      0.11   1.4e+02      41      79 ..     207     245 ..     205     249 .. 0.86

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.00099
                             EEECSSHHHHHHHHHHHHTTSEEEEEES CS
                Pyr_redox  3 vvvGgGyiglElAgalaelgkkVtvver 30
                             v++G+G +gl ++  l+ ++kkV ++e 
  PHY93_04275|PHY93_04275  7 VIIGAGMSGLAAGIRLSMYNKKVVILEK 34
                             9***********************9986 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.11
                              HHHHHHHHHHHHTTEEEECSEEEEEEEEETTSEEEEEEE CS
                Pyr_redox  41 easkilqeklekngievllntkveeiegsedgvesvklk 79 
                              ++ ++l +++e+ g e++++++v++i   + +v++v+++
  PHY93_04275|PHY93_04275 207 TIIDLLLKRFEECGGELRFKSEVTRIISANAQVSAVEIN 245
                              5667899********************777779999875 PP

>> Lycopene_cycl  Lycopene cyclase protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   0.1    0.0051       6.5       1      31 [.       5      33 ..       5      44 .. 0.91
   2 ?    4.9   0.0    0.0091        12      93     144 ..     212     264 ..     206     296 .. 0.86

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.0051
            Lycopene_cycl  1 DvvviGaGpAglslAarlteakpglkvvlie 31
                             D v+iGaG  gl+   rl  + ++ kvv++e
  PHY93_04275|PHY93_04275  5 DCVIIGAGMSGLAAGIRL--SMYNKKVVILE 33
                             89****************..99999999997 PP

  == domain 2  score: 4.9 bits;  conditional E-value: 0.0091
            Lycopene_cycl  93 llerlv.engvklleakvesveeeeageslvvleggrkirarlvvdarglasl 144
                              ll+r+   +g  + ++ v+++  ++a  s v ++g++ i++  ++ + gl++ 
  PHY93_04275|PHY93_04275 212 LLKRFEeCGGELRFKSEVTRIISANAQVSAVEINGNEIIECDNILSSMGLPET 264
                              56666634577889************99999******************9876 PP

>> GIDA  Glucose inhibited division protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.1   0.00017      0.22       1      32 [.       5      36 ..       5      45 .. 0.90
   2 ?   -1.0   0.0      0.57   7.3e+02     115     149 ..     226     260 ..     225     290 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00017
                             CEEEE-SSHHHHHHHHHHHHTT--EEEEES-G CS
                     GIDA  1 dviViGgGhAGceAAlaaarlGakvlLithkl 32
                             d+++iG+G++G++A + ++  + kv+++ +++
  PHY93_04275|PHY93_04275  5 DCVIIGAGMSGLAAGIRLSMYNKKVVILEKHT 36
                             79***********************9996654 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.57
                              ES-EEEEEECTTEEEEEEETTS-EEEECEEEE--T CS
                     GIDA 115 eeeveeliveekkvkgvvtedgetikakavviatG 149
                              + ev+++i  + +v++v  + +e+i+++++  + G
  PHY93_04275|PHY93_04275 226 KSEVTRIISANAQVSAVEINGNEIIECDNILSSMG 260
                              6799999999999****999999999998877666 PP

>> TetR_C_1  Tetracyclin repressor-like, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00017      0.21      39      75 ..     370     406 ..     362     413 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00017
                              --HHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHH CS
                 TetR_C_1  39 lspnelrgmErlLrllrdaGlsdedavyalslisnFv 75 
                                ++ +++++++Lr+l+++Gl+ +d+ y +   + F+
  PHY93_04275|PHY93_04275 370 YKESKMEVFNQSLRILKNCGLGSNDSNYEILFKDIFT 406
                              57899********************999998888887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (468 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       411  (0.0229238); expected 358.6 (0.02)
Passed bias filter:                      336  (0.0187406); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.58u 0.23s 00:00:00.81 Elapsed: 00:00:00.42
# Mc/sec: 3340.98
//
Query:       PHY93_04280|PHY93_04280  [L=341]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    6.6e-14   51.9   0.2    2.1e-12   47.1   0.0    2.8  3  ACP_syn_III_C   3-Oxoacyl-[acyl-carrier-protein (ACP)] syntha
    1.3e-08   34.5   0.2    9.4e-08   31.8   0.2    2.4  1  ACP_syn_III     3-Oxoacyl-[acyl-carrier-protein (ACP)] syntha
    2.7e-07   30.2   0.0    4.4e-07   29.5   0.0    1.4  1  Thiolase_N      Thiolase, N-terminal domain
    0.00041   19.7   0.4    0.00078   18.8   0.4    1.5  1  FAE1_CUT1_RppA  FAE1/Type III polyketide synthase-like protei


Domain annotation for each model (and alignments):
>> ACP_syn_III_C  3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.0     0.067     3e+02       3      42 ..      75     119 ..      73     145 .. 0.70
   2 ?   -3.1   0.0       2.1   9.4e+03      30      56 ..     167     193 ..     159     197 .. 0.58
   3 !   47.1   0.0   4.6e-16   2.1e-12       5      82 ..     258     335 ..     254     339 .. 0.93

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.067
                              HTT--GGG-SEEEE-SSSHHHHHH.....HHHHHT--GGGB--TH CS
            ACP_syn_III_C   3 kagltpedidalvphqanlriida.....vakklglpeekvvvnl 42 
                              k+++++ did+l++  + + +++      v  +lglp++ ++ +l
  PHY93_04280|PHY93_04280  75 KSNIKKTDIDLLIHASVCRDFLEPatasvVHANLGLPRKTMIFDL 119
                              6899999***99999888877764200123345566666666555 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 2.1
                              HHT--GGGB--THHHH-B-GGGHHHHH CS
            ACP_syn_III_C  30 klglpeekvvvnldeyGntsaasipla 56 
                              + +++++ + + ++++   saa+ +l+
  PHY93_04280|PHY93_04280 167 NPNIDRKSIKKYIANLTIGSAATAILL 193
                              555566656556666666666666655 PP

  == domain 3  score: 47.1 bits;  conditional E-value: 4.6e-16
                              T--GGG-SEEEE-SSSHHHHHHHHHHHT--GGGB--THHHH-B-GGGHHHHHHHHHHHTTSS-TT-EEEEEEEETTTE CS
            ACP_syn_III_C   5 gltpedidalvphqanlriidavakklglpeekvvvnldeyGntsaasiplaLdeaveegklkpgdlvllvgfGaGlt 82 
                               ++++  d+++ hq+     +  ++ l+l+  k++ ++  +Gnt+++ +p++L  a+e+gk+k+g++v+l+g+G Gl+
  PHY93_04280|PHY93_04280 258 AWDNNTPDLVLTHQVGTAHEKLSLESLELTHVKTFRTYPFLGNTGSSALPITLMMAHEDGKIKKGEKVALLGIGSGLS 335
                              667778899********99999*******************************************************8 PP

>> ACP_syn_III  3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.8   0.2   2.1e-11   9.4e-08       1      77 [.     117     211 ..     117     214 .. 0.75

  Alignments for each domain:
  == domain 1  score: 31.8 bits;  conditional E-value: 2.1e-11
                              EEEE-GGGHHHHHHHHHHHHHHTTS-SEEEEEEEEEGGGCS-TT..........THHHHT......TB-EEEEEEEEEEE..SSSS CS
              ACP_syn_III   1 fDlnaaCsgfvyalsvAdaliesgaakrvLvigaetlskilDwk..........drstav......lfGDGAgAvvleas..eeeg 68 
                              fDl++aC g++ a+ vA ++i++g++k++L++++e+   ++  +          dr+++       + G +A+A++l++     +g
  PHY93_04280|PHY93_04280 117 FDLSNACLGVINAIVVAGNMIDNGQIKTALIVSGENGGPLIENTirellsnpniDRKSIKkyianlTIGSAATAILLTHRdcAPSG 202
                              9***********************************99988887555555555533333345556678888888888887655556 PP

                              CEEEEEEEE CS
              ACP_syn_III  69 arildselg 77 
                              ++il+ +++
  PHY93_04280|PHY93_04280 203 HTILGGAVE 211
                              666665555 PP

>> Thiolase_N  Thiolase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.5   0.0   9.8e-11   4.4e-07       8     114 ..      46     152 ..      44     197 .. 0.89

  Alignments for each domain:
  == domain 1  score: 29.5 bits;  conditional E-value: 9.8e-11
                              EE--EETTSTTTTS-HHHHHHHHHHHHHHHHTS-GGGCCEEEEEHSSCTTSTSCHHHHHHHHTTS-TTSEEEEEEHGGGHHHHHHH CS
               Thiolase_N   8 rtpigkfggslkdlsaeeLlaealkallekagvdpeevdevivGnvlqagegqniarqaalkagipeevpavtvnkvcsSglkava 93 
                              +t i + +   + ++ ++L++ a ++l  k ++++ ++d +i + v   + + + a  ++ ++g+p++++   + ++c   ++a++
  PHY93_04280|PHY93_04280  46 MTGIQSRRVWPSGTKPSDLSTLASEKLFLKSNIKKTDIDLLIHASVCRDFLEPATASVVHANLGLPRKTMIFDLSNACLGVINAIV 131
                              5666666667788999********************************************************************** PP

                              HHHHHHHTTSHSEEEEEEEEE CS
               Thiolase_N  94 laaqsiaageadvvvagGvEs 114
                               a ++i  g+++ ++++ +E+
  PHY93_04280|PHY93_04280 132 VAGNMIDNGQIKTALIVSGEN 152
                              **************9998887 PP

>> FAE1_CUT1_RppA  FAE1/Type III polyketide synthase-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.4   1.7e-07   0.00078      91     174 ..      69     152 ..      62     249 .. 0.93

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 1.7e-07
           FAE1_CUT1_RppA  91 vdellaktkvspkdidilvvncslfs.ptPslsamvvnryklredvksynLsgmGCsAglisidlaknllqvhkntlalvvstEn 174
                               ++l+ k++++ +did+l+ ++      +P+ +++v  + +l +  + ++Ls   C   + +i +a n++   + ++al+vs En
  PHY93_04280|PHY93_04280  69 SEKLFLKSNIKKTDIDLLIHASVCRDfLEPATASVVHANLGLPRKTMIFDLSN-ACLGVINAIVVAGNMIDNGQIKTALIVSGEN 152
                              589***************98755443158999**999***************9.7999999**********************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (341 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       295  (0.0164538); expected 358.6 (0.02)
Passed bias filter:                      271  (0.0151152); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.51u 0.19s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 2588.73
//
Query:       PHY93_17300|PHY93_17300  [L=237]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0012   18.4   0.1     0.0017   17.8   0.1    1.3  1  NQRA      Na(+)-translocating NADH-quinone reductase subunit 
  ------ inclusion threshold ------
      0.059   13.6   0.2       0.11   12.7   0.2    1.4  1  DP-EP     DP-EP family


Domain annotation for each model (and alignments):
>> NQRA  Na(+)-translocating NADH-quinone reductase subunit A (NQRA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.1   1.9e-07    0.0017      99     197 ..     100     199 ..      82     219 .. 0.81

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 1.9e-07
                     NQRA  99 eeefekfskkelaslsre.evkeqLlksGlwtalrtrPfskvaapdsepkaifvsamdtnPlaadpeviikeeeeafqaglkvlsk 183
                              + + +k +++++++ sr+  ++++Ll+sG + a +t     + + +++ + +fv   +t+Pl +    i++e++ a ++ l++l++
  PHY93_17300|PHY93_17300 100 TYKENKDKNHNVKEWSRScVLQTELLDSGKYMAWKTDQVICTKKSEQNVNCLFVIKGKTKPLIFLGFKILNEKSFAVKTKLQALNN 185
                              344445555677777776256889************************************************************** PP

                     NQRA 184 Ltegkvhvckkkea 197
                              +++   +v+ ++ +
  PHY93_17300|PHY93_17300 186 FFKIYYFVSDHNIS 199
                              **998887766544 PP

>> DP-EP  DP-EP family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.2   1.2e-05      0.11      31     116 ..     137     220 ..     118     225 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 1.2e-05
                              XEEES....SSEEEEEEEEEXSSSXXEEEEEEESSTTSSSSXEE.EEXTTSSEEEEEESSX.SXEEEEEEEEEEXSSXS...SEEE CS
                    DP-EP  31 svtVt...esavdiiyvltdesakglafvgaaietedDgnndivlslsengktlvlidkdkdsdesigfklvlaakdktskasiya 113
                              +v+ t   e++v+ ++v+++++ k+l+f g +i  e+ + ++++l++ +n + + ++ +d     +i+ kl  a  dk + +++++
  PHY93_17300|PHY93_17300 137 QVICTkksEQNVNCLFVIKGKT-KPLIFLGFKILNEKSFAVKTKLQALNNFFKIYYFVSDH----NISTKLANARFDKSKIKQELE 217
                              555557778999999*****99.89********************************9999....9*****999999988889999 PP

                              XSS CS
                    DP-EP 114 SqD 116
                              S+D
  PHY93_17300|PHY93_17300 218 SFD 220
                              999 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (237 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1034  (0.0576719); expected 358.6 (0.02)
Passed bias filter:                      366  (0.0204139); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1764.66
//
Query:       PHY93_04285|PHY93_04285  [L=294]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.4e-27   94.4   0.0    9.6e-25   87.7   0.0    2.0  1  Abhydrolase_1  alpha/beta hydrolase fold
    5.8e-15   56.5   0.0    7.2e-15   56.2   0.0    1.1  1  Abhydrolase_6  Alpha/beta hydrolase family
    6.9e-14   51.7   0.0      2e-13   50.2   0.0    1.6  1  Hydrolase_4    Serine aminopeptidase, S33
     0.0003   20.8   0.0    0.00049   20.2   0.0    1.3  1  Abhydrolase_4  TAP-like protein
     0.0029   17.2   0.0     0.0042   16.7   0.0    1.2  1  LIDHydrolase   Lipid-droplet associated hydrolase
     0.0045   16.9   0.0      0.045   13.7   0.0    2.2  1  BAAT_C         BAAT / Acyl-CoA thioester hydrolase C terminal
  ------ inclusion threshold ------
      0.022   14.3   0.1      0.041   13.4   0.0    1.4  2  DLH            Dienelactone hydrolase family
       0.11   12.1   0.0        2.5    7.7   0.0    2.3  2  FSH1           Serine hydrolase (FSH1)


Domain annotation for each model (and alignments):
>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   87.7   0.0   4.3e-28   9.6e-25       2     256 ..      45     282 ..      44     283 .. 0.80

  Alignments for each domain:
  == domain 1  score: 87.7 bits;  conditional E-value: 4.3e-28
                              EEEEE-STTTCGGGGTTGHHHHHHHHTTSEEEEEEETTSTTSSSTTTGB.CHHSHHHHHHHHHHHHHHCTTSSEEEEEETHHHHHH CS
            Abhydrolase_1   2 vlvilhGlpgssdvwaerglapaLakdgfdvillDlrGvgySspapacinddygtasvaddldrildalgddkltlvGhSmGGmia 87 
                              ++++lhG p +s  +++  la++++k +f+v+++D++G+g Ss++ +    +y++ ++ + l  ++++l++  +tlv h++GG+i+
  PHY93_04285|PHY93_04285  45 TILMLHGNPTWSFFYRN--LAKHFSK-DFRVVVPDHMGCGLSSKPQD---YEYTLKTHIENLCLLVEKLNLSDITLVVHDWGGAIG 124
                              699*********99999..*******.********************...9*********************************** PP

                              HHHHHHHGGGEEEEEEESE.....CSSCCHHHHHHHHHHHHHHCHHCHHHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHCHHH CS
            Abhydrolase_1  88 layaaeyperVkalvllga.....idpaaslieaqrqqaksfpdffdgyaadcarnpagplladelaaleqrhrlvdalkfpdksk 168
                              + +a +yp+ +k++v +++     ++ +a ++ ++  + ++f + f+g+a +               a++  ++++   +++ ++ 
  PHY93_04285|PHY93_04285 125 MGLATRYPHLIKKMVVMNTaafrsMEIPARINILKNPIGQWFIRSFNGFAGPA-----------TFMATTKGLSPL---VKKGFTL 196
                              *******************5555555555555555555555555555555443...........333333333322...2245555 PP

                              CCHHHHHHHCHHHHHHHHHHHHHHHHCCHHHHHHHHHCTHHHHSEEEEEEETTCSSSCHHHHHHHHHCHTSEEEEEEETCSSSHHH CS
            Abhydrolase_1 169 rfpssgsdnasslatgalksieqwpttdsaklllrlrelknvlaptlvisgtsDplvppkaledlaqllpkkrlvvisdagHlafl 254
                               +   +s++a+ +  +++   ++ pt+++ k + +      ++ap+l+++g++D +++ + + ++ + +p+++ ++++ agH+++ 
  PHY93_04285|PHY93_04285 197 PYHDYESRIATAKFVQDIPMNDTHPTYQTLKDIEEKLP--TIKAPILLLWGEKDFCFTMNFQKRWLNIFPNAKSITYPEAGHYLIE 280
                              55555556777777777777777777777777777776..8888***************9999999****************9988 PP

                              HS CS
            Abhydrolase_1 255 eg 256
                              ++
  PHY93_04285|PHY93_04285 281 DE 282
                              76 PP

>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.2   0.0   3.2e-18   7.2e-15       1     213 [.      46     282 ..      46     289 .. 0.61

  Alignments for each domain:
  == domain 1  score: 56.2 bits;  conditional E-value: 3.2e-18
                              EEEE--GC.....GCHHHHHHHHCCTCEEEEE--TTST.S-GGCS--HHH...CHHHHHHHCCTT..TTSEEEEEETCHHHHHHHH CS
            Abhydrolase_6   1 vlllHGagssassWlvapLaallaagvhvlapDlpGhG.rsdpppldled...ladlaalldelaagggpvvlvGHSlGGalalaa 82 
                              +l+lHG ++  +s+++++La+ ++++++v++pD  G+G +s p +++++    ++ l  l+++l     ++ lv H++GGa+++  
  PHY93_04285|PHY93_04285  46 ILMLHGNPT--WSFFYRNLAKHFSKDFRVVVPDHMGCGlSSKPQDYEYTLkthIENLCLLVEKLN--LSDITLVVHDWGGAIGMG- 126
                              79****998..55579*********************9444444455544555677788999996..9*************8888. PP

                              HHCC.......EE.EEES-..----TTTS----TTHHHHHH........TT-C...CCCH.CCH.........S-HSCCCCHHHCC CS
            Abhydrolase_6  83 apla.....lvvg.vlldppptalpagllaaalelllalla........llrl...lawl.sre.........plprlfladedad 141
                                la     l+ + v++++   a++  +++a++++l+ +++           +   ++++ +            ++ ++++     
  PHY93_04285|PHY93_04285 127 --LAtryphLIKKmVVMNT--AAFRSMEIPARINILKNPIGqwfirsfnG--FagpATFMaT-TkglsplvkkGFTLPYHD----- 200
                              ..33333565555999999..45555557777777775555332222221..0111222221.122222111111113333..... PP

                              CCHCHCCCGHHHHCCHHCHTT........CCHHTT-TTGCEEEC.TT-C..HHHHCHHCCCH.STTEEETCE...SSS-HHHHS CS
            Abhydrolase_6 142 aawrarlarlaallaglgllp........aaawadlpvpllvlg.geDp..lvprllerlla.qagarlpvvlpgaGHlphlee 213
                              ++ r + a   +  ++++++p         + ++++ +p+l+l+ ++D   ++  + +r+l   + a+  +++p aGH++ ++e
  PHY93_04285|PHY93_04285 201 YESRIATAKFVQDIPMNDTHPtyqtlkdiEEKLPTIKAPILLLWgEKDFcfTMN-FQKRWLNiFPNAKS-ITYPEAGHYLIEDE 282
                              444444444445555555443322333335566666666688873555576333.3447777*9*****.********998855 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.2   0.0     9e-17     2e-13       5     238 ..      44     282 ..      42     283 .. 0.81

  Alignments for each domain:
  == domain 1  score: 50.2 bits;  conditional E-value: 9e-17
              Hydrolase_4   5 avvvlvHGlaehsgryaelaeaLaaqGfavyalDhrGhGrsegkrghvpsfddyvdDlaafvekvkeehpelplfllGhSmGGlia 90 
                              ++++++HG    s  y +la+++  ++f v+  Dh G G s   + +   ++++++ l  +vek+      + ++l+ h +GG+i 
  PHY93_04285|PHY93_04285  44 QTILMLHGNPTWSFFYRNLAKHFS-KDFRVVVPDHMGCGLSSKPQDYEYTLKTHIENLCLLVEKLN----LSDITLVVHDWGGAIG 124
                              5899******************97.58***************99999**************99998....6689************ PP

              Hydrolase_4  91 llyllrypdkvaglilsaPalkikaklkappllklllkllgkllpklqv................snnlkadslsrdpevvaayea 160
                              + +++ryp+ +++++++++a     ++ + ++  l + + +++++++                    ++ ++   +d e   ++++
  PHY93_04285|PHY93_04285 125 MGLATRYPHLIKKMVVMNTAAFRSMEI-PARINILKNPIGQWFIRSFNGfagpatfmattkglspLVKKGFTLPYHDYES--RIAT 207
                              ******************998777665.3444444344444444444444457777777788744444445555555544..4455 PP

              Hydrolase_4 161 dplvhgkitvrlllelldamkrleeraakitlPllllhGeaDkvvdpeasrelyerlgskdktlklypglyHellnEp 238
                               ++v ++i ++  +  ++++k++ee+ + i++P+lll Ge+D    ++ +++ ++  +  + +  +yp++ H l+ ++
  PHY93_04285|PHY93_04285 208 AKFV-QDIPMNDTHPTYQTLKDIEEKLPTIKAPILLLWGEKDFCFTMNFQKRWLNIFP--NAKSITYPEAGHYLIEDE 282
                              5555.556666678999*****************************************..689999******998775 PP

>> Abhydrolase_4  TAP-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.2   0.0   2.2e-07   0.00049      28      91 ..     230     294 .]     208     294 .] 0.85

  Alignments for each domain:
  == domain 1  score: 20.2 bits;  conditional E-value: 2.2e-07
            Abhydrolase_4  28 estakg.aapvLllqnerDpaTPyegakklakalggavlvtvegeGHgalaagntCvdkavdaYL 91 
                              e++ ++ +ap+Lll +e D    ++ +k+  + +++a+ +t+ ++GH  +++++++v + ++++L
  PHY93_04285|PHY93_04285 230 EEKLPTiKAPILLLWGEKDFCFTMNFQKRWLNIFPNAKSITYPEAGHYLIEDEKSAVISEIEKFL 294
                              333344479******************************************99****9***9998 PP

>> LIDHydrolase  Lipid-droplet associated hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.0   1.9e-06    0.0042       4     116 ..      45     140 ..      42     151 .. 0.86

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 1.9e-06
             LIDHydrolase   4 livlipGNPGlveFYetFlsllseklnpelevlgishaGfeleeeekeakenekvfsLedQiehkedflkellekaksekdvklil 89 
                              +i+++ GNP  + FY++ +++ s+     + v++  h+G  l+++      ++  ++L+  ie    ++++l         +++ l
  PHY93_04285|PHY93_04285  45 TILMLHGNPTWSFFYRNLAKHFSKD----FRVVVPDHMGCGLSSKP-----QDYEYTLKTHIENLCLLVEKLN-------LSDITL 114
                              79***************99999888....9************9999.....88899***99999999998863.......578888 PP

             LIDHydrolase  90 vGHSvGaYialevlkrlsersikkvvl 116
                              v H  G  i + +++r+++  ikk+v+
  PHY93_04285|PHY93_04285 115 VVHDWGGAIGMGLATRYPHL-IKKMVV 140
                              88999988888888888887.777665 PP

>> BAAT_C  BAAT / Acyl-CoA thioester hydrolase C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.7   0.0     2e-05     0.045      20     163 ..     108     278 ..      98     290 .. 0.65

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 2e-05
                              --SSEEEEEETHHHHHHHHHHHHSS.SEEEEEEES--SB--SSEEEETTE...........................EE----B-G CS
                   BAAT_C  20 kkdkigllGiSkGgelalllasflk.kisavvlingsavvvegklvykdes.........................kvlpelklsm 79 
                              + ++i+l+ +  Gg +++ la++++  i+ +v++n +a+ + +  ++ +                           k l +l ++ 
  PHY93_04285|PHY93_04285 108 NLSDITLVVHDWGGAIGMGLATRYPhLIKKMVVMNTAAFRSMEIPARINILknpigqwfirsfngfagpatfmattKGLSPLVKKG 193
                              55678888889999999999999998899998888877755433333322236668999988888888876665553444444444 PP

                              GG-EE..-TTS-EE-TT-B--TTTG...GGCCCB--GGG-....-SEEEEEEETT-SSS-HHHHHHHHHHHHHCTT--.--EEEEE CS
                   BAAT_C  80 eklkv..nknglldivdvlallkek...laekalipveka....kgpillvvgedDknwpSkesaekaserLkkagkkvevqlltY 156
                               +l    + + ++ +++ ++++  +   +++++l ++e+     k+pill+ ge+D ++  ++  +     L  + ++ + + +tY
  PHY93_04285|PHY93_04285 194 FTLPYhdY-ESRIATAKFVQDIPMNdthPTYQTLKDIEEKlptiKAPILLLWGEKDFCFTMNFQKR----WL--NIFP-NAKSITY 271
                              44433641.33333333334333330004455555666545556**************99888773....33..3455.668899* PP

                              TTB-S-- CS
                   BAAT_C 157 pkaGHli 163
                              p+aGH++
  PHY93_04285|PHY93_04285 272 PEAGHYL 278
                              *****97 PP

>> DLH  Dienelactone hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.9   0.0       3.7   8.4e+03     107     119 ..     119     131 ..     112     140 .. 0.68
   2 ?   13.4   0.0   1.8e-05     0.041     132     194 ..     225     283 ..     206     292 .. 0.81

  Alignments for each domain:
  == domain 1  score: -3.9 bits;  conditional E-value: 3.7
                      DLH 107 mGGalalllaaev 119
                              +GGa+ + la++ 
  PHY93_04285|PHY93_04285 119 WGGAIGMGLATRY 131
                              6777777777666 PP

  == domain 2  score: 13.4 bits;  conditional E-value: 1.8e-05
                      DLH 132 spekeleeaakikapilalfgeeDefipadevekleealkaanvdlelkvYpgagHaFandsr 194
                              +++   e+ + ikapil l ge+D  ++++     ++   +  ++++   Yp+agH   +d++
  PHY93_04285|PHY93_04285 225 TLKDIEEKLPTIKAPILLLWGEKDFCFTMNF----QKRWLNIFPNAKSITYPEAGHYLIEDEK 283
                              55666778899******************95....555555568899999******8877776 PP

>> FSH1  Serine hydrolase (FSH1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   0.0     0.081   1.8e+02       5      30 ..      44      69 ..      41      89 .. 0.73
   2 ?    7.7   0.0    0.0011       2.5     156     201 ..     232     277 ..     193     282 .. 0.79

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.081
                     FSH1  5 kkiLcLhGytqsgeiFraktsalrkl 30
                             ++iL+LhG  + + ++r+  +++ k 
  PHY93_04285|PHY93_04285 44 QTILMLHGNPTWSFFYRNLAKHFSKD 69
                             689*****988776666544444443 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.0011
                     FSH1 156 eedkiqtptLhvlGelDtvvdeerseaLaeafknsskvlkHpggHf 201
                              + + i+ p+L + Ge+D++ + +  ++  + f n + + + + gH+
  PHY93_04285|PHY93_04285 232 KLPTIKAPILLLWGEKDFCFTMNFQKRWLNIFPNAKSITYPEAGHY 277
                              45678*****************************555555566887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (294 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       383  (0.021362); expected 358.6 (0.02)
Passed bias filter:                      372  (0.0207485); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 2144.00
//
Query:       PHY93_04290|PHY93_04290  [L=546]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    6.4e-64  216.1   0.0    8.7e-64  215.7   0.0    1.2  1  AMP-binding  AMP-binding enzyme
  ------ inclusion threshold ------
       0.13   12.5   0.6       0.26   11.5   0.6    1.6  1  DUF3420      Domain of unknown function (DUF3420)


Domain annotation for each model (and alignments):
>> AMP-binding  AMP-binding enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  215.7   0.0   9.7e-68   8.7e-64       4     422 ..      10     441 ..       7     442 .. 0.80

  Alignments for each domain:
  == domain 1  score: 215.7 bits;  conditional E-value: 9.7e-68
                              HHHHSTTSEEEEE........CCSTEEEEHHHHHHHHHHHHHHHHHTTSSTT-EEEEEESSSHHHHHHHHHHHHTT-EEEEEETTS CS
              AMP-binding   4 qaaktpdkvalvd........sgegqtlTYreldervnrlAagLrslGvkkgdrVaillpnspewvvallailkaGavvvplnptl 81 
                              +a+ tpdk a+v+        + ++ +lT++eld  +n++A  L++lG+kkgdr +++l++s+++ ++ +a++k+G+v+v ++p++
  PHY93_04290|PHY93_04290  10 NAKATPDKKAVVFprfnkktkRYDYSSLTFKELDILSNKYALQLQKLGLKKGDRTLLFLKPSLDFSAMTFALFKLGVVPVFIDPGM 95 
                              7999***************99888************************************************************** PP

                              -HHHHHHHHHHHTESEEEETCTCCC.HHHHHHHHSCC.-EECEEEEESCCS-HCCHCCCHCCCCSCTTS-TSCCCS-BTTSEEEEE CS
              AMP-binding  82 taeelayiledseakvliatvdsel.leklleaaakl.eavklvivldadellkeeelkeeeeseekaekpeeeeelkpddlayii 165
                              +   l  ++++s++  li   +++    kl    +++ ++vk  i   +  + k  +  +++ ++ek +    ++e +p+d+a i+
  PHY93_04290|PHY93_04290  96 GISNLLKCIKESRPVGLI--AEKQIhFLKLF--YPDVfKTVKMNITNGSLTWGK--MISIKKMKKEKVQ-SFSPVEFDPEDTAAIL 174
                              ******************..44444333332..333303444444444444444..4444443333332.4577899********* PP

                              EE--SSSS-EEEEEEHHHHHHHHHHHHHHHCSCCTTT-EEEESS-TTSCHHHHHHHHHHHHTT-EEEE-TTCGCCH....HHHHHH CS
              AMP-binding 166 YTSGTTGkPKGVmlshrnlvanvaslkletrfklkeddvvlsilplahifglilelllallsGatvvllpkdaald....pkllle 247
                              +TSG TG+PKGV+++h+ + ++++ l  ++  kl+++d  +            l+ l++++ G+t ++++ d++ +    pk l++
  PHY93_04290|PHY93_04290 175 FTSGGTGTPKGVVYTHNIFDQQTTML--QDLYKLTKNDIDMPGF--------PLFSLFTIAMGMTSCIPDMDPTKPgscdPKKLVQ 250
                              ****************9988886665..3334544445433333........34455677889999999988874447789999** PP

                              HHHHHT-SEEEEEHHHHHHHHHCCCHHCHHHHCCGTT-SEEEEESS-EBHHHHHHHHHHHTC.EEEEEEEEGGGSSECEE...... CS
              AMP-binding 248 lieklkvtviagvPrvleallesgalkaakkakdlsslrlvllggeplspellrffralfge.evlegYGlTEttgvvtv...... 326
                               i + ++t++ag P+++e++++   ++       l+ +++v++ g+p+s +l r+f+ l+++ + +  YG TE+++v  +      
  PHY93_04290|PHY93_04290 251 NIYDQSPTFVAGSPAIWERVADYCLEE----GLVLPTIKYVVMFGAPVSVKLHRKFKTLLPNgTTYTPYGATEALPVSNIsgefvl 332
                              ********************9953333....4599****************************99*************66678888 PP

                              .....CHCTTTCTSTTS-BEE-TTEEEEEE-TTTSCBEE........TTSEEEEEEEETTS-SEBTT-HHHHHHHEEE..TCC.EE CS
              AMP-binding 327 .....lpleedkkklgsvGkplpgvevkivDeetgepvp........dgeeGellvrgpgvmkgYlkkpeataeafds..egr.wl 396
                                   l++e+       +G++ pgve+ki+   +    +         +e+Ge+ ++gp   + Yl+ p++t+ea +   ++  w 
  PHY93_04290|PHY93_04290 333 kntaqLTDEG---HGTCIGQAAPGVEIKIIKITDDVISRfnenlelpLKEVGEIIIKGPVASREYLNLPDKTREAKIYdvNDTfWH 415
                              9763333222...34456************765333332445555559999***********************9664344667** PP

                              EEEEEEEEETTSEEEEEEECCCEEEE CS
              AMP-binding 397 rTGDlgrldedGyleivgRkkdlikl 422
                              r GDlg++de+G l+++gRk +++ +
  PHY93_04290|PHY93_04290 416 RMGDLGFIDENGLLWFCGRKAHMVTT 441
                              ***********************975 PP

>> DUF3420  Domain of unknown function (DUF3420)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.6   2.9e-05      0.26       1      31 [.     513     544 ..     513     546 .] 0.89

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 2.9e-05
                  DUF3420   1 dLdreiLEKeLPievlakIkelRlksslp.sl 31 
                              ++ +++L K+ P +v   Ik  Rlk++++ ++
  PHY93_04290|PHY93_04290 513 NIQKIYLSKSFPVDVRHNIKIDRLKLKEEiEH 544
                              68899**********************97544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (546 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       324  (0.0180713); expected 358.6 (0.02)
Passed bias filter:                      294  (0.016398); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.59u 0.21s 00:00:00.80 Elapsed: 00:00:00.43
# Mc/sec: 3850.21
//
Query:       PHY93_04295|PHY93_04295  [L=331]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.8e-57  193.9   0.0    3.6e-57  193.5   0.0    1.1  1  3Beta_HSD        3-beta hydroxysteroid dehydrogenase/isomeras
    1.4e-37  129.5   0.1    1.7e-37  129.2   0.1    1.1  1  Epimerase        NAD dependent epimerase/dehydratase family
    2.5e-20   73.2   0.0    1.5e-19   70.6   0.0    2.0  2  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
    2.4e-17   62.9   0.0    9.6e-13   47.9   0.0    2.2  2  NAD_binding_4    Male sterility protein
    4.8e-14   52.7   0.0    6.4e-14   52.3   0.0    1.2  1  NAD_binding_10   NAD(P)H-binding
    1.3e-11   44.2   0.0    1.7e-11   43.8   0.0    1.1  1  RmlD_sub_bind    RmlD substrate binding domain
    1.5e-10   40.7   0.0    7.3e-10   38.5   0.0    2.2  1  Polysacc_synt_2  Polysaccharide biosynthesis protein
    4.3e-07   29.7   0.0      7e-07   29.0   0.0    1.3  1  NmrA             NmrA-like family
     0.0017   17.8   0.1     0.0072   15.8   0.1    2.2  1  adh_short        short chain dehydrogenase
  ------ inclusion threshold ------
      0.071   13.0   0.1        1.4    8.8   0.1    2.4  1  KR               KR domain
       0.13   12.4   0.0        9.2    6.4   0.0    2.3  2  Ldh_1_N          lactate/malate dehydrogenase, NAD binding do


Domain annotation for each model (and alignments):
>> 3Beta_HSD  3-beta hydroxysteroid dehydrogenase/isomerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  193.5   0.0   2.2e-60   3.6e-57       1     271 [.       7     257 ..       7     266 .. 0.91

  Alignments for each domain:
  == domain 1  score: 193.5 bits;  conditional E-value: 2.2e-60
                3Beta_HSD   1 vvtGgaGFlGralvkeLvrleelkevrvlDlrespelleelskvnvkkviegDvtdkdkleealegvdvvihlaslvdvagklted 86 
                              ++tG++GFlG+++ +eL++ +   +v ++   e +     l +++v     gD+++ +++++al+g+d+vih+as+v + g  +ed
  PHY93_04295|PHY93_04295   7 LITGAGGFLGSYIARELIKKNY--QVFSFSRSEYS----FLGELGVS-QRLGDLKNYHDVKNALNGMDAVIHTASMVGMWG-RYED 84 
                              69*****************994..66655443333....45666666.567******************************.4445 PP

                3Beta_HSD  87 eimkvnvkGTrnvleacvkagvrvlvYtSsaevvgpnslgeeilngdEeleyeslhqdaypesKalaEklvlkaNgrtlknggrly 172
                               +   nv GT+nvl a ++ g+r+lvYtS+ +vv++    e +   dE+++y++ +   y+++Ka+aEk+vl+aN+    ng  l+
  PHY93_04295|PHY93_04295  85 -FFATNVTGTENVLRAMKELGIRKLVYTSTPSVVFG---RESLCGVDETTPYPEHYLTYYAKTKAIAEKMVLRANQDLDVNG--LC 164
                              .899********************************...9999999******************************766777..** PP

                3Beta_HSD 173 TcaLRpagiyGegdkllvpllkqlaklglalfkigdeevlsdrvYvgNvawahilAaralqdpkkkssvagqayfisddsPvesyd 258
                               +aLRp  i+G+gd  lvp++ ++ k+g  l  igd e+l+d  Yv+N a ah++A  +l+ +     +ag+ayf   + P +  +
  PHY93_04295|PHY93_04295 165 AVALRPHLIFGPGDMNLVPRVIEAQKKG-RLKIIGDGENLVDVLYVENAAAAHVMALEKLEFN---HPIAGHAYFLG-QGPIK-LW 244
                              ****************************.8999***************************999...89*******96.57999.** PP

                3Beta_HSD 259 dfnltllkelgle 271
                              df  t+l + g++
  PHY93_04295|PHY93_04295 245 DFTNTILTKAGHP 257
                              *******999986 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  129.2   0.1     1e-40   1.7e-37       1     233 [.       6     227 ..       6     237 .. 0.90

  Alignments for each domain:
  == domain 1  score: 129.2 bits;  conditional E-value: 1e-40
                              EEEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHCEEEE--TT-HHHHHHHHHHHT-SEEEE--S.---HHHHHHSHH CS
                Epimerase   1 ilVtGatGfiGsalvkallekgyevigldrlssasntarledlelveldltdrsalerlfkeeqpdavihlAa.vggvaassedpa 85 
                              +l+tGa Gf+Gs+++++l +k+y+v  ++r ++++  ++    +   +dl++  +++++++  ++davih A  vg +++     +
  PHY93_04295|PHY93_04295   6 VLITGAGGFLGSYIARELIKKNYQVFSFSRSEYSFLGELGV--SQRLGDLKNYHDVKNALN--GMDAVIHTASmVGMWGR----YE 83 
                              79*****************************8888766655..7779**************..9*******998888888....58 PP

                              HHHHHHTHHHHHHHHHHHHHTCTEEEEEEE.GGGGTSCSSSSBSTCSTTS--..--SSHHHHHHHHHHHHHHHHHHHH...T-EEE CS
                Epimerase  86 dfieknlqgtlnlleaarkagvkrllflsS.sevYGkdaeqpkeettltgpl..kpnspYaaaKlageklveayaaqy...glnai 165
                              df+ +n+ gt n+l a+++ g+++l++ s+ s v+G+      +ett   p+  +  + Ya +K+ +ek+v +++++    gl a+
  PHY93_04295|PHY93_04295  84 DFFATNVTGTENVLRAMKELGIRKLVYTSTpSVVFGRESLCGVDETT---PYpeHYLTYYAKTKAIAEKMVLRANQDLdvnGLCAV 166
                              9*****************************9999**99984356666...7777*********************985223699** PP

                              EEEESEEESTTS-TTSTTSHHHHHHHHHHTTSSSEEEETTST-EEEEEEHHHHHHHHHHHHHHHTT-S CS
                Epimerase 166 ilrlfnlyGprngegevsrvipalirkilegkqevtllgdgtalRdflyveDvaeaillvlehvdagd 233
                              +lr+  ++Gp+     + +++p++i+  ++g+  ++++gdg++l d lyve +a a++++le+ +++ 
  PHY93_04295|PHY93_04295 167 ALRPHLIFGPG-----DMNLVPRVIEAQKKGR--LKIIGDGENLVDVLYVENAAAAHVMALEKLEFNH 227
                              ***********.....***********99998..*****************************88853 PP

>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.6   0.0   9.4e-23   1.5e-19       1     241 [.       7     224 ..       7     276 .. 0.83
   2 ?    0.3   0.0      0.22   3.6e+02     312     331 ..     309     328 ..     279     329 .. 0.89

  Alignments for each domain:
  == domain 1  score: 70.6 bits;  conditional E-value: 9.4e-23
                              EEETTTSHHHHHHHHHHHHCT-CCEEEEEEESS-TTHHHHHCTTT...TTGCCEEEEE--TT-HHHHHHHHHHHT-SEEEE--S-- CS
            GDP_Man_Dehyd   1 LiTGiaGfiGsylaelLlekgyevhgivrrsssfntgriehlakdpkeeleenlklhkgDltDssslerllaevqpdevynLAAqs 86 
                              LiTG  Gf Gsy+a+ L++k+y+v+ + r ++sf  g++     ++            gDl++ + ++++l+ +  d+v++ A + 
  PHY93_04295|PHY93_04295   7 LITGAGGFLGSYIARELIKKNYQVFSFSRSEYSFL-GEL---GVSQ----------RLGDLKNYHDVKNALNGM--DAVIHTASMV 76 
                              9*************************999888864.444...3222..........369*************98..9****99877 PP

                              -HHHHTTSHHHHHHHHTHHHHHHHHHHHHCT..TTSEEEEEEE.GGGG-S-SSSSB-TTS----..-SHHHHHHHHHHHHHHHHHH CS
            GDP_Man_Dehyd  87 hVdvsfekPeytaevnvlGtlrLLeairalglekkvrfyqaSt.sEvYGkvqevpqtEttpfyP..rsPYaaaKlyadwivvnyre 169
                                   +   e ++ +nv+Gt ++L a+++lg++   +++ +St s v+G+ +   ++Ettp+       Ya +K++a+ +v   ++
  PHY93_04295|PHY93_04295  77 GMWGRY---EDFFATNVTGTENVLRAMKELGIR---KLVYTSTpSVVFGRESLCGVDETTPYPEhyLTYYAKTKAIAEKMVLRANQ 156
                              665555...56********************96...56666664899**************96522689************99998 PP

                              HH---...EEEEEE-EEESTTS-TTSCCCHHHHHHHHHHTTS-C-EECTTTT-EEEEEEHHHHHHHHHHHHHCSS CS
            GDP_Man_Dehyd 170 ayglf...avngilfnhesprrgetfvtrkitravarialgkqevlylGnldakRdwghvkDyveamwlmlqqdk 241
                                ++    av  +     +p        ++++r++   ++g+ +++  G++++  d ++v+  + a +++l++ +
  PHY93_04295|PHY93_04295 157 DLDVNglcAVALRPHLIFGPG-----DMNLVPRVIEAQKKGRLKII--GDGENLVDVLYVENAAAAHVMALEKLE 224
                              866651004444444445555.....6899******9999997765..********************9999765 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.22
                              HHHHHH----SS-HHHHHHH CS
            GDP_Man_Dehyd 312 kakeeLgWkpkvsfeelvre 331
                               ++ +Lg+ p++s+ee++++
  PHY93_04295|PHY93_04295 309 NLEADLGYGPSISIEEGINR 328
                              67899************976 PP

>> NAD_binding_4  Male sterility protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.9   0.0   2.8e-05     0.046       1      26 [.       8      31 ..       8      39 .. 0.85
   2 !   47.9   0.0   5.9e-16   9.6e-13      80     241 ..      58     200 ..      48     216 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 2.8e-05
                             EE-TTSHHHHHHHHHHHHHS-.TEEE CS
            NAD_binding_4  1 lTGaTGFLGkvLlekLLrttpevkiy 26
                             +TGa GFLG+++ ++L++++   +++
  PHY93_04295|PHY93_04295  8 ITGAGGFLGSYIARELIKKNY--QVF 31
                             8****************9987..455 PP

  == domain 2  score: 47.9 bits;  conditional E-value: 5.9e-16
                              HHHHHHHH--EEEE--SS-S.STTSSEEHHHHHHHHHHHHHHHTSSS--.-EEEEEE.GGGTTS-TTT--SSS-H......HHH-- CS
            NAD_binding_4  80 dlqelaeevdviihsaAtvnfdepykellrvNveGtrevlelakklkklkvllhvST.ayvngeregeveekvyeegekeeklded 164
                              d+++  + +d++ih a  v + ++y++++++Nv+Gt++vl+  k+l     l++ ST ++v g ++                  ++
  PHY93_04295|PHY93_04295  58 DVKNALNGMDAVIHTASMVGMWGRYEDFFATNVTGTENVLRAMKELGIR-KLVYTSTpSVVFGRES-LC-------------GVDE 128
                              677788999***********************************99988.9******999999888.33.............4566 PP

                              EEEETTTCCCHHHHHHHHHHHHHHHHHHHH---E.....EEEEE-EEE--SSST---TTSHHHHHHHHHHHH-EEES-SB-- CS
            NAD_binding_4 165 eraklkglpntYeqsKalaEklvrearrrsglpv.....vivRpsiitgesktGwingsdlgirgllgliakgvlpeilgdk 241
                              +    + + + Y ++Ka+aEk+v +a++  +l v     v +Rp  i g   +G +n        ++ + +kg+l+ i+gd 
  PHY93_04295|PHY93_04295 129 TTPYPEHYLTYYAKTKAIAEKMVLRANQ--DLDVnglcaVALRPHLIFG---PGDMNLVP----RVIEAQKKGRLK-IIGDG 200
                              66778888899***************94..4543334439999999998...44444333....445555555555.55554 PP

>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.3   0.0   3.9e-17   6.4e-14       1     141 [.      10     163 ..      10     195 .. 0.78

  Alignments for each domain:
  == domain 1  score: 52.3 bits;  conditional E-value: 3.9e-17
                              TTTSHHHHHHHHHHHHC-T-EEEEEETTHHHCHHHHCTTTCEEEE--TT-CCHHHHHHTT-SEEEES-......--TCC....... CS
           NAD_binding_10   1 GAtGkvGrllvkellargghevtalvRnpeklaeleaeeglevvegdvtdvedlaealkgadaVvsal......ggggk....... 73 
                              GA G  G+++++el+++ +++v  + R++ ++     e g++   gd+ +  d+++al+g daV+ ++      g   +       
  PHY93_04295|PHY93_04295  10 GAGGFLGSYIARELIKK-NYQVFSFSRSEYSFL---GELGVSQRLGDLKNYHDVKNALNGMDAVIHTAsmvgmwG---Ryedffat 88 
                              9****************.6********999985...4689****************************6664432...24456655 PP

                              HHHHHHHHHHHHHHCT--EEEEEEETTT..TSGCGCH...HHHHHHHCCHHHHHHHHHHHHH.HHH.SSSEEEEE CS
           NAD_binding_10  74 deegaknivdaakeagvkRfvlvsaigv..gdevpge...fgewnkellkaylaakraaeel.lra.sgldwTiv 141
                              + +g++n+++a+ke g++++v+ s+  v  g+e+      + ++ ++ l +y++ k+ ae++ lra  +ld   +
  PHY93_04295|PHY93_04295  89 NVTGTENVLRAMKELGIRKLVYTSTPSVvfGRESLCGvdeTTPYPEHYLTYYAKTKAIAEKMvLRAnQDLDVNGL 163
                              6666*********************99833333322211133444567788888899999963565456765544 PP

>> RmlD_sub_bind  RmlD substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.8   0.0     1e-14   1.7e-11       2     232 ..       5     255 ..       4     270 .. 0.81

  Alignments for each domain:
  == domain 1  score: 43.8 bits;  conditional E-value: 1e-14
                              EEEEESTTSHHHHHHHHHCTTTSEEEEEE-TT.............T--TTSHHHHHHHHHHH--SEEEE------HHHHHHSHHHH CS
            RmlD_sub_bind   2 kilvtGanGqlGseLakqlaeeglevlaltre.............eldltdaeavaellkeakpdvvvnaAAytavDkaEseeeaa 74 
                              k+l+tGa+G lGs +a++l +++++v +++r+               dl++ + v+++l+    d+v+++A    +       e  
  PHY93_04295|PHY93_04295   5 KVLITGAGGFLGSYIARELIKKNYQVFSFSRSeysflgelgvsqrLGDLKNYHDVKNALNG--MDAVIHTASMVGMW---GRYEDF 85 
                              79***************************99999999999999877799999999999988..889*****887655...467778 PP

                              HHHHTHHHHHHHHHHHHCT-.EEEEEEEGGGS-S-TTS-B-TTS----...SSHHHHHHHHHHHHHHH.......H-SSEEEEEE- CS
            RmlD_sub_bind  75 yavnaeavealAeaaaavga.lLihvStDyVFdGekkrpYeeddetsP...lnvYGrtKlaGEqavla.......agkkalivRts 149
                              +a n++++e++ +a ++ g+ +L++ St  V  G+++     + ++ P   l++Y++tK+  E++vl        +g  a+ +R  
  PHY93_04295|PHY93_04295  86 FATNVTGTENVLRAMKELGIrKLVYTSTPSVVFGRESLCGVDETTPYPehyLTYYAKTKAIAEKMVLRanqdldvNGLCAVALRPH 171
                              9******************956******99888885543333333333444789************9955555545557888**** PP

                              SEESSSSS-HHHHHHHHHHH-SEEEEESS..-EE--EEHHHHHHHHHHHHHHCHH.GGG-EEEE---BS-EEHHHHHHHHHHHHC CS
            RmlD_sub_bind 150 wvygekgknfvktmlrlakereelkvvaD..qlgsPTsardlAevllqllekaaeekelagvyHlanegetswlefArailkeag 232
                               ++g  + n+v ++++ a+++ +lk++ D   l    ++++ A++ + +lek   ++ +ag   + ++g +   +f + il +ag
  PHY93_04295|PHY93_04295 172 LIFGPGDMNLVPRVIE-AQKKGRLKIIGDgeNLVDVLYVENAAAAHVMALEKLEFNHPIAGHAYFLGQGPIKLWDFTNTILTKAG 255
                              *************998.56678899999833455667888888888888888888788888888888888888888888887776 PP

>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.5   0.0   4.5e-13   7.3e-10       1     130 [.       6     115 ..       6     167 .. 0.87

  Alignments for each domain:
  == domain 1  score: 38.5 bits;  conditional E-value: 4.5e-13
                              EEEETTTSHHHHHHHHHHHHHB-SEEEEEES-HHHHHHHHHH......-TTEEEE....E--TT-HHHHHHHTT..T-SEEEE--- CS
          Polysacc_synt_2   1 vlvtGagGsiGselvrqilkkkpkkiillerdElklyeiekeleeelkkkklkveivpvigdvrdkerlekaleelkvdvvfhaAA 86 
                              vl+tGagG +Gs + r+++kk+  +++ ++r+E++      el        ++    + +gd+++ + +++al+  ++d+v+h+A 
  PHY93_04295|PHY93_04295   6 VLITGAGGFLGSYIARELIKKNY-QVFSFSRSEYSFL---GEL-------GVS----QRLGDLKNYHDVKNALN--GMDAVIHTAS 74 
                              89*****************9886.6899****98764...444.......222....349**************..*********9 PP

                              ---HHHHHHSHHHHHHHHHHHHHHHHHHHHHTT-SEEEEEEEGG CS
          Polysacc_synt_2  87 lKhVPlveenpleaiktNvlgtenvieaaieagvkkvvliStDK 130
                              +  V +  +   + + tNv+gtenv++a +e g++k+v+ St  
  PHY93_04295|PHY93_04295  75 M--VGMWGR-YEDFFATNVTGTENVLRAMKELGIRKLVYTSTPS 115
                              7..666655.57999**************************965 PP

>> NmrA  NmrA-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.0   0.0   4.3e-10     7e-07       1     104 [.       6     115 ..       6     121 .. 0.91

  Alignments for each domain:
  == domain 1  score: 29.0 bits;  conditional E-value: 4.3e-10
                              EEESSTTSHHHHHHHHHHHHHT-EEEEEES-S-SHHHHHHHHSTTEEEES-TT-HHHHHHHHTT-SEEEE---GG..........S CS
                     NmrA   1 IlviGaTGrqGksvvrallkaghkvralvRdtkselakslkeaGvelvkgdlddkeslvealkgvdvvfsvtgfy..........s 76 
                              +l++Ga G +G++++r l+k++++v+   R +       l e Gv    gdl+++  +++al+g d+v+ + ++            
  PHY93_04295|PHY93_04295   6 VLITGAGGFLGSYIARELIKKNYQVFSFSRSE----YSFLGELGVSQRLGDLKNYHDVKNALNGMDAVIHTASMVgmwgryedffA 87 
                              79************************999875....567999***************************766655556***99999 PP

                              -HHHHHHHHHHHHHHHS-SEEEEEE--- CS
                     NmrA  77 keiedgkklvdAakeaGvkhfiySslgd 104
                              +++    ++ +A ke G+++++y s ++
  PHY93_04295|PHY93_04295  88 TNVTGTENVLRAMKELGIRKLVYTSTPS 115
                              99*********************99875 PP

>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.1   4.4e-06    0.0072       2      66 ..       5      61 ..       4     173 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 4.4e-06
                             EEEEESTTSHHHHHHHHHHHHTT-EEEEEESCHHHHHHHHHHHHHTTSEEEEEE-TTTSHHHHHH CS
                adh_short  2 vvlvtGassGIGraiakelakeGakvvvvdrseekleevakelkeegakalaiqvDvtdreevea 66
                              vl+tGa++ +G  ia+el+k++++v+ ++rse      + el+     +    +D++++++v++
  PHY93_04295|PHY93_04295  5 KVLITGAGGFLGSYIARELIKKNYQVFSFSRSEYSF---LGELG-----VSQRLGDLKNYHDVKN 61
                             69***************************9998654...44444.....4445555555555555 PP

>> KR  KR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   0.1   0.00085       1.4       3      35 ..       6      37 ..       4     124 .. 0.75

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.00085
                             EEEETTTSHHHHHHHHHHHHHHS-EEEEE-SS. CS
                       KR  3 ylitGGlGgLGlelarwlaekgarhlvllsRsa 35
                             +litG+ G LG  +ar l++k   ++  +sRs+
  PHY93_04295|PHY93_04295  6 VLITGAGGFLGSYIARELIKKN-YQVFSFSRSE 37
                             79*****************985.4566777774 PP

>> Ldh_1_N  lactate/malate dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.4   0.0    0.0057       9.2       1      26 [.       4      29 ..       4      36 .. 0.91
   2 ?    3.5   0.0     0.043        70      58     109 ..      54     104 ..      44     113 .. 0.82

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.0057
                             EEEEEETTTSHHHHHHHHHHHHTTSS CS
                  Ldh_1_N  1 vkvavvGaaGgiGqslalllankkla 26
                             +kv ++Ga+G+ G+ +a  l +k+++
  PHY93_04295|PHY93_04295  4 TKVLITGAGGFLGSYIARELIKKNYQ 29
                             69***************999998765 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.043
                              EEEESSGGGGTTESEEEE--S-SS-TTTTHHHHHHHHHHHHHHHHHHHHHHT CS
                  Ldh_1_N  58 kvsekeeealkdadvvvitagvprkpGetRddLlkvNakIvkeiveaiakva 109
                              k +++ ++al+++d v+ ta++    G   +d +++N++ ++++ +a+++ +
  PHY93_04295|PHY93_04295  54 KNYHDVKNALNGMDAVIHTASMVGMWGRY-EDFFATNVTGTENVLRAMKELG 104
                              56678899*************99888864.8999999998888888888876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (331 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       446  (0.0248759); expected 358.6 (0.02)
Passed bias filter:                      427  (0.0238162); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.53u 0.26s 00:00:00.79 Elapsed: 00:00:00.42
# Mc/sec: 2378.35
//
Query:       PHY93_04300|PHY93_04300  [L=696]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.041   14.3   0.6        0.6   10.5   0.1    2.9  3  Carm_PH   Carmil pleckstrin homology domain


Domain annotation for each model (and alignments):
>> Carm_PH  Carmil pleckstrin homology domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0      0.57     1e+04      40      50 ..      32      42 ..      23      70 .. 0.72
   2 ?   -0.1   0.0     0.069   1.2e+03      41      67 ..     183     209 ..     175     217 .. 0.84
   3 ?   10.5   0.1   3.4e-05       0.6      33      88 ..     345     403 ..     332     408 .. 0.81

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 0.57
                  Carm_PH 40 ertfhiLeira 50
                             +++f++L+i +
  PHY93_04300|PHY93_04300 32 NSSFNYLNIVN 42
                             67899999854 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.069
                  Carm_PH  41 rtfhiLeiraievkkenqviletdksk 67 
                                f+ L+ ++i+  + n+++++ d+ +
  PHY93_04300|PHY93_04300 183 LPFNALQFNKISNMQTNEMVFKEDSLS 209
                              6799****************9988765 PP

  == domain 3  score: 10.5 bits;  conditional E-value: 3.4e-05
                  Carm_PH  33 akvptkiertfhiLeiraievkkenqviletdksk.yslkl..aseeevdevvshilta 88 
                              +k+++ ie+++++L +   +++k +q+ ++td +  ++++   ++ +  +++vs++ ++
  PHY93_04300|PHY93_04300 345 KKIAQTIEHKYNFLLLGGSKSSKTQQIEVTTDGRVkVFFRHyyEKVKYTEDIVSRLFAS 403
                              68999***************************987355555667777778888877655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (696 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       608  (0.0339115); expected 358.6 (0.02)
Passed bias filter:                      345  (0.0192426); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.64u 0.25s 00:00:00.89 Elapsed: 00:00:00.44
# Mc/sec: 4771.44
//
Query:       PHY93_04305|PHY93_04305  [L=270]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.051   13.6   2.3      0.075   13.1   1.2    1.7  1  Baculo_PEP_C  Baculovirus polyhedron envelope protein, PEP, C
        2.1    8.5   4.1        1.7    8.8   0.5    2.2  2  Fib_alpha     Fibrinogen alpha/beta chain family


Domain annotation for each model (and alignments):
>> Baculo_PEP_C  Baculovirus polyhedron envelope protein, PEP, C terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   1.2   8.4e-06     0.075      52     128 ..      50     125 ..      42     133 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 8.4e-06
             Baculo_PEP_C  52 edlksllaeldtrldtlltnLtdalnalqdtlrneLtnlnsiltnLlssvtNinstLnnllqalnnldlgalsqele 128
                               +++++ a l+++l++ +t L++ + +++ +l n  t +n+   +L +s+t i       + +l+n+++g ++ + +
  PHY93_04305|PHY93_04305  50 LQINASAAMLRKNLSADSTLLESEVSRIK-ELMNIVTDVNKSTPELSNSITKIRLYFDKKIRDLDNFQTGLIELKKA 125
                              57889999999*****************9.78999***********************************9987765 PP

>> Fib_alpha  Fibrinogen alpha/beta chain family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   0.5   0.00019       1.7      76     126 ..      49      99 ..      39     104 .. 0.79
   2 ?   -0.0   0.1       0.1     9e+02      41      82 ..     177     218 ..     155     239 .. 0.52

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.00019
                              HHHHHHHHHHHHHCCCHHHHHHHCCH.HHHHHHHHHHHHHHHHHHHHHHHHH CS
                Fib_alpha  76 dnvikksskeleeeilrlketidaqe.snirvLqnvlesneqkiqkLeqdid 126
                              d  i+ s+ +l+++ l  + t+ + e s+i++L n++ + +++  +L + i+
  PHY93_04305|PHY93_04305  49 DLQINASAAMLRKN-LSADSTLLESEvSRIKELMNIVTDVNKSTPELSNSIT 99 
                              67899999****55.555555555555**************99999998886 PP

  == domain 2  score: -0.0 bits;  conditional E-value: 0.1
                              CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                Fib_alpha  41 eneleeisnstkeaeelvkeikdslrekqkskkdndnvikks 82 
                              ++ l +i +  k  + ++++ + ++    k +k+ d++++++
  PHY93_04305|PHY93_04305 177 KKILGQILSFAKAPNPYIQKFSVYIDIILKRTKEIDHLTENF 218
                              333333333333334444444433333333333333333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (270 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       939  (0.0523733); expected 358.6 (0.02)
Passed bias filter:                      511  (0.0285013); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 2014.16
//
Query:       PHY93_04310|PHY93_04310  [L=263]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.3e-44  150.8   0.4    4.9e-44  150.6   0.4    1.0  1  adh_short_C2  Enoyl-(Acyl carrier protein) reductase
    1.2e-05   24.9   0.1    1.6e-05   24.4   0.1    1.2  1  adh_short     short chain dehydrogenase
  ------ inclusion threshold ------
       0.07   12.5   0.0        0.1   12.0   0.0    1.3  1  TMEM126       Transmembrane protein 126
       0.17   11.9   0.2        1.2    9.1   0.1    2.2  2  DUF1967       Domain of unknown function (DUF1967)


Domain annotation for each model (and alignments):
>> adh_short_C2  Enoyl-(Acyl carrier protein) reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  150.6   0.4   1.1e-47   4.9e-44       1     234 []      15     249 ..      15     249 .. 0.96

  Alignments for each domain:
  == domain 1  score: 150.6 bits;  conditional E-value: 1.1e-47
                              TTT..TSHHHHHHHHHHHTT-EEEEEESSGGHHHHHHHHHHHTTSEEEE--TTSHHHHHHHHHHHHHHHSSEEEEEE-----EG.. CS
             adh_short_C2   1 Gaa..sgIGraiAkalaeeGaevvltdlneeakkrveelaeelgaevlecDVtdeeqvealveevvekfgklDilvnnagiapk.. 82 
                              G+a  +++++  Ak l+e+Ga++++t +n e k+rve+l  e  ++++ ++V++e++++ + e+++ +  kl+++++++++a+   
  PHY93_04310|PHY93_04310  15 GVAnkKSVAYFSAKILQENGADLIFTVQNAEIKERVEKLFPE--KKIYLLNVENEAAIKVFGEQLKTDGVKLHGFLHSIAFANYse 98 
                              89999*********************************9984..78**************************************99 PP

                              CSS-GGGH-HHHHHHHHHHHTHHHHHHHHHHHHHCTSCCEEEEEEEGGGTSBSTTTTHHHHHHHHHHHHHHHHHHHHGG.GTEEEE CS
             adh_short_C2  83 lkgpfletsreefdraldvnlyslfllakaalplmkeggsivnlssvgaervvpnynaygaaKaalealtrylAvelgp.kgiRvN 167
                                +pf+et+ +++ +a  +++ sl+++++a++ ++ +++s+v++s    +   +ny  +g  Ka+l a++  lA+++ +   +R N
  PHY93_04310|PHY93_04310  99 GMKPFHETKLQDYLQASTISTFSLIAISNAIKDILDPHASVVTISIS--STRATNYGYMGPIKASLDATIAFLAKSFSSiSSVRFN 182
                              99******************************************999..447899***********************999***** PP

                              EEEE--BHCTGGGGSTTHHHHHHHHHHHSTTSS-B-HHHHHHHHHHHCSGGGTT--SEEEEESTTGG CS
             adh_short_C2 168 avspgpikTlaasgikgfdelleelearaplgrlgtpeevaeaalfLasdeasyitGqtlvvDgGlt 234
                              av++gp+kT a++gi+g  e + ++e+ ++ +++ +++eva++++fL+s+++s+i+ + + vD+G++
  PHY93_04310|PHY93_04310 183 AVCAGPLKTSASAGIPGYIENYLYAEQLTMRRQALETSEVANTVAFLLSQRSSGINASGVLVDAGMS 249
                              ****************9999888888888888899******************************96 PP

>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.4   0.1   3.7e-09   1.6e-05       2     187 ..      10     194 ..       9     198 .. 0.81

  Alignments for each domain:
  == domain 1  score: 24.4 bits;  conditional E-value: 3.7e-09
                              EEEEESTT..SHHHHHHHHHHHHTT-EEEEEESCHHHHHHHHHHHHHTTSEEEEEE-TTTSHHHHHHHHHHHHHHHSSESEEEE-- CS
                adh_short   2 vvlvtGas..sGIGraiakelakeGakvvvvdrseekleevakelkeegakalaiqvDvtdreevealvekavkklgkldvLvnNA 85 
                              + l+tG +  + + +  ak l ++Ga+++++ +++e  e+v k + e      ++ ++v+++++++ + e+ + +  kl+ + +  
  PHY93_04310|PHY93_04310  10 TFLITGVAnkKSVAYFSAKILQENGADLIFTVQNAEIKERVEKLFPE----KKIYLLNVENEAAIKVFGEQLKTDGVKLHGFLHSI 91 
                              56777765236788889999********9977776644444444444....578899*************************8888 PP

                              -S....S--SSGGGCSHHHHHHHHHHHTHHHHHHHHHHHHHHHHCTTEEEEEEEEGGGTSB-TTBHHHHHHHHHHHHHHHHHHHHH CS
                adh_short  86 Gi....tgsgpfselseeewervievNltgvflltravlpamlkqssGrIvnvsSvagkvpvagvaaYsAsKaavagltrslakel 167
                              +     +g++pf+e++ +++ +   +  ++++ ++ a+ + ++ + s   + +sS+ + +   +++     Ka +++ +  lak +
  PHY93_04310|PHY93_04310  92 AFanysEGMKPFHETKLQDYLQASTISTFSLIAISNAIKDILDPHASVVTISISSTRATNYGYMGPI----KASLDATIAFLAKSF 173
                              88888999******************************99999777777888889988777777776....666666666677777 PP

                              GGGT.EEEEEEEESSBSSHHH CS
                adh_short 168 aptg.irvnavaPGlvdTdma 187
                              ++ + +r nav+ G+++T   
  PHY93_04310|PHY93_04310 174 SSISsVRFNAVCAGPLKTSAS 194
                              66555************9875 PP

>> TMEM126  Transmembrane protein 126
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   2.3e-05       0.1       3      69 ..     165     231 ..     163     256 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 2.3e-05
                  TMEM126   3 iieiiekkleqlpkkerklfeygslylgtnaalsgliaNslfRrilkVkqaalksslplavlPflst 69 
                              +i +++k +++++    + +  g+l  +++a++ g i N+l+   l ++++al +s    ++ fl +
  PHY93_04310|PHY93_04310 165 TIAFLAKSFSSISSVRFNAVCAGPLKTSASAGIPGYIENYLYAEQLTMRRQALETSEVANTVAFLLS 231
                              577899*************************************************988888888755 PP

>> DUF1967  Domain of unknown function (DUF1967)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.0      0.21   9.6e+02      26      45 ..      14      34 ..       8      37 .. 0.72
   2 ?    9.1   0.1   0.00027       1.2      13      46 ..      49      82 ..      39      84 .. 0.85

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.21
                             EEE-TGGGHHHH.HHHHHHTT CS
                  DUF1967 26 tnfeneeavrrf.arrLkklG 45
                             t + n+++v +f a++L+++G
  PHY93_04310|PHY93_04310 14 TGVANKKSVAYFsAKILQENG 34
                             667899999999445666666 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.00027
                             EEE-HHHHHHHTTEEE-TGGGHHHHHHHHHHTTH CS
                  DUF1967 13 vVeGekierlvkqtnfeneeavrrfarrLkklGv 46
                             +Ve   +e+ +   n+ene a++ f ++Lk  Gv
  PHY93_04310|PHY93_04310 49 RVEKLFPEKKIYLLNVENEAAIKVFGEQLKTDGV 82
                             6888899************************999 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (263 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       647  (0.0360868); expected 358.6 (0.02)
Passed bias filter:                      494  (0.0275531); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 1943.39
//
Query:       PHY93_04315|PHY93_04315  [L=133]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.4e-21   74.7   0.0    6.4e-21   74.4   0.0    1.0  1  FabA             FabA-like domain
    2.3e-05   23.9   0.0    2.9e-05   23.6   0.0    1.2  1  MaoC_dehydratas  MaoC like domain
    0.00016   22.0   0.0    0.00023   21.5   0.0    1.3  1  4HBT             Thioesterase superfamily


Domain annotation for each model (and alignments):
>> FabA  FabA-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.4   0.0   1.1e-24   6.4e-21       1     135 [.       9     126 ..       9     129 .. 0.88

  Alignments for each domain:
  == domain 1  score: 74.4 bits;  conditional E-value: 1.1e-24
                              ---TT.T---SEEEEEESTCTCTSS.EEEEEEE--TTSHHHHHSSTTS----HHHHHHHHHHHHHHHHHHCC---SCCEEE-EEEE CS
                     FabA   1 lpark.lllldrvleieeeggkfgkGlivaekdvtpnewfFqgHFpgdPvmPGvLgleamaQlvgfyllksggdegkgrarklvlf 85 
                              +p+r  +l++d++++++  ++k     i  + + t +e fF+gHFpg+P+mPGvL  ea+ Q  ++++ k+ g  g g      + 
  PHY93_04315|PHY93_04315   9 IPQRApFLFVDKIINLD--EKK-----ISTSLHLTGEEDFFKGHFPGNPIMPGVLLQEALFQSGAALMAKKAG-GGLG------VV 80 
                              589999**********9..777.....99***********************************999999755.3333......56 PP

                              EEECEEEE-S---TT-.EEEEEEEEEEEEECCTCEEEEEEEEEETTEEEE CS
                     FabA  86 agvdevkfrgqvtPgdkklvleveikkvseekrviiiadaellvdgklvy 135
                              ++v+++kf+ +v+Pg+ +l +eve+     +  +   ++++  v+gk+v+
  PHY93_04315|PHY93_04315  81 TRVQNAKFKNMVRPGE-TLEMEVELVD---SLSNASYMKGTTRVNGKVVL 126
                              69**************.9999999999...77777778888889999886 PP

>> MaoC_dehydratas  MaoC like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.6   0.0   4.8e-09   2.9e-05      63     116 ..      66     119 ..      42     125 .. 0.77

  Alignments for each domain:
  == domain 1  score: 23.6 bits;  conditional E-value: 4.8e-09
                              HHHHHHHHSTTEGGGEEEEEEEE-S--BTTCEEEEEEEEEEEEEEEEEEEEEEE CS
          MaoC_dehydratas  63 aklveeelgdnvvarvgeikvrFtkpVlpgdtlkvelevvgkrdvrktkkvevt 116
                              a+l+++++g +    ++ ++++F ++V+pg+tl++e+e v+  +     k++++
  PHY93_04315|PHY93_04315  66 AALMAKKAGGGLGVVTRVQNAKFKNMVRPGETLEMEVELVDSLSNASYMKGTTR 119
                              5667777777788899999*********************96555544455544 PP

>> 4HBT  Thioesterase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.0   3.8e-08   0.00023      11      57 ..      60     105 ..      54     114 .. 0.94

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 3.8e-08
                              HHHHHHHHHHHHHTTSTTEEEEEEEEEEEESS-BBTTCEEEEEEEEE CS
                     4HBT  11 allDeaagaalrslggrgilvvvvelsidflrpvrlgdeltvearvl 57 
                              al++++a++++++ gg+  +vv++  +++f+  vr+g++l++e++++
  PHY93_04315|PHY93_04315  60 ALFQSGAALMAKKAGGG-LGVVTRVQNAKFKNMVRPGETLEMEVELV 105
                              68999***********8.*************************9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (133 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       250  (0.0139439); expected 358.6 (0.02)
Passed bias filter:                      223  (0.0124379); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.41u 0.24s 00:00:00.64 Elapsed: 00:00:00.41
# Mc/sec: 979.82
//
Query:       PHY93_04320|PHY93_04320  [L=243]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.3e-62  209.7   0.3    5.2e-62  209.5   0.3    1.0  1  adh_short_C2     Enoyl-(Acyl carrier protein) reductase
      2e-55  187.3   0.4    2.4e-55  187.0   0.4    1.1  1  adh_short        short chain dehydrogenase
    2.7e-19   69.8   0.4    3.6e-19   69.4   0.4    1.1  1  KR               KR domain
    7.9e-07   28.8   0.2    2.2e-06   27.3   0.2    2.0  1  Epimerase        NAD dependent epimerase/dehydratase family
     0.0017   17.8   0.2     0.0032   16.9   0.0    1.5  2  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
     0.0076   15.4   0.1      0.012   14.7   0.1    1.5  1  Polysacc_synt_2  Polysaccharide biosynthesis protein
  ------ inclusion threshold ------
      0.014   15.3   0.3      0.031   14.2   0.2    1.7  2  3HCDH_N          3-hydroxyacyl-CoA dehydrogenase, NAD binding
      0.054   13.4   0.1      0.086   12.7   0.1    1.5  1  NAD_binding_10   NAD(P)H-binding
      0.054   13.8   0.1       0.12   12.7   0.1    1.5  1  GAT              GAT domain


Domain annotation for each model (and alignments):
>> adh_short_C2  Enoyl-(Acyl carrier protein) reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  209.5   0.3   2.6e-65   5.2e-62       3     230 ..      14     242 ..      11     243 .] 0.96

  Alignments for each domain:
  == domain 1  score: 209.5 bits;  conditional E-value: 2.6e-65
                              TTSHHHHHHHHHHHTT-EEEEEESSGGH.HHHHHHHHHHTTSE..EEE--TTSHHHHHHHHHHHHHHHSSEEEEEE-----EGCSS CS
             adh_short_C2   3 asgIGraiAkalaeeGaevvltdlneea.kkrveelaeelgae..vlecDVtdeeqvealveevvekfgklDilvnnagiapklkg 85 
                               +gIGr+iA+a+ +eGa+vv+ +++++a + + +e   ++g++  v +cDV+de+++ ++++ev++ + k+ il+nn gi ++  +
  PHY93_04320|PHY93_04320  14 TRGIGRGIAEAFLKEGATVVAIYAGNDAaAMKFKEDCLQYGEKliVKKCDVRDEDAIIKFFAEVEAAHPKIEILINNSGIRKD--Q 97 
                              59*************************999999999999**997449***********************************9..9 PP

                              -GGGH-HHHHHHHHHHHTHHHHHHHHHHHH.HCTSC.CEEEEEEEGGGTSBSTTTTHHHHHHHHHHHHHHHHHHHHGGGTEEEEEE CS
             adh_short_C2  86 pfletsreefdraldvnlyslfllakaalp.lmkeg.gsivnlssvgaervvpnynaygaaKaalealtrylAvelgpkgiRvNav 169
                               ++ +s  e+++++++nl+++fl++k+a+   mk++ g+ivn+ss+g++ ++p+++ y+a+Ka+ +a++++l +e++++gi+vN +
  PHY93_04320|PHY93_04320  98 LTAMMSLIEWNDVISTNLTGTFLMSKHAVLqFMKNRyGRIVNMSSIGGSLGLPGQANYAASKAGQIAISKSLSKEVAKRGITVNNI 183
                              99999**********************9988888888************************************************* PP

                              EE--BHCTGGGGSTTHHHHHHHHHHHSTTSS-B-HHHHHHHHHHHCSGGGTT--SEEEEES CS
             adh_short_C2 170 spgpikTlaasgikgfdelleelearaplgrlgtpeevaeaalfLasdeasyitGqtlvvD 230
                              +pg+i+T++ ++++  ++ ++e  +  p++r+g++eeva+a+lfLas+easyitG+ l + 
  PHY93_04320|PHY93_04320 184 CPGFIDTELLADLP--EDQRKEYMKDVPMKRFGRVEEVAAAVLFLASKEASYITGASLEIS 242
                              *************9..88899999********************************99775 PP

>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  187.0   0.4   1.2e-58   2.4e-55       1     194 [.       6     200 ..       6     201 .. 0.98

  Alignments for each domain:
  == domain 1  score: 187.0 bits;  conditional E-value: 1.2e-58
                              SEEEEESTTSHHHHHHHHHHHHTT-EEEE.EESCHHHHHHHHHHHHHTTSEEEEEE-TTTSHHHHHHHHHHHHHHHSSESEEEE-- CS
                adh_short   1 kvvlvtGassGIGraiakelakeGakvvv.vdrseekleevakelkeegakalaiqvDvtdreevealvekavkklgkldvLvnNA 85 
                              ++++vtG+++GIGr ia++++keGa+vv+ ++ +++++ + ++ + + g+k+++ ++Dv+d++++ ++++++++ + k+++L+nN 
  PHY93_04320|PHY93_04320   6 QTAIVTGGTRGIGRGIAEAFLKEGATVVAiYAGNDAAAMKFKEDCLQYGEKLIVKKCDVRDEDAIIKFFAEVEAAHPKIEILINNS 91 
                              589**************************9999***************************************************** PP

                              -SS--SSGGGCSHHHHHHHHHHHTHHHHHHHHHHHHHHHHCTTEEEEEEEEGGGTSB-TTBHHHHHHHHHHHHHHHHHHHHHGGGT CS
                adh_short  86 GitgsgpfselseeewervievNltgvflltravlpamlkqssGrIvnvsSvagkvpvagvaaYsAsKaavagltrslakelaptg 171
                              Gi +++ ++ +s  ew++vi++Nltg+fl++++++ +++k++ GrIvn+sS+ g  +++g+a Y+AsKa+ +++++sl+ke+a++g
  PHY93_04320|PHY93_04320  92 GIRKDQLTAMMSLIEWNDVISTNLTGTFLMSKHAVLQFMKNRYGRIVNMSSIGGSLGLPGQANYAASKAGQIAISKSLSKEVAKRG 177
                              *************************************9************************************************ PP

                              EEEEEEEESSBSSHHHHHHCTHH CS
                adh_short 172 irvnavaPGlvdTdmakelreke 194
                              i+vn+++PG++dT++ ++l e++
  PHY93_04320|PHY93_04320 178 ITVNNICPGFIDTELLADLPEDQ 200
                              ***************99988775 PP

>> KR  KR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.4   0.4   1.8e-22   3.6e-19       2     158 ..       7     164 ..       6     182 .. 0.88

  Alignments for each domain:
  == domain 1  score: 69.4 bits;  conditional E-value: 1.8e-22
                              EEEEETTTSHHHHHHHHHHHHHHS-EEEEE-SS..--HHHHHHHHHHHHTT-EEEE----TT-HHHHHHHHHHHHHHSS---EEEE CS
                       KR   2 tylitGGlGgLGlelarwlaekgarhlvllsRsaaadedskaliaelealgaevevvaaDvsdkdavealleeikaeeppikGvih 87 
                              t ++tGG+ g+G+ +a+  +++ga+ +++ + +   d+++ ++ + + ++g +  v ++Dv d+da+ + ++e++a +p+i+  i+
  PHY93_04320|PHY93_04320   7 TAIVTGGTRGIGRGIAEAFLKEGATVVAIYAGN---DAAAMKFKEDCLQYGEKLIVKKCDVRDEDAIIKFFAEVEAAHPKIEILIN 89 
                              569**************************9998...45555688999999************************************ PP

                              ---------TTT--HHHHHHHHTTTTHHHHHHHH..HTTT...S--SEEEEEEEHHHHH--TT-HHHHHHHHHHHH CS
                       KR  88 aAgvlrdklleemtaedleqvlapKvkGawnLhe..lled...esldffvlfSSiagllgsagqanYaaaNaflDa 158
                                g+ +d+l + m+  +++ v++  ++G+  + +  +l +   ++   +v +SSi+g lg +gqanYaa  a + a
  PHY93_04320|PHY93_04320  90 NSGIRKDQLTAMMSLIEWNDVISTNLTGTFLMSKhaVL-QfmkNRYGRIVNMSSIGGSLGLPGQANYAASKAGQIA 164
                              *****************************999652222.234488999*********************8776555 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.3   0.2   1.1e-09   2.2e-06       2      64 ..       9      78 ..       8     237 .. 0.88

  Alignments for each domain:
  == domain 1  score: 27.3 bits;  conditional E-value: 1.1e-09
                             EEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHC.......EEEE--TT-HHHHHHHHHHHT CS
                Epimerase  2 lVtGatGfiGsalvkallekgyevigldrlssasntarledl.......elveldltdrsalerlfkeeq 64
                             +VtG+t  iG+ +++a+l++g +v+++   ++a + + +ed         + ++d++d++a+ ++f+e++
  PHY93_04320|PHY93_04320  9 IVTGGTRGIGRGIAEAFLKEGATVVAIYAGNDAAAMKFKEDClqygeklIVKKCDVRDEDAIIKFFAEVE 78
                             8*****************************9999999999989****99999***************874 PP

>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0   1.6e-06    0.0032       1      75 [.       9      78 ..       9      81 .. 0.90
   2 ?   -3.9   0.0       3.5   6.9e+03     153     167 ..     155     169 ..     152     182 .. 0.73

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 1.6e-06
                             EEETTTSHHHHHHHHHHHHCT-CCEEEEEEESS-TTHHHHHCTTT...TTGCCEEEEE--TT-HHHHHHHHHHHT CS
            GDP_Man_Dehyd  1 LiTGiaGfiGsylaelLlekgyevhgivrrsssfntgriehlakdpkeeleenlklhkgDltDssslerllaevq 75
                             ++TG++  iG  +ae +l++g +v+ i   +++ +++  e   +     + e+l + k+D++D++++++ +aev+
  PHY93_04320|PHY93_04320  9 IVTGGTRGIGRGIAEAFLKEGATVVAIYAGNDAAAMKFKEDCLQ-----YGEKLIVKKCDVRDEDAIIKFFAEVE 78
                             59**************************9999988888887764.....5679*******************996 PP

  == domain 2  score: -3.9 bits;  conditional E-value: 3.5
                              HHHHHHHHHHHHHHH CS
            GDP_Man_Dehyd 153 YaaaKlyadwivvny 167
                              Yaa+K+ +  i ++ 
  PHY93_04320|PHY93_04320 155 YAASKAGQIAISKSL 169
                              999998877776655 PP

>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.1   6.1e-06     0.012       2      77 ..       9      78 ..       8     141 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 6.1e-06
                             EEETTTSHHHHHHHHHHHHHB-SEEEEEES-HHHHHHHHHH......-TTEEEE....E--TT-HHHHHHHTT..T CS
          Polysacc_synt_2  2 lvtGagGsiGselvrqilkkkpkkiillerdElklyeiekeleeelkkkklkveivpvigdvrdkerlekaleelk 77
                             +vtG++  iG+ + + +lk+ ++ + ++  ++ + +++++++ + + + kl v+     +dvrd++ + k + e++
  PHY93_04320|PHY93_04320  9 IVTGGTRGIGRGIAEAFLKEGATVVAIYAGNDAAAMKFKEDCLQ-YGE-KLIVK----KCDVRDEDAIIKFFAEVE 78
                             69**************************************9854.444.34344....69*********9998654 PP

>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.2   1.5e-05     0.031       4     113 ..       9     114 ..       6     136 .. 0.74
   2 ?   -2.3   0.0       1.8   3.5e+03      49      56 ..     172     179 ..     154     228 .. 0.61

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 1.5e-05
                              EE--SC..CHHHHHHHHHHTT-EEEEE-S-HHHHHHHHHHHHHHHHCCTTTTSS-HHHHCCCHHCEEEES-HHHHHC-SEEEE-S- CS
                  3HCDH_N   4 viGaGt..mGagiaavfasagleVvlvdiseealekalekieksleklvekgklkeeeveaalarisfttdleeavdadlviEavv 87 
                              ++  Gt  +G+gia++f+++g +Vv +   ++a++    k ++ + +  ek  +k+ +v++  a i+f +++e+a      iE  +
  PHY93_04320|PHY93_04320   9 IVTGGTrgIGRGIAEAFLKEGATVVAIYAGNDAAA---MKFKEDCLQYGEKLIVKKCDVRDEDAIIKFFAEVEAA---HPKIEILI 88 
                              555555449***************99988665543...3344444456666677777888888899999988887...55678888 PP

                              SSHHHHHHHHHHHHCCS-TTSEEEE- CS
                  3HCDH_N  88 EnlelKrkvfaelekiakpdailasn 113
                               n  + ++ ++++ ++++ + ++++n
  PHY93_04320|PHY93_04320  89 NNSGIRKDQLTAMMSLIEWNDVISTN 114
                              88888888888888888888888887 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 1.8
                              CTTTTSS- CS
                  3HCDH_N  49 lvekgklk 56 
                               v+k+ ++
  PHY93_04320|PHY93_04320 172 EVAKRGIT 179
                              33322222 PP

>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   4.3e-05     0.086       1     110 [.      12     154 ..      12     228 .. 0.63

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 4.3e-05
                              TTTSHHHHHHHHHHHHC-T-EEEEEET.THHHCHHHH.....CTTTCEEEE--TT-CCHHHHHHT.......T-SEEEES---TCC CS
           NAD_binding_10   1 GAtGkvGrllvkellargghevtalvR.npeklaele.....aeeglevvegdvtdvedlaealk.......gadaVvsalggggk 73 
                              G+t ++Gr +++  l++g  +v+a+   n + + +++       e+l v + dv d++++ + ++        +++ + + g +++
  PHY93_04320|PHY93_04320  12 GGTRGIGRGIAEAFLKEG-ATVVAIYAgNDAAAMKFKedclqYGEKLIVKKCDVRDEDAIIKFFAeveaahpKIEILINNSGIRKD 96 
                              99***************6.77877755155555455522222447899999*******9999999333333233344444455554 PP

                              HHHH.....................HHHHHHHHHHCT--EEEEEEETTTTSGCGCHHH CS
           NAD_binding_10  74 deeg.....................aknivdaakeagvkRfvlvsaigvgdevpgefg 110
                              + ++                      k++v    ++   R+v +s+ig     pg+ +
  PHY93_04320|PHY93_04320  97 QLTAmmsliewndvistnltgtflmSKHAVLQFMKNRYGRIVNMSSIGGSLGLPGQAN 154
                              3233566666677777777777887555555555567788888888876655555543 PP

>> GAT  GAT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   5.8e-05      0.12      19      66 ..      63     113 ..      48     116 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 5.8e-05
                      GAT  19 ellenellkeLyetckamqpriqklieetadeed...llaelLqlNDeLnn 66 
                              ++ +++++ ++  +++a++p+i  li++   ++d   ++  l++ ND +++
  PHY93_04320|PHY93_04320  63 DVRDEDAIIKFFAEVEAAHPKIEILINNSGIRKDqltAMMSLIEWNDVIST 113
                              57789***********************95555556799********9976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (243 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       543  (0.0302861); expected 358.6 (0.02)
Passed bias filter:                      473  (0.0263818); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.42
# Mc/sec: 1739.14
//
Query:       PHY93_04325|PHY93_04325  [L=314]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.7e-28   98.4   0.0    6.1e-28   97.2   0.0    1.6  1  Response_reg  Response regulator receiver domain
    5.6e-12   45.8   0.0    1.2e-11   44.7   0.0    1.5  1  Hpt           Hpt domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   97.2   0.0   6.8e-32   6.1e-28       1     104 [.     146     248 ..     146     256 .. 0.97

  Alignments for each domain:
  == domain 1  score: 97.2 bits;  conditional E-value: 6.8e-32
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseeeda 86 
                              v+ivdD+p ++++l++++e+++y +v ++ +g+ea++ +++ k+d+il Di mp+++G+e++k i+e + ++pvi+++++ ++e +
  PHY93_04325|PHY93_04325 146 VFIVDDEPELVDILSRIIEQNNY-VVYKFYNGEEAVNSFEKYKPDIILSDILMPKLNGIEMIKAIHEVSANTPVIFISGNLSKERM 230
                              89*********************.************************************************************** PP

                              HHHHHCTESEEEESSG-H CS
             Response_reg  87 vealkagaddflsKpfdp 104
                              +eal+ ga+ f+ Kpfd 
  PHY93_04325|PHY93_04325 231 QEALQFGAYAFIDKPFDN 248
                              ***************986 PP

>> Hpt  Hpt domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.7   0.0   1.3e-15   1.2e-11       3      62 ..       7      75 ..       6      96 .. 0.85

  Alignments for each domain:
  == domain 1  score: 44.7 bits;  conditional E-value: 1.3e-15
                             HHHHHHHHHHHHHHHHHHH.....SCC...HHHHHHHHHHHHHHHHHHTTBHHHHHHHHHHHHHHH.HC CS
                      Hpt  3 lelfleeaeelleqleqal.....dqe...dlqelaraaHtLKGsagmlGltelaelahelEdlld.ra 62
                             +  f+ ea+e +e++e+ l       +   ++++++r +H+LKG+agm+G++el+   h+lE+ll+ ++
  PHY93_04325|PHY93_04325  7 IKEFKIEAAEMFESAEDGLlnidkGLDfisNYNSIFRSFHSLKGAAGMFGMEELQLHMHKLESLLEaQK 75
                             6789999999999999999999663336689**********************************9643 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (314 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       793  (0.04423); expected 358.6 (0.02)
Passed bias filter:                      516  (0.0287802); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 2299.78
//
Query:       PHY93_04330|PHY93_04330  [L=430]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
     0.0015   18.0   0.1     0.0027   17.2   0.1    1.4  1  Peptidase_Mx1  Putative zinc-binding metallo-peptidase


Domain annotation for each model (and alignments):
>> Peptidase_Mx1  Putative zinc-binding metallo-peptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.1   1.5e-07    0.0027     126     197 ..     269     334 ..     244     358 .. 0.67

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 1.5e-07
            Peptidase_Mx1 126 rtvhhefahiLhqtkeydte..FkkisegkYtsstwinkteaeankrGfvtayassspeeDfaEvislyltesk 197
                              +++ h+ a  L++   +d++  + + s+   ++++w++      ++  f t+y++++p+eDfaE++++y  +s+
  PHY93_04330|PHY93_04330 269 HEMSHNIAFKLNK---MDEDpsWLEKSQWVKKGDSWFH-----GANACFPTRYSKEDPSEDFAETVAAYRYNSA 334
                              5555555555443...3333114443433334455553.....35678********************977765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (430 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       433  (0.0241508); expected 358.6 (0.02)
Passed bias filter:                      347  (0.0193541); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.42
# Mc/sec: 3072.92
//
Query:       PHY93_17305|PHY93_17305  [L=289]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (289 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       223  (0.0124379); expected 358.6 (0.02)
Passed bias filter:                      122  (0.00680462); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 2147.05
//
Query:       PHY93_04335|PHY93_04335  [L=146]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.1e-15   57.7   0.6    3.3e-15   56.1   0.0    2.1  2  Peptidase_S74  Chaperone of endosialidase
     0.0022   16.7   0.5     0.0022   16.7   0.5    1.0  1  Ufd2P_core     Ubiquitin elongating factor core
  ------ inclusion threshold ------
      0.012   16.0   1.5      0.012   16.0   1.5    1.9  2  ZapB           Cell division protein ZapB
      0.014   14.7   0.0      0.016   14.5   0.0    1.1  1  Herpes_UL37_2  Betaherpesvirus immediate-early glycoprotein U
      0.023   13.6   0.2      0.031   13.2   0.2    1.3  1  DUF5588        Family of unknown function (DUF5588)
      0.043   13.1   2.2      0.044   13.1   1.0    1.5  1  DUF3450        Protein of unknown function (DUF3450)
      0.048   14.0   3.9      0.048   14.0   3.9    2.1  2  Csm1_N         Csm1 N-terminal domain
      0.066   13.3   0.2      0.089   12.8   0.2    1.2  1  NPCC           Nuclear pore complex component
      0.068   13.4   0.4       0.12   12.6   0.3    1.5  1  MutS_I         MutS domain I
       0.18   11.7   2.3       0.32   10.9   0.3    2.2  2  MtrG           Tetrahydromethanopterin S-methyltransferase, s
       0.37   10.2   7.6       0.11   12.0   1.2    2.0  2  Golgin_A5      Golgin subfamily A member 5
          8    6.7   8.5          2    8.6   0.4    2.1  2  Med21          Subunit 21 of Mediator complex


Domain annotation for each model (and alignments):
>> Peptidase_S74  Chaperone of endosialidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.1   0.0   2.2e-18   3.3e-15       1      58 []       2      57 ..       2      57 .. 0.92
   2 ?   -1.4   0.2         2     3e+03       8      20 ..     130     142 ..     117     145 .. 0.56

  Alignments for each domain:
  == domain 1  score: 56.1 bits;  conditional E-value: 2.2e-18
                             -TTTTBSS-EC-HHHHHHHCT---EEE-BCCHHHHHGGGGS-.BEEE--HHHHHHHHHH CS
            Peptidase_S74  1 SDrRlKtnIrpledalakvlklrpvtYrykdesirkskdsgr.revGfIAQeveavlpe 58
                             SD+RlK+nIrp e +l+ vl ++p+tYry+     ++ ++++  ++G+IAQe+e+v pe
  PHY93_04335|PHY93_04335  2 SDERLKKNIRPFELGLNQVLGIQPKTYRYNG---LGGTEEDHeDRIGVIAQELEKVAPE 57
                             9****************************95...777777776889***********98 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 2
                              S-EC-HHHHHHHC CS
            Peptidase_S74   8 nIrpledalakvl 20 
                              +I+ +++ l+k++
  PHY93_04335|PHY93_04335 130 EIEAVKARLDKIE 142
                              3444444466665 PP

>> Ufd2P_core  Ubiquitin elongating factor core
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.5   1.5e-06    0.0022     145     229 ..      66     143 ..      13     146 .] 0.78

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 1.5e-06
                              SSB-HHHHHHHHHHCTTS....---HHHHHHHHHHHHHHHTHHHHHHHHHTHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH CS
               Ufd2P_core 145 lnadeeeveefyeqkeke....kpnFiteiFfltlkalhlglkpaisefkrllqelkrlqdeleeleaeaaqleeqlkklkkelek 226
                              ln++        ++ke+e    ++n  t   ++++ a++ ++++ +++ + +++el+++++e e+l++e+a  +++++ +k +l+k
  PHY93_04335|PHY93_04335  66 LNKN--------DKKETEfkavNYNAFT---YMVINAMKEFYHKWFDDSTAIHRELSSVKSENERLKEENALKSKEIEAVKARLDK 140
                              2221........2222225545678788...9*************************************999*********99998 PP

                              HHH CS
               Ufd2P_core 227 lls 229
                              + +
  PHY93_04335|PHY93_04335 141 IEK 143
                              754 PP

>> ZapB  Cell division protein ZapB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.3       2.1   3.2e+03      35      51 ..      56      72 ..      46      80 .. 0.48
   2 ?   16.0   1.5   8.2e-06     0.012      18      62 ..     101     145 ..      89     146 .] 0.71

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 2.1
                     ZapB 35 eelkeenreleeeneql 51
                              el e+  +   +n++ 
  PHY93_04335|PHY93_04335 56 PELIEKRMAKLNKNDKK 72
                             33444333333444444 PP

  == domain 2  score: 16.0 bits;  conditional E-value: 8.2e-06
                     ZapB  18 dtitlLqmeieeLkeeneelkeenreleeeneqlkeereawqerl 62 
                              d  t+   e++ +k ene lkeen+  ++e+e+ k+   +++++l
  PHY93_04335|PHY93_04335 101 DDSTAIHRELSSVKSENERLKEENALKSKEIEAVKARLDKIEKKL 145
                              666677777777777777777777777777777777776666665 PP

>> Herpes_UL37_2  Betaherpesvirus immediate-early glycoprotein UL37
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0   1.1e-05     0.016     173     221 ..      51      97 ..      42     124 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 1.1e-05
            Herpes_UL37_2 173 lsdicPrl.lkkkvklikndrknkkflrttvrslpewtlqqcqawkywtk 221
                              l+++ P+l  k+  kl knd+k+++f   +++++   +   ++a k +++
  PHY93_04335|PHY93_04335  51 LEKVAPELiEKRMAKLNKNDKKETEFKAVNYNAFTYMV---INAMKEFYH 97 
                              7899***9446666*****************9955444...444444443 PP

>> DUF5588  Family of unknown function (DUF5588)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.2   2.1e-05     0.031     316     348 ..      69     101 ..      40     116 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 2.1e-05
                  DUF5588 316 kdevhsevkcvgsaalaalviasseefedkwfr 348
                               d+  +e k+v   a++ +vi + +ef +kwf 
  PHY93_04335|PHY93_04335  69 NDKKETEFKAVNYNAFTYMVINAMKEFYHKWFD 101
                              467789**************************6 PP

>> DUF3450  Protein of unknown function (DUF3450)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   1.0   2.9e-05     0.044      39      88 ..      96     145 ..      89     146 .] 0.92

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 2.9e-05
                  DUF3450  39 idklddekqellaeyralkeeleslevyneqlerlvasqeqeiasleeqi 88 
                              + k+ d+++ + +e+ ++k+e+e+l+ +n+  ++ +++++++++++e+++
  PHY93_04335|PHY93_04335  96 YHKWFDDSTAIHRELSSVKSENERLKEENALKSKEIEAVKARLDKIEKKL 145
                              789*******************************************9986 PP

>> Csm1_N  Csm1 N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   0.2      0.59   8.8e+02      46      60 ..      59      73 ..      38      80 .. 0.58
   2 ?   14.0   3.9   3.2e-05     0.048      25      57 ..     113     145 ..     109     146 .] 0.91

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 0.59
                   Csm1_N 46 Lkeqlaeleekvkel 60
                             +++++a+l+++ k+ 
  PHY93_04335|PHY93_04335 59 IEKRMAKLNKNDKKE 73
                             445555555444433 PP

  == domain 2  score: 14.0 bits;  conditional E-value: 3.2e-05
                   Csm1_N  25 lvhENsvLsqkletkdqeiesLkeqlaeleekv 57 
                              +  EN  L++++  k++eie++k++l+++e+k+
  PHY93_04335|PHY93_04335 113 VKSENERLKEENALKSKEIEAVKARLDKIEKKL 145
                              557***************************986 PP

>> NPCC  Nuclear pore complex component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.2   5.9e-05     0.089      17      56 ..      71     118 ..      57     140 .. 0.74

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 5.9e-05
                     NPCC  17 nkErevkriiaNvllllvfnlikklvklll........klyelkkkss 56 
                              +kE e+k++ +N+++++v+n +k++ ++ +        +l+++k++++
  PHY93_04335|PHY93_04335  71 KKETEFKAVNYNAFTYMVINAMKEFYHKWFddstaihrELSSVKSENE 118
                              56**************************99777655554444444433 PP

>> MutS_I  MutS domain I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.3   8.3e-05      0.12       6      49 ..      75     118 ..      71     136 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 8.3e-05
                              HHHCCCHH-TTCEEEEEETTEEEEECHHHHHHHHHCSSSSTT.E CS
                   MutS_I   6 qylelkkkykdavlffrvGdfYelfgeDAviaareleitltkrk 49 
                               ++ +  + ++ +++  +++fY  +++D++ ++rel+ + ++++
  PHY93_04335|PHY93_04335  75 EFKAVNYNAFTYMVINAMKEFYHKWFDDSTAIHRELSSVKSENE 118
                              577888888999999*********************98766555 PP

>> MtrG  Tetrahydromethanopterin S-methyltransferase, subunit G
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.1      0.47   7.1e+02      10      25 ..      57      72 ..      43      82 .. 0.75
   2 ?   10.9   0.3   0.00021      0.32       8      26 ..     127     145 ..     123     146 .] 0.89

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.47
                     MtrG 10 ddfnevkkrLdeieek 25
                             + +++ +++L++ ++k
  PHY93_04335|PHY93_04335 57 ELIEKRMAKLNKNDKK 72
                             5567778889988887 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.00021
                     MtrG   8 dpddfnevkkrLdeieekv 26 
                               ++++++vk+rLd+ie+k+
  PHY93_04335|PHY93_04335 127 KSKEIEAVKARLDKIEKKL 145
                              6799*************97 PP

>> Golgin_A5  Golgin subfamily A member 5
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.6     0.066        99     110     150 ..      38      78 ..      35      87 .. 0.83
   2 ?   12.0   1.2   7.2e-05      0.11      26      83 ..      88     144 ..      84     146 .] 0.89

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.066
                Golgin_A5 110 eeveaelerlkeelryleeelvrskatlqsrikdrekeiek 150
                              e+ e+ +  + +el+ +  el+++++   ++  ++e+e + 
  PHY93_04335|PHY93_04335  38 EDHEDRIGVIAQELEKVAPELIEKRMAKLNKNDKKETEFKA 78 
                              56677788899999999999999999999999999999776 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 7.2e-05
                Golgin_A5  26 liasLkegsgeeglesstalsaeldelkqerdllreelqklnqqieqlrtelqdleaq 83 
                              +i+ +ke   ++ ++ sta + el+++k+e++ l+ee +  +++ie +++ l+++e++
  PHY93_04335|PHY93_04335  88 VINAMKEFY-HKWFDDSTAIHRELSSVKSENERLKEENALKSKEIEAVKARLDKIEKK 144
                              678888654.66778899**************************************87 PP

>> Med21  Subunit 21 of Mediator complex
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   0.4    0.0014         2      95     128 ..      32      65 ..      32      80 .. 0.83
   2 ?    1.8   2.6      0.18   2.7e+02     106     138 ..     109     141 ..     103     146 .] 0.71

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.0014
                    Med21  95 gigsseeeqeerikeLeeelreveeereekvkek 128
                              g+g +ee+ e+ri  +++el++v+ e+ ek+  k
  PHY93_04335|PHY93_04335  32 GLGGTEEDHEDRIGVIAQELEKVAPELIEKRMAK 65 
                              57889*********************99998766 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.18
                    Med21 106 rikeLeeelreveeereekvkekeellkkveel 138
                              ++ + ++e+++ +ee + k ke e++ ++++++
  PHY93_04335|PHY93_04335 109 ELSSVKSENERLKEENALKSKEIEAVKARLDKI 141
                              566667788888888888888888777777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (146 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1731  (0.0965475); expected 358.6 (0.02)
Passed bias filter:                      575  (0.0320709); expected 358.6 (0.02)
Passed Vit filter:                        70  (0.00390429); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.45u 0.27s 00:00:00.72 Elapsed: 00:00:00.42
# Mc/sec: 1047.35
//
Query:       PHY93_04340|PHY93_04340  [L=419]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (419 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       471  (0.0262703); expected 358.6 (0.02)
Passed bias filter:                      206  (0.0114898); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.54u 0.21s 00:00:00.75 Elapsed: 00:00:00.42
# Mc/sec: 2969.93
//
Query:       PHY93_04345|PHY93_04345  [L=115]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.9e-21   74.7   0.1    6.5e-21   74.6   0.1    1.0  1  Response_reg     Response regulator receiver domain
  ------ inclusion threshold ------
      0.046   13.5   0.1      0.046   13.5   0.1    1.1  1  Methyltransf_31  Methyltransferase domain


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.6   0.1   7.3e-25   6.5e-21       1     111 [.       4     112 ..       4     113 .. 0.94

  Alignments for each domain:
  == domain 1  score: 74.6 bits;  conditional E-value: 7.3e-25
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseeeda 86 
                              +l++dDd  ++el+++ l++ g+  v +a  g+ea+e+lk e++dl++ D +mp+ +G+ +l+++++  + +   +l+a+++   +
  PHY93_04345|PHY93_04345   4 ILLIDDDSSLLELISEELKNLGF-WVVVAICGNEAIEILKDEAFDLVISDFRMPNGNGMVVLEHVNKMIRPPTFFFLSAQAD-MSI 87 
                              89*********************.9999***************************************997777888887776.889 PP

                              HHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  87 vealkagaddflsKpfdpeeLlkal 111
                              +++lkaga++f+ Kp+d ++++  +
  PHY93_04345|PHY93_04345  88 EDCLKAGAKKFINKPVDLNKIVYEI 112
                              *******************998665 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.1   5.1e-06     0.046      29      82 ..       2      62 ..       1     114 [. 0.68

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 5.1e-06
          Methyltransf_31 29 aevvGiDiseeaielArenaqklgldnveFeqgdieeleklledekfDlilsn.........e 82
                             +++ +iD +   +el  e++++lg+  v + ++  e++e  l+de fDl++s+          
  PHY93_04345|PHY93_04345  2 KKILLIDDDSSLLELISEELKNLGFW-VVVAICGNEAIEI-LKDEAFDLVISDfrmpngngmV 62
                             5899*********************8.5555555555553.468********85544444441 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (115 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       414  (0.0230911); expected 358.6 (0.02)
Passed bias filter:                      361  (0.020135); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.41
# Mc/sec: 851.06
//
Query:       PHY93_20985|PHY93_20985  [L=495]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (495 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       307  (0.0171231); expected 358.6 (0.02)
Passed bias filter:                      120  (0.00669307); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.19s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 3724.61
//
Query:       PHY93_20990|PHY93_20990  [L=258]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.1e-15   56.8   0.3    5.8e-15   56.3   0.3    1.2  1  Metallophos    Calcineurin-like phosphoesterase
    6.1e-13   49.3   1.1    6.1e-12   46.0   1.1    2.0  1  Metallophos_2  Calcineurin-like phosphoesterase superfamily d


Domain annotation for each model (and alignments):
>> Metallophos  Calcineurin-like phosphoesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.3   0.3   6.5e-19   5.8e-15       1     203 [.       1     215 [.       1     216 [. 0.71

  Alignments for each domain:
  == domain 1  score: 56.3 bits;  conditional E-value: 6.5e-19
                              EEEEEEESBTBTTCCTHHHHHHHHHHHHHHHTTESEEEEESTSSSSS..HHHHHHHHHHHHHHHH......TSEEEEEC-TTSCHH CS
              Metallophos   1 lrilvigDlHlalgggqlddllkllddllreekpdlvllaGDlvdrg..dlekellellaalvky......pipvylllGNHegfe 78 
                              +++  i+D+H+++ g q + ll ++ + ++ +  d+++l+GD++d    + +++++++ +++ +       ++++y + GNH+ f+
  PHY93_20990|PHY93_20990   1 MKFSAISDIHVKSSGDQAEVLLLAFLRNPDVQSSDVIFLLGDIFDLMigPHSQYFARFQNYFSEIrnlflkGKKIYYVEGNHD-FH 85 
                              67889*****8666666666666663333445559***99******888666666666555555566688899**********.99 PP

                              H.HHHHHHHHHHHH..HHHHEHHHCEEETSEEEEEETTEEEEEEEESECEEE...THHHHHHHHHHHSCHHHHCCHHHHHHHHHHT CS
              Metallophos  79 e.ellnkygylgif..sepwrsdaevfnnlplaslgsgslkvlllhGgspel...lvsldklgslnleleapepgdewlkdlekre 158
                              + +l  k+ +++++  ++++   a  f++   +       k++++hG+++el   ++++ k++  ++ l++    ++++ +     
  PHY93_20990|PHY93_20990  86 IrNLYTKFFQIHKDldPALF-AMAPSFEFSDANK------KIYFCHGDDIELnnpTYKIYKATVTSFALRYYA--NNLMPH----- 157
                              99999998887777422222.2255555555555......********8888777777777777777777777..777777..... PP

                              TCSEEEEEESSESS........CSSSCSCCHHHHH..........HHHHHTTESEEEEESSSS CS
              Metallophos 159 kadwvivlgHsply........rgsgylfgdeale..........dllkkygvdlvisGHtHv 203
                                   +++  ++ y        +++ y+ +++ +            ++kk+ v+++++GH+Hv
  PHY93_20990|PHY93_20990 158 -----FLIKSIGEYsaeksrrrNNKRYSAESDLTLvrdnfrlsaeVFFKKHPVQAIVCGHSHV 215
                              .....666666666777776543344444444444889999999667***************7 PP

>> Metallophos_2  Calcineurin-like phosphoesterase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.0   1.1   6.8e-16   6.1e-12       1     147 [.       1     234 [.       1     243 [. 0.77

  Alignments for each domain:
  == domain 1  score: 46.0 bits;  conditional E-value: 6.8e-16
            Metallophos_2   1 MklaiiSDlH......snldaleavlealkevgvdaiihaGDl..eeeep.........evleellela...........pvlaVr 58 
                              Mk+ +iSD+H      ++  +l a+l+  + ++ d i+++GD+    + p         +        +           ++++V 
  PHY93_20990|PHY93_20990   1 MKFSAISDIHvkssgdQAEVLLLAFLRNPDVQSSDVIFLLGDIfdLMIGPhsqyfarfqNY-------FseirnlflkgkKIYYVE 79 
                              9*********985554333333444665555666********6552333333344433323.......333334447778****** PP

            Metallophos_2  59 GNnDeevveedvlreaaelgtdl........peeaelelagekvlliHgdpl.................................. 102
                              GN+D   +++ +  ++ ++ +dl        p+ ++ + a++k++++Hgd+                                   
  PHY93_20990|PHY93_20990  80 GNHD--FHIRNLYTKFFQIHKDLdpalfamaPSFEFSD-ANKKIYFCHGDDIelnnptykiykatvtsfalryyannlmphfliks 162
                              ****..98999999999999999777776655666666.9999*******88********************************** PP

            Metallophos_2 103 ..........................gvkdalaellkeaeegsdvvvcGHtHvpeveke.ggvlvvnPGsvg 147
                                                        +++ +l++ ++ ++ +++ +vcGH+Hv+      +g  +vn G ++
  PHY93_20990|PHY93_20990 163 igeysaeksrrrnnkrysaesdltlvRDNFRLSAEVFFKKHPVQAIVCGHSHVKDYYVSaNGFEYVNNGYAQ 234
                              *****************999999988888888877777889999**********444332588888877665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (258 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       575  (0.0320709); expected 358.6 (0.02)
Passed bias filter:                      396  (0.0220871); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 2005.86
//
Query:       PHY93_20995|PHY93_20995  [L=233]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.3e-08   33.8   0.0    5.9e-08   33.0   0.0    1.4  1  PilZ      PilZ domain


Domain annotation for each model (and alignments):
>> PilZ  PilZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.0   0.0   3.3e-12   5.9e-08       1     101 [.     109     221 ..     109     223 .. 0.92

  Alignments for each domain:
  == domain 1  score: 33.0 bits;  conditional E-value: 3.3e-12
                              CSSSS-C..EEECEEEEEEETTEE..EEEEEEEEESSEEEEEES...T-SS-TTSEEEEEEECECEEEEEEEEEEEEEECTCTTE. CS
                     PilZ   1 qrRkekRlevpvsipvtleadege..lkgrliDiSlgGlairlp...deelalgdrvelklpldkdqelslpgrVvrvkpeedge. 80 
                              +rRk++R  +     + ++ + ++  +k  + D+SlgG+a++lp   +  +++g+ +++ + + +  ++++++++v+  + ++ + 
  PHY93_20995|PHY93_20995 109 ERRKHER--IQPLKACYVSFEHNKmmIKKSIYDFSLGGIAVILPksdKVIITKGKIFTVFVLDIGLRKIKVKAECVNSFSIDRFKf 192
                              79*****..88888888888888888999*****************9999******9999999******************98889 PP

                              ........EEEEEEEEECHHHHHHHHHHH CS
                     PilZ  81 ........rlGveFldldeeqrellirll 101
                                      +l ++F+++++++++ l+++l
  PHY93_20995|PHY93_20995 193 enlpyggfKLAFRFTEISKDDKAFLAEFL 221
                              99999977779**********99999887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (233 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       478  (0.0266607); expected 358.6 (0.02)
Passed bias filter:                      328  (0.0182944); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1747.95
//
Query:       PHY93_21000|PHY93_21000  [L=290]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (290 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       706  (0.0393775); expected 358.6 (0.02)
Passed bias filter:                      152  (0.00847788); expected 358.6 (0.02)
Passed Vit filter:                         6  (0.000334653); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 2111.67
//
Query:       PHY93_15945|PHY93_15945  [L=266]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.9e-58  196.7   0.3    5.6e-58  196.6   0.3    1.0  1  Aldedh    Aldehyde dehydrogenase family


Domain annotation for each model (and alignments):
>> Aldedh  Aldehyde dehydrogenase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  196.6   0.3   3.1e-62   5.6e-58     209     462 .]       1     254 [.       1     254 [. 0.96

  Alignments for each domain:
  == domain 1  score: 196.6 bits;  conditional E-value: 3.1e-62
                              EEEES-HHHHHHHHHHHHCTTSEEEEEE---EEEEE-TTSHHHHHHHHHHHHHHGGGGTSTTSEEEEEEEHHHHHH..HHHHHHHH CS
                   Aldedh 209 vsftGstevgrkiakaaaknlkrvtlElGGknplivledaDldkaveaivkgafgnaGQvCiaasrllvqesiyde..fveklvea 292
                              + f+Gst++++ ++ + ++  krv++  G+kn++i l+da+ + a  +i  +++g+aGQ+C+aas llv  +  d    +ek++ +
  PHY93_15945|PHY93_15945   1 IGFVGSTKIAKAVYDRGTNLGKRVLALGGAKNHVILLPDANPEMAGIGISDSFTGCAGQRCMAASVLLVVGEPKDTekHIEKIITR 86 
                              67**************99999************************************************999877666******** PP

                              HHT--BS-TTSTT-SB---SSHHHHHHHHHHHHHHHHTTSEEEE-TT..E.SB-SSSTTEE--EEEES-TTTSHHHHS---SSEEE CS
                   Aldedh 293 akklkvgdpldedtdvGPliseaqlekvekyveeakeegaklllGge..reeaglekgyfvePtvlanvtpdmriaqeEiFGPVls 376
                              a++l++g      td+G++i++aq+e ++  + +a+++gak+ll+g+     +g e+g+++ Pt+l+nv+p ++ a  E+FGP++s
  PHY93_15945|PHY93_15945  87 ASALRLG------TDMGAIITKAQVEFLRVAITKAEAAGAKVLLDGRkaLPPSGMEEGNWIGPTILDNVQPGSEAAAVELFGPIIS 166
                              ****996......67*****************************999887799********************************* PP

                              EEEESSHHHHHHHHHSSSEESEEEEE-SBHHHHHHHHHHS-SSEEEESSSST--TTTSEB--CGGGEES..-BSHHHHHHHTEEEE CS
                   Aldedh 377 vikfkdeeeaieiaNdteyGLaagvftkdleraervaerleaGnvyiNdsttgaaealpfgGvkqSglG..reggkegleeytevk 460
                              +i++kd+ ea++i N+  yG+a +vft++ + ae+v++  ++G+v++N    +  e + fgGv++S +G  + +g+++l++++++k
  PHY93_15945|PHY93_15945 167 IIRCKDISEAMKIENSVVYGNACSVFTSNGALAEKVIKMASTGMVGVNVGVPVPREPFSFGGVNASKFGhgDITGQHSLDFWSNIK 252
                              **************************************************99999999********999778899**********9 PP

                              EE CS
                   Aldedh 461 tv 462
                              +v
  PHY93_15945|PHY93_15945 253 KV 254
                              87 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (266 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       486  (0.0271069); expected 358.6 (0.02)
Passed bias filter:                      422  (0.0235373); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 2002.47
//
Query:       PHY93_15950|PHY93_15950  [L=416]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.9e-83  278.4   0.1    4.8e-83  277.7   0.1    1.3  1  GTP_CH_N         GTP cyclohydrolase N terminal
    2.4e-13   50.0   0.0    3.6e-13   49.4   0.0    1.3  1  GTP_cyclohydro2  GTP cyclohydrolase II


Domain annotation for each model (and alignments):
>> GTP_CH_N  GTP cyclohydrolase N terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  277.7   0.1   5.4e-87   4.8e-83       2     193 .]       9     197 ..       8     197 .. 0.99

  Alignments for each domain:
  == domain 1  score: 277.7 bits;  conditional E-value: 5.4e-87
                 GTP_CH_N   2 rvvlttypeqsgikpiplkWgakdakeRGpvvasrkksslkkrnaiGahsGsYsvYralavasgkldaehkpdltntepavkigpq 87 
                              +vvlt+++eq+ ++++p++Wgak+++eRGpv+as   +++k+rnaiG+hsGsY++Yral++a+g+ + +hkpdl+nte+++kigp+
  PHY93_15950|PHY93_15950   9 HVVLTSHSEQVYKNALPVHWGAKNPTERGPVIASL--TDIKERNAIGTHSGSYAIYRALSIAQGSYNINHKPDLHNTESPIKIGPH 92 
                              89*********************************..9************************************************ PP

                 GTP_CH_N  88 psWsdpkkivslDpfghlvaevfkeelekgldirPtiavtkahlklpelkeavkkgrlkvDGkivlkskgevavtkvavepvWyLP 173
                               sW+dp+k+vs+Dp+g  v+ +fk+++++g+dirPti+vt+ahl+lpe++ a+++grlk+DGkiv+++ ++++vtkva+epvW+LP
  PHY93_15950|PHY93_15950  93 ASWFDPDKMVSIDPWGLDVQINFKKQYDEGYDIRPTISVTQAHLQLPEIHLAIAAGRLKIDGKIVKEN-MDIKVTKVALEPVWHLP 177
                              *****************************************************************999.***************** PP

                 GTP_CH_N 174 gvaeRfgiseeeLRralfee 193
                              g+a+R+g++e+eLR+ lf+e
  PHY93_15950|PHY93_15950 178 GIAKRLGVDEGELRKILFQE 197
                              ******************86 PP

>> GTP_cyclohydro2  GTP cyclohydrolase II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.4   0.0     4e-17   3.6e-13      37     162 ..     229     373 ..     181     374 .. 0.84

  Alignments for each domain:
  == domain 1  score: 49.4 bits;  conditional E-value: 4e-17
                              ...........EEEEEE--HHHHHS-B--TTTTTHH....HHHHHHHHHH-.EEEEEE--TTTTTHHHHHHHHHHHHH..CT--HH CS
          GTP_cyclohydro2  37 i........pvlvRvHsecltgDvlgslrcdcgeql....dealeliaeegrGvlvylrqegrgigllnklkayalqd..eglDTv 108
                              +        ++ +RvH ec  +Dv+ s  c c++ l    ++a++  ++ g G++ y r+egr  g + k+  y+ ++  eg D  
  PHY93_15950|PHY93_15950 229 PddlsnpdvELTCRVHDECNGSDVFCSDICTCRPYLiygiEDAARTAQRGGVGIIAYYRKEGRALGEVTKFLVYNARKrqEGGDSA 314
                              355555555899**********************986666788888888999*******************999988544788988 PP

                              H....HHHHHT--S-----HHHHHHHHHTT--EE.EEE-S-HHHHHHHCTT....SEEE CS
          GTP_cyclohydro2 109 e....anlalglpadardygiaaqILkdlgvkki.rLlTnnpekveaLegfgievverv 162
                                     +     +dar  ++   IL+ +g+kki +L + ++ k++a+ + gievv+r+
  PHY93_15950|PHY93_15950 315 AtyfrRTECVAGVEDARFQELMPDILQFFGIKKIhNLHSMSNMKYDAIIKSGIEVVNRI 373
                              77777777888899*******************945888889**************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (416 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       469  (0.0261587); expected 358.6 (0.02)
Passed bias filter:                      424  (0.0236488); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.55u 0.22s 00:00:00.77 Elapsed: 00:00:00.43
# Mc/sec: 2903.56
//
Query:       PHY93_15955|PHY93_15955  [L=405]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
     2e-135  451.8   0.0   2.3e-135  451.6   0.0    1.0  1  DUF1688    Protein of unknown function (DUF1688)
  ------ inclusion threshold ------
      0.019   14.6   0.0       0.31   10.6   0.0    2.2  2  Q_salvage  Potential Queuosine, Q, salvage protein family


Domain annotation for each model (and alignments):
>> DUF1688  Protein of unknown function (DUF1688)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  451.6   0.0  2.5e-139  2.3e-135       2     420 ..      18     405 .]      17     405 .] 0.97

  Alignments for each domain:
  == domain 1  score: 451.6 bits;  conditional E-value: 2.5e-139
                  DUF1688   2 LrslkavRerckkvlelakegklehfdvdeskleevadfvvkvikrdygpdlksiPphgRwrHfevggvdriaelleklkkekdel 87 
                              L+s +a+R+ ++++++l+k+gk+ hf+++++k+e v+d+v++vik++y p+l+ iP+h+Rw Hf++ g+dr++++l+   k+ d  
  PHY93_15955|PHY93_15955  18 LLSPAAIRQSAEAIFDLTKNGKT-HFTYHPEKFEGVVDYVIEVIKENY-PTLD-IPFHSRWGHFRAAGIDRVTDVLDPKIKNLDLR 100
                              8999************9998886.9***********************.9999.********************999999899*** PP

                  DUF1688  88 ekarrliDLflvsvLLDagagekwkykekesgekykrseGlavaslemFkaglfssdeeeklrvdaegLkkltaeklakalqvsee 173
                              e+ar ++DL++ svLLDagag++wky ek+sg++++rseGl+vas+++F++g +s+  + +l+++a+gL++l++ekl +a+qvs+ 
  PHY93_15955|PHY93_15955 101 EQARIKLDLVITSVLLDAGAGAEWKYLEKSSGKTITRSEGLGVASFYLFMDGSLSD--SGELKATAKGLQNLSKEKLCEAFQVSPL 184
                              *******************************************************9..5699************************ PP

                  DUF1688 174 nplvGlegRaelLkrLgealeekpevfgeegrpgnlvdyllskakekasskkeveleelwevlleglapiWpasrtkidgvslGDv 259
                              nplvG++gR++lLk+Lg+++e+k+++f   grpgn+vdyl ++        k+ + ++l++++l+gl++iWp +r ki+gv+lGD+
  PHY93_15955|PHY93_15955 185 NPLVGVDGRLALLKNLGQTIEAKQDIF-PGGRPGNIVDYLNARY------GKSFTGAQLLRAVLDGLGEIWP-GRIKIAGVNLGDI 262
                              ***************************.569*********9655......568999****************.************* PP

                  DUF1688 260 WplsalkkskeeeeeslvpfHkLsqWltYSLleplekllglkvegleeltgLpeYrNGGLlvDlgvltlkkealerglkkseeelp 345
                              W ++++         +l +fHkLsqW+tYSL+epl++ +g+ v+++e+ltgL+eYrNGGLl+D +++tl +++l+         ++
  PHY93_15955|PHY93_15955 263 WAYEKVP-------GALAAFHKLSQWMTYSLCEPLQE-AGFVVTDVEKLTGLAEYRNGGLLLDRELITLTDKKLA---------EE 331
                              ******6.......57*********************.************************************9.........78 PP

                  DUF1688 346 afeasdevivewRalTvalLDelaeevreklelsaeeLsLaqvLeagtWkaGReiAkekrpetkepPieiesDgt 420
                              ++++++e+i+ewR+lT+alLD++  +v++kl++s +e++La+vLe+gtW aGR+ Ak  r  +++pP++iesDgt
  PHY93_15955|PHY93_15955 332 THRPDSELIIEWRGLTIALLDRIGGAVQKKLHKSPSEFPLAKVLEGGTWWAGRKAAKALR-VDSSPPLKIESDGT 405
                              99**********************************************************.99***********9 PP

>> Q_salvage  Potential Queuosine, Q, salvage protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.0     0.018   1.6e+02      64     110 ..     162     208 ..     145     213 .. 0.88
   2 ?   10.6   0.0   3.5e-05      0.31     164     250 ..     287     368 ..     260     395 .. 0.77

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.018
                Q_salvage  64 tdpeflsketeeelkkvfrsateeeiplleeRlellreagkvllekf 110
                               +++ l+++++e+l + f+ +  +++  ++ Rl+ll+++g+++  k 
  PHY93_15955|PHY93_15955 162 ATAKGLQNLSKEKLCEAFQVSPLNPLVGVDGRLALLKNLGQTIEAKQ 208
                              578889999************999999**************998765 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 3.5e-05
                Q_salvage 164 waafegeglgefedidkltmfADyrvpqvLrqlgvLeyseeLekklkekellesgseeeveiRacsiwavelireeiekkkeeake 249
                              +  ++  g+   +d++klt  A+yr   +L   ++++ +++   kl  +e+ + +se  +e R+ +i+  ++i  +++kk +++ +
  PHY93_15955|PHY93_15955 287 CEPLQEAGFV-VTDVEKLTGLAEYRNGGLLLDRELITLTDK---KLA-EETHRPDSELIIEWRGLTIALLDRIGGAVQKKLHKSPS 367
                              4444444433.68**********************997753...454.4556889***********************99988765 PP

                Q_salvage 250 k 250
                              +
  PHY93_15955|PHY93_15955 368 E 368
                              5 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (405 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       346  (0.0192983); expected 358.6 (0.02)
Passed bias filter:                      345  (0.0192426); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.41
# Mc/sec: 2976.15
//
Query:       PHY93_21415|PHY93_21415  [L=157]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.068   12.8   0.2      0.079   12.6   0.2    1.1  1  DUF1926   Domain of unknown function (DUF1926)


Domain annotation for each model (and alignments):
>> DUF1926  Domain of unknown function (DUF1926)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.2   4.4e-06     0.079     186     253 ..      58     119 ..      41     140 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 4.4e-06
                  DUF1926 186 NlallaleaddrylllndkklgeeleleevkefeleDevlkkklelelsepaelwafPveTVSqsekg 253
                              N+++ +++      ++n + + +  +l+++++f ++D++++++l++e++++++++   +  VS + ++
  PHY93_21415|PHY93_21415  58 NITVSNVQ------VINHQIIITGTNLDSISNFDIKDGTTNTNLQIESKSNTSIVGNTLSNVSFAAGK 119
                              55555555......677888889999999***************************999999976654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (157 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       781  (0.0435607); expected 358.6 (0.02)
Passed bias filter:                      405  (0.0225891); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 1135.73
//
Query:       PHY93_15960|PHY93_15960  [L=207]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      5e-60  202.5   0.0    5.8e-60  202.3   0.0    1.0  1  UPRTase       Uracil phosphoribosyltransferase
    3.9e-10   39.5   0.0    5.7e-10   38.9   0.0    1.3  1  Pribosyltran  Phosphoribosyl transferase domain
  ------ inclusion threshold ------
      0.029   14.3   0.0      0.047   13.7   0.0    1.4  1  53-BP1_Tudor  Tumour suppressor p53-binding protein-1 Tudor
      0.038   14.2   0.1         10    6.5   0.0    2.3  2  BEN           BEN domain


Domain annotation for each model (and alignments):
>> UPRTase  Uracil phosphoribosyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  202.3   0.0   1.3e-63   5.8e-60       1     205 [.       6     206 ..       6     207 .] 0.98

  Alignments for each domain:
  == domain 1  score: 202.3 bits;  conditional E-value: 1.3e-63
                  UPRTase   1 vsshpllkakltilRdastsrkdfrelvdriarllaeealsallpveevtvttplgkeysgelldeekialVpilRaGegmeealr 86 
                              v++hpl+k+kl  lRd++t++ +fre+v++i+ +la+ea++ + ++e+v ++tp++k+++++++++   ++V+i+RaG+gm++a++
  PHY93_15960|PHY93_15960   6 VIDHPLMKHKLGYLRDKTTNSYEFREIVKEISKILAYEAMKGWSQLETVSIETPIAKTKTERIINP--PVVVSIMRAGNGMLDAVL 89 
                              689**********************************************************99997..89**************** PP

                  UPRTase  87 ellpearvghlglqreeetlepveyynkLPkkiaertvlllDpviaTGgsaaaaiqlLkergvgeekIlvlsvlaseegvkrlaee 172
                              +++p  + g +g++r++  +++veyy k+P++i+ + +ll+Dp+iaT  ++ aa+++Lk+   ++ kI vls+las+ g++++++ 
  PHY93_15960|PHY93_15960  90 SMIPISSAGYIGIYRDKFIHNTVEYYFKMPENIKGKDILLCDPLIATADTMLAALDRLKQ--YEVGKIKVLSILASKYGLEKVHHF 173
                              ************************************************************..6667******************** PP

                  UPRTase 173 fpkvkvvtaavDeeldekgyivpGlGDfGDRlF 205
                              +p+v+++t+++++e+++ gy+vpGlGD+GDRl+
  PHY93_15960|PHY93_15960 174 HPDVEIYTVNIEQEINDVGYLVPGLGDAGDRLY 206
                              ********************************9 PP

>> Pribosyltran  Phosphoribosyl transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.9   0.0   1.3e-13   5.7e-10      28     133 ..      69     170 ..      48     193 .. 0.88

  Alignments for each domain:
  == domain 1  score: 38.9 bits;  conditional E-value: 1.3e-13
                              GGGEEEEEEETTTHHHHHHHHHHS...TT-EE-EEEEEE-TTT--EE........EE----TTSEEEEE-SEESSSHHHHHHHHHH CS
             Pribosyltran  28 gkpdvvvgiargGvpfakiladeL...evplayvrkvkyrpdgseeaargssdesrlledpagkkVliVDDildtGgTllaalelL 110
                               +p+vvv i+r G  + +++ + +    + +  +++ k+ +++ e   +       ++e+++gk +l++D +++t+ T+laal++L
  PHY93_15960|PHY93_15960  69 INPPVVVSIMRAGNGMLDAVLSMIpisSAGYIGIYRDKFIHNTVEYYFK-------MPENIKGKDILLCDPLIATADTMLAALDRL 147
                              689*********************8888889999999999999998875.......****************************** PP

                              HCC-BSEEEEEEEEE-HHHHHHH CS
             Pribosyltran 111 kekgpeevriavlvdkpateeev 133
                              k +++ ++++  +++ + + e+v
  PHY93_15960|PHY93_15960 148 KQYEVGKIKVLSILASKYGLEKV 170
                              **********9999777666665 PP

>> 53-BP1_Tudor  Tumour suppressor p53-binding protein-1 Tudor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0     1e-05     0.047      44      77 ..     121     156 ..      90     171 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1e-05
                              EEEGGGEESSSS-..-TT-EEEEEBTTBSSEEEEEE CS
             53-BP1_Tudor  44 evlgkdillcdpi..pletevtalledeyfsigvvk 77 
                              ++ gkdillcdp+    +t ++al   + + +g +k
  PHY93_15960|PHY93_15960 121 NIKGKDILLCDPLiaTADTMLAALDRLKQYEVGKIK 156
                              689*********833467888898888888888776 PP

>> BEN  BEN domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.4   0.0    0.0047        21      39      76 ..      13      42 ..       7      44 .. 0.88
   2 ?    6.5   0.0    0.0022        10      44      70 ..     107     134 ..     104     137 .. 0.86

  Alignments for each domain:
  == domain 1  score: 5.4 bits;  conditional E-value: 0.0047
                             HHHHHHHHHHHHHHH--..........-HHHHHHHHHH CS
                      BEN 39 pnklsaIrnyveerypsekededwwrecldqInkilrr 76
                              +kl ++r+++++ y          re++++I kil +
  PHY93_15960|PHY93_15960 13 KHKLGYLRDKTTNSYEF--------REIVKEISKILAY 42
                             69**************9........9999999999876 PP

  == domain 2  score: 6.5 bits;  conditional E-value: 0.0022
                              HHHHHHHHHH--...........-HHHH CS
                      BEN  44 aIrnyveeryps.ekededwwrecldqI 70 
                              +I+n+ve+++ + e+ +++++  c++ I
  PHY93_15960|PHY93_15960 107 FIHNTVEYYFKMpENIKGKDILLCDPLI 134
                              8***********8888888888888887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (207 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       550  (0.0306766); expected 358.6 (0.02)
Passed bias filter:                      483  (0.0269396); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1498.38
//
Query:       PHY93_15965|PHY93_15965  [L=207]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.2e-32  112.4   0.0    3.3e-32  111.8   0.0    1.2  1  PRK           Phosphoribulokinase / Uridine kinase family
    3.2e-08   34.2   0.1    7.6e-08   33.0   0.1    1.6  1  AAA_18        AAA domain
    0.00022   21.6   0.4      0.044   14.2   0.1    2.3  2  AAA_17        AAA domain
    0.00051   20.2   0.1       0.03   14.5   0.0    2.2  2  AAA_33        AAA domain
    0.00062   19.5   0.4          1    9.0   0.0    2.1  2  CoaE          Dephospho-CoA kinase
     0.0011   18.3   0.0     0.0024   17.2   0.0    1.5  1  Zeta_toxin    Zeta toxin
  ------ inclusion threshold ------
      0.012   15.3   0.0      0.022   14.5   0.0    1.5  2  AAA_24        AAA domain
      0.043   13.3   0.0       0.12   11.8   0.0    1.7  2  Pox_A32       Poxvirus A32 protein
      0.066   13.2   0.0       0.93    9.5   0.0    2.3  3  AAA_5         AAA domain (dynein-related subfamily)
      0.076   13.4   0.0       0.13   12.6   0.0    1.4  1  AAA_16        AAA ATPase domain
      0.097   12.6   0.0       0.18   11.7   0.0    1.5  1  NACHT         NACHT domain
       0.12   12.3   0.0        1.6    8.6   0.0    2.2  2  APS_kinase    Adenylylsulphate kinase
       0.13   12.6   0.0        1.1    9.7   0.0    2.1  2  RNA_helicase  RNA helicase
       0.17   11.6   0.1       0.47   10.2   0.0    1.7  2  ATP_bind_1    Conserved hypothetical ATP binding protein


Domain annotation for each model (and alignments):
>> PRK  Phosphoribulokinase / Uridine kinase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  111.8   0.0   2.6e-35   3.3e-32       1     191 [.       6     186 ..       6     190 .. 0.94

  Alignments for each domain:
  == domain 1  score: 111.8 bits;  conditional E-value: 2.6e-35
                      PRK   1 vIgvagsSGaGkttvarklekifgrekvkaaeiegdsflrldraekdleleerkrakekevsflspeandfdllyevlkelkegkk 86 
                              +Igvag SG+Gkt +ar+l+ i+g ++ +        +l  d+ + d +++   + +  +v+f+ p   dfdll   l elk+g++
  PHY93_15965|PHY93_15965   6 IIGVAGGSGSGKTYFARELQRILGDNNCT--------ILYQDNYYIDQSIQFDGDGG--SVNFDHPSSLDFDLLALGLSELKSGRR 81 
                              8***********************77777........88889999888888777776..8999*********************** PP

                      PRK  87 vdkpiYsheteeaapdkeeliegadvlviEGlhalydervaelldlkiyvdisidlelarklqRDiaeRGrsleavldsil.rrkp 171
                              +++p Y++ t+++   k+   e++++++++G++ l    v+  ld  i+ d+ ++l++ r+l RD+ eRGr+ e+v++++   ++p
  PHY93_15965|PHY93_15965  82 IEVPLYEFATHKRLE-KTIACEPKKIILVDGILILDSSVVRAQLDEAIFFDTPEELRYQRRLDRDVHERGRTQEGVKKQFDlQVRP 166
                              **************9.*****************998888*****************************************99**** PP

                      PRK 172 dyvnyikpqfseadliiqrv 191
                                +++++p  ++a+ ++  +
  PHY93_15965|PHY93_15965 167 MHDQFVQPSRNHAQTVVRDL 186
                              *************9999766 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.0   0.1   5.9e-11   7.6e-08       1     120 [.       7     151 ..       7     161 .. 0.85

  Alignments for each domain:
  == domain 1  score: 33.0 bits;  conditional E-value: 5.9e-11
                   AAA_18   1 IlltGtpGvGKttlakeLskrlgfgvnlrdvakenglllevdpe........aldeskrldedkldklldaleenss......... 69 
                              I+++G +G+GKt +a+eL++ l  g+n   +++++++++++  +         +d    ld d l+  l++l+  ++         
  PHY93_15965|PHY93_15965   7 IGVAGGSGSGKTYFARELQRIL--GDNNCTILYQDNYYIDQSIQfdgdggsvNFDHPSSLDFDLLALGLSELKSGRRievplyefa 90 
                              89********************..*******************99*****665555566666665555555555555999999999 PP

                   AAA_18  70 .........aleegknlvidghlaeleseaakdikk.vvLtaspeelleRlekRgyeeaki 120
                                       a e  k +++dg+l    s  + ++   ++ ++++e +++R  +R+ +e+ +
  PHY93_15965|PHY93_15965  91 thkrlektiACEPKKIILVDGILILDSSVVRAQLDEaIFFDTPEELRYQRRLDRDVHERGR 151
                              99999999999999********998887766666667******************998764 PP

>> AAA_17  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   0.0     0.016        21       2      19 ..      11      28 ..      10      36 .. 0.87
   2 !   14.2   0.1   3.4e-05     0.044      59     130 ..      93     154 ..      74     158 .. 0.75

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.016
                             E-TTSSHHHHHHHHHHHH CS
                   AAA_17  2 GgPGsGKgtqceklveky 19
                             Gg GsGK+  +++l++ +
  PHY93_15965|PHY93_15965 11 GGSGSGKTYFARELQRIL 28
                             9**********9998765 PP

  == domain 2  score: 14.2 bits;  conditional E-value: 3.4e-05
                              HHHHHHHHHHHHSSEEEEEE-SEEEETTEEEESSHHHHHHHH..SEEEEEE--HHHHHHHHHHH..TTST-TS- CS
                   AAA_17  59 keaaekiaeeakkkgvlvdghprikeqagfldglpkevleelkpdaiilleadpeeilerrlkd..rtrgrddd 130
                              k+++++ia e  kk +lvdg   +          ++ v+  ++ d  i++++++e  ++rrl +  ++rgr+ +
  PHY93_15965|PHY93_15965  93 KRLEKTIACE-PKKIILVDGILIL----------DSSVV-RAQLDEAIFFDTPEELRYQRRLDRdvHERGRTQE 154
                              5566666654.5667788888754..........33333.3457999***************997779999876 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.5   0.0   2.3e-05      0.03       4      34 ..       9      42 ..       6     111 .. 0.85
   2 ?    4.0   0.1     0.041        52      99     135 ..     125     162 ..     114     168 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 2.3e-05
                   AAA_33  4 lvGlpGsGKstlaerllkklg...avllssdtlr 34
                             + G +GsGK+++a++l + lg   +++l +d+++
  PHY93_15965|PHY93_15965  9 VAGGSGSGKTYFARELQRILGdnnCTILYQDNYY 42
                             6799************888888889999999854 PP

  == domain 2  score: 4.0 bits;  conditional E-value: 0.041
                   AAA_33  99 vrivvvetdeetlkeRlakRaang.ddrsevpeealdr 135
                              +++++++t+ee+  +R   R  ++ ++  e  ++++d 
  PHY93_15965|PHY93_15965 125 DEAIFFDTPEELRYQRRLDRDVHErGRTQEGVKKQFDL 162
                              689*********99999999877634444555666655 PP

>> CoaE  Dephospho-CoA kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.0   0.0   0.00079         1       1      22 [.       5      26 ..       5      40 .. 0.88
   2 !    8.9   0.1   0.00087       1.1      92     166 ..      93     168 ..      82     180 .. 0.84

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.00079
                             EEEEEEESTTSSHHHHHHHHHH CS
                     CoaE  1 livgltGgiasGKstvanlfad 22
                             +i+g++Gg +sGK+  a+ ++ 
  PHY93_15965|PHY93_15965  5 YIIGVAGGSGSGKTYFARELQR 26
                             69***************99886 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 0.00087
                              HHHHHHHHH--SSEEEEE-TTTTTT.TGGGGSSEEEEEE--HHHHHHHHHHCCTSTHHHHHHHHHHS--HHHHHHH CS
                     CoaE  92 reikkelakleskyvlldvPLLvEk.qlekliervlvvdvelelqveRlvardgvseeevkaiiaaQlseeerlal 166
                              ++++k++a   +k++l+d  L++++  +++ +++ +  d ++el+ +R ++rd  ++   ++ ++ Q + + r  +
  PHY93_15965|PHY93_15965  93 KRLEKTIACEPKKIILVDGILILDSsVVRAQLDEAIFFDTPEELRYQRRLDRDVHERGRTQEGVKKQFDLQVRPMH 168
                              56777888888899999999999883567899****************************9999999998877655 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.0   1.9e-06    0.0024      15      54 ..       3      41 ..       1      42 [. 0.93

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 1.9e-06
               Zeta_toxin 15 rPklillgGqpGAGKselaellkdelerqgnvvrldpDdl 54
                             +P +i ++G++G+GK++ a++l++ l+ ++n+  l++D++
  PHY93_15965|PHY93_15965  3 KPYIIGVAGGSGSGKTYFARELQRILG-DNNCTILYQDNY 41
                             899***********************6.999999999987 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0   1.7e-05     0.022       2      27 ..       4      28 ..       3      60 .. 0.86
   2 ?   -3.2   0.0       4.4   5.6e+03     152     167 ..     148     163 ..     128     181 .. 0.72

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 1.7e-05
                   AAA_24  2 klkiliyGpsgiGKTtlakelgpkpl 27
                             ++ i + G sg+GKT++a+el +++l
  PHY93_15965|PHY93_15965  4 PYIIGVAGGSGSGKTYFAREL-QRIL 28
                             57799****************.6654 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 4.4
                   AAA_24 152 lgkktanelkeevDlv 167
                              ++ +t++ +k+++Dl 
  PHY93_15965|PHY93_15965 148 ERGRTQEGVKKQFDLQ 163
                              4566677777777765 PP

>> Pox_A32  Poxvirus A32 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   9.6e-05      0.12      11      39 ..       2      30 ..       1      40 [. 0.86
   2 ?   -1.6   0.0       1.2   1.5e+03     195     225 ..     112     143 ..      90     150 .. 0.56

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 9.6e-05
                  Pox_A32 11 kkpFrlalvGgsGsGktvyLlsLlrtlvk 39
                             +kp+ + + GgsGsGkt + ++L r l++
  PHY93_15965|PHY93_15965  2 AKPYIIGVAGGSGSGKTYFARELQRILGD 30
                             67899999***********9999887765 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 1.2
                  Pox_A32 195 vliiedsvf.segeariCldsaDesviekeld 225
                              +li++ sv  ++ ++ i +d+ +e   +++ld
  PHY93_15965|PHY93_15965 112 ILILDSSVVrAQLDEAIFFDTPEELRYQRRLD 143
                              44555554323444555555555555555555 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.0   0.00073      0.93       6      33 ..      11      38 ..       8      48 .. 0.81
   2 ?    0.9   0.0      0.32   4.1e+02      60      83 ..      98     121 ..      69     129 .. 0.60
   3 ?   -3.1   0.0       5.5   7.1e+03      37      49 ..     132     145 ..     130     158 .. 0.69

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00073
                             --SSSSHHHHHHHGGGGBS--EEEEE-- CS
                    AAA_5  6 GppGtgKselaerlaaalnreveyvqlt 33
                             G +G+gK+ +a++l + l+++  +++ +
  PHY93_15965|PHY93_15965 11 GGSGSGKTYFARELQRILGDNNCTILYQ 38
                             899***************7776666655 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.32
                              -----G-SEEEEESGGG--HHHHH CS
                    AAA_5  60 vraaregeilvlDEveraesevln 83 
                              + a++ ++i+++D++  ++s+v+ 
  PHY93_15965|PHY93_15965  98 TIACEPKKIILVDGILILDSSVVR 121
                              225557888888888777776665 PP

  == domain 3  score: -3.1 bits;  conditional E-value: 5.5
                              -HHHHH--B--... CS
                    AAA_5  37 teedlkgrreik.n 49 
                              t+e+l+++r+++ +
  PHY93_15965|PHY93_15965 132 TPEELRYQRRLDrD 145
                              67899999988642 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0    0.0001      0.13      27      63 ..       7      43 ..       2      78 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 0.0001
                   AAA_16 27 vllsGesGvGKsslvrellralekdggiflrgkcdql 63
                             + + G sG+GK+  +rel+r l ++++  l++++   
  PHY93_15965|PHY93_15965  7 IGVAGGSGSGKTYFARELQRILGDNNCTILYQDNYYI 43
                             5689***************999888777777766655 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00014      0.18       5      29 ..       9      33 ..       5      45 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00014
                             EEC-TTTCHHHHHHHHHHHHCTS-S CS
                    NACHT  5 lqGeaGsGKTtLlqklalawaegkl 29
                             + G +GsGKT+++++l + + ++++
  PHY93_15965|PHY93_15965  9 VAGGSGSGKTYFARELQRILGDNNC 33
                             88**************999988776 PP

>> APS_kinase  Adenylylsulphate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   0.0    0.0012       1.6       2      32 ..       4      34 ..       3      49 .. 0.82
   2 ?    1.5   0.0      0.19   2.4e+02      19      62 ..     100     141 ..      95     198 .. 0.76

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.0012
                             -EEEEEESSTTSSHHHHHHHHHHHHHHTT-- CS
               APS_kinase  2 gvvvwltGlsgsGKstianalekkLvekgis 32
                             + ++ ++G sgsGK+  a++l++ L +++ +
  PHY93_15965|PHY93_15965  4 PYIIGVAGGSGSGKTYFARELQRILGDNNCT 34
                             5678899*****************9887654 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.19
                              HHHHHHHHHHTT--EEEEEHHHHTTTTTTT--SSHHHHHHHHHH CS
               APS_kinase  19 analekkLvekgisvylLdGdnvRhgLnkdLgfseedRkenirr 62 
                              a++ +k +  +g  + +Ld  +vR +L + + f++ +     rr
  PHY93_15965|PHY93_15965 100 ACEPKKIILVDG--ILILDSSVVRAQLDEAIFFDTPEELRYQRR 141
                              555555555554..357888999999988888877665555555 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   0.0   0.00087       1.1       3      34 ..       9      41 ..       7      49 .. 0.72
   2 ?    0.5   0.0      0.62   7.9e+02      28      64 ..     156     192 ..     139     203 .. 0.80

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.00087
             RNA_helicase  3 lyGpsgeGKStlakeLakallkkl.klkkkdsv 34
                             + G sg GK+++a+eL + l ++      +d++
  PHY93_15965|PHY93_15965  9 VAGGSGSGKTYFARELQRILGDNNcTILYQDNY 41
                             689************999888655233344444 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.62
             RNA_helicase  28 lkkkdsvysrnpeddfwdgYtgqevvvidDfgqvkde 64 
                               kk+ ++ +r++ d+f++  ++++ +v+ D+g+ +++
  PHY93_15965|PHY93_15965 156 VKKQFDLQVRPMHDQFVQPSRNHAQTVVRDLGEYSET 192
                              5666777789999999999999999999999988765 PP

>> ATP_bind_1  Conserved hypothetical ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0   0.00037      0.47       1      24 [.       9      32 ..       9      38 .. 0.87
   2 ?   -1.4   0.0       1.3   1.7e+03     195     219 ..     173     197 ..     115     204 .. 0.65

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00037
               ATP_bind_1  1 vvGpaGsGKttfvgalseilelrg 24
                             v+G+ GsGKt+f ++l+ il +++
  PHY93_15965|PHY93_15965  9 VAGGSGSGKTYFARELQRILGDNN 32
                             89***************9998775 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 1.3
               ATP_bind_1 195 ekykklaeaiaelleefalvlrflp 219
                              +  +++a+++++ l e++++l+f++
  PHY93_15965|PHY93_15965 173 QPSRNHAQTVVRDLGEYSETLNFFV 197
                              4456666777777777777766665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (207 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       546  (0.0304535); expected 358.6 (0.02)
Passed bias filter:                      493  (0.0274974); expected 358.6 (0.02)
Passed Vit filter:                        71  (0.00396006); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.42
# Mc/sec: 1484.65
//
Query:       PHY93_15970|PHY93_15970  [L=232]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.6e-27   93.9   0.1    1.1e-26   93.1   0.1    1.4  1  Response_reg  Response regulator receiver domain
    6.2e-22   77.5   0.0    1.2e-21   76.6   0.0    1.5  1  Trans_reg_C   Transcriptional regulatory protein, C terminal
  ------ inclusion threshold ------
       0.09   12.9   0.0       0.21   11.7   0.0    1.6  1  DUF5494       Family of unknown function (DUF5494)


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   93.1   0.1   1.9e-30   1.1e-26       1     112 []       5     114 ..       5     114 .. 0.98

  Alignments for each domain:
  == domain 1  score: 93.1 bits;  conditional E-value: 1.9e-30
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseeeda 86 
                              +li+dDd+ + +ll+++l++ ++ ev +a++++  +ellk ++++l++lDi++p+ +G+e++k ir+++ ++p+iil+a+++ +d+
  PHY93_15970|PHY93_15970   5 ILIIDDDEELNKLLSDFLTKFDF-EVITANHPTLGIELLKMHEPHLVVLDIMLPNKNGFEVCKVIRQNS-QTPIIILSARGDLSDK 88 
                              8**********************.999****************************************88.**************** PP

                              HHHHHCTESEEEESSG-HHHHHHHHH CS
             Response_reg  87 vealkagaddflsKpfdpeeLlkale 112
                              v +l++gadd++ Kp++p+eL+++++
  PHY93_15970|PHY93_15970  89 VVGLDLGADDYMPKPIEPRELVARIQ 114
                              **********************9985 PP

>> Trans_reg_C  Transcriptional regulatory protein, C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.6   0.0     2e-25   1.2e-21       4      77 .]     154     227 ..     151     227 .. 0.98

  Alignments for each domain:
  == domain 1  score: 76.6 bits;  conditional E-value: 2e-25
                              EE-SHHHHHHHHHHHHTTTSEEEHHHHHHHHTTTTSTSHTHHHHHHHHHHHHHHHTTTTSSSSEEEETTTEEEE CS
              Trans_reg_C   4 veltpkefklLelLlenpgrvvsreeLleevwgededvddrtvdvhisrLRkkLeddekkprlIetvrgvGYrl 77 
                              ++lt+ ef++L ++++npg  +sre+ ++++ g ++d+ drt+dv +srLR kL+dd+k+p++++t++g GYr+
  PHY93_15970|PHY93_15970 154 LDLTTMEFEILCFFMNNPGITLSREQVVDKIRGIEWDSVDRTIDVLVSRLRHKLKDDAKNPKFLKTIWGSGYRF 227
                              79**********************************************************************97 PP

>> DUF5494  Family of unknown function (DUF5494)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   3.6e-05      0.21      47      77 ..     179     209 ..     173     213 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 3.6e-05
                  DUF5494  47 qtwkairlisynsvgisinrltsrlihklhe 77 
                              q    ir i ++sv  +i+ l srl hkl++
  PHY93_15970|PHY93_15970 179 QVVDKIRGIEWDSVDRTIDVLVSRLRHKLKD 209
                              77789***********************985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (232 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       484  (0.0269954); expected 358.6 (0.02)
Passed bias filter:                      452  (0.0252106); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.20s 00:00:00.72 Elapsed: 00:00:00.42
# Mc/sec: 1673.98
//
Query:       PHY93_15975|PHY93_15975  [L=307]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.8e-26   91.8  27.7    1.6e-14   53.2  12.7    2.0  2  Mem_trans        Membrane transport protein
  ------ inclusion threshold ------
       0.12   12.9   3.4        4.4    7.8   0.0    3.1  4  Phage_holin_3_1  Phage holin family (Lysis protein S)


Domain annotation for each model (and alignments):
>> Mem_trans  Membrane transport protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.1   6.9   4.8e-16   4.3e-12       7     142 ..       5     140 ..       1     156 [. 0.82
   2 !   53.2  12.7   1.7e-18   1.6e-14     239     386 ..     158     302 ..     151     303 .. 0.92

  Alignments for each domain:
  == domain 1  score: 45.1 bits;  conditional E-value: 4.8e-16
                Mem_trans   7 vplyvimllgYgsvkwvkiftpdqcsginrfVvlfavPllifhfisqnnpyemllr.filadvlvklivlillllgallskifkgs 91 
                              + +++ ml g + ++  + f+  +++ +n+f++++ +P+l+++++ q  +   l   ++l +++ ++++li+ l+   + k +k s
  PHY93_15975|PHY93_15975   5 LVIFTCMLAGILCKHL-RNFPANSAQTLNSFIIYLSLPALVLSQMPQVLKTLDLHGlWWLPISMAWIAFLISYLFFLFVGKKLKWS 89 
                              5677777777777666.9****************************988766666615555566788888888888888899**** PP

                Mem_trans  92 lewtitlfslstlpNtlvlgipllkalygeygvslmvqvvvlqciiiytll 142
                                +   l++++ l+Nt ++g+p+l+al g  ++ + v+v + + +++++++
  PHY93_15975|PHY93_15975  90 RAKIGALILTAGLGNTSFVGFPILEALIGPHAIPIGVLVDQPGSFLVLSTI 140
                              ******************************888888888887777776654 PP

  == domain 2  score: 53.2 bits;  conditional E-value: 1.7e-18
                Mem_trans 239 vlrklirnPntyssllglilslvsfkwnvimpkiiqksisilgdaglpmalfslGlfLalqpkkiacgnsvatfalavRlilgPlv 324
                              + ++ ++ P+++++++++i++  +        +i++ ++s ++++ +p+alf +G  L  + k+++ +  +  + l+ +lil P++
  PHY93_15975|PHY93_15975 158 IVKRVFLFPPFIALIIAVIWASTGLMGI----EILTPALSKIASTLVPLALFTVGFQLRFDLKILKKRWIALSMGLCFKLILTPAF 239
                              45667899**************998877....9****************************************************9 PP

                Mem_trans 325 mlvavl.avgLrgslllvaivqaAlPqgivlfviAkeynvherelstllifgmlialpitlvy 386
                               +++ l ++g +   ++v +++ A+ ++i + v+A+e+n++++ +  ++ +g+ ++l++++++
  PHY93_15975|PHY93_15975 240 FAFFYLkLLGGNDLATHVTVIESAMASMITSAVVATEFNLDTEMANLMVGIGIPLSLITVPLW 302
                              998865266756669**************************999999999************9 PP

>> Phage_holin_3_1  Phage holin family (Lysis protein S)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   0.0   0.00049       4.4      17      51 ..      61      97 ..      47     127 .. 0.82
   2 ?   -2.5   0.0      0.78     7e+03      77      95 ..     177     195 ..     170     199 .. 0.68
   3 ?   -1.5   0.0      0.39   3.5e+03      24      51 ..     200     227 ..     184     246 .. 0.70
   4 ?    4.3   0.4    0.0062        55      38      75 ..     248     286 ..     214     294 .. 0.71

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.00049
          Phage_holin_3_1 17 aspqiiaavlAlviallrviYdgk..swkkvlleall 51
                             ++  i+ a +A++i++l +++ gk  +w++  + al+
  PHY93_15975|PHY93_15975 61 WWLPISMAWIAFLISYLFFLFVGKklKWSRAKIGALI 97
                             677899*****************99999999888875 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 0.78
          Phage_holin_3_1  77 ggliGflGvekirelakkl 95 
                               +  G++G+e +   + k+
  PHY93_15975|PHY93_15975 177 WASTGLMGIEILTPALSKI 195
                              4566899999877766665 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 0.39
          Phage_holin_3_1  24 avlAlviallrviYdgkswkkvlleall 51 
                              + lAl++  +++ +d k +kk+++   +
  PHY93_15975|PHY93_15975 200 VPLALFTVGFQLRFDLKILKKRWIALSM 227
                              5578888888888888877777765444 PP

  == domain 4  score: 4.3 bits;  conditional E-value: 0.0062
          Phage_holin_3_1  38 dgk...swkkvlleallCgllalavrsllellglpaslavv 75 
                               g+   + + +++e+++ ++++ av+   + ++l++++a++
  PHY93_15975|PHY93_15975 248 LGGndlATHVTVIESAMASMITSAVVA--TEFNLDTEMANL 286
                              33335788889************9998..667777777654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (307 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       703  (0.0392102); expected 358.6 (0.02)
Passed bias filter:                      256  (0.0142785); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.21s 00:00:00.74 Elapsed: 00:00:00.43
# Mc/sec: 2130.55
//
Query:       PHY93_15980|PHY93_15980  [L=448]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    7.2e-67  226.1  34.6    7.2e-67  226.1  34.6    2.0  2  Voltage_CLC  Voltage gated chloride channel


Domain annotation for each model (and alignments):
>> Voltage_CLC  Voltage gated chloride channel
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.2   3.4   0.00059        11     129     180 ..      19      78 ..       3      85 .. 0.52
   2 !  226.1  34.6     4e-71   7.2e-67       1     352 [.      71     415 ..      71     417 .. 0.93

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.00059
                              HHHHHHHHHHHHHHHCTTS-S-.T........---...--GGGHHHHHHHHHHHHHHHHH CS
              Voltage_CLC 129 vfvasvvaalvlrlllgeepafge........veslfalsllelilfvllGilgGllgal 180
                              + +  v+a++v+++llg    f++        ve++++ ++   ++ +++ ++gG+l +l
  PHY93_15980|PHY93_15980  19 SALLGVMATFVAQILLGGISFFSNlfylhkfsVEEFHFTNITLTPWSIAIPVVGGILVGL 78 
                              333446788888888777755433333233335554444444444444444444443332 PP

  == domain 2  score: 226.1 bits;  conditional E-value: 4e-71
                              HHHHHHHHCCCCC-GGGSC-SHHHHHHHCTTSS---HHHHHHHHHHHHHHHHCTT-S-BTHHHHHHHHHHHHHHHHHH..TT.--S CS
              Voltage_CLC   1 lggllagllvklvapeaagsGipevkaalngvkgplslrvllvkflasvltvgsGlslGreGplvqiGAavgsglsrl..lklsrn 84 
                              +gg+l+gl+ ++   + +g+Gipe ++ +   + +++ r++++k +as+l++g+G++ G eGp++ +GA++gs+l+rl  ++  ++
  PHY93_15980|PHY93_15980  71 VGGILVGLIARFGSAGIRGHGIPEAMEKVLYGDSRIPRRITFLKPFASALAIGTGGPFGAEGPIIATGASLGSWLGRLkiFSRASS 156
                              58999*****999***************************************************************7766775444 PP

                              HHHHH.HHHHHHHHHHHHHHT-HHHHHHHHCTTTSTSS--TTHHHHHHHHHHHHHHHHHHCTTS-S-.T---....--GGGHHHHH CS
              Voltage_CLC  85 drdrr.lvaaGaAAGiAAaFnaPlgGvlfalEevsrefslrallpvfvasvvaalvlrlllgeepafgeveslf.alsllelilfv 168
                              + dr  l+aaGaAAG++A+F++Pl++v+ ++E+++ efs ++++pv+va+ +a+ +  +   ++p f  ++ ++ ++ + ++++++
  PHY93_15980|PHY93_15980 157 K-DRKiLLAAGAAAGMTAIFGTPLSAVFISIELLLFEFSASTFVPVVVAVGIAYSIRLAAGFTHPVFM-MDFMPaEFGY-NMFYYF 239
                              4.5555****************************************************9999999998.6666633444.667899 PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHCHHCHHHHHHHHHHHHHHHHHHHCCCSCC.CSSSSCCHHHHHCTT-S-HHHHHH...HHHH CS
              Voltage_CLC 169 llGilgGllgalfvrlllkverlfrkleklkikkrlepalvgllvgllglllpasvlgggyeliasllegstlllsllllllllll 254
                              ++G l G ++++ ++l+ +ve +f+kl   +i++++ pal+g++vg++gl+ p   lg gy+ i+++l+++   l + + l ++++
  PHY93_15980|PHY93_15980 240 FIGALTGGVSCFVSKLVFWVEDQFEKL---PIHWMYWPALGGIVVGVVGLIEPR-SLGVGYDNITTALHAK---LLISSALAIFFW 318
                              *************************99...999777***************999.9**************9...999999****** PP

                              HHHHHHHHHCTT-CSBSHHHHHHHHHHHHHHHHHHHHHH-CTSSC...HHHHHHCCTHHHHHCCS-HHHHHHHHHHCC--GCCHHH CS
              Voltage_CLC 255 kllataltlgsgvpgGifaPsLviGAalGrlvglvlalllpgaassdpgafalvGmaaflagvtrapltaiviviEltgdlelllp 340
                              kl++ a++lgsg +gG++aP+L++G++lG ++g + + l+p+      +++alvGm a++ag+tra lt++v+++E tg    + p
  PHY93_15980|PHY93_15980 319 KLVSWAVALGSGTSGGTLAPLLTFGSSLGLALGIIGQDLFPE-LGIRLEVCALVGMSAMFAGATRAILTSTVFALESTGVGFGIAP 403
                              **************************************9994.445789******************************9999999 PP

                              HHHHHHHHHHHH CS
              Voltage_CLC 341 lmlavliAkava 352
                              l+l+   A++++
  PHY93_15980|PHY93_15980 404 LLLGNSAAYLIS 415
                              999999999886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (448 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       533  (0.0297284); expected 358.6 (0.02)
Passed bias filter:                      205  (0.011434); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.26s 00:00:00.81 Elapsed: 00:00:00.44
# Mc/sec: 3058.89
//
Query:       PHY93_15985|PHY93_15985  [L=215]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.5e-38  130.5   8.9    9.1e-38  130.2   8.9    1.0  1  HlyIII    Haemolysin-III related


Domain annotation for each model (and alignments):
>> HlyIII  Haemolysin-III related
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  130.2   8.9   5.1e-42   9.1e-38       4     224 .]      11     209 ..       9     209 .. 0.91

  Alignments for each domain:
  == domain 1  score: 130.2 bits;  conditional E-value: 5.1e-42
                   HlyIII   4 hnEtlniwtHllgailfivlailllslaevkensklakvvvlvfllgallcllcSalyHtlsihseeklrkffaklDysgIsllia 89 
                              ++++l++ +H +++ ++  l  + + l+++++  +  +++ +++ l+++ +l++SalyH  ++  +   r +++++D+++I++lia
  PHY93_15985|PHY93_15985  11 TKPLLRGHSHQAAFFFA--LGACSILLSNAHG--SRTVFATIIYSLSLIGLLGISALYHRPTWRPQ--QRMWMKRMDHAAIYVLIA 90 
                              678999********999..6666666666666..356***********************999555..899*************** PP

                   HlyIII  90 gsylplilyalakapkagllylslilalgvlgiisklvplfsrpearplravlfillgllgvipllhlllvltqlgeaaelalvll 175
                              g+++p++l+al+  p ag  +l li+ ++++gii +l+++    ++++++ +l++ +g+l v +l +l  +lt ++      ++l+
  PHY93_15985|PHY93_15985  91 GTATPICLLALS--PIAGVKLLQLIWGAALFGIIQSLFWV---TAPKWVSSILYVTVGCLIVPFLPELKAALT-ID-----DVWLI 165
                              ***********4..689***********************...9*********************99666666.55.....59*** PP

                   HlyIII 176 vlggvlylvGavfYalrvPErlkpgkfdivghsHqiFHvfvvlgalfhy 224
                              v ggv+y++Ga++Yalr     +p++ + ++++H+iFH++v+ ga fh+
  PHY93_15985|PHY93_15985 166 VEGGVVYIIGAIIYALR-----RPNPNPKIFGYHEIFHLLVITGAGFHF 209
                              *****************.....9999999****************9996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (215 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       483  (0.0269396); expected 358.6 (0.02)
Passed bias filter:                      218  (0.0121591); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 1513.87
//
Query:       PHY93_15990|PHY93_15990  [L=342]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    6.6e-12   46.1   0.0    1.1e-11   45.3   0.0    1.4  1  Radical_SAM  Radical SAM superfamily
     0.0024   18.0   0.0     0.0053   16.9   0.0    1.6  1  Fer4_14      4Fe-4S single cluster domain
     0.0071   16.6   0.1      0.013   15.8   0.1    1.4  1  Fer4_12      4Fe-4S single cluster domain
  ------ inclusion threshold ------
      0.073   13.1   0.7       0.16   12.0   0.7    1.6  1  LisH         LisH


Domain annotation for each model (and alignments):
>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.3   0.0   2.6e-15   1.1e-11       2     163 ..     105     275 ..     104     277 .. 0.83

  Alignments for each domain:
  == domain 1  score: 45.3 bits;  conditional E-value: 2.6e-15
                              EEESEESS--TTTSCCTTHHHHHHHHHHHHHHHHHHHHHHH.H.......HTT.SEEEEEESSTGGGSTTHHHHHHHHHHTC.... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.x.......xxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxx.... RF
              Radical_SAM   2 vvtrgCnlrCsfCarpetvrregrgrslsveeileevkelk.a.......ekg.vkevilgggepllypdfvellerlakla.... 74 
                              +++ gC+++CsfC +++     g  r+l +eei+ ++  +  +       +++ ++ v +g gepl + d v+ + ++   +    
  PHY93_15990|PHY93_15990 105 STQVGCAMKCSFCFTGT----QGLKRHLKTEEIIGQFIMADrWlrkhrpdDQQlKNIVYMGQGEPLHNFDAVKTASEIFLDQhgts 186
                              5789************6....788888888888877744433344444447788*****************99999888888**** PP

                              CCTEEEEEEECSSCHGHHHHHHHHHTT-SEEEEEEBSSSHH..HHHHHHTCTSHHHHHHHHHHHHHHTTSETEEEEEEEBTTTSHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM  75 vpgiritvetngtlpdeeklerllelgvdrvslgleaadde..kvlklmnrghtfeevlealeklreagikrvvdrivglpGende 158
                                  +itv+t g+l  +  ++   e++   ++l+l+++ +e    l ++n ++ + e+l+ l+++  ++   +++ +++++++nd 
  PHY93_15990|PHY93_15990 187 IGVQKITVSTAGYL--PGLIRWNEEMPGVNIALSLHSPFEEkrNKLIPINQRYPLPEILKYLDLIPLKRKQYIIYEYLLIKNYNDT 270
                              **************..589999999999*************775555666778889999999988888766699************ PP

                              HHHHH CS
                              xxxxx RF
              Radical_SAM 159 eleel 163
                              e++++
  PHY93_15990|PHY93_15990 271 EVDAH 275
                              99876 PP

>> Fer4_14  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0   1.2e-06    0.0053       7      62 ..     109     169 ..     105     218 .. 0.68

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 1.2e-06
                  Fer4_14   7 gCnlsCkgCdnket.wks..elgkp.qteelleqilkdlkkseikiqglvltG.GePLhye 62 
                              gC ++C +C++ ++  k   + +++  +  + ++ l++   ++ + +++v +G GePLh  
  PHY93_15990|PHY93_15990 109 GCAMKCSFCFTGTQgLKRhlKTEEIiGQFIMADRWLRKHRPDDQQLKNIVYMGqGEPLHNF 169
                              9*********55520222123333303334555666688888999999**********653 PP

>> Fer4_12  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.1   2.8e-06     0.013      13      79 ..     108     179 ..      97     229 .. 0.69

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 2.8e-06
                  Fer4_12  13 sgCnlsCkgCfnketwsfksgkeft.....kelleeiiedlkk..esiegltllG.GEPllpenaeallelvkev 79 
                               gC ++C++Cf + t+  k++ +++     + ++++ +++     ++ + ++++G GEPl+  n +a+    + +
  PHY93_15990|PHY93_15990 108 VGCAMKCSFCF-TGTQGLKRHLKTEeiigqFIMADRWLRKHRPddQQLKNIVYMGqGEPLH--NFDAVKTASEIF 179
                              59*********.77887776666641122356666666665532255599***********..776665544444 PP

>> LisH  LisH
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.7   3.6e-05      0.16       5      19 ..     256     270 ..     255     272 .. 0.93

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 3.6e-05
                              HHHHHHHHHCT-HHH CS
                     LisH   5 rLIydYLvkeGyeet 19 
                              ++Iy+YL+ ++y++t
  PHY93_15990|PHY93_15990 256 YIIYEYLLIKNYNDT 270
                              89************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (342 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       481  (0.026828); expected 358.6 (0.02)
Passed bias filter:                      390  (0.0217525); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.50u 0.24s 00:00:00.74 Elapsed: 00:00:00.40
# Mc/sec: 2568.20
//
Query:       PHY93_15995|PHY93_15995  [L=250]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-33  116.2   6.1    2.2e-33  115.7   6.1    1.2  1  Band_7    SPFH domain / Band 7 family
    8.8e-06   25.6   1.5      1e-05   25.4   0.7    1.5  2  Band_7_1  SPFH domain-Band 7 family


Domain annotation for each model (and alignments):
>> Band_7  SPFH domain / Band 7 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  115.7   6.1   2.5e-37   2.2e-33       2     177 ..      20     189 ..      19     190 .. 0.99

  Alignments for each domain:
  == domain 1  score: 115.7 bits;  conditional E-value: 2.5e-37
                   Band_7   2 iieegevgvvvrfGklsrvlepGlhfilPfgrsvtvvsvrvqtldvsvsltvptkDglpvtidvtviyrvpddapklvaaveresa 87 
                              +++e  +gv++  Gk  +v++pGl + +P ++++t+v +r++t++++  ++++tkD+++++i ++++y+v  d++k v a+    +
  PHY93_15995|PHY93_15995  20 VVKEYDRGVIFLLGKCTGVRGPGLIILIPVLEQMTKVTLRTITMNIPS-QKIITKDNVSIDIAAVAYYHV-VDPKKSVIAI----E 99 
                              689999******************************************.*********************.**********....* PP

                   Band_7  88 nldnlirrvlesalrevisemtleellsnreelaeelknelneqlrkyGvevldvritdidpppevaqalaakqaaeaeaqaeiar 173
                              ++ + ++++ + ++r+v++++ l++lls   e+++++k+ + +  + +Gvev  v i+di++p++ ++a+a++++ae+e++a+i  
  PHY93_15995|PHY93_15995 100 QVYDAVNQISQTTVRNVVGQFQLDQLLSQTVEINQQIKTVIDAHTEPWGVEVSAVEIKDITLPENMQRAMAKEAEAERERRAKIVA 185
                              ************************************************************************************99 PP

                   Band_7 174 aeae 177
                              a++e
  PHY93_15995|PHY93_15995 186 AQGE 189
                              9987 PP

>> Band_7_1  SPFH domain-Band 7 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.4   0.7   1.1e-09     1e-05     130     209 ..      98     175 ..      76     177 .. 0.86
   2 ?   -3.5   0.0      0.78     7e+03      16      45 ..     182     211 ..     180     222 .. 0.61

  Alignments for each domain:
  == domain 1  score: 25.4 bits;  conditional E-value: 1.1e-09
                 Band_7_1 130 teeiseqlkslivtrlsdvlaeskipvldlaakseelaeklkealkeelaeyGlelekleienislpeevekaldkrasm 209
                               e++ + + ++ +t++ +v+++ ++   +l +++ e+ +++k +++++ +  G+e++++ei++i+lpe++++a+ k+a++
  PHY93_15995|PHY93_15995  98 IEQVYDAVNQISQTTVRNVVGQFQLD--QLLSQTVEINQQIKTVIDAHTEPWGVEVSAVEIKDITLPENMQRAMAKEAEA 175
                              56777777777888888888877665..678999*****************************************99876 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 0.78
                 Band_7_1  16 kLivregqeavfvneGqiaDvfapGtytLt 45 
                              k++  +g     v+ G+ aD+ ++    L+
  PHY93_15995|PHY93_15995 182 KIVAAQGEFEAAVKLGEAADIISQHPVALQ 211
                              556666666666777777777665555444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (250 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1368  (0.076301); expected 358.6 (0.02)
Passed bias filter:                      666  (0.0371465); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.40
# Mc/sec: 1881.09
//
Query:       PHY93_16000|PHY93_16000  [L=255]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.2e-44  151.1   0.3    4.8e-44  150.5   0.3    1.3  1  DUF3494   Protein of unknown function (DUF3494)


Domain annotation for each model (and alignments):
>> DUF3494  Protein of unknown function (DUF3494)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  150.5   0.3   2.7e-48   4.8e-44       1     209 []      55     254 ..      55     254 .. 0.92

  Alignments for each domain:
  == domain 1  score: 150.5 bits;  conditional E-value: 2.7e-48
                              EEESSEEE-TT-EEESSEEEESSS-.GGEES--B-STTBTTEES--......EE-TT--HH....HHHHHHHHHHHHHHHHHSSS- CS
                  DUF3494   1 ilaksgvtntGstvitGdiGvspas.taitGfadelatgtestsglvl.tGkvyaadaaaatp.atltqAvadletAynalagrsl 83 
                              i a+s++++ ++++i+G+iG+ p+  ++i+ ++          s++v  + ++yaad + +++   l+ A++dle+A +++++r++
  PHY93_16000|PHY93_16000  55 IFASSSISSIPNSTINGKIGLEPGIrSQINLLP----------SEVVGgSSDIYAADDTNPDShLLLEDAHTDLEAAAKEIENRKA 130
                              5799********************888888887..........666755678****999775416789****************88 PP

                              TT-EEE--..SB-TTEEEESEEEEESS-EEE-SS-EEEE-TT-TT--EEEEESS-EEE-TT--EEEETT--GGGEEEEESS-EEE- CS
                  DUF3494  84 pditelga..gelggrtLapGvYkstsavtittgdltLDaqGdanavwiFqiagtLtvasgssvvLinGAqaknvfWqvggsatlg 167
                              ++ +++g+  g lgg+tL++G Yk++s vti ++dl+L  +G + +vwiF ++ ++++a++ +v+L +GA+aknvfW v gs+ l 
  PHY93_16000|PHY93_16000 131 DS-DKIGKfnGFLGGKTLTAGSYKWNSRVTI-NSDLIL--EGAPGDVWIFHVSANFNMANDVRVILSGGARAKNVFWLVDGSLRLA 212
                              77.666555699*******************.77****..********************************************** PP

                              TT-EEEEEEEESS-EEE-TT-EEEEEEEESSSEEEESS-EEE CS
                  DUF3494 168 tgstfeGtilaqtsitlstgatvnGrllaqtgaVtLdnntit 209
                                s+++Gt++ q+  t+++ at+nGr+++++g++ Ldnntit
  PHY93_16000|PHY93_16000 213 DRSEIVGTVIVQKIFTMQSLATLNGRAFSLKGNLVLDNNTIT 254
                              ****************************************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (255 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       590  (0.0329076); expected 358.6 (0.02)
Passed bias filter:                      471  (0.0262703); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 1886.68
//
Query:       PHY93_16005|PHY93_16005  [L=140]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.063   13.2   0.1       0.12   12.3   0.1    1.5  1  DUF577    Family of unknown function (DUF577)


Domain annotation for each model (and alignments):
>> DUF577  Family of unknown function (DUF577)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.1   6.5e-06      0.12      89     164 ..      45     118 ..      35     127 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 6.5e-06
                   DUF577  89 iekvLlppeeldneeWvLAlegavklaiqlveleskadlvkellekivksvkelVerkmeeelvrrglrdlekivk 164
                              +ek+L++p+ ++  e  LA e+  + ai+ + + ++ +++ e+l+kivks ++ + ++  + ++ +  ++l++ v+
  PHY93_16005|PHY93_16005  45 VEKILNEPDYKKMHEIALAVES--SRAINCISVGNECNVLDEILNKIVKSTNDGLPNEADNVVIYKLVKHLNEEVS 118
                              7899999999766666666655..78999***********************999888888888888888877665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (140 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       647  (0.0360868); expected 358.6 (0.02)
Passed bias filter:                      380  (0.0211947); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1035.98
//
Query:       PHY93_21420|PHY93_21420  [L=86]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.014   15.1   0.2       0.02   14.6   0.2    1.2  1  CCDC92    Coiled-coil domain of unknown function
      0.079   13.3   0.2       0.12   12.7   0.2    1.2  1  TSC22     TSC-22/dip/bun family
      0.081   13.4   0.0       0.11   13.0   0.0    1.2  1  ZapB      Cell division protein ZapB
       0.11   12.6   0.0       0.16   12.1   0.0    1.2  1  bZIP_1    bZIP transcription factor


Domain annotation for each model (and alignments):
>> CCDC92  Coiled-coil domain of unknown function
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.2   4.5e-06      0.02      24      40 ..      55      71 ..      54      75 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 4.5e-06
                   CCDC92 24 gLHkEIekLqkenkdLt 40
                             +LH+EI++L+ en  L+
  PHY93_21420|PHY93_21420 55 NLHDEIHQLKSENAMLK 71
                             7************8775 PP

>> TSC22  TSC-22/dip/bun family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.2   2.6e-05      0.12      24      44 ..      54      74 ..      51      78 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 2.6e-05
                    TSC22 24 keLeernseleeENslLkala 44
                             ++L +++++l++EN++Lk+ +
  PHY93_21420|PHY93_21420 54 ANLHDEIHQLKSENAMLKEAV 74
                             689***************875 PP

>> ZapB  Cell division protein ZapB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   2.4e-05      0.11      14      45 ..      47      78 ..      40      82 .. 0.80

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 2.4e-05
                     ZapB 14 qkaidtitlLqmeieeLkeeneelkeenrele 45
                             +  i   + L  ei +Lk en+ lke   el+
  PHY93_21420|PHY93_21420 47 SRWISDSANLHDEIHQLKSENAMLKEAVCELN 78
                             55666778899999999999999999887775 PP

>> bZIP_1  bZIP transcription factor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   3.5e-05      0.16      29      53 ..      54      78 ..      48      82 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 3.5e-05
                             HHHHHHHHHHHHHHHHHHHHHHHHH CS
                   bZIP_1 29 eeLerrvkaLekeNksLkseleelk 53
                             ++L ++  +L++eN++Lk+ + el+
  PHY93_21420|PHY93_21420 54 ANLHDEIHQLKSENAMLKEAVCELN 78
                             689999************9998886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (86 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       618  (0.0344693); expected 358.6 (0.02)
Passed bias filter:                      518  (0.0288917); expected 358.6 (0.02)
Passed Vit filter:                        69  (0.00384851); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 659.17
//
Query:       PHY93_16010|PHY93_16010  [L=377]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
     0.0036   17.9   0.1      0.024   15.2   0.0    2.3  2  Aspzincin_M35  Lysine-specific metallo-endopeptidase
     0.0039   16.6   0.9     0.0062   15.9   0.9    1.3  1  GAS            Growth-arrest specific micro-tubule binding
  ------ inclusion threshold ------
      0.026   14.3   0.0       0.05   13.4   0.0    1.4  1  Peptidase_M48  Peptidase family M48
       0.21   11.8   0.2        9.2    6.6   0.2    2.5  2  TrbC           TrbC/VIRB2 family
        2.2    8.6   4.5         48    4.3   4.5    3.0  1  Tctex-1        Tctex-1 family


Domain annotation for each model (and alignments):
>> Aspzincin_M35  Lysine-specific metallo-endopeptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0   6.7e-06     0.024      56     114 ..     180     243 ..     142     261 .. 0.76
   2 ?   -0.4   0.1      0.42   1.5e+03      95     114 ..     300     319 ..     253     327 .. 0.69

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 6.7e-06
            Aspzincin_M35  56 sCk.....sevlAytvpsslnviylcpaffs.lpeltkkctgtdsqagtivHEltHftevagtdD 114
                               C      ++++A t++++  ++ +cp+f+  l ++++   + +s  + i HE+ H  ++ + + 
  PHY93_16010|PHY93_16010 180 ACGsdgliDNAFATTLKGE-RYVLICPGFLItLNQAASASDRFNSILQAISHEMGHHIDNSKVGN 243
                              44333556899********.*********998999999999999************998876665 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 0.42
            Aspzincin_M35  95 qagtivHEltHftevagtdD 114
                                +t+vH ++ + + a+td 
  PHY93_16010|PHY93_16010 300 IRTTVVHVSSEALSSADTDQ 319
                              45788888888887777775 PP

>> GAS  Growth-arrest specific micro-tubule binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.9   1.7e-06    0.0062      42     164 ..      47     169 ..      43     180 .. 0.93

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 1.7e-06
                      GAS  42 eernekelseisqenkrlkepLkkaeeeveeLrkqlknyekdkqslknlkarlkelekelkdlkwehevleqrfekvekerdelyk 127
                              ++r+e++++  + +n+  +e   +a   ++++rk+++ y+  k  l+ +k r++e  +  k+     e +    e+v k ++ +y+
  PHY93_16010|PHY93_16010  47 AQRKERDVYVSKLKNEIAQEAGINAAPRIDQMRKKIRPYRFIKRFLETTKIRNQEIMSSAKKRISGFEEVVTNPENVNKIKNYMYQ 132
                              689999999999********999*************************************99999999999*************** PP

                      GAS 128 kfeaaiqevqqktglknllLekklkalqeelEkkeaq 164
                                +++ +++  k ++kn++    + + ++ lEk++ +
  PHY93_16010|PHY93_16010 133 AIDTSTFDLTTKEKFKNVIQTIVVGNFSDFLEKSDLE 169
                              *******************999999999999998865 PP

>> Peptidase_M48  Peptidase family M48
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   1.4e-05      0.05      36     148 ..     189     303 ..     160     321 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 1.4e-05
                              -EEEEESSS-EEEEEEHHHH.......-SSB-HHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHTT-SHHHHHTT-- CS
                              xxxxxxxxxxxxxxxxxxxx.......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48  36 NAFalgggknkrivltdgLl.......kqllseeelaaVlGHElGHikhrhsvvslivsllasillllglallisraeedaagafl 114
                              NAFa+    ++++ +  g l       +     + ++  ++HE+GH+  +  v + + +   s l    +  +++++e+++   + 
  PHY93_16010|PHY93_16010 189 NAFATTLKGERYVLICPGFLitlnqaaSASDRFNSILQAISHEMGHHIDNSKVGNELYAPYLSCLAKNYSDRFTKTKEDEKFCKAN 274
                              9****999999******99988876643344446777889**********999996655555555555555566666666666666 PP

                              S---HHHHHHHHHHTTHHHHHHHHHHHHHHHHTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48 115 dalavliglliillflalSRkrEyqADeagvell 148
                              ++ +v        +++alS + E+ AD+ g++++
  PHY93_16010|PHY93_16010 275 AKDPVKCN-----VQVALSHAGELIADQWGIRTT 303
                              66666544.....345899999999999999976 PP

>> TrbC  TrbC/VIRB2 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.6   0.2    0.0026       9.2       7      47 ..       4      43 ..       1      47 [. 0.63
   2 ?    2.5   0.0     0.047   1.7e+02      18      48 ..     203     231 ..     192     235 .. 0.73

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.0026
                     TrbC  7 karrlllalalalvllllaspalAqaaggdpvetvlqnivd 47
                             k++++l+++ la++++++ s a A++ + +  +++lq i +
  PHY93_16010|PHY93_16010  4 KHKNVLAVCTLATLATISFSAAAADSRD-SVCSNPLQRICN 43
                             5555556566665555555555555554.888999999875 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.047
                     TrbC  18 alvllllaspalAqaaggdpvetvlqnivdf 48 
                              ++  +l++ +  A+a+  d+++++lq+i   
  PHY93_16010|PHY93_16010 203 ICPGFLITLNQAASAS--DRFNSILQAISHE 231
                              4445555666666555..9********9875 PP

>> Tctex-1  Tctex-1 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   4.5     0.013        48      48      89 ..     269     326 ..      34     334 .. 0.82

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.013
                              S........SCEEEEEEEEEETTTS.............-EEEEEEEES-TTT-EEEEEEEC CS
                  Tctex-1  48 e......lpryKfivnvtivqkkgq.............gmhsasgaywdektDgmvsfkye 89 
                              +      +++ K  v+v +     +              +h++s a+   +tD+m + ++ 
  PHY93_16010|PHY93_16010 269 KfckanaKDPVKCNVQVALSH---AgeliadqwgirttVVHVSSEALSSADTDQMLTDSWA 326
                              244444466677777777755...144899999999999*****************99985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (377 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       845  (0.0471303); expected 358.6 (0.02)
Passed bias filter:                      519  (0.0289475); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.59u 0.22s 00:00:00.81 Elapsed: 00:00:00.40
# Mc/sec: 2818.14
//
Query:       PHY93_16015|PHY93_16015  [L=199]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-14   55.0   0.7    1.7e-14   54.5   0.7    1.3  1  YkuD      L,D-transpeptidase catalytic domain


Domain annotation for each model (and alignments):
>> YkuD  L,D-transpeptidase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.5   0.7   9.5e-19   1.7e-14       4     139 ..      79     188 ..      76     196 .. 0.75

  Alignments for each domain:
  == domain 1  score: 54.5 bits;  conditional E-value: 9.5e-19
                              EEEETTTTEEEEEEETTEEEEEEE-BEBTTS.TTSE---EEEEECEEEEEEE..EEGGGGT--TTSTT.EEEEEEEECCCTTCECC CS
                     YkuD   4 ivvdlaeqrllvlyengklvlsfpvsvGgkkegdreTPlGtfrikskvrnptwnvppsiarkeiypklrkdpeyldkknskvalgk 89 
                                vd+++qrl +ly +g l++++++s+G   + +  TP +   +++  ++ +          ++yp++     y         lg+
  PHY93_16015|PHY93_16015  79 ADVDKSAQRL-YLYVDGALTYTWKTSTG---RAGYTTPDMDQHPNGPIYDRY--------TSTKYPDGD----Y-------NGLGN 141
                              689****777.99***************...6699**********4444444........222222222....2.......25899 PP

                              CCEEE-STTS-EEEE.ETCSS...CT.HHC.BSSSEEE-HHHHHHHHHHHH CS
                     YkuD  90 vkfvfpngsgiyiHgtgapdlfergk.garrShGCirlseedakelyelvl 139
                              ++++    +g++iHgt   +    gk g+ +ShGCir++ +d  +++++++
  PHY93_16015|PHY93_16015 142 MPYAVFVRGGYAIHGTTRGNW---GKlGQVASHGCIRVH-PDNGQIFNQLV 188
                              **************7755533...2369999*******8.66666666554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (199 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       528  (0.0294495); expected 358.6 (0.02)
Passed bias filter:                      489  (0.0272742); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1470.28
//
Query:       PHY93_16020|PHY93_16020  [L=488]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.3e-11   43.2   1.3    1.1e-09   38.7   0.3    2.3  2  Peptidase_C14  Caspase domain
     0.0048   16.9   1.7      0.014   15.3   0.2    2.5  3  Raptor_N       Raptor N-terminal CASPase like domain
  ------ inclusion threshold ------
      0.014   15.3   0.5        1.2    9.1   0.2    2.6  2  CSN7a_helixI   COP9 signalosome complex subunit 7a helix I do
       0.16   12.4   0.1       0.16   12.4   0.1    2.6  3  APG12          Ubiquitin-like autophagy protein Apg12


Domain annotation for each model (and alignments):
>> Peptidase_C14  Caspase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.7   0.3   2.4e-13   1.1e-09       4     196 ..       6     193 ..       3     235 .. 0.67
   2 ?    3.4   0.0     0.014        61     188     226 ..     299     338 ..     259     360 .. 0.84

  Alignments for each domain:
  == domain 1  score: 38.7 bits;  conditional E-value: 2.4e-13
                              EEEECSTTSSTCC....-STTHHHHHHHHHHHHHHHTTEEEEEEEGGEES.-CHHHHHHHHHHHHCHSGGTTESEEEEEEESEEET CS
            Peptidase_C14   4 liIginnYpgtka....eLrGcanDaermaklLvkrlgFevenililtdd.ptgknirkalkwlvksadhspgDslvvhysGHGtr 84 
                              +iI i++Y ++      + + ++nDa+ ++k++ ++l  e +n++ lt+    ++ i++++++  k+    ++D + ++y+GHG +
  PHY93_16020|PHY93_16020   6 IIIAIEEYSDAVLpqlsNIEFAINDANSIKKAFSEQLYIEDDNMIFLTNAnAHKASIEQEVENIFKRFT--SNDECYFYYAGHGFN 89 
                              57788888733335222444479**********999999999955555444**************9999..99************8 PP

                              .......EEECTTCSSEEEHHHHHHTTSTTTHGGGTTS-EEEEEESESSSBCBEEEEEEES-SSSHCCCHCHHHHHHCSHHCEEEC CS
            Peptidase_C14  85 vpae...civpvdvnsliqdddirdlfggdklpslagkpktiiidaCrgglldkgiekdtsptnkfeedssskekkpekqslsklp 167
                              ++++   +   +d+++l +    ++ +   +l++   k+  i+id+   +l  k   k ++++        + ++ +    ++k p
  PHY93_16020|PHY93_16020  90 TNSQnriTCWDTDNSNLEETSLSLNEILLAPLKKSECKKSFIFIDSSAEELKSKNKMK-AAAS--------NLVETEYSELVRKSP 166
                              6666766666777555555555666666777776666788899998883333222222.2222........223333333333333 PP

                              TTTSEEEEESSSTTBSCEEETTTEE.HHHH CS
            Peptidase_C14 168 seadvlllsgcqddqtSadgsengs.aftq 196
                                 +  ++ +c +++ S+ + ++++ + + 
  PHY93_16020|PHY93_16020 167 ---GHSFFLSCYPGEKSFASAQTKHgIWAM 193
                              ...444777777777777777776663333 PP

  == domain 2  score: 3.4 bits;  conditional E-value: 0.014
                              TTTEEHHHHHHHHHHHHHTT.TSBHHHHHHHHHHHH..CCTT CS
            Peptidase_C14 188 sengsaftqalqkvleekgg.kislkellnkvrkrl..kslk 226
                              ++++s f+ +l++ l++    k ++++l++++rk+l  k  +
  PHY93_16020|PHY93_16020 299 PKDHSSFASKLATELAQDEYlKVEIEKLFDNARKTLrlK--N 338
                              567789999******66666589999**********432..2 PP

>> Raptor_N  Raptor N-terminal CASPase like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.2   3.2e-06     0.014      61     120 ..      59     111 ..      19     121 .. 0.71
   2 ?   -0.9   0.0      0.31   1.4e+03      22      53 ..     121     160 ..     109     187 .. 0.59
   3 ?   -2.3   0.0      0.88   3.9e+03      40      54 ..     257     277 ..     212     296 .. 0.63

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 3.2e-06
                 Raptor_N  61 kqlldptvedvkklcqslrrnakdervlfHYnGhgvprptengeiwvfdksytqyiplsl 120
                              k+++++ ve++ k      r  +++ + f+Y Ghg++ + ++++i + d + +++ ++sl
  PHY93_16020|PHY93_16020  59 KASIEQEVENIFK------RFTSNDECYFYYAGHGFN-TNSQNRITCWDTDNSNLEETSL 111
                              4455555555444......344568999*********.888888******9999988876 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.31
                 Raptor_N  22 vktkpcarleawidpss.e......l.eeiaknlqdqyes 53 
                              +k++ c++ + +id s  e      +  + ++ +++ y +
  PHY93_16020|PHY93_16020 121 LKKSECKKSFIFIDSSAeElksknkMkAAASNLVETEYSE 160
                              6778888888888888843555555433344444555655 PP

  == domain 3  score: -2.3 bits;  conditional E-value: 0.88
                 Raptor_N  40 l....eeiaknlqdqyes..l 54 
                              +    +e +kn++ q+++  l
  PHY93_16020|PHY93_16020 257 FesddDEQNKNVEIQFNQyvL 277
                              133447778888888887432 PP

>> CSN7a_helixI  COP9 signalosome complex subunit 7a helix I domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   0.0     0.013        56      14      35 ..      15      36 ..       5      47 .. 0.76
   2 ?    9.1   0.2   0.00027       1.2      35      50 .]      53      68 ..      50      68 .. 0.90

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.013
             CSN7a_helixI 14 dsCeaiLsciEtqverANaekn 35
                             d+    Ls+iE  ++ AN  k+
  PHY93_16020|PHY93_16020 15 DAVLPQLSNIEFAINDANSIKK 36
                             5555559***********9886 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.00027
             CSN7a_helixI 35 nkaikhkekieqEvaN 50
                              +a+ hk++ieqEv+N
  PHY93_16020|PHY93_16020 53 TNANAHKASIEQEVEN 68
                             57899**********9 PP

>> APG12  Ubiquitin-like autophagy protein Apg12
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   3.6e-05      0.16      12      81 ..      18      84 ..       7      87 .. 0.87
   2 ?   -2.8   0.1         2   8.9e+03      28      46 ..     323     341 ..     320     342 .. 0.79
   3 ?   -1.7   0.1      0.89     4e+03       7      41 ..     444     480 ..     442     484 .. 0.59

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 3.6e-05
                             S---S--EEEEETTSBHHHHHHHHHHHCT-.SSSS-EEEETTTB---TTSBHHHHHHHH-BTTEEEEEEE CS
                    APG12 12 vpilkkkklkvnasdtvakvilflkkeLklqaseslflYvnnsFaPsPdeeveeLyecfgtdkklvlnYc 81
                              p+l +  +++n +++++   + +  +L ++ ++ +fl   n+   s ++eve++++ f+++++   +Y+
  PHY93_16020|PHY93_16020 18 LPQLSNIEFAINDANSIK---KAFSEQLYIEDDNMIFLTNANAHKASIEQEVENIFKRFTSNDECYFYYA 84
                             688888888898887765...567799*************************************999997 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 2
                              HHHHHHHHHHHCT-.SSSS CS
                    APG12  28 vakvilflkkeLklqases 46 
                              ++k+ +  +k+L+l+ s+ 
  PHY93_16020|PHY93_16020 323 IEKLFDNARKTLRLKNSNT 341
                              6788888999999988876 PP

  == domain 3  score: -1.7 bits;  conditional E-value: 0.89
                              EEETTS---S--.EEEEETTS.BHHHHHHHHHHHCT- CS
                    APG12   7 kaigdvpilkkk.klkvnasd.tvakvilflkkeLkl 41 
                              k i++v i k++ k+k ++s+ +va++ ++ +++L +
  PHY93_16020|PHY93_16020 444 KGIAKVEISKNTlKIKFSSSQaSVAEILDYTQQTLGV 480
                              5677777766543455555442577777777777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (488 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       775  (0.0432261); expected 358.6 (0.02)
Passed bias filter:                      400  (0.0223102); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.59u 0.22s 00:00:00.81 Elapsed: 00:00:00.40
# Mc/sec: 3620.35
//
Query:       PHY93_16025|PHY93_16025  [L=188]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.013   15.7   4.3      0.013   15.7   4.3    1.5  2  PMT_2     Dolichyl-phosphate-mannose-protein mannosyltransfer


Domain annotation for each model (and alignments):
>> PMT_2  Dolichyl-phosphate-mannose-protein mannosyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.1      0.27   4.9e+03       6      17 ..       8      19 ..       4      27 .. 0.53
   2 ?   15.7   4.3   7.3e-07     0.013      15     115 ..      85     183 ..      76     188 .] 0.79

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 0.27
                    PMT_2  6 iawllalftklf 17
                             i+wl ++f++ f
  PHY93_16025|PHY93_16025  8 IYWLCTFFVAAF 19
                             344444444333 PP

  == domain 2  score: 15.7 bits;  conditional E-value: 7.3e-07
                    PMT_2  15 klfgf.selairlvsalagvltilllyllarrlfgkraallaalllavvplfvalsalftpdaplvllwalalylllraleknklk 99 
                              kl g   ++a++++++ ++v +i+ll  + r++ + + a +    l ++pl + +    +++   +++  l+ly  l++  ++   
  PHY93_16025|PHY93_16025  85 KL-GVpADQALHILEMFFQVFSIVLLVQISRQFISDEKASVLFYGLLLTPLAFSYNIRANHELGIMFFCFLSLYSGLKLSSSR--- 166
                              44.776899**************************88888888888888999999999**99999999999988888877666... PP

                    PMT_2 100 yw.llagvlfGlgflsK 115
                              yw l+++++  + +++K
  PHY93_16025|PHY93_16025 167 YWsLVSAISCMMLLMIK 183
                              55255555555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (188 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       656  (0.0365888); expected 358.6 (0.02)
Passed bias filter:                      337  (0.0187964); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1402.02
//
Query:       PHY93_21005|PHY93_21005  [L=85]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.2e-11   44.4   0.1    1.4e-11   44.2   0.1    1.1  1  CheW      CheW-like domain
  ------ inclusion threshold ------
       0.15   12.0   1.8       0.22   11.5   1.8    1.3  1  DUF1657   Protein of unknown function (DUF1657)


Domain annotation for each model (and alignments):
>> CheW  CheW-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.2   0.1   1.6e-15   1.4e-11       5      55 ..      34      85 .]      31      85 .] 0.95

  Alignments for each domain:
  == domain 1  score: 44.2 bits;  conditional E-value: 1.6e-15
                             EEETTEEEEEEGGGEEEEEECCT..BTTTTSSTTEEEEEEETTEEEEEEEHH CS
                     CheW  5 frlgeetyaiplakvreilevpp.itpipgapgavlgvinlrGevipvidLr 55
                             f +g  + ai++ ++ e++ +p+ i ++p ap+++lgv+nlrG +ip+i+L+
  PHY93_21005|PHY93_21005 34 FYIGTIEVAINVKAIHEVVNLPEkIIKMPLAPNFLLGVFNLRGLIIPIINLK 85
                             8999*****************888*************************995 PP

>> DUF1657  Protein of unknown function (DUF1657)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   1.8   2.4e-05      0.22      21      39 ..       2      20 ..       1      27 [. 0.86

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 2.4e-05
                  DUF1657 21 qTedeeAKqmYeqaaeqle 39
                             +T++ee K +Y++a+++ +
  PHY93_21005|PHY93_21005  2 STQNEETKTLYNKASKNSN 20
                             8*************99755 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (85 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       792  (0.0441742); expected 358.6 (0.02)
Passed bias filter:                      470  (0.0262145); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 642.36
//
Query:       PHY93_21010|PHY93_21010  [L=156]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.5e-19   70.1   0.0      2e-19   69.7   0.0    1.2  1  CheD          CheD chemotactic sensory transduction
  ------ inclusion threshold ------
       0.13   12.5   0.0       0.27   11.5   0.0    1.5  1  Glutaredoxin  Glutaredoxin


Domain annotation for each model (and alignments):
>> CheD  CheD chemotactic sensory transduction
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.7   0.0   2.3e-23     2e-19       2     108 ..      50     152 ..      49     153 .. 0.91

  Alignments for each domain:
  == domain 1  score: 69.7 bits;  conditional E-value: 2.3e-23
                              BS--....SS-TTSCCCBHHHHHHHHHHHHHTTT--GGG-EEEEEE----S.....---SS-HHHHHHHHHHHHHHHTT--EEEEE CS
                     CheD   2 LPdskeskeksasnpakyadtaielLinellklgakkerleaklaGGAqmfafessksdvlniGerNveavkelLkeegipivaed 87 
                              LP++   +e++    aky++ a++ Li  l+ +  + +++e+ +aGGA+m+++ + +++v +iG +N +a+k++L+ +g++  + d
  PHY93_21010|PHY93_21010  50 LPEA---NESTFLIGAKYVSQAVPSLIALLKVRPENIKEIEVFIAGGANMMSQLA-RQNVDHIGLQNLAAAKKYLELNGFKFREID 131
                              6776...444445679***********************************9866.788999************************ PP

                              E-SSS-EEEEEETTTTEEEEE CS
                     CheD  88 vggnygRtvlfdpatgkvlvk 108
                              vgg++gR++l+d+++g+v v 
  PHY93_21010|PHY93_21010 132 VGGEEGRQMLIDCTSGQVSVS 152
                              ******************986 PP

>> Glutaredoxin  Glutaredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0     3e-05      0.27      14      43 ..     115     143 ..     114     151 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 3e-05
                              HHHHHHHHTTGGEEEEEGCCSHHHHHHHHH CS
             Glutaredoxin  14 kakrlLkelgvkfeeidvdkdeeireelke 43 
                              +ak++L+ +g+kf+eidv  + e r+ l +
  PHY93_21010|PHY93_21010 115 AAKKYLELNGFKFREIDVGGE-EGRQMLID 143
                              8*****************998.55554444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (156 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       422  (0.0235373); expected 358.6 (0.02)
Passed bias filter:                      392  (0.021864); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1160.57
//
Query:       PHY93_21015|PHY93_21015  [L=277]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      7e-46  156.2   0.0    9.3e-46  155.8   0.0    1.1  1  CheR             CheR methyltransferase, SAM binding domain
      1e-12   47.6   0.1      2e-12   46.7   0.1    1.5  1  CheR_N           CheR methyltransferase, all-alpha domain
    1.2e-07   32.4   0.0    2.1e-07   31.6   0.0    1.4  1  Methyltransf_12  Methyltransferase domain
    7.2e-07   29.8   0.0    8.2e-05   23.2   0.0    2.3  1  Methyltransf_25  Methyltransferase domain
    9.7e-07   29.4   0.0    1.5e-05   25.5   0.0    2.2  1  Methyltransf_11  Methyltransferase domain
    1.2e-06   28.5   0.0    1.8e-06   27.9   0.0    1.2  1  Methyltransf_23  Methyltransferase domain
    0.00012   22.0   0.0     0.0024   17.7   0.0    2.2  2  Methyltransf_31  Methyltransferase domain
  ------ inclusion threshold ------
      0.011   15.4   0.0      0.017   14.7   0.0    1.3  1  NodS             Nodulation protein S (NodS)
      0.026   14.9   0.0      0.064   13.6   0.0    1.7  1  ATP19            ATP synthase subunit K
      0.052   12.9   0.0      0.078   12.3   0.0    1.2  1  NAS              Nicotianamine synthase protein
       0.17   11.2   0.0       0.28   10.4   0.0    1.3  1  Methyltransf_2   O-methyltransferase domain


Domain annotation for each model (and alignments):
>> CheR  CheR methyltransferase, SAM binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  155.8   0.0   5.7e-49   9.3e-46       1     186 [.      77     263 ..      77     267 .. 0.93

  Alignments for each domain:
  == domain 1  score: 155.8 bits;  conditional E-value: 5.7e-49
                              SS--TTTTCHHHHHHHHCCH.HHHHHHHTSSSEEEEEES-TTTHHHHHHHHHHHCHSTTTSSS-EEEEEEESSCHHHHHHHHTEEE CS
                     CheR   1 neTeffreakhfeelekevlepllakaknekrvriwsagcssGeEpYslAmllketlpkaaklkvkilAtDidlkvlekAkagvyk 86 
                              neT+ffr +  ++++ ke l pl  + +  k+++iws ++ssGeE Y++ ++ +e+ +k+ +++++i++tDi+++vl+ A+ g y+
  PHY93_21015|PHY93_21015  77 NETSFFRTQRVWDFFTKEFL-PLWIATNPDKTLKIWSGAASSGEEIYTIGICCEEYRQKNPGFNYQIMGTDISSEVLAIAEVGEYS 161
                              89******************.899999999******************************************************** PP

                              CCHHTTS-H...HHHHHHEEEEETTCEEE-HHHHTTEEEEE--TTT-SGGG--EEEEEE-SSGGGC-CHHHHHHHHHHHCCEEEEE CS
                     CheR  87 eeeleglse...elleryfekseddsykvkkeikelvkFeklnllekksvlgklDvifcrnvliYfdeetqekvlerfaeklkpgg 169
                               +++e  ++   +l ++y+ +s+++ ++v+++i++ ++F  +nl++    ++k D+if+rnvliYf++++qekvl+++++ l p+g
  PHY93_21015|PHY93_21015 162 GRSIEAFKAnnrQLFDKYM-ESTEGVFRVRSDIRSKIRFGIHNLFQIPVDPKKYDIIFLRNVLIYFEPKDQEKVLSNISKGLVPDG 246
                              ****888651115667888.77777*********************8888899********************************* PP

                              EEEE-TTB--SSSCCCC CS
                     CheR 170 lLllGhsEslkklkdkf 186
                              +L++G+sEsl++l + f
  PHY93_21015|PHY93_21015 247 VLIIGESESLSSLCTPF 263
                              **********9877666 PP

>> CheR_N  CheR methyltransferase, all-alpha domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.7   0.1   1.2e-15     2e-12       3      52 ..      14      63 ..      12      64 .. 0.96

  Alignments for each domain:
  == domain 1  score: 46.7 bits;  conditional E-value: 1.2e-15
                             HHHHHHHHHHTT-EE--SSTHHHHHTHHHHHHHTTT-SSSHHHHHHTSHS CS
                   CheR_N  3 ferlleliyertGidlsdyKrallkrRlsrRmralglksfeeYldlLrsd 52
                             ++++l+l++  tGi +   K++l++ Rl++R+r+lgl+s+++Y+++L s+
  PHY93_21015|PHY93_21015 14 LQKVLKLVHMYTGITMGIGKKTLIQGRLRPRIRKLGLSSYGQYIEYLNSH 63
                             6899*******************************************998 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.6   0.0   1.3e-10   2.1e-07      20      99 .]     139     248 ..     124     248 .. 0.92

  Alignments for each domain:
  == domain 1  score: 31.6 bits;  conditional E-value: 1.3e-10
          Methyltransf_12  20 dieytgvDispsaiedakeklakrennnnnnvelealdlldldgg..............................ssfDlvvasnv 75 
                              + ++ g+Dis++++  a ++  ++++++ + ++ ++++l+d+  +                              +++D++++ nv
  PHY93_21015|PHY93_21015 139 NYQIMGTDISSEVL--AIAEVGEYSGRSIEAFKANNRQLFDKYMEstegvfrvrsdirskirfgihnlfqipvdpKKYDIIFLRNV 222
                              56788*********..99999**************999998888899*************************************** PP

          Methyltransf_12  76 lhhl..kdirevldnirklLkpgGrl 99 
                              l ++  kd ++vl+ni k L+p+G+l
  PHY93_21015|PHY93_21015 223 LIYFepKDQEKVLSNISKGLVPDGVL 248
                              ************************97 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.2   0.0     5e-08   8.2e-05      46      97 .]     186     246 ..     124     246 .. 0.68

  Alignments for each domain:
  == domain 1  score: 23.2 bits;  conditional E-value: 5e-08
                              T.........TEEEEESBCCGBSSSTTTEEEEEEESTGGGSSHHHHHHHHHHHHHHEEEEE CS
          Methyltransf_25  46 l.........nvefvqgdaedlpfedgsfDlvvssgalhhlsdedlekalkeiarvLkpgG 97 
                              +         +++f  +++ ++p + +++D+++++++l +++++d+ek+l++i++ L p+G
  PHY93_21015|PHY93_21015 186 VfrvrsdirsKIRFGIHNLFQIPVDPKKYDIIFLRNVLIYFEPKDQEKVLSNISKGLVPDG 246
                              2444444456999*********************999*********************999 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.5   0.0   9.3e-09   1.5e-05      19      96 .]     140     250 ..     123     250 .. 0.73

  Alignments for each domain:
  == domain 1  score: 25.5 bits;  conditional E-value: 9.3e-09
                              SEEEEEES-HHHHHHH.............HHHCCHHT-.......................EEEETTEECCCTSS-TT-EEEEEEE CS
          Methyltransf_11  19 arvvgvDlskemlkla.............kekaseegl.......................kvefvvadaeklpfednsfDlvvss 68 
                              ++++g+D+s e+l++a             k++     +                       k++f   ++ ++p+  +++D+++++
  PHY93_21015|PHY93_21015 140 YQIMGTDISSEVLAIAevgeysgrsieafKAN-----NrqlfdkymestegvfrvrsdirsKIRFGIHNLFQIPVDPKKYDIIFLR 220
                              67777777777776665555555544433111.....0222345556666666666677777889999****************** PP

                              S-CCC-..CCHHHHHHHHHHHEEEEEEEEE CS
          Methyltransf_11  69 evlhhv..edpekalkeiaRvLkpgGllvi 96 
                              +vl ++  +d+ek+l++i + L p+G+l+i
  PHY93_21015|PHY93_21015 221 NVLIYFepKDQEKVLSNISKGLVPDGVLII 250
                              ******999******************996 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.9   0.0   1.1e-09   1.8e-06      34     120 ..     125     253 ..     122     269 .. 0.84

  Alignments for each domain:
  == domain 1  score: 27.9 bits;  conditional E-value: 1.1e-09
          Methyltransf_23  34 Gillevlren..gf..svtgvDlspeaveiae.......................................kakkaqkdqfdeqea 76 
                              Gi +e++r++  gf  ++ g D+s+e  +iae                                       k+++ ++  f   ++
  PHY93_21015|PHY93_21015 125 GICCEEYRQKnpGFnyQIMGTDISSEVLAIAEvgeysgrsieafkannrqlfdkymestegvfrvrsdirsKIRFGIHNLF---QI 207
                              899****887455566*************************9888888888777777777777777776666666666666...88 PP

          Methyltransf_23  77 aepqgkfdlIvlrevlehvp..dppellrqiatllkpgGylllsep 120
                              +++ +k+d+I lr+vl  ++  d +++l++i + l p+G+l++ e+
  PHY93_21015|PHY93_21015 208 PVDPKKYDIIFLRNVLIYFEpkDQEKVLSNISKGLVPDGVLIIGES 253
                              88999***************888******************99775 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.0      0.11   1.8e+02      26      45 ..     137     156 ..     125     164 .. 0.83
   2 !   17.7   0.0   1.4e-06    0.0024      55     116 ..     196     257 ..     188     275 .. 0.84

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.11
          Methyltransf_31  26 gpkaevvGiDiseeaielAr 45 
                              g++ +++G Dis e++  A+
  PHY93_21015|PHY93_21015 137 GFNYQIMGTDISSEVLAIAE 156
                              55899**********99886 PP

  == domain 2  score: 17.7 bits;  conditional E-value: 1.4e-06
          Methyltransf_31  55 nveFeqgdieeleklledekfDlilsnevl..naladpdkileeiervlkpggilliedprlla 116
                               ++F + + ++++  + ++k+D+i+ ++vl     +d++k+l +i++ l p+g+l+i +   l+
  PHY93_21015|PHY93_21015 196 KIRFGIHNLFQIP--VDPKKYDIIFLRNVLiyFEPKDQEKVLSNISKGLVPDGVLIIGESESLS 257
                              5788889999999..889************555557999******************9988444 PP

>> NodS  Nodulation protein S (NodS)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.0   1.1e-05     0.017      82     147 ..     188     253 ..     146     262 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1.1e-05
                     NodS  82 rervkesshiswivsdvqqfstd.ekfdlivvaevlyyiedvaelraavrnlvsllapdgqlvfGsa 147
                              r r +  s+i + + ++ q+  d +k+d+i   +vl y e + +    + n+ + l pdg l+ G +
  PHY93_21015|PHY93_21015 188 RVRSDIRSKIRFGIHNLFQIPVDpKKYDIIFLRNVLIYFEPKDQ-EKVLSNISKGLVPDGVLIIGES 253
                              44555567999999999999887478*************99877.5689***************976 PP

>> ATP19  ATP synthase subunit K
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   3.9e-05     0.064       4      25 ..     139     160 ..     137     174 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 3.9e-05
                              X---STTSS--S-SHHHHHHHH CS
                    ATP19   4 aYtIaGravkshyLAlgtLgtt 25 
                               Y+I+G  + s++LA++  g +
  PHY93_21015|PHY93_21015 139 NYQIMGTDISSEVLAIAEVGEY 160
                              6***************987765 PP

>> NAS  Nicotianamine synthase protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   4.8e-05     0.078     162     228 ..     183     250 ..     169     264 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 4.8e-05
                      NAS 162 asklvsadedlssrmsfhtadvldvteelkaydvvflA.AlvGmakeeKakviehlakkmakGavlvl 228
                              ++ +++  +d++s+++f   ++ +   + k+yd++fl   l+  + ++++kv+ ++ k + +  vl++
  PHY93_21015|PHY93_21015 183 TEGVFRVRSDIRSKIRFGIHNLFQIPVDPKKYDIIFLRnVLIYFEPKDQEKVLSNISKGLVPDGVLII 250
                              556788889****************************626899999************8765544443 PP

>> Methyltransf_2  O-methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0   0.00017      0.28     110     167 ..     194     253 ..     179     265 .. 0.85

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00017
                              -TTEEEEES-TTTS--.-.--SEEEEESSGGGS-HHHHHHHHHHHHHH--TT-EEEEEE- CS
           Methyltransf_2 110 eervefvgGdffkdsl.P.eaDaillkrvlhDwsdekcvklLkrvkkalpagGkvivvea 167
                              +++++f   ++f+ ++ P + D+i+l +vl  ++ ++  k+L ++ k l ++G +i+ e+
  PHY93_21015|PHY93_21015 194 RSKIRFGIHNLFQIPVdPkKYDIIFLRNVLIYFEPKDQEKVLSNISKGLVPDGVLIIGES 253
                              567777777888666644778********************************9999776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (277 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       393  (0.0219198); expected 358.6 (0.02)
Passed bias filter:                      357  (0.0199119); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.53u 0.20s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 2043.25
//
Query:       PHY93_21020|PHY93_21020  [L=739]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.5e-59  196.2   0.1    1.1e-12   48.1   0.0    4.6  4  PAS_3          PAS fold
    1.2e-49  166.9   0.5    1.3e-11   44.7   0.0    4.4  4  PAS_9          PAS domain
    4.6e-44  150.3  36.4    6.5e-44  149.8  22.3    3.7  3  MCPsignal      Methyl-accepting chemotaxis protein (MCP) sign
    8.2e-38  129.1   0.0      4e-12   46.4   0.0    4.8  4  PAS_4          PAS fold
    4.1e-33  113.8   0.0      3e-09   36.9   0.0    4.6  4  PAS            PAS fold
    6.3e-14   51.6   0.0      0.027   14.5   0.0    4.5  4  PAS_8          PAS domain
  ------ inclusion threshold ------
      0.027   14.9   0.2        2.3    8.7   0.0    3.4  3  sCache_3_3     Single cache domain 3
      0.072   13.1  13.9       0.14   12.2   1.7    4.1  3  DUF1664        Protein of unknown function (DUF1664)
      0.078   13.0   2.4        2.3    8.3   0.5    3.1  2  DASH_Dad4      DASH complex subunit Dad4
       0.11   12.7   0.2        9.7    6.4   0.0    4.1  5  PAS_7          PAS fold
       0.37   11.2   8.7        0.8   10.1   0.6    4.1  3  Syntaxin_2     Syntaxin-like protein
       0.38   10.9  10.2        0.2   11.9   0.5    3.1  3  Fib_alpha      Fibrinogen alpha/beta chain family
          1    9.7  15.7       0.76   10.1   1.1    4.5  3  DUF948         Bacterial protein of unknown function (DUF948)
        2.1    8.9  14.1       0.48   10.9   3.9    3.7  3  T7SS_ESX_EspC  Excreted virulence factor EspC, type VII ESX d


Domain annotation for each model (and alignments):
>> PAS_3  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.9   0.0   1.9e-15   2.5e-12       2      86 ..      33     116 ..      32     119 .. 0.94
   2 !   47.9   0.0   9.7e-16   1.2e-12       1      88 [.     151     236 ..     151     237 .. 0.98
   3 !   48.1   0.0   8.5e-16   1.1e-12       2      87 ..     273     357 ..     272     359 .. 0.97
   4 !   47.9   0.0   9.5e-16   1.2e-12       2      88 ..     395     480 ..     394     481 .. 0.95

  Alignments for each domain:
  == domain 1  score: 46.9 bits;  conditional E-value: 1.9e-15
                    PAS_3   2 iyvserveeilGyspeellgkveswldlvhpeD.rervrealqealkkgepyegeyRirrkdGeyrwveararvirdengkpvrvi 86 
                              ++v++++ +i+Gys +e++gk  +++ l+  e   +  ++++++ + +ge+  gey++++  G  +w+ a++++i de+gk+v+v+
  PHY93_21020|PHY93_21020  33 TSVNDNFFKIFGYSLDEVRGK--HHRILCTDEFlSDGHFQEFWKKILSGEAQIGEYKMKNLGGREVWLNASYNPICDEHGKVVKVL 116
                              689******************..99999999988899*************888******************************997 PP

  == domain 2  score: 47.9 bits;  conditional E-value: 9.7e-16
                    PAS_3   1 iiyvserveeilGyspeellgkveswldlvhpeDrervrealqealkkgepyegeyRirrkdGeyrwveararvirdengkpvrvi 86 
                              ii+++++++e+  ys+eel+ +   +    hp++ ++v+++l++ + +g  + g ++ ++kdG+ ++v+a + +i  +ngkp +++
  PHY93_21020|PHY93_21020 151 IISINPKFCELSQYSREELICQ--PHNTTRHPDMPKEVFKELWATIGRGNIFRGIVKNKKKDGTPYYVDAVIAPIMGSNGKPKKYL 234
                              5899******************..************************************************************** PP

                    PAS_3  87 gv 88 
                              gv
  PHY93_21020|PHY93_21020 235 GV 236
                              98 PP

  == domain 3  score: 48.1 bits;  conditional E-value: 8.5e-16
                    PAS_3   2 iyvserveeilGyspeellgkveswldlvhpeD.rervrealqealkkgepyegeyRirrkdGeyrwveararvirdengkpvrvi 86 
                              +++++r+ +++Gy +eel gk  ++++lv p    + ++++ ++ l++g+++   +++++k G+ +w++  ++++ de +++v+++
  PHY93_21020|PHY93_21020 273 LTANNRFFDLMGYKKEELVGK--HHRMLVEPSYaNSPAYSHCWTDLSSGKSICDTFKRITKEGKEVWIQGVCTPVMDEMNRVVKIV 356
                              789******************..**********999************************************************98 PP

                    PAS_3  87 g 87 
                              +
  PHY93_21020|PHY93_21020 357 K 357
                              6 PP

  == domain 4  score: 47.9 bits;  conditional E-value: 9.5e-16
                    PAS_3   2 iyvserveeilGyspeellgkveswldlvhpeD.rervrealqealkkgepyegeyRirrkdGeyrwveararvirdengkpvrvi 86 
                              +++++++ ++lG++++e++gk  ++++++      +  ++++++ l +ge  +g y+++ + G+++w++a++++i+d ngkp++v+
  PHY93_21020|PHY93_21020 395 LSANDNFLKTLGHTQDEIKGK--HHRMFCDDSYvASPSYKEFWNNLGRGEFDSGRYKRMGRGGKVVWIQASYNPIFDINGKPYKVV 478
                              689******************..******99999************888855*********************************9 PP

                    PAS_3  87 gv 88 
                              ++
  PHY93_21020|PHY93_21020 479 KF 480
                              87 PP

>> PAS_9  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.4   0.0   4.5e-13   5.8e-10       5     104 .]      23     124 ..      20     124 .. 0.85
   2 !   41.3   0.0   1.2e-13   1.5e-10       5     104 .]     142     242 ..     138     242 .. 0.91
   3 !   44.7   0.0     1e-14   1.3e-11       7     104 .]     266     364 ..     258     364 .. 0.92
   4 !   36.4   0.0   3.7e-12   4.7e-09       3     100 ..     384     482 ..     382     485 .. 0.87

  Alignments for each domain:
  == domain 1  score: 39.4 bits;  conditional E-value: 4.5e-13
                    PAS_9   5 li.dnpdgrilyaNeaalrllGyspeevlgksitdlf...vtdpeanerlraaleqgrkkerevevvlirkngetfwvlltaspvk 86 
                              +i  n dg i+++N+ + +++Gys +ev gk+ + l+     ++ + +++++ + +g+  ++ +e+ + +  g+++w +++  p+ 
  PHY93_21020|PHY93_21020  23 IIeHNLDGLITSVNDNFFKIFGYSLDEVRGKHHRILCtdeFLSDGHFQEFWKKILSGE--AQIGEYKMKNLGGREVWLNASYNPIC 106
                              44577999677*********************88888665345556666666666666..8************************* PP

                    PAS_9  87 dddgelvgiivilrDite 104
                              d++g++v ++ + +D+t+
  PHY93_21020|PHY93_21020 107 DEHGKVVKVLTLATDMTA 124
                              ****************95 PP

  == domain 2  score: 41.3 bits;  conditional E-value: 1.2e-13
                    PAS_9   5 li.dnpdgrilyaNeaalrllGyspeevlgksitdlf..vtdpeanerlraaleqgrkkerevevvlirkngetfwvlltaspvkd 87 
                              +   + +g+i+++N+++++l +ys+ee++ ++  ++   + ++e  ++l+a + +g    +++ v + +k+g++++v++ ++p++ 
  PHY93_21020|PHY93_21020 142 VSeSDLKGNIISINPKFCELSQYSREELICQPHNTTRhpDMPKEVFKELWATIGRGN--IFRGIVKNKKKDGTPYYVDAVIAPIMG 225
                              4456789************************99888888888888888888888888..**************************9 PP

                    PAS_9  88 ddgelvgiivilrDite 104
                              ++g+ + ++++  Dite
  PHY93_21020|PHY93_21020 226 SNGKPKKYLGVRYDITE 242
                              9***************8 PP

  == domain 3  score: 44.7 bits;  conditional E-value: 1e-14
                    PAS_9   7 dnpdgrilyaNeaalrllGyspeevlgksitdlf...vtdpeanerlraaleqgrkkerevevvlirkngetfwvlltaspvkddd 89 
                               +p+g+il aN+ + +l+Gy++ee++gk+ ++l+   + ++ a +  +  l +g+     ++   i+k+g+++w++  ++pv+d+ 
  PHY93_21020|PHY93_21020 266 FDPNGNILTANNRFFDLMGYKKEELVGKHHRMLVepsYANSPAYSHCWTDLSSGK--SICDTFKRITKEGKEVWIQGVCTPVMDEM 349
                              46********************************999999999999999999999..****************************8 PP

                    PAS_9  90 gelvgiivilrDite 104
                              +++v i+   +D+t+
  PHY93_21020|PHY93_21020 350 NRVVKIVKMTTDVTK 364
                              899999999999995 PP

  == domain 4  score: 36.4 bits;  conditional E-value: 3.7e-12
                    PAS_9   3 gilidnpdgrilyaNeaalrllGyspeevlgksitdlf...vtdpeanerlraaleqgrkkerevevvlirkngetfwvlltaspv 85 
                              +i+  n dg++l+aN+ +l+ lG + +e+ gk+ ++++   + ++ + +++++ l +g+  + ++ +  + + g+ +w++++  p+
  PHY93_21020|PHY93_21020 384 AIIEFNLDGTVLSANDNFLKTLGHTQDEIKGKHHRMFCddsYVASPSYKEFWNNLGRGE--FDSGRYKRMGRGGKVVWIQASYNPI 467
                              4554679*******************************888888888888888888888..************************* PP

                    PAS_9  86 kdddgelvgiivilr 100
                              +d +g+   ++ + +
  PHY93_21020|PHY93_21020 468 FDINGKPYKVVKFAT 482
                              *99888777666555 PP

>> MCPsignal  Methyl-accepting chemotaxis protein (MCP) signalling domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   0.0      0.32   4.1e+02      27      60 ..     344     378 ..     322     383 .. 0.70
   2 !    5.7   3.2    0.0093        12      90     152 ..     489     548 ..     476     553 .. 0.76
   3 !  149.8  22.3   5.1e-47   6.5e-44       3     170 ..     553     706 ..     550     708 .. 0.97

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.32
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH.HHH CS
                MCPsignal  27 eieksskeisdiieVideiadQTNlLALNAa.iEA 60 
                               + ++ + + +i++  +++++Q  l A NA+ iEA
  PHY93_21020|PHY93_21020 344 PVMDEMNRVVKIVKMTTDVTKQKMLDAENAGkIEA 378
                              45556677778888888888888888888754666 PP

  == domain 2  score: 5.7 bits;  conditional E-value: 0.0093
                              HHHHHH..............HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal  90 eiealiieiqkeindsvesleetrqrveegselveetgealkeiveavaevadlvqeiaaase 152
                              e+e++++++ ++   s + ++e    v+ g++    t+e+++   ++++e++++++ ia+ s+
  PHY93_21020|PHY93_21020 489 EVEEIVTKLANDFSASSKDISEKSIGVARGAQALGATTEEMN---ASIEELTASINAIAQNSK 548
                              788899999999999999999999999999998888888776...456666666666666555 PP

  == domain 3  score: 149.8 bits;  conditional E-value: 5.1e-47
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal   3 laeeaseeAeeggkevanvvkqmeeieksskeisdiieVideiadQTNlLALNAaiEAARAGeqGrGFaVVAdEVrkLAersaqaa 88 
                              +a+ +++eAe g + +++ +++me i+kss++is+i++Vi eia QTNlLA NAaiEAARAGe+G GF+VVAdEVrkLAers qa+
  PHY93_21020|PHY93_21020 553 VAKATHQEAEIGARAISKSIEAMELISKSSEDISEIVKVISEIAGQTNLLAFNAAIEAARAGEHGLGFSVVADEVRKLAERSSQAT 638
                              5788999******************************************************************************* PP

                              HHHHHHH..............HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal  89 keiealiieiqkeindsvesleetrqrveegselveetgealkeiveavaevadlvqeiaaaseeqsasieevnqaveevak 170
                              kei++li              +e+++rv++gse+ +++g a+++iv+ v++ ++ ++e++ a+eeq ++++e++ a+++va+
  PHY93_21020|PHY93_21020 639 KEISKLI--------------NESVKRVAQGSEISKQAGVAFEKIVTGVNKTTQAISEVSCAAEEQLTAAKEISAAIQQVAE 706
                              *******..............99********************************************************986 PP

>> PAS_4  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.4   0.0   3.1e-15     4e-12       6     107 ..      21     124 ..      17     125 .. 0.90
   2 !   13.4   0.0   5.3e-05     0.067      12     108 ..     146     243 ..     133     245 .. 0.87
   3 !   34.6   0.0   1.4e-11   1.8e-08       5     109 ..     260     366 ..     257     367 .. 0.93
   4 !   28.3   0.0   1.2e-09   1.6e-06       7     107 ..     384     486 ..     380     489 .. 0.93

  Alignments for each domain:
  == domain 1  score: 46.4 bits;  conditional E-value: 3.1e-15
                    PAS_4   6 dalavldpdgrvlyaNaaaaelfgappeellGktlaellpee..daarleralrrvlegeepiefleelllpgeerhyelrllPlr 89 
                              ++++  + dg ++ +N ++ ++fg++ +e++Gk+ + l ++e  + + +++ +++ l+ge+ i +    +l+g+e++++ +++P++
  PHY93_21020|PHY93_21020  21 QIIIEHNLDGLITSVNDNFFKIFGYSLDEVRGKHHRILCTDEflSDGHFQEFWKKILSGEAQIGEYKMKNLGGREVWLNASYNPIC 106
                              55666699****************************7777778888*************877777777777*************** PP

                    PAS_4  90 desGevigvlvisrDiTe 107
                              de+G+v+ vl +++D+T+
  PHY93_21020|PHY93_21020 107 DEHGKVVKVLTLATDMTA 124
                              ****************96 PP

  == domain 2  score: 13.4 bits;  conditional E-value: 5.3e-05
                    PAS_4  12 dpdgrvlyaNaaaaelfgappeellGktla.ellpeedaarleralrrvlegeepiefleelll..pgeerhyelrllPlrdesGe 94 
                              d  g+++ +N+ ++el ++++eel+ ++     +p+  ++ + + ++   +g+  i++ ++ +   +g + +++  + P+  ++G+
  PHY93_21020|PHY93_21020 146 DLKGNIISINPKFCELSQYSREELICQPHNtTRHPDMPKEVFKELWATIGRGN--IFRGIVKNKkkDGTPYYVDAVIAPIMGSNGK 229
                              8889**************************7578888999*********9997..55555555566******************** PP

                    PAS_4  95 vigvlvisrDiTer 108
                              +  +l++ +DiTe 
  PHY93_21020|PHY93_21020 230 PKKYLGVRYDITEA 243
                              ************97 PP

  == domain 3  score: 34.6 bits;  conditional E-value: 1.4e-11
                    PAS_4   5 pdalavldpdgrvlyaNaaaaelfgappeellGktlaellpee..daarleralrrvlegeepiefleelllpgeerhyelrllPl 88 
                              ++a + +dp+g++l aN+++ +l+g+  eel+Gk+ + l+ ++    +++++ ++ + +g+  +++    + +g+e++++  ++P+
  PHY93_21020|PHY93_21020 260 SFAYIEFDPNGNILTANNRFFDLMGYKKEELVGKHHRMLVEPSyaNSPAYSHCWTDLSSGKSICDTFKRITKEGKEVWIQGVCTPV 345
                              5667788******************************77777799999*************99999999999************** PP

                    PAS_4  89 rdesGevigvlvisrDiTerr 109
                               de  +v+ ++ +++D+T ++
  PHY93_21020|PHY93_21020 346 MDEMNRVVKIVKMTTDVTKQK 366
                              ******************875 PP

  == domain 4  score: 28.3 bits;  conditional E-value: 1.2e-09
                    PAS_4   7 alavldpdgrvlyaNaaaaelfgappeellGktlaellpee..daarleralrrvlegeepiefleelllpgeerhyelrllPlrd 90 
                              a++ ++ dg+vl aN ++ + +g++++e+ Gk+ + +  ++  + + + + ++ + +ge    +   + ++g+ ++++ +++P++d
  PHY93_21020|PHY93_21020 384 AIIEFNLDGTVLSANDNFLKTLGHTQDEIKGKHHRMFCDDSyvASPSYKEFWNNLGRGEFDSGRYKRMGRGGKVVWIQASYNPIFD 469
                              78899******************************6666669999**************99999999999**************** PP

                    PAS_4  91 esGevigvlvisrDiTe 107
                               +G++  v+ ++++i+ 
  PHY93_21020|PHY93_21020 470 INGKPYKVVKFATEISL 486
                              *********99999975 PP

>> PAS  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.5   0.0   3.9e-09   4.9e-06      14     110 ..      23     119 ..       9     122 .. 0.86
   2 !   36.9   0.0   2.3e-12     3e-09       3     109 ..     131     236 ..     129     240 .. 0.93
   3 !   27.5   0.0     2e-09   2.5e-06      14     106 ..     263     355 ..     249     362 .. 0.83
   4 !   17.3   0.0   2.8e-06    0.0035      13     103 ..     384     474 ..     376     484 .. 0.88

  Alignments for each domain:
  == domain 1  score: 26.5 bits;  conditional E-value: 3.9e-09
                              EEEEETTSBEEEECHHHHHHHSSTHHHCTTSBGGGGBSTTHHH.HHHHHHHHHHHHTT-ECCCCEEEECTTSSEEEEEEEEEEEEE CS
                      PAS  14 ifvvDedgrilyvNaaaeellGlsreevlgkslldliheedda.elaelleqlleqgeesrageisfklrdgrpihlevraspvrd 98 
                              i+  + dg i+ vN+++ +++G+s +ev gk+  +l   e  +  + +++++ +++ge + ++ +  +l  gr+++l    +p+ d
  PHY93_21020|PHY93_21020  23 IIEHNLDGLITSVNDNFFKIFGYSLDEVRGKHHRILCTDEFLSdGHFQEFWKKILSGEAQIGEYKMKNL-GGREVWLNASYNPICD 107
                              555579******************************98665559999**********************.**************** PP

                              TTEEEEEEEEEE CS
                      PAS  99 aggeilgflgvl 110
                              + g++  +l  +
  PHY93_21020|PHY93_21020 108 EHGKVVKVLTLA 119
                              ***998777655 PP

  == domain 2  score: 36.9 bits;  conditional E-value: 2.3e-12
                              HHHHHHHSSSEEEEEETTSBEEEECHHHHHHHSSTHHHCTTSBGGGGBSTTHHHHHHHHHHHHHHHTT-ECCCCEEEECTTSSEEE CS
                      PAS   3 lraileslpdpifvvDedgrilyvNaaaeellGlsreevlgkslldliheeddaelaelleqlleqgeesrageisfklrdgrpih 88 
                              +r+ + + ++ +   D +g+i+ +N++++el ++sree++ ++ +  +h++ + e+ ++l+  +  g+ +r+  ++ k+ dg+p++
  PHY93_21020|PHY93_21020 131 VRTAIMDVTSIVSESDLKGNIISINPKFCELSQYSREELICQPHNTTRHPDMPKEVFKELWATIGRGNIFRGIVKNKKK-DGTPYY 215
                              567777788899999****************************************************************.****** PP

                              EEEEEEEEEETTEEEEEEEEE CS
                      PAS  89 levraspvrdaggeilgflgv 109
                              ++   +p++   g+++ +lgv
  PHY93_21020|PHY93_21020 216 VDAVIAPIMGSNGKPKKYLGV 236
                              *************99988887 PP

  == domain 3  score: 27.5 bits;  conditional E-value: 2e-09
                              EEEEETTSBEEEECHHHHHHHSSTHHHCTTSBGGGGBSTTHHHHHHHHHHHHHHHTT-ECCCCEEEEC..TTSSEEEEEEEEEEEE CS
                      PAS  14 ifvvDedgrilyvNaaaeellGlsreevlgkslldliheeddaelaelleqlleqgeesrageisfkl..rdgrpihlevraspvr 97 
                               +  D +g+il +N  + +l G++ ee++gk+  +l+ + +      +++ +  + +++++ + +fk+  + g++++++  ++pv+
  PHY93_21020|PHY93_21020 263 YIEFDPNGNILTANNRFFDLMGYKKEELVGKHHRMLVEPSYA--NSPAYSHCWTDLSSGKSICDTFKRitKEGKEVWIQGVCTPVM 346
                              56679********************************87654..777777777777777777778888888*************** PP

                              ETTEEEEEE CS
                      PAS  98 daggeilgf 106
                              d+  ++  +
  PHY93_21020|PHY93_21020 347 DEMNRVVKI 355
                              *98887655 PP

  == domain 4  score: 17.3 bits;  conditional E-value: 2.8e-06
                              EEEEEETTSBEEEECHHHHHHHSSTHHHCTTSBGGGGBSTTHHH...HHHHHHHHHHHHTT-ECCCCEEEECTTSSEEEEEEEEEE CS
                      PAS  13 pifvvDedgrilyvNaaaeellGlsreevlgkslldliheedda...elaelleqlleqgeesrageisfklrdgrpihlevrasp 95 
                              +i+  + dg +l +N+++ + lG +++e+ gk+  ++   +d++     +++++++l  ge  ++  ++  +  g++++++   +p
  PHY93_21020|PHY93_21020 384 AIIEFNLDGTVLSANDNFLKTLGHTQDEIKGKHHRMFC--DDSYvasPSYKEFWNNLGRGEFDSGRYKRMGR-GGKVVWIQASYNP 466
                              5667789**************************99777..45556799*********999999999998888.************* PP

                              EEETTEEE CS
                      PAS  96 vrdaggei 103
                              ++d+ g++
  PHY93_21020|PHY93_21020 467 IFDINGKP 474
                              ***99976 PP

>> PAS_8  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.5   0.0   2.1e-05     0.027      18      50 ..      27      59 ..      12      76 .. 0.74
   2 !   10.3   0.0   0.00044      0.57      18      46 ..     146     172 ..     130     195 .. 0.70
   3 !   11.3   0.0   0.00022      0.28      16      43 ..     265     293 ..     250     309 .. 0.75
   4 !    9.5   0.0   0.00075      0.96      14      44 ..     383     416 ..     376     438 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 2.1e-05
                    PAS_8 18 dlgdrivdvNqaalellGys.adlkgellgqllp 50
                             +l+++i+ vN+ + +++Gys ++++g+   ++l+
  PHY93_21020|PHY93_21020 27 NLDGLITSVNDNFFKIFGYSlDEVRGKHH-RILC 59
                             35578***************888888655.4444 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 0.00044
                    PAS_8  18 d.lgdrivdvNqaalellGysadlkgellg 46 
                              d  g+ i+ +N++++el  ys    +  ++
  PHY93_21020|PHY93_21020 146 DlKGN-IISINPKFCELSQYS--REELICQ 172
                              43445.*************99..5555554 PP

  == domain 3  score: 11.3 bits;  conditional E-value: 0.00022
                    PAS_8  16 vvd.lgdrivdvNqaalellGys.adlkge 43 
                               +d +g+ i+ +N+++ +l Gy+ ++l g+
  PHY93_21020|PHY93_21020 265 EFDpNGN-ILTANNRFFDLMGYKkEELVGK 293
                              3787888.***************7776665 PP

  == domain 4  score: 9.5 bits;  conditional E-value: 0.00075
                    PAS_8  14 iav..vdlgdrivdvNqaalellGys.adlkgel 44 
                              +a+  ++l+++++ +N+ +l+ lG + +++kg+ 
  PHY93_21020|PHY93_21020 383 MAIieFNLDGTVLSANDNFLKTLGHTqDEIKGKH 416
                              45522565566*************9999999865 PP

>> sCache_3_3  Single cache domain 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.7   0.0    0.0018       2.3      71     104 ..      96     129 ..      70     131 .. 0.84
   2 ?   -1.8   0.0       3.2   4.1e+03      72      92 ..     337     357 ..     315     380 .. 0.49
   3 ?    1.6   0.0      0.29   3.7e+02      72      86 ..     459     473 ..     454     487 .. 0.84

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 0.0018
               sCache_3_3  71 kkyltaYePlkdadgkviGmlfvGlpeeevqali 104
                               +  + Y P+ d++gkv+ +l  +++ + ++a +
  PHY93_21020|PHY93_21020  96 VWLNASYNPICDEHGKVVKVLTLATDMTAIMAEL 129
                              577899*******************999988765 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 3.2
               sCache_3_3  72 kyltaYePlkdadgkviGmlf 92 
                              +  ++ +P+ d+ ++v+ ++ 
  PHY93_21020|PHY93_21020 337 WIQGVCTPVMDEMNRVVKIVK 357
                              233333344444444333333 PP

  == domain 3  score: 1.6 bits;  conditional E-value: 0.29
               sCache_3_3  72 kyltaYePlkdadgk 86 
                              +  + Y P++d +gk
  PHY93_21020|PHY93_21020 459 WIQASYNPIFDINGK 473
                              78899******9998 PP

>> DUF1664  Protein of unknown function (DUF1664)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.2   0.3    0.0081        10      63     123 ..     485     546 ..     478     549 .. 0.84
   2 ?    1.2   0.1      0.28   3.5e+02      73     110 ..     633     670 ..     621     677 .. 0.60
   3 ?   12.2   1.7   0.00011      0.14      45     118 ..     657     730 ..     653     735 .. 0.89

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.0081
                  DUF1664  63 hLssridrvdkkl.deqkeiskeikeevtevredlseigedvesvkeaveglesklerieek 123
                               L+ +++++ +kl ++ ++ sk+i+e+   v ++ +++g   e++++ +e+l ++++ i ++
  PHY93_21020|PHY93_21020 485 SLQVEVEEIVTKLaNDFSASSKDISEKSIGVARGAQALGATTEEMNASIEELTASINAIAQN 546
                              57778888888873567888999999999999999999999999999999999999999765 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.28
                  DUF1664  73 kkldeqkeiskeikeevtevredlseigedvesvkeav 110
                              ++ +++keisk i+e v++v ++ +  ++   + +++v
  PHY93_21020|PHY93_21020 633 RSSQATKEISKLINESVKRVAQGSEISKQAGVAFEKIV 670
                              34566777777777777777776655555444444444 PP

  == domain 3  score: 12.2 bits;  conditional E-value: 0.00011
                  DUF1664  45 svskqleqvseslaatkrhLssridrvdkkldeqkeiskeikeevtevredlseigedvesvkeavegleskle 118
                              ++skq     e++ +  ++ ++ i +v +  +eq  ++kei++ +++v e++++  + +es+ +a +gl++  e
  PHY93_21020|PHY93_21020 657 EISKQAGVAFEKIVTGVNKTTQAISEVSCAAEEQLTAAKEISAAIQQVAEETEKSASASESIANATKGLQQGAE 730
                              577787788888888889999********************************************999987655 PP

>> DASH_Dad4  DASH complex subunit Dad4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   0.5    0.0018       2.3      19      50 ..     525     556 ..     523     560 .. 0.91
   2 ?    2.7   0.1       0.1   1.3e+02      11      47 ..     664     700 ..     658     713 .. 0.79

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0018
                DASH_Dad4  19 nvekLnesvvelnkeleeinkkNknvelvsql 50 
                              + e +n s++el  +++ i ++ kn+++v++ 
  PHY93_21020|PHY93_21020 525 TTEEMNASIEELTASINAIAQNSKNTDVVAKA 556
                              5789************************9986 PP

  == domain 2  score: 2.7 bits;  conditional E-value: 0.1
                DASH_Dad4  11 alLsRIiknvekLnesvvelnkeleeinkkNknvelv 47 
                              + ++ I++ v+k ++++ e+  + ee  ++ k+++ +
  PHY93_21020|PHY93_21020 664 VAFEKIVTGVNKTTQAISEVSCAAEEQLTAAKEISAA 700
                              56899**************999999988888887654 PP

>> PAS_7  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0       5.2   6.6e+03      17      35 ..      32      50 ..      27      60 .. 0.79
   2 ?   -1.3   0.0       1.9   2.4e+03      12      33 ..     146     167 ..     141     176 .. 0.84
   3 ?    6.4   0.0    0.0076       9.7      11      46 ..     266     300 ..     262     313 .. 0.89
   4 ?   -2.3   0.0       3.7   4.8e+03      45      75 ..     627     657 ..     616     670 .. 0.72
   5 ?   -1.0   0.1       1.5     2e+03      36      72 ..     661     696 ..     639     728 .. 0.47

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 5.2
                    PAS_7 17 LvawNrrylelldlpeelv 35
                             ++ +N+++ ++++++ + v
  PHY93_21020|PHY93_21020 32 ITSVNDNFFKIFGYSLDEV 50
                             5678********9987766 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 1.9
                    PAS_7  12 DadlrLvawNrrylelldlpee 33 
                              D +++++ +N +++el ++++e
  PHY93_21020|PHY93_21020 146 DLKGNIISINPKFCELSQYSRE 167
                              66789999********999976 PP

  == domain 3  score: 6.4 bits;  conditional E-value: 0.0076
                    PAS_7  11 fDadlrLvawNrrylelldlpeelvqvgvpleellr 46 
                              fD ++++++ N+r+ +l+++ +e + vg++++ l++
  PHY93_21020|PHY93_21020 266 FDPNGNILTANNRFFDLMGYKKEEL-VGKHHRMLVE 300
                              9********************9999.8999888876 PP

  == domain 4  score: -2.3 bits;  conditional E-value: 3.7
                    PAS_7  45 lrynaergefgagdveaeverrlaaaragkp 75 
                              +r +aer + +++++++ +++ ++++++g++
  PHY93_21020|PHY93_21020 627 VRKLAERSSQATKEISKLINESVKRVAQGSE 657
                              5666777777778888888888777776654 PP

  == domain 5  score: -1.0 bits;  conditional E-value: 1.5
                    PAS_7  36 qvgvpleellryn.aergefgagdveaeverrlaaara 72 
                              q+gv +e+++    +++++++  +v+ ++e+ l+aa++
  PHY93_21020|PHY93_21020 661 QAGVAFEKIVTGVnKTTQAIS--EVSCAAEEQLTAAKE 696
                              555555555543312222222..222222222222222 PP

>> Syntaxin_2  Syntaxin-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   1.5      0.16     2e+02      33      65 ..     527     559 ..     490     600 .. 0.61
   2 ?   10.1   0.6   0.00062       0.8      27      82 ..     613     676 ..     575     691 .. 0.68
   3 ?   -1.1   0.2       1.9   2.4e+03      36      62 ..     695     721 ..     674     734 .. 0.60

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.16
               Syntaxin_2  33 eklhelieeinelikktnellkklsqldnsssd 65 
                              e+++ +iee++  i+++ ++ k+ + +++ +++
  PHY93_21020|PHY93_21020 527 EEMNASIEELTASINAIAQNSKNTDVVAKATHQ 559
                              445555555555555555555555555554444 PP

  == domain 2  score: 10.1 bits;  conditional E-value: 0.00062
               Syntaxin_2  27 d..........teelreklhelieeinelikktnellkklsqldnsssdsqqklqkekLkkdfkea 82 
                                          +e+r+ ++ + + ++e++k +ne++k+++q ++ s+  q  ++ ek+++ +++ 
  PHY93_21020|PHY93_21020 613 AgehglgfsvvADEVRKLAERSSQATKEISKLINESVKRVAQGSEISK--QAGVAFEKIVTGVNKT 676
                              144444444446789999999********************9988875..6677777777666555 PP

  == domain 3  score: -1.1 bits;  conditional E-value: 1.9
               Syntaxin_2  36 helieeinelikktnellkklsqldns 62 
                              +e+   i++++++t+++ +  ++++n 
  PHY93_21020|PHY93_21020 695 KEISAAIQQVAEETEKSASASESIANA 721
                              344444445555555444444444444 PP

>> Fib_alpha  Fibrinogen alpha/beta chain family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.5   0.00015       0.2      25     102 ..     521     600 ..     518     608 .. 0.80
   2 ?   -0.9   0.2       1.3   1.7e+03      45      66 ..     632     653 ..     623     683 .. 0.43
   3 ?    3.6   0.9     0.056        72      33      97 ..     673     736 ..     664     738 .. 0.65

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00015
                              CCCCCCCCCCHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH...HHHHHHHHHHHHHCCCHHHHHHHCCHH CS
                Fib_alpha  25 lllkyekdvkkdlekleneleeisnstkeaeelvkeikdslrekqkskkdn...dnvikksskeleeeilrlketidaqes 102
                              +l  + ++++ ++e+l+ +++ i++++k+++ + k++++  +   +  +++    ++i+kss+++  ei+++  +i  q +
  PHY93_21020|PHY93_21020 521 ALGATTEEMNASIEELTASINAIAQNSKNTDVVAKATHQEAEIGARAISKSieaMELISKSSEDIS-EIVKVISEIAGQTN 600
                              56678899*****************************99887666666654334888899999998.88887777776655 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 1.3
                              CCCCCHHHHHHHHHHHHHHHHH CS
                Fib_alpha  45 eeisnstkeaeelvkeikdslr 66 
                              e+ s+ tke+++l++e  + ++
  PHY93_21020|PHY93_21020 632 ERSSQATKEISKLINESVKRVA 653
                              2222333333333322222222 PP

  == domain 3  score: 3.6 bits;  conditional E-value: 0.056
                              CCHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH CS
                Fib_alpha  33 vkkdlekleneleeisnstkeaeelvkeikdslrekqkskkdndnvikksskeleeeilrlketi 97 
                              v+k+ + + +    ++++ + a+e++ +i+++ +e++ks++  ++ i + +k l++  ++lk t+
  PHY93_21020|PHY93_21020 673 VNKTTQAISEVSCAAEEQLTAAKEISAAIQQVAEETEKSAS-ASESIANATKGLQQGAEDLKMTV 736
                              55555555555555666677777888888888888877777.46677777777777777777666 PP

>> DUF948  Bacterial protein of unknown function (DUF948)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.0   0.1      0.84   1.1e+03      44      65 ..     344     364 ..     324     387 .. 0.67
   2 ?   10.1   1.1   0.00059      0.76      22      87 ..     520     585 ..     513     593 .. 0.89
   3 ?    3.3   4.0     0.076        97      24      87 ..     641     704 ..     619     736 .. 0.65

  Alignments for each domain:
  == domain 1  score: -0.0 bits;  conditional E-value: 0.84
                   DUF948  44 pilkevedllakvnelledvne 65 
                              p+++e++++++ v+  + dv++
  PHY93_21020|PHY93_21020 344 PVMDEMNRVVKIVKM-TTDVTK 364
                              455555555544444.333333 PP

  == domain 2  score: 10.1 bits;  conditional E-value: 0.00059
                   DUF948  22 lklkktldeaaatieelekqvdpilkevedllakvnelledvneklekvdplteavadlgesvsel 87 
                                l+ t +e++a+ieel+  +++i ++++++   ++++ ++ +    ++ + +ea++ +++s +++
  PHY93_21020|PHY93_21020 520 QALGATTEEMNASIEELTASINAIAQNSKNTDVVAKATHQEAEIGARAISKSIEAMELISKSSEDI 585
                              57899***********************99999999999999999999999999999999987766 PP

  == domain 3  score: 3.3 bits;  conditional E-value: 0.076
                   DUF948  24 lkktldeaaatieelekqvdpilkevedllakvnelledvneklekvdplteavadlgesvsel 87 
                              ++k+++e  +++++  +  ++     e++++ vn++++ ++e + + ++  +a+++++++++++
  PHY93_21020|PHY93_21020 641 ISKLINESVKRVAQGSEISKQAGVAFEKIVTGVNKTTQAISEVSCAAEEQLTAAKEISAAIQQV 704
                              4444444444444444444444444455555555555555555555555555556665555554 PP

>> T7SS_ESX_EspC  Excreted virulence factor EspC, type VII ESX diderm
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.9   0.5       0.5   6.3e+02      15      47 ..     522     554 ..     489     591 .. 0.61
   2 ?   10.9   3.9   0.00038      0.48       6      83 ..     621     694 ..     619     707 .. 0.65
   3 ?    2.1   3.0      0.21   2.6e+02      10      51 ..     681     722 ..     674     736 .. 0.78

  Alignments for each domain:
  == domain 1  score: 0.9 bits;  conditional E-value: 0.5
            T7SS_ESX_EspC  15 laakhdevaaeiasavaaaagasaavldshGpi 47 
                              l+a+ +e+ a i+ ++a+ +  ++++ ++  + 
  PHY93_21020|PHY93_21020 522 LGATTEEMNASIEELTASINAIAQNSKNTDVVA 554
                              333333344444444444433344444444444 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.00038
            T7SS_ESX_EspC   6 sVdpdhlrelaakhdevaaeiasavaaa...agasaavldshGpicaatndavaaaeaarraagealaaasteLadkLraA 83 
                              sV++d++r+la++  ++ +ei+++ + +   + ++++++++ G+ + +  + v++  +a       + ++s   +++L+aA
  PHY93_21020|PHY93_21020 621 SVVADEVRKLAERSSQATKEISKLINESvkrVAQGSEISKQAGVAFEKIVTGVNKTTQA-------ISEVSCAAEEQLTAA 694
                              79**********************99993233445566666666666665555555444.......444444444444433 PP

  == domain 3  score: 2.1 bits;  conditional E-value: 0.21
            T7SS_ESX_EspC  10 dhlrelaakhdevaaeiasavaaaagasaavldshGpicaat 51 
                              +++  +a+++ ++a+ei++a + +a++++++++   +i  at
  PHY93_21020|PHY93_21020 681 SEVSCAAEEQLTAAKEISAAIQQVAEETEKSASASESIANAT 722
                              67888999***************9888888777665555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (739 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1444  (0.0805399); expected 358.6 (0.02)
Passed bias filter:                      644  (0.0359195); expected 358.6 (0.02)
Passed Vit filter:                        61  (0.00340231); expected 17.9 (0.001)
Passed Fwd filter:                        21  (0.00117129); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.84u 0.26s 00:00:01.10 Elapsed: 00:00:00.44
# Mc/sec: 5054.66
//
Query:       PHY93_04350|PHY93_04350  [L=302]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (302 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       177  (0.00987227); expected 358.6 (0.02)
Passed bias filter:                      118  (0.00658152); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.39
# Mc/sec: 2350.72
//
Query:       PHY93_04355|PHY93_04355  [L=507]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.3e-54  184.2   0.0    1.5e-53  182.7   0.0    1.6  1  Amino_oxidase  Flavin containing amine oxidoreductase
    9.9e-09   35.3   0.0    2.4e-08   34.1   0.0    1.6  1  NAD_binding_8  NAD(P)-binding Rossmann-like domain
    0.00022   20.9   0.0       0.01   15.5   0.0    2.1  2  DAO            FAD dependent oxidoreductase
    0.00063   18.6   0.0     0.0068   15.2   0.0    2.3  2  HI0933_like    HI0933-like protein
    0.00063   19.1   0.0     0.0013   18.0   0.0    1.5  1  Thi4           Thi4 family
     0.0021   18.1   0.0        1.5    8.8   0.0    2.3  2  NAD_binding_9  FAD-NAD(P)-binding
     0.0065   15.7   0.0        1.4    8.1   0.0    2.3  2  Pyr_redox_2    Pyridine nucleotide-disulphide oxidoreductase
  ------ inclusion threshold ------
      0.032   13.3   0.0      0.085   11.9   0.0    1.7  2  FAD_binding_2  FAD binding domain
      0.074   12.4   0.0       0.14   11.5   0.0    1.4  1  FAD_oxidored   FAD dependent oxidoreductase
       0.16   11.0   0.0        1.2    8.1   0.0    2.2  2  GIDA           Glucose inhibited division protein A


Domain annotation for each model (and alignments):
>> Amino_oxidase  Flavin containing amine oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  182.7   0.0   8.3e-57   1.5e-53       1     451 [.      47     497 ..      47     498 .. 0.84

  Alignments for each domain:
  == domain 1  score: 182.7 bits;  conditional E-value: 8.3e-57
                              HHHHHHHHHH.....HHTTEEEEEEESSSSSBTTS-EEEET..TEEEESS--EEETTTHHHHHHHHHTTCCCCEEEESCCGCEEEE CS
            Amino_oxidase   1 laGLaaArqL.....lsaGfdVtvlEardrvGGRirtvrsd..GylielGamwftgagnpllellkelgledslslpdpgapkrvl 79 
                              ++GL+aAr L     + +Gf++++lEa++r+GGRi t +++  + +ie+Ga  +++  +   +l ke+ l      p+ + ++r+ 
  PHY93_04355|PHY93_04355  47 MSGLIAARDLtfpeySKNGFKTILLEASSRIGGRILTMEDSrlNGPIEMGAEYLHR-KPGSVALWKEIELYR----PEMEKVRRM- 126
                              8*************99999*************************************.888888888866663....444433333. PP

                              ETTEECCTTEECHH.HHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHH CS
            Amino_oxidase  80 skggrefpgdlspv.paewealleqgalsaellsleeklrlgleallqktldeldldskslaesleelgrrepgdvevwdrliepe 164
                                       +   + + +we+ l+        + + ++ +l++ + + k++d     + s +e++ + +  ++g  +++d +++  
  PHY93_04355|PHY93_04355 127 ---------IKGYMyYDGWENNLR------RHIMIAKEWKLSDILTFAKKIDAYSGPNISAKEWIDQQNYTNLGR-NLVDLYFT-- 194
                              .........334455899999999......89999999****99999****************************.65555555.. PP

                              HHHHHHHHHHCHTSTTTTCBHHHHTCCCCHHHHHTSCCCEETTHTHHHHHHHHH.....TTTTEEEETSEEEEEEEEETTCEEEEE CS
            Amino_oxidase 165 lfaklefasglfagdpselsaklalpllwelegfggslllprgGlsqlpealae.....elrgldirlntrVkeikregdgvtvtl 245
                                       g+  g ++e s k    ++   ++++ + +   +G+s+  +++ +     + r+ dir+++ Vk ik++ dgv v +
  PHY93_04355|PHY93_04355 195 ---------GHIPGHLDEISVKGFSSDRISEQEMEWNEYGYVNGYSNFLDQIVQgvnqhKGREIDIRYGAFVKYIKYNMDGVEVST 271
                              .........555555577788877777777777777778788************9965555555********************** PP

                              TTSTEEEESEEEE-S-HHHHH..SSEEESCCSHHHHHHHHHSEEEEEEEEEEEESSGGSGCSTSECECECCCEEETTTEEEEECCE CS
            Amino_oxidase 246 edgevveaDaVvvTvplgvlk..ailfsPplpdekaeairnlgfgsvnkvilefdrkfwednalgqgvlvseltttlgeafissdf 329
                               dg+ ++a aV++T+++g lk   i+f+Pplp +k +a++ +g+g  +kv l f+++fw+dna        + ++   e++  +  
  PHY93_04355|PHY93_04355 272 ADGKIYQAGAVILTASVGMLKsgEITFDPPLPSFKLDALHCMGMGDEAKVALKFKKRFWPDNAV-----ILNRIDNHREMARTYFI 352
                              **************************************************************95.....33333333344433345 PP

                              CCCSTTTEEEEEEEEECHHHHHHHTTS-HHHHHHHHHHHHHHHHT...............GTSSTCSEEEEEECCTETTTSSSEEE CS
            Amino_oxidase 330 psrappgkglvllvyvggdaaneleslsdeelvqavlrdLrklfg...............eevpepkatlvtrWhtdplargsysy 400
                              p+ +++ k+ vl+v+++g +a+++  +sd e+++a++rd+ k+f+               +   ++  +l+ +W+ dp+++gs s+
  PHY93_04355|PHY93_04355 353 PFASDEKKNNVLTVLFAGAEADKIKEMSDLEVIKALCRDFDKMFPkeaqeaggstynlleTTGTDEHVYLRWQWSNDPFSKGSDSF 438
                              66666666669**********************************77765555555555555555555****************** PP

                              .BTTH.....HHHHHHHHHCHHCSTTEEE.SGGGC...TTTTTSHHHHHHHHHHHHHHH CS
            Amino_oxidase 401 vsvgp.....ghedydplakpegdprlffAGehts...reypgtvegAilSGlraAari 451
                               ++g       +++++ la+p   p+lf+AGe+t+    + p++++gA  SG raA ++
  PHY93_04355|PHY93_04355 439 LKAGMeksvkVTQARHELASPLMTPGLFWAGEATAvgtYTQPCSTHGAHFSGSRAAIEV 497
                              *****9999988888888888999**********9322346788***********9665 PP

>> NAD_binding_8  NAD(P)-binding Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.1   0.0   1.3e-11   2.4e-08       1      54 [.      42     102 ..      42     112 .. 0.87

  Alignments for each domain:
  == domain 1  score: 34.1 bits;  conditional E-value: 1.3e-11
                              EE--SHHHHHHHHHHH.....CCTEEEEEE-SSSSSSGGG-EECETT..CEECTS---EEE CS
            NAD_binding_8   1 IvGaGlsGlvaAylLa.....kagfdvlllekrdrlGGraasyevpg..vrvdygahifhg 54 
                              ++GaG+sGl aA+ L+     k+gf+  lle+++r+GGr+ + e+     +++ ga ++h 
  PHY93_04355|PHY93_04355  42 VIGAGMSGLIAARDLTfpeysKNGFKTILLEASSRIGGRILTMEDSRlnGPIEMGAEYLHR 102
                              8**************87777688********************995444799999999986 PP

>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   5.6e-06      0.01       1      35 [.      39      79 ..      39     177 .. 0.89
   2 ?    3.5   0.0     0.024        43     161     299 ..     249     399 ..     224     422 .. 0.59

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 5.6e-06
                             EEEEECTSHHHHHHHHHH.....HHTT..EEEEESSSSTTSS CS
                      DAO  1 dvviiGGGiiGlstAyeL.....arrg..Vtllekgdiagsg 35
                             d ++iG+G+ Gl +A++L     ++ g  ++lle+++++g g
  PHY93_04355|PHY93_04355 39 DCIVIGAGMSGLIAARDLtfpeySKNGfkTILLEASSRIG-G 79
                             789***************888777778*********9988.3 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.024
                              -EEEESECEEEEEEEETCEEEEEEECT.EEEEEEEEEEE--GGGHHHHHTTCTT..TSEEEE.............EEEEEEEEEEC CS
                      DAO 161 veilegtevtgleeedgkvwgverttp.gendaadavVnaaGawsdllgllkel..dlpisp.............vrgqvlvlkpl 230
                              ++i++g+ v+ + +++    gve+ t+ g + +a av+++a ++  ++   +e+  d+p+                    l +k++
  PHY93_04355|PHY93_04355 249 IDIRYGAFVKYI-KYN--MDGVEVSTAdGKIYQAGAVILTASVGMLKS---GEItfDPPLPSfkldalhcmgmgdEAKVALKFKKR 328
                              567777666666.333..455553555577644577999997774333...22234444333222222222111222222333332 PP

                              CTHSTGSGCSEEEEE.........EEETTTTEEEEEE.....TTS...EEEE.EESSEEETTCSSTSCSHHHHHHHHHHHHHHSGG CS
                      DAO 231 seklvspaailpvpe.........tdddgrgvyvtpr.....kdg...rvlv.GgtadeesgdddpevdeedidellealrklfPq 298
                                +           +         ++++   +y++p      k +   +vl+ G++a   ++  +   d e i +l++   k+fP+
  PHY93_04355|PHY93_04355 329 FWP-----------DnavilnridNHREMARTYFIPFasdekK-NnvlTVLFaGAEA---DKIKE-MSDLEVIKALCRDFDKMFPK 398
                              221...........13344444459999999999996333322.2233366635544...55556.99999999999999999998 PP

                              G CS
                      DAO 299 l 299
                               
  PHY93_04355|PHY93_04355 399 E 399
                              4 PP

>> HI0933_like  HI0933-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0   3.8e-06    0.0068       2      42 ..      39      84 ..      38     105 .. 0.89
   2 ?    0.3   0.0      0.12   2.2e+02     117     161 ..     242     285 ..     233     295 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 3.8e-06
                             SEEEE--SHHHHHHHHHH.....HHTT--EEEE-SSSSS-HHHHHC CS
              HI0933_like  2 dviviGgGaAGlmaAisa.....akrgkrVlllekakklgrKilis 42
                             d iviG+G +Gl aA  +     +k+g +++lle+ +++g +il+ 
  PHY93_04355|PHY93_04355 39 DCIVIGAGMSGLIAARDLtfpeySKNGFKTILLEASSRIGGRILTM 84
                             89*************9987788899***************999875 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.12
                              HHHHHHT-EEE-S--EEEEECETTE.EEEEE.TTEEEEESEEEE- CS
              HI0933_like 117 kelkeagvklrletevksvekeedgkfrvktkseeeleadklvlA 161
                              ++ k +++++r+   vk ++++ dg ++v+t +++ ++a +++l+
  PHY93_04355|PHY93_04355 242 NQHKGREIDIRYGAFVKYIKYNMDG-VEVSTADGKIYQAGAVILT 285
                              456778999**********999999.9999999*********998 PP

>> Thi4  Thi4 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.0   7.5e-07    0.0013      15      56 ..      35      80 ..      23      83 .. 0.84

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 7.5e-07
                             HTEEEEEEE--SHHHHHHHHHHH.....HCTTS-EEEEESSSS--TT CS
                     Thi4 15 yaesDvvivGaGssGLtaayyla.....kkpdlkvailersvspGGG 56
                             + + D +++GaG sGL aa+ l+     k+ ++k+++le+s  +GG 
  PHY93_04355|PHY93_04355 35 IEKCDCIVIGAGMSGLIAARDLTfpeysKN-GFKTILLEASSRIGGR 80
                             5678****************9954433155.**********999995 PP

>> NAD_binding_9  FAD-NAD(P)-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.8   0.0   0.00086       1.5       2      47 ..      42      87 ..      41      95 .. 0.85
   2 !    7.0   0.0     0.003       5.4      96     153 ..     230     286 ..     200     289 .. 0.82

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.00086
            NAD_binding_9  2 ivGaGprGlavlerLlarakkkspleitlfdpsep.gagrvwrtdqs 47
                             ++GaG++Gl +++ L   + +k+ ++  l + s+  g gr+   ++s
  PHY93_04355|PHY93_04355 42 VIGAGMSGLIAARDLTFPEYSKNGFKTILLEASSRiG-GRILTMEDS 87
                             8***************99999999**99***965537.998777765 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.003
            NAD_binding_9  96 yGrYlrdlfeellarlpegvtvevhraevvdleeradgqavlladgaslaadaVvLAl 153
                              y+ +l+++++ + +   ++++++ + a v  ++ + dg++v +adg+ ++a aV+L+ 
  PHY93_04355|PHY93_04355 230 YSNFLDQIVQGVNQHKGREIDIR-YGAFVKYIKYNMDGVEVSTADGKIYQAGAVILTA 286
                              55666666666666555555555.37789999************************96 PP

>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.1   0.0   0.00076       1.4       2     177 ..      39      77 ..      11     123 .. 0.72
   2 !    5.2   0.0    0.0057        10     192     234 ..     243     285 ..     227     296 .. 0.87

  Alignments for each domain:
  == domain 1  score: 8.1 bits;  conditional E-value: 0.00076
                              SEEEE--SHHHHHHHHHHHH.....HTS-EEEEETTHCHHHCSHHHHCHHHHHHHHHHHHHHHHHCHHHHCCCCHCCTCEEEEESC CS
                              xxxxxxxxxxxxxxxxxxxx.....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2   2 dvvviGgGpAGlaaaltlaq.....agakvtlvelegtclnggcllskallgvaedaeiasevvkklnqgielllgeevvkidpgk 82 
                              d++viG+G+ Gl aa++l       +g+                                                          
  PHY93_04355|PHY93_04355  39 DCIVIGAGMSGLIAARDLTFpeyskNGF---------------------------------------------------------- 66 
                              4455555555555555554444433444.......................................................... PP

                              EEEEETEEECTCEEEEEESEEEE---EEE-BCTCTTC.TTBEECCSECHHHHHHCCSS-TSEEEEES-SHHHHHHHHHHHHHT-EE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2  83 kkvklekkkegdeekiaydklvlAtGssprdlgipGvaenvgklvrtldsaealklkllpkrivvvGgGyiGvElAaalaklgkev 168
                                                                                                                  ++
  PHY93_04355|PHY93_04355  67 ------------------------------------------------------------------------------------KT 68 
                              ....................................................................................44 PP

                              EEEESSSSS CS
                              xxxxxxxxx RF
              Pyr_redox_2 169 tlveardrl 177
                               l+ea +r+
  PHY93_04355|PHY93_04355  69 ILLEASSRI 77 
                              444444444 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.0057
                              HHHHTTEEEEESCEEEEEEETTEEEEEEETTSCEEEESEEEE- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 192 alekeGvevklgtsvkeidgngeklevvledgeeidadlvvva 234
                              +++ + ++++ g+ vk i+ n + +ev + dg+ ++a  v++ 
  PHY93_04355|PHY93_04355 243 QHKGREIDIRYGAFVKYIKYNMDGVEVSTADGKIYQAGAVILT 285
                              567779*******************************999975 PP

>> FAD_binding_2  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   4.7e-05     0.085       1      36 [.      39      79 ..      39      84 .. 0.80
   2 ?   -3.4   0.0       2.2   3.9e+03     393     405 ..     463     475 ..     458     481 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 4.7e-05
                             SEEEE--SHHHHHHHHHH.....HHTTT-EEEEESSSGGGS CS
            FAD_binding_2  1 DviViGsGlAGLaAAlea.....aeaGlkvavvekeqefgg 36
                             D iViG+G++GL AA  +     +++G k++++e  ++ gg
  PHY93_04355|PHY93_04355 39 DCIVIGAGMSGLIAARDLtfpeySKNGFKTILLEASSRIGG 79
                             89*************86522222689999999999988877 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 2.2
                              BTEEE-STCEESS CS
            FAD_binding_2 393 pGLYAaGevaagg 405
                              pGL+ aGe++a+g
  PHY93_04355|PHY93_04355 463 PGLFWAGEATAVG 475
                              9********9766 PP

>> FAD_oxidored  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   7.9e-05      0.14       1      37 [.      39      80 ..      39      86 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 7.9e-05
             FAD_oxidored  1 DvvVvGGgpaGvaAAi.....aAaraGakvlLveergvlGGl 37
                             D +V+G+g++G++AA         ++G k++L+e + ++GG 
  PHY93_04355|PHY93_04355 39 DCIVIGAGMSGLIAARdltfpEYSKNGFKTILLEASSRIGGR 80
                             89*************822222468*****************6 PP

>> GIDA  Glucose inhibited division protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.1   0.0   0.00069       1.2       1      28 [.      39      71 ..      39      93 .. 0.77
   2 ?   -0.1   0.0      0.21   3.8e+02     110     148 ..     248     286 ..     230     298 .. 0.71

  Alignments for each domain:
  == domain 1  score: 8.1 bits;  conditional E-value: 0.00069
                             CEEEE-SSHHHHHHHHHH.....HHTT--EEEE CS
                     GIDA  1 dviViGgGhAGceAAlaa.....arlGakvlLi 28
                             d+iViG+G++G+ AA  +     ++ G+k++L+
  PHY93_04355|PHY93_04355 39 DCIVIGAGMSGLIAARDLtfpeySKNGFKTILL 71
                             79*************754222227888888888 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.21
                              TEEEEES-EEEEEECTTEEEEEEETTS-EEEECEEEE-- CS
                     GIDA 110 nleiieeeveeliveekkvkgvvtedgetikakavviat 148
                              +++i+ +   + i  +     v t+dg++++a av++++
  PHY93_04355|PHY93_04355 248 EIDIRYGAFVKYIKYNMDGVEVSTADGKIYQAGAVILTA 286
                              566666555444454556666999*************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (507 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       515  (0.0287244); expected 358.6 (0.02)
Passed bias filter:                      465  (0.0259356); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.63u 0.28s 00:00:00.91 Elapsed: 00:00:00.44
# Mc/sec: 3498.54
//
Query:       PHY93_21425|PHY93_21425  [L=139]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.039   13.3   0.4      0.039   13.3   0.4    1.6  2  Cthe_2159      Carbohydrate-binding domain-containing protein
       0.11   13.0   0.6       0.23   12.0   0.2    1.7  2  Phage_holin_1  Bacteriophage holin


Domain annotation for each model (and alignments):
>> Cthe_2159  Carbohydrate-binding domain-containing protein Cthe_2159
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.4   4.4e-06     0.039     109     156 ..      15      62 ..       3      68 .. 0.93
   2 ?   -1.3   0.1      0.12   1.1e+03     124     131 ..     100     107 ..      86     134 .. 0.49

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 4.4e-06
                Cthe_2159 109 nGikskddLkitsgtlnvtAvddgikgkdsleikdgtltitaggdgik 156
                              ++i   +++k  +gtl +++    i++  s+ ++d+   +++g+dgik
  PHY93_21425|PHY93_21425  15 STISLREKVKTINGTLAINSLTGFITVPTSVGVNDAAQAVSTGQDGIK 62 
                              67888999***************************************9 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 0.12
                Cthe_2159 124 lnvtAvdd 131
                              ++++A+d 
  PHY93_21425|PHY93_21425 100 VEINAKDK 107
                              22222221 PP

>> Phage_holin_1  Bacteriophage holin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.2   2.5e-05      0.23      36      77 ..      15      55 ..       4      59 .. 0.80
   2 ?   -1.9   0.0      0.57   5.1e+03      14      36 ..      67      89 ..      62     102 .. 0.58

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 2.5e-05
            Phage_holin_1 36 tvaklaeqllqivsavlsllaalGvvvDPttkgisDSeralt 77
                             ++ +l+e++ ++++  l++ ++ G ++ Pt+ g+ D ++a++
  PHY93_21425|PHY93_21425 15 STISLREKV-KTINGTLAINSLTGFITVPTSVGVNDAAQAVS 55
                             444566665.566778999999*****************986 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 0.57
            Phage_holin_1 14 valisavlllilavlglfgldlt 36
                             + +i++++ +++ +++    d t
  PHY93_21425|PHY93_21425 67 TMFIPVLIEAVKELYHKWFDDST 89
                             45566666666655554444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (139 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1017  (0.0567237); expected 358.6 (0.02)
Passed bias filter:                      576  (0.0321267); expected 358.6 (0.02)
Passed Vit filter:                        66  (0.00368119); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1031.30
//
Query:       PHY93_04360|PHY93_04360  [L=730]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.6e-65  218.1   0.1    1.4e-64  216.6   0.1    1.9  1  GSIII_N         Glutamine synthetase type III N terminal
    1.1e-33  115.6   0.5    2.4e-33  114.5   0.1    1.9  2  Gln-synt_C-ter  Glutamine synthetase C-terminal domain
    5.9e-23   81.4   0.8    1.1e-22   80.5   0.1    1.8  2  Gln-synt_C      Glutamine synthetase, catalytic domain
     0.0072   15.0   0.1       0.29    9.7   0.0    2.2  2  Transferase     Transferase family


Domain annotation for each model (and alignments):
>> GSIII_N  Glutamine synthetase type III N terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  216.6   0.1   3.1e-68   1.4e-64       2     160 .]      38     199 ..      37     199 .. 0.97

  Alignments for each domain:
  == domain 1  score: 216.6 bits;  conditional E-value: 3.1e-68
                  GSIII_N   2 selfgskvfnekvmkkrlpkevykklkkaieegekldeevadvvakamkeWalekgathytHwFqPltgltaekhdsflelekdgk 87 
                              s+++g+ +f+ k+  + +++ + k++ kaieeg+ +++e+a++va+a+++Wa+++gath++HwFqPltg taekhd+f++++k+gk
  PHY93_04360|PHY93_04360  38 SDYYGELTFDFKTS-EDISDVIKKDIVKAIEEGKGIKKEHAEAVANAVTTWAVNNGATHFCHWFQPLTGGTAEKHDAFFQFDKHGK 122
                              789******98775.5689999**************************************************************** PP

                  GSIII_N  88 vieefsgkelikgEpDaSSfpsGglratfeArgytawdptspafike....ktlciPtvfvsytGealDkktpllrs 160
                              +ie++s+ +l++gEpDaSSfp+Gg r+tfeArgyt+wd tsp+f++e    +tlciPt+fvsy+G+alD ktpllrs
  PHY93_04360|PHY93_04360 123 AIERLSAGQLMQGEPDASSFPNGGSRSTFEARGYTTWDLTSPMFLIEavngRTLCIPTAFVSYNGDALDIKTPLLRS 199
                              **********************************************999999************************8 PP

>> Gln-synt_C-ter  Glutamine synthetase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  114.5   0.1   5.3e-37   2.4e-33       3     116 ..     530     643 ..     528     645 .. 0.96
   2 ?   -3.7   0.0       2.4   1.1e+04      78      92 ..     687     701 ..     682     706 .. 0.75

  Alignments for each domain:
  == domain 1  score: 114.5 bits;  conditional E-value: 5.3e-37
           Gln-synt_C-ter   3 kevikktikehkriiFnGdgYseeWeeeaekRgLknlkttvealkalleeknielfeklgvlseeElesryeillekYvkkieiEa 88 
                              +++ kk  +++ + +FnGdgYs+eW++ea kRgL+nl+tt+ealk+++e+ +++ + klg++++eE++ ry+ille+Y+k  eiE 
  PHY93_04360|PHY93_04360 530 MSLTKKLTSQSFQAVFNGDGYSKEWVAEALKRGLPNLRTTPEALKTMTEKGTYDFLVKLGIFKSEEIDTRYNILLERYIKIREIEL 615
                              678999999999************************************************************************** PP

           Gln-synt_C-ter  89 ktllelvkkeilPavlkyqkelaeevkk 116
                              +t+++++++ ++P+ l+y++ la+ +k+
  PHY93_04360|PHY93_04360 616 ETMIDMIHQFVIPSGLEYKSVLAKVLKN 643
                              **********************998875 PP

  == domain 2  score: -3.7 bits;  conditional E-value: 2.4
           Gln-synt_C-ter  78 ekYvkkieiEaktll 92 
                              +kY++ki +E  ++ 
  PHY93_04360|PHY93_04360 687 QKYAEKIALELMVVS 701
                              789999999988764 PP

>> Gln-synt_C  Glutamine synthetase, catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   80.5   0.1   2.5e-26   1.1e-22      14     172 ..     216     377 ..     208     398 .. 0.88
   2 ?   -3.4   0.1      0.82   3.7e+03     273     305 ..     651     683 ..     632     706 .. 0.56

  Alignments for each domain:
  == domain 1  score: 80.5 bits;  conditional E-value: 2.5e-26
                              HHHHTTCEEEEEEEEEEEEESEECCCESSEEEEEEE.T......B...B.TSS-TTBHCCCCCTCCHHHHHHHHHHHTT--EECCE CS
               Gln-synt_C  14 rlaeeGltvvvgpElEFflfdkeedkeasksllevdse......ekgrpaekggyfsvapvdeaedlrreivealealgieveash 93 
                              rl+ ++++v+ g+E E+fl+dk  + +  + +++   +      ++ +++ + +yf + p d++  +++e+   l++lgi+ ++ h
  PHY93_04360|PHY93_04360 216 RLETTNVQVTCGAEQEYFLIDKAFYFARPDLVMTG--RtlfgalSTRNQQLEDHYFGLIP-DRVLAFMQELDYELHRLGIPSKTRH 298
                              7889999**************98775533333333..24588888889999999999998.68999******************** PP

                              EECCCTEEEEEE--EECHHHHHHHHHHHHHHHHHHHHTT-EEE-SSSSSTTS---BEEEEEEEEECTTEESSB-TTSGG CS
               Gln-synt_C  94 hEvatgQvEinlkfadalkaaDnvvtfKrvvkevArkhgltatFmpKplegdnGsgmHvhlSlwdkdgknlfadeddey 172
                              +Eva++Q+E+   f++a  aaDn +++ +++k vA+kh++++ ++ Kp++g nGsg Hv+ S++d+ g nl+   ++++
  PHY93_04360|PHY93_04360 299 NEVAPSQFELAPIFSEANVAADNNQMIMTTMKRVAEKHEMMVLLHEKPFAGINGSGKHVNWSMSDNTGFNLLEPGNEPH 377
                              **********************************************************************997766554 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 0.82
                              ----S-SSSS-TTTHTSS-B--SSHHHHHHHHH CS
               Gln-synt_C 273 epvekdlyelspeerkgieelPasleeAleale 305
                               ++e d y+  +++  +i +l ++l++ ++  +
  PHY93_04360|PHY93_04360 651 SQFEMDSYKKVSTKIDEIYALSQNLHKEITGAH 683
                              334444444444444444444444444443333 PP

>> Transferase  Transferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.7   0.0   6.5e-05      0.29     293     348 ..      36      90 ..      14     101 .. 0.82
   2 !    2.8   0.0    0.0085        38      61      90 ..     203     229 ..     194     240 .. 0.86

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 6.5e-05
              Transferase 293 lpeeyfGNallsvvvkstakellseelsrivekvkeavkkaitkeylsseidween 348
                                 +y+G +++++ + +++++++++++++++e+ k  +k+ + + +++ +  w  n
  PHY93_04360|PHY93_04360  36 RVSDYYGELTFDFKTSEDISDVIKKDIVKAIEEGKGIKKE-HAEAVANAVTTWAVN 90 
                              5579***************************997766666.777777666666655 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.0085
              Transferase  61 LsetLtkfypLAGrLktsesgrlelsCnde 90 
                              L  + tkf  L GrL   e+++++++C++e
  PHY93_04360|PHY93_04360 203 LNTVATKFLQLTGRL---ETTNVQVTCGAE 229
                              5567799********...99*******987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (730 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       651  (0.0363099); expected 358.6 (0.02)
Passed bias filter:                      462  (0.0257683); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.65u 0.27s 00:00:00.92 Elapsed: 00:00:00.42
# Mc/sec: 5187.77
//
Query:       PHY93_04365|PHY93_04365  [L=574]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.8e-43  147.5   0.0    5.4e-43  147.0   0.0    1.2  1  Peptidase_M61_N  Peptidase M61 N-terminal domain
      4e-41  140.1   1.3    5.3e-41  139.7   0.3    1.7  2  Peptidase_M61    M61 glycyl aminopeptidase
    1.9e-09   37.7   0.0    5.8e-09   36.2   0.0    1.8  1  PDZ_2            PDZ domain
    1.6e-07   31.0   0.0    3.6e-07   29.9   0.0    1.6  1  PDZ_6            PDZ domain
    1.7e-05   25.1   0.0    4.7e-05   23.7   0.0    1.7  1  PDZ              PDZ domain
  ------ inclusion threshold ------
       0.13   11.9   0.0       0.34   10.6   0.0    1.6  2  DUF3394          Domain of unknown function (DUF3394)


Domain annotation for each model (and alignments):
>> Peptidase_M61_N  Peptidase M61 N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  147.0   0.0   1.8e-46   5.4e-43       2     166 ..       5     179 ..       4     180 .. 0.95

  Alignments for each domain:
  == domain 1  score: 147.0 bits;  conditional E-value: 1.8e-46
          Peptidase_M61_N   2 ytvdltdpqrhlveveltipa.kkge.ltlslPkwiPGsYlirdfaknieglkafdakgkelaveridkntwrv.......enpkk 78 
                              y++ ++ p++h+v+v ++ ++ ++++ l+++lP+w+PGsYl+r+++++++gl a++++g++l ve+id + +++       +++++
  PHY93_04365|PHY93_04365   5 YKLIIETPSTHQVRVIIEGKKeSHEKtLDFFLPRWSPGSYLMREYSRHVSGLIASTKNGERLDVEQIDTSVFKIdwnkanlKKEDD 90 
                              99999***************9766667***********************************************99888766677* PP

          Peptidase_M61_N  79 eveveyrvyafdlsvrtsylddehaflngaslflyvegleekpievtlslpkg.wkvataLpaaeedagtgtfeaedydeLvDsPv 163
                              +++++y+vy+++l+vrts++dd+hafl+ ++l++ + +++ ++ +++l +p   +++at+L++ + ++++  ++a++ydeL+DsP+
  PHY93_04365|PHY93_04365  91 SFTLSYWVYCHELTVRTSHVDDSHAFLHLPTLLMGIVNRYIEDPSIELVFPPSwSHLATGLKDISVKREVFIYTAANYDELIDSPI 176
                              ***********************************************8888885689***************************** PP

          Peptidase_M61_N 164 laG 166
                              ++G
  PHY93_04365|PHY93_04365 177 EIG 179
                              **9 PP

>> Peptidase_M61  M61 glycyl aminopeptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0       2.8   8.4e+03      62     108 ..      47      93 ..      42      99 .. 0.66
   2 !  139.7   0.3   1.8e-44   5.3e-41       3     118 .]     270     385 ..     268     385 .. 0.98

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 2.8
                              HHHHHHHHHHHHHHHHSGGGGT--HHHHHHT.IIIIITT--TTHHHH- CS
            Peptidase_M61  62 eeyleelaktlarlentpgrkvqslaessfd.awiklyrsdensansk 108
                              +ey ++++  +a+ +n +  +v+++ +s f+  w k + + ++ +  +
  PHY93_04365|PHY93_04365  47 REYSRHVSGLIASTKNGERLDVEQIDTSVFKiDWNKANLK-KEDDSFT 93 
                              5677778888888888888888888888887767765554.3344444 PP

  == domain 2  score: 139.7 bits;  conditional E-value: 1.8e-44
                              HHHHHHHHHHTTBTTTB-BGGGSS---SS----STHHHHTHHHHHHHHHHHHHTTSS-HHHHHHHHHHHHHHHHHSGGGGT--HHH CS
            Peptidase_M61   3 lgllaHEyfHsWnvkrirPaelepfdyekenytellwvaEGlTsYygdlllarsgliseeeyleelaktlarlentpgrkvqslae 88 
                              l l++HEyfH+WnvkrirPael pf+y ke +t+llw+aEGlTs +++l+++r gli+ eeyl+  +++l+r+ + pg+k +sl +
  PHY93_04365|PHY93_04365 270 LALVSHEYFHAWNVKRIRPAELGPFHYLKEAHTKLLWLAEGLTSLMDELFIYRMGLITLEEYLDLQKENLNRYYSIPGKKFHSLDD 355
                              789*********************************************************************************** PP

                              HHHTIIIIITT--TTHHHH---TTHHHHHH CS
            Peptidase_M61  89 ssfdawiklyrsdensanskvsyYskGalv 118
                              ss++awiklyr+den++ns++syY kG +v
  PHY93_04365|PHY93_04365 356 SSYNAWIKLYRPDENTNNSSISYYLKGGIV 385
                              ***************************886 PP

>> PDZ_2  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.2   0.0   1.9e-12   5.8e-09       7      81 ..     477     548 ..     471     549 .. 0.87

  Alignments for each domain:
  == domain 1  score: 36.2 bits;  conditional E-value: 1.9e-12
                              ------..-EEEEEE-TTSGGGGT.--TT-EEEEETTB--SSHHHHHHHHHTS-TT-EEEEEEEETTEEEEEEEE CS
                    PDZ_2   7 vsdeedtggvlvvsVkeggPaakaglkagDvilkvdgkkvksledlislllkkkpGdtVkltvlRdgkkktvevk 81 
                                 + +   v+v sV+ +gPa kagl agD+i++++g +v   + +++   + +++++ ++tv+R +  k+++++
  PHY93_04365|PHY93_04365 477 PDFKGE--SVYVRSVTLDGPAFKAGLNAGDEIIAINGMRV-LKDRFNEHAKFLRINENYNFTVSRLSVLKNISLS 548
                              444444..99******************************.8888888889**************9999998876 PP

>> PDZ_6  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.9   0.0   1.2e-10   3.6e-07       2      45 ..     486     529 ..     485     537 .. 0.87

  Alignments for each domain:
  == domain 1  score: 29.9 bits;  conditional E-value: 1.2e-10
                    PDZ_6   2 VtaVdpgsPAdrAGlrvGDiilsvNGqpveglsladvaallrgs 45 
                              V++V  ++PA +AGl +GD i+++NG  v     ++ a  lr +
  PHY93_04365|PHY93_04365 486 VRSVTLDGPAFKAGLNAGDEIIAINGMRVLKDRFNEHAKFLRIN 529
                              899**************************999888888888854 PP

>> PDZ  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.7   0.0   1.6e-08   4.7e-05      26      58 ..     482     514 ..     465     527 .. 0.86

  Alignments for each domain:
  == domain 1  score: 23.7 bits;  conditional E-value: 1.6e-08
                              SSEEEEEECTTSHHHHHTSSTTEEEEEETTEET CS
                      PDZ  26 kgifvsevlpggaaeadglkvGDkIlsvNgvdv 58 
                              ++++v +v  +g+a ++gl++GD+I+++Ng  v
  PHY93_04365|PHY93_04365 482 ESVYVRSVTLDGPAFKAGLNAGDEIIAINGMRV 514
                              689********9999999************655 PP

>> DUF3394  Domain of unknown function (DUF3394)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0       1.5   4.5e+03      70      92 ..      10      31 ..       5      85 .. 0.58
   2 ?   10.6   0.0   0.00012      0.34      53     149 ..     413     510 ..     407     526 .. 0.75

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 1.5
                  DUF3394 70 elpkgselrlkvegenlegeeie 92
                             e+p+ +++r+ +eg++ e +e +
  PHY93_04365|PHY93_04365 10 ETPSTHQVRVIIEGKK-ESHEKT 31
                             6677788888888877.333333 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 0.00012
                  DUF3394  53 sppyeelepselvevveelpkgselrlkvegenlegeeie.ktvalplge.eatgeerLeaaGltlleedgkvlvdevefgspaek 136
                              ++p++ +++ ++++++ee+  gse+r k+e ++ ++e+i+  t+  + g   +  ++ +  +Gl+   ++++v v +v++++pa k
  PHY93_04365|PHY93_04365 413 KNPERGVTADQVYKMIEEI-GGSEVRNKFELMTSTTEDIDlETICSKAGLrFDWDKTEVPWLGLEPDFKGESVYVRSVTLDGPAFK 497
                              5677778888888888888.7888999998888888888854444444443333455688899999999***************** PP

                  DUF3394 137 agldfdfeiveve 149
                              agl+ ++ei++++
  PHY93_04365|PHY93_04365 498 AGLNAGDEIIAIN 510
                              *******888764 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (574 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       445  (0.0248201); expected 358.6 (0.02)
Passed bias filter:                      381  (0.0212505); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.63u 0.25s 00:00:00.88 Elapsed: 00:00:00.44
# Mc/sec: 3877.94
//
Query:       PHY93_04370|PHY93_04370  [L=140]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    0.00073   19.7   0.1      0.001   19.2   0.1    1.2  1  Fe-S_biosyn  Iron-sulphur cluster biosynthesis


Domain annotation for each model (and alignments):
>> Fe-S_biosyn  Iron-sulphur cluster biosynthesis
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.2   0.1   5.8e-08     0.001       3      90 ..      18     102 ..      17     115 .. 0.89

  Alignments for each domain:
  == domain 1  score: 19.2 bits;  conditional E-value: 5.8e-08
                              EEE-HHHHHHHHHHHHCTTEC....EEEEEECCTSCCGGS.TT.EEEEEEEEESSTSTTTEEEEE..ETTEEEEEEGGGHHHS.TT CS
              Fe-S_biosyn   3 itlteaAaeklkkllaedkke....lrLdvddgggpyskggCsiggkyslvlvdeedeeydevle..snggkvyvksyslvfldeg 82 
                              i +t++A  +lk  +++d       +r+ v  +g       C  g+ y   ++d +d+++++ +   ++ + v+v++ ++ +l ++
  PHY93_04370|PHY93_04370  18 IMFTDRALSQLKLIIENDFTLagkyFRIVVSGKG-------CE-GFTYAAGFTDLNDDDFQVRIAnsDEEIYVLVDPFAAFYL-QE 94 
                              789*************987657888999999999.......**.**********999*******95556777889********.89 PP

                              EEEEEEEE CS
              Fe-S_biosyn  83 lvldfved 90 
                               ++dfv+d
  PHY93_04370|PHY93_04370  95 ASVDFVQD 102
                              *****976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (140 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       337  (0.0187964); expected 358.6 (0.02)
Passed bias filter:                      323  (0.0180155); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1069.11
//
Query:       PHY93_04375|PHY93_04375  [L=265]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.1e-18   65.9   0.0    6.7e-18   64.8   0.0    1.6  1  LysR_substrate  LysR substrate binding domain
    1.3e-16   60.3   0.1    2.3e-16   59.5   0.1    1.4  1  HTH_1           Bacterial regulatory helix-turn-helix protein
  ------ inclusion threshold ------
      0.024   14.5   0.0      0.053   13.4   0.0    1.5  1  HTH_5           Bacterial regulatory protein, arsR family
      0.026   15.1   1.4      0.058   14.0   1.1    1.8  1  Mga             Mga helix-turn-helix domain
      0.031   13.8   0.0      0.068   12.7   0.0    1.6  1  HTH_24          Winged helix-turn-helix DNA-binding
      0.032   13.9   0.1      0.071   12.7   0.1    1.5  1  HTH_50          Helix-turn-helix domain
      0.079   12.9   0.1       0.16   11.9   0.1    1.5  1  HTH_11          HTH domain
      0.084   13.3   0.0        2.1    8.8   0.0    2.3  2  MULE            MULE transposase domain
       0.12   12.3   0.0       0.28   11.1   0.0    1.5  1  MarR_2          MarR family
       0.13   12.3   0.0       0.23   11.6   0.0    1.4  1  HTH_20          Helix-turn-helix domain


Domain annotation for each model (and alignments):
>> LysR_substrate  LysR substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.8   0.0   3.7e-21   6.7e-18       5     204 ..      85     264 ..      81     265 .] 0.90

  Alignments for each domain:
  == domain 1  score: 64.8 bits;  conditional E-value: 3.7e-21
                              CEEEEEEEECCCHHHHHHHHHHHHHHHSTTEEEEEEEESHHHHHHHHHTTSSSEEEEESSSCCTTEEEEEEEEEEEEEEEETTSGG CS
           LysR_substrate   5 rgrLrigapptlaryllppllarfraryPevelelvegdseelldllaegelDlairagppedsglearpLaeeplvlvaspdhpL 90 
                              +  L+ig+ + l  ++++pll +++++  + +++++++d +el ++++eg++D+ + +++++++ +++ +L+ee+lvl+   +   
  PHY93_04375|PHY93_04375  85 QLPLSIGILEGLLKTWFTPLLTDYLKQQTR-DVSVHVADIPELKNGIEEGRYDVIFGTDNIQSELVTSLKLFEEKLVLIGFGE--- 166
                              5579********************998876.8888888888**************************************5555... PP

                              GGSSSECGGGGCTSEEEEESTTSTHHHHHHHHHHCTTEECEEEEEESSHHHHHHHHHTTS-BEEEEGGGHHCCCHTTTEEEEEESS CS
           LysR_substrate  91 argepvsledLadeplilleegsglrdlledalreaglkprvalevnsleallalvaaGlGiallprsavrdeladgrlvalplpe 176
                                   v+   L+++++++++++ +l             k +  + v+s++++++lv++ +Gia++p++++++   d+ l++ ++++
  PHY93_04375|PHY93_04375 167 -----VNRKKLHEHRWVVFSNNDHLFKISK-------NKSESIIMVDSFSSIISLVKNDVGIAIVPDHLIHK---DDLLKVQEVAG 237
                              .....677789*******887766666665.......4566679**************************88...*********** PP

                              TTCEEEEEEEEETTCCCHHHHHHHHHHH CS
           LysR_substrate 177 pplprelylvyrkgrelspavrafidfl 204
                                +++ +yl +   + ++++++a++d++
  PHY93_04375|PHY93_04375 238 -LPSSKIYLSTLNYKKMPERIKALVDIV 264
                              .888*********************987 PP

>> HTH_1  Bacterial regulatory helix-turn-helix protein, lysR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.5   0.1   1.3e-19   2.3e-16       2      59 ..       5      62 ..       4      63 .. 0.96

  Alignments for each domain:
  == domain 1  score: 59.5 bits;  conditional E-value: 1.3e-19
                             HHHHHHHHHHHHSSHHHHHHHHTS-HHHHHHHHHHHHHHHTS-SEEESSSEEEE-HHH CS
                    HTH_1  2 rqlrlfvavaeegsftrAAeeLglsqpavsrqikrLEeelgvpLfeRtgrglrLTeaG 59
                             r l++f   a+  sf++AAeeL+++q+avsrqik LE+ l+++L++R+++++ L e G
  PHY93_04375|PHY93_04375  5 RYLKAFMLTAKYSSFSKAAEELNIAQSAVSRQIKLLEDSLQEELIIRSSKKVILSEKG 62
                             789****************************************************999 PP

>> HTH_5  Bacterial regulatory protein, arsR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0     3e-05     0.053      22      41 ..      23      42 ..      13      43 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 3e-05
                             HHHHTS-HHHHHHHHHHHHH CS
                    HTH_5 22 aeelglsqstvShHLkkLre 41
                             aeel++ qs+vS++ k L++
  PHY93_04375|PHY93_04375 23 AEELNIAQSAVSRQIKLLED 42
                             89****************98 PP

>> Mga  Mga helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   1.1   3.2e-05     0.058      21      60 ..       7      46 ..       2      66 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 3.2e-05
                             HHHHHHHHSEEEHHHHHHHCT--HHHHHHHHHHHHHHCHC CS
                      Mga 21 llkflfeeeevsieelaqelyiSestlkrkikelnklLke 60
                             l +f+++ ++ s+ + a+el i +s + r+ik l+  L+e
  PHY93_04375|PHY93_04375  7 LKAFMLTAKYSSFSKAAEELNIAQSAVSRQIKLLEDSLQE 46
                             567889******************************9997 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   3.8e-05     0.068      22      43 ..      21      42 ..      14      43 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 3.8e-05
                   HTH_24 22 eLAerlglSpstvnrrlkrLee 43
                               Ae+l++ +s+v+r++k Le+
  PHY93_04375|PHY93_04375 21 KAAEELNIAQSAVSRQIKLLED 42
                             569*****************98 PP

>> HTH_50  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1     4e-05     0.071      21      45 ..      14      38 ..       9      40 .. 0.91

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 4e-05
                   HTH_50 21 ekYpStRklAkrLGvShtaianklr 45
                             +kY S+ k+A+ L + ++a+ + ++
  PHY93_04375|PHY93_04375 14 AKYSSFSKAAEELNIAQSAVSRQIK 38
                             79******************99887 PP

>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.1   9.1e-05      0.16      22      50 ..      23      54 ..       8      63 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 9.1e-05
                   HTH_11 22 AeeLnvSrrtvrrdIkaLeelg...vpIesep 50
                             AeeLn+  ++v r Ik Le+++   + I s++
  PHY93_04375|PHY93_04375 23 AEELNIAQSAVSRQIKLLEDSLqeeLIIRSSK 54
                             9*******************998886666655 PP

>> MULE  MULE transposase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.0      0.14   2.5e+02      47      76 ..      39      68 ..      17      77 .. 0.84
   2 ?    8.8   0.0    0.0012       2.1       8      79 ..     139     212 ..     134     220 .. 0.78

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.14
                     MULE 47 wllqelleevsgqrspkviitDkekallna 76
                              l ++l+ee ++ +s+kvi+++k k+l++a
  PHY93_04375|PHY93_04375 39 LLEDSLQEELIIRSSKKVILSEKGKELYQA 68
                             4445899999999*************9998 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.0012
                     MULE   8 yktnkyklplltvvgvddngqlvplafalveseneesyewllq...elleevsgqrspkviitDkekallnalee 79 
                              + t + + +l+t + +  +++lv+++f+ v++++ +  +w++    + l ++s+++s+++i+ D   ++++ +++
  PHY93_04375|PHY93_04375 139 FGTDNIQSELVTSLKLF-EEKLVLIGFGEVNRKKLHEHRWVVFsnnDHLFKISKNKSESIIMVDSFSSIISLVKN 212
                              56666666666655554.457999*********9999999877679777779999**********9999998865 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   0.00016      0.28      24      47 ..      19      42 ..      10      43 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00016
                             HHHHHHHHTSSHHHHHHHHHHHHH CS
                   MarR_2 24 vgelarrlglsksavsrilkrLva 47
                              +  a++l++ +savsr +k L++
  PHY93_04375|PHY93_04375 19 FSKAAEELNIAQSAVSRQIKLLED 42
                             56789***************9986 PP

>> HTH_20  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00013      0.23      21      50 ..      13      42 ..       4      44 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00013
                             TCTTB-HHHHHHHHTS-HHHHHHHHHHHHH CS
                   HTH_20 21 raegltaselaerldlskntlsyHLrvLee 50
                             +a+  ++s  ae+l ++++ +s++++ Le+
  PHY93_04375|PHY93_04375 13 TAKYSSFSKAAEELNIAQSAVSRQIKLLED 42
                             6777899*********************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (265 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       922  (0.0514251); expected 358.6 (0.02)
Passed bias filter:                      581  (0.0324056); expected 358.6 (0.02)
Passed Vit filter:                        55  (0.00306766); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.57u 0.21s 00:00:00.77 Elapsed: 00:00:00.42
# Mc/sec: 1898.38
//
Query:       PHY93_04380|PHY93_04380  [L=341]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.4e-11   42.9   0.1      1e-10   41.4   0.1    1.8  2  Fer2           2Fe-2S iron-sulfur cluster binding domain
    6.2e-11   42.5   0.0    1.9e-10   41.0   0.0    1.7  2  FAD_binding_6  Oxidoreductase FAD-binding domain
    0.00052   20.6   0.0    0.00091   19.9   0.0    1.4  1  NAD_binding_1  Oxidoreductase NAD-binding domain


Domain annotation for each model (and alignments):
>> Fer2  2Fe-2S iron-sulfur cluster binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.4   0.1   1.7e-14     1e-10       9      78 .]      12      81 ..       6      81 .. 0.89
   2 ?   -2.5   0.0      0.88   5.3e+03      11      29 ..     159     176 ..     156     180 .. 0.73

  Alignments for each domain:
  == domain 1  score: 41.4 bits;  conditional E-value: 1.7e-14
                             EEEEETTTHBHHHHHHHTTTTTSTTSSSSSSSSTTEEEEEESCECTT...SSSSTHHHHHTTEEEEGGGSEES CS
                     Fer2  9 evevadgettlldaaeenggidipysCggggCgtClvevlegevqsd...etelegeeldegklrlaCqtivt 78
                             ev+  dge+ +l  +e+n g+++p +C++g+Cg C++++ eg + ++    ++l+ +++d+g++ l+C+++v+
  PHY93_04380|PHY93_04380 12 EVSYHDGES-VLSCLEKN-GYALPSNCRAGACGECKIKIREGVIDQGfilDMALSQSDRDQGYA-LMCMAKVK 81
                             667789999.******99.***********************9955568899999999999988.*****986 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 0.88
                              EEETTTHBHHHHHHHTTTT CS
                     Fer2  11 evadgettlldaaeenggi 29 
                              + +dge  +l + ++n+g+
  PHY93_04380|PHY93_04380 159 PNQDGEI-ILYISRNNEGV 176
                              5556665.99999999887 PP

>> FAD_binding_6  Oxidoreductase FAD-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.0   0.0   3.1e-14   1.9e-10       5      97 ..     110     200 ..     107     201 .. 0.85
   2 ?   -2.4   0.0       1.1   6.3e+03      15      34 ..     265     285 ..     260     300 .. 0.70

  Alignments for each domain:
  == domain 1  score: 41.0 bits;  conditional E-value: 3.1e-14
                              EEEEECCTTEEEEEEEESTTTS-----TT-EEEEEECETTCCEEEEEE.BSSTTECCEEEEEEE--TT-HHHHHH.HCS-TT-EEE CS
            FAD_binding_6   5 tekeevsedtrifrfklpsekqklglpvGqhvflrlkikgeaviRsYtpissenekGelellvkvypgGkmsqaL.delkigdtle 89 
                              tek ++++ ++  +++l +  + l++ +Gq+++l    +++   +sY++++ +n++Ge+ l + + ++G+ s+ + del+ig++++
  PHY93_04380|PHY93_04380 110 TEKISLTKKIQ--KIRLRALGTPLRFWPGQYIQLGSV-EKKIPYKSYSIANIPNQDGEIILYISRNNEGVTSKWIhDELNIGEKIK 192
                              55555555555..555555577799******999776.88899********************************999******** PP

                              EEEEE-SE CS
            FAD_binding_6  90 ikGPlGkf 97 
                              i+G +G+f
  PHY93_04380|PHY93_04380 193 IHGAYGTF 200
                              ******98 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 1.1
                              EEEEEEES.TTTS-----TT- CS
            FAD_binding_6  15 rifrfklp.sekqklglpvGq 34 
                              r frf++  +++q+ gl+vG+
  PHY93_04380|PHY93_04380 265 RNFRFRVTlTREQNPGLLVGR 285
                              566775542466778999887 PP

>> NAD_binding_1  Oxidoreductase NAD-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.9   0.0   1.5e-07   0.00091       2     107 ..     213     314 ..     212     316 .. 0.86

  Alignments for each domain:
  == domain 1  score: 19.9 bits;  conditional E-value: 1.5e-07
                              EEEGGGGHHHHHHHHHHHHHCTTCSEEEEEEEESSGCGSTTHHHHHHHHHHCTT.EEEEEEEESSCTTTSSSEESSHHHHHHHHHH CS
            NAD_binding_1   2 iagGtGiaPvrsvlraileeakdktkvvlvyGnrteedllyreeleelakklpg.rlkvvavvsreeagweggkgrvqdalleell 86 
                              +a G+G+aP+ s+  a+l +  +++++++++ ++t+edl+ +  +  l++k ++ r++v+ +   +e+++    gr+   l   l 
  PHY93_04380|PHY93_04380 213 LAQGSGLAPITSLAMAALLRGGFRNPATILFSAKTNEDLFEKGIFSFLESKFRNfRFRVTLT---REQNPGLLVGRIPMIL-PSLY 294
                              689**********999998889*******************************988888888...4445556899999887.5555 PP

                              HHSSTTEEEEEECSHHHHHHH CS
            NAD_binding_1  87 slkkeethvyvCGppgMikav 107
                              + ++++  +y++G p++++++
  PHY93_04380|PHY93_04380 295 P-NLSNYSLYIAGSPEFVADC 314
                              5.599********99998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (341 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       302  (0.0168442); expected 358.6 (0.02)
Passed bias filter:                      267  (0.0148921); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.53u 0.19s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 2534.52
//
Query:       PHY93_04385|PHY93_04385  [L=342]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.9e-06   26.8   0.0    8.3e-06   25.3   0.0    1.7  1  AurF          P-aminobenzoate N-oxygenase AurF
     0.0035   17.7   0.1       0.57   10.6   0.0    2.2  2  Rubrerythrin  Rubrerythrin


Domain annotation for each model (and alignments):
>> AurF  P-aminobenzoate N-oxygenase AurF
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.3   0.0   9.2e-10   8.3e-06      92     246 ..      96     268 ..      89     287 .. 0.86

  Alignments for each domain:
  == domain 1  score: 25.3 bits;  conditional E-value: 9.2e-10
                              T-STT--SHHHHHHHHHHHHHHHHHHHHHHHHHHHHH....................--S---HHHHHHHHHHHH--SHHHHHHHH CS
                     AurF  92 daypldntspevryalteiaDEcrHslMfaeaverig....................advpgmyrvrrllrelakllktiarglvf 157
                              ++y+   ++p +r  +    DE++H +++  a++++                     ++    y   r+ +   +++++++   v 
  PHY93_04385|PHY93_04385  96 KTYEAHEEDPVRRCFFSVTRDEQNHEQFCGMAITKLLehsdpltyipktdiglrlqkNTRWLYYNGSRYWTGYKNAVPKYS-LAVL 180
                              568888899999999999*****************999********99888887753335666777888888899999999.899* PP

                              HHHHHHHHHHHHHHHHHHHT-SSS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHS--HHHHHH CS
                     AurF 158 faavlvgEeiidalqrelmrdeelqPlvrrvmriHvaEEarHisfareelrrrvprlsraerallrlllalalrafasslvnppvy 243
                              f   l+gE+    + ++++++ + + + ++ ++   ++E rH+ +   +++r +p+l   +ra++ + +  +  ++ + l++pp++
  PHY93_04385|PHY93_04385 181 FSSFLMGEIAAATIFQQMAKNST-ELVFQEAFKNIGRDEGRHMAICMSLMERDYPKLCLEDRAIITKQIRAGYLFLSAVLFEPPME 265
                              ***********999999999885.5556666666689************************************************* PP

                              HHH CS
                     AurF 244 ala 246
                              +++
  PHY93_04385|PHY93_04385 266 FWD 268
                              *97 PP

>> Rubrerythrin  Rubrerythrin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.9   0.0    0.0035        31     109     132 ..     100     123 ..      91     157 .. 0.69
   2 !   10.6   0.0   6.3e-05      0.57       8      67 ..     186     243 ..     180     258 .. 0.83

  Alignments for each domain:
  == domain 1  score: 4.9 bits;  conditional E-value: 0.0035
                              HTTSHHHHHHHHHHHHHHHHHHHH CS
             Rubrerythrin 109 kegneeakklfkklaeaEkkHeer 132
                                +++++++ f ++ ++E+ He++
  PHY93_04385|PHY93_04385 100 AHEEDPVRRCFFSVTRDEQNHEQF 123
                              333344666666666666666654 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 6.3e-05
                              HHHHHHHHHHHHHHHCHHTT-HHHHHHHHHHHHHHHHHHHHHHHHHHHCSTTHH.B.SSB CS
             Rubrerythrin   8 agEssarrlYkelaekakegypqiaelFeelAeeEreHakilnklleklepelelevkek 67 
                               gE+ a  +++ +a++        +e+F+ + ++E +H +i   l+e  +p+l le ++ 
  PHY93_04385|PHY93_04385 186 MGEIAAATIFQQMAKNST--ELVFQEAFKNIGRDEGRHMAICMSLMERDYPKLCLEDRAI 243
                              689*************99..55579******************99998777776666555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (342 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       347  (0.0193541); expected 358.6 (0.02)
Passed bias filter:                      315  (0.0175693); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.24s 00:00:00.74 Elapsed: 00:00:00.41
# Mc/sec: 2522.77
//
Query:       PHY93_04390|PHY93_04390  [L=587]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.3e-18   66.8  24.8     0.0016   18.5   0.0    7.5  7  FG-GAP     FG-GAP repeat
    4.8e-18   65.5  24.6    8.7e-06   26.2   3.9    5.8  6  VCBS       Repeat domain in Vibrio, Colwellia, Bradyrhizobium


Domain annotation for each model (and alignments):
>> FG-GAP  FG-GAP repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.2   0.7   1.7e-05      0.15       7      19 ..      76      88 ..      76      90 .. 0.91
   2 !   12.4   0.0   1.5e-05      0.13       7      21 ..     127     141 ..     122     151 .. 0.88
   3 !    8.4   0.1   0.00027       2.4       3      21 ..     182     200 ..     180     210 .. 0.82
   4 !    9.3   0.0   0.00014       1.3       5      27 ..     254     274 ..     251     278 .. 0.74
   5 !   13.9   0.1     5e-06     0.045       8      28 ..     319     338 ..     316     349 .. 0.75
   6 !    3.6   1.6    0.0082        74       9      20 ..     385     396 ..     382     401 .. 0.93
   7 !   18.5   0.0   1.8e-07    0.0016       6      37 .]     435     467 ..     431     467 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 1.7e-05
                             EESTSSSSS-EEE CS
                   FG-GAP  7 vgDvNGDGyaDLa 19
                             ++D+++DGy+DL+
  PHY93_04390|PHY93_04390 76 AVDIDHDGYTDLI 88
                             68**********8 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 1.5e-05
                              EESTSSSSS-EEEEE CS
                   FG-GAP   7 vgDvNGDGyaDLavG 21 
                               +D+++DG  D++vG
  PHY93_04390|PHY93_04390 127 FVDLDHDGIYDVIVG 141
                              68************* PP

  == domain 3  score: 8.4 bits;  conditional E-value: 0.00027
                              SSEEEESTSSSSS-EEEEE CS
                   FG-GAP   3 yslavgDvNGDGyaDLavG 21 
                              +++a+ D++ DG  DL ++
  PHY93_04390|PHY93_04390 182 SGIAALDFDLDGELDLFLA 200
                              78999***********997 PP

  == domain 4  score: 9.3 bits;  conditional E-value: 0.00014
                              EEEESTSSSSS-EEEEEETT-ET CS
                   FG-GAP   5 lavgDvNGDGyaDLavGApeskg 27 
                              ++v D++  G++D+++   +s+g
  PHY93_04390|PHY93_04390 254 ASVCDIDKNGFPDILTS--SSNG 274
                              5666************9..4233 PP

  == domain 5  score: 13.9 bits;  conditional E-value: 5e-06
                              ESTSSSSS-EEEEEETT-ETC CS
                   FG-GAP   8 gDvNGDGyaDLavGApeskgg 28 
                              gD+N+DG  D++vG  +s ++
  PHY93_04390|PHY93_04390 319 GDYNNDGIVDIVVGN-MSRDS 338
                              9*************4.43333 PP

  == domain 6  score: 3.6 bits;  conditional E-value: 0.0082
                              STSSSSS-EEEE CS
                   FG-GAP   9 DvNGDGyaDLav 20 
                              D+N DG+ DL++
  PHY93_04390|PHY93_04390 385 DYNLDGLNDLLI 396
                              9*********98 PP

  == domain 7  score: 18.5 bits;  conditional E-value: 1.8e-07
                              EEE.STSSSSS-EEEEEETT-ETCSTT..BEEEEE CS
                   FG-GAP   6 avg.DvNGDGyaDLavGApeskggayg..GaVyvl 37 
                              +v+ DvN+DG+ D+++G   sk +a++  +++y++
  PHY93_04390|PHY93_04390 435 TVTiDVNQDGVMDFITG--QSKTRAGDinNRIYLF 467
                              5555*************..8899999999***986 PP

>> VCBS  Repeat domain in Vibrio, Colwellia, Bradyrhizobium and Shewanella
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.5   0.0   1.9e-05      0.17      32      60 ..      60      88 ..      52      89 .. 0.74
   2 !    7.4   0.2   0.00075       6.8      42      61 .]     121     140 ..      98     140 .. 0.77
   3 !   18.6   0.2   2.4e-07    0.0021       1      60 [.     129     198 ..     129     199 .. 0.73
   4 !   26.2   3.9   9.7e-10   8.7e-06       1      61 []     258     331 ..     258     331 .. 0.71
   5 !   18.6   1.7   2.3e-07    0.0021       1      60 [.     385     449 ..     385     450 .. 0.86
   6 !   11.1   0.5     5e-05      0.45       1      25 [.     439     471 ..     439     496 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 1.9e-05
                     VCBS 32 vtktslggsgggtgvavgDlDgDGdlDll 60
                              t+  +  + ++++++++D+D+DG++Dl+
  PHY93_04390|PHY93_04390 60 KTEEYGLKGVQAVHLYAVDIDHDGYTDLI 88
                             444444445577899************98 PP

  == domain 2  score: 7.4 bits;  conditional E-value: 0.00075
                     VCBS  42 ggtgvavgDlDgDGdlDllv 61 
                              +g  + ++DlD+DG  D++v
  PHY93_04390|PHY93_04390 121 RGSYLNFVDLDHDGIYDVIV 140
                              444588***********998 PP

  == domain 3  score: 18.6 bits;  conditional E-value: 2.4e-07
                     VCBS   1 DldgDGrlDlvvan.dgg.......lrvyrnngdGtftdvtkt.slggsgggt.gvavgDlDgDGdlDll 60 
                              Dld DG  D++v++ +++        r++ +   ++     ++ +l+++  +t g+a+ D+D DG lDl+
  PHY93_04390|PHY93_04390 129 DLDHDGIYDVIVGTlNQKtemtqypARIFKGIIENKVLHYKEQsPLPTGLLPTsGIAALDFDLDGELDLF 198
                              9************655554455555777777765554444443378887777758*************98 PP

  == domain 4  score: 26.2 bits;  conditional E-value: 9.7e-10
                     VCBS   1 DldgDGrlDlvvandgg..lrvyrnngdGtftdvtktslgg...........sgggtgvavgDlDgDGdlDllv 61 
                              D+d +G++D++ ++++g  +++++n    +f + +  s+ +           +g+++    gD+++DG  D++v
  PHY93_04390|PHY93_04390 258 DIDKNGFPDILTSSSNGysNKLWLNLDGQNFVNYGLESGYAadedgspeahgGGNSFFSLCGDYNNDGIVDIVV 331
                              9***********974333599999996667997766433333444444553244444477************98 PP

  == domain 5  score: 18.6 bits;  conditional E-value: 2.3e-07
                     VCBS   1 DldgDGrlDlvva.....ndgglrvyrnngdGtftdvtktslggsgggtgvavgDlDgDGdlDll 60 
                              D++ DG+ Dl++       d++l+++++ +d  ++d +   +   +++ g +  D++ DG +D++
  PHY93_04390|PHY93_04390 385 DYNLDGLNDLLIDnsgfpPDSRLVFFEQAADHAYEDKSREFGVNVMNPSGTVTIDVNQDGVMDFI 449
                              9**********95444544799*************988766666999****************97 PP

  == domain 6  score: 11.1 bits;  conditional E-value: 5e-05
                     VCBS   1 DldgDGrlDlvva.......n.dgglrvyrnng 25 
                              D+++DG +D++ +       + ++++++++n+ 
  PHY93_04390|PHY93_04390 439 DVNQDGVMDFITGqsktragDiNNRIYLFENQT 471
                              9************99988866678899999995 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (587 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       321  (0.017904); expected 358.6 (0.02)
Passed bias filter:                      284  (0.0158403); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.60u 0.22s 00:00:00.82 Elapsed: 00:00:00.42
# Mc/sec: 4159.89
//
Query:       PHY93_04395|PHY93_04395  [L=587]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.2e-38  131.8   0.3    1.6e-35  122.5   0.2    2.3  2  Acyl-CoA_dh_1  Acyl-CoA dehydrogenase, C-terminal domain
    9.2e-27   93.1   0.1    4.4e-26   90.9   0.1    2.1  2  Acyl-CoA_dh_M  Acyl-CoA dehydrogenase, middle domain
    6.9e-26   91.1   0.2    4.1e-25   88.6   0.0    2.3  2  Acyl-CoA_dh_N  Acyl-CoA dehydrogenase, N-terminal domain
    1.6e-09   38.1   0.0    1.1e-08   35.5   0.0    2.3  2  Acyl-CoA_dh_2  Acyl-CoA dehydrogenase, C-terminal domain
     0.0022   18.6   0.1      0.013   16.0   0.0    2.2  2  Acyl-CoA_ox_N  Acyl-coenzyme A oxidase N-terminal
  ------ inclusion threshold ------
      0.014   14.9   0.1      0.025   14.2   0.1    1.3  1  DUF1974        Domain of unknown function (DUF1974)
       0.15   11.7   0.1        0.8    9.3   0.0    2.2  2  HpaB_N         4-hydroxyphenylacetate 3-hydroxylase N termina


Domain annotation for each model (and alignments):
>> Acyl-CoA_dh_1  Acyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  122.5   0.2   6.2e-39   1.6e-35       1     145 [.     262     407 ..     262     410 .. 0.98
   2 !    7.1   0.0    0.0023       5.9      42      84 ..     490     532 ..     475     557 .. 0.84

  Alignments for each domain:
  == domain 1  score: 122.5 bits;  conditional E-value: 6.2e-39
                              TBHHHHHTTTT--S-----..-SHHHHHHHHHHHHHHHTSB-CC-BGGGSHHHHHHHHHHHHHHHHHHHHHHHHHH--------.H CS
            Acyl-CoA_dh_1   1 gkGfrvametlnheRlavaaaalglarraleealeyarrrkafgkplidhqlvreklaemaaeleaarllvyraaealdagkpd.r 85 
                              gkGf++am+ ln +Rl+++a+++g ++ +l ++ e+a +rk+f +p++++ lv+ kla+ma  + a+ + vy  +  + +g +d  
  PHY93_04395|PHY93_04395 262 GKGFKIAMNVLNSGRLSLGAGCVGGMKTILKHSTEHAANRKQFDRPIAEFGLVQSKLAKMAEMTYAVESVVYLSTGNMTKGMNDyY 347
                              79************************************************************************************ PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHGGGTTSGGGHHHHHHHHTHHHHHSSS-HHHHHHHH CS
            Acyl-CoA_dh_1  86 aeasmaKlfaselaqevadlamqllGgaGyleeypverlyrdarvlrigeGtseiqrnii 145
                              +e++++K+f+se +++ +d  mq+  g+Gy++eyp er++rd+r+  i+eGt+ei+r ++
  PHY93_04395|PHY93_04395 348 METAVCKVFGSECLWQTIDMGMQIAAGNGYMKEYPYERIMRDSRIQLIFEGTNEILRCLL 407
                              *******************************************************99766 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0023
                              -CC-BGGGSHHHHHHHHHHHHHHHHHHHHHHHHHH-------- CS
            Acyl-CoA_dh_1  42 afgkplidhqlvreklaemaaeleaarllvyraaealdagkpd 84 
                               +gk ++d++l + +la+m ++l ++ + + r+++ l+  k +
  PHY93_04395|PHY93_04395 490 KYGKNIVDNELPQGRLADMSIDLYVMCAVISRTTSILNSSKAT 532
                              579***********************99999999987776665 PP

>> Acyl-CoA_dh_M  Acyl-CoA dehydrogenase, middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   90.9   0.1   1.7e-29   4.4e-26       1      97 []     151     250 ..     151     250 .. 0.95
   2 ?   -1.0   0.0      0.84   2.1e+03      20      41 ..     529     551 ..     520     556 .. 0.76

  Alignments for each domain:
  == domain 1  score: 90.9 bits;  conditional E-value: 1.7e-29
                              EEE---SS-SS-GGG---EEEEETT.EEEEEEEEEEEETTTT-SEEEEEEE.TS---..----EEEEEEE..GGGEEE-----BSS CS
            Acyl-CoA_dh_M   1 afalTEpqaGsdvasvkttaaerdggeyvlnGeKiwitnaaiatlalvlar.tekpd..rarglslflvprdapgvsvrrieeklG 83 
                              af+lTEp++Gsd+ s+kt+a+++++g y+++G+K witn++ a ++ v+++  ++ d  + +++s+f+v++ ++g+s++++e+k+G
  PHY93_04395|PHY93_04395 151 AFCLTEPGSGSDAYSIKTKAIDNNDGTYTISGQKLWITNGGLAGFYSVYCKtDHQIDgkTVEKISCFIVEKERSGISFGEKENKMG 236
                              79*************************************************75555577789************************ PP

                              -TTS-EEEEEEE.. CS
            Acyl-CoA_dh_M  84 lrglptgelvfedv 97 
                              +rg +t  ++f++v
  PHY93_04395|PHY93_04395 237 IRGSETRAVYFDKV 250
                              ***********987 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.84
                              E.EEETT.EEEEEEEEEEEETTT CS
            Acyl-CoA_dh_M  20 a.aerdggeyvlnGeKiwitnaa 41 
                                a++d+++yvl+ +K+ ++ a+
  PHY93_04395|PHY93_04395 529 SkATQDQKDYVLRLSKQICKDAR 551
                              337788889*******9998875 PP

>> Acyl-CoA_dh_N  Acyl-CoA dehydrogenase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.6   0.0   1.6e-28   4.1e-25       5     112 ..      41     146 ..      37     147 .. 0.96
   2 ?   -1.1   0.0       1.1   2.9e+03      77     100 ..     274     297 ..     267     302 .. 0.78

  Alignments for each domain:
  == domain 1  score: 88.6 bits;  conditional E-value: 1.6e-28
                              HHHHHHHHHHHHHHTHHHHHHHHHHTSGHHHHHHHHHHTTCTSTTS-GGGTS--S-HHHHHHHHHHHHHH-HHHHHHHHHHHHTTH CS
            Acyl-CoA_dh_N   5 ealrdtvrefaeeelaphaaewdeegefprelwkklaelGllgitvpeeygGagldyleaaivaeelaradaglalllgvhsslva 90 
                              +++ +++ +fa+++++   ++ d+e ++p e+++ l+elGllg++vpee gG+gldy+ ++ v+ ++a++da++a+++g+h+s++ 
  PHY93_04395|PHY93_04395  41 KEMTAAIDQFAKDNIN--GEKFDNESHIPSEVIQGLGELGLLGLAVPEELGGLGLDYTLYCRVFAQVAAHDASVATMVGAHQSIGY 124
                              67889999*******7..89999999************************************************************ PP

                              HHHHHHS-HHHHHHHHHHHHTT CS
            Acyl-CoA_dh_N  91 pailrfGteeqkrryLpklasg 112
                               a+l+ G++eqk+++Lp la+g
  PHY93_04395|PHY93_04395 125 RALLNEGNDEQKKKWLPLLATG 146
                              ********************99 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 1.1
                              HHHHHHHHHHHTTHHHHHHHS-HH CS
            Acyl-CoA_dh_N  77 glalllgvhsslvapailrfGtee 100
                              +++l+lg++   ++++il++ te 
  PHY93_04395|PHY93_04395 274 SGRLSLGAGCVGGMKTILKHSTEH 297
                              45678888888889******9996 PP

>> Acyl-CoA_dh_2  Acyl-CoA dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.5   0.0   4.2e-12   1.1e-08       2     133 ..     278     400 ..     277     401 .. 0.90
   2 ?   -1.1   0.0      0.83   2.1e+03      31      76 ..     492     537 ..     483     548 .. 0.77

  Alignments for each domain:
  == domain 1  score: 35.5 bits;  conditional E-value: 4.2e-12
                              HHHHHHHHHHHHHHHHHHHHHHHHHCTTT-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT----HHHHHHHHHHH CS
            Acyl-CoA_dh_2   2 giaavalGaAraalaefvelarervrassgekladdpatqlalaeaaarldAAralleraaaraealaaagkevtvedraearraa 87 
                              +++a ++G  +  l++ +e+a++r++  + +++a++  +q +la++a    A + +++  +  +    ++ +        e ++ +
  PHY93_04395|PHY93_04395 278 SLGAGCVGGMKTILKHSTEHAANRKQ--FDRPIAEFGLVQSKLAKMAEMTYAVESVVYLSTGNM---TKGMND----YYMETAVCK 354
                              678899********************..*****************************9999993...334444....4789999** PP

                              HHHHHHHHHHHHHHHHHCGGGGGBTT-HHHHHHHHHHHHCTSGGG- CS
            Acyl-CoA_dh_2  88 alavelaiaavdalfeaaGgsalrkesplqRlwRDahaaaaHaaln 133
                              ++ +e   + +d+ +++a+g+++ ke+p +R++RD ++  +++++n
  PHY93_04395|PHY93_04395 355 VFGSECLWQTIDMGMQIAAGNGYMKEYPYERIMRDSRIQLIFEGTN 400
                              ************************************9987777766 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.83
                              -------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT---- CS
            Acyl-CoA_dh_2  31 gekladdpatqlalaeaaarldAAralleraaaraealaaagkevt 76 
                              g+++ d++  q +la+++ +l   +a++ r+++      a++++ +
  PHY93_04395|PHY93_04395 492 GKNIVDNELPQGRLADMSIDLYVMCAVISRTTSILNSSKATQDQKD 537
                              5677888889999******999999999999887666666655554 PP

>> Acyl-CoA_ox_N  Acyl-coenzyme A oxidase N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.0   5.1e-06     0.013      91     125 .]     115     149 ..     103     149 .. 0.86
   2 ?   -0.9   0.1      0.88   2.3e+03      23      64 ..     523     564 ..     519     578 .. 0.81

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 5.1e-06
                              TTHHHHHTHHHHHHHHS-HHHHHHHHHHHHTTSS- CS
            Acyl-CoA_ox_N  91 plglhfsMFlptlkgqgteeQqakWlpraenleii 125
                               +g h s+   +l++ g++eQ++kWlp+  + ++i
  PHY93_04395|PHY93_04395 115 MVGAHQSIGYRALLNEGNDEQKKKWLPLLATGKVI 149
                              56678888899****************99887765 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.88
                              HHHHCT-GGGS-SSTGGGS-HHHHHHHHHHHHHHHHHHHHHT CS
            Acyl-CoA_ox_N  23 esllesdpefddaedyyflsreeryeealrkatrllkklrel 64 
                               s+l s +  +d++dy     ++ +++a r++tr lk + + 
  PHY93_04395|PHY93_04395 523 TSILNSSKATQDQKDYVLRLSKQICKDARRRFTRNLKSMSKN 564
                              567888888899899999999999999999999999988874 PP

>> DUF1974  Domain of unknown function (DUF1974)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.1   9.8e-06     0.025      59     156 ..     462     560 ..     437     569 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 9.8e-06
                  DUF1974  59 vagetkryyrqlnrlSaafAllaDlallvLGGeLKrkerlsaRlgDvlSqLYlasavLkrfede.grqeedlplvhwalqdalaqa 143
                              +++e+k    + + +  +fA++ + +l+  G ++  +e   +Rl+D+   LY+++av+ r  +  +++++ +   +++l+ + + +
  PHY93_04395|PHY93_04395 462 AHPELKDQADKFSSCLGKFAIAVEDTLIKYGKNIVDNELPQGRLADMSIDLYVMCAVISRTTSIlNSSKATQDQKDYVLRLSKQIC 547
                              467777777777777889****************************************9988765788888888899999999999 PP

                  DUF1974 144 eealdellaNfpn 156
                              ++a + + +N+++
  PHY93_04395|PHY93_04395 548 KDARRRFTRNLKS 560
                              9999999998875 PP

>> HpaB_N  4-hydroxyphenylacetate 3-hydroxylase N terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.3   0.0   0.00031       0.8     174     271 ..     173     258 ..      96     258 .. 0.72
   2 ?   -1.8   0.0      0.76   1.9e+03     225     252 ..     286     312 ..     285     317 .. 0.85

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.00031
                              E-SSEEEEEEEEEEEE-.--SSEEEE---.SS-..TTSGGG-EEEEEETT-TTEEEEE-------S..-TTT-TTTTT----EEEE CS
                   HpaB_N 174 etddGivVrGakvlaTgaaladeilvlpt.ramlkeedkdyavafavpvdapGlklicresfedkleesefdyplssrfdendalv 258
                              ++d    ++G k+ +T++ la    v++   + +  +  +   +f+v+ +  G+++  +e+             +    + ++  v
  PHY93_04395|PHY93_04395 173 NNDGTYTISGQKLWITNGGLAGFYSVYCKtDHQIDGKTVEKISCFIVEKERSGISFGEKENKMG----------IR---GSETRAV 245
                              4444456999999999999999999888756666777888899999999999999866666443..........22...4567789 PP

                              EEEEEEEEGGGEE CS
                   HpaB_N 259 vfDdVfVPwerVf 271
                              +fD+V VP e+++
  PHY93_04395|PHY93_04395 246 YFDKVIVPKENIL 258
                              **********996 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 0.76
                              TEEEEE-------S..-TTT-TTTTT-- CS
                   HpaB_N 225 Glklicresfedkleesefdyplssrfd 252
                              G+k i+++s+e+ +++++fd p++ +f+
  PHY93_04395|PHY93_04395 286 GMKTILKHSTEHAANRKQFDRPIA-EFG 312
                              8999*******9766899****99.776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (587 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       573  (0.0319594); expected 358.6 (0.02)
Passed bias filter:                      470  (0.0262145); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.67u 0.22s 00:00:00.89 Elapsed: 00:00:00.43
# Mc/sec: 4136.52
//
Query:       PHY93_04400|PHY93_04400  [L=450]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00018   21.5   0.0    0.00047   20.1   0.0    1.6  1  T2SSC     Type II secretion system protein C
    0.00054   19.8   0.0     0.0017   18.2   0.0    1.8  1  PDZ_6     PDZ domain
     0.0012   19.1   0.1     0.0062   16.9   0.1    2.1  2  PDZ       PDZ domain
     0.0022   18.3   0.0     0.0071   16.6   0.0    1.8  1  PDZ_2     PDZ domain
     0.0067   16.5   0.6       0.21   11.7   0.0    2.7  2  DUF5617   Domain of unknown function (DUF5617)


Domain annotation for each model (and alignments):
>> T2SSC  Type II secretion system protein C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.1   0.0   1.3e-07   0.00047       3     131 ..     167     306 ..     163     310 .. 0.79

  Alignments for each domain:
  == domain 1  score: 20.1 bits;  conditional E-value: 1.3e-07
                    T2SSC   3 llallalllarltWlllapapaeaaaaseapsaas....kaadaldvaklaslnLFGkaeeqaeaakea........evvdaP.eT 75 
                              l++++ +++++ + l++++a  ++ +++++p+ +     +++   d++k++s nLF+  e+ ++  +++           da+  T
  PHY93_04400|PHY93_04400 167 LVVVITYMIGKNIALFVNRA--PPLVKTTRPTISIplekADTTLQDINKITSTNLFNAKESDKSIDTSSkkdidsiiC-LDAStPT 249
                              57888899999999999773..333333333222244444777889**************999988777789999853.5555168 PP

                    T2SSC  76 rlnLtLlGvvassepeeglAiIaergkqe.etYriGdeieggakLeaVyaDrViikr 131
                              +l+++Ll +++ +++ +++A ++ rg++e    r G+++++ a+++++++ + i+k+
  PHY93_04400|PHY93_04400 250 SLQIKLLDTIVLQDSVKSVASVQVRGSSElMNVREGERLDEMAEVSKINRMKLILKN 306
                              99**************************8888999*************998888886 PP

>> PDZ_6  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.0   4.6e-07    0.0017       3      41 ..     388     424 ..     387     429 .. 0.90

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 4.6e-07
                    PDZ_6   3 taVdpgsPAdrAGlrvGDiilsvNGqpveglsladvaal 41 
                              t+++pgs   +  ++ +Dii s+NG+ +   +l+++  l
  PHY93_04400|PHY93_04400 388 TEIVPGSLYSQLDIQENDIIDSINGKKI--DNLNELMGL 424
                              57899***********************..999998655 PP

>> PDZ  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0       1.9     7e+03      20      48 ..     286     311 ..     279     311 .. 0.70
   2 !   16.9   0.1   1.7e-06    0.0062      29      64 ..     386     421 ..     373     424 .. 0.85

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 1.9
                              TTSSSSSSEEEEEECTTSHHHHHTSSTTE CS
                      PDZ  20 sdqrgdkgifvsevlpggaaeadglkvGD 48 
                              +    d+ + vs+++++    +  l+ GD
  PHY93_04400|PHY93_04400 286 ERL--DEMAEVSKINRMKLILKN-LQTGD 311
                              443..467788888888888888.88887 PP

  == domain 2  score: 16.9 bits;  conditional E-value: 1.7e-06
                              EEEEECTT.SHHHHHTSSTTEEEEEETTEETTTSHHH CS
                      PDZ  29 fvsevlpg.gaaeadglkvGDkIlsvNgvdvenvshe 64 
                                +e++pg    + d ++++D+I s+Ng+++ n++++
  PHY93_04400|PHY93_04400 386 KMTEIVPGsLYSQLD-IQENDIIDSINGKKIDNLNEL 421
                              5689****7777788.*****************9875 PP

>> PDZ_2  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0     2e-06    0.0071      13      74 ..     382     443 ..     372     448 .. 0.83

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 2e-06
                              ..-EEEEEE-TTSGGGGT.--TT-EEEEETTB--SSHHHHHHHHHTS-TT-EEEEEEEETTE CS
                    PDZ_2  13 tggvlvvsVkeggPaakaglkagDvilkvdgkkvksledlislllkkkpGdtVkltvlRdgk 74 
                              +     +++ +g+  ++ +++ +D+i +++gkk+++l +l +ll + k+ d+ ++  +R+g 
  PHY93_04400|PHY93_04400 382 SLSFKMTEIVPGSLYSQLDIQENDIIDSINGKKIDNLNELMGLLGRIKEIDQFQIGSKRNGM 443
                              5555666777777778889***************************9999999999999986 PP

>> DUF5617  Domain of unknown function (DUF5617)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.7   0.0   5.8e-05      0.21      57      93 ..     352     388 ..     338     391 .. 0.85
   2 ?    2.0   0.1     0.064   2.3e+02      55      80 ..     404     429 ..     400     443 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 5.8e-05
                              HHHHHHTT--SSHHHHHHHHHTTTSB--S--HHHHST CS
                  DUF5617  57 ivkeidkgnytdaddlvkrLkelklvnpkGsLkrrik 93 
                              i +   + ++t+++d++++ k+++++np+GsL+ +++
  PHY93_04400|PHY93_04400 352 IKRTFRDSMITNMSDILTQAKAIQITNPDGSLSFKMT 388
                              545567899***********************98876 PP

  == domain 2  score: 2.0 bits;  conditional E-value: 0.064
                              HHHHHHHHTT--SSHHHHHHHHHTTT CS
                  DUF5617  55 dkivkeidkgnytdaddlvkrLkelk 80 
                              ++i++ i+ +++++ ++l+  L ++k
  PHY93_04400|PHY93_04400 404 NDIIDSINGKKIDNLNELMGLLGRIK 429
                              79***************999888887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (450 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1517  (0.0846115); expected 358.6 (0.02)
Passed bias filter:                      508  (0.028334); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.62u 0.23s 00:00:00.85 Elapsed: 00:00:00.42
# Mc/sec: 3243.68
//
Query:       PHY93_04405|PHY93_04405  [L=845]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    6.2e-44  149.6   3.5    1.6e-43  148.3   3.5    1.8  1  Secretin    Bacterial type II and III secretion system protei
    1.1e-35  121.8  12.0    2.2e-16   60.0   0.0    4.6  5  Secretin_N  Bacterial type II/III secretion system short doma


Domain annotation for each model (and alignments):
>> Secretin  Bacterial type II and III secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  148.3   3.5   1.8e-47   1.6e-43       6     169 ..     582     740 ..     577     741 .. 0.88

  Alignments for each domain:
  == domain 1  score: 148.3 bits;  conditional E-value: 1.8e-47
                 Secretin   6 gkakvlstPklltldneeAeievgqevpvqvtsetgsstgatttatevefkevglsLkvtPqvte.dgsirlkidvevssiassqa 90 
                              + ++vl+tP++ltldn e+++e+g++vp +   et++++++++t+   + ++v lsLk+tPq+++    i+lkid+++++++++  
  PHY93_04405|PHY93_04405 582 SGTNVLATPQILTLDNVEGNFESGENVPTT---ETTNTPTGSQTS--SKLQKVTLSLKITPQINKaTRFIKLKIDQKIEDFSNRP- 661
                              5689**************************...333333333323..5689**************7778************9865. PP

                 Secretin  91 vtaegnsvptisrrelkttvrvkdgetlviGGliqdeeseseskvPlLgdiPllGaLFksttkskektellifitPriv 169
                               +a+++++  +  r+l ttv v+d +t+++GGl++d+e+++++kvPlLgdiP+lG+LFk+t+ks ek +ll+f+tP+i+
  PHY93_04405|PHY93_04405 662 LAASAGGGVGTVIRSLATTVVVRDKDTIAMGGLMRDKETNTVNKVPLLGDIPVLGWLFKNTEKSVEKVNLLFFMTPKIL 740
                              4567788899999****************************************************************97 PP

>> Secretin_N  Bacterial type II/III secretion system short domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.8   0.7       1.9   1.7e+04      31      41 ..      91     108 ..      71     116 .. 0.48
   2 !   30.1   0.0   5.2e-11   4.7e-07       1      80 [.     249     308 ..     249     310 .. 0.97
   3 !   36.6   0.9   5.1e-13   4.6e-09       2      79 ..     314     391 ..     313     392 .. 0.86
   4 !   60.0   0.0   2.4e-20   2.2e-16       2      82 .]     401     490 ..     400     490 .. 0.94
   5 ?   -1.3   0.0      0.34     3e+03      13      32 ..     769     809 ..     751     840 .. 0.67

  Alignments for each domain:
  == domain 1  score: -3.8 bits;  conditional E-value: 1.9
                              ...............SST CS
               Secretin_N  31 s.......sgassqsgal 41 
                              +       +++s++++++
  PHY93_04405|PHY93_04405  91 GgpddtadNSDSGGDASD 108
                              233343443333333333 PP

  == domain 2  score: 30.1 bits;  conditional E-value: 5.2e-11
                              EEEEE-SSS-HHHHHHHHHHHCCTT.............SSTT-TTSEEEEETTTTEEEEEECHHHHHHHHHHHHHHCTSS CS
               Secretin_N   1 vrvfpLkyasaadlasiLrellgggggesassgassqsgallgkggrvvadprtNsllvrgspervarirqlikqLDvpr 80 
                              ++++pLky++  ++a+  r ++                    +  gr++   +tN+++v+ +   ++r+++lik +D+p 
  PHY93_04405|PHY93_04405 249 MQIIPLKYVNSREVANSFRPFM--------------------SRYGRIIEIKQTNTVIVQETGTHINRLMKLIKFIDIPG 308
                              689*******************....................99*********************************996 PP

  == domain 3  score: 36.6 bits;  conditional E-value: 5.1e-13
                              EEEE-SSS-HHHHHHHHHHHCCTT.............SSTT-TTS.EEEEETTTTEEEEEECHHHHHHHHHHHHHHCTS CS
               Secretin_N   2 rvfpLkyasaadlasiLrellgggggesassgassqsgallgkgg.rvvadprtNsllvrgspervarirqlikqLDvp 79 
                              +++++k+ sa+++a +L ++l+g+++++   + ss++g+ ++ ++ r++a prtNs++  ++ +  +++r+li +LDv 
  PHY93_04405|PHY93_04405 314 QIIKVKNSSAQEIAGLLDKILKGNAADNK-FKTSSTTGQTSQVNIsRIIAEPRTNSIIAMANSDGARELRDLILKLDVK 391
                              789******************76665554.6777777777777777*******************************95 PP

  == domain 4  score: 60.0 bits;  conditional E-value: 2.4e-20
                              EEEE-SSS-HHHHHHHHHHHCCTT......................SSTT-TTSEEEEETTTTEEEEEECHHHHHHHHHHHHHHCT CS
               Secretin_N   2 rvfpLkyasaadlasiLrellgggggesas.........sgassqsgallgkggrvvadprtNsllvrgspervarirqlikqLDv 78 
                              +v++L+y + + la++L++l+g+ +++ +          +++++++ +l  + ++++ad ++N+l+v++sp ++++++++i++LD+
  PHY93_04405|PHY93_04405 401 HVYYLNYGDSEALAKTLSSLVGNVPKAGGLggltrfsspNSSTATTETLFNSEVKITADKDNNALVVTASPTDYDTVKTVIAKLDI 486
                              8********************776655555******************************************************** PP

                              SSSE CS
               Secretin_N  79 praq 82 
                              pr+q
  PHY93_04405|PHY93_04405 487 PRDQ 490
                              **98 PP

  == domain 5  score: -1.3 bits;  conditional E-value: 0.34
                              H..HHHHHHHHCCTT.......................... CS
               Secretin_N  13 d..lasiLrellgggggesas...................s 32 
                              d   a+++++l+++ +++ ++                    
  PHY93_04405|PHY93_04405 769 DdaFATTVKGLYDKAKKQGQGplydiaetakyqernqlpeA 809
                              45578999999988777776677766655555555444440 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (845 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       713  (0.039768); expected 358.6 (0.02)
Passed bias filter:                      471  (0.0262703); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.72u 0.26s 00:00:00.98 Elapsed: 00:00:00.43
# Mc/sec: 5882.59
//
Query:       PHY93_21430|PHY93_21430  [L=275]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    7.1e-07   28.9   1.8    1.7e-06   27.6   1.8    1.6  1  DUF553          Transglutaminase-like domain
    0.00019   21.3   0.0    0.00032   20.5   0.0    1.3  1  Peptidase_C93   Bacterial transglutaminase-like cysteine prot
     0.0018   18.1   0.0     0.0039   17.0   0.0    1.4  1  Acetyltransf_2  N-acetyltransferase
  ------ inclusion threshold ------
      0.057   13.9   0.0       0.12   12.9   0.0    1.5  1  Transglut_core  Transglutaminase-like superfamily


Domain annotation for each model (and alignments):
>> DUF553  Transglutaminase-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.6   1.8   3.8e-10   1.7e-06      15     127 ..      92     195 ..      77     211 .. 0.73

  Alignments for each domain:
  == domain 1  score: 27.6 bits;  conditional E-value: 3.8e-10
                   DUF553  15 sketiinvlewvdenikYdyekaevvetllvlWatfftlskvdskilklietpkeilktkkgiCrDYaiLTaalLlnlniskvylv 100
                              sk++i n+ +++++ni     k + ++      +++ +l k  ++ + l   ++e ++   g+Cr +a +T  +L + +is+ yl 
  PHY93_21430|PHY93_21430  92 SKDKIENITNFIAKNIL----KNKGYN-----GKEYLNLMKQYKDAG-LNIPLSEYIRISSGVCREHALITHYALKEAGISNSYLY 167
                              67788888888888875....333332.....234445555544544.44579*****************************9996 PP

                   DUF553 101 svtfenskvg.HaavavkidgtyfvlDq 127
                               +  +++ v  Ha  +v   ++ +++D 
  PHY93_21430|PHY93_21430 168 VTVQTQKGVEdHAINIVDYKDEKWIVDS 195
                              65544444447***************96 PP

>> Peptidase_C93  Bacterial transglutaminase-like cysteine proteinase BTLCP
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.5   0.0   7.2e-08   0.00032      74     131 ..     141     198 ..     130     204 .. 0.92

  Alignments for each domain:
  == domain 1  score: 20.5 bits;  conditional E-value: 7.2e-08
            Peptidase_C93  74 gaGdCedyallKrkeLieaGlpasallltvvrdekgegHavLtvrtdrGdlvLDNled 131
                              + G C ++al+ +  L eaG+++s l +tv +++  e Ha+ +v  ++   ++D  ++
  PHY93_21430|PHY93_21430 141 SSGVCREHALITHYALKEAGISNSYLYVTVQTQKGVEDHAINIVDYKDEKWIVDSYNK 198
                              6799***********************************************9998776 PP

>> Acetyltransf_2  N-acetyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.0   8.7e-07    0.0039      47     104 ..     143     195 ..     140     201 .. 0.94

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 8.7e-07
                              B-HHHHHHHHHHHHHHTT-EEEEEEEEEETTGGSSSSSSCEEEEEEEEETTEEEEE-S CS
           Acetyltransf_2  47 GyCyelNgLlarvLkelGFevtllagrvvvkaeeaastertHllllVtidgetylvDv 104
                              G C e+  + +++Lke G + + l  +v ++++ +     +H++++V+ ++e+++vD+
  PHY93_21430|PHY93_21430 143 GVCREHALITHYALKEAGISNSYLYVTVQTQKGVE-----DHAINIVDYKDEKWIVDS 195
                              89**********************99999888875.....*****************6 PP

>> Transglut_core  Transglutaminase-like superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   2.6e-05      0.12       1     108 [.      79     192 ..      79     201 .. 0.73

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 2.6e-05
           Transglut_core   1 ralaeeltagakdplekakaiyewvrknveys...........aprrtpgsrd..aeavletgkGncedfaslfvallRalGipaR 73 
                              r++a e+ +++ ++++k++ i ++++kn+  +            +++++++ +  +++ ++  +G+c+++a +   +l+ +Gi   
  PHY93_21430|PHY93_21430  79 REYAHEIKKSDLPSKDKIENITNFIAKNILKNkgyngkeylnlMKQYKDAGLNipLSEYIRISSGVCREHALITHYALKEAGISNS 164
                              578999988888888**********966555522225555544222222222256777777888*******************999 PP

           Transglut_core  74 vvtgylsgeeekeqsvasedaHawvevylegygWv 108
                              + + ++ ++       ++ + Ha + v  ++++W+
  PHY93_21430|PHY93_21430 165 YLYVTVQTQ-------KGVEDHAINIVDYKDEKWI 192
                              999988864.......5566677777777777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (275 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       517  (0.028836); expected 358.6 (0.02)
Passed bias filter:                      342  (0.0190752); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.53u 0.20s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 2007.13
//
Query:       PHY93_04410|PHY93_04410  [L=576]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    2.7e-77  259.5   6.4      4e-77  258.9   6.4    1.2  1  T2SSE      Type II/IV secretion system protein
    6.9e-19   68.1   0.2    2.1e-18   66.6   0.2    1.9  1  T2SSE_N    Type II secretion system (T2SS), protein E, N-term
     0.0029   18.0   0.0      0.009   16.4   0.0    1.9  2  AAA_16     AAA ATPase domain
  ------ inclusion threshold ------
      0.042   14.4   0.1       0.14   12.7   0.1    1.9  1  AAA_23     AAA domain
      0.058   13.2   0.0       0.11   12.3   0.0    1.4  1  AAA_11     AAA domain
      0.065   13.5   0.0       0.25   11.6   0.0    2.0  2  AAA_22     AAA domain
       0.07   13.1   0.0        0.2   11.7   0.0    1.7  1  ResIII     Type III restriction enzyme, res subunit
       0.14   11.6   0.2        1.4    8.4   0.0    2.4  2  RNA_pol_L  RNA polymerase Rpb3/Rpb11 dimerisation domain


Domain annotation for each model (and alignments):
>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  258.9   6.4   1.8e-80     4e-77       3     272 ..     197     463 ..     195     464 .. 0.97

  Alignments for each domain:
  == domain 1  score: 258.9 bits;  conditional E-value: 1.8e-80
                    T2SSE   3 illeallddekvsdihvekper.vkvrervdgielreveelekaalerlisriaalak.ldiseerplqdarlp....ekgvrlrv 82 
                              i+++a+  +e++sdih+e++e+ v+ r+r+++ ++re+ + + +  + ++sr+++++k +di+e+r++qd+r++    +k +++rv
  PHY93_04410|PHY93_04410 197 IIFRAI--KERASDIHIEPYEKdVVYRFRINR-VMREILRQPIKTQASVTSRLKVMTKsMDIAEKRLPQDGRIKikmaGKDIDIRV 279
                              778899..9*************9*********.99********************986379****************99******* PP

                    T2SSE  83 vllPvvagealviR..kksakeltlddlgaeealkekiaevlrkavrerglilvsGgTgsGKttllyallkeinksderivtvEDp 166
                              +++P+ +ge++v+R  +ks++ ltl++lg+++++ ++++e+ ++    +g++ vsG+Tg GKtt+l a+l  in+ d+ i+tvEDp
  PHY93_04410|PHY93_04410 280 SVVPIQNGERIVMRilEKSNNTLTLENLGFHGQTLKTLDELSKRK---HGVVYVSGPTGHGKTTTLFAMLDRINTPDKMIITVEDP 362
                              ***************************************998888...************************************** PP

                    T2SSE 167 vEiqleganqvqlnakkakvtfadllraaLRlrPDrimvGEiRdketlei.lkAvnTGHlgslsTlHansaagalerLeqlgaeve 251
                              vEi+l+g+ q+q+n+k  ++tfa++lr++LR++PD+imvGE Rd et+e+ ++A+ TGH + lsT+H+n+aa+a +rL ++g  v+
  PHY93_04410|PHY93_04410 363 VEIELAGISQIQVNHK-IDLTFARALRSILRQNPDVIMVGETRDLETAEMaIQASLTGHFV-LSTIHTNDAASAPNRLIDMG--VQ 444
                              ****************.********************************************.********************..** PP

                    T2SSE 252 aaelkssilavvdivvrlvrk 272
                              ++ ++ss++av  +++rl+r+
  PHY93_04410|PHY93_04410 445 PFLIASSLAAV--LAQRLIRT 463
                              ***********..*****997 PP

>> T2SSE_N  Type II secretion system (T2SS), protein E, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.6   0.2   9.4e-22   2.1e-18       1     106 [.      51     156 ..      22     159 .. 0.89

  Alignments for each domain:
  == domain 1  score: 66.6 bits;  conditional E-value: 9.4e-22
                  T2SSE_N   1 LveegllseeqlleaLaeqlglpf.ldldqleidpsllqllpleflrrygvlPlreedgkllvavvdPldlaaldelqrllgkkgv 85 
                              L+++ ++ ++++++++  q ++p+ +d++  eidp+l+ +++ +++++++vlPl e d +++v++ dP++ +a++++q +++k  v
  PHY93_04410|PHY93_04410  51 LLKKNYIHPHDIIKVICHQVDIPYiTDIKIDEIDPNLTLNININYAKQHEVLPLLETDYSITVVITDPFNFDAINDIQEIFKK-EV 135
                              4556677777777777777*****99*********************************************************.** PP

                  T2SSE_N  86 kpvlatksdidalldrlygse 106
                              k+v++++  ++++++r+y+ +
  PHY93_04410|PHY93_04410 136 KLVVCSPLKVQDAINRVYERA 156
                              ******************875 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0       3.8   8.4e+03      56      63 ..     164     171 ..     149     239 .. 0.51
   2 !   16.4   0.0     4e-06     0.009      15     121 ..     316     462 ..     311     486 .. 0.66

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 3.8
                   AAA_16  56 lrgkcdql 63 
                              ++g++d++
  PHY93_04410|PHY93_04410 164 IEGEFDEN 171
                              66666666 PP

  == domain 2  score: 16.4 bits;  conditional E-value: 4e-06
                   AAA_16  15 alervrsgrpelvllsGesGvGKsslvrellralekd.ggiflrgkcdqlesa....ipy.....salaqalareellrqllde.. 88 
                              +l+ +++   ++v++sG+ G GK++ + + l+++++  ++i + ++ ++ e a    i       +++a+al r ++lrq  d   
  PHY93_04410|PHY93_04410 316 TLDELSKRKHGVVYVSGPTGHGKTTTLFAMLDRINTPdKMIITVEDPVEIELAgisqIQVnhkidLTFARAL-R-SILRQNPDVim 399
                              456666666699***************888888888843555555555552222223222334434488888.6.88888888877 PP

                   AAA_16  89 .aesaeleawrekleeala.............................avpelagaeasrlle 121
                                e+++le +  +++++l+                             ++++la+ +a+rl +
  PHY93_04410|PHY93_04410 400 vGETRDLETAEMAIQASLTghfvlstihtndaasapnrlidmgvqpflIASSLAAVLAQRLIR 462
                              777778888888888877788888887766666655555555555555444555554444444 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   6.1e-05      0.14       2      38 ..     302     344 ..     301     346 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 6.1e-05
                   AAA_23   2 Lkienfrsf.rd.qeidF....skgltlItGpNGaGKTTildA 38 
                              L++en++ + +  +++d     ++g++ ++Gp+G GKTT l A
  PHY93_04410|PHY93_04410 302 LTLENLGFHgQTlKTLDElskrKHGVVYVSGPTGHGKTTTLFA 344
                              789999988433245633599899***************8855 PP

>> AAA_11  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   4.7e-05      0.11      17      73 ..     324     381 ..     311     476 .. 0.71

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 4.7e-05
                   AAA_11  17 se.itliqGPPGtgKTktivellsqllsrrkseeeksakpriLvCapSNaAvDeller 73 
                              ++ ++ ++GP G gKT+t+ ++l ++++  k   + + + +i +++ S   v++ ++ 
  PHY93_04410|PHY93_04410 324 KHgVVYVSGPTGHGKTTTLFAMLDRINTPDKMIITVEDPVEIELAGISQIQVNHKIDL 381
                              335899********************74433444455555555555555555554444 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00011      0.25       4      30 ..     324     350 ..     321     411 .. 0.78
   2 ?   -3.2   0.0       4.2   9.5e+03      31      63 ..     523     555 ..     509     571 .. 0.48

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00011
                   AAA_22   4 tagilvvtGesGtGKTtllrrlleqld 30 
                              ++g+++v G++G GKTt+l  +l++ +
  PHY93_04410|PHY93_04410 324 KHGVVYVSGPTGHGKTTTLFAMLDRIN 350
                              7899**************988888764 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 4.2
                   AAA_22  31 eeakaee.erpevv.fvtlpsstsskdllrellra 63 
                              +++ + +  ++++v ++ +++++  k+l+++ l++
  PHY93_04410|PHY93_04410 523 IRPLILKkSDASTVkKMAMKNGM--KSLRQDALEK 555
                              44444444445555455555555..3333333333 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   8.8e-05       0.2      14      50 ..     315     351 ..     290     366 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 8.8e-05
                              HHT......TTSEEEEEESTTSTHHHHHHHHHHHH-S CS
                   ResIII  14 nlleklkskrdkrglikmaTGtGKTlvaaklierllk 50 
                              ++l++l+++++  +++  +TG GKT +++++ +r+ +
  PHY93_04410|PHY93_04410 315 KTLDELSKRKHGVVYVSGPTGHGKTTTLFAMLDRINT 351
                              4556666344445669*************99998765 PP

>> RNA_pol_L  RNA polymerase Rpb3/Rpb11 dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.0       0.3   6.6e+02      37      56 ..     350     364 ..     291     374 .. 0.69
   2 ?    8.4   0.0   0.00062       1.4       6      31 ..     378     437 ..     375     552 .. 0.65

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.3
                              xxxxxxxxxxxxxxxxxxxx RF
                RNA_pol_L  37 tdkdklilevetdgslkPee 56 
                              + +dk+i++ve     +P e
  PHY93_04410|PHY93_04410 350 NTPDKMIITVE-----DPVE 364
                              5689******9.....5555 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.00062
                              xxxxxxxxxxxxxxxxxxxxxxxxx...................................x RF
                RNA_pol_L   6 gvdhtlgNaLRrillsevpgvaiea...................................p 31 
                              ++d+t++ aLR il  ++p+v +++                                    
  PHY93_04410|PHY93_04410 378 KIDLTFARALRSILR-QNPDVIMVGetrdletaemaiqasltghfvlstihtndaasapnR 437
                              78************9.99*999988666666555555555555555555544444444440 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (576 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       746  (0.0416086); expected 358.6 (0.02)
Passed bias filter:                      536  (0.0298957); expected 358.6 (0.02)
Passed Vit filter:                        60  (0.00334653); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.69u 0.22s 00:00:00.90 Elapsed: 00:00:00.43
# Mc/sec: 4033.57
//
Query:       PHY93_04415|PHY93_04415  [L=403]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.7e-56  189.6   3.8      9e-29  100.0   0.3    2.3  2  T2SSF           Type II secretion system (T2SS), protein F
     0.0011   19.4   7.7       0.08   13.3   0.2    3.2  3  DUF4199         Protein of unknown function (DUF4199)
  ------ inclusion threshold ------
      0.028   13.7   5.6      0.019   14.3   2.4    2.0  2  Peptidase_U4    Sporulation factor SpoIIGA
      0.079   13.2   0.1         10    6.4   0.0    2.4  2  Asparaginase_C  Glutaminase/Asparaginase C-terminal domain
       0.17   12.1   0.0       0.36   11.0   0.0    1.6  1  GST_C_3         Glutathione S-transferase, C-terminal domain


Domain annotation for each model (and alignments):
>> T2SSF  Type II secretion system (T2SS), protein F
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  100.0   0.3   2.5e-32     9e-29       2     125 .]      72     194 ..      71     194 .. 0.98
   2 !   90.8   0.3   1.7e-29   6.2e-26       1     125 []     274     396 ..     274     396 .. 0.99

  Alignments for each domain:
  == domain 1  score: 100.0 bits;  conditional E-value: 2.5e-32
                              HHHHHHHHHTT--HHHHHHHHHHHHSSHHHHHHHHHHHHHHHTTSSHHHHHCT-TT.TS-HHHHHHHHHHHHHT-HHHHHHHHHHH CS
                    T2SSF   2 lrqlatllsaGvplveaLellaeeaengplaeelkriarrlraGgslsealertpssefpelvvqlirageeggnLaevLerlaey 87 
                              +rqlatll+a + +vea+++l ++++n++l+  l++i++++++G+sl++al+ +p   f++++v+++ age++g+L+ vL +la++
  PHY93_04415|PHY93_04415  72 TRQLATLLRAKIQVVEAFSALVDQTDNPRLKITLSEIRQKVNEGSSLAKALSDYPK-IFDNVYVNMVDAGETSGTLEVVLLKLADF 156
                              79*****************************************************7.99*************************** PP

                              HHHHHHHHHHHHHHHHTTXXXXXXXXXXXXXXXXXXXX CS
                    T2SSF  88 leeerelrrkllaallepllllvvallvllillaillp 125
                               e +++lr+k++ a+++p+++++ ++++++i+++ ++p
  PHY93_04415|PHY93_04415 157 TESQLQLRNKIKGAMTYPVVMMLAGGFMIGIIFVLVIP 194
                              **********************************9998 PP

  == domain 2  score: 90.8 bits;  conditional E-value: 1.7e-29
                              HHHHHHHHHHTT--HHHHHHHHHHHHSSHHHHHHHHHHHHHHHTTSSHHHHHCT-TT.TS-HHHHHHHHHHHHHT-HHHHHHHHHH CS
                    T2SSF   1 flrqlatllsaGvplveaLellaeeaengplaeelkriarrlraGgslsealertpssefpelvvqlirageeggnLaevLerlae 86 
                              f+ +latll++Gvp++++++++++  +n  +++++++++  +++G+s+   l +++   fp +v+ +i +ge++g L+ +L+ ++e
  PHY93_04415|PHY93_04415 274 FCSTLATLLQSGVPILASMKIVSNLVSNVHMKRAVDEARISISEGSSITGPLIKSQ--LFPTMVTHMIKLGEKSGELEPMLKIVSE 357
                              89***************************************************987..89************************** PP

                              HHHHHHHHHHHHHHHHHTTXXXXXXXXXXXXXXXXXXXX CS
                    T2SSF  87 yleeerelrrkllaallepllllvvallvllillaillp 125
                              ++e++ +++   l++ lep++++v++++v++i++++++p
  PHY93_04415|PHY93_04415 358 NYEDQVNTKLSGLTSVLEPIMMIVMGIVVAFIVFSVVVP 396
                              *************************************98 PP

>> DUF4199  Protein of unknown function (DUF4199)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.1   0.3   0.00094       3.4     100     162 ..     129     193 ..     125     199 .. 0.60
   2 ?    0.8   0.2      0.16   5.6e+02      31      63 ..     220     249 ..     196     257 .. 0.61
   3 !   13.3   0.2   2.2e-05      0.08      95     162 ..     326     395 ..     322     398 .. 0.81

  Alignments for each domain:
  == domain 1  score: 8.1 bits;  conditional E-value: 0.00094
                  DUF4199 100 ienyiaeilekleeakeesae.eenaemseeeikeale...sls.piiv.alqsflgnliiGlilslii 162
                              ++n++ ++ +  e++ + +    + a  +e+++    +   +++ ++ + ++++++g ++iG+i+ l+i
  PHY93_04415|PHY93_04415 129 FDNVYVNMVDAGETSGTLEVVlLKLADFTESQL----QlrnKIKgAMTYpVVMMLAGGFMIGIIFVLVI 193
                              555555554444444444444444444444444....2222333567777***************9987 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.16
                  DUF4199  31 pllglla.llllllvpflvylalkkyrkknlgGf 63 
                              +ll + + +   +   + ++l++kky k++ +G 
  PHY93_04415|PHY93_04415 220 FLLHFWWaV---IGAGIAAVLFTKKYIKTE-KGR 249
                              223333322...222567888999887776.665 PP

  == domain 3  score: 13.3 bits;  conditional E-value: 2.2e-05
                  DUF4199  95 idpdfienyiaeilekleeakeesae.eenaemseeeikealeslspiiv.alqsflgnliiGlilslii 162
                              i  +++ ++++++++  e++ e + + + ++e++e++ + +l+ l+++   +++ ++g+++  +++s+++
  PHY93_04415|PHY93_04415 326 IKSQLFPTMVTHMIKLGEKSGELEPMlKIVSENYEDQVNTKLSGLTSVLEpIMMIVMGIVVAFIVFSVVV 395
                              6678999*********************************999888766645555555555566666665 PP

>> Peptidase_U4  Sporulation factor SpoIIGA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   2.4   5.3e-06     0.019      81     145 ..     162     251 ..     144     267 .. 0.74
   2 ?   -0.1   0.1      0.13   4.6e+02     115     137 ..     371     398 ..     333     402 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 5.3e-06
             Peptidase_U4  81 slkeflkalllfylvsfllgGilfalsyll...........lkskn....................llvlllgalvaylllkllvk 135
                              +l++ +k+ +++ +v +l+gG++++++++l           +   +                    ++ ++ ++++a+l++k   k
  PHY93_04415|PHY93_04415 162 QLRNKIKGAMTYPVVMMLAGGFMIGIIFVLvipkitkifvsM---KkelpiqteiciwisnfllhfWWAVIGAGIAAVLFTK---K 241
                              4678999*********************88766666665441...0566666677888888999978888888888888888...5 PP

             Peptidase_U4 136 iikkkkkkek 145
                              +ik++k +++
  PHY93_04415|PHY93_04415 242 YIKTEKGRSQ 251
                              5555444443 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.13
             Peptidase_U4 115 n.....llvlllgalvaylllkllvkii 137
                              +     ++++++g++va+++++++v +i
  PHY93_04415|PHY93_04415 371 TsvlepIMMIVMGIVVAFIVFSVVVPLI 398
                              0344448899999999999999887666 PP

>> Asparaginase_C  Glutaminase/Asparaginase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.4   0.0    0.0028        10      80     100 ..      17      37 ..       4      46 .. 0.83
   2 ?    4.6   0.0    0.0099        36      25      79 ..     253     312 ..     132     333 .. 0.83

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.0028
                              HTEEE-TT--HHHHHHHHHHH CS
           Asparaginase_C  80 lgvisaddmtpeaarikLmll 100
                               g isa++++p++ar+k m +
  PHY93_04415|PHY93_04415  17 KGSISAENLSPAKARVKAMGI 37 
                              577**************9965 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.0099
                              -EEEEEEBTTTB--H.....HHHHHHHHHHTTT-EEEEEESSSBS-----H.....HHHH CS
           Asparaginase_C  25 kGvvlegtGvGnlps.....allealkeakargivvvatsqcpsgsvsnseyeagkeler 79 
                              + +vl++  vG + +      +  +l+ + ++g+++ a+ + +s  vsn +++   +  r
  PHY93_04415|PHY93_04415 253 DTLVLKLPIVGEIVTmvnvsRFCSTLATLLQSGVPILASMKIVSNLVSNVHMKRAVDEAR 312
                              556666666666664455558999999**********************97754444444 PP

>> GST_C_3  Glutathione S-transferase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0    0.0001      0.36      40      94 ..      50     120 ..      28     128 .. 0.65

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.0001
                              HHCHGTSSSSTTS--HHHHHHHH.HHHHHHHH..TCCCC-HHHH.............HHHHHHHTSHHHHH CS
                  GST_C_3  40 lkkkgggylvgdklTyADlalfq.vldgleea..ealkkfpklk.............alyervearpkika 94 
                              +kk++ g+ +g+++++ADl+l++  l +l +a  +  ++f  l              + +++v++  ++++
  PHY93_04415|PHY93_04415  50 MKKNAAGFSFGGSVSIADLSLMTrQLATLLRAkiQVVEAFSALVdqtdnprlkitlsEIRQKVNEGSSLAK 120
                              4568889************9986456666666552225554443333333333555566666666665555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (403 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1085  (0.0605165); expected 358.6 (0.02)
Passed bias filter:                      571  (0.0318478); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.60u 0.24s 00:00:00.84 Elapsed: 00:00:00.42
# Mc/sec: 2869.62
//
Query:       PHY93_04420|PHY93_04420  [L=182]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.7e-28   96.4   0.0    1.4e-27   95.9   0.0    1.2  1  T2SSG     Type II secretion system (T2SS), protein G
    1.5e-07   30.7   0.9    2.4e-07   30.0   0.9    1.4  1  N_methyl  Prokaryotic N-terminal methylation motif


Domain annotation for each model (and alignments):
>> T2SSG  Type II secretion system (T2SS), protein G
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   95.9   0.0   1.5e-31   1.4e-27       2     106 ..      40     146 ..      39     148 .. 0.96

  Alignments for each domain:
  == domain 1  score: 95.9 bits;  conditional E-value: 1.5e-31
                              X--STTHHHHHHHHHHHHHHHHHHHHHHHHTSS---TTHHHHHHHS--SS-..SS--.STTT-..-S----STT---EEE---SSS CS
                    T2SSG   2 vlgqldkakvkkakaqikslekaldlYkldvgryPtteqgLeaLvekpsge..pknw.egpYl.kkklpkDpWgnpyvyrspgehg 83 
                              ++++ ++++v++ak+q+++l   l+ ++ +++ yPtteqgLeaLv+kpsg    k++ +++++  +++pkDpW++++ y+s+g  +
  PHY93_04420|PHY93_04420  40 LFEKYHEGQVSSAKIQMSNLDGLLKEFRRKCNFYPTTEQGLEALVTKPSGGreCKEYpQNGFVeGNQVPKDPWDHDFIYESDG--K 123
                              788999*******************************************998889999*****99******************..6 PP

                              S-EEEE--TTS---SSSSSS-EE CS
                    T2SSG  84 efdllslGadgqeggegedadig 106
                              ++++ slG+dg+ gg+g+dadi 
  PHY93_04420|PHY93_04420 124 TYNISSLGTDGEVGGTGTDADIY 146
                              8********************96 PP

>> N_methyl  Prokaryotic N-terminal methylation motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.0   0.9   2.7e-11   2.4e-07       3      26 ..      13      36 ..      11      37 .. 0.89

  Alignments for each domain:
  == domain 1  score: 30.0 bits;  conditional E-value: 2.7e-11
                 N_methyl  3 kqrGFTLiElLvalaIlaillaaa 26
                             +q+GFTLiE+L++l+++a++ + +
  PHY93_04420|PHY93_04420 13 NQKGFTLIEILISLTLIALAGTFV 36
                             9*****************987765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (182 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       393  (0.0219198); expected 358.6 (0.02)
Passed bias filter:                      349  (0.0194657); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.20s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1382.20
//
Query:       PHY93_04425|PHY93_04425  [L=232]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.3e-07   30.1   0.8    4.2e-07   29.3   0.8    1.4  1  N_methyl  Prokaryotic N-terminal methylation motif
  ------ inclusion threshold ------
      0.026   14.4   1.3      0.026   14.4   1.3    1.7  2  Cauli_AT  Aphid transmission protein


Domain annotation for each model (and alignments):
>> N_methyl  Prokaryotic N-terminal methylation motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.3   0.8   4.6e-11   4.2e-07       2      26 ..      14      38 ..      13      39 .. 0.92

  Alignments for each domain:
  == domain 1  score: 29.3 bits;  conditional E-value: 4.6e-11
                 N_methyl  2 rkqrGFTLiElLvalaIlaillaaa 26
                             ++++GFTLiE+Lval+++ ++++ +
  PHY93_04425|PHY93_04425 14 NNNQGFTLIEILVALLLIVVVVSSV 38
                             799******************9876 PP

>> Cauli_AT  Aphid transmission protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   1.3   2.9e-06     0.026      58     135 ..      68     147 ..      43     159 .. 0.79
   2 ?   -2.2   0.2      0.39   3.5e+03     109     154 ..     212     226 ..     184     232 .] 0.51

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 2.9e-06
                 Cauli_AT  58 lLklskllsylGLekDesealsksksPfgsvfkklkkifk...eggedkekktklletLkeaqnrikkleeetkklaekiv 135
                               Lk + +  ++ L+k++ e +s +  P +s+   +k  f+   e+ e++ekk k+l+ L+   n+i + +e++ +l+++i+
  PHY93_04425|PHY93_04425  68 ALKNAVIRLHFMLNKEPQE-YSLEYGPSDSFILPPKPEFEtkvETKEEEEKKKKELKNLNLKFNKIAEFQEKNSELPDDIK 147
                              577777888999*****99.*************99999982223444555556666666666789***********99875 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 0.39
                 Cauli_AT 109 lletLkeaqnrikkleeetkklaekivtekllkeevkdlderlsei 154
                              +                               ke + + +e+ sei
  PHY93_04425|PHY93_04425 212 E-------------------------------KELIEKQQEKASEI 226
                              2...............................23333333333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (232 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1674  (0.0933683); expected 358.6 (0.02)
Passed bias filter:                      711  (0.0396564); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.41
# Mc/sec: 1685.85
//
Query:       PHY93_04430|PHY93_04430  [L=178]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.4e-08   32.1   1.8      8e-08   31.5   1.8    1.3  1  N_methyl  Prokaryotic N-terminal methylation motif
  ------ inclusion threshold ------
      0.013   13.6   6.5      0.019   13.1   6.5    1.2  1  Patched   Patched family
       0.14   12.3   0.2       0.35   11.0   0.0    1.7  2  DUF2794   Protein of unknown function (DUF2794)


Domain annotation for each model (and alignments):
>> N_methyl  Prokaryotic N-terminal methylation motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.5   1.8   1.3e-11     8e-08       2      25 ..      13      36 ..      12      38 .. 0.91

  Alignments for each domain:
  == domain 1  score: 31.5 bits;  conditional E-value: 1.3e-11
                 N_methyl  2 rkqrGFTLiElLvalaIlaillaa 25
                             ++q+GFTL E+++a+aI+++++++
  PHY93_04430|PHY93_04430 13 SSQNGFTLMEVMIAIAIFTVFASV 36
                             68******************9986 PP

>> Patched  Patched family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   6.5   3.1e-06     0.019     484     606 ..      45     168 ..      18     173 .. 0.80

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 3.1e-06
                  Patched 484 lvevlkliekeiwkeglqvev..vvnNppdltikesrdrleelveefentpyalgkkstkfwlreyekflkqseleveeledeeee 567
                              l+++ kl e+ ++k  ++ ++  ++ Npp+l+ + +  +  + ve  +nt y    ++ kf++ +++k   +  le + +ed  + 
  PHY93_04430|PHY93_04430  45 LLDSSKLKEELLMKDFAENKIneIIVNPPELRDALTLSKETKDVE--ANTDYQTTVEFKKFFVPDMNKMTANDSLEGKDKEDSPQA 128
                              56666666666666665544433788******9988887666666..4888999999***********888877888888887765 PP

                  Patched 568 w.skeelesflkaaenslwkkdlvwdnesdeettelkkfr 606
                                 k+  + f +  e+  w+ ++ ++n+s+++t +l+ ++
  PHY93_04430|PHY93_04430 129 QmEKRIFKVFKENMEKMIWQVEVTVKNKSNDSTFRLSTWL 168
                              547888899999999999****************999876 PP

>> DUF2794  Protein of unknown function (DUF2794)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       1.1   6.3e+03      31      41 ..      23      33 ..      20      41 .. 0.78
   2 ?   11.0   0.0   5.9e-05      0.35      33      67 ..     130     164 ..     118     167 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 1.1
                  DUF2794 31 llrdvavFsvF 41
                             ++  +a+F vF
  PHY93_04430|PHY93_04430 23 VMIAIAIFTVF 33
                             55678999998 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 5.9e-05
                  DUF2794  33 rdvavFsvFrraaeiplYriekdpalarrqgayav 67 
                               ++ +F+vF++++e+ ++++e++ + ++ ++++ +
  PHY93_04430|PHY93_04430 130 MEKRIFKVFKENMEKMIWQVEVTVKNKSNDSTFRL 164
                              67789********************9999988875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (178 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1231  (0.0686597); expected 358.6 (0.02)
Passed bias filter:                      521  (0.0290591); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.50u 0.24s 00:00:00.74 Elapsed: 00:00:00.42
# Mc/sec: 1274.91
//
Query:       PHY93_04435|PHY93_04435  [L=287]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.4e-08   34.0   0.4      2e-08   33.4   0.4    1.3  1  N_methyl         Prokaryotic N-terminal methylation motif
     0.0015   18.7   0.1     0.0024   18.1   0.1    1.5  1  T2SSJ            Type II secretion system (T2SS), protein J
  ------ inclusion threshold ------
       0.18   10.9   2.8       0.23   10.6   2.8    1.2  1  ABC2_membrane_3  ABC-2 family transporter protein
        0.3   11.4   3.3       0.15   12.3   0.5    2.0  2  DBP10CT          DBP10CT (NUC160) domain


Domain annotation for each model (and alignments):
>> N_methyl  Prokaryotic N-terminal methylation motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.4   0.4   4.5e-12     2e-08       2      24 ..       6      28 ..       5      31 .. 0.91

  Alignments for each domain:
  == domain 1  score: 33.4 bits;  conditional E-value: 4.5e-12
                 N_methyl  2 rkqrGFTLiElLvalaIlailla 24
                             ++++GFTLiE+L+a++Ila +++
  PHY93_04435|PHY93_04435  6 KNSSGFTLIEVLIAIVILAFISL 28
                             899****************9987 PP

>> T2SSJ  Type II secretion system (T2SS), protein J
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.1   5.4e-07    0.0024      27     103 ..     110     207 ..      61     241 .. 0.80

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 5.4e-07
                              TGCCTTCEEEEEEEEEEE-TTTEECSCEEEEEEEEEE..................TTEEEEEEECCC...TTCCGCB-EEEEEESS CS
                    T2SSJ  27 dkedseqdeLeftRaGwanpeglaprselqrVgYrle..................egrLeRltwpvl...DrasdtepqeqvlLeg 91 
                              + +++++ +L f +a+++   + +++s  + V+Y ++                  e++L R t  +    +  + ++ + qvlL++
  PHY93_04435|PHY93_04435 110 QFQSEDKSTLIFFTASNRRKIADSKESRYTWVKYSVRrtdttqeekddrnlntigENELIRQTIATNiygNDLNWSDVKSQVLLTQ 195
                              566788899999999999999999**********99999****************99****99975311144444589999***** PP

                              EEEEEEEEE-TT CS
                    T2SSJ  92 veelelrfldqd 103
                              v+++e+ f+d++
  PHY93_04435|PHY93_04435 196 VKSVEFSFWDER 207
                              **********98 PP

>> ABC2_membrane_3  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   2.8     5e-05      0.23       3     121 ..      12     178 ..      10     256 .. 0.64

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 5e-05
          ABC2_membrane_3   3 fliitlllPiilvlllglifsnsveddentpiavvdedn................sslsqqlvealeaspsvelvyevdseeeakk 72 
                              +l i++l+ i++++++ l  +    + ++t+ +v+ ed+                 + ++ l ++ + +p ++  +++ + +   k
  PHY93_04435|PHY93_04435  12 TL-IEVLIAIVILAFISLYTYKMIDTNTDTKDRVLKEDHlllqtltavsridsdiNQIYSPLFSYAKGNPATD-ANSLYQDNASSK 95 
                              44.9999999999999999985554444444467777776666666666666677788888889999999999.555555555566 PP

          ABC2_membrane_3  73 alkngdidgilvipkgfskdll..................................kgesatvtvlinssnlnsskailnaln 121
                               l +g++   ++ip+  s+d +                                  + e ++ ++ + ++n ++ ++i+ +++
  PHY93_04435|PHY93_04435  96 GLFDGKAKNGMIIPQFQSEDKStlifftasnrrkiadskesrytwvkysvrrtdttQEEKDDRNLNTIGENELIRQTIATNIY 178
                              888899999999**999988767777777777777777655555555544444444333333333333333333333333333 PP

>> DBP10CT  DBP10CT (NUC160) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.1      0.99   4.4e+03      23      30 ..     133     142 ..     123     171 .. 0.58
   2 ?   12.3   0.5   3.4e-05      0.15      19      43 ..     202     226 ..     181     249 .. 0.75

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.99
                  DBP10CT  23 kKkkky..Vk 30 
                              +K+ +y  Vk
  PHY93_04435|PHY93_04435 133 SKESRYtwVK 142
                              4444443322 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 3.4e-05
                  DBP10CT  19 lrWDkKkkkyVkrtnkdedgsk.kir 43 
                                WD++ kk+V++ + d +++k  ir
  PHY93_04435|PHY93_04435 202 SFWDERAKKFVSSIQ-DLNENKnSIR 226
                              45**********988.7766654343 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (287 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       932  (0.0519828); expected 358.6 (0.02)
Passed bias filter:                      478  (0.0266607); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 2122.86
//
Query:       PHY93_04440|PHY93_04440  [L=469]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (469 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       705  (0.0393218); expected 358.6 (0.02)
Passed bias filter:                      513  (0.0286129); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.60u 0.24s 00:00:00.84 Elapsed: 00:00:00.42
# Mc/sec: 3367.91
//
Query:       PHY93_04445|PHY93_04445  [L=524]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.2e-11   44.2   0.4    2.9e-10   39.7   0.4    2.6  1  PilM_2    Type IV pilus assembly protein PilM;
     0.0023   18.3   0.0     0.0056   17.1   0.0    1.7  1  FtsA      Cell division protein FtsA
     0.0095   15.3   0.0      0.021   14.2   0.0    1.5  1  T2SSL     Type II secretion system (T2SS), protein L


Domain annotation for each model (and alignments):
>> PilM_2  Type IV pilus assembly protein PilM;
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.7   0.4   4.9e-14   2.9e-10       2     321 ..       6     324 ..       5     332 .. 0.82

  Alignments for each domain:
  == domain 1  score: 39.7 bits;  conditional E-value: 4.9e-14
                   PilM_2   2 iDissssvklvelsk.kkgslrvealaieplekdavvdreikdieavsealkrvvkklktrvkevaiavpgsavitkkialdadLt 86 
                              iD++s+s+k ve+   +k+ + ve++ i+  e+ a    +  ++ ++++ +   + + k+   +++  vp+++  t+  +++ + +
  PHY93_04445|PHY93_04445   6 IDVGSYSIKFVEVRPeRKNLILVEKHEIILDEAKA-HYPNALNLADLQKEVVAGYIQKKSGDLKIIFQVPNEMLTTRYLEIPGT-S 89 
                              9*************945555566776666555555.444555555555444444445556667899****************76.7 PP

                   PilM_2  87 eeeleaqveleadqliPfpldevslDFevlgpsaekpdkvevllaAarkekvedrvalleaaglkakvvDvesyAleraleliasq 172
                               +  e  +  ++d+ +P++l    +         ++++  +vl   ++    ++    +e+ + ++ v+  e  ++++       +
  PHY93_04445|PHY93_04445  90 KRKTEQIIPFQLDENLPYSLGHAHFSS----RLYKRSGGFSVLSNITQLSVFKEFFGFFENKDAQPSVLTSEISTMQA-------Y 164
                              7889999**************998865....5567888899*************************998877777766.......5 PP

                   PilM_2 173 lpdkgkekvvaivdigasrttlsvlrdgkivYtreqafGgeqltqeivrrYglsleeaekkkrsgs..lPedyeeev......lep 250
                              +++   + + +i+d+g+++t+  +++d +iv + +    g+++ + i+++Y++s+e+a   k ++   l ++  eev      +++
  PHY93_04445|PHY93_04445 165 VDHIRMNDTCCILDLGHKTTKAYFVQDRQIVSNHTSFVAGSAISEVISKTYQISHEDAVIYKHENAflLTDEQLEEVsaeqreFAL 250
                              555567889*****************************************************998733466665666332223667 PP

                   PilM_2 251 flealaqeisralqffltssqqn...kvdkilLaGGtaslpgleelleeelgisttvanpfaemelsekvrakk 321
                               ++++   +  +++ +    + +    +dki+L GGt++++ le+  + ++g++++ + p+ +++ ++++++k+
  PHY93_04445|PHY93_04445 251 LMKQVFSPLILDIKRWEIGHRVKfgtGIDKIYLLGGTSQINSLENFFHFHTGLTIQSLPPLLDFKNDSSIHEKT 324
                              777777788899999998887765559**************************************999998875 PP

>> FtsA  Cell division protein FtsA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.0   9.4e-07    0.0056       1      82 [.     175     297 ..     175     329 .. 0.82

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 9.4e-07
                              EEEEE-SSSEEEEEEETTEEEEEEEES--HHHHHHHHHHHHT--HHHHHHHHHHH--S--EEEEEHHHHH................ CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx................ RF
                     FtsA   1 alvDiGagktdvavaedgalvhlrvigvggngitkdiakalrtaveeAerikikyGsalaekeigrkels................ 70 
                              +++D+G+ +t++  ++d ++v  ++  v+g+ i++ i+k ++++ e+A   k++ + +l ++++++   s                
  PHY93_04445|PHY93_04445 175 CILDLGHKTTKAYFVQDRQIVSNHTSFVAGSAISEVISKTYQISHEDAVIYKHENAFLLTDEQLEEV--Saeqrefallmkqvfsp 258
                              689*******************999999************************877777775554432..23355566777788888 PP

                              ...........................GGGGSTTHHHHH CS
                              ...........................xxxxxxxxxxxx RF
                     FtsA  71 ...........................ggsalpnleela 82 
                                                         g+s+++ le+++
  PHY93_04445|PHY93_04445 259 lildikrweighrvkfgtgidkiyllgGTSQINSLENFF 297
                              888888888888888999999999999999998888776 PP

>> T2SSL  Type II secretion system (T2SS), protein L
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.2   0.0   3.5e-06     0.021      43      94 ..      63     114 ..      44     127 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 3.5e-06
                              HHTTSEEEEEE-GGGSEEEEEE--TT-GGGHHHHHHHHHGGGSSSSGGGEEE CS
                    T2SSL  43 ypaadrvvlllPaedvllvsvslPpqalrqlrqaLpflvEdqlaqDvdqlHi 94 
                                +  ++   +P e ++ + +++P  + r+++q++pf + ++l+      H+
  PHY93_04445|PHY93_04445  63 KSGDLKIIFQVPNEMLTTRYLEIPGTSKRKTEQIIPFQLDENLPYSLGHAHF 114
                              55555667779********************************999998888 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (524 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       811  (0.045234); expected 358.6 (0.02)
Passed bias filter:                      531  (0.0296168); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.66u 0.24s 00:00:00.90 Elapsed: 00:00:00.43
# Mc/sec: 3701.09
//
Query:       PHY93_04450|PHY93_04450  [L=206]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
      0.078   12.5   0.0       0.11   12.1   0.0    1.3  1  DUF1974         Domain of unknown function (DUF1974)
       0.28   11.7   4.1        1.1    9.8   0.2    3.1  3  EF-G-binding_N  Elongation factor G-binding protein, N-termin


Domain annotation for each model (and alignments):
>> DUF1974  Domain of unknown function (DUF1974)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   1.2e-05      0.11     163     254 ..      60     153 ..      33     180 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 1.2e-05
                  DUF1974 163 lrllvfplgrrakkpsDklkhevaelllepseardrLta..gvylpedeedplgrlekafkavlaaeplekklkkaikkgklkklk 246
                              l ++++++g++ ++ ++++k+++ e++ + +  rd L +   +yl     +  + l++ ++++++a+++e++  +  +  ++++++
  PHY93_04450|PHY93_04450  60 LFVMTLWWGNHKNHVNHEVKSQILEQISTLNGNRDALANvsSTYLAPVAIQGPEDLDNKIRNLMSANNIEQTKVHVLNFTQVSTTS 145
                              568999*******************************986689999999999****************999877776666666666 PP

                  DUF1974 247 leelleea 254
                                +++e+ 
  PHY93_04450|PHY93_04450 146 SIAKIETT 153
                              66666555 PP

>> EF-G-binding_N  Elongation factor G-binding protein, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.2   0.00013       1.1      39      62 ..      29      52 ..      23      54 .. 0.90
   2 ?    0.8   0.0     0.082   7.4e+02      50      65 ..      77      93 ..      70     103 .. 0.69
   3 ?   -0.1   0.2      0.15   1.4e+03      39      71 ..     117     150 ..     113     159 .. 0.53

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00013
           EF-G-binding_N 39 ekIlelfpelseeqkelLeqiddi 62
                             +kI+el++ l eeq+++++q+ + 
  PHY93_04450|PHY93_04450 29 QKINELLTGLDEEQQKFIAQLLTF 52
                             79******************9886 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.082
           EF-G-binding_N 50 eeqkelLeqiddik.tk 65
                             e + ++Leqi++ + ++
  PHY93_04450|PHY93_04450 77 EVKSQILEQISTLNgNR 93
                             44578888888888544 PP

  == domain 3  score: -0.1 bits;  conditional E-value: 0.15
           EF-G-binding_N  39 ekIlelfpelseeq.kelLeqiddiktkekaekl 71 
                              +kI++l++  + eq k  + ++++++t++ + k+
  PHY93_04450|PHY93_04450 117 NKIRNLMSANNIEQtKVHVLNFTQVSTTSSIAKI 150
                              6777776666666632222255555544444443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (206 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1261  (0.070333); expected 358.6 (0.02)
Passed bias filter:                      604  (0.0336884); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 1549.78
//
Query:       PHY93_04455|PHY93_04455  [L=307]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
      0.087   12.8   0.0       0.17   11.9   0.0    1.5  1  DUF3185         Protein of unknown function (DUF3185)
       0.18   11.1   0.0       0.28   10.5   0.0    1.2  1  Ribul_P_3_epim  Ribulose-phosphate 3 epimerase family


Domain annotation for each model (and alignments):
>> DUF3185  Protein of unknown function (DUF3185)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   1.9e-05      0.17       7      32 ..      26      51 ..      24      61 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 1.9e-05
                  DUF3185  7 LlvaGivLlvfGynasdSlgsqvsea 32
                             L++ Gi+LlvfG+    Sl++++ + 
  PHY93_04455|PHY93_04455 26 LIITGIALLVFGFLFNFSLEEKINKW 51
                             9********************99875 PP

>> Ribul_P_3_epim  Ribulose-phosphate 3 epimerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   3.1e-05      0.28       6      72 ..     189     256 ..     186     271 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 3.1e-05
                              GGGS-GGGHHHHHHHHHHTT-SEEEEEEEBSSSSS-B-B-HHHHHHHGGG..E-S-EEEEEESSSHHHC CS
           Ribul_P_3_epim   6 llsadfarlgeevkaveeagadllHvDvmDghfvpNltigplvvealrkl..telpldvHLmveevdri 72 
                              + s df   ++++k +e + +dl H+D+   hf + +t+++ ++e  r+   +el+l   L++++ + i
  PHY93_04455|PHY93_04455 189 ITSNDFRLPAQNIKGFEMTLLDLKHLDIRT-HFTNKTTMQIDHIEIGRPGspIELKLKGNLLINPTSFI 256
                              679999999*******************98.*************9888874445555556777666555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (307 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       475  (0.0264934); expected 358.6 (0.02)
Passed bias filter:                      426  (0.0237604); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.22s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 2244.14
//
Query:       PHY93_05330|PHY93_05330  [L=259]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (259 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       560  (0.0312343); expected 358.6 (0.02)
Passed bias filter:                      451  (0.0251548); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.21s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 1949.94
//
Query:       PHY93_21435|PHY93_21435  [L=81]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.6e-05   22.3   0.6    0.00015   21.2   0.6    1.7  1  N_methyl  Prokaryotic N-terminal methylation motif


Domain annotation for each model (and alignments):
>> N_methyl  Prokaryotic N-terminal methylation motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.2   0.6   8.2e-09   0.00015       1      20 [.      27      46 ..      27      53 .. 0.89

  Alignments for each domain:
  == domain 1  score: 21.2 bits;  conditional E-value: 8.2e-09
                 N_methyl  1 mrkqrGFTLiElLvalaIla 20
                             ++ +rGF+L+El++++ +l+
  PHY93_21435|PHY93_21435 27 KKDNRGFSLVELIIVFGLLG 46
                             5789***********99987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (81 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       681  (0.0379832); expected 358.6 (0.02)
Passed bias filter:                      462  (0.0257683); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 613.08
//
Query:       PHY93_04460|PHY93_04460  [L=308]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.8e-38  131.4   0.0    4.1e-38  130.9   0.0    1.2  1  polyprenyl_synt  Polyprenyl synthetase


Domain annotation for each model (and alignments):
>> polyprenyl_synt  Polyprenyl synthetase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  130.9   0.0   2.3e-42   4.1e-38       4     197 ..      23     223 ..      20     231 .. 0.89

  Alignments for each domain:
  == domain 1  score: 130.9 bits;  conditional E-value: 2.3e-42
                              HHHHHHHHHHSSS--HHHHHHHHHHHHHSCG.......HHHHHHHHHHHHHHHHHHHHHHHHHHH..HTT-SEETTEE-HHHCTCH CS
          polyprenyl_synt   4 leealeylveagGKrlRpllvllaaealkee.......eeelekaavlawivellhaasLvhDDi..mDdsetRRGqpcahrlvGn 80 
                               +e++ey + +gGK +Rp lv  +   l  +       +++ + +a la +ve+ h+++L+hDD+  mDd+++RRG+pc h ++G+
  PHY93_04460|PHY93_04460  23 TREVYEYATLPGGKLFRPSLVWSTLSDLD-PvlyskslQNRNSPHALLASAVEFHHSYTLIHDDLpcMDDDTIRRGKPCTHLVYGE 107
                              67899************************.334456674556779***************************************** PP

                              HHHHHHHHHHHHHHHHHHHHHH.STTHHHHHHHHHHHH..HHHHHHHHHHHHTTTTTCCC.SHHHHHHHHHHHTHHHCHHHHHHHH CS
          polyprenyl_synt  81 klAindgdfllarafellaklf.ekslellelfsevll..qtveGqlldleeekdddlskfsleeyleivkyKTaylfalpvalaa 163
                               +A+++gd ll+++++ll+k   e+ le+++ fs +l    +++Gq+ldl+ee    ++ +s+e+ l+ ++ KTa l+ +++   a
  PHY93_04460|PHY93_04460 108 WQALLAGDGLLNLSYQLLSKSKhERALEVIRFFSWALGpkGLIQGQVLDLSEE----MT-KSFENTLRTHELKTARLIQVAILGSA 188
                              ********************985555***********9889*********555....33.4699*****************98888 PP

                              HHTTHHH.HHHHHHHHHHHHHHHHHHHHHHHHHHH CS
          polyprenyl_synt 164 llagasd.eelealkdiglelGlaFQiqDDylDlf 197
                              + +  ++ +  ++l ++ + lG+ FQ++DD+  l+
  PHY93_04460|PHY93_04460 189 MQTTLKNtKREKSLWKFSKLLGINFQLIDDLSELS 223
                              88887764778*******************98876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (308 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       628  (0.0350271); expected 358.6 (0.02)
Passed bias filter:                      399  (0.0222544); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 2318.72
//
Query:       PHY93_04465|PHY93_04465  [L=159]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.5e-11   44.2   0.0    2.5e-11   43.5   0.0    1.4  1  MerR_1    MerR HTH family regulatory protein
    0.00013   21.6   0.0     0.0002   21.0   0.0    1.4  1  MerR      MerR family regulatory protein


Domain annotation for each model (and alignments):
>> MerR_1  MerR HTH family regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.5   0.0   2.8e-15   2.5e-11       1      61 [.      13      75 ..      13      81 .. 0.93

  Alignments for each domain:
  == domain 1  score: 43.5 bits;  conditional E-value: 2.8e-15
                             EEHHHHHHHHTS-HHHHHHHHHHTT.-S-EE-TTS-EEEEHHHHHHHHHHHHHHH.TT--GGG CS
                   MerR_1  1 ysigevakilgvtthtlrywekegl.lkpkrteggrryYtdedierLklikyLlk.rGltlkg 61
                             ++i+ev+ ++gv++++lr+we e+  + p  ++ g  +Y ++die + lik+Ll    l+++ 
  PHY93_04465|PHY93_04465 13 FKINEVCALTGVKSYVLRFWESEFTeIAPLMSSAGLKLYEHRDIEAILLIKKLLFdDKLSIER 75
                             58***************************************************9888888876 PP

>> MerR  MerR family regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.0   0.0   2.3e-08    0.0002       1      29 [.      14      42 ..      14      51 .. 0.81

  Alignments for each domain:
  == domain 1  score: 21.0 bits;  conditional E-value: 2.3e-08
                             EHHHHHHHHTTTHHHHHHHHHT.TSSTSEE CS
                     MerR  1 tIgevAeltGvsprtLRyYEre.GLipppe 29
                             +I+ev+ ltGv +  LR++E+e   i +p 
  PHY93_04465|PHY93_04465 14 KINEVCALTGVKSYVLRFWESEfTEI-APL 42
                             69******************985566.555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (159 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       418  (0.0233142); expected 358.6 (0.02)
Passed bias filter:                      305  (0.0170115); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.21s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 1202.03
//
Query:       PHY93_04470|PHY93_04470  [L=88]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.5e-30  103.7   0.3      5e-30  103.6   0.3    1.0  1  Bac_DNA_binding  Bacterial DNA-binding protein
    1.8e-06   28.1   0.1      2e-06   27.9   0.1    1.0  1  HU-HIG           HU domain fused to wHTH, Ig, or Glycine-rich
    9.8e-05   22.4   0.0    0.00013   22.0   0.0    1.3  1  HU-CCDC81_euk_2  CCDC81 eukaryotic HU domain 2
    0.00077   19.3   0.0     0.0014   18.4   0.0    1.4  2  HU-CCDC81_bac_2  CCDC81-like prokaryotic HU domain 2
     0.0014   18.9   0.0     0.0021   18.3   0.0    1.2  1  DUF2267          Uncharacterized conserved protein (DUF2267)
  ------ inclusion threshold ------
      0.033   14.2   0.1      0.043   13.8   0.1    1.2  1  HU-DNA_bdg       DNA-binding domain
      0.087   13.0   0.0      0.095   12.9   0.0    1.2  1  HU-CCDC81_euk_1  CCDC81 eukaryotic HU domain 1


Domain annotation for each model (and alignments):
>> Bac_DNA_binding  Bacterial DNA-binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  103.6   0.3   1.9e-33     5e-30       1      86 [.       3      88 .]       3      88 .] 0.99

  Alignments for each domain:
  == domain 1  score: 103.6 bits;  conditional E-value: 1.9e-33
                             EEHHHHHHHHHTT----HHHHHHHHHHHHHHHHHHHHTT-EEEETTTEEEEEEEE--BS-B-TTT--B--B--EEEEEEEE-HHHH CS
          Bac_DNA_binding  1 mtkkeLieeiaektgltkkdakrvveafldtikeaLkkgekvelsgFGtfkvkerkartgrnpkTgekvkiparkvvkFkpskelk 86
                             +tk++++e++++++g++kk+a+++v+ ++++ik++L+kgekv++sgFG+f++++++ r grnp+Tg+++ i+ar+v++Fkps+ lk
  PHY93_04470|PHY93_04470  3 LTKADIVERVYKEAGFSKKEAADLVDLVFKVIKDTLSKGEKVKISGFGNFSIRDKATRVGRNPQTGDAMDISARRVLTFKPSQVLK 88
                             69********************************************************************************9997 PP

>> HU-HIG  HU domain fused to wHTH, Ig, or Glycine-rich motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.9   0.1     8e-10     2e-06      34     114 ..       5      87 ..       2      88 .] 0.89

  Alignments for each domain:
  == domain 1  score: 27.9 bits;  conditional E-value: 8e-10
                   HU-HIG  34 feeLceeiskrstlsrgdvkavldaledelkeaLadGerVeLgelGyFslslkskgved.ekevransikkkki.nfrpgkkl 114
                                +++e++ k  ++s+ + +  +d + +++k+ L++Ge V++ ++G+Fs+  k++ v   +++ +a +i+ +++  f+p++ l
  PHY93_04470|PHY93_04470   5 KADIVERVYKEAGFSKKEAADLVDLVFKVIKDTLSKGEKVKISGFGNFSIRDKATRVGRnPQTGDAMDISARRVlTFKPSQVL 87 
                              56899*************************************************66666488889999*99998458888766 PP

>> HU-CCDC81_euk_2  CCDC81 eukaryotic HU domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.0   0.0   5.1e-08   0.00013      12      61 ..      14      61 ..       9      72 .. 0.93

  Alignments for each domain:
  == domain 1  score: 22.0 bits;  conditional E-value: 5.1e-08
          HU-CCDC81_euk_2 12 aaaglsrdvVescvqetfqalgdllrngknvelefkgiGvLsirnrkvkm 61
                             ++ag+s++ + + v+ +f+ + d l++g++v++   g+G++sir+++ ++
  PHY93_04470|PHY93_04470 14 KEAGFSKKEAADLVDLVFKVIKDTLSKGEKVKIS--GFGNFSIRDKATRV 61
                             589****************************986..7*********9875 PP

>> HU-CCDC81_bac_2  CCDC81-like prokaryotic HU domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0   5.5e-07    0.0014       6      50 ..      11      55 ..       8      60 .. 0.90
   2 ?   -3.1   0.0       2.8   7.3e+03      52      60 ..      76      84 ..      73      85 .. 0.71

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 5.5e-07
          HU-CCDC81_bac_2  6 siaeaegisyeeAlqkiekeveelkqeLeeegrveleniGeLsln 50
                              + ++ g s +eA   ++   + +k++L ++++v++++ G++s+ 
  PHY93_04470|PHY93_04470 11 RVYKEAGFSKKEAADLVDLVFKVIKDTLSKGEKVKISGFGNFSIR 55
                             56778899**********************************986 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 2.8
          HU-CCDC81_bac_2 52 egkleFeps 60
                              + l+F+ps
  PHY93_04470|PHY93_04470 76 RRVLTFKPS 84
                             566889997 PP

>> DUF2267  Uncharacterized conserved protein (DUF2267)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.0   8.2e-07    0.0021      69     111 ..       4      46 ..       2      49 .. 0.90

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 8.2e-07
                              SHHHHHHHHHHTS.....EHHHHHHHHHHHHHHHS-HHHHHHH CS
                  DUF2267  69 dreeflervaeelgvdpedaeqaaraVfaalkealsegeiedv 111
                              ++ + +erv +e+g  +++a+ ++  Vf+++k+ ls+ge  ++
  PHY93_04470|PHY93_04470   4 TKADIVERVYKEAGFSKKEAADLVDLVFKVIKDTLSKGEKVKI 46 
                              57899********************************997666 PP

>> HU-DNA_bdg  DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.1   1.7e-05     0.043      28      80 ..       2      54 ..       1      62 [. 0.88

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 1.7e-05
                             EE-HHHHHHHHHHH-TTS-HHHHHHHHHHHHHHHHHHHTTT-EEE.-SSEEEEE CS
               HU-DNA_bdg 28 sltledIidemvkegtevrketienilnlykrevseaileGysVn.tglgrasl 80
                             slt  dI+++++ke ++ +k  +++ ++l+ +++ + + +G++V+  g+g+ s+
  PHY93_04470|PHY93_04470  2 SLTKADIVERVYKE-AGFSKKEAADLVDLVFKVIKDTLSKGEKVKiSGFGNFSI 54
                             7999*******998.5777778899*******************7368999887 PP

>> HU-CCDC81_euk_1  CCDC81 eukaryotic HU domain 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   3.7e-05     0.095      31      66 ..      30      65 ..      14      86 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 3.7e-05
          HU-CCDC81_euk_1 31 lgeyieeqlekgkgvhipnfGtFtfeapdldlkadk 66
                             + + i++ l+kg  v+i +fG F++  +   ++ + 
  PHY93_04470|PHY93_04470 30 VFKVIKDTLSKGEKVKISGFGNFSIRDKATRVGRNP 65
                             5677999******************97766666554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (88 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       490  (0.02733); expected 358.6 (0.02)
Passed bias filter:                      424  (0.0236488); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.41
# Mc/sec: 648.45
//
Query:       PHY93_04475|PHY93_04475  [L=479]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.2e-83  280.6   1.6      3e-83  280.1   1.6    1.2  1  DNA_topoisoIV  DNA gyrase/topoisomerase IV, subunit A
  ------ inclusion threshold ------
      0.023   15.1   3.4      0.045   14.2   3.1    1.7  1  HTH_44         Helix-turn-helix DNA-binding domain of SPT6


Domain annotation for each model (and alignments):
>> DNA_topoisoIV  DNA gyrase/topoisomerase IV, subunit A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  280.1   1.6   3.3e-87     3e-83       1     424 [.      33     435 ..      33     441 .. 0.89

  Alignments for each domain:
  == domain 1  score: 280.1 bits;  conditional E-value: 3.3e-87
            DNA_topoisoIV   1 RaiPsvrDGlKPvqRriLyamfkllnldkkekKvaqlvGevlgkYhPHGdaslydaivrlaqdfvg..niplldpqGnfGsildgd 84 
                              RaiP + DGlKP+qRriL++++k ++ +k  +Kv+  +G vl  +hPHG as+ +aiv++aqd++   n+pl+d++G fG++ ++ 
  PHY93_04475|PHY93_04475  33 RAIPYLQDGLKPGQRRILFTLWK-NQ-SKGLMKVSSATGLVL-TLHPHGPASVESAIVNMAQDYTFsnNYPLIDKKGYFGER-MET 114
                              9**********************.55.5*************9.9*******************99999**************.888 PP

            DNA_topoisoIV  85 kdAaaRYietrLskiarellkeidketvdyqenyDgsekEPevlppiiPnlLvnGaeGIavGmatkipphnlkeiidaliallkge 170
                               +Aa+RYie+rL k+a  ll   d + v +++nyD++  EP++l+p++P++L+nGaeGI++G+++ ip+++ +++id++i+++++ 
  PHY93_04475|PHY93_04475 115 APAASRYIECRLGKVADFLL-FDDMNQVAMVPNYDEKVMEPVCLLPKLPLMLMNGAEGIGTGFSCVIPSFHHRDLIDSIIHFIEHG 199
                              99***************999.679999**********************************************************9 PP

            DNA_topoisoIV 171 eaellelvlgPdfptgggiigkeeikeayetgrGkikvrakveieektivitElPigvntskliekieelvkkkkikisdirdesd 256
                              +a   + +l+ + ++++ +i+ +e        r ++  + ++e  + +i+itElP g   +k+ + +++ ++++ i+  d+ d s 
  PHY93_04475|PHY93_04475 200 KA---K-KLKCYVHNYRNKIEVDE--------RNRLVFSMRFEEIGGSIYITELPRGYDAAKIYRYLTKQIDEDYIR--DFIDSSV 271
                              88...3.56667777777774444........2334444444434579*************************9999..*****66 PP

            DNA_topoisoIV 257 r.gvrivielkrgaseekvleklykktkLessisvnnlvlfdkk.pkylslkeilkeflevrlevyerrkeyllekleerleileg 340
                              + +++i++ +k+g++    l++++kk++L+s++  n  ++ +++ + + +++ei++ f + rlev++rr e l e++e++++  + 
  PHY93_04475|PHY93_04475 272 NnDIKIELIFKKGQQ--PSLQEVIKKLSLSSTLVPNYTLISERGiRIFNNPEEIIEIFGAKRLEVVKRRYELLCEDYERKIRQNN- 354
                              66*********8855..556668********************759999************************************. PP

            DNA_topoisoIV 341 llkalnkidevievirkskkekkakkeLieelseeq...aeyllemrlrrLtkeeveklekeieelekeikelekllaklkklike 423
                                   + i+++++   +  ++++++k+ +e l++++   aeyl++m+++r+tkeevek    +++ ++++ke+ ++ ++ +kli +
  PHY93_04475|PHY93_04475 355 -----EIIRFIKDKEYEVATKSTNRKSYVEYLEKKKftfAEYLADMPIYRMTKEEVEKRALMVRDDTASLKEFDRIAKS-QKLIEK 434
                              .....888888888777777888888888888885522269*********************************99999.555555 PP

            DNA_topoisoIV 424 e 424
                              +
  PHY93_04475|PHY93_04475 435 K 435
                              4 PP

>> HTH_44  Helix-turn-helix DNA-binding domain of SPT6
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   3.1     5e-06     0.045      36     100 ..     350     414 ..     329     444 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 5e-06
                              HHHHHHHHHHHHTS---HHHHHHH-GGGSB-SSTTS-....B--HHHHHHHHHHHHHHHHHHHHH CS
                   HTH_44  36 keavkkvleFlvkdelEvPfifqhRkdyllhaekeekkaeklLneddLwriveldikfrsllekr 100
                              ++  +++++F+  +e+Ev    ++Rk y+ + ek++++  + L    ++r+ + +++ r+l+ + 
  PHY93_04475|PHY93_04475 350 IRQNNEIIRFIKDKEYEVATKSTNRKSYVEYLEKKKFTFAEYLADMPIYRMTKEEVEKRALMVRD 414
                              3344689******************************999***9999999999999999998875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (479 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1277  (0.0712254); expected 358.6 (0.02)
Passed bias filter:                      433  (0.0241508); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.60u 0.24s 00:00:00.84 Elapsed: 00:00:00.41
# Mc/sec: 3510.25
//
Query:       PHY93_04480|PHY93_04480  [L=699]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.7e-22   79.7   0.7    4.5e-22   78.4   0.7    1.7  1  DNA_gyraseB     DNA gyrase B
    1.5e-09   38.0   0.0    1.3e-08   35.0   0.0    2.5  2  Toprim          Toprim domain
    2.9e-09   37.4   0.3    8.6e-09   35.9   0.0    1.9  2  HATPase_c       Histidine kinase-, DNA gyrase B-, and HSP90-l
    1.5e-07   31.3   0.1    3.8e-07   30.0   0.1    1.7  1  HATPase_c_3     Histidine kinase-, DNA gyrase B-, and HSP90-l
    1.8e-07   31.2   0.0    7.4e-07   29.3   0.0    2.0  1  DNA_gyraseB_C   DNA gyrase B subunit, carboxyl terminus
     0.0052   16.7   0.0       0.11   12.4   0.0    2.5  2  NTNH_C          Nontoxic nonhaemagglutinin C-terminal
  ------ inclusion threshold ------
       0.98    9.3   5.4       0.51   10.2   2.0    2.0  2  Lipoprotein_20  YfhG lipoprotein


Domain annotation for each model (and alignments):
>> DNA_gyraseB  DNA gyrase B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.4   0.7   1.7e-25   4.5e-22      20     166 ..     265     415 ..     244     422 .. 0.78

  Alignments for each domain:
  == domain 1  score: 78.4 bits;  conditional E-value: 1.7e-25
              DNA_gyraseB  20 vlsvegekaveev.....ievevalqwtssysenilsFvNniatpeGGtHvdgfksaltktlneyakkkkllkkkeekisgedire 100
                              +++++++ + ++v       + v+    s+++e+ +sFvN+ +t +GG H d +k+ +++t++e ++ +    k++ ++  +d++ 
  PHY93_04480|PHY93_04480 265 FIYETQNAKGKKVkgkidFHLSVCSDKRSDDREKFISFVNSTPTFDGGFHHDRVKRIFINTVKEKIERTAR--KEKISVIDNDVLT 348
                              333333332222243333444444444567778**********************************8765..5556999****** PP

              DNA_gyraseB 101 gltavvsvkipepqFeGQTKekLgns.evksivekvvseeleafleenkeeakkilekaveaakare 166
                              glt+v  + +p+p+Fe+QTK+kL    + ++ +e +++e++e+fl++nke ++ ++e+a+++ + +e
  PHY93_04480|PHY93_04480 349 GLTFVMGITMPNPRFESQTKRKLVRDlNLEKGIEHFMNENIEKFLRKNKEFLELVVERAKSRHRFQE 415
                              ***********************9763778*****************************99888766 PP

>> Toprim  Toprim domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.0       1.1   2.8e+03      10      53 ..      64      98 ..      62     130 .. 0.61
   2 !   35.0   0.0     5e-12   1.3e-08       1      88 [.     447     542 ..     447     558 .. 0.84

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 1.1
                             HHHHHHHTHTSTEEEEEEESSSSEEEHSTTEEEEEECTTTHHHH CS
                   Toprim 10 daktiakalgsgfqavtaslGhildletefkpvyeeiedkkkvl 53
                             + k+i+++l+++  ++   +Gh++++ t       ++ d+kk++
  PHY93_04480|PHY93_04480 64 KSKAIEEILDNSIDEY--YRGHVTEIHT-------KLADDKKTV 98
                             5677777766444433..3677777777.......333333333 PP

  == domain 2  score: 35.0 bits;  conditional E-value: 5e-12
                              EEEEESSHHHHHHHHHTHTSTEEEEEEESSSSEEEHS.TTEEEEE......ECTTTHHHHHHHHHHH.HHHSEEEEECSSSHHHHH CS
                   Toprim   1 elvivEgpsdaktiakalgsgfqavtaslGhildlet.efkpvye......eiedkkkvlkalkela.kradeiilatDpDreGea 78 
                              +l+i+Eg+s+ + +++a+++ +q  +a++G+ +++ + ++++v++      ++ ++  +++  +e++ +r+++i+++ D D++G +
  PHY93_04480|PHY93_04480 447 TLFICEGDSAIGGLRSARNKLYQGGIALKGKPMNVMQaSINDVINnqefldIMASIGLTIGQKAEIKdLRYSKIVFLADSDVDGGH 532
                              59***********************************85555555665666777777777777777789***************** PP

                              HHHHHHHHHT CS
                   Toprim  79 iawellevlk 88 
                              i ++l++++ 
  PHY93_04480|PHY93_04480 533 INTLLVNFFF 542
                              ******9987 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.9   0.0   3.3e-12   8.6e-09       9      80 ..      67     149 ..      63     203 .. 0.75
   2 ?   -3.0   0.0         4     1e+04       5      29 ..     317     341 ..     315     356 .. 0.69

  Alignments for each domain:
  == domain 1  score: 35.9 bits;  conditional E-value: 3.3e-12
                              HHHHHHHHHHHHHSTTTEE.EEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCH.....HCSTCHT......STSSSHHHHH CS
                HATPase_c   9 iisnlvdNavkfatkagei.eveikaseddlvisveDnGiGipkedlkklfekfsq.....ddstkrg......gggtGlGlsi 80 
                              +i +++dN++++  + g++ e++ k  +d+++++++DnGiG p ++++++ + f +     d++t+ +       g++GlG++ 
  PHY93_04480|PHY93_04480  67 AIEEILDNSIDE-YYRGHVtEIHTKLADDKKTVTITDNGIGFPIDKVPQVYTEFRTgskfkDEETDEKgflfrtLGQNGLGAAA 149
                              799********9.8888875555554468*******************999999998887644444444555544677776655 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 4
                              HHHHHHHHHHHHHHHHHSTTTEEEE CS
                HATPase_c   5 rLrqiisnlvdNavkfatkageiev 29 
                              r+++i++n v+  ++ ++ +++i+v
  PHY93_04480|PHY93_04480 317 RVKRIFINTVKEKIERTARKEKISV 341
                              6677777777777776555555554 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.0   0.1   1.5e-10   3.8e-07       4     109 ..      65     180 ..      61     196 .. 0.69

  Alignments for each domain:
  == domain 1  score: 30.0 bits;  conditional E-value: 1.5e-10
              HATPase_c_3   4 ekAlaelvdNsld....AdaenvkievnknrgktgeivieDdGkGmseeelkn.alrlatsskeakr..ksts.....lGkkGiGl 77 
                               kA+ e++dNs+d    ++ ++++ ++ +++   ++++i+D+G G + +++ + + ++ t sk +++  +++      lG+ G+G 
  PHY93_04480|PHY93_04480  65 SKAIEEILDNSIDeyyrGHVTEIHTKLADDK---KTVTITDNGIGFPIDKVPQvYTEFRTGSKFKDEetDEKGflfrtLGQNGLG- 146
                              689**********998888999999999876...7**************99987555555555544311433366777*******. PP

              HATPase_c_3  78 klAslslgkkltvit.kkegess..tltldvdkid 109
                                A++ l ++  + t k+ +++   t+++   +++
  PHY93_04480|PHY93_04480 147 AAATC-LTSDTFIATvKHYNSKKeqTYEFINGALE 180
                              55555.55555555524433333236666555554 PP

>> DNA_gyraseB_C  DNA gyrase B subunit, carboxyl terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.3   0.0   2.9e-10   7.4e-07       5      60 ..     591     643 ..     588     645 .. 0.90

  Alignments for each domain:
  == domain 1  score: 29.3 bits;  conditional E-value: 2.9e-10
            DNA_gyraseB_C   5 eiqRfKGLGEmnpeqLweTTmdpetRrLlqvtiedaeeadelfstLmGkkvepRre 60 
                              eiqR KGLGEm+pe  ++T ++    ++ ++t++d ++a++++++  Gk+ + R+e
  PHY93_04480|PHY93_04480 591 EIQRNKGLGEMSPEAFKHT-LSR--EEFCKITVDDINSAKHTLDICFGKDTNLRKE 643
                              8***************997.444..469*****999******************98 PP

>> NTNH_C  Nontoxic nonhaemagglutinin C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.4   0.0   4.3e-05      0.11     102     146 ..     197     241 ..     189     245 .. 0.93
   2 ?    1.1   0.0      0.12   3.1e+02      24      90 ..     548     614 ..     544     647 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 4.3e-05
                   NTNH_C 102 lqlvdskdtakkiiisndifksncltlaynnkylslslkdenynw 146
                              + lv sk+  k  ii++d+++   + laynn  l++s++ e+y +
  PHY93_04480|PHY93_04480 197 VTLVLSKEVYKDNIINEDLLRKRIIDLAYNNPGLTFSFNGEKYHF 241
                              67999**********************************999875 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.12
                   NTNH_C  24 iyelynyvfsekslyevkennniylsikdtndlnlqaakfkllsidtnkqyvqkldevvvsllddee 90 
                              ++el    f++ +l+ev  +++  +   d++   l+ +++k+ +i+ nk   +   e+    l  ee
  PHY93_04480|PHY93_04480 548 LFELGAIQFAKAPLFEVITDKETLFVESDSQLERLKKSNIKIREIQRNKGLGEMSPEAFKHTLSREE 614
                              57788888999*****9998888777777777789*************9887777776666665554 PP

>> Lipoprotein_20  YfhG lipoprotein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   2.0    0.0002      0.51      61     152 ..     351     442 ..     325     448 .. 0.85
   2 ?   -0.7   0.1      0.47   1.2e+03     123     142 ..     571     590 ..     561     595 .. 0.83

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.0002
           Lipoprotein_20  61 afkqsiLlanaeitlaerrkllerlnaysaqfpaslrpllqlWreqqalqlalaeerary.qrlqeesdskldslreqqaaLeaeL 145
                              +f  +i + n + + + +rkl+  ln +++ +   +   ++ +  + +  l+l+ era+  +r+qe  d+ l   +++++++e+ L
  PHY93_04480|PHY93_04480 351 TFVMGITMPNPRFESQTKRKLVRDLN-LEKGIEHFMNENIEKFLRKNKEFLELVVERAKSrHRFQELKDASLKGKKAKKQRVEKLL 435
                              688899999****************8.5778999999999999999999********9973689*********************9 PP

           Lipoprotein_20 146 eettrKL 152
                              ++ +r+ 
  PHY93_04480|PHY93_04480 436 DANERRD 442
                              9988875 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.47
           Lipoprotein_20 123 lqeesdskldslreqqaaLe 142
                              l  esds+l++l++++ +++
  PHY93_04480|PHY93_04480 571 LFVESDSQLERLKKSNIKIR 590
                              5679*********9987765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (699 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       805  (0.0448993); expected 358.6 (0.02)
Passed bias filter:                      385  (0.0214736); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.68u 0.23s 00:00:00.91 Elapsed: 00:00:00.42
# Mc/sec: 4980.99
//
Query:       PHY93_04485|PHY93_04485  [L=198]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.088   12.9   0.6       0.16   12.1   0.3    1.6  1  Cas6b_C   Cas6b C-terminal domain


Domain annotation for each model (and alignments):
>> Cas6b_C  Cas6b C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.3   8.8e-06      0.16      28      80 ..      23      77 ..       2      92 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 8.8e-06
                  Cas6b_C 28 klkseeekkellekiLvgnilsma..kglgvtveekievkiteveekkvklkeqk 80
                             k ++   kk++ e+iL g++ s +  k+l+++ e+ ++ +i+ +++k++++  ++
  PHY93_04485|PHY93_04485 23 KFENLPYKKNIKENILKGQVFSESkvKSLNLNKEQSLKFSIAGLHPKSCTYALKT 77
                             44567899************98652268888889********9999999886554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (198 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       536  (0.0298957); expected 358.6 (0.02)
Passed bias filter:                      380  (0.0211947); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.19s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 1510.57
//
Query:       PHY93_04490|PHY93_04490  [L=144]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      2e-09   37.4   0.0    2.4e-09   37.2   0.0    1.1  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
    2.6e-09   37.3   0.0      3e-09   37.1   0.0    1.1  1  Acetyltransf_1   Acetyltransferase (GNAT) family
    5.2e-08   33.2   0.0    8.2e-08   32.6   0.0    1.4  1  Acetyltransf_7   Acetyltransferase (GNAT) domain
    6.4e-07   29.5   0.0      1e-06   28.9   0.0    1.2  1  Acetyltransf_9   Acetyltransferase (GNAT) domain
     0.0013   18.7   0.0     0.0022   17.9   0.0    1.3  1  FR47             FR47-like protein
  ------ inclusion threshold ------
      0.074   13.3   0.0        7.6    6.8   0.0    2.1  2  TFIID_NTD2       WD40 associated region in TFIID subunit, NTD


Domain annotation for each model (and alignments):
>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.2   0.0     8e-13   2.4e-09      17     113 ..      25     131 ..      11     143 .. 0.86

  Alignments for each domain:
  == domain 1  score: 37.2 bits;  conditional E-value: 8e-13
          Acetyltransf_10  17 ispealrerieegealllvaeeggkivGviel.rdgs.........hisllfVdpeyrgqGigkaLleaveeeaekdgikleltvn 92 
                              ++++++++  +e   ++l+a+++ k+v v++  ++++         ++  ++  pe +gqG++++Ll ++   ++++  +  l +n
  PHY93_04490|PHY93_04490  25 LKKAKFENDDDEDISFHLGAFKNSKLVSVASFfYERNpifedlhqyQLRGMATLPENQGQGLSSELLTTAFPIIKQNFCS-LLWCN 109
                              5556666666678899****************999999*****99999999***********************888888.***** PP

          Acetyltransf_10  93 aspyavpfYeklGFkav.geeq 113
                              a   a+++Yek+GFk+  + ++
  PHY93_04490|PHY93_04490 110 ARESAIGYYEKVGFKKQsDVVF 131
                              ***************9955555 PP

>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.1   0.0   9.9e-13     3e-09      24     117 .]      30     123 ..       4     123 .. 0.81

  Alignments for each domain:
  == domain 1  score: 37.1 bits;  conditional E-value: 9.9e-13
                              HHHHHHSTTC..EEEE.EEETTEEEEEEEEEEEET...TSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHTTESEEEEEEET CS
           Acetyltransf_1  24 feesfsleae..gllv.aeedgeliGfisllkipd...ekggvayieslaVspeyrgkGlGsaLlealeerareegikkivlavee 103
                              fe+    ++e  ++ + a ++ +l+  +s++   +   e+ + + ++++a  pe +g+Gl s+Ll+++  + +++ +  +++   +
  PHY93_04490|PHY93_04490  30 FEND---DDEdiSFHLgAFKNSKLVSVASFFYERNpifEDLHQYQLRGMATLPENQGQGLSSELLTTAFPIIKQNFCSLLWC---N 109
                              2222...33344444469999***********999***999**********************************9999999...7 PP

                              TEHHHHHHHHHTTE CS
           Acetyltransf_1 104 dndaairlYeklGF 117
                                + ai++Yek+GF
  PHY93_04490|PHY93_04490 110 ARESAIGYYEKVGF 123
                              78999********9 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.6   0.0   2.7e-11   8.2e-08      25      76 .]      70     125 ..      33     125 .. 0.70

  Alignments for each domain:
  == domain 1  score: 32.6 bits;  conditional E-value: 2.7e-11
                              TCTEE.EEE-GGGTTSSHHHHHHHH...TT.SE.EEEEEEEETHH.HHHHHHHHTTEEE CS
           Acetyltransf_7  25 aeitr.laVdpeyrgkGiGraLlea...ae.kg.iileqlelnae.kaikfYeklGFee 76 
                              +++ r +a++pe +g+G+ ++Ll+    ++ ++ + l   + na+  ai++Yek GF++
  PHY93_04490|PHY93_04490  70 YQL-RgMATLPENQGQGLSSELLTTafpIIkQNfCSLL--WCNAReSAIGYYEKVGFKK 125
                              233.35*****************953552234433322..44443489*********95 PP

>> Acetyltransf_9  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.9   0.0   3.4e-10     1e-06      30     126 ..      27     124 ..       8     125 .. 0.82

  Alignments for each domain:
  == domain 1  score: 28.9 bits;  conditional E-value: 3.4e-10
                              HHHHHHHHHHTTSEEEEEEETTEEEEEEEEEEEEEEETTEEEEEEEEEEEEE-CCGTTS-HHHHHHHHHHHHHHHTT--EEEE--. CS
           Acetyltransf_9  30 eireyfrklleesrvlgaedngelvgqlallplelnvpGktlkaagvtgVavapehrgrgvlskLlaraleemreegqplsllfP. 114
                              +++++ ++  + s +lga++n +lv+++ ++  + n   + l+ +++ g a+ pe++g+g+ s+Ll++a+  ++++  +l +  + 
  PHY93_04490|PHY93_04490  27 KAKFENDDDEDISFHLGAFKNSKLVSVASFFYER-NPIFEDLHQYQLRGMATLPENQGQGLSSELLTTAFPIIKQNFCSLLWCNAr 111
                              456666667777899***********98887555.55556788999*****************************98888888888 PP

                              .SSHHHHHTTT-E CS
           Acetyltransf_9 115 .ssipiYrrfGye 126
                               s+i++Y++ G++
  PHY93_04490|PHY93_04490 112 eSAIGYYEKVGFK 124
                              8889*******97 PP

>> FR47  FR47-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.0   7.4e-07    0.0022      24      81 ..      72     127 ..      65     131 .. 0.80

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 7.4e-07
                              EEEEEE-GGG-SSSHHHHHHHHHHHHHHHS-S-EEEEEETT-HHHHHHHHHHT-EEEE CS
                     FR47  24 lgalqvlpehrrrGlgsrlvkalakeiaergktvllvvvasNtpsirlyeklGfekie 81 
                              l ++ +lpe +++Gl s l    a  i++++  +ll+ +a  + +i  yek+Gf+k  
  PHY93_04490|PHY93_04490  72 LRGMATLPENQGQGLSSELLTT-AFPIIKQNFCSLLWCNAR-ESAIGYYEKVGFKKQS 127
                              77899*************9765.567777777666666665.679**********975 PP

>> TFIID_NTD2  WD40 associated region in TFIID subunit, NTD2 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.9   0.0    0.0098        29      40      80 ..      40      80 ..      38      84 .. 0.84
   2 ?    6.8   0.0    0.0025       7.6      26      65 ..      87     126 ..      80     137 .. 0.84

  Alignments for each domain:
  == domain 1  score: 4.9 bits;  conditional E-value: 0.0098
                             HHHHHHHTT-HHHHHHHHHHHGGGGGGGHH.HHHHHTT--S CS
               TFIID_NTD2 40 lyLelvakgaeeeakkFfekfkedhealhkedlkkLasiss 80
                             ++L   ++++  ++ +Ff + ++ +e+lh+ +l+ +a++ +
  PHY93_04490|PHY93_04490 40 FHLGAFKNSKLVSVASFFYERNPIFEDLHQYQLRGMATLPE 80
                             5677778888889999******************9998765 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.0025
                              HHHHGGGHHHHHHHHHHHHHHTT-HHHHHHHHHHHGGGGG CS
               TFIID_NTD2  26 kpeLsrllyPvFvhlyLelvakgaeeeakkFfekfkedhe 65 
                               +eL ++ +P+  + + +l+  +a e+a  ++ek++ +++
  PHY93_04490|PHY93_04490  87 SSELLTTAFPIIKQNFCSLLWCNARESAIGYYEKVGFKKQ 126
                              689******************************9876544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (144 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       292  (0.0162865); expected 358.6 (0.02)
Passed bias filter:                      264  (0.0147247); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1075.03
//
Query:       PHY93_04495|PHY93_04495  [L=75]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (75 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       719  (0.0401026); expected 358.6 (0.02)
Passed bias filter:                      499  (0.027832); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.19s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 566.21
//
Query:       PHY93_04500|PHY93_04500  [L=298]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.2e-24   85.7  16.5    3.2e-24   85.7  16.5    1.7  2  Rhomboid  Rhomboid family
      5e-05   23.8   1.6      5e-05   23.8   1.6    2.2  2  DUF1751   Eukaryotic integral membrane protein (DUF1751)


Domain annotation for each model (and alignments):
>> Rhomboid  Rhomboid family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.1      0.51   4.6e+03     110     116 ..      88      94 ..      68     111 .. 0.54
   2 !   85.7  16.5   3.5e-28   3.2e-24       4     146 ..     124     260 ..     121     284 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 0.51
                              CCCCCCC CS
                 Rhomboid 110 fillnlv 116
                              +i++ + 
  PHY93_04500|PHY93_04500  88 IISIIVY 94 
                              2222211 PP

  == domain 2  score: 85.7 bits;  conditional E-value: 3.5e-28
                              CC-TTHHHHGGG--SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-S...-EESSHHHHHHHHHHHHHH CS
                 Rhomboid   4 rgelwrlltsmflHagwlHllfNmlallvfGsplerrlGslrflllyllsglagsllsllfsaesesplvGaSGaifgllgallvl 89 
                              +g++wrl+t +f+H+++lH+lfNml++  +G  +e+++G+  +l++ ++sgl+++ll++l+s      + G+SG+++++lg+++v+
  PHY93_04500|PHY93_04500 124 HGQVWRLITPIFVHLSFLHILFNMLWFKDLGYLIEHNFGKNFLLIFVFVSGLVSNLLQYLVSGP---QFGGMSGVLYAMLGFIWVH 206
                              79**************************************************************...5*****************9 PP

                              HHCCCCGS----HC...CCCCCCCCCCHHHCTSSSTTTHHHHHHHHHHHHHHHHHHC CS
                 Rhomboid  90 vprnrkllrkliiallllllfillnlvlgllpraggvsnlAHlgGllaGlllgllll 146
                                 n+    +l+ +    + +++  ++++l++  g ++n+AH +Gl++G+l+++ll 
  PHY93_04500|PHY93_04500 207 KKINQDFEYSLPRF---DIGMMIGWFFVCLTGMLGPIANSAHGAGLVVGILAAVLLN 260
                              88776644444433...56677777777777777889**************998875 PP

>> DUF1751  Eukaryotic integral membrane protein (DUF1751)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.1      0.61   5.4e+03      62      72 ..      86      96 ..      79     109 .. 0.52
   2 !   23.8   1.6   5.6e-09     5e-05       8      65 ..     127     184 ..     120     186 .. 0.95

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.61
                  DUF1751 62 vvlltlllylv 72
                             ++++ +++yl+
  PHY93_04500|PHY93_04500 86 MIIISIIVYLL 96
                             33333333332 PP

  == domain 2  score: 23.8 bits;  conditional E-value: 5.6e-09
                  DUF1751   8 pwtlltasfveqnvwkvlvslltlllggkylErlWgskEllkFilvvnvitnllvvll 65 
                              +w l+t  fv ++++++l+++l    +g ++E++ g++ ll+F++v ++++nll +l+
  PHY93_04500|PHY93_04500 127 VWRLITPIFVHLSFLHILFNMLWFKDLGYLIEHNFGKNFLLIFVFVSGLVSNLLQYLV 184
                              8****************************************************99876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (298 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       765  (0.0426683); expected 358.6 (0.02)
Passed bias filter:                      329  (0.0183502); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.19s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 2253.42
//
Query:       PHY93_04505|PHY93_04505  [L=125]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (125 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       512  (0.0285571); expected 358.6 (0.02)
Passed bias filter:                      363  (0.0202465); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 929.65
//
Query:       PHY93_21440|PHY93_21440  [L=225]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (225 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       230  (0.0128284); expected 358.6 (0.02)
Passed bias filter:                      218  (0.0121591); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.18s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1739.58
//
Query:       PHY93_04510|PHY93_04510  [L=625]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    0.00057   19.6   0.1      0.002   17.8   0.1    1.9  1  DUF4344        Putative metallopeptidase
     0.0084   16.2   0.5       0.12   12.5   0.0    2.8  2  DUF4145        Domain of unknown function (DUF4145)
  ------ inclusion threshold ------
      0.024   14.4   0.0       0.63    9.8   0.0    2.4  2  Peptidase_M48  Peptidase family M48
      0.071   12.7   3.5          3    7.4   0.3    3.5  3  Peptidase_M13  Peptidase family M13
       0.08   12.7   0.1       0.18   11.6   0.1    1.5  1  Peptidase_M76  Peptidase M76 family
       0.15   11.9   0.1        1.2    9.1   0.0    2.4  2  SprT-like      SprT-like family


Domain annotation for each model (and alignments):
>> DUF4344  Putative metallopeptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.1   6.7e-07     0.002      22      71 ..     301     351 ..     280     372 .. 0.74

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 6.7e-07
                  DUF4344  22 leklaeklnellkl..prdltivfaeCgeanafydpeekeitiCyelveeie 71 
                              +e+++e++ +++++  pr  + v +eC   nafy+p++++ tiC +++++ +
  PHY93_04510|PHY93_04510 301 IERIIERV-KTIRFnpPRLTKTVENECKYPNAFYSPDDHSFTICPQMLDYPK 351
                              56666666.34444215556677789******************99988755 PP

>> DUF4145  Domain of unknown function (DUF4145)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   0.1      0.26   7.8e+02      18      52 ..     102     136 ..      88     161 .. 0.78
   2 !   12.5   0.0   4.1e-05      0.12      23      71 ..     560     609 ..     539     616 .. 0.87

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 0.26
                  DUF4145  18 iRraLEkllkdkgiakgkdLknkiealvekgvipe 52 
                              iR++L +   d  i k  +L +k+ +l  +++i  
  PHY93_04510|PHY93_04510 102 IRSCLKEKYADEIISKRDELTHKLGTLHLQKIIAA 136
                              78899888888888888899999888888877543 PP

  == domain 2  score: 12.5 bits;  conditional E-value: 4.1e-05
                  DUF4145  23 EkllkdkgiakgkdLknkiealvekgvipeklkel.ldairviGNdgaHe 71 
                              E+++k+k+ + +++L ++++ l + ++ ++k +++ + air  +N  aH+
  PHY93_04510|PHY93_04510 560 EFAIKEKCPDFYENLTTEMKVLKAMNIADPKFNSHpVSAIRIDRNLLAHP 609
                              99******99*****************999997665999**********7 PP

>> Peptidase_M48  Peptidase family M48
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.0   0.00021      0.63       5      75 ..     299     365 ..     292     373 .. 0.78
   2 ?    1.8   0.1      0.06   1.8e+02     131     189 ..     504     601 ..     468     604 .. 0.58

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00021
                              SHHHHHHHHHHHHTT-...-EEEEEEE-GGGT-EEEEESSS-EEEEEEHHHH-SSB-HHHHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48   5 aelkevveelakeagl.pkpltkvyvvnspkrNAFalgggknkrivltdgLlkqllseeelaaVlGHElGHi 75 
                              +++++++e++ k + + p +ltk+++ + +  NAF ++    +   +  ++l     +  l+ V++HE++H 
  PHY93_04510|PHY93_04510 299 EKIERIIERV-KTIRFnPPRLTKTVENECKYPNAFYSPDD--HSFTICPQML--DYPKIALMEVMAHEISHS 365
                              4566666664.556666778899999999999******99..4567778888..6777899**********6 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.06
                              HHHHHHHHHHHHHHHHTTT.HHHHHHHHHHHHHHTT-..........-S---HHHH.............................. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..........xxxxxxxxx.............................. RF
            Peptidase_M48 131 alSRkrEyqADeagvellkrakdlvraliklakdler..........qdvsaslrs.............................. 176
                              a S  +E  AD+++ e+++r+ ++++++   ++ l +          +       +                              
  PHY93_04510|PHY93_04510 504 ARSQMQEAFADKMASEIVARKLKTLSKVEAEKSVL-EialslgniceN-------Dkagatklrefaikekcpdfyenlttemkvl 581
                              55778899999999999996655544332222111.123333333331.......0222222344444444555555555555555 PP

                              .......HHS-SS--HHHHH CS
                              .......xxxxxxxxxxxxx RF
            Peptidase_M48 177 .......ellstHPplleRi 189
                                       + +HP ++ Ri
  PHY93_04510|PHY93_04510 582 kamniadPKFNSHPVSAIRI 601
                              55555555566666666666 PP

>> Peptidase_M13  Peptidase family M13
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.4   0.3     0.001         3       1      50 [.     330     368 ..     330     380 .. 0.77
   2 ?    3.3   0.2     0.018        53      65     128 ..     472     534 ..     444     546 .. 0.74
   3 ?   -1.0   0.0      0.36   1.1e+03     162     195 ..     588     621 ..     555     624 .. 0.85

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.001
            Peptidase_M13   1 NAyYqpeensivfpaailqppffdleypeavNyggiGaviaHEltHgfdd 50 
                              NA+Y+p+++s ++   +l+ p   l             v+aHE++H +d 
  PHY93_04510|PHY93_04510 330 NAFYSPDDHSFTICPQMLDYPKIALM-----------EVMAHEISHSYDS 368
                              78888888888777777776654444...........79*********96 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.018
            Peptidase_M13  65 ltdedaeefkekakclieqfsevtepektkavngaltlgEniADlggleiAyraykklksakee 128
                               +++  + +++++k+  + f++ +  +++++v     ++E  AD+++ ei  r  k+l++++ e
  PHY93_04510|PHY93_04510 472 TKAKYLNFLNDHQKEYFDYFQGCDFSNNGDTVAR-SQMQEAFADKMASEIVARKLKTLSKVEAE 534
                              4555556677888899999999999999866655.5578***********99999996555433 PP

  == domain 3  score: -1.0 bits;  conditional E-value: 0.36
            Peptidase_M13 162 qllvdvHspaelRvngvlsnlpaFaeaFnckegs 195
                                  + H+ + +R+   l   p+  +a +c+ +s
  PHY93_04510|PHY93_04510 588 DPKFNSHPVSAIRIDRNLLAHPEIRKALKCPLDS 621
                              556789************99********999887 PP

>> Peptidase_M76  Peptidase M76 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.1     6e-05      0.18      13      86 ..     297     372 ..     280     380 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 6e-05
            Peptidase_M76  13 esptvkfllksieklgc.eldserikcepCdekqaggfspee.gillcenrlrs.kehledtlahElvhayDdlrak 86 
                              ++++++ ++++++++   + + ++ + ++C+  +a  +sp+  + ++c + l   k +l +++ahE+ h yD++ ++
  PHY93_04510|PHY93_04510 297 NVEKIERIIERVKTIRFnPPRLTKTVENECKYPNAF-YSPDDhSFTICPQMLDYpKIALMEVMAHEISHSYDSCTFS 372
                              456677777777777763444455667789666555.77765379999999865255789**************876 PP

>> SprT-like  SprT-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.0      0.37   1.1e+03      28      56 ..     120     206 ..     107     215 .. 0.60
   2 ?    9.1   0.0   0.00039       1.2      47      92 ..     338     376 ..     260     393 .. 0.83

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.37
                SprT-like  28 rlnttaGranlkr..........................................................atvrhhasIeLsekl 55 
                              +l+ + G+ +l++                                                             +++++I+L++++
  PHY93_04510|PHY93_04510 120 ELTHKLGTLHLQKiiaankklnqladkynqgakiqkisaeilnisleigisnsvsdwdkdrpsnidlrsflSLAEKRTKITLNPEI 205
                              55555555555555555555555555554455555566555555555555555556666666666666666666667777777776 PP

                SprT-like  56 l 56 
                               
  PHY93_04510|PHY93_04510 206 K 206
                              5 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.00039
                SprT-like  47 asIeLseklldsrsedrllntLaHElcHlalfvisgvrnnpHGaeF 92 
                              +s ++ +++ld+ ++ +l +++aHE+ H +  ++++      G+ F
  PHY93_04510|PHY93_04510 338 HSFTICPQMLDY-PKIALMEVMAHEISHSYDSCTFS------GKIF 376
                              566677889999.99***************987776......4554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (625 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1180  (0.0658152); expected 358.6 (0.02)
Passed bias filter:                      584  (0.0325729); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.68u 0.27s 00:00:00.95 Elapsed: 00:00:00.43
# Mc/sec: 4409.18
//
Query:       PHY93_04515|PHY93_04515  [L=168]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.2e-13   49.8   0.0    2.3e-10   40.6   0.0    2.2  2  Rrf2             Transcriptional regulator
  ------ inclusion threshold ------
       0.14   12.6   0.0       0.17   12.3   0.0    1.2  1  DNase_NucA_NucB  Deoxyribonuclease NucA/NucB


Domain annotation for each model (and alignments):
>> Rrf2  Transcriptional regulator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.1   0.0   0.00075       6.7       2      24 ..       3      25 ..       2      33 .. 0.84
   2 !   40.6   0.0   2.6e-14   2.3e-10      26      82 ..      42      98 ..      34      99 .. 0.94

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.00075
                             ---HHHHHHHHHHHHHHHSSTCC CS
                     Rrf2  2 klsskteyalhallyLakeeeee 24
                             k+++k+eyal al +++ +++++
  PHY93_04515|PHY93_04515  3 KINKKVEYALMALKFMSDKAHSR 25
                             89**************9887765 PP

  == domain 2  score: 40.6 bits;  conditional E-value: 2.6e-14
                             B-HHHHHHHHTS-HHHHHHHHHHHHHTTSEEEETTT-TCEEESSHCCCSBHHHHHHH CS
                     Rrf2 26 vsseeiaerqnispsylekilakLrkaglvksvrGkgGGyrLakppeeItlldvvra 82
                              s++ei +++n++    +k+++ +++++++ksv+G +GGy+L+k+++eIt  + vr 
  PHY93_04515|PHY93_04515 42 TSAREICDEFNTPFDTTAKVMQLMNNHEILKSVKGIKGGYSLNKDLSEITYMNLVRL 98
                             6899**********************************************9999987 PP

>> DNase_NucA_NucB  Deoxyribonuclease NucA/NucB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   1.9e-05      0.17      30      73 ..      16      59 ..      10     104 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 1.9e-05
          DNase_NucA_NucB 30 tldadkskrrqrRkaagcsgspcntlpysksgkdcDEy..PfAstk 73
                             ++  dk ++rq+R  + +sg+ c +   +++ + cDE+  Pf +t 
  PHY93_04515|PHY93_04515 16 KFMSDKAHSRQHR--NEASGLVCDQITLTSAREICDEFntPFDTTA 59
                             5556766666666..5668899**99************88888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (168 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       621  (0.0346366); expected 358.6 (0.02)
Passed bias filter:                      458  (0.0255452); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.20s 00:00:00.67 Elapsed: 00:00:00.39
# Mc/sec: 1298.45
//
Query:       PHY93_04520|PHY93_04520  [L=474]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-64  218.1   0.3    1.5e-64  217.7   0.3    1.1  1  UPF0051   Uncharacterized protein family (UPF0051)
  ------ inclusion threshold ------
       0.12   12.2   0.1        1.1    9.1   0.0    2.4  3  CHIPS     Chemotaxis-inhibiting protein CHIPS


Domain annotation for each model (and alignments):
>> UPF0051  Uncharacterized protein family (UPF0051)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  217.7   0.3   1.7e-68   1.5e-64       2     218 .]     214     447 ..     213     447 .. 0.96

  Alignments for each domain:
  == domain 1  score: 217.7 bits;  conditional E-value: 1.7e-68
                  UPF0051   2 qfertlivveegaevtiieeyagc............gvveifvgenAklkyvkvqnw.......sedavnlstkra.eegrdakle 67 
                              qfertli++e ++ v+++   +gc            ++ve+++++nA++ky++vqnw        ++++n++tkr   +g+++k++
  PHY93_04520|PHY93_04520 214 QFERTLIIAESDSFVNYL---EGCtapqrdenqlhaAIVELIAHDNAEIKYSTVQNWyagdkkgLGGIYNFVTKRGnCVGKNSKIS 296
                              89****************...666667777777777*************************99777**********55599***** PP

                  UPF0051  68 lttvslggkltrkepsvelkgegaeaelnglylakgkqhldtrtkvdhngpntssrilskgvlkdearavfrgkikvrkgaqktda 153
                              +t+v+ g+++t+k+ps++l g+g+e+ +++++l+++  ++dt+tk+ h g+nt+s+i+skg++++++++ +rg +k+ + a ++++
  PHY93_04520|PHY93_04520 297 WTQVEAGSAITWKYPSCNLIGDGSEGAFYSVALTNNFMQADTGTKMVHIGKNTKSTIISKGISAEQSENNYRGLVKILPSADGARN 382
                              ************************************************************************************** PP

                  UPF0051 154 hqenrnLllsdkaradtiPeleidaddvkasHgAtvGkideeqlfYLmsRGlseeeArrlivrgf 218
                              + +++++l++dka+a+t+P++ ++++ + ++H+A+++ki+eeqlfYL+sRGlsee+  ++iv+gf
  PHY93_04520|PHY93_04520 383 YSQCDSMLIGDKAQANTFPYIDVKNNTAVVEHEASTSKISEEQLFYLKSRGLSEEKCISMIVNGF 447
                              ****************************************************************9 PP

>> CHIPS  Chemotaxis-inhibiting protein CHIPS
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   0.0   0.00013       1.1      15      81 ..     201     266 ..     197     273 .. 0.85
   2 ?   -3.0   0.0      0.75   6.7e+03      51      74 ..     336     359 ..     321     367 .. 0.58
   3 ?   -0.6   0.0      0.13   1.2e+03      22      74 ..     379     435 ..     374     451 .. 0.62

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.00013
                    CHIPS  15 lrnylkkgtknsaqfekmviltenkgyytvylntplaedrknvellgkmyktyffkkgeskssyvin 81 
                              l  y++  +k++ qfe+ +i++e   +   yl+   a +r + +l   +       + e k s v n
  PHY93_04520|PHY93_04520 201 LSTYFRINAKETGQFERTLIIAESDSF-VNYLEGCTAPQRDENQLHAAIVELIAHDNAEIKYSTVQN 266
                              67899999***************9875.67*******999999999888888888888888877766 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 0.75
                    CHIPS  51 aedrknvellgkmyktyffkkges 74 
                              a+   ++  +gk  k+ ++ kg s
  PHY93_04520|PHY93_04520 336 ADTGTKMVHIGKNTKSTIISKGIS 359
                              333344455677777777777765 PP

  == domain 3  score: -0.6 bits;  conditional E-value: 0.13
                    CHIPS  22 gtknsaqfekmviltenkg....yytvylntplaedrknvellgkmyktyffkkges 74 
                              g++n +q + m+i  + +     y  v  nt + e       +      y+  +g s
  PHY93_04520|PHY93_04520 379 GARNYSQCDSMLIGDKAQAntfpYIDVKNNTAVVEHEASTSKISEEQLFYLKSRGLS 435
                              788888999998865544322226777888888888777776666665565555543 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (474 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       438  (0.0244297); expected 358.6 (0.02)
Passed bias filter:                      361  (0.020135); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.22s 00:00:00.80 Elapsed: 00:00:00.42
# Mc/sec: 3377.30
//
Query:       PHY93_04525|PHY93_04525  [L=262]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      5e-21   75.7   0.0    6.7e-21   75.2   0.0    1.2  1  ABC_tran        ABC transporter
    6.3e-05   22.5   1.3       0.17   11.3   0.2    2.2  2  SMC_N           RecF/RecN/SMC N terminal domain
    0.00011   22.1   0.0      0.012   15.4   0.0    2.2  2  AAA_21          AAA domain, putative AbiEii toxin, Type IV TA
     0.0009   19.2   0.1     0.0016   18.4   0.1    1.5  1  RsgA_GTPase     RsgA GTPase
     0.0019   17.9   0.7      0.006   16.3   0.2    2.0  2  AAA_29          P-loop containing region of AAA domain
     0.0043   15.8   0.0     0.0054   15.4   0.0    1.2  1  AAA_13          AAA domain
     0.0054   16.3   0.0       0.15   11.6   0.0    2.2  2  AAA_25          AAA domain
     0.0092   15.6   0.1      0.019   14.5   0.1    1.6  1  AAA_27          AAA domain
  ------ inclusion threshold ------
      0.026   15.0   0.4      0.051   14.1   0.4    1.5  1  AAA_23          AAA domain
      0.029   14.5   0.0      0.044   14.0   0.0    1.3  1  AAA_33          AAA domain
      0.037   13.7   0.0       0.09   12.5   0.0    1.6  2  AAA_24          AAA domain
      0.051   14.1   0.0       0.18   12.3   0.0    1.9  2  AAA_18          AAA domain
      0.061   13.0   0.0        0.1   12.3   0.0    1.3  1  Cytidylate_kin  Cytidylate kinase
      0.083   13.3   0.1       0.68   10.4   0.0    2.0  2  AAA             ATPase family associated with various cellula
        0.1   12.9   0.0        1.9    8.8   0.0    2.2  2  AAA_22          AAA domain
       0.13   12.2   0.0       0.22   11.4   0.0    1.4  1  Rad17           Rad17 P-loop domain
       0.16   12.0   0.0       0.27   11.3   0.0    1.3  1  TsaE            Threonylcarbamoyl adenosine biosynthesis prot
        0.2   11.9   0.0        1.4    9.1   0.0    2.1  2  AAA_28          AAA domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   75.2   0.0   6.8e-24   6.7e-21       1     135 [.      23     182 ..      23     184 .. 0.84

  Alignments for each domain:
  == domain 1  score: 75.2 bits;  conditional E-value: 6.8e-24
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--..SEEEEEET.TCEGGG.....B-HHHCCHCEEEE-SS--S-TTSBHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxx.xxxxxx.....xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkp..teGeilld.gkdlke.....qeleslrkeigvlpqepqlfpeltvre 78 
                              lk ++lk+k+ge++ai+G+nGaGKStL k++ag+     teG+i+++ +++  +     +   ++++ i   +q p   p++t+ +
  PHY93_04525|PHY93_04525  23 LKGINLKIKAGEIHAIMGPNGAGKSTLSKVIAGHPAFhvTEGSITFKiNAKE-RnllelEADVRAKSGIFLGFQYPVEIPGVTNFN 107
                              789******************************976566*****88843333.3478666667777777788999*******9999 PP

                              H...............HHHTC..HHHHHHHSTTGGTTCBGESTTS.GGS-HHHHHHHHHHHHHHHTSSEEEEEST CS
                              x...............xxxxx..xxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  79 n...............esdee..iekalsklglkelkdtvvkssp.ssLSgGqkqrvalarallkkpkllllDEp 135
                                              e+++e   + ++ kl+l e++++ +++   s +SgG+k++ ++ ++ + +p+l llDE 
  PHY93_04525|PHY93_04525 108 FlheafnetckfngapEMNAEdfRKFLAPKLELLEMNESFLDRPVnSGFSGGEKKKNEILQMAVLNPRLALLDET 182
                              89**9*9999999988444445466667799999999999977778****************************6 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.3   0.2   0.00017      0.17      25      43 ..      34      52 ..      23      56 .. 0.83
   2 !   10.4   0.1   0.00033      0.33     136     196 ..     155     212 ..      59     231 .. 0.69

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00017
                             SEEEEEESTTSSHHHHHHH CS
                             xxxxxxxxxxxxxxxxxxx RF
                    SMC_N 25 sftaivGpNGSGKsnlldA 43
                             ++ ai+GpNG+GKs l   
  PHY93_04525|PHY93_04525 34 EIHAIMGPNGAGKSTLSKV 52
                             5789**********98765 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 0.00033
                              CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTT..SEEEEE- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxx RF
                    SMC_N 136 lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkekskn..aQfivis 196
                               +SgGek+   + L +A+ + +   l llDe d+ LD    k+va+ +++ +++  a ++v +
  PHY93_04525|PHY93_04525 155 GFSGGEKKKNEI-LQMAVLNPR---LALLDETDSGLDIDALKIVAKGVNALKSRfnATVLV-T 212
                              578888886655.555555443...889*****************9999766652133333.4 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   1.2e-05     0.012       2      22 ..      36      56 ..      35     114 .. 0.77
   2 ?    5.1   0.0     0.017        17     238     303 .]     157     219 ..     121     219 .. 0.79

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 1.2e-05
                   AAA_21  2 nvliGpNgsGKSnLLdaldll 22
                              ++ GpNg+GKS+L + + + 
  PHY93_04525|PHY93_04525 36 HAIMGPNGAGKSTLSKVIAGH 56
                             6899**************765 PP

  == domain 2  score: 5.1 bits;  conditional E-value: 0.017
                   AAA_21 238 SdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQviltTHSpllld 303
                              S G k+    ++ ++ +++  +l l+DE ++gL+  +l+ +++ +++l+++    +l+TH   lld
  PHY93_04525|PHY93_04525 157 SGGEKKK-NEILQMAVLNP--RLALLDETDSGLDIDALKIVAKGVNALKSRFNATVLVTHYQRLLD 219
                              5555555.44445555554..99*******************999888888888899999877765 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.1   1.6e-06    0.0016      82     129 ..      15      63 ..       3      93 .. 0.84

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 1.6e-06
                              --TTTHTTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT-----S- CS
              RsgA_GTPase  82 vsaktkegleelkellkd.ktsvlvGqSGvGKStLinallpelelktge 129
                               + +tke l+ ++ ++k  ++ +++G+ G+GKStL ++++++   ++ e
  PHY93_04525|PHY93_04525  15 SNGETKEILKGINLKIKAgEIHAIMGPNGAGKSTLSKVIAGHPAFHVTE 63 
                              5567788888888889888********************9987766665 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.2     6e-06     0.006      17      38 ..      28      49 ..      22      53 .. 0.84
   2 ?   -1.8   0.0       2.7   2.7e+03      39      56 ..     188     207 ..     188     208 .. 0.80

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 6e-06
                   AAA_29 17 ieidlkgatlltGpsGsGKSTl 38
                             ++i+  +++ ++Gp+G+GKSTl
  PHY93_04525|PHY93_04525 28 LKIKAGEIHAIMGPNGAGKSTL 49
                             67775569*************8 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 2.7
                   AAA_29  39 lDAiqalLvpak..kvrfNk 56 
                              +DA++++  + +  k rfN+
  PHY93_04525|PHY93_04525 188 IDALKIVAKGVNalKSRFNA 207
                              79999999887777888986 PP

>> AAA_13  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   5.5e-06    0.0054      17      56 ..      34      69 ..      25     119 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 5.5e-06
                   AAA_13 17 riNliYGwNGaGKTtLSrllrslelgetepkfangsieit 56
                             +i  i G NGaGK+tLS++++      +  + ++gsi ++
  PHY93_04525|PHY93_04525 34 EIHAIMGPNGAGKSTLSKVIAGH----PAFHVTEGSITFK 69
                             566799**************985....3334455555444 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.6   0.0   0.00015      0.15      29      56 ..      29      56 ..       8      86 .. 0.75
   2 ?    2.6   0.0     0.088        87     164     187 ..     189     213 ..     159     216 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00015
                   AAA_25 29 llpagelallaGapgtGKttlaldlala 56
                              + age+++++G+ g+GK+tl   +a +
  PHY93_04525|PHY93_04525 29 KIKAGEIHAIMGPNGAGKSTLSKVIAGH 56
                             5789****************97665544 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.088
                   AAA_25 164 dv.galvealeriarrtgaavllvh 187
                              d+ + + + ++ ++ r++a+vl++h
  PHY93_04525|PHY93_04525 189 DAlKIVAKGVNALKSRFNATVLVTH 213
                              344889999999***********99 PP

>> AAA_27  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.5   0.1   1.9e-05     0.019      20      45 ..      27      52 ..      20      84 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 1.9e-05
                   AAA_27 20 dfsaeeadlhliyGpNEAGKstalrA 45
                             +++ ++ ++h i+GpN AGKst+ + 
  PHY93_04525|PHY93_04525 27 NLKIKAGEIHAIMGPNGAGKSTLSKV 52
                             55566889**************8765 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.4   5.1e-05     0.051      21      35 ..      35      49 ..       4      55 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 5.1e-05
                   AAA_23 21 ltlItGpNGaGKTTi 35
                             + +I GpNGaGK+T+
  PHY93_04525|PHY93_04525 35 IHAIMGPNGAGKSTL 49
                             679***********9 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   4.4e-05     0.044       4      43 ..      38      76 ..      35      93 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 4.4e-05
                   AAA_33  4 lvGlpGsGKstlaerllkklgavllssdtlrrrlfgtdqq 43
                             + G++G+GKstl++ ++  ++a+++++ ++ +++ +++++
  PHY93_04525|PHY93_04525 38 IMGPNGAGKSTLSKVIA-GHPAFHVTEGSITFKINAKERN 76
                             68************877.8899999998888888776665 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0     9e-05      0.09       6      35 ..      37      66 ..      33      80 .. 0.90
   2 ?   -2.5   0.0       3.6   3.5e+03      37      78 ..     187     230 ..     168     259 .. 0.48

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 9e-05
                   AAA_24  6 liyGpsgiGKTtlakelgpkplfidtekGl 35
                             +i+Gp+g+GK+tl k +  +p+f  te++ 
  PHY93_04525|PHY93_04525 37 AIMGPNGAGKSTLSKVIAGHPAFHVTEGSI 66
                             79*********************9999975 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 3.6
                   AAA_24  37 sldadkfpdieswedfldevvel...aaeladyktlviDtidele 78 
                              ++da k++ +++++++++ +++       ++ ++ ++ D +  l+
  PHY93_04525|PHY93_04525 187 DIDALKIV-AKGVNALKSRFNATvlvTHYQRLLDYIIPDHVHVLY 230
                              55555544.334444444444444433333344444444444443 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   0.00018      0.18       3      39 ..      38      79 ..      37      97 .. 0.76
   2 ?   -2.7   0.0       8.3   8.2e+03       9      22 ..     237     250 ..     234     260 .. 0.67

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00018
                   AAA_18  3 ltGtpGvGKttlakeLskrlgf.....gvnlrdvakenglll 39
                             ++G+ G+GK+tl+k ++ + +f     ++  + +ake++ll+
  PHY93_04525|PHY93_04525 38 IMGPNGAGKSTLSKVIAGHPAFhvtegSITFKINAKERNLLE 79
                             89**************88867766776555555566665554 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 8.3
                   AAA_18   9 vGKttlakeLskrl 22 
                              +G  +la+eL++++
  PHY93_04525|PHY93_04525 237 SGGKELAHELEEKG 250
                              66677888888873 PP

>> Cytidylate_kin  Cytidylate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0    0.0001       0.1       2      34 ..      37      69 ..      36      86 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.0001
                             EEE-STTSSHHHHHHHHHHHHT-EEEEHHHHHH CS
           Cytidylate_kin  2 aiDGPagsGKssvaralaeklglkyldtgalYR 34
                             ai GP g+GKs++++ +a +  +++ + +  ++
  PHY93_04525|PHY93_04525 37 AIMGPNGAGKSTLSKVIAGHPAFHVTEGSITFK 69
                             799***************998888777666655 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0   0.00069      0.68       3      30 ..      38      65 ..      37      94 .. 0.66
   2 ?    0.6   0.0      0.71   7.1e+02      37      71 ..     154     186 ..     112     219 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00069
                             EESSTTSSHHHHHHHHHHHHTHEEEEEE CS
                      AAA  3 lyGppGtGKTllakavakelgvefleis 30
                             ++Gp G GK++l k +a +  +++ e s
  PHY93_04525|PHY93_04525 38 IMGPNGAGKSTLSKVIAGHPAFHVTEGS 65
                             68***************99544433322 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.71
                              SSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGHH CS
                      AAA  37 kyvgesekkirelfkeakekakpsilfiDEidala 71 
                              + ++ +ekk +e+++ a   + p   ++DE d+  
  PHY93_04525|PHY93_04525 154 SGFSGGEKKKNEILQMA-VLN-PRLALLDETDSGL 186
                              36677888888888886.455.8999999999865 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   0.0    0.0019       1.9       7      24 ..      35      52 ..      29      85 .. 0.82
   2 ?    2.0   0.0      0.23   2.3e+02      86     117 ..     167     206 ..     105     221 .. 0.67

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.0019
                   AAA_22  7 ilvvtGesGtGKTtllrr 24
                             i +++G+ G+GK+tl + 
  PHY93_04525|PHY93_04525 35 IHAIMGPNGAGKSTLSKV 52
                             678***********9875 PP

  == domain 2  score: 2.0 bits;  conditional E-value: 0.23
                   AAA_22  86 lrarav..ielliiDEaqh.lr..s....eealeeLrslln 117
                              l+  av  ++l ++DE +  l+       ++ ++ L+s++n
  PHY93_04525|PHY93_04525 167 LQ-MAVlnPRLALLDETDSgLDidAlkivAKGVNALKSRFN 206
                              33.33347889999999999966414466777777777777 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00023      0.22      31      79 ..      19      67 ..      12     100 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00023
                    Rad17 31 vkewlkadvLesrkkriLLisGPsGCgkstvvkvLskelgiklrewlnp 79
                              ke lk   L+ +  +i  i GP G gkst  kv++   ++++ e +  
  PHY93_04525|PHY93_04525 19 TKEILKGINLKIKAGEIHAIMGPNGAGKSTLSKVIAGHPAFHVTEGSIT 67
                             6788888899999999******************998888887776554 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00027      0.27       5      55 ..      17      70 ..      13      76 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00027
                             HHHHHHHHHHHHCH..TEEEEEEESTTSSHHHHHHHHHHHTT--.----TTTTS CS
                     TsaE  5 eetealgkklakal..gdvilLeGdLGaGKTtlvrglakalgve.evkSPTFtl 55
                              et+++ k +  ++  g++ ++ G+ GaGK+tl++ +a +  ++ +  S TF++
  PHY93_04525|PHY93_04525 17 GETKEILKGINLKIkaGEIHAIMGPNGAGKSTLSKVIAGHPAFHvTEGSITFKI 70
                             56677766665555668899*****************99888777777888887 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   0.0    0.0014       1.4       3      26 ..      37      60 ..      35      86 .. 0.81
   2 ?    0.2   0.0      0.81   8.1e+02      10      30 ..     238     258 ..     236     260 .. 0.81

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.0014
                   AAA_28  3 vitGgestGKTtlleaLaargypv 26
                             +i+G+ ++GK+tl++ +a +   +
  PHY93_04525|PHY93_04525 37 AIMGPNGAGKSTLSKVIAGHPAFH 60
                             79************9999874444 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.81
                   AAA_28  10 tGKTtlleaLaargypvv.pEa 30 
                              +GK  l+ +L+++gy +v +E+
  PHY93_04525|PHY93_04525 238 GGK-ELAHELEEKGYDWViKEF 258
                              555.789999******998886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (262 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       558  (0.0311228); expected 358.6 (0.02)
Passed bias filter:                      523  (0.0291706); expected 358.6 (0.02)
Passed Vit filter:                        81  (0.00451782); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              18  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.40
# Mc/sec: 1948.05
//
Query:       PHY93_04530|PHY93_04530  [L=416]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.9e-65  219.6   2.4      6e-65  219.0   2.4    1.2  1  UPF0051   Uncharacterized protein family (UPF0051)
  ------ inclusion threshold ------
      0.014   14.8   0.1      0.041   13.4   0.1    1.6  1  DUF4867   Domain of unknown function (DUF4867)


Domain annotation for each model (and alignments):
>> UPF0051  Uncharacterized protein family (UPF0051)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  219.0   2.4   6.7e-69     6e-65       4     218 .]     162     386 ..     160     386 .. 0.98

  Alignments for each domain:
  == domain 1  score: 219.0 bits;  conditional E-value: 6.7e-69
                  UPF0051   4 ertlivveegaevtiieey..........agcgvveifvgenAklkyvkvqnwsedavnlstkraeegrdaklelttvslggkltr 79 
                              +r+ i +ee+ +v+++e +          ++++v+++ + +nA++++vk+q+++++av++  ++a++ rd+++++ t+  g   +r
  PHY93_04530|PHY93_04530 162 PRLTITAEENTKVSFLEIFsstandklqySTNAVTKFKLLANAHIEHVKMQSEASNAVHIGLTQAQVFRDSSFKSMTLDYGLLTAR 247
                              7899************8888888888887888****************************************************** PP

                  UPF0051  80 kepsvelkgegaeaelnglylakgkqhldtrtkvdhngpntssrilskgvlkdearavfrgkikvrkgaqktdahqenrnLllsdk 165
                              ++++v+l + gaea+++gl+++k+++h d+ ++++h +p+t+s++l+kg+l+++++++f gki v+k+aqk+ ++q n+nL+ls+ 
  PHY93_04530|PHY93_04530 248 HNINVDLLEAGAEASVHGLFVLKQSEHTDIFSTITHFAPHTTSDQLFKGILAGSSHGIFTGKIIVKKDAQKSASSQLNKNLILSKI 333
                              ************************************************************************************** PP

                  UPF0051 166 aradtiPeleidaddvkasHgAtvGkideeqlfYLmsRGlseeeArrlivrgf 218
                              a++dt P+l ++addvk+sHgAtvG++++e+ fYL+sRG+++e A+r++ +gf
  PHY93_04530|PHY93_04530 334 AHIDTRPQLLVHADDVKCSHGATVGQLSKEEEFYLESRGIPKERAKRMLCHGF 386
                              ****************************************************9 PP

>> DUF4867  Domain of unknown function (DUF4867)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.1   4.5e-06     0.041     108     181 ..     256     329 ..     230     361 .. 0.73

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 4.5e-06
                  DUF4867 108 ddtydtskveaFlvpaGtavevyattLHyaPcevkeegFkvivvLpkgtneplekeeekeeedklllaknKwli 181
                              +   ++s   +F++++ +  ++++t  H+aP +++++ Fk i +  ++     +   +k+++++   + nK li
  PHY93_04530|PHY93_04530 256 EAGAEASVHGLFVLKQSEHTDIFSTITHFAPHTTSDQLFKGILAGSSHGIFTGKIIVKKDAQKSASSQLNKNLI 329
                              44455666678999**************************9988777655555555555555555555566554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (416 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       632  (0.0352502); expected 358.6 (0.02)
Passed bias filter:                      407  (0.0227007); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.23s 00:00:00.79 Elapsed: 00:00:00.42
# Mc/sec: 2962.55
//
Query:       PHY93_04535|PHY93_04535  [L=402]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   1.1e-143  478.6   0.4   1.3e-143  478.5   0.4    1.0  1  Aminotran_5      Aminotransferase class-V
    6.7e-11   42.0   0.0    1.8e-10   40.5   0.0    1.6  1  Aminotran_1_2    Aminotransferase class I and II
    7.2e-05   21.5   0.2    0.00011   20.9   0.2    1.3  1  Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
     0.0001   21.7   0.1    0.00014   21.3   0.1    1.3  1  Beta_elim_lyase  Beta-eliminating lyase


Domain annotation for each model (and alignments):
>> Aminotran_5  Aminotransferase class-V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  478.5   0.4  2.9e-147  1.3e-143       1     371 []      23     392 ..      23     392 .. 0.99

  Alignments for each domain:
  == domain 1  score: 478.5 bits;  conditional E-value: 2.9e-147
                              EEEBTTTS----HHHHHHHHHHHHCTCCSSSSSSSHHHHHHHHHHHHHHHHHHHHHT-STGGGEEEESSHHHHHHHHHHHCCCC.- CS
              Aminotran_5   1 iyldsaAttqkpqeVldalqeyytdynanvhrsvhhlgkeatkaveearekvaelinaeseeeiiftsGtteainlvalslars.l 85 
                              +y+d+aAtt kp+  +da+ eyy++  anvhr++h+l++  t+ +ee+r  v++lina++++e+i+t+Gtte++nl a++++r+ +
  PHY93_04535|PHY93_04535  23 VYFDNAATTLKPKVMIDAITEYYSHQVANVHRGIHTLSEVGTRHFEETRIAVQKLINARESYEVIYTKGTTESLNLLAQCFGRQfF 108
                              7************************************************************************************* PP

                              TTTSEEEEETTSHGGGTHHHHHHHHHHTEEEEEEEBETTSCBEGGGHHHH--TTEEEEEEESBETTTTEB--HHHHHHHHHHTT-E CS
              Aminotran_5  86 kpgdeivvteaehhanlvpwqelakrtgakvkvipldeegeldldelekllnektklvaithvsnvtGtiqpveeigklakkkgal 171
                              kpgdei+++ +ehh+n+vpwq++a++tgak++v+p++++g +d  e++klln+ktk+v+i+hvsn++Gt++p++e++k a+++ga 
  PHY93_04535|PHY93_04535 109 KPGDEILISMMEHHSNIVPWQMIAEATGAKLVVAPINDRGDIDQVEYKKLLNNKTKIVSIAHVSNTLGTVNPIKEMIKDAHAVGAK 194
                              ************************************************************************************** PP

                              EEEE-TTTTTTS---HHHHTESEEEEETTTTTSSTT-EEEEEEHHHHHTS..SS.STTSEEEEETTEEEEHCTTGGGS.SS--HHH CS
              Aminotran_5 172 vlvDaaqavghipidvkklgvDflafsghKllgPtGiGvlyvrkellekleplllggemveevsleettfaeapskfeaGTpnvag 257
                              ++vDaaq++ h+p+dv++l++Dfl+fs+hK++gP+ +G+ly++++ll++++p ++gg m++ev++++tt++  p+kfeaGTp +a+
  PHY93_04535|PHY93_04535 195 FCVDAAQSIAHMPVDVQDLDCDFLVFSAHKVFGPNALGFLYGKEDLLNQMPPYQGGGAMISEVTFDKTTYNILPNKFEAGTPAIAE 280
                              ************************************************************************************** PP

                              HHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCTSTTEEEES.-B-CTCBSEEEEEETTCSHHHHHHHHHHTTEEEEEE-TTTH CS
              Aminotran_5 258 iiglgaaleyleeigleaiekhekelaeyllerlkslpgvrlygpdkaerrasivsfnfkgvhaedvatlLdeegIavrsGhhcaq 343
                              ii++++ ++yl+++gl++i+k+e++l ey++++lk++ g+r++g   a ++++++sf ++gvh++d++t+Ld+eg+a+r+Ghhc+q
  PHY93_04535|PHY93_04535 281 IIAFKKSIDYLNAVGLAEIAKREHQLLEYATSELKKISGIRILGE--ALEKSGVISFLLEGVHPHDLGTILDKEGVAIRTGHHCTQ 364
                              ******************************************995..8************************************** PP

                              HHHHHTT.S-EEEEE--TTS-HHHHHHH CS
              Aminotran_5 344 plmkrlalegtvRaSlyiynteeevdrl 371
                              pl+kr++ +++ RaSl++ynt+eevd +
  PHY93_04535|PHY93_04535 365 PLLKRFNCTAAARASLAFYNTKEEVDIF 392
                              *************************976 PP

>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.5   0.0     4e-14   1.8e-10      31     350 ..      53     375 ..      24     396 .. 0.83

  Alignments for each domain:
  == domain 1  score: 40.5 bits;  conditional E-value: 4e-14
                              HHHHTSTTST-BTTHHHHHHHHHHHHHCTCTTCHTTGGEGEEEESHHHHHHHHHHHHHH...HTTT-EEEEEESS-TH....HHHH CS
            Aminotran_1_2  31 alaggtlneygpidglpeleealakflgrseklklkreaavvvgsGagaliealifllk...lnpgdeilvpdptyas....ykni 109
                              +   +tl e g+ +   e + a+ k+++     + +   +v+++ G+++ +++l++++    + pgdeil++   + s     + i
  PHY93_04535|PHY93_04535  53 HRGIHTLSEVGTRH-FEETRIAVQKLIN-----ARESY-EVIYTKGTTESLNLLAQCFGrqfFKPGDEILISMMEHHSnivpWQMI 131
                              55566777777777.8999999999999.....55555.9*****************999999***********998733335689 PP

                              HHHTTSEEEEEEBEETTTTEE-HHHHHHHHTTHHCTTETEEEEEEESS-TTT--B--HHHHHHHHHHHHHTTEEEEEEETTTTCBS CS
            Aminotran_1_2 110 lrlsggevvryplyseedfhldlealeealkeapegnkktkvilvesphNPtGtvatleeleklldlakkynlllfvDeaYagfvf 195
                              +++ g+++v  p++  +   +d  +++++l++      ktk++ ++ ++N  Gtv + +e  k    a++ ++   vD a ++  +
  PHY93_04535|PHY93_04535 132 AEATGAKLVVAPIN--DRGDIDQVEYKKLLNN------KTKIVSIAHVSNTLGTVNPIKEMIKD---AHAVGAKFCVDAAQSIAHM 206
                              99**********99..9999************......******************99887777...7777888899999766666 PP

                              SSSHTHHHHGGSTTSTTEEEEEESSSTTSSGGG-EEEEEEEH.............HHHHHHHHHHHHHTS....SHHHHHHHHHHH CS
            Aminotran_1_2 196 gsldavatranveeepnllivgslsKafGlaGeRvGyilgna.............avvsqlrklsrpfls....ssllqaavaaal 264
                                       ++v++ + +++v s  K fG     +G+++g++             a++s ++  ++++++     +++ +a+a+++
  PHY93_04535|PHY93_04535 207 P--------VDVQDLDCDFLVFSAHKVFGPNA--LGFLYGKEdllnqmppyqgggAMISEVTFDKTTYNIlpnkFEAGTPAIAEII 282
                              4........889998889**************..******888****************************999889999999998 PP

                              HHHHHHHH....HHHHHHHHHHHHHHHHHHHHHHS.TEEEECCS...CSSEEEEEETHHCHHHHHHHHHHTCTEEEEEGGGGTSTT CS
            Aminotran_1_2 265 sdallkqs....eleemrqrlqkrrkelrdeLael.glkvlasq...sgmflltdlsaetakelskkLleevgvyvtpgtsftvpg 342
                                ++ ++      l e ++r +++ ++ ++eL+++ g+ +l++    sg++++  l+    ++l   L +e gv+++ g ++t p 
  PHY93_04535|PHY93_04535 283 AFKKSIDYlnavGLAEIAKREHQLLEYATSELKKIsGIRILGEAlekSGVISFL-LEGVHPHDLGTILDKE-GVAIRTGHHCTQPL 366
                              88777655889999********************9*888777533348998884.4444355666666666.99999999999988 PP

                              EEEEEC.TT CS
            Aminotran_1_2 343 rlRitv.Ag 350
                                R+++ A+
  PHY93_04535|PHY93_04535 367 LKRFNCtAA 375
                              888888554 PP

>> Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.9   0.2   2.4e-08   0.00011      83     198 ..     103     224 ..      26     234 .. 0.71

  Alignments for each domain:
  == domain 1  score: 20.9 bits;  conditional E-value: 2.4e-08
                              HHHTTS-TTEEEEEESTSSHHHHHHHHHTHHHTTCEEEEEST...TSHHHH..HHHCCTTEEEEEEESS-TTTT----HHHHHHHH CS
          Cys_Met_Meta_PP  83 ailallkaGdeivvsddlYggtqrllkkvlkklgievkfvdt...sdleel..ekaikentklvylEtptnpllkvvDiekiakla 163
                                ++++k Gdei++s   + +     + +++ +g +  +       d++++  +k ++++tk+v +  ++n l  v  i++++k a
  PHY93_04535|PHY93_04535 103 FGRQFFKPGDEILISMMEHHSNIVPWQMIAEATGAKLVVAPIndrGDIDQVeyKKLLNNKTKIVSIAHVSNTLGTVNPIKEMIKDA 188
                              345789999999999999999988888888888888777665111344433226899***************************** PP

                              HHTT-EEEEEGTTTHT.TTS-GGGGT-SEEEEETTT CS
          Cys_Met_Meta_PP 164 kkagvlvvvDntfasp.llqrplklgaDivvhSaTK 198
                              +++g+  +vD++ +   + +   +l++D  v Sa K
  PHY93_04535|PHY93_04535 189 HAVGAKFCVDAAQSIAhMPVDVQDLDCDFLVFSAHK 224
                              **********98765436677778889998888877 PP

>> Beta_elim_lyase  Beta-eliminating lyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.1   3.1e-08   0.00014      67     247 ..     107     341 ..      48     383 .. 0.79

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 3.1e-08
                              H--TTEEEEEETT.-HHHHSSTTHHHHCC--EEEEE-EBTTTBE-HHHHHHHS--S-TTS-EEEEEEEESSBTTTTTB---HHHHH CS
          Beta_elim_lyase  67 llqrgeevivtep.ahihfdetgaiaelagvklrdlknkeaGkmdlekleaaikevgaheekiklisltvTnntagGqvvsleelr 151
                              + ++g+e++++    h      + iae  g+kl+ +++++ G++d  + ++++++      k+k++s++   nt  G+v +   ++
  PHY93_04535|PHY93_04535 107 FFKPGDEILISMMeHHSNIVPWQMIAEATGAKLVVAPINDRGDIDQVEYKKLLNN------KTKIVSIAHVSNT-LGTVNP---IK 182
                              5577777776655344444445789999**********999************99......5788998888886.566665...66 PP

                              HHHHHHHHCT-EEEEEETTHHHHHHHHTS-CHHHHTTSSEEEEESSSTT--SS-EEEEE-HH........................ CS
          Beta_elim_lyase 152 evaaiakkygiplhlDgARfanaakslgeivkemfsyvDsvtmslkKdllanvGgvlafrddel...................... 215
                              e+ + a++ g ++++D+A      +++ ++v+++   +D +++s+ K  + n  g+l +++d l                      
  PHY93_04535|PHY93_04535 183 EMIKDAHAVGAKFCVDAAQS---IAHMPVDVQDL--DCDFLVFSAHKVFGPNALGFLYGKEDLLnqmppyqgggamisevtfdktt 263
                              77899***********9743...34455555554..6*************************889999999999999999999999 PP

                              ..........................................HHHHHHHH......HHHHT---SSTHHHHH..HHHH CS
          Beta_elim_lyase 216 ........................................edylaerveq......rkylggglrqagvlaaleagir 247
                                                                      ++ l++++         + lg+ l+++gv++ l  g++
  PHY93_04535|PHY93_04535 264 ynilpnkfeagtpaiaeiiafkksidylnavglaeiakreHQLLEYATSElkkisgIRILGEALEKSGVISFLLEGVH 341
                              999999999999999999999999999999999999998844444444332223336678888888888877555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (402 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       513  (0.0286129); expected 358.6 (0.02)
Passed bias filter:                      426  (0.0237604); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.59u 0.23s 00:00:00.82 Elapsed: 00:00:00.42
# Mc/sec: 2894.35
//
Query:       PHY93_04540|PHY93_04540  [L=191]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.5e-21   75.5   0.1    4.4e-21   74.7   0.1    1.4  1  Nfu_N     Scaffold protein Nfu/NifU N terminal
    1.2e-19   70.3   0.0    1.9e-19   69.5   0.0    1.4  1  NifU      NifU-like domain
  ------ inclusion threshold ------
      0.085   13.1   0.1       0.18   12.0   0.1    1.5  1  DUF5319   Family of unknown function (DUF5319)


Domain annotation for each model (and alignments):
>> Nfu_N  Scaffold protein Nfu/NifU N terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.7   0.1   7.3e-25   4.4e-21       1      85 [.      12      96 ..      12      98 .. 0.95

  Alignments for each domain:
  == domain 1  score: 74.7 bits;  conditional E-value: 7.3e-25
                    Nfu_N  1 iqteeTPNpnalkFlpgkellpegstaefksaeea.asplakkLfkiegVksVfigsdFitvtkeddvdWeelkpevlevikefle 85
                             i +++TPNpnalkF+++ ++ + +++ ++ks  e  ++ la +Lfk+ gV+++++ ++ i+vtk +  dW++++++v++v+ke++ 
  PHY93_04540|PHY93_04540 12 IDIQPTPNPNALKFILNLPVKN-TGNSTYKSPTECgENHLALELFKVRGVDQLHFFENVIAVTKFSYEDWDSVEKNVIAVLKEHMP 96
                             789*******************.6889999999888***********************************************985 PP

>> NifU  NifU-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.5   0.0   3.2e-23   1.9e-19       1      66 [.     122     187 ..     122     188 .. 0.98

  Alignments for each domain:
  == domain 1  score: 69.5 bits;  conditional E-value: 3.2e-23
                              HHHHHHH.HGGG--GG--EEEEEEEETTEEEEEEESGGGG-....THHHHHHHHHHHHH-TT--EE CS
                     NifU   1 ieevleeeirPaLasdGGdielvdvdegvVkvrlqGaCsgCpsstvtlkegiekaLkeevpevkeV 66 
                              ie++l+++irP L++dGGdi+ + + ++++ v++qGaC++Cpsst+ + e+i+++L++e+++++eV
  PHY93_04540|PHY93_04540 122 IEALLDKTIRPGLQGDGGDIQALTYVDNILMVKYQGACGTCPSSTTGTLEAIKAILRDELNPEIEV 187
                              899**********************************************************99998 PP

>> DUF5319  Family of unknown function (DUF5319)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.1   3.1e-05      0.18      53     103 ..      56     108 ..      47     112 .. 0.73

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 3.1e-05
                  DUF5319  53 eprGirGivllCe..dCeeehyydWdllaanlkalledelarvhePaa.dpdpe 103
                              + rG++ + ++ +     +  y dWd +++n+ a+l++ +++ h+P++ +p+pe
  PHY93_04540|PHY93_04540  56 KVRGVDQLHFFENviAVTKFSYEDWDSVEKNVIAVLKE-HMPNHDPNYsEPNPE 108
                              56666666665441134567799***********9985.6899***97357776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (191 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       419  (0.02337); expected 358.6 (0.02)
Passed bias filter:                      393  (0.0219198); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1413.27
//
Query:       PHY93_04545|PHY93_04545  [L=47]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (47 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       673  (0.037537); expected 358.6 (0.02)
Passed bias filter:                      328  (0.0182944); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.20s 00:00:00.59 Elapsed: 00:00:00.37
# Mc/sec: 378.54
//
Query:       PHY93_04550|PHY93_04550  [L=211]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (211 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       412  (0.0229795); expected 358.6 (0.02)
Passed bias filter:                      343  (0.019131); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.20s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1559.56
//
Query:       PHY93_04555|PHY93_04555  [L=297]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.5e-26   93.2  41.2    1.4e-16   60.9  13.7    2.0  2  EamA      EamA-like transporter family
  ------ inclusion threshold ------
      0.066   11.4   0.1      0.066   11.4   0.1    1.7  2  BIV_Env   Bovine immunodeficiency virus surface protein (SU)
        2.4    8.5   8.9      0.079   13.3   1.1    2.7  3  YlaH      YlaH-like protein


Domain annotation for each model (and alignments):
>> EamA  EamA-like transporter family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.5  19.4   1.9e-13   1.1e-09       4     135 ..       5     133 ..       2     134 .. 0.93
   2 !   60.9  13.7   2.4e-20   1.4e-16       2     135 ..     143     282 ..     142     284 .. 0.95

  Alignments for each domain:
  == domain 1  score: 38.5 bits;  conditional E-value: 1.9e-13
                     EamA   4 illallaalfwaiyfvlskillrkvspltltfvrfliagillliiallkegklaklslkdwllllllgllgtvlafllffyalkkt 89 
                              i+l+ l++ +w+++f++++++++ ++p++ +++rf +ag+l ++++l+k++ +   ++k++l  + ++ +  + + l+++ +l +t
  PHY93_04555|PHY93_04555   5 IILLSLSTAIWGFGFIATRWTFQVFDPFWSNALRFSLAGLLSIPFLLYKKSFW---RKKNILKKAMISSVFLLGTLLFQTLGLATT 87 
                              79999*******************************************98888...88888888888888888888999******* PP

                     EamA  90 sasnaslitslePvftlilsvlllgekltlkqllgivlillGvlli 135
                              ++++ ++it+l  +f+ +  ++l g+k   + +  ++++l+G  l+
  PHY93_04555|PHY93_04555  88 TVAKSGFITTLYSLFIPLTMMALTGKKYRATFWGLVIMALIGMGLM 133
                              ****************************************998775 PP

  == domain 2  score: 60.9 bits;  conditional E-value: 2.4e-20
                     EamA   2 lgillallaalfwaiyfvls.killrkvspltltfvrfliagillliiallkegkl.....aklslkdwllllllgllgtvlafll 81 
                              +g++l ll a++ a+ ++++ k++++  s ++++f++ ++ +i+ + ial+++g+        ++ +++l ll+lg++++++ f +
  PHY93_04555|PHY93_04555 143 KGDFLTLLCAISAAFHIMYIgKVASQISSAVEFNFLQNFFVAIFSVTIALIFKGPVdlsplVDFHSEAVLGLLFLGVISSMISFTI 228
                              799*****************66667777888*************************988888889999****************** PP

                     EamA  82 ffyalkktsasnaslitslePvftlilsvlllgekltlkqllgivlillGvlli 135
                              ++ a+kk++a +a+li+++e  f++++++++++e l+ + llg+++i+l+v+l+
  PHY93_04555|PHY93_04555 229 QVVAQKKIPAHIAGLIFLMESPFAALFGYFIFKELLNPLNLLGAGMIMLSVILV 282
                              ****************************************************97 PP

>> BIV_Env  Bovine immunodeficiency virus surface protein (SU)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.2     0.067     4e+02     103     154 ..      67     123 ..      55     170 .. 0.57
   2 ?   11.4   0.1   1.1e-05     0.066     184     238 ..     229     279 ..     216     295 .. 0.72

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.067
                  BIV_Env 103 wvrkvliia..ilgtltmagtaladadrs....svienitkkdikdtdpyilillglv 154
                               + +v++++  ++ tl +a t++a++       s+   +t  ++   + y  ++ glv
  PHY93_04555|PHY93_04555  67 MISSVFLLGtlLFQTLGLATTTVAKSGFIttlySLFIPLTMMALT-GKKYRATFWGLV 123
                              566777776224678888888888876543333222233333222.223333333332 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 1.1e-05
                  BIV_Env 184 wlsankeiplkftvpiilissplagilgyfvmeryskilkgGcqlcgslslmwgm 238
                               + a+k+ip +++  i l+ sp+a ++gyf+++  ++ l+    l g+  +m  +
  PHY93_04555|PHY93_04555 229 QVVAQKKIPAHIAGLIFLMESPFAALFGYFIFKELLNPLN----LLGAGMIMLSV 279
                              56799**************************998776554....33333344444 PP

>> YlaH  YlaH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.7   0.1       2.6   1.6e+04      12      26 ..       5      19 ..       2      23 .. 0.62
   2 ?   13.3   1.1   1.3e-05     0.079      18      61 ..      48      91 ..      32     106 .. 0.83
   3 ?   -3.8   0.1       2.8   1.6e+04      14      18 ..     185     189 ..     177     196 .. 0.41

  Alignments for each domain:
  == domain 1  score: -3.7 bits;  conditional E-value: 2.6
                     YlaH 12 ilivvLsiivfklgF 26
                             i+ + Ls+ ++  gF
  PHY93_04555|PHY93_04555  5 IILLSLSTAIWGFGF 19
                             556667777777676 PP

  == domain 2  score: 13.3 bits;  conditional E-value: 1.3e-05
                     YlaH 18 siivfklgFakkLpilkevivYilLalGslvLtllqvfklPiie 61
                               + +k+ F +k  ilk++++  + +lG+l++  l++++  +++
  PHY93_04555|PHY93_04555 48 PFLLYKKSFWRKKNILKKAMISSVFLLGTLLFQTLGLATTTVAK 91
                             3589******************************9998766665 PP

  == domain 3  score: -3.8 bits;  conditional E-value: 2.8
                     YlaH  14 ivvLs 18 
                              i+  +
  PHY93_04555|PHY93_04555 185 IFSVT 189
                              22221 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (297 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       817  (0.0455686); expected 358.6 (0.02)
Passed bias filter:                      262  (0.0146132); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.39
# Mc/sec: 2259.27
//
Query:       PHY93_21445|PHY93_21445  [L=183]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (183 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       332  (0.0185175); expected 358.6 (0.02)
Passed bias filter:                      306  (0.0170673); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.19s 00:00:00.65 Elapsed: 00:00:00.38
# Mc/sec: 1429.03
//
Query:       PHY93_04560|PHY93_04560  [L=302]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   1.7e-100  335.5   0.0   2.1e-100  335.3   0.0    1.0  1  Coprogen_oxidas  Coproporphyrinogen III oxidase


Domain annotation for each model (and alignments):
>> Coprogen_oxidas  Coproporphyrinogen III oxidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  335.3   0.0  1.2e-104  2.1e-100       2     289 ..      13     295 ..      12     300 .. 0.95

  Alignments for each domain:
  == domain 1  score: 335.3 bits;  conditional E-value: 1.2e-104
          Coprogen_oxidas   2 veellkelqdeivkaleeldgkakfkedeweree.....ggggisrvledgkvfekagvnvsvvegklpesavkqmraekkeelee 82 
                              +++ + +lqdei+kal ++d++ ++ +d w+r +     ggggi+r ++ g+v+e+agvn+s+v g++ ++ +k++        ++
  PHY93_04560|PHY93_04560  13 FHQHVLNLQDEITKALLAIDPTIELINDPWDRLDhkglpGGGGITRAFR-GEVIENAGVNTSKVFGAIDPEFAKKL------GGSG 91 
                              578899*************************976666667******997.9************************9......6789 PP

          Coprogen_oxidas  83 leffaagvslvihprnPlvPtvhlnyryfeaeekkkawWFgGgaDLtPsylfeedavhfHktlkeacdkhdkelypkfKkwcDeyF 168
                              +e+ a+g+sl+ihp+nP vPtvh+n+r++ea    ++ WFgGgaDLtP+y+++ed   fH+t+ +ac ++  ++y+++Kk+cD+yF
  PHY93_04560|PHY93_04560  92 EEMWACGISLIIHPKNPRVPTVHANFRMIEA---GNKFWFGGGADLTPFYPHKEDFDFFHHTWASACAPY--HCYEQMKKECDQYF 172
                              99*****************************...567********************************9..68************ PP

          Coprogen_oxidas 169 yikhRk.eaRGvGGiffddlkes.aeelfafvksvgeaflpaYlpivekrkdtpyteeerewqllrrgryveFnLvyDrGtkfGLq 252
                              +++hR+ e+RG+GGiffd++++s  ++ + +vk+++++f+++Y+pivekrkd++yt+e++++ql rrgryveFnL++DrGt+fGL+
  PHY93_04560|PHY93_04560 173 VNTHRGgEMRGIGGIFFDHFNTSnLNSDIGMVKDLSNHFIKSYFPIVEKRKDEAYTDEDEDFQLHRRGRYVEFNLLHDRGTMFGLK 258
                              *****77**************6658999********************************************************** PP

          Coprogen_oxidas 253 tegrvesiLmslPptarweyelepeegseeaellevl 289
                              t+gr++siL+slP++a+++y+++p +gs++ae+++++
  PHY93_04560|PHY93_04560 259 TNGRTDSILISLPARAKFSYKYQPPAGSPHAEMMKYY 295
                              *********************************9976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (302 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       417  (0.0232584); expected 358.6 (0.02)
Passed bias filter:                      375  (0.0209158); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.43
# Mc/sec: 2120.48
//
Query:       PHY93_04565|PHY93_04565  [L=241]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.8e-24   84.0   0.0    8.5e-24   83.5   0.0    1.3  1  DUF3943   Domain of unknown function (DUF3943)


Domain annotation for each model (and alignments):
>> DUF3943  Domain of unknown function (DUF3943)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   83.5   0.0   4.7e-28   8.5e-24       2     106 ..     111     211 ..     110     217 .. 0.89

  Alignments for each domain:
  == domain 1  score: 83.5 bits;  conditional E-value: 4.7e-28
                  DUF3943   2 fvwDkdkfaiNlvgHpyaGslyylaaRsaglsfwesllyallgStlwElgvE.faekpSinDlivTplgGvvlGevlyrlsekiln 86 
                              +v+D+d+  +N ++Hp++Gs +yl +R+ g++ ++++ +++++S+l+E++vE f+e+ S++Dl++Tp++G+vlG  + ++s  +ln
  PHY93_04565|PHY93_04565 111 LVFDQDEPFWNNFVHPLSGSQLYLLYRADGYDRLSAFEMTFVSSALFEMTVEiFTEPGSVQDLYQTPVLGTVLGFGIENASMYLLN 196
                              689**********************************************************************************5 PP

                  DUF3943  87 erklgesrvlrevlaflldP 106
                              ++++      +++l ++++P
  PHY93_04565|PHY93_04565 197 SGNTL-----GKILGHAINP 211
                              55544.....4444444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (241 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       431  (0.0240393); expected 358.6 (0.02)
Passed bias filter:                      378  (0.0210832); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1778.75
//
Query:       PHY93_04570|PHY93_04570  [L=237]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    6.9e-09   36.1   1.6    9.3e-09   35.7   1.6    1.2  1  OMP_b-brl  Outer membrane protein beta-barrel domain


Domain annotation for each model (and alignments):
>> OMP_b-brl  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.7   1.6   5.2e-13   9.3e-09       9     154 ..      21     197 ..      10     222 .. 0.68

  Alignments for each domain:
  == domain 1  score: 35.7 bits;  conditional E-value: 5.2e-13
                OMP_b-brl   9 lsaaaaaassfggfyvggglglskvkv..........dgv.gsdsgfgfgvgagyefndn.vgvegglsysgdkdysgs.....gk 77 
                              + a+ + +s + +f++++g++++k+++           ++ + +sg gf+ ++gy++nd+ ++++ +++++  kd++ +      +
  PHY93_04570|PHY93_04570  21 ALASVTRNSIDDNFNIKAGISINKIYFktgliptnleREDhTESSGIGFNTSVGYKWNDWeLMISSDVLFGTLKDITFTvdsneVS 106
                              2233333667789**********999999999988873332444689************66*********8888888855665544 PP

                OMP_b-brl  78 tdikinllsvpvnagya..fnlsdsvlpyggaGlgytkvevdvsgng........asdsdtdfglglgaGveyalad....nwslk 149
                               d + ++++++  ++y+  + ++++++++  aG++++  +++ +++         +  s+ + g ++ +G+e  ++      ++++
  PHY93_04570|PHY93_04570 107 GDGNFRFFTLSPLLRYYtpYTIGHRWNLFYSAGPTWSLHTFTLNNTSrgtnfssgKRISFENRGGSINIGFEEIVPYkdthPTYFE 192
                              55666777788889999677889************654444444333445566667889999999999998866663334334444 PP

                OMP_b-brl 150 aeYry 154
                              ++Y y
  PHY93_04570|PHY93_04570 193 IGYSY 197
                              44444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (237 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       375  (0.0209158); expected 358.6 (0.02)
Passed bias filter:                      288  (0.0160634); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.21s 00:00:00.66 Elapsed: 00:00:00.39
# Mc/sec: 1843.37
//
Query:       PHY93_04575|PHY93_04575  [L=370]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.5e-14   52.3   0.6    3.4e-13   50.0   0.1    2.5  3  FecR      FecR protein


Domain annotation for each model (and alignments):
>> FecR  FecR protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0      0.31   5.6e+03       9      25 ..      35      51 ..      23      55 .. 0.70
   2 !   50.0   0.1   1.9e-17   3.4e-13       2      95 ..      60     162 ..      59     163 .. 0.88
   3 ?   -3.0   0.0      0.65   1.2e+04      55      93 ..     187     196 ..     170     207 .. 0.53

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.31
                     FecR  9 sraeilleDgsvvrlne 25
                             ++++ +l Dgs + + +
  PHY93_04575|PHY93_04575 35 GQVKAKLLDGSIIDVRP 51
                             45666677777777666 PP

  == domain 2  score: 50.0 bits;  conditional E-value: 1.9e-17
                     FecR   2 virTgagsraeilleDgsvvrlnensslekaadsskrrrevsllkGevlfdvakdkk.......rpfevktpsatigvrgtef..r 78 
                              +++T+++s +++ + D+s+++l++ns++  +   +k+   ++l+kG+++ +v+kd          ++ +kt++a +g+rgt+f  +
  PHY93_04575|PHY93_04575  60 TLQTAEKSFVKLIFIDKSQMNLGPNSQMIINTFPKKEAGIITLVKGQLRSQVTKDYMemddkskSKLYIKTKTAAMGIRGTDFqvN 145
                              789*************************888888888888************99877676665344*****************554 PP

                     FecR  79 vrksdkqtevavleGeV 95 
                               + ++++t + ++eG+V
  PHY93_04575|PHY93_04575 146 FNPENQNTALITFEGKV 162
                              479*************9 PP

  == domain 3  score: -3.0 bits;  conditional E-value: 0.65
                     FecR  55 kdkkrpfevktpsatigvrgtefrvrksdkqtevavleG 93 
                              +dk+                             v v +G
  PHY93_04575|PHY93_04575 187 SDKA-----------------------------VMVEHG 196
                              3222.............................222222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (370 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       441  (0.024597); expected 358.6 (0.02)
Passed bias filter:                      266  (0.0148363); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.19s 00:00:00.72 Elapsed: 00:00:00.39
# Mc/sec: 2811.33
//
Query:       PHY93_04580|PHY93_04580  [L=137]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0026   18.8  10.0     0.0027   18.8  10.0    1.2  1  Rib_recp_KP_reg  Ribosome receptor lysine/proline rich region
  ------ inclusion threshold ------
      0.064   13.6   5.3      0.072   13.4   5.3    1.2  1  Vfa1             AAA-ATPase Vps4-associated protein 1
       0.41   10.3   5.6        7.1    6.3   5.5    2.0  2  FAM176           FAM176 family
        5.4    7.5   8.1        7.7    7.0   8.1    1.3  1  CENP-B_dimeris   Centromere protein B dimerisation domain


Domain annotation for each model (and alignments):
>> Rib_recp_KP_reg  Ribosome receptor lysine/proline rich region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8  10.0     6e-07    0.0027      24      93 ..       4      77 ..       1     133 [. 0.73

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 6e-07
          Rib_recp_KP_reg 24 rrdkkkKdKvsekKkkakkKedkpngkipEsestqepaeekseseaevvveaepaPvvaaapaavaePv.....k 93
                             ++d kk +K  ekK  +kk + k n k  +  + q pa+ + +    ++++ ++aP+ a+ + +  +P       
  PHY93_04580|PHY93_04580  4 KKDEKKDEKKDEKKD-DKKDDKKENDKTSDPTTAQSPAPGAGNRAPASAEAGATAPAPAIMAIKLDVPKiydarP 77
                             557777777777777.777777899999999999*****888888888888888888899999999997443331 PP

>> Vfa1  AAA-ATPase Vps4-associated protein 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   5.3   1.6e-05     0.072      85     117 ..       4      33 ..       1      85 [. 0.44

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 1.6e-05
                     Vfa1  85 kkkekekkkkekdkkdkdkkkekekdkkkekek 117
                              kk+ek+++   k++++kd+kk+++k+++k++++
  PHY93_04580|PHY93_04580   4 KKDEKKDE---KKDEKKDDKKDDKKENDKTSDP 33 
                              11111111...1111222222222222222211 PP

>> FAM176  FAM176 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.3   5.5    0.0016       7.1      65      90 ..       6      31 ..       1      59 [. 0.43
   2 ?    2.6   0.0     0.022     1e+02     110     137 ..      98     126 ..      74     134 .. 0.83

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.0016
                   FAM176 65 sekasededeeeeeeeedsseseaee 90
                             +ek++e++de ++++++d++e++ ++
  PHY93_04580|PHY93_04580  6 DEKKDEKKDEKKDDKKDDKKENDKTS 31
                             11222222222222222222222222 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.022
                   FAM176 110 lerAqRlEeRerii.rEIWrngqpdigsg 137
                              l  AqR    eri+  EI r +  d+g++
  PHY93_04580|PHY93_04580  98 LSDAQRAVAAERILtTEIVRQSATDLGTS 126
                              5679999999**9845*********9443 PP

>> CENP-B_dimeris  Centromere protein B dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.0   8.1    0.0017       7.7      12      39 ..       5      32 ..       1      50 [. 0.51

  Alignments for each domain:
  == domain 1  score: 7.0 bits;  conditional E-value: 0.0017
           CENP-B_dimeris 12 sesesdeeeeeeeedeededeeddeddd 39
                              + + de+++e+++d++d+ +e+d+ +d
  PHY93_04580|PHY93_04580  5 KDEKKDEKKDEKKDDKKDDKKENDKTSD 32
                             3444444444444454444444444443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (137 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1365  (0.0761336); expected 358.6 (0.02)
Passed bias filter:                      744  (0.041497); expected 358.6 (0.02)
Passed Vit filter:                       152  (0.00847788); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.53u 0.25s 00:00:00.78 Elapsed: 00:00:00.43
# Mc/sec: 964.29
//
Query:       PHY93_04585|PHY93_04585  [L=536]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    9.8e-09   34.7  13.8     0.0001   22.1   0.3    4.6  4  TPR_2      Tetratricopeptide repeat
    8.1e-07   29.5   4.4    1.2e-06   28.9   1.5    2.6  2  TPR_19     Tetratricopeptide repeat
    4.4e-06   27.2   3.5      0.026   15.2   0.0    2.8  2  TPR_16     Tetratricopeptide repeat
    1.2e-05   24.8   0.6    1.2e-05   24.8   0.6    4.3  4  TPR_1      Tetratricopeptide repeat
    2.6e-05   24.4  11.9    0.00021   21.5   2.1    2.6  2  ANAPC3     Anaphase-promoting complex, cyclosome, subunit 3
    0.00027   21.5   1.8       0.64   11.0   1.1    3.6  4  TPR_14     Tetratricopeptide repeat
    0.00039   20.4   0.9    0.00039   20.4   0.9    4.9  5  TPR_8      Tetratricopeptide repeat
     0.0012   19.0   9.2      0.017   15.4   3.7    3.0  3  TPR_12     Tetratricopeptide repeat
     0.0025   18.4   9.8       0.07   13.8   0.1    4.4  4  TPR_6      Tetratricopeptide repeat
     0.0026   17.4   8.0      0.026   14.2   2.2    3.3  3  TPR_11     TPR repeat
     0.0055   16.6   0.1      0.029   14.4   0.0    2.2  2  TPR_7      Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.056   13.1   2.7       0.13   12.0   2.7    1.6  1  Med4       Vitamin-D-receptor interacting Mediator subunit 4
       0.18   11.4   3.3       0.23   11.1   0.4    2.4  3  Rota_NSP4  Rotavirus non structural protein
       0.66   10.5   4.2        1.7    9.2   0.6    3.2  2  TPR_17     Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.1     0.029        38      11      26 ..      41      56 ..      39      59 .. 0.90
   2 !   22.1   0.3   8.2e-08    0.0001       5      30 ..      69      94 ..      68      98 .. 0.90
   3 !   10.1   2.8   0.00058      0.74       3      28 ..     101     126 ..      99     131 .. 0.90
   4 ?    2.5   0.0      0.16     2e+02       5      29 ..     137     161 ..     133     166 .. 0.86

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.029
                    TPR_2 11 yyklgdyeeAleafek 26
                              yk+g+y +Al a+ek
  PHY93_04585|PHY93_04585 41 FYKSGQYLKALTALEK 56
                             69************99 PP

  == domain 2  score: 22.1 bits;  conditional E-value: 8.2e-08
                    TPR_2  5 ynlGlayyklgdyeeAleafekAlel 30
                             y  Gl+y kl++y++A++ fekA++ 
  PHY93_04585|PHY93_04585 69 YLEGLCYSKLQEYDKAIKSFEKAISE 94
                             789********************986 PP

  == domain 3  score: 10.1 bits;  conditional E-value: 0.00058
                    TPR_2   3 alynlGlayyklgdyeeAleafekAl 28 
                              + y+ G+a+y++++++ A++af+++ 
  PHY93_04585|PHY93_04585 101 LQYEYGQALYAANELKAARKAFKESA 126
                              6799*******************986 PP

  == domain 4  score: 2.5 bits;  conditional E-value: 0.16
                    TPR_2   5 ynlGlayyklgdyeeAleafekAle 29 
                              y+ + +   l +y  A++ + + ++
  PHY93_04585|PHY93_04585 137 YYVAHISQILEEYPAAKDSYTELIK 161
                              7888899999************997 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.0       1.6     2e+03       2      17 ..      42      57 ..      41      66 .. 0.74
   2 !   28.9   1.5   9.5e-10   1.2e-06       5      55 ..      79     129 ..      76     137 .. 0.91

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 1.6
                   TPR_19  2 laegdyaeAlalleqa 17
                             +++g+y  Al +le+ 
  PHY93_04585|PHY93_04585 42 YKSGQYLKALTALEKS 57
                             5678888888888775 PP

  == domain 2  score: 28.9 bits;  conditional E-value: 9.5e-10
                   TPR_19   5 gdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeed 55 
                              + y+ A++ +e+a++e+++n ++++ + +al+a+++l++A+++ ++  +++
  PHY93_04585|PHY93_04585  79 QEYDKAIKSFEKAISEKNGNTDLQYEYGQALYAANELKAARKAFKESAAKK 129
                              68****************************************998876665 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0     2e-05     0.026      11      62 ..      45      93 ..      35     100 .. 0.82
   2 !   11.1   1.7   0.00037      0.47      35      61 ..     100     126 ..      94     135 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 2e-05
                   TPR_16 11 gdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraalr 62
                             g+y   ++al+a+ k+++ + +  + ++l g+++ +++++++A+  +++a+ 
  PHY93_04585|PHY93_04585 45 GQY---LKALTALEKSNSNDFLLGQHAYLEGLCYSKLQEYDKAIKSFEKAIS 93
                             444...5555888999988899**********************99999874 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 0.00037
                   TPR_16  35 eAllllgdaalrqgrlaeAaalyraal 61 
                              + ++++g+a++++++l++A+ ++++ +
  PHY93_04585|PHY93_04585 100 DLQYEYGQALYAANELKAARKAFKESA 126
                              679*****************9998876 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.1      0.12   1.5e+02      11      26 ..      41      56 ..      39      57 .. 0.89
   2 !   24.8   0.6   9.7e-09   1.2e-05       7      29 ..      71      93 ..      69      96 .. 0.92
   3 ?    0.1   2.9      0.66   8.5e+02       8      26 ..     106     124 ..     103     127 .. 0.94
   4 ?   -0.1   0.0      0.72   9.2e+02       8      26 ..     140     158 ..     135     161 .. 0.80

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.12
                             HHHTT-HHHHHHHHHH CS
                    TPR_1 11 yfklgkydeAleyyek 26
                             ++k g+y +Al + ek
  PHY93_04585|PHY93_04585 41 FYKSGQYLKALTALEK 56
                             89**********9998 PP

  == domain 2  score: 24.8 bits;  conditional E-value: 9.7e-09
                             HHHHHHHTT-HHHHHHHHHHHHH CS
                    TPR_1  7 lGnayfklgkydeAleyyekALe 29
                              G++y kl++yd+A++ +ekA++
  PHY93_04585|PHY93_04585 71 EGLCYSKLQEYDKAIKSFEKAIS 93
                             69*******************96 PP

  == domain 3  score: 0.1 bits;  conditional E-value: 0.66
                              HHHHHHTT-HHHHHHHHHH CS
                    TPR_1   8 GnayfklgkydeAleyyek 26 
                              G+a++  ++++ A +++++
  PHY93_04585|PHY93_04585 106 GQALYAANELKAARKAFKE 124
                              89***************97 PP

  == domain 4  score: -0.1 bits;  conditional E-value: 0.72
                              HHHHHHTT-HHHHHHHHHH CS
                    TPR_1   8 GnayfklgkydeAleyyek 26 
                              +++ + l++y  A + y +
  PHY93_04585|PHY93_04585 140 AHISQILEEYPAAKDSYTE 158
                              56667799*********87 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   2.1   1.6e-07   0.00021      33      82 .]      41      91 ..      27      91 .. 0.90
   2 !   10.3   3.2   0.00051      0.65       8      75 ..      84     152 ..      84     158 .. 0.84

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 1.6e-07
                             HHHTT-HHHHHHHHHCTSHHHC-H.HHHHHHHHHHHHTT-HHHHHHHH-SS CS
                   ANAPC3 33 lylngqykrAyellrkaklnsksl.gcrylfAqcllkLkkyeeAiaaLekl 82
                             +y++gqy +A++ l+k+++n+  l + +yl + c+ kL++y++Ai+ +ek+
  PHY93_04585|PHY93_04585 41 FYKSGQYLKALTALEKSNSNDFLLgQHAYLEGLCYSKLQEYDKAIKSFEKA 91
                             69***************66666668899*******************9985 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 0.00051
                              HHHHHHHHH.HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-HHHHHHHHHHHHHTT-HHHH CS
                   ANAPC3   8 AiflaerllaaetespedayllAlclylngqykrAyellrka.klnskslgcrylfAqcllkLkkyeeA 75 
                              Ai  +e++ + ++ + +  y ++++ly +++ k A + ++++  ++ + +++ y  A+ +  L++y  A
  PHY93_04585|PHY93_04585  84 AIKSFEKAISEKNGNTDLQYEYGQALYAANELKAARKAFKESaAKKFNAPASIYYVAHISQILEEYPAA 152
                              677789999455555555888*********************999999999999999999999888655 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0         6   7.7e+03      11      26 ..      41      56 ..      29      61 .. 0.74
   2 !   10.1   0.0   0.00096       1.2      11      43 ..      75     107 ..      65     107 .. 0.87
   3 !   11.0   1.1    0.0005      0.64       3      29 ..     101     127 ..      99     141 .. 0.82
   4 ?   -1.7   0.0         6   7.7e+03      22      38 ..     205     221 ..     203     223 .. 0.85

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 6
                   TPR_14 11 llalGdpdeAiallrr 26
                             ++ +G++ +A+++l++
  PHY93_04585|PHY93_04585 41 FYKSGQYLKALTALEK 56
                             4567777777777775 PP

  == domain 2  score: 10.1 bits;  conditional E-value: 0.00096
                   TPR_14  11 llalGdpdeAiallrralalaPddaeawlllaq 43 
                              +  l+++d+Ai+ +++a++   ++ +++++++q
  PHY93_04585|PHY93_04585  75 YSKLQEYDKAIKSFEKAISEKNGNTDLQYEYGQ 107
                              67899**************99999999999987 PP

  == domain 3  score: 11.0 bits;  conditional E-value: 0.0005
                   TPR_14   3 allalaeallalGdpdeAiallrrala 29 
                              +++++++al+a+ ++++A++++++  a
  PHY93_04585|PHY93_04585 101 LQYEYGQALYAANELKAARKAFKESAA 127
                              799********************9765 PP

  == domain 4  score: -1.7 bits;  conditional E-value: 6
                   TPR_14  22 allrralalaPddaeaw 38 
                               +lr+a +++ ++++a+
  PHY93_04585|PHY93_04585 205 PMLRQAYSTDKSSQAAY 221
                              699*****999999886 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.1       1.5     2e+03      13      27 ..      43      57 ..      28      61 .. 0.82
   2 !   20.4   0.9     3e-07   0.00039       5      30 ..      69      94 ..      68      98 .. 0.90
   3 ?    2.0   1.4      0.25   3.2e+02       3      26 ..     101     124 ..      99     126 .. 0.89
   4 ?    1.4   0.2      0.36   4.7e+02       8      33 ..     140     165 ..     136     166 .. 0.87
   5 ?   -1.3   0.0       2.8   3.6e+03       7      23 ..     355     371 ..     353     373 .. 0.87

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 1.5
                             HTT-HHHHHHHHHHH CS
                    TPR_8 13 klgdyeeAkeyyeka 27
                             k g+y +A  ++ek 
  PHY93_04585|PHY93_04585 43 KSGQYLKALTALEKS 57
                             568888888888885 PP

  == domain 2  score: 20.4 bits;  conditional E-value: 3e-07
                             HHHHHHHHHTT-HHHHHHHHHHHHHH CS
                    TPR_8  5 ynlgsiylklgdyeeAkeyyekalel 30
                             y+ g++y+kl++y++A++++eka++ 
  PHY93_04585|PHY93_04585 69 YLEGLCYSKLQEYDKAIKSFEKAISE 94
                             67799*******************85 PP

  == domain 3  score: 2.0 bits;  conditional E-value: 0.25
                              HHHHHHHHHHHTT-HHHHHHHHHH CS
                    TPR_8   3 ayynlgsiylklgdyeeAkeyyek 26 
                              + y  g+++   +++++A +++++
  PHY93_04585|PHY93_04585 101 LQYEYGQALYAANELKAARKAFKE 124
                              57899*****************97 PP

  == domain 4  score: 1.4 bits;  conditional E-value: 0.36
                              HHHHHHTT-HHHHHHHHHHHHHHHHH CS
                    TPR_8   8 gsiylklgdyeeAkeyyekaleldpd 33 
                              ++i + l++y +Ak +y + ++ +++
  PHY93_04585|PHY93_04585 140 AHISQILEEYPAAKDSYTELIKSKEA 165
                              67888899999**********98876 PP

  == domain 5  score: -1.3 bits;  conditional E-value: 2.8
                              HHHHHHHTT-HHHHHHH CS
                    TPR_8   7 lgsiylklgdyeeAkey 23 
                              lg+++++ ++ ++ ++y
  PHY93_04585|PHY93_04585 355 LGKTLKDWKQTHKREAY 371
                              899*******9999887 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.2   1.8e-05     0.022      26      72 ..      47      92 ..      39      93 .. 0.82
   2 !   15.4   3.7   1.3e-05     0.017      10      72 ..      72     126 ..      66     128 .. 0.85
   3 ?   -3.0   0.0       7.5   9.6e+03       8      28 ..     138     158 ..     134     163 .. 0.63

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 1.8e-05
                   TPR_12 26 lekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleeal 72
                             + kal + +++ + +  l+ +  +  g +y++l +y++A++ +e+a+
  PHY93_04585|PHY93_04585 47 YLKALTALEKS-NSNDFLLGQHAYLEGLCYSKLQEYDKAIKSFEKAI 92
                             45566666555.68899999************************996 PP

  == domain 2  score: 15.4 bits;  conditional E-value: 1.3e-05
                   TPR_12  10 aavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleeal 72 
                              ++++ +l++yd+A++ +eka  i ++   ++       ++ +g++++a++++++A+++++e+ 
  PHY93_04585|PHY93_04585  72 GLCYSKLQEYDKAIKSFEKA--ISEKN--GNT----DLQYEYGQALYAANELKAARKAFKESA 126
                              89******************..55544..444....3689********************985 PP

  == domain 3  score: -3.0 bits;  conditional E-value: 7.5
                   TPR_12   8 nlaavlrrlgrydeAlellek 28 
                               +a++ + l++y  A + + +
  PHY93_04585|PHY93_04585 138 YVAHISQILEEYPAAKDSYTE 158
                              566666777777777666655 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.0      0.63     8e+02      11      25 ..      42      56 ..      24      56 .. 0.75
   2 !   13.8   0.1   5.5e-05      0.07       4      28 ..      69      93 ..      68      94 .. 0.90
   3 ?    3.6   2.0     0.099   1.3e+02       3      24 ..     102     123 ..     100     126 .. 0.91
   4 ?    1.0   0.0      0.67   8.6e+02       9      28 ..     143     161 ..     135     162 .. 0.75

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 0.63
                             HHHHHHHHHHHHHHH CS
                    TPR_6 11 rklgdtdkAlealer 25
                             +k g++ kAl+ale+
  PHY93_04585|PHY93_04585 42 YKSGQYLKALTALEK 56
                             3437********996 PP

  == domain 2  score: 13.8 bits;  conditional E-value: 5.5e-05
                             HHHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6  4 yklalsyrklgdtdkAlealerlik 28
                             y+ +l+y kl+++dkA++ +e+ i+
  PHY93_04585|PHY93_04585 69 YLEGLCYSKLQEYDKAIKSFEKAIS 93
                             6779*****77***********997 PP

  == domain 3  score: 3.6 bits;  conditional E-value: 0.099
                              HHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   3 lyklalsyrklgdtdkAleale 24 
                              +y  +++++++++  +A++a++
  PHY93_04585|PHY93_04585 102 QYEYGQALYAANELKAARKAFK 123
                              799*******99********97 PP

  == domain 4  score: 1.0 bits;  conditional E-value: 0.67
                              HHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   9 syrklgdtdkAlealerlik 28 
                              s++   ++ +A++ + +lik
  PHY93_04585|PHY93_04585 143 SQILE-EYPAAKDSYTELIK 161
                              56656.88999999999998 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.0   0.2     0.016        20       2      19 ..      39      56 ..      39      57 .. 0.91
   2 !   14.2   2.2     2e-05     0.026       4      40 ..      75     111 ..      72     113 .. 0.92
   3 ?    3.2   0.1     0.054        69       1      19 [.     106     124 ..     106     129 .. 0.92

  Alignments for each domain:
  == domain 1  score: 5.0 bits;  conditional E-value: 0.016
                   TPR_11  2 dayyeqGkyeeAieaYkk 19
                             + +y+ G+y +A++a++k
  PHY93_04585|PHY93_04585 39 NQFYKSGQYLKALTALEK 56
                             789***********9987 PP

  == domain 2  score: 14.2 bits;  conditional E-value: 2e-05
                   TPR_11   4 yyeqGkyeeAieaYkkAlkldPdnaeayynLGlayyk 40 
                              y ++++y++Ai++++kA+  ++ n ++ y+ G+a+y+
  PHY93_04585|PHY93_04585  75 YSKLQEYDKAIKSFEKAISEKNGNTDLQYEYGQALYA 111
                              66899******************************96 PP

  == domain 3  score: 3.2 bits;  conditional E-value: 0.054
                   TPR_11   1 GdayyeqGkyeeAieaYkk 19 
                              G+a+y+ +++++A +a+k+
  PHY93_04585|PHY93_04585 106 GQALYAANELKAARKAFKE 124
                              99*************9987 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0       9.4   1.2e+04      22      31 ..      47      57 ..      43      60 .. 0.55
   2 !   14.4   0.0   2.2e-05     0.029       6      30 ..      72      94 ..      69      99 .. 0.86

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 9.4
                    TPR_7 22 yeqsL.altkd 31
                             y ++L al+k+
  PHY93_04585|PHY93_04585 47 YLKALtALEKS 57
                             44455555554 PP

  == domain 2  score: 14.4 bits;  conditional E-value: 2.2e-05
                    TPR_7  6 arlysrlGdyeeAielyeqsLaltk 30
                             + +ys+l++y++Ai+ +e+  a+ +
  PHY93_04585|PHY93_04585 72 GLCYSKLQEYDKAIKSFEK--AISE 94
                             568****************..7655 PP

>> Med4  Vitamin-D-receptor interacting Mediator subunit 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   2.7    0.0001      0.13      12      98 ..     163     250 ..     157     331 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.0001
                     Med4  12 delskslkeleehqknearilqLraeveslDekikeivksLkeyekeLkavpdqenskldtasiklaekrevdse.....eLLdYA 92 
                              +e  +++k++ ++q  e+ +l +r++++++De  k+++k ++ +   L+++ + ++s  ++a+  +++ +e++ e     +LL+  
  PHY93_04585|PHY93_04585 163 KEADTKIKQIARFQLTETLLLMMREKIQNKDELEKNVAKYIVPM---LRQAYSTDKSS-QAAYEIEQRLHEIQKEfnldpDLLANG 244
                              667899*********************************99988...55555333333.356666666666665533335788888 PP

                     Med4  93 rrISky 98 
                              rrIS+ 
  PHY93_04585|PHY93_04585 245 RRISSK 250
                              888875 PP

>> Rota_NSP4  Rotavirus non structural protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0         2   2.5e+03     143     171 ..      87     115 ..      71     117 .. 0.77
   2 ?   11.1   0.4   0.00018      0.23      64     123 ..     166     225 ..     131     236 .. 0.73
   3 ?   -0.8   0.1      0.82     1e+03     141     153 ..     494     506 ..     483     522 .. 0.73

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 2
                Rota_NSP4 143 dmtkeinqknvrtleewesgknpyeprev 171
                               + k i +kn  t  ++e g+  y   e+
  PHY93_04585|PHY93_04585  87 SFEKAISEKNGNTDLQYEYGQALYAANEL 115
                              56789999999999999999999988876 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 0.00018
                Rota_NSP4  64 sykvvkycivtifntllklagykeqittkdeiekqmdrvvkemrrqlemidklt..treieq 123
                                k+ + +   + +tll +   +e+i  kde+ek++ + +  m rq    dk +  + eieq
  PHY93_04585|PHY93_04585 166 DTKIKQIARFQLTETLLLM--MREKIQNKDELEKNVAKYIVPMLRQAYSTDKSSqaAYEIEQ 225
                              4555555555666676654..699***************************97611457776 PP

  == domain 3  score: -0.8 bits;  conditional E-value: 0.82
                Rota_NSP4 141 eidmtkeinqknv 153
                               id++kein+k  
  PHY93_04585|PHY93_04585 494 SIDLSKEINEKMK 506
                              69*******9854 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.2      0.65   8.3e+02      12      34 .]      61      86 ..      47      86 .. 0.69
   2 ?    9.2   0.6    0.0014       1.7       2      34 .]      88     120 ..      87     120 .. 0.95

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.65
                   TPR_17 12 n...adaynnLAelllknGdlmtArq 34
                             +     + ++ + +++k+ ++++A++
  PHY93_04585|PHY93_04585 61 DfllGQHAYLEGLCYSKLQEYDKAIK 86
                             35555666777889999999999985 PP

  == domain 2  score: 9.2 bits;  conditional E-value: 0.0014
                   TPR_17   2 ylkaleldPnnadaynnLAelllknGdlmtArq 34 
                              ++ka+     n d+ ++++++l+ +++l+ Ar+
  PHY93_04585|PHY93_04585  88 FEKAISEKNGNTDLQYEYGQALYAANELKAARK 120
                              89****************************996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (536 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1447  (0.0807072); expected 358.6 (0.02)
Passed bias filter:                      447  (0.0249317); expected 358.6 (0.02)
Passed Vit filter:                        63  (0.00351386); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.75u 0.28s 00:00:01.03 Elapsed: 00:00:00.57
# Mc/sec: 2836.46
//
Query:       PHY93_04590|PHY93_04590  [L=736]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.4e-48  165.8   0.0    2.2e-48  165.2   0.0    1.2  1  CHASE2         CHASE2 domain
    3.5e-31  108.3   0.0    6.7e-31  107.3   0.0    1.4  1  Guanylate_cyc  Adenylate and Guanylate cyclase catalytic doma
  ------ inclusion threshold ------
      0.092   13.4   0.1       0.96   10.2   0.2    2.5  2  TPR_6          Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> CHASE2  CHASE2 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  165.2   0.0   3.7e-52   2.2e-48      14     244 ..      44     372 ..      17     385 .. 0.71

  Alignments for each domain:
  == domain 1  score: 165.2 bits;  conditional E-value: 3.7e-52
                   CHASE2  14 llqlelklyDlllrlrge...pe..iviVaIDeeslae.grwpwsravlarllerLeaagakaiglDilfsepeey......deal 87 
                                 +e +++Dl+++   +   ++   v+ aID+ sl++ grwpw+r+++a+l+++L   gak++++D+++sepe        d  l
  PHY93_04590|PHY93_04590  44 ASFFEDRFFDLRMKFTIDknkKDnrMVLAAIDDHSLNKiGRWPWTRTKHAKLIDKLGTFGAKILAFDVFYSEPEVAcnaespDIVL 129
                              233999*****99965556562267***********989*********************************87778888899999 PP

                   CHASE2  88 aealak.....gpnvv.....................................................p....aaaglGfvnvvp 111
                              a++++      g++v+                                                     p    +  g+ ++++++
  PHY93_04590|PHY93_04590 130 ANSIKAfqsipGRKVIlpysvdakysdkideenyykeapeqllnfmldtkqsqganlqanivgrkvypiPilanSDVGISHIEAEA 215
                              99998866666333434555555555555666666666666666666666666666555555555554414433558888999999 PP

                   CHASE2 112 DaDgvvRr.pllvese..lipslalalalryl.kaeklrlpvdesgg.......lllnyrgg.sk........tfptvsladvle. 176
                              D+Dgv+R+ pl+ + +  ++ps+al++++ y+ ++ ++++p  e+++        +lny+ g +k        +fp v+++d+++ 
  PHY93_04590|PHY93_04590 216 DSDGVFRHyPLVTNIDsiYFPSFALQAYQFYTgDKPTVEIPSPETAMlkskmgvSYLNYN-GeTKirwlggldHFPVVPIYDIFNa 300
                              ********999988889************9996444556666663333344556777885.43222333334358*********87 PP

                   CHASE2 177 ...vpp...eefkdkiVliGatatglkdlfstPfssempgveihAnalsnll..salk.pgefllevppewaellwl 244
                                   p   e fkdkiV+i++ta g++dl++tP++s +pgv +h n+++ ll  ++   ++e      +  + ll++
  PHY93_04590|PHY93_04590 301 kdgD-PkmsEIFKDKIVFIASTAFGAHDLRNTPVDSALPGVVFHMNMVHMLLdgKFFVsENEST----KYSWILLAI 372
                              8853.3466689**********************99****************664443232222....112222222 PP

>> Guanylate_cyc  Adenylate and Guanylate cyclase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  107.3   0.0   1.1e-34   6.7e-31       6     180 ..     475     659 ..     473     661 .. 0.93

  Alignments for each domain:
  == domain 1  score: 107.3 bits;  conditional E-value: 1.1e-34
            Guanylate_cyc   6 ydevtilFadIvgftalssahspievvklLnelyarfdelldekkvykvktiGdaymvvsglpeekaahaaklaelaLdmlealee 91 
                              ++++t++F+d+++ft++s++ +p+++   Ln++++ + + l e++++ +k+iGda +++ g+p + ++h +++++ a++m+e l  
  PHY93_04590|PHY93_04590 475 KKNITVFFSDVRDFTSISEKLTPEQLTLCLNKYMTMMTDTLFEHQGTLDKYIGDAMVAYWGAPVDLENHPYWAIKGAIAMIERLPM 560
                              689*******************************************************************************9987 PP

            Guanylate_cyc  92 vaves....keglkvrvGihtGpvvagviG.akkprydvwGntvnlAsrmestgkagkiqv..seetyellk...eeqfelterge 167
                              +++e     ++ +k ++G++tG++ +g +G ++ + y+  G++ nl +r+es+ k + +q+  se t++        +f+++ +++
  PHY93_04590|PHY93_04590 561 INEEFkrdgFPTFKHGIGLNTGECSVGNMGsNQIFSYTALGDNMNLGARLESLCKFYGVQLniSEYTKNAIPpelAVEFTFRTLDK 646
                              77765444579*******************88899*******************988776544******999988899******** PP

            Guanylate_cyc 168 vevkGkgkletyf 180
                              v vkGk+k+ t++
  PHY93_04590|PHY93_04590 647 VRVKGKEKALTIY 659
                              ******9998875 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.0      0.51     3e+03      16      26 ..     652     662 ..     645     665 .. 0.86
   2 ?   10.2   0.2   0.00016      0.96       3      32 ..     677     706 ..     677     707 .. 0.86

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 0.51
                              HHHHHHHHHHH CS
                    TPR_6  16 tdkAlealerl 26 
                              ++kAl+++e l
  PHY93_04590|PHY93_04590 652 KEKALTIYEVL 662
                              79******988 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 0.00016
                              HHHHHHHHHH.HHHHHHHHHHHHHHHHH-TT CS
                    TPR_6   3 lyklalsyrk.lgdtdkAlealerlikeYPd 32 
                              ly +  +++  l + ++A ++l+ l ++YP+
  PHY93_04590|PHY93_04590 677 LYEQSFAMYLkL-NFTDASAILQTLKDKYPE 706
                              677777788669.*****************7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (736 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       649  (0.0361983); expected 358.6 (0.02)
Passed bias filter:                      439  (0.0244855); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.71u 0.24s 00:00:00.95 Elapsed: 00:00:00.46
# Mc/sec: 4781.20
//
Query:       PHY93_04595|PHY93_04595  [L=448]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00062   20.0   0.3     0.0013   18.9   0.3    1.6  1  HD        HD domain


Domain annotation for each model (and alignments):
>> HD  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.3   7.5e-08    0.0013       2     113 ..     279     400 ..     278     418 .. 0.83

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 7.5e-08
                              HHHHHHHHHHHHHHHHHHHH..HHHHHHHHHHHHHTTTTHHHHTS..HHH................HHHCTCCHHHHHHHHHHHHH CS
                       HD   2 leHsleVaklarrlaedlge..eedrellllaaLlHDiGkgpfgdafekk................eeefekflaHekvgaeilre 69 
                              ++Hs+ V ++a  + + +    e  +e++ +   +HDi   p++ +                    e+e+++ l+H+k +ae++  
  PHY93_04595|PHY93_04595 279 FTHSMIVSYVAYHMIKNVTWggEGQVEKINFVLFFHDIFLAPIYLK---HpelkiesallenskldEKEKDIVLNHAKLAAELVVG 361
                              89****************99**********************8854...24447899988887765444***************** PP

                              HHHHHHHHHHHHHHHHHTTCCHHHHHHHHH.HHHCCTSCHHHHHH CS
                       HD  70 vekrlgldledvaklirehheswegkkrpr.glaerqlsleariv 113
                              ++  +    + +  li++hh+++ gk+    + ++++ls++++i+
  PHY93_04595|PHY93_04595 362 YKRCP----MGADILIKQHHGMKKGKG--FvKFYMEDLSPLSKII 400
                              *****....558889********9764..2566666666666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (448 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       629  (0.0350828); expected 358.6 (0.02)
Passed bias filter:                      396  (0.0220871); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.22s 00:00:00.78 Elapsed: 00:00:00.40
# Mc/sec: 3345.38
//
Query:       PHY93_04600|PHY93_04600  [L=679]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      3e-50  170.9   0.3    3.8e-50  170.5   0.3    1.1  1  E1_dh            Dehydrogenase E1 component
    8.6e-38  129.0   0.0    1.8e-37  127.9   0.0    1.6  1  Transketolase_C  Transketolase, C-terminal domain
      8e-26   90.8   0.0    2.5e-25   89.2   0.0    1.8  2  Transket_pyr     Transketolase, pyrimidine binding domain
    0.00014   21.1   0.1    0.00077   18.7   0.1    2.1  2  DXP_synthase_N   1-deoxy-D-xylulose-5-phosphate synthase
     0.0021   18.4   0.0     0.0049   17.1   0.0    1.6  1  PFOR_II          Pyruvate:ferredoxin oxidoreductase core doma
  ------ inclusion threshold ------
      0.032   13.2   0.1       0.11   11.4   0.1    1.7  1  Transketolase_N  Transketolase, thiamine diphosphate binding 
       0.09   12.5   0.0       0.23   11.2   0.0    1.7  1  FMN_red          NADPH-dependent FMN reductase


Domain annotation for each model (and alignments):
>> E1_dh  Dehydrogenase E1 component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  170.5   0.3   1.5e-53   3.8e-50       2     300 .]      24     326 ..      23     326 .. 0.94

  Alignments for each domain:
  == domain 1  score: 170.5 bits;  conditional E-value: 1.5e-53
                              HHHHHHHHHHHHHHHHHTTSS.-S-----TT-HHHHHHHHHTS-TT.SEEEESS--HHHHHHTT--HHHHHHHHTT-T.TTSSGTT CS
                    E1_dh   2 klvllrrvedaldalykrkkr.igfyhlsagqealkvgiaaaleke.DliiteYReagvllarglsleeilaeltgkv.kgkggsr 84 
                              +l++l r++d+++ +y ++ +  +  +++ag +a++ +i +a +++ D+++++YR++ + +  gl+ eei+++  +k+ +  +g+r
  PHY93_04600|PHY93_04600  24 ELMTLGRLLDERAPNYLKQAIgWSYHAPYAGHDAIQLAIGQAFTNGeDHLFPYYRDMLTAISAGLTAEEIILNGISKAtDIASGGR 109
                              789**********999999883577779*****************99**********************999999888688999** PP

                              -..-E..BTT..BEEE-SSTTTHHHHHHHHHHHHHHHTS---EEEEEEGGGTT-HHHHHHHHHHHHTT--EEEEEEEESEETTEEH CS
                    E1_dh  85 h.elmyaekesrilggngivgaqvplvaGialaakiegkkevailliGDgAanqGdvyealnlaalwklpvifvveNNkygisTea 169
                              h   ++a+   +i + ++  g    ++ G+a+a+k  +++ vai   G+ + ++G vyea+n a+  klpvifv + N+ygis+++
  PHY93_04600|PHY93_04600 110 HmSNHFAKPAWNIHNVSSCTGNHTLHAVGVARAMKRYKHTGVAISSQGESSVSEGYVYEAINGASNEKLPVIFVFQDNGYGISVPK 195
                              *777777777799999999999988888********************************************************** PP

                              HHH-S---GGG..TTT.TS-EEEEETTSHHHHHHHHHHHHHHHHTTT--EEEEEEE--SS-SSTTSHSHSSSHHHHHHHHHHHH-H CS
                    E1_dh 170 ekasaskeladrargv.gipglrVdgnDplavyeAvkfAaeraregkgpllielvtYRyggHsesDdpstyrtreeveevrkkkdp 254
                              + ++a + +ad   g+ +  +++ dg+D++  ++A  +A+++a e   p+++ + ++R+g Hs sD    yr  +e+ e++++ dp
  PHY93_04600|PHY93_04600 196 RDQTANERVADNFSGFaNLRIIKCDGKDVFDSMSAMDEARRHAIEKMEPVIVHADCVRIGAHSNSDKHEWYRDENEIAEAKAQ-DP 280
                              ************99974789****************************************************999**999999.** PP

                              HHHHHHHHHHTTSS-HHHHHHHHHHHHHHHHHHHHHHHHS----GG CS
                    E1_dh 255 iqrlkelLvkkgvvseeelkeiekevrkeveeavkkaeskkelepe 300
                                r+++ L ++ v  e el  ie+e++k   +a  ka +++ ++p+
  PHY93_04600|PHY93_04600 281 YPRFRKELLEAKVFIESELVIIEEEMKKVMLDAHMKAMKAPNPDPK 326
                              *****************************************99885 PP

>> Transketolase_C  Transketolase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  127.9   0.0   7.2e-41   1.8e-37       1     124 []     549     671 ..     549     671 .. 0.98

  Alignments for each domain:
  == domain 1  score: 127.9 bits;  conditional E-value: 7.2e-41
                              TEEEEEETTSSEEEEEETTHHHHHHHHHHHHHTTTTCEEEEE-SEEESHHHHHHHHHHHHHSEEEEEEEEESTTSHHHHHHHHHHH CS
          Transketolase_C   1 gkaeilregkdvtlvayGsmveealeAaeeLekegisaeVvdlrtvkplDketilesvkktgrlvvveeavkrgGigsevaaalae 86 
                              gka+++reg+d+t+++yG++ +++leAae+L+ eg+++eV+dlr++ plD+e i  svkkt r++vv+e+ ++gG+g e++ ++++
  PHY93_04600|PHY93_04600 549 GKARTRREGSDLTVITYGNTTHMCLEAAEKLATEGYDVEVIDLRSIIPLDEEAIITSVKKTSRCLVVHEDKVFGGFGGELVGIIND 634
                              89************************************************************************************ PP

                              CCCTTCSSEEEEEEE-SSSSSSGHHHHHHHTT-SHHHH CS
          Transketolase_C  87 eafdgldapvkrvggpdviepgsaeelekafgldaeki 124
                              +af++ldapvkrvg p  ++ ++   le+a+++d+++i
  PHY93_04600|PHY93_04600 635 KAFEYLDAPVKRVGSPYLPVGFN-RILERAILPDTQRI 671
                              ****************8899999.99********9987 PP

>> Transket_pyr  Transketolase, pyrimidine binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0      0.95   2.4e+03      90     121 ..     164     193 ..     158     219 .. 0.66
   2 !   89.2   0.0   9.9e-29   2.5e-25       5     176 ..     356     532 ..     352     534 .. 0.94

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.95
                              HGGHHHHHCHHHHHT--EEEEESBSGGGSTTG CS
             Transket_pyr  90 iyadqairsgeakgklkvgvvtrlpigvgedG 121
                               y+++ai  g++ +kl+v+ v+ +   +g + 
  PHY93_04600|PHY93_04600 164 GYVYEAIN-GASNEKLPVIFVFQDNG-YGISV 193
                              46666776.77777777775555533.55555 PP

  == domain 2  score: 89.2 bits;  conditional E-value: 9.9e-29
                              HHHHHHHHHHHHHCTTTTEEEEESSTH....HHHTTCHCCHHEGGTTEGEEE--S-HHHHHHHHHHHHHHCT.TEEEEE.EEEHHH CS
             Transket_pyr   5 wrkaeaealaellkedpevvligaDva....ggtfsvrkgllhdqgegrvidsgisEqavlgfavGaalagp.llvive.aqFgdF 84 
                              + + ++ +l+++ + +p+ ++ g+D+a    gg f v kg+++++g +rv++ +i+E  +lg+a+G++   +  +v+ve a F+d+
  PHY93_04600|PHY93_04600 356 FIDSINATLKAEFRHNPNTFIWGQDMAnkekGGIFNVSKGMQQEFGIERVFNGPIAEDYILGTANGFSRFRKdIRVVVEgAEFADY 441
                              56778999*************************************************************9999888776478**** PP

                              HGGG.HHGGHHHHHCHHHHHT--EEEEESBSGGGSTTGTTTSBSSHHHHHHTSTTEEEE--SSHHHHHHHHHHHHHSSS.SEEEEE CS
             Transket_pyr  85 angA.qiyadqairsgeakgklkvgvvtrlpigvgedGpehqsaeleaflrlipglkvvrPsdpaetkhllrrairredrkPvvlr 169
                              +++A + y++      ++ g ++++v++rl  g    G   +s++le +l++ipg+++v+Ps + ++++l+r+a+r  +++P+vl+
  PHY93_04600|PHY93_04600 442 FWPAmEQYIEMSHDYWRSNGAFTANVLIRLASGGYIGGGLYHSQNLEGSLASIPGVRIVCPSFADDAAGLIRTAMR--SQGPTVLL 525
                              *****99999999989999999999***************************************************..678***** PP

                              E-SSEEC CS
             Transket_pyr 170 lpksllr 176
                              +pk+l++
  PHY93_04600|PHY93_04600 526 EPKTLYN 532
                              *****98 PP

>> DXP_synthase_N  1-deoxy-D-xylulose-5-phosphate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.0      0.33   8.4e+02     230     253 ..      37      60 ..       3      66 .. 0.79
   2 !   18.7   0.1     3e-07   0.00077     119     176 ..     135     192 ..     122     248 .. 0.89

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.33
           DXP_synthase_N 230 pgtlfeelgfkYlGpidGhdleel 253
                              p+ l +++g +Y  p  Ghd  +l
  PHY93_04600|PHY93_04600  37 PNYLKQAIGWSYHAPYAGHDAIQL 60 
                              56677899************8776 PP

  == domain 2  score: 18.7 bits;  conditional E-value: 3e-07
           DXP_synthase_N 119 aalGlavardlkgekkkvvaviGDgaltgGmafealnnigelkkkllvilNdNemsis 176
                               a+G+a+a +  +++  +++  G+++++ G  +ea+n ++++k  ++ ++ dN   is
  PHY93_04600|PHY93_04600 135 HAVGVARAMKRYKHTGVAISSQGESSVSEGYVYEAINGASNEKLPVIFVFQDNGYGIS 192
                              5789999999999999999999*******************************99887 PP

>> PFOR_II  Pyruvate:ferredoxin oxidoreductase core domain II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.0   1.9e-06    0.0049       2      72 ..     559     630 ..     558     648 .. 0.88

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 1.9e-06
                              SEEEEE-STHHHHHHHHHHHHHHTT--EEEEEES--BS--HHHHHHHSTT-SEEEEEE-S--TT-G.-HHHH CS
                  PFOR_II   2 evvivamGsvagtaksavdelReegikvGllrlrtlrPFPeeelkellkkvkkvvvldrnisfgse.Gqlve 72 
                              +  ++++G +   + +a+++l  eg++v ++ lr++ P  ee++ + +kk+++ +v+  +  fg   G lv 
  PHY93_04600|PHY93_04600 559 DLTVITYGNTTHMCLEAAEKLATEGYDVEVIDLRSIIPLDEEAIITSVKKTSRCLVVHEDKVFGGFgGELVG 630
                              6789***************************************************99999999877577765 PP

>> Transketolase_N  Transketolase, thiamine diphosphate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1   4.4e-05      0.11     152     260 ..     157     264 ..     135     284 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 4.4e-05
                              EHHHHHSHHHHHHHHHHHHTT-TTEEEEEEES.SEETTEEGGGT--S-HHHHHHHTT-EEEEETTTT-HHHHHHHHHHHHH...-T CS
          Transketolase_N 152 gDgclmeGvsseasslagtlkLgkLivlyDdn.kisidGeteisftedvakrfeaygWhvievedgedveaikaaieeaka...ek 233
                              g++ + eG   ea++ a+  kL  + v+ D+   is+  + +++ +e va+ f+ +    i ++dg+dv +  +a++ea++   ek
  PHY93_04600|PHY93_04600 157 GESSVSEGYVYEAINGASNEKLPVIFVFQDNGyGISVP-KRDQTANERVADNFSGFANLRIIKCDGKDVFDSMSAMDEARRhaiEK 241
                              77899*****************9777766654245554.678888999******987777777****************9733357 PP

                              TS-EEEEEE--.TTTTSTTTTTSGGGTS CS
          Transketolase_N 234 dkPsliklrtv.iGygspakagtedvhG 260
                                P +++   v iG  s     ++d h 
  PHY93_04600|PHY93_04600 242 MEPVIVHADCVrIGAHS-----NSDKHE 264
                              77888887765455555.....333344 PP

>> FMN_red  NADPH-dependent FMN reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   9.1e-05      0.23      14      46 ..     566     599 ..     553     620 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 9.1e-05
                              -HHHHHHHHHHCCT-T.T-CEEEEETTTS..--. CS
                  FMN_red  14 sntrklaewaaealkeagaevelidladl.ilpc 46 
                              +nt  ++ +aae l+ +g +ve+idl+++ +l  
  PHY93_04600|PHY93_04600 566 GNTTHMCLEAAEKLATEGYDVEVIDLRSIiPLDE 599
                              789999999*****999***********855554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (679 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       567  (0.0316247); expected 358.6 (0.02)
Passed bias filter:                      533  (0.0297284); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.68u 0.25s 00:00:00.93 Elapsed: 00:00:00.44
# Mc/sec: 4664.32
//
Query:       PHY93_04605|PHY93_04605  [L=338]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      3e-82  276.3   0.2    3.4e-82  276.1   0.2    1.0  1  F_bP_aldolase  Fructose-bisphosphate aldolase class-II


Domain annotation for each model (and alignments):
>> F_bP_aldolase  Fructose-bisphosphate aldolase class-II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  276.1   0.2   1.9e-86   3.4e-82       2     280 .]       8     336 ..       7     336 .. 0.89

  Alignments for each domain:
  == domain 1  score: 276.1 bits;  conditional E-value: 1.9e-86
                              HHHHHHHHHHHHT--EEEEE--SHHHHHHHHHHHHHHTS-EEEEE-HHHHHHHH-.......HHHHHHHHHHHHHHHHT...-EEE CS
            F_bP_aldolase   2 nlkellkkAkeegyavgafnvtnletvkavleaaeeaksPvIlqlsegaaakyag.......gaealaelvraaaeaykkasvpva 80 
                              ++k++l  Ak++gya++a+nvt+++t++a+l+a++++ks+ I+q+s+g+ ++++g       ga+++a++v+ +ae+y+   + +a
  PHY93_04605|PHY93_04605   8 QYKQMLSSAKRNGYAYPAINVTSMSTANAALKAFADKKSDGIIQVSTGGGKFASGqlgdmalGAISIAQHVHLMAEKYN---ILIA 90 
                              689***********************************************98888*********************665...**** PP

                              EEE----G..........HHHHHHHHHH...........S-SEEEE--TTS-HHHHHHHHHHHHHHHHHTT-EEEEE--------- CS
            F_bP_aldolase  81 lhlDHgak..........leglkkaiea...........gfsSvMiDgSelpleeNialtkevverahalgvsvEaElGriggeed 145
                              lh+DH++           +    +   +           +f+S+M+DgSelpl+eNi+++  ++er+++ ++++E+E G++ggeed
  PHY93_04605|PHY93_04605  91 LHTDHCHPqyvesfmiplI----A---EtekrrakglpnLFNSHMFDGSELPLAENIKQSSALLERCKKSEIILEVETGVVGGEED 169
                              *******999877654442....2...2333566678889********************************************** PP

                              --TT-TT....TS--HHHHHHHHHHHH...-EEEE--SS---SS--SS...--THHHHHHHHHH.........--SEE-SGTTS-H CS
            F_bP_aldolase 146 gvvaeek....lyTdpeeaeefveetg...vdalAvaiGnvHGvykpk.pkLdferlkeiqkav.........vplVlHGgsgvpd 214
                              gv++e++    lyT+p+e+++++ ++     ++ A+++GnvHGvykp+  kL++ +lk+ q+av           lV+HGgsg++ 
  PHY93_04605|PHY93_04605 170 GVNNEHApadkLYTTPDEMVQIALALRpigTFMYAATFGNVHGVYKPGnVKLRPTILKDGQDAVretlgaeaeHYLVFHGGSGSEL 255
                              *9544446777***********99887777******************555*************999887765559********** PP

                              HHHHHHHHTTEEEEEE-HHHHHHHHHHH.....HHG....G.....E-HH.H-HHHHHHHHHHHHHHHHHHHHHHTT-SS- CS
            F_bP_aldolase 215 eeirkaiklGvvKiNidtdlrlaytkav.....kke....k.....enkk.ydprkllkeaeeamkevvkekiellgsagk 280
                              +ei+++ ++GvvK+Nidtd+++ yt+ v     k++    k     ++kk ydpr++lk+ae  m+e++++++++l+s+g+
  PHY93_04605|PHY93_04605 256 HEIHETLNYGVVKMNIDTDTQYTYTRPVvdymfKNYdkvlKidgevGSKKhYDPREWLKAAERGMTERIAHACDDLKSSGR 336
                              ****************************66666444555515566666777***************************996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (338 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       579  (0.032294); expected 358.6 (0.02)
Passed bias filter:                      526  (0.0293379); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.20s 00:00:00.75 Elapsed: 00:00:00.42
# Mc/sec: 2428.13
//
Query:       PHY93_21450|PHY93_21450  [L=390]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.1e-33  112.5   0.1    1.6e-32  111.4   0.0    1.6  2  DDE_Tnp_1_assoc  DDE_Tnp_1-associated
      1e-22   80.8   0.2    1.8e-22   80.1   0.2    1.3  1  DDE_Tnp_1        Transposase DDE domain
    0.00033   19.1   0.0       0.52    8.5   0.0    2.2  2  DDE_Tnp_1_4      Transposase DDE domain group 1


Domain annotation for each model (and alignments):
>> DDE_Tnp_1_assoc  DDE_Tnp_1-associated
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  111.4   0.0   2.7e-36   1.6e-32       2      88 .]      12      98 ..      11      98 .. 0.98
   2 ?   -3.5   0.0       1.8   1.1e+04      59      87 ..     109     137 ..     103     137 .. 0.65

  Alignments for each domain:
  == domain 1  score: 111.4 bits;  conditional E-value: 2.7e-36
          DDE_Tnp_1_assoc  2 ehlaeipDpRrergkrhpladiLlialcaviagadsweeieefakekeewlreflelengiPshdtirrvlsridpeeleeaflaWv 88
                             +hl  ++DpR +r+krh l diL+ia+c+ i+ga++w++ie+f+ +keew+++fl+l++giPshdt+rrv+  ++pee+ ++f++Wv
  PHY93_21450|PHY93_21450 12 SHLIVLSDPRINRKKRHALIDILIIAICGAICGAETWTDIEDFGYDKEEWFKTFLNLKHGIPSHDTFRRVFILLNPEEFSKVFYSWV 98
                             678889********************************************************************************7 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 1.8
          DDE_Tnp_1_assoc  59 engiPshdtirrvlsridpeeleeaflaW 87 
                              ++ +   +t+rr +   +  +  ++++aW
  PHY93_21450|PHY93_21450 109 DHICIDGKTLRRSFDDAKKTSAIHMVNAW 137
                              55566678899988877766666666655 PP

>> DDE_Tnp_1  Transposase DDE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   80.1   0.2     3e-26   1.8e-22       4     214 .]     108     353 ..     106     353 .. 0.90

  Alignments for each domain:
  == domain 1  score: 80.1 bits;  conditional E-value: 3e-26
                DDE_Tnp_1   4 revlivDattvrvpgtkedarwgykggkykygyklhiavdtrsglilsvvitpgnvhdskglkqlldelrprkgklvlaDaGYa.s 88 
                               +++++D++t+r          + +  k++  ++++ a +t   l l++  + g+++++k+++ lld+l++ kg+++ +Da ++ +
  PHY93_21450|PHY93_21450 108 NDHICIDGKTLRR---------SFDDAKKTSAIHMVNAWSTGLSLSLGQLKSEGKKNEIKTIPILLDALNI-KGCIISTDA-MGcQ 182
                              6899********6.........45578889*****************************************.*********.888* PP

                DDE_Tnp_1  89 aelldtleekgvdyiirlkkntklyrkgaeskrrgrlrkhdrnkiltksqkrrnk............................... 143
                              + +++++ +kg+dy++ lk+n+ +++ +  + +++  r+  r  +++k  ++++k                               
  PHY93_21450|PHY93_21450 183 KTIAQKIIDKGGDYCFGLKGNHPYLEERVQDIFKQSNRGGRRSFQIEKHVEENDKhgrierreckvitakegkslgvnilelwpel 268
                              ***************************7666677777777777777777777777777788888888889999************* PP

                DDE_Tnp_1 144 ...............skkekgdvyyvtntnsellsaeevaelyrlRwqiErvFkwlkrk.fgldrlryrglnrveaqllllllaln 213
                                              +  ++ +yy+++  +  + ae++a + r +w++E+  +w  ++ f+ d +r+r+   +e++ ll+ +aln
  PHY93_21450|PHY93_21450 269 nsiieitsmrvnkktGVVSEEKRYYISSCID--VGAEKLAKIIRDHWEVENKLHWRLDVcFREDECRSRSGHSAENFSLLRHFALN 352
                              ************8887777777777777776..89*************************************************** PP

                DDE_Tnp_1 214 l 214
                              l
  PHY93_21450|PHY93_21450 353 L 353
                              8 PP

>> DDE_Tnp_1_4  Transposase DDE domain group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.5   0.0   9.1e-05      0.54      43     117 ..      16      92 ..       5     114 .. 0.83
   2 !    8.5   0.0   8.6e-05      0.52     217     306 ..     171     261 ..     147     289 .. 0.78

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 9.1e-05
              DDE_Tnp_1_4  43 alkdkrkpslveHslekllrqrvyalalGyedlndadkLradp..alklalgkkealASqptlsRlentlaeealka 117
                              +l d+r ++  +H l ++l   + + ++G e   d+++  +d+   +k+ l+ k+ + S+ t+ R++  l+ e+ ++
  PHY93_21450|PHY93_21450  16 VLSDPRINRKKRHALIDILIIAICGAICGAETWTDIEDFGYDKeeWFKTFLNLKHGIPSHDTFRRVFILLNPEEFSK 92 
                              57788888899***************************988753379**9999999999999999988877776665 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 8.6e-05
              DDE_Tnp_1_4 217 kilvRgDSafarpellkwceergvdYviglaknsr.lealiaelvekakteaaekkekereyrefayqaesWskerrVvakaerpa 301
                                ++ +D+ ++++ + + + ++g dY +gl+ n+  le++++++ ++ ++  +++ + e++++e + + +  ++e +V++ +e ++
  PHY93_21450|PHY93_21450 171 GCIISTDAMGCQKTIAQKIIDKGGDYCFGLKGNHPyLEERVQDIFKQSNRGGRRSFQIEKHVEENDKHGRIERRECKVITAKEGKS 256
                              567889***************************86388899999999988888877777777777777777777777777777777 PP

              DDE_Tnp_1_4 302 eglnl 306
                               g+n+
  PHY93_21450|PHY93_21450 257 LGVNI 261
                              76665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (390 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       519  (0.0289475); expected 358.6 (0.02)
Passed bias filter:                      422  (0.0235373); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.56u 0.22s 00:00:00.78 Elapsed: 00:00:00.43
# Mc/sec: 2755.20
//
Query:       PHY93_04610|PHY93_04610  [L=865]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.6e-95  320.1   2.0    2.4e-95  319.6   2.0    1.3  1  DUF3458_C       Domain of unknown function (DUF3458_C) ARM re
    1.1e-53  182.0   2.7    2.2e-53  181.0   2.7    1.5  1  Peptidase_M1    Peptidase family M1 domain
    9.5e-27   93.3   0.1    5.4e-26   90.9   0.0    2.4  2  DUF3458         Domain of unknown function (DUF3458) Ig-like 
    7.5e-17   62.1   0.0    1.9e-16   60.8   0.0    1.7  1  Peptidase_M1_N  Peptidase M1 N-terminal domain
     0.0035   17.7   0.4      0.077   13.4   0.4    2.9  1  Peptidase_M61   M61 glycyl aminopeptidase
  ------ inclusion threshold ------
      0.078   12.0   0.1       0.26   10.2   0.1    1.7  2  Aconitase       Aconitase family (aconitate hydratase)


Domain annotation for each model (and alignments):
>> DUF3458_C  Domain of unknown function (DUF3458_C) ARM repeats
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  319.6   2.0   8.2e-99   2.4e-95       2     316 ..     545     864 ..     544     865 .] 0.97

  Alignments for each domain:
  == domain 1  score: 319.6 bits;  conditional E-value: 8.2e-99
                              HHHHHHHHH-SSHHHHHHHHHHHHHHHHHHHHH.....TT----HHHHHHHHHHHT-TTS-HHHHHHHTS---HHHHCTT-SSB-H CS
                DUF3458_C   2 eelafLlahdsDafnRweagqrLalrvllalva.....eeaalsealvealravLedealdpalkaeaLtlPseaelaeqlkevdp 82 
                              ++ +fL+a+d DafnR+ea+q   l+++l+l++     ++++l++++++a++++L+d+++d+a+ka+ +++Pse  + ++ +e+  
  PHY93_04610|PHY93_04610 545 DDQLFLMANDADAFNRFEASQVVSLQIMLDLIEkakanKTLELDSKYIAAYGKILADSSIDEAFKALSMSIPSEGIMHQEQAEIYY 630
                              6889****************************556677999********************************************* PP

                              HHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHC--SHHHHHHHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHSSSHHHHHHHHHH CS
                DUF3458_C  83 daihaarealrkalaealedellalyealaaegayspdaaaagrRaLknlaLsylaaaddeeaaelavaqfkaadnmTdrlaALaa 168
                               +  ++r++++k+la+a +++l +ly++  + + y++d++++g+R Lkn +L++la  d + +++l ++qfk+a+nmTd+l+AL++
  PHY93_04610|PHY93_04610 631 LETEQVRTFVKKTLAHAHQETLFKLYKSDGTGSVYKLDPKSMGQRDLKNKCLDLLALVDGDIYKSLSMDQFKSATNMTDELGALTV 716
                              ***************************999999***********************998877777777****************** PP

                              HTTSSSHHHHHHHHHHHHHCTTSHHHHHHHHHHHHH--STTHHHHHHHHHTSTTTTTTSHHHHHHHHHHHH.T-HHHHT-TTSHHH CS
                DUF3458_C 169 lvnsdlpereealadfyqrwkdealvldkWfalqAtspredtlervkallehpaFdlknPNrvrsLigaFaaanpaaFhaadGsGY 254
                              + n+++++++eal++fy++wk+e+lv++kW+ +qA s++++t+e+v +l +++ +d + PN vrsL+g+F+a n+++F++ +G+GY
  PHY93_04610|PHY93_04610 717 MINANSSDKAEALSAFYTKWKSETLVMQKWLGVQAISSDDSTYETVLKLEKDSVYDRTIPNLVRSLLGQFVATNKVQFNHSSGRGY 802
                              ************************************************************************************** PP

                              HHHHHHHHHHHTT-HHHHHHHGGGGTTGGGB-HHHHHHHHHHHHHHHTSTT--HHHHHHHHH CS
                DUF3458_C 255 afladqvleldaiNpqvAaRlvtaltrwrrydekrqalmkaaLeriaaaeelSkdvrEivsk 316
                              +++ad +leld++Npq+A+Rl++ ++  +r  +++qalmk++Ler+ ++++lSk+v+Eivsk
  PHY93_04610|PHY93_04610 803 KLIADRLLELDKLNPQMASRLASGFKDLKRTPKNLQALMKTELERVIKTDGLSKNVFEIVSK 864
                              *************************************************************9 PP

>> Peptidase_M1  Peptidase family M1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  181.0   2.7   7.4e-57   2.2e-53       1     214 [.     229     441 ..     229     445 .. 0.93

  Alignments for each domain:
  == domain 1  score: 181.0 bits;  conditional E-value: 7.4e-57
                              HHHHHHHHHHHHHHHHHTS--SSSEEEEEEESSTTSSEEEETTEEEEEGGGC-SSTTTS-HHHHHHHHHHHHHHHHHHHBTTTEEE CS
             Peptidase_M1   1 yalevtkkllefleeyfkvpYplpkldlvalpdfsagAMEnwglityreelllvdpenssesdkrsvaeviaHElaHqWfGnlVtm 86 
                              +a+e  kk +++ e++f+++Y+l+ +++va++ f++gAMEn+gl +++++++l+d++++++++   +++vi HE++H+W+Gn +t+
  PHY93_04610|PHY93_04610 229 HAMESLKKSMKWDEDRFGLEYDLDIYMIVAVDAFNMGAMENKGLNIFNSAYVLADQKSATDANFYGIESVIGHEYFHNWTGNRITC 314
                              5899********************************************************************************** PP

                              SSGGGGHHHHHHHHHHHHHHHHHHSC.CCHCHHHHHHHCHHHHHHHHTSTTHHHSSGG-GSHHHHHHTSSHHHHHHHHHHHHHHHH CS
             Peptidase_M1  87 kwWddlwLnEGfatyleylildklep.ewevseqllleeveealsedaldeshpitqevekpseidevFdsiaYeKGasllrmlek 171
                              + W +l L+EG++++ ++++++++++ ++e + q +   +  +++eda  +shpi  + e+ +ei+++++s+ YeKGa+++rm+++
  PHY93_04610|PHY93_04610 315 RDWFQLTLKEGLTVFRDQEFSSDMNSrKVE-RIQSVQALRAAQFAEDAGPTSHPI--KPETYMEINNFYTSTIYEKGAEVIRMIQT 397
                              ***********************9994444.44554666778999**********..79999************************ PP

                              HCTHHHHHHHHHHHHHHCTTEEE-HHHHHHHHHHCCC.SCHHTH CS
             Peptidase_M1 172 llgeevFqkglksYlkefkyknaetedlwdaleealn.kdisev 214
                              llg + F+kg+ +Y++ f+ +++ ted+++a++ a+n +d +++
  PHY93_04610|PHY93_04610 398 LLGVDGFRKGMDKYFELFDGQAVRTEDFIHAMSVANNnFDFTQF 441
                              *********************************98665666666 PP

>> DUF3458  Domain of unknown function (DUF3458) Ig-like fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   90.9   0.0   1.8e-29   5.4e-26       1      94 [.     449     540 ..     449     541 .. 0.96
   2 ?   -2.0   0.0       1.7     5e+03      59      94 ..     762     794 ..     748     795 .. 0.68

  Alignments for each domain:
  == domain 1  score: 90.9 bits;  conditional E-value: 1.8e-29
                              S--EEEEEEEEETTTTEEEEEEEEE---BSSBSS-----EEEEEEEEETTS-BECEEEEEEE-SSEEEEEEC---S-EEEEESTT- CS
                  DUF3458   1 GtPevtvsesydeaaktytltlsQktpptagqkekkplviPiklalldekGeelelekvlelteaeqsftfenvaekpvpSllrdF 86 
                              GtP +++ ++ydea+k++tltl+Q+ p  ++ k+ kp+++P+k++l++++G++l+ ++vlel++ +q+f+fen++ kp++S++rdF
  PHY93_04610|PHY93_04610 449 GTPLLNAISKYDEANKRFTLTLKQSFP-LNAPKDAKPYHMPVKVGLIGPDGKDLK-NTVLELKTLSQEFVFENINVKPIASINRDF 532
                              9*************************7.66677799******************9.****************************** PP

                              -SSSEEE- CS
                  DUF3458  87 SAPvkley 94 
                              SAPvkl++
  PHY93_04610|PHY93_04610 533 SAPVKLTT 540
                              *****986 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 1.7
                              EEEE-SSEEEEEEC---S-EEEEESTT--SSSEEE- CS
                  DUF3458  59 vlelteaeqsftfenvaekpvpSllrdFSAPvkley 94 
                              vl+l+++    ++++   + v Sll +F A  k+++
  PHY93_04610|PHY93_04610 762 VLKLEKD---SVYDRTIPNLVRSLLGQFVATNKVQF 794
                              4444433...45666667889999999999877765 PP

>> Peptidase_M1_N  Peptidase M1 N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.8   0.0   6.3e-20   1.9e-16       9     186 .]      26     190 ..      13     190 .. 0.78

  Alignments for each domain:
  == domain 1  score: 60.8 bits;  conditional E-value: 6.3e-20
                              EEEETT..TTEEEEEEEEEEEESS-ECEEEEEESSEEEECEEEEECTTCTCEEEEEEEECTTTTCEEEEECCEEETTCEEEEEEE. CS
           Peptidase_M1_N   9 lkidlk..ektfkGsvtitlqlkeatseivldakdlkiksvslsaevksesvkidfkieqkdeelltiklkeslqqtskytLeie. 91 
                              l + l+  e  ++ +++i  +  ++   +vl+ ++l+       ++v  +++k++   ++ +++llti+ +      s++tLeie 
  PHY93_04610|PHY93_04610  26 LVVHLEntETLIQSKMKIIKNDGAEMGPLVLNGEELNL------KSVVMNGKKLSGGDYNLEGDLLTINDAP-----SEFTLEIEn 100
                              3333333355566666665555599999**********......5555557777777788889988876555.....455555541 PP

                              .EEEE-BSSSSEEEEEEEEETSCEEEEEEEE-TTTTGGGTS-B--STTSEBEEEEEEEEETTS..EEEESSECCCEEEETTCEEEE CS
           Peptidase_M1_N  92 .yegelndklaGlykstYtdkgekkvvvvTqfeatdARsafPCfDePsvKAtftisikapkee..talSnmpeeeseklengqkit 174
                               ++ e n++l Glyks          +++Tq e++ +R++++ +D+P++ A+ft++i+a+k+   ++lSn++ +++ +le g + +
  PHY93_04610|PHY93_04610 101 tINPEANKTLDGLYKSG--------SIFCTQNEPEGFRRITYYIDRPDNMAKFTTKIIADKKLypILLSNGNPIARGDLEGGLHFV 178
                              155566*********43........58***********************************999********************* PP

                              EEEEEESBEGGG CS
           Peptidase_M1_N 175 eFeqtpkmstYL 186
                              ++e+ +k+++YL
  PHY93_04610|PHY93_04610 179 TWEDPFKKPSYL 190
                              ***********9 PP

>> Peptidase_M61  M61 glycyl aminopeptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.4   0.4   2.6e-05     0.077       4     100 ..     297     382 ..     295     391 .. 0.69

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 2.6e-05
                              HHHHHHHHHTTBTTTB-BGGGSS---SS----STHHHHTHHHHHHHHHHHHHTTSS-HHHHHHHHHHHHHHHHHSGGGGT--HHHH CS
            Peptidase_M61   4 gllaHEyfHsWnvkrirPaelepfdyekenytellwvaEGlTsYygdlllarsgliseeeyleelaktlarlentpgrkvqslaes 89 
                              +++ HEyfH W ++ri  ++  +             + EGlT + ++ ++   +  + e++ +  a ++a++ +  g + ++++  
  PHY93_04610|PHY93_04610 297 SVIGHEYFHNWTGNRITCRDWFQLT-----------LKEGLTVFRDQEFSSDMNSRKVERIQSVQALRAAQFAEDAGPTSHPIKPE 371
                              5789************999887544...........45677777777666666666666666666666666666666666666666 PP

                              HHTIIIIITT- CS
            Peptidase_M61  90 sfdawiklyrs 100
                              ++ +  ++y s
  PHY93_04610|PHY93_04610 372 TYMEINNFYTS 382
                              66666666665 PP

>> Aconitase  Aconitase family (aconitate hydratase)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0      0.42   1.3e+03      92     116 ..     603     628 ..     524     638 .. 0.64
   2 ?   10.2   0.1   8.7e-05      0.26     206     287 ..     690     770 ..     687     776 .. 0.70

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 0.42
                Aconitase  92 saakaf.girvvppgqGIvHqvnlEy 116
                              s  +af  +++  p++GI+Hq   E 
  PHY93_04610|PHY93_04610 603 SIDEAFkALSMSIPSEGIMHQEQAEI 628
                              33344544556667799999998887 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 8.7e-05
                Aconitase 206 GegvesLsledraTiaNMaaEvGAttglfpvde.ktleYLkatgreeaa.v.lveaydkaqalfelaadedaeydkvleldlstl 287
                              G+  +sLs+++  + +NM+ E+GA t +++ ++    e L a   + +  +  ++++  +qa   + +++d +y++vl+l+ +++
  PHY93_04610|PHY93_04610 690 GDIYKSLSMDQFKSATNMTDELGALTVMINANSsDKAEALSAFYTKWKSeTlVMQKWLGVQA---I-SSDDSTYETVLKLEKDSV 770
                              78899************************998733444444332222220224566666555...3.445678999999887766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (865 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       469  (0.0261587); expected 358.6 (0.02)
Passed bias filter:                      319  (0.0177924); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.73u 0.26s 00:00:00.99 Elapsed: 00:00:00.44
# Mc/sec: 5899.53
//
Query:       PHY93_04615|PHY93_04615  [L=271]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.6e-88  294.1   0.0      1e-87  293.8   0.0    1.1  1  DUF2797   Protein of unknown function (DUF2797)


Domain annotation for each model (and alignments):
>> DUF2797  Protein of unknown function (DUF2797)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  293.8   0.0   5.8e-92     1e-87       1     231 []      36     269 ..      36     269 .. 0.98

  Alignments for each domain:
  == domain 1  score: 293.8 bits;  conditional E-value: 5.8e-92
                  DUF2797   1 GkelaltltgerrCvnCgrktkksfsqgvCakCfkklaeadecimkpekchahlgtclrdpeweekaclqphvVYLanssevKVGi 86 
                              G el++++++e++C++C   +kk +  g+C++C  klae+d+ci+kpe+ch++ gtc r p+w+e++c+ ph++YLanss++KVGi
  PHY93_04615|PHY93_04615  36 GLELKIHFKKEINCTHCATLIKKAYAGGYCYPCSIKLAECDMCILKPELCHYANGTC-RQPSWGEANCMIPHYIYLANSSGLKVGI 120
                              5689*****************************************************.**************************** PP

                  DUF2797  87 TrkeqvptRwidQGAvqaiplaevanRrlaglvevalketvaDktnwrkmlksevedvdlsaeaeelaeliae.....eselgaea 167
                              Tr +qvptRwidQGAv a+p+++v++R+++g+ e+ +++ v+Dkt+wrkmlk+++e++dl+++++el el+ e     e ++ga  
  PHY93_04615|PHY93_04615 121 TRGTQVPTRWIDQGAVAALPILKVSTRYQSGVFEKLFASEVKDKTDWRKMLKGNIEELDLEEKRDELFELFGEsidrmEGDFGAGE 206
                              *************************************************************************9988888889999 PP

                  DUF2797 168 iesleaeeeveikypveeypekikslnlekeaeveGtllGikGqylildtgtvlnirkleGyev 231
                              ie le+  +++i+ypv eypek++sl l+k+++v GtllGikGqyli++tg v+nir+++Gy++
  PHY93_04615|PHY93_04615 207 IEILERGLVTSINYPVLEYPEKVSSLSLDKHEVVGGTLLGIKGQYLIFNTG-VINIRSHTGYKI 269
                              ****888********************************************.**********97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (271 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       405  (0.0225891); expected 358.6 (0.02)
Passed bias filter:                      301  (0.0167884); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 2020.16
//
Query:       PHY93_04620|PHY93_04620  [L=256]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      0.001   19.4   0.0     0.0026   18.0   0.0    1.7  1  PilZ      PilZ domain
  ------ inclusion threshold ------
      0.025   14.2   0.1        2.1    7.9   0.0    2.3  2  DUF3971   Protein of unknown function
      0.054   13.0   0.1        8.4    5.8   0.0    2.3  2  TBSV_P22  TBSV core protein P21/P22


Domain annotation for each model (and alignments):
>> PilZ  PilZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.0   4.3e-07    0.0026       1      95 [.     125     228 ..     125     233 .. 0.75

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 4.3e-07
                              CSSSS-C..EEECEEEEEEETTEEEEEEEEEEESSEEEEEES...T-SS-TTSE.EEEEEE......CECEEEEEEEEEEEEEECT CS
                     PilZ   1 qrRkekRlevpvsipvtleadegelkgrliDiSlgGlairlp...deelalgdr.velklp......ldkdqelslpgrVvrvkpe 76 
                              q+R ++Rl+  + ip++ + de+ +++  +DiS gG +++++   +e++++g    e++l+        + +++++      ++++
  PHY93_04620|PHY93_04620 125 QQRGNFRLNSSAVIPIQFKIDEQVFEA--LDISTGGTSFIIEdgdKERFTKGLLfKECTLRfdrknyYIPLAQVAVLIPMLDADGK 208
                              8999***99999999999999999999..****************99999998877777775465555555555555555555555 PP

                              CTTE.EEEEEEEEECHHHHH CS
                     PilZ  77 edge.rlGveFldldeeqre 95 
                              + g+ ++G+ F dl  ++++
  PHY93_04620|PHY93_04620 209 VSGKiKVGISFKDLARKTED 228
                              55557777777777766665 PP

>> DUF3971  Protein of unknown function
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9   0.0   0.00034       2.1     122     189 ..      71     137 ..      61     151 .. 0.80
   2 ?    4.0   0.0    0.0051        31     147     173 ..     196     225 ..     191     245 .. 0.76

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.00034
                  DUF3971 122 eidgkakgslkailkylkaspLadslgealdelqvsGevslnLnLdiplkn..geevkvsGevtlknnnl 189
                              ++ +k++gs ka  ++l + p+ d++++++    +  + +l+ +L+i+ +   +   + +G++ l+ + +
  PHY93_04620|PHY93_04620  71 KLVTKITGSQKAGKQVLVKVPIEDKINYFTGGRLKFHPEDLTYSLEIQQDIfkS---QQRGNFRLNSSAV 137
                              67899*************************999999999999999998874432...4588888877665 PP

  == domain 2  score: 4.0 bits;  conditional E-value: 0.0051
                  DUF3971 147 lgealdelqvsGevslnLnLdiplkn...g 173
                              ++  ++ l ++G+vs+++++ i +k+   +
  PHY93_04620|PHY93_04620 196 VAVLIPMLDADGKVSGKIKVGISFKDlarK 225
                              45567999****************987642 PP

>> TBSV_P22  TBSV core protein P21/P22
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.0   0.0    0.0025        15      95     131 ..     112     148 ..      66     155 .. 0.78
   2 ?    5.8   0.0    0.0014       8.4      48      92 ..     183     230 ..     177     246 .. 0.74

  Alignments for each domain:
  == domain 1  score: 5.0 bits;  conditional E-value: 0.0025
                 TBSV_P22  95 teeldlGkelrlelshldfsvsvrsdvPlvfeveelv 131
                              t +l++ +++  + ++ +f +   + +P++f+++e v
  PHY93_04620|PHY93_04620 112 TYSLEIQQDIFKSQQRGNFRLNSSAVIPIQFKIDEQV 148
                              668999999*99***********9999*****99865 PP

  == domain 2  score: 5.8 bits;  conditional E-value: 0.0014
                 TBSV_P22  48 rialsGgyitirririklvPlvsrkagvsGklkl....rdirdttgrkl 92 
                              r   + +yi++ ++  +l+P++    +vsGk+k+    +d    t  +l
  PHY93_04620|PHY93_04620 183 RFDRKNYYIPLAQVA-VLIPMLDADGKVSGKIKVgisfKDLARKTEDEL 230
                              6667889*****886.699************986211144444455555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (256 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       536  (0.0298957); expected 358.6 (0.02)
Passed bias filter:                      423  (0.0235931); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 1897.14
//
Query:       PHY93_04625|PHY93_04625  [L=409]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.8e-59  199.7   0.1      9e-59  199.5   0.1    1.0  1  Aminotran_1_2    Aminotransferase class I and II
    1.2e-05   24.8   0.2    2.9e-05   23.5   0.2    1.5  1  Beta_elim_lyase  Beta-eliminating lyase
    2.2e-05   23.9   0.1    5.8e-05   22.6   0.1    1.6  1  DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
    9.2e-05   21.6   0.0    0.00016   20.8   0.0    1.3  1  Aminotran_5      Aminotransferase class-V
    0.00054   18.6   0.0     0.0011   17.6   0.0    1.4  2  Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme


Domain annotation for each model (and alignments):
>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  199.5   0.1   2.5e-62     9e-59       2     362 ..      55     396 ..      54     397 .. 0.94

  Alignments for each domain:
  == domain 1  score: 199.5 bits;  conditional E-value: 2.5e-62
                              EEEESSSSSTTSTTSSHHHHHHHHHHHH..HHHHHTSTTST-BTTHHHHHHHHHHHHHCTCTTCHTTGGEGEEEESHHHHHHHHHH CS
            Aminotran_1_2   2 dvinLgsneylgdsgkptlpevakaeke..galaggtlneygpidglpeleealakflgrseklklkreaavvvgsGagalieali 85 
                              ++i  gsn+ylg++++p ++e+a +++e  g + +g++   g+  ++ el  ++ak+lg        +eaa+v+++G +a++ al 
  PHY93_04625|PHY93_04625  55 KQIMIGSNNYLGLTHHPHVKEAAIKAIEkyGTGCTGSRFLNGNLNIHEELDIKIAKYLG--------HEAAIVFSTGMQANLGALS 132
                              78999********9998888877777777******************************........9****************** PP

                              HHHHHTTT-EEEEEESS-THHHHHHHHTTSEEEEEEBEETTTTEE-HHHHHHHHTTHHCTTETEEEEEEESS-TTT--B--HHHHH CS
            Aminotran_1_2  86 fllklnpgdeilvpdptyasyknilrlsggevvryplyseedfhldlealeealkeapegnkktkvilvesphNPtGtvatleele 171
                              +l+   p+d  l ++ ++as+++  rl+ g+ ++y+       h+d+ +lee+l+++ ++   + +i+  +++++tG++++l+e++
  PHY93_04625|PHY93_04625 133 ALCG--PKDLMLFDSENHASIIDSSRLALGTTFKYK-------HNDMSSLEELLESNVARFN-RVIIVADGVFSMTGDIMKLPEVV 208
                              ***9..******************************.......************9766665.99********************* PP

                              HHHHHHHHTTEEEEEEETTTTCBSSSSHTHHH.HGGSTTSTTEEEEEESSSTTSSGGG-EEEEEEEHHHHHHHHHHHHHHTSSHHH CS
            Aminotran_1_2 172 klldlakkynlllfvDeaYagfvfgsldavat.ranveeepnllivgslsKafGlaGeRvGyilgnaavvsqlrklsrpflsssll 256
                              +l   akky+++++vD+a++ +v+gs++  +  ++++++e++ + +g++sK+f++ G   G i+g+ + ++++r  +r+f +s+++
  PHY93_04625|PHY93_04625 209 TL---AKKYGAYVYVDDAHGMGVMGSQGRGTMhHFDLAQEVD-FNMGTFSKSFASIG---GVISGSHDSIDYVRHTARSFMFSASM 287
                              **...********************98443337*******99.**************...************************** PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSTEEEECCSCSSEEEEEETHHCHHHHHHHHHHTCTEEEEEGGGGTS.. CS
            Aminotran_1_2 257 qaavaaalsdallkqseleemrqrlqkrrkelrdeLaelglkvlasqsgmflltdlsaetakelskkLleevgvyvtpgtsftv.. 340
                              ++a++a +s+  ++  + e   + l+++  ++r++++elg+  ++sq+ +++l  ++  +a ++  k le +gv  tp+ ++ v  
  PHY93_04625|PHY93_04625 288 PPAAVATVSACIDVVTSDESILKNLWENVAFMRNGFKELGFYTYGSQTPIIPLFIGDDMKALKM-TKFLEAHGVFATPVLPPAVpk 372
                              *****************************************************99997744433.3488888*************9 PP

                              .TTEEEEEC.TTS-HHHHHHHHHH CS
            Aminotran_1_2 341 .pgrlRitv.Aglteeeleelvea 362
                               ++ +R ++ A++++++l  ++e 
  PHY93_04625|PHY93_04625 373 gEALIRTSYmASHNQADLATVLEV 396
                              999***************999885 PP

>> Beta_elim_lyase  Beta-eliminating lyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.5   0.2   8.1e-09   2.9e-05      36     225 ..     103     280 ..      96     334 .. 0.81

  Alignments for each domain:
  == domain 1  score: 23.5 bits;  conditional E-value: 8.1e-09
                              HHHHHHHHHTT-SEEEEES-HHHHHHHHHHHH--TTEEEEEETT-HHHHSSTTHHHHCC--EEEEE-EBTTTBE-HHHHHHHS--S CS
          Beta_elim_lyase  36 rLedavaelfgkeaalfvpqGtaAnsillkillqrgeevivtepahihfdetgaiaelagvklrdlknkeaGkmdlekleaaikev 121
                              +L  ++a+++g+eaa+ + +G +An  +l++l+ +++ +++++++h        +a       +++k k+    d+ +le++++ +
  PHY93_04625|PHY93_04625 103 ELDIKIAKYLGHEAAIVFSTGMQANLGALSALCGPKDLMLFDSENHASIIDSSRLAL-----GTTFKYKH---NDMSSLEELLESN 180
                              5677899**************************************999888776643.....33556666...4567899999996 PP

                              -TTS-EEEEEEEESSBTTTTTB---HHHHHHHHHHHHHCT-EEEEEETTHHHHHHHHTS-CHHHH...TTSSEEEEESSSTT--SS CS
          Beta_elim_lyase 122 gaheekiklisltvTnntagGqvvsleelrevaaiakkygiplhlDgARfanaakslgeivkemf...syvDsvtmslkKdllanv 204
                               a     ++i+++  + ++ G +++l    ev  +akkyg  + +D A  +  + s g      f   + vD  +  ++K  +a +
  PHY93_04625|PHY93_04625 181 VA--RFNRVIIVADGVFSMTGDIMKL---PEVVTLAKKYGAYVYVDDAHGMGVMGSQGRGTMHHFdlaQEVDFNMGTFSKS-FASI 260
                              66..78899999*999999**99875...67899***************999997777666665544489**99999***9.778* PP

                              -EEEEE-HH....HHHHHHHH CS
          Beta_elim_lyase 205 Ggvlafrddeledylaerveq 225
                              Ggv+ +++d   dy+++  + 
  PHY93_04625|PHY93_04625 261 GGVISGSHD-SIDYVRHTARS 280
                              *********.77777776554 PP

>> DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.6   0.1   1.6e-08   5.8e-05      25     151 ..     101     228 ..      77     244 .. 0.82

  Alignments for each domain:
  == domain 1  score: 22.6 bits;  conditional E-value: 1.6e-08
                              HHHHHHHHHHHHT-SEEEEESSHHHHHHHHHHHTTTTTT-EEEEESSS-THHHHHHHHTT-EEEEE-B-TTTSSB-GGGCGGG--T CS
          DegT_DnrJ_EryC1  25 veeFEkafaaylgvkhaiavssGtaAlhlaLralgvgpgdeVIvpsltFvatanavlelgakpvfvDvdpdtynidpaaieaaite 110
                               ee++ ++a+ylg++ ai +s+G +A++ aL+al  gp+d  +  s + + ++   ++l + + f   + +++    + +e+ + +
  PHY93_04625|PHY93_04625 101 HEELDIKIAKYLGHEAAIVFSTGMQANLGALSAL-CGPKDLMLFDSENHA-SIIDSSRLALGTTF-KYKHNDMSSLEELLESNVAR 183
                              5788899**************************6.467788888776665.55555666666666.567788888899******** PP

                              TEEEEEEB-....GGGB---HHHHHHHHHHCT-EEEEE-TT-TT- CS
          DegT_DnrJ_EryC1 111 rtkaIlpVh....lyGqvadmdalkaiaakhglkvieDaAhAlGa 151
                                + I++++    + G+++ ++++  +a+k+g +v  D Ah++G 
  PHY93_04625|PHY93_04625 184 FNRVIIVADgvfsMTGDIMKLPEVVTLAKKYGAYVYVDDAHGMGV 228
                              ******996555599***************************994 PP

>> Aminotran_5  Aminotransferase class-V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.8   0.0   4.3e-08   0.00016      43     181 ..      99     227 ..      72     232 .. 0.74

  Alignments for each domain:
  == domain 1  score: 20.8 bits;  conditional E-value: 4.3e-08
                              HHHHHHHHHHHHHHT-STGGGEEEESSHHHHHHHHHHHCCCC-TTTSEEEEETTSHGGGTHHHHHHHHHHTEEEEEEEBETTSCBE CS
              Aminotran_5  43 kaveearekvaelinaeseeeiiftsGtteainlvalslarslkpgdeivvteaehhanlvpwqelakrtgakvkvipldeegeld 128
                              ++ ee   k+a+ ++ e    i+f  +t+ + nl als++    p+d ++  + + ha ++   +la   g +  +++ ++  +l+
  PHY93_04625|PHY93_04625  99 NIHEELDIKIAKYLGHEA--AIVF--STGMQANLGALSAL--CGPKDLMLFDSEN-HASIIDSSRLA--LGTTF-KYKHNDMSSLE 174
                              677888888999998885..8888..68899*****9994..7888877766555.55555888887..55555.33445555555 PP

                              GGGHHHH--TTEEEE.EEESBETTTTEB--HHHHHHHHHHTT-EEEEE-TTTTT CS
              Aminotran_5 129 ldelekllnektklv.aithvsnvtGtiqpveeigklakkkgalvlvDaaqavg 181
                               + le++++   +++     v ++tG i  ++e+++lakk+ga+v vD a ++g
  PHY93_04625|PHY93_04625 175 -ELLESNVARFNRVIiVADGVFSMTGDIMKLPEVVTLAKKYGAYVYVDDAHGMG 227
                              .666778875555540556789**************************998876 PP

>> Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.0     3e-07    0.0011      54     180 ..     101     228 ..      70     232 .. 0.83
   2 ?   -4.3   0.0       1.4     5e+03     259     270 ..     347     358 ..     339     363 .. 0.64

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 3e-07
                              HHHHHHHHHHHHT-SEEEEESSHHHHHHHHHHTTS-TTEEEEEESTSSHHHHHHHHHTHHHTTCEEEEESTTSHHHH.HHHCCT.T CS
          Cys_Met_Meta_PP  54 rsvleeriaaLeggeaalavssGmaAiaaailallkaGdeivvsddlYggtqrllkkvlkklgievkfvdtsdleel.ekaike.n 137
                              ++ l+ +ia+  g eaa+++s+Gm A   a+ al+   d ++ +++ + +  +  +  l  +  ++k+ d+s+leel e+ +   n
  PHY93_04625|PHY93_04625 101 HEELDIKIAKYLGHEAAIVFSTGMQANLGALSALCGPKDLMLFDSENHASIIDSSRLAL-GTTFKYKHNDMSSLEELlESNVARfN 185
                              6779999************************************9998877666554444.45588899999998886244555557 PP

                              EEEEEEESS-TTTT----HHHHHHHHHHTT-EEEEEGTTTHTT CS
          Cys_Met_Meta_PP 138 tklvylEtptnpllkvvDiekiaklakkagvlvvvDntfaspl 180
                                ++  + + + + +++ +++++ lakk g+ v vD +   ++
  PHY93_04625|PHY93_04625 186 RVIIVADGVFSMTGDIMKLPEVVTLAKKYGAYVYVDDAHGMGV 228
                              78888999****************************9876665 PP

  == domain 2  score: -4.3 bits;  conditional E-value: 1.4
                              HHHHHHHHHHTS CS
          Cys_Met_Meta_PP 259 nAlkvAefLekh 270
                               Alk+ +fLe+h
  PHY93_04625|PHY93_04625 347 KALKMTKFLEAH 358
                              466666666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (409 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       501  (0.0279436); expected 358.6 (0.02)
Passed bias filter:                      462  (0.0257683); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.58u 0.27s 00:00:00.85 Elapsed: 00:00:00.42
# Mc/sec: 2908.76
//
Query:       PHY93_04630|PHY93_04630  [L=373]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (373 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       544  (0.0303419); expected 358.6 (0.02)
Passed bias filter:                      373  (0.0208043); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.42
# Mc/sec: 2668.49
//
Query:       PHY93_04635|PHY93_04635  [L=165]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.8e-18   66.3   0.0    3.3e-18   66.0   0.0    1.0  1  Epimerase        NAD dependent epimerase/dehydratase family
    1.1e-15   57.9   0.0    1.6e-15   57.4   0.0    1.2  1  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
      8e-13   48.1   0.6    1.3e-09   37.6   0.6    2.5  1  NAD_binding_4    Male sterility protein
    1.6e-12   47.1   0.0    1.9e-12   46.8   0.0    1.0  1  3Beta_HSD        3-beta hydroxysteroid dehydrogenase/isomeras
    1.2e-08   35.1   0.0    1.5e-08   34.7   0.0    1.1  1  NAD_binding_10   NAD(P)H-binding
    2.6e-06   26.8   0.0    3.8e-05   22.9   0.0    2.0  1  RmlD_sub_bind    RmlD substrate binding domain
    0.00095   18.7   0.0     0.0024   17.4   0.0    1.6  2  adh_short        short chain dehydrogenase
     0.0015   18.1   0.1     0.0064   16.1   0.1    2.2  1  NmrA             NmrA-like family
     0.0019   17.4   0.2        2.3    7.3   0.1    2.9  3  Polysacc_synt_2  Polysaccharide biosynthesis protein


Domain annotation for each model (and alignments):
>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.0   0.0   1.7e-21   3.3e-18       1     155 [.       3     152 ..       3     155 .. 0.81

  Alignments for each domain:
  == domain 1  score: 66.0 bits;  conditional E-value: 1.7e-21
                              EEEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHC.EEEE--TT-HH.HHHHHHHHHT-SEEEE--S---HHHHHHSH CS
                Epimerase   1 ilVtGatGfiGsalvkallekgyevigldrlssasntarledl.elveldltdrs.alerlfkeeqpdavihlAavggvaassedp 84 
                              ilVtGa+Gf+G++l+++ll  g++v gl r +s+    +  +   +v++dl +    + +++  ++ da ih A+   v+ +  + 
  PHY93_04635|PHY93_04635   3 ILVTGANGFLGTHLCERLLGLGHTVYGLVRTPSKMGLTH--ENfIMVQGDLNQTLlPWINYLP-NDLDACIHTAG--LVHSY--NT 81 
                              8******************************66666443..33499*****998776777777.49*******76..33333..34 PP

                              HHHHHHHTHHHHHHHHHHHHH..TCTEEEEEEEGGGGTSCSSSS.BSTCSTTS--.--SSHHHHHHHHHHHHHHH CS
                Epimerase  85 adfieknlqgtlnlleaarka..gvkrllflsSsevYGkdaeqp.keettltgpl.kpnspYaaaKlageklvea 155
                              +df++ n+ gt  l+e ++++  +  +++ +sS +  G+++    k+et     l  p s Y+++K  +e++++ 
  PHY93_04635|PHY93_04635  82 EDFFNVNTLGTKILIESLKAKfsQKFKFILVSSLAAAGPVKFGEiKDETD----LdFPVSIYGRSKKQAEEMLRT 152
                              7******************8865555************999932133333....33699*************986 PP

>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.4   0.0     8e-19   1.6e-15       1     165 [.       4     151 ..       4     155 .. 0.86

  Alignments for each domain:
  == domain 1  score: 57.4 bits;  conditional E-value: 8e-19
                              EEETTTSHHHHHHHHHHHHCT-CCEEEEEEESS-TTHHHHHCTTT...TTGCCEEEEE--TT-HHHHHHHHHHHT-SEEEE--S-- CS
            GDP_Man_Dehyd   1 LiTGiaGfiGsylaelLlekgyevhgivrrsssfntgriehlakdpkeeleenlklhkgDltDssslerllaevqpdevynLAAqs 86 
                              L+TG +Gf G +l+e+Ll  g++v+g+vr  s++       l+       +en+ +++gDl+ +          + d+ ++ A+  
  PHY93_04635|PHY93_04635   4 LVTGANGFLGTHLCERLLGLGHTVYGLVRTPSKMG------LT-------HENFIMVQGDLNQTLLPWINYLPNDLDACIHTAGLV 76 
                              9****************************999855......32.......3589*******875433222334589********99 PP

                              -HHHHTTSHHHHHHHHTHHHHHHHHHHHHCT..TTSEEEEEEEGGGG-S-SSSSB-TTS---.--SHHHHHHHHHHHHHH CS
            GDP_Man_Dehyd  87 hVdvsfekPeytaevnvlGtlrLLeairalglekkvrfyqaStsEvYGkvqevpqtEttpfy.PrsPYaaaKlyadwivv 165
                              h   s+++ e +++vn lGt  L+e  +a + ++k++f+ +S+    G v+   ++++t ++ P s Y+ +K  a+ + +
  PHY93_04635|PHY93_04635  77 H---SYNT-EDFFNVNTLGTKILIESLKA-KFSQKFKFILVSSLAAAGPVKFGEIKDETDLDfPVSIYGRSKKQAEEMLR 151
                              8...6665.99****************98.5679*****************999887777765************99987 PP

>> NAD_binding_4  Male sterility protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.6   0.6   6.5e-13   1.3e-09       1     189 [.       5     152 ..       5     157 .. 0.82

  Alignments for each domain:
  == domain 1  score: 37.6 bits;  conditional E-value: 6.5e-13
                              EE-TTSHHHHHHHHHHHHHS-.TEEEEEE-SSSHHHHHHHHHHHT-SS-HHHHHHHHHTTTEEEEE--TTSGGGG--HHHHHHHHH CS
            NAD_binding_4   1 lTGaTGFLGkvLlekLLrttpevkiyllvRaksgesaeeRleeelekkelfsallkelaerikvveGDlseprlGLseedlqelae 86 
                              +TGa GFLG++L e+LL      ++y lvR+ s+             ++l         e+ ++v+GDl++  l      ++ l +
  PHY93_04635|PHY93_04635   5 VTGANGFLGTHLCERLLGLGH--TVYGLVRTPSK-------------MGLT-------HENFIMVQGDLNQTLL----PWINYLPN 64 
                              7******************98..9*******977.............4443.......46689*********98....56888999 PP

                              H--EEEE--SS-S.STTSSEEHHHHHHHHHHHHHHHT.SSS--.-EEEEEE.GGGTTS-TTT--SSS-H......HHH--EEEETT CS
            NAD_binding_4  87 evdviihsaAtvnfdepykellrvNveGtrevlelak.klkklkvllhvST.ayvngeregeveekvyeegekeekldederaklk 170
                               +d+ ih a+ v+  ++++++++vN++Gt+ ++e  k k +++  ++ vS+ a++ + + ge+               +de +  +
  PHY93_04635|PHY93_04635  65 DLDACIHTAGLVH-SYNTEDFFNVNTLGTKILIESLKaKFSQKFKFILVSSlAAAGPVKFGEI---------------KDETDL-D 133
                              99**********9.7889**************985554899999*******777777777765...............223222.2 PP

                              TCCCHHHHHHHHHHHHHHH CS
            NAD_binding_4 171 glpntYeqsKalaEklvre 189
                                   Y +sK  aE+++r+
  PHY93_04635|PHY93_04635 134 FPVSIYGRSKKQAEEMLRT 152
                              2334788888888888876 PP

>> 3Beta_HSD  3-beta hydroxysteroid dehydrogenase/isomerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.8   0.0   9.7e-16   1.9e-12       1     157 [.       4     150 ..       4     154 .. 0.79

  Alignments for each domain:
  == domain 1  score: 46.8 bits;  conditional E-value: 9.7e-16
                3Beta_HSD   1 vvtGgaGFlGralvkeLvrleelkevrvlDlrespelleelskvnvkkviegDvtdk..dkleealegvdvvihlaslvdvagklt 84 
                              +vtG+ GFlG +l+++L+ l++     v+ l+  p++   l++ n + +++gD++++  + ++   ++ d+ ih+a+lv + +   
  PHY93_04635|PHY93_04635   4 LVTGANGFLGTHLCERLLGLGH----TVYGLVRTPSKM-GLTHENFI-MVQGDLNQTllPWINYLPNDLDACIHTAGLVHSYN--- 80 
                              69*******************7....788888888884.44445555.8*****9975578999***********99876554... PP

                3Beta_HSD  85 edeimkvnvkGTrnvleacvka..gvrvlvYtSsaevvgpnslgeeilngdEeleyeslhqdaypesKalaEklv 157
                              ++ + +vn  GT+ ++e+ + +  +  +++ +Ss+ ++gp ++  ei   dE+      ++++y +sK++aE+++
  PHY93_04635|PHY93_04635  81 TEDFFNVNTLGTKILIESLKAKfsQKFKFILVSSLAAAGP-VKFGEIK--DETDL--DFPVSIYGRSKKQAEEML 150
                              55599************87654114446899*********.4444455..44433..35889**********996 PP

>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.7   0.0   7.7e-12   1.5e-08       1     132 [.       7     151 ..       7     154 .. 0.78

  Alignments for each domain:
  == domain 1  score: 34.7 bits;  conditional E-value: 7.7e-12
                              TTTSHHHHHHHHHHHHC-T-EEEEEETTHHHCHHHHCTTTCEEEE--TT-C..CHHHHHHTT-SEEEES---TCC..HHHH..... CS
           NAD_binding_10   1 GAtGkvGrllvkellargghevtalvRnpeklaeleaeeglevvegdvtdv..edlaealkgadaVvsalggggk..deeg..... 77 
                              GA+G  G +l+++ll   gh+v  lvR+p+k+  l  +e+  +v+gd++++    +    ++ da + ++g  ++  +e+      
  PHY93_04635|PHY93_04635   7 GANGFLGTHLCERLLGL-GHTVYGLVRTPSKMG-LT-HENFIMVQGDLNQTllPWINYLPNDLDACIHTAGLVHSynTEDFfnvnt 89 
                              9****************.5*************9.75.9***********865467888888****999996555533222255556 PP

                              ..HHHHHHHHHH..CT--EEEEEEETTTTSGCGCHHHHHHHH.....CCHHHHHHHHHHHHHHH CS
           NAD_binding_10  78 ..aknivdaake..agvkRfvlvsaigvgdevpgefgewnke.....llkaylaakraaeellr 132
                                +k +++ +k+  ++  +f+lvs++ +    p +fge+++e      ++ y + k++aee+lr
  PHY93_04635|PHY93_04635  90 lgTKILIESLKAkfSQKFKFILVSSLAAAG--PVKFGEIKDEtdldfPVSIYGRSKKQAEEMLR 151
                              67******999833455578*****99985..6778877765444423455569999***9998 PP

>> RmlD_sub_bind  RmlD substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.9   0.0   1.9e-08   3.8e-05       1     138 [.       1     152 [.       1     157 [. 0.73

  Alignments for each domain:
  == domain 1  score: 22.9 bits;  conditional E-value: 1.9e-08
                              EEEEEESTTSHHHHHHHHHCTTTSEEEEEE-TT............T--TTSHHHHHHHHHHH..--SEEEE------HHHHHHSHH CS
            RmlD_sub_bind   1 mkilvtGanGqlGseLakqlaeeglevlaltre............eldltdaeavaellkea..kpdvvvnaAAytavDkaEseee 72 
                              mkilvtGanG lG++L ++l   g+ v++l r+             ++ + ++++   ++    + d+ +++A      + E    
  PHY93_04635|PHY93_04635   1 MKILVTGANGFLGTHLCERLLGLGHTVYGLVRTpskmglthenfiMVQGDLNQTLLPWINYLpnDLDACIHTAGLVHSYNTE---- 82 
                              89****************************9988988888877773444444444444444300455777777776666655.... PP

                              HHHHHHTHHHHHHHHHHHH...CT-EEEEEEEGGGS-S-TTS-.B-TTS----SSHHHHHHHHHHHHHHH CS
            RmlD_sub_bind  73 aayavnaeavealAeaaaa...vgalLihvStDyVFdGekkrp.YeeddetsPlnvYGrtKlaGEqavla 138
                                ++vn  +++ l e  +a    + ++i vS+       k  +   e+d   P+++YGr+K + E++ + 
  PHY93_04635|PHY93_04635  83 DFFNVNTLGTKILIESLKAkfsQKFKFILVSSLAAAGPVKFGEiKDETDLDFPVSIYGRSKKQAEEMLRT 152
                              5799999999999876554222578899999977655555444256889999*************99875 PP

>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.0   1.2e-06    0.0024       3     142 ..       3     120 ..       1     126 [. 0.83
   2 ?   -2.3   0.0       1.3   2.5e+03     147     164 ..     137     154 ..     132     159 .. 0.68

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 1.2e-06
                              EEEESTTSHHHHHHHHHHHHTT-EEEEEESCHHHHHHHHHHHHHTTSEEEEEE-TTTSHHHHHHHHHHHHHHHSSESEEEE---SS CS
                adh_short   3 vlvtGassGIGraiakelakeGakvvvvdrseekleevakelkeegakalaiqvDvtdreevealvekavkklgkldvLvnNAGit 88 
                              +lvtGa + +G  ++++l+  G +v+ + r+++k+  ++       ++++++q+D++     ++l+ ++      ld+ ++ AG+ 
  PHY93_04635|PHY93_04635   3 ILVTGANGFLGTHLCERLLGLGHTVYGLVRTPSKMGLTH-------ENFIMVQGDLN-----QTLLPWINYLPNDLDACIHTAGL- 75 
                              8***************************9*999982222.......249*******9.....88999999999************. PP

                              --SSGGGCSHHHHHHHHHHHTHHHHHHHHHHHHHHHHCTTEEEEEEEEGGGTSB CS
                adh_short  89 gsgpfselseeewervievNltgvflltravlpamlkqssGrIvnvsSvagkvp 142
                                     + + ++e+ ++vN  g+  l++++  ++   ++ + + vsS a+  p
  PHY93_04635|PHY93_04635  76 -------VHSYNTEDFFNVNTLGTKILIESLKAKFS--QKFKFILVSSLAAAGP 120
                              .......67777888899999999888888776655..6667777888777655 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 1.3
                              HHHHHHHHHHHHHHHHHH CS
                adh_short 147 aaYsAsKaavagltrsla 164
                              + Y+ sK   + + r+la
  PHY93_04635|PHY93_04635 137 SIYGRSKKQAEEMLRTLA 154
                              567777777777766665 PP

>> NmrA  NmrA-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.1   3.2e-06    0.0064       1      52 [.       3      51 ..       3     156 .. 0.85

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 3.2e-06
                             EEESSTTSHHHHHHHHHHHHHT-EEEEEES-S-SHHHHHHHHSTTEEEES-T CS
                     NmrA  1 IlviGaTGrqGksvvrallkaghkvralvRdtkselakslkeaGvelvkgdl 52
                             Ilv+Ga G +G ++ + ll  gh+v  lvR +++  +    ++   +v+gdl
  PHY93_04635|PHY93_04635  3 ILVTGANGFLGTHLCERLLGLGHTVYGLVRTPSKMGL---THENFIMVQGDL 51
                             9******************************977653...334444555555 PP

>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.3   0.1    0.0012       2.3       1      20 [.       3      22 ..       3      33 .. 0.90
   2 !    5.3   0.0    0.0045         9      78     136 ..      66     122 ..      42     132 .. 0.80
   3 ?    1.7   0.0     0.057   1.1e+02     134     153 ..     135     154 ..     130     164 .. 0.86

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0012
                             EEEETTTSHHHHHHHHHHHH CS
          Polysacc_synt_2  1 vlvtGagGsiGselvrqilk 20
                             +lvtGa G +G +l++++l 
  PHY93_04635|PHY93_04635  3 ILVTGANGFLGTHLCERLLG 22
                             89**************9985 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.0045
                              -SEEEE------HHHHHHSHHHHHHHHHHHHHHHHHH..HHHTT-SEEEEEEEGGGSS--S CS
          Polysacc_synt_2  78 vdvvfhaAAlKhVPlveenpleaiktNvlgtenviea..aieagvkkvvliStDKAvnPtn 136
                               d+++h+A l h     +n+ + ++ N lgt+ +ie   a+ ++  k++l+S+  A+ P+ 
  PHY93_04635|PHY93_04635  66 LDACIHTAGLVH----SYNTEDFFNVNTLGTKILIESlkAKFSQKFKFILVSSLAAAGPVK 122
                              567777777755....68999999***********97224445666799999999988875 PP

  == domain 3  score: 1.7 bits;  conditional E-value: 0.057
                              --SHHHHHHHHHHHHHHHGG CS
          Polysacc_synt_2 134 PtnvmGatKrlaekllqala 153
                              P++++G +K+ ae +l +la
  PHY93_04635|PHY93_04635 135 PVSIYGRSKKQAEEMLRTLA 154
                              99***********9987765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (165 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       454  (0.0253221); expected 358.6 (0.02)
Passed bias filter:                      441  (0.024597); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.50u 0.24s 00:00:00.74 Elapsed: 00:00:00.41
# Mc/sec: 1204.07
//
Query:       PHY93_21025|PHY93_21025  [L=272]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.6e-20   72.6   0.2      8e-13   48.4   0.0    3.0  3  DUF4135   Domain of unknown function (DUF4135)


Domain annotation for each model (and alignments):
>> DUF4135  Domain of unknown function (DUF4135)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.4   0.0   4.5e-17     8e-13      55     177 ..       5     128 ..       3     164 .. 0.78
   2 !   12.5   0.0   3.7e-06     0.067     271     328 ..     165     223 ..     162     225 .. 0.87
   3 !    8.6   0.0   5.6e-05         1     356     373 ..     226     243 ..     222     244 .. 0.87

  Alignments for each domain:
  == domain 1  score: 48.4 bits;  conditional E-value: 4.5e-17
                  DUF4135  55 gDsHnggrsVailrfasgaklvYKPRslalevafqellewln....kkagsldlkvlkvldrgeYgWvefvehqpcaseeeverfY 136
                              +D Hn g+ V+ ++ as +  + KPR++  e  f+   + ++    +k  ++ +++   l+ ++ g+ + + +++  ++++     
  PHY93_21025|PHY93_21025   5 ADLHNFGQHVTQIERAS-EIYFQKPRPIYWEWFFFGKNSPIKnifgPKTAKVLFNLDVHLESDDCGFSKQIVEAEEGNDQSS--HA 87 
                              79*************98.55556***********8766666544445557777777777888********998888888874..44 PP

                  DUF4135 137 rraGallallyllggtDlheeNliasgeqpvliDlEtllth 177
                              +++G l+a++yl+g++Dlh++N++    ++ +iD+E++l++
  PHY93_21025|PHY93_21025  88 YNLGILIAYCYLFGIRDLHKGNVVRREAHLQVIDAEVVLSK 128
                              69*************************************66 PP

  == domain 2  score: 12.5 bits;  conditional E-value: 3.7e-06
                  DUF4135 271 leeileGFreayelllkhkeellaeegplda.fagsevRvvlrpTavYaellqesthPd 328
                              l+ il+G++++ + +l+++ +l++  +  ++ + ++++R+++r+T +Y +  ++++ P+
  PHY93_21025|PHY93_21025 165 LKLILSGYFDLISNVLEKRGKLVSIFNDHRDkMFEVPIRHIMRDTVQYRKWQENQMAPA 223
                              56799****************88776666555889******************999996 PP

  == domain 3  score: 8.6 bits;  conditional E-value: 5.6e-05
                  DUF4135 356 lleaElaaLeqgDIPyFt 373
                              ++  El++Le+gDIPy++
  PHY93_21025|PHY93_21025 226 FCSDELKQLERGDIPYYF 243
                              6789************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (272 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       307  (0.0171231); expected 358.6 (0.02)
Passed bias filter:                      286  (0.0159518); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.20s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 2025.77
//
Query:       PHY93_21030|PHY93_21030  [L=53]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (53 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       317  (0.0176809); expected 358.6 (0.02)
Passed bias filter:                      241  (0.0134419); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.20s 00:00:00.59 Elapsed: 00:00:00.37
# Mc/sec: 424.44
//
Query:       PHY93_21035|PHY93_21035  [L=589]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    3.2e-17   63.1   1.1    8.1e-17   61.7   1.1    1.7  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    1.9e-05   24.5   1.2    1.9e-05   24.5   1.2    2.1  2  HATPase_c_5  GHKL domain
    0.00012   21.9   0.6    0.00027   20.8   0.6    1.5  1  HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like
  ------ inclusion threshold ------
      0.026   14.5   0.1      0.056   13.4   0.1    1.5  1  HATPase_c_2  Histidine kinase-like ATPase domain
       0.16   12.0   0.0       0.47   10.5   0.0    1.8  1  DUF1192      Protein of unknown function (DUF1192)


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.7   1.1   2.3e-20   8.1e-17       4     109 ..     350     452 ..     347     455 .. 0.85

  Alignments for each domain:
  == domain 1  score: 61.7 bits;  conditional E-value: 2.3e-20
                              HHHHHHHHHHHHHHHHH.HSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCS..TTCHHCSTCHTSTSSSHHHHHHHHHHH CS
                HATPase_c   4 krLrqiisnlvdNavkf.atkageieveikaseddlvisveDnGiGipkedlkklfe..kfsqddstkrggggtGlGlsivkklve 86 
                                L+ +i+nl+dN+v++ + ++g i +++++++ +++i+++DnG+Gip ++l+kl++         +  +  gtG+Gl  +k+  e
  PHY93_21035|PHY93_21035 350 NELQSVIDNLIDNSVEAiEDNDGVIALQVNVNNRQIKIQIKDNGKGIPFDILEKLMDegG------SYGKVNGTGIGLVHAKETLE 429
                              5799************955588888777777678*******************7776332......233578***********888 PP

                              HTTTEEEEEEETTTEEEEEEEEE CS
                HATPase_c  87 lmgGeiwvesepgrGttftftlp 109
                              ++gG+i+++s+ g+Gtt+t+ +p
  PHY93_21035|PHY93_21035 430 KIGGKIKIDSTLGHGTTVTLLIP 452
                              8******************9877 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.1      0.98   3.5e+03      39      51 ..     306     318 ..     264     332 .. 0.56
   2 !   24.5   1.2   5.3e-09   1.9e-05       3      89 ..     349     439 ..     347     451 .. 0.83

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.98
              HATPase_c_5  39 kksliisieNsye 51 
                              k +l+ +++N +e
  PHY93_21035|PHY93_21035 306 KIHLMPIVSNAFE 318
                              3334444444444 PP

  == domain 2  score: 24.5 bits;  conditional E-value: 5.3e-09
              HATPase_c_5   3 dldlcvilgnlLdNAieacskieeekrfIrltvrekkksliisieNsyeg......ekkkle...sskskkeehGiGlksireivk 79 
                              +++l +++ nl+dN++ea ++ +    +I l+v+ +++++ i+i+ + +g      e  kl     s  k +  GiGl   +e+++
  PHY93_21035|PHY93_21035 349 TNELQSVIDNLIDNSVEAIEDND---GVIALQVNVNNRQIKIQIKDNGKGipfdilE--KLMdegGSYGKVNGTGIGLVHAKETLE 429
                              68999*************99866...7******************999996765442..433223345678899************ PP

              HATPase_c_5  80 kykgnlsiea 89 
                              k +g+++i+ 
  PHY93_21035|PHY93_21035 430 KIGGKIKIDS 439
                              ******9986 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.8   0.6   7.6e-08   0.00027       4      54 ..     353     405 ..     350     429 .. 0.81

  Alignments for each domain:
  == domain 1  score: 20.8 bits;  conditional E-value: 7.6e-08
              HATPase_c_3   4 ekAlaelvdNsldAdaen...vkievnknrgktgeivieDdGkGmseeelknal 54 
                              ++++  l+dNs++A   n   + ++vn n+  + +i+i+D+GkG++ + l++ +
  PHY93_21035|PHY93_21035 353 QSVIDNLIDNSVEAIEDNdgvIALQVNVNN-RQIKIQIKDNGKGIPFDILEKLM 405
                              567889*********999999555555543.468***********987777655 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.1   1.6e-05     0.056      44     106 ..     364     423 ..     344     449 .. 0.80

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 1.6e-05
              HATPase_c_2  44 vehayleapegpvevrlesdeealtvevaDsGpg..fdpetlpdpteeepkeslkegGrGlalik 106
                              ve+    +++g + +++ +++++++++++D+G+g  fd  ++ +++       +k +G G+ l++
  PHY93_21035|PHY93_21035 364 VEAIE--DNDGVIALQVNVNNRQIKIQIKDNGKGipFDILEKLMDEG---GSYGKVNGTGIGLVH 423
                              55444..578999*****************99998788888777644...378899999998886 PP

>> DUF1192  Protein of unknown function (DUF1192)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   0.00013      0.47      22      45 ..     206     229 ..     202     235 .. 0.92

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00013
                  DUF1192  22 veELeerIalLeaEIaRleaaiak 45 
                              +++L + I+lL  EI +le++ia+
  PHY93_21035|PHY93_21035 206 IDDLSQSIELLLNEIVKLEDHIAT 229
                              79*******************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (589 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       786  (0.0438396); expected 358.6 (0.02)
Passed bias filter:                      576  (0.0321267); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.67u 0.24s 00:00:00.91 Elapsed: 00:00:00.43
# Mc/sec: 4085.92
//
Query:       PHY93_21040|PHY93_21040  [L=377]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (377 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       518  (0.0288917); expected 358.6 (0.02)
Passed bias filter:                      217  (0.0121033); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.20s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 2787.18
//
Query:       PHY93_17310|PHY93_17310  [L=93]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.076   13.7   0.1      0.098   13.3   0.1    1.2  1  RAWUL     RAWUL domain RING finger- and  WD40-associated ubiq


Domain annotation for each model (and alignments):
>> RAWUL  RAWUL domain RING finger- and  WD40-associated ubiquitin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.1   5.5e-06     0.098       3      40 ..      35      72 ..      33      90 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 5.5e-06
                             EEEETTSBHHHHHHHHHHHHHHHHHCHGGGEEEEEEE. CS
                    RAWUL  3 lkctanatVdhLsKyLalrlaleekqeekqytiyivei 40
                             l c + +tV  L  ++a + +l++k+ + +  i + ++
  PHY93_17310|PHY93_17310 35 LSCEGSVTVTNLTNLIAYKTTLNQKKGKAKNLIINFDV 72
                             679*********************98877777766663 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (93 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       575  (0.0320709); expected 358.6 (0.02)
Passed bias filter:                      366  (0.0204139); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 698.75
//
Query:       PHY93_21045|PHY93_21045  [L=119]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (119 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       511  (0.0285013); expected 358.6 (0.02)
Passed bias filter:                      198  (0.0110436); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.25s 00:00:00.69 Elapsed: 00:00:00.44
# Mc/sec: 819.79
//
Query:       PHY93_21050|PHY93_21050  [L=175]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.073   13.3   0.0       0.18   12.1   0.0    1.7  2  UPF0102   Uncharacterised protein family UPF0102


Domain annotation for each model (and alignments):
>> UPF0102  Uncharacterised protein family UPF0102
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   9.9e-06      0.18       1      42 [.       5      52 ..       5      73 .. 0.78
   2 ?   -2.3   0.0      0.31   5.6e+03       7      19 ..      98     110 ..      95     120 .. 0.74

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 9.9e-06
                             HHHHHHHHHHHTT-EEEEEEEEETTEEEEEEE.....TTEEEE..EEEE CS
                  UPF0102  1 gEelaaeyLekkgyeilernwrcragEiDiia.....tevlvf..vEVK 42
                             +Ee++ e+L+ +gy  + r +r+ + EiDi a     + +l f  +EV 
  PHY93_21050|PHY93_21050  5 AEEVVEEWLNCQGYFTI-RGIRAGVDEIDILAtnpndKGQLKFrhIEVQ 52
                             69************776.67888899******98887444544225555 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 0.31
                              HHHHHTT-EEEEE CS
                  UPF0102   7 eyLekkgyeiler 19 
                              ++L++k+++i + 
  PHY93_21050|PHY93_21050  98 KFLKNKKMQIRNS 110
                              6899999998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (175 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       536  (0.0298957); expected 358.6 (0.02)
Passed bias filter:                      416  (0.0232026); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1333.36
//
Query:       PHY93_21055|PHY93_21055  [L=311]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.18   12.0   3.7       0.29   11.4   2.0    2.3  2  Mlp       Mlp lipoprotein family


Domain annotation for each model (and alignments):
>> Mlp  Mlp lipoprotein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0      0.15   2.7e+03      81     119 ..      22      60 ..       7      69 .. 0.58
   2 ?   11.4   2.0   1.6e-05      0.29      12      92 ..     177     261 ..     169     309 .. 0.71

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.15
                      Mlp  81 qafkkvykFLeskkekdksfdtyiKseldckkgkdkank 119
                               + +k+ + L s    +++ d  i   +++  g+d+ +k
  PHY93_21055|PHY93_21055  22 LKNHKFWNQLCSSLVVIEDSDSAISAYINSEFGTDNGEK 60 
                              344566666666644455555555555555555544444 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 1.6e-05
                      Mlp  12 LsqkElpqqeKiklksdEeklfesLsavfkytiekltneiqgcsddnks.....kcnnfldWLktdiqkqk...elaqafkkvykF 89 
                              L+++E++ +eK k+     kl     ++f y iek+ ++i +  + +         ++ +d L++ +qk+    +  ++ k +y+ 
  PHY93_21055|PHY93_21055 177 LKTEEKAHKEKFKME----KLEAVFPNAFSYYIEKIFQNIGKSDNAKLGlrhvkLVKEVMDKLEESLQKRGieiDTYDSIKYLYEL 258
                              778888888888776....99999999*************8876655435555346777888888888764111233344445555 PP

                      Mlp  90 Les 92 
                              Le+
  PHY93_21055|PHY93_21055 259 LEY 261
                              554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (311 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1428  (0.0796475); expected 358.6 (0.02)
Passed bias filter:                      595  (0.0331865); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.40
# Mc/sec: 2355.48
//
Query:       PHY93_21060|PHY93_21060  [L=412]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.7e-23   80.9   0.9    7.7e-23   80.9   0.9    2.5  3  TaqI_C    TaqI-like C-terminal specificity domain
    1.2e-13   51.5   1.0    3.3e-13   50.0   0.1    2.3  2  Eco57I    Eco57I restriction-modification methylase
    7.5e-10   38.6   0.7    1.3e-09   37.8   0.7    1.3  1  N6_Mtase  N-6 DNA Methylase
  ------ inclusion threshold ------
       0.19   12.3   2.4        0.4   11.3   0.0    2.6  3  Bin3      Bicoid-interacting protein 3 (Bin3)


Domain annotation for each model (and alignments):
>> TaqI_C  TaqI-like C-terminal specificity domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.1      0.14   6.4e+02      33      53 ..     153     181 ..     114     205 .. 0.68
   2 !   80.9   0.9   1.7e-26   7.7e-23       2     120 .]     215     340 ..     214     340 .. 0.92
   3 ?   -2.7   0.1       1.4   6.1e+03      28      48 ..     374     394 ..     362     402 .. 0.67

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.14
                   TaqI_C  33 a........kelfeekpKilvrdiskkld 53 
                                       + +f e++ i++ +i++k +
  PHY93_21060|PHY93_21060 153 LlkskdviiDIYFDESNEIILNKINSKSK 181
                              13333345566777888888888887654 PP

  == domain 2  score: 80.9 bits;  conditional E-value: 1.7e-26
                   TaqI_C   2 pllkGkdikrysieikgnYldlikkklkneka.......kelfeekpKilvrdiskkldaaydekayyvlntlylliakdele..v 78 
                              p++kGkdi +y+i+++g +    k+k++++k        + +f+ +pKi++r+++++++a++d+++yy +++l+ + +k+ l+  v
  PHY93_21060|PHY93_21060 215 PMIKGKDIAKYHIKWNGWFCCRDKNKIEKHKVtdirlreEFIFK-RPKIVIRKTGNEVVATLDDQNYYYEQSLFSVSKKE-LDsgV 298
                              799****************************7777787566777.******************************99665.3336* PP

                   TaqI_C  79 slkyllgiLNSklikfyykkiystlrggysrlkrkeleklPi 120
                              +lk++lgiLNS+l ++ +k+   ++++ ++++    l++lPi
  PHY93_21060|PHY93_21060 299 NLKLILGILNSSLSNYLLKSNPFSKKDTFPQIRLHWLKNLPI 340
                              ***************9999999999****************9 PP

  == domain 3  score: -2.7 bits;  conditional E-value: 1.4
                   TaqI_C  28 lknekakelfeekpKilvrdi 48 
                               + e++kel+  + K++ ++i
  PHY93_21060|PHY93_21060 374 ARMERDKELYDRQIKLVDKQI 394
                              334556888888888887776 PP

>> Eco57I  Eco57I restriction-modification methylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.0   0.1   7.4e-17   3.3e-13       2     103 ..       9     120 ..       8     123 .. 0.83
   2 ?   -1.9   0.1       1.1   4.9e+03      65      89 ..     137     161 ..     132     190 .. 0.61

  Alignments for each domain:
  == domain 1  score: 50.0 bits;  conditional E-value: 7.4e-17
                   Eco57I   2 k...fdviiGNPPYqeseakkelkaleek...........akdiyqkFvekalkle..dkylaliiparflasgkglkefrekllk 71 
                              k   fd++iGNPPY   +     +++e++           +++i++ F+e+++k+   d+yl++i+p+ +l s k  +++r+ ll+
  PHY93_21060|PHY93_21060   9 KrggFDAVIGNPPYLGRS--TAFSNEEKRyikskflssegKYEIFHLFMERGIKILkmDGYLSIITPQTWL-SIKQATRLRRYLLE 91 
                              5555**********9887..23333333367788999999**************99899************.9999********** PP

                   Eco57I  72 dkklkklvefedskevFkdveikggilvflkd 103
                              + +l ++v  ++s   F ++++++ i++f   
  PHY93_21060|PHY93_21060  92 NFSLIRIVSIRKSV--F-NASVDNVISIFQNS 120
                              ********998875..6.57888888887655 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 1.1
                   Eco57I  65 frekllkdkklkklvefedskevFk 89 
                              f+e+ l++k+l +   + +sk+v  
  PHY93_21060|PHY93_21060 137 FKEENLEQKNLINQESLLKSKDVII 161
                              5555555555555555555555433 PP

>> N6_Mtase  N-6 DNA Methylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.8   0.7   2.8e-13   1.3e-09     124     274 ..      11     162 ..       5     188 .. 0.82

  Alignments for each domain:
  == domain 1  score: 37.8 bits;  conditional E-value: 2.8e-13
                 N6_Mtase 124 kkfdvvvaNppfnqkewkektlekderfrea..vapksnadla..fllhiieslkpkGraavvlangvLfrggkegkIrkalvekd 205
                                fd+v+ Npp+  +  + +  ++++r+ +   +  +++ ++   f+   i+ lk +G  +++ ++  L+ + + +++r++l+e+ 
  PHY93_21060|PHY93_21060  11 GGFDAVIGNPPYLGR--STAFSNEEKRYIKSkfLSSEGKYEIFhlFMERGIKILKMDGYLSIITPQTWLSIK-QATRLRRYLLENF 93 
                              579*********999..6666666777777667777777776567999*********************976.5689********* PP

                 N6_Mtase 206 lveavialpeklFyntsiptcilvlkkekaerkgkvlfidaseefkkkd.rkknklteediekildtyke 274
                               +  ++++ + +F+  s+   i +++  k++ + +v+ +d ++ fk+++ ++kn +++e + k  d+   
  PHY93_21060|PHY93_21060  94 SLIRIVSIRKSVFN-ASVDNVISIFQNSKKNFEIEVFEVDNKSRFKEENlEQKNLINQESLLKSKDVIID 162
                              ************95.699***********99******************666666666667666655544 PP

>> Bin3  Bicoid-interacting protein 3 (Bin3)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   8.9e-05       0.4      24      79 ..      53     112 ..      40     137 .. 0.78
   2 ?   -3.1   0.0       2.7   1.2e+04      62      84 ..     245     270 ..     234     294 .. 0.56
   3 ?   -0.7   0.1      0.48   2.2e+03      47      79 ..     369     400 ..     351     409 .. 0.52

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 8.9e-05
                     Bin3  24 rlfkkiyellkpgGvl.ilEpqewksYkkkkklseelkenyke...lklrpedfeevLle 79 
                               ++++ ++ lk +G+l i+ pq w s k++++l + l en++    +++r++ f++ + +
  PHY93_21060|PHY93_21060  53 LFMERGIKILKMDGYLsIITPQTWLSIKQATRLRRYLLENFSLiriVSIRKSVFNASVDN 112
                              57788999*******879**********************98722244555566655555 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 2.7
                     Bin3  62 nykelklrpe...dfeevLleevgfe 84 
                              ++++++lr+e   + ++++ +++g e
  PHY93_21060|PHY93_21060 245 KVTDIRLREEfifKRPKIVIRKTGNE 270
                              44555555554333344444444444 PP

  == domain 3  score: -0.7 bits;  conditional E-value: 0.48
                     Bin3  47 ksYkkkkklseelkeny.kelklrpedfeevLle 79 
                              k+Y++++    + ke y +++kl  +++++++ e
  PHY93_21060|PHY93_21060 369 KKYHDARME--RDKELYdRQIKLVDKQIDTLVYE 400
                              344433222..22222313466666666666555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (412 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1111  (0.0619666); expected 358.6 (0.02)
Passed bias filter:                      466  (0.0259914); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.62u 0.24s 00:00:00.86 Elapsed: 00:00:00.45
# Mc/sec: 2726.13
//
Query:       PHY93_21070|PHY93_21070  [L=99]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.7e-30  104.4   0.5      3e-30  104.3   0.5    1.0  1  Bac_DNA_binding  Bacterial DNA-binding protein
     0.0018   18.1   0.1     0.0029   17.4   0.1    1.3  1  HU-CCDC81_bac_2  CCDC81-like prokaryotic HU domain 2


Domain annotation for each model (and alignments):
>> Bac_DNA_binding  Bacterial DNA-binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  104.3   0.5   3.3e-34     3e-30       1      89 [.       1      89 [.       1      90 [. 0.99

  Alignments for each domain:
  == domain 1  score: 104.3 bits;  conditional E-value: 3.3e-34
                             EEHHHHHHHHHTT----HHHHHHHHHHHHHHHHHHHHTT-EEEETTTEEEEEEEE--BS-B-TTT--B--B--EEEEEEEE-HHHHHH CS
          Bac_DNA_binding  1 mtkkeLieeiaektgltkkdakrvveafldtikeaLkkgekvelsgFGtfkvkerkartgrnpkTgekvkiparkvvkFkpskelkea 88
                             mtk++Li+++ ++++lt k+a+++++ ++d++++aL ++e++e++gFG+f  +  ka +grnpkTg+ vk+p++kv+ Fk++kelke+
  PHY93_21070|PHY93_21070  1 MTKADLIAALEKQANLTHKQAETIINITFDSMIKALYEDERIEIRGFGSFANRNYKAYEGRNPKTGKIVKVPPKKVPFFKVGKELKEM 88
                             9**************************************************************************************9 PP

                             H CS
          Bac_DNA_binding 89 v 89
                             v
  PHY93_21070|PHY93_21070 89 V 89
                             8 PP

>> HU-CCDC81_bac_2  CCDC81-like prokaryotic HU domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.1   3.3e-07    0.0029       6      53 ..       9      56 ..       6      59 .. 0.87

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 3.3e-07
          HU-CCDC81_bac_2  6 siaeaegisyeeAlqkiekeveelkqeLeeegrveleniGeLslneeg 53
                              + ++ ++++++A + i+   +++ ++L+e++r+e+ + G++   + +
  PHY93_21070|PHY93_21070  9 ALEKQANLTHKQAETIINITFDSMIKALYEDERIEIRGFGSFANRNYK 56
                             5567889***********************************876655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (99 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       763  (0.0425568); expected 358.6 (0.02)
Passed bias filter:                      592  (0.0330191); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.24s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 746.35
//
Query:       PHY93_21075|PHY93_21075  [L=205]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      0.005   17.1   0.0     0.0078   16.5   0.0    1.4  1  PilZ      PilZ domain
  ------ inclusion threshold ------
       0.11   12.8   0.6         11    6.5   0.1    2.2  2  DUF3599   Domain of unknown function (DUF3599)


Domain annotation for each model (and alignments):
>> PilZ  PilZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   8.7e-07    0.0078      10      65 ..     125     183 ..     103     205 .] 0.66

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 8.7e-07
                              EEECEEEEEEETTEEEEEEEEEEESSEEEEEES...T-SS-TTSEEEEEEECECEEEEE CS
                     PilZ  10 vpvsipvtleadegelkgrliDiSlgGlairlp...deelalgdrvelklpldkdqels 65 
                              v+v  +v++ + e +l++ l++iS++G++i+++   + +++   +v lkl  d +  + 
  PHY93_21075|PHY93_21075 125 VEVVFSVKNADHEITLSCPLVNISESGACIVVSketISNIDFSADVLLKLSADFQSAVI 183
                              556666666666777*****************976655555555555555544444444 PP

>> DUF3599  Domain of unknown function (DUF3599)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.5   0.1    0.0012        11      60     106 ..      59     107 ..      54     112 .. 0.81
   2 ?    5.3   0.1    0.0027        25       9      57 ..     112     160 ..     106     197 .. 0.71

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.0012
                              EETTTTEEEEEEEEEEEETT.S---TT-EEEETTEEE.EE-S--EEETT CS
                  DUF3599  60 vqeepevsiyqsflvhfple.aDirlnDkvvwngvay.klqiPkkirgh 106
                              v++e +++i  s  + f+le  D  ++ k+ +++ ++ +lqiP+++r +
  PHY93_21075|PHY93_21075  59 VNKENSAHIDPSKEIYFLLEeHDFIFKTKMAMDQKEFmTLQIPREVRLK 107
                              5678889999999999987527999*****9999887479******976 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.0027
                              EEEEEE-.-EEE---BTTTB---TTS-EEE--SS-SEEEEEEEEEEEEE CS
                  DUF3599   9 drCdiyhleekeaekgkfGipaedlepvlsypdtpdledvpCyfveksq 57 
                              +  + + leek+  +  f ++ +d e +ls p     e  +C +v k++
  PHY93_21075|PHY93_21075 112 HERKYFTLEEKKFVEVVFSVKNADHEITLSCPLVNISESGACIVVSKET 160
                              5556677888888888888888888888888888888888888766543 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (205 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       698  (0.0389313); expected 358.6 (0.02)
Passed bias filter:                      430  (0.0239835); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1513.23
//
Query:       PHY93_21080|PHY93_21080  [L=560]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (560 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       419  (0.02337); expected 358.6 (0.02)
Passed bias filter:                      247  (0.0137766); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.42
# Mc/sec: 4036.64
//
Query:       PHY93_21085|PHY93_21085  [L=137]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (137 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       246  (0.0137208); expected 358.6 (0.02)
Passed bias filter:                      171  (0.00953762); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.41
# Mc/sec: 1007.61
//
Query:       PHY93_21090|PHY93_21090  [L=178]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.091   12.7   1.7        7.7    6.5   0.6    2.2  2  DUF1825   Domain of unknown function (DUF1825)


Domain annotation for each model (and alignments):
>> DUF1825  Domain of unknown function (DUF1825)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.3   0.0   0.00099        18      57     101 ..      20      64 ..      15      66 .. 0.92
   2 ?    6.5   0.6   0.00043       7.7       3      75 ..     102     175 ..     100     178 .] 0.85

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.00099
                  DUF1825  57 krlelsddflakmtvkqlktqlgqfgitpqqmfdqlnktlermka 101
                              +r+e++ + +  ++ +ql+  + + +++ q++ + l+k++e++++
  PHY93_21090|PHY93_21090  20 ARFEFAANWVDTYITRQLDHYFDTRSLQSQLLKESLKKDIENVRK 64 
                              79**************************************99985 PP

  == domain 2  score: 6.5 bits;  conditional E-value: 0.00043
                  DUF1825   3 ffdseivqqe.akelfqdyqeliqlgskygkfdreGkkifiekleelleryrilmkrlelsddflakmtvkqlk 75 
                              +fd  +v  e   + f d  ++ ql s+  +fdr+ k +  e    +  + r + k ++  +d l+++  +q k
  PHY93_21090|PHY93_21090 102 IFDQALVIFEpSAQRFVDQLTFSQLESNRLEFDRKTKSLEEEAQPPFEAKTRRFNKIINQFEDWLGELNSEQKK 175
                              67766555442567788888999****************999999999******************99999976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (178 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       712  (0.0397122); expected 358.6 (0.02)
Passed bias filter:                      358  (0.0199677); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1356.71
//
Query:       PHY93_17315|PHY93_17315  [L=157]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.1e-46  156.0   0.2    7.3e-46  155.5   0.2    1.2  1  3-dmu-9_3-mt  3-demethylubiquinone-9 3-methyltransferase


Domain annotation for each model (and alignments):
>> 3-dmu-9_3-mt  3-demethylubiquinone-9 3-methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  155.5   0.2   4.1e-50   7.3e-46       2     116 .]       5     120 ..       4     120 .. 0.98

  Alignments for each domain:
  == domain 1  score: 155.5 bits;  conditional E-value: 4.1e-50
             3-dmu-9_3-mt   2 kitpcLlfdgeaeeAaefYvsvfenseilsvarypeeeps.kegkvltveFtlagqefvalnggpefkfneavSllveckdqeevd 86 
                              k+ +cL+fd+eaeeAa+fY+++f+ns++ sv+++p++ p  k+g+vltveFt+ g +++++ngg  fk++ea+S++++++dqee++
  PHY93_17315|PHY93_17315   5 KNQICLMFDKEAEEAANFYAETFPNSSVRSVHKAPDDYPMgKAGDVLTVEFTVLGIPCIGVNGGSYFKHSEAFSFQIATDDQEETN 90 
                              7789**********************************777********************************************* PP

             3-dmu-9_3-mt  87 rlwnalseeggeeskcgWvkDkfGvswQiv 116
                              ++wna++ +gg+es cgW+kD++G+swQi+
  PHY93_17315|PHY93_17315  91 EYWNAIVGNGGKESMCGWCKDRWGLSWQIT 120
                              ****************************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (157 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       625  (0.0348597); expected 358.6 (0.02)
Passed bias filter:                      516  (0.0287802); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1157.97
//
Query:       PHY93_21095|PHY93_21095  [L=58]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
       0.01   15.4   3.4      0.011   15.3   3.4    1.1  1  Oxidored_q2      NADH-ubiquinone/plastoquinone oxidoreductase
      0.012   15.9   3.9      0.016   15.5   3.9    1.2  1  DUF1056          Protein of unknown function (DUF1056)
       0.02   15.4   0.3      0.021   15.3   0.3    1.1  1  DUF1158          Protein of unknown function (DUF1158)
      0.026   14.4   5.8      0.042   13.7   5.8    1.3  1  YrhK             YrhK-like protein
      0.042   13.9   4.7      0.045   13.8   4.7    1.1  1  Phage_holin_3_6  Putative Actinobacterial Holin-X, holin supe
      0.055   13.7  19.1      0.073   13.3  19.1    1.2  1  DUF1328          Protein of unknown function (DUF1328)
       0.12   12.7   4.6       0.13   12.5   4.6    1.1  1  YiaAB            yiaA/B two helix domain
       0.23   11.5   2.8       0.26   11.3   2.8    1.1  1  Ac76             Orf76 (Ac76)
        1.4    8.9   3.8        1.4    8.9   3.8    1.0  1  DUF3043          Protein of unknown function (DUF3043)
        3.4    7.3   6.9          4    7.1   6.9    1.2  1  Tetraspanin      Tetraspanin family


Domain annotation for each model (and alignments):
>> Oxidored_q2  NADH-ubiquinone/plastoquinone oxidoreductase chain 4L
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.3   3.4   6.2e-06     0.011       1      48 [.       7      54 ..       7      58 .] 0.81

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 6.2e-06
                             HHHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHHHHHHHC CS
              Oxidored_q2  1 flllliallfliGlygvllrrnllkvliglelisnavnlllvlagvft 48
                             +l++l+a++fliG++gv + +    +++++ ++ ++++ ++v +++  
  PHY93_21095|PHY93_21095  7 MLFILAAVAFLIGTFGVAAISIQAIQILAVVFLILGAISYIVKSSRER 54
                             5789**************955555567888888899999999888765 PP

>> DUF1056  Protein of unknown function (DUF1056)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.5   3.9   8.7e-06     0.016      16      58 ..       6      50 ..       2      56 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 8.7e-06
                  DUF1056 16 VLlFiaamivltytaFlfna..taGvlvisvvlflvGllsEviee 58
                             ++lFi+a+++  +  F + a   + + +++vv++++G +s +++ 
  PHY93_21095|PHY93_21095  6 IMLFILAAVAFLIGTFGVAAisIQAIQILAVVFLILGAISYIVKS 50
                             789**********9998765223667789***********99986 PP

>> DUF1158  Protein of unknown function (DUF1158)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.3   0.3   1.2e-05     0.021      23      69 ..       2      48 ..       1      56 [. 0.90

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 1.2e-05
                  DUF1158 23 lllpapalslalakklvttfhlldlnqlytlvfclwflllgaveylv 69
                             ++lp   + la    l+ tf +  +      ++ + fl+lga+ y+v
  PHY93_21095|PHY93_21095  2 IFLPIMLFILAAVAFLIGTFGVAAISIQAIQILAVVFLILGAISYIV 48
                             57899999999999***********998899999***********98 PP

>> YrhK  YrhK-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   5.8   2.3e-05     0.042      10      53 ..       8      50 ..       3      57 .. 0.80

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 2.3e-05
                     YrhK 10 ndiigsllFlvGSilflpnsefwkwqiagvwlFliGSilflirp 53
                             + i++++ Fl+G +     +++++ qi++v++ ++G+i++++++
  PHY93_21095|PHY93_21095  8 LFILAAVAFLIGTFGVA-AISIQAIQILAVVFLILGAISYIVKS 50
                             45678888888877666.44467******************987 PP

>> Phage_holin_3_6  Putative Actinobacterial Holin-X, holin superfamily III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   4.7   2.5e-05     0.045      44      87 ..       7      49 ..       1      57 [. 0.57

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 2.5e-05
          Phage_holin_3_6 44 gvlallalllllval.alalaalwlaalivaavllvlagvlalvg 87
                             +++ l a+++l+ ++ ++a+  +  a  i+a+v+l+l+++  +v 
  PHY93_21095|PHY93_21095  7 MLFILAAVAFLIGTFgVAAI--SIQAIQILAVVFLILGAISYIVK 49
                             23333333333333333333..56666789999999999987765 PP

>> DUF1328  Protein of unknown function (DUF1328)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3  19.1   4.1e-05     0.073       1      36 [.       6      41 ..       6      44 .. 0.96

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 4.1e-05
                  DUF1328  1 liFLviAliAgvLGFgGiagaaagiAkiLFfiFlvl 36
                             ++ +++A +A + G  G+a+ +++  +iL ++Fl+l
  PHY93_21095|PHY93_21095  6 IMLFILAAVAFLIGTFGVAAISIQAIQILAVVFLIL 41
                             789********************************9 PP

>> YiaAB  yiaA/B two helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   4.6   7.2e-05      0.13       7      47 ..       7      46 ..       2      53 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 7.2e-05
                    YiaAB  7 lsfllalvlllvGlwylpldlseKgfyamgllfllfsaftl 47
                              +f+la+v++l+G +   ++ s+ +  +++++fl+ +a+++
  PHY93_21095|PHY93_21095  7 MLFILAAVAFLIGTF-GVAAISIQAIQILAVVFLILGAISY 46
                             68*************.99*********************97 PP

>> Ac76  Orf76 (Ac76)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   2.8   0.00015      0.26       4      51 ..       5      52 ..       1      56 [. 0.79

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00015
                     Ac76  4 illlialivlafildkneklsellltllllfvlFiillnvyyikteSt 51
                              ++l +l+++af++ ++  +   +  + +l v+F+il  + yi + S 
  PHY93_21095|PHY93_21095  5 PIMLFILAAVAFLIGTFGVAAISIQAIQILAVVFLILGAISYIVKSSR 52
                             4567779999*****9965555566788*********9**9*988876 PP

>> DUF3043  Protein of unknown function (DUF3043)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   3.8   0.00079       1.4      81     128 ..       2      52 ..       1      58 [] 0.54

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.00079
                  DUF3043  81 lflplalvvlvl..llv.slvkvpevqavvsllllvllllvvidgillgrk 128
                              +flp++l++l++  +l+ ++  ++   +++++l++v+l+l +i  i+ + +
  PHY93_21095|PHY93_21095   2 IFLPIMLFILAAvaFLIgTFGVAAISIQAIQILAVVFLILGAISYIVKSSR 52 
                              588888888877533333333333333455666666677666666665444 PP

>> Tetraspanin  Tetraspanin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.1   6.9    0.0022         4      48      88 ..       3      44 ..       1      52 [. 0.79

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.0022
                             .....XXXXXXXXXXXXXXXXXX.XXXXXXXXXXXXXXXXXX CS
                             xxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxx RF
              Tetraspanin 48 ilaillivvGvllfllgflGcig.alkenkcllltfsllllv 88
                             +l+i+l+++ ++ fl+g +G+ + +++  ++l ++f++l  +
  PHY93_21095|PHY93_21095  3 FLPIMLFILAAVAFLIGTFGVAAiSIQAIQILAVVFLILGAI 44
                             5788999999**********9996777777888888776555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (58 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1266  (0.0706119); expected 358.6 (0.02)
Passed bias filter:                      603  (0.0336327); expected 358.6 (0.02)
Passed Vit filter:                       100  (0.00557756); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.41
# Mc/sec: 429.42
//
Query:       PHY93_21100|PHY93_21100  [L=373]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    8.3e-21   74.3   0.1    1.9e-06   28.3   0.0    4.4  4  TPR_19      Tetratricopeptide repeat
    8.8e-20   69.7   0.0     0.0033   18.1   0.0    7.1  8  TPR_14      Tetratricopeptide repeat
      5e-19   66.8   3.0    0.00031   20.6   0.0    7.9  8  TPR_2       Tetratricopeptide repeat
      4e-17   60.9   3.0    0.00097   19.2   0.0    7.9  8  TPR_8       Tetratricopeptide repeat
    1.6e-14   53.9   1.2    4.2e-06   27.0   0.0    5.6  8  TPR_12      Tetratricopeptide repeat
    5.6e-14   51.3   3.3    0.00081   19.1   0.0    7.1  7  TPR_1       Tetratricopeptide repeat
    5.4e-11   41.7   1.1     0.0016   18.3   0.0    7.1  8  TPR_7       Tetratricopeptide repeat
    7.8e-11   41.9   1.9       0.35   11.6   0.0    7.0  7  TPR_6       Tetratricopeptide repeat
    2.2e-10   40.6   4.6    0.00059   20.0   0.0    4.0  4  ANAPC3      Anaphase-promoting complex, cyclosome, subunit 3
    2.1e-09   37.9   0.0       0.71   10.6   0.0    4.5  4  TPR_16      Tetratricopeptide repeat
    3.9e-09   36.1   2.2    0.00082   19.2   0.0    5.1  6  TPR_10      Tetratricopeptide repeat
    2.1e-05   24.1   0.2    0.00081   19.0   0.1    3.4  3  TPR_11      TPR repeat
    3.2e-05   24.0   3.5        4.7    7.8   0.0    5.8  5  TPR_17      Tetratricopeptide repeat
    5.7e-05   23.4   0.1        1.2    9.5   0.0    3.6  3  TPR_20      Tetratricopeptide repeat
    0.00021   20.6   0.0        1.9    7.6   0.0    3.4  3  TPR_15      Tetratricopeptide repeat
    0.00026   21.0   0.0        1.4    9.4   0.0    5.0  5  PPR         PPR repeat
    0.00036   20.0   0.0       0.22   10.8   0.0    3.1  4  TPR_MalT    MalT-like TPR region
    0.00057   20.0   0.0        8.2    6.7   0.0    4.1  4  TPR_9       Tetratricopeptide repeat
    0.00077   19.2   0.8        1.8    8.2   0.1    3.4  3  YfiO        Outer membrane lipoprotein
     0.0013   18.4   0.6     0.0052   16.5   0.1    2.2  3  RPN7        26S proteasome subunit RPN7
      0.002   18.6   0.0         26    5.8   0.0    4.0  3  TPR_4       Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.042   14.4   0.5       0.76   10.4   0.0    3.0  3  DUF4810     Domain of unknown function (DUF4810)
      0.043   13.9   0.8         18    5.5   0.0    4.5  4  Fis1_TPR_C  Fis1 C-terminal tetratricopeptide repeat
      0.045   13.5   1.6       0.09   12.5   0.3    2.3  2  DUF2225     Uncharacterized protein conserved in bacteria (DU


Domain annotation for each model (and alignments):
>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.3   0.0   2.5e-09   1.9e-06       4      54 ..      48      98 ..      46     112 .. 0.91
   2 !    7.9   0.1     0.006       4.5       3      42 ..     116     155 ..     116     168 .. 0.91
   3 !   11.2   0.0   0.00055      0.41       5      50 ..     186     231 ..     184     246 .. 0.88
   4 !   21.3   0.0   3.8e-07   0.00029       3      55 ..     288     340 ..     286     350 .. 0.94

  Alignments for each domain:
  == domain 1  score: 28.3 bits;  conditional E-value: 2.5e-09
                   TPR_19  4 egdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpee 54
                             +gdy+ A ++++ +l+  p++ +++ +L + l+ +g+l+eAe +L+a+++ 
  PHY93_21100|PHY93_21100 48 RGDYQTATSIFRDLLKLQPNDNYLKRNLSIELIRNGELKEAETMLEAILNG 98
                             79**********************************************975 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.006
                   TPR_19   3 aegdyaeAlalleqalqedpknaearllLAeallalgqld 42 
                              a+g++++A+ l++ ++q +++ + a l+LA+  l  + ++
  PHY93_21100|PHY93_21100 116 ARGKPEQAQTLYQDIIQTSANIETACLYLAKSFLREKKYN 155
                              689***************************9888777665 PP

  == domain 3  score: 11.2 bits;  conditional E-value: 0.00055
                   TPR_19   5 gdyaeAlalleqalqedpknaearllLAeallalgqldeAealLda 50 
                              g   +A++++++  + +p ++   l+L + +    +l  A ++ ++
  PHY93_21100|PHY93_21100 186 GHALQAIKYFKKSVSMNPSYLQSVLALGDFYETKEDLRSALKTYKD 231
                              66779***********************************999775 PP

  == domain 4  score: 21.3 bits;  conditional E-value: 3.8e-07
                   TPR_19   3 aegdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeed 55 
                              ++g+y eA++l+e++l+  p+++ + ++L  +  + ++ +eA++  +++pe+ 
  PHY93_21100|PHY93_21100 288 DSGRYIEAIELFEEVLSIVPDSEKVIYYLGALNQQINHSQEAIKYFKRIPESS 340
                              579***********************************************986 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.3   0.0     0.027        20      13      35 ..      47      69 ..      37      77 .. 0.84
   2 !    9.7   0.0    0.0022       1.7      11      35 ..      79     102 ..      71     105 .. 0.84
   3 !   16.1   0.0     2e-05     0.015       5      43 ..     108     146 ..     104     147 .. 0.94
   4 ?    3.9   0.0      0.17   1.2e+02       7      42 ..     178     213 ..     172     214 .. 0.78
   5 ?    7.4   0.0     0.012       9.3       4      33 ..     209     238 ..     206     248 .. 0.84
   6 ?   -0.5   0.0       4.2   3.2e+03       6      42 ..     247     283 ..     242     285 .. 0.79
   7 !   18.1   0.0   4.4e-06    0.0033       6      43 ..     281     318 ..     276     319 .. 0.91
   8 ?   -0.7   0.0         5   3.7e+03      18      27 ..     327     336 ..     320     344 .. 0.81

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.027
                   TPR_14 13 alGdpdeAiallrralalaPdda 35
                              +Gd+++A  ++r++l+l+P+d 
  PHY93_21100|PHY93_21100 47 IRGDYQTATSIFRDLLKLQPNDN 69
                             58******************985 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.0022
                   TPR_14  11 llalGdpdeAiallrralalaPdda 35 
                              l ++G+++eA+++l+++l  +Pd++
  PHY93_21100|PHY93_21100  79 LIRNGELKEAETMLEAILN-GPDNP 102
                              789**************87.77665 PP

  == domain 3  score: 16.1 bits;  conditional E-value: 2e-05
                   TPR_14   5 lalaeallalGdpdeAiallrralalaPddaeawlllaq 43 
                              l la ++ a+G+p++A +l+++++++  + ++a l+la+
  PHY93_21100|PHY93_21100 108 LILAGVFDARGKPEQAQTLYQDIIQTSANIETACLYLAK 146
                              67999********************************97 PP

  == domain 4  score: 3.9 bits;  conditional E-value: 0.17
                   TPR_14   7 laeallalGdpdeAiallrralalaPddaeawllla 42 
                              ++e++  +G   +Ai+++++ ++ +P+ ++  l+l+
  PHY93_21100|PHY93_21100 178 RGEIESGRGHALQAIKYFKKSVSMNPSYLQSVLALG 213
                              6677777888889*************9887666665 PP

  == domain 5  score: 7.4 bits;  conditional E-value: 0.012
                   TPR_14   4 llalaeallalGdpdeAiallrralalaPd 33 
                               lal++++++ +d++ A++ +++ l  a +
  PHY93_21100|PHY93_21100 209 VLALGDFYETKEDLRSALKTYKDFLTIAGN 238
                              5899*****************998877655 PP

  == domain 6  score: -0.5 bits;  conditional E-value: 4.2
                   TPR_14   6 alaeallalGdpdeAiallrralalaPddaeawllla 42 
                              +++ +l+  ++  + i +++++++ + +d+ +  +l+
  PHY93_21100|PHY93_21100 247 RIVTLLFSMEKNTAVIPYAEKLCSIDKSDLNLKVHLG 283
                              556677778888889999*******999998888886 PP

  == domain 7  score: 18.1 bits;  conditional E-value: 4.4e-06
                   TPR_14   6 alaeallalGdpdeAiallrralalaPddaeawlllaq 43 
                               l+ ++  +G++ eAi+l++++l+  Pd++ + ++l+ 
  PHY93_21100|PHY93_21100 281 HLGLLYSDSGRYIEAIELFEEVLSIVPDSEKVIYYLGA 318
                              68999*************************99999986 PP

  == domain 8  score: -0.7 bits;  conditional E-value: 5
                   TPR_14  18 deAiallrra 27 
                              +eAi++++r+
  PHY93_21100|PHY93_21100 327 QEAIKYFKRI 336
                              79******98 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.3   0.0   0.00041      0.31       3      34 .]      37      68 ..      35      68 .. 0.96
   2 ?    2.7   0.0      0.23   1.7e+02       5      26 ..      73      94 ..      70      97 .. 0.83
   3 ?    0.9   0.0      0.85   6.3e+02      12      28 ..     115     131 ..     109     134 .. 0.81
   4 ?   -0.0   0.1       1.7   1.3e+03       3      19 ..     140     156 ..     139     156 .. 0.88
   5 !   11.2   0.0   0.00042      0.31       3      33 ..     174     204 ..     172     205 .. 0.91
   6 ?    1.6   0.0       0.5   3.8e+02       6      30 ..     211     235 ..     210     239 .. 0.83
   7 !   20.6   0.0   4.1e-07   0.00031       6      33 ..     281     308 ..     278     309 .. 0.94
   8 !    8.5   0.1    0.0031       2.3       3      26 ..     312     335 ..     310     336 .. 0.92

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00041
                    TPR_2  3 alynlGlayyklgdyeeAleafekAleldPnn 34
                             al+  G+ +  +gdy+ A   f+  l+l Pn+
  PHY93_21100|PHY93_21100 37 ALFLKGNDASIRGDYQTATSIFRDLLKLQPND 68
                             8999**************************97 PP

  == domain 2  score: 2.7 bits;  conditional E-value: 0.23
                    TPR_2  5 ynlGlayyklgdyeeAleafek 26
                              nl   ++++g+++eA+  +e+
  PHY93_21100|PHY93_21100 73 RNLSIELIRNGELKEAETMLEA 94
                             5888999*********987776 PP

  == domain 3  score: 0.9 bits;  conditional E-value: 0.85
                    TPR_2  12 yklgdyeeAleafekAl 28 
                               ++g++e+A  +++  +
  PHY93_21100|PHY93_21100 115 DARGKPEQAQTLYQDII 131
                              578**********9765 PP

  == domain 4  score: -0.0 bits;  conditional E-value: 1.7
                    TPR_2   3 alynlGlayyklgdyee 19 
                              a+ +l+++ ++ ++y++
  PHY93_21100|PHY93_21100 140 ACLYLAKSFLREKKYNK 156
                              7889**********986 PP

  == domain 5  score: 11.2 bits;  conditional E-value: 0.00042
                    TPR_2   3 alynlGlayyklgdyeeAleafekAleldPn 33 
                              + +++G++   +g+  +A+++f+k+++ +P 
  PHY93_21100|PHY93_21100 174 YAFYRGEIESGRGHALQAIKYFKKSVSMNPS 204
                              6799**************************7 PP

  == domain 6  score: 1.6 bits;  conditional E-value: 0.5
                    TPR_2   6 nlGlayyklgdyeeAleafekAlel 30 
                              +lG+ y+ + d+  Al+ ++  l +
  PHY93_21100|PHY93_21100 211 ALGDFYETKEDLRSALKTYKDFLTI 235
                              6899999999******999877766 PP

  == domain 7  score: 20.6 bits;  conditional E-value: 4.1e-07
                    TPR_2   6 nlGlayyklgdyeeAleafekAleldPn 33 
                               lGl+y  +g+y eA+e+fe++l++ P+
  PHY93_21100|PHY93_21100 281 HLGLLYSDSGRYIEAIELFEEVLSIVPD 308
                              69***********************998 PP

  == domain 8  score: 8.5 bits;  conditional E-value: 0.0031
                    TPR_2   3 alynlGlayyklgdyeeAleafek 26 
                              + y+lG +  + ++ +eA+++f++
  PHY93_21100|PHY93_21100 312 VIYYLGALNQQINHSQEAIKYFKR 335
                              569*******************97 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.4   0.0     0.016        12      11      34 .]      45      68 ..      36      68 .. 0.81
   2 ?    0.2   0.0       1.6   1.2e+03      10      27 ..      78      95 ..      74      97 .. 0.79
   3 ?   -1.2   0.0       4.3   3.2e+03      11      28 ..     114     131 ..     107     136 .. 0.76
   4 !   10.1   0.0     0.001      0.77      15      33 ..     186     204 ..     178     205 .. 0.81
   5 !    9.2   0.0     0.002       1.5       5      31 ..     210     236 ..     206     239 .. 0.88
   6 ?    2.1   0.0      0.37   2.8e+02       8      33 ..     249     274 ..     243     275 .. 0.84
   7 !   19.2   0.0   1.3e-06   0.00097       5      32 ..     280     307 ..     276     309 .. 0.90
   8 ?    4.4   0.1     0.073        54       7      26 ..     316     335 ..     311     336 .. 0.85

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.016
                             HHHTT-HHHHHHHHHHHHHHHHH. CS
                    TPR_8 11 ylklgdyeeAkeyyekaleldpdn 34
                              +  gdy+ A + ++  l+l+p++
  PHY93_21100|PHY93_21100 45 ASIRGDYQTATSIFRDLLKLQPND 68
                             5667******************96 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 1.6
                             HHHHTT-HHHHHHHHHHH CS
                    TPR_8 10 iylklgdyeeAkeyyeka 27
                              ++  g+++eA+  +e  
  PHY93_21100|PHY93_21100 78 ELIRNGELKEAETMLEAI 95
                             57889*******999975 PP

  == domain 3  score: -1.2 bits;  conditional E-value: 4.3
                              HHHTT-HHHHHHHHHHHH CS
                    TPR_8  11 ylklgdyeeAkeyyekal 28 
                               +  g+ e+A+  y+  +
  PHY93_21100|PHY93_21100 114 FDARGKPEQAQTLYQDII 131
                              5667999***99998766 PP

  == domain 4  score: 10.1 bits;  conditional E-value: 0.001
                              T-HHHHHHHHHHHHHHHHH CS
                    TPR_8  15 gdyeeAkeyyekaleldpd 33 
                              g   +A++y++k ++++p+
  PHY93_21100|PHY93_21100 186 GHALQAIKYFKKSVSMNPS 204
                              66679*************7 PP

  == domain 5  score: 9.2 bits;  conditional E-value: 0.002
                              HHHHHHHHHTT-HHHHHHHHHHHHHHH CS
                    TPR_8   5 ynlgsiylklgdyeeAkeyyekaleld 31 
                              + lg+ y++++d+ +A ++y+  l+++
  PHY93_21100|PHY93_21100 210 LALGDFYETKEDLRSALKTYKDFLTIA 236
                              789******************999987 PP

  == domain 6  score: 2.1 bits;  conditional E-value: 0.37
                              HHHHHHTT-HHHHHHHHHHHHHHHHH CS
                    TPR_8   8 gsiylklgdyeeAkeyyekaleldpd 33 
                                +++++++  + + y ek +++d++
  PHY93_21100|PHY93_21100 249 VTLLFSMEKNTAVIPYAEKLCSIDKS 274
                              5678999999999***********87 PP

  == domain 7  score: 19.2 bits;  conditional E-value: 1.3e-06
                              HHHHHHHHHTT-HHHHHHHHHHHHHHHH CS
                    TPR_8   5 ynlgsiylklgdyeeAkeyyekaleldp 32 
                              ++lg++y++ g+y eA+e +e++l++ p
  PHY93_21100|PHY93_21100 280 VHLGLLYSDSGRYIEAIELFEEVLSIVP 307
                              689*********************9955 PP

  == domain 8  score: 4.4 bits;  conditional E-value: 0.073
                              HHHHHHHTT-HHHHHHHHHH CS
                    TPR_8   7 lgsiylklgdyeeAkeyyek 26 
                              lg + ++ +  +eA++y+++
  PHY93_21100|PHY93_21100 316 LGALNQQINHSQEAIKYFKR 335
                              677788999*********96 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.0      0.17   1.3e+02      46      74 ..      36      64 ..      23      67 .. 0.76
   2 !    8.1   0.0    0.0042       3.2       8      72 ..      40      96 ..      33     101 .. 0.84
   3 !    7.7   0.0    0.0058       4.3      16      72 ..      82     131 ..      79     136 .. 0.72
   4 ?    5.5   0.0     0.027        20      51      71 ..     110     130 ..     103     149 .. 0.70
   5 ?    2.6   0.0      0.23   1.7e+02      48      74 ..     175     201 ..     151     204 .. 0.72
   6 ?    5.6   0.0     0.026        20      19      74 ..     188     235 ..     173     238 .. 0.66
   7 ?    3.1   0.0      0.16   1.2e+02       6      33 ..     210     236 ..     204     271 .. 0.69
   8 !   27.0   0.0   5.6e-09   4.2e-06       5      70 ..     278     335 ..     274     336 .. 0.91

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.17
                   TPR_12 46 ttlrnLgrlyralgryeeAlelleealai 74
                             t+l+  g   + +g+y+ A +++++ l++
  PHY93_21100|PHY93_21100 36 TALFLKGNDASIRGDYQTATSIFRDLLKL 64
                             56777777778888888888888887776 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.0042
                   TPR_12  8 nlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleeal 72
                               ++    +g+y+ A ++++  l ++   ++++++      rnL++ + + g+++eA+ +le  l
  PHY93_21100|PHY93_21100 40 LKGNDASIRGDYQTATSIFRDLLKLQ---PNDNYLK-----RNLSIELIRNGELKEAETMLEAIL 96
                             56777788999999999999999999...8777744.....8*****************999766 PP

  == domain 3  score: 7.7 bits;  conditional E-value: 0.0058
                   TPR_12  16 lgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleeal 72 
                               g++ eA+++le+       l Gpd+p++ ++   L+ +++a+g++e+A+ l+++ +
  PHY93_21100|PHY93_21100  82 NGELKEAETMLEAI------LNGPDNPDE-SIKLILAGVFDARGKPEQAQTLYQDII 131
                              56666666666666......578888887.455556667789999999999999765 PP

  == domain 4  score: 5.5 bits;  conditional E-value: 0.027
                   TPR_12  51 LgrlyralgryeeAlelleea 71 
                              L+ +++a+g++e+A+ l+++ 
  PHY93_21100|PHY93_21100 110 LAGVFDARGKPEQAQTLYQDI 130
                              455556666666666666654 PP

  == domain 5  score: 2.6 bits;  conditional E-value: 0.23
                   TPR_12  48 lrnLgrlyralgryeeAlelleealai 74 
                               +  g++ + +g+  +A++++++++ +
  PHY93_21100|PHY93_21100 175 AFYRGEIESGRGHALQAIKYFKKSVSM 201
                              555677888888888999999998876 PP

  == domain 6  score: 5.6 bits;  conditional E-value: 0.026
                   TPR_12  19 ydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleealai 74 
                                +A+++++k++ +        +p ++++  +Lg+ y+  ++++ Al+ +++ l i
  PHY93_21100|PHY93_21100 188 ALQAIKYFKKSVSM--------NPSYLQSVLALGDFYETKEDLRSALKTYKDFLTI 235
                              44455555555333........4557889999999999999999999999887666 PP

  == domain 7  score: 3.1 bits;  conditional E-value: 0.16
                   TPR_12   6 lnnlaavlrrlgrydeAlellekaleia 33 
                              l  l++++   +++  Al+ ++  l ia
  PHY93_21100|PHY93_21100 210 L-ALGDFYETKEDLRSALKTYKDFLTIA 236
                              3.45555555555555555555555555 PP

  == domain 8  score: 27.0 bits;  conditional E-value: 5.6e-09
                   TPR_12   5 alnnlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlellee 70 
                              + ++l++++   gry eA+el+e++l i+     pd++    + + Lg l ++ ++ +eA++++++
  PHY93_21100|PHY93_21100 278 LKVHLGLLYSDSGRYIEAIELFEEVLSIV-----PDSEK---VIYYLGALNQQINHSQEAIKYFKR 335
                              5668*************************.....99955...68889*****************98 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6   0.0     0.042        32       3      34 .]      37      68 ..      36      68 .. 0.93
   2 ?    0.1   0.0       1.1     8e+02      10      26 ..     113     129 ..     110     133 .. 0.79
   3 ?   -1.3   0.1         3   2.3e+03       3      19 ..     140     156 ..     139     156 .. 0.86
   4 !    9.2   0.0    0.0015       1.1      19      34 .]     190     205 ..     177     205 .. 0.94
   5 ?    1.9   0.1      0.29   2.2e+02      13      32 ..     211     230 ..     210     232 .. 0.74
   6 !   19.1   0.0   1.1e-06   0.00081       6      33 ..     281     308 ..     279     309 .. 0.94
   7 !    8.1   0.2    0.0033       2.5       5      26 ..     314     335 ..     311     336 .. 0.92

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.042
                             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTH CS
                    TPR_1  3 alynlGnayfklgkydeAleyyekALelnPnn 34
                             al+ +Gn     g+y+ A   ++  L+l+Pn+
  PHY93_21100|PHY93_21100 37 ALFLKGNDASIRGDYQTATSIFRDLLKLQPND 68
                             78999**************9999999999996 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 1.1
                              HHHHTT-HHHHHHHHHH CS
                    TPR_1  10 ayfklgkydeAleyyek 26 
                              ++   gk+++A   y+ 
  PHY93_21100|PHY93_21100 113 VFDARGKPEQAQTLYQD 129
                              56789******999985 PP

  == domain 3  score: -1.3 bits;  conditional E-value: 3
                              HHHHHHHHHHHTT-HHH CS
                    TPR_1   3 alynlGnayfklgkyde 19 
                              a+  l+  +++ +ky++
  PHY93_21100|PHY93_21100 140 ACLYLAKSFLREKKYNK 156
                              677899999*****986 PP

  == domain 4  score: 9.2 bits;  conditional E-value: 0.0015
                              HHHHHHHHHHHHSTTH CS
                    TPR_1  19 eAleyyekALelnPnn 34 
                              +A++y++k ++ nP++
  PHY93_21100|PHY93_21100 190 QAIKYFKKSVSMNPSY 205
                              7*************97 PP

  == domain 5  score: 1.9 bits;  conditional E-value: 0.29
                              HTT-HHHHHHHHHHHHHHST CS
                    TPR_1  13 klgkydeAleyyekALelnP 32 
                               lg++ e  e+ + AL+ + 
  PHY93_21100|PHY93_21100 211 ALGDFYETKEDLRSALKTYK 230
                              57888888888888887655 PP

  == domain 6  score: 19.1 bits;  conditional E-value: 1.1e-06
                              HHHHHHHHTT-HHHHHHHHHHHHHHSTT CS
                    TPR_1   6 nlGnayfklgkydeAleyyekALelnPn 33 
                               lG++y   g+y eA+e +e++L++ P+
  PHY93_21100|PHY93_21100 281 HLGLLYSDSGRYIEAIELFEEVLSIVPD 308
                              59**********************9887 PP

  == domain 7  score: 8.1 bits;  conditional E-value: 0.0033
                              HHHHHHHHHTT-HHHHHHHHHH CS
                    TPR_1   5 ynlGnayfklgkydeAleyyek 26 
                              y lG++ ++ +  +eA++y+++
  PHY93_21100|PHY93_21100 314 YYLGALNQQINHSQEAIKYFKR 335
                              99******************98 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.0      0.45   3.3e+02      12      31 ..      48      65 ..      45      70 .. 0.77
   2 ?    0.8   0.0      0.87   6.5e+02      11      28 ..      81      98 ..      79     106 .. 0.77
   3 ?    2.8   0.0       0.2   1.5e+02       5      23 ..     110     128 ..     108     138 .. 0.89
   4 ?   -2.3   0.0       8.3   6.2e+03       1      15 [.     140     154 ..     140     156 .. 0.79
   5 ?   -0.6   0.0       2.3   1.7e+03      17      25 ..     190     198 ..     190     204 .. 0.80
   6 ?    2.6   0.0      0.22   1.7e+02       3      26 ..     210     233 ..     208     243 .. 0.87
   7 !   18.3   0.0   2.2e-06    0.0016       4      32 ..     281     309 ..     278     313 .. 0.87
   8 ?    5.1   0.1     0.037        27       3      24 ..     314     335 ..     312     341 .. 0.88

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.45
                    TPR_7 12 lGdyeeAielyeqsLaltkd 31
                             +Gdy++A ++++    l  +
  PHY93_21100|PHY93_21100 48 RGDYQTATSIFRD--LLKLQ 65
                             59********999..44444 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.87
                    TPR_7 11 rlGdyeeAielyeqsLal 28
                             r G+ +eA++ +e+ L  
  PHY93_21100|PHY93_21100 81 RNGELKEAETMLEAILNG 98
                             56999********97755 PP

  == domain 3  score: 2.8 bits;  conditional E-value: 0.2
                    TPR_7   5 LarlysrlGdyeeAielye 23 
                              La ++ ++G+ e+A +ly+
  PHY93_21100|PHY93_21100 110 LAGVFDARGKPEQAQTLYQ 128
                              8889999***********8 PP

  == domain 4  score: -2.3 bits;  conditional E-value: 8.3
                    TPR_7   1 aLlnLarlysrlGdy 15 
                              a+l+La  + r+ +y
  PHY93_21100|PHY93_21100 140 ACLYLAKSFLREKKY 154
                              799999999887666 PP

  == domain 5  score: -0.6 bits;  conditional E-value: 2.3
                    TPR_7  17 eAielyeqs 25 
                              +Ai+++++s
  PHY93_21100|PHY93_21100 190 QAIKYFKKS 198
                              7******95 PP

  == domain 6  score: 2.6 bits;  conditional E-value: 0.22
                    TPR_7   3 lnLarlysrlGdyeeAielyeqsL 26 
                              l+L++ y+   d + A++ y+  L
  PHY93_21100|PHY93_21100 210 LALGDFYETKEDLRSALKTYKDFL 233
                              79******************9755 PP

  == domain 7  score: 18.3 bits;  conditional E-value: 2.2e-06
                    TPR_7   4 nLarlysrlGdyeeAielyeqsLaltkdp 32 
                               L+ lys+ G+y eAiel+e++L +  d 
  PHY93_21100|PHY93_21100 281 HLGLLYSDSGRYIEAIELFEEVLSIVPDS 309
                              69*******************99887665 PP

  == domain 8  score: 5.1 bits;  conditional E-value: 0.037
                    TPR_7   3 lnLarlysrlGdyeeAielyeq 24 
                              ++L+ l ++ ++ +eAi+++++
  PHY93_21100|PHY93_21100 314 YYLGALNQQINHSQEAIKYFKR 335
                              67888889999*********98 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.2   0.0     0.025        19       9      32 ..      45      67 ..      36      68 .. 0.76
   2 ?    6.7   0.0     0.017        13      10      29 ..     114     133 ..     107     136 .. 0.81
   3 ?   -1.5   0.1       6.8   5.1e+03       4      18 ..     142     156 ..     141     168 .. 0.74
   4 ?    0.2   0.0         2   1.5e+03      10      25 ..     176     197 ..     173     204 .. 0.67
   5 ?    2.4   0.0       0.4     3e+02       6      30 ..     212     236 ..     207     239 .. 0.73
   6 !   11.6   0.0   0.00047      0.35       5      33 .]     281     309 ..     280     309 .. 0.93
   7 ?    5.6   0.0     0.037        28       3      26 ..     313     336 ..     311     339 .. 0.88

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.025
                             HHHHHHHHHHHHHHHHHHHHH-TT CS
                    TPR_6  9 syrklgdtdkAlealerlikeYPd 32
                             + ++ gd+++A  ++++l+k  P+
  PHY93_21100|PHY93_21100 45 ASIR-GDYQTATSIFRDLLKLQPN 67
                             4444.5****************98 PP

  == domain 2  score: 6.7 bits;  conditional E-value: 0.017
                              HHHHHHHHHHHHHHHHHHHH CS
                    TPR_6  10 yrklgdtdkAlealerlike 29 
                              + + g++++A ++++++i+ 
  PHY93_21100|PHY93_21100 114 FDARGKPEQAQTLYQDIIQT 133
                              56668************986 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 6.8
                              HHHHHHHHHHHHHHH CS
                    TPR_6   4 yklalsyrklgdtdk 18 
                              ++la+s+++ +++ k
  PHY93_21100|PHY93_21100 142 LYLAKSFLREKKYNK 156
                              689999999777765 PP

  == domain 4  score: 0.2 bits;  conditional E-value: 2
                              HHHH......HHHHHHHHHHHH CS
                    TPR_6  10 yrkl......gdtdkAlealer 25 
                              ++++      g + +A++++++
  PHY93_21100|PHY93_21100 176 FYRGeiesgrGHALQAIKYFKK 197
                              4444444444788899999987 PP

  == domain 5  score: 2.4 bits;  conditional E-value: 0.4
                              HHHHHHHHHHHHHHHHHHHHHHHH- CS
                    TPR_6   6 lalsyrklgdtdkAlealerlikeY 30 
                              l+  y+   d + Al++++++++  
  PHY93_21100|PHY93_21100 212 LGDFYETKEDLRSALKTYKDFLTIA 236
                              5666665349999*****9999765 PP

  == domain 6  score: 11.6 bits;  conditional E-value: 0.00047
                              HHHHHHHHHHHHHHHHHHHHHHHHH-TT- CS
                    TPR_6   5 klalsyrklgdtdkAlealerlikeYPdS 33 
                              +l+l+y   g++ +A+e++e++++  PdS
  PHY93_21100|PHY93_21100 281 HLGLLYSDSGRYIEAIELFEEVLSIVPDS 309
                              5899999977*****************98 PP

  == domain 7  score: 5.6 bits;  conditional E-value: 0.037
                              HHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   3 lyklalsyrklgdtdkAlealerl 26 
                               y+l+ + ++ + +++A+++++r+
  PHY93_21100|PHY93_21100 313 IYYLGALNQQINHSQEAIKYFKRI 336
                              699999999988*********997 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   0.0     0.023        18      23      81 ..      35      94 ..      14      95 .. 0.78
   2 !   17.4   0.1   5.3e-06    0.0039       2      82 .]      82     164 ..      81     164 .. 0.85
   3 ?    0.7   0.1      0.86   6.5e+02       8      56 ..     191     240 ..     186     246 .. 0.76
   4 !   20.0   0.0   7.9e-07   0.00059       9      81 ..     262     335 ..     255     336 .. 0.88

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.023
                             HHHHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-HHHHHHHHHHHHHT...T-HHHHHHHH-S CS
                   ANAPC3 23 pedayllAlclylngqykrAyellrka.klnskslgcrylfAqcllkL...kkyeeAiaaLek 81
                             + +++l++     +g+y++A  ++r++ kl++   +  yl+   +++L   ++++eA++ Le+
  PHY93_21100|PHY93_21100 35 ETALFLKGNDASIRGDYQTATSIFRDLlKLQP---NDNYLKRNLSIELirnGELKEAETMLEA 94
                             556777777777799************55544...5569999999999999999999999986 PP

  == domain 2  score: 17.4 bits;  conditional E-value: 5.3e-06
                              TT-HHHHHHHHHHHH.HHH--HHH..HHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-HHHHHHHHHHHHHTT-HHHHHHHH-SS CS
                   ANAPC3   2 qnnyknAiflaerllaaetesped..ayllAlclylngqykrAyellrka.klnskslgcrylfAqcllkLkkyeeAiaaLekl 82 
                              ++ +k+A+ ++e +l   +++p+    + lA ++  +g+ ++A++l+++  ++  + + +++ +A++ l  kky++ +a+++k+
  PHY93_21100|PHY93_21100  82 NGELKEAETMLEAIL-NGPDNPDEsiKLILAGVFDARGKPEQAQTLYQDIiQTSANIETACLYLAKSFLREKKYNKNYAVFSKC 164
                              56789**********.66666555234447********************99999999999999***********999999876 PP

  == domain 3  score: 0.7 bits;  conditional E-value: 0.86
                              HHHHHHHHH.HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-H CS
                   ANAPC3   8 AiflaerllaaetespedayllAlclylngqykrAyellrka.klnsksl 56 
                              Ai ++ + +++++  ++++++l+  +   ++  +A++ ++++  ++++s 
  PHY93_21100|PHY93_21100 191 AIKYFKKSVSMNPSYLQSVLALGDFYETKEDLRSALKTYKDFlTIAGNST 240
                              77777777777888888888888888888889999988888866666665 PP

  == domain 4  score: 20.0 bits;  conditional E-value: 7.9e-07
                              HHHHHHHH.HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-HHHHHHHHHHHHHTT-HHHHHHHH-S CS
                   ANAPC3   9 iflaerllaaetespedayllAlclylngqykrAyellrka.klnskslgcrylfAqcllkLkkyeeAiaaLek 81 
                              i +ae+l++ ++ +++    l+l +  +g+y +A+el+++   + + s+++ y ++    ++++ +eAi+ +++
  PHY93_21100|PHY93_21100 262 IPYAEKLCSIDKSDLNLKVHLGLLYSDSGRYIEAIELFEEVlSIVPDSEKVIYYLGALNQQINHSQEAIKYFKR 335
                              679*****5555555555557************************************************99875 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.1   0.0    0.0028       2.1       4      68 .]      42     102 ..      39     104 .. 0.88
   2 ?    3.5   0.0      0.15   1.1e+02       4      24 ..     111     131 ..     110     154 .. 0.87
   3 !    8.9   0.0    0.0031       2.3      10      61 ..     185     233 ..     175     239 .. 0.88
   4 !   10.6   0.0   0.00095      0.71       3      60 ..     282     336 ..     280     343 .. 0.82

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.0028
                   TPR_16   4 araalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraalraapdap 68 
                              +++a  +gdy+ A   ++ +lk++   P +     +l   + r+g+l+eA+  ++a l ++pd+p
  PHY93_21100|PHY93_21100  42 GNDASIRGDYQTATSIFRDLLKLQ---PNDNYLKRNLSIELIRNGELKEAETMLEAIL-NGPDNP 102
                              5566668*****************...***********99**********99999988.888876 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.15
                   TPR_16   4 araalragdyddAaaaleaal 24 
                              a  + ++g++++A+ +++  +
  PHY93_21100|PHY93_21100 111 AGVFDARGKPEQAQTLYQDII 131
                              6677899**********9865 PP

  == domain 3  score: 8.9 bits;  conditional E-value: 0.0031
                   TPR_16  10 agdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraal 61 
                              +g+  +A+++++  + ++   P   ++ l+lgd +  + +l  A+  y+  l
  PHY93_21100|PHY93_21100 185 RGHALQAIKYFKKSVSMN---PSYLQSVLALGDFYETKEDLRSALKTYKDFL 233
                              688889************...***********************98887665 PP

  == domain 4  score: 10.6 bits;  conditional E-value: 0.00095
                   TPR_16   3 laraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraa 60 
                              l++++ ++g+y +A++++e++l      Pd     ++lg +  + +  +eA+ ++++ 
  PHY93_21100|PHY93_21100 282 LGLLYSDSGRYIEAIELFEEVLSIV---PDSEKVIYYLGALNQQINHSQEAIKYFKRI 336
                              6788999999999999999999999...888789999998888888888888888886 PP

>> TPR_10  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.0       1.8   1.3e+03      11      30 ..      44      63 ..      42      65 .. 0.79
   2 !    7.1   0.1    0.0069       5.2       7      29 ..      74      96 ..      72      98 .. 0.91
   3 ?    4.1   0.0     0.059        44       8      31 ..     110     133 ..     110     136 .. 0.87
   4 ?   -1.5   0.0       3.5   2.6e+03      15      33 ..     212     230 ..     210     231 .. 0.80
   5 !   19.2   0.0   1.1e-06   0.00082       7      31 ..     281     305 ..     278     306 .. 0.95
   6 ?   -2.8   0.0       9.2   6.9e+03       8      26 ..     316     334 ..     315     335 .. 0.71

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 1.8
                   TPR_10 11 alrqrgrydeAealleeala 30
                               + rg+y+ A  ++++ l 
  PHY93_21100|PHY93_21100 44 DASIRGDYQTATSIFRDLLK 63
                             55679******999998776 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0069
                   TPR_10  7 NLanalrqrgrydeAealleeal 29
                             NL++ l + g+++eAe +le  l
  PHY93_21100|PHY93_21100 74 NLSIELIRNGELKEAETMLEAIL 96
                             999***************99877 PP

  == domain 3  score: 4.1 bits;  conditional E-value: 0.059
                   TPR_10   8 LanalrqrgrydeAealleealai 31 
                              La +  +rg+ ++A  l+++ +++
  PHY93_21100|PHY93_21100 110 LAGVFDARGKPEQAQTLYQDIIQT 133
                              6667779*************9997 PP

  == domain 4  score: -1.5 bits;  conditional E-value: 3.5
                   TPR_10  15 rgrydeAealleealairr 33 
                              +g++ e  ++l+ al +++
  PHY93_21100|PHY93_21100 212 LGDFYETKEDLRSALKTYK 230
                              6777777889999*99997 PP

  == domain 5  score: 19.2 bits;  conditional E-value: 1.1e-06
                   TPR_10   7 NLanalrqrgrydeAealleealai 31 
                              +L+ ++++ gry eA +l+ee+l+i
  PHY93_21100|PHY93_21100 281 HLGLLYSDSGRYIEAIELFEEVLSI 305
                              69*********************87 PP

  == domain 6  score: -2.8 bits;  conditional E-value: 9.2
                   TPR_10   8 LanalrqrgrydeAealle 26 
                              L+++ +q +  +eA ++++
  PHY93_21100|PHY93_21100 316 LGALNQQINHSQEAIKYFK 334
                              6666677777788888876 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       6.4   4.8e+03       8      26 ..      49      67 ..      47      68 .. 0.54
   2 ?    0.5   0.0      0.64   4.8e+02      12      39 ..     190     217 ..     186     219 .. 0.88
   3 !   19.0   0.1   1.1e-06   0.00081       1      40 [.     283     322 ..     283     324 .. 0.94

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 6.4
                   TPR_11  8 GkyeeAieaYkkAlkldPd 26
                             G+y  A   ++  lkl P+
  PHY93_21100|PHY93_21100 49 GDYQTATSIFRDLLKLQPN 67
                             5665555444555666665 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.64
                   TPR_11  12 eAieaYkkAlkldPdnaeayynLGlayy 39 
                              +Ai+ +kk +  +P++    ++LG+ y 
  PHY93_21100|PHY93_21100 190 QAIKYFKKSVSMNPSYLQSVLALGDFYE 217
                              699999*********9999999998775 PP

  == domain 3  score: 19.0 bits;  conditional E-value: 1.1e-06
                   TPR_11   1 GdayyeqGkyeeAieaYkkAlkldPdnaeayynLGlayyk 40 
                              G +y + G+y eAie +++ l + Pd+  + y LG++ ++
  PHY93_21100|PHY93_21100 283 GLLYSDSGRYIEAIELFEEVLSIVPDSEKVIYYLGALNQQ 322
                              778999*****************************99876 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       9.6   7.2e+03      24      32 ..      46      54 ..      36      54 .. 0.69
   2 ?   -0.2   0.0       2.3   1.7e+03       3      33 ..      59      89 ..      57      90 .. 0.70
   3 ?    6.1   0.0     0.022        16       1      33 [.     194     226 ..     194     227 .. 0.93
   4 ?    5.0   0.0     0.049        36       3      34 .]     266     297 ..     264     297 .. 0.86
   5 !    7.8   0.0    0.0063       4.7       1      34 []     298     331 ..     298     331 .. 0.95

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 9.6
                   TPR_17 24 lknGdlmtA 32
                             + +Gd++tA
  PHY93_21100|PHY93_21100 46 SIRGDYQTA 54
                             378999998 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 2.3
                   TPR_17  3 lkaleldPnnadaynnLAelllknGdlmtAr 33
                             +  l+l Pn+ ++  nL   l +nG+l++A+
  PHY93_21100|PHY93_21100 59 RDLLKLQPNDNYLKRNLSIELIRNGELKEAE 89
                             6677888887666667777777888888886 PP

  == domain 3  score: 6.1 bits;  conditional E-value: 0.022
                   TPR_17   1 lylkaleldPnnadaynnLAelllknGdlmtAr 33 
                              +++k++  +P++  +   L+ +++ + dl+ A+
  PHY93_21100|PHY93_21100 194 YFKKSVSMNPSYLQSVLALGDFYETKEDLRSAL 226
                              589************************999886 PP

  == domain 4  score: 5.0 bits;  conditional E-value: 0.049
                   TPR_17   3 lkaleldPnnadaynnLAelllknGdlmtArq 34 
                              +k   +d+++ ++   L+ l++  G++ +A++
  PHY93_21100|PHY93_21100 266 EKLCSIDKSDLNLKVHLGLLYSDSGRYIEAIE 297
                              7777888888888899*************986 PP

  == domain 5  score: 7.8 bits;  conditional E-value: 0.0063
                   TPR_17   1 lylkaleldPnnadaynnLAelllknGdlmtArq 34 
                              l++++l + P++ ++ ++L+ l  +++ +++A++
  PHY93_21100|PHY93_21100 298 LFEEVLSIVPDSEKVIYYLGALNQQINHSQEAIK 331
                              799****************************985 PP

>> TPR_20  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.5   0.0    0.0016       1.2      11      75 ..      58     121 ..      51     133 .. 0.83
   2 ?    1.6   0.0      0.47   3.5e+02       7      85 ..     191     268 ..     186     271 .. 0.80
   3 !    8.7   0.0     0.003       2.2      12      51 ..     266     305 ..     255     354 .. 0.86

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.0016
                   TPR_20  11 leaalaanpddldarldlAlallaagryeeAleqLleilkrdrkweddaarkqllkifealgsqd 75 
                              +++ l+ +p+d+ ++ +l+  l+ +g+ +eA + L +il    +  d++++  l  +f+a g+ +
  PHY93_21100|PHY93_21100  58 FRDLLKLQPNDNYLKRNLSIELIRNGELKEAETMLEAILN-GPDNPDESIKLILAGVFDARGKPE 121
                              56778889***********************666655555.6666699**********9999865 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.47
                   TPR_20   7 elaeleaalaanpddldarldlAlallaagryeeAleqLleilkrdrkweddaarkqllkifealgsqdplvakyRrkL 85 
                               ++ +++ +  np+ l+  l+l + +  +++ + Al+   ++l    + ++ a+  +++ ++ ++++ + +v+ y  kL
  PHY93_21100|PHY93_21100 191 AIKYFKKSVSMNPSYLQSVLALGDFYETKEDLRSALKTYKDFLTIAGNSTNLAVLSRIVTLLFSMEK-NTAVIPYAEKL 268
                              566778889999999999999*999999999999999999999988888888888888888888877.45666666665 PP

  == domain 3  score: 8.7 bits;  conditional E-value: 0.003
                   TPR_20  12 eaalaanpddldarldlAlallaagryeeAleqLleilkr 51 
                              e+ +  +++dl++++ l l++   gry eA+e++ e+l+ 
  PHY93_21100|PHY93_21100 266 EKLCSIDKSDLNLKVHLGLLYSDSGRYIEAIELFEEVLSI 305
                              555677899***********************99888865 PP

>> TPR_15  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.1   0.0    0.0074       5.6     149     238 ..      38     128 ..      25     145 .. 0.76
   2 !    7.6   0.0    0.0025       1.9     141     210 ..     167     233 ..     144     281 .. 0.73
   3 ?    3.1   0.0     0.062        46     153     187 ..     283     316 ..     240     344 .. 0.69

  Alignments for each domain:
  == domain 1  score: 6.1 bits;  conditional E-value: 0.0074
                   TPR_15 149 llaraelyrqegqtdaAlrdyreAlalapdsselraallWlliDlgrraeLrellkawkara.esdasLwgplaaAlllLgrpkkA 233
                              l++ ++ ++ +g+ + A  ++r  l+l+p+++ l+ +l   li  g+ +e+  +l+a  +   + d+s+++ la    + g+p++A
  PHY93_21100|PHY93_21100  38 LFLKGNDASIRGDYQTATSIFRDLLKLQPNDNYLKRNLSIELIRNGELKEAETMLEAILNGPdNPDESIKLILAGVFDARGKPEQA 123
                              555566667789999**********************9888887777777777777665555677888887777777776777766 PP

                   TPR_15 234 Leylr 238
                                +++
  PHY93_21100|PHY93_21100 124 QTLYQ 128
                              66665 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0025
                   TPR_15 141 aaeqsaafllaraelyrqegqtdaAlrdyreAlalapdsselraallWlliDlgrrae.Lrellkawkara 210
                              ++  ++a+ ++r+e+++ +g+  +A++ +++ ++++p    l++  + +l D  +++e Lr++lk++k+  
  PHY93_21100|PHY93_21100 167 KYIADPAYAFYRGEIESGRGHALQAIKYFKKSVSMNPS--YLQS--VLALGDFYETKEdLRSALKTYKDFL 233
                              466799999***************************99..4544..4478887777777999999999754 PP

  == domain 3  score: 3.1 bits;  conditional E-value: 0.062
                   TPR_15 153 aelyrqegqtdaAlrdyreAlalapdsselraall 187
                              + ly++ g+  +A+++++e+l+  pds++++  +l
  PHY93_21100|PHY93_21100 283 GLLYSDSGRYIEAIELFEEVLSIVPDSEKVIY-YL 316
                              55677778888888888888888888777653.33 PP

>> PPR  PPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.0       3.2   2.4e+03      13      28 ..      48      63 ..      46      65 .. 0.85
   2 ?    2.9   0.0       0.2   1.5e+02      11      24 ..      80      93 ..      79      97 .. 0.86
   3 ?   -1.3   0.0       4.7   3.5e+03      14      27 ..     118     131 ..     117     132 .. 0.86
   4 !    9.4   0.0    0.0018       1.4      10      27 ..     286     303 ..     285     305 .. 0.89
   5 ?    0.8   0.0         1   7.5e+02      16      28 ..     326     338 ..     322     340 .. 0.82

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 3.2
                      PPR 13 nGkleeAlelfkeMke 28
                              G+++ A ++f+++++
  PHY93_21100|PHY93_21100 48 RGDYQTATSIFRDLLK 63
                             59999******99876 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.2
                      PPR 11 cknGkleeAlelfk 24
                              +nG+l+eA+ +++
  PHY93_21100|PHY93_21100 80 IRNGELKEAETMLE 93
                             59********9997 PP

  == domain 3  score: -1.3 bits;  conditional E-value: 4.7
                      PPR  14 GkleeAlelfkeMk 27 
                              Gk+e A  l+++++
  PHY93_21100|PHY93_21100 118 GKPEQAQTLYQDII 131
                              99*******99875 PP

  == domain 4  score: 9.4 bits;  conditional E-value: 0.0018
                      PPR  10 ycknGkleeAlelfkeMk 27 
                              y+ +G++ eA+elf+e +
  PHY93_21100|PHY93_21100 286 YSDSGRYIEAIELFEEVL 303
                              8999***********965 PP

  == domain 5  score: 0.8 bits;  conditional E-value: 1
                      PPR  16 leeAlelfkeMke 28 
                               +eA+++fk++ e
  PHY93_21100|PHY93_21100 326 SQEAIKYFKRIPE 338
                              68*******9876 PP

>> TPR_MalT  MalT-like TPR region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.3   0.0      0.12        90      37     105 ..      32      94 ..      21     108 .. 0.65
   2 ?    2.0   0.0      0.14   1.1e+02     163     187 ..     106     130 ..      79     145 .. 0.55
   3 !   10.8   0.0    0.0003      0.22      51     112 ..     176     238 ..     172     257 .. 0.62
   4 ?   -1.7   0.0       1.9   1.4e+03      87     114 ..     283     310 ..     277     336 .. 0.72

  Alignments for each domain:
  == domain 1  score: 2.3 bits;  conditional E-value: 0.12
                 TPR_MalT  37 lariaatavlGeasllqGdleaAlqalqeaeklarqadslhvallallqqaeilvaqGrLheAletyeq 105
                                + +a+++ G  + ++Gd + A++ ++ + kl  + ++l++       ++  l+  G+L+eA+ + e 
  PHY93_21100|PHY93_21100  32 SIKETALFLKGNDASIRGDYQTATSIFRDLLKLQPNDNYLKRN------LSIELIRNGELKEAETMLEA 94 
                              5566778888888888888888888888888887666666532......22224445555555555444 PP

  == domain 2  score: 2.0 bits;  conditional E-value: 0.14
                 TPR_MalT 163 ayvllarialaqGdleeAetlleka 187
                              + ++la +  a+G+ e+A+tl + +
  PHY93_21100|PHY93_21100 106 IKLILAGVFDARGKPEQAQTLYQDI 130
                              2355666666666666666665544 PP

  == domain 3  score: 10.8 bits;  conditional E-value: 0.0003
                 TPR_MalT  51 llqGdleaAlqalqeaeklarqadslhva.llallqqaeilvaqGrLheAletyeqalqlate 112
                              +++G+ e+++ +  +a+k  ++  s++ + l ++l +++ + ++ +L+ Al+ty++ l+ a  
  PHY93_21100|PHY93_21100 176 FYRGEIESGRGHALQAIKYFKKSVSMNPSyLQSVLALGDFYETKEDLRSALKTYKDFLTIAGN 238
                              456666666666666666666666665532555566666666666666666666666666544 PP

  == domain 4  score: -1.7 bits;  conditional E-value: 1.9
                 TPR_MalT  87 aeilvaqGrLheAletyeqalqlateqg 114
                              + ++   Gr  eA+e++e+ l  +++++
  PHY93_21100|PHY93_21100 283 GLLYSDSGRYIEAIELFEEVLSIVPDSE 310
                              5566666777777777777777666654 PP

>> TPR_9  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.4   0.0     0.054        40       9      56 ..      49      96 ..      45     107 .. 0.86
   2 ?    2.4   0.0      0.23   1.7e+02       9      56 ..     186     233 ..     171     247 .. 0.60
   3 ?    6.7   0.0     0.011       8.2       9      63 ..     256     310 ..     250     313 .. 0.87
   4 ?    5.5   0.0     0.025        19       5      54 ..     286     335 ..     283     339 .. 0.83

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.054
                    TPR_9  9 edweralavverllllaPddpeerrdRGlllaqlGclsaAladLeayl 56
                              d++ a  +   ll l+P+d ++ r   + l + G l++A   Lea l
  PHY93_21100|PHY93_21100 49 GDYQTATSIFRDLLKLQPNDNYLKRNLSIELIRNGELKEAETMLEAIL 96
                             6788888889999************************99999999865 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.23
                    TPR_9   9 edweralavverllllaPddpeerrdRGlllaqlGclsaAladLeayl 56 
                               ++ +a+++    + ++P   + ++  G  ++  ++l+ Al+    +l
  PHY93_21100|PHY93_21100 186 GHALQAIKYFKKSVSMNPSYLQSVLALGDFYETKEDLRSALKTYKDFL 233
                              344455555555555556666666666666666666666666555555 PP

  == domain 3  score: 6.7 bits;  conditional E-value: 0.011
                    TPR_9   9 edweralavverllllaPddpeerrdRGlllaqlGclsaAladLeaylalapdap 63 
                              e++ + + ++e l  ++  d  +    Gll+  +G++ +A++ +e  l++ pd +
  PHY93_21100|PHY93_21100 256 EKNTAVIPYAEKLCSIDKSDLNLKVHLGLLYSDSGRYIEAIELFEEVLSIVPDSE 310
                              5666777789999999999999999*********************999999876 PP

  == domain 4  score: 5.5 bits;  conditional E-value: 0.025
                    TPR_9   5 aireedweralavverllllaPddpeerrdRGlllaqlGclsaAladLea 54 
                              +  + ++ +a++  e +l + Pd+   ++  G l++q ++ ++A++ + +
  PHY93_21100|PHY93_21100 286 YSDSGRYIEAIELFEEVLSIVPDSEKVIYYLGALNQQINHSQEAIKYFKR 335
                              55566777788888999999999999999999999999999999998865 PP

>> YfiO  Outer membrane lipoprotein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.9   0.0    0.0061       4.6       4      49 ..      34      80 ..      31     113 .. 0.83
   2 !    8.2   0.1    0.0025       1.8       9      79 ..     176     243 ..     169     310 .. 0.74
   3 ?    1.1   0.0      0.38   2.8e+02      58      78 ..     292     312 ..     273     354 .. 0.50

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.0061
                             -HHHHHHHHHHHHHHT-HHHHHHHHHHHHHHSTTSTTHHHH.HHHHH CS
                     YfiO  4 taselYekgqealqkgdyaeAikklealdsryPfspyaeqa.qldli 49
                             ++++l+ kg +a  +gdy++A + + +l +  P+ +y ++   ++li
  PHY93_21100|PHY93_21100 34 KETALFLKGNDASIRGDYQTATSIFRDLLKLQPNDNYLKRNlSIELI 80
                             67899*******************************99863256665 PP

  == domain 2  score: 8.2 bits;  conditional E-value: 0.0025
                              HHHHHHHHHHT-HHHHHHHHHHHHHHSTTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-SSSTTHH CS
                     YfiO   9 YekgqealqkgdyaeAikklealdsryPfspyaeqaqldliyAyykdadyaealasaerFlrlyPthknvd 79 
                              +  g+ +  +g+  +Aik++++  s+ P      q+ l+l + y +++d+ +al+++++Fl    ++ n  
  PHY93_21100|PHY93_21100 176 FYRGEIESGRGHALQAIKYFKKSVSMNP---SYLQSVLALGDFYETKEDLRSALKTYKDFLTIAGNSTNLA 243
                              5567777788999999999999998865...356778************************9887777765 PP

  == domain 3  score: 1.1 bits;  conditional E-value: 0.38
                              HHHHHHHHHHHHHH-SSSTTH CS
                     YfiO  58 yaealasaerFlrlyPthknv 78 
                              y+ea++  e+ l   P +++v
  PHY93_21100|PHY93_21100 292 YIEAIELFEEVLSIVPDSEKV 312
                              333333333333333333322 PP

>> RPN7  26S proteasome subunit RPN7
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0       2.6     2e+03      77      77 ..     110     110 ..      69     148 .. 0.61
   2 ?   -2.4   0.0       4.4   3.3e+03      48      68 ..     116     136 ..     104     163 .. 0.69
   3 !   16.5   0.1     7e-06    0.0052      34     145 ..     204     308 ..     188     319 .. 0.84

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 2.6
                              H CS
                     RPN7  77 l 77 
                              l
  PHY93_21100|PHY93_21100 110 L 110
                              3 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 4.4
                              HCT-HHHHHHHHHTCCCC--S CS
                     RPN7  48 kigdleeAlkaysrireycts 68 
                                g+ e+A+ +y+ i++ + +
  PHY93_21100|PHY93_21100 116 ARGKPEQAQTLYQDIIQTSAN 136
                              567778888888887665554 PP

  == domain 3  score: 16.5 bits;  conditional E-value: 7e-06
                              HHHHHHHHHHHHHHHCT-HHHHHHHHHTCCCC--SHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHCSSS---.HHHHHHHHHHH CS
                     RPN7  34 eirrakldlaehYlkigdleeAlkaysrireyctslkhkidmllnlirvaiffndwdlvskylekakellekggdwerknrlkvye 119
                              +  +  l+l+++Y +  dl++Alk+y+  +    + +  + +l +++ + + ++    v  y ek+ ++ ++       n lkv  
  PHY93_21100|PHY93_21100 204 SYLQSVLALGDFYETKEDLRSALKTYKDFLTIAGN-STNLAVLSRIVTLLFSMEKNTAVIPYAEKLCSIDKS-----DLN-LKVHL 282
                              6678899*********************8765555.55677889999999****************999888.....455.9**** PP

                              HHHHHHTT-HHHHHHHHCTS-GGGT. CS
                     RPN7 120 GlallairkfkeAaellldilstfts 145
                              Gl++   +++ eA el+ ++ls + +
  PHY93_21100|PHY93_21100 283 GLLYSDSGRYIEAIELFEEVLSIVPD 308
                              *****************999987765 PP

>> TPR_4  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   0.0     0.035        26       6      26 .]      74      94 ..      71      94 .. 0.84
   2 ?    4.5   0.0     0.091        68       7      24 ..     110     127 ..     107     129 .. 0.81
   3 ?    3.1   0.0      0.26     2e+02       6      26 .]     281     301 ..     278     301 .. 0.89

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.035
                    TPR_4  6 aLArallalGdldeAraller 26
                             +L   l + G+l eA+++le+
  PHY93_21100|PHY93_21100 74 NLSIELIRNGELKEAETMLEA 94
                             566668999**********95 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.091
                    TPR_4   7 LArallalGdldeArall 24 
                              LA +  a+G +++A++l 
  PHY93_21100|PHY93_21100 110 LAGVFDARGKPEQAQTLY 127
                              6667779********986 PP

  == domain 3  score: 3.1 bits;  conditional E-value: 0.26
                    TPR_4   6 aLArallalGdldeAraller 26 
                               L+ ++ + G++ eA +l+e+
  PHY93_21100|PHY93_21100 281 HLGLLYSDSGRYIEAIELFEE 301
                              6999***********999986 PP

>> DUF4810  Domain of unknown function (DUF4810)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0       7.1   5.3e+03      51      70 ..     178     197 ..     149     203 .. 0.71
   2 ?   10.4   0.0     0.001      0.76      48      82 ..     279     313 ..     277     316 .. 0.88
   3 ?    0.8   0.0      0.99   7.4e+02      51      79 ..     316     340 ..     314     345 .. 0.79

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 7.1
                  DUF4810  51 lGllylkegkkeeaieafek 70 
                               G + + +g+  +ai++f+k
  PHY93_21100|PHY93_21100 178 RGEIESGRGHALQAIKYFKK 197
                              46667778888888888887 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 0.001
                  DUF4810  48 yAelGllylkegkkeeaieafekEkelfPESatfm 82 
                                +lGlly+++g+  eaie fe+  +  P S++ +
  PHY93_21100|PHY93_21100 279 KVHLGLLYSDSGRYIEAIELFEEVLSIVPDSEKVI 313
                              57********************9999999998866 PP

  == domain 3  score: 0.8 bits;  conditional E-value: 0.99
                  DUF4810  51 lGllylkegkkeeaieafekEkelfPESa 79 
                              lG l  + ++++eai++f++     PES+
  PHY93_21100|PHY93_21100 316 LGALNQQINHSQEAIKYFKR----IPESS 340
                              789999999999***99985....45555 PP

>> Fis1_TPR_C  Fis1 C-terminal tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.5   0.0     0.024        18      15      34 ..      49      68 ..      48      72 .. 0.93
   2 ?    0.8   0.0       0.7   5.3e+02       7      29 ..      75      97 ..      74     102 .. 0.85
   3 ?    0.7   0.0      0.76   5.7e+02      15      34 ..     290     309 ..     286     326 .. 0.83
   4 ?   -0.3   0.0       1.6   1.2e+03      17      41 ..     343     365 ..     342     370 .. 0.79

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.024
                             T-HHHHHHHHHHHHHHTTS- CS
               Fis1_TPR_C 15 geYseArryvdalLeiEPen 34
                             g+Y++A    + lL+++P+ 
  PHY93_21100|PHY93_21100 49 GDYQTATSIFRDLLKLQPND 68
                             89****************96 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.7
                             HHHHHHHHT-HHHHHHHHHHHHH CS
               Fis1_TPR_C  7 lAlGhyklgeYseArryvdalLe 29
                             l++  ++ ge +eA   ++a+L+
  PHY93_21100|PHY93_21100 75 LSIELIRNGELKEAETMLEAILN 97
                             5666789*************996 PP

  == domain 3  score: 0.7 bits;  conditional E-value: 0.76
                              T-HHHHHHHHHHHHHHTTS- CS
               Fis1_TPR_C  15 geYseArryvdalLeiEPen 34 
                              g+Y eA ++ + +L+i P+ 
  PHY93_21100|PHY93_21100 290 GRYIEAIELFEEVLSIVPDS 309
                              78999999999999998875 PP

  == domain 4  score: -0.3 bits;  conditional E-value: 1.6
                              HHHHHHHHHHHHHHTTS-HHHHHHH CS
               Fis1_TPR_C  17 YseArryvdalLeiEPenrQaqsLk 41 
                              Y +A++ ++ +L ++   +Q +sL 
  PHY93_21100|PHY93_21100 343 YGNAKKKIENILGVQ--TKQWASLL 365
                              889********9998..66666665 PP

>> DUF2225  Uncharacterized protein conserved in bacteria (DUF2225)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.2       1.1   8.4e+02     158     158 ..     187     187 ..     121     248 .. 0.54
   2 ?   12.5   0.3   0.00012      0.09     118     199 ..     243     344 ..     173     359 .. 0.66

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 1.1
                  DUF2225 158 p 158
                              +
  PHY93_21100|PHY93_21100 187 H 187
                              1 PP

  == domain 2  score: 12.5 bits;  conditional E-value: 0.00012
                  DUF2225 118 AklalrlAWlyrdked...................eekeklflkkAlelykeayekesfpvegi.deatvlYLiaeLerrlgnkee 183
                              A+l+  +  l++++++                    ++++ +l      y ea+e  ++  +++ d  +v+Y ++ L++++ + +e
  PHY93_21100|PHY93_21100 243 AVLSRIVTLLFSMEKNtavipyaeklcsidksdlnLKVHLGLLYSDSGRYIEAIELFEEVLSIVpDSEKVIYYLGALNQQINHSQE 328
                              555555555555555555555555555555555553334444444445566666666655555425678***************** PP

                  DUF2225 184 alrwlskvigskkask 199
                              a+++++++ +s+++  
  PHY93_21100|PHY93_21100 329 AIKYFKRIPESSAFYG 344
                              ********99887655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (373 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       636  (0.0354733); expected 358.6 (0.02)
Passed bias filter:                      448  (0.0249875); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                        24  (0.00133861); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              24  [number of targets reported over threshold]
# CPU time: 0.64u 0.22s 00:00:00.86 Elapsed: 00:00:00.46
# Mc/sec: 2453.19
//
Query:       PHY93_21105|PHY93_21105  [L=231]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (231 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       626  (0.0349155); expected 358.6 (0.02)
Passed bias filter:                      459  (0.025601); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.19s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1749.96
//
Query:       PHY93_21110|PHY93_21110  [L=233]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    7.3e-52  176.7   0.0    8.8e-52  176.5   0.0    1.0  1  Oxidored_FMN  NADH:flavin oxidoreductase / NADH oxidase famil
  ------ inclusion threshold ------
      0.014   14.8   0.0      0.025   14.0   0.0    1.4  1  AP_endonuc_2  Xylose isomerase-like TIM barrel


Domain annotation for each model (and alignments):
>> Oxidored_FMN  NADH:flavin oxidoreductase / NADH oxidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  176.5   0.0   9.8e-56   8.8e-52       2     193 ..       4     195 ..       3     197 .. 0.90

  Alignments for each domain:
  == domain 1  score: 176.5 bits;  conditional E-value: 9.8e-56
                              CCS-EEETTEEESSSEEE----S-TTTTTCS.HHHHHHHHHHHHHHTT-SEEEEEEEESSCCC-SCTTSEE-SSGGGHHHHHHHHH CS
             Oxidored_FMN   2 LFkPikignmtLknRivmapmtrlraldkgnvledlaaeyysqraeipvtliiteaafvnpksggfdnapgiwdeeqieewrklte 87 
                              LF+  ++g+ +LknRivmapmtr ra ++   +++l++ yy qr+    +liite+++++ ++ g+   p++++++++++w+ +t+
  PHY93_21110|PHY93_21110   4 LFESTTLGKIKLKNRIVMAPMTRSRAVNNL--ANELMVTYYGQRSG--AGLIITEGVSPSINGLGYARIPALYNADHVKGWKLVTD 85 
                              9*************************9988..888*********98..9************************************* PP

                              HHHHTT-EEEEEEE--GGGS..SCSTCEC...SS.ESSSSSTTT-....S...CS.-EE--HHHHHHHHHHHHHHHHHHHHTT-SE CS
             Oxidored_FMN  88 avhengskvvvqlwhlGreakseyladqe.vdspsdpvaldaqee...esaeevy.kkeltkeeikqliqefveAAkraieAgfDg 168
                              avh+n+sk+++ql+h Gr ++ e+l++ + v +ps p+  + ++    +  ++   + e+t+ +i++ i+e+++  ++a +AgfDg
  PHY93_21110|PHY93_21110  86 AVHKNDSKIFIQLMHVGRVSHLENLPKGGiVLAPS-PITTPGEMWtdtNGMQPHTpPIEMTEVDIQNAIKEYAHSCELAAAAGFDG 170
                              *****************************733444.4444444333433445555578**************************** PP

                              EEEEE-CTSHHHHHH-TTT----ST CS
             Oxidored_FMN 169 VeihganGYLlnqFlspksnkrtDe 193
                              Ve hganGYL++qFl+  sn+r D+
  PHY93_21110|PHY93_21110 171 VELHGANGYLIDQFLNTASNHRKDR 195
                              **********************997 PP

>> AP_endonuc_2  Xylose isomerase-like TIM barrel
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   2.8e-06     0.025       2      57 ..     161     214 ..     160     226 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 2.8e-06
                              HHHHHCT-SEEEEECCTCSHHHHCHHHHHHHHHHHHHHTTSEEEEEEECCCHSTCT CS
             AP_endonuc_2   2 aaaaeaGfdgvElfgrdlvpvselsdeelrelrkaldelglriaslslftrfgypd 57 
                              ++aa+aGfdgvEl+g++++ +++    + +  ++  ++++++ + +s f+++++++
  PHY93_21110|PHY93_21110 161 ELAAAAGFDGVELHGANGYLIDQ--FLNTASNHRKDRKRNINPPFISHFSHDNDLN 214
                              789******************95..7888888888888888888888888887755 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (233 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       344  (0.0191868); expected 358.6 (0.02)
Passed bias filter:                      323  (0.0180155); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1735.98
//
Query:       PHY93_21115|PHY93_21115  [L=69]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (69 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       114  (0.00635841); expected 358.6 (0.02)
Passed bias filter:                       66  (0.00368119); expected 358.6 (0.02)
Passed Vit filter:                         1  (5.57756e-05); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.19s 00:00:00.60 Elapsed: 00:00:00.41
# Mc/sec: 510.90
//
Query:       PHY93_21125|PHY93_21125  [L=116]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.3e-24   84.2   2.1    5.3e-24   83.9   2.1    1.1  1  PhnA            PhnA domain
    1.4e-12   47.3   4.4    2.5e-12   46.5   4.4    1.3  1  PhnA_Zn_Ribbon  PhnA Zinc-Ribbon
     0.0047   16.4   0.3     0.0092   15.5   0.3    1.6  1  TF_Zn_Ribbon    TFIIB zinc-binding
     0.0059   16.6   1.0      0.011   15.7   1.0    1.4  1  Zn_Tnp_IS1595   Transposase zinc-ribbon domain
     0.0072   16.2   0.5      0.014   15.3   0.5    1.4  1  OrfB_Zn_ribbon  Putative transposase DNA-binding domain
  ------ inclusion threshold ------
      0.039   13.7   1.1       0.75    9.6   0.2    2.4  2  zf-RING_4       RING/Ubox like zinc-binding domain
      0.066   13.3   1.7        2.4    8.3   0.3    2.5  2  zf-ACC          Acetyl-coA carboxylase zinc finger domain
      0.071   13.3   0.8       0.32   11.2   0.8    2.0  2  Auto_anti-p27   Sjogren's syndrome/scleroderma autoantigen 1 
      0.092   13.0   1.8          4    7.8   0.3    2.4  2  zinc_ribbon_9   zinc-ribbon
      0.095   12.8   0.1       0.16   12.1   0.1    1.3  1  DUF2318         Predicted membrane protein (DUF2318)
       0.22   11.5   4.1         10    6.2   0.1    3.4  3  zinc_ribbon_4   zinc-ribbon domain
       0.91    9.9   8.1        1.6    9.1   5.4    2.2  2  DUF4379         Probable Zinc-ribbon domain
          1    9.5   4.6        6.9    6.9   0.8    2.4  2  Zn-ribbon_8     Zinc ribbon domain
        2.3    8.4   6.9        2.3    8.4   0.3    2.4  2  UPF0547         Uncharacterised protein family UPF0547
        8.7    6.3   6.7         14    5.7   0.5    2.7  3  TFIIS_C         Transcription factor S-II (TFIIS)


Domain annotation for each model (and alignments):
>> PhnA  PhnA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   83.9   2.1   4.4e-27   5.3e-24       2      68 ..      50     116 .]      49     116 .] 0.94

  Alignments for each domain:
  == domain 1  score: 83.9 bits;  conditional E-value: 4.4e-27
                              B-SS--B--TTEEEEESS-EEETTTTEEE-TT-EEEEEEE--SS...E.EEEE-SS-EEEEEETTSEEE CS
                     PhnA   2 kDsnGnvLadGDsVtvikdLkVkGssstiKrGtkvknirLvddg..dhdidckvdgfgamvLksefvkK 68 
                               DsnG++L+ GD+V  ikdLkV G   tiK+Gtkvk+irL dd+  +hdi+ckvdg g+m+Lk+++v+K
  PHY93_21125|PHY93_21125  50 LDSNGVQLQSGDTVRTIKDLKVGGE--TIKSGTKVKGIRLLDDPvdGHDISCKVDGHGSMYLKCSVVRK 116
                              6*********************986..6*************887777*********************9 PP

>> PhnA_Zn_Ribbon  PhnA Zinc-Ribbon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.5   4.4   2.1e-15   2.5e-12       5      30 .]       8      33 ..       5      33 .. 0.97

  Alignments for each domain:
  == domain 1  score: 46.5 bits;  conditional E-value: 2.1e-15
           PhnA_Zn_Ribbon  5 CplCaSeytYedgallvCpeCahEwe 30
                             Cp+C+S y Y+dg l++CpeCahEw+
  PHY93_21125|PHY93_21125  8 CPKCNSPYGYQDGNLWICPECAHEWT 33
                             *************************6 PP

>> TF_Zn_Ribbon  TFIIB zinc-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.3   7.7e-06    0.0092       2      26 ..       7      29 ..       6      42 .. 0.89

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 7.7e-06
                             EETTTTCEECHEETSTTCE.EESSSS CS
             TF_Zn_Ribbon  2 kCPnCgstnlveDpergel.vCtdCG 26
                             +CP+C+s++    +  g+l +C++C 
  PHY93_21125|PHY93_21125  7 VCPKCNSPY---GYQDGNLwICPECA 29
                             8******95...7888*********6 PP

>> Zn_Tnp_IS1595  Transposase zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   1.0   8.8e-06     0.011      19      45 ..       6      30 ..       3      31 .. 0.92

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 8.8e-06
            Zn_Tnp_IS1595 19 fvCPhCgsrkayriktrglfqCkeCrk 45
                             +vCP+C   ++y +++  l+ C eC +
  PHY93_21125|PHY93_21125  6 QVCPKCN--SPYGYQDGNLWICPECAH 30
                             79*****..****************98 PP

>> OrfB_Zn_ribbon  Putative transposase DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.5   1.1e-05     0.014      28      56 ..       5      32 ..       2      34 .. 0.94

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 1.1e-05
           OrfB_Zn_ribbon 28 SktCseCgsknkealsgrtfkCpnCgfea 56
                             S+ C++C s   + ++g+++ Cp+C +e+
  PHY93_21125|PHY93_21125  5 SQVCPKCNSPYGY-QDGNLWICPECAHEW 32
                             9***********9.9**********9986 PP

>> zf-RING_4  RING/Ubox like zinc-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   0.2   0.00062      0.75      34      47 ..       2      15 ..       1      16 [. 0.87
   2 ?    2.5   0.0       0.1   1.2e+02      39      46 ..      24      31 ..      18      33 .. 0.77

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.00062
                zf-RING_4 34 eeeegrCPaCreeY 47
                             ++e+++CP+C ++Y
  PHY93_21125|PHY93_21125  2 SDESQVCPKCNSPY 15
                             57899********9 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.1
                zf-RING_4 39 rCPaCree 46
                             +CP+C +e
  PHY93_21125|PHY93_21125 24 ICPECAHE 31
                             69999776 PP

>> zf-ACC  Acetyl-coA carboxylase zinc finger domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   0.3     0.002       2.4      18      26 .]       3      11 ..       1      11 [. 0.85
   2 ?    3.9   0.1     0.048        57      19      26 .]      21      28 ..      19      28 .. 0.82

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.002
                   zf-ACC 18 rnlyVCPkC 26
                             +  +VCPkC
  PHY93_21125|PHY93_21125  3 DESQVCPKC 11
                             5679***** PP

  == domain 2  score: 3.9 bits;  conditional E-value: 0.048
                   zf-ACC 19 nlyVCPkC 26
                             nl +CP+C
  PHY93_21125|PHY93_21125 21 NLWICPEC 28
                             77789999 PP

>> Auto_anti-p27  Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.8   0.00027      0.32      16      39 ..       6      28 ..       4      29 .. 0.90
   2 ?   -0.9   0.0       1.6   1.9e+03      10      29 ..      84      91 ..      82     101 .. 0.57

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00027
            Auto_anti-p27 16 etCpvCgvPLmrdrkggkvyCvaC 39
                             ++Cp+C++P   + +g+ ++C+ C
  PHY93_21125|PHY93_21125  6 QVCPKCNSPYGYQ-DGNLWICPEC 28
                             79*******9887.7899****** PP

  == domain 2  score: -0.9 bits;  conditional E-value: 1.6
            Auto_anti-p27 10 GwtMLaetCpvCgvPLmrdr 29
                             G ++L++            +
  PHY93_21125|PHY93_21125 84 GIRLLDD------------P 91
                             5666654............3 PP

>> zinc_ribbon_9  zinc-ribbon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   0.3    0.0033         4      18      29 ..       3      13 ..       1      15 [. 0.75
   2 ?    4.4   0.1     0.039        47      21      28 ..      21      29 ..      16      33 .. 0.73

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0033
            zinc_ribbon_9 18 edsdvlCPhCgg 29
                             ++s+v CP C++
  PHY93_21125|PHY93_21125  3 DESQV-CPKCNS 13
                             56667.*****8 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.039
            zinc_ribbon_9 21 dv.lCPhCg 28
                             +  +CP+C 
  PHY93_21125|PHY93_21125 21 NLwICPECA 29
                             5447****7 PP

>> DUF2318  Predicted membrane protein (DUF2318)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.1   0.00013      0.16      36      67 ..       7      38 ..       3      52 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00013
                  DUF2318 36 aCevC.ekkgYvqegeelvCknCgvrfaldsig 67
                             +C  C ++ gY q+g+  +C +C  +++l++ +
  PHY93_21125|PHY93_21125  7 VCPKCnSPYGY-QDGNLWICPECAHEWTLEKAE 38
                             79999555555.89*************999876 PP

>> zinc_ribbon_4  zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.2   0.1    0.0084        10       4      12 ..       7      15 ..       7      22 .. 0.83
   2 ?    4.7   0.0     0.024        29       5      16 ..      25      36 ..      23      45 .. 0.67
   3 ?   -0.2   0.0      0.81   9.7e+02      10      24 ..      62      76 ..      61      83 .. 0.79

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.0084
            zinc_ribbon_4  4 tCpsCkaky 12
                             +Cp+C++ y
  PHY93_21125|PHY93_21125  7 VCPKCNSPY 15
                             5*****999 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.024
            zinc_ribbon_4  5 CpsCkakyeidd 16
                             Cp+C  + +++ 
  PHY93_21125|PHY93_21125 25 CPECAHEWTLEK 36
                             777776666665 PP

  == domain 3  score: -0.2 bits;  conditional E-value: 0.81
            zinc_ribbon_4 10 akyeiddeklpakgv 24
                             ++++i d k+ +++ 
  PHY93_21125|PHY93_21125 62 TVRTIKDLKVGGETI 76
                             788999999987765 PP

>> DUF4379  Probable Zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.7      0.71   8.5e+02      50      56 .]       5      11 ..       1      11 [. 0.67
   2 ?    9.1   5.4    0.0014       1.6      28      40 ..      21      33 ..       9      40 .. 0.85

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.71
                  DUF4379 50 sskCpkC 56
                             s+ CpkC
  PHY93_21125|PHY93_21125  5 SQVCPKC 11
                             334***9 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.0014
                  DUF4379 28 vwWkCakCgheWe 40
                              +W+C++C heW 
  PHY93_21125|PHY93_21125 21 NLWICPECAHEWT 33
                             58**********6 PP

>> Zn-ribbon_8  Zinc ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.9   0.8    0.0058       6.9      23      35 ..       3      14 ..       1      16 [. 0.68
   2 ?    3.9   0.2     0.048        57      28      34 ..      24      30 ..      16      38 .. 0.70

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.0058
              Zn-ribbon_8 23 daplta.CPeCgse 35
                             d  + + CP+C+s+
  PHY93_21125|PHY93_21125  3 D--ESQvCPKCNSP 14
                             3..4455****985 PP

  == domain 2  score: 3.9 bits;  conditional E-value: 0.048
              Zn-ribbon_8 28 aCPeCgs 34
                              CPeC +
  PHY93_21125|PHY93_21125 24 ICPECAH 30
                             4899876 PP

>> UPF0547  Uncharacterised protein family UPF0547
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   1.8      0.13   1.5e+02       1       7 [.       6      12 ..       6      14 .. 0.77
   2 ?    8.4   0.3    0.0019       2.3      16      24 ..      24      32 ..      21      33 .. 0.71

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.13
                  UPF0547  1 KvCPeCe 7 
                             +vCP C 
  PHY93_21125|PHY93_21125  6 QVCPKCN 12
                             5899996 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.0019
                  UPF0547 16 fCphCGyvF 24
                             +Cp+C +++
  PHY93_21125|PHY93_21125 24 ICPECAHEW 32
                             577777776 PP

>> TFIIS_C  Transcription factor S-II (TFIIS)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.3     0.055        66       2       8 ..       7      13 ..       6      17 .. 0.78
   2 ?    5.7   0.5     0.011        14      30      39 .]      24      33 ..      22      33 .. 0.85
   3 ?   -3.0   0.0       5.8   6.9e+03      16      24 ..      55      63 ..      55      66 .. 0.69

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.055
                  TFIIS_C  2 kCpkCgs 8 
                              CpkC+s
  PHY93_21125|PHY93_21125  7 VCPKCNS 13
                             5999987 PP

  == domain 2  score: 5.7 bits;  conditional E-value: 0.011
                  TFIIS_C 30 kCtkCghrWr 39
                              C +C h+W+
  PHY93_21125|PHY93_21125 24 ICPECAHEWT 33
                             5999999996 PP

  == domain 3  score: -3.0 bits;  conditional E-value: 5.8
                  TFIIS_C 16 lQtRsaDEp 24
                             +Q+ s+D+ 
  PHY93_21125|PHY93_21125 55 VQLQSGDTV 63
                             588888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (116 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       543  (0.0302861); expected 358.6 (0.02)
Passed bias filter:                      428  (0.0238719); expected 358.6 (0.02)
Passed Vit filter:                        82  (0.0045736); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 866.50
//
Query:       PHY93_21130|PHY93_21130  [L=137]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (137 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       345  (0.0192426); expected 358.6 (0.02)
Passed bias filter:                      283  (0.0157845); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 1021.89
//
Query:       PHY93_21135|PHY93_21135  [L=144]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.052   13.6   0.0      0.074   13.1   0.0    1.3  1  DUF4520   Domain of unknown function (DUF4520)


Domain annotation for each model (and alignments):
>> DUF4520  Domain of unknown function (DUF4520)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   4.2e-06     0.074      14      42 ..      11      39 ..       6      68 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 4.2e-06
                  DUF4520 14 lGrFtAysdgrVhvvFeDrtvLnlvwdfs 42
                             lG F Ay+d +V+++ +Dr+    +++ +
  PHY93_21135|PHY93_21135 11 LGCFSAYADITVNCTVKDRIKTISRFTKK 39
                             79*****************9765554443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (144 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       366  (0.0204139); expected 358.6 (0.02)
Passed bias filter:                      318  (0.0177366); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.24s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 1091.73
//
Query:       PHY93_21140|PHY93_21140  [L=110]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.039   13.8   0.0      0.059   13.2   0.0    1.3  1  HTH_10    HTH DNA binding domain
      0.075   13.1   0.0       0.11   12.6   0.0    1.2  1  SpoIIID   Stage III sporulation protein D


Domain annotation for each model (and alignments):
>> HTH_10  HTH DNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   6.6e-06     0.059      24      52 ..      20      48 ..      17      49 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 6.6e-06
                   HTH_10 24 vtlkeLAkelGIskstlsehLrkaeskli 52
                              t ++LAk +G sk+++++ L+ + ++li
  PHY93_21140|PHY93_21140 20 KTERDLAKYFGRSKTAIHDLLKMILNTLI 48
                             5679********************99998 PP

>> SpoIIID  Stage III sporulation protein D
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   1.2e-05      0.11      18      46 ..      18      46 ..      13      54 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 1.2e-05
                  SpoIIID 18 skatvRkaakvfgvskstvhkDvterLkk 46
                             s++t R+ ak fg sk  +h  +  +L++
  PHY93_21140|PHY93_21140 18 SRKTERDLAKYFGRSKTAIHDLLKMILNT 46
                             78999***************877777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (110 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       376  (0.0209716); expected 358.6 (0.02)
Passed bias filter:                      334  (0.018629); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 823.12
//
Query:       PHY93_17320|PHY93_17320  [L=144]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.041   13.9   0.0      0.073   13.0   0.0    1.4  1  PhnA_Zn_Ribbon   PhnA Zinc-Ribbon
      0.069   13.4   0.0       0.12   12.6   0.0    1.4  1  RRM_2            RNA recognition motif 2
      0.092   12.1   0.0       0.17   11.2   0.0    1.4  2  Ubie_methyltran  ubiE/COQ5 methyltransferase family


Domain annotation for each model (and alignments):
>> PhnA_Zn_Ribbon  PhnA Zinc-Ribbon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   1.2e-05     0.073      17      27 ..     110     120 ..      84     120 .. 0.93

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 1.2e-05
           PhnA_Zn_Ribbon  17 gallvCpeCah 27 
                               ++++Cp+C+h
  PHY93_17320|PHY93_17320 110 SEVWLCPTCGH 120
                              68********9 PP

>> RRM_2  RNA recognition motif 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0     2e-05      0.12      24      68 ..      48      92 ..      34     102 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 2e-05
                    RRM_2 24 eknkgtydflylpidfknkcnvgyafinlvepkkivafqkafngk 68
                             ++ k t+d  + +id      vg  +i  ++pk+iv++  af+ +
  PHY93_17320|PHY93_17320 48 QEIKNTHDTTVDRIDSATAVAVGPELIFYINPKMIVTLSYAFAST 92
                             56789999999****************************999865 PP

>> Ubie_methyltran  ubiE/COQ5 methyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   2.8e-05      0.17      78     139 ..      36     102 ..      18     108 .. 0.82
   2 ?   -3.0   0.0       0.6   3.6e+03     144     159 ..     125     140 ..     122     142 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 2.8e-05
                              EES-HHHHHHHHHHHHHHTSS...TEEEE..E--TTT-TTS-T-EEEEEEES-GGG-S-HHHHHHHH CS
          Ubie_methyltran  78 lDinenmLkvgekklkeegki...niefl..qanaeeLpfeddsfDvvtvsfGlrnvtDklkaLkea 139
                              l++ne +L +ge+ +k++  +   +i+    +a + eL f  + + +vt+s+ +  + D +kaL+ +
  PHY93_17320|PHY93_17320  36 LNLNEAVLFIGEQEIKNTHDTtvdRIDSAtaVAVGPELIFYINPKMIVTLSYAFASTEDFTKALEAI 102
                              689************9988773334443311455679***************************876 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 0.6
                              EEEEEEEEEEE----S CS
          Ubie_methyltran 144 kpGGrlvvlefskvel 159
                              kp G++ +l +++ ++
  PHY93_17320|PHY93_17320 125 KPSGKMSCLRITRWKV 140
                              8999999999888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (144 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       520  (0.0290033); expected 358.6 (0.02)
Passed bias filter:                      495  (0.0276089); expected 358.6 (0.02)
Passed Vit filter:                        66  (0.00368119); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1071.01
//
Query:       PHY93_21145|PHY93_21145  [L=70]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.096   12.0   0.1      0.097   12.0   0.1    1.0  1  PfkB      pfkB family carbohydrate kinase


Domain annotation for each model (and alignments):
>> PfkB  pfkB family carbohydrate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.1   5.4e-06     0.097     107     164 ..       6      65 ..       2      70 .] 0.87

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 5.4e-06
                              EEEGGGGGHHHHHHHHHHHHHGCTSEEEEES.EECTTSHHHHHHHHHHHHHHTTE.EEEE CS
                     PfkB 107 fnrgaaadltkeeleededlleeadllyisg.llsselpeavleelaeaaknggt.fdpn 164
                              +n+  +++lt+++l   +++ +e d+l+i+  +  +++p+++le++ + ++++ +   ++
  PHY93_21145|PHY93_21145   6 TNLTSTNELTQAQLNVIKEWTSEEDVLRIGNiFNLDHSPVSLLELACTRKNAQEKlSAMV 65 
                              6788899************************9999************9999998754444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (70 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       437  (0.0243739); expected 358.6 (0.02)
Passed bias filter:                      259  (0.0144459); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.23s 00:00:00.63 Elapsed: 00:00:00.41
# Mc/sec: 515.24
//
Query:       PHY93_21150|PHY93_21150  [L=121]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (121 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       337  (0.0187964); expected 358.6 (0.02)
Passed bias filter:                      154  (0.00858944); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.40
# Mc/sec: 904.82
//
Query:       PHY93_04640|PHY93_04640  [L=312]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (312 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       511  (0.0285013); expected 358.6 (0.02)
Passed bias filter:                       73  (0.00407162); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.19s 00:00:00.65 Elapsed: 00:00:00.38
# Mc/sec: 2435.61
//
Query:       PHY93_04645|PHY93_04645  [L=287]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      4e-06   27.8   0.0    6.4e-06   27.1   0.0    1.3  1  Trypsin_2      Trypsin-like peptidase domain
     0.0018   17.0   0.0       0.41    9.2   0.0    2.1  2  Peptidase_S46  Peptidase S46


Domain annotation for each model (and alignments):
>> Trypsin_2  Trypsin-like peptidase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.1   0.0   7.1e-10   6.4e-06       1     150 []      53     224 ..      53     224 .. 0.74

  Alignments for each domain:
  == domain 1  score: 27.1 bits;  conditional E-value: 7.1e-10
                Trypsin_2   1 GsGflvgsdg.......lilTnaHvvdsadgaav.........kaikkkveeagadgrevpak...vvaadp.elDlAllkv.... 62 
                              +sG l++  g       l+lTn H+ +s   +              k + ++  ++ + +p +   vv+a + ++D++++++    
  PHY93_04645|PHY93_04645  53 CSGSLIRFSGqpttskaLVLTNGHCYSSGPFGGMikpgevivnSPVKRSMKIFDKQMKLFPITtsrVVYAAMtDTDITIYELtqsy 138
                              68889999988999999*********6666666655555555444555555555566666666777555554388*********99 PP

                Trypsin_2  63 .ssderaglpplplgpsealkggepvyvv.GyplggeksgsvssGivsgvvesesaasgegesflqtdaatspGsSGGplfd.sdG 145
                               + +   +++   l++ +++ g+ ++ +v Gy ++g +  ++ +  +  ++e  +a  ++++ + +++++t +G+SG+p++   + 
  PHY93_04645|PHY93_04645 139 dEIQNKFNIQSFDLDTIKPSLGT-NIEIVsGYWDRGYS--CAIDAFIFNLKE--GAWLFKDSIRYTATCDTIGGTSGSPIIAkGTR 219
                              99999999999999998888888.66666599555555..566666666666..46666666677****************97888 PP

                Trypsin_2 146 rvvGl 150
                              +v+++
  PHY93_04645|PHY93_04645 220 HVIAI 224
                              89886 PP

>> Peptidase_S46  Peptidase S46
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.8   0.0   0.00051       4.6      38      67 ..      42      78 ..      18      81 .. 0.72
   2 !    9.2   0.0   4.6e-05      0.41     623     643 ..     196     216 ..     185     225 .. 0.88

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.00051
                             -.GGG--EETTTEE-EE-STT-.......EEEE-HHHH CS
            Peptidase_S46 38 s.kdAvvsflggCtasfVSpeG.......LvlTNHHCa 67
                                +++v+ l+ C++s++  +G       LvlTN HC 
  PHY93_04645|PHY93_04645 42 YdFEGIVK-LSNCSGSLIRFSGqpttskaLVLTNGHCY 78
                             34678999.999*****955444444444********7 PP

  == domain 2  score: 9.2 bits;  conditional E-value: 4.6e-05
                              EEEEES----TT-TT-EEE-T CS
            Peptidase_S46 623 vnflstnDitGGNSGSPvlng 643
                              + + +t D++GG SGSP++ +
  PHY93_04645|PHY93_04645 196 IRYTATCDTIGGTSGSPIIAK 216
                              57899*************976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (287 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       426  (0.0237604); expected 358.6 (0.02)
Passed bias filter:                      361  (0.020135); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.24s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 2113.67
//
Query:       PHY93_04650|PHY93_04650  [L=164]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.2e-07   31.9   1.5    3.4e-05   23.9   0.2    1.5  2  Baculo_PEP_C   Baculovirus polyhedron envelope protein, PEP, 
     0.0024   17.9   4.8      0.016   15.2   4.2    2.3  1  DUF1664        Protein of unknown function (DUF1664)
     0.0069   16.8   7.2          1    9.9   1.8    3.0  2  GPS2_interact  G-protein pathway suppressor 2-interacting dom
  ------ inclusion threshold ------
      0.016   15.2   1.4      0.039   14.0   1.4    1.7  1  Phasin         Poly(hydroxyalcanoate) granule associated prot
      0.016   15.5   5.2        2.2    8.7   1.1    2.6  2  CLZ            C-terminal leucine zipper domain of cyclic nuc
      0.017   15.4   2.1        0.4   11.0   0.2    2.6  2  ABC_tran_CTD   ABC transporter C-terminal domain
      0.018   15.1   1.3      0.018   15.1   1.3    2.0  2  TcpS           Toxin-coregulated pilus protein S
      0.047   14.0   8.6       0.76   10.1   1.9    2.5  2  DUF5082        Domain of unknown function (DUF5082)
      0.048   12.4   3.4      0.061   12.0   3.4    1.2  1  MAP65_ASE1     Microtubule associated protein (MAP65/ASE1 fam
      0.048   14.1   2.7       0.92   10.0   0.2    2.5  2  NPV_P10        Nucleopolyhedrovirus P10 protein
      0.048   13.2   1.7      0.089   12.3   1.1    1.8  1  DUF2884        Protein of unknown function (DUF2884)
      0.049   13.2   1.8       0.13   11.8   1.7    1.9  1  Fzo_mitofusin  fzo-like conserved region
      0.061   13.5   1.8       0.23   11.6   1.8    1.9  1  Uds1           Up-regulated During Septation
       0.08   12.4   3.8        1.6    8.1   3.1    2.3  2  FliD_C         Flagellar hook-associated protein 2 C-terminus
      0.088   13.4   1.0       0.43   11.2   0.3    2.3  2  SlyX           SlyX
      0.091   12.9   1.9        1.1    9.4   0.1    2.4  2  DUF2730        Protein of unknown function (DUF2730)
      0.092   12.6   9.9       0.44   10.4   0.6    2.7  3  CdvA           CdvA-like coiled-coil domain
        0.1   12.0   0.4          1    8.8   0.1    2.0  2  DUF4349        Domain of unknown function (DUF4349)
       0.11   11.2   3.6       0.22   10.2   3.1    1.6  2  BshC           Bacillithiol biosynthesis BshC
       0.14   12.4   4.8       0.49   10.7   1.2    2.4  2  DUF4164        Domain of unknown function (DUF4164)
       0.14   12.2   8.2        1.3    9.1   8.2    2.3  1  DUF1640        Protein of unknown function (DUF1640)
       0.16   11.9   0.9       0.84    9.7   0.1    2.1  2  Noelin-1       Neurogenesis glycoprotein
       0.17   11.9   4.4        3.4    7.7   0.7    2.8  2  TMF_DNA_bd     TATA element modulatory factor 1 DNA binding
       0.18   11.3   4.9       0.23   10.9   4.9    1.2  1  HMMR_N         Hyaluronan mediated motility receptor N-termin
       0.19   11.4   2.4       0.29   10.8   1.8    1.6  1  IL11           Interleukin 11
       0.24   10.8   4.9       0.24   10.7   1.0    2.3  2  Helo_like_N    Fungal N-terminal domain of STAND proteins
       0.25   11.7   3.5       0.45   10.9   0.2    2.6  3  UXS1_N         UDP-glucuronate decarboxylase N-terminal
       0.37   10.8   4.5        3.4    7.7   0.6    2.6  2  Prefoldin_2    Prefoldin subunit
        0.4   10.7   7.0        3.3    7.8   1.4    2.6  3  GerPC          Spore germination protein GerPC
       0.46   10.4   3.0        3.9    7.3   0.3    2.1  2  ACCA           Acetyl co-enzyme A carboxylase carboxyltransfe
       0.49   10.3  10.3       0.92    9.4  10.3    1.4  1  LMP            LMP repeated region
        0.5   10.6   5.8        2.4    8.3   5.7    2.0  1  Fib_alpha      Fibrinogen alpha/beta chain family
       0.54    9.8   8.5       0.47   10.0   3.4    2.0  2  DUF4795        Domain of unknown function (DUF4795)
        1.6    9.2   6.8         18    5.8   6.8    2.3  1  DUF16          Protein of unknown function DUF16
        1.8    8.8  14.5        0.4   10.9   1.7    2.9  3  XhlA           Haemolysin XhlA


Domain annotation for each model (and alignments):
>> Baculo_PEP_C  Baculovirus polyhedron envelope protein, PEP, C terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.8   0.1   8.8e-05     0.045      52      94 ..      49      91 ..      17      99 .. 0.60
   2 !   23.9   0.2   6.5e-08   3.4e-05      16     103 ..      49     143 ..      39     153 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 8.8e-05
             Baculo_PEP_C 52 edlksllaeldtrldtlltnLtdalnalqdtlrneLtnlnsil 94
                              dlk+ l+++d++++++++nL+++++++  +l+  +  ++ +l
  PHY93_04650|PHY93_04650 49 IDLKKGLSDVDHKIESTSANLEEKIKNIDRKLDISIAHIDHKL 91
                             3445555555555555555555555555555554444444443 PP

  == domain 2  score: 23.9 bits;  conditional E-value: 6.5e-08
             Baculo_PEP_C  16 ldLtnvLnairlqnvqilaqlatlldaietqLnalsedlksllaeldtrldtlltnLtdalnalq.......dtlrneLtnlnsil 94 
                              +dL + L+++  +  +++a+l++ +++i+++L+   +++ + l    +++++ +  L++++ +l        + ++n++++l+s+l
  PHY93_04650|PHY93_04650  49 IDLKKGLSDVDHKIESTSANLEEKIKNIDRKLDISIAHIDHKLDTSIAHFEEKFIFLDKKIDQLDyktekrfERVENQIDSLKSDL 134
                              67888888888888888888888888888888877777777777666799999999999999999888888899999999999999 PP

             Baculo_PEP_C  95 tnLlssvtN 103
                                L  ++ N
  PHY93_04650|PHY93_04650 135 KRLDIKIDN 143
                              888776665 PP

>> DUF1664  Protein of unknown function (DUF1664)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   4.2   3.2e-05     0.016      47     120 ..      52     130 ..      41     146 .. 0.49

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 3.2e-05
                  DUF1664  47 skqleqvseslaatkrhLssridrvdkkldeqk.eiskeikeevtevredlseigedvesv....keavegleskleri 120
                               k l +v +++++t  +L+++i+++d+kld ++ +i ++++  +++ +e+   ++++++++    ++ +e +e++++++
  PHY93_04650|PHY93_04650  52 KKGLSDVDHKIESTSANLEEKIKNIDRKLDISIaHIDHKLDTSIAHFEEKFIFLDKKIDQLdyktEKRFERVENQIDSL 130
                              4555555555555555555555555555554330334445555555555444444444443111122333333333333 PP

>> GPS2_interact  G-protein pathway suppressor 2-interacting domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.5   0.2    0.0051       2.6      36      54 ..      19      38 ..      11      47 .. 0.75
   2 !    9.9   1.8     0.002         1      33      81 ..      84     134 ..      56     140 .. 0.75

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.0051
            GPS2_interact 36 idkvDREiakveqqi.skLk 54
                             ++kvDRE+  +e+ i   Lk
  PHY93_04650|PHY93_04650 19 LSKVDREMITTEEMIiLVLK 38
                             69*****8888776514555 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 0.002
            GPS2_interact  33 lqnid.kvDREiakveqqiskLkkkqkeleeeaakp.keeekpvepssses 81 
                              + +id k D  ia+ e++   L kk  +l+ +  k+ ++ e++++  +s+ 
  PHY93_04650|PHY93_04650  84 IAHIDhKLDTSIAHFEEKFIFLDKKIDQLDYKTEKRfERVENQIDSLKSDL 134
                              55565489***************************9555555555555555 PP

>> Phasin  Poly(hydroxyalcanoate) granule associated protein (phasin)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   1.4   7.5e-05     0.039      50     124 ..      64     137 ..      50     139 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 7.5e-05
                   Phasin  50 ktkkvaeekleevresvkskveevkekaeeqwdklekafdervakaLsrlgvpsredveaLsarvdeLtkelekl 124
                              +t ++ eek++++ ++++ ++ ++ +k++++  + e+ f   + k + +l+ ++++  e +++++d+L++ l++l
  PHY93_04650|PHY93_04650  64 STSANLEEKIKNIDRKLDISIAHIDHKLDTSIAHFEEKFI-FLDKKIDQLDYKTEKRFERVENQIDSLKSDLKRL 137
                              5677888999999999999999999999999999988885.58999************************99987 PP

>> CLZ  C-terminal leucine zipper domain of cyclic nucleotide-gated channels
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.7   1.1    0.0042       2.2      10      42 ..      51      82 ..      48     115 .. 0.73
   2 ?    7.9   0.4    0.0075       3.9      27      50 ..     114     137 ..     104     144 .. 0.59

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 0.0042
                      CLZ 10 lKdglLDeeaakagaeqkeleekverLessLea 42
                             lK gl D +  k +++  +leek+++++ +L++
  PHY93_04650|PHY93_04650 51 LKKGLSDVD-HKIESTSANLEEKIKNIDRKLDI 82
                             699999999.8999***********99999984 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.0075
                      CLZ  27 keleekverLessLeaLqtrlarL 50 
                               ++e++ er+e+++++L+  l+rL
  PHY93_04650|PHY93_04650 114 YKTEKRFERVENQIDSLKSDLKRL 137
                              345666666666666666666665 PP

>> ABC_tran_CTD  ABC transporter C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.3   0.1       0.2     1e+02      13      31 ..      62      80 ..      51     102 .. 0.74
   2 ?   11.0   0.2   0.00077       0.4       2      30 ..     112     140 ..     111     144 .. 0.89

  Alignments for each domain:
  == domain 1  score: 3.3 bits;  conditional E-value: 0.2
             ABC_tran_CTD 13 leaeIeaLEeeiaeleael 31
                             +e++ + LEe+i++++ +l
  PHY93_04650|PHY93_04650 62 IESTSANLEEKIKNIDRKL 80
                             4444456777777776665 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.00077
             ABC_tran_CTD   2 lsykeqreleeleaeIeaLEeeiaeleae 30 
                              l yk ++++e++e++I++L  +++ l+ +
  PHY93_04650|PHY93_04650 112 LDYKTEKRFERVENQIDSLKSDLKRLDIK 140
                              78*******************99999865 PP

>> TcpS  Toxin-coregulated pilus protein S
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.1   1.3   3.6e-05     0.018      44     100 ..      49     105 ..      37     117 .. 0.92
   2 ?    0.3   0.1       1.3   6.7e+02      27      47 ..     120     140 ..     113     144 .. 0.73

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 3.6e-05
                     TcpS  44 LeLkkkileveieikeaedklqPkvskaipvlskpkavvkvellkeiesfdekLvkL 100
                              ++Lkk + +v+ +i  ++  l+ k+++   +l+ + a +  +l  +i +f+ek++ L
  PHY93_04650|PHY93_04650  49 IDLKKGLSDVDHKIESTSANLEEKIKNIDRKLDISIAHIDHKLDTSIAHFEEKFIFL 105
                              68***************************************************9866 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 1.3
                     TcpS  27 yennyksiesLknkleqLeLk 47 
                              +e   ++i+sLk  l  L++k
  PHY93_04650|PHY93_04650 120 FERVENQIDSLKSDLKRLDIK 140
                              555556788888888888776 PP

>> DUF5082  Domain of unknown function (DUF5082)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   1.9    0.0015      0.76      63     113 ..      39      89 ..       8      99 .. 0.83
   2 ?    7.6   1.1    0.0087       4.4      74     119 ..     104     142 ..      83     145 .. 0.51

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.0015
                  DUF5082  63 keennydgirsnlessyqtyvdkldelidaieeEIerLenqiseaqgvldt 113
                               ++n ++    +l++  + + +k++++ +++ee+I+++  ++  +   +d+
  PHY93_04650|PHY93_04650  39 AQTNHFYHTDIDLKKGLSDVDHKIESTSANLEEKIKNIDRKLDISIAHIDH 89 
                              47888888888**************************99988665555554 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0087
                  DUF5082  74 nlessyqtyvdkldelidaieeEIerLenqiseaqgvldtlqsqln 119
                              +l++++++   k+++          r enqi +++++l++l+ +++
  PHY93_04650|PHY93_04650 104 FLDKKIDQLDYKTEKRFE-------RVENQIDSLKSDLKRLDIKID 142
                              444444444444444444.......444444444444444444433 PP

>> MAP65_ASE1  Microtubule associated protein (MAP65/ASE1 family)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   3.4   0.00012     0.061      66     164 ..      51     143 ..      12     146 .. 0.71

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00012
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTS.......---SS--TSS--HHH.HHHHHHHHHHHHHHHHHHHHH CS
               MAP65_ASE1  66 Llqkkkkldtaleelrkekaerlaeflelleqlqklceelge.......eplsllidslpklee.leslrkhleelkeekerRlee 143
                              L++ ++++d+++e   ++++e+ +++                         +++l +s+  +ee    l k++++l  + e+R+e 
  PHY93_04650|PHY93_04650  51 LKKGLSDVDHKIESTSANLEEKIKNID--------------RkldisiaHIDHKLDTSIAHFEEkFIFLDKKIDQLDYKTEKRFER 122
                              444444444444444444444433332..............133333334667888999999996677789*************** PP

                              HHHHHHHHHHHHHHHT----S CS
               MAP65_ASE1 144 ikelkkqIkslmeeLglepkt 164
                              ++++ +++ks+++ L+++ + 
  PHY93_04650|PHY93_04650 123 VENQIDSLKSDLKRLDIKIDN 143
                              *****************9875 PP

>> NPV_P10  Nucleopolyhedrovirus P10 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.1   0.3      0.12        64      23      46 ..      58      82 ..      47      96 .. 0.49
   2 ?   10.0   0.2    0.0018      0.92      12      60 ..      94     143 ..      89     144 .. 0.87

  Alignments for each domain:
  == domain 1  score: 4.1 bits;  conditional E-value: 0.12
                  NPV_P10 23 lqqqvddvqenlp.dvtelnekLda 46
                             +++++++ ++nl+ +++++  kLd 
  PHY93_04650|PHY93_04650 58 VDHKIESTSANLEeKIKNIDRKLDI 82
                             3334444444433123444455553 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.0018
                  NPV_P10  12 dikavddkVdalqqqvddvqenl.pdvtelnekLdaqsaqLaeletkven 60 
                               i++ ++k   l++++d+++ +  + ++ +++++d++   L+ l+ k++n
  PHY93_04650|PHY93_04650  94 SIAHFEEKFIFLDKKIDQLDYKTeKRFERVENQIDSLKSDLKRLDIKIDN 143
                              57888999999********9776267999****************99986 PP

>> DUF2884  Protein of unknown function (DUF2884)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   1.1   0.00017     0.089      80     143 ..      62     125 ..      51     135 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00017
                  DUF2884  80 ldevltellgedsevaeklktkldelkarvkekfykdgdklvlgaqslesldeafdkefeqeie 143
                              ++++ ++l  + ++  +kl+ +++ +++++++++ + ++k+++ ++++++ld +++k+fe+  +
  PHY93_04650|PHY93_04650  62 IESTSANLEEKIKNIDRKLDISIAHIDHKLDTSIAHFEEKFIFLDKKIDQLDYKTEKRFERVEN 125
                              566666776677788899*****************************************98544 PP

>> Fzo_mitofusin  fzo-like conserved region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   1.7   0.00025      0.13      83     155 ..      61     137 ..      14     141 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00025
            Fzo_mitofusin  83 ivsltsancshqvq...qelsstfarlcqqvdetekeleeeikelekeiekle.evqkkakllrnkaslleseLekf 155
                               ++ tsan++++++   ++l+  +a++ ++ d++ +++ee+   l+k+i++l+ +++k+ + + n+  +l+s+L++ 
  PHY93_04650|PHY93_04650  61 KIESTSANLEEKIKnidRKLDISIAHIDHKLDTSIAHFEEKFIFLDKKIDQLDyKTEKRFERVENQIDSLKSDLKRL 137
                              577899999877652226999999****************************9456778899999999999999875 PP

>> Uds1  Up-regulated During Septation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   1.8   0.00045      0.23      25     107 ..      50     136 ..      49     142 .. 0.59

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00045
                     Uds1  25 elkkelkaLeerlealrkkLaletklrdaarsLsrly..ssskksak........ssaarsnskssreslakaeeelaeserkvde 100
                              +lkk l+ ++ ++e+++++  le k+++  r+L      +++k +++                k++++ + k+e+  +  e+++d 
  PHY93_04650|PHY93_04650  50 DLKKGLSDVDHKIESTSAN--LEEKIKNIDRKLDISIahIDHKLDTSiahfeekfI----FLDKKIDQLDYKTEKRFERVENQIDS 129
                              69*****************..88888888888876660033333322443332111....12223333455555566666666666 PP

                     Uds1 101 laselek 107
                              l+s+l++
  PHY93_04650|PHY93_04650 130 LKSDLKR 136
                              6666555 PP

>> FliD_C  Flagellar hook-associated protein 2 C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.1   3.1    0.0031       1.6     192     238 ..      62     112 ..      11     138 .. 0.63
   2 ?    5.4   0.3     0.021        11     190     220 ..     107     137 ..      93     158 .. 0.56

  Alignments for each domain:
  == domain 1  score: 8.1 bits;  conditional E-value: 0.0031
                              HHHHHHHXXXXHHHHHHH....HHHHHHCHHHHHHHHHHHHHHHHHHHHHH CS
                   FliD_C 192 lqtasknltkqikdldkk....iedldkrletleerlkkqfaalekavskl 238
                              +++ s nl+++ik++d+k    i+++d +l+t  +  +++f  l+k +++l
  PHY93_04650|PHY93_04650  62 IESTSANLEEKIKNIDRKldisIAHIDHKLDTSIAHFEEKFIFLDKKIDQL 112
                              334444444444443333111145566666666666666665555555544 PP

  == domain 2  score: 5.4 bits;  conditional E-value: 0.021
                              SHHHHHHHHXXXXHHHHHHHHHHHHHCHHHH CS
                   FliD_C 190 gtlqtasknltkqikdldkkiedldkrletl 220
                              ++++++  + +k+ ++++++i++l++ l+ l
  PHY93_04650|PHY93_04650 107 KKIDQLDYKTEKRFERVENQIDSLKSDLKRL 137
                              3333444444444455555555555554444 PP

>> SlyX  SlyX
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   0.0       2.1   1.1e+03      45      45 ..      78      78 ..      51      96 .. 0.59
   2 ?   11.2   0.3   0.00085      0.43       2      51 ..      92     138 ..      91     144 .. 0.87

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 2.1
                             H CS
                     SlyX 45 e 45
                             +
  PHY93_04650|PHY93_04650 78 R 78
                             1 PP

  == domain 2  score: 11.2 bits;  conditional E-value: 0.00085
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-XXXX CS
                     SlyX   2 eerleeLEiklafqedtieeLndvvaeqqqqidrlqrqlrllaerlkele 51 
                              ++ + + E+k  f+++ i++L+   ++ +++ +r + q++ l+  lk l+
  PHY93_04650|PHY93_04650  92 DTSIAHFEEKFIFLDKKIDQLD---YKTEKRFERVENQIDSLKSDLKRLD 138
                              6679999**************9...8999999999999999999998775 PP

>> DUF2730  Protein of unknown function (DUF2730)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.1      0.28   1.4e+02      44      92 ..      61      79 ..      17      87 .. 0.55
   2 ?    9.4   0.1    0.0022       1.1      37      87 ..      90     142 ..      84     145 .. 0.76

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.28
                  DUF2730 44 endkrlteletkvenLPtakdlekLkllladlrgelkaleaevrqlshq 92
                             ++++                               + +le+++++++++
  PHY93_04650|PHY93_04650 61 KIEST------------------------------SANLEEKIKNIDRK 79
                             22222..............................22333333344443 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.0022
                  DUF2730  37 klaekveendkrlteletkvenLP..takdlekLkllladlrgelkaleaevr 87 
                              kl  ++++ +++   l+ k+++L   t+k +e+++ ++  l+ +lk l+ +++
  PHY93_04650|PHY93_04650  90 KLDTSIAHFEEKFIFLDKKIDQLDykTEKRFERVENQIDSLKSDLKRLDIKID 142
                              67777888888888888888888533777788888888888888888877776 PP

>> CdvA  CdvA-like coiled-coil domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.1       2.4   1.2e+03      35      61 ..      12      38 ..      10      46 .. 0.68
   2 ?    7.7   0.7    0.0059         3      20      56 ..      55      91 ..      37      98 .. 0.82
   3 ?   10.4   0.6   0.00086      0.44      27      68 ..      98     139 ..      94     142 .. 0.88

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 2.4
                     CdvA 35 kekakelkeklkkrlkeledqikslek 61
                             ++k +++ +k+++++ + e+ i  + k
  PHY93_04650|PHY93_04650 12 NKKSDDILSKVDREMITTEEMIILVLK 38
                             567777777777777777777766555 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.0059
                     CdvA 20 yeeikekleealkklkekakelkeklkkrlkeledqi 56
                              +++  k+e++++ l+ek k++  kl+ +++ ++ ++
  PHY93_04650|PHY93_04650 55 LSDVDHKIESTSANLEEKIKNIDRKLDISIAHIDHKL 91
                             4667789999999999999999999999998888776 PP

  == domain 3  score: 10.4 bits;  conditional E-value: 0.00086
                     CdvA  27 leealkklkekakelkeklkkrlkeledqikslekalanlki 68 
                              +ee++  l++k ++l  k +kr + +e+qi+sl++ l  l i
  PHY93_04650|PHY93_04650  98 FEEKFIFLDKKIDQLDYKTEKRFERVENQIDSLKSDLKRLDI 139
                              7889999**************************998766655 PP

>> DUF4349  Domain of unknown function (DUF4349)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.0      0.39     2e+02     120     140 ..      50      70 ..      47     101 .. 0.69
   2 ?    8.8   0.1     0.002         1     120     147 ..     115     142 ..     106     144 .. 0.90

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.39
                  DUF4349 120 eiereLsevqaeieslegqlr 140
                               +++ Ls+v   ies  ++l+
  PHY93_04650|PHY93_04650  50 DLKKGLSDVDHKIESTSANLE 70 
                              677889999999999766553 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.002
                  DUF4349 120 eiereLsevqaeieslegqlryLdnqva 147
                              + e++ ++v+ +i+sl++ l++Ld +++
  PHY93_04650|PHY93_04650 115 KTEKRFERVENQIDSLKSDLKRLDIKID 142
                              579999*****************98776 PP

>> BshC  Bacillithiol biosynthesis BshC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   3.1   0.00042      0.22     419     495 ..      46     125 ..      11     132 .. 0.71
   2 ?    0.9   0.1      0.29   1.5e+02     421     453 ..     113     145 ..     104     150 .. 0.68

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00042
                              TS-HHHHHHHHHHHHHHHHHHHHHHHHHHTT-GGGHHHHHHHHHHHHHHHHHHHHHHH...HHHHHHTHHHHHHHHHHHH CS
                     BshC 419 aseleldelfeeakeeleeafealkelaakidktleklveanekkilkqlekLekkll...kaekrkheeelrqlekikn 495
                              +++++l++ ++++ +++e++  +l+e++++id++l  ++++  +k+  ++ ++e+k+    k+  +   +  +++e+++n
  PHY93_04650|PHY93_04650  46 HTDIDLKKGLSDVDHKIESTSANLEEKIKNIDRKLDISIAHIDHKLDTSIAHFEEKFIfldKKIDQLDYKTEKRFERVEN 125
                              56788888999999**************************************9999751113333333344445555555 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.29
                              -HHHHHHHHHHHHHHHHHHHHHHHHHHTT-GGG CS
                     BshC 421 eleldelfeeakeeleeafealkelaakidktl 453
                              +++ +++fe+++++++++ ++lk+l  kid+ +
  PHY93_04650|PHY93_04650 113 DYKTEKRFERVENQIDSLKSDLKRLDIKIDNRF 145
                              345566777777777777777777777777766 PP

>> DUF4164  Domain of unknown function (DUF4164)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.4   0.2      0.19        96      26      57 ..      60      93 ..      50     101 .. 0.52
   2 ?   10.7   1.2   0.00095      0.49      13      57 ..     105     143 ..      89     146 .. 0.58

  Alignments for each domain:
  == domain 1  score: 3.4 bits;  conditional E-value: 0.19
                  DUF4164 26 rrleaerkr.deleaei.ealgedrsRLaeeLdq 57
                             +++e+  ++ +e  ++i ++l+   + ++++Ld 
  PHY93_04650|PHY93_04650 60 HKIESTSANlEEKIKNIdRKLDISIAHIDHKLDT 93
                             4444444333333333334444444555555554 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 0.00095
                  DUF4164  13 LeaaldsLEkavdrrleaerkrdeleaeiealgedrsRLaeeLdq 57 
                              L++++d+L+   ++r+      + +e++i  l++d +RL+ ++d+
  PHY93_04650|PHY93_04650 105 LDKKIDQLDYKTEKRF------ERVENQIDSLKSDLKRLDIKIDN 143
                              4555555555555555......55666666666666666666665 PP

>> DUF1640  Protein of unknown function (DUF1640)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   8.2    0.0025       1.3      35     155 ..      19     136 ..      11     156 .. 0.79

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.0025
                  DUF1640  35 lekvakslvskselekseyl.qkaalselrkevqisersefaalrseteklqreleklkqkLreeidklkadirldlnleKgrire 119
                              l+kv +++++ +e+ +  ++ q  ++ +   ++++      ++++s + +l++++++++ kL   i  + ++    l++  ++ +e
  PHY93_04650|PHY93_04650  19 LSKVDREMITTEEMIILVLKaQTNHFYHTDIDLKKGLSDVDHKIESTSANLEEKIKNIDRKLDISIAHIDHK----LDTSIAHFEE 100
                              566777777777776655541344445555555555566667888889999999999999999999888888....8888899*** PP

                  DUF1640 120 elakleakiqelnnkidrevsalrteiEsvKldvik 155
                              ++  l++ki++l++k ++  + +  +i+s+K d+ +
  PHY93_04650|PHY93_04650 101 KFIFLDKKIDQLDYKTEKRFERVENQIDSLKSDLKR 136
                              *******************************99755 PP

>> Noelin-1  Neurogenesis glycoprotein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.0       1.1   5.8e+02      43      56 ..      68      81 ..      52      94 .. 0.67
   2 ?    9.7   0.1    0.0016      0.84      39      86 ..      93     137 ..      83     145 .. 0.82

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 1.1
                 Noelin-1 43 qllekvqnlsqsie 56
                             +l+ek++n+ ++++
  PHY93_04650|PHY93_04650 68 NLEEKIKNIDRKLD 81
                             56666666666555 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.0016
                 Noelin-1  39 rqlrqllekvqnlsqsievldlRtsrdlqyvrktetllktlesklkvv 86 
                              + + +++ek   l ++i++ld +t++ ++   ++e+++++l+s lk +
  PHY93_04650|PHY93_04650  93 TSIAHFEEKFIFLDKKIDQLDYKTEKRFE---RVENQIDSLKSDLKRL 137
                              567889999999***************99...6677888888888765 PP

>> TMF_DNA_bd  TATA element modulatory factor 1 DNA binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.2     0.059        30      33      73 ..      32      72 ..      27      81 .. 0.78
   2 ?    7.7   0.7    0.0067       3.4      40      73 ..     100     137 ..      84     138 .. 0.72

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.059
               TMF_DNA_bd 33 ntikkLrkknkelekeikelkkkleklekeleeleerlkea 73
                              +i  L+++ ++   +  +lkk l++++ ++e+ ++ l+e+
  PHY93_04650|PHY93_04650 32 MIILVLKAQTNHFYHTDIDLKKGLSDVDHKIESTSANLEEK 72
                             56777888888888888888888888888888887777664 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.0067
               TMF_DNA_bd  40 kknkelekeikelk....kkleklekeleeleerlkea 73 
                              +k   l+k+i++l+    k+ e++e ++++l++ lk+ 
  PHY93_04650|PHY93_04650 100 EKFIFLDKKIDQLDykteKRFERVENQIDSLKSDLKRL 137
                              555556677777766666999999*******9999986 PP

>> HMMR_N  Hyaluronan mediated motility receptor N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   4.9   0.00046      0.23     235     320 ..      54     140 ..      13     144 .. 0.64

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00046
                   HMMR_N 235 elsnvseqlekykldiaqleellkek.ndeiesLkssLeekeqelskqvkdlnekckllekekeelvreeeekeqtlsaEleelke 319
                               ls v +++e  + ++++   +++ k +  i ++ ++L+ +  +++++   l++k+++l+ ++e+  ++ e++ ++l++ l+ l  
  PHY93_04650|PHY93_04650  54 GLSDVDHKIESTSANLEEKIKNIDRKlDISIAHIDHKLDTSIAHFEEKFIFLDKKIDQLDYKTEKRFERVENQIDSLKSDLKRLDI 139
                              34444444433333333222222222133566677888888888888888888888888888888888888888888888777765 PP

                   HMMR_N 320 k 320
                              k
  PHY93_04650|PHY93_04650 140 K 140
                              5 PP

>> IL11  Interleukin 11
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   1.8   0.00057      0.29      36     115 ..      54     137 ..      28     146 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00057
                     IL11  36 fpsdvehrlksLP.alsnsasdls...slevkstLsqLhtdlksyekHfdWLkkvskkskhslepklgelisklkrLlkslqll 115
                                sdv+h+++s   +l+++ +++     + + +   +L+t +  +e+ f  L k  ++ ++ +e++++ + +++++L + l++l
  PHY93_04650|PHY93_04650  54 GLSDVDHKIESTSaNLEEKIKNIDrklDISIAHIDHKLDTSIAHFEEKFIFLDKKIDQLDYKTEKRFERVENQIDSLKSDLKRL 137
                              5678888888764257777888763223556677789*****************************************999987 PP

>> Helo_like_N  Fungal N-terminal domain of STAND proteins
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   1.0   0.00048      0.24     148     183 ..      55      90 ..      25     102 .. 0.79
   2 ?    1.7   0.4      0.27   1.4e+02     165     196 ..     101     132 ..      87     142 .. 0.63

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00048
              Helo_like_N 148 leeykeliedttsdLeehLedideklealtekseea 183
                              l++ ++ ie+t+++Lee++++id+kl+  +++ +++
  PHY93_04650|PHY93_04650  55 LSDVDHKIESTSANLEEKIKNIDRKLDISIAHIDHK 90 
                              6677788999***************98777554444 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.27
              Helo_like_N 165 hLedideklealtekseeaseedeaelqrlke 196
                              ++  +d+k+++l  k+e++ e+ e+++++lk 
  PHY93_04650|PHY93_04650 101 KFIFLDKKIDQLDYKTEKRFERVENQIDSLKS 132
                              55556666666666666666666666665554 PP

>> UXS1_N  UDP-glucuronate decarboxylase N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.2   0.00087      0.45       6      68 ..      18      78 ..      13      81 .. 0.69
   2 ?   -1.0   0.0       4.8   2.4e+03      49      72 ..      88     118 ..      84     121 .. 0.55
   3 ?    0.7   0.3       1.3   6.7e+02      47      60 ..     122     135 ..      95     146 .. 0.58

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00087
                   UXS1_N  6 litavnrrrmkl..LlalaliaYvasvwGtfvnmrsiqenGdvKvekkieelvaPlrekirdlek 68
                             ++++v+r ++ +  ++ l l a     + t + +     +G   v++kie+  a l eki+++++
  PHY93_04650|PHY93_04650 18 ILSKVDREMITTeeMIILVLKAQTNHFYHTDIDL----KKGLSDVDHKIESTSANLEEKIKNIDR 78
                             6788888885442255555555555555333333....468888999***************986 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 4.8
                   UXS1_N  49 ekkieelvaPlre.......kirdlekSftq 72 
                              ++k++  +a   e       ki +l++ + +
  PHY93_04650|PHY93_04650  88 DHKLDTSIAHFEEkfifldkKIDQLDYKTEK 118
                              5555555555555444444466666666555 PP

  == domain 3  score: 0.7 bits;  conditional E-value: 1.3
                   UXS1_N  47 KvekkieelvaPlr 60 
                              +ve++i++l + l+
  PHY93_04650|PHY93_04650 122 RVENQIDSLKSDLK 135
                              34444444444433 PP

>> Prefoldin_2  Prefoldin subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.4   0.3     0.069        35      68      93 ..      56      81 ..      44      94 .. 0.58
   2 ?    7.7   0.6    0.0066       3.4      74      94 ..     116     136 ..      87     146 .. 0.50

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.069
                             HHHHHHHHHHHHHHHHHHHHHHHHHH CS
              Prefoldin_2 68 eerketlekeiktlekqleklekele 93
                              +   ++e  +++le++++++ ++l+
  PHY93_04650|PHY93_04650 56 SDVDHKIESTSANLEEKIKNIDRKLD 81
                             44444555555555555555555554 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.0066
                              HHHHHHHHHHHHHHHHHHHHH CS
              Prefoldin_2  74 lekeiktlekqleklekelee 94 
                               ek+ +++e+q+++l+ +l+ 
  PHY93_04650|PHY93_04650 116 TEKRFERVENQIDSLKSDLKR 136
                              334444444444444444444 PP

>> GerPC  Spore germination protein GerPC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.0       4.1   2.1e+03      88     106 ..       8      26 ..       4      49 .. 0.68
   2 ?    5.5   0.1     0.031        16       3      34 ..      61      92 ..      59      94 .. 0.93
   3 ?    7.8   1.4    0.0064       3.3       1      38 [.      95     132 ..      95     138 .. 0.91

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 4.1
                    GerPC  88 eayLeeeapelleelekqy 106
                              +++L+++ +++l+++++++
  PHY93_04650|PHY93_04650   8 DSWLNKKSDDILSKVDREM 26 
                              5566666666666666554 PP

  == domain 2  score: 5.5 bits;  conditional E-value: 0.031
                    GerPC  3 klekqleelqeeleelkkkpatsiekieYkFD 34
                             k+e++ ++l+e+++++  k  +si +i+ k D
  PHY93_04650|PHY93_04650 61 KIESTSANLEEKIKNIDRKLDISIAHIDHKLD 92
                             6899999***********************99 PP

  == domain 3  score: 7.8 bits;  conditional E-value: 0.0064
                    GerPC   1 iqklekqleelqeeleelkkkpatsiekieYkFDqLKv 38 
                              i ++e++   l +++++l  k +++ e++e + D LK 
  PHY93_04650|PHY93_04650  95 IAHFEEKFIFLDKKIDQLDYKTEKRFERVENQIDSLKS 132
                              6788999999**************************95 PP

>> ACCA  Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   0.2       0.1        53      11      41 ..      51      81 ..      23      94 .. 0.58
   2 ?    7.3   0.3    0.0076       3.9       3      49 ..      97     143 ..      95     154 .. 0.87

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.1
                     ACCA 11 leekieelkklaeesevdlseeieklekkle 41
                             l++ ++++++  e+++++l+e+i+++++kl+
  PHY93_04650|PHY93_04650 51 LKKGLSDVDHKIESTSANLEEKIKNIDRKLD 81
                             3333444444444444444444444444444 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.0076
                     ACCA   3 dfekpiaeleekieelkklaeesevdlseeieklekkleklkkeiyk 49 
                               fe++   l++ki++l+  +e++   ++++i++l++ l++l  +i +
  PHY93_04650|PHY93_04650  97 HFEEKFIFLDKKIDQLDYKTEKRFERVENQIDSLKSDLKRLDIKIDN 143
                              68999999*********999999999**********99999887765 PP

>> LMP  LMP repeated region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4  10.3    0.0018      0.92       5      90 ..      51     132 ..      48     143 .. 0.87

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.0018
                      LMP   5 llakLiDnDkeiqkakkeLekeiqkanqalnsnntasmqsakssLdakvteitkkLekFnkdkeakFkeLeqtRkdieeFlkdvkn 90 
                              l++ L+D D++i  +  +Le++i++ +++l      s+  +++ Ld+ ++  ++k +  +k+ ++   + e+  + +e+ ++  k 
  PHY93_04650|PHY93_04650  51 LKKGLSDVDHKIESTSANLEEKIKNIDRKL----DISIAHIDHKLDTSIAHFEEKFIFLDKKIDQLDYKTEKRFERVENQIDSLKS 132
                              8899*********************99999....679999999************9999999998877788888888888877765 PP

>> Fib_alpha  Fibrinogen alpha/beta chain family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   5.7    0.0047       2.4      44     121 ..      55     137 ..      17     146 .. 0.47

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0047
                              CCCCCCHHHH.HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHC....CHHHHHHHHHHHHHHHHHHHHH CS
                Fib_alpha  44 leeisnstke.aeelvkeikdslrekqkskkdndnvikksskeleeeilrlketida....qesnirvLqnvlesneqkiqkL 121
                              l+++ ++ ++ + +l ++ik++ r+   s ++ d+ +  s  + ee+ + l+++id+    +e++ +   n ++s+++++++L
  PHY93_04650|PHY93_04650  55 LSDVDHKIEStSANLEEKIKNIDRKLDISIAHIDHKLDTSIAHFEEKFIFLDKKIDQldykTEKRFERVENQIDSLKSDLKRL 137
                              33333222210222222333333333333333333333333344444444444443211112334444444444444444444 PP

>> DUF4795  Domain of unknown function (DUF4795)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   2.5     0.046        23     119     154 ..      42      85 ..       5      94 .. 0.48
   2 ?   10.0   3.4   0.00091      0.47      11      83 ..      68     143 ..      67     148 .. 0.85

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.046
                  DUF4795 119 q......eelkekld..rlelepLkeqleerlkelqkelqeame 154
                              +       +lk+ l      +e+ + +lee++k++  +l+  ++
  PHY93_04650|PHY93_04650  42 NhfyhtdIDLKKGLSdvDHKIESTSANLEEKIKNIDRKLDISIA 85 
                              13333223344444345555666666666666666666664444 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00091
                  DUF4795  11 klqeaieklqeele.kleekvkelekrledkekklealkkqieelekvkadk.eeveeel.aekadkeaLatkvsr 83 
                              +l+e+i++++++l+ ++    ++l+++++  e+k+  l k+i++l+ + +++ e ve ++ ++k+d + L++k+++
  PHY93_04650|PHY93_04650  68 NLEEKIKNIDRKLDiSIAHIDHKLDTSIAHFEEKFIFLDKKIDQLDYKTEKRfERVENQIdSLKSDLKRLDIKIDN 143
                              577888888888863477888999**********************99999934699999669**********975 PP

>> DUF16  Protein of unknown function DUF16
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   6.8     0.036        18      35      93 ..      72     138 ..      12     148 .. 0.67

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.036
                              HHHHHHHHHH...........HHHHHHHHHHHHHHHHHHHHHHHHHHHHH.......HHHHHHHHHH CS
                    DUF16  35 rLkkieakvd........klgeqinkleqkvekqgekikelkveqkaqgeelnkvdetleliletLq 93 
                              ++k+i+ k+d        kl+ +i++ e+k   +++ki++l  + +++ e+++++ ++l++ l+ L+
  PHY93_04650|PHY93_04650  72 KIKNIDRKLDisiahidhKLDTSIAHFEEKFIFLDKKIDQLDYKTEKRFERVENQIDSLKSDLKRLD 138
                              3333444444666666666777777777777777777777777777777766666555555555443 PP

>> XhlA  Haemolysin XhlA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.5   1.1     0.018       9.5      21      41 ..      60      80 ..      46      85 .. 0.75
   2 ?    4.7   1.5     0.066        34       2      45 ..      69     113 ..      68     116 .. 0.82
   3 ?   10.9   1.7   0.00079       0.4       3      62 ..      99     155 ..      97     161 .. 0.73

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.018
                     XhlA 21 dkleekaaeaeekiknleedl 41
                              k+e  +a+ eekikn+  +l
  PHY93_04650|PHY93_04650 60 HKIESTSANLEEKIKNIDRKL 80
                             478888888888888888777 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.066
                     XhlA   2 ikerlerietkldnleervd.kleekaaeaeekiknleedlkkle 45 
                              ++e+++ i++kld     +d kl+   a +eek + l +++++l 
  PHY93_04650|PHY93_04650  69 LEEKIKNIDRKLDISIAHIDhKLDTSIAHFEEKFIFLDKKIDQLD 113
                              689999999999977774443899999999999999999999885 PP

  == domain 3  score: 10.9 bits;  conditional E-value: 0.00079
                     XhlA   3 kerlerietkldnleervdkleekaaeaeekiknleedlkklesnqkWlirtiiGalisa 62 
                              +e+   +++k+d l+    k e++ +++e++i++l  dlk+l   +   +  +iG+ i++
  PHY93_04650|PHY93_04650  99 EEKFIFLDKKIDQLDY---KTEKRFERVENQIDSLKSDLKRLDIKIDNRFMWMIGITIAM 155
                              6666667899999999...489999***************87666555555555555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (164 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1612  (0.0899102); expected 358.6 (0.02)
Passed bias filter:                      742  (0.0413855); expected 358.6 (0.02)
Passed Vit filter:                       114  (0.00635841); expected 17.9 (0.001)
Passed Fwd filter:                        35  (0.00195214); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              35  [number of targets reported over threshold]
# CPU time: 0.70u 0.26s 00:00:00.96 Elapsed: 00:00:00.43
# Mc/sec: 1133.35
//
Query:       PHY93_04655|PHY93_04655  [L=153]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    7.6e-33  113.7   0.0    8.5e-33  113.5   0.0    1.0  1  SpoU_methylase  SpoU rRNA Methylase family


Domain annotation for each model (and alignments):
>> SpoU_methylase  SpoU rRNA Methylase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  113.5   0.0   4.7e-37   8.5e-33       2     142 .]       4     146 ..       3     146 .. 0.92

  Alignments for each domain:
  == domain 1  score: 113.5 bits;  conditional E-value: 4.7e-37
                              EEEEEES-SSHHHHHHHHHHHHHTT-SEEEEESGSSCTCGSHHHHHHCTTHHHHHHEEEESSHHHHHHHHCCCTEEEEEESTT-SE CS
           SpoU_methylase   2 livvlveiedpgNlGaiaRtakafgaselvlvkprsadllnpeakraaagalevlelkvvdsleealkelkeegfalvatslkgks 87 
                              + +vlv +e+pgN+G+i Rt+ a+++ el+l+kp ++d+ ++ ++ra++++++++++k+++++e++l + k e  +++ +s  +k+
  PHY93_04655|PHY93_04655   4 FKIVLVAPEIPGNTGSIGRTCVALNL-ELILIKPLAFDITEKAVRRAGLDYWKHVNIKTYENFEDFLVNEKPEVEQMFFFSITAKT 88 
                              579***********************.****************************************9999996777888776666 PP

                              GC.CSHHHTTEEEEEEBTTTBS-HHHHCTSS.EEEE---.-TTSSS--HHHHHHHHHH CS
           SpoU_methylase  88 ls.eidlkekvalvfGnEdkGlsnellelad.rlvkIpm.sgeveSLNvavAvailly 142
                              ++ e+++k+ ++l+fG+E+kGl++ +l+ ++ +l+++pm s++++SLN+++A+  ++y
  PHY93_04655|PHY93_04655  89 THfEAKFKKDCYLIFGSETKGLDDHILKDYSeKLITLPMySEHIRSLNLSNAATAAAY 146
                              6669***********************999978******88899********987776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (153 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       451  (0.0251548); expected 358.6 (0.02)
Passed bias filter:                      325  (0.0181271); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.41
# Mc/sec: 1120.49
//
Query:       PHY93_04660|PHY93_04660  [L=508]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   7.3e-108  360.5   0.5   1.2e-107  359.8   0.5    1.3  1  Peptidase_M17    Cytosol aminopeptidase family, catalytic dom
    2.4e-10   40.3   0.4    9.1e-10   38.5   0.2    2.1  2  Peptidase_M17_N  Cytosol aminopeptidase family, N-terminal do
  ------ inclusion threshold ------
       0.32   11.1   3.9          2    8.6   0.0    3.3  3  GCN5L1           GCN5-like protein 1 (GCN5L1)


Domain annotation for each model (and alignments):
>> Peptidase_M17  Cytosol aminopeptidase family, catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  359.8   0.5    2e-111  1.2e-107       2     311 .]     193     504 ..     192     504 .. 0.96

  Alignments for each domain:
  == domain 1  score: 359.8 bits;  conditional E-value: 2e-111
                              HHHHHHHS-TTTS-HHHHHHHHHHHHTCCTEEEEEEEECHHHHHTT-HHHHHHHTTSSSS--EEEEEEEE-SS..TTSEEEEEEEE CS
            Peptidase_M17   2 lardlvntpaneltpeklaeeaeelakeagkvevevldeeeleekgmgallaVgkgSeeepprlveleykgak..ekekklalVGK 85 
                              +ard+vn+ +n+l++e++a+e+e+  k+ ++v+++vl ++el++++mg++l+V++gS + +prlv+l+y++ k  +k+k++alVGK
  PHY93_04660|PHY93_04660 193 VARDFVNEAPNILNSEAYAREIEKDVKNLKHVKIKVLGKAELKKEKMGMFLSVNAGS-AYEPRLVHLTYTPPKatSKTKHIALVGK 277
                              79*******************9995566667**************************.56***********9999999******** PP

                              EEEEEE-TTSS--HHHHTTGGGGGHHHHHHHHHHHHHHHHT-SSEEEEEEEEEEE--STTSTTTTEEEE-TTS-EEEES-TTGCHH CS
            Peptidase_M17  86 GitfDtGGlslKpsasmeemkaDmgGAAavlgalkavaelklpvnvvavlplaeNmisgkavkpgdvitamnGktvevlnTDaEGR 171
                              G+tfDtGG+slKp+asm +mk Dm+G+A+v +a++a+ +l+lpv++++++++++N++++ a+ p+ ++ta+nGktve+lnTDaEGR
  PHY93_04660|PHY93_04660 278 GLTFDTGGYSLKPGASMMNMKFDMAGSATVYAAFRAAVQLQLPVKISCYMGITDNAVNHLATMPDSIVTARNGKTVEILNTDAEGR 363
                              ************************************************************************************** PP

                              HHHHHHHHHHHGCT--SEEEEEE---THHHHHHTTTSEEEEES-HHHHHHHHHHHHHHS-EEEE----HHHGGGG--SSSSEESS- CS
            Peptidase_M17 172 LvLADalayaeekekpdlivdvATLTgavvvalGkkaaglfsnddelaeelekageeagervwrlpleeeykkqlkskvaDlknvg 257
                              LvL+D++ ya+ ++kpd+i+d+ATLTgav valG+++ glfsn+++la++l k+++++ e +w+lp+ +e+k++lk  vaDlkn+g
  PHY93_04660|PHY93_04660 364 LVLGDVVNYAC-DNKPDAIIDAATLTGAVLVALGSEVCGLFSNNQKLADSLLKSAKNTDEYMWQLPIIDEHKNDLKALVADLKNIG 448
                              **********7.67************************************************************************ PP

                              SSSSTHHHHHHHHHHTTSSE.CGEEEEE-TTTTES.BTTB.S....EE--TTHHHHH CS
            Peptidase_M17 258 kkrragaitAalFLkefvke.tpWaHlDiagtalkekealkke..kgatGvgvrtLv 311
                              ++  +g+ + a+F++ fv+  ++WaHlDiag    ++++l++   kga+G  +rtLv
  PHY93_04660|PHY93_04660 449 SNAFGGSAKGAAFVEYFVEPgIAWAHLDIAGIGD-SQGHLPYCspKGASGLIIRTLV 504
                              *9999*************77899********985.4555666689**********96 PP

>> Peptidase_M17_N  Cytosol aminopeptidase family, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.5   0.2   1.5e-13   9.1e-10      19     121 ..      50     150 ..      26     155 .. 0.86
   2 ?   -2.6   0.0      0.78   4.7e+03      45      61 ..     260     278 ..     256     280 .. 0.65

  Alignments for each domain:
  == domain 1  score: 38.5 bits;  conditional E-value: 1.5e-13
          Peptidase_M17_N  19 ealagllsellkegdftGkagevlvlralsgekakrvllVGLGkeeeltaealrkaagaaaralkgakvttiavalp.legknsd. 102
                              ++l+++ +  ++++  +G  ge  +++  sg      l+VGLG++ +lt+e lr+ ++++ +a++g k +++ + l+ +++++++ 
  PHY93_04660|PHY93_04660  50 KELTESFEHSVASKHYKGDCGELFSITMMSGA---TALIVGLGDKTKLTKEILRRQIASTYKAISG-KYEDATLHLDgFMVHGHAe 131
                              56666667777777888888888888888875...6799***************************.******************* PP

          Peptidase_M17_N 103 ekaeaaaegallglYrfdr 121
                              e++ a++e++++++Y fdr
  PHY93_04660|PHY93_04660 132 ESITAMIEALHMAAYTFDR 150
                              ******************8 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 0.78
          Peptidase_M17_N  45 ralsgek..akrvllVGLG 61 
                              +++++    +k ++lVG G
  PHY93_04660|PHY93_04660 260 YTPPKATskTKHIALVGKG 278
                              555533334999****977 PP

>> GCN5L1  GCN5-like protein 1 (GCN5L1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.6      0.22   1.3e+03      49      83 ..      25      59 ..      13      66 .. 0.48
   2 ?    0.7   0.1     0.092   5.5e+02      75     105 ..     192     222 ..     169     228 .. 0.74
   3 ?    8.6   0.0   0.00033         2      19      87 ..     376     447 ..     372     449 .. 0.80

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.22
                   GCN5L1 49 qkklekeakalqanvakfakqtdqWlalvesfnsa 83
                              +++++  k  +++++k+ ++t+   +l+esf+++
  PHY93_04660|PHY93_04660 25 TQEVKASKKVAAKKAEKVLNHTHWSKELTESFEHS 59
                             44444444444444444444433333344444333 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.092
                   GCN5L1  75 alvesfnsalkeiGDvenWaktienDlksit 105
                              +++++f ++  +i + e  a+ ie+D+k+++
  PHY93_04660|PHY93_04660 192 KVARDFVNEAPNILNSEAYAREIEKDVKNLK 222
                              5556666666677777888999999999876 PP

  == domain 3  score: 8.6 bits;  conditional E-value: 0.00033
                   GCN5L1  19 akkeaiesaaaltealvdklnsgvaeayanqkklekeakalqanvakfakq...tdqWlalvesfnsalkei 87 
                              +k +ai  aa lt a++ +l s+v  +++n++kl + + + ++n+++++ q    d+  +  +++  +lk+i
  PHY93_04660|PHY93_04660 376 NKPDAIIDAATLTGAVLVALGSEVCGLFSNNQKLADSLLKSAKNTDEYMWQlpiIDEHKNDLKALVADLKNI 447
                              57789999*****************************99999999999887222355555555555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (508 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       948  (0.0528752); expected 358.6 (0.02)
Passed bias filter:                      588  (0.032796); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.62u 0.23s 00:00:00.85 Elapsed: 00:00:00.42
# Mc/sec: 3657.23
//
Query:       PHY93_04665|PHY93_04665  [L=385]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.3e-64  218.3  16.0    1.4e-64  218.2  16.0    1.0  1  LptF_LptG  Lipopolysaccharide export system permease LptF/Lpt


Domain annotation for each model (and alignments):
>> LptF_LptG  Lipopolysaccharide export system permease LptF/LptG
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  218.2  16.0     8e-69   1.4e-64       1     351 [.       7     379 ..       7     382 .. 0.92

  Alignments for each domain:
  == domain 1  score: 218.2 bits;  conditional E-value: 8e-69
                LptF_LptG   1 rYilreflkpfllvllvllfllllqdllryldllvgkglpvgdllelilynlpyilelalPlavLlavlltfgrLaedsEltalrs 86 
                              rY+ ++f++pf+l+++++++ l+++ ++r+++l+v+kg++++++l++++    ++++la+Pla+++a+++t+++L+edsE++a+rs
  PHY93_04665|PHY93_04665   7 RYLASSFIPPFVLGFVFFVAFLITFYMFRIISLIVNKGVDLMTVLSMVVNLSVSFFPLAAPLAAFFATIYTLNKLSEDSEIIAMRS 92 
                              9************************************************************************************* PP

                LptF_LptG  87 aGislgrllrpililalllsvlsfllnnyvvPwankkaesllseirqkspsllikpgvfikdgdgyiiyvgsmddeggelqdvtiy 172
                              +Gis  r++ p+l+++ll+s  +  l  + +P+an+ +++ + ++ +  + + ik+g+f+ d+++ +++++++ d+g+ +++v+++
  PHY93_04665|PHY93_04665  93 FGISKIRIYMPFLATSLLVSMTVHSLYSVFIPKANAAFKNTIVKLTSAGMLNSIKSGQFFTDIPNATLFAENVTDDGNNFKEVFLH 178
                              ************************************************************************************** PP

                LptF_LptG 173 dltegkgltsiitAksgvlvksad......elqlrLfngeiyevgddekkysretferyridinldpadlsteeespdelsl.sel 251
                                +++k  ++ii A++g+l k  +       l+l+L++g+i+++++++++++++ f++y++ +  + +    +++  d++++ sel
  PHY93_04665|PHY93_04665 179 VIDKNKLEQKIIFAQTGSLIKIYAdawhapSLRLHLNEGNIIKMDEKGTQVEKVLFKEYDFPVFNSDSAMTMLDK--DSMKTnSEL 262
                              ********************988789**********************999999999999999866555555554..555554344 PP

                LptF_LptG 252 ...............kekikalrseglevrryr..aelhkrlalplaclvfaliaaplglvkrrggrglrlliaillfvlyyvlls 320
                                             k+k++a++  +l+ ++yr  +el++r+a    +l+f++++++lg+   rg++g+  l a++++v+yy++ +
  PHY93_04665|PHY93_04665 263 lviidqkrikyqdalKAKMNADQTLELKKTLYRtqVELYSRYAVVPQILLFVFLGFSLGIKRGRGSGGSHSLQAMVILVSYYIVYF 348
                              55555555555555599999999999995555555*************************************************** PP

                LptF_LptG 321 lgkalaengvlppilaawlpnilflllglfl 351
                              ++ +la++ +l p++a   p++l+ll+++ +
  PHY93_04665|PHY93_04665 349 FLISLAQKSTLDPLVANFGPSVLLLLIAFHF 379
                              **************************99755 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (385 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       974  (0.0543254); expected 358.6 (0.02)
Passed bias filter:                      375  (0.0209158); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.25s 00:00:00.79 Elapsed: 00:00:00.43
# Mc/sec: 2699.86
//
Query:       PHY93_04670|PHY93_04670  [L=429]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.7e-20   71.5   0.1    7.5e-20   70.5   0.1    1.5  1  HTH_25    Helix-turn-helix domain
    2.5e-06   27.4   0.3      5e-06   26.4   0.3    1.5  1  HTH_19    Helix-turn-helix domain
    2.7e-05   24.3   0.0    6.2e-05   23.1   0.0    1.6  1  DUF4115   Domain of unknown function (DUF4115)
  ------ inclusion threshold ------
      0.016   15.5   0.0      0.026   14.8   0.0    1.4  1  HTH_31    Helix-turn-helix domain


Domain annotation for each model (and alignments):
>> HTH_25  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.5   0.1   1.7e-23   7.5e-20       2      60 ..      41      99 ..      40     101 .. 0.97

  Alignments for each domain:
  == domain 1  score: 70.5 bits;  conditional E-value: 1.7e-23
                             HHHHHHTTT--HHHHHHHSS--HHHHHHHHCT--TTSS-HHHHHHHHHHHHHHTT--HH CS
                   HTH_25  2 LraaRearglsleevaketkIrkdylealEeddfdalpepvylrgylrnYArlLgldpe 60
                             Lra+Re++gl+l+ ++++tkI++ +le+lE++++++lp+++y+rg++++ A++Lg++ e
  PHY93_04670|PHY93_04670 41 LRAKREEKGLTLKTISQQTKIHMGLLEHLENNELAKLPSKTYVRGFVKSAAKILGINQE 99
                             9*******************************************************875 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.4   0.3   1.1e-09     5e-06       1      60 [.      38     102 ..      38     108 .. 0.86

  Alignments for each domain:
  == domain 1  score: 26.4 bits;  conditional E-value: 1.1e-09
                   HTH_19   1 GerLkeaReelgltqeelaerlgisrskisaiEng.kkdvps....aelllkiaealgidleyll 60 
                              Ge L++ Ree+glt++ ++++++i  + + ++En+   + ps    ++ ++++a++lgi+ e  l
  PHY93_04670|PHY93_04670  38 GELLRAKREEKGLTLKTISQQTKIHMGLLEHLENNeLAKLPSktyvRGFVKSAAKILGINQEVAL 102
                              89*********************************744355566667777**********88555 PP

>> DUF4115  Domain of unknown function (DUF4115)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.1   0.0   1.4e-08   6.2e-05       5      66 ..     293     352 ..     290     358 .. 0.89

  Alignments for each domain:
  == domain 1  score: 23.1 bits;  conditional E-value: 1.4e-08
                  DUF4115   5 atadsWveVrdadGkvlfegtlkaGetkevsgkppltltiGnagavevsvnGkpvdllgyar 66 
                              +++dsW+  + +d k +   +l++G ++ + g+ +++l +Gn + +++ +n++ + l+ +++
  PHY93_04670|PHY93_04670 293 VDGDSWITYK-VDEKEIKKYVLRQGRSVFLRGE-KIRLFVGNTKSIKIFYNNQLIALNTKNG 352
                              579*******.*******************776.88*********************99544 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   0.0   5.9e-06     0.026       2      57 ..      37      97 ..      36     105 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 5.9e-06
                   HTH_31  2 LGalLralReraGLsqeevAerlgvsestlsrlEqGrrg.rpspa....vlealaralgld 57
                             +G+lLra Re+ GL+++   +++ +    l +lE+ +   +ps      ++ ++a +lg  
  PHY93_04670|PHY93_04670 37 IGELLRAKREEKGLTLKTISQQTKIHMGLLEHLENNELAkLPSKTyvrgFVKSAAKILGIN 97
                             79*********************************88875675554444788888877765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (429 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       713  (0.039768); expected 358.6 (0.02)
Passed bias filter:                      422  (0.0235373); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.56u 0.21s 00:00:00.77 Elapsed: 00:00:00.41
# Mc/sec: 3119.70
//
Query:       PHY93_04675|PHY93_04675  [L=289]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.1e-20   69.7  14.9     0.0056   16.7   0.2    6.2  6  TPR_2     Tetratricopeptide repeat
    2.3e-15   55.7  16.6      0.002   17.8   0.3    6.2  6  TPR_1     Tetratricopeptide repeat
    3.9e-13   48.8   9.1    5.9e-05   23.2   0.0    5.3  5  TPR_17    Tetratricopeptide repeat
    4.7e-13   48.2  18.3     0.0024   18.0   0.1    6.2  6  TPR_8     Tetratricopeptide repeat
    2.2e-11   44.2   0.1    8.4e-06   26.3   0.1    3.9  4  TPR_16    Tetratricopeptide repeat
      4e-11   43.2   3.2      0.014   15.9   0.1    4.3  4  TPR_19    Tetratricopeptide repeat
    9.7e-11   41.2   8.7     0.0044   16.7   0.1    5.9  7  TPR_11    TPR repeat
    2.3e-09   37.4   9.4     0.0047   17.2   0.3    4.4  5  TPR_12    Tetratricopeptide repeat
    3.8e-07   30.3  13.0       0.58   10.9   0.2    5.6  5  TPR_6     Tetratricopeptide repeat
    1.1e-06   28.2  10.5      0.013   15.3   0.1    4.9  5  TPR_10    Tetratricopeptide repeat
    7.8e-06   26.3   2.8        5.1    8.2   0.1    5.0  5  TPR_14    Tetratricopeptide repeat
    0.00053   19.8   7.5          3    8.1   0.2    4.9  5  TPR_7     Tetratricopeptide repeat
    0.00062   20.1   3.8       0.21   11.9   0.1    3.9  5  TPR_20    Tetratricopeptide repeat
      0.002   17.5   0.2      0.047   13.2   0.4    2.7  2  SHNi-TPR  SHNi-TPR
     0.0025   17.5   3.9        6.4    6.4   0.1    3.8  4  TPR_21    Tetratricopeptide repeat-like domain
     0.0068   16.2   9.9       0.12   12.1   0.7    3.2  3  YfiO      Outer membrane lipoprotein
  ------ inclusion threshold ------
      0.026   15.1   0.0         46    5.1   0.0    4.2  4  TPR_4     Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.7   0.0   0.00096         1       2      34 .]      44      76 ..      43      76 .. 0.95
   2 !   16.7   0.2   5.3e-06    0.0056       5      34 .]      81     110 ..      77     110 .. 0.92
   3 !   12.3   0.0   0.00013      0.14       3      29 ..     113     139 ..     111     140 .. 0.89
   4 !   11.0   0.8   0.00035      0.37       3      31 ..     149     177 ..     147     180 .. 0.90
   5 !   13.4   0.4   6.1e-05     0.064       2      28 ..     182     208 ..     181     209 .. 0.93
   6 !   12.5   0.0   0.00012      0.13       3      33 ..     218     248 ..     216     249 .. 0.89

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.00096
                    TPR_2  2 ealynlGlayyklgdyeeAleafekAleldPnn 34
                             e++y +G   + +++y +Al  + kA e +P++
  PHY93_04675|PHY93_04675 44 EIYYGQGTNELVKKNYSQALINLVKAKEFNPTD 76
                             789****************************96 PP

  == domain 2  score: 16.7 bits;  conditional E-value: 5.3e-06
                    TPR_2   5 ynlGlayyklgdyeeAleafekAleldPnn 34 
                              +nlG+ayy + ++e A++ + kA+ ld +n
  PHY93_04675|PHY93_04675  81 NNLGMAYYFREQPELAEKELLKAIDLDQKN 110
                              89************************9876 PP

  == domain 3  score: 12.3 bits;  conditional E-value: 0.00013
                    TPR_2   3 alynlGlayyklgdyeeAleafekAle 29 
                              a  nlG +y+++++++eA+  +e +l+
  PHY93_04675|PHY93_04675 113 ARVNLGSIYMEKNRLKEARVQYELVLQ 139
                              5679******************98875 PP

  == domain 4  score: 11.0 bits;  conditional E-value: 0.00035
                    TPR_2   3 alynlGlayyklgdyeeAleafekAleld 31 
                               +ynl+ +++k gd + A e++ k+++  
  PHY93_04675|PHY93_04675 149 NYYNLAILALKEGDRATAFEYLSKSIKER 177
                              59***********************9975 PP

  == domain 5  score: 13.4 bits;  conditional E-value: 6.1e-05
                    TPR_2   2 ealynlGlayyklgdyeeAleafekAl 28 
                              +a++ lG++y++  ++++Al  f+++ 
  PHY93_04675|PHY93_04675 182 QAHFKLGELYFEEYKFKQALTSFQESA 208
                              69**********************976 PP

  == domain 6  score: 12.5 bits;  conditional E-value: 0.00012
                    TPR_2   3 alynlGlayyklgdyeeAleafekAleldPn 33 
                               +y+++la+++l+++ee +  +++     P+
  PHY93_04675|PHY93_04675 218 PHYQQALALMNLNRFEESRIKLKEIMDKFPK 248
                              59******************99998888876 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.6   0.0    0.0017       1.7       2      34 .]      44      76 ..      43      76 .. 0.91
   2 !   17.8   0.3   1.9e-06     0.002       3      34 .]      79     110 ..      77     110 .. 0.94
   3 !   12.9   0.0   7.2e-05     0.076       2      29 ..     112     139 ..     111     139 .. 0.90
   4 !   10.9   0.8   0.00029      0.31       4      32 ..     150     178 ..     148     180 .. 0.92
   5 !    7.9   0.3    0.0026       2.8       2      26 ..     182     206 ..     181     209 .. 0.92
   6 ?    5.0   0.0     0.023        24       4      19 ..     219     234 ..     216     236 .. 0.88

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.0017
                             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTH CS
                    TPR_1  2 kalynlGnayfklgkydeAleyyekALelnPnn 34
                             +++y+ G   + +++y +Al    kA e nP++
  PHY93_04675|PHY93_04675 44 EIYYGQGTNELVKKNYSQALINLVKAKEFNPTD 76
                             679999999999*******************86 PP

  == domain 2  score: 17.8 bits;  conditional E-value: 1.9e-06
                              HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTH CS
                    TPR_1   3 alynlGnayfklgkydeAleyyekALelnPnn 34 
                              + +nlG+ay+  ++++ A++   kA+ l+ +n
  PHY93_04675|PHY93_04675  79 VRNNLGMAYYFREQPELAEKELLKAIDLDQKN 110
                              679**************************987 PP

  == domain 3  score: 12.9 bits;  conditional E-value: 7.2e-05
                              HHHHHHHHHHHHTT-HHHHHHHHHHHHH CS
                    TPR_1   2 kalynlGnayfklgkydeAleyyekALe 29 
                              +a  nlG +y+++++++eA   ye +L+
  PHY93_04675|PHY93_04675 112 DARVNLGSIYMEKNRLKEARVQYELVLQ 139
                              6888****************99998875 PP

  == domain 4  score: 10.9 bits;  conditional E-value: 0.00029
                              HHHHHHHHHHTT-HHHHHHHHHHHHHHST CS
                    TPR_1   4 lynlGnayfklgkydeAleyyekALelnP 32 
                              +ynl+ + +k g+   A ey +k ++ ++
  PHY93_04675|PHY93_04675 150 YYNLAILALKEGDRATAFEYLSKSIKERE 178
                              9***********************99765 PP

  == domain 5  score: 7.9 bits;  conditional E-value: 0.0026
                              HHHHHHHHHHHHTT-HHHHHHHHHH CS
                    TPR_1   2 kalynlGnayfklgkydeAleyyek 26 
                              +a++ lG +yf+  k+++Al  +++
  PHY93_04675|PHY93_04675 182 QAHFKLGELYFEEYKFKQALTSFQE 206
                              699********************98 PP

  == domain 6  score: 5.0 bits;  conditional E-value: 0.023
                              HHHHHHHHHHTT-HHH CS
                    TPR_1   4 lynlGnayfklgkyde 19 
                              +y+ ++a+++l++++e
  PHY93_04675|PHY93_04675 219 HYQQALALMNLNRFEE 234
                              8999999999999998 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.0   1.4e-06    0.0014       7      34 .]      71      98 ..      68      98 .. 0.94
   2 !   23.2   0.0   5.6e-08   5.9e-05       2      33 ..     100     131 ..      99     132 .. 0.96
   3 ?    5.1   0.2     0.034        36      14      32 ..     148     166 ..     145     168 .. 0.84
   4 ?    3.1   0.0      0.15   1.5e+02       4      31 ..     172     199 ..     169     202 .. 0.76
   5 ?   -0.6   0.0       2.2   2.3e+03      16      31 ..     219     234 ..     216     236 .. 0.77

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 1.4e-06
                   TPR_17  7 eldPnnadaynnLAelllknGdlmtArq 34
                             e +P+++ + nnL+ +++ + +++ A++
  PHY93_04675|PHY93_04675 71 EFNPTDSQVRNNLGMAYYFREQPELAEK 98
                             78**********************9985 PP

  == domain 2  score: 23.2 bits;  conditional E-value: 5.6e-08
                   TPR_17   2 ylkaleldPnnadaynnLAelllknGdlmtAr 33 
                              +lka++ld +n+da  nL+ ++ ++++l++Ar
  PHY93_04675|PHY93_04675 100 LLKAIDLDQKNSDARVNLGSIYMEKNRLKEAR 131
                              69****************************98 PP

  == domain 3  score: 5.1 bits;  conditional E-value: 0.034
                   TPR_17  14 daynnLAelllknGdlmtA 32 
                                y+nLA l lk Gd +tA
  PHY93_04675|PHY93_04675 148 RNYYNLAILALKEGDRATA 166
                              67**********9997777 PP

  == domain 4  score: 3.1 bits;  conditional E-value: 0.15
                   TPR_17   4 kaleldPnnadaynnLAelllknGdlmt 31 
                              k+++    +  a++ L+el+ +  ++++
  PHY93_04675|PHY93_04675 172 KSIKEREEYCQAHFKLGELYFEEYKFKQ 199
                              67777778899*********86555555 PP

  == domain 5  score: -0.6 bits;  conditional E-value: 2.2
                   TPR_17  16 ynnLAelllknGdlmt 31 
                              +++ A +l +++++++
  PHY93_04675|PHY93_04675 219 HYQQALALMNLNRFEE 234
                              7888999999998876 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   0.1      0.52   5.5e+02      14      33 ..      56      75 ..      40      76 .. 0.66
   2 !   18.0   0.1   2.2e-06    0.0024       2      34 .]      78     110 ..      77     110 .. 0.94
   3 !   15.5   0.0   1.4e-05     0.015       2      28 ..     112     138 ..     111     139 .. 0.90
   4 !   12.3   0.7   0.00015      0.16       2      31 ..     148     177 ..     147     180 .. 0.90
   5 ?    5.6   0.3      0.02        21       2      27 ..     182     207 ..     182     209 .. 0.90
   6 ?    4.4   0.0     0.051        54       5      21 ..     220     236 ..     218     241 .. 0.90

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.52
                             TT-HHHHHHHHHHHHHHHHH CS
                    TPR_8 14 lgdyeeAkeyyekaleldpd 33
                             +++y +A   + ka e +p+
  PHY93_04675|PHY93_04675 56 KKNYSQALINLVKAKEFNPT 75
                             67777777777777777775 PP

  == domain 2  score: 18.0 bits;  conditional E-value: 2.2e-06
                              CHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH. CS
                    TPR_8   2 eayynlgsiylklgdyeeAkeyyekaleldpdn 34 
                              ++ +nlg++y   ++ e A++ + ka++ld++n
  PHY93_04675|PHY93_04675  78 QVRNNLGMAYYFREQPELAEKELLKAIDLDQKN 110
                              6789**************************986 PP

  == domain 3  score: 15.5 bits;  conditional E-value: 1.4e-05
                              CHHHHHHHHHHHTT-HHHHHHHHHHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeAkeyyekal 28 
                              +a +nlgsiy+++++++eA   ye +l
  PHY93_04675|PHY93_04675 112 DARVNLGSIYMEKNRLKEARVQYELVL 138
                              6789****************9999876 PP

  == domain 4  score: 12.3 bits;  conditional E-value: 0.00015
                              CHHHHHHHHHHHTT-HHHHHHHHHHHHHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeAkeyyekaleld 31 
                              + yynl+ + lk gd   A ey+ k ++ +
  PHY93_04675|PHY93_04675 148 RNYYNLAILALKEGDRATAFEYLSKSIKER 177
                              67************************9965 PP

  == domain 5  score: 5.6 bits;  conditional E-value: 0.02
                              CHHHHHHHHHHHTT-HHHHHHHHHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeAkeyyeka 27 
                              +a+++lg +y++  ++++A  ++++ 
  PHY93_04675|PHY93_04675 182 QAHFKLGELYFEEYKFKQALTSFQES 207
                              589******************99986 PP

  == domain 6  score: 4.4 bits;  conditional E-value: 0.051
                              HHHHHHHHHTT-HHHHH CS
                    TPR_8   5 ynlgsiylklgdyeeAk 21 
                              y+ ++++++l+++ee+ 
  PHY93_04675|PHY93_04675 220 YQQALALMNLNRFEESR 236
                              899***********985 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.0       1.9     2e+03      35      54 ..      44      63 ..      38      76 .. 0.73
   2 !   26.3   0.1   7.9e-09   8.4e-06       2      58 ..      82     136 ..      81     142 .. 0.90
   3 !   10.2   0.0    0.0009      0.95       1      60 [.     151     207 ..     151     216 .. 0.89
   4 ?    2.1   0.0      0.29   3.1e+02       1      27 [.     220     246 ..     220     255 .. 0.75

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 1.9
                   TPR_16 35 eAllllgdaalrqgrlaeAa 54
                             e +++ g   l+++++  A+
  PHY93_04675|PHY93_04675 44 EIYYGQGTNELVKKNYSQAL 63
                             56788888888888887776 PP

  == domain 2  score: 26.3 bits;  conditional E-value: 7.9e-09
                   TPR_16   2 alaraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAa.alyr 58 
                              +l++a++ + +++ A++ l  a+++d     + +A+ +lg ++ +++rl+eA+ ++ +
  PHY93_04675|PHY93_04675  82 NLGMAYYFREQPELAEKELLKAIDLD---QKNSDARVNLGSIYMEKNRLKEARvQYEL 136
                              699***********************...************************55544 PP

  == domain 3  score: 10.2 bits;  conditional E-value: 0.0009
                   TPR_16   1 lalaraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraa 60 
                              ++la +al+ gd + A ++l   +k +    +  +A++ lg+++++   ++ A+  +++ 
  PHY93_04675|PHY93_04675 151 YNLAILALKEGDRATAFEYLSKSIKER---EEYCQAHFKLGELYFEEYKFKQALTSFQES 207
                              799************************...****************99999999555543 PP

  == domain 4  score: 2.1 bits;  conditional E-value: 0.29
                   TPR_16   1 lalaraalragdyddAaaaleaalkrd 27 
                              +++a+a+++++++++ +  l++  +++
  PHY93_04675|PHY93_04675 220 YQQALALMNLNRFEESRIKLKEIMDKF 246
                              789999999999999876666666666 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.8   0.2   0.00024      0.26       5      57 ..      57     109 ..      53     109 .. 0.92
   2 !   15.9   0.1   1.4e-05     0.014      13      47 ..     100     133 ..      98     142 .. 0.86
   3 !   11.0   0.1   0.00043      0.45       1      49 [.     157     205 ..     157     211 .. 0.93
   4 ?    6.5   0.0     0.011        12      32      64 ..     223     254 ..     213     256 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00024
                   TPR_19   5 gdyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeedpd 57 
                              ++y +Al  l +a + +p ++ +r +L  a++   q++ Ae+ L ++ + d++
  PHY93_04675|PHY93_04675  57 KNYSQALINLVKAKEFNPTDSQVRNNLGMAYYFREQPELAEKELLKAIDLDQK 109
                              5789999999999999****************************999999886 PP

  == domain 2  score: 15.9 bits;  conditional E-value: 1.4e-05
                   TPR_19  13 lleqalqedpknaearllLAeallalgqldeAeal 47 
                              ll++ ++ d kn++ar +L  ++++ ++l+eA+  
  PHY93_04675|PHY93_04675 100 LLKA-IDLDQKNSDARVNLGSIYMEKNRLKEARVQ 133
                              4555.799************************975 PP

  == domain 3  score: 11.0 bits;  conditional E-value: 0.00043
                   TPR_19   1 llaegdyaeAlalleqalqedpknaearllLAeallalgqldeAealLd 49 
                              +l+egd a A ++l++ ++e  ++  a   L e++++   +++A    +
  PHY93_04675|PHY93_04675 157 ALKEGDRATAFEYLSKSIKEREEYCQAHFKLGELYFEEYKFKQALTSFQ 205
                              699*****************************************87765 PP

  == domain 4  score: 6.5 bits;  conditional E-value: 0.011
                   TPR_19  32 AeallalgqldeAealLdalpeedpddaryasL 64 
                              A al++l++++e +  L+++++++p+ +r  +L
  PHY93_04675|PHY93_04675 223 ALALMNLNRFEESRIKLKEIMDKFPK-SRFNTL 254
                              678***********************.887766 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.7   0.1   3.6e-05     0.038       8      39 ..      57      88 ..      54      89 .. 0.96
   2 !   16.7   0.1   4.1e-06    0.0044      15      41 ..      98     124 ..      90     125 .. 0.89
   3 !    8.8   0.0    0.0012       1.3       1      18 [.     118     135 ..     118     139 .. 0.91
   4 ?   -1.8   0.0       2.5   2.6e+03      31      38 ..     150     157 ..     146     161 .. 0.70
   5 !    8.2   0.0    0.0019         2      13      40 ..     166     193 ..     156     194 .. 0.81
   6 ?   -3.3   0.0       7.1   7.5e+03       9      19 ..     196     206 ..     196     207 .. 0.76
   7 ?    0.6   0.0      0.45   4.8e+02      16      23 ..     219     226 ..     218     228 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 3.6e-05
                   TPR_11  8 GkyeeAieaYkkAlkldPdnaeayynLGlayy 39
                              +y +A+ ++ kA +++P++  + +nLG ayy
  PHY93_04675|PHY93_04675 57 KNYSQALINLVKAKEFNPTDSQVRNNLGMAYY 88
                             589****************************9 PP

  == domain 2  score: 16.7 bits;  conditional E-value: 4.1e-06
                   TPR_11  15 eaYkkAlkldPdnaeayynLGlayykq 41 
                              +++ kA++ld++n +a  nLG +y+++
  PHY93_04675|PHY93_04675  98 KELLKAIDLDQKNSDARVNLGSIYMEK 124
                              7899********************976 PP

  == domain 3  score: 8.8 bits;  conditional E-value: 0.0012
                   TPR_11   1 GdayyeqGkyeeAieaYk 18 
                              G +y+e+++++eA  +Y+
  PHY93_04675|PHY93_04675 118 GSIYMEKNRLKEARVQYE 135
                              89***************7 PP

  == domain 4  score: -1.8 bits;  conditional E-value: 2.5
                   TPR_11  31 yynLGlay 38 
                              yynL+ + 
  PHY93_04675|PHY93_04675 150 YYNLAILA 157
                              88888654 PP

  == domain 5  score: 8.2 bits;  conditional E-value: 0.0019
                   TPR_11  13 AieaYkkAlkldPdnaeayynLGlayyk 40 
                              A e ++k +k ++++  a+++LG++y++
  PHY93_04675|PHY93_04675 166 AFEYLSKSIKEREEYCQAHFKLGELYFE 193
                              5566778888899999**********96 PP

  == domain 6  score: -3.3 bits;  conditional E-value: 7.1
                   TPR_11   9 kyeeAieaYkk 19 
                              k+++A++++++
  PHY93_04675|PHY93_04675 196 KFKQALTSFQE 206
                              57889988875 PP

  == domain 7  score: 0.6 bits;  conditional E-value: 0.45
                   TPR_11  16 aYkkAlkl 23 
                              +Y++Al+l
  PHY93_04675|PHY93_04675 219 HYQQALAL 226
                              6*****98 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.1   1.7e-05     0.018      26      76 ..      59     108 ..      41     109 .. 0.70
   2 !   17.2   0.3   4.5e-06    0.0047       5      72 ..      79     138 ..      76     139 .. 0.87
   3 !   15.8   0.8   1.2e-05     0.013       5      72 ..     113     174 ..     110     175 .. 0.91
   4 !   16.0   1.2     1e-05     0.011       5      71 ..     149     207 ..     145     210 .. 0.89
   5 ?    1.0   0.0      0.51   5.4e+02       7      28 ..     220     241 ..     217     246 .. 0.66

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 1.7e-05
                   TPR_12  26 lekaleia.rrllGpdhpltattlrnLgrlyralgryeeAlelleealaiae 76 
                              + +al    ++   + +p  +++++nLg++y+ ++++e A++ l +a+++++
  PHY93_04675|PHY93_04675  59 YSQALINLvKAK--EFNPTDSQVRNNLGMAYYFREQPELAEKELLKAIDLDQ 108
                              333333331333..667778999*********************99999987 PP

  == domain 2  score: 17.2 bits;  conditional E-value: 4.5e-06
                   TPR_12   5 alnnlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleeal 72 
                              + nnl+++++ +++ + A++ l ka+++ ++    d      ++ nLg +y + +r++eA+  +e +l
  PHY93_04675|PHY93_04675  79 VRNNLGMAYYFREQPELAEKELLKAIDLDQKN--SD------ARVNLGSIYMEKNRLKEARVQYELVL 138
                              5689*************************876..54......689******9999*****99998665 PP

  == domain 3  score: 15.8 bits;  conditional E-value: 1.2e-05
                   TPR_12   5 alnnlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleeal 72 
                              a +nl++++++  r+ eA+  +e +l+        ++++  + ++nL++l ++ g+ + A e+l +++
  PHY93_04675|PHY93_04675 113 ARVNLGSIYMEKNRLKEARVQYELVLQDL------TYLNQFRNYYNLAILALKEGDRATAFEYLSKSI 174
                              5689*********************8888......4779*************************9986 PP

  == domain 4  score: 16.0 bits;  conditional E-value: 1e-05
                   TPR_12   5 alnnlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleea 71 
                               ++nla + ++ g+ + A+e+l k+   +     +++++++++ + Lg+ly++  ++++Al  ++e+
  PHY93_04675|PHY93_04675 149 NYYNLAILALKEGDRATAFEYLSKS---I-----KEREEYCQAHFKLGELYFEEYKFKQALTSFQES 207
                              478**********************...3.....55667899*********9999**********98 PP

  == domain 5  score: 1.0 bits;  conditional E-value: 0.51
                   TPR_12   7 nnlaavlrrlgrydeAlellek 28 
                              ++ a++l+ l r++e++  l++
  PHY93_04675|PHY93_04675 220 YQQALALMNLNRFEESRIKLKE 241
                              3567777777777777766655 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   0.1      0.66     7e+02       5      24 ..      82     101 ..      82     106 .. 0.71
   2 ?    5.1   0.1     0.039        42       1      28 [.     112     139 ..     112     140 .. 0.91
   3 !    7.2   0.2    0.0082       8.6       3      29 ..     150     176 ..     148     177 .. 0.88
   4 !   10.9   0.2   0.00055      0.58       1      25 [.     182     206 ..     182     208 .. 0.92
   5 !   10.6   0.0    0.0007      0.73       4      33 .]     220     249 ..     219     249 .. 0.97

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.66
                              HHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   5 klalsyrklgdtdkAleale 24 
                              +l+++y+   +++ A + l 
  PHY93_04675|PHY93_04675  82 NLGMAYYFREQPELAEKELL 101
                              599****8549888876555 PP

  == domain 2  score: 5.1 bits;  conditional E-value: 0.039
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   1 dAlyklalsyrklgdtdkAlealerlik 28 
                              dA  +l+  y + ++  +A+  +e +++
  PHY93_04675|PHY93_04675 112 DARVNLGSIYMEKNRLKEARVQYELVLQ 139
                              7999********88*********99886 PP

  == domain 3  score: 7.2 bits;  conditional E-value: 0.0082
                              HHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   3 lyklalsyrklgdtdkAlealerlike 29 
                              +y+la + +k gd ++A e+l + ike
  PHY93_04675|PHY93_04675 150 YYNLAILALKEGDRATAFEYLSKSIKE 176
                              7****9999988*********987765 PP

  == domain 4  score: 10.9 bits;  conditional E-value: 0.00055
                              HHHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   1 dAlyklalsyrklgdtdkAlealer 25 
                              +A +kl+++y++  +  +Al+ +++
  PHY93_04675|PHY93_04675 182 QAHFKLGELYFEEYKFKQALTSFQE 206
                              699*********66********995 PP

  == domain 5  score: 10.6 bits;  conditional E-value: 0.0007
                              HHHHHHHHHHHHHHHHHHHHHHHHHH-TT- CS
                    TPR_6   4 yklalsyrklgdtdkAlealerlikeYPdS 33 
                              y++al++ +l++ ++++  l+++ +++P+S
  PHY93_04675|PHY93_04675 220 YQQALALMNLNRFEESRIKLKEIMDKFPKS 249
                              9********99*****************98 PP

>> TPR_10  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.1   1.3e-05     0.013       5      31 ..      80     106 ..      78     109 .. 0.92
   2 !   11.2   0.1   0.00026      0.27       5      30 ..     114     139 ..     112     141 .. 0.90
   3 ?    3.1   0.4     0.089        94       5      34 ..     150     179 ..     148     184 .. 0.90
   4 ?    1.0   0.0      0.39   4.2e+02       8      28 ..     187     207 ..     186     211 .. 0.89
   5 ?   -0.2   0.0      0.99     1e+03       9      22 ..     223     236 ..     220     237 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 1.3e-05
                   TPR_10   5 lnNLanalrqrgrydeAealleealai 31 
                              +nNL++a++ r + + Ae+ l +a+++
  PHY93_04675|PHY93_04675  80 RNNLGMAYYFREQPELAEKELLKAIDL 106
                              7***********************986 PP

  == domain 2  score: 11.2 bits;  conditional E-value: 0.00026
                   TPR_10   5 lnNLanalrqrgrydeAealleeala 30 
                              + NL+ ++ + +r++eA+  +e +l+
  PHY93_04675|PHY93_04675 114 RVNLGSIYMEKNRLKEARVQYELVLQ 139
                              67*******************98886 PP

  == domain 3  score: 3.1 bits;  conditional E-value: 0.089
                   TPR_10   5 lnNLanalrqrgrydeAealleealairrr 34 
                              + NLa++  + g+++ A ++l +++  r++
  PHY93_04675|PHY93_04675 150 YYNLAILALKEGDRATAFEYLSKSIKEREE 179
                              67*******************999988876 PP

  == domain 4  score: 1.0 bits;  conditional E-value: 0.39
                   TPR_10   8 LanalrqrgrydeAealleea 28 
                              L+ ++++ +++++A+  ++e+
  PHY93_04675|PHY93_04675 187 LGELYFEEYKFKQALTSFQES 207
                              899************998887 PP

  == domain 5  score: -0.2 bits;  conditional E-value: 0.99
                   TPR_10   9 analrqrgrydeAe 22 
                              a al +++r++e++
  PHY93_04675|PHY93_04675 223 ALALMNLNRFEESR 236
                              67889999999875 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.2   0.1    0.0048       5.1       7      42 ..      83     118 ..      78     120 .. 0.91
   2 ?    3.6   0.0      0.15   1.5e+02       3      29 ..     113     139 ..     111     143 .. 0.87
   3 ?    4.4   0.1      0.08        84       4      30 ..     150     176 ..     147     180 .. 0.87
   4 ?    3.1   0.0      0.21   2.2e+02       3      27 ..     183     207 ..     182     215 .. 0.89
   5 ?    5.7   0.0      0.03        31       2      34 ..     217     249 ..     216     257 .. 0.88

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.0048
                   TPR_14   7 laeallalGdpdeAiallrralalaPddaeawllla 42 
                              l+ a++ +++p+ A++ l +a++l+ ++ +a+  l+
  PHY93_04675|PHY93_04675  83 LGMAYYFREQPELAEKELLKAIDLDQKNSDARVNLG 118
                              67789999***********************99997 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.15
                   TPR_14   3 allalaeallalGdpdeAiallrrala 29 
                              a+  l++++++  +++eA+  ++ +l+
  PHY93_04675|PHY93_04675 113 ARVNLGSIYMEKNRLKEARVQYELVLQ 139
                              667799**************9998887 PP

  == domain 3  score: 4.4 bits;  conditional E-value: 0.08
                   TPR_14   4 llalaeallalGdpdeAiallrralal 30 
                              ++ la + l  Gd ++A ++l + ++ 
  PHY93_04675|PHY93_04675 150 YYNLAILALKEGDRATAFEYLSKSIKE 176
                              67899****************999875 PP

  == domain 4  score: 3.1 bits;  conditional E-value: 0.21
                   TPR_14   3 allalaeallalGdpdeAiallrra 27 
                              a+ +l+e++++  ++++A++ +++ 
  PHY93_04675|PHY93_04675 183 AHFKLGELYFEEYKFKQALTSFQES 207
                              7889****************99986 PP

  == domain 5  score: 5.7 bits;  conditional E-value: 0.03
                   TPR_14   2 eallalaeallalGdpdeAiallrralalaPdd 34 
                              + +++ a al++l +++e++  l+++ +++P++
  PHY93_04675|PHY93_04675 217 APHYQQALALMNLNRFEESRIKLKEIMDKFPKS 249
                              568999**************9999999999986 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0       3.8     4e+03       3      31 ..      81     107 ..      81     112 .. 0.61
   2 !    8.1   0.2    0.0028         3       3      29 ..     115     142 ..     113     146 .. 0.88
   3 ?    5.8   0.1     0.016        17       2      24 ..     150     172 ..     150     179 .. 0.86
   4 ?    5.6   0.0     0.018        19       2      26 ..     184     208 ..     183     216 .. 0.85
   5 ?    0.3   0.0      0.88   9.3e+02      21      29 ..     219     227 ..     217     236 .. 0.70

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 3.8
                    TPR_7   3 lnLarlysrlGdyeeAielyeqsLaltkd 31 
                              +nL+ +y  + + e A++ + +  a++ d
  PHY93_04675|PHY93_04675  81 NNLGMAYYFREQPELAEKELLK--AIDLD 107
                              5777776666666666666666..55555 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.0028
                    TPR_7   3 lnLarlysrlGdyeeAielyeqsL.alt 29 
                              +nL+++y + ++ +eA   ye +L  lt
  PHY93_04675|PHY93_04675 115 VNLGSIYMEKNRLKEARVQYELVLqDLT 142
                              69**************999999887776 PP

  == domain 3  score: 5.8 bits;  conditional E-value: 0.016
                    TPR_7   2 LlnLarlysrlGdyeeAielyeq 24 
                              ++nLa l  ++Gd+++A e++ +
  PHY93_04675|PHY93_04675 150 YYNLAILALKEGDRATAFEYLSK 172
                              79***************999877 PP

  == domain 4  score: 5.6 bits;  conditional E-value: 0.018
                    TPR_7   2 LlnLarlysrlGdyeeAielyeqsL 26 
                              ++ L++ly+++ ++++A++ +++s 
  PHY93_04675|PHY93_04675 184 HFKLGELYFEEYKFKQALTSFQESA 208
                              6779*****************9976 PP

  == domain 5  score: 0.3 bits;  conditional E-value: 0.88
                    TPR_7  21 lyeqsLalt 29 
                              +y+q+Lal 
  PHY93_04675|PHY93_04675 219 HYQQALALM 227
                              688877765 PP

>> TPR_20  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.9   0.1    0.0002      0.21       9      61 ..      64     114 ..      56     121 .. 0.82
   2 ?    5.9   0.1     0.015        16      10      42 ..      99     131 ..      98     149 .. 0.86
   3 ?    5.0   0.1     0.029        31      25      55 ..     150     180 ..     144     187 .. 0.87
   4 ?    3.2   0.0      0.11   1.1e+02       9      46 ..     168     205 ..     163     211 .. 0.84
   5 ?   -1.1   0.1       2.4   2.5e+03      25      49 ..     219     243 ..     194     248 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.0002
                   TPR_20   9 aeleaalaanpddldarldlAlallaagryeeAleqLleilkrdrkweddaar 61 
                               +l +a + np+d + r +l  a++ +++ e A ++Ll+ +  d+k +  +ar
  PHY93_04675|PHY93_04675  64 INLVKAKEFNPTDSQVRNNLGMAYYFREQPELAEKELLKAIDLDQKNS--DAR 114
                              566777788******************************998776654..444 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.015
                   TPR_20  10 eleaalaanpddldarldlAlallaagryeeAl 42 
                              el +a+  + ++ dar++l   +++++r +eA 
  PHY93_04675|PHY93_04675  99 ELLKAIDLDQKNSDARVNLGSIYMEKNRLKEAR 131
                              6778899999*******************9995 PP

  == domain 3  score: 5.0 bits;  conditional E-value: 0.029
                   TPR_20  25 rldlAlallaagryeeAleqLleilkrdrkw 55 
                               ++lA + l++g+++ A+e L + +k+  ++
  PHY93_04675|PHY93_04675 150 YYNLAILALKEGDRATAFEYLSKSIKEREEY 180
                              689********************99998877 PP

  == domain 4  score: 3.2 bits;  conditional E-value: 0.11
                   TPR_20   9 aeleaalaanpddldarldlAlallaagryeeAleqLl 46 
                              + l + ++++ +  +a+++l ++++++ + ++Al+ + 
  PHY93_04675|PHY93_04675 168 EYLSKSIKEREEYCQAHFKLGELYFEEYKFKQALTSFQ 205
                              56778888999999*******************98765 PP

  == domain 5  score: -1.1 bits;  conditional E-value: 2.4
                   TPR_20  25 rldlAlallaagryeeAleqLleil 49 
                              +++ Alal+  +r ee+  +L ei+
  PHY93_04675|PHY93_04675 219 HYQQALALMNLNRFEESRIKLKEIM 243
                              5788888888888888877777776 PP

>> SHNi-TPR  SHNi-TPR
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.0      0.36   3.8e+02      16      27 ..      58      69 ..      54      69 .. 0.87
   2 !   13.2   0.4   4.4e-05     0.047       4      27 ..     184     207 ..     181     208 .. 0.92

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.36
                 SHNi-TPR 16 nFpqAveDlrka 27
                             n++qA+ +l ka
  PHY93_04675|PHY93_04675 58 NYSQALINLVKA 69
                             9*****999887 PP

  == domain 2  score: 13.2 bits;  conditional E-value: 4.4e-05
                 SHNi-TPR   4 ydlLGEislEnenFpqAveDlrka 27 
                              + +LGE+ +E  +F+qA++ ++++
  PHY93_04675|PHY93_04675 184 HFKLGELYFEEYKFKQALTSFQES 207
                              779******************997 PP

>> TPR_21  Tetratricopeptide repeat-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.0      0.27   2.9e+02     149     179 ..      39      69 ..      28      85 .. 0.81
   2 !    6.4   0.1    0.0061       6.4     153     177 ..     118     142 ..      82     152 .. 0.81
   3 ?    4.8   0.0     0.019        20      82     140 ..     153     208 ..     148     217 .. 0.70
   4 ?    5.6   0.1     0.011        12      58     128 ..     197     268 ..     193     284 .. 0.76

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.27
                   TPR_21 149 aelrGDilvaqgkldeAraaYqaAlaaleek 179
                              ++ + +i++ qg ++  ++ Y++Al +l + 
  PHY93_04675|PHY93_04675  39 DQKKSEIYYGQGTNELVKKNYSQALINLVKA 69 
                              5567789999999999999999999776554 PP

  == domain 2  score: 6.4 bits;  conditional E-value: 0.0061
                   TPR_21 153 GDilvaqgkldeAraaYqaAlaale 177
                              G i++++++l+eAr  Y+  l++l+
  PHY93_04675|PHY93_04675 118 GSIYMEKNRLKEARVQYELVLQDLT 142
                              99****************9998775 PP

  == domain 3  score: 4.8 bits;  conditional E-value: 0.019
                   TPR_21  82 lAkaaveagdlaaAkaqLewvlekakdeelkalarlRLarvllaekkydeAlktLeakk 140
                              lA  a ++gd a+A + L++ +++ ++   +  a+ +L +++++e k+++Al+  +++ 
  PHY93_04675|PHY93_04675 153 LAILALKEGDRATAFEYLSKSIKEREEY-CQ--AHFKLGELYFEEYKFKQALTSFQESA 208
                              4566777788888888888877776443.33..67788888888888888887776554 PP

  == domain 4  score: 5.6 bits;  conditional E-value: 0.011
                   TPR_21  58 akeaaeeladeyggtaYaala.aLllAkaaveagdlaaAkaqLewvlekakdeelkalarlRLarvllaekk 128
                              +k+a ++++++ +gt  a+ a + ++A a ++ + +++++ +L+++++k ++  +++la  +L ++ ++  +
  PHY93_04675|PHY93_04675 197 FKQALTSFQESAKGTCVAEPApHYQQALALMNLNRFEESRIKLKEIMDKFPKSRFNTLAGFQLKKITAQLHE 268
                              667777777777777777766356778888888888888889999999988888999988888888877544 PP

>> YfiO  Outer membrane lipoprotein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.1   0.7   0.00011      0.12       3      64 ..      41      99 ..      38     135 .. 0.87
   2 ?    1.4   0.8      0.21   2.2e+02       6      63 ..     148     202 ..     145     211 .. 0.71
   3 !    7.4   0.0    0.0032       3.3       9     138 ..     220     264 ..     212     276 .. 0.57

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00011
                             --HHHHHHHHHHHHHHT-HHHHHHHHHHHHHHSTTSTTHHHHHHHHHHHHHHTT-HHHHHHH CS
                     YfiO  3 ktaselYekgqealqkgdyaeAikklealdsryPfspyaeqaqldliyAyykdadyaealas 64
                             k+++ +Y +g+++l k++y++A  +l ++++     p   q++ +l  Ayy +++ + a+++
  PHY93_04675|PHY93_04675 41 KKSEIYYGQGTNELVKKNYSQALINLVKAKEF---NPTDSQVRNNLGMAYYFREQPELAEKE 99
                             45566789**********************95...5567899999******99998888766 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.21
                              HHHHHHHHHHHHHT-HHHHHHHHHHHHHHSTTSTTHHHHHHHHHHHHHHTT-HHHHHH CS
                     YfiO   6 selYekgqealqkgdyaeAikklealdsryPfspyaeqaqldliyAyykdadyaeala 63 
                              +++Y+ +  al++gd a+A ++l++  +     +   qa+ +l   y++++ + +al 
  PHY93_04675|PHY93_04675 148 RNYYNLAILALKEGDRATAFEYLSKSIK---EREEYCQAHFKLGELYFEEYKFKQALT 202
                              578999999********99999976433...234445666666666666666666665 PP

  == domain 3  score: 7.4 bits;  conditional E-value: 0.0032
                              HHHHHHHHHHT-HHHHHHHHHHHHHHSTTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-SSSTTHHHHHHHHHHHHHHHHS CS
                     YfiO   9 YekgqealqkgdyaeAikklealdsryPfspyaeqaqldliyAyykdadyaealasaerFlrlyPthknvdyvlYlrglsalaqar 94 
                              Y+++   ++ + ++e + kl+++ +++P s++ +                                                    
  PHY93_04675|PHY93_04675 220 YQQALALMNLNRFEESRIKLKEIMDKFPKSRFNT---------------------------------------------------- 253
                              5555555555555555556666666666655555.................................................... PP

                              HSCTTTS-THHHHHHHHHHHHHHHHSTTSTTHHHHHHHHHHHHH CS
                     YfiO  95 ellrskrdpesarqafedfkklvekyPdseYaadakkrltelre 138
                                                                a  +l+++  
  PHY93_04675|PHY93_04675 254 ---------------------------------LAGFQLKKITA 264
                              .................................44444444433 PP

>> TPR_4  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.0       1.3   1.3e+03       3      21 ..      79      97 ..      77     100 .. 0.83
   2 ?   -0.4   0.0       2.4   2.6e+03       3      23 ..     113     133 ..     112     135 .. 0.81
   3 ?    5.1   0.0     0.043        46       5      20 ..     151     166 ..     150     166 .. 0.93
   4 ?    2.8   0.0      0.23   2.4e+02       1      20 [.     216     235 ..     216     236 .. 0.88

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 1.3
                    TPR_4  3 allaLArallalGdldeAr 21
                             ++ +L++a++ + +++ A+
  PHY93_04675|PHY93_04675 79 VRNNLGMAYYFREQPELAE 97
                             6789*****9998888775 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 2.4
                    TPR_4   3 allaLArallalGdldeAral 23 
                              a+++L+  + +  +l eAr  
  PHY93_04675|PHY93_04675 113 ARVNLGSIYMEKNRLKEARVQ 133
                              788888888888999999976 PP

  == domain 3  score: 5.1 bits;  conditional E-value: 0.043
                    TPR_4   5 laLArallalGdldeA 20 
                              ++LA ++l  Gd ++A
  PHY93_04675|PHY93_04675 151 YNLAILALKEGDRATA 166
                              89***********998 PP

  == domain 4  score: 2.8 bits;  conditional E-value: 0.23
                    TPR_4   1 arallaLArallalGdldeA 20 
                              ++ ++ +A al  l +++e 
  PHY93_04675|PHY93_04675 216 PAPHYQQALALMNLNRFEES 235
                              678999***********996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (289 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       720  (0.0401584); expected 358.6 (0.02)
Passed bias filter:                      374  (0.0208601); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              17  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1918.42
//
Query:       PHY93_17325|PHY93_17325  [L=448]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.8e-18   66.7   0.1      1e-17   64.3   0.1    2.3  1  OmpA          OmpA family
      3e-06   27.8  13.4       0.13   12.8   0.1    4.5  4  DUF4398       Domain of unknown function (DUF4398)
  ------ inclusion threshold ------
       0.16   12.3   4.3        0.3   11.3   0.8    3.2  3  ABC_tran_CTD  ABC transporter C-terminal domain
       0.63   10.7   3.7        1.3    9.7   0.8    2.9  2  SlyX          SlyX


Domain annotation for each model (and alignments):
>> OmpA  OmpA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.3   0.1   2.2e-21     1e-17      17      95 .]     362     442 ..     346     442 .. 0.90

  Alignments for each domain:
  == domain 1  score: 64.3 bits;  conditional E-value: 2.2e-21
                              HHHHHHHHH.S-S--EEEEE---S---HHHHHHHHHHHHHHHHHHHHH.TTSSGGGEEEEE-TT--------------EE. CS
                     OmpA  17 ldkiaellk.kpeqkitveGhtdaagseernweLSqkRAeaVanylqn.egvppsrisvsgyGaerpitanntaekkarnr 95 
                              l k+ +++k ++++ +++eGhtd+ gse+ n++LS++RA++++n++ +   v+++ri+v g+G+++pi +n+t+e++a+nr
  PHY93_17325|PHY93_17325 362 LGKVQRVVKdFDKNEVVIEGHTDSIGSEAINEKLSKERAQTIKNFFLSiDAVSANRIKVIGRGKQDPIGSNDTPEGRAQNR 442
                              567888888877888*********************************9******************************98 PP

>> DUF4398  Domain of unknown function (DUF4398)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.8   0.1     3e-05      0.13       8      67 ..      51     112 ..      44     116 .. 0.73
   2 !    7.7   0.2    0.0012       5.3      11      49 ..     126     164 ..     117     174 .. 0.89
   3 !   11.6   0.3   7.2e-05      0.32       2      30 ..     186     214 ..     185     273 .. 0.87
   4 ?    2.1   0.6     0.068     3e+02      25      45 ..     309     329 ..     291     334 .. 0.69

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 3e-05
                  DUF4398   8 aaleaAraagaeeyApaeleeAreaLaqAea..amaekdyee.AdhlaylAerdaelAearAk 67 
                               ++++Ar+++ + + p  ++ A+  L+ A++  +++++ + + + h   +A+ + + A + A+
  PHY93_17325|PHY93_17325  51 RDINSARTNQVDILSPRNFKVANSHLEDAKKglDKQKDLK-KeIHHQITMARDYLNNANEAAR 112
                              6899***************************854444444.3555555555555555555554 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.0012
                  DUF4398  11 eaAraagaeeyApaeleeAreaLaqAeaamaekdyeeAd 49 
                              ++A aaga  y ++e+++A e L++  ++ ++k+ ++A+
  PHY93_17325|PHY93_17325 126 QQAVAAGAPVYFSYEFQKADELLQKVTSDLEYKNTQNAK 164
                              89*************************988888888876 PP

  == domain 3  score: 11.6 bits;  conditional E-value: 7.2e-05
                  DUF4398   2 eladAraaleaAraagaeeyApaeleeAr 30 
                              +la+Ar  l +A  +ga +yAp+ le A 
  PHY93_17325|PHY93_17325 186 NLAQARLTLIQAIKDGAKKYAPEKLEIAL 214
                              79***********************9885 PP

  == domain 4  score: 2.1 bits;  conditional E-value: 0.068
                  DUF4398  25 eleeAreaLaqAeaamaekdy 45 
                                ++  ++L+qA+++ + ++ 
  PHY93_17325|PHY93_17325 309 SEKAISDKLEQARRKFTSNEA 329
                              457788999999996544444 PP

>> ABC_tran_CTD  ABC transporter C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0      0.99   4.4e+03       8      21 ..      44      57 ..      41      63 .. 0.78
   2 ?   -0.9   0.1      0.44     2e+03      42      59 ..     140     157 ..     123     180 .. 0.69
   3 ?   11.3   0.8   6.8e-05       0.3       5      29 ..     292     316 ..     290     336 .. 0.77

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.99
             ABC_tran_CTD  8 releeleaeIeaLE 21
                             +e+e l+++I++  
  PHY93_17325|PHY93_17325 44 QEFESLDRDINSAR 57
                             79999999998765 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.44
             ABC_tran_CTD  42 klaelsaeleeleaeLee 59 
                              +++++ + l+++ ++Le 
  PHY93_17325|PHY93_17325 140 EFQKADELLQKVTSDLEY 157
                              455666666666666654 PP

  == domain 3  score: 11.3 bits;  conditional E-value: 6.8e-05
             ABC_tran_CTD   5 keqreleeleaeIeaLEeeiaelea 29 
                              ++q+ +  lea+IeaLE e+a  ++
  PHY93_17325|PHY93_17325 292 NDQKTIRSLEAKIEALESEKAISDK 316
                              579999*************985444 PP

>> SlyX  SlyX
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.4   0.1      0.42   1.9e+03       7      50 ..     209     248 ..     208     265 .. 0.62
   2 ?    9.7   0.8   0.00028       1.3       9      46 ..     273     310 ..     269     329 .. 0.78

  Alignments for each domain:
  == domain 1  score: -0.4 bits;  conditional E-value: 0.42
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-XXX CS
                     SlyX   7 eLEiklafqedtieeLndvvaeqqqqidrlqrqlrllaerlkel 50 
                              +LEi l+   dt+      ++++++++d+++++  +++e +++l
  PHY93_17325|PHY93_17325 209 KLEIALTNYKDTVA----YITNHRHDVDQIHARSLAVNESVNQL 248
                              67777777777764....45666666666666665555555554 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.00028
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT CS
                     SlyX   9 EiklafqedtieeLndvvaeqqqqidrlqrqlrllaer 46 
                              E+     ed+i + + +va+ q++i  l++++++l+ +
  PHY93_17325|PHY93_17325 273 EENKGNFEDQIRTQQSAVANDQKTIRSLEAKIEALESE 310
                              55555669999999999999999999999999999764 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (448 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1861  (0.103798); expected 358.6 (0.02)
Passed bias filter:                      423  (0.0235931); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.67u 0.27s 00:00:00.94 Elapsed: 00:00:00.45
# Mc/sec: 3014.25
//
Query:       PHY93_04680|PHY93_04680  [L=400]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.4e-13   48.4   0.9    2.2e-06   26.9   0.0    3.1  3  tRNA_U5-meth_tr  tRNA (Uracil-5-)-methyltransferase
     0.0069   15.4   0.0     0.0097   14.9   0.0    1.2  1  Omp_AT           Solitary outer membrane autotransporter beta


Domain annotation for each model (and alignments):
>> tRNA_U5-meth_tr  tRNA (Uracil-5-)-methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.4   0.2    0.0017        16       2      42 ..     109     150 ..     108     168 .. 0.83
   2 !   14.3   0.0   1.7e-06     0.015     167     217 ..     222     275 ..     180     284 .. 0.80
   3 !   26.9   0.0   2.4e-10   2.2e-06     286     355 ..     326     397 ..     311     399 .. 0.83

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.0017
          tRNA_U5-meth_tr   2 yeaqleekksrlkkllaefeapelevfes.peehyrlraefr 42 
                              ye++le kk+ l++ l +f    + v+ +  + hyr r +++
  PHY93_04680|PHY93_04680 109 YEKELEYKKQALTRHLFKFPEVPITVHGAtRRLHYRNRIQLH 150
                              999*****************9999*99761567****98775 PP

  == domain 2  score: 14.3 bits;  conditional E-value: 1.7e-06
          tRNA_U5-meth_tr 167 drelvyrqvensftqPnaavnekmleWalevtqes...kgdllelycGnGnfsl 217
                              +r++  ++ ++ ftq n ++nek+ eW+ + +++    k  + +l+ GnGn++ 
  PHY93_04680|PHY93_04680 222 QRSINRHYANGGFTQVNFEMNEKLREWVKKKADQVippKAMVYDLFGGNGNLTA 275
                              578888899*******************998887533367899********985 PP

  == domain 3  score: 26.9 bits;  conditional E-value: 2.4e-10
          tRNA_U5-meth_tr 286 tifvdPPraGldketvklvkky..erilyiscnPetlkenleelsethrverlalfdqfpythhles.Gvlle 355
                               +++dPPr+Gl +   +++ ++  +  +yi+c  ++++ +   + + ++++ + lfd fp t+h+e+ G++ +
  PHY93_04680|PHY93_04680 326 WLVIDPPRSGLKNL-NEFLAEFkpDGFIYIACQATSFARDTLPILKNYELQSIELFDLFPSTQHFETiGIFTR 397
                              5789*******765.556666633689*********99998889999*******************7466655 PP

>> Omp_AT  Solitary outer membrane autotransporter beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.0   1.1e-06    0.0097     151     249 ..     132     229 ..     102     253 .. 0.71

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 1.1e-06
                   Omp_AT 151 lsvgigaqllyyrnkytYnsdvlkslksvlDgllvNts.anAliiepnvklkYeeekdwgkWefisslryaiGqglleadssqdan 235
                              ++v  +++ l+yrn+++ + d+ k+l + lD++l  +   n lii+p++ ++ +     + W  i + +   G+  l a++ +  +
  PHY93_04680|PHY93_04680 132 ITVHGATRRLHYRNRIQLHYDKKKKLLGLLDEQLQIVPvPNCLIIDPSIAFELRALYAENSWLQILAKEPLKGHIELYAKEND--K 215
                              566778889************************987751699*************9999999998888888888766555443..3 PP

                   Omp_AT 236 pevwrlvNtlklhy 249
                               e+  ++ +++ hy
  PHY93_04680|PHY93_04680 216 REGHNVQRSINRHY 229
                              34444444444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (400 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       557  (0.031067); expected 358.6 (0.02)
Passed bias filter:                      478  (0.0266607); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.21s 00:00:00.77 Elapsed: 00:00:00.41
# Mc/sec: 2908.97
//
Query:       PHY93_04685|PHY93_04685  [L=597]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.3e-55  188.0   0.5    2.8e-55  186.9   0.1    1.7  2  GTP_EFTU      Elongation factor Tu GTP binding domain
    2.2e-49  166.0   2.2    4.5e-49  165.1   2.2    1.5  1  LepA_C        GTP-binding protein LepA C-terminus
    1.6e-24   85.8   0.0      6e-24   83.9   0.0    2.1  1  EFG_C         Elongation factor G C-terminus
    4.2e-10   39.9   2.5      1e-09   38.6   2.5    1.7  1  GTP_EFTU_D2   Elongation factor Tu domain 2
    2.1e-06   27.8   0.0    5.8e-06   26.4   0.0    1.8  1  MMR_HSR1      50S ribosome-binding GTPase
    8.3e-06   25.8   0.1    7.4e-05   22.8   0.0    2.5  2  EFG_II        Elongation Factor G, domain II
    0.00025   20.7   0.0    0.00066   19.3   0.0    1.7  1  Ras           Ras family
    0.00065   19.5   0.0     0.0028   17.4   0.1    2.0  2  PduV-EutP     Ethanolamine utilisation - propanediol utilisat
    0.00093   19.2   0.6     0.0024   17.8   0.1    2.0  2  MMR_HSR1_Xtn  C-terminal region of MMR_HSR1 domain
     0.0015   18.0   0.1      0.011   15.1   0.0    2.4  2  SRPRB         Signal recognition particle receptor beta subun
     0.0046   17.2   0.0      0.034   14.4   0.0    2.3  1  Roc           Ras of Complex, Roc, domain of DAPkinase
  ------ inclusion threshold ------
      0.012   15.5   0.2       0.06   13.3   0.1    2.1  2  RsgA_GTPase   RsgA GTPase
      0.018   15.6   0.1      0.045   14.2   0.0    1.7  2  AAA_23        AAA domain
      0.046   13.8   0.0        1.3    9.1   0.0    2.3  2  Dynamin_N     Dynamin family


Domain annotation for each model (and alignments):
>> GTP_EFTU  Elongation factor Tu GTP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  186.9   0.1   2.2e-58   2.8e-55       3     193 ..       6     183 ..       4     184 .. 0.94
   2 ?   -2.5   0.0       2.5   3.2e+03      96     116 ..     207     227 ..     204     236 .. 0.82

  Alignments for each domain:
  == domain 1  score: 186.9 bits;  conditional E-value: 2.2e-58
                              EEEEEEEESTTSSHHHHHHHHHHHTTSSCHHHHHHHHHSTHCHSHHHHHHTSCSSCEEEEEE...TTCSSEEEEEEEESSSGGGHH CS
                 GTP_EFTU   3 irnigiighvDhGKtTLtdrLlyktgaiskkgekaeeervlDtlkeErergiTiksaaisle...ketkkylinliDtPGHvdFsk 85 
                              irn++ii+h+DhGK+TL dr++++t a+s++++   ++r lD+++ ErergiTik++a+ +    +++++y +nliDtPGHvdFs 
  PHY93_04685|PHY93_04685   6 IRNFSIIAHIDHGKSTLADRIMEATFAVSNREK---KDRLLDNMELERERGITIKAQAVRITykaQDGNTYYFNLIDTPGHVDFSY 88 
                              8****************************9544...3589*********************98766******************** PP

                              HHHHHHHT-SEEEEEEETTTBSTHHHHHHHHHHHHTTTEEEEEEESCGSTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTTEEEE CS
                 GTP_EFTU  86 evirglrvlDgavlvvdaveGvepqteevlrlalkegvpiivfiNKmDrlkaelkeiveevkqklsrkeeklekygekgekevpvv 171
                              ev+r+l+ +Dga+lvvda++Gve+qt  ++++a++++++i+ +iNK+D ++a+ +++++ev++ +          g ++      +
  PHY93_04685|PHY93_04685  89 EVSRSLASCDGALLVVDASQGVEAQTLANVYMAIDNNLEIVPVINKIDLPHADPEKVKKEVEDII----------GIDT---SDAC 161
                              **************************************************************777..........4443...478* PP

                              EEBTTTTBTHHHHHHHHHHHSH CS
                 GTP_EFTU 172 fgSalkgegvktllealvellp 193
                               +Sa++g g+++lle++v+++p
  PHY93_04685|PHY93_04685 162 LVSAKSGLGIDELLEVIVKKIP 183
                              *******************998 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 2.5
                              EEEEEEETTTBSTHHHHHHHH CS
                 GTP_EFTU  96 gavlvvdaveGvepqteevlr 116
                              g+v++v +veG + +  +v+ 
  PHY93_04685|PHY93_04685 207 GVVILVRVVEGTMKKKDKVFL 227
                              8999*******9998887765 PP

>> LepA_C  GTP-binding protein LepA C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  165.1   2.2   3.5e-52   4.5e-49       1     107 []     490     596 ..     490     596 .. 0.99

  Alignments for each domain:
  == domain 1  score: 165.1 bits;  conditional E-value: 3.5e-52
                              ESSCB-GGG-EEEETTTHHHHHHHHHHHHHHHS---SS-EEEEEEETTEEEEEEEE----XXXXXXXXXXXXXXXXXXXXXXXXXX CS
                   LepA_C   1 ingekvdaLslivhrskaeergrklvekLkeliprqlfevaiqaaigskviaretikalrkdvlaklyggditrkkKllekqkegk 86 
                              +ng++vdaLs+i+hr+++  +gr+lv+kL++li rq+f+va+qaaig+k++aretikalrk+vlak+yggdi+rk+Kllekqkegk
  PHY93_04685|PHY93_04685 490 LNGDTVDALSIICHRDNSFYKGRDLVQKLQKLIGRQQFDVAVQAAIGAKIVARETIKALRKNVLAKCYGGDISRKRKLLEKQKEGK 575
                              69************************************************************************************ PP

                              XXXXXXXXXXXXXXXXXXXXX CS
                   LepA_C  87 krlkkignveipqeaflavlk 107
                              kr+k++g+ve+pqeaflavlk
  PHY93_04685|PHY93_04685 576 KRMKMVGSVEVPQEAFLAVLK 596
                              *******************97 PP

>> EFG_C  Elongation factor G C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   83.9   0.0   4.7e-27     6e-24       3      88 ..     402     488 ..     400     489 .. 0.97

  Alignments for each domain:
  == domain 1  score: 83.9 bits;  conditional E-value: 4.7e-27
                              EEEEEEEEEEEECCCCCCHHHHHHHCT-EEEEEEEE.TTEEEEEEEEEGGG-T.THHHCHHHCTTTS-EEEEEEEEEEE--HHHHH CS
                    EFG_C   3 lEPivkveievpeeyvgkvisdlssrrGeiedmeqdasgrviieaeiPlaeli.gfateLrslTkGegsfsmefsgYeevpgdkld 87 
                               EP+v++ i++p+eyvg++i+++++rrG+++++++++ +rv + +e+Pl+e++ +f+++L+ lT+G++s+++ef +Y+ ++ +k+d
  PHY93_04685|PHY93_04685 402 SEPMVHLSIHCPNEYVGRMITLCEERRGIQNEIKYITADRVQVIYELPLSEMVfDFYDKLKGLTRGYASMDYEFRDYAVADLVKVD 487
                              6*******************************************************************************999987 PP

                              H CS
                    EFG_C  88 e 88 
                              +
  PHY93_04685|PHY93_04685 488 I 488
                              5 PP

>> GTP_EFTU_D2  Elongation factor Tu domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.6   2.5   7.9e-13     1e-09       1      73 [.     207     276 ..     207     277 .. 0.95

  Alignments for each domain:
  == domain 1  score: 38.6 bits;  conditional E-value: 7.9e-13
                              EEEEEEEEEESEEETTEEEEEECTCTTSEEEEEEEEEEEEETEEESEEETTSEEEEEEEESSCCSGSSTTCEE CS
              GTP_EFTU_D2   1 GtvalgrvysGtlkkGdevrilgndtskkeivtrissletfhededeavaganaGvivaikgledaiivGdtl 73 
                              G+v+l+rv++Gt+kk d+v +  +  + + ++ + +    f  ++de+ ag+++ vi++ik + d + vGdt+
  PHY93_04685|PHY93_04685 207 GVVILVRVVEGTMKKKDKVFL--KNAGMEYEILKLGVNSPFFTEVDELTAGEVGMVICGIKTIRD-VNVGDTI 276
                              89*******************..88866769999999999*************************.******9 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.4   0.0   4.5e-09   5.8e-06       8     114 .]      15     134 ..       8     134 .. 0.60

  Alignments for each domain:
  == domain 1  score: 26.4 bits;  conditional E-value: 4.5e-09
                              TTSSHHHHHHHHHT...............STEEESSSTTSSSSEEEEEEEETTEE.....EEEEECGGCSSHHHHHHHHHHHHHHH CS
                 MMR_HSR1   8 pNvGKStLinaltg...............ekaivsdkpgtTrdinegrvklkgke.....ielvDtpGliegaseekglgkaflal 73 
                                 GKStL  ++++               ++ + +++ g T++ +  r+++k ++     ++l+DtpG ++    + +++++++  
  PHY93_04685|PHY93_04685  15 IDHGKSTLADRIMEatfavsnrekkdrllDNMELERERGITIKAQAVRITYKAQDgntyyFNLIDTPGHVD---FSYEVSRSLA-- 95 
                              567**********844445555544433335666666677777777777644322666779*******655...2223444444.. PP

                              HCTSEEEEEEETTTTCSHHHHHHHHHHHHH..TTSEEEEEEES CS
                 MMR_HSR1  74 eeadlillvvdaseeklkpldeeleellee..akkplilvlnk 114
                               ++d +llvvdas++ +++  ++l+++     ++ +++ v+nk
  PHY93_04685|PHY93_04685  96 -SCDGALLVVDASQG-VEA--QTLANVYMAidNNLEIVPVINK 134
                              .59********9944.533..3444443222244456666665 PP

>> EFG_II  Elongation Factor G, domain II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.8   0.0   5.8e-08   7.4e-05       3      69 ..     294     363 ..     293     368 .. 0.84
   2 ?   -2.6   0.0       4.8   6.2e+03       1      12 [.     401     412 ..     401     415 .. 0.83

  Alignments for each domain:
  == domain 1  score: 22.8 bits;  conditional E-value: 5.8e-08
                   EFG_II   3 ePvislaiepkskadedklskaLarlleEDptlrverdeeTketilsG.....mGelHleivverlkreykv 69 
                              +P++++ i p +++d ++l++aL++l+  D ++++e  +e+   +  G     +G lH++i+ erl+re+++
  PHY93_04685|PHY93_04685 294 KPMVFCGIFPVESTDYENLKDALEKLALNDASFTYE--PESSAALGFGfrcgfLGLLHMNIIQERLEREFNL 363
                              79*******************************986..5666555444233347***************986 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 4.8
                   EFG_II   1 fPePvislaiep 12 
                              ++eP+++l+i+ 
  PHY93_04685|PHY93_04685 401 VSEPMVHLSIHC 412
                              689*******97 PP

>> Ras  Ras family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.3   0.0   5.1e-07   0.00066      30     160 ..      54     182 ..      42     184 .. 0.76

  Alignments for each domain:
  == domain 1  score: 19.3 bits;  conditional E-value: 5.1e-07
                              TTSSEEEEEEEEEET.TEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEETTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETT CS
                      Ras  30 sTigvdfytkeievd.gkevkleiwDTAGqeefkslrelyyrdaegillvyditsresfenvkkwveeikrvaeenvpivLvGnKv 114
                               Ti ++  + + +++ g+++ +++ DT G  +f+   + ++ +++g+llv d ++    +++++ +  i    ++n++iv v nK+
  PHY93_04685|PHY93_04685  54 ITIKAQAVRITYKAQdGNTYYFNLIDTPGHVDFSYEVSRSLASCDGALLVVDASQGVEAQTLANVYMAI----DNNLEIVPVINKI 135
                              4664444444444335999*******************************9988877666666665555....5567799999*** PP

                              TGGG..G-SS-HHHHHHHHHHHTSEEEEEBTTTTCTHHHHHHHHHHHH CS
                      Ras 115 Dlee..kravsteegeelakelglkfletSAktnenveeafeellrei 160
                              Dl +   ++v++ e+e++        + +SAk+  +++e++e ++++i
  PHY93_04685|PHY93_04685 136 DLPHadPEKVKK-EVEDIIGIDTSDACLVSAKSGLGIDELLEVIVKKI 182
                              **9844445544.4566666666777889************9999987 PP

>> PduV-EutP  Ethanolamine utilisation - propanediol utilisation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0       2.6   3.3e+03       6      23 ..      11      28 ..       8      34 .. 0.81
   2 !   17.4   0.1   2.2e-06    0.0028      24     141 ..      61     178 ..      53     180 .. 0.71

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 2.6
                PduV-EutP  6 liGkvgsGKttLtqalkg 23
                             +i +++ GK tL+ ++ +
  PHY93_04685|PHY93_04685 11 IIAHIDHGKSTLADRIME 28
                             5778999*****999876 PP

  == domain 2  score: 17.4 bits;  conditional E-value: 2.2e-06
                PduV-EutP  24 eelkYkktqaiefsdeviDtPGeylenrklysalivtsaeadvialvqdateeesvfppgfasv.fnkeviGiitkidlae.deen 107
                               +++Yk      ++ ++iDtPG    + +++++l  +s++  ++++  +   e +++++ ++++  n e++ +i kidl++ d e+
  PHY93_04685|PHY93_04685  61 VRITYKAQDGNTYYFNLIDTPGHVDFSYEVSRSL--ASCDGALLVVDASQGVEAQTLANVYMAIdNNLEIVPVINKIDLPHaDPEK 144
                              5688888888889999******754444444443..455555555555555577888888877724569**********9525566 PP

                PduV-EutP 108 ieaveelLksaGaekifevsavekegieellkyl 141
                              +++  e +     +    vsa +  gi+ell+++
  PHY93_04685|PHY93_04685 145 VKKEVEDIIGIDTSDACLVSAKSGLGIDELLEVI 178
                              776666666666777899************9876 PP

>> MMR_HSR1_Xtn  C-terminal region of MMR_HSR1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0       4.7     6e+03      28      50 ..      25      47 ..       5      51 .. 0.74
   2 !   17.8   0.1   1.9e-06    0.0024      45     103 ..     115     181 ..     102     183 .. 0.75

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 4.7
             MMR_HSR1_Xtn 28 kihnaevliredvtvDdlidvie 50
                             +i++a+  + ++ + D+l d +e
  PHY93_04685|PHY93_04685 25 RIMEATFAVSNREKKDRLLDNME 47
                             67777777777777777777765 PP

  == domain 2  score: 17.8 bits;  conditional E-value: 1.9e-06
             MMR_HSR1_Xtn  45 lidviegnrvYipclyvlNKiDl..isleeldelare......pnsvviSaekelnldeLkekiwee 103
                              l +v +   + ++ + v+NKiDl  ++ e++++  ++      ++++ +Sa+++l++deL+e i ++
  PHY93_04685|PHY93_04685 115 LANVYMAIDNNLEIVPVINKIDLphADPEKVKKEVEDiigidtSDACLVSAKSGLGIDELLEVIVKK 181
                              55555555555677889******7766666666555457777679*****************99876 PP

>> SRPRB  Signal recognition particle receptor beta subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0   8.9e-06     0.011      29      97 ..      53     117 ..      16     155 .. 0.75
   2 ?   -0.4   0.0      0.51   6.5e+02     132     154 ..     352     374 ..     349     390 .. 0.68

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 8.9e-06
                              --B---SS-EEETTG...GGTT-SEEEETT-GCCSHHHHHHHHHHGGEEEEEEEEETTS-HHHHHHHHH CS
                    SRPRB  29 kktvtSqessaalkvksekgskltliDfPGheklrqklleklkaksslkglvfvvDStidpkevkevAE 97 
                                t  +q+  +++k ++ +   ++liD PGh+ + ++++ +    +s  g + vvD++    e+++ A 
  PHY93_04685|PHY93_04685  53 GITIKAQAVRITYKAQDGNTYYFNLIDTPGHVDFSYEVSRS---LASCDGALLVVDASQ-GVEAQTLAN 117
                              4577788889999999999999***************9998...677888899999763.334444444 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 0.51
                              HHHHHHHHHHHHHHHCHHHHHH- CS
                    SRPRB 132 likdaLEkElnkiierrskalke 154
                              +i++ LE+E n +  + + +++ 
  PHY93_04685|PHY93_04685 352 IIQERLEREFNLLLISTAPSVSY 374
                              79999999999887776665554 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.0   2.6e-05     0.034      10     120 .]      17     137 ..      10     137 .. 0.71

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 2.6e-05
                              SSHHHHHHCHCT-CC.....C-EE........ETTTTEEEEEEECGGSGGCTTBTTTTCEEEEEEEE-SGGCTTTT-HHHHCTSCE CS
                      Roc  10 vGKtsllkrfvedkf.....seke........kstigvdfltkevtkikgvendkkvkkvklniWDtaGqerfrslhplylreaal 82 
                               GK++l++r++e +f     ++k         +   g++++ + v +i+   + ++ +++ +n+ Dt G+ +f+   +  l + + 
  PHY93_04685|PHY93_04685  17 HGKSTLADRIMEATFavsnrEKKDrlldnmelERERGITIKAQAV-RIT--YKAQDGNTYYFNLIDTPGHVDFSYEVSRSLASCDG 99 
                              699999999999999543221111011100012233444443333.232..2456678899*************999999999*** PP

                              EEEEEEGHHHHCHHHHHHHHHHHCSSS-EEEEEE-TTT CS
                      Roc  83 ailvydsrssenlkeWlkelkkvagkspvilvgnkiDl 120
                              a+lv+d+++  ++++  +   +  ++  ++ v+nkiDl
  PHY93_04685|PHY93_04685 100 ALLVVDASQGVEAQTLANVYMAIDNNLEIVPVINKIDL 137
                              ******9999888888888888888999999*****95 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.0         1   1.3e+03     154     160 ..      76      82 ..      17      89 .. 0.47
   2 ?   13.3   0.1   4.7e-05      0.06      12     100 ..      93     181 ..      76     183 .. 0.81

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 1
                              EEESS-S CS
              RsgA_GTPase 154 lliDtPG 160
                               liDtPG
  PHY93_04685|PHY93_04685  76 NLIDTPG 82 
                              3566666 PP

  == domain 2  score: 13.3 bits;  conditional E-value: 4.7e-05
                              TEES--EEEEEEESTTTT--HHHHHHHHHHHHHTT-EEEEEEE-GGG--HHH.HHHHHHHHHHHTT.SEEEE--TTTHTTHHHHHH CS
              RsgA_GTPase  12 kvaNvdqllivvslkepelslnlldrfLvlaeekgiepvivlnKiDlleeee.eleelkeelealg.yevllvsaktkegleelke 95 
                              + a +d +l+vv ++ + ++ ++l  + + a ++++e+v v+nKiDl + +  ++++  e++  ++  + +lvsak++ g++el e
  PHY93_04685|PHY93_04685  93 SLASCDGALLVVDAS-QGVEAQTLANVYM-AIDNNLEIVPVINKIDLPHADPeKVKKEVEDIIGIDtSDACLVSAKSGLGIDELLE 176
                              578899999999999.8888888887655.5578999999*******9877646777777777777357899************99 PP

                              HCTTS CS
              RsgA_GTPase  96 llkdk 100
                              ++ +k
  PHY93_04685|PHY93_04685 177 VIVKK 181
                              88766 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   3.5e-05     0.045      24      97 ..      11      95 ..       8     156 .. 0.79
   2 ?   -2.6   0.1       5.2   6.7e+03     165     174 ..     561     570 ..     489     579 .. 0.50

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 3.5e-05
                   AAA_23 24 ItGpNGaGKTTildAiklaLygetprlsrksgrgfeksdveiesegkvkay.veltfenkdgry............trsiererels 97
                             I+ +   GK+T+ d i  a++  ++r+++  +r + + + e e + + ka+ v++t++ +dg              + s e +r+l+
  PHY93_04685|PHY93_04685 11 IIAHIDHGKSTLADRIMEATFAVSNREKK--DRLLDNMELERERGITIKAQaVRITYKAQDGNTyyfnlidtpghvDFSYEVSRSLA 95
                             6666678****************999988..889999999999999999999*******9997677777777666655555555555 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 5.2
                   AAA_23 165 ledekkllek 174
                              ++ ++kllek
  PHY93_04685|PHY93_04685 561 ISRKRKLLEK 570
                              2222222222 PP

>> Dynamin_N  Dynamin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.0      0.13   1.7e+02       6      26 ..      14      34 ..      10      41 .. 0.83
   2 ?    9.1   0.0     0.001       1.3      87     166 ..      59     134 ..      33     136 .. 0.76

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.13
                             BTTTTHHHHHHHHHTS--S-- CS
                Dynamin_N  6 sqSsGKSSvlnaLlgedilpr 26
                             +  +GKS++++ ++++ + ++
  PHY93_04685|PHY93_04685 14 HIDHGKSTLADRIMEATFAVS 34
                             5679**********9998765 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.001
                              -SS-EEEEEEETTS-SEEEEE---B-SSSGTTSHHHHHHHSTTEEEEEEEETTS-CCC-CHHHHHHHHSTTBTTEEEEEE CS
                Dynamin_N  87 skkvillkilsllvkgltlvDlPGldsvnkrdqelvkeyikkadiilavtsanhdlsnsealflarevdpkgkrtivvlt 166
                              + + i++k ++ +    +l+D+PG  +   +    v + + ++d  l+v++a++ +  +   ++  ++d++ + + v+++
  PHY93_04685|PHY93_04685  59 QAVRITYKAQDGNTYYFNLIDTPGHVDFSYE----VSRSLASCDGALLVVDASQGVEAQTLANVYMAIDNNLEIVPVINK 134
                              3348999999999999********9885544....588899***************999999999999999888777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (597 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       566  (0.031569); expected 358.6 (0.02)
Passed bias filter:                      463  (0.0258241); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.64u 0.26s 00:00:00.90 Elapsed: 00:00:00.43
# Mc/sec: 4195.82
//
Query:       PHY93_04690|PHY93_04690  [L=206]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (206 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       656  (0.0365888); expected 358.6 (0.02)
Passed bias filter:                      514  (0.0286686); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.20s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1530.51
//
Query:       PHY93_04695|PHY93_04695  [L=409]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.3e-26   91.8   6.5    5.3e-26   91.8   6.5    2.0  2  GT87      Glycosyltransferase family 87
  ------ inclusion threshold ------
       0.09   12.5   0.1        0.3   10.9   0.1    1.9  1  DDDD      Putative mitochondrial precursor protein


Domain annotation for each model (and alignments):
>> GT87  Glycosyltransferase family 87
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   91.8   6.5     6e-30   5.3e-26       1     238 [.      64     322 ..      64     323 .. 0.79
   2 ?   -1.4   0.5      0.18   1.6e+03       6      39 ..     337     371 ..     332     407 .. 0.48

  Alignments for each domain:
  == domain 1  score: 91.8 bits;  conditional E-value: 6e-30
                     GT87   1 FtYPPfaallfaplallpyglalalwallnlaalllalrlllrrlgral...asavalalllaalalepvlstlgfGqinllllll 83 
                              F+YPPfaa+lf+pl+++++  a+ l+ ++n+ ++ l+++ +   l+ +    +    ++++  +l ++  ++++ + q+nl++l +
  PHY93_04695|PHY93_04695  64 FIYPPFAAILFLPLSFISFNWATYLFFFINFFLWGLSIKTIDLILAETGvdqKKKNYILMASTFLSFKLCWNNIMMVQVNLVVLSC 149
                              9***********************************9766555544444555555555555689999999**************** PP

                     GT87  84 vlldllllrrrrpllaGlliGlaaaiKltPalfllylllrrrwralaaaaatalvltalpllllp........pssleyfletlfd 161
                               ll+ l+ +r+++  a +++ +a+a K++P++f+ + +lr++ ++++ + ++a+++++lp l+++         +  ++f++ +  
  PHY93_04695|PHY93_04695 150 SLLGILYFLRKKENYAIAFFCVAIATKIFPIFFAFWVILRGSKKTFFKFLLGAIACIVLPSLIVGpskamadiIQYADFFFHKFLG 235
                              ***********************************************************999999999999988889999995555 PP

                     GT87 162 tseriaedvgnqsllslagllaralalgls...a...........vtllwlvl.......vllv.valaavaawrlr.rrerllal 224
                               +e  + ++ nqs   l+g + r++ + ++   +           +              vl   +++++++++r+  r    l+ 
  PHY93_04695|PHY93_04695 236 QREL-TLSYANQS---LSGTIFRLFSTLHDggqPmvtiydfgaetA------KkiyitldVLSFfALIGVFIFRRIKkRSISILEP 311
                              5464.5566****...999999977776632222344445555552......0444444577774555555555555777888888 PP

                     GT87 225 aaallvallalLvs 238
                              a   lv+l+a L s
  PHY93_04695|PHY93_04695 312 A---LVMLVAHLTS 322
                              8...8888776665 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.18
                     GT87   6 faallfaplallp.yglalalwallnlaalllalr 39 
                              faall + l  lp +  a+ +++l   +++ ++ +
  PHY93_04695|PHY93_04695 337 FAALLTVDLKKLPlLLRAFGVFILSYSLLVGVLGQ 371
                              56666666666663333444444444444444433 PP

>> DDDD  Putative mitochondrial precursor protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.1   3.3e-05       0.3      33      67 ..     197     229 ..     187     232 .. 0.86

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 3.3e-05
                     DDDD  33 pFgLlrvilvVipgllvGtliSknvAnlLeendlF 67 
                              +F L ++ ++V+p l+vG   Sk +A ++++ d F
  PHY93_04695|PHY93_04695 197 KFLLGAIACIVLPSLIVGP--SKAMADIIQYADFF 229
                              566679************7..9***********99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (409 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1026  (0.0572257); expected 358.6 (0.02)
Passed bias filter:                      329  (0.0183502); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.63u 0.22s 00:00:00.85 Elapsed: 00:00:00.45
# Mc/sec: 2757.65
//
Query:       PHY93_04700|PHY93_04700  [L=279]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.5e-11   42.2   0.3    1.3e-10   41.6   0.3    1.3  1  Methyltransf_21  Methyltransferase FkbM domain
    4.8e-06   26.1   0.6    5.7e-06   25.8   0.6    1.1  1  V_cholerae_RfbT  Vibrio cholerae RfbT protein
  ------ inclusion threshold ------
      0.049   13.2   0.0       0.13   11.8   0.0    1.6  2  MTS              Methyltransferase small domain


Domain annotation for each model (and alignments):
>> Methyltransf_21  Methyltransferase FkbM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.6   0.3   2.1e-14   1.3e-10       1     150 [.      84     226 ..      84     247 .. 0.76

  Alignments for each domain:
  == domain 1  score: 41.6 bits;  conditional E-value: 2.1e-14
          Methyltransf_21   1 dvGanigvwdsfanltarlcggggevlaiEPvpnslpkfeklranlltlavgndvglyelivegksg...gkyfpfavgdtngfst 83 
                              dvGanig ++ f+ ++     + ++++++EP      +   l+     +a  n++ ++eli +g s+   ++   f +  ++g+s+
  PHY93_04700|PHY93_04700  84 DVGANIGLISLFVSKF----FPVAQIYSFEPGEV---THHCLDLS---IA-KNKIKNIELIKKGLSNqvsEGVSFFIDPTSTGGSS 158
                              9******888888655....68*********988...77777555...66.55777788888888888766666677777777777 PP

          Methyltransf_21  84 ssvlggedaryievp...vvtldsfleeikksridllkiDvEGaElevLeGaqkglkrcqpnlivvEvhk 150
                                + +++d+++++++    +tld+f  e  k +++l+kiDvE aE +vLe a ++++++ p  i vE + 
  PHY93_04700|PHY93_04700 159 LVIDKNKDNSQRPIEkilLTTLDTFVNEK-KIVPTLIKIDVEDAEEMVLEKAVETIEKYHPVFI-VESNN 226
                              75555555555555511157788887776.88999**************99************9.99876 PP

>> V_cholerae_RfbT  Vibrio cholerae RfbT protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.8   0.6   9.6e-10   5.7e-06      67     219 ..      66     218 ..      29     254 .. 0.85

  Alignments for each domain:
  == domain 1  score: 25.8 bits;  conditional E-value: 9.6e-10
          V_cholerae_RfbT  67 lgmrhwivnhckhdttyidiganvgtfcgiaarhitqgkiiaiepltemensirmnvqlnn.plvefhhfgcaigenegenifevy 151
                                ++  i++h + d  ++d+gan+g +    +++    +i + ep       + + +  n+   +e+ + g +    eg   f + 
  PHY93_04700|PHY93_04700  66 ENLKSEIIQHFRADGVFVDVGANIGLISLFVSKFFPVAQIYSFEPGEVTHHCLDLSIAKNKiKNIELIKKGLSNQVSEGVSFF-ID 150
                              5677889**************************************99999999999988862468999999999999998866.67 PP

          V_cholerae_RfbT 152 efdnrvsslyfkkntdiadkvknsqvlvrklssldisptnsvvikidaegaeieilnqiyeftekhng 219
                                    ssl ++kn d +++  +  +l    + ++       +ikid e ae  +l++  e  ek+  
  PHY93_04700|PHY93_04700 151 PTSTGGSSLVIDKNKDNSQRPIEKILLTTLDTFVNEKKIVPTLIKIDVEDAEEMVLEKAVETIEKYHP 218
                              788899**********999877655544444445666667779*********************9875 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   2.1e-05      0.13      26      94 ..      75     142 ..      66     149 .. 0.85
   2 ?   -2.9   0.0      0.72   4.3e+03      62      79 ..     200     217 ..     192     244 .. 0.51

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 2.1e-05
                              HCHCCTCSEEEEET-TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHTTGC.EEEEE-STTTTST CS
                      MTS  26 tlpkelsgkvlDlGcGaGvlgaalakespeaevtlvdvdarAlesakenleankle.vevvasdvleeve 94 
                              ++ +  +g  +D+G+ +G++++ + k+ p a++  ++      ++    +++nk++ +e++++ + ++v+
  PHY93_04700|PHY93_04700  75 HFRA--DGVFVDVGANIGLISLFVSKFFPVAQIYSFEPGEVTHHCLDLSIAKNKIKnIELIKKGLSNQVS 142
                              4444..6779***************************999999999999999999999999888888877 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 0.72
                              ESBHHHHHHHHHHHHHTT CS
                      MTS  62 dvdarAlesakenleank 79 
                              d++ + le a e++e+ +
  PHY93_04700|PHY93_04700 200 DAEEMVLEKAVETIEKYH 217
                              444444444444444333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (279 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       541  (0.0301746); expected 358.6 (0.02)
Passed bias filter:                      339  (0.0189079); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.42
# Mc/sec: 2012.87
//
Query:       PHY93_04705|PHY93_04705  [L=249]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.9e-18   65.8   0.0    6.5e-18   65.1   0.0    1.4  1  Glycos_transf_2  Glycosyl transferase family 2
    1.5e-05   25.4   0.0    4.8e-05   23.8   0.0    1.8  1  Glyco_tranf_2_4  Glycosyl transferase family 2
    0.00021   21.2   0.0    0.00052   20.0   0.0    1.6  2  Glyco_tranf_2_3  Glycosyltransferase like family 2
     0.0087   15.6   0.2      0.015   14.8   0.2    1.4  1  Glyco_tranf_2_2  Glycosyltransferase like family 2


Domain annotation for each model (and alignments):
>> Glycos_transf_2  Glycosyl transferase family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.1   0.0   1.4e-21   6.5e-18       1     100 [.       5      94 ..       5     115 .. 0.94

  Alignments for each domain:
  == domain 1  score: 65.1 bits;  conditional E-value: 1.4e-21
                              EEEEEESS-TTTHHHHHHHHHHHGGCCEEEEEEEEES-SSCHHHHHGGGCHC-TTEEEEEESSS-HHHHHHHHHHHH--SSEEEEE CS
          Glycos_transf_2   1 svviptyNeektlletlesllaqdpypdfeiivvDDgStDetveileelakedprvrvirreenvGkagalnaglraatgdyilfl 86 
                              svvi+t Neek++ ++l+s++       +e++vvD  StD+t+ei+e++     + r++ ++   G++   n + + a+ dy+l l
  PHY93_04705|PHY93_04705   5 SVVIITLNEEKNIGRCLKSVAGL----ADEVVVVDSFSTDKTKEICESY-----GARFVEQKFL-GYQDQKNFAHQLAQYDYVLSL 80 
                              8**********************....**********************.....99***99965.********************* PP

                              ESSEEE-TTHHHHH CS
          Glycos_transf_2  87 DaDdepdpdwlekl 100
                              DaD + +p+  e++
  PHY93_04705|PHY93_04705  81 DADEALSPELYEEI 94 
                              ********987765 PP

>> Glyco_tranf_2_4  Glycosyl transferase family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.8   0.0   1.1e-08   4.8e-05       2      85 ..      12      87 ..      11      97 .. 0.80

  Alignments for each domain:
  == domain 1  score: 23.8 bits;  conditional E-value: 1.1e-08
          Glyco_tranf_2_4  2 neadiLpeflahhlalgfdrilvydndstDgtrailkelpevkllhvdksyederrqvellkallaryaeadwvlvvDaDEflv 85
                             ne++ ++++l+    l +d+++v+d  stD+t +i++++ +  + +    y+    q +  +    + a+ d+vl +DaDE l 
  PHY93_04705|PHY93_04705 12 NEEKNIGRCLKSVAGL-ADEVVVVDSFSTDKTKEICESYGARFVEQKFLGYQ---DQKNFAH----QLAQYDYVLSLDADEALS 87
                             89999***********.*********************86666665555554...3444444....44466**********885 PP

>> Glyco_tranf_2_3  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.0   0.0   1.2e-07   0.00052       4     105 ..       4      91 ..       3     118 .. 0.84
   2 ?   -2.7   0.0      0.96   4.3e+03     169     205 ..     195     231 ..     193     235 .. 0.70

  Alignments for each domain:
  == domain 1  score: 20.0 bits;  conditional E-value: 1.2e-07
          Glyco_tranf_2_3   4 lavlVptfneedvlgevlesllaqeyprvevvvvvdesdaetlevaeelaaalpdvrvrvvvnarnlgstgksralnealravksd 89 
                              l+v++ t+nee+ +g++l s++     ++evvvv+  s+++t e +e     +++   r v  ++   + g+ +  n a + +++d
  PHY93_04705|PHY93_04705   4 LSVVIITLNEEKNIGRCLKSVAG---LADEVVVVDSFSTDKTKEICES----YGA---RFV-EQK---FLGYQDQKNFAHQLAQYD 75 
                              89*******************98...58******************87....544...555.445...44566666677777899* PP

          Glyco_tranf_2_3  90 lvllvDdDtvvePdtl 105
                              +vl +D+D  ++P++ 
  PHY93_04705|PHY93_04705  76 YVLSLDADEALSPELY 91 
                              *************975 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 0.96
          Glyco_tranf_2_3 169 revlkelegldplflltdDyelglrlrr..agfrtayvp 205
                              ++v+k    ++p+f ++ Dy+l l +    +gf ++y +
  PHY93_04705|PHY93_04705 195 ASVVKLV--TRPPFQFFKDYFLKLGILDgrYGFVICYIN 231
                              6666666..455799999999988877655777777755 PP

>> Glyco_tranf_2_2  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.2   3.4e-06     0.015       1     106 [.       5      98 ..       5     104 .. 0.83

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 3.4e-06
          Glyco_tranf_2_2   1 svviplraseerhyieervlqkakyydeeielivvddgSsekfleevssiidlnllvylkdeddkayslaaarNrGaskaesdlvl 86 
                              svvi   ++e++  i   ++  a       e++vvd  S++k     + i++  +  +    ++k  +    +N   + a+ d+vl
  PHY93_04705|PHY93_04705   5 SVVIITLNEEKN--IGRCLKSVAGL---ADEVVVVDSFSTDK----TKEICESYGARF---VEQKFLGYQDQKNFAHQLAQYDYVL 78 
                              677777777777..76666666666...668***********....678888888888...45678999999************** PP

          Glyco_tranf_2_2  87 FlDaDcfissDkfekilkli 106
                               lDaD   s++ +e i kl 
  PHY93_04705|PHY93_04705  79 SLDADEALSPELYEEIKKLK 98 
                              **************999964 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (249 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       603  (0.0336327); expected 358.6 (0.02)
Passed bias filter:                      478  (0.0266607); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.64u 0.27s 00:00:00.91 Elapsed: 00:00:00.57
# Mc/sec: 1306.54
//
Query:       PHY93_04710|PHY93_04710  [L=321]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-33  117.1  20.8    1.4e-33  116.8  20.8    1.0  1  LPG_synthase_TM  Lysylphosphatidylglycerol synthase TM region


Domain annotation for each model (and alignments):
>> LPG_synthase_TM  Lysylphosphatidylglycerol synthase TM region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  116.8  20.8   7.6e-38   1.4e-33       1     282 [.       4     289 ..       4     301 .. 0.82

  Alignments for each domain:
  == domain 1  score: 116.8 bits;  conditional E-value: 7.6e-38
          LPG_synthase_TM   1 illglalsalllall..lrgvdlaalaaalrsldpwwlllalllallsvllralrWrlllrsl.garislrrllrayliglfvnnv 83 
                              ill+++++++ll++l    ++dl+ + ++++    w++++ l++++++  l+a+r++lll++  +++++++++lr+++iglf+++v
  PHY93_04710|PHY93_04710   4 ILLKFVFAIALLYWLitSGKLDLSLVMKSFEVGPQWFMAFLLIIIIVA--LGAYRYKLLLETKsQKTLRFFDVLRLNYIGLFFSSV 87 
                              7899****999999998899**********998766666666655555..99*********999********************** PP

          LPG_synthase_TM  84 tPgalgGevvrayllkr.kegvslskalasvvverlldllalvllgl.lallllggllaegaa.....vllllalallllavlall 162
                              +Pga+ G++++++++k+ ++g + +  +++++++r+++l++l++l + ++l+++++     +       l l++++ ++l++  l+
  PHY93_04710|PHY93_04710  88 LPGAVTGDLIKLVYIKKlDQGFTKTFLVTVTLLDRIIGLAGLLFLAGgFSLIYFSEVTVLSPKiahviQLNLFLFGGTILFLGTLI 173
                              *****************8888888889999999********988765055555555544444476665555556666666666666 PP

          LPG_synthase_TM 163 lllllrrrlarlarvlkrlarllarfarklasakrklvlasprrlllafllslliwllealtlylll.ralgvdvslallllilla 247
                                + ++++ ++l + ++ +  +++++ ++l       ++++++ l+  flls+l+  l +l+++ +   ++  +++l  +++ +++
  PHY93_04710|PHY93_04710 174 SPYKFQKMIVNLIKKIPFIGKKISELLDHLF-----ALRENRKDLINCFLLSILTQFLSILAFWTISsPFYSGHLPLQYAFTFIPV 254
                              6666666666666666666666666665554.....5789*************************994578899************ PP

          LPG_synthase_TM 248 ltlvgalpplPgGlGvrEaalalllallGvsaaea 282
                               ++++a+p++PgGlGv ++++a l++ + ++ ++ 
  PHY93_04710|PHY93_04710 255 GLIATAVPISPGGLGVGHVLFANLFSFVNIDNGAS 289
                              **************************988877665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (321 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       799  (0.0445647); expected 358.6 (0.02)
Passed bias filter:                      377  (0.0210274); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.43
# Mc/sec: 2220.59
//
Query:       PHY93_04715|PHY93_04715  [L=438]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.2e-65  219.7   0.1    3.4e-65  219.2   0.1    1.3  1  UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family,
    1.2e-38  131.2   0.0    2.9e-38  129.9   0.0    1.7  1  UDPG_MGDP_dh    UDP-glucose/GDP-mannose dehydrogenase family,
    5.3e-26   91.1   0.0    1.6e-25   89.5   0.0    1.8  1  UDPG_MGDP_dh_C  UDP-glucose/GDP-mannose dehydrogenase family,
    1.4e-05   24.5   0.2      0.037   13.3   0.1    2.5  2  Pyr_redox_2     Pyridine nucleotide-disulphide oxidoreductase
    2.5e-05   23.7   0.0     0.0036   16.6   0.0    2.3  2  AlaDh_PNT_C     Alanine dehydrogenase/PNT, C-terminal domain
    7.8e-05   22.6   0.0     0.0017   18.3   0.0    2.7  2  3HCDH_N         3-hydroxyacyl-CoA dehydrogenase, NAD binding 
    0.00025   21.5   0.3     0.0029   18.1   0.0    2.9  4  Pyr_redox       Pyridine nucleotide-disulphide oxidoreductase
    0.00029   21.0   0.0      0.024   14.8   0.0    3.2  3  NAD_binding_2   NAD binding domain of 6-phosphogluconate dehy
  ------ inclusion threshold ------
      0.027   14.1   0.0      0.054   13.1   0.0    1.6  1  ApbA            Ketopantoate reductase PanE/ApbA


Domain annotation for each model (and alignments):
>> UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  219.2   0.1   1.7e-68   3.4e-65       1     187 []       1     181 [.       1     181 [. 0.94

  Alignments for each domain:
  == domain 1  score: 219.2 bits;  conditional E-value: 1.7e-68
                              SEEEEE--STTHHHHHHHHHHCTSEEEEE-S-HHHHHHHCTTS-SS--TTHHHHHHHHCHTTTEEEES-HHHHHHC-SEEEE---- CS
           UDPG_MGDP_dh_N   1 mkisviGlGYvGlvtaavlaeighevigvDideekvdklnsgkipiyepgLeelvkkavesgrlsfttdvekaveeadvifiaVgT 86 
                              mk+sviG+GYvGlv+++++aeighev+++Did +k+++l+sgk+piyepgL+el++++++s+rl+f++++++ v+ea  if+aVgT
  PHY93_04715|PHY93_04715   1 MKVSVIGTGYVGLVSGTCFAEIGHEVTCIDIDPKKIEMLKSGKSPIYEPGLSELIERNIKSERLHFSLSYDS-VKEAKSIFLAVGT 85 
                              89*********************************************************************9.************* PP

                              -B-TTTTCB-THHHHHHHHHHHHHHHCEEEEEE-S---TTHHHHCHHHHHHHHCSS-TTCEEEEE------TTSHHHHHHS-S-EE CS
           UDPG_MGDP_dh_N  87 PskkkgkaaDlkyvesaarsiaealkkgkvvvvkSTvpvgtaeelvkkileeaskkkgvdfdvvsnPEflregsavkdllnpdrvv 172
                              Ps + +  aDl+y+++aa ++a+ + ++ ++v+kSTvpvgt++el k +++e+ +   ++f++v nPEfl+egsav+d+++pdrv+
  PHY93_04715|PHY93_04715  86 PSAD-DGRADLTYLKAAAIEVAKNIAEDAIIVIKSTVPVGTNNELRK-LIAEHTT---KKFHLVNNPEFLKEGSAVEDFMRPDRVI 166
                              ****.6666*********************************96665.5555554...36************************** PP

                              EEESSCHHHHHHHHH CS
           UDPG_MGDP_dh_N 173 iGveekkaeaaleel 187
                              iG+++ +a +++eel
  PHY93_04715|PHY93_04715 167 IGHQDPEAFQVMEEL 181
                              *******99999886 PP

>> UDPG_MGDP_dh  UDP-glucose/GDP-mannose dehydrogenase family, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  129.9   0.0   1.5e-41   2.9e-38       2      93 ..     199     290 ..     198     291 .. 0.99

  Alignments for each domain:
  == domain 1  score: 129.9 bits;  conditional E-value: 1.5e-41
             UDPG_MGDP_dh   2 tAEliKlaaNaflatkIsfiNelanlcealgidveeVieavgldprigpkflkpglGvGGsclpkDvkaLvalaeelgleaellea 87 
                              +AE++K+aaN+flatkIsfiNe+a+lc+a+ +d+eeV++++++d+rig +fl+pg+G+GGsc+pkDvkaL+a+ae++g+e+++++a
  PHY93_04715|PHY93_04715 199 SAEMSKYAANCFLATKISFINEIARLCDATHADIEEVRKGISSDKRIGGHFLYPGPGYGGSCFPKDVKALIATAEDYGMELKIVNA 284
                              7************************************************************************************* PP

             UDPG_MGDP_dh  88 vrevNe 93 
                              ++ vN+
  PHY93_04715|PHY93_04715 285 TELVND 290
                              *****8 PP

>> UDPG_MGDP_dh_C  UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   89.5   0.0     8e-29   1.6e-25       3     104 ..     316     421 ..     314     422 .. 0.97

  Alignments for each domain:
  == domain 1  score: 89.5 bits;  conditional E-value: 8e-29
                              E-SSSSTT-S--TT-HHHHHHHHHHHCTSEEEEE-SSTHHCCCCHHGG....BTCCEEES-CHHHHTT-SEEEE-S--GGGGGS-H CS
           UDPG_MGDP_dh_C   3 lGlafKkdtdDlReSpaldiieeLleegaevkiyDPkvkeeaveaele....ekgvevvdsleealkgadaiviltehdefkeldl 84 
                              +G+afK++tdD+Re++a++++ eL +ega ++ +DP+++e+ ++  ++    e ++++ ++ +++l+g+d +v +te++ef+  d+
  PHY93_04715|PHY93_04715 316 WGVAFKANTDDVREASAITMAIELIKEGATIHFFDPVASENFMKVMKDypecEGKIKSFNNKYDCLNGSDGLVTMTEWREFRVPDF 401
                              9*****************************************999888****99******************************** PP

                              HHHHHCCSS-EEEESSS-CC CS
           UDPG_MGDP_dh_C  85 aklkelmkpavvfDgrnvld 104
                              +++k+++k++v+fDgrn+++
  PHY93_04715|PHY93_04715 402 NEVKSRLKTNVIFDGRNLYE 421
                              *****************986 PP

>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.1   1.9e-05     0.037     144     190 ..       2      48 ..       1     112 [. 0.82
   2 !    9.0   0.0   0.00036      0.72      24      89 ..     335     400 ..     322     428 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.9e-05
                              EEEEES-SHHHHHHHHHHHHHT-EEEEEESSSSSSTTS-HHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 144 rivvvGgGyiGvElAaalaklgkevtlveardrllraldkelsaale 190
                              ++ v+G Gy+G++    +a++g+evt ++  ++  ++l++  s ++e
  PHY93_04715|PHY93_04715   2 KVSVIGTGYVGLVSGTCFAEIGHEVTCIDIDPKKIEMLKSGKSPIYE 48 
                              578***********************999888877666665555554 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.00036
                              S-EEEEETTHCHHHCSHHHHCHHHHHHHHHHHHHHHHHCHHHHCCCCHCCTCEEEEESCEEEEETE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2  24 akvtlvelegtclnggcllskallgvaedaeiasevvkklnqgielllgeevvkidpgkkkvklek 89 
                              + + l+ ++ t+++++++ s+ + +v++d+ +++ ++k++n++++ l+g+ ++   ++++++ + +
  PHY93_04715|PHY93_04715 335 MAIELIKEGATIHFFDPVASENFMKVMKDYPECEGKIKSFNNKYDCLNGSDGLVTMTEWREFRVPD 400
                              56777889**************************99*************88666668888887754 PP

>> AlaDh_PNT_C  Alanine dehydrogenase/PNT, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   1.8e-06    0.0036      30      78 ..       2      98 ..       1     141 [. 0.69
   2 !    4.9   0.0    0.0071        14     151     188 ..     188     223 ..     179     244 .. 0.76

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 1.8e-06
                             EEEEESTSHHHHHHHHHHHHTT-EEEEEESSHHHHHHHHHTTTCECEE........................................ CS
              AlaDh_PNT_C 30 kvlviGgGvaGlqAiatakglgakVtvlDvrparleqleslgakfvev........................................ 77
                             kv viG G +Gl +    +++g +Vt +D++p+++e l+s ++ + e                                         
  PHY93_04715|PHY93_04715  2 KVSVIGTGYVGLVSGTCFAEIGHEVTCIDIDPKKIEMLKSGKSPIYEPglseliernikserlhfslsydsvkeaksiflavgtpsad 89
                             89************************************99666644445566666666666666666666555555555555555555 PP

                             ........H CS
              AlaDh_PNT_C 78 ........l 78
                                     l
  PHY93_04715|PHY93_04715 90 dgradltyL 98
                             555555554 PP

  == domain 2  score: 4.9 bits;  conditional E-value: 0.0071
                              TTEEEEEBSTGGGGSHHHHHHHHHHHHHHHHHHHCHHH CS
              AlaDh_PNT_C 151 kgvvhygvanlpgavprtasalltnntlpyleelladk 188
                              +g  +yg++nl +++++ a++ +  + +++++e++  +
  PHY93_04715|PHY93_04715 188 QGNPIYGMSNLSAEMSKYAANCFLATKISFINEIA--R 223
                              77889****************************94..2 PP

>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.0   8.4e-07    0.0017       1      40 [.       2      41 ..       2     120 .. 0.81
   2 ?    1.0   0.0      0.17   3.4e+02     120     145 ..     331     356 ..     317     364 .. 0.73

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 8.4e-07
                             EEEEE--SCCHHHHHHHHHHTT-EEEEE-S-HHHHHHHHH CS
                  3HCDH_N  1 kvaviGaGtmGagiaavfasagleVvlvdiseealekale 40
                             kv viG+G +G    + fa+ g+eV+ +di+++++e  ++
  PHY93_04715|PHY93_04715  2 KVSVIGTGYVGLVSGTCFAEIGHEVTCIDIDPKKIEMLKS 41
                             699****************************999886554 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.17
                              HHHCCCSSSGGGEEEEEE-SSTTT-- CS
                  3HCDH_N 120 selaealkrperviglHFfnPpplmk 145
                              s+++ a++  ++ +++HFf P+   +
  PHY93_04715|PHY93_04715 331 SAITMAIELIKEGATIHFFDPVASEN 356
                              56666777777788999999997655 PP

>> Pyr_redox  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.0   1.5e-06    0.0029       1      33 [.       2      34 ..       2      70 .. 0.88
   2 ?   -0.7   0.0       1.1   2.2e+03      17      53 ..     105     140 ..     100     157 .. 0.71
   3 ?   -3.3   0.0       7.1   1.4e+04       5      33 ..     193     223 ..     192     234 .. 0.62
   4 ?   -3.3   0.0       7.1   1.4e+04      26      50 ..     338     361 ..     330     363 .. 0.60

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 1.5e-06
                             EEEEECSSHHHHHHHHHHHHTTSEEEEEESSSS CS
                Pyr_redox  1 kvvvvGgGyiglElAgalaelgkkVtvversdk 33
                             kv v+G Gy+gl  ++ +ae+g++Vt+++  +k
  PHY93_04715|PHY93_04715  2 KVSVIGTGYVGLVSGTCFAEIGHEVTCIDIDPK 34
                             678*************************97665 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 1.1
                              HHHHTTSEEEEEESSSSSSTTSSHHHHHHHHHHHHHT CS
                Pyr_redox  17 alaelgkkVtvversdkllrllDeeaskilqeklekn 53 
                              ++++++ +  +v  s  +  + ++e++k+++e+ +k+
  PHY93_04715|PHY93_04715 105 VAKNIAEDAIIVIKSTVPV-GTNNELRKLIAEHTTKK 140
                              4466676777777777777.88888888888888776 PP

  == domain 3  score: -3.3 bits;  conditional E-value: 7.1
                              ECSSHHHHHHHHHHHH..TTSEEEEEESSSS CS
                Pyr_redox   5 vGgGyiglElAgalae..lgkkVtvversdk 33 
                               G +++  E+ +++a+  l+ k++ +    +
  PHY93_04715|PHY93_04715 193 YGMSNLSAEMSKYAANcfLATKISFINEIAR 223
                              5677777777777766556666666655555 PP

  == domain 4  score: -3.3 bits;  conditional E-value: 7.1
                              EEEESSSSSSTTSSHHHHHHHHHHH CS
                Pyr_redox  26 tvversdkllrllDeeaskilqekl 50 
                               ++  + ++   +D+ as+++++ +
  PHY93_04715|PHY93_04715 338 ELIKEGATIH-FFDPVASENFMKVM 361
                              4555555555.67777777777665 PP

>> NAD_binding_2  NAD binding domain of 6-phosphogluconate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.0   1.2e-05     0.024       1     108 [.       2     137 ..       2     147 .. 0.84
   2 ?    0.5   0.0      0.31   6.1e+02      67     112 ..     172     218 ..     149     220 .. 0.77
   3 ?    0.9   0.0      0.23   4.5e+02      14      50 ..     335     378 ..     333     395 .. 0.69

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 1.2e-05
                              EEEEE--SHHHHHHHHHHHHTT-EEEEE-SSHHHHHHHHHTT..................EEE-SSHH.HHHHHCSEEEE-SSSHH CS
            NAD_binding_2   1 kigfiGlGvMGsnmalnllkagykvavynrtkekveelvaeg..................akaaesie.elvasldvvitmvkagk 67 
                              k+ +iG+G  G    + +++ g++v++++ +++k+e l + +                   +++ s++ + v++++ +++ v   +
  PHY93_04715|PHY93_04715   2 KVSVIGTGYVGLVSGTCFAEIGHEVTCIDIDPKKIEMLKSGKspiyepglselierniksERLHFSLSyDSVKEAKSIFLAVGTPS 87 
                              689**********************************9999899**********999998444444444999999*******9877 PP

                              HHHHHHHS.........HCCC--TT-EEEE-S---HHHHHHHHHHHHHTT CS
            NAD_binding_2  68 avdevieg.........llealkkgdilidgstsspedtrelakelkekg 108
                              a d   +          +++++++++i++  st+ + +++el k ++e+ 
  PHY93_04715|PHY93_04715  88 ADDGRADLtylkaaaieVAKNIAEDAIIVIKSTVPVGTNNELRKLIAEHT 137
                              6555444444558999999********************99999888765 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.31
                              HHHHHHHHS.HCCC--TT-EEEE-S---HHHHHHHHHHHHHTT-EEE CS
            NAD_binding_2  67 kavdevieg.llealkkgdilidgstsspedtrelakelkekglkfl 112
                              ++  +v+e+  ++ +++g+ +  +s+ s+e ++  a+   +++++f+
  PHY93_04715|PHY93_04715 172 PEAFQVMEElYAPLVRQGNPIYGMSNLSAEMSKYAANCFLATKISFI 218
                              44556777746788999************999999998888888887 PP

  == domain 3  score: 0.9 bits;  conditional E-value: 0.23
                              HHHHHHHTT-EEEEE-.SSHHHHHHHHHTT......EEE-SSHH CS
            NAD_binding_2  14 malnllkagykvavyn.rtkekveelvaeg......akaaesie 50 
                              ma +l+k+g ++++++ + +e++ +++++       +k +++  
  PHY93_04715|PHY93_04715 335 MAIELIKEGATIHFFDpVASENFMKVMKDYpecegkIKSFNNKY 378
                              99**************6667888888887633444444444444 PP

>> ApbA  Ketopantoate reductase PanE/ApbA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   2.7e-05     0.054       2      48 ..       4      54 ..       3     116 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 2.7e-05
                             EEES-SHHHHHHHHHHHHHTHCEEEE-SCH.HHHHHHHHCEEEEETT...C CS
                     ApbA  2 ailGaGaiGsllaakLakagadvtlilrsr.rlealkknGlrltseg...g 48
                              ++G+G +G + + + a+ g++vt+i+ ++ ++e lk+  + ++++g    
  PHY93_04715|PHY93_04715  4 SVIGTGYVGLVSGTCFAEIGHEVTCIDIDPkKIEMLKSGKSPIYEPGlseL 54
                             69********************************99999999999886331 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (438 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       513  (0.0286129); expected 358.6 (0.02)
Passed bias filter:                      428  (0.0238719); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.43
# Mc/sec: 3082.92
//
Query:       PHY93_04720|PHY93_04720  [L=256]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.8e-45  154.7   0.0    3.1e-45  154.6   0.0    1.0  1  CN_hydrolase  Carbon-nitrogen hydrolase
  ------ inclusion threshold ------
       0.14   12.7   0.0       0.33   11.4   0.0    1.6  1  DUF3949       Protein of unknown function (DUF3949)


Domain annotation for each model (and alignments):
>> CN_hydrolase  Carbon-nitrogen hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  154.6   0.0   3.5e-49   3.1e-45       1     260 [.       2     251 ..       2     252 .. 0.91

  Alignments for each domain:
  == domain 1  score: 154.6 bits;  conditional E-value: 3.5e-49
                              EEEEEEBB-STTHHHHHHHHHHHHHHHHHHTTESEEEEETTTTTBSSSHHHHHHHHBHSSSHHHHHHHHHHHHHTEEEEEEEEEEE CS
             CN_hydrolase   1 rvAvvQlpqkaadleanlqklleliaeAarkgadLivlPElfitgykeeahfleaAeaglgetlallaalarkngiavvigliere 86 
                              ++Av+Ql+++  d + nl+++ ++++eA++ ga+  +lPE+f     +   ++++ + +  e    +++la ++++a+++g + + 
  PHY93_04720|PHY93_04720   2 KIAVIQLTSV-LDYKVNLATIRRMLKEAKELGAEAAFLPEVFYSMS-DGVTPTPYLIVEGNEHYNEIKQLALDFQMALIGGSAAS- 84 
                              69*******6.9*******************************988.666666666777889*******************9998. PP

                              CCTTEEEEEEEEEEEETTSEEEEEEE-SS--E.ECTTSCECCGHHTSCS-SSS-EEEETTEEEEEEEGGGGGSHHHHHHHHHTT-S CS
             CN_hydrolase  87 ltngklqayntavlldldgklvgkyrKlhLfp.geprpptaverelfepgdgipvfdtpvgkiGaaiCyeigfpellralalkgae 171
                              l+ngk+   n+a+ +d+ g  +g y+K++Lf+ + p++    e   + +g +++++++++ kiG+ iC +++f el + ++ +gae
  PHY93_04720|PHY93_04720  85 LKNGKV--VNRAYNFDKLGVDLGHYDKINLFAcDLPNKKI-SEANNYTAGSEYKMVELDGSKIGLGICFDMRFSELGLHYRMQGAE 167
                              5*****..***********************877766544.345555555557********************************* PP

                              EEEEBH.GCCCTCHHHHHHHHHHHHHHHHHHTSEEEEEEBEEEHCETTEEEE--EEEE-TTS-EEEECCSSSTEEEEEEEEHHHHH CS
             CN_hydrolase 172 ilvnlserapvpksmgppqwellgraralengcfviaanqvggyeqlilwpvghSaiidpdGrilaglgeeeegvliaeidladvr 257
                              il++    a +++ +g+++w++l +ara+en+cfv+aa+q+g  ++++ +++ghS ++dp+G ++ +l e e+ v ++++d+++++
  PHY93_04720|PHY93_04720 168 ILTY-P--AAFTVPTGKAHWHTLLKARAIENQCFVVAAAQWGH-HNEKMQTFGHSLVVDPWGDVILDLAEGEK-VGVVDLDFSKIE 248
                              **99.3..678899*****************************.****************************7.*********999 PP

                              HHH CS
             CN_hydrolase 258 atr 260
                               +r
  PHY93_04720|PHY93_04720 249 LIR 251
                              887 PP

>> DUF3949  Protein of unknown function (DUF3949)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   3.7e-05      0.33      29      51 ..     151     175 ..     150     178 .. 0.92

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 3.7e-05
                  DUF3949  29 nmsfeeeqlHynvQg..vlfipaal 51 
                              +m f e  lHy +Qg  +l+ paa+
  PHY93_04720|PHY93_04720 151 DMRFSELGLHYRMQGaeILTYPAAF 175
                              599************999*****98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (256 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       444  (0.0247643); expected 358.6 (0.02)
Passed bias filter:                      430  (0.0239835); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.21s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 1896.53
//
Query:       PHY93_04725|PHY93_04725  [L=174]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (174 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       678  (0.0378158); expected 358.6 (0.02)
Passed bias filter:                      332  (0.0185175); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 1216.70
//
Query:       PHY93_17330|PHY93_17330  [L=469]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.9e-38  129.6  10.6    1.7e-36  124.8  10.6    2.3  1  Fer4_18   4Fe-4S dicluster domain
    4.1e-08   33.0   5.6    4.1e-08   33.0   5.6    3.6  3  Fer4_5    4Fe-4S binding domain
    1.6e-06   28.6  10.2     0.0001   22.8   0.5    2.6  2  Fer4_7    4Fe-4S dicluster domain
    7.8e-05   22.8   6.5      0.077   13.2   0.3    2.9  3  Fer4_9    4Fe-4S dicluster domain
    0.00011   22.2   7.1       0.13   12.4   1.3    2.8  2  Fer4_21   4Fe-4S dicluster domain
    0.00018   21.2  18.0     0.0058   16.4   1.1    3.5  3  Fer4      4Fe-4S binding domain
    0.00041   20.7   4.3       0.43   11.0   0.2    2.5  2  Fer4_8    4Fe-4S dicluster domain
     0.0012   19.3   9.2       0.11   13.1   0.3    2.7  2  Fer4_17   4Fe-4S dicluster domain
     0.0076   16.3  13.4      0.046   13.8  10.4    2.7  2  Fer4_10   4Fe-4S dicluster domain
  ------ inclusion threshold ------
      0.047   14.6   7.7        2.3    9.2   0.5    3.3  3  Fer4_16   4Fe-4S double cluster binding domain
        0.1   13.6   0.7        0.1   13.6   0.7    3.5  3  Fer4_3    4Fe-4S binding domain
       0.15   12.2  20.6       0.12   12.5   1.6    3.4  3  Fer4_6    4Fe-4S binding domain
        0.5   10.6  14.5         77    3.5   0.0    3.0  3  EI24      Etoposide-induced protein 2.4 (EI24)
       0.52   10.9  12.9       0.28   11.7   1.4    3.1  3  Fer4_13   4Fe-4S single cluster domain of Ferredoxin I


Domain annotation for each model (and alignments):
>> Fer4_18  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  124.8  10.6   1.4e-39   1.7e-36       1     113 [.     215     315 ..     215     316 .. 0.94

  Alignments for each domain:
  == domain 1  score: 124.8 bits;  conditional E-value: 1.4e-39
                  Fer4_18   1 lredvcvyvcPyarvqsvlydeetllvvydakrGekiagrkkekkalkekeerkekgagdcidcescvkvcPtgidirkGlqleci 86 
                              +re++c+++cPy+r+qsv++de++l+v+yd+krGe ++g  +            ++ +gdci+  +cv+vcPtgidir G q+eci
  PHY93_17330|PHY93_17330 215 FREQFCIIACPYGRMQSVMMDENSLVVAYDKKRGEPRRGLVP------------RELEGDCINDYACVRVCPTGIDIRRGTQMECI 288
                              59*********************************9876433............34579*************************** PP

                  Fer4_18  87 scllcidacdkvmeklgkpkgliryss 113
                              +c+ cidacd++m+k++kp+glirys+
  PHY93_17330|PHY93_17330 289 ACTACIDACDDIMDKVKKPHGLIRYST 315
                              *************************97 PP

>> Fer4_5  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.0   5.6   3.2e-11   4.1e-08       7      39 ..      90     126 ..      85     133 .. 0.73
   2 ?    4.1   0.1     0.035        45      11      37 ..     207     233 ..     196     246 .. 0.70
   3 ?   -3.1   0.9       6.1   7.8e+03       7      18 ..     334     345 ..     331     348 .. 0.50

  Alignments for each domain:
  == domain 1  score: 33.0 bits;  conditional E-value: 3.2e-11
                   Fer4_5   7 ilfl.aivlvtll...fGRafCgWiCPfGalqellak 39 
                              ++++ +++++++l   fGR++CgW CP++++ ++++ 
  PHY93_17330|PHY93_17330  90 LIVIsGLFFMAFLtsiFGRVWCGWTCPQTVFIQTIFS 126
                              3333355555555667***************999885 PP

  == domain 2  score: 4.1 bits;  conditional E-value: 0.035
                   Fer4_5  11 aivlvtllfGRafCgWiCPfGalqell 37 
                              +++l ++ f+  fC  +CP+G +q ++
  PHY93_17330|PHY93_17330 207 IFLLDFGWFREQFCIIACPYGRMQSVM 233
                              444444445568*********888665 PP

  == domain 3  score: -3.1 bits;  conditional E-value: 6.1
                   Fer4_5   7 ilflaivlvtll 18 
                               + +++++++++
  PHY93_17330|PHY93_17330 334 YFCIFLFFISAF 345
                              444455555544 PP

>> Fer4_7  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.8   0.5   7.9e-08    0.0001       7      52 .]     219     277 ..     218     277 .. 0.62
   2 !   12.1   0.6   0.00018      0.23       2      19 ..     287     313 ..     285     338 .. 0.76

  Alignments for each domain:
  == domain 1  score: 22.8 bits;  conditional E-value: 7.9e-08
                   Fer4_7   7 aCvaaCpvkaield.........eeenekgtekv....eidpekClgCgaCvavCPtga 52 
                              +C  aCp++ ++            +++++g ++     +  + +C++ +aCv+vCPtg+
  PHY93_17330|PHY93_17330 219 FCIIACPYGRMQSVmmdenslvvAYDKKRGEPRRglvpRELEGDCINDYACVRVCPTGI 277
                              8******9999855222333333233333444432222555668*************96 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 0.00018
                   Fer4_7   2 CigCgaCvaaC.........pvkaiel 19 
                              Ci C aC +aC         p++ i++
  PHY93_17330|PHY93_17330 287 CIACTACIDACddimdkvkkPHGLIRY 313
                              9**********7777776665655555 PP

>> Fer4_9  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       5.2   6.6e+03       8      19 ..     111     122 ..     110     129 .. 0.68
   2 !   12.1   0.3   0.00013      0.17       8      49 ..     220     276 ..     217     277 .. 0.78
   3 !   13.2   0.3     6e-05     0.077       2      22 ..     287     307 ..     279     329 .. 0.68

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 5.2
                   Fer4_9   8 CveaCpagvvve 19 
                              C   Cp++v+++
  PHY93_17330|PHY93_17330 111 CGWTCPQTVFIQ 122
                              555688777765 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 0.00013
                   Fer4_9   8 CveaCpagvvvedaaerkarlraase...............eaCigCgaCveaCpkg 49 
                              C+ aCp+g ++     +   + a+++                +Ci   aCv +Cp+g
  PHY93_17330|PHY93_17330 220 CIIACPYGRMQSVMMDENSLVVAYDKkrgeprrglvpreleGDCINDYACVRVCPTG 276
                              9999988888665555555555554456789*********999************98 PP

  == domain 3  score: 13.2 bits;  conditional E-value: 6e-05
                   Fer4_9   2 CtgCgaCveaCpagvvvedaa 22 
                              C+ C+aC++aC   + + ++ 
  PHY93_17330|PHY93_17330 287 CIACTACIDACDDIMDKVKKP 307
                              777777777775444444444 PP

>> Fer4_21  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.0   0.5   0.00014      0.18      13      53 ..     219     275 ..     217     280 .. 0.82
   2 !   12.4   1.3   9.9e-05      0.13       6      20 ..     285     299 ..     282     318 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00014
                  Fer4_21  13 kCliaCedtshqaieidaktvl................kvvedeCvGCnlCssvCPv 53 
                               C+iaC+ + +q + +d+++ +                + +e +C+    C+ vCP+
  PHY93_17330|PHY93_17330 219 FCIIACPYGRMQSVMMDENSLVvaydkkrgeprrglvpRELEGDCINDYACVRVCPT 275
                              5*************88888755667777777888777666799*************6 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 9.9e-05
                  Fer4_21   6 dkCigCgkCliaCed 20 
                               +Ci C+ C+ aC+d
  PHY93_17330|PHY93_17330 285 MECIACTACIDACDD 299
                              68***********98 PP

>> Fer4  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.1   0.2     0.034        43      14      21 ..     220     227 ..     218     227 .. 0.90
   2 !   16.4   1.1   4.5e-06    0.0058       6      21 ..     261     276 ..     259     277 .. 0.91
   3 !    8.2   4.9    0.0018       2.3       7      18 ..     286     297 ..     284     298 .. 0.93

  Alignments for each domain:
  == domain 1  score: 4.1 bits;  conditional E-value: 0.034
                              HHHHSTTT CS
                     Fer4  14 CvevCPvg 21 
                              C+ +CP+g
  PHY93_17330|PHY93_17330 220 CIIACPYG 227
                              ******97 PP

  == domain 2  score: 16.4 bits;  conditional E-value: 4.5e-06
                              TTSSS-THHHHHSTTT CS
                     Fer4   6 ekCigCGaCvevCPvg 21 
                               +Ci+  aCv vCP+g
  PHY93_17330|PHY93_17330 261 GDCINDYACVRVCPTG 276
                              68*************8 PP

  == domain 3  score: 8.2 bits;  conditional E-value: 0.0018
                              TSSS-THHHHHS CS
                     Fer4   7 kCigCGaCvevC 18 
                               Ci+C aC+++C
  PHY93_17330|PHY93_17330 286 ECIACTACIDAC 297
                              6*********** PP

>> Fer4_8  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.0   0.2   0.00034      0.43      11      65 .]     220     277 ..     218     277 .. 0.56
   2 !   10.7   0.5   0.00042      0.54       3      31 ..     285     314 ..     283     337 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00034
                   Fer4_8  11 CqsaCpvlrrtk.khlldargeaaedvqeeqvlee....eealwsCttcgaCtevCpvgi 65 
                              C  aCp  r +  ++  ++   a ++++ e +       +e  + C +  aC++vCp+gi
  PHY93_17330|PHY93_17330 220 CIIACPYGRMQSvMMDENSLVVAYDKKRGEPR--RglvpRELEGDCINDYACVRVCPTGI 277
                              66667744444333333333322222222222..1345688889*************997 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 0.00042
                   Fer4_8   3 ekCieCgaCqsaCp.vlrrtkkhlldarge 31 
                              ++Ci C aC +aC  ++ + kk +   r+ 
  PHY93_17330|PHY93_17330 285 MECIACTACIDACDdIMDKVKKPHGLIRYS 314
                              58***********63666655666665554 PP

>> Fer4_17  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.1   0.3   8.2e-05      0.11       7      61 .]     219     278 ..     217     278 .. 0.63
   2 !   11.7   0.5   0.00023       0.3       1      28 [.     286     313 ..     286     337 .. 0.74

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 8.2e-05
                  Fer4_17   7 yClpeCpsyea....ydnepkkllraaklglleeaeke....ekaslCieCgeCerkCPqgld 61 
                              +C+ +Cp+++     +d++   ++++ k g   e  +     e  ++Ci+   C+r+CP g+d
  PHY93_17330|PHY93_17330 219 FCIIACPYGRMqsvmMDENSLVVAYDKKRG---EPRRGlvprELEGDCINDYACVRVCPTGID 278
                              699999998884433333333344443332...2223345546889**************997 PP

  == domain 2  score: 11.7 bits;  conditional E-value: 0.00023
                  Fer4_17   1 rCiqCgyClpeCpsyeaydnepkkllra 28 
                              +Ci C +C+++C   ++  ++p+ l+r 
  PHY93_17330|PHY93_17330 286 ECIACTACIDACDDIMDKVKKPHGLIRY 313
                              6*************99999999986664 PP

>> Fer4_10  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.8   1.2   0.00016      0.21      15      56 .]     220     274 ..     218     274 .. 0.92
   2 !   13.8  10.4   3.6e-05     0.046       8      55 ..     262     297 ..     257     298 .. 0.92

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00016
                  Fer4_10  15 CvkaCPadl.............tsvgakgeaseeeavrkkvekCtgcgaCveaCP 56 
                              C  aCP+                 ++++ge  ++ + r+  ++C++  aCv++CP
  PHY93_17330|PHY93_17330 220 CIIACPYGRmqsvmmdenslvvAYDKKRGEPRRGLVPRELEGDCINDYACVRVCP 274
                              999****88********999988888889999999999999*************9 PP

  == domain 2  score: 13.8 bits;  conditional E-value: 3.6e-05
                  Fer4_10   8 tCirCgkCvkaCPadltsvgakgeaseeeavrkkvekCtgcgaCveaC 55 
                               Ci+  +Cv++CP+            +++  r+   +C++c+aC++aC
  PHY93_17330|PHY93_17330 262 DCINDYACVRVCPT------------GIDIRRGTQMECIACTACIDAC 297
                              6*************............88888999999*********** PP

>> Fer4_16  4Fe-4S double cluster binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.4   1.1    0.0067       8.5       8      66 ..     220     275 ..     217     276 .. 0.63
   2 ?    4.2   0.8     0.065        84       2      15 ..     263     276 ..     262     282 .. 0.79
   3 ?    9.2   0.5    0.0018       2.3       2      12 ..     287     297 ..     286     330 .. 0.83

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.0067
                  Fer4_16   8 CaevCPtnaikekkekeiearecisyntaekkdlaedeekckkqeaitgCdiCqdvCPa 66 
                              C+ +CP + +++    +++ +  + + ++++ + +     ++ +++++   +C++vCP 
  PHY93_17330|PHY93_17330 220 CIIACPYGRMQSV---MMDENSLVVAYDKKRGEPRRGLVPRELEGDCINDYACVRVCPT 275
                              9999999999999...6665554444233333333333333346678888899999996 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.065
                  Fer4_16   2 CgtCgkCaevCPtn 15 
                              C++  +C+ vCPt+
  PHY93_17330|PHY93_17330 263 CINDYACVRVCPTG 276
                              66667899999997 PP

  == domain 3  score: 9.2 bits;  conditional E-value: 0.0018
                  Fer4_16   2 CgtCgkCaevC 12 
                              C+ C++C+++C
  PHY93_17330|PHY93_17330 287 CIACTACIDAC 297
                              *********** PP

>> Fer4_3  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.1      0.38   4.9e+02       7      14 ..     220     227 ..     217     227 .. 0.90
   2 ?   13.6   0.7   7.9e-05       0.1       1      14 [.     263     276 ..     263     277 .. 0.88
   3 ?    3.3   4.4      0.15     2e+02       1      11 [.     287     297 ..     287     298 .. 0.97

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.38
                   Fer4_3   7 CvevCPvg 14 
                              C  +CP+g
  PHY93_17330|PHY93_17330 220 CIIACPYG 227
                              999***97 PP

  == domain 2  score: 13.6 bits;  conditional E-value: 7.9e-05
                   Fer4_3   1 CtgCgaCvevCPvg 14 
                              C++ +aCv+vCP+g
  PHY93_17330|PHY93_17330 263 CINDYACVRVCPTG 276
                              88889*******99 PP

  == domain 3  score: 3.3 bits;  conditional E-value: 0.15
                   Fer4_3   1 CtgCgaCvevC 11 
                              C+ C aC ++C
  PHY93_17330|PHY93_17330 287 CIACTACIDAC 297
                              9********** PP

>> Fer4_6  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6   0.2     0.029        37      15      22 ..     220     227 ..     217     229 .. 0.89
   2 ?   12.5   1.6   9.2e-05      0.12       9      22 ..     263     276 ..     260     277 .. 0.91
   3 ?    3.1   6.5     0.086   1.1e+02       9      19 ..     287     297 ..     287     301 .. 0.94

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.029
                   Fer4_6  15 CvrvCPeg 22 
                              C+++CP+g
  PHY93_17330|PHY93_17330 220 CIIACPYG 227
                              ******98 PP

  == domain 2  score: 12.5 bits;  conditional E-value: 9.2e-05
                   Fer4_6   9 CigCgdCvrvCPeg 22 
                              Ci  ++CvrvCP+g
  PHY93_17330|PHY93_17330 263 CINDYACVRVCPTG 276
                              9999********98 PP

  == domain 3  score: 3.1 bits;  conditional E-value: 0.086
                   Fer4_6   9 CigCgdCvrvC 19 
                              Ci C +C+++C
  PHY93_17330|PHY93_17330 287 CIACTACIDAC 297
                              *********** PP

>> EI24  Etoposide-induced protein 2.4 (EI24)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   1.5      0.13   1.7e+02      92     133 ..      35      76 ..      17      82 .. 0.80
   2 ?    3.4  13.5     0.062        79      29     121 ..      42     182 ..      40     190 .. 0.63
   3 ?    3.5   0.0      0.06        77      70     120 ..     297     356 ..     285     377 .. 0.68

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.13
                              HHHHHHHHHHHHHHHHHHHTTHHH....HHHHHHHHHHHHHH CS
                     EI24  92 lkslllllllllvllplliPvvglilsplllswltayfycfe 133
                              +ks  ++l ++l++l l +P++++   p+l++ ++ ++++f+
  PHY93_17330|PHY93_17330  35 WKSRRIVLYWFLIILYLSLPWINVKGRPALMLNIFTREFAFM 76 
                              5666677778888888855***********999999999887 PP

  == domain 2  score: 3.4 bits;  conditional E-value: 0.062
                              HHHHHHHHHH...-.........................TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH......... CS
                     EI24  29 lfllllvlll...w.........................vllasllvllllllplwlfplvalllaapfygllaekv......... 77 
                              l+++l++l+l   w                           ++++l++l+++  l+++ +++ +++ +++g    ++         
  PHY93_17330|PHY93_17330  42 LYWFLIILYLslpWinvkgrpalmlniftrefafmgmtlHGVEPILIFLIVISGLFFMAFLTSIFGRVWCGWTCPQTvfiqtifsk 127
                              4443333333678455555555555555555555666555566**************************77777777666666665 PP

                              ..........HH.HHCCTTSHH...........HHHHHHHHHHHHHHHHHHH.HHTTHHH....HH CS
                     EI24  78 ..........ekrhlglvksla...........eslkslllllllllvllpl.liPvvglilspll 121
                                        +                        ++++l ++ +++v++ +   +++g ++ p +
  PHY93_17330|PHY93_17330 128 ietlieggarA----------RraldesswtpnKIMRRTLKWICFTIVSFHIaH-TFIGYFIGPRA 182
                              56555555431..........022223333666778888888888888888853.77887776654 PP

  == domain 3  score: 3.5 bits;  conditional E-value: 0.06
                              HHHHHHHHHH.HH....CCTTSHH...........HHHHHHHHHHHHHHHHHHH..HHTTHHH....H CS
                     EI24  70 ygllaekvekrhl....glvksla...........eslkslllllllllvllpl..liPvvglilspl 120
                              ++++ +kv+k+h     +     +            + +s+l+++++l ++ ++  +   +  +  p+
  PHY93_17330|PHY93_17330 297 CDDIMDKVKKPHGliryS-----TeteligkkhnfITTRSVLYFCIFLFFISAFghF---IVSLSKPA 356
                              899999999998433331.....23333345556689999****9999988888643...44444444 PP

>> Fer4_13  4Fe-4S single cluster domain of Ferredoxin I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.2       2.2   2.9e+03      12      18 ..     111     117 ..     110     120 .. 0.87
   2 ?    5.9   0.5     0.015        19       5      18 ..     262     275 ..     260     280 .. 0.91
   3 ?   11.7   1.4   0.00022      0.28       5      20 ..     286     301 ..     283     313 .. 0.87

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 2.2
                  Fer4_13  12 CvelaPd 18 
                              C++++P+
  PHY93_17330|PHY93_17330 111 CGWTCPQ 117
                              ******7 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.015
                  Fer4_13   5 tCiacgaCvelaPd 18 
                               Ci++ aCv ++P 
  PHY93_17330|PHY93_17330 262 DCINDYACVRVCPT 275
                              6************5 PP

  == domain 3  score: 11.7 bits;  conditional E-value: 0.00022
                  Fer4_13   5 tCiacgaCvelaPdvF 20 
                              +Ciac+aC +++ d+ 
  PHY93_17330|PHY93_17330 286 ECIACTACIDACDDIM 301
                              8***********9985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (469 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       738  (0.0411624); expected 358.6 (0.02)
Passed bias filter:                      425  (0.0237046); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                        16  (0.000892409); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.60u 0.23s 00:00:00.83 Elapsed: 00:00:00.42
# Mc/sec: 3333.80
//
Query:       PHY93_04730|PHY93_04730  [L=123]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (123 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       465  (0.0259356); expected 358.6 (0.02)
Passed bias filter:                      347  (0.0193541); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 936.37
//
Query:       PHY93_04735|PHY93_04735  [L=319]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      5e-14   52.2   0.1    7.8e-13   48.3   0.1    2.5  1  Glycos_transf_1  Glycosyl transferases group 1
    1.7e-11   44.7   0.0    3.3e-11   43.7   0.0    1.5  1  Glyco_trans_1_4  Glycosyl transferases group 1
  ------ inclusion threshold ------
      0.097   12.7   0.0       0.26   11.3   0.0    1.9  1  Glyco_transf_4   Glycosyltransferase Family 4


Domain annotation for each model (and alignments):
>> Glycos_transf_1  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.3   0.1   1.3e-16   7.8e-13      15     144 ..     142     254 ..     128     265 .. 0.77

  Alignments for each domain:
  == domain 1  score: 48.3 bits;  conditional E-value: 1.3e-16
                              -EEEEEESS-TTTTTHHHHHHHHHCCCCCHCSCEEEEEES.STTHHHHHHHHHHHCTTCGGGEEECCHSSSHHHHHHCESEEEEEE CS
          Glycos_transf_1  15 kkiilsvgrlekeKgvdllikafallkkqlnpnvklviaGngeeekelkklaeelelsdnviflgevsredleellknadifvlps 100
                              +k+++  ++  ++K++++ +ka++++kk      +l iaG g++           +ls  ++ +g v  +++ ++++++d++++p 
  PHY93_04735|PHY93_04735 142 DKFLFLAKASWRVKNLAHTVKACRSSKK------HLQIAG-GKW----------WGLSRYIHGFGMVGGDEKLNIIRSCDALLFPV 210
                              4555555555555777777777776544......466777.333..........4667777777777778899************* PP

                              SS.BSS-HHHHHHHHTT--EEEETTTTHCHHCHTTTSEEEE-TT- CS
          Glycos_transf_1 101 is.EgfGivllEAmaaglpviasnaggpaevvkdgetGllvkpnn 144
                              ++ E+fGi+++EAm+ glp+i s +g ++e++ +++ G++vk+++
  PHY93_04735|PHY93_04735 211 RWhEPFGIAVIEAMSQGLPAIGSHYGSLPELISQEV-GFIVKNYQ 254
                              ************************************.*****994 PP

>> Glyco_trans_1_4  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.7   0.0   5.6e-15   3.3e-11       4     122 ..     144     254 ..     136     262 .. 0.78

  Alignments for each domain:
  == domain 1  score: 43.7 bits;  conditional E-value: 5.6e-15
                              EEEES---GG.GTHHHHHHHHHHHH.HHEEEEEES---...HHHHHHHTT-T.TEEEE---..THHHHHHHH-SEEEE--...--- CS
          Glyco_trans_1_4   4 ilfvGrleenvkgvdllleavpllrkkdvrlvivGdgp.rpeeleelaagleerveftGfv..edlaellaaadvfvaPs...egf 83 
                              +lf+ + + +vk++   ++a+   + k  +l i+G g+ +         gl+  ++  G v  +++ ++++++d +++P    e f
  PHY93_04735|PHY93_04735 144 FLFLAKASWRVKNLAHTVKACRSSK-K--HLQIAG-GKwW---------GLSRYIHGFGMVggDEKLNIIRSCDALLFPVrwhEPF 216
                              5666666445566666666665555.3..799999.6322.........4555677888888778***************9999** PP

                              SHHHHHHHHTT-EEEE-TGGGTTT--.TTSSEE--TT-HH CS
          Glyco_trans_1_4  84 glkllEamaaglpvVatdvggiaevv.gengllvppgdpe 122
                              g++++Eam+ glp + +  g ++e++ +e g++v++   +
  PHY93_04735|PHY93_04735 217 GIAVIEAMSQGLPAIGSHYGSLPELIsQEVGFIVKNY--Q 254
                              *******************99*****999*****844..3 PP

>> Glyco_transf_4  Glycosyltransferase Family 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   4.4e-05      0.26       1      34 [.      16      49 ..      16     128 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 4.4e-05
           Glyco_transf_4  1 vGGverhvleLaraLarrGheVtvvtpgddgple 34
                             +GG+er ++   ++L ++Gh+V+++  + ++ +e
  PHY93_04735|PHY93_04735 16 YGGIERIIFWHMKELVKLGHKVVLIGNANSKVQE 49
                             6************************655554443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (319 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       490  (0.02733); expected 358.6 (0.02)
Passed bias filter:                      423  (0.0235931); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 2359.35
//
Query:       PHY93_04740|PHY93_04740  [L=252]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.8e-18   66.3   0.1    4.6e-18   65.6   0.1    1.3  1  Glycos_transf_2  Glycosyl transferase family 2
    4.7e-05   23.8   0.1    0.00027   21.4   0.1    2.1  1  Glyco_tranf_2_4  Glycosyl transferase family 2
     0.0046   16.9   0.0     0.0081   16.1   0.0    1.3  1  Glyco_tranf_2_3  Glycosyltransferase like family 2
  ------ inclusion threshold ------
      0.027   13.9   0.7      0.041   13.4   0.7    1.2  1  Glyco_tranf_2_2  Glycosyltransferase like family 2


Domain annotation for each model (and alignments):
>> Glycos_transf_2  Glycosyl transferase family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.6   0.1     1e-21   4.6e-18       1      94 [.       5      88 ..       5     108 .. 0.93

  Alignments for each domain:
  == domain 1  score: 65.6 bits;  conditional E-value: 1e-21
                             EEEEEESS-TTTHHHHHHHHHHHGGCCEEEEEEEEES-SSCHHHHHGGGCHC-TTEEEEEESSS-HHHHHHHHHHHH--SSEEEEEES CS
          Glycos_transf_2  1 svviptyNeektlletlesllaqdpypdfeiivvDDgStDetveileelakedprvrvirreenvGkagalnaglraatgdyilflDa 88
                             +v i+tyNeek++ +++ s+ ++     +ei+vvD  StD+t++i+ e+     +vr+i+++   G++   n  l++at++y+l lDa
  PHY93_04740|PHY93_04740  5 TVAIITYNEEKNIGRCISSVQSI----ADEILVVDSFSTDKTEAICNEF-----GVRFIKNTFI-GHIEQKNFSLEHATHEYVLSLDA 82
                             589********************....**********************.....9*******66.*********************** PP

                             SEEE-T CS
          Glycos_transf_2 89 Ddepdp 94
                             D + + 
  PHY93_04740|PHY93_04740 83 DEALSS 88
                             *98775 PP

>> Glyco_tranf_2_4  Glycosyl transferase family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.4   0.1     6e-08   0.00027       1      84 [.      11      86 ..      11      89 .. 0.80

  Alignments for each domain:
  == domain 1  score: 21.4 bits;  conditional E-value: 6e-08
          Glyco_tranf_2_4  1 rneadiLpeflahhlalgfdrilvydndstDgtrailkelpevkllhvd..ksyederrqvellkallaryaeadwvlvvDaDEfl 84
                             +ne++ +++++    ++ +d+ilv+d  stD+t ai+ e   v++++++  +++e+        k++  ++a +++vl +DaDE l
  PHY93_04740|PHY93_04740 11 YNEEKNIGRCISSVQSI-ADEILVVDSFSTDKTEAICNEF-GVRFIKNTfiGHIEQ--------KNFSLEHATHEYVLSLDADEAL 86
                             69***************.********************96.555555552244543........33445667889*********87 PP

>> Glyco_tranf_2_3  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   1.8e-06    0.0081       4     101 ..       4      87 ..       3     102 .. 0.86

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 1.8e-06
          Glyco_tranf_2_3   4 lavlVptfneedvlgevlesllaqeyprvevvvvvdesdaetlevaeelaaalpdvrvrvvvnarnlgstgksralnealravksd 89 
                              l+v++ t+nee+ +g+++ s+ +   +++e+ vv+  s+++t + + e+       +vr + n+      g ++  n  l++++++
  PHY93_04740|PHY93_04740   4 LTVAIITYNEEKNIGRCISSVQS---IADEILVVDSFSTDKTEAICNEF-------GVRFIKNTF----IGHIEQKNFSLEHATHE 75 
                              79*******************99...79******************994.......788885544....46777778899999999 PP

          Glyco_tranf_2_3  90 lvllvDdDtvve 101
                              +vl +D+D  ++
  PHY93_04740|PHY93_04740  76 YVLSLDADEALS 87 
                              999999998876 PP

>> Glyco_tranf_2_2  Glycosyltransferase like family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.7   9.1e-06     0.041       2     105 ..       6      97 ..       5     103 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 9.1e-06
          Glyco_tranf_2_2   2 vviplraseerhyieervlqkakyydeeielivvddgSsekfleevssiidlnllvylkdeddkayslaaarNrGaskaesdlvlF 87 
                              v i  +++e++  i   +   ++      e++vvd  S++k     ++i++  +  ++k++     +    +N   ++a  ++vl 
  PHY93_04740|PHY93_04740   6 VAIITYNEEKN--IGRCISSVQSI---ADEILVVDSFSTDK----TEAICNEFGVRFIKNT---FIGHIEQKNFSLEHATHEYVLS 79 
                              56667777777..77777666666...6689**********....5688888888887776...7899999*************** PP

          Glyco_tranf_2_2  88 lDaDcfissDkfekilkl 105
                              lDaD   ss  ++ i k+
  PHY93_04740|PHY93_04740  80 LDADEALSSLLLAEIKKV 97 
                              ******999888888774 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (252 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       511  (0.0285013); expected 358.6 (0.02)
Passed bias filter:                      428  (0.0238719); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1850.12
//
Query:       PHY93_04745|PHY93_04745  [L=342]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.8e-15   56.3   0.0    4.1e-15   55.8   0.0    1.3  1  Glyco_transf_9  Glycosyltransferase family 9 (heptosyltransfe


Domain annotation for each model (and alignments):
>> Glyco_transf_9  Glycosyltransferase family 9 (heptosyltransferase)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.8   0.0   2.3e-19   4.1e-15       8     226 ..      77     287 ..      70     305 .. 0.72

  Alignments for each domain:
  == domain 1  score: 55.8 bits;  conditional E-value: 2.3e-19
                              TTTTT-SEEEE-S--SGGGHHHHHTT-SEEEEE-TTT-.TTT-TEEE---TTT.--SHHHHHHHTTS-GGGS-SS---------HH CS
           Glyco_transf_9   8 LrekayDlvidlqgllkSAllvralkapvriGldeesrelaslfysrkvdkak.gqhaVernraLfaqaldlpkpeskpelalslk 92 
                              +++ + D +  +  + + A +++++    ri +  +      l+   +v ++   ++ ++r ++ ++ +l++       +l+    
  PHY93_04745|PHY93_04745  77 IKALKVDHIHEMHQSGRGAKIFKMISFFLRIPYTAHNH---HLKTGTEVLDQGvIKPLIQRDLDGVYSFLGIGE--RPNYLEY--- 154
                              55555555555555555555555555555555555555...444444444444455555555555555555552..2223333... PP

                              HHHHHHHHTT--SSS-EEEEE---TTGGGS--HHHHHHHHHHHHHT..T-EEEE---GGGHHHHHHTTS-HHHHTTEEE-TTTS-H CS
           Glyco_transf_9  93 eraaaldaagllaerpyivflpgaskdaKrWpeekyaelaealqek..gyqvvLfgsaeaeeeeiaeriaagleekavnllgktsL 176
                                + + + ++  ++ p+i++   a++++K Wp e+y +la  +q k  +y++v++ s+  +++ i e++ +     +v +l + +L
  PHY93_04745|PHY93_04745 155 --SPQINPIEKISKLPMIIMGVVATRKTKMWPLENYLKLASLIQVKfpNYAIVIPLSKGPDDKKIKEELFRIGLPDNVSIL-ESEL 237
                              ..33344444445669*************************99987447*******9999899999999885444688887.789* PP

                              HHHHHHHHTSSEEEEESSHHHHHHHHTT--EEEEESSS-TTSS----TTE CS
           Glyco_transf_9 177 eelaallakadlvvgnDSGlmHlAaAldrpviaLYgptdpkrtgplsksa 226
                              + l a +++a++ +gnD+Gl HlA A++ ++ + +gp + +++ p+  + 
  PHY93_04745|PHY93_04745 238 KDLPANIKQAAFYIGNDTGLKHLAVAVGIKTYTFFGPEPANEWHPYDSNN 287
                              **********************************************9875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (342 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       279  (0.0155614); expected 358.6 (0.02)
Passed bias filter:                      264  (0.0147247); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.42
# Mc/sec: 2450.00
//
Query:       PHY93_04750|PHY93_04750  [L=82]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.7e-24   84.7   0.0    4.1e-24   84.5   0.0    1.1  1  NifU      NifU-like domain


Domain annotation for each model (and alignments):
>> NifU  NifU-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   84.5   0.0   2.3e-28   4.1e-24       4      67 .]       8      71 ..       5      71 .. 0.96

  Alignments for each domain:
  == domain 1  score: 84.5 bits;  conditional E-value: 2.3e-28
                             HHHH.HGGG--GG--EEEEEEEETTEEEEEEESGGGG-....THHHHHHHHHHHHH-TT--EEE CS
                     NifU  4 vleeeirPaLasdGGdielvdvdegvVkvrlqGaCsgCpsstvtlkegiekaLkeevpevkeVe 67
                             + +e++rPaLa++GG++e++d+d++++ vrl+G+C+gC+ss++tlk+gi++ +k+++p ++eV+
  PHY93_04750|PHY93_04750  8 LFDEQVRPALAAHGGNVEIIDLDNDKLFVRLSGGCQGCASSKATLKDGIQTLVKQNFPMITEVV 71
                             56999*********************************************************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (82 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       596  (0.0332422); expected 358.6 (0.02)
Passed bias filter:                      552  (0.0307881); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.38u 0.24s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 632.34
//
Query:       PHY93_04755|PHY93_04755  [L=231]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.6e-31  107.6   0.0    6.7e-31  107.4   0.0    1.0  1  Methyltrans_RNA  RNA methyltransferase


Domain annotation for each model (and alignments):
>> Methyltrans_RNA  RNA methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  107.4   0.0   3.7e-35   6.7e-31       3     224 ..      13     226 ..      12     228 .. 0.89

  Alignments for each domain:
  == domain 1  score: 107.4 bits;  conditional E-value: 3.7e-35
                              EEH.HHHHHHHTTTT--TT-EEEEEESSSEEEEEEEEEEESSEEEEEEEEEEE---SSSSEEEEEEE--SSHHHHHHHHHHHHTT- CS
          Methyltrans_RNA   3 ltd.eeahHlvkVlRlkegdeiklfdgdgkeyeaeieeiskkkvtvkilekeeenkespekitlaqalpkgdklelilqkatElGv 87 
                              +td + ++H+ + l+l +gde++++  ++++ ++ i+e++++ +++k+ + ++ ++   +  +l+++l+++++ ++il+ at  G+
  PHY93_04755|PHY93_04755  13 ITDaHVLSHIHTTLKLVVGDEVRCTVLNQGRSLGVITELTDNLCKLKLSSITPGKE---QWFDLVVGLSRPQTTKKILEHATTFGA 95 
                              5666899*************************************999985555544...4577*********************** PP

                              SEEEEEE-TTSSS...HHHHHHHHHHHHHHHHHHHHHHT-.SS--EEEEEEEHHHHHHHCSCCEEEEEEETTSSEBGGGSSHCCHT CS
          Methyltrans_RNA  88 seivplisersvvkldekkkdkklerwqkilieAaeQsgr.trlpevkepislkelleelkeadlklildeeekksleelsekkke 172
                               ++++++++ s +k++ ++k+  +   ++ l  +++Q+   t lpe+k  ++ + + + +++ ++ +ild + +ks  + +   ++
  PHY93_04755|PHY93_04755  96 RRFHFFKAALS-EKSYLDSKIFDNLAYEEFLLTGLSQAAIyTNLPEFKL-EKYNPAEQYINAPQK-FILDLKTDKSFLDVEIDFTK 178
                              ***********.9************************997366898854.677777776666666.9*****88887777777766 PP

                              HHCSEEEEEE--TT---HHHHHHHHHTTCEEEB-SSS---HHHHHHHHHHHH CS
          Methyltrans_RNA 173 lkevkvlliiGPEGGfsekEiellkeagfkpvsLgpriLRteTAalaalsal 224
                                  +v+l+iGPE+Gf +++ie+++ agf+ ++++ +iLR+e A+  a+s l
  PHY93_04755|PHY93_04755 179 ----SVTLAIGPERGFINEDIERFHHAGFTSIKISSSILRVEHAVYSAVSQL 226
                              ....9*******************************************9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (231 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       369  (0.0205812); expected 358.6 (0.02)
Passed bias filter:                      327  (0.0182386); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.42
# Mc/sec: 1662.19
//
Query:       PHY93_04760|PHY93_04760  [L=338]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.1e-08   35.0   0.0    2.8e-08   33.7   0.0    1.6  2  DEAD        DEAD/DEAH box helicase
    1.9e-07   31.4   0.0    4.6e-07   30.2   0.0    1.6  1  Helicase_C  Helicase conserved C-terminal domain
    0.00094   19.2   0.0     0.0017   18.3   0.0    1.4  1  ATPase_2    ATPase domain predominantly from Archaea
     0.0021   18.1   0.0     0.0035   17.4   0.0    1.4  1  ResIII      Type III restriction enzyme, res subunit
  ------ inclusion threshold ------
      0.042   14.2   0.1       0.43   10.9   0.1    2.2  1  AAA_16      AAA ATPase domain


Domain annotation for each model (and alignments):
>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.7   0.0   7.8e-12   2.8e-08      17     172 ..      14     154 ..       2     158 .. 0.76
   2 ?   -3.5   0.0       2.1   7.4e+03      88     104 ..     251     267 ..     222     273 .. 0.51

  Alignments for each domain:
  == domain 1  score: 33.7 bits;  conditional E-value: 7.8e-12
                              EEEEESTTSSHHHHHHHHHHHHHHHSTTSTS-EEEEEESSHHHHHHHHHHHHHHTTTSTSEEEEEETTSSHHHH.HHHHHTTCSEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxx RF
                     DEAD  17 vlvaaeTGsGKTlaflipvlqivyetkgktgpkalivePtreLaeqtlnnlkkfkkyidlrvlliiggvaardq.lskldngvdiv 101
                               l+ a++++GKT      v+ ++y   ++++ k+++v+P+r+La++++ +l+++ k+i     l  g+v+ +d  ++ l ++  ++
  PHY93_04760|PHY93_04760  14 TLLTAPVAAGKTRL----VV-EFY---RDHQYKVIFVSPLRALANEVYAKLESVEKNIF----LAGGKVPLEDCmVNFLAARKAFF 87 
                              57889999999987....33.455...49999************************754....5567788877515566788**** PP

                              EEEHHHHHH.HHHCTSSHCTTE.EEEEEETHHHHHHT..TTHHHHHHHHHHSHHHCTTSTTTSEEEEEESSBSHH CS
                              xxxxxxxxx.xxxxxxxxxxxx.xxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD 102 vgtpgrldd.llstgklnlsqv.rflVlDEadrlldq..gfsdfinrilnqlpqitcdgklqrqvivlSATlpkd 172
                              ++t + l + +l+  +   ++   +++lDE + +  +  +f++ ++  + ++     d   q  v+ ++AT++++
  PHY93_04760|PHY93_04760  88 IATMELLSEdFLEACT--AQNEkIIFILDEFHLFYHWgeSFRPILHDRFLAI----LD--TQAPVLGITATMSSE 154
                              *******994555333..34430469***********878888888866666....22..3345********965 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 2.1
                              HHHHHHHHTTCSEEEEE CS
                              xxxxxxxxxxxxxxxxx RF
                     DEAD  88 rdqlskldngvdivvgt 104
                               ++l++ +++vd++++t
  PHY93_04760|PHY93_04760 251 LEELKNCNEEVDCIFST 267
                              33444443445555555 PP

>> Helicase_C  Helicase conserved C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.2   0.0   1.3e-10   4.6e-07       9     111 .]     205     305 ..     194     305 .. 0.79

  Alignments for each domain:
  == domain 1  score: 30.2 bits;  conditional E-value: 1.3e-10
                              HHHHTTTTSEEEEEESSHHHHHHHHHHHHHT..TSTEEEESTTSTHHHHHHHHHHHH..TTSSSEEEESGGGTSSSTSTTESEEEE CS
               Helicase_C   9 llkleeeggkilifvntidrlekvklllekk..gikvavlhgelpqnereeileqfn..kgesdvLiatdvaerGidipkvnlVin 90 
                              +l ++++++  lif+ ++++++  +l+ +++  g++++ + g     e e  le+ +  ++e+d++ +t+ ++ G+++p+++ V++
  PHY93_04760|PHY93_04760 205 ELRQKNDKDVYLIFCSYRSEVD--ELVARTRrmGLRSLGCVG----GEVEMFLEELKncNEEVDCIFSTTTLSHGVNLPEIKKVFI 284
                              34566677777**********9..777444445888877777....5666666666655789**********************98 PP

                              SSSSSSHHHHHHHHTTSSSTT CS
               Helicase_C  91 fdlprnvtsyiqriGRtgRag 111
                                  +n++   q+iGR gR g
  PHY93_04760|PHY93_04760 285 NYEVKNYDFWLQMIGRGGRRG 305
                              88889**************75 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.0   4.7e-07    0.0017      19     128 ..      10     117 ..       2     141 .. 0.75

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 4.7e-07
                 ATPase_2  19 pneiyfiYGpegsGKtaLlkeiienledkdkyviyyialreesiskldefieeeeekkklekalgiavpkaeleeilk....eksk 100
                              p+++ +++ p   GKt+L+ e++  +   +++vi++++lr  +++ + +  e  e++ +l+  +  +++   ++ +        ++
  PHY93_04760|PHY93_04760  10 PSQFTLLTAPVAAGKTRLVVEFYRDH---QYKVIFVSPLRALANEVYAKL-ESVEKNIFLAGGK-VPLEDCMVNFL-AarkaFFIA 89 
                              677888888999******99998766...89***********99999998.4444444444333.33333333222.223123356 PP

                 ATPase_2 101 lvfkaielllekikkkgkkiiiiiDelq 128
                               ++   e++le+ + +  kii i+De+ 
  PHY93_04760|PHY93_04760  90 TMELLSEDFLEACTAQNEKIIFILDEFH 117
                              777788999999999***********85 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.0   9.6e-07    0.0035      19     169 ..       7     151 ..       1     153 [. 0.75

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 9.6e-07
                              ....TTSEEEEEESTTSTHHHHHHHHHHHH-S.....-EEEEESSHHHHHHHHHHGGGGTGG....GEEEESSS-B--.......- CS
                   ResIII  19 lkskrdkrglikmaTGtGKTlvaaklierllkkgkeekflflvprkslleqtleefkkflseaykeigkkvsgdkkkakekdstnk 104
                              l  +  +  l+ ++  +GKT++ +++ +  +      k++f+ p ++l +  + +++++ ++ + + gk+  +d   +    +  k
  PHY93_04760|PHY93_04760   7 LF-NPSQFTLLTAPVAAGKTRLVVEFYRDHQY-----KVIFVSPLRALANEVYAKLESVEKNIFLAGGKVPLEDCMVN--FLAARK 84 
                              54.555667788888899**999888766554.....8*************************997666655555555..466677 PP

                              SEEEEEHHHHHHTH........HHHTTT-SEEEEETGGGTTS..TTTHHH........HHT---SEEEEEESS- CS
                   ResIII 105 kilvttiqsldadseeeeeeseellrdrfdviiiDEaHrlgak.kswrei........lekfkeavllglTATp 169
                               ++++t + l++d       +    ++++ ++i DE H ++   +s+r i        l+   +a +lg+TAT+
  PHY93_04760|PHY93_04760  85 AFFIATMELLSEDF-----LEACTAQNEKIIFILDEFHLFYHWgESFRPIlhdrflaiLD--TQAPVLGITATM 151
                              88888888888888.....88888999999********9998765666665333211033..358999****97 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.1   0.00012      0.43      25     146 ..      12     118 ..       2     159 .. 0.64

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00012
                   AAA_16  25 elvllsGesGvGKsslvrellralekdggiflrgkcdqlesaipysalaqalareellrqlldeaesaeleawrekleealaavpe 110
                              + +ll+ + + GK++lv e++r  + + +if+     +          ++ala+ e++++l++ +++  l+  +  le+ +   + 
  PHY93_04760|PHY93_04760  12 QFTLLTAPVAAGKTRLVVEFYRDHQYK-VIFV-----S---------PLRALAN-EVYAKLESVEKNIFLAGGKVPLEDCMV--NF 79 
                              6899*****************977777.3331.....1.........1344533.677777777666566666666666555..44 PP

                   AAA_16 111 lagaea...srllellkrllallsrderplvlvlDdlqw 146
                              la+ +a     +  l  ++l+ ++ + ++++++lD+++ 
  PHY93_04760|PHY93_04760  80 LAARKAffiATMELLSEDFLEACTAQNEKIIFILDEFHL 118
                              444444554333333334444444444448888888884 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (338 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       643  (0.0358637); expected 358.6 (0.02)
Passed bias filter:                      536  (0.0298957); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.41
# Mc/sec: 2482.71
//
Query:       PHY93_04765|PHY93_04765  [L=48]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    0.00096   19.4   0.1     0.0012   19.1   0.1    1.2  1  BrnT_toxin  Ribonuclease toxin, BrnT, of type II toxin-antito


Domain annotation for each model (and alignments):
>> BrnT_toxin  Ribonuclease toxin, BrnT, of type II toxin-antitoxin system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.1   6.8e-08    0.0012      59      78 .]      16      39 ..      14      39 .. 0.77

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 6.8e-08
               BrnT_toxin 59 fteree....kiRiISaRkatkkE 78
                             ft+r      kiR+ISaR+a+kkE
  PHY93_04765|PHY93_04765 16 FTFRAIdgllKIRVISARYAHKKE 39
                             67775313446************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (48 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       251  (0.0139997); expected 358.6 (0.02)
Passed bias filter:                      190  (0.0105974); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.37u 0.23s 00:00:00.60 Elapsed: 00:00:00.40
# Mc/sec: 364.13
//
Query:       PHY93_04770|PHY93_04770  [L=97]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.5e-14   52.7   0.2      7e-14   52.1   0.2    1.2  1  CopG_antitoxin  CopG antitoxin of type II toxin-antitoxin sys
     0.0069   16.3   0.1       0.01   15.7   0.1    1.3  1  RHH_1           Ribbon-helix-helix protein, copG family
     0.0078   16.5   0.0      0.022   15.0   0.0    1.7  2  DUF2811         Protein of unknown function (DUF2811)
     0.0099   13.9   0.1      0.011   13.8   0.1    1.1  1  HPS6            Hermansky-Pudlak syndrome 6 protein
  ------ inclusion threshold ------
      0.026   14.5   0.4      0.099   12.6   0.4    1.9  1  RHH_3           Ribbon-helix-helix domain
      0.041   14.5   0.0      0.076   13.6   0.0    1.4  1  DUF1213         Protein of unknown function (DUF1213)
      0.044   13.6   0.0      0.076   12.9   0.0    1.3  1  Arc             Arc-like DNA binding domain
      0.079   12.9   0.0       0.12   12.3   0.0    1.3  1  RHH_4           Ribbon-helix-helix domain


Domain annotation for each model (and alignments):
>> CopG_antitoxin  CopG antitoxin of type II toxin-antitoxin system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.1   0.2   3.1e-17     7e-14      17      78 ..      26      89 ..      23      90 .. 0.91

  Alignments for each domain:
  == domain 1  score: 52.1 bits;  conditional E-value: 3.1e-17
           CopG_antitoxin 17 ekhDlseyldlskakkvrfp...eLkkktksislrlpedlLealkekAnkrdvpyqslikellee 78
                             e+ Dl+e++d  k k vrf+   e+++k+k+i+lr+pe++Le lk  A+k +  yq+li+++l+e
  PHY93_04770|PHY93_04770 26 EQ-DLTEFMDRTKYKWVRFSdlfEFQPKNKTITLRMPESMLECLKDIAEKENTDYQKLIRKALSE 89
                             44.****************622256************************************9986 PP

>> RHH_1  Ribbon-helix-helix protein, copG family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.1   4.7e-06      0.01       2      39 .]      56      93 ..      55      93 .. 0.96

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 4.7e-06
                             EEEEEEHHHHHHHHHHHHHHTSSHHHHHHHHHHHHHHH CS
                    RHH_1  2 vsirldeellerLdelarrrgrSrSelIReAlreyler 39
                             +++r++e++le L  +a++++     lIR Al e+l++
  PHY93_04770|PHY93_04770 56 ITLRMPESMLECLKDIAEKENTDYQKLIRKALSEFLAK 93
                             89*********************************975 PP

>> DUF2811  Protein of unknown function (DUF2811)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.0       1.2   2.6e+03       9      20 ..      24      35 ..      22      40 .. 0.78
   2 !   15.0   0.0   9.7e-06     0.022       4      42 ..      58      95 ..      55      97 .] 0.87

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 1.2
                  DUF2811  9 eLheslkkflet 20
                              L + l++f+++
  PHY93_04770|PHY93_04770 24 PLEQDLTEFMDR 35
                             588999999875 PP

  == domain 2  score: 15.0 bits;  conditional E-value: 9.7e-06
                  DUF2811  4 aeipeeLheslkkflethpnWDqdrllqaALslFLlqng 42
                               +pe++ e lk+ + ++ n D ++l+  ALs FL ++ 
  PHY93_04770|PHY93_04770 58 LRMPESMLECLKD-IAEKENTDYQKLIRKALSEFLAKKT 95
                             57999999**999.8889999**************8775 PP

>> HPS6  Hermansky-Pudlak syndrome 6 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.8   0.1   4.9e-06     0.011     210     263 ..      36      88 ..      27      97 .] 0.83

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 4.9e-06
                     HPS6 210 kaktllsvskllliwsPekdkitvaapskglvlkkslssakesDFkklvldlvg 263
                              ++ ++++ s l + ++P++++it+  p + l + k++ +++++D++kl+++ ++
  PHY93_04770|PHY93_04770  36 TKYKWVRFSDL-FEFQPKNKTITLRMPESMLECLKDIAEKENTDYQKLIRKALS 88 
                              56667777775.589***********************************9886 PP

>> RHH_3  Ribbon-helix-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.4   4.4e-05     0.099       5      42 ..      56      93 ..      52      94 .. 0.91

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 4.4e-05
                    RHH_3  5 ttvsidpelaekLkaLSekTrIprSklldeAiellLek 42
                             +t +++++ +e Lk++ ek      kl+++A++++L+k
  PHY93_04770|PHY93_04770 56 ITLRMPESMLECLKDIAEKENTDYQKLIRKALSEFLAK 93
                             6789999999999999999999999***********98 PP

>> DUF1213  Protein of unknown function (DUF1213)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   3.4e-05     0.076       6      20 ..      61      75 ..      61      87 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 3.4e-05
                  DUF1213  6 PeSVaEsvKDeaekp 20
                             PeS+ E++KD aek 
  PHY93_04770|PHY93_04770 61 PESMLECLKDIAEKE 75
                             9************74 PP

>> Arc  Arc-like DNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   3.4e-05     0.076       8      25 ..      57      74 ..      52      77 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 3.4e-05
                             EEECEHHHHHHHHHHHHH CS
                      Arc  8 nlRlPeevrekvkevAee 25
                              lR+Pe ++e +k  Ae+
  PHY93_04770|PHY93_04770 57 TLRMPESMLECLKDIAEK 74
                             69**************97 PP

>> RHH_4  Ribbon-helix-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   5.3e-05      0.12      15      42 ..      58      85 ..      53      93 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 5.3e-05
                             EEEEHHHHHHHHHHHHHTT--HHHHHHH CS
                    RHH_4 15 irLEpafWdaLeeiArregltvnaLiae 42
                             +r+ +++ ++L++iA++e++  ++Li +
  PHY93_04770|PHY93_04770 58 LRMPESMLECLKDIAEKENTDYQKLIRK 85
                             67888999*****************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (97 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1049  (0.0585086); expected 358.6 (0.02)
Passed bias filter:                      495  (0.0276089); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 732.52
//
Query:       PHY93_04775|PHY93_04775  [L=261]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.9e-07   28.8   0.3    1.3e-06   28.3   0.3    1.3  1  RecO_C         Recombination protein O C terminal
    2.6e-06   27.3   0.1    5.3e-06   26.3   0.1    1.5  1  RecO_N         Recombination protein O N terminal
      0.007   16.3   0.0      0.013   15.4   0.0    1.5  1  DUF4428        Domain of unknown function (DUF4428)
  ------ inclusion threshold ------
      0.013   15.5   0.1       0.17   11.9   0.1    2.2  2  Zn_Tnp_IS1595  Transposase zinc-ribbon domain
      0.057   13.1   0.6       0.12   12.1   0.2    1.7  2  RecO_N_2       RecO N terminal


Domain annotation for each model (and alignments):
>> RecO_C  Recombination protein O C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.3   0.3   3.7e-10   1.3e-06      21     130 ..     115     233 ..      86     254 .. 0.77

  Alignments for each domain:
  == domain 1  score: 28.3 bits;  conditional E-value: 3.7e-10
                              S-SSS--HHHHHHHHHHHHHH....HHSS-HHHHHHH.HHHHHHHHTTS----SB-TTT--BS--EE-TTT.........SSEE-T CS
                   RecO_C  21 lpeeepnpeLFdlllatLdaL....deasdaalallv.felrlLallGyapdldsCaacgekialaafspswgg....llcsecaa 97 
                               +e+     LF  l ++L +L    +++s + + + v f+ +lL +lG+ p+ ++C  cge+++ ++  +   +    +++ + ++
  PHY93_04775|PHY93_04775 115 HEENTEMVGLFTTLSNSLVHLekclQAKSFYTHSHSViFLTKLLLHLGVFPEREHCTLCGEELQKFNDMYLIAEeggfACPPCMNQ 200
                              467778888************77666666999999999***********************9988766555444346455555555 PP

                              TT-SS----HHHHHHHHHTTTS-HHHHHHS--- CS
                   RecO_C  98 kapagrplspetlallrlllrgdleklgelkvs 130
                              + + +++   e  +ll  +++++++ lg++k+ 
  PHY93_04775|PHY93_04775 201 RTAYSVQSGRELWELLGHIAHTKYQDLGSIKLE 233
                              555566666666678888888888888877665 PP

>> RecO_N  Recombination protein O N terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.3   0.1   1.5e-09   5.3e-06       1      74 [.       1      76 [.       1      81 [. 0.88

  Alignments for each domain:
  == domain 1  score: 26.3 bits;  conditional E-value: 1.5e-09
                             X-EEEEEEEEEEEEEETTSEEEEEEEETT.EEEEEEEET-..TTSTTTT.TS-TT-EEEEEEE..SSS-SSEEEEEE CS
                   RecO_N  1 MslvkteaiVLksrkygEsdlivtlfTrehGkvsalargarksksrlra.llqpftllevqlr..kkgrgLktlkqa 74
                             M ++k e+iVL++++y E  +i +l+ r+  kvs+++ g+r    + ++ +++++  l+v+lr  k  ++++  k++
  PHY93_04775|PHY93_04775  1 M-QTKIEGIVLSKIPYDERHIIAHLLLRSGRKVSIVFYGGRGGGVKQKSsIIELGFMLSVELRisKSTGEIYHAKEW 76
                             7.679************************99**********999888888***********9977777777766665 PP

>> DUF4428  Domain of unknown function (DUF4428)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   3.8e-06     0.013       1      31 [.     169     202 ..     169     216 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 3.8e-06
                  DUF4428   1 iCaiCgkKigllkr...lkleDgyvCkdClkKls 31 
                              +C +Cg+++ +++    ++ e g+ C+ C+++ +
  PHY93_04775|PHY93_04775 169 HCTLCGEELQKFNDmylIAEEGGFACPPCMNQRT 202
                              6***********88788899999********954 PP

>> Zn_Tnp_IS1595  Transposase zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.0      0.12   4.3e+02      14      27 ..     163     176 ..     156     183 .. 0.78
   2 ?   11.9   0.1   4.8e-05      0.17      17      39 ..     190     214 ..     188     214 .. 0.91

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.12
            Zn_Tnp_IS1595  14 rWpngfvCPhCgsr 27 
                              ++p++ +C  Cg +
  PHY93_04775|PHY93_04775 163 VFPEREHCTLCGEE 176
                              7899999****976 PP

  == domain 2  score: 11.9 bits;  conditional E-value: 4.8e-05
            Zn_Tnp_IS1595  17 ngfvCPhCgsr.kayrikt.rglfq 39 
                              +gf CP C ++ +ay++++ r+l++
  PHY93_04775|PHY93_04775 190 GGFACPPCMNQrTAYSVQSgRELWE 214
                              579***************9899996 PP

>> RecO_N_2  RecO N terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.2   3.3e-05      0.12       2      47 ..       6      58 ..       5      75 .. 0.89
   2 ?   -3.2   0.0         2   7.2e+03      29      41 ..     141     153 ..     133     156 .. 0.73

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 3.3e-05
                 RecO_N_2  2 qGfilriqkvkdedlivtiltkeklktlyrfyGarh.......sliqlgtkid 47
                             +G++l+   + +  +i  +l ++  k+   fyG r        s+i+lg+ + 
  PHY93_04775|PHY93_04775  6 EGIVLSKIPYDERHIIAHLLLRSGRKVSIVFYGGRGggvkqksSIIELGFMLS 58
                             8**********************************999999999999998765 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 2
                 RecO_N_2  29 lyrfyGarhsliq 41 
                              +  fy   hs+i 
  PHY93_04775|PHY93_04775 141 AKSFYTHSHSVIF 153
                              5568888999985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (261 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       602  (0.0335769); expected 358.6 (0.02)
Passed bias filter:                      464  (0.0258799); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.48u 0.20s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 2003.82
//
Query:       PHY93_17335|PHY93_17335  [L=83]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.3e-12   47.4   6.4    1.3e-12   47.4   6.4    1.6  2  CsbD       CsbD-like
  ------ inclusion threshold ------
      0.059   13.3   0.0      0.064   13.2   0.0    1.2  1  TetR_C_13  Tetracyclin repressor-like, C-terminal domain


Domain annotation for each model (and alignments):
>> CsbD  CsbD-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.4   6.4   1.5e-16   1.3e-12       1      49 [.       7      55 ..       7      59 .. 0.95
   2 ?   -1.9   0.1      0.37   3.3e+03      43      51 ..      67      75 ..      64      80 .. 0.64

  Alignments for each domain:
  == domain 1  score: 47.4 bits;  conditional E-value: 1.5e-16
                     CsbD  1 dkikgkaeqvkGkvKeaaGkaTgdekleaeGkadqlkGkaqqkygdakd 49
                             d +kgk+ ++kG+v++++Gk+T+de ++++G  +   G +qqkyg+a  
  PHY93_17335|PHY93_17335  7 DTAKGKWLEIKGEVQKTWGKLTNDELDKTKGDIKIISGLLQQKYGKAEK 55
                             789*******************************************975 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 0.37
                     CsbD 43 kygdakdaa 51
                             +y+  kd+a
  PHY93_17335|PHY93_17335 67 RYEAKKDKA 75
                             455555554 PP

>> TetR_C_13  Tetracyclin repressor-like, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   7.1e-06     0.064      29      66 ..      44      81 ..      20      83 .] 0.91

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 7.1e-06
                             HHHHHTGGGS-TTHHHHHHHHHHHHHHHHHHHHHHHHC CS
                TetR_C_13 29 GnLgqEvaalpesfrerleevledwqkrvaacleeaqe 66
                             G L+q  ++ +++++e+l++++++++++  +++ee ++
  PHY93_17335|PHY93_17335 44 GLLQQKYGKAEKDYNEKLSNIFKRYEAKKDKAIEETKK 81
                             8899****************************999886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (83 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1081  (0.0602934); expected 358.6 (0.02)
Passed bias filter:                      385  (0.0214736); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.41
# Mc/sec: 605.74
//
Query:       PHY93_04780|PHY93_04780  [L=609]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      9e-37  127.2   5.3      9e-37  127.2   5.3    2.1  2  ABC_membrane  ABC transporter transmembrane region
    1.7e-32  112.8   0.1    3.4e-32  111.8   0.1    1.5  1  ABC_tran      ABC transporter
    1.4e-05   24.6   1.1    0.00025   20.5   1.1    2.2  1  SMC_N         RecF/RecN/SMC N terminal domain
    3.3e-05   23.9   0.0      6e-05   23.0   0.0    1.4  1  RsgA_GTPase   RsgA GTPase
    0.00077   18.4   1.3     0.0024   16.7   0.1    2.0  2  ABC_ATPase    Predicted ATPase of the ABC class
     0.0017   18.4   0.2     0.0055   16.8   0.1    1.9  2  MMR_HSR1      50S ribosome-binding GTPase
     0.0022   17.7   0.1     0.0051   16.5   0.1    1.6  1  AAA_29        P-loop containing region of AAA domain
     0.0045   16.9   0.1        1.8    8.5   0.0    2.4  2  NTPase_1      NTPase
  ------ inclusion threshold ------
      0.012   16.0   0.2       0.03   14.7   0.2    1.7  1  AAA_16        AAA ATPase domain
      0.016   15.0   0.0      0.036   13.8   0.0    1.5  1  AAA_30        AAA domain
      0.053   13.8   0.1       0.18   12.1   0.1    2.0  1  AAA_22        AAA domain
       0.06   12.5   0.0        0.1   11.8   0.0    1.3  1  DUF815        Protein of unknown function (DUF815)
      0.077   11.8   0.0       0.11   11.3   0.0    1.1  1  Tim54         Inner membrane protein import complex subunit T
        0.1   12.7   0.0       0.22   11.7   0.0    1.5  1  AAA_33        AAA domain
       0.14   12.4   0.1        5.3    7.3   0.0    2.5  2  Roc           Ras of Complex, Roc, domain of DAPkinase
       0.27   11.5   0.9        3.4    8.0   0.9    2.5  1  SbcCD_C       Putative exonuclease SbcCD, C subunit


Domain annotation for each model (and alignments):
>> ABC_membrane  ABC transporter transmembrane region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  127.2   5.3   8.1e-40     9e-37      37     273 ..      84     329 ..      20     330 .. 0.87
   2 ?    0.6   0.0      0.32   3.6e+02     173     208 ..     540     575 ..     531     578 .. 0.80

  Alignments for each domain:
  == domain 1  score: 127.2 bits;  conditional E-value: 8.1e-40
                              H..........HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSTHHHHHHSCHHHHHHHHHHHHHHHH CS
             ABC_membrane  37 t..........ealnvysllllllglaqfilallqsyllnvtgerlskrlrrklfkkilrqpmsffdtnsvGellsrltndvsklr 112
                                          +  +++  lll+gl++f + + ++y+l  +ge++++++r+k+f k+ ++p+sf+++n+ G++ls l nd++ + 
  PHY93_04780|PHY93_04780  84 VdsvlttkssfNQFLLLAAGLLLVGLLNFPVRFYHFYWLRFVGEKINNDVRTKIFTKLQKLPTSFYNQNKQGRMLSTLLNDAE-IF 168
                              04444444444559999999***************************************************************.66 PP

                              HHHCHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHTTT CS
             ABC_membrane 113 dglgeklglffqslltfvgglivmfylgwkltlvllailpliilvsaviakilkklkkkeqkavakassvaeEslsgirtVkafgr 198
                                  + l+++++  +  ++ l+++++  w+ltlv++++ p+++ ++ + +k++k+++ + q+ +a+++  + E ls +++ kaf+ 
  PHY93_04780|PHY93_04780 169 AQSFRALVDLVREPTKGLVYLGMAIWADWQLTLVIFVVGPMFVAIFQISGKKIKNNQSRVQDGRAELTHNLSEGLSSHKVTKAFNL 254
                              666799******************************************************************************** PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSTHHHHHHHHHHHHHHHHH CS
             ABC_membrane 199 eeyflekfekaleeakkagikkaianglligitqllgllsyalalwfGttlvisgelsvgdlvvflslfailfga 273
                              ++++ ++f+ +  ++ +  +k ++++ l  ++ +l+g+++++ +++f+++ ++ g +++gd++ f   +a+l+ +
  PHY93_04780|PHY93_04780 255 QQFVMDRFKGSQAYYFHFIMKTCKVEELAHPFVELVGTIAFSGVIVFAYFRIHYGGMTIGDFLQFAIALALLMDP 329
                              **************************************************************9999999988876 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.32
                              HHHHHHHHHHHHHHHHTHHHHHHTTTHHHHHHHHHH CS
             ABC_membrane 173 qkavakassvaeEslsgirtVkafgreeyflekfek 208
                               ++ +k+ + a E++ g +tV+a ++    ++ +++
  PHY93_04780|PHY93_04780 540 DNESEKVVQRALEAIAGNKTVIAVAHRLSTIQDYDQ 575
                              55667999**************98888777777776 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  111.8   0.1   3.1e-35   3.4e-32       2     137 .]     390     537 ..     389     537 .. 0.91

  Alignments for each domain:
  == domain 1  score: 111.8 bits;  conditional E-value: 3.1e-35
                              EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH........ CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx........ RF
                 ABC_tran   2 knvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren........ 79 
                              +n+slk+k+g+kva+vG +G+GKStL++ll+gl+  + G+i +dg  +++++l+ lrk +g ++q+ +lf ++ ++ n        
  PHY93_04780|PHY93_04780 390 QNLSLKIKKGQKVALVGLSGSGKSTLINLLLGLYPIEHGQIFIDGIAISQIKLHALRKLFGLVSQDIFLFHDS-IKANlaiggnfs 474
                              89**********************************************************************9.99999***9977 PP

                              ....HHHTC......HHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              ....xxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ....esdee......iekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                                      +      ++++++kl +    +t++++++++LSgGq+qr+ +ara+l++ ++ll+DE+t+
  PHY93_04780|PHY93_04780 475 eaeiR---RalevsyASEFVDKLPQGL--ETIIGDRGAKLSGGQQQRLTIARAFLQNTDILLFDEATS 537
                              54431...1455556888888888666..9************************************96 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.5   1.1   2.2e-07   0.00025     105     211 ..     222     579 ..     213     585 .. 0.84

  Alignments for each domain:
  == domain 1  score: 20.5 bits;  conditional E-value: 2.2e-07
                              TTSEEEEEETTEEE-HHHHHHHHHCTT-STT....................................................... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....................................................... RF
                    SMC_N 105 rkgeseykingkevtkkevsellesagiske....................................................... 135
                              ++++s+++ +g+    +++se l+s++++k                                                        
  PHY93_04780|PHY93_04780 222 KNNQSRVQ-DGRAELTHNLSEGLSSHKVTKAfnlqqfvmdrfkgsqayyfhfimktckveelahpfvelvgtiafsgvivfayfri 306
                              44443332.44444445555555555555556666666668888888888888888888888888888888888999999999999 PP

                              ...................................................................................... CS
                              ...................................................................................... RF
                    SMC_N 136 ...................................................................................... 135
                                                                                                                    
  PHY93_04780|PHY93_04780 307 hyggmtigdflqfaialallmdpirkfsqanvkigqgvaaldrineilhleeekdtgthiplhfnhdivvdnvtfsygennviqnl 392
                              99999999999999999999999999999999999999999999999999999999999999999999999999999999999999 PP

                              ...................................................................................... CS
                              ...................................................................................... RF
                    SMC_N 136 ...................................................................................... 135
                                                                                                                    
  PHY93_04780|PHY93_04780 393 slkikkgqkvalvglsgsgkstlinlllglypiehgqifidgiaisqiklhalrklfglvsqdiflfhdsikanlaiggnfseaei 478
                              99999999999999999999999999999999999999999999999999999999999999999999999999999999999999 PP

                              .............................CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTTSEE CS
                              .............................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 136 .............................lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkeksknaQf 192
                                                            LSgG+++ +     +A    + + + l+De  +aLD++  k v + l++   n  +
  PHY93_04780|PHY93_04780 479 rralevsyasefvdklpqgletiigdrgaKLSGGQQQRL----TIARAFLQNTDILLFDEATSALDNESEKVVQRALEAIAGNKTV 560
                              999*************************9******9855....55556688999******************************** PP

                              EEE-SSHHHCCC-SCEEEE CS
                              xxxxxxxxxxxxxxxxxxx RF
                    SMC_N 193 ivislreemlekadklvgv 211
                              i +++r  ++++ d+++ +
  PHY93_04780|PHY93_04780 561 IAVAHRLSTIQDYDQIFVM 579
                              ***********99998765 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.0   0.0   5.4e-08     6e-05      76     123 ..     375     423 ..     352     433 .. 0.84

  Alignments for each domain:
  == domain 1  score: 23.0 bits;  conditional E-value: 5.4e-08
                              TSEEEE--TTTHTTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT- CS
              RsgA_GTPase  76 gyevllvsaktkegleelkellkd.ktsvlvGqSGvGKStLinallpel 123
                               ++ ++ s  +++ +++l+ ++k+ + ++lvG SG GKStLin ll+  
  PHY93_04780|PHY93_04780 375 VVDNVTFSYGENNVIQNLSLKIKKgQKVALVGLSGSGKSTLINLLLGLY 423
                              566677888899999****9999989******************99755 PP

>> ABC_ATPase  Predicted ATPase of the ABC class
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.1      0.28   3.2e+02     240     264 ..     394     419 ..     378     427 .. 0.77
   2 !   16.7   0.1   2.2e-06    0.0024     290     366 ..     475     547 ..     472     581 .. 0.84

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 0.28
                              EEE-SS.EEEEEE-TTSSHHHHHHHH CS
               ABC_ATPase 240 mgipkG.vtlIvGggfhGKsTLLeAl 264
                              + i+kG  +++vG    GKsTL++ l
  PHY93_04780|PHY93_04780 394 LKIKKGqKVALVGLSGSGKSTLINLL 419
                              4588887677899999******9854 PP

  == domain 2  score: 16.7 bits;  conditional E-value: 2.2e-06
                              ---TT--EEEE--TTTB---CCC--ST.TEEESS--HHHHHHHHHHHHHHTT-SEEEEEGGGS-HHHH---HHHHHHS CS
               ABC_ATPase 290 raEdgrsvkgvDispFinnLPegkdtt.kfstedASGStsqAanimealeagakllLiDEDtsAtNlmirDermqelv 366
                              +aE +r+++    s F+++LP+g +t      ++ SG   q   i++a   ++++lL+DE tsA      D+  +++v
  PHY93_04780|PHY93_04780 475 EAEIRRALEVSYASEFVDKLPQGLETIiGDRGAKLSGGQQQRLTIARAFLQNTDILLFDEATSAL-----DNESEKVV 547
                              69999999******************977778899****************************94.....55555555 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.1   4.9e-06    0.0055       1      21 [.     401     421 ..     401     445 .. 0.89
   2 ?   -2.3   0.0       4.1   4.6e+03      62     100 ..     515     546 ..     501     575 .. 0.51

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 4.9e-06
                              EEEEEESTTSSHHHHHHHHHT CS
                 MMR_HSR1   1 evaivGrpNvGKStLinaltg 21 
                              +va+vG + +GKStLin l+g
  PHY93_04780|PHY93_04780 401 KVALVGLSGSGKSTLINLLLG 421
                              69****************997 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 4.1
                              HHHHHHHHHHHHHCTSEEEEEEETTTTCSHHHHHHHHHH CS
                 MMR_HSR1  62 eekglgkaflaleeadlillvvdaseeklkpldeeleel 100
                              ++  +++afl++ +  ++  ++d +    ++ld+e e++
  PHY93_04780|PHY93_04780 515 QRLTIARAFLQNTD--IL--LFDEA---TSALDNESEKV 546
                              44466666665443..33..33311...12222222222 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.1   4.6e-06    0.0051      16      39 ..     393     416 ..     386     426 .. 0.81

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 4.6e-06
                   AAA_29  16 tieidlkg.atlltGpsGsGKSTll 39 
                              +++i+  g  + l+G sGsGKSTl+
  PHY93_04780|PHY93_04780 393 SLKIKK-GqKVALVGLSGSGKSTLI 416
                              567774.459**************9 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.9   0.0    0.0096        11       2      47 ..     402     449 ..     401     455 .. 0.75
   2 !    8.5   0.0    0.0016       1.8      88     153 ..     519     585 ..     500     594 .. 0.83

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.0096
                              EEEE--TTSSHHHHHHHHHHH..H...GGGEEEEEEEEE-------EE CS
                 NTPase_1   2 vfiTGppGvGKtTlvkkvlel..lkssgvkvgGfyteevreggrrigF 47 
                              v++ G +G+GK+Tl++ +l l  +++ ++ ++G+  ++++ +  r  F
  PHY93_04780|PHY93_04780 402 VALVGLSGSGKSTLINLLLGLypIEHGQIFIDGIAISQIKLHALRKLF 449
                              7899************99876336666788888888777766666655 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.0016
                              HHHHHHHHH-EEEE---.STTGGG-HHHHHHHHHHHTTTSEEEEE--SS--SHHHHHHHT-TT-EEE CS
                 NTPase_1  88 alrkalseadviviDEi.GkmElkskkfkeaveevLksekpvlavihrrkdlalveeirerkdvkvf 153
                              + r  l+++d+++ DE    +  +s+k+ +   e+++ +k v+av hr ++ + +++i   +d+k++
  PHY93_04780|PHY93_04780 519 IARAFLQNTDILLFDEAtSALDNESEKVVQRALEAIAGNKTVIAVAHRLSTIQDYDQIFVMRDGKLI 585
                              44555599********7257****************************9988888888777777765 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.2   2.6e-05      0.03      26     107 ..     401     500 ..     388     563 .. 0.57

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 2.6e-05
                   AAA_16  26 lvllsGesGvGKsslvrellralekdg.giflrgkcdqlesaipysalaqalareellrqllde......aesaeleawrekleea 104
                               v l+G sG+GKs+l++ ll  +  ++  if+ g + +          +++ a ++l+  + ++      + +a+l+    + e++
  PHY93_04780|PHY93_04780 401 KVALVGLSGSGKSTLINLLLGLYPIEHgQIFIDGIAISQ---------IKLHALRKLFGLVSQDiflfhdSIKANLAIGGNFSEAE 477
                              4899****************8666664366676666666.........22222335555555554444442222333333322222 PP

                   AAA_16 105 la....................a 107
                              ++                     
  PHY93_04780|PHY93_04780 478 IRralevsyasefvdklpqgleT 500
                              22222222224444444444440 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   3.2e-05     0.036      20     115 ..     401     553 ..     392     567 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 3.2e-05
                   AAA_30  20 vavltGpAGtGKttalkalreaweaaggrvi..glAptgkaAkvLaeelgieastiakllkrlk...................... 81 
                               ++l+G  G+GK+t+++ l  ++  + g+++  g+A ++   ++L++ +g+ ++ i  + ++ k                      
  PHY93_04780|PHY93_04780 401 KVALVGLSGSGKSTLINLLLGLYPIEHGQIFidGIAISQIKLHALRKLFGLVSQDIFLFHDSIKanlaiggnfseaeirralevsy 486
                              5789*******************99965655469************9888888888777776667777777777777777777778 PP

                   AAA_30  82 .................................grarlepgtllivDEagmvdtkqlaallkaaeka 115
                                                               +ra l++ ++l+ DEa  +  ++ ++++++a +a
  PHY93_04780|PHY93_04780 487 asefvdklpqgletiigdrgaklsggqqqrltiARAFLQNTDILLFDEATSALDNESEKVVQRALEA 553
                              8888888888888999999999999999999987677888899999999998777777777666553 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.1   0.00016      0.18       8      32 ..     402     426 ..     395     560 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00016
                   AAA_22   8 lvvtGesGtGKTtllrrlleqldee 32 
                              ++++G sG+GK+tl++ ll  +++e
  PHY93_04780|PHY93_04780 402 VALVGLSGSGKSTLINLLLGLYPIE 426
                              689***************9998865 PP

>> DUF815  Protein of unknown function (DUF815)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   8.9e-05       0.1      48     104 ..     394     454 ..     358     463 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 8.9e-05
                   DUF815  48 leglpannvLLwGarGtGKSslvkallneyaeeg....Lrlievekedlkelpklvellre 104
                              l+ ++ ++v L+G  G+GKS+l+  ll  y  e+    +  i +++ +l+ l kl+ l+++
  PHY93_04780|PHY93_04780 394 LKIKKGQKVALVGLSGSGKSTLINLLLGLYPIEHgqifIDGIAISQIKLHALRKLFGLVSQ 454
                              45678899*******************9997766677777799999999999999988865 PP

>> Tim54  Inner membrane protein import complex subunit Tim54
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   9.7e-05      0.11     281     321 ..     104     144 ..      55     167 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 9.7e-05
                    Tim54 281 phllGflntpiriyrfltrRkladevgrevaavvlakirpy 321
                                l+G+ln+p r y+f+  R + +++ ++v + +++k ++ 
  PHY93_04780|PHY93_04780 104 LLLVGLLNFPVRFYHFYWLRFVGEKINNDVRTKIFTKLQKL 144
                              5689**************************99998886554 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0    0.0002      0.22       2      20 ..     402     420 ..     402     433 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.0002
                   AAA_33   2 vllvGlpGsGKstlaerll 20 
                              v lvGl+GsGKstl+  ll
  PHY93_04780|PHY93_04780 402 VALVGLSGSGKSTLINLLL 420
                              569***********98776 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3   0.0    0.0047       5.3       1      19 [.     401     419 ..     401     444 .. 0.91
   2 ?    2.3   0.0      0.16   1.8e+02      64     117 ..     511     566 ..     510     569 .. 0.73

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0047
                              EEEEESSTTSSHHHHHHCH CS
                      Roc   1 KvvlvGdsgvGKtsllkrf 19 
                              Kv lvG sg+GK++l++ +
  PHY93_04780|PHY93_04780 401 KVALVGLSGSGKSTLINLL 419
                              89*************9866 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.16
                              -SGGCTTTT-HHHHCTSCEEEEEEEGHHH..HCHHHHHHHHHHHCSSS-EEEEEE- CS
                      Roc  64 aGqerfrslhplylreaalailvydsrss..enlkeWlkelkkvagkspvilvgnk 117
                              +Gq++  ++++ +l++ +++++   ++    e+ k   + l++ ag++ vi v+ +
  PHY93_04780|PHY93_04780 511 GGQQQRLTIARAFLQNTDILLFDEATSALdnESEKVVQRALEAIAGNKTVIAVAHR 566
                              699999999999**999988765443332113445567889999999999999876 PP

>> SbcCD_C  Putative exonuclease SbcCD, C subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   0.9     0.003       3.4      31      88 ..     507     551 ..     479     553 .. 0.70

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.003
                  SbcCD_C  31 gtlSGGekqflaylalaaalaalyssaegrepalrlvfLDEAFsklDeesiatllell 88 
                              ++lSGG++q l+   +a   +a ++       + +++++DEA s lD+es + + ++l
  PHY93_04780|PHY93_04780 507 AKLSGGQQQRLT---IA---RAFLQ-------NTDILLFDEATSALDNESEKVVQRAL 551
                              566666664433...22...22222.......3689************9988877766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (609 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       719  (0.0401026); expected 358.6 (0.02)
Passed bias filter:                      533  (0.0297284); expected 358.6 (0.02)
Passed Vit filter:                       103  (0.00574488); expected 17.9 (0.001)
Passed Fwd filter:                        16  (0.000892409); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              16  [number of targets reported over threshold]
# CPU time: 0.72u 0.27s 00:00:00.99 Elapsed: 00:00:00.44
# Mc/sec: 4127.56
//
Query:       PHY93_04785|PHY93_04785  [L=440]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.7e-18   66.5   0.1    3.5e-18   65.5   0.1    1.6  1  HGTP_anticodon  Anticodon binding domain
    4.8e-09   36.4   0.0    1.4e-08   34.9   0.0    1.8  1  tRNA-synt_2b    tRNA synthetase class II core domain (G, H, P
  ------ inclusion threshold ------
       0.12   11.6   0.0       0.21   10.9   0.0    1.3  1  CbiK            Cobalt chelatase (CbiK)


Domain annotation for each model (and alignments):
>> HGTP_anticodon  Anticodon binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.5   0.1   5.8e-22   3.5e-18       1      93 [.     349     438 ..     349     439 .. 0.92

  Alignments for each domain:
  == domain 1  score: 65.5 bits;  conditional E-value: 5.8e-22
                              SEEEEESSSSHHHHHHHHHHHHHHHHTTTSEEEEESSSSTHHHHHHHHHHTT-SEEEEE-HHHHHHTEEEEEETTTCEEEEEETTH CS
           HGTP_anticodon   1 qvvviplnekaeeleeyakklaeeLraagirvelddsnesigkkireadllgipfavvvGekelekgtvtvrdrdtreqervslde 86 
                              +++++pl++k+e lee  +kl ++   + +++e+d  ++sigk++r+ d++g+pf+++v++++l+++ +t+rdrdt+ qer++l++
  PHY93_04785|PHY93_04785 349 KAAIMPLSKKSE-LEEISNKLFNDVIVD-YKAEYD-IAGSIGKRYRRQDEIGTPFCLTVDFDTLNDHAITIRDRDTMVQERIALAQ 431
                              689******666.999999999999854.899998.59************************************************ PP

                              HHHHHHH CS
           HGTP_anticodon  87 lveklke 93 
                              + ++lk+
  PHY93_04785|PHY93_04785 432 VQNYLKD 438
                              ****997 PP

>> tRNA-synt_2b  tRNA synthetase class II core domain (G, H, P, S and T)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.9   0.0   2.3e-12   1.4e-08       8     176 ..     142     320 ..     131     323 .. 0.72

  Alignments for each domain:
  == domain 1  score: 34.9 bits;  conditional E-value: 2.3e-12
                              SEEEEE-SSSHHHHHHHHHHHEEEB.GGSSEEEEEEEEEEBTTTSTBCTTTB-SEEEEEEEEEEESGGGHHHHHHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             tRNA-synt_2b   8 dreyiLkPtneetfvelirdevlrs.krLPlklyqiqtkyRdEksdsrGLlRvreFhqkdgyvfhaeaslddslrdlikaisrife 92 
                                  +L+P+  +++   + +      k+LP+ ++qi+  +R+E      ++R reF+q +   f++++     +++  ++  ++  
  PHY93_04785|PHY93_04785 142 ASTVYLRPETAQGIFVNFLNVQTTMrKKLPFGIAQIGKAFRNEITPGNFIFRTREFEQMEMQYFVKPGLQMIAMEEWRNTRWKWHL 227
                              46789*****999877777665533377***************985779******************9444444455555556666 PP

                              HTT.SCEEEEEE...GTTSC..BTTSEEEEEEEEETTTSEEEEEEEEEEEET...HHHHHTTE...EEECTTS..SEEEEEEEEEE CS
                              xxxxxxxxxxxx...xxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxx...xxxxxxx..xxxxxxxxxxx RF
             tRNA-synt_2b  93 rlglefraiiel...msaks..adykdkkefeavsesltkgieigtiqklgt...rlserlga...tvldenn..reksvimicaa 165
                              + gl   +++ +       s    ++  +++e  ++ ++  +e+  i+ + +   ++ +++++   +++d++n  ++  +++i  +
  PHY93_04785|PHY93_04785 228 ENGLRPEKLKWSphgP--DSlaHYADAATDIEYEFP-MG-WGEMEGIHSRTDfdlKQHQEFSGknmQYVDQANnnEKYLPYVIETS 309
                              7799888888887442..333245566778888888.33.3346666655443357778887777788888763244569999999 PP

                              EEHHHHHHHHH CS
                              xxxxxxxxxxx RF
             tRNA-synt_2b 166 igveRllsail 176
                              +g  R l+ai+
  PHY93_04785|PHY93_04785 310 VGADRCLLAIM 320
                              *****999986 PP

>> CbiK  Cobalt chelatase (CbiK)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   3.5e-05      0.21     102     169 ..     103     169 ..      89     180 .. 0.87

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 3.5e-05
                              SSEEEEE--SCS......SHHHHHHHHHHHHTTS----TTEEEEEEE---SCHHHHHHHHHHHHHHHC CS
                     CbiK 102 fekiklgrPlldykGvedsteDykevvealkdeierarkdealvfvgHGtehesnavyaeldkvlkek 169
                               ++i +++P ++ +G +ds  D++++  ++k ++  ++ ++ +v++   t+   +  + ++++ +++k
  PHY93_04785|PHY93_04785 103 ADNIDVTKPCIK-CGAKDSFTDIRQFNLMFKTQMGAMEDTASTVYLRPETAQGIFVNFLNVQTTMRKK 169
                              4689********.8*********************999*********999999999999999999985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (440 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       408  (0.0227564); expected 358.6 (0.02)
Passed bias filter:                      361  (0.020135); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.41
# Mc/sec: 3240.99
//
Query:       PHY93_04790|PHY93_04790  [L=887]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.1e-86  289.1   0.0    5.4e-86  288.3   0.0    1.3  1  PEP-utilizers_C  PEP-utilising enzyme, TIM barrel domain
    2.4e-63  214.4   0.0    1.3e-60  205.4   0.0    3.1  1  PPDK_N           Pyruvate phosphate dikinase, PEP/pyruvate bi
      1e-28   98.8   1.7    2.3e-28   97.7   1.7    1.6  1  PEP-utilizers    PEP-utilising enzyme, mobile domain
  ------ inclusion threshold ------
       0.12   12.3   0.0       0.28   11.1   0.0    1.6  1  RNA_pol_Rpb1_4   RNA polymerase Rpb1, domain 4


Domain annotation for each model (and alignments):
>> PEP-utilizers_C  PEP-utilising enzyme, TIM barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  288.3   0.0   1.2e-89   5.4e-86       6     292 ..     535     883 ..     531     885 .. 0.95

  Alignments for each domain:
  == domain 1  score: 288.3 bits;  conditional E-value: 1.2e-89
                              SCCCCCCCHCCCXBCEEEEEESSCHHHHHHHHCTXSSEEEEEHHHHCTTSCCHHHHHH....................HHHHHHHH CS
          PEP-utilizers_C   6 klktllavtkdgkkikvlaNidtpedaekalengaeGiGLlRtEflfmareelpteee....................qaeaykkv 71 
                              ++   +++ ++ kk+ v  N+dtp+da+ a ++gaeGiGL+RtE++f+a++++ +++e                    q+e++ ++
  PHY93_04790|PHY93_04790 535 DFAMYMKWSDEFKKLGVRTNADTPDDAKVAVKFGAEGIGLCRTEHMFFAKDRILAVREmifasnikdrqlalakilpfQREDFVGI 620
                              5667899******************************************************************************* PP

                              HHHTTTSEEEEEXXXSSCCGGSGGC.....................HHHH.XSXGGGSSXTHHHHCCSHHHHHHHHHHHHHHCCCC CS
          PEP-utilizers_C  72 leamngrpvvvRtlDiggdkelpel.....................keepeevNPmlGfRgirlglsepelfetqlrAllrasaag 136
                              +  ++g+pv +R+lD++ +++lp+                       ++++e NPmlG+Rg+rlg++ pe++++q++A+++a+   
  PHY93_04790|PHY93_04790 621 FTVLDGLPVNIRLLDPPLHEFLPHSaedrkeladslhldmktienrGDQLHEFNPMLGHRGCRLGVTFPEIYRMQVQAIIEAALIC 706
                              ************************99******************9989999*******************************9954 PP

                              .......EEEEEESSXXSHHHHHHHHHHHHHHHHHHHHCTCTXXTTXEEEEEEXSHHHHHTHHHHCTTSSEEEEXHHHHHHHHHTX CS
          PEP-utilizers_C 137 .......kleimlPmvasveeleeakkiieevkeelekegvkkkkkvkvGiMiEvpsaalladklakevdFfSiGtNDLtQytlav 215
                                       eim+P+va   el+  k  + ++ e++ +e  +k+ k+k+G+MiE p+aa++a ++ak+++FfS+GtNDLtQ t+++
  PHY93_04790|PHY93_04790 707 adkginvIPEIMIPLVALEGELTVLKDDAIKEIEKVFAE-KGKRVKYKIGTMIELPRAAIMAGSIAKHAEFFSFGTNDLTQTTFGL 791
                              566777789***************877666666999999.999******************************************* PP

                              XCCCHC...HHHH......SXTTTCHHCCCHHHHHHHHHHCC......XEEEEESCCCCSCCCHHHHHHCTXSEEEEXGGGHHHHH CS
          PEP-utilizers_C 216 dRdnee...vakl......ydplepavlrlikevikaaeekg......lkvgiCGelagdpsavellvglGldelSmsaasvpaar 286
                              +Rd++    + ++       dp+   ++ +++ ++k a  +g      ++ giCGe++g+p+++e+++++Gld++S+s+++vp+ar
  PHY93_04790|PHY93_04790 792 SRDDAGkflPEYVtkglllCDPFVSIDQDGVGFLMKHAVYEGrktnpdMHFGICGEHGGEPRSIEFCHKIGLDYVSCSPYRVPIAR 877
                              *****99985555667899***********************99999999************************************ PP

                              HHHHCT CS
          PEP-utilizers_C 287 aalaqv 292
                               a aq+
  PHY93_04790|PHY93_04790 878 LASAQA 883
                              *99987 PP

>> PPDK_N  Pyruvate phosphate dikinase, PEP/pyruvate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  205.4   0.0   2.8e-64   1.3e-60       2     323 ..      23     370 ..      22     374 .. 0.94

  Alignments for each domain:
  == domain 1  score: 205.4 bits;  conditional E-value: 2.8e-64
                   PPDK_N   2 elvGGKganLaellneagipvPpgfaitadafrefleengleekideelkeldvddvdelrkaskeirelilsaelPeeleeaike 87 
                              +l+GGKganLae+   +++ vPpgf++t++a+ ++ +++   ++i+e +++                           ++ +ai+e
  PHY93_04790|PHY93_04790  23 DLLGGKGANLAEM-CALKLAVPPGFTVTTQACLDYEKNG---KAINEVIRT---------------------------QVLKAITE 77 
                              79***********.66*******************5555...888888887...........................9******* PP

                   PPDK_N  88 ayeelgkkfgde..elpvaVRSSataEDlpkasfaGqqdtyLnvggeeevle.................................. 137
                              a++ ++kkfgd+  +l+++VRS+      ++as++G++dt+Ln+g +++ +                                   
  PHY93_04790|PHY93_04790  78 AERLTEKKFGDNanPLLFSVRSG------ARASMPGMMDTVLNLGLNDNSVLglakltnnerfawdsyrrfiqmyanvvmdfnvsl 157
                              ***********9999********......9*******************9999********************************* PP

                   PPDK_N 138 ......................................................aikavfaSlfnerAilYrkekgldheevalav 169
                                                                                    ai avf+S++n+rAi Yr+  +++ +++++av
  PHY93_04790|PHY93_04790 158 lestledlkeargvhedtkltasdlkelvvvykkiileetgesfpsepmeqlwrAIAAVFNSWNNPRAIKYREIYDIP-HSWGTAV 242
                              ******************************************************************************.99***** PP

                   PPDK_N 170 vvqkmvnsdlg...asGVafsldpetG...fkdevlinasyGlGeaVVaGrvtpdefvvekstrkilekkigekeikivydekeeg 249
                              +vq+mv++++g   a+GV+f++dp+tG   f +e+lina   +Ge+VVaG++tp+ +  + ++++       +k    ++++ ee+
  PHY93_04790|PHY93_04790 243 NVQSMVFGNMGddcATGVCFTRDPSTGerkFFGEYLINA---QGEDVVAGIRTPQPINEFSKNDS-------NK----KFKTLEEA 314
                              ****************************9999*******...*************9988887554.......33....33444556 PP

                   PPDK_N 250 tkevevpeeereklaLsdeeveeLaeiakkiekhygtpmdiEfaideeegklyllQaRpetrtsekkekkaaet 323
                                   +pe    ++         L ++ kk+e hy++++diEf+i+  ++kly+lQ+R+++rt ++  k+a + 
  PHY93_04790|PHY93_04790 315 -----MPE----AF-------ADLTSVYKKLEGHYKDMQDIEFTIE--NKKLYILQTRNGKRTAAAGIKIAVDL 370
                              .....999....88.......99***********************..***************99877777665 PP

>> PEP-utilizers  PEP-utilising enzyme, mobile domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   97.7   1.7   5.1e-32   2.3e-28       4      73 .]     437     518 ..     434     518 .. 0.97

  Alignments for each domain:
  == domain 1  score: 97.7 bits;  conditional E-value: 5.1e-32
                              S-EEEEES---HHHHTTS-GEEEEEES--TTHHHHHHHHHHTT--EEE--SSHH.............HH--TEEEEEETTTT CS
            PEP-utilizers   4 egvILvaeetspsdiagldkaaGivterGGmtSHaAivArelgiPaVvgvgeati............elkegdlitvDgstG 73 
                              ++vILv++etsp+diag+ + +Gi+t+rGGmtSHaA+vAr++g+P+V+g++++ i            ++kegd it+Dg+tG
  PHY93_04790|PHY93_04790 437 KKVILVRQETSPEDIAGMVASQGILTARGGMTSHAAVVARGMGKPCVAGCSGLIIdyaagtltvdgkRYKEGDAITIDGATG 518
                              45***************************************************99**************************9 PP

>> RNA_pol_Rpb1_4  RNA polymerase Rpb1, domain 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   6.2e-05      0.28      14      80 ..      59     122 ..      52     147 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 6.2e-05
                              TTHCHHHHHHHHHHHHHHHHHHHHHHHHHHCSTTTSHHHHHHHCTSSS-HHHHHHHHTB-EEEEBTT CS
           RNA_pol_Rpb1_4  14 pgksleelfeakinkilnkardkagkiaskslaasNsiliMvksGaKGsiinisqiagclGqqnveg 80 
                               gk+ +e+ ++++ k++ +a+  ++k++ ++    N++l  v+sGa+ s+  ++  +  lG+  +++
  PHY93_04790|PHY93_04790  59 NGKAINEVIRTQVLKAITEAERLTEKKFGDN---ANPLLFSVRSGARASMPGMMDTVLNLGLNDNSV 122
                              5666777777666666666666655555554...6******************99999999977665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (887 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       525  (0.0292822); expected 358.6 (0.02)
Passed bias filter:                      492  (0.0274416); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.73u 0.29s 00:00:01.02 Elapsed: 00:00:00.44
# Mc/sec: 6116.36
//
Query:       PHY93_04795|PHY93_04795  [L=235]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
     0.0064   15.9   0.0     0.0092   15.4   0.0    1.2  1  SBP_bac_3  Bacterial extracellular solute-binding proteins, f


Domain annotation for each model (and alignments):
>> SBP_bac_3  Bacterial extracellular solute-binding proteins, family 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   5.1e-07    0.0092      86     193 ..     113     216 ..     109     235 .] 0.80

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 5.1e-07
                              EEEEEEEETTSHGTCCHSSCGCGTTSEEEEETTSHHHHHHHHHHHCTSEEEEESSHHHHHHHHHTTSSSEEEEEHHHHHHHHHHCC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                SBP_bac_3  86 gqvllvrkkdaskissiksladLkgkkvgvqagstaeellkeelkkgaeivefdtleealqaLkngrvdavvadspvlaylvkknp 171
                              ++v++v+k+ ++   + + +++L +  vg q g+   e l +   +g+   e++t e  ++++++gr++++++ +     l kkn 
  PHY93_04795|PHY93_04795 113 SLVVVVHKD-SKIKWNGERFENLGDEIVGSQLGYLVNEKLDS---MGVHNEEVPTAEKNIEKINKGRIEVAIMAREDFLLLKKKNH 194
                              678899965.45555556899**99********999988888...46666789********************************* PP

                              GCCEEEEECGGCECEEEEEEET CS
                              xxxxxxxxxxxxxxxxxxxxxx RF
                SBP_bac_3 172 dkkvvlveeplsseeyaiavrk 193
                               k+vv+ + p+ +++++ +v  
  PHY93_04795|PHY93_04795 195 LKNVVALPIPFQENDVYLGVST 216
                              ******9777777777777654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (235 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       465  (0.0259356); expected 358.6 (0.02)
Passed bias filter:                      354  (0.0197445); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1721.08
//
Query:       PHY93_04800|PHY93_04800  [L=299]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.4e-08   33.1   0.0    4.6e-07   29.4   0.0    2.4  2  Beta-lactamase  Beta-lactamase


Domain annotation for each model (and alignments):
>> Beta-lactamase  Beta-lactamase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.1     0.017   3.1e+02      50      64 ..      50      64 ..       8      67 .. 0.87
   2 !   29.4   0.0   2.6e-11   4.6e-07      99     320 ..      79     285 ..      76     294 .. 0.76

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.017
                             EEEGGGHHHHHHHHH CS
           Beta-lactamase 50 friaSvtKtftaaav 64
                             f++aS+tK++t  av
  PHY93_04800|PHY93_04800 50 FDLASLTKVLTNSAV 64
                             99********96655 PP

  == domain 2  score: 29.4 bits;  conditional E-value: 2.6e-11
                              HHTTHSSCSSSSTSTTCTSHHHTHHHHHHHHHHSBSSSSTTSCEE-SHHHHH.HHHHHHHHHHTSHHHHHHHHHTTTTTTSTTEES CS
           Beta-lactamase  99 LltHtsGlpdlfasdlleeaaadaaellralatlppkyapGtkwgYsntgyg.llgellekvtgrsleqllreeilrpLgmkdtel 183
                              Ll+H +Glp +     l + + +++ell++  ++ p         Ys+++    + e +ek +g++le+l+  + ++  +m + + 
  PHY93_04800|PHY93_04800  79 LLNHKAGLPMG----GLLSKKTWREELLAYEIKESPTL-------YSDYSSLrCMLE-IEKKSGKKLEELC-SYYFDN-EMVHWKK 150
                              77777777444....44444434446666666666664.......777777666666.7777777777777.566777.7777776 PP

                              STTGGGGGGBEEEEEEETCEEECSCETTHHHHC....TTTBEEEEHHHHHHHHHHHHHCCSSSSHHHHHHHHHHHTSEEEECTTEE CS
           Beta-lactamase 184 gppesgdprdaagytgngpearappanlpaeae....gagglistardlarflglalegglllsaetlaqltaklssgttrpagir 265
                               p +s  p +       ++  ++++ +++++       ++gl++t+  l r l  +++++++   e+  +l + +++   +  g++
  PHY93_04800|PHY93_04800 151 LPTDSFSPEYGIRN---KKIICGEVHDNNCFNIgefiSHAGLFATIGGLSRSL--LNLENIVQLNEQIGKLLPLQKAEDRFILGFD 231
                              66666655555555...566666666666666699999***************..79999999999999999************** PP

                              EECECSSEEEEECCHTEEEEEEESTEEEEEEEECGGTEEEEEEESBCSSHHHHHH CS
           Beta-lactamase 266 aglglGwvladktgapgtfghtGggygtyvfvdpeanlvvavltnrdppnedaae 320
                              + +     la k+ + +tfgh G ++gt +++d e+  ++++ltn +++   +++
  PHY93_04800|PHY93_04800 232 RVMDPENTLAGKGCSTKTFGHLG-FTGTSFWIDLEKMRGAVILTNATQTYWYERS 285
                              ***999999999999********.*********************9987666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (299 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       355  (0.0198003); expected 358.6 (0.02)
Passed bias filter:                      328  (0.0182944); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 2234.14
//
Query:       PHY93_04805|PHY93_04805  [L=247]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.1e-21   77.6   0.0    1.9e-21   76.9   0.0    1.4  1  Abhydrolase_1  alpha/beta hydrolase fold
    4.5e-13   50.3   0.0    5.6e-13   50.0   0.0    1.5  1  Abhydrolase_6  Alpha/beta hydrolase family
      3e-12   46.3   0.0    3.9e-12   45.9   0.0    1.5  1  Hydrolase_4    Serine aminopeptidase, S33
    0.00067   18.4   0.0    0.00067   18.4   0.0    1.2  1  Ndr            Ndr family
    0.00078   18.6   0.0      0.001   18.2   0.0    1.2  1  DUF1057        Alpha/beta hydrolase of unknown function (DUF1
    0.00084   19.2   0.0     0.0014   18.5   0.0    1.5  1  Lipase_3       Lipase (class 3)
     0.0011   18.8   0.0     0.0014   18.4   0.0    1.2  1  PGAP1          PGAP1-like protein
  ------ inclusion threshold ------
      0.054   12.8   0.0       0.09   12.1   0.0    1.3  1  DUF915         Alpha/beta hydrolase of unknown function (DUF9
       0.11   12.0   0.0       0.35   10.3   0.0    1.9  1  DUF676         Putative serine esterase (DUF676)
       0.11   11.5   0.0       0.17   10.8   0.0    1.2  1  Asp2           Accessory Sec system GspB-transporter
       0.16   11.6   0.0       0.23   11.1   0.0    1.2  1  Esterase       Putative esterase


Domain annotation for each model (and alignments):
>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.9   0.0   1.2e-24   1.9e-21       3     106 ..       1      97 [.       1     121 [. 0.91

  Alignments for each domain:
  == domain 1  score: 76.9 bits;  conditional E-value: 1.2e-24
                              EEEE-STTTCGGGGTTGHHHHHHHHTTSEEEEEEETTSTTSSSTTTGB.CHHSHHHHHHHHHHHHHHCTTSSEEEEEETHHHHHHH CS
            Abhydrolase_1   3 lvilhGlpgssdvwaerglapaLakdgfdvillDlrGvgySspapacinddygtasvaddldrildalgddkltlvGhSmGGmial 88 
                              lv+lhGl+ s++ +    ++p L   +fd++l+D+rG+g ++p      +dy+   +a+d++ +ld l+++k++++GhSmGG++al
  PHY93_04805|PHY93_04805   1 LVMLHGLLSSHETFLP--IIPFLRN-DFDLLLIDQRGHGLTPPEG----EDYTAERMARDIKDLLDYLKIKKVIMLGHSMGGRTAL 79 
                              79**************..**99987.***************9999....68*********************************** PP

                              HHHHHHGGGEEEEEEESE CS
            Abhydrolase_1  89 ayaaeyperVkalvllga 106
                              ++ a++pe +++++  + 
  PHY93_04805|PHY93_04805  80 MFGALFPEMIDKMIIEDI 97 
                              *************98776 PP

>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.0   0.0   3.4e-16   5.6e-13       1      85 [.       1      84 [.       1     243 [. 0.82

  Alignments for each domain:
  == domain 1  score: 50.0 bits;  conditional E-value: 3.4e-16
                             EEEE--GC.....GCHHHHHHHHCCTCEEEEE--TTSTS-GGCS--HHH...CHHHHHHHCCTT..TTSEEEEEETCHHHHHHHHHHC CS
            Abhydrolase_6  1 vlllHGagssassWlvapLaallaagvhvlapDlpGhGrsdpppldled...ladlaalldelaagggpvvlvGHSlGGalalaaapl 85
                             +++lHG+ ss++ +l  p+ ++l+ ++  l +D +GhG ++p   d+++   ++d+ +lld l+   ++v+ +GHS+GG  al++++l
  PHY93_04805|PHY93_04805  1 LVMLHGLLSSHETFL--PIIPFLRNDFDLLLIDQRGHGLTPPEGEDYTAermARDIKDLLDYLK--IKKVIMLGHSMGGRTALMFGAL 84
                             79*************..*********999*********666666666665588999*******7..**************99985544 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.9   0.0   2.4e-15   3.9e-12       7     116 ..       1     104 [.       1     234 [. 0.86

  Alignments for each domain:
  == domain 1  score: 45.9 bits;  conditional E-value: 2.4e-15
              Hydrolase_4   7 vvlvHGlaehsgryaelaeaLaaqGfavyalDhrGhGrsegkrghvpsfddyvdDlaafvekvkeehpelplfllGhSmGGliall 92 
                              +v++HGl ++ + +  ++  L +++f+ + +D+rGhG + +  g+    +++ +D++ +++ +k     +++++lGhSmGG +al 
  PHY93_04805|PHY93_04805   1 LVMLHGLLSSHETFLPIIPFL-RNDFDLLLIDQRGHGLT-PPEGEDYTAERMARDIKDLLDYLK----IKKVIMLGHSMGGRTALM 80 
                              589999999999999999987.78***************.66677779999*********9999....889*************** PP

              Hydrolase_4  93 yllrypdkvaglilsaPalkikak 116
                              +++  p+ ++++i+    +  +++
  PHY93_04805|PHY93_04805  81 FGALFPEMIDKMIIEDIGIHQREP 104
                              *******99999987666655555 PP

>> Ndr  Ndr family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0   4.1e-07   0.00067      81     129 ..      46      94 ..      31     243 .. 0.88

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 4.1e-07
                              -HHHHHTTHHHHHHHHT---EEEEEETHHHHHHHHHHHHSGGGEEEEEE CS
                      Ndr  81 slddladqllavldhfklksviglGvgaGAyilarfalkhperveglvL 129
                              + + +a +++ +ld++k+k+vi lG   G    + f++ +pe++  +++
  PHY93_04805|PHY93_04805  46 TAERMARDIKDLLDYLKIKKVIMLGHSMGGRTALMFGALFPEMIDKMII 94 
                              67899***************************************99997 PP

>> DUF1057  Alpha/beta hydrolase of unknown function (DUF1057)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.0   6.3e-07     0.001      82     151 ..      43     112 ..       2     137 .. 0.78

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 6.3e-07
                  DUF1057  82 qkytnaeRnsyskalleelelkgklillghsRGcenaLqlavtl.eahGlvlinptGlrvhkgirplsrle 151
                              ++yt +      k ll+ l++k k+i+lghs G+  aL+  + + e++  ++i   G+ +    +p + +e
  PHY93_04805|PHY93_04805  43 EDYTAERMARDIKDLLDYLKIK-KVIMLGHSMGGRTALMFGALFpEMIDKMIIEDIGIHQREPRSPEKDFE 112
                              556655555567899****997.9***************99888567788888888888777666655555 PP

>> Lipase_3  Lipase (class 3)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.5   0.0   8.4e-07    0.0014      47      90 ..      46      89 ..       6     135 .. 0.81

  Alignments for each domain:
  == domain 1  score: 18.5 bits;  conditional E-value: 8.4e-07
                             HHHHHHHHHHHHHHHTT-EEEEEEEETHHHHHHHHHHHHHHHTT CS
                 Lipase_3 47 lreqvlkelkrllekypeysivvtGHSLGgalAlLaaldlveng 90
                             ++e + +++k+ll+  +  ++++ GHS+Gg +Al++++ + e+ 
  PHY93_04805|PHY93_04805 46 TAERMARDIKDLLDYLKIKKVIMLGHSMGGRTALMFGALFPEMI 89
                             678999******************************99887665 PP

>> PGAP1  PGAP1-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0   8.3e-07    0.0014      88     144 ..      61     115 ..      25     158 .. 0.77

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 8.3e-07
                    PGAP1  88 keptsviliGHSmGGivaraaltlknyikqsvntiltla.sPhalpplsfdkdilkly 144
                               ++++vi++GHSmGG  a   l+  ++ ++++++++  +   h+  p s +kd  kl 
  PHY93_04805|PHY93_04805  61 LKIKKVIMLGHSMGGRTA---LMFGALFPEMIDKMIIEDiGIHQREPRSPEKDFEKLM 115
                              5789***********655...8888999999999988775566777777777776665 PP

>> DUF915  Alpha/beta hydrolase of unknown function (DUF915)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   5.5e-05      0.09      93     120 ..      54      81 ..      41      85 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 5.5e-05
                   DUF915  93 lseLkkkYnikkfnavGhSmGglaltsY 120
                              +++L    +ikk+ ++GhSmGg +++++
  PHY93_04805|PHY93_04805  54 IKDLLDYLKIKKVIMLGHSMGGRTALMF 81 
                              445555557*************998876 PP

>> DUF676  Putative serine esterase (DUF676)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0   0.00021      0.35       9      95 ..       2      80 ..       1     101 [. 0.75

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00021
                   DUF676  9 VlvHGlqgnsaDlelikeqlekikeklpeekieflmsennesktfkgidvlgerlaeevlevvkkkkdknkkiSfvghSlGgliara 95
                             V+ HGl ++++ +  i   l++      +  + +  +++      +g d+ +er+a  + + ++  k k  k+ ++ghS+Gg +a +
  PHY93_04805|PHY93_04805  2 VMLHGLLSSHETFLPIIPFLRN------DFDLLLIDQRGHGLTPPEGEDYTAERMARDIKDLLDYLKIK--KVIMLGHSMGGRTALM 80
                             7788888887777666655555......22455556666666667888999*************99999..9**********87655 PP

>> Asp2  Accessory Sec system GspB-transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0    0.0001      0.17     317     376 ..      28      85 ..      21      93 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.0001
                     Asp2 317 LitdpRlegGaFylgseelEekiikiikekleeLgfeeeqlilsGlSMGtfgalyYgakl 376
                              L+ d R +g     g++   e++ + ik+ l++L+++  ++i+ G SMG   al +ga +
  PHY93_04805|PHY93_04805  28 LLIDQRGHGLTPPEGEDYTAERMARDIKDLLDYLKIK--KVIMLGHSMGGRTALMFGALF 85 
                              55566666666666666667789999*******9886..69****************965 PP

>> Esterase  Putative esterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   0.00014      0.23     117     139 ..      66      88 ..      41      92 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00014
                              EEEEEETHHHHHHHHHHHCSTTT CS
                 Esterase 117 ravaGqSmGGlgALilalkhpdr 139
                                 +G+SmGG +AL+ ++  p++
  PHY93_04805|PHY93_04805  66 VIMLGHSMGGRTALMFGALFPEM 88 
                              4568************9999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (247 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       450  (0.025099); expected 358.6 (0.02)
Passed bias filter:                      426  (0.0237604); expected 358.6 (0.02)
Passed Vit filter:                        59  (0.00329076); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 1787.07
//
Query:       PHY93_04810|PHY93_04810  [L=565]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        3.2    7.3  15.2         12    5.5   7.8    3.1  4  YtxC      YtxC-like family


Domain annotation for each model (and alignments):
>> YtxC  YtxC-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.1      0.15   2.7e+03      59      82 ..      38      61 ..      22      75 .. 0.64
   2 ?   -0.4   0.1      0.04   7.1e+02      16      79 ..     133     200 ..     131     202 .. 0.76
   3 ?    5.3   0.0   0.00073        13     102     190 ..     188     276 ..     176     279 .. 0.92
   4 ?    5.5   7.8   0.00066        12      28     179 ..     389     536 ..     374     550 .. 0.74

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 0.15
                     YtxC 59 kkklnrknkilekileylkenkei 82
                             + k+++k+++++ ++e+l+e++++
  PHY93_04810|PHY93_04810 38 ILKIEEKENLARGVKEFLHEEQNL 61
                             344555555555555555555544 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 0.04
                     YtxC  16 ekkllkkilkenYfyfdeeEkeeIlelaleilk....eeekkeredekkklnrknkilekileylken 79 
                              e+++  ++lk++Y+y ++e  e   + + ++ +    +++++er+  + k++  ++++++i + ++en
  PHY93_04810|PHY93_04810 133 ESEVYYDFLKRSYNYISHEQTEFFASPTSSYRSlivwNRNNGERKPFIAKISLDKNLVDNIDRLVSEN 200
                              66778899999999999877777666666555566677888888878888888899999998888887 PP

  == domain 3  score: 5.3 bits;  conditional E-value: 0.00073
                     YtxC 102 ivdkavdeyliekeyqeFiklLkyfveiqepkielvhvvieengefilldengkeitkelleelaeelsdselssedllisaLitl 187
                               +   +d+ + e e +  i   k f  i ++k++ +++ + ++    ++d++++   ++   +l +e+ d+ + se    s+L+ +
  PHY93_04810|PHY93_04810 188 NLVDNIDRLVSENEIERSIANQKVFDLIGDKKLNSMNLKLFPETAGLIIDKSHSGAPEKSGGQLIREIPDEVFRSEKKWFSILVLM 273
                              45556899999999999999999**9**************9********************************************* PP

                     YtxC 188 aPk 190
                              +P+
  PHY93_04810|PHY93_04810 274 SPH 276
                              **8 PP

  == domain 4  score: 5.5 bits;  conditional E-value: 0.00066
                     YtxC  28 YfyfdeeEkeeIlelaleilkeeekkeredekkklnrknkilekileylkenkeinleGFitFRlkeyleeLee.ivdkavdeyli 112
                              Y +f    k++I++++ + l +++ + +   ++ ++ kn+i  k +++++++  +nl++  +  l +y++  e  i ++  de + 
  PHY93_04810|PHY93_04810 389 YVFFY---KRQIFDMMVNELAKRDPTLT--TEQVQTLKNTIDSKYTKMINTHLGLNLKSAPN--LVDYKRIEEMvIAQTGLDEKIS 467
                              44444...68999999999995555443..4577788**********************995..7777654444144677899999 PP

                     YtxC 113 ekeyqeFiklLkyfveiqepkielvhvviee.ngefilldengkeitk.elleelaee.lsdselssedl 179
                              +ke +   + Lk f+e ++ + e +++  ++ ++ef l++    +i++ ++      +  +++e + +d 
  PHY93_04810|PHY93_04810 468 KKEIKD-TDNLKTFIENKKIRNEWIELSPQKgKSEFYLTNHGLYQISNkKIVGIALFNrDEQEEYNANDK 536
                              999888.699*****************9954255778888888888884444443444456666666664 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (565 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       643  (0.0358637); expected 358.6 (0.02)
Passed bias filter:                      341  (0.0190195); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.59u 0.21s 00:00:00.80 Elapsed: 00:00:00.42
# Mc/sec: 4049.38
//
Query:       PHY93_04815|PHY93_04815  [L=815]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
     0.0085   15.4   0.0      0.014   14.6   0.0    1.3  1  PNP_UDP_1  Phosphorylase superfamily


Domain annotation for each model (and alignments):
>> PNP_UDP_1  Phosphorylase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.6   0.0   8.1e-07     0.014      69     100 ..     434     465 ..     421     518 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 8.1e-07
                              --SEEEEEEEEEES.STTT-TT-EEEEEEEEES CS
                PNP_UDP_1  69 gvkaiiriGtaGgl.npdlkvGDvvipddainf 100
                              g   i+ +GtaG++  +++kvGD+vip+++ n+
  PHY93_04815|PHY93_04815 434 GHSNIVYMGTAGAFaEKGYKVGDLVIPNSV-ND 465
                              66789*********6666**********95.43 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (815 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       694  (0.0387082); expected 358.6 (0.02)
Passed bias filter:                      470  (0.0262145); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.71u 0.26s 00:00:00.97 Elapsed: 00:00:00.45
# Mc/sec: 5441.57
//
Query:       PHY93_04820|PHY93_04820  [L=545]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (545 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       786  (0.0438396); expected 358.6 (0.02)
Passed bias filter:                      363  (0.0202465); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.59u 0.22s 00:00:00.81 Elapsed: 00:00:00.41
# Mc/sec: 4035.05
//
Query:       PHY93_04825|PHY93_04825  [L=481]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    7.7e-16   58.7   0.1    1.5e-15   57.7   0.1    1.5  1  Mur_ligase_M  Mur ligase middle domain
    3.2e-08   33.7   0.0    1.1e-07   32.0   0.0    1.9  2  Mur_ligase_C  Mur ligase family, glutamate ligase domain
    1.1e-07   32.1   0.0    2.2e-07   31.1   0.0    1.5  1  Mur_ligase    Mur ligase family, catalytic domain


Domain annotation for each model (and alignments):
>> Mur_ligase_M  Mur ligase middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.7   0.1   2.5e-19   1.5e-15       1     190 [.     128     310 ..     128     312 .. 0.80

  Alignments for each domain:
  == domain 1  score: 57.7 bits;  conditional E-value: 2.5e-19
                              EESSS-HHHHHHHHHHHHHCT.EEEEETTCSS-THHHHHHHHHHHHHTT-SEEEEE--HCHHHC.TTTCCH..CBESEEEE---TS CS
             Mur_ligase_M   1 vTGtnGKTTtteliaaileka.gkvigtvgttnneiglpktlaemekkeaeyavlEvsshglge.krlegl..lkpdvavitnisp 82 
                              ++Gt+GKTTtt l  +i+ek  ++   ++g       + +   + +    +y+ +E  +++ +  ++++++  ++ d  ++t+++ 
  PHY93_04825|PHY93_04825 128 IAGTHGKTTTTFLATQIFEKLgANPGYLIGG------VMEDRPSSRLGSGKYFFIESDEYDSAYfEKISKFrsYSLDNLILTSLEF 207
                              89*******************6447777773......33333333334567777777777666666666666689999******** PP

                              TTHHHHSSHHHHHHHHHHHHHTSETTCEEEEETTSC...CHHHH.HCTCCTCEEEEESSSTSECEEEEEEEEETTEEEEEEEEETT CS
             Mur_ligase_M  83 dHldfhgtlenyaeaKaelferlkeegiavinaddpyakelikk.lkkakvkvvtfglekeaedlraknieeksegteiellevkg 167
                              dH d + ++e++++ ++  +  +++  ++++ +d  ++ el+++ +  +k++ +++g+++e      k +e+ ++gt+++l  +++
  PHY93_04825|PHY93_04825 208 DHADIFNSVEDIKAQFRAAMPYIGK--TFIMSVDYIASLELFNEfTDGDKSRWIKYGEKSEI---GPKILESGESGTRFQLR-FNK 287
                              ************9999988888884..8999988877666555505667888********86...689***********998.9** PP

                              EEEEEEESSCSCHHHHHHHHHHH CS
             Mur_ligase_M 168 geleieipllGkhnvyNalaaia 190
                              ++l ++++l+G+hn+ N++ +i+
  PHY93_04825|PHY93_04825 288 EDLVYQTNLIGRHNILNLASVIL 310
                              *****************999886 PP

>> Mur_ligase_C  Mur ligase family, glutamate ligase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.0   0.0   1.9e-11   1.1e-07       1      80 [.     332     409 ..     332     417 .. 0.87
   2 ?   -3.7   0.0       2.5   1.5e+04      33      48 ..     449     464 ..     444     467 .. 0.50

  Alignments for each domain:
  == domain 1  score: 32.0 bits;  conditional E-value: 1.9e-11
                              CTTSSEEEEETTTEEEEEET--SHHHHHHHHHHHHHHSSSSEEEEEEEESTT.CCSCHCTHHHHHHHHCCHSSEEEEEES CS
             Mur_ligase_C   1 vkgRlevvgeadgvtvidDyahnpdslsaalkalreiapdkrlilvfgpggelgertrtfhdefgrlasaladslvvlgd 80 
                              vk+R e+ g+ +g +vidD ah+p +++ +l+++ + +p+++++++  p      r++ f++ef  ++++ a+s+++++ 
  PHY93_04825|PHY93_04825 332 VKRRQEIRGSYKGALVIDDFAHHPRAVELTLDGIITQYPKRKVHVIMEP-NSATARSAIFQKEFTDALNR-AASVIFTKP 409
                              79********************************999998777777775.77799***************.888777654 PP

  == domain 2  score: -3.7 bits;  conditional E-value: 2.5
                              HHHHHSSSSEEEEEEE CS
             Mur_ligase_C  33 alreiapdkrlilvfg 48 
                               +++ia+ ++lil++ 
  PHY93_04825|PHY93_04825 449 EIEKIANPENLILILS 464
                              3344444555555554 PP

>> Mur_ligase  Mur ligase family, catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.1   0.0   3.6e-11   2.2e-07       3      84 ..      23     119 ..      21     122 .. 0.94

  Alignments for each domain:
  == domain 1  score: 31.1 bits;  conditional E-value: 3.6e-11
                              EEESTTSCCHHHHHHHHHHTTSEEEEEESSHC......HHHTT-EEEES-HGGGG........EE-T.S-TTCHHHHHHHHTTEEE CS
               Mur_ligase   3 hfigidgrgmsagalflalkGykvdGsdfies......lialGaaavvghdaani........vvss.iskdnpeleaakepgipv 73 
                               f  ++g+gm+a a +l  kGy v+G d++ +      l+  G++++  ++  +         vv++ i+++ p  +   e+g+++
  PHY93_04825|PHY93_04825  23 FFYRVCGTGMGAAACLLKEKGYDVQGGDANFYppmstyLESTGIPLFKLDQITQAflksfdliVVGNvIPNGGPDAKLIEELGVKF 108
                              57889*********************************************777777799999*****9**99************** PP

                              EEHHHHHHHHH CS
               Mur_ligase  74 esraeaLaela 84 
                               s + a+++l+
  PHY93_04825|PHY93_04825 109 SSFPTAIGALV 119
                              ********997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (481 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       441  (0.024597); expected 358.6 (0.02)
Passed bias filter:                      417  (0.0232584); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.42
# Mc/sec: 3412.18
//
Query:       PHY93_05335|PHY93_05335  [L=589]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    4.4e-45  153.6   0.6    2.6e-44  151.1   0.1    2.1  2  DEAD        DEAD/DEAH box helicase
    7.6e-30  103.5   0.1    5.7e-28   97.5   0.1    2.5  2  Helicase_C  Helicase conserved C-terminal domain
      2e-13   50.1   0.1    8.3e-13   48.1   0.0    2.2  2  DbpA        DbpA RNA binding domain
      7e-06   26.2   0.0    1.3e-05   25.3   0.0    1.4  1  ResIII      Type III restriction enzyme, res subunit
    7.1e-06   25.5   0.0    2.1e-05   24.0   0.0    1.8  1  CMS1        U3-containing 90S pre-ribosomal complex subunit
  ------ inclusion threshold ------
      0.066   12.9   0.0       0.14   11.9   0.0    1.5  1  AAA_30      AAA domain


Domain annotation for each model (and alignments):
>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  151.1   0.1   8.8e-48   2.6e-44       1     173 [.      25     190 ..      25     193 .. 0.93
   2 ?    0.2   0.0      0.19   5.5e+02      97     149 ..     359     423 ..     326     433 .. 0.71

  Alignments for each domain:
  == domain 1  score: 151.1 bits;  conditional E-value: 8.8e-48
                              -HHHHHHHHHHH.TTCEEEEEESTTSSHHHHHHHHHHHHHHHSTTSTS-EEEEEESSHHHHHHHHHHHHHHTTTSTSEEEEEETTS CS
                              xxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD   1 tdiQaeaiplil.gggdvlvaaeTGsGKTlaflipvlqivyetkgktgpkalivePtreLaeqtlnnlkkfkkyidlrvlliiggv 85 
                              t+iQ+ aip++  ++ d++++a+TG+GKT+af++p+l+++    +++  +ali++PtreLa+q+ +++kkf  y ++++  ++ggv
  PHY93_05335|PHY93_05335  25 TEIQQLAIPALAtTDTDFVGQAQTGTGKTAAFVLPLLHKID--SSSRDVQALILTPTRELANQINDEIKKFSTYEKIKTIPVYGGV 108
                              79********995567************************5..599999*************************99********** PP

                              SHHHHHHHHHTT.CSEEEEEHHHHHHHHHCTSSHCTTEEEEEEETHHHHHHTTTHHHHHHHHHHSHHHCTTSTTTSEEEEEESSBS CS
                              xxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  86 aardqlskldng.vdivvgtpgrlddllstgklnlsqvrflVlDEadrlldqgfsdfinrilnqlpqitcdgklqrqvivlSATlp 170
                              + + q++ l+++ ++ivvgtpgr++dl+++g l l+q +f VlDEad++ld+gf d++++il++l      g  ++++ ++SAT+p
  PHY93_05335|PHY93_05335 109 SLEGQVRGLRRDrPQIVVGTPGRVLDLIERGVLILDQAKFAVLDEADEMLDMGFIDDVKSILSNL------GT-SKKTWMFSATMP 187
                              *********8556****************************************************......23.3459*******9 PP

                              HHH CS
                              xxx RF
                     DEAD 171 kdv 173
                               ++
  PHY93_05335|PHY93_05335 188 AQI 190
                              654 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.19
                              T.....CSEEEEEHHHHHHHHHCTSSH.....CTTEEEEEEET..HHHHHHTTTHHHHHHHHHHS CS
                              x.....xxxxxxxxxxxxxxxxxxxxx.....xxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxx RF
                     DEAD  97 g.....vdivvgtpgrlddllstgkln.....lsqvrflVlDE..adrlldqgfsdfinrilnql 149
                              +     v+ ++ tp+ l ++l +++l+     ++++  l  DE  a ++ +++ +d ++ + n+l
  PHY93_05335|PHY93_05335 359 NtkariVQAILPTPKDLKQVLVRKELKkfdslIEKLGSLETDEvfAEKFESMDKGDLLKVMYNHL 423
                              23344688889999999997755554444477888888888886668888888888888888887 PP

>> Helicase_C  Helicase conserved C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.4   0.0     0.031        92       8      55 ..      62     113 ..      54     128 .. 0.76
   2 !   97.5   0.1   1.9e-31   5.7e-28       6     111 .]     232     336 ..     227     336 .. 0.88

  Alignments for each domain:
  == domain 1  score: 3.4 bits;  conditional E-value: 0.031
                              HHHHHTTTTSEEEEEESSHHHHHH....HHHHHHHTTSTEEEESTTSTHHHH CS
               Helicase_C   8 ellkleeeggkilifvntidrlek....vklllekkgikvavlhgelpqner 55 
                              + +++++++ ++li ++t++ +++    +k + + ++ik+++++g  + + +
  PHY93_05335|PHY93_05335  62 HKIDSSSRDVQALILTPTRELANQindeIKKFSTYEKIKTIPVYGGVSLEGQ 113
                              3447788999**********65555557788878889*******98876665 PP

  == domain 2  score: 97.5 bits;  conditional E-value: 1.9e-31
                              HHHHHHHTTTTSEEEEEESSHHHHHH.HHHHHHHTTSTEEEESTTSTHHHHHHHHHHHHTTSSSEEEESGGGTSSSTSTTESEEEE CS
               Helicase_C   6 llellkleeeggkilifvntidrlek.vklllekkgikvavlhgelpqnereeileqfnkgesdvLiatdvaerGidipkvnlVin 90 
                              ++++l  + +++  +if++t+ + ++ ++ l + +g+ +  +hg+++q++r+ ++++f+++++++L++tdva+rGid++++++Vin
  PHY93_05335|PHY93_05335 232 VCRIL-DSLDDYYGMIFCRTKIDTKSlADEL-NARGYPSDSMHGDMSQQQRDITMRNFKNKKINMLVCTDVAARGIDVDNLTHVIN 315
                              56666.667777789******9886333333.4559************************************************** PP

                              SSSSSSHHHHHHHHTTSSSTT CS
               Helicase_C  91 fdlprnvtsyiqriGRtgRag 111
                              f+lp++++sy++riGRtgRag
  PHY93_05335|PHY93_05335 316 FGLPQDIESYVHRIGRTGRAG 336
                              *******************97 PP

>> DbpA  DbpA RNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0       3.3   9.8e+03      16      34 ..      11      29 ..      10      32 .. 0.82
   2 !   48.1   0.0   2.8e-16   8.3e-13       1      71 [.     475     544 ..     475     545 .. 0.94

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 3.3
                             HHHHHHHTCTTB-GGGEEE CS
                     DbpA 16 divgaiakeaglsgkdIGk 34
                              +++ai++++ ++  +I++
  PHY93_05335|PHY93_05335 11 SLLKAITERGYVEPTEIQQ 29
                             58999**999999988875 PP

  == domain 2  score: 48.1 bits;  conditional E-value: 2.8e-16
                              EEEES-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE-SS-EEEEE-TT-HHHHHHHHTT--SSS----EE CS
                     DbpA   1 rlfinvGkkdklrpgdivgaiakeaglsgkdIGkIdildkfSfvevpkekaeevlkalkkkkikGrkvrve 71 
                              r+f+n+Gk ++l+ + ++g ia+  +++ + I ++d++++fSf evp+++ + +lk   + +i+ r+vr e
  PHY93_05335|PHY93_05335 475 RFFVNIGKDHGLTLKTLLGSIAGMVNVDERMIRNVDMKETFSFLEVPENFGDALLKVA-GPTINERNVRFE 544
                              8**************************************************8888776.789999999987 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.3   0.0   4.4e-09   1.3e-05       6     168 ..      26     185 ..      13     188 .. 0.69

  Alignments for each domain:
  == domain 1  score: 25.3 bits;  conditional E-value: 4.4e-09
                              HHHHHHHHHHT......TTSEEEEEESTTSTHHHHH.HHHHHHH-S.....-EEEEESSHHHHHHHHHHGGGGTGG.......... CS
                   ResIII   6 eyQeeaienlleklkskrdkrglikmaTGtGKTlva.aklierllkkgkeekflflvprkslleqtleefkkflseayke...... 84 
                              e Q+ ai +l+     + d+ ++ ++ TGtGKT    + l  ++ ++ +  ++l+l p+++l +q  +e+kkf+  ++ +      
  PHY93_05335|PHY93_05335  26 EIQQLAIPALA-----TTDTDFVGQAQTGTGKTAAFvLPLLHKIDSSSRDVQALILTPTRELANQINDEIKKFSTYEKIKtipvyg 106
                              55555555555.....6788888899********99899999999999999**********************9877644555443 PP

                              ...GEEEESSS-B--.......-SEEEEEHHHHHHTH........HHHTTT-SEEEEETGGGTTS....TTTHHHHHT-.--SEEE CS
                   ResIII  85 ...igkkvsgdkkkakekdstnkkilvttiqsldadseeeeeeseellrdrfdviiiDEaHrlgak...kswreilekf.keavll 163
                                  ++ v+g        +++  +i+v t  ++   +     e+  l  d+ ++ + DEa  + ++   + +++il ++  +++  
  PHY93_05335|PHY93_05335 107 gvsLEGQVRGL-------RRDRPQIVVGTPGRVLDLI-----ERGVLILDQAKFAVLDEADEMLDMgfiDDVKSILSNLgTSKKTW 180
                              33222223333.......4455788888887777777.....67777777777777777777777644445555544443234445 PP

                              EEESS CS
                   ResIII 164 glTAT 168
                               ++AT
  PHY93_05335|PHY93_05335 181 MFSAT 185
                              56666 PP

>> CMS1  U3-containing 90S pre-ribosomal complex subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.0   0.0   7.2e-09   2.1e-05     164     209 ..     108     153 ..      59     181 .. 0.85

  Alignments for each domain:
  == domain 1  score: 24.0 bits;  conditional E-value: 7.2e-09
                     CMS1 164 ikleesvtylkksrigiavGtpgRildLleeeslsvdeLkrivlDa 209
                              + le +v  l++ r  i vGtpgR+ldL+e ++l +d+ k  vlD 
  PHY93_05335|PHY93_05335 108 VSLEGQVRGLRRDRPQIVVGTPGRVLDLIERGVLILDQAKFAVLDE 153
                              67999*************************************9985 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   4.7e-05      0.14       6      74 ..      28      97 ..      24     171 .. 0.66

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 4.7e-05
                   AAA_30  6 QaaavealltsgdrvavltGpAGtGKt..talkalreaweaa.ggrviglAptgkaAkvLaeelgieastia 74
                             Q+ a+ al+t++    v ++  GtGKt  ++l  l ++  ++   + ++l+pt + A+++++e+  + st +
  PHY93_05335|PHY93_05335 28 QQLAIPALATTDT-DFVGQAQTGTGKTaaFVLPLLHKIDSSSrDVQALILTPTRELANQINDEIK-KFSTYE 97
                             6667766666664.6899*********444577889999998889999*************9876.333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (589 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       605  (0.0337442); expected 358.6 (0.02)
Passed bias filter:                      469  (0.0261587); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.64u 0.26s 00:00:00.90 Elapsed: 00:00:00.43
# Mc/sec: 4111.96
//
Query:       PHY93_17340|PHY93_17340  [L=75]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
       0.11   11.9   7.3        3.8    7.1   0.0    3.2  3  zf-ribbon_3      zinc-ribbon domain
       0.14   12.1   9.4       0.32   11.0   4.7    2.2  2  Zn_Tnp_IS1595    Transposase zinc-ribbon domain
       0.26   11.3   7.9       0.43   10.6   0.1    3.0  3  zf-C2HC5         Putative zinc finger motif, C2HC5-type
       0.77    9.4   0.1       0.77    9.4   0.1    3.0  2  Desulfoferrod_N  Desulfoferrodoxin, N-terminal domain
        1.3    9.1   5.4        5.3    7.2   0.2    2.3  2  YHS              YHS domain
        2.6    8.2  12.5         12    6.1   0.5    3.1  3  zf-ACC           Acetyl-coA carboxylase zinc finger domain
        3.1    7.8  10.5        8.3    6.4   0.3    2.8  2  zf-FPG_IleRS     Zinc finger found in FPG and IleRS
        4.2    7.5  11.2       0.55   10.4   2.7    2.4  2  DUF1272          Protein of unknown function (DUF1272)
        5.8    7.1  10.4         16    5.7   4.5    2.9  2  Zn-ribbon_8      Zinc ribbon domain
        6.8    6.7  16.1       0.73    9.8   1.0    3.2  2  zf-FCS           MYM-type Zinc finger with FCS sequence motif


Domain annotation for each model (and alignments):
>> zf-ribbon_3  zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.2    0.0046       8.3       2      10 ..       1       9 [.       1      13 [. 0.72
   2 ?    7.1   0.0    0.0021       3.8      16      26 .]      37      47 ..      33      47 .. 0.84
   3 ?    1.7   0.8       0.1   1.9e+02      18      22 ..      60      64 ..      49      64 .. 0.89

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.0046
              zf-ribbon_3  2 tvrCPnCGa 10
                             + +C nCG+
  PHY93_17340|PHY93_17340  1 MDKCENCGN 9 
                             567888887 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0021
              zf-ribbon_3 16 dnvCpyCGtkl 26
                             +++C +C t++
  PHY93_17340|PHY93_17340 37 APKCSHCETRI 47
                             789****9986 PP

  == domain 3  score: 1.7 bits;  conditional E-value: 0.1
              zf-ribbon_3 18 vCpyC 22
                             +C++C
  PHY93_17340|PHY93_17340 60 CCAHC 64
                             7***9 PP

>> Zn_Tnp_IS1595  Transposase zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   0.1     0.031        55      21      40 ..       4      31 ..       2      33 .. 0.74
   2 ?   11.0   4.7   0.00018      0.32      19      44 ..      38      65 ..      33      67 .. 0.84

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.031
            Zn_Tnp_IS1595 21 CPhCgsr..kayrikt......rglfqC 40
                             C +Cg+   ka++++          f+C
  PHY93_17340|PHY93_17340  4 CENCGNIydKAFQVTMagqqhtFDSFEC 31
                             9999999988888887666666666666 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.00018
            Zn_Tnp_IS1595 19 fvCPhCgsr...kayriktrglfqCkeCr 44
                             + C hC+ r   +  + k+  lf+C++C 
  PHY93_17340|PHY93_17340 38 PKCSHCETRiigHGVEAKD-NLFCCAHCA 65
                             89*******9877777777.********6 PP

>> zf-C2HC5  Putative zinc finger motif, C2HC5-type
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   0.1     0.022        40      19      26 ..       3      10 ..       1      19 [. 0.86
   2 ?   10.6   0.1   0.00024      0.43      28      46 ..      31      49 ..      29      59 .. 0.87
   3 ?   -0.0   0.9      0.49   8.9e+02      35      41 ..      59      65 ..      52      69 .. 0.68

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.022
                 zf-C2HC5 19 nClnCGki 26
                              C nCG+i
  PHY93_17340|PHY93_17340  3 KCENCGNI 10
                             69****99 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 0.00024
                 zf-C2HC5 28 CakeglskpCsfCgsplls 46
                             Ca ++l  +Cs+C++ ++ 
  PHY93_17340|PHY93_17340 31 CAINRLAPKCSHCETRIIG 49
                             99999999******99986 PP

  == domain 3  score: -0.0 bits;  conditional E-value: 0.49
                 zf-C2HC5 35 kpCsfCg 41
                               C +C+
  PHY93_17340|PHY93_17340 59 FCCAHCA 65
                             5577776 PP

>> Desulfoferrod_N  Desulfoferrodoxin, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4   0.1   0.00043      0.77       8      15 ..       3      10 ..       2      21 .. 0.93
   2 ?   -5.5   8.2        10   1.8e+04       8      12 ..      39      43 ..      38      64 .. 0.47

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.00043
                             E-TTT--E CS
          Desulfoferrod_N  8 kCevCGni 15
                             kCe CGni
  PHY93_17340|PHY93_17340  3 KCENCGNI 10
                             9******9 PP

  == domain 2  score: -5.5 bits;  conditional E-value: 10
                             E-TTT CS
          Desulfoferrod_N  8 kCevC 12
                             kC +C
  PHY93_17340|PHY93_17340 39 KCSHC 43
                             56666 PP

>> YHS  YHS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2   0.2    0.0029       5.3      15      34 ..      13      32 ..       4      34 .. 0.87
   2 ?    4.0   1.0      0.03        54      27      35 ..      58      66 ..      55      67 .. 0.86

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.0029
                      YHS 15 aeekseYkGkeYyFcSegCk 34
                             + ++++  G++ +F+S +C 
  PHY93_17340|PHY93_17340 13 KAFQVTMAGQQHTFDSFECA 32
                             56888999**********97 PP

  == domain 2  score: 4.0 bits;  conditional E-value: 0.03
                      YHS 27 yFcSegCkd 35
                             +Fc+++C +
  PHY93_17340|PHY93_17340 58 LFCCAHCAE 66
                             6******86 PP

>> zf-ACC  Acetyl-coA carboxylase zinc finger domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.1   0.5    0.0065        12       3      10 ..       3      10 ..       3      13 .. 0.93
   2 ?    3.1   0.2     0.056     1e+02       3       9 ..      39      45 ..      39      48 .. 0.87
   3 ?    5.8   1.4    0.0084        15      18      26 .]      56      64 ..      52      64 .. 0.92

  Alignments for each domain:
  == domain 1  score: 6.1 bits;  conditional E-value: 0.0065
                   zf-ACC  3 KCpsCgem 10
                             KC+ Cg++
  PHY93_17340|PHY93_17340  3 KCENCGNI 10
                             9*****96 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.056
                   zf-ACC  3 KCpsCge 9 
                             KC +C++
  PHY93_17340|PHY93_17340 39 KCSHCET 45
                             9****86 PP

  == domain 3  score: 5.8 bits;  conditional E-value: 0.0084
                   zf-ACC 18 rnlyVCPkC 26
                             +nl++C +C
  PHY93_17340|PHY93_17340 56 DNLFCCAHC 64
                             9******** PP

>> zf-FPG_IleRS  Zinc finger found in FPG and IleRS
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.4   0.3    0.0046       8.3       3      10 ..       3      10 ..       2      26 .. 0.85
   2 ?    4.2   4.7     0.022        40       3      28 ..      39      65 ..      38      67 .. 0.89

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.0046
                             B-TTT--B CS
             zf-FPG_IleRS  3 pCpRCwry 10
                             +C+ C+++
  PHY93_17340|PHY93_17340  3 KCENCGNI 10
                             9*****97 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.022
                             B-TTT--BBEEEEC.TTEEEEE-TTTT CS
             zf-FPG_IleRS  3 pCpRCwryiervgq.agrstyfCprCq 28
                             +C +C + i   g+ a  + + C +C+
  PHY93_17340|PHY93_17340 39 KCSHCETRIIGHGVeAKDNLFCCAHCA 65
                             899****98888888***********8 PP

>> DUF1272  Protein of unknown function (DUF1272)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   1.4      0.11     2e+02       6      29 ..       2      31 ..       1      34 [. 0.48
   2 ?   10.4   2.7   0.00031      0.55       4      34 ..      36      66 ..      32      71 .. 0.92

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.11
                  DUF1272  6 pnCecCdk......dlppdseearicsyEc 29
                             ++Ce+C +      ++  + ++ +  s+Ec
  PHY93_17340|PHY93_17340  2 DKCENCGNiydkafQVTMAGQQHTFDSFEC 31
                             578888651111112333444445556666 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 0.00031
                  DUF1272  4 lrpnCecCdkdlppdseearicsyEctFCae 34
                             l p+C +C++ +  +  ea+   + c++Cae
  PHY93_17340|PHY93_17340 36 LAPKCSHCETRIIGHGVEAKDNLFCCAHCAE 66
                             88**************************987 PP

>> Zn-ribbon_8  Zinc ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   4.5    0.0088        16       7      32 ..       3      43 ..       3      48 .. 0.53
   2 ?    0.8   0.3      0.29   5.3e+02      28      33 ..      60      65 ..      50      72 .. 0.68

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.0088
              Zn-ribbon_8  7 rCeeCghefe.........vlqsisdap.............ltaCPeC 32
                             +Ce+Cg+ ++         +                      ++C +C
  PHY93_17340|PHY93_17340  3 KCENCGNIYDkafqvtmagQ-------QhtfdsfecainrlAPKCSHC 43
                             7*****99997443333320.......123333444455533446666 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.29
              Zn-ribbon_8 28 aCPeCg 33
                             +C +C 
  PHY93_17340|PHY93_17340 60 CCAHCA 65
                             466664 PP

>> zf-FCS  MYM-type Zinc finger with FCS sequence motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   1.0   0.00041      0.73       3      38 ..       1      32 [.       1      32 [. 0.90
   2 ?   -1.0   8.1      0.98   1.8e+03      29      38 ..      56      65 ..      38      67 .. 0.63

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00041
                   zf-FCS  3 kkrCwfCkkyikgkpeftyvlendgvvgqFCStsCl 38
                             +++C++C++ i++k  f  ++++ g+++ F S++C+
  PHY93_17340|PHY93_17340  1 MDKCENCGN-IYDKA-F--QVTMAGQQHTFDSFECA 32
                             689****95.99999.7..9**********999996 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.98
                   zf-FCS 29 vgqFCStsCl 38
                                FC+ +C+
  PHY93_17340|PHY93_17340 56 DNLFCCAHCA 65
                             5568888887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (75 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       764  (0.0426125); expected 358.6 (0.02)
Passed bias filter:                      358  (0.0199677); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.43u 0.24s 00:00:00.67 Elapsed: 00:00:00.44
# Mc/sec: 517.50
//
Query:       PHY93_04830|PHY93_04830  [L=564]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
  ------ inclusion threshold ------
       0.27   10.4   3.2       0.25   10.5   1.0    1.8  2  Tubulin_2  Tubulin like


Domain annotation for each model (and alignments):
>> Tubulin_2  Tubulin like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   1.0   1.4e-05      0.25     204     293 ..     135     241 ..     123     263 .. 0.83
   2 ?   -1.0   0.0     0.045     8e+02      73     108 ..     369     407 ..     358     412 .. 0.84

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 1.4e-05
                Tubulin_2 204 plnkeggervkaNay....aaLkELna..........lkdsdeetelevkypngdvtvvkrlstPfdtcyLvsnkneegkeilers 275
                              +++k ++++++aNa      +LkE+++          +k+  ++ +l+ +y++++++++k+ +   + +yL+ +  ++g +++++ 
  PHY93_04830|PHY93_04830 135 TKDKAKRDNIQANAGlqfqQMLKEIEQfknqipfllsFKFPVNHLSLRTEYEKFKNQNNKEARLRANSIYLFRKIVQDGTYDENLI 220
                              677889999****96555589****************999999*******************999*************99999988 PP

                Tubulin_2 276 k...lmelvadniflslasef 293
                              k   + +   d +++sl +e 
  PHY93_04830|PHY93_04830 221 KsdaVIRSAFDTLYMSLNKES 241
                              755666666677777776663 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.045
                Tubulin_2  73 issaevdrilrnllreeta...saypsieeWlppeleel 108
                              +++++v++i+ n+++++t+   ++++ i+++l+p+ +++
  PHY93_04830|PHY93_04830 369 LERRDVAQIVINRSENSTYnllKSQDTITKFLSPKIKIE 407
                              67899********99999999999999999998886665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (564 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       709  (0.0395449); expected 358.6 (0.02)
Passed bias filter:                      339  (0.0189079); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.58u 0.23s 00:00:00.81 Elapsed: 00:00:00.42
# Mc/sec: 4078.30
//
Query:       PHY93_04835|PHY93_04835  [L=382]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.1e-67  225.4   1.6    2.9e-67  224.9   0.1    1.9  2  S-AdoMet_synt_C  S-adenosylmethionine synthetase, C-terminal 
    4.8e-44  149.5   0.0    1.7e-43  147.7   0.0    1.9  2  S-AdoMet_synt_M  S-adenosylmethionine synthetase, central dom
    5.5e-44  148.9   0.9    1.2e-43  147.7   0.1    2.0  2  S-AdoMet_synt_N  S-adenosylmethionine synthetase, N-terminal 
  ------ inclusion threshold ------
      0.029   13.2   4.9        1.4    7.7   0.1    2.3  2  AdoMet_Synthase  S-adenosylmethionine synthetase (AdoMet synt


Domain annotation for each model (and alignments):
>> S-AdoMet_synt_C  S-adenosylmethionine synthetase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.1      0.43   1.9e+03      66     102 ..     173     210 ..     167     226 .. 0.64
   2 !  224.9   0.1   6.4e-71   2.9e-67       1     138 []     236     373 ..     236     373 .. 1.00

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 0.43
                              EEEE-TT-SS-S.EEEEEE-S-BSS-HHHHHHHHHHH- CS
          S-AdoMet_synt_C  66 qlsYaigvaepv.sisvetfgtekvseeeiaeivkevf 102
                                 Y+ g  + + +i ++t++ e+++ ++i+e v++ +
  PHY93_04835|PHY93_04835 173 SAQYVNGKITRLdAIVISTQHAEEMTLKQIEEGVRAEV 210
                              55566665544425778888888888888888886543 PP

  == domain 2  score: 224.9 bits;  conditional E-value: 6.4e-71
                              S-TTTTS-EETTS-TTTTTTTTSS---S---TTB-TTSHHHHHHHHHHHHHHHHHHTTSBSEEEEEEEE-TT-SS-SEEEEEE-S- CS
          S-AdoMet_synt_C   1 iGgpkgdaGltgrkiivdtYgglaahgggafsgKdptkvDrsaayaaryvaknlvaaglakkvevqlsYaigvaepvsisvetfgt 86 
                              iGgp+gd+GltgrkiivdtYgg +ahgggafsgKdp+kvDrsaayaar+vak++vaagla+k +vq++Yaigva+pvs+ vet+gt
  PHY93_04835|PHY93_04835 236 IGGPMGDCGLTGRKIIVDTYGGHGAHGGGAFSGKDPSKVDRSAAYAARHVAKHIVAAGLAEKALVQVAYAIGVAQPVSFLVETYGT 321
                              8************************************************************************************* PP

                              BSS-HHHHHHHHHHH----HHHHHHHHTTTSS--TGGGSS-SSS--T-TTS. CS
          S-AdoMet_synt_C  87 ekvseeeiaeivkevfdlrpaaiieeldLkkpiykktaayghfgreelpwek 138
                              ekv+ ++++++++++fd++p+aiie+ldL kpiy++taayghfgr+ +pwek
  PHY93_04835|PHY93_04835 322 EKVEIKKLTDVINKMFDMKPRAIIERLDLLKPIYSQTAAYGHFGRDIFPWEK 373
                              ***************************************************7 PP

>> S-AdoMet_synt_M  S-adenosylmethionine synthetase, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       1.4   6.4e+03      86     102 ..      19      35 ..       9      50 .. 0.53
   2 !  147.7   0.0   3.7e-47   1.7e-43       1     120 []     117     234 ..     117     234 .. 0.98

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 1.4
          S-AdoMet_synt_M  86 klredlkekvikkvlke 102
                              k+++++ + v++++l++
  PHY93_04835|PHY93_04835  19 KIADQISDAVLDAMLAQ 35 
                              44455555555444432 PP

  == domain 2  score: 147.7 bits;  conditional E-value: 3.7e-47
          S-AdoMet_synt_M   1 eigAgDqGimfGYAtdeteelmPlpillahklaerlaelrkegeleylrpDaKsqvtveYeeelkpvrvdtvvistqhdeevsqek 86 
                              e+gAgDqG+mfGYA++e+ ++mPl+i l+h+la++l+e+rk+g l+ lr D+K+qv+ +Y  ++k +r+d++vistqh+ee++ ++
  PHY93_04835|PHY93_04835 117 EQGAGDQGLMFGYACNESANFMPLTIDLSHQLAKKLSEVRKNGPLPLLRADGKTQVSAQYV-NGKITRLDAIVISTQHAEEMTLKQ 201
                              69**********************************************************5.99********************** PP

          S-AdoMet_synt_M  87 lredlkekvikkvlkeelldekktkllinptGkF 120
                              ++e ++ +vi+kv++++l+d++ tk++inptG+F
  PHY93_04835|PHY93_04835 202 IEEGVRAEVINKVVPANLIDNN-TKIYINPTGRF 234
                              ****************999885.**********9 PP

>> S-AdoMet_synt_N  S-adenosylmethionine synthetase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  147.7   0.1   2.8e-47   1.2e-43       2      99 .]       5     102 ..       4     102 .. 0.99
   2 ?   -2.0   0.0       1.3   5.9e+03      20      65 ..     284     328 ..     280     336 .. 0.62

  Alignments for each domain:
  == domain 1  score: 147.7 bits;  conditional E-value: 2.8e-47
          S-AdoMet_synt_N   2 ylftsesVseGHPDkvadqisdaildailkedpkarvacetlvttglvvvageittkakvdiekivrevikeigYekeelgfdakt 87 
                              y+ftsesV+eGHPDk+adqisda+lda+l++dpkarvacetl+ttglvv+ageitt+a+vd+++ivr++ik+igY+++++gfda+t
  PHY93_04835|PHY93_04835   5 YIFTSESVTEGHPDKIADQISDAVLDAMLAQDPKARVACETLITTGLVVLAGEITTTANVDFQAIVRKTIKDIGYDDSRKGFDATT 90 
                              89************************************************************************************ PP

          S-AdoMet_synt_N  88 cevlvaleeqsp 99 
                              c v + l +qsp
  PHY93_04835|PHY93_04835  91 CGVSIVLGKQSP 102
                              ***********7 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 1.3
          S-AdoMet_synt_N  20 qisdaildailkedpkarvacetlvttglvvvageittkakvdiek 65 
                              +++ +i+ a l+e    +va  + v++ + +++    t+ kv+i+k
  PHY93_04835|PHY93_04835 284 HVAKHIVAAGLAEKALVQVAYAIGVAQPVSFLVETYGTE-KVEIKK 328
                              567777888888887778877776665554444433333.555554 PP

>> AdoMet_Synthase  S-adenosylmethionine synthetase (AdoMet synthetase)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   0.1    0.0003       1.4      25      43 ..      13      31 ..       6      41 .. 0.84
   2 ?    6.7   1.4   0.00059       2.6      91     380 ..      58     339 ..      37     350 .. 0.69

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.0003
                             -TTSHHHHHHHHHHHHHHH CS
          AdoMet_Synthase 25 GiGHPDsiaDgiaeavsra 43
                               GHPD+iaD+i++av  a
  PHY93_04835|PHY93_04835 13 TEGHPDKIADQISDAVLDA 31
                             67************99765 PP

  == domain 2  score: 6.7 bits;  conditional E-value: 0.00059
                              EEEEE.EEE--HHHHHHHHHHHHHHHH-SS.--TTTSEEEEEEEEEEEEHHHHHHCH-SS....-BESSSEEEEEEES--HHHHHH CS
          AdoMet_Synthase  91 atkevegekipveeialeaakeylkenlra.ldlekdvivdvklgkgsadLkdvferkkk..evplaNDtSfgvgyaplseleklv 173
                               t+   + ++++++i+ +++k+   +  r+ +d  +   v++ lgk s d+ + ++  +     + a D  +  gya   + + + 
  PHY93_04835|PHY93_04835  58 ITT---TANVDFQAIVRKTIKDIGYDDSRKgFDA-TTCGVSIVLGKQSPDIAQGVNVGEGtfVEQGAGDQGLMFGYACNESANFMP 139
                              444...4456677777777777654444431443.456667777777777766555544433335677777777777766666666 PP

                              HHHHHHHTSHHHHHH-TTEEEEEEEEEEEETTEEEEEEEEEEEGGG--SHHHHHHHHHHHHHHHHHHHHHHSTTSEE..EEEE-TT CS
          AdoMet_Synthase 174 leterllnskelkkklpevGeDiKvmglRekkkielTvavalvdrlvkdleeYlevkeeikeeveelakkltkerev..evevNta 257
                              l+++    s++l kkl ev +   +  lR + k +  v++ +v+  ++ l++ +   ++ +e   + +++  + + +   v  N  
  PHY93_04835|PHY93_04835 140 LTIDL---SHQLAKKLSEVRKNGPLPLLRADGKTQ--VSAQYVNGKITRLDAIVISTQHAEEMTLKQIEEGVRAEVInkVVPANLI 220
                              55552...345566666666666666677766655..5677888888888888888888777777777765554433114677888 PP

                              -BGGGTB--EESSSSGG...GTT--EETTSS--TTSSB-TTS----S--TTS-TTT-HHHHHHHHHHHHHHHHHHH-TTEEEEEEE CS
          AdoMet_Synthase 258 DkkeeesvyltvtGtsa...EegDdGsvGRGNRvnGlitpnrpmslEAaaGKNPvsHvGKiYnvlaneiakeiveevegvkevyvr 340
                              D  +++++y+  tG  +    +gD+G +GR   v      +   +  A +GK P s v +     a+++ak+iv+     +++ v+
  PHY93_04835|PHY93_04835 221 D--NNTKIYINPTGRFViggPMGDCGLTGRKIIVDTY-GGHGAHGGGAFSGKDP-SKVDRSAAYAARHVAKHIVAAG-LAEKALVQ 301
                              8..7899*******75522268888888887655543.4456778899******.6799999999********9954.45889999 PP

                              EEE-TTSBTTS-SEEEEEEEESSS---HHSHHHHHHHHHH CS
          AdoMet_Synthase 341 llsqiGkpidePlvasvqvilekgvsleevekeveeiide 380
                              +   iG  + +P    v+   +++v+++++++ +++++d 
  PHY93_04835|PHY93_04835 302 VAYAIG--VAQPVSFLVETYGTEKVEIKKLTDVINKMFDM 339
                              999999..789********999999999999999998875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (382 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       570  (0.0317921); expected 358.6 (0.02)
Passed bias filter:                      482  (0.0268838); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.54u 0.26s 00:00:00.80 Elapsed: 00:00:00.42
# Mc/sec: 2709.68
//
Query:       PHY93_04840|PHY93_04840  [L=176]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.6e-11   43.7   2.5    2.6e-11   43.7   2.5    1.4  2  Y1_Tnp    Transposase IS200 like


Domain annotation for each model (and alignments):
>> Y1_Tnp  Transposase IS200 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.7   2.5   1.4e-15   2.6e-11       3     121 .]      12     124 ..      10     124 .. 0.90
   2 ?   -3.4   0.0      0.54   9.7e+03      71      87 ..     126     142 ..     125     151 .. 0.57

  Alignments for each domain:
  == domain 1  score: 43.7 bits;  conditional E-value: 1.4e-15
                   Y1_Tnp   3 nlkyhivlvtkyRrkvltge.veerlkeiikeiaekkevkilelelmpDHvHllvelppklsiskivkalkgassrlinkefpelk 87 
                               ++ h+++ +k+ +  l+++ v   lk  i   a+k++ k+++++l+ DHvHll+e+++++ +sk ++++  + s+ in      +
  PHY93_04840|PHY93_04840  12 ACSLHLTVKIKKIKAELKNKsVLSILKRAI-LNARKQGLKVIHYSLEYDHVHLLIEADNNHILSKGMQSFGVTISKAIN------R 90 
                              689999999999888888886888888888.568999******************************************......7 PP

                   Y1_Tnp  88 kkklkkeslWqrgYfvstvgea.sletvkrYIenq 121
                              ++klk +  ++++Y+   +++  +l++v +YI n+
  PHY93_04840|PHY93_04840  91 MRKLK-GGVYKHRYHFRKISSPrQLKNVLNYIFNN 124
                              78888.559***********888*********875 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 0.54
                   Y1_Tnp  71 lkgassrlinkefpelk 87 
                              +k +++++i  ++++++
  PHY93_04840|PHY93_04840 126 IKHKTAKHIVGHYNSIQ 142
                              56666666664444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (176 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       701  (0.0390987); expected 358.6 (0.02)
Passed bias filter:                      384  (0.0214178); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.42
# Mc/sec: 1262.19
//
Query:       PHY93_04845|PHY93_04845  [L=255]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.055   12.5   0.0      0.081   12.0   0.0    1.2  1  Pro_racemase  Proline racemase


Domain annotation for each model (and alignments):
>> Pro_racemase  Proline racemase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   4.5e-06     0.081     159     219 ..     146     207 ..     140     229 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 4.5e-06
                              EEEESSSEEEEEEGGGCTS-SSCCCHHHHH.HHHHHHHHHHHHHH---TTCSTTC-SEEEEE CS
             Pro_racemase 159 DiayGGnfyaiveaeklgldlekaearelv.eageklrealneqlkvqhpenedirevslve 219
                               +a+ G +ya v+ ++ g+++e+++a+ ++ e   +++e ++++ + + pe +++++v++  
  PHY93_04845|PHY93_04845 146 KVAFAGFTYASVKYQQRGVRIEEKSAELVQkEQCARVNECIEQASEKEMPELKKLSAVACKA 207
                              59********************999987762467899999***9999999999999888754 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (255 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1045  (0.0582855); expected 358.6 (0.02)
Passed bias filter:                      467  (0.0260472); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1884.45
//
Query:       PHY93_04850|PHY93_04850  [L=523]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.9e-71  238.6   0.1    4.2e-71  238.1   0.1    1.2  1  Sigma54_activat  Sigma-54 interaction domain
    3.3e-21   75.8   0.0    1.5e-20   73.7   0.0    2.1  1  Sigma54_activ_2  Sigma-54 interaction domain
    1.9e-12   46.7   0.1      5e-12   45.4   0.1    1.8  1  HTH_8            Bacterial regulatory protein, Fis family
    1.1e-10   41.7   0.0    2.9e-10   40.3   0.0    1.8  1  Response_reg     Response regulator receiver domain
    3.2e-05   24.4   0.0    6.1e-05   23.5   0.0    1.5  1  AAA_16           AAA ATPase domain
    0.00013   21.4   0.2     0.0018   17.7   0.2    2.2  1  Mg_chelatase     Magnesium chelatase, subunit ChlI
    0.00036   20.9   0.2     0.0021   18.5   0.0    2.2  2  AAA              ATPase family associated with various cellul
     0.0011   18.1   0.0      0.002   17.2   0.0    1.3  1  T2SSE            Type II/IV secretion system protein
     0.0012   18.9   0.0     0.0024   17.9   0.0    1.6  1  AAA_5            AAA domain (dynein-related subfamily)
  ------ inclusion threshold ------
      0.022   13.9   0.0      0.043   13.0   0.0    1.4  1  PIF1             PIF1-like helicase
      0.029   14.3   0.0      0.066   13.1   0.0    1.6  1  RsgA_GTPase      RsgA GTPase
      0.046   13.8   0.0       0.11   12.7   0.0    1.6  1  AAA_2            AAA domain (Cdc48 subfamily)
      0.048   14.2   0.0       0.94   10.0   0.0    2.5  2  AAA_18           AAA domain
      0.097   12.6   0.0       0.18   11.7   0.0    1.4  1  APS_kinase       Adenylylsulphate kinase


Domain annotation for each model (and alignments):
>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  238.1   0.1   3.3e-74   4.2e-71       1     168 []     206     373 ..     206     373 .. 0.99

  Alignments for each domain:
  == domain 1  score: 238.1 bits;  conditional E-value: 3.3e-74
                              ----SHHHHHHHHHHHHHCTSSS-EEEECSTTSSHHHHHHHHHHHSTTTTS-EEEEETTTS-TTCHHHHHHEBSSSSSTTTSS-BE CS
          Sigma54_activat   1 ligesealkelleqikkvaktdlsvlitGesGtGKellaraiheaskrkekpfvavncaaipeelleseLFGhekGaFtGAekekk 86 
                              ++g+s+++k+++e+ikkva++d++++i G sGtGKel+a+a+h+ s+rk++++v+vnc+aip+elleseLFGhekGaFtGA +++k
  PHY93_04850|PHY93_04850 206 MVGRSKQMKQVFERIKKVAASDSTIFISGPSGTGKELVANALHHLSNRKAHNMVSVNCGAIPSELLESELFGHEKGAFTGAISSRK 291
                              5899********************************************************************************** PP

                              HHHHHTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEESBTSSSEEE--EEEEEEESS-HHHHHHTTSS-HHHHHHHTSEEEE CS
          Sigma54_activat  87 GlfekadgGtlfLDeigelplelQekLlrvlqegevervGsskeikvdvriiaatnedleeaveegkfredLyyrlnvieie 168
                              G+fe a+ G +fLDeig++pl lQ+k+lrvlq++ +ervGs++++++dvrii+at+++leeav+eg+fredLyyrlnvi+i+
  PHY93_04850|PHY93_04850 292 GRFEMAHRGSIFLDEIGDMPLLLQVKILRVLQNRVIERVGSTETTEIDVRIITATHRNLEEAVQEGNFREDLYYRLNVIPIK 373
                              *******************************************************************************995 PP

>> Sigma54_activ_2  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.7   0.0   1.2e-23   1.5e-20       1     138 []     207     377 ..     207     377 .. 0.93

  Alignments for each domain:
  == domain 1  score: 73.7 bits;  conditional E-value: 1.2e-23
                              X---HHHHHHHHHHHHHHT-SS-EEEEEETT--HHHHHHCC--TTS-EE--SSTTHHHH-HHHHHHH................... CS
          Sigma54_activ_2   1 lgasaaiqelkerLeqaaqsklpvfltGekGsgkelvArlLhknsgpwleifvverlaklpldlleq................... 67 
                              +g+s+ +++ +er++++a+s + +f+ G+ G+gkelvA++Lh+ s ++ + +v  +++++p++lle+                   
  PHY93_04850|PHY93_04850 207 VGRSKQMKQVFERIKKVAASDSTIFISGPSGTGKELVANALHHLSNRKAHNMVSVNCGAIPSELLESelfghekgaftgaissrkg 292
                              79**********************************************9999999******8888888888888877777777666 PP

                              ....TTTSEEEEEE-TT--HHHHHHHHHHHHH..........HTTTT-EEEEEEEE-TTT..----HHHHHHHHSSSEEEEE--- CS
          Sigma54_activ_2  68 ....akggtLylkdiadlskaeqkeLlellak..........aeksslrlVstsskdleqlleagafdekLlkeLselrlhvPpL 138
                                  a+ g ++l +i d++  +q ++l +l++            + ++r+++++ ++le+ +++g+f e L+++L  + +++P+L
  PHY93_04850|PHY93_04850 293 rfemAHRGSIFLDEIGDMPLLLQVKILRVLQNrviervgsteTTEIDVRIITATHRNLEEAVQEGNFREDLYYRLNVIPIKIPAL 377
                              66668***********************************875589*************************************98 PP

>> HTH_8  Bacterial regulatory protein, Fis family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.4   0.1   3.9e-15     5e-12       2      41 ..     479     518 ..     478     518 .. 0.97

  Alignments for each domain:
  == domain 1  score: 45.4 bits;  conditional E-value: 3.9e-15
                              HHHHHHHHHHHHHHHTTT-HHHHHHHHTS-HHHHHHHHHH CS
                    HTH_8   2 leevEkelIeaALertgGnkskAArlLGisRrtLyrKLkk 41 
                              l ++E  lI +ALe tgGnk +A++lL ++R+tL  K+kk
  PHY93_04850|PHY93_04850 479 LSDIEDSLINQALELTGGNKNQASKLLSMNRTTLIEKMKK 518
                              789************************************8 PP

>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.3   0.0   2.3e-13   2.9e-10       1     110 [.      29     149 ..      29     151 .. 0.86

  Alignments for each domain:
  == domain 1  score: 40.3 bits;  conditional E-value: 2.3e-13
                              EEEESSSHHHHHHHHHHHH.HTTEEEEEEESSHHHHHHHH....HHHH.......ESEEEEESSCSS..SEHHHHHHHHHHCTTTS CS
             Response_reg   1 vlivdDdplvrellrqlle.eegyeevaeaedgkealell....keek.......vdlillDinmpg..mdGlellkeireedpel 72 
                              + +v+Dd+++ + ++++le +  + +v+ + +++e+l  l    k  +       + ++++Di+ +    dGl l++ ++e+ ++ 
  PHY93_04850|PHY93_04850  29 IYLVEDDRVLGTTIKKYLEkKLAL-NVHFFLTPTECLLELdkkiK--SetvvnqtPFCLITDISFEVggSDGLLLIDLLKERGHHF 111
                              679****************55666.***99999999988844442..0446666699******9875448**************** PP

                              EEEEEESSTSHHHHHHHHHCTESEEEESSG-HHHHHHH CS
             Response_reg  73 pviiltahseeedavealkagaddflsKpfdpeeLlka 110
                                i++t+ ++ e+a++a k g++ +l+Kpf+ e L + 
  PHY93_04850|PHY93_04850 112 VSIVMTGFASIETAINATKKGVFHYLTKPFELEILSEL 149
                              ******************************99988765 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.5   0.0   4.8e-08   6.1e-05       3      54 ..     207     256 ..     206     355 .. 0.87

  Alignments for each domain:
  == domain 1  score: 23.5 bits;  conditional E-value: 4.8e-08
                   AAA_16   3 vGReeeleqLlsalervrsgrpelvllsGesGvGKsslvrellralekdggi 54 
                              vGR ++++q+ + +++v++++ + +++sG+sG+GK  ++++l+ +l+ ++++
  PHY93_04850|PHY93_04850 207 VGRSKQMKQVFERIKKVAASD-STIFISGPSGTGKELVANALH-HLSNRKAH 256
                              8*******************9.8****************9999.55555343 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   0.2   1.4e-06    0.0018      18     119 ..     223     311 ..     209     348 .. 0.73

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 1.4e-06
             Mg_chelatase  18 aaaGgHnlllvGppGsGKtmlakrlpsllpplseeealevakiasvagkkeeekllkrrpfraphhsaskaalvGggskpkpGeis 103
                               aa    +++ Gp+G+GK ++a++l+ l    s+++a+++ +++        ++ll++  f + +      a+  g  + ++G   
  PHY93_04850|PHY93_04850 223 VAASDSTIFISGPSGTGKELVANALHHL----SNRKAHNMVSVN---CGAIPSELLESELFGHEK-----GAF-TGAISSRKGRFE 295
                              456677999**************99875....556665555554...435577888888886543.....334.35667899**** PP

             Mg_chelatase 104 lahnGvLfLDElpefk 119
                              +ah+G +fLDE+ ++ 
  PHY93_04850|PHY93_04850 296 MAHRGSIFLDEIGDMP 311
                              ***********98865 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.1      0.42   5.4e+02      40      64 ..     207     232 ..     166     233 .. 0.67
   2 !   18.5   0.0   1.7e-06    0.0021       2     111 ..     231     348 ..     230     367 .. 0.76

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.42
                              THHHHHHHHHHHHHHHTS.TSEEEEE CS
                      AAA  40 gesekkirelfkeakeka.kpsilfi 64 
                                ++k+++++f+++k+ a + s +fi
  PHY93_04850|PHY93_04850 207 VGRSKQMKQVFERIKKVAaSDSTIFI 232
                              3457899*******999965588887 PP

  == domain 2  score: 18.5 bits;  conditional E-value: 1.7e-06
                              EEESSTTSSHHHHHHHHHHHHT...HEEEEEETTTCSSS.....STTHHHHHHHHHHHHHHHTS...TS.EEEEEETGGGHHHHHT CS
                      AAA   2 llyGppGtGKTllakavakelg...vefleisgsellsk.....yvgesekkirelfkeakeka...kp.silfiDEidalaksrs 75 
                               ++Gp GtGK l+a+a+ + ++    +++++++  + s+     ++g+ +  + + +++ ++ +   ++   +f+DEi  +     
  PHY93_04850|PHY93_04850 231 FISGPSGTGKELVANALHHLSNrkaHNMVSVNCGAIPSElleseLFGHEKGAFTGAISS-RKGRfemAHrGSIFLDEIGDMPLLL- 314
                              689**************999975557799999988776677777888888888888876.444456634488*******997666. PP

                              TCCCHHHHHHHHHHHHHHHHTTTSSSTEEEEEEESS CS
                      AAA  76 gseseeeervvnqLlteldgvkkkeskvivigatnr 111
                                + +  + ++n  ++ +   ++ e +v +i+at+r
  PHY93_04850|PHY93_04850 315 --QVKILRVLQNRVIERVGSTETTEIDVRIITATHR 348
                              ..6677888888888888888888888999999988 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.0   1.6e-06     0.002      75     163 ..     174     261 ..     134     264 .. 0.79

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 1.6e-06
                    T2SSE  75 ekgvrlrvvllPvvagealviRkksakeltlddlgaeealkekiaevlrkavrerglilvsGgTgsGKttllyallkeinksderi 160
                              +++ + +++ +P + + ++ i  + + ++    +g ++++k+ ++++ + a ++  +i +sG+ g+GK  +++al +  n + +++
  PHY93_04850|PHY93_04850 174 KTNSSPNASNAPHLFQSKFKIEAPGVDDIFCGMVGRSKQMKQVFERIKKVA-ASDSTIFISGPSGTGKELVANALHHLSNRKAHNM 258
                              566666777788888888888888888888888888888888888876666.999********************99999999998 PP

                    T2SSE 161 vtv 163
                              v v
  PHY93_04850|PHY93_04850 259 VSV 261
                              876 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.0   1.9e-06    0.0024       2     123 ..     230     349 ..     229     367 .. 0.77

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 1.9e-06
                              EEEE--SSSSHHHHHHHGGGGB.S--EEEEE--TT--HHHHH--B--.........--------....G-SEEEEESGGG--HHHH CS
                    AAA_5   2 vlLvGppGtgKselaerlaaal.nreveyvqltrdtteedlkgrreikngttslvdsplvraar....egeilvlDEveraesevl 82 
                              +++ Gp+GtgK  +a  l ++  ++  ++v  + +  +++l+ +  +  ++ +++  +  r++r    +   ++lDE+  ++   +
  PHY93_04850|PHY93_04850 230 IFISGPSGTGKELVANALHHLSnRKAHNMVSVNCGAIPSELLESELFGHEKGAFTGAISSRKGRfemaHRGSIFLDEIGDMPLLLQ 315
                              6889******************5444567778888888888888887777777777777777778888777889************ PP

                              HHHHHHHHSSEEE..-SSSEEE---......-EEEEEESS- CS
                    AAA_5  83 nsLlslleerrllleeggelvkaknddllerfrviatanpl 123
                               + l++l +r +    ++e +  +       +r+i +++++
  PHY93_04850|PHY93_04850 316 VKILRVLQNRVIERVGSTETTEID-------VRIITATHRN 349
                              **********99955444444332.......7777777765 PP

>> PIF1  PIF1-like helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   3.3e-05     0.043       4      67 ..     211     272 ..     209     284 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 3.3e-05
                              HHHHHHHHHH......HCTS-EEEEESTTSSCHHHHHHHHHHCHCTCCCEEEEESSHHHHHCC. CS
                     PIF1   4 eeQkkvfdaiieavlnekgklfFvtGsgGtgKtflwkallkklrsegkivlavAssGvAallle 67 
                              ++ k+vf++i +  ++ +  ++F++G +GtgK  + +al +  + + ++ + v    + + lle
  PHY93_04850|PHY93_04850 211 KQMKQVFERI-K-KVAASDSTIFISGPSGTGKELVANALHHLSNRKAHNMVSVNCGAIPSELLE 272
                              5678899999.4.44566779******************9999999999999888888887776 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   5.2e-05     0.066      80     125 ..     207     254 ..     156     265 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 5.2e-05
                              EE--TTTHTTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCT.T--- CS
              RsgA_GTPase  80 llvsaktkegleelkellkd.ktsvlvGqSGvGKStLinallp.elel 125
                              +  s++ k+ +e++k++ ++ +t+++ G+SG GK  + nal+  +++ 
  PHY93_04850|PHY93_04850 207 VGRSKQMKQVFERIKKVAASdSTIFISGPSGTGKELVANALHHlSNRK 254
                              4457788899999*9999886788889*************99833333 PP

>> AAA_2  AAA domain (Cdc48 subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   8.2e-05      0.11       4      77 ..     228     307 ..     225     310 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 8.2e-05
                              --EEEE--TTSSHHHHHHHHHHHTT-....-EEEEEG....GG-----...--THHHHHHHHHTTT-HHHHTTSEEEEETG CS
                    AAA_2   4 isilllgptgvGktelakalaellfvkkekklirada....selleee...evehlvsrligappgyvgaeegGivllDEi 77 
                              ++i + gp+g+Gk+++a+al  l + +k ++++ +++    selle+e     +   +  i +++g  + + +G ++lDEi
  PHY93_04850|PHY93_04850 228 STIFISGPSGTGKELVANALHHLSN-RKAHNMVSVNCgaipSELLESElfgHEKGAFTGAISSRKGRFEMAHRGSIFLDEI 307
                              67899********************.9*******9985555677775511134556777788888999999999******9 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.0      0.41   5.3e+02      12      47 ..      40      72 ..      40     119 .. 0.83
   2 ?   10.0   0.0   0.00074      0.94       1      19 [.     230     253 ..     230     280 .. 0.71

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 0.41
                   AAA_18 12 ttlakeLskrlgfgvnlrdvakenglllevdpeald 47
                             tt+ k+L+k+l    n+ + ++  ++lle d++ ++
  PHY93_04850|PHY93_04850 40 TTIKKYLEKKL--ALNVHFFLTPTECLLELDKK-IK 72
                             89********9..99999999999999998888.33 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00074
                   AAA_18   1 IlltGtpGvGKttlakeL.....s 19 
                              I+++G++G+GK  +a++L     +
  PHY93_04850|PHY93_04850 230 IFISGPSGTGKELVANALhhlsnR 253
                              99****************444322 PP

>> APS_kinase  Adenylylsulphate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00014      0.18       3      39 ..     228     264 ..     226     280 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00014
                              EEEEEESSTTSSHHHHHHHHHHHHHHTT--EEEEEHH CS
               APS_kinase   3 vvvwltGlsgsGKstianalekkLvekgisvylLdGd 39 
                               +++++G sg+GK+ +anal++  ++k ++++ ++  
  PHY93_04850|PHY93_04850 228 STIFISGPSGTGKELVANALHHLSNRKAHNMVSVNCG 264
                              69******************97766666666665555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (523 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       727  (0.0405488); expected 358.6 (0.02)
Passed bias filter:                      595  (0.0331865); expected 358.6 (0.02)
Passed Vit filter:                        74  (0.00412739); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.64u 0.28s 00:00:00.92 Elapsed: 00:00:00.44
# Mc/sec: 3578.64
//
Query:       PHY93_04855|PHY93_04855  [L=187]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
      2e-36  124.6   0.0    2.7e-36  124.2   0.0    1.2  1  AhpC-TSA    AhpC/TSA family
      6e-16   58.5   0.0    7.6e-16   58.1   0.0    1.1  1  Redoxin     Redoxin
    2.4e-06   27.5   0.0    0.00027   20.8   0.1    2.2  2  SCO1-SenC   SCO1/SenC
     0.0007   19.4   0.3     0.0014   18.4   0.3    1.5  1  1-cysPrx_C  C-terminal domain of 1-Cys peroxiredoxin
     0.0032   18.4   0.8     0.0048   17.9   0.8    1.4  1  DUF3986     Protein of unknown function (DUF3986)
  ------ inclusion threshold ------
       0.15   12.2   0.0        0.2   11.8   0.0    1.3  1  AhpC-TSA_2  AhpC/TSA antioxidant enzyme


Domain annotation for each model (and alignments):
>> AhpC-TSA  AhpC/TSA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  124.2   0.0     9e-40   2.7e-36       1     122 [.       6     134 ..       6     136 .. 0.97

  Alignments for each domain:
  == domain 1  score: 124.2 bits;  conditional E-value: 9e-40
                              TTSB----EEE...STTCEEEECHHHTTSEEEEEEESTST-CCHHHHHHHHHHCHHHCCCTTEEEEEEESSSCHHHHHHHHH-H.. CS
                 AhpC-TSA   1 vgdkapdfelk...nadgetvslsdykgkpvvlffypkdwcpvCttelpalaklyeefkergvevigvsvdspeshkkfiekes.. 81 
                              ++ k+pdf+++     d++t++ +d++gk+ ++ffyp+d+++vC+tel ++a++y+ f++ gvev+ vs+d+++ hk+++++ +  
  PHY93_04855|PHY93_04855   6 INTKVPDFKVQayyHNDFKTITQEDLQGKWSIFFFYPADFTFVCPTELGDMADKYPIFQKMGVEVYSVSTDTHFVHKAWHDASEti 91 
                              6789*******998889********************************************************************* PP

                              ...SSEEEE-TTSHHHHHTT-EETTTTECSCEEEEE-TTSBEE CS
                 AhpC-TSA  82 ..lnfpllsDeegkvakaygvlkeekglalratfvidkegkir 122
                                +++p+l+D++g++++a+gv  ee+gla+r+tf++++eg i+
  PHY93_04855|PHY93_04855  92 kkIKYPMLADPTGHLSRAFGVHIEEEGLAYRGTFLVNPEGLIK 134
                              ****************************************997 PP

>> Redoxin  Redoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.1   0.0   2.5e-19   7.6e-16       3     136 ..       7     142 ..       5     151 .. 0.88

  Alignments for each domain:
  == domain 1  score: 58.1 bits;  conditional E-value: 2.5e-19
                              TSBB---E...CCEETTCEEEEEHHHHTTSEEEEEEESTTT-HHHHHTHHHHHTHHHHHHCSTTTEEEEEESSSHHHHHHHHH... CS
                  Redoxin   3 gdkaPdft...lplaatdgnsvslsefkgkkvvvnfvpgafcPtCsaehpyleklaellkekgvdvvavvadndafvkefwgk... 82 
                              + k+Pdf+       ++d ++++ ++++gk  + +f+p+ f+ +C +e+ ++++ ++ + + gv+v  v++d   fv ++w +   
  PHY93_04855|PHY93_04855   7 NTKVPDFKvqaY--YHNDFKTITQEDLQGKWSIFFFYPADFTFVCPTELGDMADKYPIFQKMGVEVYSVSTD-THFVHKAWHDase 89 
                              5799****7432..579*************************************************666655.468********** PP

                              ..TT-TSEEEE-TTSHHHHHTT-TTEEE.GGGEEE-EEEEEEETTEEEEEEESSSC CS
                  Redoxin  83 ..eglkfpvlsDgsaaftkalGlrleedaseglrtpryavidedgkvvylevepep 136
                                +++k+p+l+D+++++++a+G+ +ee   egl+++ +++++ +g ++ +e  ++ 
  PHY93_04855|PHY93_04855  90 tiKKIKYPMLADPTGHLSRAFGVHIEE---EGLAYRGTFLVNPEGLIKLVEINDNG 142
                              ************************986...579************99888877765 PP

>> SCO1-SenC  SCO1/SenC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.8   0.1   9.2e-08   0.00027      10      67 ..      22      77 ..      15      93 .. 0.89
   2 ?    4.5   0.0      0.01        31       7      40 ..     138     171 ..     134     179 .. 0.90

  Alignments for each domain:
  == domain 1  score: 20.8 bits;  conditional E-value: 9.2e-08
                SCO1-SenC 10 dgeavteedlegkpslvffgFthCpdvCpttlanmaevldalgeeaekvqplfiTvDP 67
                             d +++t+edl+gk+s++ff  +  + vCpt+l +ma+ +  +++    v++++++ D 
  PHY93_04855|PHY93_04855 22 DFKTITQEDLQGKWSIFFFYPADFTFVCPTELGDMADKYPIFQKM--GVEVYSVSTDT 77
                             56899***********999999999**************999999..67777777775 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.01
                SCO1-SenC   7 vdqdgeavteedlegkpslvffgFthCpdvCptt 40 
                              ++ +g  ++ ++l  k+++++f+ +h ++vCp++
  PHY93_04855|PHY93_04855 138 INDNGIGRNADELLRKVQAAQFIAAHPNEVCPAK 171
                              68889999999*********************86 PP

>> 1-cysPrx_C  C-terminal domain of 1-Cys peroxiredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.3   4.7e-07    0.0014       3      23 ..     158     179 ..     156     183 .. 0.85

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 4.7e-07
                              HHHHHH.T-BB-TTT.TBT-EE CS
               1-cysPrx_C   3 Qladkh.gvatPAnWkpGdkvi 23 
                              Q+ ++h ++++PA W+pG  ++
  PHY93_04855|PHY93_04855 158 QFIAAHpNEVCPAKWTPGGATL 179
                              899999888*********8777 PP

>> DUF3986  Protein of unknown function (DUF3986)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.8   1.6e-06    0.0048      30      75 ..      32      77 ..      13      93 .. 0.78

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 1.6e-06
                  DUF3986 30 edvWvvyfdf.edygvekdelslskf.dkyalfdkyGykvysikakdl 75
                             +++W ++f +  d++   + ++l+ + dky++f+k G++vys+ ++d 
  PHY93_04855|PHY93_04855 32 QGKWSIFFFYpADFTFVCP-TELGDMaDKYPIFQKMGVEVYSV-STDT 77
                             5789999887577766555.8888888****************.5554 PP

>> AhpC-TSA_2  AhpC/TSA antioxidant enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   6.6e-05       0.2       5      55 ..      59     121 ..      55     179 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 6.6e-05
               AhpC-TSA_2   5 dkpeldaagvklvaigigdp.sakkFvkl....tgfpfelyvDpsaklyqalglk.......r 55 
                              + p +++ gv+++ ++ +++   k++ +      ++++++++Dp++ l +a+g++        
  PHY93_04855|PHY93_04855  59 KYPIFQKMGVEVYSVSTDTHfVHKAWHDAsetiKKIKYPMLADPTGHLSRAFGVHieeeglaY 121
                              56889***************77*****998888899*****************9855544440 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (187 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       388  (0.0216409); expected 358.6 (0.02)
Passed bias filter:                      370  (0.020637); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 1367.72
//
Query:       PHY93_04860|PHY93_04860  [L=514]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.3e-43  149.3   5.4    1.9e-43  148.8   5.4    1.2  1  Pyr_redox_2     Pyridine nucleotide-disulphide oxidoreductase
    4.9e-17   62.1   2.9    6.6e-14   51.9   0.1    2.2  2  Pyr_redox_3     Pyridine nucleotide-disulphide oxidoreductase
    1.4e-14   54.1   6.3      1e-06   28.1   0.6    3.9  4  GIDA            Glucose inhibited division protein A
    7.4e-14   52.1   6.9    1.5e-11   44.6   0.5    3.6  3  Pyr_redox       Pyridine nucleotide-disulphide oxidoreductase
    1.1e-09   37.5   3.3     0.0042   15.8   0.7    3.4  3  HI0933_like     HI0933-like protein
    3.1e-08   33.4   8.7    4.3e-06   26.3   2.5    3.2  3  FAD_oxidored    FAD dependent oxidoreductase
    3.9e-07   30.0   0.1    3.5e-06   27.0   0.0    2.7  2  Thioredoxin_3   Thioredoxin domain
    1.2e-06   27.8  13.1    6.6e-05   22.2   1.8    4.5  5  FAD_binding_2   FAD binding domain
    1.9e-06   27.3   1.4    0.00013   21.3   0.1    2.4  2  Thi4            Thi4 family
    7.8e-06   25.7  10.4     0.0016   18.1   2.0    3.7  4  DAO             FAD dependent oxidoreductase
    0.00044   20.4   4.3     0.0074   16.5   0.6    2.7  2  NAD_binding_8   NAD(P)-binding Rossmann-like domain
     0.0023   17.1   1.8       0.14   11.2   0.3    2.7  3  Lycopene_cycl   Lycopene cyclase protein
     0.0028   17.0   3.2       0.94    8.7   0.7    2.8  3  AlaDh_PNT_C     Alanine dehydrogenase/PNT, C-terminal domain
     0.0037   16.6   6.1     0.0078   15.5   0.3    2.8  3  FAD_binding_3   FAD binding domain
  ------ inclusion threshold ------
      0.026   15.0   0.4        2.5    8.6   0.1    2.5  2  NAD_binding_7   Putative NAD(P)-binding
      0.091   13.0   2.1       0.13   12.5   0.0    2.4  1  Glutaredoxin    Glutaredoxin
       0.13   11.4   5.4       0.47    9.5   0.6    3.3  4  K_oxygenase     L-lysine 6-monooxygenase (NADPH-requiring)
       0.17   10.7   4.8       0.94    8.3   0.8    2.3  2  Trp_halogenase  Tryptophan halogenase


Domain annotation for each model (and alignments):
>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  148.8   5.4   1.9e-46   1.9e-43       1     294 []     214     501 ..     214     501 .. 0.88

  Alignments for each domain:
  == domain 1  score: 148.8 bits;  conditional E-value: 1.9e-46
                              CSEEEE--SHHHHHHHHHHHHHTS-EEEEETTHCHHHCSHHHHCHHHHHHHHHHHHH........HHHHCHHHHCCCCHCCTCEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx........xxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2   1 kdvvviGgGpAGlaaaltlaqagakvtlvelegtclnggcllskallgvaedaeias........evvkklnqgielllgeevvki 78 
                              +dvvviGgGpAG +aa++ a++g+k++++ +e+   +g++  +k +++  + + ++         e++ ++   +     + v ki
  PHY93_04860|PHY93_04860 214 FDVVVIGGGPAGSSAAIYSARKGLKTAIL-AEK--IGGQVQDTKGIENLIGVKYTEGpklvaqlnEHIAEYPITVF--EHRRVSKI 294
                              69***************************.555..88999999999999999988889777777766666664444..44459999 PP

                              EESC.EEEEETEEECTCEEEEEESEEEE---EEE-BCTCTTC.TTBEECCSECHHHHHHCCSS-TSEEEEES-SHHHHHHHHHHHH CS
                              xxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2  79 dpgk.kkvklekkkegdeekiaydklvlAtGssprdlgipGvaenvgklvrtldsaealklkllpkrivvvGgGyiGvElAaalak 163
                              ++++ k+++l     + +e ++ + +++ tG++ r lgipG++e+ g++v  + ++++  +k ++  i+vvGgG+ GvE A+ la 
  PHY93_04860|PHY93_04860 295 IEDSiKRIEL-----EGGEYLTGKVIIVTTGAKWRELGIPGEKEYIGRGVAFCPHCDGPYYKGKK--IAVVGGGNSGVEAAIDLAG 373
                              9999777777.....45678999999**********************************99998..******************* PP

                              HT-EEEEEESSSSSSTTS-HHHHHHHHHHHHHT.TEEEEESCEEEEEEETTE...EEEEEETTSCE...EEESEEEE-S-EEES-H CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxx...xxxxxxxxxxx...xxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 164 lgkevtlveardrllraldkelsaaleealeke.Gvevklgtsvkeidgnge...klevvledgee...idadlvvvavGvrpste 242
                              + kev+l e +d+l       + + l ++l+   +v +++ ++  +i+g+g+   +le+++ + +e   id d ++v +G+ p++ 
  PHY93_04860|PHY93_04860 374 IVKEVVLFEFMDQLK------ADKVLVDKLKSLpNVSIQTSARTSQIIGDGQkvvSLEYENRNTKEimkIDLDGIFVQIGLLPNSG 453
                              **************7......999999*****9*******************75555555555555888***************97 PP

                              HCSHCCT-EEEETTEEE--TTSBESSTTEEE-GGGCTECCSS--HHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 243 lleeklglelderggivvdeflrtnvpgiyaiGDvaggkggpelaqaAvqqG 294
                              ++  k+ +e+++ g iv+d + rt+v+giya+GDv+  +  +++++ A+ +G
  PHY93_04860|PHY93_04860 454 FI--KDLVETTRFGEIVIDNKNRTSVKGIYAAGDVT--TVPYKQIVIAMGEG 501
                              76..99******************************..88888888888876 PP

>> Pyr_redox_3  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.4   0.8   0.00028      0.28       1      29 [.     217     245 ..     217     252 .. 0.85
   2 !   51.9   0.1   6.6e-17   6.6e-14      75     305 .]     262     484 ..     249     484 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00028
              Pyr_redox_3   1 iIiGaGPaGlaaaielkkagledylilEk 29 
                              ++iG+GPaG +aai   ++gl++ +  Ek
  PHY93_04860|PHY93_04860 217 VVIGGGPAGSSAAIYSARKGLKTAILAEK 245
                              79*******************76655454 PP

  == domain 2  score: 51.9 bits;  conditional E-value: 6.6e-17
              Pyr_redox_3  75 eeklsrkealeYlrevaksfelpiklfeeVesvkkedegfevetsketyeAkkvii.AtGefdkPnklnipGeek.lvkhyskvk. 157
                               ++ ++ +++ +l+e  +++ + + ++ +V ++ + d+  ++e + ++y + kvii  tG   k + l+ipGe++      +  + 
  PHY93_04860|PHY93_04860 262 VKYTEGPKLVAQLNEHIAEYPITVFEHRRVSKIIE-DSIKRIELEGGEYLTGKVIIvTTGA--KWRELGIPGEKEyIGRGVAFCPh 344
                              5778889999999999****************986.57999******99988876516777..99999*****9843444444441 PP

              Pyr_redox_3 158 .efhkyagqkvvViGgknSavDaAlelvrkgaeVtvvtrgseiekeesdpsyslkpdienrleelvkeekikvlfnaevkeikeke 242
                               +   y+g+k++V+Gg+nS+v+aA++l+   +eV ++   +++++++     +lk   +  +++  ++        +++    +k 
  PHY93_04860|PHY93_04860 345 cDGPYYKGKKIAVVGGGNSGVEAAIDLAGIVKEVVLFEFMDQLKADK-VLVDKLKSLPNVSIQTSART--------SQIIGDGQKV 421
                              2445799********************************99988875.34445555555555554443........3444444444 PP

              Pyr_redox_3 243 eeykvktedgkkvev.kddvvla.tGykpdlsflkkslfeldedgrpvlteeteetnvpglflaG 305
                              ++ + + +++k++ + + d +++ +G  p+  f+k  l+e+++ g++v++++ + t v+g++ aG
  PHY93_04860|PHY93_04860 422 VSLEYENRNTKEIMKiDLDGIFVqIGLLPNSGFIK-DLVETTRFGEIVIDNK-NRTSVKGIYAAG 484
                              444444445444444366778777**********9.9999999999999876.5788******99 PP

>> GIDA  Glucose inhibited division protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.1   0.6     1e-09     1e-06       1      33 [.     215     247 ..     215     260 .. 0.91
   2 !   10.7   0.0    0.0002       0.2     102     151 ..     275     322 ..     268     342 .. 0.74
   3 !   16.0   0.0     5e-06    0.0049       1      29 [.     354     394 ..     354     442 .. 0.80
   4 ?   -1.9   0.0       1.3   1.3e+03     354     367 ..     476     489 ..     463     509 .. 0.66

  Alignments for each domain:
  == domain 1  score: 28.1 bits;  conditional E-value: 1e-09
                              CEEEE-SSHHHHHHHHHHHHTT--EEEEES-GG CS
                     GIDA   1 dviViGgGhAGceAAlaaarlGakvlLithkld 33 
                              dv+ViGgG AG+ AA+ +ar+G+k++++++k++
  PHY93_04860|PHY93_04860 215 DVVVIGGGPAGSSAAIYSARKGLKTAILAEKIG 247
                              79**************************88764 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 0.0002
                              HHHHHTSTTEEEEE.S-EEEEEECTTEEEEEEETTS-EEEECEEEE--TT- CS
                     GIDA 102 teklenepnleiie.eeveeliveekkvkgvvtedgetikakavviatGtf 151
                              +e + +   ++++e ++v+++i  e+++k + +e ge+++ k+++++tG+ 
  PHY93_04860|PHY93_04860 275 NEHIAE-YPITVFEhRRVSKII--EDSIKRIELEGGEYLTGKVIIVTTGAK 322
                              555655.446666516799995..5************************94 PP

  == domain 3  score: 16.0 bits;  conditional E-value: 5e-06
                              CEEEE-SSHHHHHHHHHHHHTT--EEEE............E CS
                     GIDA   1 dviViGgGhAGceAAlaaarlGakvlLi............t 29 
                              ++ V+GgG +G+eAA+ +a    +v+L+            +
  PHY93_04860|PHY93_04860 354 KIAVVGGGNSGVEAAIDLAGIVKEVVLFefmdqlkadkvlV 394
                              589************************97777555554443 PP

  == domain 4  score: -1.9 bits;  conditional E-value: 1.3
                              SSBTEEE-CGGGTB CS
                     GIDA 354 kvkgLflAGqinGt 367
                              +vkg+++AG+++ +
  PHY93_04860|PHY93_04860 476 SVKGIYAAGDVTTV 489
                              47788888887754 PP

>> Pyr_redox  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.0       3.5   3.5e+03      12      35 ..      21      44 ..      20      57 .. 0.81
   2 !    8.4   0.7    0.0031       3.1       2      29 ..     216     243 ..     215     308 .. 0.84
   3 !   44.6   0.5   1.5e-14   1.5e-11       1      78 [.     354     426 ..     354     431 .. 0.95

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 3.5
                             HHHHHHHHHTTSEEEEEESSSSSS CS
                Pyr_redox 12 lElAgalaelgkkVtvversdkll 35
                             +El   l+++ ++ ++ve+  ++ 
  PHY93_04860|PHY93_04860 21 VELVYDLSDHEDQNQLVEMLGEIG 44
                             68889999999999****999987 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.0031
                              EEEECSSHHHHHHHHHHHHTTSEEEEEE CS
                Pyr_redox   2 vvvvGgGyiglElAgalaelgkkVtvve 29 
                              vvv+GgG  g  +A + a+ g k+ ++ 
  PHY93_04860|PHY93_04860 216 VVVIGGGPAGSSAAIYSARKGLKTAILA 243
                              8****************99997776654 PP

  == domain 3  score: 44.6 bits;  conditional E-value: 1.5e-14
                              EEEEECSSHHHHHHHHHHHHTTSEEEEEESSSSSSTTSSHHHHHHHHHHHHHT.TEEEECSEEEEEEEEETTSEEEEEE CS
                Pyr_redox   1 kvvvvGgGyiglElAgalaelgkkVtvversdkllrllDeeaskilqeklekn.gievllntkveeiegsedgvesvkl 78 
                              k++vvGgG++g+E+A  la + k+V ++e +d+l       a k+l +kl+ + ++ + +++++ +i g++++v s++ 
  PHY93_04860|PHY93_04860 354 KIAVVGGGNSGVEAAIDLAGIVKEVVLFEFMDQLK------ADKVLVDKLKSLpNVSIQTSARTSQIIGDGQKVVSLEY 426
                              79*********************************......*******************************9766665 PP

>> HI0933_like  HI0933-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.7   4.2e-06    0.0042       1      30 [.     214     243 ..     214     251 .. 0.89
   2 !    8.1   0.0   0.00092      0.91     110     171 ..     269     327 ..     263     335 .. 0.79
   3 !   12.2   0.1   5.2e-05     0.052       2      35 ..     354     387 ..     353     431 .. 0.93

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 4.2e-06
                              -SEEEE--SHHHHHHHHHHHHTT--EEEE- CS
              HI0933_like   1 kdviviGgGaAGlmaAisaakrgkrVllle 30 
                              +dv+viGgG+AG  aAi  a++g ++++l 
  PHY93_04860|PHY93_04860 214 FDVVVIGGGPAGSSAAIYSARKGLKTAILA 243
                              59**********************999875 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.00092
                              HHHHHHHHHHHHHT-EEE-S--EEEEECETTE.EEEEE.TTEEEEESEEEE----SS-GGGT CS
              HI0933_like 110 divdallkelkeagvklrletevksvekeedgkfrvktkseeeleadklvlAtGGlSiPklG 171
                              ++v  l +++ e  +++  +++v+++   ed++ r++++++e l+ + ++++tG   + +lG
  PHY93_04860|PHY93_04860 269 KLVAQLNEHIAEYPITVFEHRRVSKI--IEDSIKRIELEGGEYLTGKVIIVTTGA-KWRELG 327
                              6889999*******************..457778999966777777777777665.455555 PP

  == domain 3  score: 12.2 bits;  conditional E-value: 5.2e-05
                              SEEEE--SHHHHHHHHHHHHTT--EEEE-SSSSS CS
              HI0933_like   2 dviviGgGaAGlmaAisaakrgkrVlllekakkl 35 
                              +++v+GgG +G+ aAi +a   k+V+l+e +++l
  PHY93_04860|PHY93_04860 354 KIAVVGGGNSGVEAAIDLAGIVKEVVLFEFMDQL 387
                              799**************************99887 PP

>> FAD_oxidored  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.3   2.5   4.3e-09   4.3e-06       1      38 [.     215     250 ..     215     281 .. 0.84
   2 ?    2.1   0.0       0.1     1e+02      93     144 ..     274     320 ..     264     321 .. 0.85
   3 !    7.4   0.2    0.0024       2.4       2      29 ..     355     382 ..     354     387 .. 0.88

  Alignments for each domain:
  == domain 1  score: 26.3 bits;  conditional E-value: 4.3e-09
             FAD_oxidored   1 DvvVvGGgpaGvaAAiaAaraGakvlLveergvlGGll 38 
                              DvvV+GGgpaG  AAi +ar+G k++++ e+  +GG++
  PHY93_04860|PHY93_04860 215 DVVVIGGGPAGSSAAIYSARKGLKTAILAEK--IGGQV 250
                              9**************************9874..77775 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.1
             FAD_oxidored  93 leemlaeagvtvllntrlvevekegkriesvtveskegrktirAkvfiDATg 144
                              l+e +ae+ +tv+ ++r+++++ +   i+ +++e   g++ +++kv+i  Tg
  PHY93_04860|PHY93_04860 274 LNEHIAEYPITVFEHRRVSKIIED--SIKRIELE---GGEYLTGKVIIVTTG 320
                              56777999**************98..8******7...699999999997665 PP

  == domain 3  score: 7.4 bits;  conditional E-value: 0.0024
             FAD_oxidored   2 vvVvGGgpaGvaAAiaAaraGakvlLve 29 
                              + VvGGg +Gv AAi  a   ++v+L e
  PHY93_04860|PHY93_04860 355 IAVVGGGNSGVEAAIDLAGIVKEVVLFE 382
                              78*************9999888888877 PP

>> Thioredoxin_3  Thioredoxin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.0   0.0   3.5e-09   3.5e-06       6      66 ..     124     186 ..     118     195 .. 0.83
   2 ?   -2.0   0.0       3.8   3.8e+03      54      76 .]     438     460 ..     425     460 .. 0.83

  Alignments for each domain:
  == domain 1  score: 27.0 bits;  conditional E-value: 3.5e-09
                              ESSSSTTCH.HHHHHHHHHCHCCTCECEEECC.TTHHHHHHCT-SSSSEEECTTCEEEESS-- CS
            Thioredoxin_3   6 lgpgCakCp.klekavkeaaaekgikaevekv.tdfeeiekygVmsvPalvidgkvvvsGkvp 66 
                              ++ +C++Cp  ++++ + a+   +++ ++++  +  eei+  g++ vP++v + k+v+sGk+ 
  PHY93_04860|PHY93_04860 124 ISLSCENCPdVVQTLNQMAIIHGNFTHQMVDGaYAQEEIKVLGIQGVPSVVHNSKLVYSGKLN 186
                              5789*****666667777777778999999887999999*********************875 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 3.8
                              ECTTCEEEESS---CCHHHHHHH CS
            Thioredoxin_3  54 vidgkvvvsGkvpseeeirklle 76 
                               +dg +v  G +p+  +i+ l+e
  PHY93_04860|PHY93_04860 438 DLDGIFVQIGLLPNSGFIKDLVE 460
                              57899999999999999999885 PP

>> FAD_binding_2  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.2   1.8   6.7e-08   6.6e-05       1      30 [.     215     244 ..     215     255 .. 0.92
   2 ?    0.6   0.0      0.24   2.4e+02     136     170 ..     263     297 ..     243     322 .. 0.85
   3 ?    4.3   1.3     0.017        17       2      29 ..     355     382 ..     354     390 .. 0.87
   4 ?   -1.2   0.0      0.84   8.3e+02     146     191 ..     392     438 ..     388     461 .. 0.85
   5 ?    4.1   0.0      0.02        20     376     405 ..     467     490 ..     455     496 .. 0.76

  Alignments for each domain:
  == domain 1  score: 22.2 bits;  conditional E-value: 6.7e-08
                              SEEEE--SHHHHHHHHHHHHTTT-EEEEES CS
            FAD_binding_2   1 DviViGsGlAGLaAAleaaeaGlkvavvek 30 
                              Dv+ViG+G AG +AA+  a++Glk+a++  
  PHY93_04860|PHY93_04860 215 DVVVIGGGPAGSSAAIYSARKGLKTAILAE 244
                              9**********************9999864 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.24
                              ...HHHHHHHHHHHHHHTCTEEEEESEEEEEEEEC CS
            FAD_binding_2 136 tlvtghallarlvesarkagvdfqerteadeLive 170
                              + ++g++l+a l e++ +++++++e+ ++ ++i +
  PHY93_04860|PHY93_04860 263 KYTEGPKLVAQLNEHIAEYPITVFEHRRVSKIIED 297
                              56799************************999764 PP

  == domain 3  score: 4.3 bits;  conditional E-value: 0.017
                              EEEE--SHHHHHHHHHHHHTTT-EEEEE CS
            FAD_binding_2   2 viViGsGlAGLaAAleaaeaGlkvavve 29 
                              + V+G+G +G  AA+ +a   ++v++ e
  PHY93_04860|PHY93_04860 355 IAVVGGGNSGVEAAIDLAGIVKEVVLFE 382
                              67****************9999998887 PP

  == domain 4  score: -1.2 bits;  conditional E-value: 0.84
                              HHHHHHHTCT.EEEEESEEEEEEEECTTEEEEEEEEETTTTCEEEEE CS
            FAD_binding_2 146 rlvesarkag.vdfqerteadeLivedgrvtGavvenpesgrevrir 191
                              +lv+++++++ v +q++++  ++i ++++v+  + en++++++ +i 
  PHY93_04860|PHY93_04860 392 VLVDKLKSLPnVSIQTSARTSQIIGDGQKVVSLEYENRNTKEIMKID 438
                              68888988889**************999******9999999988765 PP

  == domain 5  score: 4.1 bits;  conditional E-value: 0.02
                              EEBETTSBESTTEEESSBTEEE-STCEESS CS
            FAD_binding_2 376 vetdengrvldadgqpipGLYAaGevaagg 405
                              +++d + r+       ++G YAaG v+ + 
  PHY93_04860|PHY93_04860 467 IVIDNKNRT------SVKGIYAAGDVTTVP 490
                              445555555......**********99655 PP

>> Thi4  Thi4 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.1   1.3e-07   0.00013      17      51 ..     213     246 ..     201     255 .. 0.89
   2 ?    4.4   0.2     0.019        19      17      39 ..     352     374 ..     347     384 .. 0.79

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 1.3e-07
                              EEEEEEE--SHHHHHHHHHHHHCTTS-EEEEESSS CS
                     Thi4  17 esDvvivGaGssGLtaayylakkpdlkvailersv 51 
                              + Dvv++G+G++G +aa y a+k +lk+ail +++
  PHY93_04860|PHY93_04860 213 QFDVVVIGGGPAGSSAAIYSARK-GLKTAILAEKI 246
                              67*********************.*******9886 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.019
                              EEEEEEE--SHHHHHHHHHHHHC CS
                     Thi4  17 esDvvivGaGssGLtaayylakk 39 
                                 +++vG+G sG+ aa  la  
  PHY93_04860|PHY93_04860 352 GKKIAVVGGGNSGVEAAIDLAGI 374
                              56799************999865 PP

>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   2.0   1.7e-06    0.0016       1      67 [.     215     277 ..     215     282 .. 0.69
   2 !    6.9   0.0    0.0039       3.9     146     205 ..     268     324 ..     263     342 .. 0.76
   3 !    5.7   0.1    0.0096       9.6       1      27 [.     354     382 ..     354     390 .. 0.85
   4 ?   -1.7   0.0       1.6   1.6e+03     166     205 ..     474     503 ..     464     512 .. 0.65

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 1.7e-06
                              EEEEECTSHHHHHHHHHHHHTT..EEEEESSSSTTS.SGGGSSEEEEESSSSTHHSTHHHHHHHHHHHHH CS
                      DAO   1 dvviiGGGiiGlstAyeLarrg..Vtllekgdiags.gaSgrnsgllhsglrylpeaselarlslealee 67 
                              dvv+iGGG +G+s+A + ar+g  +++l  + i g+ + + +   l+   + + p      +l+++++e+
  PHY93_04860|PHY93_04860 215 DVVVIGGGPAGSSAAIYSARKGlkTAILAEK-IGGQvQDTKGIENLIGVKYTEGP------KLVAQLNEH 277
                              9**********************99999988.76654444444444444333333......555555555 PP

  == domain 2  score: 6.9 bits;  conditional E-value: 0.0039
                              HHHHHHHHHHHHHTT-EEEESECEEEEEEEETCEEEEEEECT.EEE.EEEEEEEE--GGGHH CS
                      DAO 146 akltaalaraaealGveilegtevtgleeedgkvwgverttp.gen.daadavVnaaGawsd 205
                               kl+a l + +++  ++++e+++v ++ e++  ++++e   + ge  +  + +++++Ga  +
  PHY93_04860|PHY93_04860 268 PKLVAQLNEHIAEYPITVFEHRRVSKIIEDS--IKRIE--LEgGEYlTG-KVIIVTTGAKWR 324
                              689999999999**************96665..55662..233666444.88******9854 PP

  == domain 3  score: 5.7 bits;  conditional E-value: 0.0096
                              EEEEECTSHHHHHHHHHHHHTT....EEEEE CS
                      DAO   1 dvviiGGGiiGlstAyeLarrg....Vtlle 27 
                              +++++GGG  G+ +A +La  g    V+l+e
  PHY93_04860|PHY93_04860 354 KIAVVGGGNSGVEAAIDLA--GivkeVVLFE 382
                              59****************4..4445788887 PP

  == domain 4  score: -1.7 bits;  conditional E-value: 1.6
                              SECEEEEEEEETCEEEEEEECTEEEEEEEEEEE--GGGHH CS
                      DAO 166 gtevtgleeedgkvwgverttpgendaadavVnaaGawsd 205
                              +t v+g+    g+v++v          ++++V+a+G +++
  PHY93_04860|PHY93_04860 474 RTSVKGIY-AAGDVTTV---------PYKQIVIAMGEGAK 503
                              45566652.22444444.........5799*****97765 PP

>> NAD_binding_8  NAD(P)-binding Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.6   7.4e-06    0.0074       1      37 [.     218     252 ..     218     282 .. 0.86
   2 ?    4.5   0.1     0.041        41       1      26 [.     357     382 ..     357     387 .. 0.91

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 7.4e-06
                              EE--SHHHHHHHHHHHCCTEEEEEE-SSSSSSGGG-E CS
            NAD_binding_8   1 IvGaGlsGlvaAylLakagfdvlllekrdrlGGraas 37 
                              ++G+G +G++aA + a++g++  +l  ++++GG++++
  PHY93_04860|PHY93_04860 218 VIGGGPAGSSAAIYSARKGLKTAIL--AEKIGGQVQD 252
                              8***********************9..8899999876 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.041
                              EE--SHHHHHHHHHHHCCTEEEEEE- CS
            NAD_binding_8   1 IvGaGlsGlvaAylLakagfdvllle 26 
                              +vG+G sG  aA  La   ++v+l+e
  PHY93_04860|PHY93_04860 357 VVGGGNSGVEAAIDLAGIVKEVVLFE 382
                              8***************9999999998 PP

>> Lycopene_cycl  Lycopene cyclase protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.2   0.3   0.00014      0.14       1      30 [.     215     242 ..     215     249 .. 0.89
   2 ?    3.9   0.0     0.022        22      89     142 ..     270     322 ..     249     335 .. 0.80
   3 ?   -1.1   0.0      0.73   7.3e+02       2      31 ..     355     382 ..     354     408 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00014
            Lycopene_cycl   1 DvvviGaGpAglslAarlteakpglkvvli 30 
                              DvvviG+GpAg s A  +  a++glk  ++
  PHY93_04860|PHY93_04860 215 DVVVIGGGPAGSSAAIYS--ARKGLKTAIL 242
                              9**************999..9999988776 PP

  == domain 2  score: 3.9 bits;  conditional E-value: 0.022
            Lycopene_cycl  89 lkeellerlveng.vklleakvesveeeeageslvvleggrkirarlvvdargla 142
                              l ++l+e+++e     + + +v ++ e++   +++ legg+ + ++++++ +g+ 
  PHY93_04860|PHY93_04860 270 LVAQLNEHIAEYPiTVFEHRRVSKIIEDSI--KRIELEGGEYLTGKVIIVTTGAK 322
                              666777777754404466789*******99..9********************54 PP

  == domain 3  score: -1.1 bits;  conditional E-value: 0.73
            Lycopene_cycl   2 vvviGaGpAglslAarlteakpglkvvlie 31 
                              ++v+G+G  g+  A  l  a    +vvl e
  PHY93_04860|PHY93_04860 355 IAVVGGGNSGVEAAIDL--AGIVKEVVLFE 382
                              78**********99999..76666777766 PP

>> AlaDh_PNT_C  Alanine dehydrogenase/PNT, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0         2     2e+03     147     198 ..     156     205 ..     147     212 .. 0.65
   2 !    8.7   0.7   0.00095      0.94      30      57 ..     215     242 ..     208     276 .. 0.87
   3 !    7.5   0.1    0.0023       2.3      29      62 ..     353     386 ..     336     432 .. 0.84

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 2
                              EEEETTEEEEEBSTGGGGSHHHHHHHHHHHHHHHHHHHC.HHHTCCHHHCTSH CS
              AlaDh_PNT_C 147 vveekgvvhygvanlpgavprtasalltnntlpyleell.adkglkkalkede 198
                               + +++++++g + +p+ v +++  +++   l+++  l+  +k++  + ++++
  PHY93_04860|PHY93_04860 156 AYAQEEIKVLGIQGVPSVV-HNSKLVYSG-KLNLIDLLAsLEKTF-GIEESND 205
                              5778999999999999876.455566654.345555554335555.6666655 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 0.00095
                              EEEEESTSHHHHHHHHHHHHTT-EEEEE CS
              AlaDh_PNT_C  30 kvlviGgGvaGlqAiatakglgakVtvl 57 
                               v+viGgG aG +A+  +++ g k+ +l
  PHY93_04860|PHY93_04860 215 DVVVIGGGPAGSSAAIYSARKGLKTAIL 242
                              69**************999999888876 PP

  == domain 3  score: 7.5 bits;  conditional E-value: 0.0023
                              -EEEEESTSHHHHHHHHHHHHTT-EEEEEESSHH CS
              AlaDh_PNT_C  29 akvlviGgGvaGlqAiatakglgakVtvlDvrpa 62 
                               k+ v+GgG  G++A+   +g+  +V++++   +
  PHY93_04860|PHY93_04860 353 KKIAVVGGGNSGVEAAIDLAGIVKEVVLFEFMDQ 386
                              5899********************9999886554 PP

>> FAD_binding_3  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.3   7.8e-06    0.0078       2      41 ..     214     254 ..     213     257 .. 0.83
   2 ?   -0.2   0.6      0.47   4.7e+02       4      23 ..     355     374 ..     353     385 .. 0.80
   3 ?    2.6   0.0     0.063        63     101     149 ..     383     433 ..     366     440 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 7.8e-06
                              EEEEEE--SHHHHHHHHHHHHTTHHEEEE.ESSSSSCCSSS CS
            FAD_binding_3   2 tdVlIVGaGpaGlmlallLseaGvrvvlv.ekrsttvvlpr 41 
                               dV+++G+GpaG ++a   +++G ++ ++ ek   +v++++
  PHY93_04860|PHY93_04860 214 FDVVVIGGGPAGSSAAIYSARKGLKTAILaEKIGGQVQDTK 254
                              69**********************97765377777777666 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.47
                              EEEE--SHHHHHHHHHHHHT CS
            FAD_binding_3   4 VlIVGaGpaGlmlallLsea 23 
                              +++VG+G +G+ +a  L+  
  PHY93_04860|PHY93_04860 355 IAVVGGGNSGVEAAIDLAGI 374
                              78***********9988765 PP

  == domain 3  score: 2.6 bits;  conditional E-value: 0.063
                              E--HHHHHHHHHHHHHHHT.EEETCSEEEECCEECCCCCCC.EEEECCTTE CS
            FAD_binding_3 101 vypqteleriLvehaeerg.lqvrfktevesleqdeegvta.evrdketge 149
                               + q + +++Lv+++++ + ++++ ++++  +  d+++v + e+ +++t e
  PHY93_04860|PHY93_04860 383 FMDQLKADKVLVDKLKSLPnVSIQTSARTSQIIGDGQKVVSlEYENRNTKE 433
                              577999**********************99999999886431555555555 PP

>> NAD_binding_7  Putative NAD(P)-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   0.1    0.0025       2.5       7      46 ..     213     258 ..     209     319 .. 0.73
   2 ?    4.3   0.0     0.054        54       6      35 ..     351     380 ..     349     469 .. 0.82

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.0025
            NAD_binding_7   7 gkkvlvvGgGevAarkvrklleagakvtvvapevkeele......e 46 
                              +  v+v+GgG+ + + +   +++g k  ++a+++  +++      +
  PHY93_04860|PHY93_04860 213 QFDVVVIGGGPAGSSAAIYSARKGLKTAILAEKIGGQVQdtkgieN 258
                              6789*****************************9555543333332 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.054
            NAD_binding_7   6 kgkkvlvvGgGevAarkvrklleagakvtv 35 
                              kgkk+ vvGgG+ + + +  l+   ++v++
  PHY93_04860|PHY93_04860 351 KGKKIAVVGGGNSGVEAAIDLAGIVKEVVL 380
                              79**********998877777666555555 PP

>> Glutaredoxin  Glutaredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   0.00013      0.13       7      60 .]     126     180 ..     121     180 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 0.00013
                              TSSHHHHHHHHHHHHTTGG...EEEEEGCCSHHHHHHHHHHHTSSSSSEEEETTEEE CS
             Glutaredoxin   7 ptCpyCkkakrlLkelgvk...feeidvdkdeeireelkelsgvrtvPqvfidgkhv 60 
                                C+ C+ ++++L+++ +    f+   vd   ++ +e  +++g++ vP v+ + k+v
  PHY93_04860|PHY93_04860 126 LSCENCPDVVQTLNQMAIIhgnFTHQMVDG--AYAQEEIKVLGIQGVPSVVHNSKLV 180
                              58***************9966677777777..4555555666********9998875 PP

>> K_oxygenase  L-lysine 6-monooxygenase (NADPH-requiring)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0       4.2   4.1e+03     162     198 ..     131     166 ..     129     167 .. 0.84
   2 ?   -0.2   0.0      0.43   4.3e+02       3      23 ..     214     234 ..     202     245 .. 0.71
   3 ?    9.5   0.6   0.00048      0.47     190     214 ..     351     375 ..     345     386 .. 0.87
   4 ?    1.8   0.0      0.11   1.1e+02     284     336 ..     392     444 ..     374     448 .. 0.79

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 4.2
              K_oxygenase 162 iPevleklegkervvHsseylerkeellakkriaVvG 198
                               P+v+++l+ +  ++H + + +  +   a+++i V G
  PHY93_04860|PHY93_04860 131 CPDVVQTLN-QMAIIHGNFTHQMVDGAYAQEEIKVLG 166
                              699999998.599999998888888899999999887 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.43
              K_oxygenase   3 lDligiGiGpsnLsLaillee 23 
                              +D++ iG Gp+  s ai ++ 
  PHY93_04860|PHY93_04860 214 FDVVVIGGGPAGSSAAIYSAR 234
                              677777777776666666555 PP

  == domain 3  score: 9.5 bits;  conditional E-value: 0.00048
              K_oxygenase 190 akkriaVvGsGqSaaeifedllrrq 214
                              ++k+iaVvG+G S+ e + dl+   
  PHY93_04860|PHY93_04860 351 KGKKIAVVGGGNSGVEAAIDLAGIV 375
                              689****************998655 PP

  == domain 4  score: 1.8 bits;  conditional E-value: 0.11
              K_oxygenase 284 lyeqkvkgeerlrllpnrevesaeaegkgeveltlrneesgeeetlevdavvl 336
                              +  +k+k+ ++++++++ +  ++  +g++ v l+++n++++e  +++ d +++
  PHY93_04860|PHY93_04860 392 VLVDKLKSLPNVSIQTSARTSQIIGDGQKVVSLEYENRNTKEIMKIDLDGIFV 444
                              44556667778999999999999999999******************999986 PP

>> Trp_halogenase  Tryptophan halogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   0.8   0.00094      0.94       1      22 [.     215     236 ..     215     248 .. 0.83
   2 ?    4.0   0.2     0.019        19       1      24 [.     354     377 ..     354     386 .. 0.84

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.00094
                              EEEEE--SHHHHHHHHHHHHHT CS
           Trp_halogenase   1 kivivGGGtaGwlaAaalakal 22 
                              ++v++GGG+aG+ aA++ a+ +
  PHY93_04860|PHY93_04860 215 DVVVIGGGPAGSSAAIYSARKG 236
                              69**************999876 PP

  == domain 2  score: 4.0 bits;  conditional E-value: 0.019
                              EEEEE--SHHHHHHHHHHHHHTTT CS
           Trp_halogenase   1 kivivGGGtaGwlaAaalakalkg 24 
                              ki +vGGG +G  aA+ la  +k+
  PHY93_04860|PHY93_04860 354 KIAVVGGGNSGVEAAIDLAGIVKE 377
                              799*************99988744 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (514 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       702  (0.0391544); expected 358.6 (0.02)
Passed bias filter:                      617  (0.0344135); expected 358.6 (0.02)
Passed Vit filter:                        69  (0.00384851); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              18  [number of targets reported over threshold]
# CPU time: 0.76u 0.26s 00:00:01.02 Elapsed: 00:00:00.46
# Mc/sec: 3391.79
//
Query:       PHY93_04865|PHY93_04865  [L=264]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.7e-13   50.0   0.1    4.8e-13   49.2   0.1    1.4  1  MlaD      MlaD protein
  ------ inclusion threshold ------
      0.092   13.0   0.2        2.9    8.2   0.0    2.4  2  DUF4362   Domain of unknown function (DUF4362)
        1.8    8.8   5.3       0.34   11.2   1.2    2.0  2  DUF948    Bacterial protein of unknown function (DUF948)


Domain annotation for each model (and alignments):
>> MlaD  MlaD protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.2   0.1     8e-17   4.8e-13       3      80 ..      42     118 ..      40     119 .. 0.93

  Alignments for each domain:
  == domain 1  score: 49.2 bits;  conditional E-value: 8e-17
                     MlaD   3 ytvtaqfdnangLkvgapVryrGvtvGrVtsitldpdtrrvtvtvdldkksetsipedsraqvstggllgekyialdp 80 
                              ++++ +  na +Lk ga  + rG+++G+V si++ +d r+  vt+ + ++++  +++d++ +++t+g+lg+k+++++ 
  PHY93_04865|PHY93_04865  42 IYIKTEVANAQNLKEGAALQLRGIKIGSVHSIQF-KDVRTLIVTLGVSSSYKEWVKKDATMTFKTQGVLGDKFLEING 118
                              5789999***************************.6666679*********************************985 PP

>> DUF4362  Domain of unknown function (DUF4362)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   0.1     0.012        69      14      50 ..     158     196 ..     147     203 .. 0.78
   2 ?    8.2   0.0   0.00049       2.9      12      52 ..     194     234 ..     187     242 .. 0.87

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.012
                  DUF4362  14 vdklekFienveqkkkdki..rivsyTeeGdpiledley 50 
                              + k++k +  ve+++ +ki   + s+T + + +++ l+ 
  PHY93_04865|PHY93_04865 158 LTKFDKILSSVENNRLEKIllNLESLTANTNKVMSSLND 196
                              789************999833457888888888888864 PP

  == domain 2  score: 8.2 bits;  conditional E-value: 0.00049
                  DUF4362  12 sNvdklekFienveqkkkdkirivsyTeeGdpiledleydg 52 
                               N + + + ++n++q  +++ +i++  eeG   l+ l+yd+
  PHY93_04865|PHY93_04865 194 LNDKNITQSVANFKQSSESMGKITKQIEEGPGTLHALIYDQ 234
                              5556678899*****************************97 PP

>> DUF948  Bacterial protein of unknown function (DUF948)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.2      0.86   5.1e+03       5      26 ..      12      33 ..      10      39 .. 0.67
   2 ?   11.2   1.2   5.7e-05      0.34      18      82 ..     155     218 ..     144     223 .. 0.53

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 0.86
                   DUF948  5 IaAiAFvvLviflivvllklkk 26
                             I  i +++L +++ ++++ l+k
  PHY93_04865|PHY93_04865 12 ISGIFISILLCVIGITVFMLNK 33
                             5555566777777777766654 PP

  == domain 2  score: 11.2 bits;  conditional E-value: 5.7e-05
                   DUF948  18 ivvllklkktldea.aatieelekqvdpilkevedllakvnelledvneklekvdplteavadlge 82 
                                +l k  k+l+++ ++++e++  ++++++ +++++++  n+  +++++ +++ ++  e+++++++
  PHY93_04865|PHY93_04865 155 GSILTKFDKILSSVeNNRLEKILLNLESLTANTNKVMSSLND--KNITQSVANFKQSSESMGKITK 218
                              334444555555542234555555555555555555555555..5555555555555555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (264 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1271  (0.0708907); expected 358.6 (0.02)
Passed bias filter:                      773  (0.0431145); expected 358.6 (0.02)
Passed Vit filter:                        68  (0.00379274); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.42
# Mc/sec: 1896.51
//
Query:       PHY93_04870|PHY93_04870  [L=245]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.6e-30  106.4   0.0    2.3e-30  105.9   0.0    1.2  1  ABC_tran     ABC transporter
    1.9e-06   27.9   1.0    0.00026   20.9   0.0    2.1  2  AAA_21       AAA domain, putative AbiEii toxin, Type IV TA sy
  ------ inclusion threshold ------
       0.07   13.5   0.0      0.092   13.1   0.0    1.2  1  AAA_16       AAA ATPase domain
       0.12   12.3   0.1       0.19   11.6   0.1    1.3  1  RsgA_GTPase  RsgA GTPase


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  105.9   0.0     5e-34   2.3e-30       3     137 .]      23     170 ..      21     170 .. 0.93

  Alignments for each domain:
  == domain 1  score: 105.9 bits;  conditional E-value: 5e-34
                              EEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG...B-HHHCCHCEEEE-SS--S-TTSBHHHH...... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxx...... RF
                 ABC_tran   3 nvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke...qeleslrkeigvlpqepqlfpeltvren...... 79 
                               ++l+l++ge ++++G +G+GKS Ll+ ++gl++ ++Geil+dg+ +++   +el  +r +i++ +q+  lf+ ++v en      
  PHY93_04870|PHY93_04870  23 GINLTLHRGESLGLLGGSGTGKSVLLRSIIGLEQIDKGEILFDGHRIDHlseNELIPYRIKISYSFQNGALFDSINVFENiayplf 108
                              699**********************************************99999999***************************** PP

                              ........HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              ........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ........esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                                      + +++++++l+ ++l++ k++ +   ps LSgG+++rv +ara++ +p+++l DEpta
  PHY93_04870|PHY93_04870 109 ehtkfsynQIKDRVAEMLKLIDLEG-KEELM---PSDLSGGMQKRVGMARAMILNPEIILYDEPTA 170
                              ****988888888888888888888.44444...7*****************************97 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.5   0.9    0.0014       6.4       3      26 ..      35      59 ..      33      90 .. 0.68
   2 !   20.9   0.0   5.8e-08   0.00026     161     299 ..      77     202 ..      62     206 .. 0.86

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.0014
                   AAA_21  3 vliGpNgsGKSnLLdaldllarl.d 26
                             +l G  g+GKS LL+ + +l ++  
  PHY93_04870|PHY93_04870 35 GLLGGSGTGKSVLLRSIIGLEQIdK 59
                             6899*************99966642 PP

  == domain 2  score: 20.9 bits;  conditional E-value: 5.8e-08
                   AAA_21 161 lrkerigllnifadyfgfakekrllqrlvrslklveielsdlgegeeliasvderlrergvvflengdgqelparelSdGtkrlla 246
                              l ++ri     f++ + f++++ +    ++ +    + +  +++++ ++ + +++           ++  el +++lS G+++  +
  PHY93_04870|PHY93_04870  77 LIPYRIKISYSFQNGALFDSINVFENIAYPLFEHTKFSYNQIKDRVAEMLKLIDL-----------EGKEELMPSDLSGGMQKRVG 151
                              2233888999999999999999999999999999999999999999998888888...........688***************9* PP

                   AAA_21 247 lltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQviltTHS.p 299
                              ++ a++  +    ++l DEp +gL+P  +  ++ l+ +l+++g   i++TH+ p
  PHY93_04870|PHY93_04870 152 MARAMILNP---EIILYDEPTAGLDPGNTLNVVSLMQKLKQKGLASIFVTHDiP 202
                              ******999...9***********************9999989999*****966 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0     2e-05     0.092      22      71 ..      29      82 ..      18     132 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 2e-05
                   AAA_16 22 grpelvllsGesGvGKsslvrell..ralekdggiflrgkcdqlesa..ipysa 71
                             +r+e++ l G sG+GKs l+r++   +++ k +++f   + d+l+++  ipy +
  PHY93_04870|PHY93_04870 29 HRGESLGLLGGSGTGKSVLLRSIIglEQIDKGEILFDGHRIDHLSENelIPYRI 82
                             45689999*************997334666666666555555554445566644 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.1   4.3e-05      0.19      99     130 ..      31      62 ..       7      78 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 4.3e-05
                              TSEEEEECSTTSSHHHHHHHHCTT-----S-- CS
              RsgA_GTPase  99 dktsvlvGqSGvGKStLinallpelelktgev 130
                              ++   l+G SG GKS L+ ++++ +++  ge+
  PHY93_04870|PHY93_04870  31 GESLGLLGGSGTGKSVLLRSIIGLEQIDKGEI 62 
                              377789****************9888888887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (245 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       464  (0.0258799); expected 358.6 (0.02)
Passed bias filter:                      432  (0.024095); expected 358.6 (0.02)
Passed Vit filter:                        61  (0.00340231); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.42
# Mc/sec: 1744.45
//
Query:       PHY93_04875|PHY93_04875  [L=261]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-68  231.1  17.8    1.1e-68  231.1  17.8    1.3  2  MlaE      Permease MlaE


Domain annotation for each model (and alignments):
>> MlaE  Permease MlaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0      0.15   2.6e+03     118     146 ..      19      47 ..      19      49 .. 0.84
   2 !  231.1  17.8   6.1e-73   1.1e-68       2     211 ..      48     257 ..      47     258 .. 0.99

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 0.15
                     MlaE 118 iadlvgilggylvavlllgispgaylqsv 146
                              ++++vg + g l+ +l  +++  +y++++
  PHY93_04875|PHY93_04875  19 FFIFVGEIFGLLFETLKCTVTGPFYFSRL 47 
                              57899999999999999999999999876 PP

  == domain 2  score: 231.1 bits;  conditional E-value: 6.1e-73
                     MlaE   2 veqlefvgvkslpivlltalftGavlalqgasqlkqfgaesllgslvalalvrelgPvltallvagrvGsaiaAelGtmrvteeid 87 
                              +eq++++g++s  i+++++l +G+v++l + + l++fg + ++ ++v+l+l re++P++t+llvagrvGs+iaAelG+m vt+++d
  PHY93_04875|PHY93_04875  48 MEQINHIGYGSTSITVVIGLTMGLVMTLNFGYGLAKFGGTLYVPAVVSLSLAREMAPLFTSLLVAGRVGSGIAAELGAMSVTQQVD 133
                              79************************************************************************************ PP

                     MlaE  88 AlevmgidpikylvvPrvlAlvialplLtviadlvgilggylvavlllgispgaylqsvqealslkdllvgllKalvfGliialia 173
                              A++++g++p++ lvvPr++ lvi+lplL +++++vgilgg+lv+++ ++i pg+yl +v+++++++d+++gl+K++vf+ ii++ia
  PHY93_04875|PHY93_04875 134 AIRALGTSPVRVLVVPRFWSLVISLPLLSALSFAVGILGGMLVCKTEFDIVPGFYLYKVFSTVKFHDYMSGLIKSVVFAGIITIIA 219
                              ************************************************************************************** PP

                     MlaE 174 cyqGltakggaegvgrattravvtsivlilvvdlvltl 211
                              cy+Gl++k g++gvg  tt  vvt+++lil++d++++ 
  PHY93_04875|PHY93_04875 220 CYKGLKTKDGTKGVGLTTTWVVVTASILILITDFFISK 257
                              ***********************************985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (261 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       672  (0.0374812); expected 358.6 (0.02)
Passed bias filter:                      296  (0.0165096); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.43
# Mc/sec: 1833.87
//
Query:       PHY93_17345|PHY93_17345  [L=117]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (117 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1338  (0.0746277); expected 358.6 (0.02)
Passed bias filter:                      369  (0.0205812); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 885.19
//
Query:       PHY93_04880|PHY93_04880  [L=161]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.064   13.0   0.1      0.086   12.6   0.1    1.1  1  Corona_NS3b   ORF3b coronavirus protein
      0.067   13.1   0.0      0.097   12.6   0.0    1.2  1  17kDa_Anti_2  17 kDa outer membrane surface antigen


Domain annotation for each model (and alignments):
>> Corona_NS3b  ORF3b coronavirus protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.1   9.6e-06     0.086     124     200 ..      57     135 ..      47     144 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 9.6e-06
              Corona_NS3b 124 yntttLmfvhGkaayyerkslks..yvileGGdnyltlgdsivsfvstsdlylairGraeadlsllraveLldGellyv 200
                               nt  L   +  +  ye ++l++    il G ++  + +++ v + ++  + +a  G+ +  l+  r v + + +++y 
  PHY93_04880|PHY93_04880  57 INTKSLFLFNSACRKYEASTLSAltSSILTGIEDVKITEKNNVFYQEREGVEVAANGKLDGILRFFRIVTIQKNNCIYD 135
                              588999999***********999634466666666666677899999******************************94 PP

>> 17kDa_Anti_2  17 kDa outer membrane surface antigen
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   1.1e-05     0.097      42      98 ..      28      87 ..      16      93 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 1.1e-05
             17kDa_Anti_2 42 ssvdlkklkdssvPWanatt.GsaGvitsiaeds..angklCRqFltsrhsfegiakfqG 98
                             s+v  k ++d + PW   ++ Gs  +++ i+ +s    +  CR++++s  s  + ++++G
  PHY93_04880|PHY93_04880 28 SNVVNKLKNDPPAPWSAINSeGSDYALQNINTKSlfLFNSACRKYEASTLSALTSSILTG 87
                             556666778899***986644**********99988899**********99999999888 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (161 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       601  (0.0335211); expected 358.6 (0.02)
Passed bias filter:                      395  (0.0220313); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 1179.75
//
Query:       PHY93_04885|PHY93_04885  [L=936]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    5.2e-09   35.5   3.6     0.0095   16.0   0.1    5.0  5  TPR_2       Tetratricopeptide repeat
      4e-08   33.4   1.9    0.00037   21.0   0.1    4.7  3  TPR_6       Tetratricopeptide repeat
    8.8e-06   26.3   0.1      0.044   14.4   0.0    2.8  2  TPR_16      Tetratricopeptide repeat
    2.4e-05   23.9  10.4       0.17   11.8   0.1    5.1  5  TPR_1       Tetratricopeptide repeat
    0.00037   20.9   0.0        0.5   10.9   0.0    4.9  5  TPR_19      Tetratricopeptide repeat
    0.00044   20.0   3.4       0.11   12.2   0.3    2.7  2  RPN7        26S proteasome subunit RPN7
     0.0011   19.2   8.7       0.81   10.0   0.5    4.8  5  ANAPC3      Anaphase-promoting complex, cyclosome, subunit 3
     0.0018   18.3   3.7       0.58   10.5   0.2    4.7  3  TPR_8       Tetratricopeptide repeat
     0.0024   18.1   3.8       0.93    9.8   0.2    4.0  3  TPR_12      Tetratricopeptide repeat
     0.0048   16.7   0.5      0.055   13.3   0.1    3.0  3  TPR_10      Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.017   15.3   2.4        2.5    8.5   0.1    4.2  2  PPR         PPR repeat
      0.021   14.8   5.9       0.48   10.6   0.1    4.4  4  TPR_7       Tetratricopeptide repeat
       0.08   13.8   0.1         16    6.6   0.0    4.3  3  TPR_14      Tetratricopeptide repeat
        0.2   11.7   5.4        0.1   12.7   1.3    2.8  1  SL4P        Uncharacterized Strongylid L4 protein
       0.39   10.8   4.0       0.79    9.8   0.2    3.0  3  Fis1_TPR_C  Fis1 C-terminal tetratricopeptide repeat
       0.49   10.7   4.8        0.6   10.4   0.4    3.4  3  Vps39_1     Vacuolar sorting protein 39 domain 1


Domain annotation for each model (and alignments):
>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.1   8.5e-06    0.0095       3      29 ..     473     499 ..     471     503 .. 0.89
   2 ?   -2.3   0.0         6   6.7e+03      16      28 ..     524     536 ..     522     538 .. 0.74
   3 ?   -1.7   0.0       3.9   4.3e+03      15      24 ..     604     613 ..     599     614 .. 0.78
   4 !   15.7   0.1   1.1e-05     0.012       3      25 ..     759     781 ..     757     785 .. 0.92
   5 ?   -1.2   0.0       2.7   3.1e+03       3      24 ..     886     907 ..     884     909 .. 0.86

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 8.5e-06
                    TPR_2   3 alynlGlayyklgdyeeAleafekAle 29 
                              + yn ++ay++ g+y+eA +++e+ ++
  PHY93_04885|PHY93_04885 473 IMYNTAEAYFRVGRYNEAMALYEEFVK 499
                              579********************9776 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 6
                    TPR_2  16 dyeeAleafekAl 28 
                              +y++ le+++kA+
  PHY93_04885|PHY93_04885 524 NYQDTLELYKKAI 536
                              5666688999998 PP

  == domain 3  score: -1.7 bits;  conditional E-value: 3.9
                    TPR_2  15 gdyeeAleaf 24 
                               +y+eAl ++
  PHY93_04885|PHY93_04885 604 EKYKEALTYL 613
                              5899999886 PP

  == domain 4  score: 15.7 bits;  conditional E-value: 1.1e-05
                    TPR_2   3 alynlGlayyklgdyeeAleafe 25 
                               +y++Gl+++++++y+eA+  fe
  PHY93_04885|PHY93_04885 759 TNYYRGLVAFNQKNYKEAISQFE 781
                              68*****************9998 PP

  == domain 5  score: -1.2 bits;  conditional E-value: 2.7
                    TPR_2   3 alynlGlayyklgdyeeAleaf 24 
                              ++y lG+a   +++ +e +e f
  PHY93_04885|PHY93_04885 886 VNYLLGQAMVINQKVKEGREVF 907
                              789*****99999999998887 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.0   0.1   3.3e-07   0.00037       3      30 ..     474     501 ..     472     503 .. 0.93
   2 ?    2.1   0.0      0.34   3.8e+02       4      29 ..     512     538 ..     509     542 .. 0.88
   3 ?    5.8   0.1     0.021        24       4      26 ..     761     783 ..     760     788 .. 0.92

  Alignments for each domain:
  == domain 1  score: 21.0 bits;  conditional E-value: 3.3e-07
                              HHHHHHHHHHHHHHHHHHHHHHHHHHH- CS
                    TPR_6   3 lyklalsyrklgdtdkAlealerlikeY 30 
                              +y+ a++y++ g++ +A++++e+++k+Y
  PHY93_04885|PHY93_04885 474 MYNTAEAYFRVGRYNEAMALYEEFVKNY 501
                              8*********66**************** PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.34
                              HHHHHHHHHHH.HHHHHHHHHHHHHHH CS
                    TPR_6   4 yklalsyrklg.dtdkAlealerlike 29 
                              +++al+   l+ ++++ le++++ i++
  PHY93_04885|PHY93_04885 512 LRIALCSDLLDhNYQDTLELYKKAIDQ 538
                              8999999999889**********9986 PP

  == domain 3  score: 5.8 bits;  conditional E-value: 0.021
                              HHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   4 yklalsyrklgdtdkAlealerl 26 
                              y+++l  ++++++ +A+  +e++
  PHY93_04885|PHY93_04885 761 YYRGLVAFNQKNYKEAISQFENF 783
                              899*****************998 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.0   3.9e-05     0.044       1      28 [.     475     502 ..     470     542 .. 0.73
   2 !    8.7   0.0    0.0025       2.8      38      57 ..     761     780 ..     759     782 .. 0.88

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 3.9e-05
                   TPR_16   1 lalaraalragdyddAaaaleaalkrdp 28 
                              ++ a a++r g+y +A a++e+++k+++
  PHY93_04885|PHY93_04885 475 YNTAEAYFRVGRYNEAMALYEEFVKNYS 502
                              5567778888888888888888887773 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 0.0025
                   TPR_16  38 lllgdaalrqgrlaeAaaly 57 
                              +++g++a+ q++++eA+ ++
  PHY93_04885|PHY93_04885 761 YYRGLVAFNQKNYKEAISQF 780
                              89***************555 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.8   0.1   0.00015      0.17       4      26 ..     474     496 ..     471     496 .. 0.91
   2 ?    3.3   0.1     0.071        79      16      29 ..     524     537 ..     522     539 .. 0.90
   3 ?   -1.9   0.1       3.2   3.5e+03      16      24 ..     605     613 ..     604     614 .. 0.80
   4 ?   -1.1   0.0       1.8     2e+03       2      25 ..     635     658 ..     634     659 .. 0.80
   5 !   11.5   0.3   0.00018      0.21       5      25 ..     761     781 ..     758     782 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00015
                              HHHHHHHHHHTT-HHHHHHHHHH CS
                    TPR_1   4 lynlGnayfklgkydeAleyyek 26 
                               yn + ayf+ g+y+eA + ye+
  PHY93_04885|PHY93_04885 474 MYNTAEAYFRVGRYNEAMALYEE 496
                              6999*****************96 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.071
                              -HHHHHHHHHHHHH CS
                    TPR_1  16 kydeAleyyekALe 29 
                              +y++ le y+kA+ 
  PHY93_04885|PHY93_04885 524 NYQDTLELYKKAID 537
                              89**********96 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 3.2
                              -HHHHHHHH CS
                    TPR_1  16 kydeAleyy 24 
                              ky+eAl y 
  PHY93_04885|PHY93_04885 605 KYKEALTYL 613
                              899999885 PP

  == domain 4  score: -1.1 bits;  conditional E-value: 1.8
                              HHHHHHHHHHHHTT-HHHHHHHHH CS
                    TPR_1   2 kalynlGnayfklgkydeAleyye 25 
                              ++ y++   ++k+ +y + +++ +
  PHY93_04885|PHY93_04885 635 EVIYGIISEFYKKSEYSQVIKAWQ 658
                              55677778899*******999876 PP

  == domain 5  score: 11.5 bits;  conditional E-value: 0.00018
                              HHHHHHHHHTT-HHHHHHHHH CS
                    TPR_1   5 ynlGnayfklgkydeAleyye 25 
                              y +G++ f++++y+eA+  +e
  PHY93_04885|PHY93_04885 761 YYRGLVAFNQKNYKEAISQFE 781
                              89***************8776 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.9   0.0   0.00045       0.5       3      48 ..     447     494 ..     445     500 .. 0.84
   2 ?    0.3   0.0      0.95   1.1e+03       4      21 ..     522     539 ..     519     553 .. 0.81
   3 ?   -1.9   0.0       4.4   4.9e+03      36      51 ..     713     728 ..     712     732 .. 0.67
   4 ?    1.4   0.0      0.42   4.7e+02       4      56 ..     770     830 ..     767     846 .. 0.69
   5 ?   -0.3   0.0       1.4   1.5e+03      22      61 ..     878     919 ..     872     925 .. 0.77

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00045
                   TPR_19   3 aegdyaeAlalleq..alqedpknaearllLAeallalgqldeAealL 48 
                               +gd+ + ++l+e+  +  ++p ++ + ++ Aea++  g+++eA+al 
  PHY93_04885|PHY93_04885 447 RSGDLKALISLYEKnkVSLAKPIDPVIMYNTAEAYFRVGRYNEAMALY 494
                              56777777788888777777999**********************986 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.95
                   TPR_19   4 egdyaeAlalleqalqed 21 
                              + +y++ l+l+++a++++
  PHY93_04885|PHY93_04885 522 DHNYQDTLELYKKAIDQS 539
                              568***********9886 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 4.4
                   TPR_19  36 lalgqldeAealLdal 51 
                              +a g +++A +lL++l
  PHY93_04885|PHY93_04885 713 IARGSFQKASDLLSEL 728
                              5667777777777665 PP

  == domain 4  score: 1.4 bits;  conditional E-value: 0.42
                   TPR_19   4 egdyaeAlalleqalqe.......dpk.naearllLAeallalgqldeAealLdalpeedp 56 
                              +++y eA++ +e+ +++       dp   a+   ++ +  ++lgq+d+  ++ da+++++ 
  PHY93_04885|PHY93_04885 770 QKNYKEAISQFENFFSKqdqriiyDPSdVADMIRAYTDSIYELGQTDKFLKVSDAILNDTN 830
                              7899999999999765533445544445566666778888888888888888888887765 PP

  == domain 5  score: -0.3 bits;  conditional E-value: 1.4
                   TPR_19  22 pk...naearllLAeallalgqldeAealLdalpeedpddary 61 
                              pk    +++ +lL +a++ +  ++e +++   l++++   ++y
  PHY93_04885|PHY93_04885 878 PKsiyTGRVNYLLGQAMVINQKVKEGREVFTSLMNDKDT-SDY 919
                              55555567899*******************999999887.444 PP

>> RPN7  26S proteasome subunit RPN7
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.6   0.2    0.0025       2.8      39     125 ..     474     562 ..     450     590 .. 0.64
   2 !   12.2   0.3   9.5e-05      0.11      84     154 ..     734     798 ..     717     801 .. 0.84

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.0025
                              HHHHHHHHHHCT-HHHHHHHHHTCCCC--SHHHHHHHHHHHHHHHHH.....TT-HHHHHHHHHHHHCSSS---.HHHHHHHHHHH CS
                     RPN7  39 kldlaehYlkigdleeAlkaysrireyctslkhkidmllnlirvaif.....fndwdlvskylekakellekggdwerknrlkvye 119
                              +++ ae Y+++g ++eA+++y++ ++     +h +    + +r+a++      n+ d ++ y + + +++++    e + r+ +  
  PHY93_04885|PHY93_04885 474 MYNTAEAYFRVGRYNEAMALYEEFVKNY---SHEFVASNANLRIALCsdlldHNYQDTLELYKKAIDQSVDSNVSYESRIRYVAFR 556
                              78999******************75543...3444444444444444111113333333334444444444433355555566666 PP

                              HHHHHH CS
                     RPN7 120 Glalla 125
                              G+ ++a
  PHY93_04885|PHY93_04885 557 GVRKIA 562
                              665555 PP

  == domain 2  score: 12.2 bits;  conditional E-value: 9.5e-05
                              HHTT-HHHHHHHHHHHHCSSS---.HHHHHHHHHHHHHHHHHTT-HHHHHHHHCTS-GGGT.TTT--HHHH CS
                     RPN7  84 iffndwdlvskylekakellekggdwerknrlkvyeGlallairkfkeAaellldilstftskellsyedl 154
                              i +++wdlv+k++++  + + +       n+ + y Gl +  ++++keA + + +  s  ++  + +++d+
  PHY93_04885|PHY93_04885 734 IKLQNWDLVQKNIATFDKKMAS------YNKTNYYRGLVAFNQKNYKEAISQFENFFSKQDQRIIYDPSDV 798
                              7789*********999888888......799*******************999877777665655566655 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.1   0.1    0.0013       1.5      30      81 ..     442     496 ..     416     497 .. 0.75
   2 !   10.0   0.5   0.00072      0.81      26      78 ..     474     531 ..     449     535 .. 0.66
   3 ?   -0.7   0.0       1.5   1.7e+03      66      79 ..     600     613 ..     596     615 .. 0.76
   4 !    8.4   0.1    0.0023       2.5      22      49 ..     755     783 ..     717     793 .. 0.76
   5 ?    1.4   0.0      0.34   3.8e+02      25      49 ..     883     910 ..     860     935 .. 0.54

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.0013
                              HHHHHHTT-HHHHHHHHHCTSHHHC-H...HHHHHHHHHHHHTT-HHHHHHHH-S CS
                   ANAPC3  30 AlclylngqykrAyellrkaklnsksl...gcrylfAqcllkLkkyeeAiaaLek 81 
                              +++++++g+ k  + l++k+k     +    + y +A++++  ++y+eA a++e+
  PHY93_04885|PHY93_04885 442 SYSFLRSGDLKALISLYEKNKVSLAKPidpVIMYNTAEAYFRVGRYNEAMALYEE 496
                              6777888888888888888833333334667888888999999999999888876 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00072
                              HHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-H...HHHHHHHHHHHHT.T-HHHHHHH CS
                   ANAPC3  26 ayllAlclylngqykrAyellrka.klnsksl...gcrylfAqcllkL.kkyeeAiaa 78 
                               y  A+++++ g+y++A+ l++++ k +s+     ++ + +A c+  L ++y++ + +
  PHY93_04885|PHY93_04885 474 MYNTAEAYFRVGRYNEAMALYEEFvKNYSHEFvasNANLRIALCSDLLdHNYQDTLEL 531
                              35569*****************995554444366444444455543335666666555 PP

  == domain 3  score: -0.7 bits;  conditional E-value: 1.5
                              HHHTT-HHHHHHHH CS
                   ANAPC3  66 llkLkkyeeAiaaL 79 
                              l+  +ky+eA++ L
  PHY93_04885|PHY93_04885 600 LIVDEKYKEALTYL 613
                              55558999999987 PP

  == domain 4  score: 8.4 bits;  conditional E-value: 0.0023
                              -HHH.HHHHHHHHHHTT-HHHHHHHHHCT CS
                   ANAPC3  22 sped.ayllAlclylngqykrAyellrka 49 
                              s++   y+ +l+ +++++yk+A+  ++++
  PHY93_04885|PHY93_04885 755 SYNKtNYYRGLVAFNQKNYKEAISQFENF 783
                              444414555**************999988 PP

  == domain 5  score: 1.4 bits;  conditional E-value: 0.34
                              H...HHHHHHHHHHTT-HHHHHHHHHCT CS
                   ANAPC3  25 d...ayllAlclylngqykrAyellrka 49 
                                   yll++++  n++ k+  e++ ++
  PHY93_04885|PHY93_04885 883 TgrvNYLLGQAMVINQKVKEGREVFTSL 910
                              2444566677777777777776666666 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.5   0.2   0.00051      0.58       4      29 ..     474     499 ..     472     502 .. 0.89
   2 ?    0.1   0.0       1.2   1.3e+03       5      23 ..     676     694 ..     674     701 .. 0.79
   3 ?    4.3   0.1     0.051        57       7      25 ..     763     781 ..     758     784 .. 0.88

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00051
                              HHHHHHHHHHTT-HHHHHHHHHHHHH CS
                    TPR_8   4 yynlgsiylklgdyeeAkeyyekale 29 
                              +yn + +y+  g+y+eA++ ye+ ++
  PHY93_04885|PHY93_04885 474 MYNTAEAYFRVGRYNEAMALYEEFVK 499
                              688899****************9775 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 1.2
                              HHHHHHHHHTT-HHHHHHH CS
                    TPR_8   5 ynlgsiylklgdyeeAkey 23 
                              +  gs y+klg y+   e+
  PHY93_04885|PHY93_04885 676 FVVGSSYIKLGLYKGFDEV 694
                              56799******99866555 PP

  == domain 3  score: 4.3 bits;  conditional E-value: 0.051
                              HHHHHHHTT-HHHHHHHHH CS
                    TPR_8   7 lgsiylklgdyeeAkeyye 25 
                               g++ +++++y+eA++ +e
  PHY93_04885|PHY93_04885 763 RGLVAFNQKNYKEAISQFE 781
                              68999**********9987 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.8   0.2   0.00083      0.93      47      70 ..     473     496 ..     471     503 .. 0.68
   2 ?    1.2   0.1       0.4   4.5e+02       9      32 ..     514     538 ..     505     543 .. 0.75
   3 ?    4.6   0.0     0.034        39       5      27 ..     759     781 ..     755     784 .. 0.86

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00083
                   TPR_12  47 tlrnLgrlyralgryeeAlellee 70 
                              +++n +++y++ gry eA +l+ee
  PHY93_04885|PHY93_04885 473 IMYNTAEAYFRVGRYNEAMALYEE 496
                              466677777777777777777776 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.4
                   TPR_12   9 laavl.rrlgrydeAlellekalei 32 
                              +a++  +   +y++ lel++ka+++
  PHY93_04885|PHY93_04885 514 IALCSdLLDHNYQDTLELYKKAIDQ 538
                              5666656688999999999999876 PP

  == domain 3  score: 4.6 bits;  conditional E-value: 0.034
                   TPR_12   5 alnnlaavlrrlgrydeAlelle 27 
                              + + +++v + +++y eA++ +e
  PHY93_04885|PHY93_04885 759 TNYYRGLVAFNQKNYKEAISQFE 781
                              555799*************9987 PP

>> TPR_10  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.1     5e-05     0.055       5      27 ..     474     496 ..     472     498 .. 0.90
   2 ?   -2.1   0.0       3.6   4.1e+03      18      28 ..     525     535 ..     523     537 .. 0.52
   3 ?   -1.5   0.0       2.4   2.7e+03      10      23 ..     765     778 ..     764     781 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 5e-05
                   TPR_10   5 lnNLanalrqrgrydeAeallee 27 
                              + N a a++++gry+eA+al+ee
  PHY93_04885|PHY93_04885 474 MYNTAEAYFRVGRYNEAMALYEE 496
                              667799****************8 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 3.6
                   TPR_10  18 ydeAealleea 28 
                              y++ ++l+++a
  PHY93_04885|PHY93_04885 525 YQDTLELYKKA 535
                              45555555555 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 2.4
                   TPR_10  10 nalrqrgrydeAea 23 
                               + +++++y+eA  
  PHY93_04885|PHY93_04885 765 LVAFNQKNYKEAIS 778
                              67789*******76 PP

>> PPR  PPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.0      0.09     1e+02       5      22 ..     405     422 ..     405     422 .. 0.88
   2 ?    8.5   0.1    0.0022       2.5       9      28 ..     480     499 ..     478     501 .. 0.91

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.09
                      PPR   5 slIsgycknGkleeAlel 22 
                              +++++++k G++e+  el
  PHY93_04885|PHY93_04885 405 AMLNSLAKLGQIEKIQEL 422
                              69***********97765 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.0022
                      PPR   9 gycknGkleeAlelfkeMke 28 
                              +y + G++ eA+ l++e ++
  PHY93_04885|PHY93_04885 480 AYFRVGRYNEAMALYEEFVK 499
                              8****************887 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.8   0.0      0.13   1.4e+02       9      24 ..     445     460 ..     441     467 .. 0.86
   2 ?   10.6   0.1   0.00043      0.48       6      24 ..     478     496 ..     474     524 .. 0.88
   3 ?   -1.4   0.0       2.8   3.2e+03      14      31 ..     524     539 ..     510     543 .. 0.78
   4 ?    0.1   0.0      0.92     1e+03       9      23 ..     767     781 ..     761     786 .. 0.83

  Alignments for each domain:
  == domain 1  score: 2.8 bits;  conditional E-value: 0.13
                    TPR_7   9 ysrlGdyeeAielyeq 24 
                              + r Gd + +i+lye+
  PHY93_04885|PHY93_04885 445 FLRSGDLKALISLYEK 460
                              5789***********9 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 0.00043
                    TPR_7   6 arlysrlGdyeeAielyeq 24 
                              a++y+r+G+y eA  lye+
  PHY93_04885|PHY93_04885 478 AEAYFRVGRYNEAMALYEE 496
                              89****************8 PP

  == domain 3  score: -1.4 bits;  conditional E-value: 2.8
                    TPR_7  14 dyeeAielyeqsLaltkd 31 
                              +y++ +ely++  a++ +
  PHY93_04885|PHY93_04885 524 NYQDTLELYKK--AIDQS 539
                              56666899999..88766 PP

  == domain 4  score: 0.1 bits;  conditional E-value: 0.92
                    TPR_7   9 ysrlGdyeeAielye 23 
                               +++ +y+eAi+ +e
  PHY93_04885|PHY93_04885 767 AFNQKNYKEAISQFE 781
                              567889*****9988 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0       5.7   6.3e+03       9      25 ..     443     459 ..     434     460 .. 0.75
   2 ?    6.6   0.0     0.014        16       8      29 ..     478     499 ..     474     516 .. 0.88
   3 ?    0.7   0.0       1.1   1.2e+03       5      26 ..     761     782 ..     758     790 .. 0.84

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 5.7
                   TPR_14   9 eallalGdpdeAiallr 25 
                                +l++Gd+++ i l++
  PHY93_04885|PHY93_04885 443 YSFLRSGDLKALISLYE 459
                              55899*****9999998 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.014
                   TPR_14   8 aeallalGdpdeAiallrrala 29 
                              aea+++ G++ eA+al+++ ++
  PHY93_04885|PHY93_04885 478 AEAYFRVGRYNEAMALYEEFVK 499
                              89****************9776 PP

  == domain 3  score: 0.7 bits;  conditional E-value: 1.1
                   TPR_14   5 lalaeallalGdpdeAiallrr 26 
                              + ++ + +++ +++eAi  ++ 
  PHY93_04885|PHY93_04885 761 YYRGLVAFNQKNYKEAISQFEN 782
                              6789999**********99985 PP

>> SL4P  Uncharacterized Strongylid L4 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   1.3     9e-05       0.1      27      82 ..      67     123 ..      55     129 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 9e-05
                     SL4P  27 ddLfekfkkklkelgipldevywvdedgdrilirnaddLl.eavkdnavvklyvrde 82 
                              +dL++ +k++l+ l+i+++ +  + +++ +++ ++a++++ e+  +n++v ++    
  PHY93_04885|PHY93_04885  67 NDLYKNLKDELSSLKIDQSYIKGISYKESESEANTANAMAiEIELKNDNVEMFSFYR 123
                              8***************************************777779****9997554 PP

>> Fis1_TPR_C  Fis1 C-terminal tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.2    0.0007      0.79       4      28 ..     474     498 ..     472     500 .. 0.88
   2 ?   -3.3   0.1       8.8   9.9e+03      16      26 ..     605     615 ..     604     616 .. 0.82
   3 ?    0.8   0.0      0.48   5.4e+02       5      29 ..     761     785 ..     758     789 .. 0.82

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.0007
                              HHHHHHHHHHHT-HHHHHHHHHHHH CS
               Fis1_TPR_C   4 lYylAlGhyklgeYseArryvdalL 28 
                              +Y  A +++++g+Y+eA+ + + + 
  PHY93_04885|PHY93_04885 474 MYNTAEAYFRVGRYNEAMALYEEFV 498
                              7****************99888775 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 8.8
                              -HHHHHHHHHH CS
               Fis1_TPR_C  16 eYseArryvda 26 
                              +Y+eA+ y+  
  PHY93_04885|PHY93_04885 605 KYKEALTYLSL 615
                              69****99876 PP

  == domain 3  score: 0.8 bits;  conditional E-value: 0.48
                              HHHHHHHHHHT-HHHHHHHHHHHHH CS
               Fis1_TPR_C   5 YylAlGhyklgeYseArryvdalLe 29 
                              Yy  l  + +++Y+eA    + + +
  PHY93_04885|PHY93_04885 761 YYRGLVAFNQKNYKEAISQFENFFS 785
                              9999999*********877776665 PP

>> Vps39_1  Vacuolar sorting protein 39 domain 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.4   0.00053       0.6      30      79 ..     351     399 ..     325     430 .. 0.73
   2 ?   -2.3   0.0       4.9   5.4e+03      39      53 ..     448     462 ..     439     464 .. 0.83
   3 ?   -0.4   0.1       1.3   1.4e+03      24      67 ..     744     785 ..     721     822 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00053
                  Vps39_1  30 kdveeiLkkekkykeLidlYygkklheeALeLlkeladedeedeedsslk 79 
                              +++e+   k+  yk L+ +Y  k++h + L+L k+     ++d+ d  ++
  PHY93_04885|PHY93_04885 351 EKSENYELKKAIYKYLLTFYMAKGEHLKTLQLSKNYYA-GTRDNFDFEES 399
                              4555555678899*******************999888.44444444443 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 4.9
                  Vps39_1  39 ekkykeLidlYygkk 53 
                              + ++k+Li lY+++k
  PHY93_04885|PHY93_04885 448 SGDLKALISLYEKNK 462
                              567899*****9997 PP

  == domain 3  score: -0.4 bits;  conditional E-value: 1.3
                  Vps39_1  24 eNaCdlkdveeiLkkekkykeLidlYygkklheeALeLlkelad 67 
                              +N  ++++  +  +k + y+ L+++ ++  + +eA+  ++++ +
  PHY93_04885|PHY93_04885 744 KNIATFDKKMASYNKTNYYRGLVAFNQK--NYKEAISQFENFFS 785
                              5777778888888899999999998554..45566666666555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (936 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1033  (0.0576162); expected 358.6 (0.02)
Passed bias filter:                      416  (0.0232026); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              16  [number of targets reported over threshold]
# CPU time: 0.76u 0.25s 00:00:01.01 Elapsed: 00:00:00.44
# Mc/sec: 6388.44
//
Query:       PHY93_04890|PHY93_04890  [L=309]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.8e-21   75.5   0.0    8.8e-21   74.3   0.0    1.6  1  Sigma54_activat  Sigma-54 interaction domain
    7.4e-20   71.5   0.0    2.8e-19   69.6   0.0    1.9  2  Sigma54_activ_2  Sigma-54 interaction domain
    2.9e-11   42.9   1.5    4.9e-11   42.2   0.5    2.0  2  HTH_8            Bacterial regulatory protein, Fis family
    0.00016   21.7   0.0    0.00038   20.5   0.0    1.6  1  AAA_5            AAA domain (dynein-related subfamily)
    0.00053   20.4   0.1     0.0063   16.9   0.0    2.2  2  AAA              ATPase family associated with various cellul
    0.00097   18.9   0.3      0.018   14.8   0.0    2.4  2  HTH_23           Homeodomain-like domain
     0.0046   17.5   1.2      0.022   15.3   0.1    2.3  2  ABC_tran         ABC transporter
  ------ inclusion threshold ------
      0.013   15.7   0.3      0.086   13.0   0.0    2.4  2  HTH_17           Helix-turn-helix domain
      0.019   15.0   0.0      0.062   13.3   0.0    1.8  1  HTH_29           Winged helix-turn helix
      0.028   13.9   0.0       0.19   11.2   0.0    2.4  3  HTH_Tnp_ISL3     Helix-turn-helix domain of transposase famil
      0.028   14.2   0.0      0.067   13.0   0.0    1.7  1  MerR             MerR family regulatory protein
       0.04   14.0   0.1      0.071   13.2   0.1    1.5  1  UPF0242          Uncharacterised protein family (UPF0242) N-t
      0.042   14.2   0.2       0.08   13.3   0.2    1.6  1  AAA_16           AAA ATPase domain
      0.045   13.9   0.0      0.099   12.8   0.0    1.6  1  HTH_28           Helix-turn-helix domain
      0.063   13.8   0.4       0.29   11.7   0.0    2.2  2  AAA_18           AAA domain
      0.064   13.2   0.4        2.8    7.8   0.0    2.7  3  RsgA_GTPase      RsgA GTPase
      0.072   13.2   0.8        3.7    7.7   0.2    2.6  2  Abi_C            Abortive infection C-terminus


Domain annotation for each model (and alignments):
>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.3   0.0   8.3e-24   8.8e-21       2     160 ..       9     155 ..       8     163 .. 0.92

  Alignments for each domain:
  == domain 1  score: 74.3 bits;  conditional E-value: 8.3e-24
                              ---SHHHHHHHHHHHHHCTSSS-EEEECSTTSSHHHHHHHHHHHSTTTTS-EEEEETTTS-TTCHHHHHHEBSSSSSTTTSS-BEH CS
          Sigma54_activat   2 igesealkelleqikkvaktdlsvlitGesGtGKellaraiheaskrkekpfvavncaaipeelleseLFGhekGaFtGAekekkG 87 
                              +g++++++++l q++++  +++ vl++Ge+G+GK +l r ihe+s r+++pf  v+c+ +p++ +e ++ Gh++ + tG    +kG
  PHY93_04890|PHY93_04890   9 FGTDARVEKALLQARNLSVSKAAVLVVGENGVGKRTLGRYIHESSGRASQPFELVDCS-LPAQDVENRILGHRDNT-TGR--FNKG 90 
                              678899999************************************************6.788889*******9975.664..568* PP

                              HHHHTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEESBTSSSEEE--EEEEEEESS-HHHHHHTTSS-HHHHH CS
          Sigma54_activat  88 lfekadgGtlfLDeigelplelQekLlrvlqegevervGsskeikvdvriiaatnedleeaveegkfredLyy 160
                               +e+a++Gt+ + +i  l+ e+Q++L ++++e         +  ++dvr+ia+t+++l++ v +g+f + L+ 
  PHY93_04890|PHY93_04890  91 ILEAANKGTVVFANIDCLDEEFQKRLHKIINEL--------EDYDIDVRLIATTTKNLSKLVGAGRFYRGLFS 155
                              ***************************999875........57899**********************99985 PP

>> Sigma54_activ_2  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.6   0.0   2.7e-22   2.8e-19      17     138 .]      25     167 ..      13     167 .. 0.91
   2 ?   -2.2   0.0       3.8     4e+03     101     119 ..     216     234 ..     191     238 .. 0.70

  Alignments for each domain:
  == domain 1  score: 69.6 bits;  conditional E-value: 2.7e-22
                              HHT-SS-EEEEEETT--HHHHHHCC--TTS-EE--SSTTHHHH-H...................HHHHHHTTTSEEEEEE-TT--H CS
          Sigma54_activ_2  17 aaqsklpvfltGekGsgkelvArlLhknsgpwleifvverlaklp...................ldlleqakggtLylkdiadlsk 83 
                              ++ sk+ v+++Ge+G gk +  r++h++sg+ +++f++ +++                      + +le a+ gt ++ +i+ l++
  PHY93_04890|PHY93_04890  25 LSVSKAAVLVVGENGVGKRTLGRYIHESSGRASQPFELVDCSLPAqdvenrilghrdnttgrfnKGILEAANKGTVVFANIDCLDE 110
                              567999********************************8888533456778899999999999999******************** PP

                              HHHHHHHHHHHHHT..TTT-EEEEEEEE-TTT..----HHHHHHHHSSSEEEEE--- CS
          Sigma54_activ_2  84 aeqkeLlellakae..ksslrlVstsskdleqlleagafdekLlkeLselrlhvPpL 138
                              + qk+L +++++ e    ++rl++t+ k+l +l+ ag+f + L+  + + ++ +P+L
  PHY93_04890|PHY93_04890 111 EFQKRLHKIINELEdyDIDVRLIATTTKNLSKLVGAGRFYRGLFSLFANNAVTIPAL 167
                              ************99555689***********************************98 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 3.8
                              -EEEEEEEE-TTT..---- CS
          Sigma54_activ_2 101 lrlVstsskdleqlleaga 119
                               +++s+s+++  +ll+++a
  PHY93_04890|PHY93_04890 216 KQVISSSVNNNSSLLDESA 234
                              3567777777777666665 PP

>> HTH_8  Bacterial regulatory protein, Fis family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0       3.7   3.9e+03       5      12 ..      15      22 ..      13      33 .. 0.64
   2 !   42.2   0.5   4.6e-14   4.9e-11       2      42 .]     259     299 ..     258     299 .. 0.97

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 3.7
                             HHHHHHHH CS
                    HTH_8  5 vEkelIea 12
                             vEk l++a
  PHY93_04890|PHY93_04890 15 VEKALLQA 22
                             56666654 PP

  == domain 2  score: 42.2 bits;  conditional E-value: 4.6e-14
                              HHHHHHHHHHHHHHHTTT-HHHHHHHHTS-HHHHHHHHHHT CS
                    HTH_8   2 leevEkelIeaALertgGnkskAArlLGisRrtLyrKLkkY 42 
                              l++ Ek lI++AL +t  n+++AA++LG+s rtL++K+ +Y
  PHY93_04890|PHY93_04890 259 LKDAEKLLIKKALIHTTENRTQAAKILGVSIRTLRNKINEY 299
                              899************************************99 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.5   0.0   3.6e-07   0.00038       2      91 ..      32     122 ..      31     142 .. 0.79

  Alignments for each domain:
  == domain 1  score: 20.5 bits;  conditional E-value: 3.6e-07
                              EEEE--SSSSHHHHHHHGGGGB...S--EEEEE--..TT--HHHHH--B--.........--------G-SEEEEESGGG--HHHH CS
                    AAA_5   2 vlLvGppGtgKselaerlaaal...nreveyvqlt..rdtteedlkgrreikngttslvdsplvraaregeilvlDEveraesevl 82 
                              vl+vG+ G+gK++l +++ +      +++e v ++  ++  e+ ++g+r+  n t ++ +++l  aa++g +++   ++ ++ e +
  PHY93_04890|PHY93_04890  32 VLVVGENGVGKRTLGRYIHESSgraSQPFELVDCSlpAQDVENRILGHRD--NTTGRFNKGILE-AANKGTVVF-ANIDCLDEEFQ 113
                              89******************998776666666554115555566666666..888888888887.777777665.5799999**** PP

                              HHHHHHHHS CS
                    AAA_5  83 nsLlsllee 91 
                              ++L+++++e
  PHY93_04890|PHY93_04890 114 KRLHKIINE 122
                              ****99997 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0     6e-06    0.0063       1     111 [.      32     138 ..      32     154 .. 0.66
   2 ?    0.7   0.0      0.64   6.7e+02      24      52 ..     193     221 ..     176     237 .. 0.66

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 6e-06
                              EEEESSTTSSHHHHHHHHHHHHT.....HEEEEEETTTCS..SSSTTHHHHHHHHHHHHHHHTSTS.EEEE..EETGGGHHHHHTT CS
                      AAA   1 vllyGppGtGKTllakavakelg.....vefleisgsell..skyvgesekkirelfkeakekakp.silf..iDEidalaksrsg 76 
                              vl++G  G+GK +l + + +++g     +e++  s++     + ++g++ + +  + k + e a++ +++f  iD +d+ +++r  
  PHY93_04890|PHY93_04890  32 VLVVGENGVGKRTLGRYIHESSGrasqpFELVDCSLPAQDveNRILGHRDNTTGRFNKGILEAANKgTVVFanIDCLDEEFQKR-- 115
                              799******************865554455655555544431555555444443333334444434256655566677777777.. PP

                              CCCHHHHHHHHHHHHHHHHTTTSSSTEEEEEEESS CS
                      AAA  77 seseeeervvnqLlteldgvkkkeskvivigatnr 111
                                       + ++++el++++    +v +i++t++
  PHY93_04890|PHY93_04890 116 ---------LHKIINELEDYDI---DVRLIATTTK 138
                              .........8888888888888...6******997 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.64
                              HEEEEEETTTCSSSSTTHHHHHHHHHHHH CS
                      AAA  24 vefleisgsellskyvgesekkirelfke 52 
                               e+ +i +s+++s+y+ ++ +++++++++
  PHY93_04890|PHY93_04890 193 NEIDSIAMSRITSHYWANNIHELKQVISS 221
                              55666777777777777777777777665 PP

>> HTH_23  Homeodomain-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.0      0.28     3e+02      26      40 ..      37      51 ..      34      58 .. 0.83
   2 !   14.8   0.0   1.7e-05     0.018       5      45 ..     262     303 ..     258     305 .. 0.79

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.28
                   HTH_23 26 eLgvsrrTvyrwlkr 40
                             e gv +rT+ r+++ 
  PHY93_04890|PHY93_04890 37 ENGVGKRTLGRYIHE 51
                             689*********997 PP

  == domain 2  score: 14.8 bits;  conditional E-value: 1.7e-05
                   HTH_23   5 reRlrillllae.GlsvreIAreLgvsrrTvyrwlkryreeG 45 
                               e+l+i ++l     +++++A++Lgvs rT+++ ++ yr++G
  PHY93_04890|PHY93_04890 262 AEKLLIKKALIHtTENRTQAAKILGVSIRTLRNKINEYRNDG 303
                              566666666665567899**************9999998877 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.1   2.1e-05     0.022      12     110 ..      30     141 ..      20     143 .. 0.67
   2 ?    0.1   0.1      0.98     1e+03      40      80 ..     189     248 ..     176     292 .. 0.54

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 2.1e-05
                              SEEEEEESTTSSHHHHHHHHTTSS--SEEEE.....EETTCEGGG.......B-HHHCCHCEEEE-SS.--S-TTSBHHHHHHHTC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....xxxxxxxxx.......xxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxx RF
                 ABC_tran  12 ekvaivGenGaGKStLlkllagllkpteGei.....lldgkdlke.......qeleslrkeigvlpqe.pqlfpeltvrenesdee 84 
                                v +vGenG GK tL + + + +  ++         l  +d+++       +++ +++k i     + + +f ++ + ++e +++
  PHY93_04890|PHY93_04890  30 AAVLVVGENGVGKRTLGRYIHESSGRASQPFelvdcSLPAQDVENrilghrdNTTGRFNKGILEAANKgTVVFANIDCLDEEFQKR 115
                              45779***************98876655555545552333333333333344333444444433333346666666666669**** PP

                              HHHHHHHSTTGGTTCBGESTTSGGS- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  85 iekalsklglkelkdtvvksspssLS 110
                              ++k++++l++ +++ + + + +++LS
  PHY93_04890|PHY93_04890 116 LHKIINELEDYDIDVRLIATTTKNLS 141
                              **************999999999999 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.98
                              EEE..EETTCEGGGB-HHHCCHCEEEE-SS..--S-TTSBHHHH...............H CS
                              xxx..xxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxx...............x RF
                 ABC_tran  40 Gei..lldgkdlkeqeleslrkeigvlpqe..pqlfpeltvren...............e 80 
                              Gei  ++d+  +++++ + + ++i  l+q   +++++++++ ++               +
  PHY93_04890|PHY93_04890 189 GEIsnEIDSIAMSRITSHYWANNIHELKQVisSSVNNNSSLLDEsayevsdkksvkfmsD 248
                              555223344455556667777777777776554555555533334555444444444331 PP

>> HTH_17  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.0       2.6   2.8e+03      12      23 ..      39      50 ..      39      55 .. 0.83
   2 ?   13.0   0.0   8.1e-05     0.086       6      24 ..     280     298 ..     278     301 .. 0.91

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 2.6
                   HTH_17 12 gvsrstvyrlir 23
                             gv+++t+ r+i+
  PHY93_04890|PHY93_04890 39 GVGKRTLGRYIH 50
                             799999999997 PP

  == domain 2  score: 13.0 bits;  conditional E-value: 8.1e-05
                   HTH_17   6 EaAelLgvsrstvyrlirr 24 
                              +aA++Lgvs +t+++ i++
  PHY93_04890|PHY93_04890 280 QAAKILGVSIRTLRNKINE 298
                              8**************9975 PP

>> HTH_29  Winged helix-turn helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   5.9e-05     0.062      14      40 ..     277     303 ..     265     305 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 5.9e-05
                   HTH_29  14 tvsqiAkllglsrrtvyrwlkrfeegG 40 
                              +  q+Ak+lg+s rt ++ ++ ++++G
  PHY93_04890|PHY93_04890 277 NRTQAAKILGVSIRTLRNKINEYRNDG 303
                              789*********************999 PP

>> HTH_Tnp_ISL3  Helix-turn-helix domain of transposase family ISL3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0       3.2   3.4e+03      37      49 ..      38      50 ..      37      51 .. 0.86
   2 ?   -3.2   0.0       5.5   5.8e+03      12      29 ..      83      99 ..      77     100 .. 0.72
   3 ?   11.2   0.0   0.00018      0.19      24      51 ..     271     299 ..     267     300 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 3.2
             HTH_Tnp_ISL3 37 lgvSwtTVwrild 49
                              gv+ +T+ r+++
  PHY93_04890|PHY93_04890 38 NGVGKRTLGRYIH 50
                             6999******987 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 5.5
             HTH_Tnp_ISL3 12 iTlrleayilelllesrs 29
                              T r++  ile++ ++ +
  PHY93_04890|PHY93_04890 83 TTGRFNKGILEAANKG-T 99
                             4559999999987666.5 PP

  == domain 3  score: 11.2 bits;  conditional E-value: 0.00018
             HTH_Tnp_ISL3  24 lles.rsvkavArqlgvSwtTVwrildry 51 
                              l+++  +++++A++lgvS +T+++ +++y
  PHY93_04890|PHY93_04890 271 LIHTtENRTQAAKILGVSIRTLRNKINEY 299
                              66777899****************99987 PP

>> MerR  MerR family regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   6.3e-05     0.067       4      17 ..     280     293 ..     279     294 .. 0.93

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 6.3e-05
                              HHHHHHTTTHHHHH CS
                     MerR   4 evAeltGvsprtLR 17 
                              ++A+++Gvs+rtLR
  PHY93_04890|PHY93_04890 280 QAAKILGVSIRTLR 293
                              79************ PP

>> UPF0242  Uncharacterised protein family (UPF0242) N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.1   6.7e-05     0.071      90     164 ..     166     243 ..     106     249 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 6.7e-05
                  UPF0242  90 aleelqeeeeeLkeeldakeeelerlkeenqqLqekleaiae....dfeelkleleeqLaekqellqeyqetieeqrsv 164
                              al+e+qe+ ++L++++ +  +el +  +e  ++ +     ++    +++elk+ + + +++   ll+e++ ++++++sv
  PHY93_04890|PHY93_04890 166 ALRERQEDLQRLARHFMNEATELGEISNEIDSIAMSRIT-SHywanNIHELKQVISSSVNNNSSLLDESAYEVSDKKSV 243
                              899****************************99854433.224555****************************99985 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.2   7.6e-05      0.08      20      51 ..      25      56 ..       8     188 .. 0.71

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 7.6e-05
                   AAA_16 20 rsgrpelvllsGesGvGKsslvrellralekd 51
                              s +  +vl++Ge GvGK +l r ++++  ++
  PHY93_04890|PHY93_04890 25 LSVSKAAVLVVGENGVGKRTLGRYIHESSGRA 56
                             4444589******************9877766 PP

>> HTH_28  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   9.4e-05     0.099       8      40 ..     270     303 ..     263     305 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 9.4e-05
                   HTH_28   8 llaaGh.svreaArelgisrrtvyrWikryeegG 40 
                              +l++   ++++aA++lg+s rt++  i+ y+  G
  PHY93_04890|PHY93_04890 270 ALIHTTeNRTQAAKILGVSIRTLRNKINEYRNDG 303
                              55565559**********************9876 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00028      0.29       1      65 [.      32     121 ..      32     148 .. 0.58
   2 ?   -0.1   0.1       1.2   1.2e+03      73      73 ..     194     194 ..     134     253 .. 0.54

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00028
                   AAA_18   1 IlltGtpGvGKttlakeLskrlgf..............gvnlrdvakenglllevdpe...........aldeskrldedkldkll 61 
                              +l+ G  GvGK tl++++ ++ g                ++ + ++ +++  ++++++            + + + lde+++++l+
  PHY93_04890|PHY93_04890  32 VLVVGENGVGKRTLGRYIHESSGRasqpfelvdcslpaQDVENRILGHRDNTTGRFNKgileaankgtvVFANIDCLDEEFQKRLH 117
                              7899**************99953334444444445555333344444444444444444444444444544444444444444444 PP

                   AAA_18  62 dale 65 
                              ++++
  PHY93_04890|PHY93_04890 118 KIIN 121
                              4444 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 1.2
                   AAA_18  73 e 73 
                              e
  PHY93_04890|PHY93_04890 194 E 194
                              2 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   0.0    0.0026       2.8      79     121 ..       8      51 ..       1      62 [. 0.67
   2 ?    2.7   0.0       0.1   1.1e+02      48      92 ..      97     142 ..      79     147 .. 0.77
   3 ?   -3.4   0.0       7.6     8e+03      26      48 ..     260     280 ..     256     285 .. 0.66

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0026
                              EEE--TTTHTTHHHHHHH.CTTSEEEEECSTTSSHHHHHHHHCT CS
              RsgA_GTPase  79 vllvsaktkegleelkel.lkdktsvlvGqSGvGKStLinallp 121
                              ++ ++a+ +++l + ++l +++  +++vG+ GvGK tL   +++
  PHY93_04890|PHY93_04890   8 LFGTDARVEKALLQARNLsVSKAAVLVVGENGVGKRTLGRYIHE 51 
                              5555555555554444441455777889*********9877765 PP

  == domain 2  score: 2.7 bits;  conditional E-value: 0.1
                              EEEEEEE-GGG--HHH..HHHHHHHHHHHTTSEEEE--TTTHTTHHH CS
              RsgA_GTPase  48 epvivlnKiDlleeee..eleelkeelealgyevllvsaktkeglee 92 
                              + ++v+  iD+l+ee   +l+++ +ele+++++v l+ ++ +++l++
  PHY93_04890|PHY93_04890  97 KGTVVFANIDCLDEEFqkRLHKIINELEDYDIDVRLIATT-TKNLSK 142
                              5578999999999987668999999999999999999555.555555 PP

  == domain 3  score: -3.4 bits;  conditional E-value: 7.6
                              TTTT--HHHHHHHHHHHHHTT-E CS
              RsgA_GTPase  26 kepelslnlldrfLvlaeekgie 48 
                              k  + ++ l++++L++  e++ +
  PHY93_04890|PHY93_04890 260 K--DAEKLLIKKALIHTTENRTQ 280
                              4..66677778888777776654 PP

>> Abi_C  Abortive infection C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.0     0.088        93      22      48 ..     168     194 ..     153     199 .. 0.85
   2 ?    7.7   0.2    0.0035       3.7      15      51 ..     269     305 ..     259     306 .. 0.81

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.088
                    Abi_C  22 apgakeikqilsglasivqglgeLRNk 48 
                               +++++++++ +++++ +  lge+ N+
  PHY93_04890|PHY93_04890 168 RERQEDLQRLARHFMNEATELGEISNE 194
                              46899*********************8 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.0035
                    Abi_C  15 pddekadapgakeikqilsglasivqglgeLRNkggt 51 
                                 ++ ++++ +++k +  ++ ++ ++++e+RN+g++
  PHY93_04890|PHY93_04890 269 KALIHTTENRTQAAKILGVSIRTLRNKINEYRNDGSS 305
                              33457888899999999999**************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (309 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1109  (0.0618551); expected 358.6 (0.02)
Passed bias filter:                      672  (0.0374812); expected 358.6 (0.02)
Passed Vit filter:                        86  (0.0047967); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              17  [number of targets reported over threshold]
# CPU time: 0.57u 0.26s 00:00:00.83 Elapsed: 00:00:00.43
# Mc/sec: 2139.17
//
Query:       PHY93_04895|PHY93_04895  [L=133]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.1e-07   29.8   0.5    1.1e-06   28.4   0.0    2.0  3  Flg_bb_rod       Flagella basal body rod protein
      0.009   16.0   0.0      0.012   15.6   0.0    1.2  1  Cleaved_Adhesin  Cleaved Adhesin Domain


Domain annotation for each model (and alignments):
>> Flg_bb_rod  Flagella basal body rod protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.4   0.0   1.3e-10   1.1e-06      11      31 .]      18      38 ..      10      38 .. 0.92
   2 ?   -2.6   0.0      0.65   5.8e+03      10      17 ..      47      54 ..      46      54 .. 0.76
   3 ?   -2.8   0.0      0.74   6.7e+03       1      12 [.      68      79 ..      68      79 .. 0.69

  Alignments for each domain:
  == domain 1  score: 28.4 bits;  conditional E-value: 1.3e-10
               Flg_bb_rod 11 qqialdvianNiANanTtGyK 31
                             +q +++ ia+NiANa T+GyK
  PHY93_04895|PHY93_04895 18 RQMRQELIASNIANAETPGYK 38
                             789*****************9 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 0.65
               Flg_bb_rod 10 aqqialdv 17
                             a+++ald+
  PHY93_04895|PHY93_04895 47 ALARALDT 54
                             77889886 PP

  == domain 3  score: -2.8 bits;  conditional E-value: 0.74
               Flg_bb_rod  1 LrtavsALnaqq 12
                             ++++ ++ n++q
  PHY93_04895|PHY93_04895 68 FNVGGGGFNNLQ 79
                             577888877765 PP

>> Cleaved_Adhesin  Cleaved Adhesin Domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   1.3e-06     0.012      23      87 ..      53     118 ..      41     128 .. 0.92

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 1.3e-06
          Cleaved_Adhesin  23 DgDGanWlslsnsys.ltghsGdlvvsskswtgssGaltpdnYLitpelklpeegakkvkYwvasq 87 
                              D+DG++ l++++s +  +g +G + +  +++  s G+++pd   + ++ ++ e + +k+ Y  ++q
  PHY93_04895|PHY93_04895  53 DTDGQQTLKTTDSKHfNVGGGGFNNLQPEIYEESNGIVSPDGNTVDRDAEMAEMAENKIMYDASVQ 118
                              99*********999977899999**************************************88877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (133 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       375  (0.0209158); expected 358.6 (0.02)
Passed bias filter:                      279  (0.0155614); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 994.45
//
Query:       PHY93_04900|PHY93_04900  [L=144]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
      5e-12   45.8   3.2      5e-12   45.8   3.2    1.6  2  Flg_bbr_C   Flagellar basal body rod FlgEFG protein C-termina
    8.7e-07   28.8   1.3    8.7e-07   28.8   1.3    2.2  2  Flg_bb_rod  Flagella basal body rod protein


Domain annotation for each model (and alignments):
>> Flg_bbr_C  Flagellar basal body rod FlgEFG protein C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0      0.32   2.9e+03      15      15 ..      46      46 ..      16      81 .. 0.59
   2 !   45.8   3.2   5.5e-16     5e-12      23      69 ..      95     138 ..      78     142 .. 0.87

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.32
                Flg_bbr_C 15 s 15
                             +
  PHY93_04900|PHY93_04900 46 E 46
                             2 PP

  == domain 2  score: 45.8 bits;  conditional E-value: 5.5e-16
                Flg_bbr_C  23 dadgkvaqgflegSNVnlveemtnlieaqraYeanakvittademlq 69 
                              da++   +g++   N+n++eem+n+iea+raYean+++++ta++m+ 
  PHY93_04900|PHY93_04900  95 DANA---EGYVAYPNINTMEEMANMIEASRAYEANINAMNTAKSMAM 138
                              5566...9*************************************85 PP

>> Flg_bb_rod  Flagella basal body rod protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.8   1.3   9.7e-11   8.7e-07       2      28 ..       8      34 ..       7      35 .. 0.92
   2 ?   -2.9   1.0      0.78     7e+03      21      27 ..     126     132 ..     125     134 .. 0.48

  Alignments for each domain:
  == domain 1  score: 28.8 bits;  conditional E-value: 9.7e-11
               Flg_bb_rod  2 rtavsALnaqqialdvianNiANanTt 28
                              + +s+L+a+ ++++ i++NiANa Tt
  PHY93_04900|PHY93_04900  8 KISSSGLTANKKRMAAISSNIANAQTT 34
                             6789********************998 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 0.78
               Flg_bb_rod  21 NiANanT 27 
                              Ni+ +nT
  PHY93_04900|PHY93_04900 126 NINAMNT 132
                              4444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (144 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       609  (0.0339673); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.25s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1068.01
//
Query:       PHY93_04905|PHY93_04905  [L=119]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.7e-24   85.8   3.7    1.7e-24   85.8   3.7    1.5  2  FliE      Flagellar hook-basal body complex protein FliE


Domain annotation for each model (and alignments):
>> FliE  Flagellar hook-basal body complex protein FliE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0      0.28     5e+03      75      82 ..      10      17 ..       9      23 .. 0.83
   2 !   85.8   3.7   9.4e-29   1.7e-24      11      87 ..      43     119 .]      34     119 .] 0.93

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 0.28
                     FliE 75 nklveAYq 82
                             nk+++ Y+
  PHY93_04905|PHY93_04905 10 NKMLSGYN 17
                             89999997 PP

  == domain 2  score: 85.8 bits;  conditional E-value: 9.4e-29
                     FliE  11 aaaaasaesFasvLksaleevnetqkeaeelaeafalGesvdlhdvmialqkAslslqltvqVRnklveAYqeImrm 87 
                              +  a+  +sF+++L ++l +vn++q ea+++ e++a+G+++++h++m+a+++A+++++++ qVR k++eAY+eImrm
  PHY93_04905|PHY93_04905  43 SIGAKPPQSFSEMLATSLTDVNNMQVEANKAIEKLASGQTKNIHETMLAVENAEIAFKTMNQVRMKVIEAYKEIMRM 119
                              45566778********************************************************************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (119 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1031  (0.0575046); expected 358.6 (0.02)
Passed bias filter:                      431  (0.0240393); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.42
# Mc/sec: 853.62
//
Query:       PHY93_04910|PHY93_04910  [L=560]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.6e-64  217.2   1.8    5.1e-64  215.5   0.1    2.4  2  YscJ_FliF     Secretory protein of YscJ/FliF family
    2.1e-31  109.3   8.9      6e-31  107.8   5.8    2.3  2  YscJ_FliF_C   Flagellar M-ring protein C-terminal
  ------ inclusion threshold ------
      0.021   14.7   0.2      0.049   13.5   0.2    1.6  1  Yuri_gagarin  Yuri gagarin


Domain annotation for each model (and alignments):
>> YscJ_FliF  Secretory protein of YscJ/FliF family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  215.5   0.1   8.5e-68   5.1e-64       3     193 ..      32     220 ..      30     221 .. 0.98
   2 ?   -0.3   0.2      0.12   7.4e+02      99     149 ..     240     290 ..     231     311 .. 0.77

  Alignments for each domain:
  == domain 1  score: 215.5 bits;  conditional E-value: 8.5e-68
                YscJ_FliF   3 aaviaaivvlvlwlsrpeyevLysnlsekdaaeivekLdeegipyklsddggtilVpedqvsearlklaseglpksgssvgfelfd 88 
                              ++++aa++ +v+w+s++ y +Lys+l+++da +i+  L+e++ipy++s+dg+ti++ped v   rl++a+ g   sg +vg+e+fd
  PHY93_04910|PHY93_04910  32 CLIMAAMTGIVVWASKTRYDTLYSELNKEDARKIAILLEEKKIPYQTSNDGKTISIPEDLVGVWRLEIAKLGTSFSG-TVGYEVFD 116
                              5799*********************************************************************9999.8******* PP

                YscJ_FliF  89 kkssfgtTdfeeqvkyqralegeLartiesldgVesArVhlalPeksvfvreqkepsAsVvlklkpgrelseeqvkaIvnlVasaV 174
                               k+sfgtT+f ++v++qralege+ +ti+ ++gV++ArVh+++Pe+s fv+e+k p+AsVvl+l++g +l+++++k+I +lVas+V
  PHY93_04910|PHY93_04910 117 -KQSFGTTSFVQKVNKQRALEGEMVKTIMYIQGVKRARVHISIPESSPFVAEKKAPTASVVLELNNGVSLTPAEIKGIGSLVASSV 201
                              .899********************************************************************************** PP

                YscJ_FliF 175 pglkpenVtvvDqkgnlLs 193
                              +++ penV+++D++g+ Ls
  PHY93_04910|PHY93_04910 202 EEMRPENVVILDDRGKKLS 220
                              ****************998 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.12
                YscJ_FliF  99 eeqvkyqralegeLartiesldgVesArVhlalPeksvfvreqkepsAsVv 149
                              + ++ky++++e  L++ +   + V + +V l + e+   +++ ++   +Vv
  PHY93_04910|PHY93_04910 240 QLNQKYEKQIEDILTKVVGDGKVVAKVTVDLDFTESVATATTYDNENSAVV 290
                              567899999999999999999999999999999986655554444444444 PP

>> YscJ_FliF_C  Flagellar M-ring protein C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.0   0.0      0.04   2.4e+02     104     133 ..     172     201 ..     161     214 .. 0.88
   2 !  107.8   5.8     1e-34     6e-31       1     150 []     253     428 ..     253     428 .. 0.89

  Alignments for each domain:
  == domain 1  score: 2.0 bits;  conditional E-value: 0.04
              YscJ_FliF_C 104 sVaVvvdgkeakplsaeelaqieklvkeAv 133
                              +++Vv++ ++ ++l+++e++ i +lv+++v
  PHY93_04910|PHY93_04910 172 TASVVLELNNGVSLTPAEIKGIGSLVASSV 201
                              789999877899***************987 PP

  == domain 2  score: 107.8 bits;  conditional E-value: 1e-34
              YscJ_FliF_C   1 LepvvGpgnvrvqvsadldfsqeeqteetydpnsqvvrseqtseesssg...ee.gvpGalsnqp.aeteaaeagsnsssskseet 81 
                              L++vvG g+v+++v++dldf+++  t++tyd ++++v+se ++ ++ +g   ++ g++Ga+sn p + ++++ a+++++ +k+ +t
  PHY93_04910|PHY93_04910 253 LTKVVGDGKVVAKVTVDLDFTESVATATTYDNENSAVVSEVKNVQNVNGsrpSPqGIAGAQSNLPgEVPQPGVAETKNNVTKELTT 338
                              89******************************99999998775544444333226**********755566667777799999*** PP

              YscJ_FliF_C  82 tnYevdktvshtkkapgsikrlsVaVvvd..................g...keakplsaeelaqieklvkeAvGfdaergDsvsVv 146
                              +n +v +tv++ +k+  ++k +s+aV++d                  g    +++++s+++l+++ ++v+++ G +++rgD++ + 
  PHY93_04910|PHY93_04910 339 RNLNVPTTVTQSRKPSANVKAISAAVMIDgkriavlgedglpqldknGnaiMKYEKWSEADLQNFAQIVASTLGTSEKRGDKLVIK 424
                              *********************************99999988887765278999********************************* PP

              YscJ_FliF_C 147 nipF 150
                              n++F
  PHY93_04910|PHY93_04910 425 NMEF 428
                              **99 PP

>> Yuri_gagarin  Yuri gagarin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.2   8.2e-06     0.049     151     192 ..     499     540 ..     482     551 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 8.2e-06
             Yuri_gagarin 151 kranrrvqslqerlsqveklqeelrterkilreevialkekd 192
                               +an+r   l++ l q+e+  +  + e ++lre++ial e +
  PHY93_04910|PHY93_04910 499 VQANQRLPGLEDALPQIEEKLNPEKIEGNMLREKIIALVENN 540
                              479**************98777789*************9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (560 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       871  (0.0485805); expected 358.6 (0.02)
Passed bias filter:                      551  (0.0307323); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.63u 0.22s 00:00:00.85 Elapsed: 00:00:00.42
# Mc/sec: 4021.20
//
Query:       PHY93_04915|PHY93_04915  [L=344]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.8e-40  136.9  10.0    4.4e-38  129.8   3.3    3.3  4  FliG_C           FliG C-terminal domain
    1.4e-25   89.3   3.8    8.1e-24   83.7   0.1    3.7  4  FliG_M           FliG middle domain
    3.4e-24   85.4   5.8    1.3e-14   54.6   0.0    3.5  4  FliG_N           FliG N-terminal domain
    9.9e-08   32.5  10.3      0.012   16.2   3.5    4.7  4  MgtE_N           MgtE intracellular N domain
  ------ inclusion threshold ------
      0.064   12.9   0.2       0.24   11.1   0.1    1.8  2  Methyltrn_RNA_2  Putative SAM-dependent RNA methyltransferase
      0.073   12.7   3.2        2.2    7.9   0.0    3.0  3  Cut8             Cut8, nuclear proteasome tether protein


Domain annotation for each model (and alignments):
>> FliG_C  FliG C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.1      0.24   7.2e+02      50      85 ..      30      65 ..      21      83 .. 0.66
   2 ?   -1.2   0.1      0.78   2.3e+03      50      78 ..      85     113 ..      48     120 .. 0.78
   3 !    8.8   0.0    0.0006       1.8      20      83 ..     118     181 ..     100     193 .. 0.87
   4 !  129.8   3.3   1.5e-41   4.4e-38       2     105 ..     230     333 ..     229     336 .. 0.98

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.24
                             TS-HHHHHHHHTTS-HHHHHHHHHHHHHC-S--HHH CS
                   FliG_C 50 gaseelrekilsnmSkraaemlreelealgpvrlsd 85
                                 ++++ +++nm  +  + + + +++ ++ ++  
  PHY93_04915|PHY93_04915 30 SLGMNITQLVFQNMKDNDVKRMINAMSNVKRAPIWM 65
                             555667788888888877777777777666655555 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 0.78
                              TS-HHHHHHHHTTS-HHHHHHHHHHHHHC CS
                   FliG_C  50 gaseelrekilsnmSkraaemlreeleal 78 
                               a+++ r++i++ + + +a++l  ++ + 
  PHY93_04915|PHY93_04915  85 FAENRGRDFIINTLGEDRAKQLLGQIVEV 113
                              56777788888888888888877666555 PP

  == domain 3  score: 8.8 bits;  conditional E-value: 0.0006
                              -GGGGGGS-HHHHHHHHTTS-HHHHHHHHCTS-HHHHHHHHTTS-HHHHHHHHHHHHHC-S--H CS
                   FliG_C  20 tfedlvrlddraiqrllrevdkedLalaLkgaseelrekilsnmSkraaemlreelealgpvrl 83 
                              t e l  +d+r++ ++l + +++++al  +  ++e +  +l+ +++  ++++   +++l  v++
  PHY93_04915|PHY93_04915 118 TLESLELVDTRTLSNFLINEHPQTIALIVAHLNPERKVDVLRRLPEGLQAEVVLRVANLDYVSP 181
                              78999***************************************99888877777666666665 PP

  == domain 4  score: 129.8 bits;  conditional E-value: 1.5e-41
                              HHHHH-HHHHHHHHHHHS-GGGGGGS-HHHHHHHHTTS-HHHHHHHHCTS-HHHHHHHHTTS-HHHHHHHHHHHHHC-S--HHHHH CS
                   FliG_C   2 sLeeedpelaeeirkkmftfedlvrlddraiqrllrevdkedLalaLkgaseelrekilsnmSkraaemlreelealgpvrlsdve 87 
                              ++ee+dpelaeeirk+mftfedl+ +dd++iq+llrevd+ +L++a+k a++e+++k+++nmS+raa  l+e+lealgp +lsdve
  PHY93_04915|PHY93_04915 230 RVEEKDPELAEEIRKLMFTFEDLMYVDDKGIQNLLREVDNGKLVIAMKTAPDEIKQKLFKNMSNRAATLLKEDLEALGPTKLSDVE 315
                              579*********************************************************************************** PP

                              HHHHHHHHHHHHHHCTTS CS
                   FliG_C  88 eaqkeivaiirrleeeGe 105
                              +aq e+v+  ++le +G+
  PHY93_04915|PHY93_04915 316 KAQAEMVQKTKELESQGK 333
                              ****************97 PP

>> FliG_M  FliG middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.9   0.0     0.043   1.3e+02      32      68 ..      40      73 ..      24      81 .. 0.58
   2 ?   -3.5   0.0       4.4   1.3e+04      32      50 ..      95     113 ..      94     118 .. 0.59
   3 !   83.7   0.1   2.7e-27   8.1e-24       2      74 ..     128     200 ..     127     202 .. 0.97
   4 ?    1.2   0.1      0.14   4.3e+02      29      62 ..     213     243 ..     210     252 .. 0.72

  Alignments for each domain:
  == domain 1  score: 2.9 bits;  conditional E-value: 0.043
                             HHTS-HHHHHHHHHHHHTCCTCSHHHHHHHHHHHHHH CS
                   FliG_M 32 LseLpeelraevirriatlekvspevlkeveevLekk 68
                             +++++    ++v r i  +++v+ + +  v++vLe+ 
  PHY93_04915|PHY93_04915 40 FQNMK---DNDVKRMINAMSNVKRAPIWMVKRVLEDF 73
                             44444...45666666666666666666666666654 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 4.4
                              HHTS-HHHHHHHHHHHHTC CS
                   FliG_M  32 LseLpeelraevirriatl 50 
                              ++ L e+++++++ +i++ 
  PHY93_04915|PHY93_04915  95 INTLGEDRAKQLLGQIVEV 113
                              5566666666666666655 PP

  == domain 3  score: 83.7 bits;  conditional E-value: 2.7e-27
                              HHHHHHHTTS-HHHHHHHHHTS-HHHHHHHHHTS-HHHHHHHHHHHHTCCTCSHHHHHHHHHHHHHHCHHHHH CS
                   FliG_M   2 kqlanllknEhPqtiAliLsyLdpeqAAevLseLpeelraevirriatlekvspevlkeveevLekklssvga 74 
                              ++l n+l nEhPqtiAli ++L+pe+  +vL +Lpe l+aev++r+a+l+ vspe ++++++vL+++ls++g+
  PHY93_04915|PHY93_04915 128 RTLSNFLINEHPQTIALIVAHLNPERKVDVLRRLPEGLQAEVVLRVANLDYVSPELISQLDDVLKTELSTLGS 200
                              6899*****************************************************************9986 PP

  == domain 4  score: 1.2 bits;  conditional E-value: 0.14
                              HHHHHTS-HHHHHHHHHHHHTCCTCSHHHHHHHH CS
                   FliG_M  29 AevLseLpeelraevirriatlekvspevlkeve 62 
                              A++L+ ++++  ++++ r+   e+ +pe  +e+ 
  PHY93_04915|PHY93_04915 213 ADMLNLMDKNTEKNIMSRV---EEKDPELAEEIR 243
                              7888999999999998886...444555555555 PP

>> FliG_N  FliG N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.6   0.0   4.3e-18   1.3e-14       2     102 ..      18     117 ..      17     119 .. 0.94
   2 !   28.7   0.0   4.9e-10   1.5e-06       4      98 ..     138     234 ..     137     237 .. 0.95
   3 ?   -0.8   0.1      0.74   2.2e+03      31      58 ..     241     268 ..     239     304 .. 0.55
   4 ?    2.8   0.5     0.056   1.7e+02      18      72 ..     282     333 ..     269     340 .. 0.64

  Alignments for each domain:
  == domain 1  score: 54.6 bits;  conditional E-value: 4.3e-18
                              XXHHHHHHHHHHHCXHHHHHHHHTTSXHHHHHHHHHHHHCHTTXXHHHHHHHHHHHHHHHHCCCCHHCHHHHHHHHHHHHHHSHHH CS
                   FliG_N   2 LsgvqkaAilllaLgeeeaaevlkhLdeeeiekltkeiaslksvskeeveaVleefleeleaqeylseggeeyarelLekalgeek 87 
                              L+g ++a +ll +Lg + ++ v+++++++++++++++++++k+ +  +v++Vle+f+++l+++++l    e+  r+ + ++lge++
  PHY93_04915|PHY93_04915  18 LNGSDRAGLLLSSLGMNITQLVFQNMKDNDVKRMINAMSNVKRAPIWMVKRVLEDFYQQLNEENDLLFA-ENRGRDFIINTLGEDR 102
                              8999***********************************************************999987.677788999******* PP

                              HHHHCHHHHXXXXXT CS
                   FliG_N  88 aeellerltaeaqek 102
                              a++ll ++++  q++
  PHY93_04915|PHY93_04915 103 AKQLLGQIVEVGQSN 117
                              ********9877665 PP

  == domain 2  score: 28.7 bits;  conditional E-value: 4.9e-10
                              HHHHHHHHHHHCXHHHHHHHHTTSXHHHHHHHHHHHHCHTTXXHH...HHHHHHHHHHHHHHCCCCHHCHHHHHHHHHHHHHHSHH CS
                   FliG_N   4 gvqkaAilllaLgeeeaaevlkhLdeeeiekltkeiaslksvske...eveaVleefleeleaqeylseggeeyarelLekalgee 86 
                              ++q +A++++ L +e+   vl++L+e  +++++ ++a+l+ vs+e   ++++Vl+  l++l + ++   gg e + ++L+  ++++
  PHY93_04915|PHY93_04915 138 HPQTIALIVAHLNPERKVDVLRRLPEGLQAEVVLRVANLDYVSPElisQLDDVLKTELSTLGSIDTNQLGGVEPIADMLNL-MDKN 222
                              68999****************************************999*******************************87.9*** PP

                              HHHHHCHHHHXX CS
                   FliG_N  87 kaeellerltae 98 
                              + +++++r++++
  PHY93_04915|PHY93_04915 223 TEKNIMSRVEEK 234
                              *******99865 PP

  == domain 3  score: -0.8 bits;  conditional E-value: 0.74
                              HHHHHHHHHHCHTTXXHHHHHHHHHHHH CS
                   FliG_N  31 eiekltkeiaslksvskeeveaVleefl 58 
                              ei+kl+ +   l  v+ + ++++l+e  
  PHY93_04915|PHY93_04915 241 EIRKLMFTFEDLMYVDDKGIQNLLREVD 268
                              5555555555555555555555555543 PP

  == domain 4  score: 2.8 bits;  conditional E-value: 0.056
                              HHHHHHHTTSXHHHHHHHHHHHHCHTTXXHHHHHHHHHHHHHHHHCCCCHHCHHH CS
                   FliG_N  18 eeaaevlkhLdeeeiekltkeiaslksvskeeveaVleefleeleaqeylsegge 72 
                              e  ++++k+++ +  + l + +  l+  + ++ve+  +e +++   +++l ++g+
  PHY93_04915|PHY93_04915 282 EIKQKLFKNMSNRAATLLKEDLEALGPTKLSDVEKAQAEMVQK---TKELESQGK 333
                              6667888888888888888877777666666666555555544...444444444 PP

>> MgtE_N  MgtE intracellular N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.0   0.0    0.0062        19      31      64 ..      25      58 ..      15      82 .. 0.60
   2 ?   -0.3   0.0      0.54   1.6e+03      45      60 ..      94     109 ..      86     137 .. 0.57
   3 !   16.2   3.5     4e-06     0.012       2      96 ..     138     245 ..     130     251 .. 0.80
   4 !    9.0   0.1   0.00072       2.2      50      95 ..     256     301 ..     250     304 .. 0.84

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.0062
                             HHHHCTS-CCCCCHHHHCS-HHHHHHHHCCS-HH CS
                   MgtE_N 31 aevleeldedlqeeliealsdeelaelleeldsD 64
                             + +l+ l  ++ + ++++++d +++++++ +++ 
  PHY93_04915|PHY93_04915 25 GLLLSSLGMNITQLVFQNMKDNDVKRMINAMSNV 58
                             4444444444444555555555555555555443 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.54
                              HHHCS-HHHHHHHHCC CS
                   MgtE_N  45 liealsdeelaellee 60 
                              +i++l ++++++ll +
  PHY93_04915|PHY93_04915  94 IINTLGEDRAKQLLGQ 109
                              4444444444444433 PP

  == domain 3  score: 16.2 bits;  conditional E-value: 4e-06
                              -HHHHHHCHCCS-HHHHHHHHHHS-HHHHHHHHCTS-..CCCCCHHHHCS-HHHHHHH..HCCS-HHH......HHHHHCCCHHHH CS
                   MgtE_N   2 hpadiaelleelpeeeraallrllpkeeaaevleeld..edlqeeliealsdeelael..leeldsDd......aadlleelpeek 77 
                              hp+ ia ++ +l++e+ + +lr+lp+  +aev   +   + +  eli++l+d   +el  l  +d+ +      +ad+l+ +++++
  PHY93_04915|PHY93_04915 138 HPQTIALIVAHLNPERKVDVLRRLPEGLQAEVVLRVAnlDYVSPELISQLDDVLKTELstLGSIDTNQlggvepIADMLNLMDKNT 223
                              9******************************9999887566999*******998888522566776653333336888******** PP

                              HHHHHHCS...-HHHHHHHHHH CS
                   MgtE_N  78 veellsal...deeereeieel 96 
                               ++++s+    d+e +eei++l
  PHY93_04915|PHY93_04915 224 EKNIMSRVeekDPELAEEIRKL 245
                              *****88733355556666666 PP

  == domain 4  score: 9.0 bits;  conditional E-value: 0.00072
                              -HHHHHHHHCCS-HHHHHHHHCCCHHHHHHHHHHCS-HHHHHHHHH CS
                   MgtE_N  50 sdeelaelleeldsDdaadlleelpeekveellsaldeeereeiee 95 
                              +d+ +++ll e d+ +++  ++  p+e++++l+++++   ++ ++e
  PHY93_04915|PHY93_04915 256 DDKGIQNLLREVDNGKLVIAMKTAPDEIKQKLFKNMSNRAATLLKE 301
                              7788899999999999999999999999999999999888877765 PP

>> Methyltrn_RNA_2  Putative SAM-dependent RNA methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.0       0.5   1.5e+03      91     137 ..      47      92 ..      34     100 .. 0.75
   2 ?   11.1   0.1   7.9e-05      0.24      78     140 ..     222     285 ..     212     293 .. 0.87

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 0.5
                              HCHCCTGCCSEEEEETTEEEE---HHHHHHHHHCTSEEEEESTTSEE CS
          Methyltrn_RNA_2  91 lkaveeikkqekkvrpgltVrkegfealleelsekksiillkekGed 137
                              + ++ +i+   ++ r+ +   k+ +e+  ++l+e++ +++ ++ G d
  PHY93_04915|PHY93_04915  47 DVKR-MINAMSNVKRAPIWMVKRVLEDFYQQLNEENDLLFAENRGRD 92 
                              4333.777777888888888899999999999999988888888877 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 7.9e-05
                              SSHHHHHHHHHHHHCHCC.TGCCSEEEEETTEEEE---HHHHHHHHHCTSEEEEESTTSEEGGG CS
          Methyltrn_RNA_2  78 pderniailikkalkave.eikkqekkvrpgltVrkegfealleelsekksiillkekGedisn 140
                              + e+ni+  + + + +   ei+k + + +  ++V ++g+++ll e+ + k +i++k   ++i++
  PHY93_04915|PHY93_04915 222 NTEKNIMSRVEEKDPELAeEIRKLMFTFEDLMYVDDKGIQNLLREVDNGKLVIAMKTAPDEIKQ 285
                              4589999999999877666999999999****************************99988876 PP

>> Cut8  Cut8, nuclear proteasome tether protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.2      0.27     8e+02      55      91 ..     117     154 ..     102     170 .. 0.74
   2 ?    7.9   0.0   0.00072       2.2      52      90 ..     211     249 ..     200     258 .. 0.92
   3 ?    3.4   0.0     0.017        49     178     227 ..     282     327 ..     278     336 .. 0.68

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 0.27
                     Cut8  55 rlLetLdkeqLqsllqslveehpeleqevskka.pkps 91 
                              + Le+L+  + ++l + l++ehp+    +++++ p+ +
  PHY93_04915|PHY93_04915 117 NTLESLELVDTRTLSNFLINEHPQTIALIVAHLnPERK 154
                              56777777777777788999999988777777645444 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.00072
                     Cut8  52 plsrlLetLdkeqLqsllqslveehpeleqevskkapkp 90 
                              p+  +L+++dk++ ++++ ++ e++pel +e++k + ++
  PHY93_04915|PHY93_04915 211 PIADMLNLMDKNTEKNIMSRVEEKDPELAEEIRKLMFTF 249
                              78999*****************************99766 PP

  == domain 3  score: 3.4 bits;  conditional E-value: 0.017
                     Cut8 178 yykdkcyeqlsnawltvikeaakdgggllkkleleeweekLkkhneeseg 227
                              ++k+k+++++sn  +t++ke+ +     l+ ++l+++e+  +++ +++++
  PHY93_04915|PHY93_04915 282 EIKQKLFKNMSNRAATLLKEDLEA----LGPTKLSDVEKAQAEMVQKTKE 327
                              589****************84444....2344555555555555555544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (344 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       839  (0.0467957); expected 358.6 (0.02)
Passed bias filter:                      490  (0.02733); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.53u 0.25s 00:00:00.78 Elapsed: 00:00:00.41
# Mc/sec: 2523.30
//
Query:       PHY93_04920|PHY93_04920  [L=265]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-12   47.9   1.5    1.3e-12   47.9   1.5    1.8  2  FliH      Flagellar assembly protein FliH
  ------ inclusion threshold ------
       0.17   12.3   1.8       0.41   11.1   1.8    1.6  1  HMG_box   HMG (high mobility group) box


Domain annotation for each model (and alignments):
>> FliH  Flagellar assembly protein FliH
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.0      0.21   1.9e+03      57      76 ..      47      66 ..      37     100 .. 0.72
   2 !   47.9   1.5   1.4e-16   1.3e-12       2     127 ..     127     255 ..     126     256 .. 0.93

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.21
                             HHHHTTSCHHHS-EEEEE-H CS
                     FliH 57 realaklpvdekkitlrvnp 76
                             +++++++  ++k+ + +vnp
  PHY93_04920|PHY93_04920 47 QKVIKEERTHAKNSQFKVNP 66
                             56666666667777777766 PP

  == domain 2  score: 47.9 bits;  conditional E-value: 1.4e-16
                              ...HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS--S-HHHHHHHHHHHHTTSCHHHS-EEEEE-HHHHHHHHHHHH CS
                     FliH   2 eeqarlaalleelenslaeldeeledqlvqlaldiarkvikkelsvdpekilalvrealaklpvdekkitlrvnpdDlelvrehlg 87 
                              ++ ++++++++e+ ++ + + ++ ++++  l  ++++ +i +el++d + ++ l++++l  +++ ++++ + vnp+D+  + e l 
  PHY93_04920|PHY93_04920 127 QKLDNFSQMVTEVLKTQDVILAQQKKEIYLLLRNLTKWIIIRELKEDGKYVERLLEKLL-LEIQARNNLLIQVNPNDFGGMPEVLA 211
                              6678899999999999999****************************************.*****************999888888 PP

                              HHHHHCT-....EEEE-TTS-TT-EEEEESSCEEEHHHHHHHHH CS
                     FliH  88 eelsargw....rlvaDsslsrGgcrieseegeiDatietRlkk 127
                               + s+ g     r+  Ds++   g ++es++g i+at+e+++k 
  PHY93_04920|PHY93_04920 212 HVQSRLGElknvRIEIDSAILTSGMIVESDNGIINATMEEQFKS 255
                              777777777779*****************************997 PP

>> HMG_box  HMG (high mobility group) box
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   1.8   4.5e-05      0.41      13      61 ..      44      93 ..      41      99 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 4.5e-05
                             HHHHHHHHHHSTTS-HHHHHHH.HHHHHHHSHHHHHHHHHHHHHHHHHHH CS
                  HMG_box 13 keqraklkaenPelknaeiskk.lgekWkalseeeKkkYeekaekekary 61
                             +e ++ +k+e +++kn++ ++  + ek++ l+++e ++Y+++ eke  r 
  PHY93_04920|PHY93_04920 44 NEFQKVIKEERTHAKNSQFKVNpIVEKYRGLKDQEEQEYQAAVEKEVVRR 93
                             688999************9875599********************98875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (265 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1664  (0.0928105); expected 358.6 (0.02)
Passed bias filter:                      563  (0.0314016); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.20s 00:00:00.73 Elapsed: 00:00:00.40
# Mc/sec: 1966.66
//
Query:       PHY93_04925|PHY93_04925  [L=446]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.4e-73  247.1   0.4    1.8e-73  246.7   0.4    1.2  1  ATP-synt_ab    ATP synthase alpha/beta family, nucleotide-bin
    1.2e-21   76.3   0.1    2.1e-21   75.6   0.1    1.4  1  T3SS_ATPase_C  T3SS EscN ATPase C-terminal domain
    0.00065   20.2   1.3     0.0031   18.0   0.0    2.6  3  ATP-synt_ab_N  ATP synthase alpha/beta family, beta-barrel do
  ------ inclusion threshold ------
      0.096   12.8   0.2       0.23   11.5   0.2    1.6  1  DUF87          Helicase HerA, central domain
       0.18   12.3   0.0       0.33   11.5   0.0    1.5  1  ABC_tran       ABC transporter


Domain annotation for each model (and alignments):
>> ATP-synt_ab  ATP synthase alpha/beta family, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  246.7   0.4   5.1e-77   1.8e-73       1     213 []     149     359 ..     149     359 .. 0.99

  Alignments for each domain:
  == domain 1  score: 246.7 bits;  conditional E-value: 5.1e-77
                              SSHHHHHHS-EBTT-EEEEEESTTSSHHHHHHHHHHHSSTSSEEEEEEESEEHHHHHHHHHHCHHSSGGGGEEEEEEETTS-HHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              ATP-synt_ab   1 GirvlDalfpivqGqrtlipgafgvGktvisqslskqsnsddaiiyvgiGergnevaevleefpegtimkrtvlvantsnepvaar 86 
                              Gi++++++++ ++Gqr +i++++gvGk+v + +++++s+sd + ++++iGerg+ev e++e+    + +kr+v+v++ts+++++ r
  PHY93_04925|PHY93_04925 149 GIHAINCFMTAGKGQRFAIMAGSGVGKSVTLGMIAENSSSD-VNVIALIGERGREVLEFIETDLGPEGLKRSVVVVATSDSSALIR 233
                              899**********************************9998.******************************************** PP

                              HHHHHHHHHHHHHHHHTTSEEEEEEETHHHHHHHHHHHHHHTTTSBEGGGSBTTHHHHHHHHHTTSEEETSSEEEEEEEEEEE-GG CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              ATP-synt_ab  87 easiytgitlAEyfrdqgknvlliadslsrwaeAlreislrlgempadqgypaylgaklaslyERagkapdrtGsvtivaavspag 172
                              ++++y+++t+AEyfrd++++vll++ds++r+a+A reisl++ge+p+++gy+++++a+l++l+ERag+     Gs+t +++v ++g
  PHY93_04925|PHY93_04925 234 MKAAYVATTIAEYFRDRNQDVLLMMDSITRFAMANREISLSAGEPPGQKGYTPSVFARLPKLMERAGTKA-GAGSITGIYTVLVEG 318
                              *******************************************************************995.67************* PP

                              CSTTSHHHHHHHHHSSEEEEB-HHHHHTTBSSSBCTTTEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              ATP-synt_ab 173 gDfsdpvttatlgitdgfivLdkklaqrkhfPainvlvSvS 213
                              gD+++p+++a+++i dg+i+L+++la+r++fPai+vl+S+S
  PHY93_04925|PHY93_04925 319 GDMDEPIADAVRAIADGHIILSRELASRNQFPAIDVLASLS 359
                              ***************************************98 PP

>> T3SS_ATPase_C  T3SS EscN ATPase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   75.6   0.1   5.7e-25   2.1e-21       2      71 ..     367     438 ..     366     439 .. 0.94

  Alignments for each domain:
  == domain 1  score: 75.6 bits;  conditional E-value: 5.7e-25
            T3SS_ATPase_C   2 spehlqaarklrellatyqenedLiniGaYkkGsdpelDeAiakrpainafLkQ..gvdekvsfeetlaqLk 71 
                              ++eh+  a++lr+lla y+ nedLin+GaY+kGs+p++D+Ai ++++++++L+Q  g++e  ++e+ ++++ 
  PHY93_04925|PHY93_04925 367 TKEHKIVASHLRDLLASYKANEDLINVGAYAKGSNPKVDKAILIYEDLMSLLRQnqGMTEFLPIETLYDRMV 438
                              89***************************************************9778999999999998885 PP

>> ATP-synt_ab_N  ATP synthase alpha/beta family, beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.0   8.5e-07    0.0031      23      66 ..      47      87 ..      21      88 .. 0.78
   2 ?   -0.6   0.0      0.55     2e+03      32      53 ..     174     195 ..     148     200 .. 0.71
   3 ?   -4.0   0.0         5   1.8e+04      57      68 ..     214     225 ..     213     225 .. 0.82

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 8.5e-07
                             EEEEECCETCSTEEEEEEEEEETTEEEEEESS-STTBBTTSEEE CS
            ATP-synt_ab_N 23 nalevelvefgtlllgvalnlgedkVrvivmgstdGlsrGteVk 66
                             +   +   efg+  lg+++++ ++++ ++++++ +G+   t+V+
  PHY93_04925|PHY93_04925 47 VEFVT---EFGDRSLGEVVGINGTRCMAMPYDELSGINSETRVY 87
                             33344...49****************************999985 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.55
                              CSTEEEEEEEEEETTEEEEEES CS
            ATP-synt_ab_N  32 fgtlllgvalnlgedkVrvivm 53 
                              +++++lg++ + +   V vi++
  PHY93_04925|PHY93_04925 174 GKSVTLGMIAENSSSDVNVIAL 195
                              58999***99999999998887 PP

  == domain 3  score: -4.0 bits;  conditional E-value: 5
                              TTBBTTSEEEEE CS
            ATP-synt_ab_N  57 dGlsrGteVkrT 68 
                              +Gl+r   V+ T
  PHY93_04925|PHY93_04925 214 EGLKRSVVVVAT 225
                              699999999877 PP

>> DUF87  Helicase HerA, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.2   6.3e-05      0.23      24      48 ..     163     187 ..     162     196 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 6.3e-05
                    DUF87  24 rHlAilgsTGsGKSntvavLleell 48 
                              +++Ai++ +G+GKS t + + e+  
  PHY93_04925|PHY93_04925 163 QRFAIMAGSGVGKSVTLGMIAENSS 187
                              68*****************998766 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   9.3e-05      0.33       7      42 ..     158     193 ..     154     277 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 9.3e-05
                              EEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran   7 klkegekvaivGenGaGKStLlkllagllkpteGei 42 
                              +  +g++ ai+  +G GKS  l ++a++++ +   i
  PHY93_04925|PHY93_04925 158 TAGKGQRFAIMAGSGVGKSVTLGMIAENSSSDVNVI 193
                              6679**********************9998776666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (446 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       399  (0.0222544); expected 358.6 (0.02)
Passed bias filter:                      370  (0.020637); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.43
# Mc/sec: 3102.85
//
Query:       PHY93_17350|PHY93_17350  [L=77]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (77 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       348  (0.0194099); expected 358.6 (0.02)
Passed bias filter:                      304  (0.0169558); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.25s 00:00:00.65 Elapsed: 00:00:00.41
# Mc/sec: 559.29
//
Query:       PHY93_04930|PHY93_04930  [L=149]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.8e-08   33.0   5.0    6.9e-08   32.7   5.0    1.1  1  FliJ      Flagellar FliJ protein


Domain annotation for each model (and alignments):
>> FliJ  Flagellar FliJ protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.7   5.0   3.9e-12   6.9e-08       2     122 ..      21     142 ..      20     143 .. 0.93

  Alignments for each domain:
  == domain 1  score: 32.7 bits;  conditional E-value: 3.9e-12
                     FliJ   2 eaareLaeaqrelqqaeekleeleqyrqeyqkqlsgeaq.glsaaelrnyqafisaldeaiaqqkqelaqaekqvekareewqear 86 
                              +++ eL+e+ +e+++ e k++  ++ ++e  + +   ++   +   l+ +  fi+  +e+i+  ++ l  ++k+ + +  e+ +ar
  PHY93_04930|PHY93_04930  21 KIKIELGEILKEINEVEGKIALANKAIDETYEAQDVFMKdSSAGRMLQFFPYFIQGKKEEIKNKENLLWALKKKYDVKVTELAAAR 106
                              6799*************************97777777754889999999************************************* PP

                     FliJ  87 qerkklekLkerekkeeqkeenrrEqkqlDElalrr 122
                               ++k +e  ke++  e+++e n++E  ++ E+ ++r
  PHY93_04930|PHY93_04930 107 GQVKVMENFKEKKLGEYNRERNKKEMEAIEEILMMR 142
                              ****************************99998886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (149 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1202  (0.0670422); expected 358.6 (0.02)
Passed bias filter:                      341  (0.0190195); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.20s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 1160.48
//
Query:       PHY93_04935|PHY93_04935  [L=187]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    2.8e-05   24.6   3.2    3.4e-05   24.4   0.2    2.1  2  MgtE_N     MgtE intracellular N domain
    6.8e-05   23.0   1.4     0.0085   16.3   0.1    2.6  3  FliG_M     FliG middle domain
    9.1e-05   22.6   5.3     0.0002   21.5   5.3    1.5  1  IFT20      Intraflagellar transport complex B, subunit 20
  ------ inclusion threshold ------
      0.014   15.8   4.6       0.03   14.7   4.6    1.6  1  CLZ        C-terminal leucine zipper domain of cyclic nucleot
        0.1   12.5   0.0       0.23   11.4   0.0    1.6  1  Anophelin  Thrombin inhibitor from mosquito


Domain annotation for each model (and alignments):
>> MgtE_N  MgtE intracellular N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.3      0.24   8.5e+02      71      85 ..      67      81 ..      39     103 .. 0.54
   2 !   24.4   0.2   9.6e-09   3.4e-05      42      95 ..     129     182 ..     123     184 .. 0.92

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.24
                             CCCHHHHHHHHHHCS CS
                   MgtE_N 71 eelpeekveellsal 85
                             +el +++ +  +++l
  PHY93_04935|PHY93_04935 67 KELLDKEEAVKVKEL 81
                             333333222222222 PP

  == domain 2  score: 24.4 bits;  conditional E-value: 9.6e-09
                              CCHHHHCS-HHHHHHHHCCS-HHHHHHHHCCCHHHHHHHHHHCS-HHHHHHHHH CS
                   MgtE_N  42 qeeliealsdeelaelleeldsDdaadlleelpeekveellsaldeeereeiee 95 
                                e+i+ ++++ +a++l+  d+D  + +l +l+++k++++++++d+e ++++++
  PHY93_04935|PHY93_04935 129 MVEVIAGMKPQSAADVLSVQDPDLSVRILGQLEAQKASKIFNLMDKEVSARLQK 182
                              67999******************************************9998875 PP

>> FliG_M  FliG middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       1.4   5.2e+03      45      67 ..      34      56 ..      33      60 .. 0.77
   2 !   16.3   0.1   2.4e-06    0.0085       3      44 ..     128     169 ..     126     174 .. 0.92
   3 !   12.6   0.2   3.4e-05      0.12       4      43 ..     141     180 ..     138     187 .] 0.66

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 1.4
                             HHHHTCCTCSHHHHHHHHHHHHH CS
                   FliG_M 45 rriatlekvspevlkeveevLek 67
                             +r  t e+ +++v+ e e++++k
  PHY93_04935|PHY93_04935 34 KRTYTEEEFKKAVMVEAEKLMKK 56
                             67777788888899898888887 PP

  == domain 2  score: 16.3 bits;  conditional E-value: 2.4e-06
                              HHHHHHTTS-HHHHHHHHHTS-HHHHHHHHHTS-HHHHHHHH CS
                   FliG_M   3 qlanllknEhPqtiAliLsyLdpeqAAevLseLpeelraevi 44 
                              q ++++++ +Pq +A +Ls  dp+ + ++L +L+ ++++++ 
  PHY93_04935|PHY93_04935 128 QMVEVIAGMKPQSAADVLSVQDPDLSVRILGQLEAQKASKIF 169
                              78999******************************9999886 PP

  == domain 3  score: 12.6 bits;  conditional E-value: 3.4e-05
                              HHHHHTTS-HHHHHHHHHTS-HHHHHHHHHTS-HHHHHHH CS
                   FliG_M   4 lanllknEhPqtiAliLsyLdpeqAAevLseLpeelraev 43 
                               a++l+   P     iL +L++++A+++++ +++e++a++
  PHY93_04935|PHY93_04935 141 AADVLSVQDPDLSVRILGQLEAQKASKIFNLMDKEVSARL 180
                              4556666666666677888888888888888888777765 PP

>> IFT20  Intraflagellar transport complex B, subunit 20
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   5.3   5.6e-08    0.0002       4      59 ..      70     125 ..      69     132 .. 0.96

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 5.6e-08
                    IFT20   4 fDelnkiRvldpevaeeteelkeeckeFvkkinefqklvkelievleelakkveke 59 
                              +D+++ ++v + +v +e e+lk + ++F kk+ efq+  k+++  ++++ +kvek+
  PHY93_04935|PHY93_04935  70 LDKEEAVKVKELNVQKEQEQLKLNMNDFQKKVVEFQESQKKFLGCIDSQNDKVEKR 125
                              79****************************************************95 PP

>> CLZ  C-terminal leucine zipper domain of cyclic nucleotide-gated channels
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   4.6   8.3e-06      0.03       6      68 ..      67     129 ..      62     131 .. 0.95

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 8.3e-06
                      CLZ   6 reILlKdglLDeeaakagaeqkeleekverLessLeaLqtrlarLlaeyessqrkLkqRitkL 68 
                              +e+L K+     ++ + ++eq++l+ +++ +++++  +q   +++l+  +s + k ++Ri+++
  PHY93_04935|PHY93_04935  67 KELLDKEEAVKVKELNVQKEQEQLKLNMNDFQKKVVEFQESQKKFLGCIDSQNDKVEKRISQM 129
                              799999999999999999******************************************986 PP

>> Anophelin  Thrombin inhibitor from mosquito
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   6.3e-05      0.23       4      40 ..       3      44 ..       1      51 [. 0.85

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 6.3e-05
                             XXXXXXXXXXXXXXXXXXXXXXXXXXXX......XXXXXXXXX CS
                Anophelin  4 klfvlaflclalvvvvqsapqyarGdvp......tydeedfde 40
                             klf l fl la+   v +ap  a+  vp      ty ee+f +
  PHY93_04935|PHY93_04935  3 KLF-LCFLLLAITSQVFAAPTPAKAAVPagpvkrTYTEEEFKK 44
                             666.89*********************9777777799998865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (187 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1935  (0.107926); expected 358.6 (0.02)
Passed bias filter:                      570  (0.0317921); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.42
# Mc/sec: 1324.99
//
Query:       PHY93_04940|PHY93_04940  [L=316]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      0.006   16.8   0.1      0.012   15.9   0.1    1.6  1  Archease  Archease protein family (MTH1598/TM1083)
  ------ inclusion threshold ------
       0.21   12.0   6.4      0.039   14.4   2.2    1.8  3  T4SS      Type IV secretion system proteins


Domain annotation for each model (and alignments):
>> Archease  Archease protein family (MTH1598/TM1083)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.1   1.3e-06     0.012       6     111 ..      25     176 ..      21     198 .. 0.73

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 1.3e-06
                              -SSEEEEEEE-SSSHHHHHHHHHHHHHHHS--TT---S-EEEEEEEESSSHHHHHHHHHHHHHHHHHT......--S----EE... CS
                 Archease   6 htADviieawGksleeafesaalalfeymtdlskvepkeekeieveaedledlLfdfLdellylfdte......yfvfkevkv... 82 
                               +A+ +++++G s+e a es+  +++++++ l    ++ +k+ +v+++d+++   d L++ll + + e       +v++ v+    
  PHY93_04940|PHY93_04940  25 AKAEAGVAVEGASVEGAAESTNGGFAALFATLTGKGKNASKSSDVKSSDVKSETGDTLKNLLTEKNKEktdgkaGVVVEVVDSkvs 110
                              57999**************************999899999*************************999666665444444433777 PP

                              .....................................EE.E-SSSEEEEEEEE----.-TT----- CS
                 Archease  83 .....................................deeeeeeeleleaeargekfdkekhevqt 111
                                                                   +++ee++e+e    ++ge+ +k +h+++ 
  PHY93_04940|PHY93_04940 111 qaliekdnsenvqgkveqkisktssnldqllnglkgtQDTEESKETENANPLQGERTKKGEHQIKS 176
                              788777666666666666666555555555555544322244455555555666666555565555 PP

>> T4SS  Type IV secretion system proteins
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   2.2   4.3e-06     0.039      72     163 ..      68     159 ..      48     165 .. 0.75
   2 ?   -2.5   0.0      0.64   5.7e+03     113     146 ..     213     246 ..     182     259 .. 0.55
   3 ?   -2.7   0.0      0.71   6.4e+03      52      91 ..     263     294 ..     242     305 .. 0.63

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 4.3e-06
                     T4SS  72 dlvksggasgslssaaqslrdknkvydvcalltskeqas........kaceqaankaaqdkalaeqaydkankrlkqiqkLadqin 149
                              d+ +s+  +++ ++++++l+ + +  +++ +       +        ++++qa++++ ++  +  ++++k++k+ +++++L + ++
  PHY93_04940|PHY93_04940  68 DVKSSDV-KSETGDTLKNLLTEKNKEKTDGK-------AgvvvevvdSKVSQALIEKDNSENVQGKVEQKISKTSSNLDQLLNGLK 145
                              3333333.66677777777766666666633.......022233446889999********************************* PP

                     T4SS 150 natDpKeiaDLqaR 163
                               ++D  e+ +  ++
  PHY93_04940|PHY93_04940 146 GTQDTEESKETENA 159
                              ******99998775 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 0.64
                     T4SS 113 ceqaankaaqdkalaeqaydkankrlkqiqkLad 146
                               ++++  a     ++e+ ++k + +l+ ++ Lad
  PHY93_04940|PHY93_04940 213 GQKKVMTAEDYLKNMESSEKKGSGKLALLNGLAD 246
                              3333333333445555555666666666666655 PP

  == domain 3  score: -2.7 bits;  conditional E-value: 0.71
                     T4SS  52 alLndpklrkllPaewqdvkdlvksggasgslssaaqslr 91 
                              alL+dp +++       + + ++k+g  +g+ +sa+++lr
  PHY93_04940|PHY93_04940 263 ALLSDPLIKN-------TKDLAFKEGK-KGNSASAIDELR 294
                              4566666666.......3333444444.666666665555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (316 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1435  (0.0800379); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.44
# Mc/sec: 2151.53
//
Query:       PHY93_16030|PHY93_16030  [L=198]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.9e-41  139.5   0.0    1.1e-40  139.2   0.0    1.0  1  CoaE             Dephospho-CoA kinase
    1.4e-07   32.1   0.1    2.9e-07   31.1   0.1    1.6  1  AAA_18           AAA domain
    2.8e-05   24.3   0.4      0.088   12.9   0.1    2.2  2  Cytidylate_kin2  Cytidylate kinase-like family
    0.00011   22.5   0.1     0.0014   18.9   0.0    2.1  2  AAA_28           AAA domain
     0.0008   19.8   0.0      0.002   18.6   0.0    1.7  1  AAA_17           AAA domain
     0.0013   18.5   2.4      0.013   15.3   2.3    2.1  1  PRK              Phosphoribulokinase / Uridine kinase family
  ------ inclusion threshold ------
      0.022   14.9   0.0       0.04   14.0   0.0    1.4  1  Sigma54_activ_2  Sigma-54 interaction domain
      0.028   14.3   1.3        0.2   11.5   1.3    2.3  1  dNK              Deoxynucleoside kinase
      0.029   14.5   0.0       0.13   12.4   0.0    1.9  2  SKI              Shikimate kinase
      0.051   13.7   0.0       0.11   12.7   0.0    1.7  1  AAA_33           AAA domain
      0.062   13.8   0.0      0.075   13.5   0.0    1.4  1  ABC_tran         ABC transporter
       0.08   12.7   0.1       0.14   11.9   0.1    1.3  1  DUF348           G5-linked-Ubiquitin-like domain
      0.087   12.5   0.1       0.19   11.4   0.0    1.7  2  AAA_24           AAA domain
       0.13   12.5   0.0       0.21   11.9   0.0    1.6  1  AAA_22           AAA domain


Domain annotation for each model (and alignments):
>> CoaE  Dephospho-CoA kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  139.2   0.0   8.7e-44   1.1e-40       2     174 ..      24     194 ..      23     197 .. 0.97

  Alignments for each domain:
  == domain 1  score: 139.2 bits;  conditional E-value: 8.7e-44
                              EEEEEESTTSSHHHHHHHHHHTT-EEEEHHHHHHHTTCCTHHHHHHHHHHHGGGCB.TTSSE-HHHHHHHHHTSHHHHHHHHHHHH CS
                     CoaE   2 ivgltGgiasGKstvanlfadlgvpivDaDlvArqvvepgsealkkiveeFgeeildedGeLdReaLrkkvFadpeekkaLnallh 87 
                              i+gltGgi++GKstva+++++ ++p++DaD++ +++ + +se+l+ i+++F++ i  +dG +   +Lr++ F d+ +kk+++  ++
  PHY93_16030|PHY93_16030  24 IIGLTGGIGTGKSTVAEILREKNIPVIDADKLVKNIYQ-KSETLEFIAKHFPHVI--KDGMIVFTKLRETAFVDAIAKKLIEDFIY 106
                              8**********************************986.5789*********999..9**************************** PP

                              HHHHHHHHHHHHH--S.SEEEEE-TTTTTTTGGGGSSEEEEEE--HHHHHHHHHHCCTSTHHHHHHHHHHS--HHHHHHH-SEEEE CS
                     CoaE  88 Plirreikkelakles.kyvlldvPLLvEkqlekliervlvvdvelelqveRlvardgvseeevkaiiaaQlseeerlaladvvld 172
                                i  e+k++++++++ +++++dvPLL+Ek+l++l++  + v ++ e q++R+v rd+ see +++++  Q++ ee+++ +d v+ 
  PHY93_16030|PHY93_16030 107 AYIPGEFKQAFTAFNNpHFIVYDVPLLFEKKLNELVDLSVCVYAPREVQIKRIVLRDNSSEELAAKMLDNQMDIEEKKKCSDLVIL 192
                              ****************999******************************************************************* PP

                              -. CS
                     CoaE 173 Nd 174
                              N 
  PHY93_16030|PHY93_16030 193 NT 194
                              95 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.1   0.1   2.3e-10   2.9e-07       1     121 [.      25     170 ..      25     189 .. 0.76

  Alignments for each domain:
  == domain 1  score: 31.1 bits;  conditional E-value: 2.3e-10
                   AAA_18   1 IlltGtpGvGKttlakeLskrlgf.gvnlrdvakenglllevdpealdeskrldedkldklldaleenssaleegknlvidghlae 85 
                              I+ltG +G+GK+t+a+ L+++ ++ ++   +++k+ +   e  ++ + ++   +++  + ++++l+e +   + +k  +i++++  
  PHY93_16030|PHY93_16030  25 IGLTGGIGTGKSTVAEILREK-NIpVIDADKLVKNIYQKSETLEF-IAKHFPHVIKDGMIVFTKLRETAFVDAIAKK-LIEDFIYA 107
                              89******************9.57744444444444444444444.3344444455555788888888766666777.88888888 PP

                   AAA_18  86 leseaakdikk...........................vvLtaspeelleRlekRgyeeakik 121
                              +++ ++k++ +                           v+++a+ e+ ++R+  R++++ + +
  PHY93_16030|PHY93_16030 108 YIPGEFKQAFTafnnphfivydvpllfekklnelvdlsVCVYAPREVQIKRIVLRDNSSEELA 170
                              8888888888888888888888888999999999999*******************9886654 PP

>> Cytidylate_kin2  Cytidylate kinase-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.8   0.0   0.00064      0.81       1      50 [.      24      73 ..      24     112 .. 0.76
   2 !   12.9   0.1   6.9e-05     0.088     115     154 ..     143     183 ..     138     190 .. 0.84

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00064
          Cytidylate_kin2  1 iITIsreyGsgGetigeaLAekLglpfydr.eiieevakelglseeeveev 50
                             iI +++  G+g++t++e L ek  +p++d  ++++ + ++++  e +++++
  PHY93_16030|PHY93_16030 24 IIGLTGGIGTGKSTVAEILREKN-IPVIDAdKLVKNIYQKSETLEFIAKHF 73
                             789999**************996.******777777777776665555555 PP

  == domain 2  score: 12.9 bits;  conditional E-value: 6.9e-05
          Cytidylate_kin2 115 vlrvfltapledrvkrvaereglseeearekike.tDkrra 154
                               l+v ++ap+e+ +kr+  r + see a++++++ +D +++
  PHY93_16030|PHY93_16030 143 DLSVCVYAPREVQIKRIVLRDNSSEELAAKMLDNqMDIEEK 183
                              589***************************99851466555 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.0   1.1e-06    0.0014       3      39 ..      26      63 ..      24     103 .. 0.69
   2 ?    1.5   0.0      0.25   3.2e+02      51      80 ..     165     194 ..     149     196 .. 0.81

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 1.1e-06
                   AAA_28  3 vitGgestGKTtlleaLaargypvv.pEaareileekl 39
                              +tGg +tGK+t++e L ++++pv+ ++   + + +k+
  PHY93_16030|PHY93_16030 26 GLTGGIGTGKSTVAEILREKNIPVIdADKLVKNIYQKS 63
                             59**********************98554444444444 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.25
                   AAA_28  51 dllafaervleeqleeeaaaaankvlfcDr 80 
                                 ++a+++l++q+  e++ + ++++++ +
  PHY93_16030|PHY93_16030 165 SSEELAAKMLDNQMDIEEKKKCSDLVILNT 194
                              6778999*******9999999999998765 PP

>> AAA_17  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.0   1.6e-06     0.002       1     127 [.      28     167 ..      28     181 .. 0.70

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 1.6e-06
                              EE-TTSSHHHHHHHHHHHHTEEEEEHHHHHHHHHHTTT....SHSSHHHHCTSHHHHHHHHHHHH.HHHHHHHHHSSEEEEEE-S. CS
                   AAA_17   1 lGgPGsGKgtqceklvekygfthlsaGdllreeakrgg....lakardemrklpleekkelqkea.aekiaeeakkkgvlvdghp. 80 
                              +Gg G GK+t++ ++ ++ +++++ a  l+ +  ++++     ak++ ++ k  + +  +l+++a  ++ia++   ++++    p 
  PHY93_16030|PHY93_16030  28 TGGIGTGKSTVA-EILREKNIPVIDADKLVKNIYQKSEtlefIAKHFPHVIKDGMIVFTKLRETAfVDAIAKK-LIEDFIYAYIPg 111
                              699*********.888999******999999888888644443777777777777776677776623445544.344555554441 PP

                              .......EEEETTEEEESSHHHHHHHH....SEEEEEE--HHHHHHHHHHHTTST- CS
                   AAA_17  81 .......rikeqagfldglpkevleelk..pdaiilleadpeeilerrlkdrtrgr 127
                                      +++++ ++ ++p  ++++l+  +d+ ++++a+ e+ ++r   +++++ 
  PHY93_16030|PHY93_16030 112 efkqaftAFNNPHFIVYDVPLLFEKKLNelVDLSVCVYAPREVQIKRIVLRDNSSE 167
                              112222256677777777777777777733599999******99999988876654 PP

>> PRK  Phosphoribulokinase / Uridine kinase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   2.3   9.8e-06     0.013       1     153 [.      24     165 ..      24     168 .. 0.83

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 9.8e-06
                      PRK   1 vIgvagsSGaGkttvarklekifgrekvkaaeiegdsflrldraekdleleerkrakekevsflspeandfdll.yevlkelkegk 85 
                              +Ig++g  G Gk+tva+    i+++++++      d++  +++++++ e+ e  +++  +v  ++   + f +l +  +      k
  PHY93_16030|PHY93_16030  24 IIGLTGGIGTGKSTVAE----ILREKNIP----VIDADKLVKNIYQKSETLEFIAKHFPHVIKDGM--IVFTKLrETAFVDAIAKK 99 
                              8**************86....56666677....456777788999999999988888777776665..556555166788888999 PP

                      PRK  86 kvdkpiYsheteeaapdkeeliegadvlviEGlhalydervaelldlkiyvdisidlelarklqRDia 153
                               ++  iY +  +e ++      ++++ +v++ +  l+ +++ el+dl++ v +  ++++ r + RD +
  PHY93_16030|PHY93_16030 100 LIEDFIYAYIPGEFKQ-AFTAFNNPHFIVYD-VPLLFEKKLNELVDLSVCVYAPREVQIKRIVLRDNS 165
                              99************99.77788899999998.56688999**************************86 PP

>> Sigma54_activ_2  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   3.2e-05      0.04      26      75 ..      27      84 ..      16      94 .. 0.78

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 3.2e-05
                             EEEETT--HHHHHHCC--TTS-EE--SSTTHHHH-HHHHHHH........TTTSEEEE CS
          Sigma54_activ_2 26 ltGekGsgkelvArlLhknsgpwleifvverlaklpldlleq........akggtLyl 75
                             ltG+ G+gk++vA++L +++ p+++  ++ + + + +++le+        +k+g++++
  PHY93_16030|PHY93_16030 27 LTGGIGTGKSTVAEILREKNIPVIDADKLVKNIYQKSETLEFiakhfphvIKDGMIVF 84
                             7999*******************99999988888888888884334333336666665 PP

>> dNK  Deoxynucleoside kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   1.3   0.00016       0.2       2      26 ..      26      49 ..      25     183 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00016
                             EEEESTTSSHHHHHHHHHCCSTCEE CS
                      dNK  2 vveGnIgaGKstlvklLskklgvkv 26
                              + G Ig GKst++++L++k+ ++v
  PHY93_16030|PHY93_16030 26 GLTGGIGTGKSTVAEILREKN-IPV 49
                             5789*************9887.333 PP

>> SKI  Shikimate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0    0.0001      0.13       2      34 ..      32      63 ..      31      74 .. 0.86
   2 ?   -0.6   0.0      0.97   1.2e+03      98     127 ..     155     177 ..     140     197 .. 0.50

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.0001
                             TSSHHHHHHHHHHHHTSEEEEHHHHHHHHHTS- CS
                      SKI  2 GaGKstvGkllAkklglefiDlDeliekrtgks 34
                             G+GKstv+++l ++ ++++iD+D+l+++  +ks
  PHY93_16030|PHY93_16030 32 GTGKSTVAEIL-REKNIPVIDADKLVKNIYQKS 63
                             99*****9999.5569*********99988765 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.97
                              HHHHHHHTTSSGGGCSCHHHHHHHHHHHHH CS
                      SKI  98 llerlkadkeRPllqekskeeelleelaer 127
                              +++       R++l+++s+ee   + l ++
  PHY93_16030|PHY93_16030 155 QIK-------RIVLRDNSSEELAAKMLDNQ 177
                              333.......44444444422222222233 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   8.2e-05      0.11       5      40 ..      28      62 ..      24     182 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 8.2e-05
                   AAA_33  5 vGlpGsGKstlaerllkklgavllssdtlrrrlfgt 40
                              G  G+GKst+ae +l++    +++ d+l ++++ +
  PHY93_16030|PHY93_16030 28 TGGIGTGKSTVAE-ILREKNIPVIDADKLVKNIYQK 62
                             6778********9.577999********99999953 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   5.9e-05     0.075      13      67 ..      24      79 ..      20     186 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 5.9e-05
                             EEEEEESTTSSHHHHHHHHTTSS--..SEEEEEETTCEGGGB-HHHCCHCEEEE-SS CS
                             xxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran 13 kvaivGenGaGKStLlkllagllkp..teGeilldgkdlkeqeleslrkeigvlpqe 67
                             +++++G  G+GKSt++++l ++  p  +++++ +++   k+++le+  k++  + ++
  PHY93_16030|PHY93_16030 24 IIGLTGGIGTGKSTVAEILREKNIPviDADKL-VKNIYQKSETLEFIAKHFPHVIKD 79
                             689******************99995544444.333333446677766666666555 PP

>> DUF348  G5-linked-Ubiquitin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.1   0.00011      0.14      14      35 ..      33      54 ..      31      56 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00011
                             ---SSHHHHHHHTT----TT-E CS
                   DUF348 14 TaadTVgdlLeeagitlgeqDk 35
                             T ++TV+++L+e++i++ + Dk
  PHY93_16030|PHY93_16030 33 TGKSTVAEILREKNIPVIDADK 54
                             779*************988888 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00015      0.19       5      41 ..      25      62 ..      23     107 .. 0.88
   2 ?   -2.3   0.0       2.3     3e+03     159     194 ..     137     172 ..     130     186 .. 0.65

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00015
                   AAA_24  5 iliyGpsgiGKTtlakel.gpkplfidtekGlksldad 41
                             i ++G  g+GK+t+a  l ++++ +id +k +k+++ +
  PHY93_16030|PHY93_16030 25 IGLTGGIGTGKSTVAEILrEKNIPVIDADKLVKNIYQK 62
                             6799***************9*********988888765 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 2.3
                   AAA_24 159 elkeevDlvlranlkredkvgervlktsksesidaK 194
                              +l+e vDl + +   re++  + vl  + se   aK
  PHY93_16030|PHY93_16030 137 KLNELVDLSVCVYAPREVQIKRIVLRDNSSEELAAK 172
                              566666666555555555555555555555555555 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   0.00016      0.21       8      45 ..      25      68 ..      23     160 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00016
                   AAA_22  8 lvvtGesGtGKTtllrrlleqldeeakaee......erpevvfv 45
                             + +tG  GtGK+t+++ l+e++  +++a++      +++e++++
  PHY93_16030|PHY93_16030 25 IGLTGGIGTGKSTVAEILREKNIPVIDADKlvkniyQKSETLEF 68
                             568999***************98888888777777766666644 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (198 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       764  (0.0426125); expected 358.6 (0.02)
Passed bias filter:                      565  (0.0315132); expected 358.6 (0.02)
Passed Vit filter:                        74  (0.00412739); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 1448.24
//
Query:       PHY93_16035|PHY93_16035  [L=273]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    2.4e-35  120.5   5.6    9.5e-28   96.2   1.0    2.5  2  MazG       MazG nucleotide pyrophosphohydrolase domain
    2.3e-08   34.3   2.9     0.0037   17.7   0.2    2.5  2  PRA-PH     Phosphoribosyl-ATP pyrophosphohydrolase
    8.8e-07   29.1   1.9      0.017   15.4   0.1    2.8  2  MazG-like  MazG-like family
  ------ inclusion threshold ------
      0.018   14.7   0.4      0.042   13.5   0.0    1.9  2  MRP-S34    Mitochondrial 28S ribosomal protein S34
      0.038   14.2   0.1       0.16   12.2   0.1    2.0  2  PaaB       Phenylacetic acid degradation B
       0.11   12.9   0.0       0.33   11.3   0.0    1.8  1  TetR_C_20  Tetracyclin repressor-like, C-terminal domain
       0.12   12.0   2.8       0.15   11.6   1.3    1.8  2  DUF2861    Protein of unknown function (DUF2861)
          2    8.7   7.0         12    6.2   0.3    3.5  4  PI_PP_I    Phosphoinositide phosphatase insertion domain


Domain annotation for each model (and alignments):
>> MazG  MazG nucleotide pyrophosphohydrolase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   96.2   1.0   4.2e-31   9.5e-28       1      74 []      33     106 ..      33     106 .. 0.99
   2 !   26.4   0.2   2.6e-09   5.8e-06       7      69 ..     176     237 ..     170     241 .. 0.85

  Alignments for each domain:
  == domain 1  score: 96.2 bits;  conditional E-value: 4.2e-31
                              --HHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHH-GGGG CS
                     MazG   1 qtpetllaylleEvgEvaeaIkkedrdeleeELGDvLlqvlflaniaeeeggidledvaetileKlerRhphvf 74 
                              qt+++ll+ylleE +E++ea++++d  ++eeE+GDvL+qvl++ ++++e+g++d+e+va++++eKl+rRhphvf
  PHY93_16035|PHY93_16035  33 QTHQSLLKYLLEESYEFIEAVEEKDPTKMEEEIGDVLMQVLLHTQMGSERGEFDIESVAAKLTEKLIRRHPHVF 106
                              89***********************************************************************8 PP

  == domain 2  score: 26.4 bits;  conditional E-value: 2.6e-09
                              HHHHHHHHHHHHHHHHT...T-HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHH CS
                     MazG   7 laylleEvgEvaeaIkk...edrdeleeELGDvLlqvlflaniaeeeggidledvaetileKlerR 69 
                              +  + eE +E+ e++      ++ ++ eELGD+L+ v++la+     +++d  d+++++ +K+ rR
  PHY93_16035|PHY93_16035 176 VYKVEEEWQELKEELTPnreVNQAAVFEELGDLLFSVAQLARH----LNLDPHDALKAANKKFLRR 237
                              566889*********6622245559*****************6....****************999 PP

>> PRA-PH  Phosphoribosyl-ATP pyrophosphohydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.2   3.4e-06    0.0075      12      61 ..      22      72 ..      15      96 .. 0.84
   2 !   17.7   0.2   1.7e-06    0.0037      17      77 ..     165     228 ..     151     233 .. 0.78

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 3.4e-06
                             --SS-----HHHHHH.HHHHHHHHHHHHHHHT-SCHHHHHHHHHHHHHHHH CS
                   PRA-PH 12 kpetPeastaelasl.raaligEEavElleaasegdlaeladelaDllYvt 61
                             +pe   +++ ++ ++ +++++ EE+ E++ea++e+d  ++ +e+ D+l ++
  PHY93_16035|PHY93_16035 22 HPEHGCPWDLKQTHQsLLKYLLEESYEFIEAVEEKDPTKMEEEIGDVLMQV 72
                             555555666777777799****************************98655 PP

  == domain 2  score: 17.7 bits;  conditional E-value: 1.7e-06
                              ----HHHHHHHHHHHHHHHHHHHHHT-SC...HHHHHHHHHHHHHHHHHHHHHHCT--CHHHHH CS
                   PRA-PH  17 eastaelaslraaligEEavElleaaseg...dlaeladelaDllYvtygllvllGidldavfe 77 
                               +++ e ++++  +++EE +El e   ++   + a + +el Dll+ +  l+ +l++d+ + ++
  PHY93_16035|PHY93_16035 165 LKFDWEDYKQVVYKVEEEWQELKEELTPNrevNQAAVFEELGDLLFSVAQLARHLNLDPHDALK 228
                              4556677778999**************994445555668******************9998776 PP

>> MazG-like  MazG-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.6   0.1   5.6e-05      0.12      14      68 ..      41      99 ..      35     115 .. 0.78
   2 !   15.4   0.1   7.5e-06     0.017      18      70 ..     185     238 ..     176     264 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 5.6e-05
                MazG-like 14 ellksveelfkallkgseeeildeLAdviiylyl...LA.drlGidfeeideklkkklk 68
                              ll+++ e+++a+ +++ +++ +e+ dv++ ++l   ++ +r ++d+e++ +kl++kl 
  PHY93_16035|PHY93_16035 41 YLLEESYEFIEAVEEKDPTKMEEEIGDVLMQVLLhtqMGsERGEFDIESVAAKLTEKLI 99
                             58999******999999999999999998876653335524666999999999999875 PP

  == domain 2  score: 15.4 bits;  conditional E-value: 7.5e-06
                MazG-like  18 sveelfkallkgseeeildeLAdviiylylLAdrlGidfee.ideklkkklkky 70 
                              + +e ++   + +++++ +eL d++ ++  LA+ l++d+ + +++  kk l++ 
  PHY93_16035|PHY93_16035 185 ELKEELTPNREVNQAAVFEELGDLLFSVAQLARHLNLDPHDaLKAANKKFLRRF 238
                              4444444334599***************************98988888877765 PP

>> MRP-S34  Mitochondrial 28S ribosomal protein S34
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.0       3.4   7.5e+03      88     102 ..      47      61 ..      40      74 .. 0.61
   2 ?   13.5   0.0   1.9e-05     0.042      75     121 ..     118     162 ..     106     171 .. 0.78

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 3.4
                  MRP-S34  88 eeflekakpkepekl 102
                               ef+e +++k+p+k+
  PHY93_16035|PHY93_16035  47 YEFIEAVEEKDPTKM 61 
                              445554555555443 PP

  == domain 2  score: 13.5 bits;  conditional E-value: 1.9e-05
                  MRP-S34  75 nkadwrLvpkheeeeflekakpkepeklprtvplPPLlralllaekk 121
                              +  +w+L++k+e e++   ++ +    + ++++ PPL++a+ + +k 
  PHY93_16035|PHY93_16035 118 VLVNWELIKKEEKERLDGLVTHHLI--TSSVLNAPPLMAAMKIGKKT 162
                              5569**************6655543..57***********9876664 PP

>> PaaB  Phenylacetic acid degradation B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0       2.6   5.8e+03       5      15 ..     122     132 ..     120     154 .. 0.79
   2 ?   12.2   0.1   7.1e-05      0.16      27      72 ..     222     268 ..     215     272 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 2.6
                     PaaB   5 fEVfkrdkegl 15 
                              +E +k++++++
  PHY93_16035|PHY93_16035 122 WELIKKEEKER 132
                              99999988765 PP

  == domain 2  score: 12.2 bits;  conditional E-value: 7.1e-05
                     PaaB  27 daemALlvArdvfvRReeav.slwvvkseailastpeekeslfapak 72 
                              d++ AL+ A + f+RR +a+ +l +++ ++i ++++++ + ++++ak
  PHY93_16035|PHY93_16035 222 DPHDALKAANKKFLRRFHAMeDLMIAQGAKIEEMNQDQMDVYWNQAK 268
                              8999************8887479***************999888775 PP

>> TetR_C_20  Tetracyclin repressor-like, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00015      0.33      55     101 ..      49      95 ..      46      98 .. 0.94

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00015
                              HHHHHT-SS--HHHHHHHHHHHHHHHHHHHHHHTTSS-HHHHHHHHH CS
                TetR_C_20  55 llralgeeePteedadlarvlsdvwlglLvawlngrasitdveadle 101
                              +++a++e++Pt+ ++++ +vl++v l+  + +  g+ +i+ v+a+l+
  PHY93_16035|PHY93_16035  49 FIEAVEEKDPTKMEEEIGDVLMQVLLHTQMGSERGEFDIESVAAKLT 95 
                              578999************************************99986 PP

>> DUF2861  Protein of unknown function (DUF2861)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   1.3   6.8e-05      0.15       7     118 ..      31     142 ..      29     178 .. 0.78
   2 ?   -1.0   0.1      0.49   1.1e+03     195     225 ..     166     193 ..     143     205 .. 0.62

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 6.8e-05
                  DUF2861   7 LqsayqaLlegdlelafqelvevlqlsqnklaeqhlnelkeeilskqCGksLekkalPnwlksvsikvsfiqkpgrdsqgyqikvs 92 
                              L++++q+Ll+  le  ++ + +v   +++k +e+  + l + +l  q G++  +  +++   ++++  ++i+++    q  q k++
  PHY93_16035|PHY93_16035  31 LKQTHQSLLKYLLEESYEFIEAVEEKDPTKMEEEIGDVLMQVLLHTQMGSERGEFDIES--VAAKLTEKLIRRHPHVFQDNQTKID 114
                              89***************99955555666665555555555555566****888888888..6668999****************** PP

                  DUF2861  93 aekkiedlelskwsedkkl..lisaekv 118
                              a ++  + el k +e ++l  l++++ +
  PHY93_16035|PHY93_16035 115 ADQVLVNWELIKKEEKERLdgLVTHHLI 142
                              ****999998888665555664444443 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.49
                  DUF2861 195 svslydyfDeqYeqlwsqty..eselpkslele 225
                              +   +d+ D  Y+q+  +     +el+++l+ +
  PHY93_16035|PHY93_16035 166 K---FDWED--YKQVVYKVEeeWQELKEELTPN 193
                              4...77777..7777766432223333333333 PP

>> PI_PP_I  Phosphoinositide phosphatase insertion domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.0      0.22   4.9e+02      70      88 ..      30      48 ..      12      56 .. 0.82
   2 ?    2.9   0.2     0.054   1.2e+02      27      48 ..     109     130 ..      98     141 .. 0.81
   3 ?    6.2   0.3    0.0053        12      27      63 ..     156     192 ..     152     198 .. 0.89
   4 ?   -2.4   0.0       2.5   5.6e+03      31      42 ..     255     266 ..     225     272 .. 0.52

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.22
                             TS-HHHHHHHHHHT.T..S CS
                  PI_PP_I 70 elskaqqellrvlaeakls 88
                             +l++++q+ll+ l e++++
  PHY93_16035|PHY93_16035 30 DLKQTHQSLLKYLLEESYE 48
                             69999********988555 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.054
                              HHHHHHHHHHHHHHHHHHHH-S CS
                  PI_PP_I  27 kklkqdlnqfllkWeeikktsl 48 
                              ++ k d  q l++We ikk+  
  PHY93_16035|PHY93_16035 109 NQTKIDADQVLVNWELIKKEEK 130
                              67788999**********8764 PP

  == domain 3  score: 6.2 bits;  conditional E-value: 0.0053
                              HHHHHHHHHHHHHHHHHHHH-SSHHHHHHHHHCT-SS CS
                  PI_PP_I  27 kklkqdlnqfllkWeeikktslsLeedLnkiannktp 63 
                               k+ +++n++ + We+ k+   ++ee+ ++++++ tp
  PHY93_16035|PHY93_16035 156 MKIGKKTNELKFDWEDYKQVVYKVEEEWQELKEELTP 192
                              688999*********************9999988765 PP

  == domain 4  score: -2.4 bits;  conditional E-value: 2.5
                              HHHHHHHHHHHH CS
                  PI_PP_I  31 qdlnqfllkWee 42 
                              ++  q+ + W++
  PHY93_16035|PHY93_16035 255 MNQDQMDVYWNQ 266
                              233345555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (273 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       953  (0.0531541); expected 358.6 (0.02)
Passed bias filter:                      457  (0.0254894); expected 358.6 (0.02)
Passed Vit filter:                        65  (0.00362541); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.41
# Mc/sec: 1992.75
//
Query:       PHY93_16040|PHY93_16040  [L=175]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.8e-34  117.7   0.2    3.3e-34  117.4   0.2    1.1  1  UPF0054        Uncharacterized protein family UPF0054
  ------ inclusion threshold ------
      0.036   14.4   0.1      0.097   13.0   0.1    1.7  1  Ribosomal_S22  30S ribosomal protein subunit S22 family
      0.064   12.3   0.0      0.087   11.9   0.0    1.2  1  Endonuc_BglI   Restriction endonuclease BglI
       0.17   11.7   0.4       0.46   10.3   0.6    1.2  1  Peptidase_M10  Matrixin


Domain annotation for each model (and alignments):
>> UPF0054  Uncharacterized protein family UPF0054
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  117.4   0.2   7.4e-38   3.3e-34      10     127 ..      37     168 ..      14     169 .. 0.88

  Alignments for each domain:
  == domain 1  score: 117.4 bits;  conditional E-value: 7.4e-38
                  UPF0054  10 likkvleealkkekle..evsvllvdneeirelnkeyrgkdkpTDVLSFpleeeeee.ee..........lGDivisvekakeqae 82 
                               +   l++  + ++++  ++s++l+ +++i+++n++yr++dk+TDVLSFp+ e+ ++ ++          lGD+vi+ e ak qa+
  PHY93_16040|PHY93_16040  37 SFALFLNKNPHFKGVKdvSISMTLCGKRKIQSMNQKYRQIDKATDVLSFPVFENLRPdKKsrsknlpqieLGDLVICKEIAKAQAR 122
                              4444455555555666789999*******************************9999533799*********************** PP

                  UPF0054  83 eyghslerelafllvHgllHllGYDHe.eeeeekeMeekeeeilee 127
                              e++ s+e+e+ +l+vHg+lHllG+DHe + +eek+Me+ e  ++++
  PHY93_16040|PHY93_16040 123 EFKISYEQEVIHLAVHGFLHLLGFDHEiSAKEEKIMEQYESVLVNK 168
                              ***************************9999999*****9998876 PP

>> Ribosomal_S22  30S ribosomal protein subunit S22 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.1   2.2e-05     0.097       9      36 ..     142     169 ..     138     172 .. 0.92

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 2.2e-05
            Ribosomal_S22   9 HlLGLdyKlSrQkKvVlEGDkesvvNhi 36 
                              HlLG d+ +S +   ++E  ++  vN+i
  PHY93_16040|PHY93_16040 142 HLLGFDHEISAKEEKIMEQYESVLVNKI 169
                              ***********999999*********88 PP

>> Endonuc_BglI  Restriction endonuclease BglI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   1.9e-05     0.087      36      98 ..      63     127 ..      39     131 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 1.9e-05
             Endonuc_BglI  36 kenieeikadfne...asel..yPfwqnyPPeerGraprgdqyPwlevgekaiGdklprllekkleir 98 
                              k +i+++++ +++   a+++  +P ++n  P+++ r   ++++P +e+g+ +i +++ ++  ++++i+
  PHY93_16040|PHY93_16040  63 KRKIQSMNQKYRQidkATDVlsFPVFENLRPDKKSR---SKNLPQIELGDLVICKEIAKAQAREFKIS 127
                              66788898888764446665236889******9887...578**********************9997 PP

>> Peptidase_M10  Matrixin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.6    0.0001      0.46     106     136 ..     129     161 ..     115     172 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.0001
                              SEEHHHHHHHHHHHHTTBES..XSSTTSTTSSS CS
                              xxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxx RF
            Peptidase_M10 106 gvslflVaaHEiGHalGLeH..ssdkdalmypl 136
                              + ++ ++a+H + H+lG +H  s +++ +m ++
  PHY93_16040|PHY93_16040 129 EQEVIHLAVHGFLHLLGFDHeiSAKEEKIMEQY 161
                              5567899*************7778888899775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (175 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       652  (0.0363657); expected 358.6 (0.02)
Passed bias filter:                      376  (0.0209716); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1267.46
//
Query:       PHY93_16045|PHY93_16045  [L=360]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.9e-52  177.4   0.6    7.9e-52  175.9   0.0    1.8  2  PCRF      PCRF domain
      5e-38  129.6   0.1      1e-37  128.6   0.1    1.5  1  RF-1      RF-1 domain
  ------ inclusion threshold ------
      0.059   13.7   1.0      0.059   13.7   1.0    1.8  2  DUF4164   Domain of unknown function (DUF4164)


Domain annotation for each model (and alignments):
>> PCRF  PCRF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  175.9   0.0   1.3e-55   7.9e-52       2     193 .]      18     207 ..      17     207 .. 0.87
   2 ?   -0.8   0.1      0.19   1.2e+03      72      98 ..     265     289 ..     246     312 .. 0.49

  Alignments for each domain:
  == domain 1  score: 175.9 bits;  conditional E-value: 1.3e-55
                              HHHHTTTTTST.-GGGTTTGGGSSSTTHHHHHTHHHHHHHHHHHHHTTTHHH...HT......-S-..-GGGTHHHHHHHHHH... CS
                     PCRF   2 eeeleelekklsdpevwedqekakklskelaeleeivealeeleealedleeakell.e.edeelaelaeeeleelekeleel.ee 84 
                              +++l+e+++  + + +w+d+++a+k++ke + +eeiv+++++l+++ +d + + +++ + +de     aee l  +++ l+e+  +
  PHY93_16045|PHY93_16045  18 QNRLDEIKRIEAMEGFWDDSTNASKIQKEKSVIEEIVNTYTHLKQLYDDFDVLLDFAlTeNDEAS---AEEALGVYKNFLSEFlLA 100
                              6899999999999***************************************6666532233333...345555555555554133 PP

                              HHHHHT-..SSSTTSEEEEEEEE-SSTHHHHHHHHHHHHHHHHHHHTTT-EEEEEEEEESSS.SEEEEEEEEESTTHHHHHGGG-E CS
                     PCRF  85 elkklLlpkdendeknaileiraGaGGdeaalfaedLlrmYtryaerkgwkvevldaseeeagGikevtleiegegaYgkLkfEsG 170
                              e k lL+  +e d +nai++++aGaGG+e++++a ++lrm +r+ae+k++kv++ld++e +  Gik++t++++g++aYg Lk+EsG
  PHY93_16045|PHY93_16045 101 EQKVLLS--GELDPNNAIITVNAGAGGTESCDWAYMILRMVMRWAESKKFKVQILDTQEGDSAGIKSATITVSGNYAYGLLKSESG 184
                              6666666..**************************************************7777*********************** PP

                              EEEEEEE-TTSSS--EEEEEEEE CS
                     PCRF 171 vHRvqRvpetesqgrihTStatV 193
                              vHR++R ++++s+gr+hTS+a++
  PHY93_16045|PHY93_16045 185 VHRLVRLSPFDSAGRRHTSFASI 207
                              *********************86 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 0.19
                              THHHHHHHHHH..HHHHHT-..SSSTT CS
                     PCRF  72 leelekeleeleeelkklLlpkdende 98 
                               ++l+++ +++ + l++ L  + e d+
  PHY93_16045|PHY93_16045 265 RSQLQNKAQAM-KVLRSRLY-ELEMDK 289
                              23333333333.22222222.222222 PP

>> RF-1  RF-1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  128.6   0.1   1.7e-41     1e-37       2     116 .]     216     325 ..     215     325 .. 0.95

  Alignments for each domain:
  == domain 1  score: 128.6 bits;  conditional E-value: 1.7e-41
                              CCCCE--GGGEEEEEE---SSSSSSGCSSSCEEEEEETTTTEEEEEEECSSSHHHHHHHHHHHHHHHHHHHHHHHCCCCCHTTTTT CS
                     RF-1   2 eieieidekdleidtfrssGaGGQnVNktesaVrlthlptgvivvecqeeRsqekNrekAlerLkaklkekeleeekeeekkrrvk 87 
                              +ieiei +kdl+id++r++G GGQ VN+t+saVrlthlpt+ +vv cq+eRsq +N+++A+++L+++l  +ele +k+++k ++v+
  PHY93_16045|PHY93_16045 216 TIEIEILDKDLRIDVYRAGGSGGQGVNTTDSAVRLTHLPTN-LVVICQNERSQLQNKAQAMKVLRSRL--YELEMDKRRAKIAEVE 298
                              799**************************************.8*************************..7778888888999988 PP

                              -.S.-S---S--ECEEEECGCTTEEEETT CS
                     RF-1  88 kekkkigtgssekiRtynkkpqsrvkdhr 116
                              ++kk+i++g+  +iR+y+++p++ vkdhr
  PHY93_16045|PHY93_16045 299 ANKKDIAFGA--QIRSYVLHPYKLVKDHR 325
                              98999*9999..****************9 PP

>> DUF4164  Domain of unknown function (DUF4164)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.1       1.3   7.8e+03      66      66 ..      25      25 ..      13      52 .. 0.56
   2 ?   13.7   1.0   9.8e-06     0.059      31      73 ..     262     305 ..     260     307 .. 0.91

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 1.3
                  DUF4164 66 e 66
                             +
  PHY93_16045|PHY93_16045 25 K 25
                             1 PP

  == domain 2  score: 13.7 bits;  conditional E-value: 9.8e-06
                  DUF4164  31 erkrdeleaeiealgedrsRLae.eLdqaearaarleevnrEvs 73 
                              +++r++l+++ +a++  rsRL e e+d+++a+ a++e+ +++++
  PHY93_16045|PHY93_16045 262 QNERSQLQNKAQAMKVLRSRLYElEMDKRRAKIAEVEANKKDIA 305
                              57899****************655**************999985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (360 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       795  (0.0443416); expected 358.6 (0.02)
Passed bias filter:                      525  (0.0292822); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.25s 00:00:00.80 Elapsed: 00:00:00.42
# Mc/sec: 2573.61
//
Query:       PHY93_16050|PHY93_16050  [L=398]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.4e-06   28.1   0.1    3.4e-06   27.5   0.1    1.2  1  MacB_PCD  MacB-like periplasmic core domain


Domain annotation for each model (and alignments):
>> MacB_PCD  MacB-like periplasmic core domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.5   0.1   1.9e-10   3.4e-06       5     171 ..      27     197 ..      23     226 .. 0.70

  Alignments for each domain:
  == domain 1  score: 27.5 bits;  conditional E-value: 1.9e-10
                 MacB_PCD   5 vLGiaiGvaaviaivslgeglqasvlsqisdl.gnlvtvtpgkgsgeslsdpdvealrrevp.veavapvv.....tvrgggsgee 83 
                              ++G+a+++a++ +++++++g+q++++  ++++ g  ++++ + g    ++ + +e ++  ++ +++ ++ v     +++ ++  ++
  PHY93_16050|PHY93_16050  27 LVGMAFSIAVILSTIGIMDGFQRALKIGLKKStGE-IVMSSQGGGFFKINKSILEKFK--FQnIDHFSALVqtesfLIYDED--SR 107
                              689***************************88565.4344433333334555444332..2235554444433334334444..56 PP

                 MacB_PCD  84 evtvvgvdpdyfkvfglklaeGrffteadlrggpnvvvigeelaerlf.pvGdtirl...............kpftVvGvledppg 153
                              +v v+g d +y++v +l+     f+       ++++v+ig+e+a+    ++Gd+i l               ++f+V+ +++   g
  PHY93_16050|PHY93_16050 108 GVLVRGIDDSYAEVVKLP----IFL-------KDREVAIGSEIAKLNKiKIGDEIVLafakgnaslksmpalERFKVARIVTH--G 180
                              69****999*****9995....444.......6889********875699*******99999999999888888999888722..2 PP

                 MacB_PCD 154 sgsalgddavylplttlq 171
                                   +   vy+ l+tlq
  PHY93_16050|PHY93_16050 181 VY-QKDSHMVYIRLETLQ 197
                              22.113446888877774 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (398 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1004  (0.0559987); expected 358.6 (0.02)
Passed bias filter:                      427  (0.0238162); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.41
# Mc/sec: 2895.76
//
Query:       PHY93_16055|PHY93_16055  [L=222]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.2e-28   98.3   0.0    7.2e-28   97.8   0.0    1.2  1  ABC_tran  ABC transporter
    5.1e-09   36.4   0.9    5.2e-05   23.2   0.0    2.1  2  AAA_21    AAA domain, putative AbiEii toxin, Type IV TA syste
    0.00016   21.3   0.1    0.00032   20.4   0.1    1.4  1  AAA_29    P-loop containing region of AAA domain
    0.00017   21.1   0.2      0.014   14.8   0.0    2.1  2  SMC_N     RecF/RecN/SMC N terminal domain
     0.0057   16.4   0.0       0.19   11.4   0.0    2.1  2  AAA_15    AAA ATPase domain
     0.0073   16.8   0.1      0.015   15.8   0.1    1.4  1  AAA_23    AAA domain
  ------ inclusion threshold ------
      0.016   15.6   0.1      0.026   14.9   0.1    1.4  1  AAA_16    AAA ATPase domain
      0.019   14.4   0.0       0.22   10.9   0.0    2.1  2  TniB      Bacterial TniB protein
      0.019   15.2   0.0       0.31   11.3   0.0    2.4  1  SbcCD_C   Putative exonuclease SbcCD, C subunit
      0.039   13.5   0.0        3.6    7.1   0.0    2.2  2  AAA_25    AAA domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   97.8   0.0     4e-31   7.2e-28       1     136 [.      20     171 ..      20     172 .. 0.93

  Alignments for each domain:
  == domain 1  score: 97.8 bits;  conditional E-value: 4e-31
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG...B-HHHCCHC.EEEE-SS--S-TTSBHHHH... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxx.xxxxxxxxxxxxxxxxxxx... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke...qeleslrke.igvlpqepqlfpeltvren... 79 
                              l+ v+l+++ege + i G +G+GKStLl ll gl +pt G++ +++k+l e   +el  +r++ ig+++q ++l p +++ +n   
  PHY93_16055|PHY93_16055  20 LNGVNLTMNEGEEYLIRGASGSGKSTLLYLLGGLDRPTDGQVIVNQKNLAElsdEELALYRNRyIGFVFQFHFLLPSMNCLNNlll 105
                              789*********************************************99998877777776549**************9999*** PP

                              .............HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              .............xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 .............esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                                           + ++++ +++++lg + + ++       +LSgG++qr+ + ral  kpklll+DEpt
  PHY93_16055|PHY93_16055 106 parlaglsnketlQVQDRVLNLAKTLGVTACLEKFP----FELSGGEQQRINIIRALSLKPKLLLCDEPT 171
                              *******99888888888999999999999888887....*****************************9 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.4   0.3   2.8e-05      0.05       6      63 ..      37      91 ..      33     125 .. 0.73
   2 !   23.2   0.0   2.9e-08   5.2e-05     234     301 ..     141     206 ..      54     208 .. 0.71

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 2.8e-05
                   AAA_21  6 GpNgsGKSnLLdaldllarldrdvegltdelsggggirkipslldlydpeipfefeie 63
                             G+ gsGKS+LL++l +l   dr  +g  ++++++  + +++ l   ++  i f+f+++
  PHY93_16055|PHY93_16055 37 GASGSGKSTLLYLLGGL---DRPTDGQVIVNQKNLAELSDEELALYRNRYIGFVFQFH 91
                             99*************99...55555555555555555555555555555555555555 PP

  == domain 2  score: 23.2 bits;  conditional E-value: 2.9e-08
                   AAA_21 234 arelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsr.ngaQviltTHSpll 301
                              ++elS G ++ + ++ al   +   +lll DEp  +L+ +  r++++ll+ ls+  +a ++++TH+p++
  PHY93_16055|PHY93_16055 141 PFELSGGEQQRINIIRALSLKP---KLLLCDEPTGNLDSENSRKVIQLLRTLSKdFKATLVVVTHDPVI 206
                              4677999999999999999877...9***********************9999999***********98 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.4   0.1   1.8e-07   0.00032      14      39 ..      22      47 ..      18      51 .. 0.84

  Alignments for each domain:
  == domain 1  score: 20.4 bits;  conditional E-value: 1.8e-07
                   AAA_29 14 ghtieidlkgatlltGpsGsGKSTll 39
                             g  +++++ + +l+ G+sGsGKSTll
  PHY93_16055|PHY93_16055 22 GVNLTMNEGEEYLIRGASGSGKSTLL 47
                             56677876669**************8 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.1     0.011        20      26      41 ..      32      47 ..       4      55 .. 0.63
   2 !   14.8   0.0   7.8e-06     0.014     136     206 ..     143     211 ..      60     219 .. 0.74

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.011
                             EEEEEESTTSSHHHHH CS
                             xxxxxxxxxxxxxxxx RF
                    SMC_N 26 ftaivGpNGSGKsnll 41
                                i G+ GSGKs ll
  PHY93_16055|PHY93_16055 32 EYLIRGASGSGKSTLL 47
                             34688********986 PP

  == domain 2  score: 14.8 bits;  conditional E-value: 7.8e-06
                              CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTT..SEEEEE-SSHHHCCC-S CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxx RF
                    SMC_N 136 lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkekskn..aQfivislreemlekad 206
                              +LSgGe++ +   ++ A+ + kp+ l l De   +LD +n +kv +ll++ sk+  a ++v++++  + e  +
  PHY93_16055|PHY93_16055 143 ELSGGEQQRIN--IIRAL-SLKPK-LLLCDEPTGNLDSENSRKVIQLLRTLSKDfkATLVVVTHDPVIAESFS 211
                              79999997554..45444.45555.7789********************999985567889999877776654 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.0     0.032        57      27      43 ..      34      50 ..       5      85 .. 0.80
   2 !   11.4   0.0   0.00011      0.19     323     369 .]     161     207 ..     147     207 .. 0.92

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.032
                   AAA_15 27 vliGkNnsGKSsileal 43
                             ++ G+ +sGKS++l++l
  PHY93_16055|PHY93_16055 34 LIRGASGSGKSTLLYLL 50
                             666999********998 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 0.00011
                   AAA_15 323 knvilliEEPEahLHpqaqkvlikllkelandnktQviitTHSphii 369
                              k+++ll +EP  +L  ++ + +i+ll+ l++d k  +++ TH p i+
  PHY93_16055|PHY93_16055 161 KPKLLLCDEPTGNLDSENSRKVIQLLRTLSKDFKATLVVVTHDPVIA 207
                              67899***************************************985 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.1   8.6e-06     0.015       2      36 ..       5      47 ..       5      51 .. 0.73

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 8.6e-06
                   AAA_23  2 Lkienfrsfrdqe.....idF...skgltlItGpNGaGKTTil 36
                             +kien+++f +q+     +++   +   +lI G  G+GK+T+l
  PHY93_16055|PHY93_16055  5 IKIENVKKFYKQSralngVNLtmnEGEEYLIRGASGSGKSTLL 47
                             79*******55551211444466655678*************9 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.1   1.4e-05     0.026      22      63 ..      28      71 ..      16     203 .. 0.53

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 1.4e-05
                   AAA_16 22 grpelvllsGesGvGKsslvrellralekd..g.giflrgkcdql 63
                             +++e  l++G+sG+GKs+l+  l   l +   g +i+ + +  +l
  PHY93_16055|PHY93_16055 28 NEGEEYLIRGASGSGKSTLLYLLG-GLDRPtdGqVIVNQKNLAEL 71
                             4456689************96655.44444322144444444444 PP

>> TniB  Bacterial TniB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.0      0.14   2.4e+02      36      52 ..      31      47 ..      19      57 .. 0.89
   2 ?   10.9   0.0   0.00012      0.22     108     161 ..     148     201 ..     138     211 .. 0.82

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.14
                     TniB 36 pnlllvGdsnnGKtmiv 52
                             + +l+ G s  GK++++
  PHY93_16055|PHY93_16055 31 EEYLIRGASGSGKSTLL 47
                             5789**********986 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.00012
                     TniB 108 eqqvlrllre..lkvrvLiiDEihnllagsarkqreflnalksLgnelkipivlvG 161
                              eqq ++++r+  lk+++L+ DE    l   +++ r+++++l++L+ ++k ++v+v 
  PHY93_16055|PHY93_16055 148 EQQRINIIRAlsLKPKLLLCDEPTGNL--DSENSRKVIQLLRTLSKDFKATLVVVT 201
                              5666666665225789******99988..78899*******************985 PP

>> SbcCD_C  Putative exonuclease SbcCD, C subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00018      0.31      63      89 ..     161     187 ..     139     188 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00018
                  SbcCD_C  63 alrlvfLDEAFsklDeesiatllelle 89 
                              +++l++ DE  ++lD+e+++++++ll+
  PHY93_16055|PHY93_16055 161 KPKLLLCDEPTGNLDSENSRKVIQLLR 187
                              58999********************98 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.1   0.0     0.002       3.6      31      53 ..      28      50 ..      18      52 .. 0.85
   2 ?    4.2   0.0     0.016        29     162     188 ..     175     202 ..     167     205 .. 0.85

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.002
                   AAA_25 31 pagelallaGapgtGKttlaldl 53
                              +ge  l+ Ga+g+GK+tl++ l
  PHY93_16055|PHY93_16055 28 NEGEEYLIRGASGSGKSTLLYLL 50
                             677888999**********9865 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.016
                   AAA_25 162 nsdv.galvealeriarrtgaavllvhH 188
                              +s+  +++++ l+ +++ ++a++++v H
  PHY93_16055|PHY93_16055 175 DSENsRKVIQLLRTLSKDFKATLVVVTH 202
                              4454599********************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (222 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       472  (0.0263261); expected 358.6 (0.02)
Passed bias filter:                      437  (0.0243739); expected 358.6 (0.02)
Passed Vit filter:                        82  (0.0045736); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.42
# Mc/sec: 1570.83
//
Query:       PHY93_16060|PHY93_16060  [L=761]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      3e-52  175.1  32.0    2.7e-14   53.5   0.4    5.8  6  POTRA           Surface antigen variable number repeat
      9e-49  166.7  15.7    1.5e-48  166.0  15.7    1.4  1  Bac_surface_Ag  Surface antigen
    4.2e-11   42.5   1.9     0.0006   19.6   0.0    4.4  5  POTRA_2         POTRA domain, ShlB-type
      1e-07   32.1   3.8       0.71   10.2   0.1    5.3  5  POTRA_1         POTRA domain, FtsQ-type
  ------ inclusion threshold ------
        0.2   12.3   0.3       0.42   11.3   0.3    1.5  1  Pex14_N         Peroxisomal membrane anchor protein (Pex14p) 


Domain annotation for each model (and alignments):
>> POTRA  Surface antigen variable number repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   1.9   1.8e-06    0.0063       2      79 ..      36     105 ..      35     106 .. 0.84
   2 !   40.4   2.1   9.1e-14   3.3e-10       2      79 ..     108     183 ..     107     183 .. 0.90
   3 !   41.2   0.5   5.3e-14   1.9e-10       1      80 []     187     275 ..     187     275 .. 0.91
   4 !   53.5   0.4   7.5e-18   2.7e-14       3      80 .]     280     356 ..     278     356 .. 0.90
   5 !   41.9   0.6   3.1e-14   1.1e-10       2      80 .]     360     435 ..     359     435 .. 0.92
   6 ?   -2.7   0.0       2.6   9.3e+03      51      75 ..     452     472 ..     451     475 .. 0.64

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 1.8e-06
                              EEEEEEEES.SSS-HHHHHTTTSSSTTSBHCHHHHHHHHHHHHHHHHCTT-EE.EE....EEEEHSSTTSEEEEEEEEEEEE CS
                    POTRA   2 kikkinfeGnkktkdeelrrelelkegdvynpekleadkealksryanlGyfdasV....qvelpeddedknrvdltinvdE 79 
                              ki++i+++G kk+++e +++ ++ k   v++   l++d+e    +++++ yfd sV    +       +++    l+++ +E
  PHY93_16060|PHY93_16060  36 KIEQIVVKGLKKVEKEAVLEKIGAKVDMVLDNYLLKKDLE----KIYSMKYFD-SVeaehE----VVAGKNV---LVFKMKE 105
                              89**************************************....*********.9954332....2234444...7777776 PP

  == domain 2  score: 40.4 bits;  conditional E-value: 9.1e-14
                              EEEEEEEES.SSS-HHHHHTTTSSSTTSBHCHHHHHHHHHHHHHHHHCTT-EE.EEEEEE.HSSTTSEEEEEEEEEEEE CS
                    POTRA   2 kikkinfeGnkktkdeelrrelelkegdvynpekleadkealksryanlGyfdasVqvel.peddedknrvdltinvdE 79 
                               + ki+feGn  ++d++l+ ++++k   ++++  +++d++ l + y+++Gyf a V++++ +++ e    + l++n++E
  PHY93_16060|PHY93_16060 108 IVTKISFEGNDGLSDDDLKGQVKTKVFSILDATSVKNDIQSLLKHYEEKGYFLAAVDYKEkKINEEN---IELVFNIKE 183
                              799*****************************************************99884444444...55*****98 PP

  == domain 3  score: 41.2 bits;  conditional E-value: 5.3e-14
                              EEEEEEEEES.SSS-HHHHHTTTSSSTT.........SBHCHHHHHHHHHHHHHHHHCTT-EE.EE...EEEEHSSTTSEEEEEEE CS
                    POTRA   1 vkikkinfeGnkktkdeelrrelelkeg.........dvynpekleadkealksryanlGyfdasV...qvelpeddedknrvdlt 74 
                              vk+kk++f Gnk++kdee++++l+++e          + +++ ++++d+e+lk +y+ +Gy+  ++   +++    +edk+ v +t
  PHY93_16060|PHY93_16060 187 VKVKKVSFLGNKAFKDEEIKSILQTQEDslfsglsgsGNFKEINFQNDIERLKYFYRMKGYLQINIgspEITV---SEDKKWVFIT 269
                              69***********************99988888888899999999**********************665555...888888**** PP

                              EEEEE- CS
                    POTRA  75 invdEg 80 
                              ++++Eg
  PHY93_16060|PHY93_16060 270 MKLTEG 275
                              ****98 PP

  == domain 4  score: 53.5 bits;  conditional E-value: 7.5e-18
                              EEEEEEES.SSS-HHHHHTTTSSSTTSBHCHHHHHHHHHHHHHHHHCTT-EE.EE..EEEEHSSTTSEEEEEEEEEEEE- CS
                    POTRA   3 ikkinfeGnkktkdeelrrelelkegdvynpekleadkealksryanlGyfdasV..qvelpeddedknrvdltinvdEg 80 
                              i+ki+f+G+  +++ elr+ l lke+++y++e l++d++ l++ y+++Gy++a+V  + +     + +n+vd+++++++g
  PHY93_16060|PHY93_16060 280 INKITFQGEMLFPEGELREKLTLKENETYSEESLRKDIQLLTEMYQDEGYAFANVirNLNV---VPGENKVDVEFSFEKG 356
                              99******99*********************************************884444...55666799***99876 PP

  == domain 5  score: 41.9 bits;  conditional E-value: 3.1e-14
                              EEEEEEEES.SSS-HHHHHTTTSSSTTSBHCHHHHHHHHHHHHHHHHCTT-EE.EE....EEEEHSSTTSEEEEEEEEEEEE- CS
                    POTRA   2 kikkinfeGnkktkdeelrrelelkegdvynpekleadkealksryanlGyfdasV....qvelpeddedknrvdltinvdEg 80 
                              ++++i+++Gn+k +d+++rrel + eg+++n   l+++ke    + ++lG+f+++     +v++   +++++  d++i v+E+
  PHY93_16060|PHY93_16060 360 YFGRIKVKGNSKSRDKVIRRELLIHEGQKFNGTALRQSKE----NVQRLGFFEPESiifnTVSP---KDKEDILDVEIAVKEK 435
                              899*************************************....*********99878888877...77888889*****995 PP

  == domain 6  score: -2.7 bits;  conditional E-value: 2.6
                              T-EE.EEEEEEHSSTTSEEEEEEEE CS
                    POTRA  51 GyfdasVqvelpeddedknrvdlti 75 
                              G+f asV+ ++       n   lt+
  PHY93_16060|PHY93_16060 452 GFFQASVSQSN-FRGLGQN---LTF 472
                              89999996555.4445555...665 PP

>> Bac_surface_Ag  Surface antigen
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  166.0  15.7   4.2e-52   1.5e-48       1     322 [.     462     761 .]     462     761 .] 0.94

  Alignments for each domain:
  == domain 1  score: 166.0 bits;  conditional E-value: 4.2e-52
                              STSSSS-EEEEEEEESSSEEEEEEEEEESTSSTTS-EEEEEEEEEEGGGTBS.S-EEEEEEEEEEEEEEESSSEEEEEEEEEEEEE CS
           Bac_surface_Ag   1 NllGtGqslslsaslgsyeqslnlsftePyflgdrvslglslfaresdsdesdsyrtksvgfsvslgrpltenyslslglsvqknk 86 
                              N+ G Gq+l +s+++++ ++++++ ftePyfl++++slg+ +f +  ++d+s+sy++k+ g++v++g+p+ + ++l + ++++ +k
  PHY93_16060|PHY93_16060 462 NFRGLGQNLTFSLNIAKTSNTFSVDFTEPYFLDTKWSLGGGVFMS--NDDTSSSYSEKKKGMNVRVGYPIFTFTNLYTTYKLEDTK 545
                              9*******************************************8..899999****************999************** PP

                              EES---BHHHHHHHHSCS--EEEEEEEEEEEEEEEEEESSSSS-SSEEEEEEEEEEE-..TTSSS-EEEEEEEEEEEEESSTTSSS CS
           Bac_surface_Ag  87 ilkdsssennrnvssasklqtgksltsslslslsydtrddalfPtrGvllklrleftgpllggdvsylkldakasyyvpltkekdl 172
                              i++ + +  +         +  + l ss+++s++ d rdd+++ ++G++l+ + e+tg  +ggd + +k +++a+ ++p+    dl
  PHY93_16060|PHY93_16060 546 IKTVDDPTID--------VKLENGLASSIQTSIVHDRRDDRSDARKGIFLSYSTEYTG--IGGDKKWVKNETEARGFYPVW--GDL 619
                              ***9999944........467899**********************************..********************9..68* PP

                              EEEEEEEEEEEEESSSS-.--GGG-B-BSSTTSSTEE-TT-BS-EEE........EEEE--BSEEEEEEEEEEEE-SSS-GGTTEE CS
           Bac_surface_Ag 173 vlaarvalgyisgygtkdelpfyerFyaGGsnsvRGfesgglgprde........sgdalGGdsyavaslElrfplpflkkqnsvr 250
                              ++++r+ +g +++++++  +p  e+F++GGs ++RG+++ ++gp+             + GG   + ++lE++ pl   +++ +++
  PHY93_16060|PHY93_16060 620 IFRSRLYAGRLDEVSGQR-IPRTEKFTLGGSRNLRGYAYEAIGPKRQgvnnagqtLTFNTGGIFSTFTNLEFQHPL---SREAGLK 701
                              ****************99.**************************9999999887666789999999999999999...44567** PP

                              EEEEEEEEEEE-TT--TTTTTTS--TTTS-EEEEEEEEEEEETTEEEEEEEEEEEE-STT--EESEEEEECE CS
           Bac_surface_Ag 251 lalFfDaGnvwdkegqspsssrsasstaeirasvGvgLrwqsPlGPlrfdyAiplkkedgdktqrFqFgiGt 322
                               ++FfDaG      g++++         +i +++G g rw sP+G lrf +++pl+ e + + ++F+F iG+
  PHY93_16060|PHY93_16060 702 WVVFFDAGHA----GTFDNV--------KIYTDYGFGFRWFSPIGTLRFEFGYPLTGEYKNQGSQFHFDIGQ 761
                              *********6....555552........4789************************99999999*******7 PP

>> POTRA_2  POTRA domain, ShlB-type
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0       0.8   2.9e+03       1      22 [.      35      56 ..      35      65 .. 0.79
   2 !   15.0   0.0   4.5e-06     0.016       3      71 ..     109     177 ..     108     179 .. 0.96
   3 ?    3.4   0.0     0.018        66       2      26 ..     188     212 ..     187     219 .. 0.89
   4 ?   -1.6   0.0       0.7   2.5e+03      40      53 ..     235     248 ..     227     261 .. 0.83
   5 !   19.6   0.0   1.7e-07    0.0006       1      58 [.     278     335 ..     278     344 .. 0.95

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 0.8
                             EE.SEEEEESGCCSSHCCHHHH CS
                  POTRA_2  1 fpikkielegntllsleeleal 22
                             f+i +i+++g + +++e++ + 
  PHY93_16060|PHY93_16060 35 FKIEQIVVKGLKKVEKEAVLEK 56
                             7899******999988866554 PP

  == domain 2  score: 15.0 bits;  conditional E-value: 4.5e-06
                              .SEEEEESGCCSSHCCHHHHHCCCSSSEEEHHHHHHHHHHHHHHHHHTT-TT-EEEEEECCEETTEEEE CS
                  POTRA_2   3 ikkielegntllsleeleallqpylgkclgladlnqlakeltnayiekGYvtsrvllppqdlesGtlkl 71 
                              ++ki +egn+ ls+++l+  ++  +   l+ + +++ ++ l ++y ekGY ++ v  +++++++ +++l
  PHY93_16060|PHY93_16060 109 VTKISFEGNDGLSDDDLKGQVKTKVFSILDATSVKNDIQSLLKHYEEKGYFLAAVDYKEKKINEENIEL 177
                              799***********************************************************9998887 PP

  == domain 3  score: 3.4 bits;  conditional E-value: 0.018
                              E.SEEEEESGCCSSHCCHHHHHCCC CS
                  POTRA_2   2 pikkielegntllsleeleallqpy 26 
                              ++kk+ + gn+++++ee++++lq  
  PHY93_16060|PHY93_16060 188 KVKKVSFLGNKAFKDEEIKSILQTQ 212
                              689******************9976 PP

  == domain 4  score: -1.6 bits;  conditional E-value: 0.7
                              HHHHHHHHHHTT-T CS
                  POTRA_2  40 akeltnayiekGYv 53 
                              + +l  +y+ kGY+
  PHY93_16060|PHY93_16060 235 IERLKYFYRMKGYL 248
                              5688999******7 PP

  == domain 5  score: 19.6 bits;  conditional E-value: 1.7e-07
                              EE.SEEEEESGCCSSHCCHHHHHCCCSSSEEEHHHHHHHHHHHHHHHHHTT-TT-EEE CS
                  POTRA_2   1 fpikkielegntllsleeleallqpylgkclgladlnqlakeltnayiekGYvtsrvl 58 
                              f i+ki ++g  l+++ el++ l   +++  + + l + ++ lt+ y++ GY  + v 
  PHY93_16060|PHY93_16060 278 FSINKITFQGEMLFPEGELREKLTLKENETYSEESLRKDIQLLTEMYQDEGYAFANVI 335
                              789**************************************************99885 PP

>> POTRA_1  POTRA domain, FtsQ-type
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.2   0.1    0.0002      0.71       1      27 [.      35      61 ..      35      78 .. 0.85
   2 ?    0.7   0.0      0.19   6.7e+02       4      26 ..     110     132 ..     109     154 .. 0.81
   3 !    9.2   0.0    0.0004       1.4       2      33 ..     188     219 ..     187     224 .. 0.89
   4 ?    0.6   0.0       0.2   7.1e+02       1      30 [.     278     307 ..     278     321 .. 0.81
   5 !    6.8   0.0    0.0022         8       5      46 ..     363     404 ..     361     406 .. 0.92

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.0002
                             XXX-EEEEES-SS--HHHHHHHHHTTS CS
                  POTRA_1  1 fpikqvevsGnkhlsseeiikalgiek 27
                             f+i+q++v+G k + +e++++++g + 
  PHY93_16060|PHY93_16060 35 FKIEQIVVKGLKKVEKEAVLEKIGAKV 61
                             79*******************999776 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.19
                              -EEEEES-SS--HHHHHHHHHTT CS
                  POTRA_1   4 kqvevsGnkhlsseeiikalgie 26 
                               +++++Gn  ls+++++ +++ +
  PHY93_16060|PHY93_16060 110 TKISFEGNDGLSDDDLKGQVKTK 132
                              6899************9988765 PP

  == domain 3  score: 9.2 bits;  conditional E-value: 0.0004
                              XX-EEEEES-SS--HHHHHHHHHTTSTT-GGG CS
                  POTRA_1   2 pikqvevsGnkhlsseeiikalgiekgtslfs 33 
                              ++k+v++ Gnk  ++eei+ +l+ ++++ + +
  PHY93_16060|PHY93_16060 188 KVKKVSFLGNKAFKDEEIKSILQTQEDSLFSG 219
                              79***********************9987765 PP

  == domain 4  score: 0.6 bits;  conditional E-value: 0.2
                              XXX-EEEEES-SS--HHHHHHHHHTTSTT- CS
                  POTRA_1   1 fpikqvevsGnkhlsseeiikalgiekgts 30 
                              f+i++++++G    ++ e++++l ++++++
  PHY93_16060|PHY93_16060 278 FSINKITFQGEMLFPEGELREKLTLKENET 307
                              688999999999999999999998887655 PP

  == domain 5  score: 6.8 bits;  conditional E-value: 0.0022
                              EEEEES-SS--HHHHHHHHHTTSTT-GGGS-HHHHHHHHHH- CS
                  POTRA_1   5 qvevsGnkhlsseeiikalgiekgtslfsldleaieqrlekl 46 
                               ++v+Gn+   ++ i+++l i++g+++ +  l++ ++++++l
  PHY93_16060|PHY93_16060 363 RIKVKGNSKSRDKVIRRELLIHEGQKFNGTALRQSKENVQRL 404
                              69*************************999999999998875 PP

>> Pex14_N  Peroxisomal membrane anchor protein (Pex14p) conserved region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.3   0.00012      0.42      23      47 ..     189     213 ..     185     232 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00012
                  Pex14_N  23 ekkvaFLesKGLtqeEIeeaLkrae 47 
                               kkv+FL  K  ++eEI+  L+ +e
  PHY93_16060|PHY93_16060 189 VKKVSFLGNKAFKDEEIKSILQTQE 213
                              59********************944 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (761 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       640  (0.0356964); expected 358.6 (0.02)
Passed bias filter:                      340  (0.0189637); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.70u 0.22s 00:00:00.92 Elapsed: 00:00:00.44
# Mc/sec: 5198.89
//
Query:       PHY93_17355|PHY93_17355  [L=120]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.17   11.9   0.0       0.41   10.7   0.0    1.6  1  YmgD      YmgD protein


Domain annotation for each model (and alignments):
>> YmgD  YmgD protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   2.3e-05      0.41      62      77 ..      22      37 ..      13      42 .. 0.89

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 2.3e-05
                             HHH-TT-BHHHHHHHH CS
                     YmgD 62 cakdPqmllitaidda 77
                             c kdP ++lit++d+ 
  PHY93_17355|PHY93_17355 22 CKKDPTGILITGLDEK 37
                             9*************85 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (120 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       579  (0.032294); expected 358.6 (0.02)
Passed bias filter:                      508  (0.028334); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.21s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 902.61
//
Query:       PHY93_16065|PHY93_16065  [L=167]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.1e-25   88.2  23.7    7.2e-25   87.9  23.7    1.0  1  OmpH             Outer membrane protein (OmpH-like)
    0.00056   19.6  11.4    0.00073   19.2  11.4    1.1  1  Lebercilin       Ciliary protein causing Leber congenital ama
  ------ inclusion threshold ------
      0.016   15.3  15.6      0.024   14.7  15.6    1.2  1  ApoLp-III        Apolipophorin-III precursor (apoLp-III)
      0.017   15.4   2.9      0.019   15.3   2.9    1.1  1  MMR1             Mitochondrial Myo2 receptor-related protein
      0.037   13.2  12.0      0.042   13.0  12.0    1.1  1  Phage_HK97_TLTM  Tail length tape measure protein
       0.04   13.3   6.5      0.045   13.1   6.5    1.2  1  DUF4407          Domain of unknown function (DUF4407)
      0.044   13.7   3.4       0.05   13.5   3.4    1.0  1  Draxin           Draxin
       0.05   13.0   0.8      0.062   12.7   0.8    1.1  1  Bestrophin       Bestrophin, RFP-TM, chloride channel
      0.054   13.8   4.9       0.34   11.3   0.3    2.3  2  CCDC-167         Coiled-coil domain-containing protein 167
      0.074   12.8   6.9      0.094   12.5   6.9    1.1  1  AAA_11           AAA domain
      0.089   11.9   5.9       0.11   11.6   5.9    1.1  1  Atg14            Vacuolar sorting 38 and autophagy-related su
      0.091   12.0   7.6      0.095   11.9   7.6    1.1  1  VSG_B            Trypanosomal VSG domain
       0.14   11.5  12.8       0.17   11.2  12.8    1.1  1  FAM76            FAM76 protein
       0.14   12.2   2.7       0.56   10.3   2.7    1.8  1  Baculo_PEP_C     Baculovirus polyhedron envelope protein, PEP
        2.8    8.3  10.9         21    5.5  10.2    2.3  2  Rx_N             Rx N-terminal domain
        5.9    7.6  10.6         13    6.5   4.0    2.2  2  YabA             Initiation control protein YabA
        6.1    6.8  10.8        3.3    7.7   1.7    2.2  2  DUF4446          Protein of unknown function (DUF4446)
        7.4    6.9   9.6       0.54   10.5   1.7    2.5  2  XhlA             Haemolysin XhlA


Domain annotation for each model (and alignments):
>> OmpH  Outer membrane protein (OmpH-like)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   87.9  23.7   7.2e-28   7.2e-25       2     136 ..      23     161 ..      22     163 .. 0.96

  Alignments for each domain:
  == domain 1  score: 87.9 bits;  conditional E-value: 7.2e-28
                              EEEE-HHHHHHHSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTS....-HHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     OmpH   2 iavvdvqkileespegkaaqeqlekkfkklqaeleakekelqklqeelqkkakkl.e..keekeqelqkkeqelqqkqqqkaqelq 84 
                              ++ vdvqk+l + ++g+a+++ql+k f + q+ l+++e++++klq+++qkka+ l +  k +ke+e+q+k  ++qqk +  ++++q
  PHY93_16065|PHY93_16065  23 VGKVDVQKVLITVTQGQAVRDQLKKAFDEKQKLLKEEEDKIRKLQDDYQKKASVLnDkeKGKKEREIQEKIVAIQQKTATYQKDIQ 108
                              789**********************************************99999876888899999**********999999**** PP

                              HHHHHHHHHHHHHHHHHHHHHHHHTT-SEEEE..GGG-S---GGGB-HHHHHH CS
                     OmpH  85 kkqqellkpildkinkaikevakekgydlvld.srgavlyaddklDiTdeVlk 136
                              + +q+l  pil+k++++++evak   +dlv + +++ +lya++++D+Td+V+k
  PHY93_16065|PHY93_16065 109 DMEQKLKTPILEKVKAVVDEVAKSADVDLVYEaATAPILYAKEEKDLTDDVIK 161
                              ********************************9889****************9 PP

>> Lebercilin  Ciliary protein causing Leber congenital amaurosis disease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.2  11.4   7.3e-07   0.00073      75     149 ..      44     116 ..      35     144 .. 0.81

  Alignments for each domain:
  == domain 1  score: 19.2 bits;  conditional E-value: 7.3e-07
               Lebercilin  75 rlRksqekerelekklkekeaellrlkdklkklkkLsedknL.aereeLqkkLeeleakleekeekikeLerklel 149
                              +   ++++ +e +k lke+e+++++l+d+++k  ++ +dk+  +   e+q+k+ ++++k  + +++i+++e+kl+ 
  PHY93_16065|PHY93_16065  44 Q---LKKAFDEKQKLLKEEEDKIRKLQDDYQKKASVLNDKEKgKKEREIQEKIVAIQQKTATYQKDIQDMEQKLKT 116
                              4...4558999999*********************6666655055569*************************986 PP

>> ApoLp-III  Apolipophorin-III precursor (apoLp-III)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7  15.6   2.4e-05     0.024      43     136 ..      39     133 ..      21     135 .. 0.88

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 2.4e-05
                ApoLp-III  43 kslqeelkkksdeleealkevkkkieetadklseenPevkkkaq.elqekvQsgvqslvkesqklaeslkensqeakeklakaikq 127
                              + ++++lkk+ de +++lke  +ki +  d+ +++ + ++ k + + + ++Q+++ ++ + +++  +++++  q+ k  + +++k+
  PHY93_16065|PHY93_16065  39 QAVRDQLKKAFDEKQKLLKEEEDKIRKLQDDYQKKASVLNDKEKgKKEREIQEKIVAIQQKTATYQKDIQDMEQKLKTPILEKVKA 124
                              4589******************************8888776655255678************************************ PP

                ApoLp-III 128 ayddaveaa 136
                              ++d+++++a
  PHY93_16065|PHY93_16065 125 VVDEVAKSA 133
                              *****9997 PP

>> MMR1  Mitochondrial Myo2 receptor-related protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.3   2.9   1.9e-05     0.019      96     193 ..      38     131 ..      15     163 .. 0.71

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 1.9e-05
                     MMR1  96 kltiketleqlreeksqqksksaekekqkrsvaakseqesekveeleksksereisetssaiSestlleledle.tteaetlnpnn 180
                               + ++++l+++  +++q+  k+ e++ +k++ + +++ +  + + +ek k+erei+e+  ai ++t++ ++d++  +++   +  +
  PHY93_16065|PHY93_16065  38 GQAVRDQLKKA-FDEKQKLLKEEEDKIRKLQDDYQKKAS--VLNDKEKGKKEREIQEKIVAIQQKTATYQKDIQdMEQKLKTPILE 120
                              46778888888.567777888888888888888888887..99999****************************544444445555 PP

                     MMR1 181 sveekkpavektk 193
                              +v+  ++  e++k
  PHY93_16065|PHY93_16065 121 KVKAVVD--EVAK 131
                              5554433..3333 PP

>> Phage_HK97_TLTM  Tail length tape measure protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0  12.0   4.2e-05     0.042      60     166 ..      26     129 ..      15     166 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 4.2e-05
          Phage_HK97_TLTM  60 vkeklkklsleevadekdklkeslkeqnklvkeaeqkveelkkeldkyqvsingylvnkldsk.eeaik..laeatdklsesqsal 142
                              v  +   +++ + ++ +d+lk++  e++kl+ke e+k+++l+++ +k        l +k ++k e++i+  + ++++k +  q+  
  PHY93_16065|PHY93_16065  26 VDVQKVLITVTQGQAVRDQLKKAFDEKQKLLKEEEDKIRKLQDDYQKKA----SVLNDKEKGKkEREIQekIVAIQQKTATYQKDI 107
                              5555555789999999****************************99988....44556666651456655599*******999999 PP

          Phage_HK97_TLTM 143 eavtkkskeiqsaLtsveadrvrl 166
                              +++++k k  + +L++v+a  +++
  PHY93_16065|PHY93_16065 108 QDMEQKLK--TPILEKVKAVVDEV 129
                              99998876..44555555544444 PP

>> DUF4407  Domain of unknown function (DUF4407)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   6.5   4.5e-05     0.045     135     208 ..      35     126 ..       4     162 .. 0.59

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 4.5e-05
                  DUF4407 135 laeleaqiaalqaeidaaearldalraeaqkeldgtk.gtgttgvaGkgpaakekkaqldaaqaelaelkakld............ 207
                              +++ +a +++l++++d++++ l++++++ +k  d  + ++   +++ kg+  +e ++++ a+q++ a+++++++            
  PHY93_16065|PHY93_16065  35 VTQGQAVRDQLKKAFDEKQKLLKEEEDKIRKLQDDYQkKASVLNDKEKGKKEREIQEKIVAIQQKTATYQKDIQdmeqklktpile 120
                              45556666666666666666666666666555443333333333455566666666666666666666666655544444244333 PP

                  DUF4407 208 .....a 208
                                    
  PHY93_16065|PHY93_16065 121 kvkavV 126
                              333330 PP

>> Draxin  Draxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   3.4   5.1e-05      0.05      60     170 ..      30     139 ..      14     162 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 5.1e-05
                   Draxin  60 pvrlemgpp.aalkerkevflgvklsyqerenkspgselkrkgrkhgrehkkksrrdkvrkkkgkalepepssllkdreafedqlq 144
                              +v +++ +  a+  + k++f + +   +e e+k  + +   +++    ++k k+++++  ++k  a+++++++  kd + +e++l+
  PHY93_16065|PHY93_16065  30 KVLITVTQGqAVRDQLKKAFDEKQKLLKEEEDKIRKLQDDYQKKASVLNDKEKGKKEREIQEKIVAIQQKTATYQKDIQDMEQKLK 115
                              45555544425556778888888888888888888888555555566899999********************************* PP

                   Draxin 145 kasleeassplapvllaltalvatvi 170
                              +  le++++ +++v   ++a+v +v 
  PHY93_16065|PHY93_16065 116 TPILEKVKAVVDEVA--KSADVDLVY 139
                              **9888888888873..344443333 PP

>> Bestrophin  Bestrophin, RFP-TM, chloride channel
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.8   6.2e-05     0.062     118     217 ..      32     118 ..       6     118 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 6.2e-05
               Bestrophin 118 lllvlffralssrvrkrfptlehlleagllteeeakilenkywvplqWavsllrrlaerlkelakegrikddqalkeleeelnelr 203
                              l +v   +a++ +++k f + ++ll+++   e++ ++l++ y   +     +l++ +e   + +ke +i+++    +++++  +++
  PHY93_16065|PHY93_16065  32 LITVTQGQAVRDQLKKAFDEKQKLLKEE---EDKIRKLQDDYQKKAS----VLND-KE---KGKKEREIQEKIV--AIQQKTATYQ 104
                              455666689*******************...9999999999999999....9999.53...4889999999887..9999****** PP

               Bestrophin 204 aklgsleridwtpi 217
                              + ++ +e+   tpi
  PHY93_16065|PHY93_16065 105 KDIQDMEQKLKTPI 118
                              *9999999999998 PP

>> CCDC-167  Coiled-coil domain-containing protein 167
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.6     0.038        38      37      68 ..      42      73 ..      20      85 .. 0.62
   2 ?   11.3   0.3   0.00034      0.34       2      33 ..      89     120 ..      88     160 .. 0.89

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.038
                 CCDC-167 37 ResleeEeaslkeqleenekeLksLrkeNrks 68
                             R++l++  ++ ++ l+e+e +  +L+   +k+
  PHY93_16065|PHY93_16065 42 RDQLKKAFDEKQKLLKEEEDKIRKLQDDYQKK 73
                             55555555555555555555555555555544 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 0.00034
                 CCDC-167   2 vaseIdkleeklascrerLeaverrlrkeels 33 
                              ++++I  +++k+a ++++++++e++l++  l+
  PHY93_16065|PHY93_16065  89 IQEKIVAIQQKTATYQKDIQDMEQKLKTPILE 120
                              788999********************987665 PP

>> AAA_11  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   6.9   9.4e-05     0.094     106     199 ..      34     125 ..       8     137 .. 0.67

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 9.4e-05
                   AAA_11 106 svsleekvekrlekeekaqlakeiskeleklakelrafeeeeekeklkkskekskskleqerrklkkerkelskeleeaeesleee 191
                               v+  + v+++l+k   ++ ++++ ke+e++ ++l+++ +++++   +k+k k++++ +++  +++++  +++k+++  e++l++ 
  PHY93_16065|PHY93_16065  34 TVTQGQAVRDQLKK--AFDEKQKLLKEEEDKIRKLQDDYQKKASVLNDKEKGKKEREIQEKIVAIQQKTATYQKDIQDMEQKLKTP 117
                              34444444444444..3444444444444444444444444444567888889999999999999999999999999999999999 PP

                   AAA_11 192 vldeaeiv 199
                              +l++++ v
  PHY93_16065|PHY93_16065 118 ILEKVKAV 125
                              99988766 PP

>> Atg14  Vacuolar sorting 38 and autophagy-related subunit 14
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   5.9   0.00011      0.11      68     171 ..      27     135 ..      12     151 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00011
                    Atg14  68 kleelksliadlrerlqelkdklsqlkkeieekkkklaklsdklkkRrsdleslqneleerrkkqiaklqdaik.......rieqk 146
                              ++++  +++ + ++   +lk+  ++ +k ++e   k++kl+d+  k+ s l+  ++  +e  +++ +k++   +        i+++
  PHY93_16065|PHY93_16065  27 DVQKVLITVTQGQAVRDQLKKAFDEKQKLLKEEEDKIRKLQDDYQKKASVLNDKEKGKKE--REIQEKIVAIQQktatyqkDIQDM 110
                              555666677777888888999999999999999999999999987777774443333333..333333333333444555588888 PP

                    Atg14 147 lsslssktlesrsslcselaklygl 171
                               ++l++ +le+    + e+ak +++
  PHY93_16065|PHY93_16065 111 EQKLKTPILEKVKAVVDEVAKSADV 135
                              9999999999888888888888876 PP

>> VSG_B  Trypanosomal VSG domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   7.6   9.6e-05     0.095      83     158 ..      36     124 ..      12     165 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 9.6e-05
                    VSG_B  83 kaakkncgalkafWkeakkaakakkkk.............eltrpantrararanekiqqiaekaaeiyseikkekekakkaraek 155
                              +++++   +lk++ +e++k++k++++k              l++  + ++ +  +eki +i +k+a+ +++i+ +++k k+   ek
  PHY93_16065|PHY93_16065  36 TQGQAVRDQLKKAFDEKQKLLKEEEDKirklqddyqkkasVLNDKEKGKKEREIQEKIVAIQQKTATYQKDIQDMEQKLKTPILEK 121
                              44555556666666666666666655566666666666663333444555555599**********************99988888 PP

                    VSG_B 156 lkk 158
                              +k+
  PHY93_16065|PHY93_16065 122 VKA 124
                              885 PP

>> FAM76  FAM76 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2  12.8   0.00017      0.17     213     298 ..      27     113 ..      11     115 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00017
                    FAM76 213 nssdhlvavtqLkeeiaslkkqleqkdqellekdkkitelkaellekekelreklk.elekeakekieklekkirellkevaelsk 297
                               ++  l++vtq +    +lkk  ++k++ l e + ki +l+ + ++k + l++k k + e+e++eki ++++k ++ +k++ ++++
  PHY93_16065|PHY93_16065  27 DVQKVLITVTQGQAVRDQLKKAFDEKQKLLKEEEDKIRKLQDDYQKKASVLNDKEKgKKEREIQEKIVAIQQKTATYQKDIQDMEQ 112
                              45567899999999999**********************************99988467899******************998877 PP

                    FAM76 298 k 298
                              k
  PHY93_16065|PHY93_16065 113 K 113
                              6 PP

>> Baculo_PEP_C  Baculovirus polyhedron envelope protein, PEP, C terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   2.7   0.00056      0.56      14     109 ..      24     115 ..      20     138 .. 0.71

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00056
             Baculo_PEP_C  14 qfldLtnvLnairlqnvqilaqlatlldaietqLnalsedlksllaeldtrldtlltnLtdalnalq.dtlrneLtnlnsiltnLl 98 
                              +++d+ +vL ++ +q   +  ql++++d+ ++ L++ ++++++l  + ++     ++ L+d+ +  +  ++++++ +++++ ++ +
  PHY93_16065|PHY93_16065  24 GKVDVQKVLITV-TQGQAVRDQLKKAFDEKQKLLKEEEDKIRKLQDDYQK----KASVLNDKEKGKKeREIQEKIVAIQQKTATYQ 104
                              6799********.9**********************99999997665555....55555555555444455566666666666666 PP

             Baculo_PEP_C  99 ssvtNinstLn 109
                               ++  +++ L+
  PHY93_16065|PHY93_16065 105 KDIQDMEQKLK 115
                              66655555554 PP

>> Rx_N  Rx N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.5  10.2     0.021        21       4      55 ..      40      92 ..      39     134 .. 0.82
   2 ?    2.2   0.4      0.23   2.2e+02      11      47 ..      95     132 ..      89     163 .. 0.73

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.021
                     Rx_N  4 allqkLadllaeeakllkgvkeeleklkdeLesiqavLedaee.rqikdeavk 55
                             a+ ++L + + e+ kllk+ +++++kl+d  ++  +vL+d e+ +++++ + k
  PHY93_16065|PHY93_16065 40 AVRDQLKKAFDEKQKLLKEEEDKIRKLQDDYQKKASVLNDKEKgKKEREIQEK 92
                             56688999999999****************************95333333333 PP

  == domain 2  score: 2.2 bits;  conditional E-value: 0.23
                     Rx_N  11 dllaeeakllkgvkeeleklkd.eLesiqavLedaeer 47 
                              ++ ++ a+ +k++++  +klk+  Le+++av++++ + 
  PHY93_16065|PHY93_16065  95 AIQQKTATYQKDIQDMEQKLKTpILEKVKAVVDEVAKS 132
                              45555567777777777777773477888888877665 PP

>> YabA  Initiation control protein YabA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.5   4.0     0.013        13      20      70 ..      34      84 ..      21      90 .. 0.67
   2 ?    5.2   1.4     0.033        33       3      37 ..      86     120 ..      84     133 .. 0.84

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.013
                             HHHHHHHHHHHHHHHHHHHHHH.HHHHHHHHHHHXXXXXXXXXXXXXXXXXX CS
                     YabA 20 lleeleelkeelaelleenaeL.eleneklrerleeeekkekekkkelsegk 70
                             ++++ ++++++l++ ++e ++L + e +k+r+++ ++ +k+++  +++++gk
  PHY93_16065|PHY93_16065 34 TVTQGQAVRDQLKKAFDEKQKLlKEEEDKIRKLQ-DDYQKKASVLNDKEKGK 84
                             56788999*******9999886256677888888.33444444334444433 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.033
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     YabA   3 kkelfdkleeleeqleelleeleelkeelaellee 37 
                              ++e+ +k+ ++++++++ ++++++++++l++ + e
  PHY93_16065|PHY93_16065  86 EREIQEKIVAIQQKTATYQKDIQDMEQKLKTPILE 120
                              689999*********************99986554 PP

>> DUF4446  Protein of unknown function (DUF4446)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   1.7    0.0033       3.3       8      74 ..       5      73 ..       1      80 [. 0.62
   2 ?    5.5   4.9     0.016        16      23      78 ..      62     117 ..      61     129 .. 0.86

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.0033
                  DUF4446  8 vlvvillillivllvklkklkkky.kklmkgkdgksleellkekleeveelkeesee.lekeieeleek 74
                             + v+  l+l+  +++k+   k ++ k l++ ++g+ + ++lk+ ++e ++l +e+e+ ++k +++ ++k
  PHY93_16065|PHY93_16065  5 IAVMASLLLTSSAFAKVAVGKVDVqKVLITVTQGQAVRDQLKKAFDEKQKLLKEEEDkIRKLQDDYQKK 73
                             34444455555555555555555514566788**************99998776655155554444444 PP

  == domain 2  score: 5.5 bits;  conditional E-value: 0.016
                  DUF4446  23 klkklkkkykklmkgkdgksleellkekleeveelkeeseelekeieeleeklkks 78 
                              k++kl+++y+k  +  ++k+  ++ +e  e++ ++++++++ +k+i+++e+klk+ 
  PHY93_16065|PHY93_16065  62 KIRKLQDDYQKKASVLNDKEKGKKEREIQEKIVAIQQKTATYQKDIQDMEQKLKTP 117
                              689999999999998888888888889999999******************99874 PP

>> XhlA  Haemolysin XhlA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   1.2      0.81     8e+02      22      46 ..      44      68 ..      36      80 .. 0.70
   2 ?   10.5   1.7   0.00054      0.54       1      28 [.      88     115 ..      88     137 .. 0.85

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 0.81
                     XhlA 22 kleekaaeaeekiknleedlkkles 46
                             +l++  +e ++ +k+ e+++ kl++
  PHY93_16065|PHY93_16065 44 QLKKAFDEKQKLLKEEEDKIRKLQD 68
                             5666666666667777777777765 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 0.00054
                     XhlA   1 eikerlerietkldnleervdkleekaa 28 
                              ei+e+++ i++k+ ++++++++ e+k  
  PHY93_16065|PHY93_16065  88 EIQEKIVAIQQKTATYQKDIQDMEQKLK 115
                              79**********************9975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (167 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      3727  (0.207876); expected 358.6 (0.02)
Passed bias filter:                      875  (0.0488036); expected 358.6 (0.02)
Passed Vit filter:                       118  (0.00658152); expected 17.9 (0.001)
Passed Fwd filter:                        26  (0.00145016); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              18  [number of targets reported over threshold]
# CPU time: 0.61u 0.28s 00:00:00.89 Elapsed: 00:00:00.46
# Mc/sec: 1098.54
//
Query:       PHY93_16070|PHY93_16070  [L=342]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
      8e-22   76.1  37.4    1.6e-06   27.6   3.0    5.6  5  Hexapep    Bacterial transferase hexapeptide (six repeats)
    3.8e-10   39.4  31.4     0.0013   18.4   0.4    5.6  5  Hexapep_2  Hexapeptide repeat of succinyl-transferase


Domain annotation for each model (and alignments):
>> Hexapep  Bacterial transferase hexapeptide (six repeats)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.1   1.1   2.2e-09     2e-05       3      33 ..     131     161 ..     123     163 .. 0.48
   2 !   27.6   3.0   1.8e-10   1.6e-06       2      35 ..     160     193 ..     159     194 .. 0.94
   3 !   11.6   0.4   2.1e-05      0.18      19      34 ..     214     229 ..     208     233 .. 0.49
   4 !   19.1   4.2   8.5e-08   0.00076       2      35 ..     237     270 ..     236     271 .. 0.93
   5 !   14.9   1.9   1.8e-06     0.016       1      34 [.     272     305 ..     272     307 .. 0.95

  Alignments for each domain:
  == domain 1  score: 24.1 bits;  conditional E-value: 2.2e-09
                              EEETTEEE-TTEEEETTEEE-TTEEEETTEE CS
                  Hexapep   3 vIGsnvlIgpfaviggnVkIGdnvkIgagvv 33 
                               I ++++Ig  + i+++VkI+++v+I +g+ 
  PHY93_16070|PHY93_16070 131 WIAQGAFIGDHVSIHADVKIHPGVVIMSGAE 161
                              4444445555555555555555555554444 PP

  == domain 2  score: 27.6 bits;  conditional E-value: 1.8e-10
                              EEEETTEEE-TTEEEETTEEE-TTEEEETTEEEE CS
                  Hexapep   2 tvIGsnvlIgpfaviggnVkIGdnvkIgagvvig 35 
                              + IG ++ I p++vi+ nVkIG+nv+I+a++ ig
  PHY93_16070|PHY93_16070 160 AEIGIGSEIFPNTVIYRNVKIGKNVRIHANCSIG 193
                              78999**************************997 PP

  == domain 3  score: 11.6 bits;  conditional E-value: 2.1e-05
                              TEEE-TTEEEETTEEE CS
                  Hexapep  19 nVkIGdnvkIgagvvi 34 
                               V+IGd v Iga++ i
  PHY93_16070|PHY93_16070 214 SVIIGDKVEIGANTSI 229
                              4444444444444444 PP

  == domain 4  score: 19.1 bits;  conditional E-value: 8.5e-08
                              EEEETTEEE-TTEEEETTEEE-TTEEEETTEEEE CS
                  Hexapep   2 tvIGsnvlIgpfaviggnVkIGdnvkIgagvvig 35 
                              t+IG +++I++ ++ig+n+ +G +v+I   ++++
  PHY93_16070|PHY93_16070 237 TIIGAGSKIDNLVQIGHNCRLGIGVVICGQAGLA 270
                              89*************************9998876 PP

  == domain 5  score: 14.9 bits;  conditional E-value: 1.8e-06
                              TEEEETTEEE-TTEEEETTEEE-TTEEEETTEEE CS
                  Hexapep   1 stvIGsnvlIgpfaviggnVkIGdnvkIgagvvi 34 
                              s++IG+ ++ g  a ++++V+IG+ + I+ ++++
  PHY93_16070|PHY93_16070 272 SCIIGDYTVMGGRAAVAPGVTIGKAAQIAGNAGV 305
                              699****************************988 PP

>> Hexapep_2  Hexapeptide repeat of succinyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.9   0.2   0.00014       1.2       2      33 ..     142     175 ..     136     176 .. 0.79
   2 !   18.4   0.4   1.5e-07    0.0013       1      17 [.     177     193 ..     177     195 .. 0.95
   3 !   10.1   0.7   5.8e-05      0.52      18      33 ..     215     230 ..     211     231 .. 0.79
   4 !   12.3   3.3   1.2e-05       0.1       8      32 ..     237     263 ..     235     264 .. 0.94
   5 !    7.2   1.5   0.00048       4.3       3      29 ..     274     302 ..     273     305 .. 0.87

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.00014
                              EEE-TT-EE-TT-EE..SEEE-TT-EE-TT-EE- CS
                Hexapep_2   2 viIGdnCliGanagi..GvslGdncvvgaGvvit 33 
                              v+I +++ i++  +i  G ++G ++ + ++ vi+
  PHY93_16070|PHY93_16070 142 VSIHADVKIHPGVVImsGAEIGIGSEIFPNTVIY 175
                              5666777888888877899999999999999988 PP

  == domain 2  score: 18.4 bits;  conditional E-value: 1.5e-07
                              .EEE-TT-EE-TT-EES CS
                Hexapep_2   1 pviIGdnCliGanagiG 17 
                              +v+IG+n+ i+an+ iG
  PHY93_16070|PHY93_16070 177 NVKIGKNVRIHANCSIG 193
                              69*************98 PP

  == domain 3  score: 10.1 bits;  conditional E-value: 5.8e-05
                              EEE-TT-EE-TT-EE- CS
                Hexapep_2  18 vslGdncvvgaGvvit 33 
                              v++Gd++ +ga+  i+
  PHY93_16070|PHY93_16070 215 VIIGDKVEIGANTSID 230
                              8889999999888875 PP

  == domain 4  score: 12.3 bits;  conditional E-value: 1.2e-05
                              -EE-TT-EES..EEE-TT-EE-TT-EE CS
                Hexapep_2   8 CliGanagiG..vslGdncvvgaGvvi 32 
                              ++iGa + i   v++G nc +g Gvvi
  PHY93_16070|PHY93_16070 237 TIIGAGSKIDnlVQIGHNCRLGIGVVI 263
                              58*******889**************9 PP

  == domain 5  score: 7.2 bits;  conditional E-value: 0.00048
                              EE-TT-EE-TT-EE..SEEE-TT-EE-TT CS
                Hexapep_2   3 iIGdnCliGanagi..GvslGdncvvgaG 29 
                              iIGd ++ G +a +  Gv++G+ + ++ +
  PHY93_16070|PHY93_16070 274 IIGDYTVMGGRAAVapGVTIGKAAQIAGN 302
                              8**********88779*****98888766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (342 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       429  (0.0239277); expected 358.6 (0.02)
Passed bias filter:                      301  (0.0167884); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.44
# Mc/sec: 2350.75
//
Query:       PHY93_16075|PHY93_16075  [L=161]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.5e-18   66.7   0.1    2.6e-17   62.8   0.1    2.0  1  FabA      FabA-like domain


Domain annotation for each model (and alignments):
>> FabA  FabA-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.8   0.1   1.4e-21   2.6e-17       1     137 [.      12     154 ..      12     155 .. 0.84

  Alignments for each domain:
  == domain 1  score: 62.8 bits;  conditional E-value: 1.4e-21
                              ---TT.T---SEEEEEESTCTCTSS.EEEEEEE-...........-TTSHHHHHSSTTS----HHHHHHHHHHHHHHHHHHCC--- CS
                     FabA   1 lpark.lllldrvleieeeggkfgkGlivaekdv...........tpnewfFqgHFpgdPvmPGvLgleamaQlvgfyllksggde 74 
                              lp+r  +l++d v +i+ ++ +   G iv +k++           + ++  F+gHFp+ P+ PGv+ +e maQ+++f ++  ++++
  PHY93_16075|PHY93_16075  12 LPHRDpFLFIDSVESISIPDRTLAPGEIVDIKEIvdsvvvahyrtKKDHAIFKGHFPDFPILPGVIQVEMMAQATSFVVYLIHKNP 97 
                              799999999999999999999999998877777644444444433789*****************************999986644 PP

                              SCCEEE-EEEEEEECEEEE-S---TT-.EEEEEEEEEEEEECCTCEEEEEEEEEETTEEEEEE CS
                     FabA  75 gkgrarklvlfagvdevkfrgqvtPgdkklvleveikkvseekrviiiadaellvdgklvyea 137
                               +   +  v+  +++e+kfr++v+P+   l+l   + k    + +ii+ +++l+ +++l  ea
  PHY93_16075|PHY93_16075  98 MEM--KMDVALLAITEAKFRKPVLPEM-DLKLVTRVLK---LRGPIITSECKLYHNDQLMSEA 154
                              444..4458888***************.9999888888...99*************9998776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (161 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       452  (0.0252106); expected 358.6 (0.02)
Passed bias filter:                      374  (0.0208601); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1174.50
//
Query:       PHY93_16080|PHY93_16080  [L=259]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.9e-22   77.5  23.5    3.1e-08   33.0   0.7    5.5  6  Hexapep          Bacterial transferase hexapeptide (six repea
    1.4e-14   54.3   0.0    2.2e-14   53.7   0.0    1.3  1  Acetyltransf_11  Udp N-acetylglucosamine O-acyltransferase; D
    5.4e-05   22.8  18.8      0.012   15.3   0.9    4.1  5  Hexapep_2        Hexapeptide repeat of succinyl-transferase
  ------ inclusion threshold ------
      0.028   13.4   0.4       0.48    9.3   0.1    2.1  2  Fucokinase       L-fucokinase
       0.15   12.4   0.4       0.29   11.5   0.4    1.4  1  UPF0223          Uncharacterised protein family (UPF0223)


Domain annotation for each model (and alignments):
>> Hexapep  Bacterial transferase hexapeptide (six repeats)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.2   0.3   6.1e-10   2.2e-06       4      35 ..       2      33 ..       1      34 [. 0.89
   2 !   32.4   1.6   1.3e-11   4.7e-08       2      30 ..      12      40 ..      11      46 .. 0.94
   3 !   10.4   1.5   0.00012      0.44       3      28 ..      31      56 ..      30      64 .. 0.86
   4 ?    2.5   0.1     0.036   1.3e+02      19      34 ..      77      92 ..      57      97 .. 0.61
   5 !   33.0   0.7   8.6e-12   3.1e-08       2      31 ..     103     132 ..     103     137 .. 0.92
   6 !   19.4   1.9   1.7e-07   0.00063       1      30 [.     138     167 ..     138     172 .. 0.94

  Alignments for each domain:
  == domain 1  score: 27.2 bits;  conditional E-value: 6.1e-10
                             EETTEEE-TTEEEETTEEE-TTEEEETTEEEE CS
                  Hexapep  4 IGsnvlIgpfaviggnVkIGdnvkIgagvvig 35
                             I+  +lI+p a+i++ VkIG+ ++Ig++v ig
  PHY93_16080|PHY93_16080  2 IHPSSLIDPQAKIHETVKIGPFCIIGPNVEIG 33
                             78889999999999999999999999999998 PP

  == domain 2  score: 32.4 bits;  conditional E-value: 1.3e-11
                             EEEETTEEE-TTEEEETTEEE-TTEEEET CS
                  Hexapep  2 tvIGsnvlIgpfaviggnVkIGdnvkIga 30
                             ++I++ v+Igpf++ig+nV+IG n+++++
  PHY93_16080|PHY93_16080 12 AKIHETVKIGPFCIIGPNVEIGANCVLHS 40
                             68************************988 PP

  == domain 3  score: 10.4 bits;  conditional E-value: 0.00012
                             EEETTEEE-TTEEEETTEEE-TTEEE CS
                  Hexapep  3 vIGsnvlIgpfaviggnVkIGdnvkI 28
                              IG n+++++  v  g+++IG++ + 
  PHY93_16080|PHY93_16080 31 EIGANCVLHSHIVMDGHTTIGEGNIF 56
                             79********************9986 PP

  == domain 4  score: 2.5 bits;  conditional E-value: 0.036
                             TEEE-TTEEEETTEEE CS
                  Hexapep 19 nVkIGdnvkIgagvvi 34
                              ++IG n +  ++v +
  PHY93_16080|PHY93_16080 77 RTVIGTNNTFREYVSV 92
                             5666666666666554 PP

  == domain 5  score: 33.0 bits;  conditional E-value: 8.6e-12
                              EEEETTEEE-TTEEEETTEEE-TTEEEETT CS
                  Hexapep   2 tvIGsnvlIgpfaviggnVkIGdnvkIgag 31 
                              t+IG+ +l+++++++g++V++G+n++I++ 
  PHY93_16080|PHY93_16080 103 TQIGNSSLLMAYVHVGHDVVLGNNCIIANS 132
                              68*************************996 PP

  == domain 6  score: 19.4 bits;  conditional E-value: 1.7e-07
                              TEEEETTEEE-TTEEEETTEEE-TTEEEET CS
                  Hexapep   1 stvIGsnvlIgpfaviggnVkIGdnvkIga 30 
                              +++IG+ v Ig +++i   V++G++++Ig 
  PHY93_16080|PHY93_16080 138 HVKIGDRVGIGGGTQISQFVTVGRGAYIGG 167
                              689*************************96 PP

>> Acetyltransf_11  Udp N-acetylglucosamine O-acyltransferase; Domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.7   0.0   6.1e-18   2.2e-14       1      81 [.     174     256 ..     174     257 .. 0.93

  Alignments for each domain:
  == domain 1  score: 53.7 bits;  conditional E-value: 6.1e-18
                              BB-TTEEEETTTTEEEEE-HHHHHHTT--HHHHHHHHHHHHHHHSSSS-HHHHHHHH..HHHTTTSCCHHHHHHHHHH-SS-B CS
          Acetyltransf_11   1 DVpPfvlvagnparlrglNlvgLkRrgfseeeikalkkayrllyrsglsleealeel..eeeaeespevqelldFieaskRGi 81 
                              D+p f+++ gn++ l+g+N++gL+R+g+s++ei+++ ++yr++ +s ls +  ++     +e++++  vqe+++ i++++ Gi
  PHY93_16080|PHY93_16080 174 DIPVFCTAMGNRVYLKGINIIGLRRQGYSKQEISEVVDFYRTMESSALSPRSFVDHTefMAEFKDNRVVQEMVEQIKKTEIGI 256
                              9********************************************99999988888766568888999*********999998 PP

>> Hexapep_2  Hexapeptide repeat of succinyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.9   3.5e-06     0.012      10      26 ..      20      38 ..      13      45 .. 0.89
   2 !    8.9   0.3   0.00034       1.2       1      22 [.      29      52 ..      29      53 .. 0.76
   3 !    8.6   0.8   0.00042       1.5       4      27 ..     117     130 ..     104     133 .. 0.65
   4 !   10.8   5.9   9.1e-05      0.33       2      32 ..     115     153 ..     114     155 .. 0.89
   5 !    8.5   2.2   0.00045       1.6       2      28 ..     139     167 ..     138     173 .. 0.89

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 3.5e-06
                             E-TT-EES..EEE-TT-EE CS
                Hexapep_2 10 iGanagiG..vslGdncvv 26
                             iG++++iG  v++G ncv+
  PHY93_16080|PHY93_16080 20 IGPFCIIGpnVEIGANCVL 38
                             9******999********8 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 0.00034
                             .EEE-TT-EE-TT-EE.S.EEE-T CS
                Hexapep_2  1 pviIGdnCliGanagi.G.vslGd 22
                             +v IG+nC++++  ++ G +++G+
  PHY93_16080|PHY93_16080 29 NVEIGANCVLHSHIVMdGhTTIGE 52
                             588*******99777666677776 PP

  == domain 3  score: 8.6 bits;  conditional E-value: 0.00042
                              E-TT-EE-TT-EESEEE-TT-EE- CS
                Hexapep_2   4 IGdnCliGanagiGvslGdncvvg 27 
                              +G            v lG+nc+++
  PHY93_16080|PHY93_16080 117 VGH----------DVVLGNNCIIA 130
                              222..........36666666666 PP

  == domain 4  score: 10.8 bits;  conditional E-value: 9.1e-05
                              EEE-TT-EE-TT-EE.......S.EEE-TT-EE-TT-EE CS
                Hexapep_2   2 viIGdnCliGanagi.......G.vslGdncvvgaGvvi 32 
                              v++G ++++G n++i       G v++Gd++ +g G  i
  PHY93_16080|PHY93_16080 115 VHVGHDVVLGNNCIIanstnfaGhVKIGDRVGIGGGTQI 153
                              899***********9998888889*********999755 PP

  == domain 5  score: 8.5 bits;  conditional E-value: 0.00045
                              EEE-TT-EE-TT-EES..EEE-TT-EE-T CS
                Hexapep_2   2 viIGdnCliGanagiG..vslGdncvvga 28 
                              v+IGd++ iG    i   v++G+++ +g 
  PHY93_16080|PHY93_16080 139 VKIGDRVGIGGGTQISqfVTVGRGAYIGG 167
                              89*************889*******9985 PP

>> Fucokinase  L-fucokinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.3   0.1   0.00013      0.48     278     359 ..       5      91 ..       2     102 .. 0.71
   2 ?    2.9   0.1     0.012        42     269     307 ..     105     144 ..      79     156 .. 0.62

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.00013
               Fucokinase 278 nSvlessvsvgegsvie.hsslkgnvsigsnsivsglelesseeslel.pddtilqtlslklskeke.....yvtvvfGieDdlks 356
                              +S++++++++ e+  i   + +++nv+ig+n+++++  ++ +++  ++   +++ q+ s+    +++      + +v+G+++   +
  PHY93_16080|PHY93_16080   5 SSLIDPQAKIHETVKIGpFCIIGPNVEIGANCVLHSHIVMDGHT--TIgEGNIFFQGCSIGAPPQDTsykgePTRTVIGTNNTFRE 88 
                              588888888887776654899*************9888888855..5514578888888876555555566666666666666666 PP

               Fucokinase 357 sve 359
                              +v+
  PHY93_16080|PHY93_16080  89 YVS 91 
                              555 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.012
               Fucokinase 269 kkkesavvinSvlessvsvgegsviehss.lkgnvsigsn 307
                               +++s +++   + ++v +g++++i +s+ + g+v+ig +
  PHY93_16080|PHY93_16080 105 IGNSSLLMAYVHVGHDVVLGNNCIIANSTnFAGHVKIGDR 144
                              2266666777777778888888888876415577777765 PP

>> UPF0223  Uncharacterised protein family (UPF0223)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.4     8e-05      0.29       9      50 ..     200     243 ..     197     253 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 8e-05
                              ---HHHHHHHHHHHHHHHHHHT...T-EEHHHHHHHHHHHHHH-- CS
                  UPF0223   9 dwsteeiidVveffeavekaye...kgvereellkaYrrFkevvp 50 
                               +s++ei +Vv+f++++e+      + v+ +e+++++++ + v +
  PHY93_16080|PHY93_16080 200 GYSKQEISEVVDFYRTMESSALsprSFVDHTEFMAEFKDNRVV-Q 243
                              589***************876435588999****999986544.3 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (259 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       580  (0.0323498); expected 358.6 (0.02)
Passed bias filter:                      489  (0.0272742); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.42
# Mc/sec: 1854.18
//
Query:       PHY93_16085|PHY93_16085  [L=314]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.4e-23   83.9   0.3    2.4e-23   83.2   0.3    1.4  1  GFO_IDH_MocA    Oxidoreductase family, NAD-binding Rossmann f
      0.002   18.2   0.0     0.0038   17.4   0.0    1.4  1  DapB_N          Dihydrodipicolinate reductase, N-terminus
     0.0027   17.7   0.0     0.0049   16.9   0.0    1.5  1  GFO_IDH_MocA_C  Oxidoreductase family, C-terminal alpha/beta 
  ------ inclusion threshold ------
      0.016   15.6   0.0      0.035   14.5   0.0    1.6  1  Semialdhyde_dh  Semialdehyde dehydrogenase, NAD binding domai
      0.047   13.3   0.0      0.093   12.3   0.0    1.5  1  IlvN            Acetohydroxy acid isomeroreductase, NADPH-bin
      0.086   13.1   0.0        8.6    6.7   0.0    2.5  2  TrkA_N          TrkA-N domain


Domain annotation for each model (and alignments):
>> GFO_IDH_MocA  Oxidoreductase family, NAD-binding Rossmann fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   83.2   0.3     8e-27   2.4e-23       1     120 []       4     122 ..       4     122 .. 0.96

  Alignments for each domain:
  == domain 1  score: 83.2 bits;  conditional E-value: 8e-27
                              EEEEEETTSHHHHHHHHHHHHTTTTEEEEEEECSSHHHHHHH.HHHTTHEEESSHHHHHTCTTESEEEE-S-GGGHHHHHHHHHHT CS
             GFO_IDH_MocA   1 lrvaiiGaGkigskhlrplnesqrleevvalldpdaeraeav.aesfgveaysdleelladpeidavivatpngtheelakaalea 85 
                              ++va+iG+G +g++h++++ +  +l+e+  ++++ +++ ea+  ++ +v++++d+++  +  +ida++v+tp++ h+el++ +l++
  PHY93_16085|PHY93_16085   4 IKVAVIGYGHLGKWHAQKVEAFPELAELKYIVEKFPAAIEAArIAHPNVQVVDDISKAID--DIDAAFVVTPTSFHFELVEFLLKN 87 
                              69**************************************99778888889999999999..************************ PP

                              T-EEEEESSS-SSHHHHHHHHHHHHHHTS-EEEE- CS
             GFO_IDH_MocA  86 gkhvllEKPlattveeakelvelaekkgklvsvgy 120
                              +khv++EKPl+ t ++a +l+el+  k+ +++vg+
  PHY93_16085|PHY93_16085  88 NKHVFCEKPLTETTTQALKLKELLVGKDLVLQVGH 122
                              *********************************97 PP

>> DapB_N  Dihydrodipicolinate reductase, N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.0   1.3e-06    0.0038       1      94 [.       4      91 ..       4     108 .. 0.88

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 1.3e-06
                             EEEEEETTTSHHHHHHHHHHHHSTTE.EEEEEEETTCSTTTTTBHHHHSSSS--S-BEBSSHHHHHHH-SEEEE-S-HHHHHHHHHHH CS
                   DapB_N  1 ikvavvGasGrmGkevvkaveeaedl.elvaavdrkeselegkdagellglgklgvavtddleevlekadvliDFTtpeavlenlkla 87
                             ikvav+G+ G +Gk  ++ ve+ ++l el   v++ +       a e++ + + +v+v dd+++++++ d +   T  +   e+++++
  PHY93_16085|PHY93_16085  4 IKVAVIGY-GHLGKWHAQKVEAFPELaELKYIVEKFP------AAIEAARIAHPNVQVVDDISKAIDDIDAAFVVTPTSFHFELVEFL 84
                             79******.*************877527888888888......5667888999***************99999999999999****** PP

                             HHTT-EE CS
                   DapB_N 88 lekgvkl 94
                             l++++++
  PHY93_16085|PHY93_16085 85 LKNNKHV 91
                             *999875 PP

>> GFO_IDH_MocA_C  Oxidoreductase family, C-terminal alpha/beta domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0   1.6e-06    0.0049      38      69 ..     159     190 ..     131     226 .. 0.71

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 1.6e-06
                              CSTSHHHHTCHHHHHHHHHHHTSEEEEEEEEE CS
           GFO_IDH_MocA_C  38 ksgGvlgdlgiHdiDllqwLfGqppsvvaalg 69 
                              ++  v+ dl iHd+Dll +LfG+ p++v   g
  PHY93_16085|PHY93_16085 159 TDVDVVQDLMIHDLDLLVYLFGETPISVESVG 190
                              6678899***************9998876443 PP

>> Semialdhyde_dh  Semialdehyde dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0   1.2e-05     0.035       1      94 [.       5      92 ..       5      93 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 1.2e-05
                             EEEEETTTSHHHHHHHHHHHCTSSEEEEEEEESTTTTTSBHHHHSGGGTTTECEBEEEGGGGGCTT-SEEEE-SCHHHHHHHHHHHHH CS
           Semialdhyde_dh  1 kvaivGatGyvGqellrlLeehpevelvvllsssrsaGkklaeavkaleegkdlkvedvdeeelkevdivflalpagvskelapklae 88
                             kva++G  G  G+  ++ +e  pe+ ++  + ++  a  + a+ +     + +++v d  +++++++d +f  +p + + el++ l++
  PHY93_16085|PHY93_16085  5 KVAVIG-YGHLGKWHAQKVEAFPELAELKYIVEKFPAAIEAARIA-----HPNVQVVDDISKAIDDIDAAFVVTPTSFHFELVEFLLK 86
                             79****.9*************999998888888885555555553.....35888888799999************************ PP

                             TTSEEE CS
           Semialdhyde_dh 89 agvkvi 94
                             ++ +v+
  PHY93_16085|PHY93_16085 87 NNKHVF 92
                             999885 PP

>> IlvN  Acetohydroxy acid isomeroreductase, NADPH-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   3.1e-05     0.093       3      78 ..       2      82 ..       1      92 [. 0.63

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 3.1e-05
                             HTS-EEEES-SHHHHHHHHHHHHTT..--EEEEE-TT-H...HHHHHHHTT-EEEEHHHHHHT-SEEEE-S-HHHHHHHHH CS
                     IlvN  3 kgkkiaviGyGsqGhaqalnlrdsg..ldvvvglregsk...svkkAkeegfevltvaeavkkadvvmiliPDelqkevye 78
                             k+ k+aviGyG  G+ +a+++       ++ + +++  +    ++ A+ +   v ++++a+++ d  ++++P +++ e++e
  PHY93_16085|PHY93_16085  2 KKIKVAVIGYGHLGKWHAQKVEAFPelAELKYIVEKFPAaieAARIAHPNVQVVDDISKAIDDIDAAFVVTPTSFHFELVE 82
                             6679***************99864211244444444443001333444444455566777777788888888887777665 PP

>> TrkA_N  TrkA-N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.7   0.0    0.0029       8.6       1      48 [.       6      56 ..       6      89 .. 0.87
   2 ?    3.9   0.0      0.02        60      45      77 ..     154     186 ..     144     200 .. 0.85

  Alignments for each domain:
  == domain 1  score: 6.7 bits;  conditional E-value: 0.0029
                             EEEES-SHHHHHHHHHHHH.TT..EEEEEEESSHHHHHHHHHTTSEEEES- CS
                   TrkA_N  1 iiiiGlGrvGrslaeeLse.gg..kdvvvidkdeerveelreeglevvvgd 48
                             +++iG+G +G+  a+++++  +  +  ++++k ++++e +r    +v v d
  PHY93_16085|PHY93_16085  6 VAVIGYGHLGKWHAQKVEAfPElaELKYIVEKFPAAIEAARIAHPNVQVVD 56
                             68****************97779966799*********9999988876655 PP

  == domain 2  score: 3.9 bits;  conditional E-value: 0.02
                              EES-TTSHHHHHHTTGGGESEEEE-SSSHHHHH CS
                   TrkA_N  45 vvgdatdeevLeeagiekadaviaatgddeani 77 
                              ++g atd +v++++ i + d+++ + g+   ++
  PHY93_16085|PHY93_16085 154 FKGRATDVDVVQDLMIHDLDLLVYLFGETPISV 186
                              789********************9988766555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (314 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       588  (0.032796); expected 358.6 (0.02)
Passed bias filter:                      469  (0.0261587); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.58u 0.30s 00:00:00.87 Elapsed: 00:00:00.55
# Mc/sec: 1722.85
//
Query:       PHY93_16090|PHY93_16090  [L=386]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.8e-74  249.2   0.2    6.7e-74  249.0   0.2    1.0  1  LpxB      Lipid-A-disaccharide synthetase
     0.0012   18.0   0.0      0.002   17.3   0.0    1.3  1  DUF354    Protein of unknown function (DUF354)
  ------ inclusion threshold ------
      0.025   14.5   0.1       0.66    9.9   0.0    2.4  2  Sec20     Sec20


Domain annotation for each model (and alignments):
>> LpxB  Lipid-A-disaccharide synthetase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  249.0   0.2   1.1e-77   6.7e-74       1     357 [.       8     358 ..       8     375 .. 0.91

  Alignments for each domain:
  == domain 1  score: 249.0 bits;  conditional E-value: 1.1e-77
                              EEEEE-SHHHHHHHHHHHHHHHHH-TT-EEEEEE-HHHHHTT-EEEEEGGGH------------HHHHHHHHHHHHHHHHH--SEE CS
                     LpxB   1 iflsagevSgdllgaelikelkeeypelefvGvggekmeaeglealaemeeisvvGlievlkkllkllkirkkvvknllkkkadll 86 
                              +++++ge Sg+ +     kel+ + p+ +f+Gvgge ++ +gle+l++ +++s+ G  ev+ k+++  k+ ++++ ++ k++ ++ 
  PHY93_16090|PHY93_16090   8 CLIITGEKSGEEHALSFFKELRFNSPDTKFFGVGGEDLKLAGLELLYNLKDFSSWGYSEVIFKIPFYIKAMNHILAEVGKRNCQVA 93 
                              789*********************************************************************************** PP

                              EEES-HHHHHHHHHHHHHTT--..EEEES--TTT--SHHHHHHHHHH-SEEEESSHHHHHHHHHTT-.-EEE---HHHHHS-SS-- CS
                     LpxB  87 iliDapdfnlrlakklrkqgikkkiiyyvsPsvWawkpkrakkiakytdlllaiLPfEkefyqkkgl.dvryvGHplldaikkekk 171
                              il+D+ +fnl+la kl+++g++  ++yyv+P++Wawk+ r+kk+ +y++ l+ i+PfEk+++++ g+ +v  + Hpl  + +k+  
  PHY93_16090|PHY93_16090  94 ILVDYQSFNLKLAGKLKARGVE--VLYYVAPQAWAWKEYRVKKLSEYVNTLFTIIPFEKKWFHERGVkKVISIDHPLWTTYEKDLM 177
                              **********************..9*****************************************735889*******9999999 PP

                              HHHHHHHHT--TTS-EEEEE--SSHHHHHHHHHHHHHHHHHHHHH-TT-EEEEEESSHHHHHHHHHHHHHH-TT---EEEES-HHH CS
                     LpxB 172 eakakellgidedervlallpgsRkseirrllksllkaaqqlkkqlenlkllvplvnkkyeeqileikaeenldvqllllsgeale 257
                              + +   +    ++   l llpgsR+ e+  ll+ +++ +  l+k+++   l v++v++      +++ + +n+ ++ +  ++e  +
  PHY93_16090|PHY93_16090 178 NFSSTSFSPATKKPMRLLLLPGSRQFEVGHLLPVFIESIRVLQKEYS---LEVSIVKSSGVS--ENLYEAYNQYFDKIYTNEELVT 258
                              999999997777777899************************99986...555555555555..6788899999999********* PP

                              HHHH-SEEEESSTTHHHHHHHTT--EEE-----HHHHHHHHHHHHHS-.-SHHHHHHTS-SS----GGG-SHHHHHHHHHHHHTTS CS
                     LpxB 258 alaaadlaliksGTaaLEaalaktPmvvayrvkpltfflakrlvkiky.vslvNillnreivpeliqeesdaqleaaalllllene 342
                              al  ad+al+ sGT++L +al ++P+vv y+ + l+ f+   +v+ k+ +sl+Ni+ nr ++pel+q + +  ++  +l+   +ne
  PHY93_16090|PHY93_16090 259 ALKRADFALASSGTVTLTCALFEVPTVVCYKTSLLNQFIFEAVVRYKWfISLANIVQNRAVFPELLQDQVTSYNIVSHLKFWCNNE 344
                              ***********************************************99**********************999988877777766 PP

                              ...HHHHHHHHHHHH CS
                     LpxB 343 ekakkekdkekkfee 357
                               + ++e  ++ k+++
  PHY93_16090|PHY93_16090 345 -RDYHELKEQLKLTK 358
                              .65655555555544 PP

>> DUF354  Protein of unknown function (DUF354)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   0.0   3.3e-07     0.002     210     285 ..     216     294 ..     204     320 .. 0.74

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 3.3e-07
                   DUF354 210 veklkdrid..ilviprdeeqkeiyeevdnviv.iketvdalsllkrsdlviGaGGtmnreaallGipvvscypqklls 285
                              + +l++     + ++      +++ye +++    i    + ++ lkr+d+ + + Gt+   +al+ +p+v cy   ll+
  PHY93_16090|PHY93_16090 216 IRVLQKEYSleVSIVKSSGVSENLYEAYNQYFDkIYTNEELVTALKRADFALASSGTVTLTCALFEVPTVVCYKTSLLN 294
                              556666544336666666666777777775432022333456789****************************999885 PP

>> Sec20  Sec20
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.0   0.00011      0.66      29      68 ..     227     266 ..     215     288 .. 0.80
   2 ?    1.9   0.0     0.036   2.1e+02      30      60 ..     332     362 ..     313     365 .. 0.75

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00011
                    Sec20  29 eeldastkslekleeeykqvedvlsrskklvkklerrdkt 68 
                               ++++s+ + e+l e y q  d +++ ++lv+ l+r+d +
  PHY93_16090|PHY93_16090 227 VSIVKSSGVSENLYEAYNQYFDKIYTNEELVTALKRADFA 266
                              47999*******************************9964 PP

  == domain 2  score: 1.9 bits;  conditional E-value: 0.036
                    Sec20  30 eldastkslekleeeykqvedvlsrskklvk 60 
                              ++++  k   + e +y+++++ l+ +kklv+
  PHY93_16090|PHY93_16090 332 NIVSHLKFWCNNERDYHELKEQLKLTKKLVR 362
                              555555555667789**************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (386 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       633  (0.0353059); expected 358.6 (0.02)
Passed bias filter:                      437  (0.0243739); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.60u 0.24s 00:00:00.84 Elapsed: 00:00:00.47
# Mc/sec: 2448.20
//
Query:       PHY93_16095|PHY93_16095  [L=354]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.1e-79  266.0   0.0    4.7e-79  265.8   0.0    1.0  1  LpxK      Tetraacyldisaccharide-1-P 4'-kinase
  ------ inclusion threshold ------
       0.12   12.1   0.1       0.29   10.9   0.1    1.6  1  DUF5615   Domain of unknown function (DUF5615)


Domain annotation for each model (and alignments):
>> LpxK  Tetraacyldisaccharide-1-P 4'-kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  265.8   0.0   5.3e-83   4.7e-79       3     325 ..      12     351 ..      10     353 .. 0.90

  Alignments for each domain:
  == domain 1  score: 265.8 bits;  conditional E-value: 5.3e-83
                              GGGHHHHHHHHHHHHHHHHHHHTTSS--B--SS-EEEEEESBSS-HSHHHHHHHHHHHTTTS..-EEEEE--TSSSS-S.EEEEEE CS
                     LpxK   3 llLlplsllyglvvalrralyragllkserlpvpVivVGNitvGGtGKTPlvialvkllqarglkvgvlSRGYggkskgapvlvsa 88 
                              ++ +pls+++g++   rr  y++g+l++ +++vp+i++GN+t GGtGKTP++++l ++l+ ++ +v++l RGY+g+ ++   l+ +
  PHY93_16095|PHY93_16095  12 IFFTPLSWVWGFIYYSRRICYDYGILRQRSFQVPIISIGNLTFGGTGKTPFTLWLSEYLHTKNKRVMILMRGYKGRLENSSGLLYS 97 
                              6899*************************************************************************998888877 PP

                              TT....-HHHH-HHHHHHHHHST.SEEEEESSHHHHHHHHHHHC--SEEEEET-SS-TTB--SEEEEEE..EHHHHC--BTTTSSB CS
                     LpxK  89 es....saaevGDEplllarrtg.vpvvVgsdRvaaarallakaeldviilDDGlQhyaLardleivvvdaergfgngrllPaGpL 169
                              ++    +a + GDE+ll+arr++ ++vvVg++R + +     k e+dv++l DG+Qh +++r l+iv++da  ++ + ++ P G +
  PHY93_16095|PHY93_16095  98 GKkinpDAGDYGDEALLFARRLEdATVVVGKKRSENLSFYFPKVEPDVVLLEDGHQHIKIKRKLNIVLFDALLPLAKYKVAPLGYM 183
                              7779999******************************************************************************* PP

                              SS-GGGGGG-SEEEE...........-TTTS.......SSS-EEEEEEEE.EETTS-...EE-GGGGTTS-EEEEESSTTHHHHHH CS
                     LpxK 170 REplsrlkradlvilngaka.eeeeaekaee.......ksipvlrmrlepkklalla...aaeeealagkkvlavaGignPerFfk 244
                              RE +++lk+adl++++ a+  + +++ + +e       ++i+  +++ +p+   + a     + ++++++kv++vaG++nP++Ffk
  PHY93_16095|PHY93_16095 184 REGFQALKDADLIVIGRADLvKPAKILALKElliphlpRGIQFAEVSFRPNGFYNSAydlVYTLDQIRDRKVICVAGVANPRSFFK 269
                              ************999655541455554444488889988888889999998775554223445566999999************** PP

                              HHHHHT--EEEEEEE-TT---TT........----TT-EEEE-HHHHTTSTT........EEEEEEEEEE...HHHHHHHHHGG CS
                     LpxK 245 tLealglevvetlafpDHhaftaedleeleeeakelgallvtTeKDavklaalakenklelwvlpveael...eealeeallkk 325
                               Le+lg+++  t +fpDHh f+++++++l + ak+++al+vtTeKD v+++++ +++  ++++l+v++++   e++ +e++++ 
  PHY93_16095|PHY93_16095 270 LLEDLGADILVTESFPDHHFFKPDEINSLLSYAKSEDALIVTTEKDIVRIKKIVNDE--SIVFLEVDIQFlsgEKETKEIIDSC 351
                              ************************************9**************865555..69*********99888888888765 PP

>> DUF5615  Domain of unknown function (DUF5615)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.1   3.3e-05      0.29      10      61 ..     264     319 ..     261     333 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 3.3e-05
                  DUF5615  10 sprlvellreaghdvlhvrelgleg..asDe..eileyAkeedriivTkDkDFgel 61 
                              ++++ +ll+++g d+l + +  ++    +De    l+yAk+ed++ivT  kD  ++
  PHY93_16095|PHY93_16095 264 PRSFFKLLEDLGADILVTESFPDHHffKPDEinSLLSYAKSEDALIVTTEKDIVRI 319
                              678888899999999999888888776666433679**************997665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (354 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       369  (0.0205812); expected 358.6 (0.02)
Passed bias filter:                      345  (0.0192426); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.42
# Mc/sec: 2537.27
//
Query:       PHY93_16100|PHY93_16100  [L=367]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.3e-29  102.1   0.1    5.8e-29  101.7   0.1    1.2  1  DUF3108       Protein of unknown function (DUF3108)
  ------ inclusion threshold ------
      0.039   13.8   0.4      0.069   13.0   0.4    1.3  1  Palm_thioest  Palmitoyl protein thioesterase


Domain annotation for each model (and alignments):
>> DUF3108  Protein of unknown function (DUF3108)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  101.7   0.1   6.5e-33   5.8e-29       4     225 .]      91     362 ..      88     362 .. 0.91

  Alignments for each domain:
  == domain 1  score: 101.7 bits;  conditional E-value: 6.5e-33
                  DUF3108   4 aaaaaaaaaaana..................................f.pGetltYrvsygglnageatlsvet......dpvyri 48 
                              aaaaaa+++ +++                                  f  Ge+    +sy+g++ag++t+s ++      +++y++
  PHY93_16100|PHY93_16100  91 AAAAAATKSIQAShvgtdgfnypadypqllkdydsvskslwgkfkpmFlQGEQSIMAISYLGVTAGYITISSKDivklsdKTAYHY 176
                              4555555555555899999999999999999999999999999999999***********999**********7899********* PP

                  DUF3108  49 sltarttglldlffkvrdtlesy.dsgrlvPsrfrkkareggkkkveevtf.........argakkerdvepekdrtislpagvqD 124
                               ++++++ +++ f+ ++dtle++ d++++ P +++  +re ++  v+++++         ++ ++ +  ++++++ +  +p+ +qD
  PHY93_16100|PHY93_16100 177 YARFKSKDAFRYFYWLDDTLETFiDTSSFLPIKYSLIQREKKQ-NVDDLELfdfkklktfHWYKRVKIGSNKDEKIERYIPRFTQD 261
                              ************************************6666655.55555555********88888888888888888899****** PP

                  DUF3108 125 plsalyylrtsklkvgdsitlpvfdgrkrydlklkvlgretvktplgkyetlkvrpvvreagvfkekrdievWladdanriPvrie 210
                                sal ++r  +l++gd +++pv++ ++ + lk++v g+e +++    +++++++    ++gv ++++di +W+++d+ r  v+++
  PHY93_16100|PHY93_16100 262 SFSALQFVRGLPLHKGDLYDFPVVTRGEPWLLKIEVMGEEIISVSGNDIKAYRLKAETHFPGVLQKSGDINFWYSADETRKLVKFQ 347
                              *********99**********************************779************99************************ PP

                  DUF3108 211 adlkvGsvtaeLtsy 225
                              a++k+Gs+  eL++y
  PHY93_16100|PHY93_16100 348 AKVKIGSIFGELVEY 362
                              ************998 PP

>> Palm_thioest  Palmitoyl protein thioesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.4   7.7e-06     0.069      20     188 ..      55     248 ..      40     257 .. 0.69

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 7.7e-06
             Palm_thioest  20 eliekli.gtyvknveigesea.edrkasffgnlndqveavckk..................lelangfhaiGfSQGglflRalie 85 
                              e   + + +t+vk ve++ s++ +++k s +++++  ++a+++k                  ++l + ++ +  S  g f   +++
  PHY93_16100|PHY93_16100  55 EVGADTVkPTEVKAVETKISKKsKTKKTSKVEDVKSAAAAAATKsiqashvgtdgfnypadyPQLLKDYDSVSKSLWGKFKPMFLQ 140
                              44444443488888885544442566667778888777775555566667777788888888667788999999999999999998 PP

             Palm_thioest  86 rcddkknvrnlislggpqaGvfglllckvae..kllasgavysklvqkslvqaqywrdpekleeYlkknkFLpdiNnerdhaknet 169
                                +        is  g+ aG+ ++    +++  +++a++  y ++  k  +   yw d +  e+++++++FLp      + +k+++
  PHY93_16100|PHY93_16100 141 GEQ----SIMAISYLGVTAGYITISSKDIVKlsDKTAYH-YYARFKSKDAFRYFYWLDDTL-ETFIDTSSFLPIKYSLIQREKKQN 220
                              863....4579**********998222222222334444.45666667777778******7.9**********8888777777777 PP

             Palm_thioest 170 ykk....nllkleklvl.....vgfsdD 188
                              + +     ++kl+ +++     +g+++D
  PHY93_16100|PHY93_16100 221 VDDlelfDFKKLKTFHWykrvkIGSNKD 248
                              7756667999999999855544555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (367 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1042  (0.0581181); expected 358.6 (0.02)
Passed bias filter:                      513  (0.0286129); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.42
# Mc/sec: 2647.59
//
Query:       PHY93_16105|PHY93_16105  [L=272]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    0.00011   22.2   0.0    0.00015   21.8   0.0    1.2  1  Glyco_transf_4  Glycosyltransferase Family 4


Domain annotation for each model (and alignments):
>> Glyco_transf_4  Glycosyltransferase Family 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.8   0.0   8.6e-09   0.00015      17     165 ..      34     170 ..      30     175 .. 0.74

  Alignments for each domain:
  == domain 1  score: 21.8 bits;  conditional E-value: 8.6e-09
           Glyco_transf_4  17 rrGheVtvvtpgddgpleeevelvvrvprvplpllkrl.lrslaflrr..lrrllkrekpDvvHahspaalgaallalrr.rlgip 98 
                              ++G++++++t +d+  +       +++    +p+++ +  r+  f+++  l ++ k   +D+vH+ ++  l+   + l+     + 
  PHY93_16105|PHY93_16105  34 KQGYNIYLCTYEDSFLAKIV----RNLDIEIIPFKEHFlNRMTVFHKHfpLSQINKLATIDIVHCYDFNLLFSLSVQLKTeNFTAL 115
                              68999999998877777766....44444444444444044444443311555555559***********9999999999555555 PP

           Glyco_transf_4  99 lVltvHglyekrllkarlkplsrllralerrllrradrviavSeatadelrerygvppekitVipnG 165
                              +++  H  +            ++l r ++r l++r d +i v + ++++ + ++g+p +ki+    G
  PHY93_16105|PHY93_16105 116 VITQDHVID------------KPLQRFWYRPLISRIDSLIMVNKNLKQDALGNLGLPLKKIEYFGMG 170
                              666677777............899999**********************************976655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (272 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       328  (0.0182944); expected 358.6 (0.02)
Passed bias filter:                      248  (0.0138323); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.43
# Mc/sec: 1893.07
//
Query:       PHY93_16110|PHY93_16110  [L=119]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (119 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       426  (0.0237604); expected 358.6 (0.02)
Passed bias filter:                      393  (0.0219198); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 890.11
//
Query:       PHY93_17360|PHY93_17360  [L=407]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.021   14.8   0.0      0.037   14.0   0.0    1.3  1  DUF3027       Protein of unknown function (DUF3027)
      0.039   14.1   0.1      0.062   13.4   0.1    1.3  1  CRISPR_assoc  CRISPR associated protein
       0.11   12.7   0.0       0.25   11.6   0.0    1.6  1  AHSA1         Activator of Hsp90 ATPase homolog 1-like protei


Domain annotation for each model (and alignments):
>> DUF3027  Protein of unknown function (DUF3027)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   6.2e-06     0.037      50     125 ..     175     253 ..     166     264 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 6.2e-06
                  DUF3027  50 LlpgedallapewvPwkeRlr...pgDlgpgdllpteedDerlepgyeasedeeeeeevaeelglgrkrvlsregreea 125
                              ++ g +a  a++w+P+k Rl+   ++D +++  l+ +  + r+  ++++s +e++e++++ +++ g ++++++ + e a
  PHY93_17360|PHY93_17360 175 MIKGIEASEASSWIPYKMRLEltvAADATVSMALASAGGEIRMRFEWRRSFNESKEKNTLGKVAEGSRQLMNNLAEEIA 253
                              678889*************9855578******************99999988888999999999999999988876655 PP

>> CRISPR_assoc  CRISPR associated protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.1     1e-05     0.062     170     212 ..     109     149 ..      32     153 .. 0.70

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 1e-05
                              EEEEEEETTTTCCE..EEEEEEEEEECEEEESSHHHHHHHHHH-C CS
             CRISPR_assoc 170 rlrfrkkakkkkke..kvtlssvtfeGlltVtDpelfreaLleGi 212
                              + r+rk+a     e   ++  +v+f+G+ ++tD+e++  +L++G+
  PHY93_17360|PHY93_17360 109 KKRSRKNAD----EndDFKAGTVNFQGIQKITDVEKIFGQLAKGL 149
                              222223222....2358*************************996 PP

>> AHSA1  Activator of Hsp90 ATPase homolog 1-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   4.2e-05      0.25      74     123 ..     199     251 ..     174     253 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 4.2e-05
                              EEEEEEEEEEEEETTEEEEEEEEEEEEHCHHHHHH...HHHHHHHHHHHHHHH CS
                    AHSA1  74 eeestvtieleeegggTrltlthtglprkqkeeeg...veeGweqsldqLkal 123
                               +++tv++ l  +gg+ r+++++++  ++ ke++    v+eG +q++++L++ 
  PHY93_17360|PHY93_17360 199 AADATVSMALASAGGEIRMRFEWRRSFNESKEKNTlgkVAEGSRQLMNNLAEE 251
                              4589*******************444444444444469************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (407 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       862  (0.0480785); expected 358.6 (0.02)
Passed bias filter:                      497  (0.0277205); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.40
# Mc/sec: 3034.75
//
Query:       PHY93_16115|PHY93_16115  [L=736]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    8.3e-52  175.3   4.5    2.4e-51  173.8   4.5    1.8  1  E1-E2_ATPase  E1-E2 ATPase
    9.9e-41  140.3   5.2    9.9e-41  140.3   5.2    2.1  3  Hydrolase     haloacid dehalogenase-like hydrolase
    2.2e-07   30.9   1.9     0.0034   17.1   0.6    2.8  2  Hydrolase_3   haloacid dehalogenase-like hydrolase
  ------ inclusion threshold ------
       0.03   14.4   0.2      0.083   13.0   0.0    1.8  2  HAD_2         Haloacid dehalogenase-like hydrolase
       0.12   12.4   0.1       0.31   11.1   0.1    1.7  1  PilJ          Type IV pili methyl-accepting chemotaxis transd
       0.18   10.9   0.0       0.29   10.2   0.0    1.3  1  CAF1          CAF1 family ribonuclease


Domain annotation for each model (and alignments):
>> E1-E2_ATPase  E1-E2 ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  173.8   4.5     8e-55   2.4e-51       2     179 ..     223     403 ..     222     404 .. 0.98

  Alignments for each domain:
  == domain 1  score: 173.8 bits;  conditional E-value: 8e-55
                              SS--EEEEE.-TTS-EEEEGGG--TTSEEEEETT-B--SEEEEEEE-SEEE-TTTS---S-EE-G-TTEE-TT-EEEE-EEEEEEE CS
             E1-E2_ATPase   2 llpptakvi.rdgteeeidakelvpGDivllkagdrvpaDgrivegsaevdesaLTGEslpvekekgdmvfsGtvvvsgeakavVt 86 
                              l p+ta+++  +gtee+i+ +++v++D + +++g+++p+Dg +++g ++vdes++ GE++pvek +g++v + t++  g++++++ 
  PHY93_16115|PHY93_16115 223 LAPKTARRVnANGTEEDIPLEKVVVNDQLRVRPGEKIPVDGTVLSGLSSVDESMVSGEAVPVEKIAGSSVVGATINATGSFIMKAE 308
                              67899999999*************************************************************************** PP

                              E-TTTSTTTTTSTTS--------HHHHHHHHHHHHHHHHHHHHHHHHHHS-STTTSSTT..HHHHHHHHHHHHHS-TTHHHHHHHH CS
             E1-E2_ATPase  87 atgedtelgkiarlveeakskktplqkkldklgkvlvpvvlliallvflialllgksla..eallralallvaaiPcaLplavpla 170
                              ++g+dt l++i+++v+ea+++++p+qk +d +++++vp+v+li++++ +++ l+g ++   +a+++a+a+l++a+PcaL+la+p++
  PHY93_16115|PHY93_16115 309 KIGKDTLLAQIVQMVSEAQRSRAPIQKLADLVAGYFVPIVILISVITGIVWALVGPDPKlaHAIVNAVAVLIIACPCALGLATPMS 394
                              ************************************************************************************** PP

                              HHHHHHHHH CS
             E1-E2_ATPase 171 lalgarrla 179
                              ++++++r a
  PHY93_16115|PHY93_16115 395 IMVATGRGA 403
                              *****9987 PP

>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       1.8   5.4e+03       8      26 ..     261     279 ..     261     315 .. 0.79
   2 ?   -2.1   0.0       1.3   3.8e+03     146     184 ..     331     374 ..     313     380 .. 0.61
   3 !  140.3   5.2   3.3e-44   9.9e-41       1     209 [.     421     637 ..     421     638 .. 0.90

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 1.8
                              SBTTTBCHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxx RF
                Hydrolase   8 kdGTLttgepsvedvivsa 26 
                              +dGT++ g +sv + +vs 
  PHY93_16115|PHY93_16115 261 VDGTVLSGLSSVDESMVSG 279
                              59******99999999987 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 1.3
                              HHHHHHHHH.TTGGGE.SEEEEHHCES.....STTTSHHHHHHHHH CS
                              xxxxxxxxx.xxxxxx.xxxxxxxxxx.....xxxxxxxxxxxxxx RF
                Hydrolase 146 etaeraanq.lGddyf.daviasdiet.....vakpspegkvaair 184
                              ++ +++a+  +G  yf  +vi +++ t       +p+p+  +a+++
  PHY93_16115|PHY93_16115 331 APIQKLADLvAG--YFvPIVILISVITgivwaLVGPDPKLAHAIVN 374
                              556666666555..55555555555555555555566655555544 PP

  == domain 3  score: 140.3 bits;  conditional E-value: 3.3e-44
                              SSEEEEESBTTTBCHHHHHHHHHHHH......CHHHHHHHHHHHHCHHHHHHHHHHHHH...HHHHHHHHHETTTE........HH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxx........xx RF
                Hydrolase   1 iktvvfDkdGTLttgepsvedvivsa......alalaaaletgsehpigkalvaaakar...sgaltgfatfigrg........ay 69 
                              ++t++ Dk+GTLt g+p +++v           l+laa le +sehp++ a+v  ak+r     ++t+f  ++g+g        ++
  PHY93_16115|PHY93_16115 421 VDTIIVDKTGTLTAGKPKLVTVKSVGtlseneLLSLAASLEKASEHPLATAIVTGAKERnitLVDVTDFSSVTGKGikalagskKI 506
                              68**************999886666633334445555555555****************7777777******************** PP

                              HHTHHHHHHHH.HCHHHHHHHHHHHHHHCHHHHHH..TTHHHHHHHHHHTHHBHTTHHHHHHHHHHTTEEEEEEESSEHHHHHHHH CS
                              xxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase  70 aigkpewltal.dippdlgaaigsaqsqgrtvall..qaralavftiadplkvkpeaaeavasLkaagievvlltgdnpetaeraa 152
                              a+g+  ++++l   +++++++++++ ++g+tv+++  +++  + + + dp  +k+ +  a+++L++ gi+v+++tgdn++tae++a
  PHY93_16115|PHY93_16115 507 AVGNIVLMDDLsINYKNFEKEMDALREDGQTVMFVaiDNEFAGFLGVIDP--IKETTLIAIKTLQDLGIKVAMITGDNSKTAESVA 590
                              ***********999*********************7777777788888**..********************************** PP

                              HHTTGGGESEEEEHHCES.STTTSHHHHHHHHHHHTSTGGGEEEEESSHHHHHHHHHT CS
                              xxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 153 nqlGddyfdaviasdiet.vakpspegkvaaireLqgkpeevamVGDgvnDaaalaaA 209
                              +++G           i+  +a ++pe k ++i++Lq +++ vam GDg+nDa+ala A
  PHY93_16115|PHY93_16115 591 KKVG-----------IDLfFADVLPEKKAEIIKKLQDEGKFVAMAGDGINDAPALALA 637
                              ****...........6666*****************99999**************977 PP

>> Hydrolase_3  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.8   0.0   4.8e-05      0.14      16      58 ..     557     599 ..     554     602 .. 0.93
   2 !   17.1   0.6   1.2e-06    0.0034     195     242 ..     610     657 ..     605     669 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 4.8e-05
                              --HHHHHHHHHHHHTTSEEEEE-SS-HHHHHHHHHHCCCCSEE CS
              Hydrolase_3  16 isektkeaikklkekgikvviATGRslravlpvleelgldlpv 58 
                              i+e t  aik l++ gikv+  TG + +++++v++++g+dl++
  PHY93_16115|PHY93_16115 557 IKETTLIAIKTLQDLGIKVAMITGDNSKTAESVAKKVGIDLFF 599
                              788999*********************************9775 PP

  == domain 2  score: 17.1 bits;  conditional E-value: 1.2e-06
                              HHHHCT--GGGEEEEESSGGGHHHHHHSSEEEEETTS-HHHHHHSSEE CS
              Hydrolase_3 195 lakelnisleeviafGDgeNDieMLeaaglgvAmgnaseevkkaAdyv 242
                              ++k+l+ + + v+  GDg ND + L  a +g+Amg +++ + + A  +
  PHY93_16115|PHY93_16115 610 IIKKLQDEGKFVAMAGDGINDAPALALAQVGIAMGTGTDVAMNTAGLT 657
                              66777777888999*************************999988665 PP

>> HAD_2  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0       2.9   8.7e+03      88     109 ..     460     481 ..     456     484 .. 0.82
   2 ?   13.0   0.0   2.8e-05     0.083      87     132 ..     564     609 ..     537     633 .. 0.88

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 2.9
                    HAD_2  88 LeeLkeagyklgivTsksreav 109
                              Le+ +e+ +  +ivT  +++++
  PHY93_16115|PHY93_16115 460 LEKASEHPLATAIVTGAKERNI 481
                              88888999999****9988776 PP

  == domain 2  score: 13.0 bits;  conditional E-value: 2.8e-05
                    HAD_2  87 lLeeLkeagyklgivTsksreaveekleqlgiesyFdvivtsedve 132
                              ++++L++ g+k++ +T  +++++e+  +++gi+ +F  ++ ++++e
  PHY93_16115|PHY93_16115 564 AIKTLQDLGIKVAMITGDNSKTAESVAKKVGIDLFFADVLPEKKAE 609
                              589999*******************************999877766 PP

>> PilJ  Type IV pili methyl-accepting chemotaxis transducer N-term
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.1    0.0001      0.31       8      50 ..     292     336 ..     287     343 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.0001
                     PilJ   8 gdaaaINvAGslRMqsqRlakeallaaaga..ydaaearaqlret 50 
                                +a IN++Gs  M + +++k++lla+  +  ++a+++ra +++ 
  PHY93_16115|PHY93_16115 292 VVGATINATGSFIMKAEKIGKDTLLAQIVQmvSEAQRSRAPIQKL 336
                              56899*******************999988777777777666655 PP

>> CAF1  CAF1 family ribonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0   9.8e-05      0.29       1      32 [.     519     550 ..     519     569 .. 0.87

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 9.8e-05
                              E-GGGHHHHHHHHHHHHHH-SEEEEEEEES-S CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     CAF1   1 VtrsNfkellpeilkaikeasFvAiDlEftGl 32 
                              ++ +Nf++ ++ ++++ ++  FvAiD Ef G+
  PHY93_16115|PHY93_16115 519 INYKNFEKEMDALREDGQTVMFVAIDNEFAGF 550
                              6789***************************6 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (736 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       819  (0.0456802); expected 358.6 (0.02)
Passed bias filter:                      538  (0.0300073); expected 358.6 (0.02)
Passed Vit filter:                        60  (0.00334653); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.81u 0.34s 00:00:01.15 Elapsed: 00:00:00.62
# Mc/sec: 3594.41
//
Query:       PHY93_16120|PHY93_16120  [L=250]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (250 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       597  (0.033298); expected 358.6 (0.02)
Passed bias filter:                      483  (0.0269396); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.47
# Mc/sec: 1587.75
//
Query:       PHY93_16125|PHY93_16125  [L=112]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (112 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       430  (0.0239835); expected 358.6 (0.02)
Passed bias filter:                      284  (0.0158403); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.42
# Mc/sec: 808.21
//
Query:       PHY93_16130|PHY93_16130  [L=106]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.4e-22   78.6   1.1    4.2e-22   78.3   1.1    1.1  1  Trns_repr_metal  Metal-sensitive transcriptional repressor
  ------ inclusion threshold ------
      0.037   14.3   0.3        3.5    8.0   0.1    2.3  2  TcdB_N           TcdB toxin N-terminal helical domain
      0.093   12.6   0.1       0.12   12.3   0.1    1.2  1  DAPDH_C          Diaminopimelic acid dehydrogenase C-terminal


Domain annotation for each model (and alignments):
>> Trns_repr_metal  Metal-sensitive transcriptional repressor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.3   1.1   7.1e-26   4.2e-22       2      74 ..      21     100 ..      20     102 .. 0.86

  Alignments for each domain:
  == domain 1  score: 78.3 bits;  conditional E-value: 7.1e-26
                              HHHHHHHHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH.......HHHHHHHHH CS
          Trns_repr_metal   2 kkkllnrLkrieGQvrgiqrmieedryCidiltQlaAvrsalnkvglelledhlkhcvaeaiee.......ekieeliel 74 
                              ++  l+ L r++GQv+g+++mi+++ryCidi++Ql+Av++ l+ +++++ e hlk+cv+ a ++        ki+e+ +l
  PHY93_16130|PHY93_16130  21 HRSHLKQLARVKGQVEGVEKMIQDGRYCIDIINQLKAVSAGLKVIESAIFEGHLKSCVVAALSSnnnediqIKINEINKL 100
                              56789******************************************************666444565565577777766 PP

>> TcdB_N  TcdB toxin N-terminal helical domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.1   0.0    0.0095        57      10      32 ..       7      28 ..       5      31 .. 0.88
   2 ?    8.0   0.1   0.00059       3.5      14      35 ..      79     100 ..      72     102 .. 0.85

  Alignments for each domain:
  == domain 1  score: 4.1 bits;  conditional E-value: 0.0095
                             HHHHHHTTTTS-HHHHHHHHHHH CS
                   TcdB_N 10 leeklnklseeqskkkyellkkl 32
                             l++k+ ++++ + +++++ lk+l
  PHY93_16130|PHY93_16130  7 LADKN-NHESHNHPDHRSHLKQL 28
                             77895.***************98 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.00059
                              HHTTTTS-HHHHHHHHHHHHHH CS
                   TcdB_N  14 lnklseeqskkkyellkklkke 35 
                              ++ ls++++++ + ++++++k+
  PHY93_16130|PHY93_16130  79 VAALSSNNNEDIQIKINEINKL 100
                              5689****************97 PP

>> DAPDH_C  Diaminopimelic acid dehydrogenase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.1   1.9e-05      0.12      41     102 ..      34      99 ..      20     104 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 1.9e-05
                              TSTTECEEEE...EEEE-HHHHHHHHTT-.-TT--HHHHEEEEEEEEE.SCCGHHHHHHHHHT-TT CS
                  DAPDH_C  41 riegvkdavq...ytiPveealekvrsge.kpelttrekhtrecyvvaeegadkekiekeiktmpn 102
                              ++egv++ +q   y i + ++l++v +g    e +  e h ++c v a ++ ++e i+ +i+++++
  PHY93_16130|PHY93_16130  34 QVEGVEKMIQdgrYCIDIINQLKAVSAGLkVIESAIFEGHLKSCVVAALSSNNNEDIQIKINEINK 99 
                              5777777665555***************725677889*********************99998865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (106 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       642  (0.0358079); expected 358.6 (0.02)
Passed bias filter:                      404  (0.0225333); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.40
# Mc/sec: 796.90
//
Query:       PHY93_16135|PHY93_16135  [L=549]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    3.9e-09   36.6  15.4    2.5e-07   30.7   0.4    2.9  3  OEP          Outer membrane efflux protein
     0.0037   17.3   0.2      0.009   16.0   0.2    1.7  1  TFIID-18kDa  Transcription initiation factor IID, 18kD subuni
  ------ inclusion threshold ------
       0.93    9.1   3.8        3.6    7.2   0.2    2.5  2  EF-hand_5    EF hand
        2.3    8.0   4.1        4.5    7.1   0.1    2.6  2  EF-hand_1    EF hand


Domain annotation for each model (and alignments):
>> OEP  Outer membrane efflux protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.7   0.4   5.7e-11   2.5e-07       2     186 ..     162     333 ..     161     335 .. 0.91
   2 ?   -0.5   0.0       0.2   8.9e+02       6      48 ..     366     407 ..     362     412 .. 0.84
   3 !   11.1   6.5   5.7e-05      0.26      79     180 ..     407     507 ..     391     521 .. 0.84

  Alignments for each domain:
  == domain 1  score: 30.7 bits;  conditional E-value: 5.7e-11
                      OEP   2 dellalalennpdlkaaeaeieaaeanlkaakaeflPtlslsgsygyegngsegggddggtgttsvgltlsqplfdggkrrarvka 87 
                              de + +a  nn+++ +   ++ +a+ n+ +a+++ lP+lsl +  g  ++++               ++  +p++  +++ ++ +a
  PHY93_16135|PHY93_16135 162 DEIVGRAKFNNYSVTEDSERVFQAQKNIGVARGNLLPKLSLKSLIGLATGDYV------------SAVGTVLPFLF-PTNWYKWEA 234
                              788889999******************************************98............67777788775.********* PP

                      OEP  88 akaqleaaeaqleqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislldvlqaqvrllqaraelaeae 173
                              +k  ++a++  ++  r +  + v+ +y+ +l  ++ le +++ +++ +++ + ++++ k+G++++   +    +   ++++ +++e
  PHY93_16135|PHY93_16135 235 SKDLYQAEKTSFASLRGNEMNMVEGLYYVILRDQQVLERLKKHITWMKQIQDTIKQSEKVGTATQGTADYFGLSIGVLEKDKINFE 320
                              *****************************************************************547777777888888888888 PP

                      OEP 174 qqlqlaraqLeyl 186
                              + +++++aqL+++
  PHY93_16135|PHY93_16135 321 ALIKIQYAQLAQA 333
                              8888888888876 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.2
                      OEP   6 alalennpdlkaaeaeieaaeanlkaakaeflPtlslsgsygy 48 
                              + a++++++lk++   ++aa+  +k+  ++ + +l+ +++ g+
  PHY93_16135|PHY93_16135 366 KEAQAKSYELKSLGFLLKAAKTSQKEIYFN-FFDLDGNSGIGF 407
                              679999**************9999999999.888887777666 PP

  == domain 3  score: 11.1 bits;  conditional E-value: 5.7e-05
                      OEP  79 gkrrarvkaakaqleaaeaqleqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislldvlqaqvrllq 164
                                +r+++  +k+q+e    + e+++  ++l+ +   +++ +a  +++la+ + ++a k+++    r+ +G  s+ d  +  ++l +
  PHY93_16135|PHY93_16135 407 FGTRSQILVSKSQQEEINKKAEETKSLIELQSSLVANEYNQALDSYQLAQSNKNSATKRMNWLISRLLQGDGSI-DSEEFVNELTD 491
                              6678899999****************************************************************.77777777777 PP

                      OEP 165 araelaeaeqqlqlar 180
                               +++++e+ ++ + ++
  PHY93_16135|PHY93_16135 492 IQNRIIEFTADEATST 507
                              7777777766655544 PP

>> TFIID-18kDa  Transcription initiation factor IID, 18kD subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.2     2e-06     0.009      45      92 ..     245     292 ..     236     293 .. 0.86

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 2e-06
                              C-XXXX...XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
              TFIID-18kDa  45 kvaklrgsrkitlEDllfliRkDkkKlnRlkellslkellkkakKqfd 92 
                              + a lrg++   +E l ++i +D++ l+Rlk+ +++ ++++ + Kq +
  PHY93_16135|PHY93_16135 245 SFASLRGNEMNMVEGLYYVILRDQQVLERLKKHITWMKQIQDTIKQSE 292
                              457788888889***************************999999865 PP

>> EF-hand_5  EF hand
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.3   0.4      0.03   1.3e+02       4      12 ..     393     401 ..     390     402 .. 0.85
   2 ?    7.2   0.2   0.00081       3.6      12      21 ..     476     485 ..     476     489 .. 0.89

  Alignments for each domain:
  == domain 1  score: 2.3 bits;  conditional E-value: 0.03
                              HHHHH-SS- CS
                EF-hand_5   4 tFqaiDlNg 12 
                              +F+ +Dl+g
  PHY93_16135|PHY93_16135 393 YFNFFDLDG 401
                              7*******9 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.00081
                              -SSCE-HHHH CS
                EF-hand_5  12 gDGkIskeEL 21 
                              gDG I+ eE+
  PHY93_16135|PHY93_16135 476 GDGSIDSEEF 485
                              9********9 PP

>> EF-hand_1  EF hand
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.7     0.069   3.1e+02       6      18 ..     394     406 ..     392     408 .. 0.83
   2 ?    7.1   0.1     0.001       4.5      13      24 ..     476     487 ..     474     492 .. 0.87

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.069
                              HHHHTTTSSSEEE CS
                EF-hand_1   6 FrefDkDgdGkId 18 
                              F+ fD Dg+  I 
  PHY93_16135|PHY93_16135 394 FNFFDLDGNSGIG 406
                              999*****97665 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.001
                              SSSEEEHHHHHH CS
                EF-hand_1  13 gdGkIdfeEfke 24 
                              gdG Id eEf++
  PHY93_16135|PHY93_16135 476 GDGSIDSEEFVN 487
                              9*********86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (549 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       809  (0.0451224); expected 358.6 (0.02)
Passed bias filter:                      411  (0.0229238); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.60u 0.25s 00:00:00.85 Elapsed: 00:00:00.43
# Mc/sec: 3865.33
//
Query:       PHY93_16140|PHY93_16140  [L=193]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (193 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       399  (0.0222544); expected 358.6 (0.02)
Passed bias filter:                      354  (0.0197445); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1432.10
//
Query:       PHY93_16145|PHY93_16145  [L=301]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (301 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       445  (0.0248201); expected 358.6 (0.02)
Passed bias filter:                      381  (0.0212505); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 2209.87
//
Query:       PHY93_16150|PHY93_16150  [L=198]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (198 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       629  (0.0350828); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1473.38
//
Query:       PHY93_16155|PHY93_16155  [L=229]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.6e-08   35.0   1.2    4.1e-06   27.3   0.1    2.6  2  PSCyt1           Planctomycete cytochrome C
    3.2e-07   30.6   0.0      0.027   14.8   0.0    2.5  2  Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
    7.2e-06   27.1   0.0      0.051   14.7   0.0    2.8  2  Cytochrom_C      Cytochrome c
    0.00071   19.5   2.5       0.27   11.2   0.0    3.2  4  Haem_bd          Haem-binding domain
  ------ inclusion threshold ------
      0.013   15.5   0.1        5.5    7.1   0.0    2.2  2  Cytochrome_C7    Cytochrome c7 and related cytochrome c
      0.015   15.6   1.9        1.8    8.8   1.9    2.4  1  DUF3365          Protein of unknown function (DUF3365)
      0.023   14.4   0.2       0.18   11.5   0.0    2.3  3  Cytochrom_C550   Cytochrome c-550 domain
      0.046   14.2   0.0         11    6.5   0.0    2.2  2  Cytochrom_c3_2   Cytochrome c3
      0.051   12.1   0.0        0.6    8.6   0.0    2.0  2  CTI              Fatty acid cis/trans isomerase (CTI)
       0.11   12.1   0.4        5.3    6.6   0.1    2.1  2  Dehyd-heme_bind  Quinohemoprotein amine dehydrogenase A, alph


Domain annotation for each model (and alignments):
>> PSCyt1  Planctomycete cytochrome C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.2   0.1    0.0088        16       1      21 [.      58      75 ..      58      96 .. 0.81
   2 !   27.3   0.1   2.3e-09   4.1e-06       1      58 [.     152     206 ..     152     207 .. 0.93

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.0088
                   PSCyt1  1 CyeCHgpddaegglrLdsrda 21
                             C++CHg +    +++L+s ++
  PHY93_16155|PHY93_16155 58 CIACHGNSG---NVNLESYSS 75
                             ******864...677777665 PP

  == domain 2  score: 27.3 bits;  conditional E-value: 2.3e-09
                   PSCyt1   1 CyeCHgpddaegglrLdsrdaalkggesg.aaivpgdpeeselierilsddedmeMPPp 58 
                              C+ CH++ ++   ++Lds++++++   s    ++pg+p+es l+ ++l     + MPP+
  PHY93_16155|PHY93_16155 152 CMVCHSAGKEAERVSLDSAEDLIN---SPlDLVLPGNPDESGLVLAVLP-TARKIMPPK 206
                              99********************95...899*****************76.6799****7 PP

>> Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.0   1.5e-05     0.027      13      67 .]      57     113 ..      47     113 .. 0.68
   2 !   13.4   0.0   4.2e-05     0.076       7      66 ..     145     224 ..     141     225 .. 0.60

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 1.5e-05
          Cytochrome_CBB3  13 nCasCHg.kggagpslagrdwepdalvdiiknGk..gaMpafgg.qlsdeelwalvaYl 67 
                              +C +CHg +g  + +l+     + ++++i +  +  + Mp      l++eel+ l++++
  PHY93_16155|PHY93_16155  57 KCIACHGnSG--NVNLESYSSVYGHIEKIKEVSIatRVMPKSPYpALNNEELELLATWI 113
                              7******444..44555443333334333333334369**99989***********998 PP

  == domain 2  score: 13.4 bits;  conditional E-value: 4.2e-05
          Cytochrome_CBB3   7 aalykknCasCHgkggag........pslagrdwep.........dalvdiiknGkgaMpafgg...qlsdeelwalvaY 66 
                              +++++++C  CH +g+ +         +l ++ ++            + +++   ++ Mp++++   +l + e++ + ++
  PHY93_16155|PHY93_16155 145 KNIFQNKCMVCHSAGKEAervsldsaEDLINSPLDLvlpgnpdesGLVLAVLPTARKIMPPKKSgiaNLLPSEIEIIKQW 224
                              689*********97877655555555333333222022233344466666777777777777766666666666666665 PP

>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.4   0.0    0.0013       2.3      11      44 ..      57     114 ..      27     120 .. 0.76
   2 !   14.7   0.0   2.8e-05     0.051       5      24 ..     145     164 ..     144     225 .. 0.87

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.0013
                              TGGGTB-SSSBSSS............................--HHHHHHHTTT-HHH CS
              Cytochrom_C  11 nCaaCHgvegggakqgg........................gptlsgaaerasaasig 44 
                              +C aCHg  g+ + +                          +p+l +++ +  a++i+
  PHY93_16155|PHY93_16155  57 KCIACHGNSGNVNLESYssvyghiekikevsiatrvmpkspYPALNNEELELLATWIQ 114
                              8*****9999988766678888888888888888888888888888888888887776 PP

  == domain 2  score: 14.7 bits;  conditional E-value: 2.8e-05
                              HHHHHTTGGGTB-SSSBSSS CS
              Cytochrom_C   5 kelftanCaaCHgvegggak 24 
                              k++f+++C+ CH++++++  
  PHY93_16155|PHY93_16155 145 KNIFQNKCMVCHSAGKEAER 164
                              6899*********9988764 PP

>> Haem_bd  Haem-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.5   0.1    0.0043       7.7      34      58 ..      50      76 ..      16      86 .. 0.70
   2 ?   -0.0   0.1      0.43   7.8e+02     105     132 ..      93     114 ..      68     115 .. 0.68
   3 !   11.2   0.0   0.00015      0.27      35      50 ..     145     160 ..     120     166 .. 0.74
   4 ?   -2.3   0.0       2.2     4e+03     117     132 ..     211     226 ..     209     227 .. 0.80

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.0043
                  Haem_bd 34 vkkiLeksCydCHsnet..elpwYaki 58
                              ++iL  +C  CH n+   +l  Y+++
  PHY93_16155|PHY93_16155 50 NQRILIPKCIACHGNSGnvNLESYSSV 76
                             4778999******87652266677665 PP

  == domain 2  score: -0.0 bits;  conditional E-value: 0.43
                  Haem_bd 105 mPlksYlllhpeaklseeekqallewik 132
                              mP + Y        l++ee ++l +wi+
  PHY93_16155|PHY93_16155  93 MPKSPYP------ALNNEELELLATWIQ 114
                              5554443......467778888888876 PP

  == domain 3  score: 11.2 bits;  conditional E-value: 0.00015
                  Haem_bd  35 kkiLeksCydCHsnet 50 
                              k+i++++C+ CHs+  
  PHY93_16155|PHY93_16155 145 KNIFQNKCMVCHSAGK 160
                              5678*********876 PP

  == domain 4  score: -2.3 bits;  conditional E-value: 2.2
                  Haem_bd 117 aklseeekqallewik 132
                              a+l  +e +++++wi+
  PHY93_16155|PHY93_16155 211 ANLLPSEIEIIKQWIA 226
                              5677889999999996 PP

>> Cytochrome_C7  Cytochrome c7 and related cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.5   0.0    0.0046       8.3      49      59 ..      51      67 ..      22      89 .. 0.70
   2 ?    7.1   0.0    0.0031       5.5      13      58 ..     149     160 ..     130     176 .. 0.62

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.0046
            Cytochrome_C7 49 t......CgaCHdgkna 59
                             +      C+aCH ++ +
  PHY93_16155|PHY93_16155 51 QrilipkCIACHGNSGN 67
                             13334559999976654 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0031
            Cytochrome_C7  13 gykCtdCHsklfeskakkkmaemekgkskkaevesltCgaCHdgkn 58 
                              ++k                                  C+ CH   +
  PHY93_16155|PHY93_16155 149 QNK----------------------------------CMVCHSAGK 160
                              234..................................555554443 PP

>> DUF3365  Protein of unknown function (DUF3365)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   1.9     0.001       1.8      80     129 ..      94     163 ..       9     175 .. 0.60

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.001
                              -SSGGGS--SHHHHHHHHHEE.......................TEEEEEEEEE--TTTHHHHS-GGG-- CS
                  DUF3365  80 prnprnkpdefEkealeefkk..........e..........gervfryarplrveesClkCHgdpedap 129
                              p  p  + ++ E e+l+   +          +           e+ f   +   ++++C+ CH++ ++a 
  PHY93_16155|PHY93_16155  94 PKSPYPALNNEELELLATWIQagapdkpldgSdqppppkqeaLEPKFLSIKKNIFQNKCMVCHSAGKEAE 163
                              3344444456666666666334444444433033444555556688888888889999999999887766 PP

>> Cytochrom_C550  Cytochrome c-550 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.1      0.72   1.3e+03      30      42 ..      51      63 ..      40      77 .. 0.81
   2 ?   -1.1   0.0      0.81   1.4e+03     105     120 ..      99     114 ..      72     126 .. 0.73
   3 ?   11.5   0.0    0.0001      0.18      22      56 ..     137     169 ..     130     178 .. 0.75

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.72
                             HHHHHHHTHHHHG CS
           Cytochrom_C550 30 kklFeaeCaqCHv 42
                             +++   +C  CH 
  PHY93_16155|PHY93_16155 51 QRILIPKCIACHG 63
                             7888899*****5 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.81
                              TTS-HHHHHHHHHHHH CS
           Cytochrom_C550 105 rnltdedlkaiagyil 120
                                l++e+l+ +a++i 
  PHY93_16155|PHY93_16155  99 PALNNEELELLATWIQ 114
                              5689999999999985 PP

  == domain 3  score: 11.5 bits;  conditional E-value: 0.0001
                              EHHHHHHHHHHHHHHTHHHHGGGSBTTSTTSCSSH CS
           Cytochrom_C550  22 seeqlkkgkklFeaeCaqCHvgGktktnpnvsLsl 56 
                               ++ l+  k +F+++C  CH  Gk    ++vsL+ 
  PHY93_16155|PHY93_16155 137 EPKFLSIKKNIFQNKCMVCHSAGK--EAERVSLDS 169
                              5556667799************96..456677754 PP

>> Cytochrom_c3_2  Cytochrome c3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.5   0.0     0.013        23      24      41 ..      53      70 ..      42      91 .. 0.75
   2 ?    6.5   0.0    0.0064        11      22      42 ..     145     165 ..     136     178 .. 0.73

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.013
                             HHHHHHHHHH--HHHCHT CS
           Cytochrom_c3_2 24 veeekClsCHgkleelak 41
                             +   kC++CHg+  +++ 
  PHY93_16155|PHY93_16155 53 ILIPKCIACHGNSGNVNL 70
                             555689999999877655 PP

  == domain 2  score: 6.5 bits;  conditional E-value: 0.0064
                              THHHHHHHHHHH--HHHCHTT CS
           Cytochrom_c3_2  22 kaveeekClsCHgkleelakk 42 
                              k++ ++kC+ CH+  +e+++ 
  PHY93_16155|PHY93_16155 145 KNIFQNKCMVCHSAGKEAERV 165
                              566778899999887776654 PP

>> CTI  Fatty acid cis/trans isomerase (CTI)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   0.0   0.00033       0.6      92     115 ..      98     121 ..      81     139 .. 0.78
   2 ?    1.3   0.0     0.052        93      91     111 ..     209     229 .]     201     229 .] 0.92

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.00033
                      CTI  92 lpgLskeeyetlkkWleqGakeek 115
                               p+L++ee+e+l++W+++Ga+++ 
  PHY93_16155|PHY93_16155  98 YPALNNEELELLATWIQAGAPDKP 121
                              69******************9765 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.052
                      CTI  91 glpgLskeeyetlkkWleqGa 111
                              g+++L  +e+e++k+W+++Ga
  PHY93_16155|PHY93_16155 209 GIANLLPSEIEIIKQWIANGA 229
                              789999**************8 PP

>> Dehyd-heme_bind  Quinohemoprotein amine dehydrogenase A, alpha subunit, haem binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   0.0     0.024        43       4      23 ..      51      70 ..      48      81 .. 0.80
   2 ?    6.6   0.1    0.0029       5.3       4      26 ..     145     165 ..     142     171 .. 0.77

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.024
          Dehyd-heme_bind  4 eelleekclachvddedgkl 23
                             +++l  kc+ach ++ + +l
  PHY93_16155|PHY93_16155 51 QRILIPKCIACHGNSGNVNL 70
                             678889******98876655 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.0029
          Dehyd-heme_bind   4 eelleekclachvddedgkleri 26 
                              ++++++kc++ch   ++   er+
  PHY93_16155|PHY93_16155 145 KNIFQNKCMVCHSAGKE--AERV 165
                              6899********87764..3555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (229 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       438  (0.0244297); expected 358.6 (0.02)
Passed bias filter:                      390  (0.0217525); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 1680.24
//
Query:       PHY93_16160|PHY93_16160  [L=196]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.8e-14   53.1   0.2    6.1e-14   52.8   0.2    1.1  1  YceI      YceI-like domain


Domain annotation for each model (and alignments):
>> YceI  YceI-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.8   0.2   3.4e-18   6.1e-14       3     144 ..      29     191 ..      28     193 .. 0.77

  Alignments for each domain:
  == domain 1  score: 52.8 bits;  conditional E-value: 3.4e-18
                              E-CCC-EEEE..........-EEEEECTECCEEEE..TTT.EE.....EEEEEEGGGEESS.HCHHHHHHCTCTT-TTT--EE..E CS
                     YceI   3 ldpahssvtftvkhl.gvs.kvtGrfkkvsgelsvdeddpess.....vevtidvasidtgnakrdehlksadffdvakyPta..t 79 
                              +d ++ssv+f +      + k++G+ +kv+ge+s        s     +++++d++++ tg + rdeh+k+ ++f+++k  +   t
  PHY93_16160|PHY93_16160  29 IDHNKSSVEFLAIGNpS-AlKIKGENAKVQGEISS-------SlniigAKLKVDLNEFVTGIDMRDEHMKE-EYFETNKAENRyvT 105
                              899******95554423.459***********883.......33445588899*****************9.*******6432113 PP

                              ECCCCEE...............EEEEEEETTEEEEEEEEEEEE.EEECCEE....CEEEEEGGGGTC......TTTC-SEEEEEEE CS
                     YceI  80 Fvstsve.............akvtGdLtikGvtkpvtlpvtvn.gaaagfs....atgtidrtdFGlkr....galvgdeveleie 143
                              +++ +++             ++ +G+L++++v+k++t ++t++ ++ +g++     ++ i++tdF ++     g++v++ v++e++
  PHY93_16160|PHY93_16160 106 LEIINLDipdsfwkkseewkGNFKGKLKLHNVEKDITGDITFSpYK-KGDNvitvSRFPIKLTDFKINVpsfvGVTVAEVVNVEVK 190
                              33333336777777777777779*******************9554.332234459**********97788998999999999987 PP

                              E CS
                     YceI 144 l 144
                              l
  PHY93_16160|PHY93_16160 191 L 191
                              6 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (196 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       564  (0.0314574); expected 358.6 (0.02)
Passed bias filter:                      359  (0.0200234); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.42
# Mc/sec: 1399.76
//
Query:       PHY93_17365|PHY93_17365  [L=98]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.087   13.0   0.3       0.14   12.3   0.3    1.4  1  Pox_A14   Poxvirus virion envelope protein A14


Domain annotation for each model (and alignments):
>> Pox_A14  Poxvirus virion envelope protein A14
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.3   7.8e-06      0.14      19      61 ..       4      45 ..       1      56 [. 0.85

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 7.8e-06
                  Pox_A14 19 iiLLilacifafvdfskststtdkawralsivsFilgivillg 61
                             + LL la+if f++ + s+ ++ ++ +a     Fi++ v +l 
  PHY93_17365|PHY93_17365  4 LKLLLLAIIFTFIQSAASNLQA-STTKAKGLRYFIISEVQTLQ 45
                             569***********99988866.5999999999**99998886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (98 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       718  (0.0400469); expected 358.6 (0.02)
Passed bias filter:                      539  (0.030063); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.20s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 733.01
//
Query:       PHY93_16165|PHY93_16165  [L=324]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (324 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       432  (0.024095); expected 358.6 (0.02)
Passed bias filter:                      328  (0.0182944); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 2390.86
//
Query:       PHY93_16170|PHY93_16170  [L=87]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (87 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       417  (0.0232584); expected 358.6 (0.02)
Passed bias filter:                      270  (0.0150594); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.42
# Mc/sec: 626.04
//
Query:       PHY93_16175|PHY93_16175  [L=114]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (114 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       335  (0.0186848); expected 358.6 (0.02)
Passed bias filter:                      284  (0.0158403); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 855.34
//
Query:       PHY93_16180|PHY93_16180  [L=220]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.8e-18   67.0   0.0    2.7e-18   66.5   0.0    1.3  1  Couple_hipA  HipA N-terminal domain
      1e-10   41.7   0.0    7.2e-10   38.9   0.0    2.2  2  HipA_C       HipA-like C-terminal domain
  ------ inclusion threshold ------
      0.011   15.9   0.0        1.1    9.5   0.0    2.4  2  FeThRed_A    Ferredoxin thioredoxin reductase variable alpha 
       0.08   12.8   0.1       0.13   12.2   0.1    1.2  1  LepB_GAP_N   LepB GAP domain N-terminal subdomain


Domain annotation for each model (and alignments):
>> Couple_hipA  HipA N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.5   0.0   5.9e-22   2.7e-18       1      96 [.       4     101 ..       4     104 .. 0.94

  Alignments for each domain:
  == domain 1  score: 66.5 bits;  conditional E-value: 5.9e-22
                              EEEEETTEEEEEEEEETTTEEEEEE-HHHHH.TCS--SCTTC-TT.STEB-CHHHHHHHHTTSBSSHHHHHHHHHHTSSTTSHHHH CS
              Couple_hipA   1 ldVflngervGalardeegvarFeydpafle.akgpelSlslpls.aepytskglpgffanlLPegelrellarrrgisskdelel 84 
                              l Vf++++ vG+l ++++ ++ F y++++++ +++++lS  l l+ ++ + ++ ++ ff+nlLPeg++re+l++ +g s +d++++
  PHY93_16180|PHY93_16180   4 LFVFYDHRLVGRLIKNADATLNFSYEKNWIQeTGSFPLSPRLDLEvDKVFDNRVTRSFFDNLLPEGKVREHLEKYTGKSLTDDFQF 89 
                              579***************99************************94555689999******************************* PP

                              HHHHTTCESTTE CS
              Couple_hipA  85 LaaiGadlmGal 96 
                              L  +G d++Ga 
  PHY93_16180|PHY93_16180  90 LRQFGVDCAGAF 101
                              **********95 PP

>> HipA_C  HipA-like C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.0     0.072   3.2e+02     126     160 ..      12      49 ..       2     124 .. 0.72
   2 !   38.9   0.0   1.6e-13   7.2e-10      74     135 ..     152     220 .]      87     220 .] 0.84

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.072
                              HHHHHCTBTT--GGGSEEEE....CCCEEEE--B-S--B CS
                   HipA_C 126 vfniligNtDdHlKNfsllr....gggrwrLaPaYDlvs 160
                              ++  li+N D+ l Nfs+ +    ++g++ L+P  Dl  
  PHY93_16180|PHY93_16180  12 LVGRLIKNADATL-NFSYEKnwiqETGSFPLSPRLDLEV 49 
                              5556888888877.8884443343447788999877754 PP

  == domain 2  score: 38.9 bits;  conditional E-value: 1.6e-13
                              E.....EE--EEEHHHHCT--GGGCSCC..-.-HHHHHHHHCCCTTHH..HHHHHHHHHHHHHHHCTBTT CS
                   HipA_C  74 k.....erlhqedacqllgldpeekYek..g.syeelakllrqlsataseedleelfrrmvfniligNtD 135
                              +     +r+hq d+cq+ g  + ekYe+  g +++e ++ +r ls+ + ++d++++++++ fn+ligN+D
  PHY93_16180|PHY93_16180 152 GaqgeiKRHHQVDFCQAQGFLSGEKYEEdgGpGLKENFNCIRMLSS-SYTHDAQKYMNWISFNLLIGNND 220
                              2456678*********************9758************64.348*******************9 PP

>> FeThRed_A  Ferredoxin thioredoxin reductase variable alpha chain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.0   0.00024       1.1      24      57 ..      62      95 ..      48     116 .. 0.81
   2 ?    4.2   0.0     0.011        49      12      35 ..     137     159 ..     119     165 .. 0.85

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00024
                             EE-TT-EEEEEEE-SEETTEE---SS-EEEEETT CS
                FeThRed_A 24 ldlkgmeGevvqivtewkGrkiSanlpvkVqfek 57
                             +d    eG+v + ++++ G+ ++  + ++ qf++
  PHY93_16180|PHY93_16180 62 FDNLLPEGKVREHLEKYTGKSLTDDFQFLRQFGV 95
                             5666679********************9999943 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.011
                              EES--TTSTTS-EE-TT-EEEEEE CS
                FeThRed_A  12 kVYhvpkhrkealdlkgmeGevvq 35 
                              + Y v +h++  + l g +Ge++ 
  PHY93_16180|PHY93_16180 137 MSYVVENHNGR-FSLAGAQGEIKR 159
                              56888888866.**********86 PP

>> LepB_GAP_N  LepB GAP domain N-terminal subdomain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.1   2.8e-05      0.13      18      57 ..     107     145 ..     102     154 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 2.8e-05
                              HHHCTTTTTEEB-TTS-HHHHHHHHHHHHHHHHHHHHHTT CS
               LepB_GAP_N  18 eiLakskaelldfseidldeLikqFNhyidvlaeqaealn 57 
                              e+Lak k++  +++ei+++eL+k +N + + +   +e  n
  PHY93_16180|PHY93_16180 107 EHLAKNKVDQ-EVDEINIEELVKAYNEHKNLMSYVVENHN 145
                              6899999888.9****************999887777666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (220 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       513  (0.0286129); expected 358.6 (0.02)
Passed bias filter:                      390  (0.0217525); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.48u 0.24s 00:00:00.72 Elapsed: 00:00:00.42
# Mc/sec: 1586.31
//
Query:       PHY93_16185|PHY93_16185  [L=87]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.015   14.9   0.5      0.016   14.8   0.5    1.0  1  CENP-K    Centromere-associated protein K


Domain annotation for each model (and alignments):
>> CENP-K  Centromere-associated protein K
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   0.5   8.9e-07     0.016      77     146 ..      19      85 ..      15      87 .] 0.81

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 8.9e-07
                   CENP-K  77 eevllalgkeelqklksqLelvlsiiqsknkklkedLkrEqewleeqqeilesLkektkelkkqvvafse 146
                              e++l ++g   l+k+    +l+++++++ n+k+ ++L+rE +  +++ + +++  ++++e+ +  ++f +
  PHY93_16185|PHY93_16185  19 EHFLHEVGSWGLDKN---KDLLINTMKLMNEKISKQLEREVKNFNHRFKGVKAAGRIKAEILNRAESFRK 85 
                              566777777777777...57899*******************9999999999988888888877777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (87 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       849  (0.0473534); expected 358.6 (0.02)
Passed bias filter:                      442  (0.0246528); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.41
# Mc/sec: 637.41
//
Query:       PHY93_16190|PHY93_16190  [L=69]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (69 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       293  (0.0163422); expected 358.6 (0.02)
Passed bias filter:                      235  (0.0131073); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.22s 00:00:00.62 Elapsed: 00:00:00.40
# Mc/sec: 517.61
//
Query:       PHY93_16195|PHY93_16195  [L=194]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.4e-09   37.5   0.0    2.1e-09   36.9   0.0    1.3  1  Sigma70_r4_2  Sigma-70, region 4
    8.5e-06   25.5   0.0    1.5e-05   24.6   0.0    1.4  1  Sigma70_r2    Sigma-70 region 2
  ------ inclusion threshold ------
       0.16   12.3   0.0       0.38   11.0   0.0    1.6  1  CDC24         CDC24 Calponin


Domain annotation for each model (and alignments):
>> Sigma70_r4_2  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.9   0.0   3.4e-13   2.1e-09       2      54 .]     134     186 ..     133     186 .. 0.97

  Alignments for each domain:
  == domain 1  score: 36.9 bits;  conditional E-value: 3.4e-13
                              HHHHHHHTTS-HHHHHHHHHHHTS---HHHHHHHHT--HHHHHHHHHHHHHHH CS
             Sigma70_r4_2   2 qalrealaeLperqreifllryleglsykEIAellgisegtVksrlsRArkkL 54 
                              + +++++++Lp  qr++f+l ++eg  + EI+++l++++++    l+RA+ +L
  PHY93_16195|PHY93_16195 134 EIIYDCIEKLPATQRAAFVLWEIEGNETPEICKILDVTVTNLGVILYRAKNRL 186
                              789***********************************************887 PP

>> Sigma70_r2  Sigma-70 region 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.6   0.0   2.5e-09   1.5e-05       2      66 ..      29      91 ..      28      95 .. 0.88

  Alignments for each domain:
  == domain 1  score: 24.6 bits;  conditional E-value: 2.5e-09
                             HHHHHHHHHHHHHHCT-THHHHHHHHHHHHHHHHHHGGGTSTTTCHHHHHHHHHHHHHHHHHHHH CS
               Sigma70_r2  2 verylplvkrlarrllgsgadaeDlvQeaflrlwraverfdpergvsfsawllriarnaaidrlR 66
                             + +y   ++r a +l  +g +a+DlvQ ++  +++ ++rf+ + +   +++l+ i+ n++  + R
  PHY93_16195|PHY93_16195 29 IGQYTGYLLRGALSLGYRGNQADDLVQNVWSTFFEILPRFE-GNS-QIKTFLYGIMINKVREQKR 91
                             566777788888899888999********************.888.9************988776 PP

>> CDC24  CDC24 Calponin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   6.3e-05      0.38      45      84 ..     131     170 ..     123     175 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 6.3e-05
                    CDC24  45 svydFllackkeLgfedeelftisdlfsedttdlvkvlkv 84 
                              ++++ +  c ++L  ++ + f++ ++ +++t ++ k+l+v
  PHY93_16195|PHY93_16195 131 QTLEIIYDCIEKLPATQRAAFVLWEIEGNETPEICKILDV 170
                              57788999******************************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (194 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       561  (0.0312901); expected 358.6 (0.02)
Passed bias filter:                      484  (0.0269954); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1432.76
//
Query:       PHY93_16200|PHY93_16200  [L=81]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (81 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1809  (0.100898); expected 358.6 (0.02)
Passed bias filter:                      616  (0.0343577); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.41
# Mc/sec: 589.80
//
Query:       PHY93_16205|PHY93_16205  [L=55]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.7e-10   38.6   0.0    9.7e-10   38.4   0.0    1.0  1  AhpC-TSA  AhpC/TSA family
    5.9e-09   35.8   0.0    5.9e-09   35.8   0.0    1.0  1  Redoxin   Redoxin


Domain annotation for each model (and alignments):
>> AhpC-TSA  AhpC/TSA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.4   0.0   1.1e-13   9.7e-10       3      51 ..       2      51 ..       1      54 [. 0.90

  Alignments for each domain:
  == domain 1  score: 38.4 bits;  conditional E-value: 1.1e-13
                             SB----EEESTTCEEEEC.HHHTTSEEEEEEESTST-CCHHHHHHHHHHC CS
                 AhpC-TSA  3 dkapdfelknadgetvsl.sdykgkpvvlffypkdwcpvCttelpalakl 51
                             +kapdf l  + g++++l s++k+ pvvl+f+ + wcp Ct+++++ ++ 
  PHY93_16205|PHY93_16205  2 NKAPDFRLRMQAGTEFHLySAIKNGPVVLNFIMGTWCPLCTAHIKRVRDW 51
                             69****************6666888********************99885 PP

>> Redoxin  Redoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.8   0.0   6.6e-13   5.9e-09       4      55 ..       2      52 ..       1      55 [] 0.89

  Alignments for each domain:
  == domain 1  score: 35.8 bits;  conditional E-value: 6.6e-13
                             SBB---ECCEETTCEEEEEHHH.HTTSEEEEEEESTTT-HHHHHTHHHHHTHH CS
                  Redoxin  4 dkaPdftlplaatdgnsvslse.fkgkkvvvnfvpgafcPtCsaehpylekla 55
                             +kaPdf+l    + g++++l +  k+++vv+nf  g++cP C+a +  +++ +
  PHY93_16205|PHY93_16205  2 NKAPDFRLRM--QAGTEFHLYSaIKNGPVVLNFIMGTWCPLCTAHIKRVRDWQ 52
                             69*****988..********999*********************766777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (55 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       370  (0.020637); expected 358.6 (0.02)
Passed bias filter:                      298  (0.0166211); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.36u 0.23s 00:00:00.59 Elapsed: 00:00:00.38
# Mc/sec: 431.23
//
Query:       PHY93_04945|PHY93_04945  [L=165]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.5e-05   23.6   0.9    5.1e-05   22.7   0.9    1.6  1  N_methyl  Prokaryotic N-terminal methylation motif


Domain annotation for each model (and alignments):
>> N_methyl  Prokaryotic N-terminal methylation motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.7   0.9   2.8e-09   5.1e-05       2      20 ..       4      22 ..       3      29 .. 0.91

  Alignments for each domain:
  == domain 1  score: 22.7 bits;  conditional E-value: 2.8e-09
                 N_methyl  2 rkqrGFTLiElLvalaIla 20
                             +++rGF+L+E+++++a l+
  PHY93_04945|PHY93_04945  4 KNNRGFSLVEIMIVVAMLG 22
                             79**************987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (165 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       779  (0.0434492); expected 358.6 (0.02)
Passed bias filter:                      471  (0.0262703); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.43
# Mc/sec: 1139.87
//
Query:       PHY93_17370|PHY93_17370  [L=372]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.2e-26   91.9   0.0    8.5e-26   90.5   0.0    1.8  1  AAA_14        AAA domain
    3.8e-13   49.7   0.0    2.5e-12   47.0   0.0    2.1  1  DUF4143       Domain of unknown function (DUF4143)
     0.0087   15.8   0.1      0.018   14.8   0.1    1.5  1  AAA_24        AAA domain
  ------ inclusion threshold ------
       0.01   15.7   0.1      0.026   14.5   0.1    1.7  1  HTH_11        HTH domain
      0.023   14.6   0.0      0.071   13.1   0.0    1.8  1  HTH_36        Helix-turn-helix domain
      0.024   14.9   0.0        2.2    8.6   0.1    2.6  2  AAA_22        AAA domain
      0.027   14.2   0.0      0.075   12.8   0.0    1.8  1  HTH_DeoR      DeoR-like helix-turn-helix domain
      0.034   13.2   0.0      0.051   12.6   0.0    1.4  1  T2SSE         Type II/IV secretion system protein
      0.082   12.9   0.0         11    6.1   0.0    2.8  2  Dimerisation  Dimerisation domain
       0.72   10.3   0.0       0.72   10.3   0.0    2.8  2  AAA_23        AAA domain


Domain annotation for each model (and alignments):
>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   90.5   0.0   4.7e-29   8.5e-26       2     130 ..      15     128 ..      14     129 .. 0.85

  Alignments for each domain:
  == domain 1  score: 90.5 bits;  conditional E-value: 4.7e-29
                   AAA_14   2 rkilvitGaRrvGKTtllkqlikellvkkesilyinldderdkkladpekllelileklkeekktylflDEiqevpewekalkslv 87 
                              +ki++i+G+R++GKTtl  ++ +      ++++y+n+d+e+d+k   +     +  +k    k +++++DE ++ p+w+++lk+++
  PHY93_17370|PHY93_17370  15 KKIILISGPRQSGKTTLS-KMGH------SDYIYLNFDNENDRKTIRE-----MSWDK----KIKLIIFDELHKRPKWKQWLKGVY 84 
                              79***************5.5543......3569******999764433.....33332....5689******************** PP

                   AAA_14  88 deg.knldvivtGSnskllskeiatslagrvaeielyplsfaEf 130
                              d++  n  +ivtGS+ ++ +k++ +slagr+ +++l+pl+++E+
  PHY93_17370|PHY93_17370  85 DTNeYNNSFIVTGSARLDTYKKVGDSLAGRYFQYRLHPLDVREV 128
                              *665577************************************8 PP

>> DUF4143  Domain of unknown function (DUF4143)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.0   0.0   1.4e-15   2.5e-12      18     122 .]     189     325 ..     124     325 .. 0.82

  Alignments for each domain:
  == domain 1  score: 47.0 bits;  conditional E-value: 1.4e-15
                              x..........................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                  DUF4143  18 k..........................................glverlppwsespnskkrlrkspKlyfvDtGLlvallgldkee 61 
                                                                         +++++l p+  s+n ++   k+pK+yf+D++ ++a        
  PHY93_17370|PHY93_17370 189 SiellidllkervgspisysnlandlqvsdktiknwlqileniYVIFKLTPF--SKNIARSNLKQPKYYFYDVARVTA------G- 265
                              133355566678888888888888888888889999999999**********..******************966555......3. PP

                              xxxxxxxxxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                  DUF4143  62 lledsenkGallEnlVaqeLlky......sekegaklyyyrdkngaEvDfvielkggkivpiEvKss 122
                                      Ga +EnlVa  Llk+         e+++l+y ++k g EvDf i+ +++  ++iEvK+s
  PHY93_17370|PHY93_17370 266 -------DGAKFENLVACSLLKEvqfrsdCLGEDWNLSYLSKKGGLEVDFAITYENKLKFAIEVKLS 325
                              .......39*****************99844559********99*********************86 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.1   9.9e-06     0.018       2      60 ..      15      74 ..      14     110 .. 0.72

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 9.9e-06
                   AAA_24  2 klkiliyGpsgiGKTtlakelgpkplfidtekGlksldadkfpdie..swedfldevvel.....a 60
                             k+ ili Gp  +GKTtl k+   + +++++++  ++         +  sw++ ++ + ++     +
  PHY93_17370|PHY93_17370 15 KKIILISGPRQSGKTTLSKMGHSDYIYLNFDNENDRKTI------RemSWDKKIKLIIFDelhkrP 74
                             7789****************************3333333......233788888777777555541 PP

>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.1   1.4e-05     0.026       6      42 ..     194     231 ..     189     239 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 1.4e-05
                   HTH_11   6 lelLleargp.isgeeLAeeLnvSrrtvrrdIkaLeel 42 
                              + lL+e  g  is + LA  L vS +t+ + +++Le +
  PHY93_17370|PHY93_17370 194 IDLLKERVGSpISYSNLANDLQVSDKTIKNWLQILENI 231
                              55666666666************************986 PP

>> HTH_36  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0     4e-05     0.071      27      50 ..     206     229 ..     199     231 .. 0.93

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 4e-05
                   HTH_36  27 sqetlakrlglsknTvsraikeLe 50 
                              s++ la++l +s++T+ ++++ Le
  PHY93_17370|PHY93_17370 206 SYSNLANDLQVSDKTIKNWLQILE 229
                              9********************998 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   0.1    0.0012       2.2       4      24 ..      14      34 ..      11      54 .. 0.87
   2 ?    3.6   0.0     0.042        75      79     134 ..      50     102 ..      40     104 .. 0.78

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.0012
                   AAA_22  4 tagilvvtGesGtGKTtllrr 24
                             +++i+++ G+  +GKTtl ++
  PHY93_17370|PHY93_17370 14 KKKIILISGPRQSGKTTLSKM 34
                             589**************9886 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.042
                   AAA_22  79 lealeqalraravielliiDEaqhlrseealeeLrsllnlsrkgvqliLvGtpelr 134
                              ++++++ + +++  +l+i DE ++   ++  ++L+  ++ ++++ ++i+ G   l+
  PHY93_17370|PHY93_17370  50 RKTIREMSWDKKI-KLIIFDELHKR--PKWKQWLKGVYDTNEYNNSFIVTGSARLD 102
                              5555555666666.9********98..88888888888888999999999988776 PP

>> HTH_DeoR  DeoR-like helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   4.2e-05     0.075      15      46 ..     205     236 ..     190     238 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 4.2e-05
                 HTH_DeoR  15 lsveelvellgvSeaTiRRDLneLeeqglltR 46 
                              +s   l++ l+vS++Ti + L++Le+ +++ +
  PHY93_17370|PHY93_17370 205 ISYSNLANDLQVSDKTIKNWLQILENIYVIFK 236
                              77789*********************999876 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   2.9e-05     0.051     118     146 ..       9      32 ..       1      97 [. 0.84

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 2.9e-05
                    T2SSE 118 iaevlrkavrerglilvsGgTgsGKttll 146
                              i+e+l     ++++il+sG+  sGKttl 
  PHY93_17370|PHY93_17370   9 INEFL-----KKKIILISGPRQSGKTTLS 32 
                              44444.....456**************97 PP

>> Dimerisation  Dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.0      0.04        71      30      48 ..     129     146 ..     126     147 .. 0.87
   2 ?    6.1   0.0     0.006        11      11      34 ..     193     216 ..     188     225 .. 0.83

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.04
             Dimerisation  30 skLptknpeapvlldRlLR 48 
                              +k++ k+++a  +ldR+L 
  PHY93_17370|PHY93_17370 129 CKIE-KKSDADEVLDRILN 146
                              6788.99**********96 PP

  == domain 2  score: 6.1 bits;  conditional E-value: 0.006
             Dimerisation  11 lldiiakaggkplspsEiaskLpt 34 
                              l+d +++  g+p+s s++a+ L+ 
  PHY93_17370|PHY93_17370 193 LIDLLKERVGSPISYSNLANDLQV 216
                              7999999999***********994 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0    0.0004      0.72      16      35 ..      11      31 ..       3      34 .. 0.87
   2 ?   -3.6   5.0       7.3   1.3e+04     139     139 ..     188     188 ..      35     357 .. 0.59

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.0004
                   AAA_23 16 dF.skgltlItGpNGaGKTTi 35
                             +F +k++ lI+Gp  +GKTT+
  PHY93_17370|PHY93_17370 11 EFlKKKIILISGPRQSGKTTL 31
                             56689***************8 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 7.3
                   AAA_23 139 g 139
                              +
  PHY93_17370|PHY93_17370 188 K 188
                              1 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (372 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       725  (0.0404373); expected 358.6 (0.02)
Passed bias filter:                      518  (0.0288917); expected 358.6 (0.02)
Passed Vit filter:                        91  (0.00507558); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.59u 0.25s 00:00:00.84 Elapsed: 00:00:00.43
# Mc/sec: 2584.09
//
Query:       PHY93_04950|PHY93_04950  [L=263]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    7.4e-95  318.0   0.0    8.3e-95  317.8   0.0    1.0  1  DDE_Tnp_Tn3  Tn3 transposase DDE domain


Domain annotation for each model (and alignments):
>> DDE_Tnp_Tn3  Tn3 transposase DDE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  317.8   0.0   4.6e-99   8.3e-95     143     389 .]       1     247 [.       1     247 [. 0.99

  Alignments for each domain:
  == domain 1  score: 317.8 bits;  conditional E-value: 4.6e-99
              DDE_Tnp_Tn3 143 ysqvisaterealyvldgllrnesdlepeelatDthGysdvvFallhllgfklaPRlrdlkdqklyrpdakadykeldalltkkin 228
                              +s++i+++++ea+y+ldgll+n+s+++ +++++Dt+G+s++vFal+hllg++l+PR+r++kd k++rp+++++y+++d+l++++++
  PHY93_04950|PHY93_04950   1 FSHFIPCGVWEAVYILDGLLKNKSEIQSDTIHGDTQGQSAPVFALSHLLGIDLMPRIRNWKDLKFFRPNPTDKYQHIDSLFSSNVD 86 
                              589*******************************************************************************99** PP

              DDE_Tnp_Tn3 229 ldlIeehwddllrlaaSiklgkvsastilrkLssysrqnplykAlrelGriikTlfllrYlddeelRreiqaqlnkgEsrhalara 314
                              +dlIe+h +d+lr+a+Si++gk+ astilr+L++ysr+n+ly A+relG++++T+fll+Yl+d+++Rr+iq+++nk E++++  ++
  PHY93_04950|PHY93_04950  87 WDLIETHLPDMLRVALSIRTGKIAASTILRRLGTYSRKNRLYFAFRELGQVVRTVFLLKYLSDQNIRRTIQSATNKSEAFNGYTKW 172
                              ************************************************************************************** PP

              DDE_Tnp_Tn3 315 iffgkegeirerrreeqekrlsalrLvanaivlwNtlylsealeelraegeevkdellarlsplawehinllGeY 389
                              ++fg++g i e++r+eq+k +++++L  n+++l+++  + ++l++l++e +  + e l+ +sp+ +ehin++G+Y
  PHY93_04950|PHY93_04950 173 VAFGGQGIIGENSRDEQRKIIKYNHLTSNLLILHTMYEIGSVLKKLEDENSLPDSEALSFMSPYLTEHINRFGDY 247
                              *************************************************99999********************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (263 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       528  (0.0294495); expected 358.6 (0.02)
Passed bias filter:                      479  (0.0267165); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.42
# Mc/sec: 1878.77
//
Query:       PHY93_04955|PHY93_04955  [L=217]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.013   15.3   0.0      0.026   14.3   0.0    1.4  1  S4_2      S4 domain
       0.02   14.6   3.2      0.099   12.4   0.2    2.1  2  DUF1351   Protein of unknown function (DUF1351)
       0.04   13.7   0.2      0.095   12.5   0.2    1.6  1  Nsp1_C    Nsp1-like C-terminal region
      0.089   12.8   2.6        1.9    8.6   0.2    2.2  2  DUF1664   Protein of unknown function (DUF1664)
       0.48   10.5   3.6         56    3.9   3.5    3.1  1  YyzF      YyzF-like protein


Domain annotation for each model (and alignments):
>> S4_2  S4 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0   7.2e-06     0.026       6      34 ..     125     153 ..     122     155 .. 0.92

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 7.2e-06
                     S4_2   6 eyItLgqlLKlaglvesGgeaKafiaege 34 
                               +I L++lL l++   sGge+Ka+i +g+
  PHY93_04955|PHY93_04955 125 MHINLDKLLNLTETQRSGGEVKAIIDNGN 153
                              58***********************9986 PP

>> DUF1351  Protein of unknown function (DUF1351)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.8   0.3     0.024        85     142     177 ..      32      67 ..      20      91 .. 0.62
   2 ?   12.4   0.2   2.8e-05     0.099      66     104 ..     165     204 ..     160     211 .. 0.88

  Alignments for each domain:
  == domain 1  score: 2.8 bits;  conditional E-value: 0.024
                  DUF1351 142 lkkieeeieaakaekikkdreelekakae..ieekaka 177
                              ++k++e++   ++ek+k+d+  +ek k++  i+ek+k+
  PHY93_04955|PHY93_04955  32 IEKVKEDA--PIIEKVKEDAPIIEKIKEDapIIEKIKE 67 
                              44555554..4555555566656655555556666555 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 2.8e-05
                  DUF1351  66 eysePideFe.akikelekkikeaidkideqikefeekek 104
                              +++ P++eF  ++ +++   ik+  +++de ik+f+e++ 
  PHY93_04955|PHY93_04955 165 QLQRPLSEFStEQLDQMMVAIKSQRNELDEMIKHFDEERA 204
                              6789*****637999*********************9864 PP

>> Nsp1_C  Nsp1-like C-terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.2   2.7e-05     0.095      72     103 ..     174     205 ..     167     216 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 2.7e-05
                   Nsp1_C  72 eqnkidqeLeyiesqqdeLeslLdnyEkelee 103
                              +++++dq +  i+sq++eL+++++++ +e  +
  PHY93_04955|PHY93_04955 174 STEQLDQMMVAIKSQRNELDEMIKHFDEERAK 205
                              6789*********************9766444 PP

>> DUF1664  Protein of unknown function (DUF1664)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.4   0.2      0.01        36      74     121 ..      44      94 ..      31      97 .. 0.71
   2 ?    8.6   0.2   0.00052       1.9      47      77 ..     175     205 ..     165     214 .. 0.86

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.01
                  DUF1664  74 kldeqkeiskeikee...vtevredlseigedvesvkeaveglesklerie 121
                              k++e + i+++ike+   +++++ed   i++ +e++++   +l+ k ++ie
  PHY93_04955|PHY93_04955  44 KVKEDAPIIEKIKEDapiIEKIKEDAPIIENVLENLRNHLFSLGLKFKSIE 94 
                              555666666666666444677788888888888888888888888888877 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.00052
                  DUF1664  47 skqleqvseslaatkrhLssridrvdkklde 77 
                              ++ql+q++ ++++++++L + i++ d++  +
  PHY93_04955|PHY93_04955 175 TEQLDQMMVAIKSQRNELDEMIKHFDEERAK 205
                              68***********************987655 PP

>> YyzF  YyzF-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.9   3.5     0.016        56      18      28 ..      47      57 ..      31      79 .. 0.67

  Alignments for each domain:
  == domain 1  score: 3.9 bits;  conditional E-value: 0.016
                     YyzF 18 eqaPdieklee 28
                             e+aP+iek++e
  PHY93_04955|PHY93_04955 47 EDAPIIEKIKE 57
                             44444444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (217 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       800  (0.0446204); expected 358.6 (0.02)
Passed bias filter:                      569  (0.0317363); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 1648.83
//
Query:       PHY93_04960|PHY93_04960  [L=318]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.5e-17   62.9   0.0    4.6e-17   62.1   0.0    1.5  1  Peptidase_S74  Chaperone of endosialidase
    6.7e-05   22.3   0.6    0.00013   21.4   0.6    1.5  1  N_methyl       Prokaryotic N-terminal methylation motif


Domain annotation for each model (and alignments):
>> Peptidase_S74  Chaperone of endosialidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.1   0.0   5.1e-21   4.6e-17       1      58 []     215     267 ..     215     267 .. 0.95

  Alignments for each domain:
  == domain 1  score: 62.1 bits;  conditional E-value: 5.1e-21
                              -TTTTBSS-EC-HHHHHHHCT---EEE-BCCHHHHHGGGGS-BEEE--HHHHHHHHHH CS
            Peptidase_S74   1 SDrRlKtnIrpledalakvlklrpvtYrykdesirkskdsgrrevGfIAQeveavlpe 58 
                              SD+RlK+++++le +l+k+l+lr+v + ++d     ++ ++ r+vGfIAQeve+++pe
  PHY93_04960|PHY93_04960 215 SDKRLKKDFTSLEGSLEKILSLRGVGFSWRD-----KNFGKGRQVGFIAQEVEEIYPE 267
                              9****************************97.....557788***************8 PP

>> N_methyl  Prokaryotic N-terminal methylation motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.4   0.6   1.4e-08   0.00013       1      20 [.       6      25 ..       6      32 .. 0.87

  Alignments for each domain:
  == domain 1  score: 21.4 bits;  conditional E-value: 1.4e-08
                 N_methyl  1 mrkqrGFTLiElLvalaIla 20
                             ++++rGF+L+El++++  l+
  PHY93_04960|PHY93_04960  6 KKNNRGFSLVELMIVVGMLG 25
                             699************97765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (318 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       651  (0.0363099); expected 358.6 (0.02)
Passed bias filter:                      521  (0.0290591); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.43
# Mc/sec: 2222.10
//
Query:       PHY93_04965|PHY93_04965  [L=98]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (98 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       499  (0.027832); expected 358.6 (0.02)
Passed bias filter:                      443  (0.0247086); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.21s 00:00:00.66 Elapsed: 00:00:00.42
# Mc/sec: 707.94
//
Query:       PHY93_04970|PHY93_04970  [L=252]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    6.6e-19   68.2   0.8    1.2e-17   64.1   0.1    2.0  2  DUF4423      Domain of unknown function (DUF4423)
    2.2e-07   30.9   0.4    2.2e-07   30.9   0.4    2.6  3  HTH_3        Helix-turn-helix
    0.00017   21.5   0.4     0.0011   18.9   0.2    2.2  2  HTH_19       Helix-turn-helix domain
    0.00035   20.1   0.7       0.19   11.3   0.1    2.9  3  HTH_24       Winged helix-turn-helix DNA-binding
     0.0014   18.6   1.3        1.1    9.3   0.1    2.7  3  HTH_35       Winged helix-turn-helix DNA-binding
     0.0023   18.3   1.1       0.42   11.1   0.1    2.5  2  HTH_40       Helix-turn-helix domain
     0.0027   17.5   0.6      0.021   14.7   0.1    2.4  3  TrmB         Sugar-specific transcriptional regulator TrmB
      0.006   17.1   0.8       0.25   11.9   0.1    2.9  2  Phage_rep_O  Bacteriophage replication protein O
     0.0073   16.1   1.7     0.0088   15.9   0.2    1.9  2  TFIIE_alpha  TFIIE alpha subunit
  ------ inclusion threshold ------
       0.01   15.9   0.8       0.23   11.6   0.1    2.3  2  DUF2250      Uncharacterized protein conserved in archaea (DU
      0.016   15.2   0.1      0.044   13.7   0.0    1.9  1  HTH_36       Helix-turn-helix domain
      0.026   14.5   0.0      0.071   13.1   0.0    1.7  1  HTH_45       Winged helix-turn-helix
       0.03   14.1   0.0         48    3.9   0.0    3.2  3  HTH_23       Homeodomain-like domain
      0.032   14.6   0.0      0.061   13.7   0.0    1.4  1  HTH_31       Helix-turn-helix domain
      0.047   13.7   0.0       0.11   12.6   0.0    1.6  1  HTH_20       Helix-turn-helix domain
      0.051   13.5   0.1         11    6.1   0.0    2.5  2  MarR         MarR family
      0.057   13.5   0.1        9.6    6.4   0.0    2.5  2  Sigma70_r3   Sigma-70 region 3
      0.065   13.1   0.7       0.47   10.3   0.1    2.6  3  HTH_10       HTH DNA binding domain
      0.077   12.9   0.5       0.57   10.1   0.1    2.5  2  DUF2740      Protein of unknown function (DUF2740)
       0.11   12.4   0.0        9.8    6.2   0.0    2.4  2  MarR_2       MarR family
       0.12   12.9   0.2       0.68   10.5   0.1    2.4  2  ANAPC2       Anaphase promoting complex (APC) subunit 2


Domain annotation for each model (and alignments):
>> DUF4423  Domain of unknown function (DUF4423)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.9   0.1     0.091        78      77     122 ..      30      75 ..      20      89 .. 0.83
   2 !   64.1   0.1   1.5e-20   1.2e-17       6     167 ..      96     251 ..      91     252 .] 0.90

  Alignments for each domain:
  == domain 1  score: 2.9 bits;  conditional E-value: 0.091
                  DUF4423  77 rqtekslttssevkseavrsyhkqmlelAiealervpkeeRdissl 122
                              r  +k+l++ss++ se +r  +k  l++Ai+  e +++e  +i+ l
  PHY93_04970|PHY93_04970  30 RAFSKKLNVSSSALSEILRGKRKISLKKAIQYAEILNIEPKKIKQL 75 
                              666899999*********************9999888888877766 PP

  == domain 2  score: 64.1 bits;  conditional E-value: 1.5e-20
                  DUF4423   6 kirkLdeeefeyfssWyypvirellplkdfkadpeelakrlrpkisaeevekalefLlklgllkkdedgkyrqtekslt.tssevk 90 
                              k+ +++ ++f+++s+ +++ ++++l+ k++  +pe+++++l+  ++  ev++al+ L+k+g+lkk+++ +y   e+ +  ts++++
  PHY93_04970|PHY93_04970  96 KEIVITPDRFHVMSDRKFFSVLAMLRSKNK--SPESISEKLG--LKINEVKSALDELVKTGVLKKNGN-EYSEEERVVFrTSENFP 176
                              56678899***************9999998..**********..***********************9.66666666555****** PP

                  DUF4423  91 seavrsyhkqmlelAiealervpkeeRdissltlaiskedyekikkeirefrkkilaiaeeskeaerVyqLnlqlFp 167
                               e++++ + q+   A++a+e++   e    + t++++k+++++i   +++f k++  ++++s + e+V+++nl+ Fp
  PHY93_04970|PHY93_04970 177 LELMKKRRLQNNIAAKKAIESNVNGE-CGYFATVSLDKSKLDEIGPIVEDFMKRLSLFLRKSGS-EDVFEINLDIFP 251
                              ********************655555.5567889******************************.***********9 PP

>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.9   0.4   2.5e-10   2.2e-07      11      52 ..      28      69 ..      21      72 .. 0.93
   2 ?   -1.8   0.0       3.8   3.3e+03       1      15 [.      72      88 ..      72      89 .. 0.72
   3 ?   -1.6   0.0       3.5     3e+03       8      22 ..     123     137 ..     118     142 .. 0.66

  Alignments for each domain:
  == domain 1  score: 30.9 bits;  conditional E-value: 2.5e-10
                             HHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEH CS
                    HTH_3 11 sqeeLAeklGvsrstisriEnGernPsletlkklakaLgvsl 52
                             s++ +++kl+vs s++s i +G+r++sl++++ +a+ L++++
  PHY93_04970|PHY93_04970 28 SIRAFSKKLNVSSSALSEILRGKRKISLKKAIQYAEILNIEP 69
                             7899***********************************987 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 3.8
                             HHHHHH..HTTHHHHHH CS
                    HTH_3  1 lkelRk..qlglsqeeL 15
                             +k+lR+  ++  s+e+L
  PHY93_04970|PHY93_04970 72 IKQLREafEKSGSLEQL 88
                             89999966666666666 PP

  == domain 3  score: -1.6 bits;  conditional E-value: 3.5
                              TTHHHHHHHHHHTSS CS
                    HTH_3   8 lglsqeeLAeklGvs 22 
                              ++ s e ++eklG++
  PHY93_04970|PHY93_04970 123 KNKSPESISEKLGLK 137
                              666677777777754 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.2   1.3e-06    0.0011      13      61 ..      27      74 ..      23      78 .. 0.93
   2 ?   -0.3   0.0       1.3   1.1e+03       9      20 ..     132     143 ..     115     152 .. 0.71

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 1.3e-06
                   HTH_19 13 ltqeelaerlgisrskisaiEngkkdvpsaelllkiaealgidleyllq 61
                             +++++ +++l +s s +s+i  gk+ ++s ++  ++ae+l+i+++ + q
  PHY93_04970|PHY93_04970 27 FSIRAFSKKLNVSSSALSEILRGKR-KISLKKAIQYAEILNIEPKKIKQ 74
                             799**********************.*****************998766 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 1.3
                   HTH_19   9 eelgltqeelae 20 
                              e+lgl++ e+ +
  PHY93_04970|PHY93_04970 132 EKLGLKINEVKS 143
                              455555555554 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.9   0.0     0.011       9.2      14      39 ..      23      48 ..      20      48 .. 0.90
   2 ?   -1.9   0.0       2.9   2.5e+03      24      45 ..      62      83 ..      60      83 .. 0.75
   3 !   11.3   0.1   0.00023      0.19      20      48 .]     127     155 ..     119     155 .. 0.92

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.011
                   HTH_24 14 knprisqreLAerlglSpstvnrrlk 39
                             +npr s+r  +++l++S+s++++ l+
  PHY93_04970|PHY93_04970 23 RNPRFSIRAFSKKLNVSSSALSEILR 48
                             69999****************99876 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 2.9
                   HTH_24 24 AerlglSpstvnrrlkrLeeeG 45
                             Ae l++ p  +++  + +e++G
  PHY93_04970|PHY93_04970 62 AEILNIEPKKIKQLREAFEKSG 83
                             8999999988887777777666 PP

  == domain 3  score: 11.3 bits;  conditional E-value: 0.00023
                   HTH_24  20 qreLAerlglSpstvnrrlkrLeeeGlIk 48 
                                 ++e+lgl ++ v+  l++L++ G++k
  PHY93_04970|PHY93_04970 127 PESISEKLGLKINEVKSALDELVKTGVLK 155
                              5679**********************986 PP

>> HTH_35  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.4   0.1    0.0054       4.6      15      58 ..      26      72 ..      19      77 .. 0.81
   2 ?   -1.8   0.0       3.9   3.3e+03      58      67 ..     100     109 ..      96     116 .. 0.74
   3 !    9.3   0.1    0.0013       1.1       7      38 ..     116     147 ..     110     152 .. 0.90

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.0054
                   HTH_35 15 gttLaalsreaglssstlsnaltrp...wpkgEalIAeaLgvppeei 58
                             + +++a s++++ sss+ls++l+ +   + k     Ae+L+++p++i
  PHY93_04970|PHY93_04970 26 RFSIRAFSKKLNVSSSALSEILRGKrkiSLKKAIQYAEILNIEPKKI 72
                             57999*****************8654345666666799999999987 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 3.9
                   HTH_35  58 iwPsRYekdt 67 
                              i P+R++  +
  PHY93_04970|PHY93_04970 100 ITPDRFHVMS 109
                              77****9873 PP

  == domain 3  score: 9.3 bits;  conditional E-value: 0.0013
                   HTH_35   7 IiAaLrkrgttLaalsreaglssstlsnaltr 38 
                              + A Lr ++ +  ++s+++gl+ +++++al+ 
  PHY93_04970|PHY93_04970 116 VLAMLRSKNKSPESISEKLGLKINEVKSALDE 147
                              789*************************9976 PP

>> HTH_40  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   0.2     0.023        20      42      76 ..      58      95 ..      27     101 .. 0.71
   2 !   11.1   0.1    0.0005      0.42       7      45 ..     118     156 ..     115     209 .. 0.66

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.023
                   HTH_40 42 eidlerl..vseeeekeIeeaiekvg.seklkpikeal 76
                              i++ ++  ++++++k+++ea+ek g  e+lkp  + l
  PHY93_04970|PHY93_04970 58 AIQYAEIlnIEPKKIKQLREAFEKSGsLEQLKPSQNPL 95
                             35555553447799999999999988444477765555 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 0.0005
                   HTH_40   7 ell.eeglsieeIAkerglkesTIegHLaelieegeeidl 45 
                               +l  +++s+e I+++ glk + + + L el+++g  ++ 
  PHY93_04970|PHY93_04970 118 AMLrSKNKSPESISEKLGLKINEVKSALDELVKTGV-LKK 156
                              5665899***************************94.322 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.0       1.4   1.2e+03      24      44 ..      28      48 ..      23      49 .. 0.82
   2 ?   -2.8   0.0       7.3   6.2e+03      14      31 ..      61      78 ..      57      84 .. 0.68
   3 !   14.7   0.1   2.4e-05     0.021      15      57 ..     117     159 ..     112     172 .. 0.89

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 1.4
                             HHCHHCCCTTSSCHCHHHHHH CS
                     TrmB 24 tadeiaeelgvprskvYevLr 44
                             +++  +++l+v+ s   e+Lr
  PHY93_04970|PHY93_04970 28 SIRAFSKKLNVSSSALSEILR 48
                             5677799*******9999997 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 7.3
                             CHHHHHHCCCHHCHHCCC CS
                     TrmB 14 YlaLlklgpatadeiaee 31
                             Y+ +l+ +p++++++ e+
  PHY93_04970|PHY93_04970 61 YAEILNIEPKKIKQLREA 78
                             666777777777776665 PP

  == domain 3  score: 14.7 bits;  conditional E-value: 2.4e-05
                              HHHHHHCCCHHCHHCCCTTSSCHCHHHHHHHHHHCTSEEEESS CS
                     TrmB  15 laLlklgpatadeiaeelgvprskvYevLrsLedkGlVerekg 57 
                              la+l++++++ + i+e+lg+  + v ++L +L++ G+ +++  
  PHY93_04970|PHY93_04970 117 LAMLRSKNKSPESISEKLGLKINEVKSALDELVKTGVLKKNGN 159
                              58899*******************************9998754 PP

>> Phage_rep_O  Bacteriophage replication protein O
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.7   0.1      0.22   1.9e+02      53      77 ..      59      83 ..       4      98 .. 0.81
   2 !   11.9   0.1    0.0003      0.25      52      87 ..     127     162 ..     118     168 .. 0.87

  Alignments for each domain:
  == domain 1  score: 2.7 bits;  conditional E-value: 0.22
              Phage_rep_O 53 sqlveltgisrtkvskalkeLirek 77
                              q +e+ +i+++k+++ ++++ +++
  PHY93_04970|PHY93_04970 59 IQYAEILNIEPKKIKQLREAFEKSG 83
                             4788888999999999999888876 PP

  == domain 2  score: 11.9 bits;  conditional E-value: 0.0003
              Phage_rep_O  52 nsqlveltgisrtkvskalkeLirekviikegrkvg 87 
                               + ++e  g++ ++v++al+eL++ +v++k+g++++
  PHY93_04970|PHY93_04970 127 PESISEKLGLKINEVKSALDELVKTGVLKKNGNEYS 162
                              567899999***********************9876 PP

>> TFIIE_alpha  TFIIE alpha subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.1       2.6   2.2e+03      76      99 ..      59      82 ..      41      87 .. 0.73
   2 !   15.9   0.2     1e-05    0.0088      11      62 ..     109     157 ..      98     200 .. 0.76

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 2.6
                             EECCCHCCCHHHHHHHHHHHHHHH CS
              TFIIE_alpha 76 inyeklvdvvkrkleevvkkLeek 99
                             i+y +++++  +k+++++   e+ 
  PHY93_04970|PHY93_04970 59 IQYAEILNIEPKKIKQLREAFEKS 82
                             566677777777777777666665 PP

  == domain 2  score: 15.9 bits;  conditional E-value: 1e-05
                              S-HHHHHHHHHHHCTTSEBHHHHHHHHTS-HHHHHHHHHHHHHCTSEEEEEE CS
              TFIIE_alpha  11 ygeeavlvldvLlekgevteedlakelkidlnelrklLnrLyearlvkykrr 62 
                               + +++ vl +L +k + + e ++++l++++ne++++L +L + ++ k  ++
  PHY93_04970|PHY93_04970 109 SDRKFFSVLAMLRSKNK-SPESISEKLGLKINEVKSALDELVKTGVLK--KN 157
                              56789999999996665.7799********************999975..33 PP

>> DUF2250  Uncharacterized protein conserved in archaea (DUF2250)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.1      0.17   1.5e+02      12      56 ..      45      89 ..      34      97 .. 0.82
   2 ?   11.6   0.1   0.00027      0.23      11      58 ..     114     160 ..     106     174 .. 0.78

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.17
                  DUF2250 12 kvlkhlkkanvdYaksiakeleipleevrellkkLeelGLlerve 56
                             ++l+  +k+    a ++a+ l+i+ +++++l ++ e+ G le+ +
  PHY93_04970|PHY93_04970 45 EILRGKRKISLKKAIQYAEILNIEPKKIKQLREAFEKSGSLEQLK 89
                             56666677777778899999*******************999865 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 0.00027
                  DUF2250  11 lkvlkhlkkanvdYaksiakeleipleevrellkkLeelGLlervegk 58 
                              + vl++l+  n   + si+++l ++++ev+++l++L ++G l++  ++
  PHY93_04970|PHY93_04970 114 FSVLAMLRSKN-KSPESISEKLGLKINEVKSALDELVKTGVLKKNGNE 160
                              56666666554.45899*************************998765 PP

>> HTH_36  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   5.2e-05     0.044      27      54 ..     126     153 ..     109     154 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 5.2e-05
                   HTH_36  27 sqetlakrlglsknTvsraikeLeqlGy 54 
                              s e ++++lgl+ n v +a++eL+++G 
  PHY93_04970|PHY93_04970 126 SPESISEKLGLKINEVKSALDELVKTGV 153
                              56789*********************96 PP

>> HTH_45  Winged helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   8.3e-05     0.071       9      57 ..     114     162 ..     110     166 .. 0.94

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 8.3e-05
                   HTH_45   9 adILeaisegeakkTkimykanLsykllnkYLdmLvekglikkskekYv 57 
                              +++L +++++++++ +i  k  L+ + +++ Ld Lv+ g++kk++++Y+
  PHY93_04970|PHY93_04970 114 FSVLAMLRSKNKSPESISEKLGLKINEVKSALDELVKTGVLKKNGNEYS 162
                              6789999999*************************************96 PP

>> HTH_23  Homeodomain-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.0     0.077        66      17      39 ..      26      48 ..      17      51 .. 0.84
   2 ?    3.9   0.0     0.056        48      24      49 ..      62      88 ..      60      89 .. 0.91
   3 ?    2.6   0.0      0.15   1.2e+02       9      29 ..     115     136 ..     114     139 .. 0.87

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.077
                   HTH_23 17 GlsvreIAreLgvsrrTvyrwlk 39
                             + s+r+ +++L+vs + ++ +l+
  PHY93_04970|PHY93_04970 26 RFSIRAFSKKLNVSSSALSEILR 48
                             7899***********99988876 PP

  == domain 2  score: 3.9 bits;  conditional E-value: 0.056
                   HTH_23 24 AreLgvsrrTvyrwlkryreeG.legl 49
                             A++L++ +  + + +++++++G le+l
  PHY93_04970|PHY93_04970 62 AEILNIEPKKIKQLREAFEKSGsLEQL 88
                             899***************998879988 PP

  == domain 3  score: 2.6 bits;  conditional E-value: 0.15
                   HTH_23   9 rillllae.GlsvreIAreLgv 29 
                              ++l +l+   +s++ I+++Lg 
  PHY93_04970|PHY93_04970 115 SVLAMLRSkNKSPESISEKLGL 136
                              578899988***********96 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   7.1e-05     0.061      14      59 ..      26      70 ..      20      75 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 7.1e-05
                   HTH_31 14 GLsqeevAerlgvsestlsrlEqGrrgrpspavlealaralgldpa 59
                             + s ++  + l+vs s ls + +G+r   s+    ++a++l+ +p 
  PHY93_04970|PHY93_04970 26 RFSIRAFSKKLNVSSSALSEILRGKR-KISLKKAIQYAEILNIEPK 70
                             678899999*****************.6*************99875 PP

>> HTH_20  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   0.00013      0.11       2      55 ..     103     155 ..     102     160 .. 0.93

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 0.00013
                              HHHHHHS-HHHHHHHHHHSTCTTB-HHHHHHHHTS-HHHHHHHHHHHHHCTTEE CS
                   HTH_20   2 qiaeALahPvRrrilraLaraegltaselaerldlskntlsyHLrvLeeagLve 55 
                              + +++++++    +l++L r +  +++ + e l+l+ n++   L++L++ g ++
  PHY93_04970|PHY93_04970 103 DRFHVMSDRKFFSVLAML-RSKNKSPESISEKLGLKINEVKSALDELVKTGVLK 155
                              578899999999******.******************************99886 PP

>> MarR  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.1   0.0     0.012        11      15      39 ..      24      48 ..      22      49 .. 0.86
   2 ?    4.7   0.0     0.034        29       8      49 ..     116     156 ..     112     160 .. 0.82

  Alignments for each domain:
  == domain 1  score: 6.1 bits;  conditional E-value: 0.012
                             STTEEHHHHHHHHTS-HHHHHHHHH CS
                     MarR 15 qgplsvseLakklgvskstvtrvld 39
                             ++  s+    kkl+vs+s+++++l+
  PHY93_04970|PHY93_04970 24 NPRFSIRAFSKKLNVSSSALSEILR 48
                             5667888999************997 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.034
                              HHHHHHHSTTEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEE CS
                     MarR   8 iLrilyeqgplsvseLakklgvskstvtrvldrLekkGlieR 49 
                              +L++l+ + + s   + +klg+++  v  +ld+L+k G +++
  PHY93_04970|PHY93_04970 116 VLAMLR-SKNKSPESISEKLGLKINEVKSALDELVKTGVLKK 156
                              555554.45678889*********************998765 PP

>> Sigma70_r3  Sigma-70 region 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.4   0.0     0.011       9.6      27      52 ..      62      87 ..      60      92 .. 0.94
   2 ?    4.3   0.0      0.05        43      22      42 ..     126     146 ..     122     150 .. 0.91

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.011
                             HHHHTXXHHHHHHHHHHHXXXEETTX CS
               Sigma70_r3 27 AeeLglseekVrevleaarepvSldl 52
                             Ae L+++++k++++ ea +++ Sl++
  PHY93_04970|PHY93_04970 62 AEILNIEPKKIKQLREAFEKSGSLEQ 87
                             899******************99986 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.05
                              XHHHHHHHHTXXHHHHHHHHH CS
               Sigma70_r3  22 tpeEiAeeLglseekVrevle 42 
                              +pe i e+Lgl +++V+++l+
  PHY93_04970|PHY93_04970 126 SPESISEKLGLKINEVKSALD 146
                              7899*************9986 PP

>> HTH_10  HTH DNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.1   0.00056      0.47      23      45 ..      26      48 ..      17      54 .. 0.88
   2 ?   -1.8   0.0       3.2   2.7e+03      30      44 ..      62      75 ..      49      81 .. 0.63
   3 ?   -0.5   0.0       1.3   1.1e+03      23      44 ..     124     145 ..     121     150 .. 0.73

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00056
                   HTH_10 23 rvtlkeLAkelGIskstlsehLr 45
                             r ++++ +k+l++s s+lse+Lr
  PHY93_04970|PHY93_04970 26 RFSIRAFSKKLNVSSSALSEILR 48
                             5789999***************9 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 3.2
                   HTH_10 30 AkelGIskstlsehL 44
                             A++l+I +  +++ L
  PHY93_04970|PHY93_04970 62 AEILNIEPKKIKQ-L 75
                             6677776666544.4 PP

  == domain 3  score: -0.5 bits;  conditional E-value: 1.3
                   HTH_10  23 rvtlkeLAkelGIskstlsehL 44 
                              + + ++++++lG++ + ++  L
  PHY93_04970|PHY93_04970 124 NKSPESISEKLGLKINEVKSAL 145
                              56668999***99877666555 PP

>> DUF2740  Protein of unknown function (DUF2740)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.1   0.00067      0.57       8      32 ..       4      28 ..       2      38 .. 0.87
   2 ?   -0.5   0.0       1.4   1.2e+03       4      21 ..      87     105 ..      85     110 .. 0.74

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00067
                  DUF2740  8 DqDkLhkniLrDrfLssfkqPGrfr 32
                             D  +L kniL D ++s+ k+  rf 
  PHY93_04970|PHY93_04970  4 DEQQLIKNILTDYYFSAQKRNPRFS 28
                             77899***************99994 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 1.4
                  DUF2740   4 qLsPDqDkLhkn.iLrDrf 21 
                              qL P q+ L    i  Drf
  PHY93_04970|PHY93_04970  87 QLKPSQNPLKEIvITPDRF 105
                              9999999997651445887 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.2   0.0     0.011       9.8      16      43 ..      23      48 ..      20      49 .. 0.90
   2 ?    3.7   0.0     0.069        59       9      53 ..     115     156 ..     114     167 .. 0.87

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.011
                             CTTTSEEEHHHHHHHHTSSHHHHHHHHH CS
                   MarR_2 16 rrpgrdltvgelarrlglsksavsrilk 43
                             r+p+  +++++  ++l++s sa+s il+
  PHY93_04970|PHY93_04970 23 RNPR--FSIRAFSKKLNVSSSALSEILR 48
                             5666..********************97 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.069
                              HHHHHHHCTTTSEEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEE CS
                   MarR_2   9 rvLaaLgrrpgrdltvgelarrlglsksavsrilkrLvaaGLver 53 
                               vLa L+       ++  + ++lgl+   v  +l++Lv+ G + +
  PHY93_04970|PHY93_04970 115 SVLAMLRSKNK---SPESISEKLGLKINEVKSALDELVKTGVLKK 156
                              68888888887...9999*********************998865 PP

>> ANAPC2  Anaphase promoting complex (APC) subunit 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0       4.3   3.7e+03      29      46 ..      34      51 ..      28      54 .. 0.79
   2 ?   10.5   0.1    0.0008      0.68      31      59 ..     134     162 ..     108     162 .. 0.83

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 4.3
                   ANAPC2 29 egydisdeeLkefLdelv 46
                             ++ ++s++ L+e+L  + 
  PHY93_04970|PHY93_04970 34 KKLNVSSSALSEILRGKR 51
                             567899999999998886 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 0.0008
                   ANAPC2  31 ydisdeeLkefLdelvkegkLelsgGkYk 59 
                                 +++e+k+ Ldelvk g L+ +g++Y+
  PHY93_04970|PHY93_04970 134 LGLKINEVKSALDELVKTGVLKKNGNEYS 162
                              556789********************995 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (252 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       939  (0.0523733); expected 358.6 (0.02)
Passed bias filter:                      619  (0.0345251); expected 358.6 (0.02)
Passed Vit filter:                        87  (0.00485247); expected 17.9 (0.001)
Passed Fwd filter:                        21  (0.00117129); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              21  [number of targets reported over threshold]
# CPU time: 0.54u 0.26s 00:00:00.80 Elapsed: 00:00:00.44
# Mc/sec: 1711.74
//
Query:       PHY93_04975|PHY93_04975  [L=97]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
     0.0051   16.5   0.0     0.0099   15.6   0.0    1.4  1  AP_endonuc_2_N  AP endonuclease family 2 C terminus


Domain annotation for each model (and alignments):
>> AP_endonuc_2_N  AP endonuclease family 2 C terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   5.5e-07    0.0099      20      47 ..      62      89 ..      59      93 .. 0.91

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 5.5e-07
           AP_endonuc_2_N 20 iEwEDslmsreeGareAvaflkdkllie 47
                             iE ED l+s +e++r +++fl++++ ++
  PHY93_04975|PHY93_04975 62 IEIEDILKSLLECLRAGARFLDKNIEFK 89
                             9*********************988776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (97 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1307  (0.0728987); expected 358.6 (0.02)
Passed bias filter:                      502  (0.0279993); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 725.59
//
Query:       PHY93_04980|PHY93_04980  [L=130]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (130 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       623  (0.0347482); expected 358.6 (0.02)
Passed bias filter:                      458  (0.0255452); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 991.66
//
Query:       PHY93_04985|PHY93_04985  [L=488]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
     0.0067   16.0   1.2      0.016   14.7   0.3    2.1  2  Peptidase_C13  Peptidase C13 family
  ------ inclusion threshold ------
       0.19   11.5   0.2       0.93    9.4   0.0    2.3  3  KH_1           KH domain


Domain annotation for each model (and alignments):
>> Peptidase_C13  Peptidase C13 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.3   1.8e-06     0.016     106     190 ..     113     211 ..      89     234 .. 0.77
   2 ?   -3.6   0.0       0.7   6.3e+03     193     213 ..     282     302 ..     245     315 .. 0.72

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1.8e-06
                              TSEEEEEEES-EETT..........EEE-S.....SSSEEEHHHHH.....HHHHHHHHCT--SEEEEEEESTTGGGGTTTS-TTS CS
            Peptidase_C13 106 eDnvfiyltdhGapg..........vlevp.....eeddleakdLa.....eaLkkmhakkkykklviyleaceSgsmfeellkdi 171
                               D+++iy+++hGa++          +         + ++l+   L      e+Lkk+ ++k   k+ i+ ++c Sg  ++    d 
  PHY93_04985|PHY93_04985 113 GDQLMIYVDSHGAEKeknfkshsiaT---SagtaaNLNTLAGASLVdldqlEVLKKLAKDKG-VKMAIIDSSCHSGNTLAL--ADD 192
                              59************999888885440...334445444444444432212278999988888.899***********9987..999 PP

                              SEEEEESS-TTS--BEECE CS
            Peptidase_C13 172 nvyaltAanadessfgtyc 190
                              n+++++ + ++   +gt+ 
  PHY93_04985|PHY93_04985 193 NTCVISGTGPNHYGYGTFG 211
                              ****************976 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 0.7
                              TTTTCEEEEHHHHHHHHHHHH CS
            Peptidase_C13 193 eedgtylgdlfsvawledsdd 213
                              + ++++++d+ + + ++ +++
  PHY93_04985|PHY93_04985 282 SGYQQCMADANFNSLINTINS 302
                              446778888888777777766 PP

>> KH_1  KH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -4.0   0.0       1.5   1.4e+04      14      20 ..      28      34 ..      25      34 .. 0.86
   2 ?    9.4   0.0    0.0001      0.93      20      53 ..     161     200 ..     159     204 .. 0.88
   3 ?   -3.0   0.0      0.76   6.9e+03      17      25 ..     219     227 ..     218     229 .. 0.90

  Alignments for each domain:
  == domain 1  score: -4.0 bits;  conditional E-value: 1.5
                             HHTGGGH CS
                     KH_1 14 iIGkgGs 20
                             +IG gG+
  PHY93_04985|PHY93_04985 28 VIGAGGE 34
                             9****96 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.0001
                              HHHHHHHHHHT-EEEEESSTT..........T.-EEEEEES CS
                     KH_1  20 snIkeIreetgakIkvpksedeg.......sderevtisGs 53 
                              +++k++ +++g+k+ ++ ++++         d+++++isG+
  PHY93_04985|PHY93_04985 161 EVLKKLAKDKGVKMAII-DSSCHsgntlalADDNTCVISGT 200
                              5799****99*******.7777778**************95 PP

  == domain 3  score: -3.0 bits;  conditional E-value: 0.76
                              GGGHHHHHH CS
                     KH_1  17 kgGsnIkeI 25 
                              k+G+n+ eI
  PHY93_04985|PHY93_04985 219 KKGKNLEEI 227
                              99****998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (488 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       846  (0.0471861); expected 358.6 (0.02)
Passed bias filter:                      460  (0.0256568); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.59u 0.25s 00:00:00.84 Elapsed: 00:00:00.42
# Mc/sec: 3482.37
//
Query:       PHY93_04990|PHY93_04990  [L=226]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.4e-19   69.6   0.0    9.5e-19   68.2   0.0    1.7  1  HAD_2            Haloacid dehalogenase-like hydrolase
    2.8e-10   40.1   0.0    5.2e-10   39.2   0.0    1.5  1  Hydrolase_like   HAD-hyrolase-like
      2e-09   38.0   0.0    9.7e-09   35.8   0.0    1.8  1  Hydrolase        haloacid dehalogenase-like hydrolase
     0.0088   15.7   0.0      0.031   13.9   0.0    1.9  1  PGP_phosphatase  Mitochondrial PGP phosphatase


Domain annotation for each model (and alignments):
>> HAD_2  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.2   0.0   2.1e-22   9.5e-19       1     177 [.       6     200 ..       6     201 .. 0.83

  Alignments for each domain:
  == domain 1  score: 68.2 bits;  conditional E-value: 2.1e-22
                    HAD_2   1 iiFDlDgTlldteeliiqafnelleey....................glselseeelrkliglslrellrklgeseeeeekieell 66 
                              ++FD D+Tlld +     +f+ +l+++                    +  +   e l ++  l+  e +rk+ e ++ e +  +l 
  PHY93_04990|PHY93_04990   6 LLFDADDTLLDFKRSENISFQIILKKNgiigdieafhesykiindllW--SQHAEGLVSKDFLK-VERFRKFLEVNNLEADPIQLC 88 
                              69*************************777777777777666553221..22222222222222.244555555556666888888 PP

                    HAD_2  67 rkyneekkkkevkpydgvkelLeeLkeagyklgivTsksreaveekleqlgiesyFdvivtsedvekkKPdpeviekalekl..kl 150
                              ++y e +   +v +++g+ elL++L + ++ l ivT++  +++ + l + g++ +++ +v+s++++ +KPd +++  + + l   l
  PHY93_04990|PHY93_04990  89 DDYLETLPS-QVFLIEGATELLKTL-HGKIPLVIVTNGIGSVQHKRLLNSGLKPFIELMVISDECGFSKPDRRIFDYTFDLLnrSL 172
                              999999999.9**************.****************************************************99996679 PP

                    HAD_2 151 kkeeviyvGDsp.tDieaakkagikvia 177
                               +++++++GD   tDi +a+++ +++++
  PHY93_04990|PHY93_04990 173 LSSRTLMIGDRLeTDILGARNIAMDSCW 200
                              9************************998 PP

>> Hydrolase_like  HAD-hyrolase-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.2   0.0   1.2e-13   5.2e-10       3      71 ..     154     224 ..     152     226 .] 0.87

  Alignments for each domain:
  == domain 1  score: 39.2 bits;  conditional E-value: 1.2e-13
                              STTSSHHHHHHHHHH---..GGGEEEEES-TTTHHHHHHHCT-EEEEESSSSS-TTTHHHHHHHHT---SE CS
           Hydrolase_like   3 gKPepemydfalevlgsd..peevlmiGDrlatDiagAnnaGwksvLVltGvtrpedleepehkptyvadd 71 
                              +KP + ++d+    l+    ++++lmiGDrl+tDi+gA+n+ ++s+     +++++   +p ++ ++++d 
  PHY93_04990|PHY93_04990 154 SKPDRRIFDYTFDLLNRSllSSRTLMIGDRLETDILGARNIAMDSCWFNPDKFNNTTNISPTYEIQHIIDV 224
                              7**************65556***************************999999998877777777777765 PP

>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.8   0.0   2.2e-12   9.7e-09       2     208 ..       4     193 ..       3     194 .. 0.76

  Alignments for each domain:
  == domain 1  score: 35.8 bits;  conditional E-value: 2.2e-12
                              SEEEEESBTTTBCHHHHHHHHHHHHCHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHETTTEHHHHTHHHHHHHHHCHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase   2 ktvvfDkdGTLttgepsvedvivsaalalaaaletgsehpigkalvaaakarsgaltgfatfigrgayaigkpewltaldippdlg 87 
                              ++++fD d TL++ ++s                       i  +++ + +++ g+++ f++      y i +  ++ ++       
  PHY93_04990|PHY93_04990   4 DLLLFDADDTLLDFKRSEN---------------------ISFQIILKKNGIIGDIEAFHE-----SYKIINDLLWSQH------- 56 
                              7899999999998883322.....................333346888999999999999.....9999999988888....... PP

                              HHHHHHHHHCHHHHHH...............TTHHHHHHHHHHTHHBHTTHHHHHHHHHHTTEEEEEEESSEHHHHHHHHHHTT.G CS
                              xxxxxxxxxxxxxxxx...............xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.x RF
                Hydrolase  88 aaigsaqsqgrtvall...............qaralavftiadplkvkpeaaeavasLkaagievvlltgdnpetaeraanqlG.d 157
                                 + + s++   +                 q   + + t+  + ++ ++a e++++L+ + i++v++t++  + +++ + + G +
  PHY93_04990|PHY93_04990  57 --AEGLVSKDFLKVERfrkflevnnleadpiQLCDDYLETLPSQVFLIEGATELLKTLHGK-IPLVIVTNGIGSVQHKRLLNSGlK 139
                              ..22222222222222444445557777776556666777778888*************44.7**************555556766 PP

                              GGESEEEEHHCESSTTTSHHHHHHHHHHHT..STGGGEEEEESSHH.HHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxx.xxxxxxx RF
                Hydrolase 158 dyfdaviasdietvakpspegkvaaireLq..gkpeevamVGDgvn.Daaalaa 208
                               +++  + sd+ +++kp+ +++ ++ + L+     ++++m+GD++  D+ ++++
  PHY93_04990|PHY93_04990 140 PFIELMVISDECGFSKPDRRIFDYTFDLLNrsLLSSRTLMIGDRLEtDILGARN 193
                              77799************************9555599*************99875 PP

>> PGP_phosphatase  Mitochondrial PGP phosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.9   0.0   6.9e-06     0.031      67     163 ..     105     201 ..      86     204 .. 0.74

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 6.9e-06
          PGP_phosphatase  67 kleelrevypeksilivSNsaGssddkdaekaealekktgipVlrhk..ekKPgcaeevley.fkerkvveeadeiavvgDRllTd 149
                              + e l++ +++  ++iv N +Gs + k     + l+  +++ V+  +    KP+  + + +y f   +    ++  +++gDRl Td
  PHY93_04990|PHY93_04990 105 ATELLKTLHGKIPLVIVTNGIGSVQHK-RLLNSGLKPFIELMVISDEcgFSKPD--RRIFDYtFDLLNRSLLSSRTLMIGDRLETD 187
                              556677888888999999999998755.55667888899999998885567774..566776433333445678899********* PP

          PGP_phosphatase 150 vllanmmGslgvwl 163
                              +l a+ +   + w+
  PHY93_04990|PHY93_04990 188 ILGARNIAMDSCWF 201
                              ***99988777775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (226 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       280  (0.0156172); expected 358.6 (0.02)
Passed bias filter:                      247  (0.0137766); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 1680.28
//
Query:       PHY93_04995|PHY93_04995  [L=724]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-44  152.6   0.0    2.8e-44  151.3   0.0    1.6  2  E1_dh            Dehydrogenase E1 component
    1.1e-37  129.4   0.0    1.9e-37  128.7   0.0    1.3  1  Transket_pyr     Transketolase, pyrimidine binding domain
    1.9e-32  111.7   0.2    3.4e-32  110.9   0.2    1.4  1  Transketolase_C  Transketolase, C-terminal domain
  ------ inclusion threshold ------
      0.016   14.4   0.0      0.039   13.2   0.0    1.7  1  DXP_synthase_N   1-deoxy-D-xylulose-5-phosphate synthase
       0.21   11.9   2.2       0.49   10.7   0.5    2.1  2  MecA_N           NTF2-like N-terminal transpeptidase domain


Domain annotation for each model (and alignments):
>> E1_dh  Dehydrogenase E1 component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  151.3   0.0   7.8e-48   2.8e-44       7     296 ..      45     352 ..      41     356 .. 0.94
   2 ?   -3.0   0.0      0.78   2.8e+03     187     201 ..     687     701 ..     685     703 .. 0.87

  Alignments for each domain:
  == domain 1  score: 151.3 bits;  conditional E-value: 7.8e-48
                              HHHHHHHHHHHHTTSS-S-----TT-HHHHHHHHHTS-TT.SEEEESS--HHHHHHTT--HHHHHHHHTT-T.TTSSGTT-..-E. CS
                    E1_dh   7 rrvedaldalykrkkrigfyhlsagqealkvgiaaaleke.DliiteYReagvllarglsleeilaeltgkv.kgkggsrh.elmy 89 
                               r +d++++++k++ +  f ++sag e + +++   l+++ D+ + +YR++  +l  g++ +e+l++  g+  +  + +r  + + 
  PHY93_04995|PHY93_04995  45 SRKVDDAEISMKKQSKAFFQISSAGHEGILTAATRVLKPThDWFLGYYRDRALCLGLGVTPYEMLCQANGNIgDTASHGRMmPAHW 130
                              58899*******************************************************************94444444448*** PP

                              .BTT..BEEE-SSTTTHHHHHHHHHHHHH...............HHTS---EEEEEEGGGTT-HHHHHHHHHHHHTT--EEEEEEE CS
                    E1_dh  90 aekesrilggngivgaqvplvaGialaak...............iegkkevailliGDgAanqGdvyealnlaalwklpvifvveN 160
                              ++k+ +i+++++  g+q  +++G+a a+                   ++e+  + +GDg  +qG+++e+l+ a + +lpv+f+ve 
  PHY93_04995|PHY93_04995 131 GNKKLNIVNKSSCTGTQFLQACGLAEAGLwykklqkeynidtsgLYHDDEIIYVSTGDGTMAQGEFWEGLTTACVNSLPVLFMVED 216
                              *****************9999999999989999*********9988899999********************************** PP

                              ESEETTEEHHHH-S---GGG...TTTTS-EEEEETTSHHHHHHHHHHHHHHHHTTT--EEEEEEE--SS-SSTTSHSHSSSHHHHH CS
                    E1_dh 161 NkygisTeaekasaskelad.rargvgipglrVdgnDplavyeAvkfAaeraregkgpllielvtYRyggHsesDdpstyrtreev 245
                              N+++isT+++ ++   ++++  a   gi +++ dg  p++  +   +A ++ r++ +p+l+ +   R + Hs sDd   yrt+ e+
  PHY93_04995|PHY93_04995 217 NGFAISTPTDVQYPGGSISKtLANFPGIKIFNCDGCCPIESFATMTEATKFIRKNRKPALVHATVTRPYSHSLSDDHGMYRTKAEL 302
                              ***************999983577789999999************************************************99999 PP

                              HHHHHHH-HHHHHHHHHHHTTSS-HHHHHHHHHHHHHHHHHHHHHHHHS-- CS
                    E1_dh 246 eevrkkkdpiqrlkelLvkkgvvseeelkeiekevrkeveeavkkaeskke 296
                               e  k  d+   + e+L+++ v++e+e +e+ k+++ ev+ a++ka s++ 
  PHY93_04995|PHY93_04995 303 AEEGKR-DVFYSYPEFLIEAKVITEKEREELLKKITTEVKVAMDKAVSTEW 352
                              999887.**************************************988765 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 0.78
                              S-EEEEETTSHHHHH CS
                    E1_dh 187 ipglrVdgnDplavy 201
                              +p+lrV ++D+ + y
  PHY93_04995|PHY93_04995 687 APILRVGAMDVHCAY 701
                              79*********9877 PP

>> Transket_pyr  Transketolase, pyrimidine binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  128.7   0.0   5.2e-41   1.9e-37       5     176 ..     388     575 ..     384     576 .. 0.95

  Alignments for each domain:
  == domain 1  score: 128.7 bits;  conditional E-value: 5.2e-41
                              HHHHHHHHHHHHHCTTTTEEEEESSTH................HHHTTCHCCHHEGGTTEGEEE--S-HHHHHHHHHHHHHHCTTE CS
             Transket_pyr   5 wrkaeaealaellkedpevvligaDva................ggtfsvrkgllhdqgegrvidsgisEqavlgfavGaalagpll 74 
                              ++  ++++l ++ +++p ++++g+Dva                gg+f+ + +++ ++++g+v++s+++E++++g a+G+a++g  +
  PHY93_04995|PHY93_04995 388 MAGSINKVLRTEFAKNPMLRMFGEDVAdffdkerlnnpelkgkGGVFKLTANVQRESKDGQVFNSPLAEANIIGRAIGMAIRG-IK 472
                              6677899****************************************************************************.7* PP

                              EEEEEEEHHHHGGG..HHGGHHHHHCHHHHHT--EEEEESBSGGGSTT.GTTTSBSSHHHHHHTSTTEEEE--SSHHHHHHHHHHH CS
             Transket_pyr  75 viveaqFgdFangA..qiyadqairsgeakgklkvgvvtrlpigvged.GpehqsaeleaflrlipglkvvrPsdpaetkhllrra 157
                              ++ve+qF+d++++A  q+ ++ a  +++++g +k+++v+r pig   + G+  +s++ e+++++ipg++v+ Ps+ a++++llr+a
  PHY93_04995|PHY93_04995 473 PVVEIQFFDYIWTAymQLKNEMATLRYRSGGDFKCPMVVRVPIGGYLKgGAIYHSQSGESLFTHIPGIRVAFPSNSADAAGLLRTA 558
                              *******************************************8766615669********************************* PP

                              HHSSS.SEEEEEE-SSEEC CS
             Transket_pyr 158 irredrkPvvlrlpksllr 176
                              i+  +++Pv+++++k l+ 
  PHY93_04995|PHY93_04995 559 IH--GDDPVMFLEHKHLYY 575
                              **..889*********995 PP

>> Transketolase_C  Transketolase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  110.9   0.2   9.6e-36   3.4e-32       1     124 []     593     716 ..     593     716 .. 0.98

  Alignments for each domain:
  == domain 1  score: 110.9 bits;  conditional E-value: 9.6e-36
                              TEEEEEETTSSEEEEEETTHHHHHHHHHHHHHTT.TTCEEEEE-SEEESHHHHHHHHHHHHHSEEEEEEEEESTTSHHHHHHHHHH CS
          Transketolase_C   1 gkaeilregkdvtlvayGsmveealeAaeeLeke.gisaeVvdlrtvkplDketilesvkktgrlvvveeavkrgGigsevaaala 85 
                              gka+++reg+d t+va+G+ v+ ++eAa++ e+  g ++eV+dlrt+ p D+e i++s+ kt rl++ +e  k+ G++ e++a+++
  PHY93_04995|PHY93_04995 593 GKAKVVREGSDATIVAWGALVQKSIEAAKKCEAAtGKTVEVIDLRTLAPYDFEAIRKSISKTSRLMIAHEEHKTSGFAGEITARVN 678
                              89*****************************9999*************************************************** PP

                              HCCCTTCSSEEEEEEE-SSSSSSGHHHHHHHTT-SHHHH CS
          Transketolase_C  86 eeafdgldapvkrvggpdviepgsaeelekafgldaeki 124
                              ee+f+ ldap++rvg++dv   ++ ++le+++++++ ++
  PHY93_04995|PHY93_04995 679 EECFELLDAPILRVGAMDVHCAYN-PALEDLILPQVSHV 716
                              *******************88888.89********9987 PP

>> DXP_synthase_N  1-deoxy-D-xylulose-5-phosphate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   1.1e-05     0.039     133     188 ..     178     240 ..     139     279 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.1e-05
           DXP_synthase_N 133 kkkvvav.iGDgaltgGmafealnnigelkkkllvilNdNemsisk......nvGalskylsk 188
                              +++++ v  GDg+++ G  +e+l ++  ++  +l ++ dN  +is+      + G++sk+l++
  PHY93_04995|PHY93_04995 178 DDEIIYVsTGDGTMAQGEFWEGLTTACVNSLPVLFMVEDNGFAISTptdvqyPGGSISKTLAN 240
                              456666546***********************************9956555555777777765 PP

>> MecA_N  NTF2-like N-terminal transpeptidase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.5   0.00014      0.49      25      63 ..      22      60 ..      12      66 .. 0.81
   2 ?   -0.2   0.1      0.33   1.2e+03      31      52 ..     322     343 ..     316     359 .. 0.85

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00014
                             B--BSSBSS-HHHHHHHHHHHCCCTT-EEEEEEEEEEEE CS
                   MecA_N 25 lseqskkeisekeavekyqaiydglqvkklkieakkvkk 63
                             l+ ++k ++++ke+ e++++iy++ +v++ +i+ kk  k
  PHY93_04995|PHY93_04995 22 LELAQKYNLGKKELLEMLSNIYTSRKVDDAEISMKKQSK 60
                             45566899************************6555443 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.33
                              BSS-HHHHHHHHHHHCCCTT-E CS
                   MecA_N  31 keisekeavekyqaiydglqvk 52 
                              k i+eke +e +++i++ ++v 
  PHY93_04995|PHY93_04995 322 KVITEKEREELLKKITTEVKVA 343
                              46899**********9999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (724 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       489  (0.0272742); expected 358.6 (0.02)
Passed bias filter:                      434  (0.0242066); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.67u 0.21s 00:00:00.88 Elapsed: 00:00:00.39
# Mc/sec: 5563.27
//
Query:       PHY93_17375|PHY93_17375  [L=275]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (275 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       361  (0.020135); expected 358.6 (0.02)
Passed bias filter:                      238  (0.0132746); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.43
# Mc/sec: 1923.67
//
Query:       PHY93_05000|PHY93_05000  [L=364]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
  ------ inclusion threshold ------
      0.022   13.4   0.4       0.07   11.7   0.2    1.7  1  Toluene_X  Outer membrane protein transport protein (OMPP1/Fa


Domain annotation for each model (and alignments):
>> Toluene_X  Outer membrane protein transport protein (OMPP1/FadL/TodX)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.2   3.9e-06      0.07      15      50 ..      26      62 ..      18      70 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 3.9e-06
                             --SS-HHHHHTTTTTTTTCTT.SCCHHHCTGGGGGG- CS
                Toluene_X 15 lneqsasglgrAyaGeaaaad.dasavvrNPAalall 50
                             ++e  +s+ + A++++  a+  dasav++NPA+l   
  PHY93_05000|PHY93_05000 26 FPELATSARALAMGNAFIAKVdDASAVFYNPAGLGTV 62
                             6788888999999999888766***********9865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (364 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       275  (0.0153383); expected 358.6 (0.02)
Passed bias filter:                      229  (0.0127726); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.41
# Mc/sec: 2638.90
//
Query:       PHY93_05005|PHY93_05005  [L=367]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      4e-28   97.9   0.0    8.8e-28   96.8   0.0    1.5  1  ELFV_dehydrog_N  Glu/Leu/Phe/Val dehydrogenase, dimerisation 
    5.9e-17   62.2   3.1    1.6e-12   47.7   0.3    2.4  3  ELFV_dehydrog    Glutamate/Leucine/Phenylalanine/Valine dehyd
  ------ inclusion threshold ------
       0.02   14.3   0.0      0.038   13.4   0.0    1.4  1  2-Hacid_dh_C     D-isomer specific 2-hydroxyacid dehydrogenas
      0.023   14.8   0.3      0.091   12.8   0.3    2.0  2  AdoHcyase_NAD    S-adenosyl-L-homocysteine hydrolase, NAD bin
      0.044   13.9   0.0        1.1    9.3   0.0    2.5  3  Shikimate_DH     Shikimate / quinate 5-dehydrogenase
       0.11   12.2   0.0        0.2   11.3   0.0    1.5  1  ApbA             Ketopantoate reductase PanE/ApbA


Domain annotation for each model (and alignments):
>> ELFV_dehydrog_N  Glu/Leu/Phe/Val dehydrogenase, dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   96.8   0.0   2.9e-31   8.8e-28      21     129 ..      25     131 ..      14     132 .. 0.96

  Alignments for each domain:
  == domain 1  score: 96.8 bits;  conditional E-value: 2.9e-31
                              EEEEEEEEE-TTSSEEEEEEEETT--HH....HHHHHHHHHHHHHHHTTSS-EEEEEEEES-GGGS-HHHHHHHHHHHHHHHG.GG CS
          ELFV_dehydrog_N  21 ikgyraqhssalgPakGGiRfhpsvnld....evkaLaalmtyKnalvdlpfGGakggvkidpkklseeeleritrrfvrelakkf 102
                              +k+++a+h+++lgPa GG+R++++ ++d    ++ +L++ mtyKna+ +l++GG+k+++ +dp+k ++e+l r ++rfv++l++++
  PHY93_05005|PHY93_05005  25 LKAIIAIHNTTLGPALGGTRMWNYKSIDeaieDALRLSRGMTYKNAISGLNLGGGKAVIMGDPTKDKSEALFRSYGRFVESLNGRY 110
                              799***********************99889899**************************************************** PP

                              -BTTTEEEEBBTTB-HHHHHHHHHHHH CS
          ELFV_dehydrog_N 103 iGpgiDvpApDvgtgaremawladeyk 129
                              i      +A+Dv+t+ ++m++++ e++
  PHY93_05005|PHY93_05005 111 I------TAEDVNTTVDDMEYIFAETS 131
                              8......****************9986 PP

>> ELFV_dehydrog  Glutamate/Leucine/Phenylalanine/Valine dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.0         2   5.9e+03     126     147 ..     111     132 ..     102     134 .. 0.60
   2 !   15.0   0.1   5.2e-06     0.015       1      59 [.     141     200 ..     141     206 .. 0.88
   3 !   47.7   0.3   5.3e-16   1.6e-12      89     240 ..     209     349 ..     201     352 .. 0.78

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 2
                              B-HHHHTHTHHTT-SEEE-SSS CS
            ELFV_dehydrog 126 ideenakalikngvklvvEgAN 147
                              i++e++++ ++    +++E +N
  PHY93_05005|PHY93_05005 111 ITAEDVNTTVDDMEYIFAETSN 132
                              5666666666655555566666 PP

  == domain 2  score: 15.0 bits;  conditional E-value: 5.2e-06
                              T--TTTTTHHHHHHHHHHHHHHHHTTTS.-STTEEEEEE--SHHHHHHHHHHHHCT-EEE CS
            ELFV_dehydrog   1 GGsldrpeaTglGvvyyveemlkklkld.slegkrvaisGsGnvgsyaallltelgakvv 59 
                              GGs      T++Gv+  +e+ + k+ +d sl+gk va +G G vg +  + l + gakv 
  PHY93_05005|PHY93_05005 141 GGSGNPSPWTARGVFRGMEASCLKVFGDrSLKGKVVALQGAGSVGCHLGKYLFDSGAKVF 200
                              788888889******99998777666666***************************9985 PP

  == domain 3  score: 47.7 bits;  conditional E-value: 5.3e-16
                              STTHSHHSTSTSEEESHHSHHHHSS-SEEEE-SSTTSB-HHHHTHTHHTT-SEEE-SSSS-B-HH.HHHHHHHTT-EEE-HHHHTT CS
            ELFV_dehydrog  89 vkeykkssekkaeyieneeellelkvdilvPcAtqneideenakalikngvklvvEgANlpttqe.AkeileeagvlvvpdkaaNa 173
                              v+++k+    +ae+++ + ++ e+k+di  PcA+   ++ + ++ ++k  vk+v+  AN  + ++   ++l+e+g+l++pd + Na
  PHY93_05005|PHY93_05005 209 VARFKEIVP-NAEFVSPN-DIYEMKADIYAPCALGATVNDQTID-RLK--VKIVCGSANNQLAENrHGDMLKEKGILYAPDYLVNA 289
                              555554334.67888875.99***********************.999..********99876651668***************** PP

                              HHHHHHHHHHHHHHCT----HHHHHHHHHHHHHHHHHHHHHHHHHCT-THHHHHHHHHHHHHHHHHH CS
            ELFV_dehydrog 174 GGVtvSslEmlqnlarlswteeevdeklkkimkeifkavveeaeeykqelvkganiagfekvaeamk 240
                              GGV+  s+E         w++e+ ++ + ++  + + ++ +  +e++ ++ k+   ++ +++a+ ++
  PHY93_05005|PHY93_05005 290 GGVMNVSIEFEG------WSAEKATK-MVDKIYDTTLEIFKLSDEQNIPVYKATDLMAEQRIASIKN 349
                              ***999999876......77777655.4445556666777777887888877777777777776655 PP

>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   1.3e-05     0.038      31      88 ..     168     227 ..     153     248 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 1.3e-05
                              BS-GTTSEEEEES-SHHHHHHHHHHHHTT-EEEEESSSHHHHH..CHHHHTCEECSHHHH CS
             2-Hacid_dh_C  31 gkelsgktvGiiGlGrIGqavakrlkafgmkviaydrskkkee..eeeelgvelvsleel 88 
                               ++l+gk v++ G+G++G ++ k+l   g+kv+++d +  + +  +e   ++e+vs +++
  PHY93_05005|PHY93_05005 168 DRSLKGKVVALQGAGSVGCHLGKYLFDSGAKVFVTDINAANVArfKEIVPNAEFVSPNDI 227
                              5789*********************************98866634444444455555555 PP

>> AdoHcyase_NAD  S-adenosyl-L-homocysteine hydrolase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.7   0.0       3.7   1.1e+04      45      64 ..      10      29 ..       6      33 .. 0.75
   2 ?   12.8   0.3   3.1e-05     0.091      17      58 ..     167     208 ..     159     260 .. 0.84

  Alignments for each domain:
  == domain 1  score: -3.7 bits;  conditional E-value: 3.7
                             CT-EEEEE-S-HHHHHHHHC CS
            AdoHcyase_NAD 45 lGarvivtevdPicalqaam 64
                             +G   +v   dP c l+a++
  PHY93_05005|PHY93_05005 10 MGHEEVVFFCDPSCNLKAII 29
                             66667777889999999875 PP

  == domain 2  score: 12.8 bits;  conditional E-value: 3.1e-05
                              H-S--TTSEEEEE--SHHHHHHHHHHHHCT-EEEEE-S-HHH CS
            AdoHcyase_NAD  17 tdvllaGkvavvaGyGdvGkGcaaslkglGarvivtevdPic 58 
                               d  l Gkv+ + G G vG    + l   Ga+v vt+++  +
  PHY93_05005|PHY93_05005 167 GDRSLKGKVVALQGAGSVGCHLGKYLFDSGAKVFVTDINAAN 208
                              677899*******************************98765 PP

>> Shikimate_DH  Shikimate / quinate 5-dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.0      0.11   3.3e+02      21      85 ..      64     132 ..      56     139 .. 0.75
   2 ?    9.3   0.0   0.00036       1.1       9      57 ..     170     217 ..     162     237 .. 0.78
   3 ?   -3.2   0.0       2.8   8.3e+03      46      68 ..     304     326 ..     301     330 .. 0.79

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.11
                              SHHHHHHHHHHHCCT-CEEEEEESSHHHHHHHHHHH....T.ET-EEEEGCGHHHHHHT-SEEEE-SSS CS
             Shikimate_DH  21 GemaelvakhLlakgvkkvvvaNRtlerakelaeel....kgeeiealkleelkellaeadvvisatas 85 
                              G++ + +++ L   g k+v+    t ++ ++l +++    ++ + ++++ e++++ +++++ +++ t+ 
  PHY93_05005|PHY93_05005  64 GMTYKNAISGLNLGGGKAVIMGDPTKDKSEALFRSYgrfvESLNGRYITAEDVNTTVDDMEYIFAETSN 132
                              777777888888888888888888888888888777221223455799999999999999999998876 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.00036
                              ..TT-EEEEES-SHHHHHHHHHHHCCT-CEEEEEESSHHHHHHHHHHHT CS
             Shikimate_DH   9 slkekkvlliGaGemaelvakhLlakgvkkvvvaNRtlerakelaeelk 57 
                              slk+k v l GaG ++  + k+L ++g+k v+v+  + ++++++ e + 
  PHY93_05005|PHY93_05005 170 SLKGKVVALQGAGSVGCHLGKYLFDSGAK-VFVTDINAANVARFKEIVP 217
                              799999**********************9.9999888888777766553 PP

  == domain 3  score: -3.2 bits;  conditional E-value: 2.8
                              HHHHHHHHHHHT.ET-EEEEGCG CS
             Shikimate_DH  46 lerakelaeelkgeeiealklee 68 
                               e+a ++++++ ++ +e+ kl++
  PHY93_05005|PHY93_05005 304 AEKATKMVDKIYDTTLEIFKLSD 326
                              68999999999888888888776 PP

>> ApbA  Ketopantoate reductase PanE/ApbA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   6.7e-05       0.2       2      39 ..     177     215 ..     176     259 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 6.7e-05
                              EEES-SHHHHHHHHHHHHHTHCEEEE-SCH.HHHHHHHH CS
                     ApbA   2 ailGaGaiGsllaakLakagadvtlilrsr.rlealkkn 39 
                              a  GaG++G+ l+ +L   ga+v + + ++  ++++k+ 
  PHY93_05005|PHY93_05005 177 ALQGAGSVGCHLGKYLFDSGAKVFVTDINAaNVARFKEI 215
                              678*******************99888888778888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (367 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       456  (0.0254337); expected 358.6 (0.02)
Passed bias filter:                      428  (0.0238719); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.54u 0.24s 00:00:00.78 Elapsed: 00:00:00.41
# Mc/sec: 2708.18
//
Query:       PHY93_05010|PHY93_05010  [L=108]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      1e-10   41.4   0.6    1.8e-10   40.6   0.6    1.3  1  Fer2      2Fe-2S iron-sulfur cluster binding domain


Domain annotation for each model (and alignments):
>> Fer2  2Fe-2S iron-sulfur cluster binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.6   0.6   9.8e-15   1.8e-10       4      77 ..      12     100 ..      10     101 .. 0.84

  Alignments for each domain:
  == domain 1  score: 40.6 bits;  conditional E-value: 9.8e-15
                              TTEEEEEEEETTTHBHHHHHHHTTTTTSTTSSSSSSSSTTEEEEEESCE.CTTSSSSTHHHHHTTEE................EEG CS
                     Fer2   4 dgkevevevadgettlldaaeenggidipysCggggCgtClvevlegev.qsdetelegeeldegkl................rla 72 
                              +  e+++ev++g+  + d +e++ g+ +p++C +g+Cg+C++e+leg    s   ++e +  d+ k                 rl+
  PHY93_05010|PHY93_05010  12 NENEQKFEVEQGQI-IFDELERQ-GLVLPHGCLAGSCGSCRIEILEGAEkLSPLGAVEADTIDSIKKtycetdraelvinkniRLS 95 
                              56788999988887.99999999.***********************9965556666666666655578899999999******** PP

                              GGSEE CS
                     Fer2  73 Cqtiv 77 
                              C+++v
  PHY93_05010|PHY93_05010  96 CRAKV 100
                              *9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (108 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       365  (0.0203581); expected 358.6 (0.02)
Passed bias filter:                      283  (0.0157845); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.38
# Mc/sec: 849.05
//
Query:       PHY93_05015|PHY93_05015  [L=92]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0002   22.1   1.2    0.00025   21.8   1.2    1.1  1  Ribosomal_S30AE  Sigma 54 modulation protein / S30EA ribosoma
  ------ inclusion threshold ------
       0.02   15.1   0.4      0.035   14.3   0.4    1.4  1  CsgE             Curli assembly protein CsgE


Domain annotation for each model (and alignments):
>> Ribosomal_S30AE  Sigma 54 modulation protein / S30EA ribosomal protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.8   1.2   2.8e-08   0.00025      14      82 ..       6      80 ..       2      83 .. 0.77

  Alignments for each domain:
  == domain 1  score: 21.8 bits;  conditional E-value: 2.8e-08
                             HHHHHHHHHCCGGGG..-EEEEEEE.EE.....EEEEEEEEECTTEEEEEEEEESSHHHHHHHHHHHHHHHHHHCH CS
          Ribosomal_S30AE 14 lkeyvekkleklekyf.ieadVtls.kk.....kkvevtirlakgkviraeeesedlyaaidlavdklerqlrkyk 82
                              +e v++ ++ ++k++  + +V+++ k+     +   ++++ +k+++ +a++e+  ly+++ +a+ +++ q++k++
  PHY93_05015|PHY93_05015  6 TQEMVQEAVSEIQKIApKHSHVEIDvKEdpigtFSTYIRLD-TKQRTYFAKKEDMFLYKSFSKALRAIKAQIQKRR 80
                             67889999999998866444444444123565677888885.46999***9999*******************986 PP

>> CsgE  Curli assembly protein CsgE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.4   3.9e-06     0.035      20      96 ..      12      86 ..       3      90 .. 0.83

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 3.9e-06
                     CsgE 20 eFssywrdl.psteefnltikErptaraGslitvevnqkkiyrtflspaarqlkeeaeqAvaiveealaqqklqalla 96
                             e +s ++++ p+ +++ + +kE p   ++++i +  +q + ++   +++   l ++  +A+++++ +++++++++ + 
  PHY93_05015|PHY93_05015 12 EAVSEIQKIaPKHSHVEIDVKEDPIGTFSTYIRLDTKQRTYFA---KKEDMFLYKSFSKALRAIKAQIQKRRINHETV 86
                             5567788888999************************987766...45677788899999999999999999987765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (92 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1030  (0.0574488); expected 358.6 (0.02)
Passed bias filter:                      443  (0.0247086); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 688.97
//
Query:       PHY93_05020|PHY93_05020  [L=326]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.1e-24   86.3   0.1    2.5e-24   86.1   0.1    1.1  1  Pyr_redox_2    Pyridine nucleotide-disulphide oxidoreductase
    9.5e-06   24.9   0.0    0.00016   20.9   0.0    2.4  3  FAD_binding_2  FAD binding domain
    3.6e-05   23.2   5.0      0.001   18.4   0.3    3.0  2  Pyr_redox_3    Pyridine nucleotide-disulphide oxidoreductase
    6.5e-05   21.8   0.0     0.0013   17.5   0.0    2.2  2  HI0933_like    HI0933-like protein
     0.0049   16.0   0.0      0.058   12.5   0.0    2.3  2  GIDA           Glucose inhibited division protein A
     0.0053   16.1   0.2       0.01   15.2   0.2    1.5  1  FAD_oxidored   FAD dependent oxidoreductase
  ------ inclusion threshold ------
      0.014   15.4   0.0        3.6    7.6   0.0    2.8  3  NAD_binding_9  FAD-NAD(P)-binding
      0.077   12.6   0.4        3.9    7.0   0.3    2.5  3  DAO            FAD dependent oxidoreductase


Domain annotation for each model (and alignments):
>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.1   0.1   1.1e-27   2.5e-24       1     290 [.       4     305 ..       4     309 .. 0.84

  Alignments for each domain:
  == domain 1  score: 86.1 bits;  conditional E-value: 1.1e-27
                              CSEEEE--SHHHHHHHHHHHHHTS-EEEEETTHCHHHCSHHHHCHHHHHHHHHHHHH................HHHHCHHHHCCCC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx................xxxxxxxxxxxxx RF
              Pyr_redox_2   1 kdvvviGgGpAGlaaaltlaqagakvtlvelegtclnggcllskallgvaedaeias................evvkklnqgiell 70 
                              +dv+viGgG AG+ aa++   ++ + +l+   gt ln + + + ++ +v+  +  +s                     +++++ + 
  PHY93_05020|PHY93_05020   4 YDVAVIGGGSAGVMAAIRTVLNNDECLLF--PGTPLNKKRSRAFWVSAVENMPAHLSykkgieepnkisldwlA-QGPFSSKFNWQ 86 
                              69***************************..7777777777766666666666666677788888888898862.35677778888 PP

                              HCCTCEEEEESC.EEEEETEEECTCEEEEEESEEEE---EEE-BCTCTTC......TTBEECCSECHHHHHHCCSS-TSEEEEES- CS
                              xxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2  71 lgeevvkidpgk.kkvklekkkegdeekiaydklvlAtGssprdlgipGv.....aenvgklvrtldsaealklkllpkrivvvGg 150
                              +++ ++ki +++ + ++l   ++++e+++++ +++l+tG     ++i G      +  +++lv+++  +++   + l k++++ G 
  PHY93_05020|PHY93_05020  87 KNRGIIKISKAAdGIFTL---VDDKEFQYKARYVILCTGVMDVQPHINGSinpifQYANIQLVDYCLRCDGH--HVLGKKVAILGH 167
                              887799998877677777...77999************************9988877888888888888875..566688*****8 PP

                              SHHHHHHHHHHHHHT-EEEEEESSSSSSTTS-HHHHHHHHHHHHHTTEEEEESCEEEEEEETTE..EEEEEETTSCEEEESEEEE- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxx RF
              Pyr_redox_2 151 GyiGvElAaalaklgkevtlveardrllraldkelsaaleealekeGvevklgtsvkeidgnge..klevvledgeeidadlvvva 234
                                 +  + ++l++  ++v+l+  ++   ++ + ++ +++++ +++ G +++  ++++ i+g+ +  kle   +++++i ad+ +v+
  PHY93_05020|PHY93_05020 168 TTGAAWVGIMLHER-YDVPLMTVLT---NGEEAQFDQEATDLMNRYGFKIV-TEKIEGIIGDAKnkKLESFKTTNHTIYADYAFVG 248
                              88888888888888.8899877754...556889999999999999****9.78899*******8888899999999********* PP

                              S-EEES-HHCSHCCT-EEEETTEEE--TTSBESSTTEEE-GGGC..TECCSS--HHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxx RF
              Pyr_redox_2 235 vGvrpstelleeklglelderggivvdeflrtnvpgiyaiGDva..ggkggpelaqaA 290
                               G+   +el+ + l  ++d+rg++ +d +++t+v+g+y++GD     +k+++  + +A
  PHY93_05020|PHY93_05020 249 LGMIVYNELA-KMLEANIDQRGFVITDAKGKTSVDGLYVAGDLRanVKKQIYTAWDTA 305
                              **********.99999***************************955555555555555 PP

>> FAD_binding_2  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.9   0.0   7.1e-08   0.00016       1      78 [.       5      82 ..       5     101 .. 0.86
   2 ?   -1.4   0.0      0.43   9.7e+02     184     204 ..     106     126 ..      88     232 .. 0.75
   3 ?    0.9   0.0     0.085   1.9e+02     376     402 ..     271     291 ..     258     299 .. 0.80

  Alignments for each domain:
  == domain 1  score: 20.9 bits;  conditional E-value: 7.1e-08
                             SEEEE--SHHHHHHHHHHHHTTT-EEEEESSS..GGGSGGGG--S-EE-TT..SSGGSTC.CHHHHHHHHHHHHTTT-S- CS
            FAD_binding_2  1 DviViGsGlAGLaAAleaaeaGlkvavvekeq..efggatawsqGgidavlspeqkkagikdspelhrtdtlkaldelad 78
                             Dv ViG+G AG +AA++   ++ ++++   ++  ++++ ++w ++  ++++ + + k+gi + p +   d+l++++  ++
  PHY93_05020|PHY93_05020  5 DVAVIGGGSAGVMAAIRTVLNNDECLLFPGTPlnKKRSRAFWVSAVENMPA-HLSYKKGI-EEPNKISLDWLAQGPFSSK 82
                             9**************************97775227889*************.88889999.66*********99966544 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.43
                              TTCEEEEEESEEEE-----GG CS
            FAD_binding_2 184 sgrevrirakavvlatgGfgr 204
                              + +e++++a+ v+l tg +  
  PHY93_05020|PHY93_05020 106 DDKEFQYKARYVILCTGVMDV 126
                              667888888888888886664 PP

  == domain 3  score: 0.9 bits;  conditional E-value: 0.085
                              EEBETTSBESTTEEESSBTEEE-STCE CS
            FAD_binding_2 376 vetdengrvldadgqpipGLYAaGeva 402
                              v td++g++       ++GLY aG   
  PHY93_05020|PHY93_05020 271 VITDAKGKT------SVDGLYVAGDLR 291
                              557777777......*********876 PP

>> Pyr_redox_3  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.2   0.7    0.0094        21     168     186 ..       7      25 ..       2      62 .. 0.68
   2 !   18.4   0.3   4.7e-07     0.001      95     305 .]      82     288 ..      64     288 .. 0.63

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.0094
              Pyr_redox_3 168 vViGgknSavDaAlelvrk 186
                              +ViGg+  +v aA+ +v +
  PHY93_05020|PHY93_05020   7 AVIGGGSAGVMAAIRTVLN 25 
                              5555555555555555544 PP

  == domain 2  score: 18.4 bits;  conditional E-value: 4.7e-07
              Pyr_redox_3  95 elpiklfeeVesvkk.edegfevetske.tyeAkkviiAtGefdk.Pnkln.....ipGeeklvkhyskvk.efhkyagqkvvViG 171
                              + + +++  + +++k +d+ f++  +ke +y+A++vi+ tG +d  P+ ++     ++ ++  + + +  + + h++ g+kv++ G
  PHY93_05020|PHY93_05020  82 KFNWQKNRGIIKISKaADGIFTLVDDKEfQYKARYVILCTGVMDVqPHINGsinpiFQYAN-IQLVDYCLRcDGHHVLGKKVAILG 166
                              566688888999***55677**9999999**************962443222211133333.333333333488999999999999 PP

              Pyr_redox_3 172 gknSavDaAlelvrk..gaeVtvvtrgseiekeesdpsyslkpdienrleelvkeekikvlfnaevkeikekeeeykvktedgkkv 255
                                  a+ + + l ++      tv+t+g+e + +             ++  +l+++  +k++++ +++ i  + ++ k+++ +++++
  PHY93_05020|PHY93_05020 167 HTTGAAWVGIMLHERydVPLMTVLTNGEEAQFD-------------QEATDLMNRYGFKIVTE-KIEGIIGDAKNKKLESFKTTNH 238
                              999999999988887222334555555543333.............33333333323555544.5555554455555554444556 PP

              Pyr_redox_3 256 evkddvvla.tGykpdlsflkkslfeldedgrpvlteeteetnvpglflaG 305
                              +++ d+ ++ +G     ++ k +l ++ +++  v+t+++  t v+gl++aG
  PHY93_05020|PHY93_05020 239 TIYADYAFVgLGMIVYNELAK-MLEANIDQRGFVITDAKGKTSVDGLYVAG 288
                              666665555577766655555.44444456667788888889999999998 PP

>> HI0933_like  HI0933-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.0   5.9e-07    0.0013       1      29 [.       4      32 ..       4      41 .. 0.87
   2 ?    2.0   0.0      0.03        68     124     164 ..      83     123 ..      71     141 .. 0.87

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 5.9e-07
                             -SEEEE--SHHHHHHHHHHHHTT--EEEE CS
              HI0933_like  1 kdviviGgGaAGlmaAisaakrgkrVlll 29
                             +dv+viGgG AG+maAi+   ++ + ll+
  PHY93_05020|PHY93_05020  4 YDVAVIGGGSAGVMAAIRTVLNNDECLLF 32
                             59***************998888887776 PP

  == domain 2  score: 2.0 bits;  conditional E-value: 0.03
                              -EEE-S--EEEEECETTE.EEEEE.TTEEEEESEEEE---- CS
              HI0933_like 124 vklrletevksvekeedgkfrvktkseeeleadklvlAtGG 164
                               +++ ++ + +++k +dg+f++  ++e +++a++++l tG 
  PHY93_05020|PHY93_05020  83 FNWQKNRGIIKISKAADGIFTLVDDKEFQYKARYVILCTGV 123
                              66788899999**********9999999***********96 PP

>> GIDA  Glucose inhibited division protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.5   0.0   2.6e-05     0.058       1      28 [.       5      32 ..       5      64 .. 0.82
   2 ?    0.9   0.0     0.083   1.9e+02     126     159 ..      99     131 ..      85     154 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 2.6e-05
                             CEEEE-SSHHHHHHHHHHHHTT--EEEE CS
                     GIDA  1 dviViGgGhAGceAAlaaarlGakvlLi 28
                             dv ViGgG AG+ AA+ +   + + lL+
  PHY93_05020|PHY93_05020  5 DVAVIGGGSAGVMAAIRTVLNNDECLLF 32
                             79**************987766666666 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.083
                              TEEEEEEETTS-EEEECEEEE--TT-BT-EEEET CS
                     GIDA 126 kkvkgvvtedgetikakavviatGtflkgkihig 159
                              + +  +v +++ ++ka+ v++ tG  ++ ++hi 
  PHY93_05020|PHY93_05020  99 DGIFTLVDDKEFQYKARYVILCTGV-MDVQPHIN 131
                              44555677888899999*******9.88888885 PP

>> FAD_oxidored  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.2   4.6e-06      0.01       1      24 [.       5      28 ..       5      36 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 4.6e-06
             FAD_oxidored  1 DvvVvGGgpaGvaAAiaAaraGak 24
                             Dv V+GGg+aGv+AAi    +  +
  PHY93_05020|PHY93_05020  5 DVAVIGGGSAGVMAAIRTVLNNDE 28
                             9***************87666555 PP

>> NAD_binding_9  FAD-NAD(P)-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.2     0.014        32       1      19 [.       7      25 ..       7      31 .. 0.86
   2 ?    7.6   0.0    0.0016       3.6     123     154 ..      90     122 ..      71     124 .. 0.81
   3 ?   -1.8   0.0       1.2   2.7e+03     104     154 ..     198     250 ..     195     251 .. 0.69

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.014
            NAD_binding_9  1 aivGaGprGlavlerLlar 19
                             a++G+G +G++++ r + +
  PHY93_05020|PHY93_05020  7 AVIGGGSAGVMAAIRTVLN 25
                             89***********997655 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0016
            NAD_binding_9 123 evvdleeradgq.avlladgaslaadaVvLAlG 154
                               +++++++adg  +++ +++ +++a++V+L++G
  PHY93_05020|PHY93_05020  90 GIIKISKAADGIfTLVDDKEFQYKARYVILCTG 122
                              588999*****74677777789**********9 PP

  == domain 3  score: -1.8 bits;  conditional E-value: 1.2
            NAD_binding_9 104 feellarlpegvtvevhraevvdleeradgqavll..adgaslaadaVvLAlG 154
                              f++ + +l ++  +++++++++ +  +a++ ++    ++++++ ad+ ++ lG
  PHY93_05020|PHY93_05020 198 FDQEATDLMNRYGFKIVTEKIEGIIGDAKNKKLESfkTTNHTIYADYAFVGLG 250
                              55555566667778888888888887777765444337888899999888887 PP

>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.0   0.3    0.0017       3.9       1      16 [.       5      20 ..       5      31 .. 0.92
   2 ?    3.0   0.0     0.028        62     171     203 ..      93     124 ..      71     158 .. 0.72
   3 ?   -2.4   0.0       1.2   2.7e+03     154     202 ..     204     251 ..     195     295 .. 0.59

  Alignments for each domain:
  == domain 1  score: 7.0 bits;  conditional E-value: 0.0017
                             EEEEECTSHHHHHHHH CS
                      DAO  1 dvviiGGGiiGlstAy 16
                             dv++iGGG +G+ +A 
  PHY93_05020|PHY93_05020  5 DVAVIGGGSAGVMAAI 20
                             8************997 PP

  == domain 2  score: 3.0 bits;  conditional E-value: 0.028
                              EEEEEETCEEEEEEECTEEEEEEEEEEE--GGG CS
                      DAO 171 gleeedgkvwgverttpgendaadavVnaaGaw 203
                              ++++  +++ ++ ++ ++ + +a++v++++G+ 
  PHY93_05020|PHY93_05020  93 KISKAADGIFTL-VDDKEFQYKARYVILCTGVM 124
                              443333344444.333366656799******86 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 1.2
                              HHHHHTT-EEEESECEEEEEEEETCEEEEE..EECT.EEEEEEEEEEE--GG CS
                      DAO 154 raaealGveilegtevtgleeedgkvwgve..rttp.gendaadavVnaaGa 202
                              + + + G +i+++ +++g+   d k +++e  +tt+  +   ad+  +  G 
  PHY93_05020|PHY93_05020 204 DLMNRYGFKIVTE-KIEGII-GDAKNKKLEsfKTTNhTI--YADYAFVGLGM 251
                              5566677777777.777762.222333444445554232..23555554444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (326 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       652  (0.0363657); expected 358.6 (0.02)
Passed bias filter:                      559  (0.0311785); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.58u 0.25s 00:00:00.83 Elapsed: 00:00:00.44
# Mc/sec: 2243.87
//
Query:       PHY93_05025|PHY93_05025  [L=424]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    4.5e-34  117.7   0.7    6.5e-34  117.2   0.7    1.2  1  DUF21      Cyclin M transmembrane N-terminal domain
    1.9e-13   50.2   1.1    6.3e-13   48.6   0.1    2.3  2  CorC_HlyC  Transporter associated domain
    1.3e-12   47.9   0.8    1.4e-08   35.0   0.1    3.1  3  CBS        CBS domain


Domain annotation for each model (and alignments):
>> DUF21  Cyclin M transmembrane N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  117.2   0.7   1.1e-37   6.5e-34      21     175 ..       2     157 ..       1     158 [. 0.96

  Alignments for each domain:
  == domain 1  score: 117.2 bits;  conditional E-value: 1.1e-37
                    DUF21  21 vslsrlrleelaekgkkkakrllkllknperlLstlligntlvnillsalatalfvellaegalavviatvivtllilvfgEilPk 106
                              +s+   r ++l e+g +k k++  ++ +p++lLst+l+gn+++nil++al+t+l + +   g+  v +a+ ++t++i++fgEilPk
  PHY93_05025|PHY93_05025   2 LSIGADRARQLIEEGGPKGKAMAFMILRPSELLSTILVGNSIANILAGALTTSLTAAYT--GSNIVGLALGATTVIIIIFGEILPK 85 
                              68888999**********************************************99999..6789********************* PP

                    DUF21 107 slalkyaekialalapplrvlmvllyPlvwllskllnlil...esesepavseeelkklveeseeegvieee 175
                              ++++++aek++ + ++ l++l +llyP+++ + +++n il    + s+  v++++++ +++ +e+e +++++
  PHY93_05025|PHY93_05025  86 TVGRNHAEKFSVIAIRTLQILFYLLYPAIKSIVWFINTILgdnAEVSGRMVTKDDIEFMISKAEKEKTMDSK 157
                              ******************************************9999********************999865 PP

>> CorC_HlyC  Transporter associated domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.1      0.28   1.7e+03      34      56 ..     284     304 ..     271     311 .. 0.75
   2 !   48.6   0.1     1e-16   6.3e-13       6      78 ..     317     389 ..     312     392 .. 0.89

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 0.28
                              BHHHHHHHHH-S---TT-EEEEE CS
                CorC_HlyC  34 TlgGlllellgriPkegesvevd 56 
                              Tl + + e +g+i +e++  +v+
  PHY93_05025|PHY93_05025 284 TLEDIIEEIFGEINDEHD--DVE 304
                              777778888999999888..554 PP

  == domain 2  score: 48.6 bits;  conditional E-value: 1e-16
                              TEEEEETT-BHHHHHHHHTSTTHH.CT-SBHHHHHHHHH-S.---TT-EEEEEETTEEEEEEEEETTCEEEEEEE CS
                CorC_HlyC   6 gsylvdGslpldeleeelglelpe.edyeTlgGlllellgr.iPkegesvevdleglrftVlemdgrrIkkvrve 78 
                              + ++vdG+++l+el + +++++p  ++y Tl+G+ll+ lg+ +P++++ ++ +  gl+f  + ++++ +k+vr++
  PHY93_05025|PHY93_05025 317 DGIVVDGDISLRELHSDYDIKIPLnDNYSTLSGFLLDMLGNtFPEQDQMIVWE--GLSFDLEVVEDHVVKQVRIK 389
                              5689********************888************97468888844555..*******************8 PP

>> CBS  CBS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.9   0.0   0.00017         1       1      53 [.     173     228 ..     173     232 .. 0.74
   2 !   35.0   0.1   2.4e-12   1.4e-08       7      55 ..     244     292 ..     239     294 .. 0.91
   3 ?   -1.2   0.1      0.47   2.8e+03      14      39 ..     299     324 ..     298     330 .. 0.74

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00017
                              HHHHSBS..SCEEEETTSBHHHHHHHHHHHTSSEEEEE..ETTT.BEEEEEEHHHHHH CS
                      CBS   1 Vgdimtr..dvvtvppdttleealelmrekgvsrlPVV..dedg.klvGivtlrDllr 53 
                              V+dim +  +v ++   ++  e +   re+g sr+PV   d    ++vG ++ +Dl+ 
  PHY93_05025|PHY93_05025 173 VKDIMISrmRVNYIQAKWSFLEMMAYARETGNSRYPVCngD--LeNIVGFLHIKDLAF 228
                              677766633444888888888888888888878****9533..336*********986 PP

  == domain 2  score: 35.0 bits;  conditional E-value: 2.4e-12
                              SSCEEEETTSBHHHHHHHHHHHTSSEEEEE.ETTTBEEEEEEHHHHHHHH CS
                      CBS   7 rdvvtvppdttleealelmrekgvsrlPVV.dedgklvGivtlrDllral 55 
                              +++++v++ + +  +++ m +k+v +l  V de+g +vGivtl+D+++ +
  PHY93_05025|PHY93_05025 244 KPPFFVYEHMKIQSVFDHMNRKKV-HLALVkDENGTVVGIVTLEDIIEEI 292
                              7889***************9999*.888888****************987 PP

  == domain 3  score: -1.2 bits;  conditional E-value: 0.47
                              TTSBHHHHHHHHHHHT.SSEEEEEETT CS
                      CBS  14 pdttleealelmrekg.vsrlPVVded 39 
                              + +++ee  + ++e++  +++ VVd+d
  PHY93_05025|PHY93_05025 299 EHDDVEENEKHLEEANlQDGI-VVDGD 324
                              567777777888777777888.88654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (424 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       984  (0.0548832); expected 358.6 (0.02)
Passed bias filter:                      579  (0.032294); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.61u 0.23s 00:00:00.84 Elapsed: 00:00:00.43
# Mc/sec: 2989.89
//
Query:       PHY93_05030|PHY93_05030  [L=68]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
        0.1   12.6   0.0       0.11   12.5   0.0    1.1  1  Toxin_ToxA  Proteinaceous host-selective toxin ToxA


Domain annotation for each model (and alignments):
>> Toxin_ToxA  Proteinaceous host-selective toxin ToxA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   6.1e-06      0.11      36      70 ..      29      63 ..      11      67 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 6.1e-06
               Toxin_ToxA 36 gswelnnlvrvglsrvvdnslrvditntgranrli 70
                             ++ e n +v+ +++r++++s +++i+n g+ nr +
  PHY93_05030|PHY93_05030 29 SAAEKNAVVTKQMKRKKSSSETFEIDNGGSMNRSL 63
                             467899**************************965 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (68 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       642  (0.0358079); expected 358.6 (0.02)
Passed bias filter:                      316  (0.0176251); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.38u 0.23s 00:00:00.61 Elapsed: 00:00:00.39
# Mc/sec: 517.67
//
Query:       PHY93_05035|PHY93_05035  [L=466]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      1e-15   58.5   2.7    3.8e-14   53.3   2.7    2.2  1  Peptidase_C1    Papain family cysteine protease
    0.00092   18.1   0.0          1    8.1   0.0    2.2  2  Peptidase_C1_2  Peptidase C1-like family
  ------ inclusion threshold ------
       0.14   12.2   0.0       0.31   11.0   0.0    1.5  1  DUF3564         Protein of unknown function (DUF3564)


Domain annotation for each model (and alignments):
>> Peptidase_C1  Papain family cysteine protease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.3   2.7   6.4e-18   3.8e-14       2     200 ..      58     285 ..      57     300 .. 0.74

  Alignments for each domain:
  == domain 1  score: 53.3 bits;  conditional E-value: 6.4e-18
                              TSCEETTTTTTGSG---B-TSSBTHHHHHHHHHHHHHHHHHHSSS---B-HHHHHHHST..TTSTGGGBB-HHHHHHHHHH..TEB CS
             Peptidase_C1   2 pesvDwrekggavtpvkdqgsCGsCWafsavgaledrlaiktkkklvslSeqelvdCsk..eenegCnGGlmenafeyikk..ggi 83 
                              p+ +D ++   ++t+vkdq + G C  fs+++ +e++++ k  k +v+lSe+ + +  k    +   +G ++en ++y+ k   g+
  PHY93_05035|PHY93_05035  58 PRVLDLKD---NMTSVKDQDERGTCSFFSSIALVEAAIKKKM-KVEVNLSEEYMNNAVKsgGISAHDEGSYPENNLNYVSKkkAGF 139
                              66677777...48****************************9.69*******9999988433344789***********99889** PP

                              EBTTTS--S....SSCS.............SS-CGCGGGSE.......EBEESEEEEEESSBHHHHHHHHHH.HSSEEEEEECCSH CS
             Peptidase_C1  84 vtekdypYk....akeg.............gkCkkkkkkek.......vakikgygkvkenseealkkalak.ngPvsvaidasee 144
                                e d pY+    ++++             +kC ++++  +       ++   ++  +k+++ +++ + la+ + P+++++ ++++
  PHY93_05035|PHY93_05035 140 LLERDWPYQpswfGQKTpcaentaadkkasEKCFAHNSPPEsvlakkiATDNFDFLYLKADTTNEIIEVLAEyKLPMTMTVPVNDR 225
                              *********99984443455555666667756655533333344332222223344455557888888888746799999999998 PP

                              HHHTEESSEESST...SCET...SS-EEEEEEEEEEEETTEEEEEEE-SBTTTSTBTTEEEE CS
             Peptidase_C1 145 dfqlYksGvyket...ecsk...telnhavlivGygvengkkyWivkNsWgtdwgekGYiri 200
                               + +  +  ++e+   ec k       h+++i Gy+ +  kk + +kNsW++ wg++GY  i
  PHY93_05035|PHY93_05035 226 GWPNDGNVQFDEEmraECIKtpsICGFHSIVITGYDLD--KKIFFFKNSWSKAWGQQGYGTI 285
                              655555545555455555554434568********999..78999**************876 PP

>> Peptidase_C1_2  Peptidase C1-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.1   0.0   0.00017         1      35      97 ..      47     108 ..      26     112 .. 0.84
   2 !    7.8   0.0    0.0002       1.2     348     406 ..     240     294 ..     230     321 .. 0.74

  Alignments for each domain:
  == domain 1  score: 8.1 bits;  conditional E-value: 0.00017
                              HHB-HHHHHH-----SEE-SS-S--B--BSSTHHHHHHHHHHHHHHHHHCT-SS--B-HHHHH CS
           Peptidase_C1_2  35 allnkkvkkelervFstevetdevtnqkqsGRCWlFaalnvlRlkllkklklkefelsqaylf 97 
                              ++ln  + k+l rv + + +  +v +q + G C +F+++  +  +++kk+k++ ++ls  y++
  PHY93_05035|PHY93_05035  47 STLNLDLLKTLPRVLDLKDNMTSVKDQDERGTCSFFSSIALVEAAIKKKMKVE-VNLSEEYMN 108
                              55666777777888888888889****************************95.899999975 PP

  == domain 2  score: 7.8 bits;  conditional E-value: 0.0002
                              HHHHHHTTS----EEEEEEEEEE-TTSSEEEEEEE-SBTTTSTBTTEEEEEHHHHHHHE CS
           Peptidase_C1_2 348 kAerldygeslmtHamvltgvdvdddgkvtkwkvEnsWGedsGekGyfvmsdewfdeyv 406
                              +Ae +++ +    H +v+tg d+d  +k+  +   nsW +  G++Gy ++  + +d +v
  PHY93_05035|PHY93_05035 240 RAECIKTPSICGFHSIVITGYDLD--KKI--FFFKNSWSKAWGQQGYGTIPFDVVDRHV 294
                              6777777777778**********4..344..4456************877666666655 PP

>> DUF3564  Protein of unknown function (DUF3564)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   5.2e-05      0.31      11      40 ..     389     420 ..     378     429 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 5.2e-05
                  DUF3564  11 dsteeaayAvlWlDtder..rWsreghegidl 40 
                              d++  +++ +lW Dt+++   Wsre+ e+i +
  PHY93_05035|PHY93_05035 389 DRKVVSKFHILWQDTEANnlVWSREAPEVITI 420
                              4556678********876336*****999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (466 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       504  (0.0281109); expected 358.6 (0.02)
Passed bias filter:                      370  (0.020637); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.43
# Mc/sec: 3269.93
//
Query:       PHY93_05040|PHY93_05040  [L=157]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0011   18.1   6.0       0.16   11.0   1.5    2.1  2  Tmemb_55A        Transmembrane protein 55A
     0.0059   16.6   2.9     0.0066   16.5   0.3    2.4  2  zf-Sec23_Sec24   Sec23/Sec24 zinc finger
  ------ inclusion threshold ------
      0.015   15.5   0.2      0.023   14.9   0.2    1.2  1  DUF3784          Domain of unknown function (DUF3784)
       0.03   14.6   0.8      0.055   13.8   0.8    1.4  1  2TM              2TM domain
      0.042   13.8   5.0        1.1    9.3   1.0    2.8  3  Zn_Tnp_IS1595    Transposase zinc-ribbon domain
      0.049   13.8   9.8       0.28   11.3   1.9    3.1  3  Zn-ribbon_8      Zinc ribbon domain
      0.072   13.5   7.1        1.5    9.3   2.4    3.4  2  Lar_restr_allev  Restriction alleviation protein Lar
       0.11   12.1   5.0        2.1    7.9   0.1    3.3  3  TF_Zn_Ribbon     TFIIB zinc-binding
       0.18   11.9   8.6          1    9.4   6.1    2.7  2  DZR              Double zinc ribbon
       0.33   10.9   8.0        1.7    8.6   6.1    2.4  2  zinc-ribbons_6   zinc-ribbons
       0.59   10.0   0.2       0.59   10.0   0.2    3.5  4  PADR1            PADR1 (NUC008) domain
       0.76    9.5   5.8        9.4    6.0   0.1    3.1  3  zf-RRN7          Zinc-finger of RNA-polymerase I-specific TFI
        1.3    9.1   7.3        6.3    6.8   2.2    3.4  3  PhnA_Zn_Ribbon   PhnA Zinc-Ribbon
        1.4    8.9   8.4        9.6    6.3   6.6    2.6  2  HypA             Hydrogenase/urease nickel incorporation, met
        1.7    8.3   7.8          2    8.1   0.1    3.2  3  Sgf11            Sgf11 (transcriptional regulation protein)
        2.8    7.9  15.0        7.2    6.6   0.5    4.0  4  TFIIS_C          Transcription factor S-II (TFIIS)
        3.6    7.6   8.5          8    6.5   5.8    2.3  2  RNHCP            RNHCP domain
        4.5    7.3   9.5       0.55   10.2   1.7    2.4  2  OrfB_Zn_ribbon   Putative transposase DNA-binding domain
        6.1    6.9   8.6        2.8    8.0   1.3    2.7  3  ADK_lid          Adenylate kinase, active site lid
        7.9    6.8   7.4         47    4.3   0.1    3.8  4  zf-RING_7        C4-type zinc ribbon domain


Domain annotation for each model (and alignments):
>> Tmemb_55A  Transmembrane protein 55A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.0   1.5   0.00018      0.16      59      86 ..       6      33 ..       2      39 .. 0.90
   2 !    9.5   0.3   0.00054      0.48     161     228 ..      42     107 ..      34     125 .. 0.66

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00018
                Tmemb_55A 59 itCrvCqslidvegkleqhvvkCevCne 86
                              tC+ C+s i+v   le   vkCevC+ 
  PHY93_05040|PHY93_05040  6 FTCKNCGSGINVYPSLEADKVKCEVCQH 33
                             69************************85 PP

  == domain 2  score: 9.5 bits;  conditional E-value: 0.00054
                Tmemb_55A 161 telsrtlarCPhC.rkvssvGrryarkrsllllllglillviaigltlgtlkqakkykgiyvsyvllil 228
                              ++++  l  CP+C rk     +++ rk ++++++++ ++ +i +   +g + + +++  +   y++ ++
  PHY93_05040|PHY93_05040  42 NHVEGVLKNCPECaRKDFYSQKDFNRKLGVIFFVIAAVISTIMLWQGMGPQWYLSTFIVL---YAVDFF 107
                              555677899****55666667899999999999988777666665555555555554444...444333 PP

>> zf-Sec23_Sec24  Sec23/Sec24 zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.3   7.4e-06    0.0066       3      35 ..       7      37 ..       6      40 .. 0.88
   2 ?   -1.2   0.2       2.5   2.2e+03       3      10 ..     117     124 ..     113     125 .. 0.75

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 7.4e-06
           zf-Sec23_Sec24  3 rCrrCraylNpfckidfggkrwiCnfCnhknev 35
                              C++C++ +N + +      + +C+ C+h+  v
  PHY93_05040|PHY93_05040  7 TCKNCGSGINVYPSLEA--DKVKCEVCQHEQVV 37
                             6**************55..58********8765 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 2.5
           zf-Sec23_Sec24   3 rCrrCray 10 
                               C +C a+
  PHY93_05040|PHY93_05040 117 ICYKCDAI 124
                              58888887 PP

>> DUF3784  Domain of unknown function (DUF3784)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.2   2.6e-05     0.023      34      82 ..      57     105 ..      52     110 .. 0.88

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 2.6e-05
                  DUF3784  34 kekydekklsrfmgivllligilflllgllsaiesealliialiviiii 82 
                              k+ y +k   r+ g+++++i++++  + l+++++ +++l  +++++ + 
  PHY93_05040|PHY93_05040  57 KDFYSQKDFNRKLGVIFFVIAAVISTIMLWQGMGPQWYLSTFIVLYAVD 105
                              66799999*************9999999999*******99999988775 PP

>> 2TM  2TM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.8   6.1e-05     0.055       3      41 ..      55      98 ..      53     116 .. 0.74

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 6.1e-05
                      2TM  3 akkrvkeikgFyrhlvvYlivniflilinl.....gsswflwpi 41
                             a+k+ + +k+F r+l+v ++v++ +i   +     g +w+l + 
  PHY93_05040|PHY93_05040 55 ARKDFYSQKDFNRKLGVIFFVIAAVISTIMlwqgmGPQWYLSTF 98
                             99***************999999777663346677777765433 PP

>> Zn_Tnp_IS1595  Transposase zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.3   1.0    0.0012       1.1      18      45 ..       5      33 ..       3      34 .. 0.88
   2 ?    4.9   0.0     0.028        25      20      34 ..      50      64 ..      42      69 .. 0.81
   3 ?   -0.9   0.0       1.9   1.7e+03      20      24 ..     117     121 ..     104     126 .. 0.67

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.0012
            Zn_Tnp_IS1595 18 gfvCPhCgsr.kayriktrglfqCkeCrk 45
                             +f+C +Cgs   +y    + + +C+ C++
  PHY93_05040|PHY93_05040  5 HFTCKNCGSGiNVYPSLEADKVKCEVCQH 33
                             79*******9*88888778********98 PP

  == domain 2  score: 4.9 bits;  conditional E-value: 0.028
            Zn_Tnp_IS1595 20 vCPhCgsrkayrikt 34
                              CP C+ + +y+ k+
  PHY93_05040|PHY93_05040 50 NCPECARKDFYSQKD 64
                             5*****999998776 PP

  == domain 3  score: -0.9 bits;  conditional E-value: 1.9
            Zn_Tnp_IS1595  20 vCPhC 24 
                              +C +C
  PHY93_05040|PHY93_05040 117 ICYKC 121
                              45555 PP

>> Zn-ribbon_8  Zinc ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   1.9   0.00032      0.28       6      35 ..       6      35 ..       5      38 .. 0.80
   2 ?    7.1   4.4    0.0068       6.1       7      34 ..      27      56 ..      25      59 .. 0.77
   3 ?    1.1   0.0      0.48   4.3e+02       8      21 ..     118     131 ..     107     135 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00032
              Zn-ribbon_8  6 YrCeeCghefevlqsisdapltaCPeCgs.e 35
                             + C++Cg+  +v  s  +a++++C  C++ +
  PHY93_05040|PHY93_05040  6 FTCKNCGSGINVYPS-LEADKVKCEVCQHeQ 35
                             89*********8864.4677888****9855 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0068
              Zn-ribbon_8  7 rCeeCghefe.vlqsis.dapltaCPeCgs 34
                             +Ce C+he   ++ + + +  l+ CPeC  
  PHY93_05040|PHY93_05040 27 KCEVCQHEQVvHFDQNHvEGVLKNCPECAR 56
                             8*****887756666667777999****65 PP

  == domain 3  score: 1.1 bits;  conditional E-value: 0.48
              Zn-ribbon_8   8 CeeCghefevlqsi 21 
                              C +C+  f  +  i
  PHY93_05040|PHY93_05040 118 CYKCDAIFRNVKNI 131
                              77777777766655 PP

>> Lar_restr_allev  Restriction alleviation protein Lar
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.2      0.13   1.2e+02      29      36 ..       6      13 ..       2      27 .. 0.75
   2 ?    9.3   2.4    0.0017       1.5       5      36 ..      27      56 ..      23     144 .. 0.67

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.13
          Lar_restr_allev 29 vyCadCga 36
                             ++C++Cg 
  PHY93_05040|PHY93_05040  6 FTCKNCGS 13
                             79*****9 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.0017
          Lar_restr_allev  5 pCPfCggravlersqrvvaeigqcvyCadCga 36
                              C  C +++v++++q++v+++ +  +C +C  
  PHY93_05040|PHY93_05040 27 KCEVCQHEQVVHFDQNHVEGVLK--NCPECAR 56
                             59999999999999999997655..3444433 PP

>> TF_Zn_Ribbon  TFIIB zinc-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9   0.1    0.0023       2.1      16      27 ..       2      13 ..       1      17 [. 0.77
   2 ?    1.4   0.1      0.26   2.4e+02       2      16 ..      27      42 ..      26      47 .. 0.74
   3 ?    3.3   0.1     0.068        61       3      11 ..      51      59 ..      50      68 .. 0.78

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.0023
                             STTCEEESSSSB CS
             TF_Zn_Ribbon 16 ergelvCtdCGl 27
                             +++ ++C++CG+
  PHY93_05040|PHY93_05040  2 MTAHFTCKNCGS 13
                             677788888886 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.26
                             EETTTTCEE.CHEETS CS
             TF_Zn_Ribbon  2 kCPnCgstn.lveDpe 16
                             kC +C +++ + +D +
  PHY93_05040|PHY93_05040 27 KCEVCQHEQvVHFDQN 42
                             899***9985566655 PP

  == domain 3  score: 3.3 bits;  conditional E-value: 0.068
                             ETTTTCEEC CS
             TF_Zn_Ribbon  3 CPnCgstnl 11
                             CP+C  +++
  PHY93_05040|PHY93_05040 51 CPECARKDF 59
                             ****99876 PP

>> DZR  Double zinc ribbon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4   6.1    0.0012         1      14      48 ..       7      54 ..       2      65 .. 0.80
   2 ?    1.1   0.0      0.46   4.1e+02      30      36 ..     117     123 ..     109     133 .. 0.64

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.0012
                      DZR 14 fCseCgtklkavaa....edrCpsCgek..vdpearf.......CpeC 48
                             +C++Cg+ ++ +++    + +C  C+++  v+ +++        CpeC
  PHY93_05040|PHY93_05040  7 TCKNCGSGINVYPSleadKVKCEVCQHEqvVHFDQNHvegvlknCPEC 54
                             799999999999999999899999988765566666577777777777 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.46
                      DZR  30 rCpsCge 36 
                               C +C++
  PHY93_05040|PHY93_05040 117 ICYKCDA 123
                              4555554 PP

>> zinc-ribbons_6  zinc-ribbons
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   6.1    0.0019       1.7       2      49 ..       7      58 ..       6      65 .. 0.69
   2 ?    1.3   0.0      0.37   3.3e+02      27      39 ..     113     125 ..     109     141 .. 0.68

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.0019
                             --SSS-S--EE-S....SEEE-TTT--EEEEEEE-SSS-S---EEEETTEEE CS
           zinc-ribbons_6  2 kCpeCqqelekrg....eqyhCeaCqedlkkealCpeCeqelevlkaCgavd 49
                             +C++C + ++       ++++Ce Cq++  ++   ++ e  l+ +  C+  d
  PHY93_05040|PHY93_05040  7 TCKNCGSGINVYPsleaDKVKCEVCQHEQVVHFDQNHVEGVLKNCPECARKD 58
                             7******99966667889*********5555555555555555555555555 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.37
                              EEEEE-SSS-S-- CS
           zinc-ribbons_6  27 kkealCpeCeqel 39 
                              ++ a+C +C+   
  PHY93_05040|PHY93_05040 113 NQIAICYKCDAIF 125
                              5666666666544 PP

>> PADR1  PADR1 (NUC008) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.1       0.6   5.4e+02      15      24 ..       7      16 ..       4      21 .. 0.77
   2 ?    1.7   0.4      0.25   2.3e+02      15      25 ..      27      37 ..      25      44 .. 0.78
   3 ?   10.0   0.2   0.00065      0.59      11      27 ..      46      62 ..      41      68 .. 0.78
   4 ?   -1.4   0.0       2.3   2.1e+03      16      20 ..     118     122 ..     111     129 .. 0.62

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.6
                    PADR1 15 kCpeCkegql 24
                              C++C++g  
  PHY93_05040|PHY93_05040  7 TCKNCGSGIN 16
                             5****98755 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.25
                    PADR1 15 kCpeCkegqlv 25
                             kC+ C++ q+v
  PHY93_05040|PHY93_05040 27 KCEVCQHEQVV 37
                             8****998875 PP

  == domain 3  score: 10.0 bits;  conditional E-value: 0.00065
                    PADR1 11 GalekCpeCkegqlvfd 27
                             G+l++CpeC +  ++ +
  PHY93_05040|PHY93_05040 46 GVLKNCPECARKDFYSQ 62
                             9********97766644 PP

  == domain 4  score: -1.4 bits;  conditional E-value: 2.3
                    PADR1  16 CpeCk 20 
                              C +C 
  PHY93_05040|PHY93_05040 118 CYKCD 122
                              44443 PP

>> zf-RRN7  Zinc-finger of RNA-polymerase I-specific TFIIB, Rrn7
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   0.1      0.04        35       4      12 ..       5      13 ..       2      19 .. 0.65
   2 ?    0.6   0.3      0.51   4.6e+02       5      10 ..      26      31 ..      22      34 .. 0.79
   3 ?    6.0   0.1     0.011       9.4       6      17 ..      50      61 ..      48      64 .. 0.87

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.04
                  zf-RRN7  4 gppCgvCgc 12
                             ++ C  Cg+
  PHY93_05040|PHY93_05040  5 HFTCKNCGS 13
                             566777776 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.51
                  zf-RRN7  5 ppCgvC 10
                               C+vC
  PHY93_05040|PHY93_05040 26 VKCEVC 31
                             67***9 PP

  == domain 3  score: 6.0 bits;  conditional E-value: 0.011
                  zf-RRN7  6 pCgvCgcrsftl 17
                              C++C  ++f++
  PHY93_05040|PHY93_05040 50 NCPECARKDFYS 61
                             6**********8 PP

>> PhnA_Zn_Ribbon  PhnA Zinc-Ribbon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.0      0.17   1.5e+02      18      27 ..       4      13 ..       2      16 .. 0.73
   2 ?    6.8   2.2    0.0071       6.3       4      26 ..      27      55 ..      20      56 .. 0.91
   3 ?   -0.7   0.0       1.6   1.5e+03       5       9 ..     118     122 ..     113     126 .. 0.60

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.17
           PhnA_Zn_Ribbon 18 allvCpeCah 27
                             a + C +C++
  PHY93_05040|PHY93_05040  4 AHFTCKNCGS 13
                             6788999987 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.0071
           PhnA_Zn_Ribbon  4 kCplCaSeytY......edgallvCpeCa 26
                             kC+ C+ e +       ++g l  CpeCa
  PHY93_05040|PHY93_05040 27 KCEVCQHEQVVhfdqnhVEGVLKNCPECA 55
                             899999999999999999999999****8 PP

  == domain 3  score: -0.7 bits;  conditional E-value: 1.6
           PhnA_Zn_Ribbon   5 CplCa 9  
                              C +C 
  PHY93_05040|PHY93_05040 118 CYKCD 122
                              55665 PP

>> HypA  Hydrogenase/urease nickel incorporation, metallochaperone, hypA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.3   6.6     0.011       9.6      69      95 ..      24      57 ..       1      65 [. 0.52
   2 ?   -1.2   0.0       2.2     2e+03      70      81 ..     115     126 ..     107     135 .. 0.65

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.011
                             -EEEETTTS-EEECHHHHH........S-TTTSSS CS
                     HypA 69 vkvrCreCgkefeleekal........rCpkCgsa 95
                              kv+C++C++e  ++ +          +Cp+C ++
  PHY93_05040|PHY93_05040 24 DKVKCEVCQHEQVVHFD-QnhvegvlkNCPECARK 57
                             34556666655543332.01234555566666655 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 2.2
                              EEEETTTS-EEE CS
                     HypA  70 kvrCreCgkefe 81 
                               + C +C++ f+
  PHY93_05040|PHY93_05040 115 IAICYKCDAIFR 126
                              456777776665 PP

>> Sgf11  Sgf11 (transcriptional regulation protein)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.1   0.1    0.0022         2       2      11 ..       3      12 ..       2      16 .. 0.86
   2 ?    0.7   0.2      0.44     4e+02       4      11 ..      25      32 ..      23      34 .. 0.83
   3 ?    2.3   0.4      0.14   1.2e+02       6      13 ..      50      57 ..      47      57 .. 0.86

  Alignments for each domain:
  == domain 1  score: 8.1 bits;  conditional E-value: 0.0022
                             C-EEE-TTTS CS
                    Sgf11  2 seyvtCpnCg 11
                             ++++tC+nCg
  PHY93_05040|PHY93_05040  3 TAHFTCKNCG 12
                             579******8 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.44
                             EEE-TTTS CS
                    Sgf11  4 yvtCpnCg 11
                              v+C+ C+
  PHY93_05040|PHY93_05040 25 KVKCEVCQ 32
                             589****7 PP

  == domain 3  score: 2.3 bits;  conditional E-value: 0.14
                             E-TTTSSE CS
                    Sgf11  6 tCpnCgRq 13
                             +Cp C R+
  PHY93_05040|PHY93_05040 50 NCPECARK 57
                             7****996 PP

>> TFIIS_C  Transcription factor S-II (TFIIS)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.6   0.5     0.008       7.2      25      35 ..       2      12 ..       1      14 [. 0.88
   2 ?    6.1   0.3     0.011       9.9       2      14 ..      27      39 ..      26      43 .. 0.85
   3 ?    2.5   0.4      0.15   1.3e+02       2      12 ..      50      60 ..      49      63 .. 0.81
   4 ?    1.1   0.1      0.41   3.7e+02      30      38 ..     117     125 ..     114     126 .. 0.68

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.008
                  TFIIS_C 25 mtvfykCtkCg 35
                             mt  ++C++Cg
  PHY93_05040|PHY93_05040  2 MTAHFTCKNCG 12
                             8999******9 PP

  == domain 2  score: 6.1 bits;  conditional E-value: 0.011
                  TFIIS_C  2 kCpkCgsreayff 14
                             kC+ C++++++ f
  PHY93_05040|PHY93_05040 27 KCEVCQHEQVVHF 39
                             8*******99987 PP

  == domain 3  score: 2.5 bits;  conditional E-value: 0.15
                  TFIIS_C  2 kCpkCgsreay 12
                              Cp+C  ++ y
  PHY93_05040|PHY93_05040 50 NCPECARKDFY 60
                             6****998876 PP

  == domain 4  score: 1.1 bits;  conditional E-value: 0.41
                  TFIIS_C  30 kCtkCghrW 38 
                               C kC   +
  PHY93_05040|PHY93_05040 117 ICYKCDAIF 125
                              588887766 PP

>> RNHCP  RNHCP domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.5   5.8    0.0089         8       2      37 ..       4      41 ..       3      54 .. 0.77
   2 ?    0.7   0.0      0.58   5.2e+02      62      75 ..     114     127 ..     107     141 .. 0.63

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.0089
                    RNHCP  2 esftCeeCgkeveklaagsakrnHCpsCLlsk..Hvde 37
                              +ftC++Cg+ ++   + +a +  C  C + +  H d+
  PHY93_05040|PHY93_05040  4 AHFTCKNCGSGINVYPSLEADKVKCEVCQHEQvvHFDQ 41
                             58************9999999*******9875225555 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.58
                    RNHCP  62 ewvivhrCekCgel 75 
                              +++i ++C+   + 
  PHY93_05040|PHY93_05040 114 QIAICYKCDAIFRN 127
                              55555555544443 PP

>> OrfB_Zn_ribbon  Putative transposase DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   1.7   0.00061      0.55      30      55 ..       7      34 ..       6      49 .. 0.86
   2 ?    2.2   0.2      0.19   1.7e+02      29      48 ..      49      66 ..      48      73 .. 0.76

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00061
           OrfB_Zn_ribbon 30 tCseCgsknke..alsgrtfkCpnCgfe 55
                             tC +Cgs  +   +l+ +++kC+ C++e
  PHY93_05040|PHY93_05040  7 TCKNCGSGINVypSLEADKVKCEVCQHE 34
                             8*****9888889************997 PP

  == domain 2  score: 2.2 bits;  conditional E-value: 0.19
           OrfB_Zn_ribbon 29 ktCseCgsknkealsgrtfk 48
                             k+C+eC +k+ +  s++ f+
  PHY93_05040|PHY93_05040 49 KNCPECARKDFY--SQKDFN 66
                             78****999877..666655 PP

>> ADK_lid  Adenylate kinase, active site lid
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   1.3    0.0031       2.8       3      32 ..       7      36 ..       6      40 .. 0.84
   2 ?   -2.2   0.1       4.7   4.2e+03       4       9 ..      51      56 ..      50      62 .. 0.81
   3 ?    3.4   0.1     0.084        75       3      18 ..     117     132 ..     116     157 .] 0.74

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.0031
                             E-TTT--EEETTTB--SSTTB-TTT--.-B CS
                  ADK_lid  3 vCpkCGrsYhvvfnpPkveglCDkCGepLv 32
                             +C++CG   +v       + +C +C  + v
  PHY93_05040|PHY93_05040  7 TCKNCGSGINVYPSLEADKVKCEVCQHEQV 36
                             8*********66688889999****98755 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 4.7
                             -TTT-- CS
                  ADK_lid  4 CpkCGr 9 
                             Cp C r
  PHY93_05040|PHY93_05040 51 CPECAR 56
                             888865 PP

  == domain 3  score: 3.4 bits;  conditional E-value: 0.084
                              E-TTT--EEETTTB-- CS
                  ADK_lid   3 vCpkCGrsYhvvfnpP 18 
                              +C kC +++  v+n  
  PHY93_05040|PHY93_05040 117 ICYKCDAIFRNVKNIS 132
                              8********5454444 PP

>> zf-RING_7  C4-type zinc ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.2       0.2   1.8e+02      24      30 ..       6      12 ..       4      13 .. 0.88
   2 ?   -0.7   0.1       1.9   1.7e+03       1       6 [.      27      32 ..      22      34 .. 0.71
   3 ?    4.3   0.1     0.053        47      21      31 ..      46      56 ..      37      56 .. 0.80
   4 ?    1.7   0.0      0.34     3e+02      18      32 ..     110     124 ..     101     125 .. 0.87

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.2
                             EE-TTT- CS
                zf-RING_7 24 vtCpeCG 30
                             +tC +CG
  PHY93_05040|PHY93_05040  6 FTCKNCG 12
                             69****9 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 1.9
                             EETTT- CS
                zf-RING_7  1 tCgGCh 6 
                             +C+ C+
  PHY93_05040|PHY93_05040 27 KCEVCQ 32
                             566664 PP

  == domain 3  score: 4.3 bits;  conditional E-value: 0.053
                             TB-EE-TTT-- CS
                zf-RING_7 21 devvtCpeCGR 31
                             +++  CpeC R
  PHY93_05040|PHY93_05040 46 GVLKNCPECAR 56
                             56778****87 PP

  == domain 4  score: 1.7 bits;  conditional E-value: 0.34
                              CCSTB-EE-TTT--E CS
                zf-RING_7  18 ragdevvtCpeCGRI 32 
                              r+ ++++ C  C +I
  PHY93_05040|PHY93_05040 110 RRLNQIAICYKCDAI 124
                              6779*****999988 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (157 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1381  (0.077026); expected 358.6 (0.02)
Passed bias filter:                      778  (0.0433934); expected 358.6 (0.02)
Passed Vit filter:                       102  (0.00568911); expected 17.9 (0.001)
Passed Fwd filter:                        28  (0.00156172); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              20  [number of targets reported over threshold]
# CPU time: 0.53u 0.29s 00:00:00.82 Elapsed: 00:00:00.46
# Mc/sec: 1034.05
//
Query:       PHY93_05045|PHY93_05045  [L=256]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (256 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       949  (0.052931); expected 358.6 (0.02)
Passed bias filter:                      259  (0.0144459); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.26s 00:00:00.73 Elapsed: 00:00:00.42
# Mc/sec: 1826.84
//
Query:       PHY93_17380|PHY93_17380  [L=97]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.15   10.9   0.1       0.14   10.9   0.1    1.0  1  MtmB      Monomethylamine methyltransferase MtmB


Domain annotation for each model (and alignments):
>> MtmB  Monomethylamine methyltransferase MtmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.1   8.1e-06      0.14      35      96 ..      15      79 ..       1      88 [. 0.77

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 8.1e-06
                     MtmB 35 ekydikfenefiPededlad...rlfqaGlelLvetGvycidtervikvteeeilegikkapkkl 96
                              +y + +++e++ e  + +    r++   l+ L+et +y+id +r+++  ++   e   ++ ++l
  PHY93_17380|PHY93_17380 15 SQYTLMWKDEVMNEYPESITnypRVWIDLLDTLSETELYAIDCKRIVEKIKDSSFEQFMNLAREL 79
                             5799999999998887776612256666677789***************9999999888887776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (97 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       648  (0.0361426); expected 358.6 (0.02)
Passed bias filter:                      531  (0.0296168); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.22s 00:00:00.62 Elapsed: 00:00:00.38
# Mc/sec: 763.10
//
Query:       PHY93_05050|PHY93_05050  [L=152]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.7e-12   46.8   0.0    3.4e-12   46.5   0.0    1.2  1  NUDIX     NUDIX domain
    2.6e-05   24.2   0.0    4.6e-05   23.4   0.0    1.4  2  NUDIX_4   NUDIX domain


Domain annotation for each model (and alignments):
>> NUDIX  NUDIX domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.5   0.0   3.8e-16   3.4e-12      17      94 ..      24     100 ..       4     121 .. 0.69

  Alignments for each domain:
  == domain 1  score: 46.5 bits;  conditional E-value: 3.8e-16
                              EEEEEES.SSSTTT.EESSEEECBTTSHHHHHHHHHHHHHHS.EEE.EEEEEEEEEEEEEEEEEEEEE.EEEEEEEEEEEECS CS
                    NUDIX  17 vLlvrrs.kkpfpg.WelPgGkvepgEtpeeAArREleEEtG.lea.ellellgrlhylapydgpygd.eheilyvfleeveg 94 
                              v+++ r  + p  g  e+PgGk+e+gEtpe AArRE+ EE+G +++ +   +l       +y+++  + ++ +l+vfl +++ 
  PHY93_05050|PHY93_05050  24 VWVQVRLeEGPLFGlLEFPGGKIEDGETPESAARREVLEEVGvVIPiDSPVVLF------KYQDYSHEtKNICLFVFLSNFDQ 100
                              77777775445555569*************************523323333333......34444444377777888865554 PP

>> NUDIX_4  NUDIX domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.4   0.0   5.1e-09   4.6e-05      10      91 ..      23     110 ..      11     124 .. 0.69
   2 ?   -2.6   0.0      0.62   5.5e+03       5      26 ..     131     152 .]     128     152 .] 0.76

  Alignments for each domain:
  == domain 1  score: 23.4 bits;  conditional E-value: 5.1e-09
                              EEEEEE--TTSSSTT-EE-SEEE.-TTS-HHHHHH...HHHHS-EEEEEEE...EEEEEEETTEEEEEEEEEE...EEE.S..--- CS
                  NUDIX_4  10 rvllekRpekgllggLwefPgge.eegeeleeala...reelgieveelep...gtvkHvftHfrltltvylv...rveegeeapa 85 
                              +v+++ R e+g l gL efPgg+ e+ge++e+a+     ee+g+ +   +p   ++    ++H + ++ ++ v    ++   + p+
  PHY93_05050|PHY93_05050  23 KVWVQVRLEEGPLFGLLEFPGGKiEDGETPESAARrevLEEVGVVIPIDSPvvlFK-YQDYSHETKNICLF-VflsNFD---QLPH 103
                              79*********************999999887664445567775333222343334.37888888888866.4234333...3333 PP

                              .EEEEEE CS
                  NUDIX_4  86 .elrwvt 91 
                               +++w++
  PHY93_05050|PHY93_05050 104 eKGQWLE 110
                              4677865 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 0.62
                              EEECTEEEEEE--TTSSSTT-E CS
                  NUDIX_4   5 irddgrvllekRpekgllggLw 26 
                              i+dd +v+l+   + g+ g Lw
  PHY93_05050|PHY93_05050 131 ILDDLAVYLQSHYNAGMIGSLW 152
                              6666678888888889999888 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (152 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       331  (0.0184617); expected 358.6 (0.02)
Passed bias filter:                      314  (0.0175135); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 1170.02
//
Query:       PHY93_05055|PHY93_05055  [L=328]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.5e-51  175.3   0.0    1.8e-51  175.1   0.0    1.0  1  Dus           Dihydrouridine synthase (Dus)
  ------ inclusion threshold ------
      0.013   15.0   0.0      0.019   14.4   0.0    1.2  1  His_biosynth  Histidine biosynthesis protein


Domain annotation for each model (and alignments):
>> Dus  Dihydrouridine synthase (Dus)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  175.1   0.0     2e-55   1.8e-51       2     260 ..      14     280 ..      13     325 .. 0.87

  Alignments for each domain:
  == domain 1  score: 175.1 bits;  conditional E-value: 2e-55
                              E---TTTS-HHHHH.HHHHTT-SSEEEEEEEE-SSS---HHHHH......HH-GGGGGTSCEEEEEE-S-HHHHHHHHHHHHHTT- CS
                      Dus   2 laPmagvtdlpfRe.lvrefgataLvvtemvtakaivreekvri......rmlseeeeetplavQlggsdpallaeaAklvadlga 80 
                               aPm+g+td p+R  +++ f + ++ +t+++++  + + +++ i      r + +e  +++ ++Q+++   a+++   ++ + +++
  PHY93_05055|PHY93_05055  14 FAPMEGITDEPYRIaMLKTFPEWDQFFTDFLRVPTVGKINEKMImehygpRIYANESWRKKNSFQILTTPRAQTLLVTEILESMKM 99 
                              69**********963789999999******998777655544441111114455555559************************** PP

                              SCEEEEESSTTEEETTEEEGGGGGGSHHHHHHHHHHHHCCSSS-EEEEEESESSTTTC.HHHHHHHHHHCT-SEEEEESSECCCTT CS
                      Dus  81 deIdlNvGCPskkvtrggaGaaLlrkpdlvaqivkavvkaveiPvtvkirigiddeeenalelakiveaaGaqaltvHgRtraqny 166
                              ++ dlN+GCPskkv++  +Ga Ll + + +  ++++++++     tvk+rig +d+  n  +  k ++++G++a+t+H+Rtr q y
  PHY93_05055|PHY93_05055 100 HHLDLNLGCPSKKVNSHLGGAYLLSDHKALRTVLQTIRNNFTGRFTVKMRIGYRDDI-NFSDTLKLIQDEGVEAITLHARTRDQLY 184
                              ******************************************************765.599************************* PP

                              -CG--CHHHHHHHHH-SS-EEEESS--SHHHHHHHHHHH--SEEEESCHHCCSTTHHHH.HHHHHHSC------.HHHHHHHHHHH CS
                      Dus 167 egtadweaIkevkqavsipviaNGdIkdaedaqaileetGadgvmigrgalgnPwlfae.stavktgeaepapp.laeeaeiveeh 250
                              +g adw+ I++   +v+ip+i+NGdI+ +ed+++i +et ++ vm gr al+ Pwl +  ++++++g    +   l e+++ +++ 
  PHY93_05055|PHY93_05055 185 KGVADWNYIAKAVSEVKIPLIGNGDIWIVEDIEKIFQETKCHSVMFGRSALKTPWLAKLyKEYIDEGGHIDETFlLFERKKYLDQY 270
                              *********************************************************99999999876555555488888888888 PP

                              HHHCHHTTCC CS
                      Dus 251 lkkleeelge 260
                               ++l+ e++e
  PHY93_05055|PHY93_05055 271 FDALLVEYRE 280
                              8888888765 PP

>> His_biosynth  Histidine biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0   2.1e-06     0.019     135     223 ..     145     234 ..     129     238 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 2.1e-06
                              EEEETTTTEEEEEEHHHHHHHHHHTT-SEEEEEETTTTTTSS--.-HHHHHHHHHHHSSEEEEESS--SHHHHHHHHHTTC.SEEE CS
             His_biosynth 135 kvaikgwreetgldavelakkleelgageilltdidrdGtlsGp.dleltkelaeavkipviasGGvgsledlkelksegv.davi 218
                               v ++ + ++ ++++++++k +++ g+++i l+   rd   +G+ d + + +  ++vkip+i  G +  +ed++++++e++ ++v+
  PHY93_05055|PHY93_05055 145 TVKMRIGYRD-DINFSDTLKLIQDEGVEAITLHARTRDQLYKGVaDWNYIAKAVSEVKIPLIGNGDIWIVEDIEKIFQETKcHSVM 229
                              5666666666.8999****************************83579999999***********************99998**99 PP

                              ESHHH CS
             His_biosynth 219 vgsal 223
                               g+  
  PHY93_05055|PHY93_05055 230 FGRSA 234
                              99865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (328 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       460  (0.0256568); expected 358.6 (0.02)
Passed bias filter:                      401  (0.022366); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.42
# Mc/sec: 2330.74
//
Query:       PHY93_05060|PHY93_05060  [L=163]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (163 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       780  (0.0435049); expected 358.6 (0.02)
Passed bias filter:                      367  (0.0204696); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1202.38
//
Query:       PHY93_05065|PHY93_05065  [L=226]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.1e-38  132.7   0.0    1.4e-38  132.3   0.0    1.2  1  adh_short      short chain dehydrogenase
    3.5e-27   95.5   0.0    6.3e-27   94.6   0.0    1.3  1  adh_short_C2   Enoyl-(Acyl carrier protein) reductase
    1.8e-11   44.3   0.8      3e-10   40.3   0.9    2.0  1  KR             KR domain
    0.00012   21.6   0.0     0.0005   19.6   0.0    1.9  1  Epimerase      NAD dependent epimerase/dehydratase family
     0.0035   16.8   1.0      0.057   12.8   1.0    2.6  1  GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase


Domain annotation for each model (and alignments):
>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  132.3   0.0     4e-42   1.4e-38       2     193 ..       6     187 ..       5     189 .. 0.95

  Alignments for each domain:
  == domain 1  score: 132.3 bits;  conditional E-value: 4e-42
                              EEEEESTTSHHHHHHHHHHHHTT-EEEEEESCHHHHHHHHHHHHHTTSEEEEEE-TTTSHHHHHHHHHHHHHHHSSESEEEE---S CS
                adh_short   2 vvlvtGassGIGraiakelakeGakvvvvdrseekleevakelkeegakalaiqvDvtdreevealvekavkklgkldvLvnNAGi 87 
                               +l+tG ssG+G+++a+ l++eG +v+ ++r+      ++++ +     ++ i +D++++ +ve+++e ++ +++ l++++ NAGi
  PHY93_05065|PHY93_05065   6 YALITGTSSGLGYEMAQFLLEEGLTVIGISRRGT----ILDHPN-----FIDILCDIREEGAVEEMYELVAGHTDALHLIILNAGI 82 
                              59**************************999955....456655.....99*********************************** PP

                              S--SSGGGCSHHHHHHHHHHHTHHHHHHHHHHHHHHHHCTTEEEEEEEEGGGTSB-TTBHHHHHHHHHHHHHHHHHHHHHGGGTEE CS
                adh_short  88 tgsgpfselseeewervievNltgvflltravlpamlkqssGrIvnvsSvagkvpvagvaaYsAsKaavagltrslakelaptgir 173
                               +++p  e+s +e+ + +++N++g+f++ +++ + ++ + + +I++vsS+a+k+++a+ +aYsAsK+a++g+++sl++e++  ++r
  PHY93_05065|PHY93_05065  83 FEMSPLVETSTKEFSDHFSTNVVGAFHILKHASDFLV-EDETHIITVSSIASKKGLANISAYSASKFALNGMIESLREEWEHLNVR 167
                              ***********************************88.8899******************************************** PP

                              EEEEEESSBSSHHHHHHCTH CS
                adh_short 174 vnavaPGlvdTdmakelrek 193
                               ++++PG++ T++  e++e+
  PHY93_05065|PHY93_05065 168 FSTLMPGAILTPIWDESEED 187
                              *************9998876 PP

>> adh_short_C2  Enoyl-(Acyl carrier protein) reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   94.6   0.0   1.8e-30   6.3e-27       1     184 [.      11     186 ..      11     208 .. 0.90

  Alignments for each domain:
  == domain 1  score: 94.6 bits;  conditional E-value: 1.8e-30
                              TTTTSHHHHHHHHHHHTT-EEEEEESSGGHHHHHHHHHHHTTSEE.EE--TTSHHHHHHHHHHHHHHHSSEEEEEE-----EGCSS CS
             adh_short_C2   1 GaasgIGraiAkalaeeGaevvltdlneeakkrveelaeelgaev.lecDVtdeeqvealveevvekfgklDilvnnagiapklkg 85 
                              G  sg+G+++A+ l eeG +v+   ++           + +++ + + cD+++e +ve++ e v+ +++ l+ ++ nagi +   +
  PHY93_05065|PHY93_05065  11 GTSSGLGYEMAQFLLEEGLTVIGISRRGTI-------LD-HPNFIdILCDIREEGAVEEMYELVAGHTDALHLIILNAGIFEM--S 86 
                              6789****************9988766665.......33.3555689************************************..* PP

                              -GGGH-HHHHHHHHHHHTHHHHHHHHHHHH.HCTSCCEEEEEEEGGGTSBSTTTTHHHHHHHHHHHHHHHHHHHHGGGTEEEEEEE CS
             adh_short_C2  86 pfletsreefdraldvnlyslfllakaalp.lmkeggsivnlssvgaervvpnynaygaaKaalealtrylAvelgpkgiRvNavs 170
                              p++ets +ef + +++n+ ++f+++k+a   l++++  i+++ss++++++++n +ay+a+K al++++ +l  e+ + ++R  +  
  PHY93_05065|PHY93_05065  87 PLVETSTKEFSDHFSTNVVGAFHILKHASDfLVEDETHIITVSSIASKKGLANISAYSASKFALNGMIESLREEWEHLNVRFSTLM 172
                              ******************************777777************************************************** PP

                              E--BHCTGGGGSTT CS
             adh_short_C2 171 pgpikTlaasgikg 184
                              pg+i T+++++ ++
  PHY93_05065|PHY93_05065 173 PGAILTPIWDESEE 186
                              *******9988765 PP

>> KR  KR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.3   0.9   8.5e-14     3e-10       4     166 ..       8     160 ..       6     167 .. 0.89

  Alignments for each domain:
  == domain 1  score: 40.3 bits;  conditional E-value: 8.5e-14
                              EEETTTSHHHHHHHHHHHHHHS-EEEEE-SS..--HHHHHHHHHHHHTT-EEEE----TT-HHHHHHHHHHHHHHSS---EEEE-- CS
                       KR   4 litGGlGgLGlelarwlaekgarhlvllsRsaaadedskaliaelealgaevevvaaDvsdkdavealleeikaeeppikGvihaA 89 
                              litG   gLG e+a++l+e+g + ++ +sR+++   d+ ++i+           + +D+ ++ ave++ e +  ++++++ +i  A
  PHY93_05065|PHY93_05065   8 LITGTSSGLGYEMAQFLLEEGLT-VIGISRRGT-ILDHPNFID-----------ILCDIREEGAVEEMYELVAGHTDALHLIILNA 80 
                              9********************86.566789943.333343555...........679***************************** PP

                              -------TTT--HHHHHHHHTTTTHHHHHHHHHTTT...S--SEEEEEEEHHHHH--TT-HHHHHHHHHHHHHHHHHHHH CS
                       KR  90 gvlrdklleemtaedleqvlapKvkGawnLhelled...esldffvlfSSiagllgsagqanYaaaNaflDalaeyrrsq 166
                              g+++ ++l e++++++   ++  v Ga ++ +  +d   e+  +++++SSia+  g a  ++Y+a    l++++e+ r++
  PHY93_05065|PHY93_05065  81 GIFEMSPLVETSTKEFSDHFSTNVVGAFHILKHASDflvEDETHIITVSSIASKKGLANISAYSASKFALNGMIESLREE 160
                              ***************************9998888887889999***********************99999999987765 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   0.0   1.4e-07    0.0005       1     168 [.       7     172 ..       7     196 .. 0.72

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 1.4e-07
                              EEEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHC..EEEE--TT-HHHHHHHHHHH.....T-SEEEE--S---... CS
                Epimerase   1 ilVtGatGfiGsalvkallekgyevigldrlssasntarledl..elveldltdrsalerlfkee.....qpdavihlAavgg... 76 
                              +l+tG +  +G  +++ lle+g +vig++r+ +      l++     + +d++++ a+e++ + +     + + +i+ A++     
  PHY93_05065|PHY93_05065   7 ALITGTSSGLGYEMAQFLLEEGLTVIGISRRGTI-----LDHPnfIDILCDIREEGAVEEMYELVaghtdALHLIILNAGIFEmsp 87 
                              59*****************************333.....23331233568888888877765433220224455555566432122 PP

                              .HHHHHHSHHHHHHHHTHHHHHHHHHHHHHTCTEEEEEEEGGGGTSCSSSSBSTCSTTS----SSHHHHHHHHHHHHHHHHHHHHT CS
                Epimerase  77 .vaassedpadfieknlqgtlnlleaarkagvkrllflsSsevYGkdaeqpkeettltgplkpnspYaaaKlageklveayaaqyg 161
                               v++s ++ +d + +n++g+ ++l+ a++  v+   ++ +++    ++            l+  s+Y+a+K a   ++e+++++ +
  PHY93_05065|PHY93_05065  88 lVETSTKEFSDHFSTNVVGAFHILKHASDFLVEDETHIITVSSIASKKG-----------LANISAYSASKFALNGMIESLREEWE 162
                              26778888889999**************999996666666554554444...........4789*****************99984 PP

                              ...-EEEEEE CS
                Epimerase 162 ...lnaiilr 168
                                 +++ +l+
  PHY93_05065|PHY93_05065 163 hlnVRFSTLM 172
                              3334444555 PP

>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.8   1.0   1.6e-05     0.057       1     129 [.       8     130 ..       8     169 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 1.6e-05
                              EEETTTSHHHHHHHHHHHHCT-CCEEEEEEESS-TTHHHHHCTTT.....TTGCCEEEEE--TT-HHHHHHHHHHHT-SEEEE--S CS
            GDP_Man_Dehyd   1 LiTGiaGfiGsylaelLlekgyevhgivrrsssfntgriehlakdpke..eleenlklhkgDltDssslerllaevqpdevynLAA 84 
                              LiTG +   G  +a++Lle+g +v+gi rr + ++  +   +  d +e   +ee ++l+ g  tD  +l+ ++ ++ +   +    
  PHY93_05065|PHY93_05065   8 LITGTSSGLGYEMAQFLLEEGLTVIGISRRGTILDHPNFIDILCDIREegAVEEMYELVAGH-TD--ALHLIILNAGI---FE--M 85 
                              899999999********************998877665544443333200334455555553.33..45555555533...33..3 PP

                              ---HHHHTTSHHHHHHHHTHHHHHHHHHHHHCT..TTSEEEEEEE CS
            GDP_Man_Dehyd  85 qshVdvsfekPeytaevnvlGtlrLLeairalglekkvrfyqaSt 129
                                 V++s ++    + +nv+G++++L+ + +  +e++++++ +S+
  PHY93_05065|PHY93_05065  86 SPLVETSTKEFSDHFSTNVVGAFHILKHASDFLVEDETHIITVSS 130
                              45699*****9*******************999999999999998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (226 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       357  (0.0199119); expected 358.6 (0.02)
Passed bias filter:                      320  (0.0178482); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.50u 0.25s 00:00:00.75 Elapsed: 00:00:00.42
# Mc/sec: 1598.63
//
Query:       PHY93_05070|PHY93_05070  [L=517]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.3e-33  116.1  38.5    2.6e-33  115.1  38.5    1.5  1  DUF3552         Domain of unknown function (DUF3552)
    1.5e-16   60.8   3.6    1.5e-16   60.8   3.6    3.0  2  HD              HD domain
    1.7e-06   27.6   0.7    0.00015   21.3   0.3    2.9  2  HDOD            HDOD domain
    2.1e-05   24.2   0.5    2.1e-05   24.2   0.5    2.5  3  KH_1            KH domain
     0.0039   17.0   0.5      0.022   14.6   0.0    2.6  2  KH_4            KH domain
  ------ inclusion threshold ------
       0.11   12.5   0.2       0.32   11.0   0.2    1.8  1  UPF0154         Uncharacterised protein family (UPF0154)
        6.7    5.0   4.7          9    4.6   4.7    1.3  1  SID-1_RNA_chan  dsRNA-gated channel SID-1


Domain annotation for each model (and alignments):
>> DUF3552  Domain of unknown function (DUF3552)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  115.1  38.5     1e-36   2.6e-33       2     201 .]       5     204 ..       4     204 .. 0.98

  Alignments for each domain:
  == domain 1  score: 115.1 bits;  conditional E-value: 1e-36
                  DUF3552   2 liilaivalvvglvvgylvrkkiaekkiaeAeeeAkkiieeAkkeAeakkkealleakeeihklreelekelkerrnelqrlekRl 87 
                              +i++a+++++vg+++gy+v++ + +k i+e e + ++i+e+Akk A+++k +   eake  ++ +e+l++e+ +r ne++++e+ +
  PHY93_05070|PHY93_05070   5 VILAAVLFAIVGVIAGYMVKNAQVQKDIKEKEIKGNDIVEKAKKYADEIKYKSRQEAKEISREEKEKLDREIANRTNEVKNQEREI 90 
                              68999********************************************************************************* PP

                  DUF3552  88 lqkeetLdrkeeslekkeesleekekelkqkeqsleekeeeleelveeqrqeLerisgLtkeeAkeilleeveeelkheaAkmike 173
                               +ke  Ldrk+e+ ek  ++l+eke e +  ++  ee++ ++++ ++e +++L +++++tkeeAk  l + +eee++ + +k+ ++
  PHY93_05070|PHY93_05070  91 AKKEAILDRKNEDHEKELKTLKEKEIEFEVAKKLHEEESLRMKNKQTEFNDKLAQVAQMTKEEAKVELTRAMEEEARVDFGKILRR 176
                              ***************************99999999999999********************************************* PP

                  DUF3552 174 ieeeakeeAdkkAkeiialAiQrcAadh 201
                               eee+keeA+ k+k+i+  AiQr+A+++
  PHY93_05070|PHY93_05070 177 LEEETKEEAEAKSKRIVGIAIQRFAGEY 204
                              *************************985 PP

>> HD  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -4.1   5.2       6.9   1.8e+04      53      53 ..     110     110 ..      31     196 .. 0.62
   2 !   60.8   3.6   5.7e-20   1.5e-16       2     120 ..     336     426 ..     336     428 .. 0.94

  Alignments for each domain:
  == domain 1  score: -4.1 bits;  conditional E-value: 6.9
                              C CS
                       HD  53 f 53 
                              +
  PHY93_05070|PHY93_05070 110 T 110
                              1 PP

  == domain 2  score: 60.8 bits;  conditional E-value: 5.7e-20
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTHHHHTS..HHHHHHCTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT CS
                       HD   2 leHsleVaklarrlaedlgeeedrellllaaLlHDiGkgpfgdafekkeeefekflaHekvgaeilrevekrlgldledvaklire 87 
                              ++H +e a +++ +a +lg   ++  ++ a+LlHDiGk+   +           + +H++vga  ++++++++     d++++ir+
  PHY93_05070|PHY93_05070 336 YQHAIEAAFICGAMAAELG--LNVKQARRAGLLHDIGKVIDAS----------AEGSHAVVGADFAKKYGESP-----DIVHAIRA 404
                              79*****************..*******************443..........4568****************.....******** PP

                              TCCHHHHHHHHHHHHCCTSCHHHHHHHHHHHHH CS
                       HD  88 hheswegkkrprglaerqlslearivklaDrla 120
                              hh+++            + s +a +v++aD+l+
  PHY93_05070|PHY93_05070 405 HHDDEK-----------PESVLAHLVAAADALS 426
                              *****9...........99************97 PP

>> HDOD  HDOD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.3     6e-08   0.00015      95     134 ..     335     373 ..     326     378 .. 0.91
   2 ?    3.5   0.0     0.017        44     167     195 ..     379     407 ..     374     408 .. 0.92

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 6e-08
                              HHHHHHHHHHHHHHHHHHTT-S-HHHHHHHHHTTTHHHHH CS
                     HDOD  95 lwehslavAlvarelaeelgledpeeaflaGLLhdiGklv 134
                                +h+++ A+++ ++a+elgl+  ++a  aGLLhdiGk++
  PHY93_05070|PHY93_05070 335 QYQHAIEAAFICGAMAAELGLNV-KQARRAGLLHDIGKVI 373
                              569******************99.**************98 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.017
                              S-HHHHHHHHHHHTT--HHHHHHHHHTT- CS
                     HDOD 167 tdhaevGaallekWnlPeelveaiayhhe 195
                               +ha vGa  ++k    +++v+ai++hh+
  PHY93_05070|PHY93_05070 379 GSHAVVGADFAKKYGESPDIVHAIRAHHD 407
                              58**************************7 PP

>> KH_1  KH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -4.0   0.0       5.6   1.4e+04      49      62 ..      36      48 ..      33      49 .. 0.82
   2 ?   -2.8   0.1       2.3     6e+03      19      29 ..     171     181 ..     171     182 .. 0.89
   3 !   24.2   0.5   8.3e-09   2.1e-05       4      58 ..     213     263 ..     211     271 .. 0.76

  Alignments for each domain:
  == domain 1  score: -4.0 bits;  conditional E-value: 5.6
                             EEEESHHHHHHHHH CS
                     KH_1 49 tisGspeavekAke 62
                             +i+G+   vekAk+
  PHY93_05070|PHY93_05070 36 EIKGNDI-VEKAKK 48
                             5889888.999986 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 2.3
                              GHHHHHHHHHH CS
                     KH_1  19 GsnIkeIreet 29 
                              G+ +++++eet
  PHY93_05070|PHY93_05070 171 GKILRRLEEET 181
                              899******98 PP

  == domain 3  score: 24.2 bits;  conditional E-value: 8.3e-09
                              EEEGGG.HHHHHHTGGGHHHHHHHHHHT-EEEEESSTT...T.-EEEEEE.SHHHHH CS
                     KH_1   4 ilvPss.lvgriIGkgGsnIkeIreetgakIkvpksedegsderevtisG.speave 58 
                              +++Ps+   gr+IG+ G+nI+  ++ +g+   ++ +     ++++v+is  +  + e
  PHY93_05070|PHY93_05070 213 VELPSDdVKGRLIGREGRNIRAFEQICGVDLIID-D-----TPEVVVISSfNVVRKE 263
                              566766578*********************9977.4.....4578888876655555 PP

>> KH_4  KH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.8   0.1       4.7   1.2e+04      10      25 ..     148     163 ..     143     168 .. 0.50
   2 !   14.6   0.0   8.6e-06     0.022      33      57 ..     213     238 ..     203     241 .. 0.80

  Alignments for each domain:
  == domain 1  score: -3.8 bits;  conditional E-value: 4.7
                     KH_4  10 alvddpeevevteeee 25 
                              ++ +++++ve t  +e
  PHY93_05070|PHY93_05070 148 QMTKEEAKVELTRAME 163
                              4444445555554433 PP

  == domain 2  score: 14.6 bits;  conditional E-value: 8.6e-06
                     KH_4  33 lnveged.lGrvIGkrGrtldAlqyl 57 
                              +++ ++d +Gr+IG++Gr+++A  ++
  PHY93_05070|PHY93_05070 213 VELPSDDvKGRLIGREGRNIRAFEQI 238
                              566566658*************8776 PP

>> UPF0154  Uncharacterised protein family (UPF0154)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.2   0.00013      0.32       2      27 ..      10      35 ..       9      43 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00013
                  UPF0154  2 vialivGlvlGffiarkymkkqlken 27
                             v++ ivG+++G+++   +++k++ke+
  PHY93_05070|PHY93_05070 10 VLFAIVGVIAGYMVKNAQVQKDIKEK 35
                             799********************997 PP

>> SID-1_RNA_chan  dsRNA-gated channel SID-1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6   4.7    0.0035         9     121     219 ..       3     103 ..       1     172 [. 0.68

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.0035
           SID-1_RNA_chan 121 vavllvllvllsfllltllvvivekvresseekrvkessssesaseslesvssavrsesessveeesdydtleeiesdknvirtkk 206
                              +av+l++++++++ +++  +v+  +v+++ +ek++k +   e+a++ +++++ + r+e ++ + ee++    e +++ ++v ++++
  PHY93_05070|PHY93_05070   3 IAVILAAVLFAIVGVIAGYMVKNAQVQKDIKEKEIKGNDIVEKAKKYADEIKYKSRQEAKEISREEKEKLDREIANRTNEVKNQER 88 
                              56777777777777777777777777777777777777777777777777776555555554444444433333333444444444 PP

           SID-1_RNA_chan 207 vlvv..sdlsrkdkr 219
                               +    + l rk++ 
  PHY93_05070|PHY93_05070  89 EIAKkeAILDRKNED 103
                              444432333333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (517 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      3203  (0.178649); expected 358.6 (0.02)
Passed bias filter:                      866  (0.0483016); expected 358.6 (0.02)
Passed Vit filter:                       133  (0.00741815); expected 17.9 (0.001)
Passed Fwd filter:                        21  (0.00117129); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.93u 0.27s 00:00:01.20 Elapsed: 00:00:00.47
# Mc/sec: 3323.72
//
Query:       PHY93_05075|PHY93_05075  [L=188]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.8e-23   83.4   0.0    2.3e-23   83.0   0.0    1.1  1  5-FTHF_cyc-lig  5-formyltetrahydrofolate cyclo-ligase family
  ------ inclusion threshold ------
       0.13   12.3   0.0       0.17   11.9   0.0    1.2  1  WYL             WYL domain


Domain annotation for each model (and alignments):
>> 5-FTHF_cyc-lig  5-formyltetrahydrofolate cyclo-ligase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   83.0   0.0   2.6e-27   2.3e-23       1     186 [.       3     179 ..       3     180 .. 0.82

  Alignments for each domain:
  == domain 1  score: 83.0 bits;  conditional E-value: 2.6e-27
                              HHHHHHHHHHHHHTS-HHHHHHHHHHHHHHHHTSHHHHH-..SEEEE----TTS---HHHHHHHHHTTEEEEEEEECSSCTEECEE CS
           5-FTHF_cyc-lig   1 KqelRkqllaalralseeevaaesealsqrieslkesqea..krvalyvsvkgeidtkelikklleegkevllPrvrlesgslkvv 84 
                              K+ lRk ++a+l++++e++ +++s  +s+++  l  s +    ++++ v  +  i +++l +  ++e+ e l+ ++ + + + +v+
  PHY93_05075|PHY93_05075   3 KEVLRKLMKAKLSLIDENSFTEKSTLISKNLAFLNSSLKViqDKISIGVFAP--IAKEPLWYLGFSEEIEKLTAYPAKGT-DNNVM 85 
                              789*********************9999999999999888655666665555..55556666666555555555555554.44777 PP

                              EEEECCCCCCCCCHCTS..SCE--TTECCBCGGGG-SEEEE--SEEETTS-EE-SSTTHHHHHHHHHTST-SS--EEEEE--GGGE CS
           5-FTHF_cyc-lig  85 rlttlkeedslesgkyg..lkePeeeeerelalekldlvlvPgvAfdkeGaRlGkGkGyyDrflarlkggagdkpltvglaldeql 168
                               +   +  d ++++ +g  ++ P+ e ++     ++ ++l+Pg+ f ++G+RlG+GkG+yD++l++++g      +++g++++eql
  PHY93_05075|PHY93_05075  86 TYRMARMSDLVIKKDFGfeILGPPLESPEV----IPGVILIPGLVFTERGERLGRGKGFYDKYLSQYHG------IKIGICFSEQL 161
                              777888888888888876578888877764....579********************************......*********** PP

                              ES-----ST----SEEE- CS
           5-FTHF_cyc-lig 169 verlPleehDvpvdevvt 186
                               +++P+e+hDv +d ++t
  PHY93_05075|PHY93_05075 162 EDSVPTEKHDVTLDYIIT 179
                              ****************99 PP

>> WYL  WYL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   1.9e-05      0.17      42     115 ..      59     170 ..      51     184 .. 0.70

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 1.9e-05
                      WYL  42 grwYLvayde...........krdeirtfrldRiselellde.........................tfeppdfdla...kylsks 88 
                                wYL + +e           + +++ t+r+ R+s+l + ++                          f++++++l     ++ k+
  PHY93_05075|PHY93_05075  59 PLWYLGFSEEiekltaypakgTDNNVMTYRMARMSDLVIKKDfgfeilgpplespevipgvilipglVFTERGERLGrgkGFYDKY 144
                              5699988766666666666656799****************977666666666666666666666664444444431443777778 PP

                      WYL  89 fgvfkspvevkvrfspeaarrvrerrf 115
                                +++  +++ + fs++ +  v+ +++
  PHY93_05075|PHY93_05075 145 LSQYH-GIKIGICFSEQLEDSVPTEKH 170
                              88888.999999999998888887655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (188 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       338  (0.0188521); expected 358.6 (0.02)
Passed bias filter:                      312  (0.017402); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1375.83
//
Query:       PHY93_05080|PHY93_05080  [L=116]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0094   16.4   0.4      0.014   15.8   0.1    1.4  2  ZapA      Cell division protein ZapA


Domain annotation for each model (and alignments):
>> ZapA  Cell division protein ZapA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0       0.6   1.1e+04       7      10 ..      31      34 ..      14      43 .. 0.56
   2 !   15.8   0.1     8e-07     0.014      28      72 ..      53      97 ..      48     113 .. 0.81

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 0.6
                     ZapA  7 grey 10
                             g+  
  PHY93_05080|PHY93_05080 31 GQKL 34
                             3322 PP

  == domain 2  score: 15.8 bits;  conditional E-value: 8e-07
                     ZapA 28 lvdekikeireaggnlseerllvmaaLnladellklkkraeelea 72
                              v++++ +i +++++ls+ +++v+ aL +a e l+l+k+ +e   
  PHY93_05080|PHY93_05080 53 FVQSEALKIINQSPQLSQPQIAVLLALKFAGEKLALEKEYRENIR 97
                             57888899999*************************999876554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (116 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       371  (0.0206927); expected 358.6 (0.02)
Passed bias filter:                      292  (0.0162865); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.41
# Mc/sec: 849.12
//
Query:       PHY93_05085|PHY93_05085  [L=380]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.9e-71  239.8   1.2    2.4e-71  239.4   1.2    1.2  1  SRP54            SRP54-type protein, GTPase domain
    6.4e-07   29.5   0.1    2.3e-06   27.7   0.0    2.1  1  SRP54_N          SRP54-type protein, helical bundle domain
    1.1e-05   25.3   0.8    1.8e-05   24.5   0.8    1.3  1  AAA_30           AAA domain
    3.9e-05   24.1   0.1    8.4e-05   23.0   0.1    1.6  1  AAA_16           AAA ATPase domain
    4.7e-05   23.5   0.0    0.00012   22.1   0.0    1.7  1  CbiA             CobQ/CobB/MinD/ParA nucleotide binding domai
    0.00025   20.1   0.2    0.00058   18.9   0.2    1.5  1  MeaB             Methylmalonyl Co-A mutase-associated GTPase 
    0.00031   20.1   0.1    0.00055   19.3   0.1    1.3  1  Zeta_toxin       Zeta toxin
     0.0015   18.6   0.8      0.015   15.4   0.8    2.2  1  MMR_HSR1         50S ribosome-binding GTPase
     0.0015   18.1   0.9     0.0024   17.5   0.9    1.3  1  cobW             CobW/HypB/UreG, nucleotide-binding domain
     0.0026   17.9   0.4     0.0047   17.1   0.4    1.5  1  AAA_33           AAA domain
     0.0028   17.9   0.0     0.0053   17.0   0.0    1.5  1  AAA_22           AAA domain
     0.0036   17.2   0.4       0.13   12.1   0.4    2.3  2  NTPase_1         NTPase
     0.0067   16.9   0.0      0.014   15.8   0.0    1.6  1  AAA_17           AAA domain
     0.0076   15.9   0.6      0.017   14.8   0.3    1.7  1  Thymidylate_kin  Thymidylate kinase
     0.0079   16.7   0.4      0.024   15.1   0.4    1.8  1  ABC_tran         ABC transporter
     0.0083   15.1   0.2      0.014   14.3   0.2    1.3  1  TrwB_AAD_bind    Type IV secretion-system coupling protein DN
  ------ inclusion threshold ------
      0.013   15.4   0.1      0.025   14.5   0.1    1.5  1  MobB             Molybdopterin guanine dinucleotide synthesis
      0.016   15.1   2.0       0.27   11.1   0.7    2.5  2  NACHT            NACHT domain
       0.02   14.1   0.1       0.03   13.6   0.1    1.2  1  DUF2075          Uncharacterized conserved protein (DUF2075)
      0.021   14.9   0.0       0.05   13.6   0.0    1.7  1  AAA_14           AAA domain
      0.026   14.4   0.3      0.061   13.2   0.1    1.7  2  APS_kinase       Adenylylsulphate kinase
      0.028   14.2   0.3       0.38   10.5   0.4    2.3  2  ATP_bind_1       Conserved hypothetical ATP binding protein
      0.038   14.3   0.4       0.25   11.7   1.0    2.0  2  AAA_19           AAA domain
       0.04   13.4   0.1      0.078   12.4   0.1    1.5  1  KdpD             Osmosensitive K+ channel His kinase sensor d
      0.066   12.9   0.2       0.14   11.8   0.2    1.6  1  Viral_helicase1  Viral (Superfamily 1) RNA helicase
      0.081   12.5   0.2        6.3    6.3   0.0    2.3  2  AAA_27           AAA domain
       0.16   11.9   3.2        1.2    9.1   2.5    2.3  1  AAA_31           AAA domain
       0.17   11.6   0.2       0.33   10.7   0.2    1.6  1  AAA_24           AAA domain
       0.31   11.3   1.3       0.63   10.3   0.8    1.9  2  AAA_28           AAA domain
       0.33   11.5   1.8       0.74   10.4   1.0    2.2  2  AAA_18           AAA domain


Domain annotation for each model (and alignments):
>> SRP54  SRP54-type protein, GTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  239.4   1.2   4.1e-74   2.4e-71       2     195 ..     181     380 .]     180     380 .] 0.99

  Alignments for each domain:
  == domain 1  score: 239.4 bits;  conditional E-value: 4.1e-74
                              EEEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEEESTSSTTHHHHHHHHHHHTTEEEEESSTTSCHHHHHHHHHHHHHHTTSSEE CS
                    SRP54   2 nvillvGlqGaGKTttlaKLaallkkegkkvllvaaDtfRaaAveQLktlaeklgvpvikkkeeadpaavakeavekakeekidvv 87 
                              +vi++vG++GaGKTtt++KLa +l+++g +v++ a+DtfRaaAv+QL+++ +++g+++i++ke+++p  v ++a+++a ++++d+ 
  PHY93_05085|PHY93_05085 181 KVIMVVGVNGAGKTTTIGKLATKLRAQGANVVVGACDTFRAAAVDQLQVWCDRAGATMIRAKEGSNPSGVGYDALQAAINQNADYC 266
                              79************************************************************************************ PP

                              EEEE--SSTTHHHHHHHHHHHHHHH......SSSEEEEEEETTBHTHHHHHHHHHHHHSSCSEEEEESTTSSSSTTHHHHHHHHHT CS
                    SRP54  88 lvDTaGrlqndkelmeelkkikkvv......kpdevllvldattgqeavkqakaFkeavgitgviltklDgdakgGaalsiaaelk 167
                              ++DTaGrl+++++lm+el k k+v+      +p+++llv+da+tgq+a++qa++F++a+++tg+i+tk+Dg++k+G+a+si+++lk
  PHY93_05085|PHY93_05085 267 ILDTAGRLHTKENLMDELVKSKNVLkkldpsAPHQILLVIDAITGQNALRQAEEFHKALDLTGLIFTKCDGSSKAGSAVSIVEQLK 352
                              ************************************************************************************** PP

                              S-EEEEE-SSSTTGEEE--HHHHHHHHH CS
                    SRP54 168 lPikfigvGekiedleefdperlvsrll 195
                              +Pi++igvGe+ edl++f+ ++++++ll
  PHY93_05085|PHY93_05085 353 IPIAYIGVGETAEDLDVFRIDDYLKALL 380
                              ***********************99986 PP

>> SRP54_N  SRP54-type protein, helical bundle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.7   0.0   3.9e-09   2.3e-06       3      73 ..      90     152 ..      88     154 .. 0.87

  Alignments for each domain:
  == domain 1  score: 27.7 bits;  conditional E-value: 3.9e-09
                              HHHHHHHHHHCCSSCGHHHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHCTTSS-HHHHHHHHHHH CS
                  SRP54_N   3 kklnsalkklsgkskideedleealkeleeaLleaDVgvkvvkklienvkkkavgekklkpkqqvkkivkd 73 
                              +kl++++++  g s +de+ +e     lee L  aD+g  +v +l+ +v k +++e +l + +++k+ ++d
  PHY93_05085|PHY93_05085  90 GKLSTLFSG--GLSILDEDKIES----LEELLYGADIGTATVAELMVEVHK-KAKEGNL-SEESFKNFLFD 152
                              689999998..88899*******....**********************88.7774545.88888888887 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.5   0.8   3.1e-08   1.8e-05      19     104 ..     181     278 ..     177     291 .. 0.69

  Alignments for each domain:
  == domain 1  score: 24.5 bits;  conditional E-value: 3.1e-08
                   AAA_30  19 rvavltGpAGtGKttalkalreaweaaggrviglA.ptgkaAkv..Laeelgieastiakllkrlk.........grarlepg.tl 91 
                              +v +++G+ G+GKtt++++l+  ++a+g +v++ A  t +aA+v  L+  ++ +++t+ +  +  +         + a+++++ + 
  PHY93_05085|PHY93_05085 181 KVIMVVGVNGAGKTTTIGKLATKLRAQGANVVVGAcDTFRAAAVdqLQVWCDRAGATMIRAKEGSNpsgvgydalQ-AAINQNaDY 265
                              58899**********************8777755515555555433555555455555444444447889898853.667777799 PP

                   AAA_30  92 livDEagmvdtkq 104
                               i D ag + tk+
  PHY93_05085|PHY93_05085 266 CILDTAGRLHTKE 278
                              9999999886654 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.0   0.1   1.4e-07   8.4e-05      25      84 ..     181     241 ..     165     330 .. 0.63

  Alignments for each domain:
  == domain 1  score: 23.0 bits;  conditional E-value: 1.4e-07
                   AAA_16  25 elvllsGesGvGKsslvrellralekdggiflrgkcdqlesaipy..sa.laqalareellrq 84 
                               +++++G  G GK++ + +l++ l+++g+ ++ g cd + +a++   ++ + + + + + +r+
  PHY93_05085|PHY93_05085 181 KVIMVVGVNGAGKTTTIGKLATKLRAQGANVVVGACDTF-RAAAVdqLQvWCDRAGA-TMIRA 241
                              789************************************.33333232225555533.33333 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.1   0.0     2e-07   0.00012       9     101 ..     190     352 ..     182     375 .. 0.81

  Alignments for each domain:
  == domain 1  score: 22.1 bits;  conditional E-value: 2e-07
                              TSSHHHHHHHHHHHHHHTT--EEEEEEEESSCCCCHHTTEB-HHHH........................................ CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx........................................ RF
                     CbiA   9 GvGKTtlaanLaralarrglrVllvDaDpqannlaileglendiep........................................ 54 
                              G+GKTt+  +La+ l  +g +V++  +D+ + ++   ++l     +                                        
  PHY93_05085|PHY93_05085 190 GAGKTTTIGKLATKLRAQGANVVVGACDTFRAAAV--DQL-----Qvwcdragatmirakegsnpsgvgydalqaainqnadycil 268
                              9****************************977754..222.....2455558888888889************************* PP

                              .........................................CCHCCCHHHHHHCHCHHHH..EEEEEEEEESS...-TTCHHHHHH CS
                              .........................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     CbiA  55 .........................................dlkrllellealgkkkalllkiagvvlnrvdgeneetllkealee 99 
                                                                       + +  l+ +e++ k     l++ g+++++ dg+    +  + +e+
  PHY93_05085|PHY93_05085 269 dtagrlhtkenlmdelvksknvlkkldpsaphqillvidaiTGQNALRQAEEFHKA----LDLTGLIFTKCDGSSKAGSAVSIVEQ 350
                              ****************************9888888877555444445555555555....99***********9888877777777 PP

                              HH CS
                              xx RF
                     CbiA 100 lk 101
                              lk
  PHY93_05085|PHY93_05085 351 LK 352
                              75 PP

>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.2   9.6e-07   0.00058      29      66 ..     180     217 ..     169     224 .. 0.92

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 9.6e-07
                              SEEEEEEE-TTSSHHHHHHHHHHHHHCTT--EEEEEE- CS
                     MeaB  29 aqvvGltGvPGaGkstlvealglelrrrGkrvavlavD 66 
                              ++v+ + Gv GaGk t++ +l+++lr++G  v v a D
  PHY93_05085|PHY93_05085 180 TKVIMVVGVNGAGKTTTIGKLATKLRAQGANVVVGACD 217
                              678999***************************99988 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.3   0.1   9.2e-07   0.00055      14      56 ..     178     221 ..     169     229 .. 0.83

  Alignments for each domain:
  == domain 1  score: 19.3 bits;  conditional E-value: 9.2e-07
               Zeta_toxin  14 erPklillgGqpGAGKselaellkdele.rqgnvvrldpDdlRe 56 
                              +  k+i+++G  GAGK++++ +l+++l+ ++ nvv+   D++R+
  PHY93_05085|PHY93_05085 178 KLTKVIMVVGVNGAGKTTTIGKLATKLRaQGANVVVGACDTFRA 221
                              556899**********************6666777777899996 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.8   2.5e-05     0.015       2      96 ..     183     320 ..     182     335 .. 0.53

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 2.5e-05
                              EEEEESTTSSHHHHHHHHHTS.TEEESSST.TSSSSEEEEEEE.ETTEE....................................E CS
                 MMR_HSR1   2 vaivGrpNvGKStLinaltge.kaivsdkp.gtTrdinegrvk.lkgke....................................i 48 
                              +++vG   +GK+t i +l  + +a+ ++   g+  + + + v+ l   +                                    +
  PHY93_05085|PHY93_05085 183 IMVVGVNGAGKTTTIGKLATKlRAQGANVVvGACDTFRAAAVDqL---QvwcdragatmirakegsnpsgvgydalqaainqnadY 265
                              799***************976555555554233333344444420...1222233333444444444444444455555555555* PP

                              EEEECGGCSS...HHHHHHHHHHHHHHHHC..T.SEEEEEEETT..TTCSHHHHHH CS
                 MMR_HSR1  49 elvDtpGlie...gaseekglgkaflalee..a.dlillvvdas..eeklkpldee 96 
                               ++Dt+G ++   +  +e   +k++l++ +  a + illv+da   ++ l++  ee
  PHY93_05085|PHY93_05085 266 CILDTAGRLHtkeNLMDELVKSKNVLKKLDpsApHQILLVIDAItgQNALRQA-EE 320
                              *******77632122222233333333333555689******66443333333.33 PP

>> cobW  CobW/HypB/UreG, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.9   4.1e-06    0.0024       2     157 ..     182     343 ..     181     353 .. 0.71

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 4.1e-06
                              EEEEEESTTCCHHHHHHHHHCT--SS-EEEEESS...-SSCHCCCCCC..HCCCT.EEEETTTTECCHCTT-HHHHHHHHHHHHTT CS
                     cobW   2 vtvltGflGsGKTtLlnhllenraglklavivNe...fgevsiDaell..retgveivelenGciCctlredllkelealeereer 82 
                              v++++G  G+GKTt + +l ++ + +   v+v+    f   ++D+  +  +++g+ ++  ++G  +  +  d+l++     +++  
  PHY93_05085|PHY93_05085 182 VIMVVGVNGAGKTTTIGKLATKLRAQGANVVVGAcdtFRAAAVDQLQVwcDRAGATMIRAKEGSNPSGVGYDALQA---AINQN-- 262
                              789*****************888888888888751124558899988865666888************88887654...45555.. PP

                              -SEEEEEECTTTTHHHHHTT....SHHHHH...CCCECEEEEEEETTTH.CCHCCHHHHHHHHHHTSSEEEEE-HHHHCHC.. CS
                     cobW  83 ldviliEttGlaePapvaft....eeelks...dltldavvavvDaknleaeeekieekaedqlaaadllvlnKtDlldee.a 157
                               d+ ++ t G ++ ++ ++     ++++ +   +     ++ v+Da    ++  +++e++++ l  +  l+++K+D  +++  
  PHY93_05085|PHY93_05085 263 ADYCILDTAGRLHTKENLMDelvkSKNVLKkldPSAPHQILLVIDAITG-QNALRQAEEFHKALDLTG-LIFTKCDGSSKAgS 343
                              79********8888887333355544444413345566789999*9444.566677777777777776.57899998888743 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.4   7.8e-06    0.0047       1      38 [.     182     224 ..     182     301 .. 0.66

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 7.8e-06
                   AAA_33   1 lvllvGlpGsGKstlaerllkklg....avll.ssdtlrrrlf 38 
                              ++++vG++G+GK+t + +l+ kl      v++ + dt+r + +
  PHY93_05085|PHY93_05085 182 VIMVVGVNGAGKTTTIGKLATKLRaqgaNVVVgACDTFRAAAV 224
                              89*****************999887776344414455444444 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.0   8.8e-06    0.0053       6      97 ..     181     306 ..     176     335 .. 0.65

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 8.8e-06
                   AAA_22   6 gilvvtGesGtGKTtllrrlleqldeeakaee.....................erpevvfvtlpsstsskdl.lrellralglelk 69 
                              ++++v+G  G+GKTt++ +l+ +l   a+ ++                      r++   + ++++++++ + + +l  a++++++
  PHY93_05085|PHY93_05085 181 KVIMVVGVNGAGKTTTIGKLATKLR--AQGANvvvgacdtfraaavdqlqvwcDRAGATMIRAKEGSNPSGVgYDALQAAINQNAD 264
                              789********************94..34444566666666666666666666666666666666666666666666666666555 PP

                   AAA_22  70 a.......erlsseellealeqalrarav.......iellii 97 
                              +       + +++e l++ l +  +  ++       + ll+i
  PHY93_05085|PHY93_05085 265 YcildtagRLHTKENLMDELVKSKNVLKKldpsaphQILLVI 306
                              566655555555555553333222222223445555455555 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.1   0.4   0.00022      0.13       2      30 ..     183     211 ..     182     223 .. 0.89
   2 ?    2.8   0.0      0.16        96      84     119 ..     250     286 ..     231     322 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00022
                              EEEE--TTSSHHHHHHHHHHHH...GGGE CS
                 NTPase_1   2 vfiTGppGvGKtTlvkkvlellkssgvkv 30 
                              +++ G  G GKtT + k++ +l+ +g +v
  PHY93_05085|PHY93_05085 183 IMVVGVNGAGKTTTIGKLATKLRAQGANV 211
                              7899********************99887 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.16
                              HHHHHHHHHH.HHH-EEEE---STTGGG-HHHHHHHH CS
                 NTPase_1  84 lalealrkal.seadviviDEiGkmElkskkfkeave 119
                              ++ +al+ a+ ++ad +++D  G++  k + + e v+
  PHY93_05085|PHY93_05085 250 VGYDALQAAInQNADYCILDTAGRLHTKENLMDELVK 286
                              6677888888799************999998888775 PP

>> AAA_17  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.0   2.3e-05     0.014       1     104 [.     186     298 ..     186     320 .. 0.75

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 2.3e-05
                              EE-TTSSHHHHHHHHHHHH....TEEEEEHHHHHHHHHHTT.TS..HSSHHHHC..TSHHHHHHHHHHHHHHHHHHHHHSSEEEEE CS
                   AAA_17   1 lGgPGsGKgtqceklveky....gfthlsaGdllreeakrg.gl..akardemr..klpleekkelqkeaaekiaeeakkkgvlvd 77 
                              +G+ G+GK+t + kl+ k+       ++ a d +r+ a ++ +   ++a   m   k+  ++     + ++++i+++   +  ++d
  PHY93_05085|PHY93_05085 186 VGVNGAGKTTTIGKLATKLraqgANVVVGACDTFRAAAVDQlQVwcDRAGATMIraKEGSNPSGVGYDALQAAINQN--ADYCILD 269
                              79****************977744667899*****999998643346666666645556666666667777777775..5689*** PP

                              E-SEEEETTEEEESSH..HHHHHHH..SE CS
                   AAA_17  78 ghprikeqagfldglp..kevleelkpda 104
                              +  r+ +++ ++d+l   k+vl++l+p+a
  PHY93_05085|PHY93_05085 270 TAGRLHTKENLMDELVksKNVLKKLDPSA 298
                              **999999999999873357788888765 PP

>> Thymidylate_kin  Thymidylate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.3   2.9e-05     0.017       3      28 ..     187     212 ..     185     215 .. 0.92

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 2.9e-05
                              ESTTSSHHHHHHHHHHHHHHTTE.EE CS
          Thymidylate_kin   3 GlDGaGKttqaellkerlkeegikvv 28 
                              G++GaGKtt + +l+ +l+++g +vv
  PHY93_05085|PHY93_05085 187 GVNGAGKTTTIGKLATKLRAQGANVV 212
                              9*********************9966 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.4     4e-05     0.024      12      43 ..     181     218 ..     176     362 .. 0.65

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 4e-05
                              SEEEEEESTTSSHHHHHHHHTTSS--SEEEE......E CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......x RF
                 ABC_tran  12 ekvaivGenGaGKStLlkllagllkpteGei......l 43 
                              +++ +vG nGaGK+t +  la +l+ +  ++      +
  PHY93_05085|PHY93_05085 181 KVIMVVGVNGAGKTTTIGKLATKLRAQGANVvvgacdT 218
                              7899***************9999998877774444441 PP

>> TrwB_AAD_bind  Type IV secretion-system coupling protein DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.3   0.2   2.3e-05     0.014      15      48 ..     180     213 ..     174     224 .. 0.91

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 2.3e-05
            TrwB_AAD_bind  15 tqhilivGttGsGKtqalekllrairargdraiv 48 
                              t+ i++vG  G+GKt+++ kl +++ra+g  ++v
  PHY93_05085|PHY93_05085 180 TKVIMVVGVNGAGKTTTIGKLATKLRAQGANVVV 213
                              67799*************************9998 PP

>> MobB  Molybdopterin guanine dinucleotide synthesis protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.1   4.1e-05     0.025       1      31 [.     182     212 ..     182     239 .. 0.92

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 4.1e-05
                     MobB   1 vlgivgksgsGKTtLleklipelkarglrvg 31 
                              v+ +vg +g+GKTt + kl ++l+a+g +v 
  PHY93_05085|PHY93_05085 182 VIMVVGVNGAGKTTTIGKLATKLRAQGANVV 212
                              6899***********************9985 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.7   0.00045      0.27       2      28 ..     182     208 ..     181     214 .. 0.89
   2 ?    2.5   0.0       0.2   1.2e+02      78      99 ..     297     318 ..     267     345 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00045
                              CEEEEC-TTTCHHHHHHHHHHHHCTS- CS
                    NACHT   2 lvilqGeaGsGKTtLlqklalawaegk 28 
                              ++++ G +G GKTt + kla++++++ 
  PHY93_05085|PHY93_05085 182 VIMVVGVNGAGKTTTIGKLATKLRAQG 208
                              799*******************98765 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.2
                              CSCCCEEEEEE-STT-SS-TCH CS
                    NACHT  78 elperlLlilDglDelvtdlgq 99 
                              + p+++Ll++D++    +  ++
  PHY93_05085|PHY93_05085 297 SAPHQILLVIDAITGQNALRQA 318
                              5699*******99777664444 PP

>> DUF2075  Uncharacterized conserved protein (DUF2075)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.1     5e-05      0.03       2     131 ..     181     307 ..     180     325 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 5e-05
                  DUF2075   2 avvlVtGvaGtGKtvvllnllaeleddeeertavylsvNhplvlvlrealakkeekkkkkeafeklssfinnlsefkkaeekkeep 87 
                              +v++V Gv G+GKt    +l+++l   + +  +v++     ++++   +l+      + ++++ + ++  n+   +++a + + ++
  PHY93_05085|PHY93_05085 181 KVIMVVGVNGAGKTTTIGKLATKL---RAQGANVVVGACDTFRAAAVDQLQVWC--DRAGATMIRAKEGSNPSGVGYDALQAAINQ 261
                              799*********************...445555555556667777777776655..788999999999999988779999****** PP

                  DUF2075  88 kedvvivDEAhrlltksdqaekqse.enqlkelmkrak.vvvalvD 131
                              ++d  i D A rl tk++   +  + +n lk+l   a   +++++D
  PHY93_05085|PHY93_05085 262 NADYCILDTAGRLHTKENLMDELVKsKNVLKKLDPSAPhQILLVID 307
                              ***************8887555544377777776665545555555 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   8.4e-05      0.05       3      90 ..     181     288 ..     179     295 .. 0.63

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 8.4e-05
                   AAA_14   3 kilvitGaRrvGKTtllkqlikellvkkesilyinldderdkkladpe.....kllelileklke.................ekkt 66 
                              k+++++G+  +GKTt + +l+ +l ++  +++  ++d+ r ++ ++ +        ++i++k  e                 ++  
  PHY93_05085|PHY93_05085 181 KVIMVVGVNGAGKTTTIGKLATKLRAQGANVVVGACDTFRAAAVDQLQvwcdrAGATMIRAK--EgsnpsgvgydalqaainQNAD 264
                              899******************99999999999999999888544433322222111222222..0112333333333344444666 PP

                   AAA_14  67 ylflDEiqevpewekalkslvdeg 90 
                              y +lD + ++ + e+ + +lv+++
  PHY93_05085|PHY93_05085 265 YCILDTAGRLHTKENLMDELVKSK 288
                              777777777666666666666655 PP

>> APS_kinase  Adenylylsulphate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0         9   5.4e+03      97     123 ..     143     170 ..     123     172 .. 0.57
   2 ?   13.2   0.1    0.0001     0.061       3      46 ..     181     224 ..     179     235 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 9
                              HCH.TEEEEEEEE--HHHHHHHTTTSHH CS
               APS_kinase  97 eea.lkfievfvdtplevceerDpkglY 123
                              ee+ ++f+  f+++ +e  +++  +glY
  PHY93_05085|PHY93_05085 143 EESfKNFLFDFLKAKMEPIQSKVDHGLY 170
                              2223455555666666666666666666 PP

  == domain 2  score: 13.2 bits;  conditional E-value: 0.0001
                              EEEEEESSTTSSHHHHHHHHHHHHHHTT--EEEEEHHHHTTTTT CS
               APS_kinase   3 vvvwltGlsgsGKstianalekkLvekgisvylLdGdnvRhgLn 46 
                               v+++ G+ g+GK+t   +l++kL+++g +v++   d+ R    
  PHY93_05085|PHY93_05085 181 KVIMVVGVNGAGKTTTIGKLATKLRAQGANVVVGACDTFRAAAV 224
                              58999***************************999999997655 PP

>> ATP_bind_1  Conserved hypothetical ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.4   0.00064      0.38       1      29 [.     185     213 ..     185     224 .. 0.92
   2 ?    1.1   0.0      0.47   2.8e+02      80     104 ..     253     276 ..     247     345 .. 0.66

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00064
               ATP_bind_1   1 vvGpaGsGKttfvgalseilelrgrsvav 29 
                              vvG+ G+GKtt +g+l+  l+++g +v v
  PHY93_05085|PHY93_05085 185 VVGVNGAGKTTTIGKLATKLRAQGANVVV 213
                              89*******************99999866 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.47
               ATP_bind_1  80 dwldeelekeeddyllfDtPGQiel 104
                              d l+ ++ ++++dy+++Dt G + +
  PHY93_05085|PHY93_05085 253 DALQAAI-NQNADYCILDTAGRLHT 276
                              5667777.67889******996543 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.0       4.6   2.8e+03      44      84 ..      67     109 ..      59     148 .. 0.66
   2 ?   11.7   1.0   0.00041      0.25      10      62 ..     180     231 ..     175     317 .. 0.62

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 4.6
                   AAA_19  44 eillvaftgrAakelrerlaalgaeatTiH..rlalldfddll 84 
                              ++++++ft r  k l+ + +++ ++ +T+   +l++ld d+++
  PHY93_05085|PHY93_05085  67 PVTVISFTDRLKKGLSRSRQEVWGKLSTLFsgGLSILDEDKIE 109
                              5778888888888888888888888777763334444444433 PP

  == domain 2  score: 11.7 bits;  conditional E-value: 0.00041
                   AAA_19  10 ekvllvtaGpGtGKTrvlkhivallvelggvkpeeillvaftgrAakelrerl 62 
                               kv++v++  G GKT+++ +  + l ++g  ++   ++ +f   A+++l+  +
  PHY93_05085|PHY93_05085 180 TKVIMVVGVNGAGKTTTIGKLATKLRAQG-ANVVVGACDTFRAAAVDQLQVWC 231
                              5899**************99998888887.33344444455555555555444 PP

>> KdpD  Osmosensitive K+ channel His kinase sensor domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   0.00013     0.078      11      51 ..     187     227 ..     179     283 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.00013
                     KdpD  11 aapGvGktyamLeeaqelkeegvdvviglvethgrketeal 51 
                               ++G+Gkt ++ + a++l+++g +vv+g+ +t + + +++l
  PHY93_05085|PHY93_05085 187 GVNGAGKTTTIGKLATKLRAQGANVVVGACDTFRAAAVDQL 227
                              478***************************99887776665 PP

>> Viral_helicase1  Viral (Superfamily 1) RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.2   0.00024      0.14       1      75 [.     183     275 ..     183     291 .. 0.64

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00024
          Viral_helicase1   1 ivvhGvpGcGKStlirkllrts..liltvnrptaelltegk..................pklpnlsvrtvdsflmalvkstkgkil 66 
                              i+v Gv G+GK+t i kl+ +      +v++ ++  +++++                  ++  n+s+ + d+++ a  +   ++++
  PHY93_05085|PHY93_05085 183 IMVVGVNGAGKTTTIGKLATKLraQGANVVVGACDTFRAAAvdqlqvwcdragatmiraKEGSNPSGVGYDALQAAINQN--ADYC 266
                              6899***************8867633333444333333333444566666666666666666666666666555555543..6666 PP

          Viral_helicase1  67 ilDEylllh 75 
                              ilD +++lh
  PHY93_05085|PHY93_05085 267 ILDTAGRLH 275
                              666666666 PP

>> AAA_27  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.1   0.0     0.052        31     128     171 ..      93     138 ..      74     168 .. 0.84
   2 ?    6.3   0.0     0.011       6.3      26      43 ..     180     197 ..     169     204 .. 0.82

  Alignments for each domain:
  == domain 1  score: 4.1 bits;  conditional E-value: 0.052
                   AAA_27 128 erLreGGealleae..gelgqlLfeasaGlaslrevleaLeaeade 171
                               +L +GG ++l+++  + l +lL+ a  G+a+++e++ +++++a+e
  PHY93_05085|PHY93_05085  93 STLFSGGLSILDEDkiESLEELLYGADIGTATVAELMVEVHKKAKE 138
                              57999******987346899********************999987 PP

  == domain 2  score: 6.3 bits;  conditional E-value: 0.011
                   AAA_27  26 adlhliyGpNEAGKstal 43 
                              +++ +++G N AGK+t++
  PHY93_05085|PHY93_05085 180 TKVIMVVGVNGAGKTTTI 197
                              56789***********97 PP

>> AAA_31  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   2.5     0.002       1.2       2      46 ..     181     224 ..     180     294 .. 0.69

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.002
                   AAA_31   2 kvIaianqKGGvGKTTtsvnlaaalaklgkkvLlvDlDpQanatt 46 
                              kvI ++    G GKTTt  +la  l  +g  v +  +D+  +a++
  PHY93_05085|PHY93_05085 181 KVIMVVGVN-GAGKTTTIGKLATKLRAQGANVVVGACDTFRAAAV 224
                              666666665.79*********************998888766665 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.2   0.00055      0.33       3      33 ..     181     218 ..     179     293 .. 0.67

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00055
                   AAA_24   3 lkiliyGpsgiGKTtlakel.......gpkplfidtek 33 
                              + i+++G +g+GKTt++ +l       g ++++  ++ 
  PHY93_05085|PHY93_05085 181 KVIMVVGVNGAGKTTTIGKLatklraqGANVVVGACDT 218
                              679*************9999776676666666554444 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0       8.9   5.3e+03      22      42 ..     119     140 ..     109     165 .. 0.60
   2 ?   10.3   0.8    0.0011      0.63       2      27 ..     183     212 ..     182     272 .. 0.74

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 8.9
                   AAA_28  22 r.gypvvpEaareileeklakg 42 
                              + g+ +v+E + e+ ++  + +
  PHY93_05085|PHY93_05085 119 DiGTATVAELMVEVHKKAKEGN 140
                              2488888888888875544333 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 0.0011
                   AAA_28   2 ivitGgestGKTtlleaLa....argypvv 27 
                              i+++G  ++GKTt++ +La    a+g +vv
  PHY93_05085|PHY93_05085 183 IMVVGVNGAGKTTTIGKLAtklrAQGANVV 212
                              7899***************55444477776 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0       7.4   4.4e+03      27      87 ..     131     159 ..     109     176 .. 0.55
   2 ?   10.4   1.0    0.0012      0.74       1      22 [.     183     204 ..     183     322 .. 0.90

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 7.4
                   AAA_18  27 nlrdvakenglllevdpealdeskrldedkldklldaleenssaleegknlvidghlaele 87 
                              ++ + ake++l++e +++                                 ++d + a++e
  PHY93_05085|PHY93_05085 131 EVHKKAKEGNLSEESFKN--------------------------------FLFDFLKAKME 159
                              333444444444444444................................44444444443 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 0.0012
                   AAA_18   1 IlltGtpGvGKttlakeLskrl 22 
                              I++ G+ G+GKtt    L+ +l
  PHY93_05085|PHY93_05085 183 IMVVGVNGAGKTTTIGKLATKL 204
                              89****************9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (380 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       869  (0.048469); expected 358.6 (0.02)
Passed bias filter:                      762  (0.042501); expected 358.6 (0.02)
Passed Vit filter:                       136  (0.00758548); expected 17.9 (0.001)
Passed Fwd filter:                        30  (0.00167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              30  [number of targets reported over threshold]
# CPU time: 0.69u 0.28s 00:00:00.97 Elapsed: 00:00:00.45
# Mc/sec: 2540.36
//
Query:       PHY93_05090|PHY93_05090  [L=327]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    9.8e-39  133.3   0.3    1.3e-38  132.9   0.3    1.0  1  tRNA-synt_2  tRNA synthetases class II (D, K and N)


Domain annotation for each model (and alignments):
>> tRNA-synt_2  tRNA synthetases class II (D, K and N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  132.9   0.3   7.1e-43   1.3e-38      19     303 ..       9     325 ..       2     325 .. 0.85

  Alignments for each domain:
  == domain 1  score: 132.9 bits;  conditional E-value: 7.1e-43
                              HHHHHHHHHHHHHHHHHHHHTT-EE----SEESS-.-SSSS--EEEEETTT.T...EEE-E-S-SHHHHHHHHHCTHSEEEEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              tRNA-synt_2  19 skvlrlrstvtkavrkyleengfieietPiLsksd.teegarlFkvksrekek...effaLtqspqlylellivagidrvfqiara 100
                              ++ l+++  ++ a+r+++++n+f+++ tP ++k+  +e    +F+v           ++ L+ sp+++ + l++ g+++ f+i+ +
  PHY93_05090|PHY93_05090   9 KNKLKAQFDLLWAIRTFFQQNNFLDVMTPPMVKNPgMETHIHPFQVIRARS-AaltPWY-LQTSPEFHMKELLSLGFNDLFTINYS 92 
                              57789999999********************9998567889*****54444.4254666.*************999********** PP

                              E--S--BTTB-S-CEEEEEEEEET-SCHHHHHHHHHHHHHHHHHHHHCSCCCCCHTTTTTSEE-SSS-EEEEHHHHHHHHHTS-SS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              tRNA-synt_2 101 FRaEdsrtdrhlaEFtqieaemsfieeedimqvleelikslvkevlessakdiefvirrnskdlkkpfkrltykeaieklneigkd 186
                              FR+E + t + + +F ++e +   + + +im+  e+l+   ++++ e++++ i+ ++++   +++++ ++  + e +++  +i + 
  PHY93_05090|PHY93_05090  93 FRDEPVATAHRP-QFLMLEWYRRNAHYTQIMKDCEDLFAFSLDQL-EQKQNSIDLNMKNI--KFERSSIQDLFLEMLNI--DILDF 172
                              ************.********************************.77766665554442..45555444445555555..55677 PP

                              --HHHHHHHHH................................HS--SEEEEEEEBGGGSTTCBBBSTTSTTBBSEEEEEETTEEE CS
                              xxxxxxxxxxx................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              tRNA-synt_2 187 ldkaderalvk................................keknepvfvtdfPaelkpFyarkeeddkkltesyDllingvEl 240
                              ld++d++ l++                                  ++ ++++++fP  l+ + + k++d +++ e+++++++g+El
  PHY93_05090|PHY93_05090 173 LDTKDLKELIEknfkdvplpsmgevlswddyyfllflnkiephLIHHPFLLLYEFPHHLSALSTLKKDD-PRVCERFEIYCKGIEL 257
                              8999999999999999*************************95556677889***********999999.9*************** PP

                              EEEEEB--SHHHHHHHHHHCCHHSSSGGGGH.....HHHHHHHCT--SEEEEEEEHHHHHHHHCT-SS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              tRNA-synt_2 241 vgGslRiedpeeleeklkskgldeeaeekfs.....wylealeyGapphgGlglGldRlvmlllgses 303
                              ++   ++ d   ++e+++ +  d++a  +++      + ea+e G+p  +G++lG++R++ +l+ +e+
  PHY93_05090|PHY93_05090 258 CNCFNELTDLPTQKERFRIQAEDKKALYHYElpeptVLYEAMERGLPRSAGIALGVERFLKVLTSAEN 325
                              ***********************5554444322222689************************99875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (327 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       644  (0.0359195); expected 358.6 (0.02)
Passed bias filter:                      473  (0.0263818); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.42
# Mc/sec: 2362.62
//
Query:       PHY93_05095|PHY93_05095  [L=268]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.064   13.6   0.2       0.74   10.1   0.2    2.3  1  Peptidase_C10  Peptidase C10 family


Domain annotation for each model (and alignments):
>> Peptidase_C10  Peptidase C10 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.2   4.1e-05      0.74      57      93 ..      90     129 ..      66     246 .. 0.71

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 4.1e-05
                              E-GGG-B--TTTS-SB--S-.S-HHHHHHHHHHHHHH..H CS
            Peptidase_C10  57 adlseesldwdnmkesydks.ateeqanavakLmrdv..G 93 
                              +  +e+++ ++ +ke y+ + +t+ + ++vakLm+ +  G
  PHY93_05095|PHY93_05095  90 KPEQEAKYHYAYIKEIYEATrQTKPNDDEVAKLMNILsqG 129
                              3334559*******9999888999999*******988553 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (268 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       787  (0.0438954); expected 358.6 (0.02)
Passed bias filter:                      567  (0.0316247); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.41
# Mc/sec: 1963.27
//
Query:       PHY93_17385|PHY93_17385  [L=454]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.6e-22   79.3   0.5    7.3e-22   78.3   0.2    1.7  2  Mur_ligase_M    Mur ligase middle domain
     0.0043   16.4   0.0     0.0077   15.5   0.0    1.4  1  AlaDh_PNT_C     Alanine dehydrogenase/PNT, C-terminal domain
  ------ inclusion threshold ------
      0.015   14.7   0.0      0.029   13.8   0.0    1.4  1  2-Hacid_dh_C    D-isomer specific 2-hydroxyacid dehydrogenase
       0.18   11.2   0.2       0.29   10.5   0.2    1.2  1  Glycoprotein_B  Herpesvirus Glycoprotein B ectodomain


Domain annotation for each model (and alignments):
>> Mur_ligase_M  Mur ligase middle domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.7   0.0       2.3     1e+04     101     113 ..       8      20 ..       3      43 .. 0.52
   2 !   78.3   0.2   1.6e-25   7.3e-22       1     142 [.     129     264 ..     129     291 .. 0.87

  Alignments for each domain:
  == domain 1  score: -3.7 bits;  conditional E-value: 2.3
                              HHHTSETTCEEEE CS
             Mur_ligase_M 101 lferlkeegiavi 113
                              l++ +k+++iav 
  PHY93_17385|PHY93_17385   8 LINFVKNKKIAVF 20 
                              4444444433332 PP

  == domain 2  score: 78.3 bits;  conditional E-value: 1.6e-25
                              EESSS-HHHHHHHHHHHHHCTEEEEETTCSS-THHHHHHHHHHHHH....TT-SEEEEE--HCHHHC.TTTCCHCBESEEEE---T CS
             Mur_ligase_M   1 vTGtnGKTTtteliaailekagkvigtvgttnneiglpktlaemek....keaeyavlEvsshglge.krlegllkpdvavitnis 81 
                              +TGtnGKTTtt+++ ++++   k++++ g+    ig+p + + ++     + a+++ lE+ss    + + ++  + +++a+i+n+ 
  PHY93_17385|PHY93_17385 129 ITGTNGKTTTTTFLGEMIKLDHKKVFVGGN----IGVPFCDYAFDVysniEPADFILLELSSF---QlESIDH-FHVNIAMILNLY 206
                              8****************************9....9999888777766677799**********...3356666.999********* PP

                              STTHHHHSSHHHHHHHHHHHHHTSETTCEEEEETTSC...CHHHHHCTCCTCEEEEESSST CS
             Mur_ligase_M  82 pdHldfhgtlenyaeaKaelferlkeegiavinaddpyakelikklkkakvkvvtfgleke 142
                              ++H +++ t+e+y ++K ++++r+++++++++  d     ++++++kk+k k+ t+ ++  
  PHY93_17385|PHY93_17385 207 QNHGERYTTIEDYGQSKFNITNRFTDNDCLIYPEDFS---FVAEWAKKQKGKKKTVNTQHP 264
                              *********************************9999...777777777777777666655 PP

>> AlaDh_PNT_C  Alanine dehydrogenase/PNT, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   1.7e-06    0.0077      26      59 ..      12      45 ..       7      90 .. 0.79

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.7e-06
                             B---EEEEESTSHHHHHHHHHHHHTT-EEEEEES CS
              AlaDh_PNT_C 26 vepakvlviGgGvaGlqAiatakglgakVtvlDv 59
                             v++ k+ v+G Gv Gl+Ai+  ++l+ak+ +++ 
  PHY93_17385|PHY93_17385 12 VKNKKIAVFGMGVSGLSAIRFLHALEAKIIAINS 45
                             67899************************99876 PP

>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   6.4e-06     0.029      30      70 ..       8      48 ..       2      71 .. 0.74

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 6.4e-06
                             SBS-GTTSEEEEES-SHHHHHHHHHHHHTT-EEEEESSSHH CS
             2-Hacid_dh_C 30 lgkelsgktvGiiGlGrIGqavakrlkafgmkviaydrskk 70
                             l++ +++k+++++G+G  G ++++ l+a+++k+ia++  + 
  PHY93_17385|PHY93_17385  8 LINFVKNKKIAVFGMGVSGLSAIRFLHALEAKIIAINSGEI 48
                             566689*****************************998755 PP

>> Glycoprotein_B  Herpesvirus Glycoprotein B ectodomain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.2   6.5e-05      0.29     108     203 ..     120     219 ..     110     232 .. 0.72

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 6.5e-05
                              -----EEEEEE-TTSEEE-------------EEEEEETTEEEEEETTEEEEEEETTTS---.----------------...----S CS
           Glycoprotein_B 108 vnssklveGqLGedneillgrelveeCkassrkyflagneallyedYkfvktveledietl.dtfieLnltlledidf...kvlel 189
                              +n+ + + G  G++    +++ l e  k  ++k+f+ gn  + + dY+f    ++e  + +   + + +l+ ++   +   + l+l
  PHY93_17385|PHY93_17385 120 TNQLRPIIGITGTNGKTTTTTFLGEMIKLDHKKVFVGGNIGVPFCDYAFDVYSNIEPADFIlLELSSFQLESIDHFHVniaMILNL 205
                              4455557899999999999******************************8777776665542333334444444333222256888 PP

                              S-HHHHHTT-SS-H CS
           Glycoprotein_B 190 Ysreelrdsnvldl 203
                              Y ++  r +++ d+
  PHY93_17385|PHY93_17385 206 YQNHGERYTTIEDY 219
                              88888888887776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (454 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       437  (0.0243739); expected 358.6 (0.02)
Passed bias filter:                      394  (0.0219756); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.57u 0.23s 00:00:00.80 Elapsed: 00:00:00.42
# Mc/sec: 3214.12
//
Query:       PHY93_05100|PHY93_05100  [L=66]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00025   21.0   0.1    0.00029   20.8   0.1    1.1  1  HisKA     His Kinase A (phospho-acceptor) domain
  ------ inclusion threshold ------
      0.095   12.5   0.0        0.1   12.4   0.0    1.1  1  DUF1495   Winged helix DNA-binding domain (DUF1495)


Domain annotation for each model (and alignments):
>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.8   0.1   3.2e-08   0.00029       8      51 ..      14      58 ..       8      65 .. 0.80

  Alignments for each domain:
  == domain 1  score: 20.8 bits;  conditional E-value: 3.2e-08
                             HHHHHHHHHHHHHHHHHHHHHC...T-HSSCHHHHHHHHHHHHHH CS
                    HisKA  8 gvaHELrtPLsailgnaeaLkre.gklteelkeyletiesearrl 51
                              + H+++  Lsa++g++e++k+e  +++e +++ l   ++ +++l
  PHY93_05100|PHY93_05100 14 VLVHDINSSLSALQGALEVMKDEwRSNPELVERILPLTVEKINQL 58
                             689******************998666688888888777777776 PP

>> DUF1495  Winged helix DNA-binding domain (DUF1495)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   1.2e-05       0.1      21      63 ..       5      47 ..       2      62 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 1.2e-05
                  DUF1495 21 iypeksnlqeisrrvrskpsnvkGaleGmgkrynsessLielG 63
                             iy++   +q + ++++s+ s ++Gale m+ ++ s+  L+e+ 
  PHY93_05100|PHY93_05100  5 IYEKDLSAQVLVHDINSSLSALQGALEVMKDEWRSNPELVERI 47
                             6888889999**************************9999975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (66 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       398  (0.0221987); expected 358.6 (0.02)
Passed bias filter:                      305  (0.0170115); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.39u 0.22s 00:00:00.61 Elapsed: 00:00:00.40
# Mc/sec: 498.11
//
Query:       PHY93_05105|PHY93_05105  [L=450]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.9e-58  195.6   0.8    6.4e-58  195.2   0.2    1.5  1  Sigma54_activat  Sigma-54 interaction domain
    2.8e-18   66.4   0.0    1.3e-17   64.2   0.0    2.1  1  Sigma54_activ_2  Sigma-54 interaction domain
    7.4e-15   55.1   0.0    1.6e-14   54.0   0.0    1.6  1  Response_reg     Response regulator receiver domain
    3.1e-07   30.5   0.0    7.2e-07   29.3   0.0    1.6  1  AAA_5            AAA domain (dynein-related subfamily)
    5.9e-07   30.0   1.1    4.2e-06   27.2   0.3    2.4  2  AAA              ATPase family associated with various cellul
    1.2e-06   28.0   0.1    1.8e-05   24.2   0.1    2.2  1  Mg_chelatase     Magnesium chelatase, subunit ChlI
    0.00013   22.0   0.7     0.0048   16.9   0.0    3.2  2  AAA_14           AAA domain
    0.00032   19.9   0.0     0.0017   17.5   0.0    2.0  1  MCM              MCM P-loop domain
    0.00038   20.8   0.0      0.011   16.1   0.0    2.6  2  AAA_22           AAA domain
    0.00039   20.8   0.1    0.00098   19.5   0.1    1.9  1  AAA_16           AAA ATPase domain
     0.0006   20.0   0.0     0.0026   17.9   0.0    2.0  2  AAA_2            AAA domain (Cdc48 subfamily)
    0.00074   18.8   0.0      0.012   14.8   0.0    2.2  2  TIP49            TIP49 P-loop domain
     0.0015   18.5   0.0     0.0035   17.3   0.0    1.7  1  NACHT            NACHT domain
     0.0037   17.6   0.0     0.0092   16.3   0.0    1.7  1  FleQ             Flagellar regulatory protein FleQ
     0.0051   16.7   0.0       0.19   11.6   0.0    2.3  2  Helicase_RecD    Helicase
     0.0052   16.3   0.0     0.0091   15.5   0.0    1.4  1  AAA_7            P-loop containing dynein motor region
     0.0057   16.0   1.0      0.018   14.4   0.0    2.2  3  ATPase           KaiC
  ------ inclusion threshold ------
      0.019   15.6   3.2       0.28   11.8   0.2    3.4  2  UAE_UbL          Ubiquitin/SUMO-activating enzyme ubiquitin-l
      0.046   14.1   0.0       0.15   12.5   0.0    1.9  1  Acylphosphatase  Acylphosphatase
       0.05   13.9   0.0       0.45   10.9   0.0    2.3  1  AAA_19           AAA domain
      0.064   13.0   0.0       0.13   11.9   0.0    1.5  1  AAA_30           AAA domain
      0.084   12.6   0.0        3.3    7.4   0.0    2.6  2  RuvB_N           Holliday junction DNA helicase RuvB P-loop d
       0.11   11.9   0.0       0.31   10.5   0.0    1.7  2  PhoH             PhoH-like protein
       0.12   11.4   0.0       0.38    9.8   0.0    1.8  2  T2SSE            Type II/IV secretion system protein
       0.13   12.0   0.1       0.49   10.1   0.1    2.0  1  IstB_IS21        IstB-like ATP binding protein
       0.14   12.3   0.0        0.5   10.5   0.0    1.9  1  Torsin           Torsin
       0.14   11.3   0.0       0.26   10.5   0.0    1.4  1  DUF2075          Uncharacterized conserved protein (DUF2075)
       0.15   12.1   0.0       0.85    9.7   0.0    2.5  2  CbiA             CobQ/CobB/MinD/ParA nucleotide binding domai
       0.15   12.6   0.3       0.15   12.6   0.3    2.5  2  Mga              Mga helix-turn-helix domain
       0.16   12.3   0.0       0.38   11.2   0.0    1.6  1  RNA_helicase     RNA helicase


Domain annotation for each model (and alignments):
>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  195.2   0.2   1.1e-60   6.4e-58       4     167 ..     141     307 ..     138     308 .. 0.96

  Alignments for each domain:
  == domain 1  score: 195.2 bits;  conditional E-value: 1.1e-60
                              -SHHHHHHHHHHHHHCTSSS-EEEECSTTSSHHHHHHHHHHHSTT...TTS-EEEEETTTS-TTCHHHHHHEBSSSSSTTTSS-BE CS
          Sigma54_activat   4 esealkelleqikkvaktdlsvlitGesGtGKellaraiheaskr...kekpfvavncaaipeelleseLFGhekGaFtGAekekk 86 
                              ++++l + le i+++   + +++i GesGtGK++la+ ih+ s+r   k++ fv++nca+i+e+l+eseLFG+ekGaFtGA+++kk
  PHY93_05105|PHY93_05105 141 DDASLVKELEIIDQALLGQRPIFISGESGTGKTFLAKFIHQLSERvlgKKSAFVHLNCAEISESLIESELFGYEKGAFTGAQRSKK 226
                              56788899999******************************9999777899*********************************** PP

                              HHHHHTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEESBTSSSEEE--EEEEEEESS-HHHHHHTTSS-HHHHHHHTSEEE CS
          Sigma54_activat  87 GlfekadgGtlfLDeigelplelQekLlrvlqegevervGsskeikvdvriiaatnedleeaveegkfredLyyrlnviei 167
                              G++e adgG+lfLDei+++p+++Q+kLl++++e+++ ++Gs+k+i+ d+r+i+at edl++++e+g+fr+d+++r++ +++
  PHY93_05105|PHY93_05105 227 GMLELADGGILFLDEIATMPISIQKKLLKAIEEKSFFPLGSEKSIHSDFRLISATCEDLKTKIEKGEFRADFFFRIEGFNV 307
                              ****************************************************************************98876 PP

>> Sigma54_activ_2  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.2   0.0   2.2e-20   1.3e-17      14     137 ..     152     311 ..     143     312 .. 0.86

  Alignments for each domain:
  == domain 1  score: 64.2 bits;  conditional E-value: 2.2e-20
                              HHHHHT-SS-EEEEEETT--HHHHHHCC--TTS-EE...--SSTTHHHH-H.......................HHHHHHTTTSEE CS
          Sigma54_activ_2  14 LeqaaqsklpvfltGekGsgkelvArlLhknsgpwl...eifvverlaklp.......................ldlleqakggtL 73 
                              ++qa   + p+f+ Ge G+gk++ A+++h+ s+++l   + fv  ++a++                        + +le a+gg+L
  PHY93_05105|PHY93_05105 152 IDQALLGQRPIFISGESGTGKTFLAKFIHQLSERVLgkkSAFVHLNCAEISeslieselfgyekgaftgaqrskKGMLELADGGIL 237
                              566667889***********************997522245555566654477889999999999999999999999999****** PP

                              EEEE-TT--HHHHHHHHHHHHH..........HTTTT-EEEEEEEE-TTT..----HHHHHHHHSSSEEEEE-- CS
          Sigma54_activ_2  74 ylkdiadlskaeqkeLlellak..........aeksslrlVstsskdleqlleagafdekLlkeLselrlhvPp 137
                              +l +ia ++ + qk+Ll+++++          + +s+ rl+s++++dl+ ++e+g+f +  ++++  + + + +
  PHY93_05105|PHY93_05105 238 FLDEIATMPISIQKKLLKAIEEksffplgsekSIHSDFRLISATCEDLKTKIEKGEFRADFFFRIEGFNVTLKS 311
                              *****************************8753389****************************9999887755 PP

>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.0   0.0   2.7e-17   1.6e-14       1     108 [.      11     115 ..      11     119 .. 0.95

  Alignments for each domain:
  == domain 1  score: 54.0 bits;  conditional E-value: 2.7e-17
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSS.SEHHHHHHHHHHCTTTSEEEEEESSTSHHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpg.mdGlellkeireedpelpviiltahseeed 85 
                              +liv+Dd l r  l++ l+ +g   v+ea++ +ea+ l+ ++++dl ++D++++  + Gl+++  +++++  +  ++l+++ +e +
  PHY93_05105|PHY93_05105  11 ILIVEDDLLSRLSLKSRLDFRGE--VREASSKEEAISLIGNNQFDLAFVDLDLESqLAGLDIVALLNDKK--TYTVVLSGRVDERV 92 
                              8******************7776..****************************9989*********9977..999*********** PP

                              HHHHHHCTESEEEESSG-HHHHH CS
             Response_reg  86 avealkagaddflsKpfdpeeLl 108
                              +++a+ +g  d+l+Kpf+++ L 
  PHY93_05105|PHY93_05105  93 IENAYHLGCRDYLAKPFTKTSLE 115
                              *****************998875 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.3   0.0   1.2e-09   7.2e-07       2     117 ..     162     278 ..     161     299 .. 0.76

  Alignments for each domain:
  == domain 1  score: 29.3 bits;  conditional E-value: 1.2e-09
                              EEEE--SSSSHHHHHHHGGGGB.....S--EEEEE--TT--HHHHH--B--.........--------.........G-SEEEEES CS
                    AAA_5   2 vlLvGppGtgKselaerlaaal.....nreveyvqltrdtteedlkgrreikngttslvdsplvraar.........egeilvlDE 73 
                              +++ G++GtgK++la+ + ++      +++ ++ ++ + ++e+ +  ++        +++++++ a r          g il+lDE
  PHY93_05105|PHY93_05105 162 IFISGESGTGKTFLAKFIHQLServlgKKSAFVHLNCAEISESLIESELF------GYEKGAFTGAQRskkgmlelaDGGILFLDE 241
                              7899**********986655555559777777777777777766666655......467777776666777777888********* PP

                              GGG--HHHHHHHHHHHHSSEEE..-SSSEEE---......-EEE CS
                    AAA_5  74 veraesevlnsLlslleerrllleeggelvkaknddllerfrvi 117
                              + +++ +++++Ll+ +ee+ +   ++g + +  +d     fr+i
  PHY93_05105|PHY93_05105 242 IATMPISIQKKLLKAIEEKSFF--PLGSEKSIHSD-----FRLI 278
                              *******************998..55555555554.....6666 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.2   0.3   7.1e-09   4.2e-06       2     109 ..     163     281 ..     162     303 .. 0.71
   2 ?    1.5   0.1      0.62   3.7e+02      19      73 ..     282     345 ..     276     365 .. 0.69

  Alignments for each domain:
  == domain 1  score: 27.2 bits;  conditional E-value: 7.1e-09
                              EEESSTTSSHHHHHHHHHHHH......THEEEEEETTTCSSS.....STTHHHHHHHHHHHHHHHTS.......TSEEEEEETGGG CS
                      AAA   2 llyGppGtGKTllakavakel......gvefleisgsellsk.....yvgesekkirelfkeakeka.......kpsilfiDEida 69 
                               ++G  GtGKT lak + + +      ++ f+ ++++e+ ++     +        ++ f+ a++++       +  ilf+DEi  
  PHY93_05105|PHY93_05105 163 FISGESGTGKTFLAKFIHQLServlgkKSAFVHLNCAEISESlieseL----FGYEKGAFTGAQRSKkgmlelaDGGILFLDEIAT 244
                              579***************997555565699999999999966444443....3344445555544444556875559*******99 PP

                              HHHHHTTCCCHHHHHHHHHHHHHHHHTTTS........SSTEEEEEEE CS
                      AAA  70 laksrsgseseeeervvnqLlteldgvkkk........eskvivigat 109
                              +   +          ++++Ll+++++ +          +s++ +i at
  PHY93_05105|PHY93_05105 245 MP-IS----------IQKKLLKAIEEKSFFplgseksiHSDFRLISAT 281
                              94.44..........599999999988776777777776667777666 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.62
                              HHHHTHE..........EEEEETTTCSSSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGHHHH CS
                      AAA  19 akelgve..........fleisgsellskyvgesekkirelfkeakekakpsilfiDEidalaks 73 
                              +++l+++          f++i+g +++ k + ++++++++l++   +k     +++D   +l+ s
  PHY93_05105|PHY93_05105 282 CEDLKTKiekgefradfFFRIEGFNVTLKSLRARKEDLNKLIQFFIKKG-ERLIVFDSSAKLIMS 345
                              555543333444445558999**999999999**********9954444.478888866666555 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.2   0.1     3e-08   1.8e-05      16     134 ..     153     261 ..     141     282 .. 0.78

  Alignments for each domain:
  == domain 1  score: 24.2 bits;  conditional E-value: 3e-08
             Mg_chelatase  16 eiaaaGgHnlllvGppGsGKtmlakrlpsllpplseeealevakiasvagkkeeekllkrrpfraphhsaskaalvGggskpkpGe 101
                              + a  G+  +++ G +G+GKt lak +++l  ++  ++    ++   ++ ++ +e+l+++  f        k a+  g ++ k+G 
  PHY93_05105|PHY93_05105 153 DQALLGQRPIFISGESGTGKTFLAKFIHQLSERVLGKK----SAFVHLNCAEISESLIESELFGYE-----KGAFT-GAQRSKKGM 228
                              45788999*****************9998766555444....344445555677788888888654.....44555.5678899** PP

             Mg_chelatase 102 islahnGvLfLDElpefkrkvlevLRePledge 134
                              + la  G+LfLDE++ +  ++ + L + +e+++
  PHY93_05105|PHY93_05105 229 LELADGGILFLDEIATMPISIQKKLLKAIEEKS 261
                              **********************99999999876 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0   8.1e-06    0.0048       3      77 ..     160     274 ..     158     366 .. 0.61
   2 ?    0.7   0.2      0.85   5.1e+02      20      50 ..     401     428 ..     396     447 .. 0.61

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 8.1e-06
                   AAA_14   3 kilvitGaRrvGKTtllkqlikell....vkkesilyinldderd.........kkladpe........kllelileklke..... 62 
                              ++++i+G   +GKT+l+ ++i++l      kk+ ++ +n+ + ++         +     e        +          +     
  PHY93_05105|PHY93_05105 160 RPIFISGESGTGKTFLA-KFIHQLServlGKKSAFVHLNCAEISEslieselfgY-----EkgaftgaqRS---------Kkgmle 230
                              7899************6.6776666788889999999999998884433333221.....12212122222.........134455 PP

                   AAA_14  63 .ekktylflDEiqev............................p 77 
                                +  +lflDEi  +                            +
  PHY93_05105|PHY93_05105 231 lADGGILFLDEIATMpisiqkkllkaieeksffplgseksihsD 274
                              567889*******9954444444444444444444444444440 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.85
                   AAA_14  20 kqlikellvkkesilyinldderdkkladpe 50 
                              k +i++l     +il i+l++++dk +++ +
  PHY93_05105|PHY93_05105 401 KSYIENLE---TNILKIALETNEDKVRKTLS 428
                              55565544...99999999999997655432 PP

>> MCM  MCM P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.0   2.8e-06    0.0017      54     148 ..     156     260 ..     142     262 .. 0.71

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 2.8e-06
                              BCSS-EEEEEESSTSTHHHHHHHHHHHSSSEEEEESSSSSSSHS.SSEEEEESSSSS............EEEEETHHHHTTTSEEE CS
                      MCM  54 lrgdinvllvgdpgtaKsqlLkyveklapravytsgkgssaagL.taavvrdeetge............fvleaGalvladkGvcc 126
                              l g+  + + g++gt+K+ l k++++l++r     gk+s  + L  a ++ +  ++e               + G l lad+G++ 
  PHY93_05105|PHY93_05105 156 LLGQRPIFISGESGTGKTFLAKFIHQLSERV---LGKKSAFVHLnCAEISESLIESElfgyekgaftgaQRSKKGMLELADGGILF 238
                              6677889999***************988874...45666666663333333333333322222221111556778899******** PP

                              EESGGGSTCHHHHHHHHHHHHS CS
                      MCM 127 iDefdkmkeedrsalhEamEqq 148
                              +De+  m  + +++l+ a+E++
  PHY93_05105|PHY93_05105 239 LDEIATMPISIQKKLLKAIEEK 260
                              ********************86 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   1.8e-05     0.011       5      31 ..     159     185 ..     156     214 .. 0.77
   2 ?    1.8   0.0      0.44   2.6e+02      45     112 ..     280     356 ..     234     408 .. 0.65

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 1.8e-05
                   AAA_22   5 agilvvtGesGtGKTtllrrlleqlde 31 
                              ++ +++ GesGtGKT+l++ +++  ++
  PHY93_05105|PHY93_05105 159 QRPIFISGESGTGKTFLAKFIHQLSER 185
                              77899*************999887643 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.44
                   AAA_22  45 vtlpsst...sskdllrellralglelka...erlsseellealeqalraravielliiDEaqhlr.s....eealeeL 112
                               t+  ++   +  +++ +++  ++  + +    r+++e+l ++++  +++  +  l++ D   +l+ s    + +++eL
  PHY93_05105|PHY93_05105 280 ATCEDLKtkiEKGEFRADFFFRIEGFNVTlksLRARKEDLNKLIQFFIKKGER--LIVFDSSAKLImSeyswPGNVREL 356
                              44444444444444444444444433333444556666666666666666655..777776666655223343333333 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.5   0.1   1.6e-06   0.00098      18      82 ..     154     211 ..     146     338 .. 0.75

  Alignments for each domain:
  == domain 1  score: 19.5 bits;  conditional E-value: 1.6e-06
                   AAA_16  18 rvrsgrpelvllsGesGvGKsslvrellralekdggiflrgkcdqlesaipy..salaqalareell 82 
                              ++  g+ + +++sGesG+GK+ l++ ++ +l+++    + gk   +   +++  + + + l ++el+
  PHY93_05105|PHY93_05105 154 QALLGQ-RPIFISGESGTGKTFLAKFIH-QLSER----VLGKKSAF---VHLncAEISESLIESELF 211
                              455565.889**************8888.78888....55555444...332222233333344554 PP

>> AAA_2  AAA domain (Cdc48 subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.9   0.0   4.4e-06    0.0026       6     104 ..     162     258 ..     159     281 .. 0.78
   2 ?   -1.6   0.0       4.3   2.6e+03      29      67 ..     327     374 ..     306     375 .. 0.63

  Alignments for each domain:
  == domain 1  score: 17.9 bits;  conditional E-value: 4.4e-06
                              EEEE--TTSSHHHHHHHHHHHTT-......-EEEEEGGG---.......----THHHHHHHHHTTT-HHHHTTSEEEEETGGG--- CS
                    AAA_2   6 illlgptgvGktelakalaellfv..kkekkliradaselle.......eeevehlvsrligappgyvgaeegGivllDEidKihp 82 
                              i + g++g+Gkt+lak + +l +   +k+++++ +++ e+ e           +   +  + +++g+ + ++gGi++lDEi     
  PHY93_05105|PHY93_05105 162 IFISGESGTGKTFLAKFIHQLSERvlGKKSAFVHLNCAEISEslieselFGYEKGAFTGAQRSKKGMLELADGGILFLDEIATMPI 247
                              56899***********99999987889**************966543331223455566666777777778888*******76666 PP

                              ----------HHHHHHHHHHHH CS
                    AAA_2  83 kessgadvSregVqrdLLqile 104
                                          +q+ LL+ +e
  PHY93_05105|PHY93_05105 248 -----------SIQKKLLKAIE 258
                              ...........66666666655 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 4.3
                              -....-EEEEEGGG---.........----THHHHHHHHHTTT-HHHH CS
                    AAA_2  29 vkkekkliradaselle.........eeevehlvsrligappgyvgae 67 
                              +kk ++li++d s+ l            e+e++++ l+    g+v ae
  PHY93_05105|PHY93_05105 327 IKKGERLIVFDSSAKLImseyswpgnVRELERTIEVLQTRDRGIVTAE 374
                              267778888887766654445555545666777777666666666665 PP

>> TIP49  TIP49 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.0     2e-05     0.012      40      89 ..     149     202 ..     141     210 .. 0.82
   2 ?    1.5   0.0      0.24   1.4e+02     279     305 ..     234     260 ..     222     265 .. 0.83

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 2e-05
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX....XXXXXXXXXXXXXXXXX CS
                    TIP49  40 velikekklaGravLlaGpsgtGktalaiaisk....elgedvpfvalsgsevy 89 
                              +e+i +  l+ r + ++G+sgtGkt la  i +     lg++  fv+l+ +e+ 
  PHY93_05105|PHY93_05105 149 LEIIDQALLGQRPIFISGESGTGKTFLAKFIHQlserVLGKKSAFVHLNCAEIS 202
                              57899999999*****************887542222699**********9985 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.24
                              XXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                    TIP49 279 pGvlfiDevhmlDiecfsylnralese 305
                               G+lf+De+  + i +   l +a+e++
  PHY93_05105|PHY93_05105 234 GGILFLDEIATMPISIQKKLLKAIEEK 260
                              389*********************975 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   0.0   5.8e-06    0.0035       1      48 [.     160     204 ..     160     243 .. 0.88

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 5.8e-06
                              SCEEEEC-TTTCHHHHHHHHHHHHCTS-SCCCC-SEEEEEETTTTTTS CS
                    NACHT   1 rlvilqGeaGsGKTtLlqklalawaegklpqgafklvFflslrelsrs 48 
                              r++++ Ge+G GKT L +k+++++ e+ l ++  + + +l+++e+s+s
  PHY93_05105|PHY93_05105 160 RPIFISGESGTGKTFL-AKFIHQLSERVLGKK--SAFVHLNCAEISES 204
                              689**********965.578888999999885..78889999999875 PP

>> FleQ  Flagellar regulatory protein FleQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0   1.5e-05    0.0092       1      86 [.      10      95 ..      10     118 .. 0.86

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 1.5e-05
                     FleQ  1 kiLvidddaerrrdletiLeFlgeeveavsseelsaaleesssealavilgsvs.sleealealaekdphlPvlllgesdeaeelan 86
                             kiL+++dd   r  l+  L+F ge  ea s+ee+ +   ++++++ +v l+  s  +  ++ al++++++  v+l g+ de+  ++n
  PHY93_05105|PHY93_05105 10 KILIVEDDLLSRLSLKSRLDFRGEVREASSKEEAISLIGNNQFDLAFVDLDLESqLAGLDIVALLNDKKTYTVVLSGRVDER-VIEN 95
                             7**********************************************9998888456678999***********99999988.5554 PP

>> Helicase_RecD  Helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.6   0.0   0.00032      0.19      78     145 ..     122     189 ..      63     210 .. 0.75
   2 ?    2.7   0.0      0.17     1e+02      91     114 ..     234     257 ..     217     264 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00032
            Helicase_RecD  78 yiapdellklkeqadllvvDEAAai.plpllkkllekfkrvvlatTvhGYEGtGrgfslkflkqlkke...k 145
                              + a ++ ++l+e +d+ + D A+ + +l+++++ l +++ +++    +G  GtG++f  kf++ql+++   k
  PHY93_05105|PHY93_05105 122 FSAINKNKTLQELKDIFLTDDASLVkELEIIDQALLGQRPIFI----SGESGTGKTFLAKFIHQLSERvlgK 189
                              555556666666679********994599***99977766664....47789*************9875542 PP

  == domain 2  score: 2.7 bits;  conditional E-value: 0.17
            Helicase_RecD  91 adllvvDEAAaiplpllkkllekf 114
                                +l+ DE A +p+++ kkll++ 
  PHY93_05105|PHY93_05105 234 GGILFLDEIATMPISIQKKLLKAI 257
                              4689****************9875 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   1.5e-05    0.0091      25      97 ..     151     221 ..     140     262 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.5e-05
                    AAA_7  25 llelllknkkpvllvGptGtGKtviikdllkkldkekylsltinfsaqtsanqlqdiiesklekrrkgvygPp 97 
                              ++++ l  ++p+++ G++GtGKt ++k ++++l+ e++l ++  f +   a+   ++ies+l   +kg +  +
  PHY93_05105|PHY93_05105 151 IIDQALLGQRPIFISGESGTGKTFLAK-FIHQLS-ERVLGKKSAFVHLNCAEISESLIESELFGYEKGAFTGA 221
                              677888899**************9876.888999.99999999999999999999999999998888887543 PP

>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.0     3e-05     0.018      10      57 ..     150     197 ..     144     219 .. 0.75
   2 ?   -1.4   0.0       2.1   1.2e+03     194     209 ..     349     369 ..     305     376 .. 0.68
   3 ?   -2.8   0.0       5.6   3.3e+03      53     141 ..     413     424 ..     386     435 .. 0.46

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 3e-05
                   ATPase  10 eilkgGipegrvvlitGepGtGKtifalqFlikgaek.ygepgvfvtve 57 
                              ei+++ +  +r + i+Ge+GtGKt++a+ F+ +  e+  g++  fv ++
  PHY93_05105|PHY93_05105 150 EIIDQALLGQRPIFISGESGTGKTFLAK-FIHQLSERvLGKKSAFVHLN 197
                              56678889999*************9985.76664443257777777665 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 2.1
                   ATPase 194 e.....elvRtleivkmRgtk 209
                                    el+Rt+e++  R  +
  PHY93_05105|PHY93_05105 349 WpgnvrELERTIEVLQTRDRG 369
                              133444677777777777665 PP

  == domain 3  score: -2.8 bits;  conditional E-value: 5.6
                   ATPase  53 fvtveepaedlrenakslGwdlekleeegklaiidasesaeesaeekdkedleelieelaeaikeikakrvviDsitglayeekea 138
                               +++                                                                             e++e+
  PHY93_05105|PHY93_05105 413 KIAL-----------------------------------------------------------------------------ETNED 421
                              2222.............................................................................22222 PP

                   ATPase 139 vaR 141
                              ++R
  PHY93_05105|PHY93_05105 422 KVR 424
                              222 PP

>> UAE_UbL  Ubiquitin/SUMO-activating enzyme ubiquitin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.0       0.4   2.4e+02      53      73 ..     319     339 ..     277     378 .. 0.56
   2 ?   11.8   0.2   0.00046      0.28      43      73 ..     414     444 ..     395     448 .. 0.71

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.4
                  UAE_UbL  53 dkkLaelgikngsiLtvdDfs 73 
                               +kL ++ ik+g++L v D s
  PHY93_05105|PHY93_05105 319 LNKLIQFFIKKGERLIVFDSS 339
                              345666666666666666654 PP

  == domain 2  score: 11.8 bits;  conditional E-value: 0.00046
                  UAE_UbL  43 eedeeeddnldkkLaelgikngsiLtvdDfs 73 
                                 e+ +d  +k+L++l+i+n+s+ ++ D  
  PHY93_05105|PHY93_05105 414 IALETNEDKVRKTLSDLKISNNSFYRILDKL 444
                              4467777899***************999976 PP

>> Acylphosphatase  Acylphosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   0.00025      0.15      22      64 ..     395     438 ..     389     449 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 0.00025
          Acylphosphatase  22 AkelglkGyvrNlsdgsVeivaegeeekvekfleelksgppk.a 64 
                               k+lglk y++Nl+++ ++i +e +e+kv+k l++lk ++    
  PHY93_05105|PHY93_05105 395 VKRLGLKSYIENLETNILKIALETNEDKVRKTLSDLKISNNSfY 438
                              689*********************************99776554 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   0.00075      0.45       7     126 ..     156     258 ..     148     276 .. 0.66

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00075
                   AAA_19   7 alkekvllvtaGpGtGKTrvlkhivallvelggvkpeeillvaftgrAakelrerlaalgaeatTiHrlalldfddlltealelle 92 
                               l ++++++ +  GtGKT + k i +l +++ g k       af +  + e++e+l  ++ e   + + a+ ++++ +    ++le
  PHY93_05105|PHY93_05105 156 LLGQRPIFISGESGTGKTFLAKFIHQLSERVLGKK------SAFVHLNCAEISESL--IESELFGYEKGAFTGAQRSK---KGMLE 230
                              467899*************9999999999988775......344455556666666..44554444444444444444...23333 PP

                   AAA_19  93 eaeeekklqeeellivDEfqdvd.elqyrLlkall 126
                                     l ++ +l+ DE+  +    q++Llka+ 
  PHY93_05105|PHY93_05105 231 -------LADGGILFLDEIATMPiSIQKKLLKAIE 258
                              .......3466677888877777777778887776 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   0.00023      0.13      11     114 ..     153     259 ..     148     263 .. 0.68

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00023
                   AAA_30  11 ealltsgdrvavltGpAGtGKttalkalreaweaa.ggrvi.glAptgkaAkvLaeelgieastiakllkrlk...grarlepgtl 91 
                              +++l +++   ++ G  GtGKt++ k + ++ e+  g++ + +    ++ ++ L e+ ++ ++    ++ +++   g+ +l++g +
  PHY93_05105|PHY93_05105 153 DQALLGQR-PIFISGESGTGKTFLAKFIHQLSERVlGKKSAfVHLNCAEISESLIES-ELFGYEKGAFTGAQRskkGMLELADGGI 236
                              55555554.7899*******************9998755441444455666666654.3333333333333333447788888888 PP

                   AAA_30  92 livDEagmvdtkqlaallkaaek 114
                              l  DE++ + ++  ++llka+e+
  PHY93_05105|PHY93_05105 237 LFLDEIATMPISIQKKLLKAIEE 259
                              88888888888888888888876 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.0   0.0      0.26   1.5e+02      36      55 ..     162     181 ..     143     206 .. 0.85
   2 ?    7.4   0.0    0.0055       3.3      81     111 ..     230     260 ..     222     270 .. 0.91

  Alignments for each domain:
  == domain 1  score: 2.0 bits;  conditional E-value: 0.26
                   RuvB_N  36 vllyGpPGlGkttlakiiak 55 
                              ++++G  G Gkt lak i +
  PHY93_05105|PHY93_05105 162 IFISGESGTGKTFLAKFIHQ 181
                              6899***********99976 PP

  == domain 2  score: 7.4 bits;  conditional E-value: 0.0055
                   RuvB_N  81 nleekdvlfideihrlsraveevlysamedf 111
                              +l ++ +lf+dei  +  +++  l +a+e+ 
  PHY93_05105|PHY93_05105 230 ELADGGILFLDEIATMPISIQKKLLKAIEEK 260
                              789999**********************975 PP

>> PhoH  PhoH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   0.00052      0.31      15      37 ..     155     177 ..     146     187 .. 0.83
   2 ?   -3.2   0.0       7.9   4.7e+03     159     196 ..     391     427 ..     388     431 .. 0.68

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00052
                              HHHH-SEEEEE--TTSSTTHHHH CS
                     PhoH  15 alkkndivfaiGpaGtGKtylav 37 
                              al  +  +f+ G++GtGKt+la 
  PHY93_05105|PHY93_05105 155 ALLGQRPIFISGESGTGKTFLAK 177
                              555667789************95 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 7.9
                              ---------THHHHHHTTT-TTEEEEE--GGG----HH CS
                     PhoH 159 dlpkgkksGlaealevlknvegieivelkkkdvvRhpl 196
                              dl++ k+ Gl++ +e l+  + ++i+  +++d vR++l
  PHY93_05105|PHY93_05105 391 DLEEVKRLGLKSYIENLET-NILKIALETNEDKVRKTL 427
                              6666677788888888876.455555556788888776 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.0   0.00064      0.38     113     148 ..     143     178 ..      82     190 .. 0.76
   2 ?   -1.9   0.0       2.3   1.3e+03     149     165 ..     359     375 ..     351     384 .. 0.83

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00064
                    T2SSE 113 alkekiaevlrkavrerglilvsGgTgsGKttllya 148
                              a   k  e++ +a+  +  i +sG  g+GKt l+  
  PHY93_05105|PHY93_05105 143 ASLVKELEIIDQALLGQRPIFISGESGTGKTFLAKF 178
                              334567799*********************987654 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 2.3
                    T2SSE 149 llkeinksderivtvED 165
                               ++ ++++d+ ivt+ED
  PHY93_05105|PHY93_05105 359 TIEVLQTRDRGIVTAED 375
                              678899999*******9 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.1   0.00082      0.49      45      81 ..     157     194 ..     120     261 .. 0.65

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00082
                IstB_IS21  45 ekkenivllGpsGvGKshlaialgveavr.aglsvlfv 81 
                                +  i + G sG+GK++la  + +   r  g++  fv
  PHY93_05105|PHY93_05105 157 LGQRPIFISGESGTGKTFLAKFIHQLSERvLGKKSAFV 194
                              44567899************877665554445555554 PP

>> Torsin  Torsin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   0.00084       0.5      58      92 ..     164     199 ..     145     205 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00084
                              EEE-TTSSHHHHHHHHHHHHST.TGGGSTTEEEEEH CS
                   Torsin  58 fhGwtGtGknfvaeiiaenlyr.dGlrsdyvkkfva 92 
                              + G +GtGk f+a+ i +   r  G +s +v+   a
  PHY93_05105|PHY93_05105 164 ISGESGTGKTFLAKFIHQLSERvLGKKSAFVHLNCA 199
                              459*************99776636999999998766 PP

>> DUF2075  Uncharacterized conserved protein (DUF2075)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   0.00043      0.26       4      44 ..     162     201 ..     159     225 .. 0.84

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00043
                  DUF2075   4 vlVtGvaGtGKtvvllnllaeleddeeertavylsvNhplv 44 
                              ++++G++GtGKt ++ +++++l++  ++++++++  N +++
  PHY93_05105|PHY93_05105 162 IFISGESGTGKTFLA-KFIHQLSERVLGKKSAFVHLNCAEI 201
                              8***********987.6778888889999999998887765 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0       7.1   4.3e+03      31      46 ..      55      71 ..      44     139 .. 0.57
   2 ?    9.7   0.0    0.0014      0.85       3      77 ..     163     303 ..     162     437 .. 0.74

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 7.1
                             EEEEEEESSCCCCH.HT CS
                             xxxxxxxxxxxxxx.xx RF
                     CbiA 31 llvDaDpqannlai.le 46
                             + vD+D ++ ++ + + 
  PHY93_05105|PHY93_05105 55 AFVDLDLESQLAGLdIV 71
                             55666666555443333 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.0014
                              EEESSTTSSHHHHHHHHHHHHHHTT--EEEEEEEESSCCCCHHTTEB-HHHH.................................. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.................................. RF
                     CbiA   3 iastkGGvGKTtlaanLaralarrglrVllvDaDpqannlaileglendiep.................................. 54 
                              ++s+ +G+GKT+la  +++ l++   rVl  +      n a  e +e  ie                                   
  PHY93_05105|PHY93_05105 163 FISGESGTGKTFLAKFIHQ-LSE---RVLGKKSAFVHLNCA--EISESLIESelfgyekgaftgaqrskkgmleladggilfldei 242
                              789********98755555.555...566666433323322..2222222223355666777778888888888888888888888 PP

                              ...............................CCHCCCHHHHHHCHCHHHH.........EE CS
                              ...............................xxxxxxxxxxxxxxxxxxx.......xxxx RF
                     CbiA  55 ...............................dlkrllellealgkkkall.......lkia 77 
                                                             d   ++ ++e+l++k ++        ++i 
  PHY93_05105|PHY93_05105 243 atmpisiqkkllkaieeksffplgseksihsDFRLISATCEDLKTKIEKGefradffFRIE 303
                              8888888888888888888888888888888777777777777766555455544444444 PP

>> Mga  Mga helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.1       3.9   2.4e+03      12      55 ..     109     153 ..     102     164 .. 0.69
   2 ?   12.6   0.3   0.00026      0.15      13      56 ..     403     446 ..     389     447 .. 0.87

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 3.9
                              HHHHSHHHHHHHHHH.HHSEEEHHHHHHHCT--HHHHHHHHHHHH CS
                      Mga  12 llkeslkyqllkflf.eeeevsieelaqelyiSestlkrkikeln 55 
                              + k sl++ + k++   +++++++el + +    ++l ++++ + 
  PHY93_05105|PHY93_05105 109 FTKTSLELVFKKYFSaINKNKTLQELKDIFLTDDASLVKELEIID 153
                              566688888888877567777777777766666666666666555 PP

  == domain 2  score: 12.6 bits;  conditional E-value: 0.00026
                              HHHSHHHHHHHHHHHHSEEEHHHHHHHCT--HHHHHHHHHHHHH CS
                      Mga  13 lkeslkyqllkflfeeeevsieelaqelyiSestlkrkikelnk 56 
                              + e+l+ ++lk  +e++e ++ +    l iS+ +++r++++l+ 
  PHY93_05105|PHY93_05105 403 YIENLETNILKIALETNEDKVRKTLSDLKISNNSFYRILDKLKA 446
                              45689999*********************************996 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   0.00063      0.38       1      37 [.     162     196 ..     162     203 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00063
             RNA_helicase   1 iwlyGpsgeGKStlakeLakallkklklkkkdsvysr 37 
                              i+++G+sg+GK+ lak  +++l++++ l kk+ ++  
  PHY93_05105|PHY93_05105 162 IFISGESGTGKTFLAKF-IHQLSERV-LGKKSAFVHL 196
                              789************98.88888777.5555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (450 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       629  (0.0350828); expected 358.6 (0.02)
Passed bias filter:                      492  (0.0274416); expected 358.6 (0.02)
Passed Vit filter:                        77  (0.00429472); expected 17.9 (0.001)
Passed Fwd filter:                        30  (0.00167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              30  [number of targets reported over threshold]
# CPU time: 0.64u 0.28s 00:00:00.92 Elapsed: 00:00:00.44
# Mc/sec: 3104.33
//
Query:       PHY93_05110|PHY93_05110  [L=1401]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.8e-18   66.4  57.3    1.3e-06   28.4   7.7    7.8  7  He_PIG           Putative Ig domain
  ------ inclusion threshold ------
        9.1    6.4   6.1        9.1    6.4   0.2    3.4  3  Phage_holin_2_1  Bacteriophage P21 holin S


Domain annotation for each model (and alignments):
>> He_PIG  Putative Ig domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.3   0.4   5.3e-08   0.00048       6      30 ..     119     143 ..     102     189 .. 0.83
   2 !   10.8   1.2     5e-05      0.45      13      32 ..     280     299 ..     273     305 .. 0.90
   3 !   11.9   1.0   2.2e-05       0.2       2      29 ..     399     430 ..     398     451 .. 0.80
   4 ?   -3.6   0.2       1.6   1.4e+04      24      32 ..     460     468 ..     456     470 .. 0.78
   5 !   28.4   7.7   1.5e-10   1.3e-06       1      46 [.     664     703 ..     664     706 .. 0.91
   6 ?    0.2   0.6     0.097   8.7e+02      15      48 ..     782     815 ..     781     816 .. 0.85
   7 !   22.8   6.8   8.4e-09   7.5e-05       2      45 ..     994    1031 ..     987    1033 .. 0.90

  Alignments for each domain:
  == domain 1  score: 20.3 bits;  conditional E-value: 5.3e-08
                   He_PIG   6 tpgsngLPsGLtLdsstGtitGtpd 30 
                              +++s  LP G+tLd+ t+ i+Gtp+
  PHY93_05110|PHY93_05110 119 PSNSVNLPLGITLDPKTCIISGTPT 143
                              667889*****************87 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 5e-05
                   He_PIG  13 PsGLtLdsstGtitGtpdqt 32 
                              P GL L+  t+ itGtp+ +
  PHY93_05110|PHY93_05110 280 PPGLLLNQDTCLITGTPTAA 299
                              9****************975 PP

  == domain 3  score: 11.9 bits;  conditional E-value: 2.2e-05
                   He_PIG   2 ytl....ttpgsngLPsGLtLdsstGtitGtp 29 
                              y++      p++ +LP+G+ L +st+ ++G p
  PHY93_05110|PHY93_05110 399 YSFidctLDPTTPTLPAGILLTPSTCLLSGLP 430
                              56666666899*******************84 PP

  == domain 4  score: -3.6 bits;  conditional E-value: 1.6
                   He_PIG  24 titGtpdqt 32 
                              ti+Gt++ +
  PHY93_05110|PHY93_05110 460 TIQGTITLG 468
                              899999876 PP

  == domain 5  score: 28.4 bits;  conditional E-value: 1.5e-10
                   He_PIG   1 tytlttpgsngLPsGLtLdsstGtitGtpdqtvapGsytftVtatd 46 
                              +y++    + +LPsGL++d++tG itG+ ++t  + s +ft+tat+
  PHY93_05110|PHY93_05110 664 SYSI----APALPSGLSFDTTTGNITGQFTNTL-A-STSFTITATN 703
                              6888....799*********************4.4.9********8 PP

  == domain 6  score: 0.2 bits;  conditional E-value: 0.097
                   He_PIG  15 GLtLdsstGtitGtpdqtvapGsytftVtatdgs 48 
                              G ++ds++  ++G  +   +p  y++ +t++d++
  PHY93_05110|PHY93_05110 782 GASIDSGNAYYSGKTTVLANPIFYNIALTVSDST 815
                              7899*********988777777899999999986 PP

  == domain 7  score: 22.8 bits;  conditional E-value: 8.4e-09
                   He_PIG    2 ytlttpgsngLPsGLtLdsstGtitGtpdqtvapGsytftVtat 45  
                               y++    s +LP+GLtL++ tG+itG+p+ + +p + t+t++a 
  PHY93_05110|PHY93_05110  994 YSA----SPTLPAGLTLNTLTGAITGVPTLA-TP-RTTYTLSAK 1031
                               677....79**********************.77.899999885 PP

>> Phage_holin_2_1  Bacteriophage P21 holin S
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.1       1.2   1.1e+04      46      55 ..     155     164 ..     150     165 .. 0.86
   2 ?    6.4   0.2     0.001       9.1      43      55 ..     309     321 ..     306     325 .. 0.89
   3 ?    1.3   0.1      0.04   3.6e+02       1      16 [.     864     879 ..     864     886 .. 0.87

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 1.2
          Phage_holin_2_1  46 lTyltnlYFK 55 
                               Ty++ l++K
  PHY93_05110|PHY93_05110 155 YTYAIDLFYK 164
                              59*******9 PP

  == domain 2  score: 6.4 bits;  conditional E-value: 0.001
          Phage_holin_2_1  43 igllTyltnlYFK 55 
                               g++Ty +nlY+K
  PHY93_05110|PHY93_05110 309 GGMVTYKINLYYK 321
                              699*********9 PP

  == domain 3  score: 1.3 bits;  conditional E-value: 0.04
          Phage_holin_2_1   1 dkiatgvsYgaSggsi 16 
                              d i++g+ Y aS+ +i
  PHY93_05110|PHY93_05110 864 DTISSGLTYSASAVTI 879
                              679**********998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1401 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       310  (0.0172904); expected 358.6 (0.02)
Passed bias filter:                      220  (0.0122706); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.79u 0.26s 00:00:01.05 Elapsed: 00:00:00.46
# Mc/sec: 9185.21
//
Query:       PHY93_05115|PHY93_05115  [L=458]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    3.3e-27   95.9   0.3    1.9e-26   93.4   0.1    2.0  2  Radical_SAM  Radical SAM superfamily
    8.1e-26   89.9   0.1    1.5e-25   89.0   0.1    1.5  1  UPF0004      Uncharacterized protein family UPF0004
    3.8e-17   62.2   1.9    7.3e-17   61.3   1.9    1.5  1  TRAM_2       TRAM domain
    2.9e-06   27.2   0.6    5.3e-06   26.3   0.6    1.5  1  TRAM         TRAM domain
  ------ inclusion threshold ------
      0.016   14.5   0.0      0.037   13.4   0.0    1.5  2  NAGidase     beta-N-acetylglucosaminidase
      0.018   14.2   0.0       0.35   10.0   0.0    2.1  2  DUF787       Borrelia burgdorferi protein of unknown function


Domain annotation for each model (and alignments):
>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   93.4   0.1   6.5e-30   1.9e-26       3     165 ..     164     332 ..     162     334 .. 0.91
   2 ?    0.3   0.0      0.28   8.3e+02     118     159 ..     368     405 ..     341     410 .. 0.72

  Alignments for each domain:
  == domain 1  score: 93.4 bits;  conditional E-value: 6.5e-30
                              EESEESS--TTTSCCTTHHHHHHHHHHHHHHHHHHHHHHHHHTTSEEEEEESSTGGGS....TTHHHHHHHHHHTC....CCTEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxx....xxxxxx RF
              Radical_SAM   3 vtrgCnlrCsfCarpetvrregrgrslsveeileevkelkaekgvkevilgggeplly....pdfvellerlakla....vpgiri 80 
                              +++gCn++C+fC++p+    +g+ rs+sve++++e+k l a+ gv+e+ l +++ ++y    ++  +l   l  l+    v++ir+
  PHY93_05115|PHY93_05115 164 ISEGCNRNCTFCIIPK---LRGKLRSRSVESLVQEAKNL-ASTGVRELNLISQDLSDYgvdlDENNKLFNLLEGLEsvenVDWIRL 245
                              789************8...9*******************.8************9999988854444444444555599999***** PP

                              EEEECSSCHGHHHHHHHHHTT..-SEEEEEEBSSSHHHHHHHHTCTSHHHHHHHHHHHHHHTTSET...EEEEEEEBTTTSHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxx RF
              Radical_SAM  81 tvetngtlpdeeklerllelg..vdrvslgleaaddekvlklmnrghtfeevlealeklreagikr...vvdrivglpGendeele 161
                              ++  +  l  +e++e+++       ++ +++++++   vlk+mnr+ t e++ e +ek+r++ i++    +++ivg+pGe++e++e
  PHY93_05115|PHY93_05115 246 FYFYPDELT-DEVIEKMATSKkiNKYLDMPVQHFSTN-VLKRMNRQITGEKIHERIEKIRSR-IPSvvlRTSIIVGFPGETEEDFE 328
                              ********8.99999999988999*************.************************.**********************9 PP

                              HHHH CS
                              xxxx RF
              Radical_SAM 162 elle 165
                               lle
  PHY93_05115|PHY93_05115 329 LLLE 332
                              8875 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.28
                              HHHHTCTSHHHHHHHHHHHHHHTTSETEEEEEEEBTTTSHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM 118 lklmnrghtfeevlealeklreagikrvvdrivglpGendee 159
                               +++     +e + e ++ l++  +   +++ v+++Ge +e+
  PHY93_05115|PHY93_05115 368 EERF--DRLYETQREIVRELNSEYLG--KVIPVLIEGEHEET 405
                              4444..35678888888888888666..99999999999996 PP

>> UPF0004  Uncharacterized protein family UPF0004
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   89.0   0.1   5.2e-29   1.5e-25       2      98 .]      13     113 ..      12     113 .. 0.95

  Alignments for each domain:
  == domain 1  score: 89.0 bits;  conditional E-value: 5.2e-29
                              EEEE--S-CCCCHHHHHHHHHTTTSSS----SSS--SEEEEEE--SSSSHHHHTHHHHHHHHTTST.-....-EEEEEEHHHHS-H CS
                  UPF0004   2 vaietlGCqmNevdseelaslLkkegyelvedeeeAdvvlvnTCavrekaekkviqalrelkalkkpe....kkvvvlGCmaqrek 83 
                              v++++lGC++N vds+++++ L  +gy+++++++ A+v++vnTC+++e+++k++++++ ++++ k+pe    k++v+ GCmaqr+ 
  PHY93_05115|PHY93_05115  13 VFFTSLGCSKNLVDSQVMLGYLGLDGYSIATEPSVAEVIIVNTCSFIEASKKESVDTILDMADFKNPEngvcKALVISGCMAQRYA 98 
                              7899*************************************************************76656669************* PP

                              HHHHHH-TTS-EEE- CS
                  UPF0004  84 eellkeepevdlvlg 98 
                              ++l +e pe+dl++g
  PHY93_05115|PHY93_05115  99 AQLEQEIPEADLIIG 113
                              ************998 PP

>> TRAM_2  TRAM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.3   1.9   2.4e-20   7.3e-17       2      64 .]     391     457 ..     390     457 .. 0.90

  Alignments for each domain:
  == domain 1  score: 61.3 bits;  conditional E-value: 2.4e-20
                              TSEEEEEEEE...EETTEEEEEETTS-TTTS--EEEES---T....T-EEEEEEEEEETTEEEEEE- CS
                   TRAM_2   2 Gktvevlvdg...eeeglyvGRsyadAPEvDgevyvtgaekl.skvGdfvkvkItdadeyDLiGevv 64 
                              Gk++ vl++g   e+e l  GR + +AP++Dg+v++++ +   ++vGd+v v+It++ +yDL+G++v
  PHY93_05115|PHY93_05115 391 GKVIPVLIEGeheETELLIQGRHEGQAPDIDGKVIINDLDGMkVEVGDLVYVEITEVLDYDLVGKIV 457
                              9*********7644444799*****************99987556********************98 PP

>> TRAM  TRAM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.3   0.6   1.8e-09   5.3e-06       3      62 .]     389     457 ..     387     457 .. 0.80

  Alignments for each domain:
  == domain 1  score: 26.3 bits;  conditional E-value: 1.8e-09
                              XXXXEEEEEEEEE-..TTSEEEEEET.......TEEEEETT-...-T..TEEEEEEEEEE-SSEEEEEEE CS
                     TRAM   3 yvGstqeVlvegls.ksegegiGrtdn......gkvvfvpgd...lpgIGdfVeVkItkvkrqyLrGell 62 
                              y G++++Vl+eg++   e  + Gr+++      gkv++ +     + ++Gd V+V+It+v  + L G+++
  PHY93_05115|PHY93_05115 389 YLGKVIPVLIEGEHeETELLIQGRHEGqapdidGKVIIND-LdgmKVEVGDLVYVEITEVLDYDLVGKIV 457
                              89************66666668****77777754444433.35888889***************999986 PP

>> NAGidase  beta-N-acetylglucosaminidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0       1.3   3.9e+03     198     250 ..       8      64 ..       4      80 .. 0.64
   2 ?   13.4   0.0   1.2e-05     0.037      66     179 ..     166     281 ..     160     310 .. 0.74

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 1.3
                              HTS-EEEEE--S---G.TTS.---S---..-B-TTGGGT.EEEEEE---S-HHHHHH CS
                 NAGidase 198 lgrkpliwdNypvnDy.akerLllgplt..gleeelake.lsgivsnpmeqaeaSkv 250
                              +++k++++    ++ +  +++++lg l   g++ +++ + ++ i++n  +  eaSk 
  PHY93_05115|PHY93_05115   8 FNEKTVFFTSLGCSKNlVDSQVMLGYLGldGYSIATEPSvAEVIIVNTCSFIEASKK 64 
                              566666666677776656666777654311555555555677888888888888874 PP

  == domain 2  score: 13.4 bits;  conditional E-value: 1.2e-05
                              HHTT-EEEEEE--TTT--TT-HHHHHHHHHHHHHHHHTT--EEEEE-TTS-SSSSHHHHHHHHHHHHHHHHHTTSSS..-EEEEE- CS
                 NAGidase  66 kenkvdfvwaihpgldikysseedlkallaKfeqlydlGvrqfavllDDisyeeaaakaqaellnkvqeelkekkkd.vkplivvp 150
                              + ++ + +++i p l  k+    ++++l++  ++l + Gvr+ +++ +D+s ++ + +++ +l+n ++   + ++ d ++ +++ p
  PHY93_05115|PHY93_05115 166 EGCNRNCTFCIIPKLRGKL-RSRSVESLVQEAKNLASTGVRELNLISQDLSDYGVDLDENNKLFNLLEGLESVENVDwIRLFYFYP 250
                              5577788999999887777.8999***************************99999999999888776533333333367778889 PP

                              SS-BS-T..T-HHHHHHHHHS-TTSEEEE-B CS
                 NAGidase 151 teYaksa..eseylkelgkkldkevevlwTG 179
                               e +++   + +  k+++k ld  v+ + T 
  PHY93_05115|PHY93_05115 251 DELTDEVieKMATSKKINKYLDMPVQHFSTN 281
                              9998888776777777888888877777764 PP

>> DUF787  Borrelia burgdorferi protein of unknown function (DUF787)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.0     0.035     1e+02     267     337 ..      62     132 ..      25     141 .. 0.78
   2 ?   10.0   0.0   0.00012      0.35     221     275 ..     330     385 ..     325     389 .. 0.85

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.035
                   DUF787 267 ikneaikeliriwnknnransklsalqldgaldneytaalecllkrlkdkgliv...eykelklklssseqlkl 337
                               k e++  ++ + +  n +n    al ++g + + y+a le   +++ +  li+   ey ++ l l++ ++ kl
  PHY93_05115|PHY93_05115  62 SKKESVDTILDMADFKNPENGVCKALVISGCMAQRYAAQLE---QEIPEADLIIgtgEYNKITLLLKALDDGKL 132
                              478899999999999999*********************99...577777888766678888888777666555 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00012
                   DUF787 221 lidklrkakinfysllnetgldgilafkesvdlagdsidelftlfy.ikneaikel 275
                              l++ ++ka+ n   ++  +  dg +afk   ++ gd i+e f   y  + e ++el
  PHY93_05115|PHY93_05115 330 LLEGVKKARFNHLGIFRYSDEDGTPAFKLQPKVPGDVIEERFDRLYeTQREIVREL 385
                              5678899***********************************97772455666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (458 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       604  (0.0336884); expected 358.6 (0.02)
Passed bias filter:                      513  (0.0286129); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.61u 0.25s 00:00:00.86 Elapsed: 00:00:00.45
# Mc/sec: 3071.54
//
Query:       PHY93_05120|PHY93_05120  [L=698]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.7e-23   80.6   0.0    1.6e-22   79.4   0.0    1.7  1  SLT       Transglycosylase SLT domain
  ------ inclusion threshold ------
      0.023   15.0   1.8        0.3   11.4   0.1    3.5  4  TPR_12    Tetratricopeptide repeat
        1.5    9.2   7.3         24    5.4   0.1    5.0  5  TPR_8     Tetratricopeptide repeat
        1.6    9.6   6.0         82    4.2   0.0    5.3  7  TPR_6     Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> SLT  Transglycosylase SLT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.4   0.0   3.5e-26   1.6e-22       4     112 ..     542     653 ..     539     658 .. 0.94

  Alignments for each domain:
  == domain 1  score: 79.4 bits;  conditional E-value: 3.5e-26
                              HHHHHHHTS-HHHHHHHHHHHHTT-TT-B-TTSEBTTTTBETTTHHHHHHHHT...-SHHHHCSHHHHHHHHHHHHHHHHHTTTTH CS
                      SLT   4 ikaekkygvepsllaaiaqvESgfnpkAvsksgavGLmQimpstakrlglrvk...lsedelldPeknisagakyLkslykqyngs 86 
                              +   +ky+v+++l++ i ++ES+f p   s + a GLmQ++p+ a +l ++++   ++ ++l+dP +n+++g+++Lk+l +++n +
  PHY93_05120|PHY93_05120 542 FRLGNKYSVPQELIFGITRQESAFVPSERSWADAFGLMQMIPEKAAELSKKYGipyRDHNDLYDPDTNLEMGTALLKDLREKFNYK 627
                              56789***********************************************9*999***************************** PP

                              HHHHHHHHHH-HHHHHHTTHSSHHHH CS
                      SLT  87 lllalaAYNaGegtvkkakkevkkke 112
                               ++ +aAYNa e+ +k ++ke+ + +
  PHY93_05120|PHY93_05120 628 FIQSVAAYNASENVIKVWEKERFNGN 653
                              ******************99987766 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.0      0.45     2e+03       2      27 ..      57      81 ..      56      87 .. 0.84
   2 ?   -1.2   0.0      0.56   2.5e+03      24      40 ..     163     179 ..     162     189 .. 0.76
   3 ?   -1.9   0.0      0.96   4.3e+03      52      70 ..     208     226 ..     204     229 .. 0.72
   4 ?   11.4   0.1   6.6e-05       0.3       9      69 ..     292     348 ..     286     350 .. 0.87

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 0.45
                   TPR_12  2 vatalnnlaavlrrlgrydeAlelle 27
                             +a+a+  la++  + g+   A+ l+ 
  PHY93_05120|PHY93_05120 57 LAKAY-LLAMISEKEGNTKLACNLFT 81
                             67888.9**********999999986 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 0.56
                   TPR_12  24 ellekaleiarrllGpd 40 
                              +l  +a+eia++l + d
  PHY93_05120|PHY93_05120 163 KLITRAIEIAEKLKDAD 179
                              67789999999995554 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 0.96
                   TPR_12  52 grlyralgryeeAlellee 70 
                              +r ++a  +++ A++l+++
  PHY93_05120|PHY93_05120 208 ARDFEANRKFDTARSLYKK 226
                              6666777778888888776 PP

  == domain 4  score: 11.4 bits;  conditional E-value: 6.6e-05
                   TPR_12   9 laavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelle 69 
                              la + +  ++ +eA+++l++   ia++l + +   +a+t+ ++g ly+++++   Al+ ++
  PHY93_05120|PHY93_05120 292 LAKAVWTEQKNQEARKILDEL--IATKLGNINQ--LASTQLTYGSLYQESKEMTSALKCFK 348
                              67777778889**********..7777977877..**********************9987 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.0      0.14   6.2e+02       5      24 ..      61      80 ..      60      85 .. 0.87
   2 ?    2.1   0.1     0.063   2.8e+02      10      32 ..     171     193 ..     166     193 .. 0.88
   3 ?   -3.0   0.1       2.8   1.3e+04       7      27 ..     292     312 ..     288     314 .. 0.72
   4 ?    5.4   0.1    0.0055        24       5      27 ..     328     350 ..     324     350 .. 0.87
   5 ?   -1.0   0.0      0.66   2.9e+03       1      31 [.     399     429 ..     399     431 .. 0.78

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 0.14
                             HHHHHHHHHTT-HHHHHHHH CS
                    TPR_8  5 ynlgsiylklgdyeeAkeyy 24
                             y+l++i +k g+ + A   +
  PHY93_05120|PHY93_05120 61 YLLAMISEKEGNTKLACNLF 80
                             89************998766 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.063
                              HHHHTT-HHHHHHHHHHHHHHHH CS
                    TPR_8  10 iylklgdyeeAkeyyekaleldp 32 
                              i +kl+d +++k y  +  e++p
  PHY93_05120|PHY93_05120 171 IAEKLKDADKSKIYSDRLKEISP 193
                              7799**********999888887 PP

  == domain 3  score: -3.0 bits;  conditional E-value: 2.8
                              HHHHHHHTT-HHHHHHHHHHH CS
                    TPR_8   7 lgsiylklgdyeeAkeyyeka 27 
                              l+++ ++ ++ +eA + + + 
  PHY93_05120|PHY93_05120 292 LAKAVWTEQKNQEARKILDEL 312
                              555667778889999988775 PP

  == domain 4  score: 5.4 bits;  conditional E-value: 0.0055
                              HHHHHHHHHTT-HHHHHHHHHHH CS
                    TPR_8   5 ynlgsiylklgdyeeAkeyyeka 27 
                              +  gs+y++ +++ +A ++++ a
  PHY93_05120|PHY93_05120 328 LTYGSLYQESKEMTSALKCFKNA 350
                              678*****************865 PP

  == domain 5  score: -1.0 bits;  conditional E-value: 0.66
                              CCHHHHHHHHHHHTT-HHHHHHHHHHHHHHH CS
                    TPR_8   1 aeayynlgsiylklgdyeeAkeyyekaleld 31 
                              a++ y+++++++ + +  eA  ++  + + d
  PHY93_05120|PHY93_05120 399 AKLNYWKAKTLQRMDKTLEANDVFTSVYTSD 429
                              678999*****99999988877776666555 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   0.0     0.018        82       4      28 ..      61      85 ..      59      86 .. 0.88
   2 ?   -1.7   0.0       1.4   6.2e+03      17      28 ..     166     177 ..     160     190 .. 0.77
   3 ?    2.1   0.0     0.083   3.7e+02       4      27 ..     205     228 ..     202     230 .. 0.86
   4 ?    0.7   0.1      0.24   1.1e+03      13      28 ..     300     314 ..     289     315 .. 0.80
   5 ?   -3.3   0.0         4   1.8e+04       7      24 ..     331     348 ..     329     350 .. 0.77
   6 ?   -1.4   0.0       1.1     5e+03       4      28 ..     403     427 ..     402     430 .. 0.80
   7 ?   -3.4   0.0         4   1.8e+04       6      13 ..     495     502 ..     487     505 .. 0.65

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.018
                             HHHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6  4 yklalsyrklgdtdkAlealerlik 28
                             y+la+  +k g+t  A+ ++ +l +
  PHY93_05120|PHY93_05120 61 YLLAMISEKEGNTKLACNLFTDLSE 85
                             89999999988*********99865 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 1.4
                              HHHHHHHHHHHH CS
                    TPR_6  17 dkAlealerlik 28 
                              ++A+e+ e+l +
  PHY93_05120|PHY93_05120 166 TRAIEIAEKLKD 177
                              578888888754 PP

  == domain 3  score: 2.1 bits;  conditional E-value: 0.083
                              HHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   4 yklalsyrklgdtdkAlealerli 27 
                              y +a+ +++  + d+A+ ++++ i
  PHY93_05120|PHY93_05120 205 YIIARDFEANRKFDTARSLYKKMI 228
                              88999999977*********9876 PP

  == domain 4  score: 0.7 bits;  conditional E-value: 0.24
                              HHHHHHHHHHHHHHHH CS
                    TPR_6  13 lgdtdkAlealerlik 28 
                              + + ++A+++l++li 
  PHY93_05120|PHY93_05120 300 Q-KNQEARKILDELIA 314
                              3.788********995 PP

  == domain 5  score: -3.3 bits;  conditional E-value: 4
                              HHHHHHHHHHHHHHHHHH CS
                    TPR_6   7 alsyrklgdtdkAleale 24 
                              + +y++ ++ + Al+ ++
  PHY93_05120|PHY93_05120 331 GSLYQESKEMTSALKCFK 348
                              667888669999999887 PP

  == domain 6  score: -1.4 bits;  conditional E-value: 1.1
                              HHHHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   4 yklalsyrklgdtdkAlealerlik 28 
                              y+ a+ ++++++t +A + + ++ +
  PHY93_05120|PHY93_05120 403 YWKAKTLQRMDKTLEANDVFTSVYT 427
                              7889999999788899999988755 PP

  == domain 7  score: -3.4 bits;  conditional E-value: 4
                              HHHHHHHH CS
                    TPR_6   6 lalsyrkl 13 
                              +a+s++++
  PHY93_05120|PHY93_05120 495 RAMSLYSQ 502
                              45666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (698 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       899  (0.0501422); expected 358.6 (0.02)
Passed bias filter:                      361  (0.020135); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.67u 0.23s 00:00:00.90 Elapsed: 00:00:00.44
# Mc/sec: 4786.97
//
Query:       PHY93_05125|PHY93_05125  [L=202]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.2e-17   62.3   0.5    5.4e-17   62.0   0.5    1.1  1  LolA      Outer membrane lipoprotein carrier protein LolA


Domain annotation for each model (and alignments):
>> LolA  Outer membrane lipoprotein carrier protein LolA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.0   0.5     3e-21   5.4e-17       5     164 ..      24     194 ..      22     195 .. 0.83

  Alignments for each domain:
  == domain 1  score: 62.0 bits;  conditional E-value: 3e-21
                              EEEEEEEEEEE-TTS--EEEEEEEEEEETTTEEEEEE-TTS-EEEEEETTEEEEEE.TTTTEE..EEEEHHHHTTT-GGGGGG... CS
                     LolA   5 tlsadFvQtvtsgegkkiqetsGklaikrPgkfrweytsPdeqlivsdgktvwlyd.pdleqv..tieslkqalsktplvlLl... 84 
                              ++sa+F+Q+  s  + +i++++G++  k P+++r+e+ +P+++  vs+g + w+y  p++e     +++ k + +++  + ++   
  PHY93_05125|PHY93_05125  24 GFSAKFEQEYISILKGNIKKGQGSIDYKYPSNIRFETSTPSQIIFVSNGVKSWYYRaPFIEGEdgEVTESKAQEGSSVYIKFFdsl 109
                              79***************************************************996467765555555555555555555555444 PP

                              S-HHHHTTTEEEEEEEETTEEEEEEEES.SS-SSECEEEEEE.....ETTE.EEEEEEEETT--EEEEEEEEEEES----GGGG-- CS
                     LolA  85 edkaklskdynvsvkkeqdldtltlkpk.akdanlsritigf....dkkgl.lkqlkvvdaqGqrttitfsnvkenakladdlFkf 164
                              ++  +  + y+v+ +  +++ ++t+k k ak+++++++ ++f    dk+   lk++ ++  +G++t+++f ++k n+++++++F+f
  PHY93_05125|PHY93_05125 110 KNGLSANSLYDVK-NAGDGMHVITFKAKtAKEFGIKEAILTFtsakDKDFSeLKKIDLIFPDGKKTSLRFMDLKVNPSFDAKKFNF 194
                              6777778888888.88899999****9999************433223334599999999************************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (202 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       486  (0.0271069); expected 358.6 (0.02)
Passed bias filter:                      390  (0.0217525); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.20s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1478.51
//
Query:       PHY93_05130|PHY93_05130  [L=316]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (316 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       483  (0.0269396); expected 358.6 (0.02)
Passed bias filter:                      393  (0.0219198); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 2385.76
//
Query:       PHY93_05135|PHY93_05135  [L=294]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.8e-22   79.5   0.0    3.5e-22   79.2   0.0    1.1  1  BcrAD_BadFG  BadF/BadG/BcrA/BcrD ATPase family
  ------ inclusion threshold ------
        4.2    8.0   5.6         42    4.8   0.0    3.9  4  PC_rep       Proteasome/cyclosome repeat


Domain annotation for each model (and alignments):
>> BcrAD_BadFG  BadF/BadG/BcrA/BcrD ATPase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.2   0.0   3.9e-26   3.5e-22       1     209 [.       9     241 ..       9     259 .. 0.92

  Alignments for each domain:
  == domain 1  score: 79.2 bits;  conditional E-value: 3.9e-26
                              EEEEE-SSEEEEEEEETTTEEEEEEEE--TTS-HHH.........HHHHHHHHHHT--GGGECEE..EEESTTCCCTCTTBSEEE- CS
              BcrAD_BadFG   1 vGiDgGsTttkavlmdekgevlgrgitnsanlesvrfeaaekvleealtealerageeeadieetylvgtgyGratlpekfekeii 86 
                              +G+DgG++ t++++   +g   +++   +a l   ++e+a++++ + +  a+++ +  +  + e+   + g+G++++++ + k+ +
  PHY93_05135|PHY93_05135   9 IGVDGGGSGTRVIVAGSDGLPRATAEGSPAALG-QGIEKAWRSILDTIALAFANGKIPAPMLSEC---AIGLGLSGANNIIWKNEF 90 
                              7*******************8888888888887.99*****************************...778888888876666655 PP

                              ........HHHHHHHHHHHH-TT--...EEEEEETTEEEEEEEE.TTEEEEEEEESS--TTSHHHHHHHHHHHT--TTTHHHHHTT CS
              BcrAD_BadFG  87 rs......eilvhgdGavalypgtr...tvldigGqdskgiqid.kgkvenfqmndrcaageGrylgiiadelnmglreldglaek 162
                                      +i +++dG+  l +++    +v++  G++s+g+ ++  g++ n++++++  ++e+++++++  +  ++++++dg++++
  PHY93_05135|PHY93_05135  91 YFrnpgfkKIIIDTDGFTTLLGAHLgapGVIVAVGTGSVGMVLKpSGERLNVSGWGFPSGDEASGAWLGLAACALTQKAIDGRRAH 176
                              4467999******************************************************************************* PP

                              --...................S-------SHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHHH CS
              BcrAD_BadFG 163 at...................kkarinstcavfaeaelrdalsggekaedIlaglhraialrvial 209
                              +t                     ++ ++t+a++a+ ++++a+s    a + l+++  +ia+ v+ l
  PHY93_05135|PHY93_05135 177 STlslavqnfcgktpdaflawLGNANQNTFAQLAPLVFQCANSD-NEALELLKKAGLEIAQMVKTL 241
                              ********************9777899**************985.567899********9999866 PP

>> PC_rep  Proteasome/cyclosome repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0      0.69   6.1e+03       2       8 ..      38      44 ..      38      53 .. 0.87
   2 ?    1.5   1.3     0.054   4.8e+02       2      12 ..      72      82 ..      72      84 .. 0.89
   3 ?   -0.0   0.0      0.16   1.4e+03      11      25 ..     198     212 ..     195     214 .. 0.87
   4 ?    4.8   0.0    0.0047        42      10      24 ..     216     229 ..     216     232 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.69
                             HHHHHHH CS
                   PC_rep  2 AllALGl 8 
                             A+l++G+
  PHY93_05135|PHY93_05135 38 AALGQGI 44
                             8999998 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.054
                             HHHHHHHHCTT CS
                   PC_rep  2 AllALGlihaG 12
                             ++++LGl +a+
  PHY93_05135|PHY93_05135 72 CAIGLGLSGAN 82
                             79*******98 PP

  == domain 3  score: -0.0 bits;  conditional E-value: 0.16
                              TTSTCHHHHHHHHHH CS
                   PC_rep  11 aGsgneeaislLkpy 25 
                              +G+ n+ ++++L p+
  PHY93_05135|PHY93_05135 198 LGNANQNTFAQLAPL 212
                              699999******997 PP

  == domain 4  score: 4.8 bits;  conditional E-value: 0.0047
                              CTTSTCHHHHHHHHH CS
                   PC_rep  10 haGsgneeaislLkp 24 
                              +a+s+ne a++lLk+
  PHY93_05135|PHY93_05135 216 CANSDNE-ALELLKK 229
                              8998888.*****96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (294 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       384  (0.0214178); expected 358.6 (0.02)
Passed bias filter:                      349  (0.0194657); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.42
# Mc/sec: 2087.64
//
Query:       PHY93_05140|PHY93_05140  [L=361]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.4e-13   50.9   1.0    2.3e-13   50.2   1.0    1.3  1  Amidohydro_1  Amidohydrolase family
    5.8e-06   26.0   1.6      0.017   14.6   0.0    2.9  3  Amidohydro_3  Amidohydrolase family


Domain annotation for each model (and alignments):
>> Amidohydro_1  Amidohydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.2   1.0   2.5e-17   2.3e-13       2     333 ..      42     352 ..      42     361 .] 0.75

  Alignments for each domain:
  == domain 1  score: 50.2 bits;  conditional E-value: 2.5e-17
                              EEE-EEEEEEECETTECSSSGHHHHHSTTHHHHHHHHHHHHHHHHTTEEEEEEEEHSSTH.....HHHHHHHHHHT......SSSE CS
             Amidohydro_1   2 vlPGlIDaHvHleqsllrgatledwlvppetaaealesgiktalksGtttvadmgattst.....giealleaaee......lplg 76 
                              ++PG+ID+HvH+ ++           ++ ++   a+e+  +t+ + Gtt+++++  t++      ++ a+++ +++        lg
  PHY93_05140|PHY93_05140  42 IIPGFIDLHVHGGGG-----------ADIMENGNAAETISRTHARFGTTSFLATTMTAPFidlekSFLAMKKTFSSrgkkeaRLLG 116
                              79**********999...........89999999**********************876699***88888886666666667557* PP

                              EEEEEESSEGGSGCCCSHHHHHHHHHHHHHHHHHHCTTTCEE.EEEEECGTCCSHHHHHHHHHHHHHHHTTEEEEEETSSCHHHHH CS
             Amidohydro_1  77 lrilggkvsldrgsaetskasreklkagaaetikgkadgvvk.valapheapafsdeelkealkeakkrdlpvaiHaletkgeved 161
                              ++++g++ s  +  a+++ a++ +l +++   +k   + +v   +l+ ++ + +  + +k+++       +++++ +++t+g +ed
  PHY93_05140|PHY93_05140 117 VHLEGPFISSQKLGAQPDFARAATL-KEI---EK--LNMIVPiKTLTLAPEVFNHMDIIKDLS------AMNIMVQIGHTNGSYED 190
                              ******9998854444444444444.444...23..334555555666666666666666666......89999999********* PP

                              HHHHHTTTEEEETTTTSTCCHHTTTHCCEEEHCTCEEE.....HHHHHHHHHHHHHHCEEHHHHHHHHSEHHHHHHHHHHHHTSC. CS
             Amidohydro_1 162 aeaafgetiehgthlevaeslglldeiklilahgvhlt.....pteaellkerlkeagvahcpfsnsilrsgrealrkaldeGvk. 241
                               ++a + ++++ thl +a+s  + +e  ++ a   h       p+   ll+ +   ++ a+   +n++  ++   +  + d + k 
  PHY93_05140|PHY93_05140 191 GVKALALGAKSFTHLFNAMSTFHHREPGMVGAALAHANhaeliPD---LLHVHPGAIKAALRSIPNLYFVTDATSATGMPDGDYKl 273
                              ********************5555554777666666663225544...55556566666677778888777777777776644445 PP

                              .EEEEEECT..........TSSCCGGHHHHHHHHHHHHHHCCTTTTHCHCHHHHHHHHHTHHHHHHTT-TTTSSSS-TTSB--EEE CS
             Amidohydro_1 242 .vglgtDga..........asgnslnlleelrlalklqrgllyedeegglslkealrmaTingAkalglddkvGsievGkdADlvv 316
                               + ++   +           +g++l++ + lr+++             gls++ea +  ++ +A+ +gl ++ G i++  + Dl v
  PHY93_05140|PHY93_05140 274 gSHIVHK-ClggvrlkdgtLAGSALTMDQALRNLI-----------SLGLSIAEASKRLSQIPAELIGL-NDRGIIKEQNYSDLLV 346
                              5333333.355566677778*******999*****...........99*********************.599************* PP

                              ECCCTCGGGTTTCTSEE CS
             Amidohydro_1 317 vdldilaafvglkkdgn 333
                              +           ++d +
  PHY93_05140|PHY93_05140 347 L-----------NDDLT 352
                              9...........44444 PP

>> Amidohydro_3  Amidohydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.7   0.1   0.00023       2.1      11      25 ..      43      55 ..      42      85 .. 0.72
   2 ?    1.3   0.0      0.02   1.8e+02     207     296 ..     163     251 ..     127     271 .. 0.73
   3 !   14.6   0.0   1.9e-06     0.017     392     449 ..     299     351 ..     293     355 .. 0.87

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.00023
             Amidohydro_3 11 lPGFvDsHtHlaggg 25
                             +PGF+D H H  ggg
  PHY93_05140|PHY93_05140 43 IPGFIDLHVH--GGG 55
                             8*********..444 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.02
             Amidohydro_3 207 i.....ikelldaaerlglplspgseeltigavklfadgvlgsrtalltepyf..tgwpdfedealaelvaaadergldvaihaig 285
                                    ik+l + + +++  +++gs+e  ++a++l+a+        ++t+ +   ++  + e + + + +a a++++l  +++   
  PHY93_05140|PHY93_05140 163 FnhmdiIKDLSAMNIMVQIGHTNGSYEDGVKALALGAK--------SFTHLFNamSTFHHREPGMVGAALAHANHAELIPDLLHVH 240
                              144455688888899999999999************99........4444433433556666666999999999999988888888 PP

             Amidohydro_3 286 daavddvldaf 296
                               +a+ ++l+ +
  PHY93_05140|PHY93_05140 241 PGAIKAALRSI 251
                              88888777766 PP

  == domain 3  score: 14.6 bits;  conditional E-value: 1.9e-06
             Amidohydro_3 392 mrktrrggevlrpdeelsleealalyTrgpAkalgledrkGtLevGadADlvvldadp 449
                              m ++ r+     ++  ls+ ea + +++ pA+++gl dr G +++  + Dl vl++d+
  PHY93_05140|PHY93_05140 299 MDQALRNL----ISLGLSIAEASKRLSQIPAELIGLNDR-GIIKEQNYSDLLVLNDDL 351
                              55555554....77889*********************9.**************9885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (361 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       292  (0.0162865); expected 358.6 (0.02)
Passed bias filter:                      275  (0.0153383); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 2712.30
//
Query:       PHY93_05145|PHY93_05145  [L=338]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      1e-25   90.1   2.2    4.8e-12   45.9   0.1    2.5  2  SIS              SIS domain
     0.0038   17.2   0.5       0.01   15.9   0.0    1.9  2  DUF4315          Domain of unknown function (DUF4315)
  ------ inclusion threshold ------
      0.028   14.5   0.1        1.2    9.2   0.0    2.9  3  SIS_2            SIS domain
      0.046   13.6   0.0      0.098   12.5   0.0    1.6  1  Transketolase_C  Transketolase, C-terminal domain


Domain annotation for each model (and alignments):
>> SIS  SIS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.9   0.3   4.5e-15     2e-11       7     124 ..      41     158 ..      33     165 .. 0.90
   2 !   45.9   0.1   1.1e-15   4.8e-12       2      85 ..     198     282 ..     197     317 .. 0.92

  Alignments for each domain:
  == domain 1  score: 43.9 bits;  conditional E-value: 4.5e-15
                              EEEEEESHHHHHHHHHHHHHH.HHHHTSEEEEEEHHHHHHTGGGG-STTCEEEEEESSSHHHHHHHHHHHHHHTTSEEEEEESSTT CS
                      SIS   7 riyvlGaGtsyaiakelalkl.eeiggivvevedaselkhgvlalideddlvilisfsgetkdlvaaaelakergakiiaITdskg 91 
                              +++ +++G+s ++a++l + + +++g+ + + + ++  +++  +l  ++ + i+is+sg ++d+v+ +e++k+ +a++ a+ +  +
  PHY93_05145|PHY93_05145  41 SVVSIARGSSDHAAQYLNYLVtAKMGKLTTSLSMSALTQYQ-ANLDVSRSIGIAISQSGQSPDVVKPIEYMKSHNAPTFALVNDIH 125
                              67889****************88888888888877776666.7777789999********************************** PP

                              SHHHHHSSEEEEEEEECHCSSSHCHHHHHHHHH CS
                      SIS  92 splareadlalyinaepetlvastksltaqlaa 124
                              spla  +  ++ ++a+pe  va+tks+ a+l+a
  PHY93_05145|PHY93_05145 126 SPLASVSEWTIPLHAGPEKAVAATKSFIASLTA 158
                              ******************************987 PP

  == domain 2  score: 45.9 bits;  conditional E-value: 1.1e-15
                              HCTSSEEEEEESHHHHHHHHHHHHHHHHHHTSEEEEEEHHHHHHTGGGG-STTCEEEEEE.SSSHHHHHHHHHHHHHHTTSEEEE CS
                      SIS   2 LakakriyvlGaGtsyaiakelalkleeiggivvevedaselkhgvlalideddlvilis.fsgetkdlvaaaelakergakiia 85 
                              L +akri v+G+G+  a+a+e+alkl+e+  i +e+ +a+e+khg+ ali+e+ ++++++ + +    ++++a  +k+rga++i+
  PHY93_05145|PHY93_05145 198 LKEAKRIMVVGRGYGLALALEAALKLKETCSIQAEAFSAAEIKHGPQALIEEGYPLLIFAnRGPALLGMLDLAADMKARGANVIL 282
                              789*********************************************************45555666777777*******9985 PP

>> DUF4315  Domain of unknown function (DUF4315)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.1         1   4.6e+03      33      42 ..      21      30 ..       6      32 .. 0.72
   2 !   15.9   0.0   2.2e-06      0.01      22      56 ..     289     323 ..     275     336 .. 0.91

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 1
                  DUF4315 33 aENleIvqlV 42
                              EN +I++ V
  PHY93_05145|PHY93_05145 21 SENQQILDEV 30
                             4888888766 PP

  == domain 2  score: 15.9 bits;  conditional E-value: 2.2e-06
                  DUF4315  22 rlkelekqktEaENleIvqlVramklspeeLaall 56 
                              + k+le q t aE l+I+ ++++  l  eeLa  l
  PHY93_05145|PHY93_05145 289 KDKQLEIQTTHAEELDIITAIQSFYLMAEELARSL 323
                              5699***************************9755 PP

>> SIS_2  SIS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   0.0   0.00026       1.2     108     137 ..      92     121 ..      64     122 .. 0.90
   2 ?    1.8   0.0     0.048   2.2e+02      30      65 ..     196     231 ..     192     249 .. 0.85
   3 ?   -1.8   0.0      0.62   2.8e+03     118     134 ..     265     281 ..     244     283 .. 0.71

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.00026
                              EEE-SS--SHHHHHHHHHHHHHT-EEEEEE CS
                    SIS_2 108 lviSnsGnnavvveaaeaakergmkviAlt 137
                              + iS+sG+++ vv+ +e+ k+  +++ Al+
  PHY93_05145|PHY93_05145  92 IAISQSGQSPDVVKPIEYMKSHNAPTFALV 121
                              89************************9997 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.048
                              HHHHTT--EEEEESGGGHHHHHHTSSSTT-BTTEEE CS
                    SIS_2  30 dslenggkvlvfGsGhSaalaeelaaragglaefer 65 
                              ++l++ ++++v G G   ala e+a ++   + +++
  PHY93_05145|PHY93_05145 196 KTLKEAKRIMVVGRGYGLALALEAALKLKETCSIQA 231
                              5789999*****************999888877765 PP

  == domain 3  score: -1.8 bits;  conditional E-value: 0.62
                              HHHHHHHHHHHHT-EEE CS
                    SIS_2 118 vvveaaeaakergmkvi 134
                               ++++a   k+rg++vi
  PHY93_05145|PHY93_05145 265 GMLDLAADMKARGANVI 281
                              46788999999999998 PP

>> Transketolase_C  Transketolase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   2.2e-05     0.098       4      54 ..     196     247 ..     194     289 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 2.2e-05
                              EEEETTSSEEEEEETTHHHHHHHHHHHHHTT.TTCEEEEE-SEEESHHHHHH CS
          Transketolase_C   4 eilregkdvtlvayGsmveealeAaeeLeke.gisaeVvdlrtvkplDketi 54 
                              ++l+e k++++v+ G  +  aleAa +L++   i+ae  ++  +k   +++i
  PHY93_05145|PHY93_05145 196 KTLKEAKRIMVVGRGYGLALALEAALKLKETcSIQAEAFSAAEIKHGPQALI 247
                              67899************************99889998888777776555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (338 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       739  (0.0412181); expected 358.6 (0.02)
Passed bias filter:                      616  (0.0343577); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.54u 0.26s 00:00:00.80 Elapsed: 00:00:00.42
# Mc/sec: 2415.11
//
Query:       PHY93_05340|PHY93_05340  [L=352]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.1e-32  110.8   0.3    1.1e-31  109.8   0.1    1.7  2  Glyco_transf_28  Glycosyltransferase family 28 N-terminal dom
      1e-23   84.2   0.1    1.6e-23   83.5   0.1    1.3  1  Glyco_tran_28_C  Glycosyltransferase family 28 C-terminal dom
     0.0013   18.7   0.1     0.0041   17.1   0.1    1.9  1  Alg14            Oligosaccharide biosynthesis protein Alg14 l


Domain annotation for each model (and alignments):
>> Glyco_transf_28  Glycosyltransferase family 28 N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  109.8   0.1   1.8e-35   1.1e-31       2     139 .]       6     146 ..       5     146 .. 0.94
   2 ?   -3.5   0.0       1.6   9.7e+03      18      43 ..     205     233 ..     203     240 .. 0.70

  Alignments for each domain:
  == domain 1  score: 109.8 bits;  conditional E-value: 1.8e-35
                              EEEE-SSHHHHHHHHHHHHHHHCT.T-EEEEEEETCCCHHHHHHCCT-EEEE---GHCTT..CHHHHCCHHHHHHHHHHHHHHHHH CS
          Glyco_transf_28   2 vllggGTgGhvfPalAlakeLkke.gheVrylgtkrgleerlveeaglefepiageklrrklspknlkeilkvlkavvkakkilke 86 
                              +++ggG+gGhv Pal + k++ ++ + +++y+g  + +e++lv +++l+++pi ++klrr+ls +n+k++lkv+ ++++a+k+l +
  PHY93_05340|PHY93_05340   6 IFTGGGSGGHVMPALTVLKKVNAKnEFDIHYIGGINSIERELVADYQLTYHPIHTGKLRRYLSIENFKDTLKVFMGLIDAFKVLWK 91 
                              79*******************865268899******************************************************98 PP

                              H..HHCCCCCCCCCCCHCCCCCHCCCTTHCCCCCHCTS-ECCCCCCCCC-SCCCE CS
          Glyco_transf_28  87 a..kpdavvgtggyvslpaviaaplaripviihEqnaipglanktlsrtatkvai 139
                              +  + +++++tgg+v +p+viaa+l   +v+ihEq ++ glank++s +a+kv+i
  PHY93_05340|PHY93_05340  92 FsrRETLIFSTGGFVCVPVVIAAKLQCKKVFIHEQTSRVGLANKISSIFADKVFI 146
                              83346899*********************************************86 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 1.6
                              HHHHHHCTT-EEE...EEEETCCCHHHHH CS
          Glyco_transf_28  18 lakeLkkegheVr...ylgtkrgleerlv 43 
                              l+++L++++ +V    y++ ++  + +++
  PHY93_05340|PHY93_05340 205 LINKLIQRNLDVLtsrYVIVHQVGKAFIN 233
                              56778888888866677777777777764 PP

>> Glyco_tran_28_C  Glycosyltransferase family 28 C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   83.5   0.1   2.6e-27   1.6e-23       2     137 ..     194     324 ..     193     344 .. 0.85

  Alignments for each domain:
  == domain 1  score: 83.5 bits;  conditional E-value: 2.6e-27
                              EEEEE-SSSHHHHHCCCTSHHHHHHHHHHHHCHHHCCT-E.EC---STT-TTTTCEEEEEESS.SSHHHHHHHH-EEEECS-CHHH CS
          Glyco_tran_28_C   2 ilVtGGSqgaeaLnelvlselkllelksrelqvlhqtGkr.eleevkikveeltlkvevfefi.dkmaeaikaadLvIsRAGagti 85 
                              ++VtGG  ga+ +n+l++ +l  l+ +   + ++hq+Gk    e ++ k++++      ++fi ++m ++ k a + +sR+Gagt+
  PHY93_05340|PHY93_05340 194 LFVTGGGNGAQLINKLIQRNLDVLTSR---YVIVHQVGKAfINEYINYKHPNYL----PVAFIgPEMIDLFKLATVTVSRSGAGTV 272
                              8*************************9...9*******9966666777788883....34444389******************** PP

                              HHHHHTT--EEEE--TT....S-HHHHHHHHHHHHHHSSEEEE-STTCHHHH CS
          Glyco_tran_28_C  86 aEllalgkplIlvplpeaaenhqdnNakelekagaalvleqkeltpekLeea 137
                              +El a+gk +I++pl+ a++n+q  Na e +k+++ +++e+kelt ++   a
  PHY93_05340|PHY93_05340 273 CELIAVGKRSIYIPLKIAQKNEQFFNALEAHKKLGSIIIEEKELTDDSFLVA 324
                              ********************************************96554444 PP

>> Alg14  Oligosaccharide biosynthesis protein Alg14 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.1   6.9e-07    0.0041       6     159 ..      11     148 ..       5     165 .. 0.71

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 6.9e-07
                    Alg14   6 GSGGHTaEmlrllkklekeknikrtyvvssgDelSaekakelesskaeeeevelvkipraReVgqsylssifttllsllsaillvl 91 
                              GSGGH    l +lkk++ ++   ++y+ + +   S e+    + + + ++   +++ +  R      ++  +++++ l+ a+++++
  PHY93_05340|PHY93_05340  11 GSGGHVMPALTVLKKVNAKNEFDIHYIGGIN---SIERELVADYQLTYHP---IHTGKLRRYLSIENFKDTLKVFMGLIDAFKVLW 90 
                              9***************888888888886653...5555444444444434...5555555666777799999************** PP

                    Alg14  92 rekrlpdvilvNGPgtcvpvvlaalllkllallkrskivyv.EslarvktlSLsGklllplaDrfvVqw 159
                              +  r   +i+  G  +cvpvv+aa+l          k v++ E  +r   + L+ k+   +aD++++ +
  PHY93_05340|PHY93_05340  91 KFSRRETLIFSTGGFVCVPVVIAAKLQC--------KKVFIhEQTSR---VGLANKISSIFADKVFISF 148
                              *99999****************998742........22333133333...3455555555555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (352 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       399  (0.0222544); expected 358.6 (0.02)
Passed bias filter:                      332  (0.0185175); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.43
# Mc/sec: 2444.81
//
Query:       PHY93_17390|PHY93_17390  [L=589]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.7e-43  147.0   0.0    8.5e-43  146.5   0.0    1.2  1  Peptidase_M24    Metallopeptidase family M24
      5e-16   59.6   0.0    3.2e-12   47.2   0.0    2.4  2  Creatinase_N     Creatinase/Prolidase N-terminal domain
    1.7e-11   44.5   0.0    2.2e-10   40.9   0.0    2.6  3  Creatinase_N_2   Creatinase/Prolidase N-terminal domain
    8.6e-09   35.3   0.0    4.3e-08   33.1   0.0    2.2  2  Peptidase_M24_C  C-terminal region of peptidase_M24


Domain annotation for each model (and alignments):
>> Peptidase_M24  Metallopeptidase family M24
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  146.5   0.0   1.9e-46   8.5e-43      16     208 ..     343     536 ..     325     537 .. 0.87

  Alignments for each domain:
  == domain 1  score: 146.5 bits;  conditional E-value: 1.9e-46
                              HHHHHHHTTC..BHHHHHHHHHHHHHHHTTTCEESSSSEEEEGGGGGSTTT.BCS.SSB--TTEEEEEEEEEEET.TEEEEEEEEE CS
            Peptidase_M24  16 avleaikpgv..terelaaeieattlkrhgarglafppivasgenaavlhy.tpn.drvlkegdlvlidagaeyd.gyasDitrTv 96 
                               ++e++k gv  te +   + +++ +k++ga +l+f++i a+g+n++++h+ +p+ d v+ke++l+l+d+g+ ++ gya+D+trT+
  PHY93_17390|PHY93_17390 343 WIKEQVKNGVhlTELDFFHKTNEF-YKNNGALELSFKTISAVGANSSIIHFsNPSaDVVIKEDELLLLDSGGYFEsGYATDTTRTF 427
                              223445566655777777788777.9*************************888757779************************** PP

                              ECS.SGSHHHHHHHHHHHHHHHHHHHC-ST.TSBHHHHHHHHHHHHHHTTBCCGBSSCSEEEESSSSSEEEEEESSSTTCSSB--T CS
            Peptidase_M24  97 lvG.kftpeqrelyeavleaqeaaikavkp.GvtlseidaaarevlesaglakffphglGHgvGlevhdegpsvsresndgrklee 180
                              l G + +++q+e+y++vl+   +a +av+p G+ +s id +ar+ + ++gl  ++ hg+GHgvG++vh++g ++s  + ++++l+e
  PHY93_17390|PHY93_17390 428 LSGgSASNRQKEIYTLVLKSILHAQNAVFPeGTWGSVIDGVARQPVFKHGL--NYNHGTGHGVGINVHEGGYRIS--TTSTVPLKE 509
                              655499999*********************9********************..88*************9955588..578****** PP

                              TBEEEEEEEEEEETTTEEEEEBEEEEEE CS
            Peptidase_M24 181 GmvftiEpgiyfapgeggvriedtvlvt 208
                              + v ++Epgiy +pg ggvr+e+ + + 
  PHY93_17390|PHY93_17390 510 NTVGSLEPGIY-IPGFGGVRLENIMAIE 536
                              ***********.9**********99886 PP

>> Creatinase_N  Creatinase/Prolidase N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.2   0.0   7.1e-16   3.2e-12       2     119 ..      16     144 ..      15     157 .. 0.89
   2 !    9.7   0.0   0.00028       1.3      16     123 ..     189     308 ..     186     314 .. 0.76

  Alignments for each domain:
  == domain 1  score: 47.2 bits;  conditional E-value: 7.1e-16
                              HHHHHHHHHHTT-SEEEEECC............HHHHHHHSS...-SSSEEEEEEESSCE.EEEEECTTHHHHHHHH.TTSEEEEE CS
             Creatinase_N   2 lerlralmeekgldallvtsp............enlrYltGfatetgsrglalvvtadga.lllvdalryteaaeesatveevvey 74 
                              +++l+ +m+ ++ld+++++s+             +++Y+t+f   tgs   ++ v+ +g+ +l+vd +ry e+a  +  ++++ve+
  PHY93_17390|PHY93_17390  16 IQKLKSFMRSNKLDSFYISSSdiflneyvplpdCHRYYVTNF---TGSTAEVI-VPLNGEvILFVD-GRYYEQADIE-ADPAIVEV 95 
                              79****************************************...********.******999999.9999999999.9******9 PP

                              ST......HSSHHHHHHHHHHHHT-EEEE-TTSSBHHHHHHHHHHCTTSEE CS
             Creatinase_N  75 dd......pvealadllkellesekrvgveldaltvafyealkealpdael 119
                               +       + a+ ++++e+++  k++gve d +  + ++++ + +  +++
  PHY93_17390|PHY93_17390  96 YKcpygmgLQTAMKEIIRERGL--KNLGVEGDRIDISLFKEFSNLINVKSF 144
                              9999777777777777777766..**************9999888744444 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.00028
                              EEEEECCHHHHHHHSS.........-SSSEEEEEEESSCEEEEEECTTHHHHHHHH...........TTSEEEEEST.......HS CS
             Creatinase_N  16 allvtspenlrYltGfa......tetgsrglalvvtadgalllvdalryteaaees..........atveevveydd.......pv 78 
                              a+++t  +++ ++t+ +      + t+++ +++  t+d+ +ll+   +   +  e                              +
  PHY93_17390|PHY93_17390 189 AFFITALDSIAWITNLRrfempfQSTFRAKALA--TRDNVYLLLENIEGVVQCLEIeisvgkfselE---------NfldlvteYE 263
                              899*************99966544444444444..99999999998888888877775664444443.........2333444456 PP

                              SHHHHHHHHHHHHT-EEEE-TTSSBHHHHHHHHHHCTTSEEEETH CS
             Creatinase_N  79 ealadllkellesekrvgveldaltvafyealkealpdaelvdas 123
                               ++ ++l+   ++ ++v   +++l +a +++lk+++ +  lv+ s
  PHY93_17390|PHY93_17390 264 TTWKKFLGAETQKIEKVFYSDRSLNAADFQKLKKHFGEDILVNRS 308
                              89999999998888**********************887777655 PP

>> Creatinase_N_2  Creatinase/Prolidase N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.0      0.26   1.2e+03      20      47 ..      10      37 ..       5      38 .. 0.89
   2 ?   -2.1   0.0      0.82   3.7e+03      69      87 ..      63      81 ..      60     120 .. 0.78
   3 !   40.9   0.0   4.8e-14   2.2e-10      10     161 .]     164     322 ..     159     322 .. 0.72

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.26
                             S-HHHHHHHHHHHHHHTT-SEEEE-SHH CS
           Creatinase_N_2 20 esvaeKlerlrkelkkkkadalvlsald 47
                             e++++ +++l + ++++k d + +s+ d
  PHY93_17390|PHY93_17390 10 EDIKQNIQKLKSFMRSNKLDSFYISSSD 37
                             678999*********99*****999987 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 0.82
                             EEEEES.S-EEEEE-GGG- CS
           Creatinase_N_2 69 yaivtkdekatLFvdeekl 87
                              +iv  +++++LFvd +  
  PHY93_17390|PHY93_17390 63 EVIVPLNGEVILFVDGRYY 81
                             5788778899****98755 PP

  == domain 3  score: 40.9 bits;  conditional E-value: 4.8e-14
                              -EE--HHHHSS-HHHHHHHHHHHHHHTT-SEEEE-SHHHHHHHTTEE--SBTTB----EEEEEES.S-EEEEE-GGG-..-HHHHH CS
           Creatinase_N_2  10 vfvlpeeyaGesvaeKlerlrkelkkkkadalvlsaldeiAWllNlRGsDipynPvflsyaivtkdekatLFvdeeklteevkehl 95 
                              +++lp+++ Ge++  K++rl +       +a++++ald+iAW++NlR   +p+   f + a+ t+d +++L +++ +    v + l
  PHY93_17390|PHY93_17390 164 IRELPLDLVGETTLAKCQRLLNPG-----EAFFITALDSIAWITNLRRFEMPFQSTFRAKALATRD-NVYLLLENIE---GVVQCL 240
                              778999999999999999987655.....57********************************975.9999988765...366666 PP

                              HHTTEEEE-GGGHHHHHHHHHH.HH............----EEE-TTSBHHHHHHH-....GGGEEE-S-HHHHHHHC--HHH CS
           Creatinase_N_2  96 eengveikpyeevvsdlkalas.as............kkkvlldpsktsyalasalk....ekkvveeespiallKavKNevE 161
                              e  ++++ +++e+ ++l+ +++ ++             +kv+ +++++++a +++lk    e+ +v++++ +  l a KN++E
  PHY93_17390|PHY93_17390 241 E-IEISVGKFSELENFLDLVTEyETtwkkflgaetqkIEKVFYSDRSLNAADFQKLKkhfgEDILVNRSEGLVPLHASKNPAE 322
                              3.334444444444444433332112222333333336788888899999999999777855555666788999999999988 PP

>> Peptidase_M24_C  C-terminal region of peptidase_M24
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.6   0.0       2.7   1.2e+04       5      11 ..     338     344 ..     335     349 .. 0.68
   2 !   33.1   0.0   9.6e-12   4.3e-08       2      41 ..     544     583 ..     543     586 .. 0.95

  Alignments for each domain:
  == domain 1  score: -3.6 bits;  conditional E-value: 2.7
                              EEES--- CS
          Peptidase_M24_C   5 FetlTlv 11 
                              Fet+T++
  PHY93_17390|PHY93_17390 338 FETITWI 344
                              6777764 PP

  == domain 2  score: 33.1 bits;  conditional E-value: 9.6e-12
                              EEEEEES------STT--GGGS-HHHHHHHHHHHHHHHHH CS
          Peptidase_M24_C   2 fleFetlTlvPidrklIdvslLtpeEiawLnaYhakvrek 41 
                              +l+F++l l+ +d +lI+ s+L++eEiawL +Y +++ ++
  PHY93_17390|PHY93_17390 544 MLHFRSLVLIGFDHDLINESMLSAEEIAWLETYERECQAR 583
                              89**********************************9875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (589 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       483  (0.0269396); expected 358.6 (0.02)
Passed bias filter:                      398  (0.0221987); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.62u 0.24s 00:00:00.86 Elapsed: 00:00:00.43
# Mc/sec: 4080.57
//
Query:       PHY93_05150|PHY93_05150  [L=434]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.3e-13   50.4   0.8    1.3e-13   50.4   0.8    1.9  3  Condensation  Condensation domain
    0.00044   18.9   4.6      0.063   11.8   1.4    2.9  2  AATase        Alcohol acetyltransferase


Domain annotation for each model (and alignments):
>> Condensation  Condensation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.4   0.8   1.5e-17   1.3e-13      21     171 ..      24     168 ..       8     179 .. 0.85
   2 ?   -3.8   0.1      0.43   3.8e+03      37      62 ..     209     236 ..     189     244 .. 0.50
   3 ?   -1.0   0.0     0.059   5.3e+02     403     429 ..     405     431 ..     397     434 .] 0.80

  Alignments for each domain:
  == domain 1  score: 50.4 bits;  conditional E-value: 1.5e-17
                              SSSSSTTEEEEEEEEES---HHHHHHHHHHHHHH-SSCCEEEEE..TTEEEEEE-TT-----.EEEE-T..TSSSHHHHHHHHHHH CS
             Condensation  21 eeessaynmqavlklegeldlerlekalqelierhdaLRtvfleeengepvQvileerevel.evleisdleeseeeeaieefaqk 105
                              e e  +yn q++++++g + l+ ++ a+++ i+  + LR  ++ e   ++  +++ +++++  +v++++  e+  +++ i++f qk
  PHY93_05150|PHY93_05150  24 ESEYVSYNSQIMVEFKGDVRLDDMRIAIDKAIKEIPLLRSYIE-ETAFNFKRFYKAQADFNSrQVIDFR--EDVLDQNSIDQFCQK 106
                              455679*********************************9995.5588888899999***99899****..66666899******7 PP

                              HHTC--SCCCS-SEEEEEEESSTTEEEEEEEEECCT--TTTHHHHHHHHHHHHHHHHTT------- CS
             Condensation 106 dlqepfdLekgpLfraalfkiaenrlllllsvHHiivDGvSlgillrdlaklYqqlekgeelplpq 171
                                  +fdL+k+p f++ + k ++++  ll++vHH++ D+     ll++++++ + le  e  ++ +
  PHY93_05150|PHY93_05150 107 ----KFDLSKSPAFKFLIGKTSTQKNILLFNVHHTLCDAAGQFHLLEEIFRAMNGLEIREGAKTDK 168
                              ....*********************************************99995555444444443 PP

  == domain 2  score: -3.8 bits;  conditional E-value: 0.43
                              S---HHHH..HHHHHHHHHH-SSCCEEE CS
             Condensation  37 geldlerl..ekalqelierhdaLRtvf 62 
                                 +++r+  +++ q  ++  d++Rt +
  PHY93_05150|PHY93_05150 209 HHDKPQRFvtSTTHQLSTNDQDIIRTAC 236
                              3333333311223344455556666665 PP

  == domain 3  score: -1.0 bits;  conditional E-value: 0.059
                              SEEEEEEEETTTS-HHHHHHHHHHHHH CS
             Condensation 403 kltikieYntslFdeetierflerlke 429
                              + t++ieY ++l ++etie f++ l++
  PHY93_05150|PHY93_05150 405 AETLTIEYLKDLTEKETIESFKTNLLN 431
                              557899999999999999999988765 PP

>> AATase  Alcohol acetyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   0.1     0.023     2e+02       4      71 ..      15      82 ..      13     100 .. 0.78
   2 !   11.8   1.4     7e-06     0.063     137     309 ..     111     258 ..      88     282 .. 0.63

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 0.023
                   AATase  4 slEkyfvvrnrqklysnfsvyaelnkevdkeqLalalrslilknpiLaaniipkkfpeheayyssdey 71
                             slEk+ ++ +++ +  n  + +e++  v  +++  a+ ++i + p L   i    f+ +  y    ++
  PHY93_05150|PHY93_05150 15 SLEKFILAHESEYVSYNSQIMVEFKGDVRLDDMRIAIDKAIKEIPLLRSYIEETAFNFKRFYKAQADF 82
                             57888888888888888888888888888888888888888888888888887777766666555555 PP

  == domain 2  score: 11.8 bits;  conditional E-value: 7e-06
                   AATase 137 pkkPlwrlivlpsaddkkkwkkfv.fitdHllfDGisgvnffkdlleelekikqdnalkkdevildyekdveelekLPkpieekvd 221
                               k+P ++ ++ + + ++   k+ + f   H+l+D+    ++++++   ++ ++  +   k + +++y         L k + ++  
  PHY93_05150|PHY93_05150 111 SKSPAFKFLIGKTS-TQ---KNILlFNVHHTLCDAAGQFHLLEEIFRAMNGLEIREG-AKTDKVFRYRD-------LWKHMGWRWF 184
                              56777777777664.22...4555588888888888888888888888887777776.56667777743.......3344445433 PP

                   AATase 222 yrpsllalpklllvsfiasklnfkkseekp...ltkehsavqksnkshqiilkispeevkkirakikknvhgkatlTpflqavffv 304
                              +   +++l +            ++k+ +++   l  +h+  q+  +s     ++s+++   ir+ +kk    + ++T +l+ + f 
  PHY93_05150|PHY93_05150 185 FGHVYSQLRP------------LSKQRQYQmatLIDHHDKPQRFVTST--THQLSTNDQDIIRTACKKF---DISITEYLTYCCFK 253
                              3333333222............33333333000333344443333444..3356777888899999999...99999999999999 PP

                   AATase 305 alykl 309
                              al  +
  PHY93_05150|PHY93_05150 254 ALDTS 258
                              99875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (434 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       531  (0.0296168); expected 358.6 (0.02)
Passed bias filter:                      375  (0.0209158); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.25s 00:00:00.81 Elapsed: 00:00:00.43
# Mc/sec: 3034.04
//
Query:       PHY93_05155|PHY93_05155  [L=271]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-08   34.6   0.1    2.7e-08   33.5   0.1    1.6  1  Acyltransferase  Acyltransferase
     0.0028   16.6   0.0     0.0056   15.6   0.0    1.4  2  DAGAT            Diacylglycerol acyltransferase


Domain annotation for each model (and alignments):
>> Acyltransferase  Acyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.5   0.1     3e-12   2.7e-08       2     134 ..      30     160 ..      29     161 .. 0.83

  Alignments for each domain:
  == domain 1  score: 33.5 bits;  conditional E-value: 3e-12
          Acyltransferase   2 vrvtglenlpekgpailvaNHqsy..lDvlllwlllyksngp.rnvviiakkellsipllgflmrllgfifidRksnaraagslen 84 
                              ++++glen+p+  p+++v+NH++   +      ++l+ + gp  +++   + +++++p++++ ++ +g+++++           e 
  PHY93_05155|PHY93_05155  30 LKIEGLENIPTIAPLLFVSNHNIGalIESHSSLFILQGKLGPnSTIYGFTHPSIFKVPGIKHYFEWIGAVPATY----------EV 105
                              789********************9644444444444333344589999999*********************99..........78 PP

          Acyltransferase  85 iselleegklvviFPEGtrsre.......gellpfkkGlvrlaakakkgvpivPvai 134
                              + +++++g  ++iFP G r           ++++++ G +++a+++  +vp++P+++
  PHY93_05155|PHY93_05155 106 ADDIFKKGHSLMIFPGGNRQALrsiwnfrDNHFRWSHGWAKIALEH--NVPVIPITF 160
                              8889*************8887756776644449*************..*******86 PP

>> DAGAT  Diacylglycerol acyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   6.2e-07    0.0056     103     186 ..      79     159 ..      69     168 .. 0.90
   2 ?   -3.5   0.0      0.44   3.9e+03     220     254 ..     207     242 ..     194     256 .. 0.63

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 6.2e-07
                    DAGAT 103 tLagqfrtpfrreillllGlievsresieyvLdkeekGravvlvvGGaeealeahpgketltLkkrkGfvkialktGadLvPvy 186
                              t +++f++p  ++++ ++G ++++ e  + + +k++   ++++ +GG + al +  +         +G+ kial++  +++P+ 
  PHY93_05155|PHY93_05155  79 THPSIFKVPGIKHYFEWIGAVPATYEVADDIFKKGH---SLMIFPGGNRQALRSIWNFRDNHFRWSHGWAKIALEHNVPVIPIT 159
                              55689*******************999999987655...5****************************************9985 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 0.44
                    DAGAT 220 ppilyGrglfnsltlGllPf.rkpittvvGkPievt 254
                              +    G  lf + ++ +l f   p+++v   Pi+++
  PHY93_05155|PHY93_05155 207 LLKSVGAPLFLNIAITYLIFvLTPLSIVFPCPIKMK 242
                              555556666666666665541467777777777654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (271 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       310  (0.0172904); expected 358.6 (0.02)
Passed bias filter:                      195  (0.0108762); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 2027.38
//
Query:       PHY93_05160|PHY93_05160  [L=420]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.2e-10   38.9   3.9    1.1e-09   37.6   0.9    2.1  2  Condensation  Condensation domain


Domain annotation for each model (and alignments):
>> Condensation  Condensation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.6   0.9     6e-14   1.1e-09      17     176 ..      19     163 ..       8     172 .. 0.84
   2 !    2.0   0.1    0.0036        65     407     428 ..     396     417 ..     388     420 .] 0.88

  Alignments for each domain:
  == domain 1  score: 37.6 bits;  conditional E-value: 6e-14
                              HHHHSSSSSTTEEEEEEEEES---HHHHHHHHHHHHHH-SSCCEEEEE..TTEEEEEE-TT-----EEEE-T..TSSSHHHHHHHH CS
             Condensation  17 lekleeessaynmqavlklegeldlerlekalqelierhdaLRtvfleeengepvQvileerevelevleisdleeseeeeaieef 102
                              +  +e es  +n  +vl++eg +d++ + +a+++li+  +   ++   e++g++ Q+  ++  +e ++  +s   e+e    +e+f
  PHY93_05160|PHY93_05160  19 ILAFESESINFNSHLVLEFEGDIDVSKIISAFKKLISVEPLTWIIP-DEKTGRFQQKSYDSILIENQISILS---ENE----LENF 96 
                              4567889999**************************9877655555.666*********9999999666666...444....7899 PP

                              HHHHHTC--SCCCS-SEEEEEEESSTTEEEEEEEEECCT--TTTHHHHHHHHHHHHHHHHTT-------S--.HH CS
             Condensation 103 aqkdlqepfdLekgpLfraalfkiaenrlllllsvHHiivDGvSlgillrdlaklYqqlekgeelplpqktp.Yk 176
                                k    +f+ ++++ +r al+k +++ l +++s+HH i DG     +l+d+ ++Y    +g++++  + ++ Yk
  PHY93_05160|PHY93_05160  97 WDK----KFNFSEEIAIRLALVKENDKFLKMIISFHHSIYDGHAQFNFLKDFLDIY----NGNNYQPRTLNDvYK 163
                              996....****************9999999**************************....666666666555544 PP

  == domain 2  score: 2.0 bits;  conditional E-value: 0.0036
                              EEEEETTTS-HHHHHHHHHHHH CS
             Condensation 407 kieYntslFdeetierflerlk 428
                               ieY +++F+ eti+rf+e l+
  PHY93_05160|PHY93_05160 396 CIEYLRDAFKVETIQRFKELLL 417
                              589**************99775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (420 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       714  (0.0398237); expected 358.6 (0.02)
Passed bias filter:                      393  (0.0219198); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.22s 00:00:00.78 Elapsed: 00:00:00.42
# Mc/sec: 2972.53
//
Query:       PHY93_05165|PHY93_05165  [L=449]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      5e-80  269.5   0.7    5.8e-80  269.3   0.7    1.0  1  p450      Cytochrome P450


Domain annotation for each model (and alignments):
>> p450  Cytochrome P450
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  269.3   0.7   3.2e-84   5.8e-80       1     447 [.      11     434 ..      11     448 .. 0.88

  Alignments for each domain:
  == domain 1  score: 269.3 bits;  conditional E-value: 3.2e-84
                              --SESEHHCCHCHHHHTTTCCHHHHHHHHHHHH-SEEEEEETTEEEEEEESHHHHHHHHCTSTTTTCEESSHHHHHHHHHTTTTSS CS
                     p450   1 Ppgptplplvgnllqlgrkeelhevlrklqkkygpifrlklgskpvvvlsgpeavkevlikkgeefsgrpdeallatsrkpfkgkg 86 
                              Pp  +   l+g+l   +  +e   ++++++k +g+ +rlk+g++++ +  +pe+ kevl++k ++f +  ++  l+      +g+g
  PHY93_05165|PHY93_05165  11 PPLIKGKFLFGHLMAAK--KEGVYFYTRMSKDHGDALRLKFGHQTIYLFFNPEHNKEVLVDKPDQFIKGVRYEPLR----LLLGNG 90 
                              677778899****9998..455555*************************************87777766666666....699*** PP

                              STTCGHHHHHHHHHHHHHHHTSHSTTTHHHHHHHHHHHHHHHHHCCCCHCSEEETHHHHHHHHHHHHHHHHHSSHHHTTTSSHHHH CS
                     p450  87 vlfangekwkklRrfltptltsfgklsleelveeeaedlveklrkkagesselditellskaaldvigsilFgarfdlledeklse 172
                              +l+++g++w  +R++l+p + +     +  l+  ++ +  ++  +k +e   ++ t+++++++l+v ++ +Fga+f   ed+kl +
  PHY93_05165|PHY93_05165  91 LLTSTGKDWSAQRKMLNPLFGKE---GMDILLIHINYISEKYSSPKINEE--INWTKYMFEYTLEVAFTSFFGANFL--EDQKL-K 168
                              ********************977...444444444444445555666666..**********************966..77755.9 PP

                              HHHHHHHHHHHHHCHHHHCCCCCHHHTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHCHCHCSCSSCSHHHHHHHHC.TTCTCTSS CS
                     p450 173 lvkaveelssllskssvqllllfpllkylptkllrklkeavkklkdlldklieerretldsakksrrdfldalllak.kekkgesk 257
                              l+ka  + ++++sk++ ++++++    ylp k  r++++   +lk++++ + + r ++ ds     +d+ld+l++a+ +e++++ k
  PHY93_05165|PHY93_05165 169 LLKASSDCIRFVSKRMSNIINPPI---YLPLKEHRQFRKSFLYLKKTVEGIYNSRLQDSDSP---SNDMLDLLMNAHdSESENK-K 247
                              999999999***998877777766...88999999999999*******************99...89*********97777776.* PP

                              SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHHHHHHHHC.CTTTT-HHHHCCT-HHHHHHHHHHHHHSCSSTTEE CS
                     p450 258 lsdeelaatvlellfaGvdTtsstlswaLyeLaknPevqeklreEidevl.gdkreptyddlqklpyldavikEtLRlhpvvplll 342
                              l+ +e+  ++l +l+aG++Tt+ t+sw++y+La+n evqek+ +E ++   +         l++ pyl a+i+Et+Rl+p     l
  PHY93_05165|PHY93_05165 248 LTSDEIWDQILSFLIAGHETTALTMSWFFYLLAQNSEVQEKIAQECEKNNfQFE---NSLSLSQYPYLMAAINETMRLYPSGW-IL 329
                              *********************************************988774554...5677999*******************.99 PP

                              EEESSSCEEETTEEE-TT-EEEEEHHHHHT-TTTSSSTTS--GGGGB-TTS.CTESSCTT--TTEEGGGS-TTHHHHHHHHHHHHH CS
                     p450 343 pRevtkdvvirgylipkGtevivnlyalhrdpevfpnPeeFdpeRFldekg.nskrksfaflPFGaGpRnCiGerlArmelklfla 427
                               R + ++ +i+g+ ++kG ++ v++  ++rdp  ++nP++F peRFl+     ++ +  af+PF+ G+RnCiG r+A +e+ lf +
  PHY93_05165|PHY93_05165 330 ARSAAEEATIGGFRVKKGGTIAVSPLITQRDPRWWSNPDKFIPERFLEGHDlFHQAPRNAFIPFSIGKRNCIGSRFALLEIALFAI 415
                              9************************************************9985568999*************************** PP

                              HHHHHEEEEESTSTSGGEEE CS
                     p450 428 tlLqnFevelqpetdpppil 447
                              ++++n +v +  +td++++ 
  PHY93_05165|PHY93_05165 416 HFFKNHRVNT-TQTDVKMKG 434
                              *********8.567777654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (449 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       469  (0.0261587); expected 358.6 (0.02)
Passed bias filter:                      337  (0.0187964); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.25s 00:00:00.82 Elapsed: 00:00:00.44
# Mc/sec: 3055.98
//
Query:       PHY93_05170|PHY93_05170  [L=232]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
      4e-07   30.3   0.0    5.7e-07   29.8   0.0    1.2  1  Glyoxalase  Glyoxalase/Bleomycin resistance protein/Dioxygena


Domain annotation for each model (and alignments):
>> Glyoxalase  Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.8   0.0   3.2e-11   5.7e-07       1     128 []      87     209 ..      87     209 .. 0.89

  Alignments for each domain:
  == domain 1  score: 29.8 bits;  conditional E-value: 3.2e-11
                              EEEEEEEEESHHHHHHHHHHHH...HTSEEEEEEEEEESTEEEEEEEEETTTSEEEEEEEECCTTSCTHHCCBS.CTSEEEEEEEE CS
               Glyoxalase   1 gidhvallvgdleksldFYtkv...LGfklvkktdnteeteglriaffhaggghielvlneapsgaakhvkkie.etvhhvafial 82 
                              ++ h+ l v+++ +s+ FY  +   LG++ +                 + ++g +++vl +++++++k  ++ +  + +h+af a+
  PHY93_05170|PHY93_05170  87 KLSHIELSVSNYRESIIFYDLIllsLGWERLVTRT----------EHTTYSDGTLKIVLCPVDENYLKDGYHRKrIGLNHLAFYAQ 162
                              588******************97777876665555..........7999********************96655449********* PP

                              EHCHHHHHHHH.HHHTTGEEEEEEECHHCTEEEEEEEEETTSEEEEE CS
               Glyoxalase  83 dvedvgkaldr.lkeagvkvvaepgrhyfgalysfyfrDpdGillei 128
                              +++ v++++++ l ++ ++v  e g  + ++ y + f+Dpd i+le+
  PHY93_05170|PHY93_05170 163 TKDLVDQFHKEiLLANNIPVLYEKGPSGDNNYYAICFEDPDRIKLEV 209
                              *********76157999***************************996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (232 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       441  (0.024597); expected 358.6 (0.02)
Passed bias filter:                      362  (0.0201908); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.39
# Mc/sec: 1775.99
//
Query:       PHY93_05175|PHY93_05175  [L=1222]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.2e-55  186.3  39.5    6.6e-54  182.7  39.5    2.9  1  SMC_N          RecF/RecN/SMC N terminal domain
    1.7e-21   77.6   2.1    1.7e-21   77.6   2.1    7.1  2  AAA_23         AAA domain
    6.3e-14   52.5  16.4    6.3e-14   52.5  16.4    5.0  3  AAA_15         AAA ATPase domain
    9.1e-10   38.8   1.0    5.3e-05   23.2   0.0    4.5  5  AAA_21         AAA domain, putative AbiEii toxin, Type IV TA 
    2.8e-05   23.8   0.0    6.7e-05   22.6   0.0    1.6  1  AAA_29         P-loop containing region of AAA domain
    3.1e-05   24.2   0.0    0.00012   22.3   0.0    2.0  1  SMC_hinge      SMC proteins Flexible Hinge Domain
    0.00019   19.8   1.6    0.00019   19.8   1.6    5.4  3  EzrA           Septation ring formation regulator, EzrA
  ------ inclusion threshold ------
      0.011   15.8   1.6      0.011   15.8   1.6    7.9  7  Mod_r          Modifier of rudimentary (Mod(r)) protein
      0.013   15.7   2.0      0.013   15.7   2.0    6.9  8  COG5           Golgi transport complex subunit 5
       0.42   11.1   5.3         13    6.2   0.0    4.7  4  AAA            ATPase family associated with various cellular


Domain annotation for each model (and alignments):
>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  182.7  39.5   3.7e-57   6.6e-54       2     219 ..       3    1216 ..       2    1217 .. 0.99

  Alignments for each domain:
  == domain 1  score: 182.7 bits;  conditional E-value: 3.7e-57
                               EEEEEEESETTEECEEEEEETTSSEEEEEESTTSSHHHHHHHHHHHCTT.TTTTTTCHCCCCCC--.BTTCSSTTEEEEEEEEE CS
                               xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxx RF
                    SMC_N    2 lkrleienFksyagktvilpfsksftaivGpNGSGKsnlldAilFvLGersakklrseklsdlihk.skekasvkkaeveitfd 84  
                               lkrl++++Fks++ +++i++f++++t ivGpNG+GKsn++dA+ +v+Ge+sak+lr ++++dli++ s++   + +aev+++++
  PHY93_05175|PHY93_05175    3 LKRLILQGFKSFK-DRTIIHFDEGITGIVGPNGCGKSNVVDALFWVMGEQSAKHLRGATMKDLIFAgSSKYTPAAFAEVSLVLE 85  
                               89**********8.9999************************************************9999999**********9 PP

                               ETTEE......SSSSSSCEEEEEEEETTSEEEEEETTEEE-HHHHHHHHHCTT-STT........................... CS
                               xxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx........................... RF
                    SMC_N   85 nedkk......lkiekeevsisrrvkrkgeseykingkevtkkevsellesagiske........................... 135 
                               n++ k      ++ + +e++++r+++r+ge+ey+in+  ++ ++++e++ ++g   +                           
  PHY93_05175|PHY93_05175   86 NDEGKhihighQVSSPTEIQLTRKLYRNGETEYRINDVPCRLRDIQEVFMDTGAGAKsysiiaqgeinrlvqakpeerrimiee 169 
                               888887888866667789*************************************99*************************** PP

                               .................................................................................... CS
                               .................................................................................... RF
                    SMC_N  136 .................................................................................... 135 
                                                                                                                   
  PHY93_05175|PHY93_05175  170 vagitkfkvrkkeslkkieqteqnlarlndlqqeieknlkalekqaekaerardlkekvqrydlvvhahkefdllkafkegksi 253 
                               ************************************************************************************ PP

                               .................................................................................... CS
                               .................................................................................... RF
                    SMC_N  136 .................................................................................... 135 
                                                                                                                   
  PHY93_05175|PHY93_05175  254 vdtrseenenfynrknvieigleeerfrkddeiakvdelqkeyniiskelaaseerlvylcktqsekeklietreaeivsvnle 337 
                               ************************************************************************************ PP

                               .................................................................................... CS
                               .................................................................................... RF
                    SMC_N  136 .................................................................................... 135 
                                                                                                                   
  PHY93_05175|PHY93_05175  338 ltgrlekleglqaeldtwekkgeedndfalleervehlkeeldfktqsfndlkeeiekekeafnkidqdlfrntsrseeyaaql 421 
                               ************************************************************************************ PP

                               .................................................................................... CS
                               .................................................................................... RF
                    SMC_N  136 .................................................................................... 135 
                                                                                                                   
  PHY93_05175|PHY93_05175  422 qdltkeiealeaqysgvnsqivserdavaaaekqsielkekemvlrahidettivvreleqnlaaksktliqsdsklqsliein 505 
                               ************************************************************************************ PP

                               .................................................................................... CS
                               .................................................................................... RF
                    SMC_N  136 .................................................................................... 135 
                                                                                                                   
  PHY93_05175|PHY93_05175  506 rslegkkegisaflkenaegfsllgtlvkcdekytkavqfllaefletlvatvdadsdlfswiekneknldylkmvnteklsse 589 
                               ************************************************************************************ PP

                               .................................................................................... CS
                               .................................................................................... RF
                    SMC_N  136 .................................................................................... 135 
                                                                                                                   
  PHY93_05175|PHY93_05175  590 tvarmkmslgddlvslidilemnselkskmasfldgyfvatelsgdvmsslsaeirfkavaslngtrkitnlngaklisiqats 673 
                               ************************************************************************************ PP

                               .................................................................................... CS
                               .................................................................................... RF
                    SMC_N  136 .................................................................................... 135 
                                                                                                                   
  PHY93_05175|PHY93_05175  674 deaqgfvarnnliselktttaalsaevqtletssmldrasleakktefdvlrdqvaearamfsakksaldaklsnfesgftrle 757 
                               ************************************************************************************ PP

                               .................................................................................... CS
                               .................................................................................... RF
                    SMC_N  136 .................................................................................... 135 
                                                                                                                   
  PHY93_05175|PHY93_05175  758 ilknrkqeisksrldmieseetlsrkkdeltntlsdkssrfdeiqeeveiqkasfederaellqkqvearsfestlkslnsqie 841 
                               ************************************************************************************ PP

                               .................................................................................... CS
                               .................................................................................... RF
                    SMC_N  136 .................................................................................... 135 
                                                                                                                   
  PHY93_05175|PHY93_05175  842 dlngqierlnqrlesnktlvanynteidqiineleeleasnketsivlsdkedilnllkdslgqlllsmkdredevktitasis 925 
                               ************************************************************************************ PP

                               .................................................................................... CS
                               .................................................................................... RF
                    SMC_N  136 .................................................................................... 135 
                                                                                                                   
  PHY93_05175|PHY93_05175  926 knqreiaeldvklsqyvieeeqnvrnifekyqidlrdilgrflsyseadyqelkdvnsmfwieseeglkeiekkdfefarrygq 1009
                               ************************************************************************************ PP

                               .................................................................................... CS
                               .................................................................................... RF
                    SMC_N  136 .................................................................................... 135 
                                                                                                                   
  PHY93_05175|PHY93_05175 1010 dlkecndklknyklefgrlgdinwqaiedydrqklradflrvqevelkssledlqkaivhidekskarfqaaydevnmrfqkvf 1093
                               ************************************************************************************ PP

                               .......................................CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHH CS
                               .......................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N  136 .......................................lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkva 180 
                                                                      l+SgGek+++a++L+f+i  vkp+p++llDe+da LD++nv ++ 
  PHY93_05175|PHY93_05175 1094 piifgggnadlkivgdindaecgidivaqppgkkmqninLMSGGEKAMTAVSLIFSIFLVKPSPFCLLDEVDAPLDDANVGRFN 1177
                               ************************************************************************************ PP

                               HHHHHHCTTSEEEEE-SSHHHCCC-SCEEEEEEEETTEE CS
                               xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N  181 ellkeksknaQfivislreemlekadklvgvtkvengvs 219 
                               ell+e s+++Qfi i+++++++e  d+l+gvt++e gvs
  PHY93_05175|PHY93_05175 1178 ELLREMSSDSQFILITHNKKTMELNDTLYGVTMQEPGVS 1216
                               *********************************999987 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.6   2.1   9.6e-25   1.7e-21       1     195 [.       5     227 ..       5     232 .. 0.71
   2 ?  -88.4 111.5        10   1.8e+04      81      81 ..     737     737 ..     247    1075 .. 0.67

  Alignments for each domain:
  == domain 1  score: 77.6 bits;  conditional E-value: 9.6e-25
                   AAA_23   1 kLkienfrsfrdqe.idFskgltlItGpNGaGKTTildAiklaLygetprlsrksgrgfeksdveiesegkvkay..veltfenkd 83 
                              +L +++f+sf+d + i+F+ g+t I+GpNG+GK+ ++dA+ +++++++++  r  g  +++  ++ +s+ + +a+  v+l +en+ 
  PHY93_05175|PHY93_05175   5 RLILQGFKSFKDRTiIHFDEGITGIVGPNGCGKSNVVDALFWVMGEQSAKHLR--GATMKDLIFAGSSKYTPAAFaeVSLVLENDE 88 
                              799*******999979******************************9876655..5566666666666566677755666688888 PP

                   AAA_23  84 gry.........trsiererelskkkgkttkka.......klelleideleqfisellgskkiilnlilflgqer........... 142
                              g+           ++i+ +r+l+++ + +++ +       + +++ +d+     s ++  + +i++l++ +++er           
  PHY93_05175|PHY93_05175  89 GKHihighqvssPTEIQLTRKLYRNGETEYRINdvpcrlrDIQEVFMDTGAGAKSYSIIAQGEINRLVQAKPEERrimieevagit 174
                              877999887777455555555555544444322222222244444445555555558888999************66666666655 PP

                   AAA_23 143 feefelkdkkerleelekeleeledekkllekleqekekekeleeleeeleei 195
                              + + ++k+ ++++e+ e+ l  l+d ++++ek+++++ek++e  e  ++l+e 
  PHY93_05175|PHY93_05175 175 KFKVRKKESLKKIEQTEQNLARLNDLQQEIEKNLKALEKQAEKAERARDLKEK 227
                              33444488888999999999999999999999988888888777776666654 PP

  == domain 2  score: -88.4 bits;  conditional E-value: 10
                   AAA_23  81 n 81 
                               
  PHY93_05175|PHY93_05175 737 A 737
                              1 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.5  16.4   3.5e-17   6.3e-14       2     295 ..       2     460 ..       2     573 .. 0.78
   2 ?   -5.0  22.3        10   1.8e+04     143     300 ..     733     904 ..     603     910 .. 0.66
   3 ?   -7.8  32.8        10   1.8e+04      43     365 ..     756    1195 ..     756    1197 .. 0.51

  Alignments for each domain:
  == domain 1  score: 52.5 bits;  conditional E-value: 3.5e-17
                   AAA_15   2 kIkkikikNFRslkd.veidlseeltvliGkNnsGKSsilealdlFlnnkekkn..............kkvikiekedleifenis 72 
                              k+k+++++ F+s+kd + i+++e +t ++G+N++GKS++++al +   +++ k+              +k++  +  +++   +++
  PHY93_05175|PHY93_05175   2 KLKRLILQGFKSFKDrTIIHFDEGITGIVGPNGCGKSNVVDALFWVMGEQSAKHlrgatmkdlifagsSKYTPAAFAEVSLVLEND 87 
                              799****************************************999999977779*************666666667777777777 PP

                   AAA_15  73 eskdikIdvef........................................................................... 83 
                              e k i I ++                                                                            
  PHY93_05175|PHY93_05175  88 EGKHIHIGHQVsspteiqltrklyrngeteyrindvpcrlrdiqevfmdtgagaksysiiaqgeinrlvqakpeerrimieevagi 173
                              77777777777777777777788888888888888888888888888888888888888888888888888888888888888888 PP

                   AAA_15  84 ......................................aekekakeyektlkskekkkadlllkkkesdlkktikdkklklkknel 131
                                                                    +++ ++ e+ + lk+k ++++ +   +ke+dl k +k+ k  +++   
  PHY93_05175|PHY93_05175 174 tkfkvrkkeslkkieqteqnlarlndlqqeieknlkalEKQAEKAERARDLKEKVQRYDLVVHAHKEFDLLKAFKEGKSIVDTRSE 259
                              8888888888888888888888888888888777776544466777788899999******************************* PP

                   AAA_15 132 sdekisvekkks.........kkelpkekeeklekekeelkid.kedlkklikkleeslkkee........elknvlksaiiklll 199
                               +e++++ k+           +k++++ k ++l+ke + ++++   + ++l +  +++ +ke+         ++ +l+   ++ +l
  PHY93_05175|PHY93_05175 260 ENENFYNRKNVIeigleeerfRKDDEIAKVDELQKEYNIISKElAASEERLVYLCKTQSEKEKlietreaeIVSVNLELTGRLEKL 345
                              ******99999977777777766666666666666666666666666666666666666666699999997444445555555555 PP

                   AAA_15 200 isakRnvsdedsekkssllgklkekileealqekl......eeelteklkeiqeklkeidkklaeelk......kilkkkidkikk 273
                                 + + ++ +++ ++++ ++l+e+ +e  l+e+l        +l+e++++ +e++++id++l  +++        l++  ++i+ 
  PHY93_05175|PHY93_05175 346 EGLQAELDTWEKKGEEDNDFALLEERVEH-LKEELdfktqsFNDLKEEIEKEKEAFNKIDQDLFRNTSrseeyaAQLQDLTKEIEA 430
                              55555555555555566666666666554.45555666666455666666666666666666666665666555666666666666 PP

                   AAA_15 274 fnykgkkneeieik........ddeelpln 295
                              ++++++ ++   ++        ++++++l+
  PHY93_05175|PHY93_05175 431 LEAQYSGVNSQIVSerdavaaaEKQSIELK 460
                              666666666666666666666655555555 PP

  == domain 2  score: -5.0 bits;  conditional E-value: 10
                   AAA_15 143 s....kkelpkekeeklekekeelkidkedlkklikkleeslkkee.......elknvlksaiiklllisakRnvsd.edsekkss 216
                              +    kk+  + k ++ e+  + l+i k+ +++++k     +++ee       el n l++++  ++ i+++ ++++ +++++  +
  PHY93_05175|PHY93_05175 733 AmfsaKKSALDAKLSNFESGFTRLEILKNRKQEISKSRLDMIESEEtlsrkkdELTNTLSDKSSRFDEIQEEVEIQKaSFEDERAE 818
                              24444777777888888888999999999999999988888888888999999999999999999999999988888777777777 PP

                   AAA_15 217 llgklkekileealqekleeelteklkeiqeklkeidkklaeelk......kilkkkidkikkfnykgkkneeieikddeelplnk 296
                              ll k+ e  + e+      ++l++++++++  ++ +++ l+++++       +++++i++++ +++ +k+   +    ++ l+l k
  PHY93_05175|PHY93_05175 819 LLQKQVEARSFEST----LKSLNSQIEDLNGQIERLNQRLESNKTlvanynTEIDQIINELEELEASNKETSIVLSDKEDILNLLK 900
                              77776665544433....34444555555555555555554444455444488888888887766666655544333555555555 PP

                   AAA_15 297 nGsG 300
                               ++G
  PHY93_05175|PHY93_05175 901 DSLG 904
                              5555 PP

  == domain 3  score: -7.8 bits;  conditional E-value: 10
                   AAA_15   43 ldlFlnnkekkn.................kkvikiekedleifeniseskdikIdvef......................aeke 87  
                               l++++n+k++ +                 +                      +++ +                       +  e
  PHY93_05175|PHY93_05175  756 LEILKNRKQEISksrldmieseetlsrkkD----------------------ELTNTLsdkssrfdeiqeeveiqkasfeD--E 815 
                               677788774444445555555444433332......................33333333333333333333333222220..3 PP

                   AAA_15   88 kakeyektlkskekkkadlllkkkesdlkktikdkklklkknelsdekisvekkkskkelpkekeeklekekeelkidkedlkk 171 
                                a+   k  + +  +++ + l+  ++dl   i+  ++ l++n++ + +++ e ++ ++el+++     e +++e++i  +d+++
  PHY93_05175|PHY93_05175  816 RAELLQKQVEARSFESTLKSLNSQIEDLNGQIERLNQRLESNKTLVANYNTEIDQIINELEEL-----EASNKETSIVLSDKED 894 
                               333333333444444455555555666666666666666666666666666666666555544.....4444444455555555 PP

                   AAA_15  172 likkleeslkkee.........................elknvlksaiiklllisakRnvsdedsekkssllgklkekileeal 230 
                               +++ l+ sl +                           e     k +++ ++  +++Rn+ ++     +++lg+ ++    +  
  PHY93_05175|PHY93_05175  895 ILNLLKDSLGQLLlsmkdredevktitasisknqreiaE--LDVKLSQYVIEEEQNVRNIFEKYQIDLRDILGRFLSYSEAD-- 974 
                               555444444333355455556666666666666664331..22333344444444444444444444444444444444333.. PP

                   AAA_15  231 qekl..........eeelteklkeiqeklkeidkklaeelk........................................... 261 
                                              +e++e lkei++k  e+   ++++lk                                           
  PHY93_05175|PHY93_05175  975 ---YqelkdvnsmfWIESEEGLKEIEKKDFEFARRYGQDLKecndklknyklefgrlgdinwqaiedydrqklradflrvqeve 1055
                               ...033347777774455555555555555555555555555544444444555555555555555544444444444444433 PP

                   AAA_15  262 ................kilkkkidkikkfnykgkkneeieik.......................................... 287 
                                               +                        k                                          
  PHY93_05175|PHY93_05175 1056 lkssledlqkaivhidE------------------------Kskarfqaaydevnmrfqkvfpiifgggnadlkivgdindaec 1115
                               33333222222211111........................0222222222222233333334444555566667888889999 PP

                   AAA_15  288 ...........ddeelplnknGsGvqrllllillileaekkdekeeknvilliEEPEahLHpqaqkvlikllkelandnktQvi 360 
                                            ++++l   G   + +++li+ i+  +          + l++E +a L   +   + +ll+e+++d+  Q i
  PHY93_05175|PHY93_05175 1116 gidivaqppgkKMQNINLMSGGEKAMTAVSLIFSIFLVKPS-------PFCLLDEVDAPLDDANVGRFNELLREMSSDS--QFI 1190
                               99999999966666666666666677888888888888888.......99999*******999999*********9999..9** PP

                   AAA_15  361 itTHS 365 
                               + TH+
  PHY93_05175|PHY93_05175 1191 LITHN 1195
                               *9998 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.2   0.0     3e-08   5.3e-05       1      26 [.      26      53 ..      26     147 .. 0.71
   2 ?   -1.0   0.7      0.67   1.2e+03     125     219 ..     178     261 ..     161     304 .. 0.63
   3 ?   -3.0   0.2       2.8   5.1e+03     143     167 ..     389     403 ..     350     449 .. 0.45
   4 ?   -1.9   3.6       1.3   2.3e+03      92     218 ..     781     901 ..     748     916 .. 0.66
   5 !   23.1   0.9   3.2e-08   5.8e-05      67     298 ..     925    1195 ..     906    1200 .. 0.73

  Alignments for each domain:
  == domain 1  score: 23.2 bits;  conditional E-value: 3e-08
                   AAA_21  1 lnvliGpNgsGKSnLLdaldllarl..d 26
                             +++++GpNg+GKSn+ dal ++ +   +
  PHY93_05175|PHY93_05175 26 ITGIVGPNGCGKSNVVDALFWVMGEqsA 53
                             79*****************887443332 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.67
                   AAA_21 125 fslkelsvsepndlqfgkaltditsrawsllllldglrkerigllnifadyfgfakekrllqrlvrslklveielsdlgegeelia 210
                               + ke+++++++++q+ ++l+d+  ++++           +   l+ +a+ +  a+ ++   ++++ +  ++ e ++l++++e   
  PHY93_05175|PHY93_05175 178 VRKKESLKKIEQTEQNLARLNDLQQEIEK-----------NLKALEKQAEKAERARDLKEKVQRYDLVVHAHKEFDLLKAFKEGKS 252
                              55566666666666666666666666666...........6666666666666666666666666666666666666666666666 PP

                   AAA_21 211 svderlrer 219
                               vd r+ e+
  PHY93_05175|PHY93_05175 253 IVDTRSEEN 261
                              666666665 PP

  == domain 3  score: -3.0 bits;  conditional E-value: 2.8
                   AAA_21 143 altditsrawsllllldglrkerig 167
                              +  +i ++++ +          ++ 
  PHY93_05175|PHY93_05175 389 LKEEIEKEKEAF----------NKI 403
                              111111111111..........111 PP

  == domain 4  score: -1.9 bits;  conditional E-value: 1.3
                   AAA_21  92 tllesgllldkrsleeedvfnpeargirggvsvfslkelsvsepndlqfgkaltditsrawsllllldglrkerigllnifadyfg 177
                              +++++ l+   +++ ++ + ++e+ +i +  ++ +++el+ ++ +++ f+++l ++ s++++l+   + l  +      +  +   
  PHY93_05175|PHY93_05175 781 SRKKDELTNTLSDKSSRFDEIQEEVEIQKASFEDERAELLQKQVEARSFESTLKSLNSQIEDLNGQIERLNQR------LESNKTL 860
                              4566777777777888888888888888888888888888888888888888888888888888888555554......4444444 PP

                   AAA_21 178 fakekrllqrlvrslklveielsdlgegeeliasvderlre 218
                               a+ ++ +++ +++l + e+    + ++  + +++ ++l++
  PHY93_05175|PHY93_05175 861 VANYNTEIDQIINELEELEASNKETSIVLSDKEDILNLLKD 901
                              44444444555555555555555554444444444444444 PP

  == domain 5  score: 23.1 bits;  conditional E-value: 3.2e-08
                   AAA_21   67 sqgvryryglrlersqv.eeklssvetllesgllldkrsleeedvfnpeargirggvsvfslkelsvsepndlqfgkaltdits 149 
                               s++ r   +l+++ sq+  e  ++v++  e++ ++ +++l ++  ++    +  ++++v+s  +++ +e  +++ +k++ + ++
  PHY93_05175|PHY93_05175  925 SKNQREIAELDVKLSQYvIEEEQNVRNIFEKYQIDLRDILGRFLSYSE--ADYQELKDVNSMFWIESEEGLKEIEKKDFEFARR 1006
                               566777777777777777777777777777777777777776665544..5555666777788888888888888888888888 PP

                   AAA_21  150 rawsllllldglrke..rigllnifadyfgfakekrllqrlvrslklveielsdlgegeeliasvderlrer............ 219 
                                  +l++ +d+l ++  ++g+l + +  + ++  ++ l+    ++++ve++ s+++   + i  +de    +            
  PHY93_05175|PHY93_05175 1007 YGQDLKECNDKLKNYklEFGRLGDINWQAIEDYDRQKLRADFLRVQEVELKSSLED-LQKAIVHIDE----Kskarfqaaydev 1085
                               88888888888888788666666666666666666666666666666666655552.1111111111....1245566689999 PP

                   AAA_21  220 ...............................gvvflengdgqelparelSdGtkrl.l.alltallralkkgsllliDEpEngL 270 
                                                                +   +++ +  +++ +S G k + +  l+ +++   ++ ++ l+DE+++ L
  PHY93_05175|PHY93_05175 1086 nmrfqkvfpiifgggnadlkivgdindaecgIDIVAQPPGKKMQNINLMSGGEKAMtAvSLIFSIFLVKPS-PFCLLDEVDAPL 1168
                               999999999999999999999999999998777778888888999***********435677777766666.************ PP

                   AAA_21  271 HPkllrrllellkelsrngaQviltTHS 298 
                               + + + r+ ell+e s+ ++Q+il TH+
  PHY93_05175|PHY93_05175 1169 DDANVGRFNELLREMSS-DSQFILITHN 1195
                               *****************.*********8 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.6   0.0   3.7e-08   6.7e-05       2      46 ..       4      48 ..       3      56 .. 0.84

  Alignments for each domain:
  == domain 1  score: 22.6 bits;  conditional E-value: 3.7e-08
                   AAA_29  2 krlqlvNWgtfdg.htieidlkgatlltGpsGsGKSTllDAiqalL 46
                             krl l    +f++ + i++d +g+t ++Gp+G GKS ++DA+  ++
  PHY93_05175|PHY93_05175  4 KRLILQGFKSFKDrTIIHFD-EGITGIVGPNGCGKSNVVDALFWVM 48
                             66666677889997889999.789******************9988 PP

>> SMC_hinge  SMC proteins Flexible Hinge Domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.3   0.0   6.8e-08   0.00012       7     108 ..     528     630 ..     523     633 .. 0.79

  Alignments for each domain:
  == domain 1  score: 22.3 bits;  conditional E-value: 6.8e-08
                SMC_hinge   7 rladlievdegyekAveaalgnrlqalvvedeetakkiieflkkknagratflpldrikqknkadgandkns.....gavplidlv 87 
                               l+ l+++de+y+kAv+  l + l++lv   +++   ++++++k+  +++  l +  +++++ ++++  + +       v+lid++
  PHY93_05175|PHY93_05175 528 LLGTLVKCDEKYTKAVQFLLAEFLETLVATVDADSD-LFSWIEKN-EKNLDYLKM--VNTEKLSSETVARMKmslgdDLVSLIDIL 609
                              6899***********************998888877.89******.445444444..44444444444444455888********* PP

                SMC_hinge  88 evddelrkalryllgdtlvvd 108
                              e ++el+  +   l +++v+ 
  PHY93_05175|PHY93_05175 610 EMNSELKSKMASFLDGYFVAT 630
                              *****9999999999999876 PP

>> EzrA  Septation ring formation regulator, EzrA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -9.3  48.8        10   1.8e+04      93     406 ..     177     509 ..     166     514 .. 0.75
   2 !   19.8   1.6     1e-07   0.00019     107     186 ..     683     762 ..     674     771 .. 0.94
   3 ?   -6.9  33.8        10   1.8e+04     141     426 ..     780     941 ..     764    1073 .. 0.54

  Alignments for each domain:
  == domain 1  score: -9.3 bits;  conditional E-value: 10
                              SHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHTHHHHTTTTTHHHHHHHHHHHHHHHHT--TTT.T....HHHHHHHHHHHHHHHH CS
                     EzrA  93 kykfkkakkklaeleeeldeveekikkileelkelteseeknreeieklkekYrelrkkllanr.f....sygealeelekqleni 173
                              k + k++ kk++++e++l+++    ++i + lk l ++ ek  e+  +lkek ++    ++a++ f    +++e ++ ++++ e+ 
  PHY93_05175|PHY93_05175 177 KVRKKESLKKIEQTEQNLARLNDLQQEIEKNLKALEKQAEKA-ERARDLKEKVQRYDLVVHAHKeFdllkAFKEGKSIVDTRSEEN 261
                              4455778899************************99888775.6778899998888888887763322224444444444333332 PP

                              ----............------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTTTSHHHHHHHHHHHHHSTTS--SGGG CS
                     EzrA 174 ekef............sefeeltengdyveakeilkkleeeideleevieeiPelleelkkelpkqleelkegykemkeegYalee 247
                              e+ +            + f +  e  + +e ++ ++ +++e+++ ee +  + +  +e +k++  + +e+ +   e++ +  +le 
  PHY93_05175|PHY93_05175 262 ENFYnrknvieigleeERFRKDDEIAKVDELQKEYNIISKELAASEERLVYLCKTQSEKEKLIETREAEIVSVNLELTGRLEKLEG 347
                              22110000000010113344444444555666666667888888888888888888888999999999999999999998888888 PP

                              SSSSSHHHHHHHHHHHHH.HHHTT--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTSSSSSHHHHT--HHHHTTGGG-TTT CS
                     EzrA 248 lniekeieelekkieeil.erlkeleledveeelktieeeidsLyddlekEveAkkeveknlkelkeklehlekqnkelkeeldrl 332
                              l+   e+++ ekk ee    +l e ++e+ +eel+  ++ +++L + +ekE+eA +++++ l + +++ e+  +q+++l++e++ l
  PHY93_05175|PHY93_05175 348 LQA--ELDTWEKKGEEDNdFALLEERVEHLKEELDFKTQSFNDLKEEIEKEKEAFNKIDQDLFRNTSRSEEYAAQLQDLTKEIEAL 431
                              666..555555555444313555569************************************************************ PP

                              S-GGGSSTTTSTT....HHHHHHHHHHHHHHHHHHHHHHS-SS---STTGGGTHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     EzrA 333 kqsYeLseeelek....lrelekelkelekdyeeleekleekkvaYSelqeeleeleekleeieekqeeileslkslr 406
                              + +Y   ++++ +    +   ek+  el+++   l+ +++e +++  el+++l   +++l + ++k++++ e  +sl+
  PHY93_05175|PHY93_05175 432 EAQYSGVNSQIVSerdaVAAAEKQSIELKEKEMVLRAHIDETTIVVRELEQNLAAKSKTLIQSDSKLQSLIEINRSLE 509
                              ****866665554111156689*********************************************99988776665 PP

  == domain 2  score: 19.8 bits;  conditional E-value: 1e-07
                              HHHHHHHHHHHHHHHHHHTHHHHTTTTTHHHHHHHHHHHHHHHHT--TTTTHHHHHHHHHHHHHHHH------------- CS
                     EzrA 107 eeeldeveekikkileelkelteseeknreeieklkekYrelrkkllanrfsygealeelekqleniekefsefeelten 186
                              ++ ++e++++++++ +e++ l +s    r+  e+ k++++ lr+++ + r+ ++  +++l+ +l+n+e+ f+ +e l + 
  PHY93_05175|PHY93_05175 683 NNLISELKTTTAALSAEVQTLETSSMLDRASLEAKKTEFDVLRDQVAEARAMFSAKKSALDAKLSNFESGFTRLEILKNR 762
                              57899********************************************************************9998776 PP

  == domain 3  score: -6.9 bits;  conditional E-value: 10
                              HHHHHHHHHHT--TTTTHHHHHHHHHHHHHHHH----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTTTSHH CS
                     EzrA 141 lkekYrelrkkllanrfsygealeelekqleniekefsefeeltengdyveakeilkkleeeideleevieeiPelleelkkelpk 226
                              l  k +el ++l +++  + e++ee+e q + +e+                                                   
  PHY93_05175|PHY93_05175 780 LSRKKDELTNTLSDKSSRFDEIQEEVEIQKASFED--------------------------------------------------- 814
                              44444555555555555555555555555555555................................................... PP

                              HHHHHHHHHHHSTTS--SGGGSSSSSHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTSSSSS CS
                     EzrA 227 qleelkegykemkeegYaleelniekeieelekkieeilerlkeleledveeelktieeeidsLyddlekEveAkkeveknlkelk 312
                                                                                                    E +   + + + ++++
  PHY93_05175|PHY93_05175 815 ----------------------------------------------------------------------ERAELLQKQVEARSFE 830
                              ......................................................................4444444444444555 PP

                              HHHHT--HHHHTTGGG-TTTS-GGGSSTTTSTTHHHHHHHHHHHHHHHHHHHHHHS-SS---STTGGGTHHHHHHHHHHHHHHHHH CS
                     EzrA 313 eklehlekqnkelkeeldrlkqsYeLseeeleklrelekelkelekdyeeleekleekkvaYSelqeeleeleekleeieekqeei 398
                              + l+ l++q+++l+ +++rl+q+  L e++ + + ++++e++++ +++eele   +e +++ S+ ++ l+ l+++l ++  + ++ 
  PHY93_05175|PHY93_05175 831 STLKSLNSQIEDLNGQIERLNQR--L-ESNKTLVANYNTEIDQIINELEELEASNKETSIVLSDKEDILNLLKDSLGQLLLSMKDR 913
                              55555555555555555555543..3.33333444444555555555555555555555555555555555555555554444444 PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     EzrA 399 leslkslrkdEkrAreqldeikkelkei 426
                              ++++k++  + ++ +++++e++ +l++ 
  PHY93_05175|PHY93_05175 914 EDEVKTITASISKNQREIAELDVKLSQY 941
                              4444444444444444444444444432 PP

>> Mod_r  Modifier of rudimentary (Mod(r)) protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4  14.4       1.3   2.3e+03       7     123 ..     151     269 ..     148     296 .. 0.72
   2 ?   -3.4  13.1       5.2   9.2e+03      29     108 ..     322     429 ..     284     430 .. 0.64
   3 ?   -0.3   8.1      0.59   1.1e+03       6      88 ..     419     502 ..     405     521 .. 0.83
   4 ?   15.8   1.6   6.3e-06     0.011       5      95 ..     663     753 ..     659     760 .. 0.91
   5 ?    3.4  13.5     0.042        75      26     121 ..     761     857 ..     751     863 .. 0.89
   6 ?    4.7  10.6     0.016        29       8     117 ..     847     955 ..     837     969 .. 0.56
   7 ?    0.4   1.0      0.34   6.2e+02      88     113 ..    1044    1076 ..     964    1093 .. 0.65

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 1.3
                    Mod_r   7 eLqellede.eklealvktlpevkqlkeekeellaeneslaeknlslepeleelrselqekle.elkeleke..feekeqeldell 88 
                              e+++l++ + e  + +++++  + + k +k+e l+++e++ e+nl++ ++l+++ ++  ++le +++++e++  ++ek q++d ++
  PHY93_05175|PHY93_05175 151 EINRLVQAKpEERRIMIEEVAGITKFKVRKKESLKKIEQT-EQNLARLNDLQQEIEKNLKALEkQAEKAERArdLKEKVQRYDLVV 235
                              5666666654666666777788899999999999999988.778888666666655555555535555555500555555556666 PP

                    Mod_r  89 qkfspdallarLqtavaeaeeeSealaeeflegei 123
                                  +  ll+ +++  +  +  Se+  e+f++ ++
  PHY93_05175|PHY93_05175 236 HAHKEFDLLKAFKEGKSIVDTRSEE-NENFYNRKN 269
                              9999999**********99*99999.899987443 PP

  == domain 2  score: -3.4 bits;  conditional E-value: 5.2
                    Mod_r  29 kqlkeekeellaenesla......................eknlsl.epeleelrselqekleelkelekefeekeqeldell... 88 
                              k ++++  e++  n +l                       ++  +l e+++e+l++el  k ++++ l++e e+ ++  +++    
  PHY93_05175|PHY93_05175 322 KLIETREAEIVSVNLELTgrlekleglqaeldtwekkgeeDNDFALlEERVEHLKEELDFKTQSFNDLKEEIEKEKEAFNKIDqdl 407
                              44444444444444444455555555555555665555554556666889999999999999999999999999999886665444 PP

                    Mod_r  89 .qkfspd.allarLqtavaeae 108
                               +++s +    a+Lq  ++e+e
  PHY93_05175|PHY93_05175 408 fRNTSRSeEYAAQLQDLTKEIE 429
                              4444443155566777777766 PP

  == domain 3  score: -0.3 bits;  conditional E-value: 0.59
                    Mod_r   6 eeLqelledeeklealvktl.pevkqlkeekeellaeneslaeknlslepeleelrselqekleelkelekefeekeqeldell 88 
                               +Lq+l ++ e+lea ++ + +++ + +++   ++++ ++l ek + l+ +++e    + e  ++l++ +k++ +  ++l++l+
  PHY93_05175|PHY93_05175 419 AQLQDLTKEIEALEAQYSGVnSQIVSERDAVAAAEKQSIELKEKEMVLRAHIDETTIVVRELEQNLAAKSKTLIQSDSKLQSLI 502
                              589999999999999999886778888888888888888888888888888888888888888888888888888888888876 PP

  == domain 4  score: 15.8 bits;  conditional E-value: 6.3e-06
                    Mod_r   5 keeLqelledeeklealvktlpevkqlkeekeellaeneslaeknlslepeleelrselqekleelkelekefeekeqeldellqk 90 
                                +L  +    +  + +v   + + +lk+    l ae + l  + + ++ +le ++ e+   +++++e+++ f +k++ ld++l++
  PHY93_05175|PHY93_05175 663 GAKLISIQATSDEAQGFVARNNLISELKTTTAALSAEVQTLETSSMLDRASLEAKKTEFDVLRDQVAEARAMFSAKKSALDAKLSN 748
                              56788888999999****99999***********99999999999999************************************** PP

                    Mod_r  91 fspda 95 
                              f + +
  PHY93_05175|PHY93_05175 749 FESGF 753
                              98765 PP

  == domain 5  score: 3.4 bits;  conditional E-value: 0.042
                    Mod_r  26 pevkqlkeekeellaeneslaeknlslepeleelrselqekleelkelekefeekeqel.dellqkfspdallarLqtavaeaeee 110
                              ++ +++ +++ ++++++e l +k+ +l ++l +++s++ e  ee++  +++fe+  +el ++ ++  s +++l+ L+ ++++ + +
  PHY93_05175|PHY93_05175 761 NRKQEISKSRLDMIESEETLSRKKDELTNTLSDKSSRFDEIQEEVEIQKASFEDERAELlQKQVEARSFESTLKSLNSQIEDLNGQ 846
                              66789999999999********************************************977777********************99 PP

                    Mod_r 111 Sealaeefleg 121
                               e+l +++ ++
  PHY93_05175|PHY93_05175 847 IERLNQRLESN 857
                              99999987654 PP

  == domain 6  score: 4.7 bits;  conditional E-value: 0.016
                    Mod_r   8 Lqelledeeklealvktl.pevkqlkeekeellaeneslaeknlslepeleelrselqekleelkelekefeekeqeldellqkfs 92 
                              +++l +  e  + lv +   e++q+ +e+eel+a+n+++     ++e+ l+ l+++l + l ++k  e+e++  ++  ++  ++  
  PHY93_05175|PHY93_05175 847 IERLNQRLESNKTLVANYnTEIDQIINELEELEASNKETSIVLSDKEDILNLLKDSLGQLLLSMKDREDEVKTITASISKNQRE-- 930
                              333333334444444455455777777777777777777666666677777777777777777777777766666555443333.. PP

                    Mod_r  93 pdallarLqtavaeaeeeSealaee 117
                               + l  +L + v e e++ +++ e+
  PHY93_05175|PHY93_05175 931 IAELDVKLSQYVIEEEQNVRNIFEK 955
                              2345556666666666666665554 PP

  == domain 7  score: 0.4 bits;  conditional E-value: 0.34
                    Mod_r   88 l.......qkfspdallarLqtavaeaeeeSea 113 
                               l       q++ +++ l+ Lq+a+  ++e+S+a
  PHY93_05175|PHY93_05175 1044 LradflrvQEVELKSSLEDLQKAIVHIDEKSKA 1076
                               233444556666666666677777766666665 PP

>> COG5  Golgi transport complex subunit 5
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.6      0.48   8.6e+02      38      68 ..     187     219 ..     166     236 .. 0.51
   2 ?   15.7   2.0   7.2e-06     0.013      51     122 ..     398     469 ..     368     480 .. 0.84
   3 ?   -2.0   0.1       2.1   3.8e+03      46      80 ..     477     511 ..     471     519 .. 0.78
   4 ?   -1.8   0.0       1.8   3.2e+03      73      94 ..     685     706 ..     675     737 .. 0.75
   5 ?   -1.2   0.2       1.2   2.2e+03      50      95 ..     763     805 ..     718     812 .. 0.65
   6 ?   10.2   4.6   0.00036      0.64      52      98 ..     811     857 ..     772     883 .. 0.77
   7 ?    3.5   0.6     0.043        77      16      60 ..     905     949 ..     894     958 .. 0.90
   8 ?   -1.6   0.1       1.5   2.7e+03      76      95 ..    1055    1074 ..    1050    1091 .. 0.58

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 0.48
                              XXXXXXXXXX..XXXXXXXXXXXXXXXXXXXXX CS
                     COG5  38 lnydiqeldk..rlrqlitsnhleLlehlsksk 68 
                              +++  q+l +   l+q+i +n + L ++++k +
  PHY93_05175|PHY93_05175 187 IEQTEQNLARlnDLQQEIEKNLKALEKQAEKAE 219
                              333333333211333333333333333333333 PP

  == domain 2  score: 15.7 bits;  conditional E-value: 7.2e-06
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX-TTHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     COG5  51 qlitsnhleLlehlskskslssvlselksslesLsasyerlkskvlepyeeaeklqsalkrlhqtldLlrra 122
                              +  ++  ++L+ ++s+s+++ + l++l++++e+L+a y+ ++s+++   + +   +++   l +  ++lr+ 
  PHY93_05175|PHY93_05175 398 EAFNKIDQDLFRNTSRSEEYAAQLQDLTKEIEALEAQYSGVNSQIVSERDAVAAAEKQSIELKEKEMVLRAH 469
                              345667899*************************************************99999999999975 PP

  == domain 3  score: -2.0 bits;  conditional E-value: 2.1
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                     COG5  46 dkrlrqlitsnhleLlehlskskslssvlselkss 80 
                               ++l+q++ ++ ++L++  sk +sl +++ +l+++
  PHY93_05175|PHY93_05175 477 VRELEQNLAAKSKTLIQSDSKLQSLIEINRSLEGK 511
                              57888999999999999888888888888888776 PP

  == domain 4  score: -1.8 bits;  conditional E-value: 1.8
                              XXXXXXXXXXXXXXXXXXXX-T CS
                     COG5  73 vlselksslesLsasyerlksk 94 
                              + selk+  ++Lsa ++ l++ 
  PHY93_05175|PHY93_05175 685 LISELKTTTAALSAEVQTLETS 706
                              6788888888888888888765 PP

  == domain 5  score: -1.2 bits;  conditional E-value: 1.2
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX-TT CS
                     COG5  50 rqlitsnhleLlehlskskslssvlselksslesLsasyerlkskv 95 
                              +q+i+++ l+++e   ++++ls   +el+  l++ s+ ++ ++++v
  PHY93_05175|PHY93_05175 763 KQEISKSRLDMIE---SEETLSRKKDELTNTLSDKSSRFDEIQEEV 805
                              4555555554444...444444455555555555566666665555 PP

  == domain 6  score: 10.2 bits;  conditional E-value: 0.00036
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX-TTHHH CS
                     COG5  52 litsnhleLlehlskskslssvlselksslesLsasyerlkskvlep 98 
                                 ++  eLl++  + +s +s+l++l+s++e+L+  +erl++ +   
  PHY93_05175|PHY93_05175 811 SFEDERAELLQKQVEARSFESTLKSLNSQIEDLNGQIERLNQRLESN 857
                              45667788999999999***********************9987655 PP

  == domain 7  score: 3.5 bits;  conditional E-value: 0.043
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                     COG5  16 allkatnnnddteldlstplkrlnydiqeldkrlrqlitsnhleL 60 
                              +ll++ ++ +d+   + +++++ +  i eld +l q + ++++++
  PHY93_05175|PHY93_05175 905 QLLLSMKDREDEVKTITASISKNQREIAELDVKLSQYVIEEEQNV 949
                              6788999*****************************999988765 PP

  == domain 8  score: -1.6 bits;  conditional E-value: 1.5
                               XXXXXXXXXXXXXXXXX-TT CS
                     COG5   76 elksslesLsasyerlkskv 95  
                               elkssle+L++++  + +k 
  PHY93_05175|PHY93_05175 1055 ELKSSLEDLQKAIVHIDEKS 1074
                               45566666665555555443 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.2   0.0    0.0073        13       3      23 ..      29      49 ..      28     166 .. 0.83
   2 ?   -1.9   0.1       2.4   4.2e+03      46      56 ..     868     878 ..     817     928 .. 0.55
   3 ?    2.5   0.1       0.1   1.9e+02      21      54 ..     923     957 ..     916     964 .. 0.71
   4 ?    0.2   0.0      0.52   9.3e+02      60     107 ..    1157    1193 ..    1125    1207 .. 0.71

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.0073
                             EESSTTSSHHHHHHHHHHHHT CS
                      AAA  3 lyGppGtGKTllakavakelg 23
                             ++Gp G+GK+ ++ a+   +g
  PHY93_05175|PHY93_05175 29 IVGPNGCGKSNVVDALFWVMG 49
                             58*************998876 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 2.4
                              HHHHHHHHHHT CS
                      AAA  46 irelfkeakek 56 
                              i ++++e++e 
  PHY93_05175|PHY93_05175 868 IDQIINELEEL 878
                              22222222222 PP

  == domain 3  score: 2.5 bits;  conditional E-value: 0.1
                              HHTHEEEEEETTTCS.SSSTTHHHHHHHHHHHHHH CS
                      AAA  21 elgvefleisgsell.skyvgesekkirelfkeak 54 
                              +++ +  ei   ++  s+yv e e+++r++f++ +
  PHY93_05175|PHY93_05175 923 SISKNQREIAELDVKlSQYVIEEEQNVRNIFEKYQ 957
                              444445555556666688*************9865 PP

  == domain 4  score: 0.2 bits;  conditional E-value: 0.52
                               EEEEEETGGGHHHHHTTCCCHHHHHHHHHHHHHHHHTTTSSSTEEEEE CS
                      AAA   60 silfiDEidalaksrsgseseeeervvnqLlteldgvkkkeskvivig 107 
                                  ++DE+da   +        +    n+Ll+e++  ++    +i+i+
  PHY93_05175|PHY93_05175 1157 PFCLLDEVDAPLDDA-------NVGRFNELLREMSSDSQ----FILIT 1193
                               667899999998888.......55668999999998877....45554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1222 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2568  (0.143232); expected 358.6 (0.02)
Passed bias filter:                      586  (0.0326845); expected 358.6 (0.02)
Passed Vit filter:                       141  (0.00786435); expected 17.9 (0.001)
Passed Fwd filter:                        89  (0.00496402); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 2.49u 0.38s 00:00:02.87 Elapsed: 00:00:00.69
# Mc/sec: 5334.56
//
Query:       PHY93_05180|PHY93_05180  [L=116]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.3e-15   57.3   0.0    1.7e-15   56.9   0.0    1.2  1  HATPase_c_4  Putative ATP-dependent DNA helicase recG C-termi


Domain annotation for each model (and alignments):
>> HATPase_c_4  Putative ATP-dependent DNA helicase recG C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.9   0.0   9.4e-20   1.7e-15       2      81 ..      10      89 ..       9      96 .. 0.93

  Alignments for each domain:
  == domain 1  score: 56.9 bits;  conditional E-value: 9.4e-20
              HATPase_c_4  2 akvqieifdDRleItspGglpggvtveskllegrssaRNelLasllerlrlmeergsGiqrilealeeaglpepefredg 81
                             + +++  fdDR+eI + Ggl+g +t+e+  + g  ++RN+ +a++++ l+++++ g G+q+  ++l e++ +++ef  + 
  PHY93_05180|PHY93_05180 10 SAIMVYWFDDRIEIINGGGLFGRMTPENFGRAGFADYRNPDIAEVMKVLGFVQRFGVGVQTAQNELIENHNKPAEFTHEL 89
                             6799************************559999******************************************8765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (116 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       487  (0.0271627); expected 358.6 (0.02)
Passed bias filter:                      333  (0.0185733); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.41
# Mc/sec: 852.43
//
Query:       PHY93_05185|PHY93_05185  [L=50]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (50 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       864  (0.0481901); expected 358.6 (0.02)
Passed bias filter:                      472  (0.0263261); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.40
# Mc/sec: 378.21
//
Query:       PHY93_05190|PHY93_05190  [L=123]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    6.2e-50  169.8   0.4    7.1e-50  169.6   0.4    1.0  1  Virulence_RhuM  Virulence protein RhuM family


Domain annotation for each model (and alignments):
>> Virulence_RhuM  Virulence protein RhuM family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  169.6   0.4     4e-54   7.1e-50     117     231 ..       8     122 ..       4     123 .] 0.98

  Alignments for each domain:
  == domain 1  score: 169.6 bits;  conditional E-value: 4e-54
           Virulence_RhuM 117 keFfatvqnklhyavtgktaaeliveradaekenmgLttwkgakvlksdvtiakNYLseeelkeLnrivsayldlaelqakrrkel 202
                               +Ff+tvqnklh+a+t+ktaae+i++r+d++k+nmgLttw+g+kv+k dv+iakNYL+eeel +Ln++v++yl +ae qa+rr+++
  PHY93_05190|PHY93_05190   8 INFFKTVQNKLHWAITQKTAAEIIYDRVDSNKSNMGLTTWRGEKVRKVDVSIAKNYLEEEELLSLNNLVEQYLVFAEGQARRRIPM 93 
                              68************************************************************************************ PP

           Virulence_RhuM 203 tmedwaekldeflelndkevLkdaGkisa 231
                              +m+dw++kl+ fl+lnd+++L++aGkisa
  PHY93_05190|PHY93_05190  94 SMNDWITKLEGFLSLNDRDILNHAGKISA 122
                              ***************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (123 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       629  (0.0350828); expected 358.6 (0.02)
Passed bias filter:                      423  (0.0235931); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 922.80
//
Query:       PHY93_05195|PHY93_05195  [L=131]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.5e-12   47.6   0.0      2e-12   47.2   0.0    1.1  1  DEDD_Tnp_IS110  Transposase


Domain annotation for each model (and alignments):
>> DEDD_Tnp_IS110  Transposase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.2   0.0   1.1e-16     2e-12       1     135 [.       5     129 ..       5     130 .. 0.87

  Alignments for each domain:
  == domain 1  score: 47.2 bits;  conditional E-value: 1.1e-16
           DEDD_Tnp_IS110   1 vGiDvakdkhdacvidaegkvllservpndeeglealleklaakagevlvvveatghygallvaflleagitvvvvnplavkrlrk 86 
                              +G+D ++++++++v+d++g+ +l+++v ++e+ l  +++    + + +l+  e+  +++++l+  l+++  +++v np  v +   
  PHY93_05195|PHY93_05195   5 IGLDAHSSTSTFAVLDPDGQCVLRKTVDTSENNLWNVIDS--INGERILTFEES--TISQWLYISLRKKVDRLLVCNPTYVAKK-- 84 
                              7*********************************999999..334444444444..555679999*************777666.. PP

           DEDD_Tnp_IS110  87 lylrkaKtDakDAkvIAdllrdrgrlrplklddeayaeLrqltrqredl 135
                                  +aKtD +DA ++A+ lr  g lr +  dd+++++Lr+ ++ + d+
  PHY93_05195|PHY93_05195  85 ---PGAKTDFRDAIHLANELR-CGHLREVYHDDSHWVQLRTSVSGYLDI 129
                              ...69****************.******************988776665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (131 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       482  (0.0268838); expected 358.6 (0.02)
Passed bias filter:                      433  (0.0241508); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.24s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 997.39
//
Query:       PHY93_17395|PHY93_17395  [L=257]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.5e-12   45.6   0.1    7.7e-12   45.3   0.1    1.2  1  Peptidase_M10  Matrixin
    2.8e-05   24.4   0.5    3.9e-05   23.9   0.5    1.3  1  Reprolysin_5   Metallo-peptidase family M12
    3.3e-05   23.9   0.1    4.2e-05   23.5   0.1    1.2  1  Reprolysin_2   Metallo-peptidase family M12B Reprolysin-like
    3.5e-05   23.6   0.1    6.7e-05   22.6   0.0    1.6  2  Reprolysin_4   Metallo-peptidase family M12B Reprolysin-like
      0.001   19.6   0.8     0.0024   18.4   0.8    1.9  1  Reprolysin_3   Metallo-peptidase family M12B Reprolysin-like
     0.0035   16.4   0.0     0.0088   15.0   0.0    1.6  2  Peptidase_M66  Peptidase M66
     0.0096   15.6   0.1      0.057   13.0   0.0    2.1  2  Astacin        Astacin (Peptidase family M12A)
  ------ inclusion threshold ------
      0.015   15.3   0.0      0.025   14.6   0.0    1.4  1  Peptidase_M54  Peptidase family M54
      0.022   15.0   0.5        1.3    9.3   0.1    2.7  2  DUF4157        Domain of unknown function (DUF4157)
      0.041   12.5   0.0      0.055   12.1   0.0    1.2  1  Metallopep     Putative peptidase family
      0.068   12.8   4.4       0.13   11.8   0.3    2.3  2  Peptidase_M57  Dual-action HEIGH metallo-peptidase
       0.12   12.3   0.0       0.27   11.1   0.0    1.5  1  Reprolysin     Reprolysin (M12B) family zinc metalloprotease
        0.2   10.9   0.0        0.3   10.3   0.0    1.3  1  DUF4953        Met-zincin


Domain annotation for each model (and alignments):
>> Peptidase_M10  Matrixin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.3   0.1   5.6e-15   7.7e-12     103     157 ..      99     212 ..      13     213 .. 0.63

  Alignments for each domain:
  == domain 1  score: 45.3 bits;  conditional E-value: 5.6e-15
                              .............................................................SSSEEHHHHHHHHHHHHTTBESXSS CS
                              x............................................................xxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M10 103 v............................................................eqgvslflVaaHEiGHalGLeHssd 128
                              +                                                            ++ ++ +++ aHE+GH+ GL Hs +
  PHY93_17395|PHY93_17395  99 ScdpnpalavasdilitcntnaanfsssgvlavtvpnnisgktiigsvimlndlatnqfknSSRAEKVSIIAHELGHTFGLGHSPV 184
                              05555555555555555555555555555555555555555555555555555555555557778889999*************** PP

                              TTSTTSSSCTXTTTXSSXHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M10 129 kdalmyplykeekkvrlskdDvkgiqelY 157
                              kd+lmy    +  + +l +dD++gi++lY
  PHY93_17395|PHY93_17395 185 KDSLMYYATVN-MRQSLGEDDIDGITYLY 212
                              *****987764.5668************9 PP

>> Reprolysin_5  Metallo-peptidase family M12
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.9   0.5   2.8e-08   3.9e-05     108     164 ..     106     187 ..      15     217 .. 0.68

  Alignments for each domain:
  == domain 1  score: 23.9 bits;  conditional E-value: 2.8e-08
             Reprolysin_5 108 vGlAwlgqlcnsgsagsvstrveks.........................nsvvvstatevqvvaHElGHnfGavHDcdsss 164
                              + +A+ + ++ ++ a+++s++                             +++ +s a+ v ++aHElGH+fG  H + ++s
  PHY93_17395|PHY93_17395 106 LAVASDILITCNTNAANFSSSGVLAvtvpnnisgktiigsvimlndlatnQFKNSSRAEKVSIIAHELGHTFGLGHSPVKDS 187
                              555555444444444444444222245555566666666778888888777777888999****************877665 PP

>> Reprolysin_2  Metallo-peptidase family M12B Reprolysin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.5   0.1   3.1e-08   4.2e-05      40     146 ..      59     186 ..      15     221 .. 0.63

  Alignments for each domain:
  == domain 1  score: 23.5 bits;  conditional E-value: 3.1e-08
             Reprolysin_2  40 teasdsgnnycnssttevrr.lnllsqlegekdydlahlvllgtfsggvlGLayvgqicqkeassrk................tnt 108
                              ++a d+  n    s+t+ r  l++ + ++ +  y    ++l+gt  ++   La+ + i ++  ++                  +  
  PHY93_17395|PHY93_17395  59 ADAVDQYWN---RSPTS-RLkLRVGNIISVAAAYGTDLICLAGTSCDPNPALAVASDILITCNTNAAnfsssgvlavtvpnniS-- 138
                              344444444...44553.331444444444556888888888999999999999997744444443344356666555555440.. PP

             Reprolysin_2 109 g............lsttansgsavee..tkeidvvaHEvGHaFGatHdndgs 146
                              g            l+t    +++ +    +++ ++aHE+GH+FG  H +  +
  PHY93_17395|PHY93_17395 139 GktiigsvimlndLAT----NQFKNSsrAEKVSIIAHELGHTFGLGHSPVKD 186
                              1555555554333553....33333322568999*************88765 PP

>> Reprolysin_4  Metallo-peptidase family M12B Reprolysin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0         4   5.5e+03     175     194 ..      30      49 ..      21      53 .. 0.70
   2 !   22.6   0.0   4.9e-08   6.7e-05     126     157 ..     154     187 ..      98     208 .. 0.75

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 4
             Reprolysin_4 175 yaseasqeafapisirliav 194
                              +a++  + ++a+i+ ++i++
  PHY93_17395|PHY93_17395  30 FAQDEVKVNVANITCTNIGI 49 
                              56666677888888888865 PP

  == domain 2  score: 22.6 bits;  conditional E-value: 4.9e-08
             Reprolysin_4 126 asgvaas..rdeydifAHEiGHtfGaaHdlsdeg 157
                               + +++s   ++ +i+AHE GHtfG+ H+  +++
  PHY93_17395|PHY93_17395 154 TNQFKNSsrAEKVSIIAHELGHTFGLGHSPVKDS 187
                              3445544434588***************976555 PP

>> Reprolysin_3  Metallo-peptidase family M12B Reprolysin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.8   1.7e-06    0.0024      94     124 .]     154     182 ..      22     182 .. 0.71

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 1.7e-06
             Reprolysin_3  94 agvnsgssvlgkvga.......dtvaHEiGHnfganHt 124
                              +++ +         +       + +aHE+GH fg+ H+
  PHY93_17395|PHY93_17395 154 TNQFK---------NssraekvSIIAHELGHTFGLGHS 182
                              23333.........133444449**************5 PP

>> Peptidase_M66  Peptidase M66
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       1.5     2e+03      73      99 ..      54      80 ..      41     106 .. 0.80
   2 !   15.0   0.0   6.3e-06    0.0088     194     216 ..     167     189 ..     161     201 .. 0.78

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 1.5
            Peptidase_M66 73 tkvideeiakelfqkvpvsklkvsnhp 99
                              k+i +++ +++ ++ p+s+lk++  +
  PHY93_17395|PHY93_17395 54 LKSIAADAVDQYWNRSPTSRLKLRVGN 80
                             567778888999999999999876555 PP

  == domain 2  score: 15.0 bits;  conditional E-value: 6.3e-06
            Peptidase_M66 194 gefiHEqGHalGLpHylageaas 216
                               +  HE+GH +GL+H++  ++  
  PHY93_17395|PHY93_17395 167 SIIAHELGHTFGLGHSPVKDSLM 189
                              5789***********88876554 PP

>> Astacin  Astacin (Peptidase family M12A)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.0      0.42   5.9e+02      75      87 ..      42      54 ..      25      57 .. 0.78
   2 !   13.0   0.0   4.2e-05     0.057      74     101 ..     160     187 ..     130     212 .. 0.82

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 0.42
                             CCC-SHHHHHHHH CS
                  Astacin 75 kgCeklgiivHEl 87
                               C+++gi +HEl
  PHY93_17395|PHY93_17395 42 ITCTNIGIDIHEL 54
                             57**********8 PP

  == domain 2  score: 13.0 bits;  conditional E-value: 4.2e-05
                              -CCC-SHHHHHHHHHHHHTB--GGGSTT CS
                  Astacin  74 gkgCeklgiivHElmHalGffHeqsRtd 101
                              ++  ek+ ii+HEl+H+ G+ H   +  
  PHY93_17395|PHY93_17395 160 SSRAEKVSIIAHELGHTFGLGHSPVKDS 187
                              567899****************876655 PP

>> Peptidase_M54  Peptidase family M54
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.0   1.8e-05     0.025     148     170 ..     168     191 ..     145     210 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 1.8e-05
                              HHHHHHHHHTT----S-.TSTTS- CS
            Peptidase_M54 148 evlhelGhlyGLshCke.dCvmnf 170
                               + helGh++GL+h +  d  m +
  PHY93_17395|PHY93_17395 168 IIAHELGHTFGLGHSPVkDSLMYY 191
                              579***********9877888855 PP

>> DUF4157  Domain of unknown function (DUF4157)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.3   0.1     0.072     1e+02      35      53 ..      14      34 ..      11      41 .. 0.72
   2 ?    9.3   0.1   0.00095       1.3      44      72 ..     144     176 ..     110     179 .. 0.77

  Alignments for each domain:
  == domain 1  score: 3.3 bits;  conditional E-value: 0.072
                  DUF4157 35 algAqAfTlgn..divfaage 53
                             +++A+AfTl n  + vfa++e
  PHY93_17395|PHY93_17395 14 SVNAHAFTLNNsaTLVFAQDE 34
                             799******882245666665 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.00095
                  DUF4157  44 gndivf...aageyqpes.aagrellaHELtHv 72 
                              g+ i++   a ++++ +s a+  +++aHEL H+
  PHY93_17395|PHY93_17395 144 GSVIMLndlATNQFKNSSrAEKVSIIAHELGHT 176
                              555555444455555555156679********8 PP

>> Metallopep  Putative peptidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0     4e-05     0.055     319     333 ..     170     184 ..     142     204 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 4e-05
               Metallopep 319 lHEiGHllglpHqed 333
                               HE+GH++gl+H + 
  PHY93_17395|PHY93_17395 170 AHELGHTFGLGHSPV 184
                              6***********863 PP

>> Peptidase_M57  Dual-action HEIGH metallo-peptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.3     0.063        87     157     188 ..     114     147 ..     110     163 .. 0.79
   2 ?   11.8   0.3   9.7e-05      0.13     128     150 ..     160     182 ..     151     192 .. 0.81

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.063
            Peptidase_M57 157 isC.GsagnegtagvGaihipgtPttats.gsim 188
                              i C  +a+n +++gv a+ +p+  +++t  gs++
  PHY93_17395|PHY93_17395 114 ITCnTNAANFSSSGVLAVTVPNNISGKTIiGSVI 147
                              78977788999************99998557764 PP

  == domain 2  score: 11.8 bits;  conditional E-value: 9.7e-05
            Peptidase_M57 128 ysvdvnehvithelGhtvGlRhs 150
                              +s +    +i helGht Gl hs
  PHY93_17395|PHY93_17395 160 SSRAEKVSIIAHELGHTFGLGHS 182
                              555555679*************9 PP

>> Reprolysin  Reprolysin (M12B) family zinc metalloprotease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0    0.0002      0.27      98     150 ..     133     184 ..     118     190 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.0002
                              -STTSSEEE-TT-TTSTSTSEEEEE--SSSHHHHHHHHHHHHHHHCT---GHH CS
               Reprolysin  98 fekktvGaayvgglCskeksggvaedkkknlealavilaqeLghnlGlthdee 150
                              + ++ +G + +g++    ++ + +++k+++     +i+a+eLgh +Gl h   
  PHY93_17395|PHY93_17395 133 VPNNISGKTIIGSVIML-NDLATNQFKNSSRAEKVSIIAHELGHTFGLGHSPV 184
                              45557888888888877.788999999988888899************99765 PP

>> DUF4953  Met-zincin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0   0.00022       0.3      16      29 ..     168     181 ..     162     198 .. 0.92

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00022
                  DUF4953  16 vvaHEvGhtLGLrh 29 
                              ++aHE Ght+GL h
  PHY93_17395|PHY93_17395 168 IIAHELGHTFGLGH 181
                              79**********99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (257 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       591  (0.0329634); expected 358.6 (0.02)
Passed bias filter:                      490  (0.02733); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.54u 0.25s 00:00:00.79 Elapsed: 00:00:00.41
# Mc/sec: 1869.41
//
Query:       PHY93_05200|PHY93_05200  [L=213]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.5e-14   54.1   0.0    2.2e-14   53.5   0.0    1.3  1  Transposase_20   Transposase IS116/IS110/IS902 family
  ------ inclusion threshold ------
       0.14   10.7   0.0       0.21   10.1   0.0    1.2  1  Met_gamma_lyase  Methionine gamma-lyase
       0.16   12.0   0.2       0.16   12.0   0.2    2.3  2  Apis_Csd         Complementary sex determiner protein


Domain annotation for each model (and alignments):
>> Transposase_20  Transposase IS116/IS110/IS902 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.5   0.0   3.7e-18   2.2e-14       2      87 .]      74     158 ..      73     158 .. 0.94

  Alignments for each domain:
  == domain 1  score: 53.5 bits;  conditional E-value: 3.7e-18
           Transposase_20   2 elLesipGiGpvtaaallaeigdlrrfksakqlaayaGlapvenqSGkkkrrgriskrGnrrlRraLyeaAlaairanpelrayye 87 
                              + L++ipGi+ + a  + a + ++ rfk++ +++ y+ l+ + ++SG+k   g  + +G+r+lR +++ +A +a+r +++lr+yye
  PHY93_05200|PHY93_05200  74 RNLMTIPGISIIRANIITAIVCQPARFKNKHNFWGYCMLVRHIQESGGKIY-GNKRVHGRRELRDIFIGGAESAMRSDSTLRDYYE 158
                              68************************************************9.444455***************************6 PP

>> Met_gamma_lyase  Methionine gamma-lyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.0   3.6e-05      0.21     362     403 ..     139     180 ..     136     182 .. 0.94

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 3.6e-05
          Met_gamma_lyase 362 fiqGssielsadgPirePyiayvqGGltyehvkiavlaalek 403
                              fi G+ + + +d+ +r+ y+a    G++++++k+av + +++
  PHY93_05200|PHY93_05200 139 FIGGAESAMRSDSTLRDYYEALRAKGTSHKDAKVAVARKIAS 180
                              9***********************************998876 PP

>> Apis_Csd  Complementary sex determiner protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   2.4      0.25   1.5e+03      13      31 ..      20      38 ..       8      89 .. 0.72
   2 ?   12.0   0.2   2.6e-05      0.16      18      76 ..     148     207 ..     143     211 .. 0.84

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 0.25
                 Apis_Csd 13 eqksyknensyreyretsr 31
                             e+  ykn++  +e+++ s 
  PHY93_05200|PHY93_05200 20 ENDFYKNKERVKEFKNDSA 38
                             6667777777777776654 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 2.6e-05
                 Apis_Csd  18 knensyreyretsrersrdrkerersrekkiis.slsnlsnnynynnnynnynnynklyy 76 
                              + +   r+y e+ r +    k+ +    +ki s +ls l+nn  yn+ny++y +  kl +
  PHY93_05200|PHY93_05200 148 RSDSTLRDYYEALRAKGTSHKDAKVAVARKIASlALSLLKNNDTYNDNYEEYLKERKLCF 207
                              5677889*********999999999999999984567889************98887755 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (213 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       625  (0.0348597); expected 358.6 (0.02)
Passed bias filter:                      397  (0.0221429); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 1650.37
//
Query:       PHY93_05205|PHY93_05205  [L=200]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.7e-93  312.5   6.2    1.9e-93  312.4   6.2    1.0  1  Virulence_RhuM  Virulence protein RhuM family
     0.0021   18.1   0.0     0.0048   16.9   0.0    1.6  1  CAP_GLY         CAP-Gly domain


Domain annotation for each model (and alignments):
>> Virulence_RhuM  Virulence protein RhuM family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  312.4   6.2   2.1e-97   1.9e-93      26     220 ..       1     199 [.       1     200 [] 0.99

  Alignments for each domain:
  == domain 1  score: 312.4 bits;  conditional E-value: 2.1e-97
           Virulence_RhuM  26 LdaiiavGyrvkskratqFRkWatkvlkeylikGfvldderlkn.gkklgkdyfdellerirdiRasErrfyqkvtdiyatsiDYd 110
                              L+aiiavGy+v+s+ra+qFRkWat++++e+ ikGf++dderlkn g+ lgk+yf+e+l+rir+iR+sEr+fyqk+tdiy+t+iDYd
  PHY93_05205|PHY93_05205   1 LSAIIAVGYKVNSERAVQFRKWATNIVEEFAIKGFAMDDERLKNdGSILGKKYFEEQLQRIREIRLSERKFYQKITDIYSTAIDYD 86 
                              789*****************************************8899************************************** PP

           Virulence_RhuM 111 kkseatkeFfatvqnklhyavtgktaaeliveradaekenmgLttwkga...kvlksdvtiakNYLseeelkeLnrivsayldlae 193
                               +++at++Ff+tvqnklh+a++g+taae+iv+radaek+nmgLttw++a   k++k dv++akNYL++ e+++L+r+vs+yldlae
  PHY93_05205|PHY93_05205  87 VTAQATNRFFSTVQNKLHWAIHGQTAAEMIVSRADAEKQNMGLTTWTDAprgKIQKFDVVVAKNYLNQGEMEQLQRLVSTYLDLAE 172
                              ***********************************************99999********************************** PP

           Virulence_RhuM 194 lqakrrkeltmedwaekldeflelndk 220
                              ++akr++++tm+dw+ +l++fle++d+
  PHY93_05205|PHY93_05205 173 DMAKRHIPMTMQDWEIRLNRFLEFTDR 199
                              ************************997 PP

>> CAP_GLY  CAP-Gly domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0   5.3e-07    0.0048      30      52 ..      34      56 ..      10      60 .. 0.83

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 5.3e-07
                  CAP_GLY 30 GveldepnGkndGsvkgkrYFec 52
                             G  +d+++ kndGs+ gk+YFe 
  PHY93_05205|PHY93_05205 34 GFAMDDERLKNDGSILGKKYFEE 56
                             8899*99**************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (200 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       959  (0.0534888); expected 358.6 (0.02)
Passed bias filter:                      553  (0.0308439); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.39
# Mc/sec: 1534.78
//
Query:       PHY93_05210|PHY93_05210  [L=72]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (72 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       407  (0.0227007); expected 358.6 (0.02)
Passed bias filter:                      308  (0.0171789); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.41
# Mc/sec: 532.57
//
Query:       PHY93_05215|PHY93_05215  [L=186]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (186 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       427  (0.0238162); expected 358.6 (0.02)
Passed bias filter:                      333  (0.0185733); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 1374.00
//
Query:       PHY93_05220|PHY93_05220  [L=214]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      3e-12   46.2   0.0    5.2e-12   45.4   0.0    1.4  1  SLT              Transglycosylase SLT domain
     0.0063   16.5   0.2      0.014   15.4   0.2    1.6  1  Phage_lysozyme2  Phage tail lysozyme


Domain annotation for each model (and alignments):
>> SLT  Transglycosylase SLT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.4   0.0   5.8e-16   5.2e-12      11     104 ..      86     199 ..      78     209 .. 0.81

  Alignments for each domain:
  == domain 1  score: 45.4 bits;  conditional E-value: 5.8e-16
                              TS-HHHHHHHHHHHHTT-TT-B-TTS......EBTTTTBETTTHHHHHHHHT........-SHHHHCSHHHHHHHHHHHHHHHHHT CS
                      SLT  11 gvepsllaaiaqvESgfnpkAvsksg......avGLmQimpstakrlglrvk........lsedelldPeknisagakyLkslykq 82 
                               + p++++a++++ESgfnpk + +++      a GLmQ++++t ++l+   k        l+ +e+ dP+kni ag++ L +  + 
  PHY93_05220|PHY93_05220  86 PLHPNFVKALMATESGFNPKSIAPNKnkkigfARGLMQVTERTQRQLAGDEKelkdhlviLDDEEVWDPNKNICAGVRWLFRKREI 171
                              57899******************77777999***************98776678899********************988766665 PP

                              TTT......HHHHHHHHHHH-HHHHHHT CS
                      SLT  83 yng......slllalaAYNaGegtvkka 104
                              ++        + ++l++Y   +    k+
  PHY93_05220|PHY93_05220 172 LKSqikrdpTWKEVLMGYKGKATSQTKK 199
                              5556666779999999996544443333 PP

>> Phage_lysozyme2  Phage tail lysozyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.2   1.6e-06     0.014      26      63 ..      95     133 ..      92     213 .. 0.61

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 1.6e-06
          Phage_lysozyme2  26 niqqEsgfnpgaves.alskggggyGlvQWtgsrrtall 63 
                               +  Esgfnp++    +++k g++ Gl+Q t  ++++l 
  PHY93_05220|PHY93_05220  95 LMATESGFNPKSIAPnKNKKIGFARGLMQVTERTQRQLA 133
                              5889**********99999************87665433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (214 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       538  (0.0300073); expected 358.6 (0.02)
Passed bias filter:                      327  (0.0182386); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1592.02
//
Query:       PHY93_05225|PHY93_05225  [L=83]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.21   11.2   3.0       0.33   10.6   3.0    1.3  1  DUF2312   Uncharacterized protein conserved in bacteria (DUF2


Domain annotation for each model (and alignments):
>> DUF2312  Uncharacterized protein conserved in bacteria (DUF2312)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   3.0   1.8e-05      0.33      18      65 ..       5      58 ..       1      61 [. 0.84

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 1.8e-05
                  DUF2312 18 EkkaiaedikdvyaeaKseGfd.tkvlrk.....ivklrkkdkdereEeealle 65
                              k++i++ +k++++ a  + f  +k+l++     ++k +k d+++++E + ll+
  PHY93_05225|PHY93_05225  5 KKEKIKQALKELFSKADDAEFYfIKTLKEfsnsvLIKSKKVDSEKLSETNLLLK 58
                             3667************98887538****8666667***************9985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (83 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1009  (0.0562775); expected 358.6 (0.02)
Passed bias filter:                      469  (0.0261587); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.21s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 621.12
//
Query:       PHY93_05230|PHY93_05230  [L=707]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.2e-19   70.9   0.1    2.6e-19   69.8   0.1    1.6  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    4.8e-06   26.5   0.7    4.8e-06   26.5   0.7    1.9  2  HisKA        His Kinase A (phospho-acceptor) domain
     0.0032   17.3   0.0     0.0065   16.3   0.0    1.5  1  HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like
     0.0051   16.5   0.0     0.0098   15.6   0.0    1.4  1  DnaT         DnaT DNA-binding domain
  ------ inclusion threshold ------
      0.016   15.1   0.0      0.038   13.9   0.0    1.7  1  HATPase_c_5  GHKL domain


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.8   0.1   7.2e-23   2.6e-19       3     111 ..     354     462 ..     352     463 .. 0.89

  Alignments for each domain:
  == domain 1  score: 69.8 bits;  conditional E-value: 7.2e-23
                              HHHHHHHHHHHHHHHHHHHS.TTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCS.TTCHHCSTCHTSTSSSHHHHHHHHHHH CS
                HATPase_c   3 ekrLrqiisnlvdNavkfat.kageieveikaseddlvisveDnGiGipkedlkklfe.kfsqddstkrggggtGlGlsivkklve 86 
                              ++ L++i+snlv N+v++ + ++ge+ + i+++ d++ i v+DnG Gip+e+l++l++    +  +++++ +g+GlG + +kk +e
  PHY93_05230|PHY93_05230 354 SIDLKRILSNLVNNSVEAFPdNKGEVIIVIETRGDWVNILVKDNGGGIPQEILNQLGKaG-LS-YGKNDSDSGSGLGIYHAKKCIE 437
                              5789*************944699999999997779**********************954.44.47788889***********999 PP

                              HTTTEEEEEEETTTEEEEEEEEESS CS
                HATPase_c  87 lmgGeiwvesepgrGttftftlple 111
                               mgG++ ++s+ g+Gt++ ++lp +
  PHY93_05230|PHY93_05230 438 AMGGHFAITSQLGQGTQVKIQLPRA 462
                              9********************9975 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.2       2.1   7.6e+03       9      16 ..     179     186 ..     178     186 .. 0.87
   2 !   26.5   0.7   1.3e-09   4.8e-06       2      65 ..     233     290 ..     232     292 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 2.1
                              HHHHHHHH CS
                    HisKA   9 vaHELrtP 16 
                              + H LrtP
  PHY93_05230|PHY93_05230 179 IHHALRTP 186
                              78*****9 PP

  == domain 2  score: 26.5 bits;  conditional E-value: 1.3e-09
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHC..T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHH CS
                    HisKA   2 lgrflagvaHELrtPLsailgnaeaLkregklteelkeyletiesearrldhlvedlLdlsrie 65 
                              l+++++ vaH++r PLsa+ + ++ L +    +ee +     i+++++r++++ +dlL  +++ 
  PHY93_05230|PHY93_05230 233 LSEMASQVAHDIRSPLSALNMVSSELGE---VSEEKRL---LIRNSIQRINDIANDLLAKGKLN 290
                              6899**********************99...6677777...899*************9877765 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0   1.8e-06    0.0065       6      67 ..     360     421 ..     355     480 .. 0.64

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 1.8e-06
              HATPase_c_3   6 AlaelvdNsldAdaen...vkievnknrgktgeivieDdGkGmseeelknalrlatsskeakrks 67 
                               l  lv+Ns++A   n   v i++++ rg+  +i ++D+G G+++e l +  + + s  +++  s
  PHY93_05230|PHY93_05230 360 ILSNLVNNSVEAFPDNkgeVIIVIET-RGDWVNILVKDNGGGIPQEILNQLGKAGLSYGKND--S 421
                              6789*******977666668888888.5899************9997766444444433322..2 PP

>> DnaT  DnaT DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   2.7e-06    0.0098      27      67 ..      29      70 ..      15      74 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 2.7e-06
                     DnaT 27 ftedelaeFilYWrerg.kvetqaqWnqkFvqhvkrqwaraq 67
                              + ++l  F +YW + +   +++++W  +F ++++++ ++ +
  PHY93_05230|PHY93_05230 29 IVMTCLTGFAVYWVSDHaFNQAHQNWVDMFTENIRQDMVKGN 70
                             677899***********9999***************988866 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   1.1e-05     0.038       3      90 ..     354     448 ..     352     460 .. 0.72

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 1.1e-05
              HATPase_c_5   3 dldlcvilgnlLdNAieacskieeekrfIrltvrekkksliisieNsyeg.......ek..kkless.kskkeehGiGlksireiv 78 
                              ++dl +il+nl +N++ea  + +    ++ + ++++ + + i ++ +  g       +     l    + +++  G+G+   ++++
  PHY93_05230|PHY93_05230 354 SIDLKRILSNLVNNSVEAFPDNK---GEVIIVIETRGDWVNILVKDNGGGipqeilnQLgkAGLSYGkNDSDSGSGLGIYHAKKCI 436
                              579***************88755...56777788888888888887755555544442232333333144566799999******* PP

              HATPase_c_5  79 kkykgnlsieae 90 
                              +  +g+++i+ +
  PHY93_05230|PHY93_05230 437 EAMGGHFAITSQ 448
                              ***999998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (707 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       624  (0.0348039); expected 358.6 (0.02)
Passed bias filter:                      502  (0.0279993); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.70u 0.25s 00:00:00.95 Elapsed: 00:00:00.43
# Mc/sec: 4918.06
//
Query:       PHY93_05235|PHY93_05235  [L=498]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.4e-30  106.6   0.1    5.6e-25   88.1   0.1    2.1  2  SBP_bac_5  Bacterial extracellular solute-binding proteins, f


Domain annotation for each model (and alignments):
>> SBP_bac_5  Bacterial extracellular solute-binding proteins, family 5 Middle
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.1   0.1   3.1e-29   5.6e-25       2     228 ..      74     297 ..      73     335 .. 0.92
   2 !   16.6   0.0   1.6e-07    0.0029     311     374 ..     358     420 ..     342     423 .. 0.86

  Alignments for each domain:
  == domain 1  score: 88.1 bits;  conditional E-value: 3.1e-29
                              EEESSEEEEEEEETTTTEEEEEE-TT-B-TTSSB-SHHHHHHHHHHHHTGGGHCTTHHHHHC..........TCTEEEEEEEETTE CS
                SBP_bac_5   2 vvpaLAeswwevsdDgktytfkLRkgvkFsDGtpltAeDvvfsferlldpdtasgyasllee..........dqdikkveavddyt 77 
                              +v  LA++ we ++ +k+y+f+L ++++FsDGtp+tA+Dv++s+ r    +++s  a++l++          ++   ++++++++t
  PHY93_05235|PHY93_05235  74 LVSYLAKR-WEYDAKKKEYIFTLDPDARFSDGTPVTAQDVAWSLSRHFWTGSPSVVANYLKValantetiqvNHIHPAFKVINEHT 158
                              6788****.7***************************************************9************************ PP

                              EEEEESSETTTTTTHCHHHHHHHGCCHTCTCTTTTTGTTTSE-BSSSEEEEEEETTTEEEEEE-TTSTTTSCSSSSEEEEEE-.SH CS
                SBP_bac_5  78 vrftlkkpnalfltllaavpasiakkaaekeddkdkdtnekpvgtGPYklkefkpgqkivlernpdYwgggkpkldriefkvipds 163
                              + ++lk+ + +fl +l+++  si          k  +    pvg+GP kl++ +  +k+ + +n  +   +   l+++++   + +
  PHY93_05235|PHY93_05235 159 FGIRLKSFYHPFLHVLSMPGFSIT---------KYHNDTFLPVGSGPLKLEKRNEKNKLSFLKNNLF--VRSMDLNQVTVLESTGA 233
                              ************************.........344556689************************9..79999*********999 PP

                              HHHHHHHHTTSSSEEESTTCCTHCHHHHHTTEEE.EEEEEEEEEEEEEETTTSTGGGSHHHHHHHH CS
                SBP_bac_5 164 daraaalqsGeiddvaepppsdieqlkeakglkv.lyespgggvtylafNtkkppfddkrvRqAls 228
                              da+  ++  G id + +++ ++++  k+ +++k+ +  s ++ + + +fNtk  +f++ + R  ls
  PHY93_05235|PHY93_05235 234 DATKKMFADGLIDLALGVSRGNLNL-KTFENTKMaITLSESLAILHAYFNTK-GMFNNDDYRSTLS 297
                              9999999**********99999988.677777777799**************.69**999997776 PP

  == domain 2  score: 16.6 bits;  conditional E-value: 1.6e-07
                              HHHHHHHHHHHHHTTEEEEEEEECHHHHHHHHHHCTTESEEEEEEECTTSTTHHHHHHHHSTTC CS
                SBP_bac_5 311 kaiaeliqqqlkkiGikvevktvdwaatylervkdgdfdmillgwgadypdpdnflnpflsssg 374
                               + +e++   l+  +ik+++   ++ ++ l++ k++d+d+i +g+ +++pdpd+f++ +++ss 
  PHY93_05235|PHY93_05235 358 LEFVEILERILRGNNIKTKITLGKP-EEILASIKNKDYDIISFGYVGNFPDPDAFIDLLNTSSP 420
                              466778888888889********99.9999*****************************99875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (498 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       488  (0.0272185); expected 358.6 (0.02)
Passed bias filter:                      401  (0.022366); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.58u 0.21s 00:00:00.78 Elapsed: 00:00:00.39
# Mc/sec: 3815.32
//
Query:       PHY93_05240|PHY93_05240  [L=343]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.1e-14   53.1   0.1    6.4e-09   35.6   0.0    2.7  2  DUF4135   Domain of unknown function (DUF4135)


Domain annotation for each model (and alignments):
>> DUF4135  Domain of unknown function (DUF4135)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.6   0.0   3.6e-13   6.4e-09      54     183 ..      12     154 ..       6     194 .. 0.79
   2 !   14.2   0.0   1.2e-06     0.021     320     374 ..     199     251 ..     181     252 .. 0.67

  Alignments for each domain:
  == domain 1  score: 35.6 bits;  conditional E-value: 3.6e-13
                  DUF4135  54 lgDsHnggrsVailrfasgaklvYKPRslalevafqellewln...kka.gsldlkvlkvldr..geYgWvefve.hqpcaseeev 132
                              lgD+Hngg+sV  l  + g+  + KPR+   e  f +  + l    k++     ++ l++ +   +e g v f++ + +  s+ ++
  PHY93_05240|PHY93_05240  12 LGDKHNGGKSVN-LNID-GR--IEKPRPCLAECFFLSEKSPLRvyfKENsIFNYFPNLEFYNEnlSEVGVVNFLNlNTSSFSNGDA 93 
                              79*********9.8888.44..67***********9766666655566659999999999999889*********85556666667 PP

                  DUF4135 133 erfYrraGallallyllggtDlheeNl.iasgeq....pvliDlEtllth.....eaeksa 183
                               +  + +G+lla+++ +g +Dlh+eN+   ++e+      +iD+E+++++     ++  ++
  PHY93_05240|PHY93_05240  94 VKMSEAVGNLLAISQWFGLSDLHHENIkYGHNEKgkfiFAPIDIECFFQNiklpfQTGLIS 154
                              8889***********************9999999999999********7766555333333 PP

  == domain 2  score: 14.2 bits;  conditional E-value: 1.2e-06
                  DUF4135 320 llqesthPdllrdgaereallerlara...seekeklkelleaElaaLeqgDIPyFtt 374
                              +++  ++P+ l+  +  ++ +     +    + + ++ +l+ +E+++L+ gDIPyF++
  PHY93_05240|PHY93_05240 199 IINDVFSPKDLARVLLKNTSV-----YgrwCNGAVEIDHLILEEVDQLKAGDIPYFFR 251
                              555555555555433222222.....2223446888999*****************86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (343 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       377  (0.0210274); expected 358.6 (0.02)
Passed bias filter:                      260  (0.0145016); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.40
# Mc/sec: 2542.20
//
Query:       PHY93_05245|PHY93_05245  [L=92]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (92 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       481  (0.026828); expected 358.6 (0.02)
Passed bias filter:                      341  (0.0190195); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.23s 00:00:00.61 Elapsed: 00:00:00.38
# Mc/sec: 728.68
//
Query:       PHY93_17400|PHY93_17400  [L=195]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.4e-05   24.6   1.9    3.1e-05   24.2   1.9    1.2  1  OMP_b-brl        Outer membrane protein beta-barrel domain
      0.003   17.6   0.6     0.0041   17.1   0.6    1.2  1  Phenol_MetA_deg  Putative MetA-pathway of phenol degradation


Domain annotation for each model (and alignments):
>> OMP_b-brl  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.2   1.9   3.5e-09   3.1e-05       3     178 .]      10     194 ..       8     194 .. 0.63

  Alignments for each domain:
  == domain 1  score: 24.2 bits;  conditional E-value: 3.5e-09
                OMP_b-brl   3 llllaalsaaaaaas.sfggfyvggglgls.....kvkvdgvgsds....gfgfgvgagyefnd..nvgvegglsy.sgdkdysgs 75 
                              l++l+++ a++++a   ++   +g    +      k+++d++g+ +    ++ + ++++y +n+  +++ e gls+  +++d +  
  PHY93_17400|PHY93_17400  10 LFCLLFCFASSQTAKaYDATLSLG----NLceyvgKIQTDDSGGTNvcsfDPYLAGSLDYAVNNelILAPEIGLSFpKSGRDEN-- 89 
                              455555555555544033444444....333323599988886666787789***********956677788888863333333.. PP

                OMP_b-brl  76 gktdikinllsvpvnagyafnlsdsvlpyggaGlgytkvevdvsgng..............asdsdtdfglglgaGveyaladnws 147
                                  i+  ++   +na+y+f +   +   ggaGl +t  ++++sg +               +++     + + +G++++++++ws
  PHY93_17400|PHY93_17400  90 ----ISKMSFIALANAKYKFSM---FHFIGGAGLFFT--RISGSGGTqdlnngnttvsfpmPDSTVYSRNFIVNLGLGMNFNKDWS 166
                              ....455666777777777776...555666666643..2232222233445555555555266666666777777777******* PP

                OMP_b-brl 148 lkaeYrytdlksdadndlknntfqvgvgyrF 178
                               ++   + +l    ++++++ ++ +++ y+F
  PHY93_17400|PHY93_17400 167 ADLHTYVFNL---LKSEDRAFSIAINATYHF 194
                              **99888888...568888888888888888 PP

>> Phenol_MetA_deg  Putative MetA-pathway of phenol degradation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.6   4.5e-07    0.0041     112     222 ..      49     173 ..      39     193 .. 0.71

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 4.5e-07
          Phenol_MetA_deg 112 Gsnywsfsptvaltyq..ladgwelsanlgydfngenddtdyqsgqefhldlalgyaftpgkwsvglvgyyytql.....tddkgn 190
                              G+n  sf+p++a +     ++ + l   +g++f  + + ++  s+ +f + + + y+f+     +g +g ++t +     t d  n
  PHY93_17400|PHY93_17400  49 GTNVCSFDPYLAGSLDyaVNNELILAPEIGLSFPKSGR-DENISKMSFIALANAKYKFSMF-HFIGGAGLFFTRIsgsggTQDLNN 132
                              67889999999999985555555555566666666654.59999**************433.334444446666644333333335 PP

          Phenol_MetA_deg 191 ga.........dgnrgrvfalGpglaylfspnlqldasagk 222
                              g+         +   +r+f++  gl+++f+++++ d++ ++
  PHY93_17400|PHY93_17400 133 GNttvsfpmpdSTVYSRNFIVNLGLGMNFNKDWSADLHTYV 173
                              556678899966677777********************998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (195 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       344  (0.0191868); expected 358.6 (0.02)
Passed bias filter:                      286  (0.0159518); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.20s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 1475.72
//
Query:       PHY93_16210|PHY93_16210  [L=250]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (250 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       460  (0.0256568); expected 358.6 (0.02)
Passed bias filter:                      436  (0.0243181); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.38
# Mc/sec: 1957.54
//
Query:       PHY93_16215|PHY93_16215  [L=431]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
     0.0057   16.3   0.0      0.015   15.0   0.0    1.7  1  Peptidase_M13  Peptidase family M13


Domain annotation for each model (and alignments):
>> Peptidase_M13  Peptidase family M13
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   8.1e-07     0.015      12     115 ..     254     353 ..     250     379 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 8.1e-07
            Peptidase_M13  12 vfpaailqppffdleypeavNyggiGaviaHEltHgfddqgvqfdkegnlaswltdedaeefkek.akclieqfsevtepektkav 96 
                              +f +++ +p  f+++  + + +  iG+ +aHE +Hg      + +++ + + ++ +++ +e+++k  k   + +s+++++++ ++ 
  PHY93_16215|PHY93_16215 254 TFFVGLKDPGSFHEN--KDIDFSLIGT-LAHEFGHGVAMFSTEVGSKKEFK-KISNNEIAEIENKiLKPFFKCYSTYKKEDEESNE 335
                              688888899999999..889******6.79***************999876.56666666666661566899*********98877 PP

            Peptidase_M13  97 ngaltlgEniADlggleiA 115
                                ++ l+E  AD +++ i 
  PHY93_16215|PHY93_16215 336 FLKIQLQESRADAIAY-IT 353
                              7889999*****9886.44 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (431 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       834  (0.0465168); expected 358.6 (0.02)
Passed bias filter:                      376  (0.0209716); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.23s 00:00:00.79 Elapsed: 00:00:00.40
# Mc/sec: 3226.54
//
Query:       PHY93_16220|PHY93_16220  [L=216]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    2.2e-17   63.7   0.0    3.4e-17   63.0   0.0    1.3  1  Trypsin    Trypsin
    6.8e-07   29.1   0.0    1.1e-06   28.5   0.0    1.3  1  DUF316     Chymotrypsin family Peptidase-S1
    7.3e-07   30.2   0.0    1.1e-06   29.6   0.0    1.2  1  Trypsin_2  Trypsin-like peptidase domain


Domain annotation for each model (and alignments):
>> Trypsin  Trypsin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.0   0.0   5.6e-21   3.4e-17      23     221 .]      25     200 ..      17     200 .. 0.79

  Alignments for each domain:
  == domain 1  score: 63.0 bits;  conditional E-value: 5.6e-21
                              C.EEEEEEEEEETTEEEEEGGGTTTGGGEEEEESESBTTSCTTTEEEEEEEEEEEETTEBTTTTTTTEEEEEESSSSTSBSSBHCC CS
                  Trypsin  23 g.khlCgGslisenwvlTAaHCvsnasdvkvvlgehnlkksegkeqklkvekvivhpnynpstldnDiallklkepvklgdtvrpi 107
                              + +  ++G+lis+n +lTAaHCv         ++  ++ +++  e+ +++e+v+     ++++ + Dia++kl+++  + dt++p+
  PHY93_16220|PHY93_16220  25 SlEPSSSGILISNNLLLTAAHCVGY-------FSHAKFPHTSF-EEIIEIEEVLTF--CKEEDEHFDIAIVKLSKK--VPDTIKPV 98 
                              4566789*****************7.......33334555555.69******6663..33333579**********..******** PP

                              BBCSTTHTTSTTTEEEEEESSB.SSTSSBSSBEEEEEEEEEEHHHHHHHTTTTSTTTEEEEESTTSSSBCTTTTTTSEEEETTT.. CS
                  Trypsin 108 clpaassslpvgttclvsGwgr.tkekgksdtlqevevpvvsretcksaykgkvtenmlcagakeggkdacqGDSGGPlvcsdg.. 190
                              c+ +++ +++ +t+ +v+G+g   + +g ++tl+ +++p       ++     + +n l a+  ++++++  GDSGGP+  + +  
  PHY93_16220|PHY93_16220  99 CILDEGYKIESKTELVVAGFGVsGDIDG-KSTLRLINLPF------EK-----YDKNWLIADQ-RNDQKTSIGDSGGPAYLKIKnk 171
                              ****99999************9444555.89999999999......33.....4567888888.68899999*******9998889 PP

                              .EEEEEEEEESSSSCTTSEEEEEEGGGGHHHH CS
                  Trypsin 191 .elvGivswgkgcakgnrpgvytkvssyldwi 221
                               +l+G++++ +   ++ + + + + s +++wi
  PHY93_16220|PHY93_16220 172 iFLAGVTTGTD---QKFEFAAFMNLSLFKEWI 200
                              *******9963...333346666777777776 PP

>> DUF316  Chymotrypsin family Peptidase-S1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.5   0.0   1.8e-10   1.1e-06     145     275 ..      68     200 ..      52     204 .. 0.86

  Alignments for each domain:
  == domain 1  score: 28.5 bits;  conditional E-value: 1.8e-10
                   DUF316 145 yvlniCknikskqklsakpmlvelekpleanssvvCladestslkkgdavdvygl......dssgelkhrklkieavss..aeasi 222
                               vl +C    ++++ +  + +v l k+    +++vC+ de  +++ +  + v g       d ++ l   +l++e++ +   +a +
  PHY93_16220|PHY93_16220  68 EVLTFC----KEEDEHFDIAIVKLSKKVPDTIKPVCILDEGYKIESKTELVVAGFgvsgdiDGKSTLRLINLPFEKYDKnwLIADQ 149
                              588999....8888889999*******99************999998888888877799888888888899999999886667899 PP

                   DUF316 223 ktsqylskkddggslikkvsgkntvlGfgatgnlesnandelFfnlkklskei 275
                               ++q++s +d+gg++  k+++k  + G+ +  +++   +   F+nl+ +++ i
  PHY93_16220|PHY93_16220 150 RNDQKTSIGDSGGPAYLKIKNKIFLAGVTTGTDQKF--EFAAFMNLSLFKEWI 200
                              9***************************99999666..4789****9998766 PP

>> Trypsin_2  Trypsin-like peptidase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.6   0.0   1.9e-10   1.1e-06       2     140 ..      31     164 ..      30     169 .. 0.76

  Alignments for each domain:
  == domain 1  score: 29.6 bits;  conditional E-value: 1.9e-10
                Trypsin_2   2 sGflvgsdglilTnaHvvdsadgaavkaikkkveeagadgrevpakvvaadpelDlAllkvssderaglpplplgpse.alkggep 86 
                              sG+l+++++ +lT+aH+v+  + a      + ++e   + +ev + + + d++ D+A++k+s++ ++ + p+ + ++  +++  ++
  PHY93_16220|PHY93_16220  31 SGILISNNL-LLTAAHCVGYFSHAKF---PHTSFEEIIEIEEVLTFCKEEDEHFDIAIVKLSKKVPDTIKPVCILDEGyKIESKTE 112
                              8*******9.********88888888...56677778889999999*****777*******9999999999996664447777779 PP

                Trypsin_2  87 vyvvGyplggeksgsvssGivsgvvesesaasgegesfl......qtdaatspGsSGGpl 140
                              ++v G++  g+  g+ +   ++   e        ++++l      +  +++  G SGGp 
  PHY93_16220|PHY93_16220 113 LVVAGFGVSGDIDGKSTLRLINLPFE------KYDKNWLiadqrnDQKTSI--GDSGGPA 164
                              99999954444444666666666666......4555555566644555555..9999995 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (216 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       300  (0.0167327); expected 358.6 (0.02)
Passed bias filter:                      266  (0.0148363); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1597.94
//
Query:       PHY93_16225|PHY93_16225  [L=180]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0013   18.6   0.1     0.0034   17.2   0.1    1.7  1  DUF1514   Protein of unknown function (DUF1514)
  ------ inclusion threshold ------
      0.023   14.8   0.1        4.4    7.4   0.0    2.5  2  DUF848    Gammaherpesvirus protein of unknown function (DUF84


Domain annotation for each model (and alignments):
>> DUF1514  Protein of unknown function (DUF1514)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.1   3.8e-07    0.0034       7      52 ..       4      52 ..       1      55 [. 0.83

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 3.8e-07
                  DUF1514  7 ivlailLLvlls...iisdkakeieaLeYmndYLldelvktkGveGLed 52
                             iv+++ LL l s   +  +k +ei +L+     L+de+v tk ++ +e+
  PHY93_16225|PHY93_16225  4 IVMSLALLSLFScahVSNEKNREIASLKKNAPTLIDEMVNTKDYNKIEE 52
                             78888888777722245689*********999**************998 PP

>> DUF848  Gammaherpesvirus protein of unknown function (DUF848)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.4   0.0   0.00049       4.4      64     120 ..      22      78 ..      12      82 .. 0.82
   2 ?    5.2   0.0    0.0023        21      24      69 ..      82     127 ..      79     165 .. 0.75

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.00049
                   DUF848  64 avdteieakkkelslLkk..lnrkkvarveeLtdkvlelkeevsleldsleeaqeeyqe 120
                                ++ei   kk+ ++L+   +n k  +++eeL d       e +++l s    +e+y e
  PHY93_16225|PHY93_16225  22 EKNREIASLKKNAPTLIDemVNTKDYNKIEELSDPKC--SSEYHVKLHSYSYDGEDYGE 78 
                              56899999******9997789*************764..56778888888888888875 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.0023
                   DUF848  24 lfDRFGgssalFekQfddarkalrsleqlkrtkeikalveavdtei 69 
                              lf RFGg+ ++  kQ ++ +  +r+  +  ++   + ++ea +++i
  PHY93_16225|PHY93_16225  82 LFPRFGGDISVVLKQVNKGKIDIRQGGSYGNEWTQNRKIEANENSI 127
                              7889***********9999998888777766666666655555444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (180 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       754  (0.0420548); expected 358.6 (0.02)
Passed bias filter:                      487  (0.0271627); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.25s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 1305.70
//
Query:       PHY93_16230|PHY93_16230  [L=372]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    4.7e-07   30.1   5.6    8.7e-06   26.0   2.1    2.5  2  OMP_b-brl    Outer membrane protein beta-barrel domain
    0.00012   21.7   0.2        0.6    9.6   0.0    3.0  3  PorP_SprF    Type IX secretion system membrane protein PorP/S
     0.0048   15.9   0.1        1.3    7.9   0.0    2.2  2  OMP_b-brl_3  Outer membrane protein beta-barrel family


Domain annotation for each model (and alignments):
>> OMP_b-brl  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.0   2.1   1.5e-09   8.7e-06      44     178 .]     103     225 ..      55     225 .. 0.76
   2 !    5.1   0.1    0.0036        22      43     121 ..     258     327 ..     226     369 .. 0.68

  Alignments for each domain:
  == domain 1  score: 26.0 bits;  conditional E-value: 1.5e-09
                OMP_b-brl  44 fgfgvgagyefndnvgvegglsysgdkdysgsgktdikinllsvpvnagyafnlsdsvlpyggaGlgytkvevdvsgngasdsdtd 129
                               +++v++g ++ dn++++  +   g  +++             + + a y++++ +++ + +gaGl+++ +++ ++g   s +d++
  PHY93_16230|PHY93_16230 103 KAYTVRLGKYIKDNLRMDFVYVNEGHPTNNH---------RDGFALEAAYDIPVTKNFALEVGAGLDFSMNTTIIDGE--SRDDKR 177
                              4566666666666666666666655555555.........23699***********************9888889999..****** PP

                OMP_b-brl 130 fglglgaGveyala...dnwslkaeYrytdlksdadndlknntfqvgvgyrF 178
                               gl + + + y+l    +++ l+aeY+++ +     + ++++++ +gvg  F
  PHY93_16230|PHY93_16230 178 LGLVGTVAAIYYLDrisPGLHLRAEYNHVEM----PGAMSTDSVMIGVGKVF 225
                              ***********9995556*************....799**********9766 PP

  == domain 2  score: 5.1 bits;  conditional E-value: 0.0036
                OMP_b-brl  43 gfgfgvgagyefndnvgvegglsysgdkdysgsgktdikinllsvpvnagyafnlsdsvlpyggaGlgytkvevdvsgn 121
                                g++++a  e++ + ++++++++ g++              + v  +++y  ++ ++  + +gaG+ ++++++d+ + 
  PHY93_16230|PHY93_16230 258 PHGYQIEAKEEISTHAALSLSYLHEGKDALVD---------RQGVATQLWYVQPITNKTTISVGAGPYFADNKLDNTNG 327
                              46777777777777777777777777654333.........45788899999999888899999999999999987654 PP

>> PorP_SprF  Type IX secretion system membrane protein PorP/SprF
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.6   0.0    0.0004       2.4      50     110 ..     105     165 ..      96     179 .. 0.71
   2 ?    1.1   0.0     0.039   2.3e+02     214     271 ..     185     243 ..     180     244 .. 0.88
   3 !    9.6   0.0    0.0001       0.6      43     118 ..     254     329 ..     236     358 .. 0.81

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.0004
                PorP_SprF  50 qtlsadtrlgkkssglGlslfndkiGp...lsetgvnanyayhiklseksklsfGlqagfvqrn 110
                              +t+ + ++++++     + +++ ++G     ++ g+ +  ay i+++++  l +G+ + f +++
  PHY93_16230|PHY93_16230 105 YTVRLGKYIKDNL---RMDFVYVNEGHptnNHRDGFALEAAYDIPVTKNFALEVGAGLDFSMNT 165
                              4444444444444...5555555666553567789******************99998888775 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.039
                PorP_SprF 214 akvlyndklwaGasYRnneavsalvGfnlkkslrlgysydyttsd.lskknggsHeisl 271
                              a ++y d++  G+  R +++ + + G + ++s+++g+   ++ s+  +k  +g  eisl
  PHY93_16230|PHY93_16230 185 AAIYYLDRISPGLHLRAEYNHVEMPGAMSTDSVMIGVGKVFGSSKdSAKTDDGKTEISL 243
                              4578888******************************9999999977778888888886 PP

  == domain 3  score: 9.6 bits;  conditional E-value: 0.0001
                PorP_SprF  43 iegapktqtlsadtrlgkkssglGlslfndkiGp.lsetgvnanyayhiklseksklsfGlqagfvqrnldknklgs 118
                              i+gap  +++ a+  ++ +  +l ls +++ + + + ++gv ++  y  ++++k+++s+G+   f  ++ld ++  +
  PHY93_16230|PHY93_16230 254 IHGAPHGYQIEAKEEISTHA-ALSLSYLHEGKDAlVDRQGVATQLWYVQPITNKTTISVGAGPYFADNKLDNTNGIV 329
                              789****************9.99999998877777***********************************7665544 PP

>> OMP_b-brl_3  Outer membrane protein beta-barrel family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.9   0.0   0.00022       1.3      47      91 ..     127     171 ..     101     183 .. 0.81
   2 !    6.0   0.0   0.00083       4.9      53      90 ..     289     326 ..     269     352 .. 0.81

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.00022
              OMP_b-brl_3  47 rndndqknneytfqlDYtnplskkgkleaGykysfrntdsdfkye 91 
                                 ++++++ + + + Y  p++k++ le+G+   f+ +++  + e
  PHY93_16230|PHY93_16230 127 GHPTNNHRDGFALEAAYDIPVTKNFALEVGAGLDFSMNTTIIDGE 171
                              4456677888***********************999998866655 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.00083
              OMP_b-brl_3  53 knneytfqlDYtnplskkgkleaGykysfrntdsdfky 90 
                              +++ + +ql Y++p+++k+++++G+   f +++ d++ 
  PHY93_16230|PHY93_16230 289 DRQGVATQLWYVQPITNKTTISVGAGPYFADNKLDNTN 326
                              5677899******************9999999877765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (372 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       378  (0.0210832); expected 358.6 (0.02)
Passed bias filter:                      319  (0.0177924); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.53u 0.26s 00:00:00.79 Elapsed: 00:00:00.42
# Mc/sec: 2645.16
//
Query:       PHY93_16235|PHY93_16235  [L=118]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    3.9e-07   30.2   0.0    7.5e-07   29.3   0.0    1.5  1  ORF6N       ORF6N domain
  ------ inclusion threshold ------
       0.02   15.4   0.0      0.036   14.6   0.0    1.4  1  Phage_pRha  Phage regulatory protein Rha (Phage_pRha)


Domain annotation for each model (and alignments):
>> ORF6N  ORF6N domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.3   0.0   8.4e-11   7.5e-07      50      84 .]       5      44 ..       1      44 [. 0.77

  Alignments for each domain:
  == domain 1  score: 29.3 bits;  conditional E-value: 8.4e-11
                    ORF6N 50 eele....rsqiatl.krgskskylpylfTEqGvlmlakv 84
                             +e+e    r+q+ t+ + ++++ ylpy+fTE+Gv+ml++v
  PHY93_16235|PHY93_16235  5 TEIEekslRCQFGTSkEGKGGRGYLPYAFTENGVAMLSSV 44
                             344444678*****954456799**************986 PP

>> Phage_pRha  Phage regulatory protein Rha (Phage_pRha)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.0     4e-06     0.036      39      87 ..      16      65 ..       2      66 .. 0.79

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 4e-06
               Phage_pRha 39 eseykdsng.retkvylltrdgftllvmgftgkkavefkaayidrFnele 87
                               ++k+ +g r +  y +t++g+ +l   ++g++ave+ + + + F +l+
  PHY93_16235|PHY93_16235 16 FGTSKEGKGgRGYLPYAFTENGVAMLSSVLNGDRAVEINISIMRIFTRLR 65
                             445555565599999**************************999999886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (118 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       454  (0.0253221); expected 358.6 (0.02)
Passed bias filter:                      391  (0.0218082); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.41
# Mc/sec: 866.22
//
Query:       PHY93_16240|PHY93_16240  [L=58]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (58 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       501  (0.0279436); expected 358.6 (0.02)
Passed bias filter:                      320  (0.0178482); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.23s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 429.88
//
Query:       PHY93_16245|PHY93_16245  [L=135]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (135 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       270  (0.0150594); expected 358.6 (0.02)
Passed bias filter:                      228  (0.0127168); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.20s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 1048.04
//
Query:       PHY93_16250|PHY93_16250  [L=279]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.7e-16   60.2   0.0    3.6e-15   55.9   0.0    2.1  1  LysR_substrate  LysR substrate binding domain
      3e-12   46.3   0.0    4.7e-12   45.7   0.0    1.4  1  HTH_1           Bacterial regulatory helix-turn-helix protein
      0.002   18.0   0.0     0.0041   16.9   0.0    1.5  1  HTH_5           Bacterial regulatory protein, arsR family
  ------ inclusion threshold ------
      0.015   14.9   0.1      0.033   13.7   0.1    1.5  1  HTH_24          Winged helix-turn-helix DNA-binding
       0.05   13.8   0.0      0.094   12.9   0.0    1.4  1  Fe_dep_repress  Iron dependent repressor, N-terminal DNA bind
       0.08   13.4   0.2       0.48   10.9   0.0    2.3  3  HTH_26          Cro/C1-type HTH DNA-binding domain
      0.081   12.8   0.0       0.14   12.1   0.0    1.3  1  MarR_2          MarR family


Domain annotation for each model (and alignments):
>> LysR_substrate  LysR substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.9   0.0   1.4e-18   3.6e-15       6     195 ..      93     263 ..      91     278 .. 0.82

  Alignments for each domain:
  == domain 1  score: 55.9 bits;  conditional E-value: 1.4e-18
                              EEEEEEEECCCHHHHHHHHHHHHHHHSTTEEEEEEEESHHHHHHHHHTTSSSEEEEESSSCCTTEEEEEEEEEEEEEEEETTSGGG CS
           LysR_substrate   6 grLrigapptlaryllppllarfraryPevelelvegdseelldllaegelDlairagppedsglearpLaeeplvlvaspdhpLa 91 
                              ++++ig+ +t+a+y +p++l+ ++++ P+ ++el+ + s ++   +++g +D++i+ +p+e ++l++++La +++ + a+++    
  PHY93_16250|PHY93_16250  93 RTITIGCHSTVAQYSIPKALSYLKKKAPDYKIELRHDLSRNIQTEIQRGNIDIGIIINPIEVPDLIIQKLAIDEVGVWAARSI--K 176
                              699*******************************************************************************4..4 PP

                              GSSSECGGGGCTSEEEEESTTSTHHHHHHHHHHCTTEECEEEEEESSHHHHHHHHHTTS-BEEEEGGGHHCCCHTTTEEEEEESST CS
           LysR_substrate  92 rgepvsledLadeplilleegsglrdlledalreaglkprvalevnsleallalvaaGlGiallprsavrdeladgrlvalplpep 177
                              + + +          i   + + ++  l ++    + kp   ++++sle ++ lv   +G ++lp+ av  +l    l    l+ +
  PHY93_16250|PHY93_16250 177 EFDTI----------ICNLNLFQTQSILKKW----KNKPPKIISTDSLELICKLVDEKIGYGILPERAV--WLSG--LNLKNLKSL 244
                              43333..........3333334455555555....7888899**************************8..5555..444566665 PP

                              .TCEEEEEEEEETTCCCHH CS
           LysR_substrate 178 .plprelylvyrkgrelsp 195
                                ++ e++lvyr++   sp
  PHY93_16250|PHY93_16250 245 pSFKDEICLVYRPEFGKSP 263
                              2555999999999876666 PP

>> HTH_1  Bacterial regulatory helix-turn-helix protein, lysR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.7   0.0   1.9e-15   4.7e-12       3      59 ..       7      63 ..       5      64 .. 0.92

  Alignments for each domain:
  == domain 1  score: 45.7 bits;  conditional E-value: 1.9e-15
                             HHHHHHHHHHHSSHHHHHHHHTS-HHHHHHHHHHHHHHHTS-SEEESSSEEEE-HHH CS
                    HTH_1  3 qlrlfvavaeegsftrAAeeLglsqpavsrqikrLEeelgvpLfeRtgrglrLTeaG 59
                             ++  fv+ + + ++ +AA++L +sqpa+s ++krLE+ lg   f R+  g++LT+ G
  PHY93_16250|PHY93_16250  7 DITNFVEACTCSTIVEAARKLEISQPALSESLKRLEKDLGYVVFYRSRLGIQLTASG 63
                             5667999999************************************666******99 PP

>> HTH_5  Bacterial regulatory protein, arsR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0   1.6e-06    0.0041      21      41 ..      23      43 ..      15      48 .. 0.86

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 1.6e-06
                             HHHHHTS-HHHHHHHHHHHHH CS
                    HTH_5 21 laeelglsqstvShHLkkLre 41
                              a++l++sq+++S+ Lk+L++
  PHY93_16250|PHY93_16250 23 AARKLEISQPALSESLKRLEK 43
                             5899***************87 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.1   1.3e-05     0.033      19      44 ..      19      44 ..      12      44 .. 0.94

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1.3e-05
                   HTH_24 19 sqreLAerlglSpstvnrrlkrLeee 44
                             ++ e A++l +S++++++ lkrLe++
  PHY93_16250|PHY93_16250 19 TIVEAARKLEISQPALSESLKRLEKD 44
                             78899*******************97 PP

>> Fe_dep_repress  Iron dependent repressor, N-terminal DNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   3.7e-05     0.094      29      54 ..      24      50 ..      18      56 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 3.7e-05
                             HHHHTS-HHHHHHHHHHHHHT.TSEEE CS
           Fe_dep_repress 29 aerLnvspssVsemlkkLekd.Gyvey 54
                             a+ L++s +  se+lk+Lekd Gyv+ 
  PHY93_16250|PHY93_16250 24 ARKLEISQPALSESLKRLEKDlGYVVF 50
                             899****************98899975 PP

>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0       1.9   4.8e+03      17      29 ..      24      36 ..      19      42 .. 0.79
   2 ?   -2.4   0.0       2.7     7e+03       8      27 ..     121     143 ..     115     144 .. 0.66
   3 ?   10.9   0.0   0.00019      0.48      24      55 ..     191     222 ..     188     226 .. 0.85

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 1.9
                   HTH_26 17 argtgisaatlsr 29
                             ar+++is++ ls 
  PHY93_16250|PHY93_16250 24 ARKLEISQPALSE 36
                             7899999998886 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 2.7
                   HTH_26   8 drgi.tkseLar..gtgisaatl 27 
                              d +i  + +L+r  +t+i+++++
  PHY93_16250|PHY93_16250 121 DYKIeLRHDLSRniQTEIQRGNI 143
                              55555567888877778888876 PP

  == domain 3  score: 10.9 bits;  conditional E-value: 0.00019
                   HTH_26  24 aatlsrlvkgkpervsldtLdkiCdaLgctpg 55 
                              ++ l++++++ p+ +s+d L+ iC+  + ++g
  PHY93_16250|PHY93_16250 191 QSILKKWKNKPPKIISTDSLELICKLVDEKIG 222
                              566889999999*************9876665 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   5.5e-05      0.14      23      47 ..      19      43 ..      11      54 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 5.5e-05
                             EHHHHHHHHTSSHHHHHHHHHHHHH CS
                   MarR_2 23 tvgelarrlglsksavsrilkrLva 47
                             t+ e ar+l +s++a+s  lkrL++
  PHY93_16250|PHY93_16250 19 TIVEAARKLEISQPALSESLKRLEK 43
                             78899******************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (279 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       452  (0.0252106); expected 358.6 (0.02)
Passed bias filter:                      392  (0.021864); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.42
# Mc/sec: 2016.86
//
Query:       PHY93_16255|PHY93_16255  [L=130]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (130 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       547  (0.0305092); expected 358.6 (0.02)
Passed bias filter:                      425  (0.0237046); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.24s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 981.72
//
Query:       PHY93_17405|PHY93_17405  [L=370]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    8.2e-17   61.2   0.0    9.8e-16   57.7   0.0    1.9  1  Aminotran_5  Aminotransferase class-V


Domain annotation for each model (and alignments):
>> Aminotran_5  Aminotransferase class-V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   57.7   0.0   5.5e-20   9.8e-16       6     333 ..      20     329 ..      18     360 .. 0.84

  Alignments for each domain:
  == domain 1  score: 57.7 bits;  conditional E-value: 5.5e-20
                              TTS----HHHHHHHHHHHHCTCCSSSSSSSHHHHHHHHHHHHHHHHHHHHHT-STGGGEEEESSHHH.HHHHHHHHCCCC-TTTSE CS
              Aminotran_5   6 aAttqkpqeVldalqeyytdynanvhrsvhhlgkeatkaveearekvaelinaeseeeiiftsGtte.ainlvalslarslkpgde 90 
                               +++ +p+++l al +  t+y +       h++  +++ v+e+++ + + +n++s++ ++   G+++  + ++al++   ++++  
  PHY93_17405|PHY93_17405  20 CGPSLVPADILLALHKTGTHYMGTS-----HRKPGIKNVVKEIQDGLMKYFNVPSDYLVVLGNGGATlLFDMIALGI---VEKKA- 96 
                              58999**********9988777766.....666778999*********************99999888999*****9...44443. PP

                              EEEETTSHGGGTHHHHHHHHHHTEEEEEEEBETTSCBEGGGHHHH--TTEEEEEEESBETTTTE.B--HHHHHHHHHHTT-EEEEE CS
              Aminotran_5  91 ivvteaehhanlvpwqelakrtgakvkvipldeegeldldelekllnektklvaithvsnvtGt.iqpveeigklakkkgalvlvD 175
                                  + +  ++   w + +k     v +i+  +      + ++    ++ +l+a+t ++++tG+ +  ++ +      ++ +++vD
  PHY93_17405|PHY93_17405  97 -THFTCGEFSEK--WYKSSKL----VPWIETSQVAVPFGKGINGVAVPDSDLIAVTLNETSTGVqLSHLPVVD-----ANTILAVD 170
                              .34456777777..7777755....7777776666666677777778*****************777777766.....89****** PP

                              -TTTTTTS---HHHHTESEEEEETTT.TTSSTT-EEEEEEHHHHHTS..SS.STT.SEEEEET..TEEEEHCTTGGGS.SS--HHH CS
              Aminotran_5 176 aaqavghipidvkklgvDflafsghK.llgPtGiGvlyvrkellekleplllgge.mveevsl..eettfaeapskfeaGTpnvag 257
                              a+++ g+ p dv+k+++  ++fs +K +    G+ v ++++++l +++++   ++ +v ++    + ++ +e  + ++  Tp  a 
  PHY93_17405|PHY93_17405 171 ATSGGGQCPCDVSKTDI--YFFSPQKvFASDGGLWVAIMSPKALARAKKIAADKSrYVPDIMNwdNAISNSELHQTYN--TPALAT 252
                              ***************99..*******4455568**************9988765415555544466677888999999..****** PP

                              HHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCTSTTEEEES.-B-CTCBSEEEEEE.TTCSHHHHHHHHHHTTE CS
              Aminotran_5 258 iiglgaaleyleeigleaiekhekelaeyllerlkslpgvrlygpdkaerrasivsfnf.kgvhaedvatlLdeegI 333
                              +  +++ +++++ +g+++++++++++a+ l+   +s p +  +  +k+ r+ ++ ++ + ++v+ +d+ ++L+++ +
  PHY93_17405|PHY93_17405 253 LFMMNEQIKLMNLLGYSRVMEEAQKKADLLYGWAESRPYLSPFIEEKEFRSVAVATIDVdPKVNVDDIIKFLEKKRV 329
                              ****************************************99998999***********889***********9855 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (370 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       425  (0.0237046); expected 358.6 (0.02)
Passed bias filter:                      405  (0.0225891); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.59u 0.23s 00:00:00.82 Elapsed: 00:00:00.45
# Mc/sec: 2496.42
//
Query:       PHY93_16260|PHY93_16260  [L=119]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.09   12.9   0.3       0.13   12.4   0.3    1.2  1  BCNT      Bucentaur or craniofacial development


Domain annotation for each model (and alignments):
>> BCNT  Bucentaur or craniofacial development
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.3   7.2e-06      0.13      15      47 ..      34      66 ..      24      78 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 7.2e-06
                     BCNT 15 kkKlstleKSklDWeaykdkegikeeLeahnkg 47
                             k++ls l+K k  W +  +++ ik+ L++++k+
  PHY93_16260|PHY93_16260 34 KEQLSALNKAKPEWYSNDEQAIIKKTLDQYKKS 66
                             789*****************************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (119 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       785  (0.0437838); expected 358.6 (0.02)
Passed bias filter:                      519  (0.0289475); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.38
# Mc/sec: 929.12
//
Query:       PHY93_16265|PHY93_16265  [L=63]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (63 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       285  (0.015896); expected 358.6 (0.02)
Passed bias filter:                      264  (0.0147247); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.22s 00:00:00.60 Elapsed: 00:00:00.37
# Mc/sec: 505.13
//
Query:       PHY93_16275|PHY93_16275  [L=319]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.8e-24   84.9   0.0    7.6e-24   84.5   0.0    1.1  1  Epimerase        NAD dependent epimerase/dehydratase family
    2.2e-11   43.7   0.0    3.1e-11   43.3   0.0    1.3  1  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
    3.4e-08   32.9   0.0    4.4e-08   32.5   0.0    1.2  1  3Beta_HSD        3-beta hydroxysteroid dehydrogenase/isomeras
    3.9e-07   29.5   0.1    5.8e-07   28.9   0.1    1.3  1  Polysacc_synt_2  Polysaccharide biosynthesis protein
    9.3e-05   21.7   0.0    0.00072   18.8   0.0    2.1  1  NAD_binding_4    Male sterility protein
  ------ inclusion threshold ------
      0.054   13.5   0.0       0.16   11.9   0.0    1.6  1  PAC2             PAC2 family


Domain annotation for each model (and alignments):
>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   84.5   0.0   2.5e-27   7.6e-24       1     241 []      12     240 ..      12     240 .. 0.85

  Alignments for each domain:
  == domain 1  score: 84.5 bits;  conditional E-value: 2.5e-27
                              EEEETTTSHHHHHHHHHHHHCT..SEEEEEES-STTTTCHHCHHCEEEE--TT-HHHHHHHHHHHT-SEEEE--S---HHHHHHSH CS
                Epimerase   1 ilVtGatGfiGsalvkallekg..yevigldrlssasntarledlelveldltdrsalerlfkeeqpdavihlAavggvaassedp 84 
                              +l++G++G + + +++ l +k+  ++++g+d+++ +s  + + +l+  +l++t r+++e++f+e+q+d+++hl+  g+ ++ + + 
  PHY93_16275|PHY93_16275  12 VLIIGIQGALAKITAELLIKKNhhIKIHGVDSREIDSVPN-RTQLTCQQLKYT-RTNFEKMFREHQFDTIFHLGRLGHSPV-MGNI 94 
                              79********************6555*******5555544.455699999999.578****************99999999.6666 PP

                              HHHHHHHTHHHHHHHHHHHHHTCTEEEEEEEGGGGTSCSSSS..BSTCSTTS----SSHHHHHH..HHHHHHHHHH..HHHHT-EE CS
                Epimerase  85 adfieknlqgtlnlleaarkagvkrllflsSsevYGkdaeqp..keettltgplkpnspYaaaK..lageklveay..aaqyglna 164
                              ++ i++nl+gt ++le a+k ++k+++ ls+++vYG+ ++     +e++   pl+ +  Ya     + ++++++++  ++q+++++
  PHY93_16275|PHY93_16275  95 NKRIDINLVGTNTILELAQKFQCKKVVILSTHHVYGALPDNSmfLKEDA---PLRGSFKYAELRdvVEMDQMCTNWmwKNQNQIET 177
                              777*********************************9999423477777...999999999765337889***9972256779*** PP

                              EEEEESEEESTTS-TTSTTSHHHHHHHHHHTTSSSEEEETTST-EEEEEEHHHHHHHHHHHHHHHTT-STTEEEEES CS
                Epimerase 165 iilrlfnlyGprngegevsrvipalirkilegkqevtllgdgtalRdflyveDvaeaillvlehvdagdkgeiyniG 241
                              ++lr++n++Gp          i   i+++l+      l  d ++  +f++  D+a++i+  +e+     k +iyn++
  PHY93_16275|PHY93_16275 178 VVLRPCNIIGPQ---------IKNSITQFLKTP-YAPLPLDYNPMFQFVHEFDMANIIVESAEK----LKTGIYNVA 240
                              ************.........888888888877.55555699******************9999....455699986 PP

>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.3   0.0     1e-14   3.1e-11       1     187 [.      13     189 ..      13     268 .. 0.73

  Alignments for each domain:
  == domain 1  score: 43.3 bits;  conditional E-value: 1e-14
                              EEETTTSHHHHHHHHHHHHCT-CCEEEEEEESS-TTHHHHHCTTT...TTGCCEEEEE--TT-HHHHHHHHHHHT-SEEEE--S-- CS
            GDP_Man_Dehyd   1 LiTGiaGfiGsylaelLlekgyevhgivrrsssfntgriehlakdpkeeleenlklhkgDltDssslerllaevqpdevynLAAqs 86 
                              Li Gi+G     +aelL++k++++  i   +s    ++i+++ +      +++l+  +   t +++ e++++e+q+d++++L+   
  PHY93_16275|PHY93_16275  13 LIIGIQGALAKITAELLIKKNHHIK-IHGVDS----REIDSVPN------RTQLTCQQLKYT-RTNFEKMFREHQFDTIFHLGRLG 86 
                              899****************987653.333333....34555542......223444444444.6899****************887 PP

                              -HHHHTTSHHHHHHHHTHHHHHHHHHHHHCT..TTSEEEEEEEGGGG-S-SSSS..B-TTS-----SHHHHHHHH..HHHHHHHH. CS
            GDP_Man_Dehyd  87 hVdvsfekPeytaevnvlGtlrLLeairalglekkvrfyqaStsEvYGkvqevp..qtEttpfyPrsPYaaaKly..adwivvny. 167
                              h +v  +   + +++n++Gt ++Le++++ +++   ++++ St  vYG + +     +E+ p++    Ya  + +   d++++n+ 
  PHY93_16275|PHY93_16275  87 HSPVMGNI-NKRIDINLVGTNTILELAQKFQCK---KVVILSTHHVYGALPDNSmfLKEDAPLRGSFKYAELRDVveMDQMCTNWm 168
                              76664443.679*****************9875...8999**********7543226*********99998775511456666642 PP

                              .HHHH---EEEEEE-EEESTT CS
            GDP_Man_Dehyd 168 .reayglfavngilfnhespr 187
                               +++ ++ +v+ +  n  +p 
  PHY93_16275|PHY93_16275 169 wKNQNQIETVVLRPCNIIGPQ 189
                              145566777777777777776 PP

>> 3Beta_HSD  3-beta hydroxysteroid dehydrogenase/isomerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.5   0.0   1.5e-11   4.4e-08       1     194 [.      13     195 ..      13     238 .. 0.78

  Alignments for each domain:
  == domain 1  score: 32.5 bits;  conditional E-value: 1.5e-11
                3Beta_HSD   1 vvtGgaGFlGralvkeLvrleelkevrvlDlrespellee.lskvnvkkviegDvtdkdkleealegvdvvihlaslvdvagklte 85 
                              +++G +G l +   + L++ ++  +++ +D re +++ ++ + +++  k+     t+ +k+ +  ++ d ++hl  l  +  + + 
  PHY93_16275|PHY93_16275  13 LIIGIQGALAKITAELLIKKNHHIKIHGVDSREIDSVPNRtQLTCQQLKYTR---TNFEKMFRE-HQFDTIFHLGRLGHSPVMGNI 94 
                              57888999988888999999999*******9998888544034555554544...555566554.468999999766555555566 PP

                3Beta_HSD  86 deimkvnvkGTrnvleacvkagvrvlvYtSsaevvgpnslgeeilngdEeleyeslhqdaypesKalaEklvlkaNgrtlknggrl 171
                              ++  ++n+ GT+++le + k + +++v  S+  v g    +  +l  +E+ ++  +++  y+e + + E   + +N  + kn +++
  PHY93_16275|PHY93_16275  95 NKRIDINLVGTNTILELAQKFQCKKVVILSTHHVYGALPDNSMFL--KEDAPLRGSFK--YAELRDVVEMDQMCTNW-MWKNQNQI 175
                              66699*******************************955555555..89988888886..99999999988888775.******** PP

                3Beta_HSD 172 yTcaLRpagiyGegdkllvpllk 194
                               T+ LRp  i G++ k     + 
  PHY93_16275|PHY93_16275 176 ETVVLRPCNIIGPQIKNS---IT 195
                              ************975443...33 PP

>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.9   0.1   1.9e-10   5.8e-07      65     129 ..      63     126 ..      12     137 .. 0.78

  Alignments for each domain:
  == domain 1  score: 28.9 bits;  conditional E-value: 1.9e-10
                              -HHHHHHHTT..T-SEEEE------HHHHHHSHHHHHHHHHHHHHHHHHHHHHTT-SEEEEEEEG CS
          Polysacc_synt_2  65 dkerlekaleelkvdvvfhaAAlKhVPlveenpleaiktNvlgtenvieaaieagvkkvvliStD 129
                               +++ ek+++e++ d++fh   l h P++  n+ + i+ N +gt++++e a++ + kkvv++St 
  PHY93_16275|PHY93_16275  63 TRTNFEKMFREHQFDTIFHLGRLGHSPVMG-NINKRIDINLVGTNTILELAQKFQCKKVVILSTH 126
                              367889*********************996.88999****************************6 PP

>> NAD_binding_4  Male sterility protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.0   2.4e-07   0.00072      86     146 ..      74     135 ..      49     234 .. 0.78

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 2.4e-07
                              HH--EEEE--..SS-S.STTSSEEHHHHHHHHHHHHHHHTSSS--.-EEEEEEGGGTTS-TTT CS
            NAD_binding_4  86 eevdviihsa..AtvnfdepykellrvNveGtrevlelakklkklkvllhvSTayvngerege 146
                              ++ d i+h +  +   +++++++ +++N+ Gt  +lela+k + +  ++  ST  v+g+  ++
  PHY93_16275|PHY93_16275  74 HQFDTIFHLGrlGHSPVMGNINKRIDINLVGTNTILELAQKFQCK-KVVILSTHHVYGALPDN 135
                              57899999984455668899**********************999.9999***8887776644 PP

>> PAC2  PAC2 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   5.5e-05      0.16       9     108 ..      19     128 ..      15     163 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 5.5e-05
                              GGHHHHHHHHHHHHTTEEEEEEEEHCCHSBCCCC.SEEEEETT.EEE-SEEEEEE.TTT.SEEEEEEE...E-HSCHHH....... CS
                     PAC2   9 GnVgqlavdlLiesleaekvgeidsdyllpfvgprpvvlveeg.relepprlyak.dsgsrdllvlqg...repilqye....... 82 
                              G  ++++++lLi +  + k+  +ds++ ++ v +r++ + ++    +++++   + +  + d ++  g   ++p++ +        
  PHY93_16275|PHY93_16275  19 GALAKITAELLIKKNHHIKIHGVDSRE-IDSVPNRTQLTCQQLkYTRTNFEKMFReH--QFDTIFHLGrlgHSPVMGNInkridin 101
                              66789*********9************.**888887755555544344444433323..455666666777555544335556663 PP

                              .HHHHHHHHHHHHTTESEEEEEEEEEE CS
                     PAC2  83 .efakalldwaeelgvkevvvLgglda 108
                                 ++++l++a+++++k+vv+L+  + 
  PHY93_16275|PHY93_16275 102 lVGTNTILELAQKFQCKKVVILSTHHV 128
                              344567****************97665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (319 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       646  (0.036031); expected 358.6 (0.02)
Passed bias filter:                      475  (0.0264934); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.43
# Mc/sec: 2206.08
//
Query:       PHY93_16280|PHY93_16280  [L=265]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.5e-15   55.0   0.0    8.5e-15   54.6   0.0    1.2  1  Acyltransferase  Acyltransferase
    3.7e-08   32.6   0.1    1.1e-06   27.8   0.1    2.0  1  DAGAT            Diacylglycerol acyltransferase


Domain annotation for each model (and alignments):
>> Acyltransferase  Acyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.6   0.0   9.5e-19   8.5e-15       2     134 ..      47     175 ..      46     176 .. 0.92

  Alignments for each domain:
  == domain 1  score: 54.6 bits;  conditional E-value: 9.5e-19
          Acyltransferase   2 vrvtglenlpekgpailvaNHqsy..lDvlllwlllyksn.gprnvviiakkellsipllgflmrllgfifidRksnaraagslen 84 
                              v+v+g+e++++ +p+ +v+NH+    +D++l+  ++ ++   pr ++ +  + l s+p+lg  ++ +g++  dR          en
  PHY93_16280|PHY93_16280  47 VHVHGKEYVKN-KPYMVVSNHTGQipIDAMLICTAFATEIeSPRILRPLIERFLTSLPFLGRWSSEGGAVLGDR----------EN 121
                              89********6.*********98888********99999988899999**************************..........** PP

          Acyltransferase  85 iselleegklvviFPEG.....trsre.gellpfkkGlvrlaakakkgvpivPvai 134
                              +++ll++g+ v+iFPEG     +++++ ++l +f +G+ r+a+       i+P+a+
  PHY93_16280|PHY93_16280 122 CLNLLKRGESVLIFPEGvpgiaKNTKDhYKLQRFTRGFLRMALAS--EAEILPIAV 175
                              *****************99888555444777**************..******997 PP

>> DAGAT  Diacylglycerol acyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.8   0.1   1.2e-10   1.1e-06      39     197 ..      35     185 ..      26     261 .. 0.79

  Alignments for each domain:
  == domain 1  score: 27.8 bits;  conditional E-value: 1.2e-10
                    DAGAT  39 lavlkyfaeYfPvkLvktaeletdrnYliGyhPhgilsvgafvalatdatgvkekfpgirfnlatLagqfrtpfrreillllGlie 124
                              ++++ ++  Yf v+++  +e  +++ Y++ ++  g +++ a+   +  at++++  + +r+ +    +   +pf+  +    G + 
  PHY93_16280|PHY93_16280  35 KVIWPFYKYYFNVHVHG-KEYVKNKPYMVVSNHTGQIPIDAMLICTAFATEIESP-RILRPLIERFLT--SLPFLGRWSSEGGAVL 116
                              689**********9875.688899*****************76666668888876.444555544433..4699************ PP

                    DAGAT 125 vsresieyvLdkeekGravvlvvGGaeealeahpgketltLkkrkGfvkialktGadLvPvysfGendvykqv 197
                                re+   +L+++e+   v++ + G+    +  +++ +l     +Gf ++al   a++ P+   G ++ + +v
  PHY93_16280|PHY93_16280 117 GDRENCLNLLKRGES---VLIFPEGVPGIAKNTKDHYKLQR-FTRGFLRMALASEAEILPIAVVGAEEFFPYV 185
                              ****99888877666...99*9***9987776666665554.468********************99998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (265 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       411  (0.0229238); expected 358.6 (0.02)
Passed bias filter:                      393  (0.0219198); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.22s 00:00:00.75 Elapsed: 00:00:00.43
# Mc/sec: 1856.30
//
Query:       PHY93_16285|PHY93_16285  [L=122]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0051   17.1   0.1      0.011   15.9   0.1    1.7  1  KxDL      Uncharacterized conserved protein


Domain annotation for each model (and alignments):
>> KxDL  Uncharacterized conserved protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.1   6.4e-07     0.011      21      81 ..      38     100 ..      20     104 .. 0.72

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 6.4e-07
                     KxDL  21 tsgrlnkknreLlelnalsqer..laklrarfkqgtkllkevkkdLesifkkirslkaklakk 81 
                              t ++l+++ +eL +l ++  e   +   +a+++   +++k  kkdLe+i k++ ++k  +  k
  PHY93_16285|PHY93_16285  38 TNAHLKETYEELGRLLEKGVESgeVDWDSAKVRALLHTAKACKKDLEHIEKQVYKIKFSAGPK 100
                              556666666666666666554311344567788889********************9776655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (122 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       724  (0.0403815); expected 358.6 (0.02)
Passed bias filter:                      528  (0.0294495); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.43
# Mc/sec: 856.72
//
Query:       PHY93_16290|PHY93_16290  [L=228]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.9e-20   73.0   0.0    2.8e-20   72.5   0.0    1.2  1  MMR_HSR1      50S ribosome-binding GTPase
    2.6e-10   40.0   0.0    3.4e-10   39.7   0.0    1.2  1  FeoB_N        Ferrous iron transport protein B
    3.9e-07   30.1   0.1     0.0014   18.6   0.0    2.2  2  RsgA_GTPase   RsgA GTPase
    3.2e-05   23.4   0.0    4.3e-05   22.9   0.0    1.2  1  Septin        Septin
    0.00013   22.0   0.6     0.0064   16.6   0.3    2.1  2  Dynamin_N     Dynamin family
    0.00044   19.6   0.1    0.00076   18.9   0.1    1.4  1  AIG1          AIG1 family
     0.0073   16.5   0.1      0.096   12.9   0.0    2.2  2  Roc           Ras of Complex, Roc, domain of DAPkinase
     0.0077   15.8   0.1      0.084   12.4   0.1    2.4  1  GTP_EFTU      Elongation factor Tu GTP binding domain
  ------ inclusion threshold ------
      0.029   13.7   0.1      0.051   12.9   0.1    1.3  1  Gtr1_RagA     Gtr1/RagA G protein conserved region
      0.029   13.3   0.4      0.066   12.2   0.1    1.6  2  MeaB          Methylmalonyl Co-A mutase-associated GTPase Mea
      0.035   13.7   0.0      0.057   13.0   0.0    1.4  1  cobW          CobW/HypB/UreG, nucleotide-binding domain
      0.069   12.5   0.1       0.17   11.2   0.0    1.8  2  TniB          Bacterial TniB protein
       0.15   12.1   0.1       0.64   10.1   0.1    2.0  2  MMR_HSR1_Xtn  C-terminal region of MMR_HSR1 domain


Domain annotation for each model (and alignments):
>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.5   0.0     2e-23   2.8e-20       2     114 .]      35     161 ..      34     161 .. 0.80

  Alignments for each domain:
  == domain 1  score: 72.5 bits;  conditional E-value: 2e-23
                              EEEEESTTSSHHHHHHHHHTS.TEEESSSTTSSSSEEEEEEE......ETT.EEEEEEECGGCS...S...HHHHHH.HHHHHHHH CS
                 MMR_HSR1   2 vaivGrpNvGKStLinaltge.kaivsdkpgtTrdinegrvk......lkg.keielvDtpGli...e...gaseek.glgkafla 72 
                              +  vGr+NvGKS++in+l+g+ +a+vs++pg Tr+in ++++      +++ ++++l+D+pG +   e   + ++++ +l  +f a
  PHY93_16290|PHY93_16290  35 ISMVGRSNVGKSSIINSLFGSkTARVSKTPGRTREINIFEFElslngkKSElPPFYLIDLPG-YgfaEvskDMQKNWdELMGSFFA 119
                              678*****************9789****************99776554233477********.74441444777788999999999 PP

                              HHCT.SEEEEEEETTTTCSHHHHHHHHHHHHHTTSEEEEEEES CS
                 MMR_HSR1  73 leea.dlillvvdaseeklkpldeeleelleeakkplilvlnk 114
                              + +   +++ + da+ +  ++ d++++++l++ +++ il++nk
  PHY93_16290|PHY93_16290 120 HLSEgMMLVNIQDAR-HPNQDADKQFHKFLKNFTRNAILLFNK 161
                              888515566666766.666788999****99999999999998 PP

>> FeoB_N  Ferrous iron transport protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.7   0.0   2.4e-13   3.4e-10       3     136 ..      35     183 ..      33     209 .. 0.73

  Alignments for each domain:
  == domain 1  score: 39.7 bits;  conditional E-value: 2.4e-13
                              EEEEESTTSSHHHHHHHHHTTS.EEEEESTTSSSEEEEEEEEE......TT.EEEEEEE----SSSSSSSHHHHHHHHHHH..... CS
                   FeoB_N   3 valvGnpnvGkttlfnaltgak.qkvgNwpGvtvekkegklkl......kg.keveivDlPGiYslsayseeekvardfll..... 75 
                              + +vG  nvGk++++n+l g+k  +v+  pG t e +  +++l      ++   + ++DlPG Y + ++s++ +   d l+     
  PHY93_16290|PHY93_16290  35 ISMVGRSNVGKSSIINSLFGSKtARVSKTPGRTREINIFEFELslngkkSElPPFYLIDLPG-YGFAEVSKDMQKNWDELMgsffa 119
                              789*****************98468********999988777644442211234689*****.88888888766666555533333 PP

                              .CTSSSEEEEEEEGGGHHHHH..HHHHHHHHTTSSEEEEEETHHHHHHTTEEE-HHHHHHHHTS CS
                   FeoB_N  76 .eeepdvvvnvvdatnlernL..yLtlqllelgvpvvlalnmideaekkgieidlkkLsekLgv 136
                                +e  ++vn+ da + +++   ++   l +++ + +l +n+id++++++ +  l+kL+ +L  
  PHY93_16290|PHY93_16290 120 hLSEGMMLVNIQDARHPNQDAdkQFHKFLKNFTRNAILLFNKIDKLKTQKERAVLDKLKPSLSK 183
                              35677899*******998865227888899*****************99999888888887753 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.0     1e-06    0.0014     103     130 ..      36      63 ..      11     102 .. 0.84
   2 !    9.8   0.1   0.00049      0.67      42      97 ..     148     209 ..     107     214 .. 0.76

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 1e-06
                              EEECSTTSSHHHHHHHHCTT-----S-- CS
              RsgA_GTPase 103 vlvGqSGvGKStLinallpelelktgev 130
                               +vG S vGKS++in+l ++++++++++
  PHY93_16290|PHY93_16290  36 SMVGRSNVGKSSIINSLFGSKTARVSKT 63 
                              589****************966666554 PP

  == domain 2  score: 9.8 bits;  conditional E-value: 0.00049
                              HHHTT-EEEEEEE-GGG--HHH......HHHHHHHHHHHTTSEEEE--TTTHTTHHHHHHHC CS
              RsgA_GTPase  42 aeekgiepvivlnKiDlleeee......eleelkeelealgyevllvsaktkegleelkell 97 
                              +++   + ++++nKiD l++++      +l+   ++  ++  ++++ sa+tk+gl ++++++
  PHY93_16290|PHY93_16290 148 LKNFTRNAILLFNKIDKLKTQKeravldKLKPSLSKEYKWIRQMYFASAETKKGLPQVEDAI 209
                              34444578999******99999899888788777777788899***********99998765 PP

>> Septin  Septin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.9   0.0   3.1e-08   4.3e-05       7     114 ..      35     145 ..      32     171 .. 0.76

  Alignments for each domain:
  == domain 1  score: 22.9 bits;  conditional E-value: 3.1e-08
                              EEEEEBTTSSCCCCCCTTSSSS------------------S-EEEEEEEEETTCEEE.EEEEE---BS...SSSSHHCCCHHHH.H CS
                   Septin   7 lmvvGesglGkttlintlfetdlieeekleeasekkkktveikkkkvvieedgvkln.ltviDtpgfG...davdnskswepiv.e 87 
                              + +vG+s +Gk+++in+lf ++  + +k++ +    +++++i + + ++++++ +l  + +iD pg+G    + d +k+w+ ++ +
  PHY93_16290|PHY93_16290  35 ISMVGRSNVGKSSIINSLFGSKTARVSKTPGR----TREINIFEFELSLNGKKSELPpFYLIDLPGYGfaeVSKDMQKNWDELMgS 116
                              5689******************9999766654....566788899999999999995489*******943223577999*988724 PP

                              HHHHHHHHHHHHCTSS--..SS-----EE CS
                   Septin  88 yideqfeeylreesklkR..kkivDkRvH 114
                              +  +  e ++  + +  R  ++ +Dk  H
  PHY93_16290|PHY93_16290 117 FFAHLSEGMMLVNIQDARhpNQDADKQFH 145
                              55666666666676766733344455555 PP

>> Dynamin_N  Dynamin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.3   4.6e-06    0.0064       1      37 [.      35      72 ..      35      84 .. 0.82
   2 ?    3.3   0.0     0.055        76      98     149 ..      84     144 ..      76     162 .. 0.57

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 4.6e-06
                             EEEEEBTTTTHHHHHHHHHTS--S---SSS-.--S-EE CS
                Dynamin_N  1 iavvGsqSsGKSSvlnaLlgedilprgpnpt.Trrple 37
                             i  vG  + GKSS++n+L g++   ++++p  Tr +++
  PHY93_16290|PHY93_16290 35 ISMVGRSNVGKSSIINSLFGSKTARVSKTPGrTREINI 72
                             6789******************9998888643666665 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.055
                              TTS-SEEEEE---B-SSSGTTS......HHHHHHH.STTEEEEEE..EETTS-CCC-CHHH CS
                Dynamin_N  98 llvkgltlvDlPGldsvnkrdq......elvkeyi.kkadiilav..tsanhdlsnsealf 149
                                 +   l+DlPG+   ++ +       el+ ++  + +  +++v  ++a h   +++++f
  PHY93_16290|PHY93_16290  84 SELPPFYLIDLPGYGFAEVSKDmqknwdELMGSFFaHLSEGMMLVniQDARHPNQDADKQF 144
                              55667789****9876655555457777555444444444444441145555444444443 PP

>> AIG1  AIG1 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.1   5.5e-07   0.00076       3     144 ..      35     180 ..      33     218 .. 0.68

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 5.5e-07
                              EEEESSTTSSHHHHHHHHHTS--SS--TTTS---SS-EEEEE..EETTEE.....EEEEE--S..CCCTTCCHHCHHHHHHHHHHH CS
                     AIG1   3 ivlvGktgnGkSaTgNsilgkkaFesklsaqsvtkkcqkksr..twdgkk.....inViDTPg..lfdlsvsadkiskeivrclll 79 
                              i +vG++ +GkS+ +Ns+ g+k  + + ++ + t++ +  +   + +gkk        iD Pg    ++s++ +k   e + ++  
  PHY93_16290|PHY93_16290  35 ISMVGRSNVGKSSIINSLFGSKTARVS-KTPGRTREINIFEFelSLNGKKselppFYLIDLPGygFAEVSKDMQKNWDELMGSFFA 119
                              558*****************9985544.344444444433222244444311111679****954689999999999999976644 PP

                              CTT-ESEEEEEEETTB-SHHHHHHHHHHHHHHCGGGGGGEEEEEEEGGGGTTCCHHHHHHHHH-H CS
                     AIG1  80 seegihalllvlslgrfteedekalktlkelFGekilkylivvftrkddleddsledylsksspe 144
                                 +  ++l+ ++  r  ++d    k+  + F +++++++i++f + d+l+ ++    l k +p 
  PHY93_16290|PHY93_16290 120 H-LSEGMMLVNIQDARHPNQDA--DKQF-HKFLKNFTRNAILLFNKIDKLKTQKERAVLDKLKPS 180
                              3.33556666677666665543..3444.45778899999****999999999866666655554 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.9   0.0   6.9e-05     0.096       2      27 ..      35      60 ..      34      92 .. 0.72
   2 ?    1.1   0.0      0.32   4.4e+02      74     119 ..     116     163 ..     106     164 .. 0.51

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 6.9e-05
                             EEEESSTTSSHHHHHHCHCT-CCC-E CS
                      Roc  2 vvlvGdsgvGKtsllkrfvedkfsek 27
                             + +vG s+vGK+s+++++  +k  + 
  PHY93_16290|PHY93_16290 35 ISMVGRSNVGKSSIINSLFGSKTARV 60
                             679**************998766433 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.32
                              HHHHCTSCEEEEEE..EGH..HHHCHHHHHHHHHHHCSSS-EEEEEE-TT CS
                      Roc  74 plylreaalailvy..dsr..ssenlkeWlkelkkvagkspvilvgnkiD 119
                              +++ + ++ ++lv   d+r  +++  k+  k lk+ ++  ++il+ nkiD
  PHY93_16290|PHY93_16290 116 SFFAHLSEGMMLVNiqDARhpNQDADKQFHKFLKNFTR--NAILLFNKID 163
                              55666666666654114331122333445555555544..4577788888 PP

>> GTP_EFTU  Elongation factor Tu GTP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.4   0.1   6.1e-05     0.084     102     192 ..     132     213 ..      30     215 .. 0.68

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 6.1e-05
                              ETTTBSTHHHHHHHHHHHHTTTEEEEEEESCGST.HHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTTEEEEEEBTTTTBTHHHHHH CS
                 GTP_EFTU 102 daveGvepqteevlrlalkegvpiivfiNKmDrl.kaelkeiveevkqklsrkeeklekygekgekevpvvfgSalkgegvktlle 186
                              da++  +   ++  + +++   + i++ NK+D+l  ++ + + +++k +l       ++y+     + +++f+Sa +++g+ ++ +
  PHY93_16290|PHY93_16290 132 DARHPNQDADKQFHKFLKNFTRNAILLFNKIDKLkTQKERAVLDKLKPSL------SKEYKW----IRQMYFASAETKKGLPQVED 207
                              444444444555556666666679**********6666677788888888......444432....4469999****999999999 PP

                              HHHHHS CS
                 GTP_EFTU 187 alvell 192
                              a++ +l
  PHY93_16290|PHY93_16290 208 AIIAHL 213
                              999886 PP

>> Gtr1_RagA  Gtr1/RagA G protein conserved region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.1   3.7e-05     0.051       4     148 ..      37     189 ..      35     206 .. 0.70

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 3.7e-05
                Gtr1_RagA   4 LmGksgsGKtsmrsiiFdnylardtlrlgatidveksevrflgnl......tlnlwDcgGq.....eafveeylssqkeeifrnvg 78 
                              ++G+s+ GK+s+ + +F   +ar   + g t +++  e++++ n        + l+D++G      ++ +++++ +   + f + +
  PHY93_16290|PHY93_16290  37 MVGRSNVGKSSIINSLFGSKTARVSKTPGRTREINIFEFELSLNGkkselpPFYLIDLPGYgfaevSKDMQKNWDELMGSFFAHLS 122
                              68**********************999999998777666554332112225799*****963222245566677888888898888 PP

                Gtr1_RagA  79 vliyVfDvesre..leedletlkeilealrqyspeakvfvlihKmDliqedereeifeerkeeireeiekle 148
                                + ++ +++     +++ +++++    l+++ ++a    l +K+D+++ ++++ ++++ k ++++e + ++
  PHY93_16290|PHY93_16290 123 EGMMLVNIQDARhpNQDADKQFHKF---LKNFTRNA--ILLFNKIDKLKTQKERAVLDKLKPSLSKEYKWIR 189
                              5555555553221133333444444...44455555..4699*****************9999999887554 PP

>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0         1   1.4e+03      33      49 ..      36      52 ..      29      61 .. 0.77
   2 ?   12.2   0.1   4.8e-05     0.066     171     229 ..     156     213 ..     152     226 .. 0.85

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 1
                             EEEE-TTSSHHHHHHHH CS
                     MeaB 33 GltGvPGaGkstlveal 49
                              + G   +Gks +++ l
  PHY93_16290|PHY93_16290 36 SMVGRSNVGKSSIINSL 52
                             45688899999999887 PP

  == domain 2  score: 12.2 bits;  conditional E-value: 4.8e-05
                              EEEEE---HHHHHHHHHHHHHHHHHCSTTBTTB--EEEEEBCCCTBSHHHHHHHHHHHH CS
                     MeaB 171 iivvnkaDkkeaekaarelraaleleeekekeWrpkvlktsavegeGidelvdaieehr 229
                              i+  nk Dk +++k ++ l + l+ + +ke +W  ++  +sa +++G+ ++ dai  h 
  PHY93_16290|PHY93_16290 156 ILLFNKIDKLKTQKERAVLDK-LKPSLSKEYKWIRQMYFASAETKKGLPQVEDAIIAHL 213
                              67889***9999998877765.5666678899***********************9985 PP

>> cobW  CobW/HypB/UreG, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   4.2e-05     0.057     114     174 ..     126     186 ..     108     189 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 4.2e-05
                              EEEEEEETTTH.CCHCCHHHHHHHHHHTSSEEEEE-HHHHCHC..HHHHHHHHHHHHTTS- CS
                     cobW 114 avvavvDaknleaeeekieekaedqlaaadllvlnKtDlldeeallekleerlrqlnpeak 174
                              ++v + Da++ +++ +k+ +k+ + ++   +l++nK+D l+++++ ++l++   +l++e k
  PHY93_16290|PHY93_16290 126 MLVNIQDARHPNQDADKQFHKFLKNFTRNAILLFNKIDKLKTQKERAVLDKLKPSLSKEYK 186
                              4688899999999*****************************9776888877777766665 PP

>> TniB  Bacterial TniB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   0.00013      0.17      36      78 ..      33      78 ..      20     157 .. 0.69
   2 ?   -0.8   0.0      0.62   8.5e+02     100     147 ..     133     178 ..     115     187 .. 0.64

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00013
                     TniB 36 pnlllvGdsnnGKtmivekFarlhppekd...edaekvpvlvvqap 78
                               + +vG+sn+GK++i+++   +++++ +    ++++++++ +++ 
  PHY93_16290|PHY93_16290 33 IGISMVGRSNVGKSSIINSLFGSKTARVSktpGRTREINIFEFELS 78
                             46789*************9876665553211133455666666555 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 0.62
                     TniB 100 ararvskleqqvlrllrelkvrvLiiDEihnllagsarkqreflnalk 147
                              ar+  +++++q +++l+++    +++  ++++ + + +k r++l  lk
  PHY93_16290|PHY93_16290 133 ARHPNQDADKQFHKFLKNFTRNAILL--FNKIDKLKTQKERAVLDKLK 178
                              45566677777777777766543333..34444444677777777776 PP

>> MMR_HSR1_Xtn  C-terminal region of MMR_HSR1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.0       1.6   2.2e+03      85     104 ..     102     121 ..      97     122 .. 0.84
   2 ?   10.1   0.1   0.00047      0.64      57     104 ..     154     213 ..     143     215 .. 0.80

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 1.6
             MMR_HSR1_Xtn  85 iSaekelnldeLkekiweeL 104
                              +S ++++n deL+   + +L
  PHY93_16290|PHY93_16290 102 VSKDMQKNWDELMGSFFAHL 121
                              899999999*9999999887 PP

  == domain 2  score: 10.1 bits;  conditional E-value: 0.00047
             MMR_HSR1_Xtn  57 pclyvlNKiDlisleeldelare............pnsvviSaekelnldeLkekiweeL 104
                              ++++++NKiD+++ ++ +++  +            +++ + Sae++++l ++ ++i  +L
  PHY93_16290|PHY93_16290 154 NAILLFNKIDKLKTQKERAVLDKlkpslskeykwiRQMYFASAETKKGLPQVEDAIIAHL 213
                              68999******77665555444335668888888889999**********9999997765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (228 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       690  (0.0384851); expected 358.6 (0.02)
Passed bias filter:                      477  (0.0266049); expected 358.6 (0.02)
Passed Vit filter:                        66  (0.00368119); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.42
# Mc/sec: 1612.91
//
Query:       PHY93_16295|PHY93_16295  [L=450]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.7e-52  176.4   2.5    9.4e-52  175.1   0.2    2.3  2  Sigma54_activat  Sigma-54 interaction domain
    1.5e-13   51.0   0.0    4.2e-13   49.6   0.0    1.7  1  Sigma54_activ_2  Sigma-54 interaction domain
    2.2e-10   41.0   0.1    5.6e-10   39.8   0.1    1.7  1  AAA              ATPase family associated with various cellul
    2.2e-06   27.7   0.0    4.5e-06   26.7   0.0    1.6  1  AAA_5            AAA domain (dynein-related subfamily)
    9.7e-06   25.9   0.7    8.5e-05   22.8   0.2    2.6  2  AAA_22           AAA domain
    1.1e-05   24.6   0.0    1.8e-05   23.9   0.0    1.3  1  MCM              MCM P-loop domain
    1.9e-05   24.2   0.1      0.016   14.6   0.0    2.3  2  Mg_chelatase     Magnesium chelatase, subunit ChlI
    8.6e-05   23.0   0.1     0.0002   21.8   0.1    1.6  1  AAA_16           AAA ATPase domain
    0.00012   22.2   0.1     0.0002   21.5   0.1    1.4  1  AAA_2            AAA domain (Cdc48 subfamily)
    0.00029   20.6   0.1     0.0012   18.6   0.0    2.0  2  IstB_IS21        IstB-like ATP binding protein
    0.00054   20.0   0.2     0.0017   18.4   0.0    1.9  1  AAA_14           AAA domain
    0.00075   19.5   0.1     0.0025   17.8   0.1    2.0  1  NACHT            NACHT domain
    0.00086   18.9   0.0     0.0022   17.5   0.0    1.6  1  AAA_7            P-loop containing dynein motor region
     0.0009   18.6   0.0     0.0016   17.8   0.0    1.3  1  Zeta_toxin       Zeta toxin
     0.0052   17.3   0.2      0.031   14.8   0.0    2.2  2  AAA_18           AAA domain
     0.0077   15.3   0.0      0.013   14.5   0.0    1.3  1  T2SSE            Type II/IV secretion system protein
  ------ inclusion threshold ------
      0.012   14.9   0.0       0.02   14.1   0.0    1.3  1  NB-ARC           NB-ARC domain
      0.023   13.9   0.1       0.15   11.3   0.0    2.1  2  TIP49            TIP49 P-loop domain
      0.023   14.4   0.0       0.04   13.6   0.0    1.4  1  AAA_30           AAA domain
      0.024   14.8   0.0      0.042   14.0   0.0    1.6  1  AAA_33           AAA domain
      0.026   14.0   0.0      0.079   12.4   0.0    1.8  2  Pox_A32          Poxvirus A32 protein
      0.039   14.0   0.0      0.082   12.9   0.0    1.5  1  TsaE             Threonylcarbamoyl adenosine biosynthesis pro
      0.043   13.5   0.0      0.075   12.7   0.0    1.5  1  AAA_24           AAA domain
      0.048   14.2   0.1      0.097   13.2   0.1    1.5  1  ABC_tran         ABC transporter
      0.052   12.8   0.1       0.13   11.5   0.0    1.6  1  KAP_NTPase       KAP family P-loop domain
      0.056   13.2   0.0       0.16   11.8   0.0    1.7  1  HTH_8            Bacterial regulatory protein, Fis family
      0.084   12.6   0.0       0.17   11.6   0.0    1.4  1  PduV-EutP        Ethanolamine utilisation - propanediol utili
      0.085   12.7   0.0       0.33   10.8   0.0    2.0  2  AAA_3            ATPase family associated with various cellul
       0.09   12.5   0.0       0.22   11.3   0.0    1.6  1  VPS13_C          Vacuolar-sorting-associated 13 protein C-ter
      0.096   12.4   0.2        3.5    7.4   0.2    2.3  1  RuvB_N           Holliday junction DNA helicase RuvB P-loop d
       0.11   12.4   0.0       0.37   10.7   0.0    1.9  2  NTPase_1         NTPase
       0.18   11.3   0.0        0.4   10.1   0.0    1.5  1  IglC             Intracellular growth locus C protein


Domain annotation for each model (and alignments):
>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.0      0.76   4.2e+02      70     108 ..      69     107 ..      57     131 .. 0.83
   2 !  175.1   0.2   1.7e-54   9.4e-52      16     163 ..     155     301 ..     144     306 .. 0.96

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.76
                              HHEBSSSSSTTTSS-BEHHHHHTTTSEEEEETGGGS-HH CS
          Sigma54_activat  70 LFGhekGaFtGAekekkGlfekadgGtlfLDeigelple 108
                              +FG ++  F  A  +++G fe  +++  ++  +ge p +
  PHY93_16295|PHY93_16295  69 VFGSAQSEFELALVQHSGSFEYNEKSRYLMKSLGESPFR 107
                              7********************999998888888877765 PP

  == domain 2  score: 175.1 bits;  conditional E-value: 1.7e-54
                              HHHCTSSS-EEEECSTTSSHHHHHHHHHHHSTTTTS-EEEEETTTS-TTCHHHHHHEBSSSSSTTTSS-BEHHHHHTTTSEEEEET CS
          Sigma54_activat  16 kkvaktdlsvlitGesGtGKellaraiheaskrkekpfvavncaaipeelleseLFGhekGaFtGAekekkGlfekadgGtlfLDe 101
                              ++++k++l+++i+Ge+GtGK++la++ihe+s r+  +f+++n ++++++l+eseLFGh+kGaFtGA +ek+G++ +a++GtlfLDe
  PHY93_16295|PHY93_16295 155 EEMIKSPLNIMIEGETGTGKTTLAKSIHEESARSG-RFIHLNLSSFAPSLIESELFGHVKGAFTGAITEKRGAILEAHKGTLFLDE 239
                              678999*************************9766.5************************************************* PP

                              GGGS-HHHHHHHHHHHHHSEEESBTSSSEEE--EEEEEEESS-HHHHHHTTSS-HHHHHHHT CS
          Sigma54_activat 102 igelplelQekLlrvlqegevervGsskeikvdvriiaatnedleeaveegkfredLyyrln 163
                              i +l++elQ+kLl +l++ ev+ vG+s+++k+dvr+i+a+ +++++ +e++k+r+d+yyrl+
  PHY93_16295|PHY93_16295 240 IDSLSIELQTKLLLFLDNYEVRAVGGSATQKADVRLIFASGTKMKQLIERQKMRKDFYYRLT 301
                              ************************************************************97 PP

>> Sigma54_activ_2  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.6   0.0   7.5e-16   4.2e-13      17     131 ..     157     303 ..     148     311 .. 0.84

  Alignments for each domain:
  == domain 1  score: 49.6 bits;  conditional E-value: 7.5e-16
                              HHT-SS-EEEEEETT--HHHHHHCC--TTS-EE--SSTTHHHH-H....................HHHHHH......TTTSEEEEE CS
          Sigma54_activ_2  17 aaqsklpvfltGekGsgkelvArlLhknsgpwleifvverlaklp....................ldlleq......akggtLylk 76 
                              + +s l++ + Ge G+gk++ A+ +h++s++      ++ ++ +p                         +      a+ gtL+l 
  PHY93_16295|PHY93_16295 157 MIKSPLNIMIEGETGTGKTTLAKSIHEESARSGRFIHLNLSSFAPslieselfghvkgaftgaitE----KrgaileAHKGTLFLD 238
                              567899*************************99888886666666777766777776666644440....255555589******* PP

                              E-TT--HHHHHHHHHHHHH..........HTTTT-EEEEEEEE-TTT..----HHHHHHHHSSSE CS
          Sigma54_activ_2  77 diadlskaeqkeLlellak..........aeksslrlVstsskdleqlleagafdekLlkeLsel 131
                              +i++ls ++q++Ll+ l++           +k ++rl+++s+++++ql+e +++ +  +++L++ 
  PHY93_16295|PHY93_16295 239 EIDSLSIELQTKLLLFLDNyevravggsaTQKADVRLIFASGTKMKQLIERQKMRKDFYYRLTSG 303
                              ****************************8669******************************863 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.8   0.1   9.9e-13   5.6e-10       2     116 ..     165     287 ..     164     300 .. 0.79

  Alignments for each domain:
  == domain 1  score: 39.8 bits;  conditional E-value: 9.9e-13
                              EEESSTTSSHHHHHHHHHHHH..THEEEEEETTTCS.SSSTTHHHHHHHHHHHHHHHTS.......TSEEEEEETGGGHHHHHTTC CS
                      AAA   2 llyGppGtGKTllakavakel..gvefleisgsell.skyvgesekkirelfkeakeka.......kpsilfiDEidalaksrsgs 77 
                              ++ G  GtGKT+lak++ +e+  + +f+ +++s++  s + +e   ++++ f+ a +++       ++  lf+DEid+l  +    
  PHY93_16295|PHY93_16295 165 MIEGETGTGKTTLAKSIHEESarSGRFIHLNLSSFApSLIESELFGHVKGAFTGAITEKrgaileaHKGTLFLDEIDSLSIEL--- 247
                              6789****************855588********9955566677778888887763333356999655***********5555... PP

                              CCHHHHHHHHHHHHHHHHTTTS........SSTEEEEEEESS.GGGST CS
                      AAA  78 eseeeervvnqLlteldgvkkk........eskvivigatnr.pdkld 116
                                      + +Ll +ld+++ +        +++v +i a+ + +++l 
  PHY93_16295|PHY93_16295 248 --------QTKLLLFLDNYEVRavggsatqKADVRLIFASGTkMKQLI 287
                              ........*************999999999888999988876554444 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.7   0.0     8e-09   4.5e-06       1     136 [.     163     298 ..     163     300 .. 0.70

  Alignments for each domain:
  == domain 1  score: 26.7 bits;  conditional E-value: 8e-09
                              EEEEE--SSSSHHHHHHHGGGGBS--EEEEE--.....TT--HHHHH--B--.........--------.........G-SEEEEE CS
                    AAA_5   1 dvlLvGppGtgKselaerlaaalnreveyvqlt.....rdtteedlkgrreikngttslvdsplvraar.........egeilvlD 72 
                              ++++ G++GtgK++la+++ +   r+   + l+      ++ e++l+g+++          ++++ a++         ++ +l+lD
  PHY93_16295|PHY93_16295 163 NIMIEGETGTGKTTLAKSIHEESARSGRFIHLNlssfaPSLIESELFGHVK----------GAFTGAITekrgaileaHKGTLFLD 238
                              57999****************994444444433111113455677777777..........444444444444556568889**** PP

                              SGGG--HHHHHHHHHHHHSSEEE..-SSSEEE---......-EEEEEESS--....-TT-TTHHHHT CS
                    AAA_5  73 EveraesevlnsLlslleerrllleeggelvkaknddllerfrviatanpld...rslnelspalrs 136
                              E++ ++ e + +Ll  l++ +++ + gg  ++++       +r+i+++ + +    +++++ + ++ 
  PHY93_16295|PHY93_16295 239 EIDSLSIELQTKLLLFLDNYEVR-AVGGSATQKAD------VRLIFASGTKMkqlIERQKMRKDFYY 298
                              *********************99.44444444444......9******9999666666666666665 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.8   0.2   1.5e-07   8.5e-05       6     127 ..     162     277 ..     156     287 .. 0.78
   2 ?   -0.3   0.0       2.2   1.2e+03      73     105 ..     348     382 ..     303     414 .. 0.60

  Alignments for each domain:
  == domain 1  score: 22.8 bits;  conditional E-value: 1.5e-07
                   AAA_22   6 gilvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsstsskdllrellralglelkaerlsseellealeqalrarav 91 
                                +++ Ge+GtGKTtl++ ++e+         ++ ++++ +l+s   ++ + +el+  ++             ++  + a+ ++++
  PHY93_16295|PHY93_16295 162 LNIMIEGETGTGKTTLAKSIHEESA-------RSGRFIHLNLSSFA-PSLIESELFGHVKG-------AFTGAITEKRGAILEAHK 232
                              5789*******************85.......38889999999999.88888888888884.......233566777777777888 PP

                   AAA_22  92 ielliiDEaqhlrseealeeLrsllnl...........srkgvqliL 127
                               + l +DE++ l s e+ ++L  +l++           ++ +v+li+
  PHY93_16295|PHY93_16295 233 -GTLFLDEIDSL-SIELQTKLLLFLDNyevravggsatQKADVRLIF 277
                              .89*********.9888888888877666666666666666666665 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 2.2
                   AAA_22  73 lsseelleale.qalraravielliiDEaqh.lr..s 105
                              ++ ++ll++l+ + + + ++   +i+D  +h l+  +
  PHY93_16295|PHY93_16295 348 GNFRQLLSHLNkKKILSLGK--KIILDHLDHdLIneK 382
                              44444443322023333333..677777777665542 PP

>> MCM  MCM P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.9   0.0   3.3e-08   1.8e-05      52     149 ..     156     259 ..     148     296 .. 0.76

  Alignments for each domain:
  == domain 1  score: 23.9 bits;  conditional E-value: 3.3e-08
                              SBBCSS-EEEEEESSTSTHHHHHHHHHHHSSS.EEEEESSSSS.SSHSSSE....EEEESSSSSEEEEETHHHHTTTSEEEEESGG CS
                      MCM  52 tklrgdinvllvgdpgtaKsqlLkyveklapr.avytsgkgss.aagLtaa....vvrdeetgefvleaGalvladkGvcciDefd 131
                                +++  n+++ g+ gt+K++l k++++ + r + ++  + ss a  L  +     v+   tg ++ + Ga++ a+kG + +De+d
  PHY93_16295|PHY93_16295 156 EMIKSPLNIMIEGETGTGKTTLAKSIHEESARsGRFIHLNLSSfAPSLIESelfgHVKGAFTGAITEKRGAILEAHKGTLFLDEID 241
                              5688999*******************87655516788888777333454331111356888999999******************* PP

                              GSTCHHHHHHHHHHHHSE CS
                      MCM 132 kmkeedrsalhEamEqqt 149
                                + e +++l+  +++ +
  PHY93_16295|PHY93_16295 242 SLSIELQTKLLLFLDNYE 259
                              ****99999986666555 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.3   0.0     0.005       2.8      24      43 ..     163     182 ..     158     188 .. 0.92
   2 !   14.6   0.0   2.9e-05     0.016      93     137 ..     218     262 ..     211     284 .. 0.76

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.005
             Mg_chelatase  24 nlllvGppGsGKtmlakrlp 43 
                              n+++ G  G+GKt lak ++
  PHY93_16295|PHY93_16295 163 NIMIEGETGTGKTTLAKSIH 182
                              899**************986 PP

  == domain 2  score: 14.6 bits;  conditional E-value: 2.9e-05
             Mg_chelatase  93 ggskpkpGeislahnGvLfLDElpefkrkvlevLRePledgevti 137
                              g  + k G+i  ah+G LfLDE+  ++ +    L   l++ ev+ 
  PHY93_16295|PHY93_16295 218 GAITEKRGAILEAHKGTLFLDEIDSLSIELQTKLLLFLDNYEVRA 262
                              4557899****************9999888888877777777654 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.8   0.1   3.5e-07    0.0002      20     143 ..     157     257 ..     149     287 .. 0.65

  Alignments for each domain:
  == domain 1  score: 21.8 bits;  conditional E-value: 3.5e-07
                   AAA_16  20 rsgrpelvllsGesGvGKsslvrellralekdggiflrgkcdqlesaipysalaqalareellrqlldeaesaeleawrekleeal 105
                                 +p ++++ Ge G+GK++l+++++++  ++ g f+  +  ++          +++ ++el+  ++ +  + +  + r +++ea 
  PHY93_16295|PHY93_16295 157 MIKSPLNIMIEGETGTGKTTLAKSIHEESARS-GRFIHLNLSSF--------APSLI-ESELFGHVKGA-FTGAITEKRGAILEAH 231
                              5567899*******************999998.77777777777........44445.55777766666.2223333333333333 PP

                   AAA_16 106 aavpelagaeasrllellkrllallsrderplvlvlDd 143
                              +          + +l+++ +l   l++   +l+l+lD+
  PHY93_16295|PHY93_16295 232 K---------GTLFLDEIDSLSIELQT---KLLLFLDN 257
                              3.........24444444444433333...35555555 PP

>> AAA_2  AAA domain (Cdc48 subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.1   3.6e-07    0.0002       4     141 ..     162     293 ..     159     339 .. 0.80

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 3.6e-07
                              --EEEE--TTSSHHHHHHHHHHHTT-....-EEEEEGGG---.......----THHHHHHHHHTTT-HHHHTTSEEEEETGGG--- CS
                    AAA_2   4 isilllgptgvGktelakalaellfvkkekkliradaselle.......eeevehlvsrligappgyvgaeegGivllDEidKihp 82 
                               +i++ g+tg+Gkt lak++ e     ++ ++i ++ s+++           v+   +  i ++ g +  + +G ++lDEid  + 
  PHY93_16295|PHY93_16295 162 LNIMIEGETGTGKTTLAKSIHEESA--RSGRFIHLNLSSFAPslieselFGHVKGAFTGAITEKRGAILEAHKGTLFLDEIDSLSI 245
                              589*******************997..68899999999998866654444467777888888899999999999************ PP

                              ----------HHHHHHHHHHHH--EE-------EE-TT-EEEEEE--TTHHHHTTTS-S CS
                    AAA_2  83 kessgadvSregVqrdLLqileggtltdkqgrkvdtknilfImtgafgsskisdesrsk 141
                                         + q+ LL  l++ +++   g+  +  ++ +I+++  ++++ +++++++
  PHY93_16295|PHY93_16295 246 -----------ELQTKLLLFLDNYEVRAVGGSATQKADVRLIFASGTKMKQLIERQKMR 293
                              ...........********************6666666666666666666666644443 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.0   2.1e-06    0.0012      33      77 ..     147     191 ..     139     254 .. 0.90
   2 ?   -1.2   0.0       2.6   1.5e+03      67     108 ..     263     305 ..     260     309 .. 0.78

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 2.1e-06
                IstB_IS21  33 rkvkeLatlsfiekkenivllGpsGvGKshlaialgveavragls 77 
                              + +++L + + i++  ni++ G +G+GK+ la ++  e +r+g  
  PHY93_16295|PHY93_16295 147 HFTTDLLSEEMIKSPLNIMIEGETGTGKTTLAKSIHEESARSGRF 191
                              5577999*******************************9999865 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 2.6
                IstB_IS21  67 lgveavr.aglsvlfvrvedLveelkrarrdgklaralkrllk 108
                              +g +a + a+++ +f + +++ + ++r++    +  +l++ + 
  PHY93_16295|PHY93_16295 263 VGGSATQkADVRLIFASGTKMKQLIERQKMRKDFYYRLTSGVV 305
                              55555554899999********999999998888888877665 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0     3e-06    0.0017       5      92 ..     164     259 ..     161     288 .. 0.72

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 3e-06
                   AAA_14   5 lvitGaRrvGKTtllkqlikellvkkesilyinldderd..kkladpe....kllelileklke.....ekktylflDEiqev.pe 78 
                              ++i+G   +GKTtl+k + +e+  ++ +++ +nl +      +++ +      +  +i ek  +      +k  lflDEi  +  e
  PHY93_16295|PHY93_16295 164 IMIEGETGTGKTTLAKSIHEESA-RSGRFIHLNLSSFAPslIESELFGhvkgAFTGAITEK--RgaileAHKGTLFLDEIDSLsIE 246
                              68999999*******99998887.9999999999995552244444443334444555555..04456678889******876357 PP

                   AAA_14  79 wekalkslvdegkn 92 
                              +++ l  ++d++ +
  PHY93_16295|PHY93_16295 247 LQTKLLLFLDNY-E 259
                              888888888876.3 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.1   4.4e-06    0.0025       3      30 ..     164     191 ..     162     276 .. 0.74

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 4.4e-06
                              EEEEC-TTTCHHHHHHHHHHHHCTS-SC CS
                    NACHT   3 vilqGeaGsGKTtLlqklalawaegklp 30 
                              ++++Ge G GKTtL+++++++ a++  +
  PHY93_16295|PHY93_16295 164 IMIEGETGTGKTTLAKSIHEESARSGRF 191
                              789****************999987744 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.0   3.9e-06    0.0022      22      71 ..     150     198 ..     141     223 .. 0.84

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 3.9e-06
                    AAA_7  22 ysyllelllknkkpvllvGptGtGKtviikdllkkldkekylsltinfsa 71 
                              ++ l e ++k+  ++++ G+tGtGKt+++k++ ++   ++  ++++n+s+
  PHY93_16295|PHY93_16295 150 TDLLSEEMIKSPLNIMIEGETGTGKTTLAKSIHEESA-RSGRFIHLNLSS 198
                              5678899************************877766.666666666665 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.0   2.8e-06    0.0016      14      52 ..     159     197 ..     148     202 .. 0.89

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 2.8e-06
               Zeta_toxin  14 erPklillgGqpGAGKselaellkdelerqgnvvrldpD 52 
                              ++P  i++ G +G GK++la+ + +e +r g++++l+  
  PHY93_16295|PHY93_16295 159 KSPLNIMIEGETGTGKTTLAKSIHEESARSGRFIHLNLS 197
                              7999********************************975 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.0   5.6e-05     0.031       1      31 [.     164     199 ..     164     248 .. 0.84
   2 ?   -0.3   0.0       2.6   1.4e+03      71      95 ..     363     387 ..     339     442 .. 0.66

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 5.6e-05
                   AAA_18   1 IlltGtpGvGKttlakeLskrlgf.....gvnlrdv 31 
                              I++ G  G+GKttlak + ++ +      + nl++ 
  PHY93_16295|PHY93_16295 164 IMIEGETGTGKTTLAKSIHEESARsgrfiHLNLSSF 199
                              89****************887422355566666555 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 2.6
                   AAA_18  71 leegknlvidghlaeleseaakdik 95 
                              l  gk +++d +  +l+ e+a  ++
  PHY93_16295|PHY93_16295 363 LSLGKKIILDHLDHDLINEKAEALG 387
                              4556777777777776666655444 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.5   0.0   2.4e-05     0.013     120     156 ..     156     188 ..     138     194 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 2.4e-05
                    T2SSE 120 evlrkavrerglilvsGgTgsGKttllyallkeinks 156
                              e     +++  +i++ G Tg+GKttl+ ++ +e + s
  PHY93_16295|PHY93_16295 156 E----MIKSPLNIMIEGETGTGKTTLAKSIHEESARS 188
                              3....455569***************99887776555 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   3.5e-05      0.02      21      50 ..     162     190 ..     148     195 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 3.5e-05
                              EEEEEEESTTSSHHHHHHHHCCSHCCCCCC CS
                   NB-ARC  21 lvvalvGmgGvGKttlakqilnksdevegr 50 
                              l + + G  G GKttlak+i+++ +   gr
  PHY93_16295|PHY93_16295 162 LNIMIEGETGTGKTTLAKSIHEE-SARSGR 190
                              46899****************99.444444 PP

>> TIP49  TIP49 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00026      0.15      51      87 ..     162     198 ..     138     208 .. 0.82
   2 ?   -0.1   0.0      0.73   4.1e+02     278     296 ..     231     249 ..     202     257 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00026
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                    TIP49  51 ravLlaGpsgtGktalaiaiskelgedvpfvalsgse 87 
                                +++ G++gtGkt la +i +e +++  f++l+ s 
  PHY93_16295|PHY93_16295 162 LNIMIEGETGTGKTTLAKSIHEESARSGRFIHLNLSS 198
                              4699***********************9999998775 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.73
                              XXXXXXXXXXXXXXXXXXX CS
                    TIP49 278 vpGvlfiDevhmlDiecfs 296
                               +G lf+De+  l ie  +
  PHY93_16295|PHY93_16295 231 HKGTLFLDEIDSLSIELQT 249
                              479************9866 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   7.1e-05      0.04      15     113 ..     159     256 ..     153     293 .. 0.59

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 7.1e-05
                   AAA_30  15 tsgdrvavltGpAGtGKttalkalreaweaag....grviglAptgkaAkvLaeelgieastiakllkrlkgrarlepgtllivDE 96 
                              +s+ +  +++G  GtGKtt+ k++ e  +++g     ++  +Ap+   ++  ++    +++ +  ++++ ++  +  ++  l  DE
  PHY93_16295|PHY93_16295 159 KSP-LNIMIEGETGTGKTTLAKSIHEESARSGrfihLNLSSFAPSLIESELFGHV---KGAFTGAITEKRGAILEA-HKGTLFLDE 239
                              555.35689***************9999999834443444444444443333322...222222222222221112.224455666 PP

                   AAA_30  97 agmvdtkqlaallkaae 113
                              +  ++++  ++ll  ++
  PHY93_16295|PHY93_16295 240 IDSLSIELQTKLLLFLD 256
                              66666666666666664 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   7.5e-05     0.042       2      32 ..     164     198 ..     164     373 .. 0.88

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 7.5e-05
                   AAA_33   2 vllvGlpGsGKstlaerllkklg....avllssdt 32 
                              +++ G  G+GK+tla++++++ +    +++l+  +
  PHY93_16295|PHY93_16295 164 IMIEGETGTGKTTLAKSIHEESArsgrFIHLNLSS 198
                              6899***************9998888888887655 PP

>> Pox_A32  Poxvirus A32 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0       7.4   4.1e+03      11      24 ..      74      87 ..      73     101 .. 0.77
   2 ?   12.4   0.0   0.00014     0.079       7      49 ..     155     197 ..     149     216 .. 0.87

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 7.4
                  Pox_A32 11 kkpFrlalvGgsGs 24
                             +++F+lalv  sGs
  PHY93_16295|PHY93_16295 74 QSEFELALVQHSGS 87
                             5789********99 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 0.00014
                  Pox_A32   7 esLlkkpFrlalvGgsGsGktvyLlsLlrtlvkkykhifLltp 49 
                              e+++k+p ++ + G++G Gkt+  +s+ ++  +  ++i+L ++
  PHY93_16295|PHY93_16295 155 EEMIKSPLNIMIEGETGTGKTTLAKSIHEESARSGRFIHLNLS 197
                              68899***************************99999999765 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   0.00015     0.082      19      42 ..     161     184 ..     143     193 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 0.00015
                              TEEEEEEESTTSSHHHHHHHHHHH CS
                     TsaE  19 gdvilLeGdLGaGKTtlvrglaka 42 
                                 i++eG+ G+GKTtl++++ ++
  PHY93_16295|PHY93_16295 161 PLNIMIEGETGTGKTTLAKSIHEE 184
                              3359***************99876 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   0.00013     0.075       2      23 ..     161     183 ..     160     260 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 0.00013
                   AAA_24   2 klkiliyGpsgiGKTtlakel.g 23 
                              +l+i+i G+ g+GKTtlak++ +
  PHY93_16295|PHY93_16295 161 PLNIMIEGETGTGKTTLAKSIhE 183
                              5799***************9951 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.1   0.00017     0.097      14      39 ..     164     188 ..     157     219 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 0.00017
                              EEEEESTTSSHHHHHHHHTTSS--SE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  14 vaivGenGaGKStLlkllagllkpte 39 
                              + i Ge+G+GK+tL+k + +++   +
  PHY93_16295|PHY93_16295 164 IMIEGETGTGKTTLAKSIHEESAR-S 188
                              6799**************988764.3 PP

>> KAP_NTPase  KAP family P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00023      0.13      10      63 ..     151     201 ..     147     208 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00023
               KAP_NTPase  10 dilseptlatpivvgLygkWGsGKssllnkledelkefakpvrflfaefnawsf 63 
                              d+lse   + p+ ++++g+ G+GK++l +++ +e        rf+  +++++++
  PHY93_16295|PHY93_16295 151 DLLSEEMIKSPLNIMIEGETGTGKTTLAKSIHEESARS---GRFIHLNLSSFAP 201
                              89999999*******************99998887666...7777777766665 PP

>> HTH_8  Bacterial regulatory protein, Fis family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   0.00028      0.16      20      35 ..     414     429 ..     409     431 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00028
                              -HHHHHHHHTS-HHHH CS
                    HTH_8  20 nkskAArlLGisRrtL 35 
                              n  +AA+lL+is++tL
  PHY93_16295|PHY93_16295 414 NFVRAAKLLDISPNTL 429
                              5669***********9 PP

>> PduV-EutP  Ethanolamine utilisation - propanediol utilisation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0    0.0003      0.17       3      25 ..     163     185 ..     162     193 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.0003
                PduV-EutP   3 killiGkvgsGKttLtqalkgee 25 
                              +i++ G++g+GKttL++++++e+
  PHY93_16295|PHY93_16295 163 NIMIEGETGTGKTTLAKSIHEES 185
                              5999***************9875 PP

>> AAA_3  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0       4.8   2.7e+03      21      32 ..     122     133 ..     115     136 .. 0.86
   2 ?   10.8   0.0   0.00059      0.33       2      95 ..     164     264 ..     163     285 .. 0.74

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 4.8
                    AAA_3  21 kaldlefkriqf 32 
                              +++d+ f+riqf
  PHY93_16295|PHY93_16295 122 DVIDIGFNRIQF 133
                              68999******9 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 0.00059
                    AAA_3   2 vllegvPGlaktllvkalakaldlefkri.....qftpdllPsdilGtevfeekekefefkkGpvfan...llladeinrappktq 79 
                              +++eg  G++kt+l+k++ +    + + i      f+p l+ s++ G+ v  + +  ++ k+G+++      l+ dei+  +   q
  PHY93_16295|PHY93_16295 164 IMIEGETGTGKTTLAKSIHEESARSGRFIhlnlsSFAPSLIESELFGH-VKGAFTGAITEKRGAILEAhkgTLFLDEIDSLSIELQ 248
                              799***************887665544441122258899999999985.55666788899999998642337999*********** PP

                    AAA_3  80 salleameerqvtveg 95 
                              + ll  +++ +v + g
  PHY93_16295|PHY93_16295 249 TKLLLFLDNYEVRAVG 264
                              *999999998886544 PP

>> VPS13_C  Vacuolar-sorting-associated 13 protein C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00039      0.22      14      85 ..     273     343 ..     267     346 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00039
                  VPS13_C  14 lhlsfslsekknkeeslekeqsllslllllnslgvtltniddapikLnalelenvflslesliekikkhYsq 85 
                              ++l f + +k+++  + +k ++ + +  l++ + vtl+n+ d pik++++ ++    +l+ l e+++k+Y++
  PHY93_16295|PHY93_16295 273 VRLIFASGTKMKQLIERQKMRKDFYYR-LTSGVVVTLGNLRDNPIKIREFCMDFEKQNLTILCEDLIKYYQE 343
                              566666666666666555554444444.5899*************************************985 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.4   0.2    0.0062       3.5      36      58 ..     164     186 ..     154     285 .. 0.66

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.0062
                   RuvB_N  36 vllyGpPGlGkttlakiiakelg 58 
                              +++ G  G Gkttlak i +e  
  PHY93_16295|PHY93_16295 164 IMIEGETGTGKTTLAKSIHEESA 186
                              78999999999999999988754 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0       6.9   3.8e+03      67     110 ..      49      91 ..      31      95 .. 0.72
   2 ?   10.7   0.0   0.00065      0.37       1      27 [.     163     189 ..     163     193 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 6.9
                              -SSEETTEEE-HHHHHHHHHHHHHHHHHHH-EEEE---STTGGG CS
                 NTPase_1  67 reprvgkyvvdvesfeelalealrkalseadviviDEiGkmElk 110
                              + +  +k+++d  ++ ++ l+++  a+se ++ ++   G++E++
  PHY93_16295|PHY93_16295  49 KIVTSSKFYFDF-ALAQIHLPVFGSAQSEFELALVQHSGSFEYN 91 
                              444556667764.6788999999999999999999888888876 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 0.00065
                              EEEEE--TTSSHHHHHHHHHHHH...G CS
                 NTPase_1   1 kvfiTGppGvGKtTlvkkvlellkssg 27 
                              +++i G+ G+GKtTl k + e+ ++sg
  PHY93_16295|PHY93_16295 163 NIMIEGETGTGKTTLAKSIHEESARSG 189
                              5899***************99887766 PP

>> IglC  Intracellular growth locus C protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.0   0.00071       0.4     110     176 ..     275     341 ..     258     343 .. 0.91

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00071
                              HHHCHGGG--EEE--B-S--EE-TTSSEE-SB--TT-EEEES-TTT-EEEEEE-STT---TTSEEEE CS
                     IglC 110 ilqasatdmkiklgnsnkkqeyktdeawgimidlsnlelypisakafsisieptelmgvskdgmryh 176
                              ++ as t mk  +   + ++++    + g+++ l nl   pi  + f +  e  +l  +  d ++y+
  PHY93_16295|PHY93_16295 275 LIFASGTKMKQLIERQKMRKDFYYRLTSGVVVTLGNLRDNPIKIREFCMDFEKQNLTILCEDLIKYY 341
                              56799*****9999999999999999******************************99999999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (450 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       547  (0.0305092); expected 358.6 (0.02)
Passed bias filter:                      462  (0.0257683); expected 358.6 (0.02)
Passed Vit filter:                       108  (0.00602376); expected 17.9 (0.001)
Passed Fwd filter:                        32  (0.00178482); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              32  [number of targets reported over threshold]
# CPU time: 0.66u 0.30s 00:00:00.96 Elapsed: 00:00:00.48
# Mc/sec: 2803.61
//
Query:       PHY93_16300|PHY93_16300  [L=250]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (250 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       317  (0.0176809); expected 358.6 (0.02)
Passed bias filter:                      130  (0.00725082); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1819.72
//
Query:       PHY93_21155|PHY93_21155  [L=196]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.5e-25   86.9   0.1    1.4e-24   86.4   0.1    1.2  1  NusG      Transcription termination factor nusG
      3e-08   33.3   0.2    6.1e-08   32.4   0.2    1.5  1  KOW       KOW motif
  ------ inclusion threshold ------
      0.036   13.7   0.1       0.19   11.3   0.0    1.9  2  EF_TS     Elongation factor TS


Domain annotation for each model (and alignments):
>> NusG  Transcription termination factor nusG
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.4   0.1   2.3e-28   1.4e-24       2      95 .]      27     130 ..      26     130 .. 0.92

  Alignments for each domain:
  == domain 1  score: 86.4 bits;  conditional E-value: 2.3e-28
                              EEEEEEE-TTTHHHHHHHH...HHHCT-.....EEE-SCEEEEEEETTEEE....CSSTTEEEEEE---CHHHHHHHCSTTEEEE- CS
                              xxxxxxxxxxxxxxxxxxx...xxxxxx.....xxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     NusG   2 kWYvlqvepgkekkvkenL...leeegl.....evivPaeekveirqgkkk....klfpgyifikadmndkllmairktpgVtgfv 75 
                               WYv+++++g+e kv e+L   ++  gl     ++i+P+++k++ir+g+k     k fpgy++i++ ++d+++ ++r+t+gVtgf+
  PHY93_21155|PHY93_21155  27 AWYVINTYSGHEYKVIEALktrIKTMGLedkifQAIIPIQSKMVIRRGQKVksqeKTFPGYVLIQMILSDDSWITVRTTQGVTGFI 112
                              6*******************9977777788888*************7777679********************************* PP

                              EETTSSCC-EB-HHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxx RF
                     NusG  76 rvggeskpvplseeevqnil 95 
                               v  ++kp+++s+ ev++il
  PHY93_21155|PHY93_21155 113 GV--DNKPQAISQTEVDKIL 130
                              66..55***********996 PP

>> KOW  KOW motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.4   0.2     1e-11   6.1e-08       2      27 ..     147     176 ..     146     181 .. 0.87

  Alignments for each domain:
  == domain 1  score: 32.4 bits;  conditional E-value: 1e-11
                              TSEEEESSSTTTTCEEEEEEEETTT....T CS
                      KOW   2 GdhVkVvsGphkGktGkVvkvdqhk....v 27 
                              Gd+Vk++ Gp+++++G++ +vdq+k    v
  PHY93_21155|PHY93_21155 147 GDVVKITNGPFADFIGTIDSVDQEKgkirV 176
                              9************************55444 PP

>> EF_TS  Elongation factor TS
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   3.2e-05      0.19      38      85 ..      41      88 ..      24     103 .. 0.85
   2 ?    0.2   0.0     0.081   4.8e+02     119     138 ..     116     135 ..     109     173 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 3.2e-05
                    EF_TS 38 leellalkledetveealkekiakigEkielrrfakleaekevvasYi 85
                             + e+l++ ++ + +e+++ ++i  i  k+++rr +k++++++++ +Y+
  PHY93_21155|PHY93_21155 41 VIEALKTRIKTMGLEDKIFQAIIPIQSKMVIRRGQKVKSQEKTFPGYV 88
                             3455567789999**************************999999886 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.081
                    EF_TS 119 mnPqylsedevdaevlekek 138
                              ++Pq++s++evd+ + + e+
  PHY93_21155|PHY93_21155 116 NKPQAISQTEVDKILNKTEE 135
                              57999999999886665554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (196 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       577  (0.0321825); expected 358.6 (0.02)
Passed bias filter:                      474  (0.0264376); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.50u 0.20s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 1457.69
//
Query:       PHY93_17410|PHY93_17410  [L=133]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.4e-11   44.0   0.0    3.2e-11   43.6   0.0    1.1  1  OsmC      OsmC-like protein


Domain annotation for each model (and alignments):
>> OsmC  OsmC-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.6   0.0   1.8e-15   3.2e-11       1      99 [.      32     126 ..      32     127 .. 0.87

  Alignments for each domain:
  == domain 1  score: 43.6 bits;  conditional E-value: 1.8e-15
                              TTXSSB-HHHHHHHHHHHHHHHHHHHHTCCCT---SCEEEEEEEEEECCECTCEEEEEEEEEEE-SS-H..HHHHHHHHHHHHHSH CS
                     OsmC   1 gdgsgpsPeelllaalasCfaitlravakkkgikledleveveaerdpegakgiteirlkvevkipgadseeklkkllekaekrCp 86 
                              gdgs+p P +++la+ a C++  ++a+++ ++i+ +++++    ++dpe      + +++++v++p + s +k ++ + ++ + C+
  PHY93_17410|PHY93_17410  32 GDGSAPGPFDYFLASTALCAGYYVKAYCSSRNISTDGIKIIQNNTKDPEN---KYKYTFDIKVEVPVEFS-QKDRDGILRSIQGCT 113
                              7999***************************************9999995...45677888888888886.66666666688**** PP

                              HHHHHCT-SSSEE CS
                     OsmC  87 vsntlkngvkvel 99 
                              v++++++ +++++
  PHY93_17410|PHY93_17410 114 VKKAIQQMPDFNV 126
                              ******9999987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (133 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       447  (0.0249317); expected 358.6 (0.02)
Passed bias filter:                      338  (0.0188521); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.38
# Mc/sec: 1051.52
//
Query:       PHY93_21160|PHY93_21160  [L=58]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (58 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       401  (0.022366); expected 358.6 (0.02)
Passed bias filter:                      257  (0.0143343); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.23s 00:00:00.64 Elapsed: 00:00:00.41
# Mc/sec: 423.46
//
Query:       PHY93_21165|PHY93_21165  [L=145]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.4e-13   51.2   0.5    1.8e-13   50.8   0.5    1.2  1  ATP-cone       ATP cone domain
     0.0025   17.7   1.4     0.0025   17.7   1.4    2.0  2  Zn_Tnp_IS1595  Transposase zinc-ribbon domain
  ------ inclusion threshold ------
      0.015   14.4   0.2      0.015   14.3   0.2    1.1  1  DUF4552        Domain of unknown function (DUF4552)
      0.099   12.1   1.2        1.8    8.0   0.2    2.4  2  zf-ribbon_3    zinc-ribbon domain
       0.28   12.1   2.2         16    6.7   0.3    2.5  2  zf-C2H2_4      C2H2-type zinc finger
        1.1    9.4   4.6        1.9    8.6   1.0    2.2  2  zf-C2H2_6      C2H2-type zinc finger
        3.5    8.3   5.0         13    6.4   0.7    2.5  2  zf-C2H2        Zinc finger, C2H2 type


Domain annotation for each model (and alignments):
>> ATP-cone  ATP cone domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.8   0.5   7.1e-17   1.8e-13       2      79 ..      50     128 ..      49     135 .. 0.95

  Alignments for each domain:
  == domain 1  score: 50.8 bits;  conditional E-value: 7.1e-17
                              EEE-TTS-EEE--HHHHHHHHHHHHHH.-HHHHHHHHHHHHHHHHHHHIIT-BHHHHHHHHHHHHHHSS-HHHHHHHHH CS
                 ATP-cone   2 kViKRdGtvepfdvekIkraiekAceg.seeeideiaeeveaevrkrlrdgisteeIqdlvektliehpdyavaaayil 79 
                              kV+K+ G++e++++ek+ r  ekAc + ++ee +++++e+e ++ + +  +i+++eI+++v+k+l++ + +a+++++ +
  PHY93_21165|PHY93_21165  50 KVVKKSGKKEDYSREKLDRCFEKACWKmNREERERLVDEIEMKLLNWKSVEIPSKEIGKMVMKKLRKVDPVAYIRFATV 128
                              8**************************************************************************9876 PP

>> Zn_Tnp_IS1595  Transposase zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   1.4   9.8e-07    0.0025      21      45 ..       3      36 ..       1      37 [. 0.94
   2 ?   -0.1   0.1      0.36   9.1e+02       8      17 ..      68      77 ..      63      80 .. 0.77

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 9.8e-07
            Zn_Tnp_IS1595 21 CPhCgsrkayrikt.........rglfqCkeCrk 45
                             CP+Cg +++  +++         r++ +C +C+k
  PHY93_21165|PHY93_21165  3 CPYCGESESNVLESrdagdgkmtRRRRECVKCKK 36
                             *******999999999****************98 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.36
            Zn_Tnp_IS1595  8 alLealrWpn 17
                             + +e+++W+ 
  PHY93_21165|PHY93_21165 68 RCFEKACWKM 77
                             67999***85 PP

>> DUF4552  Domain of unknown function (DUF4552)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.2     6e-06     0.015     154     211 ..      59     116 ..      15     138 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 6e-06
                  DUF4552 154 nnnerndlstsfEkdcYpassekkgklendyqekilqkniqkypvnsmanipleeLhs 211
                              ++  r++l + fEk c+ ++ e++++l +++  k l+ ++ + p ++++++ +++L +
  PHY93_21165|PHY93_21165  59 EDYSREKLDRCFEKACWKMNREERERLVDEIEMKLLNWKSVEIPSKEIGKMVMKKLRK 116
                              455678999*****************************************99999976 PP

>> zf-ribbon_3  zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   0.2   0.00072       1.8      18      24 ..       2       8 ..       1      10 [. 0.74
   2 ?    2.3   0.1     0.048   1.2e+02       4      10 ..      30      36 ..      28      40 .. 0.78

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.00072
              zf-ribbon_3 18 vCpyCGt 24
                              CpyCG+
  PHY93_21165|PHY93_21165  2 LCPYCGE 8 
                             5888884 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.048
              zf-ribbon_3  4 rCPnCGa 10
                             +C +C++
  PHY93_21165|PHY93_21165 30 ECVKCKK 36
                             8****98 PP

>> zf-C2H2_4  C2H2-type zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.1     0.025        63       3       9 ..       3       9 ..       2      15 .. 0.81
   2 ?    6.7   0.3    0.0061        16       2      15 ..      30      43 ..      29      46 .. 0.85

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.025
                zf-C2H2_4 3 CpiCgks 9
                            Cp+Cg+s
  PHY93_21165|PHY93_21165 3 CPYCGES 9
                            ****987 PP

  == domain 2  score: 6.7 bits;  conditional E-value: 0.0061
                zf-C2H2_4  2 kCpiCgksFsskka 15
                             +C  C+k+F+++++
  PHY93_21165|PHY93_21165 30 ECVKCKKRFTTYER 43
                             7********99875 PP

>> zf-C2H2_6  C2H2-type zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.1     0.079     2e+02       4      10 ..       3       9 ..       2       9 .. 0.89
   2 ?    8.6   1.0   0.00074       1.9       2      14 ..      29      41 ..      28      42 .. 0.90

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.079
                zf-C2H2_6  4 CsvCsks 10
                             C++C++s
  PHY93_21165|PHY93_21165  3 CPYCGES 9 
                             ****986 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.00074
                zf-C2H2_6  2 heCsvCsksFpsl 14
                              eC  C+k+F ++
  PHY93_21165|PHY93_21165 29 RECVKCKKRFTTY 41
                             59**********9 PP

>> zf-C2H2  Zinc finger, C2H2 type
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.3   0.3     0.053   1.4e+02       3       9 ..       3       9 ..       2       9 .. 0.89
   2 ?    6.4   0.7    0.0053        13       2      12 ..      30      40 ..      30      44 .. 0.88

  Alignments for each domain:
  == domain 1  score: 3.3 bits;  conditional E-value: 0.053
                            ETTTTEE CS
                  zf-C2H2 3 CpdCgks 9
                            Cp+Cg+s
  PHY93_21165|PHY93_21165 3 CPYCGES 9
                            *****86 PP

  == domain 2  score: 6.4 bits;  conditional E-value: 0.0053
                             EETTTTEEESS CS
                  zf-C2H2  2 kCpdCgksFkr 12
                             +C +C+k+F++
  PHY93_21165|PHY93_21165 30 ECVKCKKRFTT 40
                             5********98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (145 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1120  (0.0624686); expected 358.6 (0.02)
Passed bias filter:                      529  (0.0295053); expected 358.6 (0.02)
Passed Vit filter:                        55  (0.00306766); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.44u 0.26s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1053.56
//
Query:       PHY93_21170|PHY93_21170  [L=628]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   1.6e-151  505.4   0.0   1.1e-149  499.4   0.0    2.0  1  Ribonuc_red_lgC  Ribonucleotide reductase, barrel domain
      2e-22   79.0   0.0    5.1e-22   77.7   0.0    1.7  1  Ribonuc_red_lgN  Ribonucleotide reductase, all-alpha domain
  ------ inclusion threshold ------
       0.11   12.5   1.0        5.7    6.9   0.1    2.5  2  Cauli_AT         Aphid transmission protein


Domain annotation for each model (and alignments):
>> Ribonuc_red_lgC  Ribonucleotide reductase, barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  499.4   0.0  1.8e-153  1.1e-149       1     524 []      93     611 ..      93     611 .. 0.92

  Alignments for each domain:
  == domain 1  score: 499.4 bits;  conditional E-value: 1.8e-153
                              EEE.....BSS-EEEE-X..............XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC   1 ssCfvlsvedslesIletvkeaallskaggGvGlnlsklRakgslvkgtegaasGpvsfmklidavadvvkqgGkRrGAamvylev 86 
                              s+Cfvl +eds+esIlet++++a+++k+ggG+G+++++lR+ g+++k+ +g++ Gpvsfm+ +++v+  vkqgG+RrGA+m++l++
  PHY93_21170|PHY93_21170  93 SACFVLPIEDSMESILETMSNMAMIHKSGGGTGFSFTRLRPYGDYIKSSGGTTVGPVSFMQAYNDVTAQVKQGGVRRGANMGMLSI 178
                              79************************************************************************************ PP

                              XXXXXXXXXXXXXXXXX..XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX..XXX........................XXX.... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxx........................xxxxxxx RF
          Ribonuc_red_lgC  87 wHpDiekfidaKekntgeeenrlsnlnisvgvpdlFmeavkedkdwtLfs..Prt........................vvklekl 146
                              +HpD++ f  +K       e +l+n+nis+ v+d Fm++++edk++   +  P++                        v+kl+  
  PHY93_21170|PHY93_21170 179 DHPDVLRFAVVKLD-----EWSLTNFNISLAVTDAFMQKLEEDKKFVENDeiPEEvveeirlaegirgmderlrqvevgVKKLY-- 257
                              ************66.....666***********************998888999866666665555555555555533323322.. PP

                              .........................XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.. CS
                              xx....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC 147 yg....eefeeeyeeleekakikkkevkakeLfeeiaesawetgePgvlfkDtiNrrnvlekakggkIratNlCgEiplleyesva 228
                                    +++ e y+ ++ +   ++ + +a ++f+ + + aw+ g+Pg++f+D++N+ + +    +g+I+atN+CgE+pll+y++  
  PHY93_21170|PHY93_21170 258 -EwaeaKQIGEGYDLINPRDGQSRMKLNAYKVFNLVTRLAWQFGDPGLVFIDRMNAPSSNPIPAVGRIEATNPCGEQPLLPYDA-- 340
                              .233335577777777777666689***********************************************************.. PP

                              .XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC 229 vCnLasinLakfvkkdeegkkefdwdelkkviqlvvraLdnvidvnkyplpeiekntkktRriGlGvmgladalaklgipydseea 314
                               CnL+s+nL+kfv       ++ +w+elk +i+l+v +Ldnv++vn++p+++i++  ++tRriGlG+mg+adal+klgi+yds+e+
  PHY93_21170|PHY93_21170 341 -CNLGSLNLSKFV-----AGNDLNWNELKGTINLAVHFLDNVVEVNQFPVQKIREMVSNTRRIGLGIMGFADALFKLGIRYDSDEG 420
                              .************.....4679**************************************************************** PP

                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX......XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC 315 lkfarkitelltyyaykaSvelAkergpfplfekskyskgilpvdefeekekedweeLreeikkyGlrnamvtalaPTgsiSliag 400
                              +++a+ki++++t  a +a ++lA+ rg+fp ++ks y+                          y  rn  +t++aPTg+iS++a+
  PHY93_21170|PHY93_21170 421 IEWAKKIMKFVTESAKEATCKLAESRGVFPFWDKSVYAGTD-----------------------YKPRNMALTTIAPTGTISMVAD 483
                              *************************************9883.......................335******************* PP

                              XXXXXXXXXXXXXXXXXXXXX.XXXXXXXXXXXXXXXXXXXXXXXXXXXXX...XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC 401 tssgiePifalvykksvtvge.flevnpvfeeeLkklglwseellkkiles...vqgleeipeeikrvfktaldidqedhikaqaa 482
                              tssgieP+f+l y+k++++g+ ++ v pv++e+Lk++g++seel +ki ++    +g++eip+e+k+vf tal+id+e+hik+qaa
  PHY93_21170|PHY93_21170 484 TSSGIEPVFSLGYQKNTVEGKtLYAVSPVLVEKLKEKGIYSEELVEKIVKNggtLKGIDEIPDELKNVFITALEIDPEWHIKLQAA 569
                              *******************986899***********************555566******************************** PP

                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC 483 iqkwidqsiSktinlpneatvedvkelyllAwklGlKgvtyY 524
                               q++ d+++Sktinlp+ea v+dv ++yll++ lG Kg+t+Y
  PHY93_21170|PHY93_21170 570 FQEFTDNAVSKTINLPEEAVVDDVRKAYLLSYSLGTKGITIY 611
                              ****************************************99 PP

>> Ribonuc_red_lgN  Ribonucleotide reductase, all-alpha domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.7   0.0   8.5e-26   5.1e-22       3      83 .]       9      90 ..       8      90 .. 0.93

  Alignments for each domain:
  == domain 1  score: 77.7 bits;  conditional E-value: 8.5e-26
          Ribonuc_red_lgN  3 ltynalkvledrYllkdengeivEspqqmfmRvAlalaiaealyd.kleedkdlaeefydlmssqkflpasPtlmnaGtelg 83
                             l+ na  + e rY lkde+g+i+E + ++f+RvA+++a  ++++   +e+ + +ae fy+lm++qkflp++P+l naG++++
  PHY93_21170|PHY93_21170  9 LSDNAKYIAETRYSLKDEDGKILEKVGDIFWRVAINVAKGDQNFGgNEESINRMAENFYNLMAEQKFLPNTPCLVNAGKKYQ 90
                             567888999******************************9996666899*****************************9975 PP

>> Cauli_AT  Aphid transmission protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.9   0.1   0.00095       5.7     126     161 ..     221     256 ..     192     257 .. 0.79
   2 ?    3.6   0.1    0.0092        55     127     161 ..     514     551 ..     507     553 .. 0.89

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.00095
                 Cauli_AT 126 etkklaekivtekllkeevkdlderlseirdslkai 161
                              e+ +++e++v e  l e ++ +derl++++ ++k++
  PHY93_21170|PHY93_21170 221 ENDEIPEEVVEEIRLAEGIRGMDERLRQVEVGVKKL 256
                              4568999999999999*****************985 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.0092
                 Cauli_AT 127 tkklaek.ivtekllkeevkd..lderlseirdslkai 161
                              ++kl+ek i +e+l++++vk+  + + + ei d+lk++
  PHY93_21170|PHY93_21170 514 VEKLKEKgIYSEELVEKIVKNggTLKGIDEIPDELKNV 551
                              57899999************8556799*********98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (628 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       548  (0.030565); expected 358.6 (0.02)
Passed bias filter:                      495  (0.0276089); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.65u 0.28s 00:00:00.93 Elapsed: 00:00:00.42
# Mc/sec: 4467.26
//
Query:       PHY93_21175|PHY93_21175  [L=89]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    9.3e-17   61.2   0.1      1e-16   61.0   0.1    1.0  1  Ribosomal_L22  Ribosomal protein L22p/L17e


Domain annotation for each model (and alignments):
>> Ribosomal_L22  Ribosomal protein L22p/L17e
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.0   0.1   5.8e-21     1e-16       2      83 ..       6      89 .]       5      89 .] 0.93

  Alignments for each domain:
  == domain 1  score: 61.0 bits;  conditional E-value: 5.8e-21
                             EEEEESS-HHHHHHHHHHHTTSBHHHHHHHHHT.-SSTTHHHHHHHHHHHHHHHH..HT.-GGGEEEEEEEEEEEEEEEEEEEE CS
            Ribosomal_L22  2 kgsnlrvsfkklrevarlIrgmkveeAlkyLkf.skkkaakfvlklLknaeanaelkgl.dvdslvIeeiqvnkgpklkrrtyr 83
                             k +n+ + ++k+r+v++lIr++k++eA+k+L+f +kk+ a  + kl+++  a a ++++ d d++v+ +i+ ++gp+lkr+++r
  PHY93_21175|PHY93_21175  6 KNNNVGIAPRKIRQVCDLIRNKKASEAIKILRFcEKKEIAIVLTKLINSGLAIANESNKyDLDNIVVGTIFTDEGPMLKRIMPR 89
                             678999***************************999*************88888666666**********************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (89 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       539  (0.030063); expected 358.6 (0.02)
Passed bias filter:                      434  (0.0242066); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 688.95
//
Query:       PHY93_21180|PHY93_21180  [L=92]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      7e-36  122.0   0.3    7.8e-36  121.8   0.3    1.0  1  Ribosomal_S19  Ribosomal protein S19


Domain annotation for each model (and alignments):
>> Ribosomal_S19  Ribosomal protein S19
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  121.8   0.3   4.4e-40   7.8e-36       1      81 []       3      85 ..       3      85 .. 0.95

  Alignments for each domain:
  == domain 1  score: 121.8 bits;  conditional E-value: 4.4e-40
                             .HHHSSTTCCCHHHHHHHHHH..TS-----EEES-TT-B--GGGTT-EEEEE-SSSEEEEE--CCCTTSBCGGGT-SS----S CS
            Ribosomal_S19  1 rslkkgpfvqesllkkvrkak..aekkkevikthsRdstIlPemvgltvgVynGktfvpveikeemvGhkLgEFspTrkpvkh 81
                             rslkkgpfv+ +llkkv + +  ++k+ +vikt+sR+st++Pe++g t++V+nGk+f+pv+++++m+GhkLgEF++Tr++ +h
  PHY93_21180|PHY93_21180  3 RSLKKGPFVDTHLLKKVIAISndTNKASKVIKTWSRRSTVVPEFIGITFAVHNGKKFIPVYVTDNMIGHKLGEFALTRTFYGH 85
                             89***************9877556669*****************************************************999 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (92 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       393  (0.0219198); expected 358.6 (0.02)
Passed bias filter:                      341  (0.0190195); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 684.09
//
Query:       PHY93_21185|PHY93_21185  [L=272]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.5e-53  178.8   3.5    8.7e-53  177.8   3.5    1.5  1  Ribosomal_L2_C  Ribosomal Proteins L2, C-terminal domain
    1.5e-31  108.1   0.1    1.2e-30  105.2   0.2    2.3  2  Ribosomal_L2    Ribosomal Proteins L2, RNA binding domain


Domain annotation for each model (and alignments):
>> Ribosomal_L2_C  Ribosomal Proteins L2, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  177.8   3.5   9.7e-57   8.7e-53       1     126 []     126     251 ..     126     251 .. 0.99

  Alignments for each domain:
  == domain 1  score: 177.8 bits;  conditional E-value: 9.7e-57
                              SSSS-EBSSSS-TTB-BBSE-SSTTS--SSS-SSSB-EEBB-B.SSEEEEEETTS-EEEEETTSBEBES-BS-TTCTT----STTH CS
           Ribosomal_L2_C   1 kvGnvlplknipeGtivhnielkpgkggklarsaGtyaqvvakegkkvtvklpSgevrkvssecrAtiGvvsngehkekklgkAgr 86 
                              kvGn   l +ip+Gt+vhn+el+pg gg++arsaG+y+qv+akeg+ + +++pSge rkv+s+crAtiG+v+n +h++ + gkAg 
  PHY93_21185|PHY93_21185 126 KVGNSKLLTDIPVGTLVHNVELNPGAGGQIARSAGSYVQVMAKEGEVALLRMPSGELRKVKSNCRATIGQVGNLDHEKVNRGKAGI 211
                              68************************************************************************************ PP

                              HHHTTBS----SSSS-TTTSSS--SSSS--SSSSTEETTC CS
           Ribosomal_L2_C  87 krwlgrrpkvrGvamnpvdHphGGGeGktksrkapvspwg 126
                              +r+lg+rp+vrGv+mnpvdHp+GGGeG+t++ ++p++pwg
  PHY93_21185|PHY93_21185 212 TRKLGIRPTVRGVVMNPVDHPMGGGEGRTSGGRHPCTPWG 251
                              *******************************77******8 PP

>> Ribosomal_L2  Ribosomal Proteins L2, RNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  105.2   0.2   1.4e-34   1.2e-30       1      77 []      43     119 ..      43     119 .. 0.99
   2 ?   -0.6   0.0      0.14   1.3e+03      35      52 ..     140     157 ..     131     161 .. 0.87

  Alignments for each domain:
  == domain 1  score: 105.2 bits;  conditional E-value: 1.4e-34
                              TB-TT--BSSTT--------EE-B--S---SS--EEEEEEE--TT-SS-EEEEEETTTEEEEEE--SS--SS-EE-- CS
             Ribosomal_L2   1 GrnnsgritvrhrggGhkkkyrlidfkrnkekvkgkVveieyDpgRsApiAlvkyedgekryiiapeglkvGdtvvs 77 
                              Grnn+gritvrh+ggG+k+kyr+idfkrnk++++++V+ i yDp+R+ +iAlv+y dg  ++i+ap gl vGd+++s
  PHY93_21185|PHY93_21185  43 GRNNHGRITVRHQGGGVKQKYRIIDFKRNKTEIPATVKAICYDPNRTCNIALVVYADGATSFILAPLGLVVGDVIIS 119
                              9*************************************************************************985 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.14
                              EEEEEEE--TT-SS-EEE CS
             Ribosomal_L2  35 gkVveieyDpgRsApiAl 52 
                                V ++e +pg  ++iA+
  PHY93_21185|PHY93_21185 140 TLVHNVELNPGAGGQIAR 157
                              57999***********98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (272 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       287  (0.0160076); expected 358.6 (0.02)
Passed bias filter:                      247  (0.0137766); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.20s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 2083.42
//
Query:       PHY93_21190|PHY93_21190  [L=94]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.9e-27   93.6   2.8    7.7e-27   93.5   2.8    1.0  1  Ribosomal_L23  Ribosomal protein L23


Domain annotation for each model (and alignments):
>> Ribosomal_L23  Ribosomal protein L23
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   93.5   2.8   4.3e-31   7.7e-27       1      86 []       6      92 ..       6      92 .. 0.97

  Alignments for each domain:
  == domain 1  score: 93.5 bits;  conditional E-value: 4.3e-31
                             SSEEEE--SHHHHHHHTT.E.EEEEE-SS-THHHHHHHHHHHHT--EEEEEEEEE--EBESSSSSEEBE--EEEEEEEESSS-SSS. CS
            Ribosomal_L23  1 dvilkPvitEkstklaek.nkyvFeVakdanKleikkaveklFgVkVekVntlnvkgkkkrvgrkvgrrksyKkaiVtLkegekidl 86
                             dvi+kP+itEk  + ++  n+y F V+++anK +ik+a+e++++VkV +++t++++gk+kr+++++++ +syKka+V+L++g+ki++
  PHY93_21190|PHY93_21190  6 DVIVKPLITEKISADSDAhNRYGFVVSLKANKNQIKNAIESFYDVKVVAIRTAIIPGKTKRTSKSSKKLSSYKKALVQLAQGQKIEF 92
                             79**********99999879*****************************************************************86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (94 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       914  (0.0509789); expected 358.6 (0.02)
Passed bias filter:                      452  (0.0252106); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 707.39
//
Query:       PHY93_21195|PHY93_21195  [L=203]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.1e-50  169.8   2.2    6.1e-50  169.6   2.2    1.0  1  Ribosomal_L4  Ribosomal protein L4/L1 family


Domain annotation for each model (and alignments):
>> Ribosomal_L4  Ribosomal protein L4/L1 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  169.6   2.2   3.4e-54   6.1e-50      12     191 ..      28     202 ..      18     203 .] 0.96

  Alignments for each domain:
  == domain 1  score: 169.6 bits;  conditional E-value: 3.4e-54
                              --HHHHHHHHHHHHHSS-EE------TTTSS---S-SS-SSSSSS---S-TTSTTSTT---SS---S.EEHHHHHHHHHHHHHHHH CS
             Ribosomal_L4  12 irrdlihravvaylanrrqgtastkarsevsgsgrklwkQKGtGrARvgsirspiargGgvahgpkperdystklnkKvrrlAlrs 97 
                              i+  ++h++v+a la+rrqg+a+tk++sev+g+g+k++kQKGtG+AR+gs+rsp++ gGg+++gpk  r++++k+nkKv   Al+s
  PHY93_21195|PHY93_21195  28 INVPVVHQVVKATLASRRQGNAHTKSKSEVRGGGKKPFKQKGTGNARQGSTRSPLMPGGGTVFGPKH-RSFEQKVNKKVVLNALKS 112
                              78889*************************************************************8.****************** PP

                              HHHHHHHTT-EEEES---.-SS--HHHHHHHHHHTT-TTSSEEEEESSSSCHHHHHHTT-TTEEEEESTT--CHHHHHSSEEEEEH CS
             Ribosomal_L4  98 aLsakakqglllvvdnlepleesktkelvellkklglksksvLivvsekdenlvlaarnlpgvevieveslnvydllkadkvvitk 183
                              ++  k  +g+l++vd+l  + + ktk++ +ll +++l   ++Li++ ++ + +++a++nl +++ + v++++vy+ +k+++++i+k
  PHY93_21195|PHY93_21195 113 VVIDKQLAGKLIIVDSL--IATGKTKDIFNLLASKNL--SNALIITLDSASLVIRATKNLRTAKALGVDNMSVYEAVKYENLIIEK 194
                              ***************97..68****************..7888888889************************************* PP

                              HHHHHHHH CS
             Ribosomal_L4 184 saveklee 191
                              +a+ekl++
  PHY93_21195|PHY93_21195 195 QAFEKLAK 202
                              ******87 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (203 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       638  (0.0355848); expected 358.6 (0.02)
Passed bias filter:                      344  (0.0191868); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1531.06
//
Query:       PHY93_21200|PHY93_21200  [L=214]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.7e-20   71.4   5.2    2.6e-17   62.9   1.3    3.1  3  Ribosomal_L3  Ribosomal protein L3
  ------ inclusion threshold ------
       0.12   12.5   0.0       0.19   11.8   0.0    1.3  1  DUF2634       Protein of unknown function (DUF2634)


Domain annotation for each model (and alignments):
>> Ribosomal_L3  Ribosomal protein L3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.2   0.0    0.0019        17      39      59 ..       4      24 ..       1      66 [. 0.79
   2 !   62.9   1.3   2.9e-21   2.6e-17     207     290 ..     105     189 ..      73     192 .. 0.89
   3 !    5.7   0.0   0.00066       5.9     322     344 ..     191     213 ..     188     214 .] 0.87

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.0019
                             TTTXBSEEEEEEEEEEEEEEE CS
             Ribosomal_L3 39 kpvkltaflGyKaGmthiVre 59
                              +++l+a+ G KaGmt++  e
  PHY93_21200|PHY93_21200  4 TKIALNAVFGVKAGMTRVFDE 24
                             5799***********998665 PP

  == domain 2  score: 62.9 bits;  conditional E-value: 2.9e-21
                              ECCCCS-TTSEEEEEEEE---EEE-HHHHCT----STTTSSS.SSS-S-SS-.SSSSS--TTS--SEEESCCEEEEEEEEEEEEET CS
             Ribosomal_L3 207 avaavFrqgeliDvigvtkGkGfeGvvkRWgvkklprkthrg.lRkvaaiga.wdparVsstvaraGqkGyhhRtelnkkiyrigk 290
                              ++ + F +g ++Dv+g  kGkGf Gv+kR+ +++ p+ ++   +R+v++ig    p+rV  + +++G++G  ++t  n  +++++ 
  PHY93_21200|PHY93_21200 105 DF-EAFGPGTYVDVTGESKGKGFAGVMKRYNFRGGPASHGSHfHRRVGSIGNrATPGRVFRGKKMPGHMGVDQKTVQNMVVFEVNL 189
                              44.469**********************************999********8357***************************9995 PP

  == domain 3  score: 5.7 bits;  conditional E-value: 0.00066
                              SCEEEEES--SSSTTEEEEEEE- CS
             Ribosomal_L3 322 ndfilvkGsvpGpkkrlvklrks 344
                              + ++l+kGsvpG k+  +k+ k+
  PHY93_21200|PHY93_21200 191 KGYLLLKGSVPGGKNGFIKIAKA 213
                              5799*************999886 PP

>> DUF2634  Protein of unknown function (DUF2634)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   2.1e-05      0.19      11      65 ..      21      75 ..      16      92 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 2.1e-05
                  DUF2634 11 vlddngklkivdglEalkqwiykalkTeryryliYsenYGveledligkkyskey 65
                             v+d+ng+++ v+ +  +   i  +  T++  y +Y+  YG + e l++k  +  +
  PHY93_21200|PHY93_21200 21 VFDENGNHVPVTVIKIIPNLITQVKTTDKDGYNAYQIGYGEKREALLNKPNKGIL 75
                             6899*******************************************99433334 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (214 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       284  (0.0158403); expected 358.6 (0.02)
Passed bias filter:                      246  (0.0137208); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 1636.43
//
Query:       PHY93_21205|PHY93_21205  [L=100]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.5e-38  129.8   0.2    3.9e-38  129.6   0.2    1.0  1  Ribosomal_S10  Ribosomal protein S10p/S20e


Domain annotation for each model (and alignments):
>> Ribosomal_S10  Ribosomal protein S10p/S20e
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  129.6   0.2   2.2e-42   3.9e-38       1      97 [.       7     100 .]       7     100 .] 0.99

  Alignments for each domain:
  == domain 1  score: 129.6 bits;  conditional E-value: 2.2e-42
                              EEEEEESSHHHHHHHHHHHHHHTTSSS-EE---EEEEEEEEEEEEE--SS--S--EEEEEEEEEEEEEEEE.E-HHHHHHHS-... CS
            Ribosomal_S10   1 rirlkSydsklLekavkkivraakelgikvkgpvplPtkrkrvtvlksphvdkksreqfeirthkRlidisdatketidtllkllq 86 
                              ri+l++yd+klL+ +v++iv++ake+g++v gp+plPt+  ++tvl+sph+dkksreqfe+rthkRl+di ++t++tid+l+k   
  PHY93_21205|PHY93_21205   7 RIKLRAYDHKLLDTSVNEIVQTAKETGARVAGPIPLPTEINKFTVLRSPHIDKKSREQFEMRTHKRLVDIIEPTQQTIDQLMK--- 89 
                              8**********************************************************************************... PP

                              S---SS-EEEE CS
            Ribosomal_S10  87 lnlpegVsvev 97 
                              l+l +gV+ve+
  PHY93_21205|PHY93_21205  90 LDLSSGVDVEI 100
                              *********97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (100 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       658  (0.0367003); expected 358.6 (0.02)
Passed bias filter:                      496  (0.0276647); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.20s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 769.07
//
Query:       PHY93_17415|PHY93_17415  [L=128]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (128 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       504  (0.0281109); expected 358.6 (0.02)
Passed bias filter:                      428  (0.0238719); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 942.10
//
Query:       PHY93_21210|PHY93_21210  [L=39]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (39 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       189  (0.0105416); expected 358.6 (0.02)
Passed bias filter:                      143  (0.0079759); expected 358.6 (0.02)
Passed Vit filter:                         5  (0.000278878); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.22s 00:00:00.60 Elapsed: 00:00:00.39
# Mc/sec: 297.31
//
Query:       PHY93_17420|PHY93_17420  [L=194]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (194 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       457  (0.0254894); expected 358.6 (0.02)
Passed bias filter:                      384  (0.0214178); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.19s 00:00:00.67 Elapsed: 00:00:00.39
# Mc/sec: 1484.64
//
Query:       PHY93_17425|PHY93_17425  [L=184]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (184 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       285  (0.015896); expected 358.6 (0.02)
Passed bias filter:                      260  (0.0145016); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.38
# Mc/sec: 1438.96
//
Query:       PHY93_17430|PHY93_17430  [L=524]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
       0.13   12.6   4.8       0.45   10.9   4.8    1.9  1  DUF349          Domain of Unknown Function (DUF349)
       0.27   11.3   7.6          1    9.5   7.6    2.0  1  bZIP_1          bZIP transcription factor
       0.64   10.3   2.9       0.48   10.6   0.9    1.8  2  OrfB_IS605      Probable transposase
        1.3    9.4   5.7        1.2    9.5   0.2    2.7  3  Lzipper-MIP1    Leucine-zipper of ternary complex factor MIP1
        2.6    8.6  10.7        4.2    7.9   7.0    2.9  2  ZapB            Cell division protein ZapB


Domain annotation for each model (and alignments):
>> DUF349  Domain of Unknown Function (DUF349)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   4.8   0.00012      0.45      13      56 ..     162     205 ..     159     227 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00012
                   DUF349  13 fferrkahfeeqdaereenlekKealieeaealaksttdwksat 56 
                               +e+ + ++ee+ + + e l++++al ee+++lak+ + +++++
  PHY93_17430|PHY93_17430 162 LKEKYENYQEELARRYSETLDQRNALKEEIKKLAKERSPLEKTR 205
                              689999***************************99865444443 PP

>> bZIP_1  bZIP transcription factor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   7.6   0.00028         1      19      61 ..     161     203 ..     150     206 .. 0.84

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00028
                              HHHHHHHHHHHHHHHH.HHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                   bZIP_1  19 rsRqRKqaeieeLerr.vkaLekeNksLkseleelkkevekLks 61 
                              +  ++ + ++eeL+rr +++L++ N+ Lk+e+++l+ke++ L++
  PHY93_17430|PHY93_17430 161 KLKEKYENYQEELARRySETLDQRNA-LKEEIKKLAKERSPLEK 203
                              66677899*******94577999998.***********998876 PP

>> OrfB_IS605  Probable transposase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0       2.3   8.1e+03      34      54 ..      46      66 ..      41      72 .. 0.80
   2 ?   10.6   0.9   0.00014      0.48      26      98 ..     142     215 ..     139     227 .. 0.69

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 2.3
               OrfB_IS605 34 edgtwflykgrrlksdykyla 54
                             ++ ++ +++++++ks +k+++
  PHY93_17430|PHY93_17430 46 NESDTQIFSSAQIKSLFKEYQ 66
                             455789999999999999986 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 0.00014
               OrfB_IS605  26 nnLatvvtedgtwflykgrrlksdykylakeiaelqsklkksknykkasrklarlhrkrs...rrrkhllhklath 98 
                               n++ +  ++ ++ +y+  +lk++y+++++e a+  s + +++   + ++++++l ++rs   ++rk+ll +l ++
  PHY93_17430|PHY93_17430 142 DNFLKLKGKKNESLFYSQPKLKEKYENYQEELARRYSETLDQR--NALKEEIKKLAKERSpleKTRKDLLFELDKA 215
                              56777777777776666679*********99888777777776..5777777777777652227788877666555 PP

>> Lzipper-MIP1  Leucine-zipper of ternary complex factor MIP1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.2   0.00032       1.2      14      66 ..      17      71 ..      14      77 .. 0.90
   2 ?    1.4   0.6      0.11   4.1e+02       5      30 ..     183     208 ..     179     239 .. 0.70
   3 ?   -2.7   0.0       2.2   7.8e+03      45      58 ..     438     451 ..     433     452 .. 0.76

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00032
             Lzipper-MIP1 14 eqLqerLqeeeklrraLekal..ssssdgsllslstllpkkakellkeiallEee 66
                             +qL+er    ++lr  Le+ +  s++++++++ ++ ++  ++k l ke  l+E +
  PHY93_17430|PHY93_17430 17 AQLKERTPASFELRPTLEDVMsiSATEKSNESDTQIFSSAQIKSLFKEYQLIEST 71
                             6899999999***********998888999999999************9999987 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.11
             Lzipper-MIP1   5 krssLeqeveqLqerLqeeeklrraL 30 
                              +r +L++e+++L ++ +  ek+r+ L
  PHY93_17430|PHY93_17430 183 QRNALKEEIKKLAKERSPLEKTRKDL 208
                              6889999**99998766666666655 PP

  == domain 3  score: -2.7 bits;  conditional E-value: 2.2
             Lzipper-MIP1  45 lstllpkkakellk 58 
                              ++++l++k k+l+ 
  PHY93_17430|PHY93_17430 438 PKSFLDQKLKQLID 451
                              56788899999986 PP

>> ZapB  Cell division protein ZapB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9   7.0    0.0012       4.2       7      46 ..     171     219 ..     164     242 .. 0.75
   2 ?    0.2   0.0       0.3   1.1e+03      52      65 ..     311     324 ..     284     328 .. 0.75

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.0012
                     ZapB   7 eqLEskiqkaidtitlLqmeieeLkeeneelkeenrele.........e 46 
                              e+L  ++++++d+  +L++ei++L +e + l++  + l          e
  PHY93_17430|PHY93_17430 171 EELARRYSETLDQRNALKEEIKKLAKERSPLEKTRKDLLfeldkaipdE 219
                              6899999999999999999999999999999999999985555554442 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.3
                     ZapB  52 keereawqerlkkL 65 
                               +++ +w++rl++L
  PHY93_17430|PHY93_17430 311 VKNQGSWNRRLRSL 324
                              38999******997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (524 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1396  (0.0778627); expected 358.6 (0.02)
Passed bias filter:                      707  (0.0394333); expected 358.6 (0.02)
Passed Vit filter:                        86  (0.0047967); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.66u 0.27s 00:00:00.93 Elapsed: 00:00:00.43
# Mc/sec: 3627.16
//
Query:       PHY93_17435|PHY93_17435  [L=390]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      4e-12   45.9   0.1    1.8e-09   37.2   0.0    2.1  2  Catalase  Catalase


Domain annotation for each model (and alignments):
>> Catalase  Catalase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.2   0.0     1e-13   1.8e-09      40     142 ..      81     190 ..      66     202 .. 0.85
   2 !    7.0   0.0   0.00016       2.8     228     294 ..     257     318 ..     222     371 .. 0.85

  Alignments for each domain:
  == domain 1  score: 37.2 bits;  conditional E-value: 1e-13
                              ------SS--SEEEEEEEEEESS-..-TTT---GGGSSTT.-EEEEEEEEE-SS--TT--SSSSS--EEEEEEE....ETTEEEEE CS
                 Catalase  40 eripeRvvhAkGagahgeFevtkd..isdltkakllskvg.kktpvlvRfStvagekgsadtaRdvrGfavkfy....TeeGnwDl 118
                               r   R  h k +g+   F   +   + +  ++ ++sk + ++ + ++RfS    ++ +ad   dvrG+a+k+      ++G  D+
  PHY93_17435|PHY93_17435  81 SRLMKRDAHPKHHGCVKAFLQVDAsaLPKEQQVGVFSKNNqQEFKSFIRFSNGNPDSTKADKDGDVRGMAIKLMniagANSGSQDF 166
                              68889999*******999976654346777888899886515689***************************98444458899*** PP

                              EEESSSS-S-S-GGGHHHHHHHHS CS
                 Catalase 119 vgnntpvFfirDpikfpdlihsqk 142
                              +  n   Ffi+D+ ++ d+++++ 
  PHY93_17435|PHY93_17435 167 LLMNSKTFFIKDSDEYLDFMKATE 190
                              ********************9976 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.00016
                              HH-TTHHHHHHHHHHHTT---EEEEEEEEEEHHHHTTTHHHHT-TT----TTTS--EEEEEEEEEE- CS
                 Catalase 228 gedpdyatrdLyeaiekgeypewelyvqvmteeeaeklrfnilDlTkvwpekevplrevGkltLnrn 294
                              + +p++ +++L+++++++e   ++++vq+ t+ ++    + + D+T  w+ek+ p ++v ++ + ++
  PHY93_17435|PHY93_17435 257 NPSPNFLREKLVNTLSEKE-ACFDFFVQINTNPKT----MPVEDPTVEWNEKDSPYIKVATIRIPKQ 318
                              4578999999*99999876.579*****9776654....5678*****************9987665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (390 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       443  (0.0247086); expected 358.6 (0.02)
Passed bias filter:                      377  (0.0210274); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 2823.56
//
Query:       PHY93_05345|PHY93_05345  [L=142]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-21   76.9   0.7    4.6e-10   39.8   0.1    2.1  2  CBS       CBS domain
     0.0024   17.9   0.1      0.094   12.8   0.0    2.1  2  PRC       PRC-barrel domain


Domain annotation for each model (and alignments):
>> CBS  CBS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.8   0.1   5.1e-14   4.6e-10       1      52 [.      23      74 ..      23      77 .. 0.96
   2 !   35.8   0.1     9e-13     8e-09       5      56 ..      88     139 ..      82     140 .. 0.92

  Alignments for each domain:
  == domain 1  score: 39.8 bits;  conditional E-value: 5.1e-14
                             HHHHSBSSCEEEETTSBHHHHHHHHHHHTSSEEEEEETTTBEEEEEEHHHHH CS
                      CBS  1 VgdimtrdvvtvppdttleealelmrekgvsrlPVVdedgklvGivtlrDll 52
                             V+++m ++v+ ++ d +++  +e++r +++s+ P+Vd ++k++G+++++Dll
  PHY93_05345|PHY93_05345 23 VSQYMDTPVLLLKSDFSIKSTIEIFRTHHISGAPIVDYQDKIIGVISEHDLL 74
                             899**********************8888**********************8 PP

  == domain 2  score: 35.8 bits;  conditional E-value: 9e-13
                              SBSSCEEEETTSBHHHHHHHHHHHTSSEEEEEETTTBEEEEEEHHHHHHHHH CS
                      CBS   5 mtrdvvtvppdttleealelmrekgvsrlPVVdedgklvGivtlrDllrall 56 
                                +++ +++pdttl+e+l ++ + ++  +P++++++ ++G+v++ D+l++++
  PHY93_05345|PHY93_05345  88 FKTNITSIHPDTTLKEVLVIFYKQKLKWMPIINKENYVLGVVSRIDVLNFIA 139
                              568999**************98888***********999**********986 PP

>> PRC  PRC-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.8   0.0   1.1e-05     0.094       3      38 ..      46      83 ..      44     101 .. 0.89
   2 ?    3.3   0.0      0.01        90       4      28 ..     108     132 ..     105     136 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 1.1e-05
                             ECCS---TT-EEEETTSSEEEEE..EEEEEETTTTEEE CS
                      PRC  3 efrasdliGkeVytedGeklGkV..kDvvidekegrvr 38
                              fr + + G ++++ +++++G++   D++i  ++g++ 
  PHY93_05345|PHY93_05345 46 IFRTHHISGAPIVDYQDKIIGVIseHDLLIQAASGQLS 83
                             689999*****************999999999998875 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.01
                              CCS---TT-EEEETTSSEEEEEEEE CS
                      PRC   4 frasdliGkeVytedGeklGkVkDv 28 
                              f+  +l+ +++++ ++  lG+V+ +
  PHY93_05345|PHY93_05345 108 FYKQKLKWMPIINKENYVLGVVSRI 132
                              78889999**************877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (142 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       338  (0.0188521); expected 358.6 (0.02)
Passed bias filter:                      240  (0.0133861); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 1090.04
//
Query:       PHY93_17440|PHY93_17440  [L=149]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (149 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       478  (0.0266607); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.20s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1139.90
//
Query:       PHY93_21455|PHY93_21455  [L=330]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    0.00041   20.3   0.1     0.0009   19.2   0.1    1.6  1  TraG-D_C         TraM recognition site of TraD and TraG
  ------ inclusion threshold ------
      0.084   12.7   0.0       0.15   11.9   0.0    1.5  1  CPSase_sm_chain  Carbamoyl-phosphate synthase small chain, CP


Domain annotation for each model (and alignments):
>> TraG-D_C  TraM recognition site of TraD and TraG
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.2   0.1     1e-07    0.0009       3      72 ..     199     262 ..     197     273 .. 0.81

  Alignments for each domain:
  == domain 1  score: 19.2 bits;  conditional E-value: 1e-07
                 TraG-D_C   3 lfllDEfanlgkipdleellstgrsrgislvlilQsiaqleelYgkegaetilgncdvklflgvndeeta 72 
                               +++DEf+n++  + + ++ls++r+ ++ l+++ Q +aql+++ +    ++ilgn+   + +    ++ a
  PHY93_21455|PHY93_21455 199 FLYVDEFQNFAT-EAFIKILSEARKFKLNLIVANQYMAQLDRTIQ----DAILGNVGSLMSFV-VGNQDA 262
                              6899*****987.89**************************9996....799**999999664.333334 PP

>> CPSase_sm_chain  Carbamoyl-phosphate synthase small chain, CPSase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   1.7e-05      0.15      32     103 ..      71     154 ..      23     159 .. 0.69

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 1.7e-05
          CPSase_sm_chain  32 mtGYqeiltDpsYagqilv.ltypliGnyGvneedves..........ekikvaglvvr.elseepsnwraeesLsewlkeeki 103
                              mt   eiltD  Y++q +  lt p++ n   ne +  +             kv  ++ + ++ ++  + +++ +++e++ ++ki
  PHY93_21455|PHY93_21455  71 MTHIVEILTDKNYREQTIAkLTNPTLINFWKNEFNRMDqkfqseavspILNKVGQFISStKIRDTIAHAKSKINIQEIMDQKKI 154
                              78889***********77549****99987743222221222233332122333333321223355555555555665555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (330 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       831  (0.0463495); expected 358.6 (0.02)
Passed bias filter:                      538  (0.0300073); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.39
# Mc/sec: 2533.03
//
Query:       PHY93_21460|PHY93_21460  [L=261]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.1e-13   48.9   0.0    2.3e-12   46.4   0.0    2.0  2  PHP_C     PHP-associated
      1e-09   38.9   0.3    1.6e-09   38.3   0.3    1.6  1  PHP       PHP domain
  ------ inclusion threshold ------
      0.076   12.5   0.0        0.1   12.0   0.0    1.2  1  Tfb4      Transcription factor Tfb4


Domain annotation for each model (and alignments):
>> PHP_C  PHP-associated
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.4   0.0      0.17   9.9e+02       5      19 ..      58      72 ..      57      74 .. 0.82
   2 !   46.4   0.0   3.9e-16   2.3e-12       3      56 .]     168     221 ..     167     221 .. 0.96

  Alignments for each domain:
  == domain 1  score: -0.4 bits;  conditional E-value: 0.17
                    PHP_C  5 rrArrfAeklglpgt 19
                             ++A+ +Aek+g+ ++
  PHY93_21460|PHY93_21460 58 DEALNAAEKYGIIVI 72
                             57999******9765 PP

  == domain 2  score: 46.4 bits;  conditional E-value: 3.9e-16
                    PHP_C   3 aNrrArrfAeklglpgtgGSDAHrleeVGrayTefeepiatpdelleairegrt 56 
                              +N  A+ +A+k+++p +g+SD+H+l+++G + T +  ++++++++++ai+ g+t
  PHY93_21460|PHY93_21460 168 NNFPAQYWAKKNNIPQLGSSDSHHLKQIGLVTTKIFGSVKNWQDIIKAIKYGQT 221
                              5889**********************************************9987 PP

>> PHP  PHP domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.3   0.3   2.7e-13   1.6e-09       1      70 [.      11      81 ..      11     232 .. 0.81

  Alignments for each domain:
  == domain 1  score: 38.3 bits;  conditional E-value: 2.7e-13
                             EEEE--CCC......--.S-H..HHHHHHHHHCT-SEEEEEEEEBTTHHHHHHHHHHHHTTTTSEEEEEEE..... CS
                             xxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                      PHP  1 dlHvHteys......lldgalsieelvkkakelglkaiaiTDhgnlfgyvefykaakkkykagikpiiGleayvad 70
                             dlH+Hte s      +     s+ e vk+ake +l+ iaiTDh+ l g  e+ +aa   +k gi +i G+e++ +d
  PHY93_21460|PHY93_21460 11 DLHNHTEKStsgfwhT--IEHSPIEAVKQAKEINLDGIAITDHNTLKGLDEALNAA---EKYGIIVIPGVEISAKD 81
                             89*******8877542..2334579*******************************...6669********55444 PP

>> Tfb4  Transcription factor Tfb4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   1.7e-05       0.1     120     217 ..     121     218 ..      95     236 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 1.7e-05
                     Tfb4 120 agalslaLcyinrvsklaeaeaeklksRilvvsaskdsalqyipimNviFaaqklkipidvvklggkdsafLqQasdaTkGvylkv 205
                               gal+ a    n +++  ++e  +l+ R+l  +++k +a++ ++++   F aq      ++ +lg++ds  L+Q   +T  ++ +v
  PHY93_21460|PHY93_21460 121 QGALAIAAHPFNPEVSRFKQEPFSLNKRLLEKHSDKIDAIETMNLLGNNFPAQYWAKKNNIPQLGSSDSHHLKQIGLVTTKIFGSV 206
                              5899999888888888889999*********999999999999999999***************99******************** PP

                     Tfb4 206 kepkgllqyLlt 217
                              k+ + +++ +  
  PHY93_21460|PHY93_21460 207 KNWQDIIKAIKY 218
                              ***999998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (261 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       607  (0.0338558); expected 358.6 (0.02)
Passed bias filter:                      509  (0.0283898); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.43
# Mc/sec: 1840.45
//
Query:       PHY93_21465|PHY93_21465  [L=406]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (406 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       500  (0.0278878); expected 358.6 (0.02)
Passed bias filter:                      241  (0.0134419); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.20s 00:00:00.73 Elapsed: 00:00:00.40
# Mc/sec: 3055.92
//
Query:       PHY93_21470|PHY93_21470  [L=84]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
     0.0083   16.2   0.8     0.0091   16.0   0.8    1.0  1  Spore_III_AF  Stage III sporulation protein AF (Spore_III_AF)


Domain annotation for each model (and alignments):
>> Spore_III_AF  Stage III sporulation protein AF (Spore_III_AF)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.8   5.1e-07    0.0091      19      85 ..       1      70 [.       1      79 [. 0.76

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 5.1e-07
             Spore_III_AF 19 mkkYvklvlGLllilailsPvlsll...nkdldlelaaesesleeeleeikeegeelkeenkkealeeye 85
                             mkk vk+v+ Ll ++a l+ v+s      ++ +l+ ++ +  +ee+    +e+ +el++++ +++l++ e
  PHY93_21470|PHY93_21470  1 MKKHVKIVVVLLALVATLQAVMSYAgttTPEQELKDKMLEFVKEEKIRLESENHDELEKNQANAILSKLE 70
                             9**********************99733444444446677777777777777888888888777776654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (84 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1252  (0.069831); expected 358.6 (0.02)
Passed bias filter:                      665  (0.0370907); expected 358.6 (0.02)
Passed Vit filter:                        60  (0.00334653); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 633.90
//
Query:       PHY93_21475|PHY93_21475  [L=279]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.5e-18   67.4   0.1    4.4e-08   33.1   0.0    2.1  2  Abhydrolase_1  alpha/beta hydrolase fold
    8.5e-14   51.4   0.0    2.3e-13   50.0   0.0    1.6  1  Hydrolase_4    Serine aminopeptidase, S33
    4.4e-13   50.4   0.0    5.6e-13   50.0   0.0    1.1  1  Abhydrolase_6  Alpha/beta hydrolase family
    2.1e-05   24.1   0.0       0.12   11.9   0.0    2.1  2  Peptidase_S9   Prolyl oligopeptidase family
    2.8e-05   24.3   0.0     0.0001   22.5   0.0    1.9  2  Thioesterase   Thioesterase domain
    4.5e-05   23.2   0.0    0.00051   19.8   0.0    2.0  1  FSH1           Serine hydrolase (FSH1)
    0.00018   21.6   0.0    0.00036   20.6   0.0    1.4  1  Abhydrolase_4  TAP-like protein
  ------ inclusion threshold ------
      0.012   15.4   0.0          4    7.2   0.0    2.2  2  Abhydrolase_5  Alpha/beta hydrolase family
      0.021   14.5   0.0      0.035   13.7   0.0    1.3  1  Esterase       Putative esterase
      0.054   13.4   0.1      0.093   12.6   0.1    1.3  1  ZinT           ZinT (YodA) periplasmic lipocalin-like zinc-re
      0.091   13.3   0.0       0.23   12.0   0.0    1.7  1  DUF3293        Protein of unknown function (DUF3293)


Domain annotation for each model (and alignments):
>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.4   0.3   4.3e-11     7e-08       3      89 ..      26     107 ..      24     114 .. 0.83
   2 !   33.1   0.0   2.7e-11   4.4e-08     168     255 ..     129     260 ..     107     262 .. 0.90

  Alignments for each domain:
  == domain 1  score: 32.4 bits;  conditional E-value: 4.3e-11
                              EEEE-STTT.CGGGGTTGHHHHHHHHTTSEEEEEEETTSTTSSSTTTGB.CHHSHHHHHHHHHHHHHHCTTSSEE.EEEETHHHHH CS
            Abhydrolase_1   3 lvilhGlpg.ssdvwaerglapaLakdgfdvillDlrGvgySspapacinddygtasvaddldrildalgddklt.lvGhSmGGmi 86 
                              l ++hG+ g +sd+ ++  lap  +   fd+  +DlrG+g S++a +   ++y + ++ +d+  i+     + +  + GhS+GGm+
  PHY93_21475|PHY93_21475  26 LYCVHGGMGlGSDSLIG--LAPLSD--IFDLTFIDLRGCGDSEKAQD---EQYDLRDFTNDIIEIVKTVSKGGPRgIFGHSLGGMV 104
                              789**************..986554..9*******************...67877777777777766666666666*********9 PP

                              HHH CS
            Abhydrolase_1  87 ala 89 
                              a  
  PHY93_21475|PHY93_21475 105 AID 107
                              865 PP

  == domain 2  score: 33.1 bits;  conditional E-value: 2.7e-11
                              HCCHHHHHHHCHHHHHHHHHHHHHHHHCCHHHHHHHHHC.............................................TH CS
            Abhydrolase_1 168 krfpssgsdnasslatgalksieqwpttdsaklllrlre.............................................lk 208
                              +r +ss+ + +++++++ ++ +e++++++s+k +++l                                               + 
  PHY93_21475|PHY93_21475 129 WRHESSE-AVQNMNDANLKNVLERYSQNPSDKTIQELATsygpiyfpelekvnakeimsnfhyrndassytsekvypgmnlapdVE 213
                              4444444.78889999999******************************************************************* PP

                              HHHSEEEEEEETTCSSSCHHHHHHHHHCHTSEEEEEEETCSSSHHHH CS
            Abhydrolase_1 209 nvlaptlvisgtsDplvppkaledlaqllpkkrlvvisdagHlafle 255
                              ++++ptlvi+g+ D +vpp  +e+la+ll+k++lv i dagH+ f +
  PHY93_21475|PHY93_21475 214 QISIPTLVIAGNMDVVVPPVCQEELASLLKKSTLVNIKDAGHFPFVT 260
                              *******************************************9975 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.0   0.0   1.4e-16   2.3e-13      32     232 ..      50     255 ..      48     260 .. 0.79

  Alignments for each domain:
  == domain 1  score: 50.0 bits;  conditional E-value: 1.4e-16
              Hydrolase_4  32 favyalDhrGhGrsegkrghvpsfddyvdDlaafvekvkeehpelplfllGhSmGGliallyllrypdkvaglilsaPalkikakl 117
                              f+   +D rG G se ++ ++ ++ d+++D+ ++v++v    ++ p+ ++GhS+GG++a+ +l +    ++  il+++a++ k++ 
  PHY93_21475|PHY93_21475  50 FDLTFIDLRGCGDSEKAQDEQYDLRDFTNDIIEIVKTVS---KGGPRGIFGHSLGGMVAIDLLSHSNL-FQFSILANTAMNDKWRH 131
                              567789*************************99998888...666888*************9988887.************99998 PP

              Hydrolase_4 118 k.appllklllkllgkllpklqv......snnlkadslsrdpevvaayeadplv.hgkitvrl...llelldamkrleeraakitl 192
                              +   +++++    l+++l +++        ++l +++   +  ++++++a++++  ++ +++      e +  +++l  ++++i++
  PHY93_21475|PHY93_21475 132 EsSEAVQNMNDANLKNVLERYSQnpsdktIQELATSYGPIYFPELEKVNAKEIMsNFHYRNDAssyTSEKVYPGMNLAPDVEQISI 217
                              76777777755555555555555555566456666666677778888888888877777776511145556667889999****** PP

              Hydrolase_4 193 PllllhGeaDkvvdpeasrelyerlgskdktlklypglyH 232
                              P+l++ G  D vv+p  ++el+  l+  + tl  ++ + H
  PHY93_21475|PHY93_21475 218 PTLVIAGNMDVVVPPVCQEELASLLK--KSTLVNIKDAGH 255
                              ********************999998..577777777766 PP

>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.0   0.0   3.4e-16   5.6e-13       3     218 ..      28     266 ..      26     268 .. 0.62

  Alignments for each domain:
  == domain 1  score: 50.0 bits;  conditional E-value: 3.4e-16
                              EE--.GC.....GC.HHHHHHHHCCTCEEEEE--TTSTS-GGCS--HHHCHHHHHHHCCTT.....TTSEEEEEETCHHHHHHHHH CS
            Abhydrolase_6   3 llHG.agssassWl.vapLaallaagvhvlapDlpGhGrsdpppldledladlaalldelaa...gggpvvlvGHSlGGalalaaa 83 
                              ++HG  g++++s    apL    ++ +    +Dl+G+G+s+ + ++  dl+d+ + + e+++    ggp  ++GHSlGG++a  ++
  PHY93_21475|PHY93_21475  28 CVHGgMGLGSDSLIgLAPL----SDIFDLTFIDLRGCGDSEKAQDEQYDLRDFTNDIIEIVKtvsKGGPRGIFGHSLGGMVAIDLL 109
                              6886344434444333444....33333356*******8866665555556665555555556777788899************77 PP

                              HCC....EEEEES-..----TTTS----TTHHHHHHTT-C...CCCHCCH...........S-HSCCCCHHH...CCCCHCHCCCG CS
            Abhydrolase_6  84 pla..lvvgvlldppptalpagllaaalelllallallrl...lawlsre...........plprlfladed...adaawrarlar 150
                              ++   + +++l ++   a  + +++   e ++  +++  +    ++++ +           ++++ ++++++   a          
  PHY93_21475|PHY93_21475 110 SHSnlFQFSILANT---AMNDKWRHESSEAVQNMNDANLKnvlERYSQ-NpsdktiqelatSYGPIYFPELEkvnA---------- 181
                              77789668899999...9999997777777776666555523223331.122223333334455455554443321.......... PP

                              HH..................HHCCHHCHTTCCHHTT-TTGCEEE.CTT-CHHHHCHHCCCH..STTEEETCE...SSS-HHHHSHH CS
            Abhydrolase_6 151 la..................allaglgllpaaawadlpvpllvl.ggeDplvprllerlla..qagarlpvvlpgaGHlphleepd 215
                                                  +   ++g + a++++++  p+lv+ g  D +vp+  ++ la  + + +l v +++aGH+p+  +++
  PHY93_21475|PHY93_21475 182 -KeimsnfhyrndassytseKV--YPGMNLAPDVEQISIPTLVIaGNMDVVVPPVCQEELAslLKKSTL-VNIKDAGHFPFVTRNT 263
                              .022222222222222212233..33344566*********999668899***********97777777.************8887 PP

                              HHH CS
            Abhydrolase_6 216 eva 218
                              e++
  PHY93_21475|PHY93_21475 264 EFI 266
                              775 PP

>> Peptidase_S9  Prolyl oligopeptidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.2   0.0   0.00023      0.37      67     128 ..      94     152 ..      56     172 .. 0.69
   2 !   11.9   0.0   7.2e-05      0.12     113     186 ..     187     255 ..     176     276 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00023
                              EEEEETHHHHHHHHHHHH-GGG-SEEEEESE---CCCHHCSTTSTHH.HCCCC--TTTCHHHH CS
             Peptidase_S9  67 aitGgSyGGyltgaalnqrpdlFkaavaevpvvdvlrydsdtdllte.eymewgnpeeneegy 128
                              +i+G+S GG+++  +l  +++lF+  + ++  ++    + ++   ++ + m+  n ++  e y
  PHY93_21475|PHY93_21475  94 GIFGHSLGGMVAIDLLS-HSNLFQFSILANTAMNDKWRHESS---EAvQNMNDANLKNVLERY 152
                              8********99999999.******988877766544444442...223555555555555555 PP

  == domain 2  score: 11.9 bits;  conditional E-value: 7.2e-05
                              H.HCCCC--TTTCHHHHHHHHHH-CGGG-----EEEEEEETT-SSS-THHHHHHHHHHH--S-SEEEEEETTS-S CS
             Peptidase_S9 113 e.eymewgnpeeneegykelspyspldnvkaypplLlihGlaDdrvppaealklvaaLqkkgknvlllifpdegH 186
                              + +y +   +  +e+ y  ++ + ++++  ++ p+L+i G +D  vpp   ++l++ L+k    + l+  +d+gH
  PHY93_21475|PHY93_21475 187 NfHYRNDASSYTSEKVYPGMNLAPDVEQ--ISIPTLVIAGNMDVVVPPVCQEELASLLKK----STLVNIKDAGH 255
                              4456666666667888888888888888..****************************98....66777777777 PP

>> Thioesterase  Thioesterase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.5   0.0   6.3e-08    0.0001       2      82 ..      25     107 ..      24     111 .. 0.84
   2 ?   -1.4   0.0       1.2     2e+03     195     228 ..     238     270 ..     190     272 .. 0.80

  Alignments for each domain:
  == domain 1  score: 22.5 bits;  conditional E-value: 6.3e-08
                              EEEEE--TTC.CSGGGHHHHHHCTTCEEEEEEECSTTST...SHHHCTTCHHHHHHHHHHHHHHH-SSSSEEEEEETHHHHHHHH CS
             Thioesterase   2 pLflfppagG.sasvfrslasklsdpvvevlavqlpgre...rdepplesieelaaeyaealrqiqpegPyalfGhSlGgllAfe 82 
                               L++++++ G ++ +   la  ++    ++ ++ l+g +   + + +  ++ +  + ++e+++++ + gP  +fGhSlGg++A +
  PHY93_21475|PHY93_21475  25 ELYCVHGGMGlGSDSLIGLAPLSDI--FDLTFIDLRGCGdseKAQDEQYDLRDFTNDIIEIVKTVSKGGPRGIFGHSLGGMVAID 107
                              5899999999999999999987776..68888888888754556666778889999***************************76 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 1.2
                              CHCTCESCEEEEEESSHCCHHHSHHHHHHHHHHH CS
             Thioesterase 195 weqktsgevsvhvlegdhfylledrleavleiie 228
                              +++  ++ + v + +++hf  ++ r ++++  i+
  PHY93_21475|PHY93_21475 238 LASLLKKSTLVNIKDAGHFPFVT-RNTEFINSIN 270
                              56667778889999999999997.7777777776 PP

>> FSH1  Serine hydrolase (FSH1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.8   0.0   3.1e-07   0.00051      80     201 ..      70     256 ..      61     266 .. 0.65

  Alignments for each domain:
  == domain 1  score: 19.8 bits;  conditional E-value: 3.1e-07
                     FSH1  80 kneyegleesldavkdyikengpfdGiiGFSqGaalaallaslleellkea......................shpslkfailvsG 143
                              + + +++ + +  +++++++ gp  Gi G S G+++a  l+s  +  +  +                      ++ +lk ++   +
  PHY93_21475|PHY93_21475  70 QYDLRDFTNDIIEIVKTVSKGGP-RGIFGHSLGGMVAIDLLSHSNLFQF-SilantamndkwrhesseavqnmNDANLKNVLERYS 153
                              55556666666667777777775.7888888888888888777664332.235555555555555555555553334444443333 PP

                     FSH1 144 fkleepk..........................................yeeyy...eedkiqtptLhvlGelDtvvdeerseaLa 184
                               ++ +++                                          y  +    + ++i++ptL + G+ D vv++   e+La
  PHY93_21475|PHY93_21475 154 QNPSDKTiqelatsygpiyfpelekvnakeimsnfhyrndassytsekvYPGMNlapDVEQISIPTLVIAGNMDVVVPPVCQEELA 239
                              33333336777777777777777777777777777766666665544442222233566788************************ PP

                     FSH1 185 eafknsskvlkHpggHf 201
                                 k+s+ v   + gHf
  PHY93_21475|PHY93_21475 240 SLLKKSTLVNIKDAGHF 256
                              *****666666667775 PP

>> Abhydrolase_4  TAP-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.6   0.0   2.2e-07   0.00036      34      76 ..     216     258 ..     196     270 .. 0.85

  Alignments for each domain:
  == domain 1  score: 20.6 bits;  conditional E-value: 2.2e-07
            Abhydrolase_4  34 aapvLllqnerDpaTPyegakklakalggavlvtvegeGHgal 76 
                              ++p+L+++++ D ++P+  +++la+ l++++lv  +++GH  +
  PHY93_21475|PHY93_21475 216 SIPTLVIAGNMDVVVPPVCQEELASLLKKSTLVNIKDAGHFPF 258
                              59**************************************655 PP

>> Abhydrolase_5  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.3   0.0    0.0046       7.5      59     102 ..      93     135 ..      76     165 .. 0.68
   2 ?    7.2   0.0    0.0025         4      94     143 ..     210     258 ..     184     261 .. 0.78

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.0046
            Abhydrolase_5  59 fvvgGhslGGvvasrfaaeeekiegvvflasYPekdelselskk 102
                                + GhslGG+va  + ++ +       la   ++d+  ++s +
  PHY93_21475|PHY93_21475  93 RGIFGHSLGGMVAIDLLSHSNL-FQFSILANTAMNDKWRHESSE 135
                              5688********9988766554.345556666666666665555 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.0025
            Abhydrolase_5  94 delselskkvlsivgteDgvlnvkslekakkflpkdtkvvsieGgnhagf 143
                               ++++ s+++l i g+ D v++    e+    l k++++v i+   h  f
  PHY93_21475|PHY93_21475 210 PDVEQISIPTLVIAGNMDVVVPPVCQEEL-ASLLKKSTLVNIKDAGHFPF 258
                              468999************99998765555.55667778999998888655 PP

>> Esterase  Putative esterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   2.1e-05     0.035     111     167 ..      86     139 ..      62     167 .. 0.63

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 2.1e-05
                              SEECCC.EEEEEETHHHHHHHHHHHCSTTTCCEEEEES--S-CC.HCHHHCTTCCHHHC CS
                 Esterase 111 rtapdg.ravaGqSmGGlgALilalkhpdrFgsvssfSpivnps.namWgqeekeawqe 167
                               +++ g r ++G+S+GG++A+ l ++  ++F++ s ++   n+  n  W  e++ea q 
  PHY93_21475|PHY93_21475  86 TVSKGGpRGIFGHSLGGMVAIDLLSH-SNLFQF-SILA---NTAmNDKWRHESSEAVQN 139
                              34444469************988665.566632.2222...222277787766666554 PP

>> ZinT  ZinT (YodA) periplasmic lipocalin-like zinc-recruitment
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.1   5.7e-05     0.093      26      93 ..     132     201 ..     111     209 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 5.7e-05
                              EEEESHHHHHTTTTHHHHHHHHHH-TTS-HHHHHHHHHHHH--SEEEEEEETTEEEEE..ETTEEEEEE- CS
                     ZinT  26 ewqsvypylkdGtldevfekkakekkdktaeeykeyYekGYktdvdkikieddtieft..kngkkkkaeY 93 
                              e       ++d +l +v+e+ +++ +dkt +e+ + Y   Y  +++k++ ++   +f+  ++ ++ ++e 
  PHY93_21475|PHY93_21475 132 ESSEAVQNMNDANLKNVLERYSQNPSDKTIQELATSYGPIYFPELEKVNAKEIMSNFHyrNDASSYTSEK 201
                              44455567899****************************************9888888423333444444 PP

>> DUF3293  Protein of unknown function (DUF3293)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   0.00014      0.23      40      71 ..     123     155 ..     107     156 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00014
                  DUF3293  40 adedgeWs.EesflVlglslaeakeLakkFgQn 71 
                              ++ +++W+ E s +V+++++a++k+  +++ Qn
  PHY93_21475|PHY93_21475 123 TAMNDKWRhESSEAVQNMNDANLKNVLERYSQN 155
                              455667**************************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (279 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       548  (0.030565); expected 358.6 (0.02)
Passed bias filter:                      452  (0.0252106); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.40
# Mc/sec: 2111.77
//
Query:       PHY93_21480|PHY93_21480  [L=449]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-53  181.2   1.5    2.7e-53  180.1   0.6    1.8  2  Sigma54_activat  Sigma-54 interaction domain
    8.1e-14   51.9   0.1      2e-13   50.6   0.1    1.7  1  Sigma54_activ_2  Sigma-54 interaction domain
    2.1e-12   47.2   0.0    6.7e-12   45.6   0.0    1.9  1  Response_reg     Response regulator receiver domain
    1.7e-09   37.8   0.1    3.6e-09   36.8   0.1    1.6  1  AAA_5            AAA domain (dynein-related subfamily)
    1.2e-07   31.4   0.0      3e-07   30.1   0.0    1.7  1  HTH_8            Bacterial regulatory protein, Fis family
    7.4e-07   29.4   0.2    2.8e-06   27.5   0.1    2.0  2  AAA_2            AAA domain (Cdc48 subfamily)
    8.3e-07   29.5   0.1    2.5e-06   27.9   0.1    1.9  1  AAA              ATPase family associated with various cellul
    1.4e-05   24.3   0.9    1.9e-05   23.9   0.1    1.7  2  MCM              MCM P-loop domain
    0.00012   21.7   0.0    0.00031   20.4   0.0    1.6  1  HTH_23           Homeodomain-like domain
    0.00077   18.7   0.2     0.0017   17.6   0.2    1.5  1  DUF815           Protein of unknown function (DUF815)
    0.00084   19.4   0.0     0.0022   18.1   0.0    1.7  1  HTH_28           Helix-turn-helix domain
     0.0018   18.2   0.3     0.0018   18.2   0.3    1.9  2  RsgA_GTPase      RsgA GTPase
     0.0054   16.1   0.3      0.087   12.2   0.3    2.3  1  Mg_chelatase     Magnesium chelatase, subunit ChlI
     0.0099   15.9   0.0      0.045   13.8   0.0    2.1  2  HTH_29           Winged helix-turn helix
  ------ inclusion threshold ------
      0.015   14.8   1.0      0.056   13.0   0.1    2.2  2  AAA_7            P-loop containing dynein motor region
      0.023   14.5   0.1      0.055   13.3   0.1    1.6  1  HTH_30           PucR C-terminal helix-turn-helix domain
      0.025   14.7   0.0      0.083   13.0   0.0    1.8  1  MerR_1           MerR HTH family regulatory protein
      0.033   14.5   0.3          4    7.8   0.1    2.8  2  AAA_19           AAA domain
      0.037   13.3   0.2       0.14   11.4   0.0    2.0  2  AAA_8            P-loop containing dynein motor region D4
      0.039   14.5   0.0       0.12   13.0   0.0    1.7  1  LZ_Tnp_IS481     leucine-zipper of insertion element IS481
      0.073   12.9   0.0       0.25   11.2   0.0    1.9  1  AAA_3            ATPase family associated with various cellul
      0.073   12.8   0.1       0.18   11.5   0.1    1.7  1  IstB_IS21        IstB-like ATP binding protein
      0.075   13.2   1.1       0.29   11.3   0.0    2.6  2  HTH_Tnp_1_2      Helix-turn-helix of insertion element transp
       0.14   12.3   0.0       0.45   10.8   0.0    1.8  1  HTH_17           Helix-turn-helix domain
       0.17   11.0   3.2       0.18   10.9   0.5    2.3  2  G-alpha          G-protein alpha subunit


Domain annotation for each model (and alignments):
>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.0       1.9   1.4e+03     136     163 ..      91     119 ..      85     122 .. 0.78
   2 !  180.1   0.6   3.7e-56   2.7e-53       3     167 ..     138     301 ..     136     302 .. 0.95

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 1.9
                              EEEEEESS-HHHHHH.TTSS-HHHHHHHT CS
          Sigma54_activat 136 riiaatnedleeave.egkfredLyyrln 163
                              r++ a  ++l + ++ eg + +dLy  ln
  PHY93_21480|PHY93_21480  91 RVVEAMRRKLFQFIHkEGDYYADLYSSLN 119
                              89999999999887515789999998887 PP

  == domain 2  score: 180.1 bits;  conditional E-value: 3.7e-56
                              --SHHHHHHHHHHHHHCTSS..S-EEEECSTTSSHHHHHHHHHHHSTTTTS-EEEEETTTS-TTCHHHHHHEBSSSSSTTTSS-BE CS
          Sigma54_activat   3 gesealkelleqikkvaktd..lsvlitGesGtGKellaraiheaskrkekpfvavncaaipeelleseLFGhekGaFtGAekekk 86 
                              ++s+a+ke+l++++++++++  +s+li+Ge+GtGKe l ++i  + k   k++v+ n+a i +e  es+LFGhe+GaFtGA ++k 
  PHY93_21480|PHY93_21480 138 TNSPAVKEVLKKAERIIQNKqdASILILGETGTGKESLVKHIACNMK---KKLVSANMATIGKETAESNLFGHERGAFTGAVQNKI 220
                              68999***********976656*****************99976655...78********************************** PP

                              HHHHHTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEESBTSSSEEE--EEEEEEESS-HHHHHHTTSS-HHHHHHHTSEEE CS
          Sigma54_activat  87 GlfekadgGtlfLDeigelplelQekLlrvlqegevervGsskeikvdvriiaatnedleeaveegkfredLyyrlnviei 167
                              Gl+e+a++G+ fLDeig+ +le+Q+kLlrv+qe+ev+++Gs++ ++++v +iaat+++l+++v++g+fredL+ rln++++
  PHY93_21480|PHY93_21480 221 GLIESANNGMFFLDEIGDCSLEVQSKLLRVIQEREVQPLGSNRARSINVSFIAATHRNLKKMVQNGEFREDLLQRLNTFPL 301
                              *****************************************************************************9976 PP

>> Sigma54_activ_2  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.6   0.1   2.8e-16     2e-13       2     138 .]     138     306 ..     137     306 .. 0.92

  Alignments for each domain:
  == domain 1  score: 50.6 bits;  conditional E-value: 2.8e-16
                              ---HHHHHHHHHHHHHH..T-SS-EEEEEETT--HHHHHHCC--TTS-EE--SSTTHHHH-H....................HHHH CS
          Sigma54_activ_2   2 gasaaiqelkerLeqaa..qsklpvfltGekGsgkelvArlLhknsgpwleifvverlaklp....................ldll 65 
                               +s+a++e  ++ e +   ++ + ++++Ge G+gke+  + ++ n  ++l  +++++ +k++                      l+
  PHY93_21480|PHY93_21480 138 TNSPAVKEVLKKAERIIqnKQDASILILGETGTGKESLVKHIACNMKKKLVSANMATIGKETaesnlfghergaftgavqnkIGLI 223
                              578888888888888873345689******************99999999999999999877788999***********999999* PP

                              HHTTTSEEEEEE-TT--HHHHHHHHHHHHH..........HTTTT-EEEEEEEE-TTT..----HHHHHHHHSSSEEEEE--- CS
          Sigma54_activ_2  66 eqakggtLylkdiadlskaeqkeLlellak..........aeksslrlVstsskdleqlleagafdekLlkeLselrlhvPpL 138
                              e+a++g+++l +i d s + q++Ll ++++          a   ++ +++++ ++l++++++g+f e Ll++L  + l +PpL
  PHY93_21480|PHY93_21480 224 ESANNGMFFLDEIGDCSLEVQSKLLRVIQErevqplgsnrARSINVSFIAATHRNLKKMVQNGEFREDLLQRLNTFPLIIPPL 306
                              *************************************9987789*************************************98 PP

>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.6   0.0   9.3e-15   6.7e-12       1     102 [.       7     108 ..       7     117 .. 0.97

  Alignments for each domain:
  == domain 1  score: 45.6 bits;  conditional E-value: 9.3e-15
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSS..SEHHHHHHHHHHCTTTSEEEEEESSTSHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpg..mdGlellkeireedpelpviiltahseee 84 
                              +li+dDdp +++ l+  l+ +g+ e ++ ++ ++a  ++k++++d  ++D+n +g  +dG++ll+   + +p +  i+l++ ++ +
  PHY93_21480|PHY93_21480   7 ILICDDDPQILKSLQLSLK-SGF-ELHTSSSVAQAKIMAKAHEYDAAIIDLNFEGqeLDGVHLLDYFGKVSPGTYLIVLSGDQSVK 90 
                              8*****************9.9**.******************************9888**************************** PP

                              HHHHHHHCTESEEEESSG CS
             Response_reg  85 davealkagaddflsKpf 102
                               +vea++   ++f++K+ 
  PHY93_21480|PHY93_21480  91 RVVEAMRRKLFQFIHKEG 108
                              ****************85 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.8   0.1     5e-12   3.6e-09       2     124 ..     162     279 ..     161     296 .. 0.76

  Alignments for each domain:
  == domain 1  score: 36.8 bits;  conditional E-value: 5e-12
                              EEEE--SSSSHHHHHHHGGGGB...S--EEEEE--TT--HHHHH--B--.........--------G-SEEEEESGGG--HHHHHH CS
                    AAA_5   2 vlLvGppGtgKselaerlaaal...nreveyvqltrdtteedlkgrreikngttslvdsplvraaregeilvlDEveraesevlns 84 
                              +l++G++GtgK +l++++a  +     + ++  + + t e++l+g+ + +  +++  +  l ++a +  +++lDE+  ++ ev+++
  PHY93_21480|PHY93_21480 162 ILILGETGTGKESLVKHIACNMkkkLVSANMATIGKETAESNLFGHERGAFTGAVQNKIGLIESA-NNGMFFLDEIGDCSLEVQSK 246
                              799*******************6555567788999************954444555555555444.66689*************** PP

                              HHHHHHSSEEE..-SSSEEE---......-EEEEEESS-- CS
                    AAA_5  85 Llslleerrllleeggelvkaknddllerfrviatanpld 124
                              Ll+++ er++++  g ++ +  n      +++ia+++++ 
  PHY93_21480|PHY93_21480 247 LLRVIQEREVQP-LGSNRARSIN------VSFIAATHRNL 279
                              ***********4.4444444445......88999888775 PP

>> HTH_8  Bacterial regulatory protein, Fis family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.1   0.0   4.2e-10     3e-07       7      37 ..     402     432 ..     400     437 .. 0.93

  Alignments for each domain:
  == domain 1  score: 30.1 bits;  conditional E-value: 4.2e-10
                              HHHHHHHHHHTTT-HHHHHHHHTS-HHHHHH CS
                    HTH_8   7 kelIeaALertgGnkskAArlLGisRrtLyr 37 
                              k+ +++A+  ++Gnk++AA +LGi+ rtL+r
  PHY93_21480|PHY93_21480 402 KDELIKAITTCNGNKTQAAAELGINVRTLHR 432
                              56799************************98 PP

>> AAA_2  AAA domain (Cdc48 subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0       3.8   2.7e+03     104     160 ..      63     137 ..      60     140 .. 0.71
   2 !   27.5   0.1   3.9e-09   2.8e-06       3     139 ..     159     287 ..     157     313 .. 0.77

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 3.8
                              H--EE-------EE-TT-EEEEEE--TTHHHHTTTS-S...................TTTTSGGG--HHHHHHTT- CS
                    AAA_2 104 eggtltdkqgrkvdtknilfImtgafgsskisdesrsk...................eeeeekkkeeveeelkkgl 160
                              +g +l d  g kv+    l++++g   +++  ++ r+k                   +++++ kk + +++++k+l
  PHY93_21480|PHY93_21480  63 DGVHLLDYFG-KVSPGTYLIVLSGDQSVKRVVEAMRRKlfqfihkegdyyadlysslNRSTQLKKAKEQQAIQKYL 137
                              5666666666.77777788888888888888887777778888888888888888777777777777777777766 PP

  == domain 2  score: 27.5 bits;  conditional E-value: 3.9e-09
                              ---EEEE--TTSSHHHHHHHHHHHTT-....-EEEEEGGG-------THHHHHHHHH.......TTT-HHHHTTSEEEEETGGG-- CS
                    AAA_2   3 iisilllgptgvGktelakalaellfvkkekkliradaselleeeevehlvsrliga.......ppgyvgaeegGivllDEidKih 81 
                               +sil+lg+tg+Gk+ l k +a  ++    kkl+ a++ ++ +e + ++l  ++ ga       + g ++ +++G+ +lDEi   +
  PHY93_21480|PHY93_21480 159 DASILILGETGTGKESLVKHIACNMK----KKLVSANMATIGKETAESNLFGHERGAftgavqnKIGLIESANNGMFFLDEIGDCS 240
                              689*******************9998....79******9999966666666666665111111144556678888*********** PP

                              -----------HHHHHHHHHHHH--EE-------EE-TT-EEEEEE--TTHHHHTTTS CS
                    AAA_2  82 pkessgadvSregVqrdLLqileggtltdkqgrkvdtknilfImtgafgsskisdesr 139
                                          +Vq  LL+++ + ++++   ++ +  n+ fI+++  + +k  ++ +
  PHY93_21480|PHY93_21480 241 L-----------EVQSKLLRVIQEREVQPLGSNRARSINVSFIAATHRNLKKMVQNGE 287
                              *...........****************998899************999999988444 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.9   0.1   3.5e-09   2.5e-06       1     112 [.     162     280 ..     162     314 .. 0.79

  Alignments for each domain:
  == domain 1  score: 27.9 bits;  conditional E-value: 3.5e-09
                              EEEESSTTSSHHHHHHHHHHHHTHEEEEEETTTCSSS.....STTHHHHHHHHHHHHH....HHTSTSEEEEEETGGGHHHHHTTC CS
                      AAA   1 vllyGppGtGKTllakavakelgvefleisgsellsk.....yvgesekkirelfkea....kekakpsilfiDEidalaksrsgs 77 
                              +l+ G  GtGK +l+k +a +++ ++++ +++++ ++     ++g+    + + +++     ++ +    +f+DEi     +    
  PHY93_21480|PHY93_21480 162 ILILGETGTGKESLVKHIACNMKKKLVSANMATIGKEtaesnLFGHERGAFTGAVQNKigliESAN-NGMFFLDEIGDCSLEV--- 243
                              6899*******************9999999999995578888444444444444444212214444.7**********97666... PP

                              CCHHHHHHHHHHHHHHHHTTTS........SSTEEEEEEESS..G CS
                      AAA  78 eseeeervvnqLlteldgvkkk........eskvivigatnr..p 112
                                      +++Ll+++++ + +        + +v +i+at+r   
  PHY93_21480|PHY93_21480 244 --------QSKLLRVIQEREVQplgsnrarSINVSFIAATHRnlK 280
                              ........*************9*****999777*******99533 PP

>> MCM  MCM P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.9   0.1   2.6e-08   1.9e-05       8     151 ..     104     257 ..      97     305 .. 0.73
   2 ?   -3.1   0.1       4.7   3.4e+03      12      38 ..     354     380 ..     349     398 .. 0.72

  Alignments for each domain:
  == domain 1  score: 23.9 bits;  conditional E-value: 2.6e-08
                              HHTSSTHHHHHHHHSSTTSSS-HH.HHHHHHHHH.....H---EBBBSSSSBBCSS-EEEEEESSTSTHHHHHHHH.....HHHSS CS
                      MCM   8 lakekdiieklvksiapsiyghed.vkkaillql.....fggvkkkledktklrgdinvllvgdpgtaKsqlLkyv.....eklap 82 
                              ++ke d +  l +s+ +s   +++  ++ai   l     ++ v kk+e  ++ + d  +l++g+ gt+K  l+k++     +kl++
  PHY93_21480|PHY93_21480 104 IHKEGDYYADLYSSLNRSTQLKKAkEQQAIQKYLtnspaVKEVLKKAERIIQNKQDASILILGETGTGKESLVKHIacnmkKKLVS 189
                              5666666666666666665543332444554443111114445567777778899*******************994333335666 PP

                              SEEEEESSSSSSSHSSSEEEEESSSSSEEEEETHHHHTTTSEEEEESGGGSTCHHHHHHHHHHHHSEEE CS
                      MCM  83 ravytsgkgssaagLtaavvrdeetgefvleaGalvladkGvcciDefdkmkeedrsalhEamEqqtis 151
                               ++ t gk + ++ L     r   tg +  + G +  a++G+  +De+   + e +s+l+ ++ + +++
  PHY93_21480|PHY93_21480 190 ANMATIGKETAESNLFGH-ERGAFTGAVQNKIGLIESANNGMFFLDEIGDCSLEVQSKLLRVIQEREVQ 257
                              778899999999999887.789999**********************************9999776654 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 4.7
                              STHHHHHHHHSSTTSSS-HHHHHHHHH CS
                      MCM  12 kdiieklvksiapsiyghedvkkaill 38 
                              k++i+++v    ++i+  ++vk+ai +
  PHY93_21480|PHY93_21480 354 KSVIQRFVVLSNKTILDADAVKTAIGM 380
                              567777777778888899999999865 PP

>> HTH_23  Homeodomain-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.4   0.0   4.3e-07   0.00031      19      42 ..     415     438 ..     401     442 .. 0.90

  Alignments for each domain:
  == domain 1  score: 20.4 bits;  conditional E-value: 4.3e-07
                   HTH_23  19 svreIAreLgvsrrTvyrwlkryr 42 
                              +++++A+eLg++ rT+ rw+++++
  PHY93_21480|PHY93_21480 415 NKTQAAAELGINVRTLHRWVNKFN 438
                              5789******************97 PP

>> DUF815  Protein of unknown function (DUF815)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.2   2.3e-06    0.0017      36      81 ..     142     187 ..     111     201 .. 0.78

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 2.3e-06
                   DUF815  36 qkealventeqfleglpannvLLwGarGtGKSslvkallneyaeeg 81 
                                +++++ +e+ +++++   +L+ G+ GtGK slvk +  +++++ 
  PHY93_21480|PHY93_21480 142 AVKEVLKKAERIIQNKQDASILILGETGTGKESLVKHIACNMKKKL 187
                              345677889999999999*******************998887764 PP

>> HTH_28  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.0   3.1e-06    0.0022       7      37 ..     407     438 ..     403     439 .. 0.84

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 3.1e-06
                   HTH_28   7 kllaaGh.svreaArelgisrrtvyrWikrye 37 
                              k++  ++ + ++aA+elgi+ rt+ rW+++++
  PHY93_21480|PHY93_21480 407 KAITTCNgNKTQAAAELGINVRTLHRWVNKFN 438
                              55555666889*******************98 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.3   2.5e-06    0.0018      57     142 ..     113     201 ..      83     213 .. 0.69
   2 ?   -1.6   0.1       3.2   2.3e+03      52      97 ..     389     434 ..     356     439 .. 0.69

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 2.5e-06
                              GG--HHHHHHHHHHHHHHTTSEEEE--TTTH....TTHHHHHHHCTTSEEEEECSTTSSHHHHHHHHCTT-----S------.--- CS
              RsgA_GTPase  57 Dlleeeeeleelkeelealgyevllvsaktk....egleelkellkdktsvlvGqSGvGKStLinallpelelktgevsekl.grG 137
                              Dl+++ ++ ++lk++ e+  ++ +l+++       +++e++ ++ +d  ++++G++G GK +L+++++ +++ k   vs+++   G
  PHY93_21480|PHY93_21480 113 DLYSSLNRSTQLKKAKEQQAIQKYLTNSPAVkevlKKAERIIQNKQDASILILGETGTGKESLVKHIACNMKKKL--VSANMaTIG 196
                              555555544444444444444444443322111126778888888999999*****************9965554..554431457 PP

                              ----- CS
              RsgA_GTPase 138 khTTt 142
                              k T  
  PHY93_21480|PHY93_21480 197 KETAE 201
                              77654 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 3.2
                              EEE-GGG--HHHHHHHHHHHHHHTTSEEEE--TTTHTTHHHHHHHC CS
              RsgA_GTPase  52 vlnKiDlleeeeeleelkeelealgyevllvsaktkegleelkell 97 
                              + +Ki+++e++ + +el +++++++ + +   a+ + ++++l++++
  PHY93_21480|PHY93_21480 389 ATTKIEIIENNLKKDELIKAITTCNGNKTQAAAELGINVRTLHRWV 434
                              4577777777777777777777777666666666666666666665 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.2   0.3   0.00012     0.087      93     136 ..     214     257 ..     148     279 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 0.00012
             Mg_chelatase  93 ggskpkpGeislahnGvLfLDElpefkrkvlevLRePledgevt 136
                              g  + k G i  a+nG++fLDE+ + + +v   L + ++++ev+
  PHY93_21480|PHY93_21480 214 GAVQNKIGLIESANNGMFFLDEIGDCSLEVQSKLLRVIQEREVQ 257
                              5668899******************9999999887777777765 PP

>> HTH_29  Winged helix-turn helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0       5.7   4.1e+03      38      55 ..     335     352 ..     333     355 .. 0.82
   2 !   13.8   0.0   6.3e-05     0.045      14      37 ..     415     438 ..     406     438 .. 0.92

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 5.7
                   HTH_29  38 egGlaalld.rrrsgrprn 55 
                              ++G++ ll+ ++ +g+ r+
  PHY93_21480|PHY93_21480 335 NDGIQELLSySW-PGNIRE 352
                              789*****9999.799887 PP

  == domain 2  score: 13.8 bits;  conditional E-value: 6.3e-05
                   HTH_29  14 tvsqiAkllglsrrtvyrwlkrfe 37 
                              +  q+A+ lg+  rt  rw++ f+
  PHY93_21480|PHY93_21480 415 NKTQAAAELGINVRTLHRWVNKFN 438
                              789*******************98 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.1   7.8e-05     0.056      31      73 ..     157     199 ..     148     205 .. 0.79
   2 ?   -0.8   0.1       1.3   9.5e+02      66      89 ..     380     403 ..     361     409 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 7.8e-05
                    AAA_7  31 knkkpvllvGptGtGKtviikdllkkldkekylsltinfsaqt 73 
                              k++ ++l+ G+tGtGK +++k++  +++k+ ++ ++ ++ + t
  PHY93_21480|PHY93_21480 157 KQDASILILGETGTGKESLVKHIACNMKKKLVSANMATIGKET 199
                              567899****************999999666666665555555 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 1.3
                    AAA_7  66 tinfsaqtsanqlqdiiesklekr 89 
                              + + s+q +a++  +iie++l+k 
  PHY93_21480|PHY93_21480 380 MGESSSQITATTKIEIIENNLKKD 403
                              55679999*************995 PP

>> HTH_30  PucR C-terminal helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.1   7.6e-05     0.055       6      35 ..     407     436 ..     404     438 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 7.6e-05
                              HHHHHTTT-HHHHHHHHTS-HHHHHHHHHH CS
                   HTH_30   6 raylenggnisatAkaLhvHrnTlryRLrr 35 
                              +a   ++gn++++A++L++ + Tl+  +++
  PHY93_21480|PHY93_21480 407 KAITTCNGNKTQAAAELGINVRTLHRWVNK 436
                              56668*******************987776 PP

>> MerR_1  MerR HTH family regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   0.00012     0.083       5      27 ..     418     440 ..     416     442 .. 0.93

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 0.00012
                              HHHHHHTS-HHHHHHHHHHTT-S CS
                   MerR_1   5 evakilgvtthtlrywekegllk 27 
                              ++a +lg++++tl+ w ++++++
  PHY93_21480|PHY93_21480 418 QAAAELGINVRTLHRWVNKFNIP 440
                              89******************997 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   0.1    0.0055         4       3      38 ..     152     187 ..     150     201 .. 0.81
   2 ?    3.6   0.0      0.11        76     104     128 ..     228     254 ..     207     260 .. 0.81

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0055
                   AAA_19   3 eavealkekvllvtaGpGtGKTrvlkhivallvelg 38 
                              +++++ ++  +l+++  GtGK  ++khi   +++  
  PHY93_21480|PHY93_21480 152 RIIQNKQDASILILGETGTGKESLVKHIACNMKKKL 187
                              56667788899****************988877765 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.11
                   AAA_19 104 e.llivDEfqdvd.elqyrLlkallge 128
                              + +++ DE+ d + e+q +Ll+ + ++
  PHY93_21480|PHY93_21480 228 NgMFFLDEIGDCSlEVQSKLLRVIQER 254
                              34899*****************99854 PP

>> AAA_8  P-loop containing dynein motor region D4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0    0.0002      0.14      11      51 ..     145     186 ..     137     202 .. 0.76
   2 ?   -1.5   0.0       1.7   1.2e+03     141     178 ..     265     302 ..     242     304 .. 0.69

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.0002
                    AAA_8  11 ehlarilRvlrqp.rghaLlvGvgGsGrqsltk.LAafiaele 51 
                              e+l +  R+++++  + +L++G  G+G++sl+k +A+ + + +
  PHY93_21480|PHY93_21480 145 EVLKKAERIIQNKqDASILILGETGTGKESLVKhIACNMKK-K 186
                              6778899***87515789999**********9736666554.3 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 1.7
                    AAA_8 141 esllnffikrvrenLhivlcmspvgeafrsrlrkfpsL 178
                              +s+   fi+   +nL+ ++      e++ +rl++fp +
  PHY93_21480|PHY93_21480 265 RSINVSFIAATHRNLKKMVQNGEFREDLLQRLNTFPLI 302
                              45555677777777887777777788888888888765 PP

>> LZ_Tnp_IS481  leucine-zipper of insertion element IS481
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   0.00016      0.12      25      50 ..     413     438 ..     401     441 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 0.00016
             LZ_Tnp_IS481  25 rrtvaqvarelGvslrtaykwlarfr 50 
                              +   +q+a elG+  rt ++w+++f 
  PHY93_21480|PHY93_21480 413 NGNKTQAAAELGINVRTLHRWVNKFN 438
                              556689******************95 PP

>> AAA_3  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   0.00035      0.25       2     109 ..     162     275 ..     161     290 .. 0.62

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00035
                    AAA_3   2 vllegvPGlaktllvkalakaldlefkriqftpdllPsdilGtevfeeke....kefefkkGpv...fanllladeinrappktqs 80 
                              +l+ g  G++k  lvk++a  ++ ++    +    +  +   +++f +++      ++ k G +    + +++ dei  ++  +qs
  PHY93_21480|PHY93_21480 162 ILILGETGTGKESLVKHIACNMKKKLVSANM--ATIGKETAESNLFGHERgaftGAVQNKIGLIesaNNGMFFLDEIGDCSLEVQS 245
                              5777888888888888888777766544433..33444444444444444122234455556552113458999************ PP

                    AAA_3  81 alleameerqvtvegeth..klpepflvlat 109
                               ll +++er+v   g+++  +++   ++ at
  PHY93_21480|PHY93_21480 246 KLLRVIQEREVQPLGSNRarSINVS-FIAAT 275
                              ***********86554430033333.34444 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   0.00025      0.18      45     136 ..     157     253 ..     116     257 .. 0.61

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00025
                IstB_IS21  45 ekkenivllGpsGvGK....shlaialgveavraglsvlfvrve..dLveelkrarrdgklaralkrllkv..dllilDdlgllpl 122
                              ++ ++i++lG +G+GK     h+a+ + ++ v a+++++   ++  +L+ + +r    g +++++  +  +   +  lD++g   l
  PHY93_21480|PHY93_21480 157 KQDASILILGETGTGKeslvKHIACNMKKKLVSANMATIGKETAesNLFGH-ERGAFTGAVQNKIGLIESAnnGMFFLDEIGDCSL 241
                              456789**********54444999***999999998876544431134433.3333345555544443333225666777765555 PP

                IstB_IS21 123 dqaeaellfeviek 136
                              +   +++l++vi++
  PHY93_21480|PHY93_21480 242 EV--QSKLLRVIQE 253
                              43..3456666665 PP

>> HTH_Tnp_1_2  Helix-turn-helix of insertion element transposase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.1       3.7   2.7e+03      72      97 ..     115     141 ..      98     165 .. 0.57
   2 ?   11.3   0.0    0.0004      0.29      27      49 ..     414     436 ..     383     443 .. 0.82

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 3.7
                              HHHHHHHHHSSS-.-HHHHHHHHHHTT CS
              HTH_Tnp_1_2  72 ykaLlrkilkgrs.svkAieLylkrrg 97 
                              y+ L r  + +++ + +Ai+ yl +  
  PHY93_21480|PHY93_21480 115 YSSLNRSTQLKKAkEQQAIQKYLTNSP 141
                              555555544444434455555555443 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 0.0004
                              S-HHHHHHHHTS-HHHHHHHHH- CS
              HTH_Tnp_1_2  27 ltldeiaeevgvsrsTlykWkkk 49 
                                +++ a+e+g++ +Tl++W +k
  PHY93_21480|PHY93_21480 414 GNKTQAAAELGINVRTLHRWVNK 436
                              567899**************976 PP

>> HTH_17  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   0.00062      0.45       6      24 ..     418     436 ..     417     441 .. 0.90

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00062
                   HTH_17   6 EaAelLgvsrstvyrlirr 24 
                              +aA+ Lg+ ++t++r++++
  PHY93_21480|PHY93_21480 418 QAAAELGINVRTLHRWVNK 436
                              8****************86 PP

>> G-alpha  G-protein alpha subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.5   0.00026      0.18       4      51 ..     140     188 ..     127     286 .. 0.86
   2 ?   -0.9   0.0         1   7.3e+02     277     290 ..     391     404 ..     334     432 .. 0.55

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00026
                              XXXXXXXXXXXXXXXXE..EEEEEEEESTTSSHHHHHHHHHHHCS--.- CS
                  G-alpha   4 ssaidkslkaerkarkkkrevkllllGqseSGKsTilkqlkllykkg.f 51 
                              s a+ + lk+ ++  ++k++ ++l+lG+ + GK +++k++ +  kk+ +
  PHY93_21480|PHY93_21480 140 SPAVKEVLKKAERIIQNKQDASILILGETGTGKESLVKHIACNMKKKlV 188
                              5566667777777777799*********************977766633 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 1
                              E-HHHHHHHCCCS- CS
                  G-alpha 277 nKlDileeKlkkgk 290
                              +K++i e  lkk +
  PHY93_21480|PHY93_21480 391 TKIEIIENNLKKDE 404
                              33444444444443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (449 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1009  (0.0562775); expected 358.6 (0.02)
Passed bias filter:                      620  (0.0345808); expected 358.6 (0.02)
Passed Vit filter:                        99  (0.00552178); expected 17.9 (0.001)
Passed Fwd filter:                        25  (0.00139439); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              25  [number of targets reported over threshold]
# CPU time: 0.68u 0.25s 00:00:00.93 Elapsed: 00:00:00.43
# Mc/sec: 3128.49
//
Query:       PHY93_21485|PHY93_21485  [L=172]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (172 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       335  (0.0186848); expected 358.6 (0.02)
Passed bias filter:                      182  (0.0101512); expected 358.6 (0.02)
Passed Vit filter:                         6  (0.000334653); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1330.75
//
Query:       PHY93_06070|PHY93_06070  [L=76]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.5e-18   65.0   3.8    7.6e-18   64.8   3.8    1.1  1  Fer4_13   4Fe-4S single cluster domain of Ferredoxin I
      3e-07   31.1   3.7    4.7e-07   30.5   3.7    1.2  1  Fer4_15   4Fe-4S single cluster domain
     0.0017   18.1   5.0       0.18   11.7   1.4    2.3  2  Fer4      4Fe-4S binding domain
  ------ inclusion threshold ------
      0.042   14.4   2.7       0.19   12.3   3.0    1.8  2  Fer4_7    4Fe-4S dicluster domain
      0.043   14.0   4.5        0.2   11.8   4.6    1.9  2  Fer4_21   4Fe-4S dicluster domain
      0.097   12.8   3.6       0.59   10.3   0.8    2.1  2  Fer4_9    4Fe-4S dicluster domain
       0.82    9.9   7.5       0.64   10.2   1.5    2.2  2  Fer4_6    4Fe-4S binding domain


Domain annotation for each model (and alignments):
>> Fer4_13  4Fe-4S single cluster domain of Ferredoxin I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.8   3.8     3e-21   7.6e-18       1      57 [.      18      73 ..      18      74 .. 0.98

  Alignments for each domain:
  == domain 1  score: 64.8 bits;  conditional E-value: 3e-21
                  Fer4_13  1 VDrdtCiacgaCvelaPdvFeeddeggasvvaeqptseeekadaeeAadaCPvesIg 57
                             VD d+Ciac+aCv  aP +F ++d +g+++v+ qp++ +++a++ +A++aCPve+Ig
  PHY93_06070|PHY93_06070 18 VD-DQCIACDACVIEAPGFFIMNDTDGHAYVKLQPRTAKDIAECLSALEACPVEAIG 73
                             89.*****************************************************7 PP

>> Fer4_15  4Fe-4S single cluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.5   3.7   1.8e-10   4.7e-07       6      64 ..      20      72 ..      17      73 .. 0.92

  Alignments for each domain:
  == domain 1  score: 30.5 bits;  conditional E-value: 1.8e-10
                  Fer4_15  6 daCigcglCvaeapevfelde.dglasvllddgeiaegevpddeeeaaqeAaraCPvdAI 64
                             d+Ci c +Cv eap +f +++ dg+a+v+l       ++ + +++++   A +aCPv+AI
  PHY93_06070|PHY93_06070 20 DQCIACDACVIEAPGFFIMNDtDGHAYVKL-------QPRTAKDIAECLSALEACPVEAI 72
                             89**************9887779***9998.......578899****************9 PP

>> Fer4  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.7   1.4   7.2e-05      0.18       5      16 ..      19      30 ..      16      31 .. 0.85
   2 !    8.1   0.1   0.00098       2.5      16      23 ..      65      72 ..      64      73 .. 0.92

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 7.2e-05
                             TTTSSS-THHHH CS
                     Fer4  5 eekCigCGaCve 16
                              + Ci+C aCv 
  PHY93_06070|PHY93_06070 19 DDQCIACDACVI 30
                             689*******95 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.00098
                             HHSTTTEE CS
                     Fer4 16 evCPvgAI 23
                             e+CPv+AI
  PHY93_06070|PHY93_06070 65 EACPVEAI 72
                             89*****9 PP

>> Fer4_7  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   1.1    0.0011       2.7      35      45 ..      19      29 ..       4      34 .. 0.75
   2 ?   12.3   3.0   7.4e-05      0.19       1      52 []      21      71 ..      21      71 .. 0.68

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.0011
                   Fer4_7 35 pekClgCgaCv 45
                              ++C+ C+aCv
  PHY93_06070|PHY93_06070 19 DDQCIACDACV 29
                             56777777776 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 7.4e-05
                   Fer4_7  1 rCigCgaCvaaCpvkaieldeeenekgtekveidpekClgCgaCva...vCPtga 52
                             +Ci C aCv   p   i+ d +    g ++v+++p++  +  +C +   +CP++a
  PHY93_06070|PHY93_06070 21 QCIACDACVIEAPGFFIMNDTD----GHAYVKLQPRTAKDIAECLSaleACPVEA 71
                             6**********99777776554....66677777777765444443333899876 PP

>> Fer4_21  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   1.2   0.00012      0.31      37      51 ..      18      32 ..       9      38 .. 0.75
   2 ?   11.8   4.6     8e-05       0.2       5      57 ..      19      72 ..      16      74 .. 0.68

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00012
                  Fer4_21 37 vedeCvGCnlCssvC 51
                             v+d+C++C+ C++  
  PHY93_06070|PHY93_06070 18 VDDQCIACDACVIEA 32
                             677888888887655 PP

  == domain 2  score: 11.8 bits;  conditional E-value: 8e-05
                  Fer4_21  5 edkCigCgkCliaCedtshqai.eidaktvlkvv...edeCvGCnlCssvCPvedci 57
                             +d+Ci C  C+i  +      + ++d+++++k++   +++   C   ++ CPv ++i
  PHY93_06070|PHY93_06070 19 DDQCIACDACVIEAPG--FFIMnDTDGHAYVKLQprtAKDIAECLSALEACPV-EAI 72
                             589*******999883..33333455555554433336788889999999999.665 PP

>> Fer4_9  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.8   0.00023      0.59      33      44 ..      15      30 ..       2      37 .. 0.68
   2 ?    7.8   4.8    0.0014       3.6       1      51 []      21      72 ..      21      72 .. 0.72

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00023
                   Fer4_9 33 e....eaCigCgaCve 44
                             +    ++Ci C aCv 
  PHY93_06070|PHY93_06070 15 QfyvdDQCIACDACVI 30
                             1455568******996 PP

  == domain 2  score: 7.8 bits;  conditional E-value: 0.0014
                   Fer4_9  1 kCtgCgaCveaCpagvv.vedaaerkarlraaseeaCigCgaCveaCpkgai 51
                             +C+ C+aCv   p   + ++ +++ +++l+ + +++  +C + +eaCp +ai
  PHY93_06070|PHY93_06070 21 QCIACDACVIEAPGFFImNDTDGHAYVKLQPRTAKDIAECLSALEACPVEAI 72
                             69******77766655526666667777777766666788899999998876 PP

>> Fer4_6  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   1.5   0.00025      0.64       6      17 ..      19      30 ..      16      31 .. 0.87
   2 ?    3.3   0.5     0.037        95      17      24 .]      65      72 ..      58      72 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00025
                   Fer4_6  6 pdkCigCgdCvr 17
                             +d Ci C++Cv+
  PHY93_06070|PHY93_06070 19 DDQCIACDACVI 30
                             699*******96 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.037
                   Fer4_6 17 rvCPegai 24
                              +CP  ai
  PHY93_06070|PHY93_06070 65 EACPVEAI 72
                             57**9998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (76 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       499  (0.027832); expected 358.6 (0.02)
Passed bias filter:                      376  (0.0209716); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 587.42
//
Query:       PHY93_06075|PHY93_06075  [L=498]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    7.8e-40  136.3   2.3    2.4e-39  134.8   2.3    1.9  1  SurA_N_3    SurA N-terminal domain
    8.6e-25   87.5   3.6    1.2e-24   87.1   0.0    2.8  3  Rotamase_3  PPIC-type PPIASE domain
    2.2e-24   86.0   1.3    2.2e-24   86.0   1.3    2.1  2  SurA_N_2    SurA N-terminal domain
    1.1e-19   71.1   1.7    3.2e-19   69.7   0.0    2.7  4  Rotamase    PPIC-type PPIASE domain
    9.9e-13   49.0   0.5    9.9e-13   49.0   0.5    3.1  3  Rotamase_2  PPIC-type PPIASE domain


Domain annotation for each model (and alignments):
>> SurA_N_3  SurA N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  134.8   2.3   6.6e-43   2.4e-39       1     160 [.       1     162 [.       1     164 [. 0.96

  Alignments for each domain:
  == domain 1  score: 134.8 bits;  conditional E-value: 6.6e-43
                 SurA_N_3   1 MleflrknakswiakillgliilaFvlwGvgsylsgsg..nsvakVngekIsraefqqayrrqleqlrqqlggnldaelldelglr 84 
                              M ef ++++ +++a++l+g+i+l+F+++G++s+++g+g  n++ kV++ +I+++e+qq+y+rq e ++q++gg+++a+++++++++
  PHY93_06075|PHY93_06075   1 MSEFTKNKTANMFATLLIGIIVLSFMFTGYQSFQQGGGspNAIGKVGDLPIKTEEYQQEYNRQIEFYKQMMGGEISAKQIEAMKIK 86 
                              55677888899************************9997666******************************************** PP

                 SurA_N_3  85 qqvldqlidealllqeakklglsvsdeevakeiasipaFqedGkFdkerYkqlLaangltpeefeaslredlllqk 160
                              + +l+++++++l+ + a + g   s ee+++ei++ p+F  +G+Fd +rYk++Laan+ltp+efea++ ++l +++
  PHY93_06075|PHY93_06075  87 ESTLKNIVQRKLMVKFATDIGAYPSVEEIKSEIKTLPYFLSNGQFDINRYKAVLAANKLTPAEFEADVINQLKMKN 162
                              ***********************************************************************99876 PP

>> Rotamase_3  PPIC-type PPIASE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0       1.5   5.4e+03      14      32 ..     185     208 ..     177     220 .. 0.65
   2 !   87.1   0.0   3.3e-28   1.2e-24      11     114 ..     232     335 ..     222     337 .. 0.90
   3 ?   -0.3   0.3      0.44   1.6e+03      23      51 ..     464     489 ..     442     492 .. 0.72

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 1.5
               Rotamase_3  14 d.svkvshIlistkg.....kesrs 32 
                              d ++++++I is +g     +  ++
  PHY93_06075|PHY93_06075 185 DeKLNAEIISISKNGlrnfvE-VSK 208
                              448999999999888776532.333 PP

  == domain 2  score: 87.1 bits;  conditional E-value: 3.3e-28
               Rotamase_3  11 s....akdsvkvshIlistkgkesrseeeakakadsllaalkegadFaalAkeySdDpaskenGGelgwftkgqmvkeFedavfsl 92 
                              +    ++++vk++hIl+  +g   +++++ k  +++++++++ +++Fa++A +y++Dp+ k +GG+lg f kg+mv+eF++++f++
  PHY93_06075|PHY93_06075 232 KpsldKPEEVKARHILLMAEG---KKDADLKVAIEKIAKEVN-PSNFAKMADKYTEDPSGKGKGGDLGTFGKGRMVPEFDQVAFTQ 313
                              44455899*********9766...999*************95.899**************************************** PP

               Rotamase_3  93 kkgeiskvvktdfGyHiikvtd 114
                              k g++s+++kt+fGyH+  v +
  PHY93_06075|PHY93_06075 314 KPGTVSAPIKTQFGYHLLLVEK 335
                              ****************987765 PP

  == domain 3  score: -0.3 bits;  conditional E-value: 0.44
               Rotamase_3  23 istkgkesrseeeakakadsllaalkega 51 
                               +   +++ +++ +++ ++s+l++l+e +
  PHY93_06075|PHY93_06075 464 TD---NAGLKNALSRKMMESILKKLEEET 489
                              33...456778888999******999766 PP

>> SurA_N_2  SurA N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.0   1.3   6.1e-28   2.2e-24       6     145 .]       7     140 ..       3     140 .. 0.94
   2 ?   -1.3   0.1      0.51   1.8e+03     108     122 ..     204     220 ..     145     242 .. 0.65

  Alignments for each domain:
  == domain 1  score: 86.0 bits;  conditional E-value: 6.1e-28
                 SurA_N_2   6 eksqgllvii.iglallaFilgdlfgvgsylfss.ssnevaeVnGekIslqefqqaveearqqlqqqlgenfdeseedeaqlreqv 89 
                              +k+  +++ + ig+++l+F+   ++g +s+ +++ s n++++V++ +I+++e+qq+++++ + ++q++g +++ ++ + ++++e++
  PHY93_06075|PHY93_06075   7 NKTANMFATLlIGIIVLSFM---FTGYQSFQQGGgSPNAIGKVGDLPIKTEEYQQEYNRQIEFYKQMMGGEISAKQIEAMKIKEST 89 
                              45555666666*********...***999977777*************************************************** PP

                 SurA_N_2  90 ldqlvseklleqeaeklGltvsdeelqdaiqgnpaikqsFqpetGkFdkeklkqfl 145
                              l+++v++kl+ + a ++G   s ee+++ i++ p     F  ++G+Fd +++k++l
  PHY93_06075|PHY93_06075  90 LKNIVQRKLMVKFATDIGAYPSVEEIKSEIKTLPY----FL-SNGQFDINRYKAVL 140
                              ***********************************....**.***********986 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 0.51
                 SurA_N_2 108 ltvsdeelqdaiqg..n 122
                              ++vs++el +++    n
  PHY93_06075|PHY93_06075 204 VEVSKDELTKFLAVetN 220
                              45555555555444333 PP

>> Rotamase  PPIC-type PPIASE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0       3.4   1.2e+04      78      78 ..      73      73 ..      44     105 .. 0.55
   2 !   69.7   0.0   8.8e-23   3.2e-19       1      96 [.     245     334 ..     245     335 .. 0.95
   3 ?   -1.7   0.0       1.6   5.8e+03      27      58 ..     335     366 ..     332     393 .. 0.59
   4 ?   -3.2   0.1       4.7   1.7e+04      18      31 ..     474     487 ..     447     491 .. 0.62

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 3.4
                             T CS
                 Rotamase 78 G 78
                             G
  PHY93_06075|PHY93_06075 73 G 73
                             2 PP

  == domain 2  score: 69.7 bits;  conditional E-value: 8.8e-23
                              EEEESSCCSE----HHHHHHHHHHHHCCTCCCHHHHHHHHCCC-.-CHHHCCTTEEECEETTTS-CCCHHHHCCS-CT-B-S-EEE CS
                 Rotamase   1 HILlkvkekasekeraeakakaeeileqlksgedtFeelArkySddknsakngGdlgwvekgqlppefekaafslkkGeisepvet 86 
                              HILl  +     k++a+ k  +e+i+++++    +F+++A ky +d++ + +gGdlg + kg ++pef+++af+ k+G +s+p++t
  PHY93_06075|PHY93_06075 245 HILLMAEG----KKDADLKVAIEKIAKEVNPS--NFAKMADKYTEDPSGKGKGGDLGTFGKGRMVPEFDQVAFTQKPGTVSAPIKT 324
                              99999999....999*************9876..59************************************************** PP

                              TTEEEEEEEE CS
                 Rotamase  87 kfGfhiikle 96 
                              +fG+h++ +e
  PHY93_06075|PHY93_06075 325 QFGYHLLLVE 334
                              ******9886 PP

  == domain 3  score: -1.7 bits;  conditional E-value: 1.6
                              CCTCCCHHHHHHHHCCC-.-CHHHCCTTEEEC CS
                 Rotamase  27 eqlksgedtFeelArkySddknsakngGdlgw 58 
                              ++++ +++tF+e+  k++++  ++ +  ++ +
  PHY93_06075|PHY93_06075 335 KKIEGHAATFAEYKDKFATELIQKDKVEAIKK 366
                              67777777788777777766555555555554 PP

  == domain 4  score: -3.2 bits;  conditional E-value: 4.7
                              HHHHHHHHHCCTCC CS
                 Rotamase  18 akakaeeileqlks 31 
                               ++ +e+il++l++
  PHY93_06075|PHY93_06075 474 SRKMMESILKKLEE 487
                              35666666666665 PP

>> Rotamase_2  PPIC-type PPIASE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.9       1.4   4.9e+03      68      68 ..     116     116 ..      51     209 .. 0.56
   2 !   49.0   0.5   2.8e-16   9.9e-13       6     121 .]     224     349 ..     220     349 .. 0.76
   3 ?    0.8   0.4      0.23   8.2e+02       5      46 ..     386     427 ..     357     490 .. 0.58

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 1.4
               Rotamase_2  68 f 68 
                              +
  PHY93_06075|PHY93_06075 116 K 116
                              1 PP

  == domain 2  score: 49.0 bits;  conditional E-value: 2.8e-16
               Rotamase_2   6 vkayYeankdefskpeg.ktle.lavvkdqvaaeaa...lalakagaekdfaalakgnskkaadlg......ifesasnlpeelak 80 
                              +++ ++++k++++kpe  k ++ l+++  +++a+++   ++ ak+ +  +fa++a++++++++ +g       f + + +p e+ +
  PHY93_06075|PHY93_06075 224 LQSMFNERKPSLDKPEEvKARHiLLMAEGKKDADLKvaiEKIAKEVNPSNFAKMADKYTEDPSGKGkggdlgTFGKGRMVP-EFDQ 308
                              7999*************666664333333333333333344466668899********99976666444543555545444.**** PP

               Rotamase_2  81 aafalkpgevsgpvetdngyyivkvtevkpakvppfeevkd 121
                               af+ kpg+vs p++t++gy+++ v++++++++++f+e+kd
  PHY93_06075|PHY93_06075 309 VAFTQKPGTVSAPIKTQFGYHLLLVEKKIEGHAATFAEYKD 349
                              ***************************************97 PP

  == domain 3  score: 0.8 bits;  conditional E-value: 0.23
               Rotamase_2   5 evkayYeankdefskpegktlelavvkdqvaaeaalalakag 46 
                              evka  e++k +++k   ++l   ++ +   ae  ++l  ++
  PHY93_06075|PHY93_06075 386 EVKAITEKYKLQYVKGSVNRLDGTTTGTNLTAENMKELFSGD 427
                              444444444444444444444444444444444444443333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (498 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1167  (0.0650901); expected 358.6 (0.02)
Passed bias filter:                      567  (0.0316247); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.65u 0.26s 00:00:00.91 Elapsed: 00:00:00.43
# Mc/sec: 3470.36
//
Query:       PHY93_05350|PHY93_05350  [L=219]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.7e-23   81.8   0.0    5.9e-23   81.2   0.0    1.3  1  Response_reg  Response regulator receiver domain
    4.2e-20   71.6   0.1    2.3e-19   69.2   0.1    1.9  2  Trans_reg_C   Transcriptional regulatory protein, C terminal


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   81.2   0.0   6.6e-27   5.9e-23       1     112 []       3     112 ..       3     112 .. 0.98

  Alignments for each domain:
  == domain 1  score: 81.2 bits;  conditional E-value: 6.6e-27
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseeeda 86 
                              + ivdD +++++  ++ll    + + +  +++ ++l  l + + dlillD+ mp+++G+el+++ + ++p+lpvi+l++  +ee +
  PHY93_05350|PHY93_05350   3 ITIVDDVRDNLKSYNELLS-PTF-NLELIQNPLDLLGFLGKTQTDLILLDLHMPTINGFELYQKFKVTHPDLPVIFLSGDPSEESI 86 
                              78****************9.889.99************************************************************ PP

                              HHHHHCTESEEEESSG-HHHHHHHHH CS
             Response_reg  87 vealkagaddflsKpfdpeeLlkale 112
                              +++l++gaddf++Kp++ +eL+++++
  PHY93_05350|PHY93_05350  87 IRGLNLGADDFIVKPVSLRELVARIK 112
                              **********************9985 PP

>> Trans_reg_C  Transcriptional regulatory protein, C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.0      0.15   1.3e+03      38      61 ..      96     119 ..      91     132 .. 0.70
   2 !   69.2   0.1   2.6e-23   2.3e-19       2      77 .]     147     218 ..     146     218 .. 0.95

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.15
                              TSTSHTHHHHHHHHHHHHHHHTTT CS
              Trans_reg_C  38 dedvddrtvdvhisrLRkkLedde 61 
                              d+ v   +++  ++r+ +k+  ++
  PHY93_05350|PHY93_05350  96 DFIVKPVSLRELVARIKNKITLKP 119
                              556667788999999999987764 PP

  == domain 2  score: 69.2 bits;  conditional E-value: 2.6e-23
                              EEEE-SHHHHHHHHHHHHTTTSEEEHHHHHHHHTTTTSTSHTHHHHHHHHHHHHHHHTTTTSSSSEEEETTTEEEE CS
              Trans_reg_C   2 eeveltpkefklLelLlenpgrvvsreeLleevwgededvddrtvdvhisrLRkkLeddekkprlIetvrgvGYrl 77 
                              e+++ltp efkl++lL++np++v+sre + + +w++ + v+++ +d+h s+LRkkL +    +r+I+t++++GY+l
  PHY93_05350|PHY93_05350 147 EKIQLTPIEFKLIHLLAKNPNKVFSREYITNLLWPNVH-VQNQNIDTHLSNLRKKLMP---FSRYIKTIKSRGYIL 218
                              689********************************998.*******************...458**********87 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (219 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       379  (0.0211389); expected 358.6 (0.02)
Passed bias filter:                      314  (0.0175135); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.39
# Mc/sec: 1704.98
//
Query:       PHY93_06080|PHY93_06080  [L=294]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.7e-33  113.9   0.7    8.7e-33  113.3   0.7    1.3  1  MreC      rod shape-determining protein MreC
  ------ inclusion threshold ------
      0.026   14.6   0.2      0.026   14.6   0.2    1.8  2  Cnn_1N    Centrosomin N-terminal motif 1


Domain annotation for each model (and alignments):
>> MreC  rod shape-determining protein MreC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  113.3   0.7   9.7e-37   8.7e-33       1     149 [.     125     270 ..     125     271 .. 0.95

  Alignments for each domain:
  == domain 1  score: 113.3 bits;  conditional E-value: 9.7e-37
                              EEEE-GCCTTTEEEES--GGGT--TT-EEEETTEEEEEEEEE-SS-EEEEETTSCCE.EEEEEE.CTTEEEEEEEETTTTEEEEEE CS
                     MreC   1 VisrspdnwnssltIdkGskdgvkkgmpVvsgkglVGkVtevgknssrVllitdssssvsvkvkrtgergilegkddekkeleley 86 
                              V+s ++   ++++ I++G kdgv+ +++V+s++glVG V + +++ + V++i+d + +v   v+r + +gi+eg+  +++++ ++y
  PHY93_06080|PHY93_06080 125 VVSWDSADDYKVVRINRGLKDGVRLQSVVTSAEGLVGYVYRLTDHFADVITILDANNRVDGVVERLRSHGIVEGY--SRGRCIMKY 208
                              677777888999*************************************************99997778*****5..679****** PP

                              E.CT-..--TT-EEEEE-TTSSS-CCEEEEEEEEEEE-TTSSEEEEEEEESS--SS--EEEEE CS
                     MreC  87 lpkeaadvkkgdlvvTsglggvfpkglpvGtVekveedkeglfkkievkpavdfdkleeVlVi 149
                              +++  + +  +dlv+T+glg+v+pkgl++G+++++e++++g ++++e++p v+f+kleeVlV+
  PHY93_06080|PHY93_06080 209 VNRT-EPIILNDLVLTAGLGNVYPKGLKIGYISRIERESYGITQHVEITPLVNFSKLEEVLVL 270
                              *999.8*******************************************************97 PP

>> Cnn_1N  Centrosomin N-terminal motif 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.2     3e-06     0.026      40      70 ..      74     104 ..      70     106 .. 0.92
   2 ?   -2.9   0.2      0.85   7.7e+03      24      30 ..     283     289 ..     265     293 .. 0.57

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 3e-06
                   Cnn_1N  40 ellkenielkveveslqkelkekkkllreae 70 
                              ++ keni+lk ++++lq+e+ +++++++e+ 
  PHY93_06080|PHY93_06080  74 NASKENINLKGKIADLQNEMFSYQESIKESD 104
                              578*************************986 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 0.85
                   Cnn_1N  24 yfLeerl 30 
                              + Lee+l
  PHY93_06080|PHY93_06080 283 KALEEQL 289
                              3344444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (294 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       711  (0.0396564); expected 358.6 (0.02)
Passed bias filter:                      439  (0.0244855); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.39
# Mc/sec: 2260.81
//
Query:       PHY93_06085|PHY93_06085  [L=175]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.21   11.6  27.1       0.29   11.2  27.1    1.2  1  MreD      rod shape-determining protein MreD


Domain annotation for each model (and alignments):
>> MreD  rod shape-determining protein MreD
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2  27.1   1.6e-05      0.29      10     155 ..      16     163 ..      10     167 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 1.6e-05
                     MreD  10 lislfllalvlglipmpvstlvlrPhflllvllywvialpervgiitafvlGllyDvlygsllGvyalvlslilylvaklqkvlrl 95 
                              li+lf+l++++ +i+  +++l +r  f +lv+l+  + l+  +  i+ +++     + +++   + ++  ++i+ +v+ +++++++
  PHY93_06085|PHY93_06085  16 LILLFVLEIITTAIFPMIGLLNFRVPFNILVVLFLGLRLETPYLAILIMIVQYFHAFFSVEGWEMGTVTGIVICVVVSYVREMIHF 101
                              67889**************************************9998888766666666666666779999*************** PP

                     MreD  96 nr.rflpavlqvll.lellvlvialliglaeldligfvvyrllPtlllnfllailLvppvfk 155
                              +   +++++ qv+  l ++v  i + i+l  ld i     r+lP++++ +ll+ l+ +++ k
  PHY93_06085|PHY93_06085 102 SSwGMTILITQVFQlLWFFVQSILIYIQLGNLDYIFDKGWRFLPQSVIIALLSPLFFFILNK 163
                              99*99999999997366788889999999888888777777777777777777777776665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (175 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       789  (0.0440069); expected 358.6 (0.02)
Passed bias filter:                      219  (0.0122148); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.20s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1279.44
//
Query:       PHY93_06090|PHY93_06090  [L=681]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.3e-78  264.3   0.2    2.9e-78  263.2   0.0    1.6  2  Transpeptidase  Penicillin binding protein transpeptidase dom
    8.8e-43  146.7   0.9    1.9e-42  145.6   0.9    1.6  1  PBP_dimer       Penicillin-binding Protein dimerisation domai


Domain annotation for each model (and alignments):
>> Transpeptidase  Penicillin binding protein transpeptidase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       0.2   1.8e+03     146     192 ..      84     133 ..      81     154 .. 0.72
   2 !  263.2   0.0   3.2e-82   2.9e-78       1     305 [.     273     610 ..     273     615 .. 0.92

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 0.2
                              --SSHHHHHHHHHTTT.....SBB-HHHHHHHHHHHHTTTEEE--BSEEEEE CS
           Transpeptidase 146 ptrkwlegatisfgiG.....ltvtplqlaqayaaiangGklvkPhlvkaiv 192
                               t+++leg+  + +iG     l+ tp  +++++++     k+ ++ + k+i 
  PHY93_06090|PHY93_06090  84 ITPQYLEGD--DETIGylskiLETTPESIVKILKKYQGQAKYIPVVIKKNIS 133
                              577888888..88888888999999999999998876666666666666554 PP

  == domain 2  score: 263.2 bits;  conditional E-value: 3.2e-82
                              EEEEEEETTT-BEEEEEEESE-TTTHHCC.............TCGCCSTHHHH--BB-GGGGHHHHHHHHHHTTSSTTSEEEEETC CS
           Transpeptidase   1 gaavvldaktgevlamaskpsydpnakvg.............kneplanravqsqyePGStfKvvtaaaaleagvikpdetlddsg 73 
                              gaav++d ++ge++am+s+p ydp+++ +             +++pl+ r++q+ y+PGStfK++ta aale+gv+++++++ ++g
  PHY93_06090|PHY93_06090 273 GAAVAVDVESGEIIAMVSRPAYDPSNFSTglstnywgqlvmdEKRPLRDRTIQEHYSPGSTFKPLTAIAALEEGVVDENTKVVCNG 358
                              79************************************************************************************ PP

                              CEETTSS.ECTCCCC-SSSSEEEHHHHHHTT-HHHHHHHHHHH-HHHHHHHHHHTTTTS-SSSSSTT-B--.B--SSH........ CS
           Transpeptidase  74 gkiqggqsikdweqdnkgsegitlrealekSsntyfvklaqklgadklrkylkkfglGnktgidlpgesaG.vptrkw........ 150
                              g+ +gg+++  w+++   ++ +++ +al++S+++yf+ + +k+  d ++ky+  fg+G++ gi lp e++G +p+r+w        
  PHY93_06090|PHY93_06090 359 GYRMGGRVFHCWKKEG--HGVVDVLRALKESCDVYFYSIGNKIDIDVIYKYATLFGMGQRLGIVLPRETKGlIPNRQWkkeqtgve 442
                              ***************5..7888*************************************************99999**99999877 PP

                              .HHHHHHHHTTT...SBB-HHHHHHHHHHHHTTTEEE--BSEEEEEECTT..EEEESS-EEEEE-S-HHHHHHHHHHHHHHHHCTT CS
           Transpeptidase 151 .legatisfgiG...ltvtplqlaqayaaiangGklvkPhlvkaivdpdg..vrkvkpkelnklpisketaekvkeglkgvvsrgs 230
                                +g t+s  iG   ++vtplqla +ya++an+Gkl +Ph+vk++ ++ g   ++v+p+ +++  is +t++ v+e+l + ++++ 
  PHY93_06090|PHY93_06090 443 wQKGETLSCVIGqsfVNVTPLQLAMFYATMANEGKLWRPHVVKEVFSNSGqvLKRVEPELIHQFKISRKTLDIVHEALFNTANAQG 528
                              76799999999999***********************************9*99********************************9 PP

                              TTGCG.TCTTS--EEEEEEEEECSSSTTSEEEEEE........EEEEEEEESTTS-SEEEEEEECTCSSSSSCCHHHHHHHHHH CS
           Transpeptidase 231 gtata.avegykvagKTGTAevagkkgngkkegak........iswfvgyapadnpkyavavlieqpkeaaggkaaapiakkil 305
                              gta a + +g+++a+KTGTA+v++ + ++  ++ +        ++ f++yapa npk+av+v+ie++    g +a +p+ak+i+
  PHY93_06090|PHY93_06090 529 GTAGAsKGVGIQMAAKTGTAQVISFSADKIFNKCEnqeykyrnNGLFAAYAPAGNPKIAVSVVIEHGC--HGASAGGPVAKAII 610
                              999999***************9765554433322233444455*************************..77777777777765 PP

>> PBP_dimer  Penicillin-binding Protein dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  145.6   0.9   2.1e-46   1.9e-42       3     177 ..      59     230 ..      57     233 .. 0.96

  Alignments for each domain:
  == domain 1  score: 145.6 bits;  conditional E-value: 2.1e-46
                              EE----EE-TTS-EEEEEEEEEEEEEEESSS-HHHHHHHHHHHHHHCHHHTTS-HHHHHHHHCCCCTSSTTSCECCCCCEECHHHC CS
                PBP_dimer   3 papRGeIyDrngrlLAtnrpsytltitpsklkkkkalekikklaklleseenldderleelalkknsykaykpvviaediseeeva 88 
                               apRG I+ rn++lL+ n+p++++ itp+ l+ ++++  i  l+k+le     ++e + ++ +k +++ +y pvvi+++is+ eva
  PHY93_06090|PHY93_06090  59 RAPRGMIFSRNNVLLTHNVPRFDAIITPQYLEGDDET--IGYLSKILE----TTPESIVKILKKYQGQAKYIPVVIKKNISRREVA 138
                              69*******************************9977..********7....788999999999********************** PP

                              CCHHHHHCSTT-EEEEEEEEEETTTSTTHHHH-EEEEC-HHHHHCCCCH...TCCTTCEEEESHHHHHTHHHHHECCCEEEEEEEC CS
                PBP_dimer  89 rikenakdlpGinievepkRyYpkgelaahvlGyvgkiteeelekykek...gyssgdliGksGlEkqyEeeLrGkkGkrqvkvda 171
                               ++ ++ +lpG+++e+  +R Y +++++ah+lGy+++i++e++ +y+++   +y++gd iG+ G+E qy+ e+rG++G++ ++vda
  PHY93_06090|PHY93_06090 139 ILETESSKLPGVSVETFISREYTDKDSGAHLLGYISEISQEKIPRYRDRdkyDYKQGDFIGQGGIELQYDLEIRGQDGYQFMEVDA 224
                              ************************************************************************************** PP

                              TSSCCE CS
                PBP_dimer 172 rGrile 177
                              rGr  +
  PHY93_06090|PHY93_06090 225 RGRARR 230
                              **9765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (681 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       675  (0.0376485); expected 358.6 (0.02)
Passed bias filter:                      590  (0.0329076); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.70u 0.27s 00:00:00.97 Elapsed: 00:00:00.43
# Mc/sec: 4793.26
//
Query:       PHY93_06095|PHY93_06095  [L=366]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.4e-98  329.4  27.2    2.8e-98  329.3  27.2    1.0  1  FTSW_RODA_SPOVE  Cell cycle protein
  ------ inclusion threshold ------
       0.31   10.8   0.1       0.31   10.8   0.1    2.7  3  Vpu              Vpu protein
       0.54    9.9   0.0       0.54    9.9   0.0    3.6  4  DUF4131          Domain of unknown function (DUF4131)


Domain annotation for each model (and alignments):
>> FTSW_RODA_SPOVE  Cell cycle protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  329.3  27.2  4.6e-102   2.8e-98       4     356 ..      15     364 ..      12     366 .] 0.95

  Alignments for each domain:
  == domain 1  score: 329.3 bits;  conditional E-value: 4.6e-102
          FTSW_RODA_SPOVE   4 lllvllllvilGlvmiysaslveslvlfgdsfvlfirqlvylllglivfvlllriplkfleklakllliislllLvlvkvplgssa 89 
                              ++ ++ +++++G++ +ysa   +       +  l+++q+v+ + ++i+ ++++ i++k   +la   ++is++lL++v v +g+sa
  PHY93_06095|PHY93_06095  15 FFGICTAIFVIGILNLYSATHSQGIGP---EEGLYKTQIVWFIFSWIIGIVVSFIQPKNFFRLAYPSYLISVILLIMVLV-VGHSA 96 
                              56677777789******9998555444...5599**********************************************.***** PP

          FTSW_RODA_SPOVE  90 nGAkrWirlggisiqPsEfvkialilflAavlskkkkevksrlrellillvivllilvlillqpdlgtavllliillvvlflsgls 175
                               G +rWi +g++++qPsE++kia++l+l++ +sk+++e++   rel+i+++i+++++++i++qpdlgt +l+++i++++ f+  l+
  PHY93_06095|PHY93_06095  97 LGGQRWIGFGSFKFQPSEITKIAMVLVLSRWYSKASPEQEIGFRELIIPFLITFIPAMMIIIQPDLGTGMLVMLIFFIITFYRKLK 182
                              ************************************************************************************** PP

          FTSW_RODA_SPOVE 176 lklilaivlalilviaivllilledyqvkrvtslldpfkdplgsgYqviqsliAigsGGllGkGlgnsqq.kleyLPeahtDfIfa 260
                              +k+i ++++ ++  +++v+ + l++yq+kr+t+++dp+ d++gsgY  iqs+iAigsG ++GkG+  s q  l+yLPe+htDfIfa
  PHY93_06095|PHY93_06095 183 WKTITIMAIIAMISATVVYNFGLREYQKKRITTFIDPEFDAKGSGYNAIQSKIAIGSGQFFGKGFRRSSQgALNYLPENHTDFIFA 268
                              ***99999955555566666**************************************************9*************** PP

          FTSW_RODA_SPOVE 261 vigEelGlvGvllllllffllivrglriarkakdrfgsllavgivllivvqsfinigmvlGllPvtGltlPflSyGGsSllallil 346
                              ++ Ee+G+vG ++l++l++ l++r+l++a++ ++ f s++ vgi ++++ +++in+ mv+Gl+P++G++lP++SyGGs ll++ i 
  PHY93_06095|PHY93_06095 269 IFNEEHGFVGSIFLIALYIALFYRLLWLASNVNKIFDSVVVVGILAIFFCHTMINMSMVSGLMPIVGVPLPLMSYGGSNLLTFGIC 354
                              ************************************************************************************** PP

          FTSW_RODA_SPOVE 347 igillnisre 356
                              +gi+ +is+ 
  PHY93_06095|PHY93_06095 355 CGIVTSISNA 364
                              *******986 PP

>> Vpu  Vpu protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.4      0.47   2.8e+03       8      22 ..      49      63 ..      45      73 .. 0.76
   2 ?   -4.9   1.4         3   1.8e+04       8      20 ..      82      90 ..      78      92 .. 0.39
   3 ?   10.8   0.1   5.2e-05      0.31       8      39 ..     186     217 ..     180     222 .. 0.80

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 0.47
                      Vpu  8 glialivaliiaivv 22
                              ++ +i+  ii ivv
  PHY93_06095|PHY93_06095 49 QIVWFIFSWIIGIVV 63
                             578888888888887 PP

  == domain 2  score: -4.9 bits;  conditional E-value: 3
                      Vpu  8 glialivaliiai 20
                             ++i+    li++ 
  PHY93_06095|PHY93_06095 82 SVIL----LIMVL 90
                             3333....33333 PP

  == domain 3  score: 10.8 bits;  conditional E-value: 5.2e-05
                      Vpu   8 glialivaliiaivvWtivyreykkikkqkei 39 
                              + i++i+a+i a vv  + +rey+k++  + i
  PHY93_06095|PHY93_06095 186 ITIMAIIAMISATVVYNFGLREYQKKRITTFI 217
                              446678999****************9987655 PP

>> DUF4131  Domain of unknown function (DUF4131)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.5      0.21   1.3e+03      27      55 ..      10      38 ..       2      64 .. 0.70
   2 ?   -1.5   2.7      0.28   1.7e+03       7      45 ..      51      93 ..      45     102 .. 0.56
   3 ?    9.9   0.0   9.1e-05      0.54      11      64 ..     165     218 ..     161     236 .. 0.83
   4 ?    0.6   2.3     0.065   3.9e+02       8      42 ..     280     318 ..     274     330 .. 0.56

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.21
                  DUF4131 27 rprrrvllllllllllallgfalrapqpn 55
                             r+ + ++++++++++++ l ++  +++++
  PHY93_06095|PHY93_06095 10 RYDYSFFGICTAIFVIGILNLYSATHSQG 38
                             66777888888888888877766665555 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.28
                  DUF4131  7 lvllalllllllllllllrr....rprrrvllllllllllall 45
                             ++++++ ++ +++ +++ ++    ++    + ++ll+++l+++
  PHY93_06095|PHY93_06095 51 VWFIFSWIIGIVVSFIQPKNffrlAYPSYLISVILLIMVLVVG 93
                             6677777777777777666665533333334444444444443 PP

  == domain 3  score: 9.9 bits;  conditional E-value: 9.1e-05
                  DUF4131  11 alllllllllllllrrrprrrvllllllllllallgfalrapqpnandlsqlle 64 
                              ++l++l+++++ ++r+ +++++ ++++++++ a++++ +  ++ +++++ ++++
  PHY93_06095|PHY93_06095 165 GMLVMLIFFIITFYRKLKWKTITIMAIIAMISATVVYNFGLREYQKKRITTFID 218
                              678899999999999899999999999999999999999999999999999986 PP

  == domain 4  score: 0.6 bits;  conditional E-value: 0.065
                  DUF4131   8 vllalllllllllllllrr....rprrrvllllllllll 42 
                              ++l++l ++l+++ll+l +         v +++l+++++
  PHY93_06095|PHY93_06095 280 IFLIALYIALFYRLLWLASnvnkIFDSVVVVGILAIFFC 318
                              445555555555555544366544444445555555544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (366 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1056  (0.058899); expected 358.6 (0.02)
Passed bias filter:                      338  (0.0188521); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.59u 0.23s 00:00:00.82 Elapsed: 00:00:00.42
# Mc/sec: 2624.05
//
Query:       PHY93_06100|PHY93_06100  [L=151]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.2e-10   40.3   0.0    3.4e-10   39.7   0.0    1.3  1  MarR_2          MarR family
    3.6e-09   36.4   0.0    6.3e-09   35.6   0.0    1.4  1  MarR            MarR family
    2.4e-05   24.0   0.0    4.2e-05   23.2   0.0    1.4  1  LexA_DNA_bind   LexA DNA binding domain
    2.9e-05   24.0   0.0    4.7e-05   23.4   0.0    1.2  1  HTH_20          Helix-turn-helix domain
    4.4e-05   22.9   0.0    7.6e-05   22.2   0.0    1.4  1  HTH_24          Winged helix-turn-helix DNA-binding
     0.0016   18.6   0.0     0.0022   18.2   0.0    1.3  1  HTH_34          Winged helix DNA-binding domain
     0.0017   18.2   0.0     0.0034   17.3   0.0    1.6  1  HTH_36          Helix-turn-helix domain
     0.0033   17.9   0.2      0.011   16.1   0.2    1.9  1  HTH_40          Helix-turn-helix domain
     0.0049   16.8   0.1      0.011   15.6   0.1    1.6  2  HTH_45          Winged helix-turn-helix
      0.005   16.6   0.0     0.0097   15.7   0.0    1.4  1  HTH_IclR        IclR helix-turn-helix domain
     0.0068   16.4   0.0      0.012   15.6   0.0    1.4  1  HTH_Crp_2       Crp-like helix-turn-helix domain
     0.0072   16.8   0.0      0.014   15.9   0.0    1.6  1  HTH_27          Winged helix DNA-binding domain
  ------ inclusion threshold ------
      0.024   14.5   0.0       0.05   13.5   0.0    1.5  1  TrmB            Sugar-specific transcriptional regulator TrmB
      0.029   14.2   0.0       0.04   13.8   0.0    1.3  1  HxlR            HxlR-like helix-turn-helix
      0.033   14.2   0.1      0.058   13.4   0.1    1.4  1  Sulfolobus_pRN  Sulfolobus plasmid regulatory protein
      0.084   12.5   0.0       0.17   11.5   0.0    1.5  2  SMC_ScpB        Segregation and condensation complex subunit 
        0.1   12.1   0.0        0.2   11.3   0.0    1.6  1  GerE            Bacterial regulatory proteins, luxR family


Domain annotation for each model (and alignments):
>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.7   0.0   3.2e-13   3.4e-10       8      61 ..      39      90 ..      30      91 .. 0.92

  Alignments for each domain:
  == domain 1  score: 39.7 bits;  conditional E-value: 3.2e-13
                             HHHHHHHHCTTTSEEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEEEESSSSSS CS
                   MarR_2  8 arvLaaLgrrpgrdltvgelarrlglsksavsrilkrLvaaGLverrpgpeDkR 61
                             + vL+++  + g   t++e+   +gl+k++++ +l++L+++G++er+ +  DkR
  PHY93_06100|PHY93_06100 39 LEVLLFICEHQG--PTIKEIGYGCGLKKQTMTSHLNELEKRGYIERKVNIQDKR 90
                             679*********..7**************************************9 PP

>> MarR  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.6   0.0     6e-12   6.3e-09       7      58 ..      40      91 ..      35      92 .. 0.93

  Alignments for each domain:
  == domain 1  score: 35.6 bits;  conditional E-value: 6e-12
                             HHHHHHHHSTTEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEEETTSTTS CS
                     MarR  7 viLrilyeqgplsvseLakklgvskstvtrvldrLekkGlieRskspeDrRe 58
                             ++L  + e+++++++e++   g++k t+t  l +Lek+G+ieR+ + +D+Re
  PHY93_06100|PHY93_06100 40 EVLLFICEHQGPTIKEIGYGCGLKKQTMTSHLNELEKRGYIERKVNIQDKRE 91
                             577778889999***************************************8 PP

>> LexA_DNA_bind  LexA DNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.2   0.0     4e-08   4.2e-05      25      59 ..      50      83 ..      32      86 .. 0.89

  Alignments for each domain:
  == domain 1  score: 23.2 bits;  conditional E-value: 4e-08
                             ---HHHHHHHHTS-.HHHHHHHHHHHHHTTSEE-G CS
            LexA_DNA_bind 25 pPsireiaralglkSpsaveehLkaLerKGyierd 59
                              P+i+ei+   glk  +++ +hL+ Le++Gyier+
  PHY93_06100|PHY93_06100 50 GPTIKEIGYGCGLK-KQTMTSHLNELEKRGYIERK 83
                             5*************.9*****************97 PP

>> HTH_20  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.4   0.0   4.4e-08   4.7e-05      10      56 ..      36      82 ..      33      84 .. 0.91

  Alignments for each domain:
  == domain 1  score: 23.4 bits;  conditional E-value: 4.4e-08
                             HHHHHHHHHHSTCTTB-HHHHHHHHTS-HHHHHHHHHHHHHCTTEEE CS
                   HTH_20 10 PvRrrilraLaraegltaselaerldlskntlsyHLrvLeeagLvev 56
                             P+ +++l  +++ +g t +e+   ++l+k+t+  HL++Le+ g++e+
  PHY93_06100|PHY93_06100 36 PSFLEVLLFICEHQGPTIKEIGYGCGLKKQTMTSHLNELEKRGYIER 82
                             666777777799*********************************97 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.2   0.0   7.2e-08   7.6e-05       7      48 .]      40      81 ..      39      81 .. 0.95

  Alignments for each domain:
  == domain 1  score: 22.2 bits;  conditional E-value: 7.2e-08
                   HTH_24  7 kILelLqknprisqreLAerlglSpstvnrrlkrLeeeGlIk 48
                             ++L  + ++ + +++e+   +gl ++t + +l++Le+ G+I+
  PHY93_06100|PHY93_06100 40 EVLLFICEHQGPTIKEIGYGCGLKKQTMTSHLNELEKRGYIE 81
                             78999************************************7 PP

>> HTH_34  Winged helix DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.0     2e-06    0.0022      26      67 ..      62     102 ..      39     114 .. 0.75

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 2e-06
                   HTH_34  26 atdgnLsvhlkkLekagYievdkefkgkkprtllriTpeGre 67 
                              + +  + +hl+ Lek gYie++ + ++k+++ +  +T+ G++
  PHY93_06100|PHY93_06100  62 LKKQTMTSHLNELEKRGYIERKVNIQDKREQNI-FLTEFGLK 102
                              5566789********************966655.58888776 PP

>> HTH_36  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   0.0   3.2e-06    0.0034      34      55 .]      59      80 ..      34      80 .. 0.85

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 3.2e-06
                   HTH_36 34 rlglsknTvsraikeLeqlGyi 55
                              +gl+k+T  ++++eLe+ Gyi
  PHY93_06100|PHY93_06100 59 GCGLKKQTMTSHLNELEKRGYI 80
                             59*******************9 PP

>> HTH_40  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.2   1.1e-05     0.011      11      57 ..      49      94 ..      44     149 .. 0.83

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 1.1e-05
                   HTH_40 11 eglsieeIAkerglkesTIegHLaelieegeeidlerlvseeeekeI 57
                             +g +i+eI    glk++T  +HL el + g+ i+ +  +++++e++I
  PHY93_06100|PHY93_06100 49 QGPTIKEIGYGCGLKKQTMTSHLNELEKRGY-IERKVNIQDKREQNI 94
                             899**************************98.444333455666655 PP

>> HTH_45  Winged helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.1   1.1e-05     0.011      12      75 ..      43     114 ..      38     116 .. 0.86
   2 ?   -0.1   0.0      0.91   9.6e+02      12      32 ..     108     128 ..     105     138 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 1.1e-05
                   HTH_45  12 LeaisegeakkTkimykanLsykllnkYLdmLvekgli.......kkskekYvlTekGlel.leklkeleel 75 
                              L ++++++ +  +i y   L+ +++ + L+ L ++g+i       +k++++  lTe Gl++ l+ +++++e+
  PHY93_06100|PHY93_06100  43 LFICEHQGPTIKEIGYGCGLKKQTMTSHLNELEKRGYIerkvniqDKREQNIFLTEFGLKFkLNLFECINEI 114
                              668888888999*************************9999999888999999******9956666666665 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.91
                   HTH_45  12 LeaisegeakkTkimykanLs 32 
                               e i+e e+k T ++ + +L+
  PHY93_06100|PHY93_06100 108 FECINEIEKKYTDLVGDLELN 128
                              577889999999999988887 PP

>> HTH_IclR  IclR helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   9.2e-06    0.0097       6      50 ..      39      82 ..      38      83 .. 0.94

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 9.2e-06
                             HHHHCT-CTTBSS-BHHHHHHHHTS-HHHHHHHHHHHHHTTSEE. CS
                 HTH_IclR  6 laiLdalaeapqeltlselArrtglpkStvhRlLqtLvelGyveq 50
                             l++L ++ e++++ t++e+   +gl k t   +L+ L+++Gy+e+
  PHY93_06100|PHY93_06100 39 LEVLLFICEHQGP-TIKEIGYGCGLKKQTMTSHLNELEKRGYIER 82
                             6789999999998.*****************************97 PP

>> HTH_Crp_2  Crp-like helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   1.1e-05     0.012      23      61 ..      52      88 ..      39      91 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 1.1e-05
                             HHHHHHHHTTSSHHHHHHHHHHHHHTTSEEETEEEEES- CS
                HTH_Crp_2 23 tqeelAsmlGltretvsrilseLkreglisrgrririld 61
                             t +e++  +Gl  +t++  l+eL+++g+i+r+  + i d
  PHY93_06100|PHY93_06100 52 TIKEIGYGCGLKKQTMTSHLNELEKRGYIERK--VNIQD 88
                             557888899*********************65..55655 PP

>> HTH_27  Winged helix DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.0   1.3e-05     0.014      10      66 ..      43      98 ..      34     100 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 1.3e-05
                   HTH_27 10 hlirhrrrrkkladlcgrlnvedshisyslkkLtekGLvertgdeadrrekrvrlTd 66
                               i  ++ + +++++     + ++++ + l++L+++G++er+   +d+re  + lT+
  PHY93_06100|PHY93_06100 43 LFIC-EHQGPTIKEIGYGCGLKKQTMTSHLNELEKRGYIERKVNIQDKREQNIFLTE 98
                             4444.5778899999999999****************************99888887 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   4.7e-05      0.05       5      55 ..      30      83 ..      26      92 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 4.7e-05
                             HHHHHCCCHCHHHH...HHCCCHHCHHCCCTTSSCHCHHHHHHHHHHCTSEEEE CS
                     TrmB  5 GLseyEakvYlaLl...klgpatadeiaeelgvprskvYevLrsLedkGlVere 55
                             G+++   +   +Ll   +++  t++ei    g+ +++  + L++Le++G++er+
  PHY93_06100|PHY93_06100 30 GFTDLRPSFLEVLLficEHQGPTIKEIGYGCGLKKQTMTSHLNELEKRGYIERK 83
                             5555555555566666699999******************************97 PP

>> HxlR  HxlR-like helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   3.8e-05      0.04      30      74 ..      61     105 ..      41     122 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 3.8e-05
                              TS-HHHHHHHHHHHHHTTSEEEEEESSSS-EEEEEE-TCGGGGHH CS
                     HxlR  30 kisqkmLaqrLreLeqdglierevypevPpkveYsltekGrslep 74 
                              ++ +++++++L eLe+ g ier+v  +     +  lte+G + + 
  PHY93_06100|PHY93_06100  61 GLKKQTMTSHLNELEKRGYIERKVNIQDKREQNIFLTEFGLKFKL 105
                              567899**********************9999999****987653 PP

>> Sulfolobus_pRN  Sulfolobus plasmid regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.1   5.5e-05     0.058       8      53 ..      40      85 ..      35     107 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 5.5e-05
           Sulfolobus_pRN  8 ekillilsrrcatleeleektGiekeellvyltrlykrGlisrkWr 53
                             e +l+i  ++  t+ e+    G++k+++  +l  l krG i rk +
  PHY93_06100|PHY93_06100 40 EVLLFICEHQGPTIKEIGYGCGLKKQTMTSHLNELEKRGYIERKVN 85
                             78899999***********************************964 PP

>> SMC_ScpB  Segregation and condensation complex subunit ScpB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00016      0.17      72     136 ..      25      92 ..      10     116 .. 0.76
   2 ?   -1.8   0.0         2   2.1e+03      31      53 ..     108     130 ..      96     135 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00016
                 SMC_ScpB  72 lvkekkktrLsqaaletLaiIaykqpvtraeiee...iRGvnsdsvvrtLlerglieekgrkeepgrp 136
                              l++ +  t+L  + le+L  I  +q  t +ei     ++ ++ +s++++L +rg ie+k + + +   
  PHY93_06100|PHY93_06100  25 LLQVRGFTDLRPSFLEVLLFICEHQGPTIKEIGYgcgLKKQTMTSHLNELEKRGYIERKVNIQDKREQ 92 
                              555556789999********************87222455568999**********998876555444 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 2
                 SMC_ScpB  31 eealeeLkeeyeeedrglelvev 53 
                               e+++e++++y++    lel++v
  PHY93_06100|PHY93_06100 108 FECINEIEKKYTDLVGDLELNRV 130
                              57788888888776666666665 PP

>> GerE  Bacterial regulatory proteins, luxR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00019       0.2      16      43 ..      49      76 ..      39      92 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00019
                             TTS-HHHHHHHHTS-HHHHHHHHHHHHH CS
                     GerE 16 eGksnkeIAeelniSekTVkvhksnimk 43
                             +G + keI++ ++++++T ++h+ ++ k
  PHY93_06100|PHY93_06100 49 QGPTIKEIGYGCGLKKQTMTSHLNELEK 76
                             799*******************998755 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (151 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       556  (0.0310112); expected 358.6 (0.02)
Passed bias filter:                      402  (0.0224218); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              17  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1137.06
//
Query:       PHY93_06105|PHY93_06105  [L=171]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
     0.0063   16.1   0.2     0.0075   15.9   0.2    1.2  1  Tsc35      Testis-specific protein 35
     0.0092   16.5   0.0      0.014   15.9   0.0    1.3  1  Rhodanese  Rhodanese-like domain


Domain annotation for each model (and alignments):
>> Tsc35  Testis-specific protein 35
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.2   8.4e-07    0.0075      90     172 ..      19     107 ..       1     117 [. 0.75

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 8.4e-07
                    Tsc35  90 imkemqkdmdekmdvliniqknnklPlrrgpkeqqelrllgk..tdkdpqlr..lkkvdgadgaplalekktlalqktkkd...pl 168
                              i k++   mdek+d  i  q+n+ + +++g   ++++ l+g+   d +pq    + +  ++d   l +++kt+++++ k+    pl
  PHY93_06105|PHY93_06105  19 IEKNIT-RMDEKLDFSITLQRNHLVRVKNGEEIDDNMILMGRpyNDISPQKAweIYNNPNIDFFVLDVSQKTFQSPRLKEAiqiPL 103
                              444444.4*********************************844577788651156677788899999999999988875322367 PP

                    Tsc35 169 dslh 172
                              + lh
  PHY93_06105|PHY93_06105 104 EELH 107
                              7776 PP

>> Rhodanese  Rhodanese-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.0   1.6e-06     0.014       1     104 [.      65     155 ..      65     158 .. 0.87

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 1.6e-06
                Rhodanese   1 sakelkellekgkva..llDvRppeeYekghIpgAvnvskdtlsrakkseapllelpeellelgidnkktvvvycdgggraaaaaa 84 
                              s+++++e+ ++++++  +lDv+++  ++  ++++A+ +             pl el  ++ e   ++  +v ++ ++g r+ +a  
  PHY93_06105|PHY93_06105  65 SPQKAWEIYNNPNIDffVLDVSQKT-FQSPRLKEAIQI-------------PLEELHIRFVEI-PSKTVPVMIISENGLRSIQACE 135
                              57788899999999999****9977.999*********.............888888888887.6679999999999999999966 PP

                Rhodanese  85 llkklGyknvsvldGGfkaw 104
                              +l k G+ n+ ++ GG++ w
  PHY93_06105|PHY93_06105 136 MLVKKGFFNINNISGGYEFW 155
                              6666*************988 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (171 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       497  (0.0277205); expected 358.6 (0.02)
Passed bias filter:                      388  (0.0216409); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1297.26
//
Query:       PHY93_06110|PHY93_06110  [L=435]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.1e-09   37.6   0.5    5.5e-09   36.3   0.5    1.8  1  HD        HD domain


Domain annotation for each model (and alignments):
>> HD  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.3   0.5   3.1e-13   5.5e-09       1      92 [.      49     174 ..      49     207 .. 0.68

  Alignments for each domain:
  == domain 1  score: 36.3 bits;  conditional E-value: 3.1e-13
                              HHHHHHHHHHHHHHHHHHHHH........HHHHHHHHHHHHHTTTTHHHHTS..HHH................HHH..CTCCHHHH CS
                       HD   1 rleHsleVaklarrlaedlge........eedrellllaaLlHDiGkgpfgdafekk................eee..fekflaHe 60 
                              r++Hs++V+++a++  ++l +        +  +e+ +la+LlHD+G+ p +++ e                  + +  ++++  He
  PHY93_06110|PHY93_06110  49 RFIHSIGVMHIAEKAFDRLFKetlfekdiQRLKETFKLACLLHDVGHAPLSHSTETVmpklselniptdflskK-DqkTDRQATHE 133
                              79*****************99******99999********************9998887776666665555431.14455555666 PP

                              HHHHHHHHHHHHHHHHH.........HHHHHHHHHTTCCHH CS
                       HD  61 kvgaeilrevekrlgld.........ledvaklirehhesw 92 
                              +++ + + ++     ++          + +a+li  h+ + 
  PHY93_06110|PHY93_06110 134 DYTIKSIVDSSFAGSFSlvekkfgvgRKYIADLITGHTSDA 174
                              66665555555555444555555555556666666666555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (435 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       679  (0.0378716); expected 358.6 (0.02)
Passed bias filter:                      389  (0.0216967); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.25s 00:00:00.82 Elapsed: 00:00:00.43
# Mc/sec: 3052.16
//
Query:       PHY93_06115|PHY93_06115  [L=84]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.9e-15   57.0   0.0    2.4e-15   56.7   0.0    1.1  1  GST_N_3        Glutathione S-transferase, N-terminal domain
    5.4e-13   48.9   0.1    6.9e-13   48.6   0.1    1.1  1  Glutaredoxin   Glutaredoxin
    6.4e-09   36.0   0.0    7.8e-09   35.7   0.0    1.1  1  GST_N_2        Glutathione S-transferase, N-terminal domain
    0.00037   20.5   0.1    0.00052   20.0   0.1    1.2  1  Thioredoxin_3  Thioredoxin domain
  ------ inclusion threshold ------
      0.011   15.5   0.0      0.012   15.3   0.0    1.1  1  IL31           Interleukin 31
      0.023   14.9   0.2        1.1    9.4   0.0    2.0  2  Thioredoxin_4  Thioredoxin


Domain annotation for each model (and alignments):
>> GST_N_3  Glutathione S-transferase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.7   0.0     8e-19   2.4e-15       1      71 [.       8      79 ..       8      82 .. 0.96

  Alignments for each domain:
  == domain 1  score: 56.7 bits;  conditional E-value: 8e-19
                             EES-TTSHHHHHHHHHHHHHT--EEEE---TTTT.HHHHHHH-TT--SSEEETTS-EEESHHHHHHHHHHHH CS
                  GST_N_3  1 LygfpaSpyarrvrlaLnekglpvevvevtpgeh.deellaknplgkvPvLeddgealtdSlaIidyLeely 71
                             Ly+f ++py++rv  ++ne++++v++ ++  + +  + l  ++++++vP L ++g+ +++Sl+Ii +L  ++
  PHY93_06115|PHY93_06115  8 LYYFDSCPYCQRVLNIINELKIKVAYKNIYDDINeMQKLIYITGRKTVPCLFINGDPMHESLDIINWLKANQ 79
                             9****************************999998*********************************8876 PP

>> Glutaredoxin  Glutaredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.6   0.1   2.3e-16   6.9e-13       2      58 ..       7      63 ..       6      65 .. 0.96

  Alignments for each domain:
  == domain 1  score: 48.6 bits;  conditional E-value: 2.3e-16
                             EEEESTSSHHHHHHHHHHHHTTGGEEEEEGCCSHHHHHHHHHHHTSSSSSEEEETTE CS
             Glutaredoxin  2 vlftkptCpyCkkakrlLkelgvkfeeidvdkdeeireelkelsgvrtvPqvfidgk 58
                             +l+ +  CpyC+++ ++ +el++k+++ ++ +d ++ ++l  ++g++tvP++fi+g+
  PHY93_06115|PHY93_06115  7 ELYYFDSCPYCQRVLNIINELKIKVAYKNIYDDINEMQKLIYITGRKTVPCLFINGD 63
                             688899*************************************************97 PP

>> GST_N_2  Glutathione S-transferase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.7   0.0   2.6e-12   7.8e-09       2      68 ..      14      76 ..      13      78 .. 0.92

  Alignments for each domain:
  == domain 1  score: 35.7 bits;  conditional E-value: 2.6e-12
                             -HHHHHHHHHHHHCT--EEEEEEH...-TTSHHHHHHHHCTTTSSSEEE-CTTEEEESHHHHHHHHH CS
                  GST_N_2  2 CPwahRvlialalkglediisvvvlepkgfekseefprlnprgtVPvLwdkdgqvineSseIlryle 68
                             CP+++Rvl  ++++++  +++ +    ++ +  + +  +++r tVP+L++ +g +  eS++I+ +l 
  PHY93_06115|PHY93_06115 14 CPYCQRVLNIINELKIKVAYKNIY---DDINEMQKLIYITGRKTVPCLFI-NGDPMHESLDIINWLK 76
                             **********************94...567777789*************9.9*************96 PP

>> Thioredoxin_3  Thioredoxin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.0   0.1   1.7e-07   0.00052       9      59 ..      13      64 ..       8      67 .. 0.89

  Alignments for each domain:
  == domain 1  score: 20.0 bits;  conditional E-value: 1.7e-07
                             SSTTCHHHHHHHHHHCHCCTCECEEECCTTHHHH.HHCT-SSSSEEECTTCE CS
            Thioredoxin_3  9 gCakCpklekavkeaaaekgikaevekvtdfeei.ekygVmsvPalvidgkv 59
                             +C++C+++ ++++e+  +   k  ++++++++++    g  +vP l+i+g  
  PHY93_06115|PHY93_06115 13 SCPYCQRVLNIINELKIKVAYKNIYDDINEMQKLiYITGRKTVPCLFINGDP 64
                             7*********9999988888999999999999998899999********975 PP

>> IL31  Interleukin 31
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.3   0.0   4.2e-06     0.012      14      75 ..      20      81 ..      13      84 .] 0.83

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 4.2e-06
                     IL31 14 lkkiikeLksls..kklledyekkekGvsesesyqlpcltsdreapnninssailaylkaikpl 75
                             + +ii+eLk ++  k++++d ++ +k +    + ++pcl  + ++ ++  s  i+ +lka ++ 
  PHY93_06115|PHY93_06115 20 VLNIINELKIKVayKNIYDDINEMQKLIYITGRKTVPCLFINGDPMHE--SLDIINWLKANQET 81
                             567999998765449******************************975..58888888876655 PP

>> Thioredoxin_4  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   0.2    0.0045        14      15      39 ..       5      28 ..       1      37 [. 0.76
   2 ?    9.4   0.0   0.00038       1.1     111     160 ..      25      74 ..      18      80 .. 0.83

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.0045
                             EEEEEEE-TT-HHHHHHHHHHHHHH CS
            Thioredoxin_4 15 vtvieyedlrCphCakfeeevekll 39
                               +++y   +Cp+C +  + +++l+
  PHY93_06115|PHY93_06115  5 L-LELYYFDSCPYCQRVLNIINELK 28
                             4.77888889*****9888777665 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.00038
                              HHHTS-------HHHHHHHHHHHHHHT--SS-EEEETTEEE-TT--HHHH CS
            Thioredoxin_4 111 ekfeacleeekldalveaeskeakkagiestPtfiingekveepqtyeel 160
                               +++ +++ + + +++ +++k    +g +++P ++ing  ++e+ ++  +
  PHY93_06115|PHY93_06115  25 NELKIKVAYKNIYDDINEMQKLIYITGRKTVPCLFINGDPMHESLDIINW 74 
                              56666778888999999**********************99999887665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (84 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       697  (0.0388756); expected 358.6 (0.02)
Passed bias filter:                      480  (0.0267723); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 632.91
//
Query:       PHY93_06120|PHY93_06120  [L=260]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.7e-08   32.9  65.0    6.7e-08   32.9  65.0    1.9  1  HC2       Histone H1-like nucleoprotein HC2
  ------ inclusion threshold ------
       0.64    8.6  10.3       0.64    8.6  10.3    1.0  1  Ndc1_Nup  Nucleoporin protein Ndc1-Nup


Domain annotation for each model (and alignments):
>> HC2  Histone H1-like nucleoprotein HC2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.9  65.0   7.4e-12   6.7e-08      64     146 ..       8      93 ..       1      96 [. 0.84

  Alignments for each domain:
  == domain 1  score: 32.9 bits;  conditional E-value: 7.4e-12
                      HC2  64 aaakkaavkkavakkvvakk.kvakKavAKKaaakKvv.akkvvakKtvakkaaaakKpaakkavakkaa.arKaaakKavaKkaa 146
                               +akka+ kka akk++akk ++akK vAKKa+akK++  kk vakK++akk+a+akKp+akk  akkaa ++K++akKa aKk+a
  PHY93_06120|PHY93_06120   8 KSAKKAPAKKAPAKKAPAKKaAPAKKPVAKKAPAKKTApIKKPVAKKAPAKKTAPAKKPVAKKVPAKKAAsVKKPVAKKAPAKKTA 93 
                              36799999999999999999778999999999999998459999999999999999999999999999863699999999999987 PP

>> Ndc1_Nup  Nucleoporin protein Ndc1-Nup
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6  10.3   7.2e-05      0.64     352     473 ..       9     143 ..       3     239 .. 0.55

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 7.2e-05
                 Ndc1_Nup 352 ergq.papkaapskapknkasapvkelprlsksplkkk..ddeifgn.....sltaeaspks...sssskegvekalsslakspgq 426
                              + ++ pa+ka+++kap++ka+    ++p  +k+p kk+   ++ +++     ++++ ++p     + ++ ++v+k +++ a++ ++
  PHY93_06120|PHY93_06120   9 SAKKaPAKKAPAKKAPAKKAA--PAKKPVAKKAPAKKTapIKKPVAKkapakKTAPAKKPVAkkvPAKKAASVKKPVAKKAPAKKT 92 
                              444445555555443343333..344444445566665553334444455553333333333112334455555555555555543 PP

                 Ndc1_Nup 427 spsptarls......prarkllekaksrllskeqkealsestikkkvekelaq 473
                              +  p+a ++      +  +k+++k+++ l ++e+ ++ ++s++  k++++++ 
  PHY93_06120|PHY93_06120  93 A--PVAVAAkkakavSVPAKKVDKKSKVLSKEEAIQKYKNSAAPIKAKSKAKP 143
                              3..33322244556555566666666666665555555555555554444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (260 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1462  (0.0815439); expected 358.6 (0.02)
Passed bias filter:                      436  (0.0243181); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.64u 0.26s 00:00:00.90 Elapsed: 00:00:00.44
# Mc/sec: 1790.13
//
Query:       PHY93_06125|PHY93_06125  [L=903]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.5e-07   31.6   2.9    3.3e-07   30.5   2.9    1.5  1  Tad       Putative Flp pilus-assembly TadE/G-like
  ------ inclusion threshold ------
       0.19   12.0   1.0       0.43   10.9   1.0    1.6  1  TadE      TadE-like protein


Domain annotation for each model (and alignments):
>> Tad  Putative Flp pilus-assembly TadE/G-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.5   2.9   3.7e-11   3.3e-07       1      47 [.       7      53 ..       7      56 .. 0.93

  Alignments for each domain:
  == domain 1  score: 30.5 bits;  conditional E-value: 3.7e-11
                      Tad  1 GsaavlfalallpllllvglavDvgravlartrlQnAADaAALAaAq 47
                             G+ ++ + + l++++ ++++ ++vg  v a+  lQnA+DaAA ++A+
  PHY93_06125|PHY93_06125  7 GQLSIFMGITLIIVMSMLAFIINVGLFVKAKINLQNATDAAAFSGAA 53
                             8889888899999999****************************985 PP

>> TadE  TadE-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   1.0   4.8e-05      0.43       7      42 ..      13      48 ..       7      48 .. 0.88

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 4.8e-05
                     TadE  7 FALvlPlllllllgiiefgrylyarqtlnnAAreaA 42
                             + + l +++ +l++ii +g+++ a++ l+nA+ +aA
  PHY93_06125|PHY93_06125 13 MGITLIIVMSMLAFIINVGLFVKAKINLQNATDAAA 48
                             5678889999***********************998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (903 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       353  (0.0196888); expected 358.6 (0.02)
Passed bias filter:                      292  (0.0162865); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.71u 0.24s 00:00:00.95 Elapsed: 00:00:00.44
# Mc/sec: 6104.30
//
Query:       PHY93_05355|PHY93_05355  [L=179]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    1.3e-38  132.7   0.6    1.5e-38  132.5   0.6    1.0  1  Chalcone_3  Chalcone isomerase-like
    9.9e-08   32.0   1.3     0.0014   18.5   0.1    2.1  2  Chalcone_2  Chalcone isomerase like
     0.0014   18.3   0.1     0.0021   17.7   0.1    1.2  1  DUF3231     Protein of unknown function (DUF3231)
  ------ inclusion threshold ------
      0.042   13.4   0.1      0.048   13.3   0.1    1.1  1  Cas_DxTHG   CRISPR-associated (Cas) DxTHG family


Domain annotation for each model (and alignments):
>> Chalcone_3  Chalcone isomerase-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  132.5   0.6   3.3e-42   1.5e-38       2     164 ..      19     179 .]      18     179 .] 0.91

  Alignments for each domain:
  == domain 1  score: 132.5 bits;  conditional E-value: 3.3e-42
               Chalcone_3   2 vevagvklpdtvtvggkeLkLnGaGlRskfffk..vYvagLYlpekssdaeailaae.ekairleilsrdvsseklkkaleegfek 84 
                              ++++ v+++d+v+v+gkeL LnG+G+R+++++k  vY ++LYl++k++d++++l+++  k+i ++++ rdv+++kl +a++eg+e+
  PHY93_05355|PHY93_05355  19 ATLDSVTFADKVNVEGKELILNGIGIRKATILKikVYYGALYLEQKTKDPATFLTTTaPKQIVMHFV-RDVDAKKLRDAFTEGMEA 103
                              67899**********************99886444*******************7762478999999.67**************88 PP

               Chalcone_3  85 ntaeelaelkariekfkalfakevkkgdvitldylpgkgvvvvvngkqlgtiegedfakAllkiwLGekPadkkLKkaLL 164
                              ++ +++a++ka ++kf++ +  +v+k+d i +++++ +gv++ v+gkq ++i+g++f++All+iw+ + P d++L+++LL
  PHY93_05355|PHY93_05355 104 AN-KNHASFKALLDKFNSNIV-DVVKNDLIIITFTN-DGVSLNVKGKQAEKIAGAEFSRALLNIWFTN-PRDENLRNGLL 179
                              77.77999**********998.7*******998885.89***************************98.**********9 PP

>> Chalcone_2  Chalcone isomerase like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.5   0.1     3e-07    0.0014       2      34 ..      36      68 ..      35      82 .. 0.81
   2 !   13.2   0.1   1.3e-05     0.057      91     182 ..      84     159 ..      69     177 .. 0.74

  Alignments for each domain:
  == domain 1  score: 18.5 bits;  conditional E-value: 3e-07
               Chalcone_2  2 eytLlGlGvRtVsflsiqVYvvGlYvaksdiak 34
                             e+ L G+G+R+ ++l+i+VY  +lY++++ +  
  PHY93_05355|PHY93_05355 36 ELILNGIGIRKATILKIKVYYGALYLEQKTKDP 68
                             56678*********************9987654 PP

  == domain 2  score: 13.2 bits;  conditional E-value: 1.3e-05
               Chalcone_2  91 PvrnTdfshLrDGfvraitarakkkkeeeedeefgeslkefkslFnrkgsvpkgkeLlLerdangeLsvlyedkkkkkleklGrve 176
                               vr+ d + LrD+f+ +++a  k++       +f++ l++f+s       v k++ ++++ +++g +s+ +++k+++      +++
  PHY93_05355|PHY93_05355  84 FVRDVDAKKLRDAFTEGMEAANKNH------ASFKALLDKFNSNIVD---VVKNDLIIITFTNDG-VSLNVKGKQAE------KIA 153
                              58***************99976665......7999999999998866...999998888888766.56666666555......444 PP

               Chalcone_2 177 dervsr 182
                                  sr
  PHY93_05355|PHY93_05355 154 GAEFSR 159
                              445555 PP

>> DUF3231  Protein of unknown function (DUF3231)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   0.1   4.6e-07    0.0021      26      80 ..      72     126 ..      69     135 .. 0.88

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 4.6e-07
                  DUF3231  26 ianslgialitgFlqvaedkeikelleralelsnkhikelkelLkeenlpiPsgf 80 
                              +++++ ++++ +F+ +++ k++++ +++++e +nk+ +++k lL + n  i +  
  PHY93_05355|PHY93_05355  72 LTTTAPKQIVMHFVRDVDAKKLRDAFTEGMEAANKNHASFKALLDKFNSNIVDVV 126
                              6788899*************************************99888887766 PP

>> Cas_DxTHG  CRISPR-associated (Cas) DxTHG family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.1   1.1e-05     0.048     141     219 ..      46     128 ..      37     172 .. 0.71

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.1e-05
                Cas_DxTHG 141 nltikgi..yYgaf..keeeedPildlteflelsdwltaverflktgdaeklaellre.kkek.kkek..lkklk.klkeklkkel 217
                              + ti +i  yYga+   ++++dP + lt     +     v  f++  da+kl++ + e   e+ +k++   k+l  k+++ + + +
  PHY93_05355|PHY93_05355  46 KATILKIkvYYGALylEQKTKDPATFLTTTAPKQ----IVMHFVRDVDAKKLRDAFTEgM-EAaNKNHasFKALLdKFNSNIVDVV 126
                              4566666669******999******999888877....7789**************7752.3334444333333347777555555 PP

                Cas_DxTHG 218 ee 219
                              ++
  PHY93_05355|PHY93_05355 127 KN 128
                              54 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (179 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       660  (0.0368119); expected 358.6 (0.02)
Passed bias filter:                      492  (0.0274416); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1324.63
//
Query:       PHY93_06130|PHY93_06130  [L=130]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0045   16.9   0.4        1.5    8.9   0.0    2.3  2  Zn_Tnp_IS1595    Transposase zinc-ribbon domain
  ------ inclusion threshold ------
      0.012   15.7   0.2       0.26   11.4   0.0    2.2  2  Zn-ribbon_8      Zinc ribbon domain
      0.014   15.4   0.2       0.65   10.1   0.0    2.2  2  Elf1             Transcription elongation factor Elf1 like
      0.021   15.0   0.3       0.64   10.2   0.1    2.1  2  zf-UDP           Zinc-binding RING-finger
       0.03   14.6   0.2        2.4    8.5   0.0    2.4  2  zinc_ribbon_9    zinc-ribbon
      0.033   14.8   0.8       0.42   11.3   0.1    2.3  2  zf-ISL3          zinc-finger of transposase IS204/IS1001/IS10
      0.049   13.6   0.5         11    6.1   0.1    2.3  2  Ogr_Delta        Ogr/Delta-like zinc finger
       0.05   13.9   0.2         14    6.0   0.0    2.2  2  zf-Di19          Drought induced 19 protein (Di19), zinc-bind
      0.064   13.5   2.9       0.39   11.0   3.0    2.0  1  zf-LITAF-like    LITAF-like zinc ribbon domain
      0.085   13.3   0.3       0.59   10.6   0.3    2.0  1  Lar_restr_allev  Restriction alleviation protein Lar
       0.23   11.3   3.2        0.9    9.5   0.2    2.3  2  zf-FPG_IleRS     Zinc finger found in FPG and IleRS
       0.24   10.8   0.4       0.24   10.8   0.4    2.1  2  zf-ribbon_3      zinc-ribbon domain
       0.32   10.8   0.3       0.32   10.8   0.3    2.2  2  HscB_4_cys       Co-chaperone HscB tetracysteine metal bindin
       0.48   10.5   5.0        1.1    9.4   0.8    2.3  2  UPF0547          Uncharacterised protein family UPF0547
       0.53   10.1   3.4        3.6    7.4   0.3    2.4  2  zinc_ribbon_2    zinc-ribbon domain
        7.2    6.7   7.2        7.2    6.7   0.7    2.3  2  DUF1610          Domain of unknown function (DUF1610)


Domain annotation for each model (and alignments):
>> Zn_Tnp_IS1595  Transposase zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.2   0.1    0.0089        10      18      33 ..      19      34 ..      10      40 .. 0.80
   2 !    8.9   0.0    0.0013       1.5      17      27 ..      85      95 ..      75     107 .. 0.76

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.0089
            Zn_Tnp_IS1595 18 gfvCPhCgsrkayrik 33
                             +f CP C s++ ++i+
  PHY93_06130|PHY93_06130 19 TFFCPLCRSERGISIS 34
                             488******9988887 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 0.0013
            Zn_Tnp_IS1595 17 ngfvCPhCgsr 27
                                 CPhCg +
  PHY93_06130|PHY93_06130 85 KQIACPHCGFD 95
                             5577*****77 PP

>> Zn-ribbon_8  Zinc ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.0   0.0       0.2   2.3e+02      24      34 ..      16      27 ..       7      30 .. 0.66
   2 ?   11.4   0.0   0.00023      0.26      14      34 ..      74      94 ..      73      97 .. 0.80

  Alignments for each domain:
  == domain 1  score: 2.0 bits;  conditional E-value: 0.2
              Zn-ribbon_8 24 aplta.CPeCgs 34
                             ++ t  CP C s
  PHY93_06130|PHY93_06130 16 KASTFfCPLCRS 27
                             455666888876 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 0.00023
              Zn-ribbon_8 14 efevlqsisdapltaCPeCgs 34
                             +fe  ++ + ++++aCP+Cg 
  PHY93_06130|PHY93_06130 74 VFELAVRTDYKKQIACPHCGF 94
                             799888888778899****95 PP

>> Elf1  Transcription elongation factor Elf1 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.0   0.00058      0.65      15      42 ..      13      40 ..       2      46 .. 0.71
   2 ?    3.4   0.0      0.07        79      17      30 ..      82      95 ..      76     110 .. 0.73

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00058
                     Elf1 15 kkklptkFdCpfCnheksvevkldkkek 42
                              k+  ++F Cp C +e+ ++++   ++k
  PHY93_06130|PHY93_06130 13 YKNKASTFFCPLCRSERGISISPRLSKK 40
                             334578999********99997665544 PP

  == domain 2  score: 3.4 bits;  conditional E-value: 0.07
                     Elf1 17 klptkFdCpfCnhe 30
                              ++++  Cp+C+ +
  PHY93_06130|PHY93_06130 82 DYKKQIACPHCGFD 95
                             46777888888765 PP

>> zf-UDP  Zinc-binding RING-finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.1   0.00057      0.64      36      59 ..       5      28 ..       1      40 [. 0.89
   2 ?    3.3   0.0     0.082        92      51      62 ..      87     101 ..      62     112 .. 0.68

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00057
                   zf-UDP 36 pvcrpcyeyerkdgnqsCPqCktr 59
                             p++  +y+y+ k  +  CP C+++
  PHY93_06130|PHY93_06130  5 PLVDRVYKYKNKASTFFCPLCRSE 28
                             89999****************975 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.082
                   zf-UDP  51 qsCPqC...ktrykr 62 
                               +CP+C    t ykr
  PHY93_06130|PHY93_06130  87 IACPHCgfdATWYKR 101
                              479999444467776 PP

>> zinc_ribbon_9  zinc-ribbon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.0   0.0     0.056        62      21      29 ..      19      27 ..       9      37 .. 0.81
   2 ?    8.5   0.0    0.0021       2.4      15      28 ..      80      93 ..      76      95 .. 0.70

  Alignments for each domain:
  == domain 1  score: 4.0 bits;  conditional E-value: 0.056
            zinc_ribbon_9 21 dvlCPhCgg 29
                               +CP C++
  PHY93_06130|PHY93_06130 19 TFFCPLCRS 27
                             348****97 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.0021
            zinc_ribbon_9 15 spdedsdvlCPhCg 28
                             ++d   +++CPhCg
  PHY93_06130|PHY93_06130 80 RTDYKKQIACPHCG 93
                             455555678****7 PP

>> zf-ISL3  zinc-finger of transposase IS204/IS1001/IS1096/IS1165
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.0      0.35   3.9e+02       4      11 ..      21      28 ..      18      41 .. 0.84
   2 ?   11.3   0.1   0.00037      0.42       2      19 ..      86     104 ..      85     112 .. 0.84

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.35
                  zf-ISL3  4 rCPnCgsk 11
                              CP C+s 
  PHY93_06130|PHY93_06130 21 FCPLCRSE 28
                             7****986 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 0.00037
                  zf-ISL3   2 phrCPnCgsk.tvvkhgkk 19 
                              +++CP+Cg   t++k++ k
  PHY93_06130|PHY93_06130  86 QIACPHCGFDaTWYKRDVK 104
                              689*******999999875 PP

>> Ogr_Delta  Ogr/Delta-like zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   0.1     0.012        14       2      19 ..      22      39 ..      21      43 .. 0.91
   2 ?    6.1   0.1    0.0096        11       2       9 ..      89      96 ..      88     104 .. 0.82

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.012
                Ogr_Delta  2 CPhCgapaaartsrnlsk 19
                             CP+C+++  ++ s +lsk
  PHY93_06130|PHY93_06130 22 CPLCRSERGISISPRLSK 39
                             *******99999999998 PP

  == domain 2  score: 6.1 bits;  conditional E-value: 0.0096
                Ogr_Delta  2 CPhCgapa 9 
                             CPhCg  a
  PHY93_06130|PHY93_06130 89 CPHCGFDA 96
                             *****766 PP

>> zf-Di19  Drought induced 19 protein (Di19), zinc-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.0     0.013        14      30      39 ..      18      27 ..       3      46 .. 0.71
   2 ?    5.9   0.1     0.014        15       2      11 ..      86      95 ..      85     103 .. 0.80

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.013
                  zf-Di19 30 kevvCPvCae 39
                                 CP+C +
  PHY93_06130|PHY93_06130 18 STFFCPLCRS 27
                             4556777753 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.014
                  zf-Di19  2 sftCPyCgke 11
                             +++CP+Cg +
  PHY93_06130|PHY93_06130 86 QIACPHCGFD 95
                             578****975 PP

>> zf-LITAF-like  LITAF-like zinc ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   3.0   0.00034      0.39       5      63 ..      19      93 ..      15      95 .. 0.53

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00034
            zf-LITAF-like  5 qvdCpaCqqrv.......vTsveyksgkltwlla..lllclfgcllccliPfcv.........dslkdvehyCpnCg 63
                             ++ Cp C+ +         ++ +y +  lt +++  +l+ ++g + c++i f+v         ++  +++  Cp+Cg
  PHY93_06130|PHY93_06130 19 TFFCPLCRSERgisisprLSKKNYAQILLTSIVLgsFLFPFIG-VKCFFI-FFVswgvfelavRTDYKKQIACPHCG 93
                             678*****99955554443333333333444332213333333.233333.33334444444488888999999997 PP

>> Lar_restr_allev  Restriction alleviation protein Lar
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.3   0.00052      0.59       6      44 ..      22     102 ..      17     111 .. 0.57

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00052
          Lar_restr_allev   6 CPfCggravlersqrvvaeigq..........................................cvyCadCgastpwfkia 44 
                              CP C ++  +  s+r +++                                             +++C  Cg   +w+k++
  PHY93_06130|PHY93_06130  22 CPLCRSERGISISPRLSKKNYAqilltsivlgsflfpfigvkcffiffvswgvfelavrtdykkQIACPHCGFDATWYKRD 102
                              666665555555555444322246666666666666666666666666666666666666666666666666655555544 PP

>> zf-FPG_IleRS  Zinc finger found in FPG and IleRS
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.2   0.00081       0.9      18      27 ..      16      25 ..      14      27 .. 0.82
   2 ?    2.2   0.3      0.15   1.7e+02       4       7 ..      89      92 ..      87      93 .. 0.63

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00081
                             TEEEEE-TTT CS
             zf-FPG_IleRS 18 grstyfCprC 27
                               st+fCp C
  PHY93_06130|PHY93_06130 16 KASTFFCPLC 25
                             569******* PP

  == domain 2  score: 2.2 bits;  conditional E-value: 0.15
                             -TTT CS
             zf-FPG_IleRS  4 CpRC 7 
                             Cp+C
  PHY93_06130|PHY93_06130 89 CPHC 92
                             5555 PP

>> zf-ribbon_3  zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.0   0.3      0.55   6.2e+02       2       8 ..      19      25 ..      18      25 .. 0.71
   2 ?   10.8   0.4   0.00022      0.24      16      24 ..      86      94 ..      84      95 .. 0.84

  Alignments for each domain:
  == domain 1  score: 0.0 bits;  conditional E-value: 0.55
              zf-ribbon_3  2 tvrCPnC 8 
                             t +CP C
  PHY93_06130|PHY93_06130 19 TFFCPLC 25
                             6788877 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 0.00022
              zf-ribbon_3 16 dnvCpyCGt 24
                             +++Cp+CG 
  PHY93_06130|PHY93_06130 86 QIACPHCGF 94
                             799*****7 PP

>> HscB_4_cys  Co-chaperone HscB tetracysteine metal binding motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.3   0.00028      0.32      15      24 ..      17      26 ..      14      27 .. 0.84
   2 ?    1.0   0.4      0.34   3.9e+02      20      23 ..      89      92 ..      85      93 .. 0.90

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00028
                             S---B-TTT- CS
               HscB_4_cys 15 gdefFCpqCR 24
                             +  fFCp CR
  PHY93_06130|PHY93_06130 17 ASTFFCPLCR 26
                             568******* PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.34
                             -TTT CS
               HscB_4_cys 20 CpqC 23
                             Cp+C
  PHY93_06130|PHY93_06130 89 CPHC 92
                             9**9 PP

>> UPF0547  Uncharacterised protein family UPF0547
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.8   0.2      0.12   1.3e+02      14      20 ..      19      25 ..      16      28 .. 0.72
   2 ?    9.4   0.8     0.001       1.1      16      22 ..      88      94 ..      87      95 .. 0.86

  Alignments for each domain:
  == domain 1  score: 2.8 bits;  conditional E-value: 0.12
                  UPF0547 14 aqfCphC 20
                             + fCp+C
  PHY93_06130|PHY93_06130 19 TFFCPLC 25
                             5578888 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.001
                  UPF0547 16 fCphCGy 22
                             +CphCG+
  PHY93_06130|PHY93_06130 88 ACPHCGF 94
                             7*****9 PP

>> zinc_ribbon_2  zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.3     0.082        92      15      21 ..      21      27 ..      13      28 .. 0.77
   2 ?    7.4   0.3    0.0032       3.6      16      21 ..      89      94 ..      84      95 .. 0.69

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.082
            zinc_ribbon_2 15 FCpyCGt 21
                             FCp C++
  PHY93_06130|PHY93_06130 21 FCPLCRS 27
                             6888876 PP

  == domain 2  score: 7.4 bits;  conditional E-value: 0.0032
            zinc_ribbon_2 16 CpyCGt 21
                             Cp+CG+
  PHY93_06130|PHY93_06130 89 CPHCGF 94
                             777775 PP

>> DUF1610  Domain of unknown function (DUF1610)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.7   0.7    0.0064       7.2      12      22 ..      15      25 ..      13      25 .. 0.91
   2 ?    3.1   1.0     0.084        94      18      23 ..      88      93 ..      88      93 .. 0.92

  Alignments for each domain:
  == domain 1  score: 6.7 bits;  conditional E-value: 0.0064
                  DUF1610 12 EravvFpCPNC 22
                             ++a+ F CP C
  PHY93_06130|PHY93_06130 15 NKASTFFCPLC 25
                             89*******88 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.084
                  DUF1610 18 pCPNCG 23
                             +CP CG
  PHY93_06130|PHY93_06130 88 ACPHCG 93
                             6****9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (130 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       853  (0.0475766); expected 358.6 (0.02)
Passed bias filter:                      613  (0.0341904); expected 358.6 (0.02)
Passed Vit filter:                        80  (0.00446204); expected 17.9 (0.001)
Passed Fwd filter:                        16  (0.000892409); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              16  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 957.08
//
Query:       PHY93_06135|PHY93_06135  [L=150]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-42  144.3   0.4    1.5e-42  143.9   0.1    1.3  2  SSB       Single-strand binding protein family


Domain annotation for each model (and alignments):
>> SSB  Single-strand binding protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  143.9   0.1   8.3e-47   1.5e-42       1     104 []       3     106 ..       3     106 .. 0.99
   2 ?   -3.5   0.0       0.6   1.1e+04      40      57 ..     118     135 ..     115     141 .. 0.59

  Alignments for each domain:
  == domain 1  score: 143.9 bits;  conditional E-value: 8.3e-47
                              ECEEEEEEEESSS-EEEEETTSEEEEEEEEEEEEEEEETTCCEEEEEEEEEEEEEHHHHHHHHHH--TT-EEEEEEEEEEEEEECT CS
                      SSB   1 vnkvilvGrlgkdpelrqtesGnavarftlatnrrfkdqegekdeetewhrvvvfgklaevvaeylkkGslvyveGrlqtrkyedq 86 
                              vnkvi+ Grlg+dpel++t+ G av++ft+at++++ d++g+k+e+tewhr+vv+gklae++++yl+kG + ++eG lqtr+++d+
  PHY93_06135|PHY93_06135   3 VNKVIILGRLGQDPELKYTPGGMAVCNFTVATSESWADKAGQKQERTEWHRIVVWGKLAELCNQYLTKGRQAFIEGGLQTRSWDDK 88 
                              7************************************************************************************* PP

                              TSCEEEEEEEEEEEEEEE CS
                      SSB  87 egqkrysteivaeevqfl 104
                              +gqkry+teiva++vqf+
  PHY93_06135|PHY93_06135  89 SGQKRYTTEIVAKTVQFI 106
                              ****************95 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 0.6
                              TCCEEEEEEEEEEEEEHH CS
                      SSB  40 egekdeetewhrvvvfgk 57 
                              +++++++++ ++ ++ ++
  PHY93_06135|PHY93_06135 118 NSQSQGASQSYDTSMVNQ 135
                              555666666666655554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (150 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       474  (0.0264376); expected 358.6 (0.02)
Passed bias filter:                      310  (0.0172904); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.22s 00:00:00.62 Elapsed: 00:00:00.38
# Mc/sec: 1188.84
//
Query:       PHY93_06140|PHY93_06140  [L=68]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    3.1e-10   40.6   0.0    3.5e-10   40.4   0.0    1.0  1  Couple_hipA  HipA N-terminal domain


Domain annotation for each model (and alignments):
>> Couple_hipA  HipA N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.4   0.0     2e-14   3.5e-10      21      76 ..       2      58 ..       1      63 [. 0.94

  Alignments for each domain:
  == domain 1  score: 40.4 bits;  conditional E-value: 2e-14
                             EEEEE-HHHHH.TCS--SCTTC-TTSTEB-CHHHHHHHHTTSBSSHHHHHHHHHHTS CS
              Couple_hipA 21 arFeydpafle.akgpelSlslplsaepytskglpgffanlLPegelrellarrrgi 76
                             ++F+yd++++  ++++++S +++ + + ++ +++++f++nlLPe+ +r+++a++ ++
  PHY93_06140|PHY93_06140  2 FTFKYDDSWIGsKESFDMSPNIKRTLKIHSGNQVKNFLENLLPEDTIRKRIAENNKT 58
                             68***************************************************9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (68 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       410  (0.022868); expected 358.6 (0.02)
Passed bias filter:                      330  (0.0184059); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.23s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 517.23
//
Query:       PHY93_06145|PHY93_06145  [L=313]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.4e-37  128.2   0.0    4.7e-37  127.8   0.0    1.1  1  HipA_C    HipA-like C-terminal domain
    5.6e-05   22.8   0.5    0.00011   21.9   0.1    1.6  2  CotH      CotH kinase protein


Domain annotation for each model (and alignments):
>> HipA_C  HipA-like C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  127.8   0.0   5.2e-41   4.7e-37      16     193 ..      10     216 ..       2     238 .. 0.83

  Alignments for each domain:
  == domain 1  score: 127.8 bits;  conditional E-value: 5.2e-41
                              ETT---SEEEEE.....EC.ETTCHHHHHHHHHHHHHTT--B--EEEEEET.EEEEEEE-SSEEE.....EE--EEEHHHHCT--G CS
                   HipA_C  16 kgeapsthIlKf.s...dd.lpdlvenEylcmrlakaaGldvaevelveve.ekallveRFDrrk.....erlhqedacqllgldp 90 
                              ++++++thIlK+ s   d+ l+ ++ nE + mrlak++ ++v+ +++ e   + +++v R+Dr       +r+hq d+cq +g+++
  PHY93_06145|PHY93_06145  10 TNGGATTHILKPnSvarDKlLKLSALNELVLMRLAKKILVNVPSTHFYESTeRDLFIVDRYDRIIeetdiKRIHQFDFCQYFGISS 95 
                              457899******55875337777899**********************9998888*********4467899*************** PP

                              GGCSCC.........--HHHHHHHHCCCTTHH..HHHHHHHHHHHHHHHCTBTT--GGGSEEEECCCEEEE--B-S--BSGCCTTT CS
                   HipA_C  91 eekYek.........gsyeelakllrqlsataseedleelfrrmvfniligNtDdHlKNfsllrgggrwrLaPaYDlvstaayede 167
                              ++kYe          +++++l+++ + +s+     d   ++++++fn+li+NtD+HlKN+s++++g++++LaP YD++s+  y+d 
  PHY93_06145|PHY93_06145  96 TDKYEVsnsggtigpYGIKSLVEASKDVSEM--SLDTDSFLDWIIFNYLIENTDGHLKNISMISTGSGFKLAPYYDMTSVGFYRDG 179
                              ****99999999865599********99654..59**************************9998989***************665 PP

                              ........ECCEECCSSSEEEE.....HHHHHHHCT-- CS
                   HipA_C 168 e.......lalsiggekgrear.....faelaeelglk 193
                              +        a  igg  ++ ++     +  la+elgl 
  PHY93_06145|PHY93_06145 180 KaflfdnhFAFLIGG-VSKMNDigdhhWTLLAKELGLA 216
                              578888865777765.4443445666666666666655 PP

>> CotH  CotH kinase protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0      0.51   4.5e+03      49      72 ..      35      58 ..      33      67 .. 0.85
   2 !   21.9   0.1   1.2e-08   0.00011     165     208 ..     125     166 ..     116     185 .. 0.82

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 0.51
                     CotH 49 lrnklaydLfralgvpaprarfve 72
                             l + + + L++++ v++p + f+e
  PHY93_06145|PHY93_06145 35 LNELVLMRLAKKILVNVPSTHFYE 58
                             66778899999**99999999986 PP

  == domain 2  score: 21.9 bits;  conditional E-value: 1.2e-08
                     CotH 165 eeyiDvesfldylivnilisntDsysnnyylyskdkngkwrfip 208
                              e  +D++sfld++i+n li+ntD++ +n+ +    +++ ++  p
  PHY93_06145|PHY93_06145 125 EMSLDTDSFLDWIIFNYLIENTDGHLKNISMI--STGSGFKLAP 166
                              6679*******************999999877..5555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (313 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       616  (0.0343577); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.40
# Mc/sec: 2339.32
//
Query:       PHY93_06150|PHY93_06150  [L=79]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
      0.028   14.8   1.4      0.033   14.6   1.4    1.1  1  Calc_CGRP_IAPP  Calcitonin / CGRP / IAPP family
       0.11   12.9   3.1       0.12   12.8   3.1    1.0  1  DUF1180         Protein of unknown function (DUF1180)
        4.4    7.4   5.9        4.7    7.3   5.9    1.1  1  Podoplanin      Podoplanin


Domain annotation for each model (and alignments):
>> Calc_CGRP_IAPP  Calcitonin / CGRP / IAPP family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   1.4   5.5e-06     0.033       1      76 [.       1      68 [.       1      78 [. 0.62

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 5.5e-06
           Calc_CGRP_IAPP  1 Mkllkfspllvilvlvqagslqaaplrsalelldsatlkeeesrlllarlvrdlvqlkaeeleqekeaeesssdai 76
                             Mkl+ +s+ll+ l++ +  s+q+a    a+e   s+t  +ee + + a+   ++     +e +++k+ +  s +a+
  PHY93_06150|PHY93_06150  1 MKLVISSLLLA-LLSSVSVSAQTAAAPAATE---SVTPAQEEHMAAPAAGEASMA----HETKHKKAHKVASHHAK 68
                             9***8999997.888888899****999999...666666666666555555544....33333333332222222 PP

>> DUF1180  Protein of unknown function (DUF1180)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   3.1     2e-05      0.12       6      68 ..       5      65 ..       1      78 [. 0.51

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 2e-05
                  DUF1180  6 alvlLLlllLaasaadasralspaasspeaepPlppgataaespgkata.ieaksaqaaeggng 68
                              + lLL  lL+   +++s ++++a++++e+  P + +  aa ++g+a+   e+k+++a +  ++
  PHY93_06150|PHY93_06150  5 ISSLLL-ALLS--SVSVSAQTAAAPAATESVTPAQEEHMAAPAAGEASMaHETKHKKAHKVASH 65
                             445666.8884..555555555555666666777666666655555544023333333333332 PP

>> Podoplanin  Podoplanin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3   5.9   0.00079       4.7      62     114 ..      19      72 ..      11      79 .] 0.68

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.00079
                              XXXXXXXXXXXXX-----GGG-XXXXXXX.XXXXXXXXXXXXXXXXXXXXXXXX CS
               Podoplanin  62 sglttlvptstesvtdlrledlptaestv.kakeesqstttlnvvtshstekvg 114
                              s+ t+  p  tesvt  + e ++++++      +e+++  + +v++ h+++k  
  PHY93_06150|PHY93_06150  19 SAQTAAAPAATESVTPAQEEHMAAPAAGEaSMAHETKHKKAHKVASHHAKKKHH 72 
                              6678889********999998877665542233445555667888888766543 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (79 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1835  (0.102348); expected 358.6 (0.02)
Passed bias filter:                      519  (0.0289475); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 592.16
//
Query:       PHY93_06155|PHY93_06155  [L=117]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (117 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       617  (0.0344135); expected 358.6 (0.02)
Passed bias filter:                      355  (0.0198003); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 885.80
//
Query:       PHY93_06160|PHY93_06160  [L=318]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.3e-05   25.4   0.0    3.4e-05   24.1   0.0    1.6  2  Thioesterase   Thioesterase domain
     0.0029   16.9   0.0     0.0061   15.9   0.0    1.5  1  Hydrolase_4    Serine aminopeptidase, S33
     0.0029   17.2   0.0     0.0061   16.1   0.0    1.5  1  DUF2974        Protein of unknown function (DUF2974)
     0.0031   17.2   0.0     0.0053   16.4   0.0    1.4  1  Abhydrolase_1  alpha/beta hydrolase fold
  ------ inclusion threshold ------
      0.022   15.4   0.0       0.03   14.9   0.0    1.2  1  Abhydrolase_6  Alpha/beta hydrolase family
      0.029   14.3   0.0      0.098   12.5   0.0    1.8  2  Lipase_3       Lipase (class 3)
      0.075   12.9   0.0       0.14   12.1   0.0    1.3  1  VirJ           Bacterial virulence protein (VirJ)
       0.12   12.0   0.0       0.28   10.8   0.0    1.6  2  Esterase       Putative esterase
       0.15   11.1   0.2       0.21   10.6   0.2    1.2  1  Herpes_BBRF1   BRRF1-like protein
       0.25   11.6   3.4        9.6    6.5   4.2    2.3  2  Med21          Subunit 21 of Mediator complex


Domain annotation for each model (and alignments):
>> Thioesterase  Thioesterase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.1   0.0   1.9e-08   3.4e-05      53      90 ..     164     201 ..     163     219 .. 0.86
   2 ?   -3.8   0.0       6.3   1.1e+04     116     139 ..     252     276 ..     243     291 .. 0.61

  Alignments for each domain:
  == domain 1  score: 24.1 bits;  conditional E-value: 1.9e-08
                              HHHHHHHHHH-SSSSEEEEEETHHHHHHHHHHHHHHHC CS
             Thioesterase  53 aeyaealrqiqpegPyalfGhSlGgllAfevArqLesq 90 
                              + ++++++++ p+ P++l+GhS+Gg  A e+A  L s 
  PHY93_06160|PHY93_06160 164 DKIVDEIKKHAPDQPVVLVGHSFGGDSAVEIANTLNSV 201
                              5789*****************************99875 PP

  == domain 2  score: -3.8 bits;  conditional E-value: 6.3
                              HTTHHTHHHHHCCTTHH.HCCTTTH CS
             Thioesterase 116 raedeefveeltdlggt.epeelle 139
                              +++ +e+v el+ ++++ ++++ + 
  PHY93_06160|PHY93_06160 252 NTDYTEIVNELRSELHSkMDDSKEV 276
                              5666667777777777744444443 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.0   3.4e-06    0.0061      63      94 ..     164     195 ..     156     210 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 3.4e-06
              Hydrolase_4  63 aafvekvkeehpelplfllGhSmGGliallyl 94 
                              +++v+++k++ p++p++l+GhS GG  a++++
  PHY93_06160|PHY93_06160 164 DKIVDEIKKHAPDQPVVLVGHSFGGDSAVEIA 195
                              6799*********************9988877 PP

>> DUF2974  Protein of unknown function (DUF2974)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   3.4e-06    0.0061      75     132 ..     167     227 ..     161     242 .. 0.82

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 3.4e-06
                  DUF2974  75 lnkileesegk.iylgGhSkGGnlAvyaamnaeddlq..eriskiysfDgpGfskevvese 132
                              +++i ++ +++ ++l+GhS GG  Av  a ++++  +  + i+  +s+D+ G++++++  +
  PHY93_06160|PHY93_06160 167 VDEIKKHAPDQpVVLVGHSFGGDSAVEIANTLNSVKNgfRGIDLLVSIDSVGMNNTIIPMN 227
                              678899998888*************9988775554444478************99988765 PP

>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.0     3e-06    0.0053      52      87 ..     156     191 ..     132     218 .. 0.83

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 3e-06
                              CHHSHHHHHHHHHHHHHHCTTSSEEEEEETHHHHHH CS
            Abhydrolase_1  52 ddygtasvaddldrildalgddkltlvGhSmGGmia 87 
                              ++++ +   +++d i+ + +d++++lvGhS+GG  a
  PHY93_06160|PHY93_06160 156 KRFSWDEQDKIVDEIKKHAPDQPVVLVGHSFGGDSA 191
                              788889999************************655 PP

>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.0   1.7e-05      0.03      43      81 ..     156     193 ..     135     278 .. 0.68

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 1.7e-05
                              CS--HHHCHHHHHHHCCTT....TTSEEEEEETCHHHHHHH CS
            Abhydrolase_6  43 ppldledladlaalldelaa..gggpvvlvGHSlGGalala 81 
                              + +++   ++++ ++de+++   + pvvlvGHS+GG  a +
  PHY93_06160|PHY93_06160 156 KRFSW---DEQDKIVDEIKKhaPDQPVVLVGHSFGGDSAVE 193
                              44677...5556666777666557777********955555 PP

>> Lipase_3  Lipase (class 3)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   5.5e-05     0.098      51      83 ..     163     195 ..     128     212 .. 0.82
   2 ?   -1.5   0.0       1.2   2.1e+03      11      46 ..     256     291 ..     245     313 .. 0.57

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 5.5e-05
                              HHHHHHHHHHHTT-EEEEEEEETHHHHHHHHHH CS
                 Lipase_3  51 vlkelkrllekypeysivvtGHSLGgalAlLaa 83 
                                k ++++++  p+  +v++GHS+Gg  A+ +a
  PHY93_06160|PHY93_06160 163 QDKIVDEIKKHAPDQPVVLVGHSFGGDSAVEIA 195
                              4566777888888999**********9887555 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 1.2
                              ----------EEE-HHHH-GTT-EEEHHHHHHHHS- CS
                 Lipase_3  11 kdwltdldfslteakellekeggkvhsgfleayees 46 
                              ++++++l+ +l +  +  ++ + k+ + + +++ es
  PHY93_06160|PHY93_06160 256 TEIVNELRSELHSKMDDSKEVQFKIFESINDVLAES 291
                              455555555555555554445555555555555433 PP

>> VirJ  Bacterial virulence protein (VirJ)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   7.5e-05      0.14      53      94 ..     162     202 ..     156     223 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 7.5e-05
                     VirJ  53 DldrlikkyakrwkkkkvvliGysfGaDvlPaaynkLkaatr 94 
                              + d+++++ +k+   + vvl+G+sfG D    + n+L++  +
  PHY93_06160|PHY93_06160 162 EQDKIVDEIKKHAPDQPVVLVGHSFGGDSAVEIANTLNSV-K 202
                              5689************************999999999764.3 PP

>> Esterase  Putative esterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.0       3.7   6.6e+03      44      69 ..      79     104 ..      74     111 .. 0.65
   2 ?   10.8   0.0   0.00016      0.28      80     133 ..     144     195 ..     127     200 .. 0.81

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 3.7
                              CHHCCCCHCCT.EEEEEECCCSS-TT CS
                 Esterase  44 elleslaregeiaeviivvvprgges 69 
                              ++ ++ a+     +v +++vp + ++
  PHY93_06160|PHY93_06160  79 STATNIAKTLAKIPVLPITVPSESKD 104
                              44444455555578999999988777 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 0.00016
                              .TTEEETTCCCCCCHCHHHHTHHHHHHHHHCSEECCCEEEEEETHHHHHHHHHH CS
                 Esterase  80 rfyenategpgaeayetfltqeLlplldanfrtapdgravaGqSmGGlgALila 133
                              + ++ a + pga+++    ++++++ ++++ + +p   +++G+S+GG +A+ +a
  PHY93_06160|PHY93_06160 144 GIKDMADNLPGAKRFSWDEQDKIVDEIKKHAPDQPV--VLVGHSFGGDSAVEIA 195
                              566777788888888888888888888888888887..************9877 PP

>> Herpes_BBRF1  BRRF1-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.2   0.00012      0.21      54     115 ..     257     317 ..     249     318 .] 0.89

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00012
             Herpes_BBRF1  54 dilpkvkknlaYfLeelskaengkvqeaikellrevdrtdlglsdrlaeelpkllrlryPth 115
                              +i++  +++l   ++  ++++  k+ e i+++l e +++d+ ++ + ++el+k+   + P+h
  PHY93_06160|PHY93_06160 257 EIVNELRSELHSKMDDSKEVQ-FKIFESINDVLAESNHQDIFIEIQTTDELRKIIDKQMPHH 317
                              688888888888888888887.8999***********************************9 PP

>> Med21  Subunit 21 of Mediator complex
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.5   4.2    0.0054       9.6      26     107 ..      32     112 ..      27     114 .. 0.77
   2 ?    1.6   0.0      0.17   3.1e+02      85     112 ..     144     172 ..     139     176 .. 0.84

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.0054
                    Med21  26 lntshdpsplseqdpsspsaapalakipqeekeepepdspeefaatqrelardlilkeqqIeyLIssLPgigsseeeqeeri 107
                                + h p+ +se+ ++  +++++ +  + +++e+ ep s++  a+++ + a++++++  +I +L  + P+ +   ++ ee+i
  PHY93_06160|PHY93_06160  32 AAKTHAPADISETAKTLNATQAQPTDPT-SSPEAAEPPSASMKAEQATSTATNIAKTLAKIPVLPITVPSESKDAKKLEEKI 112
                              5667888888877776666666666555.677777888888888899999***********999999999988888888887 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.17
                    Med21  85 qIeyLIssLPgigs.seeeqeerikeLee 112
                               I+ + ++LPg++  s +eq++ ++e+++
  PHY93_06160|PHY93_06160 144 GIKDMADNLPGAKRfSWDEQDKIVDEIKK 172
                              588899******98899999999999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (318 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1154  (0.064365); expected 358.6 (0.02)
Passed bias filter:                      738  (0.0411624); expected 358.6 (0.02)
Passed Vit filter:                        74  (0.00412739); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.59u 0.24s 00:00:00.83 Elapsed: 00:00:00.43
# Mc/sec: 2226.64
//
Query:       PHY93_06165|PHY93_06165  [L=245]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.1e-14   53.6   0.1    3.4e-14   53.0   0.1    1.3  1  Response_reg  Response regulator receiver domain
    4.6e-13   49.1   0.1    8.6e-13   48.2   0.1    1.4  1  Trans_reg_C   Transcriptional regulatory protein, C terminal
  ------ inclusion threshold ------
       0.17   11.4   1.4       0.54    9.8   0.1    2.5  3  GerE          Bacterial regulatory proteins, luxR family


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.0   0.1   5.7e-18   3.4e-14       2     110 ..       5     112 ..       4     114 .. 0.91

  Alignments for each domain:
  == domain 1  score: 53.0 bits;  conditional E-value: 5.7e-18
                              EEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCT.TTSEEEEEESSTSHHHH CS
             Response_reg   2 livdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireed.pelpviiltahseeeda 86 
                              l +dD+ ++++++++    + + +++  +++k+ ++ll+ +k+d illDi mp+ dG+++lkei+e   +++pv+++t+ + +  +
  PHY93_06165|PHY93_06165   5 LYIDDSVTNLNIFKEKYS-NTF-DITISTSSKNIFNLLEGQKYDAILLDIHMPDRDGFQVLKEINESRfSNIPVLMYTSDELQVIR 88 
                              678999999999998776.777.899999***********************************88877***************** PP

                              HHHHHCTESEEEESSG-HHHHHHH CS
             Response_reg  87 vealkagaddflsKpfdpeeLlka 110
                               +al   a+d++   ++ +e+  +
  PHY93_06165|PHY93_06165  89 YQALASQASDIIYRTLSDREIELR 112
                              ************999988888655 PP

>> Trans_reg_C  Transcriptional regulatory protein, C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.2   0.1   1.4e-16   8.6e-13       4      74 ..     151     217 ..     147     220 .. 0.92

  Alignments for each domain:
  == domain 1  score: 48.2 bits;  conditional E-value: 1.4e-16
                              EE-SHHHHHHHHHHHHTTTSEEEHHHHHHHHTTTTSTSHTHHHHHHHHHHHHHHHTTTTSSSSEEEETTTE CS
              Trans_reg_C   4 veltpkefklLelLlenpgrvvsreeLleevwgededvddrtvdvhisrLRkkLeddekkprlIetvrgvG 74 
                              ++ltp efk+L+ L++n ++ ++re+++++ w++++ v drtv++h ++LR+kL +    +  Ie  rg G
  PHY93_06165|PHY93_06165 151 LNLTPIEFKILTSLIKNFPEKITRETMMKKAWNQEN-VLDRTVNTHLTNLRNKLPK---LEFIIESPRGTG 217
                              79*********************************9.******************9...567888888888 PP

>> GerE  Bacterial regulatory proteins, luxR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0      0.97   5.8e+03      33      43 ..      28      38 ..      27      41 .. 0.82
   2 ?   -1.5   0.0      0.31   1.8e+03       2       9 ..     103     110 ..     102     122 .. 0.79
   3 ?    9.8   0.1   9.1e-05      0.54      27      45 ..     185     203 ..     174     204 .. 0.89

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 0.97
                             HHHHHHHHHHH CS
                     GerE 33 TVkvhksnimk 43
                             T+++  +ni++
  PHY93_06165|PHY93_06165 28 TISTSSKNIFN 38
                             99999999986 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.31
                              SS-HHHHH CS
                     GerE   2 sLskREre 9  
                              +Ls+RE e
  PHY93_06165|PHY93_06165 103 TLSDREIE 110
                              68889876 PP

  == domain 3  score: 9.8 bits;  conditional E-value: 9.1e-05
                              HTS-HHHHHHHHHHHHHHH CS
                     GerE  27 lniSekTVkvhksnimkKL 45 
                               n+  +TV++h++n+ +KL
  PHY93_06165|PHY93_06165 185 ENVLDRTVNTHLTNLRNKL 203
                              677789************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (245 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       838  (0.0467399); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 1804.77
//
Query:       PHY93_06170|PHY93_06170  [L=355]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.3e-09   37.5   1.1    4.3e-09   36.6   1.1    1.5  1  HD               HD domain
    2.5e-09   37.0   0.1    4.4e-09   36.2   0.1    1.4  1  tRNA_anti-codon  OB-fold nucleic acid binding domain
  ------ inclusion threshold ------
      0.021   14.8   0.1      0.091   12.7   0.1    2.0  1  HD_3             HD domain
       0.03   14.5   0.0       0.06   13.5   0.0    1.5  1  tRNA_anti_2      OB-fold nucleic acid binding domain
      0.052   11.1   0.1      0.075   10.6   0.1    1.3  1  SidE             Dot/Icm substrate protein


Domain annotation for each model (and alignments):
>> HD  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.6   1.1   1.2e-12   4.3e-09       2     119 ..     164     279 ..     163     282 .. 0.88

  Alignments for each domain:
  == domain 1  score: 36.6 bits;  conditional E-value: 1.2e-12
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTHHHHTS..HHHHHH.CTCCHHHHHHHHHHHHHHHHHHHHH....HHHHH CS
                       HD   2 leHsleVaklarrlaedlgeeedrellllaaLlHDiGkgpfgdafekkeee.fekflaHekvgaeilrevekrlgld....ledva 82 
                              leH+l   +la  l  +++   +r  ++++++lHDi k+++ +++   e +  +k+ +H + g ei+ ++    +         + 
  PHY93_06170|PHY93_06170 164 LEHILSCTQLAVTLSPHYK--VNRSYVVAGCILHDICKIYELSEGPVVEYTeEGKLIGHLVKGLEIVDHYAAKIKNFpysvKTHIK 247
                              79*****************..*******************988777774445999***************988844499*9999** PP

                              HHHHTTCCHHHHHHHHHHHHCCTSCHHHHHHHHHHHH CS
                       HD  83 klirehheswegkkrprglaerqlslearivklaDrl 119
                              ++ ++hh+  e +    g+++ + ++ea +v l+D +
  PHY93_06170|PHY93_06170 248 HILLAHHGEYE-Y----GSPKLPHTSEAFLVHLIDLM 279
                              **********9.3....78999999999999999865 PP

>> tRNA_anti-codon  OB-fold nucleic acid binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.2   0.1   1.2e-12   4.4e-09      13      76 .]      31      92 ..      22      92 .. 0.94

  Alignments for each domain:
  == domain 1  score: 36.2 bits;  conditional E-value: 1.2e-12
                             EEETTEEEEEEEETTEEEEEEEETHHHHHHHTTS-TTSEEEEEEEEEECTTSSEEEEEEEEEEE CS
          tRNA_anti-codon 13 rsggkvifidlrDgtgriqvvlfreeatklaenlkeGdvvrvtGrvkrrpggelelkveeiell 76
                             ++g+ +++++l D++g+i++  +  +a+  ++++  Gd+v v G+v+ ++g+ ++l+++e+++l
  PHY93_06170|PHY93_06170 31 KDGKAYLNVILADNSGEIEARKWQ-GAELAMQRISAGDIVIVNGKVNQFQGR-IQLIIQEMSVL 92
                             688999******************.***************************.*******9876 PP

>> HD_3  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   2.5e-05     0.091      23     140 ..     163     294 ..     153     310 .. 0.71

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 2.5e-05
                     HD_3  23 vaeHmwrvalmalllseelkekvdiarvikmfLiHDl...vEiltgDiispd....elakeekeeeeke.aaerilkl...lpeel 97 
                               +eH +    +a+ ls++ k  v+++ v+  +++HD+    E+  g ++ +      +++  k  e  +  a +i ++   ++ ++
  PHY93_06170|PHY93_06170 163 LLEHILSCTQLAVTLSPHYK--VNRSYVVAGCILHDIckiYELSEGPVVEYTeegkLIGHLVKGLEIVDhYAAKIKNFpysVKTHI 246
                              58*****************9..**************72225777888888885553133333333332203333333322244445 PP

                     HD_3  98 aeellalweEFee.....retkeakfakdlDklepllqalekegdsla 140
                              +  lla  +E+e       +t ea +++ +D ++ ++  +e+ +++ +
  PHY93_06170|PHY93_06170 247 KHILLAHHGEYEYgspklPHTSEAFLVHLIDLMDSKMSSFEQVKKTDS 294
                              555555555888877887889999999999999999999888887765 PP

>> tRNA_anti_2  OB-fold nucleic acid binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   1.7e-05      0.06      36      94 ..      32      89 ..      22      90 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 1.7e-05
              tRNA_anti_2 36 sghvYft..LkDekakisavifrsraaklkftledGmkVlvkgrlsvYeprGsyqlivedi 94
                              g +Y++  L D++ +i+a  ++++  ++  +++ G+ V+v+g+++ ++  G++qli++++
  PHY93_06170|PHY93_06170 32 DGKAYLNviLADNSGEIEARKWQGAELAM-QRISAGDIVIVNGKVNQFQ--GRIQLIIQEM 89
                             5777777335699999******9665333.46**************885..7789999987 PP

>> SidE  Dot/Icm substrate protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.1   2.1e-05     0.075     361     412 ..     201     252 ..     196     308 .. 0.93

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 2.1e-05
                     SidE 361 heksedafrkyvednkligkifkdqkevdfyaaiiedkdhewdatPahvlin 412
                              +e se     y e+ klig++ k  + vd+yaa i++ ++  ++   h+l+ 
  PHY93_06170|PHY93_06170 201 YELSEGPVVEYTEEGKLIGHLVKGLEIVDHYAAKIKNFPYSVKTHIKHILLA 252
                              688999999*********************************9999999874 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (355 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       468  (0.026103); expected 358.6 (0.02)
Passed bias filter:                      349  (0.0194657); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.40
# Mc/sec: 2632.07
//
Query:       PHY93_06175|PHY93_06175  [L=336]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.7e-63  212.3   0.0    3.6e-63  211.9   0.0    1.2  1  Gp_dh_C       Glyceraldehyde 3-phosphate dehydrogenase, C-ter
    2.2e-35  121.0   0.2    8.6e-35  119.1   0.0    1.9  2  Gp_dh_N       Glyceraldehyde 3-phosphate dehydrogenase, NAD b
  ------ inclusion threshold ------
      0.093   12.1   0.0       0.15   11.4   0.0    1.3  1  2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, 


Domain annotation for each model (and alignments):
>> Gp_dh_C  Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  211.9   0.0     6e-67   3.6e-63       1     158 []     161     316 ..     161     316 .. 0.99

  Alignments for each domain:
  == domain 1  score: 211.9 bits;  conditional E-value: 6e-67
                              HHHHHHHHHHHHEEEEEEEEEEEECTTTSBSSSS--.SSTTTTSBTTCSSEEEE-THHHHHHHHSGGGTTTEEEEEEEESSSSEEE CS
                  Gp_dh_C   1 LaplakvlndkfgikkglmttvhaytndQkllDgpskkdlrraraaaeniiptstgaakavglVlpelkgkldglAvrVPtpnvsv 86 
                              Lap++kvlndkfgi++g+mttvh+yt dQ+llDg++  d rraraa+ ++ipt+tgaak vg+++pelkgkldg++vrVPtpnvs+
  PHY93_06175|PHY93_06175 161 LAPVVKVLNDKFGIENGFMTTVHSYTSDQMLLDGAH-ADPRRARAAGLSMIPTTTGAAKTVGEIIPELKGKLDGYSVRVPTPNVSL 245
                              8********************************998.9************************************************ PP

                              EEEEEEESSTS-HHHHHHHHHHHHHTTTTTTEEEEHSHHHGGGGTTGCSSEEEEGGGCEEETTTEEEEEEEE CS
                  Gp_dh_C  87 vdlvvelekevtveevnaalkeaaegalkgilsyteeelvssDlvgdphssifdaketivveenlvkvvawy 158
                              +d++ +l+k++++ee+naalkea+e+ lkgil ++++elvs D++g++hss +da++t+v+  n vkvvawy
  PHY93_06175|PHY93_06175 246 TDFTANLKKTASKEEINAALKEASETFLKGILRFETDELVSVDYMGMTHSSCVDASLTNVIG-NSVKVVAWY 316
                              *************************************************************5.********9 PP

>> Gp_dh_N  Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  119.1   0.0   1.4e-38   8.6e-35       1     101 []       4     106 ..       4     106 .. 0.96
   2 ?   -1.0   0.0      0.37   2.2e+03      26      73 ..     134     182 ..     119     193 .. 0.72

  Alignments for each domain:
  == domain 1  score: 119.1 bits;  conditional E-value: 1.4e-38
                              CEEEEESTSHHHHHHHHHHH..HHTTCEEEEEE-TS-HHHHHHHHHEETTTEC-SS-EEEETTEEEETTEEEEEE--SSGGGS-CH CS
                  Gp_dh_N   1 vkvainGfGRIGrlvlrall..eekelevvaindltdletlayllkyDsvhgrfkgeveaeeealvvngkkikvlaekdpeelpwk 84 
                              vkv+inG+GRIGr vlr  +  +e ++++va+n+ ++++++ +llkyDsvhgrf+gev+ e++ l++ngk+ik+++++dp+e+pw+
  PHY93_06175|PHY93_06175   4 VKVGINGMGRIGRTVLREFFnrAEANFDIVAVNNPGKPADFLHLLKYDSVHGRFNGEVKLEGDVLTINGKSIKFFTQRDPSEIPWG 89 
                              69******************655559************************************************************ PP

                              HHTSSEEEE-SSS--SH CS
                  Gp_dh_N  85 elgvdlVvestGvftdk 101
                              +l++++V+++tG+f+dk
  PHY93_06175|PHY93_06175  90 DLKIQIVIDATGIFKDK 106
                              **************985 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 0.37
                              EEEEEE-.TS-HHHHHHHHHEETTTEC-SS-EEEETTEEEETTEEEEEE CS
                  Gp_dh_N  26 evvaind.ltdletlayllkyDsvhgrfkgeveaeeealvvngkkikvl 73 
                               v+ in+ + d+++   + +   +  ++   v++ ++++ +++  ++++
  PHY93_06175|PHY93_06175 134 FVMGINNnIYDAAKHHIVSNASCTTNCLAPVVKVLNDKFGIENGFMTTV 182
                              4778998778888777777777777777888888888888877655554 PP

>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   2.5e-05      0.15      36      68 ..       3      38 ..       1      56 [. 0.69

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 2.5e-05
                             TSEEEEES-SHHHHHHHHHH...HHTT-EEEEESSS CS
             2-Hacid_dh_C 36 gktvGiiGlGrIGqavakrl...kafgmkviaydrs 68
                             + +vGi G+GrIG++v + +   ++ +++++a++  
  PHY93_06175|PHY93_06175  3 KVKVGINGMGRIGRTVLREFfnrAEANFDIVAVNNP 38
                             569*************98652222445556665555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (336 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       656  (0.0365888); expected 358.6 (0.02)
Passed bias filter:                      608  (0.0339115); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.25s 00:00:00.80 Elapsed: 00:00:00.42
# Mc/sec: 2376.34
//
Query:       PHY93_05360|PHY93_05360  [L=609]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    9.4e-54  181.9   0.0    1.5e-53  181.2   0.0    1.3  1  GTP_EFTU     Elongation factor Tu GTP binding domain
    1.3e-19   70.0   0.0    3.1e-19   68.8   0.0    1.7  1  EFG_C        Elongation factor G C-terminus
    3.1e-07   30.5   0.0    8.3e-07   29.1   0.0    1.8  1  MMR_HSR1     50S ribosome-binding GTPase
    1.1e-05   25.7   0.3    2.2e-05   24.7   0.3    1.6  1  GTP_EFTU_D2  Elongation factor Tu domain 2
    0.00012   22.1   0.0    0.00025   21.1   0.0    1.6  1  EFG_II       Elongation Factor G, domain II
     0.0027   17.2   0.1      0.016   14.8   0.1    2.2  2  FeoB_N       Ferrous iron transport protein B
  ------ inclusion threshold ------
      0.014   14.7   0.1      0.027   13.7   0.1    1.5  1  Septin       Septin
      0.041   13.8   0.2        3.2    7.6   0.1    2.4  2  RsgA_GTPase  RsgA GTPase


Domain annotation for each model (and alignments):
>> GTP_EFTU  Elongation factor Tu GTP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  181.2   0.0   6.7e-57   1.5e-53       3     189 ..       8     198 ..       6     222 .. 0.89

  Alignments for each domain:
  == domain 1  score: 181.2 bits;  conditional E-value: 6.7e-57
                              EEEEEEEESTTSSHHHHHHHHHHHTTSSCHHHHHHHHHSTHCHSHHHHHHTSCSSCEEEEEETTCSSEEEEEEEESSSGGGHHHHH CS
                 GTP_EFTU   3 irnigiighvDhGKtTLtdrLlyktgaiskkgekaeeervlDtlkeErergiTiksaaisleketkkylinliDtPGHvdFskevi 88 
                              + ni++++hvDhGKtTL+d+Ll ++g+ +++++   ++rv+D+ + E+ergiTi+++++ +   +k+++inl+DtPGH+dF  ev+
  PHY93_05360|PHY93_05360   8 LKNIAVVAHVDHGKTTLVDCLLRQSGTFDEREQM--TDRVMDSGEIEKERGITITAKNCAFV--WKDTKINLLDTPGHADFGGEVE 89 
                              67****************************5554..469***********************..********************** PP

                              HHHHT-SEEEEEEETTTBSTHHHHHHHHHHHHTTTEEEEEEESCGSTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTTEEEEEEB CS
                 GTP_EFTU  89 rglrvlDgavlvvdaveGvepqteevlrlalkegvpiivfiNKmDrlkaelkeiveevkqklsrkeeklekygekgekevpvvfgS 174
                              r+l ++Dg +l+vda+eG+ pqt+ vl  a +++++i v+iNK+Dr++++++e+++++++ + +  + l+   ++   ++p+++ S
  PHY93_05360|PHY93_05360  90 RSLMMVDGILLLVDASEGPLPQTRFVLTKAMEQRLKIAVVINKIDRPDERIEEVKHDIEELFLELASMLNIEDFDL--DIPIIYSS 173
                              ************************************************************9966666666667775..7******* PP

                              TTTTB..........THHHHHHHHH CS
                 GTP_EFTU 175 alkge..........gvktllealv 189
                              a  g+           ++++l+ +v
  PHY93_05360|PHY93_05360 174 ARAGWathdpkvvrtDINPILDLMV 198
                              *****55555555554446666554 PP

>> EFG_C  Elongation factor G C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.8   0.0   1.4e-22   3.1e-19       2      86 ..     405     489 ..     404     492 .. 0.97

  Alignments for each domain:
  == domain 1  score: 68.8 bits;  conditional E-value: 1.4e-22
                              EEEEEEEEEEEEECCCCCCHHHHHHHCT-EEEEEEEE.TTEEEEEEEEEGGG-TTHHHCHHHCTTTS-EEEEEEEEEEE--HHHH CS
                    EFG_C   2 llEPivkveievpeeyvgkvisdlssrrGeiedmeqdasgrviieaeiPlaeligfateLrslTkGegsfsmefsgYeevpgdkl 86 
                               lEP++kv +++p+e +g++++ ls r+G++e+m + +++r+++ + iP+++lig++  + + T+G g +s+ef gY++++gd+l
  PHY93_05360|PHY93_05360 405 KLEPFEKVVLDIPNEATGAITERLSIRKGIMENMMPLGEDRTRMVFVIPSRGLIGYRGIFLTDTRGAGLMSSEFMGYRPYTGDML 489
                              59*******************************************************************************9975 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.1   0.0   3.7e-10   8.3e-07       2     114 .]      11     132 ..      10     132 .. 0.74

  Alignments for each domain:
  == domain 1  score: 29.1 bits;  conditional E-value: 3.7e-10
                              EEEEESTTSSHHHHHHHHHT................STEEESSSTTSSSSEEEEEEEETTEEEEEEECGGCSSHHHHHHHHHHHHH CS
                 MMR_HSR1   2 vaivGrpNvGKStLinaltg................ekaivsdkpgtTrdinegrvklkgkeielvDtpGliegaseekglgkafl 71 
                              +a+v +   GK+tL+  l++                +  +++++ g T++ +   + +k+++i+l+DtpG         ++g +++
  PHY93_05360|PHY93_05360  11 IAVVAHVDHGKTTLVDCLLRqsgtfdereqmtdrvmDSGEIEKERGITITAKNCAFVWKDTKINLLDTPG-HA------DFGGEVE 89 
                              889999999**********7666777777766544336699999999999988888899***********.22......3444444 PP

                              HHHC.TSEEEEEEETTTTCSHHHHHHHHHHHHHTTSEEEEEEES CS
                 MMR_HSR1  72 alee.adlillvvdaseeklkpldeeleelleeakkplilvlnk 114
                              +    +d ill+vdase+   p+ + +     e++ ++ +v+nk
  PHY93_05360|PHY93_05360  90 RSLMmVDGILLLVDASEG-PLPQTRFVLTKAMEQRLKIAVVINK 132
                              433328********9955.5566666666666677778888887 PP

>> GTP_EFTU_D2  Elongation factor Tu domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.7   0.3     1e-08   2.2e-05       2      73 ..     228     296 ..     227     297 .. 0.94

  Alignments for each domain:
  == domain 1  score: 24.7 bits;  conditional E-value: 1e-08
                              EEEEEEEEESEEETTEEEEEEC.TCTTSEEEEEEEEEEEEETEEESEEETTSEEEEEEEESSCCSGSSTTCEE CS
              GTP_EFTU_D2   2 tvalgrvysGtlkkGdevrilg.ndtskkeivtrissletfhededeavaganaGvivaikgledaiivGdtl 73 
                               +a gr+ +G +kkG +  ++  + ++k+    +is+++ f + +  +v+ a aG iv + g+++a ++Gdt+
  PHY93_05360|PHY93_05360 228 PLAIGRIQRGSIKKGGNYTLCDaDAKNKT---YKISAIQEFSALKISEVESADAGEIVIVAGIDNA-KIGDTI 296
                              5799******************8888888...*********************************8.*****9 PP

>> EFG_II  Elongation Factor G, domain II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.1   0.0   1.1e-07   0.00025      18      66 ..     336     384 ..     307     392 .. 0.90

  Alignments for each domain:
  == domain 1  score: 21.1 bits;  conditional E-value: 1.1e-07
                   EFG_II  18 edklskaLarlleEDptlrverdeeTketilsGmGelHleivverlkre 66 
                              ++kl+++L+  ++    l++e  ++ k ++l+G Gel+l iv e+l+r+
  PHY93_05360|PHY93_05360 336 SRKLEEFLQDSIKTNVALQYEPTDDPKVFLLKGRGELQLAIVFEQLRRK 384
                              689********************************************98 PP

>> FeoB_N  Ferrous iron transport protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0      0.72   1.6e+03       2      21 ..      10      29 ..       9      33 .. 0.84
   2 !   14.8   0.1     7e-06     0.016      32     125 ..      56     143 ..      50     164 .. 0.82

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.72
                             EEEEEESTTSSHHHHHHHHH CS
                   FeoB_N  2 tvalvGnpnvGkttlfnalt 21
                             ++a+v   + Gkttl++ l 
  PHY93_05360|PHY93_05360 10 NIAVVAHVDHGKTTLVDCLL 29
                             689999999******98775 PP

  == domain 2  score: 14.8 bits;  conditional E-value: 7e-06
                              TSSSEEEEEEEEETTEEEEEEE----SSSSSSSHHHHHHHHHHHCTSSSEEEEEEEGGG..HHHHHHHHHHHHHTTSSEEEEEETH CS
                   FeoB_N  32 GvtvekkegklklkgkeveivDlPGiYslsayseeekvardflleeepdvvvnvvdatn..lernLyLtlqllelgvpvvlalnmi 115
                              G+t+  k++++ +k+++++++D PG  ++       +v r++++   +d ++ +vda++  l ++ +++++ +e ++++ +++n+i
  PHY93_05360|PHY93_05360  56 GITITAKNCAFVWKDTKINLLDTPGHADFG-----GEVERSLMM---VDGILLLVDASEgpLPQTRFVLTKAMEQRLKIAVVINKI 133
                              9************************87765.....568888887...789999999986668899999999*************** PP

                              HHHHHTTEEE CS
                   FeoB_N 116 deaekkgiei 125
                              d  +++  e+
  PHY93_05360|PHY93_05360 134 DRPDERIEEV 143
                              *987764443 PP

>> Septin  Septin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.1   1.2e-05     0.027       6      75 ..      10      84 ..       7     103 .. 0.65

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1.2e-05
                             EEEEEEBTTSSCCCCCCTTSSSS----.......--------------S-EEEEEEEEETTCEEEEEEEE---BSSS CS
                   Septin  6 tlmvvGesglGkttlintlfetdliee.......ekleeasekkkktveikkkkvvieedgvklnltviDtpgfGda 75
                             ++ vv +   Gkttl++ l++++ + +       + +++ + +k++ ++i++k+     +    +++++Dtpg+ d+
  PHY93_05360|PHY93_05360 10 NIAVVAHVDHGKTTLVDCLLRQSGTFDereqmtdRVMDSGEIEKERGITITAKNCAFVWK--DTKINLLDTPGHADF 84
                             68899999************9987766333333222222222334444444444444444..456788*****8775 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   0.0     0.023        51     110     164 ..      19      84 ..       3      87 .. 0.69
   2 ?    7.6   0.1    0.0014       3.2      38      75 ..     115     150 ..      90     162 .. 0.76

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.023
                              SSHHHHHHHHCTT............-----S-----------.---SEEEEEETTTEEEESS-SSSS- CS
              RsgA_GTPase 110 vGKStLinallpe............lelktgevseklgrGkh.TTtavellelaegglliDtPGfrel 164
                               GK+tL++ ll +              +  ge+ +  +rG   T ++  ++  +++  l DtPG   +
  PHY93_05360|PHY93_05360  19 HGKTTLVDCLLRQsgtfdereqmtdRVMDSGEIEK--ERGITiTAKNCAFVWKDTKINLLDTPGHADF 84 
                              69*******99988899986665444445555544..6886614455555556668899*****7766 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0014
                              HHHHHHHTT-EEEEEEE-GGG--HHHHHHHHHHHHHHT CS
              RsgA_GTPase  38 fLvlaeekgiepvivlnKiDlleeeeeleelkeeleal 75 
                              +L+ a e+++++ +v+nKiD  +e+   ee+k+++e+l
  PHY93_05360|PHY93_05360 115 VLTKAMEQRLKIAVVINKIDRPDERI--EEVKHDIEEL 150
                              6899****************988765..7777766665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (609 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       423  (0.0235931); expected 358.6 (0.02)
Passed bias filter:                      400  (0.0223102); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.60u 0.25s 00:00:00.85 Elapsed: 00:00:00.39
# Mc/sec: 4642.31
//
Query:       PHY93_06180|PHY93_06180  [L=398]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   7.7e-133  443.1   0.0   9.6e-133  442.8   0.0    1.0  1  PGK       Phosphoglycerate kinase


Domain annotation for each model (and alignments):
>> PGK  Phosphoglycerate kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  442.8   0.0  5.4e-137  9.6e-133       4     376 ..      13     385 ..      11     387 .. 0.95

  Alignments for each domain:
  == domain 1  score: 442.8 bits;  conditional E-value: 5.4e-137
                              S--TT-EEEEEE-----EECT..TEES--HHHHHHHHHHHHHHHTT-E.EEEEE--S--TTS-.GGG-SHHHHHHHHHHHTT-EEE CS
                      PGK   4 ldlkgkrvlvRvDfNvplkke..gkitddtriraalpTikyllekgak.vvllsHlgrpkgek.eklslkpvaerLsellgkeVkf 85 
                               ++k+k+vl R DfNvp++k+   ki d tri++al+Ti+++le + k +vl+sH+grpkg+  +++sl+pva++L+e lg+eV +
  PHY93_06180|PHY93_06180  13 TNVKDKKVLARFDFNVPMDKNdpTKIADPTRIDEALETIQAILELKPKkLVLMSHFGRPKGKVdPQYSLEPVAKYLAEKLGQEVLL 98 
                              589***************99999*********************86655***********95549********************* PP

                              ESSTTSHHHHHHHHT-TTT-EEEES-GGGSTTTTTT-HHHHHHHHHT-SEEEE--GGGTTS--TTTTHHHHCSEE..EE-HHHHHH CS
                      PGK  86 vedvvgeeveeaiaelkegevllLeNvrfykeEekndeelakklasladvyVnDAFgtahrahaStvgiakvlsa..aaGllmekE 169
                               e+ +++ ++  + +l+e +++lL+N+rf++eEe+nd ++a++l+ ++d++V DAFg+ahr+haSt++i+ ++++  + Gll+++E
  PHY93_06180|PHY93_06180  99 TETALDRGIK-ILLNLNESKIILLQNLRFHPEEEANDRDFARTLSTYGDLFVFDAFGAAHRKHASTYEINAFFKNtaYGGLLLKRE 183
                              9888888766.88899*********************************************************444699******* PP

                              HHHHHHHHHS--SSEEEEEEES-HHHCHHHHHHHTTT-SEEEEETCHHHHHHHHTT-B-TTSS--GGGHHHHHHHHHHHHHHT-EE CS
                      PGK 170 lealskvlenperplvailGGakvsdkikvienLlekvdkliigGgmantFlkaqgleigkslveedklelakellekakkkgvki 255
                              +eal+k+++np++p+vai+GGakvsdkik+ie Ll +vdkl+igG+ma+ Flkaqg eig+sl+ e+++ la+++l +    + ki
  PHY93_06180|PHY93_06180 184 IEALDKIVKNPAKPFVAIVGGAKVSDKIKIIEMLLVSVDKLLIGGAMAYPFLKAQGREIGNSLCSEEDVLLARKILGTPG--KGKI 267
                              *****************************************************************************998..68** PP

                              E--SEEEEESSS.STTS.EEEECCG--TT-EEEEE-HHHHHHHHHHHCC-SEEEEES-SS-TTSGCCCHHHHHHHHHHHHHCHTSE CS
                      PGK 256 llpvDvvvakee.aekeakvveveaipedemalDigpktielfaeaikeaktvvwnGpmGvfeiekfakGTkaiakalaeatkgal 340
                              +lp D++v+ +      ++ v +++ip+++ +lDigp+t+++f+++++ aktv+wnGpmG+fe++++akGT  ia++la+   +a+
  PHY93_06180|PHY93_06180 268 VLPSDHIVSATFgG--IPEEVGQANIPDGKIGLDIGPSTLQNFTDYLRPAKTVLWNGPMGLFENPNYAKGTLGIARVLASL--DAF 349
                              *********86421..256778999*******************************************************9..46* PP

                              EEEESHHHHHHHHHTT-GGGSSEEESSSHHHHHHHC CS
                      PGK 341 sivGGgdsaaaveklgladkvshvStGGgAsLelLe 376
                              ++vGGgds++av++ gl+dk+sh+StGGgAsLe++e
  PHY93_06180|PHY93_06180 350 TLVGGGDSVNAVKMSGLSDKMSHISTGGGASLEYIE 385
                              **********************************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (398 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       364  (0.0203023); expected 358.6 (0.02)
Passed bias filter:                      350  (0.0195214); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.20s 00:00:00.74 Elapsed: 00:00:00.39
# Mc/sec: 3036.79
//
Query:       PHY93_06185|PHY93_06185  [L=165]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.2e-12   46.9  17.2    6.1e-12   45.9  17.2    1.4  1  DUF1640          Protein of unknown function (DUF1640)
      1e-09   38.5  11.3    1.6e-09   37.9  11.3    1.3  1  Apolipoprotein   Apolipoprotein A1/A4/E domain
    9.4e-08   30.8   1.5      1e-07   30.7   1.5    1.1  1  Gp58             gp58-like protein
    6.6e-07   29.4   4.7     0.0013   18.8   0.3    2.1  2  Baculo_PEP_C     Baculovirus polyhedron envelope protein, PEP
      1e-05   25.9  18.1    2.9e-05   24.4  18.1    1.7  1  OmpH             Outer membrane protein (OmpH-like)
    2.1e-05   24.7  11.8    2.4e-05   24.4  11.2    1.3  1  Sds3             Sds3-like
    6.3e-05   23.0   7.8      0.034   14.1   1.2    2.2  2  Focal_AT         Focal adhesion targeting region
    0.00012   21.5  11.2    0.00017   21.0  11.2    1.2  1  SF-assemblin     SF-assemblin/beta giardin
    0.00037   20.4  19.0      0.014   15.3   2.4    2.9  3  Phage_Mu_Gam     Bacteriophage Mu Gam like protein
    0.00044   18.4   7.8    0.00047   18.3   7.8    1.1  1  Prominin         Prominin
    0.00084   18.9   1.9      0.001   18.6   1.9    1.1  1  Peptidase_M75    Imelysin
    0.00087   19.4  11.2     0.0015   18.6  10.8    1.6  1  ApoLp-III        Apolipophorin-III precursor (apoLp-III)
    0.00091   18.8  13.3     0.0011   18.5  13.3    1.1  1  Golgin_A5        Golgin subfamily A member 5
     0.0014   18.9   7.8      0.039   14.2   0.7    2.4  2  DUF5082          Domain of unknown function (DUF5082)
     0.0023   18.0  11.9     0.0068   16.4   4.6    2.3  2  DUF1664          Protein of unknown function (DUF1664)
     0.0048   16.5   9.7       0.11   12.1   4.0    2.3  2  Fzo_mitofusin    fzo-like conserved region
     0.0076   16.3  19.2       0.02   15.0  19.2    1.9  1  SPATA1_C         Spermatogenesis-associated C-terminus
     0.0091   15.6  16.2       0.02   14.5  16.2    1.6  1  Filament         Intermediate filament protein
  ------ inclusion threshold ------
      0.029   14.0   3.1      0.035   13.8   3.1    1.2  1  DUF885           Bacterial protein of unknown function (DUF88
      0.033   14.1  10.3      0.059   13.2  10.3    1.5  1  PIN_8            PIN like domain
       0.04   13.5  20.9       0.27   10.8  11.9    2.3  2  DUF4795          Domain of unknown function (DUF4795)
      0.042   13.6   6.2       0.41   10.3   2.9    2.3  2  DUF842           Eukaryotic protein of unknown function (DUF8
      0.046   14.0  14.0       0.58   10.5  12.5    2.9  2  Tup_N            Tup N-terminal
      0.047   13.7   8.4       0.16   12.0   8.4    1.9  1  DUF1451          Zinc-ribbon containing domain
       0.05   13.8   7.5        1.1    9.5   0.2    3.3  2  T3SS_needle_F    Type III secretion needle MxiH, YscF, SsaG, 
       0.05   13.4  14.9      0.075   12.8  14.9    1.3  1  FAM184           Family with sequence similarity 184, A and B
      0.056   12.3  12.6      0.067   12.0  12.6    1.2  1  Mitofilin        Mitochondrial inner membrane protein
      0.061   13.9   7.4       0.51   11.0   1.1    2.3  2  DUF883           Bacterial protein of unknown function (DUF88
      0.064   13.6   4.1        4.4    7.7   2.8    2.7  1  MADF_DNA_bdg     Alcohol dehydrogenase transcription factor M
      0.065   12.6   7.8       0.11   11.8   7.7    1.4  1  DUF4407          Domain of unknown function (DUF4407)
      0.072   13.4  14.2       0.44   10.9  13.1    2.2  1  Gp-FAR-1         Nematode fatty acid retinoid binding protein
      0.074   12.6   5.0      0.086   12.4   5.0    1.2  1  Exonuc_VII_L     Exonuclease VII, large subunit
      0.084   12.4   9.6       0.15   11.6   1.5    2.8  3  FAP206           Domain of unknown function
      0.086   13.1  12.6      0.082   13.2  10.1    2.0  2  DUF4709          Domain of unknown function (DUF4709)
       0.12   12.6   1.4        9.6    6.5   0.2    2.4  2  TetR_C_24        Tetracyclin repressor-like, C-terminal domai
       0.12    9.8  14.1       0.22    9.0  14.1    1.4  1  DUF3584          Protein of unknown function (DUF3584)
       0.13   12.6   3.3        4.2    7.7   1.2    2.9  2  HalX             HalX domain
       0.13   11.0  15.1       0.19   10.4   6.8    2.1  2  Tektin           Tektin family
       0.14   11.3   9.6       0.28   10.3   1.6    2.4  2  NAP              Nucleosome assembly protein (NAP)
       0.14   12.4  13.3       0.16   12.3   5.3    2.5  3  KxDL             Uncharacterized conserved protein
       0.15   12.2  21.3       0.31   11.1  15.7    2.5  2  PKK              Polo kinase kinase
       0.16   11.6   6.7        3.5    7.2   0.5    3.0  3  IL11             Interleukin 11
       0.21   12.2  19.9        1.8    9.3  16.4    2.6  2  HIP1_clath_bdg   Clathrin-binding domain of Huntingtin-intera
       0.22   11.3  18.2        3.5    7.5   6.6    3.1  3  CdvA             CdvA-like coiled-coil domain
       0.25   11.5   3.8         16    5.7   0.2    3.1  5  ORF11CD3         ORF11CD3 domain
       0.31   10.7  11.9        3.7    7.3   1.2    3.3  3  Nbl1_Borealin_N  Nbl1 / Borealin N terminal
       0.31   11.8  10.8         33    5.2  10.8    2.2  1  DUF2203          Uncharacterized conserved protein (DUF2203)
       0.32   10.1   6.9       0.37    9.8   6.9    1.2  1  Atg14            Vacuolar sorting 38 and autophagy-related su
       0.36   11.0   1.7        1.2    9.3   1.7    1.9  1  Metal_resist     Heavy-metal resistance
       0.36   11.4   8.0         87    3.8   8.0    2.9  1  Syntaxin-6_N     Syntaxin 6, N-terminal
       0.36   10.6   5.1        1.2    8.9   1.1    2.4  2  IL31             Interleukin 31
       0.36   11.5   4.6        3.1    8.5   4.6    2.2  1  KfrA_N           Plasmid replication region DNA-binding N-ter
       0.37    9.8   6.4       0.66    9.0   6.3    1.5  1  DUF3086          Protein of unknown function (DUF3086)
       0.41   11.0  17.1        5.2    7.5  17.1    2.2  1  YlqD             YlqD protein
       0.42    9.2  13.6       0.65    8.5  13.6    1.4  1  FapA             Flagellar Assembly Protein A
       0.45   10.9  11.7         16    5.9   0.2    3.3  2  V-SNARE          Vesicle transport v-SNARE protein N-terminus
       0.74   10.1   4.7        2.2    8.6   4.0    2.2  1  PSP1             PSP1 C-terminal conserved region
       0.82   10.5  10.1         36    5.3   9.0    2.8  1  FliT             Flagellar protein FliT
       0.82    9.8  12.2        1.9    8.7   8.6    2.1  2  Fib_alpha        Fibrinogen alpha/beta chain family
       0.84    9.8  17.4        1.5    9.0   0.5    3.2  3  DUF5595          Domain of unknown function (DUF5595)
       0.87    9.3   5.6        1.1    9.0   5.6    1.2  1  AAA_11           AAA domain
       0.91    9.4  20.1        1.7    8.5  20.1    1.4  1  Mei5             Double-strand recombination repair protein
       0.99    8.6  13.5       0.63    9.2  10.1    1.8  2  TMPIT            TMPIT-like protein
        1.4    9.3  17.5        2.6    8.4  16.1    2.1  2  Uso1_p115_C      Uso1 / p115 like vesicle tethering protein, 
        1.5    9.2  10.4        6.2    7.2   5.4    2.3  2  Syntaxin_2       Syntaxin-like protein
        1.6    8.9  12.8        1.5    9.0   1.6    3.4  3  Mst1_SARAH       C terminal SARAH domain of Mst1
          2    9.0  12.7    3.6e+02    1.7   0.0    3.4  2  TipAS            TipAS antibiotic-recognition domain
        2.4    8.5  16.4        5.6    7.3  16.4    1.7  1  Muted            Organelle biogenesis, Muted-like protein
        2.5    9.2   6.9        5.5    8.1   1.4    2.4  2  RNase_J_C        Ribonuclease J C-terminal domain
        2.7    8.2   8.3        6.7    7.0   8.2    1.8  1  SbsC_C           SbsC C-terminal domain
        2.8    8.1  19.5    5.2e+03   -2.4   0.0    3.7  0  IFP_35_N         Interferon-induced 35 kDa protein (IFP 35) N
        3.1    8.0  15.3        5.2    7.2  14.4    1.7  2  CENP-Q           CENP-Q, a CENPA-CAD centromere complex subun
        3.3    6.5  11.3        2.7    6.8   9.1    1.8  2  5_nucleotid      5' nucleotidase family
        4.1    7.4  12.2         64    3.6   0.4    3.8  1  Nas2_N           Nas2 N_terminal domain
        4.3    7.4  16.8         67    3.5   9.1    3.1  2  Phe_tRNA-synt_N  Aminoacyl tRNA synthetase class II, N-termin
        4.3    8.0  21.1    1.8e+04   -4.6  21.1    3.6  0  BST2             Bone marrow stromal antigen 2
        6.4    6.8  11.0         11    6.0   0.6    3.1  3  Borealin         Cell division cycle-associated protein 8
        6.5    7.4  12.4      2e+02    2.6  12.4    2.7  1  YtxH             YtxH-like protein
        6.8    6.9  13.2         38    4.5   0.9    3.3  3  YojJ             Bacterial membrane-spanning protein N-termin
        7.5    7.5  17.7         93    4.1   0.3    5.7  6  M                M protein repeat
        8.7    6.7   8.2         19    5.6   0.3    3.2  4  VPS11_C          Vacuolar protein sorting protein 11 C termin
        8.8    7.0  16.7         26    5.5   9.0    2.4  2  YabA             Initiation control protein YabA


Domain annotation for each model (and alignments):
>> DUF1640  Protein of unknown function (DUF1640)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.9  17.2   2.8e-14   6.1e-12       6     150 ..       7     137 ..       3     162 .. 0.86

  Alignments for each domain:
  == domain 1  score: 45.9 bits;  conditional E-value: 2.8e-14
                  DUF1640   6 lvrrLeekGftkeqAeaimsaltevlneslekvakslvskselekseylqkaalselrkevqisersefaalrseteklqrelekl 91 
                              + ++Le+ Gft+eqA+  +++  +++        +++++ks+ + +    k +l+e+++e++ ++ +  a+++  +++lq e++ l
  PHY93_06185|PHY93_06185   7 YTEELEKVGFTNEQAKKSVQLWMDLMD-------QNFATKSDFKEHYFMTKTDLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGL 85 
                              6789***************99988876.......6788************************************************ PP

                  DUF1640  92 kqkLreeidklkadirldlnleKgrireelakleakiqelnnkidrevsalrteiEsvK 150
                              k++L+ e++ lk++ +       +++++  ++++ +i++l+n +++e+++lrte+ +  
  PHY93_06185|PHY93_06185  86 KNELQAEMKGLKNELQ-------AEMKDLKNEFQTEIKDLKNEFQTEIKDLRTEVKADM 137
                              ************9965.......667888888888999**************9987544 PP

>> Apolipoprotein  Apolipoprotein A1/A4/E domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.9  11.3   7.5e-12   1.6e-09       5      99 ..      52     146 ..      48     151 .. 0.94

  Alignments for each domain:
  == domain 1  score: 37.9 bits;  conditional E-value: 7.5e-12
                              CCCCHHHHHCCHHHCHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHCCCHHHHHHHHHCCHHHHHHHHHHHHCH CS
           Apolipoprotein   5 sldelkayaeeleeqlaplaqelrdrlskeleelrarlraeleevrarlepyrdevqeqlgqnleelrqrlapyteelrerlaada 90 
                              +l+e+++ ++ l++ l    + l++ l +e ++l+++l+ae++ +++ l++ + +++++++ ++++l+++ ++ +++lr  ++ad+
  PHY93_06185|PHY93_06185  52 DLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKDLKNEFQTEIKDLKNEFQTEIKDLRTEVKADM 137
                              7899999999999999998889**************************************************************** PP

                              HCCHHCHCC CS
           Apolipoprotein  91 eelqeqlav 99 
                              +el+  l+v
  PHY93_06185|PHY93_06185 138 KELEHNLTV 146
                              ****99987 PP

>> Gp58  gp58-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.7   1.5   4.7e-10     1e-07     141     217 ..      49     125 ..      15     153 .. 0.84

  Alignments for each domain:
  == domain 1  score: 30.7 bits;  conditional E-value: 4.7e-10
                     Gp58 141 tdkklalinetieGirreyqdadrelsssyqagieGlkatlasdklglkaeiqasaqgLsqkyddeirkLsakittt 217
                              t+ +l  ++  ++G+++e q   + l  + qa ++Glk++l+++  glk e+qa  ++L++++  ei++L+  + t 
  PHY93_06185|PHY93_06185  49 TKTDLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKDLKNEFQTEIKDLKNEFQTE 125
                              56678889999999999999999999999999999999999999999999999999999999999999999877664 PP

>> Baculo_PEP_C  Baculovirus polyhedron envelope protein, PEP, C terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.3   5.8e-06    0.0013      27      94 ..      33     100 ..      13     102 .. 0.90
   2 !   14.6   1.1   0.00012     0.026      48      95 ..      98     145 ..      96     165 .] 0.82

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 5.8e-06
             Baculo_PEP_C  27 lqnvqilaqlatlldaietqLnalsedlksllaeldtrldtlltnLtdalnalqdtlrneLtnlnsil 94 
                               qn  + ++ ++     +t L+++++++k l +el+++++ l ++L++ ++ l+++l+ e+++l+++l
  PHY93_06185|PHY93_06185  33 DQNFATKSDFKEHYFMTKTDLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGLKNEL 100
                              6777777777788888899*********************************************9987 PP

  == domain 2  score: 14.6 bits;  conditional E-value: 0.00012
             Baculo_PEP_C  48 nalsedlksllaeldtrldtlltnLtdalnalqdtlrneLtnlnsilt 95 
                              n+l++++k+l +e++t++++l ++ ++ ++ l ++++ +++ l+ +lt
  PHY93_06185|PHY93_06185  98 NELQAEMKDLKNEFQTEIKDLKNEFQTEIKDLRTEVKADMKELEHNLT 145
                              578889999999999999999999999999999999999999999887 PP

>> OmpH  Outer membrane protein (OmpH-like)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.4  18.1   1.3e-07   2.9e-05      15     104 ..      51     139 ..      44     143 .. 0.90

  Alignments for each domain:
  == domain 1  score: 24.4 bits;  conditional E-value: 1.3e-07
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTS.-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     OmpH  15 pegkaaqeqlekkfkklqaeleakekelqklqeelqkkakklekeekeqelqkkeqelqqkqqqkaqelqkkqqellkpildkink 100
                              ++ k++q++++  +++lqae++ +++elq++++ l+++ +++  +  ++elq+++++l++++q + ++l+++ q ++k +  ++++
  PHY93_06185|PHY93_06185  51 TDLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAE-MKGLKNELQAEMKDLKNEFQTEIKDLKNEFQTEIKDLRTEVKA 135
                              5679*******************************9777775.8889999**********999999************99999999 PP

                              HHHH CS
                     OmpH 101 aike 104
                               +ke
  PHY93_06185|PHY93_06185 136 DMKE 139
                              8887 PP

>> Sds3  Sds3-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.4  11.2   1.1e-07   2.4e-05      23     104 ..      59     140 ..      43     145 .. 0.83

  Alignments for each domain:
  == domain 1  score: 24.4 bits;  conditional E-value: 1.1e-07
                     Sds3  23 rLteLqteltllqqGthpellrklrdleeerDaeLkrlrlreeyqlkriekefkadiekakqeheklvkllkeklyeelekk 104
                               ++ L++el+  ++G   el+++++ l++e +ae+k l++  + ++k +++ef+ +i+  k+e++ ++k+l+++  +++++ 
  PHY93_06185|PHY93_06185  59 EMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKDLKNEFQTEIKDLKNEFQTEIKDLRTEVKADMKEL 140
                              5677888888888888999999999999999999999999999999999999999999999999999999998877766655 PP

>> Focal_AT  Focal adhesion targeting region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.2   1.2   0.00029     0.064      40      88 ..      52     100 ..      22     103 .. 0.84
   2 !   14.1   1.2   0.00016     0.034      45      87 ..     101     143 ..      97     148 .. 0.91

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 0.00029
                 Focal_AT  40 lvksvglelrkLltsvdellsslpasarreielaekvlskdlaelisam 88 
                                k+v +e++ L ++ +  ++ l+++ + e+++ ++ l+++++ l +++
  PHY93_06185|PHY93_06185  52 DLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGLKNEL 100
                              4799**************************************9998876 PP

  == domain 2  score: 14.1 bits;  conditional E-value: 0.00016
                 Focal_AT  45 glelrkLltsvdellsslpasarreielaekvlskdlaelisa 87 
                               +e+++L ++ ++ ++ l+++ ++ei+  ++ +++d++el ++
  PHY93_06185|PHY93_06185 101 QAEMKDLKNEFQTEIKDLKNEFQTEIKDLRTEVKADMKELEHN 143
                              5789***********************************9765 PP

>> SF-assemblin  SF-assemblin/beta giardin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.0  11.2   7.9e-07   0.00017       3     102 ..      49     145 ..      47     149 .. 0.96

  Alignments for each domain:
  == domain 1  score: 21.0 bits;  conditional E-value: 7.9e-07
             SF-assemblin   3 tavKlerltervegfekelenEieqkrvdektrvklikeaiakleksveaEvkkRaesdkdiqeefkkeikklqekikeevddlal 88 
                              t+  l+++   ++g+++el+ E++  +++ +  +k +k+ ++   k +++E    +++ kd+++ef+ eik+l+++ + e++dl  
  PHY93_06185|PHY93_06185  49 TKTDLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGLKNEL---QAEMKDLKNEFQTEIKDLKNEFQTEIKDLRT 131
                              78889**********************************************8...6889*************************** PP

             SF-assemblin  89 elkkaveelnekin 102
                              e+k  ++el+ +++
  PHY93_06185|PHY93_06185 132 EVKADMKELEHNLT 145
                              *********98876 PP

>> Phage_Mu_Gam  Bacteriophage Mu Gam like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.2       1.2   2.6e+02      35      74 ..       6      45 ..       4      50 .. 0.84
   2 !   15.3   2.4   6.5e-05     0.014      10      55 ..      52      97 ..      49      98 .. 0.92
   3 !   11.7   6.0   0.00082      0.18      13      54 ..      99     140 ..      88     146 .. 0.57

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 1.2
                             HHHHHCHHHHHHHHHHHHHHHHHHHCTHHHH-..-----E CS
             Phage_Mu_Gam 35 kleaeleplkkeieylesllkqYaeankdeLfkdgktKsl 74
                             ++++ele++    e+ ++ ++ +++   +++  +++ K +
  PHY93_06185|PHY93_06185  6 RYTEELEKVGFTNEQAKKSVQLWMDLMDQNFATKSDFKEH 45
                             6899999999999999999999999999999888888755 PP

  == domain 2  score: 15.3 bits;  conditional E-value: 6.5e-05
                             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHH CS
             Phage_Mu_Gam 10 kiaelkreleeieaeaneeiaaikekleaeleplkkeieylesllk 55
                              ++e+++e++ +++e+++e++ +k++l+ae++ lk+e ++  ++lk
  PHY93_06185|PHY93_06185 52 DLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGLK 97
                             589**********************************999888876 PP

  == domain 3  score: 11.7 bits;  conditional E-value: 0.00082
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHH CS
             Phage_Mu_Gam  13 elkreleeieaeaneeiaaikekleaeleplkkeieylesll 54 
                              el++e++ +++e ++ei+ +k+++++e++ l +e ++  ++l
  PHY93_06185|PHY93_06185  99 ELQAEMKDLKNEFQTEIKDLKNEFQTEIKDLRTEVKADMKEL 140
                              667777777777777777777777777777644433333333 PP

>> Prominin  Prominin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   7.8   2.1e-06   0.00047     621     712 ..      48     144 ..       8     153 .. 0.75

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 2.1e-06
                 Prominin 621 ltkvnletlaekleelanelsngkknlkqslkneaqdlraiqqelvlp....lessvkklkksvk.kldeensdlqesikkllaav 701
                              +tk++l++++++++ l+nel+ + k lk++l+ e++ l++  q  ++     l++++k+lk++ + ++++ ++++q++ik+l ++v
  PHY93_06185|PHY93_06185  48 MTKTDLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGlkneLQAEMKDLKNEFQtEIKDLKNEFQTEIKDLRTEV 133
                              5899999999*******999999888999998888877653333333211115555555555543245558888999999999999 PP

                 Prominin 702 eraenflkkng 712
                              ++  ++l++n 
  PHY93_06185|PHY93_06185 134 KADMKELEHNL 144
                              88888887775 PP

>> Peptidase_M75  Imelysin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   1.9   4.8e-06     0.001     189     276 ..      36     128 ..      14     144 .. 0.63

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 4.8e-06
                              HTSCHHCHSTTTTTT-HHHHHHHHHHHHHHHHCTS.SCCHHHHHCCCSC....HHHHHHHHHHHHHHHHHHCSSSSGGGGC..T-H CS
            Peptidase_M75 189 lsapdpedeedcfsdnsladiqanleGirnvylgesgaslrdlveaadp....alaeqldaalaaleaalaaiaapfdqai..gda 268
                              + +++  +e+++   ++l+ +q  ++G++n +++e  ++l++ ++a+ +    +l+++++   ++l+a +++++ +f ++i   ++
  PHY93_06185|PHY93_06185  36 FATKSDFKEHYFMTKTDLKEVQTEMKGLKNELQAE-MKGLKNELQAEMKglknELQAEMKGLKNELQAEMKDLKNEFQTEIkdLKN 120
                              46888999************************887.45555555555440000444444444444445555554466666633334 PP

                              HHHHHHHH CS
            Peptidase_M75 269 egraliqa 276
                              e ++ i++
  PHY93_06185|PHY93_06185 121 EFQTEIKD 128
                              44444433 PP

>> ApoLp-III  Apolipophorin-III precursor (apoLp-III)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6  10.8   6.9e-06    0.0015      19     113 ..      52     143 ..      37     147 .. 0.90

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 6.9e-06
                ApoLp-III  19 sqeevvetiKensenlvdqlkqvikslqeelkkksdeleealkevkkkieetadklseenPevkkkaqelqekvQsgvqslvkesq 104
                              + +ev +++K   ++l  ++k + ++lq e+k   +el+  +k +k++++  +++l++   e + ++++l++++Q+ ++ l +e++
  PHY93_06185|PHY93_06185  52 DLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKDLKN---EFQTEIKDLKNEFQTEIKDLRTEVK 134
                              67889999999999999999999999*******999********************99...9************************ PP

                ApoLp-III 105 klaeslken 113
                              +  ++l+ n
  PHY93_06185|PHY93_06185 135 ADMKELEHN 143
                              999999987 PP

>> Golgin_A5  Golgin subfamily A member 5
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.5  13.3   5.2e-06    0.0011      41     156 ..      24     141 ..       4     149 .. 0.66

  Alignments for each domain:
  == domain 1  score: 18.5 bits;  conditional E-value: 5.2e-06
                Golgin_A5  41 sstalsaeldelkqerdllreelqklnqqieqlrtelqdleaqqqaeaeslreqlqeleeqleeerka.....keeveaelerlke 121
                              s +  ++ +d+  + +  ++e    +++ +++++te++ l+++ qae++ l+++lq   + l++e +a     k+e++ae++ lk+
  PHY93_06185|PHY93_06185  24 SVQLWMDLMDQNFATKSDFKEHYFMTKTDLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAemkglKNELQAEMKDLKN 109
                              33334555677777888899999999999999999999999999999998888777655555444333100024555555555555 PP

                Golgin_A5 122 elryleeelvrskatlqsrikdrekeieklrnqlt 156
                              e+++   e +  k+++q++ikd  +e++   ++l 
  PHY93_06185|PHY93_06185 110 EFQT---EIKDLKNEFQTEIKDLRTEVKADMKELE 141
                              5554...5555568889999998888877666665 PP

>> DUF5082  Domain of unknown function (DUF5082)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.2   0.7   0.00018     0.039      64     113 ..      38      87 ..      11      98 .. 0.83
   2 ?    8.0   1.9     0.016       3.4      74     105 ..     103     134 ..      89     145 .. 0.55

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 0.00018
                  DUF5082  64 eennydgirsnlessyqtyvdkldelidaieeEIerLenqiseaqgvldt 113
                              +++++++++  ++++ ++++++++ l+ +++ E + L+n+++   + l++
  PHY93_06185|PHY93_06185  38 TKSDFKEHYFMTKTDLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKN 87 
                              678999***********************************988777764 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.016
                  DUF5082  74 nlessyqtyvdkldelidaieeEIerLenqis 105
                              ++++  +++++++++l+ + ++EI++L+++++
  PHY93_06185|PHY93_06185 103 EMKDLKNEFQTEIKDLKNEFQTEIKDLRTEVK 134
                              34444455566666666666666666665554 PP

>> DUF1664  Protein of unknown function (DUF1664)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   4.6   3.1e-05    0.0068      28     103 ..      31     107 ..      24     109 .. 0.87
   2 !   10.8   4.7    0.0017      0.37      53     117 ..      78     144 ..      76     151 .. 0.78

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 3.1e-05
                  DUF1664  28 lsdlmfvTkrslsdavesvskqleqvseslaatkrhLssridrvdkkld.eqkeiskeikeevtevredlseigedv 103
                              l d  f+Tk  +++      ++l++v+++++  k++L+++++ + ++l+ e+k +++e+++e++ ++++l++  +d+
  PHY93_06185|PHY93_06185  31 LMDQNFATKSDFKEHYFMTKTDLKEVQTEMKGLKNELQAEMKGLKNELQaEMKGLKNELQAEMKGLKNELQAEMKDL 107
                              56777*****************************************998356779999********99998766665 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 0.0017
                  DUF1664  53 vseslaatkrhLssridrvdkkld.eqkeiskeikeevtevredls.eigedvesvkeavegleskl 117
                              ++++++  k++L+++++ + ++l+ e+k++++e + e+++++++ + ei++  ++vk+ +++le++l
  PHY93_06185|PHY93_06185  78 LQAEMKGLKNELQAEMKGLKNELQaEMKDLKNEFQTEIKDLKNEFQtEIKDLRTEVKADMKELEHNL 144
                              6788899999999999999998873678899999999999998876246666667888888888776 PP

>> Fzo_mitofusin  fzo-like conserved region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.1   4.0   0.00048      0.11      83     129 ..      55     101 ..      12     110 .. 0.62
   2 !   11.2   9.4    0.0009       0.2      94     159 ..      55     122 ..      34     148 .. 0.52

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00048
            Fzo_mitofusin  83 ivsltsancshqvqqelsstfarlcqqvdetekeleeeikelekeie 129
                               v++  + +++ +q e++   ++l+++ +  ++el++e+k l++e++
  PHY93_06185|PHY93_06185  55 EVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGLKNELQ 101
                              34455555555566666666666666666666666666665555554 PP

  == domain 2  score: 11.2 bits;  conditional E-value: 0.0009
            Fzo_mitofusin  94 qvqqelsstfarlcqqvdetekeleeeikelekeie.kleevqkkakl.lrnkaslleseLekfeeqy 159
                               vq e++   ++l+++ +  ++el++e+k l++e++ +++ +++++++ +++  +++++e+++ ++++
  PHY93_06185|PHY93_06185  55 EVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQaEMKGLKNELQAeMKDLKNEFQTEIKDLKNEF 122
                              34444444444444444444444444444444444322333333332213333333444444433333 PP

>> SPATA1_C  Spermatogenesis-associated C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0  19.2   9.2e-05      0.02      20     148 ..      20     144 ..       3     147 .. 0.75

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 9.2e-05
                 SPATA1_C  20 llrkakelleqnkqkreenqakeiWkkkyleeKksTasLeeelkkLrqelellykkllaqlkardnkkkeknvakseelkneliiq 105
                                +k+ +l    + ++   + k+  k  y+ +K +   ++ e+k L++el++  k l  +l+a  +  k++ +a+ + lknel ++
  PHY93_06185|PHY93_06185  20 QAKKSVQLWMDLMDQN--FATKSDFKEHYFMTKTDLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAE 103
                              4555555555544445..788999*********99999999**********98888877777766645555555555699999999 PP

                 SPATA1_C 106 iiaaqheidelkrkledakmklvaElk.lRkqaaeelkaLrael 148
                              +  +++e    + +++d k +  +E+k lR ++++++k+L ++l
  PHY93_06185|PHY93_06185 104 MKDLKNE---FQTEIKDLKNEFQTEIKdLRTEVKADMKELEHNL 144
                              9988876...4678888888999999867889999999988877 PP

>> Filament  Intermediate filament protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.5  16.2     9e-05      0.02      73     156 ..      49     139 ..       6     154 .. 0.58

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 9e-05
                              XXXXXXXXXXXXXXXXXXXXXXXX.XXXXXXXXXXXXXXXXXXXXX.XXXXXXXXXXXXXX....XXXXXXXXXXXXXXXXXXXXX CS
                 Filament  73 lqleldnlreeledlrkkyekeln.kreevEaelkalrkdldeatl.arvdLekkvesLke....elaflkkvheeEvkelqkqvs 152
                              ++ +l+++++e++ l++ ++ e++ +++e+ ae+k+l+ +l++++   + +L+++++ Lk+    e++ lk+ +++E+k+l+++v+
  PHY93_06185|PHY93_06185  49 TKTDLKEVQTEMKGLKNELQAEMKgLKNELQAEMKGLKNELQAEMKgLKNELQAEMKDLKNefqtEIKDLKNEFQTEIKDLRTEVK 134
                              34556666666666666666665324666666666666666655432466666666655541111567788888888888888886 PP

                              .XXXX CS
                 Filament 153 .eqvl 156
                               +   
  PHY93_06185|PHY93_06185 135 aDMKE 139
                              33333 PP

>> DUF885  Bacterial protein of unknown function (DUF885)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   3.1   0.00016     0.035     219     315 ..      32     134 ..       4     151 .. 0.52

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 0.00016
                              HHHHHSSSS-HHHHHHHHHHHHHHHHHHHHHHHHHH.HH.-....HHHHHHHHHC....H-GGGEEESHHHHHHHHHHHHHHHHHH CS
                   DUF885 219 lrsftttdltpeeihelglaelariraemeaiakev.gf.k...gdlaevlaalr....tdprfyleetdagreellaaaraaiae 295
                                ++  t+ + +e + + + +l++++ em+ +++e+  + k    +l++ ++ l+    ++ +   +e +a  ++l ++++++i++
  PHY93_06185|PHY93_06185  32 MDQNFATKSDFKEHYFMTKTDLKEVQTEMKGLKNELqAEmKglkNELQAEMKGLKnelqAEMKGLKNELQAEMKDLKNEFQTEIKD 117
                              55555566666666666666666666666666666633333332233333333331111222222233333333444444444444 PP

                              HCCHHHCCT---TTS-GCCC CS
                   DUF885 296 ldaklpehfgllpkaplevr 315
                              l++   e+++++ + + ev+
  PHY93_06185|PHY93_06185 118 LKN---EFQTEIKDLRTEVK 134
                              444...33355555555555 PP

>> PIN_8  PIN like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2  10.3   0.00027     0.059      36     133 ..      37     136 ..       7     152 .. 0.60

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 0.00027
                    PIN_8  36 vPhqvalEfqrnresviskekkayedlekeleklkkaaekkleealkkwakkkaldteelrkelkkqleelkeelkaeleelkkss 121
                               +   ++E +   ++ +++ ++ ++ l++el++ +k ++++l++ +k  +++ + + + l++el++++++lk+e+++e ++lk+++
  PHY93_06185|PHY93_06185  37 ATKSDFKEHYFMTKTDLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKDLKNEFQTEIKDLKNEF 122
                              44445555555555556666666666666666666666666666666666666666666666666666666666666666666666 PP

                    PIN_8 122 kadkee..dpilkk 133
                              ++++++   ++++ 
  PHY93_06185|PHY93_06185 123 QTEIKDlrTEVKAD 136
                              66654333333333 PP

>> DUF4795  Domain of unknown function (DUF4795)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8  11.9    0.0012      0.27     124     175 ..      49     106 ..       4     111 .. 0.67
   2 ?    8.6   5.9    0.0059       1.3     116     157 ..      98     141 ..      93     147 .. 0.77

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.0012
                  DUF4795 124 ekld....rlelepLkeqleerlkelqkelqeamekedk..edeaaglrkkLlerfdc 175
                              +k d    + e++ Lk++l+ ++k l++elq  m+ +++  ++e+ gl+++L +++++
  PHY93_06185|PHY93_06185  49 TKTDlkevQTEMKGLKNELQAEMKGLKNELQAEMKGLKNelQAEMKGLKNELQAEMKD 106
                              2333666688888888888888888888888888777667888888888888776665 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0059
                  DUF4795 116 dtLqeelkekld..rlelepLkeqleerlkelqkelqeameked 157
                              ++Lq e+k   +  + e+++Lk++++ ++k l++e++  m+ ++
  PHY93_06185|PHY93_06185  98 NELQAEMKDLKNefQTEIKDLKNEFQTEIKDLRTEVKADMKELE 141
                              67888886544459999999999999999999999998887765 PP

>> DUF842  Eukaryotic protein of unknown function (DUF842)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   2.9    0.0019      0.41      53     107 ..      56     112 ..      48     113 .. 0.83
   2 ?    9.1   2.8    0.0047         1      57     105 ..      82     132 ..      79     147 .. 0.55

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.0019
                   DUF842  53 CseplqkaqkvvqqEleqfqerLqrcvmvCqdkakdklgp..nssekqtakaekele 107
                               +++++ +++ +q E++ ++++Lq  ++  +++++ +++   n+ +++++++++e++
  PHY93_06185|PHY93_06185  56 VQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGlkNELQAEMKDLKNEFQ 112
                              577888899999999999999999999999999999997776778888888888875 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.0047
                   DUF842  57 lqkaqkvvqqEleqfqerLqrcvmvCqdkakdklgp..nssekqtakaeke 105
                              ++ +++ +q E++ ++++Lq  +++ +++++ +++   n+ +++ +++++e
  PHY93_06185|PHY93_06185  82 MKGLKNELQAEMKGLKNELQAEMKDLKNEFQTEIKDlkNEFQTEIKDLRTE 132
                              555666666666666666666666666666666644333333333333333 PP

>> Tup_N  Tup N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   5.8      0.02       4.3      18      74 ..      44     101 ..      28     103 .. 0.67
   2 ?   10.5  12.5    0.0026      0.58       8      74 ..      55     123 ..      53     144 .. 0.85

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.02
                    Tup_N  18 qeasslkaqkdeyelkiqsqiqElqq.irqtlyeLeeahrkikqqYEeeiarLkaeLe 74 
                              +++ ++k   +e+ + ++   +Elq+ ++    eL+++ + +k++ + e++ Lk+eL+
  PHY93_06185|PHY93_06185  44 EHYFMTKTDLKEVQTEMKGLKNELQAeMKGLKNELQAEMKGLKNELQAEMKGLKNELQ 101
                              4455556666677777777777776436666678888888888888888888888887 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 0.0026
                    Tup_N   8 avkqEfdalsqeass.lkaqkdeyelkiqsqiqElqq.irqtlyeLeeahrkikqqYEeeiarLkaeLe 74 
                               v++E + l++e++  +k  k+e+ + ++   +Elq+ ++    eL+++ +++k++++ ei+ Lk+e +
  PHY93_06185|PHY93_06185  55 EVQTEMKGLKNELQAeMKGLKNELQAEMKGLKNELQAeMKGLKNELQAEMKDLKNEFQTEIKDLKNEFQ 123
                              688899999999988788899999999999999998537777789999999999999999999999876 PP

>> DUF1451  Zinc-ribbon containing domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   8.4   0.00072      0.16      20     100 ..      55     124 ..      12     151 .. 0.63

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00072
                  DUF1451  20 kakeklseaeeltkeelelvaeylkrDleeaarsleeskeeleewlsldlelieesllealasiaDktqvelaelaedleh 100
                              ++++           e++ +++ l+ +++ ++++l+++ + l+++l+ +++ ++++l  ++ ++ ++ q e++ l++++++
  PHY93_06185|PHY93_06185  55 EVQT-----------EMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKDLKNEFQTEIKDLKNEFQT 124
                              3344...........444444555555555555555555555555555555555555555555555555555555555443 PP

>> T3SS_needle_F  Type III secretion needle MxiH, YscF, SsaG, EprI, PscF, EscF
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   2.8       0.3        66      12      23 ..      82      93 ..      53     114 .. 0.56
   2 ?    9.5   0.2     0.005       1.1       1      30 [.     115     144 ..     115     146 .. 0.92

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.3
                             THHHHHHHHHHH CS
            T3SS_needle_F 12 vskaekelqdal 23
                             ++ +++elq+ +
  PHY93_06185|PHY93_06185 82 MKGLKNELQAEM 93
                             333333333333 PP

  == domain 2  score: 9.5 bits;  conditional E-value: 0.005
                              HHHHHHHHHCCTHHHHHHHHHHHHHHHHST CS
            T3SS_needle_F   1 ldsvasalsqkvskaekelqdalealkadp 30 
                              ++++++++++++++++ e+++ ++ l+ ++
  PHY93_06185|PHY93_06185 115 IKDLKNEFQTEIKDLRTEVKADMKELEHNL 144
                              6899**********************8886 PP

>> FAM184  Family with sequence similarity 184, A and B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8  14.9   0.00034     0.075      84     193 ..      32     142 ..       5     150 .. 0.70

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 0.00034
                   FAM184  84 eerelkleaehsqkvvelsreveevkrkFeeklrqfaqlqeqleqekekaLeelrkkhreeveeLlkeqeaq....sekllkeqek 165
                               +++ ++++++++ +   +++++ev+ + +   ++++  ++ l++e ++ ++ l+++ + e++ L++e +a+    ++++++e + 
  PHY93_06185|PHY93_06185  32 MDQNFATKSDFKEHYFMTKTDLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEmkdlKNEFQTEIKD 117
                              46777888999999999999999999999988888888888888888888888888888888766666655500114555555666 PP

                   FAM184 166 leekhkaeveklkeeveelekekkklve 193
                              l+++ ++e+++l+    e+++++k+l++
  PHY93_06185|PHY93_06185 118 LKNEFQTEIKDLR---TEVKADMKELEH 142
                              6788888888888...555555555554 PP

>> Mitofilin  Mitochondrial inner membrane protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0  12.6    0.0003     0.067     337     407 ..      59     128 ..       6     152 .. 0.58

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.0003
                Mitofilin 337 lsarleeerakeerqlrlelereleeireeyeekLrteLerqaeaheehLkdvlveqeieLkrefqqeike 407
                               ++ l++e+++e ++l+ el++e++ ++ e++ +++  L+ + +a  + Lk++ ++   +Lk efq eik+
  PHY93_06185|PHY93_06185  59 EMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMK-GLKNELQAEMKDLKNEFQTEIKDLKNEFQTEIKD 128
                              233334444444444444444444444444444444.4444444444444444444444444444444444 PP

>> DUF883  Bacterial protein of unknown function (DUF883)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.8   1.1     0.047        10       2      47 ..      55     100 ..      47     102 .. 0.74
   2 ?   11.0   1.1    0.0023      0.51       2      48 ..      99     145 ..      98     156 .. 0.92

  Alignments for each domain:
  == domain 1  score: 6.8 bits;  conditional E-value: 0.047
                   DUF883   2 eleaeleslladleellkeaadeageeaeelRerleerlerarerl 47 
                              e++ e++ l ++l++ +k  ++e + e++ l+++l+++++ ++++l
  PHY93_06185|PHY93_06185  55 EVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGLKNEL 100
                              5677777777777777777777777778888877777777777766 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.0023
                   DUF883   2 eleaeleslladleellkeaadeageeaeelRerleerlerarerlr 48 
                              el+ae+++l ++ +  +k+ ++e + e+++lR ++++ ++++ ++l+
  PHY93_06185|PHY93_06185  99 ELQAEMKDLKNEFQTEIKDLKNEFQTEIKDLRTEVKADMKELEHNLT 145
                              799*************************************9988875 PP

>> MADF_DNA_bdg  Alcohol dehydrogenase transcription factor Myb/SANT-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   2.8      0.02       4.4      42      64 ..      97     119 ..      39     145 .. 0.65

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.02
             MADF_DNA_bdg  42 veeckkkwknLRdryrrelrkkk 64 
                              ++e+++ +k L+++++ e++  k
  PHY93_06185|PHY93_06185  97 KNELQAEMKDLKNEFQTEIKDLK 119
                              44455555555555555555555 PP

>> DUF4407  Domain of unknown function (DUF4407)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   7.7    0.0005      0.11     135     221 ..      50     135 ..      12     160 .. 0.52

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.0005
                  DUF4407 135 laeleaqiaalqaeidaaearldalraeaqkeldgtkgtgttgvaGkgpaake.kkaqldaaqaelaelkakldatarlaalrael 219
                               ++l++ ++++++  ++++a+++ l++e+q+e++g k++    ++G   + ++  k+  ++ q+e+++lk++   ++++++lr+e 
  PHY93_06185|PHY93_06185  50 KTDLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAeMKDLKNEFQTEIKDLKNE--FQTEIKDLRTEV 133
                              333333333344444444444444444444444444433333344444444442344444555556666555..444444444443 PP

                  DUF4407 220 ae 221
                              + 
  PHY93_06185|PHY93_06185 134 KA 135
                              33 PP

>> Gp-FAR-1  Nematode fatty acid retinoid binding protein (Gp-FAR-1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9  13.1     0.002      0.44      23     105 ..      50     134 ..      47     148 .. 0.53

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.002
                 Gp-FAR-1  23 kaqlkevvknykgyknedellaalKkkspaLyekaeklqaklkekvdkLspeakeFvkkli....akgrkleaqvlagekpdlsel 104
                              k++lkev +++kg kn  el a++K  +++L ++++ l+++l++++++L++e ++ +k+l      +++ l+++++++ k  ++e+
  PHY93_06185|PHY93_06185  50 KTDLKEVQTEMKGLKN--ELQAEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKDLKnefqTEIKDLKNEFQTEIKDLRTEV 133
                              6667777777777766..35566666666666666666666666666665555544444332222333333333333333333333 PP

                 Gp-FAR-1 105 k 105
                              k
  PHY93_06185|PHY93_06185 134 K 134
                              3 PP

>> Exonuc_VII_L  Exonuclease VII, large subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   5.0   0.00039     0.086     145     222 ..      56     134 ..       9     159 .. 0.42

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.00039
             Exonuc_VII_L 145 leeqleelerrlekaikrlleekkqrleklasrlkspeellerk.rqrldeleerleralkkqlkkkrerleelkerlk 222
                              ++ +++ l+++l+ ++k l +e +++++ l+++l+   + l+++ + ++++l++++++++k   ++ +++++ l++++k
  PHY93_06185|PHY93_06185  56 VQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGLKNElQAEMKDLKNEFQTEIKDLKNEFQTEIKDLRTEVK 134
                              2233333333333333333333333333333333211111111112222222222222222222222222222222221 PP

>> FAP206  Domain of unknown function
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   1.5   0.00067      0.15      24      99 ..       4      81 ..       1      88 [. 0.90
   2 ?    3.0   0.6      0.27        59      77      99 ..      81     103 ..      77     114 .. 0.58
   3 ?    3.9   0.7      0.15        33      75      96 ..     112     133 ..      98     144 .. 0.57

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00067
                   FAP206 24 asrytallekl..veeseaevaeeqlerlkqalinvrqyeaylrilledveksaeeveellkrfeaeleklketvksk 99
                             + ryt+ lek+   +e++++  +  ++++ q  ++   ++    + ++d+++ + e++ l+++++ae++ lk+ +++ 
  PHY93_06185|PHY93_06185  4 ILRYTEELEKVgfTNEQAKKSVQLWMDLMDQNFATKSDFKEHYFMTKTDLKEVQTEMKGLKNELQAEMKGLKNELQAE 81
                             579********9777777777788899999999999**************************************9976 PP

  == domain 2  score: 3.0 bits;  conditional E-value: 0.27
                   FAP206  77 eveellkrfeaeleklketvksk 99 
                              e++ l+++++ae++ lk+ +++ 
  PHY93_06185|PHY93_06185  81 EMKGLKNELQAEMKGLKNELQAE 103
                              55556666666666666666543 PP

  == domain 3  score: 3.9 bits;  conditional E-value: 0.15
                   FAP206  75 aeeveellkrfeaeleklketv 96 
                              + e++ l+++f++e+++l+  v
  PHY93_06185|PHY93_06185 112 QTEIKDLKNEFQTEIKDLRTEV 133
                              3445555555555555555555 PP

>> DUF4709  Domain of unknown function (DUF4709)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.1       4.2   9.2e+02      58      80 ..      13      35 ..       4      49 .. 0.64
   2 ?   13.2  10.1   0.00038     0.082      17     101 ..      47     136 ..      37     144 .. 0.80

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 4.2
                  DUF4709 58 qakyeeklkeealelytrlndkl 80
                             ++ + ++  +++++l++ l d+ 
  PHY93_06185|PHY93_06185 13 KVGFTNEQAKKSVQLWMDLMDQN 35
                             45566666777777777776654 PP

  == domain 2  score: 13.2 bits;  conditional E-value: 0.00038
                  DUF4709  17 hatQTdvsEi.lelkeltevtqk.Lvkevkslkrdfeflkqllqaky...eeklkeealelytrlndklkeleklykekvevvRks 97 
                               +t Td +E+ +e+k l +++q  ++   ++l+ +++ lk+ lqa+    +++l+ e  +l ++ ++++k+l++ ++ +++ +R  
  PHY93_06185|PHY93_06185  47 FMTKTDLKEVqTEMKGLKNELQAeMKGLKNELQAEMKGLKNELQAEMkglKNELQAEMKDLKNEFQTEIKDLKNEFQTEIKDLRTE 132
                              57999****94589999998886145555789999999999999986222689999999999999999999999999999999998 PP

                  DUF4709  98 fkqQ 101
                              +k  
  PHY93_06185|PHY93_06185 133 VKAD 136
                              8765 PP

>> TetR_C_24  Tetracyclin repressor-like, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.1      0.15        33      29      65 ..      56      92 ..      42      99 .. 0.79
   2 ?    6.5   0.2     0.044       9.6      31      65 ..     102     136 ..      98     156 .. 0.77

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.15
                             HHHHGGGS-HHHHHHHHHHHHHHHHHHHHHHHHHHHT CS
                TetR_C_24 29 llrelraLspehreeiralrreyerllrdlieeGvaa 65
                             +++e++ L+ e ++e++ l++e+++ ++ l +e +a+
  PHY93_06185|PHY93_06185 56 VQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAE 92
                             5678899999999999999999998888887776665 PP

  == domain 2  score: 6.5 bits;  conditional E-value: 0.044
                              HHGGGS-HHHHHHHHHHHHHHHHHHHHHHHHHHHT CS
                TetR_C_24  31 relraLspehreeiralrreyerllrdlieeGvaa 65 
                               e++ L+ e ++ei++l++e+++ ++dl +e  a+
  PHY93_06185|PHY93_06185 102 AEMKDLKNEFQTEIKDLKNEFQTEIKDLRTEVKAD 136
                              68888889999999999999998888887776655 PP

>> DUF3584  Protein of unknown function (DUF3584)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0  14.1     0.001      0.22     794     916 ..      23     139 ..       3     154 .. 0.36

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.001
                  DUF3584 794 eevreYraflqetwlkvdslaeerpalkeqveelesaaeeleqeltrliedtklerkklekerkalekqldqldenlrklrdllsk 879
                              + v+ + + + ++++   + +e+  + k+ ++e++++++ l++el++  + +k+e+++ +k++k  ++++ ++++++ +l+++++ 
  PHY93_06185|PHY93_06185  23 KSVQLWMDLMDQNFATKSDFKEHYFMTKTDLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLK--NELQAEMKGLKNELQAEMKD 106
                              3333333334444433333333333333333333333333333333333333333333333322..22333333333333333333 PP

                  DUF3584 880 l.aelkldadaeqaegelaerlaaleelkrkrerlsed 916
                              l +e++ +   ++++   +e    +++l+++ +  +++
  PHY93_06185|PHY93_06185 107 LkNEFQTE--IKDLK---NEFQTEIKDLRTEVKADMKE 139
                              32222222..11222...11111122222222222222 PP

>> HalX  HalX domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.4      0.17        38      38      58 ..      87     107 ..      51     115 .. 0.70
   2 ?    7.7   1.2     0.019       4.2      25      60 ..     107     142 ..      99     147 .. 0.86

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.17
                     HalX  38 qeLearleelraqldetldel 58 
                               eL+a++  l+ +l +++ +l
  PHY93_06185|PHY93_06185  87 NELQAEMKGLKNELQAEMKDL 107
                              356666666666666666654 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.019
                     HalX  25 ekseaeLadseeYqeLearleelraqldetldeldd 60 
                               k e++ ++ + + e ++++ +lr+++ + + el++
  PHY93_06185|PHY93_06185 107 LKNEFQTEIKDLKNEFQTEIKDLRTEVKADMKELEH 142
                              58899999*******************999999765 PP

>> Tektin  Tektin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   6.8   0.00089      0.19     215     296 ..      19     101 ..      13     108 .. 0.87
   2 ?    4.7   2.6     0.048        10      54      96 ..     103     146 ..     101     151 .. 0.74

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00089
                   Tektin 215 kerqasakLreaidsilkqtandlraqaeavnealrkrieetedaknkleeqlkkvleeia.eleknieeLekairdkeaplk 296
                              ++ ++s++L  ++ +    t++d ++++  + + l++  +e++  kn+l+ + k +++e++ e++   +eL+ +++  ++ l+
  PHY93_06185|PHY93_06185  19 EQAKKSVQLWMDLMDQNFATKSDFKEHYFMTKTDLKEVQTEMKGLKNELQAEMKGLKNELQaEMKGLKNELQAEMKGLKNELQ 101
                              68899***************************************************999853677777777777777777666 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.048
                   Tektin  54 diefwkeeLekeleelkeeie.aLeeekrrlekalealeeplhi 96 
                              +++ +k+e ++e+++lk+e + ++++ +++++  +++le++l +
  PHY93_06185|PHY93_06185 103 EMKDLKNEFQTEIKDLKNEFQtEIKDLRTEVKADMKELEHNLTV 146
                              67778888888888888886525777778888888888777765 PP

>> NAP  Nucleosome assembly protein (NAP)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.9     0.027         6       5      40 ..      52      87 ..      49      98 .. 0.82
   2 ?   10.3   1.6    0.0013      0.28       8      40 ..      99     131 ..      91     145 .. 0.85

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.027
                             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                      NAP  5 aLkklqkelskleaefqeevlelekkyaalykplye 40
                              Lk++q+e++ l++e+q e+  l+++ +a++k l +
  PHY93_06185|PHY93_06185 52 DLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKN 87
                             589999999999999999999999999999887765 PP

  == domain 2  score: 10.3 bits;  conditional E-value: 0.0013
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                      NAP   8 klqkelskleaefqeevlelekkyaalykplye 40 
                              +lq e+++l++efq e+ +l++++++++k l  
  PHY93_06185|PHY93_06185  99 ELQAEMKDLKNEFQTEIKDLKNEFQTEIKDLRT 131
                              69999*******************999998865 PP

>> KxDL  Uncharacterized conserved protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   0.4      0.24        52      46      80 ..      38      69 ..      18      71 .. 0.76
   2 ?    5.8   5.0     0.075        17      17      58 ..      67     108 ..      48     109 .. 0.67
   3 ?   12.3   5.3   0.00072      0.16      17      70 ..      89     143 ..      86     146 .. 0.91

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.24
                     KxDL 46 lrarfkqgtkllkevkkdLesifkkirslkaklak 80
                             ++++fk++  +   +k dL+ ++  ++ lk +l++
  PHY93_06185|PHY93_06185 38 TKSDFKEHYFM---TKTDLKEVQTEMKGLKNELQA 69
                             46667777666...678999999999999998875 PP

  == domain 2  score: 5.8 bits;  conditional E-value: 0.075
                     KxDL  17 lQaqtsgrlnkknreLlelnalsqerlaklrarfkqgtkllk 58 
                              lQa++ g  n+ ++e++ l +++q++++ l+++++  +k+lk
  PHY93_06185|PHY93_06185  67 LQAEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKDLK 108
                              566676777777777777777777777777777776666665 PP

  == domain 3  score: 12.3 bits;  conditional E-value: 0.00072
                     KxDL  17 lQaqtsgrlnkknreLlelnalsqerlaklrarfkqgtkllk.evkkdLesifkk 70 
                              lQa++ g  n+ ++e+++l ++ q++ ++l+++f+  +k+l+ evk+d++ +  +
  PHY93_06185|PHY93_06185  89 LQAEMKGLKNELQAEMKDLKNEFQTEIKDLKNEFQTEIKDLRtEVKADMKELEHN 143
                              7*************************************888658****9987766 PP

>> PKK  Polo kinase kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.0  13.7     0.028       6.2      11      81 ..      45     110 ..      15     114 .. 0.53
   2 ?   11.1  15.7    0.0014      0.31       4      83 ..      59     138 ..      56     148 .. 0.62

  Alignments for each domain:
  == domain 1  score: 7.0 bits;  conditional E-value: 0.028
                      PKK  11 rfeqertqlkkrydkeleqlerqqkqqiEkleqeqaqelrelpkriraEqkkelakFkesLkqekkelkqe 81 
                               +++ +t l k+ ++e++ l++  + ++  l+    +el+ ++k +++E ++e++  k++L+ e+k+lk+e
  PHY93_06185|PHY93_06185  45 HYFMTKTDL-KEVQTEMKGLKNELQAEMKGLK----NELQAEMKGLKNELQAEMKGLKNELQAEMKDLKNE 110
                              444444443.3444444444444444444443....33444444555555555555555555555555554 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 0.0014
                      PKK   4 qkeqlkrrfeqertqlkkrydkeleqlerqqkqqiEkleqeqaqelrelpkriraEqkkelakFkesLkqekkelkqevr 83 
                              + + lk + ++e++ lk++ + e++ l++  + ++  l++e ++e+++l    ++E k   ++F+ ++k   +e+k++++
  PHY93_06185|PHY93_06185  59 EMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKDLKNEFQTEIKDLKNEFQTEIKDLRTEVKADMK 138
                              55556677777777777777777777777777777777776666666666666666666666666666666655555552 PP

>> IL11  Interleukin 11
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2   0.5     0.016       3.5      94     122 ..      49      77 ..      34      86 .. 0.71
   2 ?    5.8   0.4     0.044       9.6      99     122 ..      87     110 ..      76     116 .. 0.67
   3 ?    0.9   0.1       1.5   3.2e+02      99     120 ..     120     141 ..     109     152 .. 0.64

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.016
                     IL11  94 lepklgelisklkrLlkslqllmskleap 122
                              ++ +l+e+++++k L ++lq+ m+ l+ +
  PHY93_06185|PHY93_06185  49 TKTDLKEVQTEMKGLKNELQAEMKGLKNE 77 
                              45677888888888888888888776554 PP

  == domain 2  score: 5.8 bits;  conditional E-value: 0.044
                     IL11  99 gelisklkrLlkslqllmskleap 122
                              +el++++k L ++lq+ m+ l+ +
  PHY93_06185|PHY93_06185  87 NELQAEMKGLKNELQAEMKDLKNE 110
                              567777788888888887777655 PP

  == domain 3  score: 0.9 bits;  conditional E-value: 1.5
                     IL11  99 gelisklkrLlkslqllmskle 120
                              +e ++++k L +++++ m++le
  PHY93_06185|PHY93_06185 120 NEFQTEIKDLRTEVKADMKELE 141
                              3456666666666666666665 PP

>> HIP1_clath_bdg  Clathrin-binding domain of Huntingtin-interacting protein 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.5   5.5      0.12        27      58      91 ..      50      84 ..       5      88 .. 0.55
   2 ?    9.3  16.4     0.008       1.8      18      95 ..      53     132 ..      47     148 .. 0.73

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.12
           HIP1_clath_bdg 58 kreleakraelarlkssLesseq.sgeqlssqlaa 91
                             k++l++ ++e++ lk+ L+ + +  +++l++++++
  PHY93_06185|PHY93_06185 50 KTDLKEVQTEMKGLKNELQAEMKgLKNELQAEMKG 84
                             33444444444444444433322123334444444 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.008
           HIP1_clath_bdg  18 arqaqeeverekkeleeelerlkeeaerkle....eqkeelekLkreleakraelarlkssLess.eqsgeqlssqlaaLqaE 95 
                               ++ q e++  k+el+ e++ lk+e + +++    e + e++ Lk+el+a++++l+   +  +++ +  +++ ++++++L++E
  PHY93_06185|PHY93_06185  53 LKEVQTEMKGLKNELQAEMKGLKNELQAEMKglknELQAEMKGLKNELQAEMKDLK---NEFQTEiKDLKNEFQTEIKDLRTE 132
                              57889999999999999999999999888886666777788888888877666554...444443134566666777777666 PP

>> CdvA  CdvA-like coiled-coil domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   6.6     0.016       3.5      14      62 ..      40      88 ..      22     101 .. 0.61
   2 ?    5.9   4.4     0.049        11      22      57 ..      77     112 ..      75     116 .. 0.87
   3 ?    3.9   7.9       0.2        45      16      54 ..     104     142 ..      87     157 .. 0.58

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.016
                     CdvA 14 dipkstyeeikekleealkklkekakelkeklkkrlkeledqiksleka 62
                               +k+ y + k  l+e  +++k  ++el+ ++k   +el+ ++k l+  
  PHY93_06185|PHY93_06185 40 SDFKEHYFMTKTDLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNE 88
                             4555556666666666666666666666666666666666666666544 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.049
                     CdvA  22 eikekleealkklkekakelkeklkkrlkeledqik 57 
                              e++ +++   ++l++++k lk++l++++k+l+++ +
  PHY93_06185|PHY93_06185  77 ELQAEMKGLKNELQAEMKGLKNELQAEMKDLKNEFQ 112
                              788889999999999999999999999999998865 PP

  == domain 3  score: 3.9 bits;  conditional E-value: 0.2
                     CdvA  16 pkstyeeikekleealkklkekakelkeklkkrlkeled 54 
                              +k+  +e++ ++++  ++ + + k+l+ ++k+ +kele 
  PHY93_06185|PHY93_06185 104 MKDLKNEFQTEIKDLKNEFQTEIKDLRTEVKADMKELEH 142
                              333344444444444444445556666666666666665 PP

>> ORF11CD3  ORF11CD3 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   0.2       0.2        45      29      51 ..      59      81 ..      55      83 .. 0.89
   2 ?    4.8   0.2      0.14        31      29      51 ..      70      92 ..      66      93 .. 0.86
   3 ?    4.4   0.2      0.18        40      29      51 ..      81     103 ..      80     105 .. 0.89
   4 ?    5.7   0.2     0.072        16      29      52 ..      92     115 ..      87     116 .. 0.88
   5 ?    3.0   0.1       0.5   1.1e+02      29      52 ..     103     126 ..      98     127 .. 0.74

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.2
                 ORF11CD3 29 ewKqkKpqltqkveeLeeklQle 51
                             e K+ K  l++  ++L+++lQ e
  PHY93_06185|PHY93_06185 59 EMKGLKNELQAEMKGLKNELQAE 81
                             56999****************86 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.14
                 ORF11CD3 29 ewKqkKpqltqkveeLeeklQle 51
                             e K+ K  l++  ++L+++lQ e
  PHY93_06185|PHY93_06185 70 EMKGLKNELQAEMKGLKNELQAE 92
                             56999***************976 PP

  == domain 3  score: 4.4 bits;  conditional E-value: 0.18
                 ORF11CD3  29 ewKqkKpqltqkveeLeeklQle 51 
                              e K+ K  l++  ++L+++lQ e
  PHY93_06185|PHY93_06185  81 EMKGLKNELQAEMKGLKNELQAE 103
                              67999****************86 PP

  == domain 4  score: 5.7 bits;  conditional E-value: 0.072
                 ORF11CD3  29 ewKqkKpqltqkveeLeeklQleL 52 
                              e K+ K  l++  + L+++ Q+e+
  PHY93_06185|PHY93_06185  92 EMKGLKNELQAEMKDLKNEFQTEI 115
                              56999****************987 PP

  == domain 5  score: 3.0 bits;  conditional E-value: 0.5
                 ORF11CD3  29 ewKqkKpqltqkveeLeeklQleL 52 
                              e K  K   +  ++ L+++ Q+e+
  PHY93_06185|PHY93_06185 103 EMKDLKNEFQTEIKDLKNEFQTEI 126
                              447777778888888888888876 PP

>> Nbl1_Borealin_N  Nbl1 / Borealin N terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.4   0.2      0.13        28      11      38 ..      54      81 ..      53      85 .. 0.89
   2 ?    6.3   1.9     0.035       7.6       4      39 ..      80     115 ..      77     116 .. 0.88
   3 ?    7.3   1.2     0.017       3.7       6      39 ..     115     148 ..     112     151 .. 0.91

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.13
          Nbl1_Borealin_N 11 lEveeRirrlraelelllktlrnrfele 38
                             +Ev++ ++ l++el+  +k l+n+++ e
  PHY93_06185|PHY93_06185 54 KEVQTEMKGLKNELQAEMKGLKNELQAE 81
                             69******************99998765 PP

  == domain 2  score: 6.3 bits;  conditional E-value: 0.035
          Nbl1_Borealin_N   4 alLenfdlEveeRirrlraelelllktlrnrfelel 39 
                              a ++ + +E++  ++ l++el+  +k+l+n+f+ e+
  PHY93_06185|PHY93_06185  80 AEMKGLKNELQAEMKGLKNELQAEMKDLKNEFQTEI 115
                              55667889************************9997 PP

  == domain 3  score: 7.3 bits;  conditional E-value: 0.017
          Nbl1_Borealin_N   6 LenfdlEveeRirrlraelelllktlrnrfelel 39 
                              ++++ +E ++ i+ lr+e++  +k+l+ +++++l
  PHY93_06185|PHY93_06185 115 IKDLKNEFQTEIKDLRTEVKADMKELEHNLTVRL 148
                              899*****************99999999999987 PP

>> DUF2203  Uncharacterized conserved protein (DUF2203)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.2  10.8      0.15        33      20      81 ..      58      98 ..      15     152 .. 0.47

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.15
                  DUF2203 20 eelralrkeleeleeeleeakaeaekse.aaeleaeleeleaeieelveeie.elGvevkdlea 81
                             +e++                       + ++el+ae++ l++e+++ ++ ++ el +e+k+l++
  PHY93_06185|PHY93_06185 58 TEMK-----------------------GlKNELQAEMKGLKNELQAEMKGLKnELQAEMKGLKN 98
                             1122.......................1322222222222222222222222122222222221 PP

>> Atg14  Vacuolar sorting 38 and autophagy-related subunit 14
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   6.9    0.0017      0.37      21     115 ..      43     137 ..       3     149 .. 0.61

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.0017
                    Atg14  21 perlyelrerlaklksekeslkkkiekalegkeeaeqledkiknkkakle.elksliadlrerlqelkdk.lsqlkkeieekkkkl 104
                              +e+++  +++l+ +++e + lk++++++++g +  ++l+++ k +k+ l+ e+k l+ +l+++++ lk   +++ k+  +e + ++
  PHY93_06185|PHY93_06185  43 KEHYFMTKTDLKEVQTEMKGLKNELQAEMKGLK--NELQAEMKGLKNELQaEMKGLKNELQAEMKDLKNEfQTEIKDLKNEFQTEI 126
                              457777778888888888888888888888877..444444444444444234444444444444444331445566666666677 PP

                    Atg14 105 aklsdklkkRr 115
                              + l+ ++k  +
  PHY93_06185|PHY93_06185 127 KDLRTEVKADM 137
                              77777666333 PP

>> Metal_resist  Heavy-metal resistance
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.3   1.7    0.0056       1.2      34      83 ..      65     114 ..      34     145 .. 0.63

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.0056
                              HHHHHHHS-TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCS CS
             Metal_resist  34 aellraalgLpaeqraelraalrdharelralrrelraarrelaallaae 83 
                               el+  + gL  e +ae++ + ++ + e+  l +el+a   +l++++++e
  PHY93_06185|PHY93_06185  65 NELQAEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKDLKNEFQTE 114
                              34444555555555555555555555555555555555555555555544 PP

>> Syntaxin-6_N  Syntaxin 6, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   8.0       0.4        87      35      57 ..      96     118 ..       7     148 .. 0.54

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.4
             Syntaxin-6_N  35 tseeldetrteLrkalrsiewdl 57 
                               ++el+  +++L+++ ++  +dl
  PHY93_06185|PHY93_06185  96 LKNELQAEMKDLKNEFQTEIKDL 118
                              22222222222222222222222 PP

>> IL31  Interleukin 31
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   1.1    0.0055       1.2       3      55 ..      48     101 ..      46     105 .. 0.76
   2 ?    4.3   0.7      0.14        31      13      47 ..      92     126 ..      89     145 .. 0.71

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.0055
                     IL31   3 mapi.lrpskedlkkiikeLkslskklledyekkekGvsesesyqlpcltsdre 55 
                              m+ + l+  ++++k+  +eL+++ k l ++ + + kG++++ + ++  l  + +
  PHY93_06185|PHY93_06185  48 MTKTdLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGLKNELQ 101
                              555556677788999999999999999999998779999988887777766665 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.14
                     IL31  13 dlkkiikeLkslskklledyekkekGvsesesyql 47 
                              ++k+  +eL+++ k+l ++++ + k ++++ ++++
  PHY93_06185|PHY93_06185  92 EMKGLKNELQAEMKDLKNEFQTEIKDLKNEFQTEI 126
                              56777788888888888888875577776665555 PP

>> KfrA_N  Plasmid replication region DNA-binding N-term
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.5   4.6     0.014       3.1      38     101 ..      69     133 ..      48     148 .. 0.37

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.014
                   KfrA_N  38 rvlkeweaelaaalaaraapelPealaeallaalwqaaleeaee.......elaaaraelqaaraaleaer 101
                              + +k +++el+a+      ++l  +l++++ + l +++++e ++       e++ +++e+q ++++l++e+
  PHY93_06185|PHY93_06185  69 AEMKGLKNELQAEM-----KGLKNELQAEM-KGLKNELQAEMKDlknefqtEIKDLKNEFQTEIKDLRTEV 133
                              22222222222222.....24444444444.2222222222222111111133333333333333333333 PP

>> DUF3086  Protein of unknown function (DUF3086)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0   6.3     0.003      0.66       7      75 ..      52     119 ..      40     147 .. 0.68

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.003
                  DUF3086   7 eleerkqalqieveqLerrkeriekelrtsfaGvsqdlairvqgfkdyLvgslqdLaaaaeqlelvake 75 
                              +l+e +++++   ++L+   + +++el+++ +G  ++l   ++g+k+ L++ ++dL +   q e+   +
  PHY93_06185|PHY93_06185  52 DLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKDLKNEF-QTEIKDLK 119
                              555666666666677888888889999999999999999999999999999999997653.23333333 PP

>> YlqD  YlqD protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5  17.1     0.024       5.2      17     107 ..      63     147 ..       7     152 .. 0.64

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.024
                     YlqD  17 lKeelqqqlqaqieqldkelqqLefqakrlikeikkqsaqqieeiqeqvekekserlekkkqllqqle.qvqkLelgsevkqgqve 101
                              lK+elq++++  +++l+ e++ L+ +++  +k +k+       e+q++++  k+e++ ++k+l+++ + +++ L  +   + +++e
  PHY93_06185|PHY93_06185  63 LKNELQAEMKGLKNELQAEMKGLKNELQAEMKGLKN-------ELQAEMKDLKNEFQTEIKDLKNEFQtEIKDLRTEVKADMKELE 141
                              455555555555555555555555555555555544.......4444444455555555555544433245555555555555555 PP

                     YlqD 102 slvevk 107
                              + ++v+
  PHY93_06185|PHY93_06185 142 HNLTVR 147
                              555555 PP

>> FapA  Flagellar Assembly Protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.5  13.6     0.003      0.65     333     402 ..      51     123 ..       9     155 .. 0.46

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.003
                     FapA 333 pelkeklkeleeeleeleeeleklkkk....ikklpklkaekqlesekkeqlkklletkeklkeeleeleeelk 402
                               +lke ++e++ + +el++e++ lk++    +k l++ + + +++  k e +++++  k+++++e+++l++e++
  PHY93_06185|PHY93_06185  51 TDLKEVQTEMKGLKNELQAEMKGLKNElqaeMKGLKN-ELQAEMKGLKNELQAEMKDLKNEFQTEIKDLKNEFQ 123
                              2222222223333333333333333332222333333.223333333333333333333333333333333333 PP

>> V-SNARE  Vesicle transport v-SNARE protein N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.9   0.2     0.074        16      59      78 ..      49      68 ..      29      69 .. 0.87
   2 ?    2.8  11.2      0.73   1.6e+02      16      72 ..      68     124 ..      49     144 .. 0.47

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.074
                  V-SNARE 59 ykaklreykselkklkkelk 78
                              k+ l+e ++e+k lk+el+
  PHY93_06185|PHY93_06185 49 TKTDLKEVQTEMKGLKNELQ 68
                             58999************998 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.73
                  V-SNARE  16 sslageerkaalreiekkldeaeelldqMelEvrnlpsserasykaklreykselkk 72 
                              + +    ++++ +e +   +e++   + +  E++   +  ++++++ +++ k+e ++
  PHY93_06185|PHY93_06185  68 QAEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKDLKNEFQTEIKDLKNEFQT 124
                              222222333334444444444444444444444433334444444444444444443 PP

>> PSP1  PSP1 C-terminal conserved region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   4.0    0.0099       2.2       6      81 ..      47     126 ..      32     148 .. 0.85

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.0099
                     PSP1   6 latpedvstnlenkq.deekalhiaqeklkelnlnmklldaefqfdrkkltfyYva...eervDFreLvkeLfkfyktRI 81 
                              ++t+ d+++++++ +  +++    ++   +el+ +mk l+ e q + k l    +a   + +++F+  +k+L++ ++t I
  PHY93_06185|PHY93_06185  47 FMTKTDLKEVQTEMKgLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAemkDLKNEFQTEIKDLKNEFQTEI 126
                              78888888888888878888888888888888999999999999999999999988444555999999999999999988 PP

>> FliT  Flagellar protein FliT
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.3   9.0      0.16        36      31      70 ..      67     109 ..      48     147 .. 0.59

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.16
                              -...-ST--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     FliT  31 d...aaplspaereekrellrrilandaeirallqprldelqk 70 
                                     l +++++e   l+++++a+ + +++ lq+++  l++
  PHY93_06185|PHY93_06185  67 LqaeMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKDLKN 109
                              2222233334444444444444444444444444444444444 PP

>> Fib_alpha  Fibrinogen alpha/beta chain family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.0   3.2     0.028       6.1      42     125 ..       9      89 ..       3      94 .. 0.73
   2 ?    8.7   8.6    0.0086       1.9      21     104 ..      55     140 ..      54     149 .. 0.80

  Alignments for each domain:
  == domain 1  score: 7.0 bits;  conditional E-value: 0.028
                              CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHH CS
                Fib_alpha  42 neleeisnstkeaeelvkeikdslrekqkskkdndnvikksskeleeeilrlketidaqesnirvLqnvlesneqkiqkLeqdi 125
                              +ele++  ++++a++ v+  +d + ++ ++k+d ++ +   +++l+e ++++k   ++   +++ L+n l   + +++ L+++ 
  PHY93_06185|PHY93_06185   9 EELEKVGFTNEQAKKSVQLWMDLMDQNFATKSDFKEHYFMTKTDLKEVQTEMKGLKNELQAEMKGLKNEL---QAEMKGLKNEL 89 
                              68899999999999999999*******9999999999999999999666666554444446666666554...45555555554 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 0.0086
                              HHHHCCCCCCCCCCHHHCCCCCCCC.CCCCHHHHHHHHHHHHHHHHHHHHHHHHHH.HHHHHHHHHHHHHCCCHHHHHHHCCHHHH CS
                Fib_alpha  21 glqdlllkyekdvkkdleklenele.eisnstkeaeelvkeikdslrekqkskkdn.dnvikksskeleeeilrlketidaqesni 104
                              ++q+ ++  +++++ +++ l+nel+ e++  ++e +  +k +k+ l+++ k  k++ ++ ik++++e ++ei +l+ +++a ++++
  PHY93_06185|PHY93_06185  55 EVQTEMKGLKNELQAEMKGLKNELQaEMKGLKNELQAEMKGLKNELQAEMKDLKNEfQTEIKDLKNEFQTEIKDLRTEVKADMKEL 140
                              57788888888888889999998873577788888888999999998888888866788899999999999998888888877666 PP

>> DUF5595  Domain of unknown function (DUF5595)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0   0.5    0.0067       1.5      38      69 ..      38      69 ..      32      73 .. 0.88
   2 ?    2.7   1.4      0.62   1.4e+02      36      61 ..      76     101 ..      69     108 .. 0.54
   3 ?    5.3   5.7     0.095        21      32      68 ..     105     141 ..      97     144 .. 0.84

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.0067
                  DUF5595 38 leskLkelynvdeaqlesleeeekrLeeEier 69
                              +s +ke y + +++l++ + e k L++E+++
  PHY93_06185|PHY93_06185 38 TKSDFKEHYFMTKTDLKEVQTEMKGLKNELQA 69
                             5789*************************986 PP

  == domain 2  score: 2.7 bits;  conditional E-value: 0.62
                  DUF5595  36 aeleskLkelynvdeaqlesleeeek 61 
                              +el++++k l n  +a+++ l+ e +
  PHY93_06185|PHY93_06185  76 NELQAEMKGLKNELQAEMKGLKNELQ 101
                              45555555555555555555554433 PP

  == domain 3  score: 5.3 bits;  conditional E-value: 0.095
                  DUF5595  32 eeedaeleskLkelynvdeaqlesleeeekrLeeEie 68 
                              ++ ++e+++++k+l n  ++++++l  e k  ++E+e
  PHY93_06185|PHY93_06185 105 KDLKNEFQTEIKDLKNEFQTEIKDLRTEVKADMKELE 141
                              5788999999999999999999999999998888887 PP

>> AAA_11  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0   5.6    0.0049       1.1     109     189 ..      63     141 ..       8     155 .. 0.50

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.0049
                   AAA_11 109 leekvekrlekee...kaqlakeiskeleklakelrafeeeeekeklkkskekskskleqerrklkkerkelskeleeaeesle 189
                              l+++++++    +   k++l+ e++  +++l++e++  ++e + ++ k  k++++ + +  +++ + e+k+l++e++ + ++le
  PHY93_06185|PHY93_06185  63 LKNELQAE----MkglKNELQAEMKGLKNELQAEMKGLKNELQ-AEMKDLKNEFQTEIKDLKNEFQTEIKDLRTEVKADMKELE 141
                              11111111....0122222222333333333333322222221.4445555555555555555555566666666555555554 PP

>> Mei5  Double-strand recombination repair protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.5  20.1    0.0078       1.7      74     187 ..      34     140 ..       6     150 .. 0.59

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.0078
                              XXXX......XXXXXXXXXXXXXXXXXXX.............XXXXHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHH CS
                     Mei5  74 qsikildseeeeskllkstiknrdvcksesslilnslkekielekkeLeeekakLekqvrekeelLrrLklvkkyeskndlseLql 159
                              q++  ++s  +e+  +++t  +++  ++e++  +n+l+++++ +k+eL++e + L+ +    + +++ Lk + + e+k+  +e q+
  PHY93_06185|PHY93_06185  34 QNFA-TKSDFKEHYFMTKT--DLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNE---LQAEMKGLKNELQAEMKDLKNEFQT 113
                              4443.33344444444333..4444445555566666666666677777777666654...4556667777777777777777777 PP

                              HHHHHHHHHHHHHHHHHHHHHSSTTT-- CS
                     Mei5 160 likkwrnasqklleeLqkalaesenkel 187
                               ik ++n  q ++  L  ++++ + kel
  PHY93_06185|PHY93_06185 114 EIKDLKNEFQTEIKDLRTEVKA-DMKEL 140
                              7777777777777777766665.55544 PP

>> TMPIT  TMPIT-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3   5.6     0.011       2.5       3      86 ..      10      94 ..       6      99 .. 0.80
   2 ?    9.2  10.1    0.0029      0.63       3      99 ..      52     154 ..      50     163 .. 0.65

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.011
                    TMPIT  3 eweelekefkeleetakeykqkleelsklqskcskeikkqkkrlkelksslkklkksvkeeeeeeveelkeelkerkkvlk.eve 86
                             e+e++    ++ +++ +  +  +++ ++ +s+++++    k +lke+++++k lk+++++e +   +el++e+k  k+ l+ e++
  PHY93_06185|PHY93_06185 10 ELEKVGFTNEQAKKSVQLWMDLMDQNFATKSDFKEHYFMTKTDLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQaEMK 94
                             5555556667778888888888899999999999999999999999999999999999988888999999999988888876665 PP

  == domain 2  score: 9.2 bits;  conditional E-value: 0.0029
                    TMPIT   3 eweelekefkeleeta.keykqkleelsklqskcskeikkqkkrlk.elksslkklkksvkeeeeeeveelkeelkerkkvlk... 83 
                              +++e+++e+k l+++   e+k   +el++  + +++e++ + k lk el++++k+lk++ ++e ++  +e ++e+k+ ++ +k   
  PHY93_06185|PHY93_06185  52 DLKEVQTEMKGLKNELqAEMKGLKNELQAEMKGLKNELQAEMKGLKnELQAEMKDLKNEFQTEIKDLKNEFQTEIKDLRTEVKadm 137
                              67788888888876652566667778888888888888887777752578888888888777777777777777776665555422 PP

                    TMPIT  84 .evesllpkknglylkl 99 
                               e+e+ l+ + g+ l  
  PHY93_06185|PHY93_06185 138 kELEHNLTVRLGVMLAA 154
                              25555566666655555 PP

>> Uso1_p115_C  Uso1 / p115 like vesicle tethering protein, C terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.9   3.5       0.6   1.3e+02      43      72 ..      49      78 ..       6      81 .. 0.49
   2 ?    8.4  16.1     0.012       2.6      11      85 ..      54     129 ..      37     145 .. 0.56

  Alignments for each domain:
  == domain 1  score: 2.9 bits;  conditional E-value: 0.6
              Uso1_p115_C 43 aesqakeleaenkklekeleklraelkeek 72
                              ++  ke++ e+k l++el++  + lk+e 
  PHY93_06185|PHY93_06185 49 TKTDLKEVQTEMKGLKNELQAEMKGLKNEL 78
                             233334444444444444444333333333 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.012
              Uso1_p115_C  11 aslkdeneklkaelqslskalesleqkeakkaaesqakeleaenkklekeleklraelkeekekekek.qkEldDL 85 
                              +++++e + lk+elq+  k l+++ q+e k   ++ + e++  +++l+ e+++l+ e ++e ++ k++ q+E+ DL
  PHY93_06185|PHY93_06185  54 KEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKGLKNELQAEMKDLKNEFQTEIKDLKNEfQTEIKDL 129
                              4445555555555555555555555554444444444444444444444444444444444444443366666665 PP

>> Syntaxin_2  Syntaxin-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2   5.4     0.029       6.2      24      92 ..      49     117 ..      30     122 .. 0.68
   2 ?    5.9   0.4     0.077        17      30      59 ..     114     143 ..     112     149 .. 0.82

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.029
               Syntaxin_2  24 tkkdteelreklhelieeinelikktnellk.klsqldnsssdsqqklqkekLkkdfkealqeFqkiqrq 92 
                              tk+d +e++ +++ l +e++   k  ++ l+ +++ l+n + +   k  k+ L+ ++k++ +eFq   ++
  PHY93_06185|PHY93_06185  49 TKTDLKEVQTEMKGLKNELQAEMKGLKNELQaEMKGLKNEL-QAEMKGLKNELQAEMKDLKNEFQTEIKD 117
                              77787788877777777777777777444431444444444.3466778999999999999999976665 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.077
               Syntaxin_2  30 elreklhelieeinelikktnellkklsql 59 
                              e+++  +e ++ei++l +++++++k+l+++
  PHY93_06185|PHY93_06185 114 EIKDLKNEFQTEIKDLRTEVKADMKELEHN 143
                              566666889999************999875 PP

>> Mst1_SARAH  C terminal SARAH domain of Mst1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.9   2.1      0.26        58      10      31 ..      65      86 ..      46      91 .. 0.76
   2 ?    4.1   0.3      0.22        48      10      31 ..      76      97 ..      75      98 .. 0.90
   3 ?    9.0   1.6    0.0068       1.5      10      36 ..      98     124 ..      96     134 .. 0.93

  Alignments for each domain:
  == domain 1  score: 3.9 bits;  conditional E-value: 0.26
               Mst1_SARAH 10 deLqqrlasLDpeMEqEieelr 31
                             +eLq  ++ L +e+ +E++ l+
  PHY93_06185|PHY93_06185 65 NELQAEMKGLKNELQAEMKGLK 86
                             5788888888888888887776 PP

  == domain 2  score: 4.1 bits;  conditional E-value: 0.22
               Mst1_SARAH 10 deLqqrlasLDpeMEqEieelr 31
                             +eLq  ++ L +e+ +E++ l+
  PHY93_06185|PHY93_06185 76 NELQAEMKGLKNELQAEMKGLK 97
                             79***************99876 PP

  == domain 3  score: 9.0 bits;  conditional E-value: 0.0068
               Mst1_SARAH  10 deLqqrlasLDpeMEqEieelrkrYqa 36 
                              +eLq  ++ L +e  +Ei++l++ +q+
  PHY93_06185|PHY93_06185  98 NELQAEMKDLKNEFQTEIKDLKNEFQT 124
                              79*******************998886 PP

>> TipAS  TipAS antibiotic-recognition domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.0       1.7   3.6e+02      54      76 ..      16      38 ..       6      48 .. 0.71
   2 ?    1.2  10.1       2.4   5.2e+02      25      68 ..      48      91 ..      41     155 .. 0.52

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 1.7
                             XXXXXXXXXXXXXXXXXXXXXXX CS
                    TipAS 54 pdseeaqelaeehralieefwge 76
                              + e+a++ ++ +++l+ +++ +
  PHY93_06185|PHY93_06185 16 FTNEQAKKSVQLWMDLMDQNFAT 38
                             56788999999999999887764 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 2.4
                             XXXXXXXXXXXXXXXXXXXXXXX..XXXXXXXXXXXXXXXXXXX CS
                    TipAS 25 lskedweelkaelkelfaklaaalaagkdpdseeaqelaeehra 68
                             ++k d++e+++e+k l ++l+a ++  k+  ++e++ l  e++a
  PHY93_06185|PHY93_06185 48 MTKTDLKEVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQA 91
                             44444444444444444444444422222222222222222222 PP

>> Muted  Organelle biogenesis, Muted-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3  16.4     0.026       5.6      63     144 ..      49     127 ..       6     144 .. 0.53

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.026
                    Muted  63 mkenLselnkkleaalekverllqkeleeekrkseqlqeke....eerkaeweeflkelqekkeevDeefeekveelkekYselek 144
                               k++L+e++++++ +++       + + e k  +++lq+++    +e++ae++ +++elq + +++ +ef+ ++++lk+++++  k
  PHY93_06185|PHY93_06185  49 TKTDLKEVQTEMKGLKN-------ELQAEMKGLKNELQAEMkglkNELQAEMKGLKNELQAEMKDLKNEFQTEIKDLKNEFQTEIK 127
                              23444444444333333.......32222333333333333222255666666666666666666666666666666666664333 PP

>> RNase_J_C  Ribonuclease J C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   0.7      0.39        86      21      53 ..      62      94 ..      47     107 .. 0.58
   2 ?    8.1   1.4     0.025       5.5      19      58 ..     104     143 ..      95     148 .. 0.83

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.39
                RNase_J_C 21 eakkvvretieealeekesdwnelkrkirealk 53
                              +k+ +++ ++  ++e +++++ lk++++ ++k
  PHY93_06185|PHY93_06185 62 GLKNELQAEMKGLKNELQAEMKGLKNELQAEMK 94
                             555555555555555555555555555555443 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.025
                RNase_J_C  19 ieeakkvvretieealeekesdwnelkrkirealkkflyk 58 
                              ++++k+ ++  i++ ++e +++ ++l+++++ ++k++ ++
  PHY93_06185|PHY93_06185 104 MKDLKNEFQTEIKDLKNEFQTEIKDLRTEVKADMKELEHN 143
                              7899999999999999999999999999999999887555 PP

>> SbsC_C  SbsC C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.0   8.2     0.031       6.7       7     106 ..      33     135 ..      28     142 .. 0.82

  Alignments for each domain:
  == domain 1  score: 7.0 bits;  conditional E-value: 0.031
                   SbsC_C   7 eykkklsakplklynaakkalaaAkkavkklkgkkkeklearLkaavqtqikraaayidAvksGkk..lekkkselkkalkan..k 88 
                              ++++ +++++ + y  +k++l++ +++ k lk++ +++++  Lk++ q ++k       A  +G k  l+++ ++lk++++++  +
  PHY93_06185|PHY93_06185  33 DQNFATKSDFKEHYFMTKTDLKEVQTEMKGLKNELQAEMK-GLKNELQAEMKGLKNELQAEMKGLKneLQAEMKDLKNEFQTEikD 117
                              67899999***********************999888875.699999999988888999999996444999999999999765115 PP

                   SbsC_C  89 ledetekaYhelskeikk 106
                              l++e ++  ++l+ e+k+
  PHY93_06185|PHY93_06185 118 LKNEFQTEIKDLRTEVKA 135
                              667777777777777776 PP

>> IFP_35_N  Interferon-induced 35 kDa protein (IFP 35) N-terminus
   [No individual domains that satisfy reporting thresholds (although complete target did)]

>> CENP-Q  CENP-Q, a CENPA-CAD centromere complex subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   6.0      0.16        35     116     157 ..      52      97 ..       9     101 .. 0.60
   2 ?    7.2  14.4     0.024       5.2      52     151 ..      57     145 ..      37     151 .. 0.61

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.16
                   CENP-Q 116 a...sgtvfsdlepeldeellpllqqLgshLesmrgnla.qlegll 157
                                   +t+++ l+ el+ e++ l ++L+  ++ +++ l+  ++gl+
  PHY93_06185|PHY93_06185  52 DlkeVQTEMKGLKNELQAEMKGLKNELQAEMKGLKNELQaEMKGLK 97 
                              1333455666666677777777777777777777766652355554 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.024
                   CENP-Q  52 eaeiekeeralerdyeaLreLeknakaearerke...klkkehvllqesdseelslleassdevlgeasgtvfsdlepeldeellp 134
                              + e++ ++++l+ +           k +++   e   ++k + + lq + ++ +++l+a+ +  l+++ +t+ +dl+ e + e+++
  PHY93_06185|PHY93_06185  57 QTEMKGLKNELQAEM----------KGLKN---ElqaEMKGLKNELQAEMKGLKNELQAEMK-DLKNEFQTEIKDLKNEFQTEIKD 128
                              333333333333333..........33333...23334555555555443444444444443.556667788899999******** PP

                   CENP-Q 135 llqqLgshLesmrgnla 151
                              l ++++ +++ +++nl+
  PHY93_06185|PHY93_06185 129 LRTEVKADMKELEHNLT 145
                              **************996 PP

>> 5_nucleotid  5' nucleotidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.8      0.58   1.3e+02     347     394 ..      26      70 ..       6      79 .. 0.40
   2 ?    6.8   9.1     0.012       2.7     332     398 ..      73     140 ..      42     155 .. 0.50

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.58
                              HHHHHHHHHHHHHHHHHHHHHHHT.TTHHHHHHHHHHHHHHHHHHHHH CS
              5_nucleotid 347 eeleelekleelledelkklksseeeskekleeleedleelkkeirel 394
                              + + +l++++ + ++ +k++      +k++l+e++++++ lk+e+++ 
  PHY93_06185|PHY93_06185  26 QLWMDLMDQNFATKSDFKEHYFM---TKTDLKEVQTEMKGLKNELQAE 70 
                              33333333333333333333333...3333334444444444443333 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.012
                              THHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHT.T.THHHHHHHHHHHHHHHHHHHHHHHHH CS
              5_nucleotid 332 ELeeElevleekkekeeleelekleelledelkklksseee.skekleeleedleelkkeirelreel 398
                               L++El++  +  ++e  +e++ l+++l+ e+k+lk + ++  k+ ++e ++++++l++e+++  +el
  PHY93_06185|PHY93_06185  73 GLKNELQAEMKGLKNELQAEMKGLKNELQAEMKDLKNEFQTeIKDLKNEFQTEIKDLRTEVKADMKEL 140
                              23334433333333344445555555555555555555433344444445555555555555444444 PP

>> Nas2_N  Nas2 N_terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.6   0.4      0.29        64      10      30 ..      55      75 ..      41      80 .. 0.55

  Alignments for each domain:
  == domain 1  score: 3.6 bits;  conditional E-value: 0.29
                   Nas2_N 10 eiekeieelsevLesqnvgmd 30
                             e++ e++ l + L+++  g++
  PHY93_06185|PHY93_06185 55 EVQTEMKGLKNELQAEMKGLK 75
                             344444444444444444444 PP

>> Phe_tRNA-synt_N  Aminoacyl tRNA synthetase class II, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1  11.0       1.7   3.8e+02       3      59 ..      50     110 ..      41     114 .. 0.61
   2 ?    3.5   9.1      0.31        67      17      62 ..      86     135 ..      76     144 .. 0.45

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 1.7
                              CCCCCCCHHHHHCCCCCCCCCCCTTTT.CCCCT...TTHHHHCCHHHHCCCCCCCCCHHHC CS
          Phe_tRNA-synt_N   3 leeLeelRvkyLGkkGeltellkelgk.lppee...RkeaGkliNelKqeieealeerkee 59 
                              + +L+e+ ++  G k el++ +k+l++ l++e    + e+ +++  lK+e+++ +++ k+e
  PHY93_06185|PHY93_06185  50 KTDLKEVQTEMKGLKNELQAEMKGLKNeLQAEMkglKNELQAEMKGLKNELQAEMKDLKNE 110
                              5678888888888888888888888762444432223445555555555555555555555 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.31
                              CCCCCCCCCTTTT.CCC...CTTTHHHHCCHHHHCCCCCCCCCHHHCCHC CS
          Phe_tRNA-synt_N  17 kGeltellkelgk.lpp...eeRkeaGkliNelKqeieealeerkeelea 62 
                              k el++ +k+l++ l++   + + e+  +i +lK+e+++ +++ ++e++a
  PHY93_06185|PHY93_06185  86 KNELQAEMKGLKNeLQAemkDLKNEFQTEIKDLKNEFQTEIKDLRTEVKA 135
                              44444444444432222111223444445555555555555555555444 PP

>> BST2  Bone marrow stromal antigen 2
   [No individual domains that satisfy reporting thresholds (although complete target did)]

>> Borealin  Cell division cycle-associated protein 8
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6   2.0      0.14        31      86     120 ..      49      82 ..      44      94 .. 0.83
   2 ?    1.8   0.8      0.99   2.2e+02      96     112 ..     102     118 ..      81     124 .. 0.48
   3 ?    6.0   0.6      0.05        11      87     117 ..     115     145 ..     108     149 .. 0.78

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.14
                 Borealin  86 qakeldevdeellekLdeetlkqlkkLqsnLakiv 120
                              ++++l+ev+ + ++ L++e   ++k L+++L++ +
  PHY93_06185|PHY93_06185  49 TKTDLKEVQ-TEMKGLKNELQAEMKGLKNELQAEM 82 
                              678888888.6689999999999999999998755 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.99
                 Borealin  96 ellekLdeetlkqlkkL 112
                                +++L++e   ++k L
  PHY93_06185|PHY93_06185 102 AEMKDLKNEFQTEIKDL 118
                              22455555555555555 PP

  == domain 3  score: 6.0 bits;  conditional E-value: 0.05
                 Borealin  87 akeldevdeellekLdeetlkqlkkLqsnLa 117
                               k+l++  ++ +++L++e++  +k+L++nL+
  PHY93_06185|PHY93_06185 115 IKDLKNEFQTEIKDLRTEVKADMKELEHNLT 145
                              566655555679*****************97 PP

>> YtxH  YtxH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6  12.4      0.92     2e+02      26      64 ..      96     134 ..       8     145 .. 0.73

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.92
                     YtxH  26 tRkdlkekaddlkekakelleeakekakekaedlkekvk 64 
                              ++++l+ +++dlk+ ++  ++++k+  + +++dl+++vk
  PHY93_06185|PHY93_06185  96 LKNELQAEMKDLKNEFQTEIKDLKNEFQTEIKDLRTEVK 134
                              233344444444444444444444444555555555555 PP

>> YojJ  Bacterial membrane-spanning protein N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.9      0.17        38      11      51 ..      39      79 ..      32      85 .. 0.71
   2 ?    0.1  10.9       3.9   8.5e+02       8      42 ..      83     114 ..      54     141 .. 0.59
   3 ?    4.0   0.5      0.25        54       6      33 ..     114     141 ..     109     151 .. 0.81

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.17
                     YojJ 11 keklkeeLeqiekeleevlkaldeedeClLcelesirekfa 51
                             k++ ke+    +++l+ev ++++   + l  e++ ++++++
  PHY93_06185|PHY93_06185 39 KSDFKEHYFMTKTDLKEVQTEMKGLKNELQAEMKGLKNELQ 79
                             66777777777777777777777777777777777776654 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 3.9
                     YojJ   8 eelkeklkeeLeqiekeleevlkaldeedeClLce 42 
                              + lk++l+ e++  ++el+  +k l++e +   +e
  PHY93_06185|PHY93_06185  83 KGLKNELQAEMKGLKNELQAEMKDLKNEFQ---TE 114
                              334444444444444444444444444433...33 PP

  == domain 3  score: 4.0 bits;  conditional E-value: 0.25
                     YojJ   6 leeelkeklkeeLeqiekeleevlkald 33 
                              + + lk++ ++e+++ ++e++  +k+l+
  PHY93_06185|PHY93_06185 114 EIKDLKNEFQTEIKDLRTEVKADMKELE 141
                              5678999999999999999988888776 PP

>> M  M protein repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.1   0.3      0.43        93       4      19 ..      54      69 ..      53      70 .. 0.92
   2 ?    4.0   0.9      0.49   1.1e+02       5      19 ..      66      80 ..      66      81 .. 0.90
   3 ?    3.8   1.4      0.56   1.2e+02       5      19 ..      77      91 ..      75      92 .. 0.90
   4 ?    3.4   1.8      0.75   1.6e+02       5      19 ..      88     102 ..      85     103 .. 0.90
   5 ?    1.7   0.9       2.7   5.8e+02       5      16 ..      99     110 ..      96     114 .. 0.84
   6 ?    3.9   0.1      0.53   1.2e+02       5      17 ..     132     144 ..     131     146 .. 0.88

  Alignments for each domain:
  == domain 1  score: 4.1 bits;  conditional E-value: 0.43
                        M  4 keLEaelqeLeeelqa 19
                             ke+ +e + L++elqa
  PHY93_06185|PHY93_06185 54 KEVQTEMKGLKNELQA 69
                             88999*********97 PP

  == domain 2  score: 4.0 bits;  conditional E-value: 0.49
                        M  5 eLEaelqeLeeelqa 19
                             eL ae + L++elqa
  PHY93_06185|PHY93_06185 66 ELQAEMKGLKNELQA 80
                             6889**********7 PP

  == domain 3  score: 3.8 bits;  conditional E-value: 0.56
                        M  5 eLEaelqeLeeelqa 19
                             eL ae + L++elqa
  PHY93_06185|PHY93_06185 77 ELQAEMKGLKNELQA 91
                             788**********97 PP

  == domain 4  score: 3.4 bits;  conditional E-value: 0.75
                        M   5 eLEaelqeLeeelqa 19 
                              eL ae + L++elqa
  PHY93_06185|PHY93_06185  88 ELQAEMKGLKNELQA 102
                              7889*********97 PP

  == domain 5  score: 1.7 bits;  conditional E-value: 2.7
                        M   5 eLEaelqeLeee 16 
                              eL ae ++L++e
  PHY93_06185|PHY93_06185  99 ELQAEMKDLKNE 110
                              688999999997 PP

  == domain 6  score: 3.9 bits;  conditional E-value: 0.53
                        M   5 eLEaelqeLeeel 17 
                              e+ a+ +eLe++l
  PHY93_06185|PHY93_06185 132 EVKADMKELEHNL 144
                              689********98 PP

>> VPS11_C  Vacuolar protein sorting protein 11 C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   0.3     0.088        19       3      27 ..      49      73 ..      47      80 .. 0.89
   2 ?   -0.4   0.1       6.4   1.4e+03      11      26 ..      79      94 ..      77      99 .. 0.83
   3 ?    2.4   1.9      0.87   1.9e+02      11      30 ..     101     120 ..      87     124 .. 0.67
   4 ?    2.2   0.2         1   2.2e+02      11      27 ..     112     128 ..     110     132 .. 0.87

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.088
                  VPS11_C  3 tirelrraQeesadrhdlFkaaLee 27
                             t  +l++ Q e+++ ++ ++a+++ 
  PHY93_06185|PHY93_06185 49 TKTDLKEVQTEMKGLKNELQAEMKG 73
                             7789*****************9985 PP

  == domain 2  score: -0.4 bits;  conditional E-value: 6.4
                  VPS11_C 11 QeesadrhdlFkaaLe 26
                             Q e+++ ++ ++a+++
  PHY93_06185|PHY93_06185 79 QAEMKGLKNELQAEMK 94
                             7899999999999987 PP

  == domain 3  score: 2.4 bits;  conditional E-value: 0.87
                  VPS11_C  11 QeesadrhdlFkaaLeeseD 30 
                              Q e++d ++ F+ + ++ ++
  PHY93_06185|PHY93_06185 101 QAEMKDLKNEFQTEIKDLKN 120
                              66777777777777666555 PP

  == domain 4  score: 2.2 bits;  conditional E-value: 1
                  VPS11_C  11 QeesadrhdlFkaaLee 27 
                              Q e++d ++ F+ + ++
  PHY93_06185|PHY93_06185 112 QTEIKDLKNEFQTEIKD 128
                              99**********99876 PP

>> YabA  Initiation control protein YabA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.5   9.0      0.12        26       3      64 ..      50     101 ..      32     110 .. 0.51
   2 ?    5.1   6.9      0.16        35       8      59 ..      91     140 ..      86     149 .. 0.56

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.12
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH.HHHHHHHHHHHHHHHXXXXXXXXXXXX CS
                     YabA   3 kkelfdkleeleeqleelleeleelkeelaellee.naeLeleneklrerleeeekkekekkk 64 
                              k           ++l+e+++e++ lk+el++ ++   +eL++e + l+++l+ e k  k++ +
  PHY93_06185|PHY93_06185  50 K-----------TDLKEVQTEMKGLKNELQAEMKGlKNELQAEMKGLKNELQAEMKGLKNELQ 101
                              3...........445555555555555555444321445555555555555333333222222 PP

  == domain 2  score: 5.1 bits;  conditional E-value: 0.16
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH.HHHHHHHHHHHHHHHXXXXXXX CS
                     YabA   8 dkleeleeqleelleeleelkeelaellee.naeLeleneklrerleeeekke 59 
                              ++++ l+   +el++e+++lk+e+++ +++  +e+++e + lr++++ + k+ 
  PHY93_06185|PHY93_06185  91 AEMKGLK---NELQAEMKDLKNEFQTEIKDlKNEFQTEIKDLRTEVKADMKEL 140
                              3333333...4456677777777765554425677777777777775444433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (165 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2537  (0.141503); expected 358.6 (0.02)
Passed bias filter:                      799  (0.0445647); expected 358.6 (0.02)
Passed Vit filter:                       160  (0.00892409); expected 17.9 (0.001)
Passed Fwd filter:                        93  (0.00518713); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              82  [number of targets reported over threshold]
# CPU time: 1.04u 0.32s 00:00:01.36 Elapsed: 00:00:00.48
# Mc/sec: 1038.99
//
Query:       PHY93_06190|PHY93_06190  [L=49]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (49 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       210  (0.0117129); expected 358.6 (0.02)
Passed bias filter:                      203  (0.0113224); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.23s 00:00:00.62 Elapsed: 00:00:00.40
# Mc/sec: 368.26
//
Query:       PHY93_06195|PHY93_06195  [L=250]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.2e-86  290.0   0.2    1.4e-86  289.8   0.2    1.0  1  TIM       Triosephosphate isomerase
  ------ inclusion threshold ------
      0.092   12.8   0.1       0.15   12.1   0.1    1.3  1  DUF3307   Protein of unknown function (DUF3307)


Domain annotation for each model (and alignments):
>> TIM  Triosephosphate isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  289.8   0.2   1.6e-90   1.4e-86       2     242 ..       7     243 ..       6     244 .. 0.96

  Alignments for each domain:
  == domain 1  score: 289.8 bits;  conditional E-value: 1.6e-90
                              EEEEE-TBTS-HHHHHHHHHHHHHHCHGCTSEEEEE--GGGHHHHHHHH.TTSSECEEES--BSSSSBS-TT--BHHHHHHTT-SE CS
                      TIM   2 liagNwKmnktleeakellkklkaklkeekvevviappflylekvkkll.eesklklgaqnvsaeksGafTGevsaemlkdlgvky 86 
                              +i+gNwKm+ktl e+++++ ++++ + e k++ +iap+++++  +k+++ ++ ++++gaqn+s+++ Ga+TGevs   l+d+gv++
  PHY93_06195|PHY93_06195   7 YIVGNWKMHKTLVEISHFFIEMSKMKMELKCKAWIAPQSIHIPILKEIAfTTGSIQIGAQNCSEHEFGAYTGEVSPMALADIGVEF 92 
                              699******************77777677***************999761577899****************************** PP

                              EEES-HHHHHHST--HHHHHHHHHHHHHTT-EEEEEE---HHHHHTT.HHHHHHHHHHHHTTTS-CCCGGCEEEEE--GGGSSSS- CS
                      TIM  87 viiGHsErrqlfkEtdelvakKvkaalksglkpilCvGEtleereagkteevvkeqlkeilkkldeealknvviAYePvWAiGtgk 172
                              viiGHsErr l++E+de+++kKv  alk+glk+i+CvGEtl+erea++t++v+++ql+  l++l+ e ++ ++iAYePvWAiGtgk
  PHY93_06195|PHY93_06195  93 VIIGHSERRSLYGEKDEVLNKKVLLALKHGLKVIYCVGETLAEREADQTFSVIESQLNIGLRNLTPELASLLMIAYEPVWAIGTGK 178
                              ************************************************************************************** PP

                              ---HHHHHHHHHHHHHHHHHHSTHHHHTTSEEEEESS--TTTHHHHHTSTT--EEEESGGGCSHHHHHHH CS
                      TIM 173 tatpeqaqevhaairkelaekvskevaekirilYGGsvnkenakellkqkdidGlLvGgaslkaesFlki 242
                              tat+eqa+evha+ir++l+ +     ae+++ilYGGsv+++n+++ll+q++idG+LvGgaslka++F ++
  PHY93_06195|PHY93_06195 179 TATAEQAEEVHAHIRRKLKLN-----AEQTIILYGGSVKPDNIDSLLRQENIDGALVGGASLKAQDFRAL 243
                              *****************9655.....899**************************************877 PP

>> DUF3307  Protein of unknown function (DUF3307)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.1   1.7e-05      0.15      64     109 ..      16      58 ..       6      73 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 1.7e-05
                  DUF3307  64 lvvivlsHllIDvlKsklkkkkkalaaFliDQllHlivlilvllil 109
                                ++ +sH++I + K+k+   + +  a+++ Q +H+ +l  +++++
  PHY93_06195|PHY93_06195  16 KTLVEISHFFIEMSKMKM---ELKCKAWIAPQSIHIPILKEIAFTT 58 
                              56789************6...89999***********998774333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (250 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       547  (0.0305092); expected 358.6 (0.02)
Passed bias filter:                      490  (0.02733); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.19s 00:00:00.65 Elapsed: 00:00:00.37
# Mc/sec: 2031.46
//
Query:       PHY93_06200|PHY93_06200  [L=131]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.4e-15   55.2   9.8    6.9e-15   54.9   9.8    1.1  1  SecG      Preprotein translocase SecG subunit
     0.0047   17.8   4.5     0.0061   17.4   4.5    1.2  1  Stm1_N    Stm1


Domain annotation for each model (and alignments):
>> SecG  Preprotein translocase SecG subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.9   9.8   7.7e-19   6.9e-15       2      68 ..       5      70 ..       4      72 .. 0.90

  Alignments for each domain:
  == domain 1  score: 54.9 bits;  conditional E-value: 7.7e-19
                             HHHHHHHHHHHHHHHHHHCHHCCSCCHHTT...SS-SS--SSCCCHHCCHHHHHHHHHHHHHHHHHH CS
                     SecG  2 llillvivsilLillvLlQsgkgaglsgafgggasdslfgsrgaekfLtkiTvilavlFfvlslvla 68
                             l++l++i+s+lLi++vLlQ gkga+++ ++++ +s+s+++s++ ++++ kiT++la lF+ +s++la
  PHY93_06200|PHY93_06200  5 LMVLQAITSLLLIIVVLLQFGKGAEAGLMTAA-GSESIMSSSTRGNVMVKITAFLALLFLGNSILLA 70
                             9************************9844433.5689****************************98 PP

>> Stm1_N  Stm1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   4.5   6.9e-07    0.0061      17      51 ..      95     127 ..      63     130 .. 0.82

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 6.9e-07
                   Stm1_N  17 DpsqaapapppkevdkkstrsaKrptkpepPsqav 51 
                              D   +++a++ k++++++t+saK pt p +P+ ++
  PHY93_06200|PHY93_06200  95 DA--EQKAAAEKAAQAAPTSSAKAPTAPTAPATPA 127
                              32..6889999********************9765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (131 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1151  (0.0641977); expected 358.6 (0.02)
Passed bias filter:                      605  (0.0337442); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 960.08
//
Query:       PHY93_06205|PHY93_06205  [L=379]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-26   93.6   0.0    2.2e-26   92.7   0.0    1.4  1  Aminotran_5      Aminotransferase class-V
    0.00028   19.5   0.0    0.00041   19.0   0.0    1.2  1  Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme


Domain annotation for each model (and alignments):
>> Aminotran_5  Aminotransferase class-V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   92.7   0.0   2.5e-30   2.2e-26      42     368 ..      56     372 ..      50     375 .. 0.86

  Alignments for each domain:
  == domain 1  score: 92.7 bits;  conditional E-value: 2.5e-30
                              HHHHHHHHHHHHHHHT-STGGGEEEESSHHHHHHHHHHHCCCC-TTTSEEEEETTSHGGGTHHHHHHHHHHTEEEEEEEBETTSCB CS
              Aminotran_5  42 tkaveearekvaelinaeseeeiiftsGtteainlvalslarslkpgdeivvteaehhanlvpwqelakrtgakvkvipldeegel 127
                              +++ e+ r k+a+li+++  ++i    ++++ +n+va+++   +++gd++   + ++ +n++pw  +++ +++  +++ l +    
  PHY93_06205|PHY93_06205  56 MSISEKLRIKFATLIKTSP-DNITHSTSSSDVVNIVANGFI--FEKGDRVAAINKDYPSNILPWMLAERHKKFVFDKLDLGSVVVP 138
                              5688999***********7.9**99999999*********5..9****************************************** PP

                              EGGGHHHH--TTEEEEEEESBETTTTEB--HHHHHHHHHHTT-EEEEE-TTTTTTS---HHHHT.ESEEEEETTT.TTSSTT-EEE CS
              Aminotran_5 128 dldelekllnektklvaithvsnvtGtiqpveeigklakkkgalvlvDaaqavghipidvkklg.vDflafsghK.llgPtGiGvl 211
                              ++d le++l+++t++  ++ v   tG   ++ +igk++k k++l++vDa+qa+g  +i  ++l  +D+l++s+ K +lgP G  + 
  PHY93_06205|PHY93_06205 139 TPDWLEQNLKPQTRIFNMSYVAFDTGKKIDLSSIGKYLKSKNILFVVDATQALGGLEITPEELSyIDVLTVSSYKwMLGPYGHAFA 224
                              **************************************************************9759******************** PP

                              EEEHHHHHTS......SS.STTSEEEEETTEEEEHCTT..GGGS.SS-.-HHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHH CS
              Aminotran_5 212 yvrkellekl....eplllggemveevsleettfaeap..skfeaGTp.nvagiiglgaaleyleeigleaiekhekelaeyller 290
                              y++++++ ++      + l+ +  + ++l ++t+++ p  +++  G   n      l+  l +l eigl++iek++++ ++y l+ 
  PHY93_06205|PHY93_06205 225 YFSQKAQDQIyhlnANWILSPNSKQVYNLLDYTTETLPgaRQYDRGQAaNLLCSGCLEGSLSFLLEIGLSSIEKYNASVRDYFLAN 310
                              *********977666777888888888886666677774456888855155555667889**********************9776 PP

                              HCTSTTEEEES.-B-CTCBSEEEEEETTCSHHHHHHHHHHTTEEEEE..E-TTTHHHHHHTT.S-EEEEE--TTS-HHHH CS
              Aminotran_5 291 lkslpgvrlygpdkaerrasivsfnfkgvhaedvatlLdeegIavrs..GhhcaqplmkrlalegtvRaSlyiynteeev 368
                                +    + +  ++ e+ a+iv+++    ++  ++  L++++I v+   G                +R+S+++ n + +v
  PHY93_06205|PHY93_06205 311 YPK---EKYNLVTPLEHMANIVCLKAVAGDSIVLEAELKKRNIDVSVrqG---------------NIRLSFHVFNNNRQV 372
                              554...4443346899*************************887764224...............345555555555555 PP

>> Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.0   0.0   4.6e-08   0.00041     110     202 ..     125     217 ..      77     236 .. 0.88

  Alignments for each domain:
  == domain 1  score: 19.0 bits;  conditional E-value: 4.6e-08
                              HTHHHTTCEEEEESTTSHHHHHHHCCTTEEEEEEESS-TTTT----HHHHHHHHHHTT-EEEEEGTTTHT.TTS-GGGGT.-SEEE CS
          Cys_Met_Meta_PP 110 kvlkklgievkfvdtsdleelekaikentklvylEtptnpllkvvDiekiaklakkagvlvvvDntfasp.llqrplklg.aDivv 193
                               v+ kl + + +v t  ++ le+ +k++t+++ +  ++  + k +D+ +i k  k++++l vvD+t a + l + p +l  +D+ +
  PHY93_06205|PHY93_06205 125 FVFDKLDLGSVVVPT--PDWLEQNLKPQTRIFNMSYVAFDTGKKIDLSSIGKYLKSKNILFVVDATQALGgLEITPEELSyIDVLT 208
                              555555555555555..7889*********************************************98765999*****999**** PP

                              EETTTTTTC CS
          Cys_Met_Meta_PP 194 hSaTKylgG 202
                               S  K++ G
  PHY93_06205|PHY93_06205 209 VSSYKWMLG 217
                              ******987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (379 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       466  (0.0259914); expected 358.6 (0.02)
Passed bias filter:                      391  (0.0218082); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.39
# Mc/sec: 2906.98
//
Query:       PHY93_06210|PHY93_06210  [L=380]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-14   54.2   0.1    3.8e-14   53.0   0.1    1.7  1  HD        HD domain
    2.1e-12   47.1   0.0    5.1e-12   45.9   0.0    1.6  1  HD_5      HD domain
     0.0018   17.8   0.0     0.0037   16.8   0.0    1.5  1  HDOD      HDOD domain


Domain annotation for each model (and alignments):
>> HD  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.0   0.1   6.4e-18   3.8e-14       1     121 [.     156     285 ..     156     286 .. 0.86

  Alignments for each domain:
  == domain 1  score: 53.0 bits;  conditional E-value: 6.4e-18
                              HHHHHHHHHHHHHHHHHHHHH...HHHHHHHHHHHHHTTTTHHHHTS..HHH.....HHHCTCCHHHHHHHHHHHHHH.HHHHHHH CS
                       HD   1 rleHsleVaklarrlaedlge...eedrellllaaLlHDiGkgpfgdafekk.....eeefekflaHekvgaeilrev.ekrlgld 77 
                              +++Hs++V  ++  l+         e+  l+ l++LlHDiGk++++  + ++     eeef+ +++H ++g  +l e+ +  +g++
  PHY93_06210|PHY93_06210 156 TYDHSINVSMYCIALYSAARPhapKEEIVLAGLGGLLHDIGKVKISTDIINNpdklsEEEFDVIKKHPDYGFNLLVENsCSCEGVN 241
                              689****9999866665544489999999999**************98888898886666***********998765516666666 PP

                              HHHHHHHHHTTCCHHHHHHHHHHHHCCTSCHHHHHHHHHHHHHH CS
                       HD  78 ledvaklirehheswegkkrprglaerqlslearivklaDrlaa 121
                              +e + +++ ehhe  +g+++p +la+ +++l+ar+ ++aD ++a
  PHY93_06210|PHY93_06210 242 FEVIKRIVHEHHENFNGTGYPGKLAGVDIHLLARVTAIADFFDA 285
                              ****************************************8876 PP

>> HD_5  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.9   0.0   8.6e-16   5.1e-12       2      62 ..     210     275 ..     209     276 .. 0.90

  Alignments for each domain:
  == domain 1  score: 45.9 bits;  conditional E-value: 8.6e-16
                     HD_5   2 tLtpeerellqehpeaaarlLsklpr......lpkdvaeiigqhhErldGsGyPrglkgeeIpleaR 62 
                              +L++ee + +++hp ++ +lL           ++  +++i+  hhE+++G+GyP +l+g +I l aR
  PHY93_06210|PHY93_06210 210 KLSEEEFDVIKKHPDYGFNLLVENSCscegvnFE-VIKRIVHEHHENFNGTGYPGKLAGVDIHLLAR 275
                              79*******************8877345566699.*******************************9 PP

>> HDOD  HDOD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   6.2e-07    0.0037      96     139 ..     157     204 ..     139     218 .. 0.79

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 6.2e-07
                              HHHHHHHHHHHHHHHHHTT-S-H.HHHHHH...HHTTTHHHHHHHHHS CS
                     HDOD  96 wehslavAlvarelaeelgledp.eeafla...GLLhdiGklvllsll 139
                               +hs++v++++ +l ++++ ++p ee++la   GLLhdiGk+ + + +
  PHY93_06210|PHY93_06210 157 YDHSINVSMYCIALYSAARPHAPkEEIVLAglgGLLHDIGKVKISTDI 204
                              68*******************97677776522268******9877655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (380 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       835  (0.0465726); expected 358.6 (0.02)
Passed bias filter:                      507  (0.0282782); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.57u 0.21s 00:00:00.77 Elapsed: 00:00:00.40
# Mc/sec: 2855.48
//
Query:       PHY93_06215|PHY93_06215  [L=415]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.2e-27   93.9  49.1    3.6e-25   88.7  34.0    1.6  2  MFS_1     Major Facilitator Superfamily
    3.5e-25   88.4  12.8    4.1e-25   88.2  12.8    1.0  1  MFS_3     Transmembrane secretion effector
  ------ inclusion threshold ------
          1    9.2   0.0          1    9.2   0.0    4.8  5  Ost4      Oligosaccaryltransferase


Domain annotation for each model (and alignments):
>> MFS_1  Major Facilitator Superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.7  34.0   5.9e-29   3.6e-25       5     348 ..      27     364 ..      23     369 .. 0.83
   2 !   19.0   7.1   8.7e-08   0.00052      66     171 ..     297     400 ..     292     410 .. 0.81

  Alignments for each domain:
  == domain 1  score: 88.7 bits;  conditional E-value: 5.9e-29
                    MFS_1   5 aflsalarsilgpalplalaedlgispseigllltlyalgaavaslplGrlsdrfGrrr.vlllglllfalg.lllll.fa....s 83 
                               +l+++a  + ++++ +++ +    +p ++gl+  +  +  +  +l++G+++d + r++ v+ + ++l++ + +l+ + ++    +
  PHY93_06215|PHY93_06215  27 KILMTMALQFQAVIVGWHVYSIT-HDPLSLGLIGLVEIIPNFSVTLFAGHFADLYDRKKiVYSCLAVLLFCSlGLYYTsYHievaH 111
                              56777777777788886554444.59*********************************888877777766634444444245569 PP

                    MFS_1  84 slwlllvlrvlqGlgagalfpagaaliadwfpkeergraigllsagfslGailgpllggllasslgWravfyilaivsllafvlfl 169
                              +l+ll+   +++G++ g+++p+  +++++ +pk +    +++ s+ ++++++lg++ +g+l s++++ a  +i  +v+l ++v+  
  PHY93_06215|PHY93_06215 112 QLYLLYGIIAVSGFARGIIAPSLFSILTECVPKAHFVNSTSWHSTLWQIAFMLGAGTSGFLFSAISYNAYLVITLFVLLAMMVF-- 195
                              999***************************************************************998888888888888664.. PP

                    MFS_1 170 lllpeepperkrkspkeeekgtgpaplvpawkallkdpvlwillialllfffgfsglltllplylqevlgls....glllagllla 251
                               ++  +p+  k++++++     + +  + ++k +++++ ++   i+l lf++ f g+++llp+y+++ l+ +    g+l a+  ++
  PHY93_06215|PHY93_06215 196 HFISPKPHLTKNDPKAPM----FDSIKS-GIKFVFSSQIFL-GAISLDLFAVLFGGAVALLPIYANDILKVGpqglGFLKAA--PS 273
                              666666666666666666....444444.6********776.44444444557888****************8888888888..88 PP

                    MFS_1 252 llalvgailallagrlsdrlgrrrrlllallllllaalglallavtssavllllvlvliGfglgfvfpsllalasdlappeeagta 337
                              l+++++a++ + +  + d     + llla++++ ++ + + +  ++    l+++vl+l G +  + ++   +++++l+p+e+ g++
  PHY93_06215|PHY93_06215 274 LGSFLMAAIVVYWPPVRDT---GKKLLLAVFGFGICMIVFGISKNF---YLSIFVLALSGAFDNISVVVRGTIMQSLIPAEMKGKV 353
                              8888888888888888887...669999999999999999999999...999999******************************* PP

                    MFS_1 338 sglfntagslg 348
                              +++++++ + +
  PHY93_06215|PHY93_06215 354 YAVNSIFIGSS 364
                              *****887766 PP

  == domain 2  score: 19.0 bits;  conditional E-value: 8.7e-08
                    MFS_1  66 llglllfalglllllfa..sslwlllvlrvlqGlgagalfpagaaliadwfpkeergraigllsagfslGailgpllggllasslg 149
                              ll++++f+++  +++f+   +++l +++ +l+G++  +++ + ++++  + p e +g+++++ s++++ +  +g+  +gl a + g
  PHY93_06215|PHY93_06215 297 LLAVFGFGIC--MIVFGisKNFYLSIFVLALSGAFDNISVVVRGTIMQSLIPAEMKGKVYAVNSIFIGSSNEIGAFESGLAAKLMG 380
                              5556666666..33343326666***********************************************************9999 PP

                    MFS_1 150 Wravfyilaivsllafvlflll 171
                                 + ++ + ++ll++++    
  PHY93_06215|PHY93_06215 381 VVPSVVFGGTMTLLVVIF--TS 400
                              888888888888887663..22 PP

>> MFS_3  Transmembrane secretion effector
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.2  12.8   6.8e-29   4.1e-25       7     400 ..      15     408 ..      10     415 .] 0.84

  Alignments for each domain:
  == domain 1  score: 88.2 bits;  conditional E-value: 6.8e-29
                    MFS_3   7 lrqkvFrviWiaslvsnlGtliqevaasWlmtdisasplmvAlvqaaatLPifllsilaGalaDnfdrRkvllavqlllalvsvll 92 
                              l+   Fr   +a+++  +    q+v ++W + +i+  pl   l+     +P f ++++aG  aD +dr+k++    ++l+  s+ l
  PHY93_06215|PHY93_06215  15 LKFPDFRFFVTAKILMTMALQFQAVIVGWHVYSITHDPLSLGLIGLVEIIPNFSVTLFAGHFADLYDRKKIVYSCLAVLLFCSLGL 100
                              5666799999*************************************************************************999 PP

                    MFS_3  93 tvlaalgllsp..wlllaltlligiGaalndPaWqAsvgelvkrrdvpaAvaLnsvginiaRsvGPAlgGvlvaavGaalafavna 176
                                +++   ++   +ll +++ + g    + +P+   ++ e v++ +  +    +s  + ia   G   +G l +a+    a+ v +
  PHY93_06215|PHY93_06215 101 YYTSYHIEVAHqlYLLYGIIAVSGFARGIIAPSLFSILTECVPKAHFVNSTSWHSTLWQIAFMLGAGTSGFLFSAISYN-AYLVIT 185
                              87776544444014444566666666779*********************************************99765.555555 PP

                    MFS_3 177 lsylalival.lrwkrevrksslprEkllealraglRftaasreikavlvRaalFglsasavlaLLPlvardqldgdalvyGillg 261
                              l  l  ++++   + +   +++ p+ +++ +++ g++f+ +s+      +   lF +     +aLLP+ a d l+ ++   G l +
  PHY93_06215|PHY93_06215 186 LFVLLAMMVFhFISPKPHLTKNDPKAPMFDSIKSGIKFVFSSQIF-LGAISLDLFAVLFGGAVALLPIYANDILKVGPQGLGFLKA 270
                              554444443303333444456679**************9776655.55555667777777778*********************** PP

                    MFS_3 262 alGvGAilgalllsrLRerlsserlvllaavalAlvllslalasslwvavlvlllgGaaWitalstlnvavqlavPrWvvgRalav 347
                              a  +G +l a+++     + ++ + +lla++++ +++++ +++++ ++ ++vl+l+Ga   +++    + +q ++P+ ++g++ av
  PHY93_06215|PHY93_06215 271 APSLGSFLMAAIVVYWPPVRDTGKKLLLAVFGFGICMIVFGISKNFYLSIFVLALSGAFDNISVVVRGTIMQSLIPAEMKGKVYAV 356
                              *************999999999999***********************************9999999******************* PP

                    MFS_3 348 YltvlaGglaaGsllWGavaealsvtlaLlaaaaalllaaaillllklpelea 400
                                  +  +   G++  G  a+ ++v  ++  +++  ll+ +i++ ++ p+l++
  PHY93_06215|PHY93_06215 357 NSIFIGSSNEIGAFESGLAAKLMGVVPSVVFGGTMTLLV-VIFTSFRAPKLKN 408
                              9999988999**************988887766554444.3455566666555 PP

>> Ost4  Oligosaccaryltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.1      0.64   3.8e+03      24      29 ..     194     199 ..     185     201 .. 0.74
   2 ?   -2.4   0.7      0.75   4.5e+03       7      19 ..     236     248 ..     234     250 .. 0.75
   3 ?    9.2   0.0   0.00017         1      13      25 ..     273     285 ..     269     286 .. 0.91
   4 ?   -2.2   1.5      0.63   3.8e+03      13      20 ..     302     309 ..     297     310 .. 0.77
   5 ?    2.5   0.4     0.022   1.3e+02      12      25 ..     385     398 ..     384     403 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 0.64
                              HHHHHH CS
                     Ost4  24 lYHfle 29 
                              ++Hf++
  PHY93_06215|PHY93_06215 194 VFHFIS 199
                              788885 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 0.75
                              HHHHHHHHHHHHH CS
                     Ost4   7 LytLAnfLGsaam 19 
                              L  +A+ +G a  
  PHY93_06215|PHY93_06215 236 LDLFAVLFGGAVA 248
                              7789****97655 PP

  == domain 3  score: 9.2 bits;  conditional E-value: 0.00017
                              HHHHHHHHHHHHH CS
                     Ost4  13 fLGsaamlLIVlY 25 
                              +LGs++m+ IV+Y
  PHY93_06215|PHY93_06215 273 SLGSFLMAAIVVY 285
                              8************ PP

  == domain 4  score: -2.2 bits;  conditional E-value: 0.63
                              HHHHHHHH CS
                     Ost4  13 fLGsaaml 20 
                              ++G+++++
  PHY93_06215|PHY93_06215 302 GFGICMIV 309
                              59****98 PP

  == domain 5  score: 2.5 bits;  conditional E-value: 0.022
                              HHHHHHHHHHHHHH CS
                     Ost4  12 nfLGsaamlLIVlY 25 
                              +++G ++ lL+V++
  PHY93_06215|PHY93_06215 385 VVFGGTMTLLVVIF 398
                              79**********98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (415 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       823  (0.0459033); expected 358.6 (0.02)
Passed bias filter:                      348  (0.0194099); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.41
# Mc/sec: 3020.12
//
Query:       PHY93_06220|PHY93_06220  [L=1055]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    8.4e-49  166.4   4.8    1.3e-48  165.8   4.8    1.3  1  Peptidase_S8  Subtilase family
    2.3e-11   43.5   2.0    2.3e-11   43.5   2.0    2.5  2  PA            PA domain
    1.1e-05   26.1   0.7    0.00015   22.4   0.3    3.0  2  fn3_5         Fn3-like domain
      6e-05   22.8   0.2    0.00018   21.3   0.2    1.7  1  Motile_Sperm  MSP (Major sperm protein) domain
    0.00058   19.7   2.6        0.1   12.5   2.1    3.1  3  DUF5001       Ig-like domain
  ------ inclusion threshold ------
       0.16   12.6   0.0       0.42   11.3   0.0    1.6  1  Inhibitor_I9  Peptidase inhibitor I9


Domain annotation for each model (and alignments):
>> Peptidase_S8  Subtilase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  165.8   4.8   4.4e-52   1.3e-48       3     298 .]     191     643 ..     189     643 .. 0.90

  Alignments for each domain:
  == domain 1  score: 165.8 bits;  conditional E-value: 4.4e-52
                              T-EEEEECS-B-TT-TTTGGGEEE..EEEE---TTSG..................GGEETT-SS-TT-SC-S...SS.......HH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.................xxxxxxxxxxxxxxxxx...xxxxxx...xx RF
             Peptidase_S8   3 gvlvavlDtGvdpshpdlsvttdgerklvdvideegag.................fngadsettstnwardd...ngnsie...HG 65 
                              g+ v+++DtG+d++h  l  +  ++  ++++++ + ++                 +      +++++ +++    ++n i+   HG
  PHY93_06220|PHY93_06220 191 GMRVGIIDTGIDYTHAMLGGS-GKKETYDSIDPSKASEffpnqkvvggadfvgteY-----SSGDPDVEKNIpkrDVNPIDeagHG 270
                              788**************9966.5556667777777777*******99999555541.....44433333332111233444677** PP

                              HHHHHHHH-B..SSSSSB-SSTTSEEEEEE-SSTTSB-HH..HHHHHHHHHHHH..CT-S......EEEE-EESCETTCHHCHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxx......xxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8  66 thvAGiaaanapeegekngvapgakilsvkvldtsggsmetgteliraieeaae..dkvd......vinmslgestslpktgrsie 143
                              +hv G++a+  +  ++ +gvap+ak++++kv++++g+++    ++i+a+e+aa   +k+d      v+n+slg+++ +pk     e
  PHY93_06220|PHY93_06220 271 SHVSGTVAGLGDGVKTYSGVAPEAKLYALKVFGKEGSTSD--IAVIAALEYAADpsEKADpadhldVVNLSLGGGFGKPKILYT-E 353
                              ************************************9986..8*****999998777787999999****************86.6 PP

                              HHHHHHHH.CCT-EEEEE--SS-T-HHEEE-TTCEECTTTSTTCEEEEEES................................... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx................................... RF
             Peptidase_S8 144 alainravnkkgvlvviSaGNngktgsslqagspvgtpstsknvitvgayt................................... 194
                                ai++++ k g++vv+SaGN+g       +   vg+pst++++i+v+a+                                    
  PHY93_06220|PHY93_06220 354 --AIKNLT-KGGTVVVASAGNSG------DNPYIVGAPSTADEAISVAATIddmpqnisipavglkigdseqlleategtisvpas 430
                              ..9*****.99************......8899*****************9*********************************** PP

                              ...................................................................................... CS
                              ...................................................................................... RF
             Peptidase_S8 195 ...................................................................................... 194
                                                                                                                    
  PHY93_06220|PHY93_06220 431 eshisgsfvyigngadpiaedvqamvkgkialidrggmsfvdklavavklgaigavvannqdgnpiqmggegkfeipaimitkavg 516
                              ************************************************************************************** PP

                              ...........................TTSSB-TT--B-TT........-EEEE-S-.CCCCCCCCCHHHTTTHHEEEE-SHHHCH CS
                              ...........................xxxxxxxxxxxxxxxx.xxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8 195 ...........................tegkiapfSsrGpssd.gklkpdivapGgn.ivstwsrqsnnsaglssyqsmsGTSmAs 251
                                                           + i +fSsrGp s    +kp+i+ pG+n i+++++  s +        ++sGTSm+ 
  PHY93_06220|PHY93_06220 517 vqikealknnlavvfnfspgkvitrddLIDTITDFSSRGPRSIdSLIKPEIAGPGANvISAKMGSGS-E------GVQFSGTSMSG 595
                              ***************************999**********886699***********6555555555.2......3579******* PP

                              HHHHHHHHHHHHHHTT--HHHHHHHHHCCS-EE.......SSSSSSTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxx RF
             Peptidase_S8 252 PnaagaaAlllsalpkltpetvraallntAqdl.gkadniesfaqGaG 298
                              P++ag+++ll++a+pklt+++++a +ln+ +++ + + ++ +  qGaG
  PHY93_06220|PHY93_06220 596 PHIAGVMTLLKQAFPKLTVAQLKAKVLNNSKIMmKGPVHVPVSLQGAG 643
                              ******************************998888899999****99 PP

>> PA  PA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.1      0.33   9.7e+02      68      88 ..     396     416 ..     362     417 .. 0.73
   2 !   43.5   2.0   7.8e-15   2.3e-11      16      89 .]     449     519 ..     434     519 .. 0.79

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 0.33
                       PA  68 egepdgitiPavgvsredgea 88 
                              ++ p++i+iPavg++ +d e+
  PHY93_06220|PHY93_06220 396 DDMPQNISIPAVGLKIGDSEQ 416
                              4568889*****998777665 PP

  == domain 2  score: 43.5 bits;  conditional E-value: 7.8e-15
                       PA  16 sadfegvdvkGkivLvqr...tfaeKarnAqaaGAagviivndgelgaatgasgnegepdgitiPavgvsredgeal 89 
                              ++d     vkGki+L++r   +f++K ++A + GA+g++++n++     +g++ ++g +++++iPa+++++++g ++
  PHY93_06220|PHY93_06220 449 AEDV-QAMVKGKIALIDRggmSFVDKLAVAVKLGAIGAVVANNQ-----DGNPIQMGGEGKFEIPAIMITKAVGVQI 519
                              3333.6789********************************864.....556667777888************9775 PP

>> fn3_5  Fn3-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.4   0.3   5.1e-08   0.00015      41     114 ..     686     756 ..     665     757 .. 0.72
   2 ?   -3.0   0.0       3.8   1.1e+04      47      71 ..     988    1012 ..     964    1019 .. 0.60

  Alignments for each domain:
  == domain 1  score: 22.4 bits;  conditional E-value: 5.1e-08
                    fn3_5  41 eegklilkaaspeikeaaltfe.tskvtvpAnssktvtvtldlpsdakkkngyfveGfvtlkdsedknpelsvPY 114
                              ++  ++  +a  +   ++++++ ++++ ++Anss ++++ ++l+++ +++n+  + Gfv l++ ++  +++++P+
  PHY93_06220|PHY93_06220 686 DKDIVFSSKALNN---KNIKVSlPGSFKIKANSSLKLNISFNLQRANADQNNIEADGFVVLQSGDGA-EKINLPF 756
                              3333333333322...3455443789*****************888888******************.******8 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 3.8
                    fn3_5   47 lkaaspeikeaaltfetskvtvpAn 71  
                               ++++ ++ +  a    +++vtv+An
  PHY93_06220|PHY93_06220  988 WQKINISENAFAFYNMPEAVTVKAN 1012
                               3333333333455566777888887 PP

>> Motile_Sperm  MSP (Major sperm protein) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.2     6e-08   0.00018      17      84 ..     672     742 ..     659     747 .. 0.85

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 6e-08
                              SSHEEEEEEEEE-SSSSEEEEEEES-TTTEEEESSEEE.ETTTCEEEEEEEEESSSSSTTSTC..CEEEEE CS
             Motile_Sperm  17 nkqgtsklklkNtskkrvaFkvkttapkkyrvrPnvGi.ikpgesveitvtlkpldeepsekk..kdkfvi 84 
                              nk++++ ++l+N s+k+++F  k  ++k++ v  +  + ik+++s+++++ ++ ++ + ++++   d fv+
  PHY93_06220|PHY93_06220 672 NKTVSKVVTLTNFSDKDIVFSSKALNNKNIKVSLPGSFkIKANSSLKLNISFNLQRANADQNNieADGFVV 742
                              677999**************************9776655***********999987777666566787776 PP

>> DUF5001  Ig-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.5   2.1   3.5e-05       0.1       9      74 ..     672     741 ..     662     745 .. 0.77
   2 ?   -1.9   0.0       1.1   3.3e+03      33      72 ..     935     970 ..     932     971 .. 0.70
   3 ?    3.8   0.0     0.018        53      33      56 ..     997    1020 ..     994    1031 .. 0.79

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 3.5e-05
                              ..TTEEEEEEEE-SSS-EEEEE-...S--TTEE--SEEEE-TTEEEEEEEE.E-TT---EEEEEEEEEEE CS
                  DUF5001   9 tetkvleveikNkSdidFeLent...seytfynypevitipanstttvvik.tkekkesidlkfeVlNal 74 
                              ++t ++ v+++N Sd d  +  +   +++  ++ p  ++i+ans+ ++ i+  +++ +  + + e+ +++
  PHY93_06220|PHY93_06220 672 NKTVSKVVTLTNFSDKDIVFSSKalnNKNIKVSLPGSFKIKANSSLKLNISfNLQRANADQNNIEADGFV 741
                              3478899*************87611156778999*****************7667777777666666665 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 1.1
                              --TTEE--SEEEE-TTEEEEEEEEE-TT---EEEEEEEEE CS
                  DUF5001  33 eytfynypevitipanstttvviktkekkesidlkfeVlN 72 
                              e +fy++++v +i+a  t+      + k+ +i +k+ V N
  PHY93_06220|PHY93_06220 935 EMKFYDHSDVAVIEADVTKIA----TSKNGNIGIKLAVSN 970
                              678999999999999877644....334666666666666 PP

  == domain 3  score: 3.8 bits;  conditional E-value: 0.018
                               --TTEE--SEEEE-TTEEEEEEEE CS
                  DUF5001   33 eytfynypevitipanstttvvik 56  
                                + fyn+pe +t++an    +++k
  PHY93_06220|PHY93_06220  997 AFAFYNMPEAVTVKANDLEVLSMK 1020
                               578************987766666 PP

>> Inhibitor_I9  Peptidase inhibitor I9
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00014      0.42      32      77 ..      98     142 ..      67     145 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00014
                              HTT..--EEEEEEESSSSSEEEEEE-GGGHHHHHTSTTEEEEEEEE CS
             Inhibitor_I9  32 kgedsakagilysYkilfnGfavklteeqaeklrkrpeVesVepDq 77 
                              k+  s + +i+ +Yk ++n++a +  ++ a +++k ++V +V +++
  PHY93_06220|PHY93_06220  98 KDL-SPEIKIISTYKLVLNAIAFVAPSNLAAEIAKIEGVNKVIENT 142
                              333.578899*********************************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1055 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       643  (0.0358637); expected 358.6 (0.02)
Passed bias filter:                      471  (0.0262703); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.79u 0.27s 00:00:01.06 Elapsed: 00:00:00.45
# Mc/sec: 7057.83
//
Query:       PHY93_06225|PHY93_06225  [L=200]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.1e-40  136.7   0.1      7e-40  136.5   0.1    1.0  1  Pyrophosphatase  Inorganic pyrophosphatase


Domain annotation for each model (and alignments):
>> Pyrophosphatase  Inorganic pyrophosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  136.5   0.1   3.9e-44     7e-40       2     160 .]      30     197 ..      29     197 .. 0.96

  Alignments for each domain:
  == domain 1  score: 136.5 bits;  conditional E-value: 3.9e-44
                              EEEE-TTCSEEEEEETTTTEEEEEEE-SSSB-BSSEEEEETT--BT........CCBEETSSSEEEEEESSS---TT.EEEEEEEE CS
          Pyrophosphatase   2 vvEiprgsnaKyeidkeegklrldrvlftskgypanYGfipqTled........telkGDgDPlDvlvlgeeplspg.evvevkvl 78 
                              ++Ei  ++ +Kyei ke+g +++dr++  s   p+ YGfipqT++             GD DP D++vl+e p+++   +++v+v+
  PHY93_06225|PHY93_06225  30 YIEIIPNDVIKYEICKETGFIMVDRPQKFSSLPPVLYGFIPQTYSAektaafskMAPVGDSDPHDLCVLSELPIQRAdIIMDVRVI 115
                              79********************************************9*****988889****************9997889***** PP

                              EEEEEEETTEEEEEEEEEETTSGGGTT-SSGGGSTHHHHHHHHHHHHHTTTTSCCT-.SEEEEEEEEHHHHHHHHHHHHHHHH CS
          Pyrophosphatase  79 GvlamiDegetDdKiiavpvkdprlkkindiedlpgllleeiehfFetykdlegkkk.nvkveewkdkeeAekvieeaheryk 160
                              G +++iD+ge DdKii v + dp +k +ndi+++++ ++++i+h+F +yk++ g+ + + ++e+++++eeA kv+e+ +++yk
  PHY93_06225|PHY93_06225 116 GGIRLIDSGEVDDKIISVLNGDPFYKGVNDISQINPVIIDRIRHYFLSYKTIPGE-PvKMQIESVYGAEEAYKVVEAGMADYK 197
                              ***********************99****************************98.6588*****************999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (200 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       307  (0.0171231); expected 358.6 (0.02)
Passed bias filter:                      288  (0.0160634); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1476.69
//
Query:       PHY93_05365|PHY93_05365  [L=608]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    5.4e-47  159.8   6.1    5.2e-22   78.8   0.0    4.3  4  ABC_tran        ABC transporter
    7.7e-18   64.3  17.2    4.9e-17   61.7   7.1    2.7  2  ABC_tran_Xtn    ABC transporter
    3.1e-16   60.0   6.7    0.00073   19.4   0.0    4.8  5  AAA_21          AAA domain, putative AbiEii toxin, Type IV TA
    6.8e-09   35.3   0.1     0.0026   17.5   0.0    2.4  2  AAA_29          P-loop containing region of AAA domain
      2e-06   27.9   1.5      0.038   14.1   0.1    3.0  2  MMR_HSR1        50S ribosome-binding GTPase
    7.2e-06   25.2   1.6      0.016   14.2   0.0    2.9  3  MeaB            Methylmalonyl Co-A mutase-associated GTPase M
    8.1e-06   25.8  20.2     0.0036   17.1   4.6    4.1  2  AAA_15          AAA ATPase domain
    9.7e-06   25.6   0.3        0.2   11.5   0.1    2.7  2  RsgA_GTPase     RsgA GTPase
      4e-05   23.2  18.2      0.043   13.2   2.5    4.9  5  SMC_N           RecF/RecN/SMC N terminal domain
    0.00011   21.5   1.0       0.15   11.2   0.3    3.3  2  NB-ARC          NB-ARC domain
     0.0098   16.1   3.5     0.0098   16.1   3.5    3.2  2  ABC_tran_CTD    ABC transporter C-terminal domain
  ------ inclusion threshold ------
      0.011   15.7   2.3        3.4    7.5   0.5    2.6  2  NACHT           NACHT domain
      0.023   15.1   0.2        5.1    7.5   0.0    2.6  2  RNA_helicase    RNA helicase
       0.03   14.8  31.5       0.15   12.5   7.7    3.9  3  AAA_23          AAA domain
      0.075   12.9   1.1        2.8    7.8   0.1    2.9  2  NTPase_1        NTPase
       0.11   13.0   0.4          2    8.8   0.0    2.9  2  AAA             ATPase family associated with various cellula
       0.14   12.4   0.1         14    6.0   0.1    3.4  2  SbcCD_C         Putative exonuclease SbcCD, C subunit
       0.22   11.5   1.0        4.4    7.3   0.0    3.1  3  AAA_5           AAA domain (dynein-related subfamily)
       0.23   11.8   2.1        4.2    7.6   0.1    3.4  2  AAA_22          AAA domain
       0.26   11.4   0.1       0.26   11.4   0.1    4.8  5  DUF87           Helicase HerA, central domain
       0.39   10.2   6.4        1.2    8.6   0.3    2.2  2  Exonuc_VII_L    Exonuclease VII, large subunit
       0.52   10.5   2.4        8.3    6.6   0.0    3.3  3  AAA_33          AAA domain
        3.1    7.8  10.7        1.7    8.7   3.7    2.4  2  Laminin_II      Laminin Domain II
        4.9    7.3  11.4       0.12   12.5   3.6    2.2  2  DUF4110         Domain of unknown function (DUF4110)
        7.9    7.0  15.2        1.8    9.1   3.2    2.7  2  DUF16           Protein of unknown function DUF16


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.8   0.0   7.2e-25   5.2e-22       2     137 .]      18     147 ..      17     147 .. 0.80
   2 ?    1.7   0.3      0.46   3.3e+02      50     106 ..     189     249 ..     161     261 .. 0.63
   3 !   77.5   0.0   1.9e-24   1.4e-21       2     137 .]     301     431 ..     300     431 .. 0.86
   4 ?    1.4   0.2       0.6   4.3e+02      47      89 ..     506     572 ..     478     605 .. 0.61

  Alignments for each domain:
  == domain 1  score: 78.8 bits;  conditional E-value: 7.2e-25
                              EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH........ CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx........ RF
                 ABC_tran   2 knvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren........ 79 
                              ++vs++l   e+v++vG+nG+GKStL+kl++g+l+ ++Gei++               ++g l+q+ ++ + + v e+        
  PHY93_05365|PHY93_05365  18 DRVSFQLGSRERVGLVGRNGSGKSTLFKLILGELSVDSGEITIP-----------KGYRLGALEQHIHFTKPT-VLEEciqvldpd 91 
                              78***************************************665...........344455555553333333.333335544447 PP

                              .HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              .xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 .esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                                 + e+ek+l  lg ++   + ++++p+s+SgG + r+ l ++ll++p+llllDEpt+
  PHY93_05365|PHY93_05365  92 dFLEHEAEKILFGLGFSD---EDMQKDPKSFSGGYQIRINLTKVLLQAPSLLLLDEPTN 147
                              667788999999999776...6667899******************************8 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.46
                              GGB-HHHCCHCEEEE-SS.--S-TTSB.HHHH..HHHTCHHHHHHHSTTGGTTCBGESTTS CS
                              xxxxxxxxxxxxxxxxxx.xxxxxxxx.xxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  50 keqeleslrkeigvlpqe.pqlfpelt.vren..esdeeiekalsklglkelkdtvvkssp 106
                              ++q+l++ +   + + ++  q  + ++  ren  ++++e+e+++++++ k  k+  ++s++
  PHY93_05365|PHY93_05365 189 HRQQLKKIKGDTSKFYEQiLQDEEMYEkTRENldKKRKEMEAFVERFKAKASKAAQAQSRM 249
                              3455666666666665553222222223455598888889999999988886666665555 PP

  == domain 3  score: 77.5 bits;  conditional E-value: 1.9e-24
                              EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEET.TCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHHHHHTCHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran   2 knvslklkegekvaivGenGaGKStLlkllagllkpteGeilld.gkdlkeqeleslrkeigvlpqepqlfpeltvrenesdeeie 86 
                              +n+s+ +++  +++i+G+nG GKStLl+++ g+ +p  G++ +  ++++     ++ + +i  l  e+++ +e+  +e++s+  i+
  PHY93_05365|PHY93_05365 301 HNLSFPINREDRIGIIGKNGKGKSTLLNVIGGMFDPVLGKVSFHpSAQVG----HFGQTNINRLNMENTIVEEI--QEENSNLSIS 380
                              79***************************************665333333....36666666666666666555..55588888** PP

                              HHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  87 kalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                               +++  g   ++ + +k++ + LSgG++ rv l ++l+k ++llllDEpt+
  PHY93_05365|PHY93_05365 381 GVRNICGTMMFEGDLAKKKIKVLSGGERARVLLGKILAKPANLLLLDEPTN 431
                              **************************************************8 PP

  == domain 4  score: 1.4 bits;  conditional E-value: 0.6
                              CEGGGB-HHHCCHCEEEE-SS..--S-TTSBHHHH......................HHHTCHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxx......................xxxxxxxxxx RF
                 ABC_tran  47 kdlkeqeleslrkeigvlpqe..pqlfpeltvren......................esdeeiekal 89 
                              ++l+e+e+++ r+ei+v   +  + +++e+++ en                      +++++++++ 
  PHY93_05365|PHY93_05365 506 RKLTEKEIKQRRAEIAVERAKicKPMKEEIEISENeitknenlllrinaelekaaisQDSAKLNDYT 572
                              4555566666666666666666566666666666666555555555555544444443333333333 PP

>> ABC_tran_Xtn  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.7   7.1   6.8e-20   4.9e-17       3      76 ..     188     261 ..     186     271 .. 0.95
   2 !    7.6   2.4    0.0054       3.9       3      52 ..     472     525 ..     470     570 .. 0.86

  Alignments for each domain:
  == domain 1  score: 61.7 bits;  conditional E-value: 6.8e-20
             ABC_tran_Xtn   3 lengklteYkGnYseyleekeerleqqqkayekqqkeikkleefIerfrakakkakqaqsrekaLeklekiekp 76 
                              l++++l++ kG+ s+++e+  +++e ++k++e+  k++k++e+f+erf+aka+ka+qaqsr+kaL+k+ +++k 
  PHY93_05365|PHY93_05365 188 LHRQQLKKIKGDTSKFYEQILQDEEMYEKTRENLDKKRKEMEAFVERFKAKASKAAQAQSRMKALQKMSTMDKL 261
                              899*****************************************************************999987 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0054
             ABC_tran_Xtn   3 lengklteYkGnYseyle....ekeerleqqqkayekqqkeikkleefIerfra 52 
                              ++ng ++ ++G Y+e+le    e ee++ ++  +++  +keik+ ++ I+  ra
  PHY93_05365|PHY93_05365 472 FHNGNAELFNGTYDEFLEkigwESEENKPNKTGKRKLTEKEIKQRRAEIAVERA 525
                              58999*************444447888888899999999999998887765555 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.4   0.0     1e-06   0.00073       3      62 ..      31      77 ..      30      87 .. 0.75
   2 !   12.3   0.0   0.00015      0.11     247     303 .]     129     179 ..     114     179 .. 0.80
   3 !   13.4   0.2     7e-05      0.05       3      26 ..     314     347 ..     313     384 .. 0.73
   4 !   15.1   0.0   2.1e-05     0.015     256     299 ..     419     459 ..     390     463 .. 0.86
   5 ?   -2.3   0.1       4.2     3e+03     126     163 ..     550     587 ..     495     605 .. 0.62

  Alignments for each domain:
  == domain 1  score: 19.4 bits;  conditional E-value: 1e-06
                   AAA_21  3 vliGpNgsGKSnLLdaldllarldrdvegltdelsggggirkipslldlydpeipfefei 62
                             +l+G+NgsGKS+L++++               els  +g++ ip+ ++l++ e+ + f+ 
  PHY93_05365|PHY93_05365 31 GLVGRNGSGKSTLFKLIL-------------GELSVDSGEITIPKGYRLGALEQHIHFTK 77
                             69***************3.............46677777777777777777776666665 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 0.00015
                   AAA_21 247 lltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQviltTHSpllld 303
                              l   ll+a+   slll+DEp n L+   +r l  +lk+       ++l TH+ +++d
  PHY93_05365|PHY93_05365 129 LTKVLLQAP---SLLLLDEPTNYLDIVSMRWLKSFLKNFPG---EIMLITHDREFMD 179
                              555566666...**************888888888888866...8999999977775 PP

  == domain 3  score: 13.4 bits;  conditional E-value: 7e-05
                   AAA_21   3 vliGpNgsGKSnLLdaldllarl..........d 26 
                              ++iG+Ng GKS+LL  + ++++           +
  PHY93_05365|PHY93_05365 314 GIIGKNGKGKSTLLNVIGGMFDPvlgkvsfhpsA 347
                              69*****************998666655555552 PP

  == domain 4  score: 15.1 bits;  conditional E-value: 2.1e-05
                   AAA_21 256 kkgsllliDEpEngLHPkllrrllellkelsrngaQviltTHSp 299
                              k++ lll+DEp n+L+ + +++l e + +       v+++THS 
  PHY93_05365|PHY93_05365 419 KPANLLLLDEPTNHLDMESIESLTEEIGSFPG---AVVIVTHSE 459
                              34489**********************77755...9******95 PP

  == domain 5  score: -2.3 bits;  conditional E-value: 4.2
                   AAA_21 126 slkelsvsepndlqfgkaltditsrawsllllldglrk 163
                               +++ +++++ + q ++ l+d t+   +l++l ++l++
  PHY93_05365|PHY93_05365 550 LRINAELEKAAISQDSAKLNDYTHAVGKLNQLIENLFE 587
                              34455555555555555555555555555555555554 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0   1.8e-05     0.013      12      39 ..      17      44 ..      15      48 .. 0.86
   2 !   17.5   0.0   3.6e-06    0.0026      12      42 ..     300     330 ..     298     349 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 1.8e-05
                   AAA_29 12 fdghtieidlkgatlltGpsGsGKSTll 39
                             fd+ ++++  ++ + l+G++GsGKSTl+
  PHY93_05365|PHY93_05365 17 FDRVSFQLGSRERVGLVGRNGSGKSTLF 44
                             778888888888899***********96 PP

  == domain 2  score: 17.5 bits;  conditional E-value: 3.6e-06
                   AAA_29  12 fdghtieidlkgatlltGpsGsGKSTllDAi 42 
                              f++ +++i++++ + ++G++G GKSTll  i
  PHY93_05365|PHY93_05365 300 FHNLSFPINREDRIGIIGKNGKGKSTLLNVI 330
                              899999***9999**************9766 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.1   0.1   5.3e-05     0.038       1      22 [.      29      50 ..      29      61 .. 0.86
   2 !   11.6   0.1   0.00031      0.22       1      21 [.     312     332 ..     312     370 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 5.3e-05
                             EEEEEESTTSSHHHHHHHHHTS CS
                 MMR_HSR1  1 evaivGrpNvGKStLinaltge 22
                             +v++vGr  +GKStL++ ++ge
  PHY93_05365|PHY93_05365 29 RVGLVGRNGSGKSTLFKLILGE 50
                             69*****************998 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 0.00031
                              EEEEEESTTSSHHHHHHHHHT CS
                 MMR_HSR1   1 evaivGrpNvGKStLinaltg 21 
                              +++i+G+   GKStL+n + g
  PHY93_05365|PHY93_05365 312 RIGIIGKNGKGKSTLLNVIGG 332
                              69***************9865 PP

>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.2   0.0   2.2e-05     0.016      15      53 ..      13      51 ..       5      60 .. 0.85
   2 ?   -1.7   0.4       1.6   1.1e+03     214     256 ..     217     259 ..     169     264 .. 0.55
   3 !    8.8   0.0   0.00098       0.7      17      51 ..     298     332 ..     289     344 .. 0.83

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 2.2e-05
                             HHHHHHHHGGG-S-SEEEEEEE-TTSSHHHHHHHHHHHH CS
                     MeaB 15 akellerllakaGraqvvGltGvPGaGkstlvealglel 53
                              +el++r++ + G  ++vGl G  G+Gkstl + +  el
  PHY93_05365|PHY93_05365 13 GQELFDRVSFQLGSRERVGLVGRNGSGKSTLFKLILGEL 51
                             689****************************98766555 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 1.6
                              CTBSHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHH CS
                     MeaB 214 egeGidelvdaieehrevlkktGllekrrrerakeelrelved 256
                              + e +d+  +++e + e  k+   ++++ + r k   ++ ++d
  PHY93_05365|PHY93_05365 217 TRENLDKKRKEMEAFVERFKAKASKAAQAQSRMKALQKMSTMD 259
                              3344444444455555555555555555555555555555555 PP

  == domain 3  score: 8.8 bits;  conditional E-value: 0.00098
                              HHHHHHGGG-S-SEEEEEEE-TTSSHHHHHHHHHH CS
                     MeaB  17 ellerllakaGraqvvGltGvPGaGkstlvealgl 51 
                              +l+++l+    r  ++G+ G  G Gkstl++ +g 
  PHY93_05365|PHY93_05365 298 ALFHNLSFPINREDRIGIIGKNGKGKSTLLNVIGG 332
                              56677777778999***************998875 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.0   8.1     0.024        17      28     268 ..      32     239 ..      26     309 .. 0.49
   2 !   17.1   4.6   5.1e-06    0.0036      28     204 ..     315     596 ..     299     608 .] 0.69

  Alignments for each domain:
  == domain 1  score: 5.0 bits;  conditional E-value: 0.024
                   AAA_15  28 liGkNnsGKSsilealdlFlnnkekknkkvikiekedleifeniseskdikIdvefaekekakeyektlkskekkkadlllkkkes 113
                              l+G+N+sGKS++ +++   l +          +++ ++ i  + ++   ++  ++f +++  +e+++ l++++  + +        
  PHY93_05365|PHY93_05365  32 LVGRNGSGKSTLFKLI---LGEL--------SVDSGEITIP-KGYRLGALEQHIHFTKPTVLEECIQVLDPDDFLEHE-------- 97 
                              6788888888877777...2222........2333333333.333333333344442224444444444444322222........ PP

                   AAA_15 114 dlkktikdkklklkknelsdekisvekkkskkelpkekeeklekekeelkid.kedlkklikkleeslkkee......elknvlks 192
                                 k+++   + ++               +++++pk+ +   + +++ +k+  +     l+++ +++            lk++lk+
  PHY93_05365|PHY93_05365  98 -AEKILFGLGFSDE---------------DMQKDPKSFSGGYQIRINLTKVLlQAPSLLLLDEPTNY----LdivsmrWLKSFLKN 163
                              .1111111111111...............11111111111111112222221122222222211111....022224445667777 PP

                   AAA_15 193 aiiklllisakRnvsdedsekkssllgklkekileealqekl.eeelteklkeiqeklkeidkklaeelkkilkkki 268
                              +  ++ li  +R++ d+  +++  l  ++++ki+ + ++ +  +++++e  +++ e+l+++ k++++  ++ +k k 
  PHY93_05365|PHY93_05365 164 FPGEIMLITHDREFMDDVVTHTMGLHRQQLKKIKGDTSKFYEqILQDEEMYEKTRENLDKKRKEMEAFVER-FKAKA 239
                              77777777777777777777766666666666666665555565555555555555555555555444431.22222 PP

  == domain 2  score: 17.1 bits;  conditional E-value: 5.1e-06
                   AAA_15  28 liGkNnsGKSsilealdlFlnnkekkn........................kkvikiekedleifeniseskdikIdvef...... 83 
                              +iGkN+ GKS++l+++  +++                              +++i++e ++ + + +is  ++i  ++ f      
  PHY93_05365|PHY93_05365 315 IIGKNGKGKSTLLNVIGGMFDPV---LgkvsfhpsaqvghfgqtninrlnmENTIVEEIQEENSNLSISGVRNICGTMMFegdlak 397
                              9********************77...1233567999999999999888866555555555555555555555555555559999** PP

                   AAA_15  84 ...................................................................................aek 86 
                                                                                                                    
  PHY93_05365|PHY93_05365 398 kkikvlsggerarvllgkilakpanlllldeptnhldmesieslteeigsfpgavvivthseimlrnlatkliifhngnaelfN-- 481
                              ****************************************************99999998888777777666665555333220.. PP

                   AAA_15  87 ekakeyektlkskekkkadlllkkkesdlkkt.ikdkklklkknelsdekisvekkks......kkelpkekeeklekekeelkid 165
                              +  +e+++   ++ +       ++k++++ k+ +++k++k    e+ +e+       +      k e++++++e  ++e+  l i+
  PHY93_05365|PHY93_05365 482 GTYDEFLEKIGWESE-------ENKPNKTGKRkLTEKEIKQRRAEIAVER-------AkickpmKEEIEISENEITKNENLLLRIN 553
                              222222222222211.......1222222222023334444444444444.......24444445566667788888888888899 PP

                   AAA_15 166 kedlkklikkleeslkkee....elknvlksaiiklllisakR 204
                               e  k  i++ + +l+ +     +l+++++++++kl   ++  
  PHY93_05365|PHY93_05365 554 AELEKAAISQDSAKLNDYThavgKLNQLIENLFEKLTNANESL 596
                              9999999999999999998999977777777777765444444 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.5   0.1   0.00028       0.2      91     131 ..      18      59 ..       6      64 .. 0.82
   2 !   11.3   0.0   0.00034      0.24     100     131 ..     311     342 ..     279     367 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00028
                              HHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT-----S--- CS
              RsgA_GTPase  91 eelkellkd.ktsvlvGqSGvGKStLinallpelelktgevs 131
                              ++++ +l + + + lvG  G GKStL + +l+el++  ge+ 
  PHY93_05365|PHY93_05365  18 DRVSFQLGSrERVGLVGRNGSGKSTLFKLILGELSVDSGEIT 59 
                              566666666567779******************999999885 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 0.00034
                              SEEEEECSTTSSHHHHHHHHCTT-----S--- CS
              RsgA_GTPase 100 ktsvlvGqSGvGKStLinallpelelktgevs 131
                              + + ++G+ G GKStL+n++ +  +   g+vs
  PHY93_05365|PHY93_05365 311 DRIGIIGKNGKGKSTLLNVIGGMFDPVLGKVS 342
                              566799*************9988777777766 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.6   0.0   0.00038      0.27      27      45 ..      30      48 ..      16      59 .. 0.79
   2 ?    2.4   0.0      0.13        90     158     214 ..     136     191 ..     116     197 .. 0.84
   3 ?   -2.9   0.3       5.2   3.7e+03     172     213 ..     210     251 ..     209     257 .. 0.70
   4 !   13.2   2.5     6e-05     0.043     109     212 ..     375     472 ..     300     478 .. 0.67
   5 ?   -3.1   0.4       5.9   4.3e+03      91     122 ..     514     546 ..     501     572 .. 0.53

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00038
                             EEEEESTTSSHHHHHHHHH CS
                             xxxxxxxxxxxxxxxxxxx RF
                    SMC_N 27 taivGpNGSGKsnlldAil 45
                               +vG+NGSGKs l+  il
  PHY93_05365|PHY93_05365 30 VGLVGRNGSGKSTLFKLIL 48
                             579***********98884 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.13
                              --SEEEECTTTTTS-HHHHHHHHHHHHHHCTTSEEEEE-SSHHHCCC-.SCEEEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxx RF
                    SMC_N 158 paplyllDeidaaLDeknvkkvaellkeksknaQfivislreemleka.dklvgvtkv 214
                                +l llDe    LD   ++ + ++lk+      ++ i++++e++ ++  +++g+  +
  PHY93_05365|PHY93_05365 136 APSLLLLDEPTNYLDIVSMRWLKSFLKNFP--GEIMLITHDREFMDDVvTHTMGLHRQ 191
                              457899*********************999..88999*****9999875666676664 PP

  == domain 3  score: -2.9 bits;  conditional E-value: 5.2
                              -HHHHHHHHHHHHHHCTTSEEEEE-SSHHHCCC-SCEEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 172 DeknvkkvaellkeksknaQfivislreemlekadklvgvtk 213
                              De+  +k  e l++k+k++  +v  ++++  + a++  +++ 
  PHY93_05365|PHY93_05365 210 DEEMYEKTRENLDKKRKEMEAFVERFKAKASKAAQAQSRMKA 251
                              556666677778888888888888888888888877777766 PP

  == domain 4  score: 13.2 bits;  conditional E-value: 6e-05
                              EEEEETTEEE-H..HHHHHHHHCTT-STTCS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTTSEE CS
                              xxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 109 seykingkevtk..kevsellesagiskelLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkeksknaQf 192
                              s+  i g +        +  l++++i  ++LSgGe++ v l  ++A    kpa l llDe   +LD + ++ + e + +      +
  PHY93_05365|PHY93_05365 375 SNLSISGVRNICgtMMFEGDLAKKKI--KVLSGGERARVLLGKILA----KPANLLLLDEPTNHLDMESIESLTEEIGSFP--GAV 452
                              34444443322211333344444444..48******9998888876....9**************************9988..889 PP

                              EEE-SSHHHCCC-SCEEEEE CS
                              xxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 193 ivislreemlekadklvgvt 212
                              ++++++e ml++  + + ++
  PHY93_05365|PHY93_05365 453 VIVTHSEIMLRNLATKLIIF 472
                              99999999999876655555 PP

  == domain 5  score: -3.1 bits;  conditional E-value: 5.9
                              SSSSSCEEEEEEEE.TTSEEEEEETTEEE-HHH CS
                              xxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxx RF
                    SMC_N  91 kiekeevsisrrvk.rkgeseykingkevtkke 122
                              k+++ e+ ++r ++ +  + e++i ++e+tk+e
  PHY93_05365|PHY93_05365 514 KQRRAEIAVERAKIcKPMKEEIEISENEITKNE 546
                              344445555444330333355555555555554 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.2   0.3   0.00021      0.15      22      45 ..      29      52 ..      14     228 .. 0.71
   2 !    6.6   0.0    0.0055       3.9      21      78 ..     311     372 ..     295     424 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00021
                             EEEEEESTTSSHHHHHHHHCCSHC CS
                   NB-ARC 22 vvalvGmgGvGKttlakqilnksd 45
                              v+lvG+ G+GK+tl+k il +++
  PHY93_05365|PHY93_05365 29 RVGLVGRNGSGKSTLFKLILGELS 52
                             589**************9998744 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.0055
                              EEEEEEESTTSSHHHHHHHHCCSHCCCCC..CBTEEEEE......EEESXXHHHHHHHXXHHHHHC CS
                   NB-ARC  21 lvvalvGmgGvGKttlakqilnksdeveg..rFdsvawv......vvsktdkseeiletilkeLsl 78 
                              + +++ G+ G GK+tl++ i   +d v g   F   a+v       + +  +++    ti++e+++
  PHY93_05365|PHY93_05365 311 DRIGIIGKNGKGKSTLLNVIGGMFDPVLGkvSFHPSAQVghfgqtNINRLNMEN----TIVEEIQE 372
                              4689*************9999888887775667777777543333333333333....34444444 PP

>> ABC_tran_CTD  ABC transporter C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   1.0      0.63   4.5e+02      28      54 ..     205     232 ..     201     241 .. 0.64
   2 !   16.1   3.5   1.4e-05    0.0098       7      63 ..     532     588 ..     526     591 .. 0.96

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.63
             ABC_tran_CTD  28 eaeladpelysdp.eklaelsaeleele 54 
                              e+ l+d+e+y++  e l +  +e+e+  
  PHY93_05365|PHY93_05365 205 EQILQDEEMYEKTrENLDKKRKEMEAFV 232
                              5666777777555566666666666644 PP

  == domain 2  score: 16.1 bits;  conditional E-value: 1.4e-05
             ABC_tran_CTD   7 qreleeleaeIeaLEeeiaeleaeladpelysdpeklaelsaeleeleaeLeelyer 63 
                              + e+e  e+eI + E+ +  ++ael+++++ +d++kl++ +    +l++ +e+l+e+
  PHY93_05365|PHY93_05365 532 KEEIEISENEITKNENLLLRINAELEKAAISQDSAKLNDYTHAVGKLNQLIENLFEK 588
                              6799999***********************************************996 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.1   0.1    0.0068       4.8       3      24 ..      30      51 ..      28      57 .. 0.82
   2 ?    7.5   0.5    0.0048       3.4       3      19 ..     313     329 ..     311     333 .. 0.86

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.0068
                             EEEEC-TTTCHHHHHHHHHHHH CS
                    NACHT  3 vilqGeaGsGKTtLlqklalaw 24
                             v l G++GsGK+tL + +  ++
  PHY93_05365|PHY93_05365 30 VGLVGRNGSGKSTLFKLILGEL 51
                             5689**********99887665 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0048
                              EEEEC-TTTCHHHHHHH CS
                    NACHT   3 vilqGeaGsGKTtLlqk 19 
                              + + G++G+GK+tLl  
  PHY93_05365|PHY93_05365 313 IGIIGKNGKGKSTLLNV 329
                              5689**********975 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   0.0    0.0071       5.1       3      36 ..      32      65 ..      30      81 .. 0.78
   2 ?    4.9   0.1     0.048        35       3      18 ..     315     330 ..     313     357 .. 0.86

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0071
             RNA_helicase  3 lyGpsgeGKStlakeLakallkklklkkkdsvys 36
                             l+G++g GKStl k +  +l+ ++++++ ++ y 
  PHY93_05365|PHY93_05365 32 LVGRNGSGKSTLFKLILGELSVDSGEITIPKGYR 65
                             78*************9999987776666555555 PP

  == domain 2  score: 4.9 bits;  conditional E-value: 0.048
             RNA_helicase   3 lyGpsgeGKStlakeL 18 
                              + G++g GKStl + +
  PHY93_05365|PHY93_05365 315 IIGKNGKGKSTLLNVI 330
                              78**********9975 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   7.7   0.00021      0.15      15     152 ..      22     252 ..       2     267 .. 0.62
   2 ?   11.0   1.1   0.00062      0.45      23      39 ..     314     330 ..     288     335 .. 0.85
   3 ?    1.6   7.0      0.46   3.3e+02      87     186 ..     488     597 ..     440     608 .] 0.53

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 0.00021
                   AAA_23  15 idF.skgltlItGpNGaGKTTildAiklaLygetprlsrksgr..gfeksdveiesegkvkayvelt.....fenkdgry...... 86 
                              +++ s+  + ++G NG+GK+T++  i   L  ++++    +g   g+ ++ +++++ +  ++++++      +e++ ++       
  PHY93_05365|PHY93_05365  22 FQLgSRERVGLVGRNGSGKSTLFKLILGELSVDSGEITIPKGYrlGALEQHIHFTKPTVLEECIQVLdpddfLEHEAEKIlfglgf 107
                              44466667789***************999999999888888661245555555555577788888888888844444433555555 PP

                   AAA_23  87 .............................................................................trsierere 95 
                                                                                                           t+ +   r+
  PHY93_05365|PHY93_05365 108 sdedmqkdpksfsggyqirinltkvllqapslllldeptnyldivsmrwlksflknfpgeimlithdrefmddvvthTMGL--HRQ 191
                              555555588888887777788888888888888888888877777777777777777777777777777776665333333..333 PP

                   AAA_23  96 lskkkgkttkkaklelleideleqfisellgskkiilnlil.flgqer...feefelkdkk 152
                                kk +  t+k  +++l+++e  ++++e+l++k ++++ ++  ++++    ++ +++++ +
  PHY93_05365|PHY93_05365 192 QLKKIKGDTSKFYEQILQDEEMYEKTRENLDKKRKEMEAFVeRFKAKAskaAQAQSRMKAL 252
                              3333333455567777777777777777777776644333201222221113333333333 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.00062
                   AAA_23  23 lItGpNGaGKTTildAi 39 
                               I+G+NG GK+T+l+ i
  PHY93_05365|PHY93_05365 314 GIIGKNGKGKSTLLNVI 330
                              79************987 PP

  == domain 3  score: 1.6 bits;  conditional E-value: 0.46
                   AAA_23  87 trsiererelskkkgkttkkaklellei.........deleqfisellgskki...ilnlilflgqerfeefelkdkkerleelek 160
                               ++i +e e++k ++  ++k ++++++          ++ ++ ++e+++++++    ++++l+    + e+ + ++++ +l++++ 
  PHY93_05365|PHY93_05365 488 LEKIGWESEENKPNKTGKRKLTEKEIKQrraeiaverAKICKPMKEEIEISENeitKNENLLLRINAELEKAAISQDSAKLNDYTH 573
                              45566666666666666666666666663333332333333333444444433333222222222222223333444457777777 PP

                   AAA_23 161 eleeled.ekkllekleqekekekele 186
                              +  +l++ +++l+ekl +++e    l+
  PHY93_05365|PHY93_05365 574 AVGKLNQlIENLFEKLTNANE---SLD 597
                              777766633335555533333...333 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   0.1    0.0039       2.8       2      24 ..      30      52 ..      29      59 .. 0.86
   2 ?    2.5   0.1      0.16   1.2e+02       2      19 ..     313     330 ..     312     335 .. 0.85

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0039
                             EEEE--TTSSHHHHHHHHHHHH. CS
                 NTPase_1  2 vfiTGppGvGKtTlvkkvlellk 24
                             v + G+ G+GK+Tl+k +l +l+
  PHY93_05365|PHY93_05365 30 VGLVGRNGSGKSTLFKLILGELS 52
                             7799**************99986 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.16
                              EEEE--TTSSHHHHHHHH CS
                 NTPase_1   2 vfiTGppGvGKtTlvkkv 19 
                              + i G+ G GK+Tl++ +
  PHY93_05365|PHY93_05365 313 IGIIGKNGKGKSTLLNVI 330
                              7899**********9865 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   0.0    0.0028         2       3      33 ..      32      62 ..      30      88 .. 0.84
   2 ?    0.7   0.0       0.9   6.4e+02       3      22 ..     315     334 ..     313     386 .. 0.76

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.0028
                             EESSTTSSHHHHHHHHHHHHTHEEEEEETTT CS
                      AAA  3 lyGppGtGKTllakavakelgvefleisgse 33
                             l+G  G GK++l k +  el+v+  ei  ++
  PHY93_05365|PHY93_05365 32 LVGRNGSGKSTLFKLILGELSVDSGEITIPK 62
                             89******************99877777765 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.9
                              EESSTTSSHHHHHHHHHHHH CS
                      AAA   3 lyGppGtGKTllakavakel 22 
                              ++G  G GK++l + +   +
  PHY93_05365|PHY93_05365 315 IIGKNGKGKSTLLNVIGGMF 334
                              6899********99988775 PP

>> SbcCD_C  Putative exonuclease SbcCD, C subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.0      0.59   4.2e+02      62      82 ..     135     155 ..     106     163 .. 0.80
   2 ?    6.0   0.1      0.02        14      64      85 ..     421     442 ..     390     445 .. 0.79

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.59
                  SbcCD_C  62 palrlvfLDEAFsklDeesia 82 
                              +a++l++LDE  + lD  s++
  PHY93_05365|PHY93_05365 135 QAPSLLLLDEPTNYLDIVSMR 155
                              57899999*999999976666 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.02
                  SbcCD_C  64 lrlvfLDEAFsklDeesiatll 85 
                                l++LDE  + lD esi++l 
  PHY93_05365|PHY93_05365 421 ANLLLLDEPTNHLDMESIESLT 442
                              57999***********999875 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3   0.0    0.0062       4.4       4      47 ..      32      75 ..      29      86 .. 0.84
   2 ?    0.6   0.1      0.71   5.1e+02       4      19 ..     315     330 ..     313     345 .. 0.85
   3 ?   -1.0   0.0       2.2   1.6e+03      32      47 ..     504     519 ..     487     597 .. 0.72

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0062
                             EE--SSSSHHHHHHHGGGGBS--EEEEE--TT--HHHHH--B-- CS
                    AAA_5  4 LvGppGtgKselaerlaaalnreveyvqltrdtteedlkgrrei 47
                             LvG  G+gKs+l + ++  l     ++ ++++++   l +++++
  PHY93_05365|PHY93_05365 32 LVGRNGSGKSTLFKLILGELSVDSGEITIPKGYRLGALEQHIHF 75
                             9***************9999888888888888888888887776 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.71
                              EE--SSSSHHHHHHHG CS
                    AAA_5   4 LvGppGtgKselaerl 19 
                              ++G+ G gKs+l   +
  PHY93_05365|PHY93_05365 315 IIGKNGKGKSTLLNVI 330
                              69*********98765 PP

  == domain 3  score: -1.0 bits;  conditional E-value: 2.2
                              --TT--HHHHH--B-- CS
                    AAA_5  32 ltrdtteedlkgrrei 47 
                              ++r++te+++k+rr  
  PHY93_05365|PHY93_05365 504 GKRKLTEKEIKQRRAE 519
                              6778888888888763 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.6   0.1    0.0059       4.2      10      38 ..      32      71 ..      27     177 .. 0.59
   2 ?    1.7   0.3       0.4   2.9e+02      10      23 ..     315     328 ..     309     444 .. 0.88

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.0059
                   AAA_22 10 vtGesGtGKTtllrrlleqldeeakaee...........e 38
                             ++G  G+GK+tl + +l +l  ++   +           +
  PHY93_05365|PHY93_05365 32 LVGRNGSGKSTLFKLILGELSVDSGEITipkgyrlgaleQ 71
                             79************99999865443333555655555551 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.4
                   AAA_22  10 vtGesGtGKTtllr 23 
                              ++G  G GK+tll+
  PHY93_05365|PHY93_05365 315 IIGKNGKGKSTLLN 328
                              8999*******987 PP

>> DUF87  Helicase HerA, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1   0.00036      0.26      24      48 ..      28      52 ..      23      60 .. 0.85
   2 ?    3.0   0.9      0.13        94     119     199 ..     180     257 ..     166     275 .. 0.68
   3 ?    5.1   0.0      0.03        21      25      43 ..     312     330 ..     308     331 .. 0.91
   4 ?   -0.2   0.0       1.3   9.1e+02     175     210 ..     424     459 ..     359     473 .. 0.68
   5 ?   -1.9   2.6         4   2.9e+03     110     200 ..     498     592 ..     477     600 .. 0.51

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00036
                    DUF87 24 rHlAilgsTGsGKSntvavLleell 48
                             ++++ +g+ GsGKS++ +++l el 
  PHY93_05365|PHY93_05365 28 ERVGLVGRNGSGKSTLFKLILGELS 52
                             57899*****************998 PP

  == domain 2  score: 3.0 bits;  conditional E-value: 0.13
                    DUF87 119 svleealdqakakeekeklssdepveklleelkkekeelrklknqaiarlldkledllrkggsfsnsstdliallleklek 199
                              +v+  ++  ++++ +k k ++ ++ e++l++ + + e+ r++ ++ ++++++ +e+++ k ++  ++ ++ ++ l +k + 
  PHY93_05365|PHY93_05365 180 DVVTHTMGLHRQQLKKIKGDTSKFYEQILQDEE-MYEKTRENLDKKRKEMEAFVERFKAKASKA-AQAQSRMKAL-QKMST 257
                              555555555555777777778888888888888.778999999999999999999999999888.4444444444.33333 PP

  == domain 3  score: 5.1 bits;  conditional E-value: 0.03
                    DUF87  25 HlAilgsTGsGKSntvavL 43 
                              +++i+g+ G GKS++  v+
  PHY93_05365|PHY93_05365 312 RIGIIGKNGKGKSTLLNVI 330
                              789************9987 PP

  == domain 4  score: -0.2 bits;  conditional E-value: 1.3
                    DUF87 175 llrkggsfsnsstdliallleklekegkitiidlsg 210
                              ll+++ + + +++++++l++e+ + +g+++i+  s+
  PHY93_05365|PHY93_05365 424 LLLDEPTNHLDMESIESLTEEIGSFPGAVVIVTHSE 459
                              333333447889999999999999999999987776 PP

  == domain 5  score: -1.9 bits;  conditional E-value: 4
                    DUF87 110 dkpaaavqrsvleealdqaka....keekeklssdepveklleelkkekeelrklknqaiarlldkledllrkggsfsnsstdlia 191
                              +kp+ + +r++ e+ ++q +a    ++ k     +e +e +++e+ k ++ l +++ +++++ +++ +  l+++ +   + ++li+
  PHY93_05365|PHY93_05365 498 NKPNKTGKRKLTEKEIKQRRAeiavERAKICKPMKEEIEISENEITKNENLLLRINAELEKAAISQDSAKLNDYTHAVGKLNQLIE 583
                              45555555555555555555533332222222223333334444443333444444444444444444444444444566677777 PP

                    DUF87 192 lllekleke 200
                              +l+ekl++ 
  PHY93_05365|PHY93_05365 584 NLFEKLTNA 592
                              777777665 PP

>> Exonuc_VII_L  Exonuclease VII, large subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   0.3    0.0017       1.2     158     261 ..     180     254 ..     150     292 .. 0.54
   2 ?    4.2   1.4     0.038        28     169     236 ..     518     593 ..     451     607 .. 0.42

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.0017
             Exonuc_VII_L 158 kaikrlleekkqrleklasrlkspeellerkrqrldeleerleralkkq......lkkkrerleelkerlkekleekkerlkklke 237
                              + +++++  ++q+l+k++ + ++  e++ ++++ +++++e+l+++ k+       +k+k+++  ++++r+                
  PHY93_05365|PHY93_05365 180 DVVTHTMGLHRQQLKKIKGDTSKFYEQILQDEEMYEKTRENLDKKRKEMeafverFKAKASKAAQAQSRM---------------- 249
                              4444555555555555554444333333333333333333333311111111111333333333333222................ PP

             Exonuc_VII_L 238 rlelleekkerleeleeklealsp 261
                                                 +al+ 
  PHY93_05365|PHY93_05365 250 -------------------KALQK 254
                              ...................22222 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.038
             Exonuc_VII_L 169 qrleklasrl....kspeellerkrqrldeleerleralkkq.lkkkrerleelkerl.k..ekleekkerlkklk 236
                              +++   + ++    k+  e+ e++  + ++l  r++++l+k+ +++ +++l+ +++++ k  + +e+  e+l++ +
  PHY93_05365|PHY93_05365 518 AEIAVERAKIckpmKEEIEISENEITKNENLLLRINAELEKAaISQDSAKLNDYTHAVgKlnQLIENLFEKLTNAN 593
                              1111111111111111111222222222222222222222112344444444444333222222222222222222 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.6   0.0     0.012       8.3       4      23 ..      32      51 ..      30      62 .. 0.85
   2 ?    1.0   0.1       0.6   4.3e+02       4      16 ..     315     327 ..     313     330 .. 0.88
   3 ?   -0.1   0.1       1.3   9.5e+02      28      69 ..     550     592 ..     537     596 .. 0.69

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.012
                   AAA_33  4 lvGlpGsGKstlaerllkkl 23
                             lvG +GsGKstl + +l +l
  PHY93_05365|PHY93_05365 32 LVGRNGSGKSTLFKLILGEL 51
                             79**********99887665 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.6
                   AAA_33   4 lvGlpGsGKstla 16 
                              ++G +G GKstl+
  PHY93_05365|PHY93_05365 315 IIGKNGKGKSTLL 327
                              68*********97 PP

  == domain 3  score: -0.1 bits;  conditional E-value: 1.3
                   AAA_33  28 lssdtlrrrlfg.tdqqsktdytrvldrlyqilnelarkalsa 69 
                              l+ ++++++ +  +d  +++dyt++  +l+q +++l++k   a
  PHY93_05365|PHY93_05365 550 LRINAELEKAAIsQDSAKLNDYTHAVGKLNQLIENLFEKLTNA 592
                              44444444333326677889************99999887665 PP

>> Laminin_II  Laminin Domain II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.8   0.6      0.15   1.1e+02      27      66 ..     215     254 ..     187     268 .. 0.56
   2 ?    8.7   3.7    0.0023       1.7      10      80 ..     519     594 ..     511     602 .. 0.73

  Alignments for each domain:
  == domain 1  score: 2.8 bits;  conditional E-value: 0.15
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX-- CS
               Laminin_II  27 entkeklseinrsveetnekvkdankairdArrsvkkLek 66 
                              e+t+e+l + ++++e   e  k++    ++A++ +k L+k
  PHY93_05365|PHY93_05365 215 EKTRENLDKKRKEMEAFVERFKAKASKAAQAQSRMKALQK 254
                              4455555555555555555555444444555555555444 PP

  == domain 2  score: 8.7 bits;  conditional E-value: 0.0023
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.....XXXXXXXXXXXXXXXX--TTTTTGGGHHHHHH CS
               Laminin_II  10 etakevleqlaplsqnlentkeklseinrsveetnekvk.....dankairdArrsvkkLeklapqLldklkelkq 80 
                              e+a+e  ++ +p+++++e  ++++ + ++ + ++n++++     + +  ++d  ++v kL++l+++L++kl + ++
  PHY93_05365|PHY93_05365 519 EIAVERAKICKPMKEEIEISENEITKNENLLLRINAELEkaaisQDSAKLNDYTHAVGKLNQLIENLFEKLTNANE 594
                              566666677777777777777777666666666666555333338888999999****************987665 PP

>> DUF4110  Domain of unknown function (DUF4110)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   1.0       5.4   3.9e+03      45      47 ..     225     227 ..     190     257 .. 0.56
   2 ?   12.5   3.6   0.00016      0.12      20      80 ..     480     546 ..     476     560 .. 0.75

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 5.4
                  DUF4110  45 eKe 47 
                               Ke
  PHY93_05365|PHY93_05365 225 RKE 227
                              222 PP

  == domain 2  score: 12.5 bits;  conditional E-value: 0.00016
                  DUF4110  20 faRTseeWqelaieslkekgaek.....kseKelkkeafelAeerywelrpvLeelralede.qeea 80 
                              f+ T +e++e++  + +e++ +k      +eKe+k++  e+A er + ++p+ ee+++ e+e  +++
  PHY93_05365|PHY93_05365 480 FNGTYDEFLEKIGWESEENKPNKtgkrkLTEKEIKQRRAEIAVERAKICKPMKEEIEISENEiTKNE 546
                              66677777776654444433333456779*******************************9964444 PP

>> DUF16  Protein of unknown function DUF16
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   3.2    0.0025       1.8      11      96 ..     162     256 ..     157     263 .. 0.81
   2 ?    2.6   4.3      0.26   1.9e+02      20     102 ..     508     599 ..     486     605 .. 0.56

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.0025
                              XX.X.XTTB-BHHHHHHB-..........BHHHHHHHHHHHH...HHHHHHHHHHHHHHHHHHHHHHHHHHHHH..........HH CS
                    DUF16  11 KkiPvkteYVTrkqlnefkds........nkqrLkkieakvdklgeqinkleqkvekqgekikelkveqkaqgeeln...kvdetl 85 
                              K++P++   +T+    ef d+          q+Lkki+   +k  eqi + e+  ek  e++++ ++e++a  e+++   +     
  PHY93_05365|PHY93_05365 162 KNFPGEIMLITHD--REFMDDvvthtmglHRQQLKKIKGDTSKFYEQILQDEEMYEKTRENLDKKRKEMEAFVERFKakaSKAAQA 245
                              5666666667775..3677777778888899*******************************************999766455566 PP

                              HHHHHHHHHHH CS
                    DUF16  86 eliletLqkin 96 
                              ++ +++Lqk++
  PHY93_05365|PHY93_05365 246 QSRMKALQKMS 256
                              77778888876 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.26
                              -BHHHHHHB-.............BHHHHHHHHHHHH...HHHHHHHHHHHHHHHHHHHHHHHHHHHHH.......HHHHHHHHHHH CS
                    DUF16  20 VTrkqlnefkds...........nkqrLkkieakvdklgeqinkleqkvekqgekikelkveqkaqgeelnkvdetleliletLqk 94 
                               T k++++ + +            k++++ +e++++k+++ + +++ + ek  + i++ +++ +   +++ k+++ +e + e L++
  PHY93_05365|PHY93_05365 508 LTEKEIKQRRAEiaverakickpMKEEIEISENEITKNENLLLRINAELEK--AAISQDSAKLNDYTHAVGKLNQLIENLFEKLTN 591
                              555666554444445444555555666666666666555554444433333..344444444444555555666666666666666 PP

                              HHHHHHHH CS
                    DUF16  95 inkRlDsi 102
                               n+ lD i
  PHY93_05365|PHY93_05365 592 ANESLDFI 599
                              66666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (608 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1993  (0.111161); expected 358.6 (0.02)
Passed bias filter:                      791  (0.0441185); expected 358.6 (0.02)
Passed Vit filter:                       125  (0.00697194); expected 17.9 (0.001)
Passed Fwd filter:                        31  (0.00172904); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              25  [number of targets reported over threshold]
# CPU time: 0.87u 0.29s 00:00:01.15 Elapsed: 00:00:00.46
# Mc/sec: 3996.67
//
Query:       PHY93_06230|PHY93_06230  [L=382]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    9.7e-06   25.5   0.2    1.2e-05   25.2   0.2    1.5  1  Peptidase_M10  Matrixin
    0.00043   20.0   0.1     0.0012   18.5   0.0    1.8  2  Reprolysin_4   Metallo-peptidase family M12B Reprolysin-like
     0.0036   17.2   0.0     0.0069   16.3   0.0    1.4  1  Peptidase_M43  Pregnancy-associated plasma protein-A
     0.0038   16.5   0.1      0.008   15.4   0.1    1.5  1  DUF4953        Met-zincin
     0.0054   17.3   0.0      0.013   16.0   0.0    1.7  1  Reprolysin_3   Metallo-peptidase family M12B Reprolysin-like
  ------ inclusion threshold ------
      0.041   14.0   0.0      0.082   13.1   0.0    1.5  1  Reprolysin_5   Metallo-peptidase family M12
      0.059   13.5   0.0       0.14   12.3   0.0    1.6  1  Peptidase_M7   Streptomyces extracellular neutral proteinase 
       0.15   11.7   0.1       0.68    9.5   0.0    2.0  2  Astacin        Astacin (Peptidase family M12A)


Domain annotation for each model (and alignments):
>> Peptidase_M10  Matrixin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.2   0.2   5.5e-09   1.2e-05      74     157 ..     301     380 ..     112     381 .. 0.83

  Alignments for each domain:
  == domain 1  score: 25.2 bits;  conditional E-value: 5.5e-09
                              SEEEBSSSSTTTTEEEEETTS-EESSTS-.SSSEEHHHHHHHHHHHHTTBESXSSTTSTTSSSCTXTTTXSSXHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M10  74 lahafapgeglggdihfdddeqWtlgeekveqgvslflVaaHEiGHalGLeHssdkdalmyplykeekkvrlskdDvkgiqelY 157
                              ++ +f  g+ +++di +   e+ ++g+ + e+  sl+   aHE+GH+lGL+H  + +  ++++++ +    +++ D +++ +lY
  PHY93_06230|PHY93_06230 301 IGDTFQ-GKLVDSDIIIWVKENEKTGQ-TLEERSSLQKTIAHEFGHVLGLDHQFSDG--LASIMSYDGISWVTSYDQDAVGQLY 380
                              444444.34444444444444444443.3488999*****************77666..5555554455566777777777777 PP

>> Reprolysin_4  Metallo-peptidase family M12B Reprolysin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.0       2.5   5.6e+03     161     179 ..     281     299 ..     272     306 .. 0.65
   2 !   18.5   0.0   5.4e-07    0.0012     131     157 ..     330     356 ..     313     378 .. 0.71

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 2.5
             Reprolysin_4 161 sskteegsgqtIMsyasea 179
                                ++++  g+ +M+++ ++
  PHY93_06230|PHY93_06230 281 VNNYQTLPGDNVMNPGTTY 299
                              4556677788888888776 PP

  == domain 2  score: 18.5 bits;  conditional E-value: 5.4e-07
             Reprolysin_4 131 asrdey.difAHEiGHtfGaaHdlsdeg 157
                              + r+   +++AHE GH +G++H+ sd+ 
  PHY93_06230|PHY93_06230 330 E-RSSLqKTIAHEFGHVLGLDHQFSDGL 356
                              3.5555267***************9754 PP

>> Peptidase_M43  Pregnancy-associated plasma protein-A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0   3.1e-06    0.0069      66      90 ..     332     356 ..     319     377 .. 0.78

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 3.1e-06
            Peptidase_M43  66 tnksstLthelGhfLgLihtfeggC 90 
                              +  + t++he+Gh LgL h f  g 
  PHY93_06230|PHY93_06230 332 SSLQKTIAHEFGHVLGLDHQFSDGL 356
                              4567899**************9884 PP

>> DUF4953  Met-zincin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.1   3.6e-06     0.008      12      31 ..     333     352 ..     324     362 .. 0.90

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 3.6e-06
                  DUF4953  12 llrfvvaHEvGhtLGLrhNf 31 
                               l+  +aHE Gh+LGL+h f
  PHY93_06230|PHY93_06230 333 SLQKTIAHEFGHVLGLDHQF 352
                              68999*************98 PP

>> Reprolysin_3  Metallo-peptidase family M12B Reprolysin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.0   5.8e-06     0.013      90     124 .]     320     351 ..     297     351 .. 0.77

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 5.8e-06
             Reprolysin_3  90 sskkagvnsgssvlgkvgadtvaHEiGHnfganHt 124
                              +++k+g++ ++   +++ ++t+aHE GH +g++H+
  PHY93_06230|PHY93_06230 320 ENEKTGQTLEE---RSSLQKTIAHEFGHVLGLDHQ 351
                              44444555555...345679**************5 PP

>> Reprolysin_5  Metallo-peptidase family M12
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   3.7e-05     0.082     141     163 ..     333     355 ..     299     376 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 3.7e-05
             Reprolysin_5 141 tevqvvaHElGHnfGavHDcdss 163
                              +  +++aHE+GH +G  H + + 
  PHY93_06230|PHY93_06230 333 SLQKTIAHEFGHVLGLDHQFSDG 355
                              45689*************98865 PP

>> Peptidase_M7  Streptomyces extracellular neutral proteinase (M7) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   6.2e-05      0.14      80     108 ..     336     364 ..     326     376 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 6.2e-05
             Peptidase_M7  80 rvtahetghvlglpdtysgpcselmsggg 108
                              +  ahe ghvlgl  ++s   + +ms  g
  PHY93_06230|PHY93_06230 336 KTIAHEFGHVLGLDHQFSDGLASIMSYDG 364
                              5679*********************9877 PP

>> Astacin  Astacin (Peptidase family M12A)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.0       0.8   1.8e+03     130     149 ..     150     168 ..     141     181 .. 0.74
   2 ?    9.5   0.0    0.0003      0.68      75      97 ..     330     352 ..     317     354 .. 0.80

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 0.8
                              E-TT----TT-TTS--TTTT CS
                  Astacin 130 dslgvpYdygSimhYakkaf 149
                              ++ g  Yd++Si hY+ k+ 
  PHY93_06230|PHY93_06230 150 TNSGGIYDLKSI-HYSVKKT 168
                              567788*****8.8876554 PP

  == domain 2  score: 9.5 bits;  conditional E-value: 0.0003
                              CCC-SHHHHHHHHHHHHTB--GG CS
                  Astacin  75 kgCeklgiivHElmHalGffHeq 97 
                              +      +i+HE++H+lG+ H+ 
  PHY93_06230|PHY93_06230 330 ERSSLQKTIAHEFGHVLGLDHQF 352
                              55556679*************85 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (382 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       564  (0.0314574); expected 358.6 (0.02)
Passed bias filter:                      474  (0.0264376); expected 358.6 (0.02)
Passed Vit filter:                        60  (0.00334653); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.42
# Mc/sec: 2728.99
//
Query:       PHY93_06235|PHY93_06235  [L=269]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.1e-65  219.1   0.0    6.8e-65  219.0   0.0    1.0  1  TatD_DNase    TatD related DNase
  ------ inclusion threshold ------
      0.011   15.5   0.0        0.5   10.1   0.0    2.2  2  Amidohydro_2  Amidohydrolase


Domain annotation for each model (and alignments):
>> TatD_DNase  TatD related DNase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  219.0   0.0   7.6e-69   6.8e-65       2     254 ..      17     269 .]      16     269 .] 0.95

  Alignments for each domain:
  == domain 1  score: 219.0 bits;  conditional E-value: 7.6e-69
                              EEEE-TTS.CCCTTTHHHHHHHHHHTTEEEEEEE-SSGGGHHHHHHHHTT.TTTEEEEE---GGGGGCC.CCHH.HHHHHH.HHCC CS
               TatD_DNase   2 DaHcHlds.kefeedreeileraeeagvaavvvvgtsskdskavlelakkypnkvyavlGiHPnevdeasedll.eelkel.anvk 84 
                               +H Hld  k++  +r+e++++ +  +++++++++tss + ++v+ +++++p+ +y++ G+HP+e  e+++d+  + l++l    k
  PHY93_06235|PHY93_06235  17 ETHFHLDMlKSM--SRAEVVAKTRLHNIEKMITISTSSDNLDEVISISETFPE-IYCTQGLHPHEGSEWNDDVKaHVLRNLaDPKK 99 
                              58******6665..999***********************************9.***************99999555577766689 PP

                              CTSEEEEEEEEEET-CCCCCGHHHHHHHHHHHHHHHHHTTEEEEEEEES-HHHHHHHHHHCG.GCCSEEEETT--S-HHHHHHHHH CS
               TatD_DNase  85 hskvvaiGeiGLDyysreestkeaqeevFeeqlrlAkelklplviHlrkaeedlleilkeaa.eakakvvlHsfsgsaeeakkflk 169
                              ++k+va+GeiGLD+y++ +s++++q ++Feeql++A +++lp+viH+r+a+ d++++lk++    k k+v+Hsf++  e a+ +l+
  PHY93_06235|PHY93_06235 100 NKKIVAVGEIGLDFYYS-KSPRDEQLKAFEEQLQIAVDHNLPVVIHSRDADVDTIAVLKNFStTLKRKGVIHSFTSGLELARFALN 184
                              **************766.5******************************************954444******************* PP

                              TTEEEEE-GGGGTTTTHHHHHHHHHS-GGGEEE---TTSSEECCCTTSE--GGGHHHHHHHHHHHHTS-HHHHHHHHHHHHHHHH CS
               TatD_DNase 170 lgyyislsglltfknakelrelvkavpldrlLiETDaPyltpkpyrgkrnepanvayvveklaelkaltleelaeitaeNakrlf 254
                               ++ ++++g++tfkna+++r++++  pl+++L+ETD+P+ltp+pyrg +n p +++ ++ek+ae+k+++l+++ +i+++N+ +lf
  PHY93_06235|PHY93_06235 185 ENFCLGYNGIITFKNAENVRDALRITPLEKILLETDSPFLTPDPYRGFENAPYYLPFIAEKIAEIKGVNLDTILKICYKNSIELF 269
                              *********************************************************************************9998 PP

>> Amidohydro_2  Amidohydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.0    0.0055        49     122     148 ..     117     144 ..      56     164 .. 0.80
   2 ?   10.1   0.0   5.6e-05       0.5     231     289 ..     201     269 .]     194     269 .] 0.76

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.0055
                              TCCTTTCGGH.HHHHHHHHHHT-EEEEE CS
             Amidohydro_2 122 gddllgdrld.rpifealeelglpvdih 148
                               ++++++     + ++++++++lpv ih
  PHY93_06235|PHY93_06235 117 KSPRDEQLKAfEEQLQIAVDHNLPVVIH 144
                              4444444444557788************ PP

  == domain 2  score: 10.1 bits;  conditional E-value: 5.6e-05
                              HHHHHHHHHH-GGGEEEE--BTSTTSTSCTTHHH.HCHHHHH.........SSHHHHHHHHTHHHHHHC CS
             Amidohydro_2 231 palarlieavgpdrilfGsDyPhptleaepeala.lldlval.........lsdeerekilggNAarly 289
                              + ++ ++ +++ ++il  +D P+ t++ ++++     +l+++            +   ki+++N  +l+
  PHY93_06235|PHY93_06235 201 ENVRDALRITPLEKILLETDSPFLTPDPYRGFENaPYYLPFIaekiaeikgVNLDTILKICYKNSIELF 269
                              568999********************6665544424555555778888888788888888888877776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (269 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       408  (0.0227564); expected 358.6 (0.02)
Passed bias filter:                      343  (0.019131); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1976.27
//
Query:       PHY93_06240|PHY93_06240  [L=376]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.1e-22   78.1  12.9    1.2e-21   77.2  12.9    1.5  1  VKOR           Vitamin K epoxide reductase family
      1e-18   68.0   0.2    2.3e-18   66.9   0.2    1.5  1  Thioredoxin_4  Thioredoxin
     0.0002   21.8   0.2     0.0053   17.2   0.2    2.5  1  Thioredoxin_2  Thioredoxin-like domain
    0.00039   20.3   0.2       0.29   10.9   0.2    2.4  2  DSBA           DSBA-like thioredoxin domain
  ------ inclusion threshold ------
       0.05   13.7   0.0        5.4    7.1   0.0    2.5  2  Thioredoxin_3  Thioredoxin domain
       0.22   11.9   4.1       0.51   10.7   4.1    1.7  1  CRCB           CrcB-like protein, Camphor Resistance (CrcB)
        1.3    7.3  10.7        2.1    6.6  10.7    1.2  1  DUF2070        Predicted membrane protein (DUF2070)
        2.1    8.6   4.2        4.8    7.5   1.3    2.4  2  DUF423         Protein of unknown function (DUF423)
        9.5    5.9  14.1         23    4.6  14.1    1.7  1  Tetraspanin    Tetraspanin family


Domain annotation for each model (and alignments):
>> VKOR  Vitamin K epoxide reductase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.2  12.9   5.9e-25   1.2e-21       2     121 ..      17     142 ..      16     145 .. 0.91

  Alignments for each domain:
  == domain 1  score: 77.2 bits;  conditional E-value: 5.9e-25
                              HHHHHHHHHHHHHHHHHHHHH......HT---SS-SSSS...HHHHHCSTTSEETTEEHHHHHHHHHHHHHHHHHS-...HHHHHH CS
                     VKOR   2 lllvlalvGllvsiyltleklglk...tsssaalCdiss.vsCdkvlnSpyasilgvplsllGllayalvlllalapl..lwllll 81 
                              +l++l+++++ +s+ylt ++++lk     +s++lC++++ ++Cdk++ S +++ilgvpl+l+G++  +lv++ +++ +  +  +++
  PHY93_06240|PHY93_06240  17 ILFILSALMIGFSVYLTQHYFDLKfptGLESKSLCNVNQfFNCDKTTLSLFGNILGVPLALFGVMIGLLVMVGLIVKNenYERTIY 102
                              899**********************964455569*******************************999999888888899888899 PP

                              HHHHHHHHHHHHHHHHHHTTS----HHHHHHHHHHHHHHH CS
                     VKOR  82 lgslagvvfslyLiylslfvigalCpyClvsavlsllllv 121
                              ++++++++++++L+ +slfv++ lCp+C++++++s ++ +
  PHY93_06240|PHY93_06240 103 FTLAVNFIGCIVLFSYSLFVLKGLCPFCTLYYIVSGIIYL 142
                              9999******************************977765 PP

>> Thioredoxin_4  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.9   0.2   1.1e-21   2.3e-18      11     165 ..     215     370 ..     211     371 .. 0.86

  Alignments for each domain:
  == domain 1  score: 66.9 bits;  conditional E-value: 1.1e-21
                              TT-SEEEEEEE-TT-HHHHHHHHHHHHHHHHHHHTTSEEEEEEE-............---STTTHHHHHHHTT--TTHHHHHHHHH CS
            Thioredoxin_4  11 pdApvtvieyedlrCphCakfeeeveklleeyidtGkvkfiirdf..........pldkekeslkaamaarcageespeaflaika 86 
                              ++Ap+ +++++d++Cp C+ ++e +  + ++y  +Gk+ + +  +            + ++++ ka+ +a+c+++++   f+++++
  PHY93_06240|PHY93_06240 215 ENAPIRMVIFSDFECPACKGLSELMPLIASRY--NGKIDIQYFFYpldnscnpsmQRPLHQYACKASYVASCMPKQD---FAKVHD 295
                              89******************************..**7777766663366666543222234789**********998...999999 PP

                              HHHTHHHHTTS-HHHHH.....HHHHHTS-------HHHHHHHHHHHHHHT--SS-EEEETTEEE-TT--HHHHHHHHT CS
            Thioredoxin_4  87 llysqqeewaeslkelaaealdkdekfeacleeekldalveaeskeakkagiestPtfiingekveepqtyeelkalid 165
                               ++++q+++++    l+  +  k  k+e+c++++k +++v+   + a+  +i stP+ +ing k+e+  + +++ a+ d
  PHY93_06240|PHY93_06240 296 EIFQNQDKFEAG--FLD--QYIKTNKLETCVADPKTKEKVVSLITAADPFNIRSTPSYLINGVKIEGGLPADQMYAIMD 370
                              899999999999..444..6789999***********************************************999887 PP

>> Thioredoxin_2  Thioredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.2   2.7e-06    0.0053       5     108 ..     217     368 ..     213     369 .. 0.74

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 2.7e-06
            Thioredoxin_2   5 gkpvlvvftdpdCpyCkklkkelkel.....ddvtvrvllfplkpsfepkavaiwcakekk..........kafkd.......... 65 
                                  +v+f+d +Cp Ck l + +  +      ++ + ++++pl++s++p +++  ++   k          ++f +          
  PHY93_06240|PHY93_06240 217 APIRMVIFSDFECPACKGLSELMPLIasrynGKIDIQYFFYPLDNSCNPSMQRPLHQYACKasyvascmpkQDFAKvhdeifqnqd 302
                              55669**************9988888999988999999999955555555544333332221222444444233337778888899 PP

            Thioredoxin_2  66 ............................ieenvelarkygvrgtPtivfldgkeivarlpGyvpaeeleal 108
                                                          + +    a+ +++r+tP+ + ++g     +++G +pa+++ a+
  PHY93_06240|PHY93_06240 303 kfeagfldqyiktnkletcvadpktkekVVSLITAADPFNIRSTPSYL-INGV----KIEGGLPADQMYAI 368
                              9999999999999**********9988877777888889******975.5677....69999999999876 PP

>> DSBA  DSBA-like thioredoxin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.9   0.2   0.00015      0.29       3      62 ..     222     282 ..     220     293 .. 0.84
   2 !    7.0   0.0    0.0023       4.6     131     188 ..     309     365 ..     290     370 .. 0.84

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00015
                              EEEEBTTBHHHHHHHHHHHHHHHHCCT.EEEEEEE-SSSCHHHHCT.S.GGGSHHHHHHHH CS
                     DSBA   3 deffDvlCPyCylgkerleklaarspd.vkvvlrpfelagakkasgnvgpselpeklkyll 62 
                              ++f+D+ CP C+  +e ++ +a+r+++ + +++  ++l+ +  +s   ++ + + k  y++
  PHY93_06240|PHY93_06240 222 VIFSDFECPACKGLSELMPLIASRYNGkIDIQYFFYPLDNSCNPSMQRPLHQYACKASYVA 282
                              69***********************556*****9999999988777777777666766665 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.0023
                              HHTTS.HHHHHHHHTSHHHHHHHHHHHHHHHHTT-SSSSEEEETTCEEEESSSSHHHH CS
                     DSBA 131 ekaGldaeeldealeseavkeavrentaaaqslgvtGvPtvvvdgkrmvfGadrldtl 188
                               +  +++++l++ +++++ ke+v     aa   +++ +P ++++g   + G  + d++
  PHY93_06240|PHY93_06240 309 LDQYIKTNKLETCVADPKTKEKVVSLITAADPFNIRSTPSYLINGV-KIEGGLPADQM 365
                              5556788999***********************************9.88888777765 PP

>> Thioredoxin_3  Thioredoxin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   0.0     0.029        58       9      34 ..     228     253 ..     220     259 .. 0.84
   2 ?    7.1   0.0    0.0027       5.4      39      67 ..     335     362 ..     308     370 .. 0.76

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.029
                              SSTTCHHHHHHHHHHCHCCTCECEEE CS
            Thioredoxin_3   9 gCakCpklekavkeaaaekgikaeve 34 
                               C+ C+ l++++  +a + + k++++
  PHY93_06240|PHY93_06240 228 ECPACKGLSELMPLIASRYNGKIDIQ 253
                              6*****************99988876 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0027
                              HHHHHHCT-SSSSEEECTTCEEEESS--- CS
            Thioredoxin_3  39 feeiekygVmsvPalvidgkvvvsGkvps 67 
                              +   + ++++s+P+ +i+g v+++G +p 
  PHY93_06240|PHY93_06240 335 ITAADPFNIRSTPSYLING-VKIEGGLPA 362
                              4455789***********9.677776775 PP

>> CRCB  CrcB-like protein, Camphor Resistance (CrcB)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   4.1   0.00026      0.51       5      52 ..      78     128 ..      70     171 .. 0.74

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00026
                              HHHHHHHHHHHHH.HHHHBE......BHHHHHHHHHHHHHHHHHHHHHTTTHHH CS
                     CRCB   5 lggalGallRyllssllnkr......plgtlavNvlGsfllglllallttGflG 52 
                              +g ++G l+ ++l  ++ k+      ++ tlavN++G+++l     ++  G++ 
  PHY93_06240|PHY93_06240  78 FGVMIGLLVMVGL--IV-KNenyertIYFTLAVNFIGCIVLFSYSLFVLKGLCP 128
                              4445566555555..22.22468888779************9999999999995 PP

>> DUF2070  Predicted membrane protein (DUF2070)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.6  10.7     0.001       2.1      11     172 ..       9     169 ..       2     192 .. 0.51

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.001
                  DUF2070  11 lPswkvsllliillalligllaflssk...........................lfgillfglpalvaflltlpvlrilggrltyk 69 
                                ++k+s++l il al+ig+ ++l ++                                                           
  PHY93_06240|PHY93_06240   9 DKKLKTSIILFILSALMIGFSVYLTQHyfdlkfptgleskslcnvnqffncdktT------------------------------- 63 
                              5678899999999999999999998875555555555555555555555555440............................... PP

                  DUF2070  70 rslflalltelivviisllaillsallqalvllalvls.......lalvfalrllvlvavsdesllkav....lpaliqpllaill 144
                                  l+l+ +++ v + l+++++ +    lv+  l+++       + +++a++++  ++++++sl+       + +l + +++i++
  PHY93_06240|PHY93_06240  64 ----LSLFGNILGVPLALFGVMIGL----LVMVGLIVKnenyertIYFTLAVNFIGCIVLFSYSLFVLKglcpFCTLYYIVSGIIY 141
                              ....555555554444444444443....234444444444444455555555555555555555544422222223333333333 PP

                  DUF2070 145 lvlyfspesfllllllslifalavylfi 172
                              l+++ ++ +++++  ++++fa++v+++ 
  PHY93_06240|PHY93_06240 142 LFFIRKSRTIIPAPGYLALFAVIVIVIS 169
                              3333334444444444444444433333 PP

>> DUF423  Protein of unknown function (DUF423)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.1       0.2   3.9e+02      46      73 ..       7      34 ..       1      43 [. 0.84
   2 ?    7.5   1.3    0.0024       4.8      35      72 ..      85     123 ..      76     150 .. 0.78

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.2
                   DUF423 46 aasrllklagllflaGivlFSgslylla 73
                              + ++lk++ +lf++ +++  +s+yl++
  PHY93_06240|PHY93_06240  7 YQDKKLKTSIILFILSALMIGFSVYLTQ 34
                             467899999**********999999875 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0024
                   DUF423  35 llavalla.skaaasrllklagllflaGivlFSgslyll 72 
                              l++v+l++ +++ +++++ + ++ f+  ivlFS sl++l
  PHY93_06240|PHY93_06240  85 LVMVGLIVkNENYERTIYFTLAVNFIGCIVLFSYSLFVL 123
                              566777764444445555555777888899******998 PP

>> Tetraspanin  Tetraspanin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6  14.1     0.011        23       8     103 ..      14     123 ..      12     200 .. 0.84

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.011
                              XXXXXXXXXXXXXXXXXXXXX................XXX.....................XXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxx................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Tetraspanin   8 fnllfwligivllavGvwlrl................khaeaalacllsesaedpailaillivvGvllfllgflGcigalkenkc 77 
                              ++++++++++++++++v+l+                 ++  + ++c++++ +   +il ++l ++Gv++ ll ++G+i   k+ + 
  PHY93_06240|PHY93_06240  14 TSIILFILSALMIGFSVYLTQhyfdlkfptgleskslCNVNQFFNCDKTTLSLFGNILGVPLALFGVMIGLLVMVGLIV--KNENY 97 
                              5799***************889********9999999777788999999999999999999999999999999999665..66666 PP

                              XXXXXXXXXXXXXXXXXXXXXXXX-- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Tetraspanin  78 llltfsllllvlfllelaagilgfvf 103
                                +++++l + ++ + + +   +fv+
  PHY93_06240|PHY93_06240  98 ERTIYFTLAVNFIGCIVLFSYSLFVL 123
                              77777776666666666666666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (376 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       943  (0.0525964); expected 358.6 (0.02)
Passed bias filter:                      531  (0.0296168); expected 358.6 (0.02)
Passed Vit filter:                        60  (0.00334653); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.63u 0.22s 00:00:00.85 Elapsed: 00:00:00.42
# Mc/sec: 2666.81
//
Query:       PHY93_06245|PHY93_06245  [L=191]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    9.4e-33  113.7   0.0    1.2e-32  113.4   0.0    1.1  1  Cu-oxidase_4  Multi-copper polyphenol oxidoreductase laccase


Domain annotation for each model (and alignments):
>> Cu-oxidase_4  Multi-copper polyphenol oxidoreductase laccase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  113.4   0.0   6.6e-37   1.2e-32      42     223 ..      27     184 ..      10     190 .. 0.83

  Alignments for each domain:
  == domain 1  score: 113.4 bits;  conditional E-value: 6.6e-37
                              GEEE-B--SS--EEE-EE--GGCSSSS..B..-SEEEESSTTSEEEEEESSSEEEEEEETTSSEEEEEEE-HHHHHHTHHHHHH.H CS
             Cu-oxidase_4  42 rlvlleqvHgtevvvvaeeaaakgsaeeeeleaDalvtdepgvalavltADCvPvlladpkgkvvaaaHaGwrGlvagvlektv.e 126
                              +l+ ++q+H++ v  ++e       ++++eleaD++v d     +a+ltADC+P+ll  +  k+ a +HaGwrGl +++l++ + +
  PHY93_06245|PHY93_06245  27 DLIRVKQTHSAIV--LNE-------KKANELEADGIVGDSV-SPIAILTADCLPILLLGE--KAHAFVHAGWRGLHNEILRNDLiK 100
                              578899****999..332.......2234477*****9766.5999***********988..56799*************985414 PP

                              HHCSTT--GGGEEEEE-SB--TTT-EEEHHHHHHHHHHSGGGGEEEEETTEEEE-HHHHHHHHHHHT..T-..SEEEE---BTTT- CS
             Cu-oxidase_4 127 amkelgakpedilaaiGPsIgpecyeVgeevaeafeaadpeaaaaaeeegkaylDLaalarlqLeea..GvkeenieasglCTvce 210
                              ++       +  +a+iGP+I++++yeV+ +++++fe++d+      ++egk y+DL a+ar+qL++   G+    ie+s++CT+++
  PHY93_06245|PHY93_06245 101 KI-------NPFYAFIGPHISSAHYEVQPDFKANFEQNDAF----LDREGKLYFDLSAVARAQLKSFfpGI---TIEESEICTFSN 172
                              44.......569***********************987654....6999**9*************976699...9*********77 PP

                              TTT---HHHHSH- CS
             Cu-oxidase_4 211 edrfFSyRrdggt 223
                              + +f+SyRr++++
  PHY93_06245|PHY93_06245 173 D-NFHSYRRNKTS 184
                              6.6******9634 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (191 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       343  (0.019131); expected 358.6 (0.02)
Passed bias filter:                      311  (0.0173462); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.42
# Mc/sec: 1366.44
//
Query:       PHY93_06250|PHY93_06250  [L=345]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.7e-30  105.1   0.1    5.3e-30  104.6   0.1    1.2  1  PseudoU_synth_2  RNA pseudouridylate synthase


Domain annotation for each model (and alignments):
>> PseudoU_synth_2  RNA pseudouridylate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  104.6   0.1     3e-34   5.3e-30       1     159 [.     114     268 ..     114     269 .. 0.94

  Alignments for each domain:
  == domain 1  score: 104.6 bits;  conditional E-value: 3e-34
          PseudoU_synth_2   1 dlvvvnKPagvpvqpeak...dgsekekettatssraeeekkelklvhRLDkatsGllllAksseaanklakafeerkvrKkYlal 83 
                              +l++v+KPag++++p      +   +   ++ ++ +  ++++++++vhRLDk+tsG++++Ak++++++ l  +f+ + ++++Y al
  PHY93_06250|PHY93_06250 114 HLLFVYKPAGMVTHPAPGnytGTLVNAILWHCKDLTGIGDQRRPGIVHRLDKGTSGVMVVAKTQACHEGLVLLFSTHDIERVYEAL 199
                              689**************987655566666778888888************************************************ PP

          PseudoU_synth_2  84 vfgapeeeegaikkkiskdtekqegarrkaeeldgkkavtylkvlksgsseksakvslveleletGrkhQiRvhla 159
                              v ++  +++g+i++ i +  + + + ++k  +  gk a+t +kvl+        ++  +e +letGr+hQiRvh a
  PHY93_06250|PHY93_06250 200 VIKNRCQSYGTIESLIGR--DPHNRLKMKNSGTRGKTAITNYKVLEIY-----DRHLHMEFKLETGRTHQIRVHTA 268
                              **9***************..9***************************.....*********************87 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (345 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       336  (0.0187406); expected 358.6 (0.02)
Passed bias filter:                      301  (0.0167884); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 2495.80
//
Query:       PHY93_06255|PHY93_06255  [L=256]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.9e-19   67.5   0.0    1.3e-18   66.6   0.0    1.5  1  HTH_25    Helix-turn-helix domain
    1.5e-08   34.7   0.7    6.2e-08   32.7   0.7    2.2  1  DnaJ      DnaJ domain
    6.4e-06   26.1   0.1    0.00011   22.2   0.0    2.5  3  HTH_19    Helix-turn-helix domain


Domain annotation for each model (and alignments):
>> HTH_25  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.6   0.0   2.2e-22   1.3e-18       2      60 ..     185     243 ..     184     245 .. 0.97

  Alignments for each domain:
  == domain 1  score: 66.6 bits;  conditional E-value: 2.2e-22
                              HHHHHHTTT--HHHHHHHSS--HHHHHHHHCT--TTSS-HHHHHHHHHHHHHHTT--HH CS
                   HTH_25   2 LraaRearglsleevaketkIrkdylealEeddfdalpepvylrgylrnYArlLgldpe 60 
                              Lr+ Re ++ +le +++ tk++  yl+ +E++d+d+lp+pvy+rg++ +YA++L+l+pe
  PHY93_06255|PHY93_06255 185 LRKIREYKSVDLERLSDMTKVSRLYLQGIESEDYDKLPAPVYVRGFVFQYAKCLKLKPE 243
                              9*******************************************************998 PP

>> DnaJ  DnaJ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.7   0.7     1e-11   6.2e-08       1      63 []       7      74 ..       7      74 .. 0.89

  Alignments for each domain:
  == domain 1  score: 32.7 bits;  conditional E-value: 1e-11
                             HHHHHHTSSTTG-HHHHHHHHHHHHHHHSTTTS....CCHH.HHHHHHHHHHHHHHHHTSHHHHHHHH CS
                     DnaJ  1 dyYeiLgvskdasedeIkkaYrklalkyHPDkn....pkdp.eaeekFkeineAyevLsdpekRkqYD 63
                             +yYe+L+++++a ++e+  +Y++    y  D        +p e ++  + ++eAy++Lsdp kRk+YD
  PHY93_06255|PHY93_06255  7 NYYEVLEIPSTARSEEVYHSYQRAKSAYSSDSLalysLMSPeECRNVLELVEEAYSILSDPMKRKRYD 74
                             7******************************5444553444599999********************9 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0      0.84     5e+03      43      55 ..       3      15 ..       2      18 .. 0.78
   2 ?    0.7   0.0     0.088   5.3e+02      43      59 ..      68      84 ..      52      89 .. 0.78
   3 !   22.2   0.0   1.8e-08   0.00011       1      57 [.     182     243 ..     182     249 .. 0.87

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 0.84
                   HTH_19 43 elllkiaealgid 55
                             ++l+ ++e l+i+
  PHY93_06255|PHY93_06255  3 SDLKNYYEVLEIP 15
                             5788899999998 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.088
                   HTH_19 43 elllkiaealgidleyl 59
                             ++ +++ ea gi+ ey 
  PHY93_06255|PHY93_06255 68 MKRKRYDEARGINREYN 84
                             44489********9996 PP

  == domain 3  score: 22.2 bits;  conditional E-value: 1.8e-08
                   HTH_19   1 GerLkeaReelgltqeelaerlgisrskisaiEngkkdvpsaell.....lkiaealgidle 57 
                              Ge L+++Re +   +e l++++++sr ++  iE++ +d+++a+++      ++a+ l++ +e
  PHY93_06255|PHY93_06255 182 GELLRKIREYKSVDLERLSDMTKVSRLYLQGIESEDYDKLPAPVYvrgfvFQYAKCLKLKPE 243
                              99***************************************888766666788877777766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (256 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       680  (0.0379274); expected 358.6 (0.02)
Passed bias filter:                      428  (0.0238719); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.23s 00:00:00.72 Elapsed: 00:00:00.43
# Mc/sec: 1798.35
//
Query:       PHY93_06260|PHY93_06260  [L=316]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    3.9e-16   59.3   0.1      2e-14   53.6   0.1    2.4  2  ParA         NUBPL iron-transfer P-loop NTPase
    2.7e-15   56.6   0.0    4.8e-15   55.7   0.0    1.4  1  CbiA         CobQ/CobB/MinD/ParA nucleotide binding domain
    4.8e-14   52.7   0.1    7.9e-14   52.0   0.1    1.4  1  AAA_31       AAA domain
    3.9e-06   26.3   0.0    5.7e-06   25.8   0.0    1.4  1  MipZ         ATPase MipZ
    0.00043   19.8   0.1     0.0007   19.1   0.1    1.3  1  Fer4_NifH    4Fe-4S iron sulfur cluster binding proteins, Nif
    0.00069   18.9   1.1    0.00069   18.9   1.1    1.9  2  ArsA_ATPase  Anion-transporting ATPase
     0.0014   18.1   0.4      0.049   13.1   0.1    2.5  3  CBP_BcsQ     Cellulose biosynthesis protein BcsQ
  ------ inclusion threshold ------
       0.08   12.7   0.1       0.32   10.8   0.0    1.9  2  CLP1_P       mRNA cleavage and polyadenylation factor CLP1 P-
      0.099   11.6   0.1       0.16   10.9   0.1    1.2  1  MeaB         Methylmalonyl Co-A mutase-associated GTPase MeaB
       0.16   11.5   0.5       0.27   10.8   0.5    1.3  1  AAA_25       AAA domain


Domain annotation for each model (and alignments):
>> ParA  NUBPL iron-transfer P-loop NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.6   0.1   1.1e-17     2e-14       3     164 ..      24     186 ..      22     193 .. 0.76
   2 ?    3.0   0.0     0.032        57     200     245 ..     269     314 ..     244     315 .. 0.86

  Alignments for each domain:
  == domain 1  score: 53.6 bits;  conditional E-value: 1.1e-17
                     ParA   3 kkviavlSgKGGVGKStvavnlAlaLakkglkvgllDaDiyGpsiprllgvee..........ekpeqsekkliPveakgikvmSi 78 
                              +kv a+  gKGGVGKS v++nlA+ La +g+kv+ +D+D+ G ++ + lgv            +k+++ ++ l+P+  +++ ++S 
  PHY93_06260|PHY93_06260  24 QKVWAIGGGKGGVGKSLVTANLAICLALMGHKVAAIDLDLGGANLHTCLGVPIpektlsdylsKKVRSLNELLTPTAINNLYIISG 109
                              5788999*******************************************987556676666555555566677888888888875 PP

                     ParA  79 gfllesedeavv.wrGpmkskaikqllkdvewgelDyLiiDlPPGtgDeqltvaqklplagaviVttpqevaladvkkaiemfkkv 163
                              +     +d  +   +   k+    +ll++ +   +Dy+++Dl  Gt+  ++  +   + ++ +i t p+  ++++  + i+ + + 
  PHY93_06260|PHY93_06260 110 AQ----DDLGIAnLKQMQKA----KLLNQLSELPVDYVLLDLGAGTTFNTIDFFI--SADQGIITTLPEPTSIENSYRFIKAVYHR 185
                              32....33333313444444....45555555789*******9999988887765..5578999*****99999998888776655 PP

                     ParA 164 k 164
                              k
  PHY93_06260|PHY93_06260 186 K 186
                              5 PP

  == domain 2  score: 3.0 bits;  conditional E-value: 0.032
                     ParA 200 elgvpllgeipldpeireasdegkplvlkepeseaakaleeiaekv 245
                               ++++++g ++ d ++ +++ + kpl+++ p+s+  +++++i++++
  PHY93_06260|PHY93_06260 269 GINLDYVGYLDYDATVWQSVKKRKPLLMEFPNSTLVNNFDRIIHRL 314
                              5688999**********************************99876 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.7   0.0   2.7e-18   4.8e-15       2     127 ..      28     293 ..      27     294 .. 0.90

  Alignments for each domain:
  == domain 1  score: 55.7 bits;  conditional E-value: 2.7e-18
                              EEEESSTTSSHHHHHHHHHHHHHHTT--EEEEEEEESSCCCCHHTTEB-HHHH................................. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx................................. RF
                     CbiA   2 aiastkGGvGKTtlaanLaralarrglrVllvDaDpqannlaileglendiep................................. 54 
                              ai ++kGGvGK+ ++anLa++la  g++V+++D+D  + nl++  g+ + +++                                 
  PHY93_06260|PHY93_06260  28 AIGGGKGGVGKSLVTANLAICLALMGHKVAAIDLDLGGANLHTCLGVPIPEKTlsdylskkvrslnelltptainnlyiisgaqdd 113
                              7889**************************************9888888888889999999************************* PP

                              ...................................................................................... CS
                              ...................................................................................... RF
                     CbiA  55 ...................................................................................... 54 
                                                                                                                    
  PHY93_06260|PHY93_06260 114 lgianlkqmqkakllnqlselpvdyvlldlgagttfntidffisadqgiittlpeptsiensyrfikavyhrklkmaeelleigpl 199
                              ************************************************************************************** PP

                              .................CCHCCCHHHHHHCHCHHHH....EEEEEEEEESS...-TTCHHHHHHHHHHC...TS-EEEEEE--CCH CS
                              .................xxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxx RF
                     CbiA  55 .................dlkrllellealgkkkall..lkiagvvlnrvdgeneetllkealeelkqry...gvpvlgviprdeav 118
                                                + r++e+   +g+k++ +   +  ++++n v+ ++ +  +  +++ + ++y   ++  +g + +d  v
  PHY93_06260|PHY93_06260 200 idqamnakisqnstpadLINRVIEINPIIGQKLRSEinKLNPRLIINQVRTQA-DIDIGFSMKLISKKYfgiNLDYVGYLDYDATV 284
                              *************9887555666666666666666676888999999999994.55566667777778888999999999999999 PP

                              CCCCHHTS- CS
                              xxxxxxxxx RF
                     CbiA 119 aeapargep 127
                               +++++ +p
  PHY93_06260|PHY93_06260 285 WQSVKKRKP 293
                              999999887 PP

>> AAA_31  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.0   0.1   4.4e-17   7.9e-14       2     173 ..      25     191 ..      24     196 .. 0.81

  Alignments for each domain:
  == domain 1  score: 52.0 bits;  conditional E-value: 4.4e-17
                   AAA_31   2 kvIaianqKGGvGKTTtsvnlaaalaklgkkvLlvDlDpQ.anattglgiekneiektlyevli.eeknikeaiiktkvenldlip 85 
                              kv ai   KGGvGK+  + nla +la +g+kv  +DlD   an+ t lg+     ektl + l  +  +++e+++ t ++nl++i 
  PHY93_06260|PHY93_06260  25 KVWAIGGGKGGVGKSLVTANLAICLALMGHKVAAIDLDLGgANLHTCLGVP--IPEKTLSDYLSkKVRSLNELLTPTAINNLYIIS 108
                              78899999******************************7527999999984..4568999999768899***************98 PP

                   AAA_31  86 ssidLaeaeielvelekkeeilkellekvkde.YDyiiiDcpPsLglltenaLvasdsviipvqaeayaleGleqllktieevkkk 170
                              +  d  ++    ++l++   +  +ll+++++   Dy+++D        t+  ++++d+ ii + +e+ ++e   +++k + + k k
  PHY93_06260|PHY93_06260 109 GAQDDLGI----ANLKQM--QKAKLLNQLSELpVDYVLLDLGAGTTFNTIDFFISADQGIITTLPEPTSIENSYRFIKAVYHRKLK 188
                              86653333....333322..2234444444433799***********************************999999998877766 PP

                   AAA_31 171 lnp 173
                              + +
  PHY93_06260|PHY93_06260 189 MAE 191
                              555 PP

>> MipZ  ATPase MipZ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.8   0.0   3.2e-09   5.7e-06       5      45 ..      29      69 ..      25     149 .. 0.92

  Alignments for each domain:
  == domain 1  score: 25.8 bits;  conditional E-value: 3.2e-09
                             E--SSTTSSHHHHHHHHHHHHHTTT--EEEEE--TTT-HHH CS
                     MipZ  5 lgnekGGsGksttavhvavaLlkkGarvaaidldlrqrtla 45
                             +g  kGG Gks ++  +a++L+ +G++vaaidldl  + l+
  PHY93_06260|PHY93_06260 29 IGGGKGGVGKSLVTANLAICLALMGHKVAAIDLDLGGANLH 69
                             7889******************************9776666 PP

>> Fer4_NifH  4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.1   3.9e-07    0.0007       7      37 ..      32      62 ..      25     101 .. 0.86

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 3.9e-07
                Fer4_NifH  7 GkGGiGksttsqnlsaalaemgkkvlivGCD 37
                             GkGG+Gks  ++nl++ la mg+kv  +  D
  PHY93_06260|PHY93_06260 32 GKGGVGKSLVTANLAICLALMGHKVAAIDLD 62
                             8************************888666 PP

>> ArsA_ATPase  Anion-transporting ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   1.1   3.8e-07   0.00069       5      38 ..      29      62 ..      25     123 .. 0.90
   2 ?   -2.0   0.0       0.9   1.6e+03     215     237 ..     167     189 ..     162     240 .. 0.62

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 3.8e-07
                             EEEESTTSSHHHHHHHHHHHHHHTTS-EEEEE-S CS
              ArsA_ATPase  5 lvgGKGGVGKttvsaatavklsekgkkvllistD 38
                             + gGKGGVGK+ v a +a+ l+ +g+kv  i +D
  PHY93_06260|PHY93_06260 29 IGGGKGGVGKSLVTANLAICLALMGHKVAAIDLD 62
                             569*************************988877 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.9
                              SSHHHHHHHHHHHHHHHHTT-EE CS
              ArsA_ATPase 215 pEklslkEteRaikeLkkygikv 237
                              pE  s++ + R ik++ + ++k+
  PHY93_06260|PHY93_06260 167 PEPTSIENSYRFIKAVYHRKLKM 189
                              55556666666555554444332 PP

>> CBP_BcsQ  Cellulose biosynthesis protein BcsQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.1   0.1   2.7e-05     0.049       4      38 ..      27      61 ..      24      92 .. 0.88
   2 ?    2.4   0.0     0.051        92     101     148 ..     123     168 ..     107     177 .. 0.74
   3 ?   -1.6   0.0      0.83   1.5e+03     152     172 ..     229     249 ..     173     314 .. 0.57

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 2.7e-05
                 CBP_BcsQ  4 lalqGvRGGvGttsllaaLawalhelgesvlviDl 38
                              a+ G +GGvG++ ++a La+ l  +g++v +iDl
  PHY93_06260|PHY93_06260 27 WAIGGGKGGVGKSLVTANLAICLALMGHKVAAIDL 61
                             5788999**************************97 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.051
                 CBP_BcsQ 101 kaeallaalkelkeqyrwillDlpagasaltrellaladlvllvvepd 148
                              ++ +ll++l+el    +++llDl ag++  t ++   ad+ +  + p+
  PHY93_06260|PHY93_06260 123 QKAKLLNQLSEL--PVDYVLLDLGAGTTFNTIDFFISADQGIITTLPE 168
                              344555555555..6789********9999999999999988777776 PP

  == domain 3  score: -1.6 bits;  conditional E-value: 0.83
                 CBP_BcsQ 152 hvrLhqqalpaaellLiNqfe 172
                                +L+ +  + +  l+iNq +
  PHY93_06260|PHY93_06260 229 GQKLRSEINKLNPRLIINQVR 249
                              333333333334444444444 PP

>> CLP1_P  mRNA cleavage and polyadenylation factor CLP1 P-loop
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   0.00018      0.32       1      37 [.      32      68 ..      32      92 .. 0.86
   2 ?   -1.4   0.0      0.93   1.7e+03      14      45 ..     127     158 ..     125     179 .. 0.85

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00018
                   CLP1_P  1 GpkdsGKSTlarlLlNyalrkgrkpvyvDlDvGqsei 37
                             G+  +GKS ++++L+  ++ +g+k++ +DlD+G  ++
  PHY93_06260|PHY93_06260 32 GKGGVGKSLVTANLAICLALMGHKVAAIDLDLGGANL 68
                             66789****************************8874 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.93
                   CLP1_P  14 LlNyalrkgrkpvyvDlDvGqseispPgtisl 45 
                              LlN++ +     v++Dl  G    ++  +is+
  PHY93_06260|PHY93_06260 127 LLNQLSELPVDYVLLDLGAGTTFNTIDFFISA 158
                              89999999999999999999999999999987 PP

>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.1   8.8e-05      0.16      27      66 ..      22      62 ..       8      70 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 8.8e-05
                             S-SEEEEEE.E-TTSSHHHHHHHHHHHHHCTT--EEEEEE- CS
                     MeaB 27 GraqvvGlt.GvPGaGkstlvealglelrrrGkrvavlavD 66
                             G+ +v  +  G  G+Gks ++ +l++ l+  G++va + +D
  PHY93_06260|PHY93_06260 22 GQQKVWAIGgGKGGVGKSLVTANLAICLALMGHKVAAIDLD 62
                             55555555416789**********************99988 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.5   0.00015      0.27      36      62 ..      28      55 ..      23      66 .. 0.85

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00015
                   AAA_25 36 allaGapgtGKttlaldlalava.tGkp 62
                             a+  G +g+GK+ ++ +la+++a  G++
  PHY93_06260|PHY93_06260 28 AIGGGKGGVGKSLVTANLAICLAlMGHK 55
                             56689*****************966665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (316 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       564  (0.0314574); expected 358.6 (0.02)
Passed bias filter:                      487  (0.0271627); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.53u 0.25s 00:00:00.78 Elapsed: 00:00:00.42
# Mc/sec: 2261.62
//
Query:       PHY93_06265|PHY93_06265  [L=219]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    8.2e-06   25.8  11.4    2.7e-05   24.1  11.4    1.7  1  CTP_transf_1  Cytidylyltransferase family
  ------ inclusion threshold ------
       0.14   12.5   5.8        2.7    8.3   0.3    2.9  3  DUF4383       Domain of unknown function (DUF4383)


Domain annotation for each model (and alignments):
>> CTP_transf_1  Cytidylyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.1  11.4     3e-09   2.7e-05      68     218 ..      40     189 ..       9     197 .. 0.60

  Alignments for each domain:
  == domain 1  score: 24.1 bits;  conditional E-value: 3e-09
                              HHTTTSSSHHHHHHHHHHHHHHHHHH---...HHHHHHHHHHHHHHHHHTHHHH................................ CS
             CTP_transf_1  68 lflylesliallklvlllvlvllllvlkvlkskskklervilallallyvvlll................................ 121
                              +++ + s                              +++++all+++ + +l+                                
  PHY93_06265|PHY93_06265  40 YYKSGLS-----------------------------TDMMATALLLFSAFSFLVeflrlrneklnqllmivmkpimreseknsvsg 96 
                              3333322.............................22222222222222222233344444444444444444444444455555 PP

                              .....TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH---B-S-TTS---BHHHHHHHHHHHHHHHHHHHHHHHCTS---TT CS
             CTP_transf_1 122 ....qslllienikeglllvllllalvvaaDigaYffGklfGktkllpkiSPkKTveGfigGlvaavvvglllalvlskalalsll 203
                                   + + ++  +   ++++l ++  ++aD +a f+G+l+G+     ki P+K+++G i+++ ++ +v+l++ l+ ++      +
  PHY93_06265|PHY93_06265  97 mpfyALGVSLSLFFFPETIAVLSILFLIFADPIASFCGILYGRD----KIFPNKSLQGTIAAFSVCYIVTLIYGLIHTNP----SM 174
                              555423333333333444455555566789**************....8889************************9996....56 PP

                              SHHHHHHHHHHHHHH CS
             CTP_transf_1 204 hllllslllslvavf 218
                               ll++s+++++++ +
  PHY93_06265|PHY93_06265 175 NLLVFSIVAGVIGAV 189
                              777777777777765 PP

>> DUF4383  Domain of unknown function (DUF4383)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   0.3    0.0003       2.7      52      96 ..      26      71 ..      21      85 .. 0.69
   2 ?    5.4   0.7    0.0024        21      78     104 ..     154     180 ..     145     190 .. 0.80
   3 ?   -0.2   0.1      0.13   1.2e+03      12      27 ..     181     196 ..     178     218 .. 0.64

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0003
                  DUF4383 52 nlvhllvGvlglaaarsasgarlyllllgvvy.lllailgllvldk 96
                              l+h++ G++gl+++ +++++  ++ ++ +++ +  +++ +l l++
  PHY93_06265|PHY93_06265 26 KLWHMATGLIGLTVYYKSGLSTDMMATALLLFsAFSFLVEFLRLRN 71
                             689************7777776666555555515556666655555 PP

  == domain 2  score: 5.4 bits;  conditional E-value: 0.0024
                  DUF4383  78 llgvvylllailgllvldktanllpln 104
                              ++ v y+++ i+gl+ ++ ++nll ++
  PHY93_06265|PHY93_06265 154 AFSVCYIVTLIYGLIHTNPSMNLLVFS 180
                              67899*********9966669988765 PP

  == domain 3  score: -0.2 bits;  conditional E-value: 0.13
                  DUF4383  12 llvGvlGfiPgltsey 27 
                              +++Gv+G ++ l s++
  PHY93_06265|PHY93_06265 181 IVAGVIGAVSELCSQF 196
                              5677777777666644 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (219 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       610  (0.0340231); expected 358.6 (0.02)
Passed bias filter:                      293  (0.0163422); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 1642.17
//
Query:       PHY93_06270|PHY93_06270  [L=215]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.3e-14   54.6   0.5    2.4e-14   53.7   0.5    1.4  1  LON_substr_bdg  ATP-dependent protease La (LON) substrate-bin


Domain annotation for each model (and alignments):
>> LON_substr_bdg  ATP-dependent protease La (LON) substrate-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.7   0.5   1.3e-18   2.4e-14       2     206 ..       5     186 ..       4     187 .. 0.84

  Alignments for each domain:
  == domain 1  score: 53.7 bits;  conditional E-value: 1.3e-18
           LON_substr_bdg   2 lpllpldnkvlfPgitlpltvsrpksiaaierlldkdkpyigvflvkesqkdaideesiselysvGtvarIvqilrlddgrikvvl 87 
                              +p+l+l n++++P +++pltv +  s +++   ++ ++  i++f               ++   vGt+++I+ i  + d +++vv+
  PHY93_06270|PHY93_06270   5 VPTLYLFNNIFYPQTVIPLTVNDNISKQMLLTSYQNSTD-IALFHP------------HTRSRGVGTLGKIILIDHNTDSSLSVVI 77 
                              7*************************9999998888877.555555............455568********************** PP

           LON_substr_bdg  88 egleRvkikklekekeegylvaeveiieddsepedsdslqkelkalvqeiiekikk...slarellkllleielllkyedlenpyr 170
                              +gl R+k+ ++  +k+++y+   ++ +          +l+++ ++l+ + ie++     s +++++++ +  e    ++d+ +p++
  PHY93_06270|PHY93_06270  78 QGLVRIKLLDM--DKDDPYPLYHTDDY---------YDLDEKTQTLTDSPIERLHLvleSWLHRHVNSTR--ERERFMKDMSSPAK 150
                              ***********..77****77777444.........4444556666666666666544346679999997..77778********* PP

           LON_substr_bdg 171 LadlvaailpfsneekqelLeeldvedRlkkvlelL 206
                              L++ ++  l  + e kq  Le  ++ dR+++ + lL
  PHY93_06270|PHY93_06270 151 LINNLCMFLIKDIELKQIFLESTSLLDRVRMMNALL 186
                              ******************************999988 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (215 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       369  (0.0205812); expected 358.6 (0.02)
Passed bias filter:                      270  (0.0150594); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.43
# Mc/sec: 1515.92
//
Query:       PHY93_06275|PHY93_06275  [L=285]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.6e-06   27.6   0.0    0.00033   20.0   0.0    2.5  1  PMI_typeI  Phosphomannose isomerase type I
     0.0079   16.3   0.0      0.017   15.3   0.0    1.5  1  Pirin_C_2  Quercetinase C-terminal cupin domain
  ------ inclusion threshold ------
       0.09   12.5   0.1       0.42   10.4   0.0    2.0  2  Cupin_2    Cupin domain


Domain annotation for each model (and alignments):
>> PMI_typeI  Phosphomannose isomerase type I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.0   0.0   5.5e-08   0.00033      77     126 ..      41      77 ..      22     182 .. 0.65

  Alignments for each domain:
  == domain 1  score: 20.0 bits;  conditional E-value: 5.5e-08
                              CHHTSS-SEEEEEEEESS---EEE---HHHHHHHHHH.TCCCHCCCTTTE CS
                PMI_typeI  77 kkfgeelpfLfKvLsvekvlSiqvHPdKklaeilhaadpknYpddNhkpE 126
                              + f+++lp+L K ++ ++ lSiqvHP  + a+i             h+  
  PHY93_06275|PHY93_06275  41 EIFEKHLPYLAKFIDTSDELSIQVHPGDEYARI-------------HENS 77 
                              567889********************9554443.............4444 PP

>> Pirin_C_2  Quercetinase C-terminal cupin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   2.9e-06     0.017      17      83 ..     218     285 .]     212     285 .] 0.92

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 2.9e-06
                Pirin_C_2  17 darlyaakldegesleyela.agrkaYlqvieGevevngeslaagDGlaiedesslsltaeedaevLl 83 
                              d  l++++l++ge+   +l    r   +  +eG++++n+  +a+  +++ie+es+ls+ta e+  +Ll
  PHY93_06275|PHY93_06275 218 DFHLFLLNLKKGEEYLTKLSsLARPCSILNLEGKIKINQIIVASFCAVTIEKESELSITALENGSLLL 285
                              7889999******9999999556889*************************************99987 PP

>> Cupin_2  Cupin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.0      0.25   1.5e+03       5      27 ..      64      88 ..      60      91 .. 0.56
   2 ?   10.4   0.0     7e-05      0.42      39      57 ..     125     143 ..     123     147 .. 0.89

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.25
                             EETTE.EEEEEC.SSSEEEEEEEEE CS
                  Cupin_2  5 lppGe.sapshr.HpgedeffyVle 27
                             ++pG+  a  h   +g +e+ ++le
  PHY93_06275|PHY93_06275 64 VHPGDeYARIHEnSSGKTECWIILE 88
                             5666655544442344447776665 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 7e-05
                              EEEETTEEEEE-TT-EEEE CS
                  Cupin_2  39 veleaGdsvyfpagtpHrf 57 
                              ++ +aGd++++p+g  H++
  PHY93_06275|PHY93_06275 125 YPAKAGDFFFVPSGSIHAI 143
                              6789*************87 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (285 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       375  (0.0209158); expected 358.6 (0.02)
Passed bias filter:                      351  (0.0195772); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.19s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 2095.56
//
Query:       PHY93_05370|PHY93_05370  [L=152]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.4e-29   99.9   0.1    9.1e-29   99.6   0.1    1.1  1  DUF2141   Uncharacterized protein conserved in bacteria (DUF2


Domain annotation for each model (and alignments):
>> DUF2141  Uncharacterized protein conserved in bacteria (DUF2141)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   99.6   0.1   5.1e-33   9.1e-29       3     110 ..      41     149 ..      39     151 .. 0.94

  Alignments for each domain:
  == domain 1  score: 99.6 bits;  conditional E-value: 5.1e-33
                  DUF2141   3 veglksdkGkvlvalydseegfpk..kkkkaikkkvkkaeagkvtvtfenlppGtYAvavfhDengngkldknllgiPkEgyGfSn 86 
                              v+gl sd+G++ ++l + +++f+   + k a++k+  ++++++v+ tf+++p G+YAv+++hD n n++ldkn++g+PkE+yGfSn
  PHY93_05370|PHY93_05370  41 VTGLDSDEGQIKFDLDNAADTFKPkeNGKPAFTKGRSPIKDKRVEYTFKDIPCGEYAVKLYHDANMNQTLDKNFIGVPKEQYGFSN 126
                              89********************7666788999****************************************************** PP

                  DUF2141  87 nakillgpPkfekaafevedkekt 110
                               + + + pP+++ka+f++++++ t
  PHY93_05370|PHY93_05370 127 CK-GCMLPPNWKKAKFTFDKEHPT 149
                              *9.8899***********877655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (152 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       409  (0.0228122); expected 358.6 (0.02)
Passed bias filter:                      361  (0.020135); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 1172.66
//
Query:       PHY93_06280|PHY93_06280  [L=111]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (111 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       537  (0.0299515); expected 358.6 (0.02)
Passed bias filter:                      378  (0.0210832); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.22s 00:00:00.62 Elapsed: 00:00:00.38
# Mc/sec: 868.60
//
Query:       PHY93_06285|PHY93_06285  [L=373]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.2e-73  246.2   0.1    7.1e-73  246.0   0.1    1.0  1  Phytase-like  Esterase-like activity of phytase
  ------ inclusion threshold ------
      0.079   13.1   0.2       0.16   12.1   0.2    1.4  1  T4_Rnl2_C     T4 RNA ligase 2 C-terminal


Domain annotation for each model (and alignments):
>> Phytase-like  Esterase-like activity of phytase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  246.0   0.1   7.9e-77   7.1e-73       2     286 .]      52     360 ..      51     360 .. 0.96

  Alignments for each domain:
  == domain 1  score: 246.0 bits;  conditional E-value: 7.9e-77
             Phytase-like   2 pvgglSglaydpkdgrfyalsDrgs.knsarfytlkldldadklgkveitevtplkdpdgapfpkkglDpEgiavapdgtfwvssE 86 
                              ++gglSglayd+++++++a+sD++s  n arfy+++++l +dk+ +v++tev++lk+++g+pf+k ++D Egia+  +g+++vssE
  PHY93_06285|PHY93_06285  52 EIGGLSGLAYDKEKNKILAISDDRSaINDARFYEFDFKL-DDKSFSVTPTEVVTLKNKEGKPFKKGTIDFEGIAF-YNGDLLVSSE 135
                              79***********************88************.689********************************.********** PP

             Phytase-like  87 gg........pfilefdadGkllrelplpaellpaaspd..aglrrnrGfEglalspdgrkLyaalEspldqdgaka.keagsrlr 161
                              g         p  ++f++ G  ++++++pa++lp ++++   g+r+n +fE+l+ + dg+++++ +E++l qd+    ++ +s +r
  PHY93_06285|PHY93_06285 136 GWinheppipPEFIQFTRLGAYKNNIEIPAKFLPLKDKEnkIGVRDNLAFEALTTTTDGKTVWMGTEEALNQDDRTSgPNYASVIR 221
                              *********************************999887889********************************9999999999** PP

             Phytase-like 162 ilefdlatgktvgefaypleavae.a......ggngisdllalddgrllvlERdfseg.tgntkrlykidlag.atdvsgveslag 238
                              +++++    k+v+e+ay+le+v++ +      g+ g+s++laldd++++ +ER++    ++ ++r++k ++++  td+s+++s++g
  PHY93_06285|PHY93_06285 222 LIQYKDL--KPVKEVAYRLEKVPSiKiaglvvGETGLSEMLALDDNNFYSIERSYMPLaKKSVIRIFKNSINDkTTDISKMDSIKG 305
                              *****87..58*************99****************************99888999********9852789999999999 PP

             Phytase-like 239 adgvkpvdkellldlakl......glp.ldniEGlavgprl.dgrrtlllvsDnNf 286
                               + +k+v+kel++dl++       +++ ldniEG+ +gp+l +g++t++lvsDnNf
  PHY93_06285|PHY93_06285 306 MN-IKTVEKELVADLEDFshqmaaNFQkLDNIEGICFGPKLaNGHNTIILVSDNNF 360
                              99.********************98889***************************9 PP

>> T4_Rnl2_C  T4 RNA ligase 2 C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.2   1.8e-05      0.16      27      66 ..     297     335 ..     294     342 .. 0.92

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 1.8e-05
                              HHTSS--STTTHHHHHHHHHHHHHHHHHHT...T--SSSS CS
                T4_Rnl2_C  27 iSKigeitrknfgkvlkafvqDaledfnkeeeaelsslsk 66 
                              iSK+++i+  n++ v k++v+D ledf+ +  a++++l++
  PHY93_06285|PHY93_06285 297 ISKMDSIKGMNIKTVEKELVAD-LEDFSHQMAANFQKLDN 335
                              8*********************.7*****99999988865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (373 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       560  (0.0312343); expected 358.6 (0.02)
Passed bias filter:                      417  (0.0232584); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.45
# Mc/sec: 2508.78
//
Query:       PHY93_06290|PHY93_06290  [L=467]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.5e-86  290.9   0.0    1.8e-86  290.7   0.0    1.0  1  Peptidase_S13    D-Ala-D-Ala carboxypeptidase 3 (S13) family
    4.9e-05   23.0   0.1     0.0034   17.0   0.0    2.5  2  Beta-lactamase2  Beta-lactamase enzyme family
    0.00024   20.6   1.1       0.14   11.5   0.1    2.3  2  Peptidase_S11    D-alanyl-D-alanine carboxypeptidase
  ------ inclusion threshold ------
      0.058   13.2   0.4         14    5.6   0.0    3.0  3  DUF348           G5-linked-Ubiquitin-like domain


Domain annotation for each model (and alignments):
>> Peptidase_S13  D-Ala-D-Ala carboxypeptidase 3 (S13) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  290.7   0.0   3.9e-90   1.8e-86       1     425 [.      21     452 ..      21     465 .. 0.95

  Alignments for each domain:
  == domain 1  score: 290.7 bits;  conditional E-value: 3.9e-90
                              HHHHHHHHHTTGCGTTSEEEEEEEETTTTEEEEEESTTSEB--GGGHHHHHHHHHHHHT-TT-EEEEEEEESSEEETTEEESCEEE CS
            Peptidase_S13   1 laanldeiladpeLegavagvvvqdaetgkelydhqgdtpllPAStqKllTAaaAlltLganfrftTevvaegtvenrnlegnlvl 86 
                              l+++l++i+++ + +++ +g++++d  +g+e+++ +++++++PAS  K++T aa l+tL  n +f+T++ a+ tv+++ l g+l l
  PHY93_06290|PHY93_06290  21 LNNQLKAIIKKHHFNENTLGIYIED--EGREIFNVNASRMMVPASLTKIVTGAAVLNTLPMNKKFETKLMAKNTVKDGVLLGDLCL 104
                              57899****************9996..899******************************************************** PP

                              EECSBTTBBHHHHHHHHHHHHHTT-SEESS-EEEE-TTC-S-SS-TTSBGGGTTBGGG----SS-SGGGEEEEEEE-.SSTTSB-E CS
            Peptidase_S13  87 vgsGDPtLsaedldalaeelkksGvtkiegelvvDdslfaserlapgwewaDltsgysapieaaiidagvvivevtp.qkeGetaa 171
                              +g+GDP++  e++  l++elk+   + ieg+l+vD++ f++e    g e   ++ ++ api+aa  + + + + + p +  G +a+
  PHY93_06290|PHY93_06290 105 KGGGDPSFVSEKMWFLVNELKRTELNSIEGDLLVDATRFDNELYDSGRESVRVDRAFDAPISAASFNWNSTNIFIRPgPTSGFPAK 190
                              ************************************************************************************** PP

                              EEECTTTTTCEEEEEEEEESTTSCC..EEEEEEECTSSEEEEEEEEETTSS-EEEEEE-SSHHHHHHHHHHHHHHHTT-EESS-EE CS
            Peptidase_S13 172 vtvsakiaiaalknvkvetaaeaek..kkliersfgtntlkvtGslpedaeplklslavqdpaayagallkkkLkeqGitvsgevg 255
                              v + ++ ++ +l+n  ++t+    k  + l +++ ++ ++ v Gs+  d+++  +  +v +p+  +g  lk+ Lk+ Git++g+v+
  PHY93_06290|PHY93_06290 191 VWLDPQSDYLELENNTKTTSKSGVKtlEALRVKVGDHDKIIVSGSISLDGAEAVIYKSVSNPNLWIGMHLKEFLKQRGITLKGKVK 276
                              *************999966665544115677788999************************************************* PP

                              EESS-TTSEEEEEEEECEHHHHHHHHHHHT-HHHHHHHHHHHHHHH.CS-BSHHHHHHHHHHHHHHTT--CTTSB-S-SSS-STT- CS
            Peptidase_S13 256 iaeapesaevlashqSaPLsellkkmmkkSdNliAesllrevakei.krpgsfeagldavrerLskagidtanlvLeDgSGLSrkn 340
                              +a    +a++la+  S+ L e+ ++m+k S+N +Ae+l +++a+e   +p+ ++ g++ +++ + ++g + ++ +Le+ SGL r+n
  PHY93_06290|PHY93_06290 277 VAACLPNANTLAVSPSKNLNEITTDMLKFSNNFVAEMLAKNLAAENsTVPARMKDGIEEIKKYMDSLGFERKDYILENVSGLTRDN 362
                              *******************************************99989************************************** PP

                              BBEHHHHHHHHHHHH.CTCCHHHHHHCS-BTTTSGGGTTSST..HCTTTTTTTEEEEEEEETTEEEEEEEEESTTSEEEEEEEEEE CS
            Peptidase_S13 341 lvtaktlaqlLeaia.dqpalqalldsLPvAGesGtlenrfk..ltstpavGkvraKTGsLtgvssLaGyvttasGeklaFsflln 423
                              + +ak+la +L++++ d   + +++  LP+AG +Gtl+nr+k  + ++  +  vraKTG L gv+ LaGyv  ++   l+F+f+ n
  PHY93_06290|PHY93_06290 363 RFSAKQLALVLNTVKnDFLIFPEFVGGLPIAGVDGTLKNRMKtkMLDKSEQSLVRAKTGYLDGVVGLAGYVGRKNNSPLIFVFMFN 448
                              *************996667899********************88889*************************************** PP

                              S..S CS
            Peptidase_S13 424 g..l 425
                              g   
  PHY93_06290|PHY93_06290 449 GdyQ 452
                              7532 PP

>> Beta-lactamase2  Beta-lactamase enzyme family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   0.0     0.014        62       4      29 ..      48      73 ..      45      96 .. 0.79
   2 !   17.0   0.0   7.6e-07    0.0034      69     201 ..     296     444 ..     286     445 .. 0.76

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.014
                             TSEEEESTTS-EE-GGGGHHHHHHHH CS
          Beta-lactamase2  4 geelgvnadeefpaaStiKvpillal 29
                             +e++ vna++ +  aS+ K++  +a+
  PHY93_06290|PHY93_06290 48 REIFNVNASRMMVPASLTKIVTGAAV 73
                             5677***************9976444 PP

  == domain 2  score: 17.0 bits;  conditional E-value: 7.6e-07
                              HHHHHHHHHTT-HHHHHHHHHHH.............THHHHHHHHHHCTHTTSB--SHTTCCHHHTTSSTTEE-HHHHHHHHHHHH CS
          Beta-lactamase2  69 rdlltlmiavSDNtAtnlLidrl.............gleavnawlkelglretrlrrklpdleaadkdkrntttardlarlleala 141
                               ++ t m++ S N  + +L + l             g+e++++++++lg+++   +  l+++     +++n+ +a++la  l  + 
  PHY93_06290|PHY93_06290 296 NEITTDMLKFSNNFVAEMLAKNLaaenstvparmkdGIEEIKKYMDSLGFERKDYI--LENV--SGLTRDNRFSAKQLALVLNTVK 377
                              56677888888888888888888666666666666678888888888888766655..4444..44789***************** PP

                              HTTSSHHH.....HHHHH......HHT-STTTTTTTTTTTTSEEEEEEEEETTEEEEEEEEEE.TTEEEEEE CS
          Beta-lactamase2 142 rgellspe.....ellei......lsnqqfrdrlaaglpegvrvahKtGeldgvrhdvGivya.dgrpyvva 201
                              ++ l+ pe         i      l+n + + +l +   e+  v  KtG ldgv + +G+v   ++ p +++
  PHY93_06290|PHY93_06290 378 NDFLIFPEfvgglP---IagvdgtLKNRMKTKMLDKS--EQSLVRAKTGYLDGVVGLAGYVGRkNNSPLIFV 444
                              *******9774431...33334447777777777666..99********************99899999886 PP

>> Peptidase_S11  D-alanyl-D-alanine carboxypeptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.7   0.1   0.00047       2.1      24      55 ..      47      78 ..      41      94 .. 0.78
   2 !   11.5   0.1   3.2e-05      0.14     120     170 ..     329     380 ..     295     446 .. 0.82

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.00047
                             TEEEEEESTTS-BE-GGGHHHHHHHHHHHHHH CS
            Peptidase_S11 24 GkvLyeknadevveiASltKlmTaylvlealk 55
                             G+ + + na   + +ASltK++T   vl+ l 
  PHY93_06290|PHY93_06290 47 GREIFNVNASRMMVPASLTKIVTGAAVLNTLP 78
                             666788899999***********999998874 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 3.2e-05
                              HHHHHHHHHHHHHHTT-..TT-B-SSSSSTSHTTCBB-HHHHHHHHHHHHHHH CS
            Peptidase_S11 120 ekaFvkmMnkkakelGl..kntkfvnptGLdnenqvssArdlailakallkdl 170
                               k+ ++  +k++ +lG   k++  +n+ GL+ +n  +sA+ la++++ +++d+
  PHY93_06290|PHY93_06290 329 MKDGIEEIKKYMDSLGFerKDYILENVSGLTRDN-RFSAKQLALVLNTVKNDF 380
                              566689999*******96678999**********.99********99998874 PP

>> DUF348  G5-linked-Ubiquitin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0       1.5   6.9e+03      15      21 ..      89      95 ..      84      95 .. 0.83
   2 ?    5.6   0.0     0.003        14      23      39 ..     217     233 ..     217     235 .. 0.90
   3 ?    4.4   0.0     0.007        31      20      36 ..     261     277 ..     260     279 .. 0.88

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 1.5
                             --SSHHH CS
                   DUF348 15 aadTVgd 21
                             a++TV+d
  PHY93_06290|PHY93_06290 89 AKNTVKD 95
                             789**98 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.003
                              HHHTT----TT-EEES- CS
                   DUF348  23 LeeagitlgeqDkVsPs 39 
                              Le++ +++g++Dk+ +s
  PHY93_06290|PHY93_06290 217 LEALRVKVGDHDKIIVS 233
                              899**********9776 PP

  == domain 3  score: 4.4 bits;  conditional E-value: 0.007
                              HHHHHHTT----TT-EE CS
                   DUF348  20 gdlLeeagitlgeqDkV 36 
                              +++L++ gitl+ + kV
  PHY93_06290|PHY93_06290 261 KEFLKQRGITLKGKVKV 277
                              89*********998777 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (467 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       478  (0.0266607); expected 358.6 (0.02)
Passed bias filter:                      416  (0.0232026); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.59u 0.24s 00:00:00.83 Elapsed: 00:00:00.42
# Mc/sec: 3301.15
//
Query:       PHY93_06295|PHY93_06295  [L=582]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    8.7e-55  184.6   0.1    1.4e-54  184.0   0.1    1.3  1  Adenine_deam_C  Adenine deaminase C-terminal domain
    3.2e-26   92.5   0.0    5.6e-25   88.4   0.0    2.1  1  Amidohydro_1    Amidohydrolase family
    1.8e-08   34.3   0.0     0.0022   17.6   0.0    2.2  2  Amidohydro_3    Amidohydrolase family


Domain annotation for each model (and alignments):
>> Adenine_deam_C  Adenine deaminase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  184.0   0.1   2.3e-58   1.4e-54       2     168 ..     416     577 ..     415     578 .. 0.93

  Alignments for each domain:
  == domain 1  score: 184.0 bits;  conditional E-value: 2.3e-58
                              SS-EEEEEEEEEETTEEE-..-TTEEEEEEE--SSSS--EEEEEEESS--BSSEEEES--TTT--EEEEESSHHHHHHHHHHHHHT CS
           Adenine_deam_C   2 liTkelevelpvkdgvvvadlekdllkiavveRhgktgnvgvgfvkgfglkkgAiAssvahDshniivvGtndedmalAvnrviel 87 
                              +iT++++++   + +++    ++d+l+i+ +eR+g++ ++++g+vkg+gl kgAiA svahDshn++vvG++  ++++Avn++i+ 
  PHY93_06295|PHY93_06295 416 IITNHIIAKY--DGEKFD---QDDILFIVNIERYGNNLKPALGLVKGIGLSKGAIAASVAHDSHNLMVVGKTIGEIVVAVNALIKS 496
                              6777777775..333454...47*************************************************************** PP

                              TSEEEEEETTEEEEEEE-TBTTTBBSS-HHHHHHHHHHHH.HHHHTTS-TTTBSGGGGGSTT-TTSSSEEEETTSEEETTTT CS
           Adenine_deam_C  88 gGGivvvedgkvlaelpLpiaGlmSdepaeevaekleele.aalkelgvkledpfmtlsflalpviPelkltdkGlvdvkkf 168
                              gGG++vv++++v+a l+Lp+aGl+S +++ e++e++++l+ +++k lg++le+pf++++flalpviP+lkltdkGl+dv++f
  PHY93_06295|PHY93_06295 497 GGGLCVVDGKNVTALLELPLAGLLSLKTGIEIYEEIKKLKiEYHK-LGITLEEPFIQMAFLALPVIPKLKLTDKGLFDVSTF 577
                              ****************************************77777.*********************************998 PP

>> Amidohydro_1  Amidohydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   88.4   0.0   9.3e-29   5.6e-25       2     342 ..      81     361 ..      80     363 .. 0.89

  Alignments for each domain:
  == domain 1  score: 88.4 bits;  conditional E-value: 9.3e-29
                              EEE-EEEEEEECETTECSSSGHHHHHSTTHHHHHHHHHHHHHHHHTTEEEEEEEEHSSTHHHHHHHHHHHTSSSEEEEEEESSEGG CS
             Amidohydro_1   2 vlPGlIDaHvHleqsllrgatledwlvppetaaealesgiktalksGtttvadmgattstgiealleaaeelplglrilggkvsld 87 
                               +PG+ID H+H+e+s++          p e+ + +l  g++ta+ +++++++ mg     g ++ l+ +e + ++l + +++++++
  PHY93_06295|PHY93_06295  81 AVPGFIDGHLHIESSMM---------NPFEFERMTLPLGTTTAICDPHEITNVMGDR---GYSWFLRCSELMHQNLFVQTSSCVPA 154
                              69*************99.........9*****************************6...88999998888888************ PP

                              S..GCCCSHHHHHHHHHHHHHHHHHHCTTTCEE.EEEEECGTCCSHHHHHHHHHHHHHHH.TTEEEEEE..TSSCHHHHHHHHHHT CS
             Amidohydro_1  88 r..gsaetskasreklkagaaetikgkadgvvk.valapheapafsdeelkealkeakkr.dlpvaiHa..letkgevedaeaafg 167
                                 ++++  + + + +k++      ++++ v+  ++++  + + ++de + + +   +++ d++++ H+  l  k+ ++++ a+++
  PHY93_06295|PHY93_06295 155 LpgFETNGGEFKLVDMKKY------KTHPNVLGlAEMMNFPGVINGDESVLDKI---EEYsDMNLDGHCpmLRGKALNAYIAAGIQ 231
                              *999999999999999999......589999999**************997777...46668999999999*************** PP

                              TTEEEETTTTSTCCHHTTTHCCEEEHCTCEEEHHHHHHHHHHHHHHCEEHHHHHHHHSEHHHHHHHHHHHH..TSCEEEEEECTTS CS
             Amidohydro_1 168 etiehgthlevaeslglldeiklilahgvhltpteaellkerlkeagvahcpfsnsilrsgrealrkalde..GvkvglgtDgaas 251
                              + +e  t  e++e+          l++g+ l                       + ++++++  l ++++e  ++ ++l+tD    
  PHY93_06295|PHY93_06295 232 NCHETVTKEEGREK----------LQKGMALILR--------------------EGSVAKNLKTLSPLVTEfnSTQCFLCTD---D 284
                              ***********888..........*****99955....................345789999999**99984555******...7 PP

                              SCCGGHHHHHHHHHHHHHHCCTTTTHCHCHHHHHHHHHTHHHHHHTT-TTTSSSS-TTSB--EEEECCCTCGGGTTTCTSEEEEEE CS
             Amidohydro_1 252 gnslnlleelrlalklqrgllyedeegglslkealrmaTingAkalglddkvGsievGkdADlvvvdldilaafvglkkdgnvkkv 337
                               n  ++l+e+ +++++ ++ +    e ++++  a+r++++ +A+++gl +++G i++Gk+AD+v++         ++ ++ ++++v
  PHY93_06295|PHY93_06295 285 RNPYEILKEGHINYLIKKMIN----ELKIPVHIAYRLSSYSAARHFGL-KRLGLIAPGKQADIVLL---------KNLEKVEIAQV 356
                              777788888777775555333....5789**99***************.5****************.........99999999999 PP

                              EETTE CS
             Amidohydro_1 338 ivkGk 342
                              + +G+
  PHY93_06295|PHY93_06295 357 YMAGN 361
                              99997 PP

>> Amidohydro_3  Amidohydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.0   3.6e-07    0.0022       1      25 [.      72      96 ..      72     115 .. 0.83
   2 !   14.6   0.0   2.9e-06     0.017     408     461 ..     309     360 ..     295     390 .. 0.80

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 3.6e-07
             Amidohydro_3  1 eviDakGrlvlPGFvDsHtHlaggg 25
                             ++iD +G++ +PGF+D H+H+ +  
  PHY93_06295|PHY93_06295 72 QIIDGRGLTAVPGFIDGHLHIESSM 96
                             78******************65544 PP

  == domain 2  score: 14.6 bits;  conditional E-value: 2.9e-06
             Amidohydro_3 408 lsleealalyTrgpAkalgledrkGtLevGadADlvvldadpldvdppelaear 461
                              ++++ a +l +  +A+ +gl    G +++G++AD+v+l +++ +v+ +++++a+
  PHY93_06295|PHY93_06295 309 IPVHIAYRLSSYSAARHFGLKRL-GLIAPGKQADIVLL-KNLEKVEIAQVYMAG 360
                              56666777777777888888776.**************.699999988877765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (582 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       496  (0.0276647); expected 358.6 (0.02)
Passed bias filter:                      381  (0.0212505); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.62u 0.24s 00:00:00.86 Elapsed: 00:00:00.43
# Mc/sec: 4035.50
//
Query:       PHY93_06300|PHY93_06300  [L=111]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.8e-14   52.1   0.2    8.5e-14   51.6   0.2    1.2  1  GIY-YIG   GIY-YIG catalytic domain
  ------ inclusion threshold ------
      0.033   14.7   0.2       0.04   14.5   0.2    1.3  1  T5orf172  T5orf172 domain


Domain annotation for each model (and alignments):
>> GIY-YIG  GIY-YIG catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.6   0.2   9.5e-18   8.5e-14       2      78 .]       4      79 ..       3      79 .. 0.89

  Alignments for each domain:
  == domain 1  score: 51.6 bits;  conditional E-value: 9.5e-18
                             -EEEEEEETTT--EEEEEESSHHHHHHHH..HHHHHHT--S-HS.STEEEEEEEE----HHHHHHHHHHHHHHTTSSSS CS
                  GIY-YIG  2 ggvYiirskenkliYvGstknlekRlkqH..nagkkakytrkkgkkpfeliileifptksealelEkklikkyksnkyn 78
                             ++vYii  ++n l Y+G+t+++++R+++H     ++ak  r    kp++++++e ++++sea   E +++k ++ +k n
  PHY93_06300|PHY93_06300  4 WFVYIIHTEKNRL-YTGITTDIDRRFQEHsgELPRGAKFFRS--DKPLKIVYVEPCKNRSEASIKESAIKKLTRLQKEN 79
                             99****9998886.***************7667777777776..****************************9986665 PP

>> T5orf172  T5orf172 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.2   4.5e-06      0.04       2      48 ..       5      54 ..       4      97 .. 0.63

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 4.5e-06
                 T5orf172  2 yvYiltnessegetillKIGrtsnvqrRlkelsk........yptkppselevva 48
                             +vYi++ e++     +l  G+t++++rR++e+s           + +p ++ +v+
  PHY93_06300|PHY93_06300  5 FVYIIHTEKN-----RLYTGITTDIDRRFQEHSGelprgakfFRSDKPLKIVYVE 54
                             7999944333.....4668**************7666666553333333333322 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (111 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       458  (0.0255452); expected 358.6 (0.02)
Passed bias filter:                      298  (0.0166211); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 836.66
//
Query:       PHY93_06305|PHY93_06305  [L=205]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.3e-31  110.0   0.0    1.6e-31  109.7   0.0    1.1  1  Pro_CA    Carbonic anhydrase


Domain annotation for each model (and alignments):
>> Pro_CA  Carbonic anhydrase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  109.7   0.0     9e-36   1.6e-31       3     156 .]      59     200 ..      57     200 .. 0.88

  Alignments for each domain:
  == domain 1  score: 109.7 bits;  conditional E-value: 9e-36
                              EEEETTTTS-HHHHTTS-TTSEEEEEETTG---TT-HHHHHHHHHHHHTS--SEEEEEEETT-HHHHHHHSHHCCSTTSSHHHHHH CS
                   Pro_CA   3 vigCsDSRvppelitdagpGdlFvvrnvgnlvppadssvlaaleyAvevlkvkhivVlGHskCGavkaalkaekseeeagaidkwl 88 
                              ++gC+DSRv+pel++d+g+GdlF++r +g ++   +++v+++le+Avevl+v+ ivV+GH++CGa +a+++     e++++++ + 
  PHY93_06305|PHY93_06305  59 ILGCADSRVVPELVFDVGIGDLFTCRIAGTVL---SDAVIGSLEFAVEVLGVPLIVVMGHENCGAFRACMNP----EHHPNVKGIS 137
                              79******************************...99******************************77753....23799***** PP

                              HHHHHHHHHCHHHHHTTSSHHHHHHHHHHHHHHHHHHHHHCS.HHHHHHHHTTS-EEEEEEEETTTTEE CS
                   Pro_CA  89 ekirealekveeelesekekearerlleeenVaeqlenLlek.pvvreavekgklkvhGlvydletGev 156
                               +i++++e++++   +      + +    +n ++  ++L++  p+++++v++g++k++ ++++l+tG v
  PHY93_06305|PHY93_06305 138 WQIMPIIEECRSLPGD-----LLYNS-ILANARKVSQQLRTVgPILSQKVRSGEIKIIPAYHSLSTGLV 200
                              *********9975333.....34444.5677777777888888***********************975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (205 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       339  (0.0189079); expected 358.6 (0.02)
Passed bias filter:                      334  (0.018629); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 1515.95
//
Query:       PHY93_06310|PHY93_06310  [L=207]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.8e-12   47.6   0.4    2.7e-12   47.0   0.4    1.3  1  HD        HD domain


Domain annotation for each model (and alignments):
>> HD  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.0   0.4   1.5e-16   2.7e-12       3     120 ..      26     126 ..      24     128 .. 0.86

  Alignments for each domain:
  == domain 1  score: 47.0 bits;  conditional E-value: 1.5e-16
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTHHHHTS..HHHHHHCTCCHHHHHHHHHHHHHHHHHHHHH.HHHHHHHHHT CS
                       HD   3 eHsleVaklarrlaedlgeeedrellllaaLlHDiGkgpfgdafekkeeefekflaHekvgaeilrevekrlgld.ledvaklire 87 
                               H l+V k a++la  +g  ++ e++  aa lHD+++ p ++     +e     +  +k + e l  v +++  + + ++a++i++
  PHY93_06310|PHY93_06310  26 SHVLRVVKTAKMLALAEG--ANLEVIIPAAWLHDLVNLPKNH-----PERSLASKLAAKAALEFLTSVDYPQ--KyFPEIAHAIEA 102
                              7*****************..*******************999.....4433344566777777777777777..36********** PP

                              TCCHHHHHHHHHHHHCCTSCHHHHHHHHHHHHH CS
                       HD  88 hheswegkkrprglaerqlslearivklaDrla 120
                              h++s  +          + slea+iv++aDrl+
  PHY93_06310|PHY93_06310 103 HSFSGGIH---------PESLEAKIVQDADRLD 126
                              *****865.........**************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (207 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       650  (0.0362541); expected 358.6 (0.02)
Passed bias filter:                      512  (0.0285571); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.24s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1547.90
//
Query:       PHY93_06315|PHY93_06315  [L=133]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
     0.0014   18.2   7.0     0.0014   18.2   7.0    1.1  1  FAP           Fibronectin-attachment protein (FAP)
  ------ inclusion threshold ------
        1.2    9.3   4.0       0.28   11.3   0.3    1.8  2  Internalin_N  Bacterial adhesion/invasion protein N terminal


Domain annotation for each model (and alignments):
>> FAP  Fibronectin-attachment protein (FAP)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   7.0   1.5e-07    0.0014      12      96 ..      10      95 ..       1     131 [. 0.73

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 1.5e-07
                      FAP 12 kglsktlaiaavagasavalalPavanad..pePaPppPstaeaapaeaaaapaPaapapaPapadpnapeaaPapadPnapapppa 96
                               ls++la++   ++     a P++++    p+P  ++P++++++ + aa++++ +  + + + a++ +p ++Papa  n+p+ +p+
  PHY93_06315|PHY93_06315 10 TFLSTALALTIFVSMNNSYAATPSTTSGIyfPTPITTSPPATTTTTTGAAPTSTSGLMI-PLPGASAVSPGVNPAPATINSPTATPV 95
                             557899******************99998345555555555555555444444433333.4445678999*******9999876665 PP

>> Internalin_N  Bacterial adhesion/invasion protein N terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.3   3.2e-05      0.28       9      43 ..       8      44 ..       2      46 .. 0.85
   2 ?   -2.0   0.3      0.45     4e+03      39      44 ..      82      88 ..      70      92 .. 0.57

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 3.2e-05
                             XXXXXXXXXXXXXXXXXXXX..XXXXGSXS-SSSEEH CS
             Internalin_N  9 klltvtlvLllsllvltsnG..ekvqAeasitpPaPI 43
                             +l++++++L+l++ v + n   ++++    i+ P+PI
  PHY93_06315|PHY93_06315  8 NLTFLSTALALTIFVSMNNSyaATPSTTSGIYFPTPI 44
                             6899***********999997677777769******9 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.45
                             S.SEEHH CS
             Internalin_N 39 p.PaPIn 44
                             p Pa In
  PHY93_06315|PHY93_06315 82 PaPATIN 88
                             3344444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (133 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       398  (0.0221987); expected 358.6 (0.02)
Passed bias filter:                      218  (0.0121591); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.20s 00:00:00.67 Elapsed: 00:00:00.42
# Mc/sec: 940.43
//
Query:       PHY93_06320|PHY93_06320  [L=76]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.9e-17   61.4   1.6    7.2e-17   61.1   1.6    1.1  1  DUF5522        Family of unknown function (DUF5522)
     0.0037   16.9   3.7     0.0058   16.3   3.7    1.4  1  Oxidored-like  Oxidoreductase-like protein, N-terminal


Domain annotation for each model (and alignments):
>> DUF5522  Family of unknown function (DUF5522)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.1   1.6     8e-21   7.2e-17       4      46 ..       7      48 ..       4      50 .. 0.90

  Alignments for each domain:
  == domain 1  score: 61.1 bits;  conditional E-value: 8e-21
                  DUF5522  4 ealeegedyyldpetgymVfTelyhlkRgkCCgngCRHCPYgh 46
                              al  + d+y+ +  g  VfTe+yhl Rg+CC++gC HCPY +
  PHY93_06320|PHY93_06320  7 PALTLNVDFYI-NSDGNLVFTEKYHLDRGHCCQSGCLHCPYRY 48
                             56777889***.899**************************87 PP

>> Oxidored-like  Oxidoreductase-like protein, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   3.7   6.5e-07    0.0058      16      34 ..      35      52 ..      34      67 .. 0.87

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 6.5e-07
            Oxidored-like 16 nCCmSGCvnCVwdlYredl 34
                             +CC+SGC +C + +Yr+ +
  PHY93_06320|PHY93_06320 35 HCCQSGCLHCPY-RYRDKV 52
                             6*********99.577766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (76 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       536  (0.0298957); expected 358.6 (0.02)
Passed bias filter:                      305  (0.0170115); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 588.56
//
Query:       PHY93_06325|PHY93_06325  [L=125]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      6e-25   86.9   0.0    7.4e-25   86.6   0.0    1.1  1  RRM_1         RNA recognition motif. (a.k.a. RRM, RBD, or RNP
  ------ inclusion threshold ------
       0.05   13.5   0.0      0.059   13.2   0.0    1.3  1  RRM_occluded  Occluded RNA-recognition motif
       0.05   13.2   0.0      0.064   12.8   0.0    1.1  1  RRM_5         RNA recognition motif. (a.k.a. RRM, RBD, or RNP


Domain annotation for each model (and alignments):
>> RRM_1  RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.6   0.0   1.2e-28   7.4e-25       1      70 []       5      75 ..       5      75 .. 0.98

  Alignments for each domain:
  == domain 1  score: 86.6 bits;  conditional E-value: 1.2e-28
                             EEEESETTTSSHHHHHHHHHTTSCEEEEEEEEE.TTTSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE CS
                    RRM_1  1 lfVgnLppdvteeeLkelFskfGpiksiklvrd.etgkskgfafVeFeskedAekAlealngkklggrelk 70
                             l+VgnLp+++te+ Lk++Fs  G++ s+k++ d etg+skgf+fVe+es + A++A+++l+g++++gr l+
  PHY93_06325|PHY93_06325  5 LYVGNLPYSATEDGLKTHFSSAGSVASVKIIIDrETGRSKGFGFVEMESDDGAQSAVSQLDGQEYEGRSLR 75
                             8*******************************************************************885 PP

>> RRM_occluded  Occluded RNA-recognition motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   9.9e-06     0.059      42      73 ..      48      79 ..       5      81 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 9.9e-06
             RRM_occluded 42 ivefkdekiagkasLaLdgsefegkklrcGtv 73
                             +ve+++   a  a+ +Ldg+e+eg++lr+++ 
  PHY93_06325|PHY93_06325 48 FVEMESDDGAQSAVSQLDGQEYEGRSLRVSEA 79
                             7999999*********************9976 PP

>> RRM_5  RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   1.1e-05     0.064      40     101 ..      15      81 ..       4      87 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 1.1e-05
                    RRM_5  40 nldklFnlfclYgnvervkflktk.....ketalvqmgdasaveravqHLnnaklfgkrlevalSKq 101
                              + d l   f+  g v+ vk++  +     k+  +v+m +   ++ av+ L +++  g+ l+v   K 
  PHY93_06325|PHY93_06325  15 TEDGLKTHFSSAGSVASVKIIIDRetgrsKGFGFVEMESDDGAQSAVSQLDGQEYEGRSLRVSEAKP 81 
                              566677778889999999999765222226889****************************998885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (125 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       352  (0.019633); expected 358.6 (0.02)
Passed bias filter:                      235  (0.0131073); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 962.66
//
Query:       PHY93_16305|PHY93_16305  [L=61]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (61 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       145  (0.00808746); expected 358.6 (0.02)
Passed bias filter:                      127  (0.0070835); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.37u 0.23s 00:00:00.60 Elapsed: 00:00:00.40
# Mc/sec: 457.51
//
Query:       PHY93_05375|PHY93_05375  [L=396]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0022   18.5   0.6     0.0078   16.8   0.1    2.1  2  POTRA     Surface antigen variable number repeat


Domain annotation for each model (and alignments):
>> POTRA  Surface antigen variable number repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.1   4.4e-07    0.0078       2      44 ..      22      64 ..      21      91 .. 0.86
   2 ?   -1.5   0.0      0.22   3.9e+03      23      60 ..     192     228 ..     177     240 .. 0.75

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 4.4e-07
                             EEEEEEEES.SSS-HHHHHTTTSSSTTSBHCHHHHHHHHHHHH CS
                    POTRA  2 kikkinfeGnkktkdeelrrelelkegdvynpekleadkealk 44
                             +ik+i+++G +ktk + l+r+++++ gd ++p +le+ + +++
  PHY93_05375|PHY93_05375 22 VIKDIQVTGQTKTKPWALLRRVNVQIGDDLTPLELEDLRIRVS 64
                             79*******99*****************999999987766554 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.22
                              TSSSTTSBHCHHHHHHHHHHHHHHHHCTT-EE.EEEEE CS
                    POTRA  23 lelkegdvynpekleadkealksryanlGyfdasVqve 60 
                              + +k+g ++ ++++ ++ ++++++ +  G  + + +++
  PHY93_05375|PHY93_05375 192 MVFKTGPIFFKKDIVQSNSNIEQKFEGGGLRS-RFNIK 228
                              55788888888888888888888877777766.55554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (396 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       414  (0.0230911); expected 358.6 (0.02)
Passed bias filter:                      301  (0.0167884); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.18s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 2955.07
//
Query:       PHY93_06330|PHY93_06330  [L=553]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   4.5e-103  345.1   0.0   5.5e-103  344.8   0.0    1.1  1  AMP-binding      AMP-binding enzyme
    1.8e-21   76.9   1.5    4.7e-18   65.9   0.6    2.9  2  AMP-binding_C    AMP-binding enzyme C-terminal domain
  ------ inclusion threshold ------
       0.13   12.6   0.1         35    4.9   0.0    2.7  3  FDX-ACB          Ferredoxin-fold anticodon binding domain
       0.14   12.4   0.1       0.43   10.9   0.1    1.9  1  AMP-binding_C_2  AMP-binding enzyme C-terminal domain


Domain annotation for each model (and alignments):
>> AMP-binding  AMP-binding enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  344.8   0.0  1.2e-106  5.5e-103      13     422 ..      43     463 ..      31     464 .. 0.88

  Alignments for each domain:
  == domain 1  score: 344.8 bits;  conditional E-value: 1.2e-106
                              EEEECCSTEEEEHHHHHHHHHHHHHHHH.HTTSSTT-EEEEEESSSHHHHHHHHHHHHTT-EEEEEETTS-HHHHHHHHHHHTESE CS
              AMP-binding  13 alvdsgegqtlTYreldervnrlAagLr.slGvkkgdrVaillpnspewvvallailkaGavvvplnptltaeelayiledseakv 97 
                              a++    g+ lTY+e d+ ++++A++L+ +l +kkgdrVai+lpn +++ v+l++il+aG+v+v +np +t++el+++++ds+a +
  PHY93_06330|PHY93_06330  43 AYHC--MGKDLTYGEIDQLSQKFASYLEnNLSLKKGDRVAIMLPNILQYPVVLFGILRAGMVAVNVNPLYTSRELEHQMKDSGAVA 126
                              4545..6899******************99******************************************************** PP

                              EE..ETCTCCC..HHHHHHHHSCC-EECEEEEESCCS-HCCHCCCHCCCCSCTTS.....................-TSCCCS-BT CS
              AMP-binding  98 li..atvdsel..leklleaaakleavklvivldadellkeeelkeeeeseekae.....................kpeeeeelkp 158
                              ++  +   +++  l+++l++++  + v ++ + d  +++k+  +++  ++ +k                       +   ++ l++
  PHY93_06330|PHY93_06330 127 IVifE---NAChtLQSVLPHTE-IKYVITTSIGDMLGFPKSLIVNFVIKKVKKMIpawsipntihfvdalksadasQF-HKPVLTK 207
                              *9442...33333566777665.7899999999999999998888887666554257889999***********9733.334699* PP

                              TSEEEEEEE--SSSS-EEEEEEHHHHHHHHHHHH..HHHCSCCTTT-EEEESS-TTSCHHHHHHHHHHHHTT-EEEE-TTCGCCHH CS
              AMP-binding 159 ddlayiiYTSGTTGkPKGVmlshrnlvanvaslk..letrfklkeddvvlsilplahifglilelllallsGatvvllpkdaaldp 242
                              +d+a+++YT+GTTG  KG++l h+n++an++++   +++  +l  ++ +++ lpl+hif+l+++++++ + G+  +l+++  +l p
  PHY93_06330|PHY93_06330 208 NDIAFLQYTGGTTGVAKGAILLHKNIIANICQARawISPLVSL-GEEIIITPLPLYHIFSLTANCFVFGSIGGLNILITNPRDL-P 291
                              ********************************86533333333.37888999*************************9955544.4 PP

                              HHHHHHHHHHT-SEEEEEHHHHHHHHHCCCHHCHHHHCCGTT-SEEEEESS-EBHHHHHHHHHHHTCEEEEEEEEGGGSSECEECH CS
              AMP-binding 243 klllelieklkvtviagvPrvleallesgalkaakkakdlsslrlvllggeplspellrffralfgeevlegYGlTEttgvvtvlp 328
                              + +++ ++k+k t ++gv+++++ ll+++++k      d+ssl+l+l gg ++++++++++++++g++++e+YGlTEt+++++ ++
  PHY93_06330|PHY93_06330 292 G-FIKELKKWKFTAFTGVNTLFNGLLNNPQFK----TVDFSSLKLTLGGGMAVQKSVAEKWKETTGKALIEAYGLTETSPAAC-IN 371
                              5.55999********************99888....44*********************************************.66 PP

                              CTTTCTSTTS-BEE-TTEEEEEE-TTTSCBEETTSEEEEEEEETTS-SEBTT-HHHHHHHEEETCCEEEEEEEEEEETTSEEEEEE CS
              AMP-binding 329 leedkkklgsvGkplpgvevkivDeetgepvpdgeeGellvrgpgvmkgYlkkpeataeafdsegrwlrTGDlgrldedGyleivg 414
                              +++ kk  g +G p+p + v+i+D+  ++ +p ge Ge++v+gp+vm+gY++++++ta++++ ++++l+TGD+g++++dG ++iv+
  PHY93_06330|PHY93_06330 372 PMDLKKFNGFIGLPIPSTNVEIKDDL-EKTLPLGENGEICVKGPQVMPGYWNRDDETAKVMT-KDGFLKTGDIGVMNADGFIKIVD 455
                              68888999*****************9.899*******************************9.767******************** PP

                              ECCCEEEE CS
              AMP-binding 415 Rkkdlikl 422
                              Rkkd+i++
  PHY93_06330|PHY93_06330 456 RKKDMIIV 463
                              ******98 PP

>> AMP-binding_C  AMP-binding enzyme C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.8   0.0   0.00072       3.2      46      70 ..     169     193 ..     116     197 .. 0.91
   2 !   65.9   0.6     1e-21   4.7e-18       1      76 []     472     546 ..     472     546 .. 0.95

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.00072
                              HHHHHHHHT-TTTS-SEEEE-S--- CS
            AMP-binding_C  46 Lkahvrkelgpyavpkkvvfvdelp 70 
                              ++++v+k ++++  p++++fvd+l 
  PHY93_06330|PHY93_06330 169 VIKKVKKMIPAWSIPNTIHFVDALK 193
                              7899******************986 PP

  == domain 2  score: 65.9 bits;  conditional E-value: 1e-21
                              HHHHHHHSSTTEEEEEEE-----TTS---EEEEEE------HHHHHHHHHHHHT-TTTS-SEEEE-S---B-TTS- CS
            AMP-binding_C   1 evEsalvshpaVaeaaVvGvpdevkGealvafVvlkdgsealeeeLkahvrkelgpyavpkkvvfvdelpktrsGK 76 
                              e+E++++ hp+V e+a+vGvpde++ ea++ f+v kd+ ++++ee+++++r++l  y+ p++v+f +elpkt  GK
  PHY93_06330|PHY93_06330 472 EIEEVVSLHPKVFEVAAVGVPDEKTSEAVKLFIVKKDE-SLTAEEIISFCRENLTNYKIPRQVEFRNELPKTNVGK 546
                              8*********************************9855.4579*******************************99 PP

>> FDX-ACB  Ferredoxin-fold anticodon binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6   0.0    0.0098        44      49      90 ..      31      72 ..      19      74 .. 0.86
   2 ?   -3.3   0.0       2.8   1.3e+04      43      69 ..     109     137 ..     102     141 .. 0.63
   3 ?    4.9   0.0    0.0077        35      48      78 ..     490     520 ..     466     536 .. 0.85

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.0098
                             S-SSEEEEEEEEEE--SSS---HHHHHHHHHHHHHHHHTT.T CS
                  FDX-ACB 49 laegkkSlalrltlqskertLtdeevnaaiekvvealekklg 90
                             l+e+ k+ al+  ++ + + Lt  e++++ +k+ + le++l+
  PHY93_06330|PHY93_06330 31 LEETFKNFALNKAYHCMGKDLTYGEIDQLSQKFASYLENNLS 72
                             67889999*****************************99876 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 2.8
                              EEESTTS-.SSEEEEEEEEE.E--SSS-- CS
                  FDX-ACB  43 vYrgkkla.egkkSlalrlt.lqskertL 69 
                               Y+  +l+ + k S a++++ ++++ +tL
  PHY93_06330|PHY93_06330 109 LYTSRELEhQMKDSGAVAIViFENACHTL 137
                              57777777567777777765245555666 PP

  == domain 3  score: 4.9 bits;  conditional E-value: 0.0077
                              TS-SSEEEEEEEEEE--SSS---HHHHHHHH CS
                  FDX-ACB  48 klaegkkSlalrltlqskertLtdeevnaai 78 
                              +++ +k S a++l + +k+++Lt ee+ +  
  PHY93_06330|PHY93_06330 490 GVPDEKTSEAVKLFIVKKDESLTAEEIISFC 520
                              577899********************97665 PP

>> AMP-binding_C_2  AMP-binding enzyme C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.1   9.6e-05      0.43       1      45 [.     465     509 ..     465     546 .. 0.83

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 9.6e-05
                              TEEE-HHHHHHHHHT-TTEEEEEEEEEEEETTEEEEEEEEEE-TT CS
          AMP-binding_C_2   1 GvnvfPsqieevlkeieevepeYqivvtregelDelevkvEvkeg 45 
                              G nv+P +ieev++  ++v +   + v +e++ + +++ +  k++
  PHY93_06330|PHY93_06330 465 GFNVYPNEIEEVVSLHPKVFEVAAVGVPDEKTSEAVKLFIVKKDE 509
                              89****************999999999999999999988766664 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (553 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       392  (0.021864); expected 358.6 (0.02)
Passed bias filter:                      361  (0.020135); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.57u 0.25s 00:00:00.82 Elapsed: 00:00:00.42
# Mc/sec: 3949.05
//
Query:       PHY93_06335|PHY93_06335  [L=117]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (117 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       228  (0.0127168); expected 358.6 (0.02)
Passed bias filter:                      160  (0.00892409); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.41
# Mc/sec: 850.40
//
Query:       PHY93_21490|PHY93_21490  [L=182]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (182 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       145  (0.00808746); expected 358.6 (0.02)
Passed bias filter:                       69  (0.00384851); expected 358.6 (0.02)
Passed Vit filter:                         3  (0.000167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.20s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 1383.37
//
Query:       PHY93_21495|PHY93_21495  [L=90]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (90 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       398  (0.0221987); expected 358.6 (0.02)
Passed bias filter:                      329  (0.0183502); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.22s 00:00:00.61 Elapsed: 00:00:00.39
# Mc/sec: 697.54
//
Query:       PHY93_21500|PHY93_21500  [L=96]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.2e-12   45.9  14.0    2.5e-06   27.7   1.9    2.3  2  DUF1540   Domain of Unknown Function (DUF1540)


Domain annotation for each model (and alignments):
>> DUF1540  Domain of Unknown Function (DUF1540)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.7   1.9   1.4e-10   2.5e-06       2      28 ..      13      49 ..      13      57 .. 0.74
   2 !   23.5   4.6   2.7e-09   4.9e-05       3      44 ..      64      95 ..      63      96 .] 0.78

  Alignments for each domain:
  == domain 1  score: 27.7 bits;  conditional E-value: 1.4e-10
                  DUF1540  2 kCsVsnCkYnkegnkCtaeeIeVesd............s 28
                             +C+Vs+C Yn  ++ C+a++I+V  d            s
  PHY93_21500|PHY93_21500 13 QCDVSSCGYNV-NDTCHAKAITVG-DhfnpgcdtffegS 49
                             5**********.***********4.44877776665432 PP

  == domain 2  score: 23.5 bits;  conditional E-value: 2.7e-09
                  DUF1540  3 CsVsnCkYnkegnkCtaeeIeVesdstaesnaksseeTcCkt 44
                             C+V +CkYn+ + +Ctae+I V  +         + e +C t
  PHY93_21500|PHY93_21500 64 CKVGTCKYNN-DFECTAENIIVGFS---------KHEINCLT 95
                             **********.***********222.........45555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (96 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       450  (0.025099); expected 358.6 (0.02)
Passed bias filter:                      213  (0.0118802); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.23s 00:00:00.63 Elapsed: 00:00:00.40
# Mc/sec: 713.79
//
Query:       PHY93_21505|PHY93_21505  [L=81]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.3e-19   69.9   0.8    2.5e-19   69.7   0.8    1.0  1  PDDEXK_2  PD-(D/E)XK nuclease family transposase


Domain annotation for each model (and alignments):
>> PDDEXK_2  PD-(D/E)XK nuclease family transposase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.7   0.8   1.4e-23   2.5e-19       1      75 [.       7      80 ..       7      81 .] 0.97

  Alignments for each domain:
  == domain 1  score: 69.7 bits;  conditional E-value: 1.4e-23
                 PDDEXK_2  1 plnDyvfKlLFgkeenkdiLidflnavlkkeeeeikeieilntenlketeedkesilDvkaktksgekiiiEiQk 75
                             p+nD vfKl F+ke+n   Li+fl++vl   ++ i+++ +ln+++ k+  ++k silD+ ++ k+g+k+++E+Q+
  PHY93_21505|PHY93_21505  7 PKNDIVFKLFFSKEKNRPFLISFLESVLM-PNNPIADAILLNPQITKNMMDEKASILDLVIQLKDGTKFDVEMQQ 80
                             79***************************.7779****************************************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (81 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       508  (0.028334); expected 358.6 (0.02)
Passed bias filter:                      377  (0.0210274); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.22s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 618.61
//
Query:       PHY93_21510|PHY93_21510  [L=221]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.5e-06   28.2   0.0      3e-06   27.2   0.0    1.5  1  RES       RES domain


Domain annotation for each model (and alignments):
>> RES  RES domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.2   0.0   1.7e-10     3e-06       9     139 ..      50     177 ..      42     196 .. 0.74

  Alignments for each domain:
  == domain 1  score: 27.2 bits;  conditional E-value: 1.7e-10
                      RES   9 dylaaapfsg..pgaaagggRfnsa..gigvlYaAssvatAlaEvlvh..rgrfldataglpll.lprdlrlldlevpdarlvdld 87 
                              + l ++pf++  p +a +g+Rf ++      +Y++ +  tA    ++h   +r + ++++   +  p+++  + +    +++ ++ 
  PHY93_21510|PHY93_21510  50 HELIYTPFRYplPVGADFGARFRPPlsTDNLFYCSKEKNTAYSASAHHalEERLHLNDKED--EvIPKTCFGIIIN-NFENFYSI- 131
                              33499*******************999********************96533333333333..2233433333333.25666666. PP

                      RES  88 rgaalerlpkwadpasdysatqaiadalraagidGilypSarddpggrnlvl 139
                                 ++ ++  ++    dy  + +i+ + ++ + dG++ypSar  +g+ n+++
  PHY93_21510|PHY93_21510 132 -KIDDPEIKIIMGN--DYKKSYEISTREAD-K-DGFIYPSARIKNGT-NFAI 177
                              .5555555535555..*********88888.4.8*******986665.*998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (221 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       501  (0.0279436); expected 358.6 (0.02)
Passed bias filter:                      313  (0.0174578); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1647.64
//
Query:       PHY93_21515|PHY93_21515  [L=119]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.1e-12   45.4   0.0    1.5e-11   44.1   0.0    1.6  2  DUF2384   Protein of unknown function (DUF2384)
     0.0051   16.6   0.0     0.0084   15.9   0.0    1.4  1  HTH_23    Homeodomain-like domain
  ------ inclusion threshold ------
      0.041   14.1   0.0      0.073   13.3   0.0    1.5  1  HTH_17    Helix-turn-helix domain
      0.049   13.3   0.0        0.1   12.3   0.0    1.6  1  CENP-B_N  CENP-B N-terminal DNA-binding domain
      0.064   13.5   0.0        4.6    7.5   0.0    2.6  3  CENP-W    CENP-W protein
      0.071   12.8   0.0       0.11   12.3   0.0    1.3  1  UPF0175   Uncharacterised protein family (UPF0175)
      0.082   11.7   0.0      0.085   11.7   0.0    1.1  1  RNA_pol   DNA-dependent RNA polymerase
      0.087   12.9   0.1        0.2   11.7   0.0    1.6  2  HTH_3     Helix-turn-helix


Domain annotation for each model (and alignments):
>> DUF2384  Protein of unknown function (DUF2384)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0       1.6   3.5e+03      13      18 ..      40      45 ..      37      55 .. 0.80
   2 !   44.1   0.0   6.9e-15   1.5e-11       2      49 ..      69     117 ..      68     119 .] 0.92

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 1.6
                  DUF2384 13 arWLrr 18
                              rWL++
  PHY93_21515|PHY93_21515 40 ERWLKE 45
                             589996 PP

  == domain 2  score: 44.1 bits;  conditional E-value: 6.9e-15
                  DUF2384   2 aealfgdeeraarWLrrPnpaLggrtPldlldt.eaGarlVedyLdrir 49 
                              +  +f++++++  WL++P+p+L +++P+dl++  ++G+  V++yLd  r
  PHY93_21515|PHY93_21515  69 LSQMFESKRNLNSWLNSPHPRLSDKKPIDLMKAdVEGLIFVRRYLDYSR 117
                              6789****************************77***********9766 PP

>> HTH_23  Homeodomain-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.0   3.8e-06    0.0084      18      40 ..      23      45 ..      10      47 .. 0.91

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 3.8e-06
                   HTH_23 18 lsvreIAreLgvsrrTvyrwlkr 40
                             ls+++I ++ +++++T+ rwlk 
  PHY93_21515|PHY93_21515 23 LSYEKIGELAHIPKSTIERWLKE 45
                             79*******************95 PP

>> HTH_17  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   3.2e-05     0.073       5      30 ..      26      51 ..      22      65 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 3.2e-05
                   HTH_17  5 eEaAelLgvsrstvyrlirrgelpaa 30
                             e + el ++ +st+ r+++++++p +
  PHY93_21515|PHY93_21515 26 EKIGELAHIPKSTIERWLKEKKIPTT 51
                             55668899***************865 PP

>> CENP-B_N  CENP-B N-terminal DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   4.4e-05       0.1      24      47 ..      24      47 ..       9      48 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 4.4e-05
                             -HHHHHHHHT--CCHHHHHHHCHH CS
                 CENP-B_N 24 SkaelarrfnvpestlsdilknKk 47
                             S + ++   ++p+st+ ++lk Kk
  PHY93_21515|PHY93_21515 24 SYEKIGELAHIPKSTIERWLKEKK 47
                             5566777779************97 PP

>> CENP-W  CENP-W protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.0      0.81   1.8e+03      56      79 ..       3      26 ..       2      29 .. 0.79
   2 ?    7.5   0.0     0.002       4.6      17      47 ..      34      64 ..      28      82 .. 0.85
   3 ?    3.1   0.0     0.048   1.1e+02      29      59 ..      86     117 ..      71     119 .] 0.73

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 0.81
                   CENP-W 56 eesrtnacenksgvikkdhvlaaa 79
                             ee++t a  +    ik++  l+  
  PHY93_21515|PHY93_21515  3 EEAKTSAIIKTLTYIKNEWELSYE 26
                             899999999999999988777655 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.002
                   CENP-W 17 aprgflkrvlkrrkphlrleascdllvhlnc 47
                              p++ + r lk++k     +++ dl++h+  
  PHY93_21515|PHY93_21515 34 IPKSTIERWLKEKKIPTTAKTEIDLIIHFIS 64
                             69999***********************865 PP

  == domain 3  score: 3.1 bits;  conditional E-value: 0.048
                   CENP-W  29 rkphlrleascdll.vhlncllfirrlaeesr 59 
                               +p l  ++  dl+   ++ l+f+rr  + sr
  PHY93_21515|PHY93_21515  86 PHPRLSDKKPIDLMkADVEGLIFVRRYLDYSR 117
                              34445555667887357999******998887 PP

>> UPF0175  Uncharacterised protein family (UPF0175)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   4.7e-05      0.11      33      69 ..      22      58 ..       2      59 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 4.7e-05
                  UPF0175 33 rlSlgkAaelaglsrveflelLarrgiplinydeeel 69
                             +lS  k  ela +++ + ++ L++++ip+   +e +l
  PHY93_21515|PHY93_21515 22 ELSYEKIGELAHIPKSTIERWLKEKKIPTTAKTEIDL 58
                             79**************************877776665 PP

>> RNA_pol  DNA-dependent RNA polymerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   3.8e-05     0.085     179     232 ..      39      92 ..      22     114 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 3.8e-05
                              HHHHTHHH.....TTHHHHHHHHHHH.HHHHHHTTSHHHHHHHHHHHHHHHHHHS CS
                  RNA_pol 179 iekqlkeleeveeeellkaasylakl.ilksleelfkgakeiqkwLkelakliak 232
                              ie+ lke+ +++++ ++++   +    i+ksl+++f++ +++++wL++   ++++
  PHY93_21515|PHY93_21515  39 IERWLKEK-KIPTTAKTEIDLIIHFIsIFKSLSQMFESKRNLNSWLNSPHPRLSD 92 
                              44555555.4554444444444444339******************987766665 PP

>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0     9e-05       0.2      10      38 ..      23      51 ..      22      53 .. 0.93
   2 ?   -3.0   0.0       3.6   8.1e+03      22      30 ..      75      83 ..      68      90 .. 0.58

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 9e-05
                             HHHHHHHHHHTSSHHHHHHHHTTSSCSBH CS
                    HTH_3 10 lsqeeLAeklGvsrstisriEnGernPsl 38
                             ls e++ e++ +++sti r+ + + +P+ 
  PHY93_21515|PHY93_21515 23 LSYEKIGELAHIPKSTIERWLKEKKIPTT 51
                             79999*********************985 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 3.6
                             SHHHHHHHH CS
                    HTH_3 22 srstisriE 30
                             s++ ++ + 
  PHY93_21515|PHY93_21515 75 SKRNLNSWL 83
                             444455555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (119 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       620  (0.0345808); expected 358.6 (0.02)
Passed bias filter:                      471  (0.0262703); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.43u 0.24s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 874.58
//
Query:       PHY93_17445|PHY93_17445  [L=720]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.5e-79  266.5  22.6    2.5e-79  266.5  22.6    2.5  2  Proton_antipo_M  Proton-conducting membrane transporter
    7.1e-19   67.6   7.2    7.1e-19   67.6   7.2    3.0  4  Proton_antipo_N  NADH-Ubiquinone oxidoreductase (complex I), 


Domain annotation for each model (and alignments):
>> Proton_antipo_M  Proton-conducting membrane transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -5.9   5.7         2   1.8e+04      47      61 ..      43      57 ..       3     117 .. 0.50
   2 !  266.5  22.6   2.8e-83   2.5e-79       1     278 [.     141     423 ..     141     439 .. 0.96

  Alignments for each domain:
  == domain 1  score: -5.9 bits;  conditional E-value: 2
          Proton_antipo_M 47 liLLlgilllynltg 61
                             +++L++i +++ +++
  PHY93_17445|PHY93_17445 43 VSFLYAIRIFFDFMN 57
                             233444444444444 PP

  == domain 2  score: 266.5 bits;  conditional E-value: 2.8e-83
          Proton_antipo_M   1 andLlllylglElvllplylLiglwkkkpksleAslklflltllgsliLLlgilllynltgtlefeelskal...........elg 75 
                              +++Ll++++++El++ ++y Lig++++k+ + +As+k+f++t++g++++Llgil+++++ g+++f +l +a+            + 
  PHY93_17445|PHY93_17445 141 SDNLLSVFIFWELMGFCSYSLIGFYYEKEGAGNASMKAFMTTRIGDVFFLLGILAIWSVVGNVSFVDLYNAIaagkfnglsisVFS 226
                              79***************************************************************************999998889 PP

          Proton_antipo_M  76 lnslelllllllllvgllvKsaqvplhlWlpdayveaPtpvsall.Aatlvkagvlllirlllllavssneisqlllilaiismll 160
                              ++ + ++l+ + +++g + Ksaqvplh+Wlpda + +Ptp sal+ Aat+v+agv+l +r+ +l++   + ++ +++ +++i+++ 
  PHY93_17445|PHY93_17445 227 IGIPVATLAGFSIFMGTMGKSAQVPLHVWLPDA-MWGPTPCSALIhAATMVAAGVYLSLRMYPLME--LGHLTTFIAYVGAITAFG 309
                              99999****************************.********************************..****************** PP

          Proton_antipo_M 161 gslvalaqtdiKrllAySsishlGymlialavatqygveaaiihllthalfkallFllagsviyerektrdirayggLakkmPila 246
                              ++++al qtdiK +lAyS+is+lGym+++++v    +++a+++hl+tha+fka lFl agsvi++  + +++ ++ggL+kk P ++
  PHY93_17445|PHY93_17445 310 AATIALIQTDIKAVLAYSTISQLGYMVLGIGV---GSYNASFMHLITHAVFKACLFLSAGSVIHSI-HCQEMPQMGGLRKKLPYTF 391
                              ********************************...5669************************998.9****************** PP

          Proton_antipo_M 247 lvllvlllslaGlPptagFlskfliLeaavav 278
                               ++l++++++aG+P+++gF+sk+ iL  a+ +
  PHY93_17445|PHY93_17445 392 FAMLLCCFAIAGVPFFSGFVSKDRILGDALVM 423
                              **************************877655 PP

>> Proton_antipo_N  NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.4      0.77   6.9e+03      21      39 ..      32      47 ..      23      51 .. 0.51
   2 ?   -3.8   0.1       1.6   1.4e+04      38      43 ..      58      63 ..      55      63 .. 0.86
   3 !   67.6   7.2   7.9e-23   7.1e-19       1      58 []      68     129 ..      68     129 .. 0.90
   4 ?   -3.2   0.0         1   9.2e+03       2      14 ..     694     706 ..     693     710 .. 0.74

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 0.77
          Proton_antipo_N 21 lsalmllvvtfvsllvhlY 39
                             + +   +v  fvs+l   Y
  PHY93_17445|PHY93_17445 32 IAVALSTVSIFVSFL---Y 47
                             334444444555554...4 PP

  == domain 2  score: -3.8 bits;  conditional E-value: 1.6
          Proton_antipo_N 38 lYSigY 43
                             +YS+gY
  PHY93_17445|PHY93_17445 58 VYSVGY 63
                             8****9 PP

  == domain 3  score: 67.6 bits;  conditional E-value: 7.9e-23
          Proton_antipo_N   1 lftWls..vgg..lsieigfllDklsalmllvvtfvsllvhlYSigYMaddegyqRFfayls 58 
                              +f+W++  +g+  +++++g+++D+++ +ml++vt+v++l+h++S++YM+dd+++ RFf+y+s
  PHY93_17445|PHY93_17445  68 VFSWFNlsSGShiFEVKMGIYIDNMTSVMLVMVTGVATLIHVFSTWYMHDDPRFGRFFVYMS 129
                              58997642444579**********************************************97 PP

  == domain 4  score: -3.2 bits;  conditional E-value: 1
          Proton_antipo_N   2 ftWlsvgglsiei 14 
                              ++W+++g++++ +
  PHY93_17445|PHY93_17445 694 LRWVQSGKIQLYF 706
                              6899999887765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (720 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       783  (0.0436723); expected 358.6 (0.02)
Passed bias filter:                      277  (0.0154498); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.66u 0.23s 00:00:00.89 Elapsed: 00:00:00.43
# Mc/sec: 5021.58
//
Query:       PHY93_17450|PHY93_17450  [L=99]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.7e-19   69.4   7.2    1.9e-19   69.2   7.2    1.0  1  Oxidored_q2  NADH-ubiquinone/plastoquinone oxidoreductase cha
  ------ inclusion threshold ------
      0.011   15.5   0.3      0.022   14.5   0.3    1.5  1  DUF5353      Family of unknown function (DUF5353)


Domain annotation for each model (and alignments):
>> Oxidored_q2  NADH-ubiquinone/plastoquinone oxidoreductase chain 4L
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.2   7.2   2.1e-23   1.9e-19       2     102 ..       7      95 ..       6      98 .. 0.96

  Alignments for each domain:
  == domain 1  score: 69.2 bits;  conditional E-value: 2.1e-23
                              HHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHHHHHHHC.............TTSCGGHHHHHHHHHHHHHHHHHHHH CS
              Oxidored_q2   2 lllliallfliGlygvllrrnllkvliglelisnavnlllvlagvftegtlvitnpatefadplpqalvLtaivigaaetavgLal 87 
                              +l ++++lf++G+++v++r+n++ +l+g+eli+na  l+++++++ft             +++ ++++ L++iv +aae+avgL++
  PHY93_17450|PHY93_17450   7 YLGISFALFICGILVVIARKNVIAILLGIELILNASALNFAAYTKFT------------NNNLDGHIMSLFIIVTAAAEAAVGLGI 80 
                              567899*****************************************............69************************* PP

                              HHHHHHHSSS-BCCG CS
              Oxidored_q2  88 lvrlyreygtddvqe 102
                              ++r ++ ++++++++
  PHY93_17450|PHY93_17450  81 IIRFFQLRESVHIDD 95 
                              ************997 PP

>> DUF5353  Family of unknown function (DUF5353)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.3   2.5e-06     0.022      11      43 ..      34      66 ..      24      79 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 2.5e-06
                  DUF5353 11 avlvavlsagLGfgAYrkyarGeLtwkvvglwa 43
                              + + + +++L f+AY k+++++L+ +++ l  
  PHY93_17450|PHY93_17450 34 GIELILNASALNFAAYTKFTNNNLDGHIMSLFI 66
                             566778899*****************9987654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (99 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       727  (0.0405488); expected 358.6 (0.02)
Passed bias filter:                      298  (0.0166211); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.40
# Mc/sec: 746.33
//
Query:       PHY93_05380|PHY93_05380  [L=307]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.4e-17   62.5   0.2    7.2e-17   62.1   0.2    1.1  1  TauD      Taurine catabolism dioxygenase TauD, TfdA family
    5.2e-05   22.5   0.1    8.9e-05   21.7   0.1    1.4  1  CsiD      CsiD


Domain annotation for each model (and alignments):
>> TauD  Taurine catabolism dioxygenase TauD, TfdA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.1   0.2     8e-21   7.2e-17      17     258 ..      40     279 ..      23     300 .. 0.82

  Alignments for each domain:
  == domain 1  score: 62.1 bits;  conditional E-value: 8e-21
                     TauD  17 sdleslddelkeelrellaeygvvvfrgf.pl....speqqlefarrfGplygtpgrgtntkygevld....vssvyesadianla 93 
                              +d   + +e  e+ +el ++  +v+++ f ++    +  +q+ + + +G + g+   ++++  + +l+    ++++ +++ + + +
  PHY93_05380|PHY93_05380  40 DDCPTFKREVEEVRNELENGKRIVIVKPFiDIhnkyTILEQRTINWLIGNVLGETLVQNEAGDRAILVydrdRTNSMTKGARYHQT 125
                              44444666778888888899999**99954779999*************9999999999999999999775433333444444444 PP

                     TauD  94 yttll..wHtDlsylesppgiqlLhcleapatGGetpfvDgraaynaLpeelpellegltavrvyyhyrggglrteqelpavdkhp 177
                               +  +   HtD+   +    ++lL c+ ++  GGe+++v+  ++++ L+e+ p+ l  l     +++++               + 
  PHY93_05380|PHY93_05380 126 RE--GgtIHTDNVNVPFKWEYLLLACIAPAMAGGENILVNALNVLKILKEKYPDVLAILENNFLWEQRG-------------VADA 196
                              44..3559************************************************7777666666555.............59** PP

                     TauD 178 rtghpvvrthpvltgrkallvnppfatrieglgt....peskelldaleelledpeftyrfqwqeGdlvifdNrrvlHgrtafde 258
                              +++ p++ +++   g++++++ +p++ +  +  +    +e+  +ld+l+++le  +++yr++  +G++++     vlHgrt+f++
  PHY93_05380|PHY93_05380 197 TYEAPIISYNQ--KGEPEFRHLRPYMESAHNKLDrpltDEQMYALDTLDAILEHSDNQYRHTFMAGEILLTYDAQVLHGRTSFSD 279
                              ***********..7888888777777777222224566*********************************************43 PP

>> CsiD  CsiD
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.7   0.1   9.9e-09   8.9e-05     133     280 ..     125     279 ..      28     283 .. 0.75

  Alignments for each domain:
  == domain 1  score: 21.7 bits;  conditional E-value: 9.9e-09
                              TT--EEEE-S-TTSSS---EEEEEEEEEES--B--EEEEE.GGG-TTHHHHHTSGGG..GS-EEE--SS-TT----EEE-S.EEE- CS
                     CsiD 133 ayrklelhnDGtyveektdyvlmmkideenaegGeslllh.lDdWedldkflndpla..krellykaPasknveedvehpvffeed 215
                              +    ++h+D   v  k +y+l+  i+   ++gGe +l+  l+  + l++ + d la  ++++l++     + +++   p+  + +
  PHY93_05380|PHY93_05380 125 TREGGTIHTDNVNVPFKWEYLLLACIAP-AMAGGENILVNaLNVLKILKEKYPDVLAilENNFLWEQRGVADATYE--API-ISYN 206
                              3444579*****************9986.6888988887538889999******9995567899987776665554..444.5556 PP

                              TTS-EEE---........TTTEE--SHHHHHHHHHHHHHHHT-TT-EEE---TT-EEEEETTTEEEEE--B-- CS
                     CsiD 216 kegkpvisyi........DqfvqPknleeglyLkelseslenskkklevkvpvGslllinnlfwlhGrdkfee 280
                              ++g+p+ +++        +++ +P + e+   L  l + le+s+++ + +  +G++ll  +   lhGr +f++
  PHY93_05380|PHY93_05380 207 QKGEPEFRHLrpymesahNKLDRPLTDEQMYALDTLDAILEHSDNQYRHTFMAGEILLTYDAQVLHGRTSFSD 279
                              66666665551111111245567888888888**************************************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (307 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       577  (0.0321825); expected 358.6 (0.02)
Passed bias filter:                      505  (0.0281667); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.55u 0.25s 00:00:00.80 Elapsed: 00:00:00.44
# Mc/sec: 2115.59
//
Query:       PHY93_17455|PHY93_17455  [L=176]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.4e-30  105.9  16.1    1.8e-30  105.6  16.1    1.1  1  Oxidored_q3    NADH-ubiquinone/plastoquinone oxidoreductase c
    0.00065   19.8  12.4    0.00065   19.8  12.4    2.1  3  DUF4040        Domain of unknown function (DUF4040)


Domain annotation for each model (and alignments):
>> Oxidored_q3  NADH-ubiquinone/plastoquinone oxidoreductase chain 6
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  105.6  16.1     2e-34   1.8e-30       1     144 []      17     169 ..      17     169 .. 0.81

  Alignments for each domain:
  == domain 1  score: 105.6 bits;  conditional E-value: 2e-34
                              HHHHHHH-SBHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHIIIIIHHHHHHHHHHHS............STTS----TTCHHH CS
              Oxidored_q3   1 gallvitsknpvysalfLilsfvgvaglfillgaeFlallqilvYvGAilvlflFvimll............esaeeeepeslsrs 74 
                              ga++v++s+n++++ ++L++sf+gvagl+  +ga+Fla+ q++vY+G++++l+lF+iml+            e+ +   ++++   
  PHY93_17455|PHY93_17455  17 GAVAVVYSQNLMHACIYLLASFFGVAGLYACIGADFLAATQLVVYAGGVVILMLFAIMLTggsgnkinryglEKIAAMGNKKTYFF 102
                              699****************************************************************9887644333344444444 PP

                              HHHHHHHHHHHHHHHHTT--......--------TT-HHHHHHHHTTTTHHHHHHHHHHHHHHHHHHHHC CS
              Oxidored_q3  75 lalaalligllllalllllllessssavdaqvadvsnieaigsllftkyllpfelasllLLvaligaivl 144
                              + l+a+l++l++l +++ +l+    ++++  +++  ++e+ig+ l t+++l+fe+ s+lLL aliga v+
  PHY93_17455|PHY93_17455 103 AGLTAALASLVVLKIIANVLK---VQTTEVLTSNAPTVERIGTILATDHILAFEISSVLLLGALIGAAVI 169
                              444444455444444444444...344456677888*******************************987 PP

>> DUF4040  Domain of unknown function (DUF4040)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.8  12.4   7.2e-08   0.00065       2      63 ..      13      74 ..      12      77 .. 0.95
   2 ?   -2.3   0.2      0.59   5.3e+03      56      60 ..     108     112 ..     101     123 .. 0.50
   3 ?   -2.8   0.1      0.84   7.6e+03      58      61 ..     159     162 ..     153     170 .. 0.50

  Alignments for each domain:
  == domain 1  score: 19.8 bits;  conditional E-value: 7.2e-08
                  DUF4040  2 llvlaalaavlardrlaavillgvvGllvallfvllgAPDvAlTqaavveglttvllllalr 63
                             l++ +a+a+v ++++++a i+l +  ++va l++  gA  +A Tq++v +g +++l+l+a+ 
  PHY93_17455|PHY93_17455 13 LTLGGAVAVVYSQNLMHACIYLLASFFGVAGLYACIGADFLAATQLVVYAGGVVILMLFAIM 74
                             78999******************************************************986 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 0.59
                  DUF4040  56 vllll 60 
                              +l  l
  PHY93_17455|PHY93_17455 108 ALASL 112
                              22222 PP

  == domain 3  score: -2.8 bits;  conditional E-value: 0.84
                  DUF4040  58 llla 61 
                              ll a
  PHY93_17455|PHY93_17455 159 LLGA 162
                              2222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (176 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       765  (0.0426683); expected 358.6 (0.02)
Passed bias filter:                      300  (0.0167327); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.19s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1317.71
//
Query:       PHY93_17460|PHY93_17460  [L=396]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     1e-114  382.9  14.6   1.4e-114  382.5  14.6    1.1  1  NADHdh    NADH dehydrogenase


Domain annotation for each model (and alignments):
>> NADHdh  NADH dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  382.5  14.6  7.6e-119  1.4e-114       4     296 ..      44     369 ..      40     372 .. 0.95

  Alignments for each domain:
  == domain 1  score: 382.5 bits;  conditional E-value: 7.6e-119
                              HHHHHHHHHHHH.HHHHHHHHHHHHHTTS--S-SSTTTTTTHHHHHHHHHCCS-----TTS-HHHHHHHHHHHHHHHHCTTTTS-S CS
                   NADHdh   4 llllvvlllvva.lltlleRkvlAriqdRlGPnrvGplGllqplaDalKlllKediipkkadkllfllapvlalilallafaviPf 88 
                              l+++ +++ ++  l t++eRk++A +q+R+GPnrvGp+G+lq laD++K++lKediip++adk+ f+lap+l+l+ +++++av+Pf
  PHY93_17460|PHY93_17460  44 LIVV-TVMSTIGgLGTYAERKISADLQMRIGPNRVGPYGILQFLADGVKMILKEDIIPSGADKFTFILAPFLCLVGVFATLAVVPF 128
                              4444.45555555************************************************************************* PP

                              SS..SSS--TTHHHHHHHHHHHCHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-SS-HHHHHHCCCTT... CS
                   NADHdh  89 ge..vladlnvglllilalsslgvygillaGwasnskYallGalRsaaqmisyEvalglsllavvllagslslseiveaqeei... 169
                              ++  +ladlnvg+++++ ++sl  +g++l+G+asnsk+++lG++R a+q+isyE++ ++++++vvllag ls+ +++  q ++   
  PHY93_17460|PHY93_17460 129 SSgfILADLNVGIFYLIGMASLVGVGVFLGGYASNSKWSMLGGMRGASQIISYEIPATITIISVVLLAGGLSMGTLIGGQGGMpqe 214
                              *779****************************************************************************988999 PP

                              -C...CCCHHHHHHHHHHHHHHCCTCTTBTTTTSTTSSSSCCCTT-HCHHHHHHHHHHHHHHHHHHHHHHHHCT.SS-HCCS.... CS
                   NADHdh 170 wf...illqllafiifliallaetnraPFDlpeaesELvaGfhtEYsgmkfalfflaeyanmvlvsalavllFlgGwllpfs.... 248
                              w+    ++++++f++++ia+laetnraPFDlpeaesELv+G+htEYsgm+f+lf laey+++++v+ +av+lFlgG+++pf     
  PHY93_17460|PHY93_17460 215 WYlfhNPFTFVGFFVYFIAALAETNRAPFDLPEAESELVSGYHTEYSGMRFGLFALAEYIEVFVVCGVAVALFLGGYKVPFDlgtg 300
                              8777866669**************************************************************************** PP

                              .....................HHHHHHHHHHHHHHHHHHHHHC----TCHHHHHHHCCTCHHHHHHHHH CS
                   NADHdh 249 .....................gllwfllKvllllflfiwiratlpRlRydqlmklgwkvllplalanll 296
                                                   ++  f+ K+++l++++iw+r+tlpRlR+dqlm+l+wk+l+p+a++nll
  PHY93_17460|PHY93_17460 301 ailveklgmdqmlaknigqvlEMGSFFTKTFALYYVVIWVRWTLPRLRVDQLMTLCWKYLTPIAIFNLL 369
                              *************999999998899******************************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (396 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       749  (0.0417759); expected 358.6 (0.02)
Passed bias filter:                      322  (0.0179597); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.20s 00:00:00.73 Elapsed: 00:00:00.39
# Mc/sec: 3070.61
//
Query:       PHY93_17465|PHY93_17465  [L=143]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.3e-31  107.9   0.8    3.2e-31  107.4   0.7    1.3  1  Oxidored_q4  NADH-ubiquinone/plastoquinone oxidoreductase, ch
  ------ inclusion threshold ------
        2.1    8.3  12.6      0.087   12.8   5.5    1.9  2  Promethin    Promethin


Domain annotation for each model (and alignments):
>> Oxidored_q4  NADH-ubiquinone/plastoquinone oxidoreductase, chain 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  107.4   0.7   3.5e-35   3.2e-31       4      99 .]      26     126 ..      12     126 .. 0.92

  Alignments for each domain:
  == domain 1  score: 107.4 bits;  conditional E-value: 3.5e-35
                              HHHHHCHSS-----HHHHS-SSSS--SS---.--HHCHHHHHHHHHHHHHHHHHHHHHHHHSST..HHHH.....HHHHHHHHHHH CS
              Oxidored_q4   4 llllsallgpkkpnkeklspYEcGfepvgearlrfsvkfylvallFliFDvevvflfpwavslkelglfg.....liemllFllil 84 
                               lll +l++p++pnk k+++YEcG ep+g+a+ +f+v+fy++al+F+iFDve +++fp+a ++k+ + +g     l++++ F+l+l
  PHY93_17465|PHY93_17465  26 SLLLGSLIRPHHPNKLKETAYECGEEPIGSAWANFNVRFYVIALIFIIFDVESALMFPVAAVFKKFTQIGlggtlLVSVFSFVLVL 111
                              57889999******************************************************99884444444558********** PP

                              HHHHHHHHHH-S-XX CS
              Oxidored_q4  85 lvglvYewkkgaLeW 99 
                              ++glvY wkkg L+W
  PHY93_17465|PHY93_17465 112 VAGLVYCWKKGDLDW 126
                              *************** PP

>> Promethin  Promethin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   1.0      0.11     1e+03      45      78 ..      13      22 ..       2      34 .. 0.50
   2 ?   12.8   5.5   9.7e-06     0.087      16      94 ..      41     119 ..      28     121 .. 0.78

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.11
                Promethin 45 llFltfalstllfalvgallfelfvvgvallvLv 78
                             ++                        ++al +Lv
  PHY93_17465|PHY93_17465 13 VI------------------------LIALAMLV 22
                             22........................22222222 PP

  == domain 2  score: 12.8 bits;  conditional E-value: 9.7e-06
                Promethin  16 lkalrafasenPllatflliqlllsllPlllFltfalstllfalvgallfelfvvgvallvLvpvL.fitsflallvwlw 94 
                              lk+++  + e P+ ++   +++ + ++  l+F++f +  +l++ v+a++ +++ +g+++++Lv+v  f+++++a lv  w
  PHY93_17465|PHY93_17465  41 LKETAYECGEEPIGSAWANFNVRFYVI-ALIFIIFDVESALMFPVAAVFKKFTQIGLGGTLLVSVFsFVLVLVAGLVYCW 119
                              556666666777777777777777666.5789********************************9845667777777766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (143 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       724  (0.0403815); expected 358.6 (0.02)
Passed bias filter:                      326  (0.0181828); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1084.83
//
Query:       PHY93_17470|PHY93_17470  [L=1163]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    7.1e-21   74.6   3.9    4.4e-17   62.4   0.2    3.3  3  Helicase_C      Helicase conserved C-terminal domain
    4.6e-20   72.1   0.1    1.3e-19   70.7   0.1    1.8  1  DEAD            DEAD/DEAH box helicase
    6.1e-19   68.5   0.1    2.2e-18   66.8   0.1    2.1  1  CarD_CdnL_TRCF  CarD-like/TRCF domain
    1.2e-17   64.1   0.0    3.4e-17   62.6   0.0    1.8  1  TRCF            TRCF domain
    1.1e-16   60.8   0.1    1.4e-15   57.2   0.0    2.8  2  UvrB_inter      UvrB interaction domain
    6.8e-10   39.2   1.0    2.5e-09   37.4   0.0    2.4  2  ResIII          Type III restriction enzyme, res subunit
     0.0074   15.5   0.2      0.015   14.6   0.2    1.4  1  ERCC3_RAD25_C   ERCC3/RAD25/XPB C-terminal helicase
  ------ inclusion threshold ------
      0.016   15.2   0.0       0.05   13.6   0.0    1.9  1  UB2H            Bifunctional transglycosylase second domain
      0.035   14.1   0.3        1.3    9.1   0.0    3.2  3  DUF4974         Domain of unknown function (DUF4974)


Domain annotation for each model (and alignments):
>> Helicase_C  Helicase conserved C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.0       1.7   3.4e+03      44      72 ..      87     119 ..      48     129 .. 0.64
   2 !   11.4   0.2   0.00015      0.31      10      74 ..     662     730 ..     653     747 .. 0.81
   3 !   62.4   0.2   2.2e-20   4.4e-17      10     110 ..     821     925 ..     813     926 .. 0.88

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 1.7
                              EEESTTSTHHHHHHHHHHHH...TTSSS.EEEE CS
               Helicase_C  44 avlhgelpqnereeileqfn...kgesd.vLia 72 
                               v+ +e +  +r+e+l++ n     + + +Li+
  PHY93_17470|PHY93_17470  87 GVISSEKSFYDRLEVLSRLNklkFSKNNfILIT 119
                              466777778889999999995542445524444 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 0.00015
                              HHHTTTTSEEEEEESSHH.HHHHHHHHHHHT...TSTEEEESTTSTHHHHHHHHHHHHTTSSSEEEESG CS
               Helicase_C  10 lkleeeggkilifvntid.rlekvklllekk...gikvavlhgelpqnereeileqfnkgesdvLiatd 74 
                              +k  e+++++ + v+t+   l++++ +++++    +++  +    +++e +eil++  kge+d+Li t 
  PHY93_17470|PHY93_17470 662 FKAVEDKKQVAVLVPTTIlALQHFNSFTKRFkefPVRIEFISRFKSAKESKEILAKAEKGEIDILIGTH 730
                              47789999999999999976655555555554458999999999**********************995 PP

  == domain 3  score: 62.4 bits;  conditional E-value: 2.2e-20
                              H.HHTTTTSEEEEEESSHHHHHH.HHHHHHHT...TSTEEEESTTSTHHHHHHHHHHHHTTSSSEEEESGGGTSSSTSTTESEEEE CS
               Helicase_C  10 l.kleeeggkilifvntidrlek.vklllekk...gikvavlhgelpqnereeileqfnkgesdvLiatdvaerGidipkvnlVin 90 
                              + k+ ++gg++ i+ n++ ++e+ +  ++  +   + k++  hg++  +e e+ +++f +g ++vL+at+++e Gidip++n++i+
  PHY93_17470|PHY93_17470 821 IqKELQRGGQVFIVHNKVHDIEEyTASIR--ElvpEAKITFAHGQMAERELEDRINSFYNGAYQVLVATTIIESGIDIPNANTMII 904
                              236669***************97755553..24479************************************************** PP

                              SSSS.SSHHHHHHHHTTSSST CS
               Helicase_C  91 fdlp.rnvtsyiqriGRtgRa 110
                                ++ +++++++q +GR+gR 
  PHY93_17470|PHY93_17470 905 DRADtYGLSQLHQLRGRIGRS 925
                              ***9777*************5 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.7   0.1   6.5e-23   1.3e-19       1     172 [.     621     781 ..     621     785 .. 0.83

  Alignments for each domain:
  == domain 1  score: 70.7 bits;  conditional E-value: 6.5e-23
                              -HHHHHHHHHHHTT......CEEEEEESTTSSHHHHHHHHHHHHHHHSTTSTS-EEEEEESSHHHHHHHHHHHHHHTTTSTSEEEE CS
                              xxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD   1 tdiQaeaiplilgg......gdvlvaaeTGsGKTlaflipvlqivyetkgktgpkalivePtreLaeqtlnnlkkfkkyidlrvll 80 
                              t+ Qa+ai+++l+        d+lv++++G GKT++++ +++++v     ++++++ +++Pt+ La q++n ++k++k+  +r++ 
  PHY93_17470|PHY93_17470 621 TPDQARAIEEVLDAmqkplpMDFLVCGDVGFGKTEVAMRAAFKAV-----EDKKQVAVLVPTTILALQHFNSFTKRFKEFPVRIEF 701
                              789*********555567779*********************999.....67889***********************98888887 PP

                              EET...TSSHHHHHHHHHTT.CSEEEEEHHHHHHHHHCTSSHCTTEEEEEEETHHHHHHTTTHHHHHHHHHHSHHHCTTSTTTSEE CS
                              xxx...xxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  81 iig...gvaardqlskldng.vdivvgtpgrlddllstgklnlsqvrflVlDEadrlldqgfsdfinrilnqlpqitcdgklqrqv 162
                              i      ++ ++ l+k ++g +di++gt++ l d     kl+++++ ++++DE +r+   g +++++ + ++++           +
  PHY93_17470|PHY93_17470 702 ISRfksAKESKEILAKAEKGeIDILIGTHKLLSD-----KLKFHDLGLVIVDEEQRFGV-GHKEKLKLMKASVD-----------F 770
                              766222444455555556668********99999.....667***************99.59999999988882...........7 PP

                              EEEESSBS.HH CS
                              xxxxxxxx.xx RF
                     DEAD 163 ivlSATlp.kd 172
                              + l+AT+  ++
  PHY93_17470|PHY93_17470 771 LTLTATPIpRT 781
                              88888876555 PP

>> CarD_CdnL_TRCF  CarD-like/TRCF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.8   0.1   1.1e-21   2.2e-18       1      95 [.     497     590 ..     497     591 .. 0.96

  Alignments for each domain:
  == domain 1  score: 66.8 bits;  conditional E-value: 1.1e-21
           CarD_CdnL_TRCF   1 lkvGDyVvhedhGiGriegiekrevegaekeylvleyadkkgdklyvPvdqldlirkyiske.epkldklggkrwektkekakkgv 85 
                              lkvGDyV+h ++G+G++ g+e  ++ g ++++lvl+ya+  +dk+yvPv +l++i+k +++    k d+l +++ +  k++a+++ 
  PHY93_17470|PHY93_17470 497 LKVGDYVIHSEYGVGEYLGLEALNIAGDKTDFLVLKYAE--NDKVYVPVYKLNQIQKHADSHtGLKKDSLRTNKFQLLKARARTSA 580
                              79*************************************..8*****************998778999****************** PP

           CarD_CdnL_TRCF  86 keeaaelvkl 95 
                              k  a +l+kl
  PHY93_17470|PHY93_17470 581 KVLAFDLLKL 590
                              *******997 PP

>> TRCF  TRCF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.6   0.0   1.7e-20   3.4e-17       2      85 ..    1021    1104 ..    1020    1112 .. 0.97

  Alignments for each domain:
  == domain 1  score: 62.6 bits;  conditional E-value: 1.7e-20
                     TRCF    2 dvdalipeeYipdeserlelYkriasieteeeldeleeeLiDrFGklpeevenLlevarlkllakklgiekikekkkkleitfs 85  
                               +++a+ip++Yi+d  erl+ Ykr++++et   l+ ++ee +D +G + ee+ nL+ v + ++ ++ lg+++++ + + ++++f+
  PHY93_17470|PHY93_17470 1021 PFPAFIPNHYISDPGERLKQYKRLSNCETITLLESIKEEFQDVYGLFSEELSNLFVVLETRIHLQTLGLKSVQVGGTAITLKFD 1104
                               789******************************************************************************997 PP

>> UvrB_inter  UvrB interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.0      0.71   1.4e+03       9      28 ..      96     115 ..      91     119 .. 0.87
   2 !   57.2   0.0   7.2e-19   1.4e-15       2      89 ..     140     227 ..     139     228 .. 0.95

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.71
               UvrB_inter   9 idreellrkLvelqYerndv 28 
                              +dr e+l++L +l++++n++
  PHY93_17470|PHY93_17470  96 YDRLEVLSRLNKLKFSKNNF 115
                              78999***********9986 PP

  == domain 2  score: 57.2 bits;  conditional E-value: 7.2e-19
               UvrB_inter   2 elkvgqkidreellrkLvelqYerndvelkrGtFrvrGdtveifpasaeevairieffgdeiesireidpltgkslek..leeiti 85 
                              +l+v++ i+  +l++kLv l+Y+  + + ++GtF  +G+++++fp+   + ++r++ f+d iesi+eid  t+ks+++   +++ti
  PHY93_17470|PHY93_17470 140 NLQVDDIIAPIDLAKKLVALGYSSVTSVEEPGTFIQKGQIFDLFPVG--SAPVRLSYFDDLIESIHEIDLDTQKSIKEnsQSSVTI 223
                              7999*******************************************..5**************************8866789*** PP

               UvrB_inter  86 fPak 89 
                              +Pa+
  PHY93_17470|PHY93_17470 224 APAA 227
                              **95 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.2       1.1   2.2e+03      55     121 ..     351     430 ..     343     468 .. 0.62
   2 !   37.4   0.0   1.3e-12   2.5e-09       3     169 ..     619     777 ..     617     779 .. 0.78

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 1.1
                              .-EEEEESSHHHHHHHH...HHGGGGTGG....GEEEESSS-B--.................-SEEEEEHHHHHHTH... CS
                   ResIII  55 ekflflvprkslleqtl...eefkkflseaykeigkkvsgdkkka..........kekdstnkkilvttiqsldadseee 121
                              ek ++lv++++l        +++   l +++++ ++ ++    k+          k++++ + +++++++++ ++++ ++
  PHY93_17470|PHY93_17470 351 EKKVILVDQLNLSMNFDkisDAIDLRLIKTKTFLNQYINPALTKPeyikasldflKKYFEFQGNVYFSSYSESSKAEIQH 430
                              45666777777754333333666555555555533333333333333336666678899999999999999888887665 PP

  == domain 2  score: 37.4 bits;  conditional E-value: 1.3e-12
                              EE-HHHHHHHHHHT......TTSEEEEEESTTSTHHHHHHHHHHHH-S.....-EEEEESSHHHHHHHHHHGGGGTGG.......G CS
                   ResIII   3 elreyQeeaienlleklkskrdkrglikmaTGtGKTlvaaklierllkkgkeekflflvprkslleqtleefkkflseayke...i 85 
                              e  + Q++aie++l+++++     +l+    G GKT va++++ +  + +k  ++ +lvp+++l  q  + f+k ++e   +   i
  PHY93_17470|PHY93_17470 619 EETPDQARAIEEVLDAMQKPLPMDFLVCGDVGFGKTEVAMRAAFKAVEDKK--QVAVLVPTTILALQHFNSFTKRFKEFPVRiefI 702
                              66799*************99999********************99999755..9******************88777644334665 PP

                              EEEESSS-B--.........-SEEEEEHHHHHHTH........HHHTTT-SEEEEETGGGTTS.TTTHHHHHT---.SEEEEEESS CS
                   ResIII  86 gkkvsgdkkka..kekdstnkkilvttiqsldadseeeeeeseellrdrfdviiiDEaHrlgakkswreilekfke.avllglTAT 168
                              + ++s ++ k+   + ++ +++il+ t + l+ ++          + +   ++i+DE  r+g    ++e l+ +k+    l lTAT
  PHY93_17470|PHY93_17470 703 SRFKSAKESKEilAKAEKGEIDILIGTHKLLSDKL----------KFHDLGLVIVDEEQRFGV--GHKEKLKLMKAsVDFLTLTAT 776
                              55555555555667788888888888766665555..........445555***********9..344434444441558999*** PP

                              - CS
                   ResIII 169 p 169
                              p
  PHY93_17470|PHY93_17470 777 P 777
                              9 PP

>> ERCC3_RAD25_C  ERCC3/RAD25/XPB C-terminal helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.6   0.2   7.3e-06     0.015      49     154 ..     817     928 ..     798     952 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 7.3e-06
            ERCC3_RAD25_C  49 cefLikyhekrgDkiivfsDnvfaLkeyakklkk.......pyiyGetseaerlkilqkfkknpkvntiflskvgDtsiDlPeanv 127
                              ++  i+   +rg ++ +  ++v+ ++ey+ ++++       ++ +G+++e+e  + +++f +  ++++++   + ++ iD+P+an 
  PHY93_17470|PHY93_17470 817 IQSAIQKELQRGGQVFIVHNKVHDIEEYTASIRElvpeakiTFAHGQMAERELEDRINSFYN-GAYQVLVATTIIESGIDIPNANT 901
                              56667888899999999999999999998876532222222799****************75.58999999**************9 PP

            ERCC3_RAD25_C 128 liqisshfgsrrqeaqrlGriLrakkk 154
                              +i   +++    q  q  Gri r+ kk
  PHY93_17470|PHY93_17470 902 MIIDRADTYGLSQLHQLRGRIGRSDKK 928
                              998888888889999999999998776 PP

>> UB2H  Bifunctional transglycosylase second domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   2.5e-05      0.05       3      42 ..     143     182 ..     141     184 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 2.5e-05
                     UB2H   3 pGaalsaaqleqeLellgYrkvsnvtrpGeyavsgnriel 42 
                               ++ +++ +l + L +lgY +v++v++pG++ ++g+ ++l
  PHY93_17470|PHY93_17470 143 VDDIIAPIDLAKKLVALGYSSVTSVEEPGTFIQKGQIFDL 182
                              5666788899************************998876 PP

>> DUF4974  Domain of unknown function (DUF4974)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   0.0   0.00064       1.3      31      68 ..      80     116 ..      72     118 .. 0.86
   2 ?    0.3   0.1      0.36   7.3e+02      36      69 ..     317     355 ..     313     356 .. 0.71
   3 ?   -0.8   0.0       0.8   1.6e+03      45      61 ..     627     643 ..     623     648 .. 0.84

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.00064
                              ----EEEEEES-.-.HHHHHHHHHHHH--EEEETTEEE CS
                  DUF4974  31 lknyrftgtfsrnesleevLelLektggikykiegnki 68 
                              l+   ++g +s ++s  + Le+L++ +++k++ ++n i
  PHY93_17470|PHY93_17470  80 LEASPYSGVISSEKSFYDRLEVLSRLNKLKFS-KNNFI 116
                              66778**************************8.66655 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.36
                              EEEEE.S-.-...HHHHHHHHHHHH--EE.E.ETTEEEE CS
                  DUF4974  36 ftgtf.srne..sleevLelLektggiky.k.iegnkii 69 
                              ++++f +++e  + e+vL  +e+ +++++ k  e++k+i
  PHY93_17470|PHY93_17470 317 LRVEFeNEEEsiNSENVLPHFEQLYDFSFlKeLEEKKVI 355
                              5566644444334589999*********98458898887 PP

  == domain 3  score: -0.8 bits;  conditional E-value: 0.8
                              .HHHHHHHHHHHH--EE CS
                  DUF4974  45 sleevLelLektggiky 61 
                               +eevL++++k  ++++
  PHY93_17470|PHY93_17470 627 AIEEVLDAMQKPLPMDF 643
                              59********9888776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1163 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       601  (0.0335211); expected 358.6 (0.02)
Passed bias filter:                      456  (0.0254337); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.77u 0.30s 00:00:01.07 Elapsed: 00:00:00.43
# Mc/sec: 8098.65
//
Query:       PHY93_17475|PHY93_17475  [L=270]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    4.6e-21   75.6   0.0    1.6e-20   73.8   0.0    2.0  1  Rotamase     PPIC-type PPIASE domain
    1.2e-18   67.8   0.5    6.6e-18   65.3   0.0    2.1  2  Rotamase_3   PPIC-type PPIASE domain
    4.4e-07   30.7   0.4    4.4e-07   30.7   0.4    2.1  2  Rotamase_2   PPIC-type PPIASE domain
    8.4e-05   22.4   2.3    8.4e-05   22.4   2.3    2.4  2  SurA_N_3     SurA N-terminal domain
    0.00014   21.7   2.2     0.0017   18.2   2.0    2.6  1  SurA_N_2     SurA N-terminal domain
  ------ inclusion threshold ------
      0.042   14.1   0.7      0.042   14.1   0.7    1.8  2  THF_DHG_CYH  Tetrahydrofolate dehydrogenase/cyclohydrolase, c
       0.16   11.4   2.6       0.18   11.2   1.2    1.4  1  SMC_N        RecF/RecN/SMC N terminal domain


Domain annotation for each model (and alignments):
>> Rotamase  PPIC-type PPIASE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.8   0.0   6.4e-24   1.6e-20       1      95 [.     131     224 ..     131     226 .. 0.99

  Alignments for each domain:
  == domain 1  score: 73.8 bits;  conditional E-value: 6.4e-24
                              EEEESSCCSE----HHHHHHHHHHHHCCTCCCHHHHHHHHCCC-.-CHHHCCTTEEECEETTTS-CCCHHHHCCS-CT-B-S-EEE CS
                 Rotamase   1 HILlkvkekasekeraeakakaeeileqlksgedtFeelArkySddknsakngGdlgwvekgqlppefekaafslkkGeisepvet 86 
                              HIL+++   ++++e++ea++ka e+++ql+++++   elA+kyS ++++a  gGdlg+++  +++pe+ ka+++  +G is pv+t
  PHY93_17475|PHY93_17475 131 HILFRIRVTPDKEETQEATRKALEVYKQLQAKPQLWPELANKYS-QSSTAPAGGDLGYLPAIKYAPEYFKAINGKPNGYISSPVRT 215
                              ********************************************.***************************************** PP

                              TTEEEEEEE CS
                 Rotamase  87 kfGfhiikl 95 
                              +fG+hiik+
  PHY93_17475|PHY93_17475 216 QFGLHIIKV 224
                              ********8 PP

>> Rotamase_3  PPIC-type PPIASE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.9      0.66   1.7e+03       5      48 ..      54      98 ..      50     108 .. 0.74
   2 !   65.3   0.0   2.6e-21   6.6e-18      12     113 ..     123     225 ..     110     228 .. 0.89

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.66
               Rotamase_3  5 klvdkksakdsvkvshIlistkgkesrseeea.kakadsllaalk 48
                             k+v k++  + +  + I i+ +++++ +e+   kak++++l  ++
  PHY93_17475|PHY93_17475 54 KIVTKEKVLNDIINREIGIKKAKESKLNEDPVvKAKMEDVLYHAQ 98
                             677777777777778888888886666666666999999987766 PP

  == domain 2  score: 65.3 bits;  conditional E-value: 2.6e-21
               Rotamase_3  12 akdsvkvshIlistkg.kesrseeeakakadsllaalk.egadFaalAkeySdDpaskenGGelgwftkgqmvkeFedavfslkkg 95 
                              ++++ + +hIl++     ++++ +ea +ka +++++l+ +++   +lA++yS+ ++ +  GG+lg++++ +  +e+ +a++ +++g
  PHY93_17475|PHY93_17475 123 KNKEYRTAHILFRIRVtPDKEETQEATRKALEVYKQLQaKPQLWPELANKYSQSST-APAGGDLGYLPAIKYAPEYFKAINGKPNG 207
                              4558999*****99875556666778************999************666.***************************** PP

               Rotamase_3  96 eiskvvktdfGyHiikvt 113
                               is++v+t+fG Hiikv+
  PHY93_17475|PHY93_17475 208 YISSPVRTQFGLHIIKVL 225
                              ****************97 PP

>> Rotamase_2  PPIC-type PPIASE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.7      0.93   2.4e+03       4      35 ..      38      62 ..      35     108 .. 0.55
   2 !   30.7   0.4   1.7e-10   4.4e-07       1     110 [.     112     229 ..     112     239 .. 0.63

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.93
               Rotamase_2  4 aevkayYeankdefskpegktlelavvkdqva 35
                             a+++++Ye+n  +f+  +       v+k++v 
  PHY93_17475|PHY93_17475 38 AQLEQAYEQNL-MFVSDKI------VTKEKVL 62
                             67788888774.4432222......3333333 PP

  == domain 2  score: 30.7 bits;  conditional E-value: 1.7e-10
               Rotamase_2   1 vteaevkayYeankdefskpegktlelavvkdqvaaeaa.......lalakagaekdfaalakgnskkaadlgifesasnlpe... 76 
                              vt++e+++yY +nk e+++    ++ + v++d+++ + a        ++++a+  + + +la+++s +          s+ p+   
  PHY93_17475|PHY93_17475 112 VTDKEAQDYYAKNK-EYRTAHI-LFRIRVTPDKEETQEAtrkalevYKQLQAK-PQLWPELANKYSQS----------STAPAggd 184
                              8************8.7876666.566666666655555533333333334444.24444455555444..........22333333 PP

               Rotamase_2  77 ............elakaafalkpgevsgpvetdngyyivkvtevkp 110
                                           + ka++  + g +s pv+t++g +i+kv +v +
  PHY93_17475|PHY93_17475 185 lgylpaikyapeYF-KAINGKPNGYISSPVRTQFGLHIIKVLGVHD 229
                              33333344444166.99999999999***************98765 PP

>> SurA_N_3  SurA N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.4   2.3   3.3e-08   8.4e-05      20     107 ..       7      81 ..       3     134 .. 0.83
   2 ?   -2.9   0.1         2   5.1e+03      53      78 ..     144     170 ..     140     174 .. 0.57

  Alignments for each domain:
  == domain 1  score: 22.4 bits;  conditional E-value: 3.3e-08
                 SurA_N_3  20 liilaFvlwGvgsylsgsgnsvakVngekIsraefqqayrrqleqlrqqlggnldaelldelglrqqvldqlidealllqeakklg 105
                              l++ +F+   ++++ + ++  va+Vng +I++a+++qay++ l  ++         +       +++vl+++i++++  ++ak+ +
  PHY93_17475|PHY93_17475   7 LVATTFL-ISFSAFAQATDPVVATVNGVEIKKAQLEQAYEQNLMFVSD--------KI----VTKEKVLNDIINREIGIKKAKESK 79 
                              4444455.7788888888888********************6655333........33....457999999999999999999999 PP

                 SurA_N_3 106 ls 107
                              l+
  PHY93_17475|PHY93_17475  80 LN 81 
                              85 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 2
                 SurA_N_3  53 efqqayrrqleqlrqql.ggnldaell 78 
                              e q+a r+ le ++q    ++l +el+
  PHY93_17475|PHY93_17475 144 ETQEATRKALEVYKQLQaKPQLWPELA 170
                              566666666666666441346665555 PP

>> SurA_N_2  SurA N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   2.0   6.6e-07    0.0017      28     108 ..      12      80 ..       4     146 .. 0.83

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 6.6e-07
                 SurA_N_2  28 lfgvgsylfssssnevaeVnGekIslqefqqaveearqqlqqqlgenfdeseedeaqlreqvldqlvseklleqeaeklGl 108
                              ++ + s + ++++ +va+VnG +I+ ++++qa+e+    +    +        d+   +e+vl++++++++  ++a++ +l
  PHY93_17475|PHY93_17475  12 FLISFSAFAQATDPVVATVNGVEIKKAQLEQAYEQNLMFV----S--------DKIVTKEKVLNDIINREIGIKKAKESKL 80 
                              34444556777***********************998832....2........2367789999999999998888888776 PP

>> THF_DHG_CYH  Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.0       3.5   9.1e+03      59      69 ..      34      44 ..      28      67 .. 0.43
   2 ?   14.1   0.7   1.6e-05     0.042      22      71 ..      99     147 ..      74     165 .. 0.64

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 3.5
                             EEEEEEE-TT- CS
              THF_DHG_CYH 59 eseliklpedv 69
                             e+++ +l++  
  PHY93_17475|PHY93_17475 34 EIKKAQLEQAY 44
                             44444443321 PP

  == domain 2  score: 14.1 bits;  conditional E-value: 1.6e-05
                              HHHHT---EEEEEEES--HHHHHHHHHHHHHHHHTT-EEEEEEE-TT--H CS
              THF_DHG_CYH  22 lkekgvkpkLavilvgddpasevYvrnkkkaceevGieseliklpedvse 71 
                              ++ k  ++kL +ilv+d++a+  Y++nk+ + + + +++++   +e+++e
  PHY93_17475|PHY93_17475  99 IS-KDLEKKLQGILVTDKEAQDYYAKNKEYRTAHILFRIRVTPDKEETQE 147
                              22.35789****************98888666665555444433333332 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   1.2     7e-05      0.18      37     135 ..       3     102 ..       2     105 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 7e-05
                              HHHHHHHHHHHCTT.TTTTTTCHCCCCCC--BTTCSSTTEEEEEEEEEETTEE......SSSSSSCEEEEEEEETTSEEEEEETTE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N  37 KsnlldAilFvLGersakklrseklsdlihkskekasvkkaeveitfdnedkk......lkiekeevsisrrvkrkgeseykingk 116
                              Ksnll A  F++++++     ++ ++ ++    ++ ++kka++e  ++++         +k++  +  i+r++  k+  e k+n+ 
  PHY93_17475|PHY93_17475   3 KSNLLVATTFLISFSAF----AQATDPVVAT-VNGVEIKKAQLEQAYEQNLMFvsdkivTKEKVLNDIINREIGIKKAKESKLNED 83 
                              9************9888....6677777776.777777777777777443322232223344445579****************** PP

                              EE-HHHHHHHHHCTT-STT CS
                              xxxxxxxxxxxxxxxxxxx RF
                    SMC_N 117 evtkkevsellesagiske 135
                               v k++++++l +a+isk+
  PHY93_17475|PHY93_17475  84 PVVKAKMEDVLYHAQISKD 102
                              ***************9975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (270 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       826  (0.0460706); expected 358.6 (0.02)
Passed bias filter:                      329  (0.0183502); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.57u 0.21s 00:00:00.77 Elapsed: 00:00:00.43
# Mc/sec: 1893.11
//
Query:       PHY93_17480|PHY93_17480  [L=191]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.9e-06   26.8   0.4    5.7e-06   26.6   0.4    1.1  1  OMP_b-brl        Outer membrane protein beta-barrel domain
  ------ inclusion threshold ------
      0.058   13.0   0.5      0.075   12.7   0.5    1.2  1  Autotransporter  Autotransporter beta-domain


Domain annotation for each model (and alignments):
>> OMP_b-brl  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.6   0.4   6.3e-10   5.7e-06      10     168 ..      13     179 ..       5     189 .. 0.66

  Alignments for each domain:
  == domain 1  score: 26.6 bits;  conditional E-value: 6.3e-10
                OMP_b-brl  10 saaaaa.............assf.ggfy.vggglglskvkvdgvgsds...gfgfgvgagyefndnvgvegglsysgdkdysgsgk 77 
                               a+ +a                + +g++ +g+ lg++  +++++g  s    f++g+++g+ +++ ++v+g +s +++  ++gs  
  PHY93_17480|PHY93_17480  13 TASVFAadapkvetpkqapI--QlAGYNfAGLALGIARPTGSNSG--SiplRFAYGLEYGHALSKEFAVGGFASRNNGPIAAGS-- 92 
                              22222211223334422111..11222235556666666655554..34457*****************999999999999993.. PP

                OMP_b-brl  78 tdikinllsvpvnagyafnlsdsvlpyggaGlgytkvevdvsgng..asdsdtdfglglgaGveyaladnwslkaeYrytdlksda 161
                                i+   + v+++a y+ +l d + + + aGlg+ ++  ++++    +sd+  +f +g g+G+ + + +++ ++ ++ry+ +    
  PHY93_17480|PHY93_17480  93 -IIDFAITRVGAQAIYN-PLHD-LFIDLRAGLGFLDASANIGNSIilKSDTTHQFFFGPGVGLIVPVVEKIVFSPSIRYSYF---L 172
                              .4444455577777776.6666.79999999999888888866668888888888888888888888899999888888666...3 PP

                OMP_b-brl 162 dndlknn 168
                              +n ++n+
  PHY93_17480|PHY93_17480 173 GNSDSNH 179
                              4555555 PP

>> Autotransporter  Autotransporter beta-domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.5   8.3e-06     0.075      34     150 ..      69     176 ..      36     180 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 8.3e-06
                              EEETCCEEEEEEEEEEEEEEEETTTTEEEEEEEEEEEEEEEEEECTTEEEEEEEEEEEEEEEEEEECEETTCCEEEEEEEEEEEEE CS
          Autotransporter  34 yrlgdnlrlGvafgygrssadvdgaggsgdvdgyslglYgtyqgagglyldgvagygwydndtrrsvdlgglsdtakgdydgngls 119
                              ++l+  +++G++++ +++ +   +ag+ +d   + +g+ + y+   +l++d+ ag+g +d     s+++g+ s  +k+d +++++ 
  PHY93_17480|PHY93_17480  69 HALSKEFAVGGFASRNNGPI---AAGSIIDFAITRVGAQAIYNPLHDLFIDLRAGLGFLDA----SANIGN-SIILKSD-TTHQFF 145
                              34478889999999999999...789999999999**************************....666676.6666666.6799** PP

                              EEEEEEE-CECCGCEEEEEEEEEEEEEEEEE CS
          Autotransporter 120 asleaGydfklsggwtlePqaqltysrlkld 150
                              ++ ++G   ++ ++++++P+++++y   ++d
  PHY93_17480|PHY93_17480 146 FGPGVGLIVPVVEKIVFSPSIRYSYFLGNSD 176
                              ************************9766665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (191 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       213  (0.0118802); expected 358.6 (0.02)
Passed bias filter:                      184  (0.0102627); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1394.21
//
Query:       PHY93_17485|PHY93_17485  [L=303]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    6.3e-08   32.7   1.3      1e-07   32.1   0.4    1.8  2  SurA_N      SurA N-terminal domain
    1.9e-05   24.5   2.3    1.9e-05   24.5   2.3    2.1  2  SurA_N_3    SurA N-terminal domain
     0.0068   16.3   2.2       0.02   14.8   0.3    2.2  2  SurA_N_2    SurA N-terminal domain
     0.0086   16.1   0.1      0.017   15.1   0.1    1.5  1  DUF2521     Protein of unknown function (DUF2521)
  ------ inclusion threshold ------
      0.031   15.1   1.7       0.28   12.0   1.7    2.6  1  Rotamase_2  PPIC-type PPIASE domain


Domain annotation for each model (and alignments):
>> SurA_N  SurA N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.1   0.4   2.8e-11     1e-07       1     112 [.      23     134 ..      23     139 .. 0.93
   2 ?   -2.8   0.0       1.8   6.6e+03     100     113 ..     267     280 ..     257     285 .. 0.73

  Alignments for each domain:
  == domain 1  score: 32.1 bits;  conditional E-value: 2.8e-11
                   SurA_N   1 ldrivavvnddvvlqseldervkevkkqlakqgkqlPpeavLerqvlerlilekiqlqeaektgirvddeelnqaiaeiAkeNklt 86 
                              ld+i a+v+d++++ s++ +  k++  + +       +++  ++++++  i + +  ++ ++ g +++d+++++ i++  k+ +++
  PHY93_17485|PHY93_17485  23 LDKISAIVDDNIITLSQVVRVSKNLAIKRNVAPMIYDKTSFTTEELIDISINKYLIRAKLTELGYSITDDQVEAQIKTNEKRLNVD 108
                              7*****************9999998888888888888889999999999999999999**************************** PP

                   SurA_N  87 ldqlraalaedGlsydefreqiRkEi 112
                               + l + l+++G ++de+ e++R+ i
  PHY93_17485|PHY93_17485 109 RKSLMNFLKQQGSTFDEYFETLREAI 134
                              ***********************976 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 1.8
                   SurA_N 100 sydefreqiRkEii 113
                              ++++ +++iR+++ 
  PHY93_17485|PHY93_17485 267 AFAKQKDKIREDLF 280
                              67888888988775 PP

>> SurA_N_3  SurA N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.5   2.3   5.2e-09   1.9e-05      41     156 ..      27     134 ..       1     139 [. 0.75
   2 ?   -0.6   0.1      0.28   9.9e+02      87     121 ..     150     184 ..     148     205 .. 0.69

  Alignments for each domain:
  == domain 1  score: 24.5 bits;  conditional E-value: 5.2e-09
                 SurA_N_3  41 vakVngekIsraefqqayrrqleqlrqqlggnldaellde.lglrqqvldqlidealllqeakklglsvsdeevakeiasipaFqe 125
                               a V+++ I+ +++ +  ++     ++    n+ +   d+     ++ +d  i++ l++++  +lg s++d++v+++i++++   +
  PHY93_17485|PHY93_17485  27 SAIVDDNIITLSQVVRVSKNLAI--KR----NVAPMIYDKtSFTTEELIDISINKYLIRAKLTELGYSITDDQVEAQIKTNE---K 103
                              58899999999999999988443..23....344444444244568999*****************************9997...5 PP

                 SurA_N_3 126 dGkFdkerYkqlLaangltpeefeaslredl 156
                                + d++ + ++L+++g t +e+ + lre +
  PHY93_17485|PHY93_17485 104 RLNVDRKSLMNFLKQQGSTFDEYFETLREAI 134
                              6679************************987 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.28
                 SurA_N_3  87 vldqlidealllqeakklglsvsdeevakeiasip 121
                              v +q ++++ +++  k+ +l+ +   ++ +ia++ 
  PHY93_17485|PHY93_17485 150 VSEQDVKNTYFKNNIKDARLNFKYTLIDYAIAKDV 184
                              56777888888899999999999999998887763 PP

>> SurA_N_2  SurA N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.3   5.5e-06      0.02      85     122 ..      64     106 ..       3     130 .. 0.71
   2 ?    1.1   0.1     0.088   3.2e+02      43     130 ..     147     235 ..     127     242 .. 0.72

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 5.5e-06
                 SurA_N_2  85 lreqvldqlvseklleqeaeklGltvsdeelqdaiqg.....n 122
                                e+ +d  ++++l++ ++ +lG +++d+++ ++i++     n
  PHY93_17485|PHY93_17485  64 TTEELIDISINKYLIRAKLTELGYSITDDQVEAQIKTnekrlN 106
                              467788899***************************9544430 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.088
                 SurA_N_2  43 vaeVnGekIslqefqqaveearqqlqqqlgenfdeseedeaqlreqvldqlvseklleqeaeklGltvsdeelqdaiqg..npaik 126
                               + V  ++++ + f+++++ ar +++ +l + ++ +++   +l++  ++++v+++ ++  + ++  t + + l+++ ++   p++k
  PHY93_17485|PHY93_17485 147 TIAVSEQDVKNTYFKNNIKDARLNFKYTLID-YAIAKDVVPKLNKGQMEEIVRQYRINSVLPEAFSTLTTANLDEITEEgiAPELK 231
                              4567788888888888888888888887544.455555568888888888888888888888888888888888887777777766 PP

                 SurA_N_2 127 qsFq 130
                              + ++
  PHY93_17485|PHY93_17485 232 NLLK 235
                              5544 PP

>> DUF2521  Protein of unknown function (DUF2521)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.1   4.9e-06     0.017      41     118 ..      52     130 ..      34     145 .. 0.74

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 4.9e-06
                  DUF2521  41 sllpfaslaksiledgCidlaieayLlGaeygrfgyyGEsaeevkkRceeEekel...veelfdlllswskeeealaeesl 118
                              ++ p+  +++s+ +++ id++i+ yL+ a+ ++ gy   + ++v++  +++ek+l    ++l+++l++ +++++   e+ l
  PHY93_17485|PHY93_17485  52 NVAPMIYDKTSFTTEELIDISINKYLIRAKLTELGYS-ITDDQVEAQIKTNEKRLnvdRKSLMNFLKQQGSTFDEYFET-L 130
                              45788889999************************85.56667777777766666222578899988888777766665.4 PP

>> Rotamase_2  PPIC-type PPIASE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   1.7   7.9e-05      0.28      49     116 ..     200     268 ..      79     273 .. 0.70

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 7.9e-05
               Rotamase_2  49 kdfaalakgnskkaadlgifesa.snlpeelakaafalkpgevsgpvetdngyyivkvtevkpakvppf 116
                                 ++++ +++ + ++++++e + + +++el++ ++ +++g+ +++++ ++  +++++ ++   +  +f
  PHY93_17485|PHY93_17485 200 YRINSVLPEAFSTLTTANLDEITeEGIAPELKNLLKQTNEGAMTPVITLSGQHHVFYIAKKDLVESEAF 268
                              23445555555555566655544566777****************************999765555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (303 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1044  (0.0582297); expected 358.6 (0.02)
Passed bias filter:                      416  (0.0232026); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.54u 0.21s 00:00:00.75 Elapsed: 00:00:00.40
# Mc/sec: 2262.31
//
Query:       PHY93_17490|PHY93_17490  [L=247]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.4e-38  132.9   0.0    1.7e-38  132.6   0.0    1.1  1  PdxA      Pyridoxal phosphate biosynthetic protein PdxA


Domain annotation for each model (and alignments):
>> PdxA  Pyridoxal phosphate biosynthetic protein PdxA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  132.6   0.0   9.7e-43   1.7e-38      58     233 ..      71     243 ..      23     246 .. 0.89

  Alignments for each domain:
  == domain 1  score: 132.6 bits;  conditional E-value: 9.7e-43
                              HHHHHHHHHHHHHTTSSSEEEE----HHHHHHTT---SSHHHHHHHHTTSSGSEEEEEETTEEEEESS-SS-GGGHHHH--HHHHH CS
                     PdxA  58 alaslekAvelakegevdalvtaPinKeaikaaglkfpGhtellaeltgtkkvvmmlaseeLrvalvTthipLkevakaitkerll 143
                              + +sl +A++l+ +   d lvt+P +K+++  ++ +  G te++++++g+k+  m + + +  v+lvT+hipLk++ k+it e ++
  PHY93_17490|PHY93_17490  71 STNSLLTALSLISKD--DILVTLPTSKDQLLLNNKNQAGYTEFFRSYFGNKNISMTFKGLSQNVLLVTDHIPLKDITKKITLEVIK 154
                              556667777776665..569****************************************************************** PP

                              HHHHHHHHHHHHTTT.SSSEEEEE-SSGGGGTTTTTSSHHHHTHHHHHHHHHHC.THEEEEEE-HHHHTSHHHHTT-SEEEESSHH CS
                     PdxA 144 evlrllakalkrdfgiekpriaVaGLNPhaGenGllGrEEeeiiepaiekarae.gievegplpaDtlFtkaalkkydavvamYHD 228
                              e+++++ ++ k+ + ++ +++  aG+NPhaGenG lG+EE + i++ai  + ++ g  ++gp++ Dtl ++++ +k + +v mYHD
  PHY93_17490|PHY93_17490 155 EKVQITLDNFKK-YFFSFDEVIFAGINPHAGENGILGDEE-KFIKEAIVDLTKSyGSIFSGPFSGDTLHHHHRAEKNQLFVYMYHD 238
                              ************.7888899******************55.67788877777766******************************* PP

                              HHHHH CS
                     PdxA 229 qglip 233
                              qgl+ 
  PHY93_17490|PHY93_17490 239 QGLAQ 243
                              **986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (247 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       668  (0.0372581); expected 358.6 (0.02)
Passed bias filter:                      418  (0.0233142); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.42
# Mc/sec: 1759.08
//
Query:       PHY93_17495|PHY93_17495  [L=152]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (152 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       198  (0.0110436); expected 358.6 (0.02)
Passed bias filter:                      149  (0.00831056); expected 358.6 (0.02)
Passed Vit filter:                         4  (0.000223102); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 1140.14
//
Query:       PHY93_17500|PHY93_17500  [L=63]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.038   13.5   0.0      0.039   13.4   0.0    1.0  1  DDE_Tnp_IS66  Transposase IS66 family


Domain annotation for each model (and alignments):
>> DDE_Tnp_IS66  Transposase IS66 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   2.2e-06     0.039     131     188 ..       3      57 ..       1      62 [. 0.77

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 2.2e-06
             DDE_Tnp_IS66 131 DgyagYnklaeeqvthalCwaHlrRkfvdaeeakkksqaaaealarigklyaierear 188
                              D+ a+ +  +  ++ + +C+ H rR f+d  e+   ++a++ ++ +i+  y+  + ++
  PHY93_17500|PHY93_17500   3 DALAANDISD-FDFLRSYCLTHGRRIFFDQGEKF--TEACDFVVGKIAIAYKNDKYCK 57 
                              5555555443.68899**************9974..5888888888999999888775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (63 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       401  (0.022366); expected 358.6 (0.02)
Passed bias filter:                      320  (0.0178482); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.39
# Mc/sec: 481.71
//
Query:       PHY93_05385|PHY93_05385  [L=245]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      1e-14   55.2   0.0    1.2e-14   54.9   0.0    1.1  1  NTP_transf_3     MobA-like NTP transferase domain
    9.7e-08   31.9   0.0    2.2e-07   30.7   0.0    1.6  2  NTP_transferase  Nucleotidyl transferase
     0.0038   17.0   0.0     0.0082   15.9   0.0    1.5  2  IspD             2-C-methyl-D-erythritol 4-phosphate cytidyly
  ------ inclusion threshold ------
      0.038   13.8   0.3      0.052   13.3   0.3    1.3  1  Glycos_transf_2  Glycosyl transferase family 2


Domain annotation for each model (and alignments):
>> NTP_transf_3  MobA-like NTP transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.9   0.0   2.8e-18   1.2e-14       1     118 [.       6     129 ..       6     165 .. 0.84

  Alignments for each domain:
  == domain 1  score: 54.9 bits;  conditional E-value: 2.8e-18
                              EEEEEESS-TTTTT....THHHHCCCCCCHHHHHHHHHCTT.-CEEEEECSH..CHHHHHHTTC....TS-EEE-TTSS.-SHHHH CS
             NTP_transf_3   1 aviLAGGrSsRmgg....dKallplggkpllervldalraagvdevvvvggd..eevlaalarl....gvrvvededpg.kgplas 75 
                              a+iLA+G +sR       +K ll++++k+l++++++al+++g+++v+vv+g+  + ++a+la++    +++++ ++d+  kg  +s
  PHY93_05385|PHY93_05385   6 ALILAAGYGSRISDvttdPKSLLKINEKSLMDWHFEALKEVGIRNVIVVTGYkrDVLEAYLAKFkldfDIHFAINDDYRvKGNTYS 91 
                              79**********844567********************************996445666676663333677777777755****** PP

                              HHHHHHHH.SSSCEEEEETT-TT--HHHHHHHHHCHHHHTSSE CS
             NTP_transf_3  76 laaalraaadadavlvlacDmPlltpelverllaaaaasgadv 118
                              ++ +l++      +l++ +D+++ ++++++++++     ++++
  PHY93_05385|PHY93_05385  92 FYYGLEKT--HGDFLLFDADLIY-DTKILKEFVNDKN--SNQI 129
                              ******86..7899999****88.9999999999743..4444 PP

>> NTP_transferase  Nucleotidyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.7   0.0   4.9e-11   2.2e-07       2     129 ..       6     123 ..       5     140 .. 0.76
   2 ?   -2.2   0.1      0.54   2.4e+03     122     202 ..     192     205 ..     170     243 .. 0.52

  Alignments for each domain:
  == domain 1  score: 30.7 bits;  conditional E-value: 4.9e-11
                              EEEE--S--GGGTTCCTTSSGGGSEETTETETTHHHHHHHHHTT-SEEEEEEETTTHHHHHHHHTTSGGGTSEEEEEEESS--..B CS
          NTP_transferase   2 avILaGGsGtRLwPLtrtlakklvpvlgkerliqatlsrlansgieeiivvltqehsflveeqlkegskfgvevlialepegk..g 85 
                              a+ILa G+G+R+ ++t +  +k +++ ++++l++  +++l + gi++ ++v+t +++  +e +l++ + ++ ++ +a+ +  +  g
  PHY93_05385|PHY93_05385   6 ALILAAGYGSRISDVTTD--PKSLLKINEKSLMDWHFEALKEVGIRN-VIVVTGYKRDVLEAYLAKFK-LDFDIHFAINDDYRvkG 87 
                              79*************965..5556666666*****************.88888899999999999886.77777777777766667 PP

                              GGHHHHHTHHHHTTSSE..EEEEETTEEEESTTHHHHHHHHHTH CS
          NTP_transferase  86 tAdAvalaaelledeksdelvlvLggDhlikdayeeavkkaiek 129
                                 +++ ++e  + ++     l + +D +++    +++k+++++
  PHY93_05385|PHY93_05385  88 NTYSFYYGLEKTHGDF-----LLFDADLIYDT---KILKEFVND 123
                              7777777777776555.....89999999995...444444443 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 0.54
                              HHHHHHTHSSTTSEEEEEEESS-CTTSEEEEECTTSBEEEEECS-SSHSHCSEECCSEEEEETTHHHHHHHCCHHHTTSSC CS
          NTP_transferase 122 avkkaiekaakgtvtfgivpveeateyGvieadeegrverfvEKPkeakaselassGiYvfnsevllflakdleelkrged 202
                              a+k+                                                                   +l+e k+ ++
  PHY93_05385|PHY93_05385 192 ACKS-------------------------------------------------------------------FLAEEKNISK 205
                              2222...................................................................3333333333 PP

>> IspD  2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.0   1.8e-06    0.0082       2      55 ..       5      60 ..       4      83 .. 0.81
   2 ?   -3.1   0.0       1.2   5.2e+03      18      40 ..     203     225 ..     200     243 .. 0.66

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 1.8e-06
                             EEEEECTTSSCTT-..SSS-GGGSEETTEEHHHHHHHHHHCTTTEEEEEEEE-GGG CS
                     IspD  2 vvvipAAGsGkRmk..aglpKqflelkgqtllehtvdallaskavdkivvvvsedd 55
                             +++i AAG G+R+   +  pK +l+++ ++l+ +  +al + +  + ivv   + d
  PHY93_05385|PHY93_05385  5 TALILAAGYGSRISdvTTDPKSLLKINEKSLMDWHFEALKEVGIRNVIVVTGYKRD 60
                             689*********9733578********************99665555555555544 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 1.2
                              S-GGGSEETTEEHHHHHHHHHHC CS
                     IspD  18 lpKqflelkgqtllehtvdalla 40 
                                K + ++ ++ ll+h ++  la
  PHY93_05385|PHY93_05385 203 ISKNWEHVMNEFLLNHDMSMHLA 225
                              56788888888888877666555 PP

>> Glycos_transf_2  Glycosyl transferase family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.3   1.2e-05     0.052      29     103 ..      49     123 ..      29     174 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.2e-05
                              EEEEEEEES-SSCHHHHHGGGCHC-TTEEE.EEESSS-.HHHHHHHHHHHH--SSEEEEEESSEEE-TTHHHHHHHH CS
          Glycos_transf_2  29 feiivvDDgStDetveileelakedprvrv.irreenv.GkagalnaglraatgdyilflDaDdepdpdwleklvea 103
                                +ivv    +D +++ l ++ k d ++++ i  + +v G   ++  gl+++ gd++l +DaD+++d + l+++v+ 
  PHY93_05385|PHY93_05385  49 RNVIVVTGYKRDVLEAYLAKF-KLDFDIHFaINDDYRVkGNTYSFYYGLEKTHGDFLL-FDADLIYDTKILKEFVND 123
                              567888888899999999999.566666662556667789999************876.6************99975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (245 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       698  (0.0389313); expected 358.6 (0.02)
Passed bias filter:                      397  (0.0221429); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1813.89
//
Query:       PHY93_17505|PHY93_17505  [L=139]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.9e-17   62.3   0.0    5.8e-17   62.1   0.0    1.1  1  DDE_Tnp_IS66    Transposase IS66 family
  ------ inclusion threshold ------
      0.027   14.7   0.0      0.057   13.6   0.0    1.5  1  DDE_Tnp_IS66_C  IS66 C-terminal element


Domain annotation for each model (and alignments):
>> DDE_Tnp_IS66  Transposase IS66 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.1   0.0   6.5e-21   5.8e-17     208     280 ..      14      88 ..       6      90 .. 0.96

  Alignments for each domain:
  == domain 1  score: 62.1 bits;  conditional E-value: 6.5e-21
             DDE_Tnp_IS66 208 aeleawleeql..kkvlpksklgkairyllkrweallrfledgrvpidNNaaERaiRpvvlgRKnslfagseeGa 280
                              ++l++w+ee+l  k+v p+s l++ i+yll++w++l+ fl+ ++ ++dNN+ E+++R  vl+RKn+lf ++e Ga
  PHY93_17505|PHY93_17505  14 SDLKTWCEETLngKDVEPNSILSTEIKYLLNHWDGLTSFLRIEGAELDNNQLEQKLRLQVLSRKNWLFYKTELGA 88 
                              5799****99999***********************************************************998 PP

>> DDE_Tnp_IS66_C  IS66 C-terminal element
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   6.4e-06     0.057       1      20 [.      96     115 ..      96     119 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 6.4e-06
           DDE_Tnp_IS66_C   1 SLieTAKlNgvdPyaYLkdv 20 
                              S + T+ + +++P++Y+ + 
  PHY93_17505|PHY93_17505  96 SFLKTCEAANINPFDYFVWM 115
                              7899************9875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (139 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       349  (0.0194657); expected 358.6 (0.02)
Passed bias filter:                      281  (0.0156729); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.41
# Mc/sec: 1008.09
//
Query:       PHY93_17510|PHY93_17510  [L=215]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (215 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       626  (0.0349155); expected 358.6 (0.02)
Passed bias filter:                      271  (0.0151152); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.21s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 1623.17
//
Query:       PHY93_17515|PHY93_17515  [L=114]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (114 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       260  (0.0145016); expected 358.6 (0.02)
Passed bias filter:                      221  (0.0123264); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.23s 00:00:00.62 Elapsed: 00:00:00.40
# Mc/sec: 861.89
//
Query:       PHY93_17520|PHY93_17520  [L=546]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    5.1e-19   68.8   0.0      1e-18   67.8   0.0    1.5  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    3.2e-05   23.7   0.1    3.2e-05   23.7   0.1    3.1  4  HATPase_c_5  GHKL domain
    0.00064   19.7   1.2     0.0014   18.6   0.1    2.3  2  HisKA        His Kinase A (phospho-acceptor) domain
    0.00077   19.3   0.3      0.002   17.9   0.0    1.9  2  HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like
  ------ inclusion threshold ------
        3.2    8.0   7.7          2    8.6   1.0    2.9  3  K-box        K-box region
        4.6    7.5   6.6        1.7    8.9   1.8    2.2  2  DUF420       Protein of unknown function (DUF420)
        6.3    7.2   8.6        7.6    6.9   1.0    2.9  2  Sigma_reg_N  Sigma factor regulator N-terminal


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.8   0.0   4.1e-22     1e-18       6     110 ..     437     543 ..     433     545 .. 0.89

  Alignments for each domain:
  == domain 1  score: 67.8 bits;  conditional E-value: 4.1e-22
                              HHHHHHHHHHHHHHHHSTTTEEEEEEEEEE.......TEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHH CS
                HATPase_c   6 LrqiisnlvdNavkfatkageieveikase.......ddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkkl 84 
                              ++q+++nl+ N++++  k +e +++i + e       ++l+is+ D+G+Gi +e+++k+f++f++   tk  g+gtG+Gls++ k+
  PHY93_17520|PHY93_17520 437 VEQVLINLINNSIDAIEKLDERWINIYS-EitqlgncQWLRISIIDSGKGIEPEIQDKIFASFYS---TKKAGKGTGVGLSVSLKI 518
                              78************97789999999995.334467789***************************...99999************* PP

                              HHHTTTEEEE.EEETTTEEEEEEEEES CS
                HATPase_c  85 velmgGeiwv.esepgrGttftftlpl 110
                              +e ++G++++ +s+p   ++f++++pl
  PHY93_17520|PHY93_17520 519 IEAHNGKLYYdSSSP--NSKFILEIPL 543
                              **********55566..9999999997 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       2.1   5.3e+03      38      54 ..      60      76 ..      50     100 .. 0.65
   2 ?   -1.6   0.3      0.99   2.5e+03      29      51 ..     223     245 ..     213     265 .. 0.69
   3 ?   -2.3   0.7       1.6   4.1e+03      76      76 ..     370     370 ..     291     402 .. 0.59
   4 !   23.7   0.1   1.3e-08   3.2e-05       8      98 ..     439     541 ..     433     544 .. 0.76

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 2.1
              HATPase_c_5 38 kkksliisieNsyegek 54
                             k  + ii i+N+++  +
  PHY93_17520|PHY93_17520 60 KGAQEIILISNEFNRLI 76
                             45566889999988733 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 0.99
              HATPase_c_5  29 rfIrltvrekkksliisieNsye 51 
                               +++ +++ + ++ +i+i+N+ +
  PHY93_17520|PHY93_17520 223 NEVSKQINDDRSFSFIRISNKLN 245
                              55666677777778888888755 PP

  == domain 3  score: -2.3 bits;  conditional E-value: 1.6
              HATPase_c_5  76 e 76 
                              e
  PHY93_17520|PHY93_17520 370 E 370
                              1 PP

  == domain 4  score: 23.7 bits;  conditional E-value: 1.3e-08
              HATPase_c_5   8 vilgnlLdNAieacskieeekrfIrltvrekk....ksliisieNsyeg...ek.....kklesskskkeehGiGlksireivkky 81 
                               +l nl++N+i+a +k++  +r I++  + ++    + l isi  s +g   e+      ++ s+k+ ++  G+Gl+   +i++ +
  PHY93_17520|PHY93_17520 439 QVLINLINNSIDAIEKLD--ERWINIYSEITQlgncQWLRISIIDSGKGiepEIqdkifASFYSTKKAGKGTGVGLSVSLKIIEAH 522
                              6899**************..799999888776654566999999997775552243335556699********************* PP

              HATPase_c_5  82 kgnlsieae..dglFtlsv 98 
                              +g+l ++ +  +  F l++
  PHY93_17520|PHY93_17520 523 NGKLYYDSSspNSKFILEI 541
                              **99876551155666666 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.1       3.5   8.9e+03      40      57 ..     292     309 ..     292     309 .. 0.86
   2 !   18.6   0.1   5.4e-07    0.0014       2      63 ..     322     387 ..     321     391 .. 0.85

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 3.5
                              HHHHHHHHHHHHHHHHHH CS
                    HisKA  40 yletiesearrldhlved 57 
                              yl  ie++++  +++v++
  PHY93_17520|PHY93_17520 292 YLMLIEQQIESSLKIVNQ 309
                              788899999999999985 PP

  == domain 2  score: 18.6 bits;  conditional E-value: 5.4e-07
                              HHHHHHHHHHHHHHHHHHHHHHHHHH.HC..T-HSSCHH....HHHHHHHHHHHHHHHHHHHHHHCC CS
                    HisKA   2 lgrflagvaHELrtPLsailgnaeaL.kregklteelke....yletiesearrldhlvedlLdlsr 63 
                              lg++++++ HE+++PL  i   + aL kr ++ +e+  e     l++i + ++r++++ + +  ++r
  PHY93_17520|PHY93_17520 322 LGELASSIVHEIKNPLMLIDHESGALyKR-IDHSENKDEiilgKLKKISEMSQRINKISNMITIYTR 387
                              79************************777.45566666688889**************999877766 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.1       2.5   6.4e+03      85     110 ..     379     404 ..     375     417 .. 0.55
   2 !   17.9   0.0   7.9e-07     0.002       1      62 [.     435     503 ..     435     520 .. 0.76

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 2.5
              HATPase_c_3  85 gkkltvitkkegesstltldvdkidk 110
                              ++ +t++t+++++ s  + + +ki +
  PHY93_17520|PHY93_17520 379 SNMITIYTRNSQNDSFEEANSRKIID 404
                              55566666666555544444444443 PP

  == domain 2  score: 17.9 bits;  conditional E-value: 7.9e-07
              HATPase_c_3   1 yslekAlaelvdNsldAdaen....vkievnknr.gkt...geivieDdGkGmseeelknalrlatsske 62 
                              y++e++l+ l++Ns+dA  +     ++i+ +  + g +    +i+i D GkG+++e  ++ +    s+k+
  PHY93_17520|PHY93_17520 435 YQVEQVLINLINNSIDAIEKLderwINIYSEITQlG-NcqwLRISIIDSGKGIEPEIQDKIFASFYSTKK 503
                              67899************7766777899999966533.23569************9977777765555554 PP

>> K-box  K-box region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.1     0.082   2.1e+02      36      54 ..     102     120 ..      82     124 .. 0.85
   2 ?    8.6   1.0   0.00079         2      45      81 ..     293     329 ..     292     338 .. 0.83
   3 ?   -2.5   0.1       2.4     6e+03      63      79 ..     357     373 ..     342     385 .. 0.55

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.082
                    K-box  36 dleslslkeLqqLEqqLek 54 
                              +l++l++keL+++ +++++
  PHY93_17520|PHY93_17520 102 NLSNLQFKELENINKNINS 120
                              68999********999876 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.00079
                    K-box  45 LqqLEqqLekslkkiRsrKeqllleeieelkkkekql 81 
                              L+ +Eqq+e+slk + ++K+ l +e++++l +  +++
  PHY93_17520|PHY93_17520 293 LMLIEQQIESSLKIVNQEKKILEAEKLSTLGELASSI 329
                              6779*****************9999999997765555 PP

  == domain 3  score: -2.5 bits;  conditional E-value: 2.4
                    K-box  63 Keqllleeieelkkkek 79 
                              K++++l +++++ +  +
  PHY93_17520|PHY93_17520 357 KDEIILGKLKKISEMSQ 373
                              44444443333333333 PP

>> DUF420  Protein of unknown function (DUF420)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.2      0.26   6.7e+02      37      64 ..      30      57 ..      19      69 .. 0.68
   2 ?    8.9   1.8   0.00067       1.7     112     132 .]     275     295 ..     264     295 .. 0.94

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.26
                   DUF420 37 lafvlsalFlvlYllkhalagetkfggp 64
                             +++++  +F +lY + h+ +++++f++ 
  PHY93_17520|PHY93_17520 30 SIVLTLPIFYLLYFSFHTYKDSHSFTSL 57
                             3444455788888888888888888744 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 0.00067
                   DUF420 112 ritvpiwlyvavtGvvvYllL 132
                              r+t++iwl+ ++ Gv +Yl+L
  PHY93_17520|PHY93_17520 275 RLTLIIWLLGTIFGVYIYLML 295
                              89******************8 PP

>> Sigma_reg_N  Sigma factor regulator N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.9   1.0     0.003       7.6       9      40 ..      20      51 ..      17      69 .. 0.84
   2 ?    3.1   1.3     0.047   1.2e+02       4      33 ..     267     296 ..     258     317 .. 0.52

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.003
              Sigma_reg_N  9 rksilrivlislivlllifvilvvtllylaek 40
                             +k++l+ +++s++++l if +l++++  ++++
  PHY93_17520|PHY93_17520 20 KKLFLQLSIVSIVLTLPIFYLLYFSFHTYKDS 51
                             899*******************9999888443 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.047
              Sigma_reg_N   4 lkkakrksilrivlislivlllifvilvvt 33 
                              l+k++ + +l+ ++  l++++ ++++l+++
  PHY93_17520|PHY93_17520 267 LNKYILTFRLTLIIWLLGTIFGVYIYLMLI 296
                              344444444444444444444444444333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (546 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1069  (0.0596241); expected 358.6 (0.02)
Passed bias filter:                      376  (0.0209716); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.59u 0.25s 00:00:00.84 Elapsed: 00:00:00.43
# Mc/sec: 3822.56
//
Query:       PHY93_17525|PHY93_17525  [L=128]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
  ------ inclusion threshold ------
      0.037   14.4   0.3      0.049   14.0   0.3    1.1  1  Herpes_UL20  Herpesvirus egress protein UL20
       0.15   12.1   0.3       0.25   11.3   0.3    1.4  1  MOEP19       KH-like RNA-binding domain


Domain annotation for each model (and alignments):
>> Herpes_UL20  Herpesvirus egress protein UL20
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.3   5.5e-06     0.049      22      76 ..      24      79 ..      12      83 .. 0.78

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 5.5e-06
              Herpes_UL20 22 asvlfllstlvlkpicclifllyakalt.grlllvagllaltvlyyvtlllellvv 76
                               v+f +s+l lk    lif++  ++++ + +l++ ++l ++v++ +  l+  l+v
  PHY93_17525|PHY93_17525 24 SRVMFSVSALNLKCRIELIFVFQNIKIKkSVKLIISCILNAMVAHDFLALVLNLLV 79
                             5689*********98777788877766515678899*********98777766655 PP

>> MOEP19  KH-like RNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.3   2.8e-05      0.25      33      78 ..      15      61 ..       2      67 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 2.8e-05
                   MOEP19 33 eripeiEqvsqtllevkaldseglae.ilifGrprykkrvkkmllsl 78
                             +++      s+++++v+al+ + ++e i++f + ++kk vk ++ ++
  PHY93_17525|PHY93_17525 15 KHVTLDKIESRVMFSVSALNLKCRIElIFVFQNIKIKKSVKLIISCI 61
                             4554445669***********99999789**************9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (128 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       643  (0.0358637); expected 358.6 (0.02)
Passed bias filter:                      333  (0.0185733); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.24s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 934.42
//
Query:       PHY93_17530|PHY93_17530  [L=137]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
       0.15   12.2   0.2        4.2    7.5   0.0    2.3  2  Phage_head_chap  Head assembly gene product


Domain annotation for each model (and alignments):
>> Phage_head_chap  Head assembly gene product
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.7   0.0    0.0076   1.4e+02      15      33 ..      71      87 ..      64      97 .. 0.78
   2 ?    7.5   0.0   0.00023       4.2       7      34 ..      97     124 ..      96     131 .. 0.84

  Alignments for each domain:
  == domain 1  score: 2.7 bits;  conditional E-value: 0.0076
          Phage_head_chap 15 hlvYiheleyddgklkvdf 33
                             h  Y  e+  ++ k++vdf
  PHY93_17530|PHY93_17530 71 H--YELEVVLENNKVSVDF 87
                             5..66789999*******9 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.00023
          Phage_head_chap   7 IlledGekhlvYiheleyddgklkvdfs 34 
                              I+l+dG++++vY    + +  k k+df+
  PHY93_17530|PHY93_17530  97 INLNDGSNYVVYASYETANLNKFKLDFG 124
                              8899********9877777677999997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (137 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       386  (0.0215294); expected 358.6 (0.02)
Passed bias filter:                      301  (0.0167884); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 1047.44
//
Query:       PHY93_17535|PHY93_17535  [L=54]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.036   13.7   0.0      0.048   13.3   0.0    1.3  1  Pentapeptide  Pentapeptide repeats (8 copies)


Domain annotation for each model (and alignments):
>> Pentapeptide  Pentapeptide repeats (8 copies)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   2.7e-06     0.048      15      31 ..      23      39 ..      16      40 .. 0.58

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 2.7e-06
                             ECCCESEEECT-B-TT- CS
             Pentapeptide 15 ganlsgAnLtgAnlsgA 31
                              +++++AnL++++l+++
  PHY93_17535|PHY93_17535 23 YTSFRHANLYDVDLEQC 39
                             55566666666666555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (54 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       292  (0.0162865); expected 358.6 (0.02)
Passed bias filter:                      229  (0.0127726); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.38u 0.22s 00:00:00.60 Elapsed: 00:00:00.39
# Mc/sec: 417.59
//
Query:       PHY93_17540|PHY93_17540  [L=493]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.024   14.4   0.1      0.071   12.9   0.1    1.9  2  DSBA             DSBA-like thioredoxin domain
       0.17   12.3   0.2         14    6.1   0.0    2.6  2  Trns_repr_metal  Metal-sensitive transcriptional repressor


Domain annotation for each model (and alignments):
>> DSBA  DSBA-like thioredoxin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0      0.66     6e+03      62      79 ..     165     182 ..     163     194 .. 0.79
   2 ?   12.9   0.1   7.9e-06     0.071      44     125 ..     293     382 ..     281     429 .. 0.74

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 0.66
                              HHHHHHHHHHHT....GG CS
                     DSBA  62 ledlkrlaeaegiplrfp 79 
                              +e+++ lae++g++l + 
  PHY93_17540|PHY93_17540 165 FEKITALAEEKGVKLALI 182
                              578999999999999875 PP

  == domain 2  score: 12.9 bits;  conditional E-value: 7.9e-06
                              HHCT.S.GGG..SHHHHHHHHHHHHHHHHHHT....GGSS.HHHHHHHHHHHHHHHHHHH.....GHHHHHHHHHHHHHTSSS-TS CS
                     DSBA  44 kasgnvgpse..lpeklkylledlkrlaeaegiplrfpkd.klknstraarlllaagaeg.....laekvvrelfealwsegqait 121
                               +s+n++ +    +++  +++++lk++ e + ipl+f ++ kl+++++a r++++  ++       a + v+e+ ++ + e++a++
  PHY93_17540|PHY93_17540 293 YDSKNIPEALckTQNEFSEIKKRLKEISELYSIPLSFIETsKLEKTLNAYRAYQLEFEKIysesqIAGNEVKEIIHRDFPEQAALF 378
                              457788888877888999*******************9995666999999998763222222222555556666666666666666 PP

                              SHHH CS
                     DSBA 122 ddqe 125
                              dd+e
  PHY93_17540|PHY93_17540 379 DDEE 382
                              6654 PP

>> Trns_repr_metal  Metal-sensitive transcriptional repressor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.3   0.0     0.012     1e+02       2      21 ..      98     117 ..      97     118 .. 0.91
   2 ?    6.1   0.0    0.0016        14      21      65 ..     422     467 ..     418     485 .. 0.76

  Alignments for each domain:
  == domain 1  score: 3.3 bits;  conditional E-value: 0.012
                              HHHHHHHHHHHHHHHHHHHH CS
          Trns_repr_metal   2 kkkllnrLkrieGQvrgiqr 21 
                              kk+ ln L+ ieG ++ ++r
  PHY93_17540|PHY93_17540  98 KKNFLNSLQDIEGKLKDLKR 117
                              899************99886 PP

  == domain 2  score: 6.1 bits;  conditional E-value: 0.0016
                              HHHHTT--HHHHHHHHHHHHHH.HHHHHHHHHHHHHHHHHHHHHHH CS
          Trns_repr_metal  21 rmieedryCidiltQlaAvrsa.lnkvglelledhlkhcvaeaiee 65 
                              +  ++++ C++i+  ++ +++a +nk+++++++++  + +++++++
  PHY93_17540|PHY93_17540 422 KLAQKNKICKEISSKVSPASKAiMNKFAKLYIHSNKTEILVNDVAS 467
                              66678899********9665551689****9999988888866633 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (493 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1065  (0.059401); expected 358.6 (0.02)
Passed bias filter:                      511  (0.0285013); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.61u 0.24s 00:00:00.85 Elapsed: 00:00:00.43
# Mc/sec: 3435.24
//
Query:       PHY93_17545|PHY93_17545  [L=128]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (128 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       554  (0.0308997); expected 358.6 (0.02)
Passed bias filter:                      399  (0.0222544); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.24s 00:00:00.64 Elapsed: 00:00:00.41
# Mc/sec: 946.71
//
Query:       PHY93_17550|PHY93_17550  [L=149]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.7e-12   47.0   0.2    4.2e-12   46.8   0.2    1.0  1  Usp       Universal stress protein family


Domain annotation for each model (and alignments):
>> Usp  Universal stress protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.8   0.2   2.4e-16   4.2e-12       3     141 .]       2     143 ..       1     143 [. 0.94

  Alignments for each domain:
  == domain 1  score: 46.8 bits;  conditional E-value: 2.4e-16
                              SEEEEEE-SSHHHHHHHHHHHHHHHHCTSEEEEEEEEESSHCCCCCCCHHHHHHHHHHHHHHHHHHHH...HHHHHHCTTCEEEEE CS
                      Usp   3 krIlVavDgseeskkAlewAlelakargaelillhvidprasgavsdadeeaeeeeleleeaeleada...akaaaeaggvkvevv 85 
                              k+ +++vD +++s + l+   + +  ++a+++l+hv++ +  ++++++      +e+ + e+   ++    a++ + ++  +v+  
  PHY93_17550|PHY93_17550   2 KTAVICVDLNDQSLETLKTIPAKLDLQEAQIHLIHVVEIQYADHAHYSIVYPIADEYPEIEKNVFKALtklAEDVKLPENRIVKKC 87 
                              78899*****************99999******************9999999999999988877776688999************* PP

                              EEESSHHHHHHHHHHHTTSSEEEEESCCSSTTTTCSSBHHHHHHHHHTSSEEEEEE CS
                      Usp  86 veegdpaeeilevaeeedadliVvGsrgrsglsrlllGSvseyvlrhapcpVlvVr 141
                              v +++++e++ ++  e +ad ++v++rg++g+ +l+  S ++ + + +pc Vlv r
  PHY93_17550|PHY93_17550  88 VFSHSKKEALKDYLIEVHADVVIVATRGKHGVGELFPSSLTDFLCKYSPCAVLVLR 143
                              ******************************************************87 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (149 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       629  (0.0350828); expected 358.6 (0.02)
Passed bias filter:                      478  (0.0266607); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 1108.53
//
Query:       PHY93_05390|PHY93_05390  [L=287]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-09   38.9   1.7    1.2e-09   38.7   0.3    1.9  2  CDP-OH_P_transf  CDP-alcohol phosphatidyltransferase


Domain annotation for each model (and alignments):
>> CDP-OH_P_transf  CDP-alcohol phosphatidyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.7   0.3     7e-14   1.2e-09       2      66 .]      42     108 ..      41     108 .. 0.91
   2 ?   -2.1   0.1      0.38   6.8e+03      21      21 ..     250     250 ..     191     276 .. 0.65

  Alignments for each domain:
  == domain 1  score: 38.7 bits;  conditional E-value: 7e-14
                              -HHHHHHHHHHHHHHHHHGGGS-H......HHHHHHHHHHHHHTTHHHHHHHHTT---HHHHHHHHHHH CS
          CDP-OH_P_transf   2 lPnaiTllrlllsvlailllltyyp....lvlailllliasltDalDGklARrlnqvstlGkllDslaD 66 
                              +Pn  +l+ ll++++a +  +++++    + ++++ +l+++++D++DG++AR  ++ +++G+l+D ++D
  PHY93_05390|PHY93_05390  42 TPNHYSLAALLAGIAAGY--NFLQGtslgFKWGAFYFLLSAIFDCCDGMVARLKKNGTEFGRLIDGVVD 108
                              8***********999998..5566667999************************99899******9988 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 0.38
                              G CS
          CDP-OH_P_transf  21 l 21 
                              +
  PHY93_05390|PHY93_05390 250 I 250
                              1 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (287 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       466  (0.0259914); expected 358.6 (0.02)
Passed bias filter:                      319  (0.0177924); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 2080.71
//
Query:       PHY93_17555|PHY93_17555  [L=570]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      8e-26   90.8   0.0    1.3e-25   90.1   0.0    1.4  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    2.5e-10   40.2   0.5    7.4e-10   38.7   0.3    2.0  2  HisKA        His Kinase A (phospho-acceptor) domain
    1.9e-07   31.4   0.0    4.8e-07   30.1   0.0    1.8  1  HAMP         HAMP domain
     0.0015   18.5   0.0     0.0029   17.6   0.0    1.4  1  HATPase_c_2  Histidine kinase-like ATPase domain
  ------ inclusion threshold ------
      0.029   14.2   0.0      0.095   12.5   0.0    1.8  2  HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like
      0.047   13.5   0.0        0.1   12.4   0.0    1.5  1  HPTransfase  Histidine phosphotransferase C-terminal domain


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   90.1   0.0   4.3e-29   1.3e-25       2     108 ..     466     570 .]     465     570 .] 0.92

  Alignments for each domain:
  == domain 1  score: 90.1 bits;  conditional E-value: 4.3e-29
                              HHHHHHHHHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHHHHH CS
                HATPase_c   2 dekrLrqiisnlvdNavkfatkageieveikaseddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkklvel 87 
                              d  r  q++snl++Na+kf++++ge+++++  +e+++++ v+D+G+Gip+e+l+++fe+f +   ++ + + +GlGl+i+k++v+ 
  PHY93_17555|PHY93_17555 466 DRGRTLQVLSNLLGNALKFTPSGGEVTLQVVEKEKEIQFLVRDSGPGIPPEELERIFERFHR--LKRERDFSSGLGLYIAKEFVRA 549
                              667889*************88999999999977789**************************..5555569*************** PP

                              TTTEEEEEEETTTEEEEEEEE CS
                HATPase_c  88 mgGeiwvesepgrGttftftl 108
                              +gG+iwvese g G++f+ftl
  PHY93_17555|PHY93_17555 550 HGGKIWVESEVGMGSRFYFTL 570
                              *******************97 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0       3.5     1e+04      33      48 ..      62      77 ..      54      83 .. 0.73
   2 !   38.7   0.3   2.5e-13   7.4e-10       2      67 .]     349     419 ..     348     419 .. 0.87

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 3.5
                             -HSSCHHHHHHHHHHH CS
                    HisKA 33 lteelkeyletiesea 48
                               e+  e+l++i+s  
  PHY93_17555|PHY93_17555 62 QKERAVEFLDSIVSTC 77
                             4588888999988866 PP

  == domain 2  score: 38.7 bits;  conditional E-value: 2.5e-13
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHC.......T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH CS
                    HisKA   2 lgrflagvaHELrtPLsailgnaeaLkre.....gklteelkeyletiesearrldhlvedlLdlsrieag 67 
                              + +f+a v+H+L++PL+ +++na+++++      +++  +l+  +e+++++  r++++v  +Ldl+ i +g
  PHY93_17555|PHY93_17555 349 RDDFVAIVSHDLKNPLALLSLNASLMEKNlgqlgDEAKLSLMPKIESMRRHLARMNEMVCSVLDLTAIRSG 419
                              679***********************99896666555566666**********************988776 PP

>> HAMP  HAMP domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.1   0.0   1.6e-10   4.8e-07       2      52 ..     293     343 ..     292     344 .. 0.94

  Alignments for each domain:
  == domain 1  score: 30.1 bits;  conditional E-value: 1.6e-10
                              HHHTTHHHHHHHHHHHHHHTTTBTSSTCCTTSSSHHHHHHHHHHHHHHHHH CS
                     HAMP   2 larrilrPLrrLaraarriaaGdldtrlpvsgrDEiGeLarafNaMldrLr 52 
                              +a + +rPL +L++ +++ +aGdld+++   g+ Ei+ L+r f +++ +L+
  PHY93_17555|PHY93_17555 293 FAAQFTRPLTKLVERMKAAQAGDLDSPVFMGGPKEIALLGRGFSDLASQLK 343
                              67889**************************************99999987 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.0   9.6e-07    0.0029      51     109 ..     485     547 ..     473     557 .. 0.82

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 9.6e-07
              HATPase_c_2  51 ap.egpvevrlesdeealtvevaDsGpgfdpetlpdpteeep...keslkegGrGlalikglv 109
                               p  g+v++++  +e+++++ v+DsGpg +pe+l++  e       e + ++G+Gl++ k++v
  PHY93_17555|PHY93_17555 485 TPsGGEVTLQVVEKEKEIQFLVRDSGPGIPPEELERIFERFHrlkRERDFSSGLGLYIAKEFV 547
                              555799**********************99998776544333666999**********99988 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0         1   3.1e+03      34     117 ..     344     425 ..     339     432 .. 0.62
   2 ?   12.5   0.0   3.2e-05     0.095       8      64 ..     475     533 ..     469     566 .. 0.73

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 1
              HATPase_c_3  34 geivieDdGkGmseeelknalrlatsskeakrkstslGkkGiGlklAslslgkkltvitk...kegesstltldvdkidkenekvl 116
                              ++i  +Dd   +   +lkn l l + + +    ++ lG+ G     A lsl  k++ + +     +e+ +  ld+++i + n+k l
  PHY93_17555|PHY93_17555 344 QSIELRDDFVAIVSHDLKNPLALLSLNASL--MEKNLGQLGDE---AKLSLMPKIESMRRhlaRMNEMVCSVLDLTAIRSGNFKLL 424
                              567777777777777777777777766664..56777777644...5555555555555411134566677888888877777666 PP

              HATPase_c_3 117 e 117
                              +
  PHY93_17555|PHY93_17555 425 R 425
                              5 PP

  == domain 2  score: 12.5 bits;  conditional E-value: 3.2e-05
              HATPase_c_3   8 aelvdNsld..AdaenvkievnknrgktgeivieDdGkGmseeelknal.rlatsskeak 64 
                                l+ N+l    +  +v+++v +++ k+ ++ ++D G G+++eel++ + r+++ ++e++
  PHY93_17555|PHY93_17555 475 SNLLGNALKftPSGGEVTLQVVEKE-KEIQFLVRDSGPGIPPEELERIFeRFHRLKRERD 533
                              5566666553345567999999986.7999*****************9956888777743 PP

>> HPTransfase  Histidine phosphotransferase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   3.4e-05       0.1      32      78 ..     470     516 ..     459     526 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 3.4e-05
                              HHHHHHHHHHHHHHC-TT--EEEEEEEEETTCEEEEEEEESTT---- CS
              HPTransfase  32 kvKlllnllliaedalprGGtitvsaegeegageirvrakGerarld 78 
                              + ++l nll  a ++ p GG++t++++++e++ ++ vr +G+ + ++
  PHY93_17555|PHY93_17555 470 TLQVLSNLLGNALKFTPSGGEVTLQVVEKEKEIQFLVRDSGPGIPPE 516
                              668899***********************************998654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (570 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       490  (0.02733); expected 358.6 (0.02)
Passed bias filter:                      461  (0.0257125); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.62u 0.24s 00:00:00.86 Elapsed: 00:00:00.43
# Mc/sec: 3938.37
//
Query:       PHY93_17560|PHY93_17560  [L=127]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0056   16.5   2.8        3.6    7.5   0.0    3.1  3  DUF3767   Protein of unknown function (DUF3767)


Domain annotation for each model (and alignments):
>> DUF3767  Protein of unknown function (DUF3767)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    3.5   0.0    0.0036        64      24      41 ..       4      21 ..       2      31 .. 0.89
   2 !    7.5   0.0    0.0002       3.6      21      40 ..      49      68 ..      42      72 .. 0.84
   3 !    4.5   0.3    0.0017        30      24      41 ..     100     117 ..      93     123 .. 0.89

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.0036
                  DUF3767 24 CaRdslltGigagavvGg 41
                             C+R s ++G  +  ++G 
  PHY93_17560|PHY93_17560  4 CFRSSXMLGTXCFWAIGE 21
                             *********999999885 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0002
                  DUF3767 21 siPCaRdslltGigagavvG 40
                               PC+R s ++G      +G
  PHY93_17560|PHY93_17560 49 LCPCFRSSSMLGAXRLWTIG 68
                             57**********88877777 PP

  == domain 3  score: 4.5 bits;  conditional E-value: 0.0017
                  DUF3767  24 CaRdslltGigagavvGg 41 
                              C+R s ++Gi    ++G+
  PHY93_17560|PHY93_17560 100 CFRCSKMLGIXRSWAIGV 117
                              ***********9999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (127 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       324  (0.0180713); expected 358.6 (0.02)
Passed bias filter:                      137  (0.00764125); expected 358.6 (0.02)
Passed Vit filter:                         5  (0.000278878); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.23s 00:00:00.64 Elapsed: 00:00:00.41
# Mc/sec: 937.67
//
Query:       PHY93_17565|PHY93_17565  [L=395]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.5e-66  224.7   0.0    1.7e-66  224.6   0.0    1.0  1  AMP-binding  AMP-binding enzyme
    2.1e-11   43.5   2.3    1.3e-10   41.0   1.4    2.5  2  ACAS_N       Acetyl-coenzyme A synthetase N-terminus
  ------ inclusion threshold ------
      0.032   14.0   0.0      0.051   13.3   0.0    1.2  1  BMF          Bcl-2-modifying factor, apoptosis


Domain annotation for each model (and alignments):
>> AMP-binding  AMP-binding enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  224.6   0.0   2.9e-70   1.7e-66       2     323 ..      57     394 ..      56     395 .] 0.87

  Alignments for each domain:
  == domain 1  score: 224.6 bits;  conditional E-value: 2.9e-70
                              HHHHHHSTTSEEEEE.....CCSTEEEEHHHHHHHHHHHHHHHHHTTSSTT-EEEEEESSSHHHHHHHHHHHHTT-EEEEEETTS- CS
              AMP-binding   2 eeqaaktpdkvalvd.....sgegqtlTYreldervnrlAagLrslGvkkgdrVaillpnspewvvallailkaGavvvplnptlt 82 
                              +++ +k+++k al++     ++    +TY+el+  v+r+A+ L+++Gvkkgd V +++ ++pe ++ +la++++Ga++ ++  +++
  PHY93_17565|PHY93_17565  57 DRHLEKRRQKKALIFepnnpDEAAIFYTYGELHISVCRFANLLKKKGVKKGDIVCFYMGMTPEVMIGILACARIGAIHTVVFGGFS 142
                              67788899999999999998788899******************99**************************************** PP

                              HHHHHHHHHHHTESEEE........ETCTCCC.HHHHHHHHSCC-EECEEEEESCCS-HCCHCCCHCCCCSCTTS.....-TSCCC CS
              AMP-binding  83 aeelayiledseakvli........atvdsel.leklleaaakleavklvivldadellkeeelkeeeeseekae.....kpeeee 154
                              ++ l+  leds+ak++i        +  + +   ++++ea ++l +v++v+v+++  ++  ++ ++++  +++         ++++
  PHY93_17565|PHY93_17565 143 PQSLRGRLEDSKAKIIIthdgsfrgD--KITPlKNMVDEAIENLTTVETVLVVKRTHSE-IQMKPGRDYFYDV-LikdcePYCPAV 224
                              *****************998866431..2334478899999999999999999965543.3344444444444.145677677888 PP

                              S-BTTSEEEEEEE--SSSS-EEEEEEH.HHHHHHHHHHHHHHCSCCTTT-EEEESS-TTSCHHHHHHHHHHHHTT-EEEE-TTCGC CS
              AMP-binding 155 elkpddlayiiYTSGTTGkPKGVmlsh.rnlvanvaslkletrfklkeddvvlsilplahifglilelllallsGatvvllpkdaa 239
                              e++++d+++i+YTSG+TGkPKG +++  +++v+   + ++++ f++ke+d +++++++ +i+g+++ ++++ll+G t v++++++ 
  PHY93_17565|PHY93_17565 225 EVEAEDPLFILYTSGSTGKPKGLVHTNaGYMVHV-GN-SFKDVFQIKENDIFWCTADIGWITGHSYLTYGPLLNGTTTVMFEGTPN 308
                              9**************************5555555.55.367889999*************************************** PP

                              .CHHHHHHHHHHHHT-SEEEEEHHHHHHHHH.CCCHHCHHHHCCGTT-SEEEEESS-EBHHHHHHHHHHHTC...EEEEEEEEGGG CS
              AMP-binding 240 .ldpklllelieklkvtviagvPrvlealle.sgalkaakkakdlsslrlvllggeplspellrffralfge...evlegYGlTEt 320
                               ++p++++e+iek+++++++++P++++ l +  +++    ++ +++sl+++ ++gep+++e+++++++ +g+   ++++++++TEt
  PHY93_17565|PHY93_17565 309 yPTPARFWEVIEKHHISHLYTAPTAIRSLEKfGNDIP---ESFSMKSLKVLGSVGEPINEEAWQWYHKYVGKdrcPIVDTWWQTET 391
                              777**************************77666666...334889*************************9************** PP

                              SSE CS
              AMP-binding 321 tgv 323
                              +g+
  PHY93_17565|PHY93_17565 392 GGI 394
                              998 PP

>> ACAS_N  Acetyl-coenzyme A synthetase N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.0   1.4   2.1e-14   1.3e-10      12      55 .]      11      55 ..       3      55 .. 0.94
   2 ?   -0.1   0.0      0.15   9.1e+02      12      32 ..     312     334 ..     310     346 .. 0.73

  Alignments for each domain:
  == domain 1  score: 41.0 bits;  conditional E-value: 2.1e-14
                             HHHHHHHHHCCS--SB--S-SECSTTTC.T-EESTT-EE-HHHHH CS
                   ACAS_N 12 peaFWaeqakeldWekpfdkvldgskgp.fikWFeGGklNicyNc 55
                               ++W  +a+ ++W k++d+   g++++ +++WF G++lNi++Nc
  PHY93_17565|PHY93_17565 11 LHEYWTGIANTFQWRKKWDSLQTGNFNEvNVQWFMGARLNITENC 55
                             579**********************9999**************** PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.15
                              HHHHHHHHHCC..S--SB--S-S CS
                   ACAS_N  12 peaFWaeqake..ldWekpfdkv 32 
                              p++FW+ + k+   + ++ ++ +
  PHY93_17565|PHY93_17565 312 PARFWEVIEKHhiSHLYTAPTAI 334
                              899**999987655666666665 PP

>> BMF  Bcl-2-modifying factor, apoptosis
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   8.6e-06     0.051      89     119 ..     234     263 ..     213     272 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 8.6e-06
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                      BMF  89 ltlgpGvreePralfyGnaGyrlhvpPvlfe 119
                              ++  +G +++P+ l + naGy +hv    f+
  PHY93_17565|PHY93_17565 234 ILYTSGSTGKPKGLVHTNAGYMVHV-GNSFK 263
                              55679********************.56665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (395 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       499  (0.027832); expected 358.6 (0.02)
Passed bias filter:                      460  (0.0256568); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.54u 0.21s 00:00:00.75 Elapsed: 00:00:00.42
# Mc/sec: 2841.13
//
Query:       PHY93_17570|PHY93_17570  [L=864]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
     0.0091   16.0  11.3       0.02   14.9  11.3    1.5  1  CENP-F_leu_zip  Leucine-rich repeats of kinetochore protein C
  ------ inclusion threshold ------
      0.012   15.6  20.8      0.015   15.3  19.0    2.1  2  FlxA            FlxA-like protein
        2.8    8.4   7.9        6.8    7.1   7.9    1.6  1  CCDC-167        Coiled-coil domain-containing protein 167
        4.5    6.5  12.8         10    5.3  12.8    1.5  1  DUF3450         Protein of unknown function (DUF3450)
        4.6    6.4   9.2         10    5.3   9.2    1.6  1  TMPIT           TMPIT-like protein
        7.3    6.6   7.1         21    5.1   7.1    1.8  1  DUF1664         Protein of unknown function (DUF1664)


Domain annotation for each model (and alignments):
>> CENP-F_leu_zip  Leucine-rich repeats of kinetochore protein Cenp-F/LEK1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9  11.3   6.8e-06      0.02      37     122 ..     572     658 ..     564     674 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 6.8e-06
           CENP-F_leu_zip  37 eenqekvileaEtskaevet.lkeeieelaeelreleldLvalrsekeeLekelqkkqervseLeslnsslenlleekEqe.kvqm 120
                              +++ +++ ++  +s    ++ l+++i el+++l+  e +L+ ++seke  + e ++ q++++e +++  +l+n++ e  +e kv+ 
  PHY93_17570|PHY93_17570 572 QKSSDEAARDSKNSISNTNSvLNDKIAELNKKLSSTEENLERIKSEKEAADTE-KEHQQKINEENKTIADLKNQIAEMKNEsKVKG 656
                              45555666666666555544599*************************98766.778999***9*********9998777745554 PP

           CENP-F_leu_zip 121 ke 122
                               +
  PHY93_17570|PHY93_17570 657 DD 658
                              43 PP

>> FlxA  FlxA-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.3  19.0     5e-06     0.015       4      92 ..     582     677 ..     579     688 .. 0.80
   2 ?   -0.3   0.3      0.36   1.1e+03      72      98 ..     675     698 ..     666     703 .. 0.54

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 5e-06
                     FlxA   4 ssasssssssgsasqiasLqkQiknlqkqLkelsesdeltkeekk..kqqqliqaQIqqlqaQIaqlqqqqaekaqekqqsekeek 87 
                              s+ s s+++s  +++ia+L+k +++ ++ L+ +++++e  ++ek+  +++++  + I +l++QIa ++++ + k +++++++k ++
  PHY93_17570|PHY93_17570 582 SKNSISNTNSVLNDKIAELNKKLSSTEENLERIKSEKEAADTEKEhqQKINEENKTIADLKNQIAEMKNESKVKGDDADSKNKIST 667
                              56688999999*************************55555544422566666778*********************999999998 PP

                     FlxA  88 sksk.....q 92 
                               +++     +
  PHY93_17570|PHY93_17570 668 IATTgidnaK 677
                              8877654432 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.36
                     FlxA  72 qaekaqekqqsekeekskskqegvnkp 98 
                              +a++aq+    + +++++s++++vnk 
  PHY93_17570|PHY93_17570 675 NAKEAQN---VSAKSSEESRASAVNKD 698
                              4444443...33333334446777764 PP

>> CCDC-167  Coiled-coil domain-containing protein 167
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.1   7.9    0.0023       6.8       5      48 ..     596     639 ..     592     654 .. 0.85

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.0023
                 CCDC-167   5 eIdkleeklascrerLeaverrlrkeelseeeResleeEeaslk 48 
                              +I +l++kl+s++e+Le++ ++ + +  ++e+ ++++eE +++ 
  PHY93_17570|PHY93_17570 596 KIAELNKKLSSTEENLERIKSEKEAADTEKEHQQKINEENKTIA 639
                              7999*********************************9998864 PP

>> DUF3450  Protein of unknown function (DUF3450)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.3  12.8    0.0035        10      19      93 ..     577     650 ..     567     653 .. 0.90

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.0035
                  DUF3450  19 dqalkeaekavaaaaqsqkkidklddekqellaeyralkeeleslevyneqlerlvasqeqeiasleeqieeiee 93 
                              ++a++ ++++ ++ +  + ki +l+++ ++ +++++++k+e+e+++ ++e+++++ ++ +++ia+l++qi+e+++
  PHY93_17570|PHY93_17570 577 EAARDSKNSISNTNSVLNDKIAELNKKLSSTEENLERIKSEKEAADTEKEHQQKI-NEENKTIADLKNQIAEMKN 650
                              67889999999****************************************9986.567899*********9985 PP

>> TMPIT  TMPIT-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.3   9.2    0.0034        10      20      88 ..     578     651 ..     563     688 .. 0.75

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.0034
                    TMPIT  20 eykqkleelsklqskcskeikkqkkrlkelksslkklkksvk.....eeeeeeveelkeelkerkkvlkevesl 88 
                                + + +++s+ +s +  +i++ +k+l++ +++l+++k++++     +e++++++e ++++++ k++++e+++ 
  PHY93_17570|PHY93_17570 578 AARDSKNSISNTNSVLNDKIAELNKKLSSTEENLERIKSEKEaadteKEHQQKINEENKTIADLKNQIAEMKNE 651
                              44556667777778888888889999999999999988885555555566666666666677777777777654 PP

>> DUF1664  Protein of unknown function (DUF1664)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   7.1    0.0071        21      54     122 ..     583     650 ..     574     664 .. 0.79

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.0071
                  DUF1664  54 seslaatkrhLssridrvdkkldeqkeiskeikeevtevredlseigedvesvkeavegleskleriee 122
                              ++s+++t   L+++i++++kkl +++e  + ik+e  e+ +  +e ++++++ ++++ +l+++++++++
  PHY93_17570|PHY93_17570 583 KNSISNTNSVLNDKIAELNKKLSSTEENLERIKSEK-EAADTEKEHQQKINEENKTIADLKNQIAEMKN 650
                              578888888888889999999888888888888884.45555566677788888888888888888764 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (864 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2257  (0.125885); expected 358.6 (0.02)
Passed bias filter:                      499  (0.027832); expected 358.6 (0.02)
Passed Vit filter:                        75  (0.00418317); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.93u 0.29s 00:00:01.22 Elapsed: 00:00:00.47
# Mc/sec: 5499.32
//
Query:       PHY93_17575|PHY93_17575  [L=888]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
       0.12   13.1  10.6       0.12   13.1   7.2    2.8  3  Cytochrom_B562  Cytochrome b562


Domain annotation for each model (and alignments):
>> Cytochrom_B562  Cytochrome b562
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0      0.32   5.7e+03       8      44 ..     136     172 ..     133     188 .. 0.71
   2 ?   -4.3   0.0         1   1.8e+04      70      87 ..     547     564 ..     543     565 .. 0.80
   3 ?   13.1   7.2   6.6e-06      0.12       3      95 ..     603     697 ..     599     699 .. 0.94

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.32
           Cytochrom_B562   8 qmkkalkqvakaddaeelkkalkelraaaedakeatp 44 
                              +m+  +++  + +  + +++++k++ra+ + + +  p
  PHY93_17575|PHY93_17575 136 AMNFLFRENVNKEMDKYFSDDAKKMRALISYSDKLSP 172
                              5666666666666667788888999988888877777 PP

  == domain 2  score: -4.3 bits;  conditional E-value: 1
           Cytochrom_B562  70 kaealakagkleeakaal 87 
                              ++++ +++g+  +ak+++
  PHY93_17575|PHY93_17575 547 SISRGVNSGNSVQAKTEA 564
                              567779999999999875 PP

  == domain 3  score: 13.1 bits;  conditional E-value: 6.6e-06
           Cytochrom_B562   3 keeMkqmkkalkqvakaddaeelkkalkelraaaedakeatpsklek..dseeqkdYqeGldklidqldkaealakagkleeakaa 86 
                              +++M++++++ k+    ++  +l++ l+el++ +    ++ p+++++  d ++++d  + l + i+ l+k +++a ++kl++ ++ 
  PHY93_17575|PHY93_17575 603 MNNMNAIEDNRKNRDADANNRKLNSRLAELENKERTLAKKLPNSPDGvkDVKDESDQLQSLRQQIEDLKKSQSKASKDKLAASSED 688
                              578999999999999999****************************9*9************************************* PP

           Cytochrom_B562  87 lkelkdlrk 95 
                              +ke + lr 
  PHY93_17575|PHY93_17575 689 VKESERLRA 697
                              999999886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (888 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1528  (0.0852251); expected 358.6 (0.02)
Passed bias filter:                      461  (0.0257125); expected 358.6 (0.02)
Passed Vit filter:                        55  (0.00306766); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.80u 0.27s 00:00:01.07 Elapsed: 00:00:00.47
# Mc/sec: 5663.33
//
Query:       PHY93_17580|PHY93_17580  [L=538]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
   3.5e-148  494.3   0.1   4.4e-148  494.0   0.1    1.0  1  Carboxyl_trans  Carboxyl transferase domain
      0.002   17.7   0.1        1.8    8.0   0.0    2.2  2  MdcE            Malonate decarboxylase gamma subunit (MdcE)


Domain annotation for each model (and alignments):
>> Carboxyl_trans  Carboxyl transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  494.0   0.1  4.9e-152  4.4e-148       2     483 ..      48     529 ..      47     537 .. 0.95

  Alignments for each domain:
  == domain 1  score: 494.0 bits;  conditional E-value: 4.9e-152
                              SCTTCEEEEEEEEHTTSGGGE.BEHHHHHHHHHHHHHHHHHT..EEEEEEEESBETTEEHHHHTTEEEEESSTTSGGGCEEECHHH CS
           Carboxyl_trans   2 ehprGkltareridllldpgs.FgeledlffhrvtelgrkkklprdgvvtgsGaviGravevvaqdktvlggslgpakgekllkaq 86 
                              + +r k++ reri+++ld+gs F+el++l++++ +e      +p+ g+vtg+G+v+G ++ +va+d tv+gg++ p++++k+l+aq
  PHY93_17580|PHY93_17580  48 HQARSKFLPRERIEKILDAGSpFIELSTLAAYNLYEDD----IPSAGIVTGIGRVHGIECLFVANDATVKGGTYFPMTVKKHLRAQ 129
                              67899***************************999999....9******************************************* PP

                              HHHHHHTEEEEEEEEE-ESSS.GHHSSHHHHHHHHHHHHHHHHHHH.CS-EEEEESSEEETHHHHHHHHTSEEEEETTEEEEESST CS
           Carboxyl_trans  87 eeaikagepligindsgGaeg.riqegveslrgsGkifgenskasg.eIpqislvtgrcaGggaYlpalgdrvimveetskifltG 170
                              e+a+++++p+i+++dsgGa++ ++ e++++++++G+if++++++s  +I qi++v+g+c++ggaY+pa++d++i v+++++ifl G
  PHY93_17580|PHY93_17580 130 EIALENNLPCIYLVDSGGAFLpKQDEVFPDRDHFGRIFYNQAQMSArGISQIAVVLGSCTAGGAYVPAMSDETIIVKGNGTIFLGG 215
                              *******************666**************************************************************** PP

                              HHHHHHHHSSCC-SSCHHHHSHHHHTTTTSSSEEESSHHHHHHHHHHHHTTS-SSTTSGGSS----ECSSGSSSH.....HCS-CT CS
           Carboxyl_trans 171 pdvikkvlgreevtseelgGatqhmtksGvahltaeddeealelirkllsylPkkasnnresaPivetadepdrd...lieivPdn 253
                              p+++ +++g e vt+e+lgGa++h+++sGv++ +a+d+eea+ ++r+++  l+ k +  ++     +++ +p +d   l+ i+P++
  PHY93_17580|PHY93_17580 216 PPLVAAATG-EIVTAEDLGGADVHTRISGVSDHMAQDEEEAFIITRNIIENLNFKSPGAFQGLKATKETVAPLYDsseLYGIIPKD 300
                              *********.*******************************************999998864333333344444446778****** PP

                              TTS---HHHHHHCEECTTC-EEESTTSSTTEEEEEEEETTEEEEEEEE--SEEETTEE-HHHHHHHHHHHHHHHHTT--EEEEE-B CS
           Carboxyl_trans 254 akkpyDvreviarlvdegeFlEikegyAktvVvGfArlgGipvGvvAnetrveaGqvlfidsavKaarfirlcdaenlPlviladv 339
                              +++p+Dvre+iarlvd +eF+E+ke+y++t+V+GfAr++G+ +G+vAn+     G +lf++sa+K a+fi+lc ++++Pl++l+++
  PHY93_17580|PHY93_17580 301 TRRPFDVREIIARLVDGSEFHEFKERYGATLVTGFARIHGQQIGIVANN-----G-ILFSESAQKGAHFIELCGQRKIPLLFLQNI 380
                              *************************************************.....8.****************************** PP

                              SEE--SHHHHHTTHHHHHHHHHHHHHT--S-EEEEE-TEEEHHHHHTTTGGGSTTTTEEETTT-EEESS-HHHHHHHHSHHHHHHH CS
           Carboxyl_trans 340 rGflvGqrqeyggilkhGaklvdalaeakvPkitvilrkayGGayvvmdskingadlvaawptariaVlgpegaveilfrkekaaa 425
                              +Gf+vG++ e +gi+khGak+v+a+++ +vPk+tvi++ ++G+++++m++++ +++++ +wp+ari+V+g+e+a+++l + +++  
  PHY93_17580|PHY93_17580 381 TGFMVGRQYENEGIAKHGAKMVTAVSTVQVPKFTVIIGGSFGAGNYGMCGRAFSPRFLWMWPNARISVMGGEQAAKVLSTVKQQGL 466
                              ************************************************************************************99 PP

                              HHHH......HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSHHHHHHTTSSSEEEHGGGH CS
           Carboxyl_trans 426 emer......kdlaaerkkklkeyeeellnpyvaaargfaDavidpsetraklvialelewkka 483
                              ++++      +++a++ +  l++ye e   py+ +ar ++D vidp+ tr+ l  a +++ + a
  PHY93_17580|PHY93_17580 467 KAAGkplmsaAEVASFERPILDKYEIE-GSPYYSSARLWDDGVIDPAMTRDLLGLAIAASLNSA 529
                              99998888777777779999*******.99***********************99999988766 PP

>> MdcE  Malonate decarboxylase gamma subunit (MdcE)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.5   0.0   0.00028       2.5      60     121 ..     132     193 ..      99     208 .. 0.87
   2 !    8.0   0.0    0.0002       1.8      61     168 ..     368     474 ..     328     484 .. 0.81

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.00028
                              TSSS--EEEEEEEE--B--SHHHHHHTHHHHHHHHHHHHHHHHHHT--EEEEEEEEEEHHHH CS
                     MdcE  60 eraekrpilvlvDvasQrlgrrdEllGihealahlakalarArlaGhpvigllvGkavsGaf 121
                                +++ p + lvD+ +  l ++dE++   + +  +    a+  ++G   i+++ G   +G+ 
  PHY93_17580|PHY93_17580 132 ALENNLPCIYLVDSGGAFLPKQDEVFPDRDHFGRIFYNQAQMSARGISQIAVVLGSCTAGGA 193
                              55677899****************************9999999*************999874 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.0002
                              SSS--EEEEEEEE--B--SHHHHHHTHHHHHHHHHHHHHHHHHHT--EEEEEEEEEE.HH..HHHHTTTT-SEEEEEET-EEESS- CS
                     MdcE  61 raekrpilvlvDvasQrlgrrdEllGihealahlakalarArlaGhpvigllvGkav.sG..aflahglqanrlialpgvqvavmd 143
                              +++k p+l l    +  +gr+ E  Gi +  a ++ a    ++   p  ++++G +  +G  ++   ++  + l   p++ + vm+
  PHY93_17580|PHY93_17580 368 GQRKIPLLFLQNITGFMVGRQYENEGIAKHGAKMVTAVSTVQV---PKFTVIIGGSFgAGnyGMCGRAFSPRFLWMWPNARISVMG 450
                              78899***********************999999999888775...78888898887356334677889999************** PP

                              HHHHHHHHT--HHHHHHHGGCSGGG CS
                     MdcE 144 kasaArvTkrsveaLealaksipvf 168
                                 aA+v + +v +   +a+  p +
  PHY93_17580|PHY93_17580 451 GEQAAKV-LSTVKQQGLKAAGKPLM 474
                              ******9.56788877778777777 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (538 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       454  (0.0253221); expected 358.6 (0.02)
Passed bias filter:                      429  (0.0239277); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.61u 0.25s 00:00:00.86 Elapsed: 00:00:00.44
# Mc/sec: 3688.54
//
Query:       PHY93_17585|PHY93_17585  [L=256]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      8e-53  179.3   0.1    9.8e-53  179.0   0.1    1.0  1  ECH_1     Enoyl-CoA hydratase/isomerase
    7.9e-32  111.1   0.1    9.6e-32  110.8   0.1    1.1  1  ECH_2     Enoyl-CoA hydratase/isomerase


Domain annotation for each model (and alignments):
>> ECH_1  Enoyl-CoA hydratase/isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  179.0   0.1   1.1e-56   9.8e-53       3     246 ..       9     255 ..       8     256 .] 0.95

  Alignments for each domain:
  == domain 1  score: 179.0 bits;  conditional E-value: 1.1e-56
                              ETTEEEEEE--CGCTTEE-HHHHHHHHHHHHHHHHSTTECEEEEEEBTSEEEEEB-HHHHHHHHC...HHHHHHHCCHHHHHHHHH CS
                    ECH_1   3 eagvaviklnrPeavNalsaelltEliqalekleddksvravvLtGgdkaFaaGadlkemaeeek...akqallkeevlelwtkly 85 
                              + g+a i+lnrPe +Na+++e++ +li+ ++kl  ++ vr vvLtG +k F+aGadl+ m + +    a++ + ++++ el++ + 
  PHY93_17585|PHY93_17585   9 NRGIATITLNRPEFHNAFNDEMISDLIDCFNKLAANEDVRIVVLTGTGKSFCAGADLNWMKRMKDytyAENLKDSQNLAELFSVIN 94 
                              679******************************************************999886554446666678899999***** PP

                              HSSSEEEEEE-SEEETHHHHHHHHSSEEEEETTTEEE-GGGGGTS--CTTCHHHHHHHHHHHHHHHHHHHT-EEEHHHHHHCTSSS CS
                    ECH_1  86 tvpkpviaavnGaaigGGlelalacDiviaadnasfglnelklGlipgaggtqilarkvGkskAeeilllgkkisaqealkvGlvd 171
                              + +kp+ia vnG+a+gGG+ +  +cD+via d+a +g +e++lGl+p a+++++++ k+G+s+A+   + g +++ + a  +Gl+ 
  PHY93_17585|PHY93_17585  95 KFKKPTIARVNGQALGGGAGFLACCDYVIAVDTALIGFTEVRLGLLP-AVISPFVIAKIGESQARATFMSGVRFNTNRAMMMGLIH 179
                              ***********************************************.99************************************ PP

                              EEESGGGHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHH.HHHHHHHHHHHHHHHHHCTSHHHHHHHHHHHTCSH- CS
                    ECH_1 172 kvvpeeqlleealelaeklaekspaalrqlkealnakle.dalaeqleaeaklfestfskddikeGlqaflEkrkp 246
                              ++ + ++l e    +++  ++++p+a + +ke + + ++  + + ++    ++ +++   ++ +eG++a lEkrk+
  PHY93_17585|PHY93_17585 180 QISSFDKLDEDLEVIINDFLQAAPNASVLAKELIAEVVRkPTIEDARLYSCEMISKVRTGNEGQEGMNALLEKRKA 255
                              ***************************************888888999999***********************96 PP

>> ECH_2  Enoyl-CoA hydratase/isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  110.8   0.1   1.1e-35   9.6e-32       2     239 ..      13     250 ..      12     256 .] 0.83

  Alignments for each domain:
  == domain 1  score: 110.8 bits;  conditional E-value: 1.1e-35
                              EEEEE--GGGTT-B-HHHHHHHHHHHHHHCC-TT-SEEEEEESSSSECE--B--HHHHHHHHCS-THHHHHHHHHHHHHHHHHC-S CS
                    ECH_2   2 gvitLnrpkalNaLslemvralkealkewekddevklvvlkgagekafCAGgDvralyeaakegkkeeeeffreeYklnyliatyp 87 
                              ++itLnrp+  Na + em+++l +++++ +++++v++vvl+g+g k+fCAG D++ + + ++ + +e+ +  ++  +l + i++++
  PHY93_17585|PHY93_17585  13 ATITLNRPEFHNAFNDEMISDLIDCFNKLAANEDVRIVVLTGTG-KSFCAGADLNWMKRMKDYTYAENLKDSQNLAELFSVINKFK 97 
                              78****************************************88.*************9999987676667788889999****** PP

                              S-EEEEE-BEEETHHHHHHTTSSEEEE-TT-EEE--GGGGT----TTHHHHHHCSSTTHHHHHHHH---B-HHHHHHTTS--EE-- CS
                    ECH_2  88 kpvvalmdGivmGgGvGlsvhgsfrvvtertvfAmPEtaIGlfPDvGgsyfLsrlpgelGlylalTGarlkgadalaaglathyvp 173
                              kp++a ++G ++GgG+G+ + + + ++ +++++   E+++Gl P v   ++++++ ++ ++   ++G r++++ a+ +gl  ++ +
  PHY93_17585|PHY93_17585  98 KPTIARVNGQALGGGAGFLACCDYVIAVDTALIGFTEVRLGLLPAVISPFVIAKIGESQARATFMSGVRFNTNRAMMMGLIHQISS 183
                              *********************************************************999999******************99999 PP

                              GGGHHHHHHHHHTT............--------......----SHHHHHHHHHHHT.-S-TTTHHHHHH CS
                    ECH_2 174 seklealeeaLaelessd....eeaveevleelaeeaeeeeeeselaekreaidrlfsadsveeiveaLe 239
                               +kl++  e + +   ++    +   +e+++e+ ++++ e  +++l  + e i+++  +++ +e ++aL 
  PHY93_17585|PHY93_17585 184 FDKLDEDLEVIINDFLQAapnaSVLAKELIAEVVRKPTIE--DARLY-SCEMISKVRTGNEGQEGMNALL 250
                              8888654444443222222222445555566555555442..35665.7788888888777777777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (256 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       573  (0.0319594); expected 358.6 (0.02)
Passed bias filter:                      503  (0.0280551); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.42
# Mc/sec: 1847.74
//
Query:       PHY93_17590|PHY93_17590  [L=508]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.6e-72  243.5   0.0    2.2e-72  243.0   0.0    1.2  1  CPSase_L_D2      Carbamoyl-phosphate synthase L chain, ATP bi
    5.8e-41  139.5   0.0    1.8e-40  137.9   0.0    1.9  2  Biotin_carb_N    Biotin carboxylase, N-terminal domain
    1.3e-28   99.3   0.0    2.6e-28   98.2   0.0    1.6  1  Biotin_carb_C    Biotin carboxylase C-terminal domain
    2.2e-12   47.0   0.0    4.8e-12   45.9   0.0    1.5  1  Dala_Dala_lig_C  D-ala D-ala ligase C-terminus
    2.6e-10   40.1   0.2    5.8e-10   39.0   0.0    1.6  2  ATP-grasp        ATP-grasp domain
    2.5e-06   27.6   0.1    4.4e-06   26.8   0.1    1.5  1  ATP-grasp_3      ATP-grasp domain
    4.7e-05   23.1   0.1    0.00022   20.9   0.1    2.0  1  RimK             RimK-like ATP-grasp domain
  ------ inclusion threshold ------
      0.012   15.2   0.0      0.029   14.0   0.0    1.7  1  ATP-grasp_4      ATP-grasp domain
      0.019   14.3   0.3        1.5    8.0   0.0    2.2  2  ATPgrasp_ST      Sugar-transfer associated ATP-grasp
      0.041   13.7   0.6       0.11   12.3   0.0    2.0  2  GARS_A           Phosphoribosylglycinamide synthetase, ATP-gr
       0.09   12.5   0.0       0.17   11.6   0.0    1.5  1  ATPgrasp_Ter     ATP-grasp in the biosynthetic pathway with T


Domain annotation for each model (and alignments):
>> CPSase_L_D2  Carbamoyl-phosphate synthase L chain, ATP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  243.0   0.0   1.4e-75   2.2e-72       1     209 [.     126     333 ..     126     335 .. 0.99

  Alignments for each domain:
  == domain 1  score: 243.0 bits;  conditional E-value: 1.4e-75
                              SHHHHHHHHHHTT-BBSSEECSSBSSHHHHHHHHHHH-SSEEEEETTCCTTTTEEEESSHHHHHHHHHHHHHHHHHHHSTS-EEEE CS
              CPSase_L_D2   1 DkesakealkkinvpvvpssaapvetleealaiakeigyPviikaafglGGkGmrvarneeelaelvkkalaeakaafgnkqvlve 86 
                              Dk+s+k ++++++vp +p+ ++  +++ + ++ ak+ig+Pv+ika++g+GGkGmr+++ e+e++++++ a +ea+ +fg+++vl+e
  PHY93_17590|PHY93_17590 126 DKKSSKIKIQELGVPSIPGYHGDNQEISHLIKEAKRIGFPVLIKASAGGGGKGMRIVNMESEFKQALEGAKREAQNSFGDDTVLLE 211
                              999*********************************************************************************** PP

                              E--SSSEEEEEEEEEETTS-EEEEEEEEECCECTCCCCEEEES-SS--HHHHHHHHHHHHHHHHHHT-EEEEEEEEEEETTTTEEE CS
              CPSase_L_D2  87 kslkgpkeiEvevlrDakgnvitvcerenslqlrtqkvievAPsqtLtdeerqalreaavkvvrevgvvgagtveflldpkskeyy 172
                              k+++ p++iE++v++D++gn  +++ere+s+q+r qk++e+ Ps ++t+e r ++ +aavk+++ ++++gagt+e +ld  ++e+y
  PHY93_17590|PHY93_17590 212 KYITSPRHIEIQVMSDKHGNHFHLFERECSIQRRYQKIVEESPSLAVTPEMRAKMVAAAVKITSGINYIGAGTIELILDT-DGEFY 296
                              *******************************************************************************7.***** PP

                              EEEEESS--CCHHHHHHHHS--HHHHHHHHHTT--GC CS
              CPSase_L_D2 173 viEvNtRlsvesalaekaTGldlvkeaakialgekLe 209
                              ++E+NtRl+ve++++e++TGldlv  ++ +a+ge L+
  PHY93_17590|PHY93_17590 297 FLEMNTRLQVEHPVTEMVTGLDLVRLQILVAQGEILP 333
                              *********************************9886 PP

>> Biotin_carb_N  Biotin carboxylase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  137.9   0.0   1.1e-43   1.8e-40       1     110 []      12     121 ..      12     121 .. 0.98
   2 ?   -2.9   0.0       6.3     1e+04      13      39 ..     269     295 ..     265     306 .. 0.69

  Alignments for each domain:
  == domain 1  score: 137.9 bits;  conditional E-value: 1.1e-43
                              ---EEEE---HHHHHHHHHHHHHTT-EEEEEEEGGGTTSHHHHHSSEEEEEESSTTCCGGG-HHHHHHHHHHTT-SEEE--SSTTT CS
            Biotin_carb_N   1 kikkvlianrGeiAvriiravrelgietvavyseedanslhvreadeavelgpasasesYlniekivkaakesgadavhpGyGfls 86 
                              kikk+lianrGeiA+rii++++ +gi+tv++y+ee+++ +h ++ dea++lg+++ +e+Yln eki+++a+++gadavhpGyGfls
  PHY93_17590|PHY93_17590  12 KIKKILIANRGEIALRIIQTAKLMGIKTVTIYTEEEKALPHCTAGDEAYCLGSGALKETYLNQEKIIEIARSCGADAVHPGYGFLS 97 
                              589*********************************************************************************** PP

                              T-HHHHHHHHHTT-EESSS-HHHH CS
            Biotin_carb_N  87 EnaefaeaveeagivfiGPsaeal 110
                              E+++fa++v ++g++fiGPs+e++
  PHY93_17590|PHY93_17590  98 EKSSFAKLVGASGLIFIGPSPESI 121
                              ********************9986 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 6.3
                              HHHHHHHHHHHTT-EEEEEEEGGGTTS CS
            Biotin_carb_N  13 iAvriiravrelgietvavyseedans 39 
                              +Av+i+  ++ +g  t+ ++ ++d + 
  PHY93_17590|PHY93_17590 269 AAVKITSGINYIGAGTIELILDTDGEF 295
                              577777777777777777777666655 PP

>> Biotin_carb_C  Biotin carboxylase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   98.2   0.0   1.6e-31   2.6e-28       1     107 [.     347     453 ..     347     454 .. 0.98

  Alignments for each domain:
  == domain 1  score: 98.2 bits;  conditional E-value: 1.6e-31
                              EEEEESEETTTTTEE--CE-SEEE---STTEEEEE---TT-EE-TTS-SEEEEEEEEESSHHHHHHHHHHHHHT-EEESS-BSHHH CS
            Biotin_carb_C   1 eaRinaEdpeknflpssGkvtelelpegpgvRvdsgveegsevspyyDsllaKlivhgetreealarlrraLaelrieGvktnief 86 
                              e+R++aEdp+++flps G+++++ + + p++R+d g+  g+ev+  +D++laKli +getr+ a ++l  aL+e++  Gvktn ++
  PHY93_17590|PHY93_17590 347 EVRLYAEDPDNDFLPSIGTIKKIGTTSLPHTRLDCGYVDGNEVTISFDPMLAKLISWGETRNLAADKLILALNEVVFIGVKTNRDY 432
                              89************************************************************************************ PP

                              HHHHHH-HHHHHT---TTTCC CS
            Biotin_carb_C  87 lrailedeefakgeldtkfle 107
                              l++il+ +e+++g + t+f++
  PHY93_17590|PHY93_17590 433 LKRILSLSEYRHGFTFTNFVK 453
                              *************99999986 PP

>> Dala_Dala_lig_C  D-ala D-ala ligase C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.9   0.0   2.9e-15   4.8e-12      27     174 ..     154     302 ..     138     303 .. 0.86

  Alignments for each domain:
  == domain 1  score: 45.9 bits;  conditional E-value: 2.9e-15
                              HHHHHHHHC-SSEEEEESSSSTTTTEEEESSGGGHHHHHHHHHTT......-SCEEEEE--.ESEEEEEEEEETSSCEEEEEEEEE CS
          Dala_Dala_lig_C  27 llekveeelgypvfVKpareGSSvGvskveseeelkeaieeafky......dekvlvEeai.egreievavlgneklevsevgeiv 105
                               l k+ +++g+pv++K++  G   G+  v+ e+e+k+a+e a +       d +vl E++i + r ie+ v+ + + + +++ e+ 
  PHY93_17590|PHY93_17590 154 HLIKEAKRIGFPVLIKASAGGGGKGMRIVNMESEFKQALEGAKREaqnsfgDDTVLLEKYItSPRHIEIQVMSDKHGNHFHLFERE 239
                              44567789*******************************998774344455999*******999*********9998888888877 PP

                              -SSSSS-HHHHHC.TT-EEESS----HHHHHHHHHHHHHHHHHTT--SEEEEEEEEETTTEEEEEEEES CS
          Dala_Dala_lig_C 106 vkkgfydyeakysddkaqlevpaklekeveekiqelalkaykaldlrGlaRvDfflteegeivlnEvNt 174
                               +     ++ +y+ + ++     ++++e+++k+ ++a+k+ + ++  G + + ++l+++ge+++ E+Nt
  PHY93_17590|PHY93_17590 240 CS-----IQRRYQ-KIVEESPSLAVTPEMRAKMVAAAVKITSGINYIGAGTIELILDTDGEFYFLEMNT 302
                              65.....677774.4555556678999*****************************************9 PP

>> ATP-grasp  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0       2.6   4.3e+03     121     148 ..      20      47 ..      11      50 .. 0.75
   2 !   39.0   0.0   3.5e-13   5.8e-10      16     159 ..     151     303 ..     134     305 .. 0.82

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 2.6
                              HHHHHHHHHHHHHTSSEEEEEEEEEETT CS
                ATP-grasp 121 kaeeiakkiveeLggvGvfavElFvled 148
                              +  eia +i+++   +G+ +v ++  e+
  PHY93_17590|PHY93_17590  20 NRGEIALRIIQTAKLMGIKTVTIYTEEE 47 
                              5567889999999999999998887655 PP

  == domain 2  score: 39.0 bits;  conditional E-value: 3.5e-13
                              CHHHHHHHHHHH-SCEEEEESSS-CTTTTEEEECTCCGHHCHHHHC........GTTCEEEEE----SEEEEEEEEEETTC-.EEE CS
                ATP-grasp  16 skeeleeaaeelglpvvvKarrlgydGkGqsvvrseedleqaleal........keekvivEefvpfekElsvlvvrsaeGe.taf 92 
                              + ++l + a+++g+pv++K +  g  GkG  +v+ e++ +qale +        ++ +v++E+++   + + + v+ +++G+ ++ 
  PHY93_17590|PHY93_17590 151 EISHLIKEAKRIGFPVLIK-ASAGGGGKGMRIVNMESEFKQALEGAkreaqnsfGDDTVLLEKYITSPRHIEIQVMSDKHGNhFHL 235
                              345889999**********.777789******************9999999999999************99999999****75566 PP

                              --EEEEEEET.TEEEEEEECEE-SCHHHHHHHHHHHHHHHHHTSSEEEEEEEEEETTCTEEEEEEESS CS
                ATP-grasp  93 ypvvetvqed.gilrlsvapaevsekaqkkaeeiakkiveeLggvGvfavElFvledgellvnElapR 159
                              ++    +q++ + +++   + +v+ +  +k  + a ki++ ++++G  ++El + +dge ++ E+  R
  PHY93_17590|PHY93_17590 236 FERECSIQRRyQKIVEESPSLAVTPEMRAKMVAAAVKITSGINYIGAGTIELILDTDGEFYFLEMNTR 303
                              666666666423333333445688889999999999***********************999998877 PP

>> ATP-grasp_3  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.8   0.1   2.7e-09   4.4e-06      24     159 ..     156     305 ..     124     307 .. 0.80

  Alignments for each domain:
  == domain 1  score: 26.8 bits;  conditional E-value: 2.7e-09
                              -EESS--SSSEEEEESS-------B--SS--TTE...................EEEE---S.EEEEEEEEE.SSSEEEEEEEEEE. CS
              ATP-grasp_3  24 aeeleeeekklvvKprdGaggesvrvveekeeaeaaieeve............lvqefieG.kplSvsllsdgekvlvlavnrql. 95 
                               +e+++   ++ +K + G+gg+++r+v+ + e ++a+e  +            l+ ++i + +++ ++++sd++ +++  + r+  
  PHY93_17590|PHY93_17590 156 IKEAKRIGFPVLIKASAGGGGKGMRIVNMESEFKQALEGAKreaqnsfgddtvLLEKYITSpRHIEIQVMSDKHGNHFHLFERECs 241
                              35666668899*******************99999999888999*********99****875899*************99999872 PP

                              EET....TEEEEEEES----HHHHHHHHHHHHHTTSTT--EEEEEEEEESS..SEEEEEEESS-- CS
              ATP-grasp_3  96 iekaekefvyaGnvtpietelkeevvelaeevvekleglaGyvGvDlvlkd.eepyviEvNPRlt 159
                              i+++ +++v    +  +  e++ ++v++a ++++ + +  G   ++l+l   +e y++E N Rl+
  PHY93_17590|PHY93_17590 242 IQRRYQKIVEESPSLAVTPEMRAKMVAAAVKITSGI-NYIGAGTIELILDTdGEFYFLEMNTRLQ 305
                              555556677777777777788***************.***********96559**********97 PP

>> RimK  RimK-like ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.9   0.1   1.3e-07   0.00022      25     180 ..     147     319 ..     126     326 .. 0.77

  Alignments for each domain:
  == domain 1  score: 20.9 bits;  conditional E-value: 1.3e-07
                              SS-S-HHHHHHTT-..-SSEEEEE-TTTT--EEEEE-SHHHHHHHHHH....GGG--........EEEEE--SS-SEEEEEEEETT CS
                     RimK  25 rdeedaekliekik.lrfPvvvKsvegsqGikvvlakkeqklkqvlea....lkeai........lvqeyieeaenediRvlvvdd 97 
                               d++++++li++ k ++fPv++K + g  G ++ + + e + kq le+                 l+ +yi     + i + v+ d
  PHY93_17590|PHY93_17590 147 GDNQEISHLIKEAKrIGFPVLIKASAGGGGKGMRIVNMESEFKQALEGakreA---QnsfgddtvLLEKYITSP--RHIEIQVMSD 227
                              567889999999999*********************************66552...134466666******875..6677788999 PP

                              EEEEEEEEE--SSS----TTTT-E.EEE----HHHHH....HHHHHHHHCT-SEEE.EE.EEEETTEEEEEEEESS--SHH..HHH CS
                     RimK  98 evvaalrrvskeGdFRsnlhrGgv.aeklqlseeeke....lAikaakamelvvaG.vD.llrakrgllvlEvnsspglek..iek 174
                              +    ++   +e       ++    +  l +++e +      A+k++  ++ + aG ++ +l+++ ++++lE+n+  ++e+   e+
  PHY93_17590|PHY93_17590 228 KHGNHFHLFERECSIQRRYQKIVEeSPSLAVTPEMRAkmvaAAVKITSGINYIGAGtIElILDTDGEFYFLEMNTRLQVEHpvTEM 313
                              9999****999999877777654404457788887632211467777777777777567999*************99998632566 PP

                              HHT--H CS
                     RimK 175 tlgidi 180
                               +g+d+
  PHY93_17590|PHY93_17590 314 VTGLDL 319
                              666665 PP

>> ATP-grasp_4  ATP-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   1.8e-05     0.029       1     150 [.     162     302 ..     162     311 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.8e-05
              ATP-grasp_4   1 islPvviKPsvgffSlGVykinneeewkaavaaieeeleqakeeykeevveeesflvEeyieG.eEfavdayfdeeGepvilnilk 85 
                              i +Pv iK s g +  G++++n e+e+k+a++  ++e   a++ +      ++++l+E+yi     + + +  d++G++   ++++
  PHY93_17590|PHY93_17590 162 IGFPVLIKASAGGGGKGMRIVNMESEFKQALEGAKRE---AQNSF-----GDDTVLLEKYITSpRHIEIQVMSDKHGNHF--HLFE 237
                              579****************************999977...34444.....4567799*9998625688999999999874..5667 PP

              ATP-grasp_4  86 kefaseedvsdrlyvtsakvieetlealeellkevnallglkn.fpvHiElrvsedgkiipiEvnp 150
                              +e + ++  + ++   s+++  + + + + + ++v+   g+++ ++  iEl ++ dg+ + +E+n 
  PHY93_17590|PHY93_17590 238 RECSIQRRYQ-KIVEESPSLAVTPEMRAKMVAAAVKITSGINYiGAGTIELILDTDGEFYFLEMNT 302
                              7777776664.4444455555555555555555555556666525667899999999999999987 PP

>> ATPgrasp_ST  Sugar-transfer associated ATP-grasp
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   0.0   0.00092       1.5      32      86 ..     135     189 ..     117     221 .. 0.63
   2 ?    4.1   0.0     0.015        24     227     269 ..     265     307 ..     259     322 .. 0.79

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.00092
              ATPgrasp_ST  32 aglkvpkllgvikeqaeiseleafvkeleeg..vviKpakgsgGkGilviteredqd 86 
                              + l vp++ g    ++eis+l +  k++  g  v+iK+  g gGkG+++++ +++ +
  PHY93_17590|PHY93_17590 135 QELGVPSIPGYHGDNQEISHLIKEAKRI--GfpVLIKASAGGGGKGMRIVNMESEFK 189
                              4455666555666667777777777777..355****************97633322 PP

  == domain 2  score: 4.1 bits;  conditional E-value: 0.015
              ATPgrasp_ST 227 evlelaakaaeklpglgylGwDivldeekgplllElNarpgla 269
                              ++++ a+k+   + ++g+  + + ld++++ + lE+N+r  ++
  PHY93_17590|PHY93_17590 265 KMVAAAVKITSGINYIGAGTIELILDTDGEFYFLEMNTRLQVE 307
                              5667777777777777777899****************96665 PP

>> GARS_A  Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.1       1.5   2.5e+03      41      65 ..      27      51 ..       5      55 .. 0.72
   2 ?   12.3   0.0   6.6e-05      0.11       3     101 ..     127     227 ..     125     253 .. 0.69

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 1.5
                             EEEEESC-GGGT-EEEESSHHHHHH CS
                   GARS_A 41 lVvKadglaagKgvivakseeealk 65
                              +++ + l + K v++ ++ee+al 
  PHY93_17590|PHY93_17590 27 RIIQTAKLMGIKTVTIYTEEEKALP 51
                             5788899999999999999999875 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 6.6e-05
                              HHHHHHHHHHTT--B-.-EEE.ESSHHHHHHHHHHHSSSEEEEEESC-GGGT-EEEESSHHHHHHHHHHHCTS-TTCCCCSSEEEE CS
                   GARS_A   3 Ksfakdllkkagipta.eyea.ftdpeeakeyieeatakalVvKadglaagKgvivakseeealkavkeilekkkfGeagekvviE 86 
                              K+ +k  +++ g+p+   y+   ++ +++ +  ++ ++++  +Ka+   +gKg+ +++ e+e  +a++   ++ +     ++v++E
  PHY93_17590|PHY93_17590 127 KKSSKIKIQELGVPSIpGYHGdNQEISHLIKEAKRIGFPV-LIKASAGGGGKGMRIVNMESEFKQALEGAKREAQNSFGDDTVLLE 211
                              5666666677777765244430234555555556666777.9***************999999999999887666555599***** PP

                              E---S.EEEEEEEEEC CS
                   GARS_A  87 elleG.eEvsllalvd 101
                              ++++    + +++++d
  PHY93_17590|PHY93_17590 212 KYITSpRHIEIQVMSD 227
                              *997523344444444 PP

>> ATPgrasp_Ter  ATP-grasp in the biosynthetic pathway with Ter operon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00011      0.17      44     126 ..     261     349 ..     221     353 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00011
             ATPgrasp_Ter  44 ekdeelielaerlaeefgldglvnvQvrededg.pkLLEiNpRasGGlgys.alaGvnlpylalklllgl....eteeveepeegl 123
                              e +++++ +a +++  ++  g   + +  d dg  + LE+N+R +    ++ +++G++l++l +  + g+    ++e+ +++ + +
  PHY93_17590|PHY93_17590 261 EMRAKMVAAAVKITSGINYIGAGTIELILDTDGeFYFLEMNTRLQVEHPVTeMVTGLDLVRLQILVAQGEilpfKQEDLKQTGHAI 346
                              5677888999999999999999999999999999************998873567**************77766666666666666 PP

             ATPgrasp_Ter 124 rvr 126
                              +vr
  PHY93_17590|PHY93_17590 347 EVR 349
                              655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (508 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       569  (0.0317363); expected 358.6 (0.02)
Passed bias filter:                      520  (0.0290033); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.61u 0.27s 00:00:00.88 Elapsed: 00:00:00.44
# Mc/sec: 3465.30
//
Query:       PHY93_17595|PHY93_17595  [L=154]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.8e-18   65.5   3.5    4.3e-18   64.9   3.5    1.3  1  Biotin_lipoyl    Biotin-requiring enzyme
    9.9e-08   31.7   0.0     0.0068   16.2   0.0    2.5  2  Biotin_lipoyl_2  Biotin-lipoyl like
     0.0019   18.1   0.3     0.0036   17.2   0.3    1.6  1  RnfC_N           RnfC Barrel sandwich hybrid domain
     0.0063   15.9   0.0     0.0082   15.5   0.0    1.1  1  APO_RNA-bind     APO RNA-binding
  ------ inclusion threshold ------
       0.05   12.8   0.2        3.9    6.6   0.1    2.1  2  HlyD_D23         Barrel-sandwich domain of CusB or HlyD membr
      0.066   13.4   0.0      0.078   13.2   0.0    1.1  1  Laminin_G_1      Laminin G domain
       0.12   13.1   0.0         16    6.3   0.0    2.3  2  HlyD_3           HlyD family secretion protein


Domain annotation for each model (and alignments):
>> Biotin_lipoyl  Biotin-requiring enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.9   3.5   1.7e-21   4.3e-18       2      71 ..      89     153 ..      88     154 .] 0.96

  Alignments for each domain:
  == domain 1  score: 64.9 bits;  conditional E-value: 1.7e-21
                              EEEESSSEEEEEE.ECSESSSTTCEE-TTSEEEEEECTTEEEEEEBSSSEEEEEESSTTTEEE-TTCEEE CS
            Biotin_lipoyl   2 eiksPmiGesveegvvevlvkvGdkVkagqvlaeveamKmemeieapkaGvvkeilvkeGdtvevgdlla 71 
                              ++ksPm+G++ +     +lvk Gd+V ag +++++eamKme++i+a kaG++++i+ keGd+v  g  l+
  PHY93_17595|PHY93_17595  89 QMKSPMPGKILK-----ILVKIGDEVIAGTPILVMEAMKMEHTIKASKAGTIEKIHFKEGDQVAGGVELV 153
                              89**********.....**********************************************9997765 PP

>> Biotin_lipoyl_2  Biotin-lipoyl like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0   2.6e-06    0.0068       5      35 ..      90     120 ..      88     128 .. 0.87
   2 !   13.3   0.0   2.1e-05     0.055       4      25 ..     126     147 ..     124     149 .. 0.91

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 2.6e-06
          Biotin_lipoyl_2   5 IaapvsGrVaqlnVkdGqrVkaGdvLaelDs 35 
                              +++p +G++ +++Vk G++V aG  +++ + 
  PHY93_17595|PHY93_17595  90 MKSPMPGKILKILVKIGDEVIAGTPILVMEA 120
                              6899*********************998876 PP

  == domain 2  score: 13.3 bits;  conditional E-value: 2.1e-05
          Biotin_lipoyl_2   4 sIaapvsGrVaqlnVkdGqrVk 25 
                              +I+a+ +G++++++ k+G++V 
  PHY93_17595|PHY93_17595 126 TIKASKAGTIEKIHFKEGDQVA 147
                              799******************6 PP

>> RnfC_N  RnfC Barrel sandwich hybrid domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.3   1.4e-06    0.0036      39      81 ..      96     139 ..      80     153 .. 0.88

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 1.4e-06
                   RnfC_N  39 GapakplvkvgdkVlkGqkiaeaeg.fvsapvhasvsGtVkaie 81 
                              G+  k+lvk gd+V  G  i   e+  +   + as +Gt+ +i+
  PHY93_17595|PHY93_17595  96 GKILKILVKIGDEVIAGTPILVMEAmKMEHTIKASKAGTIEKIH 139
                              677899*************99988866799***********997 PP

>> APO_RNA-bind  APO RNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   3.2e-06    0.0082      39     106 ..      74     141 ..      63     148 .. 0.90

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 3.2e-06
             APO_RNA-bind  39 aaredkklakkkiekklepPknGllvkelvpvayevldarkllikglkkllkvvpvkackecsevhvg 106
                              a r+ +k++k+  + ++++P  G ++k lv +  ev+    +l+ +  k+ ++++  +  + +++h  
  PHY93_17595|PHY93_17595  74 APRRSRKKTKSVDHGQMKSPMPGKILKILVKIGDEVIAGTPILVMEAMKMEHTIKASKAGTIEKIHFK 141
                              567888889999999***************************************************74 PP

>> HlyD_D23  Barrel-sandwich domain of CusB or HlyD membrane-fusion
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.0    0.0058        15     110     138 ..      89     117 ..      68     123 .. 0.58
   2 ?    6.6   0.1    0.0015       3.9     108     136 ..     124     152 ..     117     154 .] 0.58

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.0058
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                 HlyD_D23 110 tvkapisGvVteknvreGqyvqpgdtlft 138
                              ++k+p+ G +++  v  G+ v +g++++ 
  PHY93_17595|PHY93_17595  89 QMKSPMPGKILKILVKIGDEVIAGTPILV 117
                              45666666666666666666666655544 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.0015
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                 HlyD_D23 108 tvtvkapisGvVteknvreGqyvqpgdtl 136
                              + t+ka+ +G++ + +  eG+ v  g +l
  PHY93_17595|PHY93_17595 124 EHTIKASKAGTIEKIHFKEGDQVAGGVEL 152
                              44566666666666666666666555544 PP

>> Laminin_G_1  Laminin G domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   3.1e-05     0.078      25     127 ..      39     142 ..      23     146 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 3.1e-05
                              EEETTEEEEEEESSS-EEEEEEEEETTSSS-EEEEEEEETTEEEEEETTSC-EEEES-TT-SS.SEEECSE.EEESSSS..GSTCC CS
              Laminin_G_1  25 eLvdGrlevsldlgsgaavvvsgqklndGkwhkvevernkrsgtlsvdgeervtgesplgatt.tlnvnkk.lyvGGlp..dekvk 106
                              +L+dG++ + ++  ++++++  +  + dG++  + + r  r+ t svd  ++   +sp   ++ ++ v+     ++G p   +++ 
  PHY93_17595|PHY93_17595  39 ALHDGKMVLNMKGKNRPVILADTHYVVDGQEFVIDAPRRSRKKTKSVDHGQM---KSPMPGKIlKILVKIGdEVIAGTPilVMEAM 121
                              79**********************************************9999...6666666653444333267888886644444 PP

                              CSCCCCCSB-EEEEEEEEETT CS
              Laminin_G_1 107 kealaistsfkGcirdvsvnn 127
                              k + +i+ s  G i ++++++
  PHY93_17595|PHY93_17595 122 KMEHTIKASKAGTIEKIHFKE 142
                              555566667777777777765 PP

>> HlyD_3  HlyD family secretion protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.3   0.0    0.0062        16       3      30 ..      91     118 ..      89     124 .. 0.90
   2 ?    4.7   0.0      0.02        50       1      27 [.     126     152 ..     126     154 .] 0.90

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.0062
                   HlyD_3   3 rApvdGvvvelnveegevvqagdellei 30 
                              ++p  G++ ++ v+ g+ v ag+++l  
  PHY93_17595|PHY93_17595  91 KSPMPGKILKILVKIGDEVIAGTPILVM 118
                              89**********************9865 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.02
                   HlyD_3   1 tlrApvdGvvvelnveegevvqagdel 27 
                              t++A+ +G++ +++ +eg+ v+ g el
  PHY93_17595|PHY93_17595 126 TIKASKAGTIEKIHFKEGDQVAGGVEL 152
                              79******************9988776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (154 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       443  (0.0247086); expected 358.6 (0.02)
Passed bias filter:                      359  (0.0200234); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.44u 0.24s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1134.03
//
Query:       PHY93_17600|PHY93_17600  [L=160]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    9.5e-15   54.9   0.0    1.2e-14   54.6   0.0    1.0  1  HMGL-like  HMGL-like


Domain annotation for each model (and alignments):
>> HMGL-like  HMGL-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.6   0.0   6.5e-19   1.2e-14       1     127 [.      20     149 ..      20     157 .. 0.91

  Alignments for each domain:
  == domain 1  score: 54.6 bits;  conditional E-value: 6.5e-19
                              B-EEEE-TTTHHHHTSSS---HHHHHHHHHHHHHHT-SEE--.......TSGGGT.THHHHHHHS---TT-B...--EE-SSHHHH CS
                HMGL-like   1 kvkivdttLRDGeqalkaalsveeklaiakaLdeagvdeiEv.......gfpaaseddfevvraiakavkkar.ilalvrarekdi 78 
                              kv+iv++ +RDG q++k ++s+e+k + +k+L++ag++eiE+        +p++s d  e    ++k++  a   l  + +++  +
  PHY93_17600|PHY93_17600  20 KVRIVEVGPRDGLQNEKMIVSLEDKFNFIKNLNAAGLHEIEAtsfvrasKIPQMS-DGAELYLRLKKEPSLAGtRLISLVPNMIGL 104
                              699****************************************************.7888888888888777555666678999** PP

                              HHHHH....TT-SEEEEEEES-HHHHHHHHSSTHHHHHHHHHHHHHHHH CS
                HMGL-like  79 kaavealkgagakrvhvfiatselhlkaklkkdreevakkaeeavkaar 127
                              +aa +     g++ + +f+++s+ + k++++ +++e++ ++ee++  a+
  PHY93_17600|PHY93_17600 105 EAALK----VGVQDIAIFTSISNTFNKKNINATIDESLVRIEEVMGVAS 149
                              *****....********************************99987765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (160 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       508  (0.028334); expected 358.6 (0.02)
Passed bias filter:                      382  (0.0213063); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.41
# Mc/sec: 1170.38
//
Query:       PHY93_05395|PHY93_05395  [L=210]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.3e-17   62.6  13.3    3.9e-17   62.4  13.3    1.1  1  LysE      LysE type translocator


Domain annotation for each model (and alignments):
>> LysE  LysE type translocator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.4  13.3   2.2e-21   3.9e-17       4     191 ..      16     204 ..      13     206 .. 0.92

  Alignments for each domain:
  == domain 1  score: 62.4 bits;  conditional E-value: 2.2e-21
                     LysE   4 llspGpqnllvlkqgikrgfkggilvalgvligdavlillgllGlalLlkaapivlsilrllGgayLlwlgvlalrdakekkveae 89 
                               +++Gp n+ v+++ ik+ fk ++++a+g  ++d ++++++l Gl+l+   +p    il+++G+++Ll +g++ l  +k++  + +
  PHY93_05395|PHY93_05395  16 CIPVGPINVWVVNTLIKHDFKSAFAIAVGGSLMDFIYFMVILSGLSLFHF-SPRTILILKIVGVVFLLVFGLNELLVKKQNFALDK 100
                              6799******************************************9988.**********************9988888776665 PP

                     LysE  90 ksve..aslvkpflkglllslsNPkailfwlsvisallaka.eqygdagrlilaaglvvasliwfsllaflaarlsrrlsskkvlr 172
                              +  +  ++   +fl g+++  sNP  +  + ++ + + + +    + +++++l +gl ++s  wf+ll  ++  +++++ ++    
  PHY93_05395|PHY93_05395 101 DLEKkePTAFGFFLLGVAIYSSNPTLVATMSGLAAIIKSWNlFLNDFMSYFALSLGLALGSASWFYLLLRIVMKYQNKIPERFFI- 185
                              44444499********************9999999999999999999**********************************9877. PP

                     LysE 173 iinvvvgvlligfavklll 191
                                +  +g+l+++f+++++ 
  PHY93_05395|PHY93_05395 186 NFSRACGALIVLFGLYMAF 204
                              8999***********9875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (210 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       933  (0.0520386); expected 358.6 (0.02)
Passed bias filter:                      378  (0.0210832); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1545.69
//
Query:       PHY93_21520|PHY93_21520  [L=60]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (60 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       372  (0.0207485); expected 358.6 (0.02)
Passed bias filter:                      184  (0.0102627); expected 358.6 (0.02)
Passed Vit filter:                         5  (0.000278878); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.20s 00:00:00.62 Elapsed: 00:00:00.41
# Mc/sec: 443.49
//
Query:       PHY93_21525|PHY93_21525  [L=79]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.5e-06   28.6   0.1    2.1e-06   28.1   0.1    1.3  1  BrnA_antitoxin  BrnA antitoxin of type II toxin-antitoxin sys
    0.00091   19.7   0.0     0.0013   19.2   0.0    1.3  1  CopG_antitoxin  CopG antitoxin of type II toxin-antitoxin sys


Domain annotation for each model (and alignments):
>> BrnA_antitoxin  BrnA antitoxin of type II toxin-antitoxin system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.1   0.1   2.4e-10   2.1e-06      31      69 ..      16      58 ..       3      59 .. 0.76

  Alignments for each domain:
  == domain 1  score: 28.1 bits;  conditional E-value: 2.4e-10
           BrnA_antitoxin 31 plestKkkvtlRLDadVleaF....katGkgwQtriNeaLrky 69
                              l++ K   tlRLD+d++ ++    k++G g+Qt +N  Lrk 
  PHY93_21525|PHY93_21525 16 VLKDIKITKTLRLDPDIVGWLeregKKQGMGYQTYLNWFLRKS 58
                             336678888************4444446666**********96 PP

>> CopG_antitoxin  CopG antitoxin of type II toxin-antitoxin system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.2   0.0   1.4e-07    0.0013      23      78 ..       4      57 ..       2      58 .. 0.84

  Alignments for each domain:
  == domain 1  score: 19.2 bits;  conditional E-value: 1.4e-07
           CopG_antitoxin 23 eyldlskakkvrfpeLkkktksislrlpedlLealkekAnkrdvpyqslikellee 78
                             ey d+sk  k+r   Lk  + + +lrl+ d++  l  + +k+++ yq +++ +l++
  PHY93_21525|PHY93_21525  4 EY-DFSKGIKARK-VLKDIKITKTLRLDPDIVGWLEREGKKQGMGYQTYLNWFLRK 57
                             66.7776666655.58888888899*****************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (79 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       567  (0.0316247); expected 358.6 (0.02)
Passed bias filter:                      399  (0.0222544); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.40u 0.23s 00:00:00.63 Elapsed: 00:00:00.40
# Mc/sec: 589.64
//
Query:       PHY93_21530|PHY93_21530  [L=137]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-06   28.2   2.6    1.8e-06   28.0   2.6    1.2  1  DoxX_2    DoxX-like family
     0.0023   18.5   6.0     0.0023   18.5   6.0    1.5  2  DoxX      DoxX


Domain annotation for each model (and alignments):
>> DoxX_2  DoxX-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.0   2.6     2e-10   1.8e-06       6      75 ..      24      92 ..      19     129 .. 0.81

  Alignments for each domain:
  == domain 1  score: 28.0 bits;  conditional E-value: 2e-10
                   DoxX_2  6 lalffllsGvakllraeevvakfaql.gfpssfvrllGvvellgalgLllplvtaprltplAavglallmv 75
                             +++ff+++Gv +++ +e  + +++ +  +p ++++l G ++++g++gL++p  ++++ + ++ + l+l ++
  PHY93_21530|PHY93_21530 24 TVIFFVVAGVRHFMIPEFYMLMMPNYlPIPLTLIYLSGFFQIVGGIGLMIP--RTRVFSAWGLMALLLAVL 92
                             689**********************967***********************..345555555555555544 PP

>> DoxX  DoxX
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.5   6.0   2.6e-07    0.0023      10      80 ..      25      92 ..      19     102 .. 0.84
   2 ?   -3.6   0.2         2   1.8e+04       3      14 ..     115     126 ..     115     130 .. 0.63

  Alignments for each domain:
  == domain 1  score: 18.5 bits;  conditional E-value: 2.6e-07
                     DoxX 10 gvlfiahGlqkltgfglegtaaslaalglpppellaylaalvElvgglllllGlltRlaAlalavtllvat 80
                              ++f+++G+  ++   ++++   + +  lp p  l yl +++++vgg++l++ +   ++A +l+++ll++ 
  PHY93_21530|PHY93_21530 25 VIFFVVAGVRHFM---IPEFYMLMMPNYLPIPLTLIYLSGFFQIVGGIGLMIPRTRVFSAWGLMALLLAVL 92
                             5789999999999...566666677777889***********************99999999999998765 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 2
                     DoxX   3 lllRlllgvlfi 14 
                              l+lR+ l  l+i
  PHY93_21530|PHY93_21530 115 LMLRIPLQFLLI 126
                              566776666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (137 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       551  (0.0307323); expected 358.6 (0.02)
Passed bias filter:                      270  (0.0150594); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 1021.30
//
Query:       PHY93_21535|PHY93_21535  [L=268]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.1e-07   32.7   0.0    1.3e-07   32.5   0.0    1.2  1  Abhydrolase_6  Alpha/beta hydrolase family
    0.00022   21.1   0.1    0.00039   20.3   0.1    1.4  1  Lipase_3       Lipase (class 3)
     0.0066   16.3   0.1        4.5    7.0   0.0    2.5  3  Abhydrolase_2  Phospholipase/Carboxylesterase
     0.0089   15.3   0.2       0.37   10.0   0.1    2.6  2  Hydrolase_4    Serine aminopeptidase, S33
  ------ inclusion threshold ------
       0.28   10.8   1.3        3.4    7.2   1.1    2.5  2  Abhydrolase_1  alpha/beta hydrolase fold


Domain annotation for each model (and alignments):
>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.5   0.0   3.5e-11   1.3e-07       2      95 ..      38     160 ..      37     257 .. 0.64

  Alignments for each domain:
  == domain 1  score: 32.5 bits;  conditional E-value: 3.5e-11
                              EEE--GC.....GCHHHHHHHHCCTCEEEEE--TTS..T...........S-GGCS--HHHCHHH.HHHHCCTT.........TTS CS
            Abhydrolase_6   2 lllHGagssassWlvapLaallaagvhvlapDlpGh..G...........rsdpppldledladl.aalldelaa.......gggp 66 
                              +l HG  +++ss l  p+ +l+ agv ++ +DlpGh  G            ++ + l +++ + l  a+l+e++        +  +
  PHY93_21535|PHY93_21535  38 ILTHGYTADKSSILNWPI-RLAEAGVSCILFDLPGHylGnysevedfeyfKNHAHELFYSAFLSLkNAFLEEFPLhehlvesDQLK 122
                              688997766666663455.666666777*********9865444444443334444444444444444555554477777555566 PP

                              EEEEEETCHHHHHHHHHHCC...........EEEEES- CS
            Abhydrolase_6  67 vvlvGHSlGGalalaaapla.........lvvgvlldp 95 
                               vl GHSlG++l+l a++l+         + vg+ ++p
  PHY93_21535|PHY93_21535 123 LVLGGHSLGAMLSLKALMLPefkefqklsIAVGLGMAP 160
                              6**************88888888876655444455555 PP

>> Lipase_3  Lipase (class 3)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.3   0.1   1.1e-07   0.00039      32      90 ..      87     145 ..      71     161 .. 0.78

  Alignments for each domain:
  == domain 1  score: 20.3 bits;  conditional E-value: 1.1e-07
                              T-EEEHHHHHHHHS-HHHHHHHH..HHHHHHHTT-EEEEEEEETHHHHHHHHHHHHHHHTT CS
                 Lipase_3  32 ggkvhsgfleayeeslreqvlke..lkrllekypeysivvtGHSLGgalAlLaaldlveng 90 
                              + + h+ f++a+  sl++++l+e  l++ l +  ++++v+ GHSLG+ l +L al+l e +
  PHY93_21535|PHY93_21535  87 KNHAHELFYSAFL-SLKNAFLEEfpLHEHLVESDQLKLVLGGHSLGAML-SLKALMLPEFK 145
                              5689*********.*******99556777777778**********9877.56666666655 PP

>> Abhydrolase_2  Phospholipase/Carboxylesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.9   0.0       2.8     1e+04      17      26 ..      37      46 ..      31      52 .. 0.61
   2 !    7.0   0.0    0.0013       4.5     106     124 ..     122     140 ..      81     159 .. 0.82
   3 !    6.9   0.0    0.0013       4.8     148     216 ..     200     267 ..     191     268 .] 0.88

  Alignments for each domain:
  == domain 1  score: -3.9 bits;  conditional E-value: 2.8
                             EEEE--TT-- CS
            Abhydrolase_2 17 viflHGlGds 26
                              i+ HG+ ++
  PHY93_21535|PHY93_21535 37 AILTHGYTAD 46
                             4666776555 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.0013
                              GEEEEEETHHHHHHHHHHH CS
            Abhydrolase_2 106 riiigGFSqGaalalylal 124
                              + ++gG S Ga+l+l++ +
  PHY93_21535|PHY93_21535 122 KLVLGGHSLGAMLSLKALM 140
                              579************8754 PP

  == domain 3  score: 6.9 bits;  conditional E-value: 0.0013
                              TTS-GGGGG-EEEEEEETT-SSS-HHHHHHHHHHHHTTS-GEEEEEETT--SS--HHHHHHHHHHHHHH CS
            Abhydrolase_2 148 ssatavtkklpilqiHgeeDpvvplalgkaakevlkkllkkvelksyeglaHsideeemqdikeflkkl 216
                              ++a+ +  ++ +++i g +D vv    +++++  l++  + v+ ++ ++l H +++   + +k++lkk 
  PHY93_21535|PHY93_21535 200 KQAIDIH-DVTVHLITGVDDLVVGADGMERFADSLIAKKNAVTSEKPTKLPHHEPQLAAAHVKKYLKKI 267
                              3445555.999*****************************999999999****************9986 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.0   0.1    0.0001      0.37       9      95 ..      39     141 ..      32     191 .. 0.63
   2 ?    1.9   0.0     0.032   1.1e+02     182     220 ..     195     236 ..     190     244 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.0001
              Hydrolase_4   9 lvHGlaehsgryaelaeaLaaqGfavyalDhrGhGrsegkrghvpsfddyvdDlaafv.................ekvkeehpelp 77 
                              l HG++   +   +   +La++G++++ +D  Gh     +  +v++f+ + + +++++                 +++  e+ +l+
  PHY93_21535|PHY93_21535  39 LTHGYTADKSSILNWPIRLAEAGVSCILFDLPGHYLG--NYSEVEDFEYFKNHAHELFysaflslknafleefplHEHLVESDQLK 122
                              5667666666666666778888888888888887443..44444444444444444433333344333334444433333566679 PP

              Hydrolase_4  78 lfllGhSmGGliallyl.l 95 
                              l+l GhS+G++++l++l l
  PHY93_21535|PHY93_21535 123 LVLGGHSLGAMLSLKALmL 141
                              **************99842 PP

  == domain 2  score: 1.9 bits;  conditional E-value: 0.032
              Hydrolase_4 182 rleeraakit...lPllllhGeaDkvvdpeasrelyerlgsk 220
                              +++e++++i+   + + l+ G +D vv  ++ ++++++l +k
  PHY93_21535|PHY93_21535 195 WIKEEKQAIDihdVTVHLITGVDDLVVGADGMERFADSLIAK 236
                              5666777777667889********************998765 PP

>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2   1.1   0.00094       3.4       5      91 ..      39     139 ..      38     147 .. 0.67
   2 ?   -1.9   0.0      0.59   2.1e+03     188     235 ..     162     231 ..     151     243 .. 0.63

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.00094
                              EE-STTTCGGGGTTGHHHHHHHHTTSEEEEEEETTSTTSSSTTTGB.CHH.............SHHHHHHHHH.HH.....HHHCT CS
            Abhydrolase_1   5 ilhGlpgssdvwaerglapaLakdgfdvillDlrGvgySspapacinddy.............gtasvaddld.ri.....ldalg 71 
                              + hG+++   +  +  ++  La++g  +il+Dl+G+  +  +     +d+              + s+ + +   +     l   +
  PHY93_21535|PHY93_21535  39 LTHGYTADKSSILN--WPIRLAEAGVSCILFDLPGHYLGNYSEV---EDFeyfknhahelfysAFLSLKNAFLeEFplhehLVESD 119
                              66888885555555..6668888899999999999988877776...555667777777777744444333333334422355567 PP

                              TSSEEEEEETHHHHHHHHHH CS
            Abhydrolase_1  72 ddkltlvGhSmGGmialaya 91 
                              + kl+l GhS+G m++l ++
  PHY93_21535|PHY93_21535 120 QLKLVLGGHSLGAMLSLKAL 139
                              77889999999999999876 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 0.59
                              HHHHHHHCCHHHHHHHHHC...............THHHHS.......EEEEEEETTCSSSCHHHHHHHHH CS
            Abhydrolase_1 188 sieqwpttdsaklllrlre...............lknvla.......ptlvisgtsDplvppkaledlaq 235
                              ++ ++ +t++ k+ l++re               +k+ ++       ++ +i g +D +v  + +e++a+
  PHY93_21535|PHY93_21535 162 DVVHIFDTPFYKSTLKIREqlvspvlkpdnvfpwIKEEKQaidihdvTVHLITGVDDLVVGADGMERFAD 231
                              5666777777777777777666666666666666333333344444456667777777777766666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (268 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       443  (0.0247086); expected 358.6 (0.02)
Passed bias filter:                      408  (0.0227564); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 1961.85
//
Query:       PHY93_21540|PHY93_21540  [L=177]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.3e-19   69.5   0.0    3.4e-19   69.5   0.0    1.1  1  DUF1176   Protein of unknown function (DUF1176)


Domain annotation for each model (and alignments):
>> DUF1176  Protein of unknown function (DUF1176)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.5   0.0   1.9e-23   3.4e-19     218     324 ..      68     176 ..      22     177 .] 0.85

  Alignments for each domain:
  == domain 1  score: 69.5 bits;  conditional E-value: 1.9e-23
                  DUF1176 218 kaLvslsCwrgAYNegyalwvvdrakpyeprlltlsa.dseeskedelvnadydpasgelsslaKgRGlGDCgssasWvwdGk..r 300
                              k+L++l C+  AYN + ++++vd     ++  +   a d + + ++ l+++ +d+as +ls+++KgRG+GDCgssa +++d    +
  PHY93_21540|PHY93_21540  68 KSLYILGCELYAYNSKELAYIVDSYGDVTNVAVAEVAtDRSITATSDLMGTAFDQASLMLSTYSKGRGIGDCGSSAIYKYDVSseK 153
                              79*********************66665555555543378999999**********************************854449 PP

                  DUF1176 301 FvlseeattgeCrgiaaggaWpll 324
                              Fvl e+  +++C+g  ++ +Wp++
  PHY93_21540|PHY93_21540 154 FVLLEAHLKEQCDGDVES-EWPVV 176
                              **************9988.9*987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (177 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       365  (0.0203581); expected 358.6 (0.02)
Passed bias filter:                      326  (0.0181828); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 1333.78
//
Query:       PHY93_17605|PHY93_17605  [L=507]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.8e-50  171.9   0.0    1.7e-49  169.4   0.0    1.8  1  Amino_oxidase  Flavin containing amine oxidoreductase
    5.6e-10   39.3   0.0      1e-09   38.5   0.0    1.4  1  NAD_binding_8  NAD(P)-binding Rossmann-like domain
    8.2e-05   21.9   0.0    0.00012   21.4   0.0    1.2  1  Thi4           Thi4 family
    0.00086   19.3   0.0      0.032   14.2   0.0    2.3  2  NAD_binding_9  FAD-NAD(P)-binding
     0.0036   16.9   0.0      0.021   14.4   0.0    1.9  2  DAO            FAD dependent oxidoreductase


Domain annotation for each model (and alignments):
>> Amino_oxidase  Flavin containing amine oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  169.4   0.0   4.6e-53   1.7e-49       1     452 []      60     504 ..      60     504 .. 0.83

  Alignments for each domain:
  == domain 1  score: 169.4 bits;  conditional E-value: 4.6e-53
                              HHHHHHHHHH...HHTT.EEEEEEESSSSSBTTS-EEEET..TEEEESS--EEET..TTHHHHHHHHHTTCCCCEEEESCCGCEEE CS
            Amino_oxidase   1 laGLaaArqL...lsaG.fdVtvlEardrvGGRirtvrsd..GylielGamwftg..agnpllellkelgledslslpdpgapkrv 78 
                              ++GL+aAr L   +++  f+V+vlEa++ +GGRi++++++  G ++elGa+ +++  +   l+e l++++++++ +   p + + +
  PHY93_17605|PHY93_17605  60 MSGLCAARNLafpKDHSpFKVIVLEASGGIGGRIFSINDPrfGKPMELGAQYIHRkpGSVDLWEDLNRYDVQLKKV---PRMLRGL 142
                              8*********99988888*************************************777777888888877777654...5666777 PP

                              EETTEECCTTEECHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHH CS
            Amino_oxidase  79 lskggrefpgdlspvpaewealleqgalsaellsleeklrlgleallqktldeldldskslaesleelgrrepgdvevwdrliepe 164
                               ++     pg  +p ++e   +l            + k ++++ + ++k++d+ +  + s +e+l +   ++ g   ++d +++  
  PHY93_17605|PHY93_17605 143 MYV-----PGVRRPKSKE--YML------------PFKWNFKDILTFSKKIDSYRGPDISAKEWLDRQDYNHIGR-GLVDLYFTG- 207
                              776.....5555555544..222............346666666666666666999999***************9.777777774. PP

                              HHHHHHHHHHCHTSTTTTCBHHHHTCCCCHHHHHTSCCCEETTHTHHHHHHHHH...TTTTEEEETSEEEEEEEEETTCEEEEETT CS
            Amino_oxidase 165 lfaklefasglfagdpselsaklalpllwelegfggslllprgGlsqlpealae...elrgldirlntrVkeikregdgvtvtled 247
                                   ++ ++l     ++ s k    ++  l++++   + + gG+ + +e+++    ++++ldir+ + V +ik+++dgv ++++ 
  PHY93_17605|PHY93_17605 208 -----SMPGKL-----ENMSVKGFASDKASLQEMEWYEYQIHGGFLSFIERFTFsddYSKKLDIRYQSIVEQIKYGPDGVEIRVKG 283
                              .....444444.....88888888888888888888888889999999999998889999************************** PP

                              STEEEESEEEE-S-HHHHH..SSEEESCCSHHHHHHHHHSEEEEEEEEEEEESSGGSGCSTSECECECCCEEETTTEEEEECCECC CS
            Amino_oxidase 248 gevveaDaVvvTvplgvlk..ailfsPplpdekaeairnlgfgsvnkvilefdrkfwednalgqgvlvseltttlgeafissdfps 331
                              g++++a+  ++T ++gvlk   i+f Pplp+ k +a++ lg+g  +k+il f+++fw ++       ++++ t ++++ +++  p+
  PHY93_17605|PHY93_17605 284 GKSYKAKTAIITFSVGVLKsgMIEFIPPLPKSKMDALECLGMGDEVKIILKFKKCFWGEKTA----ILNSINTKRKTCRTFLI-PG 364
                              ***********************************************************775....99999999999999986.44 PP

                              CSTTTEEE.EEEEEECHHHHHHHTTS-HHHHHHHHHHHHHHHHT......GTSSTCSE..........EEEEECCTETTTSSSEEE CS
            Amino_oxidase 332 rappgkgl.vllvyvggdaaneleslsdeelvqavlrdLrklfg......eevpepka..........tlvtrWhtdplargsysy 400
                              +   g    +l ++++g++a+++ ++sde +++ +++dL+++f+      +                 +l+ +W+++p++ g+ s+
  PHY93_17605|PHY93_17605 365 SGKKGEENtILNALFAGEEADDIYGKSDESVISDICSDLSEIFPnegpidQ------LlvqdsfgeyqYLRMQWRDNPYTLGADSF 444
                              4444444435999999****************************5444441......24666666777****************** PP

                              .BTTH........HHHHHHHHHCH....HCSTTEEE.SGGGCTT...TTTSHHHHHHHHHHHHHHHH CS
            Amino_oxidase 401 vsvgp........ghedydplakp....egdprlffAGehtsre...ypgtvegAilSGlraAaril 452
                               ++ +                ++     +  p lf+AGe+t+++    p++++gA  +G ra+ ++l
  PHY93_17605|PHY93_17605 445 LKAHSersvpiekV-------REKlasaHETPSLFWAGEATASGdgiQPASTHGAHFAGNRASKEVL 504
                              ****9755543322.......3335555677***********8766678889999999999999986 PP

>> NAD_binding_8  NAD(P)-binding Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.5   0.0   2.8e-13     1e-09       1      54 [.      55     114 ..      55     128 .. 0.85

  Alignments for each domain:
  == domain 1  score: 38.5 bits;  conditional E-value: 2.8e-13
                              EE--SHHHHHHHHHHH...CC.TEEEEEE-SSSSSSGGG-EECETT..CEECTS---EEE CS
            NAD_binding_8   1 IvGaGlsGlvaAylLa...ka.gfdvlllekrdrlGGraasyevpg..vrvdygahifhg 54 
                              ++GaG+sGl+aA+ La   ++  f+v +le++ ++GGr+ s+++p    + ++ga+++h 
  PHY93_17605|PHY93_17605  55 VLGAGMSGLCAARNLAfpkDHsPFKVIVLEASGGIGGRIFSINDPRfgKPMELGAQYIHR 114
                              89*************977334799********************8666**********87 PP

>> Thi4  Thi4 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.4   0.0   3.4e-08   0.00012      10      56 ..      43      92 ..      34      96 .. 0.81

  Alignments for each domain:
  == domain 1  score: 21.4 bits;  conditional E-value: 3.4e-08
                             HHHHHHTEEEEEEE--SHHHHHHHHHHH..HC.TTS-EEEEESSSS--TT CS
                     Thi4 10 edllkyaesDvvivGaGssGLtaayyla..kk.pdlkvailersvspGGG 56
                              + +++ ++D ++ GaG sGL aa+ la  k+   +kv++le+s  +GG 
  PHY93_17605|PHY93_17605 43 FQNQQIEQADCLVLGAGMSGLCAARNLAfpKDhSPFKVIVLEASGGIGGR 92
                             555678899******************95544578*********999985 PP

>> NAD_binding_9  FAD-NAD(P)-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.2   0.0   8.8e-06     0.032       2      47 ..      55      99 ..      54     107 .. 0.88
   2 ?    2.6   0.0     0.034   1.2e+02     120     153 ..     263     296 ..     244     299 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 8.8e-06
            NAD_binding_9  2 ivGaGprGlavlerLlarakkkspleitlfdpsep.gagrvwrtdqs 47
                             + GaG++Gl+++++L+  + ++sp+++ + + s+  g gr+++ +++
  PHY93_17605|PHY93_17605 55 VLGAGMSGLCAARNLAFPK-DHSPFKVIVLEASGGiG-GRIFSINDP 99
                             67****************5.************65538.*99988765 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.034
            NAD_binding_9 120 hraevvdleeradgqavlladgaslaadaVvLAl 153
                              +++ v++++  +dg++++ ++g+s++a+  +++ 
  PHY93_17605|PHY93_17605 263 YQSIVEQIKYGPDGVEIRVKGGKSYKAKTAIITF 296
                              4677889*********************999985 PP

>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   0.0   5.8e-06     0.021       1      33 [.      52      90 ..      52      92 .. 0.80
   2 ?   -0.1   0.0      0.16   5.6e+02     265     303 ..     379     414 ..     339     475 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 5.8e-06
                             EEEEECTSHHHHHHHHHHH.HTT.....EEEEESSSSTT CS
                      DAO  1 dvviiGGGiiGlstAyeLa.rrg.....Vtllekgdiag 33
                             d ++ G+G+ Gl++A+ La  +      V++le++  +g
  PHY93_17605|PHY93_17605 52 DCLVLGAGMSGLCAARNLAfPKDhspfkVIVLEASGGIG 90
                             679***************7422235799*****986655 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.16
                              EEESSEEETTCSSTSCSHHHHHHHHHHHHHHSGGGCGEE CS
                      DAO 265 vGgtadeesgdddpevdeedidellealrklfPqlgdvl 303
                              + g   ee++d + + de  i ++++ l+++fP+ g++ 
  PHY93_17605|PHY93_17605 379 FAG---EEADDIYGKSDESVISDICSDLSEIFPNEGPID 414
                              333...34556668999999************9976654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (507 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       360  (0.0200792); expected 358.6 (0.02)
Passed bias filter:                      350  (0.0195214); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.61u 0.23s 00:00:00.84 Elapsed: 00:00:00.42
# Mc/sec: 3644.13
//
Query:       PHY93_17610|PHY93_17610  [L=263]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-28   99.5   0.0    2.5e-28   98.8   0.0    1.3  1  DUF523    Protein of unknown function (DUF523)
    0.00017   21.8   1.1    0.00057   20.2   0.0    2.2  3  DUF1722   Protein of unknown function (DUF1722)


Domain annotation for each model (and alignments):
>> DUF523  Protein of unknown function (DUF523)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   98.8   0.0   2.7e-32   2.5e-28       1     135 [.       5     152 ..       5     154 .. 0.91

  Alignments for each domain:
  == domain 1  score: 98.8 bits;  conditional E-value: 2.7e-32
                   DUF523   1 ilvSaCLlgekvrydgkakksevleeelkelvkeelvpvCPEvaggLptPRepael...........akr.vlkkegedvtealek 74 
                              i++S+C+lg+kvrydg++ ++ +++++l+ ++  el ++CPE+++gL+ PRe+++l           ++r +++k+++d+t   ++
  PHY93_17610|PHY93_17610   5 IAISSCILGNKVRYDGGDTHEVWVSAKLATYF--ELKAICPEMEMGLGAPRETMNLidsnfenegqrNIRlITTKTKQDLTGLAID 88 
                              78******************************..********************************988989999*******8888 PP

                   DUF523  75 gaeealeelkeeeikgailkekSPSCGveki..Y..dgtfskklvegeGvfaallkeegievpse 135
                               +++++ +   ++++g i++++SPSCGve++  Y  + ++  ++++ +G++a+ + ++++ vp+ 
  PHY93_17610|PHY93_17610  89 SIDKIILRD-GTGVCGHIFQQRSPSCGVEQVklYnsKDELIITTNNNQGLYAKEFIKRFPFVPVI 152
                              888777544.459*******************996645666777999*************99975 PP

>> DUF1722  Protein of unknown function (DUF1722)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0       1.1   9.7e+03      72      97 ..     165     188 ..     158     193 .. 0.52
   2 !   20.2   0.0   6.3e-08   0.00057       1      44 [.     194     237 ..     194     244 .. 0.94
   3 ?   -0.5   0.1      0.16   1.4e+03     105     117 .]     247     259 ..     240     259 .. 0.86

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 1.1
                  DUF1722  72 qelleliekYregkvplsvpltlLkh 97 
                              + l ++++ Yr +   l++ + +L+ 
  PHY93_17610|PHY93_17610 165 NFLCRVMAYYRFNS--LQASIPILQD 188
                              33445555566555..5555555555 PP

  == domain 2  score: 20.2 bits;  conditional E-value: 6.3e-08
                  DUF1722   1 KyllmahsqkeyrelgrlvanakkepleelaeeYeellmealsk 44 
                              K++lm hs++  ++l+ +v n k++++ +++e+Y++l+ e+l+ 
  PHY93_17610|PHY93_17610 194 KLILMDHSESMTNQLNLIVDNDKENDCLSVFENYKKLFFETLAL 237
                              9***************************************9986 PP

  == domain 3  score: -0.5 bits;  conditional E-value: 0.16
                  DUF1722 105 eylleqtylnpyP 117
                              + l++q+ ++p+P
  PHY93_17610|PHY93_17610 247 HFLKDQYHFDPFP 259
                              689*********9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (263 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       590  (0.0329076); expected 358.6 (0.02)
Passed bias filter:                      447  (0.0249317); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.25s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 1951.53
//
Query:       PHY93_17615|PHY93_17615  [L=353]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0084   16.3   0.4       0.66   10.2   0.0    2.8  3  Flu_B_M2  Influenza B matrix protein 2 (BM2)


Domain annotation for each model (and alignments):
>> Flu_B_M2  Influenza B matrix protein 2 (BM2)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.6   0.1      0.73   1.3e+04      10      18 ..      12      20 ..       6      27 .. 0.73
   2 !    3.3   0.0    0.0052        93      21      40 ..     184     203 ..     169     217 .. 0.86
   3 !   10.2   0.0   3.7e-05      0.66      13      50 ..     257     294 ..     247     320 .. 0.85

  Alignments for each domain:
  == domain 1  score: -3.6 bits;  conditional E-value: 0.73
                 Flu_B_M2 10 icsfilsal 18
                              csf lsa 
  PHY93_17615|PHY93_17615 12 ACSFQLSAQ 20
                             599999985 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.0052
                 Flu_B_M2  21 mawtighlnqikrgvnlkiq 40 
                               aw++ h++++k g +l i 
  PHY93_17615|PHY93_17615 184 HAWSVVHMEKVKGGYDLEIL 203
                              59**************9986 PP

  == domain 3  score: 10.2 bits;  conditional E-value: 3.7e-05
                 Flu_B_M2  13 filsalhfmawtighlnqikrgvnlkiqirnpnkeain 50 
                              +il  l +  wt+ h++++  g +l + +   n+e+ n
  PHY93_17615|PHY93_17615 257 LILPGLEYHRWTVRHVKKVDGGYDLDVVVYSKNRETQN 294
                              79999****************************99877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (353 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       531  (0.0296168); expected 358.6 (0.02)
Passed bias filter:                      343  (0.019131); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.20s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 2640.43
//
Query:       PHY93_17620|PHY93_17620  [L=119]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (119 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       327  (0.0182386); expected 358.6 (0.02)
Passed bias filter:                      282  (0.0157287); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.20s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 893.87
//
Query:       PHY93_05400|PHY93_05400  [L=543]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.8e-65  219.7   0.0    5.4e-65  219.2   0.0    1.2  1  PEP_mutase       Phosphoenolpyruvate phosphomutase
      1e-06   29.2   0.0    2.7e-06   27.8   0.0    1.7  2  NTP_transf_3     MobA-like NTP transferase domain
     0.0028   17.3   0.0     0.0099   15.5   0.0    2.1  3  NTP_transferase  Nucleotidyl transferase
     0.0085   15.8   0.0      0.016   15.0   0.0    1.4  1  IspD             2-C-methyl-D-erythritol 4-phosphate cytidyly
     0.0099   14.4   0.0      0.018   13.6   0.0    1.3  1  ICL              Isocitrate lyase family


Domain annotation for each model (and alignments):
>> PEP_mutase  Phosphoenolpyruvate phosphomutase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  219.2   0.0   1.5e-68   5.4e-65       2     238 ..      13     260 ..      12     261 .. 0.94

  Alignments for each domain:
  == domain 1  score: 219.2 bits;  conditional E-value: 1.5e-68
               PEP_mutase   2 ra.LhakgeplvlpnawDalsakiveeagfkalatsSlavaaslGvpDgeelpleellaavraiaevvslPlivDledGygespee 86 
                              r+ L+++ e+ +l++a++++saki+eeagfk+++ s+l+++a+lGv+D++e++++++l++v+ + +++++P+++D ++Gyg+  ++
  PHY93_05400|PHY93_05400  13 RNmLNSS-ELEFLMEAHNGMSAKIAEEAGFKGIWGSGLSISAALGVRDNNEASWTQVLEVVEFMSDATTIPILLDGDTGYGN-FNN 96 
                              6645555.899**********************************************************************9.*** PP

               PEP_mutase  87 vaetvrrliaaGvvgvniEDk...kkn...d.aerqlldieefaekiaaaraaaeeagfvinARtdalllsagagleeaieRaraY 165
                              +++ v++l++ Gv+gv+iEDk   k+n   + + ++l d++ef+ ki+a+++++ +++f i+AR++al+  ag g+ ea++Ra+aY
  PHY93_05400|PHY93_05400  97 MRRLVTKLEQRGVAGVCIEDKvfpKTNsflRtEAQPLADMDEFCGKIKAGQDTKLDSDFNIIARVEALI--AGWGMGEALKRADAY 180
                              ***********************977777655777777*******************************..*************** PP

               PEP_mutase 166 aeAGAdgvfvpglqkdae.iaelvaavd.....vplnvvpl.kgtlsvaelaelGvarislgnhllraalaalreaaeei 238
                                AGA+g++++++ ++++ i +++++++     +p+++vp+   ++ +++++e+ +++ +++nh +r a++a++++++ i
  PHY93_05400|PHY93_05400 181 RLAGANGILMHSKISKPDeILAFMKEWGersksCPIVIVPTkYYATPTNAFREANISVCIWANHQMRMAVTAMQNVTKTI 260
                              *************777777********669**********625689*****************************99987 PP

>> NTP_transf_3  MobA-like NTP transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0       1.9   6.7e+03      70      92 ..      47      69 ..      44     134 .. 0.60
   2 !   27.8   0.0   7.6e-10   2.7e-06       1     117 [.     306     419 ..     306     465 .. 0.84

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 1.9
                             -SHHHHHHHHHHHH.SSSCEEEE CS
             NTP_transf_3 70 kgplaslaaalraaadadavlvl 92
                              g + s a ++r  ++a++  vl
  PHY93_05400|PHY93_05400 47 SGLSISAALGVRDNNEASWTQVL 69
                             55555666666555555554333 PP

  == domain 2  score: 27.8 bits;  conditional E-value: 7.6e-10
                              EEEEEESS-TTTTT.....THHHHCCCCCCHHHHHHHHHCTT.-CEEEEECSHCHHHHHHTTCTS-EEE-TTSS.-SHHHHHHHHH CS
             NTP_transf_3   1 aviLAGGrSsRmgg.....dKallplggkpllervldalraagvdevvvvggdeevlaalarlgvrvvededpg.kgplaslaaal 80 
                              a+ LA+ r+  +++     +K l++++gkpl+e++++++ +++++++ +v g+++  +a++ ++++++ +++ + +  l+sl  a 
  PHY93_05400|PHY93_05400 306 AIFLAASRGAELKEltedkPKVLIDINGKPLIEQSINNFYEHNIKDISIVRGYKK--EAFKLQNIKYFDNDNFEtTSELSSLFLAK 389
                              689********985555669*********************************86..4588899******99965999******99 PP

                              HHH.SSSCEEEEETT-TT--HHHHHHHHHCHHHHTSS CS
             NTP_transf_3  81 raaadadavlvlacDmPlltpelverllaaaaasgad 117
                              +++   d+ ++  +D+ + ++ ++ rll++      d
  PHY93_05400|PHY93_05400 390 KEI--VDHTVISYGDILY-RKYILSRLLEEKG----D 419
                              998..8**********55.999*****99742....2 PP

>> NTP_transferase  Nucleotidyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.6   0.0       1.9   6.8e+03      89     128 ..      67     106 ..      15     117 .. 0.59
   2 !   15.5   0.0   2.8e-06    0.0099       2      60 ..     306     363 ..     305     428 .. 0.89
   3 ?   -2.9   0.0       1.1   4.1e+03     190     232 ..     492     533 ..     486     539 .. 0.60

  Alignments for each domain:
  == domain 1  score: -3.6 bits;  conditional E-value: 1.9
                              HHHHTHHHHTTSSE..EEEEETTEEEEST..THHHHHHHHHT CS
          NTP_transferase  89 AvalaaelledeksdelvlvLggDhlikd..ayeeavkkaie 128
                               v+ ++e++ d    ++ + L gD  +++  +++++v+k ++
  PHY93_05400|PHY93_05400  67 QVLEVVEFMSDAT--TIPILLDGDTGYGNfnNMRRLVTKLEQ 106
                              3444445555444..366777888888844444444444443 PP

  == domain 2  score: 15.5 bits;  conditional E-value: 2.8e-06
                              EEEE--S--GGGTTCCTTSSGGGSEETTETETTHHHHHHHHHTT-SEEEEEEETTTHHH CS
          NTP_transferase   2 avILaGGsGtRLwPLtrtlakklvpvlgkerliqatlsrlansgieeiivvltqehsfl 60 
                              a+ La  +G  L  Lt + +k l+ + gk +li++ +++  +++i++i +v  +++++ 
  PHY93_05400|PHY93_05400 306 AIFLAASRGAELKELTEDKPKVLIDINGK-PLIEQSINNFYEHNIKDISIVRGYKKEAF 363
                              789999***********************.*****************777766555443 PP

  == domain 3  score: -2.9 bits;  conditional E-value: 1.1
                              HHH.CCHHHTTSSCHHHHHHHHHHHTTEEEEEECSTTEE-EEEX CS
          NTP_transferase 190 lak.dleelkrgedeitdilpkaleegkvalaflfkdaeyWsDv 232
                               ++   + ++ ++ ++ d+++k+le+ kv  +++  d   W D+
  PHY93_05400|PHY93_05400 492 TLEeLSTTSEFSKLKLPDLMNKLLEK-KVRINVMYIDG-HWLDI 533
                              44433344455566677777888777.56666676665.59998 PP

>> IspD  2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   4.4e-06     0.016       4      50 ..     307     355 ..     305     370 .. 0.74

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 4.4e-06
                              EEECTTSS...CTT-SSS-GGGSEETTEEHHHHHHHHHHCTTTEEEEEEE CS
                     IspD   4 vipAAGsG...kRmkaglpKqflelkgqtllehtvdallaskavdkivvv 50 
                              +  AA +G   k + +++pK +++++g++l+e++++ + ++ +++ i +v
  PHY93_05400|PHY93_05400 307 IFLAASRGaelKELTEDKPKVLIDINGKPLIEQSINNFYEH-NIKDISIV 355
                              6678888822234568***********************96.56666655 PP

>> ICL  Isocitrate lyase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.6   0.0     5e-06     0.018     150     187 ..      81     118 ..      65     186 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 5e-06
                              --EEEE-TT-SSSHHHHHHHHHHHHHTT-SEEEE-SB- CS
                      ICL 150 rpiiadadtGhGGltavvkltklfierGaaGihiedqa 187
                               pi+ d+dtG+G    + +l+  + +rG aG+ ied+ 
  PHY93_05400|PHY93_05400  81 IPILLDGDTGYGNFNNMRRLVTKLEQRGVAGVCIEDKV 118
                              59******************99999***********86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (543 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       530  (0.029561); expected 358.6 (0.02)
Passed bias filter:                      389  (0.0216967); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.61u 0.25s 00:00:00.86 Elapsed: 00:00:00.43
# Mc/sec: 3777.50
//
Query:       PHY93_17625|PHY93_17625  [L=378]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.014   15.5   0.0       0.12   12.5   0.0    2.2  2  Peptidase_C92  Permuted papain-like amidase enzyme, YaeF/YiiX


Domain annotation for each model (and alignments):
>> Peptidase_C92  Permuted papain-like amidase enzyme, YaeF/YiiX, C92 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.0     0.043   7.7e+02      25      42 ..     100     118 ..      86     128 .. 0.74
   2 ?   12.5   0.0   6.6e-06      0.12      97     160 ..     256     325 ..     230     330 .. 0.65

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 0.043
            Peptidase_C92  25 a.sefkHvgivvgeegder 42 
                              +   f+H+g+v  ++++e+
  PHY93_17625|PHY93_17625 100 NqEGFSHAGLVEIKKDEET 118
                              23889******99888665 PP

  == domain 2  score: 12.5 bits;  conditional E-value: 6.6e-06
            Peptidase_C92  97 YdfgFeleddrlYCsklVakaykealgikvktvellgklllknpdsklkl.........leletvlpqslaes 160
                              +  +F  + d  YCs+lV  a+ + ++++ +    + + l k     ++l         l  + v+p+++a +
  PHY93_17625|PHY93_17625 256 FTSSFANARDTAYCSQLVVLAFLQGVNVDAEATIDTWSALAKT---IKRLhlpgsesidLSQRIVAPADFAWQ 325
                              667888899*************777766654332222222211...112234666667777778888887755 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (378 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       640  (0.0356964); expected 358.6 (0.02)
Passed bias filter:                      422  (0.0235373); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.21s 00:00:00.75 Elapsed: 00:00:00.41
# Mc/sec: 2736.24
//
Query:       PHY93_17630|PHY93_17630  [L=191]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (191 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       490  (0.02733); expected 358.6 (0.02)
Passed bias filter:                      352  (0.019633); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 1447.31
//
Query:       PHY93_17635|PHY93_17635  [L=490]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      5e-08   33.7   0.1    4.9e-07   30.5   0.1    2.0  2  Metallophos    Calcineurin-like phosphoesterase
  ------ inclusion threshold ------
       0.14   12.4   0.2        3.3    7.9   0.0    2.6  2  Metallophos_2  Calcineurin-like phosphoesterase superfamily d


Domain annotation for each model (and alignments):
>> Metallophos  Calcineurin-like phosphoesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.5   0.1   5.5e-11   4.9e-07       3     124 ..      13     186 ..      11     210 .. 0.78
   2 ?    0.9   0.0     0.063   5.7e+02     183     203 ..     393     414 ..     373     415 .. 0.85

  Alignments for each domain:
  == domain 1  score: 30.5 bits;  conditional E-value: 5.5e-11
                              EEEEESBTB....................TTCCTHHHHHHHHHHHHHHHTTESEEEEESTSSSSS..................... CS
              Metallophos   3 ilvigDlHl....................algggqlddllkllddllreekpdlvllaGDlvdrg..................... 47 
                               +v++DlHl                       +g +  +l+ ++++ +  +p  ++++GD++d                       
  PHY93_17635|PHY93_17635  13 TIVVSDLHLadaepphpkkplwkrfkgkdLFIDGTFKLFLEKIQKIVP--GPIELIFNGDVFDFDsvmtlpakpefsiswlerrrg 96 
                              689********9999888888888877664445666666676666655..57777778******99******************** PP

                              ................HHHHHHHHHHHHHHHHTSEEEEEC-TTS.CHHH.HHHHHHHHHHHHHHHHEHHHCEEETSEEEEEETTEE CS
              Metallophos  48 ................dlekellellaalvkypipvylllGNHe.gfee.ellnkygylgifsepwrsdaevfnnlplaslgsgsl 115
                                              d ++ +le +++++ ++++v++  GNH+  ++  ++ +  ++  + +e++++ + + ++++++    +  
  PHY93_17635|PHY93_17635  97 lapeeaksrfkiqvilDAHSTWLESVREFILNGNRVVFNIGNHDmELHWpSVCRDLQNRMNLPEQFQDSVRFTEWFYISN---Q-- 177
                              ****************66666***********************733333444444445555777777777777777777...5.. PP

                              EEEEEESEC CS
              Metallophos 116 kvlllhGgs 124
                              ++l+ hG+ 
  PHY93_17635|PHY93_17635 178 DTLIEHGNQ 186
                              999999983 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.063
                              HHHHH.HHHTTESEEEEESSSS CS
              Metallophos 183 aledl.lkkygvdlvisGHtHv 203
                              a+ ++  ++ +v  vi GHtH+
  PHY93_17635|PHY93_17635 393 AMIPFsARIAKVSRVIQGHTHQ 414
                              5567888889999********7 PP

>> Metallophos_2  Calcineurin-like phosphoesterase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.0     0.028   2.5e+02      53     103 ..     131     192 ..      12     210 .. 0.64
   2 ?    7.9   0.0   0.00037       3.3     120     152 ..     405     437 ..     387     447 .. 0.84

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.028
            Metallophos_2  53 pvlaVrGNnD.....eev..veedvlreaaelgtdlpeeaelelagekvlliHgdpl....g 103
                              +v+   GN+D     + v    + +++ ++++++++  ++++ + +++ l+ Hg ++     
  PHY93_17635|PHY93_17635 131 RVVFNIGNHDmelhwPSVcrDLQNRMNLPEQFQDSVRFTEWFYISNQDTLIEHGNQYdaycL 192
                              44444588886665522234455666667777777777777777777777777776555554 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.00037
            Metallophos_2 120 dvvvcGHtHvpevekeggvlvvnPGsvgeprdg 152
                                v+ GHtH++  ++++g+ + n G  +++ ++
  PHY93_17635|PHY93_17635 405 SRVIQGHTHQEIHTQIKGIEYFNTGTWSPAFHD 437
                              46999********************99888665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (490 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       643  (0.0358637); expected 358.6 (0.02)
Passed bias filter:                      386  (0.0215294); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.41
# Mc/sec: 3553.37
//
Query:       PHY93_17640|PHY93_17640  [L=438]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.1e-46  158.0   4.2      4e-46  157.6   4.2    1.1  1  Peptidase_S8  Subtilase family


Domain annotation for each model (and alignments):
>> Peptidase_S8  Subtilase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  157.6   4.2   2.3e-50     4e-46       1     289 [.     157     419 ..     157     428 .. 0.82

  Alignments for each domain:
  == domain 1  score: 157.6 bits;  conditional E-value: 2.3e-50
                              -TT-EEEEECS-B-TT-TTTGGGE...EE..EEEE---TTSG.GGEETT-SS-TT-SC-SSS.......HHHHHHHHHH-B..SSS CS
                              xxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxx RF
             Peptidase_S8   1 gkgvlvavlDtGvdpshpdlsvtt...dgerklvdvideegagfngadsettstnwarddngnsie...HGthvAGiaaanapeeg 80 
                              g++v++a++D+G+d++hpdl++++   + e++ +   d++g gf ++ +  +++ +++ d +   +   HGthvAGi++a+  + +
  PHY93_17640|PHY93_17640 157 GSDVVIAIIDSGIDYNHPDLKKNLwinEAEKNGKPGVDDDGNGFIDDIY-GYDFANEDGDPM---DglgHGTHVAGIIGAS-HNGE 237
                              789******************6642112222222223333333333332.233333333334...3555************.999* PP

                              SSB-SSTTSEEEEEE-SSTTSB-HH..HHHHHHHHHHHHCT-SEEEE-EESCETTCHHCHHHHHHHHHHHH.CCT-EEEEE--SS- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8  81 ekngvapgakilsvkvldtsggsmetgteliraieeaaedkvdvinmslgestslpktgrsiealainravnkkgvlvviSaGNng 166
                              ++ gv  ++ki s+k+l+++g  ++  ++ ira+++a+++++++in+s+g+++  +  ++     a+++a  +k++++ ++aGN++
  PHY93_17640|PHY93_17640 238 GIRGVMNNVKIMSLKFLTDKGPGDT--KNAIRAVDYAIKNGAQIINNSWGGGDYSQAMYD-----AFMAAA-EKNIIITAAAGNSN 315
                              *****************99888776..8**********************7777777776.....788888.89************ PP

                              T-HHEEE-TTCEECTTTST..TCEEEEEESTTSSB-TT--B-TT.......-EEEE-S-CCCCCCCCCHHHTTTHHEEEE-SHHHC CS
                              xxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8 167 ktgsslqagspvgtpstsk..nvitvgayttegkiapfSsrGpssdgklkpdivapGgnivstwsrqsnnsaglssyqsmsGTSmA 250
                                   + +  + ++p+++k  n itv+a +  +  a+fS++G++s     ++i apG +ivst  + +        y   +GTS A
  PHY93_17640|PHY93_17640 316 -----VDNDVTPKYPASYKvpNLITVAAHNALEGRASFSNYGKNS-----VSIYAPGLDIVSTDLKSN--------YIWSTGTSVA 383
                              .....778899999****999**********999**********9.....7********999888888........********** PP

                              HHHHHHHHHHHHHHHTT--HHHHHHHHHCCS-EE..... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8 251 sPnaagaaAlllsalpkltpetvraallntAqdlgkadn 289
                              +P ++ga+ llls  p ++ ++ +  l+ t     k ++
  PHY93_17640|PHY93_17640 384 TPIITGALGLLLSMEPGISYTEAKNRLMETS---IKTPE 419
                              ****************************999...44444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (438 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       281  (0.0156729); expected 358.6 (0.02)
Passed bias filter:                      245  (0.013665); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.42
# Mc/sec: 3103.25
//
Query:       PHY93_17645|PHY93_17645  [L=161]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.077   12.8   0.8       0.58   10.0   0.1    2.1  2  DUF4354   Domain of unknown function (DUF4354)


Domain annotation for each model (and alignments):
>> DUF4354  Domain of unknown function (DUF4354)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.1   3.3e-05      0.58       1      67 [.       1      66 [.       1     101 [. 0.74
   2 ?    1.6   0.1     0.013   2.3e+02      48      64 ..     105     121 ..     100     146 .. 0.84

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 3.3e-05
                             XXX..XXXXXXXXXXXXXXXXXXXXXSSEEEEEEEEEEEE.EEETTEEEEEEEEEEEEEE-SSS-EE- CS
                  DUF4354  1 Mkkifvaslllagvvllaslefasvpdkvivyatekdkgs.vsveekaqytkafkvkvvNlsdseidL 67
                             Mkk ++++lll   +  a  +  ++++kvivya   +       +e + +t+a +v++ N+ +++++L
  PHY93_17645|PHY93_17645  1 MKK-LLLALLLSTAITNAWAKNNEAEKKVIVYANATAFTLdANLPEPFSRTVAVQVSL-NPIENDATL 66
                             999.777777777777777799999********9877544133344455566666654.555555555 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.013
                              EEEEEEEEEEEE-SSS- CS
                  DUF4354  48 qytkafkvkvvNlsdse 64 
                               y k+f++kv   s++ 
  PHY93_17645|PHY93_17645 105 PYYKDFEIKVIDYSKNT 121
                              5899******9999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (161 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       595  (0.0331865); expected 358.6 (0.02)
Passed bias filter:                      456  (0.0254337); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.42
# Mc/sec: 1164.31
//
Query:       PHY93_17650|PHY93_17650  [L=319]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.9e-27   95.0   0.8    7.3e-27   94.4   0.8    1.2  1  Peptidase_S8  Subtilase family


Domain annotation for each model (and alignments):
>> Peptidase_S8  Subtilase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   94.4   0.8   4.1e-31   7.3e-27       2     298 .]      64     307 ..      63     307 .. 0.89

  Alignments for each domain:
  == domain 1  score: 94.4 bits;  conditional E-value: 4.1e-31
                              TT-EEEEECS-B-TT-TTTGGGEEE..EEEE---TTSG.GGEETT-SS-TT-SC-SSS....HHHHHHHHHH-B..SSSSSB-SST CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8   2 kgvlvavlDtGvdpshpdlsvttdgerklvdvideegagfngadsettstnwarddngnsieHGthvAGiaaanapeegekngvap 87 
                              k+v+v v DtG++++hpdl+++      +        + + g++  ++stn + ++n     HGt++AG+++a    +g+++g+  
  PHY93_17650|PHY93_17650  64 KEVKVLVCDTGIESNHPDLKAN------I--------S-LPGQNFVDGSTNTEPTGNA----HGTRIAGVIGAL-GLNGGAVGINL 129
                              789*****************44......3........2.8888999999999999999....************.9999******* PP

                              TSEEEEEE-SSTTSB-HH..HHHHHHHHHHHHCT-SEEEE-EESCETTCHHCHHHHHHHHHHHH.CCT-EEEEE--SS-T-HHEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8  88 gakilsvkvldtsggsmetgteliraieeaaedkvdvinmslgestslpktgrsiealainravnkkgvlvviSaGNngktgsslq 173
                              ++ki   k+ +  +g +   t+ ++ i++ a ++++++n+s+ ++ + p + +     a++++  +kg ++++SaGN         
  PHY93_17650|PHY93_17650 130 NVKIVPGKISNVASGMA-MHTDTAKCIKWGADQGIKIVNVSFSGGLDEPVVHD-----AAKYLH-DKGGVLIMSAGNVW------- 201
                              *****999996555444.449**********************9999999997.....889999.8999999******9....... PP

                              -TTCEECTTTSTTCEEEEEESTTSSB-TT--B-TT.......-EEEE-S-CCCCCCCCCHHHTTTHHEEEE-SHHHCHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8 174 agspvgtpstsknvitvgayttegkiapfSsrGpssdgklkpdivapGgnivstwsrqsnnsaglssyqsmsGTSmAsPnaagaaA 259
                                 p   p     +i+vg +++ +    f s Gp +      d vapG+ i+ t    +        y   +G+S ++++++gaaA
  PHY93_17650|PHY93_17650 202 --GPRDLPND-PYIIAVGMVNQIDWKTQFDSFGPFV------DMVAPGTTIYTTDVGGK--------YIEDKGSSLSAAVVSGAAA 270
                              ..56666663.359********************98......6*******555555555........99***************** PP

                              HHHHHHTT--HHHHHHHHHCCS-EE......SSSSSSTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8 260 lllsalpkltpetvraallntAqdlgkadniesfaqGaG 298
                              l+ls  p+l+++++ ++l ++  dlg++  + + a+G G
  PHY93_17650|PHY93_17650 271 LILSVRPDLSADELTEVLFRSTVDLGTP--GRDDAFGVG 307
                              *************************999..999999988 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (319 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       336  (0.0187406); expected 358.6 (0.02)
Passed bias filter:                      293  (0.0163422); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.19s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 2373.02
//
Query:       PHY93_17655|PHY93_17655  [L=79]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (79 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       453  (0.0252663); expected 358.6 (0.02)
Passed bias filter:                      416  (0.0232026); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.23s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 588.58
//
Query:       PHY93_17660|PHY93_17660  [L=250]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.1e-47  161.1   0.0    3.2e-47  160.6   0.0    1.2  1  IstB_IS21        IstB-like ATP binding protein
    6.6e-07   29.4   0.0    1.1e-06   28.7   0.0    1.3  1  Bac_DnaA         Bacterial dnaA  protein
    2.8e-05   24.5   0.1    0.00011   22.6   0.0    1.9  2  AAA              ATPase family associated with various cellul
      0.002   17.7   0.1      0.004   16.8   0.1    1.5  1  AAA_25           AAA domain
     0.0024   17.2   0.1     0.0062   15.9   0.0    1.8  2  ATPase           KaiC
     0.0032   17.0   0.0     0.0054   16.2   0.0    1.4  1  PhoH             PhoH-like protein
  ------ inclusion threshold ------
      0.011   16.0   2.4      0.046   14.0   0.1    2.3  2  AAA_22           AAA domain
      0.014   15.8   2.4      0.026   14.9   0.3    2.4  2  AAA_16           AAA ATPase domain
      0.018   15.6   0.1      0.097   13.2   0.0    2.0  2  AAA_18           AAA domain
      0.034   14.1   1.5       0.29   11.1   1.5    2.2  1  AAA_5            AAA domain (dynein-related subfamily)
      0.054   13.2   0.4       0.21   11.3   0.4    1.9  1  AAA_30           AAA domain
      0.065   13.4   0.0      0.098   12.8   0.0    1.4  1  AAA_33           AAA domain
      0.092   13.3   2.8       0.33   11.5   0.6    2.2  2  DNApol3-delta_C  DNA polymerase III, delta subunit, C termina
       0.13   11.4   0.0        0.2   10.7   0.0    1.2  1  MCM              MCM P-loop domain
        1.6    8.7   9.6        2.2    8.2   0.3    3.0  3  NACHT            NACHT domain


Domain annotation for each model (and alignments):
>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  160.6   0.0   2.7e-50   3.2e-47       4     178 .]      54     228 ..      51     228 .. 0.98

  Alignments for each domain:
  == domain 1  score: 160.6 bits;  conditional E-value: 2.7e-50
                IstB_IS21   4 letrlrlaklpaqktledidfraarsldkrkvkeLatlsfiekkenivllGpsGvGKshlaialgveavraglsvlfvrvedLvee 89 
                              l+ r+r+a++p  kt+e+++f++++ + ++k+keL  l+f++++  +++lG++G+GK+hl  alg +av++g +v++++++ Lv+ 
  PHY93_17660|PHY93_17660  54 LQGRIRRARFPEVKTIESFKFDFNKTIPEEKIKELGRLDFVKRRGVVLFLGQPGTGKTHLGQALGLKAVARGDQVYWTTMKGLVQD 139
                              67899********************************************************************************* PP

                IstB_IS21  90 lkrarrdgklaralkrllkvdllilDdlgllpldqaeaellfeviekryerrsiiitsnlpfaewdevlgdatlatAilDRlvHha 175
                              +k+ ++ ++l++  k++l+++lli+Dd+g+ ++d++ ae++f+++++r  ++++++tsn  ++ew +v++d+ +a+A++DR+  +a
  PHY93_17660|PHY93_17660 140 IKKYKEINELHSLFKKILQARLLIIDDWGVITVDRDVAEEIFDLLDRRKLTSALLLTSNRAVEEWPQVFPDQIIANATIDRIFDRA 225
                              **********************************************************************************9999 PP

                IstB_IS21 176 hvv 178
                              +v+
  PHY93_17660|PHY93_17660 226 EVI 228
                              875 PP

>> Bac_DnaA  Bacterial dnaA  protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.7   0.0   8.8e-10   1.1e-06      37     140 ..     100     200 ..      95     213 .. 0.81

  Alignments for each domain:
  == domain 1  score: 28.7 bits;  conditional E-value: 8.8e-10
                              EEEE-SSSSSHHHHHHHHHHHHHHHSSSS-EEEEEHHHHHHHHHHHHHTT-HHHHHHHHTT-SEEEEE-GGGGTT-HHHHHHHHHH CS
                 Bac_DnaA  37 lfiygevGlGktHLlkaignevlenapelrvvYltaeeFlnelvkalrdkkaeefkeklrkvDvLliDDiqflagkektqeelfht 122
                              +++ g+ G GktHL +a+g ++++  +  +v + t +  ++++ k  + ++++++ +k+ ++ +L+iDD   ++   ++ ee+f +
  PHY93_17660|PHY93_17660 100 VLFLGQPGTGKTHLGQALGLKAVA--RGDQVYWTTMKGLVQDIKKYKEINELHSLFKKILQARLLIIDDWGVITVDRDVAEEIFDL 183
                              67889**************99886..56677777777777776666666999**99*****************************9 PP

                              HHHHHTTT-EEEEEESS- CS
                 Bac_DnaA 123 fnalleegkqvvlssDrs 140
                              ++   +    ++l+s+r+
  PHY93_17660|PHY93_17660 184 LDRR-KLTSALLLTSNRA 200
                              9763.3344566666665 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.0       1.7   2.1e+03      83      99 ..      16      32 ..       5      59 .. 0.80
   2 !   22.6   0.0   9.1e-08   0.00011       1     112 [.     100     201 ..     100     225 .. 0.76

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 1.7
                             HHHHHHHHHHHHHTTTS CS
                      AAA 83 ervvnqLlteldgvkkk 99
                             ++++++Llt+l++ kk+
  PHY93_17660|PHY93_17660 16 RTAASELLTVLEKNKKS 32
                             67888999999988875 PP

  == domain 2  score: 22.6 bits;  conditional E-value: 9.1e-08
                              EEEESSTTSSHHHHHHHHHHHH...THEEEEEETTTCSSSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGHHHHHTTCCCHHHH CS
                      AAA   1 vllyGppGtGKTllakavakel...gvefleisgsellskyvgesekkirelfkeakekakpsilfiDEidalaksrsgseseeee 83 
                              vl+ G pGtGKT l +a+  ++   g +++ + ++ l+++   ++ k+i+el +  k+  +   l+iD+   ++ +r         
  PHY93_17660|PHY93_17660 100 VLFLGQPGTGKTHLGQALGLKAvarGDQVYWTTMKGLVQD--IKKYKEINELHSLFKKILQARLLIIDDWGVITVDR--------- 174
                              79****************9998666566777777777755..455666666666655555458**********9999......... PP

                              HHHHHHHHHHHHTTTSSSTEEEEEEESS.G CS
                      AAA  84 rvvnqLlteldgvkkkeskvivigatnr.p 112
                              +v+++++  ld+ k       +++++nr +
  PHY93_17660|PHY93_17660 175 DVAEEIFDLLDRRKLT---SALLLTSNRaV 201
                              9999999999999994...57999999963 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.1   3.3e-06     0.004      12      65 ..      74     130 ..      64     190 .. 0.78

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 3.3e-06
                   AAA_25  12 vadlaa.pppprrwlvk.gllpagelallaGapgtGKttlaldlalava.tGkpwlg 65 
                              +++ ++ p ++ + l + +++ + +++l+ G+pgtGKt l   l+l+ + +G+++ +
  PHY93_17660|PHY93_17660  74 FDFNKTiPEEKIKELGRlDFVKRRGVVLFLGQPGTGKTHLGQALGLKAVaRGDQVYW 130
                              555555566667777777899************************975559998755 PP

>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0       1.5   1.8e+03     115     131 ..      25      41 ..       3      52 .. 0.53
   2 !   15.9   0.0   5.2e-06    0.0062      17      88 ..      95     167 ..      71     204 .. 0.82

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 1.5
                   ATPase 115 ikeikakrvviDsitgl 131
                              + e++ k v +D i+ l
  PHY93_17660|PHY93_17660  25 VLEKNKKSVSLDWISDL 41 
                              22344555555555555 PP

  == domain 2  score: 15.9 bits;  conditional E-value: 5.2e-06
                   ATPase  17 pegrvvlitGepGtGKtifalqFlikgaekygepgvfvtveepaedlre..nakslGwdlekleeegklaiida 88 
                               ++ vvl  G+pGtGKt +++   +k +++ g+++   t+    +d+++  ++++l   ++k+ +  +l+i d 
  PHY93_17660|PHY93_17660  95 KRRGVVLFLGQPGTGKTHLGQALGLKAVAR-GDQVYWTTMKGLVQDIKKykEINELHSLFKKILQARLLIIDDW 167
                              567799*********************999.****999999999999862256688888999888866666664 PP

>> PhoH  PhoH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0   4.5e-06    0.0054      14      47 ..      92     125 ..      82     141 .. 0.88

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 4.5e-06
                              HHHHH-SEEEEE--TTSSTTHHHHHHHHHHHHTT CS
                     PhoH  14 ealkkndivfaiGpaGtGKtylavalavealkkk 47 
                              + +k+  +v  +G+ GtGKt+l  al+++a+ ++
  PHY93_17660|PHY93_17660  92 DFVKRRGVVLFLGQPGTGKTHLGQALGLKAVARG 125
                              56778899**********************9886 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.1   3.9e-05     0.046       4      32 ..      96     124 ..      91     146 .. 0.86
   2 ?    1.5   0.3      0.27   3.2e+02      91     127 ..     154     194 ..     130     202 .. 0.71

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 3.9e-05
                   AAA_22   4 tagilvvtGesGtGKTtllrrlleqldee 32 
                              ++g+++  G++GtGKT+l + l  +++++
  PHY93_17660|PHY93_17660  96 RRGVVLFLGQPGTGKTHLGQALGLKAVAR 124
                              78999****************99998764 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.27
                   AAA_22  91 v....ielliiDEaqhlr.seealeeLrsllnlsrkgvqliL 127
                              +     +lliiD+   ++   ++ ee+ +ll+ +rk+++ +L
  PHY93_17660|PHY93_17660 154 KkilqARLLIIDDWGVITvDRDVAEEIFDLLD-RRKLTSALL 194
                              34444689999999998655888888888888.455444444 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.1       1.5   1.8e+03      82     119 ..      10      50 ..       3      70 .. 0.47
   2 ?   14.9   0.3   2.2e-05     0.026      25      88 ..      98     159 ..      82     228 .. 0.63

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 1.5
                   AAA_16  82 lrqlldeaesaeleawrekleeala...avpelagaeasrl 119
                              l+ql+ +++++el    ek +++++   +++ l++++ sr 
  PHY93_17660|PHY93_17660  10 LQQLKLRTAASELLTVLEKNKKSVSldwISDLLSRELDSRK 50 
                              44444444455555555544444445553333333333333 PP

  == domain 2  score: 14.9 bits;  conditional E-value: 2.2e-05
                   AAA_16  25 elvllsGesGvGKsslvrellralekd..ggif..lrgkcdqlesaipysalaqalareellrqllde 88 
                              ++vl+ G++G+GK+ l ++l   + ++   +++  ++g  ++      y  + ++    +l++++l++
  PHY93_17660|PHY93_17660  98 GVVLFLGQPGTGKTHLGQALGLKAVARgdQVYWttMKGLVQDI---KKYKEINELH---SLFKKILQA 159
                              79***************99986665554424442122222222...3333333333...455555444 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.0       1.2   1.4e+03      15      56 ..      39      84 ..      36      91 .. 0.68
   2 ?   13.2   0.0   8.1e-05     0.097       1      69 [.     100     158 ..     100     198 .. 0.61

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 1.2
                   AAA_18 15 akeLskrlgfgvnlrdvakenglllevdpe.......aldeskrldedk 56
                             ++ Ls++l   +  +++a +++++  ++pe       ++d +k + e+k
  PHY93_17660|PHY93_17660 39 SDLLSREL---DSRKELALQGRIRRARFPEvktiesfKFDFNKTIPEEK 84
                             56677774...77789999999999999999555555555555555555 PP

  == domain 2  score: 13.2 bits;  conditional E-value: 8.1e-05
                   AAA_18   1 IlltGtpGvGKttlakeLskrlgfgvnlrdvakenglllevdpealdeskrldedkldklldaleenss 69 
                              +l  G pG+GKt l+++L  +         va+ ++ +++  +     +++ + +  ++l+++++++ +
  PHY93_17660|PHY93_17660 100 VLFLGQPGTGKTHLGQALGLK--------AVARGDQVYWTTMKG--LVQDIKKYKEINELHSLFKKILQ 158
                              6789**************544........455555555555555..33333333333344444444433 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   1.5   0.00024      0.29       2      95 ..     100     190 ..      99     203 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00024
                              EEEE--SSSSHHHHHHHG.GGGBS--EEEEE--TT--HHHHH--B--.........--------G-SEEEEES..GGG--HHHHHH CS
                    AAA_5   2 vlLvGppGtgKselaerl.aaalnreveyvqltrdtteedlkgrreikngttslvdsplvraaregeilvlDE..veraesevlns 84 
                              vl +G+pGtgK+ l + l ++a+ r  +++  t +   +d+k   ei       +  +l +++ ++++l++D+  v +++++v+++
  PHY93_17660|PHY93_17660 100 VLFLGQPGTGKTHLGQALgLKAVARGDQVYWTTMKGLVQDIKKYKEI------NELHSLFKKILQARLLIIDDwgVITVDRDVAEE 179
                              799***********999844555444444443333344455544444......667788888888999999964477788999999 PP

                              HHHHHHSSEEE CS
                    AAA_5  85 Llslleerrll 95 
                                 ll++r+l 
  PHY93_17660|PHY93_17660 180 IFDLLDRRKLT 190
                              99999999876 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.4   0.00017      0.21      17     111 ..      96     183 ..      91     195 .. 0.65

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00017
                   AAA_30  17 gdrvavltGpAGtGKttalkalreaweaaggrviglAptgkaAkvLaeelgieastiakllkrlkgrarlepgtllivDEagmv.. 100
                              ++ v++  G +GtGKt++ +al   + a+g +v   + +g + +++++    e + +++l k+      + +++lli+D  g++  
  PHY93_17660|PHY93_17660  96 RRGVVLFLGQPGTGKTHLGQALGLKAVARGDQVYWTTMKGLV-QDIKKYK--EINELHSLFKK------ILQARLLIIDDWGVItv 172
                              5569999*************9977777778888776666543.4444332..33455555522......33456777777776544 PP

                   AAA_30 101 dtkqlaallka 111
                              d + ++++++ 
  PHY93_17660|PHY93_17660 173 DRDVAEEIFDL 183
                              55556666555 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   8.2e-05     0.098       1      68 [.      99     158 ..      99     211 .. 0.71

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 8.2e-05
                   AAA_33   1 lvllvGlpGsGKstlaerllkklgavllssdtlrrrlfgtdqqsktdytrvldrlyqilnelarkals 68 
                              +vl+ G pG+GK++l + l   l+av     ++ ++++g  +q++++y+++     + l+ l++k l+
  PHY93_17660|PHY93_17660  99 VVLFLGQPGTGKTHLGQALG--LKAVARGDQVYWTTMKGL-VQDIKKYKEI-----NELHSLFKKILQ 158
                              89*************99986..666666666666677664.4445555553.....333344444444 PP

>> DNApol3-delta_C  DNA polymerase III, delta subunit, C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.6   0.00028      0.33      12      48 ..       8      43 ..       4      55 .. 0.89
   2 ?    1.5   0.1      0.34   4.1e+02      59      93 ..     125     160 ..     111     163 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00028
                             HHH.HHHHHHT--GGGHHHHSSTTHHHHHHHHHHHHH CS
          DNApol3-delta_C 12 qalkalalkrrdllsllpllnkedalerleWLlslLl 48
                             q+l ++ + r+ + +ll +l+k+++ + l+W++ lL+
  PHY93_17660|PHY93_17660  8 QQL-QQLKLRTAASELLTVLEKNKKSVSLDWISDLLS 43
                             788.7778899**********************9996 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.34
                              ..--S-TT-HHHHHHHHHHS-HHHHHHHHHHHHHHH CS
          DNApol3-delta_C  59 e.qlvnqdqlplikqlakrlsiekLlkilqkllelr 93 
                                q++ + ++ l++ + k  +i+ L+ + +k+l++r
  PHY93_17660|PHY93_17660 125 GdQVYWTTMKGLVQDIKKYKEINELHSLFKKILQAR 160
                              446666778889999999999**********99987 PP

>> MCM  MCM P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   0.00017       0.2      59     128 ..      99     173 ..      83     187 .. 0.84

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00017
                              EEEEEESSTSTHHHHHHHHHHHSSSEEEEESSSSSSSHSSSEEEEESSSSS......EEEEETHHHHTTTSEEEEE CS
                      MCM  59 nvllvgdpgtaKsqlLkyveklapravytsgkgssaagLtaavvrdeetge......fvleaGalvladkGvcciD 128
                               vl++g pgt+K++l +++  l   a   +   ++  gL+  +++ +e +e       +l+a  l++ d Gv+ +D
  PHY93_17660|PHY93_17660  99 VVLFLGQPGTGKTHLGQALG-LKAVARGDQVYWTTMKGLVQDIKKYKEINElhslfkKILQARLLIIDDWGVITVD 173
                              489***********999887.5556666677788999****9999999888666655689**************99 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   0.1      0.37   4.4e+02      91     122 ..      20      51 ..       6      67 .. 0.78
   2 ?    8.2   0.3    0.0018       2.2       2      23 ..      99     120 ..      98     134 .. 0.83
   3 ?    4.3   0.6     0.028        33      73     138 ..     146     207 ..     133     217 .. 0.70

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.37
                              TT-SS-TCH.........HHHHHCTTTTT--E CS
                    NACHT  91 DelvtdlgqkekqpvrtlLselirkkllpeas 122
                               el t l++++k  + +++s+l++++l ++  
  PHY93_17660|PHY93_17660  20 SELLTVLEKNKKSVSLDWISDLLSRELDSRKE 51 
                              56666677788888899999999998866655 PP

  == domain 2  score: 8.2 bits;  conditional E-value: 0.0018
                              CEEEEC-TTTCHHHHHHHHHHH CS
                    NACHT   2 lvilqGeaGsGKTtLlqklala 23 
                              +v+  G++G GKT+L q l l+
  PHY93_17660|PHY93_17660  99 VVLFLGQPGTGKTHLGQALGLK 120
                              68999**********9988655 PP

  == domain 3  score: 4.3 bits;  conditional E-value: 0.028
                              HHHHCCSCCCEE....EEEE-STT-SS-TCH.........HHHHHCTTTTT--EEEEEEECCCHHHHCTT CS
                    NACHT  73 wavllelperlL....lilDglDelvtdlgqkekqpvrtlLselirkkllpeasllltvrpralrdleeq 138
                              +++l +l++++L    li+D+   +  d +        + + +l+ +  l++a ll +  +ra+++ ++ 
  PHY93_17660|PHY93_17660 146 INELHSLFKKILqarlLIIDDWGVITVDRDV------AEEIFDLLDRRKLTSALLLTS--NRAVEEWPQV 207
                              4556666777777776****99999875555......89999****977776666655..4555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (250 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       751  (0.0418874); expected 358.6 (0.02)
Passed bias filter:                      621  (0.0346366); expected 358.6 (0.02)
Passed Vit filter:                        96  (0.00535445); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.42
# Mc/sec: 1777.57
//
Query:       PHY93_17665|PHY93_17665  [L=219]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0067   15.7   0.0      0.014   14.7   0.0    1.5  1  tify      tify domain


Domain annotation for each model (and alignments):
>> tify  tify domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.0   7.8e-07     0.014       3      15 ..      74      86 ..      73      87 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 7.8e-07
                     tify  3 asaQLTIFYgGkV 15
                             +++QL IFY+Gk+
  PHY93_17665|PHY93_17665 74 NKNQLSIFYNGKM 86
                             689*********9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (219 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       498  (0.0277762); expected 358.6 (0.02)
Passed bias filter:                      325  (0.0181271); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.42
# Mc/sec: 1576.72
//
Query:       PHY93_17670|PHY93_17670  [L=268]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.1e-10   41.8   0.0      2e-10   40.9   0.0    1.4  1  rve           Integrase core domain
    0.00069   19.1   0.2     0.0024   17.4   0.2    1.9  2  Sigma70_r4    Sigma-70, region 4
  ------ inclusion threshold ------
      0.013   15.3   0.5       0.15   11.9   0.2    2.4  2  HTH_23        Homeodomain-like domain
      0.013   15.0   0.3      0.023   14.2   0.3    1.4  1  GerE          Bacterial regulatory proteins, luxR family
      0.024   14.6   1.0      0.097   12.6   0.3    2.2  2  HTH_36        Helix-turn-helix domain
      0.045   13.4   0.2       0.14   11.9   0.1    1.9  2  Sigma70_r4_2  Sigma-70, region 4
       0.05   13.7   0.1        3.9    7.6   0.0    2.9  3  HTH_22        HTH domain
       0.11   12.6   0.0       0.19   11.9   0.0    1.4  1  Sigma70_r3    Sigma-70 region 3
       0.15   11.5   0.0       0.34   10.4   0.0    1.5  1  HTH_Tnp_ISL3  Helix-turn-helix domain of transposase family I
       0.17   11.5   0.7       0.47   10.1   0.7    1.8  1  HTH_50        Helix-turn-helix domain


Domain annotation for each model (and alignments):
>> rve  Integrase core domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.9   0.0   1.1e-13     2e-10       2     105 ..     145     261 ..     144     265 .. 0.94

  Alignments for each domain:
  == domain 1  score: 40.9 bits;  conditional E-value: 1.1e-13
                      rve   2 trpgelwqvDvt.....vvripdgggkayllvvvddfsrlilaealsdemdastvlalleravarfggvepervlsDngseytsk. 81 
                              ++pge +  D+      + +++++++ +++l+ v+ +sr++ +  ++++ + + + a++e  +  +ggv p+r++sDn ++++   
  PHY93_17670|PHY93_17670 145 HKPGEALLLDWGllrhvHDPVSNKKRSVWFLAGVLGHSRYMAVRLVWSN-SVEETMAAIESIFNELGGV-PLRITSDNPKCFATTa 228
                              67888888888877777889999999***********************.*******************.*************889 PP

                      rve  82 .........afrefladlgirvsftrpgrpqdn 105
                                       a+++f++ +g+ ++  +p++p+ +
  PHY93_17670|PHY93_17670 229 skyeailnpAMERFASYYGVILECLPPYDPEKK 261
                              9*****************************987 PP

>> Sigma70_r4  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.2   1.3e-06    0.0024      14      44 ..      15      45 ..      10      47 .. 0.88
   2 ?   -2.3   0.0       1.8   3.3e+03       9      23 ..      88     111 ..      87     112 .. 0.68

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 1.3e-06
                             HHHHTTT--HHHHHHHHTS-HHHHHHHHHHH CS
               Sigma70_r4 14 elrfgeglTleEIgerlgiSrerVrqiekrA 44
                             + +f +  ++ +I++ lgiS+ r++ i ++A
  PHY93_17670|PHY93_17670 15 VESFIQRKSHNQIAKALGISKKRIKAIRTKA 45
                             45789999*******************9988 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 1.8
                              HHHHHHHHH.........TTT--H CS
               Sigma70_r4   9 erevlelrf.........geglTl 23 
                              ++  +e rf         +e+++l
  PHY93_17670|PHY93_17670  88 QKSYIEDRFtagwspitvYEEMPL 111
                              667788999777666666777766 PP

>> HTH_23  Homeodomain-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.2   8.5e-05      0.15      10      40 ..      14      44 ..       2      53 .. 0.73
   2 ?    0.6   0.0       0.3   5.4e+02      29      45 ..     113     130 ..     111     133 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 8.5e-05
                   HTH_23 10 illllaeGlsvreIAreLgvsrrTvyrwlkr 40
                             ++  + +++s  +IA++Lg+s+  +  ++ +
  PHY93_17670|PHY93_17670 14 VVESFIQRKSHNQIAKALGISKKRIKAIRTK 44
                             44444569**************999877755 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.3
                   HTH_23  29 vsrrTvyrwlkryre.eG 45 
                               s    yr lk+y+  eG
  PHY93_17670|PHY93_17670 113 TSLASFYRFLKKYKLnEG 130
                              577889*******63365 PP

>> GerE  Bacterial regulatory proteins, luxR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.3   1.3e-05     0.023       7      42 ..      11      46 ..       9      47 .. 0.90

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 1.3e-05
                             HHHHHHHHCTTS-HHHHHHHHTS-HHHHHHHHHHHH CS
                     GerE  7 ErevLrllaeGksnkeIAeelniSekTVkvhksnim 42
                             Er+v + +++ ks ++IA++l+iS+k +k+ ++ ++
  PHY93_17670|PHY93_17670 11 ERKVVESFIQRKSHNQIAKALGISKKRIKAIRTKAQ 46
                             89999999999***************9999888765 PP

>> HTH_36  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.3   5.4e-05     0.097      29      55 .]      25      51 ..      19      51 .. 0.93
   2 ?   -0.6   0.0      0.76   1.4e+03      22      37 ..     233     248 ..     217     248 .. 0.63

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 5.4e-05
                   HTH_36 29 etlakrlglsknTvsraikeLeqlGyi 55
                               +ak+lg+sk+ +  +  +  ++Gy+
  PHY93_17670|PHY93_17670 25 NQIAKALGISKKRIKAIRTKAQKYGYV 51
                             57************************6 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.76
                   HTH_36  22 ggcfpsqetlakrlgl 37 
                               + +p +e++a+ +g+
  PHY93_17670|PHY93_17670 233 AILNPAMERFASYYGV 248
                              3345559999999885 PP

>> Sigma70_r4_2  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.1   7.7e-05      0.14      16      45 ..      12      40 ..      11      47 .. 0.85
   2 ?   -3.0   0.0       3.4   6.1e+03      12      22 ..      77      87 ..      77      88 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 7.7e-05
                             HHHHHHHHTS---HHHHHHHHT--HHHHHH CS
             Sigma70_r4_2 16 reifllryleglsykEIAellgisegtVks 45
                             r++++  +++ +s+ +IA+ lgis + +k 
  PHY93_17670|PHY93_17670 12 RKVVES-FIQRKSHNQIAKALGISKKRIKA 40
                             777777.9****************999886 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 3.4
                             -HHHHHHHHHH CS
             Sigma70_r4_2 12 perqreifllr 22
                             p+ ++e++ll+
  PHY93_17670|PHY93_17670 77 PPSESEAILLK 87
                             88999***997 PP

>> HTH_22  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.6   0.0    0.0022       3.9      38      55 ..      18      35 ..      16      38 .. 0.89
   2 ?   -2.4   0.0         3   5.3e+03      51      63 .]     111     123 ..     111     123 .. 0.87
   3 ?    2.6   0.0     0.082   1.5e+02      41      56 ..     169     184 ..     167     185 .. 0.93

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.0022
                   HTH_22 38 FllkgavekvAekLgiSr 55
                             F  +++ +++A++LgiS+
  PHY93_17670|PHY93_17670 18 FIQRKSHNQIAKALGISK 35
                             66799************8 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 3
                   HTH_22  51 LgiSraTvYryLr 63 
                              L+ S a+ Yr L+
  PHY93_17670|PHY93_17670 111 LKTSLASFYRFLK 123
                              788999****996 PP

  == domain 3  score: 2.6 bits;  conditional E-value: 0.082
                   HTH_22  41 kgavekvAekLgiSra 56 
                              k++v ++A  Lg Sr+
  PHY93_17670|PHY93_17670 169 KRSVWFLAGVLGHSRY 184
                              99************97 PP

>> Sigma70_r3  Sigma-70 region 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0    0.0001      0.19      24      69 ..      25      70 ..       7      74 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.0001
                             HHHHHHHTXXHHHHHHHHHHHXXXEETTXBSSSSTTXBSTTTXBXS CS
               Sigma70_r3 24 eEiAeeLglseekVrevleaarepvSldlpvgeeedtelgdlledd 69
                               iA++Lg+s ++++ +   a+++  +d+++  +    +++l +dd
  PHY93_17670|PHY93_17670 25 NQIAKALGISKKRIKAIRTKAQKYGYVDTEALTSLPPFPETLFPDD 70
                             67**************************999877666666666666 PP

>> HTH_Tnp_ISL3  Helix-turn-helix domain of transposase family ISL3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0   0.00019      0.34      15      47 ..       9      41 ..       8      41 .. 0.94

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00019
             HTH_Tnp_ISL3 15 rleayilelllesrsvkavArqlgvSwtTVwri 47
                             ++e++++e+ ++++s  ++A+ lg+S ++++ i
  PHY93_17670|PHY93_17670  9 AMERKVVESFIQRKSHNQIAKALGISKKRIKAI 41
                             589**************************9976 PP

>> HTH_50  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.7   0.00026      0.47      11      48 ..      10      49 ..       6      51 .. 0.85

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00026
                   HTH_50 11 fErelikkayekYpStRklAkrLGvSht...aianklrkYg 48
                             +Er+++++++++ +S   +Ak+LG+S+    ai  k++kYg
  PHY93_17670|PHY93_17670 10 MERKVVESFIQR-KSHNQIAKALGISKKrikAIRTKAQKYG 49
                             799999999977.9************954448899999998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (268 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       828  (0.0461822); expected 358.6 (0.02)
Passed bias filter:                      732  (0.0408277); expected 358.6 (0.02)
Passed Vit filter:                        86  (0.0047967); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 1963.20
//
Query:       PHY93_05405|PHY93_05405  [L=383]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.2e-17   62.7   2.8    3.7e-17   62.5   0.4    2.2  2  TPP_enzyme_C  Thiamine pyrophosphate enzyme, C-terminal TPP b
    1.9e-11   43.9   0.0    4.4e-11   42.7   0.0    1.5  1  TPP_enzyme_N  Thiamine pyrophosphate enzyme, N-terminal TPP b


Domain annotation for each model (and alignments):
>> TPP_enzyme_C  Thiamine pyrophosphate enzyme, C-terminal TPP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.1      0.13   1.2e+03      33      51 ..      51      68 ..      46      94 .. 0.67
   2 !   62.5   0.4   4.1e-21   3.7e-17      20     152 ..     233     353 ..     220     354 .. 0.89

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 0.13
                             HHHHHHHHHHHSTTSEEEE CS
             TPP_enzyme_C 33 glpaAiGaklakpdrevva 51
                             ++++A Ga +a  +r vv 
  PHY93_05405|PHY93_05405 51 AVAIAAGATVA-GKRAVVM 68
                             56666666665.2334443 PP

  == domain 2  score: 62.5 bits;  conditional E-value: 4.1e-21
                              EEEC.ETTTS-TTTHHHHHHHHHHHSTTSEEEEEEEHHHHHHTGGGHHHHHHTT-.SEEEEEEE-SBCCCHHHHHHHHTCCTTTTS CS
             TPP_enzyme_C  20 sylt.sgglgtmGyglpaAiGaklakpdrevvaivGDGgflmilqelatavrrnl.pitvvvlnNegygmtggqqepfggkrksgp 103
                               +++  ++ g+mG +l++++G++l kp+ +vv+i GDG++lm    +at+  ++  ++++++++Ne+   tggq + +gg      
  PHY93_05405|PHY93_05405 233 DLHNqFYMVGSMGCALAFGLGIALTKPNLKVVVIDGDGALLMRTGTMATVGAYRPkNLVHILIDNEAHDSTGGQGTVTGG------ 312
                              455555689*****************************************999999******************998886...... PP

                              BB.BS----HHHHHHHTTSE.EEEESSH.HHHHHHHHHHHHCSSSEEEEE CS
             TPP_enzyme_C 104 agkdlkpvdfaklaealGak.garvekadveeleealkealekkgpalie 152
                                     v+f ++a+++G + +++  +++++ ++++l e  ++k +++i+
  PHY93_05405|PHY93_05405 313 -------VSFGAIARGFGYEqVYS--TDKLDAFKNILNEVKNTKASTFIH 353
                              .......7899*********8888..5556******************98 PP

>> TPP_enzyme_N  Thiamine pyrophosphate enzyme, N-terminal TPP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.7   0.0   4.9e-15   4.4e-11      12     162 ..      12     164 ..       9     173 .. 0.81

  Alignments for each domain:
  == domain 1  score: 42.7 bits;  conditional E-value: 4.9e-15
                              HHCT--EEEE---CCCHHHHCCHHCT.TSEEEE-SSHHHHHHHHHHHHHHHTS-EEEEE-CHH.HHHHCHHHHHHHHHHT--EEEE CS
             TPP_enzyme_N  12 kalgvehvfgvpGsrilplldalseeqgirvvlarhEqgaafaAdgyaratgkpgvvlvtsgp.GatnaltalaeAkvdriPllvl 96 
                              ++lg + + g p+s ++p+++++ + +g++++ +++E+ a+++A g   a ++ +v +  sg  +a+n lt+l   ++ ++P+ v+
  PHY93_05405|PHY93_05405  12 RELGFNFFTGTPCSYLKPFINYVIDTDGFDFIDSVNEGEAVAIAAGATVAGKRAVVMFQNSGLgNAVNPLTSL--TYTFNLPVMVI 95 
                              57899999**************************************987765555555555775677777777..7888******* PP

                              EEE--CCCHHS..TC--T......-CCHHHCCCSSEEEE-SSGGGHHHHHHHHHHHHHSSS--EEEEEEEHH CS
             TPP_enzyme_N  97 sgdrptslrgqgvlqqel......dqlalfrpvtkyaervtspeelpealrrAirtalsgrpgPvylelpkd 162
                              +  r++    ++ +q+el      d l+ ++   k+a++++  +++ +al+ A + + +++++P + +  kd
  PHY93_05405|PHY93_05405  96 TTLRGEPGGAHDEPQHELmgqittDLLEAMK--LKWAFFPNIESDIMPALKLADDYM-KSTNQPFVFVMRKD 164
                              ****999888666666666653555555555..69***************9999999.77888887777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (383 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       476  (0.0265492); expected 358.6 (0.02)
Passed bias filter:                      426  (0.0237604); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.41
# Mc/sec: 2795.37
//
Query:       PHY93_17675|PHY93_17675  [L=237]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (237 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       383  (0.021362); expected 358.6 (0.02)
Passed bias filter:                      245  (0.013665); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1760.54
//
Query:       PHY93_17680|PHY93_17680  [L=321]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0076   16.3   0.3      0.014   15.4   0.3    1.4  1  RB_B      Retinoblastoma-associated protein B domain


Domain annotation for each model (and alignments):
>> RB_B  Retinoblastoma-associated protein B domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.3   8.1e-07     0.014      66     123 ..      23      79 ..      13      81 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 8.1e-07
                     RB_B  66 akvt.keelsFkeiikaYrkqpqasskvyrsvllkkrekeeeekeeseeeergdiikFY 123
                                 + +++++++eii+++ k+++ + ++ +sv+++k+++ + ++   ++ ++gdi+k Y
  PHY93_17680|PHY93_17680  23 LDYHvQKNVELQEIIRSFVKKDTPQDSISESVFITKKKNINIKD--WDNLKKGDIVKLY 79 
                              444558999**************************988775555..4599*******99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (321 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       776  (0.0432818); expected 358.6 (0.02)
Passed bias filter:                      432  (0.024095); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.22s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 2358.31
//
Query:       PHY93_17685|PHY93_17685  [L=59]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.079   12.6   0.0      0.079   12.6   0.0    1.1  1  MASE3     Membrane-associated sensor domain
      0.087   12.7   0.4       0.13   12.2   0.4    1.3  1  Beta-APP  Beta-amyloid peptide (beta-APP)


Domain annotation for each model (and alignments):
>> MASE3  Membrane-associated sensor domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   8.8e-06     0.079      35      73 ..       4      42 ..       1      57 [. 0.77

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 8.8e-06
                    MASE3 35 tknnyllflGiaflfvglldllHtlsykgmpiftessan 73
                             ++++ ++f+G++++++++ld    l+++ ++  +++++n
  PHY93_17685|PHY93_17685  4 INRRSFMFIGTSVFITACLDARKSLTVTKLGPGKKTGSN 42
                             67889*******************999988755444443 PP

>> Beta-APP  Beta-amyloid peptide (beta-APP)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.4   1.4e-05      0.13      21      38 ..      39      56 ..      36      57 .. 0.92

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 1.4e-05
                 Beta-APP 21 vGSNKGAIIGLMVGGVVI 38
                              GSN  AI GL + GV I
  PHY93_17685|PHY93_17685 39 TGSNTQAIAGLAIAGVAI 56
                             6***************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (59 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       290  (0.0161749); expected 358.6 (0.02)
Passed bias filter:                      210  (0.0117129); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.38u 0.22s 00:00:00.60 Elapsed: 00:00:00.39
# Mc/sec: 454.83
//
Query:       PHY93_17690|PHY93_17690  [L=45]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    8.6e-15   53.8   0.8    9.4e-15   53.7   0.8    1.0  1  MttA_Hcf106  mttA/Hcf106 family


Domain annotation for each model (and alignments):
>> MttA_Hcf106  mttA/Hcf106 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.7   0.8   5.2e-19   9.4e-15       1      42 [.       4      45 .]       4      45 .] 0.97

  Alignments for each domain:
  == domain 1  score: 53.7 bits;  conditional E-value: 5.2e-19
                             S-HHHHHHHHHHHHHHS-TTTHHHHHHHHHHHHHHHHHHHHH CS
              MttA_Hcf106  1 lgapelliIlvValllFGpkkLPEvaraLGktLreFkkavke 42
                             lg+ ell+I+    l FGpkk+PE+a+++G++++eFk+a k+
  PHY93_17690|PHY93_17690  4 LGIGELLLIFGLLCLFFGPKKIPELAKGMGQAIKEFKNARKD 45
                             69*************************************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (45 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       386  (0.0215294); expected 358.6 (0.02)
Passed bias filter:                      343  (0.019131); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.21s 00:00:00.60 Elapsed: 00:00:00.40
# Mc/sec: 339.71
//
Query:       PHY93_17695|PHY93_17695  [L=517]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      2e-09   37.6   0.4      2e-09   37.6   0.4    3.3  3  Pectate_lyase_3  Pectate lyase superfamily protein
  ------ inclusion threshold ------
      0.018   14.7   0.6       0.46   10.2   0.2    3.1  3  End_N_terminal   N terminal extension of bacteriophage endosi


Domain annotation for each model (and alignments):
>> Pectate_lyase_3  Pectate lyase superfamily protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.6   0.4   2.2e-13     2e-09       1      61 [.      60     117 ..      60     144 .. 0.88
   2 ?    0.3   2.2     0.059   5.3e+02     161     211 ..     177     227 ..     160     231 .. 0.65
   3 ?    1.3   2.8     0.028   2.5e+02     124     195 ..     322     390 ..     257     417 .. 0.57

  Alignments for each domain:
  == domain 1  score: 37.6 bits;  conditional E-value: 2.2e-13
                              SEEGGGGT---EEEEE-HHHHHHHH......HTSS-E.EE-SEEEEESS-EEE-SSEEEEES CS
          Pectate_lyase_3   1 frnVkdyGakgDGvtDdtaaiqkaiscasatttgavV.YfPaGtYlvsspiilksgvqLvGd 61 
                              f++Vkd+Ga gDGv+Ddt aiq+ai  +s  ++g++V Yf   + lv+  +i+ks+++L G 
  PHY93_17695|PHY93_17695  60 FVSVKDFGAIGDGVADDTPAIQAAI--DSLLPGGGTVhYFD--KHLVNADLIIKSNITLKGP 117
                              79***********************..999***99998887..69**************995 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.059
                              -EEES-SS-SEEES-EEEEEES-EEE-S--SEEE-T.T-EEEEEEEEEESSS CS
          Pectate_lyase_3 161 lvfsglgdigiavgnqqftvrnitfnnattgievlw.gwgwtlknvkinnce 211
                                ++g gd+ + v +    +++ +++n+++  ++++ + + t  +++innc+
  PHY93_17695|PHY93_17695 177 TAITGSGDDTFVVNSMILGFNKAYYSNNCQRSKIQKtNIDCTN-GIEINNCY 227
                              4577889999999766666677777776666666643333444.67777776 PP

  == domain 3  score: 1.3 bits;  conditional E-value: 0.028
                              EEEEEEEES-SSEEE-SSS---TT---SS--EEEEES-EEES-SS-SEEES-EEEEEES-EEE-S--SEEE- CS
          Pectate_lyase_3 124 taqatslenvefemseasgtkhqgifiengsggflndlvfsglgdigiavgnqqftvrnitfnnattgievl 195
                               +qa+  en  f++s+a+   h+++ +  +   + n+ v    gd  i+ g q  t + it+nn+   i ++
  PHY93_17695|PHY93_17695 322 NCQAAAQEN-GFYVSTAA-SVHTRL-MGCDTWACTNHGVLISSGDVCITGGIQRDTPNGITINNSVSIITID 390
                              333333333.35555555.344433.3333333446666666699999999999999999999977777665 PP

>> End_N_terminal  N terminal extension of bacteriophage endosialidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.2   5.1e-05      0.46       1      19 [.      68      86 ..      68      94 .. 0.88
   2 ?    0.9   0.0     0.042   3.8e+02      21      47 ..     247     273 ..     232     281 .. 0.77
   3 ?   -3.5   0.0         1   9.1e+03      26      36 ..     505     515 ..     499     516 .. 0.84

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 5.1e-05
                             ---EEEEE-HHHHHHHHHH CS
           End_N_terminal  1 akGDGvtdDtdalsevlaa 19
                             a+GDGv dDt a+++++ +
  PHY93_17695|PHY93_17695 68 AIGDGVADDTPAIQAAIDS 86
                             89************99865 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 0.042
                              -TTS-EE-TT-EEEESS---GGGEES- CS
           End_N_terminal  21 pvgkkidGrGltykvssLPDisrfkna 47 
                               +   ++  G  +k +++ D ++  n 
  PHY93_17695|PHY93_17695 247 GGATSLQRTGCAFKFTTVGDWNKVTNC 273
                              4456677789************99995 PP

  == domain 3  score: -3.5 bits;  conditional E-value: 1
                              EE-TT-EEEES CS
           End_N_terminal  26 idGrGltykvs 36 
                              + G+G+ y vs
  PHY93_17695|PHY93_17695 505 VYGNGAWYEVS 515
                              5699*999998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (517 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       516  (0.0287802); expected 358.6 (0.02)
Passed bias filter:                      349  (0.0194657); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.59u 0.25s 00:00:00.84 Elapsed: 00:00:00.44
# Mc/sec: 3517.49
//
Query:       PHY93_17700|PHY93_17700  [L=514]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.7e-08   32.7   0.2    0.00011   22.2   0.0    2.6  2  DUF4214   Domain of unknown function (DUF4214)


Domain annotation for each model (and alignments):
>> DUF4214  Domain of unknown function (DUF4214)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   2.9e-07    0.0052      24      71 ..     406     454 ..     403     455 .. 0.91
   2 !   22.2   0.0   6.1e-09   0.00011       1      70 [.     442     508 ..     442     509 .. 0.93

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 2.9e-07
                  DUF4214  24 vttlYqnvldRepDsaGlnywadqLksgaetR.eevllgfaeSaEfkel 71 
                              ++  Y+ +l R p s +   w++ +++ a+++ ++++l+f++S+Ef+++
  PHY93_17700|PHY93_17700 406 IKRFYKILLLRIPSSIEITNWENYVQQTAINKsKNLALQFLNSTEFQNR 454
                              6789*************************9983579**********985 PP

  == domain 2  score: 22.2 bits;  conditional E-value: 6.1e-09
                  DUF4214   1 AssllaseeFaerygaelsdeeFvttlYqnvldRepDsaGlnywadqLksgaetReevllgfaeSaEfke 70 
                              A ++l+s+eF++r    ++ +e  + +Yq +l R p s++ n +a+ +++ + t ++v  ++++S+Ef +
  PHY93_17700|PHY93_17700 442 ALQFLNSTEFQNRWVL-MTPNEKAKVMYQGFLFRIPSSTEENGFATFISG-L-TNTQVYDAILDSQEFSN 508
                              789**********999.999999**********************99976.5.79*************75 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (514 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       475  (0.0264934); expected 358.6 (0.02)
Passed bias filter:                      386  (0.0215294); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.59u 0.22s 00:00:00.81 Elapsed: 00:00:00.43
# Mc/sec: 3556.46
//
Query:       PHY93_17705|PHY93_17705  [L=934]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.4e-05   24.8   2.4    6.3e-05   23.5   0.2    2.7  3  B_lectin  D-mannose binding lectin
  ------ inclusion threshold ------
      0.044   13.8   0.3       0.32   11.2   0.3    2.7  1  BNR       BNR/Asp-box repeat


Domain annotation for each model (and alignments):
>> B_lectin  D-mannose binding lectin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.5   0.2   7.1e-09   6.3e-05      13      73 ..      68     125 ..      61     142 .. 0.82
   2 ?   -1.4   0.0      0.38   3.4e+03      13      40 ..     130     158 ..     126     181 .. 0.73
   3 ?   -1.5   0.1      0.41   3.7e+03      68     104 ..     295     331 ..     275     337 .. 0.70

  Alignments for each domain:
  == domain 1  score: 23.5 bits;  conditional E-value: 7.1e-09
                 B_lectin  13 kdssgvlkisedgnLvllnesksvvwstssssssakntvaqLldsGnLvlesssnseevlW 73 
                              kdss +l++++dgnLvl+n+  + +w + ++     n  a+++d+GnLv+ +++n+ +v++
  PHY93_17705|PHY93_17705  68 KDSSFKLAMQSDGNLVLYNG-ATPLWNS-ATVGLCLNCKAEMQDDGNLVI-TNENTMQVVF 125
                              789999***********998.899****.88889999*************.6666665555 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.38
                 B_lectin  13 kdssgvlkisedg.nLvllnesksvvwst 40 
                              +++s+ l++s++   L ++++s+sv+w+ 
  PHY93_17705|PHY93_17705 130 NNTSCILHFSKTEpFLRMSEGSESVLWTG 158
                              56777888887553588888889999986 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 0.41
                 B_lectin  68 seevlWqsfdhptdtllpgmklglnkktglerrltsw 104
                              +++vl q  d  ++ ++  ++   n++ g +++ +sw
  PHY93_17705|PHY93_17705 295 EKTVLTQINDSTSNLIFYATSTYNNHQIGNKKSSISW 331
                              5566666666666666666666666666766666666 PP

>> BNR  BNR/Asp-box repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.3   3.5e-05      0.32       3      11 ..     649     657 ..     647     658 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 3.5e-05
                              ESSTTSS-E CS
                      BNR   3 StDgGktWs 11 
                              StD+GktWs
  PHY93_17705|PHY93_17705 649 STDQGKTWS 657
                              9*******9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (934 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       457  (0.0254894); expected 358.6 (0.02)
Passed bias filter:                      337  (0.0187964); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.75u 0.23s 00:00:00.98 Elapsed: 00:00:00.46
# Mc/sec: 6157.04
//
Query:       PHY93_17710|PHY93_17710  [L=139]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (139 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       602  (0.0335769); expected 358.6 (0.02)
Passed bias filter:                      400  (0.0223102); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.42
# Mc/sec: 1002.43
//
Query:       PHY93_17715|PHY93_17715  [L=77]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (77 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       319  (0.0177924); expected 358.6 (0.02)
Passed bias filter:                      227  (0.0126611); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.36u 0.23s 00:00:00.59 Elapsed: 00:00:00.38
# Mc/sec: 605.31
//
Query:       PHY93_17720|PHY93_17720  [L=103]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
  ------ inclusion threshold ------
        0.1   11.9   0.0       0.11   11.7   0.0    1.0  1  Phage_GPD  Phage late control gene D protein (GPD)


Domain annotation for each model (and alignments):
>> Phage_GPD  Phage late control gene D protein (GPD)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   6.3e-06      0.11      41      75 ..      30      71 ..      15      88 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 6.3e-06
                Phage_GPD 41 skrvihGlvteaeqvga.......dgrlarYrltlrPwlwll 75
                             +  +++Gl t+++ + +       ++++  Y++t +P+lw+ 
  PHY93_17720|PHY93_17720 30 GATYWSGLKTSFSYLYQgsylqfqEKNNLYYTATAVPALWFS 71
                             479*********8765555676634445559*********96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (103 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       468  (0.026103); expected 358.6 (0.02)
Passed bias filter:                      369  (0.0205812); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.24s 00:00:00.67 Elapsed: 00:00:00.43
# Mc/sec: 726.75
//
Query:       PHY93_05410|PHY93_05410  [L=658]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.7e-50  170.8   0.0    4.9e-50  170.0   0.0    1.5  1  Peptidase_M13    Peptidase family M13
    4.6e-34  118.7   5.9    8.4e-34  117.9   5.9    1.4  1  Peptidase_M13_N  Peptidase family M13
  ------ inclusion threshold ------
      0.029   14.5   0.2         13    5.9   0.1    2.7  2  Sedlin_N         Sedlin, N-terminal conserved region


Domain annotation for each model (and alignments):
>> Peptidase_M13  Peptidase family M13
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  170.0   0.0   8.2e-54   4.9e-50       1     205 []     464     657 ..     464     657 .. 0.96

  Alignments for each domain:
  == domain 1  score: 170.0 bits;  conditional E-value: 8.2e-54
            Peptidase_M13   1 NAyYqpeensivfpaailqppffdleypeavNyggiGaviaHEltHgfddqgvqfdkegnlaswltdedaeefkekakclieqfse 86 
                              NA+Yq++ n+ +++ +ilq pf+d++ +e  N++g+G+v++HEl+H+ ddqg ++d +g+l++w+t++d ++fke +k li+q+s+
  PHY93_05410|PHY93_05410 464 NAFYQSSYNQFTMLQGILQYPFYDQKSSEIENLAGVGMVVGHELGHAIDDQGSKYDADGKLRDWMTAKDLKKFKELTKSLIDQYSK 549
                              9***********************************************************************************86 PP

            Peptidase_M13  87 vtepektkavngaltlgEniADlggleiAyraykklksakeerlpelenltkdqlfFisyAqiwcekqsdeellrqllvdvHspae 172
                                       +nga tlgEni+Dl+gl++Ay a      +  + + e +  t+++ fF +yA++wce q +     +l  d+Hs + 
  PHY93_05410|PHY93_05410 550 A-------GMNGAYTLGENIGDLVGLTAAYDASF----SPANTASEADLKTQKKNFFLNYARSWCEVQLPGVRDLRLKSDPHSLGV 624
                              3.......36********************9866....688888999999****************999999999*********** PP

            Peptidase_M13 173 lRvngvlsnlpaFaeaFnckegskmypekekrv 205
                               Rvn+v++ +  F+eaFnc   ++m+++ e+rv
  PHY93_05410|PHY93_05410 625 ARVNEVVKHFAGFKEAFNCLDSDPMVLSAEQRV 657
                              **************************9999886 PP

>> Peptidase_M13_N  Peptidase family M13
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  117.9   5.9   1.4e-37   8.4e-34       1     373 [.      38     399 ..      38     404 .. 0.86

  Alignments for each domain:
  == domain 1  score: 117.9 bits;  conditional E-value: 1.4e-37
          Peptidase_M13_N   1 PCdDFYeyaCGnWlkehpipadkssyg.tfeelqeelekqlreileekpsskedakavkkaktlYksCmdedaieklglkplldll 85 
                              PC++ Ye+aC + +++ ++ ad+++ + +f++ +e++ +  +++++e +s+++d++   ++k++Y sCm+++a+ k+  + +++++
  PHY93_05410|PHY93_05410  38 PCENLYEHACSKTIESFQLRADRRRHSfAFSDSAERILEFKKNYIKELTSKEADSPVSGQIKNFYISCMNKEARAKEESSEIQKMM 123
                              9**********************997626*******99778999977777776665666*******************9******* PP

          Peptidase_M13_N  86 kelggldsnwkdkfdllellaklrrygidilfslgvdpdpkdpsknvlyldqpglglpdreyylkerdekeeeileaykeylakll 171
                              ++ +++    ++k+d+l++ a+  + g + +++++ + ++ d +k  l l+++   lp+++y       k+ee+++a +  +++ +
  PHY93_05410|PHY93_05410 124 EDQKKI----TNKKDWLKSQAEKIHSGKSGFIGYSATDNFDDARKSDLMLSPGYSLLPEKSYA------KNEELIKALEVLVTDYF 199
                              *****8....57889999999855567789***99999999999889****777789988886......57889************ PP

          Peptidase_M13_N 172 kllgee.aaelaeevvefekklakit.ldseerrdpeklynpmtlaelqklapqidwkaylsallertsssekvivtepeylkkls 255
                              +  g++  ++ a+ v+++e +  +   ++ e r  + ++ + +t +el k +p +++k +l++ +++   ++ v  ++p+ +  l+
  PHY93_05410|PHY93_05410 200 NTIGADrPTDRAKTVLKYEIDQQNNRfYPVEAR-IAYSQRRFVTKKELIKKYPDLQLKVFLNQ-IPD---TTLVRNMNPKTIPFLN 280
                              *9998745779*********9999994555555.555555779******767**********9.775...5777778999999999 PP

          Peptidase_M13_N 256 kllaettpkrtlanYllwrlvrelapylsdefrdakfefyk.tlsgreerpr.wkrCvsqvnsllgmalgrlyvkkyfpeeskkdv 339
                              k+ +   +++ l++  ++  +++ ++   ++f d++f f +  l g+++r++  ++C+ ++ + +g    +l   k fp+ s ++v
  PHY93_05410|PHY93_05410 281 KIAKD-YSLDELKTLEMFYEFKSKLDQGYPKFYDEAFVFANkFLGGKNKRSElDEECTTLAMHRFGAEFDYLVLPKMFPNFSSEKV 365
                              99975.777777777555555555666789999999***9977778888866488*****9999********************** PP

          Peptidase_M13_N 340 eemvedikeafkerlkeldWmdeetkkkAleKld 373
                               ++v +ik++   +l++++W+++  kk+A++K++
  PHY93_05410|PHY93_05410 366 ADLVGKIKSSILTSLSKNTWLTPPAKKEAERKIS 399
                              ********************************97 PP

>> Sedlin_N  Sedlin, N-terminal conserved region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.9   0.1    0.0022        13      29     108 ..     148     273 ..     115     284 .. 0.79
   2 ?    5.7   0.0    0.0024        15      59     116 ..     459     562 ..     442     566 .. 0.88

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.0022
                 Sedlin_N  29 nqfilhasLDivedlqwk.............................................tnnlylgkvdkf..eklsvsayv 67 
                              + fi +++ D ++d+  +                                              + +   ++d+     + v a +
  PHY93_05410|PHY93_05410 148 SGFIGYSATDNFDDARKSdlmlspgysllpeksyakneelikalevlvtdyfntigadrptdrAKTVLKYEIDQQnnRFYPVEARI 233
                              557777777777777777777777777777777777777777777777778888888877774455555589988656789***** PP

                 Sedlin_N  68 tnskikflllhesssskkkdekikqffqevhelyvktlmnP 108
                               +s+ +f+  +e   +k  d ++k f++++ ++ +   mnP
  PHY93_05410|PHY93_05410 234 AYSQRRFVTKKE-LIKKYPDLQLKVFLNQIPDTTLVRNMNP 273
                              ********9999.888999*************999999999 PP

  == domain 2  score: 5.7 bits;  conditional E-value: 0.0024
                 Sedlin_N  59 eklsvsayvtnskikflllhes..............................................ssskkkdekikqffqevh 98 
                              e l v+a+   s  +f +l++                                                ++ k+ +k k++ + + 
  PHY93_05410|PHY93_05410 459 EPLEVNAFYQSSYNQFTMLQGIlqypfydqksseienlagvgmvvghelghaiddqgskydadgklrdWMTAKDLKKFKELTKSLI 544
                              66889999999999999999999999999999999999999999999999999999999999999997778888899********* PP

                 Sedlin_N  99 elyvktlmnPFykvneei 116
                              + y k  mn  y  +e+i
  PHY93_05410|PHY93_05410 545 DQYSKAGMNGAYTLGENI 562
                              *********999998887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (658 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1276  (0.0711696); expected 358.6 (0.02)
Passed bias filter:                      668  (0.0372581); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.76u 0.25s 00:00:01.01 Elapsed: 00:00:00.44
# Mc/sec: 4475.51
//
Query:       PHY93_17725|PHY93_17725  [L=203]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      3e-19   69.7  12.1      3e-19   69.7  12.1    1.5  2  FA_hydroxylase  Fatty acid hydroxylase superfamily


Domain annotation for each model (and alignments):
>> FA_hydroxylase  Fatty acid hydroxylase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.1      0.29   5.2e+03      50      62 ..      26      37 ..      11      52 .. 0.45
   2 !   69.7  12.1   1.7e-23     3e-19       1     133 []      58     197 ..      58     197 .. 0.80

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 0.29
           FA_hydroxylase 50 leallla.llllll 62
                             +  + l  ++ ++l
  PHY93_17725|PHY93_17725 26 I--IPLVvWVPVIL 37
                             2..22221222222 PP

  == domain 2  score: 69.7 bits;  conditional E-value: 1.7e-23
           FA_hydroxylase   1 lllallledfveYwvHr.llHrvk......llwrrlHkvHHsseaptalaalrahpleallla.llllllllllg.plsalll.vl 76 
                              +++++ll++++eY++Hr ++H+++       ++  +H +HH++++    ++l + p+ a+++  ll+ll  ++++ +   +++ ++
  PHY93_17725|PHY93_17725  58 FVFGILLWTLTEYVLHRfVFHWNSksaagkYFVFLFHGLHHDDPQ--DPTRLVMPPVPAIIIVyLLWLLFSAVFPaRYIDVIMgYF 141
                              6899******************5556655448888******5555..5568889999999988444444444554555555556** PP

           FA_hydroxylase  77 vlaallelliHsglhvslgwllerllatpraHrlHHskneegnfgvllslwDrlfgT 133
                              ++++l++ +iH++ ++++ ++++  +  +++H  HH+  e++ +gv+++lwD++f+T
  PHY93_17725|PHY93_17725 142 LIGYLCYDYIHYA-THHFAMTSPIGKYLRKYHLQHHYAGERSRYGVSSPLWDYIFKT 197
                              *************.45566666777899***************************99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (203 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       727  (0.0405488); expected 358.6 (0.02)
Passed bias filter:                      359  (0.0200234); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.20s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1539.42
//
Query:       PHY93_17730|PHY93_17730  [L=228]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (228 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       466  (0.0259914); expected 358.6 (0.02)
Passed bias filter:                      387  (0.0215851); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.18s 00:00:00.65 Elapsed: 00:00:00.37
# Mc/sec: 1835.18
//
Query:       PHY93_17735|PHY93_17735  [L=304]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    8.8e-17   61.2   0.0    1.3e-16   60.6   0.0    1.2  1  LysR_substrate  LysR substrate binding domain
    9.5e-16   57.5   0.0    1.7e-15   56.7   0.0    1.5  1  HTH_1           Bacterial regulatory helix-turn-helix protein
  ------ inclusion threshold ------
      0.086   13.0   0.2        5.7    7.1   0.1    2.3  2  Chorein_N       N-terminal region of Chorein or VPS13


Domain annotation for each model (and alignments):
>> LysR_substrate  LysR substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.6   0.0   2.2e-20   1.3e-16       3     202 ..      88     283 ..      86     286 .. 0.93

  Alignments for each domain:
  == domain 1  score: 60.6 bits;  conditional E-value: 2.2e-20
                              TSCEEEEEEEECCCHHHHHHHHHHHHHHHSTTEEEEEEEESHHHHHHHHHTTSSSEEEEESSS.CCTTEEEEEEEEEEEEEEEETT CS
           LysR_substrate   3 glrgrLrigapptlaryllppllarfraryPevelelvegdseelldllaegelDlairagpp.edsglearpLaeeplvlvaspd 87 
                              g++ +Lri++  +   +l+ ++l++f   +P  +l+l+ +  +  l++l +ge+D+ai+  +   d +++a pL +  +++v++++
  PHY93_17735|PHY93_17735  88 GEEVELRISVDAVSPVSLILKFLKQFFSNHPLTRLQLSFEVLNGTLERLVDGEVDFAITPMHGrGDWSVDALPLTKTVIIPVMHAE 173
                              66679*********************************************************9988888***************** PP

                              SGGGGSSSECGGGGCTSEEEEESTTSTHHHHHHHHHHCTTEECEEEEEESSHHHHHHHHHTTS-BEEEEGGGHHCCCHTTTEEEEE CS
           LysR_substrate  88 hpLargepvsledLadeplilleegsglrdlledalreaglkprvalevnsleallalvaaGlGiallprsavrdeladgrlvalp 173
                                L +g++v+   L++++ i l ++s++   +        l+   ++++++++  ++++++GlG++ lp  +v+ ela + lv + 
  PHY93_17735|PHY93_17735 174 --LIKGRKVTDLILREYNQIILADSSRHTKKMSTGI----LEGGKSITLSEVSFKKEMILQGLGWGGLPYEMVKSELAKNILVPIK 253
                              ..9**99***************99999999998553....33467999***********************************999 PP

                              ESSTTCE.EEEEEEEETTCCCHHHHHHHHH CS
           LysR_substrate 174 lpepplp.relylvyrkgrelspavrafid 202
                               p    + +e++lv+ +++ l p +r ++d
  PHY93_17735|PHY93_17735 254 TPLIKEReMEIFLVRDPKKSLGPVARELWD 283
                              99987777********************98 PP

>> HTH_1  Bacterial regulatory helix-turn-helix protein, lysR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.7   0.0   2.9e-19   1.7e-15       1      60 []       3      62 ..       3      62 .. 0.97

  Alignments for each domain:
  == domain 1  score: 56.7 bits;  conditional E-value: 2.9e-19
                             HHHHHHHHHHHHHSSHHHHHHHHTS-HHHHHHHHHHHHHHHTS-SEEESSSEEEE-HHHH CS
                    HTH_1  1 lrqlrlfvavaeegsftrAAeeLglsqpavsrqikrLEeelgvpLfeRtgrglrLTeaGe 60
                             l+q+ + +a+++egsf +AA+ L+ sqp++s++ik+LEee +  Lf R+  + +LT +G+
  PHY93_17735|PHY93_17735  3 LEQILTIEAIVQEGSFKAAADFLHKSQPSISMAIKKLEEEYQIILFSRDEYRPTLTNEGR 62
                             689999******************************************999*******97 PP

>> Chorein_N  N-terminal region of Chorein or VPS13
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   0.0     0.011        65       7      34 ..     104     133 ..     102     136 .. 0.83
   2 ?    7.1   0.1   0.00095       5.7      22      71 ..     200     254 ..     179     267 .. 0.80

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.011
                Chorein_N   7 kllnryLgeyv..enldrdqlkvslwsGev 34 
                              +l+ ++L++++  + l+r ql++++++G +
  PHY93_17735|PHY93_17735 104 SLILKFLKQFFsnHPLTRLQLSFEVLNGTL 133
                              5778999***97677899999999999986 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.00095
                Chorein_N  22 rdqlkvslwsG..eveLenlkLkkealdk.l...elPfevkegvigklrlkipwsn 71 
                              +++++ ++++G  +++L ++++kke++ + l   +lP e++++ + k  + +p+++
  PHY93_17735|PHY93_17735 200 TKKMSTGILEGgkSITLSEVSFKKEMILQgLgwgGLPYEMVKSELAKN-ILVPIKT 254
                              67899999999899***********99997888889***999999874.6666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (304 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       486  (0.0271069); expected 358.6 (0.02)
Passed bias filter:                      440  (0.0245412); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.50u 0.25s 00:00:00.75 Elapsed: 00:00:00.42
# Mc/sec: 2196.08
//
Query:       PHY93_17740|PHY93_17740  [L=187]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.5e-27   96.2   4.3    3.2e-27   95.9   4.3    1.1  1  YceI      YceI-like domain


Domain annotation for each model (and alignments):
>> YceI  YceI-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   95.9   4.3   1.8e-31   3.2e-27       2     145 ..      24     186 ..      24     187 .] 0.87

  Alignments for each domain:
  == domain 1  score: 95.9 bits;  conditional E-value: 1.8e-31
                              EE-CCC-EEEE........-EEEEECTECCEEEE..TTT.EEEEEEEEGGGEES.......S.HCHHHHHHCTCTT-TTT--EEEE CS
                     YceI   2 tldpahssvtftvkhlgvskvtGrfkkvsgelsvdeddpessvevtidvasidt.......gnakrdehlksadffdvakyPtatF 80 
                              ++dpa+s++   +k+ +++++tG++k  sg l++  +d  + +e++id++si++        ++k+ +h+ s+dff+v+k+ ta++
  PHY93_17740|PHY93_17740  24 EIDPAASKLVYLAKK-VTGQHTGEVKLSSGHLNFA-KDSLKGGEFEIDMTSITNndltdkdYHKKFIDHMISDDFFSVEKFKTAKL 107
                              59*******976665.44599************94.4444569*********996666665666778******************* PP

                              CCCCEE........EEEEEEETTEEEEEEEEEEEEEEECCEECEEEEEGGGGTC............TTTC-SEEEEEEEEE CS
                     YceI  81 vstsve......akvtGdLtikGvtkpvtlpvtvngaaagfsatgtidrtdFGlkr..........galvgdeveleiele 145
                              v ++v+      +kvtGdLtikG+t pvt+++ +++   + +a++t+drt++++k+          ++++ dev+l++ l+
  PHY93_17740|PHY93_17740 108 VLKTVKkekadtYKVTGDLTIKGITAPVTFDAVATK--EKATAKVTFDRTKYDIKYgsgkfsptlgDKMIYDEVQLDVVLT 186
                              999999999***99********************86..4479***********999999******99*********99887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (187 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       636  (0.0354733); expected 358.6 (0.02)
Passed bias filter:                      338  (0.0188521); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1388.20
//
Query:       PHY93_17745|PHY93_17745  [L=174]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.5e-15   57.1   0.1    1.7e-15   56.9   0.1    1.1  1  Pribosyltran  Phosphoribosyl transferase domain
     0.0039   16.7   0.0     0.0051   16.3   0.0    1.2  1  UPRTase       Uracil phosphoribosyltransferase
  ------ inclusion threshold ------
      0.023   14.2   0.0      0.041   13.4   0.0    1.4  1  PRTase_2      Phosphoribosyl transferase


Domain annotation for each model (and alignments):
>> Pribosyltran  Phosphoribosyl transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.9   0.1   2.9e-19   1.7e-15       4     129 ..      26     154 ..      23     169 .. 0.86

  Alignments for each domain:
  == domain 1  score: 56.9 bits;  conditional E-value: 2.9e-19
                              HTTT---EEEEEEETTEEEEEE--GGGEEEEEEETTTHHHHHHHHHHSTT-EE-EEEEEE-TTT--EE.............EE--- CS
             Pribosyltran   4 ellenpaildavarlaaeileeyngkpdvvvgiargGvpfakiladeLevplayvrkvkyrpdgseeaargssdes.....rlled 84 
                              +ll+ pa l+a  + +a ++++    +d+v+gi+ +G++++ +la +L++ +  vrk+ + p+++ +++  ++  s     +  ++
  PHY93_17745|PHY93_17745  26 TLLKDPAGLKATIDQLALKYKD--APIDYVAGIEARGFILGAALAYALGLGFIPVRKKGKLPGKTITQSYDLEYGSdtieiHHDAL 109
                              5667777666655555555555..799*****************************************97765555999**9**** PP

                              -TTSEEEEE-SEESSSHHHHHHHHHHHCC-BSEEEEEEEEE-HHH CS
             Pribosyltran  85 pagkkVliVDDildtGgTllaalelLkekgpeevriavlvdkpat 129
                               +g +Vl++DD+++tGgT + a+ l++++g ++ ++a +vd p+ 
  PHY93_17745|PHY93_17745 110 HEGAIVLLIDDLIATGGTAIGAITLIEKVGGKIYETAFVVDLPEL 154
                              ***************************************987765 PP

>> UPRTase  Uracil phosphoribosyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0   8.5e-07    0.0051     123     151 ..     106     142 ..      76     162 .. 0.75

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 8.5e-07
                  UPRTase 123 t........vlllDpviaTGgsaaaaiqlLkergvge 151
                              +        vll+D +iaTGg+a+ ai l+ + g + 
  PHY93_17745|PHY93_17745 106 HdalhegaiVLLIDDLIATGGTAIGAITLIEKVGGKI 142
                              0444555559********************9977665 PP

>> PRTase_2  Phosphoribosyl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   6.8e-06     0.041     114     163 ..     105     153 ..      98     171 .. 0.73

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 6.8e-06
                 PRTase_2 114 deellaaakelvLvDDEistGktalnliralqeklprkryvvvslvdwrs 163
                              ++++l++ + ++L+DD i+tG ta+  i+ +++ +  k y ++ +vd+ +
  PHY93_17745|PHY93_17745 105 HHDALHEGAIVLLIDDLIATGGTAIGAITLIEK-VGGKIYETAFVVDLPE 153
                              567888899999**************9987765.4455555555555544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (174 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       258  (0.0143901); expected 358.6 (0.02)
Passed bias filter:                      235  (0.0131073); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 1313.86
//
Query:       PHY93_17750|PHY93_17750  [L=193]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.028   13.7   0.4      0.033   13.5   0.4    1.2  1  7tm_1     7 transmembrane receptor (rhodopsin family)


Domain annotation for each model (and alignments):
>> 7tm_1  7 transmembrane receptor (rhodopsin family)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.4   1.8e-06     0.033      87     188 ..      32     134 ..      12     183 .. 0.71

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 1.8e-06
                              HHSTTTHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHCEECCCTTTT.CCEEECSSST..HHHHHHHHHHHHTHHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    7tm_1  87 ivkplkykrkrtkrravllillvWvlslllsvpllvletvetnaedt.tkdCqittle..esvyiifsavlsfilPllvivilyar 169
                              +++ ++  +       +  +++vW+lsll  v  +v++++ +  +   tk   ++     e v++   a +sf+  l++ ++l ++
  PHY93_17750|PHY93_17750  32 VTDFMNKTTSGLGWDIFGWVFIVWILSLLYLVTKMVFSKTIR--DVVmTKLAGMKERDerEAVVAGSAAKFSFLSTLALLLFLFIF 115
                              55666666666666677899******************9943..333345555555444455555666667777777777777777 PP

                              HHHHHHHHHCHHHHSHCCH CS
                              xxxxxxxxxxxxxxxxxxx RF
                    7tm_1 170 ifrtvlktsrtktskskng 188
                               + tv  +++ k+ ++k+g
  PHY93_17750|PHY93_17750 116 SVTTVTVNKHPKDLNHKRG 134
                              7777777776666666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (193 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       872  (0.0486363); expected 358.6 (0.02)
Passed bias filter:                      420  (0.0234257); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 1439.31
//
Query:       PHY93_17755|PHY93_17755  [L=75]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.3e-14   54.0   0.1    1.4e-14   53.8   0.1    1.1  1  HTH_3           Helix-turn-helix
    9.6e-10   38.3   0.1    1.2e-09   38.1   0.1    1.1  1  HTH_19          Helix-turn-helix domain
    2.6e-07   30.9   0.0    3.3e-07   30.6   0.0    1.1  1  HTH_31          Helix-turn-helix domain
      4e-06   26.7   0.1    5.8e-06   26.2   0.1    1.2  1  HTH_37          Helix-turn-helix domain
    1.2e-05   25.7   0.0    1.3e-05   25.5   0.0    1.1  1  HTH_26          Cro/C1-type HTH DNA-binding domain
    2.5e-05   23.7   0.0    3.9e-05   23.1   0.0    1.3  1  HTH_24          Winged helix-turn-helix DNA-binding
    3.4e-05   23.7   0.2    5.1e-05   23.1   0.2    1.3  1  HTH_11          HTH domain
    0.00034   20.1   0.0    0.00067   19.1   0.0    1.4  1  Sigma70_r4      Sigma-70, region 4
    0.00044   20.2   0.0    0.00066   19.6   0.0    1.3  1  HTH_Crp_2       Crp-like helix-turn-helix domain
    0.00069   19.4   0.0    0.00087   19.1   0.0    1.2  1  HTH_25          Helix-turn-helix domain
     0.0019   17.8   0.0     0.0028   17.3   0.0    1.3  1  GntR            Bacterial regulatory proteins, gntR family
     0.0037   17.0   0.0     0.0057   16.5   0.0    1.3  1  HTH_AsnC-type   AsnC-type helix-turn-helix domain
     0.0054   16.3   0.0      0.008   15.7   0.0    1.3  1  HTH_CodY        CodY helix-turn-helix domain
     0.0065   16.3   0.0     0.0084   16.0   0.0    1.2  1  YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitox
     0.0066   16.3   0.0      0.017   15.0   0.0    1.7  2  MarR            MarR family
  ------ inclusion threshold ------
      0.019   14.7   0.0      0.031   14.1   0.0    1.3  1  HTH_23          Homeodomain-like domain
      0.025   14.5   0.0       0.04   13.8   0.0    1.2  1  MarR_2          MarR family
      0.028   14.5   0.0      0.031   14.4   0.0    1.1  1  Phage_CI_repr   Bacteriophage CI repressor helix-turn-helix d
      0.039   13.7   0.0      0.073   12.8   0.0    1.3  1  HTH_38          Helix-turn-helix domain
      0.049   13.3   0.0      0.092   12.4   0.0    1.4  1  Crp             Bacterial regulatory proteins, crp family
       0.09   12.6   0.1       0.23   11.3   0.1    1.8  2  HTH_10          HTH DNA binding domain
       0.11   12.6   0.4       0.24   11.5   0.3    1.5  2  HTH_7           Helix-turn-helix domain of resolvase


Domain annotation for each model (and alignments):
>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.8   0.1   1.8e-17   1.4e-14       4      55 .]      17      68 ..      14      68 .. 0.95

  Alignments for each domain:
  == domain 1  score: 53.8 bits;  conditional E-value: 1.8e-17
                             HHHHTTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHHHH CS
                    HTH_3  4 lRkqlglsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvsldel 55
                             lR +++++q+eLA+k+Gv+r+t++++E+G  nPsle +++l+ +++  ++e+
  PHY93_17755|PHY93_17755 17 LRAEKKITQQELADKIGVTRATVNALEKGNYNPSLELAFRLSLYFKKNIQEI 68
                             799*******************************************999885 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.1   0.1   1.5e-12   1.2e-09       7      64 ..      17      73 ..      14      74 .. 0.96

  Alignments for each domain:
  == domain 1  score: 38.1 bits;  conditional E-value: 1.5e-12
                   HTH_19  7 aReelgltqeelaerlgisrskisaiEngkkdvpsaelllkiaealgidleyllqged 64
                             +R e+++tq+ela+++g++r+  +a+E+g++ +ps el  +++ +++ +++++++ e+
  PHY93_17755|PHY93_17755 17 LRAEKKITQQELADKIGVTRATVNALEKGNY-NPSLELAFRLSLYFKKNIQEIFHVEE 73
                             799****************************.**********************9875 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.6   0.0     4e-10   3.3e-07       6      50 ..      14      57 ..      10      59 .. 0.90

  Alignments for each domain:
  == domain 1  score: 30.6 bits;  conditional E-value: 4e-10
                   HTH_31  6 LralReraGLsqeevAerlgvsestlsrlEqGrrgrpspavleal 50
                              + lR++  ++q+e+A+ +gv+++t++ lE G   +ps++   +l
  PHY93_17755|PHY93_17755 14 IHVLRAEKKITQQELADKIGVTRATVNALEKGNY-NPSLELAFRL 57
                             6779******************************.6**9987776 PP

>> HTH_37  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.2   0.1   7.1e-09   5.8e-06      15      56 ..       4      47 ..       2      51 .. 0.85

  Alignments for each domain:
  == domain 1  score: 26.2 bits;  conditional E-value: 7.1e-09
                             HHHHHHHH..HHHHHHHCT--HHHHHHHHT--HHHHHHHHTT-- CS
                   HTH_37 15 aKaqlala..iaeliekrelsqseaaqllgiaqPkvsrllrgkl 56
                             +K++l+l+  i  l+++++++q+e+a + g++++ v++l++g+ 
  PHY93_17755|PHY93_17755  4 LKTRLILTnqIHVLRAEKKITQQELADKIGVTRATVNALEKGNY 47
                             4555555555*******************************996 PP

>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.5   0.0   1.6e-08   1.3e-05       2      41 ..      14      52 ..      13      73 .. 0.81

  Alignments for each domain:
  == domain 1  score: 25.5 bits;  conditional E-value: 1.6e-08
                   HTH_26  2 LrelmadrgitkseLargtgisaatlsrlvkgkpervsld 41
                             + +l a+++it++eLa ++g+++at++ l kg   ++sl+
  PHY93_17755|PHY93_17755 14 IHVLRAEKKITQQELADKIGVTRATVNALEKGN-YNPSLE 52
                             56899***************************8.577776 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.1   0.0   4.8e-08   3.9e-05      11      36 ..      16      41 ..      14      42 .. 0.92

  Alignments for each domain:
  == domain 1  score: 23.1 bits;  conditional E-value: 4.8e-08
                   HTH_24 11 lLqknprisqreLAerlglSpstvnr 36
                             +L+++ +i+q+eLA+++g++++tvn+
  PHY93_17755|PHY93_17755 16 VLRAEKKITQQELADKIGVTRATVNA 41
                             689999******************96 PP

>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.1   0.2   6.2e-08   5.1e-05       6      32 ..      14      39 ..       7      41 .. 0.83

  Alignments for each domain:
  == domain 1  score: 23.1 bits;  conditional E-value: 6.2e-08
                   HTH_11  6 lelLleargpisgeeLAeeLnvSrrtv 32
                             ++ L +a+++i+ +eLA++++v+r+tv
  PHY93_17755|PHY93_17755 14 IHVL-RAEKKITQQELADKIGVTRATV 39
                             4567.56666****************9 PP

>> Sigma70_r4  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   8.2e-07   0.00067      14      42 ..      16      44 ..      11      45 .. 0.91

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 8.2e-07
                             HHHHTTT--HHHHHHHHTS-HHHHHHHHH CS
               Sigma70_r4 14 elrfgeglTleEIgerlgiSrerVrqiek 42
                             +lr +++ T++E++++ g++r +V  +ek
  PHY93_17755|PHY93_17755 16 VLRAEKKITQQELADKIGVTRATVNALEK 44
                             689999******************99997 PP

>> HTH_Crp_2  Crp-like helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   0.0   8.1e-07   0.00066      20      39 ..      21      40 ..       4      43 .. 0.82

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 8.1e-07
                             EEHHHHHHHHHTTSSHHHHH CS
                HTH_Crp_2 20 lpltqeelAsmlGltretvs 39
                              ++tq+elA+ +G+tr tv+
  PHY93_17755|PHY93_17755 21 KKITQQELADKIGVTRATVN 40
                             579****************9 PP

>> HTH_25  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   1.1e-06   0.00087       5      36 ..      17      48 ..      13      56 .. 0.92

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 1.1e-06
                             HHHTTT--HHHHHHHSS--HHHHHHHHCT--T CS
                   HTH_25  5 aRearglsleevaketkIrkdylealEeddfd 36
                              R +++++ +e+a+++ +  +++ alE+++++
  PHY93_17755|PHY93_17755 17 LRAEKKITQQELADKIGVTRATVNALEKGNYN 48
                             699***************************97 PP

>> GntR  Bacterial regulatory proteins, gntR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   0.0   3.5e-06    0.0028      17      42 ..      16      40 ..       5      44 .. 0.88

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 3.5e-06
                             SS-TTSB---HHHHHHHHTS-HHHHH CS
                     GntR 17 elrpGdkLPsereLaaefgVsrttvR 42
                             +lr++ k+ +++eLa+++gV+r tv+
  PHY93_17755|PHY93_17755 16 VLRAEKKI-TQQELADKIGVTRATVN 40
                             599*****.***************96 PP

>> HTH_AsnC-type  AsnC-type helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0     7e-06    0.0057       9      35 ..      14      40 ..      14      41 .. 0.93

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 7e-06
            HTH_AsnC-type  9 LeaLqedaRisyaeLAervGlSestvl 35
                             ++ L++  +i+ +eLA+++G++++tv 
  PHY93_17755|PHY93_17755 14 IHVLRAEKKITQQELADKIGVTRATVN 40
                             68999999*****************96 PP

>> HTH_CodY  CodY helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   9.9e-06     0.008       2      27 ..      20      44 ..      19      52 .. 0.87

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 9.9e-06
                 HTH_CodY  2 eGrLtaskiaDriGitrsvivnaLrk 27
                             e ++t  ++aD+iG+tr+  vnaL k
  PHY93_17755|PHY93_17755 20 EKKITQQELADKIGVTRAT-VNALEK 44
                             66789999*********85.8**988 PP

>> YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.0     1e-05    0.0084       8      32 ..      22      46 ..      17      57 .. 0.83

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 1e-05
           YdaS_antitoxin  8 vGgqkaLAealgvsqqaVsqWlkgk 32
                               +q++LA+++gv++++V+ + kg+
  PHY93_17755|PHY93_17755 22 KITQQELADKIGVTRATVNALEKGN 46
                             5689***************997665 PP

>> MarR  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   2.1e-05     0.017      11      35 ..      16      40 ..      11      44 .. 0.87
   2 ?   -1.4   0.0       2.8   2.3e+03      14      28 ..      43      58 ..      39      59 .. 0.73

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 2.1e-05
                             HHHHSTTEEHHHHHHHHTS-HHHHH CS
                     MarR 11 ilyeqgplsvseLakklgvskstvt 35
                              l+ +  ++++eLa+k+gv+++tv 
  PHY93_17755|PHY93_17755 16 VLRAEKKITQQELADKIGVTRATVN 40
                             5677889****************96 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 2.8
                             HSTTEEHH.HHHHHHT CS
                     MarR 14 eqgplsvs.eLakklg 28
                             e+g+ + s eLa +l+
  PHY93_17755|PHY93_17755 43 EKGNYNPSlELAFRLS 58
                             5677777778888876 PP

>> HTH_23  Homeodomain-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   3.8e-05     0.031      11      35 ..      17      40 ..      12      46 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 3.8e-05
                   HTH_23 11 llllae.GlsvreIAreLgvsrrTvy 35
                             l++  e +++++e A++ gv+r Tv 
  PHY93_17755|PHY93_17755 17 LRA--EkKITQQELADKIGVTRATVN 40
                             333..349*****************7 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   4.9e-05      0.04      12      40 ..      15      41 ..      14      43 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 4.9e-05
                             HHHHCTTTSEEEHHHHHHHHTSSHHHHHH CS
                   MarR_2 12 aaLgrrpgrdltvgelarrlglsksavsr 40
                             ++L+++    +t++ela++ g+++++v+ 
  PHY93_17755|PHY93_17755 15 HVLRAEKK--ITQQELADKIGVTRATVNA 41
                             56777776..****************985 PP

>> Phage_CI_repr  Bacteriophage CI repressor helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0   3.8e-05     0.031      14      48 ..      24      59 ..      16      73 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 3.8e-05
                             SCHHHHCCTT--HHHHHHHHHSSS--.HHHHHHHHH CS
            Phage_CI_repr 14 mqkeLAdlLgiakssvstwvrRdffP.gdvvvtcal 48
                             +q+eLAd +g+ +++v  + + +++P  ++  +++l
  PHY93_17755|PHY93_17755 24 TQQELADKIGVTRATVNALEKGNYNPsLELAFRLSL 59
                             588**************9999999997777777666 PP

>> HTH_38  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0     9e-05     0.073      11      38 ..      12      40 ..      12      40 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 9e-05
                   HTH_38 11 eeIerllaeG.lslreIArrLgrspsTIs 38
                             ++I  l+ae+  ++ e A ++g+ + T++
  PHY93_17755|PHY93_17755 12 NQIHVLRAEKkITQQELADKIGVTRATVN 40
                             689***97665****************96 PP

>> Crp  Bacterial regulatory proteins, crp family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   0.00011     0.092       3      20 ..      23      40 ..      22      40 .. 0.92

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.00011
                             --HHHHHHHHTS-HHHHH CS
                      Crp  3 mSRqdIAdylGlTrETVS 20
                              + q++Ad +G Tr TV+
  PHY93_17755|PHY93_17755 23 ITQQELADKIGVTRATVN 40
                             589**************7 PP

>> HTH_10  HTH DNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.5   0.0      0.32   2.6e+02      42      52 ..      14      24 ..      11      25 .. 0.81
   2 ?   11.3   0.1   0.00028      0.23      22      41 ..      21      40 ..      18      44 .. 0.90

  Alignments for each domain:
  == domain 1  score: 1.5 bits;  conditional E-value: 0.32
                   HTH_10 42 ehLrkaeskli 52
                              h+ +ae+k+ 
  PHY93_17755|PHY93_17755 14 IHVLRAEKKIT 24
                             5999*****96 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 0.00028
                   HTH_10 22 RrvtlkeLAkelGIskstls 41
                             +++t +eLA+++G++++t+ 
  PHY93_17755|PHY93_17755 21 KKITQQELADKIGVTRATVN 40
                             899*************9985 PP

>> HTH_7  Helix-turn-helix domain of resolvase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.3   0.00029      0.24      13      38 ..      13      39 ..       6      39 .. 0.85
   2 ?   -2.5   0.0       7.2   5.9e+03       2      10 ..      56      64 ..      47      69 .. 0.60

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00029
                             GGGSSTTTT.--STTTSSSS---SSSS CS
                    HTH_7 13 rvvkLleeG.isiskIAkevnisRsTv 38
                             ++  L++e+ i+ +++A+  +++R+Tv
  PHY93_17755|PHY93_17755 13 QIHVLRAEKkITQQELADKIGVTRATV 39
                             5556677777****************8 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 7.2
                             ---SS-HHH CS
                    HTH_7  2 Rpsklsknd 10
                             R s++ k+ 
  PHY93_17755|PHY93_17755 56 RLSLYFKKN 64
                             444444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (75 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       706  (0.0393775); expected 358.6 (0.02)
Passed bias filter:                      468  (0.026103); expected 358.6 (0.02)
Passed Vit filter:                        70  (0.00390429); expected 17.9 (0.001)
Passed Fwd filter:                        22  (0.00122706); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              22  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.38
# Mc/sec: 587.37
//
Query:       PHY93_17760|PHY93_17760  [L=85]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    2.4e-17   63.0   0.0    2.9e-17   62.8   0.0    1.0  1  BrnT_toxin  Ribonuclease toxin, BrnT, of type II toxin-antito
  ------ inclusion threshold ------
      0.047   12.7   0.0      0.047   12.7   0.0    1.0  1  DUF4552     Domain of unknown function (DUF4552)


Domain annotation for each model (and alignments):
>> BrnT_toxin  Ribonuclease toxin, BrnT, of type II toxin-antitoxin system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.8   0.0   3.2e-21   2.9e-17       1      71 [.       5      78 ..       5      82 .. 0.91

  Alignments for each domain:
  == domain 1  score: 62.8 bits;  conditional E-value: 3.2e-21
               BrnT_toxin  1 WDeaKaasnlkkHgvsfeeaeevfedplalevedrredegEeRfiaiG.tidgrllvvvfteree..kiRiISa 71
                             WD  Ka+sn kkHgv+f ea + + d++ + +    +++ EeR+i iG +i+ rllvvv+ e+++  ++RiIS+
  PHY93_17760|PHY93_17760  5 WDLVKADSNYKKHGVDFYEAMTTWSDENGIDLLNLDDSQLEERWIKIGySIKTRLLVVVYSEKNNgeQLRIISV 78
                             ****************************999998855555**********************976447*****7 PP

>> DUF4552  Domain of unknown function (DUF4552)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   5.3e-06     0.047      68     118 ..      25      75 ..      10      85 .] 0.85

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 5.3e-06
                  DUF4552  68 cdsFvsqnminlLsiDqqrikktfdkcgyDslgdacvvtssdknhstdrli 118
                              + ++  +n i+lL++D+ ++++   k gy   +   vv+ s+kn+  +  i
  PHY93_17760|PHY93_17760  25 MTTWSDENGIDLLNLDDSQLEERWIKIGYSIKTRLLVVVYSEKNNGEQLRI 75 
                              5566789************************99**********98776554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (85 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       390  (0.0217525); expected 358.6 (0.02)
Passed bias filter:                      284  (0.0158403); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.41u 0.20s 00:00:00.61 Elapsed: 00:00:00.39
# Mc/sec: 660.59
//
Query:       PHY93_17765|PHY93_17765  [L=266]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    8.2e-15   55.3   0.1    1.6e-14   54.4   0.1    1.4  1  AAA_22       AAA domain
      4e-06   26.7   0.0    5.2e-06   26.3   0.0    1.2  1  AAA_30       AAA domain
    1.5e-05   25.4   0.6    0.00087   19.7   0.6    2.3  1  AAA_16       AAA ATPase domain
    0.00044   19.6   0.0     0.0006   19.1   0.0    1.1  1  DUF2075      Uncharacterized conserved protein (DUF2075)
    0.00056   19.2   0.1    0.00083   18.6   0.1    1.2  1  PIF1         PIF1-like helicase
    0.00073   19.6   0.5     0.0012   18.9   0.5    1.5  1  AAA_14       AAA domain
     0.0016   19.0   1.0      0.015   15.8   1.0    2.2  1  AAA_18       AAA domain
     0.0016   17.7   0.1     0.0028   16.9   0.1    1.4  1  DAP3         Mitochondrial ribosomal death-associated protein
     0.0029   18.0   0.6     0.0087   16.4   0.6    1.7  1  AAA_19       AAA domain
      0.005   16.5   0.0       0.01   15.6   0.0    1.4  1  AAA_29       P-loop containing region of AAA domain
     0.0064   16.4   0.4      0.013   15.4   0.3    1.5  1  RsgA_GTPase  RsgA GTPase
  ------ inclusion threshold ------
      0.013   15.0   0.0      0.019   14.4   0.0    1.3  1  SMC_N        RecF/RecN/SMC N terminal domain
      0.014   15.3   2.2       0.02   14.8   2.2    1.2  1  ATPase_2     ATPase domain predominantly from Archaea
      0.015   14.8   0.2      0.029   13.9   0.2    1.4  1  AAA_7        P-loop containing dynein motor region
      0.021   14.7   0.1      0.058   13.3   0.1    1.7  1  NTPase_1     NTPase
      0.022   14.1   0.2      0.029   13.7   0.2    1.2  1  DnaB_C       DnaB-like helicase C terminal domain
      0.028   15.0   0.2      0.037   14.5   0.2    1.4  1  ABC_tran     ABC transporter
      0.049   13.6   0.2       0.11   12.4   0.2    1.6  1  AAA_5        AAA domain (dynein-related subfamily)
      0.073   12.0   0.0       0.12   11.4   0.0    1.2  1  MeaB         Methylmalonyl Co-A mutase-associated GTPase MeaB
       0.19   11.3   0.0       0.35   10.4   0.0    1.4  1  AAA_25       AAA domain


Domain annotation for each model (and alignments):
>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.4   0.1   1.7e-17   1.6e-14       3     133 ..      36     156 ..      33     160 .. 0.93

  Alignments for each domain:
  == domain 1  score: 54.4 bits;  conditional E-value: 1.7e-17
                   AAA_22   3 ktagilvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsst.sskdllrellralglelkaerlsseellealeqalr 87 
                              ++ g+ v+tG +G+GK++l+++++   +        ++ ++ + ++  + +  ++l++l++ l+ + +  rl ++el++  ++++r
  PHY93_17765|PHY93_17765  36 QHGGFSVITGNPGVGKSVLIENIQVLGK--------ERNTIVISMSRTMhTYINILKQLAESLKIDVSV-RLLEKELIQVAYNYVR 112
                              5899********************9985........788888888888888******************.**************** PP

                   AAA_22  88 aravielliiDEaqhlrseealeeLrsllnlsrkgvqliLvGtpel 133
                              + ++    +iDEa+ l  +++l++Lr l++   k+  liL+G++el
  PHY93_17765|PHY93_17765 113 DNKT-IYTVIDEAHLL-DMDVLRKLRLLFDQFPKKHNLILFGQREL 156
                              ****.***********.9************999999*******998 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.3   0.0   5.8e-09   5.2e-06      10     112 ..      30     139 ..      19     155 .. 0.71

  Alignments for each domain:
  == domain 1  score: 26.3 bits;  conditional E-value: 5.8e-09
                   AAA_30  10 vealltsgdrvavltGpAGtGKttalkalreaweaaggrviglAptgkaA....kvLaeelgi..eastiakllkrlk.grarlep 88 
                              + ++++++  ++v+tG +G GK+ +++ ++ + ++++  vi ++ t        k+Lae+l i    + ++k l + + + +r ++
  PHY93_17765|PHY93_17765  30 IIQIHSQHGGFSVITGNPGVGKSVLIENIQVLGKERNTIVISMSRTMHTYinilKQLAESLKIdvSVRLLEKELIQVAyNYVRDNK 115
                              3478888999***********************99999999999998765111156667666533777888888777763333344 PP

                   AAA_30  89 gtllivDEagmvdtkqlaallkaa 112
                                  ++DEa ++d++ l++l    
  PHY93_17765|PHY93_17765 116 TIYTVIDEAHLLDMDVLRKLRLLF 139
                              4778**********9999875444 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.7   0.6   9.7e-07   0.00087      10     167 ..      25     148 ..      21     151 .. 0.52

  Alignments for each domain:
  == domain 1  score: 19.7 bits;  conditional E-value: 9.7e-07
                   AAA_16  10 eqLlsalervrsgrpelvllsGesGvGKsslvrellralekdg.giflrgkcdqlesaipysalaqalareellrqlldeaesael 94 
                              +++ ++++ ++s+ ++  +++G++GvGKs l++ ++  l k++  i+++   + +          +++    +l+ql++     + 
  PHY93_17765|PHY93_17765  25 QKIFEIIQ-IHSQHGGFSVITGNPGVGKSVLIENIQ-VLGKERnTIVISMSRTMH----------TYI---NILKQLAES----LK 91 
                              55555555.4455558889*****************.566664366655555555..........223...333333333....11 PP

                   AAA_16  95 eawrekleealaavpelagaeasrllellkrllallsrderplvlvlDdlqwadeaslqllaaLlrllesk.pl 167
                               + + +l+e             + l ++  + +   +   ++++ v+D+++ +d + l  l++L++    k +l
  PHY93_17765|PHY93_17765  92 IDVSVRLLE-------------KELIQVAYNYV---RD-NKTIYTVIDEAHLLDMDVLRKLRLLFDQFPKKhNL 148
                              222222222.............22333333333...33.33366666666666666666666666655544344 PP

>> DUF2075  Uncharacterized conserved protein (DUF2075)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   6.7e-07    0.0006       5     101 ..      42     128 ..      39     150 .. 0.78

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 6.7e-07
                  DUF2075   5 lVtGvaGtGKtvvllnllaeleddeeertavylsvNhplvlvlrealakkeekkkkkeafeklssfinnlsefkkaeekkeepked 90 
                              ++tG++G GK+v+  n+ +    +e++  ++ +s+       + ++la++   k   ++    +++i+ +       +  +++k  
  PHY93_17765|PHY93_17765  42 VITGNPGVGKSVLIENIQVLG--KERNTIVISMSRTMHTYINILKQLAESL--KIDVSVRLLEKELIQVAY------NYVRDNKTI 117
                              8*************9999887..8888888888888877778888888888..333333334445555544......556788999 PP

                  DUF2075  91 vvivDEAhrll 101
                               +++DEAh+l 
  PHY93_17765|PHY93_17765 118 YTVIDEAHLLD 128
                              99******985 PP

>> PIF1  PIF1-like helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.1   9.2e-07   0.00083       2     134 ..      20     147 ..      19     157 .. 0.77

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 9.2e-07
                              --HHHHHHHHHH......HCTS-EEEEESTTSSCHHHHHHHHHHCHCTCCCEEEEESSHHHHHCC.TSEECHHHHT-TTSSS-HHH CS
                     PIF1   2 LneeQkkvfdaiieavlnekgklfFvtGsgGtgKtflwkallkklrsegkivlavAssGvAalllegGrtahsrfkiplekdeest 87 
                              L ++Q+k+f+ i  ++++++g++  +tG  G gK+ l +++    +++++iv+ +  +    +++   + ++   ki++++   ++
  PHY93_17765|PHY93_17765  20 LLSQQQKIFEII--QIHSQHGGFSVITGNPGVGKSVLIENIQVLGKERNTIVISMSRTMHTYINI--LKQLAESLKIDVSVRLLEK 101
                              66899*****99..9**************************999999988988888887777777..4444555677777666665 PP

                              HHHHTSCCCHHHHHC-SEEEEECGGGSBHHHHHHHHHHHHHHCT-.. CS
                     PIF1  88 ckikrgsklaellkktsliiwDEapmverecfealdrtlrdilkeke 134
                                i+   +  +  +kt   ++DEa +++ +++ +l  ++ +  k+++
  PHY93_17765|PHY93_17765 102 ELIQVAYNYVRD-NKTIYTVIDEAHLLDMDVLRKLRLLFDQFPKKHN 147
                              545555544444.56667799*******9999999888877777666 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.5   1.3e-06    0.0012       5     116 ..      41     171 ..      37     193 .. 0.63

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 1.3e-06
                   AAA_14   5 lvitGaRrvGKTtllkqlikellvkkesilyinldderd..........kkladpe............kllelileklke...... 62 
                               vitG   vGK++l++++   l  k+++++ i++ +             +     +            +l+        +      
  PHY93_17765|PHY93_17765  41 SVITGNPGVGKSVLIENIQ-VLG-KERNTIVISMSRTMHtyinilkqlaE-----SlkidvsvrllekELI--------Qvaynyv 111
                              69*************9884.333.56666666666655533333322212.....0222122222112333........2344456 PP

                   AAA_14  63 ..ekktylflDEiqevp.ewekalkslvdeg.knldvivtGSnskl..lskeiatslagr 116
                                +k+ y ++DE++ ++ ++ + l+ l+d+  k+ ++i+ G   ++  ls +++++   r
  PHY93_17765|PHY93_17765 112 rdNKTIYTVIDEAHLLDmDVLRKLRLLFDQFpKKHNLILFGQRELMyyLSMKVNEDIKTR 171
                              669999********9963699999999998877778888887665522344555555555 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   1.0   1.7e-05     0.015       2      91 ..      42     162 ..      42     179 .. 0.72

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 1.7e-05
                   AAA_18   2 lltGtpGvGKttlakeL....skrlgf................................gvnlrdvakenglllevdpe....ald 47 
                              ++tG pGvGK+ l +++    ++r+                                       + + +  + + +d++     +d
  PHY93_17765|PHY93_17765  42 VITGNPGVGKSVLIENIqvlgKERN-TivismsrtmhtyinilkqlaeslkidvsvrllE----KELIQVAYNYVRDNKtiytVID 122
                              59***************66653332.1467777777788888999999999899854441....3333333333333334556666 PP

                   AAA_18  48 eskrldedkldklldaleenssaleegknlvidghlaeleseaa 91 
                              e + ld+d+l kl  ++++ ++     +nl++ g+++ +++ ++
  PHY93_17765|PHY93_17765 123 EAHLLDMDVLRKLRLLFDQFPK----KHNLILFGQRELMYYLSM 162
                              7999999999999999999976....899999999988876555 PP

>> DAP3  Mitochondrial ribosomal death-associated protein 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.1   3.2e-06    0.0028      27      60 ..      42      75 ..      34      94 .. 0.89

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 3.2e-06
                             EEE-SSSSSTTTTHHHHHHHGGGS--EEEEES-G CS
                     DAP3 27 vltGekgsGKSvlLlqalayAlekgwvvlhvpea 60
                             v+tG++g+GKSvl+  +   + e++ +v++ +++
  PHY93_17765|PHY93_17765 42 VITGNPGVGKSVLIENIQVLGKERNTIVISMSRT 75
                             9****************************99876 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.6   9.7e-06    0.0087       8     137 ..      36     153 ..      28     160 .. 0.68

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 9.7e-06
                   AAA_19   8 lkekvllvtaGpGtGKTrvlkhivallvelggvkpeeillvaftgrAakelrerlaalgaeatTiHrlalldfddlltealellee 93 
                               + +  ++t+ pG GK+ +++ i ++l ++++     ++ ++ t +   ++ ++l a  ++++   rl  l+ ++l++ a ++++ 
  PHY93_17765|PHY93_17765  36 QHGGFSVITGNPGVGKSVLIENI-QVLGKERN---TIVISMSRTMHTYINILKQL-AESLKIDVSVRL--LE-KELIQVAYNYVR- 112
                              5667899*********9888765.55555553...45888999999999999999.556667777777..53.444444444433. PP

                   AAA_19  94 aeeekklqeeellivDEfqdvd...elqyrLlkallgekkklllvGD 137
                                ++k++    + ++DE+  +d       rLl   +++k++l+l+G 
  PHY93_17765|PHY93_17765 113 --DNKTI----YTVIDEAHLLDmdvLRKLRLLFDQFPKKHNLILFGQ 153
                              ..34444....999***986554155566666666657888**9996 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   1.1e-05      0.01      17      45 ..      33      61 ..      26      65 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 1.1e-05
                   AAA_29 17 ieidlkgatlltGpsGsGKSTllDAiqal 45
                             i+ +  g+ ++tG+ G+GKS l+  iq+l
  PHY93_17765|PHY93_17765 33 IHSQHGGFSVITGNPGVGKSVLIENIQVL 61
                             444545699**************999876 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.3   1.4e-05     0.013      87     140 ..      25      78 ..      10      93 .. 0.72

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 1.4e-05
                              HTTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCT.T-----S------------ CS
              RsgA_GTPase  87 kegleelkellkd.ktsvlvGqSGvGKStLinallp.elelktgevseklgrGkhT 140
                              ++ +e ++ + ++  +sv+ G+ GvGKS Li++++   +e +t  +s   +r  hT
  PHY93_17765|PHY93_17765  25 QKIFEIIQIHSQHgGFSVITGNPGVGKSVLIENIQVlGKERNTIVISM--SRTMHT 78 
                              4455555555555589****************9987444555555544..455555 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0   2.1e-05     0.019      20      54 ..      34      67 ..      19     138 .. 0.68

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 2.1e-05
                             EETTSSEEEEEESTTSSHHHHHHHHHHHCTT.TTT CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 20 lpfsksftaivGpNGSGKsnlldAilFvLGersak 54
                                + +f++i+G+ G GKs l++ i  vLG++ ++
  PHY93_17765|PHY93_17765 34 HSQHGGFSVITGNPGVGKSVLIENI-QVLGKERNT 67
                             456789*******************.8***76653 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   2.2   2.2e-05      0.02      18     147 ..      36     162 ..      24     174 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 2.2e-05
                 ATPase_2  18 epneiyfiYGpegsGKtaLlkeiienledkdkyviyyialreesiskldefie..eeeekkklekalgiavpkaeleeilkekskl 101
                              +   + +i+G  g+GK+ L+ +i    ++ +  vi ++     +i+ l++  e  + +++ +l ++ +i+v  + +     + +k 
  PHY93_17765|PHY93_17765  36 QHGGFSVITGNPGVGKSVLIENIQVLGKERNTIVISMSRTMHTYINILKQLAEslKIDVSVRLLEKELIQVAYNYV-----RDNKT 116
                              456689****************99999*****99999999999999999983333333333333333333333333.....66777 PP

                 ATPase_2 102 vfkaielllekikkkgkkiiiiiDelqklidlglngaellvkeLln 147
                              ++  i+++     +  +k+ +++D ++k  +l l g+++l++ L  
  PHY93_17765|PHY93_17765 117 IYTVIDEAHLLDMDVLRKLRLLFDQFPKKHNLILFGQRELMYYLSM 162
                              77777777666666667788********999999999999988765 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.2   3.3e-05     0.029      25      81 ..      30      86 ..      22      93 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 3.3e-05
                    AAA_7 25 llelllknkkpvllvGptGtGKtviikdllkkldkekylsltinfsaqtsanqlqdi 81
                             +++ + +++   +++G+ G+GK+v+i+++    +++++++++++ + +t  n l+++
  PHY93_17765|PHY93_17765 30 IIQIHSQHGGFSVITGNPGVGKSVLIENIQVLGKERNTIVISMSRTMHTYINILKQL 86
                             6788888899999***************77777767888888877777776666555 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.1   6.4e-05     0.058       3      30 ..      42      69 ..      41      76 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 6.4e-05
                             EEE--TTSSHHHHHHHHHHHH...GGGE CS
                 NTPase_1  3 fiTGppGvGKtTlvkkvlellkssgvkv 30
                             +iTG+pGvGK+ l++++  l k+++  v
  PHY93_17765|PHY93_17765 42 VITGNPGVGKSVLIENIQVLGKERNTIV 69
                             69**************988888877665 PP

>> DnaB_C  DnaB-like helicase C terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.2   3.2e-05     0.029      17     133 ..      36     149 ..      25     175 .. 0.67

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 3.2e-05
                              XTTXEEEEEEXTTSSHHHHHHHHHHHHHHCSTSEEEEEESSSXHHHHHHHHHHHHHTXXHHHHHHTTSXHHHHHHHHH.HHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxx RF
                   DnaB_C  17 qkgdliiiAarpsmGktalalniaenaavkeklpvavfslemsaeqlvqRllsseaeidskklrtgklkeedweklte.aieelse 101
                              q+g + +i + p++Gk++l  ni     +++++ v+ +s  m++   + + l++  +id +  r   l++ ++ +++   +++ ++
  PHY93_17765|PHY93_17765  36 QHGGFSVITGNPGVGKSVLIENIQV-LGKERNTIVISMSRTMHTYINILKQLAESLKIDVSV-R--LLEK-ELIQVAYnYVRDNKT 116
                              788899**************99976.445677778999999999888899999999998653.2..2333.333333304444444 PP

                              SEEEEEEXSSXCHHHHHHHHHHHHHH..TTEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxx RF
                   DnaB_C 102 aklfiddtpaltvseirskarrlkke..kglgli 133
                                 +id+   l +  +  k+r l  +  k+ +li
  PHY93_17765|PHY93_17765 117 IYTVIDEAHLLDMD-VLRKLRLLFDQfpKKHNLI 149
                              44455555444443.4445666555555555555 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.2   4.2e-05     0.037       8      79 ..      35     114 ..      28     198 .. 0.66

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 4.2e-05
                              EETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEET.TCEGGG........B-HHHCCHCEEEE-SS.--S-TTSBHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxx........xxxxxxxxxxxxxxxx.xxxxxxxxxxxx RF
                 ABC_tran   8 lkegekvaivGenGaGKStLlkllagllkpteGeilld.gkdlke........qeleslrkeigvlpqe.pqlfpeltvren 79 
                               ++g   +i+G+ G GKS L++ +  l k    +i +  ++ +++         e  + + +++ l++e  q+ +++ vr+n
  PHY93_17765|PHY93_17765  35 SQHGGFSVITGNPGVGKSVLIENIQVLGKE-RNTIVISmSRTMHTyinilkqlAESLKIDVSVRLLEKElIQVAYNY-VRDN 114
                              56788889****************999885.6666666355554477555422222222333333333333333333.4444 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.2   0.00013      0.11       3      85 ..      42     135 ..      41     143 .. 0.60

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.00013
                              EEE--SSSSHHHHHHHGGGGB.S--EEEEE--TT--H.HHHH--B--............--------......G-SEEEEESGGG- CS
                    AAA_5   3 lLvGppGtgKselaerlaaal.nreveyvqltrdtte.edlkgrreik...ngttslvdsplvraar......egeilvlDEvera 77 
                              ++ G+pG+gKs l+e +  +  +r++ ++ ++r + +  +++ ++  +   +   +l +++l + a       +   +v+DE + +
  PHY93_17765|PHY93_17765  42 VITGNPGVGKSVLIENIQVLGkERNTIVISMSRTMHTyINILKQLAESlkiDVSVRLLEKELIQVAYnyvrdnKTIYTVIDEAHLL 127
                              579**************999999999999999988532344433332223333333333333332224555533334466666666 PP

                              -HHHHHHH CS
                    AAA_5  78 esevlnsL 85 
                              + +vl +L
  PHY93_17765|PHY93_17765 128 DMDVLRKL 135
                              66666665 PP

>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00013      0.12      31      52 ..      40      61 ..      19      72 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00013
                             EEEEEE-TTSSHHHHHHHHHHH CS
                     MeaB 31 vvGltGvPGaGkstlvealgle 52
                                +tG PG+Gks l+e++ + 
  PHY93_17765|PHY93_17765 40 FSVITGNPGVGKSVLIENIQVL 61
                             4458*************98765 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0   0.00039      0.35      15      50 ..      20      55 ..       9      60 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00039
                   AAA_25 15 laapppprrwlvkgllpagelallaGapgtGKttla 50
                             l +++++   +++ +   g++++++G pg+GK++l 
  PHY93_17765|PHY93_17765 20 LLSQQQKIFEIIQIHSQHGGFSVITGNPGVGKSVLI 55
                             556666666788889999***************985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (266 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       989  (0.055162); expected 358.6 (0.02)
Passed bias filter:                      583  (0.0325172); expected 358.6 (0.02)
Passed Vit filter:                        83  (0.00462937); expected 17.9 (0.001)
Passed Fwd filter:                        20  (0.00111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              20  [number of targets reported over threshold]
# CPU time: 0.56u 0.23s 00:00:00.79 Elapsed: 00:00:00.41
# Mc/sec: 1941.40
//
Query:       PHY93_17770|PHY93_17770  [L=415]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.4e-21   76.9   0.0    2.9e-21   75.9   0.0    1.5  1  rve              Integrase core domain
      3e-07   30.1   0.1      9e-07   28.6   0.0    1.9  2  rve_3            Integrase core domain
    0.00047   20.1   0.5     0.0011   18.9   0.5    1.6  1  Mu-transpos_C    Mu transposase, C-terminal
     0.0011   19.5   0.0      0.003   18.2   0.0    1.8  1  HTH_32           Homeodomain-like domain
     0.0024   18.0   0.6      0.056   13.6   0.4    2.9  2  rve_2            Integrase core domain
  ------ inclusion threshold ------
      0.088   12.7   0.0       0.41   10.6   0.0    2.2  1  SpoOE-like       Spo0E like sporulation regulatory protein
       0.27   11.6   1.7         16    5.9   0.1    2.7  3  Penicillinase_R  Penicillinase repressor


Domain annotation for each model (and alignments):
>> rve  Integrase core domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   75.9   0.0   1.1e-24   2.9e-21       5     118 ..     161     276 ..     159     277 .. 0.93

  Alignments for each domain:
  == domain 1  score: 75.9 bits;  conditional E-value: 1.1e-24
                      rve   5 gelwqvDvtvvripdggg....kayllvvvddfsrlilaealsdemdastvlalleravarfggvepervlsDngseytskafref 86 
                              +elwq+D+++++ +++ +    k +l++++dd+sr+i+      +++a++++++ + a+ ++g+  per++ Dng  ytsk++ + 
  PHY93_17770|PHY93_17770 161 NELWQADTMYGPSIKQSDgqwrKTFLIAFIDDASRVITHGEFFYRDNAENMIEAFRTALYKRGK--PERLYFDNGANYTSKEILQA 244
                              99*******9997766558999**************9877777777******************..9******************* PP

                      rve  87 ladlgirvsftrpgrpqdnGkvErfhrtlkde 118
                              + +l+i++s+++ ++   +Gk+Erf+r ++d+
  PHY93_17770|PHY93_17770 245 CIRLDIKLSHAPIRDGAAKGKIERFFRGFRDR 276
                              ***************************99987 PP

>> rve_3  Integrase core domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.8   0.0       4.6   1.2e+04      41      50 ..     207     216 ..     202     221 .. 0.61
   2 !   28.6   0.0   3.5e-10     9e-07       3      64 ..     250     312 ..     248     314 .. 0.86

  Alignments for each domain:
  == domain 1  score: -3.8 bits;  conditional E-value: 4.6
                    rve_3  41 earekleawr 50 
                              +a+ ++ea+r
  PHY93_17770|PHY93_17770 207 NAENMIEAFR 216
                              4555666655 PP

  == domain 2  score: 28.6 bits;  conditional E-value: 3.5e-10
                    rve_3   3 ielsyiapgkPqqNglvEsfngtlrdellneel.frslaearekleawre.dYNteRPHssLgy 64 
                              i+ls+   ++    g++E+f++ +rd++l e++ f++l+e++ek+ +w+e +YN ++ Hs++++
  PHY93_17770|PHY93_17770 250 IKLSHAPIRDGAAKGKIERFFRGFRDRFLVEHInFETLDELNEKTRDWIEnEYNLKH-HSGIQM 312
                              77788888888889***********************************84698765.887776 PP

>> Mu-transpos_C  Mu transposase, C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.5   4.3e-07    0.0011       4      52 ..     338     385 ..     336     391 .. 0.88

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 4.3e-07
                              SEEBEEEE--TTT.S--EEEEEE-SHHHHSS-SEEEEEE-GGGTTEEEEE CS
            Mu-transpos_C   4 llpretrtvqrdG.irlngnrYwspeLaglvgkkVvvryDPrdlsrvyVy 52 
                              + ++e+r+v+++  +++n+  +++p    l+ k V+vr+D +  +r  Vy
  PHY93_17770|PHY93_17770 338 FFVEEDRKVSKTNvFSINNQKFECPV--DLREKNVQVRFDRNRRDRFIVY 385
                              6689**********************..999*********9887776666 PP

>> HTH_32  Homeodomain-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.0   1.2e-06     0.003       1      73 []      54     137 ..      54     137 .. 0.71

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 1.2e-06
                   HTH_32   1 TvsrwlkRyneeGlegLkdrprrgrpr..k.lsdevrariiallreep........rWsprqlaarl.aeregvk..vShstvyri 72 
                              T+s wl R+++ G+  L+ + r+ + +  k    e+ ++i +++   p        ++  + l + l ++ +  +  +S st+yr 
  PHY93_17770|PHY93_17770  54 TISTWLYRFKSKGMTTLDNKTRADKNCyrKvQVSELAEAINEVI---PtmgkskngTFPRSTLYRLLlKKDFFKRqqLSTSTFYRM 136
                              9*******************999877643423333333344444...445566788999999999887555533346********8 PP

                   HTH_32  73 L 73 
                              L
  PHY93_17770|PHY93_17770 137 L 137
                              7 PP

>> rve_2  Integrase core domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.6   0.4   2.2e-05     0.056       1      40 [.     267     305 ..     267     312 .. 0.87
   2 ?    1.0   0.0      0.19   4.9e+02      31      49 ..     315     335 ..     315     338 .. 0.80

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 2.2e-05
                    rve_2   1 EsfFgsLKtElvyge.tfktleeleaaiedYIew.YNnkRlk 40 
                              E fF  +++ ++ +  +f+tl+el+++  d Ie  YN    k
  PHY93_17770|PHY93_17770 267 ERFFRGFRDRFLVEHiNFETLDELNEKTRDWIENeYNL---K 305
                              779*******999999****************988984...4 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.19
                    rve_2  31 IewYNnkR..lkglsPvqYrn 49 
                              I+ +N +R  +k l+  qY +
  PHY93_17770|PHY93_17770 315 IDRFNLDRkrIKFLTDDQYSE 335
                              66789888779****999976 PP

>> SpoOE-like  Spo0E like sporulation regulatory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   0.00016      0.41       3      36 ..     210     251 ..     209     252 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00016
                              HHHHHHHHHHHHHH.......HHC..C--HHHHHHHHHHHHHH CS
               SpoOE-like   3 keIEelRkeLnela.......ekk..gltdpeVlelSqeLDeL 36 
                              ++IE+ R  L++ +       + +  ++t++e+l+++ +LD  
  PHY93_17770|PHY93_17770 210 NMIEAFRTALYKRGkperlyfD-NgaNYTSKEILQACIRLDIK 251
                              6788888888888877777744.459***************75 PP

>> Penicillinase_R  Penicillinase repressor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   0.2     0.021        53      23      59 ..      40      76 ..      26      97 .. 0.74
   2 ?    5.9   0.1    0.0064        16      40      79 ..     112     151 ..      90     164 .. 0.81
   3 ?   -3.2   0.0         4     1e+04      73     102 ..     259     288 ..     253     293 .. 0.75

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.021
                             HHHT--GGG---HHHHHHHHHHHHHTTS-EEEEETTE CS
          Penicillinase_R 23 vveeleeekelaysTVktllrrLvkKgllsrekegra 59
                             v e+  +e++ a  T+ t l r   Kg+ + +++ ra
  PHY93_17770|PHY93_17770 40 VDEQTRREYKFAWRTISTWLYRFKSKGMTTLDNKTRA 76
                             4455777899999**************9776666553 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.0064
                              HHHHHHHHTTS-EEEEETTEEEEE----XXXXXXXXXXXX CS
          Penicillinase_R  40 tllrrLvkKgllsrekegrafiYsplvseeeavasavkql 79 
                              tl r L+kK++++r++   ++ Y+ l + + + ++ +k+l
  PHY93_17770|PHY93_17770 112 TLYRLLLKKDFFKRQQLSTSTFYRMLRENDLFDSNVTKKL 151
                              6778899*****************9988888877777765 PP

  == domain 3  score: -3.2 bits;  conditional E-value: 4
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
          Penicillinase_R  73 asavkqlldklfegsvkelvaafveeekls 102
                              ++a+k+ ++++f g + ++++++++ e+l+
  PHY93_17770|PHY93_17770 259 DGAAKGKIERFFRGFRDRFLVEHINFETLD 288
                              567888889999988888888888776655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (415 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       766  (0.0427241); expected 358.6 (0.02)
Passed bias filter:                      485  (0.0270511); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.58u 0.21s 00:00:00.78 Elapsed: 00:00:00.40
# Mc/sec: 3084.21
//
Query:       PHY93_05415|PHY93_05415  [L=368]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.1e-20   72.4   0.0    3.9e-20   72.2   0.0    1.0  1  Aminotran_5    Aminotransferase class-V
     0.0013   18.0   0.3     0.0093   15.2   0.3    2.1  1  Aminotran_1_2  Aminotransferase class I and II


Domain annotation for each model (and alignments):
>> Aminotran_5  Aminotransferase class-V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.2   0.0   4.3e-24   3.9e-20      27     318 ..      23     312 ..      16     343 .. 0.81

  Alignments for each domain:
  == domain 1  score: 72.2 bits;  conditional E-value: 4.3e-24
                              CCSSSSSSSHHHHHHHHHHHHHHHH.HHHHHT-STGGGEEEESSHHHHHHHHHHHCCCC-TTTSEEEEETTSHGGGTHHHHHHHHH CS
              Aminotran_5  27 nanvhrsvhhlgkeatkaveearek.vaelinaeseeeiiftsGtteainlvalslarslkpgdeivvteaehhanlvpwqelakr 111
                              na v + +  ++ e+ +    +r++ +++ ++ +++  ++ ts++t ++++ + s+   + +++++++ +++  +++  +q+++++
  PHY93_05415|PHY93_05415  23 NAMVVSDICPRELEFGELTLSVRNDlIKAAYGEKNHTCVMLTSSGTGGVEACLTSV---IPHDKKVLILNNGAYGER--MQKICDA 103
                              56666666777777777777777762566677777777889999999*********...99****************..*****99 PP

                              HTEEEEEEEBETTSCBEGGGHHHH--T...TEEEEEEESBETTTTEB--HHHHHHHHHHTT-EEEEE-TTTTTTS---HHHHTESE CS
              Aminotran_5 112 tgakvkvipldeegeldldelekllne...ktklvaithvsnvtGtiqpveeigklakkkgalvlvDaaqavghipidvkklgvDf 194
                                +  + ++ +++  ldl+++ekll+e   +++ +a+ h++++ G+++p+ ei +l +k+++ ++vDa +++  + idv+k ++  
  PHY93_05415|PHY93_05415 104 YSVGHVDYNQEWGFPLDLNAVEKLLQEhlgEISHLAFIHHETTVGILNPLTEISALSQKYKVETIVDAMSSFAGMMIDVEKDNIHY 189
                              8877777888888899*********852337899**************************************************** PP

                              EEEETTT.TTSSTT-EEEEEEHHHHHTS..SS.STTSEEEEETTEEEEHCTTGGGS.SS--HHHHHHHHHHHHHHHCHHHHHHHHH CS
              Aminotran_5 195 lafsghK.llgPtGiGvlyvrkellekleplllggemveevsleettfaeapskfeaGTpnvagiiglgaaleyleeigleaiekh 279
                              l++s+ K + g +Gi+++++ ++ l k   ++    +++  + + +  +++ + f   Tp+v  +++l++a+    e g ++  ++
  PHY93_05415|PHY93_05415 190 LVSSSNKcIQGMAGISFVIANTKSLLKTGEIKARNFYFNLLENHLYLERNKQFLF---TPPVQTLYALRQAVTEYFEEGPKNRFAR 272
                              **********************999999999999998888888877755555544...8*********988755547777778888 PP

                              HHHHHHHHHHHHCTSTTEEEES..-B-CTCBSEEEEEETT CS
              Aminotran_5 280 ekelaeyllerlkslpgvrlyg.pdkaerrasivsfnfkg 318
                               +++ e +++++++l+   l++ + +a+  ++i+  + ++
  PHY93_05415|PHY93_05415 273 YASMYEIMKKKVRELGFEFLIEeKYHAKLLTAIMDPKSPD 312
                              8889999999999988766655344444455555555555 PP

>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.3     1e-06    0.0093      71     303 ..      62     295 ..      38     343 .. 0.71

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 1e-06
                              EEEESHHHHHHHHHHHHHHHTTT-EEEEEESS-THHHHHHHHTTSEEEEEEBEETTTTEE-HHHHHHHHTTHHCTTETEEEEEEES CS
            Aminotran_1_2  71 vvvgsGagaliealifllklnpgdeilvpdptyasyknilrlsggevvryplyseedfhldlealeealkeapegnkktkvilves 156
                               +++sG+g + + l+ ++ ++++  il    + + +++i+ ++ +  v y+  +e +f ldl+a+e++l+e + g++    +++  
  PHY93_05415|PHY93_05415  62 MLTSSGTGGVEACLTSVIPHDKKVLILNNGAYGERMQKICDAYSVGHVDYN--QEWGFPLDLNAVEKLLQE-HLGEI--SHLAFIH 142
                              57899999999999999986666666666666678**********999999..88***************9.56666..4444444 PP

                              S-TTT--B--HHHHHHHHHHHHHTTEEEEEEET..TTTCBSSSSHTHHHHGGSTTSTTEEEEEESSSTT..SSGGG-EEEEEEEH. CS
            Aminotran_1_2 157 phNPtGtvatleeleklldlakkynlllfvDea..YagfvfgsldavatranveeepnllivgslsKaf..GlaGeRvGyilgna. 237
                                   G + +l e+ +l    +ky++ ++vD +  +ag++ +          ve+ +n++ + s s     G+aG  + ++++n  
  PHY93_05415|PHY93_05415 143 HETTVGILNPLTEISAL---SQKYKVETIVDAMssFAGMMID----------VEK-DNIHYLVSSSNKCiqGMAG--ISFVIANTk 212
                              44567999999999999...***********76224444444..........544.4555555555444479999..999999777 PP

                              ..................HHHHHHHHHHHHHTS.SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSTEEEECCS CS
            Aminotran_1_2 238 ..................avvsqlrklsrpfls.ssllqaavaaalsdallkqseleemrqrlqkrrkelrdeLaelglkvlasq 303
                                                +   +l++ ++++   + ++ +a+ +a+    ++    +++ +r++++ + ++++ +elg+++l+++
  PHY93_05415|PHY93_05415 213 sllktgeikarnfyfnllENHLYLERNKQFLFTpPVQTLYALRQAVTEYFEE--GPKNRFARYASMYEIMKKKVRELGFEFLIEE 295
                              7888888888888886555555666666665557777777777777777754..4455557788888888888888877777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (368 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       497  (0.0277205); expected 358.6 (0.02)
Passed bias filter:                      393  (0.0219198); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.41
# Mc/sec: 2693.40
//
Query:       PHY93_17775|PHY93_17775  [L=185]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (185 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       872  (0.0486363); expected 358.6 (0.02)
Passed bias filter:                      424  (0.0236488); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.39
# Mc/sec: 1407.87
//
Query:       PHY93_17780|PHY93_17780  [L=184]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.4e-41  141.2   0.4    2.9e-41  141.0   0.4    1.1  1  Resolvase     Resolvase, N terminal domain
    7.1e-08   32.4   0.0    6.3e-07   29.4   0.0    2.2  2  HTH_7         Helix-turn-helix domain of resolvase
    0.00043   20.2   0.7      0.066   13.2   0.0    2.6  2  HTH_29        Winged helix-turn helix
     0.0061   17.1   0.1      0.024   15.2   0.0    1.9  2  HTH_32        Homeodomain-like domain
  ------ inclusion threshold ------
      0.013   15.3   0.3      0.045   13.6   0.0    2.0  2  HTH_23        Homeodomain-like domain
      0.057   13.6   0.0       0.28   11.3   0.0    2.0  2  DUF1492       Protein of unknown function (DUF1492)
      0.089   12.5   0.1       0.33   10.7   0.0    1.9  2  Sigma70_r4_2  Sigma-70, region 4


Domain annotation for each model (and alignments):
>> Resolvase  Resolvase, N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  141.0   0.4   1.1e-44   2.9e-41       1     146 []       2     136 ..       2     136 .. 0.98

  Alignments for each domain:
  == domain 1  score: 141.0 bits;  conditional E-value: 1.1e-44
                              EEEEEEES-----THHHHHHHHHHHH-S--..SE...EEEE.S-TT-TT-HHHHHHHHHHTT-EE.EEEESSCCCC-S...S-HHH CS
                Resolvase   1 aigYaRvSteeqddslerQkealrayakenglkivkefeDkgvSGakleRpglkrllaalregkgdvlvvekldRLaRsvrdlltl 86 
                              +igYaR St++q+   + Q++al+++++e+   +   f+++ vSG k e+++l+++l++lr+  gd+lvv++ldRL+Rs+r l++l
  PHY93_17780|PHY93_17780   2 IIGYARISTSDQN--FALQLDALKKAGCEK---V---FKET-VSGDKSEKKELEEALKRLRK--GDTLVVWRLDRLGRSLRALIEL 76 
                              69***********..************766...9...****.********************..********************** PP

                              HHHHHHTT-EEEESS..SS----HHHHHHHHHHHHHHHHHHHHHCT-TTHHHHHHHHHHC CS
                Resolvase  87 leelrekgvslvsldegidtstpmgrlllqilaalaeferelirertkeglaaakakGkk 146
                               + l+e g+ ++sl ++idtst++g++++++ +++ae+er+li ert++gl+aa+++G+k
  PHY93_17780|PHY93_17780  77 ANGLKEEGIYFQSLMDSIDTSTAIGQFFFHVTGSFAELERNLIIERTMAGLEAARKRGRK 136
                              ***************99*****************************************95 PP

>> HTH_7  Helix-turn-helix domain of resolvase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.0      0.27   6.9e+02       8      21 ..      42      55 ..      38      59 .. 0.79
   2 !   29.4   0.0   2.5e-10   6.3e-07       1      43 [.     138     181 ..     138     183 .. 0.97

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.27
                             HHHHGGGGSSTTTT CS
                    HTH_7  8 kndinrvvkLleeG 21
                             k+++++++k+l++G
  PHY93_17780|PHY93_17780 42 KKELEEALKRLRKG 55
                             44899*******99 PP

  == domain 2  score: 29.4 bits;  conditional E-value: 2.5e-10
                              S---SS-HHHHGGGGSSTTTT.--STTTSSSS---SSSS--SS- CS
                    HTH_7   1 GRpsklskndinrvvkLleeG.isiskIAkevnisRsTvYRyla 43 
                              GRp++++ ++ ++++k++++   s+++I+ +++i R ++YRyl 
  PHY93_17780|PHY93_17780 138 GRPKAIDNKTFHTALKMHRSEdFSVNEICLRLKINRRSFYRYLQ 181
                              9*******************99********************97 PP

>> HTH_29  Winged helix-turn helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.2     0.012        31      38      58 ..     124     144 ..     119     147 .. 0.81
   2 !   13.2   0.0   2.6e-05     0.066       9      34 ..     157     181 ..     150     183 .. 0.81

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.012
                   HTH_29  38 egGlaalld.rrrsgrprnrls 58 
                              + Gl+a+++ +r +grp+  ++
  PHY93_17780|PHY93_17780 124 MAGLEAARKrGRKGGRPKA-ID 144
                              56999**9989999***96.66 PP

  == domain 2  score: 13.2 bits;  conditional E-value: 2.6e-05
                   HTH_29   9 aeGvstvsqiAkllglsrrtvyrwlk 34 
                              +e   +v +i+ +l + rr++yr+l 
  PHY93_17780|PHY93_17780 157 SEDF-SVNEICLRLKINRRSFYRYLQ 181
                              4555.5******************96 PP

>> HTH_32  Homeodomain-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.0      0.75   1.9e+03      32      52 ..      44      66 ..      23      86 .. 0.67
   2 !   15.2   0.0   9.4e-06     0.024      12      73 .]     125     180 ..     113     180 .. 0.79

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.75
                   HTH_32 32 evrariiallreep..rWsprql 52
                             e+++++++l++ +    W +++l
  PHY93_17780|PHY93_17780 44 ELEEALKRLRKGDTlvVWRLDRL 66
                             66666666663233565555444 PP

  == domain 2  score: 15.2 bits;  conditional E-value: 9.4e-06
                   HTH_32  12 eGlegLkdrprr.grprklsdevrariiallreeprWsprqlaarlaeregvkvShstvyriL 73 
                               Gle+ + r r+ grp+ ++  + +  +++ r+e ++s  +++ rl      k+ ++++yr+L
  PHY93_17780|PHY93_17780 125 AGLEAARKRGRKgGRPKAIDNKTFHTALKMHRSE-DFSVNEICLRL------KINRRSFYRYL 180
                              355555555444359999*************555.***********......9********98 PP

>> HTH_23  Homeodomain-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.1       0.8   2.1e+03      25      25 ..      64      64 ..      39      85 .. 0.65
   2 ?   13.6   0.0   1.8e-05     0.045      10      39 ..     151     181 ..     149     183 .. 0.92

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 0.8
                   HTH_23 25 r 25
                             +
  PHY93_17780|PHY93_17780 64 D 64
                             2 PP

  == domain 2  score: 13.6 bits;  conditional E-value: 1.8e-05
                   HTH_23  10 illllae.GlsvreIAreLgvsrrTvyrwlk 39 
                              +l++++    sv eI+ +L ++rr  yr+l+
  PHY93_17780|PHY93_17780 151 ALKMHRSeDFSVNEICLRLKINRRSFYRYLQ 181
                              799999779********************97 PP

>> DUF1492  Protein of unknown function (DUF1492)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0      0.62   1.6e+03      43      60 ..      40      57 ..      13      70 .. 0.64
   2 ?   11.3   0.0   0.00011      0.28      52      93 ..     140     181 ..     118     183 .. 0.84

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.62
                  DUF1492 43 kkklelqrlidklensds 60
                               k+el++ +++l++ d+
  PHY93_17780|PHY93_17780 40 SEKKELEEALKRLRKGDT 57
                             246666666666666555 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 0.00011
                  DUF1492  52 idklensdsrsvLrmvyidkltvwqvidklnisrstyyrllr 93 
                               + ++n+  ++ L+m   +  +v +++ +l+i r  +yr l+
  PHY93_17780|PHY93_17780 140 PKAIDNKTFHTALKMHRSEDFSVNEICLRLKINRRSFYRYLQ 181
                              567999999******************************986 PP

>> Sigma70_r4_2  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0       1.4   3.6e+03       3      12 ..      44      53 ..      42      61 .. 0.71
   2 ?   10.7   0.0   0.00013      0.33      17      48 ..     150     181 ..     149     182 .. 0.93

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 1.4
                             HHHHHHTTS- CS
             Sigma70_r4_2  3 alrealaeLp 12
                             +l+eal +L 
  PHY93_17780|PHY93_17780 44 ELEEALKRLR 53
                             5777777775 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 0.00013
                              HHHHHHHTS---HHHHHHHHT--HHHHHHHHH CS
             Sigma70_r4_2  17 eifllryleglsykEIAellgisegtVksrls 48 
                              +++ +++ e++s  EI+ +l+i+ ++ +++l+
  PHY93_17780|PHY93_17780 150 TALKMHRSEDFSVNEICLRLKINRRSFYRYLQ 181
                              5899**********************999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (184 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       799  (0.0445647); expected 358.6 (0.02)
Passed bias filter:                      649  (0.0361983); expected 358.6 (0.02)
Passed Vit filter:                        64  (0.00356964); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.39
# Mc/sec: 1401.12
//
Query:       PHY93_17785|PHY93_17785  [L=141]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.046   14.3   0.6       0.17   12.5   0.6    1.9  1  Sas10_Utp3  Sas10/Utp3/C1D family
       0.16   10.0   0.0       0.24    9.4   0.0    1.2  1  PEPcase     Phosphoenolpyruvate carboxylase
        0.2   11.7   1.2       0.67   10.1   0.0    2.2  2  DUF1192     Protein of unknown function (DUF1192)


Domain annotation for each model (and alignments):
>> Sas10_Utp3  Sas10/Utp3/C1D family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.6   2.8e-05      0.17       5      66 ..      50     114 ..      46     138 .. 0.69

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 2.8e-05
               Sas10_Utp3   5 sksldelqeslepllskakaee..kkslsd........eklsegisllslKnelllaYllnlllylllklsg 66 
                              +k+++ l++ +++ l++++  +  +             e ++   s+ls+Knel l+ l + l+yl+ ++++
  PHY93_17785|PHY93_17785  50 KKEVSVLKSIIDEALAYERPFKdpN----WgnydyylyEIKK---SILSVKNELSLSELKEVLIYLAERAEN 114
                              5667777777777777644333331....0233354533334...6*******************8777776 PP

>> PEPcase  Phosphoenolpyruvate carboxylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4   0.0     4e-05      0.24     562     592 ..       9      39 ..       3      46 .. 0.92

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 4e-05
                              HHHHHHHHHHHHHHHHHHTT-SSHHHHHHHH CS
                  PEPcase 562 eimeelsevsreaYrklvyeepdfveyFrea 592
                              ei+e+ls  s e+ r+lv+e  +f ++Fr++
  PHY93_17785|PHY93_17785   9 EIFEDLSLLSSEELRSLVFEASNFNDFFRQI 39 
                              789*************************996 PP

>> DUF1192  Protein of unknown function (DUF1192)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1   0.0   0.00011      0.67      11      26 ..       8      23 ..       3      27 .. 0.86
   2 ?   -0.7   0.2      0.26   1.5e+03      19      28 ..      95     104 ..      94     110 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00011
                  DUF1192 11 heigqDLslLSveELe 26
                             +ei +DLslLS eEL+
  PHY93_17785|PHY93_17785  8 AEIFEDLSLLSSEELR 23
                             7999***********8 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.26
                  DUF1192  19 lLSveELeer 28 
                               LS++EL+e 
  PHY93_17785|PHY93_17785  95 ELSLSELKEV 104
                              69*****985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (141 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       600  (0.0334653); expected 358.6 (0.02)
Passed bias filter:                      400  (0.0223102); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.39
# Mc/sec: 1078.51
//
Query:       PHY93_17790|PHY93_17790  [L=111]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      2e-10   40.6   0.0    2.2e-10   40.5   0.0    1.0  1  DDE_Tnp_IS66  Transposase IS66 family


Domain annotation for each model (and alignments):
>> DDE_Tnp_IS66  Transposase IS66 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.5   0.0   1.2e-14   2.2e-10     127     214 ..       1      88 [.       1     108 [. 0.85

  Alignments for each domain:
  == domain 1  score: 40.5 bits;  conditional E-value: 1.2e-14
             DDE_Tnp_IS66 127 vlvsDgyagYnklaeeqvthalCwaHlrRkfvdaeeakkksqaaaealar.igklyaierear.ea..eaeerlalrqeesrplla 208
                              ++v+D +a+Y k++  +v ha+C aH++R+++ +ee++    ++a+ +++ +++   + re   ++  +++e  +l++e++r l a
  PHY93_17790|PHY93_17790   1 IIVHDCWASYFKFK--NVLHAICGAHILRELKFIEESNA--YVWANLMKElLKEAAGVVRERPgKRilTQDEFDKLQKEYRRILKA 82 
                              589**********8..*******************9976..9********999999999986443378889999999999999999 PP

             DDE_Tnp_IS66 209 eleawl 214
                               l ++ 
  PHY93_17790|PHY93_17790  83 GLNEMP 88 
                              988854 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (111 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       610  (0.0340231); expected 358.6 (0.02)
Passed bias filter:                      480  (0.0267723); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.20s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 860.64
//
Query:       PHY93_17795|PHY93_17795  [L=114]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    4.9e-36  122.7   0.0    5.5e-36  122.5   0.0    1.0  1  TnpB_IS66  IS66 Orf2 like protein


Domain annotation for each model (and alignments):
>> TnpB_IS66  IS66 Orf2 like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  122.5   0.0   3.1e-40   5.5e-36       2     100 ..       9     107 ..       8     108 .. 0.97

  Alignments for each domain:
  == domain 1  score: 122.5 bits;  conditional E-value: 3.1e-40
                TnpB_IS66   2 riylatgpvDmRkgidgLaalVqeelkldpfsgalFvFrnrrrdrlKiLlwdgnGfvllykrLekgrFkwpkeeeeeaveltaeql 87 
                              +i+l++  vD+Rk+i+gL+ +V  e++ldpf++ lF+F+++rrd++KiL+wd+nGf l+ykrLek++++wpk+ e+++++l++e+l
  PHY93_17795|PHY93_17795   9 QIHLYRPFVDFRKSINGLCGVVVGEMELDPFQNYLFIFTSKRRDKIKILYWDKNGFALWYKRLEKEKYHWPKNLEDQKITLKTEEL 94 
                              89**********************************************************************99999********* PP

                TnpB_IS66  88 elLleGldlervk 100
                              e+Ll+Gl+  ++k
  PHY93_17795|PHY93_17795  95 EWLLNGLNPWKMK 107
                              *******998876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (114 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       428  (0.0238719); expected 358.6 (0.02)
Passed bias filter:                      318  (0.0177366); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.37u 0.24s 00:00:00.61 Elapsed: 00:00:00.37
# Mc/sec: 920.75
//
Query:       PHY93_17800|PHY93_17800  [L=106]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (106 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       395  (0.0220313); expected 358.6 (0.02)
Passed bias filter:                      300  (0.0167327); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.19s 00:00:00.61 Elapsed: 00:00:00.39
# Mc/sec: 819.31
//
Query:       PHY93_06340|PHY93_06340  [L=171]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (171 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       356  (0.0198561); expected 358.6 (0.02)
Passed bias filter:                      102  (0.00568911); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.19s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1307.31
//
Query:       PHY93_06345|PHY93_06345  [L=452]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.4e-42  146.5   0.0    1.8e-42  146.1   0.0    1.1  1  PmbA_TldD  Putative modulator of DNA gyrase


Domain annotation for each model (and alignments):
>> PmbA_TldD  Putative modulator of DNA gyrase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  146.1   0.0     1e-46   1.8e-42       1     278 [.      19     308 ..      19     308 .. 0.80

  Alignments for each domain:
  == domain 1  score: 146.1 bits;  conditional E-value: 1e-46
                              EEEEEEEEEEEEEEEEETTEEEEEEEEEEEEEEEEEEETTEEEEEE...ESSHHHHHHHHHHHHHHCCS---TT-........... CS
                PmbA_TldD   1 eaevrleesestsvrfengevetnsssedsglgvrvikggrlgfastldtsdealeeaveraveiaklapedpea........... 75 
                              +++vr+e+++s  + f nge+++++++   g+ +r++ +g++ ++st+  +  +le  +++ + +a++++++ ++           
  PHY93_06345|PHY93_06345  19 FVDVRIERTQSSHFMFQNGELTSAGEKPVLGAFIRLYQNGSWFYSSTTAVT--ELETEIKKLLVLANENKPKASSyivpsnngihh 102
                              589*****************************************9977666..9*******999**87777777788888888887 PP

                              .........GGS-HHHHHHHHHHHHHH.CHCSTTEEEEEEEEEE......EEE.EEEEEEETTSEEEEEEEEEEEEEEEEEE.STC CS
                PmbA_TldD  76 .........eevsaeekielleelekalrsadpkienskgarisgvsaslsaskeeklianSeGldveqtrtrvslslsviaddgg 152
                                       ++++ +ek++l e+    l+    ki+     ++++ ++s+++ + ek++ +S G++ ++  +++++++s++ ++g+
  PHY93_06345|PHY93_06345 103 linkaedafSKIPLNEKVKLGESYLPLLA----KIK-----NVQDSRISYTDLYKEKFYKSSVGTEFSYDFNQAGFGFSCTLKSGE 179
                              77777777777777777765444442222....333.....5667788899**************************999994333 PP

                              S..ETEEEEEEEE...SSHHH.S..SSHHHHHHHHHHCTTT-B---SEEEEEEE-HHHHHHHHHGHHHHHTBHHHHHTT--TTTT. CS
                PmbA_TldD 153 s..gdgmgggsgy...edlee.edleeiaeeaaekalasleakplppgkypVvlspeavgsllheavghaleadavlegrSflkd. 231
                              +      g +s+        e ++le+ + +  + a + l a+ + pgky+Vv+spe +g++ he++gh  ead++     + k+ 
  PHY93_06345|PHY93_06345 180 ElfS--DGFRSYVtkiS---ElKNLEKQILDYFDEAQKFLTAETITPGKYKVVMSPEITGVFTHESFGHKSEADFMMGDPEATKEw 260
                              3221..23344444432...344444455555555555555666*********************************666666777 PP

                              -TTSB-S-TT--EEEETT-......-SB-TTSBB---EEEEETTEE-- CS
                PmbA_TldD 232 klGekvaselltivddpts.gglgsypfDdEGvptqrtvlIenGvLkn 278
                              k+G+ ++s  l+ivd +   g+ g++p+DdEG+ +q+++lI++G+L++
  PHY93_06345|PHY93_06345 261 KMGSLIGSTCLSIVDYGALdGNSGYCPIDDEGTLAQKNYLIKDGILTG 308
                              9*****************99**************************86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (452 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       417  (0.0232584); expected 358.6 (0.02)
Passed bias filter:                      378  (0.0210832); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.55u 0.22s 00:00:00.77 Elapsed: 00:00:00.41
# Mc/sec: 3307.38
//
Query:       PHY93_06350|PHY93_06350  [L=408]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.3e-14   54.7   0.0      2e-14   54.1   0.0    1.2  1  PmbA_TldD  Putative modulator of DNA gyrase
  ------ inclusion threshold ------
      0.086   13.1   0.0       0.17   12.1   0.0    1.4  1  ProRS-C_1  Prolyl-tRNA synthetase, C-terminal


Domain annotation for each model (and alignments):
>> PmbA_TldD  Putative modulator of DNA gyrase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.1   0.0   2.2e-18     2e-14       8     278 ..       9     278 ..       4     278 .. 0.74

  Alignments for each domain:
  == domain 1  score: 54.1 bits;  conditional E-value: 2.2e-18
                              EEEEEEEEEETTEEEEEEEEEEEEEEEEEEETTEEEEEE....ESSHHHHHHHHHHHHHHCCS---TT-........GGS-HHHHH CS
                PmbA_TldD   8 esestsvrfengevetnsssedsglgvrvikggrlgfastl.dtsdealeeaveraveiaklapedpea........eevsaeeki 84 
                              ++es+s+++  g++ + ++++    g+r++ ++++ ++s+  +++d++l + + +a +         ++        ++ ++e  +
  PHY93_06350|PHY93_06350   9 NEESLSIEVIAGKINSYRNKNIIKKGIRLFENNKIYSTSFVgQITDADLLKKASAAKSVG----IPFDYtlatnpqlKTFDEESMK 90 
                              789********************************9988887888776666666433333....2222246777664333333333 PP

                              HHHHHHHHH.CHCSTTEEEEEEEEEE......EEE.EEEEEEETTSEEEEEEEEEEEEEEEEEE.STCS.ET.EEEEEEEE..SSH CS
                PmbA_TldD  85 elleelekalrsadpkienskgarisgvsaslsaskeeklianSeGldveqtrtrvslslsviaddggs.gd.gmgggsgy..edl 166
                              + l+++++a++ +++  +++k+ +   +++  + s  ++++ n +G+ +e +  + +  +  +     + g+ ++  ++gy  e+ 
  PHY93_06350|PHY93_06350  91 APLSAINEAIELSQE--RLAKYSKDFVFNGKFERSIHTRTMTNADGMKLERKFAYNEWHYLFK-----RvGSpNL--MDGYfeESG 167
                              445555555443333..222344666688889999999******************4333333.....2333232..444445555 PP

                              HHS..SSHHHHHHHHHHCTTT-B---SEEEEEEE.-HHHHHHHHHGHHHHHTBHHHHHTT--TTTT-TTSB-S-TT--EEEETT-. CS
                PmbA_TldD 167 eeedleeiaeeaaekalasleakplppgkypVvl.speavgsllheavghaleadavlegrSflkdklGekvaselltivddpts. 250
                              ++ d++++ ++    + a ++    + gkypV++ + +++g l + ++     a+   eg+ ++++kl++k++s+ ++++d   s 
  PHY93_06350|PHY93_06350 168 KTLDIKDVFDKNLPYLEAYKNEITFKDGKYPVLFiEGGQFGKLAESLI-----AEKYCEGSALFSGKLNTKIFSPEFSLYDVNYSp 248
                              558888899999999999998899********9769999999998444.....89999******88***************77766 PP

                              .....-SB-TTSBB--..-EEEEETTEE-- CS
                PmbA_TldD 251 gglgsypfDdEGvptq..rtvlIenGvLkn 278
                               +  +  fD+EG+ ++    +lIe+Gv kn
  PHY93_06350|PHY93_06350 249 AHGIYKKFDGEGTIRElsHLPLIEKGVMKN 278
                              5666799*******9998999******998 PP

>> ProRS-C_1  Prolyl-tRNA synthetase, C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   1.9e-05      0.17       8      43 ..      38      73 ..      35      94 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 1.9e-05
                             HHTT-EEEEEESSGHHHHHHHHHHHS-EEEEEESSB CS
                ProRS-C_1  8 lekkgfvlapWcgeeecEekIkeetgakslcipfdq 43
                             +e+++++ + + g+    + +k+ ++aks++ipfd 
  PHY93_06350|PHY93_06350 38 FENNKIYSTSFVGQITDADLLKKASAAKSVGIPFDY 73
                             57888999**************************94 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (408 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       457  (0.0254894); expected 358.6 (0.02)
Passed bias filter:                      396  (0.0220871); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.40
# Mc/sec: 3054.30
//
Query:       PHY93_06355|PHY93_06355  [L=372]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.2e-44  150.8   0.1    5.4e-44  150.4   0.1    1.1  1  RibD_C           RibD C-terminal domain
    8.8e-17   60.8   0.1    1.6e-16   60.0   0.1    1.4  1  dCMP_cyt_deam_1  Cytidine and deoxycytidylate deaminase zinc-
    2.4e-08   33.8   0.0    4.2e-08   33.0   0.0    1.5  1  MafB19-deam      MafB19-like deaminase
  ------ inclusion threshold ------
      0.018   14.9   0.1      0.061   13.2   0.1    1.9  1  Inv-AAD          Invertebrate-AID/APOBEC-deaminase


Domain annotation for each model (and alignments):
>> RibD_C  RibD C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  150.4   0.1   1.2e-47   5.4e-44       1     199 [.     151     365 ..     151     366 .. 0.92

  Alignments for each domain:
  == domain 1  score: 150.4 bits;  conditional E-value: 1.2e-47
                              -EEEEEEEEETTSBSSCTTSSGCTSS-HHHHHHHHHHHHTSSEEEEEHHHHHHHT--SS--SSCHSCHHHTT.GSS-EEEEEETTS CS
                   RibD_C   1 pyvilklavSlDGklaaaggeskwitgeearadvhelraeadailvGrgtvladnpsltvrwvkkreaeadaearqpvrvVvdstl 86 
                              p+v lkla+SlDG++a+++gesk itg+e  a+vh+lr++ d i+vGr+t+  dnpslt r  + ++        +p+r+Vv + +
  PHY93_06355|PHY93_06355 151 PFVHLKLAQSLDGRVATKNGESKYITGSESLARVHALRQKYDCIMVGRKTIEFDNPSLTTRTDEFEKI------SHPLRIVVGKLQ 230
                              799**************************************************************755......9*********** PP

                              -S-TTSHHHHSS..S-EEEEESSCSCHHHHHHCC......E...........SE-HHHHHHHHHHTT--EEEEEETHHHHHHHHHT CS
                   RibD_C  87 rvpldakvltdd..aptlvatteeadkekveklk......v...........rvdlkelleeLkergirsllveGGatLagsllra 153
                               ++ d k+l+d+  ++t+++ t +  + + e ++      v           +vdlk+ l+ L+   + s+lveGG++La ++l+a
  PHY93_06355|PHY93_06355 231 GLNHDWKILQDEfkRNTMIVATDDEVRSNPEVVRflelqgVallavkpqadgLVDLKSMLKSLASLKLTSILVEGGPMLATEFLKA 316
                              ************95566666666655555555568777772566679999************************************ PP

                              TT-SEEEEEEESCE--TTSBCSSSSST-SS....EEEEEEEEEEETTEEE CS
                   RibD_C 154 glvDelrlyiaPkllGgagktlfdgegfka....lklklvksealgegvv 199
                               lvD++ +++aP+++G+ gk ++++ g+ +    l+l+  k+e+lg++++
  PHY93_06355|PHY93_06355 317 SLVDKVSFFVAPVIIGE-GKNSIEDLGINNllqkLELQSRKTEVLGNDIL 365
                              *****************.***********9**99**************97 PP

>> dCMP_cyt_deam_1  Cytidine and deoxycytidylate deaminase zinc-binding region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.0   0.1   3.5e-20   1.6e-16       4      99 ..       3     102 ..       1     104 [. 0.93

  Alignments for each domain:
  == domain 1  score: 60.0 bits;  conditional E-value: 3.5e-20
                              HHHHHHHHHHHHHHHH..TTTSCSEEEEEEETTEEEEEEESBHHCCTGTTB-HHHHHHHHHHHHTSSCETTEEEEEEE--BHH... CS
          dCMP_cyt_deam_1   4 dekllelalkaakeaq..kcsnfkVGavivkngeiistgyngepaggsktiHAEvnAilkaaknggsklegatlyvtlePCsm... 84 
                              +e ++++a ++a +    + +n+ VGav+v++  +++ g++++       +HAEvnAil a  + g ++ ga+ly++lePCs+   
  PHY93_06355|PHY93_06355   3 HEIYMRMAFDLALKGLghTSPNPLVGAVLVRDSIVLGIGFHQKY----GSAHAEVNAILDAKAK-GHEISGAILYCNLEPCSHtqk 83 
                              899**********99999**************9**********7....467**********998.779**************99** PP

                              ....HHHHHHHHT-SEEEE CS
          dCMP_cyt_deam_1  85 ....Cakaiiqsgikkvvv 99 
                                  Ca +i+  +i+ vv+
  PHY93_06355|PHY93_06355  84 ntppCAPMIVFEKISCVVI 102
                              **********999999997 PP

>> MafB19-deam  MafB19-like deaminase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.0   0.0   9.4e-12   4.2e-08       1      95 [.       1      98 [.       1     147 [. 0.79

  Alignments for each domain:
  == domain 1  score: 33.0 bits;  conditional E-value: 9.4e-12
              MafB19-deam  1 edkekafrkalaevekatkike..dkigavivkdkkviargsnekelnakataHaEiaalqqAakklkskrlddatlyvtlepCd... 83
                             +++e ++r+a  ++ k++  ++    +gav v d+ v+++g      +++  aHaE++a+  A  k k+ + ++a+ly  lepC+   
  PHY93_06355|PHY93_06355  1 MNHEIYMRMAFDLALKGLGHTSpnPLVGAVLVRDSIVLGIGFH----QKYGSAHAEVNAILDA--KAKGHEISGAILYCNLEPCShtq 82
                             6899999999988888876665114599**************9....889*************..5555556************7222 PP

              MafB19-deam 84 ....mCagaivqaglk 95
                                 +Ca +iv  ++ 
  PHY93_06355|PHY93_06355 83 kntpPCAPMIVFEKIS 98
                             3333566666655555 PP

>> Inv-AAD  Invertebrate-AID/APOBEC-deaminase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.1   1.4e-05     0.061      52     116 ..      67     128 ..      28     139 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.4e-05
                  Inv-AAD  52 kntvlYttmepCskRlsGnlpCveRilklkeaiktvyvGvkePekfvaenkgrkkleeagievvh 116
                              + ++lY  +epCs+      pC   i+   e+i  v +   +P+  v+  +g + l+++g+ev++
  PHY93_06355|PHY93_06355  67 SGAILYCNLEPCSHTQKNTPPCAPMIVF--EKISCVVISNIDPNPKVS-GAGVNLLRDHGVEVIT 128
                              4579*******************99975..57999999999**99997.57999*******9875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (372 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       307  (0.0171231); expected 358.6 (0.02)
Passed bias filter:                      298  (0.0166211); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.42
# Mc/sec: 2669.15
//
Query:       PHY93_05420|PHY93_05420  [L=151]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.2e-08   35.5   2.7    1.7e-08   35.0   2.7    1.3  1  CxxCxxCC  Putative zinc- or iron-chelating domain


Domain annotation for each model (and alignments):
>> CxxCxxCC  Putative zinc- or iron-chelating domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.0   2.7   9.7e-13   1.7e-08       2      73 ..      32     114 ..      31     130 .. 0.79

  Alignments for each domain:
  == domain 1  score: 35.0 bits;  conditional E-value: 9.7e-13
                 CxxCxxCC   2 Cke.CgaCCkelkvklteedlerlkaaevaeeeeeskkiak....adgrCvfldeetk.....lCkiYeeRpkicrlfpas..e 73 
                              C + Cg CC +++++  +++l  ++ + + ++ + ++ ++k    +++ C fl+  ++     +C+ Y++Rp icr+f  s  +
  PHY93_05420|PHY93_05420  32 CPAgCGRCCFNADISCSPYELLPMAFHLI-DTGRAEEVLEKarlhEGKGCFFLEVSDEalgtgRCREYQHRPFICRAFGLSarH 114
                              7666********************99998.55555555555678799******9777678899*************99887552 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (151 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       504  (0.0281109); expected 358.6 (0.02)
Passed bias filter:                      370  (0.020637); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 1114.68
//
Query:       PHY93_06360|PHY93_06360  [L=203]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    3.1e-44  148.9   4.0    8.9e-25   86.5   0.4    2.0  2  Lum_binding  Lumazine binding domain


Domain annotation for each model (and alignments):
>> Lum_binding  Lumazine binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.1   0.2     5e-22     9e-18       1      86 [.       3      84 ..       3      85 .. 0.83
   2 !   86.5   0.4     5e-29   8.9e-25       1      87 []      98     182 ..      98     182 .. 0.96

  Alignments for each domain:
  == domain 1  score: 64.1 bits;  conditional E-value: 5e-22
                             -S--SEEEEEEEEE.ECGCTTEETEES.GGGGG..TTT-EEEETTEEEEEEEEEE.SSEEEEEEEHHHHHHSSGGG--TTSEEEEEE CS
              Lum_binding  1 tGiVeevgtvesiekeekledltielp.elakylvekGdsiavnGvcLTVvteeveeeeftvdvipeTlerttlgelkvgdkVNlEr 86
                             tG++++ g+v+ ie++  le   +e++ el++ + + +dsiavnGvcLT +  +v++++f++++++ Tl++t+lg l+ g+ VNlE 
  PHY93_06360|PHY93_06360  3 TGLIKDKGKVVLIEDN--LEGKIFEIEtELTPHI-AIDDSIAVNGVCLTAT--KVSDNKFRMQAVHVTLQKTNLGYLQLGSLVNLEL 84
                             8************644..4444444453455555.5567***********9..89*******************************7 PP

  == domain 2  score: 86.5 bits;  conditional E-value: 5e-29
                              -S--SEEEEEEEEE.ECGCTTEETEES.GGGGG..TTT-EEEETTEEEEEEEEEE.SSEEEEEEEHHHHHHSSGGG--TTSEEEEE CS
              Lum_binding   1 tGiVeevgtvesiekeekledltielp.elakylvekGdsiavnGvcLTVvteeveeeeftvdvipeTlerttlgelkvgdkVNlE 85 
                              +G+V++vgtv++i+++++  ++ +e+p +l+ky++++G sia++G++LTV+  +++e+++ v++ip+T+e+t+++ lk+g+kVN+E
  PHY93_06360|PHY93_06360  98 QGHVNAVGTVVEISNRGENFNIWCEIPqDLMKYIINEG-SIAIDGISLTVA--DIKENWVMVTIIPHTWEQTQVHLLKIGTKVNIE 180
                              8************888888899999999**********.***********9..89******************************* PP

                              EE CS
              Lum_binding  86 ra 87 
                              ++
  PHY93_06360|PHY93_06360 181 VD 182
                              97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (203 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       615  (0.034302); expected 358.6 (0.02)
Passed bias filter:                      431  (0.0240393); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.39
# Mc/sec: 1554.34
//
Query:       PHY93_06365|PHY93_06365  [L=403]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.2e-78  261.7   0.0    4.3e-78  261.2   0.0    1.2  1  DHBP_synthase    3,4-dihydroxy-2-butanone 4-phosphate synthas
      5e-60  201.8   0.0    9.8e-60  200.8   0.0    1.4  1  GTP_cyclohydro2  GTP cyclohydrolase II


Domain annotation for each model (and alignments):
>> DHBP_synthase  3,4-dihydroxy-2-butanone 4-phosphate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  261.2   0.0   4.8e-82   4.3e-78       2     190 ..       9     197 ..       8     199 .. 0.99

  Alignments for each domain:
  == domain 1  score: 261.2 bits;  conditional E-value: 4.8e-82
                              HHHHHHHTT--EEEESSTTTT-BEEEEEEGGG--HHHHHHHHHHB-S--EEEEEHHHHHHTT--BSSSS-SSTT---BB--EEESS CS
            DHBP_synthase   2 eaiealkaGkfvivvDdedrenegdLiiaAekvtpekvafmirhasGlicvalteeradeLeLplmveenedkhktaftvsvdaae 87 
                              e++e+++ Gk+vi++Dd drenegd+++aAe+vtpe+++fm+ +++Glic++++ e ad+L+L++mv++n+ +h+taftvs+da+e
  PHY93_06365|PHY93_06365   9 EVLEDIRLGKMVIMLDDYDRENEGDFVMAAEAVTPESINFMALYGRGLICAPVSLEIADKLNLHPMVQSNTATHETAFTVSIDAKE 94 
                              789*********************************************************************************** PP

                              T-SSS-SHHHHHHHHHHHH-TT--GGGEEEEEEEEEEEE-TTGGGTS-SHHHHHHHHHHHTTS-SBEEEEEBB-TTSCB-BHHHHH CS
            DHBP_synthase  88 gttTGIsaaDRalTirkladpkakpedfrrPGhvfplrareggvleRrghTEaavdLarlaglkpaavicellnddgtmarrdele 173
                              g++TGIsa+DRa+T++ l+++++  +df+rPGh+fpl+a+eggv +RrghTEaa+dLa+lag+k a+vice+l++dg+ ar +el 
  PHY93_06365|PHY93_06365  95 GISTGISARDRAHTVKLLVNDNSVGNDFSRPGHIFPLIAKEGGVIKRRGHTEAAIDLAELAGFKSAGVICEILREDGEQARGPELF 180
                              ************************************************************************************** PP

                              HHHHHHT-EEEEHHHHH CS
            DHBP_synthase 174 efakkhglkiitiedli 190
                              e+ak+++lki ti+dl+
  PHY93_06365|PHY93_06365 181 EVAKRFNLKIGTIHDLA 197
                              ***************96 PP

>> GTP_cyclohydro2  GTP cyclohydrolase II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  200.8   0.0   1.1e-63   9.8e-60       4     159 ..     217     377 ..     214     380 .. 0.95

  Alignments for each domain:
  == domain 1  score: 200.8 bits;  conditional E-value: 1.1e-63
                              EEEEEEETTEEEEEEEE--......EEEEEE-.........EEEEEE--HHHHHS-B--TTTTTHHHHHHHHHHHH-.EEEEEE-- CS
          GTP_cyclohydro2   4 aeaklptrfgefrliayed.kvdgkehlalvkgdi....pvlvRvHsecltgDvlgslrcdcgeqldealeliaeegrGvlvylrq 84 
                              +++++p+++g+f+l  +++ +  g+ehla+  gd     ++lvR+Hsec+tgDvlgslrcdcgeql++a+++iae+g+G+lvyl+q
  PHY93_06365|PHY93_06365 217 SRVDFPNKYGNFKLSLFRSsQFPGEEHLAIHLGDFkkqqKTLVRLHSECFTGDVLGSLRCDCGEQLEQAMKKIAERGHGILVYLKQ 302
                              4789*************87256789*************999********************************99*********** PP

                              TTTTTHHHHHHHHHHHHHCT--HHHHHHHHT--S-----HHHHHHHHHTT--EEEEE-S-HHHHHHHCTT....S CS
          GTP_cyclohydro2  85 egrgigllnklkayalqdeglDTveanlalglpadardygiaaqILkdlgvkkirLlTnnpekveaLegfgievv 159
                              egrgigl +kl+ay+lq++glDTveanl+lg+ adar+y+ a  IL+ +g+++++LlTnnp+k+ aL++ g +v 
  PHY93_06365|PHY93_06365 303 EGRGIGLSEKLRAYELQEKGLDTVEANLELGHLADARSYEFAGLILNFFGISEMELLTNNPAKLYALDELGFQVS 377
                              *********************************************************************999996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (403 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       442  (0.0246528); expected 358.6 (0.02)
Passed bias filter:                      420  (0.0234257); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.42
# Mc/sec: 2911.35
//
Query:       PHY93_06370|PHY93_06370  [L=152]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      4e-54  182.3   0.2    4.5e-54  182.1   0.2    1.0  1  DMRL_synthase  6,7-dimethyl-8-ribityllumazine synthase


Domain annotation for each model (and alignments):
>> DMRL_synthase  6,7-dimethyl-8-ribityllumazine synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  182.1   0.2   2.5e-58   4.5e-54       2     140 ..      12     149 ..      11     150 .. 0.98

  Alignments for each domain:
  == domain 1  score: 182.1 bits;  conditional E-value: 2.5e-58
                              EEEEEEEESTTHHHHHHHHHHHHHHHHHCTTSSCCEEEEEESSCCCHHHHHHHHCTSTT-.SEEEEEEEEE--SSCHHHHHHHHHH CS
            DMRL_synthase   2 lriaiVvarfneeitdkllegaldelkeagvaeenidvvtVPGafElplaakklaesskyldavialGvvirGetphfeyvaeavs 87 
                               ++aiV++rfn+ i++kl +ga d+l ++g++++++d+v+VPGafE+plaa  la+s+ky d+++++G+virG+t+h++yv+++++
  PHY93_06370|PHY93_06370  12 KKFAIVASRFNDLIVEKLSAGAHDALVRHGANANDVDTVYVPGAFEIPLAALALAKSGKY-DGIVCVGAVIRGATTHYDYVCNETA 96 
                              69******************************************************8777.************************* PP

                              HHHHHHHHHCTS-EEEEEEEESSHHCCHHCCTSTCCCHHHHHHHHHHHHHHHH CS
            DMRL_synthase  88 kglmrvsldtgvPvifgvltvdteeqaleraggkagnkGeeaaeaalemanll 140
                              kg+ +vsl+tgvP +fgvlt+++ eqa erag+k+gnkG e a a++em+nll
  PHY93_06370|PHY93_06370  97 KGISHVSLTTGVPCAFGVLTTENLEQAFERAGSKGGNKGYESAVAMIEMVNLL 149
                              **************************************************996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (152 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       368  (0.0205254); expected 358.6 (0.02)
Passed bias filter:                      330  (0.0184059); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.38
# Mc/sec: 1199.02
//
Query:       PHY93_06375|PHY93_06375  [L=469]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.7e-17   63.3   0.0    7.9e-17   62.5   0.0    1.4  1  Trypsin_2      Trypsin-like peptidase domain
    6.6e-10   39.2   0.0    1.2e-09   38.3   0.0    1.4  1  Trypsin        Trypsin
    2.9e-07   30.7   0.0      0.026   14.8   0.0    2.6  2  PDZ_2          PDZ domain
    7.5e-07   28.9   0.0      0.005   16.7   0.0    2.6  2  PDZ_6          PDZ domain
    2.6e-06   27.7   0.1      0.066   13.6   0.0    2.6  2  PDZ            PDZ domain
     0.0026   17.0   0.1        0.2   10.8   0.1    2.4  2  Peptidase_S32  Equine arteritis virus serine endopeptidase S3
  ------ inclusion threshold ------
      0.031   14.7   0.0      0.061   13.8   0.0    1.5  1  PolyA_pol      Poly A polymerase head domain
      0.079   12.8   0.2       0.27   11.1   0.2    1.9  2  Peptidase_S7   Peptidase S7, Flavivirus NS3 serine protease
       0.09   11.4   0.6       0.75    8.4   0.5    1.9  2  Peptidase_S46  Peptidase S46


Domain annotation for each model (and alignments):
>> Trypsin_2  Trypsin-like peptidase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.5   0.0   3.9e-20   7.9e-17       1     150 []      42     191 ..      42     191 .. 0.91

  Alignments for each domain:
  == domain 1  score: 62.5 bits;  conditional E-value: 3.9e-20
                Trypsin_2   1 GsG.fl..vgsdglilTnaHvvdsadgaavkaikkkveeagadgrevpakvvaadpel..DlAllkv.......ssderaglpplp 74 
                              GsG f+   +++g ilTnaHvv++  + ++       +   ++++ +++ +++  + l  D+Allk+        ++   ++p+l+
  PHY93_06375|PHY93_06375  42 GSGsFIriKNEEGFILTNAHVVKNGLKYRI-------RTMLTSEENFEVILIGMIETLepDVALLKLpthellrMKKMIGEIPYLE 120
                              6674444234558*****************.......78889999999999999976688**************999********* PP

                Trypsin_2  75 lgpsealkggepvyvvGyplggeksgsvssGivsgvvesesaasgegesflqtdaatspGsSGGplfdsdGrvvGl 150
                              l  ++ +k++ ++ ++Gyplg e++  +s+G+v+         s+++ +++ tdaa++pG+SGGp + +dG+++G+
  PHY93_06375|PHY93_06375 121 LERDDLIKRDLSIKAIGYPLGMEEP-NISTGKVTNFIF----GSEDECERIVTDAAINPGNSGGPAVTEDGKIIGI 191
                              ************************9.************....99999999*************************8 PP

>> Trypsin  Trypsin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.3   0.0   6.2e-13   1.2e-09      34     215 ..      53     209 ..      34     214 .. 0.73

  Alignments for each domain:
  == domain 1  score: 38.3 bits;  conditional E-value: 6.2e-13
                              TTEEEEEGGGTTTGGGEEEEESESBTTSCTTTEEEEEEEEEEEETTEBTTTTTTTEEEEEESSS..STSBSSBHCCBBCS.TTHTT CS
                  Trypsin  34 enwvlTAaHCvsnasdvkvvlgehnlkksegkeqklkvekvivhpnynpstldnDiallklkep..vklgdtvrpiclpa.asssl 116
                              e ++lT+aH+v+n  ++++       +   ++e++++v  +        +tl+ D+allkl +   +++++ +  i + + ++++l
  PHY93_06375|PHY93_06375  53 EGFILTNAHVVKNGLKYRI-------RTMLTSEENFEVILIGM-----IETLEPDVALLKLPTHelLRMKKMIGEIPYLElERDDL 126
                              459**********444544.......22223333455555433.....345667********999999999999999999855555 PP

                              .STTTEEEEEESSBSSTSSBSSBEEEEEEEEEEHHHHHHHTTTTSTTTEEEEESTTSSSBCTTTTTTSEEEETTTEEEEEEEEESS CS
                  Trypsin 117 .pvgttclvsGwgrtkekgksdtlqevevpvvsretcksaykgkvtenmlcagakeggkdacqGDSGGPlvcsdgelvGivswgkg 201
                               +   ++ ++G++   e+   +t + +++   s+++c++          + ++a     ++++G+SGGP+v++dg+++Gi++    
  PHY93_06375|PHY93_06375 127 iKRDLSIKAIGYPLGMEEPNISTGKVTNFIFGSEDECER----------IVTDA-----AINPGNSGGPAVTEDGKIIGINTSIVL 197
                              599999999999995554434556666666667779999..........78889.....9**********************9844 PP

                              SSCTTSEEEEEEGG CS
                  Trypsin 202 cakgnrpgvytkvs 215
                               a++  +g+ t+ s
  PHY93_06375|PHY93_06375 198 DANN--IGFITPAS 209
                              4444..68887765 PP

>> PDZ_2  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.0   1.3e-05     0.026       3      53 ..     229     289 ..     227     306 .. 0.83
   2 !   13.1   0.0   4.6e-05     0.091      12      67 ..     385     441 ..     377     447 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 1.3e-05
                              ..XX------............-EEEEEE-TTSGGGGT.--TT-EEEEETTB--SSHHHHH CS
                    PDZ_2   3 lGvsvsdeed..........tggvlvvsVkeggPaakaglkagDvilkvdgkkvksledli 53 
                              lG +++++++          + gv++++  ++g  akagl++ D++ k+++ + +s   ++
  PHY93_06375|PHY93_06375 229 LGGRFQKNSKnsaaylrsptSDGVIITTMFPNGLMAKAGLEPRDIVFKINEFEFDSHGIVK 289
                              7777777777788888888899****************************99988766555 PP

  == domain 2  score: 13.1 bits;  conditional E-value: 4.6e-05
                              -..-EEEEEE-TTSGGGGT.--TT-EEEEETTB--SSHHHHHHHHH.TS-TT-EEEE CS
                    PDZ_2  12 dtggvlvvsVkeggPaakaglkagDvilkvdgkkvksledlislll.kkkpGdtVkl 67 
                              d++++ v+ V  ++ a++ ++  gD+i k++g  + sl +++s  + k ++G+++ +
  PHY93_06375|PHY93_06375 385 DKRKLAVTFVSLNSFAEDIDIDLGDIISKINGISIYSLLEVESIFNeKIEKGEDIII 441
                              456888899999999**************************9988877778877766 PP

>> PDZ_6  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.6   0.0   0.00041      0.81       7      26 ..     259     278 ..     253     298 .. 0.87
   2 !   16.7   0.0   2.5e-06     0.005       2      43 ..     391     430 ..     391     435 .. 0.89

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.00041
                    PDZ_6   7 pgsPAdrAGlrvGDiilsvN 26 
                              p++  ++AGl++ Di+ ++N
  PHY93_06375|PHY93_06375 259 PNGLMAKAGLEPRDIVFKIN 278
                              777779*************9 PP

  == domain 2  score: 16.7 bits;  conditional E-value: 2.5e-06
                    PDZ_6   2 VtaVdpgsPAdrAGlrvGDiilsvNGqpveglsladvaallr 43 
                              Vt V  +s A+   +  GDii ++NG+++  +sl +v ++  
  PHY93_06375|PHY93_06375 391 VTFVSLNSFAEDIDIDLGDIISKINGISI--YSLLEVESIFN 430
                              6778899**********************..***99988765 PP

>> PDZ  PDZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.6   0.0   3.3e-05     0.066      13      61 ..     230     285 ..     219     306 .. 0.78
   2 !   11.3   0.1   0.00017      0.34      26      61 ..     387     422 ..     377     439 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 3.3e-05
                              SEEEEEETTSS.......SSSSEEEEEECTT.SHHHHHTSSTTEEEEEETTEETTTS CS
                      PDZ  13 Gfslkggsdqr.......gdkgifvsevlpg.gaaeadglkvGDkIlsvNgvdvenv 61 
                              G + + +s+++       ++ g++++ + p+  +a+a+ l++ D++ ++N   + ++
  PHY93_06375|PHY93_06375 230 GGRFQKNSKNSaaylrspTSDGVIITTMFPNgLMAKAG-LEPRDIVFKINEFEFDSH 285
                              556666777777788888999**********6666666.***********8655554 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 0.00017
                              SSEEEEEECTTSHHHHHTSSTTEEEEEETTEETTTS CS
                      PDZ  26 kgifvsevlpggaaeadglkvGDkIlsvNgvdvenv 61 
                              + + v+ v+ ++ ae   +  GD+I ++Ng ++ ++
  PHY93_06375|PHY93_06375 387 RKLAVTFVSLNSFAEDIDIDLGDIISKINGISIYSL 422
                              5789*******9999999************998776 PP

>> Peptidase_S32  Equine arteritis virus serine endopeptidase S32
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.0     0.017        33     110     137 ..      38      66 ..      33      82 .. 0.79
   2 !   10.8   0.1    0.0001       0.2     206     227 ..     173     194 ..     159     220 .. 0.87

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.017
                              SSSEEEEEEEECTTEE.EEEEEHHHH-TS CS
            Peptidase_S32 110 GsslGsGgvftidgev.vvvtashvlgdn 137
                              G  +GsG+   i++e   ++t +hv+ ++
  PHY93_06375|PHY93_06375  38 GNWSGSGSFIRIKNEEgFILTNAHVVKNG 66 
                              7789****999877652799******975 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 0.0001
                              -GGGTT-EEEETTE.EEEEEEE CS
            Peptidase_S32 206 kcGDsGspvvdedgelvGvhtG 227
                              ++G+sG p v+edg+++G+ t 
  PHY93_06375|PHY93_06375 173 NPGNSGGPAVTEDGKIIGINTS 194
                              79*****************995 PP

>> PolyA_pol  Poly A polymerase head domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   3.1e-05     0.061      28     119 ..      60     161 ..      47     168 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 3.1e-05
                              HHHHHHHHHHHHT-EEEEETTTTCCCCEECCEE.EEECCEECEEEE..EE---SSHHH...HHHHHHCTSSBGGGS-EEE...... CS
                PolyA_pol  28 peelakllrkkvkeallsgeefqtiavlekkql.levatfRlekde..sdarnpesekstesleeDlkrRDftiNalayn...... 104
                              ++ +++ l+ +++++l+s+e+f++i + + + l  +va ++l ++e  + ++   +  + e  ++Dl++RD++i a+ y       
  PHY93_06375|PHY93_06375  60 AHVVKNGLKYRIRTMLTSEENFEVILIGMIETLePDVALLKLPTHEllRMKKMIGEIPYLELERDDLIKRDLSIKAIGYPlgmeep 145
                              5668889999999999999999999998877666777777766554104444445667777889**************99888888 PP

                              .CTTTCEE-TTSHHHH CS
                PolyA_pol 105 .lnkgkvlDlfgGikd 119
                               +++gkv  ++ G +d
  PHY93_06375|PHY93_06375 146 nISTGKVTNFIFGSED 161
                              8888999999888887 PP

>> Peptidase_S7  Peptidase S7, Flavivirus NS3 serine protease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0       2.3   4.7e+03      79     103 ..     133     157 ..     129     168 .. 0.79
   2 ?   11.1   0.2   0.00013      0.27      87     117 ..     166     196 ..     163     205 .. 0.82

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 2.3
                              EEEEE.EEEEEXXXXXTT-TTSEEE CS
             Peptidase_S7  79 yqlyGyglgitdlnlssGsSGSlvl 103
                               + +Gy lg+++ n s G     ++
  PHY93_06375|PHY93_06375 133 IKAIGYPLGMEEPNISTGKVTNFIF 157
                              6889999999999999997655555 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 0.00013
                              EEEXXXXXTT-TTSEEE-TTSXEEEECEEEE CS
             Peptidase_S7  87 gitdlnlssGsSGSlvlnqnkqivgiYfatv 117
                              ++td   ++G SG ++++++++i+gi    v
  PHY93_06375|PHY93_06375 166 IVTDAAINPGNSGGPAVTEDGKIIGINTSIV 196
                              67888899******************66554 PP

>> Peptidase_S46  Peptidase S46
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.0     0.089   1.8e+02      50      72 ..      43      68 ..      38      73 .. 0.77
   2 ?    8.4   0.5   0.00037      0.75     625     652 ..     166     193 ..     154     205 .. 0.89

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.089
                             E-EE-...STT-EEEE-HHHHHHHHH CS
            Peptidase_S46 50 tasfV...SpeGLvlTNHHCaygaiq 72
                             ++sf+    +eG +lTN H++ + ++
  PHY93_06375|PHY93_06375 43 SGSFIrikNEEGFILTNAHVVKNGLK 68
                             56666333589*********988766 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.00037
                              EEES----TT-TT-EEE-TTS-EEEEEE CS
            Peptidase_S46 625 flstnDitGGNSGSPvlngkgelvGlaF 652
                               ++++ i  GNSG P + ++g+++G++ 
  PHY93_06375|PHY93_06375 166 IVTDAAINPGNSGGPAVTEDGKIIGINT 193
                              58999999*****************985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (469 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       383  (0.021362); expected 358.6 (0.02)
Passed bias filter:                      329  (0.0183502); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.58u 0.23s 00:00:00.81 Elapsed: 00:00:00.42
# Mc/sec: 3370.18
//
Query:       PHY93_06380|PHY93_06380  [L=241]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    7.2e-73  244.9   0.2    8.1e-73  244.8   0.2    1.0  1  Transcrip_reg  Transcriptional regulator


Domain annotation for each model (and alignments):
>> Transcrip_reg  Transcriptional regulator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  244.8   0.2   4.5e-77   8.1e-73       2     240 .]       4     234 ..       3     234 .. 0.96

  Alignments for each domain:
  == domain 1  score: 244.8 bits;  conditional E-value: 4.5e-77
                              XCHHCCCCCCHCCCCHHHHHHHHHHHHHHHHHTHH-S-GGG-HHHHHHHHHHHHTT--HHHHHHHHHHCCSTS.TS.--EEEEEEE CS
            Transcrip_reg   2 kWsnikhkKaandakkgklftklakeItvaakeeggpDpesNprLraaiekakkanvpkdnIeraIkkgagekseganyeevtyeg 87 
                              kW+nik+kK+ +d+ ++ ++tk+ +e+t a+k+ gg+ +esN+ Lr a+ek +k+nvpkdnI+raIkkg g+  e++ y ++ yeg
  PHY93_06380|PHY93_06380   4 KWNNIKEKKGDQDKIRSLMYTKCLREVTKAVKN-GGEAVESNFLLRIALEKSRKYNVPKDNIDRAIKKGLGN--EDEGYADIAYEG 86 
                              9*******************************6.99**********************************97..5667******** PP

                              EETTTEEEEEEEEES-HHHHHHHHHHHHHHTT-EEE-TTSSGGGEEEEEEEEEECCHCT-HHHHHHHHHHHHTESEEEEETTTC.E CS
            Transcrip_reg  88 ygpggvavivealTdnknrtaaevrsifsknggnlgesgsvsflFerkgvivveekeeevdedelleaaieaGaeDveedeeeevi 173
                              ygp+gva+ vea T+n +rt+a++r+ f+k+ g+lg++g+ +f+Ferk+v+++ ++  +  ed+++ ++i++Ga+Dv    e++++
  PHY93_06380|PHY93_06380  87 YGPNGVAIFVEASTNNGTRTVANIRNFFNKCSGSLGTTGCLQFVFERKAVFEI-PQG-KLVEDDFTLDMIDVGADDVIL--EDGYF 168
                              *****************************************************.654.9*******************8..689** PP

                              EEEEEGGGHHHHHHHHHHTTT---SEEEEEEEESS-EE--HHHHHHHHHHHHHHHTSTTEEEEEESE CS
            Transcrip_reg 174 evitepedlaavkkaLeeagglevesaeleyipkeeveldeeeaekleklidaLeeldDVqnvytNi 240
                              +v++++e +  ++++L++ + ++ e+a+le +p ++ e+d+e+ ++++kl+d Le +dDV++vy+Ni
  PHY93_06380|PHY93_06380 169 TVTAPMEAFGVIQSKLDQLK-ITAEEAGLERLPLTYKEIDKETFKTVMKLVDLLESDDDVTKVYHNI 234
                              ****************9995.56*******************************************7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (241 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       576  (0.0321267); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.20s 00:00:00.68 Elapsed: 00:00:00.38
# Mc/sec: 1913.51
//
Query:       PHY93_06385|PHY93_06385  [L=525]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.8e-37  127.5   0.1    2.4e-23   83.2   0.0    3.1  3  ABC_tran      ABC transporter
      1e-19   70.3   0.6    1.7e-19   69.6   0.6    1.4  1  ABC_tran_Xtn  ABC transporter
    1.4e-10   41.5   3.6    9.7e-05   22.3   0.1    3.3  4  AAA_21        AAA domain, putative AbiEii toxin, Type IV TA s
    1.5e-07   31.1   1.5       0.22   11.0   0.1    3.2  3  SMC_N         RecF/RecN/SMC N terminal domain
    0.00058   19.5   0.0     0.0089   15.7   0.0    2.5  2  AAA_29        P-loop containing region of AAA domain
     0.0014   19.2   6.2     0.0083   16.7   0.4    2.7  3  AAA_23        AAA domain
  ------ inclusion threshold ------
      0.026   14.3   0.1      0.026   14.3   0.1    3.0  2  AAA_15        AAA ATPase domain
       0.03   14.2   0.0        0.1   12.5   0.0    1.9  1  RsgA_GTPase   RsgA GTPase
      0.063   13.4   0.0       0.17   12.0   0.0    1.8  1  MMR_HSR1      50S ribosome-binding GTPase
        0.1   13.0   0.2        2.2    8.7   0.3    3.1  2  AAA           ATPase family associated with various cellular 
       0.15   12.4   0.7        4.1    7.8   0.0    2.7  3  RNA_helicase  RNA helicase
       0.47   10.8   2.1        0.9    9.9   0.4    2.1  2  DUF2098       Uncharacterized protein conserved in archaea (D


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   83.2   0.0   1.6e-26   2.4e-23       2     137 .]      18     184 ..      17     184 .. 0.94
   2 ?    0.4   0.1      0.56   8.4e+02      46     107 ..     222     287 ..     212     297 .. 0.70
   3 !   39.9   0.0   3.7e-13   5.5e-10       2     137 .]     336     466 ..     335     466 .. 0.84

  Alignments for each domain:
  == domain 1  score: 83.2 bits;  conditional E-value: 1.6e-26
                              EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH........ CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx........ RF
                 ABC_tran   2 knvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren........ 79 
                              ++v++k+ +g++++++G nGaGKSt++k+lag+     G++                ++++vl+q+++lf++++v +         
  PHY93_06385|PHY93_06385  18 EDVDIKFTPGNCYGLIGANGAGKSTFIKILAGEIPSSTGTVF-----------ITPGQRLSVLKQDHFLFDDIEVLKVvimgnkkl 92 
                              6899*************************************4...........458999**************9999999****** PP

                              .....................................HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSS CS
                              .....................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 .....................................esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpk 128
                                                                   e+++e++++ls lg+ke   + +++++++L gG k++v la+al+ kp+
  PHY93_06385|PHY93_06385  93 leimdekdalyakedfsdedglraadleaafaemngwEAESEAATLLSGLGIKE---ELLSRKMNELNGGDKVKVLLAQALFGKPD 175
                              *********************999999999999999999999999999999888...7777778********************** PP

                              EEEEESTTT CS
                              xxxxxxxxx RF
                 ABC_tran 129 llllDEpta 137
                              +lllDEpt+
  PHY93_06385|PHY93_06385 176 ILLLDEPTN 184
                              ********8 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.56
                              TCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH....HHHTCHHHHHHHSTTGGTTCBGESTTSG CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  46 gkdlkeqeleslrkeigvlpqepqlfpeltvren....esdeeiekalsklglkelkdtvvkssps 107
                              ++d++  ++++++ +  +  q +ql  +l+  +n    e+ +++++++++++ +  k + ++s+++
  PHY93_06385|PHY93_06385 222 MADIDFGKIQIFSGNYDFWYQSSQLAMTLKSNQNkkteEKMKDLKDFIARFSANASKSKQATSRQK 287
                              456666778888888889999999998888666655554444477777777777766666655555 PP

  == domain 3  score: 39.9 bits;  conditional E-value: 3.7e-13
                              EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS.--S-TTSBHHHHHHHTCHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxx RF
                 ABC_tran   2 knvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqe.pqlfpeltvrenesdeeie 86 
                              kn+s++l+++ k++++G+  a K  L+ +lag +k ++G i++    ++ q+  + + +++++ +   +l + l  r+  +d++ +
  PHY93_06385|PHY93_06385 336 KNISFQLRKSDKIVLLGDDLA-KGVLMDILAGVTKADSGVINWG---VTAQRSYFPSDNSQYFVEGkYNLVDWL--RDFSEDKDES 415
                              8*****************977.*******************665...666667888889988888767888888..5555555556 PP

                              HHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  87 kalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                               ++  lg   +  + + ++++ LSgG+k+r++l +++l++p++ll+D pt+
  PHY93_06385|PHY93_06385 416 FVRGFLGRMLFSGEEALKKTNVLSGGEKVRMMLSKMMLEAPNVLLMDGPTN 466
                              66666666667777777999*****************************97 PP

>> ABC_tran_Xtn  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.6   0.6   1.1e-22   1.7e-19       2      81 ..     224     305 ..     223     309 .. 0.93

  Alignments for each domain:
  == domain 1  score: 69.6 bits;  conditional E-value: 1.1e-22
             ABC_tran_Xtn   2 elengklteYkGnYseyleekeerleqqqkayekqqkeikkleefIerfrakakkakqaqsrekaLekl..ekiekpeekkp 81 
                              +++ gk++ ++GnY+ +++  + ++  +  +++k ++++k+l++fI+rf+a+a+k+kqa sr+k L+k+  e+i+++++k p
  PHY93_06385|PHY93_06385 224 DIDFGKIQIFSGNYDFWYQSSQLAMTLKSNQNKKTEEKMKDLKDFIARFSANASKSKQATSRQKTLDKItlEDIKPSTRKYP 305
                              89*******************************************************************8888988876655 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0     1e-06    0.0015       3      20 ..      31      48 ..      29      83 .. 0.81
   2 !   22.3   0.1   6.5e-08   9.7e-05     248     303 .]     165     216 ..     155     216 .. 0.83
   3 ?   -2.7   0.0       2.7   4.1e+03     167     201 ..     267     301 ..     238     335 .. 0.55
   4 ?   -1.5   0.0       1.1   1.7e+03     255     298 ..     456     493 ..     437     497 .. 0.72

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 1e-06
                   AAA_21  3 vliGpNgsGKSnLLdald 20
                             +liG+Ng+GKS+++++l 
  PHY93_06385|PHY93_06385 31 GLIGANGAGKSTFIKILA 48
                             79***************4 PP

  == domain 2  score: 22.3 bits;  conditional E-value: 6.5e-08
                   AAA_21 248 ltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQviltTHSpllld 303
                              l+a +   k+ ++ll+DEp n+L+ k+++ l  +l +  +    vi+++H+ ++l+
  PHY93_06385|PHY93_06385 165 LLAQALFGKP-DILLLDEPTNHLDIKAIHWLENFLANFLN---TVIVVSHDRHFLN 216
                              4444444444.************************88866...9*******88876 PP

  == domain 3  score: -2.7 bits;  conditional E-value: 2.7
                   AAA_21 167 gllnifadyfgfakekrllqrlvrslklveielsd 201
                              ++   f +++ ++k  + +q+ ++++ l +i++s+
  PHY93_06385|PHY93_06385 267 DFIARFSANASKSKQATSRQKTLDKITLEDIKPST 301
                              33333333333334444444444443333333333 PP

  == domain 4  score: -1.5 bits;  conditional E-value: 1.1
                   AAA_21 255 lkkgsllliDEpEngLHPkllrrllellkelsrngaQviltTHS 298
                              +    +ll D p n+L+ + ++++ e lk+    ++ +i++ H+
  PHY93_06385|PHY93_06385 456 P---NVLLMDGPTNHLDLESITSVNEGLKK---YDSALIFSCHD 493
                              4...68999999999999777666544433...34567777776 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.5   0.0    0.0017       2.5      17      42 ..      19      45 ..      11      48 .. 0.76
   2 !   10.4   0.0   0.00021      0.32     120     205 ..     132     218 ..     115     232 .. 0.85
   3 !   11.0   0.1   0.00014      0.22     135     212 ..     300     508 ..     238     514 .. 0.69

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0017
                             EEEEETTSS.EEEEEESTTSSHHHHHH CS
                             xxxxxxxxx.xxxxxxxxxxxxxxxxx RF
                    SMC_N 17 tvilpfsks.ftaivGpNGSGKsnlld 42
                              v+++f+++    ++G+NG+GKs ++ 
  PHY93_06385|PHY93_06385 19 DVDIKFTPGnCYGLIGANGAGKSTFIK 45
                             56677776415679*********9985 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 0.00021
                              HHHHHHHHHCTT-STTCS-HHHHHHH...HHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTTSEEEEE-SSHHHC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 120 kkevsellesagiskelLSgGektLv...alaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkeksknaQfivislreeml 202
                              ++e + ll+  gi++elLS+    L     + +l+A   + +  + llDe   +LD k ++ + ++l +      +iv+s+++++l
  PHY93_06385|PHY93_06385 132 ESEAATLLSGLGIKEELLSRKMNELNggdKVKVLLAQALFGKPDILLLDEPTNHLDIKAIHWLENFLANFL--NTVIVVSHDRHFL 215
                              46778899999999999999888887333589999*99999999************************999..679*******999 PP

                              CC- CS
                              xxx RF
                    SMC_N 203 eka 205
                              +k+
  PHY93_06385|PHY93_06385 216 NKV 218
                              986 PP

  == domain 3  score: 11.0 bits;  conditional E-value: 0.00014
                              T..................................................................................... CS
                              x..................................................................................... RF
                    SMC_N 135 e..................................................................................... 135
                              +                                                                                     
  PHY93_06385|PHY93_06385 300 Strkypfiifkpkkeigkdvlnvekltktvdgkvlfknisfqlrksdkivllgddlakgvlmdilagvtkadsgvinwgvtaqrsy 385
                              24444445555555555555555555555555555555555566666777777777777777777777777777777777777777 PP

                              ...................................................CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTT CS
                              ...................................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 136 ...................................................lLSgGektLvalaLlfAiqkvkpaplyllDeidaa 170
                                                                                 +LSgGek      ++++  + +   + l+D    +
  PHY93_06385|PHY93_06385 386 fpsdnsqyfvegkynlvdwlrdfsedkdesfvrgflgrmlfsgeealkktnVLSGGEKV----RMMLSKMMLEAPNVLLMDGPTNH 467
                              7777777777777777777777777777777888888888888888888889*****95....556666688889999******** PP

                              S-HHHHHHHHHHHHHHCTTSEEEEE-SSHHHCCC-.SCEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxx RF
                    SMC_N 171 LDeknvkkvaellkeksknaQfivislreemleka.dklvgvt 212
                              LD + ++ v e lk+    + +i  ++++e+++ + ++++ ++
  PHY93_06385|PHY93_06385 468 LDLESITSVNEGLKKYD--SALIFSCHDHEFVQTVaNRIIDIQ 508
                              **************999..8999999*9999987647777665 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0     6e-06    0.0089      12      39 ..      17      44 ..      14      48 .. 0.90
   2 ?    0.4   0.0      0.36   5.4e+02       6      27 ..     374     395 ..     371     399 .. 0.65

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 6e-06
                   AAA_29 12 fdghtieidlkgatlltGpsGsGKSTll 39
                             f++ +i++++ + + l+G++G+GKST++
  PHY93_06385|PHY93_06385 17 FEDVDIKFTPGNCYGLIGANGAGKSTFI 44
                             888999999999999***********98 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.36
                   AAA_29   6 lvNWgtfdg.htieidlkgatll 27 
                              ++NWg   +   ++ d +  +++
  PHY93_06385|PHY93_06385 374 VINWGVTAQrSYFPSDNS-QYFV 395
                              89***9988455555433.3555 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.4   5.5e-06    0.0083      10      38 ..      17      46 ..      12      49 .. 0.88
   2 ?    4.7   0.7     0.025        38     133     188 ..     236     292 ..     199     355 .. 0.67
   3 ?   -3.3   0.0       7.1   1.1e+04      39      69 ..     375     411 ..     374     419 .. 0.65

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 5.5e-06
                   AAA_23 10 frdqeidFsk.gltlItGpNGaGKTTildA 38
                             f+d++i F + + + ++G NGaGK+T++  
  PHY93_06385|PHY93_06385 17 FEDVDIKFTPgNCYGLIGANGAGKSTFIKI 46
                             799*****8868**************9975 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.025
                   AAA_23 133 nlilflgqerfeefelkdkkerleelekeleeled.ekkllekleqekekekeleel 188
                              n+ + +++++ ++ ++++++++ ee  k+l++  + +     k +q+ +++k+l+++
  PHY93_06385|PHY93_06385 236 NYDFWYQSSQLAMTLKSNQNKKTEEKMKDLKDFIArFSANASKSKQATSRQKTLDKI 292
                              444455555555555555555555554444443331444444445555555555554 PP

  == domain 3  score: -3.3 bits;  conditional E-value: 7.1
                   AAA_23  39 iklaLygetprlsrksgrgfeksdveiese......g 69 
                              i ++ + + + +++++++ f+++++++ ++      +
  PHY93_06385|PHY93_06385 375 INWGVTAQRSYFPSDNSQYFVEGKYNLVDWlrdfseD 411
                              6788888888888888888888887765554444433 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.1   1.7e-05     0.026      12      43 ..      15      47 ..      15     112 .. 0.90
   2 ?    1.8   0.3       0.1   1.5e+02     323     368 ..     173     214 ..     164     215 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.7e-05
                   AAA_15 12 Rslkdveidlsee.ltvliGkNnsGKSsileal 43
                             + ++dv+i++ +     liG+N++GKS+++++l
  PHY93_06385|PHY93_06385 15 KLFEDVDIKFTPGnCYGLIGANGAGKSTFIKIL 47
                             67999999999966778**************98 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.1
                   AAA_15 323 knvilliEEPEahLHpqaqkvlikllkelandnktQviitTHSphi 368
                              k++ill++EP +hL ++a   l + l++ +n+     i+ +H  h+
  PHY93_06385|PHY93_06385 173 KPDILLLDEPTNHLDIKAIHWLENFLANFLNTV----IVVSHDRHF 214
                              789***************999999999999987....888898887 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0     7e-05       0.1     100     130 ..      28      58 ..       7      64 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 7e-05
                              SEEEEECSTTSSHHHHHHHHCTT-----S-- CS
              RsgA_GTPase 100 ktsvlvGqSGvGKStLinallpelelktgev 130
                              ++  l+G  G+GKSt+i+ l++e   +tg v
  PHY93_06385|PHY93_06385  28 NCYGLIGANGAGKSTFIKILAGEIPSSTGTV 58 
                              77789******************99999876 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   0.00012      0.17       3      40 ..      31      68 ..      29     124 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00012
                             EEEESTTSSHHHHHHHHHTSTEEESSSTTSSSSEEEEE CS
                 MMR_HSR1  3 aivGrpNvGKStLinaltgekaivsdkpgtTrdinegr 40
                             +++G   +GKSt+i+ l ge    + + + T   +   
  PHY93_06385|PHY93_06385 31 GLIGANGAGKSTFIKILAGEIPSSTGTVFITPGQRLSV 68
                             79*****************9877777777776655555 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.7   0.3    0.0015       2.2       3      74 ..      32     106 ..      30     189 .. 0.70
   2 ?   -0.6   0.0       1.1   1.6e+03      33      65 ..     430     462 ..     424     466 .. 0.79

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 0.0015
                              EESSTTSSHHHHHHHHHHHH...THEEEEEETTTCSSSSTTHHHHHHHHHHHHHHHTS......TSEEEEEETGGGHHHHH CS
                      AAA   3 lyGppGtGKTllakavakel...gvefleisgsellskyvgesekkirelfkeakeka......kpsilfiDEidalaksr 74 
                              l+G  G GK++++k +a e+     +++ + g +l         k+ + lf++++  +      k+   ++DE dal  ++
  PHY93_06385|PHY93_06385  32 LIGANGAGKSTFIKILAGEIpssTGTVFITPGQRLS------VLKQDHFLFDDIEVLKvvimgnKKLLEIMDEKDALYAKE 106
                              89*****************74333445555555555......444444455555444444454333444566666666665 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 1.1
                              TCS.SSSTTHHHHHHHHHHHHHHHTSTSEEEEEE CS
                      AAA  33 ell.skyvgesekkirelfkeakekakpsilfiD 65 
                              e l +  v  + +k+r++++++  +a p +l++D
  PHY93_06385|PHY93_06385 430 EALkKTNVLSGGEKVRMMLSKMMLEA-PNVLLMD 462
                              55533467788899*****9998888.9****99 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   0.0    0.0028       4.1       3      25 ..      32      54 ..      31      87 .. 0.79
   2 ?    1.5   0.3      0.26   3.9e+02      20      92 ..     216     287 ..     212     292 .. 0.65
   3 ?   -2.3   0.0         4     6e+03      40     100 ..     390     451 ..     379     457 .. 0.59

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0028
             RNA_helicase  3 lyGpsgeGKStlakeLakallkk 25
                             l G++g GKSt++k La ++ ++
  PHY93_06385|PHY93_06385 32 LIGANGAGKSTFIKILAGEIPSS 54
                             679************99887644 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.26
             RNA_helicase  20 kallkklklkkkdsvysrnpeddfwdgYtgqevvvidDfgqvkdee.npsdlaelirlvsstpyplnmasleek 92 
                              +++++++ ++  +++ + + + dfw++ +  +  +    +q+k++e + +dl+++i  +s +  + + a   +k
  PHY93_06385|PHY93_06385 216 NKVCTHMADIDFGKIQIFSGNYDFWYQSS--QLAMTLKSNQNKKTEeKMKDLKDFIARFSANASKSKQATSRQK 287
                              55566665555566666666777886554..3333334456665555888999999999998888888877766 PP

  == domain 3  score: -2.3 bits;  conditional E-value: 4
             RNA_helicase  40 eddfwdgYtgqevvvidDfgqvkdee.npsdlaelirlvsstpyplnmasleekgtlftSkv 100
                              +++++   + + v +  Df+++kde+     l  ++   + +  ++n+ s  ek +++ Sk+
  PHY93_06385|PHY93_06385 390 NSQYFVEGKYNLVDWLRDFSEDKDESfVRGFLGRMLFSGEEALKKTNVLSGGEKVRMMLSKM 451
                              55555555556666777888888886555555555555555555555555555555555555 PP

>> DUF2098  Uncharacterized protein conserved in archaea (DUF2098)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.1       1.2   1.8e+03      43      69 ..      90     116 ..      85     137 .. 0.63
   2 ?    9.9   0.4    0.0006       0.9      38      82 ..     238     281 ..     230     292 .. 0.67

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 1.2
                  DUF2098  43 vdtLevidekekkkekeekekedleel 69 
                               + Le++dek+  ++ke+ ++ed  + 
  PHY93_06385|PHY93_06385  90 KKLLEIMDEKDALYAKEDFSDEDGLRA 116
                              678999999996666666666554333 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 0.0006
                  DUF2098  38 dLyYrvdtLevidekekkkekeekekedleelekkekeleeevde 82 
                              d +Y++++L ++ ++ ++++k e++ +dl+++ ++ ++ +++ ++
  PHY93_06385|PHY93_06385 238 DFWYQSSQLAMTLKS-NQNKKTEEKMKDLKDFIARFSANASKSKQ 281
                              68**********965.55555555666666666665555533333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (525 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1366  (0.0761894); expected 358.6 (0.02)
Passed bias filter:                      805  (0.0448993); expected 358.6 (0.02)
Passed Vit filter:                       106  (0.00591221); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.73u 0.28s 00:00:01.01 Elapsed: 00:00:00.44
# Mc/sec: 3608.79
//
Query:       PHY93_06390|PHY93_06390  [L=83]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.084   12.9   0.0      0.089   12.8   0.0    1.1  1  Allantoicase  Allantoicase repeat


Domain annotation for each model (and alignments):
>> Allantoicase  Allantoicase repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0     5e-06     0.089      33      70 ..      19      55 ..      10      73 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 5e-06
             Allantoicase 33 etrRrreegehdwviikLgasgviegvevdtahFkgna 70
                             e +Rr  ++ ++ +iikL + ++i+ vevdt     n+
  PHY93_06390|PHY93_06390 19 EKARRIVKE-NNEMIIKLKEDSNIALVEVDTFSEASNF 55
                             567888555.999******************7766665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (83 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       644  (0.0359195); expected 358.6 (0.02)
Passed bias filter:                      402  (0.0224218); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 632.33
//
Query:       PHY93_06395|PHY93_06395  [L=43]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (43 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       797  (0.0444531); expected 358.6 (0.02)
Passed bias filter:                      485  (0.0270511); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.40
# Mc/sec: 324.16
//
Query:       PHY93_06400|PHY93_06400  [L=898]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
   2.1e-108  362.6   0.5   3.3e-108  361.9   0.1    1.5  2  RapA_C         RNA polymerase recycling family C-terminal
    2.8e-19   68.8   0.0    6.1e-19   67.7   0.0    1.6  1  Tudor_1_RapA   RapA N-terminal Tudor like domain 1
    1.3e-15   57.0   0.0    2.3e-15   56.2   0.0    1.3  1  SNF2_N         SNF2 family N-terminal domain
    1.3e-14   54.1   0.0    5.5e-14   52.1   0.0    2.1  2  Tudor_RapA     RapA N-terminal Tudor like domain
    2.4e-13   50.4   0.0    2.9e-12   46.9   0.0    2.7  2  Helicase_C     Helicase conserved C-terminal domain
    1.9e-10   41.0   0.2      4e-09   36.7   0.0    2.5  2  ResIII         Type III restriction enzyme, res subunit
    7.7e-06   25.8   0.1    4.9e-05   23.2   0.0    2.4  2  DEAD           DEAD/DEAH box helicase
  ------ inclusion threshold ------
      0.045   13.7   0.0       0.23   11.4   0.0    2.2  1  Flavi_DEAD     Flavivirus DEAD domain
       0.22   12.0   2.6        2.8    8.4   0.0    3.3  3  DUF1493        Protein of unknown function (DUF1493)
       0.27   11.6   1.5       0.48   10.7   0.3    2.1  2  CBFD_NFYB_HMF  Histone-like transcription factor (CBF/NF-Y) a


Domain annotation for each model (and alignments):
>> RapA_C  RNA polymerase recycling family C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       1.3   2.4e+03     161     190 ..     250     279 ..     220     300 .. 0.74
   2 !  361.9   0.1  1.9e-111  3.3e-108       1     357 [.     539     898 .]     539     898 .] 0.98

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 1.3
                              HTTS-S---STTSTHHHHHHHHHTT--SSS CS
                   RapA_C 161 etAlareDvqFltwehPlvrgaldlilsse 190
                                A+ar+ ++  tw+  +v++a  l  s+e
  PHY93_06400|PHY93_06400 250 GAAMARDMMDQATWDIMIVDEAHQLKWSQE 279
                              579999999999999999999887766665 PP

  == domain 2  score: 361.9 bits;  conditional E-value: 1.9e-111
                              -EEEEEEEETTSHHHHHHHHHHHHH-TTTS--TTSHHHHTTSHHHHHHHHHS.....---STTHHHHHHHHHHHHHHHHHSTTT-- CS
                   RapA_C   1 diqihVPylegsaqevllrWYhegLnafeetcpagqavyeefkeeLeellak.....edeealeeLiaetraerealkaeleqGRD 81 
                              di+ih Py+  s +e+l+ WYhegLnafe++ + ++ v+++++  Lee+l+k     ++ + l++++a+t++e++++ ++le+GRD
  PHY93_06400|PHY93_06400 539 DINIHMPYVMSSYEEILFSWYHEGLNAFEHSAKGASIVHQQLQGLLEEYLKKpeiclDKPDILQQFLATTKKEYAEVVKKLEEGRD 624
                              7***************************************************7654449999************************ PP

                              HHHHHHTT-SHHHHHHHHHHHCCC--TTHHHHCHHHHHHHTEEEE--SSSSEEEEE-STT--TT-S--S--EE-S-HHHHTTS-S- CS
                   RapA_C  82 rLLElnScrpekaeelveaiaeedndteleeflerlfdaigveqedkseksivlrpsehmlveafpglpedGltvTfdRetAlare 167
                               L+ElnS+++ekae l+++i+++d++++l+++++++f+ +gv+ ed ++++++++ps++m v++fpgl+++G+ +T+dR+tA  re
  PHY93_06400|PHY93_06400 625 ILIELNSFNEEKAEVLLREIRKFDEESNLPNYMSEVFQELGVDIEDLDDNIYFIKPSDNMYVPHFPGLDSEGVRITYDRKTARRRE 710
                              ************************************************************************************** PP

                              --STTSTHHHHHHHHHTT--SSSSB--S-S-SSS-S--S-----B---B----S-GGG-GGGT--------B-SSSS-B--S-STT CS
                   RapA_C 168 DvqFltwehPlvrgaldlilsselGnaavallknkalpagtlllElifvveaqapkalqlerfLpptpirllldekgkdlsekvsf 253
                              Dv+Fltw+hP+v +++dli+s+++Gn +v + k++   + ++++E+ f + a+apk+l  er++pptpir+l+d++g+d+s+k+s+
  PHY93_06400|PHY93_06400 711 DVEFLTWDHPMVVSVMDLIVSNTFGNVTVMMRKKA--GQAKTFIEAYFKLYAIAPKNLSPERYFPPTPIRILVDSTGEDFSDKWSK 794
                              *****************************995554..59999******************************************** PP

                              TSTT-------STTSSTTSSS-SHHHHTTTTTTTTSSSHHHHHHHHHHHHHHHHHHHHHTHHHHTHHHH--S--SSSHHHHTTTHH CS
                   RapA_C 254 eslnkqlkkvkkklarklvkakrkeiekllkkaeklaeeqaeelieeakaraeqelsaEleRLeaLkavNpnirdeeiealeeqre 339
                              + +++++   + ++++k     +++i+k+lk+a+++a  +ae l+ + k+++ ++l  E eRL +Lk+vNp +r eei+al+ q+ 
  PHY93_06400|PHY93_06400 795 DDIDDRAVMADGDTVKKARTLPKAAIQKILKQAHQHALVRAEVLKVAYKKAMMDKLMGEKERLLKLKEVNPIVRTEEIDALTIQML 880
                              ************************************************************************************** PP

                              HHTTTTT----B----B- CS
                   RapA_C 340 ellealdqaqlrLdAiRl 357
                               l++  ++a + Ld+iR+
  PHY93_06400|PHY93_06400 881 MLNKSYNNADVILDSIRV 898
                              *****************8 PP

>> Tudor_1_RapA  RapA N-terminal Tudor like domain 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.7   0.0   3.4e-22   6.1e-19       2      51 .]       2      51 ..       1      51 [. 0.98

  Alignments for each domain:
  == domain 1  score: 67.7 bits;  conditional E-value: 3.4e-22
             Tudor_1_RapA  2 avGQRWiSetEseLGLGivvevdgrtVtilFpaageeRtYatanApLtRv 51
                             +vGQR++SetE+eLGLGi++ v+++tV+i+F+a+++eRtY  + Ap++Rv
  PHY93_06400|PHY93_06400  2 KVGQRYMSETEPELGLGIITMVESKTVKIAFSASKTERTYGSSGAPIKRV 51
                             59***********************************************8 PP

>> SNF2_N  SNF2 family N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.2   0.0   1.3e-18   2.3e-15      59     244 ..     166     334 ..     154     352 .. 0.81

  Alignments for each domain:
  == domain 1  score: 56.2 bits;  conditional E-value: 1.3e-18
                              EE---TTS--HHHHHHHHH...HHTTTS---.......S-EEEE--HHHHHHHHHHHHHH-TTS-EEE--SSHHHH---------- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   SNF2_N  59 iLaDemGLGKTvqvlalilaqrakeekdkekkrkdtlagptLivvPaslldqWeneierhvsssalrvlvyggqkkmkkkntkvap 144
                              +LaDe GLGKT+++   ++++   e  ++           +Li+vP sl+ qW  e+ r  + s     + ++++     + +   
  PHY93_06400|PHY93_06400 166 LLADEVGLGKTIEAGLALHHLILSERVKR-----------ALILVPDSLVYQWFVEMFRKFNLSF---TTLNQET-----HLEPGT 232
                              8************9666665555433333...........7************999888777663...3344433.....345568 PP

                              -------EEEE-HHHHHHHT......TTS-S-S-SEEEES-GGGT--TTSHHH...HHHHH--..-S-EEEE-S--SSS-HHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxx..xxxxxxxxxxxxxxxxxxxxx RF
                   SNF2_N 145 klladydvvittYdvlsreaelqkkrsvlkqvewkrvvlDEghtlknstskaa...eavskLs..tsnrwiltGTPiqnsledlyg 225
                              + + d d vi++   l+  a     r+ + q  w+ +++DE+h+lk s+ k++   ++v++++  t+  ++lt+TP q +le  ++
  PHY93_06400|PHY93_06400 233 NPFLDNDFVIVNIGLLKGAA---MARDMMDQATWDIMIVDEAHQLKWSQEKVSieyQIVERIAkkTKGLLLLTATPEQLGLEGHFA 315
                              999**************777...89***********************8776422278888874566779**************** PP

                              HHHHH-TTTT--HHHHHHH CS
                              xxxxxxxxxxxxxxxxxxx RF
                   SNF2_N 226 LlkfLreepfgekqtfdkl 244
                               lk+L ++ f +++ f   
  PHY93_06400|PHY93_06400 316 RLKLLDPDRFFNYHEFLAE 334
                              ************9998655 PP

>> Tudor_RapA  RapA N-terminal Tudor like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.1   0.0   3.1e-17   5.5e-14       1      63 []      53     110 ..      53     110 .. 0.98
   2 ?   -1.9   0.0       2.1   3.9e+03      46      58 ..     670     682 ..     669     685 .. 0.87

  Alignments for each domain:
  == domain 1  score: 52.1 bits;  conditional E-value: 3.1e-17
               Tudor_RapA   1 FnvGDeiesqegwkltVeeveeenGlliYlgkredtgeevslpEteLdsfiqfnkPqdRLfaG 63 
                              F++GDei+ + g k+tV+++ +++Gl++Y  +++     ++ +E+eL++ i+fnkP++RLf+G
  PHY93_06400|PHY93_06400  53 FSAGDEISLRGGDKYTVDSIVDSDGLVTYVINDT-----IKCEEAELSDAISFNKPEERLFNG 110
                              99*******************************9.....9*********************98 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 2.1
               Tudor_RapA  46 eLdsfiqfnkPqd 58 
                              +Ld++i f kP d
  PHY93_06400|PHY93_06400 670 DLDDNIYFIKPSD 682
                              69*********98 PP

>> Helicase_C  Helicase conserved C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.9   0.0   1.6e-15   2.9e-12       2     111 .]     424     535 ..     423     535 .. 0.89
   2 ?   -0.5   0.0      0.84   1.5e+03      51      85 ..     608     671 ..     571     686 .. 0.63

  Alignments for each domain:
  == domain 1  score: 46.9 bits;  conditional E-value: 1.6e-15
                              HHHHHHHHHHHTTTTSEEEEEESSHHHHHH.HHHHHHHT.TSTEEEESTTSTHHHHHHHHHHHHTTSSS.EEEESGGGTSSSTSTT CS
               Helicase_C   2 kleallellkleeeggkilifvntidrlek.vklllekk.gikvavlhgelpqnereeileqfnkgesd.vLiatdvaerGidipk 84 
                              kl+ l ++l ++++++kil+++++++++    kll+ +  ++++ v+h+ l    r++  + f + e   +L++t ++++G +++ 
  PHY93_06400|PHY93_06400 424 KLDWLSDFL-TKNRTEKILLITKSKTKVLAlEKLLKDRIaSLNIGVFHSGLALIARDRQAAYFSDPEGAqILLCTEIGSEGRNFEF 508
                              677889999.89**************664434666555599**********************9766555**************** PP

                              ESEEEESSSSSSHHHHHHHHTTSSSTT CS
               Helicase_C  85 vnlVinfdlprnvtsyiqriGRtgRag 111
                              +++++ fdlp  ++ + qriGR  R+g
  PHY93_06400|PHY93_06400 509 AHHLVLFDLPLYPDLLEQRIGRLDRIG 535
                              ***********************9986 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.84
                              THHHHHHHHHHHHTTSSSEEEESGGGTS..............................SSTSTTE CS
               Helicase_C  51 pqnereeileqfnkgesdvLiatdvaer..............................Gidipkv 85 
                              +++e  e++++  +g +d+Li  +   +                              G+di+++
  PHY93_06400|PHY93_06400 608 TKKEYAEVVKKLEEG-RDILIELNSFNEekaevllreirkfdeesnlpnymsevfqelGVDIEDL 671
                              555555666666333.3666666654444444444444444444444444444444456666665 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.7   0.0   2.3e-12     4e-09       7     170 ..     149     306 ..     143     307 .. 0.78
   2 ?    1.4   0.1      0.16   2.8e+02      71     126 ..     601     659 ..     583     674 .. 0.76

  Alignments for each domain:
  == domain 1  score: 36.7 bits;  conditional E-value: 2.3e-12
                              HHHHHHHHHT......TTSEEEEEESTTSTHHHHHHHHHHHH-S.....-EEEEESSHHHHHHHHHHGGGGTGG.....GEEEESS CS
                   ResIII   7 yQeeaienlleklkskrdkrglikmaTGtGKTlvaaklierllkkgkeekflflvprkslleqtleefkkflseayke.igkkvsg 91 
                              +Q  + +++++    +   r+l++ + G GKT+ a  +  +l  +++ +++l+lvp   +++   e f+kf  + ++  +++ ++ 
  PHY93_06400|PHY93_06400 149 HQFYVANQIAD----RAIPRVLLADEVGLGKTIEAGLALHHLILSERVKRALILVPDSLVYQWFVEMFRKFNLSFTTLnQETHLEP 230
                              55555555542....2335999999**********9999999999999********988888888999999766443347777888 PP

                              S-B--.......-SEEEEEHHHHHHTH........HHHTTT-SEEEEETGGGTTS.T.....TTHHHHHT-.--SEEEEEESS-S CS
                   ResIII  92 dkkkakekdstnkkilvttiqsldadseeeeeeseellrdrfdviiiDEaHrlgakk.....swreilekf.keavllglTATpe 170
                               ++ +      ++++++++i  l+ +      +++ +++ + d++i+DEaH l+ ++     +++ + +   k + ll lTATpe
  PHY93_06400|PHY93_06400 231 GTNPF-----LDNDFVIVNIGLLKGAA----MARDMMDQATWDIMIVDEAHQLKWSQekvsiEYQIVERIAkKTKGLLLLTATPE 306
                              88888.....999999********999....788999999*************997345666555443333234789999****8 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.16
                              HHHGGGGTGG....GEEEESSS-B--..........-SEEEEEHHHHHHTH........ CS
                   ResIII  71 leefkkflseaykeigkkvsgdkkka...kekdstnkkilvttiqsldadseeeeeese 126
                              l++f  +++++y+e+ kk+++ +++    ++ +++++++l+ +i ++d++s+  +++se
  PHY93_06400|PHY93_06400 601 LQQFLATTKKEYAEVVKKLEEGRDILielNSFNEEKAEVLLREIRKFDEESNLPNYMSE 659
                              466667777777776677666666666777778999************99976655554 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.2   0.0   2.7e-08   4.9e-05      16     170 ..     164     306 ..     148     309 .. 0.74
   2 ?   -1.9   0.0       1.3   2.4e+03      47      78 ..     768     801 ..     726     879 .. 0.46

  Alignments for each domain:
  == domain 1  score: 23.2 bits;  conditional E-value: 2.7e-08
                              EEEEEESTTSSHHHHHHHHHHHHHHHSTTSTS-EEEEEESSHHHHHHHHHHHHHHTTTSTSEEEEEETTSSHHHHHHHHHTTCSEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  16 dvlvaaeTGsGKTlaflipvlqivyetkgktgpkalivePtreLaeqtlnnlkkfkkyidlrvlliiggvaardqlskldngvdiv 101
                               vl+a e+G GKT  + +++ + +++   ++ ++ali++P     +  ++ ++kf          + +++  +   + +  + d+v
  PHY93_06400|PHY93_06400 164 RVLLADEVGLGKTIEAGLALHHLILS---ERVKRALILVPDSLVYQWFVEMFRKFNLSF----TTLNQETHLEPGTNPF-LDNDFV 241
                              68999****************99975...8888*******9888888888888887752....2223333344444444.567889 PP

                              EEEHHHHHH.HHHCTSSHCTTEEEEEEETHHHHHHTTTHHHHH.HHHHHSHHHCTTSTTTSEEEEEESSBS CS
                              xxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD 102 vgtpgrldd.llstgklnlsqvrflVlDEadrlldqgfsdfin.rilnqlpqitcdgklqrqvivlSATlp 170
                              + + g l    + +  ++     ++++DEa++l  ++ +  i+ +i+++++      k+++ +++l+AT++
  PHY93_06400|PHY93_06400 242 IVNIGLLKGaAMARDMMDQATWDIMIVDEAHQLKWSQEKVSIEyQIVERIA------KKTKGLLLLTATPE 306
                              999999988444677777888899*********988666666625777773......333459******86 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 1.3
                              S-EEEEEESSHHHHHHHHHHHHHHTTT..STSEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxx RF
                     DEAD  47 gpkalivePtreLaeqtlnnlkkfkky..idlrv 78 
                                + +  +P r L+  t ++++   ++  id r+
  PHY93_06400|PHY93_06400 768 PERYFPPTPIRILVDSTGEDFSDKWSKddIDDRA 801
                              4455555566666666666654443331233222 PP

>> Flavi_DEAD  Flavivirus DEAD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00013      0.23      31     136 ..     190     305 ..     165     314 .. 0.66

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00013
                              HTT--EEEEESSHHHHHHHHHHTTTS-EEE---------..----SEE...EEEHHHHHH.HHHH..T------SEEEEETTT--S CS
               Flavi_DEAD  31 errlrtlvLaPtrvvlaemeealkglevryktsavkeek..tgrelvd...vmchatftk.rlls..pvrkknyeliimDeahflD 108
                              er +r+l+L+P   v +   e +++ +++++t   +++    ++  +d   v+    + k   +    + +  ++++i+Deah l 
  PHY93_06400|PHY93_06400 190 ERVKRALILVPDSLVYQWFVEMFRKFNLSFTTLNQETHLepGTNPFLDndfVIVNIGLLKgAAMArdMMDQATWDIMIVDEAHQLK 275
                              5567899999999999999999999999988765543321122333332222222222221222223467889**********986 PP

                              ..HHHHHHHHHHHHHHHTTS-EEEEEESS- CS
               Flavi_DEAD 109 ..PasiaarGyletkaeegeaalilltatP 136
                                 + ++    + ++  +++  l+lltatP
  PHY93_06400|PHY93_06400 276 wsQEKVSIEYQIVERIAKKTKGLLLLTATP 305
                              2235677888888888899899*******9 PP

>> DUF1493  Protein of unknown function (DUF1493)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.2      0.26   4.7e+02      42      71 ..     650     679 ..     610     689 .. 0.83
   2 ?    8.4   0.0    0.0016       2.8      44      79 ..     747     781 ..     738     791 .. 0.85
   3 ?   -2.6   0.1       4.3   7.7e+03      88      99 ..     870     881 ..     858     884 .. 0.71

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.26
                  DUF1493  42 eddaedllekffkrfnVdrgnfkiktYfvp 71 
                              e ++ + + + f+++ Vd ++++ + Yf  
  PHY93_06400|PHY93_06400 650 ESNLPNYMSEVFQELGVDIEDLDDNIYFIK 679
                              445678999*******************43 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.0016
                  DUF1493  44 daedllekffkrfnVdrgnfkiktYfvpdtpllvil 79 
                              +a+ ++e++fk + ++ +n++ ++Yf p tp+ +++
  PHY93_06400|PHY93_06400 747 QAKTFIEAYFKLYAIAPKNLSPERYFPP-TPIRILV 781
                              57889*********************55.8887665 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 4.3
                  DUF1493  88 erekplTiamli 99 
                              e+   lTi+ml+
  PHY93_06400|PHY93_06400 870 EEIDALTIQMLM 881
                              334579****96 PP

>> CBFD_NFYB_HMF  Histone-like transcription factor (CBF/NF-Y) and archaeal histone
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0       7.2   1.3e+04      21      31 ..     341     351 ..     338     353 .. 0.81
   2 ?   10.7   0.3   0.00027      0.48       2      30 ..     814     842 ..     813     847 .. 0.87

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 7.2
                              B-HHHHHHHHH CS
            CBFD_NFYB_HMF  21 iakdAkeliae 31 
                              +ak+A+el+a+
  PHY93_06400|PHY93_06400 341 VAKQARELVAK 351
                              78999999987 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 0.00027
                              XXXHHHHHHHHHCCTTXS-B-HHHHHHHH CS
            CBFD_NFYB_HMF   2 eLPiarvkkImksdpdarkiakdAkelia 30 
                               LP+a+++kI+k++ +++ +  ++ ++ +
  PHY93_06400|PHY93_06400 814 TLPKAAIQKILKQAHQHALVRAEVLKVAY 842
                              79************999999999987765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (898 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       593  (0.0330749); expected 358.6 (0.02)
Passed bias filter:                      414  (0.0230911); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.78u 0.24s 00:00:01.02 Elapsed: 00:00:00.42
# Mc/sec: 6361.61
//
Query:       PHY93_06405|PHY93_06405  [L=311]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.2e-07   31.9   0.1    2.5e-07   30.9   0.1    1.6  1  HD            HD domain
    1.1e-05   25.6   0.0      5e-05   23.5   0.0    2.1  1  HD_5          HD domain
     0.0066   15.9   0.0      0.011   15.3   0.0    1.4  1  HDOD          HDOD domain
  ------ inclusion threshold ------
       0.11   12.6   0.1       0.38   10.8   0.0    1.7  1  Replic_Relax  Replication-relaxation
       0.12   12.4   1.7       0.31   11.1   0.2    2.3  3  MAS20         MAS20 protein import receptor


Domain annotation for each model (and alignments):
>> HD  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.9   0.1   7.1e-11   2.5e-07       2      96 ..     148     248 ..     147     293 .. 0.79

  Alignments for each domain:
  == domain 1  score: 30.9 bits;  conditional E-value: 7.1e-11
                              HHHHHHHHHHHHHHHHHHHH.HHHHHHHHHHHHHTTTTHHHHTS..HHH.............HHHCTCCHHHHHHHHHHHHHHHHH CS
                       HD   2 leHsleVaklarrlaedlge.eedrellllaaLlHDiGkgpfgdafekk.............eeefekflaHekvgaeilrevekr 73 
                              + Hsl+V  la +lae l   e + + l +aaL+HDi+  + +     +             +++++  + H+k++ ++l+e +++
  PHY93_06405|PHY93_06405 148 IKHSLNVCALAVKLAEILHCtEQELDDLGTAALIHDIAITQMNK----DdiqlfykprkllsSDDKRVYYLHTKDAKTLLQEKPYV 229
                              68****************99*****************9888553....123567787655543339999***************** PP

                              HHHHHHHHHHHHHTTCCHHHHHH CS
                       HD  74 lgldledvaklirehheswegkk 96 
                              +    +++++l+++h e   g++
  PHY93_06405|PHY93_06405 230 N----KTILELVANHEEVLSGQG 248
                              *....55*******999887553 PP

>> HD_5  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.5   0.0   1.4e-08     5e-05       3      52 ..     204     253 ..     202     259 .. 0.91

  Alignments for each domain:
  == domain 1  score: 23.5 bits;  conditional E-value: 1.4e-08
                     HD_5   3 LtpeerellqehpeaaarlLsklprlpkdvaeiigqhhErldGsGyPrgl 52 
                              L++++++ +  h++ a+ lL+  p  +k++ e++++h E l G+G  +++
  PHY93_06405|PHY93_06405 204 LSSDDKRVYYLHTKDAKTLLQEKPYVNKTILELVANHEEVLSGQGPNKKK 253
                              789******************************************55554 PP

>> HDOD  HDOD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0     3e-06     0.011      88     136 ..     140     190 ..     120     226 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 3e-06
                              -SS-HHHHHHHHHHHHHHHHHHHHHTT-S-H..HHHHHHHHTTTHHHHHHH CS
                     HDOD  88 egadlkklwehslavAlvarelaeelgledp..eeaflaGLLhdiGklvll 136
                              +  + ++l +hsl+v ++a +lae l+++++  +++ +a+L+hdi    ++
  PHY93_06405|PHY93_06405 140 KVEKNEELIKHSLNVCALAVKLAEILHCTEQelDDLGTAALIHDIAITQMN 190
                              3578899*******************9999557************877665 PP

>> Replic_Relax  Replication-relaxation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   0.00011      0.38      50     110 ..     105     164 ..      90     174 .. 0.77

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00011
             Replic_Relax  50 arggsepyvYaLtpkGarllaaqra.epeprskrdrrereassrflpHtlavnelflalaaa 110
                                g  ++  Y++t+++a+ l++  + +pe+ +k+  ++ e++++ ++H l+v  l ++la+ 
  PHY93_06405|PHY93_06405 105 NPG--SESAYYMTETAAKSLRQIIKsNPEALKKIFGKKVEKNEELIKHSLNVCALAVKLAEI 164
                              233..3678***********555557777788888888899999999**********99987 PP

>> MAS20  MAS20 protein import receptor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.0      0.59   2.1e+03      78      98 ..      32      52 ..      26      69 .. 0.74
   2 ?   11.1   0.2   8.6e-05      0.31      49      94 ..     107     156 ..      84     173 .. 0.66
   3 ?   -1.7   0.0      0.83     3e+03      66     105 ..     224     265 ..     204     287 .. 0.58

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 0.59
                    MAS20 78 evqlGEellaqgeeeeaaehl 98
                              v++GE+l +++  +  ++++
  PHY93_06405|PHY93_06405 32 YVKKGEQLTEDKYTKLKVQKI 52
                             588999998886555555554 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 8.6e-05
                    MAS20  49 aekkk...kealeeakee.lptdaeevekfFleevqlGEellaqgeeeea 94 
                               ++++   +e++++  ++ +++++e+++k+F ++v++ Eel++++ ++ a
  PHY93_06405|PHY93_06405 107 GSESAyymTETAAKSLRQiIKSNPEALKKIFGKKVEKNEELIKHSLNVCA 156
                              233334554455556666788*********************99555444 PP

  == domain 3  score: -1.7 bits;  conditional E-value: 0.83
                    MAS20  66 tdaeevekfFleevqlGEellaq..geeeeaaehlynAlkvc 105
                              +++  v k  le v+  Ee+l+    ++++ +++l   l+++
  PHY93_06405|PHY93_06405 224 QEKPYVNKTILELVANHEEVLSGqgPNKKKKLTKLEEILSMV 265
                              444555666666666666666654444555555555555544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (311 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1256  (0.0700541); expected 358.6 (0.02)
Passed bias filter:                      499  (0.027832); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.54u 0.21s 00:00:00.75 Elapsed: 00:00:00.40
# Mc/sec: 2325.15
//
Query:       PHY93_16310|PHY93_16310  [L=158]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.9e-12   47.6   0.2    2.5e-12   47.3   0.2    1.1  1  FliL             Flagellar basal body-associated protein FliL
  ------ inclusion threshold ------
      0.085   12.3   0.1       0.58    9.6   0.0    2.0  2  Glu_syn_central  Glutamate synthase central domain


Domain annotation for each model (and alignments):
>> FliL  Flagellar basal body-associated protein FliL
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.3   0.2   2.8e-16   2.5e-12       1     101 [.      59     158 .]      59     158 .] 0.84

  Alignments for each domain:
  == domain 1  score: 47.3 bits;  conditional E-value: 2.8e-16
                     FliL   1 yvpleepfvvnlkdadgg...gerylkveitlev...adaeleekekepeirdailsllssktaeelstpegkekLkeelleelnk 80 
                              +++le+ ++v+l  +d++   + ry+ +ei l +   +da + +  ++ +++d+i+++ s++ a+el++  gk  L + l++e+nk
  PHY93_16310|PHY93_16310  59 FFKLEK-MTVSLVPKDNTgiqRMRYVELEIHLVLfksDDAGIIK-TYLSVVQDKIITVASKMGADELNSLTGKILLEDRLKKEINK 142
                              689966.*****99888755344999999999998765555555.58**************************************9 PP

                     FliL  81 vleegklekgpvedVlFtsfv 101
                              +l     +k+ v+ ++F++++
  PHY93_16310|PHY93_16310 143 AL-----GKPVVKSIFFSRYI 158
                              55.....5567*******986 PP

>> Glu_syn_central  Glutamate synthase central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   0.0     0.033     3e+02      61      71 ..      36      46 ..      26      52 .. 0.88
   2 ?    9.6   0.0   6.5e-05      0.58     237     273 ..      96     132 ..      59     134 .. 0.80

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.033
                             ----TTTTGGG CS
          Glu_syn_central 61 PpiDpiREelv 71
                             PpiD+ RE+  
  PHY93_16310|PHY93_16310 36 PPIDENRERDT 46
                             ********865 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 6.5e-05
                              ---HHHHHHHHHHHHHHHHHHHTT--BHHHHHHS--E CS
          Glu_syn_central 237 eeeleknyrkavekGllKimskmGistlqSYkgaqif 273
                              ++ + k y + v++ ++ + skmG  +l+S +g  ++
  PHY93_16310|PHY93_16310  96 DAGIIKTYLSVVQDKIITVASKMGADELNSLTGKILL 132
                              3445599***********************9887665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (158 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       541  (0.0301746); expected 358.6 (0.02)
Passed bias filter:                      437  (0.0243739); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1172.29
//
Query:       PHY93_05425|PHY93_05425  [L=186]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.01   15.6   0.0      0.016   15.0   0.0    1.3  1  PliI      Periplasmic lysozyme inhibitor of I-type lysozyme


Domain annotation for each model (and alignments):
>> PliI  Periplasmic lysozyme inhibitor of I-type lysozyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   0.0   8.7e-07     0.016      62     104 ..      83     126 ..      66     142 .. 0.88

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 8.7e-07
                              EEEE-SSSSSS-EEEEEEE-SSTT--EEEE.EEEEETTTEEEEE CS
                     PliI  62 vkladvngdkkkelvvlkrsaGsGsylsvd.Afkitkkslklla 104
                              ++l ++n+d+kke + + + +GsG y  ++ A++i++ ++++l+
  PHY93_05425|PHY93_05425  83 LYLNELNNDGKKEYLLTYLHSGSGDYSGIKgAYTINSGKVTSLN 126
                              57889**********************99769****99998764 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (186 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       385  (0.0214736); expected 358.6 (0.02)
Passed bias filter:                      294  (0.016398); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1398.10
//
Query:       PHY93_06410|PHY93_06410  [L=622]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.5e-25   88.2  44.5    6.5e-25   88.2  44.5    1.5  2  7TMR-DISM_7TM  7TM diverse intracellular signalling
    6.5e-15   55.6   0.2    1.1e-14   54.9   0.2    1.4  1  HATPase_c      Histidine kinase-, DNA gyrase B-, and HSP90-li
    3.5e-09   36.8   0.0      6e-09   36.0   0.0    1.3  1  7TMR-DISMED2   7TMR-DISM extracellular 2
     0.0058   16.6   0.0      0.011   15.7   0.0    1.3  1  HATPase_c_2    Histidine kinase-like ATPase domain
  ------ inclusion threshold ------
      0.015   15.3   0.2      0.049   13.7   0.2    1.8  1  HisKA          His Kinase A (phospho-acceptor) domain
      0.056   13.4   2.3      0.077   12.9   0.4    2.1  2  HATPase_c_5    GHKL domain


Domain annotation for each model (and alignments):
>> 7TMR-DISM_7TM  7TM diverse intracellular signalling
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -4.1   0.3       4.1   1.2e+04      31      38 ..       8      15 ..       3      25 .. 0.53
   2 !   88.2  44.5   2.2e-28   6.5e-25       7     205 .]     174     374 ..     169     374 .. 0.82

  Alignments for each domain:
  == domain 1  score: -4.1 bits;  conditional E-value: 4.1
            7TMR-DISM_7TM 31 ylyYalyl 38
                             +l+++lyl
  PHY93_06410|PHY93_06410  8 LLFFSLYL 15
                             33444443 PP

  == domain 2  score: 88.2 bits;  conditional E-value: 2.2e-28
            7TMR-DISM_7TM   7 lllGvllalalynlflffslrdksylyYalyllsfllyllslngllfqylwpnappalnnkllyltlllllilfllFarsflelkk 92 
                              ++ G +l+l++yn+f+f+ l+dk ylyY+++ l+f+l +l ++gll +++    +   +++ l+ + +l+li+++lF+++fle++k
  PHY93_06410|PHY93_06410 174 FYAGGILCLIFYNFFIFLLLKDKNYLYYCFFSLAFMLAILDIHGLLDKFFIT-KS-FSFSHYLICFSALSLIFAVLFTYHFLEIPK 257
                              789***********************************************55.33.44455555555555557777********99 PP

            7TMR-DISM_7TM  93 .kprllklllllavllsllllllpllpyteslslaq..llallvillllligikaw..rkgnkparyfliawlllligvlidilsl 173
                                ++l k+++++++++++++l+  l+p +   + ++  l+ +l+i + l ++i a+  +k  + ar++l++w+++ i+ l +++ +
  PHY93_06410|PHY93_06410 258 lLNKLSKYFQIVFAICLGIFLI-GLTPLEDLAPAFFgrLIDFLLITTNLSFIICAFllIKISSTARFYLFSWAIVGISLLTWFAMT 342
                              7779999999999997777777.56666666666666855555555544444444455899************************* PP

            7TMR-DISM_7TM 174 lgllpsnffteyllqigvllevlllslaLadr 205
                              +g+lp nfft+++l ++ l ++l +slaLa+r
  PHY93_06410|PHY93_06410 343 FGFLPNNFFTQHSLLFANLGQMLAISLALASR 374
                              ******************************76 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.9   0.2   3.7e-18   1.1e-14       5     109 ..     510     621 ..     506     622 .] 0.84

  Alignments for each domain:
  == domain 1  score: 54.9 bits;  conditional E-value: 3.7e-18
                              HHHHHHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCH....HCSTCHTSTSSSHHHHHHHHHHH CS
                HATPase_c   5 rLrqiisnlvdNavkfatkageieveikaseddlvisveDnGiGipkedlkklfekfsq....ddstkrggggtGlGlsivkklve 86 
                              +L  i++n+++N++kf+ ++++ie++ ++++d++ i+ +D G+Gi++ +++ +f    +    + + +r   g+G+G  +++++ve
  PHY93_06410|PHY93_06410 510 FLNNIVNNIISNSIKFSYENSRIEISSEVTSDKIAITFKDYGRGIDPLQIHDIFY---SnliiSTEGTRAEAGHGFGTILMREYVE 592
                              7889************8899999999998788***************88887776...2244578999999*************** PP

                              HTTTEEEEEEETTT......EEEEEEEEE CS
                HATPase_c  87 lmgGeiwvesepgr......Gttftftlp 109
                              l+gG+i+v+s+ +       Gt++t+ +p
  PHY93_06410|PHY93_06410 593 LFGGSIKVKSSLKDldheisGTSVTLIFP 621
                              ********666633334456999999877 PP

>> 7TMR-DISMED2  7TMR-DISM extracellular 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.0   0.0     2e-12     6e-09      26     125 ..      39     149 ..      21     155 .. 0.82

  Alignments for each domain:
  == domain 1  score: 36.0 bits;  conditional E-value: 2e-12
                              G-.......EE-SSSEEEE-SECEEEEEEEEE-.--SS-EE..EEEE-TT-SEEEEEEEC...TCEEEEEE..ESTTS-..--SS- CS
             7TMR-DISMED2  26 rf.......epseaevlnfgytssayWlrftlenptdaprrwllelayplldevdlYvpd...ggslrear..lGdlrp..eRpva 97 
                              +f       +++e+ +l fgy +   W r+tl n+++++ + ll + ++l  ++dlY +     ++ +     +G+++p  +R+++
  PHY93_06410|PHY93_06410  39 DFfigqgtdQKNEKASLRFGYFNGKKWARVTLANNSPNQIDKLLYF-DTLTGKIDLYEQVapkIRLNF--IgsSGSSIPfrKREFK 121
                              4446666778999****************************98887.7899******98875433333..255******8778888 PP

                              TTEEEEEE--SSS-E.EEEEEEEESS-E CS
             7TMR-DISMED2  98 hrnfvfplplppgetvtvylrvksegsl 125
                                + +f++ lp+++++t++l v s++  
  PHY93_06410|PHY93_06410 122 AIFATFKISLPAHSEKTFFLNVVSRHNF 149
                              888********************99766 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   3.7e-06     0.011      39     110 ..     518     592 ..     508     603 .. 0.89

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 3.7e-06
              HATPase_c_2  39 actNavehayleapegpvevrlesdeealtvevaDsGpgfdpetlpdpteeep......keslkegGrGlalikglvD 110
                              +++N ++  y++    ++e++ e++++++ ++++D G+g dp ++ d    ++      +  +  +G+G +l++++v+
  PHY93_06410|PHY93_06410 518 IISNSIKFSYEN---SRIEISSEVTSDKIAITFKDYGRGIDPLQIHDIFYSNLiistegTRAEAGHGFGTILMREYVE 592
                              678889999974...68***************************99998888899999989999999******99885 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.2   1.6e-05     0.049       4      61 ..     397     454 ..     395     459 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1.6e-05
                              HHHHHHHHHHHHHHHHHHHHHHHH...HC..T-HSSCHHHHHHHHHHHHHHHHHHHHHHHH CS
                    HisKA   4 rflagvaHELrtPLsailgnaeaL...kregklteelkeyletiesearrldhlvedlLdl 61 
                              r++  ++H++ + L++i  ++  L   +   +l +  +++le++   ++ + ++++++++ 
  PHY93_06410|PHY93_06410 397 RLVRVLSHDIANSLTVINYYSNKLikpR---DLEPHHQRALEKVYFAGENIKNILKNVREE 454
                              89*********************96533...699***********************9986 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.1      0.73   2.2e+03      29      58 ..     397     427 ..     384     465 .. 0.54
   2 ?   12.9   0.4   2.6e-05     0.077       8      89 ..     509     602 ..     505     611 .. 0.83

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.73
              HATPase_c_5  29 rfIrltvrekkksliisieNsyegek...kkle 58 
                              r +r+  +       +++ N+y+++    + le
  PHY93_06410|PHY93_06410 397 RLVRVLSHDIA--NSLTVINYYSNKLikpRDLE 427
                              44444443333..44677888888664333333 PP

  == domain 2  score: 12.9 bits;  conditional E-value: 2.6e-05
              HATPase_c_5   8 vilgnlLdNAieacskieeekrfIrltvrekkksliisieNsyeg...........ekkkless..kskkeehGiGlksireivkk 80 
                              + l n+ +N i  + k++ e++ I+++ + +++++ i+++ + +g           ++  + s+  ++ +  hG+G+  +re v+ 
  PHY93_06410|PHY93_06410 509 CFLNNIVNNIISNSIKFSYENSRIEISSEVTSDKIAITFKDYGRGidplqihdifySNLII-STegTRAEAGHGFGTILMREYVEL 593
                              5689999***********99**********************9998888665444322222.332478999*************** PP

              HATPase_c_5  81 ykgnlsiea 89 
                               +g+++++ 
  PHY93_06410|PHY93_06410 594 FGGSIKVKS 602
                              *99999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (622 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1015  (0.0566122); expected 358.6 (0.02)
Passed bias filter:                      406  (0.0226449); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.65u 0.30s 00:00:00.95 Elapsed: 00:00:00.45
# Mc/sec: 4126.52
//
Query:       PHY93_06415|PHY93_06415  [L=540]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.7e-43  147.0   2.9    1.4e-20   74.2   0.2    3.3  3  ABC_tran       ABC transporter
    3.7e-27   94.2  12.5    1.1e-26   92.6   6.0    2.7  2  ABC_tran_Xtn   ABC transporter
    9.4e-22   78.2   2.6    0.00014   21.8   0.0    4.2  4  AAA_21         AAA domain, putative AbiEii toxin, Type IV TA 
    7.4e-10   38.6   1.8     0.0017   17.8   0.0    4.2  4  SMC_N          RecF/RecN/SMC N terminal domain
    1.4e-06   29.0   5.0      0.081   13.4   0.0    3.4  3  AAA_23         AAA domain
    8.2e-06   25.5   0.3      0.035   13.8   0.1    2.6  2  AAA_29         P-loop containing region of AAA domain
    3.3e-05   24.1   1.6       0.06   13.5   0.0    3.0  3  AAA_33         AAA domain
    8.6e-05   22.3   0.0       0.13   11.9   0.0    2.5  2  AAA_30         AAA domain
    0.00022   21.3   3.0      0.092   12.8   0.4    3.0  3  MMR_HSR1       50S ribosome-binding GTPase
    0.00047   20.6   1.8      0.087   13.3   0.1    3.1  2  AAA            ATPase family associated with various cellular
    0.00091   19.2   0.5       0.36   10.7   0.1    2.6  2  RsgA_GTPase    RsgA GTPase
      0.001   19.6   6.6      0.072   13.6   0.0    3.3  3  AAA_18         AAA domain
     0.0013   18.9   0.2        2.1    8.6   0.0    2.8  2  Roc            Ras of Complex, Roc, domain of DAPkinase
     0.0019   18.0   9.1       0.89    9.2   0.7    3.9  3  AAA_15         AAA ATPase domain
     0.0024   18.3   0.1        2.6    8.4   0.0    2.6  2  AAA_16         AAA ATPase domain
     0.0035   16.9   1.0        3.1    7.4   0.0    2.7  2  cobW           CobW/HypB/UreG, nucleotide-binding domain
     0.0047   16.7   0.4         11    5.8   0.0    3.3  3  RuvB_N         Holliday junction DNA helicase RuvB P-loop dom
     0.0061   16.8   0.5       0.77   10.0   0.0    3.7  3  SbcCD_C        Putative exonuclease SbcCD, C subunit
     0.0063   16.5   2.0      0.056   13.4   0.0    3.0  3  Rad17          Rad17 P-loop domain
     0.0072   16.3   0.2        1.5    8.9   0.0    2.5  2  TsaE           Threonylcarbamoyl adenosine biosynthesis prote
  ------ inclusion threshold ------
      0.018   13.7   5.2        1.4    7.5   0.0    3.0  3  AAA_13         AAA domain
       0.02   14.9   0.9         25    4.9   0.0    3.9  4  AAA_14         AAA domain
      0.021   14.8   1.1       0.95    9.4   0.1    2.6  2  NACHT          NACHT domain
      0.023   14.3   0.1        6.4    6.3   0.0    2.5  2  AAA_27         AAA domain
      0.035   13.8   1.3        6.3    6.5   0.1    2.8  2  AAA_24         AAA domain
      0.048   13.9   4.8        4.1    7.7   0.0    3.3  2  AAA_22         AAA domain
      0.058   12.8   0.6        5.5    6.3   0.1    3.1  3  TniB           Bacterial TniB protein
       0.06   12.8   0.1        2.4    7.6   0.0    2.3  2  Arf            ADP-ribosylation factor family
      0.068   12.8   2.1        9.6    5.8   0.1    2.6  2  SRP54          SRP54-type protein, GTPase domain
      0.071   12.6   2.3        8.5    5.9   0.1    3.2  3  FeoB_N         Ferrous iron transport protein B
       0.08   13.2   4.9       0.66   10.2   0.0    2.7  2  AAA_28         AAA domain
       0.11   12.9   0.2         25    5.3   0.0    2.8  2  RNA_helicase   RNA helicase
       0.14   12.2   3.8        1.4    8.9   0.5    3.0  3  Dynamin_N      Dynamin family
       0.28   11.5   1.0         15    5.9   0.1    2.5  2  AAA_19         AAA domain
       0.71    7.3   8.6       0.92    6.9   0.2    2.8  3  DUF3584        Protein of unknown function (DUF3584)
       0.86    9.5   3.9         20    5.1   0.2    3.4  3  NTPase_1       NTPase
          1    9.9   4.4         52    4.4   3.7    2.3  2  Ribosomal_L6e  Ribosomal protein L6e
        1.2    9.2   6.5          1    9.4   0.2    3.1  3  DUF87          Helicase HerA, central domain
        1.3    9.4   6.5        6.3    7.2   0.1    3.0  3  AAA_17         AAA domain
        1.5    7.9   6.3        3.8    6.6   0.1    2.8  3  NB-ARC         NB-ARC domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   71.2   0.0   2.7e-22   1.2e-19       2     137 .]      18     192 ..      17     192 .. 0.76
   2 ?   -0.8   0.2       4.4     2e+03      44      89 ..     233     291 ..     217     310 .. 0.54
   3 !   74.2   0.2   3.2e-23   1.4e-20       3     137 .]     349     478 ..     347     478 .. 0.87

  Alignments for each domain:
  == domain 1  score: 71.2 bits;  conditional E-value: 2.7e-22
                              EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH........ CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx........ RF
                 ABC_tran   2 knvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren........ 79 
                              +n s+ l++g k ++vG+nGaGK+t++++l++++  + G+i++             + ++++++q+    ++ tv e+        
  PHY93_06415|PHY93_06415  18 ENSSFILRPGDKAGLVGPNGAGKTTVFRVLMKEEGFDGGSITVP-----------EKIRVAYFSQNIGEMKGRTVIEEvmsgsaka 92 
                              799**************************************544...........4555556666654444444444446666666 PP

                              ...................HHHTCHHHHHHHSTTGG...........................TTCBGESTTSGGS-HHHHHHHHH CS
                              ...................xxxxxxxxxxxxxxxxx...........................xxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ...................esdeeiekalsklglke...........................lkdtvvksspssLSgGqkqrval 119
                                                  sd e+ek+l klg+ +                           ++d+ v    s +SgG++ r+al
  PHY93_06415|PHY93_06415  93 selaveirkiekmldgeipLSDTEMEKVLYKLGDYQtdfeklggydldirakeiitglgvmpyDHDRDV----SLFSGGWRMRIAL 174
                              666777778888899999966666666666666666666677777777777766666666445555556....************* PP

                              HHHHHHTSSEEEEESTTT CS
                              xxxxxxxxxxxxxxxxxx RF
                 ABC_tran 120 arallkkpkllllDEpta 137
                              a++l++ p+++llDEpt+
  PHY93_06415|PHY93_06415 175 AKILIQVPDVILLDEPTN 192
                              *****************8 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 4.4
                              ETTCEGGG....B-HHHCCHCEEEE-SS--S-TTSBHHHH.........HHHTCHHHHH CS
                              xxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxx.........xxxxxxxxxx RF
                 ABC_tran  44 ldgkdlke....qeleslrkeigvlpqepqlfpeltvren.........esdeeiekal 89 
                              +++k +++     +  + +kei+  +q++q+ ++  +  +         ++ ++++++ 
  PHY93_06415|PHY93_06415 233 VNNKTITTytgdYDYYEKEKEIRKDQQQAQFERQQDMLAKeeefiakfaARASHAAQVQ 291
                              45555555555545555566666666665555544422222355554442222233333 PP

  == domain 3  score: 74.2 bits;  conditional E-value: 3.2e-23
                              EEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS..--S-TTSBHHHH....... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxx....... RF
                 ABC_tran   3 nvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqe..pqlfpeltvren....... 79 
                               ++ ++++  k+a+vG nGaGKStLlk+++gl++  +Ge                + + g+++q   + l+pe tv e+       
  PHY93_06415|PHY93_06415 349 GLTATVNRLDKIAVVGVNGAGKSTLLKVICGLTEASSGESS-----------LGPSINAGYFSQFslDLLNPENTVLEEitqrlpl 423
                              578899999******************************83...........3477888999999889999999999998888777 PP

                              HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                              +s+  i ++l+ +   +   + v+++ + LSgG+k+rv+la ++ ++ +ll+lDEpt+
  PHY93_06415|PHY93_06415 424 ASNGYIRNLLAAFLFRG---DDVDKKIKILSGGEKSRVVLATLMSNNNNLLILDEPTN 478
                              77777888888887555...7788899******************************8 PP

>> ABC_tran_Xtn  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   92.6   6.0   2.5e-29   1.1e-26       1      83 [.     231     314 ..     231     316 .. 0.93
   2 ?    5.2   0.1     0.048        22       1      23 [.     517     539 ..     517     540 .] 0.93

  Alignments for each domain:
  == domain 1  score: 92.6 bits;  conditional E-value: 2.5e-29
             ABC_tran_Xtn   1 velengklteYkGnYseyleekeerleqqqkayekqqkeikkleefIerfrakakkakqaqsrekaLeklekiekpeek.kpkl 83 
                              +e++n+++t+Y+G+Y++y +eke r++qqq+++e+qq+ ++k+eefI++f+a+a++a+q+qsr+k+L+k+e++e p e+  +++
  PHY93_06415|PHY93_06415 231 IEVNNKTITTYTGDYDYYEKEKEIRKDQQQAQFERQQDMLAKEEEFIAKFAARASHAAQVQSRVKKLDKIERVEMPPEDiVMDF 314
                              699*************************************************************************55434444 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.048
             ABC_tran_Xtn   1 velengklteYkGnYseyleeke 23 
                              +e+++g ++ ++ n+++y+ +k+
  PHY93_06415|PHY93_06415 517 FEVDKGGIRVFESNFQYYIDKKK 539
                              699*****************997 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.7   0.0   6.9e-07   0.00031       3      60 ..      31      82 ..      29      91 .. 0.89
   2 !   21.8   0.0   3.1e-07   0.00014     191     302 ..     104     223 ..      90     224 .. 0.89
   3 !   15.1   0.3   3.3e-05     0.015       3      24 ..     361     382 ..     360     418 .. 0.66
   4 !   17.4   0.1   6.9e-06    0.0031     248     301 ..     459     508 ..     423     510 .. 0.82

  Alignments for each domain:
  == domain 1  score: 20.7 bits;  conditional E-value: 6.9e-07
                   AAA_21  3 vliGpNgsGKSnLLdaldllarldrdvegltdelsggggirkipslldlydpeipfef 60
                             +l+GpNg+GK+++++ l      +++  +++ + +   +ir+  ++++ ++ ++++++
  PHY93_06415|PHY93_06415 31 GLVGPNGAGKTTVFRVL------MKEEGFDGGSITVPEKIRVAYFSQNIGEMKGRTVI 82
                             79***************......99999999999999999999999998888877665 PP

  == domain 2  score: 21.8 bits;  conditional E-value: 3.1e-07
                   AAA_21 191 slklveielsdlgegeeliasvderlrer..............gvvflengdgqelparelSdGtkrllalltallralkkgslll 262
                              + ++ ei+lsd++  ++l+++ d + +++               + + +++++++++++ +S G +  +al+ +l++ +   +++l
  PHY93_06415|PHY93_06415 104 KMLDGEIPLSDTEMEKVLYKLGDYQTDFEklggydldirakeiITGLGVMPYDHDRDVSLFSGGWRMRIALAKILIQVP---DVIL 186
                              567788899999999999999999988889999999999999999999****************99888*******999...9*** PP

                   AAA_21 263 iDEpEngLHPkllrrllellkelsrngaQviltTHSplll 302
                              +DEp n L+ + +  l e+lk+ +     v++t+H+  ++
  PHY93_06415|PHY93_06415 187 LDEPTNYLDLESIVWLEEWLKSFKG---AVLMTSHDRDFM 223
                              **********8888888*****977...*******96655 PP

  == domain 3  score: 15.1 bits;  conditional E-value: 3.3e-05
                   AAA_21   3 vliGpNgsGKSnLLdaldllar 24 
                              +++G Ng+GKS+LL+ + +l  
  PHY93_06415|PHY93_06415 361 AVVGVNGAGKSTLLKVICGLTE 382
                              69***************77743 PP

  == domain 4  score: 17.4 bits;  conditional E-value: 6.9e-06
                   AAA_21 248 ltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQviltTHSpll 301
                              ++a l  +    ll++DEp n+L+ k  + ll  lke +     v+ ++H+ ++
  PHY93_06415|PHY93_06415 459 VLATLMSNNN-NLLILDEPTNHLDLKSREVLLNALKEFEG---TVMYVSHDRHF 508
                              4444444544.8**************************99...9******9766 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.4   0.0     0.012       5.4      28      42 ..      31      45 ..      15      49 .. 0.83
   2 ?    1.4   0.0      0.39   1.7e+02     159     213 ..     182     235 ..      75     241 .. 0.82
   3 !    8.8   0.1    0.0021      0.96      27      44 ..     360     377 ..     345     387 .. 0.82
   4 !   17.8   0.0   3.9e-06    0.0017     134     205 ..     447     512 ..     406     523 .. 0.83

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.012
                             EEEESTTSSHHHHHH CS
                             xxxxxxxxxxxxxxx RF
                    SMC_N 28 aivGpNGSGKsnlld 42
                              +vGpNG+GK+ ++ 
  PHY93_06415|PHY93_06415 31 GLVGPNGAGKTTVFR 45
                             68*********9975 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.39
                              -SEEEECTTTTTS-HHHHHHHHHHHHHHCTTSEEEEE-SSHHHCCC-.SCEEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxx RF
                    SMC_N 159 aplyllDeidaaLDeknvkkvaellkeksknaQfivislreemleka.dklvgvtk 213
                                + llDe    LD + +  + e lk+ +    ++++s+++++++   ++++ v  
  PHY93_06415|PHY93_06415 182 PDVILLDEPTNYLDLESIVWLEEWLKSFK--GAVLMTSHDRDFMNGIvNRIIEVNN 235
                              346799*******************9998..8899*****9999987677777765 PP

  == domain 3  score: 8.8 bits;  conditional E-value: 0.0021
                              EEEEESTTSSHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxx RF
                    SMC_N  27 taivGpNGSGKsnlldAi 44 
                               a+vG NG+GKs ll  i
  PHY93_06415|PHY93_06415 360 IAVVGVNGAGKSTLLKVI 377
                              589***********9988 PP

  == domain 4  score: 17.8 bits;  conditional E-value: 3.9e-06
                              TTCS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTTSEEEEE-SSHHHCCC- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 134 kelLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkeksknaQfivislreemleka 205
                              ++ LSgGek+ v    ++A+ + + + l +lDe   +LD k ++ + + lke +    ++ +s+++++l+  
  PHY93_06415|PHY93_06415 447 IKILSGGEKSRV----VLATLMSNNNNLLILDEPTNHLDLKSREVLLNALKEFE--GTVMYVSHDRHFLHGL 512
                              558******965....56666889999************************998..6778888888877655 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.7   0.0    0.0003      0.14      24      37 ..      32      45 ..      28      48 .. 0.88
   2 ?    2.1   1.6      0.52   2.3e+02      99     157 ..     241     299 ..     195     304 .. 0.50
   3 !   13.4   0.0   0.00018     0.081      23      42 ..     361     380 ..     356     479 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 0.0003
                   AAA_23 24 ItGpNGaGKTTild 37
                             ++GpNGaGKTT+++
  PHY93_06415|PHY93_06415 32 LVGPNGAGKTTVFR 45
                             69*********997 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.52
                   AAA_23  99 kkgkttkkaklelleideleqfisellgskkiilnlilflgqerfeefelkdkkerlee 157
                                g++ + +k++++++d+++ +++++ +   ++ ++i+ +++   +  + +++ ++l++
  PHY93_06415|PHY93_06415 241 YTGDYDYYEKEKEIRKDQQQAQFERQQDMLAKEEEFIAKFAARASHAAQVQSRVKKLDK 299
                              23333333344444444444444444444444444444444444333333333333333 PP

  == domain 3  score: 13.4 bits;  conditional E-value: 0.00018
                   AAA_23  23 lItGpNGaGKTTildAikla 42 
                              +++G NGaGK+T+l  i+  
  PHY93_06415|PHY93_06415 361 AVVGVNGAGKSTLLKVICGL 380
                              579**************954 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.9   0.0    0.0027       1.2      21      39 ..      26      44 ..      16      49 .. 0.77
   2 !   13.8   0.1   7.8e-05     0.035      12      39 ..     347     374 ..     344     385 .. 0.86

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.0027
                   AAA_29 21 lkgatlltGpsGsGKSTll 39
                             + +   l+Gp+G+GK+T++
  PHY93_06415|PHY93_06415 26 PGDKAGLVGPNGAGKTTVF 44
                             5556679**********86 PP

  == domain 2  score: 13.8 bits;  conditional E-value: 7.8e-05
                   AAA_29  12 fdghtieidlkgatlltGpsGsGKSTll 39 
                              f+g t+++++ + + ++G +G+GKSTll
  PHY93_06415|PHY93_06415 347 FSGLTATVNRLDKIAVVGVNGAGKSTLL 374
                              78888888888899*************8 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.5   0.0   0.00013      0.06       4      25 ..      32      55 ..      31     102 .. 0.84
   2 ?   -1.6   0.0       6.2   2.8e+03      40      63 ..     258     281 ..     199     294 .. 0.58
   3 !    8.3   0.1    0.0053       2.4       3      19 ..     361     377 ..     360     383 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 0.00013
                   AAA_33  4 lvGlpGsGKstlaerllkklg..a 25
                             lvG++G+GK+t+ + l+k++g  +
  PHY93_06415|PHY93_06415 32 LVGPNGAGKTTVFRVLMKEEGfdG 55
                             69****************999553 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 6.2
                   AAA_33  40 tdqqsktdytrvldrlyqilnela 63 
                              ++q + +++++ l +  ++++++a
  PHY93_06415|PHY93_06415 258 QQQAQFERQQDMLAKEEEFIAKFA 281
                              223333444555555555555555 PP

  == domain 3  score: 8.3 bits;  conditional E-value: 0.0053
                   AAA_33   3 llvGlpGsGKstlaerl 19 
                               +vG++G+GKstl++ +
  PHY93_06415|PHY93_06415 361 AVVGVNGAGKSTLLKVI 377
                              689**********9865 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.6   0.1    0.0064       2.9      22      39 ..      31      48 ..      22      67 .. 0.85
   2 !   11.9   0.0    0.0003      0.13      22     119 ..     361     499 ..     350     506 .. 0.59

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.0064
                   AAA_30 22 vltGpAGtGKttalkalr 39
                              l+Gp G+GKtt+ ++l 
  PHY93_06415|PHY93_06415 31 GLVGPNGAGKTTVFRVLM 48
                             689**********99984 PP

  == domain 2  score: 11.9 bits;  conditional E-value: 0.0003
                   AAA_30  22 vltGpAGtGKttalkalreaweaa.g...............grviglAptgkaAkvLaeelgieast.iakllkrlk......... 81 
                              +++G+ G+GK+t+lk++  + ea+ g               +++ +l p++++ +++++ l ++++  i +ll +           
  PHY93_06415|PHY93_06415 361 AVVGVNGAGKSTLLKVICGLTEASsGesslgpsinagyfsqFSLDLLNPENTVLEEITQRLPLASNGyIRNLLAAFLfrgddvdkk 446
                              689******************99977667766666666666555555555555555554433322211222221111333355555 PP

                   AAA_30  82 ..............grarlepgtllivDEag.mvdtkqlaallkaaekagakv 119
                                            ++   ++++lli DE    +d k+ + ll+a+++ + +v
  PHY93_06415|PHY93_06415 447 ikilsggeksrvvlATLMSNNNNLLILDEPTnHLDLKSREVLLNALKEFEGTV 499
                              55555777777766434444557777777441446666666666666655555 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.5   0.0    0.0094       4.2       2      22 ..      30      50 ..      29      71 .. 0.88
   2 ?   -1.9   0.0       7.9   3.6e+03      15      39 ..     222     246 ..     222     263 .. 0.77
   3 !   12.8   0.4    0.0002     0.092       1      22 [.     359     380 ..     359     396 .. 0.84

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.0094
                             EEEEESTTSSHHHHHHHHHTS CS
                 MMR_HSR1  2 vaivGrpNvGKStLinaltge 22
                             +++vG   +GK+t+++ l++e
  PHY93_06415|PHY93_06415 30 AGLVGPNGAGKTTVFRVLMKE 50
                             689***************986 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 7.9
                              HHHHHHTSTEEESSSTTSSSSEEEE CS
                 MMR_HSR1  15 LinaltgekaivsdkpgtTrdineg 39 
                              ++n ++++  +v++k  tT +  + 
  PHY93_06415|PHY93_06415 222 FMNGIVNRIIEVNNKTITTYTGDYD 246
                              5788999999999999999765554 PP

  == domain 3  score: 12.8 bits;  conditional E-value: 0.0002
                              EEEEEESTTSSHHHHHHHHHTS CS
                 MMR_HSR1   1 evaivGrpNvGKStLinaltge 22 
                              ++a+vG   +GKStL++ ++g 
  PHY93_06415|PHY93_06415 359 KIAVVGVNGAGKSTLLKVICGL 380
                              69*****************984 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.1   0.00019     0.087       3      35 ..      32      82 ..      30     107 .. 0.61
   2 ?    5.6   0.3     0.044        20       3      23 ..     362     382 ..     360     531 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 0.00019
                             EESSTTSSHHHHHHHHHHH..................HTHEEEEEETTTCS CS
                      AAA  3 lyGppGtGKTllakavake..................lgvefleisgsell 35
                             l+Gp G GKT++ + ++ke                  +++++ e++g +++
  PHY93_06415|PHY93_06415 32 LVGPNGAGKTTVFRVLMKEegfdggsitvpekirvayFSQNIGEMKGRTVI 82
                             89*****************44444433333332222113334444444444 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.044
                              EESSTTSSHHHHHHHHHHHHT CS
                      AAA   3 lyGppGtGKTllakavakelg 23 
                              ++G  G GK++l k ++  ++
  PHY93_06415|PHY93_06415 362 VVGVNGAGKSTLLKVICGLTE 382
                              79**************98764 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.0     0.023        11     103     124 ..      31      52 ..      21      87 .. 0.78
   2 !   10.7   0.1   0.00081      0.36      97     129 ..     354     387 ..     330     392 .. 0.79

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.023
                              EEECSTTSSHHHHHHHHCTT-- CS
              RsgA_GTPase 103 vlvGqSGvGKStLinallpele 124
                               lvG+ G+GK+t+  +l+ e+ 
  PHY93_06415|PHY93_06415  31 GLVGPNGAGKTTVFRVLMKEEG 52 
                              589**************99843 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 0.00081
                              CTT.SEEEEECSTTSSHHHHHHHHCTT-----S- CS
              RsgA_GTPase  97 lkd.ktsvlvGqSGvGKStLinallpelelktge 129
                              ++  + +++vG  G+GKStL++++ + +e++ ge
  PHY93_06415|PHY93_06415 354 VNRlDKIAVVGVNGAGKSTLLKVICGLTEASSGE 387
                              4444567899*************99977766655 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.6   0.0   0.00016     0.072       3      25 ..      32      62 ..      31     132 .. 0.81
   2 ?   -1.4   0.2         7   3.1e+03      43      64 ..     245     266 ..     222     332 .. 0.69
   3 !    7.9   0.3    0.0094       4.2       1      18 [.     360     377 ..     360     426 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 0.00016
                   AAA_18  3 ltGtpGvGKttlakeLskrlgf........g 25
                             l G+ G+GKtt+ + L k++gf         
  PHY93_06415|PHY93_06415 32 LVGPNGAGKTTVFRVLMKEEGFdggsitvpE 62
                             89*****************988765555440 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 7
                   AAA_18  43 pealdeskrldedkldklldal 64 
                               + ++++k++++d++++ ++  
  PHY93_06415|PHY93_06415 245 YDYYEKEKEIRKDQQQAQFERQ 266
                              3355666666666666544443 PP

  == domain 3  score: 7.9 bits;  conditional E-value: 0.0094
                   AAA_18   1 IlltGtpGvGKttlakeL 18 
                              I++ G+ G+GK+tl k +
  PHY93_06415|PHY93_06415 360 IAVVGVNGAGKSTLLKVI 377
                              89************9987 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.4   0.0     0.011       4.7       2      24 ..      30      52 ..      29      84 .. 0.78
   2 !    8.6   0.0    0.0048       2.1       1      33 [.     359     391 ..     359     406 .. 0.82

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.011
                             EEEESSTTSSHHHHHHCHCT-CC CS
                      Roc  2 vvlvGdsgvGKtsllkrfvedkf 24
                               lvG +g+GKt+ ++ +++++ 
  PHY93_06415|PHY93_06415 30 AGLVGPNGAGKTTVFRVLMKEEG 52
                             569***************99764 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0048
                              EEEEESSTTSSHHHHHHCHCT-CCC-EEETTTT CS
                      Roc   1 KvvlvGdsgvGKtsllkrfvedkfsekekstig 33 
                              K+ +vG +g+GK++llk ++  +  ++ +s +g
  PHY93_06415|PHY93_06415 359 KIAVVGVNGAGKSTLLKVICGLTEASSGESSLG 391
                              89***************9998777666666666 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.2   0.7     0.002      0.89      28     274 ..      32     303 ..      27     338 .. 0.61
   2 !    8.2   0.2     0.004       1.8      26      43 ..     360     377 ..     349     419 .. 0.84
   3 ?    2.5   0.1      0.21        94     321     351 ..     465     495 ..     419     509 .. 0.80

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.002
                   AAA_15  28 liGkNnsGKSsilealdlFlnnkekknkkvikiekedleifeniseskdikIdvefaek...ekakeyektlkskekkkadlllkk 110
                              l+G+N++GK+++ ++l  ++++                  f+  s   + kI+v + ++   e        + ++ ++ + +    
  PHY93_06415|PHY93_06415  32 LVGPNGAGKTTVFRVL--MKEE-----------------GFDGGSITVPEKIRVAYFSQnigE-------MKGRTVIE-EVMSGSA 90 
                              89************99..6553.................355556666666666662222221.......11111111.1122223 PP

                   AAA_15 111 kesdlkktikdkklklkknelsdekisvekkkskkelpkekeeklekekeelkid.kedlkklikkleeslkkee........... 184
                              k s+l   i++ +  l+ +       + e++k  ++l +++++++++  ++l+i  ke+++ l       ++++            
  PHY93_06415|PHY93_06415  91 KASELAVEIRKIEKMLDGEIP---LSDTEMEKVLYKLGDYQTDFEKLGGYDLDIRaKEIITGLGV-----MPYDHdrdvslfsggw 168
                              333333333333333222222...22346677777788888888888888888776666666666.....6666677777888888 PP

                   AAA_15 185 ................................elknvlksaiiklllisakRnvsdedsekkssllgklkekileealqekleeel 238
                                                               l++ lks+   +l  s +R++ +   + + ++ +k++  +  +  +++ e+e+
  PHY93_06415|PHY93_06415 169 rmrialakiliqvpdvilldeptnyldlesivWLEEWLKSFKGAVLMTSHDRDFMNGIVNRIIEVNNKTITTYTGD--YDYYEKEK 252
                              8888888888888888888888888888888777777888888888888888888888888888888888877776..45556666 PP

                   AAA_15 239 teklkeiqeklkeidkklaeelk...............kilkkkidkikkf 274
                              +   ++ q  ++ +++ la+e++               ++  kk+dki+ +
  PHY93_06415|PHY93_06415 253 EIRKDQQQAQFERQQDMLAKEEEfiakfaarashaaqvQSRVKKLDKIERV 303
                              666666666666666666666666655555666664444444444444444 PP

  == domain 2  score: 8.2 bits;  conditional E-value: 0.004
                   AAA_15  26 tvliGkNnsGKSsileal 43 
                                ++G N++GKS++l+++
  PHY93_06415|PHY93_06415 360 IAVVGVNGAGKSTLLKVI 377
                              789*************99 PP

  == domain 3  score: 2.5 bits;  conditional E-value: 0.21
                   AAA_15 321 eeknvilliEEPEahLHpqaqkvlikllkel 351
                              +++n++l+++EP +hL  +  +vl ++lke 
  PHY93_06415|PHY93_06415 465 SNNNNLLILDEPTNHLDLKSREVLLNALKEF 495
                              46799***********999999999999886 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.4   0.0     0.012       5.3      29      63 ..      32      67 ..      27     187 .. 0.79
   2 !    8.4   0.0    0.0057       2.6      27      63 ..     360     407 ..     341     509 .. 0.59

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.012
                   AAA_16 29 lsGesGvGKsslvrellralekdg.giflrgkcdql 63
                             l+G+ G GK+++ r l+++   dg  i++ +k +  
  PHY93_06415|PHY93_06415 32 LVGPNGAGKTTVFRVLMKEEGFDGgSITVPEKIRVA 67
                             79*************998666554355555555555 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.0057
                   AAA_16  27 vllsGesGvGKsslvrellralekd............ggiflrgkcdql 63 
                              + ++G  G GKs+l++ +   l+++             g+f +   d l
  PHY93_06415|PHY93_06415 360 IAVVGVNGAGKSTLLKVIC-GLTEAssgesslgpsinAGYFSQFSLDLL 407
                              789************9988.45555355555544442244444444443 PP

>> cobW  CobW/HypB/UreG, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.4   0.0    0.0069       3.1       4      23 ..      31      50 ..      29     102 .. 0.90
   2 !    7.3   0.2    0.0073       3.3       4      22 ..     361     381 ..     359     390 .. 0.79

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.0069
                             EEEESTTCCHHHHHHHHHCT CS
                     cobW  4 vltGflGsGKTtLlnhllen 23
                             +l+G+ G+GKTt+ + l+++
  PHY93_06415|PHY93_06415 31 GLVGPNGAGKTTVFRVLMKE 50
                             689**********9999855 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.0073
                              EEEESTTCCHHHHHHHHH..C CS
                     cobW   4 vltGflGsGKTtLlnhll..e 22 
                               ++G  G+GK+tLl+ ++  +
  PHY93_06415|PHY93_06415 361 AVVGVNGAGKSTLLKVICglT 381
                              689************998541 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   0.0     0.024        11      34      59 ..      28      53 ..      14      82 .. 0.85
   2 ?    5.6   0.0     0.028        13      31      69 ..     355     394 ..     342     425 .. 0.79
   3 ?    1.4   0.0      0.52   2.3e+02      57     114 ..     443     498 ..     426     505 .. 0.73

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.024
                   RuvB_N 34 dhvllyGpPGlGkttlakiiakelgv 59
                             d   l+Gp G Gktt+ +++ ke g 
  PHY93_06415|PHY93_06415 28 DKAGLVGPNGAGKTTVFRVLMKEEGF 53
                             666799*************9999765 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.028
                   RuvB_N  31 ealdhvllyGpPGlGkttlakiiakelgvklkits.gPvl 69 
                              + ld + ++G  G Gk+tl k+i+   +++   +s gP +
  PHY93_06415|PHY93_06415 355 NRLDKIAVVGVNGAGKSTLLKVICGLTEASSGESSlGPSI 394
                              679*******************987666655433336666 PP

  == domain 3  score: 1.4 bits;  conditional E-value: 0.52
                   RuvB_N  57 lgvklkitsgPvlekagdlaalltnleekdvlfide.ihrlsraveevlysamedfrld 114
                              ++ k+ki sg   ek++ + a l++ +++++l +de    l+ +  evl +a+ +f+  
  PHY93_06415|PHY93_06415 443 VDKKIKILSGG--EKSRVVLATLMS-NNNNLLILDEpTNHLDLKSREVLLNALKEFEGT 498
                              55666666665..344444444443.46789999995678999**********999755 PP

>> SbcCD_C  Putative exonuclease SbcCD, C subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.0   0.0       2.2     1e+03      64      81 ..     182     199 ..     170     206 .. 0.86
   2 ?    0.9   0.1       1.2   5.6e+02       6      57 ..     241     293 ..     236     303 .. 0.72
   3 !   10.0   0.0    0.0017      0.77      26      89 ..     443     493 ..     438     494 .. 0.75

  Alignments for each domain:
  == domain 1  score: 0.0 bits;  conditional E-value: 2.2
                  SbcCD_C  64 lrlvfLDEAFsklDeesi 81 
                              +++++LDE  + lD esi
  PHY93_06415|PHY93_06415 182 PDVILLDEPTNYLDLESI 199
                              789******999998775 PP

  == domain 2  score: 0.9 bits;  conditional E-value: 1.2
                  SbcCD_C   6 yRnylsfevevr..dedgkekelsrssgtlSGGekqflaylalaaalaalyssa 57 
                              y+  ++++ +++  ++d+++ +++r+   l   e  f+a +a  a+ aa+++s+
  PHY93_06415|PHY93_06415 241 YTGDYDYYEKEKeiRKDQQQAQFERQQDMLAKEEE-FIAKFAARASHAAQVQSR 293
                              55556665555555677777778777777776666.99*****99999999985 PP

  == domain 3  score: 10.0 bits;  conditional E-value: 0.0017
                  SbcCD_C  26 lsrssgtlSGGekqflaylalaaalaalyssaegrepalrlvfLDEAFsklDeesiatllelle 89 
                              ++++++ lSGGek+ +   +la     l+s++        l++LDE  + lD +s++ ll++l+
  PHY93_06415|PHY93_06415 443 VDKKIKILSGGEKSRV---VLA----TLMSNN------NNLLILDEPTNHLDLKSREVLLNALK 493
                              6788888999999333...332....334443......469*******************9997 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.4   0.0   0.00012     0.056      50     114 ..      32      97 ..      28     114 .. 0.81
   2 ?   -1.1   0.0       3.3   1.5e+03     130     157 ..     321     348 ..     319     363 .. 0.84
   3 ?    0.5   0.1       1.1   4.9e+02      49      66 ..     361     378 ..     342     392 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 0.00012
                    Rad17  50 isGPsGCgkstvvkvLskelgiklrewlnpvslkepdn..qksdfkgltekesrflsqiesfkeleL 114
                              + GP G gk+tv +vL ke g++      p +++ + +  +  ++kg t  e+  +s  +  +el +
  PHY93_06415|PHY93_06415  32 LVGPNGAGKTTVFRVLMKEEGFDGGSITVPEKIRVAYFsqNIGEMKGRTVIEE-VMSGSAKASELAV 97 
                              67********************9999999999998888545568899888877.7777777777755 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 3.3
                    Rad17 130 rtdkklilvedlPnkfyrdsdalrevir 157
                              r+   ++++ dl  +++rd  al++v  
  PHY93_06415|PHY93_06415 321 RGSNDIVVMKDLGKNWNRDDGALHKVFS 348
                              67788999***************99975 PP

  == domain 3  score: 0.5 bits;  conditional E-value: 1.1
                    Rad17  49 LisGPsGCgkstvvkvLs 66 
                               + G  G gkst +kv+ 
  PHY93_06415|PHY93_06415 361 AVVGVNGAGKSTLLKVIC 378
                              467999*********985 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.9   0.0    0.0033       1.5      21      49 ..      29      59 ..       8      70 .. 0.81
   2 ?    4.7   0.1     0.063        28      16      41 ..     352     379 ..     337     389 .. 0.72

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.0033
                             EEEEEESTTSSHHHHHHHHHHHTT--..--- CS
                     TsaE 21 vilLeGdLGaGKTtlvrglakalgve..evk 49
                                L G+ GaGKTt  r l+k+ g++  +++
  PHY93_06415|PHY93_06415 29 KAGLVGPNGAGKTTVFRVLMKEEGFDggSIT 59
                             56799***************99888666665 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.063
                              HCH..TEEEEEEESTTSSHHHHHHHHHH CS
                     TsaE  16 kal..gdvilLeGdLGaGKTtlvrglak 41 
                              +++   d i+  G  GaGK+tl + ++ 
  PHY93_06415|PHY93_06415 352 ATVnrLDKIAVVGVNGAGKSTLLKVICG 379
                              333233459999************9975 PP

>> AAA_13  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   0.0     0.012       5.2      23      55 ..      34      60 ..      32     110 .. 0.74
   2 ?    0.6   1.2      0.38   1.7e+02     375     438 ..     228     289 ..     216     312 .. 0.41
   3 ?    7.5   0.0     0.003       1.4      10      45 ..     352     386 ..     344     416 .. 0.78

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.012
                   AAA_13 23 GwNGaGKTtLSrllrslelgetepkfangsiei 55
                             G NGaGKTt+ r+l +       + f  gsi +
  PHY93_06415|PHY93_06415 34 GPNGAGKTTVFRVLMKE------EGFDGGSITV 60
                             99********9999883......4566666655 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.38
                   AAA_13 375 neliakhNekvanle......eekeeakkklelhlveeleseldeykkkykklekaieklekelkeeeae 438
                              n++i+ +N++++ ++      e+++e++k+ ++   e+ +++l + ++ ++k+++ ++++         +
  PHY93_06415|PHY93_06415 228 NRIIEVNNKTITTYTgdydyyEKEKEIRKDQQQAQFERQQDMLAKEEEFIAKFAARASHAA--------Q 289
                              4555555555554441111112222222222222223333333333333333332222222........1 PP

  == domain 3  score: 7.5 bits;  conditional E-value: 0.003
                   AAA_13  10 aeledfkriNliYGwNGaGKTtLSrllrslelgete 45 
                              a+++ + +i ++ G NGaGK+tL +++  l++ +  
  PHY93_06415|PHY93_06415 352 ATVNRLDKIAVV-GVNGAGKSTLLKVICGLTEASSG 386
                              566667777665.**************999776544 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.9   0.0     0.056        25       7      27 ..      32      52 ..      29      95 .. 0.79
   2 ?   -1.4   0.0         5   2.3e+03      65      83 ..     182     200 ..     170     249 .. 0.72
   3 ?    4.1   0.0       0.1        45       5      22 ..     360     377 ..     358     420 .. 0.89
   4 ?    1.1   0.0      0.82   3.7e+02      53      76 ..     456     479 ..     424     507 .. 0.71

  Alignments for each domain:
  == domain 1  score: 4.9 bits;  conditional E-value: 0.056
                   AAA_14  7 itGaRrvGKTtllkqlikell 27
                             ++G+  +GKTt+ + l+ke+ 
  PHY93_06415|PHY93_06415 32 LVGPNGAGKTTVFRVLMKEEG 52
                             78**************99987 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 5
                   AAA_14  65 ktylflDEiqevpewekal 83 
                                +++lDE  ++ ++e+++
  PHY93_06415|PHY93_06415 182 PDVILLDEPTNYLDLESIV 200
                              4679999999986665543 PP

  == domain 3  score: 4.1 bits;  conditional E-value: 0.1
                   AAA_14   5 lvitGaRrvGKTtllkql 22 
                              ++++G+  +GK+tllk +
  PHY93_06415|PHY93_06415 360 IAVVGVNGAGKSTLLKVI 377
                              5799**********9865 PP

  == domain 4  score: 1.1 bits;  conditional E-value: 0.82
                   AAA_14  53 lelileklkeekktylflDEiqev 76 
                               +++l+ l+++++++l+lDE  + 
  PHY93_06415|PHY93_06415 456 SRVVLATLMSNNNNLLILDEPTNH 479
                              45566665556999******8775 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.1      0.14        61       5      22 ..      32      49 ..      30      52 .. 0.87
   2 ?    9.4   0.1    0.0021      0.95       3      22 ..     360     379 ..     358     390 .. 0.84

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.14
                             EEC-TTTCHHHHHHHHHH CS
                    NACHT  5 lqGeaGsGKTtLlqklal 22
                             l G++G GKTt  + l+ 
  PHY93_06415|PHY93_06415 32 LVGPNGAGKTTVFRVLMK 49
                             68*********9988875 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.0021
                              EEEEC-TTTCHHHHHHHHHH CS
                    NACHT   3 vilqGeaGsGKTtLlqklal 22 
                              +++ G +G GK+tLl+ ++ 
  PHY93_06415|PHY93_06415 360 IAVVGVNGAGKSTLLKVICG 379
                              789************99975 PP

>> AAA_27  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.2   0.0     0.031        14      31      45 ..      32      46 ..      20      49 .. 0.89
   2 ?    6.3   0.0     0.014       6.4      31      46 ..     362     377 ..     350     381 .. 0.86

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.031
                   AAA_27 31 iyGpNEAGKstalrA 45
                             ++GpN AGK+t++r 
  PHY93_06415|PHY93_06415 32 LVGPNGAGKTTVFRV 46
                             58*********9986 PP

  == domain 2  score: 6.3 bits;  conditional E-value: 0.014
                   AAA_27  31 iyGpNEAGKstalrAi 46 
                              ++G N AGKst+l+ i
  PHY93_06415|PHY93_06415 362 VVGVNGAGKSTLLKVI 377
                              89**********9877 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.2   0.1     0.035        16       4      20 ..      29      45 ..      27      55 .. 0.84
   2 ?    6.5   0.1     0.014       6.3       4      20 ..     359     375 ..     357     385 .. 0.91

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.035
                   AAA_24  4 kiliyGpsgiGKTtlak 20
                             k  ++Gp+g+GKTt+ +
  PHY93_06415|PHY93_06415 29 KAGLVGPNGAGKTTVFR 45
                             56799*********876 PP

  == domain 2  score: 6.5 bits;  conditional E-value: 0.014
                   AAA_24   4 kiliyGpsgiGKTtlak 20 
                              ki+++G +g+GK+tl+k
  PHY93_06415|PHY93_06415 359 KIAVVGVNGAGKSTLLK 375
                              89************997 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   0.0    0.0091       4.1      10      29 ..      32      51 ..      30      93 .. 0.84
   2 ?    6.0   0.8      0.03        13       8      24 ..     360     376 ..     358     500 .. 0.77

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.0091
                   AAA_22 10 vtGesGtGKTtllrrlleql 29
                             ++G+ G+GKTt+ r l+++ 
  PHY93_06415|PHY93_06415 32 LVGPNGAGKTTVFRVLMKEE 51
                             79***********9988775 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.03
                   AAA_22   8 lvvtGesGtGKTtllrr 24 
                              ++v+G  G+GK+tll+ 
  PHY93_06415|PHY93_06415 360 IAVVGVNGAGKSTLLKV 376
                              689***********985 PP

>> TniB  Bacterial TniB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.9   0.0      0.59   2.6e+02      40      59 ..      32      51 ..      25      73 .. 0.79
   2 ?    1.4   0.0      0.39   1.8e+02      32      54 ..     354     376 ..     341     389 .. 0.83
   3 ?    6.3   0.1     0.012       5.5     106     149 ..     454     495 ..     442     501 .. 0.88

  Alignments for each domain:
  == domain 1  score: 0.9 bits;  conditional E-value: 0.59
                     TniB 40 lvGdsnnGKtmivekFarlh 59
                             lvG+   GKt++++  ++++
  PHY93_06415|PHY93_06415 32 LVGPNGAGKTTVFRVLMKEE 51
                             89**********98776665 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.39
                     TniB  32 rkrmpnlllvGdsnnGKtmivek 54 
                               +r  ++ +vG    GK+++++ 
  PHY93_06415|PHY93_06415 354 VNRLDKIAVVGVNGAGKSTLLKV 376
                              678899*************9985 PP

  == domain 3  score: 6.3 bits;  conditional E-value: 0.012
                     TniB 106 kleqqvlrllrelkvrvLiiDEihnllagsarkqreflnalksL 149
                              ++ + vl++l + +  +Li+DE  n l    ++++ +lnalk +
  PHY93_06415|PHY93_06415 454 EKSRVVLATLMSNNNNLLILDEPTNHL--DLKSREVLLNALKEF 495
                              667788999999999***********9..889999*******87 PP

>> Arf  ADP-ribosylation factor family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.8   0.0      0.15        69      19      38 ..      32      51 ..      28      62 .. 0.87
   2 ?    7.6   0.0    0.0054       2.4       8      33 ..     350     376 ..     343     394 .. 0.81

  Alignments for each domain:
  == domain 1  score: 2.8 bits;  conditional E-value: 0.15
                             EEESTTSSHHHHHHHHHHSS CS
                      Arf 19 llGLDnaGKtTilkklklee 38
                             l+G  +aGKtT+   l++ee
  PHY93_06415|PHY93_06415 32 LVGPNGAGKTTVFRVLMKEE 51
                             578899*******9998876 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0054
                              GTT..TTEEEEEEEESTTSSHHHHHHH CS
                      Arf   8 lklk.kkelrilllGLDnaGKtTilkk 33 
                              l+ + ++  +i ++G  +aGK+T+lk 
  PHY93_06415|PHY93_06415 350 LTATvNRLDKIAVVGVNGAGKSTLLKV 376
                              5443377789**************985 PP

>> SRP54  SRP54-type protein, GTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   0.3     0.021       9.6       6      18 ..      32      44 ..      29      56 .. 0.87
   2 ?    5.8   0.1     0.021       9.6       4      18 ..     360     374 ..     357     388 .. 0.85

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.021
                             EEESTTSSHHHHH CS
                    SRP54  6 lvGlqGaGKTttl 18
                             lvG++GaGKTt  
  PHY93_06415|PHY93_06415 32 LVGPNGAGKTTVF 44
                             8**********86 PP

  == domain 2  score: 5.8 bits;  conditional E-value: 0.021
                              EEEEESTTSSHHHHH CS
                    SRP54   4 illvGlqGaGKTttl 18 
                              i++vG++GaGK t l
  PHY93_06415|PHY93_06415 360 IAVVGVNGAGKSTLL 374
                              899*********986 PP

>> FeoB_N  Ferrous iron transport protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   0.0      0.39   1.7e+02       4      22 ..      31      49 ..      29      53 .. 0.85
   2 ?    3.0   0.0      0.15        67      95     138 ..      67     110 ..      60     124 .. 0.87
   3 ?    5.9   0.1     0.019       8.5       2      25 ..     359     382 ..     358     386 .. 0.90

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.39
                             EEEESTTSSHHHHHHHHHT CS
                   FeoB_N  4 alvGnpnvGkttlfnaltg 22
                              lvG   +Gktt+f  l +
  PHY93_06415|PHY93_06415 31 GLVGPNGAGKTTVFRVLMK 49
                             5899999*******99876 PP

  == domain 2  score: 3.0 bits;  conditional E-value: 0.15
                              HHHHHHHHHTTSSEEEEEETHHHHHHTTEEE-HHHHHHHHTS-E CS
                   FeoB_N  95 LyLtlqllelgvpvvlalnmideaekkgieidlkkLsekLgvpv 138
                               y+  ++ e++ ++v+   m+  a+++++ ++++k++++L+ ++
  PHY93_06415|PHY93_06415  67 AYFSQNIGEMKGRTVIEEVMSGSAKASELAVEIRKIEKMLDGEI 110
                              57888999********************************8665 PP

  == domain 3  score: 5.9 bits;  conditional E-value: 0.019
                              EEEEEESTTSSHHHHHHHHHTTSE CS
                   FeoB_N   2 tvalvGnpnvGkttlfnaltgakq 25 
                              ++a+vG   +Gk+tl+  ++g ++
  PHY93_06415|PHY93_06415 359 KIAVVGVNGAGKSTLLKVICGLTE 382
                              69******************9865 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0    0.0015      0.66       4      44 ..      32      80 ..      29     122 .. 0.66
   2 ?    5.0   0.0     0.057        26       1      17 [.     359     375 ..     359     421 .. 0.93

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.0015
                   AAA_28  4 itGgestGKTtlleaLaar.....gypvvpEaareileekl...akged 44
                             ++G+ ++GKTt+ + L ++     g  +vpE  r  ++++     kg+ 
  PHY93_06415|PHY93_06415 32 LVGPNGAGKTTVFRVLMKEegfdgGSITVPEKIRVAYFSQNigeMKGRT 80
                             78***************777777677799**999877776634333333 PP

  == domain 2  score: 5.0 bits;  conditional E-value: 0.057
                   AAA_28   1 kivitGgestGKTtlle 17 
                              ki+++G  ++GK+tll+
  PHY93_06415|PHY93_06415 359 KIAVVGVNGAGKSTLLK 375
                              799************97 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.3   0.0     0.056        25       3      21 ..      32      50 ..      31      70 .. 0.89
   2 ?    4.7   0.0     0.085        38       2      21 ..     361     380 ..     360     420 .. 0.81

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.056
             RNA_helicase  3 lyGpsgeGKStlakeLaka 21
                             l+Gp+g GK+t+ + L+k+
  PHY93_06415|PHY93_06415 32 LVGPNGAGKTTVFRVLMKE 50
                             68***********999875 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.085
             RNA_helicase   2 wlyGpsgeGKStlakeLaka 21 
                               ++G +g GKStl k ++  
  PHY93_06415|PHY93_06415 361 AVVGVNGAGKSTLLKVICGL 380
                              6899**********998754 PP

>> Dynamin_N  Dynamin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.0      0.38   1.7e+02       3      59 ..      32      93 ..      31     190 .. 0.63
   2 ?   -0.2   0.2       2.1   9.3e+02      41      75 ..     249     283 ..     222     316 .. 0.48
   3 ?    8.9   0.5    0.0032       1.4       1      20 [.     360     379 ..     360     387 .. 0.92

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.38
                             EEEBTTTTHHHHHHHHHTS--S---SSS---S-EEEEECCT---C.CS...SSEEEE....T CS
                Dynamin_N  3 vvGsqSsGKSSvlnaLlgedilprgpnptTrrplelqlgeeeeas.eravkeelkek....e 59
                             +vG   +GK++v   L++e+ +  g++ +  ++ +   +++  +   r+v+ee+ ++    +
  PHY93_06415|PHY93_06415 32 LVGPNGAGKTTVFRVLMKEEGFDGGSITVPEKIRVAYFSQNIGEMkGRTVIEEVMSGsakaS 93
                             799999********999999766666666555544444444332223455555555543333 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 2.1
                              CCT---CCS...SSEEEET-EB--CHHHHHHHHHH CS
                Dynamin_N  41 geeeeaseravkeelkekekkledfsevreeieke 75 
                              ++e+e+++++++++++ +++ l + +e+  ++ ++
  PHY93_06415|PHY93_06415 249 EKEKEIRKDQQQAQFERQQDMLAKEEEFIAKFAAR 283
                              22333222333333333333333333333333333 PP

  == domain 3  score: 8.9 bits;  conditional E-value: 0.0032
                              EEEEEBTTTTHHHHHHHHHT CS
                Dynamin_N   1 iavvGsqSsGKSSvlnaLlg 20 
                              iavvG   +GKS++l  ++g
  PHY93_06415|PHY93_06415 360 IAVVGVNGAGKSTLLKVICG 379
                              89*************99988 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.9   0.1     0.034        15      14      62 ..      31      80 ..      22     262 .. 0.84
   2 ?    4.2   0.1      0.11        49      13      42 ..     360     389 ..     352     502 .. 0.68

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.034
                   AAA_19 14 lvtaGpGtGKTrvlkhivall.velggvkpeeillvaftgrAakelrerl 62
                              ++++ G GKT+v +  +++   + g++ + e + va+ ++   e++ r+
  PHY93_06415|PHY93_06415 31 GLVGPNGAGKTTVFRVLMKEEgFDGGSITVPEKIRVAYFSQNIGEMKGRT 80
                             688999********999976414555566666777777777778887777 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.11
                   AAA_19  13 llvtaGpGtGKTrvlkhivallvelggvkp 42 
                              ++v++  G GK+++lk i+ l ++  g++ 
  PHY93_06415|PHY93_06415 360 IAVVGVNGAGKSTLLKVICGLTEASSGESS 389
                              7899999***********999888777655 PP

>> DUF3584  Protein of unknown function (DUF3584)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.0     0.011       4.9      14      37 ..      24      47 ..      22      47 .. 0.85
   2 ?   -2.1   2.0       1.1   4.8e+02     648     685 ..     256     293 ..     227     308 .. 0.41
   3 ?    6.9   0.2    0.0021      0.92       9      37 ..     349     377 ..     344     378 .. 0.83

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.011
                  DUF3584 14 ldldghtnieGtNaaGKTtLlrLi 37
                             l++ ++  ++G N+aGKTt+ r++
  PHY93_06415|PHY93_06415 24 LRPGDKAGLVGPNGAGKTTVFRVL 47
                             566778889***********9975 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 1.1
                  DUF3584 648 talknardtlerlqnekesekdklekaiaerkqqaeeq 685
                              +  ++a+ ++++   +ke+e  ++ +a+a++ +q++ +
  PHY93_06415|PHY93_06415 256 KDQQQAQFERQQDMLAKEEEFIAKFAARASHAAQVQSR 293
                              11111111111111122222222222222222222222 PP

  == domain 3  score: 6.9 bits;  conditional E-value: 0.0021
                  DUF3584   9 GrvaeldldghtnieGtNaaGKTtLlrLi 37 
                              G +a ++  ++  ++G+N+aGK tLl++i
  PHY93_06415|PHY93_06415 349 GLTATVNRLDKIAVVGVNGAGKSTLLKVI 377
                              5566667778899*************987 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.1      0.14        61       4      20 ..      32      48 ..      29      64 .. 0.84
   2 ?   -1.1   0.0       3.5   1.6e+03      95     149 ..     181     235 ..     169     245 .. 0.61
   3 ?    5.1   0.2     0.044        20       1      22 [.     359     380 ..     359     387 .. 0.83

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.14
                             EE--TTSSHHHHHHHHH CS
                 NTPase_1  4 iTGppGvGKtTlvkkvl 20
                             + Gp G GKtT+++ ++
  PHY93_06415|PHY93_06415 32 LVGPNGAGKTTVFRVLM 48
                             77*********997665 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 3.5
                              HH-EEEE---S.TTGGG-HHHHHHHHHHHT.TTSEEEEE--SS-.-SHHHHHHHT-TT CS
                 NTPase_1  95 eadviviDEiG.kmElkskkfkeaveevLk.sekpvlavihrrk.dlalveeirerkd 149
                               +dvi++DE    + l+s ++   +ee Lk  +  vl++ h r+  + +v++i e ++
  PHY93_06415|PHY93_06415 181 VPDVILLDEPTnYLDLESIVW---LEEWLKsFKGAVLMTSHDRDfMNGIVNRIIEVNN 235
                              567777777320244444433...5566664455788888888777778887776654 PP

  == domain 3  score: 5.1 bits;  conditional E-value: 0.044
                              EEEEE--TTSSHHHHHHHHHHH CS
                 NTPase_1   1 kvfiTGppGvGKtTlvkkvlel 22 
                              k+++ G  G GK+Tl+k ++ l
  PHY93_06415|PHY93_06415 359 KIAVVGVNGAGKSTLLKVICGL 380
                              58899**********9988765 PP

>> Ribosomal_L6e  Ribosomal protein L6e
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7   0.0      0.19        87      28      80 ..      58     110 ..      45     123 .. 0.85
   2 ?    4.4   3.7      0.12        52      14      78 ..     237     299 ..     224     305 .. 0.78

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.19
            Ribosomal_L6e  28 ekipeklndeyFkkekkkkkkkkkeeelfeekkekkelseerkadqkavDkal 80 
                               ++pek++ +yF+++  + k ++  ee+++ +++ +el  e ++  k +D ++
  PHY93_06415|PHY93_06415  58 ITVPEKIRVAYFSQNIGEMKGRTVIEEVMSGSAKASELAVEIRKIEKMLDGEI 110
                              4899***********88888889999999999999999999999999999776 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.12
            Ribosomal_L6e  14 VIatst.kvdlsgvdekipeklndeyFkkekkkkkkkkkeeelfeekkekkelseerkadqkavDk 78 
                               I+t t   d  + +++i ++ +++ F+++++  +k   eee++++ +++ +  ++ ++  k++Dk
  PHY93_06415|PHY93_06415 237 TITTYTgDYDYYEKEKEIRKDQQQAQFERQQDMLAK---EEEFIAKFAARASHAAQVQSRVKKLDK 299
                              4666666788888889999999999**999766665...899998888888888888888888876 PP

>> DUF87  Helicase HerA, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.2      0.76   3.4e+02      28      46 ..      32      50 ..      29      60 .. 0.83
   2 ?   -0.5   0.1       2.5   1.1e+03     132     178 ..     236     279 ..     210     319 .. 0.46
   3 ?    9.4   0.2    0.0023         1      25      44 ..     359     378 ..     352     385 .. 0.90

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 0.76
                    DUF87 28 ilgsTGsGKSntvavLlee 46
                              +g  G+GK++  +vL++e
  PHY93_06415|PHY93_06415 32 LVGPNGAGKTTVFRVLMKE 50
                             56777***********998 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 2.5
                    DUF87 132 eekeklssdepveklleelkkekeelrklknqaiarlldkledllrk 178
                              + ++ +++d   ++ ++e++   ++ ++++ + ++ +l+k e+++ k
  PHY93_06415|PHY93_06415 236 KTITTYTGDYDYYEKEKEIR---KDQQQAQFERQQDMLAKEEEFIAK 279
                              33333333333333333333...233333333333333333333322 PP

  == domain 3  score: 9.4 bits;  conditional E-value: 0.0023
                    DUF87  25 HlAilgsTGsGKSntvavLl 44 
                               +A++g  G+GKS++ +v++
  PHY93_06415|PHY93_06415 359 KIAVVGVNGAGKSTLLKVIC 378
                              68****************97 PP

>> AAA_17  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2   0.1     0.014       6.3       1      21 [.      33      53 ..      33      93 .. 0.93
   2 ?   -1.6   0.3       7.6   3.4e+03      49      81 ..     251     283 ..     236     313 .. 0.44
   3 ?    4.9   0.1     0.075        34       1      15 [.     363     377 ..     363     385 .. 0.87

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.014
                             EE-TTSSHHHHHHHHHHHHTE CS
                   AAA_17  1 lGgPGsGKgtqceklvekygf 21
                             +G+ G+GK+t+ + l+++ gf
  PHY93_06415|PHY93_06415 33 VGPNGAGKTTVFRVLMKEEGF 53
                             79***********99999887 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 7.6
                              SHHHHHHHHHHHHHHHHHHHHHSSEEEEEE-SE CS
                   AAA_17  49 lpleekkelqkeaaekiaeeakkkgvlvdghpr 81 
                              +++ +k++ q++ +++    ak+++++ +  +r
  PHY93_06415|PHY93_06415 251 EKEIRKDQQQAQFERQQDMLAKEEEFIAKFAAR 283
                              333333333333333332223444454433333 PP

  == domain 3  score: 4.9 bits;  conditional E-value: 0.075
                              EE-TTSSHHHHHHHH CS
                   AAA_17   1 lGgPGsGKgtqcekl 15 
                              +G+ G+GK+t+++ +
  PHY93_06415|PHY93_06415 363 VGVNGAGKSTLLKVI 377
                              79*********9655 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.1   0.1      0.05        23      24      43 ..      31      50 ..      25     101 .. 0.88
   2 ?   -3.2   0.1       8.1   3.7e+03     105     145 ..     183     224 ..     169     269 .. 0.63
   3 ?    6.6   0.1    0.0085       3.8      21      40 ..     358     377 ..     340     385 .. 0.78

  Alignments for each domain:
  == domain 1  score: 4.1 bits;  conditional E-value: 0.05
                             EEEESTTSSHHHHHHHHCCS CS
                   NB-ARC 24 alvGmgGvGKttlakqilnk 43
                             +lvG  G GKtt+++  +++
  PHY93_06415|PHY93_06415 31 GLVGPNGAGKTTVFRVLMKE 50
                             79***********9987776 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 8.1
                              EEEEEEEE-SHHHH.....HHH.HCHTTSEEEEEESBCCCCC CS
                   NB-ARC 105 fllvlDDVweeedwdkigvvlp.arenrlrvllTTRdeevan 145
                               +++lD   ++ d+++i       ++ +  vl+T+ d++  n
  PHY93_06415|PHY93_06415 183 DVILLDEPTNYLDLESIVWLEEwLKSFKGAVLMTSHDRDFMN 224
                              556666655555555554332212355667788877777654 PP

  == domain 3  score: 6.6 bits;  conditional E-value: 0.0085
                              EEEEEEESTTSSHHHHHHHH CS
                   NB-ARC  21 lvvalvGmgGvGKttlakqi 40 
                              + +a+vG  G GK+tl+k i
  PHY93_06415|PHY93_06415 358 DKIAVVGVNGAGKSTLLKVI 377
                              4799************9977 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (540 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1280  (0.0713927); expected 358.6 (0.02)
Passed bias filter:                      833  (0.046461); expected 358.6 (0.02)
Passed Vit filter:                       129  (0.00719505); expected 17.9 (0.001)
Passed Fwd filter:                        40  (0.00223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              40  [number of targets reported over threshold]
# CPU time: 0.85u 0.29s 00:00:01.13 Elapsed: 00:00:00.46
# Mc/sec: 3537.59
//
Query:       PHY93_06420|PHY93_06420  [L=207]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.2e-35  122.2   0.0    2.6e-35  122.0   0.0    1.0  1  DSBA           DSBA-like thioredoxin domain
      0.002   18.3   0.0     0.0025   18.0   0.0    1.2  1  Thioredoxin_4  Thioredoxin


Domain annotation for each model (and alignments):
>> DSBA  DSBA-like thioredoxin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  122.0   0.0   2.9e-39   2.6e-35       1     192 [.       4     189 ..       4     190 .. 0.96

  Alignments for each domain:
  == domain 1  score: 122.0 bits;  conditional E-value: 2.9e-39
                              EEEEEEBTTBHHHHHHHHHHHHHHHHCCTEEEEEEE-SSSCHHHHCT.S.GGGSHHHHHHHHHHHHHHHHHHT....GGSSHHHHH CS
                     DSBA   1 tvdeffDvlCPyCylgkerleklaarspdvkvvlrpfelagakkasgnvgpselpeklkylledlkrlaeaegiplrfpkdklkns 86 
                              ++d++fD+l+Py+y+++     ++++s    + ++p+++   + + + +gp+++++k +yl++dl r     +ip++ pk+ + ns
  PHY93_06420|PHY93_06420   4 KIDFYFDFLSPYSYVAWTW---VRSQS--YDFEYYPISIPSIVSHYETKGPAQIKPKRNYLFKDLLRYTSLNQIPFTTPKNLPFNS 84 
                              69***************44...44445..789*************************************************877** PP

                              HHHHHHHHHHHHHHGHHHHHHHHHHHHHTSSS-TSSHHHHHHHHHHTTS.HHHHHHHHTSHHHHHHHHHHHHHHHHTT-SSSSEEE CS
                     DSBA  87 traarlllaagaeglaekvvrelfealwsegqaitddqellevaekaGldaeeldealeseavkeavrentaaaqslgvtGvPtvv 172
                              ++a rl l + a gl+++v  ++f+a w+eg +i++d++l+e++e   l ++el  ++e++a   +++   + a +  v+GvPt++
  PHY93_06420|PHY93_06420  85 LYALRLSLKTVAGGLQKEVIDAIFRAGWEEGLDIGSDDVLREILEHKNLPVDELFSKMEDKASRVQLKSAIEDALKKEVFGVPTFF 170
                              ************************************************************************************** PP

                              ETTCEEEESSSSHHHHHHHH CS
                     DSBA 173 vdgkrmvfGadrldtladal 192
                              vd + m++G+d+++ l+ +l
  PHY93_06420|PHY93_06420 171 VDEE-MFWGNDSIKYLEMYL 189
                              ****.********9998776 PP

>> Thioredoxin_4  Thioredoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0   0.0   2.8e-07    0.0025     110     164 ..     135     189 ..      78     190 .. 0.84

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 2.8e-07
                              HHHHTS-------HHHHHHHHHHHHHHT--SS-EEEETTEEE-TT--HHHHHHHH CS
            Thioredoxin_4 110 dekfeacleeekldalveaeskeakkagiestPtfiingekveepqtyeelkali 164
                                ++++++e++  + +++ + ++a k+++ ++Ptf++++e+++++ +++ l+ ++
  PHY93_06420|PHY93_06420 135 VDELFSKMEDKASRVQLKSAIEDALKKEVFGVPTFFVDEEMFWGNDSIKYLEMYL 189
                              45667779**************************************999888765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (207 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       535  (0.0298399); expected 358.6 (0.02)
Passed bias filter:                      488  (0.0272185); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 1564.13
//
Query:       PHY93_06425|PHY93_06425  [L=191]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    7.8e-45  153.0   0.4    9.1e-45  152.8   0.4    1.0  1  Pro_isomerase  Cyclophilin type peptidyl-prolyl cis-trans iso


Domain annotation for each model (and alignments):
>> Pro_isomerase  Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  152.8   0.4   5.1e-49   9.1e-45       3     156 ..      32     184 ..      30     189 .. 0.91

  Alignments for each domain:
  == domain 1  score: 152.8 bits;  conditional E-value: 5.1e-49
            Pro_isomerase   3 dietsskGrivieLfadkaPktvenFlklvkegfYdgttFhRvikgfmvqgGdptgktsageqekkggesiraipdEitsklkhkr 88 
                               i+t+ +G+i++eL++dkaP+ v+nF+++vk+g Y+ t+FhRvi++fm+qgG ++++ +    ek++g+   +i++E  + lk++ 
  PHY93_06425|PHY93_06425  32 VIKTN-MGEIEAELYEDKAPISVKNFMEYVKKGQYKDTIFHRVINNFMIQGGGFDKNLK----EKSSGA---PIKNEAGNGLKNET 109
                              68997.***********************************************888733....233454...9************* PP

            Pro_isomerase  89 GalamartgkepnsagsqFfItlkeaphldg........kytvFGkVveGmdvvekiekvetdeerpkknvkivsa 156
                              G+lamart +e +sa+ qFfI+++++ +ld+        +y+vFGkV++Gm vv+ki++v+t  + p ++v ++s+
  PHY93_06425|PHY93_06425 110 GTLAMART-SEVDSATAQFFINIADNGFLDHrdnssagfGYAVFGKVTSGMPVVNKIKAVKTGTRGPLEDVPLESV 184
                              ********.68*************************************************9999777777766654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (191 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       492  (0.0274416); expected 358.6 (0.02)
Passed bias filter:                      390  (0.0217525); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 1467.80
//
Query:       PHY93_06430|PHY93_06430  [L=158]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-10   41.1   0.1    8.2e-10   38.9   0.1    2.0  2  FKBP_C    FKBP-type peptidyl-prolyl cis-trans isomerase
  ------ inclusion threshold ------
      0.027   15.3   0.1        1.2   10.0   0.0    2.3  2  Filamin   Filamin/ABP280 repeat


Domain annotation for each model (and alignments):
>> FKBP_C  FKBP-type peptidyl-prolyl cis-trans isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.9   0.1   9.1e-14   8.2e-10       5      86 ..       3      83 ..       1     137 [. 0.79
   2 ?    1.2   0.0     0.053   4.8e+02      19      52 ..     112     147 ..      94     156 .. 0.72

  Alignments for each domain:
  == domain 1  score: 38.9 bits;  conditional E-value: 9.1e-14
                             B-TTCEEEEEEEEEETTSSEEEEHCCHTSEEEEETTSSSSCHHHHHHHTTSBTT-EEEEEEEGGGTTTTTTBCTTTB.TTSE CS
                   FKBP_C  5 akegdtVtvhykgkledgkvfdssrsrakplefkvGsgqvikGfeealegmkvGekrtltippelaYgekglaggvippnat 86
                             ++++++V ++yk++   gk++dss ++   l    G g +i+G+e aleg k+G+  ++ti  + aYge++ a ++  p+a+
  PHY93_06430|PHY93_06430  3 VEKNKVVGIDYKLTDGSGKLLDSS-KDHGLLYYIQGTGSLIPGLESALEGKKAGDSLQVTIAAKDAYGERNDALCQTVPKAQ 83
                             578899********999*******.888888888899********************************7765555444433 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.053
                              ET.TSSEEEEHCC.HTSEEEEETTSSSSCHHHHHHH CS
                   FKBP_C  19 le.dgkvfdssrs.rakplefkvGsgqvikGfeeal 52 
                              +e d+ ++d++    + +l f v+ ++v ++ +e l
  PHY93_06430|PHY93_06430 112 IEgDSVTVDGNHPlAGMELHFDVDVKEVREATQEEL 147
                              565677777774477788888888888888777766 PP

>> Filamin  Filamin/ABP280 repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.0   0.00013       1.2      12      37 ..      43      72 ..      34     110 .. 0.78
   2 ?    3.5   0.0     0.014   1.3e+02       7      35 ..     117     142 ..     104     158 .] 0.63

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.00013
                             GGGTEE....ETTS-EEEEEEESSSTSCCC CS
                  Filamin 12 pGieas....vagesltFtvytkdakgeks 37
                             pG+e++    +ag+sl++t+ +kda+ge+ 
  PHY93_06430|PHY93_06430 43 PGLESAlegkKAGDSLQVTIAAKDAYGERN 72
                             5554444555*****************954 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.014
                              EEEESGGGTEEETTS-EEEEEEESSSTSC CS
                  Filamin   7 skvnGpGieasvagesltFtvytkdakge 35 
                              ++v  +G ++  ag +l+F v++k+  + 
  PHY93_06430|PHY93_06430 117 VTV--DG-NHPLAGMELHFDVDVKEVREA 142
                              333..22.555899*********965333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (158 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       504  (0.0281109); expected 358.6 (0.02)
Passed bias filter:                      416  (0.0232026); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1152.75
//
Query:       PHY93_06435|PHY93_06435  [L=326]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.19   12.1   0.0       0.32   11.4   0.0    1.4  1  YkuD      L,D-transpeptidase catalytic domain


Domain annotation for each model (and alignments):
>> YkuD  L,D-transpeptidase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   1.8e-05      0.32      30     127 ..     159     272 ..     133     284 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 1.8e-05
                              EB........TTS.TTSE---EEEEECEEEEEEE..EEGGGGT--TTSTT.EEEEEEEECCCTT........CECCCCEEE-STTS CS
                     YkuD  30 vG........gkkegdreTPlGtfrikskvrnptwnvppsiarkeiypklrkdpeyldkknskv........algkvkfvfpngsg 99 
                              +G        +    +  TP+G++ ++++ +  ++n+   ++ + i ++ ++ p+ ++ k+  +           +v       + 
  PHY93_06435|PHY93_06435 159 LGlsrrglafNHS--NGCTPTGVYSLDAVMPLADKNFEFGEFKRLIVNFIKASPDEVEAKKLLPkthhqlnwWKPSVVGRELGRNL 242
                              4555555655222..569*********99999999999999999999999998888887777779888777555666666666677 PP

                              -EEEE.ETCSS...CT..HHC.BSSSEEE- CS
                     YkuD 100 iyiHgtgapdlfergk..garrShGCirls 127
                                iHgtg ++l++  +  +   ++GC + +
  PHY93_06435|PHY93_06435 243 LRIHGTGRRNLNPLTTyyPFVPTSGCLATN 272
                              **********987755765555****9884 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (326 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       450  (0.025099); expected 358.6 (0.02)
Passed bias filter:                      407  (0.0227007); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.41
# Mc/sec: 2369.72
//
Query:       PHY93_06440|PHY93_06440  [L=148]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.2e-20   73.6   0.0    1.5e-20   73.4   0.0    1.0  1  PTPS      6-pyruvoyl tetrahydropterin synthase


Domain annotation for each model (and alignments):
>> PTPS  6-pyruvoyl tetrahydropterin synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.4   0.0   8.4e-25   1.5e-20       4     122 ..       7     143 ..       4     144 .. 0.94

  Alignments for each domain:
  == domain 1  score: 73.4 bits;  conditional E-value: 8.4e-25
                              EEEEEEEEE--TTTTGGGGSTEEEEEEEEEEEEEC-STCTTBSS-HHHHHHHHHHHHHCTTTEEC.CCC-CCHHCCS......... CS
                     PTPS   4 kefeFdaaHrlrkhegkcrnlHGHnykvevtvegeeldetgmvvdfgelkealkeileelDhkfl.naddpeleell......... 79 
                              k + F +aHr ++  g+c+ +HG++ ++++++++  ld++ +v+dfg  ke+   +++++Dh+ l n ddpel+ +          
  PHY93_06440|PHY93_06440   7 KFIGFPCAHRQWRDTGHCKFIHGYSREFTFWFKAFALDDKSWVMDFGGFKEFKIFLDDTFDHSCLiNSDDPELDLFHdmdkkgiik 92 
                              4578*********************************************************************9877********* PP

                              ......--HHHHHHHHHHHHHHHH...GCCCGCEEEEEEEEETTEEEEEEE CS
                     PTPS  80 .....spTaEnlaklifeelkerl...qekevklskvrvwEtpnswaeyre 122
                                   +  +E  +++++++++e l   ++++v + +v+  E+++++  y+e
  PHY93_06440|PHY93_06440  93 lrildNVGMEGTSQFLHKKMNEFLtqkTNGRVWCFRVETRENEKNSGIYEE 143
                              *****99*****************9877888888999999****9999985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (148 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       430  (0.0239835); expected 358.6 (0.02)
Passed bias filter:                      323  (0.0180155); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.20s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 1139.24
//
Query:       PHY93_06445|PHY93_06445  [L=219]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.6e-61  206.9   0.2    1.8e-61  206.7   0.2    1.0  1  GTP_cyclohydroI  GTP cyclohydrolase I
  ------ inclusion threshold ------
      0.017   15.3   0.0      0.057   13.6   0.0    1.9  2  QueF             QueF-like protein


Domain annotation for each model (and alignments):
>> GTP_cyclohydroI  GTP cyclohydrolase I
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  206.7   0.2     2e-65   1.8e-61       1     178 [.      35     213 ..      35     214 .. 0.98

  Alignments for each domain:
  == domain 1  score: 206.7 bits;  conditional E-value: 2e-65
                              HHHHHHHHHHHTT--TTSTTTTTHHHHHHHHH.HHHTGGGGS-G...GGGGSSEEETT--S-EEEEEEEEEEEETTT--EEEEEEE CS
          GTP_cyclohydroI   1 ieeavreiLealgedpereglketpkRvakay.eelfkgleedp..kekvlkkvfeeekdemvlvkdiefsSlCeHHllpfigkah 83 
                              iee+++ i+e+lg d ++++lk+tpkRvak++ ee+f gl+e++  k++v++++f+  +d+ ++ ++i   S+CeHH++p++gk+h
  PHY93_06445|PHY93_06445  35 IEEHFKIIMETLGLDLTDDSLKDTPKRVAKMFvEEIFYGLDEKKfpKMTVVENKFK--YDHPLIETNIISNSCCEHHFVPILGKCH 118
                              799**************************************999878889999999..**************************** PP

                              EEEE-TTEEE-HHHHHHHHHHHHSSEE-HHHHHHHHHHHHHHHH--SEEEEEEEEEEHHHHSSTT--TT-EEEEEEEEEHHHH-HH CS
          GTP_cyclohydroI  84 vaYiPkkkviGlSklaRivdvvarrlqvQErlteqiadaleevlkpkgvavvieaehlCmtmrgvkkkesktvtsalrGefkedaa 169
                              vaY P +kviGlSkl+Rivd+++rr+qvQErlt qi +al ++l++++vavv+++ h C+++rg+k+ +s t ts+l+G f ed+ 
  PHY93_06445|PHY93_06445 119 VAYRPGEKVIGLSKLNRIVDYFSRRPQVQERLTIQIHEALCHILDTRDVAVVLDGMHSCVKTRGIKDVSSMTRTSKLSGIFAEDSM 204
                              ************************************************************************************** PP

                              HHHHHHHHH CS
          GTP_cyclohydroI 170 lreefleli 178
                               r+ef++ i
  PHY93_06445|PHY93_06445 205 FRQEFMQAI 213
                              ******986 PP

>> QueF  QueF-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.0      0.36   3.2e+03      40      63 ..      67      90 ..      61     104 .. 0.80
   2 ?   13.6   0.0   6.3e-06     0.057       4      58 ..     115     169 ..     112     192 .. 0.93

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 0.36
                     QueF 40 vnrilddlvealkPkwlevvgdfn 63
                             v++i+  l e+  Pk+  v+ +f+
  PHY93_06445|PHY93_06445 67 VEEIFYGLDEKKFPKMTVVENKFK 90
                             678888888888888888888875 PP

  == domain 2  score: 13.6 bits;  conditional E-value: 6.3e-06
                     QueF   4 atlvirYvpdkkvvelkslklYlisfrnrgifhEevvnrilddlvealkPkwlev 58 
                              ++ ++ Y p +kv+ l  l + +  f +r + +E  + +i++ l++ l+ + + v
  PHY93_06445|PHY93_06445 115 GKCHVAYRPGEKVIGLSKLNRIVDYFSRRPQVQERLTIQIHEALCHILDTRDVAV 169
                              67899*****************************************999887777 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (219 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       388  (0.0216409); expected 358.6 (0.02)
Passed bias filter:                      323  (0.0180155); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1629.04
//
Query:       PHY93_06450|PHY93_06450  [L=246]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-51  175.2   0.0    1.5e-51  174.7   0.0    1.2  1  adh_short        short chain dehydrogenase
    1.8e-36  125.9   0.0    2.2e-36  125.6   0.0    1.1  1  adh_short_C2     Enoyl-(Acyl carrier protein) reductase
    1.2e-12   48.2   0.0    1.6e-12   47.7   0.0    1.1  1  KR               KR domain
      1e-07   31.7   0.4    3.3e-07   30.0   0.0    2.0  2  Epimerase        NAD dependent epimerase/dehydratase family
    0.00042   20.3   0.0    0.00097   19.1   0.0    1.7  1  NAD_binding_10   NAD(P)H-binding
    0.00069   19.1   0.1      0.014   14.9   0.1    2.2  1  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
     0.0016   17.7   0.0     0.0041   16.3   0.0    1.6  1  Polysacc_synt_2  Polysaccharide biosynthesis protein
  ------ inclusion threshold ------
      0.013   14.6   0.0      0.026   13.6   0.0    1.5  2  RmlD_sub_bind    RmlD substrate binding domain


Domain annotation for each model (and alignments):
>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  174.7   0.0   6.6e-55   1.5e-51       2     188 ..       2     186 ..       1     193 [. 0.97

  Alignments for each domain:
  == domain 1  score: 174.7 bits;  conditional E-value: 6.6e-55
                              EEEEESTTSHHHHHHHHHHHHTT-EEEEEESCHHHHHHHHHHHHHTTSEEEEEE-TTTSHHHHHHHHHHHHHHHSSESEEEE---S CS
                adh_short   2 vvlvtGassGIGraiakelakeGakvvvvdrseekleevakelkeegakalaiqvDvtdreevealvekavkklgkldvLvnNAGi 87 
                              ++++tGa+sG+G a+a ++++ G +v++++r+ e+l+e++ ++ ++   +++i++D+++reev++++++  ++++k+dvL+nNAG+
  PHY93_06450|PHY93_06450   2 IIFITGATSGFGFAMATRFLNHGHQVIATGRRGENLAELKIKFPKN---LHTIKLDIRNREEVKKTIAHLPEDFKKIDVLINNAGL 84 
                              689****************************************987...************************************* PP

                              .S--SSGGGCSHHHHHHHHHHHTHHHHHHHHHHHHHHHHCTTEEEEEEEEGGGTSB-TTBHHHHHHHHHHHHHHHHHHHHHGGGTE CS
                adh_short  88 .tgsgpfselseeewervievNltgvflltravlpamlkqssGrIvnvsSvagkvpvagvaaYsAsKaavagltrslakelaptgi 172
                                g +++++ s ++we ++++N++g++++t+ +lp m++++ G+Ivn +S+ag+ p++g+ +Y+A+Ka+ +++t +l+ +l  t++
  PHY93_06450|PHY93_06450  85 aLGINAAQKASLDDWEVMVDTNINGILNCTHYILPGMVERNFGHIVNLGSIAGEFPYPGGNVYGATKAFAHQFTLNLKADLLGTKV 170
                              888899999***************************************************************************** PP

                              EEEEEEESSBSSHHHH CS
                adh_short 173 rvnavaPGlvdTdmak 188
                              rv+++ PG+++T++ +
  PHY93_06450|PHY93_06450 171 RVTSIEPGMCQTEFSE 186
                              ************9876 PP

>> adh_short_C2  Enoyl-(Acyl carrier protein) reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  125.6   0.0   9.6e-40   2.2e-36       1     217 [.       7     221 ..       7     235 .. 0.91

  Alignments for each domain:
  == domain 1  score: 125.6 bits;  conditional E-value: 9.6e-40
                              TTTTSHHHHHHHHHHHTT-EEEEEESSGGHHHHHHHHHHHTTSEE..EE--TTSHHHHHHHHHHHHHHHSSEEEEEE-----EGCS CS
             adh_short_C2   1 GaasgIGraiAkalaeeGaevvltdlneeakkrveelaeelgaev..lecDVtdeeqvealveevvekfgklDilvnnagiapklk 84 
                              Ga sg G+a+A ++ ++G +v++t ++ e+   ++el+ ++++++  +++D++++e+v+++++++ e+f+k+D+l+nnag a    
  PHY93_06450|PHY93_06450   7 GATSGFGFAMATRFLNHGHQVIATGRRGEN---LAELKIKFPKNLhtIKLDIRNREEVKKTIAHLPEDFKKIDVLINNAGLALG-I 88 
                              999*********************999998...9********99557************************************9.8 PP

                              S-GGGH-HHHHHHHHHHHTHHHHHHHHHHHH.HCTSC.CEEEEEEEGGGTSBSTTTTHHHHHHHHHHHHHHHHHHHHGGGTEEEEE CS
             adh_short_C2  85 gpfletsreefdraldvnlyslfllakaalp.lmkeg.gsivnlssvgaervvpnynaygaaKaalealtrylAvelgpkgiRvNa 168
                              + + ++s ++++ ++d+n+++++++++++lp +++++ g ivnl s+++e   p+ n+yga+Ka  +++t +l ++l   ++Rv +
  PHY93_06450|PHY93_06450  89 NAAQKASLDDWEVMVDTNINGILNCTHYILPgMVERNfGHIVNLGSIAGEFPYPGGNVYGATKAFAHQFTLNLKADLLGTKVRVTS 174
                              88899**************************7666779************************************************ PP

                              EEE--BHCTGGGGSTTHHHHHHHHHHHSTTSS-B-HHHHHHHHHHHCSG CS
             adh_short_C2 169 vspgpikTlaasgikgfdelleelearaplgrlgtpeevaeaalfLasd 217
                              + pg+ +T+ ++    f+  +e++++ +    + t++++ae++ + +s 
  PHY93_06450|PHY93_06450 175 IEPGMCQTEFSEVR--FRGDKEKADSVYKGMTALTADDIAETIDWVISR 221
                              ********997644..555556666666666678999999999887775 PP

>> KR  KR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.7   0.0     7e-16   1.6e-12       4     162 ..       4     160 ..       2     181 .. 0.88

  Alignments for each domain:
  == domain 1  score: 47.7 bits;  conditional E-value: 7e-16
                              EEETTTSHHHHHHHHHHHHHHS-EEEEE-SS..--HHHHHHHHHHHHT.T-EEEE----TT-HHHHHHHHHHHHHHSS---EEEE- CS
                       KR   4 litGGlGgLGlelarwlaekgarhlvllsRsaaadedskaliaeleal.gaevevvaaDvsdkdavealleeikaeeppikGviha 88 
                              +itG++ g+G ++a+  +++g + ++ ++R++       +++ael+ +   + +++++D+ ++++v+++++++ +++++i   i+ 
  PHY93_06450|PHY93_06450   4 FITGATSGFGFAMATRFLNHGHQ-VIATGRRG-------ENLAELKIKfPKNLHTIKLDIRNREEVKKTIAHLPEDFKKIDVLINN 81 
                              79*******************75.7789***3.......4677777665789********************************** PP

                              ---.-----TTT--HHHHHHHHTTTTHHHHHHHHHTTT....S--SEEEEEEEHHHHH--TT-HHHHHHHHHHHHHHHH CS
                       KR  89 Agv.lrdklleemtaedleqvlapKvkGawnLhelled....esldffvlfSSiagllgsagqanYaaaNaflDalaey 162
                              Ag+ l  ++ ++ + +d+e ++   ++G+ n  +++ +    ++  ++v + Siag +  +g   Y a+ af +++   
  PHY93_06450|PHY93_06450  82 AGLaLGINAAQKASLDDWEVMVDTNINGILNCTHYILPgmveRNFGHIVNLGSIAGEFPYPGGNVYGATKAFAHQFTLN 160
                              *96367999**********************999888778889999**************************9998755 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.0   0.0   1.5e-10   3.3e-07       1     158 [.       3     163 ..       3     178 .. 0.74
   2 ?   -2.7   0.1       1.5   3.3e+03     215     239 ..     208     226 ..     205     229 .. 0.76

  Alignments for each domain:
  == domain 1  score: 30.0 bits;  conditional E-value: 1.5e-10
                              EEEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHC.....EEEE--TT-HHHHHHHHHH....H.T-SEEEE--S.-- CS
                Epimerase   1 ilVtGatGfiGsalvkallekgyevigldrlssasntarledl.....elveldltdrsalerlfke....e.qpdavihlAa.vg 75 
                              i++tGat   G a++ ++l++g++vi+  r+  ++n a+l+ +     + ++ld+++r+++++ ++     + ++d+ i+ A+   
  PHY93_06450|PHY93_06450   3 IFITGATSGFGFAMATRFLNHGHQVIATGRR--GENLAELKIKfpknlHTIKLDIRNREEVKKTIAHlpedFkKIDVLINNAGlAL 86 
                              79*****************************..555555555578999***********888877532222569******999888 PP

                              -HHHHHHSHHH....HHHHHTHHHHHHHHHHH....HHTCTEEEEEEEGGGGTSCSSSSBSTCSTTS----SSHHHHHHHHHHHHH CS
                Epimerase  76 gvaassedpad....fieknlqgtlnlleaar....kagvkrllflsSsevYGkdaeqpkeettltgplkpnspYaaaKlageklv 153
                              g++a  +   d    ++++n++g ln  +++     +++   +++l+S  + G         +    p++  + Y+a+K+ +++ +
  PHY93_06450|PHY93_06450  87 GINAAQKASLDdwevMVDTNINGILNCTHYILpgmvERNFGHIVNLGS--IAG---------EF---PYPGGNVYGATKAFAHQFT 158
                              877655555541111667899998888888886666777779999999..555.........24...5666777777777777777 PP

                              HHHHH CS
                Epimerase 154 eayaa 158
                               +++a
  PHY93_06450|PHY93_06450 159 LNLKA 163
                              76665 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 1.5
                              HHHHHHHHHHHHHHHTT-STTEEEE CS
                Epimerase 215 veDvaeaillvlehvdagdkgeiyn 239
                              ++D+ae i +v+ +++      ++n
  PHY93_06450|PHY93_06450 208 ADDIAETIDWVISRPA------HIN 226
                              7999999999999943......444 PP

>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   4.3e-07   0.00097       1      69 [.       7      87 ..       7     222 .. 0.63

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 4.3e-07
                             TTTSHHHHHHHHHHHHC-T-EEEEEETTHHHCHHHH..CTTTCEEEE--TT-CCHHHHHHT.......T-SEEEES-....- CS
           NAD_binding_10  1 GAtGkvGrllvkellargghevtalvRnpeklaele..aeeglevvegdvtdvedlaealk.......gadaVvsal....g 69
                             GAt + G + +++ l++ gh+v a  R+ e lael+    ++l+++++d+ + e+++++++        +d+ + ++    g
  PHY93_06450|PHY93_06450  7 GATSGFGFAMATRFLNH-GHQVIATGRRGENLAELKikFPKNLHTIKLDIRNREEVKKTIAhlpedfkKIDVLINNAglalG 87
                             9****************.5**************98743449*****************998666655566777666645441 PP

>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.1   6.1e-06     0.014       1     166 [.       4     160 ..       4     173 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 6.1e-06
                              EEETTTSHHHHHHHHHHHHCT-CCEEEEEEESS-TTHHHHHCTTT...TTGCCEEEEE--TT-HHHHHHHHHHH.....T-SEEEE CS
            GDP_Man_Dehyd   1 LiTGiaGfiGsylaelLlekgyevhgivrrsssfntgriehlakdpkeeleenlklhkgDltDssslerllaev.....qpdevyn 81 
                              +iTG +   G  +a ++l+ g++v+ + rr ++     +++l+     +  +nl+ +k D+++++++++ +a+      ++d  +n
  PHY93_06450|PHY93_06450   4 FITGATSGFGFAMATRFLNHGHQVIATGRRGEN-----LAELKI----KFPKNLHTIKLDIRNREEVKKTIAHLpedfkKIDVLIN 80 
                              599999888***************999888765.....445542....356799******************98777778999999 PP

                              .....--S---HHHHTTSHHHHHHHHTHHHHHHHHHHHHCT..TTSEEEEEEEGGGG-S-SSSS.B-TTS-----SHHHHHHHHHH CS
            GDP_Man_Dehyd  82 .....LAAqshVdvsfekPeytaevnvlGtlrLLeairalglekkvrfyqaStsEvYGkvqevp.qtEttpfyPrsPYaaaKlyad 161
                                   L+   + + s+++ e ++++n+ G l+    i    +e             +G+  +   +  + p+   + Y+a+K++a+
  PHY93_06450|PHY93_06450  81 naglaLGINAAQKASLDDWEVMVDTNINGILNCTHYILPGMVE-----------RNFGHIVNLGsIAGEFPYPGGNVYGATKAFAH 155
                              4554445557788999999999999999999876666432222...........23555544332556666666666666666666 PP

                              HHHHH CS
            GDP_Man_Dehyd 162 wivvn 166
                              +++ n
  PHY93_06450|PHY93_06450 156 QFTLN 160
                              66655 PP

>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0   1.8e-06    0.0041       1     168 [.       3     189 ..       3     191 .. 0.63

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 1.8e-06
                              EEEETTTSHHHHHHHHHHHHHB-SEEEEEES-HHHHHHHHHH......-TTEEEE....E--TT-HHHHHHHTT.......T-SEE CS
          Polysacc_synt_2   1 vlvtGagGsiGselvrqilkkkpkkiillerdElklyeiekeleeelkkkklkveivpvigdvrdkerlekaleel.....kvdvv 81 
                              +++tGa+  +G ++ +++l++   ++i   r   +l e++ ++ ++l++ k          d+r++e+++k++ +l     k+dv+
  PHY93_06450|PHY93_06450   3 IFITGATSGFGFAMATRFLNHGH-QVIATGRRGENLAELKIKFPKNLHTIK---------LDIRNREEVKKTIAHLpedfkKIDVL 78 
                              78*****************9875.566677777789999999755554433.........34555555555544322222255666 PP

                              EE-----.-HHHHHH....SHHHHHHHHHHHHHHHHHHH....HHTT-SEEEEEEEGGGSS--...SHHHHHHHHHHHHHHHGGG- CS
          Polysacc_synt_2  82 fhaAAlK.hVPlvee....npleaiktNvlgtenvieaa....ieagvkkvvliStDKAvnPt...nvmGatKrlaekllqalake 155
                              ++ A l   + ++++     +  +++tN+ g  n+ +      +e +  ++v + +     P    nv+GatK++a +++ +l++ 
  PHY93_06450|PHY93_06450  79 INNAGLAlGINAAQKasldDWEVMVDTNINGILNCTHYIlpgmVERNFGHIVNLGSIAGEFPYpggNVYGATKAFAHQFTLNLKAD 164
                              555544312333333111134456888888888877765111156666678887665444443334************99999988 PP

                              -SSS-............-EEEEEEE CS
          Polysacc_synt_2 156 seekk............tkfvvvRf 168
                                 +k            t+f+ vRf
  PHY93_06450|PHY93_06450 165 LLGTKvrvtsiepgmcqTEFSEVRF 189
                              7666656777777777777777777 PP

>> RmlD_sub_bind  RmlD substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   1.2e-05     0.026       1      58 [.       1      81 [.       1     102 [. 0.86
   2 ?   -3.1   0.0       1.5   3.3e+03     123     137 ..     145     159 ..     142     166 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 1.2e-05
                             EEEEEESTTSHHHHHHHHHCTTTSEEEEEE-TT..................T--TTSHHHHHHHH.....HHH--SEEEE- CS
            RmlD_sub_bind  1 mkilvtGanGqlGseLakqlaeeglevlaltre..................eldltdaeavaell.....keakpdvvvna 58
                             m i +tGa+   G ++a ++ ++g++v+a++r+                  +ld++++e+v++++     + +k dv++n 
  PHY93_06450|PHY93_06450  1 MIIFITGATSGFGFAMATRFLNHGHQVIATGRRgenlaelkikfpknlhtiKLDIRNREEVKKTIahlpeDFKKIDVLINN 81
                             6699**************************9999****************************9994444322344556655 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 1.5
                              SHHHHHHHHHHHHHH CS
            RmlD_sub_bind 123 nvYGrtKlaGEqavl 137
                              nvYG+tK+   q  l
  PHY93_06450|PHY93_06450 145 NVYGATKAFAHQFTL 159
                              899999987766655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (246 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       559  (0.0311785); expected 358.6 (0.02)
Passed bias filter:                      519  (0.0289475); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.54u 0.26s 00:00:00.80 Elapsed: 00:00:00.42
# Mc/sec: 1755.58
//
Query:       PHY93_06455|PHY93_06455  [L=335]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.4e-24   85.7   0.1    6.4e-24   85.2   0.1    1.1  1  APH       Phosphotransferase enzyme family
  ------ inclusion threshold ------
      0.014   14.8   1.3        4.9    6.5   0.0    3.1  3  Kdo       Lipopolysaccharide kinase (Kdo/WaaP) family
      0.052   12.6   0.5       0.16   11.0   0.9    1.5  2  DUF2252   Uncharacterized protein conserved in bacteria (DUF2
       0.17   11.2   2.5       0.25   10.6   0.8    2.0  2  EcKinase  Ecdysteroid kinase


Domain annotation for each model (and alignments):
>> APH  Phosphotransferase enzyme family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.2   0.1   1.4e-27   6.4e-24      10     236 ..      44     279 ..      39     283 .. 0.77

  Alignments for each domain:
  == domain 1  score: 85.2 bits;  conditional E-value: 1.4e-27
                              SCEEEEEEETT.-......-EEEEEE-TT.S-HHHHHHHHHHHHHHHHTT-B--B-CTTBS-EEETTE.......EEEEEE----E CS
                      APH  10 snrtylvttpa.g......ryvlrrnppa.raaeeirrevallrlLakagvpvPevlagdtddeeigl.......lfalieyvpgr 80 
                              +nr+y+v+ ++          + ++++p+ +++ +i++e+++l+ L + +vpv +++a+ + d++ ++       ++ ++  ++gr
  PHY93_06455|PHY93_06455  44 ENRVYEVEIESdSdnpsdhFKIIKFYRPGrWTKIQIQEEHDFLADLVEYEVPVIAPIAFPQFDGQTLFtlndpelYYTVFNKQGGR 129
                              8999999977643667765668************************************887777777799999************* PP

                              E-SSHHHHHHHHHHHHHHHHHHCCHHCH.-STTTB-SHHCHTCCHHHHHHCHHH....CCCGCCTCCHHHHHHHH...HHHHHHHH CS
                      APH  81 sllrklsaaqlpellealgeflaalhqvdpaalpladflaqdlellrqlesata....rllaselldlleeleeq...vlaalaal 159
                               +++      + e +e++g++la+lh+v    ++ + +++ +l+++ +l s       +++ +  l+   +       vl+ + +l
  PHY93_06455|PHY93_06455 130 APDE-----FTNEEIEQVGRLLARLHNV---GDMRTAPHRLRLTPDVYLKSNLDflldQKIIPSHLE---A---SfkgVLEGIYDL 201
                              ****.....99*****************...666666666677777777777332000222222222...1...122333333333 PP

                              --S...SS-EEEE-SS-SGGGEEEC..TTEEEEE---TT-EEEECCHHHHCCHHHCSCHCCCHCHHHHHHHHC..S-HHHHC CS
                      APH 160 lpg...elptvllHgDlhpgNllvdpddgrvtGviDfedaglgpplyDlavllrswtseldpeflaallraye..qeaglar 236
                                +   + + + +HgD+h+gN+l + d      +iDf+d+++gp+++D + +l   ++e  +++++ +l+ay   +++++++
  PHY93_06455|PHY93_06455 202 TKNsfnNIHFQRIHGDCHLGNILKRGD-VFH--LIDFDDMVMGPAVQDMWLML-PGRDEYVDNLRNHMLDAYStmRDFNFEE 279
                              333577899**************9944.444..9*******************.8899999******999998665566555 PP

>> Kdo  Lipopolysaccharide kinase (Kdo/WaaP) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.0     0.029   1.3e+02      52      82 ..      72     103 ..      62     111 .. 0.83
   2 ?    6.5   0.0    0.0011       4.9     115     138 ..     130     153 ..     117     158 .. 0.83
   3 ?    2.4   1.3     0.019        85     138     167 ..     212     236 ..     203     240 .. 0.85

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.029
                      Kdo  52 k.lgrtravrEfrllkrLeeagvavpkpvaag 82 
                                + + ++ +E + l  L e  v+v+ p+a+ 
  PHY93_06455|PHY93_06455  72 GrWTKIQIQEEHDFLADLVEYEVPVIAPIAFP 103
                              4477888999*******************985 PP

  == domain 2  score: 6.5 bits;  conditional E-value: 0.0011
                      Kdo 115 laeelkrallkavgrliaklhrag 138
                               ++e +++ +++vgrl a+lh++g
  PHY93_06455|PHY93_06455 130 APDEFTNEEIEQVGRLLARLHNVG 153
                              6789999**************998 PP

  == domain 3  score: 2.4 bits;  conditional E-value: 0.019
                      Kdo 138 gvnHadlyaknillqqeeeeeaeiwliDld 167
                              ++ H+d+   nil + +      + liD+d
  PHY93_06455|PHY93_06455 212 QRIHGDCHLGNILKRGDV-----FHLIDFD 236
                              667*********988886.....99***98 PP

>> DUF2252  Uncharacterized protein conserved in bacteria (DUF2252)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0      0.59   2.7e+03     337     354 ..     139     156 ..     131     168 .. 0.75
   2 ?   11.0   0.9   3.7e-05      0.16      31      83 ..     200     248 ..     198     252 .. 0.79

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 0.59
                  DUF2252 337 arllgrvlAraHarsdda 354
                               +++gr+lAr H  +d +
  PHY93_06455|PHY93_06455 139 IEQVGRLLARLHNVGDMR 156
                              467888999999877765 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 3.7e-05
                  DUF2252  31 dLaatpetglrvq.icGDaHleNFGlfaspegrlvfdiNDFDEalvgpfewDlk 83 
                              dL++   ++++ q i+GD+Hl+N       ++  vf++ DFD+ ++gp   D++
  PHY93_06455|PHY93_06455 200 DLTKNSFNNIHFQrIHGDCHLGNI-----LKRGDVFHLIDFDDMVMGPAVQDMW 248
                              555555556666559********6.....567779*************988875 PP

>> EcKinase  Ecdysteroid kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0      0.31   1.4e+03      93     113 ..      21      41 ..      12      47 .. 0.80
   2 ?   10.6   0.8   5.5e-05      0.25     218     261 ..     214     251 ..     178     272 .. 0.79

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.31
                 EcKinase  93 lvleDLkekgyknadRlkgld 113
                              lvle L   g+k+  R  +++
  PHY93_06455|PHY93_06455  21 LVLETLDHLGFKTTGRVMTMN 41 
                              89***********99977766 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 5.5e-05
                 EcKinase 218 nHGDlwvnNimfkydeegepedvilvDFQlsrygSpalDLlyfl 261
                               HGD+++ Ni+ + d         l+DF  + +g+ ++D++ +l
  PHY93_06455|PHY93_06455 214 IHGDCHLGNILKRGDV------FHLIDFDDMVMGPAVQDMWLML 251
                              5**********99984......57***************99766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (335 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       509  (0.0283898); expected 358.6 (0.02)
Passed bias filter:                      472  (0.0263261); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.40
# Mc/sec: 2483.20
//
Query:       PHY93_05430|PHY93_05430  [L=325]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.15   12.1   4.7          2    8.5   0.1    2.6  3  DUF3316   Protein of unknown function (DUF3316)


Domain annotation for each model (and alignments):
>> DUF3316  Protein of unknown function (DUF3316)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.0      0.46   8.3e+03       2      28 ..       2      33 ..       2      42 .. 0.63
   2 ?    5.0   0.5    0.0013        24      71     125 ..     184     232 ..     156     236 .. 0.84
   3 ?    8.5   0.1   0.00011         2      98     134 ..     243     279 ..     238     295 .. 0.87

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 0.46
                  DUF3316  2 killlllllllstsafAq.....iesktdsds 28
                             ki+l++ll++++   fA      ++   + +s
  PHY93_05430|PHY93_05430  2 KIILTSLLFIFAGLSFAYerefiVTDIVSDQS 33
                             57888888888888888755554444444444 PP

  == domain 2  score: 5.0 bits;  conditional E-value: 0.0013
                  DUF3316  71 rstkledgrvsvqeflqadlayteNradneieysglvnvsyglhYqfrltenLkl 125
                              + +  +d ++sv++ +q    y +   +++ +++g ++++ +   +f+   ++kl
  PHY93_05430|PHY93_05430 184 KLIDTDDYELSVENGFQ----YYHTSRKGSYQFTGNLDMTSN--SNFKSYAKFKL 232
                              567889***********....***************999887..67776666666 PP

  == domain 3  score: 8.5 bits;  conditional E-value: 0.00011
                  DUF3316  98 dneieysglvnvsyglhYqfrltenLkllaGglidln 134
                              +n++ey+  +n +++l+Y + +++  +l++G++id+n
  PHY93_05430|PHY93_05430 243 SNSEEYTRDLNLELQLFYGYIFSSWNQLIFGPKIDVN 279
                              6999*******************************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (325 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       511  (0.0285013); expected 358.6 (0.02)
Passed bias filter:                      353  (0.0196888); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 2439.93
//
Query:       PHY93_06460|PHY93_06460  [L=257]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    2.4e-21   76.0   0.0    3.7e-21   75.4   0.0    1.3  1  AdoMet_dc  S-adenosylmethionine decarboxylase


Domain annotation for each model (and alignments):
>> AdoMet_dc  S-adenosylmethionine decarboxylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   75.4   0.0   2.1e-25   3.7e-21      15     106 .]      51     169 ..      42     169 .. 0.98

  Alignments for each domain:
  == domain 1  score: 75.4 bits;  conditional E-value: 2.1e-25
                              TSHHHHHHHHHHHHHHCT-EEEEEEEEE-SSS-EEEEEEETT...................EEEEEEEEGGGTE........EEEE CS
                AdoMet_dc  15 edaelleqilteaaeaigatvlsvafhkfepeGvsvvvliae...................ShlsiHtwpetgy........aaiD 73 
                              ++a ++++i ++++e+i+a++l v+ ++++p G+s++vl+++                   Sh++ Ht+p+ +         +++D
  PHY93_06460|PHY93_06460  51 YNATRIIDISKKIVEIIEANILAVSAQDYDPVGASAMVLMSDikgggepipsvqvnahldkSHITAHTYPDASDpdgicsfrVDFD 136
                              899**********************************************************************99*********** PP

                              EEEESTHHHHHHHHHHHHHHT-SEEEEEEEEEE CS
                AdoMet_dc  74 vftcgeispekaleylieafkadrvtvdelkRG 106
                              ++tcgei p++a++yl eaf+ d v vd+++RG
  PHY93_06460|PHY93_06460 137 IATCGEIIPLNAINYLFEAFECDVVYVDYVVRG 169
                              ********************************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (257 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       698  (0.0389313); expected 358.6 (0.02)
Passed bias filter:                      416  (0.0232026); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.20s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 1937.22
//
Query:       PHY93_06465|PHY93_06465  [L=286]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.2e-53  179.9   0.1    4.2e-53  179.5   0.1    1.1  1  Spermine_synth   Spermine/spermidine synthase domain
    8.7e-12   44.8   0.2    2.2e-11   43.5   0.2    1.7  1  Spermine_synt_N  Spermidine synthase tetramerisation domain
      0.003   17.4   0.0     0.0056   16.5   0.0    1.4  1  Methyltransf_31  Methyltransferase domain
  ------ inclusion threshold ------
      0.014   16.1   0.0      0.024   15.4   0.0    1.4  1  Methyltransf_25  Methyltransferase domain
      0.042   13.4   0.0      0.071   12.7   0.0    1.3  1  MTS              Methyltransferase small domain
       0.17   11.8   0.0       0.29   11.0   0.0    1.4  1  Methyltransf_30  S-adenosyl-L-methionine-dependent methyltran


Domain annotation for each model (and alignments):
>> Spermine_synth  Spermine/spermidine synthase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  179.5   0.1   1.4e-56   4.2e-53       1     181 [.      65     243 ..      65     252 .. 0.98

  Alignments for each domain:
  == domain 1  score: 179.5 bits;  conditional E-value: 1.4e-56
                              THHHHHHHHHHHHCCSSST-EEEEESSTTSHHHHHHTTSTT-SEEEEEES-HHHHHHHHHHSHHHHTTCGGCTTEEEEESTCHHHH CS
           Spermine_synth   1 efaykemiahvplmlhknpkevLiiGGgDGgvlrevvkhntvekitlvdiDqkvidfskkflpslaisafndarvklvlgdgfkfl 86 
                              ef+y+e ++h+p m h++ k+vLiiGGgDGg++re vkh+ +e+i+lv+iD  vi++sk+f+p+   + ++d+rv+++ +dg++++
  PHY93_06465|PHY93_06465  65 EFVYHEVMGHIPTMIHPKIKNVLIIGGGDGGIVREFVKHPEIERIDLVEIDVRVIEVSKQFFPDCTSG-LSDKRVNVLTEDGVEYI 149
                              799*****************************************************************.***************** PP

                              CTCSS-EEEEEEECCSTTCSSCGCSSHHHHHHHHHTEEEEEEEEEEEEETTTCHHHHHHHHHHHHTTSSCEEEEEEEETTTSCSCE CS
           Spermine_synth  87 kayekkfdvvivdsldpvgpaenlFskeffdllkkvlkedGviilqaekpelekelvinvdksgkqvfalqvepsavlvPtylsgm 172
                              k+ ++ fdv+i ds+dp+  a+ lF++ef++++ ++l+e+G++++q+e+p++ ++ +++   ++++v + +v+ ++ ++ +y++ +
  PHY93_06465|PHY93_06465 150 KKHKNFFDVIIIDSTDPEDFAAGLFTQEFYKHVSDALTENGIMMAQTENPLYDEYGIKSFYDNLRNVYP-VVKSFTGPMLIYPGVF 234
                              *******************************************************************99.**************** PP

                              EEEEEEESS CS
           Spermine_synth 173 infvveskk 181
                              ++f+ +sk 
  PHY93_06465|PHY93_06465 235 WTFAYASKG 243
                              ****99986 PP

>> Spermine_synt_N  Spermidine synthase tetramerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.5   0.2   7.2e-15   2.2e-11       2      50 ..      10      59 ..       9      62 .. 0.95

  Alignments for each domain:
  == domain 1  score: 43.5 bits;  conditional E-value: 7.2e-15
                             EEEEEEE.TTEEEEEEEEEEEEEEEESSSEEEEEEETTTEEEEEETTEEE CS
          Spermine_synt_N  2 Wfteisd.pglalelkVekvLyeekSeyQdieifesktfGkvLvLDgvvq 50
                             W++e++  +++a ++k+++vL+ e+SeyQ+i +++++  G+ L LDg+ +
  PHY93_06465|PHY93_06465 10 WYSERYFhQNVATSFKIKSVLHSEQSEYQKIDVLDTYGVGRLLLLDGKTM 59
                             999999899**************************************876 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   1.9e-06    0.0056       6     113 ..      85     198 ..      81     235 .. 0.82

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 1.9e-06
          Methyltransf_31   6 rvlDlGCGtGeltfelaeelgpkae.vvGiDiseeaielAre...naqklgld.nveFeqgdiee.leklledekfDlilsnevl. 84 
                              +vl +G G G ++ e+ +   p++e + +++i+ ++ie++++    + +  +d +v++  +d  e ++k+  ++ fD+i+ +++  
  PHY93_06465|PHY93_06465  85 NVLIIGGGDGGIVREFVK--HPEIErIDLVEIDVRVIEVSKQffpDCTSGLSDkRVNVLTEDGVEyIKKH--KNFFDVIIIDSTDp 166
                              566688899999999994..3444448899999*********998666555557********99999965..799*******8888 PP

          Methyltransf_31  85 ...naladpdkileeiervlkpggilliedpr 113
                                 +a  + +++++ ++++l+++gi+++++ +
  PHY93_06465|PHY93_06465 167 edfAAGLFTQEFYKHVSDALTENGIMMAQTEN 198
                              8889999********************99988 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.4   0.0   7.9e-06     0.024       1      71 [.      86     162 ..      86     190 .. 0.81

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 7.9e-06
                              EEEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHH..TTT...TEEEEESBC.CGBSSSTTTEEEEEEE CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrlgkakvtgvDiseemleaareraee..egl...nvefvqgda.edlpfedgsfDlvvss 71 
                              vL +G G G +++++ k+ + +++  v+i+ + +e  ++ + +  +gl   +v++++ d  e ++ +++ fD++++ 
  PHY93_06465|PHY93_06465  86 VLIIGGGDGGIVREFVKHPEIERIDLVEIDVRVIEVSKQFFPDctSGLsdkRVNVLTEDGvEYIKKHKNFFDVIIID 162
                              789***************6699****************9998877555778*****9999566999********993 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   2.4e-05     0.071      31     154 ..      82     211 ..      72     220 .. 0.74

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 2.4e-05
                              TCSEEEEET-TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHTTGC.....EEEEE-STTTTSTTS-..EEEEEE---STT CS
                      MTS  31 lsgkvlDlGcGaGvlgaalakespeaevtlvdvdarAlesakenleankle.....vevvasdvleeveekk..fdlivsNPPfha 109
                              + ++vl +G G G +  ++ k+ +  +++lv++d r +e++k+ + +         v+v+++d++e ++++k  fd+i+      +
  PHY93_06465|PHY93_06465  82 KIKNVLIIGGGDGGIVREFVKHPEIERIDLVEIDVRVIEVSKQFFPDCTSGlsdkrVNVLTEDGVEYIKKHKnfFDVIIIDSTDPE 167
                              5568999*********99999666666***************988765443346789********9999544449***98754444 PP

                              TCHCHHHHHHHHHHHHHHHEEEEEEEEEEEETTSCHHHHHHHHHS CS
                      MTS 110 gkatelavaeeliaeAkeaLkegGeLliVanrklgyeslleelfg 154
                              + a     ++e+ ++  +aL+e+G ++  +++ l  e  ++  + 
  PHY93_06465|PHY93_06465 168 DFA-AGLFTQEFYKHVSDALTENGIMMAQTENPLYDEYGIKSFYD 211
                              444.45578999999999999999887666665555555555555 PP

>> Methyltransf_30  S-adenosyl-L-methionine-dependent methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   9.8e-05      0.29      30      87 ..     135     193 ..     113     197 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 9.8e-05
                              TEEEEEEES-HHHHHHHC-T-EEEEEE-SS-TTT.SGGGCSHHHHHHHHHHEEEEEEEE CS
          Methyltransf_30  30 evtlklligdarealkeldekadawFlDgFsPak.nPelwseellkelarllkkkgtla 87 
                              + ++++l +d  e +k+ ++ +d++  D   P+  +  l+++e++k+++++l ++g ++
  PHY93_06465|PHY93_06465 135 DKRVNVLTEDGVEYIKKHKNFFDVIIIDSTDPEDfAAGLFTQEFYKHVSDALTENGIMM 193
                              5678999*************************974678*****************9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (286 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       474  (0.0264376); expected 358.6 (0.02)
Passed bias filter:                      379  (0.0211389); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.51u 0.20s 00:00:00.71 Elapsed: 00:00:00.39
# Mc/sec: 2220.36
//
Query:       PHY93_06470|PHY93_06470  [L=178]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.7e-27   94.9   5.8    1.8e-26   92.2   5.8    2.0  1  DUF1003        Protein of unknown function (DUF1003)
  ------ inclusion threshold ------
      0.023   13.8   0.3      0.043   12.9   0.1    1.3  1  ICE2           ICE2
      0.043   12.9   4.4      0.065   12.3   4.4    1.2  1  YdfA_immunity  SigmaW regulon antibacterial


Domain annotation for each model (and alignments):
>> DUF1003  Protein of unknown function (DUF1003)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   92.2   5.8     3e-30   1.8e-26       1      94 [.      50     143 ..      50     177 .. 0.86

  Alignments for each domain:
  == domain 1  score: 92.2 bits;  conditional E-value: 3e-30
                  DUF1003   1 mGsakFlvlftaivilWialnllvlpglkpfDpypFillnlvlslqaalaaplIllsqnRqadrdrvraeed...rqvnlkaeaei 83 
                              +G+  Fl+ +t++v++Wi++n+l   g  +fD ypFillnl++slqaa+aaplIll+q+Rqadrd+v+ae d   r+  ++a +e 
  PHY93_06470|PHY93_06470  50 FGTPLFLIAQTLLVAIWILINVL---GFAKFDIYPFILLNLAFSLQAAYAAPLILLAQTRQADRDKVHAEADaqhREAIAQASEER 132
                              69*******************88...89********************************************44444444556666 PP

                  DUF1003  84 ekLtrevaalr 94 
                              e+L++  +a+ 
  PHY93_06470|PHY93_06470 133 EMLAATQTAQL 143
                              66665544444 PP

>> ICE2  ICE2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.1   7.2e-06     0.043     272     336 ..      57     120 ..      39     148 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 7.2e-06
                     ICE2 272 lssslpsslkeileflkaaietitpsvlisLayRilvfYaatrIiPalresgaralsqpeledse 336
                              ++++l  ++  ++++l  a   i p +l++La+ +   Yaa  I+ a  ++++r + ++e +  +
  PHY93_06470|PHY93_06470  57 IAQTLLVAIWILINVLGFAKFDIYPFILLNLAFSLQAAYAAPLILLAQTRQADRDKVHAEADA-Q 120
                              566777788899999********************************9999988777755333.2 PP

>> YdfA_immunity  SigmaW regulon antibacterial
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   4.4   1.1e-05     0.065     229     271 ..     104     145 ..      99     166 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 1.1e-05
            YdfA_immunity 229 qadqaeadkkiaqakaeerramavak.eqemkakvqemrakvve 271
                              q+ qa+ dk  a+a a++r a+a a+ e+em a +q ++  +ve
  PHY93_06470|PHY93_06470 104 QTRQADRDKVHAEADAQHREAIAQASeEREMLAATQTAQ--LVE 145
                              789********************9972579999988755..443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (178 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1604  (0.089464); expected 358.6 (0.02)
Passed bias filter:                      650  (0.0362541); expected 358.6 (0.02)
Passed Vit filter:                        73  (0.00407162); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.38
# Mc/sec: 1422.55
//
Query:       PHY93_06475|PHY93_06475  [L=710]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.5e-23   83.4   0.1    4.5e-23   81.9   0.1    1.9  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    1.4e-20   73.5   0.3      1e-08   35.3   0.0    3.7  3  PAS_9        PAS domain
    6.9e-18   64.7   0.0    1.9e-14   53.7   0.0    2.6  2  PAS_3        PAS fold
    1.1e-14   54.4   0.0    0.00024   21.1   0.0    4.2  3  PAS          PAS fold
    2.1e-11   43.6   0.0    7.8e-06   25.8   0.0    3.3  3  PAS_8        PAS domain
      9e-11   41.7   0.3    2.9e-10   40.0   0.1    2.1  2  HisKA        His Kinase A (phospho-acceptor) domain
    1.3e-09   38.2   0.0      0.039   14.2   0.0    4.1  3  PAS_4        PAS fold
    8.7e-08   32.3   0.0    1.4e-05   25.3   0.0    3.5  3  PAS_7        PAS fold
  ------ inclusion threshold ------
      0.017   15.7   0.0        7.8    7.1   0.0    3.3  3  PAS_10       PAS domain
      0.077   12.5   0.2       0.19   11.2   0.2    1.6  1  EAL          EAL domain
       0.13   12.2   0.0       0.31   11.0   0.0    1.6  1  HATPase_c_2  Histidine kinase-like ATPase domain


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   81.9   0.1   2.8e-26   4.5e-23       2     111 ..     602     709 ..     601     710 .] 0.93

  Alignments for each domain:
  == domain 1  score: 81.9 bits;  conditional E-value: 2.8e-26
                              HHHHHHHHHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHHHHH CS
                HATPase_c   2 dekrLrqiisnlvdNavkfatkageieveikaseddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkklvel 87 
                              d  r+ q+isnl++Na+k+ ++++ i ++++ s ++  i ++D GiGi+ked++klf++f +  ++    +g GlGl i++++++ 
  PHY93_06475|PHY93_06475 602 DRARIDQVISNLLTNAMKY-GEGKPIYITVSLSGNQAFIIIRDFGIGISKEDQPKLFGRFER-TASVKHFEGLGLGLFISHNIISA 685
                              67899**************.9999999999987899999***********************.6666667************8888 PP

                              TTTEEEEEEETTTEEEEEEEEESS CS
                HATPase_c  88 mgGeiwvesepgrGttftftlple 111
                              +gG+i++es+ g+G tft++lp +
  PHY93_06475|PHY93_06475 686 LGGNISFESNAGEGATFTVELPVT 709
                              *********************987 PP

>> PAS_9  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.6   0.0   2.5e-07   0.00041       3     103 ..      92     200 ..      90     201 .. 0.65
   2 !   35.3   0.0   6.4e-12     1e-08       2     104 .]     224     328 ..     223     328 .. 0.88
   3 !   13.6   0.1   3.8e-05     0.062       2     104 .]     352     455 ..     351     455 .. 0.84

  Alignments for each domain:
  == domain 1  score: 20.6 bits;  conditional E-value: 2.5e-07
                    PAS_9   3 gili.dnpdgrilyaNeaalrllGyspee..........vlgksitdlf.......vtdpeanerlraaleqgrkkerevevvlir 70 
                              g+++   p+g+i   N+a +++l  + e+          +                  +p++    r ++ +      ++e+++ r
  PHY93_06475|PHY93_06475  92 GVVLaAEPSGKIFISNKASNEILKITTEAaltlddyissI--------KgihpdgsLYKPSEWPLARSLFSEEF--ISNEEIEILR 167
                              5665566677666777777777664433323222222223........23333332244444444444444445..7899****** PP

                    PAS_9  71 kngetfwvlltaspvkdddgelvgiivilrDit 103
                              k+g+  + l + +p++d++++l+g i+ + Dit
  PHY93_06475|PHY93_06475 168 KDGTHCLMLTNSAPLFDTQKKLIGGIASFFDIT 200
                              ********************************9 PP

  == domain 2  score: 35.3 bits;  conditional E-value: 6.4e-12
                    PAS_9   2 dgili.dnpdgrilyaNeaalrllGyspeevlgks..itdlfvtdpeanerlraaleqgrk.kerevevvlirkngetfwvlltas 83 
                              dgi+   ++d r ++++++a+rllGy +e+ l  +  + d + + ++++++++ +l q +k  +++ e+ +++  g+t+wv+  ++
  PHY93_06475|PHY93_06475 224 DGIVWeATSDLRFTFVSKQAERLLGYPKEAWLDSPtfWADHI-HIEDRDSTIKTCLAQSKKmLPHDLEYRMYTAAGGTIWVRDIVT 308
                              56664467999*******************999998777777.9************************************996666 PP

                    PAS_9  84 pvkdddgelvgiivilrDite 104
                               v  ++++++g+ +i++Dit+
  PHY93_06475|PHY93_06475 309 VVT-KNNKFIGLRGIMVDITA 328
                              663.46789**********95 PP

  == domain 3  score: 13.6 bits;  conditional E-value: 3.8e-05
                    PAS_9   2 dgilidnpdgrilyaNeaalrllGyspeevlgksitdlf........vtdpeanerlraaleqgrkkerevevvlirkngetfwvl 79 
                              dg ++++ +g+i ++N+++ +l  + pe +l k+ + l         +++++  e++++++e+ +    e + v+  k+g+++   
  PHY93_06475|PHY93_06475 352 DGLMVVDLNGNIMRYNQKFVKLW-QIPEKILDKKDDSLTiqyilgqiKNPDQFLEKIKEIYESPE---MESTDVIDFKDGKRIE-- 431
                              6888999***************6.45999***997777777777888899999999999999988...9***********8888.. PP

                    PAS_9  80 ltaspvkdddgelvgiivilrDite 104
                               ++s  ++ dg+ vg ++ +rD+te
  PHY93_06475|PHY93_06475 432 -RFSQPQSIDGKSVGRVWSFRDVTE 455
                              .444444559**************8 PP

>> PAS_3  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.4   0.0    0.0016       2.6      42      83 ..     148     190 ..     104     195 .. 0.72
   2 !   53.7   0.0   1.2e-17   1.9e-14       2      88 ..     237     322 ..     236     323 .. 0.93

  Alignments for each domain:
  == domain 1  score: 8.4 bits;  conditional E-value: 0.0016
                    PAS_3  42 lqealkkgepy.egeyRirrkdGeyrwveararvirdengkpv 83 
                              l+++l + e + ++e+ i+rkdG+++ + +   +++d + k +
  PHY93_06475|PHY93_06475 148 LARSLFSEEFIsNEEIEILRKDGTHCLMLTNSAPLFDTQKKLI 190
                              346777777675778********************99999876 PP

  == domain 2  score: 53.7 bits;  conditional E-value: 1.2e-17
                    PAS_3   2 iyvserveeilGyspeellgkveswldlvhpeDrervrealqealkkgepyegeyRirrkdGeyrwveararvirdengkpvrvig 87 
                              ++vs++ e++lGy +e  l+++ +w+d++h eDr+ + ++  +  kk  p + eyR+ ++ G+++wv++ ++v+  +n+k + + g
  PHY93_06475|PHY93_06475 237 TFVSKQAERLLGYPKEAWLDSPTFWADHIHIEDRDSTIKTCLAQSKKMLPHDLEYRMYTAAGGTIWVRDIVTVV-TKNNKFIGLRG 321
                              699******************************9999888887777888*************************.9**99999988 PP

                    PAS_3  88 v 88 
                              +
  PHY93_06475|PHY93_06475 322 I 322
                              7 PP

>> PAS  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.1   0.0   0.00037      0.61       3     102 ..      82     188 ..      81     199 .. 0.62
   2 !   21.1   0.0   1.5e-07   0.00024       3     100 ..     216     314 ..     214     326 .. 0.82
   3 !   18.0   0.0   1.4e-06    0.0022       3      38 ..     343     378 ..     341     430 .. 0.91

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00037
                              HHHHHHHSSSEEEEEE.TTSBEEEECHHHHHHHSSTHHHCT.TSBGGGGBSTTHHH.HHHHHHHH....HHHHTT-ECCCCEEEEC CS
                      PAS   3 lraileslpdpifvvD.edgrilyvNaaaeellGlsreevl.gkslldliheedda.elaelleq....lleqgeesrageisfkl 81 
                              l+ail+++p+++++    +g+i+  N+a +e+l ++ e +l    ++ +i   +++  l++  e+     l + e  +++ei + +
  PHY93_06475|PHY93_06475  82 LEAILQQIPSGVVLAAePSGKIFISNKASNEILKITTEAALtLDDYISSIKGIHPDgSLYKPSEWplarSLFSEEFISNEEIEILR 167
                              689*************9******************996554044444444444444533333333000033334444444444444 PP

                              TTSSEEEEEEEEEEEEETTEE CS
                      PAS  82 rdgrpihlevraspvrdagge 102
                              +dg+   ++++ +p++d +++
  PHY93_06475|PHY93_06475 168 KDGTHCLMLTNSAPLFDTQKK 188
                              666666666666666666655 PP

  == domain 2  score: 21.1 bits;  conditional E-value: 1.5e-07
                              HHHHHHHSSSEEEEEETTSBEEEECHHHHHHHSSTHHHCTTSBGG..GGBSTTHHHHHHHHHHHHHHHTT-ECCCCEEEEC..TTS CS
                      PAS   3 lraileslpdpifvvDedgrilyvNaaaeellGlsreevlgksll..dliheeddaelaelleqlleqgeesrageisfkl..rdg 84 
                              ++ +l++++  ++    d r+++v++ ae+llG++ e +l ++ +  d ih ed   + + ++++l+q+++    +   +     g
  PHY93_06475|PHY93_06475 216 YHILLDTIDGIVWEATSDLRFTFVSKQAERLLGYPKEAWLDSPTFwaDHIHIED---RDSTIKTCLAQSKKMLPHDLEYRMytAAG 298
                              556899*************************************97558899988...89999999999998888888777788888 PP

                              SEEEEEEEEEEEEETT CS
                      PAS  85 rpihlevraspvrdag 100
                              ++i+++  ++ v+   
  PHY93_06475|PHY93_06475 299 GTIWVRDIVTVVTKNN 314
                              8888888887777764 PP

  == domain 3  score: 18.0 bits;  conditional E-value: 1.4e-06
                              HHHHHHHSSSEEEEEETTSBEEEECHHHHHHHSSTH CS
                      PAS   3 lraileslpdpifvvDedgrilyvNaaaeellGlsr 38 
                              l ai+es++d+ +vvD +g+i+  N+++ +l ++++
  PHY93_06475|PHY93_06475 343 LNAIIESTADGLMVVDLNGNIMRYNQKFVKLWQIPE 378
                              689***************************988876 PP

>> PAS_8  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.0   0.0      0.57   9.2e+02       3      17 ..      82      96 ..      80     126 .. 0.81
   2 !   13.0   0.0   4.8e-05     0.078       3      39 ..     216     253 ..     214     277 .. 0.70
   3 !   25.8   0.0   4.8e-09   7.8e-06       3      46 ..     343     382 ..     341     409 .. 0.74

  Alignments for each domain:
  == domain 1  score: 0.0 bits;  conditional E-value: 0.57
                    PAS_8  3 lralfesspdgiavv 17
                             l+a++ ++p g++++
  PHY93_06475|PHY93_06475 82 LEAILQQIPSGVVLA 96
                             799*********985 PP

  == domain 2  score: 13.0 bits;  conditional E-value: 4.8e-05
                    PAS_8   3 lralfesspdgiavvdlgdrivdvNqaalellGys.ad 39 
                              +  l+++++  ++ +  + r+++v ++a++llGy+ + 
  PHY93_06475|PHY93_06475 216 YHILLDTIDGIVWEATSDLRFTFVSKQAERLLGYPkEA 253
                              55566777777776555569**************9433 PP

  == domain 3  score: 25.8 bits;  conditional E-value: 4.8e-09
                    PAS_8   3 lralfesspdgiavvd.lgdrivdvNqaalellGysadlkgellg 46 
                              l a++es +dg++vvd +g+ i+ +Nq++ +l+  +    ++ l+
  PHY93_06475|PHY93_06475 343 LNAIIESTADGLMVVDlNGN-IMRYNQKFVKLWQIP----EKILD 382
                              789*************7777.*************66....33332 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.0   0.1   1.8e-13   2.9e-10       2      66 ..     484     555 ..     483     556 .. 0.94
   2 ?   -3.8   0.0       8.6   1.4e+04      50      59 ..     605     614 ..     599     615 .. 0.86

  Alignments for each domain:
  == domain 1  score: 40.0 bits;  conditional E-value: 1.8e-13
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHC.........T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCHHH CS
                    HisKA   2 lgrflagvaHELrtPLsailgnaeaLkre.......gklteelkeyletiesearrldhlvedlLdlsriea 66 
                              + +f++  +HELr PL+ i+  +++Lkr+       +  +e l ++le + ++ +r + lve+lLd sri a
  PHY93_06475|PHY93_06475 484 RDDFISIASHELRIPLTPIRICLQLLKRHiytmspgDVKSEVLFKALENADKQFDRFLMLVENLLDVSRISA 555
                              679********************************966689****************************975 PP

  == domain 2  score: -3.8 bits;  conditional E-value: 8.6
                              HHHHHHHHHH CS
                    HisKA  50 rldhlvedlL 59 
                              r+d+++++lL
  PHY93_06475|PHY93_06475 605 RIDQVISNLL 614
                              999***9998 PP

>> PAS_4  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.2   0.0   2.4e-05     0.039      12     109 ..      98     203 ..      86     204 .. 0.70
   2 !   10.2   0.0   0.00042      0.68      11      64 ..     230     282 ..     220     331 .. 0.67
   3 !    8.7   0.0    0.0013       2.1       2     109 ..     348     457 ..     347     458 .. 0.69

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 2.4e-05
                    PAS_4  12 dpdgrvlyaNaaaaelfgappeellGktla.....ellpee.daarleralrrvlegeepiefleelll..pgeerhyelrllPlr 89 
                               p g++   N+a+ e+++++ e++l   ++      ++p++ +  + e +l+r l +ee+i+ +e+  l  +g ++ ++++  Pl+
  PHY93_06475|PHY93_06475  98 EPSGKIFISNKASNEILKITTEAALTLDDYissikGIHPDGsLYKPSEWPLARSLFSEEFISNEEIEILrkDGTHCLMLTNSAPLF 183
                              55555555566666655555555555555543222255555666666667777777888888877766669*************** PP

                    PAS_4  90 desGevigvlvisrDiTerr 109
                              d++ + ig ++ + DiT +r
  PHY93_06475|PHY93_06475 184 DTQKKLIGGIASFFDITSQR 203
                              *****************997 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 0.00042
                    PAS_4  11 ldpdgrvlyaNaaaaelfgappeellGktlaellpeedaarleralrrvlegee 64 
                                +d+r+++++++a++l+g+p e++l+++ + ++ + + ++ ++ ++ +l++ +
  PHY93_06475|PHY93_06475 230 ATSDLRFTFVSKQAERLLGYPKEAWLDSPTF-WADHIHIEDRDSTIKTCLAQSK 282
                              489**************************99.6666788888888888877654 PP

  == domain 3  score: 8.7 bits;  conditional E-value: 0.0013
                    PAS_4   2 dslpdalavldpdgrvlyaNaaaaelfgappeellGktla....ellpee..daarleralrrvlegeepiefleelllpgeerhy 81 
                              +s+ d+l v+d +g+++++N+ + +l ++ pe +l+k++     ++   +    +++ + +++  e+    e++++ ++ ++++ +
  PHY93_06475|PHY93_06475 348 ESTADGLMVVDLNGNIMRYNQKFVKLWQI-PEKILDKKDDsltiQYILGQikNPDQFLEKIKEIYESP-EMESTDVIDF-KDGKRI 430
                              78899*****************9995554.56777777773444333333677777777777777775.5666777777.555555 PP

                    PAS_4  82 elrllPlrdesGevigvlvisrDiTerr 109
                              e +  P    +G+ +g ++ +rD+Te +
  PHY93_06475|PHY93_06475 431 ERFSQPQ-SIDGKSVGRVWSFRDVTEKS 457
                              5555554.57788888888888888865 PP

>> PAS_7  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.5   0.0     0.098   1.6e+02      95     114 ..     182     206 ..      86     207 .. 0.58
   2 ?   -0.8   0.0         1   1.7e+03      56      80 ..     267     291 ..     231     304 .. 0.61
   3 !   25.3   0.0   8.3e-09   1.4e-05       1     113 [.     347     459 ..     347     462 .. 0.72

  Alignments for each domain:
  == domain 1  score: 2.5 bits;  conditional E-value: 0.098
                    PAS_7  95 l.....pdgGfVttytDiTerrrae 114
                              l        G ++++ DiT +r++e
  PHY93_06475|PHY93_06475 182 LfdtqkKLIGGIASFFDITSQRNSE 206
                              3444334468899999999999988 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 1
                    PAS_7  56 agdveaeverrlaaaragkphsfer 80 
                               +d++++++++la+ ++  ph +e 
  PHY93_06475|PHY93_06475 267 IEDRDSTIKTCLAQSKKMLPHDLEY 291
                              2466677777777777777666665 PP

  == domain 3  score: 25.3 bits;  conditional E-value: 8.3e-09
                    PAS_7   1 lenmsqGisvfDadlrLvawNrrylelldlpeelvqvgvpleellrynaergefg.agdveaeverrlaaaragkphsfererpdg 85 
                              +e+  +G++v+D +++++ +N+++++l ++pe+++       ++  +    g+++ +++  ++++++ ++ + ++ +      +dg
  PHY93_06475|PHY93_06475 347 IESTADGLMVVDLNGNIMRYNQKFVKLWQIPEKILDKKDDSLTIQYI---LGQIKnPDQFLEKIKEIYESPEMESTDV--IDFKDG 427
                              578899*****************************655444333333...4666623445555555555444444443..456899 PP

                    PAS_7  86 rvievrgnpl....pdgGfVttytDiTerrra 113
                              + ie  ++p        G V ++ D+Te+ r 
  PHY93_06475|PHY93_06475 428 KRIERFSQPQsidgKSVGRVWSFRDVTEKSRV 459
                              99999988876666779***********8775 PP

>> PAS_10  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.0      0.52   8.5e+02      42     106 .]     130     200 ..      93     200 .. 0.73
   2 ?    3.7   0.0     0.054        89      44     106 .]     263     327 ..     216     327 .. 0.84
   3 ?    7.1   0.0    0.0048       7.8       1      47 [.     343     389 ..     343     454 .. 0.64

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.52
                   PAS_10  42 pladihpk.kavknveeviealrtgek..devevvvp.kngkw..vlvrylpyrdedgeiaGvvetfvDit 106
                              +++ ihp+ + +k  e+ + +   +e+   ++e+++  k+g++  +l +  p+ d++++  G +  f+Dit
  PHY93_06475|PHY93_06475 130 SIKGIHPDgSLYKPSEWPLARSLFSEEfiSNEEIEILrKDGTHclMLTNSAPLFDTQKKLIGGIASFFDIT 200
                              5666777777777777766666666664433444442366665347789999***9999999999999997 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.054
                   PAS_10  44 adihpkkavknveeviealrtgekdevevvvp..kngkwvlvrylpyrdedgeiaGvvetfvDit 106
                              ++ih +++ + ++  + + ++   +  e+ +     g++ +  +  + ++++++ G+  ++vDit
  PHY93_06475|PHY93_06475 263 DHIHIEDRDSTIKTCLAQSKKMLPHDLEYRMYtaAGGTIWVRDIVTVVTKNNKFIGLRGIMVDIT 327
                              5778888888888888888877776666666434889999***********************97 PP

  == domain 3  score: 7.1 bits;  conditional E-value: 0.0048
                   PAS_10   1 lnnlLnstpieltflDdnlqirrFtpaakklfklipadvGrpladih 47 
                              ln +++st+ +l+ +D n +i+r++++  kl ++ ++ +  + ++++
  PHY93_06475|PHY93_06475 343 LNAIIESTADGLMVVDLNGNIMRYNQKFVKLWQIPEKILDKKDDSLT 389
                              7999**********************999999988887776655554 PP

>> EAL  EAL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.2   0.00011      0.19      46     153 ..     483     591 ..     471     594 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00011
                              -CCCCHHHHHHCTCHHHHHHHHHHHHHHHHHHHH.CHTT--EEEEEE--CHHCC-CC...HHHHHHHHHHCCT-GCC-EEEEEEHH CS
                      EAL  46 speeflplaerlgllaeldrwvleqalqdlrrla.eqldadiklsinlspasladee...fleelrellkqsgpspsrLvleites 127
                                ++f+++a +   + ++ ++ ++ +lq l+r+   + ++d+k  +   +   ad++   fl+ +++ll+ s++s++rL+le  e 
  PHY93_06475|PHY93_06475 483 LRDDFISIASH---ELRIPLTPIRICLQLLKRHIyTMSPGDVKSEVLFKALENADKQfdrFLMLVENLLDVSRISADRLILEYEEF 565
                              56788888888...4444455555555555554323248999999999888888888899*************************9 PP

                              HHHHTHHHHH.HHHH....HHHCTT-EEEE CS
                      EAL 128 ellarlealqeevla....rLralGirial 153
                              +l    e ++ ev++    ++++ G+++ l
  PHY93_06475|PHY93_06475 566 DL---SELVT-EVVErftpQFSKVGCQVKL 591
                              88...33333.5555444689999999876 PP

>> HATPase_c_2  Histidine kinase-like ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   0.00019      0.31      30     111 ..     604     685 ..     567     704 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00019
              HATPase_c_2  30 deirlaveEactNavehayleapegpvevrlesdeealtvevaDsGpgfdpetlpdpteeep......keslkegGrGlalikglv 109
                              ++i  +++ ++tNa++++      +p+ ++++ ++++  + ++D G g   e++p+              + +  G+Gl++ +++ 
  PHY93_06475|PHY93_06475 604 ARIDQVISNLLTNAMKYGEG----KPIYITVSLSGNQAFIIIRDFGIGISKEDQPKLFG--RfertasVKHFEGLGLGLFISHNII 683
                              47788888899*******97....99**********************77776665322..1234566778888899999988876 PP

              HATPase_c_2 110 De 111
                                
  PHY93_06475|PHY93_06475 684 SA 685
                              65 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (710 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       604  (0.0336884); expected 358.6 (0.02)
Passed bias filter:                      484  (0.0269954); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.71u 0.26s 00:00:00.97 Elapsed: 00:00:00.43
# Mc/sec: 4918.38
//
Query:       PHY93_06480|PHY93_06480  [L=197]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.5e-24   85.8   0.0    5.3e-24   85.6   0.0    1.1  1  Lipase_GDSL_2  GDSL-like Lipase/Acylhydrolase family
    3.3e-16   59.9   0.0    3.9e-16   59.6   0.0    1.1  1  Lipase_GDSL    GDSL-like Lipase/Acylhydrolase
     0.0012   18.1   0.0     0.0016   17.7   0.0    1.2  1  OSK            OSK domain
  ------ inclusion threshold ------
      0.012   15.9   0.0      0.018   15.4   0.0    1.2  1  TINF2_N        TERF1-interacting nuclear factor 2 N-terminus
      0.024   14.0   0.2      0.033   13.6   0.2    1.2  1  DUF1574        Protein of unknown function (DUF1574)


Domain annotation for each model (and alignments):
>> Lipase_GDSL_2  GDSL-like Lipase/Acylhydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.6   0.0   1.5e-27   5.3e-24       1     179 []      25     186 ..      25     186 .. 0.84

  Alignments for each domain:
  == domain 1  score: 85.6 bits;  conditional E-value: 1.5e-27
                              EEESHHHHTCTTBCCHCHHCCCCCCCHHHTT.-EEEEE.EEHCCH-H..HHHHHHHHCTGGG-TSEEEEE--CCCCCTT--HHHHH CS
            Lipase_GDSL_2   1 alGDSiTaGygadgggrsypaylarllaarl.gldvvnnlgvsGattallrllerlrdllrlkpdlvtiliGtNDlgrgvpaaaaa 85 
                              +lGDS+++G g+ ++++s+p++++r l+a+  +++v+n  gvsGat+  +  + rl   l+ k d+v++ +G+ND +rgv  ++++
  PHY93_06480|PHY93_06480  25 FLGDSLSEGLGV-DEEQSFPRLVERNLRAKKlDVTVTN-GGVSGATS--ASGESRLKWHLKKKTDIVVLELGANDGLRGVKISETE 106
                              79**********.9**************9996777777.********..666666666699************************* PP

                              HH..HHHHHHHHCCC...GEEECEEEEE-TTT-TTSTCCHHHHHHHHHHHHHHHHHHCT-EEE-HHHHHHHCCCCCGGBBTTS.SS CS
            Lipase_GDSL_2  86 andnleelidalraaapgarilvlgplpptpeaaadarelnaviaaynealrevaaeegvpfvDlhdaladsgerladlladdglH 171
                              +n  l+++i+ ++++  ++++l lg l p+ ++        +++a++  +++ + + e++pf ++  +l d ++  +++ ad+ +H
  PHY93_06480|PHY93_06480 107 KN--LRKIIKLAKDK--KVKVLLLGLLMPPNYGE-------KYTAEFEVMYKNISKVEKIPFMPF--ILKDVAGIAEYNQADG-IH 178
                              **..*********99..99999444444444443.......34667*******************..6666665555566666.** PP

                              B-HHHHHH CS
            Lipase_GDSL_2 172 PnaaGyrl 179
                              Pna+G++l
  PHY93_06480|PHY93_06480 179 PNARGHEL 186
                              ******86 PP

>> Lipase_GDSL  GDSL-like Lipase/Acylhydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.6   0.0   1.1e-19   3.9e-16       1     198 [.      23     189 ..      23     191 .. 0.86

  Alignments for each domain:
  == domain 1  score: 59.6 bits;  conditional E-value: 1.1e-19
                              EEEEESHHHHTTTHHHHHHHCCCCEECCCTTC.GCEEEEEEECTTHHHHHHHCCHECTTTECHHHHHCTTSEEEEE--CTCC-EEC CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Lipase_GDSL   1 ivafGDSltdGdgaatlntiqlktpknlnefdlaldrianignkgasdnelqqllnkyplkseqlkalhpdlviislGtNDsnlgk 86 
                              i+++GDSl++G+g+    +  + + +nl++++l   +++n+g  ga +     +l      +  + +++ d+v+++lG+ND     
  PHY93_06480|PHY93_06480  23 ILFLGDSLSEGLGVDEEQSFPRLVERNLRAKKL-DVTVTNGGVSGATSASGESRL------K-WHLKKKTDIVVLELGANDG---- 96 
                              89***************************9987.778888888888888888888......3.23445889***********.... PP

                              SSCTTTCEEHHHHHHHHHHHHHHHHHHHHTTEEEEEEE-SSTCHCTCCCCHCCHHHHHHHHHHHHHHHHHHHHHCTEEEECH.HHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxx RF
              Lipase_GDSL  87 kstdaakkeaeeyiknlreaikelkeegapkaivvlvsppglgpqeekdakklgekgnefvgeynqrlndlaekdgfavvDl.yde 171
                                    + +++e  knlr+ ik  k+++ ++++  l+ pp+ g+              +  +e+   ++++ + ++++++++  + 
  PHY93_06480|PHY93_06480  97 ----LRGVKISETEKNLRKIIKLAKDKKVKVLLLGLLMPPNYGE--------------KYTAEFEVMYKNISKVEKIPFMPFiLKD 164
                              ....******************9997776777777777777777..............9999*******************72566 PP

                              HHHTHCCGCHCHTSSSB-HHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Lipase_GDSL 172 lqglsgieqlkaDglHpsekgyeklae 198
                                g   +e+++aDg+Hp+ +g+e++a+
  PHY93_06480|PHY93_06480 165 VAGI--AEYNQADGIHPNARGHELVAK 189
                              7777..889999*************97 PP

>> OSK  OSK domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   0.0   4.5e-07    0.0016      51     121 ..      63     134 ..      43     154 .. 0.80

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 4.5e-07
                              EETT--HHHHHHHHHT----T.-EEEEE--HHHHHTT--HHHHHHHHHHHHHHHHHTT-EEEEE-----GGG CS
                      OSK  51 ciSGlTiseaakrlekielis.srvvvnlGsvDilngktlvelehDlteLlkelrernvaiilttlaPlaNl 121
                               +SG T +   +rl+     + + vv++lG+ D l+g ++ e e+ l++++k  ++++v+++l  l    N+
  PHY93_06480|PHY93_06480  63 GVSGATSASGESRLKWHLKKKtDIVVLELGANDGLRGVKISETEKNLRKIIKLAKDKKVKVLLLGLLMPPNY 134
                              48************96555553888899*******************************9998776444455 PP

>> TINF2_N  TERF1-interacting nuclear factor 2 N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.4   0.0   5.1e-06     0.018      61     138 ..      75     154 ..      64     160 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 5.1e-06
                  TINF2_N  61 aiqshlerlrasaa....kstkkkdekveeaqenflklvqsLledpeerekflqeefpeeYGekfdaalekLllefLsrLeq 138
                               ++ hl++ +  ++    +++  +  k++e+++n+ k++ +L++d++ +   l   +p +YGek+ a+ e +  + +s++e+
  PHY93_06480|PHY93_06480  75 RLKWHLKKKTDIVVlelgANDGLRGVKISETEKNLRKII-KLAKDKKVKVLLLGLLMPPNYGEKYTAEFEVM-YKNISKVEK 154
                              56778888777766777777788899********99887.59**************************9974.455666665 PP

>> DUF1574  Protein of unknown function (DUF1574)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.2   9.1e-06     0.033     237     294 ..      94     149 ..      75     165 .. 0.80

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 9.1e-06
                  DUF1574 237 neylrsfalsplqleflekilklakeknikvlliwpkvseplervlkklklkeswapk 294
                              n+ lr  ++s++  ++l+ki+klak+k +kvll    + +++ +++  ++++  + ++
  PHY93_06480|PHY93_06480  94 NDGLRGVKISETE-KNLRKIIKLAKDKKVKVLLLGLLMPPNYGEKYT-AEFEVMYKNI 149
                              5667777777764.689*************************99998.6665555443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (197 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       603  (0.0336327); expected 358.6 (0.02)
Passed bias filter:                      504  (0.0281109); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.49u 0.19s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 1526.21
//
Query:       PHY93_06485|PHY93_06485  [L=217]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    7.2e-36  123.7   0.0    9.8e-36  123.3   0.0    1.2  1  ABC_tran     ABC transporter
    9.4e-07   28.5   0.1    0.00019   21.0   0.0    2.1  2  SMC_N        RecF/RecN/SMC N terminal domain
    3.6e-05   23.7   1.9      0.028   14.2   1.0    2.6  3  AAA_21       AAA domain, putative AbiEii toxin, Type IV TA sy
    7.2e-05   22.4   0.1    0.00016   21.3   0.1    1.5  1  AAA_29       P-loop containing region of AAA domain
      0.001   19.0   0.1     0.0019   18.2   0.1    1.4  1  RsgA_GTPase  RsgA GTPase
     0.0013   18.5   0.5       0.19   11.4   0.2    2.1  2  AAA_15       AAA ATPase domain
     0.0026   18.1   0.1      0.018   15.3   0.1    2.0  1  AAA_22       AAA domain
     0.0027   18.1   0.1     0.0038   17.6   0.1    1.4  1  AAA_16       AAA ATPase domain
     0.0048   17.0   0.2     0.0082   16.3   0.0    1.5  1  DUF87        Helicase HerA, central domain
  ------ inclusion threshold ------
      0.017   14.7   0.1       0.29   10.7   0.2    2.2  2  AAA_25       AAA domain
       0.02   15.4   0.0      0.048   14.2   0.0    1.7  2  AAA_18       AAA domain
      0.022   14.0   0.0      0.022   14.0   0.0    1.2  1  G-alpha      G-protein alpha subunit
      0.024   13.9   0.3        0.1   11.8   0.0    1.9  2  KAP_NTPase   KAP family P-loop domain
      0.027   13.8   0.5        1.8    7.8   0.1    2.1  2  ATPase       KaiC
      0.029   13.2   0.0      0.042   12.7   0.0    1.2  1  DLIC         Dynein light intermediate chain (DLIC)
      0.031   14.4   0.0      0.084   13.0   0.0    1.7  2  MMR_HSR1     50S ribosome-binding GTPase
      0.065   13.7   0.2       0.16   12.5   0.2    1.7  1  AAA_23       AAA domain
      0.073   12.8   0.0       0.12   12.1   0.0    1.3  1  AAA_24       AAA domain
      0.077   12.9   0.1       0.16   11.9   0.1    1.5  1  NACHT        NACHT domain
       0.12   11.8   0.3       0.34   10.3   0.1    1.8  2  Pox_A32      Poxvirus A32 protein
       0.14   11.3   1.7        2.1    7.5   0.3    2.3  2  NB-ARC       NB-ARC domain
       0.14   12.2   0.1       0.22   11.6   0.1    1.6  1  CbiA         CobQ/CobB/MinD/ParA nucleotide binding domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  123.3   0.0   1.2e-38   9.8e-36       1     136 [.      22     167 ..      22     168 .. 0.89

  Alignments for each domain:
  == domain 1  score: 123.3 bits;  conditional E-value: 1.2e-38
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG....B-HHHCCHCEEEE-SS--S-TTSBHHHH... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxx... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke....qeleslrkeigvlpqepqlfpeltvren... 79 
                              l++vsl+++ ge++a++G++G+GKStLl+llagl+kp+ G+il+d +dl++        +  k++g+++q+ +l p+lt+ en   
  PHY93_06485|PHY93_06485  22 LDDVSLDIQSGEMIALLGKSGSGKSTLLSLLAGLEKPDFGSILFDHTDLTKlseeALCDWRAKNLGIVFQQFNLIPHLTALENvml 107
                              79*************************************************9986666778899********************** PP

                              ....HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              ....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ....esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                                  +  ++ +kal++l+l++  d++v++ ps LSgG++qrva+aral+  p+lll+DEpt
  PHY93_06485|PHY93_06485 108 pleiNGLDDKKKALDWLSLVG-LDDRVNHFPSMLSGGEQQRVAIARALVFGPPLLLADEPT 167
                              **9955555666666666666.444666788*****************************9 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.9   0.1    0.0095       7.7      24      41 ..      32      49 ..      12      55 .. 0.82
   2 !   21.0   0.0   2.3e-07   0.00019     134     212 ..     137     213 ..      64     216 .. 0.81

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.0095
                             SSEEEEEESTTSSHHHHH CS
                             xxxxxxxxxxxxxxxxxx RF
                    SMC_N 24 ksftaivGpNGSGKsnll 41
                              ++ a++G+ GSGKs ll
  PHY93_06485|PHY93_06485 32 GEMIALLGKSGSGKSTLL 49
                             458899*********987 PP

  == domain 2  score: 21.0 bits;  conditional E-value: 2.3e-07
                              TTCS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHH..HHCTTSEEEEE-SSHHHCCC-SCEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 134 kelLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellk..eksknaQfivislreemlekadklvgvt 212
                              +++LSgGe++ va+a  +    v   pl l De   +LD +  kkv e l    ++k++ +i+++++ee+  kad++v++t
  PHY93_06485|PHY93_06485 137 PSMLSGGEQQRVAIARAL----VFGPPLLLADEPTGNLDSETGKKVIETLFniVREKKTTMIIVTHDEELALKADRIVRLT 213
                              449******999987543....4467****************99999988734467789******************9986 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.2   1.0   3.5e-05     0.028       2      23 ..      35      56 ..      34      82 .. 0.76
   2 ?   -0.2   0.0      0.86     7e+02      93     148 ..      72     127 ..      56     143 .. 0.81
   3 !    7.5   0.0    0.0038       3.1     242     301 ..     145     202 ..     131     205 .. 0.70

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 3.5e-05
                   AAA_21  2 nvliGpNgsGKSnLLdaldlla 23
                              +l G+ gsGKS+LL +l +l 
  PHY93_06485|PHY93_06485 35 IALLGKSGSGKSTLLSLLAGLE 56
                             589***************9993 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.86
                   AAA_21  93 llesgllldkrsleeedvfnpeargirggvsvfslkelsvsepndlqfgkaltdit 148
                              +l+   l+d r+++ + vf ++    + ++ +++  +l+++  +d+++  ++++++
  PHY93_06485|PHY93_06485  72 KLSEEALCDWRAKNLGIVFQQFNLIPHLTALENVMLPLEINGLDDKKKALDWLSLV 127
                              56667788999999999999999999999999999999999999998888887765 PP

  == domain 3  score: 7.5 bits;  conditional E-value: 0.0038
                   AAA_21 242 krllalltallralkkgsllliDEpEngLHPkllrrll.ellkelsrngaQviltTHSpll 301
                              ++  a++ al   +   +lll DEp  +L+ +  ++++ +l+++ +++++  i++TH+ +l
  PHY93_06485|PHY93_06485 145 QQRVAIARALVFGP---PLLLADEPTGNLDSETGKKVIeTLFNIVREKKTTMIIVTHDEEL 202
                              55545555555555...9*************55555554444555555669******9877 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.1     2e-07   0.00016      13      39 ..      23      49 ..      19      59 .. 0.85

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 2e-07
                   AAA_29 13 dghtieidlkgatlltGpsGsGKSTll 39
                             d+ +++i+  +++ l G+sGsGKSTll
  PHY93_06485|PHY93_06485 23 DDVSLDIQSGEMIALLGKSGSGKSTLL 49
                             66788898666***************8 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.1   2.3e-06    0.0019      91     124 ..      23      57 ..       3      72 .. 0.80

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 2.3e-06
                              HHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT-- CS
              RsgA_GTPase  91 eelkellkd.ktsvlvGqSGvGKStLinallpele 124
                              ++++  +++ ++++l+G+SG GKStL+  l++ ++
  PHY93_06485|PHY93_06485  23 DDVSLDIQSgEMIALLGKSGSGKSTLLSLLAGLEK 57 
                              555556666699****************9998655 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.4   0.2   0.00023      0.19      14      50 ..      22      59 ..      10      93 .. 0.78
   2 ?    5.5   0.0     0.014        12     327     367 ..     161     201 ..     158     203 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00023
                   AAA_15 14 lkdveidlsee.ltvliGkNnsGKSsilealdlFlnnk 50
                             l+dv++d+++  +  l Gk +sGKS++l +l  + + +
  PHY93_06485|PHY93_06485 22 LDDVSLDIQSGeMIALLGKSGSGKSTLLSLLAGLEKPD 59
                             57899999998899***************997665544 PP

  == domain 2  score: 5.5 bits;  conditional E-value: 0.014
                   AAA_15 327 lliEEPEahLHpqaqkvlikllkelandnktQviitTHSph 367
                              ll +EP  +L  +  k +i++l ++++++kt  ii TH + 
  PHY93_06485|PHY93_06485 161 LLADEPTGNLDSETGKKVIETLFNIVREKKTTMIIVTHDEE 201
                              56677777777788899*********************976 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.1   2.3e-05     0.018       4      65 ..      31      87 ..      28     203 .. 0.74

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 2.3e-05
                   AAA_22  4 tagilvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsst..sskdllrellralg 65
                             +  ++++ G sG+GK+tll  l+   +       ++ + ++++ + +t  s + l+ + +++lg
  PHY93_06485|PHY93_06485 31 SGEMIALLGKSGSGKSTLLSLLAGLEK-------PDFGSILFDHTDLTklSEEALCDWRAKNLG 87
                             56799***************9998764.......467777777777776667777777666666 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.1   4.7e-06    0.0038      22      58 ..      30      65 ..      16     154 .. 0.80

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 4.7e-06
                   AAA_16 22 grpelvllsGesGvGKsslvrellralekdggiflrg 58
                             +++e++ l G sG+GKs+l+  l+  lek ++  +  
  PHY93_06485|PHY93_06485 30 QSGEMIALLGKSGSGKSTLLSLLA-GLEKPDFGSILF 65
                             4459****************9998.677775444433 PP

>> DUF87  Helicase HerA, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0     1e-05    0.0082      14      60 ..      25      67 ..      14      94 .. 0.84

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 1e-05
                    DUF87 14 vyldlnklvtrHlAilgsTGsGKSntvavLleellekkgatililDp 60
                             v+ld+++   + +A lg++GsGKS++ ++L + l  k++   +++D+
  PHY93_06485|PHY93_06485 25 VSLDIQSG--EMIALLGKSGSGKSTLLSLL-AGLE-KPDFGSILFDH 67
                             55666333..669************99865.5666.88888888885 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.2   0.00036      0.29      31      54 ..      30      53 ..      24      54 .. 0.89
   2 ?    1.5   0.0      0.24   1.9e+02     160     188 ..     169     198 ..     151     200 .. 0.85

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00036
                   AAA_25 31 pagelallaGapgtGKttlaldla 54
                               ge ++l G +g+GK+tl++ la
  PHY93_06485|PHY93_06485 30 QSGEMIALLGKSGSGKSTLLSLLA 53
                             67999**************99887 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.24
                   AAA_25 160 nsnsdv.galvealeriarrtgaavllvhH 188
                              n +s++ ++++e l +i r+++ + ++v H
  PHY93_06485|PHY93_06485 169 NLDSETgKKVIETLFNIVREKKTTMIIVTH 198
                              556676799*******************99 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0   5.9e-05     0.048       1      22 [.      35      56 ..      35     120 .. 0.74
   2 ?   -2.2   0.0       7.2   5.9e+03      59      87 ..     177     203 ..     162     212 .. 0.58

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 5.9e-05
                   AAA_18  1 IlltGtpGvGKttlakeLskrl 22
                             I+l G++G+GK+tl   L+ ++
  PHY93_06485|PHY93_06485 35 IALLGKSGSGKSTLLSLLAGLE 56
                             89****************7664 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 7.2
                   AAA_18  59 klldaleenssaleegknlvidghlaele 87 
                              k++++l ++   +e+  + +i  h +el 
  PHY93_06485|PHY93_06485 177 KVIETLFNIV--REKKTTMIIVTHDEELA 203
                              4444555543..35555556666665554 PP

>> G-alpha  G-protein alpha subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   2.7e-05     0.022      26      65 ..      35      87 ..       6     201 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 2.7e-05
                             EEEEESTTSSHHHHHHHHHHHCS--.............--HHHHHCCHHHHHH CS
                  G-alpha 26 llllGqseSGKsTilkqlkllykkg.............fseeelatwraviql 65
                             + llG+s+SGKsT+l  l  l+k+               see l  wra    
  PHY93_06485|PHY93_06485 35 IALLGKSGSGKSTLLSLLAGLEKPDfgsilfdhtdltkLSEEALCDWRAKNLG 87
                             89****************99999997777766666666666666667664444 PP

>> KAP_NTPase  KAP family P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   0.00013       0.1       6      44 ..      16      56 ..      13     153 .. 0.90
   2 ?    0.3   0.1      0.39   3.2e+02     192     218 ..     177     203 ..     169     213 .. 0.68

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00013
               KAP_NTPase  6 saladilseptl..atpivvgLygkWGsGKssllnkledel 44
                             ++++++l + +l  + + +++L gk GsGKs+ll +l    
  PHY93_06485|PHY93_06485 16 KNIINVLDDVSLdiQSGEMIALLGKSGSGKSTLLSLLAGLE 56
                             789999999999999*******************9997665 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.39
               KAP_NTPase 192 qlleavkllfsl...kpvvfilavDphvia 218
                              +   ++++lf++   k++++i+++ ++ +a
  PHY93_06485|PHY93_06485 177 K---VIETLFNIvreKKTTMIIVTHDEELA 203
                              4...45555555555999999999888775 PP

>> ATPase  KaiC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   0.1    0.0023       1.8       5      35 ..      19      48 ..      15      53 .. 0.86
   2 ?    4.3   0.0     0.026        21     137     165 ..     172     200 ..     165     211 .. 0.80

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0023
                   ATPase  5 IeglDeilkgGipegrvvlitGepGtGKtif 35
                             I+ lD++    i +g+++ + G++G+GK+++
  PHY93_06485|PHY93_06485 19 INVLDDVS-LDIQSGEMIALLGKSGSGKSTL 48
                             78888886.7799***************986 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.026
                   ATPase 137 eavaReilrqlvrvlkklgvTailvseks 165
                              +++ ++ + +l+++++++++T i+v+  +
  PHY93_06485|PHY93_06485 172 SETGKKVIETLFNIVREKKTTMIIVTHDE 200
                              5667788999*************999754 PP

>> DLIC  Dynein light intermediate chain (DLIC)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   5.2e-05     0.042      21      55 ..      28      62 ..      16      71 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 5.2e-05
                     DLIC 21 klPsgksvlvlGedgsGkttliaklqGveeekkGr 55
                              + sg  + +lG++gsGk+tl++ l G+e++  G+
  PHY93_06485|PHY93_06485 28 DIQSGEMIALLGKSGSGKSTLLSLLAGLEKPDFGS 62
                             5679999**********************998886 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0    0.0001     0.084       2      21 ..      35      54 ..      34      95 .. 0.83
   2 ?   -1.8   0.0       3.9   3.2e+03      93     110 ..     178     195 ..     144     207 .. 0.61

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 0.0001
                             EEEEESTTSSHHHHHHHHHT CS
                 MMR_HSR1  2 vaivGrpNvGKStLinaltg 21
                             +a++G++ +GKStL++ l g
  PHY93_06485|PHY93_06485 35 IALLGKSGSGKSTLLSLLAG 54
                             89**************9987 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 3.9
                              HHHHHHHHHHHTTSEEEE CS
                 MMR_HSR1  93 ldeeleelleeakkplil 110
                              + e+l ++ +e+k  +i+
  PHY93_06485|PHY93_06485 178 VIETLFNIVREKKTTMII 195
                              334444444333333333 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.2   0.00019      0.16      11      37 ..      23      50 ..       2      54 .. 0.72

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 0.00019
                   AAA_23 11 rdqeidF.skgltlItGpNGaGKTTild 37
                             +d+++d  s  + ++ G+ G+GK+T+l 
  PHY93_06485|PHY93_06485 23 DDVSLDIqSGEMIALLGKSGSGKSTLLS 50
                             566666666689**************96 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   0.00014      0.12       3      26 ..      33      60 ..      31      81 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00014
                   AAA_24  3 lkiliyGpsgiGKTtlakel....gpkp 26
                              +i++ G+sg+GK+tl++ l    +p++
  PHY93_06485|PHY93_06485 33 EMIALLGKSGSGKSTLLSLLagleKPDF 60
                             579**************99877655555 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.1    0.0002      0.16       2      21 ..      34      53 ..      33      59 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.0002
                             CEEEEC-TTTCHHHHHHHHH CS
                    NACHT  2 lvilqGeaGsGKTtLlqkla 21
                             +++l G++GsGK+tLl  la
  PHY93_06485|PHY93_06485 34 MIALLGKSGSGKSTLLSLLA 53
                             6899***********98765 PP

>> Pox_A32  Poxvirus A32 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.1   0.00042      0.34      16      37 ..      35      55 ..      23      65 .. 0.84
   2 ?   -1.7   0.0         2   1.7e+03     112     136 ..     174     198 ..     167     204 .. 0.66

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00042
                  Pox_A32 16 lalvGgsGsGktvyLlsLlrtl 37
                             +al+G+sGsGk + LlsLl  l
  PHY93_06485|PHY93_06485 35 IALLGKSGSGKST-LLSLLAGL 55
                             79*********98.67888776 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 2
                  Pox_A32 112 tksktLlellnvgRhlnvsiilLcq 136
                              t +k++ +l+n+ R  ++ +i++ +
  PHY93_06485|PHY93_06485 174 TGKKVIETLFNIVREKKTTMIIVTH 198
                              4456666677777777776666554 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.7   0.1     0.074        60      98     112 ..      11      25 ..       4      31 .. 0.87
   2 ?    7.5   0.3    0.0025       2.1      22      38 ..      34      50 ..      26      54 .. 0.85

  Alignments for each domain:
  == domain 1  score: 2.7 bits;  conditional E-value: 0.074
                              HHCCCTTEEEEEEEE CS
                   NB-ARC  98 rlLltkrfllvlDDV 112
                              ++L++k+ + vlDDV
  PHY93_06485|PHY93_06485  11 NFLQGKNIINVLDDV 25 
                              799***********9 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0025
                             EEEEEESTTSSHHHHHH CS
                   NB-ARC 22 vvalvGmgGvGKttlak 38
                             ++al G+ G+GK+tl++
  PHY93_06485|PHY93_06485 34 MIALLGKSGSGKSTLLS 50
                             89*************86 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.1   0.00027      0.22       6      38 ..      39      71 ..      34     207 .. 0.67

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00027
                             SSTTSSHHHHHHHHHHHHHHTT--EEEEE.EEES CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxx RF
                     CbiA  6 tkGGvGKTtlaanLaralarrglrVllvD.aDpq 38
                             +k+G+GK+tl+  La + +   +  +l+D +D  
  PHY93_06485|PHY93_06485 39 GKSGSGKSTLLSLLAGLEK-PDFGSILFDhTDLT 71
                             8*********999998544.47777777755554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (217 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       476  (0.0265492); expected 358.6 (0.02)
Passed bias filter:                      461  (0.0257125); expected 358.6 (0.02)
Passed Vit filter:                        97  (0.00541023); expected 17.9 (0.001)
Passed Fwd filter:                        22  (0.00122706); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              22  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.40
# Mc/sec: 1621.93
//
Query:       PHY93_06490|PHY93_06490  [L=845]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    2.5e-10   41.0   0.0    4.4e-05   23.9   0.0    3.1  3  MacB_PCD   MacB-like periplasmic core domain
     0.0027   18.2   4.7     0.0027   18.2   4.7    6.2  5  FtsX       FtsX-like permease family


Domain annotation for each model (and alignments):
>> MacB_PCD  MacB-like periplasmic core domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.9   0.0   4.9e-09   4.4e-05       5     194 ..      22     235 ..      19     236 .. 0.69
   2 ?   -3.7   4.0       1.5   1.3e+04       2      19 ..     318     335 ..     317     351 .. 0.83
   3 !   12.6   0.0   1.4e-05      0.13       2     151 ..     477     652 ..     476     703 .. 0.64

  Alignments for each domain:
  == domain 1  score: 23.9 bits;  conditional E-value: 4.9e-09
                 MacB_PCD   5 vLGiaiGvaaviaivslgeglqasvlsqisdl.gnlvtvtpgkgsgeslsdpdvealrr.....evpveavapvv..tvrgggsg. 81 
                              +L   +G+  + ++ s+  g+ ++v+++ ++  +  + ++  +    ++   +vea+++     ++++++   ++  ++r+gg++ 
  PHY93_06490|PHY93_06490  22 ILCASLGIVGLLLVESFKGGIEDKVSKNAKNFiASDLSISSRR----AMGPKEVEAIEDymaknKLSFARWIETYslVSRAGGTEp 103
                              6777899999999999999999999999998886667776665....233333443322121123344443333345556666544 PP

                 MacB_PCD  82 .eeevtvvgvdpdyfkvfglklaeGrffte....adlrggpnvvvigeelaerlf.pvGdtirl..kpftVvGvled.ppgsgsal 158
                               ++   ++ v+++++   g+ ++e ++f      a+l  +p+ + i+++l  +l  ++Gd++++   +f + Gv+++ + +s+ ++
  PHY93_06490|PHY93_06490 104 lSKLGDLNFVSEEFPYFGGV-VLENSGFKGagkwAALHLAPH-AWISRDLSWELGvKLGDKLKIgeMNFIIDGVITEdKFSSFRGF 187
                              65557789999777777777.444333544444488886666.**********99***********99******966333555555 PP

                 MacB_PCD 159 g.ddavylplttlqrrs...........itvrlkdgadleaaaaelek 194
                              + +++++l+++ l+ ++            +++l ++ dl+++++el++
  PHY93_06490|PHY93_06490 188 NlAPKIFLSYNFLKKTQlikfgstatyaYAIKLLPNNDLKKIQKELRA 235
                              57999****6666544455666677777999**************987 PP

  == domain 2  score: -3.7 bits;  conditional E-value: 1.5
                 MacB_PCD   2 lltvLGiaiGvaaviaiv 19 
                              +lt+ +++i+++ vi+ +
  PHY93_06490|PHY93_06490 318 VLTITAVIISTTIVILSL 335
                              69************9976 PP

  == domain 3  score: 12.6 bits;  conditional E-value: 1.4e-05
                 MacB_PCD   2 lltvLGiaiGvaaviaivslgeglqasvlsqisdl.gnlvtvtpgk.............gsges...lsdpdve..alrrevp..v 66 
                              +   + + iG++  + i+ l ++l+  +++++ d   +l++   +                      l +p ++  +++ +++   
  PHY93_06490|PHY93_06490 477 FTIFICLLIGMTLTTFIFQLDSSLRHEFTQTYGDRrPDLFMFDLQDsqtekydqvvraqK---WhqtLFAPMIRgrLIKINQEltQ 559
                              66678899*************************996556655444322332333322221...02222222222211222333324 PP

                 MacB_PCD  67 eavapvv...tvrgggsgeeevtvvgvdpdyfkvfgl.kl.aeGrffteadlr.ggpnvvvigeelaerlf.pvGdtirl..kpft 143
                              ++v p     + + +++++e+ + +gv+ +y   +++ ++ +eG++  e+     +p ++ + ++ a+rl  ++Gd++ +     +
  PHY93_06490|PHY93_06490 560 KRVGPGEgefS-TREDQTSEQMRNRGVNLSYRPKLSWsEKvVEGSYNGERCNPeKAPCEISLEQAYAKRLGvKLGDKLIFdiSGIE 644
                              45666323432.2222224556778999899999999955599*998885555238889**********99*******98876688 PP

                 MacB_PCD 144 VvGvledp 151
                              V Gv++++
  PHY93_06490|PHY93_06490 645 VEGVVTSM 652
                              88887553 PP

>> FtsX  FtsX-like permease family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.1      0.93   8.3e+03      30      56 ..      22      47 ..      18      62 .. 0.56
   2 ?    0.1   0.0      0.12   1.1e+03      66      88 ..     261     283 ..     236     290 .. 0.76
   3 ?   -9.5  29.8         2   1.8e+04       2      83 ..     293     373 ..     292     503 .. 0.84
   4 ?    1.3   1.6     0.053   4.7e+02      58      82 ..     723     747 ..     695     752 .. 0.60
   5 !   18.2   4.7     3e-07    0.0027       2      77 ..     757     832 ..     756     844 .. 0.76

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 0.93
                     FtsX 30 lvalviGlglgllaaqllsdvllssvf 56
                             ++++ +G ++gll+ + +  +++  v+
  PHY93_06490|PHY93_06490 22 ILCASLG-IVGLLLVESFKGGIEDKVS 47
                             4455555.5566666666655555544 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.12
                     FtsX  66 litvliiivlllllallagllsi 88 
                              l+++l++i l++ l++l+gl+ +
  PHY93_06490|PHY93_06490 261 LSDYLALITLMTYLLSLVGLYYF 283
                              56777788888888888877754 PP

  == domain 3  score: -9.5 bits;  conditional E-value: 2
                     FtsX   2 reigilralGmkkkqvlllllteillitlvalviGlglgllaaqllsdvllssvfsselkisidlitvliiivlllllalla 83 
                              + ++i+++lG+k+  ++++ ++ ++++t+ a +i++ + +l + ll  ++ + v+   l + + ++++  i++l++   lla
  PHY93_06490|PHY93_06490 293 KTFSIYKSLGLKTTFLFRVSFVHLIVLTITAVIISTTIVILSLPLLEVFFTNLVG-EVLIFRLGILALGRIFLLSFGGSLLA 373
                              6799*******************************77777776666666666555.55555555555555555555555555 PP

  == domain 4  score: 1.3 bits;  conditional E-value: 0.053
                     FtsX  58 selkisidlitvliiivlllllall 82 
                              + +++ i++i++l ++v l++l+ +
  PHY93_06490|PHY93_06490 723 DLMALAIKFISLLSLFVALVVLVAV 747
                              4444555555555555555444443 PP

  == domain 5  score: 18.2 bits;  conditional E-value: 3e-07
                     FtsX   2 reigilralGmkkkqvlllllteillitlvalviGlglgllaaqllsdvllssvfsselkisidlitvliiivlll 77 
                              re+ ++ +lG+k +++ ++++ e  +++l++++++l++g++++ +l+ ++  s    + ++  +++tvl +++ ++
  PHY93_06490|PHY93_06490 757 REMTLYYMLGLKLNSIKKIYTREFSFLILLCILLSLIFGSALTMVLMRYIFDSEAILRFSFVASVMTVLGLLLYII 832
                              899******************************************9988866533333333333333333333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (845 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1248  (0.0696079); expected 358.6 (0.02)
Passed bias filter:                      512  (0.0285571); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.87u 0.28s 00:00:01.14 Elapsed: 00:00:00.50
# Mc/sec: 5088.46
//
Query:       PHY93_06495|PHY93_06495  [L=573]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.1e-59  201.4  13.2    3.2e-59  200.8  13.2    1.1  1  ABC_membrane  ABC transporter transmembrane region
    5.3e-33  114.4   0.0    9.8e-33  113.6   0.0    1.5  1  ABC_tran      ABC transporter
    3.3e-07   30.0   1.9    4.1e-05   23.1   1.9    2.3  1  SMC_N         RecF/RecN/SMC N terminal domain
    0.00079   19.7   0.8      0.017   15.4   0.8    2.5  1  AAA_22        AAA domain
     0.0008   19.8   0.0     0.0022   18.4   0.0    1.7  1  AAA_16        AAA ATPase domain
     0.0019   18.0   0.1     0.0033   17.2   0.1    1.4  1  AAA_15        AAA ATPase domain
     0.0036   16.6   0.0      0.014   14.7   0.0    1.9  2  Zeta_toxin    Zeta toxin
     0.0048   17.3   0.9      0.099   13.1   0.9    2.5  1  AAA           ATPase family associated with various cellular 
     0.0057   16.4   0.2       0.45   10.2   0.0    2.4  2  IstB_IS21     IstB-like ATP binding protein
     0.0092   15.7   0.1      0.023   14.5   0.1    1.6  1  AAA_29        P-loop containing region of AAA domain
  ------ inclusion threshold ------
      0.017   15.7   0.0      0.039   14.5   0.0    1.7  1  AAA_18        AAA domain
      0.019   14.8   0.1       0.11   12.2   0.1    2.1  1  DEAD          DEAD/DEAH box helicase
      0.044   11.3   0.0      0.066   10.7   0.0    1.1  1  DUF3584       Protein of unknown function (DUF3584)
      0.051   13.5   0.0       0.12   12.3   0.0    1.6  1  RsgA_GTPase   RsgA GTPase
      0.074   12.8   0.0       0.12   12.1   0.0    1.5  1  AAA_24        AAA domain
        0.1   12.6   0.0        3.6    7.6   0.0    2.4  2  AAA_5         AAA domain (dynein-related subfamily)
       0.12   12.1   0.1       0.45   10.2   0.1    1.9  1  AAA_30        AAA domain
       0.14   11.9   1.0        1.1    9.0   0.4    2.3  2  AAA_21        AAA domain, putative AbiEii toxin, Type IV TA s
       0.33   11.4   2.0       0.37   11.3   0.7    1.7  2  AAA_23        AAA domain


Domain annotation for each model (and alignments):
>> ABC_membrane  ABC transporter transmembrane region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  200.8  13.2   3.4e-62   3.2e-59       4     270 ..      23     287 ..      20     290 .. 0.98

  Alignments for each domain:
  == domain 1  score: 200.8 bits;  conditional E-value: 3.4e-62
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHSSTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSTH CS
             ABC_membrane   4 iillailagvlsplfplvlgrildtlldkgdpetealnvysllllllglaqfilallqsyllnvtgerlskrlrrklfkkilrqpm 89 
                              +++++il+ +  ++fp ++  ++d++l+ ++ +   l+     ++ +++++++++ l+ y+++  ger++ +lrr+l+kkil q++
  PHY93_06495|PHY93_06495  23 GMFFLILSSGSTLIFPQLTRWLIDFVLTPKKYDL--LAPAVAGIFCAFVIMGFAGSLRYYFFTLSGERMVLHLRRQLYKKILAQDV 106
                              689************************9899988..************************************************** PP

                              HHHHHSCHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
             ABC_membrane  90 sffdtnsvGellsrltndvsklrdglgeklglffqslltfvgglivmfylgwkltlvllailpliilvsaviakilkklkkkeqka 175
                              +ffd n++G+l+srl++d+ +l++ ++ ++++ +++l++++gg+ +mfy++wkl+ ++l ++p i+l++++++k+++kl+ + q +
  PHY93_06495|PHY93_06495 107 AFFDANRTGDLMSRLSSDCTTLQNTVSVNVSMGLRNLAQVLGGFSFMFYTSWKLSSLMLLMIPPIALSTVFFGKKIRKLSHDFQGT 192
                              ************************************************************************************** PP

                              HHHHHHHHHHHHHTHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSTHHHHH CS
             ABC_membrane 176 vakassvaeEslsgirtVkafgreeyflekfekaleeakkagikkaianglligitqllgllsyalalwfGttlvisgelsvgdlv 261
                              +a+as va E++sgirtVk+f  ee+++ +++  le a+ +++k+ ++ +l++++++++g+ +++++lw+G+++v +g ls+gdl+
  PHY93_06495|PHY93_06495 193 LAEASIVADETISGIRTVKSFVQEEAEVIRYNSRLEIALDRAKKRVKTIALFMTVAMVVGFGAISFVLWYGGHQVVTGVLSIGDLT 278
                              ************************************************************************************** PP

                              HHHHHHHHH CS
             ABC_membrane 262 vflslfail 270
                               fl++++i+
  PHY93_06495|PHY93_06495 279 QFLLYLMIV 287
                              *****9875 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  113.6   0.0     1e-35   9.8e-33       1     137 []     353     502 ..     353     502 .. 0.94

  Alignments for each domain:
  == domain 1  score: 113.6 bits;  conditional E-value: 1e-35
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH....... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren....... 79 
                              lk++++k++ ge++a+vG++G+GK+t+ +l+ + ++ ++Geil+d++d ++ +  slr++ig+++qep l + + +++n       
  PHY93_06495|PHY93_06495 353 LKKINFKINTGEMIALVGPSGSGKTTIGSLIPRFYELNSGEILIDNEDYRNFNPYSLREHIGIVSQEPILISST-IKDNirysrpn 437
                              799****************************************************************9999999.**********9 PP

                              .........HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              .........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 .........esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                                       ++d+++ ++++ +      +t v++++ +LSgGqkqrva+arallk pk+l+lDE+t+
  PHY93_06495|PHY93_06495 438 ateqevrtaARDANALDFIEAFPEGF--NTLVGEKGIQLSGGQKQRVAIARALLKSPKILILDEATS 502
                              88777776666666888888888888..9************************************96 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.1   1.9   4.3e-08   4.1e-05     112     210 ..     395     543 ..     350     550 .. 0.67

  Alignments for each domain:
  == domain 1  score: 23.1 bits;  conditional E-value: 4.3e-08
                              EETTEEE-HHHHHHHHHCTT-STT......................................................CS-HHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxx......................................................xxxxxxxx RF
                    SMC_N 112 kingkevtkkevsellesagiske......................................................lLSgGekt 143
                               i++++ ++ +  +l e+ gi ++                                                      +LSgG+k+
  PHY93_06495|PHY93_06495 395 LIDNEDYRNFNPYSLREHIGIVSQepilisstikdnirysrpnateqevrtaardanaldfieafpegfntlvgekgiQLSGGQKQ 480
                              3333333333333333333333335555555555555566666666666666666666666666666666667777779******* PP

                              HHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTTSEEEEE-SSHHHCCC-SCEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 144 LvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkeksknaQfivislreemlekadklvg 210
                               va+a        k   + +lDe  ++LD +  + v e l++  k    +vi++r  ++++a+k++ 
  PHY93_06495|PHY93_06495 481 RVAIARA----LLKSPKILILDEATSNLDTASESLVQEALNRLMKGRTTLVIAHRLSTIKEANKIFV 543
                              9998754....345566899*******************************************9875 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.8   1.8e-05     0.017       4     112 ..     362     519 ..     359     535 .. 0.65

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 1.8e-05
                   AAA_22   4 tagilvvtGesGtGKTtllrrlleqldeeakaee...........................................erpevv..f 44 
                              t  +++++G+sG+GKTt    + + ++  +   e                                           +       +
  PHY93_06495|PHY93_06495 362 TGEMIALVGPSGSGKTTIGSLIPRFYELNSG--EilidnedyrnfnpyslrehigivsqepilisstikdnirysrpN---ATeqE 442
                              6789*************88877777743222..134666999999999999888888888888888887777764321...22343 PP

                   AAA_22  45 vtlpsst.sskdllrellralglelka...erlsseellealeqalraravielliiDEaqh.lr..s....eealeeL 112
                              v  ++   +  d+ +++ + ++    +   +    +  + a+++al +  +  +li+DEa   l+  s    +eal+ L
  PHY93_06495|PHY93_06495 443 VRTAARDaNALDFIEAFPEGFNTLVGEkgiQLSGGQKQRVAIARALLKSPK--ILILDEATSnLDtaSeslvQEALNRL 519
                              333333346777777777666654444444344444444555555555555..99999999989876345667777776 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0   2.3e-06    0.0022      23     163 ..     362     521 ..     352     528 .. 0.53

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 2.3e-06
                   AAA_16  23 rpelvllsGesGvGKsslvrellralekdggiflrgkcdqlesaipy.....salaqalareellrqlldeaesaeleawreklee 103
                              ++e++ l+G+sG+GK+++   ++r +e +    +  ++++++   py     + ++++     +   ++d+ + + ++a  ++ ++
  PHY93_06495|PHY93_06495 362 TGEMIALVGPSGSGKTTIGSLIPRFYELN-SGEILIDNEDYRNFNPYslrehIGIVSQE-PILISSTIKDNIRYSRPNATEQEVRT 445
                              4589*******************977777.44466666666556888766642244444.21333333333333333333333333 PP

                   AAA_16 104 ala.....................avpelagaeasrllellkrllallsrder............plvlvlDdlq.wadeaslqll 155
                              a++                      + +l+g +                   +            p +l+lD++   +d+as +l 
  PHY93_06495|PHY93_06495 446 AARdanaldfieafpegfntlvgeKGIQLSGGQ-------------------KqrvaiarallksPKILILDEATsNLDTASESLV 512
                              333111122333333333332222222222222...................2333333333333789999999889999999995 PP

                   AAA_16 156 a.aLlrlle 163
                              + aL rl++
  PHY93_06495|PHY93_06495 513 QeALNRLMK 521
                              514444443 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.1   3.5e-06    0.0033      16      84 ..     357     432 ..     351     539 .. 0.80

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 3.5e-06
                   AAA_15  16 dveidlseeltvliGkNnsGKSsilealdlFlnnkekknkkvikiekedleifeniseskdikIdvef............a 84 
                              +++i+  e +  l+G+ +sGK++i  ++  F + +    + +i i++ed+++f+ +s    i I  ++            +
  PHY93_06495|PHY93_06495 357 NFKINTGE-MIALVGPSGSGKTTIGSLIPRFYELN----SGEILIDNEDYRNFNPYSLREHIGIVSQEpilisstikdniR 432
                              36677677.************************88....899***********9999988888877775555444444432 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.0   1.5e-05     0.014      17      59 ..     364     406 ..     351     432 .. 0.89
   2 ?   -1.5   0.0       1.3   1.2e+03      73     111 ..     501     539 ..     497     543 .. 0.66

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1.5e-05
               Zeta_toxin  17 klillgGqpGAGKselaellkdelerqgnvvrldpDdlRelhP 59 
                               +i l+G +G+GK+++ +l+ +  e +++ + +d  d+R++ P
  PHY93_06495|PHY93_06495 364 EMIALVGPSGSGKTTIGSLIPRFYELNSGEILIDNEDYRNFNP 406
                              6899******************9999***************99 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 1.3
               Zeta_toxin  73 seltqkdaselvekllqeaiengyniivegtlrspdvvk 111
                               ++ + ++  lv+++l+ +++ +  +++   l+++ +++
  PHY93_06495|PHY93_06495 501 TSNLDTASESLVQEALNRLMKGRTTLVIAHRLSTIKEAN 539
                              555666777777778888887777777766666666555 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.1   0.9    0.0001     0.099       2     100 ..     367     529 ..     366     548 .. 0.70

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 0.0001
                              EEESSTTSSHHHHHHHHHHHHTHEEEEEETTTCS.SS................................................. CS
                      AAA   2 llyGppGtGKTllakavakelgvefleisgsell.sk................................................. 37 
                               l+Gp G GKT++ + + +       e++  e+l ++                                                 
  PHY93_06495|PHY93_06495 367 ALVGPSGSGKTTIGSLIPRFY-----ELNSGEILiDNedyrnfnpyslrehigivsqepilisstikdnirysrpnateqevrtaa 447
                              699**********99997764.....333333332223333444444444577777777777777888888888888888999999 PP

                              ........................STTHHHHHHHHHHHHHHHTSTSEEEEEETGGGHHHHHTTCCCHHHHHHHHHHHHHHHHTTTS CS
                      AAA  38 ........................yvgesekkirelfkeakekakpsilfiDEidalaksrsgseseeeervvnqLlteldgvkkk 99 
                                                      ++  + +k r  +++a  k+ p+il++DE+ +   +       +e+ v+++L + ++g ++ 
  PHY93_06495|PHY93_06495 448 rdanaldfieafpegfntlvgekgIQLSGGQKQRVAIARALLKS-PKILILDEATSNLDTA------SESLVQEALNRLMKGRTTL 526
                              99999999999999999966666655555555566665555555.9**********99999......7889999999999999885 PP

                              ..S CS
                      AAA 100 ..e 100
                                 
  PHY93_06495|PHY93_06495 527 viA 529
                              443 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.2   0.0   0.00048      0.45      32      63 ..     347     379 ..     327     383 .. 0.83
   2 ?    3.7   0.1     0.048        46     100     147 ..     483     529 ..     470     545 .. 0.74

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00048
                IstB_IS21  32 krkvkeLatlsf.iekkenivllGpsGvGKshl 63 
                              +++v+ L + +f i++ e i+l+GpsG GK+ +
  PHY93_06495|PHY93_06495 347 RANVEVLKKINFkINTGEMIALVGPSGSGKTTI 379
                              5678888888887999**************976 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.048
                IstB_IS21 100 aralkrllkvdllilDdlgllpldqaeaellfeviekryerrsiiits 147
                              a a + l  +++lilD+  + +ld a+++l+ e +++  + r++++ +
  PHY93_06495|PHY93_06495 483 AIARALLKSPKILILDEA-TSNLDTASESLVQEALNRLMKGRTTLVIA 529
                              33344455669*****95.689*********99999998776666544 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.5   0.1   2.4e-05     0.023      16      38 ..     357     379 ..     348     380 .. 0.83

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 2.4e-05
                   AAA_29  16 tieidlkgatlltGpsGsGKSTl 38 
                               ++i++ +++ l+GpsGsGK+T+
  PHY93_06495|PHY93_06495 357 NFKINTGEMIALVGPSGSGKTTI 379
                              57788777**************8 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0   4.2e-05     0.039       1      45 [.     366     408 ..     366     456 .. 0.81

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 4.2e-05
                   AAA_18   1 IlltGtpGvGKttlakeLskrlgfgvnlrdvakenglllevdpea 45 
                              I+l G++G+GKtt++  + +   +  n+++++ +n+ +  ++p+ 
  PHY93_06495|PHY93_06495 366 IALVGPSGSGKTTIGSLIPRF--YELNSGEILIDNEDYRNFNPYS 408
                              89***************9554..3778888888888777777773 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.1   0.00012      0.11      11     149 ..     360     519 ..     350     530 .. 0.71

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 0.00012
                              HHTTCEEEEEESTTSSHHHH.HHHHHHHHHHHS...............TTSTS-EEEEEESSHHHHHHHHHHHHHHTTT..STSEE CS
                              xxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxx...............xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxx RF
                     DEAD  11 ilgggdvlvaaeTGsGKTla.flipvlqivyet...............kgktgpkalivePtreLaeqtlnnlkkfkky..idlrv 78 
                              i +g+ + + ++ GsGKT++  lip + ++ +                    +  + iv+    L+  t+++  ++  +  ++ +v
  PHY93_06495|PHY93_06495 360 INTGEMIALVGPSGSGKTTIgSLIPRFYELNSGeilidnedyrnfnpyS--LREHIGIVSQEPILISSTIKDNIRYSRPnaTEQEV 443
                              4578899999********9955677777775548887777776666332..33455566667778888888877777763233444 PP

                              EEEETTSSHHHHHHHHHTTCSEEEEEHHHHHHHHHCTSSH.....CTTEEEEEEETHHHHHHTTTHHHHHHHHHHS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  79 lliiggvaardqlskldngvdivvgtpgrlddllstgkln.....lsqvrflVlDEadrlldqgfsdfinrilnql 149
                                   + +a d ++++ +g + +vg  g  ++  +++++      l++ ++l+lDEa   ld   +  +++ ln+l
  PHY93_06495|PHY93_06495 444 RTAARDANALDFIEAFPEGFNTLVGEKGIQLSGGQKQRVAiaralLKSPKILILDEATSNLDTASESLVQEALNRL 519
                              44455566666667777889999999988888665555444577799****************9999999999998 PP

>> DUF3584  Protein of unknown function (DUF3584)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0     7e-05     0.066      19      62 ..     365     409 ..     358     414 .. 0.85

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 7e-05
                  DUF3584  19 htnieGtNaaGKTtLlrLiPlFYGeePsrivskt.grksfedyyL 62 
                                 ++G  ++GKTt+ +LiP FY  +  +i+  +    +f+ y L
  PHY93_06495|PHY93_06495 365 MIALVGPSGSGKTTIGSLIPRFYELNSGEILIDNeDYRNFNPYSL 409
                              56789999***************9999999988888888888876 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   0.00013      0.12      80     119 ..     343     383 ..     321     400 .. 0.74

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00013
                              EE--TTTHTTHHHHHHHCTT.SEEEEECSTTSSHHHHHHHH CS
              RsgA_GTPase  80 llvsaktkegleelkellkd.ktsvlvGqSGvGKStLinal 119
                              ++    + e l++++ +++  ++++lvG+SG GK+t+   +
  PHY93_06495|PHY93_06495 343 CYPMRANVEVLKKINFKINTgEMIALVGPSGSGKTTIGSLI 383
                              555555678899999999988**************975544 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   0.00012      0.12       3      29 ..     364     389 ..     362     513 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00012
                   AAA_24   3 lkiliyGpsgiGKTtlakelgpkplfi 29 
                               +i+++Gpsg+GKTt+ + + p++  +
  PHY93_06495|PHY93_06495 364 EMIALVGPSGSGKTTIGSLI-PRFYEL 389
                              589*************9999.887665 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.6   0.0    0.0039       3.6       3      23 ..     367     387 ..     365     400 .. 0.79
   2 ?    2.5   0.0      0.14   1.3e+02      63      97 ..     489     528 ..     426     553 .. 0.75

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.0039
                              EEE--SSSSHHHHHHHGGGGB CS
                    AAA_5   3 lLvGppGtgKselaerlaaal 23 
                               LvGp+G+gK+++   + +++
  PHY93_06495|PHY93_06495 367 ALVGPSGSGKTTIGSLIPRFY 387
                              59**********988887766 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.14
                              --G-SEEEEES....GGG--.HHHHHHHHHHHHSSEEE.. CS
                    AAA_5  63 aregeilvlDE....verae.sevlnsLlslleerrllle 97 
                               ++++il+lDE    +++a+ s v+++L++l+  r+ l+ 
  PHY93_06495|PHY93_06495 489 LKSPKILILDEatsnLDTASeSLVQEALNRLMKGRTTLVI 528
                              3499999***933334566667788889988888877655 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.1   0.00048      0.45      19      50 ..     364     395 ..     357     527 .. 0.71

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00048
                   AAA_30  19 rvavltGpAGtGKttalkalreaweaaggrvi 50 
                               + +l+Gp G+GKtt+ + + + +e + g+++
  PHY93_06495|PHY93_06495 364 EMIALVGPSGSGKTTIGSLIPRFYELNSGEIL 395
                              48899***********9999999987755554 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0   0.4    0.0012       1.1       2      22 ..     366     386 ..     365     444 .. 0.77
   2 ?    0.6   0.0      0.41   3.9e+02     237     292 ..     474     526 ..     472     530 .. 0.68

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.0012
                   AAA_21   2 nvliGpNgsGKSnLLdaldll 22 
                               +l+Gp gsGK+++  ++  +
  PHY93_06495|PHY93_06495 366 IALVGPSGSGKTTIGSLIPRF 386
                              68************8888444 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.41
                   AAA_21 237 lSdGtkrllalltallralkkgsllliDEpEngLHPkllrrll.ellkelsrngaQv 292
                              lS G+k+  a++ all  +   ++l++DE  ++L+  + ++l+ e l++l ++++ +
  PHY93_06495|PHY93_06495 474 LSGGQKQRVAIARALLKSP---KILILDEATSNLDT-ASESLVqEALNRLMKGRTTL 526
                              6777777767777777666...9******9999998.55555546666666655555 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.7    0.0004      0.37      14      35 ..     355     379 ..     349     383 .. 0.86
   2 ?   -2.9   0.0       8.5   8.1e+03      89     112 ..     430     453 ..     392     521 .. 0.59

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.0004
                   AAA_23  14 eidF...skgltlItGpNGaGKTTi 35 
                              +i+F      + +++Gp G+GKTTi
  PHY93_06495|PHY93_06495 355 KINFkinTGEMIALVGPSGSGKTTI 379
                              578877666899************9 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 8.5
                   AAA_23  89 siererelskkkgkttkkaklell 112
                              +i+++r+++ +++++t   + + l
  PHY93_06495|PHY93_06495 430 NIRYSRPNATEQEVRTAARDANAL 453
                              345555554444444443333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (573 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       706  (0.0393775); expected 358.6 (0.02)
Passed bias filter:                      499  (0.027832); expected 358.6 (0.02)
Passed Vit filter:                        86  (0.0047967); expected 17.9 (0.001)
Passed Fwd filter:                        21  (0.00117129); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              19  [number of targets reported over threshold]
# CPU time: 0.74u 0.28s 00:00:01.02 Elapsed: 00:00:00.45
# Mc/sec: 3817.83
//
Query:       PHY93_06500|PHY93_06500  [L=235]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.5e-34  118.2   0.7    2.6e-34  117.4   0.7    1.4  1  DUF1003   Protein of unknown function (DUF1003)
  ------ inclusion threshold ------
      0.017   14.5   0.2      0.031   13.7   0.2    1.3  1  Rtf2      Rtf2 RING-finger
      0.041   12.7   0.1      0.047   12.5   0.1    1.1  1  DUF2207   Predicted membrane protein (DUF2207)
       0.14   12.3   0.2       0.14   12.3   0.2    1.7  2  zf-CRD    Cysteine rich domain with multizinc binding regions


Domain annotation for each model (and alignments):
>> DUF1003  Protein of unknown function (DUF1003)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  117.4   0.7   5.8e-38   2.6e-34       1     101 [.     120     217 ..     120     220 .. 0.97

  Alignments for each domain:
  == domain 1  score: 117.4 bits;  conditional E-value: 5.8e-38
                  DUF1003   1 mGsakFlvlftaivilWialnllvlpglkpfDpypFillnlvlslqaalaaplIllsqnRqadrdrvraeedrqvnlkaeaeiekL 86 
                              +Gs++F++lf++ + +W+++n      + +fDpyp+illnl+ls++a+l+ap+I++sqnR +  dr+++e+d++vnlk+e ei+ L
  PHY93_06500|PHY93_06500 120 GGSWTFIILFAISLSIWVIWNSA---AQVRFDPYPYILLNLFLSCLASLQAPIIMMSQNRLQVYDRLSQEQDFKVNLKSEVEIRVL 202
                              6********************88...69********************************************************** PP

                  DUF1003  87 trevaalrealgeva 101
                               +++++l +++++++
  PHY93_06500|PHY93_06500 203 NEKIDKLISHQWQRL 217
                              ***********9986 PP

>> Rtf2  Rtf2 RING-finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.2   6.8e-06     0.031     144     170 ..       4      30 ..       2      40 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 6.8e-06
                     Rtf2 144 alkevksevClvCgkeykeedviplnp 170
                               lke k+++C+vC+k+y+ ++++pl  
  PHY93_06500|PHY93_06500   4 NLKEKKQNQCSVCEKKYSLKQIVPLAT 30 
                              699*********************975 PP

>> DUF2207  Predicted membrane protein (DUF2207)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.1     1e-05     0.047     294     436 ..      58     174 ..      18     203 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 1e-05
                  DUF2207 294 ekkkkkkgkdtltilkkndeeldpyEkalldlLfdkseegkslkeikkyakkskkkakkfkkalkkwksavkkkergyfdkkgkkk 379
                               +k + +   + ++ ++++++l++ E+ ++++L                      +++ ++k+l+++  +        f ++ + k
  PHY93_06500|PHY93_06500  58 LNKVRREYF-K-QLIREEKGDLTEVENSVVNALE---------------------EHDVVSKNLNQFDPKAGT-----FGERLSDK 115
                              433333322.2.6777778888888888888888.....................999999999999996666.....99999*** PP

                  DUF2207 380 lkklsalglgliilglilillallllvll..lvfllilllillliaiivlllfsrllgr 436
                              +++++  ++++i++++ l++++++  ++   + ++ ++ll l+l +++ l  + +++++
  PHY93_06500|PHY93_06500 116 IARFGGSWTFIILFAISLSIWVIWNSAAQvrFDPYPYILLNLFLSCLASLQAPIIMMSQ 174
                              **********************9998887776666666666666666666555555544 PP

>> zf-CRD  Cysteine rich domain with multizinc binding regions
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.2   3.1e-05      0.14      30     127 ..       1      99 [.       1     112 [. 0.69
   2 ?   -1.5   0.2      0.52   2.3e+03      86      96 ..     196     206 ..     161     235 .] 0.51

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 3.1e-05
                   zf-CRD  30 mPkrpeagvpqqCelCkrpfCnlYw...kgcsraecsglLkpieekliekipeevlegneveqkilkdylaekgltlqdvlkevle 112
                              mP+  + ++++qC++C++++         +++ +  + +Lk+  +  ie+      + n+v+++ +k+ ++e++  l++v + v++
  PHY93_06500|PHY93_06500   1 MPENLKEKKQNQCSVCEKKYSLKQIvplATIRDSLLNFVLKNNPNVDIENGYICFNDLNKVRREYFKQLIREEKGDLTEVENSVVN 86 
                              888855677788*******97554434434444444444544433333333334445699************************** PP

                   zf-CRD 113 kldkgelkrtrkkln 127
                              +l+++++  ++k+ln
  PHY93_06500|PHY93_06500  87 ALEEHDV--VSKNLN 99 
                              ***9885..444444 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 0.52
                   zf-CRD  86 eveqkilkdyl 96 
                              eve+++l++ +
  PHY93_06500|PHY93_06500 196 EVEIRVLNEKI 206
                              34444443322 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (235 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1259  (0.0702214); expected 358.6 (0.02)
Passed bias filter:                      661  (0.0368676); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.42
# Mc/sec: 1679.97
//
Query:       PHY93_06505|PHY93_06505  [L=434]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    5.4e-16   59.1   0.0    1.2e-15   58.0   0.0    1.6  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    1.6e-08   34.4   0.5    4.6e-08   33.0   0.1    2.0  2  HisKA        His Kinase A (phospho-acceptor) domain
    1.9e-08   34.7   0.0    3.2e-08   34.0   0.0    1.4  1  GAF_2        GAF domain
    1.1e-06   29.3   0.0    1.9e-06   28.6   0.0    1.4  1  GAF          GAF domain
    1.1e-06   28.4   0.0    2.9e-06   27.1   0.0    1.7  1  HATPase_c_5  GHKL domain
    0.00046   20.0   0.0    0.00099   19.0   0.0    1.5  1  HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like


Domain annotation for each model (and alignments):
>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.0   0.0   3.9e-19   1.2e-15       4     112 .]     322     428 ..     319     428 .. 0.87

  Alignments for each domain:
  == domain 1  score: 58.0 bits;  conditional E-value: 3.9e-19
                              HHHHHHHHHHHHHHHHHHSTTTEEEEEEEE...EETEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHHHH CS
                HATPase_c   4 krLrqiisnlvdNavkfatkageieveika...seddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkklve 86 
                               ++ q+++ l+dN+ ++ +k+++ ++ i++   + ++++++++D+G Gip ++++k++ ++ +   tk+ +  tGlGls++++l++
  PHY93_06505|PHY93_06505 322 VQIFQVLISLLDNSYEAISKSENPWILIHVmqyD-QKIRLEITDSGNGIPTSIVEKIMVPLFT---TKVHSRATGLGLSVSQALIQ 403
                              6789************967888888888884444.6***********************7777...699999***********888 PP

                              HTTTEEEEEEETTTEEEEEEEEESSC CS
                HATPase_c  87 lmgGeiwvesepgrGttftftlplek 112
                               + G+iw+ +++ + t+f+++lple+
  PHY93_06505|PHY93_06505 404 EHSGKIWY-DKSCHRTRFVIELPLEQ 428
                              8*******.666679********985 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0         1   3.1e+03      12      25 ..      34      47 ..      21      58 .. 0.67
   2 !   33.0   0.1   1.5e-11   4.6e-08       2      64 ..     208     274 ..     207     277 .. 0.91

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 1
                             HHHHHHHHHHHHHH CS
                    HisKA 12 ELrtPLsailgnae 25
                             EL+  L++il  ae
  PHY93_06505|PHY93_06505 34 ELKSILNVILTHAE 47
                             45555555555554 PP

  == domain 2  score: 33.0 bits;  conditional E-value: 1.5e-11
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHC......T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCH CS
                    HisKA   2 lgrflagvaHELrtPLsailgnaeaLkre....gklteelkeyletiesearrldhlvedlLdlsri 64 
                               g+++ +++HE + PL+ i+g ++ + r     g++   l+   +++e+++ r++++v+ l  l+r+
  PHY93_06505|PHY93_06505 208 VGEMAKNISHEVNSPLAIIRGSVHQMNRIidqpGDNKVTLRMHTARLERSVVRIEKIVKGLSSLTRE 274
                              6899**********************99999997888**********************99887775 PP

>> GAF_2  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.0   0.0   1.1e-11   3.2e-08       3     138 .]      34     177 ..      32     177 .. 0.80

  Alignments for each domain:
  == domain 1  score: 34.0 bits;  conditional E-value: 1.1e-11
                              HHHHHHHHHHHHHHH.S.S..EEEEEEE-TTS-.EEEE..EEEES-TTSTT-S-B...---TTHHHHHHHHTS-EEES-GGG-S-H CS
                    GAF_2   3 dleelldlvldelve.l.gaalgyillvdddgg.lrla..awgeaeeefgaaldr...plgeglvgealrtgrpvilndleedpdk 80 
                              +l+++l+ +l +++  l + ++  ill++++ + l  +  a+   +e+f ++++     + +g +g a+  +  +++ d+ +dp +
  PHY93_06505|PHY93_06505  34 ELKSILNVILTHAEGkLpQTQA-LILLYNENSKcL--LfgAAPSLPESFVQKVHGiqiGPTAGCCGSAAYFKSTTVVRDTLSDPLW 116
                              6889999999999777955665.555555555533..135444444444444444433778888********************** PP

                              HHHH..HHHHTT--EEEEEE-T.TS---EEEEES......--HHHHHHHHHHHHHHHHHHH CS
                    GAF_2  81 kglp..aghaglrsflavPlis.egrvvGvlnlyankppafdeedlelLeelaeqiaiaie 138
                               ++   a + glr++++vP++  +g+++G ++ly++k ++ ++ +  l++el + + +aie
  PHY93_06505|PHY93_06505 117 ASYIglAKEYGLRACWSVPILNmKGELLGTFALYYKKTHKPTQKETILVKELIDIACLAIE 177
                              ****99999********************************************99999997 PP

>> GAF  GAF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.6   0.0   6.3e-10   1.9e-06      43     119 ..      86     162 ..      35     176 .. 0.77

  Alignments for each domain:
  == domain 1  score: 28.6 bits;  conditional E-value: 6.3e-10
                              EEEETTSHHHHHHHHHSSSEEESTGGTSTTHHTTHHHHHHHHTTESEEEEEEEEE.TTEEEEEEEEEESSS.CSHHHHH CS
                      GAF  43 lfmkngrgicgqvlatgqplvipdstpdprfaqynrrdllenmgirsslvvPlvn.dgelwGllvlhnpsp.pftreel 119
                              + + +  g cg ++  + + v+ d+  dp +a   +  l++++g r++ +vP++n +gel+G+++l+ +++ + t+ e 
  PHY93_06505|PHY93_06505  86 IQIGPTAGCCGSAAYFKSTTVVRDTLSDPLWAS--YIGLAKEYGLRACWSVPILNmKGELLGTFALYYKKThKPTQKET 162
                              44455566789888889999999999*******..778999**************************955532255554 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.1   0.0   9.7e-10   2.9e-06       4      91 ..     322     415 ..     319     426 .. 0.83

  Alignments for each domain:
  == domain 1  score: 27.1 bits;  conditional E-value: 9.7e-10
              HATPase_c_5   4 ldlcvilgnlLdNAieacskieeekrfIrltvrekkksliisieNsyeg......ek..kklesskskkeehGiGlksireivkky 81 
                              + +  +l  lLdN++ea sk e  ++ I ++v + ++++ ++i+ s +g      ek    l+++k +++  G+Gl+  + +++++
  PHY93_06505|PHY93_06505 322 VQIFQVLISLLDNSYEAISKSE--NPWILIHVMQYDQKIRLEITDSGNGiptsivEKimVPLFTTKVHSRATGLGLSVSQALIQEH 405
                              678889999***********99..9*******************998887766552223445699********************* PP

              HATPase_c_5  82 kgnlsieaed 91 
                              +g+++++++ 
  PHY93_06505|PHY93_06505 406 SGKIWYDKSC 415
                              ****988654 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.0   0.0   3.3e-07   0.00099       5      68 ..     326     391 ..     322     398 .. 0.85

  Alignments for each domain:
  == domain 1  score: 19.0 bits;  conditional E-value: 3.3e-07
              HATPase_c_3   5 kAlaelvdNsldAdaen....vkievnknrgktgeivieDdGkGmseeelknalrlatsskeakrkst 68 
                              ++l+ l+dNs++A +++    + i+v + + ++ ++ i+D G+G++ + +++ + +  ++k + + +t
  PHY93_06505|PHY93_06505 326 QVLISLLDNSYEAISKSenpwILIHVMQYD-QKIRLEITDSGNGIPTSIVEKIMVPLFTTKVH-SRAT 391
                              68999********999999**999999986.689******************99988888874.3444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (434 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       478  (0.0266607); expected 358.6 (0.02)
Passed bias filter:                      342  (0.0190752); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.42
# Mc/sec: 3083.11
//
Query:       PHY93_05435|PHY93_05435  [L=224]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    3.3e-10   40.3   0.8    1.7e-09   38.0   0.8    1.9  1  HAD_2      Haloacid dehalogenase-like hydrolase
    3.3e-06   27.5   0.0    9.5e-06   26.0   0.0    1.7  1  Hydrolase  haloacid dehalogenase-like hydrolase
  ------ inclusion threshold ------
        0.1   13.1   0.1       0.25   11.9   0.1    1.6  1  Colicin_K  Colicin-K


Domain annotation for each model (and alignments):
>> HAD_2  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.0   0.8   2.8e-13   1.7e-09      39     177 ..      58     203 ..      11     204 .. 0.77

  Alignments for each domain:
  == domain 1  score: 38.0 bits;  conditional E-value: 2.8e-13
                    HAD_2  39 kliglslrellrklgeseeeee......kieellrkyneekkk..kevkpydgvkelLeeLkeagyklgivTsksreaveekleql 116
                              k+i +++++++ +l+e  + +       ki+ l  ++ e  +    + ++y++v  +Le+ k+a+++lgi +s+s ea++  +   
  PHY93_05435|PHY93_05435  58 KKIQIDDEQSIAQLIEWIRIDRkhpslkKIQGL--IWSEGYNSgeLKGHVYQDVPVALEKWKNANISLGIYSSGSVEAQKVLFGYS 141
                              455555555555555554444455555544444..333333333345899*************************99999988888 PP

                    HAD_2 117 giesyFdvivtsedve.kkKPdpeviekaleklklkkeeviyvGDsptDieaakkagikvia 177
                                 ++ ++i    d++ ++K d ++++++ ++lkl+++e+++  D +  + aakkag+k+i 
  PHY93_05435|PHY93_05435 142 IYGDLNHFISNNFDTSiGHKRDENSYLNISKELKLDPKEILFLSDISEELDAAKKAGLKTIQ 203
                              888888888877665426799**************************************995 PP

>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.0   0.0   1.6e-09   9.5e-06       1     210 []       1     198 [.       1     198 [. 0.66

  Alignments for each domain:
  == domain 1  score: 26.0 bits;  conditional E-value: 1.6e-09
                              SSEEEEESBTTTBCHHHHHHHHHHHHCHHHHHHHHHH.HHCHHHHHHHHHHHHHHHHHHHHHHETTTEHHHHTHHHHHHHHHCHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase   1 iktvvfDkdGTLttgepsvedvivsaalalaaaletg.sehpigkalvaaakarsgaltgfatfigrgayaigkpewltaldippd 85 
                              +k +++D+ GT t  + ++  ++++ +  +a  + +  +e  i   lv+  k +          +++ +++i  ++ +++l i+  
  PHY93_05435|PHY93_05435   1 MKYILMDIEGTTTSISFVHDILFPYSKDRIASYIKLHrNEETIKDILVETKKTV----------AEEKKIQIDDEQSIAQL-IEWI 75 
                              68899********99988888888882222222222233333333334444443..........22223444444433333.3333 PP

                              HHHHHHHHHHHCHHHHHHTTHHHHHHHHHHTHHBHTTHHHHHHHHHHTTEEEEEEESSEHHHHHHHHHH..TT.GGGE.SEEEEHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xx.xxxx.xxxxxxx RF
                Hydrolase  86 lgaaigsaqsqgrtvallqaralavftiadplkvkpeaaeavasLkaagievvlltgdnpetaeraanq..lG.ddyf.daviasd 167
                                ++ +   ++ +  ++   + +   +++    v++++  a++++k a+i +++ ++++ e ++ +     +G  ++f +++++++
  PHY93_05435|PHY93_05435  76 RIDRKHPSLKKIQGLIWS--EGYNSGELKGH--VYQDVPVALEKWKNANISLGIYSSGSVEAQKVLFGYsiYGdLNHFiSNNFDTS 157
                              333556666666666777..44444444445..***************************99994443325776444445555555 PP

                              CESSTTTSHHHHHHHHHHHTSTGGGEEEEESSHHHHHHHHHTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 168 ietvakpspegkvaaireLqgkpeevamVGDgvnDaaalaaAg 210
                              i    k + + ++ + +eL+ +p+e+++  D    + a+++Ag
  PHY93_05435|PHY93_05435 158 IG--HKRDENSYLNISKELKLDPKEILFLSDISEELDAAKKAG 198
                              55..599**********************************98 PP

>> Colicin_K  Colicin-K
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.1   4.2e-05      0.25      35      57 ..      14      36 ..       3      47 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 4.2e-05
                Colicin_K 35 fiasihvllypyskltifsfike 57
                              i+ +h +l+pysk  i s+ik 
  PHY93_05435|PHY93_05435 14 SISFVHDILFPYSKDRIASYIKL 36
                             57889****************85 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (224 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       775  (0.0432261); expected 358.6 (0.02)
Passed bias filter:                      472  (0.0263261); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.42
# Mc/sec: 1615.05
//
Query:       PHY93_06510|PHY93_06510  [L=406]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      2e-25   89.6   0.0    2.7e-25   89.1   0.0    1.1  1  Methyltrans_SAM  S-adenosylmethionine-dependent methyltransfe
    2.1e-07   30.7   0.0    3.4e-07   30.1   0.0    1.3  1  Cons_hypoth95    Conserved hypothetical protein 95
    7.1e-07   29.2   0.1    9.9e-07   28.7   0.1    1.2  1  Met_10           Met-10+ like-protein
      2e-05   24.4   0.0    3.5e-05   23.6   0.0    1.4  1  Methyltransf_31  Methyltransferase domain
    2.9e-05   23.8   0.0     0.0001   22.0   0.0    2.0  2  PUA_3            PUA-like domain
    0.00027   20.5   0.0    0.00039   20.0   0.0    1.3  1  MTS              Methyltransferase small domain
     0.0024   17.3   0.0     0.0046   16.4   0.0    1.4  1  PrmA             Ribosomal protein L11 methyltransferase (Prm
  ------ inclusion threshold ------
      0.043   13.4   0.0      0.076   12.6   0.0    1.4  1  Methyltransf_15  RNA cap guanine-N2 methyltransferase
       0.17   12.6   0.0       0.37   11.5   0.0    1.7  1  Methyltransf_25  Methyltransferase domain


Domain annotation for each model (and alignments):
>> Methyltrans_SAM  S-adenosylmethionine-dependent methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   89.1   0.0   1.4e-28   2.7e-25      62     253 ..     172     366 ..     132     373 .. 0.87

  Alignments for each domain:
  == domain 1  score: 89.1 bits;  conditional E-value: 1.4e-28
          Methyltrans_SAM  62 slvlqhryadgaasevlvgeldespvvvesglkyqldigrnqnfglfldmrlgrdwvqenakdknvlnlfaytcgfsvaaiaggas 147
                              ++  + r  d+     ++g+l+e+ + +e+g  +  +i    ++g+fld r  r+ + + +++k vlnlf+yt gfsv a  gga+
  PHY93_06510|PHY93_06510 172 TVYYKRRNDDEVKGIEIYGHLKEEVIFKENGSLFATNIRDAAKTGFFLDQRDNRKLIGQFSHQKSVLNLFSYTAGFSVFAAKGGAR 257
                              455566667777778899******************************************************************** PP

          Methyltrans_SAM 148 kvvnvdmargs.lnkgrdnhrlnghdlrrvsflgydifkswgkikksgpydlviidppsf...qkgsfaltkdykkilrrlpellv 229
                              +v  vd+++++ l+ gr n  +ng + ++ ++    ++    +ik + ++d+vi dppsf   qk   +  + y ki+ +  +l+ 
  PHY93_06510|PHY93_06510 258 EVTSVDISKAAtLAAGR-NFEVNGLKTKHEAIAQDAFLFIDERIKEKAKWDMVITDPPSFapnQKSVETAIEAYVKIFSQSLKLVN 342
                              *********86266666.899***9988766555555556689*****************777788888899************** PP

          Methyltrans_SAM 230 eggevlacvnspavspdflieema 253
                              + g   a   s  +s+d ++e   
  PHY93_06510|PHY93_06510 343 PNGLFAASSCSSHISTDKFLEICR 366
                              ********99*****999988655 PP

>> Cons_hypoth95  Conserved hypothetical protein 95
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.1   0.0   1.7e-10   3.4e-07      37     133 ..     229     327 ..     223     374 .. 0.85

  Alignments for each domain:
  == domain 1  score: 30.1 bits;  conditional E-value: 1.7e-10
                              CCCHCC-EEEETT-TTSHHHHHHHHTT-SEEEEEES-HHHHHHHHHHHCCCT--TTTEEEEES-HHHHCTS--SS-EEEEEEE--S CS
            Cons_hypoth95  37 aaeiegarvLDlfaGsGalglEAlSRgakkavlvekdkeavkilkenleelkleeetaelkedaleallklakkkeefdivflDPP 122
                              ++  ++++vL+lf+ +++ ++ A+  ga++++ v+ +k+a  +  +n e  +l+ +++++ +da+  ++++ k+k++ d+v  DPP
  PHY93_06510|PHY93_06510 229 GQFSHQKSVLNLFSYTAGFSVFAAKGGAREVTSVDISKAATLAAGRNFEVNGLKTKHEAIAQDAFLFIDERIKEKAKWDMVITDPP 314
                              55678999****************************************************************************** PP

                              .SSTTCH..HHHH CS
            Cons_hypoth95 123 .yakell.ieevl 133
                               +a ++  +e+++
  PHY93_06510|PHY93_06510 315 sFAPNQKsVETAI 327
                              6555443333333 PP

>> Met_10  Met-10+ like-protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.7   0.1     5e-10   9.9e-07      17     169 ..     152     301 ..     135     338 .. 0.82

  Alignments for each domain:
  == domain 1  score: 28.7 bits;  conditional E-value: 5e-10
                              TSSHHHHHHHHHHHHHSS-SCEEEE-S-SBTTTTB--EEEEEES-.SEEEEEETTEEEEE...ETTTS---GGGHHHHHHHHTT-- CS
                   Met_10  17 elkeykkvigevildktkvktvlrkvsevegefRtfelevlaGsdstetihkEngcrfkl...DvskvyfsskleaErerlaklve 99 
                              ++ +++ + +++i d+ ++ktv+ k+ + + e++  e   ++G+ + e+i kEng+ f     D +k  f      + ++l+ +++
  PHY93_06510|PHY93_06510 152 KFWNHQGIAAKLIQDFPNLKTVYYKRRN-DDEVKGIE---IYGHLKEEVIFKENGSLFATnirDAAKTGFFLDQR-DNRKLIGQFS 232
                              34456777788999999********999.66666554...8**999************97334677887876655.5568999*** PP

                              TT-EEEETT-TTTCCHHHCCHHTTSSEEEEEES-HHHHHHHHHHHHHTT-TTCEEEEES-GGG---TT-E CS
                   Met_10 100 egevVvdvfAGiGpfaipiakyskakrvlaidlnPesvkylkeniklNkvekvvkpileDgrevireqla 169
                              + + V+++f     f++ +ak + a++v ++d+  ++     +n + N ++ + ++i +D+  +i e + 
  PHY93_06510|PHY93_06510 233 HQKSVLNLFSYTAGFSVFAAK-GGAREVTSVDISKAATLAAGRNFEVNGLKTKHEAIAQDAFLFIDERIK 301
                              ********************9.99************************************9999875544 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.6   0.0   1.8e-08   3.5e-05      18     125 ..     248     368 ..     232     394 .. 0.79

  Alignments for each domain:
  == domain 1  score: 23.6 bits;  conditional E-value: 1.8e-08
          Methyltransf_31  18 tfelaeelgpkaevvGiDiseeaielArenaqklgld.nveFeqgdiee.lekl.ledekfDlilsn.........evlnaladpd 91 
                              +  +a   g   ev+++Dis+ a   A  n + +gl+   e  ++d++  +++   e++k D+++++         +v  a+ +  
  PHY93_06510|PHY93_06510 248 SVFAA--KGGAREVTSVDISKAATLAAGRNFEVNGLKtKHEAIAQDAFLfIDERiKEKAKWDMVITDppsfapnqkSVETAIEAYV 331
                              44444..455678************************9***************99999*********77666665444499***** PP

          Methyltransf_31  92 kileeiervlkpggilliedpr...llaelpakveee 125
                              ki+ +  ++++p+g +++++++     ++++++ +e+
  PHY93_06510|PHY93_06510 332 KIFSQSLKLVNPNGLFAASSCSshiSTDKFLEICRES 368
                              **********************554344444444444 PP

>> PUA_3  PUA-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.0   0.0   5.3e-08    0.0001       6      62 ..      23      76 ..      18      78 .. 0.84
   2 ?   -2.9   0.0       3.1   6.2e+03      27      41 ..     125     139 ..     107     140 .. 0.75

  Alignments for each domain:
  == domain 1  score: 22.0 bits;  conditional E-value: 5.3e-08
                    PUA_3  6 kaekrlrqGhPwvfsneiasvegeledGdvVdvfsekgkflGtGyynpqskiavRil 62
                                k l++Gh w+f++ +++ e      +   +  ++++ lG G++ p+ + + R+l
  PHY93_06510|PHY93_06510 23 DVSKHLKRGHRWIFADCFDQKER---HQEGLSILKSRNEVLGFGIVQPDTQLRFRVL 76
                             66899*****************5...3444555556********************9 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 3.1
                    PUA_3  27 egeledGdvVdvfse 41 
                              eg+  +G +Vd++++
  PHY93_06510|PHY93_06510 125 EGDGMPGLIVDIYDD 139
                              445668999999985 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.0   0.0     2e-07   0.00039      46     134 ..     248     346 ..     195     372 .. 0.73

  Alignments for each domain:
  == domain 1  score: 20.0 bits;  conditional E-value: 2e-07
                              HHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHTTGC..EEEEE-STT....TTST.TS-EEEEEE---STTTC....HCHHHHHHH CS
                      MTS  46 gaalakespeaevtlvdvdarAlesakenleankle..vevvasdvl....eeve.ekkfdlivsNPPfhagk....atelavaee 120
                              ++ +ak     evt vd++++A  +a +n+e n+l+   e++a+d++    e ++ ++k d++++ PP  a +    +t  ++  +
  PHY93_06510|PHY93_06510 248 SVFAAK-GGAREVTSVDISKAATLAAGRNFEVNGLKtkHEAIAQDAFlfidERIKeKAKWDMVITDPPSFAPNqksvETAIEAYVK 332
                              444444.55569***********************999899999975333255553679*********654441111344455667 PP

                              HHHHHHHHEEEEEE CS
                      MTS 121 liaeAkeaLkegGe 134
                              ++ ++ +  +++G 
  PHY93_06510|PHY93_06510 333 IFSQSLKLVNPNGL 346
                              88888888888885 PP

>> PrmA  Ribosomal protein L11 methyltransferase (PrmA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.0   2.3e-06    0.0046     175     231 ..     247     310 ..     226     312 .. 0.75

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 2.3e-06
                     PrmA 175 LaiaaakLgakkvvavDiDevAvkvakeNaelNkveaklevalseell........keekadviv 231
                               ++ aak ga++v+ vDi + A  +a +N+e+N++++k e ++ ++++        +++k d+++
  PHY93_06510|PHY93_06510 247 FSVFAAKGGAREVTSVDISKAATLAAGRNFEVNGLKTKHEAIA-QDAFlfiderikEKAKWDMVI 310
                              68899****************************9999777643.222223332222467777776 PP

>> Methyltransf_15  RNA cap guanine-N2 methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   3.8e-05     0.076       3      81 ..     236     315 ..     234     325 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 3.8e-05
          Methyltransf_15   3 vilDlfsGaGGnviqfalv.fekviaieinleklacaqhNaevYgvsdkitlvlgdvfellaklklekikvdlvflSpPw 81 
                               +l lfs + G ++  a+   ++v +++i++     a +N ev g + k   +  d f  + +   ek+k d+v++ pP 
  PHY93_06510|PHY93_06510 236 SVLNLFSYTAGFSVFAAKGgAREVTSVDISKAATLAAGRNFEVNGLKTKHEAIAQDAFLFIDERIKEKAKWDMVITDPPS 315
                              57888887777666555554678***************************************9999999**********7 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   0.00018      0.37      11      70 ..     247     311 ..     237     345 .. 0.70

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00018
                              HHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTT..TEEEEESBC.....CGBSSSTTTEEEEEE CS
          Methyltransf_25  11 ltlalakrlgkakvtgvDiseemleaareraeeegl..nvefvqgda.....edlpfedgsfDlvvs 70 
                              ++  +ak  g+ +vt vDis+++  aa +++e +gl  + e + +da     e++  e+++ D+v+ 
  PHY93_06510|PHY93_06510 247 FSVFAAKG-GAREVTSVDISKAATLAAGRNFEVNGLktKHEAIAQDAflfidERI-KEKAKWDMVIT 311
                              55555555.79********************999998888888888854442223.36668888887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (406 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       558  (0.0311228); expected 358.6 (0.02)
Passed bias filter:                      467  (0.0260472); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.58u 0.24s 00:00:00.82 Elapsed: 00:00:00.41
# Mc/sec: 2937.46
//
Query:       PHY93_06515|PHY93_06515  [L=672]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.9e-47  161.5   0.0    2.9e-47  160.9   0.0    1.2  1  Peptidase_S9    Prolyl oligopeptidase family
    5.2e-15   55.2   5.8    3.8e-14   52.3   5.8    2.1  1  Peptidase_S9_N  Prolyl oligopeptidase, N-terminal beta-propel
  ------ inclusion threshold ------
      0.014   14.7   0.0       0.06   12.6   0.0    1.9  2  Hydrolase_4     Serine aminopeptidase, S33
      0.041   13.0   0.0      0.081   12.0   0.0    1.4  1  PAE             Pectinacetylesterase


Domain annotation for each model (and alignments):
>> Peptidase_S9  Prolyl oligopeptidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  160.9   0.0   6.5e-51   2.9e-47       9     207 ..     468     669 ..     461     672 .] 0.94

  Alignments for each domain:
  == domain 1  score: 160.9 bits;  conditional E-value: 6.5e-51
                              HHHCCT-EEEEE--TTSSTTHCHHHHTTSGGGGHHHHHHHHHHHHHHHHTTS--GGGEEEEEETHHHHHHHHHHHH-GGG-SEEEE CS
             Peptidase_S9   9 lladrGyvvvvanirGsggyGeafhdagkrklgqnefdDfiaaaealakegyvdserlaitGgSyGGyltgaalnqrpdlFkaava 94 
                              l+ ++G v+v+ nirG+g++G ++h+a  + +   +++Df  +ae l+++++++++++ i GgS+GG+l+g+  ++rp+lFka+++
  PHY93_06515|PHY93_06515 468 LWLEKGGVFVWSNIRGGGEFGPSWHQAALKMNRHLCYQDFSSIAEDLIQRKLTNEKKILIAGGSNGGLLVGTSFTKRPELFKAVIC 553
                              4449********************************************************************************** PP

                              ESE---CCCHHCSTTSTHH.HCCCC--TTTCHHHHHHHHHH-CGGG--...---EEEEEEETT-SSS-THHHHHHHHHHH--S-SE CS
             Peptidase_S9  95 evpvvdvlrydsdtdllte.eymewgnpeeneegykelspyspldnvk...aypplLlihGlaDdrvppaealklvaaLqkkgknv 176
                              +vp +d++r+++     ++ ++ e+g pee +e+  +l +yspl+nvk   +yp++++ +++ Ddrv+p +a k++a++ +++++v
  PHY93_06515|PHY93_06515 554 AVPLLDMIRSHLLH--AGAsWVAEYGSPEEGPEMKAYLESYSPLQNVKpgvQYPATFFHTSTYDDRVHPGHARKMAARMIEENQKV 637
                              *************6..7777****************************************************************** PP

                              EEEEETTS-SSTTSSHHHH.HHHHHHHHHHHH CS
             Peptidase_S9 177 lllifpdegHgvgkprakv.eelarllaFlke 207
                               ++ + + gH ++++ ak+ e  a  + F+ +
  PHY93_06515|PHY93_06515 638 YFHEEREGGHQGRTSPAKNaENEALHMIFAYQ 669
                              **********9988888886777777777665 PP

>> Peptidase_S9_N  Prolyl oligopeptidase, N-terminal beta-propeller domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.3   5.8   8.5e-18   3.8e-14      24     413 ..      11     402 ..       7     403 .. 0.81

  Alignments for each domain:
  == domain 1  score: 52.3 bits;  conditional E-value: 8.5e-18
                              GGGSTTSHHHHHHHHHHHHHHHHHHCTST.CHHHHHHHHHHHT-S-EE---EEETTEEEEEEE-SS-SS-EEEEEC.STS-TTS-E CS
           Peptidase_S9_N  24 WLeDddspetkayleaenkyteevlaqlkelrekikeeitklikeddisapfrkgkyyyysrneggknqsvlyrqd.alskegeee 108
                              +LeD + +++ ++   + + + + l+q++++    ++ +t+ ++ +++++ + +  yyy++++++   + ++ r++ ++ ++g ++
  PHY93_06515|PHY93_06515  11 YLEDVEGEKALEWAAHQTQQATDHLKQDPRFASVFEDILTGYQDKNRLKMGIIHHFYYYNFWQDEINPKGLWRRIKlSEFNSG-NW 95 
                              9***************************************************************************9888999.** PP

                              EEEE-GGGGSTTS....-.EEEEEEEE-TTSSEEEEEEEETTSSEEEEEEEETTTTEEEEEEEEEEESEE.EEECTTSSEEEEEES CS
           Peptidase_S9_N 109 evlLDpNtlsedg....tfvalgefavsedgkllAyslsksGsdwytirvkdietgedlpdeledvkfsg.ivWaadekgffYtry 189
                                l+D +++ +d     t+ +++    ++   l+  sls +G+d++ ir +d+ ++ +++d ++  + ++ ++W    ++++ + +
  PHY93_06515|PHY93_06515  96 DNLFDFDKWFKDTeenlTYSSFEPHPDPKNDHLVMLSLSVGGKDANVIREFDLIQKIFVNDGFNLSEAKQtFAWRSHDEILIAVGK 181
                              *********997722223444444444667889***********************************999****999****9999 PP

                              S-SSS-TSTSB-S-BEEEEEETTS-GGG-EEEES-TTGTT..BEEEEEE-TTS...SEEEEEEESSSS--EEEEEEGGGTSS--EE CS
           Peptidase_S9_N 190 dkedersdtdtnlnqkvyrhkLGtaqseDelvfeeeeepk..wllgaersedg...kylfissasgtdtnelyvldlekeskkvlk 270
                               ++++ +        ++   k  ++ ++++++f++ +e +  w++  e ++dg   k + ++   g  t   +++d ++ +   l+
  PHY93_06515|PHY93_06515 182 LTNSGYPG-------QLLLLKRHQKIENAKVLFKTSKENMglWVTHYEYTSDGlekKMIALDERVGFYTGFSHIIDEDQVK--KLN 258
                              98999999.......99999999***********9888743389999999997644666666666666********99986..333 PP

                              EEESSSSS-EEEEEEETTEEEEEE-TT-TT-EEEEEETTSSSGG...GEEEEE--.SSCEEEEEEECTTEEEEEEEETTEEEEEEE CS
           Peptidase_S9_N 271 lvdnrfdaeysvehnegdrfliltndgapnfrlvsvdlndpsps...ewkelvperekvvleeitvfknylvvsyrkdvlsrvqvv 353
                               ++++ +   ++e     r+  l n ++    ++  ++++ +++   e + l   +++   +++ v+++++++   ++vls++   
  PHY93_06515|PHY93_06515 259 -IPEDAELLCYYENSFVFRLKSLWN-SFLADSVLISTISSLTEAdsvEVECLWSPKNRISFQSFFVNSGKFFIRLSENVLSSIFEL 342
                              .444355555666663344444444.55555555555554433322255667888889999**********************999 PP

                              ETTTS-..EEEEEB-SSSSEEEEEE--TT-SEEEEEEEETTCEEEEEEEETTTTCEEEEEE CS
           Peptidase_S9_N 354 dlkngkv.llfevplpgvgsvssasgekedselfysfsSfltPstiykldlatgelellke 413
                              + k++++ l +  p  + ++ s ++ +++++   +   Sfl P+t+  +++++ el+l+++
  PHY93_06515|PHY93_06515 343 KKKDNSWgLERITPD-NKSTFSMVAFDQQSELAIIAENSFLIPTTLHLYNSKSAELTLFQQ 402
                              966666654444444.6667777777777777888999*******************9986 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0      0.79   3.5e+03      54      87 ..     100     137 ..      97     139 .. 0.83
   2 ?   12.6   0.0   1.3e-05      0.06      58     115 ..     503     562 ..     482     583 .. 0.81

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 0.79
              Hydrolase_4  54 sfddyvdDlaafvekvk.eehpel...plfllGhSmGG 87 
                              +fd++ +D ++ ++    e+hp+     l++l  S+GG
  PHY93_06515|PHY93_06515 100 DFDKWFKDTEENLTYSSfEPHPDPkndHLVMLSLSVGG 137
                              588888888888888887888887778999******99 PP

  == domain 2  score: 12.6 bits;  conditional E-value: 1.3e-05
              Hydrolase_4  58 yvdDlaafvekvkeehpel..plfllGhSmGGliallyllrypdkvaglilsaPalkika 115
                              +++D++++ e + +++ +   ++ + G S GGl++ + ++++p+ ++++i++ P+l++  
  PHY93_06515|PHY93_06515 503 CYQDFSSIAEDLIQRKLTNekKILIAGGSNGGLLVGTSFTKRPELFKAVICAVPLLDMIR 562
                              5678888887777665544459**********************9*********998754 PP

>> PAE  Pectinacetylesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   1.8e-05     0.081     132     161 ..     507     536 ..     502     552 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 1.8e-05
                      PAE 132 lqaviedLlekglkkakkvlLsGcSAGgla 161
                              ++++ edL++++l++ kk+l++G+S Ggl 
  PHY93_06515|PHY93_06515 507 FSSIAEDLIQRKLTNEKKILIAGGSNGGLL 536
                              67899***********************95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (672 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       544  (0.0303419); expected 358.6 (0.02)
Passed bias filter:                      450  (0.025099); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.65u 0.25s 00:00:00.90 Elapsed: 00:00:00.41
# Mc/sec: 4883.53
//
Query:       PHY93_06520|PHY93_06520  [L=177]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.4e-12   47.8   0.0    2.2e-12   47.2   0.0    1.3  1  DUF2799   Protein of unknown function (DUF2799)


Domain annotation for each model (and alignments):
>> DUF2799  Protein of unknown function (DUF2799)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.2   0.0   1.2e-16   2.2e-12       4      85 ..      35     115 ..      32     116 .. 0.92

  Alignments for each domain:
  == domain 1  score: 47.2 bits;  conditional E-value: 1.2e-16
                  DUF2799   4 qiGyedgaaGktasrleelakacakagvkpdaaaYekGykeGlkeyCtpenayalGlsgksyegvCpaeleaeflkeyqkGr 85 
                               +G ++g++G  ++  eel++ c +++ +++ +aY+ G++ G +++Ctp +++++G++g+ y++ Cp e+e+ f++++  G+
  PHY93_06520|PHY93_06520  35 YLGLDHGKRGL-SNLSEELRRVCVTSDEAVNLEAYQMGFNMGWSNFCTPFQGFEMGKKGDLYKSFCPLEKEELFREKFLIGK 115
                              68999*****9.666788999999999999**********************************************998775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (177 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1146  (0.0639188); expected 358.6 (0.02)
Passed bias filter:                      587  (0.0327403); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 1311.62
//
Query:       PHY93_06525|PHY93_06525  [L=617]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.69    9.7   3.0         28    4.6   0.0    2.7  2  KRTDAP    Keratinocyte differentiation-associated


Domain annotation for each model (and alignments):
>> KRTDAP  Keratinocyte differentiation-associated
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.1   1.2    0.0023        41      38      66 ..     376     404 ..     344     409 .. 0.84
   2 ?    4.6   0.0    0.0016        28       7      50 ..     410     456 ..     405     466 .. 0.77

  Alignments for each domain:
  == domain 1  score: 4.1 bits;  conditional E-value: 0.0023
                   KRTDAP  38 seeflnWhalfealkkklpflnWdafPkl 66 
                               ++f n ha+  + k+ + f n +++ k+
  PHY93_06525|PHY93_06525 376 IDDFKNHHAMQTFDKQFFDFKNHNILTKM 404
                              489*********************99986 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.0016
                   KRTDAP   7 eeettianyaagsealkeqfLnvdrlrs..af.kseeflnWhalfea 50 
                                et ++ y ++ e+++++f  ++  +s  ++ k  + +nW a+f +
  PHY93_06525|PHY93_06525 410 YTETLLEHYRKEVEDFRNDFTYFEMAKSvkGLqKVPDGINWNAIFCM 456
                              5789999************9988877762244256799****99854 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (617 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1098  (0.0612416); expected 358.6 (0.02)
Passed bias filter:                      458  (0.0255452); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.66u 0.25s 00:00:00.91 Elapsed: 00:00:00.43
# Mc/sec: 4272.82
//
Query:       PHY93_06530|PHY93_06530  [L=230]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.3e-27   96.8   0.0    1.4e-27   96.7   0.0    1.0  1  Peptidase_S51  Peptidase family S51
     0.0064   16.1   0.0      0.011   15.3   0.0    1.4  1  GATase_3       CobB/CobQ-like glutamine amidotransferase doma
  ------ inclusion threshold ------
       0.15   11.1   0.0       0.22   10.6   0.0    1.3  1  BPL_N          Biotin-protein ligase, N terminal


Domain annotation for each model (and alignments):
>> Peptidase_S51  Peptidase family S51
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   96.7   0.0   2.4e-31   1.4e-27       1     204 [.       3     203 ..       3     205 .. 0.86

  Alignments for each domain:
  == domain 1  score: 96.7 bits;  conditional E-value: 2.4e-31
                              EEEES-........GGG-HHHHHHHS--TT-EEEEE-GGGGG-S--HHHHHHHHHHHHTT-EEEE--TTTS-HHH.HHHHHHHSSE CS
            Peptidase_S51   1 llllssgelsdeerlehiekalldflgksekkvlFiPtAsvsgdddeyvekvrkaleklglevdeLelskdpeee.ieeklleadv 85 
                              l+l s+g+ +de+r+ +++   l+++  +++k+++iP+   s d ++  + + + +++ g++   L  + +p  + + + +l++d+
  PHY93_06530|PHY93_06530   3 LVLYSGGT-EDENRFLNLR--ALELTHVKSPKLTLIPSS--SYDAENDFKFFVQEFSEFGVQRFMLFCVDTPYTKtLLQEVLKSDL 83 
                              67889888.7777776655..456666678*******99..99999999************8777777766655558888****** PP

                              EEE--S-HHHHHHHHHHTTHHHHHHHHHHTT-EEEEETHHHHTTSSB-GGGTTTS-GGG-S....---B----SSSEEETTT...T CS
            Peptidase_S51  86 iyvgGGntfrLlkllketgldkllreavqqglvyiGvSAGaivagesiettsysdspikap....esfeaLgLvkfqivPHylghk 167
                              i++gGGntf  lk lk+ g+ + + + +++g v+ G+SAGai+ ++ ++t s+     +++    ++++a+ Lvkf + PHy   k
  PHY93_06530|PHY93_06530  84 IFLGGGNTFYFLKHLKKAGMFAHFDKFLKRGGVLCGLSAGAIILTPHVHTASFPHFDRDENpwdmKNLSAMRLVKFEFFPHY---K 166
                              ****************************************************9655555545788*****************...8 PP

                              -TTSHHHHHHHHHH-----EEE--TTEEEEEETTEEE CS
            Peptidase_S51 168 eeereerlaefvesneekpvigldegtalliegdkar 204
                              + +r ++    ++++++ p++g ++g  + i+gd+++
  PHY93_06530|PHY93_06530 167 NSKRYDAELLHHSKKSKIPLYGCSDGGGIIIDGDQIS 203
                              888888777677777777****************986 PP

>> GATase_3  CobB/CobQ-like glutamine amidotransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   1.9e-06     0.011      35      95 ..      77     134 ..      66     158 .. 0.83

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 1.9e-06
                 GATase_3  35 eslgedadlvilpGgkdtiqdlallresgldeaikeaaeaggpvlgiCGGlqmLGeeiedp 95 
                              e l  + dl++l+Gg+ t   l++l++ g+  +  +++++gg + g  +G ++L  +++++
  PHY93_06530|PHY93_06530  77 EVL--KSDLIFLGGGN-TFYFLKHLKKAGMFAHFDKFLKRGGVLCGLSAGAIILTPHVHTA 134
                              444..37******996.56667777778**************************9988775 PP

>> BPL_N  Biotin-protein ligase, N terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   3.6e-05      0.22      51      93 ..      82     125 ..      64     165 .. 0.87

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 3.6e-05
                    BPL_N  51 allVlPgGaDlpYvrelngegn.rkikeyVekGGkylGlCAGaY 93 
                               l+ l gG    ++++l+++g+ +++++++++GG   Gl AGa 
  PHY93_06530|PHY93_06530  82 DLIFLGGGNTFYFLKHLKKAGMfAHFDKFLKRGGVLCGLSAGAI 125
                              57778889999999***99886479*****************95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (230 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       342  (0.0190752); expected 358.6 (0.02)
Passed bias filter:                      303  (0.0169); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1701.85
//
Query:       PHY93_06535|PHY93_06535  [L=575]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.9e-29  100.4   0.1    1.3e-28   99.4   0.1    1.6  1  Gln_deamidase_2  Glutaminase


Domain annotation for each model (and alignments):
>> Gln_deamidase_2  Glutaminase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   99.4   0.1   7.1e-33   1.3e-28       2     106 .]     412     509 ..     411     509 .. 0.95

  Alignments for each domain:
  == domain 1  score: 99.4 bits;  conditional E-value: 7.1e-33
          Gln_deamidase_2   2 eklFkklkaerferriefkyaddgCyarAhlmarlaeeegiepekifvegklevqtksagegkvsWeyHVApvvvvkkekkve.kl 86 
                              +klFkk+k+    ++i+f y+ddgCyarAh mar  ee+gi  ek++++g+l v+        ++W+yHVApv++vk++k++  k+
  PHY93_06535|PHY93_06535 412 QKLFKKAKN---MSDIPFGYKDDGCYARAHVMARRFEEMGIPTEKAWIKGSLFVPG-----TDIKWNYHVAPVINVKDKKGKIkKY 489
                              899******...89****************************************95.....789*************9998877** PP

          Gln_deamidase_2  87 viDpslfsepvtvkeWlkkl 106
                              viDpsl +++vt++eW +++
  PHY93_06535|PHY93_06535 490 VIDPSLADNAVTLDEWVESM 509
                              ****************9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (575 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       666  (0.0371465); expected 358.6 (0.02)
Passed bias filter:                      428  (0.0238719); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.62u 0.24s 00:00:00.86 Elapsed: 00:00:00.42
# Mc/sec: 4094.68
//
Query:       PHY93_06540|PHY93_06540  [L=90]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.084   13.4   0.0      0.094   13.3   0.0    1.0  1  Peptidase_C39_2  Peptidase_C39 like family


Domain annotation for each model (and alignments):
>> Peptidase_C39_2  Peptidase_C39 like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   5.2e-06     0.094      48     107 ..      19      77 ..       9      87 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 5.2e-06
          Peptidase_C39_2  48 dpntgfvgnit.dksglgvynepivklaekyglkvsdtrgssieevkkeidagkPvvvsvt 107
                              +++++fv +   ++s++ +y+  ++++a  y +  s+t    + e+ ++++++kPv v+++
  PHY93_06540|PHY93_06540  19 AMTKDFVVTKLnYNSEQKYYQVDFKNQAGVYKA--SETLIDCLRELRESLKEKKPVRVIFK 77 
                              556666665445999***********9999886..99999999*************99985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (90 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       847  (0.0472419); expected 358.6 (0.02)
Passed bias filter:                      580  (0.0323498); expected 358.6 (0.02)
Passed Vit filter:                        61  (0.00340231); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.37
# Mc/sec: 721.71
//
Query:       PHY93_06545|PHY93_06545  [L=119]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.3e-35  119.1   7.7      1e-34  119.0   7.7    1.0  1  DUF454    Protein of unknown function (DUF454)
  ------ inclusion threshold ------
      0.094   11.1   0.3      0.094   11.1   0.3    1.1  1  CBP_BcsG  Cellulose biosynthesis protein BcsG


Domain annotation for each model (and alignments):
>> DUF454  Protein of unknown function (DUF454)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  119.0   7.7   1.2e-38     1e-34       1     114 [.       3     117 ..       3     118 .. 0.95

  Alignments for each domain:
  == domain 1  score: 119.0 bits;  conditional E-value: 1.2e-38
                   DUF454   1 rllllllGllslalGviGivlPlLPTtpFlLlAafcfarssprlhrwLlehklfgpyirdwrekraitlkaKvialllmllsllis 86 
                              ++lll++G l+l+lGviG+vlP+LPTtpFlLlAafc+++ss++lh w+l++k++gp +rdw++++ i lkaK++a+++++l++++ 
  PHY93_06545|PHY93_06545   3 KTLLLIAGHLCLVLGVIGAVLPVLPTTPFLLLAAFCYSKSSNKLHLWILNQKHLGPPLRDWEKNGVIGLKAKLVATIMLSLVIVFR 88 
                              6799*********************************************************************************9 PP

                   DUF454  87 lllves.lwvkillalvllvvllyilrip 114
                              + + ++ l+++i+ +++l++vl++i+++p
  PHY93_06545|PHY93_06545  89 IPYLKVtLALRITGTVILILVLVFIWSRP 117
                              9886654899999999999999999*998 PP

>> CBP_BcsG  Cellulose biosynthesis protein BcsG
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.3     1e-05     0.094      75     130 ..      60     115 ..      36     119 .] 0.90

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 1e-05
                 CBP_BcsG  75 lagfslsYlvellgrfinlkmllalivllivylllsqwirvttlvllalialsvle 130
                              l++++ + ++ l  +++ + ml ++iv  i yl +   +r+t  v+l+l+++ +++
  PHY93_06545|PHY93_06545  60 LRDWEKNGVIGLKAKLVATIMLSLVIVFRIPYLKVTLALRITGTVILILVLVFIWS 115
                              56667777889999***********************************9999886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (119 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       801  (0.0446762); expected 358.6 (0.02)
Passed bias filter:                      364  (0.0203023); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.21s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 903.40
//
Query:       PHY93_06550|PHY93_06550  [L=282]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.3e-14   53.1   0.1      4e-14   52.3   0.1    1.4  1  HTH_1           Bacterial regulatory helix-turn-helix protein
    1.1e-11   44.5   0.0    1.8e-11   43.8   0.0    1.2  1  LysR_substrate  LysR substrate binding domain
  ------ inclusion threshold ------
      0.074   12.9   0.2       0.15   12.0   0.2    1.4  1  MarR_2          MarR family


Domain annotation for each model (and alignments):
>> HTH_1  Bacterial regulatory helix-turn-helix protein, lysR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.3   0.1   6.7e-18     4e-14       2      59 ..       3      60 ..       2      61 .. 0.97

  Alignments for each domain:
  == domain 1  score: 52.3 bits;  conditional E-value: 6.7e-18
                             HHHHHHHHHHHHSSHHHHHHHHTS-HHHHHHHHHHHHHHHTS-SEEESSSEEEE-HHH CS
                    HTH_1  2 rqlrlfvavaeegsftrAAeeLglsqpavsrqikrLEeelgvpLfeRtgrglrLTeaG 59
                             + +++++a+ + g++++AA +L+l+q+avs++i+ L  el+v+L+e +gr+lrLT+ G
  PHY93_06550|PHY93_06550  3 NGIEALIALEKYGTVSEAAIRLRLTQSAVSKRIQGLQLELKVKLVEPDGRKLRLTQDG 60
                             6799****************************************************98 PP

>> LysR_substrate  LysR substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.8   0.0     3e-15   1.8e-11       8     190 ..      89     260 ..      85     277 .. 0.89

  Alignments for each domain:
  == domain 1  score: 43.8 bits;  conditional E-value: 3e-15
                              EEEEEECCCHHHHHHHHHHHHHHHSTTEEEEEEEESHHHHHHHHHTTSSSEEEEESSSCCTTEEEEEEEEEEEEEEEETTSGGGGS CS
           LysR_substrate   8 LrigapptlaryllppllarfraryPevelelvegdseelldllaegelDlairagppedsglearpLaeeplvlvaspdhpLarg 93 
                              + +g ++++a ++ p ++++ ++    +el+ ++  s  ll+ +  g++ l+i++ ++++ +l + +L +eplvl+ s+     r 
  PHY93_06550|PHY93_06550  89 FALGLSDSIAGSFGPYVVSETLKMLTTLELDFHVHRSLMLLENISLGKYQLGICTFDENRKDLYSAHLIDEPLVLLHSEF----RN 170
                              6799************************************************************************5544....56 PP

                              SSECGGGGCTSEEEEESTTSTHHHHHHHHHHCTTEEC..EEEEEESSHHHHHHHHHTTS-BEEEEGGGHHCCCHTTTEEEEEESST CS
           LysR_substrate  94 epvsledLadeplilleegsglrdlledalreaglkp..rvalevnsleallalvaaGlGiallprsavrdeladgrlvalplpep 177
                              +p      +++pli+ ee+s+++  +  +l++   ++  + ++ v+s+ a++++ + GlG +l+p  + ++++    l+    + +
  PHY93_06550|PHY93_06550 171 RPS-----KNLPLITIEENSATWKNVGSVLKKDYAQLfsNNVIYVESFMAVYQMTKVGLGNGLIPLGLTKEFH----LKKEAYKKL 247
                              677.....799**********************888888999**************************97743....444555666 PP

                              TCEEEEEEEEETT CS
           LysR_substrate 178 plprelylvyrkg 190
                               ++r+++lv+rk 
  PHY93_06550|PHY93_06550 248 KVTRTISLVTRKT 260
                              7799999999987 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.2   2.5e-05      0.15      11      46 ..       8      39 ..       5      41 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 2.5e-05
                             HHHHHCTTTSEEEHHHHHHHHTSSHHHHHHHHHHHH CS
                   MarR_2 11 LaaLgrrpgrdltvgelarrlglsksavsrilkrLv 46
                             L aL   +    tv+e a rl+l++savs++++ L+
  PHY93_06550|PHY93_06550  8 LIALEKYG----TVSEAAIRLRLTQSAVSKRIQGLQ 39
                             66666666....9*******************9886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (282 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       408  (0.0227564); expected 358.6 (0.02)
Passed bias filter:                      313  (0.0174578); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.20s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 2193.10
//
Query:       PHY93_06555|PHY93_06555  [L=775]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
   9.4e-188  624.9   0.0   1.2e-187  624.5   0.0    1.1  1  Aconitase    Aconitase family (aconitate hydratase)
    2.5e-22   79.6   0.0    5.3e-22   78.6   0.0    1.6  1  Aconitase_C  Aconitase C-terminal domain
  ------ inclusion threshold ------
      0.095   12.7   0.8       0.96    9.5   0.0    2.5  2  LisH         LisH


Domain annotation for each model (and alignments):
>> Aconitase  Aconitase family (aconitate hydratase)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  624.5   0.0    2e-191  1.2e-187       4     461 .]      65     558 ..      57     558 .. 0.94

  Alignments for each domain:
  == domain 1  score: 624.5 bits;  conditional E-value: 2e-191
                Aconitase   4 wdahlveeegiayvpdrvllqdvtgvqalvdlaaareavrrlggtlatidhlvpvdlvidhsv.....gaeealeknledefernk 84 
                              w+++ +++++iay p+rvl+qd+tgv+a+vdlaa+rea+++ gg++++i++l+pvdlvidhsv     g+++++ekn++ e+ernk
  PHY93_06555|PHY93_06555  65 WTKTQKSDREIAYYPARVLMQDFTGVPAVVDLAAMREAMKKIGGDPKKINPLIPVDLVIDHSVavdffGKADSFEKNVALEYERNK 150
                              5555444455**************************************************************************** PP

                Aconitase  85 eryefLksaakaf.girvvppgqGIvHqvnlEy.............glalpgktvvgtDSHTtmigglGvlaiGvGgieaeavllg 156
                              ery+fLk+++kaf ++rvvppg+GI+HqvnlEy              +a+p+ t+vgtDSHTtmi+gl vl++GvGgieaea++lg
  PHY93_06555|PHY93_06555 151 ERYTFLKWGQKAFkNFRVVPPGTGICHQVNLEYlaqtvwtktengeTTAYPD-TCVGTDSHTTMINGLSVLGWGVGGIEAEAAMLG 235
                              ****************************************999965599***.********************************* PP

                Aconitase 157 qplelkipkvvgvkltGklkegvtakDlvlavigklrkkgvvgkvvEffGegvesLsledraTiaNMaaEvGAttglfpvdektle 242
                              q++++++p+vvg+kltG ++eg+ta+D+vl+v+++lrk+gvv+k+vEf+G+gv+ Lsl+draTiaNMa+E+GAt+g+fpvdekt++
  PHY93_06555|PHY93_06555 236 QSVTMTVPEVVGFKLTGLVPEGITATDIVLTVTQMLRKHGVVEKFVEFYGSGVKVLSLADRATIANMAPEYGATCGFFPVDEKTID 321
                              ************************************************************************************** PP

                Aconitase 243 YLkatgreeaav.lveaydkaqalfelaadedaeydkvleldlstlepsvagpkrPqdavplselvkkefkeele......keaae 321
                              YL+ tgr++++v lveay+k+q+l+  a d d++++++leldlst++p+++gpkrPqd+++l+  ++ +fk+el+       e+a+
  PHY93_06555|PHY93_06555 322 YLRFTGRSDEQVaLVEAYSKEQGLWLNAGDTDPVFTSTLELDLSTVVPCISGPKRPQDRIELTAAAD-AFKKELAatfkinPETAS 406
                              ************9************889999*******************************76665.677777666665566666 PP

                Aconitase 322 kaleyklkegtklkdgkvdiaaigSCTNssnedvraaaglla.kavekglkvkpgvktsvaPGSevvkayleaeGlleiLekaGfe 406
                              +++++  ++++klk+g+v ia i+SCTN+sn++v++aagl+a ka e gl+ kp+vkt ++PGS+vv++yl ++Gl+++L+++Gf+
  PHY93_06555|PHY93_06555 407 NEYDV-AGADFKLKHGAVAIATITSCTNTSNPSVMIAAGLVAkKARELGLQSKPWVKTALSPGSKVVTDYLVESGLQHSLDELGFT 491
                              66666.7889**************************************************************************** PP

                Aconitase 407 vvgagCstCignsdrle........ege....aivsssNRNFegRqgpntra.yLaSPelvvaaAlaG 461
                              ++g+gC+ Cigns++l+        + +    ++v+s+NRNFegR++p+ +a yLaSP+lv+a+AlaG
  PHY93_06555|PHY93_06555 492 LTGYGCMSCIGNSGPLPenisksvnA-NnlvvTSVLSGNRNFEGRINPDIKAnYLASPPLVIAYALAG 558
                              ****************9677665543.16999***********************************9 PP

>> Aconitase_C  Aconitase C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.6   0.0   8.8e-26   5.3e-22       3      90 ..     688     775 .]     686     775 .] 0.99

  Alignments for each domain:
  == domain 1  score: 78.6 bits;  conditional E-value: 8.8e-26
                              CCCCCTT--CHHHHSTGGGCCGHCCHHHCCCGGTTTCCCCTTTSBBSEEEETTTTEEEEHHHHHHHHHHTT--EEEE--SSBTBS- CS
              Aconitase_C   3 kllklkGlttedeksnvdtdlkipkqfegtianiglgnelveekrankttdlddgekedvvdaaerykkegaklvviagknfGeGS 88 
                              ++l+ kG+++ d++s+++++++++ +++gt+ani+++ne++++ + + t+  ++ge + ++daa++y +++++lvviagk++G+GS
  PHY93_06555|PHY93_06555 688 VYLQTKGVKADDFNSYGSRRGNHEIMMRGTFANIRIKNEVAPGTEGGVTKFIPTGEVMPIYDAAMKYIENKTPLVVIAGKEYGTGS 773
                              79************************************************************************************ PP

                              -- CS
              Aconitase_C  89 SR 90 
                              SR
  PHY93_06555|PHY93_06555 774 SR 775
                              *9 PP

>> LisH  LisH
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.5       0.1   6.1e+02      17      26 ..     384     393 ..     383     393 .. 0.88
   2 ?    9.5   0.0   0.00016      0.96       7      21 ..     472     486 ..     471     489 .. 0.85

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.1
                              HHHHHHHHHH CS
                     LisH  17 eetAeaFekE 26 
                              + +A aF+kE
  PHY93_06555|PHY93_06555 384 TAAADAFKKE 393
                              579******9 PP

  == domain 2  score: 9.5 bits;  conditional E-value: 0.00016
                              HHHHHHHCT-HHHHH CS
                     LisH   7 IydYLvkeGyeetAe 21 
                              + dYLv++G++++  
  PHY93_06555|PHY93_06555 472 VTDYLVESGLQHSLD 486
                              77**********966 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (775 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       439  (0.0244855); expected 358.6 (0.02)
Passed bias filter:                      399  (0.0222544); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.68u 0.26s 00:00:00.94 Elapsed: 00:00:00.43
# Mc/sec: 5432.89
//
Query:       PHY93_05440|PHY93_05440  [L=175]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.9e-32  111.3   0.3    5.9e-32  111.0   0.3    1.0  1  ARD       ARD/ARD' family
    5.9e-05   22.7   0.1    9.4e-05   22.1   0.1    1.3  1  Cupin_2   Cupin domain
  ------ inclusion threshold ------
       0.13   12.7   0.0       0.24   11.8   0.0    1.4  1  YfzA      YfzA-like protein


Domain annotation for each model (and alignments):
>> ARD  ARD/ARD' family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  111.0   0.3   9.9e-36   5.9e-32      18     157 .]      13     160 ..       7     160 .. 0.95

  Alignments for each domain:
  == domain 1  score: 111.0 bits;  conditional E-value: 9.9e-36
                      ARD  18 htspkekaeelelaklgvlrwkldaddeeeaeeeekilktkeeekkdi........dvevlkestpnfdeklekFfeEhlhedeei 95 
                              +t++k++ + l ++ + ++ w ++   + +a++e  + ++ +e k  +        dv+ ++  tpn+  ++ekF++Eh+h+++ei
  PHY93_05440|PHY93_05440  13 VTDFKTIKNLLSQHGIKIEKWEASKPLADDASQETILEAYAHELKPFMdkngyavaDVINVHPLTPNLTGLREKFMKEHTHSEDEI 98 
                              68899999999999999*****************99999999998888899*********************************** PP

                      ARD  96 rliveGtgyFdvrskdeawirvlvekGDLivlPagiyhrFtltednkvkalRlFvekekwva 157
                              r++v+G g F  +  +e+   v +e+GD++++P++ +h+F+l ++ +vka+R+F++ e+wv+
  PHY93_05440|PHY93_05440  99 RFFVDGVGKFWFHLDNEEILCVTCERGDFMSVPKNFRHWFDLAPEYFVKAIRIFSNMEGWVP 160
                              ************************************************************86 PP

>> Cupin_2  Cupin domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.1   0.1   1.6e-08   9.4e-05      12      57 ..      89     138 ..      84     143 .. 0.88

  Alignments for each domain:
  == domain 1  score: 22.1 bits;  conditional E-value: 1.6e-08
                              EEECSSSEEEEEEEEESEEEEE..ECTE...EEEEETTEEEEE-TT-EEEE CS
                  Cupin_2  12 pshrHpgedeffyVleGegelt..vdge...eveleaGdsvyfpagtpHrf 57 
                              ++h+H++  e+++ ++G g+++  +d+e    v+ e+Gd++ +p++ +H+f
  PHY93_05440|PHY93_05440  89 KEHTHSED-EIRFFVDGVGKFWfhLDNEeilCVTCERGDFMSVPKNFRHWF 138
                              68999998.*************7666776777999**************98 PP

>> YfzA  YfzA-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0     4e-05      0.24       4      43 ..     131     169 ..     129     174 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 4e-05
                     YfzA   4 PvlkrtwlksigvfllvqlifiilevtawiPnfkeGglyd 43 
                              P   r w+     +++ + i i  ++++w+Pn+ e g+ +
  PHY93_05440|PHY93_05440 131 PKNFRHWFDLAPEYFV-KAIRIFSNMEGWVPNYTESGIDN 169
                              5667899998888776.568899************99865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (175 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       525  (0.0292822); expected 358.6 (0.02)
Passed bias filter:                      472  (0.0263261); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.39
# Mc/sec: 1334.77
//
Query:       PHY93_06560|PHY93_06560  [L=584]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.9e-09   37.1   5.7    4.1e-07   30.2   0.4    3.3  3  YadA_head      Head domain of trimeric autotransporter adhesi
    5.3e-07   29.9   0.2    1.2e-06   28.7   0.2    1.7  1  Peptidase_S74  Chaperone of endosialidase


Domain annotation for each model (and alignments):
>> YadA_head  Head domain of trimeric autotransporter adhesin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.2   0.4   4.5e-11   4.1e-07       1      24 [.     105     128 ..     105     130 .. 0.97
   2 !    7.8   0.3   0.00049       4.3      10      26 ..     129     145 ..     129     145 .. 0.83
   3 !    7.0   0.7   0.00092       8.2       1      20 [.     134     153 ..     134     154 .. 0.82

  Alignments for each domain:
  == domain 1  score: 30.2 bits;  conditional E-value: 4.5e-11
                YadA_head   1 AsGknSiAiGynAtAsGdnSiAiG 24 
                              A+G++S+AiG ++tAsG +++A+G
  PHY93_06560|PHY93_06560 105 ATGDYSVAIGDKNTASGYRAVALG 128
                              9*********************** PP

  == domain 2  score: 7.8 bits;  conditional E-value: 0.00049
                YadA_head  10 GynAtAsGdnSiAiGtn 26 
                              G  ++AsG +S A+G+n
  PHY93_06560|PHY93_06560 129 GVFNVASGSDSFALGSN 145
                              55678999999999998 PP

  == domain 3  score: 7.0 bits;  conditional E-value: 0.00092
                YadA_head   1 AsGknSiAiGynAtAsGdnS 20 
                              AsG +S A+G+n t+sG nS
  PHY93_06560|PHY93_06560 134 ASGSDSFALGSNMTVSGSNS 153
                              89999999999988888887 PP

>> Peptidase_S74  Chaperone of endosialidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.7   0.2   1.4e-10   1.2e-06       1      58 []     396     451 ..     396     451 .. 0.84

  Alignments for each domain:
  == domain 1  score: 28.7 bits;  conditional E-value: 1.4e-10
                              -TTTTBSS-.EC-.HHHHHHHCT---EEE-BCCHHHHHGGGGS-BEEE--HHHHHHHHHH CS
            Peptidase_S74   1 SDrRlKtnI.rpl.edalakvlklrpvtYrykdesirkskdsgrrevGfIAQeveavlpe 58 
                              SD+R K    r+   ++l+k++k+++  Y+y de      ++   +  +IAQ+ve++lpe
  PHY93_06560|PHY93_06560 396 SDARVKNIQgRSNsVEDLEKLMKIQITNYKYIDE---F-RQGPAVHKKVIAQQVEQILPE 451
                              9*****66666665556**************985...3.36678999************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (584 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       822  (0.0458475); expected 358.6 (0.02)
Passed bias filter:                      521  (0.0290591); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.66u 0.25s 00:00:00.91 Elapsed: 00:00:00.45
# Mc/sec: 3936.40
//
Query:       PHY93_06565|PHY93_06565  [L=305]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (305 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       518  (0.0288917); expected 358.6 (0.02)
Passed bias filter:                      421  (0.0234815); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.21s 00:00:00.74 Elapsed: 00:00:00.41
# Mc/sec: 2231.87
//
Query:       PHY93_06570|PHY93_06570  [L=282]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.017   14.0   0.1      0.031   13.1   0.0    1.4  1  Pox_ATPase-GT  mRNA capping enzyme N-terminal, ATPase and gua


Domain annotation for each model (and alignments):
>> Pox_ATPase-GT  mRNA capping enzyme N-terminal, ATPase and guanylyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   1.7e-06     0.031     161     271 ..     103     234 ..      93     254 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 1.7e-06
                              --EEEEEEEE--SSSS---HHHHHHHHHHHHHHHHSS-TTSEEE--.----SSEEEE--GGGGSS---TTEEEEE--S........ CS
            Pox_ATPase-GT 161 kpnvtlelEievlsdekldkkellkelvklfkalflsnaenifLvp.kakppikthmlkkqdlntldledlyvttKtD........ 237
                              +++ t+ + i+ ++  ++++++  +++++l+++ + ++a+nif+    + ++++t +l  ++l+  + ++++ t++ +        
  PHY93_06570|PHY93_06570 103 HKQGTMLFKINPSRAGDIKENKQNDKIRMLANSHYFTHAHNIFVADgPISSEVNTLILLFHELSHASFDQMI-TKRPEmlvsmlrk 187
                              6788999**************************************999***************999988764.5555568888888 PP

                              .............SEEEEEEEETTEEEEEET.TTTEEEEE--SS--SS CS
            Pox_ATPase-GT 238 .............GvgelvkvdkkkiycyFs.hlsYtirykakrklee 271
                                           G+  ++++d  ++y  Fs + ++  +y+++r+++e
  PHY93_06570|PHY93_06570 188 llpdvtiqkllhiGINDVLEIDG-DLYDLFSeRYAFELEYRINRNISE 234
                              88888888888888888888875.577444415677777777777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (282 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       512  (0.0285571); expected 358.6 (0.02)
Passed bias filter:                      417  (0.0232584); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.40
# Mc/sec: 2098.17
//
Query:       PHY93_06575|PHY93_06575  [L=191]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.6e-50  170.2   0.0    3.2e-50  169.9   0.0    1.1  1  YkuD_2    L,D-transpeptidase catalytic domain


Domain annotation for each model (and alignments):
>> YkuD_2  L,D-transpeptidase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  169.9   0.0   1.8e-54   3.2e-50       7     168 ..      34     191 .]      29     191 .] 0.95

  Alignments for each domain:
  == domain 1  score: 169.9 bits;  conditional E-value: 1.8e-54
                   YkuD_2   7 kealekalkgleklkkkkkekkkltiiDfskpStekRlfviDlkkkkllletlvahGknsgen...latkFsneegSkksslGfyk 89 
                               ++l +al+ ++++ +k  +k+ l +iDf+++ +++R++++D++++++  + lvahGkns+     +a+kFsn+++S++sslGfy+
  PHY93_06575|PHY93_06575  34 AKLLARALTYFDSHLDKIPNKRFLGLIDFKQHNSHERFYIVDMESGRV-EKYLVAHGKNSDPYftgYAKKFSNTNDSNMSSLGFYL 118
                              67889999999999999999988************************9.8999********97778******************** PP

                   YkuD_2  90 tgetykgkhGlslrLeGlekgiNdnAreRaivlHgadyvseefikklgrlgrSlGCpavseelakkiiellkegsllfi 168
                              t+ety+g hG+slrL+Gl+++ N+nAr+Raiv+H+adyv +       ++grS GCpav+++++++ii+++kegsll++
  PHY93_06575|PHY93_06575 119 TAETYNGVHGYSLRLDGLSST-NSNARARAIVIHAADYVAPG-----DKIGRSFGCPAVESRYHQQIIDQIKEGSLLYA 191
                              *********************.*****************875.....679***************************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (191 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       397  (0.0221429); expected 358.6 (0.02)
Passed bias filter:                      360  (0.0200792); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.19s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1393.90
//
Query:       PHY93_06580|PHY93_06580  [L=290]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    8.1e-31  107.0  40.0    5.3e-17   62.3  16.3    2.0  2  EamA        EamA-like transporter family
  ------ inclusion threshold ------
        6.5    5.7  19.7      0.082   11.9  11.0    2.0  2  XK-related  XK-related protein


Domain annotation for each model (and alignments):
>> EamA  EamA-like transporter family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.3  16.3   5.9e-21   5.3e-17       4     136 ..       6     138 ..       3     139 .. 0.95
   2 !   51.1  15.7   1.6e-17   1.5e-13       3     135 ..     154     288 ..     152     290 .] 0.95

  Alignments for each domain:
  == domain 1  score: 62.3 bits;  conditional E-value: 5.9e-21
                     EamA   4 illallaalfwaiyfvlskillrkvspltltfvrfliagillliiallkegklaklslkdwllllllgllgtvlafllffyalkkt 89 
                              ++l+++ +l+w+++++++k  + ++sp+  +f+rfl+a+il++++  +  +k+ +++lk+  ++ll g++++ + ++l ++a +k+
  PHY93_06580|PHY93_06580   6 YFLFIICSLIWGTTWLVIKFQIDSTSPVVGVFYRFLLAAILMFVFNHFITKKPLSYPLKNHVFFLLQGIFNFSFNYILTYIAEQKM 91 
                              7899****************************************9777666666******************************** PP

                     EamA  90 sasnaslitslePvftlilsvlllgekltlkqllgivlillGvllil 136
                              s++ ++l ++  + f ++   l++++++++  +lg +++ +G+ l++
  PHY93_06580|PHY93_06580  92 SSGLVALTFTSLVYFNMLGLRLWFKKPISKNVFLGGLMGAFGITLLF 138
                              ********************************************997 PP

  == domain 2  score: 51.1 bits;  conditional E-value: 1.6e-17
                     EamA   3 gillallaalfwaiyfvls.killrkvspltltfvrfliagillliiallkegkl.aklslkdwllllllgllgtvlafllffyal 86 
                              gil+ ++a++f +++ +++ k  l k++ + ++ + +l +++  l+i l++ +++    sl+ + +ll+l+++g+v+af+++ +++
  PHY93_06580|PHY93_06580 154 GILIGIIATFFASTGNMFAyKNHLLKIPVIIFNSYGMLYGALCTLVIGLVRHENFaMPTSLSFICSLLYLAVFGSVIAFWAYQTLV 239
                              99*****************8999********************************878888889999******************* PP

                     EamA  87 kktsasnaslitslePvftlilsvlllgekltlkqllgivlillGvlli 135
                               +++a +a++ + ++P++++i s+++   ++t + + gi+++llG ++ 
  PHY93_06580|PHY93_06580 240 GNLGADRAAYTSVIAPMIAVIVSSIFEDVRFTPLIVGGIIFCLLGNIIS 288
                              *********************************************7765 PP

>> XK-related  XK-related protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9  11.0   9.2e-06     0.082     227     323 ..       7     106 ..       3     116 .. 0.79
   2 ?   -1.2   1.4     0.092   8.3e+02     163     259 ..     215     223 ..     146     288 .. 0.58

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 9.2e-06
               XK-related 227 llvlllhwlvmtlWivsqktdfckskveeilfrlvvgiiyiFcwfnvkegrtryrmlvyyllmllenillvllwyylkkdslesdv 312
                              +l++++ ++  t+W+v + +   +s v+ +++r+++++i++F++  +  ++    +l +++++ll+ i+ +++ y+l    +++  
  PHY93_06580|PHY93_06580   7 FLFIICSLIWGTTWLVIKFQIDSTSPVVGVFYRFLLAAILMFVFNHFITKKPLSYPLKNHVFFLLQGIFNFSFNYILTYIAEQKMS 92 
                              6677777777788886666655689******************9997777777778899**********99999999999988888 PP

               XK-related 313 lalvllv...vlvs 323
                              + lv+l+   ++ +
  PHY93_06580|PHY93_06580  93 SGLVALTftsLVYF 106
                              88888885333333 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 0.092
               XK-related 163 savlSlvslawalvsyqkslrlsrpdkkklsllavilqflWrlltiasRvlalalfasvfklwvllvlllhwlvmtlWivsqktdf 248
                              s+++Sl                                                                                
  PHY93_06580|PHY93_06580 215 SFICSL-------------------------------------------------------------------------------- 220
                              222222................................................................................ PP

               XK-related 249 ckskveeilfr 259
                                      l+ 
  PHY93_06580|PHY93_06580 221 --------LYL 223
                              ........222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (290 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       756  (0.0421663); expected 358.6 (0.02)
Passed bias filter:                      235  (0.0131073); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.38
# Mc/sec: 2265.51
//
Query:       PHY93_06585|PHY93_06585  [L=225]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00018   21.3   0.1      0.024   14.5   0.0    2.9  2  DUF2154   Cell wall-active antibiotics response 4TMS YvqF


Domain annotation for each model (and alignments):
>> DUF2154  Cell wall-active antibiotics response 4TMS YvqF
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    2.9   0.0    0.0053        96      32      77 ..      78     122 ..      74     133 .. 0.80
   2 !   14.5   0.0   1.3e-06     0.024      41      73 ..     166     198 ..     156     223 .. 0.79

  Alignments for each domain:
  == domain 1  score: 2.9 bits;  conditional E-value: 0.0053
                  DUF2154  32 kavlpegetvivirkliGdvkilVPedvevsveasvifGdvkvlde 77 
                              kav++++++     + i ++ki VP++v + +++s+   ++k+ d 
  PHY93_06585|PHY93_06585  78 KAVVEHEHALFEKANCITKLKIEVPNKV-IDIDVSSGSSSIKLMDA 122
                              5777888888888899999******987.67888888877776665 PP

  == domain 2  score: 14.5 bits;  conditional E-value: 1.3e-06
                  DUF2154  41 vivirkliGdvkilVPedvevsveasvifGdvk 73 
                               i +    Gd++i++P + +++v++++ +Gd+ 
  PHY93_06585|PHY93_06585 166 DINLVTATGDTEIYLPANCKIRVSHKSATGDLF 198
                              67777889**********************985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (225 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       490  (0.02733); expected 358.6 (0.02)
Passed bias filter:                      345  (0.0192426); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 1639.81
//
Query:       PHY93_06590|PHY93_06590  [L=528]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.1e-78  265.4   0.3    1.1e-42  147.0   0.0    2.1  2  Asn_synthase  Asparagine synthase
    6.1e-35  119.8   0.0    1.4e-34  118.6   0.0    1.6  1  GATase_7      Glutamine amidotransferase domain
    1.1e-28  100.1   0.0    1.6e-27   96.3   0.0    2.6  3  GATase_6      Glutamine amidotransferase domain
    8.6e-08   31.9   0.0    2.3e-07   30.5   0.0    1.6  2  DUF3700       Aluminium induced protein
    0.00013   21.2   0.1    0.00021   20.5   0.1    1.3  1  NAD_synthase  NAD synthase
  ------ inclusion threshold ------
      0.034   13.7   0.0      0.058   12.9   0.0    1.3  1  QueC          Queuosine biosynthesis protein QueC


Domain annotation for each model (and alignments):
>> Asn_synthase  Asparagine synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  147.0   0.0   3.7e-46   1.1e-42       2     145 ..     208     353 ..     207     359 .. 0.94
   2 !  119.1   0.1   1.2e-37   3.4e-34     202     336 ..     350     499 ..     347     518 .. 0.92

  Alignments for each domain:
  == domain 1  score: 147.0 bits;  conditional E-value: 3.7e-46
             Asn_synthase   2 lrelLedaVkrrlradvpvGalLSGGlDSSliaalaarqsk.splktFsigfeekgsdeakyakevaehlgtehtelvlteeelld 86 
                              ++  L  a+k+rl++d +vG+lLSGGlDSSl++a+a+  ++ + ++tFsig+ +++  ++kya+ va  +g +ht++ +t ++++d
  PHY93_06590|PHY93_06590 208 INTRLVSAIKKRLQSDAEVGFLLSGGLDSSLVCAIAQNLNPkKAIRTFSIGM-TDDAIDSKYAQDVATFIGCNHTNVTMTTKDVVD 292
                              567899**********************************9889********.99******************************* PP

             Asn_synthase  87 alpdviyhlee..pfadrsaiplyllsrlak.rkgvkvvLsGeGaDElfgGYpyfykaalsr 145
                              al +viyhle   +++ r++i +yl++++++ ++++kv+LsGe +DElf GY+y+  a+  +
  PHY93_06590|PHY93_06590 293 ALSEVIYHLESwdITTVRASIGMYLVCKYIReNTKIKVLLSGEVSDELF-GYKYTDFAPNAS 353
                              ******************************65899**************.9**998888544 PP

  == domain 2  score: 119.1 bits;  conditional E-value: 1.2e-37
             Asn_synthase 202 egedelhrelyldlktllpgdllrkDrasmahglEaRvPflDhrlvevalrlppelklrg.gieKyiLRealeg..ylPeeileRp 284
                              ++++e+++e + ++++l+ +d+lr+Dr+  ah++EaRvPf D ++v ++++++pelk++  g +K +LRea++   +lP++il+R+
  PHY93_06590|PHY93_06590 350 PNASEFQKEAQKRIRELYLYDVLRADRCISAHSIEARVPFSDSDFVAFVMAINPELKMNTtGMGKFLLREAFKEdgILPDHILWRE 435
                              68999******************************************************99***********9877********** PP

             Asn_synthase 285 Kegfsapvgewklkgelrelaeellsds.............rlakeglldreaveelleeheagk 336
                              K +fs+ vg+++++ el+ lae++ sd+             + +ke+l++r+++e+++++ ++  
  PHY93_06590|PHY93_06590 436 KAAFSDAVGHSMVD-ELKALAERTYSDEdvknaaqkypyktPFTKESLMYRDIFENFYPNRAELI 499
                              ***********665.*******************************************9988833 PP

>> GATase_7  Glutamine amidotransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  118.6   0.0   4.7e-38   1.4e-34       3     122 ..      48     164 ..      46     165 .. 0.95

  Alignments for each domain:
  == domain 1  score: 118.6 bits;  conditional E-value: 4.7e-38
                 GATase_7   3 rlsi.idseagaQPmvssedgrlvivfnGeiyNykelreeLeakghrfrtksDtevllalleaewgeealerlnGmfAfaiwdeee 87 
                              rl+i ++s++g+QP++s  + +  +v+nGeiyNy  l++e+++  h+f ++sD+evll l+e++++++++e l+ ++A++iwd++ 
  PHY93_06590|PHY93_06590  48 RLAImDLSDHGRQPFYS--NLSNLLVCNGEIYNYPALKKECTK--HTFISSSDCEVLLPLYEQWGLKKMVESLDAEYALVIWDNKL 129
                              88998999********5..56679****************976..79*************************************** PP

                 GATase_7  88 krlllaRDrlGikPLyygedkgdallfaSelkall 122
                              ++l++aRD++Gi+PL+yg++k+++++f+Se+kall
  PHY93_06590|PHY93_06590 130 GKLVAARDPMGIRPLFYGKTKNGGIAFSSEVKALL 164
                              *********************88**********98 PP

>> GATase_6  Glutamine amidotransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   96.3   0.0   5.5e-31   1.6e-27      14     134 .]      42     159 ..      21     159 .. 0.91
   2 ?   -0.1   0.0      0.34     1e+03      56     103 ..     216     267 ..     208     291 .. 0.70
   3 ?   -1.2   0.0       0.7   2.1e+03      74     110 ..     295     330 ..     280     340 .. 0.80

  Alignments for each domain:
  == domain 1  score: 96.3 bits;  conditional E-value: 5.5e-31
                 GATase_6  14 valaHvRlaivglaeeegaqPfpsedgrlllvhNGeiynykelreelpalkglafrsrsDtevllalleelG.eevlerlrGmfaf 98 
                               +++  Rlai++l+ ++g qPf  ++   llv+NGeiyny++l++e  +   ++f s sD+evll l+e++G ++++e+l+  +a 
  PHY93_06590|PHY93_06590  42 GLIGFHRLAIMDLS-DHGRQPF-YSNLSNLLVCNGEIYNYPALKKECTK---HTFISSSDCEVLLPLYEQWGlKKMVESLDAEYAL 122
                              788999*******9.9999***.66777789*****************9...99999***************99999********* PP

                 GATase_6  99 aiwdkrentlilardrlgvkplyyavd.esglafase 134
                              +iwd++ ++l+ ard +g++pl+y+ + ++g+af+se
  PHY93_06590|PHY93_06590 123 VIWDNKLGKLVAARDPMGIRPLFYGKTkNGGIAFSSE 159
                              *************************99999*****98 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.34
                 GATase_6  56 lreelpalkgla..frsrsDtevllalleelG.eevlerlr.Gmfafaiwdk 103
                              ++++l++++ +   + +  D+ +++a++++l  +++++++  Gm  +ai +k
  PHY93_06590|PHY93_06590 216 IKKRLQSDAEVGflLSGGLDSSLVCAIAQNLNpKKAIRTFSiGMTDDAIDSK 267
                              5666776555554456688*******99999877888555426766666555 PP

  == domain 3  score: -1.2 bits;  conditional E-value: 0.7
                 GATase_6  74 tevllalleelGeevlerlrGmfafaiwdkrentlil 110
                              +ev+ +l e+++  ++++  Gm+ ++ + ++++++ +
  PHY93_06590|PHY93_06590 295 SEVIYHL-ESWDITTVRASIGMYLVCKYIRENTKIKV 330
                              6777776.59999999999999999999887777655 PP

>> DUF3700  Aluminium induced protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.5   0.0   7.6e-11   2.3e-07     123     196 ..     110     182 ..     105     190 .. 0.93
   2 ?   -3.8   0.0       2.4   7.1e+03      29      65 ..     292     328 ..     280     341 .. 0.71

  Alignments for each domain:
  == domain 1  score: 30.5 bits;  conditional E-value: 7.6e-11
                  DUF3700 123 dqvvkdleGkfafvlydskaktvfvaldadgsvplyWGiaadgsvvisddlelvkksCgksfapfPkGclftse 196
                              +++v+ l+ ++a+v++d+k +++++a+d  g  pl++G + +g +++s +++ + + C   + pfP G  +  +
  PHY93_06590|PHY93_06590 110 KKMVESLDAEYALVIWDNKLGKLVAARDPMGIRPLFYGKTKNGGIAFSSEVKALLDFCDE-IKPFPPGHYYDGD 182
                              689*******************************************************75.78*****999765 PP

  == domain 2  score: -3.8 bits;  conditional E-value: 2.4
                  DUF3700  29 klaeellekflslkpeavsvnlgdsallayssekesp 65 
                              +  +e++ +++s+   +v  ++g + +  y++e+++ 
  PHY93_06590|PHY93_06590 292 DALSEVIYHLESWDITTVRASIGMYLVCKYIRENTKI 328
                              5566788888888889999999988888888887764 PP

>> NAD_synthase  NAD synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.5   0.1   7.1e-08   0.00021       5     145 ..     212     349 ..     208     369 .. 0.67

  Alignments for each domain:
  == domain 1  score: 20.5 bits;  conditional E-value: 7.1e-08
                              HHHHHHHHHHHCTTSEEEEEE-SSHHHHHHHHHHHHHHTCGEEEEEE--SSSTTHHHHHHHHHHHHHHTSEEEE-..--HHHHHHH CS
             NAD_synthase   5 lvdflkeyvkkagakgvvlGlSGGvDSslvaalavkalgkenvlalllPssvsseedvedalalaenlgievkti..dikpivraf 88 
                              lv  +k+ +++    g++  lSGG+DSslv a+a+++  k+ + +  + + + +  d + a+ +a  +g + +++    k++v a+
  PHY93_06590|PHY93_06590 212 LVSAIKKRLQSDAEVGFL--LSGGLDSSLVCAIAQNLNPKKAIRTFSI-GMTDDAIDSKYAQDVATFIGCNHTNVtmTTKDVVDAL 294
                              556666666665555554..8***************996666666665.6677777888888888888777665511568899999 PP

                              HHHHHHHH-HHHHHHHHHHHHHHHHHHH.HHHHTEEEB---BHHHHTTT-S-TTTTT- CS
             NAD_synthase  89 eqelkeakedlakgNlkaRiRmailyai.anklnllvlgTgnksElvvGyfTkyGDga 145
                              ++ + + +       ++a i m +  ++  ++++  vl  g+ s+ + Gy  ky D a
  PHY93_06590|PHY93_06590 295 SEVIYHLE-SWDITTVRASIGMYLVCKYiRENTKIKVLLSGEVSDELFGY--KYTDFA 349
                              99665555.44555677777776554330344444466667777778888..566655 PP

>> QueC  Queuosine biosynthesis protein QueC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   1.9e-05     0.058       5      62 ..     229     286 ..     226     302 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 1.9e-05
                              E--SSHHHHHHHHHHHHH-SEEEEEEEESS-T.TSHHHHHHHHHHHHT--.-EEEEE-G CS
                     QueC   5 llSGGlDSttvlalakkegkevealtfdYgqr.hkkeleaakkiakelgveehkildld 62 
                              llSGGlDS+ v a+a++   + ++ tf+ g    +++ ++a+++a+ +g  +h+ ++++
  PHY93_06590|PHY93_06590 229 LLSGGLDSSLVCAIAQNLNPKKAIRTFSIGMTdDAIDSKYAQDVATFIGC-NHTNVTMT 286
                              89***************999999999**9*998999***********999.88888776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (528 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       564  (0.0314574); expected 358.6 (0.02)
Passed bias filter:                      517  (0.028836); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.63u 0.27s 00:00:00.90 Elapsed: 00:00:00.43
# Mc/sec: 3689.93
//
Query:       PHY93_06595|PHY93_06595  [L=210]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.4e-18   67.5   0.0      2e-18   67.0   0.0    1.1  1  PseudoU_synth_2  RNA pseudouridylate synthase


Domain annotation for each model (and alignments):
>> PseudoU_synth_2  RNA pseudouridylate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.0   0.0   1.1e-22     2e-18       1     156 [.      11     157 ..      11     161 .. 0.82

  Alignments for each domain:
  == domain 1  score: 67.0 bits;  conditional E-value: 1.1e-22
          PseudoU_synth_2   1 dlvvvnKPagvpvqpeakdgsekekettatssrae.eekkelklvhRLDkatsGllllAksseaanklakafeerkvrKkYlalvf 85 
                              ++++v+K  +v + p       +e+ +       e +  k+l +vhRLD++++Gl+++A ++ea ++++  fe+++++K+Y a+++
  PHY93_06595|PHY93_06595  11 HFIIVDKAPHVLSVPSR---LGREDPRACLGHILEaDLGKSLFPVHRLDYEVQGLIIFALTPEAGRAANAWFENKSIQKTYSAITK 93 
                              68999999999999999...666666666666666577899********************************************7 PP

          PseudoU_synth_2  86 gapeeeegaikkkiskd..tekqegarrkaeeldgkkavtylkvlksgsseksakvslveleletGrkhQiRv 156
                                   ++ga++   s +   +   g++r  e  +gk++ t+ k ++ +    +++ s  el ++tGr hQ+R 
  PHY93_06595|PHY93_06595  94 -----SSGAFEIGASYEwkSKLLRGKKRAYESPHGKDSLTRAKLISID----ENGFSHWELMPITGRSHQLRY 157
                              .....44444444444222223446666677889**************....9*******************5 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (210 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       349  (0.0194657); expected 358.6 (0.02)
Passed bias filter:                      332  (0.0185175); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1584.14
//
Query:       PHY93_06600|PHY93_06600  [L=132]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
       0.12   12.5   0.0       0.17   12.1   0.0    1.4  1  Flavi_glycop_C  Flavivirus glycoprotein, immunoglobulin-like 


Domain annotation for each model (and alignments):
>> Flavi_glycop_C  Flavivirus glycoprotein, immunoglobulin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   9.4e-06      0.17      13      73 ..      32      95 ..      21     122 .. 0.74

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 9.4e-06
                             S--EE-SSS-EEEEEEE-SS-..-SEE--.EE.EEETTS-BESS-B-SSS-EES-TTS-EEEEE CS
           Flavi_glycop_C 13 kevaetqhgtvlvqvkveskd..apckipviv.addekaviqkgilvtvnpivsdkedevliev 73
                             k  ++ q   + +q k ++k   +   +p +  a+ ek   +k +l+ vnp   ++ +ev ie+
  PHY93_06600|PHY93_06600 32 KADTNPQMINLNMQFKAKNKTlkSDLSMPFYQtAELEKHFDNKNVLIEVNPRRGKNSNEVAIEM 95
                             4445555556667777666541145567876515557788899*******************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (132 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       824  (0.0459591); expected 358.6 (0.02)
Passed bias filter:                      500  (0.0278878); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 989.52
//
Query:       PHY93_06605|PHY93_06605  [L=376]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (376 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       651  (0.0363099); expected 358.6 (0.02)
Passed bias filter:                      387  (0.0215851); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.20s 00:00:00.73 Elapsed: 00:00:00.39
# Mc/sec: 2903.79
//
Query:       PHY93_05445|PHY93_05445  [L=213]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    4.1e-31  108.4   0.0    4.7e-31  108.2   0.0    1.0  1  Aldolase_II  Class II Aldolase and Adducin N-terminal domain


Domain annotation for each model (and alignments):
>> Aldolase_II  Class II Aldolase and Adducin N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  108.2   0.0   2.6e-35   4.7e-31       2     186 .]      15     209 ..      14     209 .. 0.84

  Alignments for each domain:
  == domain 1  score: 108.2 bits;  conditional E-value: 2.6e-35
                              HHHHHHHHHHHTTSSCTTBCEEEEEET.STTEEEEEBTSS-GGGHTGGGEEEEETTSCEEEEC..ECSSSTB-TTHHHHHHHHHH- CS
              Aldolase_II   2 elaeasrllarrglvegtgGniSvrvp.eedsflitpsgvdfeeltaedlvvvdldsgevveg..kekggkpssetplHlaiykar 84 
                              +la + r +  +g + +t+Gn S+r++ ++d  l+  sg+d+++ t+++++ + ++  ++++    + g+k s et +Hl iy+  
  PHY93_05445|PHY93_05445  15 KLAMLVRVMNSLGHNPATSGNYSLRSKtSPDIALVSESGIDKSKFTEDNFLPIYFE-TRKMHPdyIDTGRKSSDETDIHLTIYQ-I 98 
                              789999*******************775677777********************98.6666556645688999***********.5 PP

                              TT-SEEEEE--HHHHHHHTCCSTSCHCCSSHHHHC.HSS..........SEEEEES-SSTTCHHHHHHHHHHHH.H.S-SEEEETT CS
              Aldolase_II  85 pdaravvHtHspaavalsalagkeglppltqeaaklllg..........devpvipyaapgteelgealaealk.e.dakavllrn 158
                              ++a++v+H+H  + ++++ l+  +glp  t e  +ll+g           ++p++++++ +  +l+e++   +  + ++ ++llr+
  PHY93_05445|PHY93_05445  99 TKANCVLHSHLLDSLLFADLF--KGLPYATIENLELLKGfrgikthelkINIPCFDNTQ-DIALLAEQIKPSILeQkNNYGLLLRG 181
                              9*****************996..5666655555554444555555566678********.99999999999988535778****** PP

                              TEEEEEESSHHHHHHHHHHHHHHHHHHH CS
              Aldolase_II 159 HGlltvGetleeAvalaetleeaaeiql 186
                              HG++++G+++eeA++++e+le+ ++ +l
  PHY93_05445|PHY93_05445 182 HGVYVWGDSVEEAKRHLEVLEYIFKYYL 209
                              ***********************99875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (213 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       299  (0.0166769); expected 358.6 (0.02)
Passed bias filter:                      262  (0.0146132); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.20s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1606.12
//
Query:       PHY93_06610|PHY93_06610  [L=145]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.1e-47  159.9   0.0    2.5e-47  159.7   0.0    1.0  1  SufE      Fe-S metabolism associated domain
  ------ inclusion threshold ------
      0.066   13.3   0.5       0.12   12.5   0.1    1.6  2  TssO      Type VI secretion system, TssO


Domain annotation for each model (and alignments):
>> SufE  Fe-S metabolism associated domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  159.7   0.0   2.7e-51   2.5e-47       2     120 ..      15     132 ..      14     134 .. 0.98

  Alignments for each domain:
  == domain 1  score: 159.7 bits;  conditional E-value: 2.7e-51
                              HHHHHSSSHHHHHHHHHHHHHTS----CCCCCCCEEECTSSSEEEEEEEEETTSEEEEEEESSHHHHHHHHHHHHHCTTEECCCCT CS
                     SufE   2 eefsllddweeryrylielgkklpplpeelkteenkvkGCqsqvwlaaeledgklkfeadsdarivkGllalllevlsgktpeeil 87 
                              ++f+++ +we ry++lielgkk+pp++ee kteenkvkGCqsqvwl+ael  +k++f+adsda ivkG++all+ v+s+ tp+eil
  PHY93_06610|PHY93_06610  15 NDFKNFGEWEARYKHLIELGKKMPPMKEEFKTEENKVKGCQSQVWLHAELIGDKIHFSADSDASIVKGIVALLVYVYSESTPDEIL 100
                              68**************************************************9********************************* PP

                              CC-TCHHHHHTTSHHHHCHHHHHHHHHHHHHHH CS
                     SufE  88 avdledfleelglsehlspsRsnGlaamlkrik 120
                               +++ +fle++gl+ehls+sR+nGl++m+k+i 
  PHY93_06610|PHY93_06610 101 MTKP-TFLEDIGLREHLSMSRANGLTSMVKQIS 132
                              ****.**************************95 PP

>> TssO  Type VI secretion system, TssO
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.1   1.3e-05      0.12      85     139 ..       4      56 ..       1      58 [. 0.77
   2 ?   -2.7   0.0      0.62   5.5e+03     114     125 ..     131     142 ..     120     144 .. 0.73

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 1.3e-05
                     TssO  85 neIkkdlndikntygk.nssdeRykmyaqiakfykmlledKkelksvseniklfkk 139
                              + I+++++++kn++++  +++ Ryk+ + + k        K+e k+ ++++k +++
  PHY93_06610|PHY93_06610   4 QPIMQRIEKLKNDFKNfGEWEARYKHLIELGKKMPP---MKEEFKTEENKVKGCQS 56 
                              779************99******9998888876555...46666666666666665 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 0.62
                     TssO 114 akfykmlledKk 125
                              ++fy m ++ K 
  PHY93_06610|PHY93_06610 131 ISFYAMAFKAKL 142
                              578888888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (145 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       493  (0.0274974); expected 358.6 (0.02)
Passed bias filter:                      385  (0.0214736); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1107.08
//
Query:       PHY93_06615|PHY93_06615  [L=326]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
   6.1e-141  469.2   0.0   6.9e-141  469.0   0.0    1.0  1  ALAD          Delta-aminolevulinic acid dehydratase
  ------ inclusion threshold ------
       0.15   11.5   0.0       0.46    9.9   0.0    1.8  2  AP_endonuc_2  Xylose isomerase-like TIM barrel


Domain annotation for each model (and alignments):
>> ALAD  Delta-aminolevulinic acid dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  469.0   0.0  7.7e-145  6.9e-141       2     316 ..       5     323 ..       4     324 .. 0.98

  Alignments for each domain:
  == domain 1  score: 469.0 bits;  conditional E-value: 7.7e-145
                              --GGGGGSSHHHHHHC-S----GGGEEEEEEEESS-SS-EE-TTSTT-EEEEGGGHHHHHHHHHHTT--EEEEEEE-SS..-BSS- CS
                     ALAD   2 krlrrlrksealrelvretrlsasdlilplfvkegeeekeeiksmpgvyrlsvdelvkeveelvklgikavllFgvpee..kdeeg 85 
                              +r+rr+r+++a+r+l+ret+ls++dli+plfv+eg++ +e+i smpg+ rls+d l++e++el++lgi+ v lF v ++  kd+++
  PHY93_06615|PHY93_06615   5 SRPRRNRQTPAIRNLIRETHLSTHDLIAPLFVMEGKNISEPILSMPGISRLSIDLLIRECKELYDLGIPCVSLFPVIDNklKDSRA 90 
                              69************************************************************************9985558***** PP

                              GGGGSTTSHHHHHHHHHHHH-TTSEEEEEE-STTTBSS-SSSEEE..SS.EEHHHHHHHHHHHHHHHHHCT-SEEEE-S--TTHHH CS
                     ALAD  86 sealnedglvqrairaikeevpelvvitDvclceytshGhcgile..ekevdndetlellakvavsqaeaGadivapSdmmDgrva 169
                              se++n++gl+qrair++k+++p+l+v+tDv+l++y+s+Gh+g+++  ++e++nd+tl++lak++++qa++G di++pSdmmDgrv+
  PHY93_06615|PHY93_06615  91 SESYNPSGLYQRAIREVKNALPDLLVMTDVALDPYSSDGHDGLVDprTGEILNDATLDVLAKMSIVQAKSGSDILGPSDMMDGRVG 176
                              ********************************************722556************************************ PP

                              HHHHHHHHTT-TT-EEB---EEB--CGGHHHHHHHT---S.S--TTTSB-TT-HHHHHHHHHHHHHTT-SBEEEES-TTGHHHHHH CS
                     ALAD 170 aireaLdeagfeevailsYsaKyaSafYgPFrdaaesapsfgdrktYqmdpansrealreveldleeGADivmvKPalaylDiire 255
                               ir+aLde+++++ +i+sY+aKyaSafYgPFrda++sap++gd+ktYqmd+an realre+ ld +eGADi+mvKP+l+ylD+i++
  PHY93_06615|PHY93_06615 177 FIRDALDEENLSKASIMSYAAKYASAFYGPFRDALGSAPKKGDKKTYQMDYANVREALREAYLDESEGADILMVKPGLPYLDVIKT 262
                              ************************************************************************************** PP

                              HHTT-SS-EEEEE-HHHHHHHHHHHHTTSS-HHHHHHHHHHHHHHTT-SEEEETTHHHHHH CS
                     ALAD 256 vkeefdlpvaayqvSGEYamikaaaengwldekkvvlEsllsikRAGadliltYfakevak 316
                              ++++++lp+aay+vSGEYam+kaaae+gw+d+++v++E+l s+kRAG+d+iltYfake+a+
  PHY93_06615|PHY93_06615 263 LRDNTTLPLAAYNVSGEYAMVKAAAEKGWIDNDSVMIEMLWSFKRAGSDMILTYFAKEAAR 323
                              **********************************************************997 PP

>> AP_endonuc_2  Xylose isomerase-like TIM barrel
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.0   5.2e-05      0.46      65     115 ..      53     113 ..       5     142 .. 0.70
   2 ?   -2.5   0.0      0.31   2.8e+03      96     116 ..     217     237 ..     185     247 .. 0.78

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 5.2e-05
                              HHHHHHHHHHHHHHHHHHTBSEEEEEBCC..........GBCTTTSGHHHHHHHHHHHHHH CS
             AP_endonuc_2  65 reesvdalkraielaaaLGapllvlhpGt..........agagpkgseeeawerlaeslne 115
                              ++ s+d l r+++  ++LG+p++ l+p +           ++ p+g ++ a++ + ++l +
  PHY93_06615|PHY93_06615  53 SRLSIDLLIRECKELYDLGIPCVSLFPVIdnklkdsrasESYNPSGLYQRAIREVKNALPD 113
                              5578************************988886655554444444444555555544444 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 0.31
                              CTTTSGHHHHHHHHHHHHHHH CS
             AP_endonuc_2  96 agpkgseeeawerlaeslnel 116
                               g+k++++ ++++++e+l+e+
  PHY93_06615|PHY93_06615 217 KGDKKTYQMDYANVREALREA 237
                              455666667788888888775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (326 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       396  (0.0220871); expected 358.6 (0.02)
Passed bias filter:                      384  (0.0214178); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.40
# Mc/sec: 2434.09
//
Query:       PHY93_06620|PHY93_06620  [L=308]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.4e-18   67.4   0.0    3.4e-18   67.0   0.0    1.2  1  Trypsin_2      Trypsin-like peptidase domain
    7.4e-14   52.1   0.1    3.5e-13   49.9   0.0    1.9  2  Trypsin        Trypsin
    7.1e-05   21.7   0.4    0.00054   18.7   0.0    2.0  2  Peptidase_S46  Peptidase S46
  ------ inclusion threshold ------
      0.012   15.2   2.7       0.23   10.9   0.1    2.2  2  DUF31          Putative peptidase (DUF31)
      0.024   14.5   0.0      0.063   13.1   0.0    1.8  1  Peptidase_S7   Peptidase S7, Flavivirus NS3 serine protease


Domain annotation for each model (and alignments):
>> Trypsin_2  Trypsin-like peptidase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.0   0.0   9.4e-22   3.4e-18       1     150 []     107     268 ..     107     268 .. 0.82

  Alignments for each domain:
  == domain 1  score: 67.0 bits;  conditional E-value: 9.4e-22
                Trypsin_2   1 GsGflvgsdglilTnaHvv......dsadgaav.........kaikkkveeagadgrevpakvvaadpel.DlAllkvssderagl 70 
                              +sGfl++++  ++T+ H++      +                 ++++k + + + ++  + k v+ d e  D+A++++ ++  ++ 
  PHY93_06620|PHY93_06620 107 CSGFLIAPNK-LVTAGHCMfnqqecS------SnqwvfdykeGTTQFKKSNVYSCKKIIAQKYVYNDKEVnDYAVIEL-DRNVTDR 184
                              79********.********8764431......222345677766667777888899999999999998778*******.8899999 PP

                Trypsin_2  71 pplplgpsealkggepvyvvGyplggeksgsvssGivsgvvesesaasgegesfl......qtdaatspGsSGGplfd.sdGrvvG 149
                              +pl+ +    +k  +pv v+G+plg +++  +   +vs+ +e  + ++++ +s+l      +t+ + ++G+SG+p+f+  +G+v G
  PHY93_06620|PHY93_06620 185 APLTHRKIGRVKLNTPVLVIGHPLGLPMK-ITDGARVSRMNE--NERERKFHSWLlrenyfTTNLDAYGGNSGSPVFNkNTGKVEG 267
                              999988855566666*************7.777778899888..88888888888999999*****************999**988 PP

                Trypsin_2 150 l 150
                              +
  PHY93_06620|PHY93_06620 268 I 268
                              6 PP

>> Trypsin  Trypsin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0      0.29     1e+03      89     112 ..       9      32 ..       4      42 .. 0.86
   2 !   49.9   0.0   9.7e-17   3.5e-13      22     199 ..     106     272 ..      94     280 .. 0.76

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.29
                              EEEEEESSSSTSBSSBHCCBBCST CS
                  Trypsin  89 iallklkepvklgdtvrpiclpaa 112
                              +al+ l  +v+ + ++rpi+l ++
  PHY93_06620|PHY93_06620   9 VALMSLLLSVNSSANTRPIDLETT 32 
                              799999999************985 PP

  == domain 2  score: 49.9 bits;  conditional E-value: 9.7e-17
                              TCEEEEEEEEEETTEEEEEGGGTTT...GGGEEEEESE.SBTTSCTTTEEEEEEEEEEEETTEBTTTTTTTEEEEEESSSSTSBSS CS
                  Trypsin  22 sgkhlCgGslisenwvlTAaHCvsn...asdvkvvlge.hnlkksegkeqklkvekvivhpnynpstldnDiallklkepvklgdt 103
                              +    C+G+li +n ++TA+HC+ n     + + ++ + ++ + + +k+++++ +k+i ++ +  ++  nD+a+++l+++v+    
  PHY93_06620|PHY93_06620 106 E----CSGFLIAPNKLVTAGHCMFNqqeC-SSNQWVFDyKEGTTQFKKSNVYSCKKIIAQKYVYNDKEVNDYAVIELDRNVTDRAP 186
                              3....*******************96642.223355554667777777788888886665554444469***********555555 PP

                              BHCCBBCSTTHTTSTTTEEEEEESSBSSTSSBSSBEEEEEEEEEEHHHHHHH.TTTTSTTTEEEEESTTSSSBCTTTTTTSEEEET CS
                  Trypsin 104 vrpiclpaassslpvgttclvsGwgrtkekgksdtlqevevpvvsretcksa.ykgkvtenmlcagakeggkdacqGDSGGPlvcs 188
                                  ++ +    ++ +t +lv+G +     +       ++v+ +++++ +++ ++  ++en++ +       da  G+SG+P++++
  PHY93_06620|PHY93_06620 187 LTHRKIGR----VKLNTPVLVIGHPLGLPMK---ITDGARVSRMNENERERKfHSWLLRENYFTTNL-----DAYGGNSGSPVFNK 260
                              55555555....79999******99976666...666777888888777776544459999999999.....9999********** PP

                              TT.EEEEEEEEE CS
                  Trypsin 189 dg.elvGivswg 199
                              ++ ++ Gi+  g
  PHY93_06620|PHY93_06620 261 NTgKVEGILVQG 272
                              **9999998766 PP

>> Peptidase_S46  Peptidase S46
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.9   0.1     0.038   1.3e+02      46      70 ..     104     127 ..      95     135 .. 0.83
   2 !   18.7   0.0   1.5e-07   0.00054     625     651 ..     242     269 ..     224     283 .. 0.82

  Alignments for each domain:
  == domain 1  score: 0.9 bits;  conditional E-value: 0.038
                              TTTEE-EE-STT-EEEE-HHHHHHH CS
            Peptidase_S46  46 lggCtasfVSpeGLvlTNHHCayga 70 
                               g C++ +++p+ Lv T  HC+++ 
  PHY93_06620|PHY93_06620 104 VGECSGFLIAPNKLV-TAGHCMFNQ 127
                              689**********97.8999*9986 PP

  == domain 2  score: 18.7 bits;  conditional E-value: 1.5e-07
                              EEES----TT-TT-EEE-TT.S-EEEEE CS
            Peptidase_S46 625 flstnDitGGNSGSPvlngk.gelvGla 651
                              f ++ D  GGNSGSPv+n++ g++ G+ 
  PHY93_06620|PHY93_06620 242 FTTNLDAYGGNSGSPVFNKNtGKVEGIL 269
                              89999*************9735665665 PP

>> DUF31  Putative peptidase (DUF31)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.2    0.0051        18     152     178 ..     146     183 ..      94     235 .. 0.75
   2 ?   10.9   0.1   6.5e-05      0.23     343     365 ..     240     262 ..     209     270 .. 0.74

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.0051
                    DUF31 152 p............tqkekykkieeyaDFAVleidfeksk 178
                                           +qk+ y+++ e  D+AV+e+d + ++
  PHY93_06620|PHY93_06620 146 FkksnvysckkiiAQKYVYNDK-EVNDYAVIELDRNVTD 183
                              0334444455555677777776.689*******987765 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 6.5e-05
                    DUF31 343 gyllkssalagGaSGSlvrnkdn 365
                              +y +++ + +gG SGS+v+nk+ 
  PHY93_06620|PHY93_06620 240 NYFTTNLDAYGGNSGSPVFNKNT 262
                              7999999*************984 PP

>> Peptidase_S7  Peptidase S7, Flavivirus NS3 serine protease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   1.8e-05     0.063      62     112 ..     152     268 ..     111     275 .. 0.68

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 1.8e-05
                              EEESSSXXXXXXXXTXXEEEE................................................................. CS
             Peptidase_S7  62 vkyggslklqgkylgeeyqly................................................................. 82 
                              ++  +    +  y+++e+  y                                                                 
  PHY93_06620|PHY93_06620 152 YSCKKIIAQKYVYNDKEVNDYavieldrnvtdraplthrkigrvklntpvlvighplglpmkitdgarvsrmnenererkfhswll 237
                              44444444455555555555566666666666666666666666666666666666666666666666666666666666666666 PP

                              E.EEEEEXXXXXTT-TTSEEE-TT.SXEEEE CS
             Peptidase_S7  83 GyglgitdlnlssGsSGSlvlnqn.kqivgi 112
                               +++  t+l+  +G SGS+v+n+n +++ gi
  PHY93_06620|PHY93_06620 238 RENYFTTNLDAYGGNSGSPVFNKNtGKVEGI 268
                              6678899***************984577777 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (308 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       558  (0.0311228); expected 358.6 (0.02)
Passed bias filter:                      380  (0.0211947); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.53u 0.21s 00:00:00.74 Elapsed: 00:00:00.40
# Mc/sec: 2305.82
//
Query:       PHY93_06625|PHY93_06625  [L=279]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.5e-08   34.0  13.4    4.4e-05   23.0   3.2    3.2  2  Hexapep    Bacterial transferase hexapeptide (six repeats)
  ------ inclusion threshold ------
      0.011   16.1   0.0      0.018   15.4   0.0    1.4  1  SATase_N   Serine acetyltransferase, N-terminal
       0.24   11.2   9.2       0.81    9.5   0.2    3.6  3  Hexapep_2  Hexapeptide repeat of succinyl-transferase


Domain annotation for each model (and alignments):
>> Hexapep  Bacterial transferase hexapeptide (six repeats)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.0   3.2   7.4e-09   4.4e-05       1      35 [.     161     197 ..     158     198 .. 0.96
   2 !   14.9   2.7   2.6e-06     0.016       1      34 [.     211     245 ..     211     247 .. 0.87

  Alignments for each domain:
  == domain 1  score: 23.0 bits;  conditional E-value: 7.4e-09
                              TEEEETTEEE-T..TEEEETTEEE-TTEEEETTEEEE CS
                  Hexapep   1 stvIGsnvlIgp..faviggnVkIGdnvkIgagvvig 35 
                              ++vIG+  +I++  ++vig+ ++IG++vkI  gv++g
  PHY93_06625|PHY93_06625 161 GAVIGESFFIDHgtGVVIGETAVIGNHVKIYQGVTLG 197
                              589********************************98 PP

  == domain 2  score: 14.9 bits;  conditional E-value: 2.6e-06
                              TEEEETTEEE-T.TEEEETTEEE-TTEEEETTEEE CS
                  Hexapep   1 stvIGsnvlIgp.faviggnVkIGdnvkIgagvvi 34 
                              +++I ++++I +  +++gg ++IG++++Ig +v  
  PHY93_06625|PHY93_06625 211 HPTINDHCVIYShATILGGETIIGEHSVIGGNVWM 245
                              57899*******77788999***********9965 PP

>> SATase_N  Serine acetyltransferase, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.4   0.0     3e-06     0.018      68     104 ..      90     126 ..      41     127 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 3e-06
                              HHHHHHHHHHHHHHHH-TT---THHHHHH-HHHHHHH CS
                 SATase_N  68 eiveaaraDlkAvlerDpAcksylepllyfKGFhAlq 104
                               +  ++++D kA+l+ DpA+k+++e+ll + G  A+ 
  PHY93_06625|PHY93_06625  90 PMSIEIEKDAKALLSGDPAAKDLIEVLLCYPGLFAIT 126
                              5667899*************************99986 PP

>> Hexapep_2  Hexapeptide repeat of succinyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0      0.66   3.9e+03      13      20 ..      53      60 ..      52      62 .. 0.65
   2 ?    2.3   4.0     0.024   1.4e+02      16      30 ..     174     188 ..     157     198 .. 0.70
   3 ?    9.5   0.2   0.00013      0.81       4      31 ..     214     244 ..     213     247 .. 0.79

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 0.66
                             T-EESEEE CS
                Hexapep_2 13 nagiGvsl 20
                             n++iG +l
  PHY93_06625|PHY93_06625 53 NSVIGMHL 60
                             77777665 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.024
                              ESEEE-TT-EE-TT- CS
                Hexapep_2  16 iGvslGdncvvgaGv 30 
                              +Gv +G+ +v+g+ v
  PHY93_06625|PHY93_06625 174 TGVVIGETAVIGNHV 188
                              477777777777744 PP

  == domain 3  score: 9.5 bits;  conditional E-value: 0.00013
                              E-TT-EE-TT-EE..S.EEE-TT-EE-TT-E CS
                Hexapep_2   4 IGdnCliGanagi..G.vslGdncvvgaGvv 31 
                              I d C+i + a+i  G +++G+ +v+g +v 
  PHY93_06625|PHY93_06625 214 INDHCVIYSHATIlgGeTIIGEHSVIGGNVW 244
                              5588999999998854899999999999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (279 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       333  (0.0185733); expected 358.6 (0.02)
Passed bias filter:                      279  (0.0155614); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.42
# Mc/sec: 1986.84
//
Query:       PHY93_06630|PHY93_06630  [L=305]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.4e-60  205.2   0.0    1.6e-60  205.0   0.0    1.0  1  PALP      Pyridoxal-phosphate dependent enzyme


Domain annotation for each model (and alignments):
>> PALP  Pyridoxal-phosphate dependent enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  205.0   0.0   8.9e-65   1.6e-60       3     290 ..       8     291 ..       6     295 .. 0.94

  Alignments for each domain:
  == domain 1  score: 205.0 bits;  conditional E-value: 8.9e-65
                              GCSSS--EEEECCTCCCCCCE...EEEEEGGGSTTSBTTHHHHHHHHHHHHTT...TTTSEEEEEBSSHHHHHHHHHHHHHT-EEE CS
                     PALP   3 lgigpTPlvrlprlskelgvp...lflKlEslnptgSfKdRgaeyllarlkeg...tgaktvveassGNhgralAaaaallGlkvt 82 
                                ig+TP+v++++l  e   +   ++lKlE  np+gS+KdR a  +++++++    ++ + ++e +sGN+g++lA++aa+ G++ +
  PHY93_06630|PHY93_06630   8 ETIGRTPIVKINKLFPEATKKnieVYLKLERSNPGGSIKDRIALAMVEDAEKSgllKKDTLIIEPTSGNTGVGLAMVAAVKGYRII 93 
                              679************555544588*************************88888**9***************************** PP

                              EEEETTS-HHHHHHHHHTT-EEEEE..CCHHHHHHHHHHHHHHHSTTCEE--TTTSHHHHHH.HHTHHHHHHHHTTTTEEEEEEE- CS
                     PALP  83 ivvpadaspekvallrllGaevvev..ggdydeavaaaaelaaegegaylvsqfdnptvieg.ygtiglEileqlggkpdavvvpv 165
                              + +p+++s e+ +l+ l+Gae++++  +++ + a ++a+el +e+++  +  qf+n  ++e+  +t++ Ei+e++++ +d ++++v
  PHY93_06630|PHY93_06630  94 LTMPESMSIERPRLMALYGAEIMLTpkEKGMKGAIERARELVSENTNSWMPMQFENRSNVEAhRQTTAKEIAEDFPNGLDFMIAGV 179
                              *************************88777******************************************************** PP

                              SSSHHHHHHHHHHHHHSTT-EEEEEEECTTCGGTTCCS..S.SS..B.SSS.CCSTCS.CGTTCCHHHHSEEEEEEEEEEHHHHHH CS
                     PALP 166 GgGgliaGiaaglkerrpdvrvigvepegsdalarslragrrvtvpvsdtiadglavg.spselafelldrlvdeivtvsdeeale 250
                              G+Gg i+G+a  lk+++++  v++vepe s+ l ++          ++++ ++g+++g  p+ l+ +l+d+ ++    +  ee ++
  PHY93_06630|PHY93_06630 180 GTGGHITGCADILKKQFQKLVVLAVEPEDSAILSGGP---------PGPHPIQGIGAGfIPTILNRDLIDGVIK----IQKEESYQ 252
                              ***********************************99.........88**********8888888877766666....******** PP

                              HHHHHHHHHSB-B-HHHHHHHHHHHHHHHHCCTTCEEEEE CS
                     PALP 251 amrllarregivvepssaaalaalklreagelkegdrvvv 290
                               +r  a++egi+++ ss+a+laa+ +++ +e++eg++v++
  PHY93_06630|PHY93_06630 253 FARDAAKKEGILLGISSGANLAAV-AQKISEMPEGSKVLT 291
                              ************************.**********98886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (305 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       497  (0.0277205); expected 358.6 (0.02)
Passed bias filter:                      471  (0.0262703); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.42
# Mc/sec: 2165.84
//
Query:       PHY93_06635|PHY93_06635  [L=398]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.079   13.3   0.8          1    9.7   0.0    2.7  3  DUF4894          Domain of unknown function (DUF4894)
       0.14   12.5   5.8          2    8.8   0.0    2.9  3  Stap_Strp_tox_C  Staphylococcal/Streptococcal toxin, beta-gra


Domain annotation for each model (and alignments):
>> DUF4894  Domain of unknown function (DUF4894)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.0      0.22     2e+03      58      90 ..      83     116 ..      50     124 .. 0.71
   2 ?    9.7   0.0   0.00012         1      59     118 ..     267     323 ..     264     326 .. 0.83
   3 ?    0.7   0.0     0.074   6.6e+02      48      80 ..     342     374 ..     308     391 .. 0.71

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 0.22
                  DUF4894  58 lkssyvseidfeekkvvLkkgir.vkfnewedle 90 
                               +++y ++  f++ k+ L kg++  +   w ++e
  PHY93_06635|PHY93_06635  83 FEEAYATYRGFKNFKITLGKGVVkFQNLHWGVIE 116
                              5667888888999999999997414444566555 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.00012
                  DUF4894  59 kssyvseidfeekkvvLkkgirvkfnewedleekkekleelienaedrseYllssdGkll 118
                              ks++ s+ ++++++ +L+ g +  f e+ ++ ++ e l+      ++++  ++s+dG ++
  PHY93_06635|PHY93_06635 267 KSPFESYTTYRKNEYFLQTGLQYHFDEYWSVLTNLEYLHVK---DQAHTFTIFSQDGVFY 323
                              789999****************************9999765...3445555677777665 PP

  == domain 3  score: 0.7 bits;  conditional E-value: 0.074
                  DUF4894  48 dreilkklpvlkssyvseidfeekkvvLkkgir 80 
                              + e+  + ++ kss+++   + ekk+v k+g++
  PHY93_06635|PHY93_06635 342 KIEVGGQYKLSKSSFITTGVLYEKKIVAKNGVN 374
                              455555556789999999999999999999985 PP

>> Stap_Strp_tox_C  Staphylococcal/Streptococcal toxin, beta-grasp domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.1       0.5   4.5e+03      58      78 ..      67      87 ..      54     111 .. 0.61
   2 ?    8.8   0.0   0.00022         2      41      72 ..     210     242 ..     181     258 .. 0.84
   3 ?    4.9   1.2    0.0035        32      43     102 ..     271     330 ..     267     332 .. 0.93

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.5
          Stap_Strp_tox_C 58 klklalndekkisydlfdlge 78
                              +kl+++++ +++ +lf+  +
  PHY93_06635|PHY93_06635 67 AMKLNIDGNLSVQNNLFEEAY 87
                             556666666666666666554 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.00022
          Stap_Strp_tox_C  41 LikkyniY.ekeskyekGklklalndekkisyd 72 
                              L +k+++Y +++ ++++G++ ++++ ++k sy 
  PHY93_06635|PHY93_06635 210 LANKFELYkTQDWTFTTGQVYFKNKLQDKASYA 242
                              889*****556679*********9988888775 PP

  == domain 3  score: 4.9 bits;  conditional E-value: 0.0035
          Stap_Strp_tox_C  43 kkyniYekeskyekGklklalndekkisydlfdlgeedresilkkYsdNktinsdklhld 102
                              + y  Y+k++ + +  l+++ ++  ++  +l +l+ +d+ + ++++s+   ++  + +ld
  PHY93_06635|PHY93_06635 271 ESYTTYRKNEYFLQTGLQYHFDEYWSVLTNLEYLHVKDQAHTFTIFSQDGVFYTADSKLD 330
                              67999******************************************9999998887776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (398 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       533  (0.0297284); expected 358.6 (0.02)
Passed bias filter:                      301  (0.0167884); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.43
# Mc/sec: 2807.43
//
Query:       PHY93_06640|PHY93_06640  [L=62]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (62 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       718  (0.0400469); expected 358.6 (0.02)
Passed bias filter:                      491  (0.0273858); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 473.29
//
Query:       PHY93_06645|PHY93_06645  [L=62]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (62 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       963  (0.0537119); expected 358.6 (0.02)
Passed bias filter:                      244  (0.0136092); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.24s 00:00:00.63 Elapsed: 00:00:00.42
# Mc/sec: 446.72
//
Query:       PHY93_06650|PHY93_06650  [L=333]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00013   21.6   0.0    0.00029   20.5   0.0    1.5  1  MR_MLE_C  Enolase C-terminal domain-like


Domain annotation for each model (and alignments):
>> MR_MLE_C  Enolase C-terminal domain-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.5   0.0   1.6e-08   0.00029      17     177 ..     147     311 ..     136     329 .. 0.67

  Alignments for each domain:
  == domain 1  score: 20.5 bits;  conditional E-value: 1.6e-08
                              EEEEETSSS..HHHHHHHHHHHHHHHHTTTSTSEEEEE-TTTSBHHHHHHHHHHHGG.GTE......SEEESSSSTTTHHHHHHHH CS
                 MR_MLE_C  17 avKlkvggd..dvaedvervravreavgpgddvdlmvDanqawdlatAirvarelee.ldl......lwlEEPvppeddleglael 93 
                               +K+k+ ++  ++ e +e ++ + ++   ++d+ l++D n +++l++   ++++le  +++      +++EEP++   d ++  ++
  PHY93_06650|PHY93_06650 147 CLKIKIRPNlnNLNETIELIKSLFKQ---KPDILLRLDGNRRFELSDLTSYIEKLERgCGPllfsaiEYIEEPLKNAYDFHSFNQI 229
                              57888544444555555555555555...5678******************9999555553112222789****986667777777 PP

                              HHHHSSEEEESTTSSS.HHHHHHH..HHHTSESEEEEBHHHHTSHHHHHHHHHHHHHTT-EEEEBSC.SSHHHHHHHHHHHHTTTT CS
                 MR_MLE_C  94 rarasipiaagEslys.radfrel..leagavdivqpdvsrvgGitearkvaalaeafgvpvapHsg.sgglglaaslhlaaaipn 175
                                  s  ia++Esl      + +l  + +g   i+ p    + Gi+++ ++++ a+ f+ +v++ s  +++ +    l laa +p+
  PHY93_06650|PHY93_06650 230 Y---SYAIALDESLEVyKNKLTQLrnFPEGLNLILKPS---IFGISKSFEILKYASRFHHNVVISSTyETATAIRPLLYLAALTPG 309
                              7...469******9762233333300344555555554...458999999999999999999988842345555555666666665 PP

                              BE CS
                 MR_MLE_C 176 ll 177
                              + 
  PHY93_06650|PHY93_06650 310 TY 311
                              55 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (333 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       576  (0.0321267); expected 358.6 (0.02)
Passed bias filter:                      401  (0.022366); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.44
# Mc/sec: 2296.07
//
Query:       PHY93_06655|PHY93_06655  [L=294]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.5e-35  120.1  18.6    9.5e-35  120.1  18.6    1.4  1  UbiA      UbiA prenyltransferase family
  ------ inclusion threshold ------
        6.6    6.8   9.0       0.31   11.1   0.8    2.7  3  Jagunal   Jagunal, ER re-organisation during oogenesis


Domain annotation for each model (and alignments):
>> UbiA  UbiA prenyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  120.1  18.6   1.1e-38   9.5e-35       2     237 ..      18     260 ..      17     271 .. 0.87

  Alignments for each domain:
  == domain 1  score: 120.1 bits;  conditional E-value: 1.1e-38
                     UbiA   2 lipalvg..lalaaggspdlllllllllgtllaaaaanalNdyfDreiDadmert..pnRPlvsGris...pkealifaivllilg 80 
                              + p+++g  +a+ +++ +++ ++ll+ll++ll+++a+n+ Ndy+D   + d+e +  p R   +G+is    k+alif+++l++l 
  PHY93_06655|PHY93_06655  18 VAPVILGlmIAFIHQSYLNWIVALLTLLCALLMQIASNLANDYLDSLRGVDTEKRlgPTRVTHAGLISatsMKHALIFVLILAFLM 103
                              78999997766677889999**************************99999996668***999*****666666666666666665 PP

                     UbiA  81 llllalllnpltallgllalllyvvYt.g.lrlKrrtllgtvvggiafglppllgwaa.vtgslsllalllalavflltwaialan 163
                                 l+++ +p+++l+gll+l +++ Yt g ++l   +l g+v  +i+fg++++ g ++ + ++ls l ++l++  ++ +++i+ +n
  PHY93_06655|PHY93_06655 104 GTYLMWIGGPVIILIGLLSLYFAYGYTgGpFPLSHNGL-GEVAAFIFFGVIAVSGTTYlQIHQLSKLSIILGMGPGFISATILAIN 188
                              44447***********************88********.*******************87788899999999999*********** PP

                     UbiA 164 dlrdregDrkagiktlpvvlGrkaarillalllavlllallllllalllllylllalllaalallraarlvrrr 237
                              +lrd+e D +++++tl+v++G+   r+l+++l++  +++  +l++a    +++l+ + l++l++++ + ++ ++
  PHY93_06655|PHY93_06655 189 NLRDIETDTEVQKRTLAVRFGESFQRRLCIFLIISSSIL--ILVVAIAYHFIYLFPVSLLPLFFIKNWLNIYTK 260
                              ***************************877777766666..888889999999999999999999988887765 PP

>> Jagunal  Jagunal, ER re-organisation during oogenesis
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.1      0.24   2.1e+03      59      59 ..      34      34 ..      12      71 .. 0.57
   2 ?   -0.6   0.1      0.14   1.2e+03      43      61 ..      90     108 ..      77     131 .. 0.64
   3 ?   11.1   0.8   3.4e-05      0.31      91     179 ..     147     237 ..     141     244 .. 0.82

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.24
                  Jagunal 59 i 59
                             +
  PHY93_06655|PHY93_06655 34 Y 34
                             1 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 0.14
                  Jagunal  43 lhilllllmlakllaeild 61 
                               h+l+++l+la l+  +l 
  PHY93_06655|PHY93_06655  90 KHALIFVLILAFLMGTYLM 108
                              4555555555555544443 PP

  == domain 3  score: 11.1 bits;  conditional E-value: 3.4e-05
                  Jagunal  91 psllgllalkknkikllklyligtlvlgllpllygaveylkevleylkskease..eitllqgfplvvlwyifvlialqvhlfsly 174
                              ++++g+ a++     ++++    +++lg++p +++a+  + + l+ ++++++ +  ++++ +g ++    +if++i+  + ++ + 
  PHY93_06655|PHY93_06655 147 FIFFGVIAVSGTTYLQIHQLSKLSIILGMGPGFISATILAINNLRDIETDTEVQkrTLAVRFGESFQRRLCIFLIISSSILILVVA 232
                              689****************************888777666655555555554443578888889999999*******999999888 PP

                  Jagunal 175 fsakL 179
                              ++++ 
  PHY93_06655|PHY93_06655 233 IAYHF 237
                              88775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (294 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       974  (0.0543254); expected 358.6 (0.02)
Passed bias filter:                      361  (0.020135); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 2169.44
//
Query:       PHY93_05450|PHY93_05450  [L=384]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-69  235.3   0.0    1.3e-69  235.1   0.0    1.0  1  Aminotran_1_2    Aminotransferase class I and II
    1.1e-11   44.4   0.0    1.4e-11   44.0   0.0    1.2  1  Aminotran_5      Aminotransferase class-V
    1.3e-08   34.6   0.0    3.7e-08   33.1   0.0    1.7  2  DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
    2.9e-08   32.6   0.0    4.6e-08   32.0   0.0    1.2  1  Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
    2.3e-06   27.1   0.0    4.6e-06   26.1   0.0    1.4  2  Beta_elim_lyase  Beta-eliminating lyase
      3e-05   23.0   0.0    4.5e-05   22.4   0.0    1.2  1  Aminotran_MocR   Alanine-glyoxylate amino-transferase
  ------ inclusion threshold ------
      0.041   12.6   0.0       0.08   11.7   0.0    1.5  1  OKR_DC_1         Orn/Lys/Arg decarboxylase, major domain


Domain annotation for each model (and alignments):
>> Aminotran_1_2  Aminotransferase class I and II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  235.1   0.0   5.2e-73   1.3e-69       3     362 ..      28     383 ..      26     384 .] 0.94

  Alignments for each domain:
  == domain 1  score: 235.1 bits;  conditional E-value: 5.2e-73
                              EEESSSSSTTSTTSSHHHHHHHHHHHH.HHHHHTSTTST-BTTHHHHHHHHHHHHHCTCTTCHTTGGEGEEEESHHHHHHHHHHHH CS
            Aminotran_1_2   3 vinLgsneylgdsgkptlpevakaeke.galaggtlneygpidglpeleealakflgrseklklkreaavvvgsGagaliealifl 87 
                               inL+++ +++d+ ++ ++ ++ a+ +   l   + n+y p+ g   l+ea+ k ++r ++l++++ +++vv++Ga+++i  + ++
  PHY93_05450|PHY93_05450  28 AINLSQGFPDFDGPQWIIDLAKNAMDQgNKLGYVGKNQYAPSSGILPLREAISKNYKRFYNLDFDPASEIVVTNGATEAIFCACMA 113
                              69**********8887777666666666556667889************************************************* PP

                              HHHTTT-EEEEEESS-THHHHHHHHTTSEEEEEEBEETTTTEE-HHHHHHHHTTHHCTTETEEEEEEESS-TTT--B--HHHHHHH CS
            Aminotran_1_2  88 lklnpgdeilvpdptyasyknilrlsggevvryplyseedfhldlealeealkeapegnkktkvilvesphNPtGtvatleelekl 173
                              l +npgde++v++p+y+sy   l+++g+ vv++ l+ +++f+ d e+l++a++       ktk++++++phNPtG++++ ee++ +
  PHY93_05450|PHY93_05450 114 L-INPGDEVIVFEPFYDSYLASLQMAGARVVPVTLK-APNFSFDSEELIAAINP------KTKMVILNNPHNPTGKIFSSEEIKSI 191
                              *.********************************66.9****************......************************** PP

                              HHHHHHTTEEEEEEETTTTCBSSSSHTHHHHGGSTTSTTEEEEEESSSTTSSGGG-EEEEEEEHHHHHHHHHHHHHHTS..SHHHH CS
            Aminotran_1_2 174 ldlakkynlllfvDeaYagfvfgsldavatranveeepnllivgslsKafGlaGeRvGyilgnaavvsqlrklsrpfls..ssllq 257
                              ++la+k  +++++De+Y+ + ++ +++++t ++ + +  +++ +s +K fGl+G+ +G+++g +++++++ +++++ ++    +lq
  PHY93_05450|PHY93_05450 192 AELARKFDFYILSDEVYEFLTYE-TSHTPTACFEDLANRTITISSTGKTFGLTGWKIGWACGPKEIIKAIHNVHQFTTFcvAHPLQ 276
                              **********************9.566777788888777************************************999988***** PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSTEEEECCSCSSEEEEEETHH.CHHHHHHHHHHTCTEEEEEGGGGTS.. CS
            Aminotran_1_2 258 aavaaalsdallkqseleemrqrlqkrrkelrdeLaelglkvlasqsgmflltdlsae.takelskkLleevgvyvtpgtsftv.. 340
                               a a+al++ ++   +l e ++ + k+r +l+++L+e+g+++l +q+++f + +l++  ++ + +k L+ e++v+ +p + f++  
  PHY93_05450|PHY93_05450 277 VAMAEALNNMDQ---YLIEFKADYLKKRNTLVKGLKECGFNILNPQGTYFAMALLPEGeNDVDYCKRLIVEKKVATIPTSAFYLks 359
                              *********998...899999999999*************************999987799************************* PP

                              ...TTEEEEECTTS-HHHHHHHHHH CS
            Aminotran_1_2 341 ...pgrlRitvAglteeeleelvea 362
                                 ++ +R+++ + ++e+l+++++ 
  PHY93_05450|PHY93_05450 360 negSKMIRFCF-AKKDETLKNAIKN 383
                              *99999*****.9*********986 PP

>> Aminotran_5  Aminotransferase class-V
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.0   0.0   5.5e-15   1.4e-11      45     180 ..      76     210 ..      48     264 .. 0.81

  Alignments for each domain:
  == domain 1  score: 44.0 bits;  conditional E-value: 5.5e-15
                              HHHHHHHHHHHHT-ST..GGGEEEESSHHHHHHHHHHHCCCC-TTTSEEEEETTSHGGGTHHHHHHHHHHTEEEEEEEBE.TTSCB CS
              Aminotran_5  45 veearekvaelinaes..eeeiiftsGtteainlvalslarslkpgdeivvteaehhanlvpwqelakrtgakvkvipld.eegel 127
                               e++ ++ ++++n +   ++ei++t G+teai ++ ++l   ++pgde++v e  + + l   q+     ga+v+ ++l+ ++ + 
  PHY93_05450|PHY93_05450  76 REAISKNYKRFYNLDFdpASEIVVTNGATEAIFCACMAL---INPGDEVIVFEPFYDSYLASLQM----AGARVVPVTLKaPNFSF 154
                              56777788888887541168*******************...9*****************33333....3899999988626889* PP

                              EGGGHHHH--TTEEEEEEESBETTTTEB-...-HHHHHHHHHHTT-EEEEE-TTTT CS
              Aminotran_5 128 dldelekllnektklvaithvsnvtGtiq...pveeigklakkkgalvlvDaaqav 180
                              d +el +++n+ktk+v+++   n tG i+   ++++i++la+k + ++l D +  +
  PHY93_05450|PHY93_05450 155 DSEELIAAINPKTKMVILNNPHNPTGKIFsseEIKSIAELARKFDFYILSDEVYEF 210
                              ***************************87222566666777777888888877665 PP

>> DegT_DnrJ_EryC1  DegT/DnrJ/EryC1/StrS aminotransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.1   0.0   1.4e-11   3.7e-08      41     144 ..      97     205 ..      90     207 .. 0.87
   2 ?   -1.8   0.0      0.56   1.4e+03     274     309 ..     321     357 ..     261     381 .. 0.63

  Alignments for each domain:
  == domain 1  score: 33.1 bits;  conditional E-value: 1.4e-11
                              EEEESSHHHHHHHHHHHTTTTTT-EEEEESSS-THHHHHHHHTT-EEEEE-B-TTTSSB-GGGCGGG--TTEEEEE...EB-GGGB CS
          DegT_DnrJ_EryC1  41 aiavssGtaAlhlaLralgvgpgdeVIvpsltFvatanavlelgakpvfvDvdpdtynidpaaieaaitertkaIl...pVhlyGq 123
                               + ++ +t+A+  a +al ++pgdeVIv    + +  ++ + +ga++v+v  ++  +  d +++ aai+++tk ++   p +  G+
  PHY93_05450|PHY93_05450  97 IVVTNGATEAIFCACMAL-INPGDEVIVFEPFYDSYLASLQMAGARVVPVTLKAPNFSFDSEELIAAINPKTKMVIlnnPHNPTGK 181
                              5778889*********98.99*********999999999999*********************************93334457899 PP

                              --...-HHHHHHHHHHCT-EEEEE CS
          DegT_DnrJ_EryC1 124 va...dmdalkaiaakhglkvieD 144
                              ++   +++++ ++a+k + ++++D
  PHY93_05450|PHY93_05450 182 IFsseEIKSIAELARKFDFYILSD 205
                              875567888888888999888887 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 0.56
                              EESCEEEEEHCCHHHC.HHHHHHHHHHCCEE-B-SGS CS
          DegT_DnrJ_EryC1 274 awhlyavlveeeaevk.rdelvealkeegigtrvhyp 309
                               ++ +a+l e e++v+ +++l+ + k + i t+++y 
  PHY93_05450|PHY93_05450 321 TYFAMALLPEGENDVDyCKRLIVEKKVATIPTSAFYL 357
                              3444444444444466677777777777777777774 PP

>> Cys_Met_Meta_PP  Cys/Met metabolism PLP-dependent enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.0   0.0   1.8e-11   4.6e-08      68     174 ..      95     206 ..      87     210 .. 0.86

  Alignments for each domain:
  == domain 1  score: 32.0 bits;  conditional E-value: 1.8e-11
                              SEEEEESSHHHHHHHHHHTTS-TTEEEEEESTSSHHHHHHHHHTHHH.TTCEEEEESTT.SHHHHHHHCCTTEEEEEEESS-TTTT CS
          Cys_Met_Meta_PP  68 eaalavssGmaAiaaailallkaGdeivvsddlYggtqrllkkvlkk.lgievkfvdts.dleelekaikentklvylEtptnpll 151
                              ++ ++++  + Ai++a +al++ Gde++v +  Y++  + l+    + + ++ k  + s d eel +ai+++tk+v l  p np+ 
  PHY93_05450|PHY93_05450  95 SEIVVTNGATEAIFCACMALINPGDEVIVFEPFYDSYLASLQMAGARvVPVTLKAPNFSfDSEELIAAINPKTKMVILNNPHNPTG 180
                              56677777788**************************999999998867899999998647899*********************9 PP

                              ---...-HHHHHHHHHHTT-EEEEEG CS
          Cys_Met_Meta_PP 152 kvv...DiekiaklakkagvlvvvDn 174
                              k+     i++ia+la+k +  ++ D 
  PHY93_05450|PHY93_05450 181 KIFsseEIKSIAELARKFDFYILSDE 206
                              99633379999999999887777665 PP

>> Beta_elim_lyase  Beta-eliminating lyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.1   0.0   1.8e-09   4.6e-06      23     167 ..      61     205 ..      48     206 .. 0.70
   2 ?   -3.5   0.0       1.8   4.7e+03     212     227 ..     295     306 ..     256     325 .. 0.65

  Alignments for each domain:
  == domain 1  score: 26.1 bits;  conditional E-value: 1.8e-09
                              ---CCCT--HHHHHHHHHHHH........HTT-SEEEEES-HHHHHHHHH..HHH--TTEEEEEETT-HHHHSSTTHHHHCC--EE CS
          Beta_elim_lyase  23 lGdesYgedktvnrLedavae........lfgkeaalfvpqGtaAnsill..killqrgeevivtepahihfdetgaiaelagvkl 98 
                              +G ++Y+ ++++  L +a+ +         f+ +  + v++G a ++i +  ++l+++g+eviv ep   + d   a  ++ag+++
  PHY93_05450|PHY93_05450  61 VGKNQYAPSSGILPLREAISKnykrfynlDFDPASEIVVTNG-ATEAIFCacMALINPGDEVIVFEP---FYDSYLASLQMAGARV 142
                              677777777777777777777444444333333344446666.4555544349999********998...5666677778877777 PP

                              EEE-EBTT.TBE-HHHHHHHS--S-TTS-EEEEEEEESSBTTTTTB---HHHHHHHHHHHHHCT-EEEEE CS
          Beta_elim_lyase  99 rdlknkea.GkmdlekleaaikevgaheekiklisltvTnntagGqvvsleelrevaaiakkygiplhlD 167
                              ++++ k+    +d e+l aai++      k+k+++l + +n   G++ s ee++ +a++a+k +  ++ D
  PHY93_05450|PHY93_05450 143 VPVTLKAPnFSFDSEELIAAINP------KTKMVILNNPHNP-TGKIFSSEEIKSIAELARKFDFYILSD 205
                              77776661155555555555555......89**********5.9*****************988776665 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 1.8
                              HH....HHHHHHHHHH CS
          Beta_elim_lyase 212 ddeledylaerveqrk 227
                                   dyl++r +++k
  PHY93_05450|PHY93_05450 295 A----DYLKKRNTLVK 306
                              2....35555544443 PP

>> Aminotran_MocR  Alanine-glyoxylate amino-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.4   0.0   1.8e-08   4.5e-05     126     220 ..     120     212 ..     113     262 .. 0.82

  Alignments for each domain:
  == domain 1  score: 22.4 bits;  conditional E-value: 1.8e-08
                              EEEEEES--HHHHHHHHHHT-EEEEEEEETTEE-HHHHHHHHHC-TTEEEEEE-SSS-TTT-----HHHHHHHHT---SSTT-EEE CS
           Aminotran_MocR 126 kllvtvpGydrhfllleelGielltvdlqddGpdvdaveklvaedasvkGilavpkysnptGetiseevarrlaalkaaapdfrif 211
                               ++v  p yd +++ l+  G +++ v l+      d+ e ++a ++  k  + + +  nptG+++s+e ++ +a l     df i+
  PHY93_05450|PHY93_05450 120 EVIVFEPFYDSYLASLQMAGARVVPVTLKAPNFSFDSEELIAAINPKTKM-VILNNPHNPTGKIFSSEEIKSIAELA-RKFDFYIL 203
                              578999******************************99999999999995.4556668****************995.578***** PP

                              EE-TTSS-B CS
           Aminotran_MocR 212 addayavhd 220
                               d+ y    
  PHY93_05450|PHY93_05450 204 SDEVYEFLT 212
                              ****98644 PP

>> OKR_DC_1  Orn/Lys/Arg decarboxylase, major domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   3.1e-05      0.08      79     135 ..      91     149 ..      76     217 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 3.1e-05
                              CT-SEEEEESSHHHHHHHHHHHHH--TTEEEEEESS--HHHHHHHHHS-E..EEEEE-- CS
                 OKR_DC_1  79 fgadksyfvvnGTsssnkvvlnavltpgdlvlvdRNcHKSiehalvlsga..tPvylep 135
                              f+ +   +v+nG + ++   ++a+++pgd v+v      S    l ++ga  +Pv l++
  PHY93_05450|PHY93_05450  91 FDPASEIVVTNGATEAIFCACMALINPGDEVIVFEPFYDSYLASLQMAGArvVPVTLKA 149
                              556667789**************************************998335777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (384 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       495  (0.0276089); expected 358.6 (0.02)
Passed bias filter:                      451  (0.0251548); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.55u 0.26s 00:00:00.81 Elapsed: 00:00:00.43
# Mc/sec: 2686.46
//
Query:       PHY93_06660|PHY93_06660  [L=587]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    5.9e-28   97.6   0.0    1.5e-27   96.3   0.0    1.6  2  TPP_enzyme_N    Thiamine pyrophosphate enzyme, N-terminal TPP
    1.4e-11   44.5   0.0    2.2e-11   43.9   0.0    1.2  1  TPP_enzyme_M_2  Middle domain of thiamine pyrophosphate
    0.00061   19.5   0.0     0.0014   18.4   0.0    1.6  1  TPP_enzyme_M    Thiamine pyrophosphate enzyme, central domain
     0.0017   18.2   0.1      0.045   13.5   0.0    2.7  3  TPP_enzyme_C    Thiamine pyrophosphate enzyme, C-terminal TPP


Domain annotation for each model (and alignments):
>> TPP_enzyme_N  Thiamine pyrophosphate enzyme, N-terminal TPP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   96.3   0.0   3.3e-31   1.5e-27       3     164 ..      13     183 ..      11     189 .. 0.93
   2 ?   -2.8   0.0      0.93   4.2e+03      90     127 ..     324     362 ..     320     372 .. 0.73

  Alignments for each domain:
  == domain 1  score: 96.3 bits;  conditional E-value: 3.3e-31
                              HHHHHHHHHHHCT--EEEE---CCCHHHHCCHHCT.....TSEEEE-SSHHHHHHHHHHHHHHHTS-EEEEE-CHHHHHHCHHHHH CS
             TPP_enzyme_N   3 vaealvraLkalgvehvfgvpGsrilplldalseeq....girvvlarhEqgaafaAdgyaratgkpgvvlvtsgpGatnaltala 84 
                              ++ ++++  +++++++++  pG r+ pl+ a+  ++    +i+++++++E++a++ A gya+atg p+vv++tsg++++n++++++
  PHY93_06660|PHY93_06660  13 WSSLIIDEFQKNKITQFYLSPGMRNAPLIAAMIHAKtfniKIKIIMCMDERAAGYRALGYAKATGLPAVVVCTSGTAMANYMPSVV 98 
                              57899******************************99************************************************* PP

                              HHHHHT--EEEEEEE--CCCHHS..TC--T-CCHHHCCCSSE......EEE-SSGGGHHHHHHHHHHHHHSSS--EEEEEEEHHHC CS
             TPP_enzyme_N  85 eAkvdriPllvlsgdrptslrgqgvlqqeldqlalfrpvtky......aervtspeelpealrrAirtalsgrpgPvylelpkdvl 164
                              eAk++++Pl+vls+drp +l+ ++  q ++dq++++ ++++        ++  sp +l + l   i ++l +++gPv+ + +   +
  PHY93_06660|PHY93_06660  99 EAKKSNLPLIVLSADRPPELTFCDDNQ-TMDQTKFYGDYVQGemslgaPTFSISPLALTSSLSNLIHKSLFPQKGPVHFNCAFREP 183
                              ***************************.*******9999976667777777888999999999**************998766655 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 0.93
                              T--EEEEEEE--CCCHHS..TC--T..-CCHHHCCCSSEE CS
             TPP_enzyme_N  90 riPllvlsgdrptslrgqgvlqqel..dqlalfrpvtkya 127
                              +i l+ ls +++ ++ ++++    +  d+++ +r +t+ +
  PHY93_06660|PHY93_06660 324 SINLITLSLNKEKEDPSHHTKM-RInaDINSTLRALTQTF 362
                              6789999999999999977777.55689999999998443 PP

>> TPP_enzyme_M_2  Middle domain of thiamine pyrophosphate
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.9   0.0   4.9e-15   2.2e-11      37     155 ..     233     357 ..     195     367 .. 0.87

  Alignments for each domain:
  == domain 1  score: 43.9 bits;  conditional E-value: 4.9e-15
                              TTSSEEEEE-B--.HHHHHHHHHHHHHHT--EEE-TTT-S--SSTTHHHHT...TSHHHHHHHTT-..SEEEEESB---SHHHHHH CS
           TPP_enzyme_M_2  37 rqkrGvvvaGrls.aeegkqvaawaeklGWplltDvqsqlgqalpyaDlwL...anpkvkeeLaqa..diviqfGsrlvsKrllqf 116
                                k G++v+G l+  +e++ v ++ + l Wp   Dv s+l+  +   D  L    +p+v+e L ++  ++v  +G+rl+sK    f
  PHY93_06660|PHY93_06660 233 NSKTGLLVIGSLNpYDESESVENFIKLLNWPAYFDVSSSLKYKFNLSDNALptfDHPEVQEALIKTppQTVFHIGGRLTSKHYYTF 318
                              3577*********899************************9999999998844469*******886559***************** PP

                              HHH---SEEEEEESS-SB--TT--SEEEEES-HHHHHHH CS
           TPP_enzyme_M_2 117 laelkpeeyWlvdesqgrldpahhrkrrfvakveewlra 155
                              l+++   +   ++ ++++ dp+hh+k r++a++++ lra
  PHY93_06660|PHY93_06660 319 LKQVPSINLITLSLNKEKEDPSHHTKMRINADINSTLRA 357
                              ******9**************************998886 PP

>> TPP_enzyme_M  Thiamine pyrophosphate enzyme, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0   3.1e-07    0.0014       1     137 []     224     358 ..     224     358 .. 0.84

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 3.1e-07
                              HHHHHHHHHH-SSEEEEE-CHHCHTTGHHHHHHHHHHHT-EEEEEGGGTTSS-TTSTTEEEESGGGSCHHHHHHH..HH-SEEEEE CS
             TPP_enzyme_M   1 iekaaellkaakrpvilvGggvarsgaseelrelaeklgiPvvttlmgkgvipedhplylgmlglhgskaaneal..eeaDlvlal 84 
                              ++++ae lk++k  ++++G+     + se ++++++ l++P    +   ++++ +  l+   l  + +++++eal      +v+ +
  PHY93_06660|PHY93_06660 224 LKEIAETLKNSKTGLLVIGSLNP-YDESESVENFIKLLNWPAY--FDVSSSLKYKFNLSDNALPTFDHPEVQEALikTPPQTVFHI 306
                              5899***************9776.8899*************86..4445666666666666889999********64449****** PP

                              S-SSSTCCCTTTTTTTTTT-EEEEEESSCCCCTTCC--SEEEECTHHHHHHHH CS
             TPP_enzyme_M  85 GarfddirttgsepefapeakiihididpaeigknyqvdlaivgdvketleaL 137
                              G r++   ++ ++ +  p  ++i +  ++++ + ++++++ i +d++ tl+aL
  PHY93_06660|PHY93_06660 307 GGRLTS-KHYYTFLKQVPSINLITLSLNKEKEDPSHHTKMRINADINSTLRAL 358
                              ****99.666555544444499*****************************98 PP

>> TPP_enzyme_C  Thiamine pyrophosphate enzyme, C-terminal TPP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.0      0.49   2.2e+03      62      82 ..      41      61 ..      39      70 .. 0.83
   2 ?    1.2   0.0     0.062   2.8e+02      38      78 ..      70     110 ..      63     113 .. 0.80
   3 !   13.5   0.0     1e-05     0.045      46     148 ..     467     565 ..     420     570 .. 0.68

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.49
                             GGGHHHHHHTT-SEEEEEEE- CS
             TPP_enzyme_C 62 lqelatavrrnlpitvvvlnN 82
                             + ++++a   n++i++++  +
  PHY93_06660|PHY93_06660 41 IAAMIHAKTFNIKIKIIMCMD 61
                             56899**********998665 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.062
                              HHHHHHSTTSEEEEEEEHHHHHHT.GGGHHHHHHTT-SEEEE CS
             TPP_enzyme_C  38 iGaklakpdrevvaivGDGgflmi.lqelatavrrnlpitvv 78 
                              +G + a  + + v+++  G+ + + ++ ++ a + nlp++v+
  PHY93_06660|PHY93_06660  70 LGYAKA-TGLPAVVVCTSGTAMANyMPSVVEAKKSNLPLIVL 110
                              455544.345788888999*****9*************9986 PP

  == domain 3  score: 13.5 bits;  conditional E-value: 1e-05
                              TSEEEEEEEHHHHHHTGGGHHHHHHTT-SEEEEEEE-SBCCCHHHH...HHHHTCCTTTTSBB.BS----HHHHHHHTTSEEEEES CS
             TPP_enzyme_C  46 drevvaivGDGgflmilqelatavrrnlpitvvvlnNegygmtggq...qepfggkrksgpagkdlkpvdfaklaealGakgarve 128
                              ++e + ++GD +f++ l+ l    + +  ++++++nN g g        +e++  +  ++      +   f k  e +G++ + v+
  PHY93_06660|PHY93_06660 467 EKELYLVIGDVAFIHDLNSLYFLKELKTALKIILINNDGGGIFTLLpinKEQNVLDYITS-----PHGQTFRKASELIGIDYLEVH 547
                              56999*********************************9999888854333333333333.....334467777777777755655 PP

                              SH.HHHHHHHHHHHHCSSSE CS
             TPP_enzyme_C 129 kadveeleealkealekkgp 148
                              ++  + l + + +  ek++ 
  PHY93_06660|PHY93_06660 548 DS--DSLIPSFNKLQEKNHH 565
                              55..7777777776666555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (587 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       477  (0.0266049); expected 358.6 (0.02)
Passed bias filter:                      392  (0.021864); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.66u 0.23s 00:00:00.89 Elapsed: 00:00:00.44
# Mc/sec: 4002.46
//
Query:       PHY93_06665|PHY93_06665  [L=427]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.8e-47  161.0   0.0    4.9e-47  160.7   0.0    1.1  1  Chorismate_bind  chorismate binding enzyme


Domain annotation for each model (and alignments):
>> Chorismate_bind  chorismate binding enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  160.7   0.0   2.7e-51   4.9e-47       2     258 .]     163     418 ..     162     418 .. 0.93

  Alignments for each domain:
  == domain 1  score: 160.7 bits;  conditional E-value: 2.7e-51
                              HCHHHHHHHHHHHHHHTTS-SEEEEEEEEEECESS-B-HHHHHHHHHCTBSSSEEEEE.....EETTEEEEEEESSEEEEEETTSE CS
          Chorismate_bind   2 redYaeavekvkeeiragdlykvvlsrrlkaeleaavdplalyralrarnpapysfll.....eledsellgaSPElllkveggrr 82 
                              +++++++++k+   +   +l+k+ lsr+  +  +++++p+ +++a++++n+++ s +       + d+ +++ +PE l+++ ++ +
  PHY93_06665|PHY93_06665 163 HDQWEKMINKCDMLFDGHELEKIALSRKKIFDYDEPLEPTVFFNAVMSQNNNANSSYAifyqmTF-DKAFISLTPEKLFSLADN-N 246
                              689***************************************99999987666555553445433.3779************66.* PP

                              EEEECEEEEEEHSSSHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCBSCCEEEEECCEEEEEETTEEEEEEEEEEEESTT-- CS
          Chorismate_bind  83 ietepiaGTrargktpeedealeeelledeKeraEhlmivdlirndLgkvakpgsvkvpelfkverysevlhlvstiegelkedvs 168
                              +e+  +a + +rg tpeed a e+ l +++K  +Eh +++  i ++++++  ++sv v+el ++ +++ ++h +  i++ l +++ 
  PHY93_06665|PHY93_06665 247 FESISLAASSPRGVTPEEDLAFEKLLNSSDKLSREHNVVTAEILRKIKPL--ASSVIVSEL-QTMKLPYIQHRSVPIKAVLLSNIM 329
                              **************************************************..799999665.7778******************** PP

                              HHHHHHHCSS-CCCSEESHHHHHHHHHHHSSS--TTTTSEEEEEETTS-EEEEEE-SEEEEETTEEEEEEEEEEETT--HHHHHHH CS
          Chorismate_bind 169 lldllkalfPtgavtGaPkkrameiidelEearRgvYaGavgyldadgeaelavvIRtavvkdkelrlgaGaGIvadSdpeaEyeE 254
                              +l+l++ l+Pt+av+G+P ++a   i elE++ R+ Ya+++g+++++   elav IR+a+++ ++++++ GaGIv+ S +e+E+ E
  PHY93_06665|PHY93_06665 330 PLELVSLLHPTPAVGGLPWDSAKMRILELEPYARKSYAAPIGVISKHF-SELAVGIRSALIEGSRISIFGGAGIVKGSAAEEEWIE 414
                              *********************************************775.8************************************ PP

                              HHHH CS
          Chorismate_bind 255 tlaK 258
                              t  K
  PHY93_06665|PHY93_06665 415 TGIK 418
                              9765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (427 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       565  (0.0315132); expected 358.6 (0.02)
Passed bias filter:                      412  (0.0229795); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.27s 00:00:00.79 Elapsed: 00:00:00.41
# Mc/sec: 3128.55
//
Query:       PHY93_06670|PHY93_06670  [L=242]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.2e-62  209.5   0.0      5e-62  209.3   0.0    1.0  1  Ubie_methyltran  ubiE/COQ5 methyltransferase family
    1.7e-15   57.5   0.0    2.4e-14   53.8   0.0    2.1  2  Methyltransf_11  Methyltransferase domain
    5.7e-15   55.8   0.0    2.9e-14   53.6   0.0    1.9  2  Methyltransf_25  Methyltransferase domain
    7.7e-12   45.3   0.0    1.1e-11   44.8   0.0    1.3  1  Methyltransf_31  Methyltransferase domain
    1.8e-10   40.9   0.0    2.5e-10   40.5   0.0    1.2  1  Methyltransf_23  Methyltransferase domain
    1.1e-07   32.6   0.0      2e-07   31.7   0.0    1.5  1  Methyltransf_12  Methyltransferase domain
      1e-06   28.8   0.0    1.9e-06   27.9   0.0    1.4  1  Methyltransf_18  Methyltransferase domain
    0.00025   20.7   0.0     0.0004   20.0   0.0    1.3  1  TrmK             tRNA (adenine(22)-N(1))-methyltransferase
     0.0026   17.3   0.0     0.0059   16.2   0.0    1.6  1  MTS              Methyltransferase small domain
  ------ inclusion threshold ------
      0.036   13.2   0.1      0.073   12.2   0.1    1.6  1  Methyltransf_3   O-methyltransferase
        0.1   12.3   0.0       0.16   11.7   0.0    1.3  1  PCMT             Protein-L-isoaspartate(D-aspartate) O-methyl
       0.14   11.3   0.0       0.39    9.8   0.0    1.7  2  Methyltransf_20  Putative methyltransferase


Domain annotation for each model (and alignments):
>> Ubie_methyltran  ubiE/COQ5 methyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  209.3   0.0   3.3e-65     5e-62       9     233 .]      12     236 ..       3     236 .. 0.96

  Alignments for each domain:
  == domain 1  score: 209.3 bits;  conditional E-value: 3.3e-65
                              XXXXXX-HHHHHHHHHHHHHTTTHHHHHHHHHHH--S--TTEEEEES-TT-HHHHHHHHHHHHHHEEEEEES-HHHHHHHHHHHHH CS
          Ubie_methyltran   9 vkevfesvaskyDlmndvlslgihrlWkkfveklvavkrgakvlDvagGtgDlafklsdsvgekgkvvvlDinenmLkvgekklke 94 
                                ++f+++as yDl+n  ls+gi   W+k++ k   +k + ++lD+a+GtgD+ ++l +  +   k++++D+++ m+++g +k+k+
  PHY93_06670|PHY93_06670  12 SYKIFNEIASTYDLLNHTLSFGIDIYWRKKLLKHLPQKDSINALDLATGTGDVPLTLVSDPRI-KKITGIDLSKGMVDIGIEKVKK 96 
                              679*****************************************************9987665.49******************** PP

                              HTSS.TEEEEE--TTT-TTS-T-EEEEEEES-GGG-S-HHHHHHHHHHHEEEEEEEEEEEE----SHHHHHHHHHHHH.HHHHHHH CS
          Ubie_methyltran  95 egki.nieflqanaeeLpfeddsfDvvtvsfGlrnvtDklkaLkeayrvlkpGGrlvvlefskvelpllsqayelyskevlPvlGk 179
                              +g   +i ++ +++ ++p  d++fD+ t+sfG+rn++D +k+L++++rvlk  Grl+++ef+ +++p++++ y+ y+ ++lP++G+
  PHY93_06670|PHY93_06670  97 KGLEkKIFLMLGDGVNIPAGDNAFDLTTISFGIRNFSDPQKSLHDIHRVLKEDGRLMIMEFAIPTNPIIRTVYFFYFRHFLPKIGN 182
                              **98799999**************************************************************************** PP

                              HHHS-HHHHHHHHHHHHHS--HHHHHHHHHHTTEEEEEEEEEGGGTEEEEEEEE CS
          Ubie_methyltran 180 llakdldsyryLvesirafPdqetlkeliedaGfksveyesltgGvvaihigvk 233
                              l++k+ d y yL +s+++fP  +++ +l+++aGfk+ + + lt+G++ ++ig k
  PHY93_06670|PHY93_06670 183 LISKHKDAYTYLNQSVEDFPFGDNFLALMRNAGFKNLKMQPLTFGIAMLYIGDK 236
                              ***********************************************9999865 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.8   0.0   1.6e-17   2.4e-14       1      96 []      55     154 ..      55     154 .. 0.93
   2 ?    1.3   0.0      0.36   5.3e+02      44      60 ..     190     206 ..     176     211 .. 0.81

  Alignments for each domain:
  == domain 1  score: 53.8 bits;  conditional E-value: 1.6e-17
                              EEET-TTSHHHHHHHHTT..SEEEEEES-HHHHHHHHHHCCHHT-..EEEETTEECCCTSS-TT-EEEEEEES-CCC-CCHHHHHH CS
          Methyltransf_11   1 LdvGcGtGrlaealakrg..arvvgvDlskemlklakekaseegl..kvefvvadaeklpfednsfDlvvssevlhhvedpekalk 82 
                              Ld+++GtG +   l +    ++++g+Dlsk m+++  ek++++gl  k+ ++ +d  ++p  dn fDl ++s+ + ++ dp+k l 
  PHY93_06670|PHY93_06670  55 LDLATGTGDVPLTLVSDPriKKITGIDLSKGMVDIGIEKVKKKGLekKIFLMLGDGVNIPAGDNAFDLTTISFGIRNFSDPQKSLH 140
                              899******99999955557*************999999999888888889*********************************** PP

                              HHHHHEEEEEEEEE CS
          Methyltransf_11  83 eiaRvLkpgGllvi 96 
                               i+RvLk +G+l+i
  PHY93_06670|PHY93_06670 141 DIHRVLKEDGRLMI 154
                              ***********986 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.36
                              EEEETTEECCCTSS-TT CS
          Methyltransf_11  44 kvefvvadaeklpfedn 60 
                                +++ +++e++pf dn
  PHY93_06670|PHY93_06670 190 AYTYLNQSVEDFPFGDN 206
                              468999**********8 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.6   0.0   1.9e-17   2.9e-14       2      97 .]      55     150 ..      54     150 .. 0.95
   2 ?   -0.5   0.0       1.4   2.1e+03      47      65 ..     190     208 ..     178     224 .. 0.75

  Alignments for each domain:
  == domain 1  score: 53.6 bits;  conditional E-value: 1.9e-17
                              EEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTT..TEEEEESBCCGBSSSTTTEEEEEEESTGGGSSHHHHHHH CS
          Methyltransf_25   2 LdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeegl..nvefvqgdaedlpfedgsfDlvvssgalhhlsdedleka 85 
                              Ldl++GtG++ l l      +k+tg+D+s++m+++  e+++++gl  ++ ++ gd  ++p  d+ fDl ++s+++  +sd++  k 
  PHY93_06670|PHY93_06670  55 LDLATGTGDVPLTLVSDPRIKKITGIDLSKGMVDIGIEKVKKKGLekKIFLMLGDGVNIPAGDNAFDLTTISFGIRNFSDPQ--KS 138
                              9**************99659*************************999999*********************9999999665..89 PP

                              HHHHHHHEEEEE CS
          Methyltransf_25  86 lkeiarvLkpgG 97 
                              l+ i+rvLk++G
  PHY93_06670|PHY93_06670 139 LHDIHRVLKEDG 150
                              **********99 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 1.4
                              TEEEEESBCCGBSSSTTTE CS
          Methyltransf_25  47 nvefvqgdaedlpfedgsf 65 
                                +++++++ed+pf d+  
  PHY93_06670|PHY93_06670 190 AYTYLNQSVEDFPFGDNFL 208
                              5688999999***999654 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.8   0.0   7.2e-15   1.1e-11       3     113 ..      50     158 ..      48     202 .. 0.88

  Alignments for each domain:
  == domain 1  score: 44.8 bits;  conditional E-value: 7.2e-15
          Methyltransf_31   3 kglrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielArenaqklgld.nveFeqgdieeleklledekfDlilsnevlnal 87 
                              + ++ lDl++GtG+  + l +     ++++GiD s+ ++    e+ +k+gl+  + +  gd  +++    d+ fDl +    +  +
  PHY93_06670|PHY93_06670  50 DSINALDLATGTGDVPLTLVS-DPRIKKITGIDLSKGMVDIGIEKVKKKGLEkKIFLMLGDGVNIP--AGDNAFDLTTISFGIRNF 132
                              67899***************5.444567************************6777777*******..89******88887889** PP

          Methyltransf_31  88 adpdkileeiervlkpggilliedpr 113
                              +dp+k l  i+rvlk++g+l+i ++ 
  PHY93_06670|PHY93_06670 133 SDPQKSLHDIHRVLKEDGRLMIMEFA 158
                              *********************98876 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.5   0.0   1.6e-13   2.5e-10       9     163 ..      38     219 ..      34     221 .. 0.76

  Alignments for each domain:
  == domain 1  score: 40.5 bits;  conditional E-value: 1.6e-13
          Methyltransf_23   9 lsdklerllpklraggrvLdiGcGtGillevl..rengfsvtgvDlspeaveiaekakkaqkdqfdeq.........eaaepqgkf 83 
                              +++kl++ lp ++ + + Ld+++GtG +   l   ++ +++tg+Dls  +v+i  ++ k +k+              +++  ++ f
  PHY93_06670|PHY93_06670  38 WRKKLLKHLP-QKDSINALDLATGTGDVPLTLvsDPRIKKITGIDLSKGMVDI--GIEKVKKKGLEKKiflmlgdgvNIPAGDNAF 120
                              7778888777.89999**********7655554477778***********999..57777777663334444555555555778** PP

          Methyltransf_23  84 dlIvlrevlehvpdppellrqiatllkpgGylllseplasl...................kedrllldwlylvpagrhisffsars 150
                              dl + ++++ ++ dp + l+ i++ lk++G+l+++e++ +                     ++ + ++ +y   +  +  f   ++
  PHY93_06670|PHY93_06670 121 DLTTISFGIRNFSDPQKSLHDIHRVLKEDGRLMIMEFAIPTnpiirtvyffyfrhflpkiGNLISKHKDAYTYLNQSVEDFPFGDN 206
                              ************************************98777788888888888888877644444444544444444567777778 PP

          Methyltransf_23 151 lkelleeaGlevv 163
                              +  l+++aG++++
  PHY93_06670|PHY93_06670 207 FLALMRNAGFKNL 219
                              8888888888775 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.7   0.0   1.3e-10     2e-07       1      99 []      55     152 ..      55     152 .. 0.88

  Alignments for each domain:
  == domain 1  score: 31.7 bits;  conditional E-value: 1.3e-10
          Methyltransf_12   1 LeiGcGtGsllralleklpdieytgvDispsaiedakeklakrennnnnnvelealdlldldggssfDlvvasnvlhhlkdirevl 86 
                              L++ +GtG++   l  + + +++tg+D+s+ +++   ek +k++ ++  ++ l +      +g ++fDl ++s+ + ++ d++++l
  PHY93_06670|PHY93_06670  55 LDLATGTGDVPLTLVSDPRIKKITGIDLSKGMVDIGIEKVKKKGLEKKIFLMLGDGVN-IPAGDNAFDLTTISFGIRNFSDPQKSL 139
                              899**************9999************9999999999987776666665543.244447********************* PP

          Methyltransf_12  87 dnirklLkpgGrl 99 
                              + i+++Lk +Grl
  PHY93_06670|PHY93_06670 140 HDIHRVLKEDGRL 152
                              ***********97 PP

>> Methyltransf_18  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.9   0.0   1.3e-09   1.9e-06      16      88 ..      51     125 ..      40     129 .. 0.86

  Alignments for each domain:
  == domain 1  score: 27.9 bits;  conditional E-value: 1.3e-09
          Methyltransf_18  16 s.rvaDiGtDHgylpiylvkegkakkviasDinegplekakeniekagledkievrlsdGleklkeee.vdtvvi 88 
                              s + +D  t  g +p+ lv+  ++kk++ +D+++g ++   e+++k+gle+ki ++l+dG++    ++ +d  +i
  PHY93_06670|PHY93_06670  51 SiNALDLATGTGDVPLTLVSDPRIKKITGIDLSKGMVDIGIEKVKKKGLEKKIFLMLGDGVNIPAGDNaFDLTTI 125
                              34779********************************************************99885554776666 PP

>> TrmK  tRNA (adenine(22)-N(1))-methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.0   0.0   2.7e-07    0.0004       9      72 ..      62     125 ..      54     129 .. 0.91

  Alignments for each domain:
  == domain 1  score: 20.0 bits;  conditional E-value: 2.7e-07
                     TrmK   9 AyLpiylvknnkvsvaiagevnegplesAkknvkkskleekievrlgdGlavlekedeidvivi 72 
                              +  p+ lv   +++ ++ +++++g  + ++++vkk++le+ki   lgdG +    ++ +d  +i
  PHY93_06670|PHY93_06670  62 GDVPLTLVSDPRIKKITGIDLSKGMVDIGIEKVKKKGLEKKIFLMLGDGVNIPAGDNAFDLTTI 125
                              56799**********************************************9998888999998 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0     4e-06    0.0059      23      91 ..      42     112 ..      39     169 .. 0.78

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 4e-06
                              HHHHCHCCTCSEEEEET-TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHTTGC..EEEEE-STTT CS
                      MTS  23 LletlpkelsgkvlDlGcGaGvlgaalakespeaevtlvdvdarAlesakenleankle..vevvasdvle 91 
                              Ll++lp++ s ++lDl++G+G + ++l +     ++t +d ++  +++  e +++++le  + ++  d+++
  PHY93_06670|PHY93_06670  42 LLKHLPQKDSINALDLATGTGDVPLTLVSDPRIKKITGIDLSKGMVDIGIEKVKKKGLEkkIFLMLGDGVN 112
                              99*************************99766667**************9999999999544445555554 PP

>> Methyltransf_3  O-methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.1   4.9e-05     0.073      70     111 ..      72     113 ..      50     159 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 4.9e-05
                              -TT-EEEEEES-HHHHHHHHHHHHHTT-GGGEEEEES-HHHH CS
           Methyltransf_3  70 PeDGkilaididreayeialkfiqkagvaekieliegdalkv 111
                              P   ki+ id  +  ++i+ + ++k g+++ki l+ gd++++
  PHY93_06670|PHY93_06670  72 PRIKKITGIDLSKGMVDIGIEKVKKKGLEKKIFLMLGDGVNI 113
                              555699*******************************99875 PP

>> PCMT  Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00011      0.16      66     145 ..      43     122 ..      26     156 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00011
                              HHHTT--TT-EEEEES-TTSHHHHHHHHHHCTTCEEEEEESBHHHHHHHHHHHHHCTTC.SEEEEES-GGGTTGGG-SEEE CS
                     PCMT  66 lellelkkgarvLevGsGsGyltavlarlvgekgrvvsierikelveeakrnlkkldle.nvivvvgDGrkGyeekaPYda 145
                              l++l  k+  ++L++ +G+G     l    + k ++ +i+ +k +v+   +++kk++le ++ ++ gDG +  +    +d 
  PHY93_06670|PHY93_06670  43 LKHLPQKDSINALDLATGTGDVPLTLVSDPRIK-KITGIDLSKGMVDIGIEKVKKKGLEkKIFLMLGDGVNIPAGDNAFDL 122
                              455556777889999999997655444433333.478*********************9789999****876666666664 PP

>> Methyltransf_20  Putative methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.0   0.00026      0.39     129     197 ..      46     112 ..      34     157 .. 0.78
   2 ?   -1.4   0.0      0.68     1e+03     282     302 ..     209     229 ..     189     235 .. 0.88

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00026
          Methyltransf_20 129 kaegrpvrildiaaGhGryvldalekaeervesillrdyselnveqGraliaekglediarfekgdafd 197
                                ++++++ ld+a+G G   l  ++  + r+++i+  d s+  v+ G + +++kgle+ + +  gd  +
  PHY93_06670|PHY93_06670  46 LPQKDSINALDLATGTGDVPLTLVS--DPRIKKITGIDLSKGMVDIGIEKVKKKGLEKKIFLMLGDGVN 112
                              4467799***********9998775..567899************************999888888654 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 0.68
          Methyltransf_20 282 elveaaGfrkleqridefGif 302
                              +l+++aGf+ l+++   fGi 
  PHY93_06670|PHY93_06670 209 ALMRNAGFKNLKMQPLTFGIA 229
                              58999******9999899885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (242 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       445  (0.0248201); expected 358.6 (0.02)
Passed bias filter:                      401  (0.022366); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.41
# Mc/sec: 1785.84
//
Query:       PHY93_06675|PHY93_06675  [L=325]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.3e-42  145.6   0.0    1.8e-42  145.2   0.0    1.1  1  polyprenyl_synt  Polyprenyl synthetase
     0.0015   18.7   0.1      0.003   17.7   0.1    1.6  1  CH               Calponin homology (CH) domain


Domain annotation for each model (and alignments):
>> polyprenyl_synt  Polyprenyl synthetase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  145.2   0.0     2e-46   1.8e-42       3     229 ..      32     246 ..      30     257 .. 0.91

  Alignments for each domain:
  == domain 1  score: 145.2 bits;  conditional E-value: 2e-46
                              HHHHHHHHHHHSSS--HHHHHHHHHHHHHSCGHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEETTEE-HHHCTCHHHHHHHHH CS
          polyprenyl_synt   3 lleealeylveagGKrlRpllvllaaealkeeeeelekaavlawivellhaasLvhDDimDdsetRRGqpcahrlvGnklAindgd 88 
                               ++e+l+ +v +gGKrlRpll+ l+a++lk    +l+     a + el+haasL hDD++D++++RRG+p+++ l  nk+A+++gd
  PHY93_06675|PHY93_06675  32 AIDEVLSRTVLRGGKRLRPLLTYLVANLLK--I-DLDAITPFARASELVHAASLSHDDVIDNATLRRGAPSINILSTNKKAVLAGD 114
                              57788999999*******************..4.6899************************************************ PP

                              HHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHHHHHHHHHHHTTTTTCCC.SHHHHHHHHHHHTHHHCHHHHHHHHHHTTHHHHHHH CS
          polyprenyl_synt  89 fllarafellaklfekslellelfsevllqtveGqlldleeekdddlskfsleeyleivkyKTaylfalpvalaallagasdeele 174
                              +ll+ +   l ++  ++l l++ +s v+ ++ eG+ l+l+  ++ d++    e  +ei  +KT++ +++++ + a+la++ +e  +
  PHY93_06675|PHY93_06675 115 YLLSSVIVDLCST--GELPLVNEMSLVIKDLSEGEWLQLDLISSRDYT---RELIREIALKKTSSVMSYCTLAPAMLAKMPQEIQN 195
                              ******9999999..99**********************666566666...999**************************99999* PP

                              HHHHHHHHHHHHHHHHHHHHHHHS-HHHHSS-TSHHHHTT---HHHHHHHHCT-H CS
          polyprenyl_synt 175 alkdiglelGlaFQiqDDylDlfgdpevlgKpagtDiqegkctlpilkalelasp 229
                               ++++g  lGlaFQ++DD lD++gd+ +   +   D+++g + +++++ l  + p
  PHY93_06675|PHY93_06675 196 ICRNFGVSLGLAFQLIDDTLDYSGDSLK---DQELDLKNGIVNAVVFELLS-TRP 246
                              ************************9654...4467*****99999999888.554 PP

>> CH  Calponin homology (CH) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   0.1   3.4e-07     0.003      44      99 ..     242     321 ..     211     324 .. 0.64

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 3.4e-07
                              H.........................STTTSSGGGSTTTHHHHHHHHHHHHHHHHHHTTCHTTSS-HHHHHT..TSHHHHHHH CS
                       CH  44 l.........................apglvdkkklnksefkkleNinlaldvaekklgvpkvlieaedlve..gknksvltl 99 
                              l                         +p+   +k +++++ ++leN++ al+++e++lgv ++   +++l e     ++v+ +
  PHY93_06675|PHY93_06675 242 LstrpdlmerfksgedltgllisedmNPS---VKLISDEALNHLENARMALSALEEHLGVTLYKNRPKELEEalEHLHLVISY 321
                              44434444444444444333333222343...3556666*******************************9953333377766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (325 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       496  (0.0276647); expected 358.6 (0.02)
Passed bias filter:                      451  (0.0251548); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.40
# Mc/sec: 2408.25
//
Query:       PHY93_06680|PHY93_06680  [L=215]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (215 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       290  (0.0161749); expected 358.6 (0.02)
Passed bias filter:                      197  (0.0109878); expected 358.6 (0.02)
Passed Vit filter:                        11  (0.000613531); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 1624.26
//
Query:       PHY93_06685|PHY93_06685  [L=171]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (171 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       318  (0.0177366); expected 358.6 (0.02)
Passed bias filter:                      203  (0.0113224); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.38
# Mc/sec: 1349.43
//
Query:       PHY93_06690|PHY93_06690  [L=528]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
   2.1e-119  398.7   0.3   2.8e-119  398.3   0.3    1.1  1  tRNA-synt_1f  tRNA synthetases class I (K)
    5.3e-12   45.7   0.0    1.8e-05   24.3   0.0    2.4  2  tRNA-synt_1e  tRNA synthetases class I (C) catalytic domain
      9e-10   37.8   0.0    0.00039   19.3   0.1    2.6  2  tRNA-synt_1g  tRNA synthetases class I (M)
    0.00018   20.0   0.0      0.051   11.8   0.0    2.2  2  tRNA-synt_1   tRNA synthetases class I (I, L, M and V)
     0.0012   18.2   0.0      0.046   13.0   0.0    2.5  2  tRNA-synt_1b  tRNA synthetases class I (W and Y)


Domain annotation for each model (and alignments):
>> tRNA-synt_1f  tRNA synthetases class I (K)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  398.3   0.3  7.8e-123  2.8e-119       2     358 ..      10     369 ..       9     371 .. 0.97

  Alignments for each domain:
  == domain 1  score: 398.3 bits;  conditional E-value: 7.8e-123
             tRNA-synt_1f   2 aWadklaeklieerkkkkaekdevvvesGispSGliHiGnlrevltadlvaralrkrgeevrlilisDdmDglRkvpenlpek.ll 86 
                              +Wad +a++li+ +  +  +k+ ++++sGi+pSG +H Gn+rev+t+dlvar l+krg++vr+i+++Dd+D +Rkvp+n+p++  l
  PHY93_06690|PHY93_06690  10 HWADLTADRLIRAN--N--DKELYTLASGITPSGVVHFGNFREVITVDLVARGLKKRGKKVRFIFSWDDYDTFRKVPANMPNQaEL 91 
                              9**********433..3..579**************************************************************** PP

             tRNA-synt_1f  87 ekylgkpltsiPdpkgkhesyaehfnaelvesLdelgievefisatelYksglydeaikealenrekikeilekyrgeereetysp 172
                              +k+l  p+ + Pdp+g+hesya h++++++++++++gi +e   +++ Y+ g y+e+ik+ l+n++ i++il+k r  ++ee++ p
  PHY93_06690|PHY93_06690  92 NKFLFCPIVDTPDPFGEHESYAAHHEKAFEAQIAKMGIVAEPLYQAKKYRAGEYREQIKHTLRNKDAIAAILNKWRATPLEENWQP 177
                              ************************************************************************************** PP

             tRNA-synt_1f 173 ylpvcekcgrvdttevvevdaeeeeieYkc..eecGeeeevdiregn.gKLqWkvdwamrWaalgVdfEpaGkDhaaaGgSvdvss 255
                              ++++c+kc+r d+t ++++d  +++++Ykc  eecG++++ +i + + +KL+W++dw+mrWa ++VdfEp GkDh+++GgS+++++
  PHY93_06690|PHY93_06690 178 VNIYCSKCNR-DKTAIISFD-GSSTLTYKCefEECGNHGSENIDTSTrVKLPWRMDWPMRWAFEKVDFEPGGKDHSSQGGSFTTAK 261
                              **********.*********.*********888**********88777************************************** PP

             tRNA-synt_1f 256 kia.eilggeaPekvvYelillkgge.kmssSkGnvltledwlevaepevlrflilrrkPkkakkldldleilrlvdeYdklerky 339
                              +i+ ei+++++P+ ++Y+++++kg++ kmssSkGn +t++d+lev+epe++r+++++ k ++ + l++dl++ + ++++d++er +
  PHY93_06690|PHY93_06690 262 EIVtEIYDWKPPMYLQYDFVSIKGMGgKMSSSKGNLVTVNDVLEVYEPEMVRWIFASYKTNTDFALSFDLDVVKNYEDFDRMERMA 347
                              ************************999**********************************************************9 PP

             tRNA-synt_1f 340 f...aeqeeeeekekrvyelsa 358
                              +     +e++ +  krvyels+
  PHY93_06690|PHY93_06690 348 YglePGNEKKVAMAKRVYELSQ 369
                              99977788888999******98 PP

>> tRNA-synt_1e  tRNA synthetases class I (C) catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.2   0.0   1.8e-07   0.00064       7      91 ..      25     128 ..      19     165 .. 0.70
   2 !   24.3   0.0   4.9e-09   1.8e-05     240     291 ..     274     325 ..     240     336 .. 0.84

  Alignments for each domain:
  == domain 1  score: 19.2 bits;  conditional E-value: 1.8e-07
                              TTEEEEEEEEEBTTS--BHHHHHHHHHHHHHHHHHHHTT-EEEEEEEBB--SH..HHHHHHHHTTS-................... CS
             tRNA-synt_1e   7 ekkvtlYvCGptvydashlGhaRslvafDilrrilqalgYdvqfvqnvtDidD..kiikrareeeks................... 71 
                              +k++     G+t    +h+G+ R+++++D+++r l+++g +v+f+    D d   k+   a+  ++                    
  PHY93_06690|PHY93_06690  25 DKELYTLASGITPSGVVHFGNFREVITVDLVARGLKKRGKKVRFIFSWDDYDTfrKVP--ANMPNQAelnkflfcpivdtpdpfge 108
                              556666678************************************9988887521332..22222222345566666666666665 PP

                              HHHHHHHHHHHHHHHHHHTT CS
             tRNA-synt_1e  72 vkelaekfieefkkdleaLn 91 
                               ++ a++++++f++++++++
  PHY93_06690|PHY93_06690 109 HESYAAHHEKAFEAQIAKMG 128
                              55556666666666666555 PP

  == domain 2  score: 24.3 bits;  conditional E-value: 4.9e-09
                              EEEEE--EEETT..BE--TTTT---BHHHHHTTS-HHHHHHHHHSS-TTS-EEE CS
             tRNA-synt_1e 240 yflhnghlkieg..ekmsksLknfitikdvlkkfdprqlRllllsahyrsqldf 291
                               +l  ++++i+g   kms s +n++t++dvl+ ++p+++R++++s + ++  df
  PHY93_06690|PHY93_06690 274 MYLQYDFVSIKGmgGKMSSSKGNLVTVNDVLEVYEPEMVRWIFASYKTNT--DF 325
                              578889999985337****************************9865554..43 PP

>> tRNA-synt_1g  tRNA synthetases class I (M)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.0   1.5e-06    0.0055      11      56 ..      38      83 ..      32      91 .. 0.89
   2 !   19.3   0.1   1.1e-07   0.00039     324     367 ..     286     328 ..     263     340 .. 0.77

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 1.5e-06
                             SS---HHHHHHHHHHHHHHHHHHHTT-EEEEEEEE---SHHHHHHH CS
             tRNA-synt_1g 11 ngklHlGhllevisaDifaRykrlrgeevlfvcgtDehGtpielkA 56
                             +g++H G+ +evi  D +aR  ++rg++v f+ + D + t  ++ A
  PHY93_06690|PHY93_06690 38 SGVVHFGNFREVITVDLVARGLKKRGKKVRFIFSWDDYDTFRKVPA 83
                             789*********************************9988666655 PP

  == domain 2  score: 19.3 bits;  conditional E-value: 1.1e-07
                              --------------HHHHHHHH-HHHHHHHHHHHS-TTS-EEE- CS
             tRNA-synt_1g 324 egkKlSkSrgvvvkakealerldadllRYylaaeapekkDldfs 367
                               g+K+S+S+g++v+++++le ++++++R+ +a+ +  ++D+ +s
  PHY93_06690|PHY93_06690 286 MGGKMSSSKGNLVTVNDVLEVYEPEMVRWIFASYKT-NTDFALS 328
                              479**************************9987543.4454444 PP

>> tRNA-synt_1  tRNA synthetases class I (I, L, M and V)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.9   0.0   0.00089       3.2      18      70 ..      22      73 ..      10      78 .. 0.85
   2 !   11.8   0.0   1.4e-05     0.051     559     600 ..     285     326 ..     257     328 .. 0.87

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.00089
              tRNA-synt_1 18 kekekkefilvdgPPyvtGslHiGhalaktlkdivirykrmkGkevlyvpGwD 70
                             ++++k+ ++l+ g     G +H+G+  + +  d+v r  + +Gk+v++ + wD
  PHY93_06690|PHY93_06690 22 ANNDKELYTLASGI-TPSGVVHFGNFREVITVDLVARGLKKRGKKVRFIFSWD 73
                             55667778887774.347**********************************9 PP

  == domain 2  score: 11.8 bits;  conditional E-value: 1.4e-05
              tRNA-synt_1 559 eeGrKmSKslgNvidpldvikkygadalRltlilsdvgrdin 600
                              + G KmS s+gN +  +dv++ y  +++R++ ++ ++  d +
  PHY93_06690|PHY93_06690 285 GMGGKMSSSKGNLVTVNDVLEVYEPEMVRWIFASYKTNTDFA 326
                              6799***************************99887777766 PP

>> tRNA-synt_1b  tRNA synthetases class I (W and Y)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.1   0.0     0.027        96       7      23 ..      30      46 ..      24      57 .. 0.84
   2 !   13.0   0.0   1.3e-05     0.046     149     216 ..     239     305 ..     235     351 .. 0.79

  Alignments for each domain:
  == domain 1  score: 2.1 bits;  conditional E-value: 0.027
                             EEEEEEETSSS-BGGGH CS
             tRNA-synt_1b  7 rvysGidPTgklHlGyl 23
                             ++ sGi P+g +H G++
  PHY93_06690|PHY93_06690 30 TLASGITPSGVVHFGNF 46
                             6789***********87 PP

  == domain 2  score: 13.0 bits;  conditional E-value: 1.3e-05
                              TCHSEEEEEGG...GHHHHHHHHHHHHHHHHHSTTSS-EEEEET-BBSTTSSSBTTCETTCGC-BTTCCHH CS
             tRNA-synt_1b 149 lkadlvpgGsD...QkqnielgrdlarrfnkkevfkkpegltvplltgldGekKmSKSagnsaIfLddeke 216
                               k+d++pgG+D   Q + ++ + +++ ++ +    k+p  l+ ++++    + KmS+S+gn  +  +d  e
  PHY93_06690|PHY93_06690 239 EKVDFEPGGKDhssQGGSFTTAKEIVTEIYDW---KPPMYLQYDFVSIKGMGGKMSSSKGN-LVTVNDVLE 305
                              57899******8888899***********887...99*******777554444********.777776554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (528 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       752  (0.0419432); expected 358.6 (0.02)
Passed bias filter:                      591  (0.0329634); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.61u 0.26s 00:00:00.87 Elapsed: 00:00:00.42
# Mc/sec: 3791.27
//
Query:       PHY93_06695|PHY93_06695  [L=68]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.18   12.3   0.0       0.18   12.3   0.0    1.1  1  ocr       DNA mimic ocr
       0.19   11.9   0.0       0.32   11.2   0.0    1.4  1  PMBR      Pseudomurein-binding repeat


Domain annotation for each model (and alignments):
>> ocr  DNA mimic ocr
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0     2e-05      0.18       5      40 ..       2      37 ..       1      55 [. 0.83

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 2e-05
                             -HHHHHHHHHHHHHHHHHHTT---GGG-HHHHHHHH CS
                      ocr  5 tysdvydhayellkeyiryddvrdeddlsdkiheaa 40
                             t +  +d a +llk+y+++ +v+++  ++ ++ +a 
  PHY93_06695|PHY93_06695  2 TPTLSFDEAVNLLKKYVKFSEVKNQKHIDLSLCTAE 37
                             556679******************998776666555 PP

>> PMBR  Pseudomurein-binding repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   3.6e-05      0.32       3      20 ..       3      20 ..       2      27 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 3.6e-05
                     PMBR  3 gkisyeeyldmasrvlaf 20
                             +++s++e++++++++++f
  PHY93_06695|PHY93_06695  3 PTLSFDEAVNLLKKYVKF 20
                             79***************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (68 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       476  (0.0265492); expected 358.6 (0.02)
Passed bias filter:                      314  (0.0175135); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.40
# Mc/sec: 515.23
//
Query:       PHY93_06700|PHY93_06700  [L=794]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    8.8e-57  188.9  25.0    2.9e-13   49.5   0.7    5.5  5  PKD           PKD domain
    5.7e-06   26.2   8.6     0.0078   16.1   0.3    4.0  3  Y_Y_Y         Y_Y_Y domain
     0.0026   18.0   5.9        1.4    9.1   0.3    4.5  5  PKD_2         PKD-like family
     0.0063   16.5   0.1      0.031   14.3   0.1    2.2  1  Mucin_bdg     Putative mucin or carbohydrate-binding module
     0.0075   16.0   5.0        4.1    7.2   0.1    4.9  5  PKD_3         PKD-like domain
  ------ inclusion threshold ------
       0.03   14.5   0.4       0.29   11.4   0.1    2.4  2  ArlS_N        ArlS sensor domain
      0.033   14.4   3.9        3.6    7.8   0.0    3.8  4  DUF4625       Domain of unknown function (DUF4625)
      0.044   14.2   0.0        7.1    7.1   0.0    3.0  3  DUF4399       Domain of unknown function (DUF4399)
       0.11   12.2   0.1         13    5.4   0.0    3.1  4  ChitinaseA_N  Chitinase A, N-terminal domain
       0.13   11.8   2.3        4.3    6.9   0.1    3.1  3  TcfC          E-set like domain
        7.3    6.8  10.9         80    3.5   0.0    4.5  4  DUF5011       Domain of unknown function (DUF5011)


Domain annotation for each model (and alignments):
>> PKD  PKD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.5   0.7   1.8e-16   2.9e-13      10      68 ..     301     361 ..     294     363 .. 0.91
   2 !   48.2   1.1   4.5e-16   7.3e-13      10      67 ..     385     441 ..     380     443 .. 0.95
   3 !   45.0   0.4   4.2e-15   6.9e-12      14      70 ..     474     530 ..     472     531 .. 0.93
   4 !   23.9   0.1   1.7e-08   2.7e-05       8      51 ..     548     592 ..     544     601 .. 0.93
   5 !   36.8   0.4   1.6e-12   2.7e-09      11      69 ..     632     693 ..     627     694 .. 0.88

  Alignments for each domain:
  == domain 1  score: 49.5 bits;  conditional E-value: 1.8e-16
                              SSEEEEEEEES....-SS-SEEEEE--SS--EEEEETTEEEEEE-SSEEEEEEEEEE-SS-E CS
                      PKD  10 pgatvaftaav...pdganvtysWdfgdgsvvqvlseptvthtYlspGeYeVtvtasnavgs 68 
                               +  v f ++    p ++ +ty Wdfgd ++++++s++t +h YlspG+Y+V++++ +a+++
  PHY93_06700|PHY93_06700 301 NNLQVSFDSTNpkhPNASGLTYFWDFGD-GQTTKTSSKTLSHNYLSPGTYTVRLKVGDAYNN 361
                              5778888888888788************.******************************998 PP

  == domain 2  score: 48.2 bits;  conditional E-value: 4.5e-16
                              SSEEEEEEEES...-SS-SEEEEE--SS--EEEEETTEEEEEE-SSEEEEEEEEEE-SS- CS
                      PKD  10 pgatvaftaav..pdganvtysWdfgdgsvvqvlseptvthtYlspGeYeVtvtasnavg 67 
                               +  v+f a    p  +  tysWdfgd   +q+ ++++++++Y+++G+Y+V++ ++na+g
  PHY93_06700|PHY93_06700 385 NNLQVNFAANPlgPNETGMTYSWDFGD---GQTATSKNPNYSYSQAGTYTVSLIVTNAYG 441
                              6899***********************...****************************98 PP

  == domain 3  score: 45.0 bits;  conditional E-value: 4.2e-15
                              EEEEEES..-SS-SEEEEE--SS--EEEEETTEEEEEE-SSEEEEEEEEEE-SS-EEE CS
                      PKD  14 vaftaav.pdganvtysWdfgdgsvvqvlseptvthtYlspGeYeVtvtasnavgsat 70 
                              +++ a+  ++ +++tysWdfgd + + ++s  t+ htY+++G +eV +t+s+  g+++
  PHY93_06700|PHY93_06700 474 LNLDATIiQSLTDLTYSWDFGD-GHAESSSIATTAHTYENAGIFEVILTVSDLNGNTA 530
                              5788888999************.******************************99986 PP

  == domain 4  score: 23.9 bits;  conditional E-value: 1.7e-08
                              -BSSEEEEEEEES...-SS-SEEEEE--SS--EEEEETTEEEEEE- CS
                      PKD   8 lvpgatvaftaav..pdganvtysWdfgdgsvvqvlseptvthtYl 51 
                              + +g++vaft     ++ + ++y+W+fgd + ++++++++vth ++
  PHY93_06700|PHY93_06700 548 ITAGREVAFTLIDnfQTSSGLSYHWTFGD-GETLITTSKKVTHLFS 592
                              5689******99999**************.*************987 PP

  == domain 5  score: 36.8 bits;  conditional E-value: 1.6e-12
                              SEEEEEEEES.....-SS-SEEEEE--SS--EEEEETTEEEEEE-SSEEEEEEEEEE-SS-EE CS
                      PKD  11 gatvaftaav....pdganvtysWdfgdgsvvqvlseptvthtYlspGeYeVtvtasnavgsa 69 
                              +++v+f+  +    +     tysW fgd +  +++  +++thtY  +G+Y+V+v++ +  g++
  PHY93_06700|PHY93_06700 632 NRNVRFNLESilayDHEPGMTYSWSFGD-GEQGTSFDSSITHTYFIEGTYHVSVNVYDKNGNL 693
                              67788887777788889999********.7777889999*******************99985 PP

>> Y_Y_Y  Y_Y_Y domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.3   4.8e-06    0.0078      18      65 ..     328     371 ..     320     372 .. 0.82
   2 ?    4.1   0.3     0.027        44      30      65 ..     419     454 ..     402     454 .. 0.76
   3 !    8.7   0.1   0.00099       1.6      17      59 ..     658     698 ..     645     702 .. 0.85

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 4.8e-06
                              ESSEEEESSTS.EEEEES--SEEEEEEEEEEETTS-B-SS-EEEEEEE CS
                    Y_Y_Y  18 dkeWveasdysqeasytnlppGdYtlkVkakdndgqwnyditslsfti 65 
                              d++ +++s+   ++s + l+pG+Yt+++k+ d +  +n+d t+++f++
  PHY93_06700|PHY93_06700 328 DGQTTKTSSK--TLSHNYLSPGTYTVRLKVGDAY--NNFDVTKVTFQV 371
                              6677777776..8*****************9965..678889999998 PP

  == domain 2  score: 4.1 bits;  conditional E-value: 0.027
                              EEEEES--SEEEEEEEEEEETTS-B-SS-EEEEEEE CS
                    Y_Y_Y  30 easytnlppGdYtlkVkakdndgqwnyditslsfti 65 
                              + +y+   +G+Yt+ + +++ +g     + ++++ti
  PHY93_06700|PHY93_06700 419 NPNYSYSQAGTYTVSLIVTNAYGVRAITSIEVQITI 454
                              44688889***************9987767777766 PP

  == domain 3  score: 8.7 bits;  conditional E-value: 0.00099
                              TESSEEEESSTS.EEEEES--SEEEEEEEEEEETTS-B-SS-E CS
                    Y_Y_Y  17 idkeWveasdysqeasytnlppGdYtlkVkakdndgqwnydit 59 
                               d+e  +++d+  +++ t   +G+Y + V + d++g+  +++t
  PHY93_06700|PHY93_06700 658 GDGEQGTSFDS--SITHTYFIEGTYHVSVNVYDKNGNLLFNET 698
                              57888888999..8***********************998875 PP

>> PKD_2  PKD-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.9   0.0    0.0039       6.4      38     102 ..     308     366 ..     288     378 .. 0.75
   2 ?    0.3   0.1      0.43     7e+02       7      28 ..     421     443 ..     388     470 .. 0.58
   3 !    9.1   0.3   0.00084       1.4      30     108 ..     471     539 ..     419     549 .. 0.68
   4 ?   -0.0   0.1      0.54   8.8e+02      47      60 ..     565     583 ..     544     632 .. 0.60
   5 ?   -0.7   0.0       0.9   1.5e+03      47      98 ..     648     693 ..     605     708 .. 0.62

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.0039
                    PKD_2  38 klttasekdeeeleyeWkiiksskslkidtiseeedldvvvdleakkyslrlsvtdkktgityfa 102
                              + t++++ +++ l+y W +      ++++t+ ++++   +  l +++y++rl+v d  ++ ++++
  PHY93_06700|PHY93_06700 308 DSTNPKHPNASGLTYFWDF------GDGQTTKTSSKTLSHNYLSPGTYTVRLKVGDAYNNFDVTK 366
                              44555556999********......556666666666667778999**********999987664 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.43
                    PKD_2   7 NydYeevneievski.kevysva 28 
                              Ny+Y++  + +vs i +++y v+
  PHY93_06700|PHY93_06700 421 NYSYSQAGTYTVSLIvTNAYGVR 443
                              45555555555555423333333 PP

  == domain 3  score: 9.1 bits;  conditional E-value: 0.00084
                    PKD_2  30 getlkikpklttasekdeeeleyeWkiiksskslkidtiseeedldvvvdleakkyslrlsvtdkktgityfaetslev 108
                              + +l+++++++++  +    l+y W +      ++++  s +   + ++ ++a+  +++l+v+d + ++ + ++  + +
  PHY93_06700|PHY93_06700 471 KFQLNLDATIIQSLTD----LTYSWDF------GDGHAESSSIATTAHTYENAGIFEVILTVSDLNGNTATANKSIIII 539
                              3355566666666555....9*****9......788889999999*******************999998888877665 PP

  == domain 4  score: -0.0 bits;  conditional E-value: 0.54
                    PKD_2  47 eeeleyeWkiiks.....s 60 
                              ++ l+y+W++        +
  PHY93_06700|PHY93_06700 565 SSGLSYHWTFGDGetlitT 583
                              6789*****9554333322 PP

  == domain 5  score: -0.7 bits;  conditional E-value: 0.9
                    PKD_2  47 eeeleyeWkiiksskslkidtiseeedldvvvdleakkyslrlsvtdkktgi 98 
                              e  ++y W +   ++ +++d+        +++    ++y++  +v+dk+ ++
  PHY93_06700|PHY93_06700 648 EPGMTYSWSFGDGEQGTSFDSSI------THTYFIEGTYHVSVNVYDKNGNL 693
                              67889999985544444444322......33334445556666666665554 PP

>> Mucin_bdg  Putative mucin or carbohydrate-binding module
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.3   0.1   1.9e-05     0.031      26      60 ..     666     701 ..     660     723 .. 0.78

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.9e-05
                Mucin_bdg  26 vtskkphyyfedetY.asievkdkdGneklrkeieG 60 
                              + s+ +h yf + tY +s++v+dk+Gn +++++i  
  PHY93_06700|PHY93_06700 666 FDSSITHTYFIEGTYhVSVNVYDKNGNLLFNETIFV 701
                              667899*********779**************9965 PP

>> PKD_3  PKD-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.8   0.0     0.062     1e+02      24      66 ..     311     355 ..     293     357 .. 0.81
   2 !    7.2   0.1    0.0025       4.1      33      68 .]     403     438 ..     383     438 .. 0.78
   3 ?    1.3   0.0      0.18     3e+02      27      67 ..     481     523 ..     473     524 .. 0.84
   4 ?   -0.1   0.0      0.48   7.9e+02      17      52 ..     550     589 ..     542     600 .. 0.69
   5 ?    1.4   0.1      0.16   2.7e+02      33      66 ..     651     686 ..     644     688 .. 0.82

  Alignments for each domain:
  == domain 1  score: 2.8 bits;  conditional E-value: 0.062
                    PKD_3  24 aPtvenaenaafaWtie.Gk.ivsteptytfteeelgsyevtlev 66 
                              +P+  na + ++ W    G+    + +t+  +  + g+y+v+l+v
  PHY93_06700|PHY93_06700 311 NPKHPNASGLTYFWDFGdGQtTKTSSKTLSHNYLSPGTYTVRLKV 355
                              6888888888999999856644667789999999*********98 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.0025
                    PKD_3  33 aafaWtieGkivsteptytfteeelgsyevtleven 68 
                               +++W   +    t ++  ++ +++g+y+v l v+n
  PHY93_06700|PHY93_06700 403 MTYSWDFGDGQTATSKNPNYSYSQAGTYTVSLIVTN 438
                              469***996665555555666679********9988 PP

  == domain 3  score: 1.3 bits;  conditional E-value: 0.18
                    PKD_3  27 venaenaafaWtie.Gk.ivsteptytfteeelgsyevtleve 67 
                              ++++ + +++W    G  + s+ +t   t e++g +ev+l+v+
  PHY93_06700|PHY93_06700 481 IQSLTDLTYSWDFGdGHaESSSIATTAHTYENAGIFEVILTVS 523
                              567777789**9986665789999999999**********997 PP

  == domain 4  score: -0.1 bits;  conditional E-value: 0.48
                    PKD_3  17 vgreltia..PtvenaenaafaWtie.Gk.ivsteptytf 52 
                              +gre+ ++   +++ + +  + Wt   G+ ++ t ++ t 
  PHY93_06700|PHY93_06700 550 AGREVAFTliDNFQTSSGLSYHWTFGdGEtLITTSKKVTH 589
                              56665555224667777777****9867756888777665 PP

  == domain 5  score: 1.4 bits;  conditional E-value: 0.16
                    PKD_3  33 aafaWtie.Gki.vsteptytfteeelgsyevtlev 66 
                               +++W+   G+   s + ++t t    g+y+v  +v
  PHY93_06700|PHY93_06700 651 MTYSWSFGdGEQgTSFDSSITHTYFIEGTYHVSVNV 686
                              469***9856645999***************99876 PP

>> ArlS_N  ArlS sensor domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1   0.00018      0.29      40      75 ..     588     623 ..     574     629 .. 0.87
   2 ?   -0.0   0.0      0.58   9.4e+02      51      66 ..     682     697 ..     680     707 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00018
                   ArlS_N  40 dsllekinekdqtirildkdgkevlevsndspeikf 75 
                              ++l+ +++ k++++ +ld + +e+++vs++ +++ +
  PHY93_06700|PHY93_06700 588 THLFSNLLSKEISVKLLDVNSNEIYQVSDRLSDRSY 623
                              7899*************************9998854 PP

  == domain 2  score: -0.0 bits;  conditional E-value: 0.58
                   ArlS_N  51 qtirildkdgkevlev 66 
                               +++++dk+g+ ++  
  PHY93_06700|PHY93_06700 682 VSVNVYDKNGNLLFNE 697
                              579********99875 PP

>> DUF4625  Domain of unknown function (DUF4625)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0       6.4   1.1e+04     104     119 ..     344     359 ..     306     370 .. 0.71
   2 ?    1.9   0.0      0.15   2.4e+02     105     131 ..     426     452 ..     407     453 .. 0.93
   3 ?    3.4   0.1     0.053        86     105     131 ..     512     538 ..     460     539 .. 0.81
   4 ?    7.8   0.0    0.0022       3.6     105     121 ..     676     692 ..     653     701 .. 0.87

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 6.4
                  DUF4625 104 aeaGdYhlvirvtDas 119
                                +G Y + ++v Da 
  PHY93_06700|PHY93_06700 344 LSPGTYTVRLKVGDAY 359
                              4577787777777765 PP

  == domain 2  score: 1.9 bits;  conditional E-value: 0.15
                  DUF4625 105 eaGdYhlvirvtDasGneteesreiki 131
                              +aG Y + + vt a G    +s+e++i
  PHY93_06700|PHY93_06700 426 QAGTYTVSLIVTNAYGVRAITSIEVQI 452
                              79*********************9998 PP

  == domain 3  score: 3.4 bits;  conditional E-value: 0.053
                  DUF4625 105 eaGdYhlvirvtDasGneteesreiki 131
                              +aG ++++++v D +Gn+   + +i i
  PHY93_06700|PHY93_06700 512 NAGIFEVILTVSDLNGNTATANKSIII 538
                              5799***************99999988 PP

  == domain 4  score: 7.8 bits;  conditional E-value: 0.0022
                  DUF4625 105 eaGdYhlvirvtDasGn 121
                               +G Yh+ + v D++Gn
  PHY93_06700|PHY93_06700 676 IEGTYHVSVNVYDKNGN 692
                              58**************9 PP

>> DUF4399  Domain of unknown function (DUF4399)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.1   0.0    0.0044       7.1      47      75 ..     326     361 ..     304     372 .. 0.75
   2 ?    3.5   0.0     0.056        91      46      88 ..     408     452 ..     386     455 .. 0.74
   3 ?   -3.6   0.0       9.3   1.5e+04       9      29 ..     502     522 ..     497     545 .. 0.66

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.0044
                  DUF4399  47 fgkgqtetele.......lppGkhtLqlqlgdaahv 75 
                              fg+gqt+++ +       l+pG++t++l +gda+++
  PHY93_06700|PHY93_06700 326 FGDGQTTKTSSktlshnyLSPGTYTVRLKVGDAYNN 361
                              78888765432122244589************9875 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.056
                  DUF4399  46 Hfgkgqtetele.....lppGkhtLqlqlgdaahvplkpsvlskkitv 88 
                               fg+gqt t+ +      ++G++t+ l++ +a++v   +s    ++++
  PHY93_06700|PHY93_06700 408 DFGDGQTATSKNpnysySQAGTYTVSLIVTNAYGVRAITS---IEVQI 452
                              59999999998733333479**********9999876644...34444 PP

  == domain 3  score: -3.6 bits;  conditional E-value: 9.3
                  DUF4399   9 gvapageetentGhhhllvde 29 
                               +a  +++ en+G + +++  
  PHY93_06700|PHY93_06700 502 SIATTAHTYENAGIFEVILTV 522
                              566777777888888877762 PP

>> ChitinaseA_N  Chitinase A, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       1.8     3e+03      66      94 ..     331     358 ..     294     372 .. 0.65
   2 ?    2.8   0.0     0.053        87      67     107 ..     412     452 ..     403     455 .. 0.79
   3 ?    5.4   0.0    0.0083        13      68     107 ..     499     538 ..     464     548 .. 0.85
   4 ?   -3.7   0.0       5.3   8.6e+03      74      96 ..     669     691 ..     660     697 .. 0.77

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 1.8
             ChitinaseA_N  66 egaasakesatfkvkkgGryqlevelCda 94 
                              + ++ ++++   ++   G y +++++ da
  PHY93_06700|PHY93_06700 331 TTKT-SSKTLSHNYLSPGTYTVRLKVGDA 358
                              2222.355667788888999888887765 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.053
             ChitinaseA_N  67 gaasakesatfkvkkgGryqlevelCdaeGCsksapkeivv 107
                              g++ ++++ +++++++G y +++ + +a G  + ++ e+ +
  PHY93_06700|PHY93_06700 412 GQTATSKNPNYSYSQAGTYTVSLIVTNAYGVRAITSIEVQI 452
                              5556677889*******************976666555554 PP

  == domain 3  score: 5.4 bits;  conditional E-value: 0.0083
             ChitinaseA_N  68 aasakesatfkvkkgGryqlevelCdaeGCsksapkeivv 107
                              ++s+ +++  +++++G +++ + + d +G ++ a k+i++
  PHY93_06700|PHY93_06700 499 ESSSIATTAHTYENAGIFEVILTVSDLNGNTATANKSIII 538
                              33456677899********************999999987 PP

  == domain 4  score: -3.7 bits;  conditional E-value: 5.3
             ChitinaseA_N  74 satfkvkkgGryqlevelCdaeG 96 
                              s t ++   G y+++v++ d++G
  PHY93_06700|PHY93_06700 669 SITHTYFIEGTYHVSVNVYDKNG 691
                              45667777899999999988887 PP

>> TcfC  E-set like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.0     0.038        63      36      54 ..     339     357 ..     329     369 .. 0.80
   2 ?   -2.0   0.1       1.6   2.6e+03      43      55 ..     427     439 ..     419     446 .. 0.81
   3 ?    6.9   0.1    0.0026       4.3      36      62 ..     670     697 ..     667     701 .. 0.79

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.038
                     TcfC  36 idtssLPsGiYeveirvye 54 
                              +  + L  G+Y+v+++v +
  PHY93_06700|PHY93_06700 339 LSHNYLSPGTYTVRLKVGD 357
                              56677999********976 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 1.6
                     TcfC  43 sGiYeveirvyen 55 
                               G+Y+v + v ++
  PHY93_06700|PHY93_06700 427 AGTYTVSLIVTNA 439
                              69****9998876 PP

  == domain 3  score: 6.9 bits;  conditional E-value: 0.0026
                     TcfC  36 idtssLPsGiYeveirvye.ngqvvrte 62 
                              i  + + +G+Y v + vy+ ng+++ +e
  PHY93_06700|PHY93_06700 670 ITHTYFIEGTYHVSVNVYDkNGNLLFNE 697
                              55667889***********888876555 PP

>> DUF5011  Domain of unknown function (DUF5011)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.3     0.062     1e+02      42      61 ..     342     361 ..     318     371 .. 0.75
   2 ?    2.9   0.8     0.076   1.2e+02      33      64 ..     414     445 ..     399     452 .. 0.71
   3 ?    3.5   0.0     0.049        80      44      70 ..     511     537 ..     491     538 .. 0.86
   4 ?    0.3   0.1      0.49   7.9e+02      46      61 ..     677     692 ..     648     694 .. 0.90

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.062
                              -TTS-EEEEEEEEEE-TTSE CS
                  DUF5011  42 dtskvGtYtitYtvtdssgn 61 
                              ++  +GtYt+  +v d+++n
  PHY93_06700|PHY93_06700 342 NYLSPGTYTVRLKVGDAYNN 361
                              77789*****9999999887 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.076
                              GG-EEES---TTS-EEEEEEEEEE-TTSEEEE CS
                  DUF5011  33 skvkvtgsVdtskvGtYtitYtvtdssgneat 64 
                              +  + + +  +s++GtYt+   vt+++g +a 
  PHY93_06700|PHY93_06700 414 TATSKNPNYSYSQAGTYTVSLIVTNAYGVRAI 445
                              5555555667899***********99998765 PP

  == domain 3  score: 3.5 bits;  conditional E-value: 0.049
                              TS-EEEEEEEEEE-TTSEEEEEEEEEE CS
                  DUF5011  44 skvGtYtitYtvtdssgneatvtRtVk 70 
                              +++G +++  tv+d +gn+at++  ++
  PHY93_06700|PHY93_06700 511 ENAGIFEVILTVSDLNGNTATANKSII 537
                              679******************987765 PP

  == domain 4  score: 0.3 bits;  conditional E-value: 0.49
                              -EEEEEEEEEE-TTSE CS
                  DUF5011  46 vGtYtitYtvtdssgn 61 
                               GtY++  +v d++gn
  PHY93_06700|PHY93_06700 677 EGTYHVSVNVYDKNGN 692
                              59***********998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (794 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       580  (0.0323498); expected 358.6 (0.02)
Passed bias filter:                      394  (0.0219756); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.72u 0.27s 00:00:00.99 Elapsed: 00:00:00.44
# Mc/sec: 5450.07
//
Query:       PHY93_06705|PHY93_06705  [L=293]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0053   16.7   0.0      0.011   15.6   0.0    1.6  1  Y_Y_Y            Y_Y_Y domain
  ------ inclusion threshold ------
       0.12   11.8   0.1       0.21   11.1   0.1    1.3  1  Phage_antiter_Q  Phage antitermination protein Q
       0.15   11.5   0.0       0.39   10.2   0.0    1.6  1  TcfC             E-set like domain


Domain annotation for each model (and alignments):
>> Y_Y_Y  Y_Y_Y domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0   1.9e-06     0.011      29      55 ..     107     135 ..      95     142 .. 0.83

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 1.9e-06
                              ...EEEEES--SEEEEEEEEEEETTS-B- CS
                    Y_Y_Y  29 q..easytnlppGdYtlkVkakdndgqwn 55 
                              +  ++s + lppG Y+l Vk++d+++++ 
  PHY93_06705|PHY93_06705 107 KelHISVSRLPPGFYQLFVKVRDRKNKEH 135
                              45689******************998875 PP

>> Phage_antiter_Q  Phage antitermination protein Q
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.1   3.5e-05      0.21     118     181 ..     181     243 ..     178     264 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 3.5e-05
          Phage_antiter_Q 118 ivqylWekFlaqlkgkrlaaktkerlraLvwlavqdvkkeladreidsyerae..laslvGvskkn 181
                              i +++ e+F++q k  ++a k     r+L +l+v  + + +  +++     ++  l+s+vG+++k+
  PHY93_06705|PHY93_06705 181 IQRWINEEFSSQPKV-KMAMKQMAMGRQLDLLSVSIREQSIIASNKY--LNDAicLSSIVGIDQKS 243
                              789********9999.9***************************995..4444459******9886 PP

>> TcfC  E-set like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0   6.6e-05      0.39      35      55 ..     110     130 ..     106     137 .. 0.88

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 6.6e-05
                     TcfC  35 eidtssLPsGiYeveirvyen 55 
                              +i  s+LP G+Y++ ++v++ 
  PHY93_06705|PHY93_06705 110 HISVSRLPPGFYQLFVKVRDR 130
                              6889**************983 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (293 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       874  (0.0487478); expected 358.6 (0.02)
Passed bias filter:                      497  (0.0277205); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.22s 00:00:00.77 Elapsed: 00:00:00.41
# Mc/sec: 2126.98
//
Query:       PHY93_05455|PHY93_05455  [L=1041]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
   1.4e-258  860.6  16.8   1.6e-258  860.4  16.8    1.0  1  ACR_tran     AcrB/AcrD/AcrF family
    4.8e-12   45.5  17.1    2.7e-08   33.1   1.3    2.7  2  MMPL         MMPL family
  ------ inclusion threshold ------
       0.11   13.3   0.3       0.11   13.3   0.3    4.1  6  HKR_ArcB_TM  Histidine kinase receptor ArcB trans-membrane do


Domain annotation for each model (and alignments):
>> ACR_tran  AcrB/AcrD/AcrF family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  860.4  16.8  2.7e-262  1.6e-258       2    1020 ..       4    1025 ..       3    1026 .. 0.97

  Alignments for each domain:
  == domain 1  score: 860.4 bits;  conditional E-value: 2.7e-262
                               HHHHHTSHHHHHHHHHHHHHHHHHHHCTSSBESSSS-S--EEEEEEE-TTC-HHHHHHHTHHHHHCTCTS-TTEEEEEEEETTS CS
                 ACR_tran    2 ikffikrpifalvlaliilllGilsilslPvdalPeiapptvqvstsypGaspevvesevtqplEqalngldglkyvsSqSseg 85  
                               ++++ikrp+f++ ++ +il++G ls+++lPvd +P++++p v+v+t ypGa pe+ve+ v ++ E++l+ ++glk++sSq  e+
  PHY93_05455|PHY93_05455    4 ASLSIKRPVFITCIVTVILVVGWLSLKKLPVDLFPNVTFPIVTVTTVYPGAGPEEVETLVSKVYEEELSNVPGLKKLSSQNLEN 87  
                               679********************************************************************************* PP

                               EEEEEEEESTTS-HHHHHHHHHHHHHHHGGGS-HHHHHH-EEEEEEECCECEEEEEEESSSSS-HHHHHHHHHHHTHHHHHTST CS
                 ACR_tran   86 lssitltFedgtdidiArqqvqnrlqeaknkLPeevqepgiskiktssseilvlavtskdgsltktelrdlaetnikdqLsrve 169 
                               +s i+ +F+ +td++ A+qqv +++++a++kLP e++ep i+ki++++++i+++av+s+   l+  el+++++++ik+q ++v+
  PHY93_05455|PHY93_05455   88 VSIIIAEFNLSTDVKYAEQQVRDKVSAARKKLPTEINEPVIRKIDPADQPIITIAVQSN---LPDGELYQVVDKKIKPQFEQVN 168 
                               ***********************************************************...********************** PP

                               TEEEEEESS.-SEEEEEEE-HHHHHCTT--HHHHHHHHHHHSSB-EEEEETT-SB-EEEEESB---SHHHHHTSEEE.ETTSCE CS
                 ACR_tran  170 GVgdvqliGgsekavriwldpqklaklgltltdvvsalkeqnvnvaaGqlegqeeelliraqgqlqsaediekiivk.nqdgsk 252 
                                Vg v+++Gg++++++i ld +kl++ ++++++v   l+   +n++aG+++ +++ +  r+ g+ +++++ie  iv+   +  +
  PHY93_05455|PHY93_05455  169 QVGLVDIVGGRKREIKIELDRNKLKSREISASQVAARLQISGQNIPAGKVSSSTKDFVFRTLGEYKTINEIESTIVNfIGNDIP 252 
                               ****************************************************************************98788889 PP

                               EEHHHCEEEEEEESSSSSEEEETTEEEEEEEEEEETTSBHHHHHHHHHHHHHCCGGGSSTT...EEEEEEEESHHHHHHHHHHH CS
                 ACR_tran  253 vrlrDvAkVelgaeeerlaatfngkpavllevkklpganaievakavkekleeLkeslPeg...veivvvydrtefvrasieeV 333 
                               v ++D++ V+++ ee+++ + +ng++a+ll+++k++g+n+i va+a+k+k  +++ +l ++   ++++vv d ++ ++a +++V
  PHY93_05455|PHY93_05455  253 VTVKDIGSVKDSLEERKGYGYYNGQKAILLSIYKQSGSNTIGVAEAIKKKALKINDTLKNEnslIHLEVVRDGARQIKANVDDV 336 
                               *********************************************************98764447789**************** PP

                               HHHHHHHHHHHHHHHHHHHSSHHHHHHHHHHHHHHHHHHHHHHHHTT--BCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT CS
                 ACR_tran  334 vktLleaivLvvlvvflFLqnlratlipaiavPlsllgtfavlkalgfslNlltLfgLvlAiGlvvDdAiVvvEnierkleeeg 417 
                                +t + +++L +lvv+ FL++ r+t+i+++a+P sllg f++l+a gf++N +tL +L lA+Gl++DdAiVv Eni+r++e+ g
  PHY93_05455|PHY93_05455  337 YETIIFGVILTILVVYFFLGSGRSTIITGLALPNSLLGSFILLAAAGFTVNIMTLLALSLAVGLLIDDAIVVRENIFRHIEM-G 419 
                               **********************************************************************************.* PP

                               S-HHHHHHHHHHHHHHHHHHHHHHHHHHCTGGGGSBHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHS---STT-CT.. CS
                 ACR_tran  418 ekpleaalksmkeiqgalvaialvllavflPilflgGveGklfrqfaltivlaillsvlvaltltPalcallLkerkeekek.. 499 
                               ++p+ aa+k+++e++ a+va++l+++avf Pi+fl+Gv+G++f++f+lt+ +a+++s++ alt+ P+l+a +    ++++ +  
  PHY93_05455|PHY93_05455  420 ADPVTAAIKGTNEVTLAVVATTLTVVAVFGPIAFLEGVVGQFFKEFGLTVCFALIISLFDALTMAPMLSAYFAGRIEQHEPGhv 503 
                               ************************************************************************987776665567 PP

                               ............SHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHHHHHHHHHHHHHHCS-BESS----TSEEEEEEE-STTB CS
                 ACR_tran  500 ............kffrefnrlfealeraYakllekvlrhravvllvalvllvlsvllfvripkeflPeedegvlvtsvqlppgv 571 
                                           +++++fn++ ++le+ Y  +l+++l+++ vvll+alv++++s++ + ++pk+f+P  d g++++s+ l+pg+
  PHY93_05455|PHY93_05455  504 kikkgfydhtlgAILEQFNQFQNWLEEIYVSVLKFSLKRPMVVLLSALVIFLASFAALKTVPKTFIPAPDSGEFLVSIDLKPGT 587 
                               9***9***9999999********************************************************************* PP

                               -HHHHHHHHHHHHHHHHTTTTEEEEEEEECECSSE..ECCCEEEEEEEES-GCGS-SGGGSHHHHHHHHHHHCTTSTSSEEEEE CS
                 ACR_tran  572 sleqtqkvlkqvekilkekpevesvfavtGfaesgdtagpnsakvfisLkpekerkeeeksvealierlrkelkkipganvell 655 
                               sl+ ++ v  ++++ +++++ev +++ ++G      + +p +a++f++L   k r+    +  ++ er+r++lk +  an    
  PHY93_05455|PHY93_05455  588 SLDGMNTVATEIDTLIRKNKEVLNTVLMVGD----ANGQPEKASIFVNLISGKLRP--GLNTSKFKERVRTQLKPFAYAN---- 661 
                               ******************************5....24689***************5..55666778*******9998888.... PP

                               ETTSSCCCSSSSCEEEEEEE.SSSSHHHHHHHHHHHHHHHHCCSTTEEEEEESS-S-EEEEEEEE-HHHHHHCTCSHHHHHHHH CS
                 ACR_tran  656 apiqlreletlsgvrselqvklfgddleaLseaaeqllaalkelpelsdvrseqqedqpqlqveidrekaarlGvsisdindtl 739 
                                 +++r   +++g +  ++  ++gdd++++++ +  l +++k++p+l+dv s+   ++p++qv +dr ka++lGvs+  +++ l
  PHY93_05455|PHY93_05455  662 --PAVRDIDNVGGGQRPFNINIVGDDMKEIEKYSGLLFEKIKHHPALKDVDSTKRPGKPEFQVIPDRSKAEKLGVSTTIMGAEL 743 
                               ..78888888888999999999************************************************************** PP

                               HHHHTTEEEEEEEETTEEEEEEEEE-GGGSSSGGGGCCSEEEETTSCEEEGGGTEEEEEEEE-SEEEEETTCEEEEEEEEESTT CS
                 ACR_tran  740 etalggsyvndfieegrrvkvvvrleedlrsspedlkklkvrnkkgkmvplsavakieeekgpnsierengsrsvvisgnvaeg 823 
                                t ++g+++ +f e+g+++++ vrl+ed r   +   + +v+n ++ +++ls++++  e+ gp +i+r+++ r ++is+++a+ 
  PHY93_05455|PHY93_05455  744 RTMIEGTKAAVFREKGEEYDIRVRLQEDQRDLKKGYYDTYVPNINNSLIKLSSMTTPLETIGPANINRQDRGRYIQISADIAPD 827 
                               ********************************************************************************9654 PP

                               ..S-HHHHHHHHHHHCTT..SSTTEEEEEEHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHTSSSTCHHHHTTHHHHHHHHHH CS
                 ACR_tran  824 ..dslseaeeavekiakkvklpegvtiewtgqaeqeqeasnsllilvalalllvflvLaalyeslsepllilltvPlalvGall 905 
                                  + + + +++  +  ++klp+++ +++ gqae++qe + ++++   l ++++++vLa lyes++ pl+i+l++Pla+ Ga+ 
  PHY93_05455|PHY93_05455  828 gpGMGGAITDIKRMLSDEIKLPNTMHYQFVGQAENFQELMANMMVAGGLGIMFIYFVLASLYESFVTPLTIMLVLPLAMCGAFY 911 
                               12577888888899999******************************************************************* PP

                               HHHHTT--BSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTCHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHCT-STTHH CS
                 ACR_tran  906 alllrglelsviaqvGlilliGlavkNaillvefakelrekegksleeaileaakeRLrPiLMTalaailGvlPLalstgaGse 989 
                               al +++++l++++++G i+l+G+a kN illv++a++  + +g+sl +ai+  +k RLrPiLMT+ a i G++PLa++  + s 
  PHY93_05455|PHY93_05455  912 ALAITHSSLDLFSMIGCIMLLGVATKNSILLVDYANQQVQ-QGLSLYDAIIASGKSRLRPILMTSFALIAGMVPLAIGLNEASK 994 
                               ***************************************9.99***************************************** PP

                               HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                 ACR_tran  990 lqqplgivvlgGlvtstvLtLllvPvlYvlv 1020
                                +  +gi+v+gGl++st+LtL ++P+ Y  +
  PHY93_05455|PHY93_05455  995 QRTSMGIAVIGGLISSTILTLVVIPAAYTYI 1025
                               ****************************876 PP

>> MMPL  MMPL family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   8.6   5.1e-07     0.003     150     308 ..     339     498 ..     321     527 .. 0.72
   2 !   33.1   1.3   4.6e-12   2.7e-08      87     307 ..     815    1031 ..     743    1038 .. 0.79

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 5.1e-07
                     MMPL 150 vvtlvvilviLlivy.....rSlvaallplltvvvsllaalglvlilalllglelstfvlgllvvlliavGtDYallLvsRyreel 230
                              ++++ vil+iL++ +     rS ++ +l l   +++ ++       l  ++g++++ ++l l+  l+++  +D a+ +   +   +
  PHY93_05455|PHY93_05455 339 TIIFGVILTILVVYFflgsgRSTIITGLALPNSLLGSFI-------LLAAAGFTVNIMTL-LALSLAVGLLIDDAIVVRENIFRHI 416
                              555555555555544333333333333333333333332.......23334555544433.566677777799999999999999* PP

                     MMPL 231 aagedreeaviravastgkvvtaaGltvaiamlgLvvar...lpvlaqvGvaialGvlvdvlivlTllPAllvl.lGraala 308
                              + g d  +a+i+  + +  +v+a +ltv++ +   ++++    ++++++G+++  +++++++ +lT+ P l ++ +Gr    
  PHY93_05455|PHY93_05455 417 EMGADPVTAAIKGTNEVTLAVVATTLTVVAVFGPIAFLEgvvGQFFKEFGLTVCFALIISLFDALTMAPMLSAYfAGRIEQH 498
                              *********************************988876222579**************************88735665444 PP

  == domain 2  score: 33.1 bits;  conditional E-value: 4.6e-12
                     MMPL   87 aaralvtlegdpgsteadesvaairaaveear.pleglkvevtGpaatladlrdasdrdlklievvtlvvilviLlivyrSlva 169 
                                 +++++ +  p+ +    ++++i++++++    ++ ++ + +G+a  +++     + ++++++ ++++ i  +L+ +y S+v+
  PHY93_05455|PHY93_05455  815 GRYIQISADIAPDGPGMGGAITDIKRMLSDEIkLPNTMHYQFVGQAENFQE----LMANMMVAGGLGIMFIYFVLASLYESFVT 894 
                               348888888889999999999999999998886788899999**9999999....7789************************* PP

                     MMPL  170 allplltvvvsllaalglvlilalllglelstfvlgllvvlliavGtDYallLvsRyreelaagedreeaviravastgkvvta 253 
                               +l ++l+  + +  a+  ++i+       l +   ++  ++l++v+t   +lLv    +++++g +  +a+i   +s  + +++
  PHY93_05455|PHY93_05455  895 PLTIMLVLPLAMCGAFYALAITHSS----L-DLFSMIGCIMLLGVATKNSILLVDYANQQVQQGLSLYDAIIASGKSRLRPILM 973 
                               ***9999999888888775544433....2.33557899********************************************* PP

                     MMPL  254 aGltvaiamlgLvvarlpvlaq...vGvaialGvlvdvlivlTllPAllvllGraa.l 307 
                                 + +++ m+ L++   ++ +q   +G+a+  G++ ++ ++l ++PA  +++ r++ +
  PHY93_05455|PHY93_05455  974 TSFALIAGMVPLAIGLNEASKQrtsMGIAVIGGLISSTILTLVVIPAAYTYIERFRvW 1031
                               ************9875555554455***********************9999998544 PP

>> HKR_ArcB_TM  Histidine kinase receptor ArcB trans-membrane domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.3   1.9e-05      0.11      36      59 ..     331     354 ..     326     356 .. 0.92
   2 ?   -2.9   0.3       2.1   1.2e+04      10      30 ..     371     392 ..     370     411 .. 0.52
   3 ?   -2.1   0.1       1.2     7e+03      12      37 ..     470     496 ..     465     499 .. 0.60
   4 ?   -4.1   0.7         3   1.8e+04       7      24 ..     536     553 ..     535     561 .. 0.65
   5 ?   -2.6   0.1       1.7     1e+04       9      36 ..     923     950 ..     922     957 .. 0.82
   6 ?   -2.1   0.1       1.2   7.3e+03      40      54 ..    1006    1020 ..     999    1024 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.9e-05
              HKR_ArcB_TM  36 veiedllrsilfgllsaPwvlYFl 59 
                               +++d+++ i+fg++ + +v+YF+
  PHY93_05455|PHY93_05455 331 ANVDDVYETIIFGVILTILVVYFF 354
                              6889*******************9 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 2.1
              HKR_ArcB_TM  10 Slllvlllivlalli.qillsl 30 
                              Sll+ ++l++ a ++ +i++ l
  PHY93_05455|PHY93_05455 371 SLLGSFILLAAAGFTvNIMTLL 392
                              5666555555443330332222 PP

  == domain 3  score: -2.1 bits;  conditional E-value: 1.2
              HKR_ArcB_TM  12 llvlllivl.alliqillslllsgeve 37 
                               ++l++ ++ al++  +ls ++ g++e
  PHY93_05455|PHY93_05455 470 CFALIISLFdALTMAPMLSAYFAGRIE 496
                              455555555255566677888877776 PP

  == domain 4  score: -4.1 bits;  conditional E-value: 3
              HKR_ArcB_TM   7 vrfSlllvlllivlalli 24 
                              ++fSl   +++++ al+i
  PHY93_05455|PHY93_05455 536 LKFSLKRPMVVLLSALVI 553
                              577777777777766665 PP

  == domain 5  score: -2.6 bits;  conditional E-value: 1.7
              HKR_ArcB_TM   9 fSlllvlllivlalliqillslllsgev 36 
                              fS+++ ++l+ +a+  +ill  + +++v
  PHY93_05455|PHY93_05455 923 FSMIGCIMLLGVATKNSILLVDYANQQV 950
                              8999999999999999888877666666 PP

  == domain 6  score: -2.1 bits;  conditional E-value: 1.2
              HKR_ArcB_TM   40 dllrsilfgllsaPw 54  
                                l++s +++l++ P 
  PHY93_05455|PHY93_05455 1006 GLISSTILTLVVIPA 1020
                               578999999999996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1041 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1012  (0.0564449); expected 358.6 (0.02)
Passed bias filter:                      567  (0.0316247); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.89u 0.26s 00:00:01.14 Elapsed: 00:00:00.45
# Mc/sec: 6993.38
//
Query:       PHY93_06710|PHY93_06710  [L=370]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (370 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       466  (0.0259914); expected 358.6 (0.02)
Passed bias filter:                      357  (0.0199119); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.43
# Mc/sec: 2593.98
//
Query:       PHY93_06715|PHY93_06715  [L=305]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.9e-10   39.4   0.0      7e-10   38.9   0.0    1.1  1  Acyl_transf_1  Acyl transferase domain


Domain annotation for each model (and alignments):
>> Acyl_transf_1  Acyl transferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.9   0.0   3.9e-14     7e-10      31     267 ..      34     279 ..      22     293 .. 0.78

  Alignments for each domain:
  == domain 1  score: 38.9 bits;  conditional E-value: 3.9e-14
                              HHHHHCCHHHT--..HHHHHHS--T..TGGGSHHHHHHHHHHHHHHHHHHHHHTT-TTSEEEE-TTHHHHHHHHCCSSSHHHHHHH CS
            Acyl_transf_1  31 radeafksqygfs..vldvlrnnpe..glldaiqfvqpaLaavqialaellkskGvrpaavvGHSlGElAaavvagalsseealla 112
                              +a  +++ + g+   ++++l++n     ++ +i  + +++  +q++ +++l+   + p+ +vG SlG +A  v+aga   e a++a
  PHY93_06715|PHY93_06715  34 QAQAVLRRELGLEtdLMKMLTQNTDeiYQIHNISLAAVVISSIQVGVVDHLRERFQSPDWMVGVSLGDIARTVSAGAYDFETAVVA 119
                              555566666665322666676665434577888889999999******************************************** PP

                              HHHHHHHHHHHTS-EECCEECS.......HHHHHHH..TT.EEEEEEECCCCECCEEHHHHHHHHHHHHHCC.CCEEECCCEECTT CS
            Acyl_transf_1 113 vvlrsrlmmqlagpgdmaavel......aeeeeklrcqddvvgavansprrvvisgsqealrelvervskegvgalvenvnvavhs 192
                               v +   +  +   g+  +v+       ++e+     q+ v ++v  s r   ++    al+ + +r +++g      + ++ +hs
  PHY93_06715|PHY93_06715 120 HVKFTHKIDGIDKLGGNIGVATtlarpfTQEDFDWFEQEGVDVSVLTS-RFLNVGALFSALASVRARAKERG-WRIMPILDYPAHS 203
                              ************999999998866753333333333445566665554.34444555567777777777777.4445688****** PP

                              CCCCCCCCHHHHHHHHCCCHHCHHTTBEHCCCHHH.HHHCHHHHHHHHHHHCHCCHCCHHTTS.SSECC-CCEECSS CS
            Acyl_transf_1 193 pqvdaiadalasaladiaprkpkvakisstsldes.serelsaeywvanlrspvrfaeavlsa.aetiplvfveisp 267
                              +++ +  da  ++ +++  ++pk++  s++s ++   + e++ e+ +++ r ++ f++a++ +  e +   f++i p
  PHY93_06715|PHY93_06715 204 RYIRPYVDASEKEFLEVQTMTPKIPIFSTLSCKALtLPDEIKREFLETITR-TIHFEAAITTLhKEHGVTRFINIGP 279
                              ********************************9986788888888887765.899****999989999999999977 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (305 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       563  (0.0314016); expected 358.6 (0.02)
Passed bias filter:                      502  (0.0279993); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.39
# Mc/sec: 2323.11
//
Query:       PHY93_06720|PHY93_06720  [L=210]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.7e-19   68.9   0.3    3.7e-19   68.9   0.3    1.8  2  ICMT      Isoprenylcysteine carboxyl methyltransferase (ICMT)
    4.9e-14   52.6   1.4    4.9e-14   52.6   1.4    2.1  3  PEMT      Phospholipid methyltransferase
     0.0036   16.9   3.2     0.0036   16.9   3.2    1.8  2  DUF1295   Protein of unknown function (DUF1295)
  ------ inclusion threshold ------
      0.019   14.5   0.2      0.073   12.6   0.0    1.7  2  NnrU      NnrU protein
       0.33    9.6   6.6       0.48    9.0   6.6    1.2  1  EMP70     Endomembrane protein 70
        9.9    6.4  12.7        3.8    7.7   0.1    3.1  3  DUF3792   Protein of unknown function (DUF3792)


Domain annotation for each model (and alignments):
>> ICMT  Isoprenylcysteine carboxyl methyltransferase (ICMT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.1         2   5.8e+03      56      67 ..      19      30 ..       6      41 .. 0.55
   2 !   68.9   0.3   1.2e-22   3.7e-19       3      93 ..     101     190 ..      99     191 .. 0.94

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 2
                     ICMT 56 elatllLlcnak 67
                             ++  + Ll++ k
  PHY93_06720|PHY93_06720 19 SIYNIRLLIESK 30
                             333333444333 PP

  == domain 2  score: 68.9 bits;  conditional E-value: 1.2e-22
                     ICMT   3 llvllaqalrlvvmatlGeiwttrvailpdhklvksglykylrHPnYllfvilelatllLlcnakltalvllalvalllfvRikeE 88 
                               ++l++  +r+++   lG+++t+ +++++d+ l+++g+y++lrHP+Y++  +l    ++L++  ++ a++ ++l ++ ++ Ri +E
  PHY93_06720|PHY93_06720 101 SVALFGLFFRSWAYLRLGKFFTMHLQTKDDQVLIENGPYRFLRHPSYTG-AFLTYTFIPLFLGSYRAAIISVLLLLFAFYRRIVQE 185
                              5689*********************************************.66678899**************************** PP

                     ICMT  89 ekaLa 93 
                              ek++ 
  PHY93_06720|PHY93_06720 186 EKMME 190
                              **985 PP

>> PEMT  Phospholipid methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.3       1.6   4.7e+03      63      74 ..      20      31 ..       5      46 .. 0.51
   2 ?   -1.9   0.1       1.4   4.3e+03      77      98 ..      63      84 ..      60      92 .. 0.61
   3 !   52.6   1.4   1.6e-17   4.9e-14       8     105 ..     101     196 ..      95     197 .. 0.94

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 1.6
                     PEMT 63 flGlaLitgsaa 74
                             ++ + L+ +s +
  PHY93_06720|PHY93_06720 20 IYNIRLLIESKV 31
                             333333333333 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 1.4
                     PEMT 77 llallvllvylialkfvEephl 98
                             +l +++++ +  al + E  +l
  PHY93_06720|PHY93_06720 63 VLHIIWTVYITEALALLEAFFL 84
                             5556666666666655665555 PP

  == domain 3  score: 52.6 bits;  conditional E-value: 1.6e-17
                     PEMT   8 llialglllvlssiealgefgtfygdfFlelmdklvtsGiYrylnnPeyvgstlgflGlaLitgsaaglllallvllvylialkfv 93 
                               + ++gl+++ +++ +lg+f t+  +   ++++ l+++G+Yr+l++P y+g +l++  + L+ gs+ + ++++l+ll+ +  +++ 
  PHY93_06720|PHY93_06720 101 SVALFGLFFRSWAYLRLGKFFTMHLQT--KDDQVLIENGPYRFLRHPSYTGAFLTYTFIPLFLGSYRAAIISVLLLLFAFYRRIVQ 184
                              567899*****************9998..9999***********************************************99999* PP

                     PEMT  94 EephlakiYgkr 105
                              Ee++++ + g++
  PHY93_06720|PHY93_06720 185 EEKMMESHMGEK 196
                              ******998886 PP

>> DUF1295  Protein of unknown function (DUF1295)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.3      0.25   7.5e+02      99     137 ..       8      44 ..       3      70 .. 0.68
   2 !   16.9   3.2   1.2e-06    0.0036     103     231 ..      76     200 ..      62     203 .. 0.69

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 0.25
                  DUF1295  99 ylvalpvllaaaskeeqalkaldviglalwlvgivleal 137
                              ++v++p+++ ++   +  l  +++  ++++++gi++ ++
  PHY93_06720|PHY93_06720   8 LIVCIPFVAFMSI-YNIRL-LIESKVIIIFIIGIIASYY 44 
                              6788888777664.33333.3445557788888887654 PP

  == domain 2  score: 16.9 bits;  conditional E-value: 1.2e-06
                  DUF1295 103 lpvllaaaskeeq..alkaldviglalwlvgivlealaDqQlsaf...kkdpankgkvldsGLwrysRHPNYfgealiWwglflia 183
                              l++l a   ++++  +    +++ l ++l+g+ +   a   l +f   + + +    ++++G +r+ RHP Y g +l++  + l+ 
  PHY93_06720|PHY93_06720  76 LALLEAFFLNRDRafQYDFYSIFFLSVALFGLFFRSWAYLRLGKFftmHLQTKDDQVLIENGPYRFLRHPSYTGAFLTYTFIPLFL 161
                              44444444455552345678889999****************99976544444455699****************99987777763 PP

                  DUF1295 184 lealeglealaiagpllltlllvfvsgipllEkkalkkykdkeeyreY 231
                                  +    +ai++  +l ll  f+  i   E k+++++   e+yr++
  PHY93_06720|PHY93_06720 162 G---SY--RAAIIS--VLLLLFAFYRRIVQEE-KMMESHM-GEKYRAF 200
                              3...23..368999..5566677777785555.5555553.5999986 PP

>> NnrU  NnrU protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0      0.51   1.5e+03      41      61 ..      31      50 ..      25      91 .. 0.63
   2 ?   12.6   0.0   2.4e-05     0.073      77     165 ..     103     197 ..      98     208 .. 0.80

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.51
                     NnrU 41 vsllglvlliigfgaaryevl 61
                             v ++ ++ +i  + +a+y+ +
  PHY93_06720|PHY93_06720 31 VIIIFIIGIIASYYQADYN-P 50
                             5666666677777777776.3 PP

  == domain 2  score: 12.6 bits;  conditional E-value: 2.4e-05
                     NnrU  77 mlvafillaaallpgnplsvglka.....dlaetgivritrHPmllgvaiWAlaHllanGdlasvllfgglllwalvgviaidrr. 156
                              +l+++++   a+l+  ++ +++ +      l e+g +r +rHP  +g  +  +   l  G+ ++ ++++ lll+a + +i+++++ 
  PHY93_06720|PHY93_06720 103 ALFGLFFRSWAYLRLGKFFTMHLQtkddqVLIENGPYRFLRHPSYTGAFLTYTFIPLFLGSYRAAIISVLLLLFAFYRRIVQEEKm 188
                              6777777777787777766665555655567799*************99988888999*************************992 PP

                     NnrU 157 krrrlgeew 165
                              ++ ++ge+ 
  PHY93_06720|PHY93_06720 189 MESHMGEKY 197
                              334566554 PP

>> EMP70  Endomembrane protein 70
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0   6.6   0.00016      0.48     278     394 ..       6     125 ..       2     180 .. 0.72

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.00016
                    EMP70 278 alvtlllallgflspsnrgslltvalllyvllgliaGYvsarlyktfggekwkkntlltalllpgllflvffllnlilwakessga 363
                              + +++++ ++ f+s  n   l++  +++++++g+ia+Y+ a ++   g+++   +  +  ++ ++ +   + ll+ +++ ++   +
  PHY93_06720|PHY93_06720   6 MGLIVCIPFVAFMSIYNIRLLIESKVIIIFIIGIIASYYQADYNPLKGNNSDIDKGTVLHIIWTVYITEALALLEAFFLNRDRAFQ 91 
                              455666778899******************************98888777666666666677777777788888888888888889 PP

                    EMP70 364 lpfgtlvlllllwf...lisvPlvliGsllgfkk 394
                              + f ++++l +  f   + s     +G ++ ++ 
  PHY93_06720|PHY93_06720  92 YDFYSIFFLSVALFglfFRSWAYLRLGKFFTMHL 125
                              9999988887665511144556666666666664 PP

>> DUF3792  Protein of unknown function (DUF3792)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.9   4.0     0.039   1.2e+02      63     106 ..       2      40 ..       1      45 [. 0.49
   2 ?    7.7   0.1    0.0013       3.8       5      56 ..      58     109 ..      54     113 .. 0.91
   3 ?    0.2   0.2      0.27   8.2e+02      12      24 ..     166     177 ..     150     191 .. 0.57

  Alignments for each domain:
  == domain 1  score: 2.9 bits;  conditional E-value: 0.039
                  DUF3792  63 kgllnGllvGllyflil..lllsllikksgsafslkllikllllll 106
                              k++l Gl+v++ +++++  + + lli       + k +i ++++++
  PHY93_06720|PHY93_06720   2 KKILMGLIVCIPFVAFMsiYNIRLLI-------ESKVIIIFIIGII 40 
                              56677777777777774113333333.......3344444444443 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.0013
                  DUF3792   5 vlkgllialvitlilllilalllyftslsekvlsililiililsvfigGfla 56 
                              + kg+++ +++t+ ++ +lall  f+   + ++++  + i +lsv++ G+++
  PHY93_06720|PHY93_06720  58 IDKGTVLHIIWTVYITEALALLEAFFLNRDRAFQYDFYSIFFLSVALFGLFF 109
                              6699******************9999999******************99986 PP

  == domain 3  score: 0.2 bits;  conditional E-value: 0.27
                  DUF3792  12 alvitlilllila 24 
                              a +i  +lll++a
  PHY93_06720|PHY93_06720 166 AAII-SVLLLLFA 177
                              2222.23333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (210 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       930  (0.0518713); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.42
# Mc/sec: 1497.01
//
Query:       PHY93_06725|PHY93_06725  [L=376]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      4e-14   52.7   0.0    5.8e-14   52.2   0.0    1.2  1  MR_MLE_C  Enolase C-terminal domain-like
    1.4e-06   28.5   0.0    4.1e-06   27.0   0.0    1.8  1  MR_MLE_N  Mandelate racemase / muconate lactonizing enzyme, N
  ------ inclusion threshold ------
        0.2   11.8   0.0       0.35   11.0   0.0    1.4  1  DUF1525   Protein of unknown function (DUF1525)


Domain annotation for each model (and alignments):
>> MR_MLE_C  Enolase C-terminal domain-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.2   0.0   9.6e-18   5.8e-14      11     178 ..     167     329 ..     161     372 .. 0.82

  Alignments for each domain:
  == domain 1  score: 52.2 bits;  conditional E-value: 9.6e-18
                              HHHT-SEEEEETSSSHHHHHHHHHHHHHHHHTTTSTSEEEEE-TTTSBHH.HHHHHHHHHGGGTESEEESSSSTTTHHHHHHHHHH CS
                 MR_MLE_C  11 aeqgfravKlkvggddvaedvervravreavgpgddvdlmvDanqawdla.tAirvareleeldllwlEEPvppeddleglaelra 95 
                              ++ gf+ +K+k+ g+  a+d++ ++++ +     +  +++vDan  ++++ +Ai ++  l+++ ++ +EEPv p +   +++e++ 
  PHY93_06725|PHY93_06725 167 KSLGFNDFKIKLSGE-QAKDLKTLKLISRWS---K--KVRVDANNLFTTPqEAIAYLLPLRSF-IWAVEEPVGP-HAFTDMKEIA- 243
                              5669*******8886.*********999997...4..69*******977769********888.**********.67********. PP

                              HH.SSEEEESTTSSSHHHHHHHHHHTSESEEEEBHHHHTSHHHHHHHHHHHHHTT-EEEEBS.CS.SHHHHHHHHHHHHTTTTBEE CS
                 MR_MLE_C  96 ra.sipiaagEslysradfrelleagavdivqpdvsrvgGitearkvaalaeafgvpvapHs.gs.gglglaaslhlaaaipnlli 178
                               a +i+i+++Es  ++a ++++   + + i ++ +s+ gG+ ++++++a  e+ +  ++++s ++ ++l + asl ++   +++li
  PHY93_06725|PHY93_06725 244 MAlKIKIILDESFLNIASLENIKGMHEMFIPNLRISKLGGVLRTLELVAKLEESNFHWILGShVGeMSLLTRASLLISGNCSKALI 329
                              7789*************************************************999999988323357777777755444444443 PP

>> MR_MLE_N  Mandelate racemase / muconate lactonizing enzyme, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.0   0.0   6.9e-10   4.1e-06      47     117 .]      66     137 ..       4     137 .. 0.77

  Alignments for each domain:
  == domain 1  score: 27.0 bits;  conditional E-value: 6.9e-10
                              -STTGHHHHHHHHHHHHHHHHTTS.BTTHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHTTSBHHHHTT CS
                 MR_MLE_N  47 svggraetikaelddhlapllvgk.daanisdlaqllkravlgnmsAkaaidmAlwDlkakalnlpladLlG 117
                               v+g + +++++  +++apll     +++++ l   l + +  n sA  a++mA++Dl+a+ +n+++ +LlG
  PHY93_06725|PHY93_06725  66 YVTGEDIQSAQIFIAEMAPLLEQVySLDELKRLKASLTKEIDKNPSAWCALEMAMLDLLAREKNISVEKLLG 137
                              234477777788888899988765257899999999***********************************9 PP

>> DUF1525  Protein of unknown function (DUF1525)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   5.8e-05      0.35      17      46 ..      84     113 ..      72     134 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 5.8e-05
                  DUF1525  17 algvqvielDaverleeelsaelpadpeqa 46 
                              +l +qv+ lD+ +rl+++l +e+ ++p   
  PHY93_06725|PHY93_06725  84 PLLEQVYSLDELKRLKASLTKEIDKNPSAW 113
                              4558********************999765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (376 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       430  (0.0239835); expected 358.6 (0.02)
Passed bias filter:                      373  (0.0208043); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.25s 00:00:00.77 Elapsed: 00:00:00.41
# Mc/sec: 2770.85
//
Query:       PHY93_06730|PHY93_06730  [L=823]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.8e-89  299.6   4.6    7.8e-89  298.9   4.6    1.2  1  GH3             GH3 auxin-responsive promoter
    3.3e-24   85.7  17.2    3.3e-24   85.7  17.2    2.4  3  FA_hydroxylase  Fatty acid hydroxylase superfamily
  ------ inclusion threshold ------
       0.04   13.9   1.0         14    5.8   0.0    2.8  2  DUF3741         Protein of unknown function (DUF3741)
      0.082   13.3   0.0       0.24   11.8   0.0    1.8  1  DUF3873         Domain of unknown function, B. Theta Gene des


Domain annotation for each model (and alignments):
>> GH3  GH3 auxin-responsive promoter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  298.9   4.6   1.7e-92   7.8e-89       2     519 ..     312     806 ..     311     810 .. 0.89

  Alignments for each domain:
  == domain 1  score: 298.9 bits;  conditional E-value: 1.7e-92
                              HHHHHHTHHHHHHHHHHHHHHHCTTSHHHHHC...TTHCHHHHHHHS--BEHHHHHHHHHHHHTTCC.CTSSSS-SEEEEECCEET CS
                      GH3   2 fekltknaaevqeevLkeiLkrnanteylkkfefssiksaedFkkkvPivtYedlepyieriakGeqnvLtsepiklfalsSGTts 87 
                              ++++  n+ + q+e+  +iLk+ + t ++ +++f++iks+e+Fk++vPi +Ye+ + y+e i +G++n L    +++f ++SGTt 
  PHY93_06730|PHY93_06730 312 LKEAAANPVKYQHELIFKILKQDKTTVFGVEHDFENIKSIEQFKRNVPIRDYEEHRHYVELIFSGQTNSLNTLTPHYFTKTSGTT- 396
                              678899*******************************************************************************. PP

                              TEEEEEEESHHHHHHHHHH.HHHHHHHH...HHHSTTSEEEEE------EE-TTSSEEEEHHHHHHTSCCHHHCCTBSS-HHHHT- CS
                      GH3  88 gksKliPvteeslkelallvlallaall...sryvekgkalylllakeerktkgglpvgtastsylkseafllkklytsPkevisi 170
                              g +K+iP++  ++k++ +    l+++l+   +ry+  g++ +++ +  e++  g  p+g++s   ++  ++ ++ + +  +++   
  PHY93_06730|PHY93_06730 397 GSPKYIPINLATQKSYINSQQILSHSLYmkdPRYL-DGEIFSIVGNAYEETLHGRWPCGSMSGKLYSLAHKSIRAKNIFQNDIAAL 481
                              ***************99997888888888988888.89*****************************9999999998888888888 PP

                              S-HHHHHHHHHHHHHHTCCCEEEEEEEEHHHHHHHHHHHHHHHHHHHHHHHCTS--TT---HHHHHHHHC.CHB-CHHHHHHHHHH CS
                      GH3 171 edseqslychllcgLlqreevevisavfastllralrlleenweelcedirtgtlsekitdpelrealskkllpnpeladelekec 256
                              +dse+++++ + ++L  + + ++  ++++s+ll+++++++++  el++ i++gt    i++ + ++   + ll        l ++ 
  PHY93_06730|PHY93_06730 482 NDSEKKYLYLAALAL-LSPNTTFYVSPNPSSLLKIFEVINSKRDELVKLIEEGTD--PIIKMHFKNFTHA-LL-------LLDSK- 555
                              877776655555566.6999*********************************96..3332333333333.22.......12222. PP

                              SS.TTTHHHHHSTT-SEEEEE-SGGGGGHHHHHHHHHTT.S-EEE-EEEETTEEEEEESSTTS-CCC--EEE-TTSCEEEEEESST CS
                      GH3 257 kkswkgilkrlWPnlklvscivtgsmeqyipklekyagg.lplvsegyaasEgifginleplskpeevsytllpnsayfEFipvee 341
                                  ++++ ++WP+l+++s ++ gs++  ip+++k++g  ++l + g+ +sE + ++++++++++  ++ tll+n  +fEFi+ ++
  PHY93_06730|PHY93_06730 556 ---KDLTVVDVWPDLRILSLWMEGSCSYLIPQVKKLIGPsTHLADLGFLCSEFYGTLPVDSNTNK--QVPTLLDN--FFEFIEKNA 634
                              ...2577899*************************999868888***************999998..44666666..9******99 PP

                              T.T.SSSSEECCCS-TTSEEEEEEESTTS-SSEEECEEEEEEEEETTEEEEEEEECCTEEE-SSSS-CCHHHHHHHHH.HHHHHTT CS
                      GH3 342 dee.epetvdleevevGkeYelvvTtfaGLyRYrigDvvrvtgfynkaPrleFvgRknvvlsidgeklteeelqkaveeaakeltg 426
                               e   +et++l+e++++ eY ++vTt   +yRY i+D+++vtg+y+k+P++ F+++ + + +i+gek++e++l +  e++  +  +
  PHY93_06730|PHY93_06730 635 YEAgGRETLELHELKLNAEYYIIVTTIGSFYRYFINDIIKVTGLYEKTPTIVFSQKGKGITNITGEKISEKQLVNFFEQKNHQ--N 718
                              98866*************************************************************************66666..5 PP

                              -EEEEEEEEE.ESS.SSSEEEEEEEEECS.....SHHHHHHHHHCS.-SHH.HHHHHCCTSCEEEEEEEE-TTHHHHHHHHHHCTT CS
                      GH3 427 lelvdftsfapdtsesepghyvlflElkkkeepeeeecckeldesL.ednveYeakrkdgslgplevrvvkkgtFeklmeeavskg 511
                               e++ f + a     + +  y+l+lE ++k   e e++ +el+++L + n+eY++k  d++l+p+++  +++gt e +++++++kg
  PHY93_06730|PHY93_06730 719 KEIKFFICLAD----QVNQSYKLYLESNDK--LELEDLKEELHQHLkQVNIEYASKVFDNRLKPINILRLENGTSEHYRNHCLKKG 798
                              78999999884....678********9854..3359************************************************** PP

                              SSSSC--- CS
                      GH3 512 asagQyKv 519
                              +s +Q+K+
  PHY93_06730|PHY93_06730 799 QSESQFKF 806
                              *******7 PP

>> FA_hydroxylase  Fatty acid hydroxylase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.2       0.9     4e+03      66     111 ..      15      56 ..       3      74 .. 0.43
   2 ?   -1.7   0.4      0.79   3.5e+03      50      84 ..      63      98 ..      48     114 .. 0.47
   3 !   85.7  17.2   7.3e-28   3.3e-24       2     133 .]     118     251 ..     117     251 .. 0.95

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 0.9
           FA_hydroxylase  66 lgplsalllvlvlaallelliHsglhvslgwllerllatpraHrlH 111
                              +    a+ll   l++++ l  ++g  vs++ +   +++  +   lH
  PHY93_06730|PHY93_06730  15 IAAGLAYLLAYQLTHIYLLGAYAG--VSISAI--IIFTAEKITPLH 56 
                              222222222222222222222222..222222..223333333333 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 0.79
           FA_hydroxylase 50 lealllalllllll.lllgplsalllvlvlaallel 84
                              + ll+++++++ +  ++ p+ +++l++++ +++ +
  PHY93_06730|PHY93_06730 63 RDDLLIDVFFYASVvQVIFPIILYFLGISFLKMVGF 98
                             444555533333220233344444444444444333 PP

  == domain 3  score: 85.7 bits;  conditional E-value: 7.3e-28
           FA_hydroxylase   2 llallledfveYwvHrllHrvkllwrrlHkvHHsseaptalaalrahplealllallllllllllg.plsalllvlvlaallelli 86 
                              ++++++ +f++Yw+Hr+ H+ ++lw  +H++HH+ +++  + ++r+h+l+ ++  ++++++++++g +l+++ ++ v+ a++ +++
  PHY93_06730|PHY93_06730 118 FALAIMGEFFQYWWHRFCHTYRFLWP-IHAIHHRPQKLYSWNTSRFHFLDKFVEFFFTIFIFMAFGlSLEVFSYYYVFYAITGYIQ 202
                              6788999*************99****.****************************999999999999******************* PP

           FA_hydroxylase  87 HsglhvslgwllerllatpraHrlHHskneeg...nfgvllslwDrlfgT 133
                              Hs+l+v+lgw+ ++++a+ ++Hr+HH ++ ++   n+++ + l+D lf+T
  PHY93_06730|PHY93_06730 203 HSNLDVKLGWF-DYFIASGETHRFHHDSDLNKskcNYANNFVLFDLLFNT 251
                              ***********.8**************88744466*************99 PP

>> DUF3741  Protein of unknown function (DUF3741)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   0.0     0.003        14      26      42 ..     516     532 ..     507     533 .. 0.89
   2 ?    5.7   0.2    0.0031        14      18      35 ..     541     558 ..     539     560 .. 0.93

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.003
                  DUF3741  26 LevlssNkdLFlklLqd 42 
                              +ev++s++d ++kl+++
  PHY93_06730|PHY93_06730 516 FEVINSKRDELVKLIEE 532
                              8*************986 PP

  == domain 2  score: 5.7 bits;  conditional E-value: 0.0031
                  DUF3741  18 qSKeflDALevlssNkdL 35 
                              ++K f+ AL +l+s+kdL
  PHY93_06730|PHY93_06730 541 HFKNFTHALLLLDSKKDL 558
                              89***************9 PP

>> DUF3873  Domain of unknown function, B. Theta Gene description (DUF3873)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   5.4e-05      0.24      31      56 ..     421     446 ..     392     451 .. 0.80

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 5.4e-05
                  DUF3873  31 ikyyqYDYrhtdgeLFSvvaktleEC 56 
                               ++y+ D r  dge+FS+v++ +eE 
  PHY93_06730|PHY93_06730 421 HSLYMKDPRYLDGEIFSIVGNAYEET 446
                              368999******************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (823 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1065  (0.059401); expected 358.6 (0.02)
Passed bias filter:                      494  (0.0275531); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.75u 0.27s 00:00:01.02 Elapsed: 00:00:00.44
# Mc/sec: 5567.27
//
Query:       PHY93_06735|PHY93_06735  [L=254]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0062   16.1   0.0     0.0083   15.7   0.0    1.2  1  Spo0M     SpoOM protein


Domain annotation for each model (and alignments):
>> Spo0M  SpoOM protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   4.6e-07    0.0083      23     163 ..      20     161 ..      14     191 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 4.6e-07
                              EE-TT-EEEEEEEEE-.-SS-EEEEEEEEEEEEEEEEEETTEEEEEEEEEEEEEEE--EEE-TT-EEEEEEEEE--TT-----TT- CS
                    Spo0M  23 evrpGetlegevevkG.GsveqeieeieleLvtrvekeeddkeveetvelarvrvaeaftiepgeereipfelelpletPitlgga 107
                              +   G++++g  +++  G+ + ++  ++++L+    k+ + k++++   la++++ e+f+i   ee+e+  ++ lp ++ it ++ 
  PHY93_06735|PHY93_06735  20 KWHQGDKIKGCLKIRNhGAEKIDLPFLKISLAVGHFKKIKSKDKKAWEFLAETTLGEQFSIGVSEEKEFFWDFGLPEDCQITDKDR 105
                              66789999999999754888899999999999999999999998999999*********************************999 PP

                              -EEEEEEEEESSS--EEEEEEEEE---HHHHHHHHHHHH.TTEEEEEEEEEE-G.GG CS
                    Spo0M 108 kvwleTeldiagavDpgDkDplevePlplqeavlealee.lGfrlrsadleegklrg 163
                              +v+l T  d ++ + p+ + +l + P+ +++++le +e+ l f++ +++  +g ++ 
  PHY93_06735|PHY93_06735 106 SVYL-TFSDHDDDIWPTGQLELVIGPKLVIQQFLEIFENfLRFKVVQTKFSKGMVEI 161
                              9998.667999999999999***************9999667777777777766554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (254 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       682  (0.0380389); expected 358.6 (0.02)
Passed bias filter:                      431  (0.0240393); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 1837.83
//
Query:       PHY93_06740|PHY93_06740  [L=424]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.3e-19   70.7   0.0    4.8e-19   68.9   0.0    1.8  1  NMT1_3     NMT1-like family
    1.7e-06   28.1   0.0    2.5e-06   27.6   0.0    1.2  1  NMT1       NMT1/THI5 like
  ------ inclusion threshold ------
      0.011   15.2   0.0      0.017   14.5   0.0    1.3  1  SBP_bac_3  Bacterial extracellular solute-binding proteins, f
      0.026   15.0   1.7      0.065   13.8   1.7    1.6  1  SF3A3      Pre-mRNA-splicing factor SF3A3, of SF3a complex, P


Domain annotation for each model (and alignments):
>> NMT1_3  NMT1-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.9   0.0   1.1e-22   4.8e-19      25     286 ..      53     303 ..      44     304 .. 0.84

  Alignments for each domain:
  == domain 1  score: 68.9 bits;  conditional E-value: 1.1e-22
                   NMT1_3  25 lakdqkvkasaqssaGsveNiqllkkge..adlailqsdvayeAyeGegefegkkplknlraitmlyaevfqlvvskdsgigsiad 108
                              + k+++v+ +  ++ G+ eN++ll++ +  + ++++q + +      +++ e      ++ ++++ly e++ + ++++   + +++
  PHY93_06740|PHY93_06740  53 ILKENGVTLNIRTTSGPLENLRLLDDDDsgVSAGLVQDGLG------SEVKE-----PDVVSLGSLYYEPIWIFYRSKYVYTHFSQ 127
                              347899******************97651134444444443......33333.....4899************************* PP

                   NMT1_3 109 lkgkrvsvGpegsGtegsarailealglsekdlklleelgygesadalkdgqldgaalvaGvPvsavtqlaasedikliplddeql 194
                              l g +++vG+ g G+++ a+++l   g++ +d +l  ++  +esa+alk+g +d+a ++  + +  + +la ++d+kl++l  eq+
  PHY93_06740|PHY93_06740 128 LIGDKIAVGRVGHGAQVFAERLLLMSGVDPEDATL-LNMTSAESAQALKNGSIDAAIFMLPPENKIIHDLALRKDLKLMSL--EQA 210
                              ********************************997.6789********************999***************988..678 PP

                   NMT1_3 195 dkllkeypvftkyvipagtyp..qd...edikTiavpnflvvradldeelvYeitkaifenldelnsihkaakeislekalaglpv 275
                              +++ ++   f   v p g+ +   d   edi+ ++ ++ l+ r+d+ + l+Y++ ka     +e++ + + +++     + +g   
  PHY93_06740|PHY93_06740 211 EAISRKDAAFHHLVLPRGAIDleSDipgEDIDLVSSTATLLIRDDMHPALAYLLLKAA----SEVHGLPGIFEKRGEFPTNQGDTF 292
                              889999999********9986422344479**************************96....557777777777777777778888 PP

                   NMT1_3 276 plHpGAerYYk 286
                              pl + A+++Yk
  PHY93_06740|PHY93_06740 293 PLSKDAAQFYK 303
                              88888888886 PP

>> NMT1  NMT1/THI5 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.6   0.0   5.5e-10   2.5e-06      16     146 ..      54     184 ..      43     213 .. 0.85

  Alignments for each domain:
  == domain 1  score: 27.6 bits;  conditional E-value: 5.5e-10
                              HHHTTEEEEEE--SSTTHHHHHHHCTS-SEEEE-HHHHHHHHHTT--EEEEEEEE-S--EEEEEECCC--SSGGGGTTSEEEE-S. CS
                     NMT1  16 FkeeGldVeivepadpsdatelvasgkadfgvsyqesllaarakglpvvsvaallqeplsglivlkdsgikspkDLkGkrigyvg. 100
                               ke+G+ ++i   ++p + ++l+  ++  +     ++ l  + k  +vvs+++l+  ++  ++++ +   + ++ L G +i++   
  PHY93_06740|PHY93_06740  54 LKENGVTLNIRTTSGPLENLRLLDDDDSGVSAGLVQDGLGSEVKEPDVVSLGSLY-YEPIWIFYRSKYVYTHFSQLIGDKIAVGRv 138
                              6899********9999999999988888887777788888999************.5667889999999*************8773 PP

                              -TTHHHHHHHHHHHTT--GGG-EEEE-.TT-HHHHHHCTSSSEEEC CS
                     NMT1 101 spfekallkallakdggdpsdvtlvnvggtslakalltgkvDaaig 146
                              +  ++ + ++ll   g+dp+d tl+n++  + a+al +g++Daai 
  PHY93_06740|PHY93_06740 139 GHGAQVFAERLLLMSGVDPEDATLLNMTSAESAQALKNGSIDAAIF 184
                              5567777889**********************************94 PP

>> SBP_bac_3  Bacterial extracellular solute-binding proteins, family 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0   3.9e-06     0.017      83     172 ..     108     198 ..     101     221 .. 0.72

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 3.9e-06
                              EEEEEEEEEEETTSHGTCCHSSCGCGTTSEEEEETTSHHHHH.HHHHHHC......TSEEEEESSHHHHHHHHHTTSSSEEEEEHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                SBP_bac_3  83 fsagqvllvrkkdaskissiksladLkgkkvgvqagstaeel.lkeelkk......gaeivefdtleealqaLkngrvdavvadsp 161
                              ++ ++ +++r+k       ++ +++L g k++v +    ++  +++ l +      +a++ +  t +e  qaLkng++da+++  p
  PHY93_06740|PHY93_06740 108 YYEPIWIFYRSK-----YVYTHFSQLIGDKIAVGRVGHGAQVfAERLLLMsgvdpeDATLLN-MTSAESAQALKNGSIDAAIFMLP 187
                              677888888854.....3566677****99***99977666615554444778776666655.577777899**********9988 PP

                              HHHHHHHHCCG CS
                              xxxxxxxxxxx RF
                SBP_bac_3 162 vlaylvkknpd 172
                                + ++++ + 
  PHY93_06740|PHY93_06740 188 PENKIIHDLAL 198
                              77777766555 PP

>> SF3A3  Pre-mRNA-splicing factor SF3A3, of SF3a complex, Prp9
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   1.7   1.4e-05     0.065      16      65 ..     353     411 ..     352     420 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 1.4e-05
                    SF3A3  16 elyeeylnlk.....eik.....ldYlqYLesfdkfseipkkqkkskeYkeYlkeLleYL 65 
                              ++y++y +lk       k     ++Y +YL++++ ++e  +k k+ ++++eY+ +L+  +
  PHY93_06740|PHY93_06740 353 KIYQRYGELKfletqI-KaivtkIEYENYLQQLNLIEERVNKMKMPQNFSEYIYSLKGHI 411
                              6899999999666540.2555669************999999999********9998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (424 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       774  (0.0431703); expected 358.6 (0.02)
Passed bias filter:                      592  (0.0330191); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.60u 0.25s 00:00:00.85 Elapsed: 00:00:00.41
# Mc/sec: 3086.69
//
Query:       PHY93_06745|PHY93_06745  [L=240]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        0.1   12.5   0.0       0.19   11.7   0.0    1.4  1  RST       RCD1-SRO-TAF4 (RST) plant domain
       0.14   12.2   0.1       0.25   11.4   0.1    1.4  1  Rab_bind  Rab binding domain


Domain annotation for each model (and alignments):
>> RST  RCD1-SRO-TAF4 (RST) plant domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   2.1e-05      0.19      39      61 ..     108     131 ..     106     136 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 2.1e-05
                      RST  39 kIsreefvrklRsivGDk.lLksv 61 
                              +I+++e+++kl s+vG+   Lk++
  PHY93_06745|PHY93_06745 108 EITKDELIQKLTSVVGESyKLKKI 131
                              7***************98667766 PP

>> Rab_bind  Rab binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1   2.8e-05      0.25       3      22 ..     102     121 ..     100     129 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 2.8e-05
                 Rab_bind   3 PslWhvelskeeLiqkLstt 22 
                               +++h e++k+eLiqkL + 
  PHY93_06745|PHY93_06745 102 KTIFHWEITKDELIQKLTSV 121
                              567899***********875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (240 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       463  (0.0258241); expected 358.6 (0.02)
Passed bias filter:                      399  (0.0222544); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.20s 00:00:00.67 Elapsed: 00:00:00.38
# Mc/sec: 1898.69
//
Query:       PHY93_06750|PHY93_06750  [L=235]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    4.1e-30  105.1   0.1      7e-30  104.3   0.0    1.4  2  ABC_tran     ABC transporter
    4.4e-08   33.3   2.4    0.00017   21.5   0.1    2.1  2  AAA_21       AAA domain, putative AbiEii toxin, Type IV TA sy
  ------ inclusion threshold ------
      0.043   12.5   0.1       0.16   10.6   0.0    1.7  2  AAA_13       AAA domain
      0.048   13.4   0.2      0.088   12.6   0.2    1.4  1  AAA_29       P-loop containing region of AAA domain
      0.061   13.7   0.0      0.088   13.2   0.0    1.2  1  AAA_16       AAA ATPase domain
      0.063   12.7   0.9        2.4    7.6   0.9    2.2  1  SMC_N        RecF/RecN/SMC N terminal domain
      0.063   13.0   0.4       0.13   12.0   0.4    1.7  1  AAA_30       AAA domain
       0.12   12.3   0.1       0.23   11.4   0.1    1.4  1  RsgA_GTPase  RsgA GTPase
       0.19   12.2   1.7       0.24   11.9   0.8    1.6  2  AAA_23       AAA domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  104.3   0.0   3.5e-33     7e-30       1     136 [.      20     165 ..      20     166 .. 0.89
   2 ?   -3.5   0.0         7   1.4e+04      34      47 ..     207     220 ..     199     230 .. 0.63

  Alignments for each domain:
  == domain 1  score: 104.3 bits;  conditional E-value: 3.5e-33
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG.B-HHHCCHCEEEE-SS--S-TTSBHHHH.....H CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxx.....x RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke.qeleslrkeigvlpqepqlfpeltvren.....e 80 
                              +kn++l+++ ge+v ++G+nGaGK+t l +++gl+   +Geil++  ++++   ++++   i+  p+  q+f +l+++en     +
  PHY93_06750|PHY93_06750  20 VKNINLHINTGEIVTLLGSNGAGKTTTLHTISGLEAASSGEILFKRSPIQRlPAHKITAMGIAQSPEGRQVFANLSIKENlemgaY 105
                              58*************************************************8889999999**********************997 PP

                              HHTCHHHHHHHSTTGG....TTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              xxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  81 sdeeiekalsklglke....lkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                               +++i+ +++ ++ ++    + +++ ++ +++LSgG++q++a+ara+++kp+llllDEp+
  PHY93_06750|PHY93_06750 106 LRRDIAGIAEDFKYVYslfpKLKDRENQLAQTLSGGEQQMLAIARAFMSKPQLLLLDEPS 165
                              777777777777777766553333334556*****************************5 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 7
                              SS--SEEEEEETTC CS
                              xxxxxxxxxxxxxx RF
                 ABC_tran  34 llkpteGeilldgk 47 
                               +  t+Gei l+g+
  PHY93_06750|PHY93_06750 207 AYVLTNGEISLQGN 220
                              44557777777654 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.0   0.3   6.9e-05      0.14       2      23 ..      33      54 ..      32      77 .. 0.78
   2 !   21.5   0.1   8.5e-08   0.00017     225     287 ..     126     185 ..      69     200 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 6.9e-05
                   AAA_21  2 nvliGpNgsGKSnLLdaldlla 23
                               l G Ng+GK++ L ++++l 
  PHY93_06750|PHY93_06750 33 VTLLGSNGAGKTTTLHTISGLE 54
                             5799**************9993 PP

  == domain 2  score: 21.5 bits;  conditional E-value: 8.5e-08
                   AAA_21 225 engdgqelparelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsr 287
                              + +d+ +  a  lS G +++la++ a+ + +    lll+DEp +g+ P l++++++ +ke ++
  PHY93_06750|PHY93_06750 126 KLKDRENQLAQTLSGGEQQMLAIARAFMSKP---QLLLLDEPSLGIAPILVSSIFRAIKEINK 185
                              4456666677788*******88888888877...9***********************88655 PP

>> AAA_13  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   7.8e-05      0.16      21      76 ..      35     101 ..      17     138 .. 0.66
   2 ?   -0.0   0.0      0.13   2.6e+02     491     510 ..     129     148 ..     102     150 .. 0.84

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 7.8e-05
                   AAA_13  21 iYGwNGaGKTtLSrllrslelgetepkfangsi................eitng...eeldirVfNrdFveenls 76 
                              + G+NGaGKTt    ++ le  +      +g+i                ++  g   +++   Vf +  ++enl+
  PHY93_06750|PHY93_06750  35 LLGSNGAGKTTTLHTISGLEAAS------SGEIlfkrspiqrlpahkitAM--GiaqSPEGRQVFANLSIKENLE 101
                              56****************97644......4444223333355555543322..1222356677777777777777 PP

  == domain 2  score: -0.0 bits;  conditional E-value: 0.13
                   AAA_13 491 kggsqaaetLSeGEktaIaf 510
                               +++q a+tLS GE+ + a+
  PHY93_06750|PHY93_06750 129 DRENQLAQTLSGGEQQMLAI 148
                              4688999********99886 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.2   4.4e-05     0.088      16      41 ..      24      49 ..       5      59 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 4.4e-05
                   AAA_29 16 tieidlkgatlltGpsGsGKSTllDA 41
                              ++i++ +++ l G +G+GK+T l  
  PHY93_06750|PHY93_06750 24 NLHINTGEIVTLLGSNGAGKTTTLHT 49
                             455665559999**********8855 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   4.4e-05     0.088      22     107 ..      28     130 ..      16     164 .. 0.62

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 4.4e-05
                   AAA_16  22 grpelvllsGesGvGKsslvrellralekd...ggiflrgkcdqlesaipysa.laqalareellrqlldeaesaeleawreklee 103
                              +++e+v l G  G GK++ + ++   le++   +++f r   ++l++    ++ +aq  + +++++ l  +++    ++ r+ + +
  PHY93_06750|PHY93_06750  28 NTGEIVTLLGSNGAGKTTTLHTISG-LEAAssgEILFKRSPIQRLPAHKITAMgIAQSPEGRQVFANLSIKENLEMGAYLRRDIAG 112
                              5569****************99994.444433247776666666644433355599999999999888888777777777777777 PP

                   AAA_16 104 ala..............a 107
                               ++               
  PHY93_06750|PHY93_06750 113 IAEdfkyvyslfpklkdR 130
                              777777777766644332 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.6   0.9    0.0012       2.4      26     148 ..      32     149 ..      16     184 .. 0.51

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.0012
                              EEEEEESTTSSHHHHHHHHHHHCTT.TTTTTTCHCCCCCC--BTTCSSTTEEEEEEEEEETTEESSSSSSCEEEEEEEETTSEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N  26 ftaivGpNGSGKsnlldAilFvLGersakklrseklsdlihkskekasvkkaeveitfdnedkklkiekeevsisrrvkrkgesey 111
                              +  ++G+NG+GK+  l  i+          l +++  ++++k++  +++   +++ +   ++ + ++   ++si+ +++ +   + 
  PHY93_06750|PHY93_06750  32 IVTLLGSNGAGKTTTLHTIS---------GLEAASSGEILFKRSPIQRLPAHKITAMGIAQSPEGRQVFANLSIKENLEMGAYLRR 108
                              55667777777777777662.........233333333333322222222222222221111111223333333333333333333 PP

                              EETTEEE-HHHHHHHHHCTT-STT....CS-HHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxx RF
                    SMC_N 112 kingkevtkkevsellesagiske....lLSgGektLvala 148
                               i g    +k v +l+++ +  ++    +LSgGe++++a+a
  PHY93_06750|PHY93_06750 109 DIAGIAEDFKYVYSLFPKLKDRENqlaqTLSGGEQQMLAIA 149
                              34444444444444443332222233336677777777766 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.4   6.4e-05      0.13      16      46 ..      29      59 ..      20     194 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 6.4e-05
                   AAA_30 16 sgdrvavltGpAGtGKttalkalreaweaa.g 46
                             +g  +++l G  G+GKtt+l ++  + +a+ g
  PHY93_06750|PHY93_06750 29 TG-EIVTLLGSNGAGKTTTLHTISGLEAASsG 59
                             33.48999**************9988887734 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1   0.00012      0.23      89     130 ..      19      61 ..       3      66 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00012
                              THHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT-----S-- CS
              RsgA_GTPase  89 gleelkellkd.ktsvlvGqSGvGKStLinallpelelktgev 130
                              ++++++ +++  ++++l+G+ G+GK+t + ++ + + ++ ge+
  PHY93_06750|PHY93_06750  19 AVKNINLHINTgEIVTLLGSNGAGKTTTLHTISGLEAASSGEI 61 
                              5666777777669*****************9999777777766 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.8   0.00012      0.24      14      39 ..      22      50 ..       5      62 .. 0.72
   2 ?   -1.5   0.0       1.5   3.1e+03     137     137 ..     137     137 ..      80     206 .. 0.61

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00012
                   AAA_23 14 eidF...skgltlItGpNGaGKTTildAi 39
                             +i++      ++ + G NGaGKTT l  i
  PHY93_06750|PHY93_06750 22 NINLhinTGEIVTLLGSNGAGKTTTLHTI 50
                             456655555789999*********98665 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 1.5
                   AAA_23 137 f 137
                               
  PHY93_06750|PHY93_06750 137 T 137
                              1 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (235 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       438  (0.0244297); expected 358.6 (0.02)
Passed bias filter:                      399  (0.0222544); expected 358.6 (0.02)
Passed Vit filter:                        73  (0.00407162); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.40
# Mc/sec: 1755.87
//
Query:       PHY93_06755|PHY93_06755  [L=263]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.4e-30  105.9   0.0    3.1e-30  105.5   0.0    1.1  1  ABC_tran      ABC transporter
    2.1e-09   37.1   0.1    3.9e-09   36.2   0.1    1.5  1  BCA_ABC_TP_C  Branched-chain amino acid ATP-binding cassette 
    2.7e-09   37.3   4.5    2.4e-05   24.3   1.0    2.1  2  AAA_21        AAA domain, putative AbiEii toxin, Type IV TA s
    1.9e-07   31.8   2.2    2.8e-07   31.2   2.2    1.4  1  AAA_23        AAA domain
    0.00012   21.7   0.1    0.00023   20.9   0.1    1.3  1  AAA_29        P-loop containing region of AAA domain
    0.00016   21.9   1.9       0.28   11.4   0.1    2.3  2  AAA_22        AAA domain
    0.00038   20.3   5.7    0.00042   20.1   4.0    1.7  2  AAA_15        AAA ATPase domain
    0.00039   19.9   0.8     0.0033   16.9   0.8    2.0  1  SMC_N         RecF/RecN/SMC N terminal domain
    0.00093   19.0   0.1       0.76    9.5   0.0    2.2  2  IstB_IS21     IstB-like ATP binding protein
     0.0014   18.7   0.6     0.0022   18.1   0.6    1.7  1  MMR_HSR1      50S ribosome-binding GTPase
     0.0024   17.5   0.0     0.0046   16.6   0.0    1.4  1  AAA_27        AAA domain
     0.0026   17.7   0.0     0.0045   16.9   0.0    1.4  1  RsgA_GTPase   RsgA GTPase
     0.0031   17.5   0.9      0.025   14.6   0.0    2.1  2  AAA_14        AAA domain
     0.0033   17.2   0.0      0.063   13.0   0.0    2.1  2  AAA_30        AAA domain
  ------ inclusion threshold ------
      0.021   14.3   0.1      0.045   13.3   0.1    1.5  1  FeoB_N        Ferrous iron transport protein B
      0.037   14.4   0.3        0.2   12.1   0.0    2.0  2  AAA           ATPase family associated with various cellular 
       0.11   12.2   0.1       0.18   11.5   0.1    1.3  1  AAA_24        AAA domain
       0.15   12.0   0.1       0.39   10.6   0.0    1.7  2  NACHT         NACHT domain
       0.17   12.2   0.0       0.32   11.4   0.0    1.4  1  AAA_16        AAA ATPase domain
       0.47   10.7   1.8       0.63   10.3   0.8    1.7  2  AAA_28        AAA domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  105.5   0.0   3.4e-33   3.1e-30       2     136 ..      27     186 ..      26     187 .. 0.89

  Alignments for each domain:
  == domain 1  score: 105.5 bits;  conditional E-value: 3.4e-33
                              EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG.B-HHHCCHCEEEE-SS--S-TTSBHHHH....... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxx....... RF
                 ABC_tran   2 knvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke.qeleslrkeigvlpqepqlfpeltvren....... 79 
                              ++vs+k+ +  +vai+G+nGaGK+tL+++++g ++p  G++ + +kdlk+ ++  +++  i+  +q+ +lf++l+v +n       
  PHY93_06755|PHY93_06755  27 NDVSFKVFPHDLVAIIGPNGAGKTTLFNTITGIYTPSTGSVSFCQKDLKNiKSSDITELGIARTFQNIRLFKNLSVIDNiklakht 112
                              89************************************************88899999**************************** PP

                              .....................HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              .....................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 .....................esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                                                   + +ee+ ++l+ ++l+++k    ++ +++L +Gq++++++aral+++pkllllDEp 
  PHY93_06755|PHY93_06755 113 rikygfwagifrnkhflleekKIEEECLNLLKLFKLDDKK----DYLAKNLAYGQQRKLEMARALATEPKLLLLDEPA 186
                              ****************995444444455555555555544....4556*****************************7 PP

>> BCA_ABC_TP_C  Branched-chain amino acid ATP-binding cassette transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.2   0.1   4.3e-12   3.9e-09       2      23 .]     237     258 ..     236     258 .. 0.97

  Alignments for each domain:
  == domain 1  score: 36.2 bits;  conditional E-value: 4.3e-12
             BCA_ABC_TP_C   2 vIAeGtPaEvrndPrVieAYLG 23 
                              +IAeG P E++n+ rV+eAYLG
  PHY93_06755|PHY93_06755 237 LIAEGGPKEIQNNKRVVEAYLG 258
                              6********************9 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.3   1.0   2.7e-08   2.4e-05       2      84 ..      39     130 ..      38     165 .. 0.71
   2 !   15.7   0.2   1.1e-05      0.01     223     282 ..     145     201 ..     119     222 .. 0.76

  Alignments for each domain:
  == domain 1  score: 24.3 bits;  conditional E-value: 2.7e-08
                   AAA_21   2 nvliGpNgsGKSnLLdaldllarl.....drdvegltdelsggggirkipslldlydpeipfefeieeflsqgvryryglrlersq 82 
                               ++iGpNg+GK++L+ ++ ++           +++l++++s+  ++ +i++ + ++   +     ++ +l +++r++yg+  + ++
  PHY93_06755|PHY93_06755  39 VAIIGPNGAGKTTLFNTITGIYTPstgsvSFCQKDLKNIKSSDITELGIARTFQNIRLFKNLSVIDNIKLAKHTRIKYGFWAGIFR 124
                              68****************99977799*99666666666666666666666666666666666666666999999999999777777 PP

                   AAA_21  83 v....e 84 
                                    
  PHY93_06755|PHY93_06755 125 NkhflL 130
                              653332 PP

  == domain 2  score: 15.7 bits;  conditional E-value: 1.1e-05
                   AAA_21 223 flengdgqelparelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllell 282
                              +++ +d ++  a +l  G++r l ++ al+  +   +lll+DEp +g++P  +r+l el+
  PHY93_06755|PHY93_06755 145 LFKLDDKKDYLAKNLAYGQQRKLEMARALATEP---KLLLLDEPAAGMNPTETRELTELI 201
                              555556666666678899999999999999988...9*************9999999988 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.2   2.2   3.2e-10   2.8e-07      17     147 ..      34     155 ..      17     251 .. 0.50

  Alignments for each domain:
  == domain 1  score: 31.2 bits;  conditional E-value: 3.2e-10
                   AAA_23  17 FskgltlItGpNGaGKTTildAiklaLygetprlsrks...grgfeksdveiesegkvkay..velt..fenkdgrytrsierere 95 
                              F + l++I+GpNGaGKTT+++ i+ + +  t+   +      +++++sd++    +  +++  ++l   +             +  
  PHY93_06755|PHY93_06755  34 FPHDLVAIIGPNGAGKTTLFNTITGIYTPSTGSV-SFCqkdLKNIKSSDITELGIA--RTFqnIRLFknL-------------SVI 103
                              4789********************9988755322.222222345666666532222..222224443222.............223 PP

                   AAA_23  96 lskkkgkttkkaklelleideleqfisellgskkiilnlilflgqerfeefe 147
                               + k +k t+ + +++ +i  ++ f+ e+ +++++ lnl+ +++ ++++  +
  PHY93_06755|PHY93_06755 104 DNIKLAKHTRIKYGFWAGIFRNKHFLLEEKKIEEECLNLLKLFKLDDKKDYL 155
                              3333333333333334444333333333333333333333333333321111 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.9   0.1   2.5e-07   0.00023      15      54 ..      29      69 ..      24      71 .. 0.84

  Alignments for each domain:
  == domain 1  score: 20.9 bits;  conditional E-value: 2.5e-07
                   AAA_29 15 htieidlkgatlltGpsGsGKSTllDAiqalLvpak.kvrf 54
                              ++++ +++ + ++Gp+G+GK+Tl+  i+ + +p++ +v+f
  PHY93_06755|PHY93_06755 29 VSFKVFPHDLVAIIGPNGAGKTTLFNTITGIYTPSTgSVSF 69
                             566677788999**********************9966665 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.4   0.1   0.00032      0.28       7      26 ..      38      57 ..      34      67 .. 0.87
   2 !    9.7   0.2    0.0011      0.99      60     128 ..     142     215 ..     119     221 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00032
                   AAA_22  7 ilvvtGesGtGKTtllrrll 26
                             +++++G+ G+GKTtl ++++
  PHY93_06755|PHY93_06755 38 LVAIIGPNGAGKTTLFNTIT 57
                             689************98875 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 0.0011
                   AAA_22  60 llralglelka.erlsseell.ealeqalrarav.ielliiDEaqh.lr..s.eealeeLrsllnlsrkgvqliLv 128
                              ll+ ++l+ k+ + +++ ++  ++  + +ra a+ ++ll++DE    ++  +  e+ e ++ + +  ++++++iL+
  PHY93_06755|PHY93_06755 142 LLKLFKLDDKKdYLAKNLAYGqQRKLEMARALATePKLLLLDEPAAgMNptEtRELTELIHLIRD--QFDIAIILI 215
                              4555555555553444444444667777777777999******9998988633555555577788..*******98 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.1   4.0   4.7e-07   0.00042      24     125 ..      37     160 ..      26     177 .. 0.68
   2 ?   -1.1   0.0       1.3   1.2e+03     322     350 ..     175     203 ..     163     215 .. 0.82

  Alignments for each domain:
  == domain 1  score: 20.1 bits;  conditional E-value: 4.7e-07
                   AAA_15  24 eltvliGkNnsGKSsilealdlFlnnkekkn.......kkvikiekedleifeniseskdikIdvef................... 83 
                              +l  +iG+N++GK+++ + +  + + +           k+ ++i+++d+ +     ++++i++ ++                    
  PHY93_06755|PHY93_06755  37 DLVAIIGPNGAGKTTLFNTITGIYTPS---TgsvsfcqKDLKNIKSSDITELGIARTFQNIRLFKNLsvidniklakhtrikygfw 119
                              3899****************9999988...23356788889999999999999999999999999997777777766666544433 PP

                   AAA_15  84 .aekekakeyektlkskekkkadlllkkkesdlkktikdkklk 125
                                   ++++ + ++++k ++++ +llk ++ d kk +  k+l+
  PHY93_06755|PHY93_06755 120 aG--IFRNKHFLLEEKKIEEECLNLLKLFKLDDKKDYLAKNLA 160
                              30..444555555555555555555555444444444444444 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 1.3
                   AAA_15 322 eknvilliEEPEahLHpqaqkvlikllke 350
                              +++++ll++EP a   p   ++l +l+  
  PHY93_06755|PHY93_06755 175 TEPKLLLLDEPAAGMNPTETRELTELIHL 203
                              57899**********99999999888755 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.8   3.7e-06    0.0033      22     201 ..      34     219 ..      26     234 .. 0.54

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 3.7e-06
                              TTSSEEEEEESTTSSHHHHHHHHHHHCTT..TTTTTTCHCCCCCC--..BTTCSSTTEEEEEEEEEETTEE...SSSSSSCEEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxx RF
                    SMC_N  22 fsksftaivGpNGSGKsnlldAilFvLGer.sakklrseklsdlihk..skekasvkkaeveitfdnedkk...lkiekeevsisr 101
                              f + + ai+GpNG+GK+ l++ i  +   +  + ++ +++l+++ ++  ++ + + ++ ++ + f+n +        ++++++   
  PHY93_06755|PHY93_06755  34 FPHDLVAIIGPNGAGKTTLFNTITGIYTPStGSVSFCQKDLKNIKSSdiTELGIARTFQNIRL-FKNLSVIdniKLAKHTRIKYGF 118
                              667889***************996433322122244444444443332222222222222222.2222221111222222233322 PP

                              EEETTSEEEEEETTEEE-HHHHHHHHHCTT-STT......CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 102 rvkrkgeseykingkevtkkevsellesagiske......lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvae 181
                               +    + ++ +++k+++ +e  +ll+  +++ +      +L  G++  + +a  +A++      l llDe +a +  ++++++ e
  PHY93_06755|PHY93_06755 119 WAGIFRNKHFLLEEKKIE-EECLNLLKLFKLDDKkdylakNLAYGQQRKLEMARALATEP----KLLLLDEPAAGMNPTETRELTE 199
                              222222333444444443.34444454444444445555588888887777776666543....4778888888888888888888 PP

                              HHHHHCTTSEEEEE-SSHHH CS
                              xxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 182 llkeksknaQfivislreem 201
                              l++  ++++ + +i ++++m
  PHY93_06755|PHY93_06755 200 LIHLIRDQFDIAIILIEHDM 219
                              88888877777777776666 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.5   0.0   0.00085      0.76      47     118 ..      36     107 ..      23     114 .. 0.76
   2 !    7.5   0.1    0.0033         3      95     147 ..     163     217 ..     151     229 .. 0.81

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00085
                IstB_IS21  47 kenivllGpsGvGKshlaialgveavraglsvlfvrvedLveelkrarrdgklaralkrllkv.dllilDdlg 118
                              ++ ++++Gp G+GK+ l  ++      +  sv+f++ +dL +  + + ++  +ar+ +++  + +l ++D++ 
  PHY93_06755|PHY93_06755  36 HDLVAIIGPNGAGKTTLFNTITGIYTPSTGSVSFCQ-KDLKNIKSSDITELGIARTFQNIRLFkNLSVIDNIK 107
                              67899************9999888888888888875.677666666667777777777776664566777765 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0033
                IstB_IS21  95 rdgklaralkrllkvdllilDd..lgllpldqaeaellfeviekryerrsiiits 147
                              ++ kl+ a +  ++++ll+lD+   g++p +  e ++l ++i ++++ + i+i  
  PHY93_06755|PHY93_06755 163 QQRKLEMARALATEPKLLLLDEpaAGMNPTETRELTELIHLIRDQFDIAIILIEH 217
                              455666666777899******966799******************9988888765 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.6   2.4e-06    0.0022       2      36 ..      39      74 ..      38     222 .. 0.87

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 2.4e-06
                             EEEEESTTSSHHHHHHHHHTS.TEEESSSTTSSSSE CS
                 MMR_HSR1  2 vaivGrpNvGKStLinaltge.kaivsdkpgtTrdi 36
                             vai+G   +GK+tL+n++tg  +  +++  ++ +d 
  PHY93_06755|PHY93_06755 39 VAIIGPNGAGKTTLFNTITGIyTPSTGSVSFCQKDL 74
                             89*****************96555666666655555 PP

>> AAA_27  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   5.2e-06    0.0046      10      47 ..      19      57 ..      13      74 .. 0.87

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 5.2e-06
                   AAA_27 10 ryGkftd.rsldfsaeeadlhliyGpNEAGKstalrAis 47
                             ++G +t  + ++f+   +dl  i+GpN AGK+t+++ i+
  PHY93_06755|PHY93_06755 19 KFGGLTAvNDVSFKVFPHDLVAIIGPNGAGKTTLFNTIT 57
                             5777765257999999*******************9987 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0     5e-06    0.0045      97     131 ..      34      68 ..       7      76 .. 0.84

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 5e-06
                              CTTSEEEEECSTTSSHHHHHHHHCTT-----S--- CS
              RsgA_GTPase  97 lkdktsvlvGqSGvGKStLinallpelelktgevs 131
                              + +++++++G+ G+GK+tL n++++  + +tg+vs
  PHY93_06755|PHY93_06755  34 FPHDLVAIIGPNGAGKTTLFNTITGIYTPSTGSVS 68 
                              3458999******************9999999998 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.6   0.0   2.8e-05     0.025       4      78 ..      38     111 ..      36     116 .. 0.69
   2 ?    1.4   0.1      0.35   3.1e+02      36      72 ..     146     184 ..     126     213 .. 0.68

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 2.8e-05
                   AAA_14   4 ilvitGaRrvGKTtllkqlikellvkkesilyinldderdkkladpe....kllelileklkeekktylflDEiqevpe 78 
                              +++i G+  +GKTtl +++   +     s+  +++ ++++k+++ ++     + + +++  +   k++ ++D i+ +++
  PHY93_06755|PHY93_06755  38 LVAIIGPNGAGKTTLFNTITGIYT---PSTGSVSFCQKDLKNIKSSDitelGIARTFQNI-R-LFKNLSVIDNIKLAKH 111
                              689************888876666...677777777777776665542233444555554.1.3568999999987765 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.35
                   AAA_14  36 inldderdkkladpe....kllelileklkeekktylflDE 72 
                              ++ldd++d+ +++ +    + le+ ++ l   + ++l+lDE
  PHY93_06755|PHY93_06755 146 FKLDDKKDYLAKNLAygqqRKLEMARA-LA-TEPKLLLLDE 184
                              567777775555443221112222222.23.5789999999 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.0   0.0   7.1e-05     0.063      19      49 ..      37      67 ..      31      92 .. 0.88
   2 ?    2.1   0.0      0.15   1.4e+02      81     120 ..     165     213 ..     131     218 .. 0.72

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 7.1e-05
                   AAA_30 19 rvavltGpAGtGKttalkalreaweaaggrv 49
                              ++++ Gp G+GKtt+ ++++ +++ + g+v
  PHY93_06755|PHY93_06755 37 DLVAIIGPNGAGKTTLFNTITGIYTPSTGSV 67
                             58899****************9999886555 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.15
                   AAA_30  81 k....grarlepgtllivDE..agmv..dtkqlaallkaaeka.gakvi 120
                              +    +ra  ++ +ll+ DE  agm    t++l++l+  ++++ ++ +i
  PHY93_06755|PHY93_06755 165 RklemARALATEPKLLLLDEpaAGMNptETRELTELIHLIRDQfDIAII 213
                              14554333344459******87788777899999999999985345555 PP

>> FeoB_N  Ferrous iron transport protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.1     5e-05     0.045       3      24 ..      39      60 ..      37      65 .. 0.91

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 5e-05
                             EEEEESTTSSHHHHHHHHHTTS CS
                   FeoB_N  3 valvGnpnvGkttlfnaltgak 24
                             va++G   +Gkttlfn++tg +
  PHY93_06755|PHY93_06755 39 VAIIGPNGAGKTTLFNTITGIY 60
                             899****************986 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   0.00023       0.2       2      54 ..      40      95 ..      39     114 .. 0.63
   2 ?    0.3   0.0      0.97   8.7e+02      50      69 ..     167     187 ..     134     222 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00023
                             EEESSTTSSHHHHHHHHHHHH..........THEEEEEETTTCSSSSTTHHHHHHHHHHHHHH CS
                      AAA  2 llyGppGtGKTllakavakel..........gvefleisgsellskyvgesekkirelfkeak 54
                              ++Gp G GKT+l + +              + ++ +i+ s+++       e  i+ +f++++
  PHY93_06755|PHY93_06755 40 AIIGPNGAGKTTLFNTITGIYtpstgsvsfcQKDLKNIKSSDIT-------ELGIARTFQNIR 95
                             589**************999644444111113445555555555.......444444444443 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.97
                              HHHHHHTS.TSEEEEEETGGG CS
                      AAA  50 fkeakeka.kpsilfiDEida 69 
                              ++ a++ a +p+ l++DE  a
  PHY93_06755|PHY93_06755 167 LEMARALAtEPKLLLLDEPAA 187
                              566777777889999999554 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   0.00021      0.18       5      23 ..      39      61 ..      38     112 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00021
                   AAA_24  5 iliyGpsgiGKTtlakel....g 23
                             ++i+Gp+g+GKTtl +++    +
  PHY93_06755|PHY93_06755 39 VAIIGPNGAGKTTLFNTItgiyT 61
                             68************999866662 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   0.00043      0.39       2      20 ..      38      56 ..      37      64 .. 0.90
   2 ?   -1.9   0.0       3.2   2.8e+03      92     113 ..     184     204 ..     152     232 .. 0.58

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00043
                             CEEEEC-TTTCHHHHHHHH CS
                    NACHT  2 lvilqGeaGsGKTtLlqkl 20
                             lv++ G++G GKTtL   +
  PHY93_06755|PHY93_06755 38 LVAIIGPNGAGKTTLFNTI 56
                             799************9887 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 3.2
                              T-SS-TCH.........HHHHH CS
                    NACHT  92 elvtdlgqkekqpvrtlLseli 113
                              e ++ +++ e +++ +l+ +li
  PHY93_06755|PHY93_06755 184 EPAAGMNPTETRELTELI-HLI 204
                              334433332222222222.343 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00036      0.32      26      55 ..      38      67 ..      25     116 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00036
                   AAA_16 26 lvllsGesGvGKsslvrellralekdggif 55
                             lv ++G+ G GK++l +++   ++ + g +
  PHY93_06755|PHY93_06755 38 LVAIIGPNGAGKTTLFNTITGIYTPSTGSV 67
                             799**************9997777774444 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.8    0.0007      0.63       2      19 ..      39      56 ..      38      66 .. 0.88
   2 ?   -2.3   0.0       5.1   4.6e+03      62      79 ..     164     183 ..     147     199 .. 0.59

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.0007
                   AAA_28  2 ivitGgestGKTtlleaL 19
                             ++i+G+ ++GKTtl + +
  PHY93_06755|PHY93_06755 39 VAIIGPNGAGKTTLFNTI 56
                             89************9876 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 5.1
                   AAA_28  62 eqleeeaaa..aankvlfcD 79 
                              +++ e a+a  +++k+l++D
  PHY93_06755|PHY93_06755 164 QRKLEMARAlaTEPKLLLLD 183
                              33322233233566666666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (263 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       603  (0.0336327); expected 358.6 (0.02)
Passed bias filter:                      477  (0.0266049); expected 358.6 (0.02)
Passed Vit filter:                        84  (0.00468515); expected 17.9 (0.001)
Passed Fwd filter:                        20  (0.00111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              20  [number of targets reported over threshold]
# CPU time: 0.56u 0.27s 00:00:00.83 Elapsed: 00:00:00.42
# Mc/sec: 1865.69
//
Query:       PHY93_05460|PHY93_05460  [L=473]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.2e-14   52.0  33.8    5.4e-08   32.9  11.0    2.7  2  OEP       Outer membrane efflux protein


Domain annotation for each model (and alignments):
>> OEP  Outer membrane efflux protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.5  14.5   1.1e-09     2e-05       1     180 [.      27     253 ..      27     259 .. 0.86
   2 !   32.9  11.0     3e-12   5.4e-08      19     186 ..     300     469 ..     288     471 .. 0.93

  Alignments for each domain:
  == domain 1  score: 24.5 bits;  conditional E-value: 1.1e-09
                      OEP   1 ldellalalennpdlkaaeaeieaaeanlkaakaeflPtlslsgsygyegngsegggddggtgtt..................... 65 
                              ld++l+++  +n+++ a+++  e a++++++ k  f P++ ++++   +   + + + +g+ +++                     
  PHY93_05460|PHY93_05460  27 LDDFLKQVEGKNQSMTASKLIAEGAQERANEGKLIFRPNIFAQAQSTIDKRPTANVNAQGDRTDNnfvtagilqqfnfglqgklgy 112
                              6888888888999999999999999999999998777777666665544444444444444443468999999999999******* PP

                      OEP  66 .......................svgltlsqplfdg...gkrrarvkaakaqleaaeaqleqarqqlrlevaqaylqlllakeqle 125
                                                      ++l+lsq l++     + r++  +  +q +a++ + +  +  + ++++ +y++l + ++ ++
  PHY93_05460|PHY93_05460 113 nfshtriydaspaflpinnfhdgVATLELSQSLWRNflgRESRSQEVIITSQAQATKHTENYKIKATLAQAELLYWSLSQIRKVVR 198
                              **********************************9988777888888889999999999999999999****************** PP

                      OEP 126 laeealklaekalelaearykaGlislldvlqaqvrllqaraelaeaeqqlqlar 180
                              +++e+l++a+k+    + r+k Gl+  +d lq ++++   + el +a+q+l+  +
  PHY93_05460|PHY93_05460 199 VQKESLERAQKIRVWNQNRLKSGLAENSDFLQSDANYKAREYELKSAMQDLKTLQ 253
                              **************************************************99877 PP

  == domain 2  score: 32.9 bits;  conditional E-value: 3e-12
                      OEP  19 eaeieaaeanlkaakaeflPtlslsgsygyegngsegggddggtgtt.....svgltlsqplfdggkrrarvkaakaqleaaeaql 99 
                               ++i +a a+l + k+   Pt++  g+y  +g ++  ++   +   t     ++gl +  pl   g+++ +++  + ++ aa +++
  PHY93_05460|PHY93_05460 300 IQKISKASADLSIEKN--KPTFEMYGTYALNGRDPQADQAVTNSFKTnhdtkAIGLRFVAPLDF-GTTSDNINGYRKEQIAATQNF 382
                              5677777788888887..6****************999998888888***************75.********************* PP

                      OEP 100 eqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislldvlqaqvrllqaraelaeaeqqlqlaraqLey 185
                              ++ + + +++ + + ++++ ak  l l e+  ++++  + + ++r+ +G++ ++ vl+ +++++q+++++++ e+++ + ++qL+ 
  PHY93_05460|PHY93_05460 383 QRKLFEQEQQWNDLAARFEDAKVKLSLVEKIEEAQKIKASNERDRLSKGRTVTFQVLNFEQDYAQSELARIQNETNILNIYSQLKI 468
                              *****************************************************99*****************************96 PP

                      OEP 186 l 186
                              +
  PHY93_05460|PHY93_05460 469 Y 469
                              6 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (473 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1149  (0.0640861); expected 358.6 (0.02)
Passed bias filter:                      387  (0.0215851); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.61u 0.21s 00:00:00.82 Elapsed: 00:00:00.41
# Mc/sec: 3490.08
//
Query:       PHY93_06760|PHY93_06760  [L=284]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    6.9e-44  150.0  33.5    2.1e-43  148.4  33.5    1.6  1  BPD_transp_2  Branched-chain amino acid transport system / pe


Domain annotation for each model (and alignments):
>> BPD_transp_2  Branched-chain amino acid transport system / permease component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  148.4  33.5   1.2e-47   2.1e-43       3     268 .]       5     266 ..       3     266 .. 0.92

  Alignments for each domain:
  == domain 1  score: 148.4 bits;  conditional E-value: 1.2e-47
             BPD_transp_2   3 lnlltlaailaiaAlGlalvfgiaGvinlghggfmalGayvaalllalllsl......lllallvallvgaavglllgllvlrlkv 82 
                              l++l  ++i++ +Al+l+l+ g+ G+++lgh+gf + Gay++a++++++  +        +a lv++l++a++g ++g+++lrlk 
  PHY93_06760|PHY93_06760   5 LQILLIVGIFITLALSLNLINGFCGQFSLGHAGFWGAGAYASAIYSVYFALPvsapinMGIACLVGFLASAICGIIIGAPCLRLKG 90 
                              67899999******************************************999*****9*************************** PP

             BPD_transp_2  83 deliitllllsvlvgltlllltgitsgvkgqssvkellgfagallsflsavivllalllvlavllllrrtrfGralravgeneeaa 168
                              d+l+i++l++ ++v+++  ++t+  +g+ g   ++ l+ +      ++     + +++l+++++l l+rt +Gra+  ++e+e aa
  PHY93_06760|PHY93_06760  91 DYLAIATLGFGEIVRIII-MHTEMAGGPRGFINIPHLANIY-----WV-----YAVAILTIIFMLNLKRTTYGRAIISIREDEIAA 165
                              ******************.6666666666544444433322.....22.....677889*************************** PP

             BPD_transp_2 169 ralGinvkrvklltfvisgalAglaGallalllgsipp.nigvglgfnaiaavvlGgagsllgtviGaliigvvksllltllgipt 253
                              +++G+n++r+kl++f+i++++Ag+aGal+a  +++  p n+ ++++  ++++v+lGg gs+ g viGa+++ +  ++l+++ g ++
  PHY93_06760|PHY93_06760 166 ENMGVNIFRYKLFSFIIGAGIAGIAGALFAHTQQFLHPsNFNFMWSVIILVMVILGGQGSVTGSVIGAVLLTLFPEVLRFIGGHAS 251
                              ************************************************************************************99 PP

             BPD_transp_2 254 elarvllgallilvl 268
                              ++++ +  +lli+++
  PHY93_06760|PHY93_06760 252 DWRMPIYSVLLIVLM 266
                              999999999999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (284 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       684  (0.0381505); expected 358.6 (0.02)
Passed bias filter:                      273  (0.0152267); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.23s 00:00:00.79 Elapsed: 00:00:00.43
# Mc/sec: 1964.96
//
Query:       PHY93_06765|PHY93_06765  [L=296]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    5.7e-48  163.4  32.4    6.6e-48  163.2  32.4    1.0  1  BPD_transp_2  Branched-chain amino acid transport system / pe
  ------ inclusion threshold ------
       0.15   11.9   0.2       0.15   11.9   0.2    2.1  2  ATP-synt_S1   Vacuolar ATP synthase subunit S1 (ATP6S1)


Domain annotation for each model (and alignments):
>> BPD_transp_2  Branched-chain amino acid transport system / permease component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  163.2  32.4   7.4e-52   6.6e-48       2     268 .]      16     282 ..      15     282 .. 0.87

  Alignments for each domain:
  == domain 1  score: 163.2 bits;  conditional E-value: 7.4e-52
             BPD_transp_2   2 ilnlltlaailaiaAlGlalvfgiaGvinlghggfmalGayvaalllalllsllllallvallvgaavglllgllvlrlkvdel.. 85 
                              ++n++++++++a++AlG+++v+gi++++n++hg+f+++Ga+   ++l + l+  ++a++ a+l ++++++++++lv r   ++   
  PHY93_06765|PHY93_06765  16 FSNGISQGSLYALVALGYTMVYGIIRLVNFAHGEFLMIGAMCGYYVLRANLP-MPVAIITAMLSAGILAVIVERLVYRPIRKSGrv 100
                              789************************************9999888888888.9************************96555522 PP

             BPD_transp_2  86 ...iitllllsvlvgltlllltgitsgvkgqssvkellgfagallsflsavivllalllvlavllllrrtrfGralravgeneeaa 168
                                 i+++++++++ +  + l++g+  ++  +    ++  f  + +s ++  i++++ +++l++++l ++t++G a+ra+  n +aa
  PHY93_06765|PHY93_06765 101 palITAIGTSLFFEYSGQ-LVFGADPKTIPPFITEKIYNFGEVNVSNIQLSIFIITMFVLLFLWWLTKFTKIGKAMRATSYNLQAA 185
                              331444444444444444.7777777777777777788888888888888888********************************* PP

             BPD_transp_2 169 ralGinvkrvklltfvisgalAglaGallalllgsippnigvglgfnaiaavvlGgagsllgtviGaliigvvksllltllgipte 254
                              +++Gin+++++ +tf++++a+Agl G+l+     + p  +g++lg++a++a+v+Gg+g + g+ +G++iigv+++ + + l+  ++
  PHY93_06765|PHY93_06765 186 ELMGINTNKIISFTFFLGAAIAGLGGMLMGYTMSVEP-LMGLNLGIKAFVAAVVGGIGVIPGAALGGFIIGVAEN-MVSGLYK-SS 268
                              ****************************987766666.*************************************.6666666.7* PP

             BPD_transp_2 255 larvllgallilvl 268
                              +++++++ +lil+l
  PHY93_06765|PHY93_06765 269 YRDAVSFFILILIL 282
                              ***********987 PP

>> ATP-synt_S1  Vacuolar ATP synthase subunit S1 (ATP6S1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.2   1.7e-05      0.15      94     127 ..      10      44 ..       2      47 .. 0.85
   2 ?   -1.8   0.2      0.27   2.5e+03     107     126 ..     150     169 ..     140     203 .. 0.66

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 1.7e-05
              ATP-synt_S1  94 sdCvgFfsigiwmg.Lvvslillliltyglhmimd 127
                              +dC ++fs gi  g L + + l + ++yg+  +++
  PHY93_06765|PHY93_06765  10 WDCLQYFSNGISQGsLYALVALGYTMVYGIIRLVN 44 
                              9**********9985667777999******98876 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 0.27
              ATP-synt_S1 107 gLvvslillliltyglhmim 126
                              ++++ ++++l +++ l+   
  PHY93_06765|PHY93_06765 150 SIFIITMFVLLFLWWLTKFT 169
                              55555555555555554444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (296 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       846  (0.0471861); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 2189.20
//
Query:       PHY93_06770|PHY93_06770  [L=374]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.1e-56  191.1   0.6    4.7e-56  190.9   0.6    1.0  1  Peripla_BP_6  Periplasmic binding protein
    3.5e-24   85.6   0.0    4.7e-24   85.2   0.0    1.1  1  ANF_receptor  Receptor family ligand binding region
    3.3e-13   49.4   1.5      4e-12   45.8   1.5    2.4  1  Peripla_BP_5  Periplasmic binding protein domain


Domain annotation for each model (and alignments):
>> Peripla_BP_6  Periplasmic binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  190.9   0.6   7.8e-60   4.7e-56       1     332 [.      28     357 ..      28     367 .. 0.91

  Alignments for each domain:
  == domain 1  score: 190.9 bits;  conditional E-value: 7.8e-60
                              EEEEEEEE-SSSTTHHHHHHHHHHHHHHHHHHHHTTEETTEEEEEEEEE-TTSHHHHHHHHHHHHHCT--SEEEE-BSHHHHHHHH CS
             Peripla_BP_6   1 pikiGlltplsGpyassgksllagaqaafeeiNaaGGinGrkielverDdaydpdraaeaarrlvdqdgvdalvgplssavaaava 86 
                              ++k+G+++pl+G++a++g++ ++g+++a e + +      rk+el+++Dd++d+ ++ +a+r+l++ d++ a +g  +s+ a+a+a
  PHY93_06770|PHY93_06770  28 TLKVGVVSPLTGATATFGQENVNGIKLAYEKVKKT---SARKFELIIEDDKSDAIESTNATRKLINIDKISAMIGEPTSSLALASA 110
                              689*****************************664...68********************************************** PP

                              HHHHHHT-EEEESS-HH..CCTTSTTEEESS--HHHHHHHHHHHHHHHTTSCEEEEEEES.SHHHHHHHHHHHHHHHCCTEE..EE CS
             Peripla_BP_6  87 evlakdgvpvigpaglt..gekcspyvfslgpsysaqasalveylakelggkkvalvyad.yafgregiaalkaaakaaGge..vv 167
                              ++++++++p+i+p++++   +++ +y+ +++++++ q+  +++++++ l++kk  ++  + + +++ +++++ + + ++Gg+    
  PHY93_06770|PHY93_06770 111 PIVQEAKIPFITPTATNikVTQVGDYISRACFTDDFQGVVMAKFAVNILKKKKGLILIENtSDYSKGLAKSFSDEFIKLGGKlaSS 196
                              ************987775459**************************99977766555444*********************4444 PP

                              EEEEE-TTHHHHHHHHHHHHTTT-SEEEEESSHHHHHHHHHHHHHTT-SSSCEEEECCC-CHHH.HHHHHHHHHTTEEEEESCSTC CS
             Peripla_BP_6 168 geepvplgttdfsaqvlqikaagadavllagtgadlaallkaaaeaGldakrillvswsgseed.lkalggeaaegvlavtpyfpd 252
                              +e ++ + +tdf+++++++k+a+ad++++ g+ + +  ++k+a++ G++   +++++ +g+++  l  ++g a +g +++  ++pd
  PHY93_06770|PHY93_06770 197 EELTYVAKDTDFQSLLRKVKRANADFIFVPGYYVEVGLIIKQARALGIN---VPFLGGDGWDSPkLFEIAGSAVKGSYISNHFAPD 279
                              445555677****************************************...7888888776655********************* PP

                              CCSHHHHHHHHHHHHHHTTGGC--HHHHHHHHHHHHHHHHHHCCTHCCHHHHHHHHHHS-.BECCCTCCBEECTTSBEE-- CS
             Peripla_BP_6 253 ldnpavrafvaayeaayggapppsqfaaggyiaadlllealkaagsltreavraaleslg.fdgllgplkftaedhqasrp 332
                                +p+v+ fv++y++ayg +  p  faa gy+++ ++ +a+++a+s+ + ++ a+l + + + g++g ++++ +++ + ++
  PHY93_06770|PHY93_06770 280 DKDPIVQNFVKEYTKAYGVK--PGGFAALGYDSVGIMNAAIQKAKSTKSSDINAELVKTKnYQGVTGLITMD-KNRNPKKA 357
                              *******************8..*********************************************98877.44444444 PP

>> ANF_receptor  Receptor family ligand binding region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   85.2   0.0   7.8e-28   4.7e-24       6     352 ..      52     365 ..      49     367 .. 0.83

  Alignments for each domain:
  == domain 1  score: 85.2 bits;  conditional E-value: 7.8e-28
                              HHHHHHHHHT-TTSSTTEEEEEEEEE-TT-HHHHHHHHHHHCCC.CEEEEEE-SSHHHHHHHHHHHCCTT-EEEESS---GGGG-T CS
             ANF_receptor   6 mklAveeinsdpnllpgiklgyeiidtccdfslaleaaldflkg.kvvaviGpssssvsdavaslanlfkiPvisygstspelsdk 90 
                              +klA e++++     + +k++++i+d+++d   + +a+ ++++  k+ a+iG ++ss + a a + +++kiP+i++++t+ +   +
  PHY93_06770|PHY93_06770  52 IKLAYEKVKKT----SARKFELIIEDDKSDAIESTNATRKLINIdKISAMIGEPTSSLALASAPIVQEAKIPFITPTATNIK--VT 131
                              56777777766....567*************************547****************************99775555..55 PP

                              TTTTTEEESS--CHHHHHHHHHHHHHTT--EEEEEEESS..HHHHHHHHHHHHHHHHTT-EEEEEEEESTCHHHCHHHHHHHHHHT CS
             ANF_receptor  91 nryptflrtvpsdtsqaqAivdilkhfgWkkvaliysdd..dygesglqaleeeleergicvalkekipessnddevvrkllkeik 174
                              +  +++ r   +d +q+ ++++   +   kk +li  ++  dy +++++++++e+ + g ++a +e+++    +d ++++ll+++k
  PHY93_06770|PHY93_06770 132 QVGDYISRACFTDDFQGVVMAKFAVNILKKKKGLILIENtsDYSKGLAKSFSDEFIKLGGKLASSEELT-YVAKDTDFQSLLRKVK 216
                              555588****************9887666666666666558****************************.6678899999999999 PP

                              T.T--EEEEEE-HHHHHHHHHHHHHTTS-STTEEEEETCHCCCECTTS-CC..HHHHHTT-EEEEE......--B-HHHHHHHHHS CS
             ANF_receptor 175 s.karvivlfcssedarellkaarrlgltgeeyvwiasdawtsslvldkpeltgleaaegvlgfrl......kdpnspkfsefldk 253
                              + +a+ i++  +  ++  ++k+ar lg++ +   +++ d+w s      p+   +e+a+ ++  ++       d + p +++f+  
  PHY93_06770|PHY93_06770 217 RaNADFIFVPGYYVEVGLIIKQARALGINVP---FLGGDGWDS------PK--LFEIAGSAVKGSYisnhfaPDDKDPIVQNFV-- 289
                              99***************************85...**9999854......33..5666665555555577777899999******.. PP

                              T--CCCSSSTCCGSTTCCHHHHH...HHHHHHHHHHHHHHHCHHSSSHCCB-HHHHCCHHHHHHHHHHHT-EEEETTSCEEB-TTS CS
             ANF_receptor 254 reklsdekqnyenegkeqisyqaalmYdaVyllaeAlnkllrkkkpgralscntlkpweggqkllrylrnvnfeGltGdvkfdeng 339
                                     k  y+++ +  +  +aal Yd+V ++  A++k++++            k  +  + l+   ++ n++G+tG +++d+n+
  PHY93_06770|PHY93_06770 290 -------K-EYTKAYGVKPGGFAALGYDSVGIMNAAIQKAKST------------KSSDINAELV---KTKNYQGVTGLITMDKNR 352
                              .......4.466666666788999****************932............2333344444...788*************** PP

                              BBE-EEEEEEEEC CS
             ANF_receptor 340 drvptydilnlqg 352
                              + +++  +l+ + 
  PHY93_06770|PHY93_06770 353 NPKKAAVVLEATE 365
                              9998888887765 PP

>> Peripla_BP_5  Periplasmic binding protein domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.8   1.5   6.7e-16     4e-12       1     341 [.      29     367 ..      29     371 .. 0.85

  Alignments for each domain:
  == domain 1  score: 45.8 bits;  conditional E-value: 6.7e-16
             Peripla_BP_5   1 ikvGvLhSlsGtmaisekslkdaallaieeinaagGvlgrkieavvvdpasdwelfaekaeklieedkvevvfGcwtSasRkavlp 86 
                              +kvGv+  l+G++a+  ++ +++++la e++ ++    +rk e +++d +sd+   ++ ++kli+ dk+++++G  tS+   a  p
  PHY93_06770|PHY93_06770  29 LKVGVVSPLTGATATFGQENVNGIKLAYEKVKKTS---ARKFELIIEDDKSDAIESTNATRKLINIDKISAMIGEPTSSLALASAP 111
                              59****************************99988...9*********************************************** PP

             Peripla_BP_5  87 vveelnalLfYpvqYE..GeEssknviYtGaapnqqaipavdyllselg.akrvflvGsdyvypretnrilkallkakggevvgee 169
                              +v e +  ++ p+      + + + +  +  + + q + +++++++ l  +k ++l+     y++  ++ +++ + + gg+    e
  PHY93_06770|PHY93_06770 112 IVQEAKIPFITPTATNikVTQVGDYISRACFTDDFQGVVMAKFAVNILKkKKGLILIENTSDYSKGLAKSFSDEFIKLGGKLASSE 197
                              ***99998888876541144555556566667788888888998888773445788999999******************877654 PP

             Peripla_BP_5 170 .Ylpl.gssdvqkivakikkakpdvvlstinGdsnvafykelkeagikaekipvvsl.svaeeelaaidaealvGhlaawnYfqsv 252
                                + + +++d+q++++k+k+a++d+++      ++  + k+ ++ gi+   +p +        +l +i  +a++G + +  +    
  PHY93_06770|PHY93_06770 198 eLTYVaKDTDFQSLLRKVKRANADFIFVPGYYVEVGLIIKQARALGIN---VPFLGGdGWDSPKLFEIAGSAVKGSYISNHFAPDD 280
                              144443669*****************9665555666788888888885...6766651566789***************9999999 PP

             Peripla_BP_5 253 dtpenkafvakfkarvgedrvtndpmeaayiqvklwaqAvekagstdvekvreallg.qelkapeGevkidpenhhlsktvrigki 337
                              + p  ++fv+++++ +g +      +   y +v ++ +A++ka+st+ ++++++l++ ++++  +G +++d+ n+   k++ + ++
  PHY93_06770|PHY93_06770 281 KDPIVQNFVKEYTKAYGVKP--GGFAALGYDSVGIMNAAIQKAKSTKSSDINAELVKtKNYQGVTGLITMDK-NRNPKKAAVVLEA 363
                              99**************9876..5677889**********************998765167999********9.9999999998888 PP

             Peripla_BP_5 338 kadG 341
                              ++ G
  PHY93_06770|PHY93_06770 364 TETG 367
                              8777 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (374 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       472  (0.0263261); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.42
# Mc/sec: 2682.31
//
Query:       PHY93_06775|PHY93_06775  [L=79]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.024   14.4   0.5      0.027   14.2   0.5    1.1  1  ATPgrasp_TupA  TupA-like ATPgrasp


Domain annotation for each model (and alignments):
>> ATPgrasp_TupA  TupA-like ATPgrasp
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.5   1.5e-06     0.027      92     129 ..       1      38 [.       1      52 [. 0.87

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 1.5e-06
            ATPgrasp_TupA  92 lerndlkekrekkykdvkpriilEkklkkepavelkDy 129
                              ++++d+k+   k+y++v+++ii+E +   ++++++  +
  PHY93_06775|PHY93_06775   1 MNKDDFKQTLIKQYSEVIEEIIVESESIYRSHIDYNQL 38 
                              78999**************************9776544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (79 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       682  (0.0380389); expected 358.6 (0.02)
Passed bias filter:                      484  (0.0269954); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 593.88
//
Query:       PHY93_06780|PHY93_06780  [L=394]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   1.3e-108  363.5   0.0   1.5e-108  363.3   0.0    1.0  1  DUF1343   Protein of unknown function (DUF1343)


Domain annotation for each model (and alignments):
>> DUF1343  Protein of unknown function (DUF1343)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  363.3   0.0  8.4e-113  1.5e-108       1     351 [.      25     394 .]      25     394 .] 0.95

  Alignments for each domain:
  == domain 1  score: 363.3 bits;  conditional E-value: 8.4e-113
                              EEEEE-TT-EETTTEEHHHHHHHTTT-EEEEEEESTT-TTS-----------.B-TTT--BEEE-SGGGSS--HHHHTT-SEEEEE CS
                  DUF1343   1 vglltnqtgvdsegehlvdvLleakkvklvalfapeHGlrgeadagekvkds.vdpktglpvisLYgkkkkptkemLedlDvlvfd 85 
                              +g l++++++ds+ ++ v +L++  + +l++lf+p+HG+ ++ ++++ ++++ ++p+ ++pv+sLY++++ pt+emLe+lD+l++d
  PHY93_06780|PHY93_06780  25 IGYLCHSASIDSQFNSGVMLLQKVFGGRLKKLFGPQHGFVTDVQDNMVETTHyIHPYFKIPVYSLYSETRTPTDEMLEGLDTLIVD 110
                              7899********************99********************9998877********************************* PP

                              ----SBTTSTHHHHHHHHHHHHHHTT-EEEEE----TTTTS--BS----GGG-BTTB-SSS-SB----HHHHHHHHHHTT-S.... CS
                  DUF1343  86 iqDvGvRfYTYistlayvmeaaaengieliVLDRpNplgglkveGpvldkklesfvgalpipvrhGlTiGElAklingekll.... 167
                              +qDvG+R+YTYistl+ +me+++ ++ +++VLDRpNp+gg+ +eG++l+++++sfvg++pip+rh++T+GE+  + +    l    
  PHY93_06780|PHY93_06780 111 LQDVGTRVYTYISTLSLLMEKCQGRDLKILVLDRPNPVGGEMIEGCILKPDYKSFVGRYPIPQRHSMTMGEVGMYGKII--Lktdc 194
                              ************************************************************************9775554..23578 PP

                              EEEEE--BS--TT--HHHH--S-S-SSTT--SCCHHHHHHHHHHHHCTSSB-STTSSSTTSEEEETT-SHHHHHHHHHTT.....- CS
                  DUF1343 168 dltvipmkgwkrsmlydetglpwvkPSPnlptleaallYpglclfEgtnvseGrGttrpFeviGapwldakklaeelnal.....k 248
                              +l+vi+m gwkrsm++++tglpwv PSPnlpt+e a++++g++lfEgtn+seGrGttrp ev G p +++ +++e++ ++      
  PHY93_06780|PHY93_06780 195 HLEVIKMDGWKRSMFWQDTGLPWVLPSPNLPTPEGAITFAGTVLFEGTNISEGRGTTRPLEVAGFPGIESFSFCERVLKRfhdegL 280
                              ********************************************************************998866654444455545 PP

                              -TTEEEECEEE--SSSTTTTS-EEEEEECES-TTT---TCHHCCHCHHHHHHHHGGSHHH...........HHHHHHTSTHHHHHH CS
                  DUF1343 249 lpgvkfrpvsftpteskhkgetceGvqlevtdrekfdpvelgllllkallelypeqfelk...........afdkllgteelreqi 323
                              ++g+++rp+ f pt++kh+g+ c Gv+++ t+++kf++++++++l + +++   ++f+++           a+d++ gt+e+r ++
  PHY93_06780|PHY93_06780 281 TEGFNLRPIIFLPTFQKHQGKNCGGVHIHPTNNNKFQSWSVSQMLCREFKRELGSEFQFHdkpyeyefhklAIDLINGTDEVRLWV 366
                              69****************************************************999999999999999***************** PP

                              HCCS-CHHCHHHCHCCHHHHHHHHHCC- CS
                  DUF1343 324 eagksveeiraswqkelekFkkkrkkyl 351
                              +   s +e+r+  +++ e+F ++r+k+l
  PHY93_06780|PHY93_06780 367 DCLGSLSELRKIETQGHEHFLNERAKIL 394
                              **********************999975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (394 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       325  (0.0181271); expected 358.6 (0.02)
Passed bias filter:                      315  (0.0175693); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.21s 00:00:00.74 Elapsed: 00:00:00.39
# Mc/sec: 2994.35
//
Query:       PHY93_06785|PHY93_06785  [L=71]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (71 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       429  (0.0239277); expected 358.6 (0.02)
Passed bias filter:                      331  (0.0184617); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 550.52
//
Query:       PHY93_06790|PHY93_06790  [L=262]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   6.5e-126  418.9   0.0   7.2e-126  418.8   0.0    1.0  1  Thymidylat_synt  Thymidylate synthase
  ------ inclusion threshold ------
       0.11   12.2   0.0       0.22   11.2   0.0    1.4  2  TrbL             TrbL/VirB6 plasmid conjugal transfer protein
       0.14   11.8   0.1       0.48   10.1   0.0    1.9  2  LRR_12           Leucine-rich repeat


Domain annotation for each model (and alignments):
>> Thymidylat_synt  Thymidylate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  418.8   0.0  1.2e-129  7.2e-126       1     266 [.       2     262 .]       2     262 .] 0.98

  Alignments for each domain:
  == domain 1  score: 418.8 bits;  conditional E-value: 1.2e-129
                              HHHHHHHHHHHHH-EEEE-TTSSEEEEEEEEEEEEEGGGCB----SSST--HHHHHHHHHHHHTT--BTHHHHTTT--TTHHHHHH CS
          Thymidylat_synt   1 kqYldlvrkileeGeekedRtgtgtisvfgaqlrfdlsegefPllTtkkvflksvieEllWflsgetnvkeLqekgvkiWdewade 86 
                              kqY+dl++++le+G++kedRtgtgt+svfg+q r++l+eg fPl+Ttkk++lks+i+EllWfl+getn+k+L+++gv+iW+ewade
  PHY93_06790|PHY93_06790   2 KQYHDLMKHVLEHGTKKEDRTGTGTLSVFGHQARYNLQEG-FPLVTTKKLHLKSIIHELLWFLQGETNIKYLKDHGVSIWNEWADE 86 
                              79*************************************9.********************************************* PP

                              TTB-SSSHHHHHHHBTSTTTSSB-HHHHHHHHHHHSTT-ST-EEE---GGGGGGSSS--SEEEEEEEE..SEETEEEEEEEEEEEE CS
          Thymidylat_synt  87 egdlgpvYGkqwrkfkaeegkkidqlakvidqlkenpdsRriivsawnpaeldkmaLppChvlfqfyvkdkkegkLslqlyqRSaD 172
                              eg+lgpvYG qwr+++ ++g++idq++ v++q+k+npdsRr+ivsawn+ae++kmaLppCh++fqfyv   +egkLs+qlyqRSaD
  PHY93_06790|PHY93_06790  87 EGNLGPVYGSQWRSWQGANGETIDQITAVVNQIKKNPDSRRLIVSAWNVAEIEKMALPPCHAFFQFYV---AEGKLSCQLYQRSAD 169
                              ****************************************************99**************...5578*********** PP

                              TTTHHHHHHHHHHHHHHHHHHHHT-EEEEEEEEEEEEEEEGGGHHHHHHHHTS---S--EEEE--SSTHSGGG--GGGEEEES--- CS
          Thymidylat_synt 173 vflGvpFNiasyalLthmlaqvtglkpgelihtigdaHiYsnhveqvkeqlereprelpklelnkekkvsiedfeledfelenYkp 258
                              vflGvpFNiasyalLt+m+aqv+gl  g+++ht+gdaH+Ysnh+eq+k ql+r+ r+lp+++ln++ k +i+df++edfel +Y+p
  PHY93_06790|PHY93_06790 170 VFLGVPFNIASYALLTMMMAQVCGLGLGDFVHTMGDAHLYSNHIEQAKLQLTRDFRSLPQMKLNPDVK-NIFDFKFEDFELAGYDP 254
                              ****************************************************************8887.***************** PP

                              -SXXXXXX CS
          Thymidylat_synt 259 hpkikakv 266
                              hp+ika++
  PHY93_06790|PHY93_06790 255 HPTIKAPI 262
                              *****975 PP

>> TrbL  TrbL/VirB6 plasmid conjugal transfer protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.0       1.2   7.4e+03      64      86 ..      99     119 ..      90     131 .. 0.67
   2 ?   11.2   0.0   3.7e-05      0.22     142     187 ..     160     205 ..     159     216 .. 0.87

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 1.2
                     TrbL  64 lssagsstsptldqlgldvadkl 86 
                               s++g++++ t+dq+  +v++++
  PHY93_06790|PHY93_06790  99 RSWQGANGE-TIDQI-TAVVNQI 119
                              556665554.77777.6666666 PP

  == domain 2  score: 11.2 bits;  conditional E-value: 3.7e-05
                     TrbL 142 afllFkaTrdlFenWlgqvlsyalllvllavivglgsglfasalaa 187
                               + l+++ +d F ++  +++syall +++a ++glg+g f  ++ +
  PHY93_06790|PHY93_06790 160 SCQLYQRSADVFLGVPFNIASYALLTMMMAQVCGLGLGDFVHTMGD 205
                              6889*******************************99877666655 PP

>> LRR_12  Leucine-rich repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0      0.49   2.9e+03      16      20 ..      27      31 ..      26      32 .. 0.85
   2 ?   10.1   0.0     8e-05      0.48       5      26 ..     207     228 ..     206     232 .. 0.89

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 0.49
                   LRR_12 16 LsiFg 20
                             Ls+Fg
  PHY93_06790|PHY93_06790 27 LSVFG 31
                             9***9 PP

  == domain 2  score: 10.1 bits;  conditional E-value: 8e-05
                   LRR_12   5 hLqmNFInqAqLsiFgaFpsLr 26 
                              hL  N I qA+L++ + F+sL 
  PHY93_06790|PHY93_06790 207 HLYSNHIEQAKLQLTRDFRSLP 228
                              6778****************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (262 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       533  (0.0297284); expected 358.6 (0.02)
Passed bias filter:                      502  (0.0279993); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.41
# Mc/sec: 1903.34
//
Query:       PHY93_06795|PHY93_06795  [L=160]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.4e-48  162.5   0.0      8e-48  162.2   0.0    1.0  1  DHFR_1    Dihydrofolate reductase


Domain annotation for each model (and alignments):
>> DHFR_1  Dihydrofolate reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  162.2   0.0   4.5e-52     8e-48       2     144 ..       3     151 ..       2     158 .. 0.91

  Alignments for each domain:
  == domain 1  score: 162.2 bits;  conditional E-value: 4.5e-52
                              EEEEEEEETT-EEEBTTB-SS--HHHHHHHHHHHTTCEEEEEHHHHHCC-.S--TTCEEEEE-S-TT---TTEEEESSHHHHC... CS
                   DHFR_1   2 islivAvaengvIGkdnklpwhlpeDlkrFkklTtgkpvimGrkTfeslgkrpLpnrkniVltrnedlkvegvevvssleeal... 84 
                              +s++vA   +g IG dnkl+whl+eDlk+Fkk+Ttgk+++mGrkTfes+g +pLpnr n+V+tr+++++++gv v+++   a+   
  PHY93_06795|PHY93_06795   3 VSMVVAHGPRGEIGLDNKLLWHLSEDLKNFKKITTGKMIVMGRKTFESIG-KPLPNRANVVITRDQNFRPDGVIVINDPMMAFdla 87 
                              79***********************************************9.9**************************99998666 PP

                              .....CCCTTS.SEEEEEE-HHHHHHCGGG-SEEEEEEESS----SEE-----CCCEEEEEEEEE CS
                   DHFR_1  85 .....alakeekeevfviGGaeiYkqalpladklylTeidaefegdtffpeideeewelvereeh 144
                                   +l+++   e++viGG+ei++ ++p+++++yl+e++ +  +dtffp id++ewe+v++e++
  PHY93_06795|PHY93_06795  88 leaesDLEDS-DFEMMVIGGGEIFNFFMPYTQRIYLSEVQYQGPADTFFPPIDNKEWEIVKSEDF 151
                              5543222233.469**********************************************99875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (160 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       371  (0.0206927); expected 358.6 (0.02)
Passed bias filter:                      351  (0.0195772); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.38
# Mc/sec: 1268.57
//
Query:       PHY93_06800|PHY93_06800  [L=287]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (287 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       420  (0.0234257); expected 358.6 (0.02)
Passed bias filter:                      355  (0.0198003); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.39
# Mc/sec: 2198.95
//
Query:       PHY93_06805|PHY93_06805  [L=181]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.067   13.2   4.2      0.085   12.9   4.2    1.2  1  DUF489         Protein of unknown function (DUF489)
      0.087   13.3   0.1        1.8    9.1   0.0    2.8  2  Rnk_N          Rnk N-terminus
       0.18   11.4   2.1        0.3   10.6   2.1    1.4  1  NDUF_B5        NADH:ubiquinone oxidoreductase, NDUFB5/SGDH su
       0.23   10.7   6.5       0.29   10.4   6.5    1.1  1  CorA           CorA-like Mg2+ transporter protein
       0.47   10.8   2.6        3.6    7.9   0.4    2.4  2  DUF2492        Protein of unknown function (DUF2492)
       0.93    8.8   5.6        1.1    8.5   5.6    1.1  1  DUF4407        Domain of unknown function (DUF4407)
        2.7    8.4  10.2         13    6.2   2.7    2.7  3  Csm1_N         Csm1 N-terminal domain
        4.7    7.3  11.0          2    8.4   0.2    3.4  3  Bcr-Abl_Oligo  Bcr-Abl oncoprotein oligomerisation domain


Domain annotation for each model (and alignments):
>> DUF489  Protein of unknown function (DUF489)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   4.2   3.8e-05     0.085      13     116 ..      33     136 ..      30     161 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 3.8e-05
                              HHHHHHHHHHS---HHHHHHHHHHHH--S-SSHHHHTTS.GGGGHHHHHHHHHHHHT--SCHHHHHHHHHHHHHHHHHHHHHSTTH CS
                   DUF489  13 aklvqqlArtGqadeealetllkslletdpestedvygg.lanlklGletlleqlekekkkkdaeltryalsllalerkLsknkea 97 
                              a +++ +A+t   ++    t l  ll+++++s +d     +++l++  + l+e   +++k ++a + +y ++ + l+r+L+ +++ 
  PHY93_06805|PHY93_06805  33 APMTDLIAETNYSQDM-KVTYLTKLLDQQQKSYDDKITFlETELRKTKDRLIEKSMNQEKIEEAMIEKYGAETVVLKRELAYKTKS 117
                              5566667777665554.45678889999999999877777899999999999888888888999********************** PP

                              HHHHHHHHHTTHHHHTTS- CS
                   DUF489  98 laklgerieqierqlehfd 116
                              l + +++ie+++ + +  +
  PHY93_06805|PHY93_06805 118 LLEFQRQIEKMKPAEDLKN 136
                              **********998876444 PP

>> Rnk_N  Rnk N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   0.0   0.00079       1.8      13      36 ..      53      76 ..      45      77 .. 0.92
   2 ?    0.7   0.1      0.34   7.7e+02      30      37 ..     143     150 ..     122     152 .. 0.65

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.00079
                             HHHHHHCTTTTSSTTHHHHHHHHH CS
                    Rnk_N 13 LeaLldsladrdppaaeaLeaELd 36
                             L +Lld+++  +++ + +Le EL 
  PHY93_06805|PHY93_06805 53 LTKLLDQQQKSYDDKITFLETELR 76
                             89*******9999*********95 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.34
                              HHHHHHHC CS
                    Rnk_N  30 aLeaELdR 37 
                              +L+ EL R
  PHY93_06805|PHY93_06805 143 ELASELRR 150
                              47777777 PP

>> NDUF_B5  NADH:ubiquinone oxidoreductase, NDUFB5/SGDH subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   2.1   0.00013       0.3     122     172 ..      55     105 ..      41     117 .. 0.86

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00013
                  NDUF_B5 122 ylydspekdYekmlallqvEaekaelrllekevrrkmrergdgpwyyyetl 172
                              +l+d+++k Y+ ++ +l++E +k++ rl ek +++   e    + y  et+
  PHY93_06805|PHY93_06805  55 KLLDQQQKSYDDKITFLETELRKTKDRLIEKSMNQEKIEEAMIEKYGAETV 105
                              589*****************************9999988888888877776 PP

>> CorA  CorA-like Mg2+ transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   6.5   0.00013      0.29     109     214 ..      50     154 ..      27     163 .. 0.67

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00013
                     CorA 109 gellyrlldeivdrlfellekleeeldeledel.edstkkeilrelaqlr..rrlvklrralapnrevlkrllakaddkllddedk 191
                               + l +lld+  +++++ +  le+el++  d+l e+s ++e ++e +  +   + v l+r la++++ l ++ +   +k+ ++ed 
  PHY93_06805|PHY93_06805  50 VTYLTKLLDQQQKSYDDKITFLETELRKTKDRLiEKSMNQEKIEEAMIEKygAETVVLKRELAYKTKSLLEFQR-QIEKMKPAED- 133
                              566889****************************7777777776666544446666677777777777666666.4444444444. PP

                     CorA 192 eylrdlldelerllemlealrer 214
                                l++++   + l+ +l    ++
  PHY93_06805|PHY93_06805 134 --LKNMIKLNTELASELRRSEDQ 154
                              ..444444433333333333333 PP

>> DUF2492  Protein of unknown function (DUF2492)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.3   0.1      0.09     2e+02      43      65 ..      45      67 ..      42      78 .. 0.80
   2 ?    7.9   0.4    0.0016       3.6      16      66 ..      84     133 ..      81     142 .. 0.79

  Alignments for each domain:
  == domain 1  score: 2.3 bits;  conditional E-value: 0.09
                  DUF2492 43 aedltadeLiefLlkkgKfvese 65
                              +d+++  L ++L +++K    +
  PHY93_06805|PHY93_06805 45 SQDMKVTYLTKLLDQQQKSYDDK 67
                             589*************9976554 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.0016
                  DUF2492  16 gesytkasLkeaieekFGeearFhtCsaedltadeLiefLlkkgKfvesed 66 
                              ++s+++++++ea+ ek+G+e+          ++++L+ef  + +K+ ++ed
  PHY93_06805|PHY93_06805  84 EKSMNQEKIEEAMIEKYGAETVVLKRE-LAYKTKSLLEFQRQIEKMKPAED 133
                              68999***************9876533.34567888888888888888776 PP

>> DUF4407  Domain of unknown function (DUF4407)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.5   5.6    0.0005       1.1     131     237 ..      50     155 ..      20     162 .. 0.71

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.0005
                  DUF4407 131 ltaelaeleaqiaalqaeidaaearldalraeaqkeldgtkgtgttgvaGkgpaakekkaqldaaqaelaelkakldatarlaalr 216
                               t  ++ l++q+++ + +i+ +e++l+++++ + ++  ++ + ++  ++ +g+++   k++l+ +++ l e+++++++  + a++ 
  PHY93_06805|PHY93_06805  50 VTYLTKLLDQQQKSYDDKITFLETELRKTKDRLIEKSMNQEKIEEAMIEKYGAETVVLKRELAYKTKSLLEFQRQIEKM-KPAEDL 134
                              55556778888889999999999999988888888877777666677999*************************7733.333333 PP

                  DUF4407 217 aelaeleaerakeraasqaaa 237
                              +++ +l++e+a+e ++s++++
  PHY93_06805|PHY93_06805 135 KNMIKLNTELASELRRSEDQI 155
                              444445666666555555544 PP

>> Csm1_N  Csm1 N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   2.6    0.0077        17      30      69 ..      55      94 ..      48      95 .. 0.88
   2 ?    6.2   2.7    0.0058        13      12      55 ..      89     130 ..      85     144 .. 0.85
   3 ?   -1.0   0.1         1   2.3e+03      25      46 ..     137     158 ..     133     163 .. 0.71

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.0077
                   Csm1_N 30 svLsqkletkdqeiesLkeqlaeleekvkeleerrkkqeE 69
                              +L+q+ +++d++i  L+ +l + + ++ e   +++k eE
  PHY93_06805|PHY93_06805 55 KLLDQQQKSYDDKITFLETELRKTKDRLIEKSMNQEKIEE 94
                             689************************9999888888777 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.0058
                   Csm1_N  12 qerldsAdllvsklvhENsvLsqkletkdqeiesLkeqlaelee 55 
                              qe++++A  +++k   E +vL+++l  k++ + + ++q+++++ 
  PHY93_06805|PHY93_06805  89 QEKIEEA--MIEKYGAETVVLKRELAYKTKSLLEFQRQIEKMKP 130
                              5666655..8999999************************9975 PP

  == domain 3  score: -1.0 bits;  conditional E-value: 1
                   Csm1_N  25 lvhENsvLsqkletkdqeiesL 46 
                              +++ N+ L+ +l+  +++i  +
  PHY93_06805|PHY93_06805 137 MIKLNTELASELRRSEDQIAIM 158
                              5666888888888888877654 PP

>> Bcr-Abl_Oligo  Bcr-Abl oncoprotein oligomerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.4   0.2   0.00091         2      51      70 ..      47      66 ..      35      69 .. 0.88
   2 ?    1.4   0.9      0.14   3.2e+02      29      52 ..      71      92 ..      66     115 .. 0.80
   3 ?    3.1   0.6     0.043        96      30      68 ..     108     152 ..     102     155 .. 0.62

  Alignments for each domain:
  == domain 1  score: 8.4 bits;  conditional E-value: 0.00091
            Bcr-Abl_Oligo 51 kfkviyLqtllakerksyDr 70
                              +kv yL  ll +++ksyD 
  PHY93_06805|PHY93_06805 47 DMKVTYLTKLLDQQQKSYDD 66
                             579****************6 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.14
            Bcr-Abl_Oligo 29 ieqeLerCkaslrrLekelneekf 52
                             +e eL + k+ l  +ek +n+ek 
  PHY93_06805|PHY93_06805 71 LETELRKTKDRL--IEKSMNQEKI 92
                             788888888855..8899999986 PP

  == domain 3  score: 3.1 bits;  conditional E-value: 0.043
            Bcr-Abl_Oligo  30 eqeLerCkaslrrLekelneek....fk.viyLqtllake.rksy 68 
                              ++eL    +sl ++++++++ k     k +i L t la e r+s 
  PHY93_06805|PHY93_06805 108 KRELAYKTKSLLEFQRQIEKMKpaedLKnMIKLNTELASElRRSE 152
                              566666666666666666553322224349999999998845555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (181 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1531  (0.0853924); expected 358.6 (0.02)
Passed bias filter:                      464  (0.0258799); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.41
# Mc/sec: 1325.45
//
Query:       PHY93_05465|PHY93_05465  [L=215]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    4.1e-12   45.7   0.0    9.5e-12   44.5   0.0    1.6  2  TetR_N       Bacterial regulatory proteins, tetR family
  ------ inclusion threshold ------
       0.04   13.9   0.1      0.075   13.0   0.0    1.5  1  Herpes_UL55  Herpesvirus UL55 protein


Domain annotation for each model (and alignments):
>> TetR_N  Bacterial regulatory proteins, tetR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.5   0.0   1.1e-15   9.5e-12       1      47 []      22      68 ..      22      68 .. 0.98
   2 ?   -2.9   0.0      0.71   6.4e+03      12      28 ..     107     124 ..     104     129 .. 0.60

  Alignments for each domain:
  == domain 1  score: 44.5 bits;  conditional E-value: 1.1e-15
                             HHHHHHHHHHHHHTTT--HHHHHHHHTSSHHHHHHHTSSHHHHHHHH CS
                   TetR_N  1 IldaArelfaerGydattvreIAkrAGvskgalYryFpsKeeLleal 47
                             Ild Ar+ f e+G+++++vr+I + A+v+ +a+ ++F++Ke+L++++
  PHY93_05465|PHY93_05465 22 ILDEARKHFCEKGFAGASVRDICDGAKVNVSAIKYHFGGKEGLYREC 68
                             9******************************************9985 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 0.71
                              HHTTT-.-HHHHHHHHTS CS
                   TetR_N  12 rGydat.tvreIAkrAGv 28 
                              +G d++ t++ I ++  +
  PHY93_05465|PHY93_05465 107 EGLDNMyTTKMICREIET 124
                              555554377788877765 PP

>> Herpes_UL55  Herpesvirus UL55 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   8.4e-06     0.075      98     144 ..      25      70 ..       2      89 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 8.4e-06
              Herpes_UL55  98 rsvdelCdaPfsaatildslageytvnlegivyhChCkspfskeCWk 144
                               + ++ C++ f+ a ++d   +   vn+++i yh   k+   +eC+k
  PHY93_05465|PHY93_05465  25 EARKHFCEKGFAGASVRD-ICDGAKVNVSAIKYHFGGKEGLYRECFK 70 
                              456789************.667789********************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (215 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       457  (0.0254894); expected 358.6 (0.02)
Passed bias filter:                      322  (0.0179597); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.20s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1603.86
//
Query:       PHY93_06810|PHY93_06810  [L=248]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.11   12.0   0.2       0.15   11.6   0.2    1.2  1  DUF3034   Protein of unknown function (DUF3034)
        1.5    8.9   4.8         13    5.9   0.1    2.2  2  MCU       Mitochondrial calcium uniporter


Domain annotation for each model (and alignments):
>> DUF3034  Protein of unknown function (DUF3034)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.2   1.7e-05      0.15      61     120 ..      82     153 ..      60     174 .. 0.70

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 1.7e-05
                  DUF3034  61 lsvarqefdlsslgaalg.............lleelelkqdivgvKvrllGdvvydqdtllPqvsvGvqykkn 120
                              + va++ fd+++  +  +             +++ ++l+q+ivg+K +l  d+  ++ ++ P+    +++++n
  PHY93_06810|PHY93_06810  82 IKVAKKVFDIAQNLKEKQnileqsymdrassIKDIKRLQQEIVGIKNKLKTDASNTE-KWDPKFVYYLMMQEN 153
                              455666666643333333455566666666699999****************98877.999987666666555 PP

>> MCU  Mitochondrial calcium uniporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.1   1.4    0.0048        43       9      76 ..      65     129 ..      53     141 .. 0.72
   2 ?    5.9   0.1    0.0014        13     135     152 ..     144     161 ..     142     173 .. 0.88

  Alignments for each domain:
  == domain 1  score: 4.1 bits;  conditional E-value: 0.0048
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX-SSSSSSTSSSSSHHHHHHHHHHHHH-SHHHHH CS
                      MCU   9 avlsesgvvialstlleeeeakvllrvkqlvkalesalnveeeqlkkereleekleelreelepleek 76 
                              +v++e++v i ++t   +++ kv ++v  ++++l++  n+ e++  ++++  +++++l++e+  +++k
  PHY93_06810|PHY93_06810  65 SVINEKNVDIDSET---KDQIKVAKKVFDIAQNLKEKQNILEQSYMDRASSIKDIKRLQQEIVGIKNK 129
                              45566666666666...577899999999999999999999999999999999999999888776663 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.0014
                              HTTTHHHHGGCTTTCSSS CS
                      MCU 135 yaYflltkqeysyedvkd 152
                              ++Y+l+++++y+y+++++
  PHY93_06810|PHY93_06810 144 FVYYLMMQENYTYQEINN 161
                              89************9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (248 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1683  (0.0938703); expected 358.6 (0.02)
Passed bias filter:                      495  (0.0276089); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.39
# Mc/sec: 1886.58
//
Query:       PHY93_06815|PHY93_06815  [L=188]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.018   15.5   0.8       0.85   10.1   0.0    2.1  2  FtsX      FtsX-like permease family


Domain annotation for each model (and alignments):
>> FtsX  FtsX-like permease family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.6   0.6    0.0051        91      49      80 ..      35      66 ..      28      80 .. 0.58
   2 ?   10.1   0.0   4.7e-05      0.85      14      57 ..     101     144 ..      99     162 .. 0.83

  Alignments for each domain:
  == domain 1  score: 3.6 bits;  conditional E-value: 0.0051
                     FtsX 49 dvllssvfsselkisidlitvliiivllllla 80
                              +l++  f ++++++i++i+ l++i ++ + +
  PHY93_06815|PHY93_06815 35 LFLGEKKFLINTDFQIQFIASLLLISIVSMSI 66
                             45555544455556665555555544443333 PP

  == domain 2  score: 10.1 bits;  conditional E-value: 4.7e-05
                     FtsX  14 kkqvlllllteillitlvalviGlglgllaaqllsdvllssvfs 57 
                              k+ + ++++  +l i+ va+++Gl  + ++a +l+ +   + ++
  PHY93_06815|PHY93_06815 101 KAFMTKVFIAVALSISSVAILWGLFYSHKIAGPLYRLQRYFTDA 144
                              78899****************************99987777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (188 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       842  (0.046963); expected 358.6 (0.02)
Passed bias filter:                      371  (0.0206927); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.18s 00:00:00.65 Elapsed: 00:00:00.38
# Mc/sec: 1489.59
//
Query:       PHY93_06820|PHY93_06820  [L=133]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.3e-15   55.7   0.0    7.8e-15   55.4   0.0    1.1  1  HIT       HIT domain
  ------ inclusion threshold ------
      0.014   15.9   0.0      0.018   15.5   0.0    1.2  1  DcpS_C    Scavenger mRNA decapping enzyme C-term binding


Domain annotation for each model (and alignments):
>> HIT  HIT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.4   0.0   8.7e-19   7.8e-15       2      97 ..      10     100 ..       9     101 .. 0.96

  Alignments for each domain:
  == domain 1  score: 55.4 bits;  conditional E-value: 8.7e-19
                              GCC-CCEEEE-SSEEEEE-SS-SSSSEEEEEESSTGCSGGGCCHHHHHHHHHHHHHHHHHHHTCTTCCCEEEEEEESGGGT-SSSS CS
                      HIT   2 keipstvvyeddlvlafldidpkapghlLvipkkhlselhdlteeelakllsavkkvakalqkkfknkglrvvinngahagqsvah 87 
                               e++s ++ e +l+ + +++d   p+++Lv++k ++ el dlt+ee+++l+++v  v + l+      +++ ++ n   +g+ v++
  PHY93_06820|PHY93_06820  10 LEKDSYLIAEMELSKLYVKNDKANPWFVLVPRKFRAVELVDLTHEEQCMLMEEVSIVSEFLKS-----FYKPTKINIGTLGNIVRQ 90 
                              689999*************************************************99999997.....899*************** PP

                              -EEEEEEC-T CS
                      HIT  88 lHiHviprre 97 
                              lHiH+i+r++
  PHY93_06820|PHY93_06820  91 LHIHIIARYD 100
                              *******986 PP

>> DcpS_C  Scavenger mRNA decapping enzyme C-term binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.5   0.0     2e-06     0.018      30     102 ..      29      98 ..      12     107 .. 0.90

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 2e-06
                              S-SSSEEEEEEESS.---SGGG--TTTTTHHHHHHHHHHHHHHHTT-T-EEEEE--SCCCT--S-S--EEEEE. CS
                   DcpS_C  30 kpkaklhllvipkr.dikslrdLtkehlpllkemrekakkvieekynevdaeelrvgvhyqPsvyhlHlHvisl 102
                              ++ka+  ++ +p++    +l dLt+e+  +l e +  + + +++ y   ++ ++++g  +   v++lH+H+i+ 
  PHY93_06820|PHY93_06820  29 NDKANPWFVLVPRKfRAVELVDLTHEEQCMLMEEVSIVSEFLKSFY---KPTKINIGT-LGNIVRQLHIHIIAR 98 
                              5899999***********************************9999...6899***96.6789*********84 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (133 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       357  (0.0199119); expected 358.6 (0.02)
Passed bias filter:                      278  (0.0155056); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 992.24
//
Query:       PHY93_06825|PHY93_06825  [L=198]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-15   57.5   0.0    1.9e-15   56.8   0.0    1.3  1  Putative_PNPOx   Pyridoxamine 5'-phosphate oxidase
    1.3e-10   41.1   0.7    2.8e-10   40.1   0.7    1.6  1  PNP_phzG_C       Pyridoxine 5'-phosphate oxidase C-terminal d
    9.9e-09   35.7   0.0    1.6e-08   35.0   0.0    1.3  1  Pyridox_oxase_2  Pyridoxamine 5'-phosphate oxidase
  ------ inclusion threshold ------
      0.022   14.4   0.0      0.049   13.2   0.0    1.6  2  Pyrid_ox_like    Pyridoxamine 5'-phosphate oxidase like
       0.11   11.2   0.8       0.16   10.6   0.8    1.1  1  HPHLAWLY         Domain of unknown function


Domain annotation for each model (and alignments):
>> Putative_PNPOx  Pyridoxamine 5'-phosphate oxidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.8   0.0   5.2e-19   1.9e-15      10      87 ..      29     106 ..      21     107 .. 0.91

  Alignments for each domain:
  == domain 1  score: 56.8 bits;  conditional E-value: 5.2e-19
                              HHSSEEEEEEEE.TTSEEEEEEEEEEEETTTTEEEEEEETTSHHHHHHHHH-EEEEEEEETTGSEEEEEEEEEEEESCH CS
           Putative_PNPOx  10 aeskavvlATvd.edGrPnvspvllkagdgrdgivfatnadsrklrnleenprvallflddelgrgvrieGtaelvsdg 87 
                              +++ a++++T d e++rPn +++l+k   +  +i+f+tn+ s k+++l  np +al f++  + ++vri+G++ + s++
  PHY93_06825|PHY93_06825  29 QNALAMAVSTYDhEKNRPNTRYLLYKGIADN-KIIFYTNYLSPKAKELSDNPEIALGFYWHVSKKQVRIHGKVSKMSRE 106
                              56779******9788***********77777.******************************************99886 PP

>> PNP_phzG_C  Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.1   0.7   7.8e-14   2.8e-10       1      41 [.     160     198 .]     160     198 .] 0.95

  Alignments for each domain:
  == domain 1  score: 40.1 bits;  conditional E-value: 7.8e-14
               PNP_phzG_C   1 WgGyrvvPeeiEFWqgrpsRlHdRfrYereeedgkWkierL 41 
                              WgG++v P e EF+  + +Rl dRf Y+ ++  +kW+++rL
  PHY93_06825|PHY93_06825 160 WGGFLVEPYEYEFFLYGDNRLNDRFLYQLKN--HKWEVDRL 198
                              ***************************9766..69*****9 PP

>> Pyridox_oxase_2  Pyridoxamine 5'-phosphate oxidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.0   0.0   4.5e-12   1.6e-08      16      97 ..      27     101 ..      14     104 .. 0.89

  Alignments for each domain:
  == domain 1  score: 35.0 bits;  conditional E-value: 4.5e-12
                              T-GGGGEEEEEEE-T.TS-EEEEEEE---B-TT...SS-.EEEEEETTSHHHHHHH.H--EEEEEEEETTTTEEEEEEEEEE CS
          Pyridox_oxase_2  16 kkkkstefqlaTvdeeegkPrvRtvvfRgfleekkeesdvltfttDvrseKvkqlessnaaveavfylketreQfRisGkaf 97 
                               ++++  ++++T d+e+++P++R++ ++g  ++k      + f t   s+K+k+l+ +n+++ + fy + +++Q Ri+Gk+ 
  PHY93_06825|PHY93_06825  27 IEQNALAMAVSTYDHEKNRPNTRYLLYKGIADNK------IIFYTNYLSPKAKELS-DNPEIALGFYWHVSKKQVRIHGKVS 101
                              467888999*****99**************9973......99**************.9*********************985 PP

>> Pyrid_ox_like  Pyridoxamine 5'-phosphate oxidase like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   1.4e-05     0.049      16      84 ..      33     102 ..      22     114 .. 0.74
   2 ?   -1.1   0.0      0.36   1.3e+03      65      99 ..     111     146 ..      99     149 .. 0.52

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.4e-05
            Pyrid_ox_like  16 amLttteadgklksrPMa...tqkveedgdlwfltkkdsdkvkeirkdsqvnlafsdeskkkyvsvsGtaev 84 
                              am + t   ++ k rP +    +k   d+++ f+t+  s k+ke++ ++++ l f  + +kk v ++G+++ 
  PHY93_06825|PHY93_06825  33 AMAVSTY--DHEKNRPNTrylLYKGIADNKIIFYTNYLSPKAKELSDNPEIALGFYWHVSKKQVRIHGKVSK 102
                              5544443..33355555411134556799*************************9999999*******9874 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.36
            Pyrid_ox_like  65 lafsdeskkkyvs.vsGtaevvedrakieelWspvv 99 
                               + s   +++ +s +s + ev +d+a + e ++++v
  PHY93_06825|PHY93_06825 111 YFHSRDRESQIASyLSHQSEVIKDKASLLEKFKATV 146
                              444433333333324555677777777777776655 PP

>> HPHLAWLY  Domain of unknown function
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.8   4.4e-05      0.16     512     568 ..      88     144 ..      86     149 .. 0.91

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 4.4e-05
                 HPHLAWLY 512 hisktqdksleeassistsDlsssqwteekenqiDqnsmhnskvikrgqdisvklkt 568
                              h+sk q ++   +s++s  D +s   + ++e+qi     h+s+vik +     k k+
  PHY93_06825|PHY93_06825  88 HVSKKQVRIHGKVSKMSREDSASYFHSRDRESQIASYLSHQSEVIKDKASLLEKFKA 144
                              9********************9999*********************99888777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (198 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       636  (0.0354733); expected 358.6 (0.02)
Passed bias filter:                      440  (0.0245412); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.39
# Mc/sec: 1510.44
//
Query:       PHY93_06830|PHY93_06830  [L=376]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.7e-24   85.0   0.1    1.9e-22   79.7   0.1    2.3  1  tRNA_U5-meth_tr  tRNA (Uracil-5-)-methyltransferase
    1.4e-10   41.0   0.0    2.6e-10   40.1   0.0    1.4  1  MTS              Methyltransferase small domain
    1.4e-07   32.1   0.0    3.6e-07   30.8   0.0    1.7  1  Methyltransf_25  Methyltransferase domain
    5.1e-06   26.4   0.0    9.2e-06   25.5   0.0    1.4  1  Methyltransf_31  Methyltransferase domain
    1.8e-05   25.3   0.0    3.4e-05   24.4   0.0    1.5  1  Methyltransf_11  Methyltransferase domain
    7.7e-05   22.3   0.4     0.0099   15.5   0.0    2.2  2  Methyltransf_15  RNA cap guanine-N2 methyltransferase
    0.00022   20.9   0.0    0.00038   20.2   0.0    1.3  1  Cons_hypoth95    Conserved hypothetical protein 95
     0.0021   17.7   0.0      0.005   16.5   0.0    1.5  1  NodS             Nodulation protein S (NodS)
     0.0025   18.5   0.0     0.0053   17.5   0.0    1.5  1  Methyltransf_12  Methyltransferase domain
  ------ inclusion threshold ------
      0.011   15.1   0.0       0.03   13.8   0.0    1.6  1  TehB             Tellurite resistance protein TehB
      0.013   15.1   0.0      0.021   14.3   0.0    1.3  1  DOT1             Histone methylation protein DOT1
      0.024   14.4   0.1      0.038   13.7   0.1    1.4  1  Met_10           Met-10+ like-protein
       0.04   13.7   0.1      0.098   12.4   0.1    1.6  1  DUF777           Borrelia burgdorferi protein of unknown func
      0.041   13.7   0.0      0.072   12.9   0.0    1.4  1  Methyltransf_23  Methyltransferase domain


Domain annotation for each model (and alignments):
>> tRNA_U5-meth_tr  tRNA (Uracil-5-)-methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.7   0.1   1.5e-25   1.9e-22      33     352 ..      54     373 ..      20     376 .] 0.71

  Alignments for each domain:
  == domain 1  score: 79.7 bits;  conditional E-value: 1.5e-25
          tRNA_U5-meth_tr  33 ehyrlraefrlwheeddlyyimfdqktkkkirvdefdaaselinelmkallaalkqde....klreklfqvdfl......stlsge 108
                                 r +a f ++ +e++l +  ++  + +   ++  ++    in l++ l + lk+ +     l++k  ++++l      s  s e
  PHY93_06830|PHY93_06830  54 TESRSKAKFAVFTQENELTFGFYHS-DGTPRELELCPLHADGINLLLPGLREILKKYKinpyDLKTKTGELKYLllsksgSKDSSE 138
                              4468999999999999998876655.455667889999999999999988887776432223699999999998443322223445 PP

          tRNA_U5-meth_tr 109 llvslly.hkklddewkeaaealkdkleaqeldvnlig....rarkkkivldkdyv.eeklevadr..elvyrqvensftqPnaav 186
                               l+ ++   k+  d+ k+a+ ++ +     + ++++i+      ++  i  d++ v +  l +  +  e++      sf q   ++
  PHY93_06830|PHY93_06830 139 FLLRFVLrSKESLDRLKKATVEMLA----MSSEIKVITaniqPIHQAIIEGDEEIVlTSDLAIIHQfdEFQLALGARSFFQVTPQI 220
                              5554433133333333444333333....122333333000033333444455544256777766522666667789********* PP

          tRNA_U5-meth_tr 187 nekmleWale.vtqeskgdllelycGnGnfslalarnfekvlateiakssveaaqyniaankidnvqiirlsaeeltealkkkref 271
                              ++++   + + v+ ++   l++lycG G fs+  +r+   +   ei+k +++ a++ +  nk  n+++  +  ee+ + + k    
  PHY93_06830|PHY93_06830 221 AQRLYSAVADsVLVDAPLSLIDLYCGVGAFSFYASRHCPDITGVEISKEAIDCAKKSVLINK-SNIDFYAMDVEEYLKKFPK---- 301
                              ****99887636778888******************************************98.79**********9765443.... PP

          tRNA_U5-meth_tr 272 rrlkgidlksyafetifvdPPraGldketvklvkky..erilyiscnPetlkenleelsethrverlalfdqfpythhlesGv 352
                                         +fe+++v+PPr Gl+++++k++++   + i y scn  t++ +++els  ++++ l +fd fpyt h e+ +
  PHY93_06830|PHY93_06830 302 -----------KFEAVLVNPPRRGLNSAIIKMIESIapQFIYYSSCNALTMARDFSELSAHYQIQSLQIFDMFPYTAHYETLM 373
                              ...........5899******************987324688899**********************************9865 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.1   0.0     2e-13   2.6e-10      34     109 ..     239     314 ..     226     331 .. 0.87

  Alignments for each domain:
  == domain 1  score: 40.1 bits;  conditional E-value: 2e-13
                              EEEEET-TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHTTGCEEEEE-STTTTST..TS-EEEEEE---STT CS
                      MTS  34 kvlDlGcGaGvlgaalakespeaevtlvdvdarAlesakenleanklevevvasdvleeve..ekkfdlivsNPPfha 109
                              +++Dl cG+G+ +  + +++p+  +t v+++++A+++ak+ +  nk +++++a dv e ++  +kkf++++ NPP + 
  PHY93_06830|PHY93_06830 239 SLIDLYCGVGAFSFYASRHCPD--ITGVEISKEAIDCAKKSVLINKSNIDFYAMDVEEYLKkfPKKFEAVLVNPPRRG 314
                              479*******************..9*******************************99887567***********654 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.8   0.0   2.8e-10   3.6e-07       2      70 ..     241     308 ..     240     327 .. 0.89

  Alignments for each domain:
  == domain 1  score: 30.8 bits;  conditional E-value: 2.8e-10
                              EEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTTTEEEEESBCCG.BSSSTTTEEEEEE CS
          Methyltransf_25   2 LdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeeglnvefvqgdaed.lpfedgsfDlvvs 70 
                              +dl cG G +++++++++   ++tgv+is+e+++ a++ +  ++ n++f+ +d+e+ l+   ++f +v++
  PHY93_06830|PHY93_06830 241 IDLYCGVGAFSFYASRHC--PDITGVEISKEAIDCAKKSVLINKSNIDFYAMDVEEyLKKFPKKFEAVLV 308
                              5899*************9..7*******************99999*********8857766679999987 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.5   0.0   7.2e-09   9.2e-06       5      81 ..     238     309 ..     235     356 .. 0.83

  Alignments for each domain:
  == domain 1  score: 25.5 bits;  conditional E-value: 7.2e-09
          Methyltransf_31   5 lrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielArenaqklgldnveFeqgdiee.leklledekfDlilsn 81 
                              l+++Dl CG G+++f +  + +p  +++G++is+eai  A++    +++ n+ F + d+ee l+k +  +kf  +l n
  PHY93_06830|PHY93_06830 238 LSLIDLYCGVGAFSFYAS-RHCP--DITGVEISKEAIDCAKKSVLINKS-NIDFYAMDVEEyLKK-FP-KKFEAVLVN 309
                              689*************99.7777..688**************7666666.899********8886.66.899999887 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.4   0.0   2.7e-08   3.4e-05       2      67 ..     242     308 ..     241     310 .. 0.89

  Alignments for each domain:
  == domain 1  score: 24.4 bits;  conditional E-value: 2.7e-08
                              EET-TTSHHHHHHHHTTSEEEEEES-HHHHHHHHHHCCHHT-EEEETTEECCC.T.SS-TT-EEEEEE CS
          Methyltransf_11   2 dvGcGtGrlaealakrgarvvgvDlskemlklakekaseeglkvefvvadaek.l.pfednsfDlvvs 67 
                              d+ cG G+++ +  +++ +++gv++ske++++ak+ +  ++ +++f  +d+e+ l +f++ +f +v++
  PHY93_06830|PHY93_06830 242 DLYCGVGAFSFYASRHCPDITGVEISKEAIDCAKKSVLINKSNIDFYAMDVEEyLkKFPK-KFEAVLV 308
                              667******************************9999999999*********96656887.8888875 PP

>> Methyltransf_15  RNA cap guanine-N2 methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.2     0.015        19      89     156 ..     111     180 ..     107     184 .. 0.82
   2 !   15.5   0.0   7.7e-06    0.0099       4      83 ..     240     314 ..     238     318 .. 0.89

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.015
          Methyltransf_15  89 qekfdlkkklkplkleqllkeslklskniil.fLPr.nsdlnqlaaltaevlekaakvkvveikenglvk 156
                               + +dlk+k  +lk   l k+ +k s +++l f  r +  l+ l++ t e+l  ++ +kv++ + +   +
  PHY93_06830|PHY93_06830 111 INPYDLKTKTGELKYLLLSKSGSKDSSEFLLrFVLRsKESLDRLKKATVEMLAMSSEIKVITANIQPIHQ 180
                              578***99******99999999999998884355551678********************9988776555 PP

  == domain 2  score: 15.5 bits;  conditional E-value: 7.7e-06
          Methyltransf_15   4 ilDlfsGaGGnviqfalvfekviaieinleklacaqhNaevYgvsdkitlvlgdvfellaklklekikvdlvflSpPwGG 83 
                              ++Dl++G G  +    ++ + + ++ei++e + ca++   +   +++i++   dv+e l+k+  +   ++ v++ pP  G
  PHY93_06830|PHY93_06830 240 LIDLYCGVGAFSFYASRHCPDITGVEISKEAIDCAKKSVLIN--KSNIDFYAMDVEEYLKKFPKK---FEAVLVNPPRRG 314
                              79*******999999999*******************99999..9***************97543...468999999876 PP

>> Cons_hypoth95  Conserved hypothetical protein 95
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.2   0.0   2.9e-07   0.00038      44     126 ..     239     315 ..     221     357 .. 0.82

  Alignments for each domain:
  == domain 1  score: 20.2 bits;  conditional E-value: 2.9e-07
                              EEEETT-TTSHHHHHHHHTT-SEEEEEES-HHHHHHHHHHHCCCT--TTTEEEEES-HHHHCTS--SS-EEEEEEE--SSSTT CS
            Cons_hypoth95  44 rvLDlfaGsGalglEAlSRgakkavlvekdkeavkilkenleelkleeetaelkedaleallklakkkeefdivflDPPyake 126
                              +++Dl++G Ga ++ A SR +  ++ ve +kea+   k+ +   k  ++++ + +d +e l+k +   ++f+ v ++PP +  
  PHY93_06830|PHY93_06830 239 SLIDLYCGVGAFSFYA-SRHCPDITGVEISKEAIDCAKKSVLINK--SNIDFYAMDVEEYLKKFP---KKFEAVLVNPPRRGL 315
                              579***********87.******************9999987666..459999999999998884...56*********6543 PP

>> NodS  Nodulation protein S (NodS)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   3.9e-06     0.005      47     110 ..     240     306 ..     220     310 .. 0.80

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 3.9e-06
                     NodS  47 alevGcaaGalterlapyckrltvvdvveeaiararerv.kesshiswivsdvqqfstd..ekfdli 110
                               +++ c  Ga++   + +c  +t v++ +eai+ a++ v  ++s+i +   dv+++ ++  +kf+ +
  PHY93_06830|PHY93_06830 240 LIDLYCGVGAFSFYASRHCPDITGVEISKEAIDCAKKSVlINKSNIDFYAMDVEEYLKKfpKKFEAV 306
                              57889****************************9998763578**********98754322566655 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.0   4.1e-06    0.0053       2      72 ..     242     308 ..     241     311 .. 0.86

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 4.1e-06
          Methyltransf_12   2 eiGcGtGsllralleklpdieytgvDispsaiedakeklakrennnnnnvelealdlldldggssfDlvva 72 
                              ++ cG+G+++++  ++    ++tgv+is++ai d ++k   +++ n +++  ++++ l+++++ +f +v++
  PHY93_06830|PHY93_06830 242 DLYCGVGAFSFYASRH--CPDITGVEISKEAI-DCAKKSVLINKSNIDFYAMDVEEYLKKFPK-KFEAVLV 308
                              666*************..999***********.888888888888889988888888888776.9988875 PP

>> TehB  Tellurite resistance protein TehB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.0   2.3e-05      0.03      17      84 ..     223     289 ..     209     310 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 2.3e-05
                              ---HHHHHHCCCS-S-EEEEES-TTSHHHHHHHHTT-EEEEEES-HHHHHHHHHHHHHTT-TTEEEEE CS
                     TehB  17 athsevveavkivkpgkvldlgcgqgrnslylsllgydvtawdknensiafleeikekenlknistal 84 
                              + +s v ++v +  p   +dl cg g  s+y s    d+t ++  +++i   ++   +++ + i+   
  PHY93_06830|PHY93_06830 223 RLYSAVADSVLVDAPLSLIDLYCGVGAFSFYASRHCPDITGVEISKEAIDCAKKSVLINKSN-IDFYA 289
                              67899**************************************9999999887754433322.44444 PP

>> DOT1  Histone methylation protein DOT1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0   1.7e-05     0.021      30     103 ..     224     295 ..     215     305 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.7e-05
                              HHHHHHHHTT--TT-EEEEES-TTSHHHHHHHHHH--SEEEEEE--HHHHHHHHHHHHHHHHHHHHTTB----E CS
                     DOT1  30 flsevldkvnlkkedvFvDLGSGvGnvvlqaalevgcklsvGvEimdnaselaekqkeelkkrlklfGkklaki 103
                              + s v d v ++     +DL  GvG   ++a+   +c   +GvEi+++a + a+k   ++k+ ++++ ++++++
  PHY93_06830|PHY93_06830 224 LYSAVADSVLVDAPLSLIDLYCGVGAFSFYASR--HCPDITGVEISKEAIDCAKKSVLINKSNIDFYAMDVEEY 295
                              55677777777888889*********9999886..57788***************************9998876 PP

>> Met_10  Met-10+ like-protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.1     3e-05     0.038     103     178 ..     239     312 ..     143     327 .. 0.67

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 3e-05
                              EEEETT-TTTCCHHHCCHHTTSSEEEEEES-HHHHHHHHHHHHHTT-TTCEEEEES-GGG---..TT-EEEEEE--TT CS
                   Met_10 103 vVvdvfAGiGpfaipiakyskakrvlaidlnPesvkylkeniklNkvekvvkpileDgrevir..eqladrvvmnlpk 178
                                +d++ G+G f+  +++++    + ++++  e++   k+ +  Nk +  +  + +D++e+++  +++++ v+ n p+
  PHY93_06830|PHY93_06830 239 SLIDLYCGVGAFSFYASRHC--PDITGVEISKEAIDCAKKSVLINKSN--IDFYAMDVEEYLKkfPKKFEAVLVNPPR 312
                              459***************55..558********************965..7779******998777888888877765 PP

>> DUF777  Borrelia burgdorferi protein of unknown function (DUF777)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   7.6e-05     0.098      44     120 ..     152     231 ..     143     241 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 7.6e-05
                   DUF777  44 dsetqegivvieeyedleiktrnisnlklelsegdevvllqssinifdknddnhf...dkhyfyilsaislknvtikvdk 120
                              d  ++ ++ ++    +++++t ni  ++  + egde ++l s + i ++ d+  +    + +f +   i+ +  +  +d+
  PHY93_06830|PHY93_06830 152 DRLKKATVEMLAMSSEIKVITANIQPIHQAIIEGDEEIVLTSDLAIIHQFDEFQLalgARSFFQVTPQIAQRLYSAVADS 231
                              555667778889999****************************9998887776542214566666666666655555555 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   5.6e-05     0.072      21      62 ..     235     284 ..     215     335 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 5.6e-05
          Methyltransf_23  21 raggrvLdiGcGtGillevlrengfsvtgvDlspeaveiae........k 62 
                              +a+ +++d+ cG+G ++ +++++  ++tgv++s ea++ a+        +
  PHY93_06830|PHY93_06830 235 DAPLSLIDLYCGVGAFSFYASRHCPDITGVEISKEAIDCAKksvlinksN 284
                              4566899999**********99999************9998775554442 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (376 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       533  (0.0297284); expected 358.6 (0.02)
Passed bias filter:                      442  (0.0246528); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.56u 0.24s 00:00:00.80 Elapsed: 00:00:00.42
# Mc/sec: 2711.09
//
Query:       PHY93_06835|PHY93_06835  [L=197]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.4e-12   45.7   0.1      1e-11   45.1   0.1    1.3  1  GST_N_3   Glutathione S-transferase, N-terminal domain
    1.4e-09   38.1   0.1    2.3e-09   37.4   0.1    1.4  1  GST_N     Glutathione S-transferase, N-terminal domain
    0.00012   22.4   0.1    0.00025   21.3   0.0    1.6  2  GST_N_2   Glutathione S-transferase, N-terminal domain
  ------ inclusion threshold ------
      0.085   13.2   0.0       0.22   11.8   0.0    1.7  2  Tom37     Outer mitochondrial membrane transport complex prot
       0.14   12.1   0.1        1.9    8.5   0.0    2.1  2  COX4      Cytochrome c oxidase subunit IV
       0.15   12.1   0.0       0.26   11.3   0.0    1.3  1  GerPC     Spore germination protein GerPC


Domain annotation for each model (and alignments):
>> GST_N_3  Glutathione S-transferase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.1   0.1   3.4e-15     1e-11       1      70 [.       9      78 ..       9      83 .. 0.92

  Alignments for each domain:
  == domain 1  score: 45.1 bits;  conditional E-value: 3.4e-15
                             EES-TTSHHHHHHHHHHHHHT--EEEE---TTTTHHHHHHH-TT--SSEEETTS-EEESHHHHHHHHHHH CS
                  GST_N_3  1 LygfpaSpyarrvrlaLnekglpvevvevtpgehdeellaknplgkvPvLeddgealtdSlaIidyLeel 70
                             L+g+ +Spy+r++rl+L+   ++ +vv+  ++  +e l+ +np +k+PvL d+++ + dS+ I  yL ++
  PHY93_06835|PHY93_06835  9 LIGSLTSPYVRKIRLLLHGTPYELKVVNYLEEAGNEYLKSINPVNKLPVLIDGDKTILDSRIIYYYLAHK 78
                             89999************999888888888888889999*****************************876 PP

>> GST_N  Glutathione S-transferase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.4   0.1   7.8e-13   2.3e-09       3      75 ..       7      76 ..       5      77 .. 0.87

  Alignments for each domain:
  == domain 1  score: 37.4 bits;  conditional E-value: 7.8e-13
                             EEEESSSTSHTHHHHHHHHHHTT-EEEEEEECSTTTCGGCHHHHHHCTTS-SSEEEETTEEEESHHHHHHHHH CS
                    GST_N  3 ltlysirgsprahrirlllaakgveyevvpldfeageekspellklnplgkvPaLedngkkltESraIleYia 75
                             +tl + ++sp++ +irlll  +  e +vv++  eag    + l+++np  k+P+L+d++k++  Sr+I +Y+a
  PHY93_06835|PHY93_06835  7 YTLIGSLTSPYVRKIRLLLHGTPYELKVVNYLEEAGN---EYLKSINPVNKLPVLIDGDKTILDSRIIYYYLA 76
                             6777788899999******999999999999866665...56999**************************98 PP

>> GST_N_2  Glutathione S-transferase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.0   8.3e-08   0.00025       2      68 ..      15      76 ..      14      78 .. 0.80
   2 ?   -2.8   0.0       2.8   8.3e+03      14      28 ..     126     140 ..     120     150 .. 0.59

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 8.3e-08
                             -HHHHHHHHHHHHCT--EEEEEE.H...-TTSHHHHHHHHCTTTSSSEEE-CTTEEEESHHHHHHHHH CS
                  GST_N_2  2 CPwahRvlialalkglediisvv.vlepkgfekseefprlnprgtVPvLwdkdgqvineSseIlryle 68
                             +P++++++++l  +g +++++vv  le+ g   +e ++ +np  ++PvL+d + + i +S+ I  yl+
  PHY93_06835|PHY93_06835 15 SPYVRKIRLLL--HGTPYELKVVnYLEEAG---NEYLKSINPVNKLPVLID-GDKTILDSRIIYYYLA 76
                             89999999885..7********93333333...244789***********9.6699*****9999987 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 2.8
                              HCT--EEEEEEH... CS
                  GST_N_2  14 lkglediisvvvlep 28 
                                ++++i +++ ++ 
  PHY93_06835|PHY93_06835 126 KARIPHIMNFLTPWV 140
                              556777777774433 PP

>> Tom37  Outer mitochondrial membrane transport complex protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   7.4e-05      0.22      25      76 ..      48      94 ..      32     112 .. 0.73
   2 ?   -1.8   0.0       1.2   3.5e+03     117     122 ..     134     139 ..     114     164 .. 0.57

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 7.4e-05
                    Tom37 25 slsptgeLPaLkdgegtwisgfdnIveylrkkseesdldaslsakekadatA 76
                             s+ p ++LP+L+dg+ ++i + + I  yl +k+ ++   ++l+ +e+   tA
  PHY93_06835|PHY93_06835 48 SINPVNKLPVLIDGD-KTILDSRIIYYYLAHKN-KW---RELTVDEENILTA 94
                             458999*******99.89999999999**9884.44...4555544444333 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 1.2
                    Tom37 117 nyilpl 122
                              n+++p+
  PHY93_06835|PHY93_06835 134 NFLTPW 139
                              333333 PP

>> COX4  Cytochrome c oxidase subunit IV
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.0       0.1     3e+02      36      49 ..      77      90 ..      75      98 .. 0.82
   2 ?    8.5   0.0   0.00064       1.9      12      61 ..     124     172 ..     114     183 .. 0.79

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.1
                     COX4 36 ekgdWkeLsleEkk 49
                              k+ W eL+ +E  
  PHY93_06835|PHY93_06835 77 HKNKWRELTVDEEN 90
                             5899*******976 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.00064
                     COX4  12 rwenplpdirf.reqseeikaLkekekgdWkeLsleEkkalyrisFgqtlp 61 
                              r +  +p     + +++ +k+L ek  + W+ L++     ly+ +F++ l+
  PHY93_06835|PHY93_06835 124 RQKARIP--HImNFLTPWVKTLDEKNPAHWNFLTMSLYSYLYWGEFREMLS 172
                              5555555..2236688999***************************99876 PP

>> GerPC  Spore germination protein GerPC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   8.8e-05      0.26      95     170 ..      34     107 ..      26     109 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 8.8e-05
                    GerPC  95 apelleelekqyeveldeeyrefileDi.kkQldsRikyYlkqvaaeeeeepeeeelkeeilekvkkdiekavekfl 170
                              + + lee+ ++y +++++ ++  +l D  k  ldsRi yY   ++++ +e  ++   +e+il+++   ++++++ f+
  PHY93_06835|PHY93_06835  34 VVNYLEEAGNEYLKSINPVNKLPVLIDGdKTILDSRIIYYYLAHKNKWRELTVD---EENILTAIDGAMDSSISLFM 107
                              456778888888888888887766666515567***998877434444444444...579******99999999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (197 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       402  (0.0224218); expected 358.6 (0.02)
Passed bias filter:                      366  (0.0204139); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 1498.59
//
Query:       PHY93_06840|PHY93_06840  [L=426]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   6.4e-116  387.3   0.0   7.3e-116  387.2   0.0    1.0  1  DUF1704   Domain of unknown function (DUF1704)


Domain annotation for each model (and alignments):
>> DUF1704  Domain of unknown function (DUF1704)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  387.2   0.0  4.1e-120  7.3e-116       4     364 ..      41     408 ..      37     409 .. 0.99

  Alignments for each domain:
  == domain 1  score: 387.2 bits;  conditional E-value: 4.1e-120
                  DUF1704   4 faskakelPevkyr..klkfdpealkrelyelrreiied....ealkkllrekveeyeevvrmLeargtkeFlenSlelYGspsda 83 
                              +++k+ke P+++yr  +lk+dp+++ +e++elr +i+++    ++l+ +l +++ +ye+vvrmL +rg++eF+++S++lYG p++ 
  PHY93_06840|PHY93_06840  41 IKNKFKEMPKIDYRdhPLKYDPDKKLQEFRELRLKITKElgsnDPLGAILIRNCLQYEDVVRMLVNRGKPEFYDYSKKLYGGPTEL 126
                              478***********99**********************99*99******************************************* PP

                  DUF1704  84 leageptllelaefllealselaeeeleeeeekelsaeeaaellqeeleayfeefevkvelsddlvadaavgadrikirknakfse 169
                              +++g+++l +la+ +  +l++l+e +l e  ek+++ae+++e+l  +l+ +f++ ++k++lsd++++da++g+d+iki+k+++fs+
  PHY93_06840|PHY93_06840 127 MNDGKTKLSDLASIMNTLLDSLHESQLGEIYEKNMTAEAVVEQLTIRLQGFFKGENIKIKLSDGIISDASAGSDYIKIKKGMMFSK 212
                              ************************************************************************************** PP

                  DUF1704 170 rdleaLiqHEigvHvlTtlNGraQpklkvLskGlpgttetQEGLAvlaElltgsltleRlrrlanRViAvdsalkgadFlevfrll 255
                              rdl+  ++HE++vH++TtlNG +Qp++k+LskG p +t+tQEGLAv +El+ ++l ++R++rl++R iA+++a++ga++le   ++
  PHY93_06840|PHY93_06840 213 RDLDIFEVHEGWVHLGTTLNGLNQPYAKWLSKGPPCSTVTQEGLAVTMELFNFALFPRRAKRLNDRLIACQMAEEGANLLELIAFF 298
                              ************************************************************************************** PP

                  DUF1704 256 keeglseeeafeitqRvfRGgtvegg.gftKDalYlkGllevlnflrsavaegrleslelLfvGKlaledlpllkelvergllekp 340
                              +++g+ +++a +++ R+fRG+ +egg +ftKD++YlkG++ ++nf+r+ ++egr++ ++ Lf+GK +ledlp+l++ +++g+++ p
  PHY93_06840|PHY93_06840 299 RDKGQADQQAIRNSGRIFRGASLEGGsPFTKDIAYLKGFVMIYNFMRTTIKEGRADLIPFLFTGKATLEDLPVLYNYHQEGVISLP 384
                              ************************************************************************************** PP

                  DUF1704 341 kylppafkdlkelaallafslfll 364
                              kylpp+++dl++la ++afs+fl+
  PHY93_06840|PHY93_06840 385 KYLPPQIRDLNGLAIWMAFSNFLN 408
                              *********************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (426 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       498  (0.0277762); expected 358.6 (0.02)
Passed bias filter:                      438  (0.0244297); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.23s 00:00:00.80 Elapsed: 00:00:00.41
# Mc/sec: 3129.92
//
Query:       PHY93_06845|PHY93_06845  [L=303]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (303 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       576  (0.0321267); expected 358.6 (0.02)
Passed bias filter:                      342  (0.0190752); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.19s 00:00:00.70 Elapsed: 00:00:00.39
# Mc/sec: 2314.03
//
Query:       PHY93_06850|PHY93_06850  [L=194]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      1e-11   44.8   0.0    8.2e-10   38.6   0.0    2.1  1  FMN_red       NADPH-dependent FMN reductase
  ------ inclusion threshold ------
      0.027   14.2   0.0      0.081   12.6   0.0    1.8  1  Flavodoxin_2  Flavodoxin-like fold


Domain annotation for each model (and alignments):
>> FMN_red  NADPH-dependent FMN reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.6   0.0   9.1e-14   8.2e-10       2     144 ..       7     131 ..       6     141 .. 0.87

  Alignments for each domain:
  == domain 1  score: 38.6 bits;  conditional E-value: 9.1e-14
                              EEEEEES--S.TT-HHHHHHHHHHCCT-T.T-CEEEEETTTS.--..---HCHGHTCGGSHHHHHHHHHHHH-SCEEEEEEECTTC CS
                  FMN_red   2 kilvisGSlr.kgsntrklaewaaealkeagaevelidladlilpcalcdkdlesegqtsddvaellekiaaadaliivtPeYngs 86 
                              +il+i+GSl  + +nt  l+e a++ l +++a++++++l +   +                  ++l++k+ +ad++i+ + +Y+ s
  PHY93_06850|PHY93_06850   7 NILIINGSLGgAIGNTSVLIESAQKYLGQHEANIDILHLEEN--Q------------------NDLKNKLSWADGFIFTSGTYWDS 72 
                              69*******9788**************************993..3..................46899****************** PP

                              E-HHHHHHHHCHT-.SSCHCCTT-EEEEEEE-SSTTTTHHHHHHHHHHHH.H.TT-EEEE CS
                  FMN_red  87 ysgllKnalDrlsrtrgkkelrgKpvalvavgggrrgglraeeqlrqvla.e.lgaivvp 144
                                +++ ++l+ +     ++ +  Kp+ ++ +  +  gg ++ + l  vl+ + l   +++
  PHY93_06850|PHY93_06850  73 WGSPMQRFLETCTQYEASDLFLYKPASVMITMHS-VGGKGVLSRLQGVLNtMgLAIPPMS 131
                              ************9889999999*******88855.9**************4434444444 PP

>> Flavodoxin_2  Flavodoxin-like fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0     9e-06     0.081       1     108 [.       6      89 ..       6     131 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 9e-06
                              -EEEEEE--TTGGCCHHHCHHHHHHHHHCCCTTTEEEEEEHHCCT-----CCCCHCCHHHHTTCHHHHHHHHHHHHCSSEEEEEEE CS
             Flavodoxin_2   1 mkiLiinahprpeksfssalaqafvealekagphevtvrdLyadflpvlttrdlaaklayeekpadveseqiekllaadaivlqfP 86 
                              ++iLiin++  ++  ++s l +++ + l +++ +++++++L +                +          +  kl +ad  ++ + 
  PHY93_06850|PHY93_06850   6 KNILIINGSLGGAIGNTSVLIESAQKYLGQHE-ANIDILHLEEN---------------Q-------NDLK-NKLSWADGFIFTSG 67 
                              689*******9977999999999999999999.89******993...............2.......3355.79************ PP

                              -BTTB--HHHHHHHHHHS-TTT CS
             Flavodoxin_2  87 lwwfgvPailKgwiDrvltagf 108
                               +w +  + ++ +++   ++  
  PHY93_06850|PHY93_06850  68 TYWDSWGSPMQRFLETCTQYEA 89 
                              ***9999999999998766554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (194 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       452  (0.0252106); expected 358.6 (0.02)
Passed bias filter:                      401  (0.022366); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 1405.03
//
Query:       PHY93_06855|PHY93_06855  [L=301]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.1e-50  170.4   0.0    6.1e-49  166.6   0.0    1.9  1  ECH_1     Enoyl-CoA hydratase/isomerase
    1.2e-13   51.3   0.0    2.3e-13   50.3   0.0    1.5  1  ECH_2     Enoyl-CoA hydratase/isomerase


Domain annotation for each model (and alignments):
>> ECH_1  Enoyl-CoA hydratase/isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  166.6   0.0   6.9e-53   6.1e-49       4     249 ..      30     297 ..      28     299 .. 0.87

  Alignments for each domain:
  == domain 1  score: 166.6 bits;  conditional E-value: 6.9e-53
                              TTEEEEEE--CGCTTEE-HHHHHHHHHHHHHHHHSTTECEEEEEE.BTS......EEEEEB-HHHHHHHHC....HHHHHH..... CS
                    ECH_1   4 agvaviklnrPeavNalsaelltEliqalekleddksvravvLtG.gdk......aFaaGadlkemaeeek....akqall..... 73 
                              +g + i +nrPe+ Na+ +++++El  al +++ +  v++v LtG g+       aF++G+d++ + + ++    a+ + +     
  PHY93_06855|PHY93_06855  30 QGTVRIAINRPEVRNAFRPQTVDELYFALDHARVSADVGVVLLTGnGPSpkdagwAFCSGGDQRIRGKDGYkyegADSNGTgnskv 115
                              567899***************************************87655566669*******98877766443322222211111 PP

                              ......HCCHHHHHHHHHHSSSEEEEEE-SEEETHHHHHHHHSSEEEEETT.TEEE-GGGGGTS--CTTCHHHHHHHHHHHHHHHH CS
                    ECH_1  74 ......keevlelwtklytvpkpviaavnGaaigGGlelalacDiviaadn.asfglnelklGlipgaggtqilarkvGkskAeei 152
                                    + ++le +++++ +pk+v+a v G a+gGG+ l+++cD++ a+++ a f ++ + + +++  +g+ +lar vG+++A+ei
  PHY93_06855|PHY93_06855 116 dlgrlgRLHILEVQRLIRFMPKIVVAVVPGWAVGGGHSLHVVCDLTLASQEhAIFKQTDADVASFDSGYGSAYLARMVGQKRAREI 201
                              11111144567889999*******************************987366******************************** PP

                              HHHT-EEEHHHHHHCTSSSEEESGGGHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHH.HHHHHHHHHHHHHHHHHCTSHHHHHHH CS
                    ECH_1 153 lllgkkisaqealkvGlvdkvvpeeqlleealelaeklaekspaalrqlkealnakle.dalaeqleaeaklfestfskddikeGl 237
                                lg++++aqea ++G+v++v+p+++l++ al +a+++++ksp+a+r+lk  +n   +    ++ ++ ea+ + + ++++   eG+
  PHY93_06855|PHY93_06855 202 FFLGRNYTAQEAFDMGMVNAVIPHKELENVALDWAREMNSKSPTAMRMLKYGFNMIDDgLVGQQLFAGEATRLAYGTEEAM--EGR 285
                              *******************************************************9999************9999998866..*** PP

                              HHHHTCSH---- CS
                    ECH_1 238 qaflEkrkpefe 249
                              +af+Ekr  +f 
  PHY93_06855|PHY93_06855 286 NAFVEKRARDFS 297
                              *******99886 PP

>> ECH_2  Enoyl-CoA hydratase/isomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.3   0.0   2.6e-17   2.3e-13       3     187 ..      34     238 ..      32     259 .. 0.83

  Alignments for each domain:
  == domain 1  score: 50.3 bits;  conditional E-value: 2.6e-17
                              EEEE--GGGTT-B-HHHHHHHHHHHHHHCC-TT-SEEEEEESSSS......ECE--B--HHHHHHHHCS..........-THH... CS
                    ECH_2   3 vitLnrpkalNaLslemvralkealkewekddevklvvlkgagek......afCAGgDvralyeaakeg..........kkee... 69 
                              +i +nrp+  Na   + v++l  al++ + + +v +v+l+g+g+       afC+GgD r   ++  +           +  +   
  PHY93_06855|PHY93_06855  34 RIAINRPEVRNAFRPQTVDELYFALDHARVSADVGVVLLTGNGPSpkdagwAFCSGGDQRIRGKDGYKYegadsngtgnS--Kvdl 117
                              6899**************************************988889999*******7766555544444555554321..2223 PP

                              .HHHHHHHHHHHHHHHC-SS-EEEEE-BEEETHHHHHHTTSSEEEE-.TT-EEE--GGGGT----TTHHHHHHCSST.THHHHHHH CS
                    ECH_2  70 .eeffreeYklnyliatypkpvvalmdGivmGgGvGlsvhgsfrvvt.ertvfAmPEtaIGlfPDvGgsyfLsrlpg.elGlylal 152
                               +    +  +++ li  +pk vva++ G ++GgG +l v + +  ++ e+++f   +  +  f    gs +L+r+ g + ++ +  
  PHY93_06855|PHY93_06855 118 gRLGRLHILEVQRLIRFMPKIVVAVVPGWAVGGGHSLHVVCDLTLASqEHAIFKQTDADVASFDSGYGSAYLARMVGqKRAREIFF 203
                              222333567899*********************************9836679***********88889999***966588999999 PP

                              H---B-HHHHHHTTS--EE--GGGHHHHHHHHHTT CS
                    ECH_2 153 TGarlkgadalaaglathyvpseklealeeaLael 187
                               G++ ++++a+ +g+ + ++p+++le+++ + a+ 
  PHY93_06855|PHY93_06855 204 LGRNYTAQEAFDMGMVNAVIPHKELENVALDWARE 238
                              9*************************998665554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (301 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       291  (0.0162307); expected 358.6 (0.02)
Passed bias filter:                      278  (0.0155056); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.25s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 2225.37
//
Query:       PHY93_05470|PHY93_05470  [L=310]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.8e-51  171.2   0.1    1.1e-50  170.7   0.1    1.2  1  SelR             SelR domain
    2.7e-40  137.9   8.2    2.7e-40  137.9   8.2    2.0  2  UPF0093          Uncharacterised protein family (UPF0093)
  ------ inclusion threshold ------
      0.058   13.6   0.1       0.13   12.4   0.1    1.7  1  Yippee-Mis18     Yippee zinc-binding/DNA-binding /Mis18, cent
      0.084   12.8  10.9        1.4    8.8   4.9    2.7  3  DUF2975          Protein of unknown function (DUF2975)
       0.52   10.7   3.2       0.58   10.6   0.4    2.4  3  Ycf70            Uncharacterized Ycf70-like
        3.3    8.5   7.2    1.7e+02    3.1   6.0    3.0  2  Cadherin_C_2     Cadherin cytoplasmic C-terminal
          8    6.4   6.2         18    5.3   1.3    2.4  2  RseC_MucC        Positive regulator of sigma(E), RseC/MucC


Domain annotation for each model (and alignments):
>> SelR  SelR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  170.7   0.1   4.3e-54   1.1e-50       1     119 [.     192     309 ..     192     310 .] 0.98

  Alignments for each domain:
  == domain 1  score: 170.7 bits;  conditional E-value: 4.3e-54
                              HHHCTSHCCHHHHHHHTT-SSTTSSSTSS--SSCEEEETTTS-EEEECCCCE-STTSSSEESS-STTTTEEEEEEECTTSEEEEEE CS
                     SelR   1 elkkkLtpeqyevlrekgterpftgeyekekekGvyecavcgepLfssetkfdsgcGwpsFaeaikeeavkekkdtslgmertevv 86 
                              ++k+kL++e+y++lr  gterpf gey+ ++e+G+y+ca+cg++Lfssetk+dsg+Gwp+F+++i +++++  +d+slgm+r+ev+
  PHY93_05470|PHY93_05470 192 DWKTKLNEEEYKILRMCGTERPFAGEYYLFFESGIYTCAGCGHELFSSETKYDSGSGWPAFYDVIGTKNIRLIEDQSLGMKRVEVR 277
                              69************************************************************************************ PP

                              ETTCECEEEEEECTSSSSS.SEEEEE-CCCEEE CS
                     SelR  87 cakcdahlGhvFedgpkpttgkrycinsvslkf 119
                              c+ cd+hlGhvFedgp+pt g+rycins++lk+
  PHY93_05470|PHY93_05470 278 CSYCDSHLGHVFEDGPRPT-GLRYCINSIALKH 309
                              *****************95.***********96 PP

>> UPF0093  Uncharacterised protein family (UPF0093)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  137.9   8.2   1.1e-43   2.7e-40       4     145 ..       2     146 ..       1     147 [. 0.92
   2 ?    1.4   0.2      0.13   3.4e+02      13      50 ..     147     184 ..     146     190 .. 0.81

  Alignments for each domain:
  == domain 1  score: 137.9 bits;  conditional E-value: 1.1e-43
                  UPF0093   4 lylwikalHiiavisWmAglfyLpRlfVyhaeakeks.eekevlk....imerrLlkiimtpamiltlvlGllllalaeglvalss 84 
                               yl +k+lHii+v++W+Aglfy+pRlfVy aea++k+ +ek++l+    im+rrL++ i++p++i++l++G  +la++  +  ++ 
  PHY93_05470|PHY93_05470   2 NYLVFKSLHIISVVTWFAGLFYMPRLFVYFAEAETKNpAEKKILQdqfkIMQRRLWYGITWPSAIAVLIFG-SILAAQF-WPITQY 85 
                              58889*****************************998788888777777**********************.5666654.556778 PP

                  UPF0093  85 gWlhvKlllvllllayhlvlaklrkklaagentksekfyrilNEvptlllivivllvvvkp 145
                               Wl +Kl +v+ll+ayh++l++++k+ ++++ + s  ++r++NE+ t+ l++iv+lvv+k+
  PHY93_05470|PHY93_05470  86 PWLVLKLGFVALLYAYHIFLHAIFKQQQNNNISFSPLALRVINEISTIFLVAIVFLVVLKN 146
                              9**********************************************************97 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.13
                  UPF0093  13 iiavisWmAglfyLpRlfVyhaeakekseekevlkime 50 
                              +++++  + glf+L+ +++  ++a +k +e+e +++ e
  PHY93_05470|PHY93_05470 147 VLSMVYGIVGLFVLVAILMIAIKAYKKIREREEFSMPE 184
                              67888889999999999999999999888888887665 PP

>> Yippee-Mis18  Yippee zinc-binding/DNA-binding /Mis18, centromere assembly
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   5.3e-05      0.13       4      85 ..     228     307 ..     225     310 .] 0.70

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 5.3e-05
                              EETTTS-EEEECCCEEEEECCCEEEES---CCCEEEECEEEETTSTTEEEEEEEETTT--EEEEEEEECSCC..CCCCCTCEEE CS
             Yippee-Mis18   4 qCkkCktilgdslqlvsegralnivvlkkvtrnvvvgkelvtdeegkctystlsCkgCnsvlGwkYksteee..lkykrglfil 85 
                               C+ C  +l  s    ++g  +  ++    t+n+++ + ++       +  +++C+ C+s+lG ++++ ++   l+y+++   l
  PHY93_05470|PHY93_05470 228 TCAGCGHELFSSETKYDSGSGWPAFYDVIGTKNIRLIEDQSLG----MKRVEVRCSYCDSHLGHVFEDGPRPtgLRYCINSIAL 307
                              5666666666666666666666666666666666666666666....66789**************998876567777776665 PP

>> DUF2975  Protein of unknown function (DUF2975)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       1.4   3.5e+03      60      73 ..      10      23 ..       5      41 .. 0.48
   2 ?    8.8   4.9   0.00053       1.4      14      75 ..      76     143 ..      59     150 .. 0.69
   3 ?    7.3   0.1    0.0015         4      18      57 ..     147     186 ..     143     190 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 1.4
                  DUF2975 60 rriglaliaaalll 73
                             + i++++ +a l +
  PHY93_05470|PHY93_05470 10 HIISVVTWFAGLFY 23
                             44443333332222 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.00053
                  DUF2975  14 aglrvpvlllgvlallafvvalvqlwk.....Llrsi.rkgevFspanvrrLrriglaliaaalllaa 75 
                              a++++p++ + +l+l   +val+ +       +++   +++  Fsp + r ++ i+ + ++a++ l++
  PHY93_05470|PHY93_05470  76 AAQFWPITQYPWLVLKLGFVALLYAYHiflhaIFKQQqNNNISFSPLALRVINEISTIFLVAIVFLVV 143
                              5667775555555555555555554444444455554155778*************999999666555 PP

  == domain 3  score: 7.3 bits;  conditional E-value: 0.0015
                  DUF2975  18 vpvlllgvlallafvvalvqlwkLlrsirkgevFspanvr 57 
                              v+ +++g+++l+++v++l +++k  + ir+ e Fs+   +
  PHY93_05470|PHY93_05470 147 VLSMVYGIVGLFVLVAILMIAIKAYKKIREREEFSMPELK 186
                              66799*****************************986665 PP

>> Ycf70  Uncharacterized Ycf70-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.1       1.1   2.8e+03      37      59 ..      94     114 ..      83     121 .. 0.46
   2 ?   -2.0   0.1       1.9   4.9e+03      35      47 ..     131     143 ..     125     147 .. 0.58
   3 ?   10.6   0.4   0.00023      0.58      28      73 ..     145     190 ..     140     203 .. 0.85

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 1.1
                    Ycf70  37 lyalfcvflvlfiffd.sfkqesn 59 
                              + al+  +    if+   fkq+ n
  PHY93_05470|PHY93_05470  94 FVALLYAY---HIFLHaIFKQQQN 114
                              33333222...3333313565544 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 1.9
                    Ycf70  35 sglyalfcvflvl 47 
                              s ++ +  vflv+
  PHY93_05470|PHY93_05470 131 STIFLVAIVFLVV 143
                              5555555555554 PP

  == domain 3  score: 10.6 bits;  conditional E-value: 0.00023
                    Ycf70  28 eellvmvsglyalfcvflvlfiffdsfkqesnklelsgkeekkkln 73 
                              +++l mv g+  lf+++ +l+i + ++k+  ++ e+s  e k+  n
  PHY93_05470|PHY93_05470 145 KNVLSMVYGIVGLFVLVAILMIAIKAYKKIREREEFSMPELKNINN 190
                              57899*************************9999999877665444 PP

>> Cadherin_C_2  Cadherin cytoplasmic C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.0      0.84   2.1e+03       6      33 ..      88     115 ..      85     121 .. 0.80
   2 ?    3.1   6.0     0.065   1.7e+02      13      29 ..     130     146 ..     126     212 .. 0.71

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.84
             Cadherin_C_2   6 LviaLasvSflFLltvivlvavrlrker 33 
                              Lv+ L++v +l+   +++ ++++ ++++
  PHY93_05470|PHY93_05470  88 LVLKLGFVALLYAYHIFLHAIFKQQQNN 115
                              8889999999999999999888877654 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.065
             Cadherin_C_2  13 vSflFLltvivlvavrl 29 
                              +S +FL+++++lv+++ 
  PHY93_05470|PHY93_05470 130 ISTIFLVAIVFLVVLKN 146
                              899*********99986 PP

>> RseC_MucC  Positive regulator of sigma(E), RseC/MucC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.3     0.031        79      76     126 ..      67     121 ..      59     125 .. 0.61
   2 ?    5.3   1.3     0.007        18      76     124 ..     135     180 ..     130     185 .. 0.50

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.031
                RseC_MucC  76 lllilgallgsall...gssellaalgallglvlgflivr.llskrlkkkskfqp 126
                              ++li+g +l+ +++   +   l+  lg +++l+++ ++++ +++++ +++ +f+p
  PHY93_05470|PHY93_05470  67 AVLIFGSILAAQFWpitQYPWLVLKLGFVALLYAYHIFLHaIFKQQQNNNISFSP 121
                              5788888888888877444444444555566666666666244555555555555 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.007
                RseC_MucC  76 lllilgallgsallgssellaalgallglvlgflivrllskrlkkkskf 124
                              l+ i+++++ + +   s ++ ++g ++++++ ++ ++ ++k ++++++f
  PHY93_05470|PHY93_05470 135 LVAIVFLVVLKNV--LSMVYGIVGLFVLVAILMIAIKAYKK-IREREEF 180
                              2233333333333..45556555555555555555555555.4555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (310 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1409  (0.0785878); expected 358.6 (0.02)
Passed bias filter:                      703  (0.0392102); expected 358.6 (0.02)
Passed Vit filter:                        84  (0.00468515); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.63u 0.25s 00:00:00.88 Elapsed: 00:00:00.45
# Mc/sec: 2079.96
//
Query:       PHY93_06860|PHY93_06860  [L=289]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (289 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       604  (0.0336884); expected 358.6 (0.02)
Passed bias filter:                      517  (0.028836); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.43
# Mc/sec: 2029.03
//
Query:       PHY93_06865|PHY93_06865  [L=281]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-29  103.5   0.0    1.3e-29  103.3   0.0    1.1  1  ThiF             ThiF family
  ------ inclusion threshold ------
      0.028   14.5   0.0      0.065   13.3   0.0    1.6  1  Shikimate_DH     Shikimate / quinate 5-dehydrogenase
       0.27   11.5   1.8        1.1    9.5   1.8    1.9  1  Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding doma


Domain annotation for each model (and alignments):
>> ThiF  ThiF family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  103.3   0.0   2.2e-33   1.3e-29       2     147 ..       8     151 ..       7     241 .. 0.93

  Alignments for each domain:
  == domain 1  score: 103.3 bits;  conditional E-value: 2.2e-33
                              HHHHHHHHHHHHHHHHTSEEEEE--SHHHHHHHHHHHHHTTTEEEEEESSB--GGGGGTBTTS-GGGTTSBHHHHHHHHHHHT-TT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     ThiF   2 srqlallgedgqekLrdskvllvGaGglGsellknLalsGvgkltlvDnDkielsNlnRqflfreediGkpKaevaaealqeinpd 87 
                              +r++ +++e  q+k++++kv +vG+Gg G  +l+nL+++G +++ ++D D  e sN nRq   +++  G+ Kae+    ++++np 
  PHY93_06865|PHY93_06865   8 QRNIGFVNESEQDKIQKQKVYIVGVGGMGGAALMNLVRMGYENIGVADIDSFEESNINRQLFCSTDTLGMDKAEASVMMVKKLNPA 93 
                              689999999***************************************************************************** PP

                              SEEEEEES-CCGCCS-HHHHTT-SEEEEESSSHHHHHHHHHHHHHHT-EEEEEEEETTEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     ThiF  88 veveavteritdetvleellesvDlVvdalDniearrlvnracvkkgiplieagtlgfeg 147
                              v+++   +++ ++  l+e+ +++ ++v+++D i a  ++ +a++k +  +i+a t+ + +
  PHY93_06865|PHY93_06865  94 VNIKNWGHDWISK--LDEICREYPIIVNGCDDIVASNILYNAARKFKCTVIDAYTASVPS 151
                              ******9999998..69******************************9***998876655 PP

>> Shikimate_DH  Shikimate / quinate 5-dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   1.1e-05     0.065       5      42 ..      17      54 ..      14      75 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.1e-05
                             HHHS..TT-EEEEES-SHHHHHHHHHHHCCT-CEEEEE CS
             Shikimate_DH  5 kkleslkekkvlliGaGemaelvakhLlakgvkkvvva 42
                             ++ ++++++kv ++G G m+  ++ +L++ g++++ va
  PHY93_06865|PHY93_06865 17 SEQDKIQKQKVYIVGVGGMGGAALMNLVRMGYENIGVA 54
                             5567899***************************9997 PP

>> Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   1.8   0.00019       1.1       1     101 [.      27     148 ..      27     195 .. 0.80

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00019
                              EEEE--SHHHHHHHHHHHCTCCT-GEEEEEESSHHHHHHHHCHH.....................TTTCEEEEE--TTTHHHHHHH CS
          Sacchrp_dh_NADP   1 vliiGaGsvGqavaellarhfdvdaeitvadrskeklealaaka.....................lgvrfeaialdaenyeavLaa 65 
                              v i+G G++G a++  l+r +    +i vad +  +  ++  ++                     l++ ++++    + +++ L++
  PHY93_06865|PHY93_06865  27 VYIVGVGGMGGAALMNLVRMGYE--NIGVADIDSFEESNINRQLfcstdtlgmdkaeasvmmvkkLNPAVNIKNWGHDWISK-LDE 109
                              6799***************9977..9*****999998899888899999999999999999999999999999999999999.*** PP

                              HHTTSSEEEE-SSGG.GHHHHHHHHHHHT-EEEE..SS- CS
          Sacchrp_dh_NADP  66 llkegdlvvnlsppi.ssldvlkaCietgvhyvd..tsi 101
                              +++e+ ++vn   +i  s+ +  a+++ ++ ++d  t+ 
  PHY93_06865|PHY93_06865 110 ICREYPIIVNGCDDIvASNILYNAARKFKCTVIDayTAS 148
                              *************99666677789999999999977333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (281 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       414  (0.0230911); expected 358.6 (0.02)
Passed bias filter:                      339  (0.0189079); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.19s 00:00:00.71 Elapsed: 00:00:00.39
# Mc/sec: 2154.54
//
Query:       PHY93_06870|PHY93_06870  [L=392]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
       0.38   10.6  35.7        3.2    7.6  16.7    2.4  2  7TMR-DISM_7TM  7TM diverse intracellular signalling


Domain annotation for each model (and alignments):
>> 7TMR-DISM_7TM  7TM diverse intracellular signalling
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.6  16.7   0.00018       3.2      74     189 ..      14     134 ..       3     142 .. 0.65
   2 ?    4.2  17.9     0.002        35      69     176 ..     129     238 ..     121     258 .. 0.71

  Alignments for each domain:
  == domain 1  score: 7.6 bits;  conditional E-value: 0.00018
            7TMR-DISM_7TM  74 llllilfllFarsflelkkkp..rllklllllavllsllllllpll..pyteslslaqllallvillllligikaw.rkgnkpary 154
                              +++++l+++F   +++ ++k+     +ll+ll++l sl+l+    +   +  +++ + l+++++i l+l++++ ++ r++ + +  
  PHY93_06870|PHY93_06870  14 NIITALAIIFYAVYMNFSEKNngLRKRLLFLLTLLGSLCLIRGGNYvaDFGPIVENFVLIIASIIPLSLFLLVELMlRRHLPLSMK 99 
                              44554555577777666554456666666667777667777655555766666666666666666666666666655999999999 PP

            7TMR-DISM_7TM 155 fliawlllligvlidilsllgllpsnffteyllqi 189
                              ++++++ ll++v++ i+ ++++l   +++ y+l +
  PHY93_06870|PHY93_06870 100 LFAGITSLLLAVCLLIFGANKYLLFLLMSDYVLIL 134
                              99************998888765555555555444 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.002
            7TMR-DISM_7TM  69 lyltlllllilfllFarsflelkkkp.rllklllllavllsllllllpllpyteslslaq.llallvillllligikaw....rkg 148
                               y+++ll++ + +l +++ l+l+k++  l+k+  ++++l++ l+    ++ ++++l + +  l +++il++l++++k+w    +kg
  PHY93_06870|PHY93_06870 129 DYVLILLSI-VGVLLTNKNLDLQKNElTLIKINTVIMILIIPLI----VTDFKKVLGIDTiRLGAFGILFFLYALVKVWesidVKG 209
                              455555555.9999********6632355555555555533333....4466666665555799999999999999999999**** PP

            7TMR-DISM_7TM 149 nkparyfliawlllligvlidilsllg.l 176
                                +  ++l+++ l+ ++++ +++++++ +
  PHY93_06870|PHY93_06870 210 GFARLFYLLCFNLISAAIFCYLFEIYQyY 238
                              ********************887777632 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (392 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1033  (0.0576162); expected 358.6 (0.02)
Passed bias filter:                      354  (0.0197445); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.59u 0.23s 00:00:00.82 Elapsed: 00:00:00.41
# Mc/sec: 2863.22
//
Query:       PHY93_06875|PHY93_06875  [L=364]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.6e-09   35.6   0.0    4.4e-06   26.9   0.0    2.9  2  Acetyltransf_1   Acetyltransferase (GNAT) family
  ------ inclusion threshold ------
      0.018   15.0   0.0       0.12   12.4   0.0    2.3  3  Acetyltransf_10  Acetyltransferase (GNAT) domain
      0.031   14.7   0.0        0.1   13.0   0.0    1.9  1  Acetyltransf_7   Acetyltransferase (GNAT) domain


Domain annotation for each model (and alignments):
>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.1   0.0    0.0044        26      76      98 ..      94     116 ..      13     122 .. 0.68
   2 !   26.9   0.0   7.4e-10   4.4e-06      27     107 ..     238     343 ..     214     349 .. 0.72

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.0044
                              SHHHHHHHHHHHHHHHTTESEEE CS
           Acetyltransf_1  76 GlGsaLlealeerareegikkiv 98 
                               ++++L++ ++++a+ +g ++iv
  PHY93_06875|PHY93_06875  94 EVAKLLIDSAIQWAKTKGHTEIV 116
                              47999999999999999987765 PP

  == domain 2  score: 26.9 bits;  conditional E-value: 7.4e-10
                              H..HHSTTCEEEEEEETTEEEEEE........................EEEEEET.TSTTEEEEEEEEESGGGTTSSHHHHHHHHH CS
           Acetyltransf_1  27 s..fsleaegllvaeedgeliGfi........................sllkipd.ekggvayieslaVspeyrgkGlGsaLleal 85 
                                 + l+++ +++ +++++++G i                            i++   +++a+i+++ V pe++g+G+ +a l+++
  PHY93_06875|PHY93_06875 238 DlmLVLDPGLTIITYHNNRPVGVIicipdlnpllhavksnmgliflfkF---IWFkFFNKRAVIIFYSVTPEFHGQGINQAILKKV 320
                              23355566677779999*******8888888888888888777774432...33363359************************** PP

                              HHHHHHTTESEE.EEEEETTEHH CS
           Acetyltransf_1  86 eerareegikki.vlaveednda 107
                              +  ++++g++k+   ++ + n+ 
  PHY93_06875|PHY93_06875 321 ITNLKKKGYEKLgITWIADVNKS 343
                              *********99843355444665 PP

>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0         1     6e+03      30      47 ..      49      66 ..      31      75 .. 0.70
   2 ?   -2.5   0.0      0.75   4.5e+03      33      46 ..     248     261 ..     229     267 .. 0.81
   3 ?   12.4   0.0   1.9e-05      0.12      57      90 ..     301     335 ..     292     344 .. 0.83

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 1
          Acetyltransf_10 30 ealllvaeeggkivGvie 47
                             + +++ a e++ +vG i 
  PHY93_06875|PHY93_06875 49 NFTYFTAIENDIPVGRIM 66
                             455677777888888774 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 0.75
          Acetyltransf_10  33 llvaeeggkivGvi 46 
                              +++ + ++++vGvi
  PHY93_06875|PHY93_06875 248 TIITYHNNRPVGVI 261
                              67888999999998 PP

  == domain 3  score: 12.4 bits;  conditional E-value: 1.9e-05
          Acetyltransf_10  57 lfVdpeyrgqGigkaLleaveeeaekdgikl.elt 90 
                                V pe++gqGi +a+l++v+++++k+g+++  +t
  PHY93_06875|PHY93_06875 301 YSVTPEFHGQGINQAILKKVITNLKKKGYEKlGIT 335
                              5799***********************99965555 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   1.7e-05       0.1       8      73 ..     251     333 ..     244     346 .. 0.63

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 1.7e-05
                              EEETTEEEEEEEEEEES............................TCTEEEEE-GGGTTSSHHHHHHHHTTSEEEEEEEEETHHHH CS
           Acetyltransf_7   8 aeddgkivGfialslld............................aeitrlaVdpeyrgkGiGraLleaaekgiileqlelnaeka 65 
                               ++++++vG i++ ++                             a i++  V pe++g+Gi +a+l+ +    i +  +l     
  PHY93_06875|PHY93_06875 251 TYHNNRPVGVIICIPDLnpllhavksnmgliflfkfiwfkffnkrAVIIFYSVTPEFHGQGINQAILKKV----I-T--NL----K 325
                              5666677766666665566666666666666665555554433322333344***************962....2.2..33....1 PP

                              HHHHHHTT CS
           Acetyltransf_7  66 ikfYeklG 73 
                               k YeklG
  PHY93_06875|PHY93_06875 326 KKGYEKLG 333
                              33455555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (364 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       457  (0.0254894); expected 358.6 (0.02)
Passed bias filter:                      365  (0.0203581); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.19s 00:00:00.74 Elapsed: 00:00:00.41
# Mc/sec: 2669.07
//
Query:       PHY93_06880|PHY93_06880  [L=334]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    0.00026   21.1   0.4       0.27   11.2   0.0    3.0  3  Nitroreductase  Nitroreductase family
  ------ inclusion threshold ------
      0.071   12.7   0.5        3.9    7.0   0.1    3.3  4  TM1586_NiRdase  Putative TM nitroreductase


Domain annotation for each model (and alignments):
>> Nitroreductase  Nitroreductase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.2   0.0   3.1e-05      0.27      17      43 ..       5      31 ..       4      44 .. 0.85
   2 ?    0.0   0.0     0.086   7.7e+02       1      23 [.     117     141 ..     117     146 .. 0.89
   3 !    5.8   0.0    0.0015        13     117     144 ..     260     287 ..     247     305 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 3.1e-05
                             HHHHHHHHHHHHTS--GGG---EEEEE CS
           Nitroreductase 17 keelekileaarraPsagnlqpwrfvv 43
                             ke + ++ + a+r+Ps +n qpw++  
  PHY93_06880|PHY93_06880  5 KEIFNQMAAVASRSPSVHNVQPWKVQF 31
                             7889999****************9865 PP

  == domain 2  score: 0.0 bits;  conditional E-value: 0.086
                              HHH--B--.-B-S--.--HHHHHHH CS
           Nitroreductase   1 irkRrSiR.kFddep.vpkeeleki 23 
                              i kRrS R  F+ ++  ++ +l++i
  PHY93_06880|PHY93_06880 117 ISKRRSFRgIFQYDKhFDENKLKEI 141
                              789*********9999999999887 PP

  == domain 3  score: 5.8 bits;  conditional E-value: 0.0015
                              HHHHHHHHHHHHHHHHTT-EEEEE-GGG CS
           Nitroreductase 117 ldagaaaqnllLaAtalGlgscpiggfd 144
                              +++g a ++l+L++t+  l +cp++++ 
  PHY93_06880|PHY93_06880 260 FEMGVAFMRLWLELTSKELYACPLSALV 287
                              6789********************9875 PP

>> TM1586_NiRdase  Putative TM nitroreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.0   0.1   0.00043       3.9     158     186 ..       6      34 ..       1      61 [. 0.82
   2 ?    0.8   0.0     0.033     3e+02      74     114 ..      49      90 ..      39     104 .. 0.78
   3 ?    0.4   0.0     0.045     4e+02       2      29 ..     113     142 ..     112     192 .. 0.77
   4 ?   -1.6   0.0      0.18   1.7e+03      72     106 ..     251     284 ..     235     324 .. 0.64

  Alignments for each domain:
  == domain 1  score: 7.0 bits;  conditional E-value: 0.00043
                              HHHHHHHHHHHTS--GGG----EEE.E-S CS
           TM1586_NiRdase 158 ewfkeileaarlAPsAlNqqpwrfelkdd 186
                              e f+++  +a  +Ps  N qpw++++ +d
  PHY93_06880|PHY93_06880   6 EIFNQMAAVASRSPSVHNVQPWKVQFTED 34 
                              567777788999************98876 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.033
                              --SS.HHHHHHHHHHHHHHHHHHHHTT-EEEEES--SST... CS
           TM1586_NiRdase  74 gekk.edleekaGYygeqlvLkltalGlgtcWvggtykkkka 114
                              g+ k +d ++ +G + e   ++l a+Glg+  v   ++k++ 
  PHY93_06880|PHY93_06880  49 GDPKlHDNDVSLGCFFELCRMFLHAHGLGSTIVKDDTQKSQD 90 
                              55555788999999****************998876666544 PP

  == domain 3  score: 0.4 bits;  conditional E-value: 0.045
                              HHHHHHH--B---.B-.-S---HHHHHHHH CS
           TM1586_NiRdase   2 lyeaiekRhsvRk.Yk.dealeeelleelk 29 
                              ly+ i kR+s R  ++ d+  +e++l+e+k
  PHY93_06880|PHY93_06880 113 LYDNISKRRSFRGiFQyDKHFDENKLKEIK 142
                              688999999999535446777777777776 PP

  == domain 4  score: -1.6 bits;  conditional E-value: 0.18
                              ----SSHHHHHHHHHHHHHHHHHHHHTT-EEEEES CS
           TM1586_NiRdase  72 lvgekkedleekaGYygeqlvLkltalGlgtcWvg 106
                              +++++k     ++G    +l L+lt+++l  c ++
  PHY93_06880|PHY93_06880 251 VYANNK-LGPFEMGVAFMRLWLELTSKELYACPLS 284
                              444333.4445566667778888888888877555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (334 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       457  (0.0254894); expected 358.6 (0.02)
Passed bias filter:                      401  (0.022366); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.40
# Mc/sec: 2503.29
//
Query:       PHY93_06885|PHY93_06885  [L=521]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      3e-07   30.7   0.1     0.0033   17.7   0.0    3.4  3  Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
    0.00035   21.6   0.9          1   10.5   0.4    3.5  2  Cytochrom_C      Cytochrome c
     0.0045   17.3   0.1       0.33   11.3   0.0    2.6  2  DUF1924          Domain of unknown function (DUF1924)
      0.007   16.3   0.0        1.3    9.1   0.0    2.4  2  Cytochrome_C7    Cytochrome c7 and related cytochrome c
  ------ inclusion threshold ------
      0.032   14.7   0.0         12    6.5   0.0    2.3  2  Cytochrom_c3_2   Cytochrome c3
      0.035   14.4   0.0        4.6    7.5   0.0    2.5  2  DUF3365          Protein of unknown function (DUF3365)
       0.13   12.9   0.3        7.3    7.2   0.1    2.6  2  CCP_MauG         Di-haem cytochrome c peroxidase


Domain annotation for each model (and alignments):
>> Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.2   0.0    0.0025       6.4       9      44 ..     129     174 ..     123     191 .. 0.54
   2 !   17.7   0.0   1.3e-06    0.0033       2      25 ..     351     385 ..     350     414 .. 0.72
   3 ?    1.5   0.0      0.15   3.8e+02      36      67 .]     487     520 ..     466     520 .. 0.68

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.0025
          Cytochrome_CBB3   9 lykknCasCHg...kggagpsla.......grdwepdalvdiiknG 44 
                              + + +C++CH     +++g++ +        ++++p+  v+++ +G
  PHY93_06885|PHY93_06885 129 IANLSCVACHSgsqYDQNGKKTNnqiigapSDTFNPEMYVTTLYEG 174
                              55679*****745422444333311222222233344444444444 PP

  == domain 2  score: 17.7 bits;  conditional E-value: 1.3e-06
          Cytochrome_CBB3   2 aaaaGaalykknCasCHg....kggag.......p 25 
                              +a++G a+y+++C +CHg    +gg+        +
  PHY93_06885|PHY93_06885 351 RAERGFAIYNSSCLQCHGeykwDGGKKsqlisfpN 385
                              6899**************88776666545555533 PP

  == domain 3  score: 1.5 bits;  conditional E-value: 0.15
          Cytochrome_CBB3  36 alvdiiknGkg.aMpafgg.qlsdeelwalvaYl 67 
                              +++d+   G++ +   ++  +lsd+++++l +Yl
  PHY93_06885|PHY93_06885 487 EIYDTSLAGRNnHGHEKEFeELSDADKDDLLEYL 520
                              566666666531223333358************7 PP

>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.0     0.011        27       9      28 ..     131     168 ..     124     227 .. 0.65
   2 !   10.5   0.4    0.0004         1       1      89 [.     352     521 .]     352     521 .] 0.54

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.011
                              HTTGGGTB-SSSBSSS...................... CS
              Cytochrom_C   9 tanCaaCHgvegggakqgg..................g 28 
                              +  C+aCH+     +++ +                  +
  PHY93_06885|PHY93_06885 131 NLSCVACHSGSQYDQNGKKtnnqiigapsdtfnpemyV 168
                              568*****655544443334555555555544444442 PP

  == domain 2  score: 10.5 bits;  conditional E-value: 0.0004
                              X--HHHHHHTTGGGTB...-SSSBSSS....................................................--HHHHH CS
              Cytochrom_C   1 aarGkelftanCaaCH...gvegggakqgg................................................gptlsgaa 35 
                              a+rG ++++  C +CH   +++gg+++q                                                  +p l g+ 
  PHY93_06885|PHY93_06885 352 AERGFAIYNSSCLQCHgeyKWDGGKKSQLIsfpnklvpqnemnsdanrwlavtlslsknlensvwndtlqvnhnkgyiAPLLEGLW 437
                              689*****99******4322445544444488888888888888888888555555555544444444444444444422222222 PP

                              HHTTT-HHHHHHHHTTSS--SSSHHHHHHHGGGGGGG................................................. CS
              Cytochrom_C  36 erasaasigasvanpaavsaprddfekkkltaempark................................................ 73 
                              ++a++ ++                                                                              
  PHY93_06885|PHY93_06885 438 ATAPYMHN-----------------------------Gsvptlwqfmrpdmrpakfvvgnqnlemnkvgiaalasfgseiydtsla 494
                              22222222.............................1222222333333344444444444444555555556666666666777 PP

                              ...........TT--HHHHHHHHHHHH CS
              Cytochrom_C  74 ...........erlteqeiadlaaYLk 89 
                                         e+l++++ +dl +YLk
  PHY93_06885|PHY93_06885 495 grnnhghekefEELSDADKDDLLEYLK 521
                              777777777778888888888888875 PP

>> DUF1924  Domain of unknown function (DUF1924)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.3   0.0   0.00013      0.33      23      63 ..     128     168 ..     118     190 .. 0.70
   2 ?    2.9   0.0     0.055   1.4e+02      26      43 ..     360     377 ..     348     388 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00013
                              -TT-SSTHHHH-SST.TS-EE.-TTS-EE--SSTTTSTTTT- CS
                  DUF1924  23 kgkelsCasCHgedp.tkegkhaktgkaieplapsvnpkrft 63 
                              k ++lsC +CH+ +   ++gk ++ ++ i + + ++np+ + 
  PHY93_06885|PHY93_06885 128 KIANLSCVACHSGSQyDQNGK-KTNNQIIGAPSDTFNPEMYV 168
                              56789******7665055666.67788889999999999764 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.055
                              -SSTHHHH-SSTTS-EE. CS
                  DUF1924  26 elsCasCHgedptkegkh 43 
                              + sC  CHge   + gk+
  PHY93_06885|PHY93_06885 360 NSSCLQCHGEYKWDGGKK 377
                              569******998888875 PP

>> Cytochrome_C7  Cytochrome c7 and related cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.1   0.0   0.00049       1.3      42      63 ..     126     147 ..     106     161 .. 0.67
   2 ?    4.6   0.0     0.013        32      12      23 ..     359     370 ..     348     400 .. 0.66

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.00049
            Cytochrome_C7  42 kaevesltCgaCHdgknafsva 63 
                              ++++ +l+C aCH g++ +++ 
  PHY93_06885|PHY93_06885 126 NVKIANLSCVACHSGSQYDQNG 147
                              3445556677777777666333 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.013
            Cytochrome_C7  12 tgykCtdCHskl 23 
                              ++ +C +CH++ 
  PHY93_06885|PHY93_06885 359 YNSSCLQCHGEY 370
                              456788888877 PP

>> Cytochrom_c3_2  Cytochrome c3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   0.0    0.0082        21      24      41 ..     129     146 ..     120     171 .. 0.61
   2 ?    6.5   0.0    0.0046        12      23      41 ..     357     375 ..     348     398 .. 0.69

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.0082
                              HHHHHHHHHH--HHHCHT CS
           Cytochrom_c3_2  24 veeekClsCHgkleelak 41 
                              + + +C++CH+  +  ++
  PHY93_06885|PHY93_06885 129 IANLSCVACHSGSQYDQN 146
                              455556666654443332 PP

  == domain 2  score: 6.5 bits;  conditional E-value: 0.0046
                              HHHHHHHHHHH--HHHCHT CS
           Cytochrom_c3_2  23 aveeekClsCHgkleelak 41 
                              a+ +++Cl+CHg+++    
  PHY93_06885|PHY93_06885 357 AIYNSSCLQCHGEYKWDGG 375
                              5678899999999875444 PP

>> DUF3365  Protein of unknown function (DUF3365)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.1   0.0     0.021        54     112     125 ..     127     141 ..      99     161 .. 0.74
   2 ?    7.5   0.0    0.0018       4.6     114     125 ..     358     370 ..     351     382 .. 0.82

  Alignments for each domain:
  == domain 1  score: 4.1 bits;  conditional E-value: 0.021
                              EE-.-TTTHHHHS-G CS
                  DUF3365 112 lrv.eesClkCHgdp 125
                              +++ + sC++CH+  
  PHY93_06885|PHY93_06885 127 VKIaNLSCVACHSGS 141
                              5666789*****765 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0018
                              -.-TTTHHHHS-G CS
                  DUF3365 114 v.eesClkCHgdp 125
                              + ++sCl+CHg+ 
  PHY93_06885|PHY93_06885 358 IyNSSCLQCHGEY 370
                              44789******86 PP

>> CCP_MauG  Di-haem cytochrome c peroxidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2   0.1    0.0029       7.3      21      77 ..     131     191 ..     127     336 .. 0.77
   2 ?    3.3   0.0     0.047   1.2e+02      22      55 ..     361     394 ..     358     507 .. 0.59

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.0029
                              S--HHHHSGCCCTTS-S...SSSBBEG.GGEBSSS----STTGGGSS.SBSTTEEBSSHHHH CS
                 CCP_MauG  21 kisCasCHdpaagftdg...lkvslgv.egrlgarnaptllnaafnk.glfwdgraesleeq 77 
                              + sC  CH+ ++  ++g   +++ +g+  +++ +    t+l+ +++k ++ w  ra+ + +q
  PHY93_06885|PHY93_06885 131 NLSCVACHSGSQYDQNGkktNNQIIGApSDTFNPEMYVTTLYEGMKKvNQNW-ARATAIMNQ 191
                              689*****64433333311134555555556777777777777775533333.344444333 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.047
                              --HHHHSGCCCTTS-SSSSBBEG.GGEBSSS---- CS
                 CCP_MauG  22 isCasCHdpaagftdglkvslgv.egrlgarnapt 55 
                               sC +CH  + +++ g+k +l +  ++l+++n + 
  PHY93_06885|PHY93_06885 361 SSCLQCHG-EYKWDGGKKSQLISfPNKLVPQNEMN 394
                              79*****6.67777765544333344444443332 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (521 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       567  (0.0316247); expected 358.6 (0.02)
Passed bias filter:                      510  (0.0284455); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.62u 0.24s 00:00:00.86 Elapsed: 00:00:00.41
# Mc/sec: 3843.06
//
Query:       PHY93_06890|PHY93_06890  [L=86]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (86 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       375  (0.0209158); expected 358.6 (0.02)
Passed bias filter:                      258  (0.0143901); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 637.44
//
Query:       PHY93_06895|PHY93_06895  [L=145]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-23   83.2   1.8    3.1e-23   81.7   1.8    1.6  1  DUF962    Protein of unknown function (DUF962)
  ------ inclusion threshold ------
      0.023   14.4   1.5      0.048   13.5   1.1    1.7  1  DUF2427   Domain of unknown function (DUF2427)
      0.085   13.1   7.0       0.18   12.1   0.2    2.8  2  DUF2842   Protein of unknown function (DUF2842)


Domain annotation for each model (and alignments):
>> DUF962  Protein of unknown function (DUF962)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   81.7   1.8   5.1e-27   3.1e-23       1      91 [.       1     142 [.       1     144 [. 0.97

  Alignments for each domain:
  == domain 1  score: 81.7 bits;  conditional E-value: 5.1e-27
                   DUF962   1 lksleefyafYlaeHsnpinrllHfigvplilltvlllllrak........................................... 43 
                              ++ le++++ Y+++H+np+n+l+H ++vp i+++vl ll +++                                           
  PHY93_06895|PHY93_06895   1 MSRLEKYLNVYAKSHQNPTNILIHKFCVPSIMFSVLGLLKAMPvpeswplwldwsffailgalifyasfknlkvftmmvlfilpqa 86 
                              67899********************************************************************************* PP

                   DUF962  44 ..........lklllalfvvgyifafvGHfvfEkrkPAlfknplqsllidplmvllel 91 
                                        + l l +f+v++if+f+GH+ +E++kP++f++ l  lli+p++v++ +
  PHY93_06895|PHY93_06895  87 llleylrprfFLLCLFIFIVAWIFQFIGHK-IEGKKPSFFTD-LFFLLIGPIWVMKSF 142
                              *********999******************.***********.99*********9865 PP

>> DUF2427  Domain of unknown function (DUF2427)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   1.1     8e-06     0.048      25      75 ..      75     124 ..      71     139 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 8e-06
                  DUF2427  25 mtlalvvvyPvalvLslaksrwylpvqivnlvlavlglllghiykgstPel 75 
                               t+ +++++P al L  ++ r++l+++++++v a++  ++gh  +g++P++
  PHY93_06895|PHY93_06895  75 FTMMVLFILPQALLLEYLRPRFFLLCLFIFIV-AWIFQFIGHKIEGKKPSF 124
                              5677889*********************9865.666677788878877776 PP

>> DUF2842  Protein of unknown function (DUF2842)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   1.7     0.021   1.3e+02      29      45 ..      46      62 ..      27      81 .. 0.75
   2 ?   12.1   0.2     3e-05      0.18       7      49 ..      97     139 ..      95     140 .. 0.87

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.021
                  DUF2842 29 grapalvqllvYvvlGl 45
                             +++p +++  ++++lG 
  PHY93_06895|PHY93_06895 46 ESWPLWLDWSFFAILGA 62
                             56677777777777774 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 3e-05
                  DUF2842   7 vlllvllvvYavvavslaelllgrapalvqllvYvvlGllWvl 49 
                              +ll +++ + a++   +   + g++p ++  l+++++G +Wv+
  PHY93_06895|PHY93_06895  97 FLLCLFIFIVAWIFQFIGHKIEGKKPSFFTDLFFLLIGPIWVM 139
                              67888888888888888888899******************95 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (145 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       837  (0.0466841); expected 358.6 (0.02)
Passed bias filter:                      308  (0.0171789); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.49u 0.23s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 1082.80
//
Query:       PHY93_06900|PHY93_06900  [L=398]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.7e-63  213.8   2.8    2.7e-63  213.8   2.8    1.8  2  RmuC             RmuC family
    0.00068   19.9  10.4      0.012   15.8   5.9    2.9  2  BLOC1_2          Biogenesis of lysosome-related organelles co
     0.0017   18.2   3.4     0.0076   16.2   2.5    2.2  2  Apolipoprotein   Apolipoprotein A1/A4/E domain
  ------ inclusion threshold ------
      0.011   16.1  10.0        1.7    9.1   5.2    3.7  3  Snapin_Pallidin  Snapin/Pallidin
      0.036   12.0  11.3      0.029   12.4   7.0    2.1  2  Prominin         Prominin
      0.036   14.8   0.8      0.036   14.8   0.8    2.5  2  VAPB_antitox     Putative antitoxin
       0.04   13.5   5.8      0.099   12.2   3.8    2.1  2  Exonuc_VII_L     Exonuclease VII, large subunit
       0.06   13.6   5.6         13    6.1   0.0    4.2  5  Catalase-rel     Catalase-related immune-responsive
      0.079   13.2  17.4          7    7.0   0.2    4.1  2  DUF948           Bacterial protein of unknown function (DUF94
       0.32   11.0  14.9          2    8.4   0.2    2.7  2  Laminin_II       Laminin Domain II
       0.56   10.6   8.0         12    6.4   0.0    4.0  3  FlaC_arch        Flagella accessory protein C (FlaC)
       0.56   10.0   8.8        1.2    9.0   2.6    3.4  3  SKA2             Spindle and kinetochore-associated protein 2
       0.58   10.2  18.0        1.3    9.1   9.8    4.0  3  Baculo_PEP_C     Baculovirus polyhedron envelope protein, PEP
       0.66   10.4   6.9        1.4    9.4   3.9    2.5  2  STAT_int         STAT protein, protein interaction domain
          2    9.0  16.0        1.9    9.0   4.6    4.4  4  NPV_P10          Nucleopolyhedrovirus P10 protein
        2.6    8.5   9.8        2.7    8.4   3.6    2.9  3  T3SSipB          Type III cell invasion protein SipB
        2.7    8.3   7.1        2.1    8.6   4.1    2.3  2  FANCI_S2         FANCI solenoid 2
        3.1    8.4   5.3         14    6.3   1.7    3.3  3  TipAS            TipAS antibiotic-recognition domain
        4.7    7.7  12.5        6.2    7.3   7.4    2.9  2  Terminase_2      Terminase small subunit
        5.1    7.1  10.6        3.1    7.8   6.8    2.3  2  Phasin           Poly(hydroxyalcanoate) granule associated pr
        5.3    7.8  15.4          3    8.6   0.1    4.3  4  Occludin_ELL     Occludin homology domain
          6    7.4   6.7         35    4.9   0.0    3.6  3  Cep57_MT_bd      Centrosome microtubule-binding domain of Cep
        6.8    7.3  12.4        2.3    8.8   1.4    3.8  4  YtxH             YtxH-like protein
        8.2    6.5  20.6        1.5    8.8   5.1    3.4  4  DUF1664          Protein of unknown function (DUF1664)


Domain annotation for each model (and alignments):
>> RmuC  RmuC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   1.4       2.1   1.6e+03      10      51 ..      69     111 ..      58     114 .. 0.55
   2 !  213.8   2.8   3.6e-66   2.7e-63       2     287 ..     116     396 ..     115     397 .. 0.96

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 2.1
                     RmuC  10 lkeklekfeekveeeskeeaeeleslkeqlk.elqelneqlgd 51 
                              ++ek++k + + ++++++   ++++ +++++ ++ ++ne++++
  PHY93_06900|PHY93_06900  69 IEEKFKKITAEQNQSTQDIVLHFSKFQQAITaQMVSMNEKINK 111
                              4555555555555555555555555555553245555555554 PP

  == domain 2  score: 213.8 bits;  conditional E-value: 3.6e-66
                     RmuC   2 qleellkplkeklekfeekveeeskeeaeeleslkeqlkelqelneqlgdeaenLtkaLknsktrGnwGEvqLerilessgleege 87 
                              +l+e+ +++ke+l++  +k +e+ +++ e+l++++e+ k++++l++++ +    L+++L+++k+rG +GEvqL ++l+++   ++ 
  PHY93_06900|PHY93_06900 116 KLNEISDRVKENLDQGFKKTNETFNNVVERLAKIDEAQKKIESLSANVVS----LQDVLTDKKSRGIFGEVQLTQVLNAVFGDKND 197
                              699***********************************************....**************************999998 PP

                     RmuC  88 e.yetqvslkdeegelrpDvvvklpgg.kklviDsKvpleaYerlveaed.deereealkahaksvkkhikeLseKdYeele.sld 169
                              + ++ q++l  ++g+  +D ++ lp+   +lv+DsK+ple+++r+++a+  d+er+e++k++++++kkhi+++++K Y   + + d
  PHY93_06900|PHY93_06900 198 KvFQLQYKL--PNGT-ICDSIIFLPEPtGSLVVDSKFPLENFRRMFDASYtDAERKEFVKDFKTNLKKHIDDIATK-YIIRDvTAD 279
                              78******8..4467.**********989******************988566***********************.888867*** PP

                     RmuC 170 yvlmFiPiEsayaealeadpeLleealrkkVvlasPttLlalLrtvamlwrqeaqeknaeeiaellgelydkfekfgedleklgkk 255
                               +++F+P E+++ae+ + + +++e+a ++kV+++sPtt +a++ tv+ ++++ + +k ++ i ++l++l d+f+++++++++l ++
  PHY93_06900|PHY93_06900 280 QAVLFLPAEAIFAELYAYHGDIIEYAHQRKVWITSPTTFMAMITTVQVVLNNIERSKYTNVIHQELNRLADEFSRYKKRWDALASH 365
                              ************************************************************************************** PP

                     RmuC 256 lekaqksydkavkklegnilrkaeklkelgvk 287
                              +++++k++++ ++ ++g+i+ ++e + e++++
  PHY93_06900|PHY93_06900 366 IDTVSKDVKE-IHITTGKITDRFEHISEVKID 396
                              **********.99999**********998875 PP

>> BLOC1_2  Biogenesis of lysosome-related organelles complex-1 subunit 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   5.9   1.7e-05     0.012      14      85 ..      95     167 ..      85     173 .. 0.90
   2 ?    5.0   0.1     0.041        31      40      85 ..     342     377 ..     324     393 .. 0.48

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 1.7e-05
                  BLOC1_2  14 eleatvedyklLeklNeaasekykklkdvaa.slekkleklnekyeelqpylqqidqiekqvteLeeavseLD 85 
                              + ++t++ +++ ek+N+  + k ++++d+++ +l + ++k+ne+ +++ + l +id+ +k++++L ++v  L 
  PHY93_06900|PHY93_06900  95 QQAITAQMVSMNEKINKDLQLKLNEISDRVKeNLDQGFKKTNETFNNVVERLAKIDEAQKKIESLSANVVSLQ 167
                              567888999999***************9996379999*****************************9998775 PP

  == domain 2  score: 5.0 bits;  conditional E-value: 0.041
                  BLOC1_2  40 kdvaaslekkleklnekyeelqpylqqidqiekqvteLeeavseLD 85 
                                         ++ln++ +e++ y+++ d++  ++++  + v+e+ 
  PHY93_06900|PHY93_06900 342 H----------QELNRLADEFSRYKKRWDALASHIDTVSKDVKEIH 377
                              2..........33444444444444444444444444444444333 PP

>> Apolipoprotein  Apolipoprotein A1/A4/E domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   2.5     1e-05    0.0076      10     103 ..      70     162 ..      29     183 .. 0.70
   2 ?    0.2   0.0      0.82   6.1e+02      75     106 ..     345     375 ..     335     393 .. 0.54

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 1e-05
                              HHHHCCHHHCHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHCCCHHHHHHHHHCCHHHHHHHHHHHHCHHCCHH CS
           Apolipoprotein  10 kayaeeleeqlaplaqelrdrlskeleelrarlraeleevrarlepyrdevqeqlgqnleelrqrlapyteelrerlaadaeelqe 95 
                              +++++++ +  ++ +q+++  +sk +++++a++ +  e  ++ l+ +++e+  ++++nl++  ++ ++  +++ erla +++e+q+
  PHY93_06900|PHY93_06900  70 EEKFKKITAEQNQSTQDIVLHFSKFQQAITAQMVSMNEKINKDLQLKLNEISDRVKENLDQGFKKTNETFNNVVERLA-KIDEAQK 154
                              455566666666667777777777777777777777777777777777777777777777777777777777777766.7777777 PP

                              CHCCHCHH CS
           Apolipoprotein  96 qlavyaee 103
                              ++++ +++
  PHY93_06900|PHY93_06900 155 KIESLSAN 162
                              76665554 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.82
                              CCHHHHHHHHHHHHCHHCCHHCHCCHCHHHHH CS
           Apolipoprotein  75 lapyteelrerlaadaeelqeqlavyaeelre 106
                              l+ +++e   r ++++++l  ++++++++++e
  PHY93_06900|PHY93_06900 345 LNRLADEF-SRYKKRWDALASHIDTVSKDVKE 375
                              33333333.35555555555555555555544 PP

>> Snapin_Pallidin  Snapin/Pallidin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.5   1.9      0.53     4e+02      41      81 ..      71     111 ..      65     121 .. 0.72
   2 ?    9.1   5.2    0.0022       1.7      27      86 ..     112     170 ..      93     172 .. 0.83
   3 ?    5.3   0.0     0.035        26      33      89 ..     342     390 ..     320     391 .. 0.76

  Alignments for each domain:
  == domain 1  score: 1.5 bits;  conditional E-value: 0.53
          Snapin_Pallidin  41 ekLkeleeaqeaevlpdlkeyakKLv.nikkrmsslnerlqk 81 
                              ek+k++  +q+ ++ +d+  +  K + +i  +m s+ne+++k
  PHY93_06900|PHY93_06900  71 EKFKKITAEQN-QSTQDIVLHFSKFQqAITAQMVSMNEKINK 111
                              57777777777.778888888888862578899999988764 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.0022
          Snapin_Pallidin  27 qsQeeLleqldrlnekLkeleeaqeaevlpdlkeyakKLvnikkrmsslnerlqklkkRa 86 
                              + Q +L+e  dr +e+L++  + ++ e+++++ e ++K+ +++k+++sl+  + +l++ +
  PHY93_06900|PHY93_06900 112 DLQLKLNEISDRVKENLDQGFKKTN-ETFNNVVERLAKIDEAQKKIESLSANVVSLQDVL 170
                              5689999999999999996555555.9*************************99999866 PP

  == domain 3  score: 5.3 bits;  conditional E-value: 0.035
          Snapin_Pallidin  33 leqldrlnekLkeleeaqeaevlpdlkeyakKLvnikkrmsslnerlqklkkRaekL 89 
                              +++l+rl++++ ++++          +  a  + ++ k++++++ ++ k+ +R e++
  PHY93_06900|PHY93_06900 342 HQELNRLADEFSRYKKRW--------DALASHIDTVSKDVKEIHITTGKITDRFEHI 390
                              455555555555554444........4566778899999999999999999999887 PP

>> Prominin  Prominin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   7.0   3.9e-05     0.029     160     270 ..      62     171 ..      29     192 .. 0.89
   2 ?    1.9   0.1     0.056        42     634     696 ..     326     389 ..     253     396 .. 0.64

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 3.9e-05
                 Prominin 160 aFvtNkaldegleesketvkrgledlrtflkdvpqhidhvlvqnyeelekhvsddLddagkhlgldladtlesnvlpaLaelerll 245
                               F   + ++e++++ + + +++ +d++   ++  q i++ +v   e+++k++  +L+++++ + ++l + ++++ +++++++ + l
  PHY93_06900|PHY93_06900  62 KFQVSEIIEEKFKKITAEQNQSTQDIVLHFSKFQQAITAQMVSMNEKINKDLQLKLNEISDRVKENLDQGFKKT-NETFNNVVERL 146
                              57777888999999999999999999999999999999999998899999999999999999999999999999.99999999999 PP

                 Prominin 246 enlkeakeqLeqvnklekeLrksgs 270
                               ++ ea++++e+++++  +L+   +
  PHY93_06900|PHY93_06900 147 AKIDEAQKKIESLSANVVSLQDVLT 171
                              9999999999999999999997665 PP

  == domain 2  score: 1.9 bits;  conditional E-value: 0.056
                 Prominin 634 eelanelsngk..knlkqslkneaqdlraiqqelvlplessvkklkksvkkldeensdlqesikk 696
                              + + n+++++k  ++++q+l++ a +++++++   + l s ++++ k vk++  ++ ++++++++
  PHY93_06900|PHY93_06900 326 QVVLNNIERSKytNVIHQELNRLADEFSRYKKR-WDALASHIDTVSKDVKEIHITTGKITDRFEH 389
                              233333333333346666666666666665544.3556666666666666666555555555444 PP

>> VAPB_antitox  Putative antitoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   0.8   4.8e-05     0.036       5      40 ..     120     157 ..     119     175 .. 0.77
   2 ?   -0.9   0.0       3.8   2.9e+03      29      64 ..     347     376 ..     339     386 .. 0.59

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 4.8e-05
             VAPB_antitox   5 IsdevYekLkk.lKregeSFsdvIerLle.kkkkgkkk 40 
                              Isd v+e L++ +K+ +e F+ v+erL++  + ++k +
  PHY93_06900|PHY93_06900 120 ISDRVKENLDQgFKKTNETFNNVVERLAKiDEAQKKIE 157
                              9********7648**************98533333333 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 3.8
             VAPB_antitox  29 rLlekkkkgkkkellelfgilseeeadeiekaskel 64 
                              rL+++ ++  kk++++l+     +++d++ k++ke+
  PHY93_06900|PHY93_06900 347 RLADEFSR-YKKRWDALA-----SHIDTVSKDVKEI 376
                              44443332.233344443.....4556666666665 PP

>> Exonuc_VII_L  Exonuclease VII, large subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   3.8   0.00013     0.099     143     241 ..      67     169 ..      29     200 .. 0.70
   2 ?    1.1   0.0      0.31   2.3e+02     168     196 ..     342     370 ..     244     396 .. 0.58

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 0.00013
             Exonuc_VII_L 143 aeleeqleelerrlekaikrlleekkqrleklasrlkspeellerk.rqrldeleerleralkkqlkkkrerleelkerl.kekle 226
                              + +ee++++++++ +++++  + + ++  ++++ ++ s +e+++++ + +l+e+++r++++l++ +kk +e+++++ erl k  ++
  PHY93_06900|PHY93_06900  67 EIIEEKFKKITAEQNQSTQDIVLHFSKFQQAITAQMVSMNEKINKDlQLKLNEISDRVKENLDQGFKKTNETFNNVVERLaK--ID 150
                              3446666666666666666666666666666666666666666666588899999999999999999999999999988844..66 PP

             Exonuc_VII_L 227 ekkerlkklkerle....l 241
                              e+++++++l++++      
  PHY93_06900|PHY93_06900 151 EAQKKIESLSANVVslqdV 169
                              6666665555444433332 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.31
             Exonuc_VII_L 168 kqrleklasrlkspeellerkrqrldele 196
                              +q+l++la ++++ +++ ++ ++++d ++
  PHY93_06900|PHY93_06900 342 HQELNRLADEFSRYKKRWDALASHIDTVS 370
                              11222222222222222222222222222 PP

>> Catalase-rel  Catalase-related immune-responsive
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.5   0.2     0.027        20      21      58 ..      78     114 ..      77     119 .. 0.90
   2 ?    0.2   0.0       1.2   8.7e+02      41      55 ..     137     151 ..     122     156 .. 0.67
   3 ?    6.1   0.0     0.017        13      14      47 ..     239     272 ..     237     281 .. 0.81
   4 ?   -2.2   0.0       6.6     5e+03      18      41 ..     329     354 ..     327     369 .. 0.66
   5 ?   -0.1   0.0       1.5   1.1e+03      28      47 ..     360     378 ..     356     380 .. 0.88

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.027
                              HHHHHHHHHHHHHHTTSS-HHHHHHHHHHHHHH-HHHH CS
             Catalase-rel  21 eekerlvnniafelskvedeeiqerqlehfakvDpdlg 58 
                              +e+++  + i+ + sk + + i  +++++  k+++dl 
  PHY93_06900|PHY93_06900  78 AEQNQSTQDIVLHFSKFQ-QAITAQMVSMNEKINKDLQ 114
                              689999999********9.****************995 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 1.2
                              HHHHHHHHHHHHH-H CS
             Catalase-rel  41 eiqerqlehfakvDp 55 
                              e  ++++e +ak+D+
  PHY93_06900|PHY93_06900 137 ETFNNVVERLAKIDE 151
                              444556666666665 PP

  == domain 3  score: 6.1 bits;  conditional E-value: 0.017
                              HHH.HS-HHHHHHHHHHHHHHHTTSS-HHHHHHHH CS
             Catalase-rel  14 lyr.smseeekerlvnniafelskvedeeiqerql 47 
                              ++  s++++e++ +v+ + ++l+k   ++i  +++
  PHY93_06900|PHY93_06900 239 MFDaSYTDAERKEFVKDFKTNLKKHI-DDIATKYI 272
                              566699****************9876.77766655 PP

  == domain 4  score: -2.2 bits;  conditional E-value: 6.6
                              S-HHHHHHHHHHHHHHHTTSS-H..H CS
             Catalase-rel  18 mseeekerlvnniafelskvede..e 41 
                              ++  e+    n i  el++  de   
  PHY93_06900|PHY93_06900 329 LNNIERSKYTNVIHQELNRLADEfsR 354
                              67778888888888888887766334 PP

  == domain 5  score: -0.1 bits;  conditional E-value: 1.5
                              HHHHHHHTTSS-HHHHHHHH CS
             Catalase-rel  28 nniafelskvedeeiqerql 47 
                              +++a +++ v+ ++++e ++
  PHY93_06900|PHY93_06900 360 DALASHIDTVS-KDVKEIHI 378
                              68999*****9.****9987 PP

>> DUF948  Bacterial protein of unknown function (DUF948)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7  12.5     0.096        72      38      88 ..     117     167 ..       3     168 .. 0.91
   2 ?    7.0   0.2    0.0093         7      27      87 ..     337     376 ..     315     394 .. 0.52

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.096
                   DUF948  38 lekqvdpilkevedllakvnelledvneklekvdplteavadlgesvseln 88 
                              l++  d + +++++  +k+ne+ ++v e+l+k+d+  ++++ l+++v +l+
  PHY93_06900|PHY93_06900 117 LNEISDRVKENLDQGFKKTNETFNNVVERLAKIDEAQKKIESLSANVVSLQ 167
                              34555667788899999******************************8885 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.0093
                   DUF948  27 tldeaaatieelekqvdpilkevedllakvnelledvneklekvdplteavadlgesvsel 87 
                                                    ++ + ++ n+l+++ ++  ++ d+l +++ ++++ v+e+
  PHY93_06900|PHY93_06900 337 Y---------------------TNVIHQELNRLADEFSRYKKRWDALASHIDTVSKDVKEI 376
                              3.....................344444555555555555555555555555555555443 PP

>> Laminin_II  Laminin Domain II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.0   9.1      0.03        22      14      95 ..      79     166 ..      69     172 .. 0.65
   2 ?    8.4   0.2    0.0027         2      15      80 ..     325     392 ..     319     396 .. 0.81

  Alignments for each domain:
  == domain 1  score: 5.0 bits;  conditional E-value: 0.03
                              XXXXXXXXXXXXXXXXXXXX....XXXXXXXXXXXXXXX.XXXXXXXXXXXX....XXXX--TTTTTGGGHHHHHHHHHH...HHH CS
               Laminin_II  14 evleqlaplsqnlentkekl....seinrsveetnekvk.dankairdArrs....vkkLeklapqLldklkelkqleeassslsd 90 
                              e  + ++++    ++ ++ +     ++n   e++n++++ ++n++ + ++++     kk +++ ++++++l ++++ +++ +sls+
  PHY93_06900|PHY93_06900  79 EQNQSTQDIVLHFSKFQQAItaqmVSMN---EKINKDLQlKLNEISDRVKENldqgFKKTNETFNNVVERLAKIDEAQKKIESLSA 161
                              3344444444444444444310004444...4488888777777777776662222689*************************** PP

                              HHHHH CS
               Laminin_II  91 nisei 95 
                              n+  +
  PHY93_06900|PHY93_06900 162 NVVSL 166
                              *9765 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.0027
                              XXXXXXXX..XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX--TTTTTGGGHHHHHH CS
               Laminin_II  15 vleqlapl..sqnlentkeklseinrsveetnekvkdankairdArrsvkkLeklapqLldklkelkq 80 
                              v+ +l+++  s+ ++ + ++l++++++  + ++  +++   i+ +++ vk++  +  ++ d+++++ +
  PHY93_06900|PHY93_06900 325 VQVVLNNIerSKYTNVIHQELNRLADEFSRYKKRWDALASHIDTVSKDVKEIHITTGKITDRFEHISE 392
                              4444444411456778899999999999999999*****************************99875 PP

>> FlaC_arch  Flagella accessory protein C (FlaC)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   1.1      0.45   3.3e+02      15      39 ..     102     126 ..      92     130 .. 0.83
   2 ?    3.6   0.6      0.12        90       1      20 [.     148     167 ..     126     174 .. 0.59
   3 ?    6.4   0.0     0.016        12       5      40 ..     341     376 ..     338     377 .. 0.92

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.45
                FlaC_arch  15 eletvkkeneelsksveelkenVkd 39 
                              ++++ +k n++l+ +++e+ ++Vk+
  PHY93_06900|PHY93_06900 102 MVSMNEKINKDLQLKLNEISDRVKE 126
                              6788899999999999999999987 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.12
                FlaC_arch   1 ridelEnklsklsteletvk 20 
                              +ide ++k+++ls ++ +++
  PHY93_06900|PHY93_06900 148 KIDEAQKKIESLSANVVSLQ 167
                              34444444444444444443 PP

  == domain 3  score: 6.4 bits;  conditional E-value: 0.016
                FlaC_arch   5 lEnklsklsteletvkkeneelsksveelkenVkdl 40 
                              + ++l++l  e++  kk  + l + ++++ ++Vk++
  PHY93_06900|PHY93_06900 341 IHQELNRLADEFSRYKKRWDALASHIDTVSKDVKEI 376
                              779******************************985 PP

>> SKA2  Spindle and kinetochore-associated protein 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.8      0.28   2.1e+02      56      87 ..      68      99 ..      58     112 .. 0.80
   2 ?    9.0   2.6    0.0016       1.2      12      91 ..     107     190 ..      96     199 .. 0.72
   3 ?    0.7   0.0       0.6   4.5e+02      43      73 ..     341     371 ..     314     396 .. 0.60

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.28
                     SKA2 56 aLkeqceellaekkelidkirttlvanrellq 87
                              ++e+++++ ae+ ++++ i  ++++ ++ ++
  PHY93_06900|PHY93_06900 68 IIEEKFKKITAEQNQSTQDIVLHFSKFQQAIT 99
                             57899*********999999988888777665 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.0016
                     SKA2  12 qkaesdLd....yvqhrLekefqqsypdnaeNpvkLlerlkkvkeelqaLkeqceellaekkelidkirttlvanrellqqLqa 91 
                              +k ++dL+     ++ r ++ + q +++  e    ++erl+k+ e  +++++   ++ + +  l+dk ++ + +  +l+q L+a
  PHY93_06900|PHY93_06900 107 EKINKDLQlklnEISDRVKENLDQGFKKTNETFNNVVERLAKIDEAQKKIESLSANVVSLQDVLTDKKSRGIFGEVQLTQVLNA 190
                              555555544444677777777777766666666678888888888888888888888999999999999999999999998876 PP

  == domain 3  score: 0.7 bits;  conditional E-value: 0.6
                     SKA2  43 LlerlkkvkeelqaLkeqceellaekkelid 73 
                              ++++l+++ +e++  k++ ++l++    + +
  PHY93_06900|PHY93_06900 341 IHQELNRLADEFSRYKKRWDALASHIDTVSK 371
                              4455555555555555555555444333333 PP

>> Baculo_PEP_C  Baculovirus polyhedron envelope protein, PEP, C terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.1   9.8    0.0017       1.3      40     121 ..      66     152 ..      45     171 .. 0.66
   2 ?   -2.8   0.0       8.2   6.1e+03      15      25 ..     181     191 ..     178     202 .. 0.80
   3 ?    2.3   0.2      0.21   1.6e+02      90     112 ..     325     349 ..     312     391 .. 0.44

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.0017
             Baculo_PEP_C  40 ldaietqLnalsedlksllaeldtrldtlltnLtdalnalq....dtlrneLtnlnsil.tnLlssvtNinstLnnllqalnnldl 120
                               + ie+++++++++ +++ +++  +++++ +++t+++ +++    ++l+ +L+ +   +  nL      +n+t nn+++ l+ +d+
  PHY93_06900|PHY93_06900  66 SEIIEEKFKKITAEQNQSTQDIVLHFSKFQQAITAQMVSMNekinKDLQLKLNEISDRVkENLDQGFKKTNETFNNVVERLAKIDE 151
                              46677888888888888888888888888888888888887333344444566666666347888888888888888888887754 PP

             Baculo_PEP_C 121 g 121
                               
  PHY93_06900|PHY93_06900 152 A 152
                              3 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 8.2
             Baculo_PEP_C  15 fldLtnvLnai 25 
                               + Lt+vLna+
  PHY93_06900|PHY93_06900 181 EVQLTQVLNAV 191
                              56788888876 PP

  == domain 3  score: 2.3 bits;  conditional E-value: 0.21
             Baculo_PEP_C  90 lnsiltnLl.ssvtNin.stLnnll 112
                              ++ +l+n+  s+ tN++ + Ln l 
  PHY93_06900|PHY93_06900 325 VQVVLNNIErSKYTNVIhQELNRLA 349
                              3333333321222332102222222 PP

>> STAT_int  STAT protein, protein interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.4   3.9    0.0018       1.4      34      99 ..      66     130 ..      59     149 .. 0.86
   2 ?    0.7   0.0      0.91   6.8e+02      60     110 ..     318     368 ..     301     376 .. 0.74

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.0018
                 STAT_int  34 aewiEsqdweeiapdnpedeslatalleelleeleekasrlseeenflqklklreiaknlqkkyqe 99 
                              +e iE++   +i+ +++++ + +   ++++++++  ++ +++e+ n  ++lkl+ei+++++++ ++
  PHY93_06900|PHY93_06900  66 SEIIEEKFK-KITAEQNQSTQDIVLHFSKFQQAITAQMVSMNEKINKDLQLKLNEISDRVKENLDQ 130
                              789999875.6667999*************************999***********9999887655 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.91
                 STAT_int  60 leelleeleekasrlseee.nflqklklreiaknlqkkyqenPleLariike 110
                              + ++++ ++  ++++++ + + + + +l+++a+++ ++y+++  +La++i +
  PHY93_06900|PHY93_06900 318 FMAMITTVQVVLNNIERSKyTNVIHQELNRLADEF-SRYKKRWDALASHIDT 368
                              55677777777777775555667778888888888.6688888888877765 PP

>> NPV_P10  Nucleopolyhedrovirus P10 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.8       1.1     8e+02      45      59 ..      96     110 ..      31     122 .. 0.68
   2 ?    9.0   4.6    0.0026       1.9      14      66 ..     118     171 ..     109     189 .. 0.78
   3 ?   -1.9   0.0       6.6   4.9e+03       6      26 ..     184     205 ..     180     208 .. 0.69
   4 ?    4.5   0.1     0.066        49      23      62 ..     341     377 ..     321     393 .. 0.72

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 1.1
                  NPV_P10  45 daqsaqLaeletkve 59 
                              +a++aq+ ++++k++
  PHY93_06900|PHY93_06900  96 QAITAQMVSMNEKIN 110
                              466666666666554 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.0026
                  NPV_P10  14 kavddkVd.alqqqvddvqenlpdvtelnekLdaqsaqLaeletkvenIqdiLn 66 
                              ++++d+V+  l+q  ++ +e +++v e  +k+d+ ++++++l+++v + qd+L+
  PHY93_06900|PHY93_06900 118 NEISDRVKeNLDQGFKKTNETFNNVVERLAKIDEAQKKIESLSANVVSLQDVLT 171
                              567777752578888888888888888888888888888888888888888887 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 6.6
                  NPV_P10   6 LlvIradi.kavddkVdalqqq 26 
                              L+++++++  + +dkV  lq +
  PHY93_06900|PHY93_06900 184 LTQVLNAVfGDKNDKVFQLQYK 205
                              6777777733567888877765 PP

  == domain 4  score: 4.5 bits;  conditional E-value: 0.066
                  NPV_P10  23 lqqqvddvqenlpdvtelnekLdaqsaqLaeletkvenIq 62 
                              + q+++++++++      +++ da++  ++++++ v++I+
  PHY93_06900|PHY93_06900 341 IHQELNRLADEFSR---YKKRWDALASHIDTVSKDVKEIH 377
                              55666666665544...56777888888888888887775 PP

>> T3SSipB  Type III cell invasion protein SipB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.8      0.43   3.2e+02      45      92 ..      70     119 ..      40     124 .. 0.55
   2 ?    8.4   3.6    0.0037       2.7      27      94 ..      91     160 ..      76     174 .. 0.82
   3 ?    2.3   0.0      0.29   2.1e+02      43      86 ..     333     376 ..     316     394 .. 0.65

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.43
                              -STHHHHHHHHHHHHHHHHHHHHHHHHH.HHHHHHHHHHHHH.HHHHHTT CS
                  T3SSipB  45 Sdelqtalseakgatddleaaiekadqa.ksaadaatkkvde.aqkrlke 92 
                               +++++ + e ++ t+d+     k +qa  +++   ++k+++  q +l+e
  PHY93_06900|PHY93_06900  70 EEKFKKITAEQNQSTQDIVLHFSKFQQAiTAQMVSMNEKINKdLQLKLNE 119
                              35666666666666666666666666652334444555554313445555 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.0037
                              HHHHHHHHHHT.TTTT----STHHHHHHHHHH.HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-- CS
                  T3SSipB  27 laawkamskaq.qeaasklSdelqtalseakg.atddleaaiekadqaksaadaatkkvdeaqkrlkeLa 94 
                                 +++ + aq + +++k+ + lq  l+e ++ ++++l++  +k+++   ++ +  +k+deaqk++++L+
  PHY93_06900|PHY93_06900  91 FSKFQQAITAQmVSMNEKINKDLQLKLNEISDrVKENLDQGFKKTNETFNNVVERLAKIDEAQKKIESLS 160
                              55666777766368999999****999998653899***********999999999************95 PP

  == domain 3  score: 2.3 bits;  conditional E-value: 0.29
                              ---STHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                  T3SSipB  43 klSdelqtalseakgatddleaaiekadqaksaadaatkkvdea 86 
                              + S+  +   +e + ++d++    ++ d + s++d + k v+e+
  PHY93_06900|PHY93_06900 333 ERSKYTNVIHQELNRLADEFSRYKKRWDALASHIDTVSKDVKEI 376
                              55555666666666666666666666666666666666666655 PP

>> FANCI_S2  FANCI solenoid 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   4.1    0.0028       2.1       9     106 ..      14     111 ..       9     121 .. 0.86
   2 ?   -2.7   0.0       8.3   6.2e+03     109     134 ..     213     238 ..     210     250 .. 0.84

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.0028
                 FANCI_S2   9 gfaLldsagpkkvvgvksaeasaaksktvaqaaaklgsqiLlelfkvhesarseiieqllsriitkseeevsqyiklLselvksap 94 
                               f+Ll+ +++   + ++ ++++++  +++  +++++  q    + +  +   seiie+ +++i+++++++++ ++  +s+  ++ +
  PHY93_06900|PHY93_06900  14 VFVLLKMNKTDFSFLTADISNATKPISDKLIQLETIMVQRFEGQKEITKFQVSEIIEEKFKKITAEQNQSTQDIVLHFSKFQQAIT 99 
                              599****998877888888888888899999999998888888888999999*********************9999999999999 PP

                 FANCI_S2  95 ltllesssklke 106
                              +++ +  +k+++
  PHY93_06900|PHY93_06900 100 AQMVSMNEKINK 111
                              998888888765 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 8.3
                 FANCI_S2 109 dylsflpletatallkAllPLlkvse 134
                              d + flp+ t++ ++++ +PL ++++
  PHY93_06900|PHY93_06900 213 DSIIFLPEPTGSLVVDSKFPLENFRR 238
                              88999999999999999999988776 PP

>> TipAS  TipAS antibiotic-recognition domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.3   1.7     0.019        14      15      69 ..      95     149 ..      47     168 .. 0.86
   2 ?   -1.7   0.0       5.6   4.2e+03      35      49 ..     247     261 ..     234     281 .. 0.53
   3 ?    1.1   0.0      0.75   5.6e+02      27      62 ..     342     376 ..     320     387 .. 0.73

  Alignments for each domain:
  == domain 1  score: 6.3 bits;  conditional E-value: 0.019
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX..XXXXXXXXXXXXXXXXXXXX CS
                    TipAS  15 yqeseekiaklskedweelkaelkelfaklaaalaagkdpdseeaqelaeehral 69 
                               q+  +++ +++++  ++l+ +l+e+ ++++++l++g + + e  ++++e++ ++
  PHY93_06900|PHY93_06900  95 QQAITAQMVSMNEKINKDLQLKLNEISDRVKENLDQGFKKTNETFNNVVERLAKI 149
                              4566789999**********************************99999998765 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 5.6
                              XXXXXXXXXXXXX.. CS
                    TipAS  35 aelkelfaklaaala 49 
                              ae ke+ ++++ +l+
  PHY93_06900|PHY93_06900 247 AERKEFVKDFKTNLK 261
                              233333333333332 PP

  == domain 3  score: 1.1 bits;  conditional E-value: 0.75
                              XXXXXXXXXXXXXXXXXXXXX..XXXXXXXXXXXXX CS
                    TipAS  27 kedweelkaelkelfaklaaalaagkdpdseeaqel 62 
                               +++++l++e+ +  +++ a+  ++ d  s++++e+
  PHY93_06900|PHY93_06900 342 HQELNRLADEFSRYKKRWDALA-SHIDTVSKDVKEI 376
                              5666777777777777777774.7777777777665 PP

>> Terminase_2  Terminase small subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3   7.4    0.0083       6.2      33     135 ..      53     155 ..      48     158 .. 0.74
   2 ?    3.6   5.7      0.12        87      38      80 ..     113     167 ..      91     394 .. 0.82

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0083
              Terminase_2  33 rsigselLrkpkIkkaIreakaereertiieadeVlqellkiaraeitdevervklkdseevdkeilrevkegkegvkvklkDklk 118
                              r +g++ ++k +++++I+e+ +++ +++  +++++   + k  +a     v+ ++ k  ++++ ++ +   ++ke+ +  +k +++
  PHY93_06900|PHY93_06900  53 RFEGQKEITKFQVSEIIEEKFKKITAEQNQSTQDIVLHFSKFQQAITAQMVS-MNEKINKDLQLKLNEISDRVKENLDQGFKKTNE 137
                              7899*********************999999999999999988888877777.566666666666666666666677777777777 PP

              Terminase_2 119 Alellakhl.glekeklk 135
                                ++++ +l ++++ ++k
  PHY93_06900|PHY93_06900 138 TFNNVVERLaKIDEAQKK 155
                              777777775344444444 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.12
              Terminase_2  38 elLrkpkIkkaIreakaereertiieadeVlqellkiaraei............t 80 
                                L+  +I+++++e   +  ++t  + ++V ++l+ki +a+             +
  PHY93_06900|PHY93_06900 113 LQLKLNEISDRVKENLDQGFKKTNETFNNVVERLAKIDEAQKkieslsanvvslQ 167
                              4588899***************************999988874444444444441 PP

>> Phasin  Poly(hydroxyalcanoate) granule associated protein (phasin)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   6.8    0.0042       3.1      26     121 ..      73     170 ..      71     175 .. 0.78
   2 ?   -0.0   0.1       1.1   8.2e+02      80      97 ..     358     374 ..     326     397 .. 0.55

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0042
                   Phasin  26 fakvqeeGsklfeaLvkeGeklekktkkvaeekleevresvkskveevkekaeeqwd....klekafdervakaLsrlgvpsredv 107
                              f+k+ +e ++  +++v + +k+++   +++ +  e++++ ++ k++e++++++e++d    k ++ f++ v+  L +++   ++ +
  PHY93_06900|PHY93_06900  73 FKKITAEQNQSTQDIVLHFSKFQQAITAQMVSMNEKINKDLQLKLNEISDRVKENLDqgfkKTNETFNNVVE-RLAKID-EAQKKI 156
                              8899999999999999999*****99999999999***9999999999999999999444355555544333.355555.456789 PP

                   Phasin 108 eaLsarvdeLtkel 121
                              e+Lsa v +L+  l
  PHY93_06900|PHY93_06900 157 ESLSANVVSLQDVL 170
                              99999999998766 PP

  == domain 2  score: -0.0 bits;  conditional E-value: 1.1
                   Phasin  80 qwdklekafdervakaLs 97 
                              +wd l + +d +v+k ++
  PHY93_06900|PHY93_06900 358 RWDALASHID-TVSKDVK 374
                              3333333322.1222222 PP

>> Occludin_ELL  Occludin homology domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.3   3.7      0.37   2.8e+02      44      98 ..      72     126 ..      30     129 .. 0.68
   2 ?    2.4   0.1      0.34   2.6e+02      27      63 ..     128     164 ..     126     179 .. 0.68
   3 ?   -1.4   0.1       5.5   4.1e+03       6      23 ..     245     262 ..     235     268 .. 0.78
   4 ?    8.6   0.1     0.004         3      20      70 ..     341     391 ..     327     396 .. 0.83

  Alignments for each domain:
  == domain 1  score: 2.3 bits;  conditional E-value: 0.37
             Occludin_ELL  44 elkelkegskeykkieeeilqeykklkk...dpeyqekkkrceyLkekLshiKklike 98 
                              + k+    + e ++ +++i+ +++k+++    +    ++k  ++L+ kL+ i  ++ke
  PHY93_06900|PHY93_06900  72 KFKK---ITAEQNQSTQDIVLHFSKFQQaitAQMVSMNEKINKDLQLKLNEISDRVKE 126
                              3333...333455555555555555555441555666677778999999999999986 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.34
             Occludin_ELL  27 lhaeleevskkfseLerelkelkegskeykkieeeil 63 
                              l + +++++++f+++ ++l + +e +k+++++ ++++
  PHY93_06900|PHY93_06900 128 LDQGFKKTNETFNNVVERLAKIDEAQKKIESLSANVV 164
                              5556677777777777777777777777777776643 PP

  == domain 3  score: -1.4 bits;  conditional E-value: 5.5
             Occludin_ELL   6 saeqrerYkaeFnkeYke 23 
                              ++ +r+++ ++F+++ k+
  PHY93_06900|PHY93_06900 245 TDAERKEFVKDFKTNLKK 262
                              567888888888877665 PP

  == domain 4  score: 8.6 bits;  conditional E-value: 0.004
             Occludin_ELL  20 eYkeYkelhaeleevskkfseLerelkelkegskeykkieeeilqeykklk 70 
                               ++e ++l +e++ ++k+   L +++++ +++ ke++ ++ +i +++++++
  PHY93_06900|PHY93_06900 341 IHQELNRLADEFSRYKKRWDALASHIDTVSKDVKEIHITTGKITDRFEHIS 391
                              477888999999999999999999999999999999999999999999886 PP

>> Cep57_MT_bd  Centrosome microtubule-binding domain of Cep57
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.5      0.73   5.4e+02      30      63 ..      90     123 ..      68     130 .. 0.81
   2 ?    2.6   0.2      0.25   1.9e+02      56      77 .]     148     169 ..     143     169 .. 0.93
   3 ?    4.9   0.0     0.047        35      17      42 ..     345     370 ..     333     379 .. 0.85

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 0.73
              Cep57_MT_bd  30 elqelaaqynaldpslgkrkRkdLaeeleelvkr 63 
                               ++++++ + a   s++++  kdL+ +l+e+ +r
  PHY93_06900|PHY93_06900  90 HFSKFQQAITAQMVSMNEKINKDLQLKLNEISDR 123
                              5677788888877888899999999999988776 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.25
              Cep57_MT_bd  56 eleelvkrlEaKadqIykLydv 77 
                              +++e +k++E+ +  + +L+dv
  PHY93_06900|PHY93_06900 148 KIDEAQKKIESLSANVVSLQDV 169
                              7999****************98 PP

  == domain 3  score: 4.9 bits;  conditional E-value: 0.047
              Cep57_MT_bd  17 lkeLedEfehlklelqelaaqynald 42 
                              l+ L dEf+ +k++ + la+++    
  PHY93_06900|PHY93_06900 345 LNRLADEFSRYKKRWDALASHIDTVS 370
                              67899**************9998776 PP

>> YtxH  YtxH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.2       1.3   9.4e+02      29      70 ..      31      72 ..      28     110 .. 0.58
   2 ?    8.8   1.4    0.0031       2.3      24      68 ..     111     157 ..     106     168 .. 0.53
   3 ?    3.1   0.1      0.18   1.4e+02      43      72 ..     238     269 ..     227     271 .. 0.74
   4 ?   -1.0   0.0       3.5   2.6e+03      53      64 ..     363     374 ..     335     392 .. 0.49

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 1.3
                     YtxH 29 dlkekaddlkekakelleeakeka.......kekaedlkekvkekadel 70
                             d++++++ +++k+ +l + + ++        k        +v+e ++e 
  PHY93_06900|PHY93_06900 31 DISNATKPISDKLIQLETIMVQRFegqkeitK-------FQVSEIIEEK 72
                             67777777777777776666666655432220.......2222222222 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.0031
                     YtxH  24 ketRkdlkekaddlkekakelleeakeka......kekaedlkekvkekad 68 
                              k+++ +l+e  d +ke++++  ++++e+         k+++++    +k++
  PHY93_06900|PHY93_06900 111 KDLQLKLNEISDRVKENLDQGFKKTNETFnnvverLAKIDEAQ----KKIE 157
                              3445555566666666666666666555566633333333333....3333 PP

  == domain 3  score: 3.1 bits;  conditional E-value: 0.18
                     YtxH  43 elleeakeka..kekaedlkekvkekadelke 72 
                              ++ +  +  a  ke ++d+k+++k+ +d+++ 
  PHY93_06900|PHY93_06900 238 RMFDASYTDAerKEFVKDFKTNLKKHIDDIAT 269
                              45555555556688899********9999876 PP

  == domain 4  score: -1.0 bits;  conditional E-value: 3.5
                     YtxH  53 kekaedlkekvk 64 
                              ++ ++ ++++vk
  PHY93_06900|PHY93_06900 363 ASHIDTVSKDVK 374
                              222333333332 PP

>> DUF1664  Protein of unknown function (DUF1664)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   3.6      0.98   7.3e+02      38     120 ..      31     120 ..       7     121 .. 0.55
   2 ?    8.8   5.1    0.0021       1.5      40     116 ..      92     169 ..      89     175 .. 0.89
   3 ?   -2.7   0.0       7.6   5.7e+03      57      72 ..     253     268 ..     248     271 .. 0.65
   4 ?    7.7   0.6    0.0046       3.5      42     108 ..     324     392 ..     316     398 .] 0.61

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.98
                  DUF1664  38 slsdavesvskqleqvs....eslaatkrhLssridr.vdkkldeqk.eiskeikeevtevredlseigedvesvkeave.glesk 116
                               +s+a + +s +l q+     +  + +k+  + ++ + +++k ++ + e  +++++ v + ++  ++i  ++ s++e ++ +l+ k
  PHY93_06900|PHY93_06900  31 DISNATKPISDKLIQLEtimvQRFEGQKEITKFQVSEiIEEKFKKITaEQNQSTQDIVLHFSKFQQAITAQMVSMNEKINkDLQLK 116
                              56677777776666654111222222222222233221344444443144455666667777777777778777777664257777 PP

                  DUF1664 117 leri 120
                              l++i
  PHY93_06900|PHY93_06900 117 LNEI 120
                              7766 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.0021
                  DUF1664  40 sdavesvskqleqvseslaat.krhLssridrvdkkldeqkeiskeikeevtevredlseigedvesvkeaveglesk 116
                              s++ + ++ q+ ++ e++++  + +L++  drv ++ld+  + ++e+ ++v e   +++e ++++es+++ v +l+  
  PHY93_06900|PHY93_06900  92 SKFQQAITAQMVSMNEKINKDlQLKLNEISDRVKENLDQGFKKTNETFNNVVERLAKIDEAQKKIESLSANVVSLQDV 169
                              6788899***********8762668888889***************************************99999865 PP

  == domain 3  score: -2.7 bits;  conditional E-value: 7.6
                  DUF1664  57 laatkrhLssridrvd 72 
                              +++ k +L+++id + 
  PHY93_06900|PHY93_06900 253 VKDFKTNLKKHIDDIA 268
                              5666777777777665 PP

  == domain 4  score: 7.7 bits;  conditional E-value: 0.0046
                  DUF1664  42 avesvskqleqvs..eslaatkrhLssridrvdkkldeqkeiskeikeevtevredlseigedvesvke 108
                               v+ v +++e+ +  + +++  ++L+++  r  k+ d+ +  +  ++++v+e++  + +i + +e+++e
  PHY93_06900|PHY93_06900 324 TVQVVLNNIERSKytNVIHQELNRLADEFSRYKKRWDALASHIDTVSKDVKEIHITTGKITDRFEHISE 392
                              555555555544322556666666677777777777777777777777777777777777766666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (398 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2474  (0.137989); expected 358.6 (0.02)
Passed bias filter:                      743  (0.0414412); expected 358.6 (0.02)
Passed Vit filter:                        84  (0.00468515); expected 17.9 (0.001)
Passed Fwd filter:                        28  (0.00156172); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              24  [number of targets reported over threshold]
# CPU time: 0.77u 0.29s 00:00:01.06 Elapsed: 00:00:00.44
# Mc/sec: 2698.77
//
Query:       PHY93_06905|PHY93_06905  [L=160]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      1e-65  220.6   0.0    1.1e-65  220.5   0.0    1.0  1  PMSR      Peptide methionine sulfoxide reductase
     0.0047   17.1   0.6     0.0064   16.6   0.6    1.2  1  KaiA      KaiA C-terminal domain


Domain annotation for each model (and alignments):
>> PMSR  Peptide methionine sulfoxide reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  220.5   0.0   1.3e-69   1.1e-65       2     153 .]       6     157 ..       5     158 .. 0.98

  Alignments for each domain:
  == domain 1  score: 220.5 bits;  conditional E-value: 1.3e-69
                              EEEE-S-HHHHHHHHCTSTTEEEEEEEEESSS-SS--HHHHHTTTT--EEEEEEEEETTTS-HHHHHHHHHHTS-TT-SSEETTEE CS
                     PMSR   2 avlagGCFWgveklfeklkGvlstevGYagGktenptYeevcsgktghaEavevvydpekvsleellelffeihDptqlnrqgnDv 87 
                              a+l++GCFWgve++++k++G++stevGY gG +++ptY  vcsg+tghaE+v v++dp+++s+e++l++ff+ hDpt+lnrq nD+
  PHY93_06905|PHY93_06905   6 ALLGAGCFWGVEHILKKIDGIISTEVGYSGGVVKDPTYPLVCSGSTGHAEVVLVEFDPAVISYEKVLDVFFRLHDPTTLNRQHNDI 91 
                              89************************************************************************************ PP

                              SGGG--EEEESSCCHHHHHHHHHHHHHTTHTTSSS---EEEEG-SEEE--CCCTTHHHH-TTS--T CS
                     PMSR  88 GtqYrsaiyytneeqkevaeevleelqkkkalkkkivteieplkefykaeeyHqqYleknpegych 153
                              GtqYrs+i+y n+eqk++a+ev+e+++ +k +k+++vt++++++efy ae+yHq+Yl knp+gy++
  PHY93_06905|PHY93_06905  92 GTQYRSVIFYYNDEQKRIANEVIEKMNISKVFKDPLVTQVREAGEFYSAEDYHQDYLVKNPDGYMC 157
                              ***************************************************************964 PP

>> KaiA  KaiA C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.6   7.2e-07    0.0064       9      74 ..      67     133 ..      63     149 .. 0.87

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 7.2e-07
                              EEE--GGGSCCCSTHHHHHHHHHHHHHHHHHHHHHCTSTTSSH.HHHHHHHHHHHHHTT--HHHHHH CS
                     KaiA   9 yykrdpkkflrnlskeekkelleelkseyreivleyfkddsev.nqkidefvnkaffadlsvskile 74 
                               y++  + f+r  +++  ++  +++ ++yr++++ y ++++++ n+ i+++  +  f d  v+++ e
  PHY93_06905|PHY93_06905  67 SYEKVLDVFFRLHDPTTLNRQHNDIGTQYRSVIFYYNDEQKRIaNEVIEKMNISKVFKDPLVTQVRE 133
                              577888899**9999999****************99988887637788999989999**99999866 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (160 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       619  (0.0345251); expected 358.6 (0.02)
Passed bias filter:                      464  (0.0258799); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.39
# Mc/sec: 1233.56
//
Query:       PHY93_16315|PHY93_16315  [L=366]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.3e-83  278.2   6.9    4.5e-83  277.8   6.9    1.2  1  AlaDh_PNT_C     Alanine dehydrogenase/PNT, C-terminal domain
    7.5e-46  155.8   0.0    1.4e-45  155.0   0.0    1.4  1  AlaDh_PNT_N     Alanine dehydrogenase/PNT, N-terminal domain
    2.7e-06   27.5   0.1    5.4e-06   26.5   0.1    1.4  1  Shikimate_DH    Shikimate / quinate 5-dehydrogenase
    1.2e-05   24.7   0.4    2.4e-05   23.8   0.4    1.4  1  2-Hacid_dh_C    D-isomer specific 2-hydroxyacid dehydrogenase
      4e-05   23.8   2.4    0.00047   20.3   1.7    2.2  2  NAD_binding_2   NAD binding domain of 6-phosphogluconate dehy
     0.0034   17.4   0.1     0.0099   15.9   0.1    1.8  1  ADH_zinc_N      Zinc-binding dehydrogenase
     0.0043   16.2   1.5     0.0046   16.1   0.3    1.6  2  GIDA            Glucose inhibited division protein A
     0.0045   16.3   0.4      0.007   15.6   0.4    1.3  1  Pyr_redox_2     Pyridine nucleotide-disulphide oxidoreductase
     0.0053   16.6   2.0      0.012   15.5   1.6    1.8  1  3HCDH_N         3-hydroxyacyl-CoA dehydrogenase, NAD binding 
  ------ inclusion threshold ------
      0.044   13.4   2.1       0.18   11.4   0.9    2.5  2  UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family,
      0.072   13.5   0.1       0.16   12.4   0.1    1.5  1  NAD_binding_7   Putative NAD(P)-binding
      0.092   13.3   0.1       0.24   12.0   0.1    1.7  1  Pyr_redox       Pyridine nucleotide-disulphide oxidoreductase


Domain annotation for each model (and alignments):
>> AlaDh_PNT_C  Alanine dehydrogenase/PNT, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  277.8   6.9     3e-86   4.5e-83       1     213 [.     141     352 ..     141     353 .. 0.98

  Alignments for each domain:
  == domain 1  score: 277.8 bits;  conditional E-value: 3e-86
                              HHHHHHHHCSCGCTSEEETTCEETCB---EEEEESTSHHHHHHHHHHHHTT-EEEEEESSHHHHHHHHHTTTCECEEHCHHHHHHH CS
              AlaDh_PNT_C   1 AvleaakalekffggkgtlaGgvpgvepakvlviGgGvaGlqAiatakglgakVtvlDvrparleqleslgakfvevlksqeella 86 
                              +v+++a++l+  +ggkg+l+Ggvpgv++akv+viG+G+aG++Ai++a+g+ga+Vt++D++++rl +l++l ++ +++++s++e+++
  PHY93_16315|PHY93_16315 141 SVQIGATYLQLDKGGKGILLGGVPGVKRAKVTVIGAGIAGTNAIQMAMGMGASVTAIDLSTKRLAELDALYGSHITTIYSNQENIE 226
                              699******************************************************************77777************ PP

                              HHHHH-SEEEE---BTTSS---SC-HHHHHTS-TTEEEEETTGGGT-SBTT--TBBTTSEEEEETTEEEEEBSTGGGGSHHHHHHH CS
              AlaDh_PNT_C  87 eavkeadvvigtvlipGkkaPkLvteemvksMkpgsVivDvAidqGGnvetsrltthgepvveekgvvhygvanlpgavprtasal 172
                              +av e+d+vig+vl+pG+kaPkLvt++m+++M +gsV+vD+A+dqGG++et+++tth++p++ ++gvvhy+van+pgav+rt++++
  PHY93_16315|PHY93_16315 227 KAVLESDLVIGAVLVPGAKAPKLVTRDMISKMSKGSVVVDIAVDQGGCIETCKPTTHENPTFIVDGVVHYCVANMPGAVARTSTFA 312
                              ************************************************************************************** PP

                              HHHHHHHHHHHHCHHHTCCHHHCTSHHHHCCEEEETTEESS CS
              AlaDh_PNT_C 173 ltnntlpyleelladkglkkalkedealrkglvvkkGkvtn 213
                              ltn tl+y++++ a+ g+++a ++d+ +r g++++kG++++
  PHY93_16315|PHY93_16315 313 LTNVTLKYARMI-ANMGVEEAAQKDKSFRPGINIYKGSLVY 352
                              ************.************************9987 PP

>> AlaDh_PNT_N  Alanine dehydrogenase/PNT, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  155.0   0.0   9.2e-49   1.4e-45       1     136 []       4     137 ..       4     137 .. 0.99

  Alignments for each domain:
  == domain 1  score: 155.0 bits;  conditional E-value: 9.2e-49
                              EE---SSTT----SS-HHHHHHHHHTT-EEEEETTTTGGGTC-HHHHHHTTEEEESCHHHHCTTSSEEEESS--.CHCGGGS-TTC CS
              AlaDh_PNT_N   1 gvpkEikagErRvaltPatvkkLvkaGhevlVesgaGegagfsdeeYeeaGaeivesaeevlaeadlilkVkepseeelellkegq 86 
                              gvpkEik++E+Rv+++Pa++++Lv  Gh+v+V+++aG+g+g++dee+ + Ga+i ++a+e+++++ li+kVkep+++e+++lk+++
  PHY93_16315|PHY93_16315   4 GVPKEIKNNENRVGMVPAGIRALVTDGHTVYVQKNAGAGIGITDEEFIKSGAKILDTATEIFEKSTLIIKVKEPQASEIAMLKPNH 89 
                              89************************************************************************************ PP

                              EEEEE--GGCHHHHHHHHHHCTEEEEEGGG-BSSGCCGGGTHHHHHHHHH CS
              AlaDh_PNT_N  87 tlisflhlaanpellealaekgvtaialElvprisraqsldaLssmaeia 136
                              +l+++lhla++pe+++ l+++g+taia+E++++  ++ sl++L +m+e+a
  PHY93_16315|PHY93_16315  90 ILYTYLHLAPDPEQTKGLMKSGCTAIAYETIQN-ADG-SLPLLVPMSEVA 137
                              *********************************.599.**********98 PP

>> Shikimate_DH  Shikimate / quinate 5-dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.5   0.1   3.6e-09   5.4e-06       9     113 ..     165     269 ..     161     293 .. 0.81

  Alignments for each domain:
  == domain 1  score: 26.5 bits;  conditional E-value: 3.6e-09
                              ..TT-EEEEES-SHHHHHHHHHHHCCT-CEEEEEESSHHHHHHHHHHH.T.ET-EEEEGCGHHHHHHT-SEEEE-SSSSS-....S CS
             Shikimate_DH   9 slkekkvlliGaGemaelvakhLlakgvkkvvvaNRtlerakelaeel.kgeeiealkleelkellaeadvvisataseep....i 89 
                               +k++kv++iGaG  ++ ++++ +  g+  v+ +  + +r +el   + ++  + + + e++++++ e+d+vi a+  + +    +
  PHY93_16315|PHY93_16315 165 GVKRAKVTVIGAGIAGTNAIQMAMGMGAS-VTAIDLSTKRLAELDALYgSHITTIYSNQENIEKAVLESDLVIGAVLVPGAkapkL 249
                              5789***********************99.**************9999344456788999***************96555411126 PP

                              B-HHHHHCCHHH.S..EEEEE--S CS
             Shikimate_DH  90 lekeeveealkkrkkplllvDiav 113
                              ++++++++++    k  ++vDiav
  PHY93_16315|PHY93_16315 250 VTRDMISKMS----KGSVVVDIAV 269
                              6666666665....568******8 PP

>> 2-Hacid_dh_C  D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.8   0.4   1.6e-08   2.4e-05      34     127 ..     166     268 ..     158     277 .. 0.83

  Alignments for each domain:
  == domain 1  score: 23.8 bits;  conditional E-value: 1.6e-08
                              GTTSEEEEES-SHHHHHHHHHHHHTT-EEEEESSSHHHHH........CHHHHTCEECSHHHHHHH-SEEEE-S-.-STTTTTSBS CS
             2-Hacid_dh_C  34 lsgktvGiiGlGrIGqavakrlkafgmkviaydrskkkee........eeeelgvelvsleellaesDivslhlp.ltpetrhlin 110
                              +++ +v +iG+G  G+++++++ ++g+ v+a+d s k+ +        +  +   + +++e+++ esD v+ ++    ++  +l++
  PHY93_16315|PHY93_16315 166 VKRAKVTVIGAGIAGTNAIQMAMGMGASVTAIDLSTKRLAeldalygsHITTIYSNQENIEKAVLESDLVIGAVLvPGAKAPKLVT 251
                              67889*****************************999665455555434444445778999*******998665524678899*** PP

                              HHHHHCSTTTEEEEESS CS
             2-Hacid_dh_C 111 aeelakmkkgailiNta 127
                              +++++km kg++++ +a
  PHY93_16315|PHY93_16315 252 RDMISKMSKGSVVVDIA 268
                              **************987 PP

>> NAD_binding_2  NAD binding domain of 6-phosphogluconate dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   0.0      0.15   2.3e+02      18      70 ..      26      81 ..      22     122 .. 0.71
   2 !   20.3   1.7   3.2e-07   0.00047       1      89 [.     170     267 ..     170     272 .. 0.81

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.15
                             HHHTT-EEEEE-SSHHHH....HHHHHTTEEE-SSHHHHHHHCSEEEE-SSSHHHHH CS
            NAD_binding_2 18 llkagykvavynrtkekv....eelvaegakaaesieelvasldvvitmvkagkavd 70
                             l+  g++v+v     + +    ee++++gak+++++ e++++  + i+ vk+ +a +
  PHY93_16315|PHY93_16315 26 LVTDGHTVYVQKNAGAGIgitdEEFIKSGAKILDTATEIFEKSTL-IIKVKEPQASE 81
                             566667777666555432222278999999999999999999655.45666666555 PP

  == domain 2  score: 20.3 bits;  conditional E-value: 3.2e-07
                              EEEEE--SHHHHHHHHHHHHTT-EEEEE-SSHHHHHHHHHTT...EEE-SSHHHHHHHC....SEEE..E-SSSHHHHHHHHHSHC CS
            NAD_binding_2   1 kigfiGlGvMGsnmalnllkagykvavynrtkekveelvaeg...akaaesieelvasl....dvvi..tmvkagkavdeviegll 77 
                              k+ +iG G+ G+n ++  +  g +v++++++++++ el a     +++++s +e ++++    d+vi  ++v+  ka + v+++++
  PHY93_16315|PHY93_16315 170 KVTVIGAGIAGTNAIQMAMGMGASVTAIDLSTKRLAELDALYgshITTIYSNQENIEKAvlesDLVIgaVLVPGAKAPKLVTRDMI 255
                              689***************************998777766553455777777766666666777888754678888888888888** PP

                              CC--TT-EEEE- CS
            NAD_binding_2  78 ealkkgdilidg 89 
                              ++++kg++++d 
  PHY93_16315|PHY93_16315 256 SKMSKGSVVVDI 267
                              **********97 PP

>> ADH_zinc_N  Zinc-binding dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.1   6.6e-06    0.0099       3      50 ..     180     229 ..     179     243 .. 0.80

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 6.6e-06
                              HHHHHHHHHHTT-EEEEEESSHHHHHHHHH.TTESEEEETTTC.HHHHHH CS
               ADH_zinc_N   3 GlaavqlAkalGaeviavdsseeklelakk.lGadevinykea.dlveri 50 
                              G+ a+q+A  +Ga v+a+d s ++l+ +   +G + +  y++  ++++++
  PHY93_16315|PHY93_16315 180 GTNAIQMAMGMGASVTAIDLSTKRLAELDAlYGSHITTIYSNQeNIEKAV 229
                              899***********************999956755444444444565555 PP

>> GIDA  Glucose inhibited division protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0       1.2   1.8e+03     121     168 ..      33      82 ..      21     116 .. 0.77
   2 !   16.1   0.3   3.1e-06    0.0046       1      38 [.     170     207 ..     170     227 .. 0.91

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 1.2
                              EEECTTEEEEEEETTS-EEEECEEEE--TT..-BT-EEEETTEEEESSCT CS
                     GIDA 121 liveekkvkgvvtedgetikakavviatGt..flkgkihigekelsaGrl 168
                              + v+++  +g+  +d+e ik+ a ++ t t  f k++ +i+ ke +a  +
  PHY93_16315|PHY93_16315  33 VYVQKNAGAGIGITDEEFIKSGAKILDTATeiFEKSTLIIKVKEPQASEI 82 
                              55666777888888888888888888888877888888887777766554 PP

  == domain 2  score: 16.1 bits;  conditional E-value: 3.1e-06
                              CEEEE-SSHHHHHHHHHHHHTT--EEEEES-GGGTT-- CS
                     GIDA   1 dviViGgGhAGceAAlaaarlGakvlLithkldtiael 38 
                              +v+ViG+G AG+ A   a  +Ga+v+ i  +++++ael
  PHY93_16315|PHY93_16315 170 KVTVIGAGIAGTNAIQMAMGMGASVTAIDLSTKRLAEL 207
                              69**************************9999999997 PP

>> Pyr_redox_2  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.4   4.7e-06     0.007       2      82 ..     170     271 ..     169     294 .. 0.62

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 4.7e-06
                              SEEEE--SHHHHHHHHHHHHHTS-EEEEE.TTHCHHHCSHHH.HCHHHHHHHHHHHHH.....................HHHHCHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxx.xxxxxxxxxxxxxxx.....................xxxxxxx RF
              Pyr_redox_2   2 dvvviGgGpAGlaaaltlaqagakvtlve.legtclnggcll.skallgvaedaeias.....................evvkkln 64 
                              +v viG+G+AG++a + +   ga vt ++ +++ +   + l+ s++ + ++ +++i++                          ++
  PHY93_16315|PHY93_16315 170 KVTVIGAGIAGTNAIQMAMGMGASVTAIDlSTKRLAELDALYgSHITTIYSNQENIEKavlesdlvigavlvpgakapkL----VT 251
                              799***********9999999*******9755555555555534444444444444446667777777777777654431....22 PP

                              HH.CCCCHCCT.CEEEEESC CS
                              xx.xxxxxxxx.xxxxxxxx RF
              Pyr_redox_2  65 qg.ielllgee.vvkidpgk 82 
                               + i ++ + + vv+i  ++
  PHY93_16315|PHY93_16315 252 RDmISKMSKGSvVVDIAVDQ 271
                              22344444434455555555 PP

>> 3HCDH_N  3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   1.6   7.8e-06     0.012       1      47 [.     170     216 ..     170     234 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 7.8e-06
                              EEEEE--SCCHHHHHHHHHHTT-EEEEE-S-HHHHHHHHHHHHHHHH CS
                  3HCDH_N   1 kvaviGaGtmGagiaavfasagleVvlvdiseealekalekieksle 47 
                              kv+viGaG+ G+   ++++  g +V+ +d s+++l++  +   + + 
  PHY93_16315|PHY93_16315 170 KVTVIGAGIAGTNAIQMAMGMGASVTAIDLSTKRLAELDALYGSHIT 216
                              79********************************9988776666554 PP

>> UDPG_MGDP_dh_N  UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.0      0.82   1.2e+03     108     136 ..      55      83 ..      48     104 .. 0.68
   2 ?   11.4   0.9   0.00012      0.18       2      41 ..     170     209 ..     169     266 .. 0.86

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.82
                              HHHHHCEEEEEE-S---TTHHHHCHHHHH CS
           UDPG_MGDP_dh_N 108 aealkkgkvvvvkSTvpvgtaeelvkkil 136
                              a++l+  + + +kST  ++  e  +++i+
  PHY93_16315|PHY93_16315  55 AKILDTATEIFEKSTLIIKVKEPQASEIA 83 
                              56677777788888888887776655554 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 0.00012
                              EEEEE--STTHHHHHHHHHHCTSEEEEE-S-HHHHHHHCT CS
           UDPG_MGDP_dh_N   2 kisviGlGYvGlvtaavlaeighevigvDideekvdklns 41 
                              k++viG+G  G     +   +g  v+ +D ++++ ++l +
  PHY93_16315|PHY93_16315 170 KVTVIGAGIAGTNAIQMAMGMGASVTAIDLSTKRLAELDA 209
                              89*********999999999**************999865 PP

>> NAD_binding_7  Putative NAD(P)-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   0.00011      0.16       6      69 ..     167     239 ..     165     259 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.00011
            NAD_binding_7   6 kgkkvlvvGgGevAarkvrklleagakvtvvapevkeele.........elvklaeeelekdlegadlviaat 69 
                              k+ kv v+G+G  +++ ++  +  ga vt ++  +k+ +e          ++  ++e++ek + + dlvi a+
  PHY93_16315|PHY93_16315 167 KRAKVTVIGAGIAGTNAIQMAMGMGASVTAIDLSTKRLAEldalygshiTTIYSNQENIEKAVLESDLVIGAV 239
                              7889***************************999755555777777655555578999999999999999885 PP

>> Pyr_redox  Pyridine nucleotide-disulphide oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.1   0.00016      0.24       1      53 [.     170     222 ..     170     228 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00016
                              EEEEECSSHHHHHHHHHHHHTTSEEEEEESSSSSSTTSSHHHHHHHHHHHHHT CS
                Pyr_redox   1 kvvvvGgGyiglElAgalaelgkkVtvversdkllrllDeeaskilqeklekn 53 
                              kv+v+G+G  g  + +++  +g++Vt ++ s k l  lD+  ++ +++  +++
  PHY93_16315|PHY93_16315 170 KVTVIGAGIAGTNAIQMAMGMGASVTAIDLSTKRLAELDALYGSHITTIYSNQ 222
                              799******************************99999988877777766555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (366 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       445  (0.0248201); expected 358.6 (0.02)
Passed bias filter:                      347  (0.0193541); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.53u 0.25s 00:00:00.78 Elapsed: 00:00:00.41
# Mc/sec: 2657.87
//
Query:       PHY93_05475|PHY93_05475  [L=198]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    2.2e-43  148.2   0.0    2.5e-43  148.0   0.0    1.0  1  His_Phos_1  Histidine phosphatase superfamily (branch 1)


Domain annotation for each model (and alignments):
>> His_Phos_1  Histidine phosphatase superfamily (branch 1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  148.0   0.0   1.4e-47   2.5e-43       1     184 [.       5     189 ..       5     195 .. 0.93

  Alignments for each domain:
  == domain 1  score: 148.0 bits;  conditional E-value: 1.4e-47
                              EEEEE---BTTB--....TT----B-HHHHHHHHHHHHHHTTS---EEEE-SSHHHHHHHHHHHHCTT--EEE-GGGS----GGGT CS
               His_Phos_1   1 lyLvRHGetewnaegrlqgrtdvpLteeGreqAealaerlagepidaiysSplkRarqTaeliaealglpveldegLrEidfGdwe 86 
                              +y+ RHGet+wn+e+r+qg+t++ L+e+G +qA +la+++ + pi+ i+sS+l Ra  T +++ae+ g+p+ +d++LrE+++G+ e
  PHY93_05475|PHY93_05475   5 FYIFRHGETDWNRERRCQGHTNTGLNEKGLQQALELAQKMLDFPIEIIVSSDLDRALSTGAIVAEKKGVPLMVDPRLREMSYGEAE 90 
                              699*********************************************************************************** PP

                              T-B.HHHH....HH..HSHHHHHHHHH-GGG-BS-BHHHHHHHHHHHHHHHHHHTTTSEEEEEE-HHHHHHHHHHHHT--GGGGGG CS
               His_Phos_1  87 glttaeia....eeypeeleawlrdpadvrppggEsledvaaRvaaaleelaarhegetvlvVsHggvirallarllglpleelrr 168
                              g+ ++e+     +e +++l+ ++rd ++v +pggE+ +  ++R +aal el++++  + + + +Hgg++r ll+ +l   +e+   
  PHY93_05475|PHY93_05475  91 GMLYDEAVcvygAELWQKLQCFKRDNDHVGFPGGETRKIARERFHAALMELIESTTYQSIGISTHGGALRNLLHSFL---PEDHLM 173
                              ******863333677788888999***************************************************99...555667 PP

                              B---TT-EEEEEE-SS CS
               His_Phos_1 169 leldnaslsvlefdeg 184
                              l+++n+ +++ e+ ++
  PHY93_05475|PHY93_05475 174 LPIPNCVVYKCEYFSQ 189
                              899***9999998665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (198 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       398  (0.0221987); expected 358.6 (0.02)
Passed bias filter:                      390  (0.0217525); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.39
# Mc/sec: 1529.03
//
Query:       PHY93_06910|PHY93_06910  [L=117]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.7e-07   31.5   7.3      2e-07   31.3   7.3    1.1  1  DUF1761   Protein of unknown function (DUF1761)


Domain annotation for each model (and alignments):
>> DUF1761  Protein of unknown function (DUF1761)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.3   7.3   1.1e-11     2e-07      21     124 ..      18     115 ..      11     116 .. 0.91

  Alignments for each domain:
  == domain 1  score: 31.3 bits;  conditional E-value: 1.1e-11
                  DUF1761  21 vFgkaWmkergmteekakeaenkalamglslvlslliayvlaallaalgartfkagallglllglgfiapaiisnalfekkslklv 106
                              +F   W+  ++m  +k +      +++ l +++sl+ a++l ++ + l++ t+++ + + l  +l ++a +++++++ +++s k +
  PHY93_06910|PHY93_06910  18 LFYLFWQ--KKMGLKKIHG----FKTLSLIFFGSLFNAWGLDVIQRMLEIFTIVQMMKISLGCWLMIAAATSAKHYAVNGWSKKNF 97 
                              5556788..7777777777....4678999******************************************************** PP

                  DUF1761 107 lIdagywlvtllvmgvil 124
                              +Id g  l+++++mg+i+
  PHY93_06910|PHY93_06910  98 WIDYGGDLIGFMIMGLII 115
                              *****************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (117 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       548  (0.030565); expected 358.6 (0.02)
Passed bias filter:                      268  (0.0149478); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.40u 0.24s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 883.93
//
Query:       PHY93_06915|PHY93_06915  [L=232]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.6e-07   28.8   0.0    1.5e-06   27.8   0.0    1.4  1  MTS              Methyltransferase small domain
    4.1e-06   26.7   0.0    6.1e-06   26.1   0.0    1.2  1  Methyltransf_16  Lysine methyltransferase
    4.2e-05   23.3   0.0    6.6e-05   22.6   0.0    1.2  1  Cons_hypoth95    Conserved hypothetical protein 95
     0.0009   19.1   0.5     0.0059   16.4   0.1    2.1  2  N6-adenineMlase  Probable N6-adenine methyltransferase
     0.0069   15.7   0.0      0.011   15.0   0.0    1.3  1  Ubie_methyltran  ubiE/COQ5 methyltransferase family
  ------ inclusion threshold ------
      0.068   12.1   0.0      0.082   11.8   0.0    1.1  1  AFG1_ATPase      AFG1-like ATPase
      0.091   13.5   0.0       0.21   12.3   0.0    1.6  1  Methyltransf_25  Methyltransferase domain
       0.13   12.1   0.3       0.27   11.0   0.3    1.7  1  Methyltransf_31  Methyltransferase domain


Domain annotation for each model (and alignments):
>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.8   0.0   6.9e-10   1.5e-06      27     107 ..      56     145 ..      38     153 .. 0.74

  Alignments for each domain:
  == domain 1  score: 27.8 bits;  conditional E-value: 6.9e-10
                              CHCCTCSEEEEET-TTSHHHHHHHHHTTC.E.EEEEESBHHHHHHHHHHHHHTTGC........EEEEE-STTTTSTTS-EEEEEE CS
                      MTS  27 lpkelsgkvlDlGcGaGvlgaalakespeae.vtlvdvdarAlesakenleankle........vevvasdvleeveekkfdlivs 103
                                + ++ +vlDl++G G++g++l  + ++   +++++v+    ++  +n e    e        +++  + +lee  e+ +dlivs
  PHY93_06915|PHY93_06915  56 EAEVANWQVLDLCAGCGIIGLELSLHAKRRMnIDFLEVQEIYRTFFDKNKEMIYPEaessqyrfLNLNYQKLLEEKYENTYDLIVS 141
                              33336778**************98766654449999998877777777665443333345556888889999999999******** PP

                              ---S CS
                      MTS 104 NPPf 107
                              NPP+
  PHY93_06915|PHY93_06915 142 NPPY 145
                              ***6 PP

>> Methyltransf_16  Lysine methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.1   0.0   2.7e-09   6.1e-06      29     126 ..      42     141 ..      39     149 .. 0.76

  Alignments for each domain:
  == domain 1  score: 26.1 bits;  conditional E-value: 2.7e-09
          Methyltransf_16  29 vkylekklake.lganelsklsvlELGsGtGlvGlavaell.peakviltDlee.llellkknielnkn.alkskvkvevLdWgee 110
                              + +l++k+ak    ++e+++ +vl+L +G+G++Gl + +++  ++++    ++e    +  kn e+    a +s+ ++  L++++ 
  PHY93_06915|PHY93_06915  42 SVFLAQKVAKLiETEAEVANWQVLDLCAGCGIIGLELSLHAkRRMNIDFLEVQEiYRTFFDKNKEMIYPeAESSQYRFLNLNYQKL 127
                              5788888877755678999*********************6577777666655545566667766644468888899999999887 PP

          Methyltransf_16 111 leedllekeevDlila 126
                              lee+   ++++Dli+ 
  PHY93_06915|PHY93_06915 128 LEEKY--ENTYDLIVS 141
                              75555..4569**985 PP

>> Cons_hypoth95  Conserved hypothetical protein 95
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.6   0.0   2.9e-08   6.6e-05      38     125 ..      57     147 ..      47     154 .. 0.78

  Alignments for each domain:
  == domain 1  score: 22.6 bits;  conditional E-value: 2.9e-08
                              CCHCC-EEEETT-TTSHHHHHHHHTT-SEEE...EEES-HHHHHHHHHHHCCCT--T..TTEEEEES-HHHHCTS--SS-EEEEEE CS
            Cons_hypoth95  38 aeiegarvLDlfaGsGalglEAlSRgakkav...lvekdkeavkilkenleelklee..etaelkedaleallklakkkeefdivf 118
                              ae+ + +vLDl+aG G +glE lS  ak+ +   ++e ++   +   +n e++  e+  ++  + + ++++ll++ k ++ +d++ 
  PHY93_06915|PHY93_06915  57 AEVANWQVLDLCAGCGIIGLE-LSLHAKRRMnidFLEVQEIYRTFFDKNKEMIYPEAesSQYRFLNLNYQKLLEE-KYENTYDLIV 140
                              5589999**************.78888876533377888888889999999998766555555666677777777.567789**** PP

                              E--SSST CS
            Cons_hypoth95 119 lDPPyak 125
                               +PPy  
  PHY93_06915|PHY93_06915 141 SNPPYFF 147
                              *****65 PP

>> N6-adenineMlase  Probable N6-adenine methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.0      0.13     3e+02      64      82 ..      20      37 ..       9      62 .. 0.73
   2 !   16.4   0.1   2.6e-06    0.0059      55     101 ..     101     148 ..      67     209 .. 0.76

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 0.13
          N6-adenineMlase 64 lygeekfvfYdlnnpeelp 82
                             +++++    Yd+++pee +
  PHY93_06915|PHY93_06915 20 MIKNS-HYTYDYFQPEEYR 37
                             44444.789******9755 PP

  == domain 2  score: 16.4 bits;  conditional E-value: 2.6e-06
          N6-adenineMlase  55 leiDkrFealyge...........ekfvfYdlnnpeelpeelkgkfdviviDPPFlse 101
                              ++          +           ++++f +ln+++ l+e++++++d+iv  PP++ +
  PHY93_06915|PHY93_06915 101 FD----------KnkemiypeaesSQYRFLNLNYQKLLEEKYENTYDLIVSNPPYFFK 148
                              33..........333333333333679999***999999****************433 PP

>> Ubie_methyltran  ubiE/COQ5 methyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   5.1e-06     0.011      39     120 ..      52     139 ..      35     142 .. 0.79

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 5.1e-06
                              HHHH--S--TTEEEEES-TT-HHHHHHHHHHHHHHEEEEEES-H...HHHHHHHHHHHHHTSS.TEEEEE--TTT-TTS-..T-EE CS
          Ubie_methyltran  39 veklvavkrgakvlDvagGtgDlafklsdsvgekgkvvvlDine...nmLkvgekklkeegki.nieflqanaeeLpfed..dsfD 118
                              +++++a+    +vlD+++G g + ++ls +++++ +++ l+++e   + ++  ++ +  e+ + + +fl+ n ++L +e+  +++D
  PHY93_06915|PHY93_06915  52 LIETEAEVANWQVLDLCAGCGIIGLELSLHAKRRMNIDFLEVQEiyrTFFDKNKEMIYPEAESsQYRFLNLNYQKLLEEKyeNTYD 137
                              455566667779***********************99888776522267778888888777766999***9999998876668888 PP

                              EE CS
          Ubie_methyltran 119 vv 120
                              ++
  PHY93_06915|PHY93_06915 138 LI 139
                              76 PP

>> AFG1_ATPase  AFG1-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   3.7e-05     0.082     267     325 ..      78     141 ..      26     155 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 3.7e-05
              AFG1_ATPase 267 aelceaarsqsdYlalaerfhtvlledVpvltkakedaarRfia.....LvDelYdadvklvvs 325
                              ++l+ + r + d+l++ e++ t++ ++ +++ +  e+ + Rf +     L+ e Y++   l+vs
  PHY93_06915|PHY93_06915  78 LSLHAKRRMNIDFLEVQEIYRTFFDKNKEMIYPEAESSQYRFLNlnyqkLLEEKYENTYDLIVS 141
                              5799999***********************************9833333588889999999998 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   9.3e-05      0.21       1      71 [.      64     142 ..      64     154 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 9.3e-05
                              EEEET-TTSHHHHHHHCTST.SSEEEEEESSHHHHHHHHHHHHH...TTT...TEEEEESBCCGBS..SSTTTEEEEEEE CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrlg.kakvtgvDiseemleaareraee...egl...nvefvqgdaedlp..fedgsfDlvvss 71 
                              vLdl++G G + l+l+ + + + ++  ++++e +     ++ e    e +   + +f++ + ++l     ++++Dl+vs+
  PHY93_06915|PHY93_06915  64 VLDLCAGCGIIGLELSLHAKrRMNIDFLEVQEIYRTFFDKNKEMiypE-AessQYRFLNLNYQKLLeeKYENTYDLIVSN 142
                              9*************9988744788888888888877777777665441.14569999999999975224688******94 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.3   0.00012      0.27       4      89 ..      61     160 ..      58     215 .. 0.68

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00012
          Methyltransf_31   4 glrvlDlGCGtGeltfelae..........elgpkaevvGiDiseeaielArenaqklgldnveFeqgdiee.leklledekfDli 78 
                              + +vlDl +G G +++el            +  +++  + +D ++e+i    e      ++ ++F   + ++ le+++e +++Dli
  PHY93_06915|PHY93_06915  61 NWQVLDLCAGCGIIGLELSLhakrrmnidfLEVQEIYRTFFDKNKEMIYPEAE------SSQYRFLNLNYQKlLEEKYE-NTYDLI 139
                              56888887777778887776664544443322233336778888888877666......45689999999996665599.9***** PP

          Methyltransf_31  79 lsn........evl..nalad 89 
                              +sn        ++l  n++++
  PHY93_06915|PHY93_06915 140 VSNppyffkdeGLLspNDFKN 160
                              **9666666652224444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (232 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       547  (0.0305092); expected 358.6 (0.02)
Passed bias filter:                      383  (0.021362); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 1739.31
//
Query:       PHY93_06920|PHY93_06920  [L=229]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
      8e-33  113.9   0.0    1.5e-32  113.0   0.0    1.5  1  TatD_DNase  TatD related DNase


Domain annotation for each model (and alignments):
>> TatD_DNase  TatD related DNase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  113.0   0.0   8.2e-37   1.5e-32      57     211 ..      25     177 ..       6     225 .. 0.81

  Alignments for each domain:
  == domain 1  score: 113.0 bits;  conditional E-value: 8.2e-37
                              EEE---GGGGGCC...CCHHHHHHHHHHCCCTSEEEEEEEEEET-CCCCCGHHHHHHHHHHHHHHHHHTTEEEEEEEES-HHHHHH CS
               TatD_DNase  57 avlGiHPnevdea..sedlleelkelanvkhskvvaiGeiGLDyysreestkeaqeevFeeqlrlAkelklplviHlrkaeedlle 140
                               +lGiHP+e++ +  + ++ e++ +l+++ + k+ aiGe+GLD  ++   + + qe v+ ++++ A+e+++pl++H++kae+dl++
  PHY93_06920|PHY93_06920  25 HSLGIHPWELTLPfnEAQWAEKFLKLKKAFNLKTLAIGECGLDRRREGIVDCKIQEIVLGWHMDWAQEVQRPLILHCVKAEADLIA 110
                              589********954366777999999777778999*********77777778********************************** PP

                              HHHHCGGCCSEEEETT--S-HHHHHHHHHTTEEEEE-GGGGTTTTHHHHHHHHHS-GGGEEE---TTSSEE CS
               TatD_DNase 141 ilkeaaeakakvvlHsfsgsaeeakkflklgyyislsglltfknakelrelvkavpldrlLiETDaPyltp 211
                              +lk+ + ++ ++ lH fsg+ e+a++flk+++++s++  l+  + +++  ++k++p d++ +ETD  + ++
  PHY93_06920|PHY93_06920 111 LLKSRKYKG-RILLHDFSGNFETAQAFLKYDCFFSFGSKLFNPS-SRASVVMKSLPRDKIFLETD--DQKD 177
                              ****99888.***************************9877644.5556666*************..4444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (229 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       356  (0.0198561); expected 358.6 (0.02)
Passed bias filter:                      299  (0.0166769); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.24s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1729.29
//
Query:       PHY93_06925|PHY93_06925  [L=511]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.8e-17   63.4   2.6    3.8e-16   59.6   0.5    2.5  2  dCache_1     Cache domain
    5.7e-17   62.2   0.1      1e-16   61.4   0.1    1.5  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
    9.4e-13   48.0   0.0    3.3e-12   46.2   0.0    1.9  1  HisKA        His Kinase A (phospho-acceptor) domain
    9.6e-05   22.2   0.1    0.00024   20.9   0.1    1.7  1  HATPase_c_5  GHKL domain
     0.0039   16.9   0.5     0.0078   15.9   0.5    1.4  1  DUF4559      Domain of unknown function (DUF4559)
  ------ inclusion threshold ------
       0.13   12.1   0.1       0.25   11.2   0.1    1.5  1  HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like


Domain annotation for each model (and alignments):
>> dCache_1  Cache domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.6   0.5   1.3e-19   3.8e-16       7     248 ..       4     234 ..       2     235 .. 0.80
   2 ?    3.1   0.1     0.023        70      20      52 ..     329     358 ..     283     379 .. 0.52

  Alignments for each domain:
  == domain 1  score: 59.6 bits;  conditional E-value: 1.3e-19
                 dCache_1   7 aeeqllglaeqlanniedvldslenlaetlasnpslqdlleepnraneasreslqallksilksnpdisgvylvdadGqviassdp 92 
                              ae ++++l e l +++++ +++++ +++ l        +l++    + +  ++ ++ll    k+ + + ++ +vd dG++i  ++ 
  PHY93_06925|PHY93_06925   4 AEVNSYNLTEVLEEQVSTSFKKIDLILQGLQY------HLSKEQVLSAKRSSAYNELLLIHKKRLSEVLSFNVVDQDGRFIGDDSG 83 
                              778999******************99988844......565544435566666666666666888999*************96654 PP

                 dCache_1  93 ssppnlegtddpadrdwykealaggggkpvisdpyvdqtggkpvitiavpiyddsgkfiGvlaadldldnlqdllsniklgetgyv 178
                                  +   +++++dr+++   ++g++ +  is+p +++t+   v+++++pi +  gkf G + a ++l++ q+++s +k+g +g +
  PHY93_06925|PHY93_06925  84 FL--S---KENISDREYFLYLKNGKKDELKISQPVISKTTHLRVVVLSRPILSSEGKFRGLILATIPLEYYQQMFSALKVGSRGLI 164
                              44..3...469*********9**999*********9999788***********99*****************************99 PP

                 dCache_1 179 fivdsdGniiah.pdkdllgknlrdelkaqealekalakiesgvssvklngeeylvayapiptglgWylvv 248
                               + + d  + a  p +++l +++ + ++++++l + +++     +s  ++g e+ ++ ++++ + + ++vv
  PHY93_06925|PHY93_06925 165 SLYGFDHFVYARiPWSEKLFGKVLKLAPQIDFLINGKNDVITYHFSSLIDGIERVLTARKLE-NYNFTVVV 234
                              99977777777643355555555566666567777777777777777777767767777776.67777776 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.023
                 dCache_1  20 nniedvldslenlaetlasnpslqdlleepnra 52 
                              +++++ ld++ +++ ++a    + ++l++++r+
  PHY93_06925|PHY93_06925 329 HKLNNSLDKIIKTVDRIAK---IIRGLHAFSRD 358
                              3445555555555555544...55555555554 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.4   0.1   3.5e-20     1e-16       3     110 ..     405     510 ..     403     511 .] 0.86

  Alignments for each domain:
  == domain 1  score: 61.4 bits;  conditional E-value: 3.5e-20
                              HHHHHHHHHHHHHHHHHHHSTTTEE..EEEEEEEE..TEEEEEEEESSSSSTTHHHTGTCSTTCHHCSTCHTSTSSSHHHHHHHHH CS
                HATPase_c   3 ekrLrqiisnlvdNavkfatkagei..eveikase..ddlvisveDnGiGipkedlkklfekfsqddstkrggggtGlGlsivkkl 84 
                              e ++ q+i nl+ N++++   +g+i  +++i+ ++  d+++i v+D+G+ ip+++ +k++++f +   tk  g+gtGlGlsi+k +
  PHY93_06925|PHY93_06925 405 EVQIAQVIMNLLNNSLDA--LEGSIdkWIQIEMTDlgDNVSIAVSDSGKKIPEAISEKMMQPFFT---TKAVGKGTGLGLSISKGI 485
                              56789************7..555555555555435679***************************...888899************ PP

                              HHHTTTEEEEEEETTTEEEEEEEEES CS
                HATPase_c  85 velmgGeiwvesepgrGttftftlpl 110
                              +e ++G++++ +     ttf+++lp+
  PHY93_06925|PHY93_06925 486 IESHNGRFYL-NHIAVHTTFIIELPK 510
                              ******9999.555689***999986 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.2   0.0   1.1e-15   3.3e-12       1      64 [.     292     358 ..     292     360 .. 0.92

  Alignments for each domain:
  == domain 1  score: 46.2 bits;  conditional E-value: 1.1e-15
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHC.....T-HSSCHHHHHHHHHHHHHHHHHHHHHHHHCCH CS
                    HisKA   1 slgrflagvaHELrtPLsailgnaeaLkre...gklteelkeyletiesearrldhlvedlLdlsri 64 
                              slg++++g+aHE+++PL+ i++ a++Lkr    ++ + +l   l++i++ ++r+ +++  l  +sr 
  PHY93_06925|PHY93_06925 292 SLGEMASGIAHEINNPLTIISAIASTLKRPrgeNEVDHKLNNSLDKIIKTVDRIAKIIRGLHAFSRD 358
                              79***************************9988676788888*****************99999985 PP

>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.9   0.1   8.2e-08   0.00024       3      88 ..     405     496 ..     403     508 .. 0.85

  Alignments for each domain:
  == domain 1  score: 20.9 bits;  conditional E-value: 8.2e-08
              HATPase_c_5   3 dldlcvilgnlLdNAieacskieeekrfIrltvrekkksliisieNsyeg......ek..kklesskskkeehGiGlksireivkk 80 
                              ++ +  ++ nlL+N+++a +     ++ I+++++   +++ i ++ s ++      ek  + ++++k  ++  G+Gl+  + i+++
  PHY93_06925|PHY93_06925 405 EVQIAQVIMNLLNNSLDALEGSI--DKWIQIEMTDLGDNVSIAVSDSGKKipeaisEKmmQPFFTTKAVGKGTGLGLSISKGIIES 488
                              578899**************988..8*********************87766665422446677********************** PP

              HATPase_c_5  81 ykgnlsie 88 
                              ++g + ++
  PHY93_06925|PHY93_06925 489 HNGRFYLN 496
                              **987655 PP

>> DUF4559  Domain of unknown function (DUF4559)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.5   2.6e-06    0.0078     186     281 ..     335     428 ..     326     454 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 2.6e-06
                  DUF4559 186 leeaeeaieellkilkqefeislkeddevrvltdvllslqklkeleeellkedatkldelvlraeeqkiskeellkelqvlkefln 271
                              l ++ ++++++ ki +   + s +  ++  v+t v +     +el +e lk++   +d  vl++++q+i+ +e+ +  qv++++ln
  PHY93_06925|PHY93_06925 335 LDKIIKTVDRIAKIIRGLHAFSRDSYNDPAVETTVQHIIDGTLELCKERLKNN--EIDLRVLSFQDQNIQCREV-QIAQVIMNLLN 417
                              556678888888999988888888888999999999999999*********95..5566667************.99********* PP

                  DUF4559 272 knkd.Lkenlk 281
                              ++ d L+    
  PHY93_06925|PHY93_06925 418 NSLDaLEGSID 428
                              ***98886554 PP

>> HATPase_c_3  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.1   8.5e-05      0.25       4      62 ..     409     470 ..     406     489 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 8.5e-05
              HATPase_c_3   4 ekAlaelvdNsldAdaen....vkievnknrgktgeivieDdGkGmseeelknalrlatsske 62 
                               ++++ l++NsldA   +    ++ie+ +  g++ +i + D Gk ++e+  ++++++  ++k 
  PHY93_06925|PHY93_06925 409 AQVIMNLLNNSLDALEGSidkwIQIEMTDL-GDNVSIAVSDSGKKIPEAISEKMMQPFFTTKA 470
                              5799**********9999777788888885.899************99988889988777766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (511 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       891  (0.049696); expected 358.6 (0.02)
Passed bias filter:                      654  (0.0364772); expected 358.6 (0.02)
Passed Vit filter:                        60  (0.00334653); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.66u 0.23s 00:00:00.89 Elapsed: 00:00:00.42
# Mc/sec: 3615.09
//
Query:       PHY93_06930|PHY93_06930  [L=791]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.4e-30  105.7   0.0    6.4e-30  104.3   0.0    1.8  1  HrpB_C         ATP-dependent helicase C-terminal
    2.6e-14   53.5   0.1    1.7e-13   50.9   0.0    2.4  2  Helicase_C     Helicase conserved C-terminal domain
    2.4e-12   47.0   0.5    6.6e-12   45.5   0.1    1.9  2  DEAD           DEAD/DEAH box helicase
    1.1e-08   35.4   0.0    2.5e-08   34.1   0.0    1.7  1  HA2            Helicase associated domain (HA2)
     0.0032   17.5   0.0     0.0073   16.3   0.0    1.5  1  Flavi_DEAD     Flavivirus DEAD domain
  ------ inclusion threshold ------
      0.065   13.5   0.4       0.25   11.6   0.1    2.2  2  AAA_22         AAA domain
       0.07   13.2   0.0       0.16   12.1   0.0    1.6  1  DUF4840        Domain of unknown function (DUF4840)
       0.18   11.3   4.1        1.4    8.4   0.3    2.3  2  UvrD-helicase  UvrD/REP helicase N-terminal domain


Domain annotation for each model (and alignments):
>> HrpB_C  ATP-dependent helicase C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  104.3   0.0   2.9e-33   6.4e-30      12     133 .]     659     780 ..     649     780 .. 0.94

  Alignments for each domain:
  == domain 1  score: 104.3 bits;  conditional E-value: 2.9e-33
                   HrpB_C  12 lkelkkldlaealkallsweqqqeldelaPerlevpsgsriridYeeeeepvlsvrlqelfglketpkvaegrvpvlleLlsPaqr 97 
                               kel +  + ++lk+l++ +   +l++ +P ++++  +++i+i Y+++++p ++  +q+++gl++tp +a+g++ ++l+Ll P +r
  PHY93_06930|PHY93_06930 659 DKELLASYFFSTLKNLIDPSGLYNLETDFPLSIQLTDRRKIPIVYDRTQDPFIESFIQDFYGLTRTPILAKGKILLTLKLLGPHKR 744
                              566777778899************************************************************************** PP

                   HrpB_C  98 plqvtkdLasFwkgsYaevrkelrgrYpkHpWPedP 133
                              ++qvt+dLa+Fwk++Y+++ kel + Yp+H+WP  P
  PHY93_06930|PHY93_06930 745 AIQVTQDLAGFWKNTYPQMFKELTREYPRHHWPLTP 780
                              *********************************766 PP

>> Helicase_C  Helicase conserved C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.0       1.1   2.4e+03       6      38 ..     140     172 ..     134     184 .. 0.63
   2 !   50.9   0.0   7.6e-17   1.7e-13       4     110 ..     209     334 ..     206     335 .. 0.87

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 1.1
                              HHHHHHHTTTTSEEEEEESSHH..HHHHHHHHHHH CS
               Helicase_C   6 llellkleeeggkilifvntid..rlekvklllek 38 
                              +++l k+++ + ki++++ ti+  +l+  ++l+++
  PHY93_06930|PHY93_06930 140 VTKLQKESRPDLKIMVMSATIEteNLQ--TYLEQS 172
                              444447778888899999999855443..666332 PP

  == domain 2  score: 50.9 bits;  conditional E-value: 7.6e-17
                              HHHHHHHHHTTTTSEEEEEESSHHHHHH....HHHHHHHTTSTEEEESTTSTHHHHHHHHHHHHTTSSSEEEESGGGTSSSTSTTE CS
               Helicase_C   4 eallellkleeeggkilifvntidrlek....vklllekkgikvavlhgelpqnereeileqfnkgesdvLiatdvaerGidipkv 85 
                              +a+le+l  + e g+ilif++  +++ +    ++ l+++ + ++++lhg+l + e+e++l+     +++++++t++ae +++ip++
  PHY93_06930|PHY93_06930 209 SAVLEIL-DSDELGDILIFLPGMKEIREahsiLENLCKHYESQCLILHGDLDSVEQEQVLKMG--SHRKIILSTNIAESSVTIPGI 291
                              5677888.788999**********99775344444445559*******************999..4678***************** PP

                              SEEEESSSSSSH..................HHHHHHHTTSSST CS
               Helicase_C  86 nlVinfdlprnv..................tsyiqriGRtgRa 110
                              + Vi+ +l+r+                   +s+ qr+GR+ R 
  PHY93_06930|PHY93_06930 292 RIVIDSGLQRESsynffsglpelnitkiskASATQRAGRANRE 334
                              *********88667999999********************996 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.5   0.1   2.9e-15   6.6e-12       8     174 ..      17     166 ..      10     168 .. 0.75
   2 ?   -1.9   0.0       1.1   2.4e+03      34      97 ..     202     270 ..     196     281 .. 0.60

  Alignments for each domain:
  == domain 1  score: 45.5 bits;  conditional E-value: 2.9e-15
                              HHHHHTTCEEEEEESTTSSHHHHHHHHHHHHHHHSTTSTS-EEEEEESSHHHHHHHHHHH.HHHTTTSTSEEEEEETTSSHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD   8 iplilgggdvlvaaeTGsGKTlaflipvlqivyetkgktgpkalivePtreLaeqtlnnl.kkfkkyidlrvlliiggvaardqls 92 
                              i+      +++++a  GsGKT+   + +l       ++t++k+ i+eP r  a+  + ++ +++++ +++rv  ++  ++a     
  PHY93_06930|PHY93_06930  17 IDSYECFSNIILKASPGSGKTTRVPLYLL-------EQTTKKIYILEPRRLAAKLAAIQVaRELGESVGVRVGYVFRYEKA----- 90 
                              5555555799*************988888.......68899*******998888665555277777788888655554333..... PP

                              HHHTTCSEEEEEHHHHHHHHHCTSSHCTTEEEEEEETHHHHHHTTTHHHHHHHHHHSHHHCTTST.TTSEEEEEESSBS.HHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxx.xxxx RF
                     DEAD  93 kldngvdivvgtpgrlddllstgklnlsqvrflVlDEadrlldqgfsdfinrilnqlpqitcdgk.lqrqvivlSATlp.kdvk 174
                               ++++++i++ t g ++++ls++k nl++v ++VlDE ++   +   d   + +++l+ ++++ + l+  ++v+SAT++ ++++
  PHY93_06930|PHY93_06930  91 -MSEKTRILFLTEGTFLKILSQNK-NLDDVGLIVLDEFHERHLS--TDAALSFVTKLQ-KESR-PdLK--IMVMSATIEtENLQ 166
                              .3366899************9888.9*************87665..556666666672.2222.3244..********977765 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 1.1
                              HHHHHHHHS.....TTSTS-EEEEEESSHHHHHHHHHHHHHHTTTSTSEEEEEETTSSHHHHHHHHHTT CS
                              xxxxxxxxx.....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  34 pvlqivyet.....kgktgpkalivePtreLaeqtlnnlkkfkkyidlrvlliiggvaardqlskldng 97 
                              p+ ++vy+      ++++   +li  P  + +++ ++ l++++k+++ ++l + g+ +  +q ++l+ g
  PHY93_06930|PHY93_06930 202 PLQKKVYSAvleilDSDELGDILIFLPGMKEIREAHSILENLCKHYESQCLILHGDLDSVEQEQVLKMG 270
                              555555555555555666667788888777778888888888888775555445544445666666544 PP

>> HA2  Helicase associated domain (HA2)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.1   0.0   1.1e-11   2.5e-08       3      43 ..     398     438 ..     396     485 .. 0.89

  Alignments for each domain:
  == domain 1  score: 34.1 bits;  conditional E-value: 1.1e-11
                      HA2   3 elLvalgALdeegnlTelGrkmaelPlsprlakmLlaaael 43 
                               lL+a++A+de+ n+T+ G+k+ ++P +prl+++L+ a + 
  PHY93_06930|PHY93_06930 398 DLLFAINAIDEQANITATGKKILKYPTHPRLGRILVEAENV 438
                              68***********************************9544 PP

>> Flavi_DEAD  Flavivirus DEAD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0   3.2e-06    0.0073       8     135 ..      27     159 ..      23     165 .. 0.73

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 3.2e-06
                              EEE--TTS-TTTTHHHHHHHHHHHTT--EEEEESSHH........HHHHHHHHTTTS-EEE-------------SEEEEEHHHHHH CS
               Flavi_DEAD   8 vldlhPGaGktrkvlpelvkeaierrlrtlvLaPtrv........vlaemeealkglevryktsavkeektgrelvdvmchatftk 85 
                              +l++ PG+Gkt +v   l++++++   +  +L P r         v++e+ e++ g++v y  +   +  +++  + ++   tf k
  PHY93_06930|PHY93_06930  27 ILKASPGSGKTTRVPLYLLEQTTK---KIYILEPRRLaaklaaiqVARELGESV-GVRVGYVFRYE-KAMSEKTRILFLTEGTFLK 107
                              78999********98888777655...455777766511111111344555544.45555655554.4455666677899****** PP

                              HHHHT------SEEEEETTT--SHHHHHHHHHHHHHHHTT..S-EEEEEESS CS
               Flavi_DEAD  86 rllspvrkknyeliimDeahflDPasiaarGyletkaeeg..eaalilltat 135
                               l ++ +  ++ li++De h    +  aa  +++++++e   + +++ ++at
  PHY93_06930|PHY93_06930 108 ILSQNKNLDDVGLIVLDEFHERHLSTDAALSFVTKLQKESrpDLKIMVMSAT 159
                              9999*****************************9988776225789999998 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.1   0.00011      0.25       8     119 ..      26     147 ..      24     165 .. 0.74
   2 ?   -3.6   0.0       5.4   1.2e+04      53      78 ..     601     625 ..     582     639 .. 0.63

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00011
                   AAA_22   8 lvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsstsskdllrellralglelka.............erlsseell. 79 
                              +++ + +G+GKTt +  +l +            + +++  p     k  + +++r+lg++                e  +   l  
  PHY93_06930|PHY93_06930  26 IILKASPGSGKTTRVPLYLLEQ---------TTKKIYILEPRRLAAKLAAIQVARELGESVGVrvgyvfryekamsEKTRILFLTe 102
                              788899**************98.........6777777777777677777788888876555577779999999875666666666 PP

                   AAA_22  80 ealeqalrarav...ielliiDEaqh..lrs.eealeeLrsllnls 119
                               ++ + l++ +    ++l+++DE++   l s ++al+++ +l++ s
  PHY93_06930|PHY93_06930 103 GTFLKILSQNKNlddVGLIVLDEFHErhL-StDAALSFVTKLQKES 147
                              6666666666668889*********8445.4588888887777744 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 5.4
                   AAA_22  53 skdllrellralglelkaerlsseel 78 
                               k++l +++r++  +l++ +++ e+l
  PHY93_06930|PHY93_06930 601 TKKILIDIARNFIASLHE-TQEYERL 625
                              455666666666666666.4433333 PP

>> DUF4840  Domain of unknown function (DUF4840)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   6.9e-05      0.16      41     104 ..       2      66 ..       1      94 [. 0.73

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 6.9e-05
                  DUF4840  41 ltienfPvkdLaksivdeeeelkeaieavgd.vtlkvkyefvlndekdsiyflinpeplelnlny 104
                              +t++n+P++ + ++i+d++e   ++i +++     ++    +l ++++ + ++++p  l  +l+ 
  PHY93_06930|PHY93_06930   2 FTLSNLPIDTIKEKIIDSYECFSNIILKASPgSGKTTRVPLYLLEQTTKKIYILEPRRLAAKLAA 66 
                              89**********************99998873444444555666666666699999888877765 PP

>> UvrD-helicase  UvrD/REP helicase N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.4   0.3   0.00062       1.4      14     123 ..      24     156 ..      10     251 .. 0.61
   2 ?    4.0   0.4     0.013        29     169     253 ..     561     649 ..     391     687 .. 0.71

  Alignments for each domain:
  == domain 1  score: 8.4 bits;  conditional E-value: 0.00062
                              SEEEEEE-TTSSHHHHHHHHHHHHHHTSS..STGGGEEEEESSHHHHHHHHHHHHH......HHHHCCHHCTT-H........... CS
            UvrD-helicase  14 gpilveAsAGsGKTfvlaerilrlikeee..iepdrilvvTFTnkAaeElkeRiee......alkkaeqessdde........... 80 
                              ++i++ As+GsGKT+ +    l+  +++    ep+r+ +     + a+El e +        + +ka  e    +           
  PHY93_06930|PHY93_06930  24 SNIILKASPGSGKTTRVPLYLLEQTTKKIyiLEPRRLAAKLAAIQVARELGESVGVrvgyvfRYEKAMSE----Ktrilfltegtf 105
                              7999**********75544444444444344455555555555555555555554455544422222222....123345555677 PP

                              .HHHHHHHHCTTSEEEEHHHHHHHHHHHHHGGTT.......SHTTTEEECH CS
            UvrD-helicase  81 .rlrlalqnlseanisTlHsfcqkilkkeanrig.......ldpnfrilde 123
                               ++  + +nl+++    l++f  + l ++a  +         +p+++i   
  PHY93_06930|PHY93_06930 106 lKILSQNKNLDDVGLIVLDEFHERHLSTDAALSFvtklqkeSRPDLKIMVM 156
                              777777777777777777777777777777766655655554444444444 PP

  == domain 2  score: 4.0 bits;  conditional E-value: 0.013
                              HHHCCCHHHHHCHHHHHHHHHHHTTCCTTHHCHSS....TSCSHHHHHHHHHHHHHHHHHHHHTCEEHHHHHHHHHHHHHHCHHHH CS
            UvrD-helicase 169 keelslskskaeelrelvskakekqlspkelkkaf....ekasdlqkkiaeflkeyqeqkkeenalDfsdllhallelleeneela 250
                               e++ ++  k+e+++++  ++  k l ++++++a     e ++ l + +++f+  ++e+ + e++l +++ll+++   + e++ l 
  PHY93_06930|PHY93_06930 561 EEDRYFWDEKKEQVQKMERTMLGKILLSESKTQAKnineETKKILIDIARNFIASLHETQEYERLLTLNKLLNKIELNFSEHSILN 646
                              56666666677777777776666666666666666333333333333444455555555555666666666666655555544444 PP

                              HHH CS
            UvrD-helicase 251 eal 253
                              +++
  PHY93_06930|PHY93_06930 647 NFF 649
                              444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (791 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       782  (0.0436165); expected 358.6 (0.02)
Passed bias filter:                      565  (0.0315132); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.73u 0.26s 00:00:00.99 Elapsed: 00:00:00.43
# Mc/sec: 5490.41
//
Query:       PHY93_06935|PHY93_06935  [L=261]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00019   21.2   0.5    0.00038   20.2   0.5    1.4  1  NIF       NLI interacting factor-like phosphatase
  ------ inclusion threshold ------
       0.11   12.1   0.3       0.37   10.4   0.1    1.9  2  FlbD      Flagellar and Swarming motility proteins


Domain annotation for each model (and alignments):
>> NIF  NLI interacting factor-like phosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.2   0.5   4.3e-08   0.00038       1     118 [.      12     144 ..      12     156 .. 0.69

  Alignments for each domain:
  == domain 1  score: 20.2 bits;  conditional E-value: 4.3e-08
                      NIF   1 ktLVLDLDetLvhskleks.k...klkvegekvevsvlkRpgldefLkelsklyevvi..fTasseeyaeavidil...dpekkl. 76 
                              k++V+D+D t+   + ++  +    + veg+k+     +  g++++ +el ++ e+ i  f+ +s     + ++++   d  ++l 
  PHY93_06935|PHY93_06935  12 KHVVFDIDWTITSEV-KPDfEgqrIIIVEGKKYF----VHEGVEKLVEELLQKKEINIsfFSGGSFARNHSLLSQIklgD-GRTLe 91 
                              689*******99666.566557754456677733....445666666666666555555499999999999999997532.33334 PP

                      NIF  77 .lshrlyrescvkk.kg.........eyvKdLsllgrdlsrvvivDdspdsfe 118
                               + ++++ ++  +k +g          y KdLs++  dl++ +++Dd+ + + 
  PHY93_06935|PHY93_06935  92 dIAYKILNKEDLTKvEGaldsdkfflRYKKDLSKITDDLNNLIMIDDTDHFVL 144
                              56666555555444477788887888888******************976544 PP

>> FlbD  Flagellar and Swarming motility proteins
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.1   4.1e-05      0.37      30      53 ..      35      58 ..      19      62 .. 0.88
   2 ?   -2.1   0.0      0.34   3.1e+03      10      18 ..     140     148 ..     135     152 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 4.1e-05
                     FlbD 30 ItLtnGkkyvVkEsvdeviervie 53
                             I+ ++Gkky V E v++ +e+  +
  PHY93_06935|PHY93_06935 35 IIIVEGKKYFVHEGVEKLVEELLQ 58
                             899***************998765 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 0.34
                     FlbD  10 eefvlNadl 18 
                              ++fvlN+++
  PHY93_06935|PHY93_06935 140 DHFVLNSKQ 148
                              689999976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (261 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       685  (0.0382063); expected 358.6 (0.02)
Passed bias filter:                      515  (0.0287244); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.42
# Mc/sec: 1873.06
//
Query:       PHY93_06940|PHY93_06940  [L=225]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-31  109.9   0.0    1.4e-31  109.7   0.0    1.0  1  Diphthami_syn_2  Diphthamide synthase


Domain annotation for each model (and alignments):
>> Diphthami_syn_2  Diphthamide synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  109.7   0.0   7.7e-36   1.4e-31       2     204 ..      10     214 ..       9     225 .] 0.89

  Alignments for each domain:
  == domain 1  score: 109.7 bits;  conditional E-value: 7.7e-36
          Diphthami_syn_2   2 kvavlysGGkDsilaLykalke..sevesLvsvisenkesymfhvvnvhlvellaesvGiplik..letaGeeekevedLkgtlkk 83 
                              k   ++sGGkDs+laL+   k+  +e++ Lv+ ++ +k++ +fh++   l+  +a  + +pl +  l  +  +e+++e++ ++l  
  PHY93_06940|PHY93_06940  10 KILLFWSGGKDSALALHYLKKDprFEIIGLVTTFDREKNTVRFHGIPDSLIIDQAKMLKLPLQRifLPSNCTNEEYTEHVGKILSI 95 
                              56789************99998889************************************9762245667788888877776654 PP

          Diphthami_syn_2  84 ld...veavviGaieseyqksriervCrelGlksvaPLWkkdpeelleeiveekfevivvavkaegldeslLGrridkklidelkk 166
                                   + +v +G+i+ e+ k+  e++   l +k+v+PLW+k++ ++  e+++ + +++v+++    ld+ +L   +d+ ++d l +
  PHY93_06940|PHY93_06940  96 FSkrgIRTVAFGDIHQEEIKKFREEMISSLEMKAVFPLWGKKSTDVSREFLNTGHKALVTSIMTDKLDNTFLACEFDQAYLDRLPE 181
                              433339******************************************************************************99 PP

          Diphthami_syn_2 167 lsekygidkagegGeaetlvlDaPlfkkrlevkelekk 204
                                    +d+age+Ge++t+v  +P fk r+   ++ ++
  PHY93_06940|PHY93_06940 182 D-----VDHAGENGEFHTFVTYGPNFKMRVAFSKAIAT 214
                              8.....***********************988776555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (225 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       383  (0.021362); expected 358.6 (0.02)
Passed bias filter:                      361  (0.020135); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.38
# Mc/sec: 1763.87
//
Query:       PHY93_06945|PHY93_06945  [L=315]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
     0.0037   16.4   0.1     0.0044   16.2   0.1    1.3  1  Gcd10p        Gcd10p family
  ------ inclusion threshold ------
      0.024   14.6   0.1      0.064   13.2   0.1    1.8  1  TraB          TraB family
      0.036   14.2   1.2        1.8    8.7   0.1    2.5  2  TssO          Type VI secretion system, TssO
      0.083   13.1   0.1       0.27   11.4   0.1    1.9  1  BK_channel_a  Calcium-activated BK potassium channel alpha su


Domain annotation for each model (and alignments):
>> Gcd10p  Gcd10p family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.1   9.7e-07    0.0044     122     164 ..     200     242 ..      74     267 .. 0.89

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 9.7e-07
                   Gcd10p 122 gkeiIaklleshtafdqKTaFSqeKYlkrKkkKYlkrftvlpl 164
                               k++++ l++s+ +f+ KTa S +K++k  k K  + f+   +
  PHY93_06945|PHY93_06945 200 NKKLVEVLVRSSRKFRAKTAMSEAKFKKIYKAKMGRDFNFYDI 242
                              799*************************999999988877665 PP

>> TraB  TraB family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.1   1.4e-05     0.064     217     246 ..     269     298 ..     221     306 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.4e-05
                     TraB 217 RnrrwaekieallkepgsvfvaVGagHlaG 246
                              R + +a++ie++l++ ++v+v+ G +Hl  
  PHY93_06945|PHY93_06945 269 REQFLAKQIETRLNKHKRVLVVYGSAHLIK 298
                              8999*********999************85 PP

>> TssO  Type VI secretion system, TssO
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.7   0.1    0.0004       1.8      11      61 ..       7      56 ..       3      64 .. 0.75
   2 ?    3.8   0.1     0.012        56      68      96 ..     258     286 ..     220     289 .. 0.84

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 0.0004
                     TssO 11 lyflllFlvtvlllflivffffkssplqekeil.lkelerkkkfeekqkelk 61
                             l+f++++ +t+ l++ + +f+++++p++e+  l  + ++++ + +e+q++l+
  PHY93_06945|PHY93_06945  7 LLFIVML-LTINLSG-CAYFQKYKTPTNEDVHLdSSLIQNYTQTLEYQEKLR 56
                             3344443.3455556.66666666************************9986 PP

  == domain 2  score: 3.8 bits;  conditional E-value: 0.012
                     TssO  68 ykkIdsLkpevnavfleneIkkdlndikn 96 
                               +k+ +L  +  ++fl ++I+++ln+ k 
  PHY93_06945|PHY93_06945 258 ANKMAHLVDVLREQFLAKQIETRLNKHKR 286
                              689**********************9775 PP

>> BK_channel_a  Calcium-activated BK potassium channel alpha subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1   6.1e-05      0.27      32      92 ..      39      97 ..      35     103 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 6.1e-05
             BK_channel_a 32 stllanLissasikeestkseewlkeYlrgagneiytiklskkfegmtfteaaalifeelg 92
                             s+l+ n  ++++++  ++ +  +++ Y +g +n +y   l+++ +g + ++ + ++f+e++
  PHY93_06945|PHY93_06945 39 SSLIQNYTQTLEYQ--EKLRAPFIASYNYGDKNLVYVAALHTDGAGNATHQTITKAFQEFK 97
                             67888888888887..89999*************************************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (315 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       758  (0.0422779); expected 358.6 (0.02)
Passed bias filter:                      565  (0.0315132); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.40
# Mc/sec: 2374.65
//
Query:       PHY93_06950|PHY93_06950  [L=338]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.7e-59  200.4   0.0    5.9e-59  200.0   0.0    1.0  1  Oxidored_FMN  NADH:flavin oxidoreductase / NADH oxidase famil
  ------ inclusion threshold ------
      0.026   13.6   0.0      0.037   13.1   0.0    1.3  1  Dus           Dihydrouridine synthase (Dus)


Domain annotation for each model (and alignments):
>> Oxidored_FMN  NADH:flavin oxidoreductase / NADH oxidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  200.0   0.0   6.6e-63   5.9e-59       1     336 [.       4     322 ..       4     327 .. 0.92

  Alignments for each domain:
  == domain 1  score: 200.0 bits;  conditional E-value: 6.6e-63
                              CCCS-EEETTEEESSSEEE----S-TTTTTCS.HHHHHHHHHHHHHHTT-SEEEEEEEESSCCC-SCTTSEE-SSGGGHHHHHHHH CS
             Oxidored_FMN   1 kLFkPikignmtLknRivmapmtrlraldkgnvledlaaeyysqraeipvtliiteaafvnpksggfdnapgiwdeeqieewrklt 86 
                              kLF P+ki ++ LknRi+++pm++++a + g v++d+ + +   ra ++ +l+i+ea+ v  ++++  +  ++ ++ q  +++k+t
  PHY93_06950|PHY93_06950   4 KLFSPLKIRETLLKNRIIVSPMCMYSAIE-G-VANDWHLVHLGSRAVGGAGLVIVEATGVVMEGRISYGCLALENNIQRDAFKKIT 87 
                              79************************997.4.69**************************************************** PP

                              HHHHHTT-EEEEEEE--GGGS..SCSTCEC..SS.ESSSSSTTT-.S...CS-EE--HHHHHHHHHHHHHHHHHHHHTT-SEEEEE CS
             Oxidored_FMN  87 eavhengskvvvqlwhlGreakseyladqevdspsdpvaldaqeeesaeevykkeltkeeikqliqefveAAkraieAgfDgVeih 172
                                ++ ++s  ++ql+h Gr+   e + d    +ps   a+ +q      +  +++l  +e+  + ++fv+ Ak+a eAgf ++e h
  PHY93_06950|PHY93_06950  88 AFIKSQNSIPGIQLAHSGRKG--EGEWDLY--GPS-ARAFSDQ------YKTPRALLTKEVYAIADKFVHSAKLALEAGFEIIEAH 162
                              ********************9..5666666..666.2344444......223679999**************************** PP

                              E-CTSHHHHHH-TTT----STTSSSHHHHHHHHHHHHHHHHHHH-SSS.EEEEEECE--STTS--HHHHHHHHHHHCHCCEEEEEE CS
             Oxidored_FMN 173 ganGYLlnqFlspksnkrtDeygGslenRarFllevvdaVkeavgeer.vgyRlSpedvvekgldfaetaqkivllkelekrlkdg 257
                               a+GYL++qFlsp sn rtDe+gG lenR+r +l v +a ++    ++ v++R+S+ d ++ g d    +  + +lk+l+ +++d+
  PHY93_06950|PHY93_06950 163 MAHGYLMHQFLSPLSNFRTDEFGGTLENRMRLPLLVAKALRDFWPINKaVFVRISATDWTDGGWDLDQSIILCRELKKLGIDFIDV 248
                              *******************************************988888********999999998888999*************9 PP

                              ETT-SS.SSSTTS-TTTTHHHCCTT.HHHHHHCCCHSSEEEE-SS--SHHHHHHHHHTTS-SEEEESTHHHH-TTHHHHHH CS
             Oxidored_FMN 258 kklalv.haaeprkrgagsvrteqe.kntefvkevwkkplitvgriadeekaaeivaegeadLvamgRefladpdlveklk 336
                              + +  + +a+        + +  ++ +++  +k+ ++  + +vg+i+++++a+ei+ +++ad v ++Refl++p ++ k++
  PHY93_06950|PHY93_06950 249 STGGNIpKAKI-------PIVPGYQvEFATRIKNEVDILTGAVGMITNAKQAEEILVKEKADAVLLAREFLREPYWPIKAA 322
                              99998855555.......777888888899***********************************************9986 PP

>> Dus  Dihydrouridine synthase (Dus)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   4.1e-06     0.037     176     223 ..     271     318 ..     197     336 .. 0.90

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 4.1e-06
                              HHHHHH-SS-EEEESS--SHHHHHHHHHHH--SEEEESCHHCCSTTHH CS
                      Dus 176 kevkqavsipviaNGdIkdaedaqaileetGadgvmigrgalgnPwlf 223
                                +k++v i   a G I++a++a++il +  ad+v+ +r+ l++P+  
  PHY93_06950|PHY93_06950 271 TRIKNEVDILTGAVGMITNAKQAEEILVKEKADAVLLAREFLREPYWP 318
                              57999999999**********************************865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (338 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       423  (0.0235931); expected 358.6 (0.02)
Passed bias filter:                      410  (0.022868); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.40
# Mc/sec: 2530.61
//
Query:       PHY93_06955|PHY93_06955  [L=412]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      9e-55  186.0  19.6    1.1e-54  185.8  19.6    1.0  1  MFS_3     Transmembrane secretion effector
    1.4e-22   80.1  41.9    3.4e-12   45.9  28.3    2.0  2  MFS_1     Major Facilitator Superfamily


Domain annotation for each model (and alignments):
>> MFS_3  Transmembrane secretion effector
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  185.8  19.6   1.2e-58   1.1e-54       3     389 ..       7     395 ..       5     407 .. 0.95

  Alignments for each domain:
  == domain 1  score: 185.8 bits;  conditional E-value: 1.2e-58
                    MFS_3   3 afaPlrqkvFrviWiaslvsnlGtliqevaasWlmtdisasplmvAlvqaaatLPifllsilaGalaDnfdrRkvllavqlllalv 88 
                              +++ l++k +++    + vs +Gt++q+ a+sW++  ++ s     +   a+ +P+fl+ ++aG++ D +dr k+l+++q+l al 
  PHY93_06955|PHY93_06955   7 TLPALKHKNYKIYLSGQFVSLIGTWMQQLAMSWMIYRLTNSAFWLGVSGFASQIPLFLFGLFAGVIVDHVDRHKLLIWTQSLSALQ 92 
                              56779999999999999********************************************************************* PP

                    MFS_3  89 svlltvlaalgllspwlllaltlligiGaalndPaWqAsvgelvkr.rdvpaAvaLnsvginiaRsvGPAlgGvlvaavGaalafa 173
                              + +l+ l++ g ++   l++l + +g+   +     q  v +++k+ +d+p+A+aLns  +n++R +GPA++G  +a+vG  + f 
  PHY93_06955|PHY93_06955  93 AFILAALTFSGKINLTELIMLNFTLGLINCFDITGRQSFVVQMIKKhEDLPNAIALNSSIVNMTRLIGPAIAGASIALVGEGMCFL 178
                              *******************************************987369************************************* PP

                    MFS_3 174 vnalsylalivallrwkrevr.ksslprEkllealraglRftaasreikavlvRaalFglsasavlaLLPlvardqldgdalvyGi 258
                              +n +sy+a+++al  +k e+  +++   +k++e ++ g+  t   +++  v++  a   ++a+  l LLP +a    +++a + G+
  PHY93_06955|PHY93_06955 179 INGVSYIAVLIALFFIKVEKVkNKKFRINKIFENISIGYHSTFDNSSMSFVILFVAFISFFATPYLNLLPALAATLSGSGAHTLGL 264
                              ****************9876505667789*************99999*****9999999*************************** PP

                    MFS_3 259 llgalGvGAilgalllsrLRerlsserlvllaavalAlvllslalasslwvavlvlllgGaaWitalstlnvavqlavPrWvvgRa 344
                              l ++ G+G ++gal l+  +   +   +++   + lA+ l++l+ ++ l  ++++  ++G + ++ ls+ n+ +q++v +  +gR+
  PHY93_06955|PHY93_06955 265 LSASTGLGSLVGALYLAYRKGPPDLGGIIAFGGLNLAVFLVVLSRVQFLPYILIATFMAGLGMMLQLSSTNTVIQILVEDDKRGRV 350
                              ******************9******************************************************************* PP

                    MFS_3 345 lavYltvlaGglaaGsllWGavaealsvtlaLlaaaaalllaaai 389
                              ++    +l+G+   Gsll G +ae+l+++++ l+ ++  +++a  
  PHY93_06955|PHY93_06955 351 MSFLTLALFGTAPFGSLLMGYMAEHLGLHMTFLINGLISVVGAYF 395
                              *********************************998776666554 PP

>> MFS_1  Major Facilitator Superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.9  28.3   3.8e-16   3.4e-12       3     270 ..      21     284 ..      19     306 .. 0.79
   2 !   36.2  11.1   3.5e-13   3.2e-09      67     174 ..     295     397 ..     289     410 .. 0.81

  Alignments for each domain:
  == domain 1  score: 45.9 bits;  conditional E-value: 3.8e-16
                    MFS_1   3 laaflsalarsilgpalplalaedlgispseigllltlyalgaavaslplGrlsdrfGrrrvlllglllfalglllll...fa..s 83 
                               ++f+s ++ ++  +a++ ++   l+ s+  +g    +  +  +++ l++G+++d + r ++l+++  l+al +++l+   f+  +
  PHY93_06955|PHY93_06955  21 SGQFVSLIGTWMQQLAMS-WMIYRLTNSAFWLGVSGFASQIPLFLFGLFAGVIVDHVDRHKLLIWTQSLSALQAFILAaltFSgkI 105
                              689***************.777777767777888888899999******************************7777755555889 PP

                    MFS_1  84 slwlllvlrvlqGlgagalfpagaaliadwfpk.eergraigllsagfslGailgpllggllasslgWravfyilaivsllafvlf 168
                              +l+ l+ l +  Gl  ++ +++ +++++++ +k e+ + ai+l s+ +++  ++gp+++g+ ++++g   +f+i+++ ++ +++ +
  PHY93_06955|PHY93_06955 106 NLTELIMLNFTLGLINCFDITGRQSFVVQMIKKhEDLPNAIALNSSIVNMTRLIGPAIAGASIALVGEGMCFLINGVSYIAVLI-A 190
                              9999*****************************************************************************977.4 PP

                    MFS_1 169 llllpeepperkrkspkeeekgtgpaplvpawkallkdpvlwillialllfffgfsg..lltllplylqevlglsglllaglllal 252
                              l+++ +e++++k+++  +     ++   +  + + + +  +   +++l+++f+ f++  +l llp ++ +  g + + ++gll+a 
  PHY93_06955|PHY93_06955 191 LFFIKVEKVKNKKFRINKI----FENISIG-YHSTFDNSSM--SFVILFVAFISFFAtpYLNLLPALAATLSGSG-AHTLGLLSAS 268
                              5777888888888865555....4444444.9999999988..77777777777777789999999755555555.5555555555 PP

                    MFS_1 253 lalvgailallagrlsdr 270
                              ++l+++++al +++  ++
  PHY93_06955|PHY93_06955 269 TGLGSLVGALYLAY--RK 284
                              55555555555554..44 PP

  == domain 2  score: 36.2 bits;  conditional E-value: 3.5e-13
                    MFS_1  67 lglllfalglllllfa...sslw.lllvlrvlqGlgagalfpagaaliadwfpkeergraigllsagfslGailgpllggllassl 148
                              +g l +a++l+    +    ++  ++l++ +++Glg+ + +++ +++i  ++ +++rgr++++l+++    a +g ll g++a++l
  PHY93_06955|PHY93_06955 295 FGGLNLAVFLV----VlsrVQFLpYILIATFMAGLGMMLQLSSTNTVIQILVEDDKRGRVMSFLTLALFGTAPFGSLLMGYMAEHL 376
                              22222333312....1336778889************************************************************* PP

                    MFS_1 149 gWravfyilaivsllafvlfllllpe 174
                              g + +f+i++++s++++      +++
  PHY93_06955|PHY93_06955 377 GLHMTFLINGLISVVGAY-----FFV 397
                              ****************44.....444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (412 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       922  (0.0514251); expected 358.6 (0.02)
Passed bias filter:                      383  (0.021362); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.23s 00:00:00.81 Elapsed: 00:00:00.42
# Mc/sec: 2945.03
//
Query:       PHY93_05480|PHY93_05480  [L=285]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
      0.072   13.2   5.0       0.15   12.2   5.0    1.4  1  Pinin_SDK_memA  pinin/SDK/memA/ protein conserved region
       0.24   11.7   7.8       0.14   12.5   4.4    2.1  2  Cdh1_DBD_1      Chromodomain helicase DNA-binding domain 1


Domain annotation for each model (and alignments):
>> Pinin_SDK_memA  pinin/SDK/memA/ protein conserved region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   5.0   1.6e-05      0.15      29      76 ..      57     108 ..      47     119 .. 0.67

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 1.6e-05
           Pinin_SDK_memA  29 kekeerraeiekrleekakeekeeleerkr....ekreeleeerraeqkelr 76 
                              +e+ +r+++ie rl e+ak e +e e  k     ++ ++ ee+r++   e++
  PHY93_05480|PHY93_05480  57 EEESSRKNKIEARLSEAAKAEAAEVEAAKVeaakREAAKAEEARKKDNLEIK 108
                              35678****************9999654433322334455555555555553 PP

>> Cdh1_DBD_1  Chromodomain helicase DNA-binding domain 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   4.4   1.6e-05      0.14      17      95 ..      20      96 ..      17     111 .. 0.77
   2 ?   -0.8   0.0       0.2   1.8e+03      15      40 ..     169     197 ..     167     223 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 1.6e-05
               Cdh1_DBD_1 17 GdlsnkleeliadGtLPeknielleelyeelleeakklvkeeeekrakele.eleadaeeykeklkkgevkadeekkdtp 95
                             G  +n  ++l++ Gt    ++e+++++ ++    a+++ keee+ r++++e  l ++a+++++++++ +v+a ++++ ++
  PHY93_05480|PHY93_05480 20 GAQRNLCDDLVDSGT---SSSEQIKKCLDDPRFGASDYYKEEESSRKNKIEaRLSEAAKAEAAEVEAAKVEAAKREAAKA 96
                             566788999999998...5889999*****99999999999998877777526899999999999988888877555332 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 0.2
               Cdh1_DBD_1  15 kyGdlsnkleeliadGtLPe...kniell 40 
                              k G+++ + + li d tL     k++e++
  PHY93_05480|PHY93_05480 169 KNGNVKVDKQGLIVDTTLLGnvsKTPEIY 197
                              67999999999999999853122555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (285 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1435  (0.0800379); expected 358.6 (0.02)
Passed bias filter:                      581  (0.0324056); expected 358.6 (0.02)
Passed Vit filter:                        59  (0.00329076); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.39
# Mc/sec: 2181.79
//
Query:       PHY93_06960|PHY93_06960  [L=264]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.7e-10   40.0   0.0    8.7e-09   35.5   0.0    2.0  1  NAD_binding_10  NAD(P)H-binding


Domain annotation for each model (and alignments):
>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.5   0.0   4.9e-13   8.7e-09       7     180 ..      15     244 ..       9     248 .. 0.61

  Alignments for each domain:
  == domain 1  score: 35.5 bits;  conditional E-value: 4.9e-13
                              HHHHHHHHHHC-T-EEEEEETTHHHCH.......................HHHCTTTCEEEE--TT-CCHHHHHHT...T-SEEEE CS
           NAD_binding_10   7 GrllvkellargghevtalvRnpekla.......................eleaeeglevvegdvtdvedlaealk...gadaVvs 66 
                              +r+ +k +l++g  +vta+ R  e  +                       ++  + +l+v++ +++++e+  + l+   ++d ++s
  PHY93_06960|PHY93_06960  15 ARYFIKNALNAG-NNVTAVCRGNEYQSaavrlesilalttltpkkelsgaNVI-SGKLQVLSYNIQTAETYIKILTdypDIDSIFS 98 
                              666667777774.5677776654433322333333333333332222222222.24566666666666666666655555677888 PP

                              S---TCC.....HHHH......HHHHHHHHHHCT--EEEEEEETTTTSGCGCHHHH.......HHHH....CCHHHHHHHHHHHHH CS
           NAD_binding_10  67 alggggk.....deeg......aknivdaakeagvkRfvlvsaigvgdevpgefge.......wnke....llkaylaakraaeel 130
                               +g++++     +  +        +iv+ ++++    f + +++g++  vpge ++       w+k+    +l +++++ +++e+l
  PHY93_06960|PHY93_06960  99 FIGPTRDtlfnrK--IklytttISAIVEGMRKSRYVEFYYHGSVGSEG-VPGESSTklpahypWYKNillpILYPVFKDVTESENL 181
                              8877766676440..256666699*********************995.6665332222233377764433567778********* PP

                              HHHS...SSEEEEEEE-CEE-ST--SEEEE..........ETTSS----EEEHHHHHHHHHHH CS
           NAD_binding_10 131 lras...gldwTivrpggLtdepttkyrvv..........ekgepfkggsisradVAdvlvav 180
                              l +s   gl+++i rp +Lt+e++++  +           + + +  ++ isr+dVA+ ++++
  PHY93_06960|PHY93_06960 182 LAKSkkdGLKFVIFRPDALTNEKAKRNFMYtfdhaifnkpDFNLKTADKFISREDVAEEILRI 244
                              *9854459**************9665444424343332211122345789*******988876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (264 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       478  (0.0266607); expected 358.6 (0.02)
Passed bias filter:                      420  (0.0234257); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.39
# Mc/sec: 2034.86
//
Query:       PHY93_06965|PHY93_06965  [L=195]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    3.2e-11   43.9   0.0    8.2e-11   42.6   0.0    1.7  2  TetR_C_33  Tetracyclin repressor-like, C-terminal domain
    1.1e-07   31.5   1.0    1.6e-07   31.0   0.2    1.8  2  TetR_N     Bacterial regulatory proteins, tetR family
     0.0054   17.3   0.9       0.15   12.6   0.1    2.4  2  Mga        Mga helix-turn-helix domain
  ------ inclusion threshold ------
      0.032   14.2   0.0      0.078   12.9   0.0    1.7  1  HTH_11     HTH domain
      0.054   13.1   0.0       0.12   11.9   0.0    1.6  1  HTH_50     Helix-turn-helix domain
      0.057   14.2   0.0       0.59   10.9   0.0    2.4  2  TetR_C_15  Tetracyclin repressor-like, C-terminal domain


Domain annotation for each model (and alignments):
>> TetR_C_33  Tetracyclin repressor-like, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0       2.8   8.5e+03       5       8 ..      50      53 ..       8      65 .. 0.67
   2 !   42.6   0.0   2.7e-14   8.2e-11       3      88 ..      91     169 ..      89     182 .. 0.74

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 2.8
                             HHHH CS
                TetR_C_33  5 aray 8 
                             a ay
  PHY93_06965|PHY93_06965 50 AAAY 53
                             3344 PP

  == domain 2  score: 42.6 bits;  conditional E-value: 2.7e-14
                              HHHHHHHHHHHH-HHHHHHCCSS--TT-S-HGHHCCCCHHHHHHHHHHHGGG---TH--CC.HHHHHHHHHHHHHHHHHHHHCTTT CS
                TetR_C_33   3 alarayrrfAlahpaeYallfgspvpgyaapdelaaagarvlalllaalaalvaaglppad.avaaaralwaalhGlvsLelfghf 87 
                               ++ray++fAl hp+ Y+++f+    ++   ++l++a +  + +ll+++++                + +w+++hGlv L l+g+ 
  PHY93_06965|PHY93_06965  91 DMGRAYIQFALSHPGYYRVMFAVDFGKEL-NTDLHTACQGSFHALLDIMGKK-------NKiNACKSIYAWSVVHGLVMLILDGQI 168
                              589******************44443333.3488888888888888888544.......33256788999**************99 PP

                              T CS
                TetR_C_33  88 g 88 
                              +
  PHY93_06965|PHY93_06965 169 N 169
                              3 PP

>> TetR_N  Bacterial regulatory proteins, tetR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.0   0.2   5.5e-11   1.6e-07      17      47 .]      36      66 ..      20      66 .. 0.89
   2 ?   -2.8   0.0         2   5.8e+03       2      10 ..     168     176 ..     168     177 .. 0.83

  Alignments for each domain:
  == domain 1  score: 31.0 bits;  conditional E-value: 5.5e-11
                             --HHHHHHHHTSSHHHHHHHTSSHHHHHHHH CS
                   TetR_N 17 ttvreIAkrAGvskgalYryFpsKeeLleal 47
                             + +re+A+ +Gvs +a Yr+F++K +Llea+
  PHY93_06965|PHY93_06965 36 FALRELASNLGVSHAAAYRHFKNKNALLEAI 66
                             5689*************************97 PP

  == domain 2  score: -2.8 bits;  conditional E-value: 2
                              HHHHHHHHH CS
                   TetR_N   2 ldaArelfa 10 
                              + aA+e f+
  PHY93_06965|PHY93_06965 168 INAALEEFS 176
                              679**9997 PP

>> Mga  Mga helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.6   0.1   5.1e-05      0.15      29      63 ..      34      68 ..      18      76 .. 0.87
   2 ?    3.0   0.1     0.053   1.6e+02      53      72 ..     167     186 ..     164     190 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 5.1e-05
                             SEEEHHHHHHHCT--HHHHHHHHHHHHHHCHCCT- CS
                      Mga 29 eevsieelaqelyiSestlkrkikelnklLkefdl 63
                              e+ + ela +l +S + ++r+ k+ n lL+ + l
  PHY93_06965|PHY93_06965 34 TEFALRELASNLGVSHAAAYRHFKNKNALLEAIAL 68
                             467789************************98766 PP

  == domain 2  score: 3.0 bits;  conditional E-value: 0.053
                              HHHHHCHCCT-EE...ETTCCEE CS
                      Mga  53 elnklLkefdlel...tkknlkl 72 
                              ++n  L+ef lel   +   +++
  PHY93_06965|PHY93_06965 167 QINAALEEFSLELddlE---NQI 186
                              79***********5444...443 PP

>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   2.6e-05     0.078       7      38 ..      26      58 ..      21      72 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 2.6e-05
                   HTH_11  7 elLleargp.isgeeLAeeLnvSrrtvrrdIka 38
                             e + +++++ +   eLA  L+vS ++ +r+ k 
  PHY93_06965|PHY93_06965 26 EYISNNKSTeFALRELASNLGVSHAAAYRHFKN 58
                             667889999999******************986 PP

>> HTH_50  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   4.2e-05      0.12      26      43 ..      38      55 ..      22      58 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 4.2e-05
                   HTH_50 26 tRklAkrLGvShtaiank 43
                              R lA  LGvSh+a  + 
  PHY93_06965|PHY93_06965 38 LRELASNLGVSHAAAYRH 55
                             59***********97765 PP

>> TetR_C_15  Tetracyclin repressor-like, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.0      0.28   8.4e+02       6      46 ..      17      55 ..      14      70 .. 0.73
   2 ?   10.9   0.0    0.0002      0.59      11      54 ..      94     134 ..      89     194 .. 0.80

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.28
                TetR_C_15  6 ldalvdallaahrenpalrrvlleeapslgelelvealeqr 46
                             +  l++ ++++ + n+    +l+e a++lg +  ++a++++
  PHY93_06965|PHY93_06965 17 ANSLIEIAVEYISNNKSTEFALRELASNLGVS--HAAAYRH 55
                             56789999999999999999999999888888..3333333 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 0.0002
                TetR_C_15  11 dallaahrenpalrrvlleeapslgelelvealeqriaealaal 54 
                              +a++++  ++p++ rv++++    ++    ++l++ ++  + al
  PHY93_06965|PHY93_06965  94 RAYIQFALSHPGYYRVMFAVDFGKELN---TDLHTACQGSFHAL 134
                              79******************9555555...33333333333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (195 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       705  (0.0393218); expected 358.6 (0.02)
Passed bias filter:                      563  (0.0314016); expected 358.6 (0.02)
Passed Vit filter:                        62  (0.00345808); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 1447.34
//
Query:       PHY93_06970|PHY93_06970  [L=182]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.9e-37  128.3   0.0    3.3e-37  128.1   0.0    1.0  1  Flavodoxin_2  Flavodoxin-like fold
    3.5e-17   62.6   0.0    4.7e-17   62.2   0.0    1.1  1  FMN_red       NADPH-dependent FMN reductase


Domain annotation for each model (and alignments):
>> Flavodoxin_2  Flavodoxin-like fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  128.1   0.0   3.7e-41   3.3e-37       2     183 ..       3     174 ..       2     182 .] 0.86

  Alignments for each domain:
  == domain 1  score: 128.1 bits;  conditional E-value: 3.7e-41
                              EEEEEE--TTGGCCHHHCHHHHHHHHHCCCTTTEEEEEEHHCC.T-----CCCCHCCHHHHTTCHHHHHHHHHHHHCSSEEEEEEE CS
             Flavodoxin_2   2 kiLiinahprpeksfssalaqafvealekagphevtvrdLyad.flpvlttrdlaaklayeekpadveseqiekllaadaivlqfP 86 
                              +iL+i +hp+  ksf+ ala++++e ++k+g + v+ ++L ++ f+p l+  d++ ++ + e  +d  + q +k+l+a ++v+++P
  PHY93_06970|PHY93_06970   3 NILLIQGHPNN-KSFCFALADKYIENAKKQG-DAVDLVNLVDLkFDPILRG-DFN-DMQPLE--PDLIELQ-KKILWANHVVWIYP 81 
                              8*********9.8******************.9****************98.665.234443..9999999.************** PP

                              -BTTB--HHHHHHHHHHS-TTTSC.EETTCSSCCCCTTTTSEEEEEEEESS-GGGSSTTSSS-S-HHHHHHHHHHHHHHTT-EEEE CS
             Flavodoxin_2  87 lwwfgvPailKgwiDrvltagfaf.yteeggegrgggLkgkkalvivttGgpeesyqerglegaamdellpplrgilgfiGikdve 171
                              lww ++Pa+lKg+iDrv+ +g+af y++  g   +++L g++  +i+t   p + y++  l ga+   ++    gilgf+G+k+ +
  PHY93_06970|PHY93_06970  82 LWWGSLPALLKGFIDRVFLPGYAFkYKPGLGM-PKKLLIGRTSEIISTLDTPVWLYKW--LLGAPGLKIM--KAGILGFCGFKVTK 162
                              ************************99888754.468888******************6..5555556666..8************* PP

                              EEEEESCTCCCH CS
             Flavodoxin_2 172 pvlvegvagaed 183
                              ++l+  ++g ++
  PHY93_06970|PHY93_06970 163 TMLLGPIKGSSE 174
                              **9988763332 PP

>> FMN_red  NADPH-dependent FMN reductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.2   0.0   5.3e-21   4.7e-17       2     115 ..       3     113 ..       2     122 .. 0.95

  Alignments for each domain:
  == domain 1  score: 62.2 bits;  conditional E-value: 5.3e-21
                              EEEEEES--STT-HHHHHHHHHHCCT-T.T-CEEEEETTTS..--..---HCHGHTCGGSHHHHHHHHHHHH-SCEEEEEEECTTC CS
                  FMN_red   2 kilvisGSlrkgsntrklaewaaealkeagaevelidladl.ilpcalcdkdlesegqtsddvaellekiaaadaliivtPeYngs 86 
                              +il+i G ++ +s++++la+   e +k++g  v+l++l dl   p  ++ +d++  ++  +d+ el +ki +a  ++++ P ++gs
  PHY93_06970|PHY93_06970   3 NILLIQGHPNNKSFCFALADKYIENAKKQGDAVDLVNLVDLkFDP--ILRGDFNDMQPLEPDLIELQKKILWANHVVWIYPLWWGS 86 
                              69***************************************9999..******999****************************** PP

                              E-HHHHHHHHCHT-.SSCHCCTT-EEEEE CS
                  FMN_red  87 ysgllKnalDrlsrtrgkkelrgKpvalv 115
                               ++llK ++Dr+    ++ +++ Kp++++
  PHY93_06970|PHY93_06970  87 LPALLKGFIDRVF--LPGYAFKYKPGLGM 113
                              ************8..58889999999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (182 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       246  (0.0137208); expected 358.6 (0.02)
Passed bias filter:                      231  (0.0128842); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.19s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 1376.59
//
Query:       PHY93_06975|PHY93_06975  [L=148]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.4e-43  147.7   0.0    1.6e-43  147.5   0.0    1.0  1  DUF188    Uncharacterized BCR, YaiI/YqxD family COG1671


Domain annotation for each model (and alignments):
>> DUF188  Uncharacterized BCR, YaiI/YqxD family COG1671
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  147.5   0.0   8.7e-48   1.6e-43       1     127 [.      22     148 .]      22     148 .] 0.99

  Alignments for each domain:
  == domain 1  score: 147.5 bits;  conditional E-value: 8.7e-48
                   DUF188   1 iiirvaerlkvevvlvansslrlpssplvetvvVdsgadaaDdaIveraeagDlvvTqDipLAarvlekgaaalsprGevyteenI 86 
                              i+++++ rl+++++lvan ++++p+s+l+++++V++g d+aD++I++++e +Dlv+T+DipLAa+++ek a+a++prGe+yteenI
  PHY93_06975|PHY93_06975  22 IVFKASFRLNIALMLVANAYQTIPHSDLIRLIIVNKGSDVADQYIIDHVEIHDLVITADIPLAAKIVEKLAIAINPRGEIYTEENI 107
                              6899********************************************************************************** PP

                   DUF188  87 dellamRdlmkklRragertggpkkfskedrsrFakaLdrl 127
                              +e l+mRd+mk+lR+ g  tggp+ f+ +d ++Fa++L++l
  PHY93_06975|PHY93_06975 108 GEILSMRDFMKELRDGGSITGGPSIFGPKDVQQFANSLNKL 148
                              **************************************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (148 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       325  (0.0181271); expected 358.6 (0.02)
Passed bias filter:                      276  (0.0153941); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1108.25
//
Query:       PHY93_06980|PHY93_06980  [L=650]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.5e-34  120.0   1.5    1.5e-34  120.0   1.5    2.0  2  MacB_PCD     MacB-like periplasmic core domain
    7.4e-27   94.5   0.0    1.6e-26   93.4   0.0    1.6  1  ABC_tran     ABC transporter
    2.6e-13   50.2   5.6    2.6e-13   50.2   5.6    3.2  3  FtsX         FtsX-like permease family
    2.6e-06   27.0   0.1     0.0023   17.4   0.0    2.4  2  SMC_N        RecF/RecN/SMC N terminal domain
    0.00032   20.6   0.3       0.26   11.0   0.0    2.4  2  AAA_21       AAA domain, putative AbiEii toxin, Type IV TA sy
    0.00051   19.7   0.0     0.0011   18.7   0.0    1.5  1  AAA_29       P-loop containing region of AAA domain
       0.01   16.1   0.0       0.21   11.8   0.0    2.8  3  AAA_22       AAA domain
  ------ inclusion threshold ------
      0.015   15.2   0.3       0.12   12.3   0.0    2.4  3  RsgA_GTPase  RsgA GTPase
      0.029   14.1   0.1          1    9.0   0.0    2.4  2  AAA_24       AAA domain
      0.048   13.4   0.0       0.37   10.5   0.0    2.1  2  IstB_IS21    IstB-like ATP binding protein
      0.052   13.9   0.0       0.11   12.8   0.0    1.6  1  AAA_16       AAA ATPase domain
       0.11   13.0   0.0       0.28   11.7   0.0    1.7  1  AAA_18       AAA domain
       0.13   11.8   0.1        5.7    6.5   0.0    2.3  2  AAA_25       AAA domain
        3.3    8.0  15.9        1.7    8.9   9.8    2.7  2  DUF4064      Protein of unknown function (DUF4064)
          9    6.6  12.4        1.6    9.1   7.6    2.2  2  DUF3021      Protein of unknown function (DUF3021)


Domain annotation for each model (and alignments):
>> MacB_PCD  MacB-like periplasmic core domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  120.0   1.5   1.3e-37   1.5e-34       1     193 [.     268     489 ..     268     491 .. 0.84
   2 ?   -3.2   0.5       7.4   8.9e+03       6      33 ..     530     557 ..     525     572 .. 0.67

  Alignments for each domain:
  == domain 1  score: 120.0 bits;  conditional E-value: 1.3e-37
                 MacB_PCD   1 slltvLGiaiGvaaviaivslgeglqasvlsqisdl.gnlvtvtpgk..........gsgeslsdpdvealrrevp.veavapvv. 73 
                              + l++LGi iGvaavia++++g+g+q++++sq+s+l +nl++++pg+          g+ ++ls +d++ ++ +++ ++ v+p v 
  PHY93_06980|PHY93_06980 268 TGLSMLGILIGVAAVIAMLAIGRGAQKAIESQLSSLgSNLLILRPGAvrvggvsqesGTTTRLSVDDAQYIKGQLDfIKYVSPNVn 353
                              789*******************************9966788999998888888877766666888899767668999******985 PP

                 MacB_PCD  74 ...tvrgggsgeeevtvvgvdpdyfkvfglklaeGrffteadlrggpnvvvigeelaerlf....pvGdtirl..kpftVvGvled 150
                                 +v ++++ + ++++ g++++y+ +   ++  Grffte d + +++v+vig ++ +++f    p+G+ i++  ++f+++G+l++
  PHY93_06980|PHY93_06980 354 grgQVAFQNK-NWSTRILGGSAEYAPIHAATPTIGRFFTEIDNQKRARVAVIGMTVVREIFgkknPLGEMIKInrVNFQIIGILPE 438
                              5543334333.45599***999****99998889**************************************************77 PP

                 MacB_PCD 151 ppgsgsalg.ddavylp.lttl.......qrrsitvrlkdgadleaaaaele 193
                              + g++++++ dd v++p lt++       +++si ++++d+  ++ a++++ 
  PHY93_06980|PHY93_06980 439 K-GATGFSDqDDVVIIPvLTAMhrllgkeYVDSIDLEITDPNKMDLAQDKII 489
                              5.66666666999****8555544455545777***************9985 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 7.4
                 MacB_PCD   6 LGiaiGvaaviaivslgeglqasvlsqi 33 
                              L+ + ++  v++ +++++ ++ sv+++ 
  PHY93_06980|PHY93_06980 530 LSSIAAISLVVGGIGIMNIMLVSVTERT 557
                              4445556666666677777777777665 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   93.4   0.0   1.4e-29   1.6e-26       1     136 [.      21     167 ..      21     168 .. 0.86

  Alignments for each domain:
  == domain 1  score: 93.4 bits;  conditional E-value: 1.4e-29
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG...B-HHHC.CHCEEEE-SS--S-TTSBHHHH... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxx.xxxxxxxxxxxxxxxxxxxxxx... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke...qelesl.rkeigvlpqepqlfpeltvren... 79 
                              l++vsl+++ g  +ai+G++G+GKStL+ +l  l  p  G+ +++++++++   ++l +l r+ ig+++q+ +l p++++ en   
  PHY93_06980|PHY93_06980  21 LRDVSLTIEDGDYIAIMGPSGSGKSTLMHILGLLDVPSDGSYKINEREVSHlseDDLAILrRETIGFIFQQFNLLPRMSALENvtl 106
                              689************************************************99966666515679********************* PP

                              ........HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              ........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ........esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                                        +e  + +l++ g+ +   +   ++p++LSgGq+qrva+ar+l++kp ++++DEpt
  PHY93_06980|PHY93_06980 107 pllysripGGREYGASLLERTGIGQ---RSF-HKPNELSGGQQQRVAIARSLINKPLIIFADEPT 167
                              *987755433333555666666555...555.678*****************************9 PP

>> FtsX  FtsX-like permease family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.1     0.035        42      16      55 ..     265     304 ..     261     347 .. 0.83
   2 ?   -0.3   0.8       1.2   1.5e+03      17      40 ..     525     548 ..     521     554 .. 0.67
   3 !   50.2   5.6   2.2e-16   2.6e-13       2      95 ..     558     644 ..     557     645 .. 0.92

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.035
                     FtsX  16 qvlllllteillitlvalviGlglgllaaqllsdvllssv 55 
                              +v+ +l + ++li++ a ++ l++g  a +++ + l+s  
  PHY93_06980|PHY93_06980 265 KVRTGLSMLGILIGVAAVIAMLAIGRGAQKAIESQLSSLG 304
                              6788888999999999999999999999999999988874 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 1.2
                     FtsX  17 vlllllteillitlvalviGlglg 40 
                              ++ +ll+ i++i+lv   iG+ + 
  PHY93_06980|PHY93_06980 525 TMSVLLSSIAAISLVVGGIGIMNI 548
                              667777777777777777776554 PP

  == domain 3  score: 50.2 bits;  conditional E-value: 2.2e-16
                     FtsX   2 reigilralGmkkkqvlllllteillitlvalviGlglgllaaqllsdvllssvfsselkisidlitvliiivlllllallaglls 87 
                              reig+++a+G++++++l ++l e++++++v+ +iG++lg+l++  ++++       s  + si++++v++ ++++  + +++g+++
  PHY93_06980|PHY93_06980 558 REIGLRKAIGARRWDILAQFLAESVVVSAVGGLIGIILGWLITIGINSF-------SGWSTSISPSSVILSFFFSASIGIVFGIYP 636
                              9**********************************99999999997777.......666799************************ PP

                     FtsX  88 iskilkke 95 
                              ++k++  +
  PHY93_06980|PHY93_06980 637 ARKASLLN 644
                              ***97665 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.2   0.1    0.0025         3      26      42 ..      33      49 ..      19      54 .. 0.81
   2 !   17.4   0.0   1.9e-06    0.0023     135     212 ..      88     212 ..      53     218 .. 0.70

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.0025
                             EEEEEESTTSSHHHHHH CS
                             xxxxxxxxxxxxxxxxx RF
                    SMC_N 26 ftaivGpNGSGKsnlld 42
                               ai+Gp GSGKs l+ 
  PHY93_06980|PHY93_06980 33 YIAIMGPSGSGKSTLMH 49
                             679**********9985 PP

  == domain 2  score: 17.4 bits;  conditional E-value: 1.9e-06
                              T..................................................CS-HHHHHHHHHHHHHHHHCCS--SEEEE.CTTTT CS
                              x..................................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxx RF
                    SMC_N 135 e..................................................lLSgGektLvalaLlfAiqkvkpaplyll.Deida 169
                                                                                 +LSgG+++ va+a          +pl ++ De   
  PHY93_06980|PHY93_06980  88 IfqqfnllprmsalenvtlpllysripggreygasllertgigqrsfhkpnELSGGQQQRVAIARS-----LINKPLIIFaDEPTG 168
                              3445555555555555555555555555555555555555555556666669*******9999843.....4455666555***** PP

                              TS-HHHHHHHHHHHHHHCTT.SEEEEE-SSHHHCCC-SCEEEEE CS
                              xxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 170 aLDeknvkkvaellkekskn.aQfivislreemlekadklvgvt 212
                              +LD    k++ ++lke +++   +++++++ee+  +a++l++++
  PHY93_06980|PHY93_06980 169 NLDSVSEKEILSILKELNEQgITVVIVTHEEEVGLQAKRLIRMR 212
                              ****************999989999***************9986 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.0   0.0   0.00022      0.26       3      29 ..      35      58 ..      33      91 .. 0.72
   2 !    7.2   0.0    0.0032       3.9     235     298 ..     138     198 ..     123     203 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00022
                   AAA_21  3 vliGpNgsGKSnLLdaldllarldrdv 29
                             ++ Gp gsGKS+L+ +l ll   d  +
  PHY93_06980|PHY93_06980 35 AIMGPSGSGKSTLMHILGLL---DVPS 58
                             688**************988...3333 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.0032
                   AAA_21 235 relSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQviltTHS 298
                              +elS G+++  a++ +l+  +    +++ DEp  +L+    +++l +lkel++ g+ v+++TH 
  PHY93_06980|PHY93_06980 138 NELSGGQQQRVAIARSLINKP---LIIFADEPTGNLDSVSEKEILSILKELNEQGITVVIVTHE 198
                              577888888877777777655...78899**********************************6 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.7   0.0   9.1e-07    0.0011      15      40 ..      24      49 ..      19      66 .. 0.74

  Alignments for each domain:
  == domain 1  score: 18.7 bits;  conditional E-value: 9.1e-07
                   AAA_29 15 htieidlkgatlltGpsGsGKSTllD 40
                              +++i+  + + ++GpsGsGKSTl+ 
  PHY93_06980|PHY93_06980 24 VSLTIEDGDYIAIMGPSGSGKSTLMH 49
                             55667644599*************94 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.8   0.0   0.00018      0.21       7      26 ..      33      52 ..      28      79 .. 0.85
   2 ?    0.4   0.0      0.61   7.3e+02      89     114 ..     322     347 ..     292     361 .. 0.67
   3 ?   -2.6   0.0         5   5.9e+03     114     137 .]     392     413 ..     384     413 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00018
                   AAA_22  7 ilvvtGesGtGKTtllrrll 26
                              ++++G+sG+GK+tl+  l 
  PHY93_06980|PHY93_06980 33 YIAIMGPSGSGKSTLMHILG 52
                             689************98665 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.61
                   AAA_22  89 rav..ielliiDEaqhlrseealeeLrs 114
                              +    +  l +D+aq++  + +l +++ 
  PHY93_06980|PHY93_06980 322 QESgtTTRLSVDDAQYI--KGQLDFIKY 347
                              4444477899*******..555555544 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 5
                   AAA_22 114 sllnlsrkgvqliLvGtpelrkll 137
                              ++ n  +k  ++ ++G++ +r+++
  PHY93_06980|PHY93_06980 392 EIDN--QKRARVAVIGMTVVREIF 413
                              4577..99999******9999886 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0    0.0001      0.12      95     119 ..      26      51 ..       9      71 .. 0.84
   2 ?   -0.8   0.0         1   1.2e+03      57      90 ..     171     203 ..     150     211 .. 0.77
   3 ?   -2.9   0.0       4.7   5.7e+03      54      81 ..     479     503 ..     462     533 .. 0.60

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.0001
                              HHCTT.SEEEEECSTTSSHHHHHHHH CS
              RsgA_GTPase  95 ellkd.ktsvlvGqSGvGKStLinal 119
                                ++d + ++++G+SG GKStL+  l
  PHY93_06980|PHY93_06980  26 LTIEDgDYIAIMGPSGSGKSTLMHIL 51 
                              5566658899************9766 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 1
                              GG--HHHHHHHHHHHHHHTTSEEEE--TTTHTTH CS
              RsgA_GTPase  57 Dlleeeeeleelkeelealgyevllvsaktkegl 90 
                              D ++e+e + ++ +el++ g++v++v  +++ gl
  PHY93_06980|PHY93_06980 171 DSVSEKE-ILSILKELNEQGITVVIVTHEEEVGL 203
                              6677777.88888888888888888877766555 PP

  == domain 3  score: -2.9 bits;  conditional E-value: 4.7
                              E-GGG--HHHHHHHHHHHHHHTTSEEEE CS
              RsgA_GTPase  54 nKiDlleeeeeleelkeelealgyevll 81 
                              nK+Dl++++  +e ++++ + +  + l+
  PHY93_06980|PHY93_06980 479 NKMDLAQDKI-IEMMNTRHRVA--PALK 503
                              7889888887.44444333322..3333 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0   0.0   0.00086         1       5      21 ..      34      50 ..      31      67 .. 0.88
   2 ?    2.4   0.0     0.092   1.1e+02     108     137 ..     175     204 ..     172     237 .. 0.80

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.00086
                   AAA_24  5 iliyGpsgiGKTtlake 21
                             i+i+Gpsg+GK+tl+  
  PHY93_06980|PHY93_06980 34 IAIMGPSGSGKSTLMHI 50
                             89***********9865 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.092
                   AAA_24 108 aeefrrllkklqelrknvifiahektrkde 137
                              ++e+ ++lk l+e + +v+++ he++   +
  PHY93_06980|PHY93_06980 175 EKEILSILKELNEQGITVVIVTHEEEVGLQ 204
                              5788999999999999********986555 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   0.00031      0.37      34      70 ..      17      54 ..       5      74 .. 0.80
   2 ?   -0.3   0.0      0.64   7.7e+02     101     145 ..     149     193 ..     139     203 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00031
                IstB_IS21 34 kvkeLatlsf.iekkenivllGpsGvGKshlaialgve 70
                             +v +L+  s  ie+ + i+++GpsG GKs l   lg  
  PHY93_06980|PHY93_06980 17 IVYALRDVSLtIEDGDYIAIMGPSGSGKSTLMHILGLL 54
                             56667666643789999**************9988865 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.64
                IstB_IS21 101 ralkrllkvdllilDdlgllpldqaeaellfeviekryerrsiii 145
                               ++++l++  l+i  d  + +ld+ ++++++ ++++  e+  +++
  PHY93_06980|PHY93_06980 149 AIARSLINKPLIIFADEPTGNLDSVSEKEILSILKELNEQGITVV 193
                              466788999999999999*****************9999875544 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   9.6e-05      0.11      12      63 ..      21      71 ..      14     195 .. 0.52

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 9.6e-05
                   AAA_16 12 LlsalervrsgrpelvllsGesGvGKsslvrellr.alekdggiflrgkcdql 63
                             L+++  ++ +g   ++ + G+sG+GKs+l+  l    +  dg + ++++ +++
  PHY93_06980|PHY93_06980 21 LRDVSLTIEDG--DYIAIMGPSGSGKSTLMHILGLlDVPSDGSYKINEREVSH 71
                             55554455555..5899************954431134444444455555555 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   0.00024      0.28       1      18 [.      34      51 ..      34      83 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00024
                   AAA_18  1 IlltGtpGvGKttlakeL 18
                             I+++G++G+GK+tl + L
  PHY93_06980|PHY93_06980 34 IAIMGPSGSGKSTLMHIL 51
                             89************9988 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.5   0.0    0.0048       5.7      30      50 ..      28      48 ..      24      54 .. 0.85
   2 ?    2.9   0.0      0.06        71      66     107 ..     184     226 ..     172     252 .. 0.73

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.0048
                   AAA_25 30 lpagelallaGapgtGKttla 50
                             +  g+ ++++G++g+GK+tl 
  PHY93_06980|PHY93_06980 28 IEDGDYIAIMGPSGSGKSTLM 48
                             5678899************96 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.06
                   AAA_25  66 pvapeqgkVlyvsaEdsedelrrRlravgeal.rddarllvld 107
                              ++  + ++V++v  E+     ++Rl +++  + + d+rl+ l 
  PHY93_06980|PHY93_06980 184 ELNEQGITVVIVTHEEEVGLQAKRLIRMRDGAiQSDERLTPLP 226
                              5666889999999999998888******966546677766554 PP

>> DUF4064  Protein of unknown function (DUF4064)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.1      0.24   2.9e+02      15      35 ..     273     293 ..     263     330 .. 0.69
   2 ?    8.9   9.8    0.0014       1.7       3      84 ..     525     605 ..     523     624 .. 0.82

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.24
                  DUF4064  15 lgillglllllflfllssgef 35 
                              lgil+g++++++++ +++g +
  PHY93_06980|PHY93_06980 273 LGILIGVAAVIAMLAIGRGAQ 293
                              556666666666666666554 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 0.0014
                  DUF4064   3 kaeiiLglIGgilgillglllllflfllssgefsqelteeqalsgedasavleflstllivlgvialiaivlgivgalllkk 84 
                              +   +L+ I++i  +++g++++ +++++  +e + e + ++a+ +   +  + fl ++++v +v++li i+lg++ ++ +++
  PHY93_06980|PHY93_06980 525 TMSVLLSSIAAISLVVGGIGIMNIMLVS-VTERTREIGLRKAIGARRWDILAQFLAESVVVSAVGGLIGIILGWLITIGINS 605
                              56678999***99999999999996665.56667777777***********************************9998885 PP

>> DUF3021  Protein of unknown function (DUF3021)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.2       5.7   6.8e+03      10      23 ..     273     286 ..     269     299 .. 0.62
   2 ?    9.1   7.6    0.0013       1.6       6      53 ..     587     634 ..     582     637 .. 0.94

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 5.7
                  DUF3021  10 iGiligliislvis 23 
                              +Gilig++  +++ 
  PHY93_06980|PHY93_06980 273 LGILIGVAAVIAML 286
                              46666664444433 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.0013
                  DUF3021   6 lgiliGiligliislvislfsgettllestavlkqvllsaliGvlfal 53 
                              +g liGi++g +i++ i+ fsg +t ++ ++v+ ++++sa iG++f++
  PHY93_06980|PHY93_06980 587 VGGLIGIILGWLITIGINSFSGWSTSISPSSVILSFFFSASIGIVFGI 634
                              5789*******************9999******************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (650 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1049  (0.0585086); expected 358.6 (0.02)
Passed bias filter:                      772  (0.0430587); expected 358.6 (0.02)
Passed Vit filter:                       124  (0.00691617); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.75u 0.32s 00:00:01.07 Elapsed: 00:00:00.44
# Mc/sec: 4418.39
//
Query:       PHY93_06985|PHY93_06985  [L=324]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      5e-18   65.1   3.3    1.6e-13   50.4   1.2    2.2  2  HlyD_D23         Barrel-sandwich domain of CusB or HlyD membr
    1.4e-13   51.5   5.3    1.5e-10   41.7   3.5    2.4  2  HlyD_3           HlyD family secretion protein
    5.3e-10   39.0   1.0    1.4e-08   34.4   0.0    2.8  2  Biotin_lipoyl_2  Biotin-lipoyl like
      1e-06   28.5   0.0    5.2e-06   26.2   0.0    2.0  1  HlyD             HlyD membrane-fusion protein of T1SS
      0.003   17.7   0.1        3.9    7.7   0.0    2.5  2  Peptidase_M23    Peptidase family M23
     0.0045   16.8   0.5        0.2   11.5   0.1    2.6  2  Biotin_lipoyl    Biotin-requiring enzyme


Domain annotation for each model (and alignments):
>> HlyD_D23  Barrel-sandwich domain of CusB or HlyD membrane-fusion
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.0   4.1e-06     0.012       9      55 ..      54      97 ..      46     107 .. 0.81
   2 !   50.4   1.2   5.4e-17   1.6e-13      98     185 ..     112     197 ..     101     209 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 4.1e-06
                             XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                 HlyD_D23  9 vGtvayderrlarvsarveGwveklyvnatgdkVkkGqpLaelyspe 55
                             +G v+   ++ +++++ + G++ek+ +  +g  VkkGq La + s+e
  PHY93_06985|PHY93_06985 54 TGVVQP--ENKVEIKPPIPGRIEKVLIM-EGAVVKKGQVLAWMSSTE 97
                             555554..345789*************9.************999987 PP

  == domain 2  score: 50.4 bits;  conditional E-value: 5.4e-17
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                 HlyD_D23  98 elektgkvqktvtvkapisGvVteknvreGqyvqpgdtlftiadlstVWveaevyeqqlalvkvgqkvevtvealpgktfeGkvdy 183
                              e++  +++ + +++ a i+G+V++knv  Gq+++++d+++ ++d  ++ v+a+v e+++a++k  qk+++t++a+p++t+e++vd 
  PHY93_06985|PHY93_06985 112 EVKDWEEMYRATPILAAINGTVIQKNVESGQTFTTQDAILVMSD--RLTVKAQVDETDIAQIKLKQKAKITLDAYPEETIEAQVDQ 195
                              566667788899****************************9998..66689**********************************9 PP

                              XX CS
                 HlyD_D23 184 iy 185
                              i+
  PHY93_06985|PHY93_06985 196 IA 197
                              96 PP

>> HlyD_3  HlyD family secretion protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.4   0.0   0.00056       1.7       2      33 ..      65      96 ..      64     107 .. 0.85
   2 !   41.7   3.5   5.1e-14   1.5e-10       2      93 ..     125     213 ..     124     242 .. 0.93

  Alignments for each domain:
  == domain 1  score: 9.4 bits;  conditional E-value: 0.00056
                   HlyD_3  2 lrApvdGvvvelnveegevvqagdelleiipp 33
                             ++ p+ G++ ++ + eg vv +g++l+    +
  PHY93_06985|PHY93_06985 65 IKPPIPGRIEKVLIMEGAVVKKGQVLAWMSST 96
                             788***********************977766 PP

  == domain 2  score: 41.7 bits;  conditional E-value: 5.1e-14
                   HlyD_3   2 lrApvdGvvvelnveegevvqagdelleiippdtllveakvpaadlgsikkkgqkvtlkldqgsdytlkgkierisptvdaktgay 87 
                              + A + G+v ++nve g+  + +d++l     d+l v+a+v+++d+++ik  +qk++++ld +++ t+++++++i+ ++++ +++ 
  PHY93_06985|PHY93_06985 125 ILAAINGTVIQKNVESGQTFTTQDAILVMS--DRLTVKAQVDETDIAQIK-LKQKAKITLDAYPEETIEAQVDQIAFDAKTVNNVT 207
                              6799***********************999..7****************6.9***************************9988877 PP

                   HlyD_3  88 kvevsl 93 
                              ++ v++
  PHY93_06985|PHY93_06985 208 TYIVDV 213
                              777766 PP

>> Biotin_lipoyl_2  Biotin-lipoyl like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.4   0.0   4.7e-12   1.4e-08       3      44 ..      63     104 ..      57     108 .. 0.86
   2 ?    1.8   0.5     0.071   2.1e+02       4      34 ..     124     154 ..     121     179 .. 0.78

  Alignments for each domain:
  == domain 1  score: 34.4 bits;  conditional E-value: 4.7e-12
          Biotin_lipoyl_2   3 vsIaapvsGrVaqlnVkdGqrVkaGdvLaelDsralqlalaq 44 
                              v+I++p++Gr++++++ +G +Vk+G+vLa   s++ ++ l+ 
  PHY93_06985|PHY93_06985  63 VEIKPPIPGRIEKVLIMEGAVVKKGQVLAWMSSTERAAMLDA 104
                              99***************************8888876666655 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.071
          Biotin_lipoyl_2   4 sIaapvsGrVaqlnVkdGqrVkaGdvLaelD 34 
                              +I a ++G+V q nV+ Gq   + d +++  
  PHY93_06985|PHY93_06985 124 PILAAINGTVIQKNVESGQTFTTQDAILVMS 154
                              566788999*******999866666666555 PP

>> HlyD  HlyD membrane-fusion protein of T1SS
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.2   0.0   1.7e-09   5.2e-06      12      77 ..      23     295 ..       9     297 .. 0.79

  Alignments for each domain:
  == domain 1  score: 26.2 bits;  conditional E-value: 1.7e-09
                              E..................................................................................... CS
                              x..................................................................................... RF
                     HlyD  12 a..................................................................................... 12 
                              +                                                                                     
  PHY93_06985|PHY93_06985  23 Gfkllrnktetamtyvehivkkgsisvqilstgvvqpenkveikppipgriekvlimegavvkkgqvlawmssteraamldaasak 108
                              25555555555555566666666666666666677777777777777777777777777777777777777777888888888888 PP

                              ........................................................EEEEEEEECEEEEEEEGCGEEECTTTSEEE CS
                              ........................................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     HlyD  13 ........................................................etdldqvrvgqpvevrfdAfpqtktgkftg 42 
                                                                                      etd+ q++  q++++++dA+p     ++++
  PHY93_06985|PHY93_06985 109 gpqevkdweemyratpilaaingtviqknvesgqtfttqdailvmsdrltvkaqvdETDIAQIKLKQKAKITLDAYPEE---TIEA 191
                              88888888888888999999999999999999999999999999999999999999***********************...9*** PP

                              EEEECTSB.....................................................................EEEEEEEEE CS
                              xxxxxxxx.....................................................................xxxxxxxxx RF
                     HlyD  43 vVvgispd.....................................................................rvpvrvvve 59 
                               V+ i+ d                                                                      + ++v+++
  PHY93_06985|PHY93_06985 192 QVDQIAFDaktvnnvttyivdvlpdvapvymrsgmtanvifnvqskndiivvptesiknieglslvmtpnpngvtekPLEREVQLG 277
                              *************9888888888888888888888888888888888888888888888888888888888888888888888888 PP

                              EEETTEEEESSSS-TTEE CS
                              xxxxxxxxxxxxxxxxxx RF
                     HlyD  60 kaqgpyyplriglkagal 77 
                               ++g+++ + +gl  g++
  PHY93_06985|PHY93_06985 278 LTDGKKTEIVSGLNVGDI 295
                              888888888888876665 PP

>> Peptidase_M23  Peptidase family M23
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.7   0.0    0.0013       3.9      53      78 ..      74      99 ..      71     114 .. 0.85
   2 !    7.5   0.0    0.0015       4.6      12      36 ..     121     143 ..     111     175 .. 0.79

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.0013
                             SEESS-TTEEE-TTCEEEEEBSTSSC CS
            Peptidase_M23 53 skisvkegqkVkaGqvIGtvgstgrs 78
                             +k+ + eg  Vk+Gqv++ + st+r+
  PHY93_06985|PHY93_06985 74 EKVLIMEGAVVKKGQVLAWMSSTERA 99
                             678899****************9964 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0015
                              TT-EEEESSSEEEEEEEEETTTEEE CS
            Peptidase_M23  12 kgtpVlAaadGtVvfagkkegyGnv 36 
                              + tp+lAa +GtV++++ +   G++
  PHY93_06985|PHY93_06985 121 RATPILAAINGTVIQKNVE--SGQT 143
                              579**********998773..3444 PP

>> Biotin_lipoyl  Biotin-requiring enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.5   0.1   6.8e-05       0.2      43      71 ..      63      91 ..      61      93 .. 0.87
   2 ?    2.7   0.0     0.037   1.1e+02      15      36 ..     131     153 ..     119     179 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 6.8e-05
                             EEEEBSSSEEEEEESSTTTEEE-TTCEEE CS
            Biotin_lipoyl 43 meieapkaGvvkeilvkeGdtvevgdlla 71
                             +ei+ p  G+++++l+ eG+ v+ g++la
  PHY93_06985|PHY93_06985 63 VEIKPPIPGRIEKVLIMEGAVVKKGQVLA 91
                             6788888999**************99998 PP

  == domain 2  score: 2.7 bits;  conditional E-value: 0.037
                              ..ECSESSSTTCEE-TTSEEEEE CS
            Biotin_lipoyl  15 g.vvevlvkvGdkVkagqvlaev 36 
                              g v++  v+ G++ +  + ++++
  PHY93_06985|PHY93_06985 131 GtVIQKNVESGQTFTTQDAILVM 153
                              44566777777777777777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (324 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       868  (0.0484132); expected 358.6 (0.02)
Passed bias filter:                      552  (0.0307881); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.57u 0.25s 00:00:00.82 Elapsed: 00:00:00.42
# Mc/sec: 2326.98
//
Query:       PHY93_06990|PHY93_06990  [L=415]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.7e-50  170.0  21.3      1e-26   93.9   5.9    2.0  2  OEP       Outer membrane efflux protein


Domain annotation for each model (and alignments):
>> OEP  Outer membrane efflux protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   82.3   7.4     2e-27   3.6e-23       5     188 .]      31     206 ..      27     206 .. 0.97
   2 !   93.9   5.9   5.6e-31     1e-26      13     186 ..     242     410 ..     234     412 .. 0.97

  Alignments for each domain:
  == domain 1  score: 82.3 bits;  conditional E-value: 2e-27
                      OEP   5 lalalennpdlkaaeaeieaaeanlkaakaeflPtlslsgsygyegngsegggddggtgttsvgltlsqplfdggkrrarvkaaka 90 
                              ++ a + n++lkaa   ++++ + +k+a++ +lP++++++sy+y++ +s  ++         ++l+++ +lf+g +  ++v +a  
  PHY93_06990|PHY93_06990  31 VQEATNANSELKAATSSLQSSSYKIKVARSGYLPQINATASYNYDSTDSPKYYT--------ATLNATENLFSGFADASKVDQAGF 108
                              6778888*****************************************998886........************************ PP

                      OEP  91 qleaaeaqleqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislldvlqaqvrllqaraelaeaeqql 176
                               +  aea+le  + ++ +++++++++l ++++ ++l ++  k+ e +++l++ r++ G+ ++ +++  ++ l+qa+ + + a  +l
  PHY93_06990|PHY93_06990 109 VKSGAEANLESIKAKISFDLKTTFMGLIYSQKYIKLTDDITKRREANVKLVQLRFESGRENIGSLNLSKAYLAQAKYDNLVASHSL 194
                              **************************************************************77********************** PP

                      OEP 177 qlaraqLeyllg 188
                              ++ ++qL++ lg
  PHY93_06990|PHY93_06990 195 EIFQSQLARVLG 206
                              ********9987 PP

  == domain 2  score: 93.9 bits;  conditional E-value: 5.6e-31
                      OEP  13 pdlkaaeaeieaaeanlkaakaeflPtlslsgsygyegngsegggddggtgttsvgltlsqplfdggkrrarvkaakaqleaaeaq 98 
                              pd+k+a+++ +aa+  +++++++f+P+l+l+ s g+ g +s++++ ++      vg+ +++plf ggk ++ +k+a  +++a+ ++
  PHY93_06990|PHY93_06990 242 PDYKKAFYNEQAAKSSIDLSNSAFYPSLNLTQSVGKTGRESYSPNSTWV-----VGAAVNFPLFAGGKDYYTYKSATEDYRASAMT 322
                              9****************************************99987776.....******************************** PP

                      OEP  99 leqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislldvlqaqvrllqaraelaeaeqqlqlaraqLe 184
                              +++++++  ++++qay ++  a   le+ ++ l +a ++ ++a+a+y++Glis +d+++++++l   +++l++ e+++ +a+a++e
  PHY93_06990|PHY93_06990 323 RKNTEETSVTNLKQAYTSYIEAVMKLEVDQAFLLAASSRERIAKAQYNNGLISFIDWDTIENDLIVRQKTLLQTERERVIAEAAWE 408
                              ************************************************************************************99 PP

                      OEP 185 yl 186
                              ++
  PHY93_06990|PHY93_06990 409 QA 410
                              86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (415 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       873  (0.0486921); expected 358.6 (0.02)
Passed bias filter:                      429  (0.0239277); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.39
# Mc/sec: 3156.58
//
Query:       PHY93_06995|PHY93_06995  [L=53]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (53 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       362  (0.0201908); expected 358.6 (0.02)
Passed bias filter:                      305  (0.0170115); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.37u 0.22s 00:00:00.59 Elapsed: 00:00:00.38
# Mc/sec: 420.99
//
Query:       PHY93_07000|PHY93_07000  [L=146]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    7.9e-12   44.9   0.0    1.9e-11   43.7   0.0    1.7  1  MarR         MarR family
    1.6e-08   34.3   0.0    2.8e-08   33.5   0.0    1.5  1  MarR_2       MarR family
    1.7e-06   28.4   0.0    2.5e-06   27.9   0.0    1.3  1  HTH_27       Winged helix DNA-binding domain
     0.0091   15.9   0.0      0.016   15.1   0.0    1.5  1  TrmB         Sugar-specific transcriptional regulator TrmB
  ------ inclusion threshold ------
      0.031   14.3   0.0      0.064   13.3   0.0    1.5  1  FeoC         FeoC like transcriptional regulator
      0.039   14.1   0.0      0.071   13.3   0.0    1.5  1  HTH_34       Winged helix DNA-binding domain
      0.089   12.8   0.0       0.13   12.3   0.0    1.4  1  DUF1803      Domain of unknown function (DUF1803)
      0.091   12.7   0.0       0.16   11.9   0.0    1.4  1  Prefoldin_2  Prefoldin subunit
       0.17   11.8   0.0       0.49   10.3   0.0    1.8  2  HTH_5        Bacterial regulatory protein, arsR family


Domain annotation for each model (and alignments):
>> MarR  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.7   0.0   9.5e-15   1.9e-11       1      58 [.      34      90 ..      34      91 .. 0.92

  Alignments for each domain:
  == domain 1  score: 43.7 bits;  conditional E-value: 9.5e-15
                             --HHHHHHHHHHHHSTTEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEEETTSTTS CS
                     MarR  1 ltltqfviLrilyeqgplsvseLakklgvskstvtrvldrLekkGlieRskspeDrRe 58
                             lt +qf+iL+++ + ++    ++ak+ g+s++++++++d L+ kG+++R+ + +DrR+
  PHY93_07000|PHY93_07000 34 LTVPQFRILASIFRGNNV-ACDIAKAQGTSQAAMSKMIDGLVAKGFVKREANVDDRRH 90
                             899*********986654.44************************************7 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.5   0.0   1.4e-11   2.8e-08       3      61 ..      34      89 ..      32      90 .. 0.97

  Alignments for each domain:
  == domain 1  score: 33.5 bits;  conditional E-value: 1.4e-11
                             --HHHHHHHHHHHCTTTSEEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEEEESSSSSS CS
                   MarR_2  3 ltpaqarvLaaLgrrpgrdltvgelarrlglsksavsrilkrLvaaGLverrpgpeDkR 61
                             lt+ q+r+La + r+      + ++a++ g s++a+s++++ Lva+G+v r+++ +D+R
  PHY93_07000|PHY93_07000 34 LTVPQFRILASIFRGNN---VACDIAKAQGTSQAAMSKMIDGLVAKGFVKREANVDDRR 89
                             899*************8...899***********************************9 PP

>> HTH_27  Winged helix DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.9   0.0   1.3e-09   2.5e-06       2      65 ..      35      96 ..      34      99 .. 0.91

  Alignments for each domain:
  == domain 1  score: 27.9 bits;  conditional E-value: 1.3e-09
                   HTH_27  2 trqqalvLhlirhrrrrkkladlcgrlnvedshisyslkkLtekGLvertgdeadrrekrvrlT 65
                             t +q  +L +i   r+ + + d++++  ++++++s++++ L++kG+v+r++   drr  ++ lT
  PHY93_07000|PHY93_07000 35 TVPQFRILASIF--RGNNVACDIAKAQGTSQAAMSKMIDGLVAKGFVKREANVDDRRHFHLNLT 96
                             668888899999..8888889****************************************999 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0     8e-06     0.016      20      56 ..      47      83 ..      33      92 .. 0.90

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 8e-06
                             HCCCHHCHHCCCTTSSCHCHHHHHHHHHHCTSEEEES CS
                     TrmB 20 lgpatadeiaeelgvprskvYevLrsLedkGlVerek 56
                             +g+  a +ia++ g +++   +++  L+ kG+V+re 
  PHY93_07000|PHY93_07000 47 RGNNVACDIAKAQGTSQAAMSKMIDGLVAKGFVKREA 83
                             6788899***************************985 PP

>> FeoC  FeoC like transcriptional regulator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   3.2e-05     0.064      19      49 ..      54      84 ..      47      90 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 3.2e-05
                     FeoC 19 eLsrhfkaspealeamLeqwvrkGrvekvaa 49
                             +++++  +s++a+ +m++ +v+kG v+++a+
  PHY93_07000|PHY93_07000 54 DIAKAQGTSQAAMSKMIDGLVAKGFVKREAN 84
                             899999********************99875 PP

>> HTH_34  Winged helix DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   3.6e-05     0.071      19      74 ..      54     108 ..      39     116 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 3.6e-05
                   HTH_34  19 elkealeatdgnLsvhlkkLekagYievdkefkgkkprtllriTpeGreafkkyvk 74 
                              ++ +a +++++++s+ ++ L ++g+++++ +++++ ++ +l++T+ G   fkk  k
  PHY93_07000|PHY93_07000  54 DIAKAQGTSQAAMSKMIDGLVAKGFVKREANVDDR-RHFHLNLTSIGDVFFKKTRK 108
                              566777899************************99.99*********999988655 PP

>> DUF1803  Domain of unknown function (DUF1803)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   6.6e-05      0.13      33      67 ..      57      96 ..      45     135 .. 0.74

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 6.6e-05
                  DUF1803 33 kkeFadqkkldrlldelidaglikRe.....nkrYklnlp 67
                             k++ ++q+ +++++d l+++g++kRe      ++++lnl 
  PHY93_07000|PHY93_07000 57 KAQGTSQAAMSKMIDGLVAKGFVKREanvddRRHFHLNLT 96
                             667789999****************843332255666665 PP

>> Prefoldin_2  Prefoldin subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   8.2e-05      0.16      50      76 ..      97     123 ..      94     126 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 8.2e-05
                              EETTEEEEE-HHHHHHHHHHHHHHHHH CS
              Prefoldin_2  50 lvGdvlvkqdkeevkeeLeerketlek 76 
                              ++Gdv++k++++ ++++L+e++  l++
  PHY93_07000|PHY93_07000  97 SIGDVFFKKTRKHAQANLKEQISCLDE 123
                              8*******************9877665 PP

>> HTH_5  Bacterial regulatory protein, arsR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0   0.00024      0.49       6      45 ..      40      79 ..      38      81 .. 0.85
   2 ?   -2.4   0.0       2.4   4.7e+03      29      42 ..     111     124 ..     109     125 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00024
                             HHHHHHTTSSEEHHHHHHHHTS-HHHHHHHHHHHHHTTSE CS
                    HTH_5  6 kILklLaegelcvcelaeelglsqstvShHLkkLreaGLV 45
                             +IL +  +g+  +c++a++ g sq++ S     L   G+V
  PHY93_07000|PHY93_07000 40 RILASIFRGNNVACDIAKAQGTSQAAMSKMIDGLVAKGFV 79
                             7999*********************999766666666666 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 2.4
                              HHHHHHHHHHHHHT CS
                    HTH_5  29 qstvShHLkkLrea 42 
                              q+++ ++ ++L e+
  PHY93_07000|PHY93_07000 111 QANLKEQISCLDEQ 124
                              78889999999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (146 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       650  (0.0362541); expected 358.6 (0.02)
Passed bias filter:                      515  (0.0287244); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1084.85
//
Query:       PHY93_07005|PHY93_07005  [L=622]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   1.9e-120  401.7   0.0   2.6e-120  401.2   0.0    1.2  1  Radical_SAM_N    Radical SAM N-terminal
    1.4e-16   61.4   0.1    4.4e-15   56.4   0.1    2.8  3  Radical_SAM      Radical SAM superfamily
      2e-08   34.7   0.3    3.9e-08   33.7   0.3    1.5  1  DUF3362          Domain of unknown function (DUF3362)
  ------ inclusion threshold ------
      0.043   13.1   1.7       0.17   11.2   0.2    2.2  2  FAM91_N          FAM91 N-terminus
       0.13   11.6   0.0       0.31   10.5   0.0    1.5  1  DUF4392          Domain of unknown function (DUF4392)
       0.14   12.3   0.1       0.31   11.1   0.1    1.5  1  PTPlike_phytase  Inositol hexakisphosphate


Domain annotation for each model (and alignments):
>> Radical_SAM_N  Radical SAM N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  401.2   0.0  8.7e-124  2.6e-120       1     298 []      25     328 ..      25     328 .. 0.96

  Alignments for each domain:
  == domain 1  score: 401.2 bits;  conditional E-value: 8.7e-124
            Radical_SAM_N   1 flpvsrkemeergwdelDvilvsgDaYvDhpsfgaaligrlLeaeGfrvgiiaqPdwk.saedfkklGkPrlffgvsaGnlDsmvn 85 
                              +lp++ ke ++rgwd+lDv+lv+gDaYvDhp+fgaa++grlLea G +v+iiaqP+w+ + +dfkk+G P++ffgv++Gn+Dsmvn
  PHY93_07005|PHY93_07005  25 WLPTTVKEAKKRGWDQLDVLLVTGDAYVDHPAFGAAVMGRLLEAMGLKVAIIAQPNWQdDLRDFKKFGAPKYFFGVTSGNMDSMVN 110
                              8********************************************************9778************************* PP

            Radical_SAM_N  86 kytaekklrsdDaytpggkagkRPdravivYsnlireaykdvpvvlGgiEaSLRriahYDywsdkvrrsilldskadllvyGmger 171
                              kyta k++rs+Daytpgg++++RPd+a+ vY+++++e+y+d+pv++GgiEaSLRr++hYD+wsdk+   il  s adllvyGmge+
  PHY93_07005|PHY93_07005 111 KYTAGKRKRSEDAYTPGGATDHRPDYATSVYTKILKELYPDTPVMIGGIEASLRRVTHYDFWSDKLLPNILSTSGADLLVYGMGEQ 196
                              ************************************************************************************** PP

            Radical_SAM_N 172 aiveiakrlakgeeveelkdirgtavllkkea..kake..kevielpsyeevkedkklyaeafrlleeetnplnakalvqkhgdra 253
                              ++ e++k + +g +++e+  i++ta+l+++++   +k+      el+s+ee+  dkk+y ++f  +e e+n+  a++l+qk ++++
  PHY93_07005|PHY93_07005 197 PLKEMVKLMLEGVPFNEMLAIPQTAFLIDQKEklPMKNiiWGDQELTSHEECLIDKKKYSRNFMYVEVESNKQFANRLIQKVENKI 282
                              **************************999854233333455789**************************************99** PP

            Radical_SAM_N 254 vvlnppalplsteelDevyelpyarkahpsy.kkkkipalemikfS 298
                              +v+npp ++++++e+D+ ++lpy+r +hp+y +++ i a+emikfS
  PHY93_07005|PHY93_07005 283 LVINPPFQTMTEKEIDASFDLPYTRLPHPKYkERGPISAYEMIKFS 328
                              *******************************55569*********8 PP

>> Radical_SAM  Radical SAM superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.0   0.0      0.34     1e+03      36     122 ..      31     114 ..      10     124 .. 0.72
   2 ?    0.1   0.0       0.3   9.1e+02      46     117 ..     231     297 ..     220     314 .. 0.79
   3 !   56.4   0.1   1.5e-18   4.4e-15       2     161 ..     330     536 ..     329     539 .. 0.88

  Alignments for each domain:
  == domain 1  score: -0.0 bits;  conditional E-value: 0.34
                              HHHHHHHHHTTSEEEEEESSTGGGSTTHHHHHHHHHHTCCCTEEEEEEECSSCHGHHHHHHHHHTT-SEEEEEEBSSSHH.HHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxx RF
              Radical_SAM  36 eevkelkaekgvkevilgggepllypdfvellerlaklavpgiritvetngtlpdeeklerllelgvdrvslgleaadde.kvlkl 120
                              +e+k+  +++  ++++++g+   ++p f  ++  +  +a  g+++++++ + +   + l+ +++ g   + +g+ +++ + +v k+
  PHY93_07005|PHY93_07005  31 KEAKKRGWDQ-LDVLLVTGDAYVDHPAFGAAVMGRLLEA-MGLKVAIIAQPNW--QDDLRDFKKFGAPKYFFGVTSGNMDsMVNKY 112
                              4444444555.7777777777777777777777777765.7777777777777..7888888888888888888888888777777 PP

                              HT CS
                              xx RF
              Radical_SAM 121 mn 122
                              + 
  PHY93_07005|PHY93_07005 113 TA 114
                              75 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.3
                              TSEEEEEESSTGGGSTTHHHHHHHHHHTCCCTEEEEEEECSSCHGHHHHHHHHHTT-SEEEEEEBSSSHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
              Radical_SAM  46 gvkevilgggepllypdfvellerlaklavpgiritvetngtlpdeeklerllelgvdrvslgleaaddekv 117
                                k++i+g +e + + +   + ++++++    + + ve+n      + +++  +  + +++ + ++ +++++
  PHY93_07005|PHY93_07005 231 PMKNIIWGDQELTSHEECLIDKKKYSRN---FMYVEVESNKQFA-NRLIQKVEN-KILVINPPFQTMTEKEI 297
                              4789999999999999999999999998...8999999999987.777777777.56888888888887744 PP

  == domain 3  score: 56.4 bits;  conditional E-value: 1.5e-18
                              EEESEESS--TTTSCCTTHHHHHHHHHHHHHHHHHHHHHHHHHTT.SEEEEEESSTGGGS.......................... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxx.......................... RF
              Radical_SAM   2 vvtrgCnlrCsfCarpetvrregrgrslsveeileevkelkaekg.vkevilgggeplly.......................... 60 
                              ++ rgC ++CsfC+++ +  +++  +s+s+++i++e++e+++ k+ ++++  +gg p+++                          
  PHY93_07005|PHY93_07005 330 NTHRGCFGGCSFCTISAH--QGKMIASRSKDSIIKELEEIAKMKDyKGYISDMGG-PSANmyqmkgidqaicdkcaapscvhpvic 412
                              5679************98..********************876777999999999.****99999999999999999999999999 PP

                              .......TTHHHHHHHHHHTCCCTEEEEEEECSSCHG.............HHHHHHHHHTT.-SEEEEEEBSSSHHHHHHHHT..C CS
                              .......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.............xxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxx..x RF
              Radical_SAM  61 .......pdfvellerlaklavpgiritvetngtlpd.............eeklerllelg.vdrvslgleaaddekvlklmn..r 123
                                     ++++el+++ a+   p+++ +++++g++ d             ee++e l   +   r+ +  e++ d  vlk m+   
  PHY93_07005|PHY93_07005 413 knldadpSKMTELYREVAAH--PKVKKAFVSSGLRYDlmfnersldpkkdEEYVEQLITHHvSGRLKVAPEHTEDH-VLKAMRkpA 495
                              99999998899999999998..9************************************9999*************.*****7654 PP

                              TSHHHHHHHHHHHHHHTTSET...EEEEEEEBTTTSHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxx RF
              Radical_SAM 124 ghtfeevlealeklreagikr...vvdrivglpGendeele 161
                               h fe +++ +e + ++ + r   + ++i  +p  + e++ 
  PHY93_07005|PHY93_07005 496 FHYFETFKKKFEEISRKKGIRqeiIPYFISSHPACTPEDMA 536
                              4667*******999776555558888888777777777765 PP

>> DUF3362  Domain of unknown function (DUF3362)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.7   0.3   1.3e-11   3.9e-08       1      68 [.     550     612 ..     550     619 .. 0.87

  Alignments for each domain:
  == domain 1  score: 33.7 bits;  conditional E-value: 1.3e-11
                  DUF3362   1 dqVqtFyPsPmatattmYhtgknpltkvkreeesvdvvrgekerrlhkAllrYhdpknwpllreALkk 68 
                              +qVq+F P+Pm++at +Y++g  p t       +v+ + +   +  ++ +  +  p+n +++++ L k
  PHY93_07005|PHY93_07005 550 EQVQDFTPTPMTVATEIYYSGYHPYT-----LKEVKTAISLDDKTRQRTFFFWYKPENKNFVKNYLAK 612
                              7*************************.....667777777777777999************9998876 PP

>> FAM91_N  FAM91 N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.1      0.11   3.2e+02      35      69 ..     249     283 ..     239     296 .. 0.83
   2 ?   11.2   0.2   5.6e-05      0.17      28      93 ..     437     501 ..     420     512 .. 0.75

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.11
                  FAM91_N  35 ikrqlrykrnlvrevvkdekkYyeelvqysrerLq 69 
                              +  + +y+rn++   v+++k++ ++l+q+ ++++ 
  PHY93_07005|PHY93_07005 249 LIDKKKYSRNFMYVEVESNKQFANRLIQKVENKIL 283
                              55677999*******************99988764 PP

  == domain 2  score: 11.2 bits;  conditional E-value: 5.6e-05
                  FAM91_N  28 kqvveysikrqlrykrnlvrevvkdekkYyeelvqy.srerLqlyPYhlsdvvvkglrvtpfsYyie 93 
                              k+ v+ +++  l +++     + k++++Y e+l+++    rL++ P h +d v+k++r  +f+Y+ +
  PHY93_07005|PHY93_07005 437 KAFVSSGLRYDLMFNERS--LDPKKDEEYVEQLITHhVSGRLKVAPEHTEDHVLKAMRKPAFHYFET 501
                              455555555555554433..34566799***999761577***********************9865 PP

>> DUF4392  Domain of unknown function (DUF4392)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0    0.0001      0.31      59     122 ..      57     120 ..      42     141 .. 0.84

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.0001
                  DUF4392  59 lGAialaraLqalgkkvvivtdelnekiveaaveqgvlktevpllelqdrsaeaaivfltkdgd 122
                               GA++++r L+a+g kv i+++ ++++ ++++ + g++k+ + +++ + +s+  +++  + +++
  PHY93_07005|PHY93_07005  57 FGAAVMGRLLEAMGLKVAIIAQPNWQDDLRDFKKFGAPKYFFGVTSGNMDSMVNKYTAGKRKRS 120
                              59************************99999998899999988887777766666666555544 PP

>> PTPlike_phytase  Inositol hexakisphosphate
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.1    0.0001      0.31      50     110 ..     249     313 ..     237     333 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.0001
                              SEEEEEEEHHHHHTT-CCG-EEE-S-................EE-HHHHHHHTT-EEEEEEE-TT CS
          PTPlike_phytase  50 vlaeakksegrvlvhdeteegkdvktlqevweeve....tpeevyerelaeelslrYaRipitde 110
                              ++++ k s ++++v+ e+++++ ++ +q+v +++       ++++e+e++ +++l Y+R+p ++ 
  PHY93_07005|PHY93_07005 249 LIDKKKYSRNFMYVEVESNKQFANRLIQKVENKILvinpPFQTMTEKEIDASFDLPYTRLPHPKY 313
                              67888888999999999999987777777744444888878899*****************9875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (622 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       700  (0.0390429); expected 358.6 (0.02)
Passed bias filter:                      520  (0.0290033); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.67u 0.25s 00:00:00.92 Elapsed: 00:00:00.43
# Mc/sec: 4383.99
//
Query:       PHY93_05485|PHY93_05485  [L=228]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-17   63.4   0.1    2.1e-17   62.6   0.1    1.4  1  PEP-utilizers    PEP-utilising enzyme, mobile domain
    6.8e-16   58.5   0.0    9.8e-16   58.0   0.0    1.2  1  PEP-utilisers_N  PEP-utilising enzyme, N-terminal


Domain annotation for each model (and alignments):
>> PEP-utilizers  PEP-utilising enzyme, mobile domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.6   0.1   2.3e-21   2.1e-17       3      73 .]     141     213 ..     139     213 .. 0.97

  Alignments for each domain:
  == domain 1  score: 62.6 bits;  conditional E-value: 2.3e-21
                              -S-EEEEES---HHHHTTS-..GEEEEEES--TTHHHHHHHHHHTT--EEE--SSHH.HH--TEEEEEETTTT CS
            PEP-utilizers   3 eegvILvaeetspsdiagld..kaaGivterGGmtSHaAivArelgiPaVvgvgeatielkegdlitvDgstG 73 
                              +e++I+va++++  ++a ++  ++ G++te GG    aAi+Ar+l+iPa+vg++++t+++k gd+i  Dg+ G
  PHY93_05485|PHY93_05485 141 TEPAIIVARDLNFIQVALMNpkNILGFLTELGGISTQAAIIARGLKIPAIVGLENITSRIKAGDQIFFDGDAG 213
                              6889******************************************************************998 PP

>> PEP-utilisers_N  PEP-utilising enzyme, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.0   0.0   1.1e-19   9.8e-16       2     103 ..       8     109 ..       7     113 .. 0.86

  Alignments for each domain:
  == domain 1  score: 58.0 bits;  conditional E-value: 1.1e-19
                              -EEEE-SEEEEEEE.........---.-----G.GG...HHHHHHHHHHHHHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHT-HHH CS
          PEP-utilisers_N   2 GiaaspGiaiGkav.........eveveeeeveaed...veaelerleeAlekvreelealaekalgeeeaaifeahlmlleDpel 75 
                              Gi++spG a+Gk++         e       + ++     + e++rl +A++ ++ +l++l     g   ++if+++l  leDpel
  PHY93_05485|PHY93_05485   8 GIPVSPGKAFGKVFilkglnedeE------LIVPHYissFDLEQARLGQAIQSSKLKLNQLI----G--ISKIFKTYLIGLEDPEL 81 
                              9*************9997765432......333333333889******************87....2..356************** PP

                              HHHHHHHHHHHT--HHHHHHHHHHHHHH CS
          PEP-utilisers_N  76 leeveerIregglnaeaAveevveefaa 103
                              l+++ ++Ir++ +nae+A+++ +++f+a
  PHY93_05485|PHY93_05485  82 LKQALTKIRNESVNAEWALKKIAAQFIA 109
                              *************************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (228 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       353  (0.0196888); expected 358.6 (0.02)
Passed bias filter:                      291  (0.0162307); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.19s 00:00:00.67 Elapsed: 00:00:00.39
# Mc/sec: 1766.96
//
Query:       PHY93_07010|PHY93_07010  [L=82]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
     0.0099   15.6   0.1      0.011   15.4   0.1    1.1  1  DUF4194         Domain of unknown function (DUF4194)
  ------ inclusion threshold ------
      0.037   14.2   0.1      0.045   13.9   0.1    1.1  1  B-block_TFIIIC  B-block binding subunit of TFIIIC
      0.058   13.3   0.1      0.062   13.2   0.1    1.1  1  HrcA            HrcA protein C terminal domain
       0.18   11.7   0.0        1.5    8.8   0.0    2.1  2  MarR_2          MarR family


Domain annotation for each model (and alignments):
>> DUF4194  Domain of unknown function (DUF4194)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.1   2.5e-06     0.011     106     155 ..      25      73 ..      19      74 .. 0.79

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 2.5e-06
                  DUF4194 106 veklesflpldrdeakfkkrldaalrklkelgllrrldgdeertryeIrp 155
                                 + s l++d  + + k++l+++++ l++ +l++r++ d+er +++I+p
  PHY93_07010|PHY93_07010  25 ILDFDSDLLKDFPDFD-KEQLQNIINLLEKKKLIKRVTIDKERGWIRIHP 73 
                              5555554445554444.99*******************999999****99 PP

>> B-block_TFIIIC  B-block binding subunit of TFIIIC
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.1     1e-05     0.045      22      53 ..      30      62 ..      28      76 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 1e-05
           B-block_TFIIIC 22 sdLakesk.qdprslfyrlksLekkgLIvkqsi 53
                             sdL k +   d++ l  +++ Lekk+LI++++i
  PHY93_07010|PHY93_07010 30 SDLLKDFPdFDKEQLQNIINLLEKKKLIKRVTI 62
                             6777777668**********************9 PP

>> HrcA  HrcA protein C terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.1   1.4e-05     0.062     124     164 ..      21      61 ..       2      72 .. 0.70

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.4e-05
                     HrcA 124 seelyvsGtsnll.rqpefsddeklrellelleekvvllkll 164
                               ++++++  s ll + p+f d e+l+++++lle+k+ + ++ 
  PHY93_07010|PHY93_07010  21 FSQIILDFDSDLLkDFPDF-DKEQLQNIINLLEKKKLIKRVT 61 
                              4567777778888678999.99*************6555543 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.0      0.14   6.2e+02       9      27 ..       8      24 ..       3      28 .. 0.85
   2 ?    8.8   0.0   0.00032       1.5      34      55 ..      40      61 ..      37      67 .. 0.87

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.14
                             HHHHHHHCTTTSEEEHHHH CS
                   MarR_2  9 rvLaaLgrrpgrdltvgel 27
                              vLa L   ++  +t +++
  PHY93_07010|PHY93_07010  8 LVLATLSFFEP--MTFSQI 24
                             79999999999..999998 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.00032
                             SHHHHHHHHHHHHHTTSEEEEE CS
                   MarR_2 34 sksavsrilkrLvaaGLverrp 55
                             +k  +++i++ L+++ L+ r++
  PHY93_07010|PHY93_07010 40 DKEQLQNIINLLEKKKLIKRVT 61
                             78889*************9986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (82 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1048  (0.0584528); expected 358.6 (0.02)
Passed bias filter:                      704  (0.039266); expected 358.6 (0.02)
Passed Vit filter:                        71  (0.00396006); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 614.11
//
Query:       PHY93_07015|PHY93_07015  [L=349]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.4e-37  128.3  31.9    4.1e-37  128.1  31.9    1.0  1  AI-2E_transport  AI-2E family transporter
  ------ inclusion threshold ------
        2.9    8.2   8.3       0.11   12.9   1.1    2.3  2  DUF1772          Domain of unknown function (DUF1772)


Domain annotation for each model (and alignments):
>> AI-2E_transport  AI-2E family transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  128.1  31.9   4.6e-41   4.1e-37       3     318 ..      15     332 ..      13     337 .. 0.93

  Alignments for each domain:
  == domain 1  score: 128.1 bits;  conditional E-value: 4.6e-41
          AI-2E_transport   3 lilvllllllalypfiselllplliAlvlayllnpvvkfL.kkrgvkrvlavllvlllllvllvllvlllvplliaqltqlvkslp 87 
                               il+ ll+++a+++++ ++++p++++++la+++ p + ++ kk   ++ + ++l++ll++v ++ + ++l+    a +t l +++ 
  PHY93_07015|PHY93_07015  15 KILIALLIIFAFIYILVPFIIPVALGGILAMAFSPFISHFiKKGHSRKKSLIALTFLLFVVGIAPVTVVLIRGSKAVSTFLSEQSL 100
                              6899************************************78888888999********************999999999998776 PP

          AI-2E_transport  88 .ayidslqnilnelpslleelen.liqalkqslskilsnilssilnsllsllasllglilslvlvllllffllldgeklrqgilkl 171
                               a    +++ +  + +++  l+n    +++ + ++ ++   ++iln ++++l+++++++l  +++++ ++f+l+++e +r+ + ++
  PHY93_07015|PHY93_07015 101 iATKHNIEDRIYAVLDNFSDLNNlDPTTVREQFDSFMTTAGKYILNLFSTILSQIPNIVLLGFVTIVSFYFFLANEEHIRKIFDRY 186
                              6677777888888888888887446789999***********************************************99999998 PP

          AI-2E_transport 172 lpervrervkailrelektlsgylrgqvlvaliigvlvfigllilgvpyalllailvglanliPyiGavivlipiaiialltggik 257
                              +    +e+ ++++  ++   + ++ ++vl+ ++++ +v+ g  ++g+  a++++i ++++++iP++Ga   ++ iai+a+l ++ +
  PHY93_07015|PHY93_07015 187 FYFT-KENGDRFITLIKTCCKEVFFSNVLTGIVQASIVAGGAFFCGIGDAFIIFICTFFLSFIPLFGAGPFAFCIAILAFLEHK-T 270
                              8766.****************************************************************************999.* PP

          AI-2E_transport 258 evlivlivvllvqliegnilePklmgkr.lglhplvillsllaggklfGlvGlilavpltav 318
                               + i+++vv+l++ i +ni++P+l g + +++h ++++l++++g+ + Gl Gl+++++l+ +
  PHY93_07015|PHY93_07015 271 GAGIAMVVVALISGIADNIVRPYLTGLGeVKVHGFITFLAIIGGVLVMGLPGLFVGPLLALL 332
                              **************************866****************************99865 PP

>> DUF1772  Domain of unknown function (DUF1772)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   1.1   1.2e-05      0.11      38      87 ..      30      87 ..       6     124 .. 0.62
   2 ?   -2.4   0.6      0.61   5.5e+03      42      42 ..     257     257 ..     220     286 .. 0.54

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 1.2e-05
                  DUF1772 38 vfpp...lallsalafayla........araasrgarllylaaaallllsivpyTllvmvP 87
                             ++p+   +al+ +la+   a         ++  +++  l++++ +l++++i+p+T+++++ 
  PHY93_07015|PHY93_07015 30 LVPFiipVALGGILAM---AfspfishfIKKGHSRKKSLIALTFLLFVVGIAPVTVVLIRG 87
                             3333111333333333...14678899744444444444435555599*********9965 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 0.61
                  DUF1772  42 l 42 
                              +
  PHY93_07015|PHY93_07015 257 A 257
                              2 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (349 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1017  (0.0567237); expected 358.6 (0.02)
Passed bias filter:                      396  (0.0220871); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.64u 0.24s 00:00:00.88 Elapsed: 00:00:00.43
# Mc/sec: 2423.90
//
Query:       PHY93_07020|PHY93_07020  [L=158]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.048   11.9   0.9      0.061   11.5   0.9    1.1  1  BIV_Env          Bovine immunodeficiency virus surface protei
      0.066   12.2   0.3      0.076   12.0   0.3    1.1  1  Tmp39            Putative transmembrane protein
       0.19   10.5   0.9       0.23   10.2   0.9    1.1  1  DUF2207          Predicted membrane protein (DUF2207)
        1.3    9.1   4.5        1.9    8.6   4.5    1.4  1  Phage_holin_3_6  Putative Actinobacterial Holin-X, holin supe


Domain annotation for each model (and alignments):
>> BIV_Env  Bovine immunodeficiency virus surface protein (SU)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.9   1.4e-05     0.061      89     160 ..      21      93 ..       9     102 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 1.4e-05
                  BIV_Env  89 lGetsrrldsdswkwvrkvliiai..lgtltmagtaladadrssvienitkkdikdtdpyilillglvvilGll 160
                              +Ge s+++ ++  + vr+vli+++  lg+ltm    + +  +  v +++   +   t  + +ill lv+ +G+l
  PHY93_07020|PHY93_07020  21 IGERSQEISVEILNQVRRVLILVVitLGALTMFCMGMGHLIE-RVLNKLDAGSFVFTPAIGVILLFLVICIGVL 93 
                              8******************98655227888887776654332.3344444444445556678888888888877 PP

>> Tmp39  Putative transmembrane protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.3   1.7e-05     0.076      83     155 ..      13      95 ..       5     153 .. 0.71

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 1.7e-05
                    Tmp39  83 tillarRlvwaivkevsqagkaslsqsvllvavryavltlvglslvltlll..........lfrthsvlnlLFLsyPvivyll 155
                              +++  rRl+++  +e+s+++ +++ + ++lv++ + +lt+  + +   + +          +f     + lLFL   ++v + 
  PHY93_07020|PHY93_07020  13 FMMGQRRLIGERSQEISVEILNQVRRVLILVVITLGALTMFCMGMGHLIERvlnkldagsfVFTPAIGVILLFLVICIGVLIY 95 
                              56778**********************************99999887776644566666666666666667776555444443 PP

>> DUF2207  Predicted membrane protein (DUF2207)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.9   5.1e-05      0.23     378     430 ..      25      96 ..      17     116 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 5.1e-05
                  DUF2207 378 kklkklsalglgliilglilillallllvll...................lvfllilllillliaiivlllf 430
                              ++  ++ +l+ +  +l+l++i+l++l+++++                   ++++  ++l++l+i+i+vl+++
  PHY93_07020|PHY93_07020  25 SQEISVEILNQVRRVLILVVITLGALTMFCMgmghliervlnkldagsfvFTPAIGVILLFLVICIGVLIYS 96 
                              555667777777788888888888888888899999************877777777777777777777765 PP

>> Phage_holin_3_6  Putative Actinobacterial Holin-X, holin superfamily III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   4.5   0.00042       1.9      13      83 ..      19      93 ..       7     121 .. 0.69

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.00042
          Phage_holin_3_6 13 sLvrteleLakaElkeeakragsgagllgaagvlallalllllvala.......lalaalwlaalivaavllvla.gvl 83
                             +L+  + +  ++E+  +++r+++++++ ++a+ + +++++ l+  ++       +++      a+ v +++lv+  gvl
  PHY93_07020|PHY93_07020 19 RLIGERSQEISVEILNQVRRVLILVVITLGALTMFCMGMGHLIERVLnkldagsFVF----TPAIGVILLFLVICiGVL 93
                             677778888899******************************999983434333222....112112222222221222 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (158 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1175  (0.0655363); expected 358.6 (0.02)
Passed bias filter:                      635  (0.0354175); expected 358.6 (0.02)
Passed Vit filter:                        59  (0.00329076); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.38
# Mc/sec: 1246.05
//
Query:       PHY93_07025|PHY93_07025  [L=65]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    6.7e-08   33.0   0.0    6.9e-08   33.0   0.0    1.1  1  DUF883           Bacterial protein of unknown function (DUF88
  ------ inclusion threshold ------
      0.058   13.1   0.0      0.094   12.5   0.0    1.3  1  DUF3563          Protein of unknown function (DUF3563)
      0.075   13.1   0.0      0.083   13.0   0.0    1.1  1  PTPlike_phytase  Inositol hexakisphosphate


Domain annotation for each model (and alignments):
>> DUF883  Bacterial protein of unknown function (DUF883)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.0   0.0   1.2e-11   6.9e-08      40      91 ..      13      64 ..       3      65 .] 0.83

  Alignments for each domain:
  == domain 1  score: 33.0 bits;  conditional E-value: 1.2e-11
                   DUF883 40 lerarerlrdaeeavaerakeaaeaaddyVrenPwqavGiAagvGlllGlLl 91
                             l+++    ++  e+++ r kea e++ +++r+ P+++v+i++g G+llG L+
  PHY93_07025|PHY93_07025 13 LSDLTGMKSEDLEDLELRLKEAKEKTAEFIRNYPLTSVAIGVGAGFLLGKLF 64
                             55555555566678999********************************997 PP

>> DUF3563  Protein of unknown function (DUF3563)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   1.6e-05     0.094      30      55 ..      21      47 ..      19      49 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 1.6e-05
                  DUF3563 30 atDlyDLEfRmrkiD.rdaafrrpssv 55
                             + Dl DLE R+++   + a+f r++++
  PHY93_07025|PHY93_07025 21 SEDLEDLELRLKEAKeKTAEFIRNYPL 47
                             78***********99899999999876 PP

>> PTPlike_phytase  Inositol hexakisphosphate
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   1.4e-05     0.083      21      51 ..       6      36 ..       4      50 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 1.4e-05
                             GGG-TTTT--.HHHHHHHHHHHHHHHHT-SE CS
          PTPlike_phytase 21 kedllenlkeytgisaeeleklearlkeevl 51
                             k++++++l ++tg++ e+le+le rlke   
  PHY93_07025|PHY93_07025  6 KKSPHSTLSDLTGMKSEDLEDLELRLKEAKE 36
                             5789***********************8654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (65 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       578  (0.0322383); expected 358.6 (0.02)
Passed bias filter:                      481  (0.026828); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.41u 0.24s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 488.70
//
Query:       PHY93_07030|PHY93_07030  [L=188]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (188 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       596  (0.0332422); expected 358.6 (0.02)
Passed bias filter:                      379  (0.0211389); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.39
# Mc/sec: 1451.40
//
Query:       PHY93_07035|PHY93_07035  [L=162]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0075   16.2   0.0      0.014   15.3   0.0    1.5  1  Turandot  Stress-inducible humoral factor Turandot
  ------ inclusion threshold ------
      0.019   14.9   0.0      0.024   14.5   0.0    1.1  1  PLA2G12   Group XII secretory phospholipase A2 precursor (PLA


Domain annotation for each model (and alignments):
>> Turandot  Stress-inducible humoral factor Turandot
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   1.6e-06     0.014      17      61 ..       9      55 ..       1      62 [. 0.81

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 1.6e-06
                 Turandot 17 iYekyssslqlspderekldrlireyke..eevlvDGvPaqGGvkkk 61
                             ++  +s s+  + d    ++++++ +++   ++ +DG+P+  G +k+
  PHY93_07035|PHY93_07035  9 LFSLLSLSASAQTDSVSTINNSLKTFETdgCTMFIDGTPSKPGLWKH 55
                             556666677788899999**********999**************75 PP

>> PLA2G12  Group XII secretory phospholipase A2 precursor (PLA2G12)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0   2.7e-06     0.024      69     131 ..      28      90 ..      17     108 .. 0.79

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 2.7e-06
                  PLA2G12  69 rpgykvpepdGcgsyllGlkldlgiPamtkccnqldicydtcgsek..ercdekfrlclekicsd 131
                               +  k+ e+dGc+ ++ G   + g+   ++cc ++d+ y   g +k  ++ d +++ c++++   
  PHY93_07035|PHY93_07035  28 NNSLKTFETDGCTMFIDGTPSKPGL--WKHCCVEHDMRYWFGGDQKdmDKTDLRLKACVKEVAGA 90 
                              567888999***9998898775555..578*********99998772257899999**9988655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (162 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       539  (0.030063); expected 358.6 (0.02)
Passed bias filter:                      448  (0.0249875); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1192.49
//
Query:       PHY93_07040|PHY93_07040  [L=131]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.2e-19   68.6   0.2    5.2e-19   68.3   0.2    1.1  1  RF-1      RF-1 domain
  ------ inclusion threshold ------
      0.046   13.2   0.0      0.052   13.0   0.0    1.1  1  DUF3825   Domain of unknown function (DUF3825)


Domain annotation for each model (and alignments):
>> RF-1  RF-1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.3   0.2   5.9e-23   5.2e-19       5     116 .]       4     129 ..       2     131 .] 0.76

  Alignments for each domain:
  == domain 1  score: 68.3 bits;  conditional E-value: 5.9e-23
                              CE--GGGEEEEEE---SSSSSSGCSSSCEEEE....EETTT.......................TEEEEEEECSSSHHHHHHHHHH CS
                     RF-1   5 ieidekdleidtfrssGaGGQnVNktesaVrl....thlpt.......................gvivvecqeeRsqekNrekAle 63 
                              ++i+e++++++++rssG+GGQnVNk++++++l        +                       gv++  +q++Rsq  N  + +e
  PHY93_07040|PHY93_07040   4 FKIPESEFTFSFSRSSGPGGQNVNKVNTKATLhwnaF---AntslpkdvlerfikkyfnrlsdeGVLTLVSQKSRSQTLNTTDVVE 86 
                              68******************************66551...0345666*****************9********************* PP

                              HHHHHHHHHHHHHCCCCCHTTTTT-..S.-S---S--ECEEEECGCTTEEEETT CS
                     RF-1  64 rLkaklkekeleeekeeekkrrvkk.ekkkigtgssekiRtynkkpqsrvkdhr 116
                              +L +++++  ++ +k+      ++k ++       s ++R+++kk++++ k+ r
  PHY93_07040|PHY93_07040  87 KLYEMINSVAVAPKKR-----LATKpSRG------SINKRLNEKKSHGDKKKSR 129
                              ******7753333222.....22221222......3445555555555555544 PP

>> DUF3825  Domain of unknown function (DUF3825)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   5.8e-06     0.052      10      68 ..      37      96 ..      31     127 .. 0.74

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 5.8e-06
                  DUF3825 10 WeyskeekkkenpiLkeYlkatFkrlkeegk..ilesedkelavFnTGLltknqediyalf 68
                             W+   ++++ ++ +L++++k+ F+rl +eg   ++ +++ +  +  T  ++k +e i  + 
  PHY93_07040|PHY93_07040 37 WNA-FANTSLPKDVLERFIKKYFNRLSDEGVltLVSQKSRSQTLNTTDVVEKLYEMINSVA 96
                             775.77888899******************9644555555555555667777777665554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (131 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1022  (0.0570026); expected 358.6 (0.02)
Passed bias filter:                      537  (0.0299515); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.39
# Mc/sec: 1000.98
//
Query:       PHY93_07045|PHY93_07045  [L=300]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (300 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       577  (0.0321825); expected 358.6 (0.02)
Passed bias filter:                      356  (0.0198561); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.21s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 2269.84
//
Query:       PHY93_07050|PHY93_07050  [L=820]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0047   16.8  11.4     0.0047   16.8  11.4    2.9  3  CdvA             CdvA-like coiled-coil domain
  ------ inclusion threshold ------
      0.036   12.6   2.0       0.06   11.9   2.0    1.3  1  Herpes_UL25      Herpesvirus UL25 family
       0.15   12.4   2.6       0.54   10.6   1.8    2.5  1  KxDL             Uncharacterized conserved protein
        1.9    8.5   8.1       0.29   11.2   3.3    2.1  2  DUF1043          Protein of unknown function (DUF1043)
        2.3    7.5  11.9        7.8    5.8   7.2    2.7  3  Helo_like_N      Fungal N-terminal domain of STAND proteins
        3.6    7.1   9.5        1.6    8.3   4.9    2.3  3  Exonuc_VII_L     Exonuclease VII, large subunit
        3.7    6.3  14.4       0.63    8.9  10.1    1.8  2  Spc7             Spc7 kinetochore protein


Domain annotation for each model (and alignments):
>> CdvA  CdvA-like coiled-coil domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.3      0.13   3.3e+02      14      42 ..      62      90 ..      51     111 .. 0.70
   2 ?   -0.5   0.0      0.42   1.1e+03      83     122 ..     578     617 ..     576     618 .. 0.84
   3 !   16.8  11.4   1.8e-06    0.0047      10     107 ..     614     709 ..     611     718 .. 0.93

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 0.13
                     CdvA 14 dipkstyeeikekleealkklkekakelk 42
                               +k+ ye++  kl++++++  e+ + l 
  PHY93_07050|PHY93_07050 62 AHQKAIYEKLSSKLSKKINQNSEETALLT 90
                             45678888899999888888877776665 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.42
                     CdvA  83 aieairellesaleekeeikklleklskleleeeeveetk 122
                               +++ ++ +  ++++ +eik + +  +k + ++++v++++
  PHY93_07050|PHY93_07050 578 DSDHWTDDIVDTTKKDKEIKATTNDFAKTDVSNSSVSKNS 617
                              5677788888899999*************99999998875 PP

  == domain 3  score: 16.8 bits;  conditional E-value: 1.8e-06
                     CdvA  10 vsegdipkstyeeikekleealkklkekakelkeklkkrlkeledqikslekalanlkisyasGEidEeaYksaieairellesal 95 
                              +++ + +k+ +ee k+ ++++l++ + ++++++++l+k  +el +q +++e+ l +++     +Ei+E++  + i + r l++ a 
  PHY93_07050|PHY93_07050 614 SKNSEYSKEQFEEYKKGVNRELSANRSRMSAISSELNKTQQELASQRAEMERRLSDVE--RRRNEIKESSNPKDIAESRALKKEAD 697
                              678899************************************************9976..678*********************** PP

                     CdvA  96 eekeeikkllek 107
                                k+ei++l+++
  PHY93_07050|PHY93_07050 698 TLKNEISNLIRE 709
                              ********9875 PP

>> Herpes_UL25  Herpesvirus UL25 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   2.0   2.3e-05      0.06      32     101 ..     619     692 ..     597     726 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 2.3e-05
                              XXXXXXXX....XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
              Herpes_UL25  32 lreealea....sreevevlevkkralraeLdnlaqkavalaeeierrlkevEellekiaeleaaaaaeeaaaa 101
                              + +e++e     +++e+ +++ +  a++ eL++ +q+ ++   e+errl+ vE+  ++i e+++++   e+ a 
  PHY93_07050|PHY93_07050 619 YSKEQFEEykkgVNRELSANRSRMSAISSELNKTQQELASQRAEMERRLSDVERRRNEIKESSNPKDIAESRAL 692
                              55555655666678899******************************************999444443333333 PP

>> KxDL  Uncharacterized conserved protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   1.8   0.00021      0.54      20      51 ..     644     675 ..     632     685 .. 0.86

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00021
                     KxDL  20 qtsgrlnkknreLlelnalsqerlaklrarfk 51 
                               +s +lnk+++eL  ++a++++rl++++ r +
  PHY93_07050|PHY93_07050 644 AISSELNKTQQELASQRAEMERRLSDVERRRN 675
                              6899*********************9998865 PP

>> DUF1043  Protein of unknown function (DUF1043)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.7   0.2       4.6   1.2e+04      67      74 ..      74      81 ..      57      97 .. 0.55
   2 ?   11.2   3.3   0.00011      0.29      26      92 ..     610     679 ..     598     710 .. 0.74

  Alignments for each domain:
  == domain 1  score: -3.7 bits;  conditional E-value: 4.6
                  DUF1043 67 kLyqhlak 74
                             kL +++++
  PHY93_07050|PHY93_07050 74 KLSKKINQ 81
                             22222222 PP

  == domain 2  score: 11.2 bits;  conditional E-value: 0.00011
                  DUF1043  26 qkklekelekakaeleeqkqeledHfaqsaelLetlaedyqkLyqhlaksseeL...lpeleeqelfqqk 92 
                              ++++ k+ e +k+++ee+k+ +++ ++ +++ ++ ++++ +k +q la++  e+   l++ e  ++  ++
  PHY93_07050|PHY93_07050 610 NSSVSKNSEYSKEQFEEYKKGVNRELSANRSRMSAISSELNKTQQELASQRAEMerrLSDVERRRNEIKE 679
                              67899999**************************999999999999999999885553322222222222 PP

>> Helo_like_N  Fungal N-terminal domain of STAND proteins
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0       1.5   3.8e+03     156     177 ..      54      75 ..      11      89 .. 0.61
   2 ?    3.3   0.0     0.018        47      78     117 ..     234     270 ..     199     285 .. 0.78
   3 ?    5.8   7.2    0.0031       7.8      84     199 ..     582     697 ..     576     706 .. 0.76

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 1.5
              Helo_like_N 156 edttsdLeehLedideklealt 177
                              ++ + + e+h + i ekl++  
  PHY93_07050|PHY93_07050  54 TNLKGQKEAHQKAIYEKLSSKL 75 
                              3334444555566666665544 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.018
              Helo_like_N  78 gkaCkefeqvikkcskkssksrtsfrDwakleymggdind 117
                              ++a  ef++ +    +ks+++  s +D++   ++++di++
  PHY93_07050|PHY93_07050 234 KEAVAEFKKYV---LEKSNNKDISAKDYIAKFFLREDIQK 270
                              55555666554...4677779********999999***85 PP

  == domain 3  score: 5.8 bits;  conditional E-value: 0.0031
              Helo_like_N  84 feqvikkcskkssksrtsfrDwakleymggdind...f.ketlagYKsTisiaLgdinlrkskvtaevleeykeliedttsdLeeh 165
                              +++ i + +kk ++ ++   D+ak    ++ +++   + ke+  +YK  ++  L++   r+s++++e  +  +el ++ ++++e +
  PHY93_07050|PHY93_07050 582 WTDDIVDTTKKDKEIKATTNDFAKTDVSNSSVSKnseYsKEQFEEYKKGVNRELSANRSRMSAISSELNKTQQEL-ASQRAEMERR 666
                              677899999999999999999999999777776422233789**************999***9999987766666.667899**** PP

              Helo_like_N 166 LedideklealtekseeaseedeaelqrlkeEre 199
                              L+d++++ ++++e+s+ +   d ae ++lk E +
  PHY93_07050|PHY93_07050 667 LSDVERRRNEIKESSNPK---DIAESRALKKEAD 697
                              **********99555443...4444444444443 PP

>> Exonuc_VII_L  Exonuclease VII, large subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.1      0.17   4.5e+02     186     234 ..      58     109 ..      22     176 .. 0.61
   2 ?   -3.6   0.0       2.5   6.5e+03     183     216 ..     353     384 ..     275     401 .. 0.61
   3 ?    8.3   4.9   0.00061       1.6     164     283 ..     617     732 ..     578     752 .. 0.40

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.17
             Exonuc_VII_L 186 erkrqrldeleerleralkkqlkkkrerleelkerl.k..ekleekkerlkk 234
                               +k+ + + + e+l+++l+k++++++e++  l++ + +  ++l+ +++++kk
  PHY93_07050|PHY93_07050  58 GQKEAHQKAIYEKLSSKLSKKINQNSEETALLTNYFySngADLSMNNTEVKK 109
                              3445556666777777777777777777777776664455333333333322 PP

  == domain 2  score: -3.6 bits;  conditional E-value: 2.5
             Exonuc_VII_L 183 ellerkrqrldeleerleralkkqlkkkrerlee 216
                               + ++k+++ld++ ++++++++   +++ +++++
  PHY93_07050|PHY93_07050 353 YVPKEKEEKLDDWYNQFSSNMR--PEESDNTVDK 384
                              2334445555555555555333..3333333333 PP

  == domain 3  score: 8.3 bits;  conditional E-value: 0.00061
             Exonuc_VII_L 164 leekkqrleklasrlkspeellerkrqrldeleerleralkkqlkkkrerleelkerlkekleekkerlkklkerle..lleekke 247
                               e +k+++e++++ +   ++ l+++r+r++ ++++l++ ++++l+++r+++e+      +++e++++++k+ ++  +  + ++ k+
  PHY93_07050|PHY93_07050 617 SEYSKEQFEEYKKGV---NRELSANRSRMSAISSELNK-TQQELASQRAEMERRL----SDVERRRNEIKESSNPKDiaESRALKK 694
                              222222222222222...22333333333333333333.2222222222222222....222222333322222222332223333 PP

             Exonuc_VII_L 248 rleeleekleal..splkvLkrGyaivrkedgkvvtsa 283
                              ++++l++++++l  +p ++ + G  iv+ e+ k++++ 
  PHY93_07050|PHY93_07050 695 EADTLKNEISNLirEPAATKSGGGVIVTPENLKTLNEE 732
                              33333333333322444444444444444444444443 PP

>> Spc7  Spc7 kinetochore protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.1      0.53   1.4e+03     199     234 ..      51      84 ..      31     108 .. 0.63
   2 ?    8.9  10.1   0.00025      0.63     177     274 ..     611     709 ..     582     735 .. 0.68

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 0.53
                     Spc7 199 eeLeelreelaelkaeieekkkelaelqeqleelee 234
                              e L +l+ + +++++ i   +k  ++l +++++ +e
  PHY93_07050|PHY93_07050  51 EGLTNLKGQKEAHQKAIY--EKLSSKLSKKINQNSE 84 
                              556666666666666655..3333334444333333 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 0.00025
                     Spc7 177 aeleeeleklqeaaeelesidkeeLeelreelaelkaeieekkkelaelqeqleeleekieelkeqksele..eeiaeaervleec 260
                              ++++++ e  +e+ ee ++  + eL + r++++++++e+++ ++ela+ ++++e+  +++e  +++++e    ++ia + r l+++
  PHY93_07050|PHY93_07050 611 SSVSKNSEYSKEQFEEYKKGVNRELSANRSRMSAISSELNKTQQELASQRAEMERRLSDVERRRNEIKESSnpKDIA-ESRALKKE 695
                              45666666666666666666778888888888888888888888888888888888888888887777765223455.34555556 PP

                     Spc7 261 kgwsesevsrlkee 274
                               +  ++e+s+l  e
  PHY93_07050|PHY93_07050 696 ADTLKNEISNLIRE 709
                              66677777777655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (820 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1999  (0.111495); expected 358.6 (0.02)
Passed bias filter:                      722  (0.04027); expected 358.6 (0.02)
Passed Vit filter:                        78  (0.00435049); expected 17.9 (0.001)
Passed Fwd filter:                        18  (0.00100396); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.90u 0.28s 00:00:01.18 Elapsed: 00:00:00.43
# Mc/sec: 5673.67
//
Query:       PHY93_07055|PHY93_07055  [L=228]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.098   13.0   0.0       0.26   11.7   0.0    1.7  1  Med27     Mediator complex subunit 27


Domain annotation for each model (and alignments):
>> Med27  Mediator complex subunit 27
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   1.4e-05      0.26      36      71 ..      11      46 ..       4      68 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 1.4e-05
                    Med27 36 llsllewissYsnlfskpCkkCkkllssdkqlPpvi 71
                             l+  l+ +s Ys+  sk C+ C++ +  ++++P  +
  PHY93_07055|PHY93_07055 11 LVASLSTFSAYSKTPSKDCSDCNRKTIAAETMPDKR 46
                             55678999*****************99999999655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (228 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       472  (0.0263261); expected 358.6 (0.02)
Passed bias filter:                      351  (0.0195772); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1653.64
//
Query:       PHY93_05490|PHY93_05490  [L=419]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (419 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       538  (0.0300073); expected 358.6 (0.02)
Passed bias filter:                      456  (0.0254337); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.41
# Mc/sec: 3067.05
//
Query:       PHY93_07060|PHY93_07060  [L=114]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (114 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       929  (0.0518155); expected 358.6 (0.02)
Passed bias filter:                      507  (0.0282782); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 880.89
//
Query:       PHY93_07065|PHY93_07065  [L=98]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (98 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       397  (0.0221429); expected 358.6 (0.02)
Passed bias filter:                      323  (0.0180155); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 731.29
//
Query:       PHY93_07070|PHY93_07070  [L=260]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (260 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       267  (0.0148921); expected 358.6 (0.02)
Passed bias filter:                      148  (0.00825478); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.19s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1908.99
//
Query:       PHY93_17805|PHY93_17805  [L=184]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (184 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       489  (0.0272742); expected 358.6 (0.02)
Passed bias filter:                      118  (0.00658152); expected 358.6 (0.02)
Passed Vit filter:                         5  (0.000278878); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.19s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 1381.71
//
Query:       PHY93_17810|PHY93_17810  [L=89]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (89 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       470  (0.0262145); expected 358.6 (0.02)
Passed bias filter:                      310  (0.0172904); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.20s 00:00:00.62 Elapsed: 00:00:00.38
# Mc/sec: 696.63
//
Query:       PHY93_17815|PHY93_17815  [L=259]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.4e-22   77.8   0.0    1.6e-21   76.7   0.0    1.6  1  Methyltransf_11  Methyltransferase domain
      2e-21   76.5   0.0      5e-21   75.2   0.0    1.7  1  Methyltransf_25  Methyltransferase domain
    3.6e-19   69.3   0.0    8.1e-19   68.2   0.0    1.6  1  Methyltransf_12  Methyltransferase domain
    2.8e-18   66.1   0.0    3.8e-18   65.7   0.0    1.2  1  Ubie_methyltran  ubiE/COQ5 methyltransferase family
    2.9e-18   66.2   0.0    3.8e-18   65.9   0.0    1.2  1  Methyltransf_23  Methyltransferase domain
    2.3e-16   59.9   0.0    3.3e-16   59.4   0.0    1.3  1  Methyltransf_31  Methyltransferase domain
      2e-10   40.5   0.0    3.9e-10   39.5   0.0    1.4  1  MTS              Methyltransferase small domain
    8.6e-06   24.9   0.0    1.4e-05   24.2   0.0    1.2  1  Methyltransf_9   Protein of unknown function (DUF1698)
      5e-05   22.8   0.0    8.5e-05   22.0   0.0    1.3  1  TehB             Tellurite resistance protein TehB
    6.9e-05   22.3   0.0    0.00017   21.0   0.0    1.3  1  CMAS             Mycolic acid cyclopropane synthetase
    7.2e-05   22.5   0.0    0.00016   21.3   0.0    1.5  1  MetW             Methionine biosynthesis protein MetW
    0.00023   21.1   0.0     0.0018   18.2   0.0    2.0  1  Methyltransf_8   Hypothetical methyltransferase
    0.00037   20.5   0.0    0.00084   19.3   0.0    1.7  2  Methyltransf_18  Methyltransferase domain
      0.002   17.7   0.0     0.0038   16.8   0.0    1.5  1  Methyltransf_PK  AdoMet dependent proline di-methyltransferas
     0.0029   17.0   0.0     0.0041   16.6   0.0    1.2  1  PrmA             Ribosomal protein L11 methyltransferase (Prm
      0.009   15.7   0.0       0.02   14.5   0.0    1.5  2  NodS             Nodulation protein S (NodS)
  ------ inclusion threshold ------
      0.014   15.6   0.0      0.071   13.2   0.0    2.0  1  FtsJ             FtsJ-like methyltransferase
      0.017   14.4   0.0      0.023   14.0   0.0    1.2  1  Methyltransf_2   O-methyltransferase domain
      0.019   14.2   0.0      0.032   13.4   0.0    1.4  1  N2227            N2227-like protein
      0.022   13.9   0.0      0.039   13.0   0.0    1.4  1  DREV             DREV methyltransferase
      0.027   14.2   0.0       0.04   13.7   0.0    1.2  1  PCMT             Protein-L-isoaspartate(D-aspartate) O-methyl
      0.034   13.9   0.0      0.051   13.3   0.0    1.2  1  DUF938           Protein of unknown function (DUF938)
      0.035   14.1   0.0      0.061   13.3   0.0    1.4  1  Methyltransf_32  Methyltransferase domain
        0.1   12.6   0.0       0.27   11.3   0.0    1.7  1  HisKA            His Kinase A (phospho-acceptor) domain
       0.11   11.6   0.0       0.22   10.6   0.0    1.5  2  RrnaAD           Ribosomal RNA adenine dimethylase


Domain annotation for each model (and alignments):
>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.7   0.0   2.3e-24   1.6e-21       1      96 []      42     140 ..      42     140 .. 0.97

  Alignments for each domain:
  == domain 1  score: 76.7 bits;  conditional E-value: 2.3e-24
                              EEET-TTSHHHHHHHHTT..SEEEEEES-HHHHHHHHHHCCHHT-.EEEETTEECCCTSS-TT-EEEEEEES-CCC-CCHHHHHHH CS
          Methyltransf_11   1 LdvGcGtGrlaealakrg..arvvgvDlskemlklakekaseegl.kvefvvadaeklpfednsfDlvvssevlhhvedpekalke 83 
                              Ld+GcGtG+l+++la+++   ++ ++Dls+  l+ ak+  + + + k++f  a++ +l +edn++D+vv++ vl+h+++p +a++e
  PHY93_17815|PHY93_17815  42 LDIGCGTGLLSRYLAEKFseVQIDACDLSELRLAEAKKLCRLPAHhKINFFPANFDQLDIEDNTYDFVVIRYVLEHLNNPLRAISE 127
                              8**************999899********************99999**************************************** PP

                              HHHHEEEEEEEEE CS
          Methyltransf_11  84 iaRvLkpgGllvi 96 
                              ++R+L+pgG l++
  PHY93_17815|PHY93_17815 128 ARRILRPGGSLYV 140
                              *********9985 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   75.2   0.0     7e-24     5e-21       1      97 []      41     136 ..      41     136 .. 0.94

  Alignments for each domain:
  == domain 1  score: 75.2 bits;  conditional E-value: 7e-24
                              EEEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHH.TTT.TEEEEESBCCGBSSSTTTEEEEEEESTGGGSSHHHHHH CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrlgkakvtgvDiseemleaareraee.egl.nvefvqgdaedlpfedgsfDlvvssgalhhlsdedlek 84 
                              +Ld+GcGtG l+++la+++++ ++ ++D+se  l++a++ ++  +   +++f  +++++l+ ed+++D+vv++++l+hl+++   +
  PHY93_17815|PHY93_17815  41 ILDIGCGTGLLSRYLAEKFSEVQIDACDLSELRLAEAKKLCRLpA-HhKINFFPANFDQLDIEDNTYDFVVIRYVLEHLNNP--LR 123
                              8******************99********************8744.36*************************99****965..59 PP

                              HHHHHHHHEEEEE CS
          Methyltransf_25  85 alkeiarvLkpgG 97 
                              a++e++r+L+pgG
  PHY93_17815|PHY93_17815 124 AISEARRILRPGG 136
                              9***********9 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.2   0.0   1.1e-21   8.1e-19       1      99 []      42     138 ..      42     138 .. 0.88

  Alignments for each domain:
  == domain 1  score: 68.2 bits;  conditional E-value: 1.1e-21
          Methyltransf_12   1 LeiGcGtGsllralleklpdieytgvDispsaiedakeklakrennnnnnvelealdlldldgg.ssfDlvvasnvlhhlkdirev 85 
                              L+iGcGtG l+r+l+ek++++++ ++D+s+  + + ++kl +  +++  +++++  + ++ld + +++D vv+  vl+hl+++ ++
  PHY93_17815|PHY93_17815  42 LDIGCGTGLLSRYLAEKFSEVQIDACDLSELRL-AEAKKLCRLPAHH--KINFFPANFDQLDIEdNTYDFVVIRYVLEHLNNPLRA 124
                              8********************************.7777777777654..77777777666666667******************** PP

          Methyltransf_12  86 ldnirklLkpgGrl 99 
                              ++++r+ L+pgG l
  PHY93_17815|PHY93_17815 125 ISEARRILRPGGSL 138
                              ************76 PP

>> Ubie_methyltran  ubiE/COQ5 methyltransferase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.7   0.0   5.3e-21   3.8e-18      46     167 ..      36     156 ..      28     202 .. 0.90

  Alignments for each domain:
  == domain 1  score: 65.7 bits;  conditional E-value: 5.3e-21
                              --TTEEEEES-TT-HHHHHHHHHHHHHHEEEEEES-HHHHHHHHHHHHHHTSSTEEEEE--TTT-TTS-T-EEEEEEES-GGG-S- CS
          Ubie_methyltran  46 krgakvlDvagGtgDlafklsdsvgekgkvvvlDinenmLkvgekklkeegkinieflqanaeeLpfeddsfDvvtvsfGlrnvtD 131
                               +g+k+lD+ +Gtg l+  l+++   + +++ +D++e  L +++k  +  +  +i+f  an  +L+ ed+++D+v + + l  + +
  PHY93_17815|PHY93_17815  36 FTGSKILDIGCGTGLLSRYLAEKFS-EVQIDACDLSELRLAEAKKLCRLPAHHKINFFPANFDQLDIEDNTYDFVVIRYVLEHLNN 120
                              5799*************99999986.579********************************************************* PP

                              HHHHHHHHHHHEEEEEEEEEEEE----SHHHHHHHH CS
          Ubie_methyltran 132 klkaLkeayrvlkpGGrlvvlefskvelpllsqaye 167
                               l+a+ ea+r+l+pGG l+v++f  + l+l+s   e
  PHY93_17815|PHY93_17815 121 PLRAISEARRILRPGGSLYVIDFDGIFLNLFSDNEE 156
                              ************************999999976543 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.9   0.0   5.4e-21   3.8e-18      11     121 ..      28     144 ..      15     193 .. 0.82

  Alignments for each domain:
  == domain 1  score: 65.9 bits;  conditional E-value: 5.4e-21
          Methyltransf_23  11 dklerllpklraggrvLdiGcGtGillevlrengf..svtgvDlspeaveiae......kakkaqkdqfdeqeaaepqgkfdlIvl 88 
                               +l+ +l   ++g+++LdiGcGtG l+++l+e++   ++++ Dls+   ++a+        +k ++ +++ ++ + +++++d++v 
  PHY93_17815|PHY93_17815  28 NELKYFL--PFTGSKILDIGCGTGLLSRYLAEKFSevQIDACDLSELRLAEAKklcrlpAHHKINFFPANFDQLDIEDNTYDFVVI 111
                              5555556..599******************99987779*******8777777699999955555555555577777899******* PP

          Methyltransf_23  89 revlehvpdppellrqiatllkpgGylllsepl 121
                              r+vleh+ +p ++++ ++++l+pgG l++ +++
  PHY93_17815|PHY93_17815 112 RYVLEHLNNPLRAISEARRILRPGGSLYVIDFD 144
                              ****************************99974 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.4   0.0   4.6e-19   3.3e-16       4     127 ..      38     169 ..      35     213 .. 0.85

  Alignments for each domain:
  == domain 1  score: 59.4 bits;  conditional E-value: 4.6e-19
          Methyltransf_31   4 glrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielArenaqklgldnveFeqgdieeleklledekfDlilsnevlnalad 89 
                              g ++lD+GCGtG l+  la e +++ ++   D se  +  A++ ++      ++F  +++ +l+  +ed+++D+++ + vl +l++
  PHY93_17815|PHY93_17815  38 GSKILDIGCGTGLLSRYLA-EKFSEVQIDACDLSELRLAEAKKLCRLPAHHKINFFPANFDQLD--IEDNTYDFVVIRYVLEHLNN 120
                              679****************.88999*********************99999*************..9******************* PP

          Methyltransf_31  90 pdkileeiervlkpggilliedpr...........llaelpakveeesk 127
                              p  ++ e+ r l+pgg l + d++            l+++++k+e++  
  PHY93_17815|PHY93_17815 121 PLRAISEARRILRPGGSLYVIDFDgiflnlfsdneELTQYLKKIESNFA 169
                              ************************7766666555544444455555444 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.5   0.0   5.4e-13   3.9e-10      31     138 ..      37     141 ..      26     148 .. 0.89

  Alignments for each domain:
  == domain 1  score: 39.5 bits;  conditional E-value: 5.4e-13
                              TCSEEEEET-TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHTTGC.EEEEE-STTT.TSTTS-EEEEEE---STTTCHCH CS
                      MTS  31 lsgkvlDlGcGaGvlgaalakespeaevtlvdvdarAlesakenleankle.vevvasdvle.eveekkfdlivsNPPfhagkate 114
                              +  k+lD+GcG+G+l+  la++ +e++++++d +   l+ ak+ ++  +++ ++++  +  + ++e++ +d++v     +   + +
  PHY93_17815|PHY93_17815  37 TGSKILDIGCGTGLLSRYLAEKFSEVQIDACDLSELRLAEAKKLCRLPAHHkINFFPANFDQlDIEDNTYDFVVI----RYVLE-H 117
                              5678****************************************99999888*******9876899********5....66666.5 PP

                              HHHHHHHHHHHHHHEEEEEEEEEE CS
                      MTS 115 lavaeeliaeAkeaLkegGeLliV 138
                              l+   + i eA+++L++gG+L+++
  PHY93_17815|PHY93_17815 118 LNNPLRAISEARRILRPGGSLYVI 141
                              66678889*************997 PP

>> Methyltransf_9  Protein of unknown function (DUF1698)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.2   0.0   1.9e-08   1.4e-05     109     216 ..      31     139 ..      23     146 .. 0.79

  Alignments for each domain:
  == domain 1  score: 24.2 bits;  conditional E-value: 1.9e-08
                              GGS.--TT-EEEEET-TTSHHHHHHHHCT-SEEEEE--...-HHHHHHHHHHHCCTTTTSSEEEE---GGGS-T.---EEEEEEES CS
           Methyltransf_9 109 phlsdlkgrtildvGcgnGyhlwrmvgegaklvvGidP...selfliqfeavrkllgedqrahllplgieqlpe.leafdtvfsmG 190
                              +++ +++g +ild+Gcg+G  l r ++e+ +  v id    sel l   + + +l   +++ + +p   +ql+   +++d v    
  PHY93_17815|PHY93_17815  31 KYFLPFTGSKILDIGCGTGL-LSRYLAEKFSE-VQIDAcdlSELRLAEAKKLCRLP-AHHKINFFPANFDQLDIeDNTYDFVVIRY 113
                              5566899************7.66888877654.45555000555555555555555.67888999*******986899******** PP

                              -GGG-S-HHHHHHHHHCTEEEEEEEE CS
           Methyltransf_9 191 vlyhrrsPldhllqlkdqlvkgGelv 216
                              vl h + Pl  +++ +  l+ gG l 
  PHY93_17815|PHY93_17815 114 VLEHLNNPLRAISEARRILRPGGSLY 139
                              ***********************984 PP

>> TehB  Tellurite resistance protein TehB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.0   0.0   1.2e-07   8.5e-05      32     128 ..      39     136 ..      28     144 .. 0.82

  Alignments for each domain:
  == domain 1  score: 22.0 bits;  conditional E-value: 1.2e-07
                              -EEEEES-TTSHHHHHHHHT..T-EEEEEES-HHHHHHHHHHHHHTT-TTEEEEE--GGG----S-.EEEEEEESSGGGS-GGGHH CS
                     TehB  32 gkvldlgcgqgrnslylsll..gydvtawdknensiafleeikekenlknistalydineaklder.ydfilstvvlmfleaerip 114
                              +k+ld+gcg g  s yl+ +    +++a d  e  +a  +++    + ++i+    + ++++++++ ydf++   vl  l++    
  PHY93_17815|PHY93_17815  39 SKILDIGCGTGLLSRYLAEKfsEVQIDACDLSELRLAEAKKLCRLPAHHKINFFPANFDQLDIEDNtYDFVVIRYVLEHLNNPL-- 122
                              79***************976115667999************999999999**999*******97544*********99998653.. PP

                              HHHHHHHHTEEEEE CS
                     TehB 115 siienmqectkvgg 128
                              + i++ ++  ++gg
  PHY93_17815|PHY93_17815 123 RAISEARRILRPGG 136
                              44566666666666 PP

>> CMAS  Mycolic acid cyclopropane synthetase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.0   0.0   2.3e-07   0.00017      62     161 ..      37     137 ..      29     143 .. 0.81

  Alignments for each domain:
  == domain 1  score: 21.0 bits;  conditional E-value: 2.3e-07
                              TT-EEEEES-TTSHHHHHHHHHH.--EEEEEES-HHHHHHHHHHHHTS-SSS-EEEEES-GGG---...--SEEEEES-GGGTSGG CS
                     CMAS  62 pGmtlLdiGcGWGslvrravery.dvkvvglTlSkeqaklakkrvdeldlerkvevklldyedlde...kvdrvvsvgafehvgke 143
                               G+++LdiGcG G l r+ +e++ +v++ +  lS+ + + akk +     ++k +   +++ +ld     +d vv   ++eh+ + 
  PHY93_17815|PHY93_17815  37 TGSKILDIGCGTGLLSRYLAEKFsEVQIDACDLSELRLAEAKKLCRL-PAHHKINFFPANFDQLDIednTYDFVVIRYVLEHLNN- 120
                              599*******************9679**************9998864.5578888888888887644468999999999999853. PP

                              GHHHHHHHHHHHS-TT-E CS
                     CMAS 144 nydtffkklkkllkedGl 161
                                 + ++++ ++l+++G 
  PHY93_17815|PHY93_17815 121 -PLRAISEARRILRPGGS 137
                              .34556666666666665 PP

>> MetW  Methionine biosynthesis protein MetW
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.0   2.2e-07   0.00016      13     102 ..      37     132 ..      31     143 .. 0.74

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 2.2e-07
                     MetW  13 pgsrvldlGcGdGellellkee.kqvdgrGleldeegvaecvakGlsviqgd.....ldkdlenfedksfdyvvlsqtlqatrnpk 92 
                               gs++ld+GcG G l ++l+e+  +v+    +l+e  +ae+ +      +       ++ d    ed+++d+vv+   l  ++np 
  PHY93_17815|PHY93_17815  37 TGSKILDIGCGTGLLSRYLAEKfSEVQIDACDLSELRLAEAKKLCRLPAHHKinffpANFDQLDIEDNTYDFVVIRYVLEHLNNPL 122
                              58*****************98634677777777777776665433322333300111444555679******************** PP

                     MetW  93 evldellrig 102
                              + ++e  ri 
  PHY93_17815|PHY93_17815 123 RAISEARRIL 132
                              **99999985 PP

>> Methyltransf_8  Hypothetical methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.0   2.5e-06    0.0018     109     164 ..      92     148 ..      36     170 .. 0.64

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 2.5e-06
                              EES-TTS-S--TT-EEEEEEES---S.S-HHHHHHHHHHHEEEEEEEEEEEEGGG-S CS
           Methyltransf_8 109 vacdlakvPledesvdvavfclslmg.tnladflkeanrvlkvGGllkvaevksrfe 164
                               + ++ ++ +ed++ d +v+   l   +n    + ea+r+l++GG l+v +    f 
  PHY93_17815|PHY93_17815  92 FPANFDQLDIEDNTYDFVVIRYVLEHlNNPLRAISEARRILRPGGSLYVIDFDGIFL 148
                              3556778999******9998777654145567899**************98776554 PP

>> Methyltransf_18  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.3   0.0   1.2e-06   0.00084      15      61 ..      38      84 ..      26     112 .. 0.81
   2 ?   -3.1   0.0       9.1   6.6e+03      28      47 ..     178     197 ..     177     212 .. 0.74

  Alignments for each domain:
  == domain 1  score: 19.3 bits;  conditional E-value: 1.2e-06
          Methyltransf_18 15 gsrvaDiGtDHgylpiylvkegkakkviasDinegplekakenieka 61
                             gs+++DiG+  g+l+ yl+++    ++ a+D++e  l++ak+ ++  
  PHY93_17815|PHY93_17815 38 GSKILDIGCGTGLLSRYLAEKFSEVQIDACDLSELRLAEAKKLCRLP 84
                             789**************************************988654 PP

  == domain 2  score: -3.1 bits;  conditional E-value: 9.1
          Methyltransf_18  28 lpiylvkegkakkviasDin 47 
                              +p yl k++  +  + +D+ 
  PHY93_17815|PHY93_17815 178 IPTYLKKNNFSQINYHVDVM 197
                              67788888877777777775 PP

>> Methyltransf_PK  AdoMet dependent proline di-methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   5.3e-06    0.0038      58     159 ..      40     140 ..      29     169 .. 0.83

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 5.3e-06
          Methyltransf_PK  58 valdcGaGiGrvtknlLlkll.skvDlvepvekflekakeelae.ekkkvgkvyvvglqeftPeegrYdliWiqWcvghLtDedlv 141
                               +ld+G+G G +++ l  k+   ++D  +  e  l++ak+ l++   ++  +++   +++   e++ Yd + i++++ hL +   +
  PHY93_17815|PHY93_17815  40 KILDIGCGTGLLSRYLAEKFSeVQIDACDLSELRLAEAKK-LCRlPAHHKINFFPANFDQLDIEDNTYDFVVIRYVLEHLNNP--L 122
                              69**********9988777763468999999988998885.55547788889****************************753..4 PP

          Methyltransf_PK 142 aflkrckkalkpnGlivv 159
                                ++ + + l+p+G + v
  PHY93_17815|PHY93_17815 123 RAISEARRILRPGGSLYV 140
                              556777777888776655 PP

>> PrmA  Ribosomal protein L11 methyltransferase (PrmA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   5.7e-06    0.0041     162     255 ..      38     137 ..      25     149 .. 0.72

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 5.7e-06
                     PrmA 162 geevlDvGtGSGiLa.iaaakLgakkvvavDiDevAvkvakeNaelNkvea.klevalseellk..eekadvivaNILaevlie.. 241
                              g+++lD+G+G+G+L+   a k+   ++ a D+ e+ +  ak+  +l   ++ ++   ++ ++l+  ++++d +v   + e l +  
  PHY93_17815|PHY93_17815  38 GSKILDIGCGTGLLSrYLAEKFSEVQIDACDLSELRLAEAKKLCRLPAHHKiNF-FPANFDQLDieDNTYDFVVIRYVLEHLNNpl 122
                              679************55799********************99999887777444.3233333323368899888766555554311 PP

                     PrmA 242 .laedikklvkeggl 255
                                ++++ +++++gg+
  PHY93_17815|PHY93_17815 123 rAISEARRILRPGGS 137
                              134455566666665 PP

>> NodS  Nodulation protein S (NodS)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.5   0.0   2.7e-05      0.02      45     141 ..      39     137 ..      35     141 .. 0.76
   2 ?   -3.2   0.0       7.2   5.2e+03      85     103 ..     184     201 ..     180     204 .. 0.74

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 2.7e-05
                     NodS  45 adalevGcaaGalterlapyckr..ltvvdvveeaiarare..rvkesshiswivsdvqqfst.dekfdlivvaevlyyiedvael 125
                              +++l++Gc +G l+  la       +   d+ e  +a a++  r+    +i++  ++  q++  d+ +d +v+  vl ++++  + 
  PHY93_17815|PHY93_17815  39 SKILDIGCGTGLLSRYLAEKFSEvqIDACDLSELRLAEAKKlcRLPAHHKINFFPANFDQLDIeDNTYDFVVIRYVLEHLNNPLR- 123
                              578***************87665115568998877777765338888899************72578*****9999988876443. PP

                     NodS 126 raavrnlvsllapdgq 141
                                a+ +  ++l+p+g 
  PHY93_17815|PHY93_17815 124 --AISEARRILRPGGS 137
                              ..56666677777766 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 7.2
                     NodS  85 vkesshiswivsdvqqfst 103
                               ++ s+i+++v dv qf+ 
  PHY93_17815|PHY93_17815 184 KNNFSQINYHV-DVMQFKG 201
                              57889999886.8999875 PP

>> FtsJ  FtsJ-like methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   9.9e-05     0.071      20      74 ..      35     100 ..      23     198 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 9.9e-05
                              -.TT-EEEECT-TTSHHHHHHCCT.T.-SEEEEEESSSS...........HHH.TTEEEECS-CCCSS CS
                     FtsJ  20 k.pgktvvDlgaaPGgwsqvllqrlgakgkvvavDlqpm...........apl.pgvttiqgditdpe 74 
                                 g +++D+g+++G  s +l++++ +  ++ a+Dl +                 +++++ +++ + +
  PHY93_17815|PHY93_17815  35 PfTGSKILDIGCGTGLLSRYLAEKFSE-VQIDACDLSELrlaeakklcrlP-AhHKINFFPANFDQLD 100
                              237889******************976.********999776665444322.1356666644433333 PP

>> Methyltransf_2  O-methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   3.2e-05     0.023      64     166 ..      39     142 ..       4     163 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 3.2e-05
                              SEEEEET-TTSHHHHHHHHH-TT-EEEEEE-HHH.HHHHHHHS-----TTEEEEES-TTTS---..--SEEEEESSGGGS-HHHHH CS
           Methyltransf_2  64 kslvDvGGGtGalakaivsayPtikvivfDlpeV.veaAkehlsageeervefvgGdffkdslP..eaDaillkrvlhDwsdekcv 146
                              ++++D+G GtG l +  ++++ ++++   Dl+e   ++Ak+    +++++++f   +f +  +   + D +++  vl    ++   
  PHY93_17815|PHY93_17815  39 SKILDIGCGTGLLSRYLAEKFSEVQIDACDLSELrLAEAKKLCRLPAHHKINFFPANFDQLDIEdnTYDFVVIRYVLEH-LNN-PL 122
                              5799****************************985788998889*********99999877776444577777777743.333.34 PP

                              HHHHHHHHH--TT-EEEEEE CS
           Methyltransf_2 147 klLkrvkkalpagGkvivve 166
                              + + + ++ l++gG + v++
  PHY93_17815|PHY93_17815 123 RAISEARRILRPGGSLYVID 142
                              45567777788888887776 PP

>> N2227  N2227-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   4.4e-05     0.032      84     198 ..      27     137 ..      12     165 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 4.4e-05
                              EEE--HHHHHHHHHHHHS---TT-EEE-TTTT.--SS-SSGGGGG--EEE-SS------TTS--EEEEES-HHHHH--SSHTT-EE CS
                    N2227  84 gnEfsyfmllasefiLnavkeenqitiypfvh.sfsnqlsrddqlrkvkipDveplselkrkknlsmaagdflevykeeeaaesyd 168
                               nE+ yf+ ++ + iL+    +    ++ +   +fs+ + +   l+++++ +++ l +l  +++++   ++f ++  e+   ++yd
  PHY93_17815|PHY93_17815  27 ENELKYFLPFTGSKILDI--GCGTGLLSRYLAeKFSEVQIDACDLSELRLAEAKKLCRLPAHHKINFFPANFDQLDIED---NTYD 107
                              489999999999999996..677777777765156777777789*******************************9999...**** PP

                              EEEEES-TTSSS-HHHHHHHHHHHEEEEEE CS
                    N2227 169 vvvtcfFiDtaeNvleYletiekvlkpggl 198
                               vv+ + +   +N l+ ++   ++l+pgg 
  PHY93_17815|PHY93_17815 108 FVVIRYVLEHLNNPLRAISEARRILRPGGS 137
                              ****************************94 PP

>> DREV  DREV methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   5.4e-05     0.039      94     184 ..      37     138 ..      27     192 .. 0.74

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 5.4e-05
                     DREV  94 edkklldlGaGdGeitkrvaptfee..vyatelsetmrdrlkkk.......kynvlsal.e.lqetdvkldlilclnlldrcfdpl 168
                              +  k+ld+G G G +++ +a+ f+e  + a +lse      kk+       k n + a+ + l+  d  +d ++   +l+   +pl
  PHY93_17815|PHY93_17815  37 TGSKILDIGCGTGLLSRYLAEKFSEvqIDACDLSELRLAEAKKLcrlpahhKINFFPANfDqLDIEDNTYDFVVIRYVLEHLNNPL 122
                              5689*********************6656888887544333332111211144444332133666677899999999999999999 PP

                     DREV 169 klledirsalepngrv 184
                              + + + r +l+p g  
  PHY93_17815|PHY93_17815 123 RAISEARRILRPGGSL 138
                              9999999988887764 PP

>> PCMT  Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   5.5e-05      0.04      46      97 ..      11      61 ..       3      92 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 5.5e-05
                             S-EEEETTEEE--HHHHHHHHHHTT--TT-EEEEES-TTSHHHHHHHHHHCT CS
                     PCMT 46 aplsigynatiSaphmvalalellelkkgarvLevGsGsGyltavlarlvge 97
                              + +++++ati + ++   +  +l +  g+++L++G+G+G l+  la+ + e
  PHY93_17815|PHY93_17815 11 EAKRLEFQATIPQYSLENELKYFLPF-TGSKILDIGCGTGLLSRYLAEKFSE 61
                             56778888999998888877777765.699**********988777766554 PP

>> DUF938  Protein of unknown function (DUF938)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   7.1e-05     0.051      18      61 ..      30      73 ..      22     109 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 7.1e-05
                   DUF938 18 LksylakttervLEiasGtGqHAvffApalpnlkwqpsdqdeel 61
                             Lk  l+ t++++L+i+ GtG    ++A+++++++  + d  e  
  PHY93_17815|PHY93_17815 30 LKYFLPFTGSKILDIGCGTGLLSRYLAEKFSEVQIDACDLSELR 73
                             7778889999***********************99999987755 PP

>> Methyltransf_32  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   8.5e-05     0.061      28      70 ..      40      80 ..      35     109 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 8.5e-05
          Methyltransf_32 28 tvvDvGaGkgYLsfvlalkeke.yklkvvgidakeelvekaekr 70
                             +++D+G+G g Ls+ la    +  ++++ + d++e + ++a+k+
  PHY93_17815|PHY93_17815 40 KILDIGCGTGLLSRYLAE---KfSEVQIDACDLSELRLAEAKKL 80
                             799***************...44789999999998888777765 PP

>> HisKA  His Kinase A (phospho-acceptor) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00038      0.27       8      47 ..     113     167 ..     110     181 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00038
                              HHHHHHHHHHHHHHHHHHHHHC.................T-HSSCHHHHHHHHHH CS
                    HisKA   8 gvaHELrtPLsailgnaeaLkre...............gklteelkeyletiese 47 
                              +v   L++PL ai+ +  +L+                  + +eel +yl++ies+
  PHY93_17815|PHY93_17815 113 YVLEHLNNPLRAISEARRILRPGgslyvidfdgiflnlFSDNEELTQYLKKIESN 167
                              66678***************88899*************5557**********997 PP

>> RrnaAD  Ribosomal RNA adenine dimethylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   0.00031      0.22      32     103 ..      39     121 ..      23     128 .. 0.67
   2 ?   -2.7   0.0       3.5   2.5e+03      78      93 ..     188     204 ..     177     247 .. 0.60

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00031
                              SEEEEES-TTTCCHHHHHCC-.....SEEEEE-S-HHHHHHHHCHTTTCCCEEEE-S-CCGHHHHHHHCT.......TTCCCCE CS
                   RrnaAD  32 ltvleigpGkGilTeeLakra.....kqvvvlElderLakllqkklskdeklkvvhqDflkfetpeevte.......kdsihqe 103
                               ++l+ig G+G+l++ La+ +     +   + El+ + ak l      ++k++   ++f + ++  + ++         + +++
  PHY93_17815|PHY93_17815  39 SKILDIGCGTGLLSRYLAEKFsevqiDACDLSELRLAEAKKLCRL-PAHHKINFFPANFDQLDIEDNTYDfvviryvLEHLNNP 121
                              68****************999553333444555555555555552.25777777777777776666666655555555555555 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 3.5
                              EEE.E-S-CCGHHHHHH CS
                   RrnaAD  78 lkv.vhqDflkfetpee 93 
                              +++ +h D+++f+  e 
  PHY93_17815|PHY93_17815 188 SQInYHVDVMQFKGHET 204
                              56667777777766552 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (259 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       819  (0.0456802); expected 358.6 (0.02)
Passed bias filter:                      661  (0.0368676); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                        25  (0.00139439); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              25  [number of targets reported over threshold]
# CPU time: 0.59u 0.25s 00:00:00.84 Elapsed: 00:00:00.41
# Mc/sec: 1879.62
//
Query:       PHY93_17820|PHY93_17820  [L=252]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (252 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       571  (0.0318478); expected 358.6 (0.02)
Passed bias filter:                      497  (0.0277205); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 1829.83
//
Query:       PHY93_17825|PHY93_17825  [L=312]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    5.3e-06   26.4   0.0    3.3e-05   23.8   0.0    2.2  2  HTH_19          Helix-turn-helix domain
    1.7e-05   24.8   0.1    5.6e-05   23.1   0.0    1.9  2  HTH_3           Helix-turn-helix
    0.00093   19.5   0.0     0.0016   18.8   0.0    1.3  1  HTH_31          Helix-turn-helix domain
     0.0037   17.2   0.0      0.017   15.1   0.0    2.1  3  HTH_37          Helix-turn-helix domain
  ------ inclusion threshold ------
      0.021   14.9   0.0      0.062   13.4   0.0    1.9  1  Phage_CI_repr   Bacteriophage CI repressor helix-turn-helix d
      0.042   14.0   0.2      0.096   12.8   0.2    1.5  1  OSCP            ATP synthase delta (OSCP) subunit
      0.044   14.0   0.0        1.1    9.4   0.0    2.6  2  Death           Death domain
      0.068   13.1   0.0       0.13   12.1   0.0    1.4  1  Thioredoxin_13  Thioredoxin-like domain
       0.12   12.4   0.0       0.25   11.4   0.0    1.5  1  Cro             Cro
       0.15   12.0   0.0       0.35   10.8   0.0    1.7  1  MarR            MarR family
       0.16   11.5   0.0        3.5    7.2   0.0    2.3  2  Sigma70_r4      Sigma-70, region 4


Domain annotation for each model (and alignments):
>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.8   0.0     2e-08   3.3e-05       1      59 [.      16      73 ..      16      79 .. 0.84
   2 ?   -0.8   0.0      0.95   1.5e+03      23      57 ..     122     158 ..     119     165 .. 0.66

  Alignments for each domain:
  == domain 1  score: 23.8 bits;  conditional E-value: 2e-08
                   HTH_19  1 GerLkeaReelgltqeelaerlgisrskisaiEngkkdvpsaelllkiaealgidleyl 59
                             G  + ++R  +gl+q  la +lg+ +s+is+iE+g   ++sa    ++a+ l++++e +
  PHY93_17825|PHY93_17825 16 GNLIECIRYTYGLNQTTLAMTLGVAQSSISKIEKGDL-TLSAFQWCDLAQSLNLPIETI 73
                             678999*****************************55.555555588999998888865 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 0.95
                   HTH_19  23 gisrskisaiEng.kkdvps..aelllkiaealgidle 57 
                              +i+ ++  ++ n+ +k +++   +++lk++ ++++d +
  PHY93_17825|PHY93_17825 122 KINNAFFDNFLNElSK-DTKssKSTFLKRSFFCNLDNQ 158
                              5555555566666433.555568999999999999854 PP

>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.1   0.0   3.4e-08   5.6e-05       9      53 ..      27      71 ..      23      73 .. 0.93
   2 ?   -2.2   0.0       2.8   4.5e+03      28      51 ..      90      98 ..      81     101 .. 0.58

  Alignments for each domain:
  == domain 1  score: 23.1 bits;  conditional E-value: 3.4e-08
                             THHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHH CS
                    HTH_3  9 glsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvsld 53
                             gl q+ LA  lGv +s+is+iE+G+   s      la+ L+++++
  PHY93_17825|PHY93_17825 27 GLNQTTLAMTLGVAQSSISKIEKGDLTLSAFQWCDLAQSLNLPIE 71
                             99**********************999**9999999999999987 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 2.8
                             HHHTTSSCSBHHHHHHHHHHHTSE CS
                    HTH_3 28 riEnGernPsletlkklakaLgvs 51
                             ++EnG               + ++
  PHY93_17825|PHY93_17825 90 KMENG---------------YEIT 98
                             56777...............3333 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.0   9.6e-07    0.0016      14      57 ..      27      69 ..      11      73 .. 0.89

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 9.6e-07
                   HTH_31 14 GLsqeevAerlgvsestlsrlEqGrrgrpspavlealaralgld 57
                             GL q+ +A  lgv +s +s++E G  +  s  ++  la+ l+l+
  PHY93_17825|PHY93_17825 27 GLNQTTLAMTLGVAQSSISKIEKGDLT-LSAFQWCDLAQSLNLP 69
                             999***********************6.*************998 PP

>> HTH_37  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0     1e-05     0.017      23      57 ..      19      53 ..       3      68 .. 0.82
   2 ?   -3.7   0.0       7.6   1.2e+04      22      39 ..     166     183 ..     158     184 .. 0.67
   3 ?   -2.4   0.0       2.9   4.8e+03      29      46 ..     294     311 ..     291     311 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 1e-05
                             HHHHHHHCT--HHHHHHHHT--HHHHHHHHTT--T CS
                   HTH_37 23 iaeliekrelsqseaaqllgiaqPkvsrllrgkls 57
                             i  ++   +l q+ +a+ lg+aq+++s++++g+l+
  PHY93_17825|PHY93_17825 19 IECIRYTYGLNQTTLAMTLGVAQSSISKIEKGDLT 53
                             4445556799**********************986 PP

  == domain 2  score: -3.7 bits;  conditional E-value: 7.6
                              HHHHHHHHCT--HHHHHH CS
                   HTH_37  22 aiaeliekrelsqseaaq 39 
                              +++++i++ + s   +a+
  PHY93_17825|PHY93_17825 166 TLIQKIKDSGASNHSIAE 183
                              467777777777766665 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 2.9
                              HCT--HHHHHHHHT--HH CS
                   HTH_37  29 krelsqseaaqllgiaqP 46 
                              + ++ ++   ++++i+qP
  PHY93_17825|PHY93_17825 294 HGGWNKKNGEMIFEITQP 311
                              668888999999*****9 PP

>> Phage_CI_repr  Bacteriophage CI repressor helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   3.8e-05     0.062       9      39 ..      25     153 ..      17     166 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 3.8e-05
                              HHT-SSCHHHHCCTT--HHHHH................................................................ CS
            Phage_CI_repr   9 aygvkmqkeLAdlLgiakssvs................................................................ 30 
                               yg ++   LA  Lg+a+ss+s                                                                
  PHY93_17825|PHY93_17825  25 TYGLNQT-TLAMTLGVAQSSISkiekgdltlsafqwcdlaqslnlpietikncyldnrtvtvtnsykmengyeitpkysenrcikv 109
                              6888777.9*************9999999999999999999999999999999999999999999999999999999999999999 PP

                              ...................................HHHHSSS-- CS
            Phage_CI_repr  31 ...................................twvrRdffP 39 
                                                                 t  +R+ff 
  PHY93_17825|PHY93_17825 110 rcllpfisfmdlkinnaffdnflnelskdtkssksTFLKRSFFC 153
                              99999999999999999999999999888777777777777764 PP

>> OSCP  ATP synthase delta (OSCP) subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.2   5.9e-05     0.096      19      79 ..     201     268 ..     195     272 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 5.9e-05
                     OSCP  19 leeveeelealeavlaedkklaellsnpavsaeekkdlleelfke.......klseavknflkllaen 79 
                               e+ +++++ l++ +++ +k++++l ++ +++++ + ++++ +++         s++++nf++ll+e+
  PHY93_17825|PHY93_17825 201 YEKEKNQINILKQFIQNFPKYNNVLVHQIMDHDKNSLIFSSTINDdlsesylTTSDYCRNFIELLFEK 268
                              66777889999999********************9999999999989999999999*********997 PP

>> Death  Death domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.0      0.18   2.9e+02      16      38 ..      28      50 ..      17      56 .. 0.84
   2 ?    9.4   0.0   0.00069       1.1      16      40 ..      57      82 ..      52      96 .. 0.81

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.18
                             CCHHHHHHHTTSHHHHHHHHHHS CS
                    Death 16 kdWkelarkLglseeeidrieke 38
                              +  +la+ Lg+ ++ i  iek 
  PHY93_17825|PHY93_17825 28 LNQTTLAMTLGVAQSSISKIEKG 50
                             55578***************986 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.00069
                             CCHHHHHHHTTSHHHHHHHHHHSS.S CS
                    Death 16 kdWkelarkLglseeeidrieken.n 40
                              +W+ la++L+l+ e+i+ +  +n  
  PHY93_17825|PHY93_17825 57 FQWCDLAQSLNLPIETIKNCYLDNrT 82
                             59*************99999888843 PP

>> Thioredoxin_13  Thioredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   8.1e-05      0.13      28      53 ..     204     236 ..     192     259 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 8.1e-05
                              HSSHHHHHHHHHHTGGGGSTTCS-S.......S CS
           Thioredoxin_13  28 sedpLkaLsdlsqnFPkyassLarv.......k 53 
                              +++++++L++  qnFPky + L+++       +
  PHY93_17825|PHY93_17825 204 EKNQINILKQFIQNFPKYNNVLVHQimdhdknS 236
                              4589****************9999866655440 PP

>> Cro  Cro
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   0.00015      0.25       9      31 ..      24      46 ..      18      50 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00015
                             HHHHHHHHHHHHHHTS-HHHHHH CS
                      Cro  9 yvtkvGQaktAkdlgvkqsaIsK 31
                             y +   Q+  A  lgv+qs+IsK
  PHY93_17825|PHY93_17825 24 YTYGLNQTTLAMTLGVAQSSISK 46
                             677778999*************9 PP

>> MarR  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   0.00022      0.35       8      37 ..      18      47 ..      16      50 .. 0.92

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00022
                             HHHHHHHSTTEEHHHHHHHHTS-HHHHHHH CS
                     MarR  8 iLrilyeqgplsvseLakklgvskstvtrv 37
                             +++++++  +l+++ La+ lgv +s+++++
  PHY93_17825|PHY93_17825 18 LIECIRYTYGLNQTTLAMTLGVAQSSISKI 47
                             5789***********************986 PP

>> Sigma70_r4  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2   0.0    0.0022       3.5      16      42 ..      23      49 ..      21      50 .. 0.95
   2 ?    1.4   0.0      0.14   2.3e+02      25      38 ..      61      74 ..      59      76 .. 0.90

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.0022
                             HHTTT--HHHHHHHHTS-HHHHHHHHH CS
               Sigma70_r4 16 rfgeglTleEIgerlgiSrerVrqiek 42
                             r+  gl++  ++ +lg+ ++ ++ iek
  PHY93_17825|PHY93_17825 23 RYTYGLNQTTLAMTLGVAQSSISKIEK 49
                             8999*********************97 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.14
                             HHHHHHTS-HHHHH CS
               Sigma70_r4 25 EIgerlgiSrerVr 38
                             ++++ l+++ e+++
  PHY93_17825|PHY93_17825 61 DLAQSLNLPIETIK 74
                             689**********8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (312 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       896  (0.0499749); expected 358.6 (0.02)
Passed bias filter:                      442  (0.0246528); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.54u 0.20s 00:00:00.74 Elapsed: 00:00:00.40
# Mc/sec: 2368.95
//
Query:       PHY93_17830|PHY93_17830  [L=315]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0001   22.2   0.0    0.00017   21.5   0.0    1.4  1  V4R       V4R domain


Domain annotation for each model (and alignments):
>> V4R  V4R domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.0   9.5e-09   0.00017      18      60 ..     249     292 ..     235     294 .. 0.87

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 9.5e-09
                              SS--.-HHHHHHHHHHHHHHHSSEEEEEEEE-GGGT-SSEEEEE CS
                      V4R  18 eePv.CyleaGllagalsellgkrveveEveCaaeGhdhCeFev 60 
                              ++P+ C++  G+l  a   l+ +  +v E++Ca++G+d C+  +
  PHY93_17830|PHY93_17830 249 GGPLrCAYRLGALQAATQYLGLPFSQVSEIQCAHKGDDVCKYLI 292
                              56655***********************************9765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (315 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       697  (0.0388756); expected 358.6 (0.02)
Passed bias filter:                      403  (0.0224776); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.39
# Mc/sec: 2447.35
//
Query:       PHY93_17835|PHY93_17835  [L=196]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.9e-12   47.7   0.0    3.1e-12   47.6   0.0    1.0  1  Abhydrolase_6  Alpha/beta hydrolase family
    5.9e-12   45.8   0.1    9.6e-12   45.1   0.1    1.3  1  Abhydrolase_1  alpha/beta hydrolase fold
    7.8e-05   21.9   0.0    0.00011   21.4   0.0    1.2  1  DUF1057        Alpha/beta hydrolase of unknown function (DUF1
    0.00027   20.3   0.0    0.00036   19.9   0.0    1.1  1  Hydrolase_4    Serine aminopeptidase, S33
     0.0027   16.5   0.0     0.0042   15.8   0.0    1.2  1  Ndr            Ndr family
  ------ inclusion threshold ------
      0.016   14.8   0.0      0.023   14.3   0.0    1.2  1  LIDHydrolase   Lipid-droplet associated hydrolase
       0.17   12.0   0.0       0.23   11.5   0.0    1.1  1  Thioesterase   Thioesterase domain


Domain annotation for each model (and alignments):
>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.6   0.0   1.2e-15   3.1e-12       1     107 [.      25     138 ..      25     191 .. 0.61

  Alignments for each domain:
  == domain 1  score: 47.6 bits;  conditional E-value: 1.2e-15
                              EEEE--GC.....G.CHHHHHHHHCCTCEEEEE--TTST..S-GGCS--HHHCHHHHHHHCCTT....TTSEEEEEETCHHHHHHH CS
            Abhydrolase_6   1 vlllHGagssassW.lvapLaallaagvhvlapDlpGhG..rsdpppldledladlaalldelaa..gggpvvlvGHSlGGalala 81 
                              ++++HG ++++  +    ++ + l + ++ +a+DlpGhG  ++d  + +++    +a++l+++++  g ++   vGHSlGG++ l+
  PHY93_17835|PHY93_17835  25 IIFIHGNSHNGKNFwK--QFSEPLLSKFRLIAIDLPGHGnsSPDFTDEAYSL-SCYANTLQSFVEelGLNNSLFVGHSLGGHILLE 107
                              79****9999666634..775555666777*********4333444444433.4446655555555568889************** PP

                              HHHCC....EE...EEES-..........----TTT..S-- CS
            Abhydrolase_6  82 aapla..lvvg...vlldppp........talpagl..laa 107
                                 +   l+++   ++  p p        +     +    +
  PHY93_17835|PHY93_17835 108 ---GIskLNAKgllIYGTP-PigiplnpsV-----FlpH-P 138
                              ...8877444457455555.4354222112.....2321.1 PP

>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.1   0.1   3.8e-15   9.6e-12       2      88 ..      24     106 ..      23     111 .. 0.95

  Alignments for each domain:
  == domain 1  score: 45.1 bits;  conditional E-value: 3.8e-15
                              EEEEE-STTTCGGGGTTGHHHHHHHHTTSEEEEEEETTSTTSSSTTTGB.CHHSHHHHHHHHHHHHHHCTTSSEEEEEETHHHHHH CS
            Abhydrolase_1   2 vlvilhGlpgssdvwaerglapaLakdgfdvillDlrGvgySspapacinddygtasvaddldrildalgddkltlvGhSmGGmia 87 
                              +++++hG   ++ ++++++  p L+  +f++i++Dl+G+g Ssp  +   + y++  +a+ l+ +++ lg+ +   vGhS+GG i 
  PHY93_17835|PHY93_17835  24 SIIFIHGNSHNGKNFWKQFSEPLLS--KFRLIAIDLPGHGNSSPDFTD--EAYSLSCYANTLQSFVEELGLNNSLFVGHSLGGHIL 105
                              79***************98888888..6*******************9..*********************************997 PP

                              H CS
            Abhydrolase_1  88 l 88 
                              l
  PHY93_17835|PHY93_17835 106 L 106
                              6 PP

>> DUF1057  Alpha/beta hydrolase of unknown function (DUF1057)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.4   0.0   4.1e-08   0.00011      26     133 ..      16     120 ..       7     138 .. 0.83

  Alignments for each domain:
  == domain 1  score: 21.4 bits;  conditional E-value: 4.1e-08
                  DUF1057  26 eDslasgsplGtvvalhGsPGshnDfkYirsklee..lkiRligvnyPGfef.vtgylgqkytnaeRnsyskalleelelkgklil 108
                               D ++ g+    ++ +hG   shn   + +++ e    k Rli+++ PG  +  ++++++ y      +  ++++eel l++ l +
  PHY93_17835|PHY93_17835  16 YDNCSDGQ---SIIFIHGN--SHNGKNFWKQFSEPllSKFRLIAIDLPGHGNsSPDFTDEAYSLSCYANTLQSFVEELGLNNSL-F 95 
                              55555554...36777885..899999999988863369**********9652689999*********************9986.8 PP

                  DUF1057 109 lghsRGcenaLqlavtleahGlvli 133
                              +ghs G+   L   ++l+a Gl + 
  PHY93_17835|PHY93_17835  96 VGHSLGGHILLEGISKLNAKGLLIY 120
                              9****************99999765 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.9   0.0   1.4e-07   0.00036       7      96 ..      25     111 ..      21     134 .. 0.82

  Alignments for each domain:
  == domain 1  score: 19.9 bits;  conditional E-value: 1.4e-07
              Hydrolase_4   7 vvlvHGlaehsgryaelaeaLaaqGfavyalDhrGhGrsegkrg.hvpsfddyvdDlaafvekvkeehpelplfllGhSmGGlial 91 
                              ++++HG     + + + + +     f  +a+D  GhG+s +    +  s++ y + l++fve++  ++       +GhS+GG i l
  PHY93_17835|PHY93_17835  25 IIFIHGNSHNGKNFWKQFSEPLLSKFRLIAIDLPGHGNSSPDFTdEAYSLSCYANTLQSFVEELGLNN----SLFVGHSLGGHILL 106
                              7888888888888888777777889***************888857889999********99998444....5678********98 PP

              Hydrolase_4  92 lyllr 96 
                              + + +
  PHY93_17835|PHY93_17835 107 EGISK 111
                              76654 PP

>> Ndr  Ndr family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.0   1.6e-06    0.0042      51     114 ..      45     106 ..      26     111 .. 0.91

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 1.6e-06
                              HHHTTSEEEEEE-TT-STT-----TT-----HHHHHTTHHHHHHHHT---EEEEEETHHHHHHH CS
                      Ndr  51 eilekfvilhvdaPGqeegaaslpedyqfpslddladqllavldhfklksviglGvgaGAyila 114
                               +l kf ++ +d PG+ + +++++++    sl   a++l++ ++ + l++ + +G   G  il+
  PHY93_17835|PHY93_17835  45 PLLSKFRLIAIDLPGHGNSSPDFTDE--AYSLSCYANTLQSFVEELGLNNSLFVGHSLGGHILL 106
                              47899******************998..779999***************************996 PP

>> LIDHydrolase  Lipid-droplet associated hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.0   8.9e-06     0.023       5     109 ..      25     115 ..      22     128 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 8.9e-06
             LIDHydrolase   5 ivlipGNPGl.veFYetFlsllseklnpelevlgishaGfeleeeekeakenekvfsLedQiehkedflkellekaksekdvklil 89 
                              i++i GN     +F+++F + l +k    + +++i + G+  ++ +      ++ +sL+   ++ ++f++el         ++  +
  PHY93_17835|PHY93_17835  25 IIFIHGNSHNgKNFWKQFSEPLLSK----FRLIAIDLPGHGNSSPD----FTDEAYSLSCYANTLQSFVEELG-------LNNSLF 95 
                              6777777644256777777777777....99*********999998....8999*****99999999999974.......467789 PP

             LIDHydrolase  90 vGHSvGaYialevlkrlser 109
                              vGHS G +i le +++l+ +
  PHY93_17835|PHY93_17835  96 VGHSLGGHILLEGISKLNAK 115
                              ************99988876 PP

>> Thioesterase  Thioesterase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   9.1e-05      0.23      13      92 ..      36     117 ..      25     121 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 9.1e-05
                              SGGGHHHHHHCTTCEEEEEEECSTTSTSHHHCTTCHHHHHHHHHHHHHHH-SSSSEE...EEEETHHHHHHHHHHHHHHHCT- CS
             Thioesterase  13 asvfrslasklsdpvvevlavqlpgrerdepplesieelaaeyaealrqiqpegPya...lfGhSlGgllAfevArqLesqGl 92 
                                + +++++ l ++  +++a+ lpg+++++p  ++ +   + ya++l++  +e  ++   ++GhSlGg +  e  ++L ++Gl
  PHY93_17835|PHY93_17835  36 KNFWKQFSEPLLSK-FRLIAIDLPGHGNSSPDFTDEAYSLSCYANTLQSFVEELGLNnslFVGHSLGGHILLEGISKLNAKGL 117
                              56788999999997.99**********88877777777779*********99975544449*******998888888888775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (196 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       534  (0.0297841); expected 358.6 (0.02)
Passed bias filter:                      462  (0.0257683); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.51u 0.19s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 1482.70
//
Query:       PHY93_05495|PHY93_05495  [L=616]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.5e-22   78.6  10.2    5.7e-21   75.3   0.0    3.9  4  Band_7    SPFH domain / Band 7 family


Domain annotation for each model (and alignments):
>> Band_7  SPFH domain / Band 7 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.0   0.0      0.01   1.8e+02       2      43 ..      26      86 ..      25     162 .. 0.84
   2 !    8.2   0.0   0.00013       2.3      15      44 ..     220     249 ..     207     251 .. 0.78
   3 !   75.3   0.0   3.2e-25   5.7e-21       2     177 ..     247     461 ..     246     464 .. 0.89
   4 ?   -6.7   5.1         1   1.8e+04     173     173 ..     513     513 ..     470     555 .. 0.57

  Alignments for each domain:
  == domain 1  score: 2.0 bits;  conditional E-value: 0.01
                   Band_7  2 iieegevgvvvr.fGklsr................vlepGlhf.ilPfgrsvtvvsvr.vq 43
                             ii+e +vg+vv   Gk+ +                +l pG+h+  + f   v++ +++ + 
  PHY93_05495|PHY93_05495 26 IIGEAQVGIVVKkIGKPLAnhrfiatageagyqagTLAPGWHLwLWAFMYDVIKQPITiIK 86
                             7888899999887777777888888888999999999999999999988888877777444 PP

  == domain 2  score: 8.2 bits;  conditional E-value: 0.00013
                   Band_7  15 GklsrvlepGlhfilPfgrsvtvvsvrvqt 44 
                              G  ++vl+pG + i+P++ ++ +++++ + 
  PHY93_05495|PHY93_05495 220 GLQEDVLRPGSYTINPWFAKIEQIPMTEID 249
                              33445*****999************99775 PP

  == domain 3  score: 75.3 bits;  conditional E-value: 3.2e-25
                   Band_7   2 iieegevgvvvr.fGklsr.......................vlepGlhfilPfgrsvtvvsvrvqtldvsv............sl 51 
                              +i+ g+vgvvv   G+ ++                       +l pG h  +  + +v ++++++++l++ +            s+
  PHY93_05495|PHY93_05495 247 EIDIGYVGVVVSsSGDSDEdvsgtefthsnlvkkgnrgiwaePLFPGKHALNIKILKVEKIPTTNIVLNWGRessshkydenlnSI 332
                              7999******9999999999999999999977777777777777777666444677777*************************** PP

                   Band_7  52 tvptkDglpvtidvtviyrv.pddapklvaaveresanldnlirrvlesalrevisemtleellsnreelaeelknelneqlrkyG 136
                              t++tkDg+++ +dv++i++v +  a+k++a+v   ++ +dn++++++ +  r+ ++  ++ +++++r+e + e+++ ++e+l  y 
  PHY93_05495|PHY93_05495 333 TTRTKDGFSMSLDVSQIIHVgAGMASKVIARVGSMQNLVDNILQPIIGNYFRNSCQASEALDYIKTRAERQREAAKFIKEALLDYD 418
                              ********************************66667777777777777777777******************************* PP

                   Band_7 137 vevldvritdidpppevaqalaakqaaeaea..qaeiaraeae 177
                              ve +d  i+d++pp+++   l  ++ a++e+   a ++ a+ e
  PHY93_05495|PHY93_05495 419 VEAVDTLIGDLVPPEQLMLTLTNRKIADEEKttYASQKLAQDE 461
                              ******************************9997777777765 PP

  == domain 4  score: -6.7 bits;  conditional E-value: 1
                   Band_7 173 r 173
                              +
  PHY93_05495|PHY93_05495 513 E 513
                              1 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (616 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1285  (0.0716716); expected 358.6 (0.02)
Passed bias filter:                      585  (0.0326287); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.72u 0.25s 00:00:00.97 Elapsed: 00:00:00.43
# Mc/sec: 4294.76
//
Query:       PHY93_17840|PHY93_17840  [L=535]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (535 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       345  (0.0192426); expected 358.6 (0.02)
Passed bias filter:                      313  (0.0174578); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.41
# Mc/sec: 3959.25
//
Query:       PHY93_17845|PHY93_17845  [L=78]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (78 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       280  (0.0156172); expected 358.6 (0.02)
Passed bias filter:                      232  (0.0129399); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.20s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 604.83
//
Query:       PHY93_17850|PHY93_17850  [L=185]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.5e-20   74.3   0.0    1.8e-20   74.0   0.0    1.1  1  Acetyltransf_3  Acetyltransferase (GNAT) domain
    3.3e-06   27.3   0.0    4.8e-06   26.8   0.0    1.4  1  Acetyltransf_1  Acetyltransferase (GNAT) family
  ------ inclusion threshold ------
      0.012   15.6   0.0      0.018   15.0   0.0    1.3  1  FR47            FR47-like protein
      0.055   13.6   0.0      0.077   13.1   0.0    1.4  1  Acetyltransf_4  Acetyltransferase (GNAT) domain


Domain annotation for each model (and alignments):
>> Acetyltransf_3  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.0   0.0   4.1e-24   1.8e-20       1     137 [.      21     161 ..      21     162 .. 0.82

  Alignments for each domain:
  == domain 1  score: 74.0 bits;  conditional E-value: 4.1e-24
           Acetyltransf_3   1 RLlLrplteeDlealfelrsdpevmry..lpepltleea.eewlerawaeeseeeg..ygwaivlkdtgv.iGsv..glrdleeed 78 
                              RLl+ p+ ++++e lfe ++d+ + ++  +++p + +e  ++wl+r  +   ++++  ++wa++  ++g+ +G     +  ++   
  PHY93_17850|PHY93_17850  21 RLLIEPIFSAHAESLFEPMQDENIYKWisITPPNSIDELkKRWLQRESRLSPNGNEawLNWAVRRISDGAyVGKLdaEVDCMNVV- 105
                              9**************************996667777776589999774444444445588***9866666688772233333333. PP

           Acetyltransf_3  79 eeaelgymlapsfwgkGyateavralleyafeelglerlvavidkeNeaSirvleklGf 137
                                 +lgy++ +++wg Gya+e v  l++++ ++ g++++ a +   NeaS rvlek Gf
  PHY93_17850|PHY93_17850 106 --TNLGYIFFSEYWGEGYASESVLELVKHF-SKNGVSKIQASVTLGNEASYRVLEKSGF 161
                              ..9***************************.5666***********************9 PP

>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.8   0.0   1.1e-09   4.8e-06      42     117 .]      42     161 ..       8     161 .. 0.70

  Alignments for each domain:
  == domain 1  score: 26.8 bits;  conditional E-value: 1.1e-09
                              TEEEEEEEEEEEET................TSTTEEEEE............................EEEESGGGTTSSHHHHHHH CS
           Acetyltransf_1  42 geliGfisllkipd................ekggvayie............................slaVspeyrgkGlGsaLle 83 
                              +++  +is+++ +                 ++g++a+++                            ++   +ey+g G++s+ + 
  PHY93_17850|PHY93_17850  42 ENIYKWISITPPNSidelkkrwlqresrlsPNGNEAWLNwavrrisdgayvgkldaevdcmnvvtnlGYIFFSEYWGEGYASESVL 127
                              5555555555555555555555555555555555555555555666655555666666666666666777789************* PP

                              HHHHHHHHTTESEEEEEEETTEHHHHHHHHHTTE CS
           Acetyltransf_1  84 aleerareegikkivlaveedndaairlYeklGF 117
                              +l++++ ++g+ ki + v+  n+a+ r++ek GF
  PHY93_17850|PHY93_17850 128 ELVKHFSKNGVSKIQASVTLGNEASYRVLEKSGF 161
                              *********************************9 PP

>> FR47  FR47-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   0.0   4.1e-06     0.018      32      79 ..     115     163 ..      92     167 .. 0.88

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 4.1e-06
                              GG-SSSHHHHHHHHHHHHHHHS-.S-EEEEEETT-HHHHHHHHHHT-EE CS
                     FR47  32 ehrrrGlgsrlvkalakeiaerg.ktvllvvvasNtpsirlyeklGfek 79 
                              e  ++G++s  v +l k+ +++g  ++ + v  +N++s r++ek Gf  
  PHY93_17850|PHY93_17850 115 EYWGEGYASESVLELVKHFSKNGvSKIQASVTLGNEASYRVLEKSGFIR 163
                              56699****************8846789*******************75 PP

>> Acetyltransf_4  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   1.7e-05     0.077      92     153 ..     119     180 ..      54     181 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 1.7e-05
           Acetyltransf_4  92 eglgrelidaleqvlkeqnienllaeiaspnensiqfhkalGFelvgifkkcikkngrwiDm 153
                              eg+++e +  l++ ++++++ ++ a++   ne+s  +++++GF  v i  +   + g  +D+
  PHY93_17850|PHY93_17850 119 EGYASESVLELVKHFSKNGVSKIQASVTLGNEASYRVLEKSGFIRVNIIPENDTIRGVKYDE 180
                              56666666678999******************************999999999999988887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (185 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       404  (0.0225333); expected 358.6 (0.02)
Passed bias filter:                      378  (0.0210832); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1377.74
//
Query:       PHY93_17855|PHY93_17855  [L=215]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.7e-08   34.9   3.6    3.2e-08   34.0   3.6    1.4  1  Abi_2     Abi-like protein
  ------ inclusion threshold ------
       0.17   11.7   4.5          4    7.3   1.1    2.3  2  NTNH_C    Nontoxic nonhaemagglutinin C-terminal


Domain annotation for each model (and alignments):
>> Abi_2  Abi-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.0   3.6   3.6e-12   3.2e-08      18     178 ..       9     170 ..       2     171 .. 0.76

  Alignments for each domain:
  == domain 1  score: 34.0 bits;  conditional E-value: 3.6e-12
                    Abi_2  18 frkkkddkf.k..gttfeeilalykfDrkLrslllkaieriEialrtaiayelskedeeayldsdnfkkkkkkkkekkkliekiek 100
                              f  k+ + + +  + +++e +  y+f+ +L+  ++ a+  +E+++r+++  +++     +yl+  n+  +++++    +l   i++
  PHY93_17855|PHY93_17855   9 FSIKRLNSYnRegNPSVDEKILRYNFNIELSRAFYPALHILEVSIRNNLHLAFA-----DYLNDHNWLMNYSNH----SL---IHS 82 
                              44467788865888999999*****************************88888.....688888887776633....23...333 PP

                    Abi_2 101 eiersk.esfikhykkkynkeiPlWvlvevlsfGtlsklykllkkkdkkeiakef.gl..........leswlkslkklRNicAHh 174
                              +  r+k e+++k+  kk+ k i    ++  l+fG +++l+    +++  ++ k+              l++ l+ ++ lRN++ H+
  PHY93_17855|PHY93_17855  83 RE-RMKiEDALKELSKKK-KPIEEGRIIAELNFGFWVNLFDRPYTDVHLKTGKDQfPNatapqrniskLRTDLNQIRFLRNRIFHY 166
                              32.233377889999888.78888899999*********99988766633332221113334445599****************** PP

                    Abi_2 175 srlw 178
                              + +w
  PHY93_17855|PHY93_17855 167 EPIW 170
                              **** PP

>> NTNH_C  Nontoxic nonhaemagglutinin C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3   1.1   0.00044         4       8      56 ..      15      68 ..       8      88 .. 0.79
   2 ?    5.6   0.1    0.0015        13      12      55 ..     144     187 ..     138     199 .. 0.91

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.00044
                   NTNH_C  8 nsyird....iseerleynkiyelynyvfsekslyevkennniylsikdt.ndl 56
                             nsy r+    ++e+ l yn   el    ++   + ev   nn++l+  d  nd 
  PHY93_17855|PHY93_17855 15 NSYNREgnpsVDEKILRYNFNIELSRAFYPALHILEVSIRNNLHLAFADYlNDH 68
                             6777762222456779*****************************987742554 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.0015
                   NTNH_C  12 rdiseerleynkiyelynyvfsekslyevkennniylsikdtnd 55 
                              r+is+ r + n+i  l n +f  ++++  ++ ++++l ik+  +
  PHY93_17855|PHY93_17855 144 RNISKLRTDLNQIRFLRNRIFHYEPIWHWNNLEELFLDIKQIIN 187
                              899999*********************************98654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (215 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       535  (0.0298399); expected 358.6 (0.02)
Passed bias filter:                      344  (0.0191868); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.48u 0.20s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 1641.95
//
Query:       PHY93_17860|PHY93_17860  [L=76]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (76 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       945  (0.0527079); expected 358.6 (0.02)
Passed bias filter:                      550  (0.0306766); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.38
# Mc/sec: 592.30
//
Query:       PHY93_17865|PHY93_17865  [L=223]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      2e-29  102.0   0.2    3.4e-29  101.3   0.2    1.3  1  Response_reg     Response regulator receiver domain
    1.6e-19   69.8   0.5    3.7e-19   68.6   0.5    1.6  1  Trans_reg_C      Transcriptional regulatory protein, C termin
  ------ inclusion threshold ------
      0.013   15.1   0.0      0.027   14.1   0.0    1.5  1  Ribosom_S12_S23  Ribosomal protein S12/S23


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  101.3   0.2   5.6e-33   3.4e-29       1     111 [.       4     112 ..       4     113 .. 0.98

  Alignments for each domain:
  == domain 1  score: 101.3 bits;  conditional E-value: 5.6e-33
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCTTTSEEEEEESSTSHHHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireedpelpviiltahseeeda 86 
                              +li+dD+  +r+llr  le +gy ++ ea++g+e l+++ ee++ +illD+ +p+ +Gl++lkeir+ + ++p+iilt  ++++ +
  PHY93_17865|PHY93_17865   4 ILIIDDESSIRKLLRVSLEANGY-QIVEAQTGQEGLQKILEERPEVILLDLGLPDKSGLTILKEIRQWS-QTPIIILTVVDNDQIK 87 
                              8**********************.9******************************************88.**************** PP

                              HHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  87 vealkagaddflsKpfdpeeLlkal 111
                              veal+ gadd+++Kpf+++eLl ++
  PHY93_17865|PHY93_17865  88 VEALDGGADDYITKPFSISELLVRI 112
                              *********************9887 PP

>> Trans_reg_C  Transcriptional regulatory protein, C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.6   0.5   6.2e-23   3.7e-19       2      77 .]     147     222 ..     146     222 .. 0.98

  Alignments for each domain:
  == domain 1  score: 68.6 bits;  conditional E-value: 6.2e-23
                              EEEE-SHHHHHHHHHHHHTTTSEEEHHHHHHHHTTTTSTSHTHHHHHHHHHHHHHHHTTTTSSSSEEEETTTEEEE CS
              Trans_reg_C   2 eeveltpkefklLelLlenpgrvvsreeLleevwgededvddrtvdvhisrLRkkLeddekkprlIetvrgvGYrl 77 
                              ++++lt++e+++L++L++++g+vv++  Ll+evwg ++    + ++v+  +LRkkL+ ++ +++lI t  gvGYrl
  PHY93_17865|PHY93_17865 147 HQIKLTATEYDILKVLIRYKGKVVTHRVLLNEVWGPNSIEHVHYLRVYLGNLRKKLKIEGTDQELISTEAGVGYRL 222
                              679***********************************************************************97 PP

>> Ribosom_S12_S23  Ribosomal protein S12/S23
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   4.6e-06     0.027      35      76 ..      10      52 ..       8      64 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 4.6e-06
                             --S-EEEEEEEET.TSEEE.EEEE-SSS..----TT-EEEEEE CS
          Ribosom_S12_S23 35 nsAlRkvvrvrLikngkev.tafipgegalnfldEhdevlvrG 76
                              s +Rk+ rv L  ng+++  a +++eg  + l+E  ev++  
  PHY93_17865|PHY93_17865 10 ESSIRKLLRVSLEANGYQIvEAQTGQEGLQKILEERPEVILLD 52
                             599*************996268888888778889999998755 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (223 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       404  (0.0225333); expected 358.6 (0.02)
Passed bias filter:                      343  (0.019131); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.42
# Mc/sec: 1577.19
//
Query:       PHY93_17870|PHY93_17870  [L=411]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
       0.12   12.9   3.0       0.33   11.5   3.0    1.8  1  LPAM_1      Prokaryotic membrane lipoprotein lipid attachment
        1.3    9.1   8.5        5.5    7.1   4.0    2.5  2  TMF_DNA_bd  TATA element modulatory factor 1 DNA binding


Domain annotation for each model (and alignments):
>> LPAM_1  Prokaryotic membrane lipoprotein lipid attachment site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   3.0   3.6e-05      0.33       3      18 .]       2      17 ..       2      17 .. 0.96

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 3.6e-05
                   LPAM_1  3 KillalgalllLsGCs 18
                             +++l+l+++l+Ls+Cs
  PHY93_17870|PHY93_17870  2 RFFLLLFLMLALSSCS 17
                             79*************9 PP

>> TMF_DNA_bd  TATA element modulatory factor 1 DNA binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.1   4.0   0.00062       5.5      18      64 ..     203     252 ..     201     262 .. 0.69
   2 ?    4.3   0.5    0.0045        41      35      71 ..     251     287 ..     239     290 .. 0.78

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.00062
               TMF_DNA_bd  18 meEGekLskkelklnntikkLrkknkelekeikelk...kkleklekele 64 
                              ++E   L+k++  ln ti kL++++kel+ ++ +     +++ ++ + l+
  PHY93_17870|PHY93_17870 203 KSEIITLRKEDKNLNFTINKLKEEMKELDGTLIKNGrikDRIIRQAMLLD 252
                              5666679999999999************9666554322255555555555 PP

  == domain 2  score: 4.3 bits;  conditional E-value: 0.0045
               TMF_DNA_bd  35 ikkLrkknkelekeikelkkkleklekeleeleerlk 71 
                              +++L+   +ele+++k+     ++l+kele+l+ + k
  PHY93_17870|PHY93_17870 251 LDMLNILHRELEYTVKNAATPSDELVKELEKLSLLIK 287
                              5666666789999999999999999999999876655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (411 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1097  (0.0611858); expected 358.6 (0.02)
Passed bias filter:                      565  (0.0315132); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.23s 00:00:00.80 Elapsed: 00:00:00.42
# Mc/sec: 2928.21
//
Query:       PHY93_17875|PHY93_17875  [L=1458]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0043   16.2   0.4      0.011   14.8   0.4    1.7  1  AIP3      Actin interacting protein 3
  ------ inclusion threshold ------
      0.011   15.8   1.4        4.1    7.6   0.0    3.2  3  DUF1506   Protein of unknown function (DUF1506)


Domain annotation for each model (and alignments):
>> AIP3  Actin interacting protein 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.4   1.3e-06     0.011     108     206 ..    1052    1153 ..     995    1167 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 1.3e-06
                               XXXXXXXXXXXXXXXXXXX...................XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.XXX CS
                     AIP3  108 evserqeeaakekasesla..........kkelkaqlkevqslrrdLavlrqlysefkseikeslselrekakkvkeaslastk 181 
                                v+e++ +          +          +k+l  + k++   +  + ++r+ly++ + +++++ls + + ++ +k+a++a +k
  PHY93_17875|PHY93_17875 1052 AVHEEEVR----------SaryllgvesvSKNLGLDKKSLDLAKTKIDMVRKLYTSGEINLETMLSRIGKILDPIKRAKIAAAK 1125
                               22222222..........0235566666678888999999999*********************99999999999976666555 PP

                               X...XXHHHHHHHHHHHHHHHHHHHHHH CS
                     AIP3  182 k...ssnrayiekgkkkLseesdklvtk 206 
                               +   +++r +++++k++++++++k+v++
  PHY93_17875|PHY93_17875 1126 TvrsETGRVVVKESKAQIDRQASKVVSQ 1153
                               444599*******************987 PP

>> DUF1506  Protein of unknown function (DUF1506)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.1      0.47   4.3e+03      34      98 ..      96     162 ..      87     170 .. 0.64
   2 ?    7.6   0.0   0.00046       4.1      12      47 ..     397     432 ..     386     479 .. 0.76
   3 ?    5.3   0.2    0.0023        20      33      86 ..     743     797 ..     712     813 .. 0.82

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 0.47
                  DUF1506  34 klendssyqrvfdktkyiefagv....iidikpqelavlydsdmsdiqgysklytyqdlnyelkdrisi 98 
                              k++ +  ++rv+ kt   e ag       +i   e+ vl+    + ++    +    d ny + dri +
  PHY93_17875|PHY93_17875  96 KIKVEGLFDRVVKKTIQEEKAGKpltyFKNIADPEFLVLFKEARAHLKALDTIS--IDENYSVDDRIEL 162
                              555566677777777777777742111345666777777777777777665543..4778888888864 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.00046
                  DUF1506  12 sfrminvfkdpkplkfykgtvvklendssyqrvfdk 47 
                               f+ i  fk  + l+++kgtv k +  ss    +  
  PHY93_17875|PHY93_17875 397 HFQTIMGFKAAEALRVFKGTVAKRNRGSSTTENITY 432
                              58999******************9999997665555 PP

  == domain 3  score: 5.3 bits;  conditional E-value: 0.0023
                  DUF1506  33 vklendssyqrvfdktkyiefagviidikpqelavlydsdmsdiqg.ysklytyq 86 
                               k+ +d sy+ ++d++  ++    i d   qe+a+   s+ ++i   + kly  +
  PHY93_17875|PHY93_17875 743 YKIVEDLSYKTILDQDAALKSGVNITDRTRQEIALAAKSNEAQIGNfFLKLYKVK 797
                              57889************999888899****************9976256888764 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1458 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       726  (0.0404931); expected 358.6 (0.02)
Passed bias filter:                      447  (0.0249317); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.95u 0.25s 00:00:01.20 Elapsed: 00:00:00.46
# Mc/sec: 9526.14
//
Query:       PHY93_17880|PHY93_17880  [L=243]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.9e-30  104.2   0.0    6.8e-30  103.5   0.0    1.4  1  Gln_deamidase_2  Glutaminase


Domain annotation for each model (and alignments):
>> Gln_deamidase_2  Glutaminase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  103.5   0.0   3.8e-34   6.8e-30       2     106 .]      84     183 ..      83     183 .. 0.95

  Alignments for each domain:
  == domain 1  score: 103.5 bits;  conditional E-value: 3.8e-34
          Gln_deamidase_2   2 eklFkklkaerferriefkyaddgCyarAhlmarlaeeegiepekifvegklevqtksagegkvsWeyHVApvvvvkkekkveklv 87 
                              +++F++l++   +++i+f ya dgCyarAh+m+++  ++gi   k+fveg+l+v ++    gkv+W+yHVApvv vkk++k+ ++v
  PHY93_17880|PHY93_17880  84 TQYFNELAS---NDKIPFGYAYDGCYARAHKMSHILAAKGIITGKAFVEGNLNVVSP--LLGKVNWWYHVAPVVLVKKNGKEIPYV 164
                              688999999...99****************************************985..689************************ PP

          Gln_deamidase_2  88 iDpslfsepvtvkeWlkkl 106
                              iDpslf++pv+ +eW +++
  PHY93_17880|PHY93_17880 165 IDPSLFKKPVPFDEWRDSM 183
                              ***************9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (243 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       670  (0.0373696); expected 358.6 (0.02)
Passed bias filter:                      559  (0.0311785); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 1774.46
//
Query:       PHY93_17885|PHY93_17885  [L=93]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.15   12.2   3.0       0.18   12.0   3.0    1.1  1  ExbD      Biopolymer transport protein ExbD/TolR


Domain annotation for each model (and alignments):
>> ExbD  Biopolymer transport protein ExbD/TolR
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   3.0   9.8e-06      0.18      16      95 ..       1      81 [.       1      91 [. 0.77

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 9.8e-06
                     ExbD 16 vvflLLifFlvtaklkkpeplevdlPsssstqk.eveekelirisisadgs.iyldkkavsveelaqklkerkakppdkltv 95
                             ++ +L++++l+t+++ +++++++   s +++ k  +e ++ i++  +     + ++k++ ++e+l++ l++  +++++  +v
  PHY93_17885|PHY93_17885  1 MFKILVTVLLLTTSVLADTKMKIITDSFNDKVKlVKETDQGIKLHFEIHAAvYKINKNNPKFEQLKKLLEKSLKENKEV-KV 81
                             566899*************9*999988888888545555667776664444156999999*********9999999887.43 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (93 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1628  (0.0908026); expected 358.6 (0.02)
Passed bias filter:                      647  (0.0360868); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.24s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 686.63
//
Query:       PHY93_05500|PHY93_05500  [L=150]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
  ------ inclusion threshold ------
       0.18   10.6   0.0       0.18   10.6   0.0    1.1  1  LptF_LptG  Lipopolysaccharide export system permease LptF/Lpt


Domain annotation for each model (and alignments):
>> LptF_LptG  Lipopolysaccharide export system permease LptF/LptG
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0     1e-05      0.18     100     174 ..       2      73 ..       1     130 [. 0.80

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 1e-05
                LptF_LptG 100 ilalllsvlsfllnnyvvPwankkaesllseirqkspsllikpgvfikdgdgyiiyvgsmddeggelqdvtiydl 174
                              +l +++s ls+ l+ y+ P+ + ++++ +seir+ + +  ++ ++ +++    +++v++ dde+ge ++  i  +
  PHY93_05500|PHY93_05500   2 KLLFFISTLSYSLSSYACPQLQGRYNKCFSEIRKINGEYIVDQHQENNY---EVYNVEYSDDETGENRKDLIKTN 73 
                              57899********************************997777765555...47888888888876555444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (150 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       865  (0.0482459); expected 358.6 (0.02)
Passed bias filter:                      505  (0.0281667); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1105.58
//
Query:       PHY93_17890|PHY93_17890  [L=51]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (51 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       350  (0.0195214); expected 358.6 (0.02)
Passed bias filter:                      301  (0.0167884); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.36u 0.24s 00:00:00.60 Elapsed: 00:00:00.39
# Mc/sec: 387.47
//
Query:       PHY93_17895|PHY93_17895  [L=312]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.15   11.8   0.0       0.29   10.9   0.0    1.4  1  DUF5318   Family of unknown function (DUF5318)


Domain annotation for each model (and alignments):
>> DUF5318  Family of unknown function (DUF5318)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   1.6e-05      0.29      17      85 ..      97     165 ..      88     177 .. 0.86

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 1.6e-05
                  DUF5318  17 llaevragrvgvaevcdaspyllraakfhGeptdvacPvcrkenltlvsyvyGdelkqaaGsartaeel 85 
                              +l +  ++++ +++v  a   +   a+ hG++   +c  c +enl +  + +  e  + a  a+  +e+
  PHY93_17895|PHY93_17895  97 ILLDKPESEIKKEDVVKAINNIIYLANRHGKSVIITCAECVNENLAKNGFKFTVENIKNASAAKVLNEV 165
                              5666677889999*******9*****************************9998877778888888776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (312 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       863  (0.0481343); expected 358.6 (0.02)
Passed bias filter:                      639  (0.0356406); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.41
# Mc/sec: 2282.98
//
Query:       PHY93_17900|PHY93_17900  [L=562]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
       0.01   16.2   0.0      0.023   15.0   0.0    1.6  1  Churchill  Churchill protein


Domain annotation for each model (and alignments):
>> Churchill  Churchill protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.0   1.3e-06     0.023      37      84 ..      22      70 ..       8      79 .. 0.83

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 1.3e-06
                Churchill 37 dlvkivnk.akeeedgeevvtyehvckncehviaeheytfsveddyqey 84
                             dl  i    ++ e+d+ ++v y+ +c++ + ++ + +++ +   +yq++
  PHY93_17900|PHY93_17900 22 DLQDIGSAtKTAEDDQAKIVEYNQACQTIDALLVRKQFKVECYSNYQHF 70
                             55555555356788999******************************87 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (562 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       463  (0.0258241); expected 358.6 (0.02)
Passed bias filter:                      398  (0.0221987); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.56u 0.26s 00:00:00.82 Elapsed: 00:00:00.41
# Mc/sec: 4089.45
//
Query:       PHY93_17905|PHY93_17905  [L=135]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-24   86.6   1.6    1.8e-24   86.4   1.6    1.0  1  YqeY      Yqey-like protein


Domain annotation for each model (and alignments):
>> YqeY  Yqey-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.4   1.6     1e-28   1.8e-24       2     141 ..       3     134 ..       2     135 .] 0.94

  Alignments for each domain:
  == domain 1  score: 86.4 bits;  conditional E-value: 1e-28
                              HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHHTTSS--HHHHHHHHHHHHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHGGGS CS
                     YqeY   2 eklkedlkeamkakdkerlstlrllkaaikqeevderkelsdeevlkvlakevkqRresieefekagRedlaekekaEievleeYl 87 
                              ++++ed+k+am akdkerl++lr  k+ + ++++++++++ +   ++vl k vk+ ++s+e f     +++ +k+++Ei +l+eY+
  PHY93_17905|PHY93_17905   3 DQITEDIKKAMFAKDKERLDALRYYKSLLIENKTSKTAPIPE---MDVLIKHVKKLKDSLESFPPE--NEIRKKTEREIMILSEYM 83 
                              79***********************************99986...77899*************987..599*************** PP

                              -----HHHHHHHHHHHHHHTT--BGGGHHHHHHHHHHHHTTTS-HHHHHHHHHH CS
                     YqeY  88 PeqlseeeiealvkeaiaevgaesmkdmGkvmkalkpkvkGkaDgkkvsalvke 141
                              P+qlse+ +   +ke+ia++   +    G vmk l pk+kG+ D k +++lvk+
  PHY93_17905|PHY93_17905  84 PKQLSEDVVLGYIKEIIAKTPGVN---AGLVMKELSPKIKGQFDSKVANELVKA 134
                              ******************995444...5************************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (135 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       517  (0.028836); expected 358.6 (0.02)
Passed bias filter:                      341  (0.0190195); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.21s 00:00:00.65 Elapsed: 00:00:00.41
# Mc/sec: 987.53
//
Query:       PHY93_17910|PHY93_17910  [L=82]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (82 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       648  (0.0361426); expected 358.6 (0.02)
Passed bias filter:                      480  (0.0267723); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 637.93
//
Query:       PHY93_17915|PHY93_17915  [L=101]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (101 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       499  (0.027832); expected 358.6 (0.02)
Passed bias filter:                      199  (0.0110993); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.20s 00:00:00.62 Elapsed: 00:00:00.40
# Mc/sec: 762.50
//
Query:       PHY93_21550|PHY93_21550  [L=87]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (87 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       377  (0.0210274); expected 358.6 (0.02)
Passed bias filter:                      358  (0.0199677); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.41
# Mc/sec: 643.59
//
Query:       PHY93_21555|PHY93_21555  [L=213]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.1e-11   44.9   0.0    1.1e-11   44.8   0.0    1.0  1  Peptidase_M24  Metallopeptidase family M24


Domain annotation for each model (and alignments):
>> Peptidase_M24  Metallopeptidase family M24
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.8   0.0   6.3e-16   1.1e-11       2     158 ..      14     169 ..      13     212 .. 0.87

  Alignments for each domain:
  == domain 1  score: 44.8 bits;  conditional E-value: 6.3e-16
                              HHHHHHHHHHHHHHHHHHHHHTTCBHHHHHHHHHHHHHHHTTTCEESSSSEEEEGGGGGSTTT.BCSSSB--TTEEEEEEEEEEET CS
            Peptidase_M24   2 lirkaariasaaleavleaikpgvterelaaeieattlkrhgarglafppivasgenaavlhy.tpndrvlkegdlvlidagaeyd 86 
                              l+ ka + + +a++ ++++i+pg++e+e   +++++ l + g+++ ++p+   +g n+      + +++vl e+dl+ id+g+++ 
  PHY93_21555|PHY93_21555  14 LYLKARAKTVQAVQSAAAHIHPGMNEAESLIILNHE-LNQAGVEKFWHPTKFRIGSNTIKSFRdISDETVLLENDLFFIDIGPVFF 98 
                              67799999********999*********99999988.9*******************9965556668999**************** PP

                              TEEEEEEEEEECSSGSHHHHHHHHHHHHHHHHHHHC-ST.TSBHHHHHHHHHHHHHHTTBCCGBSSCSEEEES CS
            Peptidase_M24  87 gyasDitrTvlvGkftpeqrelyeavleaqeaaikavkp.GvtlseidaaarevlesaglakffphglGHgvG 158
                              +  +D + T+lvG  +++ ++l +a +++ +a  ++ k+   t+ ++++ a++ + + +l    ++  GH +G
  PHY93_21555|PHY93_21555  99 NHEGDYGETFLVG-SDARLEKLQAAPKQIFYATQAQWKAhKLTGVQLYEFAEQEALKLNL-VLNTKMYGHRLG 169
                              *************.5556888*****************99****************9888.444778888888 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (213 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       300  (0.0167327); expected 358.6 (0.02)
Passed bias filter:                      271  (0.0151152); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 1599.31
//
Query:       PHY93_21560|PHY93_21560  [L=226]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.6e-11   43.6   0.0    3.5e-11   43.1   0.0    1.2  1  Methyltransf_16  Lysine methyltransferase
    6.3e-08   32.6   0.0    9.9e-08   32.0   0.0    1.3  1  Methyltransf_23  Methyltransferase domain
    9.4e-06   26.2   0.0    1.7e-05   25.4   0.0    1.4  1  Methyltransf_11  Methyltransferase domain
    2.4e-05   24.2   0.0    3.7e-05   23.6   0.0    1.3  1  Methyltransf_31  Methyltransferase domain
    7.9e-05   23.3   0.0    0.00014   22.5   0.0    1.4  1  Methyltransf_25  Methyltransferase domain
    0.00038   21.2   0.0    0.00062   20.5   0.0    1.4  1  Methyltransf_12  Methyltransferase domain
     0.0037   16.3   0.0     0.0076   15.2   0.0    1.4  1  Methyltransf_9   Protein of unknown function (DUF1698)
  ------ inclusion threshold ------
      0.021   14.2   0.0      0.031   13.7   0.0    1.1  1  PrmA             Ribosomal protein L11 methyltransferase (Prm
      0.048   13.1   0.0       0.96    8.8   0.0    2.2  2  TehB             Tellurite resistance protein TehB


Domain annotation for each model (and alignments):
>> Methyltransf_16  Lysine methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.1   0.0   1.8e-14   3.5e-11      19     170 ..      56     193 ..      43     197 .. 0.87

  Alignments for each domain:
  == domain 1  score: 43.1 bits;  conditional E-value: 1.8e-14
          Methyltransf_16  19 rkvWdaavvlvkylekklakelganelsklsvlELGsGtGlvGlavaellpeakviltDleellellkknielnknalkskvkvev 104
                              +++W+a++ l+++l++         +l++++vlE+G G  l    v ++  + ++i tD +  ++l    +eln+++++ k  ++v
  PHY93_21560|PHY93_21560  56 GVLWEAGIGLSQHLTQ--------VDLKDKKVLEIGCGLALPSFLVTKM--GGDIIATDFHADVPLF---LELNQKNNAIKFPYRV 128
                              589******8888888........5799*********999999999999..9*********999887...56766666788899** PP

          Methyltransf_16 105 LdWgeeleedllekeevDlilaaDcvYledslelLvkvLkellkkeskvlvaykkrreaekkFfkl 170
                              ++W +e+e+   +   +Dl++ +D++Y  +   + +k L   lk+ +k+l++   r   + kF+++
  PHY93_21560|PHY93_21560 129 MNWRDEIERTKSDLGLFDLVIGSDILYESQHPMQVAKALIAFLKPGGKILLSDPGRAYIQ-KFITS 193
                              **********************************************99999877665554.45555 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.0   0.0     5e-11   9.9e-08      20     123 ..      73     185 ..      58     213 .. 0.77

  Alignments for each domain:
  == domain 1  score: 32.0 bits;  conditional E-value: 5e-11
          Methyltransf_23  20 lraggrvLdiGcGtGillevl..rengfsvtgvDlspeaveiae......kakkaqkdqfdeqeaae.......pqgkfdlIvlre 90 
                              + ++++vL+iGcG    l+++   + g ++++ D         +      ++ +a+k +++ +++++       + g fdl++ ++
  PHY93_21560|PHY93_21560  73 DLKDKKVLEIGCGLA--LPSFlvTKMGGDIIATDFHADV----PlflelnQKNNAIKFPYRVMNWRDeiertksDLGLFDLVIGSD 152
                              56899*********9..4444336767778877775432....2333477666667777777777765544444445********* PP

          Methyltransf_23  91 vlehvpdppellrqiatllkpgGylllseplas 123
                               l+  ++p  + + + + lkpgG +lls+p++ 
  PHY93_21560|PHY93_21560 153 ILYESQHPMQVAKALIAFLKPGGKILLSDPGRA 185
                              ******************************985 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.4   0.0   8.3e-09   1.7e-05       1      95 [.      80     178 ..      80     179 .. 0.87

  Alignments for each domain:
  == domain 1  score: 25.4 bits;  conditional E-value: 8.3e-09
                              EEET-TTSHHHHHHHHTTSEEEEEES-HHHHHHHHHHCCHHT-EEEETTEECCC....TSS-TT-EEEEEEES-CCC-CCHHHHHH CS
          Methyltransf_11   1 LdvGcGtGrlaealakrgarvvgvDlskemlklakekaseeglkvefvvadaek....lpfednsfDlvvssevlhhvedpekalk 82 
                              L++GcG  + +  ++k g++++++D+ + +    + +++++ +k+ ++v++ ++    ++   + fDlv+ s  l   + p+++ k
  PHY93_21560|PHY93_21560  80 LEIGCGLALPSFLVTKMGGDIIATDFHADVPLFLELNQKNNAIKFPYRVMNWRDeierTKSDLGLFDLVIGSDILYESQHPMQVAK 165
                              89************************999998888888888877777777776542225566689********************* PP

                              HHHHHEEEEEEEE CS
          Methyltransf_11  83 eiaRvLkpgGllv 95 
                               +   LkpgG+++
  PHY93_21560|PHY93_21560 166 ALIAFLKPGGKIL 178
                              **********986 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.6   0.0   1.8e-08   3.7e-05       3     127 ..      75     195 ..      73     220 .. 0.79

  Alignments for each domain:
  == domain 1  score: 23.6 bits;  conditional E-value: 1.8e-08
          Methyltransf_31   3 kglrvlDlGCGtGeltfelaeelgpkaevvGiDiseeaielArenaqklgldnveFeqgdiee.lekl.ledekfDlilsnevlna 86 
                              k+++vl++GCG    +f    ++  +++++  D+ +++  l  e  qk++   +  ++ ++ + +e +      fDl++  ++l+ 
  PHY93_21560|PHY93_21560  75 KDKKVLEIGCGLALPSFLVT-KM--GGDIIATDFHADV-PLFLELNQKNNAIKFPYRVMNWRDeIERTkSDLGLFDLVIGSDILYE 156
                              7899********66666666.76..589******9985.55556567777777999999999989988555599************ PP

          Methyltransf_31  87 ladpdkileeiervlkpggilliedprllaelpakveeesk 127
                                +p ++ + ++  lkpgg +l++dp   + +++k+  +++
  PHY93_21560|PHY93_21560 157 SQHPMQVAKALIAFLKPGGKILLSDPG--RAYIQKFITSMN 195
                              **************************9..555544444444 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.5   0.0   7.2e-08   0.00014       1      97 []      79     175 ..      79     175 .. 0.78

  Alignments for each domain:
  == domain 1  score: 22.5 bits;  conditional E-value: 7.2e-08
                              EEEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHHHHTTTTEEEEESBC....CGBSSSTTTEEEEEEESTGGGSSHHHH CS
          Methyltransf_25   1 vLdlGcGtGrltlalakrlgkakvtgvDiseemleaareraeeeglnvefvqgda....edlpfedgsfDlvvssgalhhlsdedl 82 
                              vL++GcG    ++ + k +  ++++++D+ ++     + + +++ +++ +++++     e+ + + g fDlv+ s  + + + ++ 
  PHY93_21560|PHY93_21560  79 VLEIGCGLALPSFLVTKMG--GDIIATDFHADVPLFLELNQKNNAIKFPYRVMNWrdeiERTKSDLGLFDLVIGS-DILY-ESQHP 160
                              9*********999999995..9*******99988777777666666666666665211166788999*******6.5444.45677 PP

                              HHHHHHHHHHEEEEE CS
          Methyltransf_25  83 ekalkeiarvLkpgG 97 
                               ++ k +   LkpgG
  PHY93_21560|PHY93_21560 161 MQVAKALIAFLKPGG 175
                              89************9 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.5   0.0   3.1e-07   0.00062       1      99 []      80     177 ..      80     177 .. 0.74

  Alignments for each domain:
  == domain 1  score: 20.5 bits;  conditional E-value: 3.1e-07
          Methyltransf_12   1 LeiGcGtGsllralleklpdieytgvDispsai..edakeklakrennnnnnvelealdlldldgg.ssfDlvvasnvlhhlkdir 83 
                              LeiGcG +  ++ + +   + +++++D+++++       +k ++++     +++++++    ++   + fDlv+ s+ l   +++ 
  PHY93_21560|PHY93_21560  80 LEIGCGLALPSFLVTKM--GGDIIATDFHADVPlfLELNQKNNAIKF-PYRVMNWRDEIERTKS-DlGLFDLVIGSDILYESQHPM 161
                              8*************999..**********998744233333333332.3333333333322222.2469***************** PP

          Methyltransf_12  84 evldnirklLkpgGrl 99 
                              +v + + + LkpgG++
  PHY93_21560|PHY93_21560 162 QVAKALIAFLKPGGKI 177
                              **************86 PP

>> Methyltransf_9  Protein of unknown function (DUF1698)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0   3.8e-06    0.0076     109     217 ..      67     179 ..      59     183 .. 0.76

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 3.8e-06
                              GGS...--TT-EEEEET-TTSHHHHHHHHCT-SEE.EEE---HHHHHHHHHHHCCTTTTSSEEEE---GGGS-T.---EEEEEEES CS
           Methyltransf_9 109 phls..dlkgrtildvGcgnGyhlwrmvgegaklv.vGidPselfliqfeavrkllgedqrahllplgieqlpe.leafdtvfsmG 190
                              +hl+  dlk++++l++Gcg     + +   g +++          ++ ++  ++ +    r+++    ie+ ++ l  fd v    
  PHY93_21560|PHY93_21560  67 QHLTqvDLKDKKVLEIGCGLALPSFLVTKMGGDIIaTDFHADVPLFLELNQKNNAIKFPYRVMNWRDEIERTKSdLGLFDLVIGSD 152
                              56643389***********9887776555555433123333333444455555555666788888889999988899********* PP

                              -GGG-S-HHHHHHHHHCTEEEEEEEEE CS
           Methyltransf_9 191 vlyhrrsPldhllqlkdqlvkgGelvl 217
                              +ly  + P++   +l   l+ gG+++l
  PHY93_21560|PHY93_21560 153 ILYESQHPMQVAKALIAFLKPGGKILL 179
                              ************************998 PP

>> PrmA  Ribosomal protein L11 methyltransferase (PrmA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   1.5e-05     0.031     153     259 ..      67     180 ..      65     196 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1.5e-05
                     PrmA 153 ealeklvkegeevlDvGtGSGiLaiaaakLgakkvvavDiDevAvkvakeNaelNkveaklevalseellk.....eekadviv.a 232
                              + l ++  ++++vl +G+G ++ +  + k+g  +++a+D         + N + N ++   +v++ ++ ++      + +d+++ +
  PHY93_21560|PHY93_21560  67 QHLTQVDLKDKKVLEIGCGLALPSFLVTKMGG-DIIATDFHADVPLFLELNQKNNAIKFPYRVMNWRDEIErtksdLGLFDLVIgS 151
                              56889999**********************96.699****9988889999*****9999888977666664233335667988846 PP

                     PrmA 233 NILaev..lielaedikklvkeggllilS 259
                               IL e    ++ a+ + +++k+gg ++lS
  PHY93_21560|PHY93_21560 152 DILYESqhPMQVAKALIAFLKPGGKILLS 180
                              8997651157889999********99998 PP

>> TehB  Tellurite resistance protein TehB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.0   0.0     0.058   1.2e+02      48      79 ..      14      45 ..       8      51 .. 0.87
   2 ?    8.8   0.0   0.00048      0.96      29      77 ..      74     122 ..      63     179 .. 0.82

  Alignments for each domain:
  == domain 1  score: 2.0 bits;  conditional E-value: 0.058
                             HHHTT-EEEEEES-HHHHHHHHHHHHHTT-TT CS
                     TehB 48 lsllgydvtawdknensiafleeikekenlkn 79
                             ls+lg+++t++   ++si  l e    en +n
  PHY93_21560|PHY93_21560 14 LSVLGFEMTSLFDLDESIDTLCEFFGEENQDN 45
                             899*********9********99999888775 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.00048
                              S-S-EEEEES-TTSHHHHHHHHTT-EEEEEES-HHHHHHHHHHHHHTT- CS
                     TehB  29 vkpgkvldlgcgqgrnslylsllgydvtawdknensiafleeikekenl 77 
                              +k  kvl++gcg    s+ ++ +g d+ a d  ++   fle  ++ +++
  PHY93_21560|PHY93_21560  74 LKDKKVLEIGCGLALPSFLVTKMGGDIIATDFHADVPLFLELNQKNNAI 122
                              5788***************************999888887765555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (226 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       330  (0.0184059); expected 358.6 (0.02)
Passed bias filter:                      317  (0.0176809); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1709.14
//
Query:       PHY93_21565|PHY93_21565  [L=405]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (405 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       588  (0.032796); expected 358.6 (0.02)
Passed bias filter:                      152  (0.00847788); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.23s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 2962.57
//
Query:       PHY93_05505|PHY93_05505  [L=454]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.8e-09   36.5   0.3      2e-08   34.8   0.3    1.9  1  YkuD      L,D-transpeptidase catalytic domain
  ------ inclusion threshold ------
      0.015   15.6   0.0      0.056   13.7   0.0    2.0  1  SH3_3     Bacterial SH3 domain


Domain annotation for each model (and alignments):
>> YkuD  L,D-transpeptidase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.8   0.3   2.2e-12     2e-08       2     145 ..     112     299 ..     111     299 .. 0.83

  Alignments for each domain:
  == domain 1  score: 34.8 bits;  conditional E-value: 2.2e-12
                              EEEEEETTTTEEEEEEETTE........EEEEEE-BEB......TTS.TTSE---EEEEECEEEEEEE..EEGGGGT--TTSTT.E CS
                     YkuD   2 kyivvdlaeqrllvlyengk........lvlsfpvsvG......gkkegdreTPlGtfrikskvrnptwnvppsiarkeiypklrk 73 
                              ++iv ++a+  +l+lye+           ++++ v+vG      ++ +g+ +  lG+fr++      ++++++  ++ ++ +   +
  PHY93_05505|PHY93_05505 112 YFIVLNVAS-ETLRLYERSCinkgcsnkMIMETEVVVGedkntpKDVKGKGRSILGSFRVT-----GWSKFYEDSEGHYPAWYKDG 191
                              678888888.566887776555566666899999**********8888999**********.....77777777777777777776 PP

                              EEEEEEECCCTT........................CECCCCEEE-STTS-EEEE.ETCSS...CT............HHC.BSSS CS
                     YkuD  74 dpeyldkknskv........................algkvkfvfpngsgiyiHgtgapdlfergk............garrShGC 123
                               pe  + + +++                           +  f  p+  g ++Hgt   + ++++             + +rS+GC
  PHY93_05505|PHY93_05505 192 YPEVPKANDHNIvlwftnqympenndgskngktrgaFGWYTMFLAPKPFGQWVHGTIGWGEDKDYYikaikkmlpnifTNPRSSGC 277
                              666666666666889*******************987778889999999*****77666665554499**********999***** PP

                              EEE-HHHHHHHHHHHHTTEEEE CS
                     YkuD 124 irlseedakelyelvlvgtpvv 145
                               r ++e + +l + ++ gtpv+
  PHY93_05505|PHY93_05505 278 ARNNNEAIAYLRQMIDIGTPVI 299
                              ********************96 PP

>> SH3_3  Bacterial SH3 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   6.2e-06     0.056       2      32 ..      37      67 ..      36      84 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 6.2e-06
                    SH3_3  2 glnvRsgPstssevigtlpyGekVevleetg 32
                             g++vR++P  +++v+g l+ +++V +  ++ 
  PHY93_05505|PHY93_05505 37 GVRVRAAPEENAQVLGLLNLNDEVRLHNSSP 67
                             89**********************9987665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (454 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       466  (0.0259914); expected 358.6 (0.02)
Passed bias filter:                      344  (0.0191868); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.42
# Mc/sec: 3257.30
//
Query:       PHY93_17920|PHY93_17920  [L=720]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (720 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       352  (0.019633); expected 358.6 (0.02)
Passed bias filter:                       81  (0.00451782); expected 358.6 (0.02)
Passed Vit filter:                         4  (0.000223102); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.60u 0.24s 00:00:00.84 Elapsed: 00:00:00.44
# Mc/sec: 4865.27
//
Query:       PHY93_17925|PHY93_17925  [L=149]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    2.6e-10   40.5   0.0    3.3e-10   40.2   0.0    1.1  1  Bac_globin  Bacterial-like globin


Domain annotation for each model (and alignments):
>> Bac_globin  Bacterial-like globin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.2   0.0   1.8e-14   3.3e-10       1     115 [.       7     115 ..       7     121 .. 0.90

  Alignments for each domain:
  == domain 1  score: 40.2 bits;  conditional E-value: 1.8e-14
                              -HHHHHTHHHHHHHHHHHHHHHHHT-CCCCCCGGGTTSSHHHHHHHHHHHHHHHTTSSSHHHHHHSS.-.HHHHHTTS--BHHHHH CS
               Bac_globin   1 tlydaiGgeatveelvdrfYervdedeeealseifsgtdlegsreklveFlvqalgGPelYverrGh.PrlrkrHapfeitaaerd 85 
                              t++d++Gg+  ++++ + fY+++++ +     ++f+  d +  + ++ +F+ q +gGP+lY    G+ P   + H+ + i+++ ++
  PHY93_17925|PHY93_17925   7 TFFDEVGGAIVIRKVHKIFYDKIYAHPW--IGQFFKTIDQTIIESQQNDFMGQNFGGPSLYL---GKlP--VAAHKHMYINEELFE 85 
                              69***********************998..9******************************7...5427..788999999999999 PP

                              HHHHHHHHHHHHCT--HHHHHHHHHHHHHH CS
               Bac_globin  86 awlkhlaeAleetgvssedreeklelleal 115
                                   l+e l e++vs e+ ++ l+  +a+
  PHY93_17925|PHY93_17925  86 LRRSLLEESLIEAKVSPENIKKWLKIDAAF 115
                              999999999999999999998887765555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (149 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       423  (0.0235931); expected 358.6 (0.02)
Passed bias filter:                      331  (0.0184617); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.26s 00:00:00.68 Elapsed: 00:00:00.42
# Mc/sec: 1059.84
//
Query:       PHY93_17930|PHY93_17930  [L=272]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.4e-07   31.3   0.1    3.1e-07   30.1   0.1    1.6  1  Exo_endo_phos    Endonuclease/Exonuclease/phosphatase family
  ------ inclusion threshold ------
      0.017   14.9   0.9        0.4   10.5   0.9    2.3  1  Exo_endo_phos_2  Endonuclease-reverse transcriptase


Domain annotation for each model (and alignments):
>> Exo_endo_phos  Endonuclease/Exonuclease/phosphatase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.1   0.1   3.5e-11   3.1e-07       2     233 .]      40     261 ..      39     261 .. 0.68

  Alignments for each domain:
  == domain 1  score: 30.1 bits;  conditional E-value: 3.5e-11
                              EEEESTGCHHHHTHHHHHHHHHHHHHHCTTSEEEEEEEBSCTCHHHHHHHHH..................TTCEEEEECCHECSSS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..................xxxxxxxxxxxxxxxx RF
            Exo_endo_phos   2 twNvngqaspalgssrrsdrladlltaydaDvlgLQEvdddelsriplllal..................ggflgasstsptgggg 69 
                              t N+  +   + ++  r  +++d l +  +Dv+++QEv  d+  ++ +  +l                                  
  PHY93_17930|PHY93_17930  40 TMNIHCF---KDDWKFRLSHILDKLNKISPDVIAFQEVCVDP--ITHESEILyiknfltqngypinaieaQ--------------- 105
                              6677776...347999999999999999**************..777777778866666655443333321............... PP

                              TTSSEEEEEECSTEEEEEEEEEEETSSSSGCEEEEEEEEEEEEEEE...CCCHHGHHHHHHHHHHHHHHHHHHHHHTTSEEEE... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx... RF
            Exo_endo_phos  70 gggnggavlsrfpltslfrrtfiefndlvaalrreplaakleqlni...ashrdhdlvrdlqllalllqvealnadrgapviv... 149
                                      + ++  +++  + +  ++  v a+ r  l + l+q  +   +   +++    l+++a+  q+  ++ ++    ++   
  PHY93_17930|PHY93_17930 106 --------FTHYAWDQFDEYIVLITKKNVSAIDRGFLPESLLQRGYigfNIAKRWYINTHLEFRADNSQFRKNQINFLTNHFLnqs 183
                              ........222333345555555555555555555555555555558887777777777788888888888888777777777777 PP

                              ...EEE-SSSTSGGGBSCGHHHHHHCTTTHHSSCESCETTTTTTTTTTTEB-BEEEEEECHHHCCEEEEEEECCHHEEC....... CS
                              ...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....... RF
            Exo_endo_phos 150 ...aGDfNarpsdddsrvlrtrglalapapvglyllgggptptyvtraggsrlDrilaspalalfrsgvlppplalvrr....... 225
                                 +GDfN+ p+d +   +            +  ++++g t t    + +  +D  ++sp++          + +++ +       
  PHY93_17930|PHY93_17930 184 hliMGDFNSSPDDEEQSIFKQK---------NYKSYFPGATQTGDDGNSHNNIDGFWFSPNFS-------SSLSSYS-Gsilfkek 252
                              777******7777765555555.........5578999*********************8222.......2222333.24777888 PP

                              .TSSCSSSB CS
                              .xxxxxxxx RF
            Exo_endo_phos 226 .ealtlSDH 233
                               ++ +lSDH
  PHY93_17930|PHY93_17930 253 vQDRYLSDH 261
                              899999999 PP

>> Exo_endo_phos_2  Endonuclease-reverse transcriptase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.9   4.5e-05       0.4      14     117 ..     165     263 ..     151     265 .. 0.59

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 4.5e-05
          Exo_endo_phos_2  14 lenlestlekllselkspkiiilGDfNakhplWgsedtdssargeeLiefleehslsllnl.lksgptfkssngsstiDltltsdn 98 
                               +  +++++ l++   +++++i+GDfN              +++++   ++++++++  +  +  + t  + n+++ iD ++ s+n
  PHY93_17930|PHY93_17930 165 SQFRKNQINFLTNHFLNQSHLIMGDFNSSPD----------DEEQS---IFKQKNYK--SYfPGATQTGDDGNSHNNIDGFWFSPN 235
                              5667899********999*********7432..........22333...33333333..220233344444455666666666666 PP

          Exo_endo_phos_2  99 lals.........kleleeedlgSDHrp 117
                               + s          +e+ ++ ++SDH +
  PHY93_17930|PHY93_17930 236 FSSSlssysgsilFKEKVQDRYLSDHFA 263
                              6666666666666555555666666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (272 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       424  (0.0236488); expected 358.6 (0.02)
Passed bias filter:                      270  (0.0150594); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.43
# Mc/sec: 1909.90
//
Query:       PHY93_17935|PHY93_17935  [L=803]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      0.001   19.1   6.0     0.0038   17.3   6.0    1.9  1  CENP-F_leu_zip  Leucine-rich repeats of kinetochore protein C
  ------ inclusion threshold ------
      0.037   13.3   8.2       0.05   12.9   5.8    2.1  2  DUF3450         Protein of unknown function (DUF3450)
      0.063   13.5   4.5       0.27   11.5   3.9    2.3  2  Med21           Subunit 21 of Mediator complex
       0.12   10.3   5.0        0.2    9.6   5.0    1.3  1  Prominin        Prominin
       0.96   10.0   5.4       0.71   10.4   1.3    3.0  3  NPV_P10         Nucleopolyhedrovirus P10 protein
        6.3    7.3   7.2        4.4    7.8   1.0    3.2  2  DUF4094         Domain of unknown function (DUF4094)


Domain annotation for each model (and alignments):
>> CENP-F_leu_zip  Leucine-rich repeats of kinetochore protein Cenp-F/LEK1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   6.0   1.3e-06    0.0038       7      80 ..     508     580 ..     503     607 .. 0.82

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 1.3e-06
           CENP-F_leu_zip   7 hvlekLKeserkadsLkdkvenLerelemseenqekvileaEtskaevetl.keeieelaeelreleldLvalrs 80 
                               ++e+ K + ++ + L+dk+ +L   l   e+n+ek+ le+E +  e+e + ++e++e +++ ++l++++++l++
  PHY93_17935|PHY93_17935 508 DQEEEKKTMASSVAGLNDKISALSHKLSSTEANLEKMRLEKEAA--EIERVhQKEVDEQTTTITNLRTQISELKN 580
                              5788889999999**************************99975..66665145678889999999999988874 PP

>> DUF3450  Protein of unknown function (DUF3450)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.2   0.0      0.16   4.9e+02     142     157 ..     305     320 ..     301     321 .. 0.88
   2 ?   12.9   5.8   1.7e-05      0.05      17     127 ..     505     614 ..     492     631 .. 0.86

  Alignments for each domain:
  == domain 1  score: -0.2 bits;  conditional E-value: 0.16
                  DUF3450 142 laekyrrvleayqiEa 157
                               a+k+r  leayq E+
  PHY93_17935|PHY93_17935 305 SADKIRSQLEAYQKET 320
                              689**********996 PP

  == domain 2  score: 12.9 bits;  conditional E-value: 1.7e-05
                  DUF3450  17 tldqalkeaekavaaaaqsqkkidklddekqellaeyralkeeleslevyneqlerlvasqeqeiasleeqieeieeierelvpll 102
                              ++++ ++e++   ++ a  + ki++l+ + ++ +a++++++ e+e++e+++ ++ + v++q ++i++l++qi+e+++ +r  +   
  PHY93_17935|PHY93_17935 505 SPRDQEEEKKTMASSVAGLNDKISALSHKLSSTEANLEKMRLEKEAAEIERVHQ-KEVDEQTTTITNLRTQISELKNSQRPKSISE 589
                              45555566666667778899*****************************99886.569**********************999999 PP

                  DUF3450 103 ekmidrLeqfveldlPflleeRqar 127
                              ++ ++++e  +++   f  + R+  
  PHY93_17935|PHY93_17935 590 LDSVKKIESPIAANSSFTTSSRNSN 614
                              9999999999999999999999865 PP

>> Med21  Subunit 21 of Mediator complex
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.0      0.76   2.3e+03       7      15 ..     115     123 ..     113     158 .. 0.91
   2 ?   11.5   3.9     9e-05      0.27      53     143 ..     467     579 ..     422     580 .. 0.76

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 0.76
                    Med21   7 qLQdcldqL 15 
                              qLQ+ +dq+
  PHY93_17935|PHY93_17935 115 QLQTHIDQM 123
                              9*******8 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 9e-05
                    Med21  53 p...........................qeekeepepdspeefaatqrelardlilkeqqIeyLIssLPgigsseeeqeerikeLe 111
                              +                           q  +e+++  sp++++++ +++a+ ++    +I++L ++L    ss+e ++e++ +Le
  PHY93_17935|PHY93_17935 467 ApggaslaslsssqktaptvsnyspahfQVGNEQQKDASPRDQEEEKKTMASSVAGLNDKISALSHKL----SSTEANLEKM-RLE 547
                              14555555555555555666666677777889999999******************999999999988....6666777776.6** PP

                    Med21 112 eelreveeereekvkekeellkkveellrava 143
                              +e +e+e   +++v e+ +  ++++  +++++
  PHY93_17935|PHY93_17935 548 KEAAEIERVHQKEVDEQTTTITNLRTQISELK 579
                              ***********************999998875 PP

>> Prominin  Prominin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   5.0   6.8e-05       0.2     618     695 ..     512     588 ..     494     619 .. 0.77

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 6.8e-05
                 Prominin 618 ckkltkvnletlaekleelanelsngkknl.kqslkneaqdlraiqqelvlplessvkklkksvkklde....ensdlqesik 695
                              +kk +  ++  l +k+ +l+++ls+ ++nl k +l++ea ++++++q+ v+++++++ +l+ ++ +l++    +      si+
  PHY93_17935|PHY93_17935 512 EKKTMASSVAGLNDKISALSHKLSSTEANLeKMRLEKEAAEIERVHQKEVDEQTTTITNLRTQISELKNsqrpK------SIS 588
                              56777788899999*********99986652679*********************************9844221......332 PP

>> NPV_P10  Nucleopolyhedrovirus P10 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0       3.7   1.1e+04      40      53 ..      48      61 ..      32      70 .. 0.53
   2 ?   10.4   1.3   0.00024      0.71      14      62 ..     521     579 ..     515     592 .. 0.70
   3 ?   -2.7   0.0       2.9   8.7e+03      11      44 ..     673     705 ..     670     709 .. 0.78

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 3.7
                  NPV_P10 40 lnekLdaqsaqLae 53
                             + ++L+  ++++++
  PHY93_17935|PHY93_17935 48 MDTRLQTFTQSINN 61
                             33333333333333 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 0.00024
                  NPV_P10  14 kavddkVdalqqqv.........ddvqenlpdvtelnek.LdaqsaqLaeletkvenIq 62 
                              + ++dk++al++++          +++++  +++ +++k +d+q++++++l t++++ +
  PHY93_17935|PHY93_17935 521 AGLNDKISALSHKLssteanlekMRLEKEAAEIERVHQKeVDEQTTTITNLRTQISELK 579
                              55666666666666444444444456677777888876559999999999999998876 PP

  == domain 3  score: -2.7 bits;  conditional E-value: 2.9
                  NPV_P10  11 adikavddkVdalqqqvddvqenlpdvtelnekL 44 
                              ++i+ ++ k  ++ ++++ ++++  + + ++ek+
  PHY93_17935|PHY93_17935 673 NAIASTNLKSGVVLTKIEGLSSDKAN-ETITEKI 705
                              67888888888888999999998888.7788876 PP

>> DUF4094  Domain of unknown function (DUF4094)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   1.0    0.0015       4.4      40      86 ..     499     545 ..     473     547 .. 0.74
   2 ?    1.1   0.7      0.18   5.2e+02      54      79 ..     553     579 ..     544     592 .. 0.78

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0015
                  DUF4094  40 lvsedcdskdaesrskdilgevskthkaiqtLdktissLemeLaaar 86 
                                ++d  ++d+e+++k++ + v   ++ i++L  ++ss e  L+  r
  PHY93_17935|PHY93_17935 499 EQQKDASPRDQEEEKKTMASSVAGLNDKISALSHKLSSTEANLEKMR 545
                              24456666888888877777*********************998766 PP

  == domain 2  score: 1.1 bits;  conditional E-value: 0.18
                  DUF4094  54 skdilg.evskthkaiqtLdktissLe 79 
                               + + + ev+++ + i++L  +is+L 
  PHY93_17935|PHY93_17935 553 IERVHQkEVDEQTTTITNLRTQISELK 579
                              445666699999999999999999985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (803 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1730  (0.0964917); expected 358.6 (0.02)
Passed bias filter:                      642  (0.0358079); expected 358.6 (0.02)
Passed Vit filter:                        83  (0.00462937); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.86u 0.26s 00:00:01.12 Elapsed: 00:00:00.45
# Mc/sec: 5413.16
//
Query:       PHY93_17940|PHY93_17940  [L=353]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.7e-23   81.2   0.0    1.1e-22   80.8   0.0    1.1  1  PALP      Pyridoxal-phosphate dependent enzyme


Domain annotation for each model (and alignments):
>> PALP  Pyridoxal-phosphate dependent enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   80.8   0.0   6.1e-27   1.1e-22       5     291 ..      22     321 ..      18     323 .. 0.82

  Alignments for each domain:
  == domain 1  score: 80.8 bits;  conditional E-value: 6.1e-27
                              SSS--EEEECCTCCCCCCE.EEEEEGGGST..TSBTTHHHHHHHHHHHHTTTTTSEEEEEBS..SHHHHHHHHHHHHHT-EEEEE. CS
                     PALP   5 igpTPlvrlprlskelgvp.lflKlEslnp..tgSfKdRgaeyllarlkegtgaktvveass..GNhgralAaaaallGlkvtiv. 84 
                               + TP+ +l+++s ++++  l++K+E+l+    g++K+R +e+ll ++k   ga++++      +N  +alAa a++  ++v ++ 
  PHY93_17940|PHY93_17940  22 DKATPVYQLKKFSSDFNHSkLYVKREDLTSelYGGNKVRNLEFLLGQAKYR-GADNILSLAPlgSNFVAALAAQAQKVEIPVKCYh 106
                              678**************************779***************9999.677666555555***************9999987 PP

                              EETTS-H...HHHHHHHHTT-EEEEECCH.....HHHHHHHHHHHHHHSTTCEE--TTTSHH.HHHHHHTHHHHHHHHTT....TT CS
                     PALP  85 vpadasp...ekvallrllGaevvevggd.....ydeavaaaaelaaegegaylvsqfdnpt.viegygtiglEileqlg....gk 157
                              ++ + s+     +   ++ Ga++  + g+     +++++    +++ + ++ ++ +++++++ +  g+  + lE+leq+     + 
  PHY93_17940|PHY93_17940 107 FEPHLSEqmiKHAYYSKAVGAQLKTYRGGylpslFQSTLHFSSDVLFNHQNSFVMPTGGSSLsGAMGHVNAFLEMLEQVEqdeiPC 192
                              44444442226666789*********77767777888888866665556888888888855549999*********99999999** PP

                              EEEEEEE-SSSHHHHHHHHHHHHHSTT-EEEEEEECTTCGGTTCCS..S.SS..B.SSS.CCSTCS.CGTTCCHHHHSEEEEEEEE CS
                     PALP 158 pdavvvpvGgGgliaGiaaglkerrpdvrvigvepegsdalarslragrrvtvpvsdtiadglavg.spselafelldrlvdeivt 242
                              pd++vv++G+ g+iaG+ a+    +  v+++gv  +    +++            +++  ++l+ + +     + l+d+     ++
  PHY93_17940|PHY93_17940 193 PDYLVVGAGTCGTIAGLLAAKILTNHPVNIVGVRCVDKIICNKWN------ISRLCNQVLTSLGSDrRIKFSEINLVDNGAV-KYG 271
                              ***********************9999******877444444443......4445588899999997666666666655555.7** PP

                              EEHHHHHHHHHHHHHHHSB-B-H.HHHHHHHHH.HHHHHHCCTTCEEEEEE CS
                     PALP 243 vsdeealeamrllarregivvep.ssaaalaal.klreagelkegdrvvvi 291
                                d +a+  m+   + egi ++  ++ +++  l kl ++++lk+  + +  
  PHY93_17940|PHY93_17940 272 QADGDAVNLMKSISHSEGISLDTtYTTKVVSYLtKLMSRADLKNA-NFLYW 321
                              **********************************99999999987.66655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (353 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       406  (0.0226449); expected 358.6 (0.02)
Passed bias filter:                      364  (0.0203023); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.43
# Mc/sec: 2461.53
//
Query:       PHY93_17945|PHY93_17945  [L=443]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
      5e-10   39.5   0.0    1.2e-09   38.3   0.0    1.6  1  PAS_3      PAS fold
    1.2e-05   25.2   2.1    1.2e-05   25.2   2.1    2.2  2  MCPsignal  Methyl-accepting chemotaxis protein (MCP) signalli
    1.6e-05   24.8   0.0    3.8e-05   23.6   0.0    1.5  1  PAS        PAS fold
    4.2e-05   23.7   0.0    0.00011   22.4   0.0    1.7  2  PAS_9      PAS domain


Domain annotation for each model (and alignments):
>> PAS_3  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.3   0.0   2.6e-13   1.2e-09       5      76 ..      33     103 ..      29     107 .. 0.93

  Alignments for each domain:
  == domain 1  score: 38.3 bits;  conditional E-value: 2.6e-13
                    PAS_3   5 serveeilGyspeellgkveswldlvhpeDrervrealqealkkgepyegeyRirrkdGeyrwveararvi.r 76 
                              +e + +i  ys+eel+g    +  + hp++ + v++al++ +  g+ +  +++ + kdG+y+wv a++ +i +
  PHY93_17945|PHY93_17945  33 NEVFIRISKYSREELIGA--PHNIIRHPDMPKIVFKALWDTILAGKTICAYVKNLAKDGSYYWVFATVIPIgN 103
                              777889999*********..***********************************************999944 PP

>> MCPsignal  Methyl-accepting chemotaxis protein (MCP) signalling domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.2   2.1   2.7e-09   1.2e-05      24     127 ..     209     315 ..     197     347 .. 0.77
   2 ?    0.6   0.3     0.093   4.2e+02      57     110 ..     380     430 ..     334     443 .] 0.65

  Alignments for each domain:
  == domain 1  score: 25.2 bits;  conditional E-value: 2.7e-09
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH.............. CS
                MCPsignal  24 qmeeieksskeisdiieVideiadQTNlLALNAaiEAARAGeqGrGFaVVAdEVrkLAersaqaakeiealiieiqkei...ndsv 106
                               +++++++++ isd i+ i ++++   + ALN  iEA R G+qGr    VA+ + + A+++++   +++ l +++  +     +  
  PHY93_17945|PHY93_17945 209 LINKLSTHTNAISDKITKIGDVSKNIEFSALNTIIEAERLGDQGRALGAVAQHISAGAAETKKLNSNVNLLATKMLGNLgefRTIQ 294
                              5678888899999999999999999999**********************************999999988877765431103344 PP

                              ...HHHHHHHHHHHHHHHHHC CS
                MCPsignal 107 esleetrqrveegselveetg 127
                               s+  ++ +ve  s  ve+ +
  PHY93_17945|PHY93_17945 295 LSIALSTLQVEMLSCFVEQWT 315
                              455555566666555555555 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.093
                              HHHHHHTCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH..............H CS
                MCPsignal  57 aiEAARAGeqGrGFaVVAdEVrkLAersaqaakeiealiieiqkeindsvesle 110
                              +iE AR  +    F+     +++L ++s     e +a+i ++ k+  d++e+++
  PHY93_17945|PHY93_17945 380 SIESARLSDD-SIFSHLFLAIKNLINESEALYAEFSAVINDVIKK--DVTEVIK 430
                              5666665554.3466666667888888888888888888765542..3333333 PP

>> PAS  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.6   0.0   8.5e-09   3.8e-05      16      98 ..      22     103 ..      15     104 .. 0.94

  Alignments for each domain:
  == domain 1  score: 23.6 bits;  conditional E-value: 8.5e-09
                              EEETTSBEEEECHHHHHHHSSTHHHCTTSBGGGGBSTTHHHHHHHHHHHHHHHTT-ECCCCEEEECTTSSEEEEEEEEEEEEE CS
                      PAS  16 vvDedgrilyvNaaaeellGlsreevlgkslldliheeddaelaelleqlleqgeesrageisfklrdgrpihlevraspvrd 98 
                               +D++g+il  N+ + ++  +sree++g + ++ +h++ + ++ ++l+  +++g+  +a+ +++ + dg+++++  ++ p+++
  PHY93_17945|PHY93_17945  22 TTDHRGVILDGNEVFIRISKYSREELIGAPHNIIRHPDMPKIVFKALWDTILAGKTICAYVKNLAK-DGSYYWVFATVIPIGN 103
                              689***********************************999*************************.*******999999876 PP

>> PAS_9  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.4   0.0   2.5e-08   0.00011       3      88 ..      18     104 ..      16     112 .. 0.85
   2 ?   -3.8   0.0       3.6   1.6e+04      29      40 ..     418     429 ..     405     438 .. 0.69

  Alignments for each domain:
  == domain 1  score: 22.4 bits;  conditional E-value: 2.5e-08
                    PAS_9   3 gili.dnpdgrilyaNeaalrllGyspeevlgksitdlf...vtdpeanerlraaleqgrkkerevevvlirkngetfwvlltasp 84 
                              +++  +++ g il+ Ne ++r+  ys+ee++g   ++++   + ++   + l++ + +g+       v +  k+g+++wv +t++p
  PHY93_17945|PHY93_17945  18 MFFStTDHRGVILDGNEVFIRISKYSREELIGA-PHNIIrhpDMPKIVFKALWDTILAGK--TICAYVKNLAKDGSYYWVFATVIP 100
                              5554488999677*******************5.57777798888888899999999999..9*********************** PP

                    PAS_9  85 vkdd 88 
                              + +d
  PHY93_17945|PHY93_17945 101 IGND 104
                              9554 PP

  == domain 2  score: -3.8 bits;  conditional E-value: 3.6
                    PAS_9  29 eevlgksitdlf 40 
                              ++v+ k++t+++
  PHY93_17945|PHY93_17945 418 NDVIKKDVTEVI 429
                              566777777666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (443 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       502  (0.0279993); expected 358.6 (0.02)
Passed bias filter:                      295  (0.0164538); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.55u 0.23s 00:00:00.78 Elapsed: 00:00:00.41
# Mc/sec: 3259.21
//
Query:       PHY93_17950|PHY93_17950  [L=381]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.5e-15   54.5   0.1    1.4e-14   53.7   0.1    1.4  1  HTH_25    Helix-turn-helix domain
    1.9e-05   24.8   0.0      4e-05   23.7   0.0    1.6  1  DUF4115   Domain of unknown function (DUF4115)
    9.4e-05   22.4   1.9    0.00011   22.1   0.6    1.9  2  HTH_19    Helix-turn-helix domain


Domain annotation for each model (and alignments):
>> HTH_25  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.7   0.1   2.3e-18   1.4e-14       2      61 ..      30      89 ..      29      90 .. 0.97

  Alignments for each domain:
  == domain 1  score: 53.7 bits;  conditional E-value: 2.3e-18
                             HHHHHHTTT--HHHHHHHSS--HHHHHHHHCT--TTSS-HHHHHHHHHHHHHHTT--HHH CS
                   HTH_25  2 LraaRearglsleevaketkIrkdylealEeddfdalpepvylrgylrnYArlLgldpee 61
                             Lr +Re++gl l+ ++ +tkI+  +l +lE++++++lp+++y+rg++ + A++L+++ +e
  PHY93_17950|PHY93_17950 30 LRSRREEKGLNLKNMSFRTKIHIGLLVHLENNELSKLPNKIYVRGFVSSAAKILEINQAE 89
                             9*******************************************************9875 PP

>> DUF4115  Domain of unknown function (DUF4115)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.7   0.0   6.8e-09     4e-05       5      65 ..     272     330 ..     269     337 .. 0.90

  Alignments for each domain:
  == domain 1  score: 23.7 bits;  conditional E-value: 6.8e-09
                  DUF4115   5 atadsWveVrdadGkvlfegtlkaGetkevsgkppltltiGnagavevsvnGkpvdllgya 65 
                              +++dsW+  + +d+k +   +l++G ++ +sg+  ++l + na+av++ +n+k + l+ ++
  PHY93_17950|PHY93_17950 272 VDGDSWITYK-VDDKEIKKYVLRQGRKVFISGE-NIRLFLKNASAVKIFYNNKLISLNDKR 330
                              579*******.*******************877.88******************9999854 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.1   0.6   1.9e-08   0.00011       1      57 [.      27      89 ..      27      96 .. 0.87
   2 ?   -3.9   0.0       2.5   1.5e+04      27      34 ..     102     109 ..      97     112 .. 0.80

  Alignments for each domain:
  == domain 1  score: 22.1 bits;  conditional E-value: 1.9e-08
                   HTH_19  1 GerLkeaReelgltqeelaerlgisrskisaiEng..kkdvps....aelllkiaealgid.le 57
                             Ge L+  Ree+gl+++ ++ r++i ++ + ++En+  +k  p+    ++ + ++a++l+i+ +e
  PHY93_17950|PHY93_17950 27 GELLRSRREEKGLNLKNMSFRTKIHIGLLVHLENNelSK-LPNkiyvRGFVSSAAKILEINqAE 89
                             899********************************8554.776888888889999999999444 PP

  == domain 2  score: -3.9 bits;  conditional E-value: 2.5
                   HTH_19  27 skisaiEn 34 
                              +ki++iE 
  PHY93_17950|PHY93_17950 102 NKIIKIEA 109
                              78999996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (381 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       756  (0.0421663); expected 358.6 (0.02)
Passed bias filter:                      431  (0.0240393); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.41
# Mc/sec: 2796.26
//
Query:       PHY93_17955|PHY93_17955  [L=375]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (375 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       267  (0.0148921); expected 358.6 (0.02)
Passed bias filter:                      146  (0.00814323); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.39
# Mc/sec: 2868.87
//
Query:       PHY93_17960|PHY93_17960  [L=175]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (175 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       517  (0.028836); expected 358.6 (0.02)
Passed bias filter:                      190  (0.0105974); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.18s 00:00:00.61 Elapsed: 00:00:00.37
# Mc/sec: 1427.48
//
Query:       PHY93_17965|PHY93_17965  [L=795]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.8e-12   47.3   0.1    3.6e-12   46.4   0.1    1.5  1  Peptidase_S74  Chaperone of endosialidase
  ------ inclusion threshold ------
       0.22   11.3   1.2       0.68    9.7   1.2    1.8  1  CBX7_C         CBX family C-terminal motif


Domain annotation for each model (and alignments):
>> Peptidase_S74  Chaperone of endosialidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.4   0.1     4e-16   3.6e-12       1      58 []     674     725 ..     674     725 .. 0.95

  Alignments for each domain:
  == domain 1  score: 46.4 bits;  conditional E-value: 4e-16
                              -TTTTBSS-EC-HHHHHHHCT---EEE-BCCHHHHHGGGGS-BEEE--HHHHHHHHHH CS
            Peptidase_S74   1 SDrRlKtnIrpledalakvlklrpvtYrykdesirkskdsgrrevGfIAQeveavlpe 58 
                              SD+RlK++++ + d+l+k+l l+++ Y +++      + +  +++G+ AQeve+v+pe
  PHY93_17965|PHY93_17965 674 SDERLKRDFEIIPDSLDKLLTLNGYYYYWNR------GVDHSKKIGLKAQEVEKVFPE 725
                              9****************************86......56788***************8 PP

>> CBX7_C  CBX family C-terminal motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   1.2   7.6e-05      0.68      16      26 ..     484     494 ..     478     494 .. 0.93

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 7.6e-05
                   CBX7_C  16 vTDVTvNslTV 26 
                               TDVT+N++TV
  PHY93_17965|PHY93_17965 484 TTDVTINGITV 494
                              6*********9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (795 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       828  (0.0461822); expected 358.6 (0.02)
Passed bias filter:                      502  (0.0279993); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.75u 0.26s 00:00:01.01 Elapsed: 00:00:00.44
# Mc/sec: 5390.57
//
Query:       PHY93_05510|PHY93_05510  [L=115]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    7.3e-22   77.7   0.1    8.1e-22   77.5   0.1    1.0  1  Response_reg  Response regulator receiver domain
  ------ inclusion threshold ------
       0.11   12.9   0.9       0.92    9.9   0.9    2.0  1  FleQ          Flagellar regulatory protein FleQ


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.5   0.1     9e-26   8.1e-22       1     111 [.       4     113 ..       4     114 .. 0.93

  Alignments for each domain:
  == domain 1  score: 77.5 bits;  conditional E-value: 9e-26
                              EEEESSSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCT..TTSEEEEEESSTSHH CS
             Response_reg   1 vlivdDdplvrellrqlleeegyeevaeaedgkealellkeekvdlillDinmpgmdGlellkeireed..pelpviiltahseee 84 
                              +l+v+Dd  +rell ++le +gy  v +  +g++ ++ l++  +dli++D++mp mdG+ + ke+  ++  + +pv++++a+++  
  PHY93_05510|PHY93_05510   4 ILVVEDDTSIRELLVEILEGQGY-LVFSSVNGSDGIKSLETLIPDLIIMDVMMPIMDGYAFRKELLLNPkwNLIPVVAMSAQDQ-- 86 
                              8**********************.*****************************************7777447799999997776.. PP

                              HHHHHHHCTESEEEESSG-HHHHHHHH CS
             Response_reg  85 davealkagaddflsKpfdpeeLlkal 111
                               +++  ++g+  f+sKp++ ++Ll+ l
  PHY93_05510|PHY93_05510  87 GKEKLADYGITNFISKPLELNHLLETL 113
                              889999*****************9986 PP

>> FleQ  Flagellar regulatory protein FleQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.9    0.0001      0.92       1     105 [.       3     114 ..       3     115 .] 0.65

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.0001
                     FleQ   1 kiLvidddaerrrdletiLeFlgeeveavsseelsaaleesssea..lavilgsvs.....sleealealaekdphlPvlllgesd 79 
                              kiLv++dd++ r+ l  iLe  g+ + ++ss + s+  ++ +  +  l+++   +      +   +   l  k + +Pv+ ++ +d
  PHY93_05510|PHY93_05510   3 KILVVEDDTSIRELLVEILE--GQGYLVFSSVNGSDGIKSLETLIpdLIIMDVMMPimdgyA-FRKELLLNPKWNLIPVVAMSAQD 85 
                              79**************9999..6666666666664444433333311444444443554422.22223344556678999999999 PP

                     FleQ  80 ea.eelan..vigelelPlnYnqLtdlLh 105
                              +  e+la+  +   ++ Pl+ n L++ L+
  PHY93_05510|PHY93_05510  86 QGkEKLADygITNFISKPLELNHLLETLK 114
                              98888888877777999999999998886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (115 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       283  (0.0157845); expected 358.6 (0.02)
Passed bias filter:                      263  (0.014669); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.42
# Mc/sec: 829.20
//
Query:       PHY93_17970|PHY93_17970  [L=540]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (540 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1106  (0.0616878); expected 358.6 (0.02)
Passed bias filter:                      523  (0.0291706); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.62u 0.23s 00:00:00.85 Elapsed: 00:00:00.42
# Mc/sec: 3891.24
//
Query:       PHY93_17975|PHY93_17975  [L=39]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (39 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       250  (0.0139439); expected 358.6 (0.02)
Passed bias filter:                      192  (0.0107089); expected 358.6 (0.02)
Passed Vit filter:                         3  (0.000167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.36u 0.22s 00:00:00.57 Elapsed: 00:00:00.38
# Mc/sec: 310.56
//
Query:       PHY93_17980|PHY93_17980  [L=394]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        1.9    9.2   4.4        3.3    8.4   4.4    1.4  1  LPAM_1    Prokaryotic membrane lipoprotein lipid attachment s
          3    8.6   5.2        5.6    7.8   0.1    3.1  3  Phe_ZIP   Phenylalanine zipper


Domain annotation for each model (and alignments):
>> LPAM_1  Prokaryotic membrane lipoprotein lipid attachment site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.4   4.4   0.00037       3.3       1      18 []       1      18 [.       1      18 [. 0.99

  Alignments for each domain:
  == domain 1  score: 8.4 bits;  conditional E-value: 0.00037
                   LPAM_1  1 MKKillalgalllLsGCs 18
                             MKK++l  ++l lL++Cs
  PHY93_17980|PHY93_17980  1 MKKLILMYCILILLTSCS 18
                             *****************9 PP

>> Phe_ZIP  Phenylalanine zipper
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   0.1   0.00062       5.6      16      44 ..      57      85 ..      55      91 .. 0.82
   2 ?    1.7   0.2     0.047   4.2e+02      33      50 ..     187     204 ..     170     212 .. 0.76
   3 ?   -1.7   0.1      0.57   5.1e+03      28      45 ..     266     283 ..     259     288 .. 0.63

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.00062
                  Phe_ZIP 16 dfArayrrflaenpqsaeplaaedFskkF 44
                              fA +y++++++ p ++++ a   F++k 
  PHY93_17980|PHY93_17980 57 AFATKYVEYISQLPPKQKEQAYGLFIEKH 85
                             6**************99888777777654 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.047
                  Phe_ZIP  33 eplaaedFskkFvelFle 50 
                              + +++++F   F+ +F+e
  PHY93_17980|PHY93_17980 187 AMIEEDEFKTSFTRYFSE 204
                              567778888889888876 PP

  == domain 3  score: -1.7 bits;  conditional E-value: 0.57
                  Phe_ZIP  28 npqsaeplaaedFskkFv 45 
                              + +++e+++ e+F+k F+
  PHY93_17980|PHY93_17980 266 HVNENETSKIETFAKLFI 283
                              444555667777777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (394 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1000  (0.0557756); expected 358.6 (0.02)
Passed bias filter:                      423  (0.0235931); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.55u 0.22s 00:00:00.77 Elapsed: 00:00:00.40
# Mc/sec: 2946.48
//
Query:       PHY93_17985|PHY93_17985  [L=176]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.2e-31  108.8   0.5    2.9e-31  108.4   0.5    1.1  1  sCache_2         Single Cache domain 2
    5.4e-28   98.0   1.3    6.9e-28   97.7   1.3    1.0  1  dCache_2         Cache domain
    1.1e-05   24.8   0.1    1.5e-05   24.4   0.1    1.1  1  Cache_3-Cache_2  Cache 3/Cache 2 fusion domain


Domain annotation for each model (and alignments):
>> sCache_2  Single Cache domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  108.4   0.5   4.9e-35   2.9e-31      10     137 ..      42     169 ..      35     171 .. 0.97

  Alignments for each domain:
  == domain 1  score: 108.4 bits;  conditional E-value: 4.9e-35
                 sCache_2  10 knqvetaislieavykqvesgkiteeeaqeevkelvnglkfgdGkgYffvldedgtllvhPfnpqleGknasnlkDanGkyiirel 95 
                              k+ v+ta ++ie v k+++++k+te  aqe++k+++++l+ +d   Yf++ d +  ++ hP++p l+G++++n+k++ G  i+ e+
  PHY93_17985|PHY93_17985  42 KSAVDTAFTVIESVAKEYREKKLTESAAQEQIKSIISNLRLDD-GSYFWIHDLNLRMILHPIKPALNGTDLNNYKSPTGHLIFVEM 126
                              789****************************************.9***************************************** PP

                 sCache_2  96 vkeak.kkgggfvtylwkkpgegeveeklayvkyfepWdwvig 137
                               ++++ +++ + + y+w kp+e   +ek +y + + pW+wvi+
  PHY93_17985|PHY93_17985 127 NQAMAkENERAWYNYYWAKPNEAVDKEKTSYLRVYNPWGWVIN 169
                              *999879999*******************************96 PP

>> dCache_2  Cache domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   97.7   1.3   1.2e-31   6.9e-28      51     176 ..      42     168 ..      23     170 .. 0.92

  Alignments for each domain:
  == domain 1  score: 97.7 bits;  conditional E-value: 1.2e-31
                 dCache_2  51 ksrveeaysiaeeiyekykn.elseeeakklikealrsirydggegyyfiidskgtlilhpdspsleGknlldlkdkdGryiirem 135
                              ks v+ a++++e+  ++y++ +l+e+ a++ ik++++++r  ++  y++i d + ++ilhp +p l+G++l ++k  +G+ i+ em
  PHY93_17985|PHY93_17985  42 KSAVDTAFTVIESVAKEYREkKLTESAAQEQIKSIISNLR-LDDGSYFWIHDLNLRMILHPIKPALNGTDLNNYKSPTGHLIFVEM 126
                              899*************************************.56667**************************************** PP

                 dCache_2 136 ikla.kkkgeGfveytwpkpdekkprkkisyvkyfepldwiI 176
                               ++  k++    ++y+w kp+e  +++k+sy +   p++w+I
  PHY93_17985|PHY93_17985 127 NQAMaKENERAWYNYYWAKPNEAVDKEKTSYLRVYNPWGWVI 168
                              ****555555*******************************9 PP

>> Cache_3-Cache_2  Cache 3/Cache 2 fusion domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.4   0.1   2.5e-09   1.5e-05     177     273 ..      66     168 ..      63     173 .. 0.84

  Alignments for each domain:
  == domain 1  score: 24.4 bits;  conditional E-value: 2.5e-09
          Cache_3-Cache_2 177 qsealkslrkelkklkvGktGylyvldgkgdkkgkliihptlk...gknvldlkdadgesvvkkllkk.....ksgsleyelk..k 252
                              +s+a++++++ +++l++ +  y+++ d +     ++i+hp +    g+++ ++k+  g  ++ ++ ++     +   + y +   +
  PHY93_17985|PHY93_17985  66 ESAAQEQIKSIISNLRLDDGSYFWIHDLN----LRMILHPIKPalnGTDLNNYKSPTGHLIFVEMNQAmakenERAWYNYYWAkpN 147
                              56788999999********99********....9*****977767799999999*****777777666666665556667777899 PP

          Cache_3-Cache_2 253 dekgreklavftyfepwdWvi 273
                              ++  +ek+++++ + pw+Wvi
  PHY93_17985|PHY93_17985 148 EAVDKEKTSYLRVYNPWGWVI 168
                              99999***************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (176 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       933  (0.0520386); expected 358.6 (0.02)
Passed bias filter:                      620  (0.0345808); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 1307.14
//
Query:       PHY93_17990|PHY93_17990  [L=176]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0042   16.9   0.9     0.0069   16.2   0.9    1.4  1  DUF992    Protein of unknown function (DUF992)


Domain annotation for each model (and alignments):
>> DUF992  Protein of unknown function (DUF992)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.9   3.9e-07    0.0069      84     141 ..     117     173 ..     108     175 .. 0.92

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 3.9e-07
                   DUF992  84 kegaLaGeYvGasasaavgvGlganvlvggssksiaLqplsvegqtGlnvaagvaelt 141
                              ++++L G Yv a+++ av +G+ga   v  s  +++++ +sv+  +Gl+v ag++++ 
  PHY93_17990|PHY93_17990 117 DPEDLLGLYVVAQGQGAVIAGAGALTAVRASFPHLSMN-VSVQVLKGLGVNAGISKMV 173
                              5799*************************999999986.9**************9985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (176 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       359  (0.0200234); expected 358.6 (0.02)
Passed bias filter:                      281  (0.0156729); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.20s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 1286.31
//
Query:       PHY93_17995|PHY93_17995  [L=161]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      1e-06   28.4   0.0    1.6e-06   27.8   0.0    1.2  1  DUF676           Putative serine esterase (DUF676)
    3.3e-05   23.8   0.0    5.5e-05   23.1   0.0    1.4  1  Lipase_3         Lipase (class 3)
    3.5e-05   23.5   0.0    3.7e-05   23.4   0.0    1.1  1  PE-PPE           PE-PPE domain
    0.00048   19.5   0.0    0.00057   19.2   0.0    1.1  1  Hydrolase_4      Serine aminopeptidase, S33
      0.004   16.8   0.0     0.0066   16.1   0.0    1.3  1  Abhydrolase_1    alpha/beta hydrolase fold
     0.0053   16.7   0.0     0.0066   16.4   0.0    1.2  1  Cutinase         Cutinase
  ------ inclusion threshold ------
      0.019   15.2   0.1      0.037   14.3   0.1    1.6  1  Antifungal_prot  Antifungal protein
      0.026   14.1   0.0      0.033   13.7   0.0    1.1  1  DUF900           Alpha/beta hydrolase of unknown function (DU
        0.2   11.2   0.0       0.29   10.7   0.0    1.1  1  DUF2974          Protein of unknown function (DUF2974)


Domain annotation for each model (and alignments):
>> DUF676  Putative serine esterase (DUF676)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.8   0.0   7.9e-10   1.6e-06      59     154 ..       6      89 ..       2     101 .. 0.87

  Alignments for each domain:
  == domain 1  score: 27.8 bits;  conditional E-value: 7.9e-10
                   DUF676  59 lgerlaeevlevvkkkkdknkkiSfvghSlGgliaraaiaklkekemtlkeaikglepvtfitlasPhLGvlysskslinlglall 144
                               +++l+e + ++++k kdk   + ++g+S Gg+i+  a+ +l + +          + + f t+a P+ G++  s s   lg +++
  PHY93_17995|PHY93_17995   6 NRDQLIESIQSILDKHKDK--NLTIIGYSAGGVIVILAMDQLADGPL--A------KRIQFNTIAAPLFGYRSPSIS--WLGSPFV 79 
                              56789999*********99..6******************9998764..4......6899**********9988888..8899999 PP

                   DUF676 145 eklkkslsme 154
                               k+  +l ++
  PHY93_17995|PHY93_17995  80 GKTTIQLGIG 89 
                              9988877765 PP

>> Lipase_3  Lipase (class 3)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.1   0.0   2.8e-08   5.5e-05      47     108 ..       6      65 ..       2      86 .. 0.91

  Alignments for each domain:
  == domain 1  score: 23.1 bits;  conditional E-value: 2.8e-08
                              HHHHHHHHHHHHHHHTT-EEEEEEEETHHHHHHHHHHHHHHHTT-SS---EEEEEES----B CS
                 Lipase_3  47 lreqvlkelkrllekypeysivvtGHSLGgalAlLaaldlvengenekkkvtvvtfGqPrvg 108
                               r+q+ ++++++l+k+++ ++++ G S Gg + +La  +l+       k+++  t+++P  g
  PHY93_17995|PHY93_17995   6 NRDQLIESIQSILDKHKDKNLTIIGYSAGGVIVILAMDQLADGPLA--KRIQFNTIAAPLFG 65 
                              578999*********************************9999966..99999999999876 PP

>> PE-PPE  PE-PPE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.4   0.0   1.9e-08   3.7e-05      35      89 ..       9      62 ..       1      98 [. 0.81

  Alignments for each domain:
  == domain 1  score: 23.4 bits;  conditional E-value: 1.9e-08
                   PE-PPE 35 nLeaairaela..agekvvvfGySqgalvasnekarlaalsepaapdqlsfvlvgnp 89
                             +L + i++ l+   +++++++GyS g++++  ++ +la+   p a ++++f +++ p
  PHY93_17995|PHY93_17995  9 QLIESIQSILDkhKDKNLTIIGYSAGGVIVILAMDQLAD--GPLA-KRIQFNTIAAP 62
                             55555555443337999*********************9..8888.8*******998 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.2   0.0   2.8e-07   0.00057      61     139 ..       9      88 ..       2     128 .. 0.70

  Alignments for each domain:
  == domain 1  score: 19.2 bits;  conditional E-value: 2.8e-07
              Hydrolase_4  61 DlaafvekvkeehpelplfllGhSmGGliallyllrypd.....kvaglilsaPalkikaklkappllklllkllgkllpklqv 139
                               l + ++ + ++h++++l+++G S GG+i++l++++ +d     +++   ++aP++++++    p++  l + ++gk+  +l +
  PHY93_17995|PHY93_17995   9 QLIESIQSILDKHKDKNLTIIGYSAGGVIVILAMDQLADgplakRIQFNTIAAPLFGYRS----PSISWLGSPFVGKTTIQLGI 88 
                              56677899999***********************55554445666777778888888884....44444445666666666665 PP

>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   3.3e-06    0.0066      59      89 ..      10      40 ..       5      54 .. 0.88

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 3.3e-06
                             HHHHHHHHHHHCTTSSEEEEEETHHHHHHHH CS
            Abhydrolase_1 59 vaddldrildalgddkltlvGhSmGGmiala 89
                             + ++++ ild+++d++lt++G+S GG i+  
  PHY93_17995|PHY93_17995 10 LIESIQSILDKHKDKNLTIIGYSAGGVIVIL 40
                             5678899*******************99865 PP

>> Cutinase  Cutinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.0   3.3e-06    0.0066      61     151 ..       6     119 ..       1     131 [. 0.72

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 3.3e-06
                              HHHHHHHHHHHHHHH-TT-EEEEEEETHHHHHHHHHHTT.....S-HHHHHHEEEEEEES-TTC....CCCTT............. CS
                 Cutinase  61 gakeaaalvqslaskCPdtkivlgGYSqGaqvidnaieggatatlpaavadkvaavvlfGdpsn....vaglp............. 129
                                +++ + +qs+  k  d ++ + GYS G+ ++  a+ + a+  l + ++ +  a+ lfG+ s         +             
  PHY93_17995|PHY93_17995   6 NRDQLIESIQSILDKHKDKNLTIIGYSAGGVIVILAMDQLADGPLAKRIQFNTIAAPLFGYRSPsiswL---Gspfvgkttiqlgi 88 
                              55677888999999999**********************55555****************987643330...24444555566667 PP

                              ........S-TTS-GGGEEEE--TT-GGG.T CS
                 Cutinase 130 ........evsklyaskikslCdagDpiC.g 151
                                      +  +  +  +++ C+ +   C +
  PHY93_17995|PHY93_17995  89 gnydklvhKQMPQCNHWVTTRCEMDQHSCeN 119
                              7666666544444555666777777777754 PP

>> Antifungal_prot  Antifungal protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.1   1.9e-05     0.037      22      47 ..      98     123 ..      78     126 .. 0.82

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.9e-05
          Antifungal_prot  22 vivkCpsaankrCtkDrnkCeyDsvs 47 
                              ++ +C +   +rC+ D+++Ce D  s
  PHY93_17995|PHY93_17995  98 QMPQCNHWVTTRCEMDQHSCENDGLS 123
                              567899999************99765 PP

>> DUF900  Alpha/beta hydrolase of unknown function (DUF900)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   1.7e-05     0.033      72     118 ..       2      48 ..       1      63 [. 0.88

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1.7e-05
                   DUF900  72 saeasrdalekllrylatkksakkihllaHSmGtwlvlealrqlaie 118
                              s+e  rd+l + ++ +  k+++k+++++  S G  +v+ a+ qla  
  PHY93_17995|PHY93_17995   2 SIENNRDQLIESIQSILDKHKDKNLTIIGYSAGGVIVILAMDQLADG 48 
                              6778899*************************************865 PP

>> DUF2974  Protein of unknown function (DUF2974)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   0.00014      0.29      74     114 ..      13      55 ..       3      62 .. 0.85

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00014
                  DUF2974  74 Ylnkileesegk.iylgGhSkGGnlAvyaamn.aeddlqeris 114
                               +++il+++++k +++ G+S GG + ++a+ + a+  l +ri+
  PHY93_17995|PHY93_17995  13 SIQSILDKHKDKnLTIIGYSAGGVIVILAMDQlADGPLAKRIQ 55 
                              5789999999877*****************9977778899987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (161 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       765  (0.0426683); expected 358.6 (0.02)
Passed bias filter:                      660  (0.0368119); expected 358.6 (0.02)
Passed Vit filter:                        70  (0.00390429); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.42
# Mc/sec: 1158.44
//
Query:       PHY93_18000|PHY93_18000  [L=182]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.2e-31  110.5   0.3    1.4e-31  110.3   0.3    1.0  1  RNase_T         Exonuclease
    0.00028   20.6   0.1    0.00038   20.2   0.1    1.3  1  DNA_pol_A_exo1  3'-5' exonuclease


Domain annotation for each model (and alignments):
>> RNase_T  Exonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  110.3   0.3   1.6e-35   1.4e-31       2     165 .]       7     162 ..       6     162 .. 0.96

  Alignments for each domain:
  == domain 1  score: 110.3 bits;  conditional E-value: 1.6e-35
                              EEEEEESSSTTCTTS-EEEEEEEEEETTCCEEEEEEEEEEEHSSHCSSSHHHHHHHHHCHHHHHTCEBHHHHHHHHHHHHHHHTCC CS
                  RNase_T   2 viDlEttgldakekdeiieiaaisidggeneigetfhfyvkptelakltdecteftgitqemldeapsfkevleefkellrklall 87 
                              ++Dl ttg +  e ++iieia i+ d ++  ++etf+++++p++   +++++t +tgit++++ eap f++v++++ e+ + ++ +
  PHY93_18000|PHY93_18000   7 IVDLKTTGSNR-EGQKIIEIAIINYDERKKCVEETFSTLINPEKC--INHQITLLTGITNLKAMEAPYFYKVAKKIVEMTN-GRTI 88 
                              67999*****9.9*****************9**************..**********************************.99** PP

                              CETTTCEEEESSHHHHHHHHHHHHHHHHHCSEHCECHHHHHHHHHCHHHHHHHHHTTCHSSSSTSSHHHHHHHHHHHH CS
                  RNase_T  88 vahnaafdvgflraadkrilkkevpkrnqfldtlildkatlkelartsldklaeklgleedgraHrAldDaeataklf 165
                              vahna fd+ fl++++  +++++   + ++++ ++ +k  +++l+++sl++l+ ++++++   aHrAl+D+e++++l+
  PHY93_18000|PHY93_18000  89 VAHNAVFDYRFLQREFMDLGYNY---EREIFCIYKTAKDLFPNLPSYSLEDLCNYFKIKQKR-AHRALSDTENCLELL 162
                              *******************8884...479******************************976.7**********9986 PP

>> DNA_pol_A_exo1  3'-5' exonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.2   0.1   4.3e-08   0.00038      69     128 ..      76     141 ..      48     166 .. 0.82

  Alignments for each domain:
  == domain 1  score: 20.2 bits;  conditional E-value: 4.3e-08
                              HHHHHT-.TTSEEEESSHHHHHHHHHHH....HTS--SSEEEH.HHHHHHTTHSTTSSHHHHHHHH CS
           DNA_pol_A_exo1  69 lkrlled.enitkvghnakfDlevlard....fgielenlfdt.mlaayvldyershsLdsLaeky 128
                               k+++e  +  t+v hna fD+++l+r+       + + +f+  + a+ +     s+sL++L+ ++
  PHY93_18000|PHY93_18000  76 AKKIVEMtNGRTIVAHNAVFDYRFLQREfmdlGYNYEREIFCIyKTAKDLFPNLPSYSLEDLCNYF 141
                              455555414579****************88877789999****9999999888888*******987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (182 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       577  (0.0321825); expected 358.6 (0.02)
Passed bias filter:                      331  (0.0184617); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.39
# Mc/sec: 1408.18
//
Query:       PHY93_18005|PHY93_18005  [L=85]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
     0.0015   18.2  29.8     0.0017   18.0  29.8    1.1  1  SseC            Secretion system effector C (SseC) like famil
  ------ inclusion threshold ------
       0.11   12.8  12.8        1.6    9.0  12.8    2.2  1  Phasin_2        Phasin protein
       0.15   12.3  21.7       0.31   11.3  21.6    1.4  1  Senescence      Senescence-associated protein
        0.3   11.9   9.3       0.42   11.4   9.3    1.3  1  ATC_hydrolase   L-2-amino-thiazoline-4-carboxylic acid hydrol
       0.65   10.0   9.4       0.78    9.8   9.4    1.2  1  YpjP            YpjP-like protein
       0.79    7.6   7.6        0.9    7.4   7.6    1.1  1  Prominin        Prominin
          1    8.3   9.5        1.1    8.3   9.5    1.0  1  DUF2252         Uncharacterized protein conserved in bacteria
        1.5    8.2   7.1        1.7    8.0   7.1    1.1  1  DUF3878         Domain of unknown function, E. rectale Gene d
        1.8    8.8  25.7        4.8    7.4  25.7    1.7  1  SRI             SRI (Set2 Rpb1 interacting) domain
        1.8    9.0  14.0        2.4    8.6  14.0    1.1  1  DUF1690         Protein of Unknown function (DUF1690)
          2    8.2  11.5        2.1    8.1  11.5    1.1  1  PIN_8           PIN like domain
        4.5    7.7  14.7        5.7    7.3  14.7    1.1  1  DUF1178         Protein of unknown function (DUF1178)
        5.5    6.9  22.4        6.5    6.7  22.4    1.1  1  Rpp20           Rpp20 subunit of nuclear RNase MRP and P
        6.9    5.6  10.4        9.3    5.2  10.4    1.2  1  RapA_C          RNA polymerase recycling family C-terminal
        7.2    5.4   6.3        8.5    5.1   6.3    1.0  1  LMBR1           LMBR1-like membrane protein


Domain annotation for each model (and alignments):
>> SseC  Secretion system effector C (SseC) like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.0  29.8   1.5e-06    0.0017     150     235 ..       1      82 [.       1      85 [] 0.80

  Alignments for each domain:
  == domain 1  score: 18.0 bits;  conditional E-value: 1.5e-06
                     SseC 150 vavgsaakgaaaavksgaaklaeavaeaigkaikkaaekagkevaeqvskqvlnelakkatkvakavkegvvasavakalikavvv 235
                              +av+ a+k++a++++  ++ + +a++++++ka kk+a+ka k+va +++++v n++ k a kvaka+k+ +  ++vaka++k+ + 
  PHY93_18005|PHY93_18005   1 MAVKKAVKKVAKKAT--KKVAKKATKKVAKKATKKVAKKATKKVATKATNKVVNTVEKVARKVAKATKKVA--KKVAKATKKVAAI 82 
                              566777777776553..4555556666666777********************************999999..9999999998755 PP

>> Phasin_2  Phasin protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0  12.8    0.0014       1.6       7      52 ..      35      81 ..       2      84 .. 0.85

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.0014
                 Phasin_2  7 akknlea.lealaslalegaeklaelqleaarasleeslaaakalls 52
                             akk+++  ++++++++++++ek+a+++++a+++ + + ++a+k++++
  PHY93_18005|PHY93_18005 35 AKKATKKvATKATNKVVNTVEKVARKVAKATKKVAKKVAKATKKVAA 81
                             44444434999999999999999999999999999999999999987 PP

>> Senescence  Senescence-associated protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3  21.6   0.00026      0.31      74     146 ..       5      79 ..       1      81 [. 0.58

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00026
               Senescence  74 daagrvgaavaksvkkkgtk..sseeeskpgksekktaagevlnasldafstvldgleeaakqllsatsdattkv 146
                              +a+++v++++ k+v+kk tk   ++ ++k +k+ +k+ a +  n++++ + +v+  + +a+k++++ +++at kv
  PHY93_18005|PHY93_18005   5 KAVKKVAKKATKKVAKKATKkvAKKATKKVAKKATKKVATKATNKVVNTVEKVARKVAKATKKVAKKVAKATKKV 79 
                              333333333333333333332222444566666677778888888888888888888888888888888888777 PP

>> ATC_hydrolase  L-2-amino-thiazoline-4-carboxylic acid hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   9.3   0.00035      0.42       8      70 ..       6      67 ..       1      84 [. 0.72

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00035
            ATC_hydrolase  8 ilvalyealkkeigkeeakeiirkalerlgkergkklaekakakkdkadvekflalyseifek 70
                             +++ + ++++k+  k   k++++ka ++++k++ kk a+ka  +k  ++vek+++++ + ++k
  PHY93_18005|PHY93_18005  6 AVKKVAKKATKKVAKKATKKVAKKATKKVAKKATKKVATKAT-NKVVNTVEKVARKVAKATKK 67
                             556667777888888888999999999999999999988876.88888888888877444433 PP

>> YpjP  YpjP-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   9.4   0.00065      0.78       5      79 ..       9      83 ..       2      85 .] 0.68

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00065
                     YpjP  5 kllellleeaeeqsllKlGkkiaekiedefeeeilpkieevieellekveeekleeleisekpasgkgEkifhiy 79
                             k++++++++  +++ +K+ kk ++k+ ++ ++++  k  + + +++ekv ++ ++ ++   k+ ++ + k+  i+
  PHY93_18005|PHY93_18005  9 KVAKKATKKVAKKATKKVAKKATKKVAKKATKKVATKATNKVVNTVEKVARKVAKATKKVAKKVAKATKKVAAIV 83
                             556666777777777777777777777777777777777777777777776666655555556666777776665 PP

>> Prominin  Prominin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.4   7.6   0.00075       0.9     348     410 ..       6      70 ..       2      85 .] 0.49

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.00075
                 Prominin 348 eipekvknqtaevvpdlkkalak.greqikkla.kkiprealdavisdlenterssktfddvvek 410
                              ++++ +k+ t++v ++ +k++ak +++++ k a kk+ ++a+++v++++e++ r++ +++++v k
  PHY93_18005|PHY93_18005   6 AVKKVAKKATKKVAKKATKKVAKkATKKVAKKAtKKVATKATNKVVNTVEKVARKVAKATKKVAK 70 
                              45555666666666655544443133444433303344666666666666666665555444432 PP

>> DUF2252  Uncharacterized protein conserved in bacteria (DUF2252)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   9.5   0.00089       1.1     131     212 ..      11      75 ..       1      85 [] 0.34

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.00089
                  DUF2252 131 yeridvelleeatseeakgvvrkalekarkrtreklldklteleegkrrikddppkllrlseaereaieaalesyaetlpad 212
                               ++++ +++++at++ ak+  +k+++ka+k+                   +++++k+++  e+ ++++++a ++ a+++ ++
  PHY93_18005|PHY93_18005  11 AKKATKKVAKKATKKVAKKATKKVAKKATKKV-----------------ATKATNKVVNTVEKVARKVAKATKKVAKKVAKA 75 
                              11112222223333333333333333333333.................333333333333444444444444444443333 PP

>> DUF3878  Domain of unknown function, E. rectale Gene description (DUF3878)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   7.1    0.0014       1.7     177     235 ..       6      67 ..       2      81 .. 0.71

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.0014
                  DUF3878 177 ameelakevgdkdylkllerykkkptrklekelsrkLkskkraklyel...iykkvveasde 235
                              a++++ak++ +k   k  ++ +kk+t+k+ k+ ++k+++k  +k+ ++   + +kv +a+++
  PHY93_18005|PHY93_18005   6 AVKKVAKKATKKVAKKATKKVAKKATKKVAKKATKKVATKATNKVVNTvekVARKVAKATKK 67 
                              56778888888888888888888888888888888888877777665511145566666655 PP

>> SRI  SRI (Set2 Rpb1 interacting) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.4  25.7     0.004       4.8      12      83 ..       3      76 ..       1      81 [. 0.81

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.004
                      SRI 12 lakvVvnvlnkYrkklkkedfKklakeltkklvekElkkdksrdppkel..seekkkkikefvkeYmekfgaky 83
                             + k V++v +k  kk+ k   Kk+ak+ tkk+++k  kk  +++ +k +   e++ +k+ + +k+  +k+ +  
  PHY93_18005|PHY93_18005  3 VKKAVKKVAKKATKKVAKKATKKVAKKATKKVAKKATKKVATKATNKVVntVEKVARKVAKATKKVAKKVAKAT 76
                             67899999999999999**********************99763333224488888899988888888887655 PP

>> DUF1690  Protein of Unknown function (DUF1690)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6  14.0     0.002       2.4      39     114 ..      10      79 ..       2      84 .. 0.56

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.002
                  DUF1690  39 VaeeL.kkLraeeeetlkkfeeklekellkdeadakdelsskalnekieeLrkkleefkkkeeeklpeeveeareev 114
                              Va++  kk+    +++ kk+ +k +k+ +k+ +++  ++ ++++ + +e++ +k+++ +kk+ +k  ++++    +v
  PHY93_18005|PHY93_18005  10 VAKKAtKKV---AKKATKKVAKKATKKVAKKATKKVATKATNKVVNTVEKVARKVAKATKKVAKKVAKATK----KV 79 
                              333220222...55555555555555555555667777777788888888888888877777755544444....33 PP

>> PIN_8  PIN like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.1  11.5    0.0018       2.1      51     122 ..       7      73 ..       1      85 [] 0.30

  Alignments for each domain:
  == domain 1  score: 8.1 bits;  conditional E-value: 0.0018
                    PIN_8  51 viskekkayedlekel.eklkkaaekkleealkkwakkkald..teelrkelkkqleelkeelkaeleelkkssk 122
                              v +  kka+++++k+  +k+ k+a+k        + +kka++  ++++ +++ + +e++ +++ + ++++ k++ 
  PHY93_18005|PHY93_18005   7 VKKVAKKATKKVAKKAtKKVAKKATK--------KVAKKATKkvATKATNKVVNTVEKVARKVAKATKKVAKKVA 73 
                              22222333333333222333333333........22222222233333333333333333333111111111111 PP

>> DUF1178  Protein of unknown function (DUF1178)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3  14.7    0.0048       5.7      45     113 ..      12      79 ..       2      82 .. 0.66

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0048
                  DUF1178  45 kalmaprvakskkkaaeaaeaeaaaaaakaaaaaekekeleaalaelrrkveknsedVGerFaeeArki 113
                              k+  + +vak+++k+ +++++++ a++a+++ a+++++++ +++++++rkv+k +++V ++ a+  +k+
  PHY93_18005|PHY93_18005  12 KK-ATKKVAKKATKKVAKKATKKVAKKATKKVATKATNKVVNTVEKVARKVAKATKKVAKKVAKATKKV 79 
                              22.234555555555555555555555555555888899999999999999999999999999887765 PP

>> Rpp20  Rpp20 subunit of nuclear RNase MRP and P
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.7  22.4    0.0054       6.5      21     100 ..       3      81 ..       1      84 [. 0.80

  Alignments for each domain:
  == domain 1  score: 6.7 bits;  conditional E-value: 0.0054
                    Rpp20  21 vqklLeqaekrataslaleqkkkeekkklealekkeeelkkeeVfvkatGrAiekalsvgrwf...qeke.eykvrvetgsVev 100
                              v+k  +++ k+at+++a+    k+ kk +++ +kk ++++ ++V  kat + ++++ +v+r+    ++ +   kv   t+ V +
  PHY93_18005|PHY93_18005   3 VKKAVKKVAKKATKKVAK----KATKKVAKKATKKVAKKATKKVATKATNKVVNTVEKVARKVakaTK-KvAKKVAKATKKVAA 81 
                              677888888888888766....6666777778888899999**********************75333.358899999999876 PP

>> RapA_C  RNA polymerase recycling family C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.2  10.4    0.0078       9.3     242     302 ..      13      73 ..       2      83 .. 0.38

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.0078
                              SSS-B--S-STTTSTT-------STTSSTTSSS-SHHHHTTTTTTTTSSSHHHHHHHHHHH CS
                   RapA_C 242 ekgkdlsekvsfeslnkqlkkvkkklarklvkakrkeiekllkkaeklaeeqaeelieeak 302
                              +  k++++k +++  +k +kkv kk  +k++  +++++ + ++k  ++++++++++ ++  
  PHY93_18005|PHY93_18005  13 KATKKVAKKATKKVAKKATKKVAKKATKKVATKATNKVVNTVEKVARKVAKATKKVAKKVA 73 
                              3333334444444444444444444444443333333333333333333333333322222 PP

>> LMBR1  LMBR1-like membrane protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   6.3    0.0071       8.5     225     288 ..      14      76 ..       2      84 .. 0.34

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.0071
                    LMBR1 225 dllkevkklrksisesdplrkyleeilkkvPeeiaeklksnenkteeslaklekqlikalqkre 288
                               ++k +kk++k++ +++  +k+ ++  kkv +++++k+ ++ +k ++++ak +k++ k+++k  
  PHY93_18005|PHY93_18005  14 ATKKVAKKATKKVAKKA-TKKVAKKATKKVATKATNKVVNTVEKVARKVAKATKKVAKKVAKAT 76 
                              11122222222222222.2333333333333333333333444444444444444444444433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (85 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      4987  (0.278153); expected 358.6 (0.02)
Passed bias filter:                     1080  (0.0602376); expected 358.6 (0.02)
Passed Vit filter:                       221  (0.0123264); expected 17.9 (0.001)
Passed Fwd filter:                        45  (0.0025099); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.63u 0.27s 00:00:00.90 Elapsed: 00:00:00.44
# Mc/sec: 585.64
//
Query:       PHY93_18010|PHY93_18010  [L=97]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (97 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       215  (0.0119917); expected 358.6 (0.02)
Passed bias filter:                      191  (0.0106531); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 729.85
//
Query:       PHY93_07075|PHY93_07075  [L=440]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.6e-65  220.5   0.0    2.5e-65  219.9   0.0    1.3  1  Peptidase_U32  Peptidase family U32
    0.00076   20.1   0.6     0.0017   19.0   0.6    1.5  1  DUF3656        Collagenase


Domain annotation for each model (and alignments):
>> Peptidase_U32  Peptidase family U32
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  219.9   0.0   2.7e-69   2.5e-65       2     230 ..      77     292 ..      76     295 .. 0.94

  Alignments for each domain:
  == domain 1  score: 219.9 bits;  conditional E-value: 2.7e-69
            Peptidase_U32   2 eklrkyleklaelgvdavivqDpgvlelareeapelelhlStqanitnseavrflkelGasrvvlaRElsleeikaikekvp..dv 85 
                              ++l k+l++l + g d++ivqD+gv++++++++p +++h+Stq++++n  ++ fl + Ga+rv+l+REl+l ei  + e ++  d+
  PHY93_07075|PHY93_07075  77 PALIKLLNQLVNSGLDGIIVQDLGVFNIVNKYFPIFKIHASTQMTTHNEGQILFLNKIGATRVNLSRELNLPEITILSELAHqhDM 162
                              678999********************************************************************99888666669* PP

            Peptidase_U32  86 elEvfvhGalcvaysGrcllssylsgrsanrgecaqpcrldyrlieekekgeeepieedekgtyllspkdlclieelpelleaGvd 171
                               +EvfvhGalc+a+sG+c+ ss+  g+s+nrg+c+q+cr +y+   e+++g++          y l+ kd +++  lp+l++a vd
  PHY93_07075|PHY93_07075 163 LTEVFVHGALCIAFSGQCYSSSVSVGNSGNRGRCSQACRDEYE---ETATGNK----------YPLNLKDNSAYFFLPQLVDAKVD 235
                              ******************************************9...4443333..........89********************* PP

            Peptidase_U32 172 slKIeGRmkspeyvatvvrvYreaidallagreevkeelkeeleklanrgltsgfllgr 230
                              slK+eGR k+++yv+tvv+ +r+ id++++    ++ +   +l+k++nrg+ts fl g+
  PHY93_07075|PHY93_07075 236 SLKVEGRIKDAHYVYTVVESWRAQIDSFIKSG--KLLNDDSNLHKVFNRGFTSSFLTGN 292
                              *****************************999..8888889**************9886 PP

>> DUF3656  Collagenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.0   0.6   1.9e-07    0.0017      11      98 ..     338     438 ..     326     439 .. 0.80

  Alignments for each domain:
  == domain 1  score: 19.0 bits;  conditional E-value: 1.9e-07
                  DUF3656  11 eelekslekseerkipvdlelaakegeplkltvtde...........leeAkkrplteenirkqLsklGgtpFeleeiei.dld.g 83 
                              ++l+++l++ +  k +++++++ak + pl ++++++           l +A +  +te++++k ++  ++  + l  +++ ++d +
  PHY93_07075|PHY93_07075 338 AALAEKLKSLNLEKEELTISFSAKLDYPLIINARTSdknfeikssalLVQASEISITENELQKAFKNINNATYLLLPMDFtNFDkN 423
                              56667777755566677777777777777777765567788888889********************************9788856 PP

                  DUF3656  84 lfiPvseLnelRRea 98 
                              lf+P++e+++++ ++
  PHY93_07075|PHY93_07075 424 LFVPFKEIKAMKNQL 438
                              6*********98775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (440 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       578  (0.0322383); expected 358.6 (0.02)
Passed bias filter:                      391  (0.0218082); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.42
# Mc/sec: 3176.21
//
Query:       PHY93_05515|PHY93_05515  [L=61]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (61 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       487  (0.0271627); expected 358.6 (0.02)
Passed bias filter:                      359  (0.0200234); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.39u 0.24s 00:00:00.63 Elapsed: 00:00:00.41
# Mc/sec: 448.75
//
Query:       PHY93_07080|PHY93_07080  [L=219]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.7e-12   45.8   3.4    1.4e-11   45.3   3.4    1.2  1  Metallophos      Calcineurin-like phosphoesterase
    4.2e-09   36.8   0.2    1.1e-08   35.4   0.2    1.6  1  Metallophos_2    Calcineurin-like phosphoesterase superfamily
    4.8e-05   22.8   0.0    0.00097   18.5   0.0    2.0  2  Metallophos_3    Metallophosphoesterase, calcineurin superfam
  ------ inclusion threshold ------
      0.071   11.7   0.0      0.089   11.4   0.0    1.1  1  MutL             MutL protein
       0.12   11.9   0.0       0.17   11.4   0.0    1.2  1  Glycos_transf_1  Glycosyl transferases group 1


Domain annotation for each model (and alignments):
>> Metallophos  Calcineurin-like phosphoesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.3   3.4   3.8e-15   1.4e-11       1     203 [.       1     176 [.       1     177 [. 0.61

  Alignments for each domain:
  == domain 1  score: 45.3 bits;  conditional E-value: 3.8e-15
                              EEEEEEESBTBTTCCTHHHHHHHHHHHHHHHTTESEEEEESTSSSSS......HHHHHHHHHHHHHHHHTSEEEEEC-TTSCHHHH CS
              Metallophos   1 lrilvigDlHlalgggqlddllkllddllreekpdlvllaGDlvdrg......dlekellellaalvkypipvylllGNHegfeee 80 
                              +++++++D+H      ++ +++         ++ d+++++GDl++rg      d++k ++++l++ +k     ++++GNH+ f  +
  PHY93_07080|PHY93_07080   1 MKLTFFSDTH-----NRHKKIEF--------SGGDVLVFCGDLTNRGelsqvkDFSK-FVKNLDYQYK-----IIIAGNHD-FCFD 66 
                              5677777777.....33333332........388*************5555544444.4444455555.....********.4333 PP

                              HHHHHHHHHHHHHHHEHHHCEEETSEEEEEETTE..EEEEEEESECEEETHHHHHHHHHHHSCHHHHCC.HHHHHHHHHHTTCSEE CS
              Metallophos  81 llnkygylgifsepwrsdaevfnnlplaslgsgs..lkvlllhGgspellvsldklgslnleleapepg.dewlkdlekrekadwv 163
                               ++k++ ++     + +d    + ++l++ g     +k++  +         +     +n+ + ++ ++ ++++        +d++
  PHY93_07080|PHY93_07080  67 DQRKETAEE----YFLND----GLIYLNDSGIEIegIKFWGSPIQ------PWFHDWAFNRSRGEEIKKhWDLIP-------TDTD 131
                              344433333....33333....44444442222233577777776......455555555555555533355555.......59** PP

                              EEEESSESS......CSSSCSCCHHHHHHH.HHHTTESEEEEESSSS CS
              Metallophos 164 ivlgHsply......rgsgylfgdealedl.lkkygvdlvisGHtHv 203
                              ++++H p+       ++++ +  ++ le++ + +++  +  +GH+H+
  PHY93_07080|PHY93_07080 132 VLITHGPPFgildlcSHGERVGCNDLLETIiKIRPR--IHAFGHIHE 176
                              *********999998777777777778877455555..6668****7 PP

>> Metallophos_2  Calcineurin-like phosphoesterase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.4   0.2   3.1e-12   1.1e-08       1     147 [.       1     195 [.       1     200 [. 0.70

  Alignments for each domain:
  == domain 1  score: 35.4 bits;  conditional E-value: 3.1e-12
            Metallophos_2   1 MklaiiSDlHsnldaleavlealkevgvdaiihaGDl.eeeepevleellela......pvlaVrGNnD................. 62 
                              Mkl ++SD+H++ + +     ++++   d ++++GDl + +e++ ++++ +          +++ GN+D                 
  PHY93_07080|PHY93_07080   1 MKLTFFSDTHNRHKKI-----EFSGG--DVLVFCGDLtNRGELSQVKDFSKFVknldyqYKIIIAGNHDfcfddqrketaeeyfln 79 
                              9*********333222.....45677..*********999999888888888888899666789*****99999999999999999 PP

            Metallophos_2  63 .....................eevveedvlreaaelgtdl..........peeaelel..agekvlliHgdpl............g 103
                                                   +           +++ +d           +++ +  l   +++vl++Hg p             g
  PHY93_07080|PHY93_07080  80 dgliylndsgieiegikfwgsP----------IQPWFHDWafnrsrgeeiKKHWD--LipTDTDVLITHGPPFgildlcshgervG 153
                              9999988887755555555441..........33333333333322221122222..12355668888888778888888855555 PP

            Metallophos_2 104 vkdalaellkeaeegsdvvvcGHtHvp.evekeggvlvvnPGsvg 147
                               +d l+  +k    + ++ ++GH+H+  ++ + +++l++n+  ++
  PHY93_07080|PHY93_07080 154 CNDLLETIIKI---RPRIHAFGHIHEGhGCLRVDKTLFINACNLE 195
                              55555555555...566*********87899999******87665 PP

>> Metallophos_3  Metallophosphoesterase, calcineurin superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.0     0.026        93      26      47 ..      14      34 ..       6      68 .. 0.75
   2 !   18.5   0.0   2.7e-07   0.00097     176     239 ..     131     196 ..     118     201 .. 0.83

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.026
                             HHHHHH--SEEEEES-----HH CS
            Metallophos_3 26 eviedkdpDllvlvGdlvkaea 47
                             ++ie  + D+lv+ Gdl  +++
  PHY93_07080|PHY93_07080 14 KKIEFSGGDVLVFCGDLT-NRG 34
                             67888899********95.444 PP

  == domain 2  score: 18.5 bits;  conditional E-value: 2.7e-07
                              EEEEESS--S-SST.BTTBS---S-HHHHHHHHHH--SEEEE-SS--EE..EEETTEEEEE--BGGG CS
            Metallophos_3 176 kvlllatpPigelv.adkglkekgsevvaelvktlnPevvvvghavkeh..eelgktlvvnPGalee 239
                               vl+ + pP g l+   +g +  g + + e + +++P++   gh + +h    ++ktl +n  +lee
  PHY93_07080|PHY93_07080 131 DVLITHGPPFGILDlCSHG-ERVGCNDLLETIIKIRPRIHAFGHIHEGHgcLRVDKTLFINACNLEE 196
                              6999**********55566.566655555555569**************8889********999987 PP

>> MutL  MutL protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   2.5e-05     0.089     103     161 ..       3      62 ..       1      69 [. 0.91

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 2.5e-05
                     MutL 103 vlageltredleelrelrpdiiLLaGG.tDgGnkevllenAellaeaklklpviyAGNka 161
                               + + +t+++ ++++    d+++++G  t+ G+ + +    + + +++ ++ +i+AGN +
  PHY93_07080|PHY93_07080   3 LTFFSDTHNRHKKIEFSGGDVLVFCGDlTNRGELSQVKDFSKFVKNLDYQYKIIIAGNHD 62 
                              566778999999**************97899***************************87 PP

>> Glycos_transf_1  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   4.6e-05      0.17       7      79 ..      14      86 ..       8      91 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 4.6e-05
                             HHTTTTTT-EEEEEESS-TTTTTHHHHHHHHHCCCCCHCSCEEEEEES...STTHHHHHHHHHHHCTTCGGGEEE CS
          Glycos_transf_1  7 kklgknekkkiilsvgrlekeKgvdllikafallkkqlnpnvklviaG..ngeeekelkklaeelelsdnviflg 79
                             kk ++ ++  ++++ g l+++  +++ +k f ++ k+l+ ++k++iaG  +    ++ k+ aee+ l+d +i+l 
  PHY93_07080|PHY93_07080 14 KKIEF-SGGDVLVFCGDLTNRGELSQ-VKDFSKFVKNLDYQYKIIIAGnhDFCFDDQRKETAEEYFLNDGLIYLN 86
                             44444.67778888888888666665.56677788999**********77666899*************999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (219 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       310  (0.0172904); expected 358.6 (0.02)
Passed bias filter:                      287  (0.0160076); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.49u 0.19s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1627.45
//
Query:       PHY93_07085|PHY93_07085  [L=213]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.074   13.2   0.0       0.13   12.4   0.0    1.4  1  AbiEi_4   Transcriptional regulator, AbiEi antitoxin
        0.9   10.1   3.1        8.8    6.9   0.1    2.9  3  ANAPC2    Anaphase promoting complex (APC) subunit 2


Domain annotation for each model (and alignments):
>> AbiEi_4  Transcriptional regulator, AbiEi antitoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.0   1.4e-05      0.13      13      48 ..      17      58 ..      10      59 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 1.4e-05
                  AbiEi_4 13 lfttrel.......eaaGispsalrrLvrkGwLvrlrrGvYal 48
                             +ft+++l       ++  i+  +l+++ ++G L + +rGvY l
  PHY93_07085|PHY93_07085 17 IFTDEDLklilpetTEEKIHN-SLSYHFKQGHLKKYKRGVYSL 58
                             89*****99999988899999.6******************66 PP

>> ANAPC2  Anaphase promoting complex (APC) subunit 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.8   0.2      0.02   1.8e+02      33      60 .]      30      58 ..       8      58 .. 0.80
   2 ?   -2.9   0.0       1.2     1e+04      22      49 ..     111     138 ..     111     139 .. 0.69
   3 ?    6.9   0.1   0.00099       8.8      22      53 ..     163     194 ..     160     199 .. 0.82

  Alignments for each domain:
  == domain 1  score: 2.8 bits;  conditional E-value: 0.02
                   ANAPC2 33 isdeeLkefLdelvkegkLe.lsgGkYkL 60
                              ++e++++ L+   k+g L+ ++ G Y+L
  PHY93_07085|PHY93_07085 30 TTEEKIHNSLSYHFKQGHLKkYKRGVYSL 58
                             56777888888888888888888888876 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 1.2
                   ANAPC2  22 kmfvpkdegydisdeeLkefLdelvkeg 49 
                              kmf ++++ +++s + +  f    vk++
  PHY93_07085|PHY93_07085 111 KMFKTTEGIFSFSHSPVTPFFLDVVKDE 138
                              6777667777788887777777777766 PP

  == domain 3  score: 6.9 bits;  conditional E-value: 0.00099
                   ANAPC2  22 kmfvpk.degydisdeeLkefLdelvkegkLel 53 
                              km +   +++  i+ +eLk++L++  + + L l
  PHY93_07085|PHY93_07085 163 KMIS-DlEDDLRIDLDELKQYLTSYEASEILSL 194
                              6776.6688999************999998875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (213 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       554  (0.0308997); expected 358.6 (0.02)
Passed bias filter:                      356  (0.0198561); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.39
# Mc/sec: 1622.72
//
Query:       PHY93_07090|PHY93_07090  [L=278]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.3e-29  102.5   0.4    4.2e-29  102.2   0.4    1.1  1  AbiEii    Nucleotidyl transferase AbiEii toxin, Type IV TA sy


Domain annotation for each model (and alignments):
>> AbiEii  Nucleotidyl transferase AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  102.2   0.4   2.3e-33   4.2e-29       2     230 ..      32     257 ..      31     266 .. 0.81

  Alignments for each domain:
  == domain 1  score: 102.2 bits;  conditional E-value: 2.3e-33
                   AbiEii   2 lLfalslsaladklvFkGGTaLslayglipRfSeDIDlsllr.....gdrkellealkealeeiaaalaeeglkvklaasigege. 81 
                              +L++l ++ ++++  F GGT+L++ +g ++RfSeD+D+sl +     ++ +++l++    ++++  +l    + +k+ + + +++ 
  PHY93_07090|PHY93_07090  32 ALYSLYKAGFFQNACFLGGTSLRILHG-LDRFSEDLDFSL-WkedqaFSLDDYLDKAMVYMNAYGYDLS---FDKKDLSDKAVQSr 112
                              588888999******************.***********9.6674444444444444444444444444...44444433333336 PP

                   AbiEii  82 ..dyeglrlrypaef..ggyarqkikieigfreavppaerreippyleelggpafevpvysleellaeKllalldrgrdrsraRDl 163
                                + + ++  ++ ++  + ++++kikiei ++   pp++     +y+ ++   +f v +y+l + + +K++all  +r++ ++RD+
  PHY93_07090|PHY93_07090 113 flKDDSIKNVLTFQHikDTRSKIKIKIEIDTN---PPVGADRSVEYVNFP--LDFPVSAYDLKSCMSGKIHALL--CRPYVKGRDW 191
                              78888888889999988999999999999888...677888888888888..889*******************..********** PP

                   AbiEii 164 yDlalLleaeldaea..laeallaylasrgrpgelrlaplellreaeadealradwkaflamllggepd 230
                              yDl ++l++++ ++   l +al ++  + ++  e++ ++ +++++++++++   dwk+ ++++  ++++
  PHY93_07090|PHY93_07090 192 YDLLWYLSQDVTPNLafLKNALFQTGPWQNK--EIEWND-KFIKDELRKKIASIDWKKTREDVRKFLKS 257
                              ********99999998788************..999999.*****************999998777666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (278 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       591  (0.0329634); expected 358.6 (0.02)
Passed bias filter:                      374  (0.0208601); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.42
# Mc/sec: 2009.84
//
Query:       PHY93_07095|PHY93_07095  [L=407]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.6e-31  109.0   0.0    3.9e-31  108.4   0.0    1.2  1  tRNA-synt_2b    tRNA synthetase class II core domain (G, H, P
    4.1e-10   39.7   0.0    7.2e-10   38.9   0.0    1.4  1  HGTP_anticodon  Anticodon binding domain


Domain annotation for each model (and alignments):
>> tRNA-synt_2b  tRNA synthetase class II core domain (G, H, P, S and T)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  108.4   0.0   4.3e-35   3.9e-31       7     177 ..      90     302 ..      84     304 .. 0.94

  Alignments for each domain:
  == domain 1  score: 108.4 bits;  conditional E-value: 4.3e-35
                              TSEEEEE-SSSHHHHHHHHHHHEEEBGG.SSEEEEEEEEEEBTTTS.TBCTTTB-SEEEEEEEEEEESGGGHHHHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             tRNA-synt_2b   7 ndreyiLkPtneetfvelirdevlrskr.LPlklyqiqtkyRdEks.dsrGLlRvreFhqkdgyvfhaeaslddslrdlikaisri 90 
                              ++ +y+L+P+n++ + ++++    rs+r LPl+l++++ +yR E+s ++rGL Rvr++ q+dg+++  +++++d++ +++++ +  
  PHY93_07095|PHY93_07095  90 DHSSYYLRPMNCPHHHKIFSSV-PRSYReLPLRLAEYGQVYRFEASgALRGLSRVRGLCQNDGHIYIDPEKAKDEILKVLQLHESC 174
                              4579****************65.8**888*****************9*************************************** PP

                              HHHTT.SCEEEEEEGTTSC.....................................BTTSEEEEEEEEE...TTTSEEEEEEEEEE CS
                              xxxxxxxxxxxxxxxxxxx.....................................xxxxxxxxxxxxx...xxxxxxxxxxxxxx RF
             tRNA-synt_2b  91 ferlglefraiielmsaks.....................................adykdkkefeavs...esltkgieigtiqk 136
                              +++lgl  ++ +++ ++ +                                     a+y++k ++++ +   ++++k+  i++iq 
  PHY93_07095|PHY93_07095 175 YKSLGLVGYHYRLSKHDSNnvselegslenwlisenilrecliemnldfyeeageaAFYGPKIDIQMKFyneNQSNKEESISSIQL 260
                              *************9887778999******************************************997633356899999****** PP

                              EETHHHHHTTEEEECTTSSEEEEEEEEEE.EE.HHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xx.xxxxxxxxxx RF
             tRNA-synt_2b 137 lgtrlserlgatvldennreksvimicaa.ig.veRllsaile 177
                              + +  +er++++++++ +++ ++ +i++a +g  eR+++++le
  PHY93_07095|PHY93_07095 261 D-FLSPERFDLEFINSLQQKIRPWIIHRApLGsHERFIALLLE 302
                              *.***************************************98 PP

>> HGTP_anticodon  Anticodon binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.9   0.0     8e-14   7.2e-10       1      87 [.     316     397 ..     316     404 .. 0.90

  Alignments for each domain:
  == domain 1  score: 38.9 bits;  conditional E-value: 8e-14
                              SEEEEESSSSHHHHHHHHHHHHHHHHTTTSEEEEESSSSTHHHHHHHHHHTT-SEEEEE-HHHHHHTEEEEEETTTCEEEEEETTH CS
           HGTP_anticodon   1 qvvviplnekaeeleeyakklaeeLraagirvelddsnesigkkireadllgipfavvvGekelekgtvtvrdrdtreqervslde 86 
                              q ++ip+n+      e+a+k++e L a+g+r+++d+++ s+gk+i+  ++l      v+G+ke+++++ +++ rd +e   v+++e
  PHY93_07095|PHY93_07095 316 QLLLIPVNK---SSYELAQKIQEMLMAEGVRIKIDNRSASLGKRIALGRKLRPFSFAVIGDKEINSEKFKIQFRDCDEI--VPYSE 396
                              6789*****...899*************************************************99********98775..55555 PP

                              H CS
           HGTP_anticodon  87 l 87 
                              l
  PHY93_07095|PHY93_07095 397 L 397
                              5 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (407 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       553  (0.0308439); expected 358.6 (0.02)
Passed bias filter:                      473  (0.0263818); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.41
# Mc/sec: 2948.49
//
Query:       PHY93_07100|PHY93_07100  [L=48]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
     0.0013   19.3   0.0     0.0013   19.3   0.0    1.0  1  Metallophos  Calcineurin-like phosphoesterase


Domain annotation for each model (and alignments):
>> Metallophos  Calcineurin-like phosphoesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.3   0.0   7.3e-08    0.0013      26      73 ..       2      48 .]       1      48 [] 0.71

  Alignments for each domain:
  == domain 1  score: 19.3 bits;  conditional E-value: 7.3e-08
                             HHHHHHTTESEEEEESTSSSSS..HHHHHHHHHHHHHHHHTSEEEEEC-T CS
              Metallophos 26 ddllreekpdlvllaGDlvdrg..dlekellellaalvkypipvylllGN 73
                             +dl ++ + d+++ +GDl+ rg  +  ke+ e+++ l     ++++++GN
  PHY93_07100|PHY93_07100  2 KDLSSR-RGDVLVYCGDLTTRGalPEVKEFSEFIKNLNY--RHKIVIAGN 48
                             566666.99*************65444445555555544..577*****9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (48 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       437  (0.0243739); expected 358.6 (0.02)
Passed bias filter:                      403  (0.0224776); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.27s 00:00:00.76 Elapsed: 00:00:00.54
# Mc/sec: 268.70
//
Query:       PHY93_07105|PHY93_07105  [L=71]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.8e-11   42.3   0.1    9.5e-11   41.6   0.0    1.4  2  HTH_3          Helix-turn-helix
    3.7e-05   23.6   0.2    4.1e-05   23.5   0.2    1.0  1  HTH_37         Helix-turn-helix domain
    5.2e-05   23.5   0.0    5.9e-05   23.3   0.0    1.0  1  HTH_31         Helix-turn-helix domain
      6e-05   23.0   0.3      9e-05   22.4   0.0    1.4  2  HTH_19         Helix-turn-helix domain
     0.0043   17.5   0.2     0.0062   16.9   0.2    1.4  1  HTH_26         Cro/C1-type HTH DNA-binding domain
     0.0094   15.9   0.1      0.016   15.1   0.1    1.6  1  Pou            Pou domain - N-terminal to homeobox domain
  ------ inclusion threshold ------
      0.032   14.1   0.0      0.045   13.7   0.0    1.2  1  MarR_2         MarR family
      0.033   14.4   0.2      0.042   14.0   0.2    1.2  1  Phage_DsbA     Transcriptional regulator DsbA
       0.07   12.9   0.1      0.079   12.7   0.1    1.2  1  Arg_repressor  Arginine repressor, DNA binding domain


Domain annotation for each model (and alignments):
>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       3.4   6.9e+03      13      17 ..      10      14 ..       2      15 .. 0.50
   2 !   41.6   0.0   4.8e-14   9.5e-11       1      51 [.      16      66 ..      16      69 .. 0.96

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 3.4
                             HHHHH CS
                    HTH_3 13 eeLAe 17
                              eLA+
  PHY93_07105|PHY93_07105 10 NELAK 14
                             45655 PP

  == domain 2  score: 41.6 bits;  conditional E-value: 4.8e-14
                             HHHHHHHTTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSE CS
                    HTH_3  1 lkelRkqlglsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvs 51
                             lke+Rk l ++q++LA+++++s + isriE  ++ + l+tl+k+ k+Lg +
  PHY93_07105|PHY93_07105 16 LKERRKDLAITQKDLARVCDLSHNGISRIEVADSDIKLSTLLKMGKFLGFK 66
                             8***********************************************965 PP

>> HTH_37  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.5   0.2   2.1e-08   4.1e-05      18      78 ..      11      70 ..       4      71 .] 0.94

  Alignments for each domain:
  == domain 1  score: 23.5 bits;  conditional E-value: 2.1e-08
                             HHHHHHHHHHHHCT--HHHHHHHHT--HHHHHHHHTT--TT--HHHHHHHHHHTTEEEEEE CS
                   HTH_37 18 qlalaiaeliekrelsqseaaqllgiaqPkvsrllrgklsrfsldkLlnlltalGqkveiv 78
                             +la+a++e ++++ ++q+++a+ +  ++  +sr++    s++ l++Ll++ + lG+k+ ++
  PHY93_07105|PHY93_07105 11 ELAKALKERRKDLAITQKDLARVCDLSHNGISRIE-VADSDIKLSTLLKMGKFLGFKIVLE 70
                             799********************************.799*****************99776 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.3   0.0     3e-08   5.9e-05       1      55 [.      11      64 ..      11      68 .. 0.90

  Alignments for each domain:
  == domain 1  score: 23.3 bits;  conditional E-value: 3e-08
                   HTH_31  1 aLGalLralReraGLsqeevAerlgvsestlsrlEqGrrgrpspavlealaralg 55
                             +L+  L+++R+   ++q+++A+ + +s   +sr+E +  +  ++++l ++   lg
  PHY93_07105|PHY93_07105 11 ELAKALKERRKDLAITQKDLARVCDLSHNGISRIEVADSD-IKLSTLLKMGKFLG 64
                             69999******************************99996.88888888777766 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0         3     6e+03       4      11 ..       2       9 ..       1      11 [. 0.62
   2 !   22.4   0.0   4.5e-08     9e-05       2      53 ..      14      64 ..      13      68 .. 0.90

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 3
                   HTH_19  4 LkeaReel 11
                             Lk+++++ 
  PHY93_07105|PHY93_07105  2 LKKIISNE 9 
                             67777665 PP

  == domain 2  score: 22.4 bits;  conditional E-value: 4.5e-08
                   HTH_19  2 erLkeaReelgltqeelaerlgisrskisaiEngkkdvpsaelllkiaealg 53
                             + Lke R+ l +tq++la+ ++ s + is iE   + +++ ++llk  ++lg
  PHY93_07105|PHY93_07105 14 KALKERRKDLAITQKDLARVCDLSHNGISRIEVADS-DIKLSTLLKMGKFLG 64
                             689*****************************9999.999999998777776 PP

>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.2   3.1e-06    0.0062       2      52 ..      16      65 ..       3      67 .. 0.90

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 3.1e-06
                   HTH_26  2 LrelmadrgitkseLargtgisaatlsrlvkgkpervsldtLdkiCdaLgc 52
                             L+e  +d  it+++Lar +++s + +sr+     + ++l+tL k  + Lg 
  PHY93_07105|PHY93_07105 16 LKERRKDLAITQKDLARVCDLSHNGISRIEVAD-SDIKLSTLLKMGKFLGF 65
                             6777788889*******************9998.6*********9998875 PP

>> Pou  Pou domain - N-terminal to homeobox domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.1   8.2e-06     0.016       8      30 ..      11      33 ..       6      60 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 8.2e-06
                      Pou  8 efakefkqkRiklgltQadvgla 30
                             e+ak++k++R  l +tQ+d+++ 
  PHY93_07105|PHY93_07105 11 ELAKALKERRKDLAITQKDLARV 33
                             89*****************9874 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   2.2e-05     0.045      21      41 ..      24      44 ..      10      44 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 2.2e-05
                             EEEHHHHHHHHTSSHHHHHHH CS
                   MarR_2 21 dltvgelarrlglsksavsri 41
                              +t+++lar ++ls+  +sri
  PHY93_07105|PHY93_07105 24 AITQKDLARVCDLSHNGISRI 44
                             45*****************98 PP

>> Phage_DsbA  Transcriptional regulator DsbA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.2   2.1e-05     0.042      11      46 ..       6      40 ..       2      56 .. 0.87

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 2.1e-05
               Phage_DsbA 11 idsereLikDiaiRakeelevdgkdFnkllklYhkd 46
                             i+ e+eL k ++ R k+ l +  kd  ++  l h  
  PHY93_07105|PHY93_07105  6 ISNENELAKALKERRKD-LAITQKDLARVCDLSHNG 40
                             899***********997.9*************9975 PP

>> Arg_repressor  Arginine repressor, DNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1     4e-05     0.079      16      55 ..       3      46 ..       1      59 [. 0.80

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 4e-05
                             HS---SHHHHHHHHHTTT--..--HHHHHH..HHHHHT-EEEET CS
            Arg_repressor 16 eekissQkelvelLkeeGid..vtQatvSR..dLkelglvkvra 55
                             ++ is+ +el+++Lke   d  +tQ  ++R  dL   g+ +++ 
  PHY93_07105|PHY93_07105  3 KKIISNENELAKALKERRKDlaITQKDLARvcDLSHNGISRIEV 46
                             567999*********9765555********77788777777765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (71 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       788  (0.0439511); expected 358.6 (0.02)
Passed bias filter:                      566  (0.031569); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.44u 0.26s 00:00:00.70 Elapsed: 00:00:00.46
# Mc/sec: 464.69
//
Query:       PHY93_07110|PHY93_07110  [L=417]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.2e-46  159.1   0.0    1.7e-46  158.6   0.0    1.2  1  HipA_C       HipA-like C-terminal domain
    7.6e-18   65.0   0.0    1.3e-17   64.3   0.0    1.4  1  Couple_hipA  HipA N-terminal domain


Domain annotation for each model (and alignments):
>> HipA_C  HipA-like C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  158.6   0.0   1.9e-50   1.7e-46       1     175 [.     145     340 ..     145     387 .. 0.83

  Alignments for each domain:
  == domain 1  score: 158.6 bits;  conditional E-value: 1.9e-50
                              CCSTSSSSEEEEEEC.......ETT---SEEEEE....ECETTCHHHHHHHHHHHHHTT--B--EEEEEETEEEEEEE-SSEEE.. CS
                   HipA_C   1 lslgGaqpKllladd.......kgeapsthIlKfs...ddlpdlvenEylcmrlakaaGldvaevelveveekallveRFDrrk.. 74 
                              ls++Gaq+K+ +  +        +++p+thI+K +   + ++++v nEy+cm+la ++G++v++v++++ ++++++veR+Drr+  
  PHY93_07110|PHY93_07110 145 LSIAGAQDKFPCIYEngkiylpMSGEPTTHIIKTPiimKGIKESVYNEYFCMSLADKIGFNVPKVSVIDGKHPLFVVERYDRRNie 230
                              59**********888******9779*********668777*****************************99999*********666 PP

                              ...EE--EEEHHHHCT--GGGCSCC..-.-HHHHHHHHCCCT.THH..HHHHHHHHHHHHHHHCTBTT--GGGSEEEECCCEEEE- CS
                   HipA_C  75 ...erlhqedacqllgldpeekYek..g.syeelakllrqls.ataseedleelfrrmvfniligNtDdHlKNfsllrgggrwrLa 153
                                  r+hq+d+cq+ g++++ekYe+  g s+++ ++l+ +   a+++ e   +l+++++fn+ligN+D H KN+s++  +g++ La
  PHY93_07110|PHY93_07110 231 gkvVRIHQQDFCQAQGVMSSEKYESdgGpSLASNYNLMVNKVsAKKRVESTFRLIDWVCFNLLIGNNDSHSKNLSFVLVDGKYDLA 316
                              7899*********************97477777776555444155569***************************8887788**** PP

                              -B-S--BSGCCTTT...ECCEECC CS
                   HipA_C 154 PaYDlvstaayedee..lalsigg 175
                              P+YDl+sta+y + +   + +igg
  PHY93_07110|PHY93_07110 317 PFYDLISTAIYPNLDssFSFKIGG 340
                              ***********5444667888866 PP

>> Couple_hipA  HipA N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.3   0.0   1.4e-21   1.3e-17       1      98 [.       4     100 ..       4     101 .. 0.96

  Alignments for each domain:
  == domain 1  score: 64.3 bits;  conditional E-value: 1.4e-21
                              EEEEETTEEEEEEEEETTTEEEEEE-HHHHH.TCS--SCTTC-TTSTEB-CHHHHHHHHTTSBSSHHHHHHHHHHTSSTTSHHHHH CS
              Couple_hipA   1 ldVflngervGalardeegvarFeydpafle.akgpelSlslplsaepytskglpgffanlLPegelrellarrrgisskdelelL 85 
                              l+Vf++++ vG  +++ee + +F+y+ ++l+ ++++++S+++pl + ++ +k + +ff+nlLPeg +r++l++ +++  + +++ L
  PHY93_07110|PHY93_07110   4 LNVFFEDKLVGIFSQNEEMIHSFQYSMEWLKnKNSFPISIAMPLGDSEFGNKVTLAFFENLLPEGNVRAMLEKWHHA--EGAFNTL 87 
                              79***************99****************************************************999988..789**** PP

                              HHHTTCESTTEEE CS
              Couple_hipA  86 aaiGadlmGalef 98 
                                +G+d++Gal +
  PHY93_07110|PHY93_07110  88 EKYGEDCAGALVI 100
                              **********976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (417 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       711  (0.0396564); expected 358.6 (0.02)
Passed bias filter:                      521  (0.0290591); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.57u 0.21s 00:00:00.77 Elapsed: 00:00:00.41
# Mc/sec: 3030.54
//
Query:       PHY93_07115|PHY93_07115  [L=105]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.045   13.7   0.0      0.079   12.9   0.0    1.4  1  TBPIP     TBPIP/Hop2 winged helix domain
       0.17   11.9   0.2       0.85    9.7   0.0    1.9  2  HTH_29    Winged helix-turn helix


Domain annotation for each model (and alignments):
>> TBPIP  TBPIP/Hop2 winged helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   8.8e-06     0.079      33      62 .]      27      56 ..      17      56 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 8.8e-06
                    TBPIP 33 tavqkaLdeLvdegkiieKeyGKqkiYlan 62
                              avqk  +  +++g +++K+ G + +Yl n
  PHY93_07115|PHY93_07115 27 SAVQKQFERFEEAGILVSKLVGRTRVYLFN 56
                             79*************************986 PP

>> HTH_29  Winged helix-turn helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   0.0   9.5e-05      0.85       7      41 ..       8      41 ..       2      52 .. 0.81
   2 ?    0.0   0.1     0.097   8.7e+02      47      55 ..      88      96 ..      79     102 .. 0.73

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 9.5e-05
                   HTH_29  7 llaeGvstvsqiAkllglsrrtvyrwlkrfeegGl 41
                              ++ + + +s +Ak +++  + v++  +rfee G+
  PHY93_07115|PHY93_07115  8 IHYGEIY-PSAVAKDYQIALSAVQKQFERFEEAGI 41
                             5555666.999***********************6 PP

  == domain 2  score: 0.0 bits;  conditional E-value: 0.097
                   HTH_29 47 rrrsgrprn 55
                             rrr++rp +
  PHY93_07115|PHY93_07115 88 RRRPRRPGK 96
                             778888865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (105 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       312  (0.017402); expected 358.6 (0.02)
Passed bias filter:                      295  (0.0164538); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.19s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 802.10
//
Query:       PHY93_07120|PHY93_07120  [L=183]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
     0.0019   17.9   0.2      0.011   15.4   0.1    1.9  2  DUF2204       Nucleotidyl transferase of unknown function (DU
  ------ inclusion threshold ------
       0.15   11.7   0.0       0.39   10.3   0.0    1.7  1  NTP_transf_5  Uncharacterised nucleotidyltransferase


Domain annotation for each model (and alignments):
>> DUF2204  Nucleotidyl transferase of unknown function (DUF2204)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.1   1.2e-06     0.011       8      44 ..      23      59 ..      16      75 .. 0.87
   2 ?    0.4   0.0     0.048   4.3e+02     108     126 ..     112     130 ..     104     166 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 1.2e-06
                  DUF2204  8 vlkvLeekgvkfvviGgtvvelalgrkrlekDvDlFi 44
                             v+  L++kg++ v++Gg+vv +  +  + ++D+D+  
  PHY93_07120|PHY93_07120 23 VAVHLKKKGIDTVLVGGAVVAIYSKGAYRSGDLDFVK 59
                             6778******************************865 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.048
                  DUF2204 108 keveiggvevkvislEdyi 126
                              +eve++g  +k++s+ d +
  PHY93_07120|PHY93_07120 112 DEVEVNGTVIKILSPTDCV 130
                              578999*****99998865 PP

>> NTP_transf_5  Uncharacterised nucleotidyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0   4.4e-05      0.39      65     123 ..      25      81 ..      12     131 .. 0.84

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 4.4e-05
             NTP_transf_5  65 alleeegipvllLKGpalaqlYpdpalRemgDiDllvkredldraeelLeelGyelesd 123
                                l+++gi+++l+ G+++a +Y + a R  gD+D+      + + +e ++elG+  +++
  PHY93_07120|PHY93_07120  25 VHLKKKGIDTVLVGGAVVA-IYSKGAYRS-GDLDFVKTSMFVTKLDETMKELGFIKHGR 81 
                              5699*********999987.899999995.6***9998888*************88776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (183 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       425  (0.0237046); expected 358.6 (0.02)
Passed bias filter:                      398  (0.0221987); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1365.06
//
Query:       PHY93_07125|PHY93_07125  [L=180]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    3.1e-12   46.8   0.0    5.9e-12   45.9   0.0    1.4  2  AAA_33      AAA domain
      1e-06   28.2   0.0    1.1e-06   28.0   0.0    1.2  1  Zeta_toxin  Zeta toxin
    0.00012   22.0   1.0       0.11   12.3   0.2    2.3  2  dNK         Deoxynucleoside kinase
    0.00015   22.3   0.3    0.00043   20.8   0.3    1.7  1  AAA_18      AAA domain
     0.0027   18.1   0.0     0.0078   16.6   0.0    1.8  1  AAA_17      AAA domain
     0.0051   16.7   0.0     0.0076   16.1   0.0    1.3  1  CPT         Chloramphenicol phosphotransferase-like protein
  ------ inclusion threshold ------
      0.015   15.5   0.0      0.032   14.5   0.0    1.8  1  AAA_28      AAA domain
      0.016   15.3   0.1      0.031   14.3   0.1    1.5  1  AAA_14      AAA domain
      0.021   14.7   0.0      0.035   14.0   0.0    1.4  1  NACHT       NACHT domain


Domain annotation for each model (and alignments):
>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.9   0.0     3e-15   5.9e-12       1     140 [.       7     148 ..       7     151 .. 0.92
   2 ?   -1.8   0.0       1.6   3.2e+03      89     110 ..     150     171 ..     145     171 .. 0.79

  Alignments for each domain:
  == domain 1  score: 45.9 bits;  conditional E-value: 3e-15
                   AAA_33   1 lvllvGlpGsGKstlaerllkklgavllssdtlrrrlfg.tdqqsktdytrvldrlyqilnelarkalsagrnvildatnlsrrer 85 
                              ++++ G +++GKs+l+++l +kl+   +s d+++++lf+  +  + ++++++    y   + +++k l+ ++++i+ + +  + + 
  PHY93_07125|PHY93_07125   7 VIIINGNSCTGKSYLLHKLTQKLDLPNVSRDEFKEMLFEqMGIGDAEWSKKLGGMSYSLFFMTIEKLLKTKKSFIIENNFNPKIHS 92 
                              7999**********************************95444477788889999************************9999999 PP

                   AAA_33  86 arflklarrlgvpvrivvvetdeetlkeRlakRaang.ddrsevpeealdrqkarf 140
                              +++ +l+++++++   +++e+d++++  R++kR ++g ++r +++ e ++++  ++
  PHY93_07125|PHY93_07125  93 QALKSLLEKFDYESMEIFLEADPAVILNRHKKRWESGeRHRGHADNERFEEFEMKL 148
                              ***********************************99678999******9998765 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 1.6
                   AAA_33  89 lklarrlgvpvrivvvetdeet 110
                               ++a  l+v +ri+ ++t+++t
  PHY93_07125|PHY93_07125 150 EEVAVPLNVSERIIRIDTSDFT 171
                              5678889999999999999865 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.0   0.0   5.8e-10   1.1e-06      14     169 ..       3     151 ..       1     177 [. 0.84

  Alignments for each domain:
  == domain 1  score: 28.0 bits;  conditional E-value: 5.8e-10
               Zeta_toxin  14 erPklillgGqpGAGKselaellkdelerqgnvvrldpDdlRelhPeyeeilkadpkkaseltqkdaselvekllqeaiengynii 99 
                               +P +i++ G +  GKs+l+++l+++l    +   +++D+++e+   +e+ +   ++++s+     ++ l  ++++++++ + ++i
  PHY93_07125|PHY93_07125   3 TTPQVIIINGNSCTGKSYLLHKLTQKL----DLPNVSRDEFKEML--FEQ-MGIGDAEWSKKLGGMSYSLFFMTIEKLLKTKKSFI 81 
                              58************************9....68899********9..777.8889******************************* PP

               Zeta_toxin 100 vegtlrspdvvkklaealkkaGYevevvvvavkkelSrlgvldRyeeevaegR.lvpkeehdeafeglres 169
                              +e  +      + l+  l+k  Ye   +++ +++++   + ++R e   ++ R  ++ e+++e   +l+e+
  PHY93_07125|PHY93_07125  82 IENNFNPKIHSQALKSLLEKFDYESMEIFLEADPAVILNRHKKRWESG-ERHRgHADNERFEEFEMKLKEE 151
                              *****8777777799999999999999999999999888888887777.2222145555555555555555 PP

>> dNK  Deoxynucleoside kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.7   0.0   0.00072       1.4       1      58 [.       8      60 ..       8      86 .. 0.63
   2 !   12.3   0.2   5.6e-05      0.11     107     186 ..      89     171 ..      78     178 .. 0.80

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 0.00072
                             EEEEESTTSSHHHHHHHHHCCST.CEEEE-HHHHCCSSSSHHHHHHHHSHHHHHHHHHH CS
                      dNK  1 ivveGnIgaGKstlvklLskklg.vkvfeEpvdkwtnvqknlLekfYkdpsrwsfalqt 58
                             i ++Gn   GKs l++ L++kl+  +v +++ ++       l e++    ++ws +l  
  PHY93_07125|PHY93_07125  8 IIINGNSCTGKSYLLHKLTQKLDlPNVSRDEFKEM------LFEQMGIGDAEWSKKLGG 60
                             789*******************9444444443333......445555555555555555 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 5.6e-05
                              HHHHHHHHHHHHHCCH-SEEEEEE--HHHHHHHHHHCTTCCCT...TS-HHHHHHHHHHHHHHHTSGGCS-EEEEETSS.-TT CS
                      dNK 107 kiykelldnlleelakpdlliYLkasletclerikkRgreeek...kieldYlekLhekyeewlkklnevpvlvidveeldlv 186
                              ki ++ l+ lle++++ ++ i+L+a++ ++l+r kkR ++ e    + + + +e+ + k +e ++   +v+  +i+++  d+ 
  PHY93_07125|PHY93_07125  89 KIHSQALKSLLEKFDYESMEIFLEADPAVILNRHKKRWESGERhrgHADNERFEEFEMKLKEEVAVPLNVSERIIRIDTSDFT 171
                              567788899999***9************************9997777777777777777777777666666667777776665 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.8   0.3   2.1e-07   0.00043       1     124 [.       8     139 ..       8     148 .. 0.75

  Alignments for each domain:
  == domain 1  score: 20.8 bits;  conditional E-value: 2.1e-07
                   AAA_18   1 IlltGtpGvGKttlakeLskrlgf....gvnlrdvakenglllevdpe.....aldeskrldedkldklldaleenssaleegknl 77 
                              I+++G +++GK+ l + L ++l +     ++ +++++e +   + ++      +  +   + ++kl k  + +   ++ + + ++ 
  PHY93_07125|PHY93_07125   8 IIINGNSCTGKSYLLHKLTQKLDLpnvsRDEFKEMLFEQMGIGDAEWSkklggMSYSLFFMTIEKLLKTKKSFIIENNFNPKIHSQ 93 
                              9*****************99988878898999999999888888777767777555555666666666666666555545555555 PP

                   AAA_18  78 vidghlaeleseaakdikkvvLtaspeelleRlekRgyeeakik...ene 124
                               + ++l+++ +e++     ++L+a+p + l R +kR ++  + +   +ne
  PHY93_07125|PHY93_07125  94 ALKSLLEKFDYESME----IFLEADPAVILNRHKKRWESGERHRghaDNE 139
                              888888888888777....****************976555544555333 PP

>> AAA_17  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0   3.9e-06    0.0078       5     127 ..      15     130 ..      12     142 .. 0.70

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 3.9e-06
                              TSSHHHHHHHHHHHHTEEEEEHHHHHHHHHHTTTSHSSHHHHCTSHHHHHHHHHHHHHHHHHHHHHSSEEEEEE-SEEEETTEEEE CS
                   AAA_17   5 GsGKgtqceklvekygfthlsaGdllreeakrgglakardemrklpleekkelqkeaaekiaeeakkkgvlvdghprikeqagfld 90 
                                GK+ ++ kl +k++++ +s  d + e+  ++  + + +  +kl       +  + +ek+ +   kk ++++  +  k  +++l+
  PHY93_07125|PHY93_07125  15 CTGKSYLLHKLTQKLDLPNVS-RDEFKEMLFEQMGIGDAEWSKKLGGMSYSLF-FMTIEKLLK--TKKSFIIENNFNPKIHSQALK 96 
                              579*****************9.5666666555544456666667765555544.455555665..4789*****997666666555 PP

                              SSHHHHHHHH...SEEEEEE--HHHHHHHHHHHTTST- CS
                   AAA_17  91 glpkevleelkp.daiilleadpeeilerrlkdrtrgr 127
                               l     e++++ ++ i+leadp +il+r +k+ ++g 
  PHY93_07125|PHY93_07125  97 SLL----EKFDYeSMEIFLEADPAVILNRHKKRWESGE 130
                              555....567765799*****************76554 PP

>> CPT  Chloramphenicol phosphotransferase-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   3.8e-06    0.0076       2     139 ..       6     137 ..       5     154 .. 0.72

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 3.8e-06
                              -EEEEEE-TTSSHHHHHHHHHHHSSS-EEEEEHHHHHHHS-GGGGTSTTSEEEETTSEEE-HHHHHHHHHHHHHHHHHHHTT-EEE CS
                      CPT   2 riilLnGgsssGKsslaralqevldepwlhlgvDafvealppkrqdeadglefeteleeigpeldlllaalyeavaamaraGnnvi 87 
                              ++i++nG s +GKs l + l + ld p  ++  D+f e+l  ++   ++  e++      +++  + ++ +  +++  +++ +  i
  PHY93_07125|PHY93_07125   6 QVIIINGNSCTGKSYLLHKLTQKLDLP--NVSRDEFKEMLFEQMGIGDA--EWS------KKLGGMSYSLFFMTIEKLLKTKKSFI 81 
                              69***********************99..899******98888876554..566......34444555555566666777777888 PP

                              EEE--TTTHHHHHHHHHHHTTS-EEEEEE..E--HHHHHHHHHHH...TSSSTTHHH CS
                      CPT  88 vDdvilekewlvdllrrllsgldvllVGv..rcplevlerReler...gdRepGlaa 139
                              + + +  k + +++l++ll+++d     +   ++ +v+ +R  +r   g+R+ G a 
  PHY93_07125|PHY93_07125  82 IENNFNPKIH-SQALKSLLEKFDYESMEIflEADPAVILNRHKKRwesGERHRGHAD 137
                              8877776665.7788888888887555541145555777776665333557777665 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0   1.6e-05     0.032       2      48 ..       8      54 ..       7     161 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 1.6e-05
                   AAA_28  2 ivitGgestGKTtlleaLaar.gypvv.pEaareileeklakgedalpw 48
                             i+i G ++tGK+ ll +L+++ + p v ++ + e+l+e++  g    +w
  PHY93_07125|PHY93_07125  8 IIINGNSCTGKSYLLHKLTQKlDLPNVsRDEFKEMLFEQMGIGDA--EW 54
                             8999***************99887766588888999898866553..45 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.1   1.5e-05     0.031       3      89 ..       6     101 ..       4     122 .. 0.68

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 1.5e-05
                   AAA_14   3 kilvitGaRrvGKTtllkqlikell...vkkesilyinldderdkkladpe.....kllelileklke..ekktylflDEiqevpe 78 
                              ++++i G   +GK++ll++l ++l    v+++++ ++ +++    +++ ++     ++  +++  +++  + k+ +++    + + 
  PHY93_07125|PHY93_07125   6 QVIIINGNSCTGKSYLLHKLTQKLDlpnVSRDEFKEMLFEQMGIGDAEWSKklggmSYSLFFMT-IEKllKTKKSFIIENNFNPKI 90 
                              789******************9999999999999999999977744443332334322222222.222333455566666666666 PP

                   AAA_14  79 wekalkslvde 89 
                               ++alksl+++
  PHY93_07125|PHY93_07125  91 HSQALKSLLEK 101
                              66667776664 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   1.7e-05     0.035       2      39 ..       7      44 ..       6      66 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.7e-05
                             CEEEEC-TTTCHHHHHHHHHHHHCTS-SCCCC-SEEEE CS
                    NACHT  2 lvilqGeaGsGKTtLlqklalawaegklpqgafklvFf 39
                             ++i++G +  GK++Ll+kl +++  ++  +++fk ++f
  PHY93_07125|PHY93_07125  7 VIIINGNSCTGKSYLLHKLTQKLDLPNVSRDEFKEMLF 44
                             79*********************999999988876665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (180 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       695  (0.038764); expected 358.6 (0.02)
Passed bias filter:                      493  (0.0274974); expected 358.6 (0.02)
Passed Vit filter:                        73  (0.00407162); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.51u 0.26s 00:00:00.77 Elapsed: 00:00:00.43
# Mc/sec: 1253.47
//
Query:       PHY93_05520|PHY93_05520  [L=156]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0016   18.2   0.0     0.0026   17.5   0.0    1.3  1  PAP2      PAP2 superfamily


Domain annotation for each model (and alignments):
>> PAP2  PAP2 superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.0   1.5e-07    0.0026       6      70 ..      87     150 ..      83     153 .. 0.88

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 1.5e-07
                     PAP2   6 llalalaalltsvlKdlvgrpRPfflaeetkldtqvstletseskeakesfPSgHsafafalall 70 
                              + +l++a + t+++K + gr  P+ ++++ + ++  +++  +++ +a++  PSgH ++a++ +++
  PHY93_05520|PHY93_05520  87 MNSLVSASIPTQIIKRATGREDPNRVTTYRGKWKP-FNKNYNNDVSAYDAVPSGHIMAATSTLTV 150
                              6789999999************************9.666666668999999*********99887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (156 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       386  (0.0215294); expected 358.6 (0.02)
Passed bias filter:                      340  (0.0189637); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 1199.41
//
Query:       PHY93_07130|PHY93_07130  [L=187]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.8e-20   73.0   0.0    4.5e-20   72.7   0.0    1.1  1  Acetyltransf_3  Acetyltransferase (GNAT) domain
    2.3e-12   47.3   0.0    3.3e-12   46.8   0.0    1.2  1  Acetyltransf_4  Acetyltransferase (GNAT) domain
    1.8e-05   24.9   0.0    2.9e-05   24.3   0.0    1.3  1  Acetyltransf_1  Acetyltransferase (GNAT) family
     0.0028   17.3   0.0     0.0044   16.7   0.0    1.2  1  Acetyltransf_8  Acetyltransferase (GNAT) domain
     0.0049   16.8   0.0     0.0086   16.0   0.0    1.5  1  FR47            FR47-like protein


Domain annotation for each model (and alignments):
>> Acetyltransf_3  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   72.7   0.0   1.3e-23   4.5e-20       1     138 []      13     159 ..      13     159 .. 0.83

  Alignments for each domain:
  == domain 1  score: 72.7 bits;  conditional E-value: 1.3e-23
           Acetyltransf_3   1 RLlLrplteeDlealfelrs...dpe.vmry..lpe.pltleeaeewlerawaeeseeegygwaivlkdtgv.iGsvglrdleeed 78 
                              RL +rp++++D++ + e +s    ++  + +  lp  +l+ +  +++le+  +  +++++y + +++k++g  iG+  l d+++  
  PHY93_07130|PHY93_07130  13 RLEVRPIKKSDYKNWKEAFStlgKKKnRWDWenLPVhELDKATFYKRLEKLDQGIKTDTNYRFGVFEKKSGKlIGYTFLMDVSRGI 98 
                              99*********9888543331212222444576444588888889999987666667788*******999877****999888877 PP

           Acetyltransf_3  79 ee.aelgymlapsfwgkGyateavralleyafeelglerlvavidkeNeaSirvleklGfe 138
                               + a lgy l  +fwg+G++ e+vr++ ++af++l+l+rl+a i+++N++Si++++k+Gf+
  PHY93_07130|PHY93_07130  99 FQnAYLGYQLLNPFWGQGFGEEMVRGVNRLAFSHLKLHRLEAGISPNNRKSIKLAKKVGFR 159
                              668*********************************************************6 PP

>> Acetyltransf_4  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.8   0.0   9.2e-16   3.3e-12       1     154 [.      16     178 ..      16     179 .. 0.89

  Alignments for each domain:
  == domain 1  score: 46.8 bits;  conditional E-value: 9.2e-16
           Acetyltransf_4   1 iraateeDakeilaiyaey.vvntaitfeyev...ssveefekfleal.d...sekeyvflvae..sdrivGyaylgqfkkrakdw 76 
                              +r ++++D k++++  ++  + ++ +++e        +  f k+le+l +   ++ +y f+v+e  s++++Gy  l  +   +  +
  PHY93_07130|PHY93_07130  16 VRPIKKSDYKNWKEAFSTLgKKKNRWDWENLPvheLDKATFYKRLEKLdQgikTDTNYRFGVFEkkSGKLIGYTFLMDVSR-GIFQ 100
                              58899***********887688889999974321244556779****954788888*********************9988.8999 PP

           Acetyltransf_4  77 kaelsvylaerdnnkeglgrelidaleqvl.keqnienllaeiaspnensiqfhkalGFelvgifkkcikkngrwiDmi 154
                               a l + l  +    +g g e++  +   + +   +++l+a i  +n +si+++k++GF+++g++k+    ng+w D +
  PHY93_07130|PHY93_07130 101 NAYLGYQLL-NPFWGQGFGEEMVRGVNRLAfSHLKLHRLEAGISPNNRKSIKLAKKVGFRKEGRSKRRLFLNGEWKDFM 178
                              999999997.78999************9999********************************************9977 PP

>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.3   0.0     8e-09   2.9e-05      27     117 .]      67     158 ..      37     158 .. 0.73

  Alignments for each domain:
  == domain 1  score: 24.3 bits;  conditional E-value: 8e-09
                              HHHSTTC.EEEEEEETTEEEEEEEEEEEETTSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHT.TESEEEEEEETTEHHHHH CS
           Acetyltransf_1  27 sfsleae.gllvaeedgeliGfisllkipdekggvayieslaVspeyrgkGlGsaLlealeeraree.gikkivlaveedndaair 110
                              +  +++  ++++ ++ g+liG+  l  +     ++ay+ ++     ++g+G G ++++ + + a+++  ++++++ ++++n+++i+
  PHY93_07130|PHY93_07130  67 IKTDTNYrFGVFEKKSGKLIGYTFLMDVSRGIFQNAYL-GYQLLNPFWGQGFGEEMVRGVNRLAFSHlKLHRLEAGISPNNRKSIK 151
                              2334444455557888*******777777744556788.78888899********************999**************** PP

                              HHHHTTE CS
           Acetyltransf_1 111 lYeklGF 117
                              l +k+GF
  PHY93_07130|PHY93_07130 152 LAKKVGF 158
                              **88**9 PP

>> Acetyltransf_8  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.0   1.2e-06    0.0044      91     142 ..     112     163 ..     108     166 .. 0.95

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 1.2e-06
                              HCTTTCHHHHHHHHHHHHHCCTT--EEEE--BTT-HHHHHHHHHTT-EEEEE CS
           Acetyltransf_8  91 argkglttallralvhylfadprtrrvvvEPdvrNerairllekaGfekeke 142
                              + g+g++ +++r + +++f++ +  r  +  +++N+++i+l +k+Gf+ke++
  PHY93_07130|PHY93_07130 112 FWGQGFGEEMVRGVNRLAFSHLKLHRLEAGISPNNRKSIKLAKKVGFRKEGR 163
                              579*********************************************9985 PP

>> FR47  FR47-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.0   2.4e-06    0.0086      27      80 ..     106     161 ..      74     168 .. 0.77

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 2.4e-06
                              EEE-GGG-SSSHHHHHHHHHHHHHHH..S-S-EEEEEETT-HHHHHHHHHHT-EEE CS
                     FR47  27 lqvlpehrrrGlgsrlvkalakeiae..rgktvllvvvasNtpsirlyeklGfeki 80 
                               q+l+ + ++G+g  +v+ + +      + + + + + ++N +si+l +k+Gf+k 
  PHY93_07130|PHY93_07130 106 YQLLNPFWGQGFGEEMVRGVNRLAFShlKLHRLEAGISPNNRKSIKLAKKVGFRKE 161
                              57888999*************9877667889999********************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (187 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       439  (0.0244855); expected 358.6 (0.02)
Passed bias filter:                      337  (0.0187964); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.38
# Mc/sec: 1469.41
//
Query:       PHY93_07135|PHY93_07135  [L=104]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.4e-19   69.4   1.6    2.9e-19   69.1   1.6    1.1  1  BON       BON domain
  ------ inclusion threshold ------
      0.014   15.7   0.0      0.019   15.3   0.0    1.4  1  DUF4969   Domain of unknown function (DUF4969)


Domain annotation for each model (and alignments):
>> BON  BON domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.1   1.6   3.2e-23   2.9e-19       1      65 [.      39     103 ..      39     104 .] 0.98

  Alignments for each domain:
  == domain 1  score: 69.1 bits;  conditional E-value: 3.2e-23
                              EHHCCHHHHHHHHHHHCHTTGCCCEEEEETTCEEEECEEECHHHHHHHHHHHHCCTTEEEEEEEE CS
                      BON   1 dDaeiaakvkaalakdggldaadinVevenGvVtLsGtVdseaekekAveiarnvaGVkkVvnel 65 
                              dD+ i+++vk+a+ kd++l+a  inV++++GvV LsG+Vds++e  +A e+a+nv+ Vk+V n+l
  PHY93_07135|PHY93_07135  39 DDSVITTRVKTAIIKDPDLKAMQINVKTYQGVVQLSGFVDSPKEVSRAGEVAKNVSNVKSVENDL 103
                              89*************************************************************87 PP

>> DUF4969  Domain of unknown function (DUF4969)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.3   0.0   2.1e-06     0.019       2      38 ..       2      41 ..       1      73 [. 0.69

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 2.1e-06
                  DUF4969  2 kkRgll.LvsvLvlFilla..vaCsdsedneesveiilke 38
                              kR l   + +L  Fi+l+  + Cs+s  ne+ +  +   
  PHY93_07135|PHY93_07135  2 LKRPLQhFIKILTCFIFLTsfMGCSSSSKNETAGQYVDDS 41
                             5665532678999*****94458*********98765433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (104 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       631  (0.0351944); expected 358.6 (0.02)
Passed bias filter:                      439  (0.0244855); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 802.53
//
Query:       PHY93_07140|PHY93_07140  [L=598]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.8e-24   85.6   0.2    5.1e-18   65.4   0.0    3.1  3  Helicase_C    Helicase conserved C-terminal domain
    2.8e-19   69.5   0.0    6.8e-19   68.3   0.0    1.6  1  DEAD          DEAD/DEAH box helicase
    8.8e-18   64.1   0.0      2e-17   62.9   0.0    1.6  1  HRDC          HRDC domain
    6.8e-14   52.3   0.1    1.6e-13   51.2   0.1    1.7  1  RecQ_Zn_bind  RecQ zinc-binding
    1.2e-08   34.7   0.5    8.6e-05   22.3   0.1    2.7  2  RQC           RQC domain


Domain annotation for each model (and alignments):
>> Helicase_C  Helicase conserved C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   2.2e-06    0.0079      12      71 ..      52     111 ..      44     115 .. 0.81
   2 !   65.4   0.0   1.4e-21   5.1e-18       4     110 ..     219     325 ..     216     326 .. 0.96
   3 ?   -1.6   0.1      0.96   3.4e+03      11      11 ..     474     474 ..     427     530 .. 0.54

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 2.2e-06
                              HTTTTSEEEEEESSHHHHHH.HHHHHHHTTSTEEEESTTSTHHHHHHHHHHHHTTSSSEEE CS
               Helicase_C  12 leeeggkilifvntidrlek.vklllekkgikvavlhgelpqnereeileqfnkgesdvLi 71 
                                ++ g+++++++ i  +++ v+ ll kk++k+a l+++l++ e++ i ++  kg+ ++L 
  PHY93_07140|PHY93_07140  52 ALVRSGTAIVISPLIALMKDqVDALL-KKDVKAALLNSSLSKAEQRSIEKELVKGSLKILY 111
                              45789999********6655555554.667***************************9996 PP

  == domain 2  score: 65.4 bits;  conditional E-value: 1.4e-21
                              HHHHHHHHHTTTTSEEEEEESSHHHHHHHHHHHHHTTSTEEEESTTSTHHHHHHHHHHHHTTSSSEEEESGGGTSSSTSTTESEEE CS
               Helicase_C   4 eallellkleeeggkilifvntidrlekvklllekkgikvavlhgelpqnereeileqfnkgesdvLiatdvaerGidipkvnlVi 89 
                              ++ll+++k+e+  +  ++++ ++++ e+v l+l++ g+k+ ++h+ l+q+ r+ + e+f ++es +++at + ++Gid p+v++V 
  PHY93_07140|PHY93_07140 219 DQLLAFIKSEHLSDAGIVYCLSRKSTEEVALFLKSAGLKAMPYHAGLTQEYRNSVQEKFINEESIIVVATIAFGMGIDKPDVRFVA 304
                              5788899999999***********99999***9999************************************************** PP

                              ESSSSSSHHHHHHHHTTSSST CS
               Helicase_C  90 nfdlprnvtsyiqriGRtgRa 110
                              ++dlp+ ++sy q  GR+gR 
  PHY93_07140|PHY93_07140 305 HMDLPKCLESYYQETGRAGRD 325
                              ********************6 PP

  == domain 3  score: -1.6 bits;  conditional E-value: 0.96
                              H CS
               Helicase_C  11 k 11 
                              k
  PHY93_07140|PHY93_07140 474 K 474
                              1 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   68.3   0.0   1.9e-22   6.8e-19       4     170 ..      21     176 ..      18     182 .. 0.82

  Alignments for each domain:
  == domain 1  score: 68.3 bits;  conditional E-value: 1.9e-22
                              HHHHHHHHHTTCEEEEEESTTSSHHHHHHHHHHHHHHHSTTSTS-EEEEEESSHHHHHHHHHHHHHHTTTSTSEEEEEETTSSHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD   4 QaeaiplilgggdvlvaaeTGsGKTlaflipvlqivyetkgktgpkalivePtreLaeqtlnnlkkfkkyidlrvlliiggvaard 89 
                              Q+ +++ i++g++ l+ ++TG GK+l+++ip+l  v      +   a++++P+ +L++++++ l k   ++ l   + +++ ++r+
  PHY93_07140|PHY93_07140  21 QEIIVNSIIEGKNALILMPTGGGKSLCYQIPAL--V------RSGTAIVISPLIALMKDQVDALLKKDVKAALLN-SSLSKAEQRS 97 
                              89999****************************..3......4458****************9955444433333.4566667777 PP

                              HHHHHHTT.CSEEEEEHHHHHHHHHCTSSHCTTEEEEEEETHHHHHHT..TTHHHHHHHHHHSHHHCTTSTTTSEEEEEESSBS CS
                              xxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  90 qlskldng.vdivvgtpgrlddllstgklnlsqvrflVlDEadrlldq..gfsdfinrilnqlpqitcdgklqrqvivlSATlp 170
                                ++l +g ++i++  p+r++  + ++ l+   ++++ +DEa++++++  +f++++ + l+ l++   + +     i+l+AT+ 
  PHY93_07140|PHY93_07140  98 IEKELVKGsLKILYVSPERMMTSFFQNILDKITISLFAIDEAHCVSQWghDFRPEYME-LAMLSKRFPNIP----RIALTATAG 176
                              777776667*************998899888899**************8889999999.666656666666....9******86 PP

>> HRDC  HRDC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.9   0.0   5.6e-21     2e-17       2      68 .]     528     594 ..     527     594 .. 0.98

  Alignments for each domain:
  == domain 1  score: 62.9 bits;  conditional E-value: 5.6e-21
                              HHHHHHHHHHHHHHHHHHTS-HHHHS-HHHHHHHHHH---SHHHHHTSTTT-HHHHHHHHHHHHHHH CS
                     HRDC   2 lallkaLrewReelAreedvppyvvfpdktLleiAeklPttleeLlqiegvgkrklekygeeileai 68 
                              l l++ L+  R++lA+ +    y +fpdktLle+A+ +P++l+e++++ gvg++kl+k+g+ ++eai
  PHY93_07140|PHY93_07140 528 LTLFENLKIFRTNLAKTKRTKSYKIFPDKTLLEMAQTKPKDLSEFESLFGVGPKKLKKFGKIFIEAI 594
                              789**************************************************************98 PP

>> RecQ_Zn_bind  RecQ zinc-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.2   0.1   4.5e-17   1.6e-13       2      66 .]     338     400 ..     337     400 .. 0.92

  Alignments for each domain:
  == domain 1  score: 51.2 bits;  conditional E-value: 4.5e-17
             RecQ_Zn_bind   2 qDvsrlrrlieqseesekekeaelekleamlaycentteCrrkllleyFgeeaaeeeCgnCDnCl 66 
                              +D++ l+r+ +++ +++++++++ ekl+a+l++ce+t+ Crr++ll yF++    + C+nCD Cl
  PHY93_07140|PHY93_07140 338 ADLVLLKRITNKGLKTAARRRVSDEKLDAILGFCETTK-CRREVLLGYFDDPYLGP-CENCDTCL 400
                              6999999999888889999***************8888.************88888.*******6 PP

>> RQC  RQC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.1   0.0   0.00014      0.52       3      32 ..     405     434 ..     403     438 .. 0.91
   2 !   22.3   0.1   2.4e-08   8.6e-05      60     111 ..     439     490 ..     435     493 .. 0.92

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.00014
                              -EEE-HHHHHHHHHHHHHTTS-SBHHHHHH CS
                      RQC   3 etvDvteeaqkilscvyrtgqrfgaghivd 32 
                              +++++t+ a ++l++vy+t+q++ ++++v+
  PHY93_07140|PHY93_07140 405 RQINATQLAITALRAVYETNQKYNVQYMVN 434
                              6789*********************99985 PP

  == domain 2  score: 22.3 bits;  conditional E-value: 2.4e-08
                              -HHHHHHHHHHHHHTTSEEEE..SSSBEEE-CCGHHHHTSSS--EEESHHHX CS
                      RQC  60 skkewrrlirqLiaegyLeedveeygvlkltekarevlkgeekvklreekkk 111
                              ++  w ++ rqLia g L++  ++ + lklt +a +vl g+e+v+lr + kk
  PHY93_07140|PHY93_07140 439 DQALWFSVYRQLIALGHLKMLMDGKSELKLTLRAIKVLEGREEVFLRADYKK 490
                              6788*******************************************98765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (598 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       766  (0.0427241); expected 358.6 (0.02)
Passed bias filter:                      525  (0.0292822); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.65u 0.24s 00:00:00.89 Elapsed: 00:00:00.44
# Mc/sec: 4115.49
//
Query:       PHY93_07145|PHY93_07145  [L=179]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.9e-23   82.0   0.0    4.9e-23   81.7   0.0    1.1  1  AHSA1     Activator of Hsp90 ATPase homolog 1-like protein


Domain annotation for each model (and alignments):
>> AHSA1  Activator of Hsp90 ATPase homolog 1-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   81.7   0.0   2.7e-27   4.9e-23       1     124 [.      31     176 ..      31     177 .. 0.89

  Alignments for each domain:
  == domain 1  score: 81.7 bits;  conditional E-value: 2.7e-27
                              SS-HHHHHHHHH-HHHHHHH.....EEEEEEEE--STTEEEEE....EETTTSEEEEEEEEEEEEETTTEEEEEEEEETSET.... CS
                    AHSA1   1 dapperVfraltdpellkrW.....ftlteaemdlrpGgkfrl....rdspdgkefgnegeylevvpperlvytwrledepe.... 73 
                              ++p++++f+a+t++e+lk+W     +  +++emd+r+Ggk+ +     +  d++  g++g+++e+ +++r+v+t +++de+     
  PHY93_07145|PHY93_07145  31 KVPIDQLFEAFTTSEALKNWwwpegLYSDHIEMDFREGGKYFInmkgFNRSDSGGGGMTGQFEEIIDNKRIVMTDQFADEKGrais 116
                              58*****************989999999***************954433345555555556*************9999777789** PP

                              ..........EEEEEEEEEEEE.ETTEEEEEEEEEEEEHCHHHHHHHHHHHHHHHHHHHHHH CS
                    AHSA1  74 ..........eeestvtielee.egggTrltlthtglprkqkeeegveeGweqsldqLkall 124
                                        +++  +t+ +    ++  +l l+++g+p++ +++  + +Gw++++++L+++l
  PHY93_07145|PHY93_07145 117 aeeakmpgtwPKRGYITFDFDSvDDNTSNLKLSQAGIPNEVQKD--CIQGWSEIFNKLEKYL 176
                              **********99**********6666679***************..**************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (179 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       433  (0.0241508); expected 358.6 (0.02)
Passed bias filter:                      359  (0.0200234); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.41
# Mc/sec: 1322.59
//
Query:       PHY93_07150|PHY93_07150  [L=260]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.6e-09   36.6   0.1    7.2e-09   35.6   0.1    1.6  1  HSDR_N_2  Type I restriction enzyme R protein N terminus (HSD


Domain annotation for each model (and alignments):
>> HSDR_N_2  Type I restriction enzyme R protein N terminus (HSDR_N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.6   0.1     4e-13   7.2e-09       2     101 ..       9     112 ..       8     123 .. 0.83

  Alignments for each domain:
  == domain 1  score: 35.6 bits;  conditional E-value: 4e-13
                 HSDR_N_2   2 EEwvRqklikyLveelgypkeliavekelqlgskkkraDivv.......ykkdkkpllivecKapsvkiseevleqlksYlealka 80 
                              EE  R  l   L + lgy+k    +e + ++ +k++r+D+ v        +k +k   i+e+Ka ++++++ v++q   Y+  +++
  PHY93_07150|PHY93_07150   9 EEDARILLNDILHSVLGYNK---FNELKTEMRDKNNRFDYGVrlvdgpfKNKADKLDFIIEAKACHIELNQMVIDQTLPYCISTGV 91 
                              77778888888888899988...57888999999999999986666663444489******************************* PP

                 HSDR_N_2  81 eylvvtNglehivykvdkkkk 101
                              +y+ +tN  + +++kv+ + k
  PHY93_07150|PHY93_07150  92 DYFFLTNAVKWQMFKVSRQGK 112
                              ***************977655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (260 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1027  (0.0572815); expected 358.6 (0.02)
Passed bias filter:                      512  (0.0285571); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 1892.39
//
Query:       PHY93_07155|PHY93_07155  [L=127]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
     0.0022   16.5   0.4     0.0024   16.4   0.4    1.1  1  SID-1_RNA_chan  dsRNA-gated channel SID-1
  ------ inclusion threshold ------
      0.055   13.1   0.0      0.066   12.9   0.0    1.1  1  DUF4131         Domain of unknown function (DUF4131)
       0.07   12.6   0.2      0.072   12.6   0.2    1.2  1  Peptidase_C74   Pestivirus NS2 peptidase


Domain annotation for each model (and alignments):
>> SID-1_RNA_chan  dsRNA-gated channel SID-1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.4     4e-07    0.0024     381     441 ..      38      96 ..      24     122 .. 0.68

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 4e-07
           SID-1_RNA_chan 381 aysafallavvillgvigvlegknkfwilfsiihllatll....lslqiyymgrwkldvgilrri 441
                              +++ + l++++ +++++gv+++++ +  +f++i ++++ +    l+lqiy  g + +++     i
  PHY93_07155|PHY93_07155  38 SFTDYKLFILFAMISCLGVFSEQSRIASIFAVILFVSVYFltrkLTLQIYG-GNMVIKR-----I 96 
                              578888999999999999999888666666666666666501115566554.5544443.....3 PP

>> DUF4131  Domain of unknown function (DUF4131)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   1.1e-05     0.066      10      64 ..      44      94 ..      38     123 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 1.1e-05
                  DUF4131 10 lalllllllllllllrrrprrrvllllllllllallgfalrapqpnandlsqlle 64
                             l++l++++ +l+++      + +++++++++l+++++f+ r ++ +    + +++
  PHY93_07155|PHY93_07155 44 LFILFAMISCLGVF----SEQSRIASIFAVILFVSVYFLTRKLTLQIYGGNMVIK 94
                             67899999999998....68999******************99998877666665 PP

>> Peptidase_C74  Pestivirus NS2 peptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.2   1.2e-05     0.072      42      92 ..      45      99 ..      15     123 .. 0.71

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 1.2e-05
            Peptidase_C74 42 likatlisc..v...sskwqliymsyltldfmyymhrkvieeisggtniisrlvaa 92
                             +i  ++isc  v    s+   i+   l +  +y++ rk+  +i gg  +i r+v+a
  PHY93_07155|PHY93_07155 45 FILFAMISClgVfseQSRIASIFAVIL-FVSVYFLTRKLTLQIYGGNMVIKRIVSA 99
                             455566666222100333344443333.33479*********************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (127 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1166  (0.0650343); expected 358.6 (0.02)
Passed bias filter:                      619  (0.0345251); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.45u 0.26s 00:00:00.71 Elapsed: 00:00:00.42
# Mc/sec: 901.86
//
Query:       PHY93_07160|PHY93_07160  [L=99]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (99 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       428  (0.0238719); expected 358.6 (0.02)
Passed bias filter:                      306  (0.0170673); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.20s 00:00:00.62 Elapsed: 00:00:00.38
# Mc/sec: 773.23
//
Query:       PHY93_07165|PHY93_07165  [L=178]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.6e-21   75.0   0.0    8.7e-21   74.6   0.0    1.1  1  Flavin_Reduct  Flavin reductase like domain


Domain annotation for each model (and alignments):
>> Flavin_Reduct  Flavin reductase like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.6   0.0   4.8e-25   8.7e-21       5     141 ..      15     147 ..      13     156 .. 0.91

  Alignments for each domain:
  == domain 1  score: 74.6 bits;  conditional E-value: 4.8e-25
                              -EE-EEEEE.EETTEEEEEEESSEEEEETTTTEEEEEEETTSHHHHHHHHHSEEEEEEEBCCGHHHHHHTCS...SCCCCCCCCCC CS
            Flavin_Reduct   5 aqpvavvttsvpptsplgatlssftslsldPplvafslrlpsstadalkeagefvinllsesqealadafsqksgprtddksifag 90 
                              + pv+++tt +++ +++ +t+s+ + + ++ p +a+  + ++++++alke +e+vi +  ++q + +  +++ sg r+ +k++ +g
  PHY93_07165|PHY93_07165  15 PGPVVLITT-NDGVKNNIMTISWTMVVDFT-PKFAITTGAWNYSYKALKEFKECVIAIPTAEQIDQVIGIGTSSG-RDINKFENFG 97 
                              68*******.77888889************.78899999*********************************999.*******99* PP

                              CEEECT.CCCSEEETTCSEEEEEEEEEEECCTTEEEEEEEEEEEEESTTECT CS
            Flavin_Reduct  91 ltwees.ptgapallgalasleCqvvgsvelgdhelfigeVvavkvgddade 141
                               t+e++ +++ap+++++la++eC+v++   +++h+++i+e  a++ ++++++
  PHY93_07165|PHY93_07165  98 FTPEKAkNVNAPLIKECLANIECKVIDI--IKKHDIIILEGIAAYFNSSRKN 147
                              ******999******************5..467**********999988554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (178 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       534  (0.0297841); expected 358.6 (0.02)
Passed bias filter:                      409  (0.0228122); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 1339.90
//
Query:       PHY93_07170|PHY93_07170  [L=109]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (109 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       576  (0.0321267); expected 358.6 (0.02)
Passed bias filter:                      258  (0.0143901); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 799.21
//
Query:       PHY93_07175|PHY93_07175  [L=145]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.15   11.8   0.1         11    5.8   0.1    2.9  3  KRAB      KRAB box


Domain annotation for each model (and alignments):
>> KRAB  KRAB box
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.8   0.1    0.0006        11       9      17 ..       1       9 [.       1      11 [. 0.87
   2 ?   -1.8   0.0      0.14   2.5e+03      30      37 ..      19      26 ..      17      29 .. 0.81
   3 ?    2.4   0.0    0.0069   1.2e+02       7      23 ..      92     108 ..      90     114 .. 0.87

  Alignments for each domain:
  == domain 1  score: 5.8 bits;  conditional E-value: 0.0006
                     KRAB  9 VdFtqeEWe 17
                             + Ft+eEW+
  PHY93_07175|PHY93_07175  1 MKFTKEEWK 9 
                             68******8 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 0.14
                     KRAB 30 VMlEnyrn 37
                              M +n++n
  PHY93_07175|PHY93_07175 19 IMHDNFEN 26
                             7999**99 PP

  == domain 3  score: 2.4 bits;  conditional E-value: 0.0069
                     KRAB   7 VaVdFtqeEWelLdpaQ 23 
                              V V  t eE  +Ld + 
  PHY93_07175|PHY93_07175  92 VIVRITFEEADHLDKSL 108
                              88999*********875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (145 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       428  (0.0238719); expected 358.6 (0.02)
Passed bias filter:                      367  (0.0204696); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 1100.74
//
Query:       PHY93_16320|PHY93_16320  [L=168]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (168 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       472  (0.0263261); expected 358.6 (0.02)
Passed bias filter:                      399  (0.0222544); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.39
# Mc/sec: 1277.13
//
Query:       PHY93_16385|PHY93_16385  [L=269]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (269 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       277  (0.0154498); expected 358.6 (0.02)
Passed bias filter:                      218  (0.0121591); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.20s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 2066.14
//
Query:       PHY93_07180|PHY93_07180  [L=62]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.9e-09   36.2   0.1    4.9e-09   36.2   0.1    1.0  1  HipA_C    HipA-like C-terminal domain


Domain annotation for each model (and alignments):
>> HipA_C  HipA-like C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.2   0.1   2.7e-13   4.9e-09     132     175 ..       7      60 ..       1      62 [] 0.73

  Alignments for each domain:
  == domain 1  score: 36.2 bits;  conditional E-value: 2.7e-13
                              TBTT--GGGSEEEE....CC...CEEEE--B-S--BSGCC.TTT...ECCEECC CS
                   HipA_C 132 gNtDdHlKNfsllr....gg...grwrLaPaYDlvstaay.edee..lalsigg 175
                              + +D+HlKN+sl++    ++    ++ L+PaYDl+st +y +d++   al+i+g
  PHY93_07180|PHY93_07180   7 SGGDAHLKNISLIYenenENengAKTLLSPAYDLISTDLYiYDDNeeSALAING 60 
                              568********7775665115545567************974444688999977 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (62 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       343  (0.019131); expected 358.6 (0.02)
Passed bias filter:                      245  (0.013665); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.22s 00:00:00.61 Elapsed: 00:00:00.41
# Mc/sec: 455.27
//
Query:       PHY93_07185|PHY93_07185  [L=43]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (43 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       292  (0.0162865); expected 358.6 (0.02)
Passed bias filter:                      235  (0.0131073); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.37u 0.22s 00:00:00.59 Elapsed: 00:00:00.39
# Mc/sec: 331.61
//
Query:       PHY93_07190|PHY93_07190  [L=335]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-43  149.4   0.0    1.8e-43  148.7   0.0    1.4  1  LCM              Leucine carboxyl methyltransferase
    0.00094   19.1   0.0     0.0026   17.7   0.0    1.8  2  Acetyltransf_10  Acetyltransferase (GNAT) domain
  ------ inclusion threshold ------
       0.16   10.2   0.0       0.21    9.9   0.0    1.1  1  DUF4815          Domain of unknown function (DUF4815)


Domain annotation for each model (and alignments):
>> LCM  Leucine carboxyl methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  148.7   0.0     3e-47   1.8e-43       2     187 ..      77     245 ..      76     246 .. 0.92

  Alignments for each domain:
  == domain 1  score: 148.7 bits;  conditional E-value: 3e-47
                              HHHHHHHHHHHHHH..HHTSSHTCCCCCCCHHHHHHHHCHCCCHCHHCHGCHCCCCT--HHHHHHHHHHHHHHHHHHHHHHHCTTE CS
                      LCM   2 lgvaaaralesrra..adglidDplaeslvsaaglellerkadkelekekeeekkekkapelnrgiavRtrffddllkaalsaagi 85 
                              l +aa+ra+esrr+  + +l+ Dp+ae l++a+g+ ll        ek       +  a + +  ia+Rt+++d+++++al + g+
  PHY93_07190|PHY93_07190  77 LLTAAMRAVESRRSesEGRLFSDPYAEVLAGAEGFSLL--------EK-------AIAAAGDQPAIAIRTAYMDSRIESAL-KLGV 146
                              679**********66899***************99872........22.......23456667889***************.6*** PP

                              SEEEEET-TT--HHHHHHHTTTEEEEEEE-HHHHHHHHHHHHHSHHHHHEECSEEE--TTSHHHHHHHHHHTT-TTSEEEEEEESS CS
                      LCM  86 rqvViLGAGlDtrayRlpwlaglkvfEvDqpevlefKretlkelgaepkaelryvpvDlrdddwpeaLaaagfdpekptawvaeGv 171
                              rq+V L+AG+D+ra+R+  ++ +k+fE+D++ev ++K+e+lk  ++ pk+e+ + +vDl+ d+w+++L +ag+++++pt+w++eG+
  PHY93_07190|PHY93_07190 147 RQFVFLAAGMDSRAFRMTFPSCTKIFELDRKEVFNYKQEKLK--NIDPKCERITLAVDLK-DEWTNKLIEAGLKTHEPTLWLVEGL 229
                              *****************************************8..56689***********.************************* PP

                              GGGS-HHHHHHHHHHH CS
                      LCM 172 lvYLtpeasdalleai 187
                              l+YL++ ++++ll++i
  PHY93_07190|PHY93_07190 230 LMYLKESQVTNLLNQI 245
                              **************98 PP

>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   0.0   4.4e-07    0.0026      83     126 ..      12      58 ..       1      59 [. 0.77
   2 ?   -2.7   0.0       0.9   5.4e+03      71     106 ..      76     111 ..      75     122 .. 0.69

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 4.4e-07
          Acetyltransf_10  83 dgikleltvnaspyavpfYeklGFkav....geeqeenGirfvpMeke 126
                               +   el+++++ +a +fY klGF++     +   + + +r++pM+++
  PHY93_07190|PHY93_07190  12 LNAT-ELNLHSTITAHSFYLKLGFVDSapmtTVIINNASVRCTPMKLK 58 
                              3333.9*******************99444455567899999999975 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 0.9
          Acetyltransf_10  71 aLleaveeeaekdgikleltvnaspyavpfYeklGF 106
                              +Ll a+ +++e ++++ e  + ++pya+ +    GF
  PHY93_07190|PHY93_07190  76 SLLTAAMRAVESRRSESEGRLFSDPYAEVLAGAEGF 111
                              677777777766666668888899988765555555 PP

>> DUF4815  Domain of unknown function (DUF4815)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.0   3.5e-05      0.21     407     483 ..      24     104 ..      14     143 .. 0.79

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 3.5e-05
                  DUF4815 407 aadselLeLatvvnswdskavvendairrlpme.elqklkkrledv...ednvalerLdedasgreplakrgvFsdpflsd 483
                              +a s  L+L+ v   +  + +++n ++r  pm+ + +++k+++ ++    +  +l++  + +++r +     +Fsdp  ++
  PHY93_07190|PHY93_07190  24 TAHSFYLKLGFVDSAPMTTVIINNASVRCTPMKlKYKAMKEKILNMdtvAKTSLLTAAMRAVESRRSESEGRLFSDPYAEV 104
                              677899**********************99997567888888877600033334444456679999999999****98775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (335 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       655  (0.036533); expected 358.6 (0.02)
Passed bias filter:                      552  (0.0307881); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 2436.06
//
Query:       PHY93_07195|PHY93_07195  [L=288]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.4e-14   54.2   0.1    3.5e-14   53.7   0.1    1.3  1  RNase_T   Exonuclease


Domain annotation for each model (and alignments):
>> RNase_T  Exonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   53.7   0.1   1.9e-18   3.5e-14       2     164 ..      44     201 ..      43     202 .. 0.86

  Alignments for each domain:
  == domain 1  score: 53.7 bits;  conditional E-value: 1.9e-18
                              EEEEEESSSTTCTTS-EEEEEEEEEETTCC.....EEEEEEEEEEEHSSHCSSSHHHHHHHHHCHHHHHTCEBHHHHHHHHHHHHH CS
                  RNase_T   2 viDlEttgldakekdeiieiaaisidggen.....eigetfhfyvkptelakltdecteftgitqemldeapsfkevleefkellr 82 
                              ++D+Ettgld+  kdeiieia  +   +++     ++ e+++ + +p+++  +++ +te+tgit+e+++++   k  +  ++++++
  PHY93_07195|PHY93_07195  44 ILDTETTGLDH-VKDEIIEIAIRKWIYHKRehyliKPVEEYSELNEPERN-VISEVITELTGITKEDVKGK---KINWGIVSKIIG 124
                              79*********.9*********99888888899****************8.********************...55689999**** PP

                              HHTCCCETTTCEEEESSHHHHHHHHHHHHH.HHHHCSEHCECHHHHHHHHHCHHHHHHHHHTTCHSSSSTSSHHHHHHHHHHH CS
                  RNase_T  83 klallvahnaafdvgflraadkrilkkevp.krnqfldtlildkatlkelartsldklaeklgleedgraHrAldDaeatakl 164
                              +   + ahna fd  ++ a  +   k+ ++      +++++++++ + + ++ +l  l ++  +  +g  HrAl D+ a+a+l
  PHY93_07195|PHY93_07195 125 ESDFVLAHNAGFDRPMIEAVAEVS-KISASkIWTCSFKQVDWAQMGFLSAKQ-ELLSLFHG--FHYSG--HRALTDIDALANL 201
                              ****************99998876.666663233467788888888777776.99999994..55555..*******999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (288 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       463  (0.0258241); expected 358.6 (0.02)
Passed bias filter:                      398  (0.0221987); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 2139.60
//
Query:       PHY93_07200|PHY93_07200  [L=127]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      4e-18   65.1   0.1      7e-18   64.3   0.1    1.4  1  DUF302    Domain of unknown function DUF302


Domain annotation for each model (and alignments):
>> DUF302  Domain of unknown function DUF302
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   64.3   0.1   3.9e-22     7e-18       1      63 []      36      99 ..      36      99 .. 0.98

  Alignments for each domain:
  == domain 1  score: 64.3 bits;  conditional E-value: 3.9e-22
                             EEHHHHHHCTT-S--S-EEEEEEE-HHHHHHHHCC-GGGGGG-SEEEEEEE.ETTEEEEEEE-H CS
                   DUF302  1 iDvqatlkkklgedlrpykilgaCnPklatealqadpeiglllPcrvvVye.kdgkttvsyvdP 63
                             iD+++++k+klg+dl+p+ ilgaCnP+la+ea q + ++  l+Pc+ vV+  +++k+ v+ ++P
  PHY93_07200|PHY93_07200 36 IDFHEKIKEKLGKDLPPVIILGACNPALAYEAFQRNTDVTSLIPCNAVVRMiDKEKVSVELTKP 99
                             8**************************************************999*****99987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (127 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       698  (0.0389313); expected 358.6 (0.02)
Passed bias filter:                      553  (0.0308439); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 935.74
//
Query:       PHY93_07205|PHY93_07205  [L=89]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    0.00025   20.2   3.1    0.00028   20.1   3.1    1.0  1  Clusterin  Clusterin
     0.0022   18.1   1.1     0.0022   18.1   1.1    2.6  3  CHCH       CHCH domain


Domain annotation for each model (and alignments):
>> Clusterin  Clusterin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.1   3.1   3.1e-08   0.00028     249     303 ..      18      72 ..       3      78 .. 0.78

  Alignments for each domain:
  == domain 1  score: 20.1 bits;  conditional E-value: 3.1e-08
                Clusterin 249 kqkkeedkegliskklpeqdralCrelrrnssgClklkekCekCqeilsedCpsv 303
                               q+k+  ++++  +++++ +r+   e+++++++Clk ++   +C+e+++++Cp+ 
  PHY93_07205|PHY93_07205  18 AQDKSAPQNNDNWSNISSSERKQMSEMHQKMADCLKSNKSISECREYMMTNCPDC 72 
                              333433344444555557789999****************************985 PP

>> CHCH  CHCH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.0      0.18   1.6e+03       5      13 ..       9      17 ..       7      21 .. 0.74
   2 ?   -2.9   0.7      0.93   8.3e+03      14      20 ..      25      31 ..      25      32 .. 0.77
   3 !   18.1   1.1   2.5e-07    0.0022       5      27 ..      45      66 ..      39      67 .. 0.93

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 0.18
                             HHHHHHHHH CS
                     CHCH  5 fkeylkClk 13
                             f+ +++C +
  PHY93_07205|PHY93_07205  9 FSVLISCSH 17
                             888999966 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 0.93
                             HCTSSTT CS
                     CHCH 14 dnsdefs 20
                             +n+d++s
  PHY93_07205|PHY93_07205 25 QNNDNWS 31
                             6889887 PP

  == domain 3  score: 18.1 bits;  conditional E-value: 2.5e-07
                             HHHHHHHHHHCTSSTTTTHHHHH CS
                     CHCH  5 fkeylkClkdnsdefskCrkefe 27
                             ++++ +Clk+n + +s+Cr++++
  PHY93_07205|PHY93_07205 45 HQKMADCLKSNKS-ISECREYMM 66
                             6899*********.********9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (89 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1778  (0.0991689); expected 358.6 (0.02)
Passed bias filter:                      738  (0.0411624); expected 358.6 (0.02)
Passed Vit filter:                        63  (0.00351386); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.41u 0.23s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 689.44
//
Query:       PHY93_07210|PHY93_07210  [L=290]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (290 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       588  (0.032796); expected 358.6 (0.02)
Passed bias filter:                      386  (0.0215294); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 2118.84
//
Query:       PHY93_07215|PHY93_07215  [L=149]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.6e-12   44.9   0.2    1.2e-11   44.7   0.2    1.2  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
    4.7e-09   36.5   0.1    5.8e-09   36.2   0.1    1.1  1  Acetyltransf_1   Acetyltransferase (GNAT) family
    2.9e-07   30.8   0.1      5e-07   30.1   0.1    1.3  1  Acetyltransf_7   Acetyltransferase (GNAT) domain
    0.00015   22.0   2.8    0.00079   19.6   2.8    1.9  1  Acetyltransf_4   Acetyltransferase (GNAT) domain
    0.00015   22.4   0.0    0.00017   22.3   0.0    1.1  1  Acetyltransf_3   Acetyltransferase (GNAT) domain
    0.00062   19.7   0.0    0.00097   19.1   0.0    1.4  1  FR47             FR47-like protein
     0.0062   16.7   0.0      0.023   14.8   0.0    1.8  2  Acetyltransf_CG  GCN5-related N-acetyl-transferase


Domain annotation for each model (and alignments):
>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.7   0.2   4.5e-15   1.2e-11      21     111 ..      47     141 ..      15     147 .. 0.78

  Alignments for each domain:
  == domain 1  score: 44.7 bits;  conditional E-value: 4.5e-15
          Acetyltransf_10  21 alrerieegealllvaeeggkivGviel.rdgs....hisllfVdpeyrgqGigkaLleaveeeaekdgikl.eltvnaspyavpf 100
                              ++++   + e ++++ e++++ +G++   ++++    hisll++ +e +g+G gk  +  +e++a+++++k+   + ++++ av+f
  PHY93_07215|PHY93_07215  47 RFQKSY-KLEWFHWI-ENQDERIGYVCFfQTENeneiHISLLIITRELQGNGHGKDVMFIIEQNAKQQNLKVaLSSFKENKRAVSF 130
                              444444.44444555.456677888866566666789*******************************9999666666677***** PP

          Acetyltransf_10 101 YeklGFkavge 111
                              Y++lG+k  ++
  PHY93_07215|PHY93_07215 131 YQNLGYKIASQ 141
                              ******97754 PP

>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.2   0.1   2.3e-12   5.8e-09      14     117 .]      37     136 ..      18     136 .. 0.79

  Alignments for each domain:
  == domain 1  score: 36.2 bits;  conditional E-value: 2.3e-12
                              HHHHHHHHHH.HHHHHHSTTC.EEEE.EEETTEEEEEEEEEEEETTSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHTTESE CS
           Acetyltransf_1  14 ppnedaseee.feesfsleae.gllv.aeedgeliGfisllkipdekggvayieslaVspeyrgkGlGsaLlealeerareegikk 96 
                              + + d+++ + f++      + +++  +e  +e iG++++++  +  +++++i  l + +e +g+G G+  +  +e+ a+++++k 
  PHY93_07215|PHY93_07215  37 FGWDDKFQSDrFQK----SYKlEWFHwIENQDERIGYVCFFQTEN--ENEIHISLLIITRELQGNGHGKDVMFIIEQNAKQQNLKV 116
                              34555555553333....34436666677779**********999..9************************************77 PP

                              EEEEEETTEHHHHHHHHHTTE CS
           Acetyltransf_1  97 ivlaveedndaairlYeklGF 117
                                l  ++ n++a+ +Y+ lG+
  PHY93_07215|PHY93_07215 117 -ALSSFKENKRAVSFYQNLGY 136
                              .99999**********87*98 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.1   0.1   1.9e-10     5e-07       5      75 ..      58     137 ..      53     138 .. 0.71

  Alignments for each domain:
  == domain 1  score: 30.1 bits;  conditional E-value: 1.9e-10
                              EEEEEETTEEEEEEEEEEES....TCTEE..EEE-GGGTTSSHHHHHHHHTT.....SEEEEEEEEE....THHHHHHHHHHTTEE CS
           Acetyltransf_7   5 vfVaeddgkivGfialslld....aeitr..laVdpeyrgkGiGraLleaae.....kgiileqlel....naekaikfYeklGFe 75 
                              ++ +e++++ +G++++  ++     +     l +  e +g+G G+  + ++e     ++++   + l    ++++a++fY+ lG++
  PHY93_07215|PHY93_07215  58 HW-IENQDERIGYVCFFQTEneneIH--IslLIITRELQGNGHGKDVMFIIEqnakqQNLK---VALssfkENKRAVSFYQNLGYK 137
                              46.8999********99999874444..36699***************5422222222222...22233333349**********8 PP

>> Acetyltransf_4  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   2.8   3.1e-07   0.00079      49     143 ..      55     145 ..      18     148 .. 0.80

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 3.1e-07
           Acetyltransf_4  49 eyvflvaesdrivGyaylgqfkkrakdwkaelsvylaerdnnkeglgrelidaleqvlkeqnienllaeiaspnensiqfhkalGF 134
                              e +  ++++d+ +Gy    q +    +++  +s ++  r  + +g g++ + ++eq +k+qn++  l   +++n+ ++ f+++lG+
  PHY93_07215|PHY93_07215  55 EWFHWIENQDERIGYVCFFQTEN---ENEIHISLLIITRELQGNGHGKDVMFIIEQNAKQQNLKVALS-SFKENKRAVSFYQNLGY 136
                              44555555**********99999...88899999999889**********************986554.477999*********** PP

           Acetyltransf_4 135 elvgifkkc 143
                              +++ + + +
  PHY93_07215|PHY93_07215 137 KIASQDEHF 145
                              *99876665 PP

>> Acetyltransf_3  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.3   0.0   6.6e-08   0.00017      45     138 .]      43     137 ..       7     137 .. 0.68

  Alignments for each domain:
  == domain 1  score: 22.3 bits;  conditional E-value: 6.6e-08
           Acetyltransf_3  45 waeeseeegyg....waivlkdtgviGsvglrdleeedeeaelgymla.psfwgkGyateavralleyafeelglerlvavidkeN 125
                              ++++  +++y       i +++++ iG+v +++ e+e+e +++++++  ++ +g+G +++++  + + a ++++l+ +     keN
  PHY93_07215|PHY93_07215  43 FQSDRFQKSYKlewfHWI-ENQDERIGYVCFFQTENENE-IHISLLIItRELQGNGHGKDVMFIIEQNA-KQQNLK-VALSSFKEN 124
                              222333333332220233.455546***********988.****8877477******************.666576.99999**** PP

           Acetyltransf_3 126 eaSirvleklGfe 138
                              ++ +  ++ lG++
  PHY93_07215|PHY93_07215 125 KRAVSFYQNLGYK 137
                              *********9985 PP

>> FR47  FR47-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   3.8e-07   0.00097      23      82 ..      82     141 ..      61     145 .. 0.92

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 3.8e-07
                              SEEEEEE-GGG-SSSHHHHHHHHHHHHHHHS-S-EEEEEETT-HHHHHHHHHHT-EEEEE CS
                     FR47  23 elgalqvlpehrrrGlgsrlvkalakeiaergktvllvvvasNtpsirlyeklGfekiee 82 
                               ++ l +  e ++ G g+ +   + ++  +++ +v l    +N+++ ++y+ lG++ + +
  PHY93_07215|PHY93_07215  82 HISLLIITRELQGNGHGKDVMFIIEQNAKQQNLKVALSSFKENKRAVSFYQNLGYKIASQ 141
                              58899999*******************999*************************98755 PP

>> Acetyltransf_CG  GCN5-related N-acetyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.0       1.2     3e+03      55      65 ..       5      15 ..       4      15 .. 0.88
   2 !   14.8   0.0   8.8e-06     0.023       7      62 ..      61     118 ..      55     121 .. 0.88

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 1.2
          Acetyltransf_CG 55 eeglkvvptCs 65
                             +++lk +p C+
  PHY93_07215|PHY93_07215  5 KNNLKLIPFCQ 15
                             689*******5 PP

  == domain 2  score: 14.8 bits;  conditional E-value: 8.8e-06
          Acetyltransf_CG   7 d.egeevafleY.evrkegvldfthTeVpeelrGkGiAkkLvkaalddareeglkvvp 62 
                              + ++e+++++ + ++++e+++++   ++  el+G G +k  +  + + a++++lkv +
  PHY93_07215|PHY93_07215  61 EnQDERIGYVCFfQTENENEIHISLLIITRELQGNGHGKDVMFIIEQNAKQQNLKVAL 118
                              3367899999886789999************************************976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (149 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       854  (0.0476323); expected 358.6 (0.02)
Passed bias filter:                      438  (0.0244297); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.44u 0.24s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1101.65
//
Query:       PHY93_07220|PHY93_07220  [L=122]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.3e-13   48.4   0.0    1.2e-12   48.0   0.0    1.0  1  NUDIX     NUDIX domain


Domain annotation for each model (and alignments):
>> NUDIX  NUDIX domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.0   0.0   6.5e-17   1.2e-12      34     123 ..      14     107 ..       3     116 .. 0.73

  Alignments for each domain:
  == domain 1  score: 48.0 bits;  conditional E-value: 6.5e-17
                              EEECBTTSHHHHHHHHHHHHHHSEEEEEEEEEEEEEEEEEEEEEEEE....EEEEEEEEE....EEECSGCSSTSTTTEEEEEEEE CS
                    NUDIX  34 gGkvepgEtpeeAArREleEEtGleaellellgrlhylapydgpygd....eheilyvfl....eevegelepndenevsevrwvp 111
                              +G+ve  E+p++AA RE++EE+G++  +l +l+++ ++  + +++      e++++        + ++ +++   ++e+ e rw++
  PHY93_07220|PHY93_07220  14 AGGVEGAESPAQAASREAFEEAGIQNANLIVLDSICCMPADIFRDWKhwpkETYVV---KefsfGVKTNDNNFVLSDEHTESRWCS 96 
                              8*************************999999999998887666664553222222...2344555555555557*********** PP

                              HHHHHHHHTHCT CS
                    NUDIX 112 leellkeklaae 123
                              ++e+    l+++
  PHY93_07220|PHY93_07220  97 YDEA-ISLLKWD 107
                              ****.3333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (122 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       413  (0.0230353); expected 358.6 (0.02)
Passed bias filter:                      306  (0.0170673); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.24s 00:00:00.64 Elapsed: 00:00:00.41
# Mc/sec: 889.18
//
Query:       PHY93_07225|PHY93_07225  [L=188]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (188 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       675  (0.0376485); expected 358.6 (0.02)
Passed bias filter:                      407  (0.0227007); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.19s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1365.07
//
Query:       PHY93_16390|PHY93_16390  [L=375]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (375 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       453  (0.0252663); expected 358.6 (0.02)
Passed bias filter:                      256  (0.0142785); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.22s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 2792.04
//
Query:       PHY93_07230|PHY93_07230  [L=178]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.2e-09   37.6   0.0    2.7e-09   37.3   0.0    1.2  1  Acetyltransf_1   Acetyltransferase (GNAT) family
    9.2e-06   25.6   0.0    1.4e-05   25.0   0.0    1.3  1  Acetyltransf_10  Acetyltransferase (GNAT) domain
     0.0012   19.5   0.0     0.0016   19.1   0.0    1.2  1  Acetyltransf_3   Acetyltransferase (GNAT) domain
     0.0086   16.5   0.0      0.015   15.7   0.0    1.4  1  Acetyltransf_7   Acetyltransferase (GNAT) domain
     0.0087   16.1   0.0        0.4   10.8   0.0    2.1  2  Acetyltransf_9   Acetyltransferase (GNAT) domain
  ------ inclusion threshold ------
      0.031   14.4   0.0      0.052   13.7   0.0    1.4  1  Acetyltransf_CG  GCN5-related N-acetyl-transferase
       0.16   12.1   0.0       0.21   11.7   0.0    1.2  1  Acetyltransf_6   Acetyltransferase (GNAT) domain


Domain annotation for each model (and alignments):
>> Acetyltransf_1  Acetyltransferase (GNAT) family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.3   0.0   1.1e-12   2.7e-09      26     108 ..      50     128 ..      14     137 .. 0.78

  Alignments for each domain:
  == domain 1  score: 37.3 bits;  conditional E-value: 1.1e-12
                              HHHHSTTCEEEE.EEETTEEEEEEEEEEEETTSTTEEEEEEEEESGGGTTSSHHHHHHHHHHHHHHHTTESEEEEEEETTEHHH CS
           Acetyltransf_1  26 esfsleaegllv.aeedgeliGfisllkipdekggvayieslaVspeyrgkGlGsaLlealeerareegikkivlaveedndaa 108
                                   +  +l++ a +d++l+G+  ++++      + y++  a+ peyr+kG+ ++L+++++ +a e g+++i   ++ dn+a 
  PHY93_07230|PHY93_07230  50 MC--TTQYRLYLtAWDDEKLVGWSWGFQKSG---LEFYMCNSAIFPEYRRKGIYTELVKKVVSKAQEDGFQEITSKHHLDNNAV 128
                              22..2333666669***************99...79*************************************99788887665 PP

>> Acetyltransf_10  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.0   0.0   5.4e-09   1.4e-05      19      90 ..      44     118 ..      25     129 .. 0.83

  Alignments for each domain:
  == domain 1  score: 25.0 bits;  conditional E-value: 5.4e-09
          Acetyltransf_10  19 pealrerieegealllvaeeggkivGvi.elrdgs...hisllfVdpeyrgqGigkaLleaveeeaekdgiklelt 90 
                              +++l+++++++  l+l a +++k+vG   + ++++   +++  ++ peyr++Gi ++L+++v ++a++dg + e+t
  PHY93_07230|PHY93_07230  44 TAELDKMCTTQYRLYLTAWDDEKLVGWSwGFQKSGlefYMCNSAIFPEYRRKGIYTELVKKVVSKAQEDGFQ-EIT 118
                              478999**9999999**********999666666678899999***********************999988.555 PP

>> Acetyltransf_3  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   0.0   6.1e-07    0.0016      54     129 ..      55     129 ..       7     137 .. 0.70

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 6.1e-07
           Acetyltransf_3  54 yg.waivlkdtgviGsv.glrdleeedeeaelgymlapsfwgkGyateavralleyafeelglerlvavidkeNeaSi 129
                              y  ++    d++ +G+  g+++   e         + p++++kG+ te v+ ++  a +e g +++ ++++ +N a i
  PHY93_07230|PHY93_07230  55 YRlYLTAWDDEKLVGWSwGFQKSGLEF--YMCNSAIFPEYRRKGIYTELVKKVVSKA-QEDGFQEITSKHHLDNNAVI 129
                              332444446665799998888776664..78889999********************.7888************9875 PP

>> Acetyltransf_7  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   5.8e-06     0.015       5      60 ..      58     123 ..      54     139 .. 0.68

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 5.8e-06
                              EEEEEETTEEEEEEEEEEES...TCTEEEEE-GGGTTSSHHHHHHHH.....TTSEEE.EE.EEEE CS
           Acetyltransf_7   5 vfVaeddgkivGfialslld...aeitrlaVdpeyrgkGiGraLlea.....aekgii.le.qlel 60 
                              ++ a dd+k vG       +   ++ ++ a+ peyr+kGi ++L++      +e g++ ++ + +l
  PHY93_07230|PHY93_07230  58 YLTAWDDEKLVGWSWGFQKSgleFYMCNSAIFPEYRRKGIYTELVKKvvskaQEDGFQeITsKHHL 123
                              567889999999665555556666666689***************954554322443322233344 PP

>> Acetyltransf_9  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.3   0.0     0.032        82       3      55 ..      17      69 ..       6      75 .. 0.67
   2 !   10.8   0.0   0.00016       0.4      77     106 ..      84     113 ..      80     117 .. 0.88

  Alignments for each domain:
  == domain 1  score: 3.3 bits;  conditional E-value: 0.032
                             EEE-GGGHHHHHHHHHHHTT----H..HHHHHHHHHHT..TSEEEEEEETTEEEE CS
           Acetyltransf_9  3 relteedldevlellkyaFqdeespleeireyfrklle..esrvlgaedngelvg 55
                             r++++e +++ +++   a   e ++    +++++k++      +l a+d+++lvg
  PHY93_07230|PHY93_07230 17 RKYRPEIFQDNNDIDINALYTESEKE--KTAELDKMCTtqYRLYLTAWDDEKLVG 69
                             66666677777777766666555553..334444444411457899*******98 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 0.00016
                              EEEEE-CCGTTS-HHHHHHHHHHHHHHHTT CS
           Acetyltransf_9  77 tgVavapehrgrgvlskLlaraleemreeg 106
                              +  a  pe+r++g+ ++L+++++ +++e+g
  PHY93_07230|PHY93_07230  84 CNSAIFPEYRRKGIYTELVKKVVSKAQEDG 113
                              666889****************99999886 PP

>> Acetyltransf_CG  GCN5-related N-acetyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0     2e-05     0.052      30      59 ..      86     115 ..      49     119 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 2e-05
          Acetyltransf_CG  30 TeVpeelrGkGiAkkLvkaalddareeglk 59 
                                + +e+r+kGi  +Lvk+++ +a+e g++
  PHY93_07230|PHY93_07230  86 SAIFPEYRRKGIYTELVKKVVSKAQEDGFQ 115
                              56789*********************9975 PP

>> Acetyltransf_6  Acetyltransferase (GNAT) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   8.2e-05      0.21      75     131 ..      60     117 ..      32     119 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 8.2e-05
           Acetyltransf_6  75 vlrldgrpvAvalglrsgd.rlyywlggydpelaklspgllllweliedaaeeGlrrf 131
                              +++ d+++v+  +g+++ +  +y+  +++ pe+++ ++++ l+ +++  a e+G++++
  PHY93_07230|PHY93_07230  60 TAWDDEKLVGWSWGFQKSGlEFYMCNSAIFPEYRRKGIYTELVKKVVSKAQEDGFQEI 117
                              5667899*********9996888888999*************************9875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (178 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       506  (0.0282224); expected 358.6 (0.02)
Passed bias filter:                      351  (0.0195772); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 1346.56
//
Query:       PHY93_07235|PHY93_07235  [L=205]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    9.7e-15   55.2   0.0    1.8e-14   54.3   0.0    1.4  1  TetR_C_33  Tetracyclin repressor-like, C-terminal domain
    1.1e-12   47.6   0.1    2.2e-12   46.5   0.1    1.6  1  TetR_N     Bacterial regulatory proteins, tetR family


Domain annotation for each model (and alignments):
>> TetR_C_33  Tetracyclin repressor-like, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.3   0.0     2e-18   1.8e-14       1      91 [.      93     185 ..      93     197 .. 0.90

  Alignments for each domain:
  == domain 1  score: 54.3 bits;  conditional E-value: 2e-18
                              HHHHHHHHHHHHHH-HHHHHHCCSS--TT-S-HGHHCCCCHHHHHHHHHHHGGG---TH--CC.HHHHHHHHHHHHHHHHHHHHCT CS
                TetR_C_33   1 lralarayrrfAlahpaeYallfgspvpgyaapdelaaagarvlalllaalaalvaaglppad.avaaaralwaalhGlvsLelfg 85 
                              l+ l+ +y ++A +hp +++l+f +++p+ ++ + l  a++++l+l+l ++++ ++a+  + d ++ +ar+lwaa+hG+  L ++ 
  PHY93_07235|PHY93_07235  93 LLKLGLGYFSWASEHPDHFRLMFSQNIPEFETSESLKIAADKILELVLSVVRENQEAKIIKIDeTRSVARQLWAAIHGATLLFIDR 178
                              578999**********************999989******************998888886666********************** PP

                              TT.TSSS CS
                TetR_C_33  86 hf.glpa 91 
                              +f +l+ 
  PHY93_07235|PHY93_07235 179 QFkPLGN 185
                              *965554 PP

>> TetR_N  Bacterial regulatory proteins, tetR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.5   0.1   2.5e-16   2.2e-12       1      47 []      21      67 ..      21      67 .. 0.98

  Alignments for each domain:
  == domain 1  score: 46.5 bits;  conditional E-value: 2.5e-16
                             HHHHHHHHHHHHHTTT--HHHHHHHHTSSHHHHHHHTSSHHHHHHHH CS
                   TetR_N  1 IldaArelfaerGydattvreIAkrAGvskgalYryFpsKeeLleal 47
                             Il + +++++e G +++++re+Ak+AGv+  a Yr+F++Ke+Ll+al
  PHY93_07235|PHY93_07235 21 ILTTSLQVIEEVGVAGLSIREVAKKAGVTHQAPYRHFSDKEALLAAL 67
                             8999****************************************996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (205 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       901  (0.0502538); expected 358.6 (0.02)
Passed bias filter:                      693  (0.0386525); expected 358.6 (0.02)
Passed Vit filter:                        59  (0.00329076); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.39
# Mc/sec: 1584.18
//
Query:       PHY93_07240|PHY93_07240  [L=297]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.9e-19   70.3   0.4    1.3e-16   61.0   0.3    2.1  2  Abhydrolase_1  alpha/beta hydrolase fold
    5.8e-19   68.3   0.0    7.7e-19   67.9   0.0    1.1  1  Hydrolase_4    Serine aminopeptidase, S33
    3.4e-18   67.1   0.0    4.1e-18   66.8   0.0    1.1  1  Abhydrolase_6  Alpha/beta hydrolase family
    0.00051   19.6   0.5      0.002   17.6   0.4    2.0  2  Peptidase_S9   Prolyl oligopeptidase family
     0.0015   18.3   0.0      0.052   13.3   0.0    2.2  2  Abhydrolase_5  Alpha/beta hydrolase family
     0.0016   18.1   0.0     0.0048   16.5   0.0    1.8  1  Peptidase_S15  X-Pro dipeptidyl-peptidase (S15 family)
     0.0057   15.4   0.1       0.42    9.2   0.1    2.1  2  AXE1           Acetyl xylan esterase (AXE1)
  ------ inclusion threshold ------
       0.15   11.7   0.0       0.18   11.4   0.0    1.3  1  Esterase       Putative esterase


Domain annotation for each model (and alignments):
>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   61.0   0.3   5.8e-20   1.3e-16       1     127 [.      55     177 ..      55     182 .. 0.92
   2 !    7.9   0.0   0.00098       2.2     206     255 ..     206     281 ..     175     283 .. 0.64

  Alignments for each domain:
  == domain 1  score: 61.0 bits;  conditional E-value: 5.8e-20
                              SEEEEE-STTTCGGGGTTGHHHHHHHHTTSEEEEEEETTSTTSSSTTTGB.CHHSHHHHHHHHHHHHHHCTTSSEEEEEETHHHHH CS
            Abhydrolase_1   1 pvlvilhGlpgssdvwaerglapaLakdgfdvillDlrGvgySspapacinddygtasvaddldrildalgddkltlvGhSmGGmi 86 
                              pv+v+++G++++ + ++   +ap L k+g++vi++D+rG g S++  +     y+  +v +d+ ++ d+lg d + ++G S GG+ 
  PHY93_07240|PHY93_07240  55 PVIVCIPGMGDTRGQFRF--IAPLLVKAGYRVITVDPRGQGNSDATFS----SYTASAVGEDIIKLIDQLGTDVF-VMGNSSGGAS 133
                              79**************99..************************9996....6******************9988.********** PP

                              HHHHHHHHGGGEEEEEEESE...CSSCCHHHHHHHHHHHHHHCH CS
            Abhydrolase_1  87 alayaaeyperVkalvllga...idpaaslieaqrqqaksfpdf 127
                              a+++a   p++Vk++++++a    +p + +++  +q+a + p++
  PHY93_07240|PHY93_07240 134 AAWVAGHLPQKVKGVIFIAAflrDHPLSLFNRILLQAALRGPWA 177
                              ********************888777777888777777777766 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.00098
                              C.........................THHHHSEEEEEEETTCSSSCH.HHHHHHHHC.HTSEEEEEEETCSSSHHHH CS
            Abhydrolase_1 206 e.........................lknvlaptlvisgtsDplvpp.kaledlaql.lpkkrlvvisdagHlafle 255
                              e                         lk++++p+l i+g++Dp + + +   ++  + l + ++  i++agH+ +le
  PHY93_07240|PHY93_07240 206 EslnqeghilalrqmvfasksdvevqLKDIKSPVLAIGGSKDPDFLNpEDEINWILKvLTG-EKAMIAGAGHYPHLE 281
                              13333445566666777777777888*************9998665444444443333555.777788888877765 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.9   0.0   3.4e-22   7.7e-19       5     203 ..      55     248 ..      52     281 .. 0.82

  Alignments for each domain:
  == domain 1  score: 67.9 bits;  conditional E-value: 3.4e-22
              Hydrolase_4   5 avvvlvHGlaehsgryaelaeaLaaqGfavyalDhrGhGrsegkrghvpsfddyvdDlaafvekvkeehpelplfllGhSmGGlia 90 
                               v+v ++G++++ g++  +a  L+++G+ v+++D rG+G+s+         + + +D+ ++++++      + +f++G S GG+ a
  PHY93_07240|PHY93_07240  55 PVIVCIPGMGDTRGQFRFIAPLLVKAGYRVITVDPRGQGNSDATFS-SYTASAVGEDIIKLIDQLG-----TDVFVMGNSSGGASA 134
                              589**************************************76666.88899**********9998.....89************* PP

              Hydrolase_4  91 llyllrypdkvaglilsaPalkikaklk.appllklllkllgkllpklqv..snnlkadslsrdpevvaayeadplvhgkitvrll 173
                              + ++ + p+kv+g+i++a++l+ ++  + ++++l   + l g+ + +  +   ++l  +   +d+e+     +++l +++  + l 
  PHY93_07240|PHY93_07240 135 AWVAGHLPQKVKGVIFIAAFLRDHPL-SlFNRILLQ-AALRGPWAASSWItyYDGLFISVPPKDQERYTNALKESLNQEGHILALR 218
                              **********************9986.446666665.5555555555555234455556666666666666677788777777777 PP

              Hydrolase_4 174 lelldamkrleeraakitlPllllhGeaDk 203
                              + ++   +++e + ++i+ P+l + G++D+
  PHY93_07240|PHY93_07240 219 QMVFASKSDVEVQLKDIKSPVLAIGGSKDP 248
                              777888889*******************97 PP

>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.8   0.0   1.8e-21   4.1e-18       1     217 [.      57     286 ..      57     289 .. 0.66

  Alignments for each domain:
  == domain 1  score: 66.8 bits;  conditional E-value: 1.8e-21
                              EEEE--GC.....GC.HHHHHHHHCCTCEEEEE--TTSTS-GGCS--HHH..C.HHHHHHHCCTT..TTSEEEEEETCHHHHHHHH CS
            Abhydrolase_6   1 vlllHGagssassWl.vapLaallaagvhvlapDlpGhGrsdpppldled..l.adlaalldelaagggpvvlvGHSlGGalalaa 82 
                              +++++G g ++++++  apL+    ag++v+++D +G+G sd    ++++  + +d+  l+d l   g +v+++G+S GGa a+ +
  PHY93_07240|PHY93_07240  57 IVCIPGMGDTRGQFRfIAPLLV--KAGYRVITVDPRGQGNSDATFSSYTAsaVgEDIIKLIDQL---GTDVFVMGNSSGGASAAWV 137
                              89************63677744..444666*********8888888888833246667777777...8*************89885 PP

                              HHCC....EE.EEES-..----TTT..S----TTHHHHHHTT-CCCCHCCHS-HSCCCCHHH.CCCCHCHCCCGHH.......HHC CS
            Abhydrolase_6  83 apla..lvvg.vlldppptalpagl..laaalelllallallrllawlsreplprlfladed.adaawrarlarla.......all 155
                              a ++   v g +++++     +++l  ++++l +++ ++++++   w ++  ++ lf++ ++ ++++++ +l + +       al+
  PHY93_07240|PHY93_07240 138 AGHLpqKVKGvIFIAA--FLRDHPLslFNRILLQAALRGPWAA-SSWITY--YDGLFISVPPkDQERYTNALKESLnqeghilALR 218
                              55556866779*****..4444444324444444444444444.599985..7778888666435555555555554444444333 PP

                              CHHC...HTTCCHHTT-TTGCEEE.CTT-C.......HHHHCHHCCCHSTTEEETCE...SSS-HHHHSHHHH CS
            Abhydrolase_6 156 aglg...llpaaawadlpvpllvl.ggeDp.......lvprllerllaqagarlpvvlpgaGHlphleepdev 217
                               +++         ++d+ +p+l + g++Dp        + + l+ l   ++      ++gaGH+phle pd++
  PHY93_07240|PHY93_07240 219 QMVFaskSDVEVQLKDIKSPVLAIgGSKDPdflnpedEINWILKVLTG-EK----AMIAGAGHYPHLEYPDQI 286
                              344433333366999999999888558888884444333344444444.44....5566********999997 PP

>> Peptidase_S9  Prolyl oligopeptidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.4     9e-07     0.002       3      97 ..      70     153 ..      68     158 .. 0.87
   2 ?   -2.2   0.0       1.1   2.4e+03     139     154 ..     231     247 ..     183     251 .. 0.53

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 9e-07
                              --HHHHHHHCCT-EEEEE--TTSSTTHCHHHHTTSGGGGHHHHHHHHHHHHHHHHTTS--GGGEEEEEETHHHHHHHHHHHH-GGG CS
             Peptidase_S9   3 fsselqlladrGyvvvvanirGsggyGeafhdagkrklgqnefdDfiaaaealakegyvdserlaitGgSyGGyltgaalnqrpdl 88 
                              f++ + ll ++Gy v+ +++rG g+   +f       + ++  +D+i+ ++ l        + ++++G S GG  +++++++ p++
  PHY93_07240|PHY93_07240  70 FRFIAPLLVKAGYRVITVDPRGQGNSDATFSS----YTASAVGEDIIKLIDQL-------GTDVFVMGNSSGGASAAWVAGHLPQK 144
                              777888999****************9999998....56667779********9.......678999****************9999 PP

                              -SEEEEESE CS
             Peptidase_S9  89 Fkaavaevp 97 
                               k+++  ++
  PHY93_07240|PHY93_07240 145 VKGVIFIAA 153
                              998886665 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 1.1
                              G--.---EEEEEEETT- CS
             Peptidase_S9 139 nvk.aypplLlihGlaD 154
                              ++k ++ p+L i G +D
  PHY93_07240|PHY93_07240 231 QLKdIKSPVLAIGGSKD 247
                              12245555555555555 PP

>> Abhydrolase_5  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.0   2.3e-05     0.052      39      97 ..      97     161 ..      60     171 .. 0.65
   2 ?    2.8   0.0     0.039        88      86     129 ..     221     267 ..     206     285 .. 0.70

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 2.3e-05
            Abhydrolase_5  39 avlgknkaeeiikeapkl.....ekfvvgGhslGGvvasrfaaee.ekiegvvflasYPekdels 97 
                              a +++  a+ + ++  kl      + +v G s GG+ a+ +a +  +k++gv+f+a++  +  ls
  PHY93_07240|PHY93_07240  97 ATFSSYTASAVGEDIIKLidqlgTDVFVMGNSSGGASAAWVAGHLpQKVKGVIFIAAFLRDHPLS 161
                              555555555444443332111123578999*********99987657**********98755555 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.039
            Abhydrolase_5  86 flasYPe.kdelselskkvlsivgteD.gvlnvk.slekakkflpkd 129
                               +as  + + +l++ + +vl+i g++D + ln + +++   k l+ +
  PHY93_07240|PHY93_07240 221 VFASKSDvEVQLKDIKSPVLAIGGSKDpDFLNPEdEINWILKVLTGE 267
                              4566666588999************9955666541555555666554 PP

>> Peptidase_S15  X-Pro dipeptidyl-peptidase (S15 family)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   2.1e-06    0.0048      52     243 ..      70     251 ..      20     277 .. 0.74

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 2.1e-06
                              H......HHHTT-EEEEEE-TTSTTS-S---TTTTTHHHHHHHHHHHHHHCTTEEEEEEEEEECHHHHHHHHHCTT--TTEEEEEE CS
            Peptidase_S15  52 v......fvarGYavVvqdvrGtggSeGeftvgdsdeaedgadvidWlakqpwsnGkVgmtGiSYlGttqllaaatgvpalkaivp 131
                              +      +v+ GY v+ +d rG+g+S+  f +  ++  + g d+i+ + +       V ++G+S +G  +  +a   ++++k ++ 
  PHY93_07240|PHY93_07240  70 FrfiaplLVKAGYRVITVDPRGQGNSDATFSS--YTASAVGEDIIKLIDQ---LGTDVFVMGNSSGGASAAWVAGHLPQKVKGVIF 150
                              045555589******************99988..6666677777765443...4457999*************9999999999999 PP

                              ECE.....-S-TCCCCSECTTEEBCCHHHHHHHHHCCCCHHTSSS-STTHHHHHHHHHHCHCCCCCCTTHHHTHHHHCCCC--SSS CS
            Peptidase_S15 132 eaa.....isdlyddyyregGlvrapgglswedldllaealtsrradegdalkaaaryeaasdellaeldrqtpveselletgdyd 212
                              +aa       +l++ ++ +  l   +++ sw  +++  +   s ++++++++++a + e+    l +e               ++ 
  PHY93_07240|PHY93_07240 151 IAAflrdhPLSLFNRILLQAALRGPWAASSW--ITYYDGLFISVPPKDQERYTNALK-ES----LNQEGHIL---------ALRQM 220
                              9986667767777777777777777788888..888888888888888877777665.22....22222222.........33446 PP

                              HHHHTT-HHHHHCT--S-EEEEEECCSSTTC CS
            Peptidase_S15 213 afWkdrnlsedadkvkapvllvgGwnDwnvk 243
                               f  + +++ +++ +k pvl +gG  D  ++
  PHY93_07240|PHY93_07240 221 VFASKSDVEVQLKDIKSPVLAIGGSKDPDFL 251
                              6777777777778888888888888885555 PP

>> AXE1  Acetyl xylan esterase (AXE1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.6   0.0    0.0047        11      83     130 ..      54     102 ..      43     118 .. 0.64
   2 !    9.2   0.1   0.00019      0.42     174     211 ..     120     158 ..     102     176 .. 0.79

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.0047
                              EEEEEEEE-TT--GGGHHHHH.HHHHTT-EEEEEE-TTTS..SSB-SSC CS
                     AXE1  83 lPavvefhGYegsrgeihdll.nyaaaGyavvvmdvRGqggesedkvgs 130
                               P++v   G   +rg+   +    + aGy v+++d RGqg + +  ++ 
  PHY93_07240|PHY93_07240  54 GPVIVCIPGMGDTRGQFRFIApLLVKAGYRVITVDPRGQGNSDATFSSY 102
                              566666666666666555443135789************9443333333 PP

  == domain 2  score: 9.2 bits;  conditional E-value: 0.00019
                              EEEEEEEETHHHHHHH.HHHHH-SS-SEEEEES-SSSSH CS
                     AXE1 174 eRvavlGasqGGalal.avaalekrikavvadyPfLsdf 211
                              + v+v+G+s GGa a  +++ l +++k v+    fL d+
  PHY93_07240|PHY93_07240 120 TDVFVMGNSSGGASAAwVAGHLPQKVKGVIFIAAFLRDH 158
                              4599********9765166679*************9886 PP

>> Esterase  Putative esterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   8.1e-05      0.18     117     159 ..     122     178 ..      54     229 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 8.1e-05
                              EEEEEETHHHHHHHHHHHCSTTTCCEEEEES--S-CC..............HCHHHC CS
                 Esterase 117 ravaGqSmGGlgALilalkhpdrFgsvssfSpivnps..............namWgq 159
                                v+G S GG +A ++a + p++ + v+  ++++                   +W +
  PHY93_07240|PHY93_07240 122 VFVMGNSSGGASAAWVAGHLPQKVKGVIFIAAFLRDHplslfnrillqaalRGPWAA 178
                              679****************************99876677777777777666555544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (297 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       426  (0.0237604); expected 358.6 (0.02)
Passed bias filter:                      421  (0.0234815); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 2160.41
//
Query:       PHY93_07245|PHY93_07245  [L=426]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.064   13.6   0.1         20    5.6   0.0    2.9  2  Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
      0.081   12.9   0.0         19    5.3   0.0    2.3  2  Cytochrome_C7    Cytochrome c7 and related cytochrome c
       0.11   13.6   0.1         30    5.8   0.1    2.8  2  Cytochrom_C      Cytochrome c
        0.2   12.6   0.2          7    7.6   0.0    2.4  2  Cytochrome_C554  Cytochrome c554 and c-prime


Domain annotation for each model (and alignments):
>> Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   0.0    0.0045        20      12      30 ..     138     162 ..     132     192 .. 0.67
   2 ?    4.7   0.0    0.0083        37       2      19 ..     322     341 ..     321     365 .. 0.83

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.0045
          Cytochrome_CBB3  12 knCasCHg......kggagpslagr 30 
                               +Ca CH       ++g g+ l g 
  PHY93_07245|PHY93_07245 138 IQCALCHStvdnslTEGIGNRLDGW 162
                              58*****966555555666666643 PP

  == domain 2  score: 4.7 bits;  conditional E-value: 0.0083
          Cytochrome_CBB3   2 aaaaGaalykk..nCasCHg 19 
                              aa +G+ +++   +C sCH 
  PHY93_07245|PHY93_07245 322 AASRGQIIFEGkaKCISCHV 341
                              6778888888667******5 PP

>> Cytochrome_C7  Cytochrome c7 and related cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.3   0.0    0.0042        19       9      23 ..     133     147 ..     127     164 .. 0.75
   2 ?    5.2   0.0    0.0047        21      12      55 ..     332     341 ..     303     364 .. 0.65

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.0042
            Cytochrome_C7   9 lkatgykCtdCHskl 23 
                              lk++g +C+ CHs++
  PHY93_07245|PHY93_07245 133 LKSVGIQCALCHSTV 147
                              455688999999998 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.0047
            Cytochrome_C7  12 tgykCtdCHsklfeskakkkmaemekgkskkaevesltCgaCHd 55 
                               ++k                                  C++CH 
  PHY93_07245|PHY93_07245 332 GKAK----------------------------------CISCHV 341
                              2334..................................555553 PP

>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.0   0.0     0.012        55      11      36 ..     139     184 ..     126     199 .. 0.73
   2 ?    5.8   0.1    0.0067        30       1      16 [.     323     340 ..     323     426 .] 0.89

  Alignments for each domain:
  == domain 1  score: 5.0 bits;  conditional E-value: 0.012
                              TGGGTB-SSSBSSS........................--HHHHHH CS
              Cytochrom_C  11 nCaaCHgvegggakqgg....................gptlsgaae 36 
                              +Ca CH+  ++  ++g                     +p+l+ +++
  PHY93_07245|PHY93_07245 139 QCALCHSTVDNSLTEGIgnrldgwpnrdlnvgavvamAPNLKPIQD 184
                              7*****9998888887756666666666666666666666666555 PP

  == domain 2  score: 5.8 bits;  conditional E-value: 0.0067
                              X--HHHHH.H.TTGGGTB CS
              Cytochrom_C   1 aarGkelf.t.anCaaCH 16 
                              a rG+ +f   a+C +CH
  PHY93_07245|PHY93_07245 323 ASRGQIIFeGkAKCISCH 340
                              579999**8448****** PP

>> Cytochrome_C554  Cytochrome c554 and c-prime
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.1     0.077   3.4e+02      75      84 .]     136     145 ..     123     147 .. 0.77
   2 ?    7.6   0.0    0.0016         7      26      69 ..     312     354 ..     297     363 .. 0.67

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.077
                              BSS-HHHHH- CS
          Cytochrome_C554  75 agVqCesCHg 84 
                               g+qC  CH+
  PHY93_07245|PHY93_07245 136 VGIQCALCHS 145
                              4899999995 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0016
                              STTSSHHHHHHTT--TTS--TT-TTTGGGSBSTTTSTT---SSS CS
          Cytochrome_C554  26 kkekkaeakkkakldpakdaeeapeClkCHatgagkdkgfvlke 69 
                              k+++k + +k+a  + +   e +++C++CH++    + g+ +++
  PHY93_07245|PHY93_07245 312 KPDDK-TFNKEAASRGQIIFEGKAKCISCHVPPLYTEPGWNMHS 354
                              44444.34455556667778899********9876666665544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (426 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       452  (0.0252106); expected 358.6 (0.02)
Passed bias filter:                      436  (0.0243181); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.41
# Mc/sec: 3108.72
//
Query:       PHY93_07250|PHY93_07250  [L=346]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.047   12.3   0.0      0.074   11.6   0.0    1.2  1  DUF1347   Protein of unknown function (DUF1347)


Domain annotation for each model (and alignments):
>> DUF1347  Protein of unknown function (DUF1347)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   4.1e-06     0.074     330     415 ..     182     271 ..     166     278 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 4.1e-06
                  DUF1347 330 dislskklllsekelveivfeddvqysrlkdylllweeidiadvdkqqlvkylikiakqlwrlGt.eekalrll...kvilvfsqs 411
                              d  +s  ++ ++  lv   fe d ++s+   yl  +++++   +d+q+  ++ +ki++    +   e  a+++l   kv+ vfs s
  PHY93_07250|PHY93_07250 182 DNAFSGMIIAANSSLVAATFEADRNFSKAATYLSRFKNQEESSLDRQNGSEFNLKISRSPEPGNDaEMDAVQVLlkgKVLYVFSAS 267
                              4566777889999*******************************************998776666565666654455678889877 PP

                  DUF1347 412 ekes 415
                              +++ 
  PHY93_07250|PHY93_07250 268 NQKE 271
                              6554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (346 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       428  (0.0238719); expected 358.6 (0.02)
Passed bias filter:                      341  (0.0190195); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 2574.42
//
Query:       PHY93_07255|PHY93_07255  [L=173]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
     0.0037   16.4   0.1     0.0046   16.1   0.1    1.1  1  AGT        DNA alpha-glucosyltransferase
  ------ inclusion threshold ------
       0.04   13.6   0.1      0.047   13.3   0.1    1.1  1  Chorion_3  Chorion family 3
      0.079   13.8   0.2       0.11   13.3   0.2    1.2  1  DUF4280    Domain of unknown function (DUF4280)
       0.11   12.3   0.1       0.17   11.7   0.1    1.3  1  FAM193_C   FAM193 family C-terminal


Domain annotation for each model (and alignments):
>> AGT  DNA alpha-glucosyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.1     1e-06    0.0046      30      92 ..      93     155 ..      70     163 .. 0.87

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 1e-06
                              --TTTTSSS-TTTEEEE-TTTHHHHHHHHHTSSSEEEEEE--BTTS-HHHHHHHHHHHHCS-T CS
                      AGT  30 sftrtsshdhksfsipvilakeydkalklvndcdiliinsvpatsvqeatinnykklldnikp 92 
                               ft  s  + k + +  +   ey+k +++ n c+  i  ++   + q+  i ++kkll n + 
  PHY93_07255|PHY93_07255  93 KFTEISEDQAKKMDLTDVQMDEYNKNIEIFNLCNDQISSTITKKTPQKQIISQWKKLLKNSNV 155
                              599999999*************************************************99765 PP

>> Chorion_3  Chorion family 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.1     1e-05     0.047      10     110 ..      29     137 ..       6     158 .. 0.74

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1e-05
                Chorion_3  10 laaaplasasYGsagggGGkGsgdlgagasagleelvnaa...aGGaassg........Gaiegadaeivaspeeagrlssvqaql 84 
                              ++  + a+a+ G+a++ GG G + ++++a+a l   + +    + Gaa  g        G+   + +ei  s ++a+++  +  q+
  PHY93_07255|PHY93_07255  29 IVTFAAATAAIGGASALGGVGVAVAATAAGAELPTALAVPlflVEGAALIGglvflkdeGNSSIKFTEI--SEDQAKKMDLTDVQM 112
                              45555699***********************99988877533367888888788888777777777777..566666666666668 PP

                Chorion_3  85 qalnanipYkklkksntiaeslaepq 110
                              +  n ni   +l + ++i++ +++  
  PHY93_07255|PHY93_07255 113 DEYNKNIEIFNLCN-DQISSTITKKT 137
                              88888887666554.66777777644 PP

>> DUF4280  Domain of unknown function (DUF4280)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.2   2.5e-05      0.11      36      77 ..     110     150 ..      85     168 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 2.5e-05
                  DUF4280  36 tekDavpkenikpfgkCkskknpkvaaatCepkilkeWknvs 77 
                               ++D ++++ni+ f  C+ + +++++++t + +i+++Wk+  
  PHY93_07255|PHY93_07255 110 VQMD-EYNKNIEIFNLCNDQISSTITKKTPQKQIISQWKKLL 150
                              3456.9***********************9999*****9875 PP

>> FAM193_C  FAM193 family C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.1   3.7e-05      0.17       7      31 ..     104     127 ..     101     155 .. 0.74

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 3.7e-05
                 FAM193_C   7 KidldsnemDeterElEeFKRFCLd 31 
                              K+dl +++mDe ++ +E F   C d
  PHY93_07255|PHY93_07255 104 KMDLTDVQMDEYNKNIEIFN-LCND 127
                              69*****************6.5655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (173 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1029  (0.0573931); expected 358.6 (0.02)
Passed bias filter:                      467  (0.0260472); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1267.14
//
Query:       PHY93_07260|PHY93_07260  [L=78]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.2e-08   34.1   4.3    3.9e-08   33.8   4.3    1.1  1  DoxX      DoxX
  ------ inclusion threshold ------
      0.017   15.3   1.9      0.021   14.9   1.9    1.1  1  DoxX_2    DoxX-like family
      0.053   13.4   1.3      0.057   13.3   1.3    1.1  1  DoxD      TQO small subunit DoxD


Domain annotation for each model (and alignments):
>> DoxX  DoxX
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.8   4.3   6.5e-12   3.9e-08      13      79 ..       2      60 ..       1      63 [. 0.90

  Alignments for each domain:
  == domain 1  score: 33.8 bits;  conditional E-value: 6.5e-12
                     DoxX 13 fiahGlqkltgfglegtaaslaalglpppellaylaalvElvgglllllGlltRlaAlalavtllva 79
                             f+ +G +k+t        a+++ l +p  ++ ayl+ +vElvg  ll+lGlltRl  + l+v+++v+
  PHY93_07260|PHY93_07260  2 FLQSGCEKVT--------AFFTELAIPLSMIQAYLVSAVELVGRALLILGLLTRLTVIPLIVIIVVV 60
                             6666666666........99**999*9************************************9985 PP

>> DoxX_2  DoxX-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   1.9   3.5e-06     0.021      22      74 ..       8      60 ..       2      64 .. 0.78

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 3.5e-06
                   DoxX_2 22 eevvakfaqlgfpssfvrl..lGvvellgalgLllplvtaprltplAavglallm 74
                             e+v+a f++l++p s++++  + +vel+g ++L+l+l   +rlt++  +++++++
  PHY93_07260|PHY93_07260  8 EKVTAFFTELAIPLSMIQAylVSAVELVGRALLILGL--LTRLTVIPLIVIIVVV 60
                             678899999999988865444***************7..5677777777666655 PP

>> DoxD  TQO small subunit DoxD
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   1.3   9.5e-06     0.057      63     100 ..      21      58 ..       2      67 .. 0.74

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 9.5e-06
                     DoxD  63 llvtalvlftlvEiivGlllliGlltRlsslvafalal 100
                              l + +  l+++vE +   ll++GlltRl+ + ++++ +
  PHY93_07260|PHY93_07260  21 LSMIQAYLVSAVELVGRALLILGLLTRLTVIPLIVIIV 58 
                              444555678999*9999***********9887766543 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (78 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       723  (0.0403257); expected 358.6 (0.02)
Passed bias filter:                      406  (0.0226449); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.41u 0.23s 00:00:00.64 Elapsed: 00:00:00.41
# Mc/sec: 571.47
//
Query:       PHY93_07265|PHY93_07265  [L=118]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (118 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       414  (0.0230911); expected 358.6 (0.02)
Passed bias filter:                      333  (0.0185733); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 914.04
//
Query:       PHY93_07270|PHY93_07270  [L=206]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    9.5e-47  158.8   0.3    1.2e-46  158.5   0.3    1.1  1  FMN_bind_2    Putative FMN-binding domain
  ------ inclusion threshold ------
       0.01   15.8   0.0      0.012   15.6   0.0    1.3  1  Pyridox_ox_2  Pyridoxamine 5'-phosphate oxidase
       0.13   12.3   0.3       0.28   11.2   0.2    1.6  1  DUF4951       Domian of unknown function (DUF4951)


Domain annotation for each model (and alignments):
>> FMN_bind_2  Putative FMN-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  158.5   0.3   2.1e-50   1.2e-46       1     166 [.       1     159 [.       1     161 [. 0.97

  Alignments for each domain:
  == domain 1  score: 158.5 bits;  conditional E-value: 2.1e-50
                              XXXXXXXXX--HCHHHHHHHHS-EEEEEEEETTEEEEEEEE-EE...-TTSSEEEEEEETTSGGGGGT.TTS-EEEEEEEEEEEE- CS
               FMN_bind_2   1 MYipkefaeedleelrqlirenplgtLvtaiesglqashiPflldeeekgkgkLrgHlaraNpqakaleeeeevlvvfqgpdaYvs 86 
                              MYipk  + +dle l+ +i ++++gtLv +++++l a+h Pfll +e++g+ +L +Hlar+Npq+++l+ e+ ++v+f+gp+aY+s
  PHY93_07270|PHY93_07270   1 MYIPKYSSITDLEFLKLFILNHSFGTLVNSSKNELSANHYPFLL-TEDNGEIVLWTHLARNNPQWQELSREQ-CMVIFTGPQAYIS 84 
                              ********************************************.8899999****************6666.************* PP

                              CCCSSTTS-....--EEEEEEEEEEEEEEE---HHHHHHHHHHHHHHHS---...--S-------HCHHHCTEEEEEEEE CS
               FMN_bind_2  87 PswYtekkettkvvPTWnYaaVhvyGkakviedeeelrkqledltdqaEaerkkpwkvedapekyiekllkaIvgieiei 166
                              Ps+Y ++     +vPTWnY+aVh++++a+vi+d++  +++++++++ +E++++++w+++  pe + ekllkaIv i++++
  PHY93_07270|PHY93_07270  85 PSYYINNL----NVPTWNYTAVHAKCEAEVISDNDLEKELMKKMVQFYENRNQTNWNYN-LPEGFHEKLLKAIVWIKLKV 159
                              ******95....6*************************************9999**998.*****************998 PP

>> Pyridox_ox_2  Pyridoxamine 5'-phosphate oxidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.6   0.0   2.1e-06     0.012      75     140 ..      94     165 ..      18     166 .. 0.74

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 2.1e-06
                              G.EEEEEEEEEEEEEEEE--HHHHHHHCCCHHHHHSTTT...GGCSB..---CCCCCTEEEEEEEEEEEEEE CS
             Pyridox_ox_2  75 n.slnyrSVvvrGraeevtdeeekaealellvekivpgr...wenlr..pptrkelkatsvlrlkieevsgr 140
                                ++ny+ V ++++ae+++d + ++e+++++v+ + +++   w+ +      +k lka+ +++lk+ ++ g+
  PHY93_07270|PHY93_07270  94 VpTWNYTAVHAKCEAEVISDNDLEKELMKKMVQFYENRNqtnWNYNLpeGFHEKLLKAIVWIKLKVISLDGK 165
                              44679***************************9885544667875554566888899999999998887776 PP

>> DUF4951  Domian of unknown function (DUF4951)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.2   4.7e-05      0.28      35      80 ..     107     153 ..      98     156 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 4.7e-05
                  DUF4951  35 dveiikqkGvtlemikawqefyeqeaqrdan.nPtaryrarlmkkiv 80 
                              + e+i ++ +  e++k   +fye++ q + n n    +  +l+k iv
  PHY93_07270|PHY93_07270 107 EAEVISDNDLEKELMKKMVQFYENRNQTNWNyNLPEGFHEKLLKAIV 153
                              67899999999****************9987466678999**99997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (206 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1059  (0.0590663); expected 358.6 (0.02)
Passed bias filter:                      547  (0.0305092); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.42
# Mc/sec: 1482.24
//
Query:       PHY93_07275|PHY93_07275  [L=196]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.5e-28  100.1   0.0    1.7e-28   99.9   0.0    1.0  1  HAD_2            Haloacid dehalogenase-like hydrolase
    1.5e-14   54.8   0.0    2.2e-13   51.0   0.0    2.0  1  Hydrolase        haloacid dehalogenase-like hydrolase
    4.5e-05   23.4   0.0    7.2e-05   22.8   0.0    1.3  1  Hydrolase_like   HAD-hyrolase-like
    9.7e-05   22.9   0.0    0.00029   21.3   0.0    1.6  1  HAD              haloacid dehalogenase-like hydrolase
    0.00035   20.1   0.0     0.0004   19.9   0.0    1.2  1  Put_Phosphatase  Putative Phosphatase


Domain annotation for each model (and alignments):
>> HAD_2  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   99.9   0.0   4.8e-32   1.7e-28       1     178 []      12     189 ..      12     189 .. 0.95

  Alignments for each domain:
  == domain 1  score: 99.9 bits;  conditional E-value: 4.8e-32
                    HAD_2   1 iiFDlDgTlldteeliiqafnelleeyglselseeelrkliglslrellrklgeseeeeekieellrkyneekkk..kevkpydgv 84 
                              ++FDlDgTl+dt +l+ q++ e+l+++++ ++++e l+++ g+++ ++++ ++++   + + e +++k +++  +  ++v+p++  
  PHY93_07275|PHY93_07275  12 LLFDLDGTLADTMPLHNQSWIETLKSFDC-KMTNEILNEYAGIPNIKTVKLFNQRFGWSLDPELVVKKKEAKVLEklDFVSPIEST 96 
                              69*************************99.************************99999899999999999988867788888888 PP

                    HAD_2  85 kelLeeLkeagyklgivTsksreaveekleqlgiesyFdvivtsedvekkKPdpeviekaleklklkkeeviyvGDsptDieaakk 170
                               ++++   + +  ++iv+ ++r  ve  l+++ + +yF+v v++e + + KP+p++++ a ++l+++++++++++D   +i++a+ 
  PHY93_07275|PHY93_07275  97 LKIVKHY-HGKKPMAIVSGGNRFLVELILQRMMLLEYFSVLVSAESTVRGKPSPDPFLFAARELNVSPANCLVFEDGLPGIKGAQS 181
                              8888886.9999************************************************************************** PP

                    HAD_2 171 agikviav 178
                               g+ v+ v
  PHY93_07275|PHY93_07275 182 CGMSVVQV 189
                              ***99865 PP

>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.0   0.0     6e-17   2.2e-13       3     210 .]      11     183 ..       9     183 .. 0.85

  Alignments for each domain:
  == domain 1  score: 51.0 bits;  conditional E-value: 6e-17
                              EEEEESBTTTBCHHHHHHHHHHHHCHHHHHHHHHHHHCHHHHHH.HHHHHHHHHHHHHHHHETTTEHHHHTHHHHHHHHHCHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase   3 tvvfDkdGTLttgepsvedvivsaalalaaaletgsehpigkal.vaaakarsgaltgfatfigrgayaigkpewltaldippdlg 87 
                              +++fD+dGTL ++ p + + + +                    l    +k   + l ++a ++   ++   ++++  +l       
  PHY93_07275|PHY93_07275  11 ALLFDLDGTLADTMPLHNQSWIET-------------------LkSFDCKMTNEILNEYAGIPNIKTVKLFNQRFGWSL------- 70 
                              89**********************...................734555555777799999777777777777777777....... PP

                              HHHHHHHHHCHHHHHHTTHHHHHHHHHHTHHBHTTHHHHHHHHHHTTE.EEEEEESSEHHHHHHHHHHTT.GGGESEEEEHHCESS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxx RF
                Hydrolase  88 aaigsaqsqgrtvallqaralavftiadplkvkpeaaeavasLkaagi.evvlltgdnpetaeraanqlG.ddyfdaviasdietv 171
                                      + + v+ +  ++  v++  d  ++ + + + v++ +  g  ++++++g+n+  +e +++++   +yf++ ++++ ++ 
  PHY93_07275|PHY93_07275  71 --------DPELVVKK--KEAKVLEKLDFVSPIESTLKIVKHYH--GKkPMAIVSGGNRFLVELILQRMMlLEYFSVLVSAESTVR 144
                              ........44444444..88888888888777888888888888..7757******************888*************** PP

                              TTTSHHHHHHHHHHHTSTGGGEEEEESSHHHHHHHHHTT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 172 akpspegkvaaireLqgkpeevamVGDgvnDaaalaaAg 210
                              +kpsp+ ++ a+reL+++p+++++++Dg+ ++++++  g
  PHY93_07275|PHY93_07275 145 GKPSPDPFLFAARELNVSPANCLVFEDGLPGIKGAQSCG 183
                              ********************************9998765 PP

>> Hydrolase_like  HAD-hyrolase-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.8   0.0     2e-08   7.2e-05       1      49 [.     143     190 ..     143     194 .. 0.95

  Alignments for each domain:
  == domain 1  score: 22.8 bits;  conditional E-value: 2e-08
                              E.STTSSHHHHHHHHHH---GGGEEEEES-TTTHHHHHHHCT-EEEEES CS
           Hydrolase_like   1 vlgKPepemydfalevlgsdpeevlmiGDrlatDiagAnnaGwksvLVl 49 
                              v+gKP+p  + fa+++l++ p+++l+  D     i+gA+  G++ v Vl
  PHY93_07275|PHY93_07275 143 VRGKPSPDPFLFAARELNVSPANCLVFEDG-LPGIKGAQSCGMSVVQVL 190
                              57****************************.**************9997 PP

>> HAD  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.0     8e-08   0.00029       2     123 ..      13     128 ..      12     152 .. 0.66

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 8e-08
                      HAD   2 lfDfDgTLldgdsle..lllrfllrrgaprlwralreklllalfrellrldraglaelleallagls.eelaaelerfvaevirpk 84 
                              lfD+DgTL d+ +l+   +++  l++++ +   +++ ++  + + +         + + +++  +l+ e + +  e+ v    ++k
  PHY93_07275|PHY93_07275  13 LFDLDGTLADTMPLHnqSWIE-TLKSFDCKMTNEILNEYAGIPNIKTV-------KLFNQRFGWSLDpELVVKKKEAKV----LEK 86 
                              8**********8888877777.88887766655555555555544444.......447777777777333333333333....444 PP

                      HAD  85 ..lldp..galellaahraaGdrvvvvSgglrplvepllaelg 123
                                +  p    l+++++ +    + ++vSgg+r+lve +l+++ 
  PHY93_07275|PHY93_07275  87 ldFVSPieSTLKIVKHYH-GKKPMAIVSGGNRFLVELILQRMM 128
                              223555558888888443.3349****************8776 PP

>> Put_Phosphatase  Putative Phosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.9   0.0   1.1e-07    0.0004       4     125 ..      13     142 ..      10     165 .. 0.73

  Alignments for each domain:
  == domain 1  score: 19.9 bits;  conditional E-value: 1.1e-07
          Put_Phosphatase   4 vfDFDktiide...dsdnwvvdelpat.elfeelretl...rkglwnelmdrvl.kelheqgvseadikkvlrsiplspglvelik 81 
                              +fD D t+ d      ++w+ ++  ++ ++++e+ +++   ++    +l ++ +   l+ + v +++ +kvl+++ +++ + + +k
  PHY93_07275|PHY93_07275  13 LFDLDGTLADTmplHNQSWIETLKSFDcKMTNEILNEYagiPNIKTVKLFNQRFgWSLDPELVVKKKEAKVLEKLDFVSPIESTLK 98 
                              5666666666533245566665554432334444444311144444444444441467777788888899**************** PP

          Put_Phosphatase  82 slakkkleldliiiSDaNsffieeileaagledlFseiftNPaa 125
                               +++++ +  + i+S  N+f +e il+ + l ++Fs + +  ++
  PHY93_07275|PHY93_07275  99 IVKHYHGKKPMAIVSGGNRFLVELILQRMMLLEYFSVLVSAEST 142
                              **99999****************************998876665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (196 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       359  (0.0200234); expected 358.6 (0.02)
Passed bias filter:                      344  (0.0191868); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.44u 0.24s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1485.71
//
Query:       PHY93_16395|PHY93_16395  [L=376]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (376 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       672  (0.0374812); expected 358.6 (0.02)
Passed bias filter:                      456  (0.0254337); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.26s 00:00:00.78 Elapsed: 00:00:00.43
# Mc/sec: 2649.09
//
Query:       PHY93_07280|PHY93_07280  [L=61]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
  ------ inclusion threshold ------
       0.07   12.0   0.0      0.079   11.8   0.0    1.0  1  FBPase_glpX  Bacterial fructose-1,6-bisphosphatase, glpX-enco


Domain annotation for each model (and alignments):
>> FBPase_glpX  Bacterial fructose-1,6-bisphosphatase, glpX-encoded
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   4.4e-06     0.079     130     165 ..      15      50 ..       6      53 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 4.4e-06
              FBPase_glpX 130 vidldapveenlkavakalgkevedltvvvLdrpRh 165
                              ++ +d+ + e  +++ak  + +++dl v+ + r R 
  PHY93_07280|PHY93_07280  15 KVMIDKEAMESFERMAKYTKTPIQDLLVIAMKRFRS 50 
                              799******************************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (61 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       707  (0.0394333); expected 358.6 (0.02)
Passed bias filter:                      511  (0.0285013); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.24s 00:00:00.64 Elapsed: 00:00:00.41
# Mc/sec: 446.67
//
Query:       PHY93_07285|PHY93_07285  [L=337]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.9e-57  193.1   0.0    1.7e-53  181.3   0.0    2.1  2  CCP_MauG         Di-haem cytochrome c peroxidase
    1.5e-09   38.9   0.0    3.5e-06   28.1   0.0    2.5  2  Cytochrom_C      Cytochrome c
     0.0015   17.2   0.1     0.0045   15.7   0.0    1.8  2  DHOR             Di-haem oxidoreductase, putative peroxidase
     0.0035   17.3   0.0        2.7    8.1   0.0    2.3  2  Cytochrome_C7    Cytochrome c7 and related cytochrome c
  ------ inclusion threshold ------
      0.017   15.4   5.0        1.6    9.1   0.1    3.6  2  Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
      0.052   14.5   0.5        2.2    9.2   0.3    2.4  2  Cytochrome_C554  Cytochrome c554 and c-prime
       0.13   12.6   0.1        3.7    8.0   0.0    2.5  2  DUF1924          Domain of unknown function (DUF1924)
       0.15   12.6   0.1         11    6.5   0.0    2.3  2  Cytochrom_c3_2   Cytochrome c3


Domain annotation for each model (and alignments):
>> CCP_MauG  Di-haem cytochrome c peroxidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  181.3   0.0   7.6e-57   1.7e-53       2     149 ..      37     185 ..      36     186 .. 0.98
   2 !    9.8   0.0   0.00051       1.1      21      79 ..     201     289 ..     196     317 .. 0.65

  Alignments for each domain:
  == domain 1  score: 181.3 bits;  conditional E-value: 7.6e-57
                              HHHHHHHHHHC-GGGSTTSS--HHHHSGCCCTTS-SSSSBBEGGGEBSSS----STTGGGSSSBSTTEEBSSHHHHHHHHHHHTTT CS
                 CCP_MauG   2 ekveLGkkLFfdkrLSgngkisCasCHdpaagftdglkvslgvegrlgarnaptllnaafnkglfwdgraesleeqalgPllnpve 87 
                              ek++LGk L+fd+r+S ng+isC+sCH++  g++d+++vs+gv+g++g r apt++n+af++ +fwdgra+sle+qa+gP+ np e
  PHY93_07285|PHY93_07285  37 EKINLGKSLYFDPRMSINGTISCNSCHNLMLGGEDQRSVSVGVNGQKGGRSAPTVWNSAFHTVQFWDGRAKSLEDQAVGPIGNPIE 122
                              689*********************************9************************************************* PP

                              TH.SSHHHHHHHHHTSHHHHHHHHHHCT.SCCSHHHHHHHHHHHHTT--STTSHHHHHHTTSC CS
                 CCP_MauG  88 mgnaskeevverlaaspeYaelfeaafg.ekitfaniakAiaayertlvsaeskfDrylkgde 149
                              mg+++ e v+ rl+++p Y e+fe+afg ++i+ +ni+kAia++ertl++ +s+fD+y++g++
  PHY93_07285|PHY93_07285 123 MGMPHFEMVIGRLKQIPGYVEMFEKAFGkDSISKDNIGKAIASFERTLIAGNSPFDKYMHGNK 185
                              ****************************9889*****************************97 PP

  == domain 2  score: 9.8 bits;  conditional E-value: 0.00051
                              S--HHHHSGCCCTTS-SSSSBBE.............GGGEBSS......................S----STTGGGSSSBSTTEEB CS
                 CCP_MauG  21 kisCasCHdpaagftdglkvslg.............vegrlga......................rnaptllnaafnkglfwdgra 71 
                              ++ C  CH  a+   ++lk+ +g             v     +                       ++pt  n+a+   +f++g++
  PHY93_07285|PHY93_07285 201 EVGCVVCHAGANFNGENLKMGEGnfqkfpvftdndfV-----KkynfmadtgrfdftknendkhmWRVPTWRNIALTAPYFHNGSV 281
                              678*****75555545545555544433333333330.....1444444444455555555555489******************* PP

                              SSHHHHHH CS
                 CCP_MauG  72 esleeqal 79 
                              ++l e + 
  PHY93_07285|PHY93_07285 282 RTLDEAVT 289
                              *9988764 PP

>> Cytochrom_C  Cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.6   0.0    0.0019       4.1      11      71 ..      58     127 ..      39     166 .. 0.74
   2 !   28.1   0.0   1.5e-09   3.5e-06       1      91 [.     192     315 ..     192     316 .. 0.95

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.0019
                              TGGGTB-SSSBSSS.................--HHHHHHHTTT-HHHHHHHHTTSS--SSSHHHHHHHGGGGGG CS
              Cytochrom_C  11 nCaaCHgvegggakqgg.............gptlsgaaerasaasigasvanpaavsaprddfekkkltaempa 71 
                               C +CH +  gg  q +             +pt ++ a    ++++g+ ++   ++     ++ +++ ++ mp 
  PHY93_07285|PHY93_07285  58 SCNSCHNLMLGGEDQRSvsvgvngqkggrsAPTVWNSAFHTVQFWDGRAKSLEDQAV----GPIGNPIEMGMPH 127
                              8*******9999998889999999999998888888888888888888887775444....4444444444444 PP

  == domain 2  score: 28.1 bits;  conditional E-value: 1.5e-09
                              X--HHHHH.HTTGGGTB.-SSSBSSS..............................................--HHHHHHHTTT-H CS
              Cytochrom_C   1 aarGkelf.tanCaaCH.gvegggakqgg..........................................gptlsgaaerasaas 42 
                              a+rG +l+ + +C+ CH g++ +g +  +                                          +pt +++a +a++++
  PHY93_07285|PHY93_07285 192 AQRGMKLVqEVGCVVCHaGANFNGENLKMgegnfqkfpvftdndfvkkynfmadtgrfdftknendkhmwrVPTWRNIALTAPYFH 277
                              689*****888******98888888766699******************************************************* PP

                              HHHHHHHTTSS--SSSHHHHHHHGGGGGGG.TT--HHHHHHHHHHHHTT CS
              Cytochrom_C  43 igasvanpaavsaprddfekkkltaemparkerlteqeiadlaaYLksl 91 
                              +g++++  +av  +++ + + +           l++ ++ d++a+L sl
  PHY93_07285|PHY93_07285 278 NGSVRTLDEAVTVMAKVQLNLD-----------LKDNQVSDIVAFLESL 315
                              **********************...........*************998 PP

>> DHOR  Di-haem oxidoreductase, putative peroxidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.1   0.0      0.48   1.1e+03      70      77 ..      57      64 ..      52      80 .. 0.73
   2 !   15.7   0.0     2e-06    0.0045     355     494 .]     189     315 ..     183     315 .. 0.77

  Alignments for each domain:
  == domain 1  score: -2.1 bits;  conditional E-value: 0.48
                     DHOR 70 asCnsCha 77
                              sCnsCh+
  PHY93_07285|PHY93_07285 57 ISCNSCHN 64
                             46777775 PP

  == domain 2  score: 15.7 bits;  conditional E-value: 2e-06
                     DHOR 355 daevieGaklFeqvgCaeChtpkfttkaedeisglhliaelkgqtiyPytDlLLhDmGegLaD.nrqdflasgaeWrtrpLWGiGl 439
                                ++ +G kl ++vgC  Ch            +++  + e + q+   +tD       + +aD +r df+ + ++   + +W +  
  PHY93_07285|PHY93_07285 189 TVQAQRGMKLVQEVGCVVCHAGANFN------GENLKMGEGNFQKFPVFTDNDFVKKYNFMADtGRFDFTKNEND---KHMWRVPT 265
                              56899***************976666......3444455666699999***9999999999*9557788877765...67899999 PP

                     DHOR 440 tqtvnpqagfLhDGRartleeailWhGGeaeaskekflalskaeRaallkFlksL 494
                               +++   a + h+G  rtl ea+        a+ +  l l++++ +++++Fl+sL
  PHY93_07285|PHY93_07285 266 WRNIALTAPYFHNGSVRTLDEAVTV-----MAKVQLNLDLKDNQVSDIVAFLESL 315
                              9999999***************953.....3444445566666666666666665 PP

>> Cytochrome_C7  Cytochrome c7 and related cytochrome c
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.9   0.0    0.0028       6.3       6      23 ..      50      66 ..      32      91 .. 0.74
   2 !    8.1   0.0    0.0012       2.7      33      60 ..     186     214 ..     170     234 .. 0.66

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.0028
            Cytochrome_C7  6 kshlkatgykCtdCHskl 23
                               +++  + +C++CH+ +
  PHY93_07285|PHY93_07285 50 RMSIN-GTISCNSCHNLM 66
                             45555.467888888866 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.0012
            Cytochrome_C7  33 aemekgkskkaeves.ltCgaCHdgknaf 60 
                              ++m+ + ++  +  + + C  CH g n +
  PHY93_07285|PHY93_07285 186 KAMTVQAQRGMKLVQeVGCVVCHAGANFN 214
                              33344444444444445599999888766 PP

>> Cytochrome_CBB3  Cytochrome C oxidase, cbb3-type, subunit III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   1.4     0.023        51      12      22 ..      57      69 ..      53     138 .. 0.60
   2 ?    9.1   0.1   0.00071       1.6       3      28 ..     192     219 ..     190     312 .. 0.64

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.023
          Cytochrome_CBB3 12 knCasCHg..kgg 22
                              +C+sCH    gg
  PHY93_07285|PHY93_07285 57 ISCNSCHNlmLGG 69
                             58*****966332 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.00071
          Cytochrome_CBB3   3 aaaGaalykk.nCasCHg.kggagpsla 28 
                              a++G +l ++  C+ CH+ ++ +g +l+
  PHY93_07285|PHY93_07285 192 AQRGMKLVQEvGCVVCHAgANFNGENLK 219
                              688999999989*****82222233333 PP

>> Cytochrome_C554  Cytochrome c554 and c-prime
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.8   0.0       0.1   2.3e+02      76      83 ..      56      63 ..      29      75 .. 0.76
   2 ?    9.2   0.3   0.00098       2.2      60      83 ..     185     208 ..     177     209 .. 0.74

  Alignments for each domain:
  == domain 1  score: 2.8 bits;  conditional E-value: 0.1
                             SS-HHHHH CS
          Cytochrome_C554 76 gVqCesCH 83
                              ++C+sCH
  PHY93_07285|PHY93_07285 56 TISCNSCH 63
                             46777777 PP

  == domain 2  score: 9.2 bits;  conditional E-value: 0.00098
                              TSTT---SSS--GGGBSS-HHHHH CS
          Cytochrome_C554  60 gkdkgfvlkektkllagVqCesCH 83 
                              +k  +++ +  +kl+++V+C +CH
  PHY93_07285|PHY93_07285 185 KKAMTVQAQRGMKLVQEVGCVVCH 208
                              44444556667899********** PP

>> DUF1924  Domain of unknown function (DUF1924)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   0.0    0.0016       3.7       8      38 ..      39      68 ..      32      78 .. 0.74
   2 ?    1.8   0.1      0.14   3.2e+02      18      35 ..     193     210 ..     181     222 .. 0.75

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.0016
                             HHHHHHHHH---SSS-TT-SSTHHHH-SSTT CS
                  DUF1924  8 aerGealfkkkvktkkgkelsCasCHgedpt 38
                             ++ G++l+    +++ + ++sC sCH   + 
  PHY93_07285|PHY93_07285 39 INLGKSLYFDP-RMSINGTISCNSCHNLMLG 68
                             56799999776.66667789******86655 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.14
                              --SSS-TT-SSTHHHH-S CS
                  DUF1924  18 kvktkkgkelsCasCHge 35 
                              ++ +k  +e+ C  CH+ 
  PHY93_07285|PHY93_07285 193 QRGMKLVQEVGCVVCHAG 210
                              4566777899******75 PP

>> Cytochrom_c3_2  Cytochrome c3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.5   0.0     0.005        11      49      66 ..      47      64 ..      24      71 .. 0.77
   2 ?    3.7   0.0     0.038        86      52      67 ..     195     210 ..     177     222 .. 0.60

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.005
                             SBTTSSCTSSS-GGGTS- CS
           Cytochrom_c3_2 49 anphkshekeleCteCHk 66
                              +p  s++++++C++CH+
  PHY93_07285|PHY93_07285 47 FDPRMSINGTISCNSCHN 64
                             566778889999999997 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.038
                              TSSCTSSS-GGGTS-T CS
           Cytochrom_c3_2  52 hkshekeleCteCHke 67 
                                +  +e+ C  CH++
  PHY93_07285|PHY93_07285 195 GMKLVQEVGCVVCHAG 210
                              3344466666666654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (337 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       674  (0.0375927); expected 358.6 (0.02)
Passed bias filter:                      617  (0.0344135); expected 358.6 (0.02)
Passed Vit filter:                        57  (0.00317921); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.56u 0.22s 00:00:00.78 Elapsed: 00:00:00.42
# Mc/sec: 2400.03
//
Query:       PHY93_07290|PHY93_07290  [L=268]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.4e-10   38.8   0.0    1.6e-08   34.0   0.0    2.2  2  HlyD_D23         Barrel-sandwich domain of CusB or HlyD membr
    1.2e-06   29.2   0.0    1.1e-05   26.1   0.0    2.2  2  HlyD_3           HlyD family secretion protein
    4.6e-06   25.6   0.8    4.2e-05   22.5   0.0    2.0  2  HlyD_2           HlyD family secretion protein
  ------ inclusion threshold ------
      0.014   15.7   0.0      0.037   14.4   0.0    1.7  1  DUF3221          Protein of unknown function (DUF3221)
      0.014   15.2   0.2       0.52   10.2   0.0    3.0  3  Biotin_lipoyl_2  Biotin-lipoyl like
       0.11   12.8   0.1        4.6    7.5   0.0    2.6  3  Peptidase_M23    Peptidase family M23


Domain annotation for each model (and alignments):
>> HlyD_D23  Barrel-sandwich domain of CusB or HlyD membrane-fusion
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   0.0     0.015        45      20      50 ..      68      97 ..      53      99 .. 0.74
   2 !   34.0   0.0   5.5e-12   1.6e-08     105     184 ..      98     177 ..      96     184 .. 0.96

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.015
                             XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                 HlyD_D23 20 arvsarveGwveklyvnatgdkVkkGqpLae 50
                              + +++    ++k++ + +gd VkkG pL++
  PHY93_07290|PHY93_07290 68 FTFNPHSGQEIDKIFFK-EGDIVKKGMPLLQ 97
                             445566666799****9.**********986 PP

  == domain 2  score: 34.0 bits;  conditional E-value: 5.5e-12
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                 HlyD_D23 105 vqktvtvkapisGvVteknvreGqyvqpgdtlftiadlstVWveaevyeqqlalvkvgqkvevtvealpgktfeGkvdyi 184
                              + ++v ++ap+sG+V  +    G+   ++++++ ++d+ + ++ a + +q++++vkvgqkv++++e+l+ k f Gkv++i
  PHY93_07290|PHY93_07290  98 TAERVIIRAPFSGLVHLRPYKIGENTYAAMPMIVLTDITDRYILATMEQQKASRVKVGQKVKISFESLQPKYFWGKVSAI 177
                              678999***********************************************************************998 PP

>> HlyD_3  HlyD family secretion protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   0.0      0.39   1.2e+03      12      30 ..      80      98 ..      72     101 .. 0.79
   2 !   26.1   0.0   3.6e-09   1.1e-05       2      76 ..     104     177 ..     103     196 .. 0.87

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 0.39
                   HlyD_3 12 elnveegevvqagdellei 30
                             ++  +eg++v +g +ll+ 
  PHY93_07290|PHY93_07290 80 KIFFKEGDIVKKGMPLLQT 98
                             455589**********996 PP

  == domain 2  score: 26.1 bits;  conditional E-value: 3.6e-09
                   HlyD_3   2 lrApvdGvvvelnveegevvqagdelleiippdtllveakvpaadlgsikkkgqkvtlkldqgsdytlkgkieri 76 
                              +rAp++G v+  +++ ge   a  ++  +++  +  + a++ ++ ++++k +gqkv++ +++ + +   gk++ i
  PHY93_07290|PHY93_07290 104 IRAPFSGLVHLRPYKIGENTYAAMPMIVLTDITDRYILATMEQQKASRVK-VGQKVKISFESLQPKYFWGKVSAI 177
                              8******************************9999999***********5.*********954434455777776 PP

>> HlyD_2  HlyD family secretion protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.5   0.2     0.032        94      10      90 ..      14      94 ..      11     102 .. 0.68
   2 !   22.5   0.0   1.4e-08   4.2e-05     258     350 ..     128     224 ..     118     228 .. 0.91

  Alignments for each domain:
  == domain 1  score: 1.5 bits;  conditional E-value: 0.032
                   HlyD_2 10 rkrfnvlillvviiliYivvnlvisiikstie.Teivkngeieesikkkgliirdekviksnaegi.v.kyfvkeGdkvkkgkk 90
                             r   ++l ll+vi+l+ i +   i+i +++ +    ++ g+i  ++   g+i  d      ++ g+ + k f+keGd vkkg  
  PHY93_07290|PHY93_07290 14 R---KYLSLLFVILLVGIGITARIVIKAYSGQlSAPIQRGKIIDAVYGYGTITTDRRFTFNPHSGQeIdKIFFKEGDIVKKGMP 94
                             3...456666555555554555555555444413457899999999*******99998877777742436799******99865 PP

  == domain 2  score: 22.5 bits;  conditional E-value: 1.4e-08
                   HlyD_2 258 pifkivnnqkwYlvtlvekeevkslkegkkvkvkvddee...inakvykiykedeksvvifkieeenaeflkkrieeveI.iykki 339
                              p++ + +    Y+++++e+++++ +k+g+kvk++++  +   + +kv  i  + +k ++ + +++  + +l +   +v+I i ++ 
  PHY93_07290|PHY93_07290 128 PMIVLTDITDRYILATMEQQKASRVKVGQKVKISFESLQpkyFWGKVSAIFLHPNKTLIQIYTADLPETILPNMTCNVDIlIGERE 213
                              66778888999*************************99988999***********************************9566788 PP

                   HlyD_2 340 eGlkiPkdsiv 350
                              + l iP  s +
  PHY93_07290|PHY93_07290 214 NALLIPISSLA 224
                              99****99976 PP

>> DUF3221  Protein of unknown function (DUF3221)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0   1.2e-05     0.037      38      62 ..     138     163 ..     122     167 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 1.2e-05
                  DUF3221  38 aiwv.lidsdkvsnlevGqkVrVwfd 62 
                               +++ +++++k s+++vGqkV++ f+
  PHY93_07290|PHY93_07290 138 RYILaTMEQQKASRVKVGQKVKISFE 163
                              4555699*****************98 PP

>> Biotin_lipoyl_2  Biotin-lipoyl like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0   0.00017      0.52      10      30 ..      74      95 ..      70      97 .. 0.85
   2 ?    0.3   0.0      0.21   6.3e+02       3      13 ..     102     112 ..     100     113 .. 0.85
   3 ?   -0.5   0.2      0.38   1.1e+03      17      25 ..     151     159 ..     149     160 .. 0.83

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00017
          Biotin_lipoyl_2 10 sG.rVaqlnVkdGqrVkaGdvL 30
                             sG  + +++ k+G+ Vk+G  L
  PHY93_07290|PHY93_07290 74 SGqEIDKIFFKEGDIVKKGMPL 95
                             888999*************665 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.21
          Biotin_lipoyl_2   3 vsIaapvsGrV 13 
                              v I ap+sG+V
  PHY93_07290|PHY93_07290 102 VIIRAPFSGLV 112
                              88*******99 PP

  == domain 3  score: -0.5 bits;  conditional E-value: 0.38
          Biotin_lipoyl_2  17 nVkdGqrVk 25 
                              +Vk Gq Vk
  PHY93_07290|PHY93_07290 151 RVKVGQKVK 159
                              589999998 PP

>> Peptidase_M23  Peptidase family M23
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.6   0.0     0.053   1.6e+02      21      68 ..      49      94 ..      34     102 .. 0.69
   2 ?    7.5   0.0    0.0015       4.6      15      64 ..     103     159 ..      95     161 .. 0.72
   3 ?   -2.4   0.0       1.9   5.7e+03      15      29 ..     219     234 ..     210     265 .. 0.66

  Alignments for each domain:
  == domain 1  score: 2.6 bits;  conditional E-value: 0.053
                             SEEEEEEEEETTTEEEEEEEECTCEEEEEEEESEESS-TTEEE-TTCE CS
            Peptidase_M23 21 dGtVvfagkkegyGnvviidhgdgystlyahlskisvkegqkVkaGqv 68
                              G+++ a +  gyG+++  +  +   +    ++ki  keg+ Vk+G +
  PHY93_07290|PHY93_07290 49 RGKIIDAVY--GYGTITTDRRFTFNPHSGQEIDKIFFKEGDIVKKGMP 94
                             566666655..56655555544444555567889999********976 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0015
                              EEEESSSEEE....EEEEEETTT.EEEEEEEE.CTCEEEEEEEESEES.S-TTEEE- CS
            Peptidase_M23  15 pVlAaadGtV....vfagkkegy.Gnvviidh.gdgystlyahlskis.vkegqkVk 64 
                               ++A+ +G V    +++g+++ +   ++++++ +d y+   +  +k s vk+gqkVk
  PHY93_07290|PHY93_07290 103 IIRAPFSGLVhlrpYKIGENTYAaMPMIVLTDiTDRYILATMEQQKASrVKVGQKVK 159
                              699*******988878888542235555555547778888888777667*******8 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 1.9
                              EEEESSSEEE.EEEEE CS
            Peptidase_M23  15 pVlAaadGtV.vfagk 29 
                              p+ + a+G V v+ gk
  PHY93_07290|PHY93_07290 219 PISSLANGYVwVKRGK 234
                              5666677777444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (268 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       618  (0.0344693); expected 358.6 (0.02)
Passed bias filter:                      548  (0.030565); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.49u 0.23s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 2002.75
//
Query:       PHY93_07295|PHY93_07295  [L=424]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.047   14.2   0.0      0.087   13.3   0.0    1.5  1  Glucosaminidase  Mannosyl-glycoprotein endo-beta-N-acetylgluc
       0.05   13.2   0.0       0.88    9.2   0.0    2.3  2  SLT              Transglycosylase SLT domain
        0.1   12.5   0.2       0.68    9.8   0.0    2.2  2  DUF5591          Domain of unknown function (DUF5591)


Domain annotation for each model (and alignments):
>> Glucosaminidase  Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   1.5e-05     0.087       3      44 ..     119     161 ..     117     254 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.5e-05
                              HHHHHHHHCT.-HHHHHHHHHHHHTTTTCHHHHHCT-T.SE.B CS
          Glucosaminidase   3 aaleaakkygippsvalaqaalEsgwgtsrlakeqnNl.fGik 44 
                              a+++a+ kygipp+++++    Esg  t  +a+++ N+ +G++
  PHY93_07295|PHY93_07295 119 AIIAASVKYGIPPQILIGALKQESGLSTIGVAPDGGNYsCGMA 161
                              789999****************************999955753 PP

>> SLT  Transglycosylase SLT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   0.0   0.00015      0.88       2      68 ..     119     189 ..     118     196 .. 0.75
   2 ?    1.4   0.0     0.039   2.3e+02      86     100 ..     309     323 ..     281     334 .. 0.86

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.00015
                              HHHHHHHHHTS-HHHHHHHHHHHHTT-TT-B-...TTSEBTTTTBETTTHHHHHHHHT.-SHHHHCSHHHH CS
                      SLT   2 liikaekkygvepsllaaiaqvESgfnpkAvs...ksgavGLmQimpstakrlglrvk.lsedelldPekn 68 
                              +ii+a+ kyg++p++l    ++ESg+    v    ++ + G+ Q++ +   +   ++  +++de+  P+ +
  PHY93_07295|PHY93_07295 119 AIIAASVKYGIPPQILIGALKQESGLSTIGVApdgGNYSCGMAQMNIQEWCESINQLPkEKRDERGWPVIS 189
                              6899***********************9999955455599*999997766555444444566666666555 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.039
                              HHHHHHHHHHH-HHH CS
                      SLT  86 slllalaAYNaGegt 100
                               +lla+a YNaG+ +
  PHY93_07295|PHY93_07295 309 GWLLAVAMYNAGPVQ 323
                              58999*******976 PP

>> DUF5591  Domain of unknown function (DUF5591)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.0   0.00011      0.68      48      78 ..     275     305 ..     265     339 .. 0.84
   2 ?   -0.1   0.0      0.12   7.5e+02      85     122 ..     366     403 ..     347     418 .. 0.81

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00011
                              -...SEEEEE-SS-.EEEGGGTT-------- CS
                  DUF5591  48 rkakvheviltsPlGvvPreleevYPaaqYd 78 
                                ++++  + +s +G  Pr  e+ YP+a Y 
  PHY93_07295|PHY93_07295 275 SLREAELYSASSSFGTFPRHCERAYPVAAYP 305
                              44567778899******************96 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.12
                              --HHHHHHHHHHHHHHHHHHT-SEEEE---THHHHHHH CS
                  DUF5591  85 wseeeiefvaellakylektkyekviahleeeyreive 122
                              ++++ +ef++++ ++ + +++  +vi h+    ++i++
  PHY93_07295|PHY93_07295 366 YDQNGKEFTQRWYKSCVVQKHVARVIQHVTIFSENIAR 403
                              77888899999999999999999999999876666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (424 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       546  (0.0304535); expected 358.6 (0.02)
Passed bias filter:                      507  (0.0282782); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.43
# Mc/sec: 2930.83
//
Query:       PHY93_07300|PHY93_07300  [L=117]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.9e-31  108.6   0.2    3.2e-31  108.4   0.2    1.0  1  DUF488    Protein of unknown function, DUF488


Domain annotation for each model (and alignments):
>> DUF488  Protein of unknown function, DUF488
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  108.4   0.2   1.8e-35   3.2e-31       1     121 [.       3     112 ..       3     113 .. 0.97

  Alignments for each domain:
  == domain 1  score: 108.4 bits;  conditional E-value: 1.8e-35
                   DUF488   1 slervyd.llkkdgvrvlvDVRlwPrSrnpgfskealkedlkeagiaYvwlkelgpsrelrkwfkhdp.rweefferYaaeleske 84 
                              +++rvy+   k+dg+rvlvD RlwPr    g++k++l  d         w kel+ps+elrk f hdp ++++f+++Y++el++  
  PHY93_07300|PHY93_07300   3 KIKRVYEaEDKADGYRVLVD-RLWPR----GIKKSDLPFDE--------WPKELCPSTELRKSFAHDPlKFKDFKKEYKKELAN-I 74 
                              69*****99***********.*****....***********........***********************************.6 PP

                   DUF488  85 aakealeelkelakkg.vaLlcaekdperchrvvlaey 121
                               a+++++ l+el++k+ v+Ll+a++d++ +h+ +l+++
  PHY93_07300|PHY93_07300  75 SAQKEIKFLAELSAKRnVTLLYAARDEKINHAIILKKI 112
                              788********************************976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (117 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       717  (0.0399911); expected 358.6 (0.02)
Passed bias filter:                      407  (0.0227007); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 880.66
//
Query:       PHY93_07305|PHY93_07305  [L=524]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.3e-38  130.5  47.2    5.3e-37  127.3  27.0    4.8  2  MCPsignal        Methyl-accepting chemotaxis protein (MCP) si
      3e-13   49.7   3.3      3e-13   49.7   3.3    4.2  4  4HB_MCP_1        Four helix bundle sensory module for signal 
    2.4e-07   30.9   3.4    2.4e-07   30.9   3.4    3.6  3  TarH             Tar ligand binding domain homologue
  ------ inclusion threshold ------
      0.057   12.8   1.9       0.13   11.6   1.3    2.0  2  DUF599           Protein of unknown function, DUF599
       0.35   11.3   4.2       0.64   10.5   0.2    3.3  3  FAA_hydro_N_2    Fumarylacetoacetase N-terminal domain 2
        1.1    9.6  30.1    1.9e+02    2.4   0.1    5.9  3  DUF948           Bacterial protein of unknown function (DUF94
        3.7    6.4  29.6     0.0095   14.9   4.1    3.2  3  Vps53_N          Vps53-like, N-terminal


Domain annotation for each model (and alignments):
>> MCPsignal  Methyl-accepting chemotaxis protein (MCP) signalling domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.0   6.8    0.0036       9.2     104     171 ..     210     277 ..     181     278 .. 0.77
   2 !  127.3  27.0   2.1e-40   5.3e-37       3     169 ..     291     486 ..     289     489 .. 0.90

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.0036
                              ......HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal 104 dsvesleetrqrveegselveetgealkeiveavaevadlvqeiaaaseeqsasieevnqaveevakv 171
                              + +  +  ++q v+  s+l ++ +++  e+++a++++a+  +++++a  eq++s+ee++++++e++++
  PHY93_07305|PHY93_07305 210 SFTICIYIANQLVKILSTLSNDLNSSSMEVSAAAEQIASASEQLSQANVEQASSLEETSSSIQEMSSM 277
                              55555666677777777777888888889999********************************9876 PP

  == domain 2  score: 127.3 bits;  conditional E-value: 2.1e-40
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHH.....................HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCCC CS
                MCPsignal   3 laeeaseeAeeggkevanvvkqmeeieks.....................skeisdiieVideiadQTNlLALNAaiEAARAGeqG 67 
                              ++ +++e+A +g+++v+n+++ ++ei++s                      +ei d ++Vi++i +QT lL  NA++EAARAGe+G
  PHY93_07305|PHY93_07305 291 VSGQSQENALKGKEVVQNMISSINEITDSnndimnqinqsnkeiseivkvIAEIGDKTKVINDIVFQTKLLSFNASVEAARAGEHG 376
                              67799**************************************999988888899999**************************** PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHHH....H..................HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHH CS
                MCPsignal  68 rGFaVVAdEVrkLAersaqaakeieal....iieiqkeindsv....esleetrqrveegselveetgealkeiveavaevadlvq 145
                              +GFaVVA+EV +LA+ s +aa ei+++    i+++++ +nds     + + e +++v++g+ +++e g +l++iv+ +++v+++ +
  PHY93_07305|PHY93_07305 377 KGFAVVAEEVGNLAQMSGKAASEITEMldgsIKKVERIVNDSKtkveRLVREGKSKVDKGTGIARECGVVLEDIVSDISSVSEMAN 462
                              ************************9874444556666556554111145678899******************************* PP

                              HHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal 146 eiaaaseeqsasieevnqaveeva 169
                              eia++s+eqs++i+e+++a+++++
  PHY93_07305|PHY93_07305 463 EIAVSSQEQSQGISEITKAMNQIN 486
                              *********************997 PP

>> 4HB_MCP_1  Four helix bundle sensory module for signal transduction
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.7   3.3   1.2e-16     3e-13       4     171 ..       8     182 ..       6     191 .. 0.88
   2 ?    1.0   1.3       0.1   2.7e+02     143     172 ..     255     284 ..     234     293 .. 0.52
   3 ?    3.2   3.0     0.022        57     147     179 ..     301     333 ..     280     335 .. 0.76
   4 ?   -1.3   0.0      0.54   1.4e+03     141     178 ..     437     473 ..     416     476 .. 0.73

  Alignments for each domain:
  == domain 1  score: 49.7 bits;  conditional E-value: 1.2e-16
                4HB_MCP_1   4 irkKLillflllallliivGvvGlyslkkinknletmYedrllpikdlgeikanlrelradllelilt...kdkaekdellkdiee 86 
                              ir +L+l+ +l+++ l+ivG++G++ +++++++l+  Y++rl+  ++l++i++ ++++ ++ +  +     +d++e+++ l+++++
  PHY93_07305|PHY93_07305   8 IRARLLLVSVLSVVSLLIVGITGFFAVSSLADKLDVAYNQRLKLSQELSNIESGIHAVFRYEWVALSDdkiEDRKERQQFLEKVKD 93 
                              899*********************************************************9998887645578999********** PP

                4HB_MCP_1  87 leaeidkllekyektilteeEke.lleefkeqlnaYrevrkkvlelakegkkd...eAyqlyetegrparekliealeelvdlnlk 168
                              +   +d+  ++y  ++  +e +e l++++  +++  +++ ++v    ++++     +A+ l +t+ r+a+  + ea+  l d  l+
  PHY93_07305|PHY93_07305  94 KIVAVDTAVKNYAAIKKSPEAQEvLVQKLLPNWEITKKALEEVTLELNKNDSSsndKAKVLIKTKQRNAAVPVAEAVAWLQDKALS 179
                              ********************8888************99888887666666643344***********9999998888777776655 PP

                4HB_MCP_1 169 vAe 171
                                +
  PHY93_07305|PHY93_07305 180 TNK 182
                              555 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.1
                4HB_MCP_1 143 lyetegrparekliealeelvdlnlkvAee 172
                              + + e +++ e++ ++++e++ + +k +e+
  PHY93_07305|PHY93_07305 255 QANVEQASSLEETSSSIQEMSSMVSKTSEN 284
                              222222245555555555555555555555 PP

  == domain 3  score: 3.2 bits;  conditional E-value: 0.022
                4HB_MCP_1 147 egrparekliealeelvdlnlkvAeeaykdnka 179
                              +g++  +++i++++e+ d n+   ++++++nk 
  PHY93_07305|PHY93_07305 301 KGKEVVQNMISSINEITDSNNDIMNQINQSNKE 333
                              566778899999999999999999999998875 PP

  == domain 4  score: -1.3 bits;  conditional E-value: 0.54
                4HB_MCP_1 141 yqlyetegrparekliealeelvdlnlkvAeeaykdnk 178
                                + ++ g    e++++ ++ ++++ ++ A  ++++++
  PHY93_07305|PHY93_07305 437 TGIARECG-VVLEDIVSDISSVSEMANEIAVSSQEQSQ 473
                              55555555.7789999999999******9999999997 PP

>> TarH  Tar ligand binding domain homologue
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.9   3.4   9.3e-11   2.4e-07       7     146 ..       8     147 ..       6     178 .. 0.83
   2 ?    0.3   1.0      0.23   5.9e+02      50      76 ..     235     261 ..     197     299 .. 0.57
   3 ?   -2.0   1.3       1.1   2.9e+03      55      79 ..     476     499 ..     454     519 .. 0.49

  Alignments for each domain:
  == domain 1  score: 30.9 bits;  conditional E-value: 9.3e-11
                              XXXXXXXXXXXXXXXXXXXXSSSSSSHHHHHHHCHHHHHHH.HHHHHHHHHHHHHHH....HHHHHHHHHHHHTTTSSSSSSHHHH CS
                     TarH   7 IrtrLllvlallgvLllvsgglglsglsrsndalrevytnrlqqqaaLaearvsllq....aRltLnragiaaladeaedakella 88 
                              Ir+rLllv +l +v ll++g++g++++s+  d+l+ +y++rl+ +++L+++++        + ++L+      ++d  e  ++ l+
  PHY93_07305|PHY93_07305   8 IRARLLLVSVLSVVSLLIVGITGFFAVSSLADKLDVAYNQRLKLSQELSNIESGIHAvfryEWVALSD---DKIEDRKER-QQFLE 89 
                              9*************************************************997654311114455555...555555544.5**** PP

                              HHHHHHHHHHHHHHHHHTS---GGGHH.HHHHHHHHHHHHHHHHHHHHHHHHTT-HHH CS
                     TarH  89 raeeslaqseeawkaYlalprtaeeeealaaelkakykalqdglapliaaleagnlea 146
                              ++++ + + ++a k+Y a+ +++e +e l ++l  + +  +++l++    l++++ + 
  PHY93_07305|PHY93_07305  90 KVKDKIVAVDTAVKNYAAIKKSPEAQEVLVQKLLPNWEITKKALEEVTLELNKNDSSS 147
                              *********************************************9998888888665 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.23
                              HHHHHHHHHHHHHHHHHHHHHHHHHHT CS
                     TarH  50 qqaaLaearvsllqaRltLnragiaal 76 
                              ++++++ a  + ++a+ +L++a++  +
  PHY93_07305|PHY93_07305 235 SSMEVSAAAEQIASASEQLSQANVEQA 261
                              334444444444444444444443333 PP

  == domain 3  score: -2.0 bits;  conditional E-value: 1.1
                              HHHHHHHHHHHHHHHHHHHHHTTTS CS
                     TarH  55 aearvsllqaRltLnragiaalade 79 
                              +e++ ++ q  ++  + ++a + + 
  PHY93_07305|PHY93_07305 476 SEITKAMNQINVATQQ-NAAGATQS 499
                              4444444443333333.22222222 PP

>> DUF599  Protein of unknown function, DUF599
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -4.1   0.0       3.3   8.4e+03      27      42 ..      57      72 ..      44      76 .. 0.75
   2 ?   11.6   1.3   5.2e-05      0.13      81     164 ..     171     250 ..     162     262 .. 0.75

  Alignments for each domain:
  == domain 1  score: -4.1 bits;  conditional E-value: 3.3
                   DUF599 27 rtviginaaaRraWvr 42
                             ++ +gi+a  R +Wv+
  PHY93_07305|PHY93_07305 57 NIESGIHAVFRYEWVA 72
                             4668999999999995 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 5.2e-05
                   DUF599  81 allsstdklsdllkslpvfgatsealfelKlllllliflvAFlkfvqsirlynhasfligavPedeaeaeataeyvarvlergs 164
                              a+l++++    l+++ ++++++ +++   K ++l++++l+  l+f+++i + n++  +++++ +d ++ +  ++ +a+ +  +s
  PHY93_07305|PHY93_07305 171 AWLQDKA----LSTNKKIVEESLSYAHNAKTFSLVVVLLAGILSFTICIYIANQLVKILSTLSNDLNSSSMEVSAAAEQIASAS 250
                              4444444....6678899999**********************************99998988844444444444444444444 PP

>> FAA_hydro_N_2  Fumarylacetoacetase N-terminal domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.2   0.00025      0.64      34      62 ..     118     146 ..      92     166 .. 0.66
   2 ?   -0.2   0.4      0.56   1.4e+03      44      69 ..     241     266 ..     224     289 .. 0.72
   3 ?   -2.6   0.0         3   7.6e+03      23      23 ..     297     297 ..     274     333 .. 0.52

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00025
            FAA_hydro_N_2  34 tlqaaLdnWdevepaLeelyeaLnagtak 62 
                                q++L nW+ +++aLee++ +Ln+++++
  PHY93_07305|PHY93_07305 118 LVQKLLPNWEITKKALEEVTLELNKNDSS 146
                              36899*******************88754 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.56
            FAA_hydro_N_2  44 evepaLeelyeaLnagtakeafafdp 69 
                              ++++++++++e+L+++++++a ++++
  PHY93_07305|PHY93_07305 241 AAAEQIASASEQLSQANVEQASSLEE 266
                              45566666666676666666666655 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 3
            FAA_hydro_N_2  23 k 23 
                              +
  PHY93_07305|PHY93_07305 297 E 297
                              2 PP

>> DUF948  Bacterial protein of unknown function (DUF948)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.1     0.073   1.9e+02      57      83 ..      85     111 ..      69     114 .. 0.86
   2 ?    1.0  12.6       0.2   5.1e+02      40      88 ..     304     352 ..     195     353 .. 0.83
   3 ?    1.7   5.4      0.12   3.2e+02      21      78 ..     408     465 ..     377     521 .. 0.68

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.073
                   DUF948  57 nelledvneklekvdplteavadlges 83 
                              ++ le v++k+ +vd+ +++ a + +s
  PHY93_07305|PHY93_07305  85 QQFLEKVKDKIVAVDTAVKNYAAIKKS 111
                              567899999**********99988765 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.2
                   DUF948  40 kqvdpilkevedllakvnelledvneklekvdplteavadlgesvseln 88 
                              + v++++  ++++++  n++++++n+  +++ ++++ +a++g++ + +n
  PHY93_07305|PHY93_07305 304 EVVQNMISSINEITDSNNDIMNQINQSNKEISEIVKVIAEIGDKTKVIN 352
                              7788999999999****************************99877665 PP

  == domain 3  score: 1.7 bits;  conditional E-value: 0.12
                   DUF948  21 llklkktldeaaatieelekqvdpilkevedllakvnelledvneklekvdplteava 78 
                              ++k++++++  ++ +e l ++ ++ +++ +++ ++  ++led+ + + +v ++ +++a
  PHY93_07305|PHY93_07305 408 IKKVERIVNDSKTKVERLVREGKSKVDKGTGIARECGVVLEDIVSDISSVSEMANEIA 465
                              4455555555555555555555555555555555555555555555555555554444 PP

>> Vps53_N  Vps53-like, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.6      0.63   1.6e+03      37      89 ..     133     186 ..     107     189 .. 0.74
   2 ?    5.0   8.1    0.0039        10      17      96 ..     261     343 ..     220     375 .. 0.86
   3 ?   14.9   4.1   3.7e-06    0.0095       9     106 ..     399     494 ..     392     521 .. 0.91

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 0.63
                  Vps53_N  37 lddeiksvvraqanvgekgkealeeaqk.aieelfqkikeikdkaekseemvke 89 
                              l++   ++ ++++++ +k+k  ++  q+ a + + + +  ++dka ++++ + e
  PHY93_07305|PHY93_07305 133 LEEVTLELNKNDSSSNDKAKVLIKTKQRnAAVPVAEAVAWLQDKALSTNKKIVE 186
                              566666777888888888888877665426778888899999999888887765 PP

  == domain 2  score: 5.0 bits;  conditional E-value: 0.0039
                  Vps53_N  17 eqslanidelikklqeeikklddeiksvvr...aqanvgekgkealeeaqkaieelfqkikeikdkaekseemvkeitrdIkq 96 
                                sl++  + i+++   ++k  ++  ++ r   ++ + + kgke ++++ ++i+e++++ ++i ++ ++s++ ++ei + I +
  PHY93_07305|PHY93_07305 261 ASSLEETSSSIQEMSSMVSKTSENAIQASRvsgQSQENALKGKEVVQNMISSINEITDSNNDIMNQINQSNKEISEIVKVIAE 343
                              4689999999999*9***999888765544111334556799***********************************998876 PP

  == domain 3  score: 14.9 bits;  conditional E-value: 3.7e-06
                  Vps53_N   9 yinellpteqslanidelikklqeeikklddeiksvvraqanvgekgkealeeaqkaieelfqkikeikdkaekseemvkeitrdI 94 
                              +i+e+l  + s+++++ +++  ++++++l  e ks v++ + ++++    le++ + i+++++  +ei   +++  + ++eit+ +
  PHY93_07305|PHY93_07305 399 EITEML--DGSIKKVERIVNDSKTKVERLVREGKSKVDKGTGIARECGVVLEDIVSDISSVSEMANEIAVSSQEQSQGISEITKAM 482
                              667776..6899************************************************************************** PP

                  Vps53_N  95 kqLDiAKknltt 106
                              +q+ +A ++ ++
  PHY93_07305|PHY93_07305 483 NQINVATQQNAA 494
                              ******887655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (524 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      3247  (0.181103); expected 358.6 (0.02)
Passed bias filter:                      694  (0.0387082); expected 358.6 (0.02)
Passed Vit filter:                        78  (0.00435049); expected 17.9 (0.001)
Passed Fwd filter:                        34  (0.00189637); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 1.05u 0.28s 00:00:01.33 Elapsed: 00:00:00.47
# Mc/sec: 3339.62
//
Query:       PHY93_07310|PHY93_07310  [L=584]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.3e-38  130.1  46.7    1.5e-37  129.0  24.2    4.3  3  MCPsignal        Methyl-accepting chemotaxis protein (MCP) si
    4.5e-13   49.2   0.9    4.5e-13   49.2   0.9    4.2  4  4HB_MCP_1        Four helix bundle sensory module for signal 
    1.3e-05   24.3   7.8    1.3e-05   24.3   7.8    2.8  3  Vps53_N          Vps53-like, N-terminal
    0.00059   19.8   0.0    0.00059   19.8   0.0    3.2  3  TarH             Tar ligand binding domain homologue
     0.0068   16.3   9.9       0.01   15.8   2.0    2.5  2  CHASE3           CHASE3 domain
  ------ inclusion threshold ------
      0.086   13.3  26.4      0.078   13.5   1.9    5.1  5  NPV_P10          Nucleopolyhedrovirus P10 protein
        0.1   12.5   0.2        0.1   12.5   0.2    3.8  3  zf-ZPR1          ZPR1 zinc-finger domain
       0.33   10.8   4.8        0.2   11.6   0.4    2.1  2  GvpL_GvpF        Gas vesicle synthesis protein GvpL/GvpF
       0.51   10.4  25.2       0.53   10.3   0.5    4.4  5  DUF1664          Protein of unknown function (DUF1664)
       0.81   10.4  13.2        6.6    7.5   0.7    3.8  3  DUF2203          Uncharacterized conserved protein (DUF2203)
       0.83    8.8  15.0        1.2    8.3   4.7    2.4  2  HAP1_N           HAP1 N-terminal conserved region
        1.5    8.7  17.2        2.5    7.9   3.9    2.7  2  DUF3540          Protein of unknown function (DUF3540)
        1.5    8.4  11.4       0.44   10.1   2.3    2.5  2  Arfaptin         Arfaptin-like domain
        1.6    8.8   8.1        2.1    8.3   0.8    2.8  2  DUF1043          Protein of unknown function (DUF1043)
        3.7    7.9  34.4        0.3   11.4   2.3    5.6  6  DUF948           Bacterial protein of unknown function (DUF94
        6.6    7.5  14.1        1.4    9.7   1.8    3.7  3  RsbRD_N          RsbT co-antagonist protein rsbRD N-terminal 
        9.6    6.2  10.0       0.73    9.8   2.0    2.7  3  Exotox-A_target  Exotoxin A, targeting
        9.6    6.6  10.0        3.7    7.9   1.1    3.1  3  TBCA             Tubulin binding cofactor A


Domain annotation for each model (and alignments):
>> MCPsignal  Methyl-accepting chemotaxis protein (MCP) signalling domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.8   6.5    0.0026       2.6     131     171 ..     235     275 ..     218     276 .. 0.85
   2 !  129.0  24.2   1.5e-40   1.5e-37       4     172 .]     290     487 ..     286     487 .. 0.90
   3 ?   -0.4   0.7      0.89   8.8e+02      19      44 ..     536     560 ..     489     570 .. 0.57

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.0026
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal 131 keiveavaevadlvqeiaaaseeqsasieevnqaveevakv 171
                              +++++a +++a+  +e+++a++eq+as++e+++++ee++++
  PHY93_07310|PHY93_07310 235 EQVSSASSQIASASEELSQATTEQAASLQETSSSIEEISSM 275
                              57888899999999**********************99876 PP

  == domain 2  score: 129.0 bits;  conditional E-value: 1.5e-40
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHH.....................HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCCCH CS
                MCPsignal   4 aeeaseeAeeggkevanvvkqmeeieks.....................skeisdiieVideiadQTNlLALNAaiEAARAGeqGr 68 
                              +ee+ + Ae+g+++v+++++++ ei++s                      +ei + ++Vi++i +QT lL  NA++EAARAG+qG+
  PHY93_07310|PHY93_07310 290 SEESLSMAEKGKEVVDHMLTAIAEINTSnngimdqinntnkeienivtiINEIGNKTKVINDIVFQTKLLSFNASVEAARAGDQGK 375
                              67788899999999999999999999999999999999999999999889999999****************************** PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHH.......H...............HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHH CS
                MCPsignal  69 GFaVVAdEVrkLAersaqaakeieal.......iieiqkeindsv.esleetrqrveegselveetgealkeiveavaevadlvqe 146
                              GFaVVA+EV +LA+ s  aa ei+++       ++ i+++++d + + + + +++ve+g+  ++e +e+l+eiv++va+v+++v+e
  PHY93_07310|PHY93_07310 376 GFAVVAEEVGNLAAMSGAAALEITNMlegsiktVEGIVRDSKDKIgKLILNGKEKVETGTRVAHECEEVLNEIVSSVASVSKMVTE 461
                              ***********************98722222223456777766652568899********************************** PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal 147 iaaaseeqsasieevnqaveevakvt 172
                              ia+as+eq+++++e+++av+++++vt
  PHY93_07310|PHY93_07310 462 IASASQEQAQGVHEITKAVAQLDQVT 487
                              ***********************996 PP

  == domain 3  score: -0.4 bits;  conditional E-value: 0.89
                              HHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal  19 anvvkqmeeieksskeisdiieVide 44 
                               n v++m++i+ +s +i+++++  ++
  PHY93_07310|PHY93_07310 536 TNSVRAMNTINAKS-KITKVTSSSNS 560
                              34455555555444.34444444444 PP

>> 4HB_MCP_1  Four helix bundle sensory module for signal transduction
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.2   0.9   4.5e-16   4.5e-13       4     136 ..       9     142 ..       6     172 .. 0.96
   2 !    7.1   5.0    0.0036       3.6      11     111 ..     197     296 ..     195     302 .. 0.86
   3 ?    1.0   0.5      0.27   2.7e+02      74     102 ..     301     329 ..     294     348 .. 0.64
   4 ?    0.3   0.9      0.44   4.4e+02     150     178 ..     443     471 ..     405     523 .. 0.55

  Alignments for each domain:
  == domain 1  score: 49.2 bits;  conditional E-value: 4.5e-16
                4HB_MCP_1   4 irkKLillflllallliivGvvGlyslkkinknletmYedrllpikdlgeikanlrelradllelilt.kdkaekdellkdieele 88 
                               + KLi+l l la ++i+ G+ G+++lk++  + e++  +   ++  ++++ ++ r+lr++l+ l +    k+  d++lk i+e  
  PHY93_07310|PHY93_07310   9 LKIKLIILTLSLATFTIAAGGAGVFFLKSTVGAYEKVLAKPVPKLSNVKDMLSHYRRLRIYLTLLAIPgISKEYSDDTLKVINESL 94 
                              567*****************************************************************999999************ PP

                4HB_MCP_1  89 aeidkllekyektilteeEkelleefkeqlnaYrevrkkvlelakegk 136
                               + +   ++y  + + + +kel+e+++ ++ +Y+ev+ k++ l+++gk
  PHY93_07310|PHY93_07310  95 IKYEATNKAYTALEFVPGQKELYEKLDISWRKYQEVSLKIVSLFNSGK 142
                              **********************************************98 PP

  == domain 2  score: 7.1 bits;  conditional E-value: 0.0036
                4HB_MCP_1  11 lflllallliivGvvGlyslkkinknletmYedrllpikdlgeikanlrelradlleliltkdkaekdellkdieeleaeidklle 96 
                              + ++ +l  +   ++G+++ + i k l+++ +d   + +++++++++++     l +   + + a  +e+ ++iee++  i+ ++e
  PHY93_07310|PHY93_07310 197 SMTIAILSFVFALIIGFVFSNYITKILQAIATDLSNSGEQVSSASSQIASASEELSQATTE-QAASLQETSSSIEEISSMINANTE 281
                              45566666666669********************************999887777777665.99999999**************** PP

                4HB_MCP_1  97 kyektilteeEkell 111
                              + +++++ +eE+  +
  PHY93_07310|PHY93_07310 282 NAKQSSVVSEESLSM 296
                              **********98655 PP

  == domain 3  score: 1.0 bits;  conditional E-value: 0.27
                4HB_MCP_1  74 kaekdellkdieeleaeidkllekyekti 102
                              k+  d+ l++i e++++++ ++ ++++t+
  PHY93_07310|PHY93_07310 301 KEVVDHMLTAIAEINTSNNGIMDQINNTN 329
                              45556666666666666666666666664 PP

  == domain 4  score: 0.3 bits;  conditional E-value: 0.44
                4HB_MCP_1 150 parekliealeelvdlnlkvAeeaykdnk 178
                              +  +++++++  ++++  + A  ++++++
  PHY93_07310|PHY93_07310 443 EVLNEIVSSVASVSKMVTEIASASQEQAQ 471
                              34444444444444444444444433333 PP

>> Vps53_N  Vps53-like, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   2.9     0.087        86      26      80 ..     222     276 ..     216     291 .. 0.53
   2 ?    4.4   8.1     0.015        15      18      96 ..     260     341 ..     256     353 .. 0.81
   3 !   24.3   7.8   1.3e-08   1.3e-05      12     130 ..     400     517 ..     393     571 .. 0.87

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.087
                  Vps53_N  26 likklqeeikklddeiksvvraqanvgekgkealeeaqkaieelfqkikeikdka 80 
                              +++ + +++++  +++ s+  + a+ +e+  +a +e  ++++e +++i+ei +  
  PHY93_07310|PHY93_07310 222 ILQAIATDLSNSGEQVSSASSQIASASEELSQATTEQAASLQETSSSIEEISSMI 276
                              5555555555555555555555555555555555555555555555555555432 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.015
                  Vps53_N  18 qslanidelikklqeeikklddeiks...vvraqanvgekgkealeeaqkaieelfqkikeikdkaekseemvkeitrdIkq 96 
                              +sl++  + i+++   i+   ++ k+   v +++++++ekgke ++++ +ai e+  + + i d+ +++++ +++i   I++
  PHY93_07310|PHY93_07310 260 ASLQETSSSIEEISSMINANTENAKQssvVSEESLSMAEKGKEVVDHMLTAIAEINTSNNGIMDQINNTNKEIENIVTIINE 341
                              577788888888888887655554432224578899***************************************9877765 PP

  == domain 3  score: 24.3 bits;  conditional E-value: 1.3e-08
                  Vps53_N  12 ellpteqslanidelikklqeeikklddeiksvvraqanvgekgkealeeaqkaieelfqkikeikdkaekseemvkeitrdIkqL 97 
                              ++l  e s++ ++ +++  + +i kl  + k+ v++ + v+++ +e l+e+ +++ ++++ ++ei + +++  + v+eit+ + qL
  PHY93_07310|PHY93_07310 400 NML--EGSIKTVEGIVRDSKDKIGKLILNGKEKVETGTRVAHECEEVLNEIVSSVASVSKMVTEIASASQEQAQGVHEITKAVAQL 483
                              554..78999**************************************************************************** PP

                  Vps53_N  98 D.iAKknlttsiTtlkrLkmLvtavesleallsk 130
                              D +  +n + s    +   +L +  e l+ l++k
  PHY93_07310|PHY93_07310 484 DqVTQQNTANSAESANAAGVLSNQAEMLNSLVQK 517
                              *446789999999999999999999999988886 PP

>> TarH  Tar ligand binding domain homologue
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.8   0.0   5.9e-07   0.00059       1     173 [.       3     175 ..       3     179 .. 0.86
   2 ?    4.5   2.9      0.03        30      13      96 ..     198     289 ..     194     293 .. 0.67
   3 ?   -2.0   1.8       2.9   2.9e+03      29      68 ..     472     511 ..     452     524 .. 0.64

  Alignments for each domain:
  == domain 1  score: 19.8 bits;  conditional E-value: 5.9e-07
                              XXXXXXXXXXXXXXXXXXXXXXXXXXSSSSSSHHHHHHHCHHHHHHH.HHHHHHHHHHHHHHHHHHHHHHHHHHHTTTSSSSSSHH CS
                     TarH   1 mlkrisIrtrLllvlallgvLllvsgglglsglsrsndalrevytnrlqqqaaLaearvsllqaRltLnragiaaladeaedakel 86 
                              ++++ s++  L+++   l+ ++++ gg g+++l+++  a + v    +++ +++ ++ ++  + R+ L   +i  + +e     ++
  PHY93_07310|PHY93_07310   3 FFQKTSLKIKLIILTLSLATFTIAAGGAGVFFLKSTVGAYEKVLAKPVPKLSNVKDMLSHYRRLRIYLTLLAIPGISKEYS--DDT 86 
                              588999***************************************************************944444444333..679 PP

                              HHHHHHHHHHHHHHHHHHHTS---GGGHH.HHHHHHHHHHHHHHHHHHHHHHHHTT...-HHHHHHS-HHHHHHHHHHHHHHHHH. CS
                     TarH  87 laraeeslaqseeawkaYlalprtaeeeealaaelkakykalqdglapliaaleag...nleaffdlptqkiqplfealyaayeaL 169
                              l+ ++esl + e+  kaY al+  +  +++l ++l+ + +++q+    ++ + ++g   ++e   +l  ++ ++l ++++a+y+aL
  PHY93_07310|PHY93_07310  87 LKVINESLIKYEATNKAYTALEFVP-GQKELYEKLDISWRKYQEVSLKIVSLFNSGkpsDREILTKLILNESSALATEYTANYLAL 171
                              *************************.7788*****988777777777777777666333788899999999999999999999999 PP

                              ...H CS
                     TarH 170 rklq 173
                               ++ 
  PHY93_07310|PHY93_07310 172 VAFH 175
                              8875 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.03
                              XXXXXXX.XXXXXXXSSSSSSHHHHHHHCHHHHHHH.HHHHHHHHHHHHHHHHHHHHHHHHHHHTTTSSSSS..........SHHH CS
                     TarH  13 lvlallg.vLllvsgglglsglsrsndalrevytnrlqqqaaLaearvsllqaRltLnragiaaladeaeda..........kell 87 
                              +++a+l+ v+ l++g ++++ +++    l++++t+   + +++++a+++ ++a+  L++a +  +a+ +e++          +++ 
  PHY93_07310|PHY93_07310 198 MTIAILSfVFALIIGFVFSNYITKI---LQAIATDLSNSGEQVSSASSQIASASEELSQATTEQAASLQETSssieeissmiNANT 280
                              4455444155566666666666555...555555555689*******************988887777777767777766666666 PP

                              HHHHHHHHH CS
                     TarH  88 araeeslaq 96 
                              ++a++s   
  PHY93_07310|PHY93_07310 281 ENAKQSSVV 289
                              666666555 PP

  == domain 3  score: -2.0 bits;  conditional E-value: 2.9
                              SSSSHHHHHHHCHHHHHHH.HHHHHHHHHHHHHHHHHHHH CS
                     TarH  29 glsglsrsndalrevytnrlqqqaaLaearvsllqaRltL 68 
                              g++ ++++  +l++v +++++++a+ a+a   l ++   L
  PHY93_07310|PHY93_07310 472 GVHEITKAVAQLDQVTQQNTANSAESANAAGVLSNQAEML 511
                              4455555556666666666666666666655555554444 PP

>> CHASE3  CHASE3 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   2.0     1e-05      0.01      45     134 ..     238     324 ..     234     328 .. 0.90
   2 ?    4.6   1.2     0.028        28      45     122 ..     470     550 ..     458     561 .. 0.72

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 1e-05
                   CHASE3  45 eqaraeiqealeelreltadnpeqqerldrlealieqklaeleetialrreggleaalalvrsdegkelmdeiraliaemrdeerr 130
                               +a ++i  a eel++ t    eq++ l++ ++ ie+  + ++   + +++ +  +++ l + ++gke++d + ++iae+++ ++ 
  PHY93_07310|PHY93_07310 238 SSASSQIASASEELSQAT---TEQAASLQETSSSIEEISSMINANTENAKQSSVVSEESLSMAEKGKEVVDHMLTAIAEINTSNNG 320
                              567888999999999877...89*****************999999999999*****************************99988 PP

                   CHASE3 131 llaq 134
                               ++q
  PHY93_07310|PHY93_07310 321 IMDQ 324
                              7776 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.028
                   CHASE3  45 eqaraeiqealeelreltadnpeqqerldrlealieqklaeleetialrre...ggleaalalvrsdegkelmdeiralia 122
                               q++ ei +a+++l+++t++n +  +  + +     +  + l+ +++   +   gg+        s+++ ++m++i a ++
  PHY93_07310|PHY93_07310 470 AQGVHEITKAVAQLDQVTQQNTANSAESANAAGVLSNQAEMLNSLVQKLAQtiqGGDGIVIRDGSSTNSVRAMNTINAKSK 550
                              57899999**********999877776555555555555555555444444343777788888888899999999888765 PP

>> NPV_P10  Nucleopolyhedrovirus P10 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.5   0.0       7.2   7.2e+03      50      66 ..      45      61 ..      34      64 .. 0.67
   2 ?   13.5   1.9   7.8e-05     0.078       5      68 ..     222     279 ..     219     293 .. 0.89
   3 ?    4.6   2.8     0.046        46      31      66 ..     305     340 ..     293     353 .. 0.76
   4 ?    4.7   4.7     0.041        41       4      52 ..     443     491 ..     441     523 .. 0.80
   5 ?   -0.6   0.0       1.9   1.9e+03      25      49 ..     549     573 ..     539     579 .. 0.75

  Alignments for each domain:
  == domain 1  score: -2.5 bits;  conditional E-value: 7.2
                  NPV_P10 50 qLaeletkvenIqdiLn 66
                              La+   k++n++d+L+
  PHY93_07310|PHY93_07310 45 VLAKPVPKLSNVKDMLS 61
                             45555558888889887 PP

  == domain 2  score: 13.5 bits;  conditional E-value: 7.8e-05
                  NPV_P10   5 iLlvIradikavddkVdalqqqvddvqenlpdvtelnekLdaqsaqLaeletkvenIqdiLnpd 68 
                              iL  I +d ++  ++V++ ++q+++ +e+l +         +q+a+L+e ++++e+I+++ n++
  PHY93_07310|PHY93_07310 222 ILQAIATDLSNSGEQVSSASSQIASASEELSQ------ATTEQAASLQETSSSIEEISSMINAN 279
                              99999*****************9999998888......4589*******************954 PP

  == domain 3  score: 4.6 bits;  conditional E-value: 0.046
                  NPV_P10  31 qenlpdvtelnekLdaqsaqLaeletkvenIqdiLn 66 
                              ++ l  + e+n+  +++ +q+++ ++++enI  i n
  PHY93_07310|PHY93_07310 305 DHMLTAIAEINTSNNGIMDQINNTNKEIENIVTIIN 340
                              455667888888888888888888888888888877 PP

  == domain 4  score: 4.7 bits;  conditional E-value: 0.041
                  NPV_P10   4 niLlvIradikavddkVdalqqqvddvqenlpdvtelnekLdaqsaqLa 52 
                               +L  I + ++ v++ V+ + ++ ++ ++ + ++t+  ++Ld+ ++q +
  PHY93_07310|PHY93_07310 443 EVLNEIVSSVASVSKMVTEIASASQEQAQGVHEITKAVAQLDQVTQQNT 491
                              5899999999999999999999999999999999999999999988855 PP

  == domain 5  score: -0.6 bits;  conditional E-value: 1.9
                  NPV_P10  25 qqvddvqenlpdvtelnekLdaqsa 49 
                              +++++v++ ++ +++ ++kLd +  
  PHY93_07310|PHY93_07310 549 SKITKVTSSSNSIHKKEQKLDLIKG 573
                              5678888888888888888886655 PP

>> zf-ZPR1  ZPR1 zinc-finger domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   2.9       1.2   1.2e+03     104     137 ..     245     278 ..     216     352 .. 0.59
   2 ?   12.5   0.2    0.0001       0.1      85     137 ..     396     450 ..     379     465 .. 0.76
   3 ?    1.7   1.7       0.2     2e+02      91     146 ..     499     569 ..     450     579 .. 0.55

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 1.2
                  zf-ZPR1 104 eqikeelekeegdqaeredeekekieefleklee 137
                               ++ eel++++++qa++ +e+ ++iee+ + +++
  PHY93_07310|PHY93_07310 245 ASASEELSQATTEQAASLQETSSSIEEISSMINA 278
                              2333333222223333322333333333333333 PP

  == domain 2  score: 12.5 bits;  conditional E-value: 0.0001
                  zf-ZPR1  85 leippgtlegrlttvEGlLeqikeeleke..egdqaered.eekekieefleklee 137
                              lei+   leg++ tvEG++++ k+++ k   +g+++ ++  + ++++ee+l+++ +
  PHY93_07310|PHY93_07310 396 LEITN-MLEGSIKTVEGIVRDSKDKIGKLilNGKEKVETGtRVAHECEEVLNEIVS 450
                              56666.89******************743555555555334788888888887754 PP

  == domain 3  score: 1.7 bits;  conditional E-value: 0.2
                  zf-ZPR1  91 tlegrlttvEGlLeqikeeleke............egdqaer..ed.eekekieeflekleeliegeepft 146
                              + +g l++   +L++++++l ++            ++ ++ r  ++ ++k+ki+++ ++ +++ ++e+++ 
  PHY93_07310|PHY93_07310 499 NAAGVLSNQAEMLNSLVQKLAQTiqggdgivirdgSSTNSVRamNTiNAKSKITKVTSSSNSIHKKEQKLD 569
                              33344444444444444444322344445555544222222244445666677777766666666666555 PP

>> GvpL_GvpF  Gas vesicle synthesis protein GvpL/GvpF
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   0.4      0.42   4.2e+02     123     187 ..     249     313 ..     225     339 .. 0.74
   2 ?   11.6   0.4    0.0002       0.2      89     188 ..     408     517 ..     401     531 .. 0.82

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.42
                GvpL_GvpF 123 ealleelleedpelrelreeieaasesgtayllrkrlgqrleealeerreelaeeleeaLaplae 187
                              e+l ++ +e+  +l+e  ++ie+ s+   a  ++ ++   + e+  + +e+  e ++++L+++ae
  PHY93_07310|PHY93_07310 249 EELSQATTEQAASLQETSSSIEEISSMINANTENAKQSSVVSEESLSMAEKGKEVVDHMLTAIAE 313
                              34556666666666666666666666666777778888888888888888888888888877776 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 0.0002
                GvpL_GvpF  89 avrelLeeeadelreaLerlagkvEygvkvlwdeealleelleedpelrelreeieaases..........gtayllrkrlgqrle 164
                              +v+ ++++ +d++ +++ + ++kvE g +v ++ e++l+e++++  +++++  ei++as++          + a+l+++ ++  ++
  PHY93_07310|PHY93_07310 408 TVEGIVRDSKDKIGKLILNGKEKVETGTRVAHECEEVLNEIVSSVASVSKMVTEIASASQEqaqgvheitkAVAQLDQVTQQNTAN 493
                              5788999999*************************************************998888888777557777777777777 PP

                GvpL_GvpF 165 ealeerreelaeeleeaLaplaee 188
                              +a ++ ++ +     e+L++l+++
  PHY93_07310|PHY93_07310 494 SAESANAAGVLSNQAEMLNSLVQK 517
                              777777777777777777666665 PP

>> DUF1664  Protein of unknown function (DUF1664)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.5   0.00053      0.53      13      98 ..     200     285 ..     193     296 .. 0.78
   2 ?    6.6   2.0    0.0074       7.4      45     110 ..     302     353 ..     288     362 .. 0.55
   3 ?    5.2   2.3      0.02        20      49     120 ..     405     476 ..     392     485 .. 0.64
   4 ?    4.8   3.2     0.027        27      43     112 ..     452     524 ..     445     531 .. 0.70
   5 ?   -0.0   1.1      0.84   8.4e+02      34     114 ..     486     569 ..     483     574 .. 0.61

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00053
                  DUF1664  13 vgavgYgyvwwkGwklsdlmfvTkrslsdavesvskqleqvseslaatkrhLssridrvdkkldeqkeiskeikeevtevredlse 98 
                              ++ +++++  + G+ +s+ +    + ++  +++ ++q+ + s+++a++ ++Ls+   +  ++l+e++  ++ei++ +++  e+ ++
  PHY93_07310|PHY93_07310 200 IAILSFVFALIIGFVFSNYITKILQAIATDLSNSGEQVSSASSQIASASEELSQATTEQAASLQETSSSIEEISSMINANTENAKQ 285
                              56666777777788888766666678888888888888888999999999999999999999999999999998888877776655 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.0074
                  DUF1664  45 svskqleqvseslaatkrhLssridrvdkkldeqkeiskeikeevtevredlseigedvesvkeav 110
                              +v               +h+   i++++++ +  ++ ++++++e++++   ++eig++ + ++++v
  PHY93_07310|PHY93_07310 302 EVV--------------DHMLTAIAEINTSNNGIMDQINNTNKEIENIVTIINEIGNKTKVINDIV 353
                              333..............4444555555555555555555555555555555555555555555554 PP

  == domain 3  score: 5.2 bits;  conditional E-value: 0.02
                  DUF1664  49 qleqvseslaatkrhLssridrvdkkldeqkeiskeikeevtevredlseigedvesvkeavegleskleri 120
                              ++++v   +++ k+++ + i +  +k++  +++++e +e ++e+ + ++++++ v+++ +a ++ ++ +++i
  PHY93_07310|PHY93_07310 405 SIKTVEGIVRDSKDKIGKLILNGKEKVETGTRVAHECEEVLNEIVSSVASVSKMVTEIASASQEQAQGVHEI 476
                              455566666777777777777777777777777777777777777777777776666666655555555544 PP

  == domain 4  score: 4.8 bits;  conditional E-value: 0.027
                  DUF1664  43 vesvskqleqvs...eslaatkrhLssridrvdkkldeqkeiskeikeevtevredlseigedvesvkeaveg 112
                              v+svsk ++++    ++ a+  +++++ ++++d+  +++++ s+e ++    ++++ + +++ v+++ ++++g
  PHY93_07310|PHY93_07310 452 VASVSKMVTEIAsasQEQAQGVHEITKAVAQLDQVTQQNTANSAESANAAGVLSNQAEMLNSLVQKLAQTIQG 524
                              5555555555441114555555788888888888888888888888888888888888888888888888876 PP

  == domain 5  score: -0.0 bits;  conditional E-value: 0.84
                  DUF1664  34 vTkrslsdavesv..skqleqvseslaatkrhLssridrvdkkldeqkeiskeik.eevtevredlseigedvesvkeavegle 114
                              vT+++ ++  es   +  l +  e l++  ++L++ i+  d  +      +++++  +  +++++++++ + ++s+++  ++l+
  PHY93_07310|PHY93_07310 486 VTQQNTANSAESAnaAGVLSNQAEMLNSLVQKLAQTIQGGDGIVIRDGSSTNSVRaMNTINAKSKITKVTSSSNSIHKKEQKLD 569
                              566666555544311334666677777777777777777776655554444444414566777788888888888887666665 PP

>> DUF2203  Uncharacterized conserved protein (DUF2203)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.1   1.3     0.076        76      17      71 ..     225     278 ..     217     290 .. 0.48
   2 ?    5.0   0.3     0.038        38      28      81 ..     299     351 ..     282     367 .. 0.70
   3 ?    7.5   0.7    0.0066       6.6       6      70 ..     453     519 ..     435     536 .. 0.64

  Alignments for each domain:
  == domain 1  score: 4.1 bits;  conditional E-value: 0.076
                  DUF2203  17 elleelralrkeleeleeeleeakaeaekseaaeleaeleeleaeieelveeiee 71 
                               + ++l +  +++ ++++++++a++e ++ + +e++a+l+e +++iee+ + i++
  PHY93_07310|PHY93_07310 225 AIATDLSNSGEQVSSASSQIASASEELSQ-ATTEQAASLQETSSSIEEISSMINA 278
                              44444444444444444444444444332.2444444455555555544444443 PP

  == domain 2  score: 5.0 bits;  conditional E-value: 0.038
                  DUF2203  28 eleeleeeleeakaeaekseaaeleaeleeleaeieelveeieelGvevkdlea 81 
                              + +e+++++ +a ae ++s  +    ++++ ++eie++v+ i+e+G + k ++ 
  PHY93_07310|PHY93_07310 299 KGKEVVDHMLTAIAEINTS-NNGIMDQINNTNKEIENIVTIINEIGNKTKVIND 351
                              3333344444444443322.78899999******************99998754 PP

  == domain 3  score: 7.5 bits;  conditional E-value: 0.0066
                  DUF2203   6 eeAnalLpllkelleelralrkeleeleeeleeakaeaekse......aaeleaeleeleaeieelveeie 70 
                              +   ++++++ +  +e ++  +e+++++++l++ ++++++++      a      l++ ++ +++lv+++ 
  PHY93_07310|PHY93_07310 453 ASVSKMVTEIASASQEQAQGVHEITKAVAQLDQVTQQNTANSaesanaA----GVLSNQAEMLNSLVQKLA 519
                              5556777788888888888888888888888888888776666643332....333333333444444433 PP

>> HAP1_N  HAP1 N-terminal conserved region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   4.7    0.0012       1.2     207     304 ..     233     334 ..     228     337 .. 0.80
   2 ?    5.8   2.7    0.0068       6.8     206     282 ..     443     519 ..     386     523 .. 0.89

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0012
                   HAP1_N 207 cveqlseanqqiaelseelarkleel.erqqee...issLlaqivdlqqklkelgveneelkqhLaaskeaqrqLtaELqdlqeky 288
                                eq+s+a++qia+ seel++ + e+ +  qe    i+++ + i    +  k+ +v +ee  ++ +  ke+  ++ + + +++  +
  PHY93_07310|PHY93_07310 233 SGEQVSSASSQIASASEELSQATTEQaASLQETsssIEEISSMINANTENAKQSSVVSEESLSMAEKGKEVVDHMLTAIAEINTSN 318
                              579****************9876555044554322255667778888889999999999999999999999999999999999999 PP

                   HAP1_N 289 aevegmLheaqeevke 304
                              + +++ ++++ +e+++
  PHY93_07310|PHY93_07310 319 NGIMDQINNTNKEIEN 334
                              9999999999988876 PP

  == domain 2  score: 5.8 bits;  conditional E-value: 0.0068
                   HAP1_N 206 dcveqlseanqqiaelseelarkleelerqqeeissLlaqivdlqqklkelgveneelkqhLaaskeaqrqLtaELq 282
                              ++ +++ ++ ++++++  e+a+ ++e+++  +ei++  aq+ ++ q+    ++e+ +    L+ + e+ ++L + L 
  PHY93_07310|PHY93_07310 443 EVLNEIVSSVASVSKMVTEIASASQEQAQGVHEITKAVAQLDQVTQQNTANSAESANAAGVLSNQAEMLNSLVQKLA 519
                              456677778888999999999*********************************99999999999999888887765 PP

>> DUF3540  Protein of unknown function (DUF3540)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9   3.9    0.0025       2.5      81     168 ..     237     324 ..     227     340 .. 0.86
   2 ?    6.9   4.0    0.0049       4.9     108     172 ..     433     497 ..     426     513 .. 0.89

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.0025
                  DUF3540  81 leaakavalaaaeeldlaaerlkvsaekaevaveelsllgeeleakvekvrlvaksvesvvdrltqrakrsfRrveeveqvragri 166
                              +++a +   +a+eel+ a+++ + s ++   ++ee+s + +  + +++++++v+++  s++++ ++++++++  ++e+++ + g +
  PHY93_07310|PHY93_07310 237 VSSASSQIASASEELSQATTEQAASLQETSSSIEEISSMINANTENAKQSSVVSEESLSMAEKGKEVVDHMLTAIAEINTSNNGIM 322
                              44443334467899***************************************************************999988877 PP

                  DUF3540 167 dy 168
                              d+
  PHY93_07310|PHY93_07310 323 DQ 324
                              75 PP

  == domain 2  score: 6.9 bits;  conditional E-value: 0.0049
                  DUF3540 108 kaevaveelsllgeeleakvekvrlvaksvesvvdrltqrakrsfRrveeveqvragridyqaee 172
                              +++ +++e++ + +e+ ++v++v+ +  ++ s  +  +q ++++ + v++++qv+ +++   ae 
  PHY93_07310|PHY93_07310 433 TGTRVAHECEEVLNEIVSSVASVSKMVTEIASASQEQAQGVHEITKAVAQLDQVTQQNTANSAES 497
                              56667888999999*******************************************99988875 PP

>> Arfaptin  Arfaptin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.9   1.9     0.067        66      45     132 ..     237     325 ..     224     341 .. 0.69
   2 ?   10.1   2.3   0.00044      0.44      24     135 ..     427     536 ..     398     572 .. 0.77

  Alignments for each domain:
  == domain 1  score: 2.9 bits;  conditional E-value: 0.067
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH.H..H-CCGHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHH CS
                 Arfaptin  45 iketykelvklaknlskallklsqtekelGdvfkdls.krekqealgeaftatgealrllakqgeallkalkrfiselntfvnkai 129
                              ++  + ++  + ++ls+a ++ +   +e +++++++s +++ + +  ++ + ++e   ++a++g+++   + + i+e+nt  n  +
  PHY93_07310|PHY93_07310 237 VSSASSQIASASEELSQATTEQAASLQETSSSIEEISsMINANTENAKQSSVVSEESLSMAEKGKEVVDHMLTAIAEINTSNNGIM 322
                              45556666666666666666666666666666666642456666667777888888888888888888888888889988776655 PP

                              HHH CS
                 Arfaptin 130 eDT 132
                              +  
  PHY93_07310|PHY93_07310 323 DQI 325
                              555 PP

  == domain 2  score: 10.1 bits;  conditional E-value: 0.00044
                              --....CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH..H-CCGHHHHHHHHHHHHHHHHHHHH CS
                 Arfaptin  24 edervitvddeLeaklevlreiketykelvklaknlskallklsqtekelGdvfkdlskrekqealgeaftatgealrllakqgea 109
                              ++e+v+t      ++ evl ei     ++ k++ ++++a ++ +q  +e+ ++ ++l +  +q+   ++ +  ++a  +l++q+e 
  PHY93_07310|PHY93_07310 427 GKEKVETGTRVAHECEEVLNEIVSSVASVSKMVTEIASASQEQAQGVHEITKAVAQLDQVTQQN--TANSAESANAAGVLSNQAEM 510
                              5667777777778999*******************************************55555..56666777788889999999 PP

                              HHHHHHHHHHHHHHHHHTHHHHHHHH CS
                 Arfaptin 110 llkalkrfiselntfvnkaieDTllT 135
                              l   ++++ + ++     +i D + T
  PHY93_07310|PHY93_07310 511 LNSLVQKLAQTIQGGDGIVIRDGSST 536
                              99999999999887666666666666 PP

>> DUF1043  Protein of unknown function (DUF1043)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   0.8    0.0021       2.1       3      78 ..     207     282 ..     202     334 .. 0.85
   2 ?    3.3   1.2     0.076        76      21      79 ..     464     522 ..     446     574 .. 0.67

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0021
                  DUF1043   3 iglvvGiiiGalilrltnsklkkqkklekelekakaeleeqkqeledHfaqsaelLetlaedyqkLyqhlakssee 78 
                               +l++G++    i++++++ ++  ++  +++ +a ++++   +el++  ++ a  L++ +++ +++ + ++ ++e+
  PHY93_07310|PHY93_07310 207 FALIIGFVFSNYITKILQAIATDLSNSGEQVSSASSQIASASEELSQATTEQAASLQETSSSIEEISSMINANTEN 282
                              579999999999999999999999999**************************99999999999999999888765 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.076
                  DUF1043  21 sklkkqkklekelekakaeleeqkqeledHfaqsaelLetlaedyqkLyqhlaksseeL 79 
                              s+ ++q++  +e++ka a+l++  q+ +   a+sa+    l+++ + L++ ++k ++++
  PHY93_07310|PHY93_07310 464 SASQEQAQGVHEITKAVAQLDQVTQQNTANSAESANAAGVLSNQAEMLNSLVQKLAQTI 522
                              33477888889999999999999999888888888776666666666666655555555 PP

>> DUF948  Bacterial protein of unknown function (DUF948)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   2.3    0.0003       0.3       1      84 [.     196     276 ..     196     280 .. 0.83
   2 ?    8.6   1.8    0.0021       2.1      27      83 ..     261     317 ..     251     322 .. 0.90
   3 ?    5.6   3.1     0.018        18      28      74 ..     311     353 ..     299     369 .. 0.55
   4 ?    5.5   4.5     0.021        21      26      84 ..     436     487 ..     395     499 .. 0.68
   5 ?    1.9   1.7      0.28   2.8e+02      37      79 ..     475     520 ..     467     524 .. 0.44
   6 ?   -2.3   0.1       5.6   5.6e+03      49      71 ..     547     569 ..     536     574 .. 0.65

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.0003
                   DUF948   1 IAglIaAiAFvvLviflivvllklkktldeaaatieelekqvdpilkevedllakvnelledvneklekvdplteavadlgesv 84 
                              I++ Ia ++Fv+  i+ +v+ + ++k+l+++a+ + + ++qv + + +++ + ++  +     +e+ +++++  +++++++  +
  PHY93_07310|PHY93_07310 196 ISMTIAILSFVFALIIGFVFSNYITKILQAIATDLSNSGEQVSSASSQIASASEELSQ---ATTEQAASLQETSSSIEEISSMI 276
                              788999999***9999999999999999999999999999999888888877777666...67778888888888888887766 PP

  == domain 2  score: 8.6 bits;  conditional E-value: 0.0021
                   DUF948  27 tldeaaatieelekqvdpilkevedllakvnelledvneklekvdplteavadlges 83 
                               l+e++++iee+ + +++ ++++++    ++e l+  ++  e vd++ +a+a++ +s
  PHY93_07310|PHY93_07310 261 SLQETSSSIEEISSMINANTENAKQSSVVSEESLSMAEKGKEVVDHMLTAIAEINTS 317
                              68999999999999999999999999999999*********************9987 PP

  == domain 3  score: 5.6 bits;  conditional E-value: 0.018
                   DUF948  28 ldeaaatieelekqvdpilkevedllakvnelledvneklekvdplt 74 
                              + e++++ +++++q++++ ke+e++++ +ne    + +k++ ++ ++
  PHY93_07310|PHY93_07310 311 IAEINTSNNGIMDQINNTNKEIENIVTIINE----IGNKTKVINDIV 353
                              3444444444445555555555555555554....555666666665 PP

  == domain 4  score: 5.5 bits;  conditional E-value: 0.021
                   DUF948  26 ktldeaaatieelekqvdpilkevedllakvnelledvneklekvdplteavadlgesv 84 
                              +++ e ++ ++e+ + v +++k v+++ + ++e       + + v ++t+ava+l +  
  PHY93_07310|PHY93_07310 436 RVAHECEEVLNEIVSSVASVSKMVTEIASASQE-------QAQGVHEITKAVAQLDQVT 487
                              344455555555555555555555555555555.......6666666666666555544 PP

  == domain 5  score: 1.9 bits;  conditional E-value: 0.28
                   DUF948  37 ele...kqvdpilkevedllakvnelledvneklekvdplteavad 79 
                              e++    q+d+++++ ++  a++ + +  ++++ e +++l++++a+
  PHY93_07310|PHY93_07310 475 EITkavAQLDQVTQQNTANSAESANAAGVLSNQAEMLNSLVQKLAQ 520
                              3331112333333333333333333344455566666666666655 PP

  == domain 6  score: -2.3 bits;  conditional E-value: 5.6
                   DUF948  49 vedllakvnelledvneklekvd 71 
                              ++  ++kv    + +++k +k+d
  PHY93_07310|PHY93_07310 547 AKSKITKVTSSSNSIHKKEQKLD 569
                              44445555556666777777776 PP

>> RsbRD_N  RsbT co-antagonist protein rsbRD N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   1.8    0.0014       1.4      39      92 ..     217     269 ..     183     278 .. 0.85
   2 ?    1.8   0.1      0.38   3.8e+02      31      69 ..     288     337 ..     273     347 .. 0.62
   3 ?    1.9   1.3      0.36   3.5e+02      37      80 ..     437     492 ..     424     506 .. 0.58

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 0.0014
                  RsbRD_N  39 eqlrelldallaalaseqldleseeeeelrealdelsrsRarqgftpsetasfv 92 
                              + ++++l+a+++ l+++++ + s++ +++++a++els+  ++q  + +et s +
  PHY93_07310|PHY93_07310 217 NYITKILQAIATDLSNSGE-QVSSASSQIASASEELSQATTEQAASLQETSSSI 269
                              5578999999999998665.55666667**********************9987 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.38
                  RsbRD_N  31 llseae..lreqlrelldallaalas.........eqldleseeeeelre 69 
                               +se++  + e+ +e++d++l+a+a+         +q + +++e e++++
  PHY93_07310|PHY93_07310 288 VVSEESlsMAEKGKEVVDHMLTAIAEintsnngimDQINNTNKEIENIVT 337
                              45555567889999999999999998766544333222444444444555 PP

  == domain 3  score: 1.9 bits;  conditional E-value: 0.36
                  RsbRD_N  37 lreqlrelldallaalas...........eql.dleseeeeelrealdelsrsRar 80 
                              + ++++e+l+++++ +as           +q+  +  +e ++ +++ld+++++ ++
  PHY93_07310|PHY93_07310 437 VAHECEEVLNEIVSSVASvskmvteiasaSQEqAQGVHEITKAVAQLDQVTQQNTA 492
                              66778888888887777766566555433333334444444445555555554444 PP

>> Exotox-A_target  Exotoxin A, targeting
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0       1.3   1.3e+03      51     130 ..     121     201 ..     114     209 .. 0.57
   2 ?   -0.6   0.7       1.2   1.2e+03      62     126 ..     224     290 ..     203     300 .. 0.55
   3 ?    9.8   2.0   0.00073      0.73      59     126 ..     443     505 ..     433     511 .. 0.79

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 1.3
                              T--GGGHHHHHHHHHHS.TTTT........HHH..HHHHHHSHHHHHHHHHHHHHHHHHHHCC-TT--HHHHTT--EEEEE-- CS
          Exotox-A_target  51 rlsfdrvdqvvddllasrpvsGa.qdpealadl..GeavretpeqarealaeaearleayvangaGadeddaaradvlsltcp 130
                               +s+ ++++v  ++++    sG   d e l++l   e+     e + + la+ + + +  va      ++da+r +++s+t  
  PHY93_07310|PHY93_07310 121 DISWRKYQEVSLKIVS-LFNSGKpSDREILTKLilNESSALATEYTANYLALVAFHEN-VVAVSKLHAQEDADRGNLISMTIA 201
                              5677777666554443.35555325667776652134444444555555555544444.444445556678889999999875 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 1.2
                              HHHHHS.TTTT.......HHHHHHHHHSHHHHHH...HHHHHHHHHHHHHCC-TT--HHHHTT--EEE CS
          Exotox-A_target  62 ddllasrpvsGaqdpealadlGeavretpeqare...alaeaearleayvangaGadeddaaradvls 126
                              + + +    sG q   a +++  a  e  + + e   +l e+ + +e        a+ ++a+++ v+s
  PHY93_07310|PHY93_07310 224 QAIATDLSNSGEQVSSASSQIASASEELSQATTEqaaSLQETSSSIEEIS-SMINANTENAKQSSVVS 290
                              44444445677777777777777766654443331003334444444433.33344455555566665 PP

  == domain 3  score: 9.8 bits;  conditional E-value: 0.00073
                              HHHHHHHHS.TTTT.......HHHHHHHHHSHHHHHHHHHHHHHHHHHHHCC-TT--HHHHTT--EEE CS
          Exotox-A_target  59 qvvddllasrpvsGaqdpealadlGeavretpeqarealaeaearleayvangaGadeddaaradvls 126
                              +v++++++s     a   + ++++  a +e+ +     +++a a+l++  ++++ ++++ a+ a vls
  PHY93_07310|PHY93_07310 443 EVLNEIVSS----VASVSKMVTEIASASQEQAQG-VHEITKAVAQLDQVTQQNTANSAESANAAGVLS 505
                              455555554....444578899999999999765.5679***************************99 PP

>> TBCA  Tubulin binding cofactor A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.8   1.1      0.15   1.5e+02      13      62 ..     256     302 ..     238     331 .. 0.78
   2 ?   -1.3   0.1       2.8   2.8e+03      47      70 ..     435     458 ..     413     473 .. 0.51
   3 ?    7.9   1.1    0.0037       3.7      14      68 ..     468     522 ..     451     524 .. 0.74

  Alignments for each domain:
  == domain 1  score: 2.8 bits;  conditional E-value: 0.15
                     TBCA  13 KEeasYekEleeqearleklkadgdedeydlkkqeevleetkamipdlkk 62 
                               E+a   +E+++  +++ ++ + ++    + k+   v ee+ +m ++ k+
  PHY93_07310|PHY93_07310 256 TEQAASLQETSSSIEEISSMINANT---ENAKQSSVVSEESLSMAEKGKE 302
                              5777778888888999999988774...4889999999999999776555 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 2.8
                     TBCA  47 eevleetkamipdlkkrlekavek 70 
                              ++v +e+++++ ++ + +++  + 
  PHY93_07310|PHY93_07310 435 TRVAHECEEVLNEIVSSVASVSKM 458
                              455555555555544444333333 PP

  == domain 3  score: 7.9 bits;  conditional E-value: 0.0037
                     TBCA  14 EeasYekEleeqearleklkadgdedeydlkkqeevleetkamipdlkkrlekav 68 
                              E+a   +E+ +  a+l+++ ++++++  +  ++  vl    +m+  l ++l++ +
  PHY93_07310|PHY93_07310 468 EQAQGVHEITKAVAQLDQVTQQNTANSAESANAAGVLSNQAEMLNSLVQKLAQTI 522
                              33444456666666666666688899*************************9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (584 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2622  (0.146244); expected 358.6 (0.02)
Passed bias filter:                      732  (0.0408277); expected 358.6 (0.02)
Passed Vit filter:                       107  (0.00596798); expected 17.9 (0.001)
Passed Fwd filter:                        48  (0.00267723); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              18  [number of targets reported over threshold]
# CPU time: 1.05u 0.31s 00:00:01.36 Elapsed: 00:00:00.50
# Mc/sec: 3500.46
//
Query:       PHY93_07315|PHY93_07315  [L=147]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.7e-21   73.8   0.0    1.2e-20   73.6   0.0    1.0  1  CheW      CheW-like domain
  ------ inclusion threshold ------
      0.053   14.0   0.0      0.072   13.6   0.0    1.3  1  DcpS_C    Scavenger mRNA decapping enzyme C-term binding


Domain annotation for each model (and alignments):
>> CheW  CheW-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   73.6   0.0   1.3e-24   1.2e-20       2     128 ..      19     144 ..      18     146 .. 0.93

  Alignments for each domain:
  == domain 1  score: 73.6 bits;  conditional E-value: 1.3e-24
                              EEEEEETTEEEEEEGGGEEEEEECCT.BTTTTSSTTEEEEEEETTEEEEEEEHHHHCTSSSSTTSTCEEEEEEEETTEEEEEEESE CS
                     CheW   2 lllfrlgeetyaiplakvreilevppitpipgapgavlgvinlrGevipvidLrellglgpeesrentrvivvelgnqvvGllVde 87 
                              ++ f+lg+e+yai l   ++++ vp+ +pip++p+++l ++nl G+vip++dLr+ l l+ +++ e++ + ++++g+  +G++Vd+
  PHY93_07315|PHY93_07315  19 FIKFSLGKEEYAISLIMEKKVVLVPDTSPIPKSPPHFLVIMNLHGQVIPMVDLRKNLKLEAKQD-EEEAANILDIGEMNIGMVVDS 103
                              677************************************************************6.********************* PP

                              EEEEEEEECCGEETT.TSSTSSTCCCEEEEEECTTSEEEEEE CS
                     CheW  88 vkgiqeivikqiepp.lglssdlagyisGatklgdgrlvliL 128
                              +++++ ++ +++++    +++ + +yisG+ ++ d +l ++L
  PHY93_07315|PHY93_07315 104 INRVLAFSSDEVSETpKVGNQTNTNYISGVYRK-DSSLTILL 144
                              **************9844577889********9.88776665 PP

>> DcpS_C  Scavenger mRNA decapping enzyme C-term binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0     8e-06     0.072       9      43 ..      24      61 ..      17      95 .. 0.80

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 8e-06
                             TTSS-B-E.EEE-SSEEEEE-SS..-SSSEEEEEEESS CS
                   DcpS_C  9 kgkeperv.vyedekfvvlkDik..pkaklhllvipkr 43
                              gke+ ++ ++ ++k+v+++D    pk++ h+lvi++ 
  PHY93_07315|PHY93_07315 24 LGKEEYAIsLIMEKKVVLVPDTSpiPKSPPHFLVIMNL 61
                             56665555477889*********9999********986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (147 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       506  (0.0282224); expected 358.6 (0.02)
Passed bias filter:                      362  (0.0201908); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 1109.68
//
Query:       PHY93_07320|PHY93_07320  [L=266]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    4.1e-33  114.8   0.0    5.1e-33  114.5   0.0    1.1  1  Peptidase_M48  Peptidase family M48
    0.00064   19.2   0.0    0.00084   18.8   0.0    1.2  1  DUF3581        Protein of unknown function (DUF3581)


Domain annotation for each model (and alignments):
>> Peptidase_M48  Peptidase family M48
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  114.5   0.0   5.7e-37   5.1e-33       7     195 ..      59     246 ..      50     247 .. 0.92

  Alignments for each domain:
  == domain 1  score: 114.5 bits;  conditional E-value: 5.7e-37
                              HHHHHHHHHHHTT-..-EEEEEEE-GGGT-EEEEESSS-EEEEEEHHHH-SSB-HHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48   7 lkevveelakeaglpkpltkvyvvnspkrNAFalgggknkrivltdgLlkqllseeelaaVlGHElGHikhrhsvvslivsllasi 92 
                              +++v +++a+++g  + +++++ ++sp++NA++++gg   ++++++g++  l++e+ laaV+GHE++H++ rh   +  ++   ++
  PHY93_07320|PHY93_07320  59 VQRVAKRIAAASGE-NFQWETVLIDSPEVNAWCMPGG---KMAVYTGIMPVLKTEAALAAVMGHEVAHATLRHGKQRYARAMTGNF 140
                              56666666666666.99********************...*****************************************99999 PP

                              HHHHHHHHHTT-SHHHHHTT--S---HHHHHHHHHHTT....HHHHHHHHHHHHHHHHTTT.HHHHHHHHHHHHHHTT--S---HH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48  93 llllglallisraeedaagafldalavliglliillfl....alSRkrEyqADeagvellkrakdlvraliklakdlerqdvsasl 174
                              + + +  ++i+  + +   ++ +a  +l g+   + ++    ++SR  E+ AD+ g  +++ra+++++++ +l+++++    ++++
  PHY93_07320|PHY93_07320 141 IGMALGGAAIAGGQFFCKTTTCKAVSTLGGVAAGFAVTffdrKFSRGDESAADKEGQMYMARAGYDPSEAPRLWDRMSASHGGKAP 226
                              999999999999999999999999999999999998888999*******************************************9 PP

                              HHHHS-SS--HHHHHHHHHH- CS
                              xxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48 175 rsellstHPplleRiqalkel 195
                                e++stHP++ +R + l+++
  PHY93_07320|PHY93_07320 227 P-EFMSTHPSDDTRKAGLNSW 246
                              9.************8877765 PP

>> DUF3581  Protein of unknown function (DUF3581)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.0   9.4e-08   0.00084      70     130 ..      11      75 ..       4     124 .. 0.84

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 9.4e-08
                  DUF3581  70 gmvgdevelefpeeke.eelevtdekgktyleversgevskdea...lieslirsYvafsGknfp 130
                              g++ +  +l++p +ke ++ e++d++ k+ylev+ + ++s++++   l++++ ++  a sG+nf 
  PHY93_07320|PHY93_07320  11 GLLASCSTLKIPGAKEpTDAEINDQAAKAYLEVKSKSKISTNKEwndLVQRVAKRIAAASGENFQ 75 
                              55666667888765553789*****************9998864333899**************6 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (266 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       835  (0.0465726); expected 358.6 (0.02)
Passed bias filter:                      679  (0.0378716); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.24s 00:00:00.76 Elapsed: 00:00:00.42
# Mc/sec: 1921.04
//
Query:       PHY93_07325|PHY93_07325  [L=244]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.1e-41  141.8   0.0    3.5e-41  141.7   0.0    1.0  1  GDPD      Glycerophosphoryl diester phosphodiesterase family
  ------ inclusion threshold ------
       0.33   11.1   3.1         13    6.0   0.1    3.0  4  Cas6b_C   Cas6b C-terminal domain


Domain annotation for each model (and alignments):
>> GDPD  Glycerophosphoryl diester phosphodiesterase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  141.7   0.0   3.9e-45   3.5e-41       1     258 [.       9     238 ..       9     239 .. 0.92

  Alignments for each domain:
  == domain 1  score: 141.7 bits;  conditional E-value: 3.9e-45
                              TTTTTTTSSTTSHHHHHHHHHTT-SEEEEEEEE-TTS-EEE-SSSBSTTTCSCCCH.BGGGS-HHHHHTSTECCTTCCCCSCCCSS CS
                     GDPD   1 HRGasgnlpEnTlesfakAaelGadyiEfDvqlTkDgvpVvlHDfnldrttdvagrldvkdltleelkrldkiakenkaqlsenrv 86 
                              HRG+s+++pEnTl +f++A+e   d+iE+Dv+lT D  ++v HD  l rt +++g   + + +l++l++ld  +++  + +s++ +
  PHY93_07325|PHY93_07325   9 HRGYSAKYPENTLIAFERAIECKCDMIELDVHLTEDSQLIVAHDYILGRTSNGRG--AIDSHSLSDLQKLD-CGSWFGKEFSNQLM 91 
                              *******************************************************..**************.99***999999999 PP

                              GCCB...BHHHHHHHHHHCCSEEEEEEECCCCCCCHHHH.HHTCHHHCCCCCSCHHTT..STTCSCEEEESTHHHHHHHHHTCTCT CS
                     GDPD  87 rlefpfptleevlkkpqnvglnieikipmlseakeeeel.qivkeilksvdeilkkvlkkadkrkvifssfnpdilkllrekqpkl 171
                                    p l+evl    +v++ + i+++ ++e+ +   + qi+ e + s+ e l      +  + +i+ssfn +il+ lr+ ++++
  PHY93_07325|PHY93_07325  92 ------PSLKEVLI---KVDKRVTINVELKHETLKTSAHyQIMAENILSLIEEL------GYRDLIIISSFNEQILRTLRKQDSTI 162
                              ......9******5...6777777777777777777777788887777777777......5789********************99 PP

                              EEEEEEHHHHHHC-E.EECHCCCCCCCTCCCCHHCCCHCCCEB.CHHHHHHHTT-EEEEBSB-THSHHHHHHHHCCC-SEEEES-H CS
                     GDPD 172 pllflteggteaeadssleraakfakadallgevsavaeglgdpdlVkraksrglvvhvytvnnedeeemkrlleagvdgvitDfp 257
                              +l  l ++++         + +++++a ++++++ ++++g      +++ +++gl+v+++t n+   ++   l+ ++vdg+it+++
  PHY93_07325|PHY93_07325 163 RLGILDNNPEKHFLI----ELVREISAYSYHKNHIKLNQG-----NIQQMHRAGLKVYPFTANTI--KSFEKLCSLNVDGIITNQV 237
                              999998877777777....9********************.....9*******************..*****************98 PP

                              H CS
                     GDPD 258 d 258
                              +
  PHY93_07325|PHY93_07325 238 E 238
                              6 PP

>> Cas6b_C  Cas6b C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.8   0.0       1.5   1.3e+04      58      74 ..      24      39 ..      18      47 .. 0.53
   2 ?    0.6   0.0     0.063   5.6e+02      45      75 ..      88     117 ..      84     126 .. 0.75
   3 ?    6.0   0.1    0.0014        13      28      57 ..     110     139 ..     102     159 .. 0.89
   4 ?    4.5   0.2    0.0039        35       4      29 ..     181     206 ..     178     242 .. 0.83

  Alignments for each domain:
  == domain 1  score: -3.8 bits;  conditional E-value: 1.5
                  Cas6b_C 58 veekievkiteveekkv 74
                             +e+ ie+k+ ++ e +v
  PHY93_07325|PHY93_07325 24 FERAIECKC-DMIELDV 39
                             455555555.4444444 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.063
                  Cas6b_C  45 gnilsmakglgvtveekievkiteveekkvk 75 
                              ++++  +k++ ++v++++++++ e+++++ k
  PHY93_07325|PHY93_07325  88 NQLMPSLKEVLIKVDKRVTINV-ELKHETLK 117
                              6677788999999999999999.77776644 PP

  == domain 3  score: 6.0 bits;  conditional E-value: 0.0014
                  Cas6b_C  28 klkseeekkellekiLvgnilsmakglgvt 57 
                              +lk+e+ k++   +i+  nils++ +lg++
  PHY93_07325|PHY93_07325 110 ELKHETLKTSAHYQIMAENILSLIEELGYR 139
                              6788889999999***************96 PP

  == domain 4  score: 4.5 bits;  conditional E-value: 0.0039
                  Cas6b_C   4 eelieYkfltpwlaLnqenykkykkl 29 
                              +e+ +Y++ ++ + Lnq n+++ +++
  PHY93_07325|PHY93_07325 181 REISAYSYHKNHIKLNQGNIQQMHRA 206
                              678899999**********9987765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (244 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       658  (0.0367003); expected 358.6 (0.02)
Passed bias filter:                      433  (0.0241508); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.42
# Mc/sec: 1758.01
//
Query:       PHY93_16400|PHY93_16400  [L=515]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.3e-23   80.7   0.0    1.9e-22   79.1   0.0    1.8  2  SLT       Transglycosylase SLT domain
    4.6e-12   45.8   0.6    3.9e-09   36.4   0.1    3.7  3  LysM      LysM domain
    0.00011   21.5   0.1    0.00011   21.5   0.1    1.8  2  SLT_2     Transglycosylase SLT domain
  ------ inclusion threshold ------
      0.012   15.2   0.2      0.012   15.2   0.2    2.8  3  DDRGK     DDRGK domain


Domain annotation for each model (and alignments):
>> SLT  Transglycosylase SLT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0       1.1     5e+03      57      80 ..      58      81 ..      47      87 .. 0.70
   2 !   79.1   0.0   4.2e-26   1.9e-22      14     114 ..     162     261 ..     151     264 .. 0.93

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 1.1
                             -SHHHHCSHHHHHHHHHHHHHHHH CS
                      SLT 57 lsedelldPeknisagakyLksly 80
                             +++d  +d+e++++++ k  ks++
  PHY93_16400|PHY93_16400 58 TEQDRKKDVEESAKIAKKQSKSMI 81
                             667777888888888887666655 PP

  == domain 2  score: 79.1 bits;  conditional E-value: 4.2e-26
                              HHHHHHHHHHHHTT-TT-B-TTSEBTTTTBETTTHHHHHHHHT-SHHHHCSHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHH-HH CS
                      SLT  14 psllaaiaqvESgfnpkAvsksgavGLmQimpstakrlglrvklsedelldPeknisagakyLkslykqyngslllalaAYNaGeg 99 
                              p+ l ++a+ ESgfn  A+s + avG +Q+mp+t +++gl +   +de++dP+k++ a+a+yL +ly+ ++ s++ a+aAYNaGeg
  PHY93_16400|PHY93_16400 162 PRDLIFLAMAESGFNTSAKSWAAAVGPWQFMPATGRNYGLDQDWYKDERRDPIKATVAAARYLTKLYGDFG-SWEVAAAAYNAGEG 246
                              677899*****************************************************************.************** PP

                              HHHHTTHSSHHHHHH CS
                      SLT 100 tvkkakkevkkkekk 114
                              ++ ka+ + k+++ +
  PHY93_16400|PHY93_16400 247 KLSKAIIKYKSEDFW 261
                              *****9988887766 PP

>> LysM  LysM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.0     0.023     1e+02       9      33 ..     317     351 ..     309     358 .. 0.75
   2 ?    2.4   0.1     0.038   1.7e+02       4      20 ..     383     399 ..     380     424 .. 0.62
   3 !   36.4   0.1   8.7e-13   3.9e-09       1      42 [.     473     515 .]     473     515 .] 0.98

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.023
                              HHHHHHHCTCHHHHHHHHC..........TCSSCG CS
                     LysM   9 LwsIAkrygitveklleaN..........nlsspd 33 
                              L +++++ g+ +e+++++N          n ++++
  PHY93_16400|PHY93_16400 317 LIKLSSALGVEFEEIQRLNpevlrwftppNADNYK 351
                              7789999************8877777766666666 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.038
                              -TT--HHHHHHHCTCHH CS
                     LysM   4 kkGDTLwsIAkrygitv 20 
                              kkG T+  I+k+++i  
  PHY93_16400|PHY93_16400 383 KKGMTIAEISKKFKIKK 399
                              88889999*****7753 PP

  == domain 3  score: 36.4 bits;  conditional E-value: 8.7e-13
                              EEE-TT--HHHHHHHCTCHHHHHHHHC.TCSSCGG--TTEEEE CS
                     LysM   1 YtVkkGDTLwsIAkrygitveklleaN.nlsspdkifpGqkLk 42 
                              YtVkkG++L+++A+++gi+v++l++ N +++ ++k+ +G+kL+
  PHY93_16400|PHY93_16400 473 YTVKKGESLFTVAQKHGISVKRLIASNnEIRKTRKVNAGDKLV 515
                              9****************************************96 PP

>> SLT_2  Transglycosylase SLT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.2      0.95   4.2e+03      13      62 ..      35      85 ..      26     105 .. 0.48
   2 !   21.5   0.1   2.5e-08   0.00011     150     199 ..     180     227 ..     159     287 .. 0.79

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 0.95
                    SLT_2 13 aaaegiseetleaalagv.epkprvieldkkqaefkktleeYlkrfvtekr 62
                              + +g+ +e +++a  ++ +++ +  ++ k  +e++k  ++  k++++ + 
  PHY93_16400|PHY93_16400 35 QKVDGFASESVREAYLRLrKTDYTEQDRKKDVEESAKIAKKQSKSMINGAA 85
                             555566666666665555233322222223333333444444444444444 PP

  == domain 2  score: 21.5 bits;  conditional E-value: 2.5e-08
                    SLT_2 150 GSwaGamGltQFmPssylkyAvDfd..gdgrrDlwnspaDalaSvAnyLkkh 199
                               Swa a+G  QFmP + ++y+ D+d  +d rrD ++    a + +A+yL k 
  PHY93_16400|PHY93_16400 180 KSWAAAVGPWQFMPATGRNYGLDQDwyKDERRDPIK----ATVAAARYLTKL 227
                              59********************88766899999998....899999999876 PP

>> DDRGK  DDRGK domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.6      0.19   8.6e+02      41      58 ..      56      73 ..      29      90 .. 0.50
   2 ?   15.2   0.2   2.8e-06     0.012     100     141 ..     372     413 ..     357     416 .. 0.86
   3 ?   -0.4   0.4      0.17   7.5e+02      49      79 ..     446     476 ..     437     494 .. 0.58

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 0.19
                             XXXXXXXXXXXXXXXXXX CS
                    DDRGK 41 erkekeekeeekekkkee 58
                             +++e+++k+  +e +k +
  PHY93_16400|PHY93_16400 56 DYTEQDRKKDVEESAKIA 73
                             222222222222221111 PP

  == domain 2  score: 15.2 bits;  conditional E-value: 2.8e-06
                              HHHHHHHHHHH-SEE-HHHHHHHH-S-HHHHHHHHHHHHHHS CS
                    DDRGK 100 lleefinyikekKvvlleelavkfklktqevierikeLeeqg 141
                              l ++f ++i +kK +++ e++ kfk+k + v + ++++ e+ 
  PHY93_16400|PHY93_16400 372 LATDFQQFIVTKKGMTIAEISKKFKIKKNYVLSGLNNISENT 413
                              7789*****************************999998876 PP

  == domain 3  score: -0.4 bits;  conditional E-value: 0.17
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                    DDRGK  49 eeekekkkeeeerkkeeekerkeqeeyeklk 79 
                              ++e+ +k+++++r   +   rk++e y  +k
  PHY93_16400|PHY93_16400 446 RRENLRKNHRNRRLVARSATRKKSERYYTVK 476
                              3334444444445555555555555554444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (515 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1014  (0.0565564); expected 358.6 (0.02)
Passed bias filter:                      595  (0.0331865); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.67u 0.20s 00:00:00.87 Elapsed: 00:00:00.41
# Mc/sec: 3799.57
//
Query:       PHY93_07330|PHY93_07330  [L=290]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.13   12.1   0.0       0.13   12.1   0.0    2.7  3  ECSCR     Endothelial cell-specific chemotaxis regulator


Domain annotation for each model (and alignments):
>> ECSCR  Endothelial cell-specific chemotaxis regulator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.4     0.081   1.4e+03      20      50 ..      25      57 ..      16      64 .. 0.47
   2 ?   -2.4   0.4      0.24   4.4e+03      15      32 ..     102     119 ..      93     140 .. 0.53
   3 ?   12.1   0.0   7.3e-06      0.13      17      64 ..     196     243 ..     186     257 .. 0.85

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 0.081
                    ECSCR 20 ltvaafgv.is.fivilvvvviilvsvv..slrfk 50
                             +tv ++ + is f   l  v iil  +v  s+ fk
  PHY93_07330|PHY93_07330 25 MTVKSYAMpISlFYPNL--VAIILGILVslSIMFK 57
                             45555444122033333..4444444440044555 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 0.24
                    ECSCR  15 tsetvltvaafgvisfiv 32 
                               s  vl +  fg+  f+ 
  PHY93_07330|PHY93_07330 102 ISMIVLPIILFGLNYFLQ 119
                              455666666666666654 PP

  == domain 3  score: 12.1 bits;  conditional E-value: 7.3e-06
                    ECSCR  17 etvltvaafgvisfivilvvvviilvsvvslrfkcrknkesedpqkpe 64 
                              e +  + +fg i +  ilv  v  +   v +  k r nke ++ q   
  PHY93_07330|PHY93_07330 196 EILYMIRSFGPIGYFAILVTAVFSFYPFVYISTKLRSNKENNQGQALT 243
                              45567889********************************99988655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (290 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1056  (0.058899); expected 358.6 (0.02)
Passed bias filter:                      266  (0.0148363); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.24s 00:00:00.77 Elapsed: 00:00:00.42
# Mc/sec: 2075.72
//
Query:       PHY93_07335|PHY93_07335  [L=738]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.6e-52  176.1   1.0    3.1e-12   46.7   0.0    4.4  4  PAS_9          PAS domain
    3.2e-51  171.6   1.4    1.1e-12   48.1   0.0    5.1  5  PAS_3          PAS fold
    1.1e-43  149.0  33.1    1.2e-43  148.8  21.6    2.9  2  MCPsignal      Methyl-accepting chemotaxis protein (MCP) sign
    5.7e-36  123.1   0.0    2.8e-10   40.4   0.0    4.5  4  PAS_4          PAS fold
    1.1e-32  112.3   0.0    5.3e-11   42.5   0.0    4.4  4  PAS            PAS fold
    1.1e-10   41.2   0.0      0.059   13.4   0.0    4.5  4  PAS_8          PAS domain
  ------ inclusion threshold ------
       0.17   11.9   1.9        1.8    8.6   0.5    3.0  2  DASH_Dad4      DASH complex subunit Dad4
       0.33   11.2  11.6        0.7   10.2   1.3    3.5  2  DUF948         Bacterial protein of unknown function (DUF948)
       0.56   10.4   9.3       0.16   12.1   0.5    3.2  3  Fib_alpha      Fibrinogen alpha/beta chain family
       0.73    9.9  13.6        0.3   11.1   1.4    3.6  3  DUF1664        Protein of unknown function (DUF1664)
        3.4    8.2  16.0        0.2   12.1   0.3    3.5  3  T7SS_ESX_EspC  Excreted virulence factor EspC, type VII ESX d


Domain annotation for each model (and alignments):
>> PAS_9  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.7   0.0   1.9e-15   3.1e-12       7     104 .]      32     130 ..      26     130 .. 0.93
   2 !   43.0   0.0   2.6e-14   4.2e-11       5     104 .]     148     248 ..     144     248 .. 0.91
   3 !   42.6   0.1   3.4e-14   5.6e-11       7     103 ..     272     369 ..     264     370 .. 0.87
   4 !   39.2   0.0     4e-13   6.5e-10       7     103 ..     388     484 ..     381     484 .. 0.93

  Alignments for each domain:
  == domain 1  score: 46.7 bits;  conditional E-value: 1.9e-15
                    PAS_9   7 dnpdgrilyaNeaalrllGyspeevlgksitdlf...vtdpeanerlraaleqgrkkerevevvlirkngetfwvlltaspvkddd 89 
                               n+dg+++ aNe +l+ +Gy +ee++gk+   l    + ++++++++++ l  g+  + ++e+ + ++ g+ +w +++  p++d+ 
  PHY93_07335|PHY93_07335  32 FNMDGTVIGANENFLKTFGYLFEEIVGKKHQVLGeeqYLSDDDRKEFWQKLAKGE--FVAGEYKMKNNGGRDVWLNASYNPIFDQY 115
                              479**************************8888899999****************..****************************7 PP

                    PAS_9  90 gelvgiivilrDite 104
                               ++v i+ +  Dit+
  PHY93_07335|PHY93_07335 116 SKVVKILMFASDITA 130
                              788889*******95 PP

  == domain 2  score: 43.0 bits;  conditional E-value: 2.6e-14
                    PAS_9   5 li.dnpdgrilyaNeaalrllGyspeevlgksitdlf..vtdpeanerlraaleqgrkkerevevvlirkngetfwvlltaspvkd 87 
                              +   + +g+il++N++++++ +ys+ee++g++  ++   + ++e  ++l+a + +g    +++ v + +k+g++++v++ ++p++ 
  PHY93_07335|PHY93_07335 148 VSeSDLKGNILSINQKFCEVSQYSREELIGQPHNTTRhpDMPKEVFKELWATIGRGN--IFRGIVKNKKKDGTPYYVDAVIAPIMG 231
                              4346789*************************9998888888888888888888888..**************************9 PP

                    PAS_9  88 ddgelvgiivilrDite 104
                              ++g+ + ++++  Dite
  PHY93_07335|PHY93_07335 232 SNGKPKKYLGVRYDITE 248
                              9***************8 PP

  == domain 3  score: 42.6 bits;  conditional E-value: 3.4e-14
                    PAS_9   7 dnpdgrilyaNeaalrllGyspeevlgksitdlfvtdpeanerlraaleqgrk.kerevevvlirkngetfwvlltaspvkdddge 91 
                               +++g+il+aN+++l+ +Gy+ ee++gk+ + +++++  + +   +++ ++r+ k + + +  i k+g+++w +   +pv+d+ ++
  PHY93_07335|PHY93_07335 272 FDTNGNILSANKKFLEAMGYKNEEIIGKHHRIFVDNSFANSNSYTQFWADLREgKSQGDVYKRISKEGKEIWLQSVYAPVFDEMQR 357
                              469*******************************66666666666666666666699999**************999******999 PP

                    PAS_9  92 lvgiivilrDit 103
                              ++ ii i +++t
  PHY93_07335|PHY93_07335 358 VMKIIKIATNVT 369
                              999******998 PP

  == domain 4  score: 39.2 bits;  conditional E-value: 4e-13
                    PAS_9   7 dnpdgrilyaNeaalrllGyspeevlgksitdlf...vtdpeanerlraaleqgrkkerevevvlirkngetfwvlltaspvkddd 89 
                              +  dg+il aNe +l+ +Gy+ ee+ gks + l+   ++++ a +++++ l +g+  ++++ +  + k+g+t+w ++t  p +d+ 
  PHY93_07335|PHY93_07335 388 T-LDGTILCANENFLKTIGYTIEEIKGKSHRILCeesYFNSPAYREFWNKLGRGE--AESGRYKQVAKDGKTLWLQATYNPNFDQF 470
                              3.89***************************************************..****************************9 PP

                    PAS_9  90 gelvgiivilrDit 103
                              g+ +g+  +  Di+
  PHY93_07335|PHY93_07335 471 GRPCGVSNFGSDIS 484
                              99999888888886 PP

>> PAS_3  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.9   0.0   2.4e-13   3.9e-10       2      87 ..      39     123 ..      38     125 .. 0.88
   2 !   48.1   0.0   6.5e-16   1.1e-12       2      88 ..     158     242 ..     157     243 .. 0.98
   3 ?   -0.8   0.0       1.1   1.9e+03      53      83 ..     248     279 ..     246     283 .. 0.89
   4 !   35.4   0.1   6.2e-12     1e-08       2      89 .]     279     365 ..     278     365 .. 0.94
   5 !   43.1   0.0   2.3e-14   3.8e-11       4      85 ..     396     476 ..     393     479 .. 0.96

  Alignments for each domain:
  == domain 1  score: 39.9 bits;  conditional E-value: 2.4e-13
                    PAS_3   2 iyvserveeilGyspeellgkveswldlvhpeD.rervrealqealkkgepyegeyRirrkdGeyrwveararvirdengkpvrvi 86 
                              i ++e++ +++Gy  ee+ gk  ++  l   +   +  r+++++ l+kge + gey++++  G  +w+ a++++i+d+ +k+v+++
  PHY93_07335|PHY93_07335  39 IGANENFLKTFGYLFEEIVGK--KHQVLGEEQYlSDDDRKEFWQKLAKGEFVAGEYKMKNNGGRDVWLNASYNPIFDQYSKVVKIL 122
                              679******************..666555555555667999******************************************997 PP

                    PAS_3  87 g 87 
                               
  PHY93_07335|PHY93_07335 123 M 123
                              5 PP

  == domain 2  score: 48.1 bits;  conditional E-value: 6.5e-16
                    PAS_3   2 iyvserveeilGyspeellgkveswldlvhpeDrervrealqealkkgepyegeyRirrkdGeyrwveararvirdengkpvrvig 87 
                              ++++++++e+  ys+eel+g+   +    hp++ ++v+++l++ + +g  + g ++ ++kdG+ ++v+a + +i  +ngkp +++g
  PHY93_07335|PHY93_07335 158 LSINQKFCEVSQYSREELIGQ--PHNTTRHPDMPKEVFKELWATIGRGNIFRGIVKNKKKDGTPYYVDAVIAPIMGSNGKPKKYLG 241
                              689******************..**************************************************************9 PP

                    PAS_3  88 v 88 
                              v
  PHY93_07335|PHY93_07335 242 V 242
                              8 PP

  == domain 3  score: -0.8 bits;  conditional E-value: 1.1
                    PAS_3  53 egeyRirrkdGeyrwveararvi.rdengkpv 83 
                              e+e+ + +  G +  ++++  +i +d ng+++
  PHY93_07335|PHY93_07335 248 ETEIERHHSRGVISAIDSSFAYIeFDTNGNIL 279
                              6788999999*******************986 PP

  == domain 4  score: 35.4 bits;  conditional E-value: 6.2e-12
                    PAS_3   2 iyvserveeilGyspeellgkveswldlvhpeD.rervrealqealkkgepyegeyRirrkdGeyrwveararvirdengkpvrvi 86 
                              +++++++ e +Gy  ee++gk  +++ +v      ++ ++++++ l++g++    y+++ k G+ +w+++ + +++de  ++ ++i
  PHY93_07335|PHY93_07335 279 LSANKKFLEAMGYKNEEIIGK--HHRIFVDNSFaNSNSYTQFWADLREGKSQGDVYKRISKEGKEIWLQSVYAPVFDEMQRVMKII 362
                              6899*****************..99999988888999*************98999******************************9 PP

                    PAS_3  87 gva 89 
                              ++a
  PHY93_07335|PHY93_07335 363 KIA 365
                              985 PP

  == domain 5  score: 43.1 bits;  conditional E-value: 2.3e-14
                    PAS_3   4 vserveeilGyspeellgkveswldlvhpeD.rervrealqealkkgepyegeyRirrkdGeyrwveararvirdengkpvrv 85 
                              ++e++ +++Gy+ ee++gk  s++ l+      + +++++++ l +ge+ +g y+ + kdG++ w++a++++ +d+ g+p+ v
  PHY93_07335|PHY93_07335 396 ANENFLKTIGYTIEEIKGK--SHRILCEESYfNSPAYREFWNKLGRGEAESGRYKQVAKDGKTLWLQATYNPNFDQFGRPCGV 476
                              79*****************..**********9****************99******************************987 PP

>> MCPsignal  Methyl-accepting chemotaxis protein (MCP) signalling domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.2   3.5      0.01        17      90     170 ..     488     544 ..     482     553 .. 0.48
   2 !  148.8  21.6   7.7e-47   1.2e-43       3     170 ..     552     705 ..     549     707 .. 0.97

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.01
                              HHHHHH..............HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal  90 eiealiieiqkeindsvesleetrqrveegselveetgealkeiveavaevadlvqeiaaaseeqsasieevnqaveevak 170
                              e+e+ ++++ +e   s++ ++e    v+ g++    t+e++                         asiee + +++ +a+
  PHY93_07335|PHY93_07335 488 EVEETVTKLANEFSLSTKEISEKSIGVARGAQALGATTEEM------------------------NASIEELTASINSIAQ 544
                              44444445555555555555555555555555444444444........................4444444444443333 PP

  == domain 2  score: 148.8 bits;  conditional E-value: 7.7e-47
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal   3 laeeaseeAeeggkevanvvkqmeeieksskeisdiieVideiadQTNlLALNAaiEAARAGeqGrGFaVVAdEVrkLAersaqaa 88 
                              +a+ +++eAe g + + +++++m+ i+kss++is+i++Vi eia QTNlLA NAaiEAARAGe+G GF+VVAdEVrkLAers qa+
  PHY93_07335|PHY93_07335 552 VAKATHQEAEIGARAITKAIEAMDLISKSSEDISEIVKVISEIAGQTNLLAFNAAIEAARAGEHGLGFSVVADEVRKLAERSSQAT 637
                              5788999******************************************************************************* PP

                              HHHHHHH..............HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                MCPsignal  89 keiealiieiqkeindsvesleetrqrveegselveetgealkeiveavaevadlvqeiaaaseeqsasieevnqaveevak 170
                              kei++li              +e+ +rv++gse+ +++g a+++iv+ v++ ++ ++e++ a+eeq  +++e+++a++ va+
  PHY93_07335|PHY93_07335 638 KEISKLI--------------NESAKRVAQGSEISKQAGVAFEKIVDGVNKTTQAISEVSCAAEEQLVAAKEISSAIQSVAE 705
                              *******..............99******************************************************99986 PP

>> PAS_4  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.4   0.0   1.7e-13   2.8e-10       6     109 ..      27     132 ..      24     133 .. 0.90
   2 !   19.3   0.0   6.1e-07   0.00099      10     108 ..     147     249 ..     139     251 .. 0.87
   3 !   32.7   0.0   4.2e-11   6.8e-08       5     108 ..     266     371 ..     263     373 .. 0.89
   4 !   25.0   0.0   1.1e-08   1.7e-05       5     108 ..     381     486 ..     379     488 .. 0.91

  Alignments for each domain:
  == domain 1  score: 40.4 bits;  conditional E-value: 1.7e-13
                    PAS_4   6 dalavldpdgrvlyaNaaaaelfgappeellGktlaellpee...daarleralrrvlegeepiefleelll.pgeerhyelrllP 87 
                              +++  ++ dg+v+ aN+++ + fg+ +ee++Gk+ + +l ee   + ++  + ++++++ge ++  +  ++  +g++++++ +++P
  PHY93_07335|PHY93_07335  27 QIISEFNMDGTVIGANENFLKTFGYLFEEIVGKKHQ-VLGEEqylSDDDRKEFWQKLAKGE-FVAGEYKMKNnGGRDVWLNASYNP 110
                              5666789*****************************.7777779899999**********5.77777777777************* PP

                    PAS_4  88 lrdesGevigvlvisrDiTerr 109
                              ++d   +v+ +l+++ DiT+ +
  PHY93_07335|PHY93_07335 111 IFDQYSKVVKILMFASDITASK 132
                              *******************976 PP

  == domain 2  score: 19.3 bits;  conditional E-value: 6.1e-07
                    PAS_4  10 vl...dpdgrvlyaNaaaaelfgappeellGktla.ellpeedaarleralrrvlegeepiefleelll..pgeerhyelrllPlr 89 
                              ++   d  g++l +N+ ++e+ ++++eel+G++     +p+  ++ + + ++   +g+  i++ ++ +   +g + +++  + P+ 
  PHY93_07335|PHY93_07335 147 IVsesDLKGNILSINQKFCEVSQYSREELIGQPHNtTRHPDMPKEVFKELWATIGRGN--IFRGIVKNKkkDGTPYYVDAVIAPIM 230
                              555558899**************************7678888999************7..55555555566*************** PP

                    PAS_4  90 desGevigvlvisrDiTer 108
                               ++G++  +l++ +DiTe+
  PHY93_07335|PHY93_07335 231 GSNGKPKKYLGVRYDITET 249
                              *****************97 PP

  == domain 3  score: 32.7 bits;  conditional E-value: 4.2e-11
                    PAS_4   5 pdalavldpdgrvlyaNaaaaelfgappeellGktlaellpeedaarleralrrvlegeepiefleelll...pgeerhyelrllP 87 
                              ++a + +d++g++l aN+ + e +g+  ee++Gk+ + ++ + + a+  ++ + +++ +e  ++ +++++   +g+e +++  + P
  PHY93_07335|PHY93_07335 266 SFAYIEFDTNGNILSANKKFLEAMGYKNEEIIGKHHR-IFVDNSFANSNSYTQFWADLREGKSQGDVYKRiskEGKEIWLQSVYAP 350
                              5667788******************************.67777888888888888888888888899998989************* PP

                    PAS_4  88 lrdesGevigvlvisrDiTer 108
                              ++de  +v+ ++ i++ +T +
  PHY93_07335|PHY93_07335 351 VFDEMQRVMKIIKIATNVTGE 371
                              ****************99965 PP

  == domain 4  score: 25.0 bits;  conditional E-value: 1.1e-08
                    PAS_4   5 pdalavldpdgrvlyaNaaaaelfgappeellGktlaellpee..daarleralrrvlegeepiefleelllpgeerhyelrllPl 88 
                              ++a++ +  dg++l aN+++ + +g++ ee+ Gk+ + l  e+    +++++ ++++ +ge+   +   +  +g++ +++ +++P 
  PHY93_07335|PHY93_07335 381 SQAVIEFTLDGTILCANENFLKTIGYTIEEIKGKSHRILCEESyfNSPAYREFWNKLGRGEAESGRYKQVAKDGKTLWLQATYNPN 466
                              57899999*****************************5555558888*************988888888888************** PP

                    PAS_4  89 rdesGevigvlvisrDiTer 108
                              +d  G++ gv  ++ Di+ +
  PHY93_07335|PHY93_07335 467 FDQFGRPCGVSNFGSDISIQ 486
                              *****************876 PP

>> PAS  PAS fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.2   0.0   2.7e-07   0.00045      19     113 .]      34     128 ..      28     128 .. 0.82
   2 !   42.5   0.0   3.2e-14   5.3e-11       3     109 ..     137     242 ..     135     246 .. 0.94
   3 !   25.7   0.0   5.3e-09   8.7e-06      14     103 ..     269     358 ..     257     364 .. 0.89
   4 !   18.3   0.0   1.1e-06    0.0018      14     113 .]     384     483 ..     381     483 .. 0.85

  Alignments for each domain:
  == domain 1  score: 20.2 bits;  conditional E-value: 2.7e-07
                              TTSBEEEECHHHHHHHSSTHHHCTTSBGGGGBSTTHHH.HHHHHHHHHHHHTT-ECCCCEEEECTTSSEEEEEEEEEEEEETTEEE CS
                      PAS  19 edgrilyvNaaaeellGlsreevlgkslldliheedda.elaelleqlleqgeesrageisfklrdgrpihlevraspvrdaggei 103
                               dg ++++N+++ + +G+  ee++gk+   l  e++ + +++++++q l+ ge + age + k   gr ++l    +p++d  +++
  PHY93_07335|PHY93_07335  34 MDGTVIGANENFLKTFGYLFEEIVGKKHQVLGEEQYLSdDDRKEFWQKLAKGE-FVAGEYKMKNNGGRDVWLNASYNPIFDQYSKV 118
                              69************************988666666655556666666665555.55556656666********************* PP

                              EEEEEEEEES CS
                      PAS 104 lgflgvlrdi 113
                                +l+++ di
  PHY93_07335|PHY93_07335 119 VKILMFASDI 128
                              *******998 PP

  == domain 2  score: 42.5 bits;  conditional E-value: 3.2e-14
                              HHHHHHHSSSEEEEEETTSBEEEECHHHHHHHSSTHHHCTTSBGGGGBSTTHHHHHHHHHHHHHHHTT-ECCCCEEEECTTSSEEE CS
                      PAS   3 lraileslpdpifvvDedgrilyvNaaaeellGlsreevlgkslldliheeddaelaelleqlleqgeesrageisfklrdgrpih 88 
                              +r+ + ++++ +   D +g+il +N++++e  ++sree++g++ +  +h++ + e+ ++l+  +  g+ +r+  ++ k+ dg+p++
  PHY93_07335|PHY93_07335 137 VRTAIMDATSIVSESDLKGNILSINQKFCEVSQYSREELIGQPHNTTRHPDMPKEVFKELWATIGRGNIFRGIVKNKKK-DGTPYY 221
                              67888899999********************************************************************.****** PP

                              EEEEEEEEEETTEEEEEEEEE CS
                      PAS  89 levraspvrdaggeilgflgv 109
                              ++   +p++   g+++ +lgv
  PHY93_07335|PHY93_07335 222 VDAVIAPIMGSNGKPKKYLGV 242
                              *************99988887 PP

  == domain 3  score: 25.7 bits;  conditional E-value: 5.3e-09
                              EEEEETTSBEEEECHHHHHHHSSTHHHCTTSBGGGGBSTTHHH..HHHHHHHHHHHHTT-ECCCCEEEECTTSSEEEEEEEEEEEE CS
                      PAS  14 ifvvDedgrilyvNaaaeellGlsreevlgkslldliheedda..elaelleqlleqgeesrageisfklrdgrpihlevraspvr 97 
                               +  D +g+il +N+++ e  G++ ee++gk+  +++ + + a    + +++  l++g+++ ++ +++ +  g++i+l+   +pv+
  PHY93_07335|PHY93_07335 269 YIEFDTNGNILSANKKFLEAMGYKNEEIIGKHHRIFVDN-SFAnsNSYTQFWADLREGKSQGDVYKRISK-EGKEIWLQSVYAPVF 352
                              56679**************************99988854.444788************************.*************** PP

                              ETTEEE CS
                      PAS  98 daggei 103
                              d+ +++
  PHY93_07335|PHY93_07335 353 DEMQRV 358
                              *98776 PP

  == domain 4  score: 18.3 bits;  conditional E-value: 1.1e-06
                              EEEEETTSBEEEECHHHHHHHSSTHHHCTTSBGGGGBSTTHHH.HHHHHHHHHHHHTT-ECCCCEEEECTTSSEEEEEEEEEEEEE CS
                      PAS  14 ifvvDedgrilyvNaaaeellGlsreevlgkslldliheedda.elaelleqlleqgeesrageisfklrdgrpihlevraspvrd 98 
                              ++    dg il +N+++ +  G++ ee+ gks  +l  e +     ++++++ l  ge +++  + + + dg++ +l+ + +p +d
  PHY93_07335|PHY93_07335 384 VIEFTLDGTILCANENFLKTIGYTIEEIKGKSHRILCEESYFNsPAYREFWNKLGRGEAESGRYKQVAK-DGKTLWLQATYNPNFD 468
                              5556689******************************99988877777777777777777777776666.**************** PP

                              TTEEEEEEEEEEEES CS
                      PAS  99 aggeilgflgvlrdi 113
                                g++ g+  ++ di
  PHY93_07335|PHY93_07335 469 QFGRPCGVSNFGSDI 483
                              999999998888876 PP

>> PAS_8  PAS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.6   0.0      0.01        17      19      51 ..      35      67 ..      24      84 .. 0.72
   2 !   11.5   0.0   0.00015      0.24      18      54 ..     152     189 ..     137     202 .. 0.72
   3 !   13.4   0.0   3.6e-05     0.059      12      57 ..     265     313 ..     255     323 .. 0.72
   4 ?    4.6   0.0     0.021        34      20      62 ..     390     433 ..     378     438 .. 0.76

  Alignments for each domain:
  == domain 1  score: 5.6 bits;  conditional E-value: 0.01
                    PAS_8 19 lgdrivdvNqaalellGys.adlkgellgqllpv 51
                             +g+ ++ +N+ +l+ +Gy  +++ g++ ++l+++
  PHY93_07335|PHY93_07335 35 DGT-VIGANENFLKTFGYLfEEIVGKKHQVLGEE 67
                             445.999**********99999999988544433 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 0.00015
                    PAS_8  18 d.lgdrivdvNqaalellGys.adlkgellgqllpvlrp 54 
                              d  g+ i+ +Nq+++e   ys ++l+g++  +  +  +p
  PHY93_07335|PHY93_07335 152 DlKGN-ILSINQKFCEVSQYSrEELIGQPHNTTRHPDMP 189
                              43445.***************999999988544444444 PP

  == domain 3  score: 13.4 bits;  conditional E-value: 3.6e-05
                    PAS_8  12 dgiav..vd.lgdrivdvNqaalellGys.adlkgellgqllpvlrplle 57 
                               + a   +d +g+ i+ +N+++le  Gy+ ++++g+  +++++ +  +  
  PHY93_07335|PHY93_07335 265 SSFAYieFDtNGN-ILSANKKFLEAMGYKnEEIIGKHHRIFVDNSFANSN 313
                              4444423676777.***************999999887777776666655 PP

  == domain 4  score: 4.6 bits;  conditional E-value: 0.021
                    PAS_8  20 gdrivdvNqaalellGys.adlkgellgqllpvlrplledaeql 62 
                              +++i+ +N+ +l+  Gy+ +++kg+  ++l ++++ +   ++++
  PHY93_07335|PHY93_07335 390 DGTILCANENFLKTIGYTiEEIKGKSHRILCEESYFNSPAYREF 433
                              3447779******************9988777777766666665 PP

>> DASH_Dad4  DASH complex subunit Dad4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   0.5    0.0011       1.8      19      50 ..     524     555 ..     522     559 .. 0.91
   2 ?    0.7   0.0      0.33   5.4e+02      11      42 ..     663     694 ..     657     711 .. 0.76

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.0011
                DASH_Dad4  19 nvekLnesvvelnkeleeinkkNknvelvsql 50 
                              + e +n s++el  ++++i ++ kn+++v++ 
  PHY93_07335|PHY93_07335 524 TTEEMNASIEELTASINSIAQNSKNTDVVAKA 555
                              5789************************9986 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.33
                DASH_Dad4  11 alLsRIiknvekLnesvvelnkeleeinkkNk 42 
                              + ++ I+  v+k ++++ e+  + ee   + k
  PHY93_07335|PHY93_07335 663 VAFEKIVDGVNKTTQAISEVSCAAEEQLVAAK 694
                              567899**********9999877766555555 PP

>> DUF948  Bacterial protein of unknown function (DUF948)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   1.3   0.00043       0.7      22      87 ..     519     584 ..     511     593 .. 0.85
   2 ?    3.7   3.2     0.045        73      22      85 ..     638     701 ..     618     735 .. 0.60

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00043
                   DUF948  22 lklkktldeaaatieelekqvdpilkevedllakvnelledvneklekvdplteavadlgesvsel 87 
                                l+ t +e++a+ieel+  +++i ++++++   ++++ ++ +    ++ + +ea+  +++s +++
  PHY93_07335|PHY93_07335 519 QALGATTEEMNASIEELTASINSIAQNSKNTDVVAKATHQEAEIGARAITKAIEAMDLISKSSEDI 584
                              57899***********************99999999988999888888888888888888876665 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.045
                   DUF948  22 lklkktldeaaatieelekqvdpilkevedllakvnelledvneklekvdplteavadlgesvs 85 
                              ++++k+++e a+++++  +  ++     e++++ vn++++ ++e + + ++   a+++++ +++
  PHY93_07335|PHY93_07335 638 KEISKLINESAKRVAQGSEISKQAGVAFEKIVDGVNKTTQAISEVSCAAEEQLVAAKEISSAIQ 701
                              4445555555555554443333333444444444444444444444444444444444444444 PP

>> Fib_alpha  Fibrinogen alpha/beta chain family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.5   9.9e-05      0.16      25     102 ..     520     599 ..     517     607 .. 0.81
   2 ?   -0.1   1.8      0.61   9.9e+02      45      95 ..     631     681 ..     621     710 .. 0.41
   3 ?    1.6   0.3      0.18   2.9e+02      46      97 ..     685     735 ..     662     737 .. 0.57

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 9.9e-05
                              CCCCCCCCCCHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH...HHHHHHHHHHHHHCCCHHHHHHHCCHH CS
                Fib_alpha  25 lllkyekdvkkdlekleneleeisnstkeaeelvkeikdslrekqkskkdn...dnvikksskeleeeilrlketidaqes 102
                              +l  + ++++ ++e+l+ ++++i++++k+++ + k++++  +   +  ++      +i+kss+++  ei+++  +i  q +
  PHY93_07335|PHY93_07335 520 ALGATTEEMNASIEELTASINSIAQNSKNTDVVAKATHQEAEIGARAITKAieaMDLISKSSEDIS-EIVKVISEIAGQTN 599
                              56678899*****************************99887766666654334788999999998.88888777776655 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 0.61
                              CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHH CS
                Fib_alpha  45 eeisnstkeaeelvkeikdslrekqkskkdndnvikksskeleeeilrlke 95 
                              e+ s+ tke+++l++e  + +++  + +k+   +++k+ + +++  + + e
  PHY93_07335|PHY93_07335 631 ERSSQATKEISKLINESAKRVAQGSEISKQAGVAFEKIVDGVNKTTQAISE 681
                              333334444444444433333333333333333333333333333333333 PP

  == domain 3  score: 1.6 bits;  conditional E-value: 0.18
                              CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH CS
                Fib_alpha  46 eisnstkeaeelvkeikdslrekqkskkdndnvikksskeleeeilrlketi 97 
                               ++++   a+e++++i+++ +e++ks++  ++ i + +k l +  ++lk t+
  PHY93_07335|PHY93_07335 685 AAEEQLVAAKEISSAIQSVAEETEKSAT-ASESIANATKGLTQGAEDLKITV 735
                              3444455566666677777666666666.45556666666666666666555 PP

>> DUF1664  Protein of unknown function (DUF1664)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -4.1   0.0       9.7   1.6e+04      54      73 ..     125     144 ..     120     149 .. 0.78
   2 ?    4.4   1.7     0.023        37      90     123 ..     512     545 ..     488     602 .. 0.56
   3 ?   11.1   1.4   0.00018       0.3      45     115 ..     656     726 ..     649     734 .. 0.89

  Alignments for each domain:
  == domain 1  score: -4.1 bits;  conditional E-value: 9.7
                  DUF1664  54 seslaatkrhLssridrvdk 73 
                               ++++a k +L+ r + +d+
  PHY93_07335|PHY93_07335 125 ASDITASKAELQVRTAIMDA 144
                              56788899999988887775 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.023
                  DUF1664  90 tevredlseigedvesvkeaveglesklerieek 123
                                v ++ +++g   e++++ +e+l +++++i ++
  PHY93_07335|PHY93_07335 512 IGVARGAQALGATTEEMNASIEELTASINSIAQN 545
                              4444444444444444444444444444444332 PP

  == domain 3  score: 11.1 bits;  conditional E-value: 0.00018
                  DUF1664  45 svskqleqvseslaatkrhLssridrvdkkldeqkeiskeikeevtevredlseigedvesvkeavegles 115
                              ++skq     e++ +  ++ ++ i +v +  +eq  ++kei++ +++v e++++  + +es+ +a +gl +
  PHY93_07335|PHY93_07335 656 EISKQAGVAFEKIVDGVNKTTQAISEVSCAAEEQLVAAKEISSAIQSVAEETEKSATASESIANATKGLTQ 726
                              67888888888888999999*******************************************99999976 PP

>> T7SS_ESX_EspC  Excreted virulence factor EspC, type VII ESX diderm
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.0   1.1      0.73   1.2e+03      15      49 ..     521     555 ..     506     593 .. 0.55
   2 ?   12.1   0.3   0.00012       0.2       6      61 ..     620     678 ..     618     682 .. 0.82
   3 ?    4.4   1.8     0.032        52      10      58 ..     680     728 ..     678     734 .. 0.79

  Alignments for each domain:
  == domain 1  score: 0.0 bits;  conditional E-value: 0.73
            T7SS_ESX_EspC  15 laakhdevaaeiasavaaaagasaavldshGpica 49 
                              l+a+ +e+ a i+ ++a+ +  ++++ ++  + +a
  PHY93_07335|PHY93_07335 521 LGATTEEMNASIEELTASINSIAQNSKNTDVVAKA 555
                              33344444444444444444444444444444444 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 0.00012
            T7SS_ESX_EspC   6 sVdpdhlrelaakhdevaaeiasavaaa...agasaavldshGpicaatndavaaaeaa 61 
                              sV++d++r+la++  ++ +ei+++ + +   + ++++++++ G+ + +  d v++  +a
  PHY93_07335|PHY93_07335 620 SVVADEVRKLAERSSQATKEISKLINESakrVAQGSEISKQAGVAFEKIVDGVNKTTQA 678
                              79*********************998883344567789999999999888888776655 PP

  == domain 3  score: 4.4 bits;  conditional E-value: 0.032
            T7SS_ESX_EspC  10 dhlrelaakhdevaaeiasavaaaagasaavldshGpicaatndavaaa 58 
                              +++  +a+++  +a+ei+sa +++a++++++++   +i  at+   + a
  PHY93_07335|PHY93_07335 680 SEVSCAAEEQLVAAKEISSAIQSVAEETEKSATASESIANATKGLTQGA 728
                              5788899*****************9998888887766666666555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (738 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1302  (0.0726198); expected 358.6 (0.02)
Passed bias filter:                      575  (0.0320709); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.80u 0.25s 00:00:01.05 Elapsed: 00:00:00.44
# Mc/sec: 5053.48
//
Query:       PHY93_07340|PHY93_07340  [L=277]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      2e-43  148.2   0.0    2.7e-43  147.8   0.0    1.1  1  CheR             CheR methyltransferase, SAM binding domain
    2.4e-13   49.6   0.1    5.7e-13   48.4   0.1    1.6  1  CheR_N           CheR methyltransferase, all-alpha domain
    1.4e-06   28.2   0.2    6.7e-05   22.7   0.1    2.3  2  Methyltransf_31  Methyltransferase domain
    3.3e-06   27.7   0.0    5.6e-05   23.7   0.0    2.2  1  Methyltransf_11  Methyltransferase domain
    1.2e-05   26.0   0.1    4.1e-05   24.2   0.0    1.9  2  Methyltransf_12  Methyltransferase domain
    4.4e-05   24.1   0.0     0.0042   17.8   0.0    2.3  1  Methyltransf_25  Methyltransferase domain
  ------ inclusion threshold ------
       0.18   11.1   0.0       0.42    9.9   0.0    1.6  2  Methyltransf_2   O-methyltransferase domain


Domain annotation for each model (and alignments):
>> CheR  CheR methyltransferase, SAM binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  147.8   0.0     1e-46   2.7e-43       1     187 [.      77     264 ..      77     267 .. 0.93

  Alignments for each domain:
  == domain 1  score: 147.8 bits;  conditional E-value: 1e-46
                              SS--TTTTCHHHHHHHHCCH.HHHHHHHTSSSEEEEEES-TTTHHHHHHHHHHHCHSTTTSSS-EEEEEEESSCHHHHHHHHTEEE CS
                     CheR   1 neTeffreakhfeelekevlepllakaknekrvriwsagcssGeEpYslAmllketlpkaaklkvkilAtDidlkvlekAkagvyk 86 
                              neT+ffr +  ++ + k+ l p  a+a+ +k+++iws ++ssGeE Y++ ++ +e   k+++++++i++tDi+++vl++A  g y+
  PHY93_07340|PHY93_07340  77 NETSFFRTQRVWDYFTKNFL-PDWAAANPKKTLKIWSGAASSGEEIYTIGICCEEHRSKNIGFNYQITGTDISSEVLTTADIGEYS 161
                              89******************.79999999********************************************************* PP

                              CCHHTTS-HH...HHHHHEEEEETTCEEE-HHHHTTEEEEE--TTT-SGGG--EEEEEE-SSGGGC-CHHHHHHHHHHHCCEEEEE CS
                     CheR  87 eeeleglsee...lleryfekseddsykvkkeikelvkFeklnllekksvlgklDvifcrnvliYfdeetqekvlerfaeklkpgg 169
                               +++e+ +++   l ++y+ +  +  ++v+++i+  +kF  +nl++     ++ D+if+rnvliYf+ ++q+kvl ++++ l ++g
  PHY93_07340|PHY93_07340 162 GRSIENFKTTkrlLFDKYM-DPVETAFRVRADIRLKIKFGIHNLFQIPLERKSYDIIFLRNVLIYFEANDQQKVLLNISKDLVTNG 246
                              ****999776222457888.88888999******************66666789******************************** PP

                              EEEE-TTB--SSSCCCCC CS
                     CheR 170 lLllGhsEslkklkdkfe 187
                              +L++G+sEsl++l++ f+
  PHY93_07340|PHY93_07340 247 ILIIGESESLNSLNTPFK 264
                              ***********9999887 PP

>> CheR_N  CheR methyltransferase, all-alpha domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.4   0.1   2.2e-16   5.7e-13       3      52 ..      14      63 ..      13      64 .. 0.95

  Alignments for each domain:
  == domain 1  score: 48.4 bits;  conditional E-value: 2.2e-16
                             HHHHHHHHHHTT-EE--SSTHHHHHTHHHHHHHTTT-SSSHHHHHHTSHS CS
                   CheR_N  3 ferlleliyertGidlsdyKrallkrRlsrRmralglksfeeYldlLrsd 52
                             +e++l l+++ tGi +   K++l++ Rl++R+r+lgl+s+e+Yld+L ++
  PHY93_07340|PHY93_07340 14 LEKVLVLVHKFTGITMGVGKKTLIQGRLRPRIRKLGLSSYEQYLDYLNTH 63
                             688999*****************************************987 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.4   0.0     0.024        62      24      45 ..     135     156 ..     125     169 .. 0.86
   2 !   22.7   0.1   2.6e-08   6.7e-05      35     115 ..     177     256 ..     158     276 .. 0.82

  Alignments for each domain:
  == domain 1  score: 3.4 bits;  conditional E-value: 0.024
          Methyltransf_31  24 elgpkaevvGiDiseeaielAr 45 
                              ++g++ +++G Dis e+++ A 
  PHY93_07340|PHY93_07340 135 NIGFNYQITGTDISSEVLTTAD 156
                              688999************9985 PP

  == domain 2  score: 22.7 bits;  conditional E-value: 2.6e-08
          Methyltransf_31  35 DiseeaielArenaqklgldnveFeqgdieeleklledekfDlilsnevl..naladpdkileeiervlkpggilliedprll 115
                              D   + +e A   +++  l+ ++F + + ++++  le++++D+i+ ++vl     +d++k+l +i++ l ++gil+i +   l
  PHY93_07340|PHY93_07340 177 DKYMDPVETAFRVRADIRLK-IKFGIHNLFQIP--LERKSYDIIFLRNVLiyFEANDQQKVLLNISKDLVTNGILIIGESESL 256
                              55555666666666666665.99999*******..9**************8778899********************998744 PP

>> Methyltransf_11  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.7   0.0   2.2e-08   5.6e-05      19      96 .]     140     250 ..     124     250 .. 0.70

  Alignments for each domain:
  == domain 1  score: 23.7 bits;  conditional E-value: 2.2e-08
                              SEEEEEES-HHHHHHH..........HHHCCHHT-............................EEEETTEECCCTSS-TT-EEEEE CS
          Methyltransf_11  19 arvvgvDlskemlkla..........kekaseegl............................kvefvvadaeklpfednsfDlvv 66 
                              ++++g+D+s e+l++a          +       +                            k++f   ++ ++p+e +s+D+++
  PHY93_07340|PHY93_07340 140 YQITGTDISSEVLTTAdigeysgrsiE-------NfkttkrllfdkymdpvetafrvradirlKIKFGIHNLFQIPLERKSYDIIF 218
                              566666666666655554444443331.......011122223444445555555555555667888999999************* PP

                              EES-CCC-..CCHHHHHHHHHHHEEEEEEEEE CS
          Methyltransf_11  67 ssevlhhv..edpekalkeiaRvLkpgGllvi 96 
                              +++vl ++  +d++k+l +i + L  +G+l+i
  PHY93_07340|PHY93_07340 219 LRNVLIYFeaNDQQKVLLNISKDLVTNGILII 250
                              ********999******************996 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0       4.1     1e+04      45      57 ..      65      77 ..      47     109 .. 0.53
   2 !   24.2   0.0   1.6e-08   4.1e-05      20      99 .]     139     248 ..     128     248 .. 0.93

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 4.1
          Methyltransf_12 45 nnnnnnveleald 57
                             n+  ++v+l +++
  PHY93_07340|PHY93_07340 65 NEIQEFVNLVTTN 77
                             2333333333333 PP

  == domain 2  score: 24.2 bits;  conditional E-value: 1.6e-08
          Methyltransf_12  20 dieytgvDispsaiedakeklakrennnnnnvelealdlldldgg..............................ssfDlvvasnv 75 
                              + ++tg+Dis++++  + + + ++++++ +n++ +++ l+d+                                 +s+D++++ nv
  PHY93_07340|PHY93_07340 139 NYQITGTDISSEVL--TTADIGEYSGRSIENFKTTKRLLFDKYMDpvetafrvradirlkikfgihnlfqiplerKSYDIIFLRNV 222
                              5689**********..8999999999999999999999988776699*************************************** PP

          Methyltransf_12  76 lhhl..kdirevldnirklLkpgGrl 99 
                              l ++  +d ++vl ni k L+ +G+l
  PHY93_07340|PHY93_07340 223 LIYFeaNDQQKVLLNISKDLVTNGIL 248
                              ***********************986 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.0   1.6e-06    0.0042      39      94 ..     188     243 ..     125     246 .. 0.77

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 1.6e-06
                              HHHHHTTTTEEEEESBCCGBSSSTTTEEEEEEESTGGGSSHHHHHHHHHHHHHHEE CS
          Methyltransf_25  39 eraeeeglnvefvqgdaedlpfedgsfDlvvssgalhhlsdedlekalkeiarvLk 94 
                              +  ++ +l+++f  +++ ++p+e +s+D+++++++l +++ +d++k+l +i++ L 
  PHY93_07340|PHY93_07340 188 RVRADIRLKIKFGIHNLFQIPLERKSYDIIFLRNVLIYFEANDQQKVLLNISKDLV 243
                              333344569***********************999*************99987665 PP

>> Methyltransf_2  O-methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0      0.66   1.7e+03     131     174 ..      90     133 ..      72     147 .. 0.77
   2 ?    9.9   0.0   0.00016      0.42      98     167 ..     183     253 ..     150     271 .. 0.79

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 0.66
                              EEEESSGGGS-HHHHHHHHHHHHHH--TT-EEEEEE----TTS- CS
           Methyltransf_2 131 illkrvlhDwsdekcvklLkrvkkalpagGkvivveavlgadps 174
                              ++ k+ l Dw+ ++ +k Lk    a  +g ++  +    ++++s
  PHY93_07340|PHY93_07340  90 YFTKNFLPDWAAANPKKTLKIWSGAASSGEEIYTIGICCEEHRS 133
                              56778899999999999999888888777777777666666555 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 0.00016
                              HHHHHHHS-----TTEEEEES-TTTS---..--SEEEEESSGGGS-HHHHHHHHHHHHHH--TT-EEEEEE- CS
           Methyltransf_2  98 veaAkehlsageeervefvgGdffkdslP..eaDaillkrvlhDwsdekcvklLkrvkkalpagGkvivvea 167
                              ve+A +   a+ + +++f   ++f+ +l   + D+i+l +vl  ++ ++ +k+L ++ k l ++G +i+ e+
  PHY93_07340|PHY93_07340 183 VETAFRV-RADIRLKIKFGIHNLFQIPLErkSYDIIFLRNVLIYFEANDQQKVLLNISKDLVTNGILIIGES 253
                              5555444.6777778888888899555556557********************************9999886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (277 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       463  (0.0258241); expected 358.6 (0.02)
Passed bias filter:                      335  (0.0186848); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.39
# Mc/sec: 2123.57
//
Query:       PHY93_07345|PHY93_07345  [L=156]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.5e-18   65.7   0.0    4.4e-18   65.4   0.0    1.1  1  CheD      CheD chemotactic sensory transduction


Domain annotation for each model (and alignments):
>> CheD  CheD chemotactic sensory transduction
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.4   0.0   2.5e-22   4.4e-18       2     108 ..      50     152 ..      49     153 .. 0.91

  Alignments for each domain:
  == domain 1  score: 65.4 bits;  conditional E-value: 2.5e-22
                              BS--....SS-TTSCCCBHHHHHHHHHHHHHTTT--GGG-EEEEEE----S.....---SS-HHHHHHHHHHHHHHHTT--EEEEE CS
                     CheD   2 LPdskeskeksasnpakyadtaielLinellklgakkerleaklaGGAqmfafessksdvlniGerNveavkelLkeegipivaed 87 
                              LP++    e ++   ak+++ ai+ L+  l+ +  + +++e+ +aGGA+m+++ s +++v +iG+ N +a+k++L  +g++  + d
  PHY93_07345|PHY93_07345  50 LPEA---YEPTSVLGAKFVSQAIPSLMALLKVKPEDIKDIEVYIAGGANMMSQLS-RKNVDHIGTLNLAAAKKYLVLNGFKFSEID 131
                              7777...444445789***********************************9966.788999************************ PP

                              E-SSS-EEEEEETTTTEEEEE CS
                     CheD  88 vggnygRtvlfdpatgkvlvk 108
                              vgg++gR++l+d+++g+v v 
  PHY93_07345|PHY93_07345 132 VGGEEGRQMLVDCNSGQVSVS 152
                              ******************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (156 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       401  (0.022366); expected 358.6 (0.02)
Passed bias filter:                      376  (0.0209716); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1191.78
//
Query:       PHY93_07350|PHY93_07350  [L=78]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.7e-12   46.5   0.1    3.2e-12   46.3   0.1    1.1  1  CheW      CheW-like domain


Domain annotation for each model (and alignments):
>> CheW  CheW-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.3   0.1   1.8e-16   3.2e-12       4      55 ..      26      78 .]      24      78 .] 0.96

  Alignments for each domain:
  == domain 1  score: 46.3 bits;  conditional E-value: 1.8e-16
                             EEEETTEEEEEEGGGEEEEEECCT..BTTTTSSTTEEEEEEETTEEEEEEEHH CS
                     CheW  4 lfrlgeetyaiplakvreilevpp.itpipgapgavlgvinlrGevipvidLr 55
                              f +g ++ ai++ ++ e++ +p+ i ++p ap+++lgv+nlrG +ip+i+L+
  PHY93_07350|PHY93_07350 26 SFYIGTMEVAINVKAIHEVVNLPEkIIKMPLAPNFLLGVFNLRGLIIPIINLK 78
                             599*******************888*************************995 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (78 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       499  (0.027832); expected 358.6 (0.02)
Passed bias filter:                      362  (0.0201908); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.23s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 592.09
//
Query:       PHY93_07355|PHY93_07355  [L=135]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
      9e-08   32.2   0.3    1.6e-07   31.4   0.1    1.5  2  Cupredoxin_1  Cupredoxin-like domain
     0.0066   16.3   0.0       0.01   15.7   0.0    1.2  1  COX2          Cytochrome C oxidase subunit II, periplasmic do


Domain annotation for each model (and alignments):
>> Cupredoxin_1  Cupredoxin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.4   0.1   1.8e-11   1.6e-07      25     104 .]       2      80 ..       1      80 [. 0.95
   2 ?   -2.5   0.0      0.63   5.6e+03      47      63 ..     100     116 ..      98     125 .. 0.60

  Alignments for each domain:
  == domain 1  score: 31.4 bits;  conditional E-value: 1.8e-11
             Cupredoxin_1  25 itvkdggfePskievkagekvklkiknkdktpeefesedlgeekvlapgktttitiaplkpGeYeftcdmhmdakGkliV 104
                              + v+++gf+P+++ v +gekv++ +++ +  +++f ++d ++ ++ +p k  +++   +k G+Y+f c  + +  G + V
  PHY93_07355|PHY93_07355   2 VIVSKEGFYPNRLIVFKGEKVRFFVTAVGVDSACFNIPDKNVYTTAMPAKIVEAETFFDKVGTYQFSCPNNTF-TGRVMV 80 
                              77999**********************************************9999999***********9999.888776 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 0.63
             Cupredoxin_1  47 lkiknkdktpeefesed 63 
                              +ki + ++tp+e++  +
  PHY93_07355|PHY93_07355 100 VKIWRPKDTPTEWVQIK 116
                              56667777777765444 PP

>> COX2  Cytochrome C oxidase subunit II, periplasmic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   1.1e-06      0.01      46     102 ..      12      69 ..       9      78 .. 0.91

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 1.1e-06
                     COX2  46 nrvvlpvetkirllvtaedvlh.sfavpslgvkvdavpGrlnqvsllidreGvfyGqc 102
                              nr+++   +k+r+ vta  v    f +p   v + a+p ++ ++ ++ d+ G++   c
  PHY93_07355|PHY93_07355  12 NRLIVFKGEKVRFFVTAVGVDSaCFNIPDKNVYTTAMPAKIVEAETFFDKVGTYQFSC 69 
                              899***************9965169*****************************8888 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (135 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       257  (0.0143343); expected 358.6 (0.02)
Passed bias filter:                      233  (0.0129957); expected 358.6 (0.02)
Passed Vit filter:                         8  (0.000446204); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 1016.14
//
Query:       PHY93_07360|PHY93_07360  [L=376]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.9e-75  251.8   0.2    6.9e-75  251.6   0.2    1.0  1  T2SSE          Type II/IV secretion system protein
     0.0023   17.5   0.2      0.008   15.8   0.1    1.9  2  cobW           CobW/HypB/UreG, nucleotide-binding domain
     0.0082   15.5   0.1      0.016   14.6   0.1    1.4  1  FtsK_SpoIIIE   FtsK/SpoIIIE family
  ------ inclusion threshold ------
       0.02   14.7   0.0      0.033   13.9   0.0    1.3  1  DEAD           DEAD/DEAH box helicase
       0.02   14.4   0.0      0.034   13.7   0.0    1.3  1  AAA_7          P-loop containing dynein motor region
      0.025   14.0   0.0      0.044   13.2   0.0    1.4  1  Mg_chelatase   Magnesium chelatase, subunit ChlI
      0.027   14.7   0.0      0.044   14.0   0.0    1.3  1  AAA_28         AAA domain
      0.033   14.7   0.0      0.052   14.1   0.0    1.4  1  ABC_tran       ABC transporter
      0.039   14.3   0.0      0.082   13.2   0.0    1.5  1  AAA_19         AAA domain
      0.043   12.7   0.1      0.084   11.8   0.1    1.4  1  TrwB_AAD_bind  Type IV secretion-system coupling protein DNA-
      0.046   13.8   0.1       0.09   12.9   0.1    1.4  1  AAA_2          AAA domain (Cdc48 subfamily)
      0.047   14.1   0.0      0.089   13.2   0.0    1.4  1  AAA_16         AAA ATPase domain
      0.059   13.3   0.0       0.54   10.2   0.0    2.1  2  RsgA_GTPase    RsgA GTPase
      0.095   12.0   0.1       0.16   11.2   0.1    1.3  1  Zeta_toxin     Zeta toxin
        0.1   12.3   0.1       0.35   10.6   0.2    1.7  2  AAA_29         P-loop containing region of AAA domain
       0.13   12.3   0.1       0.23   11.5   0.1    1.5  1  DUF87          Helicase HerA, central domain


Domain annotation for each model (and alignments):
>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  251.6   0.2   6.2e-78   6.9e-75       3     271 ..      14     291 ..      12     293 .. 0.98

  Alignments for each domain:
  == domain 1  score: 251.6 bits;  conditional E-value: 6.2e-78
                    T2SSE   3 illeallddekvsdihvekpervkvrervdgielreveelekaalerlisriaalakldiseerplqdarlpekgvrlrvvllPvv 88 
                               ++++ll+d++vs+i+++ p +++v e+++ ++  ++++ +++al + ++ ia++ +++i++++p +d+ lp +g r+ vvl+P++
  PHY93_07360|PHY93_07360  14 YPIKELLEDPGVSEIMINGPKEIFV-EKKGLVYKTDAQFHNEEALLAAMRAIAQSIGRRIDKDNPRLDGFLP-DGSRIAVVLPPMA 97 
                              57899********************.999999****************************************.************* PP

                    T2SSE  89 ag.ealviRkksakeltlddlgaeealkekiaevlrkavrerglilvsGgTgsGKttllyallkeinksderivtvEDpvEiqleg 173
                              ++ ++++iRk s+++ltl+dl+  ++l+++ a++l   +   ++i+vsGgTgsGKtt+l++l + i+k+ +r++++ED++E+q+++
  PHY93_07360|PHY93_07360  98 RNgTTVAIRKFSKEKLTLNDLITFGSLSKDAARFLDICIFLSKNIIVSGGTGSGKTTMLNVLGSRIPKT-QRLLIIEDSAELQVKA 182
                              99899****************************************************************.**************** PP

                    T2SSE 174 anqvqlnak.......kakvtfadllraaLRlrPDrimvGEiRdketleilkAvnTGHlgslsTlHansaagalerLeqlgae... 249
                              +++v+ +++         +v +++l+ +a+RlrPDri+vGE+R++e+l++++ +nTGH+gs++T+Han++++a +rLe+l  +   
  PHY93_07360|PHY93_07360 183 EHVVNFVTRkadaergVSEVSIRELVMSAMRLRPDRIIVGEVRGEEALDLIQVMNTGHDGSMGTVHANNPVDACTRLETLCLMgdt 268
                              *********9999998899************************************************************9988999 PP

                    T2SSE 250 .veaaelkssilavvdivvrlvr 271
                               ++++++++++++++++vv+  r
  PHY93_07360|PHY93_07360 269 kIPPDAVRKMVASAMQLVVQCSR 291
                              9******************9877 PP

>> cobW  CobW/HypB/UreG, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.0       1.4   1.5e+03      73      99 ..      16      49 ..       9      65 .. 0.66
   2 !   15.8   0.1   7.2e-06     0.008       3      48 ..     142     187 ..     140     241 .. 0.82

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 1.4
                             HHHHHHHH.......TT-SEEEEEECTTTTHHHH CS
                     cobW 73 lealeere.......erldviliEttGlaePapv 99
                             +++l+e++       + +  i++E+ Gl+  +  
  PHY93_07360|PHY93_07360 16 IKELLEDPgvseimiNGPKEIFVEKKGLVYKTDA 49
                             5555555566666666688899999998765555 PP

  == domain 2  score: 15.8 bits;  conditional E-value: 7.2e-06
                              EEEEESTTCCHHHHHHHHHCT--SS-EEEEESS-SSCHCCCCCCHC CS
                     cobW   3 tvltGflGsGKTtLlnhllenraglklavivNefgevsiDaellre 48 
                              ++++G  GsGKTt+ln l ++  + +  +i+ +  e+++ ae + +
  PHY93_07360|PHY93_07360 142 IIVSGGTGSGKTTMLNVLGSRIPKTQRLLIIEDSAELQVKAEHVVN 187
                              689*************999777777777777788889999988844 PP

>> FtsK_SpoIIIE  FtsK/SpoIIIE family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.6   0.1   1.4e-05     0.016      40      59 ..     140     159 ..     123     160 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 1.4e-05
                              .SEEEE--TTSSHHHHHHHH CS
             FtsK_SpoIIIE  40 shllvaGatgsGKStalntL 59 
                               +++v G+tgsGK+t+ln+L
  PHY93_07360|PHY93_07360 140 KNIIVSGGTGSGKTTMLNVL 159
                              59****************97 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0     3e-05     0.033      14      75 ..     139     194 ..     129     236 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 3e-05
                              TCEEEEEESTTSSHHHHHHHHHHHHHHHSTTSTS-EEEEEESSHHHHHHHHHHHHHHTTTST CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  14 ggdvlvaaeTGsGKTlaflipvlqivyetkgktgpkalivePtreLaeqtlnnlkkfkkyid 75 
                               ++++v++ TGsGKT++  + vl +    +  ++ + li+e + eL  +  + ++ ++ ++d
  PHY93_07360|PHY93_07360 139 SKNIIVSGGTGSGKTTM--LNVLGS----RIPKTQRLLIIEDSAELQVKAEHVVNFVTRKAD 194
                              689************98..555533....346788999**9999998776666655555444 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0     3e-05     0.034      24      86 ..     130     193 ..     112     200 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 3e-05
                    AAA_7  24 yllelllknkkpvllvGptGtGKtviikdllkkld.kekylsltinfsaqtsanqlqdiieskl 86 
                               +l+ ++  +k++++ G tG+GKt++++ l ++++ ++++l++  +   q +a+++ +++ +k 
  PHY93_07360|PHY93_07360 130 RFLDICIFLSKNIIVSGGTGSGKTTMLNVLGSRIPkTQRLLIIEDSAELQVKAEHVVNFVTRKA 193
                              5788899999*******************99999923344444445555666666666666665 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   3.9e-05     0.044       9      75 ..     126     192 ..     122     225 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 3.9e-05
             Mg_chelatase   9 eeakraleiaaaGgHnlllvGppGsGKtmlakrlpsllpplseeealevakiasvagkkeeekllkr 75 
                              ++a r l+i++  + n+++ G  GsGKt + + l s +p+ ++  ++e ++   v+ ++  + ++++
  PHY93_07360|PHY93_07360 126 KDAARFLDICIFLSKNIIVSGGTGSGKTTMLNVLGSRIPKTQRLLIIEDSAELQVKAEHVVNFVTRK 192
                              56889999*******************************9999998888887777765555555555 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   3.9e-05     0.044       1      35 [.     141     180 ..     141     215 .. 0.66

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 3.9e-05
                   AAA_28   1 kivitGgestGKTtlleaLaar..gyp...vvpEaareil 35 
                              +i+++Gg ++GKTt+l+ L +r  +++   +++++a   +
  PHY93_07360|PHY93_07360 141 NIIVSGGTGSGKTTMLNVLGSRipKTQrllIIEDSAELQV 180
                              599****************977663332223344444444 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   4.7e-05     0.052       7      45 ..     135     173 ..     130     254 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 4.7e-05
                              EEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEET CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran   7 klkegekvaivGenGaGKStLlkllagllkpteGeilld 45 
                               +  ++ + + G +G+GK+t+l++l     +t+  + ++
  PHY93_07360|PHY93_07360 135 CIFLSKNIIVSGGTGSGKTTMLNVLGSRIPKTQRLLIIE 173
                              6777889999**************988777666555444 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   7.3e-05     0.082      10      33 ..     139     162 ..     133     201 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 7.3e-05
                   AAA_19  10 ekvllvtaGpGtGKTrvlkhival 33 
                              +k+++v +G G+GKT++l+   + 
  PHY93_07360|PHY93_07360 139 SKNIIVSGGTGSGKTTMLNVLGSR 162
                              7899*************9876555 PP

>> TrwB_AAD_bind  Type IV secretion-system coupling protein DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.1   7.5e-05     0.084      17      51 ..     141     175 ..     138     183 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 7.5e-05
            TrwB_AAD_bind  17 hilivGttGsGKtqalekllrairargdraivlDl 51 
                               i++ G+tGsGKt++l+ l   i + +   i+ D 
  PHY93_07360|PHY93_07360 141 NIIVSGGTGSGKTTMLNVLGSRIPKTQRLLIIEDS 175
                              6899***************9999999988888875 PP

>> AAA_2  AAA domain (Cdc48 subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.1     8e-05      0.09       5      68 ..     141     201 ..     139     209 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 8e-05
                              -EEEE--TTSSHHHHHHHHHHHTT-....-EEEEEGGG-------THHHHHHHHHTTT-HHHHT CS
                    AAA_2   5 silllgptgvGktelakalaellfvkkekkliradaselleeeevehlvsrligappgyvgaee 68 
                              +i++ g tg+Gkt + + l + +  k+++ li+ d  el+   ++eh+v+  + ++++  g+ e
  PHY93_07360|PHY93_07360 141 NIIVSGGTGSGKTTMLNVLGSRIP-KTQRLLIIEDSAELQV--KAEHVVNFVTRKADAERGVSE 201
                              799***********9999999999.99**************..888888888888888777766 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0     8e-05     0.089      25     122 ..     140     235 ..     133     241 .. 0.66

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 8e-05
                   AAA_16  25 elvllsGesGvGKsslvrellralekdggiflrgkcdqlesaipysalaqalareellrqlldeaesaeleawrekleeala.... 106
                               ++++sG  G+GK+++++ l  ++ k+  +++ ++  +l           + ++e++++ + ++a++ e++     ++e +     
  PHY93_07360|PHY93_07360 140 KNIIVSGGTGSGKTTMLNVLGSRIPKTQRLLIIEDSAEL-----------QVKAEHVVNFVTRKADA-ERGVSEVSIRELVMsamr 213
                              5799********************999766644444444...........23344666655555333.555555555555445566 PP

                   AAA_16 107 ......avpelagaeasrllel 122
                                    +v+e++g+ea +l ++
  PHY93_07360|PHY93_07360 214 lrpdriIVGEVRGEEALDLIQV 235
                              6666666667777766666665 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0   0.00048      0.54      98     122 ..     139     162 ..     104     193 .. 0.79
   2 ?    0.6   0.0      0.42   4.7e+02     119     153 ..     278     312 ..     253     316 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00048
                              TTSEEEEECSTTSSHHHHHHHHCTT CS
              RsgA_GTPase  98 kdktsvlvGqSGvGKStLinallpe 122
                              + k +++ G +G GK+t++n+l ++
  PHY93_07360|PHY93_07360 139 S-KNIIVSGGTGSGKTTMLNVLGSR 162
                              3.456789*************9876 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.42
                              HCTT-----S--------------SEEEEEETTTE CS
              RsgA_GTPase 119 llpelelktgevseklgrGkhTTtavellelaegg 153
                              ++ ++ + + + s+ ++ G+ T+  +e+l ++++g
  PHY93_07360|PHY93_07360 278 MVASAMQLVVQCSRMHDGGRRTSHISEILGIDKNG 312
                              455556778889999999*********99999877 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.1   0.00015      0.16      18      49 ..     141     172 ..     139     178 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00015
               Zeta_toxin  18 lillgGqpGAGKselaellkdelerqgnvvrl 49 
                               i+++G++G+GK+++++ l  ++ ++++ + +
  PHY93_07360|PHY93_07360 141 NIIVSGGTGSGKTTMLNVLGSRIPKTQRLLII 172
                              589***************99999766655544 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.0         8     9e+03      37      49 ..       4      16 ..       3      18 .. 0.78
   2 ?   10.6   0.2   0.00031      0.35      22      39 ..     139     156 ..     130     160 .. 0.84

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 8
                   AAA_29 37 TllDAiqalLvpa 49
                              + DAi   L+p 
  PHY93_07360|PHY93_07360  4 VFKDAIEQFLYPI 16
                             5669***999995 PP

  == domain 2  score: 10.6 bits;  conditional E-value: 0.00031
                   AAA_29  22 kgatlltGpsGsGKSTll 39 
                              + +++++G +GsGK+T+l
  PHY93_07360|PHY93_07360 139 SKNIIVSGGTGSGKTTML 156
                              45799***********98 PP

>> DUF87  Helicase HerA, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   0.00021      0.23      14      49 ..     130     165 ..     119     211 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00021
                    DUF87  14 vyldlnklvtrHlAilgsTGsGKSntvavLleelle 49 
                                ld+  ++++ + + g TGsGK++   vL +++ +
  PHY93_07360|PHY93_07360 130 RFLDICIFLSKNIIVSGGTGSGKTTMLNVLGSRIPK 165
                              46788888999999****************998874 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (376 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       551  (0.0307323); expected 358.6 (0.02)
Passed bias filter:                      528  (0.0294495); expected 358.6 (0.02)
Passed Vit filter:                       100  (0.00557756); expected 17.9 (0.001)
Passed Fwd filter:                        16  (0.000892409); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              16  [number of targets reported over threshold]
# CPU time: 0.61u 0.26s 00:00:00.87 Elapsed: 00:00:00.44
# Mc/sec: 2585.42
//
Query:       PHY93_07365|PHY93_07365  [L=80]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.027   14.8   0.9      0.032   14.6   0.9    1.1  1  Trigger_N        Bacterial trigger factor protein (TF)
      0.094   11.2   0.0      0.094   11.2   0.0    1.0  1  Ribonuc_red_lgC  Ribonucleotide reductase, barrel domain


Domain annotation for each model (and alignments):
>> Trigger_N  Bacterial trigger factor protein (TF)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.9   3.6e-06     0.032      65     131 ..       4      68 ..       1      73 [. 0.74

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 3.6e-06
                              HHHHHHHHCCCCCCCCCS..-EE.EE.E..E.EETTC.EEEEEEEEE--EEEE.XCCCSEEEEEXHHHHH CS
                Trigger_N  65 ealeellnealeeaieeeklepvgqpei..e.leegkdleftvevevkPevelgdykglevekeevevtd 131
                              ++++++ + +++ a++  +++++ + e+  + +       +++++++ Pe+ ++d+k++ +e+ + e+++
  PHY93_07365|PHY93_07365   4 DVVQDAKDHTYTIAVKIDQFKTLRDYEVihNlI-----NAISLDFDLDPEISVEDLKNIVIEARKEEADE 68 
                              777888888888888777777776666542222.....4799***********99***999987777776 PP

>> Ribonuc_red_lgC  Ribonucleotide reductase, barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0     1e-05     0.094     455     516 ..       4      64 ..       1      71 [. 0.90

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 1e-05
                              XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
          Ribonuc_red_lgC 455 eeipeeikrvfktaldidqedhikaqaaiqkwidqsiSktinlpneatvedvkelyllAwkl 516
                              + ++++   +++ a++idq ++++ + +i + i ++iS+ + l+ e++ved+k+++++A+k 
  PHY93_07365|PHY93_07365   4 DVVQDAKDHTYTIAVKIDQFKTLRDYEVIHNLI-NAISLDFDLDPEISVEDLKNIVIEARKE 64 
                              5677888899********************999.69***********************996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (80 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       751  (0.0418874); expected 358.6 (0.02)
Passed bias filter:                      541  (0.0301746); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 620.14
//
Query:       PHY93_07370|PHY93_07370  [L=96]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0016   18.5   0.3     0.0018   18.3   0.3    1.0  1  CCDC32    Coiled-coil domain containing 32
  ------ inclusion threshold ------
      0.024   15.0   5.3      0.028   14.9   5.3    1.0  1  AvrM-A    Flax-rust effector AvrM-A
      0.063   13.3   0.2      0.078   13.0   0.2    1.1  1  DUF3316   Protein of unknown function (DUF3316)
      0.074   13.2   2.6      0.086   13.0   2.6    1.0  1  ExbD      Biopolymer transport protein ExbD/TolR


Domain annotation for each model (and alignments):
>> CCDC32  Coiled-coil domain containing 32
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.3   4.1e-07    0.0018      17      82 ..      19      83 ..       9      93 .. 0.79

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 4.1e-07
                   CCDC32 17 ekaekseeFeDsFlsssqeeeeeeeaseskasssskkwepledSevYlasLErkLkkikkqskevt 82
                             + ++ ++e +DsF+++ ++ +e+e++    + ++++++ +++  +   ++L  kL+k+kk++kev+
  PHY93_07370|PHY93_07370 19 ADTKMKNEITDSFTDKVKAIKEDEKEIVV-QFTRHAALYKMAKTNPRYEELKTKLEKLKKEEKEVR 83
                             5677889999***9999988888874433.444555688999999999****************97 PP

>> AvrM-A  Flax-rust effector AvrM-A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   5.3   6.1e-06     0.028      62     125 ..      16      83 ..       2      86 .. 0.78

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 6.1e-06
                   AvrM-A  62 ekklkkk.idviaeklkekakakgkpidekavq...rqfiKeqaklylkdeelkkavvalKelEKsvr 125
                               ++ + k  + i++ + +k+ka  ++  e+ vq   +  + + ak  ++ eelk ++++lK+ EK+vr
  PHY93_07370|PHY93_07370  16 STIADTKmKNEITDSFTDKVKAIKEDEKEIVVQftrHAALYKMAKTNPRYEELKTKLEKLKKEEKEVR 83 
                              56667773367999999999999999999988666555566666666******************997 PP

>> DUF3316  Protein of unknown function (DUF3316)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.2   1.7e-05     0.078       1      65 [.       2      84 ..       2      94 .. 0.51

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 1.7e-05
                  DUF3316  1 kkilllllllllstsafAq......iesktdsdsleae.............ryitrataygaGltnll....dtylspseylgpelri 65
                             kkill+l++ll+s+s+ A       i     +ds + +             +++ +a++y+++ tn +    +t+l+ ++++++e+r+
  PHY93_07370|PHY93_07370  2 KKILLVLATLLVSSSTIADtkmkneI-----TDSFTDKvkaikedekeivvQFTRHAALYKMAKTNPRyeelKTKLEKLKKEEKEVRV 84
                             79*****************5443330.....333333333333333333334555555555544443211113333333444444444 PP

>> ExbD  Biopolymer transport protein ExbD/TolR
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   2.6   1.9e-05     0.086      18      98 ..       5      88 ..       3      94 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 1.9e-05
                     ExbD 18 flLLifFlvtaklkkpeplevdlPsssstqk..eveekelirisisadgsiy.ldkkavsveelaqklkerkakppdkltvaik 98
                             +l+L  +lv+++  ++++++ ++ +s +++    +e++++i ++ +    +y + k +   eel+ kl+++k+++++  ++ai 
  PHY93_07370|PHY93_07370  5 LLVLATLLVSSSTIADTKMKNEITDSFTDKVkaIKEDEKEIVVQFTRHAALYkMAKTNPRYEELKTKLEKLKKEEKEVRVIAII 88
                             789999***999999999*9999666555553445555556666666655553666668****************999788775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (96 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2408  (0.134308); expected 358.6 (0.02)
Passed bias filter:                      880  (0.0490825); expected 358.6 (0.02)
Passed Vit filter:                        88  (0.00490825); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 739.99
//
Query:       PHY93_07375|PHY93_07375  [L=248]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.8e-28   98.2   0.0    8.9e-28   96.6   0.0    1.7  2  Gln_deamidase_2  Glutaminase
     0.0031   16.9   0.1     0.0047   16.4   0.1    1.4  1  DUF5040          Domain of unknown function (DUF5040)
  ------ inclusion threshold ------
      0.014   15.3   2.3      0.079   12.9   0.3    2.3  2  YARHG            YARHG domain


Domain annotation for each model (and alignments):
>> Gln_deamidase_2  Glutaminase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0       0.5     3e+03      17      34 ..      50      67 ..      29      81 .. 0.53
   2 !   96.6   0.0   1.5e-31   8.9e-28       1     105 [.      90     188 ..      90     189 .. 0.97

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 0.5
          Gln_deamidase_2 17 iefkyaddgCyarAhlma 34
                             i +k    +C++ A+ ++
  PHY93_07375|PHY93_07375 50 IDYKAGCSSCAQGANNAK 67
                             444444444555555444 PP

  == domain 2  score: 96.6 bits;  conditional E-value: 1.5e-31
          Gln_deamidase_2   1 aeklFkklkaerferriefkyaddgCyarAhlmarlaeeegiepekifvegklevqtksagegkvsWeyHVApvvvvkkekkvekl 86 
                              a++ F++l+a   +++i++ ya dgCyarAh+m r+ e++gi + k+f+eg+l+v+t   + g+v W+y VApv++vkk++ + ++
  PHY93_07375|PHY93_07375  90 ANNTFSELAA---RQDIPYGYAMDGCYARAHKMVRILEDKGIIAGKAFLEGDLYVDT---KFGEVGWGYNVAPVIMVKKDNTIAPY 169
                              5789999999...99*****************************************9...89************************ PP

          Gln_deamidase_2  87 viDpslfsepvtvkeWlkk 105
                              v+Dpslfs+pv+ +eW++k
  PHY93_07375|PHY93_07375 170 VFDPSLFSKPVPFDEWKAK 188
                              ****************997 PP

>> DUF5040  Domain of unknown function (DUF5040)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.1   7.9e-07    0.0047      27      81 ..      46     100 ..       5     122 .. 0.80

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 7.9e-07
                  DUF5040  27 daeainraiggesiadtanrmaegtlyskeeldnidalvimqvhnkdvyeeanlk 81 
                              +a +i+   g+ s a+ an+  + tlysk++ ++id  v+ +v  ++ ++e+  +
  PHY93_07375|PHY93_07375  46 NAGTIDYKAGCSSCAQGANNAKNTTLYSKNNNQKIDLSVLSEVEANNTFSELAAR 100
                              67788889999********************************999988887655 PP

>> YARHG  YARHG domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.7   0.1      0.04   2.4e+02      52      76 ..      68      92 ..      65      99 .. 0.89
   2 ?   12.9   0.3   1.3e-05     0.079      42      81 ..     194     229 ..     191     233 .. 0.89

  Alignments for each domain:
  == domain 1  score: 1.7 bits;  conditional E-value: 0.04
                             T-TT----TT..--GGG--HHHHHH CS
                    YARHG 52 skswYepesspefdevvLsedekkn 76
                             +++ Y+++++ ++d +vLse e +n
  PHY93_07375|PHY93_07375 68 NTTLYSKNNNQKIDLSVLSEVEANN 92
                             67889999988***********998 PP

  == domain 2  score: 12.9 bits;  conditional E-value: 1.3e-05
                              -SHHHHHHHHT-TT----TT..--GGG--HHHHHHH.HHH CS
                    YARHG  42 ktpdlkdyFsskswYepesspefdevvLsedekknidaik 81 
                              k++  ++yF +   Y+pe      +++L+++  +nid + 
  PHY93_07375|PHY93_07375 194 KSKLTREYFTNRFAYDPED----RTKSLTDYVDENIDDME 229
                              578899*************....7999*********9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (248 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       848  (0.0472977); expected 358.6 (0.02)
Passed bias filter:                      583  (0.0325172); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 1869.66
//
Query:       PHY93_16405|PHY93_16405  [L=142]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (142 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       491  (0.0273858); expected 358.6 (0.02)
Passed bias filter:                      342  (0.0190752); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 1002.48
//
Query:       PHY93_07380|PHY93_07380  [L=215]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    9.5e-23   80.7   0.0    1.4e-22   80.2   0.0    1.2  1  HhH-GPD         HhH-GPD superfamily base excision DNA repair 
    2.5e-07   30.2   0.1    9.2e-07   28.4   0.0    2.0  2  HHH             Helix-hairpin-helix motif
  ------ inclusion threshold ------
      0.089   13.4   0.0       0.25   12.0   0.0    1.8  2  HHH_5           Helix-hairpin-helix domain
        0.1   12.6   0.0       0.21   11.6   0.0    1.5  1  DUF2400         Protein of unknown function (DUF2400)
       0.11   13.3   0.0       0.19   12.5   0.0    1.3  1  DUF3349         Protein of unknown function (DUF3349)
       0.15   12.4   0.0       0.39   11.1   0.0    1.7  2  Transposase_20  Transposase IS116/IS110/IS902 family


Domain annotation for each model (and alignments):
>> HhH-GPD  HhH-GPD superfamily base excision DNA repair protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   80.2   0.0   4.7e-26   1.4e-22       1     107 [.      36     170 ..      36     171 .. 0.95

  Alignments for each domain:
  == domain 1  score: 80.2 bits;  conditional E-value: 4.7e-26
                              HHHHHHTTS-HHHHHHHHHHHHHHHSHCSHHHHHHSHHHHHHHHHTTSTTHHHHHHHHHHHHHHHH.................... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.................... RF
                  HhH-GPD   1 vsailsqqtsderanriierlferfgfptpedladadeekLrelirelGfyrrKakyikelArilv.................... 66 
                              ++++ls+q++d+r+n+i++ lf++     pe++  ++ e++++lir++G++ rK k i+el++il+                    
  PHY93_07380|PHY93_07380  36 IAVLLSAQCTDARVNKITPALFQKA--DAPEKMVTLTIEEIAALIRPCGLSPRKSKAIHELSQILIdkyeglvpqsfealeslpgv 119
                              6899********************5..5********************************************************** PP

                              .............S-SSS--TTSHHHHHHHHHHTTSSSSTTHHHHHHHHHHHHH CS
                              .............xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                  HhH-GPD  67 .............gkpdvlivvDvhvrrilkrlrsikekktkkkvekkleelle 107
                                           g   ++++vD+h++r+++r+++++  k+ +++e +l+++++
  PHY93_07380|PHY93_07380 120 ghktasvvmaqsfG--VPAFPVDTHIHRLAQRWGLTSG-KNVEQTEMDLKKIFP 170
                              **********8766..489*******************.599999999999887 PP

>> HHH  Helix-hairpin-helix motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.1         1   3.1e+03       9      16 ..      70      77 ..      67      77 .. 0.85
   2 !   28.4   0.0   3.1e-10   9.2e-07       1      28 [.     101     128 ..     101     129 .. 0.95

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 1
                             SHHHHHTS CS
                      HHH  9 sreeLlal 16
                             ++ee++al
  PHY93_07380|PHY93_07380 70 TIEEIAAL 77
                             89**9997 PP

  == domain 2  score: 28.4 bits;  conditional E-value: 3.1e-10
                              SHHHHHTSSHHHHHTSTT-SHHHHHHHH CS
                      HHH   1 sleglipasreeLlalPGVGpktAeaIl 28 
                              ++egl+p s+e L++lPGVG ktA +++
  PHY93_07380|PHY93_07380 101 KYEGLVPQSFEALESLPGVGHKTASVVM 128
                              59***********************998 PP

>> HHH_5  Helix-hairpin-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.0       4.9   1.5e+04      25      32 ..      70      77 ..      64      80 .. 0.73
   2 ?   12.0   0.0   8.5e-05      0.25      19      49 ..      94     125 ..      81     131 .. 0.75

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 4.9
                             SHHHHHHS CS
                    HHH_5 25 svedlaaa 32
                             ++e++aa+
  PHY93_07380|PHY93_07380 70 TIEEIAAL 77
                             67777764 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 8.5e-05
                              HTT.T--SHHHHHHS-HHHHHTSTTS-HHHHH CS
                    HHH_5  19 lsa.GiesvedlaaadveeLakipGiGkktAe 49 
                              ls+  i+ +e l+ ++ e+L ++pG+G ktA 
  PHY93_07380|PHY93_07380  94 LSQiLIDKYEGLVPQSFEALESLPGVGHKTAS 125
                              45556778888888888999999999999996 PP

>> DUF2400  Protein of unknown function (DUF2400)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0     7e-05      0.21     173     195 ..     137     159 ..     135     172 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 7e-05
                  DUF2400 173 iPlDvHvarvarklgllkrkqad 195
                              +P+D+H++r+a++ gl++ k+ +
  PHY93_07380|PHY93_07380 137 FPVDTHIHRLAQRWGLTSGKNVE 159
                              7***************9876543 PP

>> DUF3349  Protein of unknown function (DUF3349)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   6.4e-05      0.19       6      79 ..      11      91 ..       7     102 .. 0.69

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 6.4e-05
                             HHHHHHHH-TT-...B-HHHHHHHH..HHHCTT--HHHHHHHHHHHHHH--...SSS.BSHHHCHHHHHHHCTS---HHHH CS
                  DUF3349  6 ileWLragYPeg...vPeqdyvpLl..alLrrrLsdeevkevaeelvaeaa..eadeavdeedieelitkvteeepseedv 79
                             il+ L + YPe    ++++d + Ll  +lL+ + +d+ v++++ +l ++a+  e+  +++ e+i++li+ +  +  + + +
  PHY93_07380|PHY93_07380 11 ILKRLEELYPETpipLDHSDPYTLLiaVLLSAQCTDARVNKITPALFQKADapEKMVTLTIEEIAALIRPCGLSPRKSKAI 91
                             778888899986533557776666643478999*****************6344555566777888877665555555555 PP

>> Transposase_20  Transposase IS116/IS110/IS902 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0       2.5   7.4e+03      32      44 ..      75      87 ..      71      89 .. 0.77
   2 ?   11.1   0.0   0.00013      0.39       2      29 ..     111     138 ..     110     156 .. 0.81

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 2.5
           Transposase_20 32 kqlaayaGlapve 44
                             ++l++ +Gl+p++
  PHY93_07380|PHY93_07380 75 AALIRPCGLSPRK 87
                             5778889999986 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 0.00013
           Transposase_20   2 elLesipGiGpvtaaallaeigdlrrfk 29 
                              e+Les+pG+G  ta++++a+   +  f+
  PHY93_07380|PHY93_07380 111 EALESLPGVGHKTASVVMAQSFGVPAFP 138
                              689***************9875555665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (215 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       424  (0.0236488); expected 358.6 (0.02)
Passed bias filter:                      388  (0.0216409); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1615.32
//
Query:       PHY93_07385|PHY93_07385  [L=246]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.052   13.1   0.1       0.07   12.7   0.1    1.2  1  DUF1281   Protein of unknown function (DUF1281)


Domain annotation for each model (and alignments):
>> DUF1281  Protein of unknown function (DUF1281)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   3.9e-06      0.07      69     161 ..      16     120 ..       7     142 .. 0.67

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 3.9e-06
                  DUF1281  69 aieeierlyeqsglaavkWeslteakrealaallerk.....saDWlglvtledesd.vetlWeklkellee.avPl.....dlll 142
                              a + ++++y+q g ++++W sl+  k+++  + l+++     +aD++ l   e ++  +++lW + +++l++   P      ++ l
  PHY93_07385|PHY93_07385  16 APKALSQFYQQAGREKIQWVSLAINKKSIADSFLTKEldlltEADFFSLKMAETKVGiLHQLWRNQESVLKSnIEPHstlllEFNL 101
                              567899****************9998888777777642222256777766655555425778887766555434444333447788 PP

                  DUF1281 143 llptrLaaEinGfnggllk 161
                              l+   ++ Ei  f++ l +
  PHY93_07385|PHY93_07385 102 LIDKLIENEILYFQSALNQ 120
                              8888888888888777644 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (246 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       492  (0.0274416); expected 358.6 (0.02)
Passed bias filter:                      365  (0.0203581); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 1859.41
//
Query:       PHY93_07390|PHY93_07390  [L=269]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.2e-22   79.5   0.0    3.8e-22   79.2   0.0    1.1  1  Asp_Glu_race    Asp/Glu/Hydantoin racemase
     0.0044   16.9   0.0     0.0072   16.2   0.0    1.3  1  Ribosomal_S17e  Ribosomal S17


Domain annotation for each model (and alignments):
>> Asp_Glu_race  Asp/Glu/Hydantoin racemase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.2   0.0   4.3e-26   3.8e-22       1     222 [.      13     224 ..      13     226 .. 0.82

  Alignments for each domain:
  == domain 1  score: 79.2 bits;  conditional E-value: 4.3e-26
                              EEEC.SCCCCHHHHHHHHHHBTTSSGGGS..EEEEE-CC.S-...TCHHHHHCH.T..THHHHHHHHHHHHCTTESEEEE--CHHH CS
             Asp_Glu_race   1 IGgm.gpeatlsvlrklveatpaesdqehlplivlndsa.ip...drteaieeesgddpvlklleaakkLekagadaiviaCnTah 81 
                              IG++ ++ +++svl++l + +p++       + +++d a +p   ++ e         ++++    a++L ++g+++iv+aCnTa+
  PHY93_07390|PHY93_07390  13 IGIFdSGIGGFSVLSELFKLMPKAN------YYYVSDDAnAPygpKSDEF--------ITERSFYIAQELIHQGVELIVVACNTAT 84 
                              9************************......6666666657733222222........34588889******************** PP

                              HHHHHHH..HH-SSEEEECHHHHHHHHHH..HSS-E.EEEEE-HHHHHCTHHHHHHHHHGT.EEE....T-CC....CHHCCHCHH CS
             Asp_Glu_race  82 avadelq..kkikiPvlgiveataealka..tgvkk.vglLgTrgtlksglyqkeleanqgievvvpseelqs....svnqaiyee 158
                              a+  +l   k+ +iP++g ve+ ++a  +  +g++k   +L+T+ t ks+ +++  e++ +      ++++ +    ++ ++i++ 
  PHY93_07390|PHY93_07390  85 AASIDLLreKFKDIPFVG-VEPYLNAYYQipEGLQKkMMVLTTESTGKSERFKRLKERL-DP-----DSQIDHyslkNLARLIEDY 163
                              **999999999*******.******888888555544*****************98886.53.....3333334444788999977 PP

                              HHTT-TTSHHHHHHHHHHHHHHTTT-SEEEE-STTHHHHHHHHHHCC-TT.SEEEEHHHHHHHH CS
             Asp_Glu_race 159 lkaGevteearrailkllerlaergadaviLGCTelplllekaealekeksvpvidptdilare 222
                                + + + e +++i+++l+ l+ +++   iLGCT++pl+ +++e++ +   ++ i+p + +a+ 
  PHY93_07390|PHY93_07390 164 YHHPNQDVEFEKNIEDELSFLKSQHYAYAILGCTHYPLVRKQIEKILD---LKAISPCSHVAQR 224
                              77777777788********999*********************88875...6799998888876 PP

>> Ribosomal_S17e  Ribosomal S17
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0   8.1e-07    0.0072      10      60 ..     154     203 ..     146     216 .. 0.83

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 8.1e-07
                              HHHHHHHHHS-TTT--S-HHHHHHHHHHHS----SHHHHHHHHHHHHHHHH CS
           Ribosomal_S17e  10 KkaarviiekyyskltndFhtnkkvceevaiipskklrnkiaGyvthlmkr 60 
                              K  ar +ie yy++ ++d + +k++ +e + ++s++    i G++ + + r
  PHY93_07390|PHY93_07390 154 KNLAR-LIEDYYHHPNQDVEFEKNIEDELSFLKSQHYAYAILGCTHYPLVR 203
                              55655.79***********************************99875544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (269 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       485  (0.0270511); expected 358.6 (0.02)
Passed bias filter:                      415  (0.0231469); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.25s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1989.98
//
Query:       PHY93_07395|PHY93_07395  [L=424]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
   1.6e-114  382.1   0.9   2.4e-114  381.5   0.9    1.2  1  Enolase_C  Enolase, C-terminal TIM barrel domain
    2.4e-59  199.2   0.1    4.3e-59  198.4   0.1    1.4  1  Enolase_N  Enolase, N-terminal domain
  ------ inclusion threshold ------
        0.1   12.2   0.0       0.15   11.6   0.0    1.3  1  MR_MLE_C   Enolase C-terminal domain-like
       0.14   12.1   0.0       0.28   11.1   0.0    1.4  1  YARHG      YARHG domain


Domain annotation for each model (and alignments):
>> Enolase_C  Enolase, C-terminal TIM barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  381.5   0.9  5.4e-118  2.4e-114       2     287 ..     147     422 ..     146     423 .. 0.98

  Alignments for each domain:
  == domain 1  score: 381.5 bits;  conditional E-value: 5.4e-118
                              -EE-EE-EEEEE-GGGSSSS--SSEEEEE-TT-SSHHHHHHHHHHHHHHHHHHHHHCC.GGGG-B-TTS-B----SSHHHHHHHHH CS
                Enolase_C   2 lvlPvPalnvinGGshagnklalqefmilPvgassfkealrlGaevyhklksvlkkkygksatnvGdeGGfaPnlqsnkealdliv 87 
                              +++P P++n+inGG ha n+l++qefmi+P   +sf+e lr G+ev+h lk+vl++     +tnvGdeGGfaPnl s +ea+d i 
  PHY93_07395|PHY93_07395 147 YIMPTPLMNIINGGAHASNNLDIQEFMIVPHLKKSFSENLRAGVEVFHALKKVLHDAN--YSTNVGDEGGFAPNLASHEEAIDCIL 230
                              89****************************************************9877..89************************ PP

                              HHHHHCT-TC..TBEEEEE--GGGCEETCTTEEECTTTTTT..GGCEEEHHHHHHHHHHHHHHS-EEEEES-S-TT-HHHHHHHHH CS
                Enolase_C  88 eaiekaGykg..kvkialdvassefykekdkkydldfkeeesdkskkltseqladlykelvkkyPivsiedpldeddweawkklte 171
                              +ai++aGy++  +++i+ld a+sefy  k++ky++++ke        ++++++ ++y +l++kyPi+sied+lde d+++w +lt 
  PHY93_07395|PHY93_07395 231 AAIKNAGYTPgqDISISLDSAASEFY--KNGKYNMQGKE--------FSTADMIKYYSDLCSKYPIYSIEDGLDEGDHQGWIELTR 306
                              *********989**************..778*****999........999************************************ PP

                              HHTTTSEEEESTTTTT-HHHHHHHHHCT--SEEEE-HHHH-SHHHHHHHHHHHHHTT-EEEEE--SC--S--HHHHHHHHCT-SEE CS
                Enolase_C 172 elgdkvqivGddltvtnpkrlkeaiekkaanalllkvnqiGsltesleavklakeagygvvvshrsGetedttiadlavglsaGqi 257
                               lg kv +vGddl+vtn k+ + +i+ + ana+l+kvnqiG+lte++ea++l +++ y +++shrsGet d++iadlav++ +  i
  PHY93_07395|PHY93_07395 307 VLGSKVVLVGDDLFVTNKKIFEAGIKTGEANAILVKVNQIGTLTETFEAMELGYKNNYKAIISHRSGETGDSFIADLAVATGSAHI 392
                              ************************************************************************************** PP

                              E---S-SHHHHHHHHHHHHHHHHHGCC-EE CS
                Enolase_C 258 ktGaparserlakynqllrieeelgekaky 287
                              ktG+ +rs+r+ kynqllrieeelg+ka+y
  PHY93_07395|PHY93_07395 393 KTGSASRSDRIEKYNQLLRIEEELGSKAIY 422
                              ****************************99 PP

>> Enolase_N  Enolase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  198.4   0.1   9.6e-63   4.3e-59       1     131 []       4     134 ..       4     134 .. 0.99

  Alignments for each domain:
  == domain 1  score: 198.4 bits;  conditional E-value: 9.6e-63
                              EEEEEEEEEE-TTS-EEEEEEEEETTC-EEEEE--B-BSSSSSS-B----SSTTSGGGT--HHHHHHHHHTHHHHHTTSBTT-HHH CS
                Enolase_N   1 IkkvkareildSrGnpTvevevttedgalgraavpsGaStgekealelrDgdkkrylgkgvekavenvnekiapaligldvtdqee 86 
                              Ik++kar+ildSrGnpTvev+v te g +graavpsGaStg+kealelrDgdk+ y+gk+v+ av+n+ + iap+ligl+vtdq++
  PHY93_07395|PHY93_07395   4 IKEIKARQILDSRGNPTVEVDVFTELGFMGRAAVPSGASTGSKEALELRDGDKSYYMGKSVLIAVKNIADLIAPKLIGLEVTDQKK 89 
                              89************************************************************************************ PP

                              HHHHHHHHH-STT-TTT-HHHHHHHHHHHHHHHHHHHTS-HHHHH CS
                Enolase_N  87 iDkllielDgtenksklGaNailavSlAvakaaAkakelplyryl 131
                              iD l++elDgtenksklGaNail+vS+Ava+a+A  +++ lyryl
  PHY93_07395|PHY93_07395  90 IDLLMLELDGTENKSKLGANAILGVSMAVARAGALDSGMSLYRYL 134
                              ********************************************8 PP

>> MR_MLE_C  Enolase C-terminal domain-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   3.4e-05      0.15      57     175 ..     261     391 ..     183     414 .. 0.73

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 3.4e-05
                              S.......BHHHHHHHHHHHGG.GTESEEESSSSTTTHHHHHHHHHH...HHSSEEEESTT.SSSHHHHHHHHHHTSESEEEEBHH CS
                 MR_MLE_C  57 w.......dlatAirvarelee.ldllwlEEPvppeddleglaelra...rasipiaagEs.lysradfrelleagavdivqpdvs 130
                              +       ++a+ i++   l + + ++ +E+ +    d +g  el++     ++ ++++   +++ + f++ +++g + ++ ++v+
  PHY93_07395|PHY93_07395 261 YnmqgkefSTADMIKYYSDLCSkYPIYSIEDGLDEG-DHQGWIELTRvlgS-KVVLVGDDLfVTNKKIFEAGIKTGEANAILVKVN 344
                              0444444488888888888845599*********95.699******86531.555555554145699******************* PP

                              HHTSHHHHHHHHHHHHHTT-EEEEBS.CS.SHHHHHHHHHHHHTTTT CS
                 MR_MLE_C 131 rvgGitearkvaalaeafgvpvapHs.gs.gglglaaslhlaaaipn 175
                              ++g +te+ + ++l  +++++ ++ +  + +g +++a l +a+   +
  PHY93_07395|PHY93_07395 345 QIGTLTETFEAMELGYKNNYKAIISHrSGeTGDSFIADLAVATGSAH 391
                              ***************99999966655223246677777766655544 PP

>> YARHG  YARHG domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   6.3e-05      0.28      21      61 ..     248     288 ..     228     305 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 6.3e-05
                              S-HHHHHHHHHHHHHTTT----SHHHHHHHHT-TT----TT CS
                    YARHG  21 lskeeLkilRNeiYArhGycFktpdlkdyFsskswYepess 61 
                              l++   ++ +N  Y  +G +F+t+d+ +y+s  +   p +s
  PHY93_07395|PHY93_07395 248 LDSAASEFYKNGKYNMQGKEFSTADMIKYYSDLCSKYPIYS 288
                              4566678899*********************9999888885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (424 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       529  (0.0295053); expected 358.6 (0.02)
Passed bias filter:                      471  (0.0262703); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.55u 0.25s 00:00:00.80 Elapsed: 00:00:00.43
# Mc/sec: 2927.89
//
Query:       PHY93_07400|PHY93_07400  [L=245]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.3e-06   27.4   0.8    5.5e-06   26.2   0.7    1.6  1  HATPase_c_5  GHKL domain
  ------ inclusion threshold ------
      0.019   15.5   0.0       0.03   14.8   0.0    1.3  1  HATPase_c    Histidine kinase-, DNA gyrase B-, and HSP90-like
      0.083   12.6   0.2       0.14   11.8   0.2    1.5  1  Lipl32       Surface lipoprotein of Spirochaetales order


Domain annotation for each model (and alignments):
>> HATPase_c_5  GHKL domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.2   0.7   9.1e-10   5.5e-06      10     101 .]     129     228 ..     125     228 .. 0.79

  Alignments for each domain:
  == domain 1  score: 26.2 bits;  conditional E-value: 9.1e-10
              HATPase_c_5  10 lgnlLdNAieacskieeekrfIrltvrekkksliisieNsyegek..........kklesskskkeehGiGlksireivkkykgnl 85 
                              +  +++N i  + + +  ++++++++  ++k l+i+  N+ ++++          + +  ++ ++++ G+Gl+si +++ + +g++
  PHY93_07400|PHY93_07400 129 FYRIMNNLIKNMAEAK--TSEVHIHFIFTEKGLTIETRNQSKSNEdfknisdklsQLILVENPSQKDGGLGLESIYHLAVECGGKF 212
                              5666777777777767..6789999999999*********998444444453332223356778999******************* PP

              HATPase_c_5  86 sieaedglFtlsvllp 101
                              ++e++++++   ++lp
  PHY93_07400|PHY93_07400 213 DFEISNNYWINRIFLP 228
                              **********999986 PP

>> HATPase_c  Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.8   0.0     5e-06      0.03       6      94 ..     129     214 ..     127     242 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 5e-06
                              HHHHHHHHHHHHHHHHSTTTEEEEEEEEEETEEEEEEEESSSSSTTHHHTGTCSTTCH.HCSTCHTSTSSSHHHHHHHH.HHHHTT CS
                HATPase_c   6 LrqiisnlvdNavkfatkageieveikaseddlvisveDnGiGipkedlkklfekfsq.ddstkrggggtGlGlsivkk.lvelmg 89 
                              +++i++nl++N ++++t++ +i+   +    ++ +++e   +  + ed k++ +k+sq    ++ +++  GlGl       ve  g
  PHY93_07400|PHY93_07400 129 FYRIMNNLIKNMAEAKTSEVHIHFIFT----EKGLTIETRNQSKSNEDFKNISDKLSQlILVENPSQKDGGLGLESIYHlAVE-CG 209
                              578999999999998666666655555....6777778877889999***********9555677788889999999996777.99 PP

                              TEEEE CS
                HATPase_c  90 Geiwv 94 
                              G++ +
  PHY93_07400|PHY93_07400 210 GKFDF 214
                              98887 PP

>> Lipl32  Surface lipoprotein of Spirochaetales order
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.2   2.4e-05      0.14      27      88 ..      74     135 ..      62     181 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 2.4e-05
                              ETTEEEEEEEEEE-S-BSEEEEEEE---.--S--TTEEE-HHHHHS-HHHHH----EEEEEE- CS
                   Lipl32  27 vdnkkayylyvWvPaavpelGvrmisPa.agekadkdlvsdefkeaakeeksyfdtyirlers 88 
                              ++ k++   y WvP+ ++e+ v+ +  +   e + +   +++f e+ ++   yf  + r+   
  PHY93_07400|PHY93_07400  74 YKHKNLPNTYDWVPFNIAEIAVKSLIQTyLPEDSVQTYIHKSFLEEKNSV-VYFPVFYRIMNN 135
                              678999999*************8766663677777888888888765544.499988877544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (245 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1040  (0.0580066); expected 358.6 (0.02)
Passed bias filter:                      498  (0.0277762); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.22s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 1799.72
//
Query:       PHY93_07405|PHY93_07405  [L=198]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
      0.013   15.5   0.0      0.016   15.1   0.0    1.1  1  2_5_RNA_ligase2  2'-5' RNA ligase superfamily


Domain annotation for each model (and alignments):
>> 2_5_RNA_ligase2  2'-5' RNA ligase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.1   0.0   8.8e-07     0.016       4     140 ..      13     160 ..      10     178 .. 0.76

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 8.8e-07
          2_5_RNA_ligase2   4 slaap.iealrrslydkayprwppHitLlypfvededl....adlaellsrlak....etepfe.vrldgfgvFehkksvvylsvs 79 
                              s+  + ie++++++ +k  +   + +t+l pf +d +       ++e+ls+l+       e++  ++++g+++  +kk+v+ l ++
  PHY93_07405|PHY93_07405  13 SIHHTkIESFKKRFDSKFQKGEKLQLTILPPFSIDFQNndelNNFTEELSDLLDshlfGLEQISqIEFNGISFSMGKKGVLALTPK 98 
                              44444588888566666666666999999999888666667766666666666655557777666********999999******* PP

          2_5_RNA_ligase2  80 dsealqalraallealpeagdkeds..geftPHlTiaqsadstsaaelleklaqalpplefev 140
                               s++l   +++l++ l+e g++ ++  ++ +P l i++ + +  +++++e + ++ ++ +f +
  PHY93_07405|PHY93_07405  99 ISPELFYCQESLYSFLKESGARFKKskDTTNPLLPIGRFDYPDLMESAIETA-KLEFSSPFVI 160
                              ****************999655444559999999999999999999998888.5555555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (198 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       495  (0.0276089); expected 358.6 (0.02)
Passed bias filter:                      396  (0.0220871); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.42
# Mc/sec: 1400.90
//
Query:       PHY93_07410|PHY93_07410  [L=384]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (384 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       278  (0.0155056); expected 358.6 (0.02)
Passed bias filter:                      254  (0.014167); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 2780.82
//
Query:       PHY93_07415|PHY93_07415  [L=240]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (240 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       640  (0.0356964); expected 358.6 (0.02)
Passed bias filter:                      501  (0.0279436); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 1768.00
//
Query:       PHY93_07420|PHY93_07420  [L=107]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
     0.0081   15.7   0.6      0.016   14.7   0.6    1.4  1  VASP_tetra  VASP tetramerisation domain
  ------ inclusion threshold ------
      0.091   13.4   2.8       0.33   11.6   1.0    2.0  2  DUF5499     Family of unknown function (DUF5499)


Domain annotation for each model (and alignments):
>> VASP_tetra  VASP tetramerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.6   1.8e-06     0.016      13      26 ..      25      38 ..      25      38 .. 0.92

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1.8e-06
               VASP_tetra 13 eEvrkELqKvKeEI 26
                             +Ev++ELqK+K+E+
  PHY93_07420|PHY93_07420 25 SEVVRELQKIKNEV 38
                             5***********96 PP

>> DUF5499  Family of unknown function (DUF5499)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.9   0.2    0.0094        85      39      79 ..      25      67 ..       3      69 .. 0.69
   2 ?   11.6   1.0   3.7e-05      0.33      24      67 ..      62     106 ..      42     107 .] 0.80

  Alignments for each domain:
  == domain 1  score: 3.9 bits;  conditional E-value: 0.0094
                  DUF5499 39 sdkwrrmkgidsevkdelnrqlrge..vrklkksvyidddfdy 79
                             s+  r ++ i +evk   + ++r +  + +  ks y+ d++ y
  PHY93_07420|PHY93_07420 25 SEVVRELQKIKNEVKISNDEKVREDktITNATKSPYLPDQMFY 67
                             4556777788888887777777654225566777777776655 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 3.7e-05
                  DUF5499  24 pdgv.shkdmvenifrsdkwrrmkgidsevkdelnrqlrgevrkl 67 
                              pd +  +kd+v n     kw+ +k  d   kd  +  l  + rkl
  PHY93_07420|PHY93_07420  62 PDQMfYKKDVVYNSAEETKWKDVKTADEVEKDTQENYLESNRRKL 106
                              56551568********************99****99999999998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (107 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1068  (0.0595683); expected 358.6 (0.02)
Passed bias filter:                      285  (0.015896); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 795.32
//
Query:       PHY93_07425|PHY93_07425  [L=690]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    7.3e-26   90.7   0.0    3.9e-23   81.7   0.0    3.1  2  AMP-binding    AMP-binding enzyme
    5.3e-11   43.6   0.0    7.8e-11   43.0   0.0    1.3  1  Abhydrolase_6  Alpha/beta hydrolase family
    3.1e-05   23.8   0.1    8.5e-05   22.3   0.1    1.8  1  Abhydrolase_1  alpha/beta hydrolase fold
    0.00041   21.3   0.0    0.00074   20.4   0.0    1.4  1  AMP-binding_C  AMP-binding enzyme C-terminal domain
     0.0019   17.5   0.0     0.0048   16.2   0.0    1.6  1  Hydrolase_4    Serine aminopeptidase, S33


Domain annotation for each model (and alignments):
>> AMP-binding  AMP-binding enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    3.3   0.0    0.0068        24      19      69 ..      18      67 ..       7     113 .. 0.82
   2 !   81.7   0.0   1.1e-26   3.9e-23     153     421 ..     115     332 ..      73     334 .. 0.82

  Alignments for each domain:
  == domain 1  score: 3.3 bits;  conditional E-value: 0.0068
                             STEEEEHHHHHHHHHHHHHHHHHTTSSTT-EEEEEESSSHHHHHHHHHHHH CS
              AMP-binding 19 egqtlTYreldervnrlAagLrslGvkkgdrVaillpnspewvvallailk 69
                              ++  TY++l + v +l++ + s  + + d+Va+  +  +  +va+la lk
  PHY93_07425|PHY93_07425 18 FYNEKTYADLLSDVASLSSKFSS-QLSSVDTVALKIQSPYLAFVAILASLK 67
                             57889****************99.9**********************9987 PP

  == domain 2  score: 81.7 bits;  conditional E-value: 1.1e-26
                              CCS-BTTSEEEEEEE--SSSS-EEEEEEHHHHHHHHHHHHHHHCSCCTTT-EEEESS-TTSCHHHHHHHHHHHHTT-EEEE-TTCG CS
              AMP-binding 153 eeelkpddlayiiYTSGTTGkPKGVmlshrnlvanvaslkletrfklkeddvvlsilplahifglilelllallsGatvvllpkda 238
                               ++ +   +a+++++SGTT  PKGV ls +nl ++++ +   ++f  +++++ l+ lp +h+ gl + l+ a++sG+++       
  PHY93_07425|PHY93_07425 115 FPSMDIIKPALVVFSSGTTSIPKGVALSFNNLYYSAKGF--AEYFHRTDNERSLMNLPHHHVGGL-MILWRAFFSGGSLTT----- 192
                              334666789**************************9997..5677778899*************8.***********8755..... PP

                              CCHHHHHHHHHHHHT-SEEEEEHHHHHHHHH.CCCHHCHHHHCCGTT-SEEEEESS-EBHHHHHHHHHHHTCEEEEEEEEGGGSSE CS
              AMP-binding 239 aldpklllelieklkvtviagvPrvlealle.sgalkaakkakdlsslrlvllggeplspellrffralfgeevlegYGlTEttgv 323
                                       +++   + ++ +vP  l++++e +++l+       l+++r++l+gg+pls++l ++++ ++ + ++e+YG++Et+  
  PHY93_07425|PHY93_07425 193 ---------DLK-SPIDFLSLVPLQLKRMMEdNSKLQ------LLKKIRVILVGGAPLSSALKEEAKVHGLN-LYETYGMSETASL 261
                              .........344.6788999***********676666......7888**********************887.************9 PP

                              CEECHCTTTCTSTTS-BEE-TTEEEEEE-TTTSCBEETTSEEEEEEEETTS-SEBTT-HHHHHHHEEET.CC.EEEEEEEEEEETT CS
              AMP-binding 324 vtvlpleedkkklgsvGkplpgvevkivDeetgepvpdgeeGellvrgpgvmkgYlkkpeataeafdse.gr.wlrTGDlgrlded 407
                              ++ ++           G +lp  ev++ De           G   v+g++++ gY++k       f+ + +  w++T Dlg++de 
  PHY93_07425|PHY93_07425 262 LM-IN-----------GEVLPYREVEL-DEL----------GFFKVKGKTLALGYFQK-----NIFF-PiPSvWFKTNDLGFRDEF 318
                              99.55...........77899999999.654..........8899***********77.....7888.55566***********99 PP

                              SEEEEEEECCCEEE CS
              AMP-binding 408 GyleivgRkkdlik 421
                              G +++  R++ +++
  PHY93_07425|PHY93_07425 319 GIFHFKQRSDLIFI 332
                              ********998876 PP

>> Abhydrolase_6  Alpha/beta hydrolase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   43.0   0.0   2.2e-14   7.8e-11       1     218 [.     448     685 ..     448     687 .. 0.63

  Alignments for each domain:
  == domain 1  score: 43.0 bits;  conditional E-value: 2.2e-14
                              EEEE--GC.....GCHHHHHHHHCCTCEEEEE--TTSTS-GGCS--HHHCHHH....HHHHCCTT..TTSEEEEEETCHHHHHHHH CS
            Abhydrolase_6   1 vlllHGagssassWlvapLaallaagvhvlapDlpGhGrsdpppldledladl....aalldelaagggpvvlvGHSlGGalalaa 82 
                              +++ HG+ +++++    ++   l+a++  l +D pGhG   ++  ++   +dl    + +++ +    ++++  G+S+GG +al+ 
  PHY93_07425|PHY93_07425 448 IIFFHGFMGDKEDLK--NISDPLGAQYSRLYIDMPGHG--KTKIENFYTNLDLfqklSWFINLF---SPNPIFYGYSMGGRIALH- 525
                              7999**666666664..66555577766677*******..4444444332444455599*****...7999**************. PP

                              HHCC.........EEEEES-..----TTT...................S----TTHHHHHHTT-CCCCH...CCH..S-HSCCCCH CS
            Abhydrolase_6  83 apla.......lvvgvlldppptalpagl...................laaalelllallallrllawl...sre..plprlflad 137
                                la       l   ++l++   +l++++                   +  ++e+l +++++ +++ ++   s++  ++ r++++ 
  PHY93_07425|PHY93_07425 526 --LAlnflppqL---LILES--AGLGLLNsdeqlqrqendfkqfsgvdQKLLPEFLNHWYQNPIFYKFSehpSYKseIDKRSLHD- 603
                              ..8855554431...55555..222222244444443333333333335555555555555555544442112223333334444. PP

                              HHCCCCHCHCCCGHHHHCCHHCHTTCCHHTT-TTGC...EEE.CTT-CHHHHCHHCCCH...STTEEETCE...SSS-HHHHSH.H CS
            Abhydrolase_6 138 edadaawrarlarlaallaglgllpaaawadlpvpl...lvl.ggeDplvprllerlla...qagarlpvvlpgaGHlphleep.d 215
                                    ++++ +    l ag+++l  +++a +  +    l + g++D  ++++++rl     ++++ +   ++g+GH ph  +p +
  PHY93_07425|PHY93_07425 604 ------FTEWRDSQKFLSAGCFPLLKENLAKISITSfplLYIyGENDFKYKDFAQRLRPldpARKVSI-LAIAGSGHNPHKTHPlE 682
                              ......666666666777777777777888888888776444369999*******9999988888888.9999********99966 PP

                              HHH CS
            Abhydrolase_6 216 eva 218
                               +a
  PHY93_07425|PHY93_07425 683 MIA 685
                              555 PP

>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.3   0.1   2.4e-08   8.5e-05       1      96 [.     446     534 ..     446     680 .. 0.84

  Alignments for each domain:
  == domain 1  score: 22.3 bits;  conditional E-value: 2.4e-08
                              SEEEEE-STTTCGGGGTTGHHHHHHHHTTSEEEEEEETTSTTSSSTTTGB.CHHSHHHHHHHHHHHHHHCTTSSEEEEEETHHHHH CS
            Abhydrolase_1   1 pvlvilhGlpgssdvwaerglapaLakdgfdvillDlrGvgySspapacinddygtasvaddldrildalgddkltlvGhSmGGmi 86 
                              pv++++hG+ g  +   +  + + L   ++  + +D++G+g+++         y++ ++   l ++ + +   ++   G+SmGG+i
  PHY93_07425|PHY93_07425 446 PVIIFFHGFMGDKEDLKN--ISDPLGA-QYSRLYIDMPGHGKTKIENF-----YTNLDLFQKLSWFINLFSPNPI-FYGYSMGGRI 522
                              79*********9987666..6677776.***************99987.....89999999999********999.99******** PP

                              HHHHHHHH..GG CS
            Abhydrolase_1  87 alayaaey..pe 96 
                              al++a+ +  p+
  PHY93_07425|PHY93_07425 523 ALHLALNFlpPQ 534
                              ********9644 PP

>> AMP-binding_C  AMP-binding enzyme C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.4   0.0   2.1e-07   0.00074       2      61 ..     343     402 ..     342     410 .. 0.93

  Alignments for each domain:
  == domain 1  score: 20.4 bits;  conditional E-value: 2.1e-07
                              HHHHHHSSTTEEEEEEE-----TTS---EEEEEE------HHHHHHHHHHHHT-TTTS-S CS
            AMP-binding_C   2 vEsalvshpaVaeaaVvGvpdevkGealvafVvlkdgsealeeeLkahvrkelgpyavpk 61 
                              +E+++ +   +++a+ +  pde++Ge+ v ++  k+g+++ +eeL+ +++++l p+  pk
  PHY93_07425|PHY93_07425 343 IEEVVKQNSLIKDAYLIPLPDEKWGEMGVLLYQTKTGVDLSAEELNTFLKTKLHPHLIPK 402
                              8*********************************99976789**************9998 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0   1.3e-06    0.0048       6     138 ..     447     578 ..     444     654 .. 0.56

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 1.3e-06
              Hydrolase_4   6 vvvlvHGlaehsgryaelaeaLaaqGfavyalDhrGhGrsegkrghvpsfddyvdDlaafvekvkeehpelplfllGhSmGGlial 91 
                              v++++HG+    +  +++ + L aq ++ + +D  GhG+++ +        d+ + l+ f++ +    p+   + +G SmGG ial
  PHY93_07425|PHY93_07425 447 VIIFFHGFMGDKEDLKNISDPLGAQ-YSRLYIDMPGHGKTKIENF--YTNLDLFQKLSWFINLFS---PNP--IFYGYSMGGRIAL 524
                              7999*****************9987.778889********32222..222334444555554444...444..789********** PP

              Hydrolase_4  92 lyllrypdkvaglilsaPalkikakl.......k.appllklllkllgkllpklq 138
                              +++l+  +  + lil ++ l++ ++        + ++++  + +kll ++l +++
  PHY93_07425|PHY93_07425 525 HLALNFLP-PQLLILESAGLGLLNSDeqlqrqeNdFKQFSGVDQKLLPEFLNHWY 578
                              ***66555.4788888888766433234443332233333333333333333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (690 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       357  (0.0199119); expected 358.6 (0.02)
Passed bias filter:                      322  (0.0179597); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.69u 0.22s 00:00:00.90 Elapsed: 00:00:00.43
# Mc/sec: 4855.45
//
Query:       PHY93_16410|PHY93_16410  [L=261]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.3e-70  234.8  19.0    9.3e-70  234.6  19.0    1.0  1  LGT       Prolipoprotein diacylglyceryl transferase


Domain annotation for each model (and alignments):
>> LGT  Prolipoprotein diacylglyceryl transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  234.6  19.0   5.2e-74   9.3e-70       1     242 []      11     255 ..      11     255 .. 0.94

  Alignments for each domain:
  == domain 1  score: 234.6 bits;  conditional E-value: 5.2e-74
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxx RF
                      LGT   1 pvafsigpleirwYgllialgfllavllakrrakke..glkeekdkvddlliyavilgiiGaRlgyvlfY....ylsnpleilkiw 80 
                              pv++++gp++irwYgl++++gf++a +l+k  ++++  +++e  dk+d+l++ ++i+ +iGaR +yv++Y    y +n++++l++w
  PHY93_16410|PHY93_16410  11 PVLLDLGPVQIRWYGLMYVIGFIIAGYLLKVLVRNRffKITE--DKIDTLITTMIICMFIGARTFYVFIYnwdyYSQNLVDLLAVW 94 
                              7999*****************************997333333..89*********99999********77666577********** PP

                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                      LGT  81 egGlaihGgligvllalllyakkkklsflkvlDivapvvalgqaigRlGNfingelyGkptdlpwglvfkkaeelplprhPtqlYe 166
                              +gGl++hG+l+g +++ +++a+++k+++++v+D va+v   g+++gR+GNfingelyG+ t++++g++f++ ++ p  rh++qlYe
  PHY93_16410|PHY93_16410  95 KGGLSFHGALVGLIVGGYIFARQQKITLFEVMDSVALVGTPGLFFGRIGNFINGELYGRITNSSIGIIFPQGGPFP--RHASQLYE 178
                              *********************999****************************************************..******** PP

                              x.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxx...xxxxxxxxxxxxxxxxxxxxxxxxxx RF
                      LGT 167 s.lenlllflilllllskkkkkkkkdgevfglylilyglgRffiEflR.tds...lllgslrmgqllsiplvlagialliv 242
                              + le++ll++il++ +   kkk k  g ++gl++ +yg++Rf++Ef+R +ds    ++gs++mgq+l++++v ag+ ++i+
  PHY93_16410|PHY93_16410 179 AfLEGILLCAILWM-V---KKKVKIYGIISGLFVSIYGVFRFVVEFFRePDSqlgYYFGSITMGQILCFLMVFAGVGIIIY 255
                              *************9.6...4557789*************************8766666********************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (261 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       911  (0.0508115); expected 358.6 (0.02)
Passed bias filter:                      429  (0.0239277); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 1965.00
//
Query:       PHY93_07430|PHY93_07430  [L=360]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      3e-48  163.6   0.0    5.5e-48  162.8   0.0    1.4  1  IMS       impB/mucB/samB family
    4.6e-09   37.0   0.0      1e-08   35.9   0.0    1.5  1  IMS_C     impB/mucB/samB family C-terminal domain
  ------ inclusion threshold ------
       0.02   15.2   0.1      0.051   13.9   0.1    1.8  1  IMS_HHH   IMS family HHH motif


Domain annotation for each model (and alignments):
>> IMS  impB/mucB/samB family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  162.8   0.0   9.1e-52   5.5e-48       1     150 []       7     150 ..       7     150 .. 0.97

  Alignments for each domain:
  == domain 1  score: 162.8 bits;  conditional E-value: 9.1e-52
                              EEETTHHHHHHHHHT.T-TTS-EEEEET....TEEEEE-HHHHTTT--TTSBHHHHHTTHTT-EEEEEE-HHHHHHHHHHHHHHHH CS
                      IMS   1 iDmdaFyasverardpeLkgkPvvvaqgsekrgiviavsyeArayGvkrgmrikeakklcpdlivvkvdlekyrraskkileilkr 86 
                              +Dmd+Fya+ve++++p L++ P+ +++   +r+++++++y Ar++Gvk++m+ + a klcp+l+v+ ++++ky +as+ i +i++ 
  PHY93_07430|PHY93_07430   7 VDMDCFYAQVEMRDNPALRNVPLGIGGLPGTRSVLCTSNYIARKFGVKSAMPTDYAVKLCPNLVVIAPNFKKYSEASEIIQSIFHH 92 
                              7************************************************************************************* PP

                              H-S..EEEEETTEEEEE-HHHHHHHH-SHHHHHHHHHHHHHHHH---EEEEEESSHHHHHHHHH CS
                      IMS  87 fispkvekasiDEayldltgleelaesegaalakelrkaikeelgltvsiGiasnkllAKlase 150
                              + sp+ve++s+DEayld+++     es ++++a e++kai +++glt+s+G+a+nk+lAK+as+
  PHY93_07430|PHY93_07430  93 Y-SPLVEPVSLDEAYLDVSDA----ES-ATSIALEIKKAILDRTGLTASVGVAPNKFLAKIASD 150
                              *.88***************94....33.378*******************************96 PP

>> IMS_C  impB/mucB/samB family C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.9   0.0   1.7e-12     1e-08       7     107 ..     235     345 ..     232     351 .. 0.82

  Alignments for each domain:
  == domain 1  score: 35.9 bits;  conditional E-value: 1.7e-12
                    IMS_C   7 epksissektfpepydesk.lkkelreLaeelarrL.....rdkglvartitlklrysdfh.asrsatL...prptsdtreileaa 82 
                              e+ks+s+e+tfp+++ e++ l++el  L ee + rL     ++ + + ++i +k++++df+ ++   tL   +++  +  ++++ +
  PHY93_07430|PHY93_07430 235 ERKSLSVETTFPKDIREENiLQLELLDLYEEMYSRLeahfdEEGEKILKKIFVKVKFNDFSrTTCEETLhshDFADWRKLLLADYF 320
                              79***********5555558****************6666544449************9998888889976555667778889999 PP

                    IMS_C  83 lkLlrrlidepglpirligvsasnl 107
                              + Ll    +++g  +rlig+++  +
  PHY93_07430|PHY93_07430 321 KPLLSHCLQKKGNAVRLIGLGVRFV 345
                              9999555555**********99755 PP

>> IMS_HHH  IMS family HHH motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.1   8.6e-06     0.051       3      32 .]     164     193 ..     162     193 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 8.6e-06
                  IMS_HHH   3 dvkefLwplpitkipGiGgklgekLeklGi 32 
                              +v+ f++ lp++ ipGiG+k  e +++lG+
  PHY93_07430|PHY93_07430 164 NVEVFVKTLPVKLIPGIGKKGKEIFDSLGV 193
                              67889**************99999999996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (360 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       434  (0.0242066); expected 358.6 (0.02)
Passed bias filter:                      377  (0.0210274); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.40
# Mc/sec: 2670.15
//
Query:       PHY93_07435|PHY93_07435  [L=206]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.3e-14   51.1   0.0    1.2e-13   50.6   0.0    1.3  1  LexA_DNA_bind  LexA DNA binding domain
    1.7e-13   50.3   0.0    2.5e-13   49.8   0.0    1.3  1  Peptidase_S24  Peptidase S24-like
     0.0085   15.7   0.0      0.017   14.7   0.0    1.5  1  ArsR           ArsR transcriptional regulator
  ------ inclusion threshold ------
      0.011   16.0   0.0      0.025   15.0   0.0    1.5  1  FaeA           FaeA-like protein
       0.11   12.7   0.0       0.18   12.0   0.0    1.3  1  FUR            Ferric uptake regulator family
       0.13   12.2   0.1       0.44   10.5   0.1    1.8  2  PadR           Transcriptional regulator PadR-like family


Domain annotation for each model (and alignments):
>> LexA_DNA_bind  LexA DNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.6   0.0   4.1e-17   1.2e-13       3      64 ..       2      63 ..       1      64 [. 0.95

  Alignments for each domain:
  == domain 1  score: 50.6 bits;  conditional E-value: 4.1e-17
                             ---HHHHHHHHHHHHHHHHHSS---HHHHHHHHTS-.HHHHHHHHHHHHHTTSEE-GGG-CC CS
            LexA_DNA_bind  3 kLTerQrevldlikasieetgypPsireiaralglkSpsaveehLkaLerKGyierdpgkpR 64
                             +LT++Q+ev+d+i+a+ +++g++P+  ei +++glkS  +v++ L+ L++ G++e   ++ R
  PHY93_07435|PHY93_07435  2 ALTKKQKEVFDYIQAYHDHHGHAPTQNEIKDHFGLKSLGSVQKYLQYLNKEGLLESHWNQRR 63
                             69****************************************************98877766 PP

>> Peptidase_S24  Peptidase S24-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.8   0.0   8.4e-17   2.5e-13       1      69 [.     121     189 ..     121     190 .. 0.92

  Alignments for each domain:
  == domain 1  score: 49.8 bits;  conditional E-value: 8.4e-17
                              EXXSSTT.CCTXXTTXEEEEECTS---TTSEEEEEETTCE-EEEEEEEEETTEEEEE.SST.TSTEEEECT CS
            Peptidase_S24   1 rvpGdSM.eptlldGdlilVdkfsepkrGdivvfrlpgeeeayiKrviglpgdrvllasnn.eypplying 69 
                              +v+G+SM e+++l+Gd+i+++ + e+++G+ivv+ ++ge  a++K +  ++++r++l  +n +  p+ +++
  PHY93_07435|PHY93_07435 121 TVKGESMiEAGILEGDVIVCRSTKEARNGQIVVAVIDGE--ATVKTLSLQNKKRLELLPSNkNFSPIIVDE 189
                              69*************************************..*******99999999887774699998875 PP

>> ArsR  ArsR transcriptional regulator
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   0.0   5.7e-06     0.017      31      64 ..      25      62 ..       2      73 .. 0.79

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 5.7e-06
                     ArsR 31 lteeeleeklgee....veealklLkkikliEsqWrmp 64
                              t++e+++++g +    v+++l++L+k +l+Es+W+  
  PHY93_07435|PHY93_07435 25 PTQNEIKDHFGLKslgsVQKYLQYLNKEGLLESHWNQR 62
                             59999**999976667799****************875 PP

>> FaeA  FaeA-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   0.0   8.2e-06     0.025       7      54 ..      12      65 ..       6      67 .. 0.74

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 8.2e-06
                             HHHHH......S----HHHHHHHHTS.-HHHHHHHHHHHHHHSSEE.EE--SSSS CS
                     FaeA  7 eylnsi.....kapckTreiAdalgl.saYQaRyYLeqLekegkik.rspvrrGv 54
                             +y++       +ap + +ei d++gl s   +  YL+ L+keg ++   + rrGv
  PHY93_07435|PHY93_07435 12 DYIQAYhdhhgHAP-TQNEIKDHFGLkSLGSVQKYLQYLNKEGLLEsHWNQRRGV 65
                             55555555543344.4579*******666789*************8356999998 PP

>> FUR  Ferric uptake regulator family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   5.9e-05      0.18       6      63 ..       3      60 ..       1      76 [. 0.90

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 5.9e-05
                             HHHHHHHHHHHHHHHSSSBEHHHHHHHHHHTTTT--HHHHHHHHHHHHHTTSEEEEEE CS
                      FUR  6 lTkqRekilevlekseehlsaeevykelkeedpeislaTVYrtLklleeaglvkelef 63
                             lTk+ +++ ++++ +++h      ++e+k+++   sl +V + L+ l+++gl++++  
  PHY93_07435|PHY93_07435  3 LTKKQKEVFDYIQAYHDHHGHAPTQNEIKDHFGLKSLGSVQKYLQYLNKEGLLESHWN 60
                             79***************99999*******************************99855 PP

>> PadR  Transcriptional regulator PadR-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.1   0.00015      0.44      18      57 ..      29      64 ..      13      72 .. 0.78
   2 ?   -1.8   0.0         1   3.1e+03      61      73 ..     116     128 ..     114     130 .. 0.83

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00015
                             HHHCCSTT-CCTTHHHHHHHHHHHHHTTSEEEEEE-STSS CS
                     PadR 18 eleelsegllelseGslYpaLkrLekeglveseweesgeg 57
                             e+++++ g    s Gs+ + L+ L kegl+es+w++  +g
  PHY93_07435|PHY93_07435 29 EIKDHF-G--LKSLGSVQKYLQYLNKEGLLESHWNQR-RG 64
                             566664.4..578899******************985.44 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 1
                              EEEEESHCCCHHH CS
                     PadR  61 kyYrlTdaGrrel 73 
                              +y++lT +G++ +
  PHY93_07435|PHY93_07435 116 RYFALTVKGESMI 128
                              799*****99766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (206 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       597  (0.033298); expected 358.6 (0.02)
Passed bias filter:                      551  (0.0307323); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1516.43
//
Query:       PHY93_07440|PHY93_07440  [L=282]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.1e-34  120.4   0.0    1.3e-34  120.1   0.0    1.1  1  2OG-FeII_Oxy_2  2OG-Fe(II) oxygenase superfamily


Domain annotation for each model (and alignments):
>> 2OG-FeII_Oxy_2  2OG-Fe(II) oxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  120.1   0.0   7.2e-39   1.3e-34       1     196 []      17     242 ..      17     242 .. 0.87

  Alignments for each domain:
  == domain 1  score: 120.1 bits;  conditional E-value: 7.2e-39
           2OG-FeII_Oxy_2   1 glllipnflsaeeaaellrelleegpfrqptilggkrvsv...qqtllgplgwat..........dgpgyrysekesvdakplspf 73 
                              gl + p f++++e++e++++l++++p+++++++ ++++++   q++l +p++w +          ++p+  ++  ++v+++ ++p+
  PHY93_07440|PHY93_07440  17 GLFYHPTFVKKTERTEIIEWLKTLHPIWEMRFSEHNPPPEgdeQRQLKRPVYWLGnwqfaclnyyHPPKGIHN--RCVKGEDYPPV 100
                              67899*****************************99996644367889*****99555555555455555556..589******** PP

           2OG-FeII_Oxy_2  74 peallrlverlvkaag.....pegwspnaalvnfYrd...........gariglHqDkeesaleapivSlSLGasatfrf..gkes 141
                              ++++l+ ve +++a+      p++w++n++l+nfY++           +ar+g H+D+e      p++S+S+G++a+f+f  gk+ 
  PHY93_07440|PHY93_07440 101 LKTILKTVEGITRAQFkknevPKDWQLNTCLINFYGSsidpltgkkndTARVGDHKDFE-L---GPVASISFGERAFFQFvlGKKD 182
                              ***********9755599**999************************888*********.4...6***************996666 PP

           2OG-FeII_Oxy_2 142 .reeeiiailLesGdllvmgge..srkayHgvprikkdtapele..leelrtrRinlTfR 196
                                ++   ++++++ +l+++gge  +++a+H+v+r++++ ++ +    ++++trRin+TfR
  PHY93_07440|PHY93_07440 183 lTNNILYEQWIDDCSLQIFGGElyKDRAFHRVQRVENKLKTFFDlnVQNFETRRINFTFR 242
                              3667788***************777************8544444889************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (282 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       403  (0.0224776); expected 358.6 (0.02)
Passed bias filter:                      338  (0.0188521); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 2043.71
//
Query:       PHY93_07445|PHY93_07445  [L=297]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        0.2    9.8   0.0       0.25    9.5   0.0    1.1  1  DUF1633   Protein of unknown function (DUF1633)


Domain annotation for each model (and alignments):
>> DUF1633  Protein of unknown function (DUF1633)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   0.0   1.4e-05      0.25     412     458 ..     129     175 ..     110     219 .. 0.81

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 1.4e-05
                  DUF1633 412 llpvvrltaelividqevapsreervkplaanseaavavdrrssgrs 458
                              l  ++ +  +li i q++ p+ +e    ++ n+ aav+v  rs +r 
  PHY93_07445|PHY93_07445 129 LDSIIMVIDKLIAIGQKIIPTIKEGKSVVTNNPMAAVSVLPRSEARD 175
                              6677888999*****************************99998885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (297 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       442  (0.0246528); expected 358.6 (0.02)
Passed bias filter:                      354  (0.0197445); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 2240.83
//
Query:       PHY93_07450|PHY93_07450  [L=466]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (466 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       417  (0.0232584); expected 358.6 (0.02)
Passed bias filter:                      329  (0.0183502); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.21s 00:00:00.74 Elapsed: 00:00:00.40
# Mc/sec: 3462.32
//
Query:       PHY93_07455|PHY93_07455  [L=275]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.7e-67  227.2   0.0    3.1e-67  227.0   0.0    1.0  1  S1-P1_nuclease  S1/P1 Nuclease


Domain annotation for each model (and alignments):
>> S1-P1_nuclease  S1/P1 Nuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  227.0   0.0   1.7e-71   3.1e-67       1     253 []      21     258 ..      21     258 .. 0.91

  Alignments for each domain:
  == domain 1  score: 227.0 bits;  conditional E-value: 1.7e-71
                              --HHHHHHHHHHHHCCS-HHHHHHHHHHCTGGCTTTCGGGTTHHHHHTT.STTTGGGGGGG-EEE-SC-HHHHSB-.TT..CT-SH CS
           S1-P1_nuclease   1 WgkeGHrtvaeiAqklLspkaakavkellkeeasedlaqvatwaDeiksatkkyretspwHyidtpdekysrdckdaekekkegcv 86 
                              Wgk+GHr+v+eiAq++L++++ +a+kel++e   +dl++++tw+Dei+s+ k    tspwHy+ +p+    +++ d +k +keg +
  PHY93_07455|PHY93_07455  21 WGKTGHRIVGEIAQRNLDSNTLNAIKELAGE---DDLSRISTWPDEIRSDPK-MGYTSPWHYVSIPNG---KTYYD-QKRNKEGDL 98 
                              *****************************99...8**************875.9*************4...33333.45677888* PP

                              HHHHHHHHHHHCCTT.TTTH.HHHHHHHHHHHHHCTSGGGGEECGGHCCTTT-EEEETTEEEEHHHHHHTHHHHHHHCCTSC.CCH CS
           S1-P1_nuclease  87 vsaienltselkdkkaskaqraealkflvHfvGDiHqPLHtagreedrGGNkikvqfegkktnLHsvWDseiiekiseeksrlsal 172
                              ++a+ +++  l+d+k++k+++ +alkflvH+ GD+HqPLH +g++edrGGN i+v++++++tnLH vWD+e+i+ ++       ++
  PHY93_07455|PHY93_07455  99 IEALYRFEDILRDTKETKEHKLDALKFLVHMTGDLHQPLH-VGLAEDRGGNSIRVKWFKTETNLHTVWDEELIDFEKL------SF 177
                              ****************************************.********************************98888......89 PP

                              HHHHHHHHHHHHCCCHHHCCCHHHHHHHHHHHHHHHHTTSTTHHCCHC.CTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT CS
           S1-P1_nuclease 173 keladaleakikseevksweklsaeawakesnelackvvykgaesget.lsdeYyekalpvveeqlakaGvRLAavLnkile 253
                              +e+++ l +++++e++ks ek s  +wa+es el  kv+  g++s +  ls+eY +k +pv+e +l++aG+RLA vL+ki++
  PHY93_07455|PHY93_07455 178 TEYTNYL-NHFSKEDKKSLEKGSFIDWANESQELRPKVYDFGGSSASVsLSYEYNYKVKPVIELRLKQAGLRLAYVLKKIFS 258
                              9999999.66677899999988***************996444433336******************************995 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (275 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       484  (0.0269954); expected 358.6 (0.02)
Passed bias filter:                      308  (0.0171789); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 2042.54
//
Query:       PHY93_07460|PHY93_07460  [L=137]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.1e-20   71.1   0.1    9.4e-20   70.9   0.1    1.0  1  Response_reg     Response regulator receiver domain
  ------ inclusion threshold ------
      0.085   12.5   0.2       0.12   12.1   0.2    1.3  1  Methyltr_RsmB-F  16S rRNA methyltransferase RsmB/F
       0.11   12.2   0.0       0.14   11.8   0.0    1.2  1  Cons_hypoth95    Conserved hypothetical protein 95


Domain annotation for each model (and alignments):
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.9   0.1   1.6e-23   9.4e-20       1     110 [.      11     123 ..      11     125 .. 0.94

  Alignments for each domain:
  == domain 1  score: 70.9 bits;  conditional E-value: 1.6e-23
                              EEEESSSHHHHHHHHHHHHHTTE.EEEEEESSHHHHHHHHHHHHESEEEEESSCSSSEHHHHHHHHHHCT..TTSEEEEEESSTSH CS
             Response_reg   1 vlivdDdplvrellrqlleeegy.eevaeaedgkealellkeekvdlillDinmpgmdGlellkeireed..pelpviiltahsee 83 
                              vli+dDd+ ++e+lr+++ + g+ +++  a+dg  a ++l+++k+ lillD+nmp+ +G+++l+e  ++   ++ ++++++++ e+
  PHY93_07460|PHY93_07460  11 VLIIDDDKNICEVLREYCHNMGCfKNIVFANDGIMATQKLRNQKFSLILLDMNMPKKSGYDILSEFGTDTlnQKENILVVSGTLEK 96 
                              8******************988779*****************************************66655599************ PP

                              HHHHHHHHCTESEEEESSG-HHHHHHH CS
             Response_reg  84 edavealkagaddflsKpfdpeeLlka 110
                              + + + l  g++ fl+Kpfd+    ++
  PHY93_07460|PHY93_07460  97 DLIAKILARGVKTFLVKPFDEPTFQDR 123
                              ********************9887776 PP

>> Methyltr_RsmB-F  16S rRNA methyltransferase RsmB/F
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.2   1.9e-05      0.12      32      87 ..       7      62 ..       1     109 [. 0.80

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 1.9e-05
                             TTSEEEEEESSCCCHHHHHHHHHHTT--SEEEEES-CTCCHHHHCC..EEEEEEEE CS
          Methyltr_RsmB-F 32 nkgtvvAvdankeRlkrvaenlkrLgvtntivleaDarkidkvlggelfDriLlDa 87
                              +  v+ +d +k+  + + e  + +g+ + iv+  D+    + l +++f  iLlD 
  PHY93_07460|PHY93_07460  7 IQRDVLIIDDDKNICEVLREYCHNMGCFKNIVFANDGIMATQKLRNQKFSLILLDM 62
                             56789999***********************************************6 PP

>> Cons_hypoth95  Conserved hypothetical protein 95
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   2.3e-05      0.14      66     120 ..      10      61 ..       5     104 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 2.3e-05
                              EEEEEES-HHHHHHHHHHHCCCT--TTTEEEEES-HHHHCTS--SS-EEEEEEE- CS
            Cons_hypoth95  66 kavlvekdkeavkilkenleelkleeetaelkedaleallklakkkeefdivflD 120
                               +++++ dk+ +++l+e ++++++ +   ++ +d   a +kl  ++++f ++ lD
  PHY93_07460|PHY93_07460  10 DVLIIDDDKNICEVLREYCHNMGCFK-NIVFANDGIMATQKL--RNQKFSLILLD 61 
                              6899*******************996.677777878887777..7889*****99 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (137 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       419  (0.02337); expected 358.6 (0.02)
Passed bias filter:                      353  (0.0196888); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 1024.30
//
Query:       PHY93_07465|PHY93_07465  [L=788]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      2e-41  142.0   2.5    1.2e-38  132.9   0.0    4.1  3  AAA_2            AAA domain (Cdc48 subfamily)
    1.7e-27   95.3   5.1    1.7e-27   95.3   5.1    2.7  2  AAA_lid_9        AAA lid domain
    8.3e-24   84.5   0.2    1.4e-12   48.1   0.0    2.8  2  AAA              ATPase family associated with various cellul
    1.8e-17   63.6   0.1    6.2e-12   45.7   0.0    3.1  2  AAA_5            AAA domain (dynein-related subfamily)
    2.5e-16   59.5   0.6    6.8e-16   58.1   0.0    2.1  1  ClpB_D2-small    C-terminal, D2-small domain, of ClpB protein
    3.3e-12   47.1   2.2    1.3e-05   25.6   0.0    4.0  3  AAA_16           AAA ATPase domain
    3.3e-09   37.1   2.0      0.025   14.9   0.1    5.0  3  AAA_22           AAA domain
    1.8e-08   34.3   0.1    3.6e-06   26.8   0.0    2.7  2  Sigma54_activat  Sigma-54 interaction domain
      4e-08   33.4   2.1      0.011   15.8   0.0    3.9  4  AAA_14           AAA domain
    3.3e-06   26.6   0.1      0.017   14.5   0.0    3.2  3  Mg_chelatase     Magnesium chelatase, subunit ChlI
    5.2e-06   27.0   0.4      0.084   13.4   0.1    3.8  2  AAA_18           AAA domain
    8.8e-06   25.7   0.0     0.0087   16.0   0.0    2.6  2  NACHT            NACHT domain
    1.3e-05   25.2   0.0    3.7e-05   23.7   0.0    1.8  1  Clp_N            Clp amino terminal domain, pathogenicity isl
    0.00013   21.8   0.0       0.13   12.0   0.0    2.6  2  IstB_IS21        IstB-like ATP binding protein
    0.00016   21.1   0.0      0.054   12.9   0.0    3.3  2  TniB             Bacterial TniB protein
    0.00029   20.6   0.0       0.13   11.9   0.0    2.9  2  AAA_30           AAA domain
    0.00031   20.5   0.0       0.12   12.0   0.0    2.8  2  AAA_24           AAA domain
    0.00032   20.7  12.7      0.058   13.3   0.0    5.0  4  ATPase_2         ATPase domain predominantly from Archaea
    0.00033   20.2   0.0       0.27   10.8   0.0    2.6  2  AAA_7            P-loop containing dynein motor region
    0.00042   20.7   0.1        1.1    9.6   0.0    3.1  2  RNA_helicase     RNA helicase
     0.0035   17.3   0.0        1.2    9.2   0.0    2.5  2  TsaE             Threonylcarbamoyl adenosine biosynthesis pro
  ------ inclusion threshold ------
      0.011   15.5   3.0         17    5.1   0.0    3.9  3  RuvB_N           Holliday junction DNA helicase RuvB P-loop d
      0.013   15.4   0.1        4.4    7.2   0.0    3.2  2  Rad17            Rad17 P-loop domain
      0.019   15.2   0.3         12    6.2   0.0    3.3  3  AAA_28           AAA domain
       0.02   15.2   0.3        5.2    7.4   0.5    3.6  2  AAA_19           AAA domain
      0.023   14.6   1.2       0.96    9.3   0.0    2.9  2  RsgA_GTPase      RsgA GTPase
      0.029   14.1   0.2        9.8    6.0   0.0    2.6  2  AAA_29           P-loop containing region of AAA domain
       0.03   13.6   0.1       0.94    8.7   0.0    2.9  3  Zeta_toxin       Zeta toxin
      0.033   13.2   2.5       0.42    9.5   0.0    2.6  2  AAA_6            Hydrolytic ATP binding site of dynein motor 
      0.043   13.6   1.0       0.14   11.9   1.0    1.9  1  UVR              UvrB/uvrC motif
      0.045   13.9   0.0         11    6.2   0.0    2.7  2  AAA_33           AAA domain
      0.049   13.3   0.1        6.1    6.4   0.0    2.7  2  SRP54            SRP54-type protein, GTPase domain
      0.059   13.2   0.1        2.9    7.8   0.0    3.3  2  AAA_3            ATPase family associated with various cellul
      0.071   13.0   0.0        9.9    6.0   0.0    2.9  2  NTPase_1         NTPase
       0.12   12.6   0.0        5.2    7.3   0.0    2.6  2  Roc              Ras of Complex, Roc, domain of DAPkinase
       0.12   12.1   0.6         11    5.7   0.0    3.0  3  ATP_bind_1       Conserved hypothetical ATP binding protein
       0.12   12.8   2.1         21    5.6   0.0    3.5  3  ABC_tran         ABC transporter
       0.28   10.9   2.6        1.9    8.3   0.0    3.4  3  DNA_pol3_delta2  DNA polymerase III, delta subunit
       0.64   10.4   3.2        1.9    8.9   3.2    1.8  1  Tli4_N           Tle cognate immunity protein 4 N-terminal do


Domain annotation for each model (and alignments):
>> AAA_2  AAA domain (Cdc48 subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6   0.0      0.07        32       7      77 ..     175     252 ..     169     268 .. 0.68
   2 ?   -0.9   0.4       3.3   1.5e+03     141     168 ..     441     476 ..     396     478 .. 0.72
   3 !  132.9   0.0   2.6e-41   1.2e-38       1     133 [.     550     678 ..     550     692 .. 0.94

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.07
                              EEE--TTSSHHHHHHHHHHHTT-..........-EEEEEGGG-------THHHHHHHHHTTT-HHHHTTS.EEEEETG CS
                    AAA_2   7 lllgptgvGktelakalaellfv......kkekkliradaselleeeevehlvsrligappgyvgaeegG.ivllDEi 77 
                               l+gp gvGkt + + la+ +         + k +  +d  +l+ + + +   ++ +++    ++a++g  i+++DE+
  PHY93_07465|PHY93_07465 175 VLVGPAGVGKTAIVEGLADAIVKgkvpevLEGKIVYSLDLGSLMAGTKYRGEFEERLQSLLKFIKAQNGQsILFIDEL 252
                              689*********999999988656666655556666777777777666666655555554444433333248888876 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 3.3
                              S........TTTTSGGG--HHHHHHTT--HHHHTT- CS
                    AAA_2 141 k........eeeeekkkeeveeelkkglipEllgRl 168
                              +        ++ +++++ e+ ++lk+  ipEl  Rl
  PHY93_07465|PHY93_07465 441 QlerykfelDQAQRNQDYETASKLKYSVIPELELRL 476
                              033455556777778888888999999999998777 PP

  == domain 3  score: 132.9 bits;  conditional E-value: 2.6e-41
                              -----EEEE--TTSSHHHHHHHHHHHTT-....-EEEEEGGG-------THHHHHHHHHTTT-HHHHTTS............EEEE CS
                    AAA_2   1 rpiisilllgptgvGktelakalaellfvkkekkliradaselleeeevehlvsrligappgyvgaeegG............ivll 74 
                              rp++s+ll gp+gvGkte+akal+e+lf ++e++lir+d se+ e    +h++s+ligap gyvg+eegG            ++l+
  PHY93_07465|PHY93_07465 550 RPLGSFLLKGPSGVGKTETAKALSEFLF-DSEDNLIRFDLSEFSE----KHSISKLIGAPAGYVGYEEGGvlteairrkpyaVILF 630
                              6899************************.****************....************************************* PP

                              ETGGG-------------HHHHHHHHHHHH--EE-------EE-TT-EEEEEE--TTHH CS
                    AAA_2  75 DEidKihpkessgadvSregVqrdLLqileggtltdkqgrkvdtknilfImtgafgssk 133
                              DE++K+h+           +  ++LLqil++g+ltd++gr++d++n+++ +t++ +  +
  PHY93_07465|PHY93_07465 631 DEVEKAHH-----------DFSDILLQILDDGRLTDNKGRTIDFRNTIIMITTNSQNLE 678
                              ********...........***********************************87655 PP

>> AAA_lid_9  AAA lid domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   95.3   5.1   3.8e-30   1.7e-27       1      96 [.     314     409 ..     314     428 .. 0.87
   2 ?    2.2   1.1      0.36   1.7e+02      69     101 ..     433     465 ..     417     467 .. 0.87

  Alignments for each domain:
  == domain 1  score: 95.3 bits;  conditional E-value: 3.8e-30
                AAA_lid_9   1 seeetieiLrglkekyekhHgvkisdealeaavklSkrYisdrflPdkAIDllDeaaarvrlkkeskpeeleklekelaklekeke 86 
                              s+e++ieiL g++ek+e hHg+kisd+a+ +av lS++Yi+d++lPdkAIDl+Dea+++++l+ e+ p++l +le+e+++ +   +
  PHY93_07465|PHY93_07465 314 SKEDAIEILMGIREKMEIHHGIKISDDAIYNAVFLSTQYITDKNLPDKAIDLIDEASSALKLSAEAMPANLVELEAEIRTKKIFAK 399
                              689***************************************************************************99877655 PP

                AAA_lid_9  87 alekeeekek 96 
                              +  k+ e+ek
  PHY93_07465|PHY93_07465 400 SQAKNAETEK 409
                              5544444333 PP

  == domain 2  score: 2.2 bits;  conditional E-value: 0.36
                AAA_lid_9  69 eeleklekelaklekekealekeeekekaerlk 101
                              +++++++++l++ + e +++++++++e a++lk
  PHY93_07465|PHY93_07465 433 KQVTEIKHQLERYKFELDQAQRNQDYETASKLK 465
                              568999*******************99999886 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   48.1   0.0   3.1e-15   1.4e-12       2     109 ..     175     286 ..     174     307 .. 0.78
   2 !   33.5   0.0     1e-10   4.7e-08       2     129 ..     556     694 ..     555     697 .. 0.83

  Alignments for each domain:
  == domain 1  score: 48.1 bits;  conditional E-value: 3.1e-15
                              EEESSTTSSHHHHHHHHHHHH...THE.......EEEEETTTCS..SSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGHHHHHT CS
                      AAA   2 llyGppGtGKTllakavakel...gve.......fleisgsell..skyvgesekkirelfkeakekakpsilfiDEidalaksrs 75 
                              +l+Gp G+GKT++++ +a  +   +v+       ++++++ +l+   ky ge e++++ l+k +k+++++silfiDE+++l+++  
  PHY93_07465|PHY93_07465 175 VLVGPAGVGKTAIVEGLADAIvkgKVPevlegkiVYSLDLGSLMagTKYRGEFEERLQSLLKFIKAQNGQSILFIDELHQLVGAG- 259
                              599*****************7655222344444488999999887677******************9977**************9. PP

                              TCCCHHHHHHHHHHHHHHHHTTTSSSTEEEEEEE CS
                      AAA  76 gseseeeervvnqLlteldgvkkkeskvivigat 109
                                 ++ +++++n L ++l + +       +ig t
  PHY93_07465|PHY93_07465 260 --RTDGAMDAANLLKPALARGDL-----HCIGST 286
                              ..888888899988888877655.....355554 PP

  == domain 2  score: 33.5 bits;  conditional E-value: 1e-10
                              EEESSTTSSHHHHHHHHHHHH...THEEEEEETTTCSSS............STTHHHHHHHHHHHHHHHTSTS.EEEEEETGGGHH CS
                      AAA   2 llyGppGtGKTllakavakel...gvefleisgsellsk............yvgesekkirelfkeakekakp.silfiDEidala 71 
                              ll Gp G+GKT +aka+ + l   + +++++++se+ +k            yvg  e  +   ++ea + + p  ++++DE+++ +
  PHY93_07465|PHY93_07465 556 LLKGPSGVGKTETAKALSEFLfdsEDNLIRFDLSEFSEKhsiskligapagYVGYEEGGV---LTEAIRRK-PyAVILFDEVEKAH 637
                              899****************98665699999999999988999999999999999888865...33333333.669**********8 PP

                              HHHTTCCCHHHHHHHHHHHHHHHHTTTS........SSTEEEEEEESS...GGGSTHHHHSTTSSEEEE CS
                      AAA  72 ksrsgseseeeervvnqLlteldgvkkk........eskvivigatnr...pdkldpallrgRfdrkie 129
                               +             + Ll+ ld+ +           +++i++++tn+   + +++p++l gR+d++++
  PHY93_07465|PHY93_07465 638 HDF-----------SDILLQILDDGRLTdnkgrtidFRNTIIMITTNSqnlEADFKPEVL-GRLDSILN 694
                              888...........9********99999999****9555788888887777888999999.99998875 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.0   4.8e-05     0.022       3      75 ..     175     253 ..     173     305 .. 0.78
   2 !   45.7   0.0   1.3e-14   6.2e-12       2     135 ..     555     686 ..     554     689 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 4.8e-05
                              EEE--SSSSHHHHHHHGGGGB.S--EEEEE--TT--HHHHH--B--...........--------...G-SEEEEESGG CS
                    AAA_5   3 lLvGppGtgKselaerlaaal.nreveyvqltrdtteedlkgrreik..ngttslvdsplvraar...egeilvlDEve 75 
                              +LvGp G+gK+ ++e la a+ + +v +v+  +   + dl   +  +   g+ + + ++l + ++     +il++DE++
  PHY93_07465|PHY93_07465 175 VLVGPAGVGKTAIVEGLADAIvKGKVPEVLEGKIVYSLDLGSLMAGTkyRGEFEERLQSLLKFIKaqnGQSILFIDELH 253
                              79*******************8666666665555544454444443344666666666666666666566677777776 PP

  == domain 2  score: 45.7 bits;  conditional E-value: 1.3e-14
                              EEEE--SSSSHHHHHHHGGGGB...S--EEEEE--TT--HHHHH--B--..........--------..G-SEEEEESGGG--HHH CS
                    AAA_5   2 vlLvGppGtgKselaerlaaal...nreveyvqltrdtteedlkgrreik.ngttslvdsplvraar..egeilvlDEveraesev 81 
                              +lL+Gp+G+gK+e a+ l+++l   ++++    l+++ ++  +   +    +     + ++l++a+r    +++++DEve+a+ + 
  PHY93_07465|PHY93_07465 555 FLLKGPSGVGKTETAKALSEFLfdsEDNLIRFDLSEFSEKHSISKLIGAPaGYVGYEEGGVLTEAIRrkPYAVILFDEVEKAHHDF 640
                              79*********************9999999999999999999988888663445555567888888876678999*********** PP

                              HHHHHHHHHSSEEE..-SSSEEE---......-EEEEEESS--.-TT-TTHHHH CS
                    AAA_5  82 lnsLlslleerrllleeggelvkaknddllerfrviatanpldrslnelspalr 135
                               ++Ll++l++ rl  ++ g+ ++++n      + ++ t+n+++  +++ +p+++
  PHY93_07465|PHY93_07465 641 SDILLQILDDGRLT-DNKGRTIDFRN------TIIMITTNSQN-LEADFKPEVL 686
                              *************9.88888889999......89999999999.6666666655 PP

>> ClpB_D2-small  C-terminal, D2-small domain, of ClpB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.1   0.0   1.5e-18   6.8e-16       1      77 [.     698     774 ..     698     777 .. 0.96

  Alignments for each domain:
  == domain 1  score: 58.1 bits;  conditional E-value: 1.5e-18
                              SCHHHHHHHHHHHHHHHHHHSCTTTEEEEEHHHHHHHHHHHTSBTTTBTCCHHHHHHHHTHHHHHHHHHTTSSSTTS CS
            ClpB_D2-small   1 LtkeelkkIvdlalkklekrlkergvelevtdealdalaekgydpeyGARpLrriiqreiedplaeeilsgelkegd 77 
                              L+++ +k+ ++ ++  l++rl+ +++++ +++ + + +a++gydp++GARpL+++  + i+ pl++++l+gel++g+
  PHY93_07465|PHY93_07465 698 LDQSIMKNLINRQVSMLNQRLEGKNLHIVLDELVYNEIAKRGYDPRFGARPLQSVFGQFITRPLSRKLLAGELQSGE 774
                              788899999***************************************************************99875 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.6   0.0   2.9e-08   1.3e-05       2      52 ..     152     199 ..     151     215 .. 0.82
   2 ?    3.3   0.0      0.21        98     119     147 ..     227     255 ..     211     272 .. 0.79
   3 !   14.8   0.1     6e-05     0.028       7     107 ..     529     673 ..     523     730 .. 0.50

  Alignments for each domain:
  == domain 1  score: 25.6 bits;  conditional E-value: 2.9e-08
                   AAA_16   2 lvGReeeleqLlsalervrsgrpelvllsGesGvGKsslvrellralekdg 52 
                              ++GR +e++++ ++l+r  ++ p   +l+G++GvGK+++v+ l++a+ k +
  PHY93_07465|PHY93_07465 152 VIGRSKEIRAVMEILGRRGKNNP---VLVGPAGVGKTAIVEGLADAIVKGK 199
                              78**************7766655...799***************9998764 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.21
                   AAA_16 119 llellkrllallsrderplvlvlDdlqwa 147
                              + e l++ll++++ +  + +l++D+l+++
  PHY93_07465|PHY93_07465 227 FEERLQSLLKFIKAQNGQSILFIDELHQL 255
                              5677788887777766668********76 PP

  == domain 3  score: 14.8 bits;  conditional E-value: 6e-05
                   AAA_16   7 eeleqLlsalervrsgrp......elvllsGesGvGKsslvrellralekd..ggiflrgkcdqlesa..........ipy..... 69 
                              e l++++++l ++++g +      ++ ll G+sGvGK+  +++l + l ++  +  ++r +  +++++          + y     
  PHY93_07465|PHY93_07465 529 EPLHEIAEVLVTAHAGLSdptrplGSFLLKGPSGVGKTETAKALSEFLFDSedN--LIRFDLSEFSEKhsiskligapAGYvgyee 612
                              5556666666666555555566799*******************9988877441..333333333222223344443311133355 PP

                   AAA_16  70 .salaqalareellrqlldeaesaeleawrekleeala.......................a 107
                                +l++a+ r+ +   l de  ++++ ++++ l++ l                         
  PHY93_07465|PHY93_07465 613 gGVLTEAIRRKPYAVILFDE-VEKAHHDFSDILLQILDdgrltdnkgrtidfrntiimittN 673
                              33466666554444444444.33355555555555444444555555555555555555551 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.1   5.4e-05     0.025       4      88 ..     170     258 ..     168     295 .. 0.71
   2 !   12.2   0.1   0.00037      0.17       6      56 ..     553     597 ..     550     662 .. 0.74
   3 ?    4.6   0.2     0.081        37      38      99 ..     663     729 ..     630     732 .. 0.86

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 5.4e-05
                   AAA_22   4 tagilvvtGesGtGKTtllrrlleqldeeakaee.erpevvfvtlpsstsskdllrellralglelka..erlsseell.ealeqa 85 
                              +++  v++G++G+GKT  ++ l++  ++ + +e  e++ v++ +l s++  ++ + e+ + l++ lk   + + ++ l+ + l+q 
  PHY93_07465|PHY93_07465 170 GKNNPVLVGPAGVGKTAIVEGLADAIVKGKVPEVlEGKIVYSLDLGSLMAGTKYRGEFEERLQSLLKFikAQNGQSILFiDELHQL 255
                              667789*******************9765544447777777888888888888888888888876666654444444444555555 PP

                   AAA_22  86 lra 88 
                              + a
  PHY93_07465|PHY93_07465 256 VGA 258
                              444 PP

  == domain 2  score: 12.2 bits;  conditional E-value: 0.00037
                   AAA_22   6 gilvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsstsskdl 56 
                              g+ ++ G+sG+GKT +++ l e l         ++ +++++l++ ++  ++
  PHY93_07465|PHY93_07465 553 GSFLLKGPSGVGKTETAKALSEFLFD------SEDNLIRFDLSEFSEKHSI 597
                              567899***************99843......3777777777777655554 PP

  == domain 3  score: 4.6 bits;  conditional E-value: 0.081
                   AAA_22  38 erpevvfvtlpsstsskdllrellralglelkaerlsseellealeqalrarav.....ielliiDE 99 
                               r +++ +t +s++  +d+  e+l  l++ l++++l+++ + ++++++++            +++DE
  PHY93_07465|PHY93_07465 663 FRNTIIMITTNSQNLEADFKPEVLGRLDSILNYKPLDQSIMKNLINRQVSMLNQrlegkNLHIVLDE 729
                              56777888999999999********************************999999999999999999 PP

>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.1     0.056        26       2     105 ..     153     255 ..     152     297 .. 0.66
   2 !   26.8   0.0   7.8e-09   3.6e-06      24     150 ..     554     682 ..     533     693 .. 0.81

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.056
                              ---SHHHHHHHHHHHHHCTSSS-EEEECSTTSSHHHHHHHHHHHSTTTTS-EEEEETTTS-TTC.HHHHHHEBS.SSSSTTTSS-B CS
          Sigma54_activat   2 igesealkelleqikkvaktdlsvlitGesGtGKellaraiheaskrkekpfvavncaaipeel.leseLFGhe.kGaFtGAekek 85 
                              ig+s+++++++e + +  k   + +++G  G+GK+ + + + +a  + + p   v  ++i  +l l s + G++ +G F    ++ 
  PHY93_07465|PHY93_07465 153 IGRSKEIRAVMEILGRRGK--NNPVLVGPAGVGKTAIVEGLADAIVKGKVPE--VLEGKIVYSLdLGSLMAGTKyRGEFEERLQSL 234
                              6667777777776666443..3345679999**9999999888777555543..44455544443455555654367777665554 PP

                              EHHHHHTTTS..EEEEETGGGS CS
          Sigma54_activat  86 kGlfekadgG..tlfLDeigel 105
                                +f ka++G  +lf+De+++l
  PHY93_07465|PHY93_07465 235 L-KFIKAQNGqsILFIDELHQL 255
                              4.44444444336888888877 PP

  == domain 2  score: 26.8 bits;  conditional E-value: 7.8e-09
                              -EEEECSTTSSHHHHHHHHHHHSTTTTS-EEEEETTTS-TTCHHHHHHEBSSSSSTTTSS-BE..HHHHHTTTSEEEEETGGGS-H CS
          Sigma54_activat  24 svlitGesGtGKellaraiheaskrkekpfvavncaaipeelleseLFGhekGaFtGAekekk..GlfekadgGtlfLDeigelpl 107
                              s l++G sG+GK+  a+a+ e    +e ++++++ ++++e+   s+L G  +G + G e+      ++++    ++++De+++   
  PHY93_07465|PHY93_07465 554 SFLLKGPSGVGKTETAKALSEFLFDSEDNLIRFDLSEFSEKHSISKLIGAPAG-YVGYEEGGVltEAIRRKPYAVILFDEVEKAHH 638
                              579**********************************************9988.888877554334556666799*********** PP

                              HHHHHHHHHHHHSEEE.SBTSSSEEE--EEEEEEESS-HHHHHH CS
          Sigma54_activat 108 elQekLlrvlqegeve.rvGsskeikvdvriiaatnedleeave 150
                              ++   Ll++l++g+++   G +   + ++ +i++ +++le+ ++
  PHY93_07465|PHY93_07465 639 DFSDILLQILDDGRLTdNKGRTIDFRNTIIMITTNSQNLEADFK 682
                              ************98761345555666666666666677766554 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.7   0.0    0.0001     0.047       6      77 ..     175     262 ..     171     300 .. 0.65
   2 ?   -0.9   1.1       3.5   1.6e+03      46     101 ..     408     463 ..     382     471 .. 0.58
   3 !   15.8   0.0   2.3e-05     0.011       6     118 ..     556     690 ..     553     701 .. 0.61
   4 ?   -1.6   0.0       5.5   2.5e+03      52      73 ..     710     730 ..     667     734 .. 0.60

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 0.0001
                   AAA_14   6 vitGaRrvGKTtllkqlikell......vkkesilyinldderd...kkla.dpekllelileklke.ekktylflDEiqev.... 76 
                              v++G+  vGKT +++ l++         v + +i+y +ld  ++   +k++ ++e+ l+ +l+ +k+ +++++lf+DE +++    
  PHY93_07465|PHY93_07465 175 VLVGPAGVGKTAIVEGLADAIVkgkvpeVLEGKIVY-SLDLGSLmagTKYRgEFEERLQSLLKFIKAqNGQSILFIDELHQLvgag 259
                              789**************9877798888655555555.5666555445333334444445555543224799********9995555 PP

                   AAA_14  77 ..p 77 
                                +
  PHY93_07465|PHY93_07465 260 rtD 262
                              552 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 3.5
                   AAA_14  46 ladpekllelileklkeekktylflDEiqevpewekalkslvdegknldvivtGSn 101
                              ++d ++l++ ++e+ ++ +k++l l  + e+++  +  k  +d+ ++ + + t S+
  PHY93_07465|PHY93_07465 408 EKDITELENKFKEEKEKWDKNVLALKQVTEIKHQLERYKFELDQAQRNQDYETASK 463
                              22333555666665444566666666666666666666666666555555555555 PP

  == domain 3  score: 15.8 bits;  conditional E-value: 2.3e-05
                   AAA_14   6 vitGaRrvGKTtllkqlikellvkkesilyinldderdkkladpe..........kllelileklke.........ekktylflDE 72 
                              +++G+  vGKT  +k l + l+ ++++ + ++l + ++k +  ++                 e   +         +   ++++DE
  PHY93_07465|PHY93_07465 556 LLKGPSGVGKTETAKALSEFLFDSEDNLIRFDLSEFSEKHSI-SKligapagyvgY-----EE---GgvlteairrKPYAVILFDE 632
                              799**********99998666688899999999998885433.2223334333331.....22...1222235532334459**** PP

                   AAA_14  73 iqev.pewekalkslvd.......egknl.......dvivtGSnskllskeiatslagrva 118
                              + ++  +++++l +++d       +   +        +i+   ns++l  + + ++ gr +
  PHY93_07465|PHY93_07465 633 VEKAhHDFSDILLQILDdgrltdnK---GrtidfrnTIIMITTNSQNLEADFKPEVLGRLD 690
                              *99845799******9933333321...122222225555556666666666666666655 PP

  == domain 4  score: -1.6 bits;  conditional E-value: 5.5
                   AAA_14  52 llelileklkeekktylflDEi 73 
                                +++ ++l++ k+  ++lDE 
  PHY93_07465|PHY93_07465 710 QVSMLNQRLEG-KNLHIVLDEL 730
                              22233333444.6666999985 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.5   0.0   3.7e-05     0.017       4      65 ..     151     214 ..     148     234 .. 0.81
   2 !    7.9   0.0     0.004       1.8      25      52 ..     555     582 ..     552     608 .. 0.75
   3 ?   -0.9   0.0       1.9   8.6e+02     107     153 ..     625     670 ..     595     676 .. 0.78

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 3.7e-05
             Mg_chelatase   4 dvkGqeeakra.lei.aaaGgHnlllvGppGsGKtmlakrlpsllpplseeealevakiasvag 65 
                               v+G+++  ra +ei    G+ n +lvGp+G GKt + + l+  + + +  e+le + ++s+  
  PHY93_07465|PHY93_07465 151 PVIGRSKEIRAvMEIlGRRGKNNPVLVGPAGVGKTAIVEGLADAIVKGKVPEVLEGKIVYSLDL 214
                              6788877766625652678************************************999999865 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.004
             Mg_chelatase  25 lllvGppGsGKtmlakrlpsllpplsee 52 
                              +ll Gp+G GKt  ak+l++ l + +++
  PHY93_07465|PHY93_07465 555 FLLKGPSGVGKTETAKALSEFLFDSEDN 582
                              79******************99876654 PP

  == domain 3  score: -0.9 bits;  conditional E-value: 1.9
             Mg_chelatase 107 nGvLfLDElpefkrkvlevLRePledgevtisrakakvefparfqlv 153
                                v+++DE+ + +++  ++L + l+dg++t ++  ++++f  ++ ++
  PHY93_07465|PHY93_07465 625 YAVILFDEVEKAHHDFSDILLQILDDGRLTDNKG-RTIDFRNTIIMI 670
                              579999********************99985554.567776666665 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.1   0.0    0.0038       1.8       3      67 ..     176     241 ..     175     261 .. 0.56
   2 !   13.4   0.1   0.00018     0.084       3      25 ..     557     585 ..     556     739 .. 0.80

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.0038
                   AAA_18   3 ltGtpGvGKttlakeLskrlgfgvnlrdvakenglllevdpe...aldeskrldedkldklldaleen 67 
                              l G++GvGKt + + L++    +      + e+ ++++ d     a  +++ + e++l++ll+ ++++
  PHY93_07465|PHY93_07465 176 LVGPAGVGKTAIVEGLADAI--VKGKVPEVLEGKIVYSLDLGslmAGTKYRGEFEERLQSLLKFIKAQ 241
                              89**************9985..3333333333333333333323333344555555555555555554 PP

  == domain 2  score: 13.4 bits;  conditional E-value: 0.00018
                   AAA_18   3 ltGtpGvGKttlakeLskrl.gf.....g 25 
                              l G++GvGKt+ ak+Ls+ l  +      
  PHY93_07465|PHY93_07465 557 LKGPSGVGKTETAKALSEFLfDSednliR 585
                              78**************9976333444440 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.0   1.9e-05    0.0087       4      47 ..     175     219 ..     174     272 .. 0.82
   2 ?    7.0   0.0     0.011       4.9       4      99 ..     556     642 ..     554     711 .. 0.83

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 1.9e-05
                              EEEC-TTTCHHHHHHHHHHHHCTS-SCCCC.-SEEEEEETTTTTT CS
                    NACHT   4 ilqGeaGsGKTtLlqklalawaegklpqga.fklvFflslrelsr 47 
                              +l G+aG+GKT+ +++la+a+ +gk p++   k v+ l l++l  
  PHY93_07465|PHY93_07465 175 VLVGPAGVGKTAIVEGLADAIVKGKVPEVLeGKIVYSLDLGSLMA 219
                              689***********************9987788888887777655 PP

  == domain 2  score: 7.0 bits;  conditional E-value: 0.011
                              EEEC-TTTCHHHHHHHHHHHHCTS-SCCCC-SEEEEEETTTTTTS-...-HCHHHCCCCTS--SSS-CCHHHHCCSCCCEEEEEE- CS
                    NACHT   4 ilqGeaGsGKTtLlqklalawaegklpqgafklvFflslrelsrsgnarsladllfsqlpepaapvsevwavllelperlLlilDg 89 
                              +l+G++G+GKT  ++ l + + +++++       + + l+e+s++    s+ +l+ ++    + +   v ++ ++++  +++++D 
  PHY93_07465|PHY93_07465 556 LLKGPSGVGKTETAKALSEFLFDSEDNL------IRFDLSEFSEKH---SISKLIGAPAGYVGYEEGGVLTEAIRRKPYAVILFDE 632
                              799***************9999999555......668888998885...8899999999988888888888999999999999999 PP

                              STT-SS-TCH CS
                    NACHT  90 lDelvtdlgq 99 
                              +++++ d++ 
  PHY93_07465|PHY93_07465 633 VEKAHHDFSD 642
                              9888888776 PP

>> Clp_N  Clp amino terminal domain, pathogenicity island component
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.7   0.0   8.2e-08   3.7e-05       1      46 [.      15      60 ..      15      66 .. 0.93

  Alignments for each domain:
  == domain 1  score: 23.7 bits;  conditional E-value: 8.2e-08
                             HHHHHHHTTCSSB-HHHHHHHHHHSCTSHHHHHHHHTTSSHHHHHH CS
                    Clp_N  1 AqelAkslghqyistEHLLlALleeddGlaarlLkkaGvdldalrk 46
                             Aq +A++++h++i +EHL  +L+++++   +r+Lkk   dl +l +
  PHY93_07465|PHY93_07465 15 AQGEALKRKHSEIFPEHLIYGLINNPQTYSSRALKKYSKDLTKLMD 60
                             899**********************************999999876 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.0   0.0   0.00028      0.13      46     108 ..     170     236 ..     154     256 .. 0.73
   2 ?    6.8   0.0     0.011         5      50      69 ..     555     574 ..     549     590 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00028
                IstB_IS21  46 kkenivllGpsGvGKshlaialgveavr.aglsvl...fvrvedLveelkrarrdgklaralkrllk 108
                               k+n vl+Gp+GvGK+ +   l+ + v+ +  +vl    v   dL + ++  +  g+++++l++llk
  PHY93_07465|PHY93_07465 170 GKNNPVLVGPAGVGKTAIVEGLADAIVKgKVPEVLegkIVYSLDLGSLMAGTKYRGEFEERLQSLLK 236
                              57899************99999988877322334311134445777777777777777777777766 PP

  == domain 2  score: 6.8 bits;  conditional E-value: 0.011
                IstB_IS21  50 ivllGpsGvGKshlaialgv 69 
                              ++l GpsGvGK+  a al+ 
  PHY93_07465|PHY93_07465 555 FLLKGPSGVGKTETAKALSE 574
                              7899*************976 PP

>> TniB  Bacterial TniB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.9   0.0   0.00012     0.054      36     184 ..     172     310 ..     155     314 .. 0.78
   2 ?   -0.1   0.0       1.2   5.3e+02      36      53 ..     553     570 ..     532     578 .. 0.80

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 0.00012
                     TniB  36 pnlllvGdsnnGKtmivekFarlhppekdedaekvpvlvvqappkpdekrlyaaiLealgaplkararvskleqqvlrllrelk.v 120
                              +n +lvG+  +GKt+ive  a+              ++  ++p+  + k  y+  L +l+a +k r + ++  q  l+++++ +  
  PHY93_07465|PHY93_07465 172 NNPVLVGPAGVGKTAIVEGLADA-------------IVKGKVPEVLEGKIVYSLDLGSLMAGTKYRGEFEERLQSLLKFIKAQNgQ 244
                              55666666666666666655543.............4555677778888889999999************9999999999976527 PP

                     TniB 121 rvLiiDEihnll.agsarkqreflnalksLgnelkipivlvGteeal.ralrtDpqlasRFepial 184
                               +L iDE+h+l+ ag+ +    + n+lk    + ++  ++  t e + + + +D+ l +RF+++ +
  PHY93_07465|PHY93_07465 245 SILFIDELHQLVgAGRTDGAMDAANLLKPALARGDLHCIGSTTPEEYqKYILSDAALDRRFRNVPV 310
                              79********9857888889999*****9999999999999997665268999*******998766 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 1.2
                     TniB  36 pnlllvGdsnnGKtmive 53 
                               + ll G+s +GKt  ++
  PHY93_07465|PHY93_07465 553 GSFLLKGPSGVGKTETAK 570
                              6889**********9876 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.9   0.0   0.00029      0.13      17      44 ..     170     197 ..     156     270 .. 0.86
   2 ?    5.5   0.0     0.027        12      22      45 ..     556     579 ..     551     651 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00029
                   AAA_30  17 gdrvavltGpAGtGKttalkalreawea 44 
                              g+   vl+GpAG GKt ++++l++a+ +
  PHY93_07465|PHY93_07465 170 GKNNPVLVGPAGVGKTAIVEGLADAIVK 197
                              455679****************988765 PP

  == domain 2  score: 5.5 bits;  conditional E-value: 0.027
                   AAA_30  22 vltGpAGtGKttalkalreaweaa 45 
                              +l+Gp G GKt + kal e + ++
  PHY93_07465|PHY93_07465 556 LLKGPSGVGKTETAKALSEFLFDS 579
                              689**************9987655 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.2   0.0     0.034        16       6      23 ..     175     197 ..     171     258 .. 0.57
   2 !   12.0   0.0   0.00027      0.12       5      78 ..     555     637 ..     554     659 .. 0.79

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.034
                   AAA_24   6 liyGpsgiGKTtlakel.....g 23 
                              +++Gp+g+GKT ++  l     +
  PHY93_07465|PHY93_07465 175 VLVGPAGVGKTAIVEGLadaivK 197
                              89**********99988444441 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 0.00027
                   AAA_24   5 iliyGpsgiGKTtlakelgpkplfidtekGlksldadkfpdieswedfldevvel...........aaeladyktlviDtidele 78 
                              +l+ Gpsg+GKT +ak l  ++l +d e+ l + d  +f + +s+ +++ + +             a   ++y ++ +D ++++ 
  PHY93_07465|PHY93_07465 555 FLLKGPSGVGKTETAKAL-SEFL-FDSEDNLIRFDLSEFSEKHSISKLIGAPAGYvgyeeggvlteAIRRKPYAVILFDEVEKAH 637
                              5788**************.6655.6888878888888888777777777776666788888888887788888899999888875 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.0   0.00013     0.058       4      39 ..     155     190 ..     153     204 .. 0.88
   2 !    9.1   0.0    0.0025       1.1     101     203 ..     226     324 ..     196     346 .. 0.66
   3 ?   -2.6   4.2       9.2   4.2e+03      85     136 ..     392     443 ..     352     470 .. 0.61
   4 ?    1.9   0.2      0.39   1.8e+02     115     131 ..     621     637 ..     554     730 .. 0.62

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 0.00013
                 ATPase_2   4 RekelkeleeilerepneiyfiYGpegsGKtaLlke 39 
                              R ke++ + eil r  ++  ++ Gp g+GKta++  
  PHY93_07465|PHY93_07465 155 RSKEIRAVMEILGRRGKNNPVLVGPAGVGKTAIVEG 190
                              99**********99888888889*********9865 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.0025
                 ATPase_2 101 lvfkaielllekikkkgkkiiiiiDelqklidlglngaellvkeLlnliesltkekhlcvviclsSeglfiervyneselegrhky 186
                              + ++ +++ll+ ik +  + i++iDel +l+  g    ++   + +nl++  +++ +l ++i ++      +++ + + l  r + 
  PHY93_07465|PHY93_07465 226 EFEERLQSLLKFIKAQNGQSILFIDELHQLVGAG---RTDGAMDAANLLKPALARGDL-HCIGSTTPEEYQKYILSDAALDRRFRN 307
                              567899*************************443...233333444555444444443.444444444445556666666666666 PP

                 ATPase_2 187 ilvddldketalnflke 203
                              + vd   ke a ++l+ 
  PHY93_07465|PHY93_07465 308 VPVDEPSKEDAIEILMG 324
                              66666666666666655 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 9.2
                 ATPase_2  85 avpkaeleeilkeksklvfkaielllekikkkgkk...iiiiiDelqklidlgln 136
                              +++k  +   ++ k+++ +k i++l +k k+++ k    ++ +  + +++  +l+
  PHY93_07465|PHY93_07465 392 RTKKIFA--KSQAKNAETEKDITELENKFKEEKEKwdkNVLALKQVTEIK-HQLE 443
                              2333222..33377778888888888888888887666666666666666.4444 PP

  == domain 4  score: 1.9 bits;  conditional E-value: 0.39
                 ATPase_2 115 kkgkkiiiiiDelqkli 131
                              +++   +i++De+ k+ 
  PHY93_07465|PHY93_07465 621 RRKPYAVILFDEVEKAH 637
                              33333677777777776 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.8   0.0   0.00058      0.27      33      58 ..     171     196 ..     155     258 .. 0.73
   2 ?    6.7   0.0      0.01       4.8      36      82 ..     555     601 ..     551     605 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00058
                    AAA_7  33 kkpvllvGptGtGKtviikdllkkld 58 
                              k++ +lvGp+G+GKt+i++ l +++ 
  PHY93_07465|PHY93_07465 171 KNNPVLVGPAGVGKTAIVEGLADAIV 196
                              456789************99877665 PP

  == domain 2  score: 6.7 bits;  conditional E-value: 0.01
                    AAA_7  36 vllvGptGtGKtviikdllkkldkekylsltinfsaqtsanqlqdii 82 
                              +ll Gp+G+GKt ++k l + l +++ + + + +s   + +++ ++i
  PHY93_07465|PHY93_07465 555 FLLKGPSGVGKTETAKALSEFLFDSEDNLIRFDLSEFSEKHSISKLI 601
                              799*************9999888788777888877777777766665 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.6   0.0    0.0025       1.1       2      26 ..     175     199 ..     175     265 .. 0.71
   2 ?    7.5   0.0     0.012       5.4       2      23 ..     556     577 ..     555     597 .. 0.83

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.0025
             RNA_helicase   2 wlyGpsgeGKStlakeLakallkkl 26 
                              +l+Gp+g+GK+ +++ La+a+ k  
  PHY93_07465|PHY93_07465 175 VLVGPAGVGKTAIVEGLADAIVKGK 199
                              589*****************99644 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.012
             RNA_helicase   2 wlyGpsgeGKStlakeLakall 23 
                              +l Gpsg+GK+ +ak L++ l 
  PHY93_07465|PHY93_07465 556 LLKGPSGVGKTETAKALSEFLF 577
                              589*************876554 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.2   0.0    0.0026       1.2       6      43 ..     158     195 ..     154     203 .. 0.78
   2 ?    5.4   0.0     0.038        18      21      42 ..     548     575 ..     527     582 .. 0.69

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.0026
                              HHHHHHHHHHHCHTEEEEEEESTTSSHHHHHHHHHHHT CS
                     TsaE   6 etealgkklakalgdvilLeGdLGaGKTtlvrglakal 43 
                              e++a+ + l++  ++  +L G+ G+GKT++v gla a+
  PHY93_07465|PHY93_07465 158 EIRAVMEILGRRGKNNPVLVGPAGVGKTAIVEGLADAI 195
                              566666667665577789****************9987 PP

  == domain 2  score: 5.4 bits;  conditional E-value: 0.038
                              E......EEEEESTTSSHHHHHHHHHHH CS
                     TsaE  21 v......ilLeGdLGaGKTtlvrglaka 42 
                                     +lL+G+ G+GKT  +++l + 
  PHY93_07465|PHY93_07465 548 PtrplgsFLLKGPSGVGKTETAKALSEF 575
                              144455599************9998765 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.1   0.5     0.038        17      71      96 ..     230     255 ..     155     261 .. 0.72
   2 ?    5.1   0.0     0.037        17      30      54 ..     549     573 ..     524     579 .. 0.76
   3 ?   -1.8   0.0       5.1   2.3e+03      84     113 ..     624     653 ..     613     670 .. 0.85

  Alignments for each domain:
  == domain 1  score: 5.1 bits;  conditional E-value: 0.038
                   RuvB_N  71 kagdlaalltnleekdvlfideihrl 96 
                              + + l  +++  + + +lfide+h+l
  PHY93_07465|PHY93_07465 230 RLQSLLKFIKAQNGQSILFIDELHQL 255
                              44444455555566778888888887 PP

  == domain 2  score: 5.1 bits;  conditional E-value: 0.037
                   RuvB_N  30 eealdhvllyGpPGlGkttlakiia 54 
                              +++l   ll Gp G+Gkt  ak ++
  PHY93_07465|PHY93_07465 549 TRPLGSFLLKGPSGVGKTETAKALS 573
                              5677889***********9998876 PP

  == domain 3  score: -1.8 bits;  conditional E-value: 5.1
                   RuvB_N  84 ekdvlfideihrlsraveevlysamedfrl 113
                              +  v++ de+ + ++   ++l + ++d rl
  PHY93_07465|PHY93_07465 624 PYAVILFDEVEKAHHDFSDILLQILDDGRL 653
                              5678999**************999999876 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   0.0     0.071        33      39      70 ..     165     196 ..     155     237 .. 0.80
   2 ?    7.2   0.0    0.0096       4.4      47      69 ..     554     576 ..     531     596 .. 0.80

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.071
                    Rad17  39 vLesrkkriLLisGPsGCgkstvvkvLskelg 70 
                              +L +r k+  ++ GP+G gk+ +v+ L+   +
  PHY93_07465|PHY93_07465 165 ILGRRGKNNPVLVGPAGVGKTAIVEGLADAIV 196
                              5667777777899************9997655 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.0096
                    Rad17  47 iLLisGPsGCgkstvvkvLskel 69 
                                L+ GPsG gk+ + k Ls  l
  PHY93_07465|PHY93_07465 554 SFLLKGPSGVGKTETAKALSEFL 576
                              5799***************9765 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.2   0.0     0.025        12       3      22 ..     175     194 ..     173     250 .. 0.85
   2 ?   -0.1   0.1       2.1   9.5e+02      99     137 ..     413     455 ..     347     469 .. 0.71
   3 ?    4.7   0.0     0.072        33       3      21 ..     556     574 ..     554     582 .. 0.89

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.025
                   AAA_28   3 vitGgestGKTtlleaLaar 22 
                              v++G+ + GKT ++e La+ 
  PHY93_07465|PHY93_07465 175 VLVGPAGVGKTAIVEGLADA 194
                              89****************76 PP

  == domain 2  score: -0.1 bits;  conditional E-value: 2.1
                   AAA_28  99 elea..aarekrydl.vfllppapeidddgeRre.dleereai 137
                              ele+  +++++++d+ v+ l+ + ei+   eR + +l+++++ 
  PHY93_07465|PHY93_07465 413 ELENkfKEEKEKWDKnVLALKQVTEIKHQLERYKfELDQAQRN 455
                              3444555567779998999999999977777754366666654 PP

  == domain 3  score: 4.7 bits;  conditional E-value: 0.072
                   AAA_28   3 vitGgestGKTtlleaLaa 21 
                               + G+++ GKT +++aL++
  PHY93_07465|PHY93_07465 556 LLKGPSGVGKTETAKALSE 574
                              577**************96 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.4   0.5     0.011       5.2      11      39 ..     172     200 ..     163     380 .. 0.77
   2 ?    3.1   0.0      0.24   1.1e+02      13      36 ..     555     578 ..     548     588 .. 0.82

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.011
                   AAA_19  11 kvllvtaGpGtGKTrvlkhivallvelgg 39 
                              ++ ++++++G GKT ++++    +v+ + 
  PHY93_07465|PHY93_07465 172 NNPVLVGPAGVGKTAIVEGLADAIVKGKV 200
                              556789************99998888763 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.24
                   AAA_19  13 llvtaGpGtGKTrvlkhivallve 36 
                              +l+ ++ G GKT++ k+  + l +
  PHY93_07465|PHY93_07465 555 FLLKGPSGVGKTETAKALSEFLFD 578
                              789999********9988777665 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.3   0.0    0.0021      0.96      89     122 ..     161     194 ..     128     207 .. 0.74
   2 ?    2.8   0.0      0.22     1e+02     103     119 ..     556     572 ..     540     585 .. 0.84

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.0021
                              THHHHHHHCTTSEEEEECSTTSSHHHHHHHHCTT CS
              RsgA_GTPase  89 gleelkellkdktsvlvGqSGvGKStLinallpe 122
                              ++ e+  +  ++  vlvG+ GvGK+++++ l+  
  PHY93_07465|PHY93_07465 161 AVMEILGRRGKNNPVLVGPAGVGKTAIVEGLADA 194
                              444444455557789*************999875 PP

  == domain 2  score: 2.8 bits;  conditional E-value: 0.22
                              EEECSTTSSHHHHHHHH CS
              RsgA_GTPase 103 vlvGqSGvGKStLinal 119
                              +l G+SGvGK+   +al
  PHY93_07465|PHY93_07465 556 LLKGPSGVGKTETAKAL 572
                              688*******9766655 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.0     0.021       9.8      24      43 ..     173     192 ..     164     200 .. 0.79
   2 ?    5.2   0.0     0.037        17      21      36 ..     551     566 ..     542     580 .. 0.83

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.021
                   AAA_29  24 atlltGpsGsGKSTllDAiq 43 
                              + +l+Gp G+GK++++  ++
  PHY93_07465|PHY93_07465 173 NPVLVGPAGVGKTAIVEGLA 192
                              6789***********97665 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.037
                   AAA_29  21 lkgatlltGpsGsGKS 36 
                              + g++ll GpsG+GK+
  PHY93_07465|PHY93_07465 551 PLGSFLLKGPSGVGKT 566
                              45789**********7 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0       1.6   7.2e+02      77     103 ..      77     103 ..      62     110 .. 0.88
   2 ?    0.2   0.0      0.85   3.9e+02      20      40 ..     175     195 ..     168     202 .. 0.85
   3 ?    8.7   0.0    0.0021      0.94      19      58 ..     555     595 ..     540     622 .. 0.88

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 1.6
               Zeta_toxin  77 qkdaselvekllqeaiengyniivegt 103
                              ++  se+ + +   ai+ng n i e+ 
  PHY93_07465|PHY93_07465  77 SSKLSEWLTYASSNAIQNGKNEIAETD 103
                              567899***************999985 PP

  == domain 2  score: 0.2 bits;  conditional E-value: 0.85
               Zeta_toxin  20 llgGqpGAGKselaellkdel 40 
                              +l+G  G GK+++ e l+d++
  PHY93_07465|PHY93_07465 175 VLVGPAGVGKTAIVEGLADAI 195
                              68899**********999887 PP

  == domain 3  score: 8.7 bits;  conditional E-value: 0.0021
               Zeta_toxin  19 illgGqpGAGKselaellkdele.rqgnvvrldpDdlRelh 58 
                               ll G +G GK+e+a++l + l  +++n +r+d  ++ e h
  PHY93_07465|PHY93_07465 555 FLLKGPSGVGKTETAKALSEFLFdSEDNLIRFDLSEFSEKH 595
                              688999**************99989********99998877 PP

>> AAA_6  Hydrolytic ATP binding site of dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.0   0.1     0.089        41      37      58 ..     176     197 ..     168     222 .. 0.88
   2 ?    9.5   0.0   0.00091      0.42      37      56 ..     557     576 ..     551     601 .. 0.87

  Alignments for each domain:
  == domain 1  score: 3.0 bits;  conditional E-value: 0.089
                    AAA_6  37 paGpagtGKtEtvkdLakalak 58 
                              + Gpag GKt  v  La a+ k
  PHY93_07465|PHY93_07465 176 LVGPAGVGKTAIVEGLADAIVK 197
                              67**************999865 PP

  == domain 2  score: 9.5 bits;  conditional E-value: 0.00091
                    AAA_6  37 paGpagtGKtEtvkdLakal 56 
                              ++Gp+g GKtEt k L++ l
  PHY93_07465|PHY93_07465 557 LKGPSGVGKTETAKALSEFL 576
                              58**************9866 PP

>> UVR  UvrB/uvrC motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   1.0   0.00032      0.14       3      27 ..     441     465 ..     439     465 .. 0.92

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00032
                      UVR   3 likeLeeemeeAaenedFEkAAklR 27 
                              ++++++ e+++A +n+d+E A+kl+
  PHY93_07465|PHY93_07465 441 QLERYKFELDQAQRNQDYETASKLK 465
                              589999*****************96 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.2   0.0     0.023        11       3      21 ..     175     193 ..     175     209 .. 0.90
   2 ?    4.6   0.0     0.074        34       3      20 ..     556     573 ..     555     604 .. 0.84

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.023
                   AAA_33   3 llvGlpGsGKstlaerllk 21 
                              +lvG++G+GK+  +e+l+ 
  PHY93_07465|PHY93_07465 175 VLVGPAGVGKTAIVEGLAD 193
                              589************9985 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.074
                   AAA_33   3 llvGlpGsGKstlaerll 20 
                              ll G++G+GK+  a+ l 
  PHY93_07465|PHY93_07465 556 LLKGPSGVGKTETAKALS 573
                              678**********99886 PP

>> SRP54  SRP54-type protein, GTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.4   0.0     0.013       6.1       5      27 ..     175     197 ..     171     205 .. 0.85
   2 ?    3.8   0.0     0.085        39       4      26 ..     555     577 ..     553     585 .. 0.83

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.013
                              EEEESTTSSHHHHHHHHHHHHHH CS
                    SRP54   5 llvGlqGaGKTttlaKLaallkk 27 
                              +lvG+ G+GKT  +  La+ + k
  PHY93_07465|PHY93_07465 175 VLVGPAGVGKTAIVEGLADAIVK 197
                              79***************998876 PP

  == domain 2  score: 3.8 bits;  conditional E-value: 0.085
                              EEEEESTTSSHHHHHHHHHHHHH CS
                    SRP54   4 illvGlqGaGKTttlaKLaallk 26 
                              +ll G+ G+GKT t+  L++ l 
  PHY93_07465|PHY93_07465 555 FLLKGPSGVGKTETAKALSEFLF 577
                              6899**********999988765 PP

>> AAA_3  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.0       1.1     5e+02       4      23 ..     176     195 ..     174     202 .. 0.85
   2 ?    7.8   0.0    0.0063       2.9       3     112 ..     556     674 ..     554     685 .. 0.70

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 1.1
                    AAA_3   4 legvPGlaktllvkalakal 23 
                              l g  G++kt +v+ la+a+
  PHY93_07465|PHY93_07465 176 LVGPAGVGKTAIVEGLADAI 195
                              56778************986 PP

  == domain 2  score: 7.8 bits;  conditional E-value: 0.0063
                    AAA_3   3 llegvPGlaktllvkalakal.dlefkriqftpdllPsdilGtevfeekekefefkkGpvfan........llladeinrappktq 79 
                              ll+g  G++kt ++kal++ l d e + i+f    +      ++++ + +  + +++G v+++        ++l de+++a     
  PHY93_07465|PHY93_07465 556 LLKGPSGVGKTETAKALSEFLfDSEDNLIRFDLSEFSEKHSISKLIGAPAGYVGYEEGGVLTEairrkpyaVILFDEVEKAHHDFS 641
                              788889999999999999875366677777766666655555666666667777777777664333333338999*********** PP

                    AAA_3  80 salleameerqvtv.egethklpepflvlatqnP 112
                                ll+++++ ++t  +g+t ++ ++ ++++t n 
  PHY93_07465|PHY93_07465 642 DILLQILDDGRLTDnKGRTIDFRNTIIMITT-NS 674
                              ********99999614677777777666655.44 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.0     0.022       9.9       4      26 ..     176     198 ..     173     252 .. 0.90
   2 ?    3.7   0.0      0.11        51       2      24 ..     555     577 ..     554     592 .. 0.86

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.022
                              EE--TTSSHHHHHHHHHHHH... CS
                 NTPase_1   4 iTGppGvGKtTlvkkvlellkss 26 
                              + Gp GvGKt +v+ +++++ + 
  PHY93_07465|PHY93_07465 176 LVGPAGVGKTAIVEGLADAIVKG 198
                              78*************99998654 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.11
                              EEEE--TTSSHHHHHHHHHHHH. CS
                 NTPase_1   2 vfiTGppGvGKtTlvkkvlellk 24 
                              +++ Gp+GvGKt   k ++e l 
  PHY93_07465|PHY93_07465 555 FLLKGPSGVGKTETAKALSEFLF 577
                              6789*********9999998875 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.3   0.0     0.011       5.2       3      23 ..     175     195 ..     174     209 .. 0.84
   2 ?    2.1   0.0      0.45   2.1e+02       4      27 ..     557     580 ..     555     597 .. 0.81

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.011
                              EEESSTTSSHHHHHHCHCT-C CS
                      Roc   3 vlvGdsgvGKtsllkrfvedk 23 
                              vlvG +gvGKt +++ + +  
  PHY93_07465|PHY93_07465 175 VLVGPAGVGKTAIVEGLADAI 195
                              79************9887655 PP

  == domain 2  score: 2.1 bits;  conditional E-value: 0.45
                              EESSTTSSHHHHHHCHCT-CCC-E CS
                      Roc   4 lvGdsgvGKtsllkrfvedkfsek 27 
                              l G sgvGKt  +k + e  f+++
  PHY93_07465|PHY93_07465 557 LKGPSGVGKTETAKALSEFLFDSE 580
                              669********9999988777655 PP

>> ATP_bind_1  Conserved hypothetical ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   0.0     0.024        11       2      20 ..     177     195 ..     176     203 .. 0.85
   2 ?   -1.4   0.2       3.6   1.6e+03     128     204 ..     352     432 ..     340     461 .. 0.51
   3 ?    3.1   0.0      0.15        70       3      23 ..     559     579 ..     557     588 .. 0.87

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.024
               ATP_bind_1   2 vGpaGsGKttfvgalseil 20 
                              vGpaG+GKt +v+ l++ +
  PHY93_07465|PHY93_07465 177 VGPAGVGKTAIVEGLADAI 195
                              8***********9998765 PP

  == domain 2  score: -1.4 bits;  conditional E-value: 3.6
               ATP_bind_1 128 yLvDsqrltdptkfisgllsalsamlrlelPhvvvlnkfDllkek.....lekeleffedvealslllekeeekykklaeai 204
                              y+ D +  ++++++i+++ sal+  +++ +P   v  ++++  +k     + k+ e  +d+ +l++  ++e+ek  k+  a+
  PHY93_07465|PHY93_07465 352 YITDKNLPDKAIDLIDEASSALKLSAEA-MPANLVELEAEIRTKKifaksQAKNAETEKDITELENKFKEEKEKWDKNVLAL 432
                              6666666677777777766666655443.33333333444433334422233333333333344443333334433333333 PP

  == domain 3  score: 3.1 bits;  conditional E-value: 0.15
               ATP_bind_1   3 GpaGsGKttfvgalseilelr 23 
                              Gp G+GKt   +alse+l ++
  PHY93_07465|PHY93_07465 559 GPSGVGKTETAKALSEFLFDS 579
                              9***************99876 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   0.0      0.11        52      15      33 ..     175     193 ..     169     241 .. 0.84
   2 ?   -1.0   0.4       5.1   2.3e+03      51      77 ..     413     445 ..     386     479 .. 0.60
   3 ?    5.6   0.0     0.046        21      16      41 ..     557     582 ..     553     639 .. 0.82

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.11
                              EEEESTTSSHHHHHHHHTT CS
                              xxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  15 aivGenGaGKStLlkllag 33 
                              ++vG+ G GK+ +++ la 
  PHY93_07465|PHY93_07465 175 VLVGPAGVGKTAIVEGLAD 193
                              69**********9987765 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 5.1
                              G......B-HHHCCHCEEEE-SS--S-TTSBHH CS
                              x......xxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  51 e......qeleslrkeigvlpqepqlfpeltvr 77 
                              e      +e+e+++k++  l+q ++++ +l+ +
  PHY93_07465|PHY93_07465 413 ElenkfkEEKEKWDKNVLALKQVTEIKHQLERY 445
                              122233346777777777777776666666433 PP

  == domain 3  score: 5.6 bits;  conditional E-value: 0.046
                              EEESTTSSHHHHHHHHTTSS--SEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  16 ivGenGaGKStLlkllagllkpteGe 41 
                              + G++G GK+  +k+l++ l + e++
  PHY93_07465|PHY93_07465 557 LKGPSGVGKTETAKALSEFLFDSEDN 582
                              67**************9987665554 PP

>> DNA_pol3_delta2  DNA polymerase III, delta subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.4       3.3   1.5e+03      81      94 ..     404     441 ..     315     451 .. 0.45
   2 ?    8.3   0.0    0.0041       1.9      21      49 ..     554     582 ..     547     595 .. 0.92
   3 ?   -0.5   0.0         2     9e+02     103     129 ..     624     650 ..     615     683 .. 0.72

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 3.3
          DNA_pol3_delta2  81 r........................sikldqireliee 94 
                              +                        ++ l q++e++++
  PHY93_07465|PHY93_07465 404 NaetekditelenkfkeekekwdknVLALKQVTEIKHQ 441
                              12222222222222222223333335555555555555 PP

  == domain 2  score: 8.3 bits;  conditional E-value: 0.0041
          DNA_pol3_delta2  21 ayLfeGdegigkkelalnlakallceekn 49 
                              ++L++G++g+gk e+a++l++ l+ +e+n
  PHY93_07465|PHY93_07465 554 SFLLKGPSGVGKTETAKALSEFLFDSEDN 582
                              79*********************998876 PP

  == domain 3  score: -0.5 bits;  conditional E-value: 2
          DNA_pol3_delta2 103 kkkiiiiedaekmtksAaNalLktlEE 129
                               + +i+ +++ek ++  + +lL++l +
  PHY93_07465|PHY93_07465 624 PYAVILFDEVEKAHHDFSDILLQILDD 650
                              567888899999999999999988875 PP

>> Tli4_N  Tle cognate immunity protein 4 N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   3.2    0.0041       1.9      24      91 ..     389     458 ..     380     463 .. 0.82

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.0041
                   Tli4_N  24 eyigdvki.eskrvspeafrqriakreqeLkaekrikekdepllkkavslpdn.kgrifirnesvskeda 91 
                              + i   ki +++++++++ ++ i + e++ k+ek++ +k++  lk++ +++++ + + f+  + ++++d+
  PHY93_07465|PHY93_07465 389 AEIRTKKIfAKSQAKNAETEKDITELENKFKEEKEKWDKNVLALKQVTEIKHQlERYKFELDQAQRNQDY 458
                              4456669988899999*******************99***************977777777766666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (788 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1459  (0.0813765); expected 358.6 (0.02)
Passed bias filter:                      686  (0.038262); expected 358.6 (0.02)
Passed Vit filter:                       114  (0.00635841); expected 17.9 (0.001)
Passed Fwd filter:                        40  (0.00223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              39  [number of targets reported over threshold]
# CPU time: 0.95u 0.28s 00:00:01.23 Elapsed: 00:00:00.47
# Mc/sec: 5020.39
//
Query:       PHY93_07470|PHY93_07470  [L=113]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.3e-20   72.0   0.0    4.4e-20   71.5   0.0    1.2  1  cNMP_binding  Cyclic nucleotide-binding domain


Domain annotation for each model (and alignments):
>> cNMP_binding  Cyclic nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   71.5   0.0   2.5e-24   4.4e-20       3      87 ..       6      89 ..       4      91 .. 0.93

  Alignments for each domain:
  == domain 1  score: 71.5 bits;  conditional E-value: 2.5e-24
                             EE-TT-EEE-TTSB-SEEEEEEES-EEEEEEETTS.EEEEEEE-TTEEESHHHHHHTS--SSEEEESSTEEEEEEEHHHHHHHHH CS
             cNMP_binding  3 sfkagevifrqGdpadslyivlsGevrvyrlsedgkevvlavlgpGdlfGelalltgeprtatvvAltdsellalprddflellq 87
                             ++ ++e++ r+G++ +++y+++sG+++v+++++d +   ++++ +G+l+Ge+++l+++pr+a+v A++ds+l+++p ++++ +l+
  PHY93_07470|PHY93_07470  6 RLMPNEYLMREGEESTEMYYLQSGTLAVFKRKGDLEH-QIGTIIAGELVGEMSFLDKNPRSASVKAMSDSVLVVVPLEKLEHALS 89
                             7889*************************88888866.9****************************************998876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (113 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       293  (0.0163422); expected 358.6 (0.02)
Passed bias filter:                      283  (0.0157845); expected 358.6 (0.02)
Passed Vit filter:                        16  (0.000892409); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 859.59
//
Query:       PHY93_07475|PHY93_07475  [L=196]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.7e-19   68.7  35.5    4.5e-09   35.9   6.5    3.3  3  LRR_8     Leucine rich repeat
    5.4e-13   48.9  41.9    7.5e-07   29.4   3.6    4.6  5  LRR_4     Leucine Rich repeats (2 copies)
    0.00084   18.9  10.3     0.0055   16.2   1.7    2.1  2  LRR_9     Leucine-rich repeat
      0.001   19.3  16.7         12    6.9   0.2    5.8  5  LRR_1     Leucine Rich Repeat


Domain annotation for each model (and alignments):
>> LRR_8  Leucine rich repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.3   2.2   5.1e-10   2.3e-06       2      42 ..      50      88 ..      49      92 .. 0.92
   2 !   35.9   6.5     1e-12   4.5e-09       2      61 .]      95     152 ..      94     152 .. 0.97
   3 !   30.6  11.2   4.6e-11     2e-07       2      60 ..     118     174 ..     117     175 .. 0.93

  Alignments for each domain:
  == domain 1  score: 27.3 bits;  conditional E-value: 5.1e-10
                             T-SEEE-TTS--SEE-TTSSTT-TT--EEE--SS---GGGG CS
                    LRR_8  2 nLtsLdLsnNrltslddeaFkglsnLkvLdLsnNllttlsp 42
                             nL  L+L +++++s+++e F+ l+nL++L+L+nN+l+ l p
  PHY93_07475|PHY93_07475 50 NLVCLSLVSTKISSIPKELFE-LPNLTYLSLKNNRLSEL-P 88
                             7888*****************.***************98.4 PP

  == domain 2  score: 35.9 bits;  conditional E-value: 1e-12
                              T-SEEE-TTS--SEE-TTSSTT-TT--EEE--SS---GGGGGGGTT--S-.EEE--SS-- CS
                    LRR_8   2 nLtsLdLsnNrltslddeaFkglsnLkvLdLsnNllttlspgafsgLpsLrsLdLsgNrL 61 
                              +L++L+L +N+lts+++   + +s  ++LdLs+Nll+++ p  f+ L++L+ L+ ++N+L
  PHY93_07475|PHY93_07475  95 KLKTLILGRNYLTSIEKALPF-FSEIMTLDLSHNLLDSI-PANFHLLENLQRLNFDSNKL 152
                              8******************99.9****************.9*****************98 PP

  == domain 3  score: 30.6 bits;  conditional E-value: 4.6e-11
                              T-SEEE-TTS--SEE-TTSSTT-TT--EEE--SS---GGGGGGGTT--S-.EEE--SS- CS
                    LRR_8   2 nLtsLdLsnNrltslddeaFkglsnLkvLdLsnNllttlspgafsgLpsLrsLdLsgNr 60 
                              + ++LdLs+N l s++  +   l+nL+ L+  +N+l+t+ p  + +++sL +L L++N 
  PHY93_07475|PHY93_07475 118 EIMTLDLSHNLLDSIPANFHL-LENLQRLNFDSNKLHTI-PVFLKDMNSLSHLSLENNL 174
                              6799***********987666.*****************.9*****************7 PP

>> LRR_4  Leucine Rich repeats (2 copies)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   0.1     0.013        57      22      39 ..      48      64 ..      22      70 .. 0.69
   2 !   24.8   4.0   4.7e-09   2.1e-05       1      42 [.      49      90 ..      49      92 .. 0.89
   3 !   29.4   3.6   1.7e-10   7.5e-07       1      40 [.      72     110 ..      72     114 .. 0.91
   4 !   15.3   4.7   4.6e-06      0.02       5      35 ..     121     151 ..     117     152 .. 0.88
   5 !   17.5   5.9   9.3e-07    0.0042       2      36 ..     141     175 ..     140     185 .. 0.86

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.013
                             -TT--EEE-.-S-----G CS
                    LRR_4 22 lpnLkeLdLsgNnlitdl 39
                             l+nL  L+L +  +i+++
  PHY93_07475|PHY93_07475 48 LKNLVCLSLVST-KISSI 64
                             667777777554.55554 PP

  == domain 2  score: 24.8 bits;  conditional E-value: 4.7e-09
                             SS--EEE--SS---E-S-..HHH-TT--EEE-.-S-----GGGG CS
                    LRR_4  1 pnLevLdLsnNqltdipl..leklpnLkeLdLsgNnlitdldeL 42
                             +nL  L+L ++++++ip   +e lpnL++L+L  Nn+++ l+ L
  PHY93_07475|PHY93_07475 49 KNLVCLSLVSTKISSIPKelFE-LPNLTYLSL-KNNRLSELPHL 90
                             69999*************9777.*********.88899988766 PP

  == domain 3  score: 29.4 bits;  conditional E-value: 1.7e-10
                              SS--EEE--SS---E-S-HHH-TT--EEE-.-S-----GG CS
                    LRR_4   1 pnLevLdLsnNqltdiplleklpnLkeLdLsgNnlitdld 40 
                              pnL++L+L nN+l+++p l + ++Lk+L L g n++t+++
  PHY93_07475|PHY93_07475  72 PNLTYLSLKNNRLSELPHLTQKTKLKTLIL-GRNYLTSIE 110
                              8*******************9*******99.555***996 PP

  == domain 4  score: 15.3 bits;  conditional E-value: 4.6e-06
                              EEE--SS---E-S-.HHH-TT--EEE-.-S-- CS
                    LRR_4   5 vLdLsnNqltdipl.leklpnLkeLdLsgNnl 35 
                              +LdLs+N l +ip  +  l nL+ L+  +N +
  PHY93_07475|PHY93_07475 121 TLDLSHNLLDSIPAnFHLLENLQRLNFDSN-K 151
                              7*************8777*********777.4 PP

  == domain 5  score: 17.5 bits;  conditional E-value: 9.3e-07
                              S--EEE--SS---E-S-HHH.-TT--EEE-.-S--- CS
                    LRR_4   2 nLevLdLsnNqltdipllek.lpnLkeLdLsgNnli 36 
                              nL+ L++ +N+l +ip + k + +L +L+L +Nnl 
  PHY93_07475|PHY93_07475 141 NLQRLNFDSNKLHTIPVFLKdMNSLSHLSL-ENNLF 175
                              9****************7766*********.76665 PP

>> LRR_9  Leucine-rich repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   1.7   1.2e-06    0.0055      59     123 ..      44     104 ..      10     112 .. 0.82
   2 !    7.8   2.5   0.00049       2.2      59     131 ..     112     181 ..      98     192 .. 0.78

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 1.2e-06
                    LRR_9  59 gfPllkrlktlllnnnrivriaegleevlPnleelvltnnelqeladldPlaslkklellsllkn 123
                              ++  lk l +l+l + +i  i ++l e lPnl+ l l nn+l el +l   ++  kl++l l +n
  PHY93_07475|PHY93_07475  44 DITILKNLVCLSLVSTKISSIPKELFE-LPNLTYLSLKNNRLSELPHL---TQKTKLKTLILGRN 104
                              5668999******************87.8************9999995...55555556655555 PP

  == domain 2  score: 7.8 bits;  conditional E-value: 0.00049
                    LRR_9  59 gfPllkrlktlllnnnrivriaegleevlPnleelvltnnelqeladldPlaslkklellsllknpvtnkkey 131
                               +P++  + tl l+ n +  i  ++ + l nl+ l + +n+l+ +     l ++++l+ lsl +n  +n+++ 
  PHY93_07475|PHY93_07475 112 ALPFFSEIMTLDLSHNLLDSIPANF-HLLENLQRLNFDSNKLHTIPV--FLKDMNSLSHLSLENNLFSNEEKN 181
                              5899999999999999999998887.478999999999999988876..688899999999888888877664 PP

>> LRR_1  Leucine Rich Repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    5.5   0.5    0.0078        35       1      16 [.      73      88 ..      73      92 .. 0.84
   2 !    5.2   0.0    0.0094        42       1      16 [.      95     110 ..      95     115 .. 0.87
   3 !    6.9   0.2    0.0027        12       4      20 ..     121     136 ..     119     139 .. 0.76
   4 ?    5.0   0.1     0.011        50       1      16 [.     141     155 ..     141     162 .. 0.80
   5 ?    4.3   0.6     0.019        87       1      18 [.     164     181 ..     164     191 .. 0.81

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.0078
                    LRR_1  1 nLrhLdLsnnpllglp 16
                             nL++L L nn+l+ lp
  PHY93_07475|PHY93_07475 73 NLTYLSLKNNRLSELP 88
                             8**********95544 PP

  == domain 2  score: 5.2 bits;  conditional E-value: 0.0094
                    LRR_1   1 nLrhLdLsnnpllglp 16 
                              +L++L L++n l++++
  PHY93_07475|PHY93_07475  95 KLKTLILGRNYLTSIE 110
                              7**********98776 PP

  == domain 3  score: 6.9 bits;  conditional E-value: 0.0027
                    LRR_1   4 hLdLsnnpllglppnsf 20 
                              +LdLs+n l+++p + f
  PHY93_07475|PHY93_07475 121 TLDLSHNLLDSIP-ANF 136
                              7********5555.444 PP

  == domain 4  score: 5.0 bits;  conditional E-value: 0.011
                    LRR_1   1 nLrhLdLsnnpllglp 16 
                              nL++L+  +n l + +
  PHY93_07475|PHY93_07475 141 NLQRLNFDSNKL-HTI 155
                              8*********99.444 PP

  == domain 5  score: 4.3 bits;  conditional E-value: 0.019
                    LRR_1   1 nLrhLdLsnnpllglppn 18 
                              +L hL L+nn +++ ++n
  PHY93_07475|PHY93_07475 164 SLSHLSLENNLFSNEEKN 181
                              589*******99766665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (196 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       472  (0.0263261); expected 358.6 (0.02)
Passed bias filter:                      295  (0.0164538); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 1430.25
//
Query:       PHY93_16415|PHY93_16415  [L=265]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (265 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       604  (0.0336884); expected 358.6 (0.02)
Passed bias filter:                      560  (0.0312343); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.40
# Mc/sec: 1995.23
//
Query:       PHY93_07480|PHY93_07480  [L=112]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-42  144.5   0.3    1.3e-42  144.4   0.3    1.0  1  Asp_decarbox     Aspartate decarboxylase
  ------ inclusion threshold ------
      0.013   14.9   0.0      0.014   14.9   0.0    1.1  1  Astro_capsid_p2  C-terminal tail of astrovirus capsid project
       0.12   12.4   0.0       0.38   10.7   0.0    1.7  2  Castor_Poll_mid  Castor and Pollux, part of voltage-gated ion


Domain annotation for each model (and alignments):
>> Asp_decarbox  Aspartate decarboxylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  144.4   0.3   2.2e-46   1.3e-42       1     113 [.       1     109 [.       1     111 [. 0.98

  Alignments for each domain:
  == domain 1  score: 144.4 bits;  conditional E-value: 2.2e-46
                              XEEEEEEEEEEEEEXXEEETTXXXXEEEEHHHHHHCT--TTBEEEEEETTT--EEEEEEEEESTTTT-EEEEGGGGGG--TT-EEE CS
             Asp_decarbox   1 mlrtllksKihratvteaelnYeGSitideelleaagileyekvqvvnvnngeRletYvikgergsgviclnGaaarlvqvgdkvi 86 
                              mlr++l+sKih+at+tea++ Y GSitid++lle+ ++++++kv vv +++g+RletYvi+g r+sg+ic+nGaaa+l+++gd+vi
  PHY93_07480|PHY93_07480   1 MLREVLQSKIHKATITEADIAYIGSITIDQDLLERIDLWPGQKVIVVSNTTGNRLETYVIAGARDSGMICMNGAAAHLIKKGDEVI 86 
                              899*********************************************************************************** PP

                              EEEEEEEEHHHHHH---EEEEE-TTS- CS
             Asp_decarbox  87 iiayaqleeeeakelkpkvvlvdeknr 113
                              i++ya  ++    +++pk +lvd++n+
  PHY93_07480|PHY93_07480  87 IFSYAFSDR----QIQPKCILVDAHNK 109
                              *****9887....789**********8 PP

>> Astro_capsid_p2  C-terminal tail of astrovirus capsid projection or spike
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.0   2.3e-06     0.014     100     149 ..      11      58 ..       2      98 .. 0.79

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 2.3e-06
          Astro_capsid_p2 100 hikdytepaikkyypgttnldeelkqrlklaegdpvislgdttgrraalf 149
                              h    te  i   y g+  +d++l +r++l  g+ vi + +ttg r   +
  PHY93_07480|PHY93_07480  11 HKATITEADI--AYIGSITIDQDLLERIDLWPGQKVIVVSNTTGNRLETY 58 
                              4444455444..689999**************************997654 PP

>> Castor_Poll_mid  Castor and Pollux, part of voltage-gated ion channel
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.0      0.15   8.9e+02      78      94 ..      38      54 ..      15      62 .. 0.78
   2 ?   10.7   0.0   6.4e-05      0.38      54      94 ..      57      95 ..      49     106 .. 0.76

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 0.15
          Castor_Poll_mid 78 lqegdkllviaedddtk 94
                             l  g+k++v+++ + ++
  PHY93_07480|PHY93_07480 38 LWPGQKVIVVSNTTGNR 54
                             55788999999887765 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 6.4e-05
          Castor_Poll_mid 54 eavviGikvassgkiylnPeddevlqegdkllviaedddtk 94
                               v+ G    +sg+i +n    +++++gd++++ +   + +
  PHY93_07480|PHY93_07480 57 TYVIAGA--RDSGMICMNGAAAHLIKKGDEVIIFSYAFSDR 95
                             5566666..677********************998654444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (112 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       443  (0.0247086); expected 358.6 (0.02)
Passed bias filter:                      378  (0.0210832); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.43u 0.19s 00:00:00.62 Elapsed: 00:00:00.38
# Mc/sec: 894.14
//
Query:       PHY93_07485|PHY93_07485  [L=397]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-22   79.6   0.1    6.6e-19   67.7   0.0    2.3  2  ACT_6            ACT domain
    7.7e-22   78.6   0.0    1.1e-21   78.1   0.0    1.2  1  HAD              haloacid dehalogenase-like hydrolase
      7e-20   72.2   0.3    1.8e-19   70.9   0.3    1.7  1  Hydrolase        haloacid dehalogenase-like hydrolase
    8.2e-12   45.4   3.0    5.8e-11   42.6   0.2    3.0  3  Hydrolase_3      haloacid dehalogenase-like hydrolase
    3.7e-11   42.9   0.0    1.1e-09   38.1   0.0    2.3  1  Put_Phosphatase  Putative Phosphatase
    0.00014   22.0   2.4     0.0047   17.0   1.0    3.2  2  HAD_2            Haloacid dehalogenase-like hydrolase
    0.00023   20.9   0.8       0.19   11.5   0.0    2.8  2  ACT              ACT domain
     0.0041   17.7   0.1        7.1    7.3   0.0    2.8  3  ACT_4            ACT domain
  ------ inclusion threshold ------
      0.042   13.4   0.2       0.85    9.1   0.0    2.3  2  S6PP             Sucrose-6F-phosphate phosphohydrolase


Domain annotation for each model (and alignments):
>> ACT_6  ACT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.7   0.0   3.3e-22   6.6e-19       2      75 ..       8      84 ..       7      85 .. 0.94
   2 !    9.6   0.0   0.00043      0.85      14      75 ..     114     176 ..     100     176 .. 0.92

  Alignments for each domain:
  == domain 1  score: 67.7 bits;  conditional E-value: 3.3e-22
                    ACT_6  2 illitvtGpdrpGltasLtsvlaefgvnilDieqavihgrlsLgllvsgped...alarlekaLlflakelgltvef 75
                             i+l+tv+Gpd+pG+ta+L+++++e++v++lD +qav hg lsL  ++ +++d     + ++k+Llf a  +glt+++
  PHY93_07485|PHY93_07485  8 IILVTVSGPDCPGITARLMKIISEYNVDVLDMGQAVTHGLLSLSFVLGLNSDekcSNGNVLKDLLFEANLMGLTLSY 84
                             89************************************************55457899***************9986 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 0.00043
                    ACT_6  14 GltasLtsvlaefgvnilDieqavihgrlsLgllvsgped.alarlekaLlflakelgltvef 75 
                              + +a+L+++la f++ni  i  +  ++  s  +  s+p++ + ++l+  L +++ ++ ++v f
  PHY93_07485|PHY93_07485 114 SFVADLAQILANFKINIERIDKVSPREFSSMEVYTSIPKNlETKKLKEHLMQVSTRHRIDVAF 176
                              5689**********************************9999*************99999876 PP

>> HAD  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.1   0.0   5.5e-25   1.1e-21       1     187 [.     189     356 ..     189     357 .. 0.86

  Alignments for each domain:
  == domain 1  score: 78.1 bits;  conditional E-value: 5.5e-25
                      HAD   1 alfDfDgTLldgdslelllrfllrrgaprlwralreklllalfrellrldraglaelleallagls.eelaaelerfvaevirpkl 85 
                              ++fD+D TL++++ +++l++ l ++     ++++r  ++ a+    ++ d ++  +l  + l+gl+ ++  + le++         
  PHY93_07485|PHY93_07485 189 IVFDMDSTLIQTEVIDELAD-LCGV-----GEEVRKITHRAM---NGEIDFDESLRLRVSKLKGLDtARMQDVLEKLP-------- 257
                              79******************.6666.....888888888888...444444466666666677777444444444444........ PP

                      HAD  86 ldpgalellaahraaGdrvvvvSgglrplvepllaelgadevlatelevdd.rltgelglegkpvrgegkvaalrewlaaegegid 170
                              l+pg+ e+++  ++ G++v+++Sgg+ +++ +l  +lg d+  a+ele +d +ltg+  + g++v+ ++k+  ++    a+ e+i+
  PHY93_07485|PHY93_07485 258 LTPGVEEFIKTIKSLGYKVALISGGFTFFADALKIKLGLDYSFANELEIQDgKLTGH--VTGTIVNANQKAILVKL--IAQQENIS 339
                              78********999********************************************..*****************..8888899* PP

                      HAD 171 leevvayGDspsDlpll 187
                              le vva+GD+ +Dlp+l
  PHY93_07485|PHY93_07485 340 LEQVVAIGDGANDLPML 356
                              ****************8 PP

>> Hydrolase  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.9   0.3   8.8e-23   1.8e-19       2     210 .]     187     360 ..     186     360 .. 0.85

  Alignments for each domain:
  == domain 1  score: 70.9 bits;  conditional E-value: 8.8e-23
                              SEEEEESBTTTBCHHHHHHHHHHHHCHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHETTTEHHHHTHHHHHHHHHCHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase   2 ktvvfDkdGTLttgepsvedvivsaalalaaaletgsehpigkalvaaakarsgaltgfatfigrgayaigkpewltaldippdlg 87 
                              +++vfD+d TL+++e     vi+++                     a  +++++++ ++++     +++ g+ ++ ++l       
  PHY93_07485|PHY93_07485 187 RLIVFDMDSTLIQTE-----VIDEL---------------------ADLCGVGEEVRKITH-----RAMNGEIDFDESL------- 234
                              68************9.....*****.....................***************.....*************....... PP

                              HHHHHHHHHCHHHHHHTTHHHHHHHHHHTHHBHTTHHHHHHHHHHTTEEEEEEESSEHHHHHHHHHHTT.GGGESEEEEHHCES.. CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxx.. RF
                Hydrolase  88 aaigsaqsqgrtvallqaralavftiadplkvkpeaaeavasLkaagievvlltgdnpetaeraanqlG.ddyfdaviasdiet.. 170
                                      + r + l+  +  ++  + ++l++ p+++e+++++k+ g++v+l++g++  +a+++  +lG d  f++++++ + +  
  PHY93_07485|PHY93_07485 235 --------RLRVSKLKGLDTARMQDVLEKLPLTPGVEEFIKTIKSLGYKVALISGGFTFFADALKIKLGlDYSFANELEIQDGKlt 312
                              ........77777777556666677777778*******************************99888**87777888888888875 PP

                              .......STTTSHHHHHHHHHHHT.STGGGEEEEESSHHHHHHHHHTT CS
                              .......xxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxx RF
                Hydrolase 171 .......vakpspegkvaaireLq.gkpeevamVGDgvnDaaalaaAg 210
                                     v    + ++v++i +   ++ e+v+++GDg+nD+++la Ag
  PHY93_07485|PHY93_07485 313 ghvtgtiVNANQKAILVKLIAQQEnISLEQVVAIGDGANDLPMLATAG 360
                              554445544446666666666664499******************998 PP

>> Hydrolase_3  haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.9   0.1      0.16   3.2e+02       1      11 [.     189     199 ..     189     207 .. 0.89
   2 ?   -0.3   0.0      0.37   7.3e+02      19      43 ..     261     285 ..     255     303 .. 0.74
   3 !   42.6   0.2   2.9e-14   5.8e-11     186     242 ..     323     378 ..     299     391 .. 0.86

  Alignments for each domain:
  == domain 1  score: 0.9 bits;  conditional E-value: 0.16
                              EEEEIIIIIS- CS
              Hydrolase_3   1 ialDlDGTLln 11 
                              i++D+D TL++
  PHY93_07485|PHY93_07485 189 IVFDMDSTLIQ 199
                              89*******97 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.37
                              HHHHHHHHHHHTTSEEEEE-SS-HH CS
              Hydrolase_3  19 ktkeaikklkekgikvviATGRslr 43 
                                 e ik +k+ g+kv++ +G  + 
  PHY93_07485|PHY93_07485 261 GVEEFIKTIKSLGYKVALISGGFTF 285
                              567899***********99995555 PP

  == domain 3  score: 42.6 bits;  conditional E-value: 2.9e-14
                              -SHHHHHHHHHHHCT--GGGEEEEESSGGGHHHHHHSSEEEEETTS-HHHHHHSSEE CS
              Hydrolase_3 186 vsKgtalkklakelnisleeviafGDgeNDieMLeaaglgvAmgnaseevkkaAdyv 242
                               +K+  +k +a++ nisle+v+a+GDg ND++ML  aglg+A + a++ vkk A+  
  PHY93_07485|PHY93_07485 323 NQKAILVKLIAQQENISLEQVVAIGDGANDLPMLATAGLGIAFH-AKDVVKKEAQQH 378
                              589***************************************86.888888888765 PP

>> Put_Phosphatase  Putative Phosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.1   0.0   5.3e-13   1.1e-09       2     185 ..     188     355 ..     187     381 .. 0.80

  Alignments for each domain:
  == domain 1  score: 38.1 bits;  conditional E-value: 5.3e-13
          Put_Phosphatase   2 lvvfDFDktiidedsdnwvvdelpatelfeelretlrkgl..wnelmdrvlkelheqgvseadikkvlrsiplspglvelikslak 85 
                              l+vfD D t+i+ +  + + d+ +  e+ +++ +   +g   + e +   l+  + +g  +a++++vl+++pl+pg+ e ik++  
  PHY93_07485|PHY93_07485 188 LIVFDMDSTLIQTEVIDELADLCGVGEEVRKITHRAMNGEidFDESLR--LRVSKLKGLDTARMQDVLEKLPLTPGVEEFIKTI-- 269
                              89**************************99999888766511444444..44445578999***********************.. PP

          Put_Phosphatase  86 kkleldliiiSDaNsffieeileaagledlFseiftNPaavdasGeltvlpyhehsCklcpsNlCKgkvleelvaeqaregveyer 171
                              k+l++ + +iS   +ff + +  ++gl   F    +N  +++ +G+lt   + +     +  N  ++ +l +l a+  +e+++ e+
  PHY93_07485|PHY93_07485 270 KSLGYKVALISGGFTFFADALKIKLGLDYSF----ANELEIQ-DGKLT--GHVT----GTIVNANQKAILVKLIAQ--QENISLEQ 342
                              799***************9887777777766....5666665.58876..3333....3456777899****9999..588899** PP

          Put_Phosphatase 172 liYvGDganDlCpv 185
                              ++ +GDganDl p+
  PHY93_07485|PHY93_07485 343 VVAIGDGANDL-PM 355
                              **********8.44 PP

>> HAD_2  Haloacid dehalogenase-like hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.0         4   8.1e+03      64      91 ..     132     157 ..     108     175 .. 0.54
   2 !   17.0   1.0   2.4e-06    0.0047       1     172 [.     189     360 ..     189     366 .. 0.61

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 4
                    HAD_2  64 ellrkyneekkkkevkpydgvkelLeeL 91 
                              ++ +k+  ++   ++++y  + + Le+ 
  PHY93_07485|PHY93_07485 132 RI-DKVSPREFS-SMEVYTSIPKNLETK 157
                              33.444444444.555555555555543 PP

  == domain 2  score: 17.0 bits;  conditional E-value: 2.4e-06
                    HAD_2   1 iiFDlDgTlldteeliiqafnelleeyglselseeelrkliglslrellrklgeseeeee.kieellrkyneekkkkevkpydgvk 85 
                              i+FD+D Tl+ te     ++ el++ +g++e  ++  ++ ++ +     +   es +    k++ l    ++   + ++ + +gv+
  PHY93_07485|PHY93_07485 189 IVFDMDSTLIQTE-----VIDELADLCGVGEEVRKITHRAMNGEI----DF-DESLRLRVsKLKGLDTARMQDVLE-KLPLTPGVE 263
                              79********997.....456666666886444444444443333....32.222332222566664444444444.8******** PP

                    HAD_2  86 elLeeLkeagyklgivTsksreaveekleqlgiesyFdv...........ivtsedvekk.KPdpeviekaleklklkkeeviyvG 159
                              e+++++k+ gyk+++++ + +  ++    +lg++  F              vt++ v+ + K  + +++ + ++ +++ e+v+ +G
  PHY93_07485|PHY93_07485 264 EFIKTIKSLGYKVALISGGFTFFADALKIKLGLDYSFANeleiqdgkltgHVTGTIVNANqK--AILVKLIAQQENISLEQVVAIG 347
                              ******************98877777766777766664311111111111233333333324..6677777777789999999999 PP

                    HAD_2 160 DsptDieaakkag 172
                              D  +D+     ag
  PHY93_07485|PHY93_07485 348 DGANDLPMLATAG 360
                              9888876555555 PP

>> ACT  ACT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.5   0.0   9.4e-05      0.19       3      38 ..      11      46 ..       9      61 .. 0.83
   2 !    6.7   0.2    0.0031       6.2      14      31 ..     116     133 ..     115     134 .. 0.92

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 9.4e-05
                             EEEEEESSTTHHHHHHHHHHHTTSEEEEEEEEEEST CS
                      ACT  3 lrvgvpDrPGlLarvfgaladrgiNidsieqrssed 38
                             + v+ pD PG+ ar+  +++++++ +  + q+ ++ 
  PHY93_07485|PHY93_07485 11 VTVSGPDCPGITARLMKIISEYNVDVLDMGQAVTHG 46
                             678999*************************99986 PP

  == domain 2  score: 6.7 bits;  conditional E-value: 0.0031
                              HHHHHHHHHHTTSEEEEE CS
                      ACT  14 LarvfgaladrgiNidsi 31 
                               a+++++la+  iNi++i
  PHY93_07485|PHY93_07485 116 VADLAQILANFKINIERI 133
                              699*************98 PP

>> ACT_4  ACT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.3   0.0    0.0036       7.2      10      54 ..      12      54 ..       9      64 .. 0.78
   2 !    7.3   0.0    0.0036       7.1      19      52 ..     115     146 ..      99     168 .. 0.79
   3 ?   -3.4   0.0       7.7   1.5e+04      58      76 ..     245     263 ..     244     264 .. 0.83

  Alignments for each domain:
  == domain 1  score: 7.3 bits;  conditional E-value: 0.0036
                    ACT_4 10 eveaedrkglLaditqviseekanivsvnaktrkkdglaeikitv 54
                             +v + d +g+ a+++++ise ++++ ++    +   gl ++++ +
  PHY93_07485|PHY93_07485 12 TVSGPDCPGITARLMKIISEYNVDVLDMGQAVT--HGLLSLSFVL 54
                             6888999******************99876663..3566666655 PP

  == domain 2  score: 7.3 bits;  conditional E-value: 0.0036
                    ACT_4  19 lLaditqviseekanivsvnaktrkkdglaeiki 52 
                               +ad++q++++ k+ni+ +  ++    ++ ++++
  PHY93_07485|PHY93_07485 115 FVADLAQILANFKINIERIDKVS--PREFSSMEV 146
                              689***************99888..445777766 PP

  == domain 3  score: -3.4 bits;  conditional E-value: 7.7
                    ACT_4  58 dvehLsrviakLraipgVi 76 
                              d++ +++v++kL  +pgV+
  PHY93_07485|PHY93_07485 245 DTARMQDVLEKLPLTPGVE 263
                              6778899999999999986 PP

>> S6PP  Sucrose-6F-phosphate phosphohydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.0      0.07   1.4e+02       2      27 ..     186     209 ..     185     220 .. 0.75
   2 ?    9.1   0.0   0.00043      0.85     166     207 ..     325     366 ..     319     385 .. 0.78

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.07
                              SEEEEE-TBTTTB.S-HHHHHHHHHH CS
                     S6PP   2 klllvsdLDntlvdgdnealarlnel 27 
                              k+l+v d+D+tl+  + e +++l +l
  PHY93_07485|PHY93_07485 186 KRLIVFDMDSTLI--QTEVIDELADL 209
                              689**********..55555555554 PP

  == domain 2  score: 9.1 bits;  conditional E-value: 0.00043
                              HHHHHHHHHHHHT--GGGEEEEE-SGGGHHHHTSSSEEEE-T CS
                     S6PP 166 kgeAlryLakkleleleqilvcGdsgnDeellignvlgVvVg 207
                              k+  ++ +a++ ++ leq++  Gd  nD  +l +  lg+   
  PHY93_07485|PHY93_07485 325 KAILVKLIAQQENISLEQVVAIGDGANDLPMLATAGLGIAFH 366
                              555567789999********************9999998764 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (397 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       666  (0.0371465); expected 358.6 (0.02)
Passed bias filter:                      531  (0.0296168); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.58u 0.26s 00:00:00.84 Elapsed: 00:00:00.42
# Mc/sec: 2859.22
//
Query:       PHY93_07490|PHY93_07490  [L=226]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.4e-15   56.2   0.6    4.4e-15   56.2   0.6    2.3  2  CDP-OH_P_transf  CDP-alcohol phosphatidyltransferase
  ------ inclusion threshold ------
        3.4    6.4   6.7        4.6    6.0   6.7    1.3  1  TraG_N           TraG-like protein, N-terminal region


Domain annotation for each model (and alignments):
>> CDP-OH_P_transf  CDP-alcohol phosphatidyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.2   0.6   4.9e-19   4.4e-15       1      66 []      20      97 ..      20      97 .. 0.85
   2 ?   -1.8   2.3      0.62   5.5e+03       7       7 ..     130     130 ..      99     196 .. 0.55

  Alignments for each domain:
  == domain 1  score: 56.2 bits;  conditional E-value: 4.9e-19
                             S-HHHHHHHHHHHHHHHHHGGGS-H.................HHHHHHHHHHHHHTTHHHHHHHHTT---HHHHHHHHHHH CS
          CDP-OH_P_transf  1 nlPnaiTllrlllsvlailllltyyp...............lvlailllliasltDalDGklARrlnqvstlGkllDslaD 66
                             nlPn +T++r++l+ + +l l +                   ++a++ ++ as+tD++DG++AR+ n v+ +G +lD++aD
  PHY93_07490|PHY93_07490 20 NLPNRLTMFRIILIPIILLSL-Y--FnlsthpwvishikllNYIAAWTFVGASITDFFDGYIARKKNLVTVFGSFLDPIAD 97
                             69**********965555332.3..235899999999999888888888999****************999*********9 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 0.62
                              H CS
          CDP-OH_P_transf   7 T 7  
                              T
  PHY93_07490|PHY93_07490 130 T 130
                              2 PP

>> TraG_N  TraG-like protein, N-terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   6.7   0.00051       4.6     339     395 ..      25      81 ..      21     135 .. 0.83

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.00051
                   TraG_N 339 lemliyalfPlvlllslyplkglkilkgylfllvwlqlWwplaailnsllldaaygk 395
                              l+m+ ++l+P++ll + ++l++   +   ++ll+++++W ++ a +  +   ++++k
  PHY93_07490|PHY93_07490  25 LTMFRIILIPIILLSLYFNLSTHPWVISHIKLLNYIAAWTFVGASITDFFDGYIARK 81 
                              89**************************************99887776666666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (226 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1434  (0.0799822); expected 358.6 (0.02)
Passed bias filter:                      572  (0.0319036); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.42
# Mc/sec: 1623.46
//
Query:       PHY93_07495|PHY93_07495  [L=242]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.1e-07   29.7   0.1    3.2e-06   27.4   0.0    1.9  2  PilZ      PilZ domain


Domain annotation for each model (and alignments):
>> PilZ  PilZ domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.4   0.0   1.8e-10   3.2e-06       1      93 [.      16     108 ..      16     115 .. 0.86
   2 ?   -0.2   0.0     0.069   1.2e+03      36      74 ..     178     225 ..     176     232 .. 0.66

  Alignments for each domain:
  == domain 1  score: 27.4 bits;  conditional E-value: 1.8e-10
                              CSSSS-C..EEECEEEEEEETTEEEEE....EEEEEESSEEEEEES..T-SS-TTSEEEEEEECECEEEEEEEEEEEEEECTCTTE CS
                     PilZ   1 qrRkekRlevpvsipvtleadegelkg....rliDiSlgGlairlp..deelalgdrvelklpldkdqelslpgrVvrvkpeedge 80 
                              ++R ++R  +p+   +  e + +e ++     ++DiSl+G++++ +  +++++ g +++ +l+  ++ ++++ g+V ++++     
  PHY93_07495|PHY93_07495  16 EKRVFPR--FPFGFMIFREENANEANAkmvfEVKDISLSGMQLSFRdgTHNYTQGVNINGNLQ-WRGSTVRVIGKVQWIREG---- 94 
                              5889999..888888888888888555555599******************************.******************.... PP

                              EEEEEE.EEECHHH CS
                     PilZ  81 rlGveF.ldldeeq 93 
                               +G+ F  +++ e+
  PHY93_07495|PHY93_07495  95 CIGLAFdSSISFEE 108
                              ******77777655 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.069
                              EEEEEES........T-SS-TTSEEEEEEE.CECEEEEEEEEEEEEEE CS
                     PilZ  36 Glairlp........deelalgdrvelklp.ldkdqelslpgrVvrvk 74 
                              G+++r+         d++l l+d++ ++++    ++++++   Vvr+ 
  PHY93_07495|PHY93_07495 178 GVGLRTGrimtqrdlDTPLSLEDEFIFHIDdGAVQEKIEMALGVVRKI 225
                              555555555566667789999999999999744555555555555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (242 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       353  (0.0196888); expected 358.6 (0.02)
Passed bias filter:                      319  (0.0177924); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1750.48
//
Query:       PHY93_07500|PHY93_07500  [L=315]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
   1.2e-140  467.8   3.6   1.3e-140  467.6   3.6    1.0  1  FBPase_glpX  Bacterial fructose-1,6-bisphosphatase, glpX-enco


Domain annotation for each model (and alignments):
>> FBPase_glpX  Bacterial fructose-1,6-bisphosphatase, glpX-encoded
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  467.6   3.6  7.4e-145  1.3e-140       1     308 []       3     309 ..       3     309 .. 1.00

  Alignments for each domain:
  == domain 1  score: 467.6 bits;  conditional E-value: 7.4e-145
              FBPase_glpX   1 rnlalelvrvteaAAlaaarlvGrgdkeaadqaAveamrkalneleikgevviGegekdeapmLyiGekvGsgegpevdiavdple 86 
                              rnlale+vrvte AA+a+arl+Grgd++aadqaAv+amr++l ++e +++vviGege+deapmLyiGekvG+g+gpe++ia+dple
  PHY93_07500|PHY93_07500   3 RNLALEFVRVTEMAAIASARLMGRGDEKAADQAAVDAMRAMLVSVECDATVVIGEGERDEAPMLYIGEKVGTGRGPELEIALDPLE 88 
                              79************************************************************************************ PP

              FBPase_glpX  87 GttlvAkglpnaisviAvaekgsllkapdvYmeKlvvgpeakgvidldapveenlkavakalgkevedltvvvLdrpRheelieei 172
                              Gtt++A g  n+isv+A+aekg++l+apd+Ym K+++gpe +g id++++++enl+++a+a++ ++ dlt+v+LdrpRh++li+e+
  PHY93_07500|PHY93_07500  89 GTTVCAIGGYNSISVMAIAEKGNFLHAPDTYMLKIACGPEGRGLIDINESTKENLRRLADAKKCRIADLTAVILDRPRHKNLIQEV 174
                              ************************************************************************************** PP

              FBPase_glpX 173 reagarvklisdGDvaaaiaaaleesgvdvllGiGgapEGvlaAaalkclgGemqarlvprkeeereraekmgiedldkvltledL 258
                              r+agar++li dGDva++ia++ ++sg+d+l+GiGgapEGv++Aaal+c+gG++q+ l pr+ +e era+kmg++d++kv++++dL
  PHY93_07500|PHY93_07500 175 RDAGARIQLIGDGDVAGSIACCDPDSGIDILFGIGGAPEGVISAAALRCMGGDFQGILQPRNIQEVERAKKMGVNDIKKVFKIDDL 260
                              ************************************************************************************** PP

              FBPase_glpX 259 vkgddvifaatgvTdgelLkgvrfkgggarteslvmrsksgtvrfiesih 308
                              ++ ++v+f+atgvT+g++Lkgv+fk+ ga t+s+vmrs+sgtvr++e++h
  PHY93_07500|PHY93_07500 261 AR-GNVMFCATGVTSGNFLKGVQFKSWGAITHSIVMRSSSGTVRRVEAEH 309
                              **.7*******************************************998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (315 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       428  (0.0238719); expected 358.6 (0.02)
Passed bias filter:                      389  (0.0216967); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.20s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 2358.11
//
Query:       PHY93_07505|PHY93_07505  [L=139]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.1e-11   45.1   0.0    1.7e-11   44.5   0.0    1.3  1  Polyketide_cyc   Polyketide cyclase / dehydrase and lipid tra
    6.1e-05   23.3   0.0    7.3e-05   23.1   0.0    1.1  1  Polyketide_cyc2  Polyketide cyclase / dehydrase and lipid tra


Domain annotation for each model (and alignments):
>> Polyketide_cyc  Polyketide cyclase / dehydrase and lipid transport
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.5   0.0   1.8e-15   1.7e-11       1     130 []      10     135 ..      10     135 .. 0.84

  Alignments for each domain:
  == domain 1  score: 44.5 bits;  conditional E-value: 1.8e-15
                              ESS-HHHHHHHHTTTGGCCSCCCCEEEEEE.SSSEE...EEEECSTTSS.CEEEEEEEEEEETTTEEECTTCC.CCCEEEEEEEEC CS
           Polyketide_cyc   1 vpapadqvyalvadvesypeflphcssvevleeaesglsadlevgfggl.tesftarvtldppeeitfklveg.dfkslegkWtie 84 
                              v++++ ++y+++ d+ +yp f+ ++s  +v++++e+   a++e +  ++ + ++   + +++p  +  +l  g +fk+  g+W+++
  PHY93_07505|PHY93_07505  10 VDVDINKLYDVLIDYVNYPNFVDGVSAIKVISQNET--AARVEYSVNMIkSFKYILNIKQERPKGLSWTLDSGdLFKKNDGEWKLK 93 
                              6788999****************************6..44444444444146677777777777777777766269********** PP

                              TECCEEECEEEEEEEEEEEE-SSCHHHHHHHHHHHHHHHHHHHHHH CS
           Polyketide_cyc  85 slppnsggtrtkvalevdfkfaspllgalvgqvaervldellaale 130
                               l+      +t+v++++d++f++ ++  ++  +  + l+ + ++++
  PHY93_07505|PHY93_07505  94 DLG----NGKTEVTYSLDLDFKMFAPSSILSALTSKNLPVMMESFF 135
                              ***....566*******************************99985 PP

>> Polyketide_cyc2  Polyketide cyclase / dehydrase and lipid transport
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.1   0.0   8.2e-09   7.3e-05       1     131 [.       1     135 [.       1     138 [. 0.72

  Alignments for each domain:
  == domain 1  score: 23.1 bits;  conditional E-value: 8.2e-09
                              EEEEEEEEEESS-HHHHHHHHTTTTGGGGT-TTEEEEECSESTSSSTTTEEEEECCCSSEEEEEEEEEETTTTEEEEEEE.SSS-T CS
          Polyketide_cyc2   1 mvkvtvsvviaappekVwalvsdfenwprWhpevarveleggggpargvegtvrvggrgtvreelvevdpegrllsyrivkpvpva 86 
                              m++++++ v++++  k ++++ d+ n+p    +v+  ++ +++++a++ve  v +      +  l   +++++ ls+++ +   ++
  PHY93_07505|PHY93_07505   1 MASASRTEVVDVDINKLYDVLIDYVNYPNFVDGVSAIKVISQNETAARVEYSVNMIK--SFKYILNIKQERPKGLSWTLDSGDLFK 84 
                              78899********************************99998888555545555444..355544444456777777776579999 PP

                              SEEEEEEEEECCET.EEEEEEEEEEE.....E--TT--HHHHHHHHHHHHH CS
          Polyketide_cyc2  87 nyvatwtvtpdggg.trvtwtgefda.....gplggpfekpaaakavkgdl 131
                              +  ++w++++ g g t+vt++ ++d+     +++   ++   ++ ++++++
  PHY93_07505|PHY93_07505  85 KNDGEWKLKDLGNGkTEVTYSLDLDFkmfapSSILSALTSKNLPVMMESFF 135
                              9***********88799**99999963344433333334444455555444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (139 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       407  (0.0227007); expected 358.6 (0.02)
Passed bias filter:                      292  (0.0162865); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.21s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 1061.26
//
Query:       PHY93_07510|PHY93_07510  [L=104]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.024   14.5   0.1      0.027   14.3   0.1    1.1  1  DUF445    Protein of unknown function (DUF445)
      0.095   13.2   0.0       0.18   12.3   0.0    1.7  1  BMFP      Membrane fusogenic activity


Domain annotation for each model (and alignments):
>> DUF445  Protein of unknown function (DUF445)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.1     3e-06     0.027      43     107 ..      15      81 ..      10      96 .. 0.85

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 3e-06
                   DUF445  43 kklgnfVeehLLtkeslakkLkeaevasklaewlk..nptnkeslaaiveellkeiledlddesike 107
                              k ++  V+  ++t+es++k L++  + + +++ l   ++  ke+ ++  +e+l++ l+++d+++i++
  PHY93_07510|PHY93_07510  15 KVVSVGVGAAFMTEESVKKILEDLPLPKDIISGLVqnAKGAKEDFTKGIREELRNHLSKIDVSKITS 81 
                              3344559*********************99998886677899999******************9986 PP

>> BMFP  Membrane fusogenic activity
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0     2e-05      0.18      13      45 ..      44      76 ..      29      93 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 2e-05
                     BMFP 13 kvgdalpaaagvreeieknvravlqealsklDL 45
                              +++ +++a+g++e++ k +r+ l++ lsk+D+
  PHY93_07510|PHY93_07510 44 IISGLVQNAKGAKEDFTKGIREELRNHLSKIDV 76
                             5789999************************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (104 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       949  (0.052931); expected 358.6 (0.02)
Passed bias filter:                      551  (0.0307323); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.20s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 783.34
//
Query:       PHY93_07515|PHY93_07515  [L=230]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
       0.01   15.7   0.0      0.018   14.9   0.0    1.4  1  KCNQ_channel  KCNQ voltage-gated potassium channel
      0.049   13.8   0.3        4.2    7.5   0.1    2.4  2  DUF695        Family of unknown function (DUF695)


Domain annotation for each model (and alignments):
>> KCNQ_channel  KCNQ voltage-gated potassium channel
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.0     2e-06     0.018      99     182 ..      31     125 ..      22     133 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 2e-06
             KCNQ_channel  99 vkDvieqYsaGhLDmL.criksLqtrvDqivgrgpvltdkkkksekgek..........kaeveaaedlsmlgrvvkvekqvqsie 173
                              v Dvi  Y a h D    r++ L+ + D++v +   +++ +   + +++             ++++++ls+l+ ++k e+    +e
  PHY93_07515|PHY93_07515  31 VEDVIAAYQAHHYDFGeNRVQDLKEKADTFVKENLNKVRWHFIGHLQSNkvrelykipnLYAIHSVDSLSLLEELIKYENDFLGLE 116
                              89************9538*************988777666544333333344477776445999*****************99999 PP

             KCNQ_channel 174 kkLDlLldv 182
                               k+ + ++ 
  PHY93_07515|PHY93_07515 117 LKIFFQVNT 125
                              999887775 PP

>> DUF695  Family of unknown function (DUF695)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.5   0.1   0.00047       4.2      52      91 ..      47      85 ..       3     111 .. 0.73
   2 ?    4.8   0.0    0.0032        29      32      68 ..     115     149 ..      98     213 .. 0.74

  Alignments for each domain:
  == domain 1  score: 7.5 bits;  conditional E-value: 0.00047
                   DUF695 52 seeeydkLekiedallealkakpnalyvGritsngtrdly 91
                             +++ +d  ek + ++ e+l +k   +++G++ sn++r+ly
  PHY93_07515|PHY93_07515 47 ENRVQDLKEKADTFVKENL-NKVRWHFIGHLQSNKVRELY 85
                             4444444455555667777.8******************9 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.0032
                   DUF695  32 ykhvvvvrveykapden.GlpseeeydkLekiedalle 68 
                              ++  ++++v + +++e+ G+ + ee   L++  d l  
  PHY93_07515|PHY93_07515 115 LELKIFFQVNTSHETEKsGFETAEE---LNRAIDLLMS 149
                              55679999*9999888879988776...5555555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (230 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       620  (0.0345808); expected 358.6 (0.02)
Passed bias filter:                      407  (0.0227007); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1742.80
//
Query:       PHY93_07520|PHY93_07520  [L=312]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.4e-23   83.9   0.0      2e-23   83.4   0.0    1.3  1  DIOX_N        non-haem dioxygenase in morphine synthesis N-te
    2.7e-15   56.7   0.0    4.5e-15   56.0   0.0    1.3  1  2OG-FeII_Oxy  2OG-Fe(II) oxygenase superfamily
  ------ inclusion threshold ------
       0.11   12.1   0.0       0.22   11.2   0.0    1.4  1  Prolactin_RP  Prolactin-releasing peptide


Domain annotation for each model (and alignments):
>> DIOX_N  non-haem dioxygenase in morphine synthesis N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   83.4   0.0   3.3e-27     2e-23       9     118 .]      15     127 ..       7     127 .. 0.89

  Alignments for each domain:
  == domain 1  score: 83.4 bits;  conditional E-value: 3.3e-27
                   DIOX_N   9 l..sddedraavaeqlreAcrevGffyvvnhgvpeelidelfeaareFFalPeeeKekl.akspsfrGysrlgeektdg.kkldwk 90 
                              +  +++ d+ ++++++ + ++++Gf++++ h ++++ id+++e+++ FF+lP+e+K k+   ++++rGy+++++e+ +  k++d+k
  PHY93_07520|PHY93_07520  15 YvnGSNTDKIKFVDNIFAGLKDYGFIILKDHPIEQKKIDRAYELVQAFFELPLETKIKYkLDNGGQRGYTPFKTEHAKDnKNPDLK 100
                              3555678999*************************************************55567*************999****** PP

                   DIOX_N  91 esfdlgtelpeddpagkplegpnqwPee 118
                              e++++g+el +++ +++ +++ n+wP+e
  PHY93_07520|PHY93_07520 101 EFWHVGRELLATS-SYQGIYPENIWPTE 127
                              ********87664.7999********86 PP

>> 2OG-FeII_Oxy  2OG-Fe(II) oxygenase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.0   0.0   7.5e-19   4.5e-15       3     101 .]     173     275 ..     171     275 .. 0.89

  Alignments for each domain:
  == domain 1  score: 56.0 bits;  conditional E-value: 7.5e-19
                              -EEEEEEE-S-..--------EEEEEESSSEEEEEEE-TT---EE.EETEEEE----TTEEEEEE-HHHHHHTTS-S----EEE-. CS
             2OG-FeII_Oxy   3 ellvlnyypph..pdpevilglgahtdaslltillqddvgglevf.kdgkwlrvppvdnslivniGdallflsngryksvlHrVl. 84 
                              +++++ +ypp    d+ ++++  ah d +l+t+l + +  gl+++ +dg+wl+v+  +++++v  Gd++  ++n+ ++s+ HrV  
  PHY93_07520|PHY93_07520 173 SIIRMIHYPPTkgEDTQNSIRSAAHEDINLITMLVGATESGLQLLeRDGSWLDVNSRPGEIVVDTGDMISRITNNVLPSTTHRVIn 258
                              66778889**955555559999**********************857788**********************************96 PP

                              ---GTGSEEEEEEEE-- CS
             2OG-FeII_Oxy  85 pvnegerRvsiayfiep 101
                              p+  ++ R+s+ +f++p
  PHY93_07520|PHY93_07520 259 PSSDSSARYSMPFFVHP 275
                              6666666*******997 PP

>> Prolactin_RP  Prolactin-releasing peptide
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   3.6e-05      0.22       4      22 ..      89     107 ..      87     109 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 3.6e-05
             Prolactin_RP   4 qhsvenrspeIdPaWYvGR 22 
                              +h  +n++p+   +W vGR
  PHY93_07520|PHY93_07520  89 EHAKDNKNPDLKEFWHVGR 107
                              7999*************** PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (312 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       365  (0.0203581); expected 358.6 (0.02)
Passed bias filter:                      352  (0.019633); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 2307.74
//
Query:       PHY93_07525|PHY93_07525  [L=420]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      2e-16   60.7   0.0    8.8e-16   58.6   0.0    2.1  2  Fic            Fic/DOC family
    2.1e-07   30.9   0.0    4.7e-07   29.8   0.0    1.6  1  Fic_N          Fic/DOC family N-terminal
      6e-05   23.2   0.8    0.00013   22.1   0.8    1.7  1  Ribosomal_S25  S25 ribosomal protein


Domain annotation for each model (and alignments):
>> Fic  Fic/DOC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       2.1   1.2e+04      38      49 ..      38      49 ..       6      80 .. 0.65
   2 !   58.6   0.0   1.5e-19   8.8e-16       3      93 ..     144     257 ..     142     261 .. 0.87

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 2.1
                             ---SCCCHHHHH CS
                      Fic 38 alappeevpael 49
                              ++pp++++ +l
  PHY93_07525|PHY93_07525 38 PPPPPRNIKGKL 49
                             556666776665 PP

  == domain 2  score: 58.6 bits;  conditional E-value: 1.5e-19
                              SHHHHHHHHCHS-S----...--TS--SS-S...........T..EEEE---SCCCHHHHHHHHHHHHC.........HHT-S-.. CS
                      Fic   3 tledllelhrlllqdige...eagefrdeev...........segklesalappeevpaeleelleyln.........elekee.. 63 
                              ++e ++++h++++++ ++    +g++r+  +           ++++ ++ +app ev+  l+++l++l          +       
  PHY93_07525|PHY93_07525 144 SEELICKIHKEIVEKDPNsngIPGKLRTPGEigslvtigglnRKEESRYNPAPPNEVKRCLDDVLKWLAdedlsqqgdA----Gag 225
                              7899********99988888877999995559999999***999*************************8765544444....166 PP

                              ..HHHHHHHHHHHHHHH--SSS-HHHHHHHHH CS
                      Fic  64 ..plekaaalhyefekiHPFaDGNgRtarlll 93 
                                + +++a+ h +fe+ HPF+DGNgRt+r+l 
  PHY93_07525|PHY93_07525 226 ltLPIRLAIGHSHFEAVHPFTDGNGRTGRALW 257
                              66***************************985 PP

>> Fic_N  Fic/DOC family N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.8   0.0   7.8e-11   4.7e-07       2      77 ..      52     128 ..      51     132 .. 0.87

  Alignments for each domain:
  == domain 1  score: 29.8 bits;  conditional E-value: 7.8e-11
                    Fic_N   2 kllseAnralgeLdgllrllpnpelLirplvrkEAvlSSeIEgtqttlddlleaeadeeee.kskdvkEVlnYvkAl 77 
                              +llseA + l  L  + ++ +  +l+ + +vr+E v+SS++Egt +t+d +l   + +++   +++ + V  Y + l
  PHY93_07525|PHY93_07525  52 ELLSEAIKTLNTLPRYNEMSELDKLINYLFVRREVVQSSRLEGTWSTMDHVLTPGELSDNGvGKDAHQAVRSYARLL 128
                              68999************************************************998887773445777777788765 PP

>> Ribosomal_S25  S25 ribosomal protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.1   0.8   2.2e-08   0.00013      33      99 ..     328     394 ..     303     396 .. 0.86

  Alignments for each domain:
  == domain 1  score: 22.1 bits;  conditional E-value: 2.2e-08
            Ribosomal_S25  33 lnnavlfdketydkllkevpkyklitpsvvserlkingslArraLreleekgliklvskhraqviYt 99 
                              l++  + dk+  ++ lk    y +i+ s++ ++l+i+g  + +a+++l ek++i+  + +++  iY+
  PHY93_07525|PHY93_07525 328 LERGKFKDKSAAKRALKILLHYPIISSSILKDKLQISGPASTNAINQLVEKKIIRHRKFENRKPIYA 394
                              55556779999999******************************************99999999997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (420 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       643  (0.0358637); expected 358.6 (0.02)
Passed bias filter:                      534  (0.0297841); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.55u 0.25s 00:00:00.80 Elapsed: 00:00:00.44
# Mc/sec: 2896.48
//
Query:       PHY93_16420|PHY93_16420  [L=119]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    5.1e-32  110.1   0.1    6.5e-32  109.8   0.1    1.1  1  Ribosomal_L21p  Ribosomal prokaryotic L21 protein


Domain annotation for each model (and alignments):
>> Ribosomal_L21p  Ribosomal prokaryotic L21 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  109.8   0.1   3.6e-36   6.5e-32       1     101 []       1      99 [.       1      99 [. 0.96

  Alignments for each domain:
  == domain 1  score: 109.8 bits;  conditional E-value: 3.6e-36
                              XEEEEECSTEEEEESSSEEEEEESSSSSTTCEEEESSEEE....EE.ECTSSSESSTCEEEEEEEEEE---EEEEEEETTTTEEEE CS
           Ribosomal_L21p   1 myAiietgGkqykVeegdvlkvekleaevgdkveldkVllvgskddvkvGaplvegakVeaevvehgkgkkiivfkkkrrknyrrk 86 
                              my ++e++G+qykV+ gd+++vekl +e+g+ +eld+Vl++g+  + +vGap++ gakV+a+v+ h +++k+ivfk k+  +y+r+
  PHY93_16420|PHY93_16420   1 MYGVVEIAGHQYKVQAGDLIDVEKLTKEAGSMIELDQVLFIGG-AKPLVGAPVIGGAKVTAKVLMHDRSRKLIVFKRKP-GGYKRR 84 
                              9***************************************888.5579****************************877.57**** PP

                              EEE--EEEEEEEEEE CS
           Ribosomal_L21p  87 qghRqkytklrItkI 101
                              +ghRq++t l It+I
  PHY93_16420|PHY93_16420  85 NGHRQNFTALLITEI 99 
                              *************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (119 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       371  (0.0206927); expected 358.6 (0.02)
Passed bias filter:                      293  (0.0163422); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 905.80
//
Query:       PHY93_07530|PHY93_07530  [L=296]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
     0.0029   17.8   4.7      0.066   13.3   0.7    2.2  2  OMP_b-brl  Outer membrane protein beta-barrel domain


Domain annotation for each model (and alignments):
>> OMP_b-brl  Outer membrane protein beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.3   0.7   3.7e-06     0.066      63     155 ..      88     180 ..      73     208 .. 0.72
   2 !    6.0   0.3   0.00066        12      17      74 ..     213     278 ..     198     296 .] 0.53

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 3.7e-06
                OMP_b-brl  63 glsysgdkdysgsgktdikinllsvpvnagya.....fnlsdsvlpyggaGlgytkvevdvsgngasdsdtdfglglgaGveyala 143
                               +sy++  + ++    di  + ++++  + y+     f++s+++++ + +  g ++   dvs +   ++++++g+++++  ++++ 
  PHY93_07530|PHY93_07530  88 FVSYNSHAYGNV--ALDIVGDVNNLTPEIDYSvefkkFRTSNNFSLKASFDQGLSQSSSDVSAD---KNSKRSGYSFALEYNFRFL 168
                              555555444444..22444455555555555533335777888**********99999999876...999**************** PP

                OMP_b-brl 144 dnwslkaeYryt 155
                              ++++++a+ r+ 
  PHY93_07530|PHY93_07530 169 PEFEMSAGGRID 180
                              *****9998874 PP

  == domain 2  score: 6.0 bits;  conditional E-value: 0.00066
                OMP_b-brl  17 ssfggfyvg..gglglskvkvdgvgsds..g..fgfgvgagyefndnvgv..egglsysgdkdysg 74 
                               ++ +fy++  +glg s+++v+g++s+   +  +   vg+ + f++ v++  eg++  +++ ++++
  PHY93_07530|PHY93_07530 213 KDKNNFYLTlaAGLGKSTTTVSGDKSSGtvTllPEARVGYLMPFSKSVAMifEGSVESLSASETFQ 278
                              455777777445666666666666543222123555666666667754432366666666666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (296 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       404  (0.0225333); expected 358.6 (0.02)
Passed bias filter:                      307  (0.0171231); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.20s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 2232.45
//
Query:       PHY93_07535|PHY93_07535  [L=1778]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    0.00021   20.9   0.0      0.055   13.0   0.0    3.0  2  FGE-sulfatase  Sulfatase-modifying factor enzyme 1


Domain annotation for each model (and alignments):
>> FGE-sulfatase  Sulfatase-modifying factor enzyme 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.0   0.0   3.1e-06     0.055     179     227 ..    1476    1521 ..    1313    1529 .. 0.86
   2 !    3.7   0.0    0.0021        38     214     258 ..    1720    1760 ..    1707    1762 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 3.1e-06
                               B-TTS-B-TTCSSEEEEEEE--THCCH-SSCS----SS-SSEEEEC--T CS
            FGE-sulfatase  179 pnalGlyDmaGNvwEWtsdwykkyalapaeelsqeaekgelrvvkGgsw 227 
                               ++ +G+ D  GNv EW++d  +   ++ a  +++    ++   + Ggs+
  PHY93_07535|PHY93_07535 1476 SSRYGIQDVYGNVAEWVKDKMT---CSGAAASASTTTLTSATAISGGSF 1521
                               389****************776...666666666666677777777776 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.0021
                               -SS-SSEEEEC--TTS.TTGGCTSTT-E.EEE-TT--BTTEEE-- CS
            FGE-sulfatase  214 aekgelrvvkGgswlkaelssllraafrasaetpdtaasdvGfRl 258 
                               +++++   v+Ggs+l+   +++ r +++       t ++d+GfR+
  PHY93_07535|PHY93_07535 1720 NPTQQGSFVQGGSYLSG--NRSGRYSSELVP--DATVGPDIGFRC 1760
                               66778889*******96..899999999555..6999*******9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1778 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       489  (0.0272742); expected 358.6 (0.02)
Passed bias filter:                      261  (0.0145574); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.97u 0.25s 00:00:01.22 Elapsed: 00:00:00.49
# Mc/sec: 10806.71
//
Query:       PHY93_07540|PHY93_07540  [L=112]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    6.5e-42  142.0  12.9    7.2e-42  141.8  12.9    1.0  1  DMT_6     Putative member of DMT superfamily (DUF486)


Domain annotation for each model (and alignments):
>> DMT_6  Putative member of DMT superfamily (DUF486)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  141.8  12.9     4e-46   7.2e-42       1     105 []       4     108 ..       4     108 .. 0.97

  Alignments for each domain:
  == domain 1  score: 141.8 bits;  conditional E-value: 4e-46
                    DMT_6   1 tilllilsnvfmtlAWyghLk.lkkkplllvilvsWgialfEYllqvpAnriGaeenlslaqlkiiqevitlvvfvlfsvlllkek 85 
                              ti +l++sn+fmt+AWyghLk ++++++++vilvsW ia+fEY++qvpAnriG +  ++laqlki+qe+it+++f +f+v+++k +
  PHY93_07540|PHY93_07540   4 TIGMLVISNLFMTMAWYGHLKsHQHSKVWIVILVSWSIAFFEYCFQVPANRIGIHY-FTLAQLKILQEIITMTIFGVFAVFYMKVP 88 
                              799******************555679*****************************.***************************** PP

                    DMT_6  86 lklnhlvaflllvlavyfvf 105
                              l+ n+l+a ++lv a++f+f
  PHY93_07540|PHY93_07540  89 LTKNFLYASICLVFAAFFIF 108
                              *******************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (112 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       790  (0.0440627); expected 358.6 (0.02)
Passed bias filter:                      213  (0.0118802); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.24s 00:00:00.64 Elapsed: 00:00:00.42
# Mc/sec: 802.04
//
Query:       PHY93_07545|PHY93_07545  [L=269]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    4.7e-48  163.4   0.0    6.8e-48  162.9   0.0    1.2  1  AAA_31       AAA domain
    5.2e-18   65.3   0.0    6.6e-18   65.0   0.0    1.2  1  CbiA         CobQ/CobB/MinD/ParA nucleotide binding domain
    1.3e-10   41.0   0.0    4.6e-07   29.4   0.0    2.2  2  MipZ         ATPase MipZ
      5e-10   39.1   0.2    8.4e-09   35.0   0.2    2.1  1  ArsA_ATPase  Anion-transporting ATPase
    8.9e-10   38.4   0.0    1.5e-09   37.7   0.0    1.3  1  CBP_BcsQ     Cellulose biosynthesis protein BcsQ
    2.4e-09   37.0   0.1    3.1e-08   33.4   0.1    2.1  1  ParA         NUBPL iron-transfer P-loop NTPase
    8.3e-08   32.0   0.0    1.6e-07   31.0   0.0    1.5  1  Fer4_NifH    4Fe-4S iron sulfur cluster binding proteins, Nif
  ------ inclusion threshold ------
       0.02   14.2   0.0      0.037   13.3   0.0    1.4  1  VirC1        VirC1 protein
      0.047   13.5   0.1       0.36   10.6   0.0    2.2  2  ATP_bind_1   Conserved hypothetical ATP binding protein
      0.068   12.1   0.0       0.11   11.5   0.0    1.2  1  MeaB         Methylmalonyl Co-A mutase-associated GTPase MeaB


Domain annotation for each model (and alignments):
>> AAA_31  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  162.9   0.0   3.8e-51   6.8e-48       1     168 [.       2     176 ..       2     184 .. 0.84

  Alignments for each domain:
  == domain 1  score: 162.9 bits;  conditional E-value: 3.8e-51
                   AAA_31   1 gkvIaianqKGGvGKTTtsvnlaaalaklgkkvLlvDlDpQanattglgiekneiektlyevli.eeknikeaiiktkvenl.... 81 
                              gkvI+++nqKGGvGKTT ++n a alak+g+kvL +DlDpQ+n+t  ++    + e ++y++l+ + k++k +   +   n+    
  PHY93_07545|PHY93_07545   2 GKVISFINQKGGVGKTTMAFNAAHALAKNGHKVLAIDLDPQSNLTLLFK---AQNELNIYHLLVnSVKELKMLHAPAMLGNVlsrg 84 
                              59********************************************776...5667799999863444444433322222222333 PP

                   AAA_31  82 ..dlipssidLaeaeielvelekk.eeilkell..ekvkdeYDyiiiDcpPsLglltenaLvasdsviipvqaeayaleGleqllk 162
                                dl+p+  +L++++  +++++   + +lk+++  + ++d+YD+iiiDcpP+Lgll++naL+asd vi+p  +++++l+Gle++++
  PHY93_07545|PHY93_07545  85 lvDLLPAGQELSGFDLTVASINAPrQLVLKKFIesNGLNDRYDFIIIDCPPTLGLLVINALCASDGVIVPFRPDDFSLKGLEHFYQ 170
                              58******************998726668**9944469************************************************ PP

                   AAA_31 163 tieevk 168
                               ie++ 
  PHY93_07545|PHY93_07545 171 VIEDIG 176
                              **9885 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.0   0.0   3.7e-21   6.6e-18       1     102 [.       5     210 ..       5     251 .. 0.90

  Alignments for each domain:
  == domain 1  score: 65.0 bits;  conditional E-value: 3.7e-21
                              EEEEESSTTSSHHHHHHHHHHHHHHTT--EEEEEEEESSCCCCHHTTEB-HHHH................................ CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx................................ RF
                     CbiA   1 iaiastkGGvGKTtlaanLaralarrglrVllvDaDpqannlaileglendiep................................ 54 
                              i+++++kGGvGKTt+a n a ala++g++Vl++D+Dpq+n++  l++ +n+++                                 
  PHY93_07545|PHY93_07545   5 ISFINQKGGVGKTTMAFNAAHALAKNGHKVLAIDLDPQSNLTL-LFKAQNELNIyhllvnsvkelkmlhapamlgnvlsrglvdll 89 
                              6789**********************************99998.9999999999******************************** PP

                              ..........................................................................CCHCCCHHHHHH CS
                              ..........................................................................xxxxxxxxxxxx RF
                     CbiA  55 ..........................................................................dlkrllelleal 66 
                                                                                                        +l+ + +++e++
  PHY93_07545|PHY93_07545  90 pagqelsgfdltvasinaprqlvlkkfiesnglndrydfiiidcpptlgllvinalcasdgvivpfrpddfslkGLEHFYQVIEDI 175
                              ***********************************************************************999888888888888 PP

                              CHCHHHH...EEEEEEEEESS...-TTCHHHHHHHHH CS
                              xxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     CbiA  67 gkkkall.lkiagvvlnrvdgeneetllkealeelkq 102
                              g    ++  +i   v+n vd +   ++++++l +++ 
  PHY93_07545|PHY93_07545 176 GDMGIVKaPEIFLHVPNLVDLR--RKQESDDLNKIIL 210
                              8765556788999999999988..7888888887764 PP

>> MipZ  ATPase MipZ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   29.4   0.0   2.6e-10   4.6e-07       2      40 ..       4      42 ..       3      66 .. 0.89
   2 !    9.6   0.0   0.00028       0.5      95     129 ..     121     155 ..      89     164 .. 0.84

  Alignments for each domain:
  == domain 1  score: 29.4 bits;  conditional E-value: 2.6e-10
                             EEEE--SSTTSSHHHHHHHHHHHHHTTT--EEEEE--TT CS
                     MipZ  2 vivlgnekGGsGksttavhvavaLlkkGarvaaidldlr 40
                             vi + n+kGG Gk+t+a   a aL+k+G++v aidld +
  PHY93_07545|PHY93_07545  4 VISFINQKGGVGKTTMAFNAAHALAKNGHKVLAIDLDPQ 42
                             79999********************************64 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 0.00028
                              HHHHH-SEEEEE--SS--HHHHHHHHT-SEEEEEE CS
                     MipZ  95 dleaeldfividtPGsdsalsrlahsladtlvtPl 129
                               l+ ++dfi+id+P +   l+  a   +d ++ P+
  PHY93_07545|PHY93_07545 121 GLNDRYDFIIIDCPPTLGLLVINALCASDGVIVPF 155
                              57899***************999*9999*999997 PP

>> ArsA_ATPase  Anion-transporting ATPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.0   0.2   4.7e-12   8.4e-09       5      71 ..       7      72 ..       3     146 .. 0.61

  Alignments for each domain:
  == domain 1  score: 35.0 bits;  conditional E-value: 4.7e-12
                             EEEESTTSSHHHHHHHHHHHHHHTTS-EEEEE-STTTHHHHHHTS--BSS-EEETSSEEEEE--HHH CS
              ArsA_ATPase  5 lvgGKGGVGKttvsaatavklsekgkkvllistDPAhslsDsfdqklgkeptkvkeNLsavEidpev 71
                             ++  KGGVGKtt++   a  l+++g+kvl i +DP  +l   f+ + + +   +  N s++E+ +  
  PHY93_07545|PHY93_07545  7 FINQKGGVGKTTMAFNAAHALAKNGHKVLAIDLDPQSNLTLLFKAQNELNIYHLLVN-SVKELKMLH 72
                             7888************************************99998554444333333.445555544 PP

>> CBP_BcsQ  Cellulose biosynthesis protein BcsQ
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.7   0.0   8.4e-13   1.5e-09       6     148 ..       7     158 ..       2     167 .. 0.77

  Alignments for each domain:
  == domain 1  score: 37.7 bits;  conditional E-value: 8.4e-13
                 CBP_BcsQ   6 lqGvRGGvGttsllaaLawalhelgesvlviDlspdnlLrlhFnvdie..qregwaraeldgapwrqaal...eyapgl.dllPfG 85 
                              +   +GGvG+t+++   a+al + g++vl+iDl p+  L+l F+ + e    + ++++  + + +++ a+    +  gl dllP G
  PHY93_07545|PHY93_07545   7 FINQKGGVGKTTMAFNAAHALAKNGHKVLAIDLDPQSNLTLLFKAQNElnIYHLLVNSVKELKMLHAPAMlgnVLSRGLvDLLPAG 92 
                              55568**************************************98755114466666666666666666533234455449***** PP

                 CBP_BcsQ  86 elnveekenlqqlaekaeallaal...kelkeqyrwillDlpagasaltrellaladlvllvvepd 148
                              +  +    +++++++  + +l+++   + l+ +y++i++D+p     l+ ++l  +d v+   +pd
  PHY93_07545|PHY93_07545  93 QELSGFDLTVASINAPRQLVLKKFiesNGLNDRYDFIIIDCPPTLGLLVINALCASDGVIVPFRPD 158
                              9988888888887777777666652325688*************9999999999899888777776 PP

>> ParA  NUBPL iron-transfer P-loop NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.4   0.1   1.7e-11   3.1e-08       4     156 ..       3     168 ..       1     187 [. 0.72

  Alignments for each domain:
  == domain 1  score: 33.4 bits;  conditional E-value: 1.7e-11
                     ParA   4 kviavlSgKGGVGKStvavnlAlaLakkglkvgllDaDiyGpsiprllgvee.........ekpeqsekkliPvea......kgik 74 
                              kvi  +  KGGVGK+t+a n A aLak+g+kv  +D+D    ++  l+++++         +++++ +    P +         + 
  PHY93_07545|PHY93_07545   3 KVISFINQKGGVGKTTMAFNAAHALAKNGHKVLAIDLDPQ-SNLTLLFKAQNelniyhllvNSVKELKMLHAPAMLgnvlsrGLVD 87 
                              67888899***************************99976.678899999987888777763333334334466653233323366 PP

                     ParA  75 vmSigfllesedeavvwrGpmkskaikqllkdvew.gelDyLiiDlPPGtgDeqltvaqkl.plagaviVttpqevaladvkka 156
                              ++  g  l+  d  v    +  + ++k+++++    +  D++iiD+PP  g   l v++ l   +g+++   p + +l+  +  
  PHY93_07545|PHY93_07545  88 LLPAGQELSGFDLTVASINAPRQLVLKKFIESNGLnDRYDFIIIDCPPTLG---LLVINALcASDGVIVPFRPDDFSLKGLEHF 168
                              6666766777777888888888999*****998882469*********998...444444425667666667887777666555 PP

>> Fer4_NifH  4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.0   0.0   9.2e-11   1.6e-07       5      63 ..       8      65 ..       4     142 .. 0.73

  Alignments for each domain:
  == domain 1  score: 31.0 bits;  conditional E-value: 9.2e-11
                Fer4_NifH  5 iyGkGGiGksttsqnlsaalaemgkkvlivGCDPkaDstrlllggkaqetvldtlrekg 63
                             i  kGG+Gk+t + n ++ala++g+kvl +  DP+++ t ll++++++  + ++l +  
  PHY93_07545|PHY93_07545  8 INQKGGVGKTTMAFNAAHALAKNGHKVLAIDLDPQSNLT-LLFKAQNELNIYHLLVNSV 65
                             557************************************.9999999999988876543 PP

>> VirC1  VirC1 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   2.1e-05     0.037       2      44 ..       3      45 ..       2      58 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 2.1e-05
                    VirC1  2 klitfcslkGGaGkttalmglcsalasdgkrvalfeadenrPl 44
                             k+i+f   kGG Gktt    +  ala +g++v   + d    l
  PHY93_07545|PHY93_07545  3 KVISFINQKGGVGKTTMAFNAAHALAKNGHKVLAIDLDPQSNL 45
                             5799999************************998888866655 PP

>> ATP_bind_1  Conserved hypothetical ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0    0.0002      0.36       6      36 ..      13      43 ..      11      56 .. 0.91
   2 ?   -0.3   0.0      0.43   7.6e+02      80      99 ..     114     134 ..     100     136 .. 0.70

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.0002
               ATP_bind_1  6 GsGKttfvgalseilelrgrsvavvNLDPAa 36
                             G+GKtt+  + +  l ++g +v  + LDP +
  PHY93_07545|PHY93_07545 13 GVGKTTMAFNAAHALAKNGHKVLAIDLDPQS 43
                             9****************************65 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 0.43
               ATP_bind_1  80 dwldeelekeed.dyllfDtP 99 
                               ++ e+ + +++ d++++D+P
  PHY93_07545|PHY93_07545 114 KKFIESNGLNDRyDFIIIDCP 134
                              55566665565569******9 PP

>> MeaB  Methylmalonyl Co-A mutase-associated GTPase MeaB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   6.1e-05      0.11      38      72 ..      12      46 ..       4      47 .. 0.93

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 6.1e-05
                             TTSSHHHHHHHHHHHHHCTT--EEEEEE------- CS
                     MeaB 38 PGaGkstlvealglelrrrGkrvavlavDPsspft 72
                              G+Gk t+  + +  l+++G++v  + +DP s+ t
  PHY93_07545|PHY93_07545 12 GGVGKTTMAFNAAHALAKNGHKVLAIDLDPQSNLT 46
                             59*****************************9865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (269 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       390  (0.0217525); expected 358.6 (0.02)
Passed bias filter:                      372  (0.0207485); expected 358.6 (0.02)
Passed Vit filter:                        66  (0.00368119); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.51u 0.25s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 1965.70
//
Query:       PHY93_07550|PHY93_07550  [L=91]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.036   13.8   0.0       0.04   13.6   0.0    1.1  1  XFP       D-xylulose 5-phosphate/D-fructose 6-phosphate phosp


Domain annotation for each model (and alignments):
>> XFP  D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   2.2e-06      0.04      70     111 ..      28      70 ..      16      85 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 2.2e-06
                      XFP  70 gllegYl.ltGrhglfasyEaflrivdsmvnqhakflkkakel 111
                              g+le  l +tG   +++  E+f++i+ s v+ +a f++++k  
  PHY93_07550|PHY93_07550  28 GILELILkKTGLDRMIPILESFIQIILSQVESYAVFIEVKKMF 70 
                              6666543269***************************998765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (91 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       798  (0.0445089); expected 358.6 (0.02)
Passed bias filter:                      334  (0.018629); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.40
# Mc/sec: 681.61
//
Query:       PHY93_07555|PHY93_07555  [L=90]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0093   16.3   0.0      0.024   15.0   0.0    1.6  2  HigB-like_toxin  RelE-like toxin of type II toxin-antitoxin s
  ------ inclusion threshold ------
      0.051   13.6   0.0      0.067   13.2   0.0    1.4  1  YoeB_toxin       YoeB-like toxin of bacterial type II toxin-a


Domain annotation for each model (and alignments):
>> HigB-like_toxin  RelE-like toxin of type II toxin-antitoxin system HigB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.0      0.19   1.7e+03       3      26 ..      12      35 ..      10      39 .. 0.80
   2 !   15.0   0.0   2.7e-06     0.024      44      80 ..      40      76 ..      18      85 .. 0.85

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.19
          HigB-like_toxin  3 Frdkslerffeddetnrkiqskla 26
                             ++d  l  ff  d+ +  iqs ++
  PHY93_07555|PHY93_07555 12 YKDLRLVPFFIVDKFDTWIQSVHE 35
                             678888889999999888888775 PP

  == domain 2  score: 15.0 bits;  conditional E-value: 2.7e-06
          HigB-like_toxin 44 dlrappsnklekLkgdlkglySirvNkqyrlifkfka 80
                             ++r  p+ + e L g+ kg+ Sir+   yr i+k  +
  PHY93_07555|PHY93_07555 40 EVRKIPGYHDEPLLGKRKGFRSIRLSRSYRAIYKTSD 76
                             667789**************************98744 PP

>> YoeB_toxin  YoeB-like toxin of bacterial type II toxin-antitoxin system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   7.5e-06     0.067      42      75 ..      50      83 ..      22      88 .. 0.92

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 7.5e-06
                             EE-SGGGTTEEEEESSSSEEEEEEEESSEEEEEE CS
               YoeB_toxin 42 epLkedlsglwsRRideehRlvYlveddeltils 75
                             epL ++ +g+ s R+ +  R +Y+++d+ ++++ 
  PHY93_07555|PHY93_07555 50 EPLLGKRKGFRSIRLSRSYRAIYKTSDEFVELIV 83
                             99**************************999874 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (90 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       261  (0.0145574); expected 358.6 (0.02)
Passed bias filter:                      219  (0.0122148); expected 358.6 (0.02)
Passed Vit filter:                         7  (0.000390429); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.40
# Mc/sec: 680.11
//
Query:       PHY93_07560|PHY93_07560  [L=101]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.8e-09   37.5   0.0    2.6e-09   37.0   0.0    1.3  1  HTH_3           Helix-turn-helix
    9.1e-07   29.1   0.0    1.2e-06   28.8   0.0    1.1  1  HTH_31          Helix-turn-helix domain
    1.7e-05   24.7   0.2    3.4e-05   23.7   0.0    1.6  2  HTH_37          Helix-turn-helix domain
     0.0026   17.3   0.0     0.0054   16.3   0.0    1.5  1  HTH_24          Winged helix-turn-helix DNA-binding
     0.0051   17.2   0.0     0.0082   16.6   0.0    1.3  1  HTH_26          Cro/C1-type HTH DNA-binding domain
     0.0058   16.6   0.0     0.0081   16.2   0.0    1.2  1  HTH_19          Helix-turn-helix domain
  ------ inclusion threshold ------
      0.021   14.8   0.1       0.18   11.7   0.0    2.1  2  MarR            MarR family
      0.053   13.4   0.0      0.086   12.7   0.0    1.5  1  YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitox
      0.053   13.0   0.0       0.28   10.7   0.0    2.1  2  Sigma70_r4      Sigma-70, region 4
      0.064   13.1   0.0       0.15   12.0   0.0    1.8  2  HTH_25          Helix-turn-helix domain
      0.088   13.0   0.3         18    5.6   0.0    2.6  3  Fe_dep_repress  Iron dependent repressor, N-terminal DNA bind


Domain annotation for each model (and alignments):
>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.0   0.0   1.6e-12   2.6e-09       9      52 ..      34      77 ..      26      80 .. 0.91

  Alignments for each domain:
  == domain 1  score: 37.0 bits;  conditional E-value: 1.6e-12
                             THHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEH CS
                    HTH_3  9 glsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvsl 52
                              +sq eLA+++++s++++ +iE+G+rn +l ++   ak+Lg+s+
  PHY93_07560|PHY93_07560 34 EISQVELAKRMNISKAHLCDIEKGRRNVTLARAMQFAKVLGYSP 77
                             59***************************************997 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.8   0.0   7.2e-10   1.2e-06       3      58 ..      23      77 ..      21      82 .. 0.85

  Alignments for each domain:
  == domain 1  score: 28.8 bits;  conditional E-value: 7.2e-10
                   HTH_31  3 GalLralReraGLsqeevAerlgvsestlsrlEqGrrgrpspavlealaralgldp 58
                             G+     R+   +sq e+A+r ++s+++l ++E Grr ++++a   ++a +lg +p
  PHY93_07560|PHY93_07560 23 GRMIESIRKCDEISQVELAKRMNISKAHLCDIEKGRR-NVTLARAMQFAKVLGYSP 77
                             5555566666679************************.6*************9887 PP

>> HTH_37  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.7   0.0   2.1e-08   3.4e-05      21      73 ..      24      75 ..      20      76 .. 0.93
   2 ?   -3.5   0.0       6.5   1.1e+04      71      78 ..      92      99 ..      90     100 .. 0.75

  Alignments for each domain:
  == domain 1  score: 23.7 bits;  conditional E-value: 2.1e-08
                             HHHHHHHHHCT--HHHHHHHHT--HHHHHHHHTT--TT--HHHHHHHHHHTTE CS
                   HTH_37 21 laiaeliekrelsqseaaqllgiaqPkvsrllrgklsrfsldkLlnlltalGq 73
                             ++i  +++  e+sq e+a++++i+++++ ++++g+ ++++l + +++++ lG 
  PHY93_07560|PHY93_07560 24 RMIESIRKCDEISQVELAKRMNISKAHLCDIEKGR-RNVTLARAMQFAKVLGY 75
                             7899999*************************987.89***********9996 PP

  == domain 2  score: -3.5 bits;  conditional E-value: 6.5
                             TTEEEEEE CS
                   HTH_37 71 lGqkveiv 78
                              G+kv+i 
  PHY93_07560|PHY93_07560 92 VGLKVKIT 99
                             58889885 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0   3.3e-06    0.0054       9      31 ..      26      48 ..      23      50 .. 0.91

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 3.3e-06
                   HTH_24  9 LelLqknprisqreLAerlglSp 31
                             +e ++k   isq eLA+r ++S+
  PHY93_07560|PHY93_07560 26 IESIRKCDEISQVELAKRMNISK 48
                             7899******************7 PP

>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.6   0.0     5e-06    0.0082      10      54 ..      34      77 ..      26      80 .. 0.93

  Alignments for each domain:
  == domain 1  score: 16.6 bits;  conditional E-value: 5e-06
                   HTH_26 10 gitkseLargtgisaatlsrlvkgkpervsldtLdkiCdaLgctp 54
                             +i++ eLa++ +is+a l  + kg+ ++v+l + + ++++Lg +p
  PHY93_07560|PHY93_07560 34 EISQVELAKRMNISKAHLCDIEKGR-RNVTLARAMQFAKVLGYSP 77
                             799*********************9.9**************9877 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0   4.9e-06    0.0081       1      55 [.      23      76 ..      23      84 .. 0.85

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 4.9e-06
                   HTH_19  1 GerLkeaReelgltqeelaerlgisrskisaiEngkkdvpsaelllkiaealgid 55
                             G+++  +R+   ++q ela+r  is++ +  iE+g+++v+   +  ++a+ lg++
  PHY93_07560|PHY93_07560 23 GRMIESIRKCDEISQVELAKRMNISKAHLCDIEKGRRNVTL-ARAMQFAKVLGYS 76
                             8999*********************************6665.5566666666665 PP

>> MarR  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.0      0.32   5.3e+02      27      41 ..       1      15 [.       1      17 [. 0.90
   2 ?   11.7   0.0   0.00011      0.18      10      34 ..      27      51 ..      22      54 .. 0.86

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.32
                             HTS-HHHHHHHHHHH CS
                     MarR 27 lgvskstvtrvldrL 41
                             ++++ks+v ++ld++
  PHY93_07560|PHY93_07560  1 MSIKKSSVIKALDKM 15
                             7899*********98 PP

  == domain 2  score: 11.7 bits;  conditional E-value: 0.00011
                             HHHHHSTTEEHHHHHHHHTS-HHHH CS
                     MarR 10 rilyeqgplsvseLakklgvskstv 34
                             ++++  +++s+ eLak++++sk+++
  PHY93_07560|PHY93_07560 27 ESIRKCDEISQVELAKRMNISKAHL 51
                             67888899**************986 PP

>> YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   5.3e-05     0.086       9      42 ..      35      68 ..      26      77 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 5.3e-05
           YdaS_antitoxin  9 GgqkaLAealgvsqqaVsqWlkgkkqvpaervpe 42
                              +q++LA++ ++s+++ ++  kg+++v+  r  +
  PHY93_07560|PHY93_07560 35 ISQVELAKRMNISKAHLCDIEKGRRNVTLARAMQ 68
                             69***********************999888765 PP

>> Sigma70_r4  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.9   0.0      0.75   1.2e+03      42      49 ..       9      16 ..       5      17 .. 0.82
   2 ?   10.7   0.0   0.00017      0.28      16      42 ..      30      56 ..      24      57 .. 0.84

  Alignments for each domain:
  == domain 1  score: -0.9 bits;  conditional E-value: 0.75
                             HHHHHHHH CS
               Sigma70_r4 42 krAlrkLR 49
                              +Al+k+R
  PHY93_07560|PHY93_07560  9 IKALDKMR 16
                             589***99 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 0.00017
                             HHTTT--HHHHHHHHTS-HHHHHHHHH CS
               Sigma70_r4 16 rfgeglTleEIgerlgiSrerVrqiek 42
                             r  ++ ++ E+++r++iS+ +   iek
  PHY93_07560|PHY93_07560 30 RKCDEISQVELAKRMNISKAHLCDIEK 56
                             567899************998777775 PP

>> HTH_25  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.0       5.3   8.6e+03      25      33 ..       7      15 ..       5      16 .. 0.74
   2 ?   12.0   0.0   8.9e-05      0.15       6      34 ..      30      58 ..      25      77 .. 0.89

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 5.3
                             HHHHHHHCT CS
                   HTH_25 25 dylealEed 33
                             ++++al+++
  PHY93_07560|PHY93_07560  7 SVIKALDKM 15
                             789999876 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 8.9e-05
                             HHTTT--HHHHHHHSS--HHHHHHHHCT- CS
                   HTH_25  6 RearglsleevaketkIrkdylealEedd 34
                             R+   +s  e+ak+ +I+k++l  +E+++
  PHY93_07560|PHY93_07560 30 RKCDEISQVELAKRMNISKAHLCDIEKGR 58
                             67778999******************996 PP

>> Fe_dep_repress  Iron dependent repressor, N-terminal DNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.1     0.022        36      32      47 ..       1      16 [.       1      18 [. 0.91
   2 ?    5.6   0.0     0.011        18      23      37 ..      35      49 ..      27      51 .. 0.88
   3 ?   -1.9   0.0       2.4   3.9e+03      22      36 ..      63      77 ..      59      77 .. 0.72

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.022
                             HTS-HHHHHHHHHHHH CS
           Fe_dep_repress 32 LnvspssVsemlkkLe 47
                             + +++ssV + l k++
  PHY93_07560|PHY93_07560  1 MSIKKSSVIKALDKMR 16
                             789***********96 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.011
                             B-HHHHHHHHTS-HH CS
           Fe_dep_repress 23 vktkdlaerLnvsps 37
                             +++ +la+r+n+s++
  PHY93_07560|PHY93_07560 35 ISQVELAKRMNISKA 49
                             67889********97 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 2.4
                             SB-HHHHHHHHTS-H CS
           Fe_dep_repress 22 vvktkdlaerLnvsp 36
                              ++ ++ a++L+ sp
  PHY93_07560|PHY93_07560 63 LARAMQFAKVLGYSP 77
                             467788888888776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (101 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       547  (0.0305092); expected 358.6 (0.02)
Passed bias filter:                      437  (0.0243739); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.42
# Mc/sec: 730.18
//
Query:       PHY93_07565|PHY93_07565  [L=414]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.037   12.6   0.2      0.052   12.2   0.2    1.2  1  DUF1302   Protein of unknown function (DUF1302)


Domain annotation for each model (and alignments):
>> DUF1302  Protein of unknown function (DUF1302)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.2   2.9e-06     0.052     180     225 ..     266     310 ..     263     375 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 2.9e-06
                  DUF1302 180 llPvnmlsaslgltdnlsveafYqleWektrldpcGTfFStsDvvg 225
                              l P  m++++++++++ s++af  l + k+r+ ++G +FS  D++ 
  PHY93_07565|PHY93_07565 266 LAPSLMIYGKFDINETSSFKAFDALLYSKSRFNNSGLYFS-YDLAD 310
                              67999**********************************9.66662 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (414 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       433  (0.0241508); expected 358.6 (0.02)
Passed bias filter:                      358  (0.0199677); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.24s 00:00:00.74 Elapsed: 00:00:00.41
# Mc/sec: 3057.45
//
Query:       PHY93_07570|PHY93_07570  [L=104]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (104 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1306  (0.0728429); expected 358.6 (0.02)
Passed bias filter:                      602  (0.0335769); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.39
# Mc/sec: 799.66
//
Query:       PHY93_07575|PHY93_07575  [L=349]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
   1.2e-109  366.4   0.0   1.4e-109  366.2   0.0    1.0  1  Queuosine_synth  Queuosine biosynthesis protein
  ------ inclusion threshold ------
      0.019   14.4   0.1      0.033   13.7   0.1    1.4  1  Acetyltransf_15  Putative acetyl-transferase


Domain annotation for each model (and alignments):
>> Queuosine_synth  Queuosine biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  366.2   0.0  1.6e-113  1.4e-109       1     325 []      11     349 .]      11     349 .] 0.95

  Alignments for each domain:
  == domain 1  score: 366.2 bits;  conditional E-value: 1.6e-113
                              X-TT-----GGGB-SS--SSGGGSEEEEEETTTTEEEEEEGGGGGGG--TT-EEEEEEEEE-S-EEEEE--.---EEEEEEEE... CS
          Queuosine_synth   1 lsdfdfeLpeeliAqePaeeRdesrLlvldrktgeiehkrfrdlvdlLregdlLvlNdtkviparllgekektggkvevlllkel. 85 
                              ls+++f+LpeeliAq+Pa+   esrLlv++ +t+e+ h+ f+++ ++L +  lLv+N +kv+p+rllg+k+ +ggk e++ll++  
  PHY93_07575|PHY93_07575  11 LSSYHFDLPEELIAQRPAA---ESRLLVYKASTNEVIHDYFKNIGSYLPASTLLVFNRSKVFPSRLLGTKQ-SGGKAELFLLSTAp 92 
                              589**************97...5**********************************************96.69********7557 PP

                              ........EEEEEES-TT--TT-EEEE...EEEEEEEETT.S-EEEEEE.....HHHHHH---------........--------- CS
          Queuosine_synth  86 ........wealvkpakklkageklel...lkaevlekeeegerlvkfe.eeleelleelGevplppyikr......dkerYqtvy 153
                                      + al+k++++ k+g++ ++   lka++ + +++g+  v+f+ +++ ++le++ ++p+ppyi++      d+++Yqt y
  PHY93_07575|PHY93_07575  93 qkvnnediYPALIKTTSSKKIGDQYSFlpnLKATLKTINNDGTFGVSFStSDIISFLEAHAKIPIPPYIRNgesdeqDRKNYQTTY 178
                              788899999********************9777777765589*******999*****************6677777899******* PP

                              -----------GGGG--HHHHHHHHHHT-EEEEEEEEE--------------------EEEEE-HHHHHHHHHHHHHT--EEEESH CS
          Queuosine_synth 154 akeegsvaaPtAglhFteelleklkakgvevaevtLhvGlgtfrpvevedieehkmhsEryevseetaeainaakaeggrviAVGT 239
                              a e gsvaaPtAglhFte+lleklk+  + +a+vtLhvGlgtf+pv++ +i++h+mhsE +  +e + e i++a+ e+++++AVGT
  PHY93_07575|PHY93_07575 179 ALEVGSVAAPTAGLHFTEALLEKLKSFKIATAFVTLHVGLGTFKPVKTAEIKDHQMHSENFFFDEINNELIKSARCEKKKIFAVGT 264
                              *99*********************************************************************************** PP

                              HHHHHHH...H...HTSSEEE-------SS---SS-SEEEEE---TT-HHHHHHHHHH-HHHHHHHHHHHHHTT--BSTTS-EEEE CS
          Queuosine_synth 240 TsvRalEsaaseegaakaasgetdlfiypgykfkvvdaLlTnfhlPkStllmlvsAfagrekileaYkeAveekYrFfsyGDamli 325
                              Ts+R+lEs  + ++   + + +t++f++pg+++k vd+L+TnfhlP+S+llmlvs+++grek le+Y+ A++e+YrFfsyGD mli
  PHY93_07575|PHY93_07575 265 TSLRVLESSFE-KNLEPNITYSTNIFLHPGVEIKSVDGLITNFHLPQSSLLMLVSSMIGREKALELYDIAIKEQYRFFSYGDGMLI 349
                              *******8887.56666889*****************************************************************8 PP

>> Acetyltransf_15  Putative acetyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.1   3.6e-06     0.033      29      85 ..     281     339 ..     226     348 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 3.6e-06
          Acetyltransf_15  29 aitknenky..divqykkkeeLvasvfivkkkyyslvssilieknvleiYtlyvsekyr 85 
                              +it+ +n +    v++k  + L+++  + +     lvss+++++++le+Y++ ++e+yr
  PHY93_07575|PHY93_07575 281 NITYSTNIFlhPGVEIKSVDGLITNFHLPQSSLLMLVSSMIGREKALELYDIAIKEQYR 339
                              555555554113467788999*************************************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (349 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       362  (0.0201908); expected 358.6 (0.02)
Passed bias filter:                      322  (0.0179597); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.23s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 2589.36
//
Query:       PHY93_16425|PHY93_16425  [L=82]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.3e-33  113.5   1.9    3.7e-33  113.4   1.9    1.0  1  Ribosomal_L27  Ribosomal L27 protein


Domain annotation for each model (and alignments):
>> Ribosomal_L27  Ribosomal L27 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  113.4   1.9   2.1e-37   3.7e-33       1      79 []       2      81 ..       2      81 .. 0.97

  Alignments for each domain:
  == domain 1  score: 113.4 bits;  conditional E-value: 2.1e-37
            Ribosomal_L27  1 AhkkagGstkngrdskgkrlGvKkfggqlvkagnIivrQrgtkfhpGenvgiGkdhtlfAlvdGvVkfe.kkkkrkyvsv 79
                             Ahkka+Gst ngrds++k++G Kk+ g++v++gnIi+rQ+gtk++pG+ vg+G+d t++A v+GvVk+   +k++k+vsv
  PHY93_16425|PHY93_16425  2 AHKKAAGSTANGRDSNPKMRGTKKYAGEVVISGNIIIRQKGTKIFPGTGVGMGRDFTIYAIVPGVVKYAyYTKHKKTVSV 81
                             9*******************************************************************965779999987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (82 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       356  (0.0198561); expected 358.6 (0.02)
Passed bias filter:                      258  (0.0143901); expected 358.6 (0.02)
Passed Vit filter:                        10  (0.000557756); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.20s 00:00:00.63 Elapsed: 00:00:00.41
# Mc/sec: 606.56
//
Query:       PHY93_07580|PHY93_07580  [L=372]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   6.2e-148  492.6   0.0   7.7e-148  492.3   0.0    1.0  1  TGT       Queuine tRNA-ribosyltransferase


Domain annotation for each model (and alignments):
>> TGT  Queuine tRNA-ribosyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  492.3   0.0  4.3e-152  7.7e-148       2     349 ..      15     369 ..      13     370 .. 0.98

  Alignments for each domain:
  == domain 1  score: 492.3 bits;  conditional E-value: 4.3e-152
                              TEEEEEEEETTEEEEESEEEEBETTSSBTTB-HHHHH.HTTES-EEEEHHHHHHTTTHHHHHHTT.HHHHHHT--S-EEEE-SHHH CS
                      TGT   2 gaRlGklelphgtietPafmpvgtqgtvkgltpdelkeelgaqiilsntyhlelrpgeelvakag.glhkflgwdkpiltdsggfq 86 
                              +aR+G ++++hg ietP+fmpvgt+++vk++ +++l ee++aqiil+ntyhl+lrpg+el++++g glh f++wd+piltdsgg+q
  PHY93_07580|PHY93_07580  15 KARAGVITTAHGAIETPIFMPVGTRASVKTMWQEDL-EEMNAQIILGNTYHLYLRPGHELIERVGgGLHGFMKWDRPILTDSGGYQ 99 
                              59**********************************.599************************999******************* PP

                              HHHH...EEEESSEEEEE-TTTS-EEEE-HHHHHHHHHHHT-SEEE-------SS--HHHHHHHHHHHHHHHHHHHHHH....SEE CS
                      TGT  87 vfsl...kkiteegvsfqsridGskvlltpeesieiqeklgsDiimalddvvpspaskkrveksverTlrwldrcleah....qal 165
                              vfsl   +k+teegv+fqs++dGs++l++pe+s+eiq++lgsDi+m +d+++  pa+k+r+++s+e Tlrw++rc +++    q+l
  PHY93_07580|PHY93_07580 100 VFSLssmNKVTEEGVTFQSHLDGSRHLISPEKSMEIQRALGSDIVMNFDECPALPATKERLRESMELTLRWAKRCRDYQlkdhQNL 185
                              ****8655********************************************************************777777799* PP

                              EEEE--TT-HHHHHHHHHHHHHH--SEEEE-SSSSSSHHHHHHHHHHHHGGGS-TTS-EEETTB-SHHHHHHHHHTT--EEEESHH CS
                      TGT 166 fgivqGglyedlreesaeelakrdfdgyaigGlsvgeekeellevveavtellpedkprylmGvgtPedlleavalGvDmfdcvyp 251
                              fgi+qGgl++dlr+e++e+l+++df+gya+gGlsvge++ee+++++++ + ++p+dkprylmGvg+P d+l+++++G+Dmfdcv+p
  PHY93_07580|PHY93_07580 186 FGIIQGGLHHDLRTECMERLREIDFEGYALGGLSVGEKNEEMVNFLDNFVHTMPKDKPRYLMGVGKPLDILNGIRAGIDMFDCVLP 271
                              ************************************************************************************** PP

                              HHHHHTTEEEETTEEEETTSGGGTT--SBSSSS--SHHHHH-BHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHHHHHHHHHTT-H CS
                      TGT 252 trtarngraltsegelnlknakyaedfspldegCsCytCknytraylhhllktkemlgaiLltiHNlhyylelfkriReaIkegtf 337
                              tr+arng+ lt++g ln+k+++++ed+ p d++C+C +Ck+y+r+y++hl+   e l+ +++t+HNl++yl++++++R+aI +++f
  PHY93_07580|PHY93_07580 272 TRNARNGQFLTTQGPLNIKKERFKEDLLPPDPECDCKVCKKYSRSYIRHLYTVGEYLAGNMITYHNLYFYLQMTRNARTAILNDQF 357
                              ************************************************************************************** PP

                              HHHHHHHHHHHT CS
                      TGT 338 eefveefarkye 349
                              +ef ++f+++y+
  PHY93_07580|PHY93_07580 358 DEFYTKFYNSYQ 369
                              ********9997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (372 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       406  (0.0226449); expected 358.6 (0.02)
Passed bias filter:                      335  (0.0186848); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.42
# Mc/sec: 2670.99
//
Query:       PHY93_07585|PHY93_07585  [L=114]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-25   89.3   0.6    1.4e-25   89.0   0.6    1.1  1  YajC      Preprotein translocase subunit
     0.0086   16.4   0.0      0.011   16.0   0.0    1.2  1  Orf78     Orf78 (ac78)


Domain annotation for each model (and alignments):
>> YajC  Preprotein translocase subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   89.0   0.6   1.5e-29   1.4e-25       2      78 ..      29     103 ..      28     105 .. 0.95

  Alignments for each domain:
  == domain 1  score: 89.0 bits;  conditional E-value: 1.5e-29
                     YajC   2 sllplvlifvifyfllirpqqkkqkehkemlasLkkGdeVvtigGivGkvvkvdddevtveigesagvkikversai 78 
                              ++lplv++fvifyfl+irpq+kk +  ++++++L+kGde+ t  G++G++  ++d++v +ei+  +gv++kv +s +
  PHY93_07585|PHY93_07585  29 QFLPLVVVFVIFYFLMIRPQKKKFEDEQALINKLAKGDEIYTKAGFIGTIYGINDKIVDLEIA--DGVRVKVLKSQV 103
                              789****************************************************99999994..58*******988 PP

>> Orf78  Orf78 (ac78)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.0   1.3e-06     0.011      74      99 ..      30      55 ..       8      59 .. 0.79

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 1.3e-06
                    Orf78 74 vcvlvllyviyYfvilrerqkssvke 99
                             +  lv+++vi+Yf+++r ++k+ ++e
  PHY93_07585|PHY93_07585 30 FLPLVVVFVIFYFLMIRPQKKKFEDE 55
                             4457999************9998754 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (114 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       769  (0.0428914); expected 358.6 (0.02)
Passed bias filter:                      572  (0.0319036); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.24s 00:00:00.67 Elapsed: 00:00:00.40
# Mc/sec: 848.64
//
Query:       PHY93_07590|PHY93_07590  [L=91]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.5e-16   58.8   0.1    2.7e-16   58.6   0.1    1.2  1  MttA_Hcf106  mttA/Hcf106 family
  ------ inclusion threshold ------
      0.099   13.6   0.0       0.12   13.3   0.0    1.1  1  DUF4834      Domain of unknown function (DUF4834)


Domain annotation for each model (and alignments):
>> MttA_Hcf106  mttA/Hcf106 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.6   0.1   3.1e-20   2.7e-16       1      50 [.       4      53 ..       4      84 .. 0.90

  Alignments for each domain:
  == domain 1  score: 58.6 bits;  conditional E-value: 3.1e-20
                             S-HHHHHHHHHHHHHHS-TTTHHHHHHHHHHHHHHHHHHHHHHHH---XX CS
              MttA_Hcf106  1 lgapelliIlvValllFGpkkLPEvaraLGktLreFkkavkeleeeneke 50
                             lga el +I+++all  GpkkLPE+a++LG++ reF+ka  e+ +e +k+
  PHY93_07590|PHY93_07590  4 LGAGELFLIFIIALLFLGPKKLPELAKGLGQAVREFQKARDEMMNEVNKP 53
                             699***************************************99985444 PP

>> DUF4834  Domain of unknown function (DUF4834)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   1.4e-05      0.12       7      77 ..      10      76 ..       7      85 .. 0.76

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.4e-05
                  DUF4834  7 ilifiiailviglsilsvilrtvfglgsrkkssksaqkqfgnstnsnqqksqsrsetkeegeiieeersek 77
                             +lifiia+l++g   l  + + +   g+  ++ ++a +++ n+ n++++ + +++  k++ e++ ++ +++
  PHY93_07590|PHY93_07590 10 FLIFIIALLFLGPKKLPELAKGL---GQAVREFQKARDEMMNEVNKPHTPT-AQTDAKKDVEVTATKVETS 76
                             5899***************9999...5666666789999999999998887.4555555666665555444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (91 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1017  (0.0567237); expected 358.6 (0.02)
Passed bias filter:                      615  (0.034302); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.23s 00:00:00.66 Elapsed: 00:00:00.41
# Mc/sec: 670.84
//
Query:       PHY93_07595|PHY93_07595  [L=567]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    9.6e-19   67.5   7.5    1.7e-18   66.7   7.5    1.4  1  SecD_SecF      Protein export membrane protein
    4.8e-06   24.5   6.7    9.5e-06   23.6   6.7    1.4  1  ACR_tran       AcrB/AcrD/AcrF family
    0.00011   21.2  13.9    0.00011   21.2  13.9    1.9  3  MMPL           MMPL family
     0.0021   17.5   1.7     0.0083   15.6   1.7    2.1  1  Sec_GG         SecD/SecF GG Motif
  ------ inclusion threshold ------
       0.22   11.7   1.2       0.55   10.4   0.3    2.1  2  RTT107_BRCT_6  Regulator of Ty1 transposition protein 107 BRC


Domain annotation for each model (and alignments):
>> SecD_SecF  Protein export membrane protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.7   7.5   4.8e-22   1.7e-18      16     184 ..     391     556 ..     382     561 .. 0.91

  Alignments for each domain:
  == domain 1  score: 66.7 bits;  conditional E-value: 4.8e-22
                              EEEEEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHHHHHHHHHHTT----HHHHHHHHHHTTSSSHHH CS
                SecD_SecF  16 isvetvgpsvskelaekavlallialvliliyvalrFewrvalaaiialvhDviitvgvlsllgievdlatvaalLtiiGYSvndt 101
                               +  tvgp+++++ ++ka +a +i ++l++++  ++++   ++ a+++l+  v++t+++l++l   ++l  +a++   +G  v+ +
  PHY93_07595|PHY93_07595 391 LEQRTVGPNLGSDSIHKAKIASIIGCMLVFVFAIIYYRF-SGVIAVVTLLLNVLFTIAILVALDATLTLPGLAGIALTVGMAVDAN 475
                              67889********************99999988777775.689999**************************************** PP

                              HHHHHHHHHHHHH--SS-HHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHTTTTHHHHHHHHHHTSTTTTTHHHHHHHHHH CS
                SecD_SecF 102 vvvfdrvrenlrkkkratlkeiinlslnqtLtrtiltslttllvvvallllggdslkdfalallvGlivgtyssifiasplll 184
                              ++vf+++r++lrk    +  + ++l+  + L   + + +t++ + + ll +g + +++fa++ll+G+ v +y++ ++++ l  
  PHY93_07595|PHY93_07595 476 IIVFEKIRDELRK--GISNYKSFELGFASALWTILDAHVTAASAGFCLLNFGTGPIRGFAVTLLIGIGVTVYTAYYVSKLLFE 556
                              **********999..66677889*********778899***************************************987765 PP

>> ACR_tran  AcrB/AcrD/AcrF family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.6   6.7   2.6e-09   9.5e-06     328     429 ..     403     501 ..     397     554 .. 0.80

  Alignments for each domain:
  == domain 1  score: 23.6 bits;  conditional E-value: 2.6e-09
                              HHHHHHHHHHHHHHHHHHHHHHHHHSSHHHHHHHHHHHHHHHHHHHHHHHHTT--BCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                 ACR_tran 328 asieeVvktLleaivLvvlvvflFLqnlratlipaiavPlsllgtfavlkalgfslNlltLfgLvlAiGlvvDdAiVvvEnierkl 413
                               si++ +   +++ +Lv++  +++ +   + +i ++++ l +l+t+a+l+al+ +l l  L g++l +G+ vD  i+v E+i  +l
  PHY93_07595|PHY93_07595 403 DSIHKAKIASIIGCMLVFVFAIIYYRF--SGVIAVVTLLLNVLFTIAILVALDATLTLPGLAGIALTVGMAVDANIIVFEKIRDEL 486
                              6999999999*******9999998764..6799999999*********************************************** PP

                              HHHTS-HHHHHHHHHH CS
                 ACR_tran 414 eeegekpleaalksmk 429
                              ++ g ++ +  + +  
  PHY93_07595|PHY93_07595 487 RK-GISNYKSFELGFA 501
                              99.7777665555544 PP

>> MMPL  MMPL family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -8.4   4.2         5   1.8e+04     285     297 ..      14      26 ..      11      28 .. 0.56
   2 ?   -3.2   0.1      0.82   2.9e+03      26      70 ..      98     142 ..      90     158 .. 0.68
   3 !   21.2  13.9   3.1e-08   0.00011     143     288 ..     406     544 ..     395     551 .. 0.84

  Alignments for each domain:
  == domain 1  score: -8.4 bits;  conditional E-value: 5
                     MMPL 285 lvdvlivlTllPA 297
                              +++vl+vl llP 
  PHY93_07595|PHY93_07595  14 VFVVLAVLVLLPT 26 
                              5555666666555 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 0.82
                     MMPL  26 sdkiivvvlaegdealgsaaaeaavdelvdelkkdtkhvgevsdf 70 
                               +k i+v+ + +d+ + +++ +++++  v+  k+++++++ + ++
  PHY93_07595|PHY93_07595  98 DPKQILVFSKASDMDAAKKKIKEYYTGNVRITKEEGDKLEIALAT 142
                              455667777778888888888888888888887777777666555 PP

  == domain 3  score: 21.2 bits;  conditional E-value: 3.1e-08
                     MMPL 143 rdlklievvtlvvilviLlivyrSlvaallplltvvvsllaalglvlilalllglelstfvlgl.lvvlliavGtDYallLvsRyr 227
                              +++k++ +++ ++++v  +i yr     ++ ++t ++ +l ++++      l +l+ + + +gl  ++l+++ ++D +++++ ++r
  PHY93_07595|PHY93_07595 406 HKAKIASIIGCMLVFVFAIIYYR--FSGVIAVVTLLLNVLFTIAI------LVALDATLTLPGLaGIALTVGMAVDANIIVFEKIR 483
                              6789999****************..56777788889999999999......3344555566777346899**************** PP

                     MMPL 228 eelaagedreeaviravastgkvvtaaGltvaiamlgLvvarlpvlaqvGvaialGvlvdv 288
                              +el++g++  +++   +as+  +++ a +t a a ++L+    + +++++v++ +G+ v+v
  PHY93_07595|PHY93_07595 484 DELRKGISNYKSFELGFASALWTILDAHVTAASAGFCLLNFGTGPIRGFAVTLLIGIGVTV 544
                              ************************************************9988655554444 PP

>> Sec_GG  SecD/SecF GG Motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   1.7   2.3e-06    0.0083       7      24 ..      41      58 ..      37      61 .. 0.87

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 2.3e-06
                             --EE-TTTS-EEEEEEEE CS
                   Sec_GG  7 GlNLGlDFtGGthielqf 24
                             ++NLGlD++GG  ++l  
  PHY93_07595|PHY93_07595 41 KINLGLDLQGGLYMVLGI 58
                             79************9976 PP

>> RTT107_BRCT_6  Regulator of Ty1 transposition protein 107 BRCT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.3   0.00015      0.55      10      84 ..      41     120 ..      38     130 .. 0.76
   2 ?   -2.0   0.0       1.1   3.8e+03      46      79 ..     289     320 ..     244     335 .. 0.56

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00015
            RTT107_BRCT_6  10 kiNlvsdipggtevissi.LkahGikevkv....lskklkiedlvknekkkkkekkkspeyvliatkasqvkkfkkllke 84 
                              kiNl  d++gg  ++  i  k+   +evk+    +++ lk+++++ +  + +++++ +p+ +l+ +kas++ + kk +ke
  PHY93_07595|PHY93_07595  41 KINLGLDLQGGLYMVLGIdFKKVYKDEVKTyarkIENILKDQEIIVSPGSMDETDQMDPKQILVFSKASDMDAAKKKIKE 120
                              799999999999998776445444445554111166688899999999***********************999887764 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 1.1
            RTT107_BRCT_6  46 edlvknekkkkkekkkspeyvliatkasqvkkfk 79 
                              +dl     + + + +k+  yv +  k+  +k+f+
  PHY93_07595|PHY93_07595 289 DDLSDA--RVQIDPQKNDPYVSMDFKQAGAKRFE 320
                              333322..33333344455566666666666665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (567 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       987  (0.0550505); expected 358.6 (0.02)
Passed bias filter:                      492  (0.0274416); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.65u 0.27s 00:00:00.92 Elapsed: 00:00:00.44
# Mc/sec: 3854.06
//
Query:       PHY93_07600|PHY93_07600  [L=308]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    8.1e-62  208.0   7.6    1.2e-61  207.4   7.6    1.2  1  SecD_SecF      Protein export membrane protein
    1.7e-06   27.3   0.5    3.7e-06   26.3   0.0    1.8  2  Sec_GG         SecD/SecF GG Motif
  ------ inclusion threshold ------
        1.6    9.1   9.7       0.43   11.0   0.8    2.6  3  Peptidase_A24  Type IV leader peptidase family
        7.1    6.4  13.5      0.027   14.4   2.5    2.2  3  DUF5079        Domain of unknown function (DUF5079)


Domain annotation for each model (and alignments):
>> SecD_SecF  Protein export membrane protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  207.4   7.6   2.8e-65   1.2e-61      10     183 ..     116     290 ..     107     296 .. 0.95

  Alignments for each domain:
  == domain 1  score: 207.4 bits;  conditional E-value: 2.8e-65
                              SS.-EEEEEEEEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHHHHHHHHHHTT----HHHHHHHHHHT CS
                SecD_SecF  10 dk.daekisvetvgpsvskelaekavlallialvliliyvalrFewrvalaaiialvhDviitvgvlsllgievdlatvaalLtii 94 
                              ++ + e+++v+ vgp+ +kel+ +++ a++ a++ i+iy+a+rF  r+a +a+i+l+hD+i+++g+++++g e++l+tvaalL ii
  PHY93_07600|PHY93_07600 116 ADnKGEIQKVDIVGPKAGKELRLSGIKAMFWAILSIMIYIAIRFDFRYAPGAMISLFHDIIVVAGIIAWTGHEFSLQTVAALLAII 201
                              44367999****************************************************************************** PP

                              TSSSHHHHHHHHHHHHHHHH--SS-HHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHTTTTHHHHHHHHHHTSTTTTTHHHHHH CS
                SecD_SecF  95 GYSvndtvvvfdrvrenlrkkkratlkeiinlslnqtLtrtiltslttllvvvallllggdslkdfalallvGlivgtyssifias 180
                              GYS+ndtv+v+dr+re+ +++k+ tl++ in+++n+tL+rti+tsl tllv v+++++gg ++kdf +a+ +G+i+gtyss++ia+
  PHY93_07600|PHY93_07600 202 GYSINDTVIVYDRIREHEERDKTITLRQHINDAVNDTLSRTIITSLATLLVTVSMYFFGGVAIKDFFFAMSLGIIFGTYSSVYIAA 287
                              *************************************************************************************8 PP

                              HHH CS
                SecD_SecF 181 pll 183
                                 
  PHY93_07600|PHY93_07600 288 ITT 290
                              654 PP

>> Sec_GG  SecD/SecF GG Motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.1       1.5   6.5e+03      12      16 ..      11      15 ..      11      15 .. 0.91
   2 !   26.3   0.0   8.2e-10   3.7e-06       7      27 ..      38      58 ..      34      59 .. 0.91

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 1.5
                             TTTS- CS
                   Sec_GG 12 lDFtG 16
                             +DF G
  PHY93_07600|PHY93_07600 11 IDFVG 15
                             8**98 PP

  == domain 2  score: 26.3 bits;  conditional E-value: 8.2e-10
                             --EE-TTTS-EEEEEEEE-TT CS
                   Sec_GG  7 GlNLGlDFtGGthielqfdqp 27
                              +N+G+DF+GG +i+ +f++p
  PHY93_07600|PHY93_07600 38 HMNYGVDFRGGAEIQTKFEKP 58
                             59******************9 PP

>> Peptidase_A24  Type IV leader peptidase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.0   0.0       1.1   4.8e+03      48      61 ..      24      37 ..      17      92 .. 0.77
   2 ?    2.3   1.7     0.049   2.2e+02      52      99 ..     150     197 ..     125     205 .. 0.58
   3 ?   11.0   0.8   9.7e-05      0.43      43     101 ..     236     292 ..     224     294 .. 0.85

  Alignments for each domain:
  == domain 1  score: -2.0 bits;  conditional E-value: 1.1
            Peptidase_A24 48 qavlgalvgalvll 61
                             +a+l a+++++++ 
  PHY93_07600|PHY93_07600 24 SAILTAIALYGIFT 37
                             45555666666554 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.049
            Peptidase_A24  52 galvgalvlllislvdeqam..GgGDvklaavlgaflgwerlllavlvai 99 
                              ++++  ++ +  + +  +am   + D+ ++a++ a+ g e+ l +v  a 
  PHY93_07600|PHY93_07600 150 SIMIYIAIRFD-FRYAPGAMisLFHDIIVVAGIIAWTGHEFSLQTVA-AL 197
                              33333333332.3444444422478999**********999865543.33 PP

  == domain 3  score: 11.0 bits;  conditional E-value: 9.7e-05
            Peptidase_A24  43 lpnlaqavlgalvgalvlllislvdeqamGgGDvklaavlgaflgwerlllavlvaill 101
                              + +l   ++  l+++lv+++  ++  +++   D+ +a+ lg+++g +  +++  ++ l+
  PHY93_07600|PHY93_07600 236 NDTLSRTIITSLATLLVTVS--MYFFGGVAIKDFFFAMSLGIIFGTYSSVYIAAITTLF 292
                              55677888999999999999..***********************99998888777665 PP

>> DUF5079  Domain of unknown function (DUF5079)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.2       1.3     6e+03      88     104 ..      19      36 ..      11      45 .. 0.49
   2 ?   -0.9   1.0      0.28   1.3e+03      98     127 ..     148     174 ..     137     203 .. 0.55
   3 ?   14.4   2.5     6e-06     0.027      59     145 ..     206     300 ..     187     306 .. 0.75

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 1.3
                  DUF5079  88 vlvtitlvlltvsly.vf 104
                               +vt +++l  ++ly +f
  PHY93_07600|PHY93_07600  19 YIVTASAILTAIALYgIF 36 
                              344444444444444333 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.28
                  DUF5079  98 tvslyvfvvvqfgydlfnywlgiilsliis 127
                              + s+ ++ ++ f+   f y  g ++sl+  
  PHY93_07600|PHY93_07600 148 ILSIMIYIAIRFD---FRYAPGAMISLFHD 174
                              3334444333333...33444444444433 PP

  == domain 3  score: 14.4 bits;  conditional E-value: 6e-06
                  DUF5079  59 lqwirfidfekekaekykkiekrflv........ilnvlvtitlvlltvslyvfvvvqfgydlfnywlgiilsliisylllvigGl 136
                                 + + d  +e++e+ k i  r  +           ++++++  l+tvs+y+f+ v  +   f   lgii+  + s  +  i  l
  PHY93_07600|PHY93_07600 206 NDTVIVYDRIREHEERDKTITLRQHIndavndtlSRTIITSLATLLVTVSMYFFGGVAIKDFFFAMSLGIIFGTYSSVYIAAITTL 291
                              344555667788888888888887776766663333589999999**************99999*************999999999 PP

                  DUF5079 137 flllklpkv 145
                              f+  ++ k+
  PHY93_07600|PHY93_07600 292 FTDTQMKKM 300
                              998776665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (308 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1030  (0.0574488); expected 358.6 (0.02)
Passed bias filter:                      515  (0.0287244); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.42
# Mc/sec: 2199.71
//
Query:       PHY93_07605|PHY93_07605  [L=171]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
        0.1   13.2   0.8        0.1   13.2   0.8    2.1  2  CAAP1           Caspase activity and apoptosis inhibitor 1
       0.15   12.2   0.0       0.19   11.8   0.0    1.3  1  CTXphi_pIII-N1  N-terminal N1 domain of Vibrio phage CTXphi p
        1.6    9.2   6.6        3.7    8.0   6.6    1.6  1  Spore_II_R      Stage II sporulation protein R (spore_II_R)


Domain annotation for each model (and alignments):
>> CAAP1  Caspase activity and apoptosis inhibitor 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.1      0.75   4.5e+03       7      27 ..      75      95 ..      70     103 .. 0.69
   2 ?   13.2   0.8   1.7e-05       0.1      28      63 .]     130     165 ..     116     165 .. 0.93

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 0.75
                    CAAP1  7 YiddreelleqlFkvlkekkl 27
                             Y +d e+ l+ + k++++++ 
  PHY93_07605|PHY93_07605 75 YNKDSEKVLKDASKIIQKDEA 95
                             667777777777777776654 PP

  == domain 2  score: 13.2 bits;  conditional E-value: 1.7e-05
                    CAAP1  28 kkllPdiLKklsleelkelCleqLeglskkrllsIL 63 
                              kk+ P+ LKk++ +e  + +l  L+++s+++l+++L
  PHY93_07605|PHY93_07605 130 KKIDPKNLKKIKYSEALKVTLGPLQKMSERELVQLL 165
                              6888****************************9976 PP

>> CTXphi_pIII-N1  N-terminal N1 domain of Vibrio phage CTXphi pIII
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   3.2e-05      0.19       4      29 ..      18      43 ..      16     112 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 3.2e-05
           CTXphi_pIII-N1  4 fllfltllflspsvtasaincdpntt 29
                             fl+fl llf+ ps+ta +    p  t
  PHY93_07605|PHY93_07605 18 FLIFLGLLFIGPSITAQTDPTVPVET 43
                             9***************8765555443 PP

>> Spore_II_R  Stage II sporulation protein R (spore_II_R)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.0   6.6   0.00061       3.7       9      71 ..      31      96 ..      27     155 .. 0.62

  Alignments for each domain:
  == domain 1  score: 8.0 bits;  conditional E-value: 0.00061
               Spore_II_R  9 vlanSdseeDqklKlkvrdavleeleellkeakskeeaeelikenleeieei...aeevlekegvd 71
                             + a+ d +   ++K +++++v ++++++++e++++++  +l+ ++ ++ e++   a+++++k +++
  PHY93_07605|PHY93_07605 31 ITAQTDPTVPVETKNQIQNQVQNQIQNQIQEEHDTKNLDKLLIDYNKDSEKVlkdASKIIQKDEAS 96
                             778899999999*****************9988555554444333333332200033333333322 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (171 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2071  (0.115511); expected 358.6 (0.02)
Passed bias filter:                      586  (0.0326845); expected 358.6 (0.02)
Passed Vit filter:                        56  (0.00312343); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.50u 0.23s 00:00:00.73 Elapsed: 00:00:00.42
# Mc/sec: 1235.73
//
Query:       PHY93_21570|PHY93_21570  [L=307]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
       0.15   10.6   0.0       0.21   10.2   0.0    1.2  1  Peptidase_M2  Angiotensin-converting enzyme


Domain annotation for each model (and alignments):
>> Peptidase_M2  Angiotensin-converting enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0   1.2e-05      0.21     334     409 ..     177     253 ..     168     279 .. 0.86

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 1.2e-05
                              ----SSHHHHHHHHHHHHHHHH.HHHCTTS-GGG-S-SSHHHHHHHHHHHHHHHTSHHHHHHTTSS.SS-TSSHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_M2 334 mCtevtmedlltvhhelghiqY.qlqYkkqpvlfregAnpgfheaigdvlalsvstpkyLkkigLlldekeedeekd 409
                               Ct+ t++ l+ + ++lg      +q kk  +l  + An +  ea++ ++a++v  pk++++ +++++++ + ++++
  PHY93_21570|PHY93_21570 177 ICTSATQDILTAMEKILGEETGdVFQIKKITFLGNDVANSSHDEALSPLFAVEVDYPKFIRSQKVISKRELQRRQEQ 253
                              59****************866515688888888899*****************************976666554444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (307 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       532  (0.0296726); expected 358.6 (0.02)
Passed bias filter:                      427  (0.0238162); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.38
# Mc/sec: 2417.57
//
Query:       PHY93_21575|PHY93_21575  [L=168]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    9.9e-22   77.0   0.4    1.5e-21   76.4   0.4    1.3  1  Ribosomal_L10    Ribosomal protein L10
     0.0046   16.6   0.1     0.0065   16.1   0.1    1.2  1  MCR_beta         Methyl-coenzyme M reductase beta subunit, C-
  ------ inclusion threshold ------
      0.034   14.5   0.0       0.05   13.9   0.0    1.4  1  RICTOR_phospho   Rapamycin-insensitive companion of mTOR, pho
      0.041   13.4   0.0       0.06   12.9   0.0    1.3  1  Questin_oxidase  Questin oxidase-like


Domain annotation for each model (and alignments):
>> Ribosomal_L10  Ribosomal protein L10
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   76.4   0.4   3.3e-25   1.5e-21       1     100 []       1      98 [.       1      98 [. 0.97

  Alignments for each domain:
  == domain 1  score: 76.4 bits;  conditional E-value: 3.3e-25
                              SSCCCHCCCCCCCCCCCTTSSEEEEEE-TTS-HHHHHHCCCHHHHHGCEEEEESCCCCCCCCHCCTSS.SSCGCCSSSEEEEEESS CS
            Ribosomal_L10   1 ktkekKeelvkelkellkkyksvvvvdyegltvaqlqelRkklrengaelkvvKntlmrrAleetgeeeklkellkgpvalvftne 86 
                              + +++K+e+v+++ ++l+++ks+++v+y+gl++++ ++lR+++  +g+++ vvKn+l+ rAle+ g++  l + l+gp+ +++ n+
  PHY93_21575|PHY93_21575   1 MPNQQKIEQVEQVVKKLSEAKSAALVQYQGLNAENTTQLRANIHAQGGNMEVVKNSLITRALEKMGIK--LPKTLTGPTSIAYCND 84 
                              5789****************************************9**********************6..**************** PP

                              -TCHHHHCCCCCHH CS
            Ribosomal_L10  87 dpvalakvleefak 100
                              d +a+ k +++ +k
  PHY93_21575|PHY93_21575  85 DEIAPLKEIDKVNK 98 
                              ********999865 PP

>> MCR_beta  Methyl-coenzyme M reductase beta subunit, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.1   1.5e-06    0.0065      53     105 ..      26      78 ..      11      88 .. 0.84

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 1.5e-06
                 MCR_beta  53 layqGlnannlvydlvkengkegtvGtvveslveraiedkvikvekklpsgyk 105
                              + yqGlna+n +    + +++ g +  v +sl+ ra+e   ik  k+l++  +
  PHY93_21575|PHY93_21575  26 VQYQGLNAENTTQLRANIHAQGGNMEVVKNSLITRALEKMGIKLPKTLTGPTS 78 
                              57********9998899999999999999****************99977654 PP

>> RICTOR_phospho  Rapamycin-insensitive companion of mTOR, phosphorylation-site
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   1.1e-05      0.05      41      84 ..      62     105 ..      23     114 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 1.1e-05
           RICTOR_phospho  41 esksglrrnrtvtePssldfsqgdeftPvfrvpksktlsletsf 84 
                               +k+g++  +t+t P+s+ + + de +P+ +++k+++ +  tsf
  PHY93_21575|PHY93_21575  62 LEKMGIKLPKTLTGPTSIAYCNDDEIAPLKEIDKVNKDKEVTSF 105
                              4678999*************************999998888888 PP

>> Questin_oxidase  Questin oxidase-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   1.3e-05      0.06      87     118 ..     128     159 ..      80     165 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 1.3e-05
          Questin_oxidase  87 gaeellsrlfggllHPlIhlGyglefgqpalv 118
                               +  l+s ++ggl  Pl  l+y+l f+q +lv
  PHY93_21575|PHY93_21575 128 SKSTLISQFIGGLANPLQRLAYALRFNQTQLV 159
                              4678************************9998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (168 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1215  (0.0677673); expected 358.6 (0.02)
Passed bias filter:                      786  (0.0438396); expected 358.6 (0.02)
Passed Vit filter:                        61  (0.00340231); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.51u 0.24s 00:00:00.75 Elapsed: 00:00:00.42
# Mc/sec: 1209.83
//
Query:       PHY93_21580|PHY93_21580  [L=105]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.2e-18   65.2   9.0    3.2e-18   65.2   9.0    1.9  2  Ribosomal_L12_N  Ribosomal protein L7/L12 dimerisation domain
    2.6e-13   50.1   5.7    3.2e-13   49.8   0.6    2.2  2  Ribosomal_L12    Ribosomal protein L7/L12 C-terminal domain
     0.0066   17.0   7.9       0.01   16.4   7.9    1.4  1  Ribosomal_60s    60s Acidic ribosomal protein
  ------ inclusion threshold ------
      0.025   14.8   1.0      0.042   14.1   1.0    1.4  1  DUF3618          Protein of unknown function (DUF3618)


Domain annotation for each model (and alignments):
>> Ribosomal_L12_N  Ribosomal protein L7/L12 dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.2   9.0   7.1e-22   3.2e-18       1      45 [.      10      57 ..      10      64 .. 0.84
   2 ?   -1.6   0.0      0.52   2.3e+03      12      21 ..      95     104 ..      88     105 .] 0.65

  Alignments for each domain:
  == domain 1  score: 65.2 bits;  conditional E-value: 7.1e-22
                             HHHHHHHHHHTSBHHHHHHHHHHHHHHTTHHHH..HHHHHH.H.HHHH CS
          Ribosomal_L12_N  1 kieeiieaikeltvLElseLvkalEekFGVsAA..APvavaaa.aaaa 45
                             k+++ii++++el+vLElseLvkalEekF+V+A+  APva+a+a +aa+
  PHY93_21580|PHY93_21580 10 KVQKIIDSVAELSVLELSELVKALEEKFDVKAVaaAPVAAAGAaPAAG 57
                             799****************************65448999996635555 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 0.52
                              SBHHHHHHHH CS
          Ribosomal_L12_N  12 ltvLElseLv 21 
                              l + E++++v
  PHY93_21580|PHY93_21580  95 LGLKEAKDMV 104
                              5566777766 PP

>> Ribosomal_L12  Ribosomal protein L7/L12 C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.1   0.5     0.028   1.2e+02      13      39 ..       9      35 ..       2      55 .. 0.71
   2 !   49.8   0.6     7e-17   3.2e-13       1      35 [.      70     105 .]      70     105 .] 0.98

  Alignments for each domain:
  == domain 1  score: 3.1 bits;  conditional E-value: 0.028
                             HHHHHHHHHHH---HHHHHHHHTTTTS CS
            Ribosomal_L12 13 iaVIKaVreitglgLkeaKdlVeaapk 39
                             ++V K++ ++ +l+  e  +lV a+ +
  PHY93_21580|PHY93_21580  9 TKVQKIIDSVAELSVLELSELVKALEE 35
                             466677777778888888888877654 PP

  == domain 2  score: 49.8 bits;  conditional E-value: 7e-17
                              EEEEEEE-TT-HHHHHHHHHHHH.---HHHHHHHHT CS
            Ribosomal_L12   1 fdViLksagakKiaVIKaVreit.glgLkeaKdlVe 35 
                              fdV+++saga+KiaVIK+Vre + +lgLkeaKd+V+
  PHY93_21580|PHY93_21580  70 FDVVITSAGANKIAVIKVVREFKpELGLKEAKDMVD 105
                              9*********************98***********8 PP

>> Ribosomal_60s  60s Acidic ribosomal protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   7.9   2.2e-06      0.01      28      78 ..      19      69 ..       5      79 .. 0.62

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 2.2e-06
                             XXXXXXXXXXXXXXXXXXXX..XXXXXXXXXXXXXXXXXXXXXXXXXXXX.XX CS
            Ribosomal_60s 28 kalegkdieellangaakla..aaaaaaaaaaaaaaaaaaaeekkkeeeeeEe 78
                             ++l   ++ el+++ ++k+   a+aaa+ aaa+aa aa  ++ +++ee+   e
  PHY93_21580|PHY93_21580 19 AELSVLELSELVKALEEKFDvkAVAAAPVAAAGAAPAAGSDATAPAEEKN--E 69
                             44444456677777777766666666666666666666666666666654..3 PP

>> DUF3618  Protein of unknown function (DUF3618)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   1.0   9.5e-06     0.042      17      42 ..      25      50 ..      24      53 .. 0.88

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 9.5e-06
                  DUF3618 17 eLaeTvdeLaaradPkrladrakarv 42
                             eL+e v +L ++ d+k++a   +a++
  PHY93_21580|PHY93_21580 25 ELSELVKALEEKFDVKAVAAAPVAAA 50
                             8******************9877766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (105 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       710  (0.0396006); expected 358.6 (0.02)
Passed bias filter:                      457  (0.0254894); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.44u 0.20s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 806.02
//
Query:       PHY93_21585|PHY93_21585  [L=213]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (213 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       536  (0.0298957); expected 358.6 (0.02)
Passed bias filter:                      442  (0.0246528); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 1589.68
//
Query:       PHY93_16430|PHY93_16430  [L=348]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    8.5e-55  184.6   7.0    1.1e-54  184.2   7.0    1.2  1  GTP1_OBG      GTP1/OBG
    7.7e-26   90.4   0.0    1.2e-25   89.8   0.0    1.3  1  MMR_HSR1      50S ribosome-binding GTPase
    5.7e-14   51.9   0.0    2.9e-13   49.6   0.0    2.0  1  FeoB_N        Ferrous iron transport protein B
    0.00018   21.5   0.3    0.00043   20.3   0.3    1.7  1  MMR_HSR1_Xtn  C-terminal region of MMR_HSR1 domain
     0.0017   18.2   0.1       0.14   12.1   0.1    2.5  2  RsgA_GTPase   RsgA GTPase
     0.0052   16.5   0.0      0.062   13.0   0.1    2.1  2  PduV-EutP     Ethanolamine utilisation - propanediol utilisat
     0.0073   15.8   0.0      0.017   14.5   0.0    1.6  1  Arf           ADP-ribosylation factor family
  ------ inclusion threshold ------
      0.019   14.5   0.1        4.1    6.9   0.1    2.4  2  GTP_EFTU      Elongation factor Tu GTP binding domain
      0.038   14.5   0.0       0.11   13.0   0.0    1.7  2  ABC_tran      ABC transporter
      0.044   13.6   0.0        3.8    7.2   0.0    2.1  2  ATP_bind_1    Conserved hypothetical ATP binding protein
       0.14   11.9   0.0        0.4   10.5   0.0    1.7  1  AAA_29        P-loop containing region of AAA domain


Domain annotation for each model (and alignments):
>> GTP1_OBG  GTP1/OBG
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  184.2   7.0     7e-58   1.1e-54       1     155 []       4     158 ..       4     158 .. 0.99

  Alignments for each domain:
  == domain 1  score: 184.2 bits;  conditional E-value: 7e-58
                              EEEEEEEEE----------BEEETTCCCEEB-S--------EEEEE-TT--SSGCCCTSSEEE-------BTTTB-------EEEE CS
                 GTP1_OBG   1 vdevkikvkaGkGGdGcvsfrrekyvpkggpdGGdGGkGGdvileadeklntlldlkykkkikAenGenGkgknksGkkgkdlvik 86 
                              +dev+i+v +G+GG G+v+frrek +p+ggpdGGdGG GG+vi +ade +ntl++++ kk+++Ae+G+ G g++ +Gk+g+d +++
  PHY93_16430|PHY93_16430   4 IDEVRITVVSGHGGPGAVTFRREKSIPFGGPDGGDGGCGGSVIAVADEGINTLINFRGKKVFSAEDGQGGAGRQLNGKDGEDYILR 89 
                              69************************************************************************************ PP

                              ESTTEEEEETTTTEEEEEE-STT-EEEEE-----EE-GGGC-CSSCSS--EEEE-----EEEEEEEECS CS
                 GTP1_OBG  87 vPvgtvvkdeetgevladltedgeevlvakGGkgGkGnaafksstnraprfaekGeegeereleLelkl 155
                              vPvgt+++++etg v+adl+ ++++v++a+GG+gG+Gn +fks+tn+apr+a++G egee +l Lelkl
  PHY93_16430|PHY93_16430  90 VPVGTIIRNAETGAVIADLNMHDQKVVIAEGGNGGRGNINFKSATNQAPRIAQPGLEGEELNLDLELKL 158
                              *******************************************************************95 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   89.8   0.0   7.4e-29   1.2e-25       2     114 .]     162     284 ..     161     284 .. 0.89

  Alignments for each domain:
  == domain 1  score: 89.8 bits;  conditional E-value: 7.4e-29
                              EEEEESTTSSHHHHHHHHHTSTEEESSSTTSSSSEEEEEEEETTEEEEEEECGGCSSHHHHHHHHHHHHHHHHC.TSEEEEEEETT CS
                 MMR_HSR1   2 vaivGrpNvGKStLinaltgekaivsdkpgtTrdinegrvklkgkeielvDtpGliegaseekglgkaflalee.adlillvvdas 86 
                               a++G pN+GKStLi+a++ ++ +++d+p+tT+++n g v+l++++++++D+pGlie+ase+kglg +fl+++e +++++++vd+s
  PHY93_16430|PHY93_16430 162 LALIGLPNAGKSTLISAISAARPKIADYPFTTLQPNLGVVTLGERSFVVADIPGLIEDASEGKGLGIKFLKHIErTSALVHLVDVS 247
                              699**************************************999***************************99989********99 PP

                              ........TTCSHHHHHHHHHHHHH.TTSEEEEEEES CS
                 MMR_HSR1  87 ........eeklkpldeeleellee.akkplilvlnk 114
                                       e++  +++e+ ++ e+ a+k+ i++l+k
  PHY93_16430|PHY93_16430 248 wcldeyeaFEQYVVVRNEISKYSENlANKREIVCLTK 284
                              9987765522455677888888766888888888887 PP

>> FeoB_N  Ferrous iron transport protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.6   0.0   1.8e-16   2.9e-13       3     154 ..     162     324 ..     160     326 .. 0.87

  Alignments for each domain:
  == domain 1  score: 49.6 bits;  conditional E-value: 1.8e-16
                              EEEEESTTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEETTEEEEEEE----SSSSSSSHHHHHHHHHHHC.TSSSEEEEEEE CS
                   FeoB_N   3 valvGnpnvGkttlfnaltgakqkvgNwpGvtvekkegklklkgkeveivDlPGiYslsayseeekvardflle.eepdvvvnvvd 87 
                              +al+G pn+Gk+tl+ a++ a+ k++ +p +t + + g ++l ++++ + D+PG   +++ se + +  +fl + e++ ++v++vd
  PHY93_16430|PHY93_16430 162 LALIGLPNAGKSTLISAISAARPKIADYPFTTLQPNLGVVTLGERSFVVADIPGL--IEDASEGKGLGIKFLKHiERTSALVHLVD 245
                              79****************************************************8..799************963789999****9 PP

                              GG.......GHHHHHHHHHHHHHT.....TSSEEEEEETHHHHHHTTEEE-HHHHHHHHTS-EEEEBTTTTBTHHHHHH CS
                   FeoB_N  88 at.......nlernLyLtlqllel.....gvpvvlalnmideaekkgieidlkkLsekLgvpvvktsakkkegieellk 154
                               +        +e+ +++  ++        +++ +++l +id++++++i+  +k ++++L+ +v+++s+ ++++i++l++
  PHY93_16430|PHY93_16430 246 VSwcldeyeAFEQYVVVRNEISKYsenlaNKREIVCLTKIDAMTEEEITKFQKFFEAQLDRKVLPISGVSGRNIDNLKA 324
                              8533332225788888888887651111246789******************************************986 PP

>> MMR_HSR1_Xtn  C-terminal region of MMR_HSR1 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.3   0.3   2.6e-07   0.00043      18     102 ..     244     328 ..     225     332 .. 0.75

  Alignments for each domain:
  == domain 1  score: 20.3 bits;  conditional E-value: 2.6e-07
             MMR_HSR1_Xtn  18 etvkkilkeykihnaevliredvtvDdlidviegnrvYipclyvlNKiDlisleeldelare......pnsvviSaekelnldeLk 97 
                               +v+  l ey  ++  v++r++++        ++n   ++ +++l KiD++++ee+ ++++       +++++iS  ++ n+d+Lk
  PHY93_16430|PHY93_16430 244 VDVSWCLDEYEAFEQYVVVRNEISK------YSENLANKREIVCLTKIDAMTEEEITKFQKFfeaqldRKVLPISGVSGRNIDNLK 323
                              5566667777777777777776653......4677777889*******************955577778***************** PP

             MMR_HSR1_Xtn  98 ekiwe 102
                                + +
  PHY93_16430|PHY93_16430 324 ALMIK 328
                              98766 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.0     0.037        61     103     121 ..     163     181 ..     146     195 .. 0.84
   2 !   12.1   0.1   8.4e-05      0.14      48      97 ..     277     326 ..     254     332 .. 0.83

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.037
                              EEECSTTSSHHHHHHHHCT CS
              RsgA_GTPase 103 vlvGqSGvGKStLinallp 121
                              +l+G   +GKStLi a+  
  PHY93_16430|PHY93_16430 163 ALIGLPNAGKSTLISAISA 181
                              6899999*******99875 PP

  == domain 2  score: 12.1 bits;  conditional E-value: 8.4e-05
                              EEEEEEE-GGG--HHHHHHHHHHHHH.HTTSEEEE--TTTHTTHHHHHHHC CS
              RsgA_GTPase  48 epvivlnKiDlleeeeeleelkeele.algyevllvsaktkegleelkell 97 
                              + +++l+KiD ++eee ++++++ +e +l+ +vl +s  +++++++lk+l+
  PHY93_16430|PHY93_16430 277 REIVCLTKIDAMTEEE-ITKFQKFFEaQLDRKVLPISGVSGRNIDNLKALM 326
                              5689************.7777776642899****************99876 PP

>> PduV-EutP  Ethanolamine utilisation - propanediol utilisation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.9   0.0      0.22   3.6e+02       5      23 ..     163     181 ..     160     189 .. 0.87
   2 !   13.0   0.1   3.8e-05     0.062      70     141 ..     256     326 ..     232     328 .. 0.82

  Alignments for each domain:
  == domain 1  score: 0.9 bits;  conditional E-value: 0.22
                PduV-EutP   5 lliGkvgsGKttLtqalkg 23 
                               liG  ++GK tL  a++ 
  PHY93_16430|PHY93_16430 163 ALIGLPNAGKSTLISAISA 181
                              699**********999976 PP

  == domain 2  score: 13.0 bits;  conditional E-value: 3.8e-05
                PduV-EutP  70 vqdateeesvfppgfasvfnkeviGiitkidlaedeenieaveelLksaGaekifevsavekegieellkyl 141
                                + +  ++ +++   ++ nk  i  +tkid + +ee+i++ ++++++   +k+  +s v+  +i++l++ +
  PHY93_16430|PHY93_16430 256 FEQYVVVRNEISKYSENLANKREIVCLTKIDAM-TEEEITKFQKFFEAQLDRKVLPISGVSGRNIDNLKALM 326
                              5555666778899999999999999*******9.999*******************************8765 PP

>> Arf  ADP-ribosylation factor family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.5   0.0   1.1e-05     0.017      18     165 ..     163     320 ..     152     331 .. 0.66

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 1.1e-05
                              EEEESTTSSHHHHHHHHHHSSCEE...CSSSSSEEEEEEEETTEEEEEEEE-S.......SGGGGGGGGGGCTTESEEEEEEETT. CS
                      Arf  18 lllGLDnaGKtTilkklkleelvt...tvPTigfnveeleiknlkftvwDvGG.......qeklRplWknYfektdavifvvDsa. 92 
                               l+GL naGK+T++  ++  + +       T+ +n   ++  + +f v D+ G        + l   + +  e+t a++++vD++ 
  PHY93_16430|PHY93_16430 163 ALIGLPNAGKSTLISAISAARPKIadyPFTTLQPNLGVVTLGERSFVVADIPGliedaseGKGLGIKFLKHIERTSALVHLVDVSw 248
                              589************9998775543235669********************99333221112344556778899999999999863 PP

                              ...-CTTHHHHHHHHHHHCT.SGCCTTSEEEEEEE-TTSTTSS-HHHHHHHTTGGGSSSSSSEEEEEEBTTTTBTHH CS
                      Arf  93 ...dreRleeakeeLkalle.eeelkevallvlaNKqDlpealseeelrellgleelkgkrkleiqkcsavkgeglk 165
                                 + e +e+     +++ + +e+l++   +v   K+D   a++eee+++  +  e + +r  ++   s v+g++++
  PHY93_16430|PHY93_16430 249 cldEYEAFEQYVVVRNEISKySENLANKREIVCLTKID---AMTEEEITKFQKFFEAQLDR--KVLPISGVSGRNID 320
                              33233455555444455544245567778888888888...56777777776666655333..34455555555544 PP

>> GTP_EFTU  Elongation factor Tu GTP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.2   0.0    0.0082        13       4      30 ..     160     186 ..     157     192 .. 0.83
   2 ?    6.9   0.1    0.0025       4.1     125     192 ..     278     330 ..     257     332 .. 0.68

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.0082
                              EEEEEEESTTSSHHHHHHHHHHHTTSS CS
                 GTP_EFTU   4 rnigiighvDhGKtTLtdrLlyktgai 30 
                                +++ig  ++GK+TL+ ++ ++  +i
  PHY93_16430|PHY93_16430 160 ADLALIGLPNAGKSTLISAISAARPKI 186
                              567899999*********999887766 PP

  == domain 2  score: 6.9 bits;  conditional E-value: 0.0025
                              EEEEEESCGST.HHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTTEEEEEEBTTTTBTHHHHHHHHHHHS CS
                 GTP_EFTU 125 iivfiNKmDrl.kaelkeiveevkqklsrkeeklekygekgekevpvvfgSalkgegvktllealvell 192
                               iv+++K+D + ++e+ + ++  + +l                + +v+++S+++g ++++l   +++++
  PHY93_16430|PHY93_16430 278 EIVCLTKIDAMtEEEITKFQKFFEAQL----------------DRKVLPISGVSGRNIDNLKALMIKCI 330
                              577777777764444444444444444................56799999999999998888877765 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   6.8e-05      0.11       3      34 ..     151     182 ..     150     189 .. 0.89
   2 ?   -2.7   0.0       4.6   7.5e+03      57      75 ..     262     280 ..     244     316 .. 0.56

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 6.8e-05
                              EEEEEEETTSEEEEEESTTSSHHHHHHHHTTS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran   3 nvslklkegekvaivGenGaGKStLlkllagl 34 
                              n++l+lk    +a++G   aGKStL+++++  
  PHY93_16430|PHY93_16430 151 NLDLELKLIADLALIGLPNAGKSTLISAISAA 182
                              68899999999******************875 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 4.6
                              CCHCEEEE-SS--S-TTSB CS
                              xxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  57 lrkeigvlpqepqlfpelt 75 
                              +r+ei+ ++++   ++e+ 
  PHY93_16430|PHY93_16430 262 VRNEISKYSENLANKREIV 280
                              4444444444444444332 PP

>> ATP_bind_1  Conserved hypothetical ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.5   0.0     0.015        25       2      23 ..     165     186 ..     164     197 .. 0.87
   2 ?    7.2   0.0    0.0023       3.8      90     180 ..     205     299 ..     187     334 .. 0.72

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.015
               ATP_bind_1   2 vGpaGsGKttfvgalseilelr 23 
                              +G + +GK+t+++a+s  ++++
  PHY93_16430|PHY93_16430 165 IGLPNAGKSTLISAISAARPKI 186
                              79999**********9988776 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.0023
               ATP_bind_1  90 eddyllfDtPGQielfthseslakiveeLes.efalvvvyLvDsqrltdptkfisgllsalsamlrle..l...PhvvvlnkfDll 169
                              e+++++ D+PG ie     + l   ++ L++ e +   v+LvD+  + d  + +++ ++  + + +++  l     +v+l+k+D +
  PHY93_16430|PHY93_16430 205 ERSFVVADIPGLIEDASEGKGLG--IKFLKHiERTSALVHLVDVSWCLDEYEAFEQYVVVRNEISKYSenLankREIVCLTKIDAM 288
                              6689999******9888887776..6777776679999***********8877777666554444433112111469999999998 PP

               ATP_bind_1 170 keklekeleff 180
                               e++  +++ f
  PHY93_16430|PHY93_16430 289 TEEEITKFQKF 299
                              85533333333 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   0.00025       0.4      25      44 ..     162     181 ..     151     183 .. 0.85

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00025
                   AAA_29  25 tlltGpsGsGKSTllDAiqa 44 
                                l+G   +GKSTl+ Ai+a
  PHY93_16430|PHY93_16430 162 LALIGLPNAGKSTLISAISA 181
                              6799*************986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (348 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       468  (0.026103); expected 358.6 (0.02)
Passed bias filter:                      415  (0.0231469); expected 358.6 (0.02)
Passed Vit filter:                        60  (0.00334653); expected 17.9 (0.001)
Passed Fwd filter:                        11  (0.000613531); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.57u 0.24s 00:00:00.81 Elapsed: 00:00:00.43
# Mc/sec: 2456.84
//
Query:       PHY93_21590|PHY93_21590  [L=94]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.5e-18   67.0   0.0    1.6e-18   66.9   0.0    1.0  1  HigB-like_toxin  RelE-like toxin of type II toxin-antitoxin s
     0.0028   17.6   0.0     0.0035   17.3   0.0    1.5  1  YoeB_toxin       YoeB-like toxin of bacterial type II toxin-a


Domain annotation for each model (and alignments):
>> HigB-like_toxin  RelE-like toxin of type II toxin-antitoxin system HigB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   66.9   0.0   1.8e-22   1.6e-18       1      87 [.       3      91 ..       3      94 .] 0.91

  Alignments for each domain:
  == domain 1  score: 66.9 bits;  conditional E-value: 1.8e-22
          HigB-like_toxin  1 kkFrdkslerffeddetn..rkiqsklakklrrklqaldaaedekdlrappsnklekLkgdlkglySirvNkqyrlifkfkaeeaevv 86
                             ++F++k  e +fed + +  r ++ +l ++ rrk+  l +a +  dl++pp+nkle Lkgdl g++Sir+N q+r++f++++++ae v
  PHY93_21590|PHY93_21590  3 VSFANKLAEDLFEDRKSKevRSFPNELHRVARRKILYLYDAAELTDLKVPPGNKLEALKGDLVGYHSIRINIQWRVVFRWNNGNAEEV 90
                             5899********997654338999********************************************************99999876 PP

          HigB-like_toxin 87 d 87
                              
  PHY93_21590|PHY93_21590 91 S 91
                             5 PP

>> YoeB_toxin  YoeB-like toxin of bacterial type II toxin-antitoxin system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   0.0   3.9e-07    0.0035      40      70 ..      56      86 ..      14      94 .] 0.83

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 3.9e-07
                             --EE-SGGGTTEEEEESSSSEEEEEEEESSE CS
               YoeB_toxin 40 kPepLkedlsglwsRRideehRlvYlvedde 70
                             k e+Lk+dl g++s Ri+ + R+v++ ++++
  PHY93_21590|PHY93_21590 56 KLEALKGDLVGYHSIRINIQWRVVFRWNNGN 86
                             789**********************998654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (94 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       316  (0.0176251); expected 358.6 (0.02)
Passed bias filter:                      284  (0.0158403); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.19s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 730.97
//
Query:       PHY93_21595|PHY93_21595  [L=87]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    9.1e-08   32.1   0.0    1.1e-07   31.8   0.0    1.2  1  HTH_3           Helix-turn-helix
    3.5e-06   27.0   0.0      4e-06   26.8   0.0    1.1  1  HTH_19          Helix-turn-helix domain
      4e-05   23.9   0.0    4.9e-05   23.6   0.0    1.1  1  HTH_31          Helix-turn-helix domain
    0.00028   20.7   0.1     0.0015   18.3   0.1    1.9  2  YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitox
  ------ inclusion threshold ------
      0.012   16.0   0.0      0.018   15.5   0.0    1.3  1  HTH_26          Cro/C1-type HTH DNA-binding domain


Domain annotation for each model (and alignments):
>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.8   0.0     3e-11   1.1e-07       8      53 ..      23      68 ..      16      70 .. 0.89

  Alignments for each domain:
  == domain 1  score: 31.8 bits;  conditional E-value: 3e-11
                             TTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHH CS
                    HTH_3  8 lglsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvsld 53
                              g +q+ +A klG +++ ++ +++G+r ++ +t++ la+aLg+s+ 
  PHY93_21595|PHY93_21595 23 MGETQAAFANKLGWTKAKLNELIKGKRGITADTAIDLAEALGTSPK 68
                             5669***************************************985 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.8   0.0   1.1e-09     4e-06      11      57 ..      23      68 ..      14      76 .. 0.88

  Alignments for each domain:
  == domain 1  score: 26.8 bits;  conditional E-value: 1.1e-09
                   HTH_19 11 lgltqeelaerlgisrskisaiEngkkdvpsaelllkiaealgidle 57
                              g tq++ a++lg +++k++++++gk+  ++a++  ++aealg +++
  PHY93_21595|PHY93_21595 23 MGETQAAFANKLGWTKAKLNELIKGKR-GITADTAIDLAEALGTSPK 68
                             588************************.****************987 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.6   0.0   1.4e-08   4.9e-05      16      60 ..      26      69 ..      18      73 .. 0.94

  Alignments for each domain:
  == domain 1  score: 23.6 bits;  conditional E-value: 1.4e-08
                   HTH_31 16 sqeevAerlgvsestlsrlEqGrrgrpspavlealaralgldpae 60
                             +q++ A  lg+++++l+ l  G+rg  + ++   la+alg++p +
  PHY93_21595|PHY93_21595 26 TQAAFANKLGWTKAKLNELIKGKRG-ITADTAIDLAEALGTSPKL 69
                             9***********************9.***************9976 PP

>> YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.1   4.3e-07    0.0015      10      46 ..      26      62 ..      23      65 .. 0.93
   2 ?    3.3   0.0     0.021        76      13      23 ..      58      68 ..      54      75 .. 0.85

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 4.3e-07
           YdaS_antitoxin 10 gqkaLAealgvsqqaVsqWlkgkkqvpaervpeIeka 46
                             +q+a+A +lg +++  + ++kgk++++a   +++ +a
  PHY93_21595|PHY93_21595 26 TQAAFANKLGWTKAKLNELIKGKRGITADTAIDLAEA 62
                             69***************************99998876 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.021
           YdaS_antitoxin 13 aLAealgvsqq 23
                              LAealg+s++
  PHY93_21595|PHY93_21595 58 DLAEALGTSPK 68
                             69******997 PP

>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.5   0.0     5e-06     0.018       9      54 ..      23      67 ..      16      73 .. 0.90

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 5e-06
                   HTH_26  9 rgitkseLargtgisaatlsrlvkgkpervsldtLdkiCdaLgctp 54
                             +g t++ +a ++g ++a+l+ l kgk + +++dt   +++aLg +p
  PHY93_21595|PHY93_21595 23 MGETQAAFANKLGWTKAKLNELIKGK-RGITADTAIDLAEALGTSP 67
                             67789999*****************9.9***************998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (87 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       277  (0.0154498); expected 358.6 (0.02)
Passed bias filter:                      236  (0.013163); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.41u 0.22s 00:00:00.63 Elapsed: 00:00:00.40
# Mc/sec: 653.85
//
Query:       PHY93_21600|PHY93_21600  [L=243]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.9e-17   62.9   0.0    1.4e-16   61.1   0.0    1.9  2  Fic       Fic/DOC family
      0.005   16.9   0.0       0.01   15.9   0.0    1.5  1  Fic_N     Fic/DOC family N-terminal


Domain annotation for each model (and alignments):
>> Fic  Fic/DOC family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0       0.3   2.7e+03      67      78 ..      88      99 ..      30     102 .. 0.69
   2 !   61.1   0.0   1.6e-20   1.4e-16       3      97 .]     102     207 ..      98     207 .. 0.95

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.3
                             HHHHHHHHHHHH CS
                      Fic 67 kaaalhyefeki 78
                             ++a++h +feki
  PHY93_21600|PHY93_21600 88 ALAWIHKNFEKI 99
                             445555555554 PP

  == domain 2  score: 61.1 bits;  conditional E-value: 1.6e-20
                              SHHHHHHHHCHS-S------TS--SS-S........T..EEEE---SCCCHHHHHHHHHHHHC...HHT-S-HHHHHHHHHHHHHH CS
                      Fic   3 tledllelhrlllqdigeeagefrdeev........segklesalappeevpaeleelleyln...elekeeplekaaalhyefek 77 
                              +++++l++h+l  ++   +ag+f+++++        +e+ +++ + +++e+p+++++l+ +++   ++++ + l  ++ ++  f +
  PHY93_21600|PHY93_21600 102 EPATILKIHHLCQEGASGDAGKFKTKNNeiieihnnGERSIRFLPTSAKETPEAVKQLCLKYRqeiQNNEGPDLGIISNFVLDFLC 187
                              5789*******9999999*****999999*******999*************************99999999************** PP

                              H--SSS-HHHHHHHHHHHHH CS
                      Fic  78 iHPFaDGNgRtarlllnllL 97 
                              iHPF+DGNgRt+rll+ llL
  PHY93_21600|PHY93_21600 188 IHPFRDGNGRTSRLLTILLL 207
                              ****************9987 PP

>> Fic_N  Fic/DOC family N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.0   1.1e-06      0.01      25      77 ..      37      89 ..      14      91 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 1.1e-06
                    Fic_N 25 elLirplvrkEAvlSSeIEgtqttlddlleaeadeeeekskdvkEVlnYvkAl 77
                             + L ++ + + A +S +IEg++++ + l+   + + +  ++  +EVl Y++Al
  PHY93_21600|PHY93_21600 37 KALREMAIIQSAESSNRIEGVEIEKNRLVPLLTGKVKPLDRPEEEVLGYKNAL 89
                             6788999**************************9999955699*********9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (243 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       539  (0.030063); expected 358.6 (0.02)
Passed bias filter:                      424  (0.0236488); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.19s 00:00:00.69 Elapsed: 00:00:00.39
# Mc/sec: 1869.55
//
Query:       PHY93_18015|PHY93_18015  [L=275]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    8.5e-37  126.4  12.4    8.5e-37  126.4  12.4    2.7  3  Flagellin_N  Bacterial flagellin N-terminal helical region
    9.1e-20   70.8   6.5    9.1e-20   70.8   6.5    2.8  3  Flagellin_C  Bacterial flagellin C-terminal helical region
  ------ inclusion threshold ------
       0.28   10.3   5.9        1.2    8.3   1.1    2.4  2  DUF2099      Uncharacterized protein conserved in archaea (DU
       0.53    9.8   3.7       0.49    9.9   0.8    2.2  2  Vps5         Vps5 C terminal like


Domain annotation for each model (and alignments):
>> Flagellin_N  Bacterial flagellin N-terminal helical region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  126.4  12.4   1.9e-40   8.5e-37       1     137 [.       5     141 ..       5     143 .. 0.99
   2 ?    1.5   1.3     0.066     3e+02      61     117 ..     171     220 ..     150     231 .. 0.49
   3 ?   -1.3   4.2      0.48   2.1e+03      41      86 ..     209     254 ..     193     272 .. 0.50

  Alignments for each domain:
  == domain 1  score: 126.4 bits;  conditional E-value: 1.9e-40
                              --SS-STTHHHHHHHHHHHHHHHHHHHHTTSBTTSSTTS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
              Flagellin_N   1 istnalalaarsnlnknqaelqkaqeelstGlridsalddaaglaisvslrsqiaglsqlvrnnslgisrlqtaqgalselsdilq 86 
                              i tn+++++ ++nl++ +++ ++ +e+ls+G+ri +a+ddaaglai+++l++q++gl q++rn+++gis++qta+g+lse s+il 
  PHY93_18015|PHY93_18015   5 IATNIASQTVQKNLKEVSNAGNAQLEKLSSGKRITKASDDAAGLAIATNLEAQTKGLRQATRNANDGISLVQTAEGGLSETSNILV 90 
                              78************************************************************************************ PP

                              HHHHHHHHHT-TTTS-SHHHHHHHHHHHHHHHHHHHHHH-EETTEE-SSGG CS
              Flagellin_N  87 rlkelavaasndsnsdedrqslqaelqqLtdelnrianttsfNGekLlagt 137
                              rl+el+++a++d+  +++r  l++e +qLt+e++ri+++t+fNG +Ll+g+
  PHY93_18015|PHY93_18015  91 RLRELTIQAASDTVGEQERGFLDKEYKQLTKEVDRISESTTFNGSQLLNGK 141
                              *************************************************97 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.066
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-TTTS-SHHHHHHHHHHHHHH CS
              Flagellin_N  61 vrnnslgisrlqtaqgalselsdilqrlkelavaasndsnsdedrqslqaelqqLtd 117
                              +++ ++    ++  ++al+ +s++ + +++   ++++ +        +q++l + ++
  PHY93_18015|PHY93_18015 171 SSSIGISGTGIAEKDEALDAISNVDKAIEKVSGQRADLGS-------IQSRLGSTVK 220
                              3333333334444444666666555555555555554333.......3333333333 PP

  == domain 3  score: -1.3 bits;  conditional E-value: 0.48
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
              Flagellin_N  41 aaglaisvslrsqiaglsqlvrnnslgisrlqtaqgalselsdilq 86 
                              ++ +++  s  ++++  +  ++++  +i+ +++a+   s  s+++ 
  PHY93_18015|PHY93_18015 209 GSIQSRLGSTVKNLETQTINQDSARSVIQDVDVAEASASLASNNVV 254
                              3333333333333333333445666666666666665554444333 PP

>> Flagellin_C  Bacterial flagellin C-terminal helical region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.2      0.54   2.4e+03      30      30 ..      52      52 ..      10      84 .. 0.63
   2 ?   -0.7   0.0      0.43   1.9e+03      47      63 ..     121     137 ..      95     142 .. 0.68
   3 !   70.8   6.5     2e-23   9.1e-20       1      85 [.     191     275 .]     191     275 .] 0.98

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.54
                             H CS
              Flagellin_C 30 t 30
                             t
  PHY93_18015|PHY93_18015 52 T 52
                             2 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.43
                              CCHHHHHHHHHHHHHHH CS
              Flagellin_C  47 edvDpaeestrvtklqi 63 
                              ++vD   est ++  q 
  PHY93_18015|PHY93_18015 121 KEVDRISESTTFNGSQL 137
                              46777777777776665 PP

  == domain 3  score: 70.8 bits;  conditional E-value: 2e-23
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHCHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHCTCCHHHHHHH CS
              Flagellin_C   1 ldivdeaitdldkvrselGavqnRlesaitnlkaqsenlkaaesrledvDpaeestrvtklqiliqasyallaqanqlpqsllnl 85 
                              +++vd+ai++++ +r++lG++q+Rl s+++nl++q+ n ++a+s ++dvD+ae+s+ ++ +++   a+++ laqanq+p s+l+l
  PHY93_18015|PHY93_18015 191 ISNVDKAIEKVSGQRADLGSIQSRLGSTVKNLETQTINQDSARSVIQDVDVAEASASLASNNVVKNAAVSTLAQANQIPMSALRL 275
                              578*******************************************************************************997 PP

>> DUF2099  Uncharacterized protein conserved in archaea (DUF2099)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.4   0.3    0.0041        18     135     226 ..      15     107 ..       5     137 .. 0.80
   2 ?    8.3   1.1   0.00026       1.2     194     241 ..     221     270 ..     172     274 .. 0.81

  Alignments for each domain:
  == domain 1  score: 4.4 bits;  conditional E-value: 0.0041
                  DUF2099 135 eeeggivldketaeidqveGvkkAiekgykkiavtvae..aedakklrelekeegvkilifavhttgiskeeaeelveaaDlvtac 218
                              +++   v +  +a++++++  k+ ++++ +  + ++a+    ++k lr+ +++++  i ++     g+s e  + lv+   l++ +
  PHY93_18015|PHY93_18015  15 QKNLKEVSNAGNAQLEKLSSGKRITKASDDAAGLAIATnlEAQTKGLRQATRNANDGISLVQTAEGGLS-ETSNILVRLRELTIQA 99 
                              4444556778888888888877777777666666666644788899******99999**9999999995.6678999999****** PP

                  DUF2099 219 Askeirei 226
                              As ++ e 
  PHY93_18015|PHY93_18015 100 ASDTVGEQ 107
                              **999775 PP

  == domain 2  score: 8.3 bits;  conditional E-value: 0.00026
                  DUF2099 194 avhttgiskeeaeelveaaDlvtacAskeireivkkkallqv..gksvpv 241
                                 t +i+++ a+++++ +D+  a+As + +++vk+ a+ ++  ++++p+
  PHY93_18015|PHY93_18015 221 NLETQTINQDSARSVIQDVDVAEASASLASNNVVKNAAVSTLaqANQIPM 270
                              5668899********************99999999987655411456666 PP

>> Vps5  Vps5 C terminal like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.1      0.15   6.6e+02      35      74 ..      53      92 ..      49     104 .. 0.84
   2 ?    9.9   0.8   0.00011      0.49      41      92 ..     192     243 ..     181     262 .. 0.82

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.15
                     Vps5 35 slesqLkkLykaiellvsqrkelasataelakslesLasl 74
                             +le+q k L +a+ + ++  + + +a + l+++ + L  l
  PHY93_18015|PHY93_18015 53 NLEAQTKGLRQATRNANDGISLVQTAEGGLSETSNILVRL 92
                             7999999999999999999999999999999999988766 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 0.00011
                     Vps5  41 kkLykaiellvsqrkelasataelakslesLaslelskslsralsqlaevee 92 
                               ++ kaie ++ qr +l s+   l++++++L +  ++++ +r + q  +v e
  PHY93_18015|PHY93_18015 192 SNVDKAIEKVSGQRADLGSIQSRLGSTVKNLETQTINQDSARSVIQDVDVAE 243
                              56789********************************999988766555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (275 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       757  (0.0422221); expected 358.6 (0.02)
Passed bias filter:                      328  (0.0182944); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.53u 0.22s 00:00:00.75 Elapsed: 00:00:00.43
# Mc/sec: 1918.37
//
Query:       PHY93_18020|PHY93_18020  [L=275]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.2e-35  122.7  14.5    1.2e-35  122.7  14.5    2.4  2  Flagellin_N    Bacterial flagellin N-terminal helical region
    3.4e-22   78.6   5.9    3.4e-22   78.6   5.9    2.2  2  Flagellin_C    Bacterial flagellin C-terminal helical region
  ------ inclusion threshold ------
      0.049   13.4   1.6      0.056   13.2   0.3    1.7  2  T6SS_VipA      Type VI secretion system, VipA, VC_A0107 or Hc
       0.32   11.1   4.7       0.25   11.5   0.2    2.4  2  Tropomyosin_1  Tropomyosin like


Domain annotation for each model (and alignments):
>> Flagellin_N  Bacterial flagellin N-terminal helical region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  122.7  14.5   2.6e-39   1.2e-35       1     137 [.       5     141 ..       5     143 .. 0.99
   2 !    5.4   5.3    0.0041        18      41      87 ..     206     252 ..     183     274 .. 0.73

  Alignments for each domain:
  == domain 1  score: 122.7 bits;  conditional E-value: 2.6e-39
                              --SS-STTHHHHHHHHHHHHHHHHHHHHTTSBTTSSTTS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
              Flagellin_N   1 istnalalaarsnlnknqaelqkaqeelstGlridsalddaaglaisvslrsqiaglsqlvrnnslgisrlqtaqgalselsdilq 86 
                              i+tn+ +l a+++l+k +++ ++++ +ls+G ri++a ddaaglais++l+++i+g +q++rn+++gis++qta+g+l+e s+il 
  PHY93_18020|PHY93_18020   5 INTNVQSLRAQNSLAKVEENKSNTLAKLSSGSRINKAGDDAAGLAISEKLKANIRGTQQASRNAGDGISMIQTAEGGLNESSNILI 90 
                              9************************************************************************************* PP

                              HHHHHHHHHT-TTTS-SHHHHHHHHHHHHHHHHHHHHHH-EETTEE-SSGG CS
              Flagellin_N  87 rlkelavaasndsnsdedrqslqaelqqLtdelnrianttsfNGekLlagt 137
                              rl+el v++++d+  d++r+  + e+qqLt+e++ria +t+fNG++Ll+g+
  PHY93_18020|PHY93_18020  91 RLRELSVQSASDTIGDQERKFSNLEFQQLTNEMERIATSTQFNGKNLLNGE 141
                              *************************************************96 PP

  == domain 2  score: 5.4 bits;  conditional E-value: 0.0041
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
              Flagellin_N  41 aaglaisvslrsqiaglsqlvrnnslgisrlqtaqgalselsdilqr 87 
                              a+  a  ++l+s i++l++ ++n s + sr+  ++ al++ + +  +
  PHY93_18020|PHY93_18020 206 ASLGALQNRLQSTISNLDVRTENLSAANSRIRDTDIALESAEMTKGN 252
                              55556678******************************987644333 PP

>> Flagellin_C  Bacterial flagellin C-terminal helical region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.2       1.9   8.4e+03      24      40 ..       4      20 ..       4      31 .. 0.63
   2 !   78.6   5.9   7.7e-26   3.4e-22       2      85 ..     192     275 .]     191     275 .] 0.97

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 1.9
                             HHHHHHHHHHHHHCHHH CS
              Flagellin_C 24 Rlesaitnlkaqsenlk 40
                             R++ ++++l aq ++ k
  PHY93_18020|PHY93_18020  4 RINTNVQSLRAQNSLAK 20
                             56666666666665544 PP

  == domain 2  score: 78.6 bits;  conditional E-value: 7.7e-26
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHCHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHCTCCHHHHHHH CS
              Flagellin_C   2 divdeaitdldkvrselGavqnRlesaitnlkaqsenlkaaesrledvDpaeestrvtklqiliqasyallaqanqlpqsllnl 85 
                              +++d+ai+++++ r++lGa qnRl+s+i+nl+  +enl+aa sr++d+D+a es+++tk +il+ a++++laqan+  +s+l+l
  PHY93_18020|PHY93_18020 192 EKIDNAINGVNANRASLGALQNRLQSTISNLDVRTENLSAANSRIRDTDIALESAEMTKGNILSAAATSVLAQANNAGSSALKL 275
                              79***************************************************************************9999976 PP

>> T6SS_VipA  Type VI secretion system, VipA, VC_A0107 or Hcp2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.3   1.3e-05     0.056      37      94 ..      96     151 ..      88     161 .. 0.81
   2 ?   -2.5   0.1      0.85   3.8e+03     121     123 ..     209     211 ..     184     231 .. 0.51

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.3e-05
                              SSS..--SS-TTTS--EEE-TTSHHHHHHHHTEEEEEEEE--SSS-S-EEEEEEEE-S CS
                T6SS_VipA  37 sgkseeekkkleerkfveidkdnfdevlkeikprlalkVentLsedgselavdLkfes 94 
                              s +s++++   +erkf + + +++ + +++i+ +++++ +n L+++g++l+ ++    
  PHY93_18020|PHY93_18020  96 SVQSASDTIGDQERKFSNLEFQQLTNEMERIATSTQFNGKNLLNGEGDKLDFQI--GI 151
                              5555555556689*********************************99665444..44 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 0.85
                              HHH CS
                T6SS_VipA 121 adL 123
                               +L
  PHY93_18020|PHY93_18020 209 GAL 211
                              222 PP

>> Tropomyosin_1  Tropomyosin like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.2      0.11     5e+02      84     128 ..      77     122 ..      44     134 .. 0.61
   2 ?   11.5   0.2   5.5e-05      0.25      54     114 ..     187     247 ..     184     256 .. 0.90

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.11
            Tropomyosin_1  84 lLEeeleesdkkLkette.kLretdvkaeelERkvkaLeqerdewe 128
                                E  l+es++ L    e   + ++ + ++ ERk  +Le ++   e
  PHY93_18020|PHY93_18020  77 TAEGGLNESSNILIRLRElSVQSASDTIGDQERKFSNLEFQQLTNE 122
                              5555555555444333331233344445677888888887766555 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 5.5e-05
            Tropomyosin_1  54 leeklkeakekaeesekkktnnealtrkiqlLEeeleesdkkLkettekLretdvkaeelE 114
                              ++++l++  ++ +  + ++++  al+ ++q    +l+   ++L  ++ ++r+td++ e  E
  PHY93_18020|PHY93_18020 187 AQNNLEKIDNAINGVNANRASLGALQNRLQSTISNLDVRTENLSAANSRIRDTDIALESAE 247
                              57788888888888888899999********************************999888 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (275 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       595  (0.0331865); expected 358.6 (0.02)
Passed bias filter:                      281  (0.0156729); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 2071.74
//
Query:       PHY93_18025|PHY93_18025  [L=151]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    4.4e-16   59.4   0.0    6.5e-16   58.8   0.0    1.4  1  CTP_transf_like  Cytidylyltransferase-like
  ------ inclusion threshold ------
      0.023   14.6   0.2      0.038   13.9   0.2    1.7  1  FAD_syn          FAD synthetase
       0.22   11.7   0.0       0.25   11.5   0.0    1.1  1  RloB             RloB-like protein


Domain annotation for each model (and alignments):
>> CTP_transf_like  Cytidylyltransferase-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.8   0.0   1.1e-19   6.5e-16       2      93 ..      23     113 ..      22     148 .. 0.89

  Alignments for each domain:
  == domain 1  score: 58.8 bits;  conditional E-value: 1.1e-19
                              EEE--TT--HHHHHHHHHHHHHSSESEEEEEESSTHCSST-...SCSSTHHHHHHHHHHHTTCTTEEEEEEESEHHHHHHHTTTTE CS
          CTP_transf_like   2 agGtFDpiHlGHlrlleqakklleedlivgvpsdeppkkkk...kplasaeeRlemlelakevdevisvdpweltrevlkklkpdk 84 
                              ++G+FD++HlGH ++l++ak++++  li+g++sd++++  k   +p+ ++++R +ml  ++ vd v  + + ++  e++k +kpd 
  PHY93_18025|PHY93_18025  23 TNGCFDILHLGHVEYLNEAKAQGDV-LIIGLNSDQSVRALKgadRPINNEHDRKAMLLNLRAVDCVQIFTEETPL-EIIKLIKPD- 105
                              78***********************.**************669**********************8888888887.7********. PP

                              EEEEEEHHH CS
          CTP_transf_like  85 lylvigadv 93 
                               +lv g+d 
  PHY93_18025|PHY93_18025 106 -VLVKGGDW 113
                              .******96 PP

>> FAD_syn  FAD synthetase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.2   6.3e-06     0.038       3      33 ..      15      45 ..      13     135 .. 0.88

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 6.3e-06
                  FAD_syn  3 eedegavvtlGnFDGvHlGHqallkkaveaa 33
                             +e ++ v t G FD +HlGH + l++a+++ 
  PHY93_18025|PHY93_18025 15 NEGRKIVFTNGCFDILHLGHVEYLNEAKAQG 45
                             56688999****************9998765 PP

>> RloB  RloB-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.0   4.2e-05      0.25      93     145 ..      14      70 ..       4      99 .. 0.64

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 4.2e-05
                     RloB  93 eakkkiklavSnpcFElWlllHfedv.qa.lsrkellkklkey...kyekgkekklen 145
                              +++   k++++n cF++  l H+e++ +a ++ + l+  l+     +  kg ++ ++n
  PHY93_18025|PHY93_18025  14 KNEG-RKIVFTNGCFDILHLGHVEYLnEAkAQGDVLIIGLNSDqsvRALKGADRPINN 70 
                              3333.47*******************64435555555555333444333333333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (151 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       337  (0.0187964); expected 358.6 (0.02)
Passed bias filter:                      314  (0.0175135); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 1107.08
//
Query:       PHY93_18030|PHY93_18030  [L=259]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.7e-11   44.5   9.8    2.2e-11   44.2   9.8    1.1  1  RDD       RDD family


Domain annotation for each model (and alignments):
>> RDD  RDD family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.2   9.8   1.2e-15   2.2e-11       2     123 ..     134     250 ..     133     258 .. 0.80

  Alignments for each domain:
  == domain 1  score: 44.2 bits;  conditional E-value: 1.2e-15
                      RDD   2 aslgrRllAfliDlvllliislllallivallnakasaneavagslllllllvlll..vllvyqllllsk.kgqTlGklllglkvv 84 
                              as+g  ++A+++Dl++++ +++++ +l+v+   a++++++ +a ++    l+v+++    ++y l++++    +++Gk ++g++++
  PHY93_18030|PHY93_18030 134 ASVGAQFFAWVVDLLVVVSFVAVTGALLVF---ASGIQFQIFARLISTQDLIVFTAaiFSIYYLLYFTILdLSASPGKTIMGIRLL 216
                              7888889***********************...66666666666666655555554225577888888889*************** PP

                      RDD  85 dedgrklglaqaliRalllllllvlglslvlllllligf 123
                              ++d++++++++ + Ral+ ll      s++l+l +l++f
  PHY93_18030|PHY93_18030 217 RADNKNVTVKNTFTRALISLL-----SSVALFLPMLLDF 250
                              *****************7655.....5677777777766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (259 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       888  (0.0495287); expected 358.6 (0.02)
Passed bias filter:                      447  (0.0249317); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.19s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 1952.01
//
Query:       PHY93_18035|PHY93_18035  [L=226]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.1e-38  131.4   0.0    3.4e-38  131.2   0.0    1.0  1  Methyltrans_RNA  RNA methyltransferase


Domain annotation for each model (and alignments):
>> Methyltrans_RNA  RNA methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  131.2   0.0   1.9e-42   3.4e-38       3     224 ..      19     224 ..      17     226 .] 0.88

  Alignments for each domain:
  == domain 1  score: 131.2 bits;  conditional E-value: 1.9e-42
                              EEHHHHHHHHTTTT--TT-EEEEEESSSEEEEEEEEEEESSEEEEEEEEEEE---SSSSEEEEEEE--SSHHHHHHHHHHHHTT-S CS
          Methyltrans_RNA   3 ltdeeahHlvkVlRlkegdeiklfdgdgkeyeaeieeiskkkvtvkilekeeenkespekitlaqalpkgdklelilqkatElGvs 88 
                              +tde a+Hl +V+R+k+++ei +++g+g ++++++ +isk+++++ ++ + ee+k+s+e i la+a pk+d +e il+ a+ElGv 
  PHY93_18035|PHY93_18035  19 VTDESAKHL-HVVRIKAEEEILVLNGSGLKALTRVGAISKNQIELIVD-SIEESKDSHE-ISLAIANPKKDAFEDILKIAVELGVR 101
                              799******.*********************************88665.6666666766.************************** PP

                              EEEEEE-TTSSS...HHHHHHHHHHHHHHHHHHHHHHT-SS--EEEEEEEHHHHHHHCSCCEEEEEEETTSSEBGGGSSHCCHTHH CS
          Methyltrans_RNA  89 eivplisersvvkldekkkdkklerwqkilieAaeQsgrtrlpevkepislkelleelkeadlklildeeekksleelsekkkelk 174
                              +i+pl se+s      + +    +r+q+il++A+ Qs++ +lp v++ ++l+ +l+++++    l++ +++ +++ + ++ +    
  PHY93_18035|PHY93_18035 102 NIYPLTSEFS------QYDYLASDRVQRILESALIQSNNPFLPIVHPQVNLNIFLDKWNSP---LFFFNSKPNNCGKVEKISG--- 175
                              **********......6789999*************************************8...6666664555555555443... PP

                              CSEEEEEE--TT---HHHHH.HHHHTTCEEEB-SSS---HHHHHHHHHHHH CS
          Methyltrans_RNA 175 evkvlliiGPEGGfsekEie.llkeagfkpvsLgpriLRteTAalaalsal 224
                                  +++iGPEGGfs +E +  l + ++  ++L + iLR+ TA+   ++ l
  PHY93_18035|PHY93_18035 176 --VRAILIGPEGGFSLREEAsILAKSNVFSIHLPTPILRAPTAVASSMGYL 224
                              ..678**********76655166679*****************99887765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (226 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       393  (0.0219198); expected 358.6 (0.02)
Passed bias filter:                      348  (0.0194099); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.22s 00:00:00.67 Elapsed: 00:00:00.38
# Mc/sec: 1767.55
//
Query:       PHY93_18040|PHY93_18040  [L=323]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.6e-48  165.7   0.0    1.9e-48  165.4   0.0    1.1  1  PrmA             Ribosomal protein L11 methyltransferase (Prm
    9.4e-06   25.3   0.0    1.5e-05   24.6   0.0    1.4  1  MTS              Methyltransferase small domain
    0.00072   19.3   0.0     0.0012   18.5   0.0    1.4  1  Cons_hypoth95    Conserved hypothetical protein 95
     0.0031   17.5   0.0     0.0086   16.0   0.0    1.8  1  Methyltransf_18  Methyltransferase domain
     0.0032   18.1   0.2      0.036   14.8   0.0    2.7  3  Methyltransf_25  Methyltransferase domain
  ------ inclusion threshold ------
      0.012   15.5   0.0      0.021   14.7   0.0    1.5  1  Methyltransf_23  Methyltransferase domain
      0.017   14.7   0.0      0.029   13.9   0.0    1.4  1  MetW             Methionine biosynthesis protein MetW
      0.057   14.2   0.1        0.2   12.4   0.1    2.1  1  Methyltransf_12  Methyltransferase domain
      0.099   12.4   0.0       0.15   11.8   0.0    1.4  1  Methyltransf_16  Lysine methyltransferase


Domain annotation for each model (and alignments):
>> PrmA  Ribosomal protein L11 methyltransferase (PrmA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  165.4   0.0   9.4e-52   1.9e-48      84     294 ..     107     322 ..      11     323 .] 0.75

  Alignments for each domain:
  == domain 1  score: 165.4 bits;  conditional E-value: 9.4e-52
                     PrmA  84 kgkvkveeveeedWaeewkkyykPvrigerltivpsweey.peeeeelvieldpGlAFGTGtHpTTklclealekl...vkegeev 165
                              +  + + + + edW +ewkk y P+ i+erl i p+w ++ +e++++  + + pG+ FGTGtH+TT lcl +++k+   +k+ ++ 
  PHY93_18040|PHY93_18040 107 ELPLFTAQKNVEDWNAEWKKFYTPIVISERLEIIPEWLKEsRENSKAQKVYIYPGMGFGTGTHETTYLCLSLFDKIsdqLKPASHC 192
                              223344666779*************************988688999999*************************9977678888** PP

                     PrmA 166 lDvGtGSGiLaiaaakLgakkvvavDiDevAvkvakeNaelNkveakleva..lseellkeekadvivaNILaevlielaedikkl 249
                              lD+G+GSGiL i a+k      v  DiD+ A++   +N+ lN   +kle    + ++  +e+  d+++aNIL +vli   e i + 
  PHY93_18040|PHY93_18040 193 LDFGCGSGILGITALKTKLMPTVFCDIDKSALDNCMQNLVLNFEGEKLEGSklVIRNRYTESLNDLVFANILENVLILEKEVILSS 278
                              ******************************************6666554421133444455899********************** PP

                     PrmA 250 vkeggllilSGilkekaeevaealeqgfeleevlereeWvaivak 294
                              ++++g li+SG+l+++ + + ++++  +e + v+++++W ai ++
  PHY93_18040|PHY93_18040 279 LNKSGFLIVSGLLNHQVDTIVSQYN-SLEKVAVVSKNDWSAILFR 322
                              **********************996.58899999*******9887 PP

>> MTS  Methyltransferase small domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.6   0.0   7.8e-09   1.5e-05      30      78 ..     185     234 ..     161     266 .. 0.77

  Alignments for each domain:
  == domain 1  score: 24.6 bits;  conditional E-value: 7.8e-09
                              C..TCSEEEEET-TTSHHHHHHHHHTTC.EEEEEESBHHHHHHHHHHHHHT CS
                      MTS  30 e..lsgkvlDlGcGaGvlgaalakespeaevtlvdvdarAlesakenlean 78 
                              +   + + lD+GcG G+lg++++k +     +++d+d+ Al+ + +nl  n
  PHY93_18040|PHY93_18040 185 QlkPASHCLDFGCGSGILGITALKTKLM-PTVFCDIDKSALDNCMQNLVLN 234
                              34556789*************9996554.689***********99998766 PP

>> Cons_hypoth95  Conserved hypothetical protein 95
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.5   0.0   5.9e-07    0.0012      31      85 ..     177     232 ..     174     314 .. 0.83

  Alignments for each domain:
  == domain 1  score: 18.5 bits;  conditional E-value: 5.9e-07
                              HHHHHHCCCHC.C-EEEETT-TTSHHHHHHHHTT-SEEEEEES-HHHHHHHHHHHC CS
            Cons_hypoth95  31 alFnilaaeie.garvLDlfaGsGalglEAlSRgakkavlvekdkeavkilkenle 85 
                              +lF+ ++ +++  +++LD  +GsG lg+ Al  +    v+ + dk+a+  + +nl 
  PHY93_18040|PHY93_18040 177 SLFDKISDQLKpASHCLDFGCGSGILGITALKTKLMPTVFCDIDKSALDNCMQNLV 232
                              689999988651679**********************************9999985 PP

>> Methyltransf_18  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.0   4.3e-06    0.0086       7      58 ..     181     231 ..     178     258 .. 0.89

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 4.3e-06
          Methyltransf_18   7 aiaslvekgsrvaDiGtDHgylpiylvkegkakkviasDinegplekakeni 58 
                              +i + +++ s+++D G+  g+l i ++k++ ++  +++Di +++l+++ +n+
  PHY93_18040|PHY93_18040 181 KISDQLKPASHCLDFGCGSGILGITALKTKLMP-TVFCDIDKSALDNCMQNL 231
                              78899999*******************988775.678**********99986 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.0         1     2e+03      21      70 ..      53     100 ..      40     121 .. 0.65
   2 !   14.8   0.0   1.8e-05     0.036       2      41 ..     193     231 ..     192     274 .. 0.82
   3 ?   -2.8   0.0       5.3   1.1e+04      63      76 ..     293     307 ..     290     320 .. 0.65

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 1
                              SSEEEEEESSHHHHHHHHHHHHHTTT...TEEEEESBCCGBSSSTTTEEEEEE CS
          Methyltransf_25  21 kakvtgvDiseemleaareraeeegl...nvefvqgdaedlpfedgsfDlvvs 70 
                              +  + g Di e++++++++   +++    +       + + +fe +s D+v+ 
  PHY93_18040|PHY93_18040  53 ERAYSGGDIPESLIDEVQAATIDQDSftyKYF-----FYQDNFETNSSDFVFF 100
                              55667778888888887776655432222222.....2333456666666665 PP

  == domain 2  score: 14.8 bits;  conditional E-value: 1.8e-05
                              EEET-TTSHHHHHHHCTSTSSEEEEEESSHHHHHHHHHHH CS
          Methyltransf_25   2 LdlGcGtGrltlalakrlgkakvtgvDiseemleaarera 41 
                              Ld+GcG+G l + ++k  +    + +Di++++l+++ +++
  PHY93_18040|PHY93_18040 193 LDFGCGSGILGITALKT-KLMPTVFCDIDKSALDNCMQNL 231
                              9********99888877.5699**************9998 PP

  == domain 3  score: -2.8 bits;  conditional E-value: 5.3
                              TTEEEEEEEST.GGG CS
          Methyltransf_25  63 gsfDlvvssga.lhh 76 
                              +++D +vs+++ l+ 
  PHY93_18040|PHY93_18040 293 HQVDTIVSQYNsLEK 307
                              688999998777763 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.0   1.1e-05     0.021       5      53 ..     171     220 ..     168     289 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 1.1e-05
          Methyltransf_23   5 reeelsdklerllpklraggrvLdiGcGtGillevl.rengfsvtgvDls 53 
                                + +  + +++++ l++ + +Ld+GcG+Gil   + +++    ++ D++
  PHY93_18040|PHY93_18040 171 TTYLCLSLFDKISDQLKPASHCLDFGCGSGILGITAlKTKLMPTVFCDID 220
                              5566777888899999**************98433324444455555554 PP

>> MetW  Methionine biosynthesis protein MetW
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   1.5e-05     0.029       4      63 ..     179     238 ..     177     284 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 1.5e-05
                     MetW   4 feliaelikpgsrvldlGcGdGellellkeekqvdgrGleldeegvaecvakGlsviqgd 63 
                              f  i + +kp s+ ld GcG G l     ++k + +   ++d++++ +c++  +   +g+
  PHY93_18040|PHY93_18040 179 FDKISDQLKPASHCLDFGCGSGILGITALKTKLMPTVFCDIDKSALDNCMQNLVLNFEGE 238
                              66789999***************9555446799999999***********9877666665 PP

>> Methyltransf_12  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1    0.0001       0.2       1      35 [.     193     226 ..     193     316 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.0001
          Methyltransf_12   1 LeiGcGtGsllralleklpdieytgvDispsaied 35 
                              L++GcG+G l    l+  +    +++Di++sa+++
  PHY93_18040|PHY93_18040 193 LDFGCGSGILGITALKT-KLMPTVFCDIDKSALDN 226
                              8*************999.777788********943 PP

>> Methyltransf_16  Lysine methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   7.3e-05      0.15      29     102 ..     171     242 ..     143     280 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 7.3e-05
          Methyltransf_16  29 vkylekklakelganelsklsvlELGsGtGlvGlavaellpeakviltDlee.llellkknielnknalkskvkv 102
                              ++yl   l+++   +     + l+ G G+G+ G+++ ++ + +  +  D+++ +l++ ++n+ ln     +k + 
  PHY93_18040|PHY93_18040 171 TTYLCLSLFDKISDQLKPASHCLDFGCGSGILGITALKT-KLMPTVFCDIDKsALDNCMQNLVLNF--EGEKLEG 242
                              5677777777776677778899************98777.67777888888778899999998854..4444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (323 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       584  (0.0325729); expected 358.6 (0.02)
Passed bias filter:                      442  (0.0246528); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.41
# Mc/sec: 2351.91
//
Query:       PHY93_18045|PHY93_18045  [L=511]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.3e-54  185.7   0.2      2e-54  185.0   0.2    1.2  1  SBP_bac_5  Bacterial extracellular solute-binding proteins, f
  ------ inclusion threshold ------
      0.023   14.1   0.1       0.13   11.6   0.0    2.0  2  SBP_bac_3  Bacterial extracellular solute-binding proteins, f


Domain annotation for each model (and alignments):
>> SBP_bac_5  Bacterial extracellular solute-binding proteins, family 5 Middle
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  185.0   0.2   2.3e-58     2e-54      12     363 ..      77     412 ..      70     426 .. 0.88

  Alignments for each domain:
  == domain 1  score: 185.0 bits;  conditional E-value: 2.3e-58
                              EEETTTTEEEEEE-TT-B-TTSSB-SHHHHHHHHHHHHTGGGHCTTHHHHHCTCTEEEEEEEETTEEEEEESSETTTTTTHCHHHH CS
                SBP_bac_5  12 evsdDgktytfkLRkgvkFsDGtpltAeDvvfsferlldpdtasgyaslleedqdikkveavddytvrftlkkpnalfltllaavp 97 
                              ++ +++++++fkLR++++F+DGt++tAeDv+ s+e++++++   ++ + +  +++i++++++d+y +++t ++   ++l+ la + 
  PHY93_18045|PHY93_18045  77 KIVENKQILKFKLREDLTFADGTAVTAEDVKKSWEYFAKNEKIRSTFMGA--FETIESFVVLDKYNLVITYSSFSLENLSNLALLK 160
                              678999*************************************9999999..59****************9888778999998888 PP

                              HHHGCCHTCTCTTTTTGTTTSE-BSSSEEEEEEETTTEEEEEE-TTSTTTSCSSSSEEEEEE-.SHHHHHHHHHTTSSSEE.ESTT CS
                SBP_bac_5  98 asiakkaaekeddkdkdtnekpvgtGPYklkefkpgqkivlernpdYwgggkpkldriefkvipdsdaraaalqsGeiddv.aepp 182
                              +        k+  +++ ++++++g G Y l ++ p  +i++   +     +      ++fkv++d+++ a++l ++eid   a+++
  PHY93_18045|PHY93_18045 161 IVKL-----KDPISTAMEATDVIGCGDYLLSDIRP-LEITVAPKDK---SKI----VFVFKVVKDETTLALKLINKEIDLSvANMS 233
                              8666.....799999********************.4555554444...333....59********************98766666 PP

                              CCTHCHH.HHHTTEEEEEEEEEEEEEEEEETTTSTGGGSHHHHHHHHHHS-HHHHHHHCTTTSSEEESSSSTTTSTTCCSCHCCCS CS
                SBP_bac_5 183 psdieql.keakglkvlyespgggvtylafNtkkppfddkrvRqAlsyAiDreeivkavlegyatpansllppsspgadeeykpay 267
                              p  +  l  +ak+lkv  e p+g++ ++++N+k+++f+d+++RqA+s+ i+r++i+k  l+ +a+   ++++p ++   + +  + 
  PHY93_18045|PHY93_18045 234 PRKVYWLkAKAKNLKV-WEMPSGNFLFMGLNHKREVFKDVKLRQAISLLIPRNDILKFKLKDTAVLSIGMFSPAFAEMFDAKAVE- 317
                              6555555245555555.9**********************************************************999998887. PP

                              HHSHHHHHHHHHHHTT-BCSSTSCEETC.EEEEEEEEETTSHHHHHHHHHHHHHHHHTTEEEEEEEECHHHHHHHHHHCTTESEEE CS
                SBP_bac_5 268 kaydpekAkklLkeaGykdgdggglrek.klkltlllasgspaekaiaeliqqqlkkiGikvevktvdwaatylervkdgdfdmil 352
                                yd+  A+kl+ eaGyk++ +g+l+++ k++ +   +s++ a+ +++e+iq+ l+k G+k+++   +w  ty ++ k+g+fd+++
  PHY93_18045|PHY93_18045 318 -VYDVNLARKLISEAGYKKNAKGVLEKDgKELELDWKVSNNKASIEVVEVIQNFLEKEGFKINLSIQEW-GTYMSAFKSGNFDVVI 401
                              .57*******************99999988888899999999999************************.**************** PP

                              EEEECTTSTTH CS
                SBP_bac_5 353 lgwgadypdpd 363
                              ++w + ++++ 
  PHY93_18045|PHY93_18045 402 GQWIGFTGPDM 412
                              ****9955443 PP

>> SBP_bac_3  Bacterial extracellular solute-binding proteins, family 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0     0.085   7.6e+02      42      67 ..     207     233 ..     192     261 .. 0.66
   2 ?   11.6   0.0   1.5e-05      0.13      26      65 ..     364     403 ..     362     405 .. 0.95

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.085
                              EEE-.SGGGHHHHHHTTSSSEEESSEB CS
                              xxxx.xxxxxxxxxxxxxxxxxxxxxx RF
                SBP_bac_3  42 fvpv.swdelipalksgkvDiaiaait 67 
                              f+ v + ++l  +l ++++D+ +a+++
  PHY93_18045|PHY93_18045 207 FKVVkDETTLALKLINKEIDLSVANMS 233
                              333445555555666666666666665 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 1.5e-05
                              HHHHHHHHHHCT-EEEEEE-SGGGHHHHHHTTSSSEEESS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                SBP_bac_3  26 vdlakaiakrlgvkvefvpvswdelipalksgkvDiaiaa 65 
                              v++++++ ++ g+k+ + +++w + + a ksg++D++i++
  PHY93_18045|PHY93_18045 364 VEVIQNFLEKEGFKINLSIQEWGTYMSAFKSGNFDVVIGQ 403
                              899***************99******************86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (511 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       744  (0.041497); expected 358.6 (0.02)
Passed bias filter:                      490  (0.02733); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.60u 0.25s 00:00:00.85 Elapsed: 00:00:00.42
# Mc/sec: 3624.10
//
Query:       PHY93_16325|PHY93_16325  [L=444]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      1e-05   25.4   7.6    0.00032   20.6   0.1    5.5  5  Fer4_5    4Fe-4S binding domain
     0.0061   16.3   2.0     0.0061   16.3   2.0    2.2  3  Fer4      4Fe-4S binding domain
  ------ inclusion threshold ------
      0.012   15.7   0.4      0.012   15.7   0.4    2.7  3  Fer4_10   4Fe-4S dicluster domain
       0.13   12.4   4.1       0.33   11.2   4.1    1.6  1  Fer4_18   4Fe-4S dicluster domain
        1.7    8.8   9.1       0.34   11.0   4.9    2.0  2  Fer4_6    4Fe-4S binding domain
        3.5    7.9  17.5       0.33   11.1  11.4    2.4  2  Fer4_9    4Fe-4S dicluster domain
          5    7.7   9.6         33    5.0   1.0    3.8  4  DUF4231   Protein of unknown function (DUF4231)


Domain annotation for each model (and alignments):
>> Fer4_5  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   1.2      0.22   5.6e+02       4      21 ..      24      41 ..      21      43 .. 0.83
   2 !   14.8   3.5   8.3e-06     0.021      10      40 ..      59      88 ..      50     102 .. 0.79
   3 ?   -3.2   0.7       3.5   8.9e+03       4      15 ..     104     115 ..     103     119 .. 0.61
   4 !   20.6   0.1   1.3e-07   0.00032       2      34 ..     129     162 ..     128     175 .. 0.86
   5 ?   -5.9   8.7         7   1.8e+04       4      18 ..     302     316 ..     299     319 .. 0.56

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.22
                   Fer4_5  4 lllilflaivlvtllfGR 21
                             l+l+ f +i++  +l+G 
  PHY93_16325|PHY93_16325 24 LSLLVFSVILIAVGLWGP 41
                             678999999999999996 PP

  == domain 2  score: 14.8 bits;  conditional E-value: 8.3e-06
                   Fer4_5 10 laivlvtllfGRafCgWiCPfGalqellakl 40
                             +++vl  l++G +fC   CPf +++++++ +
  PHY93_16325|PHY93_16325 59 GFLVLGLLVWGNIFCM-SCPFIFVRDCMRVF 88
                             577888888*******.***********974 PP

  == domain 3  score: -3.2 bits;  conditional E-value: 3.5
                   Fer4_5   4 lllilflaivlv 15 
                              ++l+lf+ ++++
  PHY93_16325|PHY93_16325 104 VALLLFCSVLFF 115
                              556666655555 PP

  == domain 4  score: 20.6 bits;  conditional E-value: 1.3e-07
                   Fer4_5   2 allllilflaivlvtllfGR.afCgWiCPfGalq 34 
                              al ++++fl++vl+ l+f++  fC ++CP+G + 
  PHY93_16325|PHY93_16325 129 ALIIIAFFLGAVLTDLIFKKaSFCKYLCPIGQFN 162
                              677899999*********************9776 PP

  == domain 5  score: -5.9 bits;  conditional E-value: 7
                   Fer4_5   4 lllilflaivlvtll 18 
                              ll+++fl+++++++l
  PHY93_16325|PHY93_16325 302 LLFFFFLFLIVLPVL 316
                              455555566665554 PP

>> Fer4  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.3       2.7     7e+03       9      14 ..      71      76 ..      71      76 .. 0.77
   2 ?   -2.7   0.1       2.5   6.4e+03      14      21 ..     152     159 ..     151     159 .. 0.78
   3 !   16.3   2.0   2.4e-06    0.0061       7      23 ..     215     231 ..     213     232 .. 0.90

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 2.7
                             SS-THH CS
                     Fer4  9 igCGaC 14
                             i+C+ C
  PHY93_16325|PHY93_16325 71 IFCMSC 76
                             678888 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 2.5
                              HHHHSTTT CS
                     Fer4  14 CvevCPvg 21 
                              C   CP g
  PHY93_16325|PHY93_16325 152 CKYLCPIG 159
                              88889975 PP

  == domain 3  score: 16.3 bits;  conditional E-value: 2.4e-06
                              TSSS-THHHHHSTTTEE CS
                     Fer4   7 kCigCGaCvevCPvgAI 23 
                              +C++C+ Cv +CP++ I
  PHY93_16325|PHY93_16325 215 DCTFCMDCVAACPYENI 231
                              6************9866 PP

>> Fer4_10  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.3       3.2   8.3e+03      18      21 ..      75      78 ..      71      87 .. 0.50
   2 ?    2.5   0.5     0.065   1.7e+02      15      51 ..     152     189 ..     149     192 .. 0.68
   3 ?   15.7   0.4   4.8e-06     0.012       8      21 ..     215     228 ..     207     251 .. 0.71

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 3.2
                  Fer4_10 18 aCPa 21
                             +CP+
  PHY93_16325|PHY93_16325 75 SCPF 78
                             2443 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.065
                  Fer4_10  15 CvkaCPadltsvgakgeaseeeavrkkvekCtgcg..aC 51 
                              C+  CP   + +      s++e++ k+++ C+ c+   C
  PHY93_16325|PHY93_16325 152 CKYLCPI-GQFNFLASTLSPKEVKAKNLSVCQSCTtlDC 189
                              6666776.3333444556778888999999999975556 PP

  == domain 3  score: 15.7 bits;  conditional E-value: 4.8e-06
                  Fer4_10   8 tCirCgkCvkaCPa 21 
                               C+ C +Cv+aCP+
  PHY93_16325|PHY93_16325 215 DCTFCMDCVAACPY 228
                              47777777777777 PP

>> Fer4_18  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   4.1   0.00013      0.33       3      73 ..     149     228 ..     147     237 .. 0.58

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00013
                  Fer4_18   3 edvcvyvcPyarvq...svlydeetllvvydakrGekia....grkkekkalkeke..erkekgagdcidcescvkvcPt 73 
                                +c y+cP +++    s l  +e ++   ++ +  ++     g+k+++    e +    k+kg+ dc+ c  cv+ cP 
  PHY93_16325|PHY93_16325 149 ASFCKYLCPIGQFNflaSTLSPKEVKAKNLSVCQSCTTLdclrGNKEKQLRGCELHllMPKKKGNLDCTFCMDCVAACPY 228
                              579999999998753336666655554444444433333111133333322222221134678999*************6 PP

>> Fer4_6  4Fe-4S binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.1       5.3   1.4e+04      13      18 ..      82      87 ..      82      87 .. 0.70
   2 ?   11.0   4.9   0.00013      0.34       9      22 ..     216     229 ..     215     231 .. 0.83

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 5.3
                   Fer4_6 13 gdCvrv 18
                             +dC+rv
  PHY93_16325|PHY93_16325 82 RDCMRV 87
                             578886 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.00013
                   Fer4_6   9 CigCgdCvrvCPeg 22 
                              C+ C+dCv++CP+ 
  PHY93_16325|PHY93_16325 216 CTFCMDCVAACPYE 229
                              666*********86 PP

>> Fer4_9  4Fe-4S dicluster domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.3       2.3   5.8e+03      39      42 ..      73      76 ..      71      87 .. 0.57
   2 ?   11.1  11.4   0.00013      0.33       5      49 ..     181     229 ..     150     231 .. 0.77

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 2.3
                   Fer4_9 39 CgaC 42
                             C++C
  PHY93_16325|PHY93_16325 73 CMSC 76
                             4443 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 0.00013
                   Fer4_9   5 CgaCvea.Cpagvvvedaaerkarlraase...eaCigCgaCveaCpkg 49 
                              C++C++  C  g  +++  + +  l + ++    +C++C++Cv+aCp +
  PHY93_16325|PHY93_16325 181 CQSCTTLdCLRGNKEKQLRGCELHLLMPKKkgnLDCTFCMDCVAACPYE 229
                              77775544766666655555555555555566679************85 PP

>> DUF4231  Protein of unknown function (DUF4231)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.1     0.098   2.5e+02      17      45 ..      19      45 ..      11      67 .. 0.68
   2 ?   -2.0   0.0       1.9   4.9e+03      22      36 ..     128     142 ..     123     161 .. 0.75
   3 ?    4.4   0.0      0.02        50       4      60 ..     290     347 ..     287     356 .. 0.78
   4 ?    5.0   1.0     0.013        33      17      79 ..     350     422 ..     347     428 .. 0.83

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.098
                  DUF4231 17 frllrlitivlgallpilvs.sklgagvsv 45
                               ll+l ++v++++l ++   +   +++  
  PHY93_16325|PHY93_16325 19 KILLQLSLLVFSVILIAVGLwG---PQFAP 45
                             45799*********99999942...33332 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 1.9
                  DUF4231  22 litivlgallpilvs 36 
                               ++i+++++l ++ +
  PHY93_16325|PHY93_16325 128 TALIIIAFFLGAVLT 142
                              577888888877765 PP

  == domain 3  score: 4.4 bits;  conditional E-value: 0.02
                  DUF4231   4 swyekkasrakrrfrllrlitivlgallpilvs..sklgagvsvlkiltallsalvail 60 
                              + + + ++++  +  ++ l++ivl +ll ++ +  s  + +++ +k++++ll +  ++ 
  PHY93_16325|PHY93_16325 290 KEMLNFQNEFLILLFFFFLFLIVLPVLLLVIPEkiS-RQFSGQKFKLIPTLLPLGFSVW 347
                              556667888888889999*************99752.4678899999999998877765 PP

  == domain 4  score: 5.0 bits;  conditional E-value: 0.013
                  DUF4231  17 frllrlitivlgallpilvs..........sklgagvsvlkiltallsalvailaaleeffrykerWrryRst 79 
                              +++++l+t +++++  ++            s + +   ++ +lt++   +v+++++++e  + + +W+++ st
  PHY93_16325|PHY93_16325 350 HYSFHLLTGFFTFVPLVMTKfsmpvrlmglSPSIVTPIQIGLLTLGFIGSVIVSSSIVENKKIQLSWIAAHST 422
                              7778888888887777777788888888776667778899999************************998877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (444 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       892  (0.0497518); expected 358.6 (0.02)
Passed bias filter:                      327  (0.0182386); expected 358.6 (0.02)
Passed Vit filter:                        51  (0.00284455); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.58u 0.27s 00:00:00.85 Elapsed: 00:00:00.42
# Mc/sec: 3184.02
//
Query:       PHY93_16435|PHY93_16435  [L=154]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.1e-22   77.5   0.0    1.1e-21   77.1   0.0    1.2  1  RsfS      Ribosomal silencing factor during starvation


Domain annotation for each model (and alignments):
>> RsfS  Ribosomal silencing factor during starvation
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   77.1   0.0     6e-26   1.1e-21       9      99 .]      35     124 ..      27     124 .. 0.93

  Alignments for each domain:
  == domain 1  score: 77.1 bits;  conditional E-value: 6e-26
                              HTT-EEEEEEE-TTTTBSS-SEEEEEEESSHHHHHHHHHHHHHHHHHC.C-.--EEECBTTS.SEEEEE-SSEEEEEEECCCHHHH CS
                     RsfS   9 dkkaedivvidlrekkssladymviatakserhlkalaeelekklkeeaae.alsveGlnegddWvlvdlgdvvVhllteeaReey 93 
                              + k+ +++v+dl++ +ss+ad++vi++a + ++++a+aee++ ++++  +  als eGl++++dW+l+d+gdv++h+++e aR  y
  PHY93_16435|PHY93_16435  35 NFKGLNLKVLDLKN-QSSIADFFVIGSAGNPTQARAMAEEISLQMRNL-GIeALSREGLKQSTDWILLDYGDVIIHVFHEPARMIY 118
                              56889*********.8******************************77.44589******************************** PP

                              HHHHHC CS
                     RsfS  94 dLEelW 99 
                              dL++l+
  PHY93_16435|PHY93_16435 119 DLDQLY 124
                              ****98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (154 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       428  (0.0238719); expected 358.6 (0.02)
Passed bias filter:                      399  (0.0222544); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1119.08
//
Query:       PHY93_18050|PHY93_18050  [L=208]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    8.1e-44  149.7   0.0      1e-43  149.4   0.0    1.1  1  PRK           Phosphoribulokinase / Uridine kinase family
     0.0012   19.3   0.2        1.7    9.1   0.0    2.3  2  AAA_17        AAA domain
      0.002   18.7   0.1     0.0036   17.8   0.1    1.4  1  AAA_18        AAA domain
  ------ inclusion threshold ------
      0.014   15.2   0.1      0.024   14.4   0.1    1.4  1  ATP_bind_1    Conserved hypothetical ATP binding protein
      0.017   15.0   0.1        2.8    7.7   0.0    2.1  2  dNK           Deoxynucleoside kinase
      0.018   15.3   0.1       0.03   14.6   0.1    1.6  1  AAA_22        AAA domain
      0.021   15.0   0.0      0.026   14.7   0.0    1.5  1  AAA_33        AAA domain
      0.053   13.4   0.0      0.093   12.6   0.0    1.4  1  NTPase_1      NTPase
      0.079   13.4   0.0       0.18   12.2   0.0    1.6  1  RNA_helicase  RNA helicase
      0.079   12.9   0.1       0.17   11.8   0.1    1.5  1  MobB          Molybdopterin guanine dinucleotide synthesis pr
      0.086   12.6   0.1       0.18   11.5   0.1    1.5  1  AAA_29        P-loop containing region of AAA domain
       0.13   11.5   0.0       0.28   10.4   0.0    1.5  1  Zeta_toxin    Zeta toxin
       0.14   11.2   0.1        0.2   10.7   0.1    1.2  1  T2SSE         Type II/IV secretion system protein
        0.2   11.3   0.0       0.31   10.7   0.0    1.3  1  SRP54         SRP54-type protein, GTPase domain


Domain annotation for each model (and alignments):
>> PRK  Phosphoribulokinase / Uridine kinase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  149.4   0.0   7.8e-47     1e-43       1     189 [.       3     181 ..       3     187 .. 0.93

  Alignments for each domain:
  == domain 1  score: 149.4 bits;  conditional E-value: 7.8e-47
                      PRK   1 vIgvagsSGaGkttvarklekifgrekvkaaeiegdsflrldraekdleleerkrakekevsflspeandfdllyevlkelkegkk 86 
                              +I+++g SG+Gktt++ k++++++         e +s++ +d+ +    ++e + ++  + +f+ p a+d++ll + l +lk+gk+
  PHY93_18050|PHY93_18050   3 IISICGGSGSGKTTFTDKVRHVVK---------EEISVVHMDSYYLPKLPKELQTRN-GQPNFDHPAAFDWKLLASHLGALKKGKS 78 
                              8******************99998.........567788899988887776666554.78899*********************** PP

                      PRK  87 vdkpiYsheteeaapdkeeliegadvlviEGlhalydervaelldlkiyvdisidlelarklqRDiaeRGrsleavldsil.rrkp 171
                              v++p Y+++++++ + k+ +i++++v+++EG+++ly e++++l ++  ++ +  d++++r+l+RD++eRGrsl++v+ ++   ++p
  PHY93_18050|PHY93_18050  79 VESPLYDFKKNSRLK-KTRVIKPSKVILFEGIFSLYNEEIRKLSNITAFLNVEADIRFIRRLHRDVEERGRSLDSVITQYYeTVRP 163
                              **************9.************************************************************999988**** PP

                      PRK 172 dyvnyikpqfseadliiq 189
                               y++y++pq + ad i+ 
  PHY93_18050|PHY93_18050 164 MYQKYLDPQRQFADFIVG 181
                              **************9985 PP

>> AAA_17  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.1   0.0    0.0013       1.7       2      17 ..       8      23 ..       7      48 .. 0.77
   2 !    8.3   0.0    0.0023         3      90     131 ..     111     152 ..      65     155 .. 0.71

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.0013
                             E-TTSSHHHHHHHHHH CS
                   AAA_17  2 GgPGsGKgtqceklve 17
                             Gg GsGK+t  +k+ +
  PHY93_18050|PHY93_18050  8 GGSGSGKTTFTDKVRH 23
                             9***********9963 PP

  == domain 2  score: 8.3 bits;  conditional E-value: 0.0023
                              ESSHHHHHHHH..SEEEEEE--HHHHHHHHHHH.TTST-TS-S CS
                   AAA_17  90 dglpkevleelkpdaiilleadpeeilerrlkd.rtrgrdddn 131
                              + + +e+ +  +++a++ +ead    ++r+++d ++rgr+ d+
  PHY93_18050|PHY93_18050 111 SLYNEEIRKLSNITAFLNVEADIR-FIRRLHRDvEERGRSLDS 152
                              444455444445677777777775.66677777999****998 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.1   2.8e-06    0.0036       1     119 [.       4     147 ..       4     159 .. 0.74

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 2.8e-06
                   AAA_18   1 IlltGtpGvGKttlakeLskrlgfgvnlrdvakenglllevdpe.........aldeskrldedkldklldaleenss........ 69 
                              I ++G +G+GKtt+++ ++     + + ++v+  + ++l+  p+          +d    +d + l+++l al++  s        
  PHY93_18050|PHY93_18050   4 ISICGGSGSGKTTFTDKVRHV---VKEEISVVHMDSYYLPKLPKelqtrngqpNFDHPAAFDWKLLASHLGALKKGKSvesplydf 86 
                              679***************333...333333333333333333334555567767799999999999999999999988******** PP

                   AAA_18  70 ..........aleegknlvidghlaeleseaakdikk.vvLtaspeelleRlekRgyeeak 119
                                             k+++++g+ + + +e +k  +   +L ++ ++++ R   R+ ee+ 
  PHY93_18050|PHY93_18050  87 kknsrlkktrVIKPSKVILFEGIFSLYNEEIRKLSNItAFLNVEADIRFIRRLHRDVEERG 147
                              ****99999666666777777777766666555444489****************988865 PP

>> ATP_bind_1  Conserved hypothetical ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.1   1.9e-05     0.024       1      33 [.       6      35 ..       6      37 .. 0.90

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 1.9e-05
               ATP_bind_1  1 vvGpaGsGKttfvgalseilelrgrsvavvNLD 33
                             ++G+ GsGKttf+ ++  +++++   + vv +D
  PHY93_18050|PHY93_18050  6 ICGGSGSGKTTFTDKVRHVVKEE---ISVVHMD 35
                             79***************999988...8888887 PP

>> dNK  Deoxynucleoside kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.5   0.0     0.011        14       1      23 [.       4      26 ..       4      47 .. 0.79
   2 ?    7.7   0.0    0.0022       2.8      95     173 ..      92     175 ..      76     196 .. 0.74

  Alignments for each domain:
  == domain 1  score: 5.5 bits;  conditional E-value: 0.011
                             EEEEESTTSSHHHHHHHHHCCST CS
                      dNK  1 ivveGnIgaGKstlvklLskklg 23
                             i++ G  g+GK+t+++  ++ ++
  PHY93_18050|PHY93_18050  4 ISICGGSGSGKTTFTDKVRHVVK 26
                             8999999********98776654 PP

  == domain 2  score: 7.7 bits;  conditional E-value: 0.0022
                              HHHTTSS-HHHHHHHHHHHHHHHHHCCH.-SEEEEEE--HHH.HHHH....HHHCTTCCCTTS-HHHHHHHHHHHHHHHTSGGCS CS
                      dNK  95 laekgtlseeelkiykelldnlleelak.pdlliYLkaslet.cler....ikkRgreeekkieldYlekLhekyeewlkklnev 173
                              l + ++++++++  ++ +++ ++ee+ k  ++  +L+++ +    +r    +++Rgr+ +  + ++Y+e++   y+++l+   ++
  PHY93_18050|PHY93_18050  92 LKKTRVIKPSKVILFEGIFSLYNEEIRKlSNITAFLNVEADIrFIRRlhrdVEERGRSLD-SVITQYYETVRPMYQKYLDPQRQF 175
                              456778899999999999999999999977788899999885133331112566777774.66689**********999875555 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.1   2.3e-05      0.03       7      37 ..       3      33 ..       2     146 .. 0.73

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 2.3e-05
                   AAA_22  7 ilvvtGesGtGKTtllrrlleqldeeakaee 37
                             i+ ++G sG+GKTt   ++++  +ee++  +
  PHY93_18050|PHY93_18050  3 IISICGGSGSGKTTFTDKVRHVVKEEISVVH 33
                             899****************999876544443 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.7   0.0     2e-05     0.026       2      34 ..       4      38 ..       3     174 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 2e-05
                   AAA_33  2 vllvGlpGsGKstlaerl..lkklgavllssdtlr 34
                             + ++G +GsGK+t+ +++  + k+   ++  d+++
  PHY93_18050|PHY93_18050  4 ISICGGSGSGKTTFTDKVrhVVKEEISVVHMDSYY 38
                             568***********998644555565555555533 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   7.3e-05     0.093       2      26 ..       4      28 ..       3      44 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 7.3e-05
                             EEEE--TTSSHHHHHHHHHHHH... CS
                 NTPase_1  2 vfiTGppGvGKtTlvkkvlellkss 26
                             + i G +G+GKtT+ +kv +++k++
  PHY93_18050|PHY93_18050  4 ISICGGSGSGKTTFTDKVRHVVKEE 28
                             6799*****************9876 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   0.00014      0.18       1      36 [.       4      39 ..       4      54 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 0.00014
             RNA_helicase  1 iwlyGpsgeGKStlakeLakallkklklkkkdsvys 36
                             i ++G sg GK+t+++++ + + +++   + ds+y 
  PHY93_18050|PHY93_18050  4 ISICGGSGSGKTTFTDKVRHVVKEEISVVHMDSYYL 39
                             569**************8888888887777777775 PP

>> MobB  Molybdopterin guanine dinucleotide synthesis protein B
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.1   0.00013      0.17       1      25 [.       3      27 ..       3      34 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00013
                     MobB  1 vlgivgksgsGKTtLleklipelka 25
                             +++i+g sgsGKTt+  k+ +++k+
  PHY93_18050|PHY93_18050  3 IISICGGSGSGKTTFTDKVRHVVKE 27
                             799************9998666554 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   0.00014      0.18      26      43 ..       5      22 ..       3      27 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00014
                   AAA_29 26 lltGpsGsGKSTllDAiq 43
                              + G sGsGK+T+ D + 
  PHY93_18050|PHY93_18050  5 SICGGSGSGKTTFTDKVR 22
                             589**********99765 PP

>> Zeta_toxin  Zeta toxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0   0.00022      0.28      19      50 ..       4      35 ..       2      48 .. 0.90

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00022
               Zeta_toxin 19 illgGqpGAGKselaellkdelerqgnvvrld 50
                             i + G++G+GK++  ++++  ++++ +vv++d
  PHY93_18050|PHY93_18050  4 ISICGGSGSGKTTFTDKVRHVVKEEISVVHMD 35
                             6789******************9999999987 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.1   0.00016       0.2     131     156 ..       3      28 ..       1      36 [. 0.82

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00016
                    T2SSE 131 lilvsGgTgsGKttllyallkeinks 156
                              +i + Gg gsGKtt++  + + ++++
  PHY93_18050|PHY93_18050   3 IISICGGSGSGKTTFTDKVRHVVKEE 28 
                              57799***********9998888876 PP

>> SRP54  SRP54-type protein, GTPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   0.00024      0.31       3      29 ..       3      29 ..       1      37 [. 0.83

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00024
                             EEEEEESTTSSHHHHHHHHHHHHHHTT CS
                    SRP54  3 villvGlqGaGKTttlaKLaallkkeg 29
                             +i ++G  G+GKTt + K+ +++k+e 
  PHY93_18050|PHY93_18050  3 IISICGGSGSGKTTFTDKVRHVVKEEI 29
                             67899***************9999874 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (208 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       659  (0.0367561); expected 358.6 (0.02)
Passed bias filter:                      593  (0.0330749); expected 358.6 (0.02)
Passed Vit filter:                        82  (0.0045736); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.53u 0.25s 00:00:00.78 Elapsed: 00:00:00.42
# Mc/sec: 1488.19
//
Query:       PHY93_18055|PHY93_18055  [L=540]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.3e-12   45.9   0.6      1e-11   45.2   0.6    1.4  1  Lactamase_B    Metallo-beta-lactamase superfamily
    7.4e-10   38.6   0.6    5.7e-07   29.4   0.1    2.8  2  RMMBL          Zn-dependent metallo-hydrolase RNA specificity
    1.5e-06   27.8   0.1    3.1e-06   26.9   0.1    1.4  1  Lactamase_B_2  Beta-lactamase superfamily domain
  ------ inclusion threshold ------
      0.051   13.5   0.1       0.16   11.8   0.1    1.9  2  Lactamase_B_3  Beta-lactamase superfamily domain
       0.12   11.8   0.0       0.25   10.8   0.0    1.5  1  Lactamase_B_6  Metallo-beta-lactamase superfamily domain
       0.17   11.5   0.0       0.29   10.8   0.0    1.3  1  HH_signal      Hedgehog amino-terminal signalling domain


Domain annotation for each model (and alignments):
>> Lactamase_B  Metallo-beta-lactamase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.2   0.6   3.5e-15     1e-11       2     123 ..      15     130 ..      14     154 .. 0.79

  Alignments for each domain:
  == domain 1  score: 45.2 bits;  conditional E-value: 3.5e-15
                              CCCSSEEEEEEETTCEEEES--SCHHHHHHHH..HHHHHTSGGGGEEEEE-SBSSHHHHTTGGGCTTHHCCEETCCEHHHHCCHCH CS
              Lactamase_B   2 gpdpvnsyliegdggviLiDtGtsteaaraal..elaalglkpkdvdavilTHlHlDHiGglgglveatdvpvgavaeeapalfme 85 
                              g  ++n++li+g +++iLiD+G+  +++++++   l      +  ++++++TH+H DHiG++ ++++++++ ++  +  ++al++ 
  PHY93_18055|PHY93_18055  15 GQIGSNMTLIQGANDAILIDAGILFPYEDFFDinYLIPDLSTIPTPSHLVITHGHEDHIGAVQHVIKQFPNIIVLASPFTAALIRK 100
                              56789***************************887888888999*******************************99999999999 PP

                              HHHHHHHHCCHHTTCHCGCCEEEEETTTEECCCTEEEE CS
              Lactamase_B  86 eaddaasrkglllagvsadkpdvdeeeldgnaggrral 123
                               +++            +++k ++  + l ++++ +   
  PHY93_18055|PHY93_18055 101 KLEFNNDP--------YPIKEYRSVDQLVFTDFTIDPI 130
                              99776554........3344444444444444444444 PP

>> RMMBL  Zn-dependent metallo-hydrolase RNA specificity domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.6   0.0    0.0024       7.2      21      53 ..      46      81 ..      42      91 .. 0.71
   2 !   29.4   0.1   1.9e-10   5.7e-07      11      53 ..     359     401 ..     349     410 .. 0.91

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.0024
                    RMMBL 21 ellelirklkprn....vilvHGeeeatsalarllke 53
                             +++ li+ l+  +    +++ HG+e+++ a +  + +
  PHY93_18055|PHY93_18055 46 DINYLIPDLSTIPtpshLVITHGHEDHIGAVQHVI-K 81
                             56666666655444555***********9988777.4 PP

  == domain 2  score: 29.4 bits;  conditional E-value: 1.9e-10
                    RMMBL  11 idfSgHadknellelirklkprnvilvHGeeeatsalarllke 53 
                              i++SgH ++++l  l +k++p  ++++HGe   ++a+ +++k+
  PHY93_18055|PHY93_18055 359 IHVSGHPGRDDLTHLYEKFNPTDIVPIHGETSFIRAHIEHIKK 401
                              569**********************************999954 PP

>> Lactamase_B_2  Beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.9   0.1     1e-09   3.1e-06       3     144 ..      31     160 ..      30     174 .. 0.78

  Alignments for each domain:
  == domain 1  score: 26.9 bits;  conditional E-value: 1e-09
                              EEES--TT.....HHHHHTCGGS--SSS--..SEEEEE-SS--HHHHGGGGCCCCC--EEEEEEEEHHHHHHCCTTCGHHHCHTTT CS
            Lactamase_B_2   3 iLiDagpd.....lrqqalralqPvelrdelppidaVllthaHyDHlaglltlrelrpkklplyapkgvlavleanfvylaleeep 83 
                              iLiDag       ++   + +    + ++++p    +++th+H DH+  + ++ + +  ++ ++a++ ++a +++++ +++++ + 
  PHY93_18055|PHY93_18055  31 ILIDAGILfpyedFFDI-NYLI---PDLSTIPTPSHLVITHGHEDHIGAVQHVIK-QFPNIIVLASPFTAALIRKKLEFNNDPYP- 110
                              66777666322223222.3332...3678999999************88888888.45568899************988877776. PP

                              TEEEEEE-TTSEEEECSTTEEEEEEEE-EE--CTCCE-TTTSEEEEEE..CTTEEEEEESS-S CS
            Lactamase_B_2  84 avnvheldwgesfelgdggleitatparhksgrrldrnagdtlGlrie..gggkrvyyigDtg 144
                                 ++e    +++ ++  +++i ++ ++h+ ++        t Gl+i+  +++  +++i D +
  PHY93_18055|PHY93_18055 111 ---IKEYRSVDQLVFT--DFTIDPIHVNHSIPE--------THGLLIRdlKEEFGLFFISDFK 160
                              ...7888777788888..689***********9........*******888888899999987 PP

>> Lactamase_B_3  Beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.1   5.5e-05      0.16       5      70 ..      17      94 ..      14     143 .. 0.74
   2 ?   -3.0   0.0         2     6e+03     115     162 ..     366     385 ..     352     393 .. 0.60

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 5.5e-05
            Lactamase_B_3  5 lghnsflletagarilvDPf.......kanlgyeppa....eeaDlvlisqaledHa..hletlkqlaenvkvleeges 70
                             +g+n  l+++a+  il+D +       +  ++y +p     +++  ++i++++edH     + +kq + n+ vl+++ +
  PHY93_18055|PHY93_18055 17 IGSNMTLIQGANDAILIDAGilfpyedFFDINYLIPDlstiPTPSHLVITHGHEDHIgaVQHVIKQ-FPNIIVLASPFT 94
                             689999************88776665422555555559999***************6213456777.888888887543 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 2
            Lactamase_B_3 115 ahelsseelkelgrvDvvltPvggpltlgqeealelakrLkpklvlPm 162
                              + +     +++++++D+v                            P+
  PHY93_18055|PHY93_18055 366 GRDDLTHLYEKFNPTDIV----------------------------PI 385
                              444444445555666654............................43 PP

>> Lactamase_B_6  Metallo-beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   8.3e-05      0.25       7      67 ..      29      91 ..      23     102 .. 0.73

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 8.3e-05
            Lactamase_B_6  7 vkiLlDvGwd...eskvslesalkelekviptvdliLLshatlehlGayallyakfksklllni 67
                               iL+D G     e +++++  l +  ++ipt ++ +++h   +h+Ga ++++++f++ ++l  
  PHY93_18055|PHY93_18055 29 DAILIDAGILfpyEDFFDIN-YLIPDLSTIPTPSHLVITHGHEDHIGAVQHVIKQFPNIIVLAS 91
                             56899999754324445543.444444589************************9987665555 PP

>> HH_signal  Hedgehog amino-terminal signalling domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.0   9.7e-05      0.29      22      75 ..     469     521 ..     453     531 .. 0.77

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 9.7e-05
                              T-EESSS-TTSTTTT--------SSSGGGGG-EE---TTEEE----------EE CS
                HH_signal  22 kqhvPnvsentlgasGpaegkikrnderfkeLvtnanpdiifkdeeetgadrlm 75 
                               +++ +v   +++  G  +  ++++d++fk++ +n+  +i fkd ++t+++  +
  PHY93_18055|PHY93_18055 469 SKSLTDVEKISFTLQGLPT-LVTKSDDNFKRFLENYFVQISFKDMDKTTEELRI 521
                              5555666666666667666.6999*********************999887443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (540 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       614  (0.0342462); expected 358.6 (0.02)
Passed bias filter:                      490  (0.02733); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.65u 0.24s 00:00:00.89 Elapsed: 00:00:00.43
# Mc/sec: 3743.86
//
Query:       PHY93_18060|PHY93_18060  [L=192]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.13   12.0   1.3       0.17   11.6   1.3    1.2  1  DUF4637   Domain of unknown function (DUF4637)
       0.17   12.1   9.5       0.31   11.2   9.4    1.5  2  zf-B_box  B-box zinc finger
       0.84    9.9  10.6        1.8    8.9  10.6    1.5  1  C1_4      TFIIH C1-like domain


Domain annotation for each model (and alignments):
>> DUF4637  Domain of unknown function (DUF4637)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   1.3   2.9e-05      0.17     114     148 ..      73     105 ..      50     113 .. 0.77

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 2.9e-05
                  DUF4637 114 cvletrrrpprrGgcarceilfckkcktlhsdpay 148
                              c+   ++  p+ G+c  ce +fc  c   h +  +
  PHY93_18060|PHY93_18060  73 CIH--HKDAPSVGSCLICEEVFCADCLVDHESMHF 105
                              443..345699***************988876555 PP

>> zf-B_box  B-box zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   9.4   5.1e-05      0.31       4      37 ..      71     104 ..      68     112 .. 0.87
   2 ?   -0.9   0.1      0.31   1.8e+03       3      10 ..     103     110 ..     101     116 .. 0.65

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 5.1e-05
                 zf-B_box   4 tkCpeHknkpatlfCedCqqplCeeCstgeHrg.H 37 
                               +C +Hk++p    C  C++ +C++C   +H+  H
  PHY93_18060|PHY93_18060  71 YYCIHHKDAPSVGSCLICEEVFCADC-LVDHESmH 104
                              58************************.99998556 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 0.31
                 zf-B_box   3 etkCpeHk 10 
                              ++ C+eH 
  PHY93_18060|PHY93_18060 103 MHFCKEHF 110
                              56799997 PP

>> C1_4  TFIIH C1-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9  10.6    0.0003       1.8      24      50 ..      81     106 ..      66     108 .. 0.86

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.0003
                     C1_4  24 sryrCekCkndFCiDCDvFiHesLHnC 50 
                              s+ +C  C+++FC DC v  Hes+H C
  PHY93_18060|PHY93_18060  81 SVGSCLICEEVFCADCLV-DHESMHFC 106
                              5668************76.7******9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (192 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1111  (0.0619666); expected 358.6 (0.02)
Passed bias filter:                      652  (0.0363657); expected 358.6 (0.02)
Passed Vit filter:                        71  (0.00396006); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.51u 0.23s 00:00:00.74 Elapsed: 00:00:00.41
# Mc/sec: 1400.75
//
Query:       PHY93_18065|PHY93_18065  [L=180]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
        1.7    6.8  15.7        1.9    6.6  15.7    1.0  1  PAT1      Topoisomerase II-associated protein PAT1


Domain annotation for each model (and alignments):
>> PAT1  Topoisomerase II-associated protein PAT1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.6  15.7   0.00011       1.9     215     380 ..       8     166 ..       1     178 [. 0.49

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.00011
                     PAT1 215 aaaaaaasqqPaaeqaeqaeaaaqaakaeqaqqapesakeqqqeqeqaaqaqqkkeqgkpvtilqrpqskqakpaepsasseaqea 300
                               ++  a++ qP++++  q++++  + + +q+++++  a +++  ++ aa+ ++ ++++   + ++ +++ +a++   ++++e+  +
  PHY93_18065|PHY93_18065   8 YQEVYAQPAQPVQQPVVQQQQQPVQVQLAQQDSRDIFAPRRAVAAAPAAHVETVEDRSDFDRFMNDRNAYNAQQ---TNNNEDAVT 90 
                              33333444566655555555555555444545555555444444444444443333333223233222222222...222333335 PP

                     PAT1 301 kqqappakvqptqilqnpnrlaarlelsqkeqaaaqaapeqeakrqqssagkqaqiithpqqlaqlseee..kaayLeeeak 380
                              +++++++++qp++++q  +  a+r e+  ++q+++ +      ++ +s ++++a+ i+++  ++++ e+e     yL++e k
  PHY93_18065|PHY93_18065  91 HNNQAEEPKQPSRLIQSIRDAANRYETAGRPQQTVVT------NKVESETNNRAKSIAEKLGFINFDEDEfdTPSYLRKEEK 166
                              5666667889******999887777555544332222......222233334455666666677777776555556665554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (180 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1352  (0.0754086); expected 358.6 (0.02)
Passed bias filter:                      386  (0.0215294); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.24s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 1329.32
//
Query:       PHY93_21605|PHY93_21605  [L=812]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.9e-18   66.6   0.0      4e-18   65.5   0.0    1.5  1  Peptidase_S41  Peptidase family S41
     0.0023   16.4   0.1     0.0043   15.5   0.1    1.5  1  Peptidase_M6   Immune inhibitor A peptidase M6


Domain annotation for each model (and alignments):
>> Peptidase_S41  Peptidase family S41
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   65.5   0.0   4.4e-22     4e-18       2     136 ..     316     488 ..     315     526 .. 0.79

  Alignments for each domain:
  == domain 1  score: 65.5 bits;  conditional E-value: 4.4e-22
                              EEEEEES-BCC..THHHHHHHHHHHHHH...TTSSEEEEE-TTB-EBEHHHHHHHHHCCSSSSEEEEEECTTSEEE.......... CS
            Peptidase_S41   2 iGyiripsfse..ktkeelakalkelkk...knvkglilDlRnNgGGlldeavelaslflddglivstrgrdgkkk.......... 72 
                               Gyi+++sf+    t++e+   +k+l +   kn++gl  DlR N+GG+l  a +l++l+ ++  + st + +++            
  PHY93_21605|PHY93_21605 316 FGYIQLTSFTPdvFTTDEVVTTIKNLLRnelKNTDGLMFDLRANPGGQLPLAEKLIQLISPRAIVPSTFYLKNSPAnlyymnnvda 401
                              7********4467555555555555555599**************************************99999995555555555 PP

                              ..........EEEHTCSS-S.....................TT-BSSEEEEEE-TTBBTHHHHHHHHHHHTTSEEEEES--SB-EE CS
            Peptidase_S41  73 ..........kksktekase.....................evqykgplvvLvnegsaSaseifagalkdngratlvGertfGkgt 127
                                        +                               + y +p+ v v+ g++Sa e fa +++d +++t+ Ge    +g+
  PHY93_21605|PHY93_21605 402 ldpftlaineA--------LqmglpytkqlpidsfeqindiGQVYFKPVTVFVDSGCYSACETFASLVQDFKVGTIFGEDASTGGG 479
                              55555555550........0555555555555556666666778************************************777777 PP

                              EEEEEE-TT CS
            Peptidase_S41 128 vqsvvelnd 136
                                +v++ln+
  PHY93_21605|PHY93_21605 480 GANVYSLNE 488
                              777887765 PP

>> Peptidase_M6  Immune inhibitor A peptidase M6
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   0.1   4.8e-07    0.0043     425     470 ..     769     809 ..     703     812 .] 0.73

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 4.8e-07
             Peptidase_M6 425 gkvdawidakydLsayaGkkveLkfdyltDgglamkGfavDdlavt 470
                                       + dLs++ Gk ve++f +  D g++ kG+++ +++v 
  PHY93_21605|PHY93_21605 769 M-----TSYEVDLSQFSGKAVEIRFVFESDEGMTDKGITIKNISVS 809
                              3.....355789******************************9985 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (812 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       514  (0.0286686); expected 358.6 (0.02)
Passed bias filter:                      432  (0.024095); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.71u 0.23s 00:00:00.94 Elapsed: 00:00:00.42
# Mc/sec: 5837.11
//
Query:       PHY93_21610|PHY93_21610  [L=140]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.056   14.0   0.7       0.11   13.1   0.7    1.7  1  ATP-cone  ATP cone domain


Domain annotation for each model (and alignments):
>> ATP-cone  ATP cone domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.7   6.1e-06      0.11      36      75 ..      75     118 ..      45     138 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 6.1e-06
                              HHHHHHHHHHHHHIIT-BHHHHHHHHHHHHH....HSS-HHHHH CS
                 ATP-cone  36 iaeeveaevrkrlrdgisteeIqdlvektli....ehpdyavaa 75 
                                +++ +++ + + +gis eeIq + e+ +i    ++ + +v++
  PHY93_21610|PHY93_21610  75 ADQRLTSNLNNVIASGISAEEIQAVMENRIInpakKNEYRQVVE 118
                              4567788889999******************9997555555554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (140 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1209  (0.0674327); expected 358.6 (0.02)
Passed bias filter:                      419  (0.02337); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1039.48
//
Query:       PHY93_21615|PHY93_21615  [L=392]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (392 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       605  (0.0337442); expected 358.6 (0.02)
Passed bias filter:                      362  (0.0201908); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.39
# Mc/sec: 2977.35
//
Query:       PHY93_21620|PHY93_21620  [L=194]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.059   13.6   0.0      0.093   12.9   0.0    1.4  1  T2SSN     Type II secretion system (T2SS), protein N


Domain annotation for each model (and alignments):
>> T2SSN  Type II secretion system (T2SS), protein N
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   5.2e-06     0.093     113     184 ..      16      93 ..      13     116 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 5.2e-06
                    T2SSN 113 gcqalqGtlnwrna.ev...sslsgslplgdlraelsce.ggqltltlsdqs.gpLslegqgslnaagtyrvagtlkp 184
                              gc++++G+ln ++  ++    ++   l++g+++a+++++ + ++tl l+++s +++  e +g++ ++gt++++ +++ 
  PHY93_21620|PHY93_21620  16 GCEKIEGQLNITKNlKLvnsRGVTHLLKVGTYSADIKANtSKKITLRLNNDSdEKFVFEHNGNIPNNGTFSISSKVSG 93 
                              6888888888654313311134445567899********9*********9999*****************99987764 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (194 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       609  (0.0339673); expected 358.6 (0.02)
Passed bias filter:                      435  (0.0242624); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1460.80
//
Query:       PHY93_07610|PHY93_07610  [L=390]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (390 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       136  (0.00758548); expected 358.6 (0.02)
Passed bias filter:                       89  (0.00496402); expected 358.6 (0.02)
Passed Vit filter:                         1  (5.57756e-05); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.19s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 2903.62
//
Query:       PHY93_07615|PHY93_07615  [L=93]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (93 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       539  (0.030063); expected 358.6 (0.02)
Passed bias filter:                      324  (0.0180713); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 698.82
//
Query:       PHY93_16440|PHY93_16440  [L=149]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    7.4e-40  136.4   0.2    9.1e-40  136.1   0.2    1.0  1  SPOUT_MTase  Predicted SPOUT methyltransferase
    0.00045   19.9   0.0    0.00063   19.4   0.0    1.2  1  IL1          Interleukin-1 / 18


Domain annotation for each model (and alignments):
>> SPOUT_MTase  Predicted SPOUT methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  136.1   0.2     1e-43   9.1e-40       3     153 ..       4     149 .]       2     149 .] 0.85

  Alignments for each domain:
  == domain 1  score: 136.1 bits;  conditional E-value: 1e-43
                              EEEEEES---H.HHHHHHHHHHHHHTTT-EEEEEEE....---S-HHHHHHHHHHT--....TT-EEEEE-TTSEE--HHHHHHHH CS
              SPOUT_MTase   3 ikiiavgklkekylkelieeYlkrlkkyakleiielkkekksekeeekakekegerilkklkkkayvillderGkelsSeelakkl 88 
                              +++i+vgkl++k ++el ++Y krl++  +l+i+e+++++++ ++e+k  + + + + k  ++k +++ll+e+Gk+++S+e++++l
  PHY93_16440|PHY93_16440   4 LHLIVVGKLNDKNIAELERDYFKRLTS-PSLTIHEVRAHSENLEKEAKEVSIKLDDLEK--SDKLFIVLLTEKGKQFESVEFSNWL 86 
                              689**********************99.89******63333322222222233334444..567789******************* PP

                              HHHHHHT-.-EEEEE--TT---GGGGGG-SEEEE--SS---HHHHHHHHHHHHHHHHHHHT--XX CS
              SPOUT_MTase  89 eklaeegkselvfvIGGsdGlseevkkradeklslsklTfpHqlvrvvllEQiYRaftIlkgepY 153
                              ++ +e  ++++vf+IGG+ G+ +++ +ra++klsls+lT+pH+l+r++l+EQiYRa tI +++pY
  PHY93_16440|PHY93_16440  87 NTHSE--RQKVVFIIGGAAGHGKNIIDRAHFKLSLSELTYPHKLARLLLVEQIYRAQTIKANHPY 149
                              99655..678******************************************************* PP

>> IL1  Interleukin-1 / 18
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.4   0.0     7e-08   0.00063      49     108 ..      45     102 ..      29     113 .. 0.78

  Alignments for each domain:
  == domain 1  score: 19.4 bits;  conditional E-value: 7e-08
                              EEEEES-GC.CCESTSSCCGGGEEEEEECTTEEEEEESSSTTEEEEEESSTTEEEEEECSS CS
                      IL1  49 Lqleevnip.kliknkesdkrFvferseskntteFeSaaypgwFlatkkeedkpvllvnla 108
                              L++e+ ++  kl + ++sdk+F+   +e++++  FeS+++ +w l t+ e++k v+++  a
  PHY93_16440|PHY93_16440  45 LEKEAKEVSiKLDDLEKSDKLFIVLLTEKGKQ--FESVEFSNW-LNTHSERQKVVFIIGGA 102
                              66666665525555689*************99..********9.89*********987544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (149 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       872  (0.0486363); expected 358.6 (0.02)
Passed bias filter:                      561  (0.0312901); expected 358.6 (0.02)
Passed Vit filter:                        55  (0.00306766); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 1134.67
//
Query:       PHY93_07620|PHY93_07620  [L=975]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.4e-13   48.6   5.5    9.2e-06   25.9   0.2    4.7  3  TPR_12    Tetratricopeptide repeat
    4.2e-08   32.7  24.6      0.041   14.0   0.6    6.7  6  TPR_2     Tetratricopeptide repeat
    3.6e-06   27.4   5.9      0.003   18.0   0.0    5.0  6  TPR_19    Tetratricopeptide repeat
    1.3e-05   25.3  27.9      0.082   13.1   7.3    5.7  5  ANAPC3    Anaphase-promoting complex, cyclosome, subunit 3
     0.0003   20.5  27.3      0.073   12.9   2.4    6.3  5  TPR_1     Tetratricopeptide repeat
    0.00031   21.3   3.9     0.0066   17.1   0.0    3.8  4  TPR_16    Tetratricopeptide repeat
     0.0037   17.9   7.0       0.43   11.5   0.0    6.1  6  TPR_14    Tetratricopeptide repeat
      0.004   17.1  12.6        5.8    7.2   0.0    6.3  7  TPR_7     Tetratricopeptide repeat
     0.0043   16.9   6.9       0.72    9.8   0.2    4.8  5  TPR_10    Tetratricopeptide repeat
  ------ inclusion threshold ------
        2.9    8.4  30.0       0.55   10.6   1.5    7.3  7  TPR_8     Tetratricopeptide repeat
          6    7.7  25.4        5.3    7.9   0.1    7.7  7  TPR_6     Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.9   0.2   5.6e-09   9.2e-06       5      74 ..     165     228 ..     160     231 .. 0.86
   2 ?    2.7   0.0     0.098   1.6e+02      52      71 ..     410     429 ..     377     434 .. 0.74
   3 !   18.7   0.3   9.4e-07    0.0015       3      71 ..     608     673 ..     606     678 .. 0.90

  Alignments for each domain:
  == domain 1  score: 25.9 bits;  conditional E-value: 5.6e-09
                   TPR_12   5 alnnlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleealai 74 
                              a + la++++  ++y +A+++++ +l         + +++   l+n +++y+++ ++++Alel +e+ + 
  PHY93_07620|PHY93_07620 165 AKTALAEFYYNNKKYNDAISYYQDVLKTN------NDEWYGKHLYNASWCYLKQRNFKKALELIKESFET 228
                              4447*********************8888......33458889***********************9875 PP

  == domain 2  score: 2.7 bits;  conditional E-value: 0.098
                   TPR_12  52 grlyralgryeeAlelleea 71 
                              g++ + + +y+ Al+++ +a
  PHY93_07620|PHY93_07620 410 GETALSTHDYQTALKYYVRA 429
                              55555666666666666655 PP

  == domain 3  score: 18.7 bits;  conditional E-value: 9.4e-07
                   TPR_12   3 atalnnlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleea 71 
                              a a++ +a++++++ +  ++ ++l+k+lei+    ++d + +  +l  L+  yr+l ++e   el ++ 
  PHY93_07620|PHY93_07620 608 AEAAYAIATLYQEQNKAKDSYKWLKKSLEIY---ENKDLLKVTPSLLVLAKGYRLLQNFELSSELANQI 673
                              566679*************************...55799*********************999999885 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.0   0.6   2.5e-05     0.041       6      31 ..     168     193 ..     164     196 .. 0.89
   2 !   12.8   0.1   6.1e-05       0.1       4      28 ..     202     226 ..     202     231 .. 0.90
   3 !    9.7   0.2   0.00061      0.99       3      28 ..     405     430 ..     403     433 .. 0.91
   4 ?    0.3   0.1      0.61     1e+03      10      25 ..     579     594 ..     578     596 .. 0.82
   5 !    7.5   2.4    0.0031       5.1       1      33 [.     608     640 ..     608     641 .. 0.96
   6 ?   -3.1   0.0       7.7   1.2e+04       7      20 ..     653     666 ..     650     672 .. 0.77

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 2.5e-05
                    TPR_2   6 nlGlayyklgdyeeAleafekAleld 31 
                              +l++ yy++++y++A+ +++ +l+ +
  PHY93_07620|PHY93_07620 168 ALAEFYYNNKKYNDAISYYQDVLKTN 193
                              7999******************9977 PP

  == domain 2  score: 12.8 bits;  conditional E-value: 6.1e-05
                    TPR_2   4 lynlGlayyklgdyeeAleafekAl 28 
                              lyn  ++y+k+ ++++Ale+ +++ 
  PHY93_07620|PHY93_07620 202 LYNASWCYLKQRNFKKALELIKESF 226
                              799****************999875 PP

  == domain 3  score: 9.7 bits;  conditional E-value: 0.00061
                    TPR_2   3 alynlGlayyklgdyeeAleafekAl 28 
                              + y++G+ ++   dy+ Al+++ +A+
  PHY93_07620|PHY93_07620 405 YRYYQGETALSTHDYQTALKYYVRAV 430
                              5699*******************997 PP

  == domain 4  score: 0.3 bits;  conditional E-value: 0.61
                    TPR_2  10 ayyklgdyeeAleafe 25 
                              a +k g+y+eA + +e
  PHY93_07620|PHY93_07620 579 AMEKVGKYKEAMKGYE 594
                              67789******98775 PP

  == domain 5  score: 7.5 bits;  conditional E-value: 0.0031
                    TPR_2   1 aealynlGlayyklgdyeeAleafekAleldPn 33 
                              aea y+++ +y ++++ ++  ++++k+le+++n
  PHY93_07620|PHY93_07620 608 AEAAYAIATLYQEQNKAKDSYKWLKKSLEIYEN 640
                              7999**************************987 PP

  == domain 6  score: -3.1 bits;  conditional E-value: 7.7
                    TPR_2   7 lGlayyklgdyeeA 20 
                              l++ y+ l+++e  
  PHY93_07620|PHY93_07620 653 LAKGYRLLQNFELS 666
                              88999999999865 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.1       3.8   6.2e+03       5      24 ..     102     124 ..     100     133 .. 0.68
   2 !    8.1   0.0    0.0023       3.8      13      57 ..     147     195 ..     136     201 .. 0.74
   3 !   18.0   0.0   1.8e-06     0.003       4      64 ..     176     237 ..     173     241 .. 0.85
   4 ?   -1.1   0.0       1.8   2.9e+03       5      17 ..     417     429 ..     413     438 .. 0.84
   5 ?   -0.6   0.0       1.2   1.9e+03      30      58 ..     491     519 ..     473     530 .. 0.78
   6 !    7.1   0.3    0.0049         8       5      57 ..     584     640 ..     582     645 .. 0.87

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 3.8
                   TPR_19   5 gdyaeAlalleqalqedpk...n 24 
                              ++y  A+++  ++ +e+p+    
  PHY93_07620|PHY93_07620 102 EQYVTAQKYAIALVKEYPQynrI 124
                              68888888888888888883333 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.0023
                   TPR_19  13 lleqalqedpk....naearllLAeallalgqldeAealLdalpeedpd 57 
                              +l+  ++++ +    + +a+ +LAe +++++ +++A+   +++++ + d
  PHY93_07620|PHY93_07620 147 FLKLSIKYSKDnsttMYNAKTALAEFYYNNKKYNDAISYYQDVLKTNND 195
                              55555555555333466777799***************99999999988 PP

  == domain 3  score: 18.0 bits;  conditional E-value: 1.8e-06
                   TPR_19   4 egdyaeAlalleqalqedpk..naearllLAeallalgqldeAealLdalpeedpddaryasL 64 
                              +++y +A+++++ +l+ +++  ++  +++   ++l++ ++++A +l+++  e +++   y s 
  PHY93_07620|PHY93_07620 176 NKKYNDAISYYQDVLKTNNDewYGKHLYNASWCYLKQRNFKKALELIKESFETTKN-KKYVSM 237
                              579**************9996677777777******************99999999.665555 PP

  == domain 4  score: -1.1 bits;  conditional E-value: 1.8
                   TPR_19   5 gdyaeAlalleqa 17 
                               dy+ Al+++ +a
  PHY93_07620|PHY93_07620 417 HDYQTALKYYVRA 429
                              69*******9987 PP

  == domain 5  score: -0.6 bits;  conditional E-value: 1.2
                   TPR_19  30 lLAeallalgqldeAealLdalpeedpdd 58 
                               L   +++l  +++A ++L  + + ++ d
  PHY93_07620|PHY93_07620 491 KLFSKYYELHKTKKAVNILLVYKLNYRED 519
                              56666999***********9999888876 PP

  == domain 6  score: 7.1 bits;  conditional E-value: 0.0049
                   TPR_19   5 gdyaeAlalleqal..qedpk..naearllLAeallalgqldeAealLdalpeedpd 57 
                              g+y eA++ +e+++  +++p    aea+++ A ++ +++  ++  + L++ +e + +
  PHY93_07620|PHY93_07620 584 GKYKEAMKGYESIYdsKQYPTrtKAEAAYAIATLYQEQNKAKDSYKWLKKSLEIYEN 640
                              89***********95555888999******************999999998887665 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.1   7.3   5.1e-05     0.082      18      80 ..     158     223 ..     143     224 .. 0.84
   2 !    9.4   0.4   0.00074       1.2      29      54 ..     205     230 ..     198     237 .. 0.75
   3 !    7.3   1.0    0.0033       5.4       2      49 ..     381     429 ..     380     437 .. 0.82
   4 ?   -1.9   0.1       2.5     4e+03      33      47 ..     496     510 ..     480     517 .. 0.65
   5 !   12.3   0.8   9.1e-05      0.15       4      53 ..     585     639 ..     582     648 .. 0.83

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 5.1e-05
                              HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-H...HHHHHHHHHHHHTT-HHHHHHHH- CS
                   ANAPC3  18 aetespedayllAlclylngqykrAyellrka.klnsksl...gcrylfAqcllkLkkyeeAiaaLe 80 
                               +t ++++  +lA+ +y+n++y+ A+ ++++  k+n+  +   + +y +  c+lk+ ++++A+ +++
  PHY93_07620|PHY93_07620 158 NSTTMYNAKTALAEFYYNNKKYNDAISYYQDVlKTNND-EwygKHLYNASWCYLKQRNFKKALELIK 223
                              46889999999*********************555444.359999999999***********99876 PP

  == domain 2  score: 9.4 bits;  conditional E-value: 0.00074
                              HHHHHHHTT-HHHHHHHHHCTSHHHC CS
                   ANAPC3  29 lAlclylngqykrAyellrkaklnsk 54 
                               + c++++ ++k+A+el++++ +  k
  PHY93_07620|PHY93_07620 205 ASWCYLKQRNFKKALELIKESFETTK 230
                              467*****************944333 PP

  == domain 3  score: 7.3 bits;  conditional E-value: 0.0033
                              TT-HHHHHHHHHHHH..HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCT CS
                   ANAPC3   2 qnnyknAiflaerlla.aetespedayllAlclylngqykrAyellrka 49 
                              +++yk++i +++ l +  +++ ++ +y+ +++ +++ +y++A++++ +a
  PHY93_07620|PHY93_07620 381 KEDYKKIIRYFDILSSlDKKNKNQYRYYQGETALSTHDYQTALKYYVRA 429
                              789************84455556669999**************988666 PP

  == domain 4  score: -1.9 bits;  conditional E-value: 2.5
                              HHHTT-HHHHHHHHH CS
                   ANAPC3  33 lylngqykrAyellr 47 
                              +y++ + k+A ++l 
  PHY93_07620|PHY93_07620 496 YYELHKTKKAVNILL 510
                              555555555555554 PP

  == domain 5  score: 12.3 bits;  conditional E-value: 9.1e-05
                              -HHHHHHHHHHHH.....HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCT.SHHH CS
                   ANAPC3   4 nyknAiflaerll...a.aetespedayllAlclylngqykrAyellrka.klns 53 
                              +yk+A+  +e ++   +   +  +e+ay+ A  + ++++ k  y++l+k+ ++++
  PHY93_07620|PHY93_07620 585 KYKEAMKGYESIYdskQyPTRTKAEAAYAIATLYQEQNKAKDSYKWLKKSlEIYE 639
                              79999999999995532455888999***********************966665 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.9   2.4   4.5e-05     0.073       5      31 ..     167     193 ..     163     195 .. 0.87
   2 !    7.6   0.1    0.0021       3.4      10      26 ..     208     224 ..     207     227 .. 0.87
   3 !    7.4   0.3    0.0025         4       5      28 ..     407     430 ..     404     431 .. 0.89
   4 ?   -0.1   0.1      0.58   9.5e+02      13      25 ..     582     594 ..     581     595 .. 0.83
   5 ?    4.7   2.9     0.017        28       1      33 [.     608     640 ..     608     641 .. 0.94

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 4.5e-05
                              HHHHHHHHHTT-HHHHHHHHHHHHHHS CS
                    TPR_1   5 ynlGnayfklgkydeAleyyekALeln 31 
                                l+  y++++ky++A+ yy+ +L+ n
  PHY93_07620|PHY93_07620 167 TALAEFYYNNKKYNDAISYYQDVLKTN 193
                              568999***************999976 PP

  == domain 2  score: 7.6 bits;  conditional E-value: 0.0021
                              HHHHTT-HHHHHHHHHH CS
                    TPR_1  10 ayfklgkydeAleyyek 26 
                              +y+k+ ++++Ale  ++
  PHY93_07620|PHY93_07620 208 CYLKQRNFKKALELIKE 224
                              9***********98765 PP

  == domain 3  score: 7.4 bits;  conditional E-value: 0.0025
                              HHHHHHHHHTT-HHHHHHHHHHHH CS
                    TPR_1   5 ynlGnayfklgkydeAleyyekAL 28 
                              y  G + ++  +y+ Al+yy +A+
  PHY93_07620|PHY93_07620 407 YYQGETALSTHDYQTALKYYVRAV 430
                              7789999999**********9995 PP

  == domain 4  score: -0.1 bits;  conditional E-value: 0.58
                              HTT-HHHHHHHHH CS
                    TPR_1  13 klgkydeAleyye 25 
                              k gky+eA + ye
  PHY93_07620|PHY93_07620 582 KVGKYKEAMKGYE 594
                              67******98775 PP

  == domain 5  score: 4.7 bits;  conditional E-value: 0.017
                              HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT CS
                    TPR_1   1 akalynlGnayfklgkydeAleyyekALelnPn 33 
                              a+a y ++ +y++++k ++  +  +k Le+++n
  PHY93_07620|PHY93_07620 608 AEAAYAIATLYQEQNKAKDSYKWLKKSLEIYEN 640
                              688899************************987 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.1       2.1   3.4e+03      11      39 ..     102     127 ..      98     138 .. 0.75
   2 !   17.1   0.0   4.1e-06    0.0066       2      59 ..     168     224 ..     167     226 .. 0.90
   3 ?    2.9   0.0      0.11   1.8e+02      35      60 ..     404     429 ..     389     434 .. 0.75
   4 ?   -3.3   0.1       9.4   1.5e+04      16      26 ..     608     618 ..     606     627 .. 0.52

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 2.1
                   TPR_16  11 gdyddAaaaleaalkrdpssPdaaeAlll 39 
                               +y  A++++ a++k +   P+  + +  
  PHY93_07620|PHY93_07620 102 EQYVTAQKYAIALVKEY---PQYNRISEI 127
                              67888999999999999...987666554 PP

  == domain 2  score: 17.1 bits;  conditional E-value: 4.1e-06
                   TPR_16   2 alaraalragdyddAaaaleaalkrdpssPd..aaeAllllgdaalrqgrlaeAaalyra 59 
                              ala  ++++++y dA+ +++ +lk +    d      l++  +++l+q ++++A++l+++
  PHY93_07620|PHY93_07620 168 ALAEFYYNNKKYNDAISYYQDVLKTN---NDewYGKHLYNASWCYLKQRNFKKALELIKE 224
                              5666799*******************...5556**********************99876 PP

  == domain 3  score: 2.9 bits;  conditional E-value: 0.11
                   TPR_16  35 eAllllgdaalrqgrlaeAaalyraa 60 
                              + +++ g+ al   +++ A+ +y +a
  PHY93_07620|PHY93_07620 404 QYRYYQGETALSTHDYQTALKYYVRA 429
                              67777788888777888777665554 PP

  == domain 4  score: -3.3 bits;  conditional E-value: 9.4
                   TPR_16  16 Aaaaleaalkr 26 
                              A+aa+ +a+ +
  PHY93_07620|PHY93_07620 608 AEAAYAIATLY 618
                              44444444433 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.5   0.0   0.00026      0.43       4      35 ..     166     197 ..     164     206 .. 0.88
   2 ?    0.3   0.0       1.1   1.8e+03      11      30 ..     209     228 ..     201     232 .. 0.83
   3 ?   -2.6   0.0       9.3   1.5e+04       7      26 ..     245     264 ..     244     277 .. 0.80
   4 ?   -2.6   0.1       9.4   1.5e+04      23      43 ..     292     316 ..     290     317 .. 0.56
   5 ?   -0.8   0.0       2.4   3.9e+03       4      28 ..     406     430 ..     404     433 .. 0.83
   6 ?    3.1   0.1      0.13   2.1e+02       2      32 ..     609     639 ..     608     646 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00026
                   TPR_14   4 llalaeallalGdpdeAiallrralalaPdda 35 
                                alae+++++ ++ +Ai +++++l+++ d++
  PHY93_07620|PHY93_07620 166 KTALAEFYYNNKKYNDAISYYQDVLKTNNDEW 197
                              569***********************999887 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 1.1
                   TPR_14  11 llalGdpdeAiallrralal 30 
                              +l ++++++A++l ++  ++
  PHY93_07620|PHY93_07620 209 YLKQRNFKKALELIKESFET 228
                              8899*********9988765 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 9.3
                   TPR_14   7 laeallalGdpdeAiallrr 26 
                              ++ ++ +++ ++e i+ +++
  PHY93_07620|PHY93_07620 245 IGIFYVQADATREGIEFYEK 264
                              67899999999999999885 PP

  == domain 4  score: -2.6 bits;  conditional E-value: 9.4
                   TPR_14  23 llrrala....laPddaeawlllaq 43 
                              +lr+al+    +  ++ e   +laq
  PHY93_07620|PHY93_07620 292 VLRAALRdtqkRKDTNMEMKVRLAQ 316
                              6777777322123356677777777 PP

  == domain 5  score: -0.8 bits;  conditional E-value: 2.4
                   TPR_14   4 llalaeallalGdpdeAiallrral 28 
                              ++  +e  l   d+++A++++ ra+
  PHY93_07620|PHY93_07620 406 RYYQGETALSTHDYQTALKYYVRAV 430
                              566788889999********98885 PP

  == domain 6  score: 3.1 bits;  conditional E-value: 0.13
                   TPR_14   2 eallalaeallalGdpdeAiallrralalaP 32 
                              ea +a+a ++ ++ + +++ + l++ l+ + 
  PHY93_07620|PHY93_07620 609 EAAYAIATLYQEQNKAKDSYKWLKKSLEIYE 639
                              899***********************99875 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.6   0.1    0.0055       8.9       4      31 ..     168     195 ..     167     196 .. 0.86
   2 !    7.2   0.0    0.0035       5.8       3      27 ..     203     227 ..     202     234 .. 0.79
   3 ?   -2.5   0.0       4.6   7.5e+03      13      23 ..     382     392 ..     379     399 .. 0.83
   4 ?    3.8   0.0     0.044        71      11      29 ..     415     431 ..     407     442 .. 0.80
   5 ?   -3.2   0.0       7.2   1.2e+04      11      19 ..     582     590 ..     581     594 .. 0.79
   6 ?    2.7   0.2     0.097   1.6e+02       3      29 ..     612     638 ..     610     646 .. 0.88
   7 ?   -3.5   0.0         9   1.5e+04      14      24 ..     801     811 ..     800     814 .. 0.81

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.0055
                    TPR_7   4 nLarlysrlGdyeeAielyeqsLaltkd 31 
                              +La+ y +  +y +Ai++y+ +L + +d
  PHY93_07620|PHY93_07620 168 ALAEFYYNNKKYNDAISYYQDVLKTNND 195
                              799999999***********98876665 PP

  == domain 2  score: 7.2 bits;  conditional E-value: 0.0035
                    TPR_7   3 lnLarlysrlGdyeeAielyeqsLa 27 
                              +n   +y +++++++A+el ++s +
  PHY93_07620|PHY93_07620 203 YNASWCYLKQRNFKKALELIKESFE 227
                              677789*************999544 PP

  == domain 3  score: -2.5 bits;  conditional E-value: 4.6
                    TPR_7  13 GdyeeAielye 23 
                               dy++ i+++ 
  PHY93_07620|PHY93_07620 382 EDYKKIIRYFD 392
                              79******995 PP

  == domain 4  score: 3.8 bits;  conditional E-value: 0.044
                    TPR_7  11 rlGdyeeAielyeqsLalt 29 
                              +  dy++A+++y +  a+ 
  PHY93_07620|PHY93_07620 415 STHDYQTALKYYVR--AVM 431
                              5569********99..766 PP

  == domain 5  score: -3.2 bits;  conditional E-value: 7.2
                    TPR_7  11 rlGdyeeAi 19 
                              ++G+y+eA 
  PHY93_07620|PHY93_07620 582 KVGKYKEAM 590
                              689***996 PP

  == domain 6  score: 2.7 bits;  conditional E-value: 0.097
                    TPR_7   3 lnLarlysrlGdyeeAielyeqsLalt 29 
                              +++a ly+++++ ++  + +++sL++ 
  PHY93_07620|PHY93_07620 612 YAIATLYQEQNKAKDSYKWLKKSLEIY 638
                              689*******************99985 PP

  == domain 7  score: -3.5 bits;  conditional E-value: 9
                    TPR_7  14 dyeeAielyeq 24 
                              +y++ +e+ e+
  PHY93_07620|PHY93_07620 801 QYDRVLEFREK 811
                              68999999998 PP

>> TPR_10  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.8   0.2   0.00044      0.72       6      31 ..     167     192 ..     164     194 .. 0.90
   2 ?    1.5   0.0      0.18     3e+02      12      33 ..     209     230 ..     202     231 .. 0.88
   3 ?   -2.4   0.0         3   4.9e+03      22      35 ..     416     429 ..     407     430 .. 0.49
   4 ?   -3.3   0.0       5.7   9.3e+03      15      25 ..     583     593 ..     582     596 .. 0.78
   5 ?    5.0   0.4     0.014        23       4      33 ..     610     639 ..     608     640 .. 0.90

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00044
                   TPR_10   6 nNLanalrqrgrydeAealleealai 31 
                              + La  +++ ++y++A  +++++l +
  PHY93_07620|PHY93_07620 167 TALAEFYYNNKKYNDAISYYQDVLKT 192
                              679********************986 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.18
                   TPR_10  12 lrqrgrydeAealleealairr 33 
                              + +++++++A++l +e+ ++ +
  PHY93_07620|PHY93_07620 209 YLKQRNFKKALELIKESFETTK 230
                              7899***********9999875 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 3
                   TPR_10  22 ealleealairrrl 35 
                                +++ al  + r+
  PHY93_07620|PHY93_07620 416 THDYQTALKYYVRA 429
                              44555555544443 PP

  == domain 4  score: -3.3 bits;  conditional E-value: 5.7
                   TPR_10  15 rgrydeAeall 25 
                              +g+y+eA++ +
  PHY93_07620|PHY93_07620 583 VGKYKEAMKGY 593
                              69999998765 PP

  == domain 5  score: 5.0 bits;  conditional E-value: 0.014
                   TPR_10   4 slnNLanalrqrgrydeAealleealairr 33 
                              +   +a +++++++ +++ ++l+++l+i++
  PHY93_07620|PHY93_07620 610 AAYAIATLYQEQNKAKDSYKWLKKSLEIYE 639
                              566789***********************8 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   1.5   0.00033      0.55       5      32 ..     167     194 ..     163     196 .. 0.88
   2 ?    4.4   0.2     0.032        52       4      29 ..     202     227 ..     202     231 .. 0.88
   3 ?   -1.9   0.0       3.4   5.5e+03       4      26 ..     242     264 ..     240     264 .. 0.83
   4 ?   -0.2   0.1      0.99   1.6e+03       9      28 ..     411     430 ..     407     434 .. 0.81
   5 ?   -0.9   0.0       1.6   2.7e+03       3      19 ..     526     542 ..     525     542 .. 0.86
   6 ?   -2.5   0.1       5.4   8.8e+03      14      22 ..     583     591 ..     581     595 .. 0.79
   7 ?    6.5   3.5    0.0067        11       1      33 [.     608     640 ..     608     641 .. 0.94

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00033
                              HHHHHHHHHTT-HHHHHHHHHHHHHHHH CS
                    TPR_8   5 ynlgsiylklgdyeeAkeyyekaleldp 32 
                                l+  y + ++y+ A++yy+ +l+ + 
  PHY93_07620|PHY93_07620 167 TALAEFYYNNKKYNDAISYYQDVLKTNN 194
                              689********************99876 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.032
                              HHHHHHHHHHTT-HHHHHHHHHHHHH CS
                    TPR_8   4 yynlgsiylklgdyeeAkeyyekale 29 
                              +yn +++ylk+ ++++A e +++  e
  PHY93_07620|PHY93_07620 202 LYNASWCYLKQRNFKKALELIKESFE 227
                              6999**************99988765 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 3.4
                              HHHHHHHHHHTT-HHHHHHHHHH CS
                    TPR_8   4 yynlgsiylklgdyeeAkeyyek 26 
                               + +g  y +     e +e+yek
  PHY93_07620|PHY93_07620 242 NNAIGIFYVQADATREGIEFYEK 264
                              56788888898999999****98 PP

  == domain 4  score: -0.2 bits;  conditional E-value: 0.99
                              HHHHHTT-HHHHHHHHHHHH CS
                    TPR_8   9 siylklgdyeeAkeyyekal 28 
                               + l++ dy+ A +yy +a+
  PHY93_07620|PHY93_07620 411 ETALSTHDYQTALKYYVRAV 430
                              56667779********9997 PP

  == domain 5  score: -0.9 bits;  conditional E-value: 1.6
                              HHHHHHHHHHHTT-HHH CS
                    TPR_8   3 ayynlgsiylklgdyee 19 
                              ++ ++ ++y+k ++ ++
  PHY93_07620|PHY93_07620 526 MLTQILDTYIKEKNTDK 542
                              78899********9885 PP

  == domain 6  score: -2.5 bits;  conditional E-value: 5.4
                              TT-HHHHHH CS
                    TPR_8  14 lgdyeeAke 22 
                               g+y+eA++
  PHY93_07620|PHY93_07620 583 VGKYKEAMK 591
                              599****98 PP

  == domain 7  score: 6.5 bits;  conditional E-value: 0.0067
                              CCHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH CS
                    TPR_8   1 aeayynlgsiylklgdyeeAkeyyekaleldpd 33 
                              aea y ++ +y+++++ + + ++++k le+ ++
  PHY93_07620|PHY93_07620 608 AEAAYAIATLYQEQNKAKDSYKWLKKSLEIYEN 640
                              6899**************************876 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.5   0.5      0.17   2.8e+02       9      32 ..      95     120 ..      94     121 .. 0.82
   2 ?    7.9   0.1    0.0033       5.3       6      28 ..     169     191 ..     168     193 .. 0.91
   3 ?    6.3   0.1      0.01        17       3      22 ..     202     221 ..     202     224 .. 0.91
   4 ?    0.3   0.4      0.89   1.4e+03       3      24 ..     406     427 ..     404     430 .. 0.84
   5 ?    1.4   0.1      0.39   6.3e+02      15      30 ..     481     496 ..     456     496 .. 0.70
   6 ?   -0.7   0.0       1.7   2.8e+03       9      26 ..     579     596 ..     571     599 .. 0.78
   7 ?    0.4   0.2      0.78   1.3e+03       1      16 [.     609     624 ..     609     635 .. 0.83

  Alignments for each domain:
  == domain 1  score: 2.5 bits;  conditional E-value: 0.17
                              HHHHH..HHHHHHHHHHHHHHHH-TT CS
                    TPR_6   9 syrkl..gdtdkAlealerlikeYPd 32 
                              sy+k+   ++ +A ++   l+keYP+
  PHY93_07620|PHY93_07620  95 SYFKAsrEQYVTAQKYAIALVKEYPQ 120
                              66765445899**************7 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.0033
                              HHHHHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   6 lalsyrklgdtdkAlealerlik 28 
                              la+ y++ +++ +A+ ++++++k
  PHY93_07620|PHY93_07620 169 LAEFYYNNKKYNDAISYYQDVLK 191
                              7999***99************98 PP

  == domain 3  score: 6.3 bits;  conditional E-value: 0.01
                              HHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   3 lyklalsyrklgdtdkAlea 22 
                              ly++ ++y+k+ +  kAle+
  PHY93_07620|PHY93_07620 202 LYNASWCYLKQRNFKKALEL 221
                              89********99*****997 PP

  == domain 4  score: 0.3 bits;  conditional E-value: 0.89
                              HHHHHHHHHH.HHHHHHHHHHHH CS
                    TPR_6   3 lyklalsyrk.lgdtdkAleale 24 
                               y++++  ++   d+++Al+++ 
  PHY93_07620|PHY93_07620 406 RYYQGETALStH-DYQTALKYYV 427
                              599999999977.*******995 PP

  == domain 5  score: 1.4 bits;  conditional E-value: 0.39
                              HHHHHHHHHHHHHHH- CS
                    TPR_6  15 dtdkAlealerlikeY 30 
                              ++dk+ +++++l ++Y
  PHY93_07620|PHY93_07620 481 QSDKSQTIYQKLFSKY 496
                              5677777777776666 PP

  == domain 6  score: -0.7 bits;  conditional E-value: 1.7
                              HHHHHHHHHHHHHHHHHH CS
                    TPR_6   9 syrklgdtdkAlealerl 26 
                              +++k g++ +A++ +e++
  PHY93_07620|PHY93_07620 579 AMEKVGKYKEAMKGYESI 596
                              455647******999976 PP

  == domain 7  score: 0.4 bits;  conditional E-value: 0.78
                              HHHHHHHHHHHHHHHH CS
                    TPR_6   1 dAlyklalsyrklgdt 16 
                              +A y +a +y++++++
  PHY93_07620|PHY93_07620 609 EAAYAIATLYQEQNKA 624
                              68999*******9544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (975 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1551  (0.0865079); expected 358.6 (0.02)
Passed bias filter:                      336  (0.0187406); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              11  [number of targets reported over threshold]
# CPU time: 0.83u 0.24s 00:00:01.06 Elapsed: 00:00:00.45
# Mc/sec: 6446.97
//
Query:       PHY93_07625|PHY93_07625  [L=289]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.7e-12   45.8   4.9     0.0067   16.5   0.0    5.3  5  TPR_2     Tetratricopeptide repeat
    1.1e-09   37.7  10.7        0.7   10.3   0.4    5.4  5  TPR_8     Tetratricopeptide repeat
    9.8e-09   34.7   6.0     0.0022   17.7   0.1    4.7  5  TPR_1     Tetratricopeptide repeat
    1.1e-08   35.2   2.1          1    9.7   0.0    4.5  4  TPR_12    Tetratricopeptide repeat
    5.7e-07   30.0   0.1      0.059   13.9   0.0    3.5  4  TPR_19    Tetratricopeptide repeat
    4.1e-06   26.8   6.8       0.35   11.4   0.1    5.2  5  TPR_17    Tetratricopeptide repeat
    6.5e-06   26.7   0.0       0.34   11.6   0.0    4.1  4  TPR_16    Tetratricopeptide repeat
      8e-06   26.0   3.9       0.13   12.5   0.1    3.9  4  ANAPC3    Anaphase-promoting complex, cyclosome, subunit 3
    4.3e-05   23.9   1.6       0.57   10.9   0.0    4.5  5  TPR_6     Tetratricopeptide repeat
    0.00085   19.2   2.0        4.4    7.6   0.0    4.7  5  TPR_7     Tetratricopeptide repeat
     0.0019   17.9   2.3      0.043   13.5   0.1    3.9  5  TPR_11    TPR repeat
     0.0085   16.8   0.0        1.2   10.1   0.0    3.7  4  TPR_14    Tetratricopeptide repeat
  ------ inclusion threshold ------
      0.012   15.5   2.4       0.24   11.3   0.1    3.5  4  TPR_10    Tetratricopeptide repeat


Domain annotation for each model (and alignments):
>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   4.8e-06    0.0067       2      28 ..      92     118 ..      91     122 .. 0.88
   2 !   12.7   0.0   7.9e-05      0.11       3      33 ..     136     166 ..     134     167 .. 0.91
   3 ?    3.3   0.0     0.082   1.1e+02       5      34 .]     172     201 ..     170     201 .. 0.90
   4 ?    6.0   0.0     0.011        15       2      20 ..     203     221 ..     202     230 .. 0.86
   5 ?    4.9   0.3     0.025        35       7      25 ..     242     260 ..     240     261 .. 0.86

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 4.8e-06
                    TPR_2   2 ealynlGlayyklgdyeeAleafekAl 28 
                               ++++lG +y  ++dy +Al +++  +
  PHY93_07625|PHY93_07625  92 FYWNALGTCYSLSKDYTKALFYYDLGV 118
                              79*********************8665 PP

  == domain 2  score: 12.7 bits;  conditional E-value: 7.9e-05
                    TPR_2   3 alynlGlayyklgdyeeAleafekAleldPn 33 
                              + +nlGl++++ ++y+eA + f ++  l Pn
  PHY93_07625|PHY93_07625 136 LANNLGLIHLNFKRYNEAFDSFSRSKNLLPN 166
                              568**********************999998 PP

  == domain 3  score: 3.3 bits;  conditional E-value: 0.082
                    TPR_2   5 ynlGlayyklgdyeeAleafekAleldPnn 34 
                              +n++++ ++ ++ ++Ale ++k    +P++
  PHY93_07625|PHY93_07625 172 FNIAQLFIEFNENDKALEILKKLEVKNPDD 201
                              899999999999**********99999986 PP

  == domain 4  score: 6.0 bits;  conditional E-value: 0.011
                    TPR_2   2 ealynlGlayyklgdyeeA 20 
                              ++ly l l+y++++d+++ 
  PHY93_07625|PHY93_07625 203 DLLYSLSLIYFRKNDLDKS 221
                              579**************97 PP

  == domain 5  score: 4.9 bits;  conditional E-value: 0.025
                    TPR_2   7 lGlayyklgdyeeAleafe 25 
                               ++ ++k+++++eA+e  e
  PHY93_07625|PHY93_07625 242 YAYNLMKKNRLAEAREIIE 260
                              5899***********9766 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.3   0.4   0.00051       0.7       3      28 ..      93     118 ..      93     120 .. 0.90
   2 !    9.2   0.0    0.0011       1.6       4      26 ..     137     159 ..     134     166 .. 0.86
   3 ?    5.3   0.0      0.02        27       5      26 ..     172     193 ..     170     195 .. 0.94
   4 !    9.9   0.0   0.00067      0.93       2      26 ..     203     227 ..     202     229 .. 0.89
   5 ?    5.8   0.6     0.014        19       6      31 ..     241     266 ..     237     269 .. 0.84

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00051
                              HHHHHHHHHHHTT-HHHHHHHHHHHH CS
                    TPR_8   3 ayynlgsiylklgdyeeAkeyyekal 28 
                              +++ lg +y+  +dy +A  yy   +
  PHY93_07625|PHY93_07625  93 YWNALGTCYSLSKDYTKALFYYDLGV 118
                              69********************8665 PP

  == domain 2  score: 9.2 bits;  conditional E-value: 0.0011
                              HHHHHHHHHHTT-HHHHHHHHHH CS
                    TPR_8   4 yynlgsiylklgdyeeAkeyyek 26 
                               +nlg+i+l+ ++y+eA  ++ +
  PHY93_07625|PHY93_07625 137 ANNLGLIHLNFKRYNEAFDSFSR 159
                              589**************999865 PP

  == domain 3  score: 5.3 bits;  conditional E-value: 0.02
                              HHHHHHHHHTT-HHHHHHHHHH CS
                    TPR_8   5 ynlgsiylklgdyeeAkeyyek 26 
                              +n++++ ++ ++ ++A e ++k
  PHY93_07625|PHY93_07625 172 FNIAQLFIEFNENDKALEILKK 193
                              89******************99 PP

  == domain 4  score: 9.9 bits;  conditional E-value: 0.00067
                              CHHHHHHHHHHHTT-HHHHHHHHHH CS
                    TPR_8   2 eayynlgsiylklgdyeeAkeyyek 26 
                              +++y l++iy+ ++d++++ +++++
  PHY93_07625|PHY93_07625 203 DLLYSLSLIYFRKNDLDKSFATIKR 227
                              689***************9998876 PP

  == domain 5  score: 5.8 bits;  conditional E-value: 0.014
                              HHHHHHHHTT-HHHHHHHHHHHHHHH CS
                    TPR_8   6 nlgsiylklgdyeeAkeyyekaleld 31 
                              + ++ ++k++++ eA e +ek l++d
  PHY93_07625|PHY93_07625 241 LYAYNLMKKNRLAEAREIIEKRLYAD 266
                              568889**************977666 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   0.1   1.6e-06    0.0022       3      25 ..      93     115 ..      91     122 .. 0.90
   2 !   13.8   0.0   2.7e-05     0.037       5      34 .]     138     167 ..     134     167 .. 0.93
   3 ?    1.5   0.0      0.22     3e+02       5      26 ..     172     193 ..     171     201 .. 0.83
   4 ?    0.8   0.0      0.37   5.1e+02       4      19 ..     205     220 ..     202     228 .. 0.79
   5 ?   -2.4   0.1       3.6   4.9e+03      11      21 ..     246     256 ..     243     260 .. 0.72

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 1.6e-06
                              HHHHHHHHHHHTT-HHHHHHHHH CS
                    TPR_1   3 alynlGnayfklgkydeAleyye 25 
                               ++ lG +y   ++y +Al yy+
  PHY93_07625|PHY93_07625  93 YWNALGTCYSLSKDYTKALFYYD 115
                              69********************7 PP

  == domain 2  score: 13.8 bits;  conditional E-value: 2.7e-05
                              HHHHHHHHHTT-HHHHHHHHHHHHHHSTTH CS
                    TPR_1   5 ynlGnayfklgkydeAleyyekALelnPnn 34 
                              +nlG+++++ ++y+eA + +++   l Pn+
  PHY93_07625|PHY93_07625 138 NNLGLIHLNFKRYNEAFDSFSRSKNLLPNF 167
                              8*********************99999886 PP

  == domain 3  score: 1.5 bits;  conditional E-value: 0.22
                              HHHHHHHHHTT-HHHHHHHHHH CS
                    TPR_1   5 ynlGnayfklgkydeAleyyek 26 
                              +n+++++ + ++ d+Ale  +k
  PHY93_07625|PHY93_07625 172 FNIAQLFIEFNENDKALEILKK 193
                              6999999999999999997666 PP

  == domain 4  score: 0.8 bits;  conditional E-value: 0.37
                              HHHHHHHHHHTT-HHH CS
                    TPR_1   4 lynlGnayfklgkyde 19 
                              ly l ++yf+++++d+
  PHY93_07625|PHY93_07625 205 LYSLSLIYFRKNDLDK 220
                              5666689*******98 PP

  == domain 5  score: -2.4 bits;  conditional E-value: 3.6
                              HHHTT-HHHHH CS
                    TPR_1  11 yfklgkydeAl 21 
                              ++k++++ eA 
  PHY93_07625|PHY93_07625 246 LMKKNRLAEAR 256
                              56777777775 PP

>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.9   0.0    0.0013       1.8      49      69 ..      95     115 ..      92     123 .. 0.84
   2 ?    4.2   0.0     0.039        53      49      70 ..     172     193 ..     169     195 .. 0.91
   3 !    9.7   0.0   0.00074         1      27      71 ..     185     228 ..     184     234 .. 0.86
   4 ?    0.7   0.2      0.47   6.4e+02       9      30 ..     242     263 ..     238     270 .. 0.78

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.0013
                   TPR_12  49 rnLgrlyralgryeeAlelle 69 
                              ++Lg++y+++++y +Al ++ 
  PHY93_07625|PHY93_07625  95 NALGTCYSLSKDYTKALFYYD 115
                              7899************99986 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.039
                   TPR_12  49 rnLgrlyralgryeeAlellee 70 
                              +n+++l+ ++++ ++Ale+l++
  PHY93_07625|PHY93_07625 172 FNIAQLFIEFNENDKALEILKK 193
                              79*****************997 PP

  == domain 3  score: 9.7 bits;  conditional E-value: 0.00074
                   TPR_12  27 ekaleiarrllGpdhpltattlrnLgrlyralgryeeAlelleea 71 
                              +kalei ++l + ++p+ +  l+ L+ +y++ +++++  +  +++
  PHY93_07625|PHY93_07625 185 DKALEILKKL-EVKNPDDIDLLYSLSLIYFRKNDLDKSFATIKRV 228
                              59*****877.7899*********************998777665 PP

  == domain 4  score: 0.7 bits;  conditional E-value: 0.47
                   TPR_12   9 laavlrrlgrydeAlellekal 30 
                              +a  l++  r++eA+e+ ek l
  PHY93_07625|PHY93_07625 242 YAYNLMKKNRLAEAREIIEKRL 263
                              5667888889999999988865 PP

>> TPR_19  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.0      0.71   9.8e+02      28      46 ..      94     112 ..      70     123 .. 0.75
   2 !   13.9   0.0   4.3e-05     0.059       6      59 ..     149     203 ..     144     210 .. 0.85
   3 !   11.8   0.0   0.00019      0.26       8      52 ..     185     229 ..     182     236 .. 0.87
   4 !   10.5   0.1   0.00049      0.67      23      51 ..     234     262 ..     214     271 .. 0.84

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.71
                   TPR_19  28 rllLAeallalgqldeAea 46 
                              + +L  ++  ++++++A  
  PHY93_07625|PHY93_07625  94 WNALGTCYSLSKDYTKALF 112
                              5578889999999999975 PP

  == domain 2  score: 13.9 bits;  conditional E-value: 4.3e-05
                   TPR_19   6 dyaeAlalleqalqedpknaearllLAeallalgqldeAealLdalpeedpdd.a 59 
                              +y eA + +++     p+    + + A++ ++ ++ d+A ++L++l  ++pdd  
  PHY93_07625|PHY93_07625 149 RYNEAFDSFSRSKNLLPNFFTPQFNIAQLFIEFNENDKALEILKKLEVKNPDDiD 203
                              67888888888888889988889999**************************844 PP

  == domain 3  score: 11.8 bits;  conditional E-value: 0.00019
                   TPR_19   8 aeAlalleqalqedpknaearllLAeallalgqldeAealLdalp 52 
                              + Al++l+++  ++p++ ++++ L  +++  ++ld+  a+++++ 
  PHY93_07625|PHY93_07625 185 DKALEILKKLEVKNPDDIDLLYSLSLIYFRKNDLDKSFATIKRVK 229
                              78*******7666**********************9888888776 PP

  == domain 4  score: 10.5 bits;  conditional E-value: 0.00049
                   TPR_19  23 knaearllLAeallalgqldeAealLdal 51 
                              + +++  l+A  l++ ++l+eA++++++ 
  PHY93_07625|PHY93_07625 234 NRPDIVGLYAYNLMKKNRLAEAREIIEKR 262
                              679999*******************9875 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.4   0.1   0.00025      0.35       8      33 ..      86     111 ..      83     112 .. 0.92
   2 ?    3.1   0.1      0.11   1.5e+02      14      32 ..     135     153 ..     133     155 .. 0.88
   3 ?    3.1   0.0      0.11   1.5e+02      10      34 .]     165     189 ..     161     189 .. 0.90
   4 !    7.8   0.0    0.0035       4.8       8      31 ..     197     220 ..     191     222 .. 0.90
   5 ?    0.0   0.0       1.1   1.4e+03      18      34 .]     241     257 ..     234     257 .. 0.84

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00025
                   TPR_17   8 ldPnnadaynnLAelllknGdlmtAr 33 
                              ++++n+  +n L+++++  +d+ +A+
  PHY93_07625|PHY93_07625  86 KNKTNPFYWNALGTCYSLSKDYTKAL 111
                              689*******************9996 PP

  == domain 2  score: 3.1 bits;  conditional E-value: 0.11
                   TPR_17  14 daynnLAelllknGdlmtA 32 
                               + nnL+ ++l+ +++ +A
  PHY93_07625|PHY93_07625 135 TLANNLGLIHLNFKRYNEA 153
                              678**********999988 PP

  == domain 3  score: 3.1 bits;  conditional E-value: 0.11
                   TPR_17  10 PnnadaynnLAelllknGdlmtArq 34 
                              Pn + + +n A+l+ + ++ ++A++
  PHY93_07625|PHY93_07625 165 PNFFTPQFNIAQLFIEFNENDKALE 189
                              9999999********9999999975 PP

  == domain 4  score: 7.8 bits;  conditional E-value: 0.0035
                   TPR_17   8 ldPnnadaynnLAelllknGdlmt 31 
                              ++P++ d+++ L  ++ +++dl++
  PHY93_07625|PHY93_07625 197 KNPDDIDLLYSLSLIYFRKNDLDK 220
                              59******************9986 PP

  == domain 5  score: 0.0 bits;  conditional E-value: 1.1
                   TPR_17  18 nLAelllknGdlmtArq 34 
                              ++A+ l k+++l++Ar+
  PHY93_07625|PHY93_07625 241 LYAYNLMKKNRLAEARE 257
                              588889999****9996 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.6   0.0     0.079   1.1e+02      31      58 ..      91     115 ..      85     122 .. 0.78
   2 ?    3.6   0.0     0.076   1.1e+02      33      58 ..     133     158 ..     124     165 .. 0.83
   3 !   11.6   0.0   0.00025      0.34       2      61 ..     173     229 ..     172     236 .. 0.90
   4 ?    3.1   0.1      0.11   1.5e+02      34      64 ..     236     264 ..     223     270 .. 0.75

  Alignments for each domain:
  == domain 1  score: 3.6 bits;  conditional E-value: 0.079
                   TPR_16  31 PdaaeAllllgdaalrqgrlaeAaalyr 58 
                              P+    +++lg ++   +++++A+ +y+
  PHY93_07625|PHY93_07625  91 PF---YWNALGTCYSLSKDYTKALFYYD 115
                              55...799***************95554 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.076
                   TPR_16  33 aaeAllllgdaalrqgrlaeAaalyr 58 
                               a  +++lg+++l ++r+ eA + + 
  PHY93_07625|PHY93_07625 133 EATLANNLGLIHLNFKRYNEAFDSFS 158
                              5778899***********99986665 PP

  == domain 3  score: 11.6 bits;  conditional E-value: 0.00025
                   TPR_16   2 alaraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeAaalyraal 61 
                              + a+++++ ++ d+A++ l+ +  ++   Pd+ + l+ l ++++r+++l++  a +++  
  PHY93_07625|PHY93_07625 173 NIAQLFIEFNENDKALEILKKLEVKN---PDDIDLLYSLSLIYFRKNDLDKSFATIKRVK 229
                              679999999*****************...*********************9988887765 PP

  == domain 4  score: 3.1 bits;  conditional E-value: 0.11
                   TPR_16  34 aeAllllgdaalrqgrlaeAaalyraalraa 64 
                              ++   l++  + +++rlaeA++ +++  r +
  PHY93_07625|PHY93_07625 236 PDIVGLYAYNLMKKNRLAEAREIIEK--RLY 264
                              56667889999999*******66655..444 PP

>> ANAPC3  Anaphase-promoting complex, cyclosome, subunit 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.3   0.2    0.0019       2.7      24      76 ..      58     111 ..      39     113 .. 0.72
   2 !    6.2   0.7    0.0087        12      26      47 ..      92     115 ..      83     160 .. 0.66
   3 !    7.0   0.3    0.0048       6.6       4      81 ..     106     193 ..     104     194 .. 0.76
   4 !   12.5   0.1   9.6e-05      0.13       7      81 ..     186     261 ..     180     262 .. 0.84

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0019
                              HHHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-HHHHHHHHHHHHHTT-HHHHH CS
                   ANAPC3  24 edayllAlclylngqykrAyellrka.klnskslgcrylfAqcllkLkkyeeAi 76 
                              +d   +Al  ++++++++ + +l+    +n++++ ++  ++ c+   k y +A+
  PHY93_07625|PHY93_07625  58 SDFISKALLACHQKKFTKGMGILEVEmHKNKTNPFYWNALGTCYSLSKDYTKAL 111
                              455557888888888888888888887777777777666666655446676665 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.0087
                              HHH..HHHHHHHTT-HHHHHHHHH CS
                   ANAPC3  26 ayl..lAlclylngqykrAyellr 47 
                               y+  l+ c+ l+++y++A+ +++
  PHY93_07625|PHY93_07625  92 FYWnaLGTCYSLSKDYTKALFYYD 115
                              566557999999999999987765 PP

  == domain 3  score: 7.0 bits;  conditional E-value: 0.0048
                              -HHHHHHHHHHHH.......HHH--HHHHHH...HHHHHHHTT-HHHHHHHHHCT.SHHHC-HHHHHHHHHHHHHTT-HHHHHHHH CS
                   ANAPC3   4 nyknAiflaerll......aaetespedayl...lAlclylngqykrAyellrka.klnskslgcrylfAqcllkLkkyeeAiaaL 79 
                              +y +A+f++++ +      + +++ +  a l   l+l +++ ++y++A++ ++++ +l ++     + +Aq  ++ ++ ++A+ +L
  PHY93_07625|PHY93_07625 106 DYTKALFYYDLGVealpmiKDQSKVLAEATLannLGLIHLNFKRYNEAFDSFSRSkNLLPNFFTPQFNIAQLFIEFNENDKALEIL 191
                              78999999999996555553444444444444557***************999998888888888888888888888888888888 PP

                              -S CS
                   ANAPC3  80 ek 81 
                              +k
  PHY93_07625|PHY93_07625 192 KK 193
                              76 PP

  == domain 4  score: 12.5 bits;  conditional E-value: 9.6e-05
                              HHHHHHHHHH.HHH--HHHHHHHHHHHHHTT-HHHHHHHHHCT.SHHHC-HHHHHHHHHHHHHTT-HHHHHHHH-S CS
                   ANAPC3   7 nAiflaerllaaetespedayllAlclylngqykrAyellrka.klnskslgcrylfAqcllkLkkyeeAiaaLek 81 
                              +A+ ++ +l  +++++ + +y l+l +++ ++ ++ +  +++    + + + +  l+A  l k +++ eA+ ++ek
  PHY93_07625|PHY93_07625 186 KALEILKKLEVKNPDDIDLLYSLSLIYFRKNDLDKSFATIKRVkANYLNRPDIVGLYAYNLMKKNRLAEAREIIEK 261
                              45555555554555566669999********************99999999********************99986 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.9   0.0      0.31   4.3e+02       6      23 ..      97     114 ..      96     115 .. 0.86
   2 ?   -1.0   0.0       2.7   3.7e+03       6      25 ..     140     159 ..     139     166 .. 0.79
   3 !   10.9   0.0   0.00042      0.57       3      32 ..     171     200 ..     171     201 .. 0.91
   4 ?    6.0   0.1     0.015        21       2      30 ..     204     232 ..     203     232 .. 0.92
   5 ?   -1.1   0.1       2.8   3.8e+03      10      24 ..     246     260 ..     241     261 .. 0.67

  Alignments for each domain:
  == domain 1  score: 1.9 bits;  conditional E-value: 0.31
                              HHHHHHHHHHHHHHHHHH CS
                    TPR_6   6 lalsyrklgdtdkAleal 23 
                              l+ +y   +d++kAl ++
  PHY93_07625|PHY93_07625  97 LGTCYSLSKDYTKALFYY 114
                              799***977*****9887 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 2.7
                              HHHHHHHHHHHHHHHHHHHH CS
                    TPR_6   6 lalsyrklgdtdkAlealer 25 
                              l+l +++ +++ +A + + r
  PHY93_07625|PHY93_07625 140 LGLIHLNFKRYNEAFDSFSR 159
                              89999996699999988876 PP

  == domain 3  score: 10.9 bits;  conditional E-value: 0.00042
                              HHHHHHHHHHHHHHHHHHHHHHHHHHH-TT CS
                    TPR_6   3 lyklalsyrklgdtdkAlealerlikeYPd 32 
                              ++++a+++++ ++ dkAle+l++l  + Pd
  PHY93_07625|PHY93_07625 171 QFNIAQLFIEFNENDKALEILKKLEVKNPD 200
                              599*******66************999998 PP

  == domain 4  score: 6.0 bits;  conditional E-value: 0.015
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHH- CS
                    TPR_6   2 AlyklalsyrklgdtdkAlealerlikeY 30 
                               ly l l y++ +d dk+ ++ +r+  +Y
  PHY93_07625|PHY93_07625 204 LLYSLSLIYFRKNDLDKSFATIKRVKANY 232
                              58999******88************9998 PP

  == domain 5  score: -1.1 bits;  conditional E-value: 2.8
                              HHHHHHHHHHHHHHH CS
                    TPR_6  10 yrklgdtdkAleale 24 
                              + k ++ ++A+e+ e
  PHY93_07625|PHY93_07625 246 LMKKNRLAEAREIIE 260
                              444469999999876 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.2   0.0     0.039        53       2      22 ..      94     114 ..      94     129 .. 0.89
   2 ?    1.4   0.0      0.29   3.9e+02       3      18 ..     138     153 ..     135     159 .. 0.86
   3 !    7.6   0.0    0.0032       4.4       4      27 ..     173     195 ..     172     203 .. 0.83
   4 ?    0.3   0.0      0.65   8.9e+02       2      17 ..     205     220 ..     204     227 .. 0.87
   5 ?   -1.0   0.2       1.7   2.3e+03      12      34 ..     249     269 ..     246     271 .. 0.77

  Alignments for each domain:
  == domain 1  score: 4.2 bits;  conditional E-value: 0.039
                    TPR_7   2 LlnLarlysrlGdyeeAiely 22 
                              +++L+ +ys   dy +A+ +y
  PHY93_07625|PHY93_07625  94 WNALGTCYSLSKDYTKALFYY 114
                              689**************9777 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.29
                    TPR_7   3 lnLarlysrlGdyeeA 18 
                              +nL+ ++ +  +y eA
  PHY93_07625|PHY93_07625 138 NNLGLIHLNFKRYNEA 153
                              8*******99999887 PP

  == domain 3  score: 7.6 bits;  conditional E-value: 0.0032
                    TPR_7   4 nLarlysrlGdyeeAielyeqsLa 27 
                              n+a+l+ + ++ ++A+e++++ L+
  PHY93_07625|PHY93_07625 173 NIAQLFIEFNENDKALEILKK-LE 195
                              9******************99.44 PP

  == domain 4  score: 0.3 bits;  conditional E-value: 0.65
                    TPR_7   2 LlnLarlysrlGdyee 17 
                              L+ L  +y+r +d ++
  PHY93_07625|PHY93_07625 205 LYSLSLIYFRKNDLDK 220
                              788999*******998 PP

  == domain 5  score: -1.0 bits;  conditional E-value: 1.7
                    TPR_7  12 lGdyeeAielyeqsLaltkdped 34 
                               ++ +eA e+ e+  +l  d+++
  PHY93_07625|PHY93_07625 249 KNRLAEAREIIEK--RLYADEYN 269
                              6788899999999..88777776 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.0      0.72     1e+03      26      35 ..     108     117 ..     103     118 .. 0.76
   2 ?   -2.7   0.1       3.5   4.9e+03      32      39 ..     138     145 ..     134     146 .. 0.79
   3 ?    1.6   0.0      0.17   2.3e+02       9      38 ..     149     178 ..     148     181 .. 0.91
   4 !   13.5   0.1   3.1e-05     0.043       4      41 ..     178     215 ..     175     216 .. 0.91
   5 ?   -3.0   0.0       4.4   6.1e+03       4      14 ..     246     256 ..     245     257 .. 0.81

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.72
                   TPR_11  26 dnaeayynLG 35 
                              + a +yy LG
  PHY93_07625|PHY93_07625 108 TKALFYYDLG 117
                              5688999999 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 3.5
                   TPR_11  32 ynLGlayy 39 
                              +nLGl+++
  PHY93_07625|PHY93_07625 138 NNLGLIHL 145
                              79**9986 PP

  == domain 3  score: 1.6 bits;  conditional E-value: 0.17
                   TPR_11   9 kyeeAieaYkkAlkldPdnaeayynLGlay 38 
                              +y+eA  ++++  +l P++ +  +n+++++
  PHY93_07625|PHY93_07625 149 RYNEAFDSFSRSKNLLPNFFTPQFNIAQLF 178
                              79999999999999***********99876 PP

  == domain 4  score: 13.5 bits;  conditional E-value: 3.1e-05
                   TPR_11   4 yyeqGkyeeAieaYkkAlkldPdnaeayynLGlayykq 41 
                              + e +++++A+e +kk    +Pd+ +++y L l+y+++
  PHY93_07625|PHY93_07625 178 FIEFNENDKALEILKKLEVKNPDDIDLLYSLSLIYFRK 215
                              666689*****************************986 PP

  == domain 5  score: -3.0 bits;  conditional E-value: 4.4
                   TPR_11   4 yyeqGkyeeAi 14 
                              +++++++ eA 
  PHY93_07625|PHY93_07625 246 LMKKNRLAEAR 256
                              57899999996 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.0   0.0       1.6   2.2e+03       4      32 ..      94     122 ..      91     134 .. 0.81
   2 !   10.1   0.0   0.00087       1.2       8      39 ..     175     206 ..     171     211 .. 0.88
   3 ?    2.0   0.0      0.35   4.9e+02       3      41 ..     204     242 ..     202     246 .. 0.78
   4 ?    0.0   0.0       1.5   2.1e+03       7      27 ..     242     262 ..     236     266 .. 0.82

  Alignments for each domain:
  == domain 1  score: -0.0 bits;  conditional E-value: 1.6
                   TPR_14   4 llalaeallalGdpdeAiallrralalaP 32 
                              + al+  +  + d+ +A+ +++  +++ P
  PHY93_07625|PHY93_07625  94 WNALGTCYSLSKDYTKALFYYDLGVEALP 122
                              66788888899999999999998877766 PP

  == domain 2  score: 10.1 bits;  conditional E-value: 0.00087
                   TPR_14   8 aeallalGdpdeAiallrralalaPddaeawl 39 
                              a+++ +  + d+A+++l+++  ++Pdd ++++
  PHY93_07625|PHY93_07625 175 AQLFIEFNENDKALEILKKLEVKNPDDIDLLY 206
                              88999999*******************98876 PP

  == domain 3  score: 2.0 bits;  conditional E-value: 0.35
                   TPR_14   3 allalaeallalGdpdeAiallrralalaPddaeawlll 41 
                              +l+ l  ++++  d+d++ a  +r+ a + + +++  l+
  PHY93_07625|PHY93_07625 204 LLYSLSLIYFRKNDLDKSFATIKRVKANYLNRPDIVGLY 242
                              78899999***********99999866666666555555 PP

  == domain 4  score: 0.0 bits;  conditional E-value: 1.5
                   TPR_14   7 laeallalGdpdeAiallrra 27 
                              +a  l+   +++eA+++ +++
  PHY93_07625|PHY93_07625 242 YAYNLMKKNRLAEAREIIEKR 262
                              67778889999****999886 PP

>> TPR_10  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.1   0.00018      0.24       2      22 ..     134     154 ..     134     157 .. 0.92
   2 ?   -1.1   0.0       1.4     2e+03      12      27 ..     178     193 ..     173     198 .. 0.68
   3 ?   -2.5   0.0       3.9   5.3e+03       7      21 ..     207     221 ..     205     224 .. 0.81
   4 ?    1.2   0.1      0.26   3.6e+02      12      27 ..     246     261 ..     242     261 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00018
                   TPR_10   2 AsslnNLanalrqrgrydeAe 22 
                              A+  nNL+ ++ + +ry+eA 
  PHY93_07625|PHY93_07625 134 ATLANNLGLIHLNFKRYNEAF 154
                              7889****************6 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 1.4
                   TPR_10  12 lrqrgrydeAeallee 27 
                                + ++ d+A+++l++
  PHY93_07625|PHY93_07625 178 FIEFNENDKALEILKK 193
                              5566777888887764 PP

  == domain 3  score: -2.5 bits;  conditional E-value: 3.9
                   TPR_10   7 NLanalrqrgrydeA 21 
                               L+ ++++ +++d++
  PHY93_07625|PHY93_07625 207 SLSLIYFRKNDLDKS 221
                              689999999999876 PP

  == domain 4  score: 1.2 bits;  conditional E-value: 0.26
                   TPR_10  12 lrqrgrydeAeallee 27 
                              l + +r++eA+++ e+
  PHY93_07625|PHY93_07625 246 LMKKNRLAEAREIIEK 261
                              67789*******9875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (289 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       602  (0.0335769); expected 358.6 (0.02)
Passed bias filter:                      330  (0.0184059); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                        13  (0.000725082); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              13  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.42
# Mc/sec: 2060.51
//
Query:       PHY93_07630|PHY93_07630  [L=201]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    1.9e-33  114.9   0.8    2.5e-33  114.6   0.7    1.4  1  MotA_ExbB  MotA/TolQ/ExbB proton channel family
     0.0081   15.5   1.7      0.014   14.7   1.4    1.5  1  ThrE       Putative threonine/serine exporter
  ------ inclusion threshold ------
      0.087   13.1   0.1       0.18   12.1   0.1    1.6  1  RICTOR_V   Rapamycin-insensitive companion of mTOR, domain 5


Domain annotation for each model (and alignments):
>> MotA_ExbB  MotA/TolQ/ExbB proton channel family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  114.6   0.7   4.1e-37   2.5e-33      19     126 ..      81     188 ..      45     189 .. 0.90

  Alignments for each domain:
  == domain 1  score: 114.6 bits;  conditional E-value: 4.1e-37
                              -HHHHHHHHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSSGGCTHHHHHHHHHHHHHHHHHH CS
                MotA_ExbB  19 vdgaepeelrraleealsreeerlekglsilatigslaPllGLlGTVlGlieafqaladagsadlakvapgiaeALiaTalGlvvA 104
                              ++   ++e ++ l + ls++++ l+k+l il tigs aP++GL+GTV+G++ af+a++++g+a +a+va+ i+eALiaTa G++vA
  PHY93_07630|PHY93_07630  81 DEALGKDEYEQRLARRLSETNADLKKNLWILGTIGSSAPFVGLFGTVWGIMGAFKAIGSSGKAGFAVVAGTISEALIATAGGIIVA 166
                              455678999999************************************************************************** PP

                              HHHHHHHHHHHHHHHHHHHHHX CS
                MotA_ExbB 105 ipavlaynklkrkverlvlele 126
                              ++av++yn+l++k++ + +e++
  PHY93_07630|PHY93_07630 167 VFAVILYNYLQTKISGIAREFK 188
                              **************99988875 PP

>> ThrE  Putative threonine/serine exporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.7   1.4   2.4e-06     0.014      84     178 ..      81     175 ..      49     188 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.7 bits;  conditional E-value: 2.4e-06
                     ThrE  84 ageisleeaeerLd.eIerskpryprwlvvlaaglaaaafallfggdwidflvaflagllggllrlllakrglnsfvleavaafla 168
                              ++ ++ +e+e+rL+ ++++   + ++ l +l+ + ++a f+ lfg  w  + +  ++g  g +   ++a  ++ + ++ +++++++
  PHY93_07630|PHY93_07630  81 DEALGKDEYEQRLArRLSETNADLKKNLWILGTIGSSAPFVGLFGTVWGIMGAFKAIGSSGKAGFAVVAG-TISEALIATAGGIIV 165
                              4567788999999625778889999**************************************9999966.5777888899999** PP

                     ThrE 169 sllallavsl 178
                              +++a++++ +
  PHY93_07630|PHY93_07630 166 AVFAVILYNY 175
                              ****999986 PP

>> RICTOR_V  Rapamycin-insensitive companion of mTOR, domain 5
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.1     3e-05      0.18       2      18 ..     103     119 ..     102     138 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 3e-05
                 RICTOR_V   2 klKaaLWaiGhigssel 18 
                              +lK +LW++G igss  
  PHY93_07630|PHY93_07630 103 DLKKNLWILGTIGSSAP 119
                              79************975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (201 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1137  (0.0634168); expected 358.6 (0.02)
Passed bias filter:                      633  (0.0353059); expected 358.6 (0.02)
Passed Vit filter:                        58  (0.00323498); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.50u 0.21s 00:00:00.71 Elapsed: 00:00:00.39
# Mc/sec: 1539.17
//
Query:       PHY93_07635|PHY93_07635  [L=140]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.2e-26   92.5   0.6    2.4e-26   92.4   0.6    1.0  1  ExbD      Biopolymer transport protein ExbD/TolR
  ------ inclusion threshold ------
      0.012   15.8   1.3      0.021   15.0   1.3    1.6  1  DUF2149   Uncharacterized conserved protein (DUF2149)


Domain annotation for each model (and alignments):
>> ExbD  Biopolymer transport protein ExbD/TolR
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   92.4   0.6   2.7e-30   2.4e-26       6     128 ..      17     137 ..      12     139 .. 0.97

  Alignments for each domain:
  == domain 1  score: 92.4 bits;  conditional E-value: 2.7e-30
                     ExbD   6 aeinltpmiDvvflLLifFlvtaklkkpeplevdlPsssstqkeveekelirisisadgsiyldkkavsveelaqklkerkakppd 91 
                              +ein+tp+iD++++LL++F+v+++++ ++ ++++lP+   t  +++e e + is+s+dg +++ +k+v+ +e+  ++    a+ ++
  PHY93_07635|PHY93_07635  17 SEINMTPLIDIMLVLLVVFMVSSSVALESGMDIELPKTALTN-QKKEAEILVISLSKDGHVAVHGKQVLPSEISRRIASSLAELKT 101
                              79***************************************9.5****************************************** PP

                     ExbD  92 kltvaikadkdvsygklvevldtlkkagiekvslvtt 128
                              +  v++++d +++ gk +e +d +k ag +++s++ +
  PHY93_07635|PHY93_07635 102 D-SVILEGDTSANLGKAIELMDMAKVAGAKNFSIAAE 137
                              *.********************************976 PP

>> DUF2149  Uncharacterized conserved protein (DUF2149)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   1.3   2.4e-06     0.021       6      53 ..      23      69 ..      19     127 .. 0.76

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 2.4e-06
                  DUF2149  6 NLfDvalVlavallvalvsslnlqellsseedvtvvkkpgkekmeiiv 53
                              L+D++lVl v+++v+   +l+    ++   ++ ++++++++++ +i+
  PHY93_07635|PHY93_07635 23 PLIDIMLVLLVVFMVSSSVALESGMDIE-LPKTALTNQKKEAEILVIS 69
                             59*************9888875555444.3344444444444444443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (140 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       563  (0.0314016); expected 358.6 (0.02)
Passed bias filter:                      418  (0.0233142); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1045.59
//
Query:       PHY93_07640|PHY93_07640  [L=344]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.081   12.3   0.0       0.13   11.7   0.0    1.2  1  SAM_MT    Putative SAM-dependent methyltransferase


Domain annotation for each model (and alignments):
>> SAM_MT  Putative SAM-dependent methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   7.2e-06      0.13      26      85 ..      48     106 ..      36     108 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 7.2e-06
                   SAM_MT  26 elrkldekklgavlvdfvsgaaahRrkfgggrgeaiakavglkkgvlptvlDaTaGlGrD 85 
                              el++  ++kl ++++++++ + ++R+k+  + +e+iak+  +++   + v   TaG+  D
  PHY93_07640|PHY93_07640  48 ELQTPVKEKLSSIKMNYITPSESYRKKKEIT-KEQIAKVKTFAEAGAKVVTSNTAGVTGD 106
                              6778889999****************87776.788********99999********9887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (344 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       652  (0.0363657); expected 358.6 (0.02)
Passed bias filter:                      427  (0.0238162); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 2499.82
//
Query:       PHY93_07645|PHY93_07645  [L=200]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.5e-10   40.3  80.3    5.4e-10   39.7  80.3    1.3  1  HC2       Histone H1-like nucleoprotein HC2


Domain annotation for each model (and alignments):
>> HC2  Histone H1-like nucleoprotein HC2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.7  80.3     3e-14   5.4e-10      29     140 ..      90     199 ..      70     200 .] 0.58

  Alignments for each domain:
  == domain 1  score: 39.7 bits;  conditional E-value: 3e-14
                      HC2  29 aakktvvrKvaaKKtaarKtvakktvakkkvaakkaaakkaavkkavakkvvakkkvakKavAKKaaakKvvakkvvakKtvakka 114
                               +k+++ +   +KK++++K+   k+ akk +++ ka  kka+v ka+akk++ kk+v+kKa   KaaakK+  kk+v kK++ kk 
  PHY93_07645|PHY93_07645  90 EVKQAPLKEIEVKKAVVKKAPVEKAAAKKAPVK-KAVVKKAPVEKAAAKKAPVKKAVVKKAPVEKAAAKKAPVKKAVVKKAPVKK- 173
                              345555666666666666655555555555555.444466666666666666666666666666666666666666666666666. PP

                      HC2 115 aaakKpaakkavakkaaarKaaakKa 140
                              aaakK+ +kkavakka+++KaaakKa
  PHY93_07645|PHY93_07645 174 AAAKKAPVKKAVAKKAPVKKAAAKKA 199
                              66666666777777777777777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (200 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1145  (0.063863); expected 358.6 (0.02)
Passed bias filter:                      277  (0.0154498); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.25s 00:00:00.74 Elapsed: 00:00:00.41
# Mc/sec: 1477.50
//
Query:       PHY93_07650|PHY93_07650  [L=159]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
       0.09   13.1   1.6       0.24   11.7   1.1    1.9  2  Calycin_like  Calycin-like beta-barrel domain


Domain annotation for each model (and alignments):
>> Calycin_like  Calycin-like beta-barrel domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.0      0.12   2.1e+03      31      67 ..      18      56 ..      13      61 .. 0.69
   2 ?   11.7   1.1   1.4e-05      0.24      24      83 ..      69     141 ..      54     158 .. 0.57

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 0.12
                             -SSS-EEEEEE-GG.G..------EEEEEEEEE-SSSSS CS
             Calycin_like 31 nedgtvnlsLknfsfg..elplGditvdnvkvtkeggsy 67
                             ++  +v+++L++  +   + p+G++  +n k+ +e+g++
  PHY93_07650|PHY93_07650 18 SSFASVDVQLNKTGVFkdTHPFGSFGYPNAKACEEDGGV 56
                             555677888888774446778888888887777777665 PP

  == domain 2  score: 11.7 bits;  conditional E-value: 1.4e-05
                              -EEEEEE-SSS-EEEEEE-GG.G------EEEEEEEEE-SS..............SSSBEEEEEEEEE-TT--E CS
             Calycin_like  24 akvtitknedgtvnlsLknfsfgelplGditvdnvkvtkeg..............gsyttfsgsqkltlagggd 83 
                               ++ i+kn++g+++ls++     ++ l d++ +++ +++ +              + ++ f+++++l++ ++g+
  PHY93_07650|PHY93_07650  69 STIEIKKNNNGKYDLSVSSVGT-NMHLCDYEGEAIDLNAVQiiskdtvgdeanrcEIVVAFTSNDTLSVITNGK 141
                              79****************9996.555555444444444333333102222233443444444444444444443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (159 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       575  (0.0320709); expected 358.6 (0.02)
Passed bias filter:                      453  (0.0252663); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.23s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1175.86
//
Query:       PHY93_07655|PHY93_07655  [L=727]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
   4.9e-101  338.7   0.3   6.2e-101  338.4   0.3    1.1  1  Topoisom_bac  DNA topoisomerase
    2.1e-25   88.4   1.8    7.4e-25   86.7   1.8    2.1  1  Toprim_Crpt   C-terminal repeat of topoisomerase
    5.1e-13   49.1   0.0    1.8e-12   47.4   0.0    2.0  1  Toprim        Toprim domain


Domain annotation for each model (and alignments):
>> Topoisom_bac  DNA topoisomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  338.4   0.3    1e-104  6.2e-101       3     413 .]     157     590 ..     155     590 .. 0.93

  Alignments for each domain:
  == domain 1  score: 338.4 bits;  conditional E-value: 1e-104
             Topoisom_bac   3 nenlvdaaeaRrelDwliGinlsrlltkklkgkkvlsaGRVqtptLaliveRereienFvpeeyweveatlkkekkeke....... 81 
                              +++l+ a+ aR+++Dwl+G+nlsrl t+kl+  +++s+GRVqt +L+liveR ++ie+Fvp++y+e++a++k++++  +       
  PHY93_07655|PHY93_07655 157 YDRLYIAGRARQKADWLVGMNLSRLATLKLN--DLFSVGRVQTAVLGLIVERRKAIEAFVPQDYFELKANFKFNNGIVSaywfdpk 240
                              789************************9888..9*************************************999988889****98 PP

             Topoisom_bac  82 ...kkkkkkkerikdkeeaeaileklkkkeakvesvekkekkkppplpfdtttLqkeasrklglsakktlsiaqkLYekaglitYp 164
                                 k+  + ++r + +e ++ +l +l+kk+a+++ ++++ek++++  ++++t+Lq++a+ ++g+sa+ktl+iaq+LYek ++ +Yp
  PHY93_07655|PHY93_07655 241 kkaKDDIHGEKRQDRREFMDLLLRNLDKKNATISLLNETEKTQYSEGLYSLTELQRQANIRFGFSASKTLEIAQSLYEKFKCLSYP 326
                              876556666666677777777889998879*************9999*************************************** PP

             Topoisom_bac 165 RTdstrlsee..aelkailealakkygkeylefaekllkktkkksvvknkkveaHeAIrPteelpklkelsddekklYelIvrrfl 248
                              RTds+++  +  + +k ++ ++++ y +++++f++++l+  k+k++++++  ++H+ + P ++ +   ++s+ e k++ l+ +rf+
  PHY93_07655|PHY93_07655 327 RTDSKVMAVSsfDLVKGLVYKFKDLYPEHFEKFNASKLN-VKNKTIFDDARLTDHHGLVPLKDFS--GNESSPEGKIFHLVLKRFI 409
                              *******999888899*******************9999.566669***************9998..577888888********** PP

             Topoisom_bac 249 aslmkdakyeettvkleveeeefkasgktilekGfkkvykeekkeeeeeelpelkegeevkvkeveleekkTkppkryteasLika 334
                                +++++ky  t+v++++e++ fk++gk+ile Gfk ++  e +e e   lp+++ +e+    + ++e+kkTk+p+ yteasL+  
  PHY93_07655|PHY93_07655 410 SNFLENHKYLDTEVEITCEKNLFKTRGKKILEVGFKVLEGRE-NE-E--LLPAISLNESGVFRDGQVEAKKTKAPSEYTEASLLYD 491
                              ***********************************9998743.33.3..39****99998888889******************** PP

             Topoisom_bac 335 meka.................giGtpaTraeiieklvergYverkkkslvptelGkalvellekfkd...lvspelTaeleekLde 400
                              m +                  g+Gt+aTra+iie+l++r Yver++ksl+++++G +lv+ l+ +++   l+s++ Ta+le kL++
  PHY93_07655|PHY93_07655 492 MTNParlvsesdlkkifrseiGLGTQATRAQIIETLIKRCYVERSGKSLQASDKGVQLVDQLSSMPStvsLTSVSQTAKLELKLQA 577
                              ***9****************************************99****************888443669*************** PP

             Topoisom_bac 401 Iaegkadakevld 413
                              +aeg+ d +e+ld
  PHY93_07655|PHY93_07655 578 MAEGENDDSEFLD 590
                              *********9985 PP

>> Toprim_Crpt  C-terminal repeat of topoisomerase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.7   1.8   1.2e-28   7.4e-25       1      59 [.     667     725 ..     667     726 .. 0.99

  Alignments for each domain:
  == domain 1  score: 86.7 bits;  conditional E-value: 1.2e-28
              Toprim_Crpt   1 gCgfsigktiagkklseeevkeLltkgktgllkGFksKkgkkFdAyLvldkdeeveFdF 59 
                              gCgf+i+k++a+kklse++v++L+t +kt+l+kGFksK+gk+F+AyL l+++++veF+F
  PHY93_07655|PHY93_07655 667 GCGFTIWKIVAKKKLSESQVRTLMTAKKTDLIKGFKSKAGKPFEAYLLLNQEGKVEFEF 725
                              7********************************************************** PP

>> Toprim  Toprim domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.4   0.0     3e-16   1.8e-12       1      90 [.       3     127 ..       3     137 .. 0.85

  Alignments for each domain:
  == domain 1  score: 47.4 bits;  conditional E-value: 3e-16
                              EEEEESSHHHHHHHHHTHT..............STEEEEEEESSSSEEEHS..TTEEEEE.................ECTTTHHHH CS
                   Toprim   1 elvivEgpsdaktiakalg..............sgfqavtaslGhildlet..efkpvye.................eiedkkkvl 53 
                              +l++ E+ps a+  a+al                +++++t+ +Gh+l+  +  +++++++                   +++kk+l
  PHY93_07655|PHY93_07655   3 TLILTEKPSVARDFASALAkgsaaggssdgyieTDDYVITWAIGHLLTPFDpeDYDAKFKrwslatlpilptefkfkAQPKTKKQL 88 
                              599***************9*****************************99988555555566677777777777787888999*** PP

                              HHHHHHHHHHS..EEEEECSSSHHHHHHHHHHHHHHTHH CS
                   Toprim  54 kalkelakrad..eiilatDpDreGeaiawellevlkel 90 
                              +++k+l+kr d  ++i+atD+ reGe ia ++l+  +  
  PHY93_07655|PHY93_07655  89 DVIKRLLKRSDleRLIIATDAGREGELIARLILNEGRSK 127
                              *******888888********************755543 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (727 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       680  (0.0379274); expected 358.6 (0.02)
Passed bias filter:                      482  (0.0268838); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.70u 0.20s 00:00:00.89 Elapsed: 00:00:00.41
# Mc/sec: 5377.68
//
Query:       PHY93_07660|PHY93_07660  [L=215]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.8e-12   47.2   0.0    2.5e-12   46.7   0.0    1.2  1  cNMP_binding  Cyclic nucleotide-binding domain
    2.3e-12   47.3   2.2    2.4e-12   47.2   2.2    1.1  1  Popeye        Popeye protein conserved region


Domain annotation for each model (and alignments):
>> cNMP_binding  Cyclic nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   46.7   0.0   2.8e-16   2.5e-12       2      89 .]     110     192 ..     109     192 .. 0.94

  Alignments for each domain:
  == domain 1  score: 46.7 bits;  conditional E-value: 2.8e-16
                              EEE-TT-EEE-TTSB-SEEEEEEES-EEEEEEETTS.EEEEEEE-TTEEESHHHHHHTS--SSEEEESSTEEEEEEEHHHHHHHHH CS
             cNMP_binding   2 rsfkagevifrqGdpadslyivlsGevrvyrlsedgkevvlavlgpGdlfGelalltgeprtatvvAltdsellalprddflellq 87 
                              r+  a+++++ + + +d+l+++  G+v++  l ++     +a+l++G+++Ge+++lt++p +atv ++ +++ +  +++d++el++
  PHY93_07660|PHY93_07660 110 READADTILINEEQVMDNLFMIYNGRVEI--LVKNK---KIAELKDGQFIGEMSFLTNQPASATVKTVLPTKYIIWKQKDLKELVS 190
                              567899***********************..67777...799******************************************98 PP

                              H- CS
             cNMP_binding  88 qd 89 
                              ++
  PHY93_07660|PHY93_07660 191 RN 192
                              76 PP

>> Popeye  Popeye protein conserved region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.2   2.2   2.7e-16   2.4e-12       3     115 ..       5     122 ..       3     199 .. 0.82

  Alignments for each domain:
  == domain 1  score: 47.2 bits;  conditional E-value: 2.7e-16
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                   Popeye   3 hllfhlanillllaflapsgvlgllvlrsllvlGflllalwawlvvCa..ldiflWnlllvlinlaqllyllyklrpvkfekelee 86 
                              h++  la+il++ +f++ +     ++lr+l +++ +++++++++v+ +  +  + Wnl ++ +n+ ++++++y  r++k+++   e
  PHY93_07660|PHY93_07660   5 HIIGNLAFILVACSFMVKDI----FLLRFLSITASFCSIIYSTNVAATplWVPICWNLFFISLNFYHITKIIYGNRKIKLNNIELE 86 
                              89999***********9887....789999999*********998866115678******************************** PP

                              xxxxxxxxxxxxxxxxxxxxxxxxxxxx...........x RF
                   Popeye  87 lYkklFqplkvsrkeFkklvseeeakil...........e 115
                              lY+  F++l++   eF+kl++  +++++           e
  PHY93_07660|PHY93_07660  87 LYQMSFSQLNL--IEFSKLIR--MGEWReadadtilineE 122
                              *******9985..79*****9..99998666666666662 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (215 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       544  (0.0303419); expected 358.6 (0.02)
Passed bias filter:                      284  (0.0158403); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.21s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1621.41
//
Query:       PHY93_07665|PHY93_07665  [L=288]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.043   12.8   0.1      0.065   12.2   0.1    1.2  1  Peptidase_M66  Peptidase M66
      0.058   13.2   0.1       0.11   12.2   0.1    1.5  1  Peptidase_M48  Peptidase family M48
      0.098   12.7   0.3       0.21   11.6   0.3    1.5  1  Attractin      Attractin family
       0.16   11.1   0.0       0.22   10.6   0.0    1.2  1  DUF688         Protein of unknown function (DUF688)


Domain annotation for each model (and alignments):
>> Peptidase_M66  Peptidase M66
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.1   1.4e-05     0.065     125     205 ..      48     129 ..      31     148 .. 0.77

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 1.4e-05
            Peptidase_M66 125 ddkkdgygissgilniltgirsaaGesessiqiyapllt....alkanGkyanghGGlgggssGivtgdatltgefiHEqGHalG 205
                               +++   +i +++ +i   i++  G   s ++ ++   +      + n    n +GGl+       t d  +  + +HE+GH +G
  PHY93_07665|PHY93_07665  48 MTQERFLAIVKSVSDIYAPIVKKKGGILSMNNKWSDDTVnasaQRNGNTWVVNMYGGLARH---TLTTDDGFALVVCHELGHHIG 129
                              444555679****************99999999998875332112222234566*****99...68999*************998 PP

>> Peptidase_M48  Peptidase family M48
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.1   2.5e-05      0.11      32     119 ..      83     171 ..      65     241 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 2.5e-05
                              GGGT-EEEEESSS-EEEEEEHHHH-S.SB-HHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHTT-SHHHHHTT--S- CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48  32 spkrNAFalgggknkrivltdgLlkq.llseeelaaVlGHElGHikhrhsvvslivsllasillllglallisraeedaagaflda 116
                              ++++NA a  +g +  + ++ gL    l +++  a V  HElGH+  +  ++  + +     + ++g++ +++r  e++ ++++ +
  PHY93_07665|PHY93_07665  83 DDTVNASAQRNGNTWVVNMYGGLARHtLTTDDGFALVVCHELGHHIGGAPRKGSSWAANEGQADYFGAMKCLRRVLEKQDNITAVS 168
                              566799999999666999999999651556788999*********99999999888888888888888888888888877777766 PP

                              --H CS
                              xxx RF
            Peptidase_M48 117 lav 119
                              +++
  PHY93_07665|PHY93_07665 169 KMT 171
                              665 PP

>> Attractin  Attractin family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.3   4.7e-05      0.21       6      26 ..     176     196 ..     173     202 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 4.7e-05
                Attractin   6 itseCemrykdCedAssCdal 26 
                              +t +Cem yk+ ++   C+ +
  PHY93_07665|PHY93_07665 176 ATKQCEMIYKNADEVALCQRI 196
                              89*************999876 PP

>> DUF688  Protein of unknown function (DUF688)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.0   4.9e-05      0.22     119     174 ..       7      62 ..       2      98 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 4.9e-05
                   DUF688 119 daldtlSrteSFsvNcSvSGvSelegpgssatastdaesrdlmmsRFLPAAkAlal 174
                                l  lS t+S s+ c + G S++   +  + ++ d+ + ++  +RFL   k+++ 
  PHY93_07665|PHY93_07665   7 TVLTALSLTASTSFACDIAGKSGFAPENNLRISQWDKATNGMTQERFLAIVKSVSD 62 
                              567889******************999999******************99888875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (288 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       521  (0.0290591); expected 358.6 (0.02)
Passed bias filter:                      438  (0.0244297); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.41
# Mc/sec: 2114.39
//
Query:       PHY93_16445|PHY93_16445  [L=141]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.03   14.6   0.0      0.048   13.9   0.0    1.5  1  Hpt       Hpt domain
       0.15   11.7   0.0       0.28   10.9   0.0    1.3  1  Bim_N     Bim protein N-terminus


Domain annotation for each model (and alignments):
>> Hpt  Hpt domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.0   5.3e-06     0.048       1      57 [.       6      71 ..       6     117 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 5.3e-06
                             HHHHHHHHHHHHHHHHHHHHH.........SCCHHHHHHHHHHHHHHHHHHTTBHHHHHHHHHHHH CS
                      Hpt  1 ellelfleeaeelleqleqal.........dqedlqelaraaHtLKGsagmlGltelaelahelEd 57
                             el+++f++e+ + + +l+  +         d +++++  +++ ++ G+a +lG+ e+++   ++ +
  PHY93_16445|PHY93_16445  6 ELIDDFVAEVKTIHRELKIIVaaqlktpkmDKALFEKFGQLVDRIYGTATTLGFVEIGKYLLAMKN 71
                             68999********99997777777799988888************************998888887 PP

>> Bim_N  Bim protein N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.0   3.1e-05      0.28       3      15 ..      73      85 ..      72      89 .. 0.92

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 3.1e-05
                    Bim_N  3 SdlsseCdrEGGQ 15
                             S lss CdrE GQ
  PHY93_16445|PHY93_16445 73 SYLSSQCDREVGQ 85
                             78**********9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (141 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       781  (0.0435607); expected 358.6 (0.02)
Passed bias filter:                      392  (0.021864); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.47u 0.22s 00:00:00.69 Elapsed: 00:00:00.42
# Mc/sec: 1005.51
//
Query:       PHY93_07670|PHY93_07670  [L=289]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
     0.0049   16.7   0.0     0.0084   15.9   0.0    1.4  1  Peptidase_M48  Peptidase family M48


Domain annotation for each model (and alignments):
>> Peptidase_M48  Peptidase family M48
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.0   4.7e-07    0.0084      25      83 ..      76     135 ..      50     191 .. 0.70

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 4.7e-07
                              EEEEEE-GGGT-EEEEESSS-EEEEEEHHHH.-SSB-HHHHHHHHHHHHHHHHTTHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M48  25 tkvyvvnspkrNAFalgggknkrivltdgLl.kqllseeelaaVlGHElGHikhrhsvvs 83 
                                +   +++++NA+a  +g   ++ ++ gL  + l +++  + V  HE+GH+  +  ++ 
  PHY93_07670|PHY93_07670  76 EMINNWDDETVNAYANRNGDVWQVNMFGGLArHPLATDDGFMLVVCHETGHHLGGAPRYG 135
                              44555668888********888********934578999*************98877766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (289 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       440  (0.0245412); expected 358.6 (0.02)
Passed bias filter:                      397  (0.0221429); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.41
# Mc/sec: 2102.40
//
Query:       PHY93_07675|PHY93_07675  [L=258]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.8e-16   61.0   0.7    3.1e-16   60.3   0.5    1.4  1  MipA      MltA-interacting protein MipA


Domain annotation for each model (and alignments):
>> MipA  MltA-interacting protein MipA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   60.3   0.5   1.7e-20   3.1e-16      11     197 ..      60     243 ..      48     253 .. 0.77

  Alignments for each domain:
  == domain 1  score: 60.3 bits;  conditional E-value: 1.7e-20
                     MipA  11 ypgsddyelll.lPllfyegenfyldglsdg.gynlletdnfrlglslslslesgrdesda....lgdrktsleaGlfaeyrtqvg 90 
                              y+g++ + l+  +Pl+ +  +   + + + g ++nl+ + +      ++  l+ +r +++     +++r+ s  +G+ ++y+    
  PHY93_07675|PHY93_07675  60 YSGGQADVLFNhIPLVQIAWGPISIGA-Q-GlSANLVGNRE------VAGYLNINRVGDRYyatgMENRSDSWFFGAGLKYHK--- 134
                              666666444445777444333333332.2.55777777775......445566666555558889****************92... PP

                     MipA  91 llr...ladvsgahkGaea...lsasfslsgrwtlspgaglsyasskyndyyYGVsaaeaaasglpaYkagaglssvglglgasyr 170
                               l+   ++d+ g+++G +a   +   ++l++++ +  +ag++ +++ ++ yyYGV+++ea +s++++Y+++a   ++ ++    y 
  PHY93_07675|PHY93_07675 135 -LNfllARDINGRSHGVKAtihYVVLYPLGKKIFVRSSAGIECYNRSFAEYYYGVRSNEA-TSNRSEYHPKAYCLPT-ASFFPGY- 216
                              .2344566********555755445556699*****************************.7888*******88888.7777788. PP

                     MipA 171 pltenwsllasasytrlsseiadSPlv 197
                              + +e++++l+++s++ l  ++++SP +
  PHY93_07675|PHY93_07675 217 KYSEDINFLMGVSLKGLTQAVRKSPTT 243
                              489**********************66 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (258 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       351  (0.0195772); expected 358.6 (0.02)
Passed bias filter:                      304  (0.0169558); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 1937.00
//
Query:       PHY93_07680|PHY93_07680  [L=458]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.7e-05   25.0   0.0      8e-05   22.8   0.0    2.1  2  HD_5      HD domain


Domain annotation for each model (and alignments):
>> HD_5  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0      0.22   3.9e+03       8      30 ..      24      46 ..      19      53 .. 0.83
   2 !   22.8   0.0   4.4e-09     8e-05       3      49 ..     345     391 ..     343     397 .. 0.94

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 0.22
                     HD_5  8 rellqehpeaaarlLsklprlpk 30
                             +++++  ++  + +L+ ++rl+k
  PHY93_07680|PHY93_07680 24 QRAFNANVVFHRTALEGVERLKK 46
                             78899999999999****99985 PP

  == domain 2  score: 22.8 bits;  conditional E-value: 4.4e-09
                     HD_5   3 LtpeerellqehpeaaarlLsklprlpkdvaeiigqhhErldGsGyP 49 
                              L+p++++ll++h ++aa l++  prlp+    ii qhh   +G G+P
  PHY93_07680|PHY93_07680 345 LNPKDWDLLNHHANRAAVLIQGYPRLPQGLDLIIKQHHGVSNGVGFP 391
                              89*************************9999***************9 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (458 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       487  (0.0271627); expected 358.6 (0.02)
Passed bias filter:                      397  (0.0221429); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.58u 0.20s 00:00:00.78 Elapsed: 00:00:00.40
# Mc/sec: 3459.39
//
Query:       PHY93_07685|PHY93_07685  [L=148]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.5e-25   89.7   0.2    1.9e-25   89.4   0.2    1.1  1  FUR              Ferric uptake regulator family
     0.0025   17.7   0.0     0.0048   16.8   0.0    1.4  1  TBPIP            TBPIP/Hop2 winged helix domain
  ------ inclusion threshold ------
      0.046   14.1   0.0       0.06   13.7   0.0    1.3  1  Penicillinase_R  Penicillinase repressor
      0.064   13.2   0.0       0.14   12.1   0.0    1.5  1  TrmB             Sugar-specific transcriptional regulator Trm
       0.18   11.8   0.3        1.8    8.5   0.0    2.6  3  HTH_11           HTH domain


Domain annotation for each model (and alignments):
>> FUR  Ferric uptake regulator family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   89.4   0.2   5.2e-29   1.9e-25       2     119 ..      25     140 ..      24     141 .. 0.94

  Alignments for each domain:
  == domain 1  score: 89.4 bits;  conditional E-value: 5.2e-29
                              TTHCHHHHHHHHHHHHHHHSSSBEHHHHHHHHHHTTTT--HHHHHHHHHHHHHTTSEEEEEETTSEEEEEESS.SSSEEEEEETTT CS
                      FUR   2 aglklTkqRekilevlekseehlsaeevykelkeedpeislaTVYrtLklleeaglvkelefedgesryelak.kehhdhlicekC 86 
                              +gl +T +R+ il++l k++  +sae+++++l +++ +   aTVYr L+++ e +lv++  +e++ +++e+++ ++hh+h+ic+ C
  PHY93_07685|PHY93_07685  25 KGLSITGPRKMILTLLLKEHGPFSAEDIFNKLPKKSCD--QATVYRCLNQFVETQLVSTAYLEKEMAHFEFNDpQHHHHHIICKIC 108
                              7999****************************998776..8********************************9************ PP

                              --EEEE--HHHHHHHHHHHHHTT-EEEEEEEEE CS
                      FUR  87 gkviefkddeiekiqeeiaekegfklvshrlel 119
                               k+  f d+ ++ki+ +   k+g+k ++hrle+
  PHY93_07685|PHY93_07685 109 KKIDSFPDCILDKIEMTLG-KKGYKDIQHRLEF 140
                              *********8888776665.7**********97 PP

>> TBPIP  TBPIP/Hop2 winged helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.8   0.0   1.4e-06    0.0048       4      49 ..      34      80 ..      32      87 .. 0.90

  Alignments for each domain:
  == domain 1  score: 16.8 bits;  conditional E-value: 1.4e-06
                    TBPIP  4 elvleylqeqnrPfsvqdvvanlqk.klgKtavqkaLdeLvdegkii 49
                             +++l +l ++  Pfs++d+++ l k     ++v + L++ v+++++ 
  PHY93_07685|PHY93_07685 34 KMILTLLLKEHGPFSAEDIFNKLPKkSCDQATVYRCLNQFVETQLVS 80
                             689999*****************99899*************998765 PP

>> Penicillinase_R  Penicillinase repressor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   1.7e-05      0.06      12      62 ..      41      90 ..      33     139 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 1.7e-05
                             HHHHS-EEHHHHHHT--GGG---HHHHHHHHHHHHHTTS-EEEEETTEEEE CS
          Penicillinase_R 12 lwekgeatvkevveeleeekelaysTVktllrrLvkKgllsrekegrafiY 62
                             l e+g+ +++++ ++l+++ +  ++TV   l++ v+ +l+s+   ++++++
  PHY93_07685|PHY93_07685 41 LKEHGPFSAEDIFNKLPKK-SCDQATVYRCLNQFVETQLVSTAYLEKEMAH 90
                             7899***************.99******************99877776665 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   3.8e-05      0.14      15      54 ..      38      81 ..      33      93 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 3.8e-05
                             HHHH.HHCCCHHCHHCCCT...TSSCHCHHHHHHHHHHCTSEEE CS
                     TrmB 15 laLl.klgpatadeiaeel...gvprskvYevLrsLedkGlVer 54
                             + Ll ++gp +a++i ++l     ++++vY+ L++ ++  lV +
  PHY93_07685|PHY93_07685 38 TLLLkEHGPFSAEDIFNKLpkkSCDQATVYRCLNQFVETQLVST 81
                             445599***********99333479************9999975 PP

>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.0       0.2   7.2e+02      34      48 ..      17      31 ..      16      35 .. 0.79
   2 ?    8.5   0.0   0.00052       1.8       4      25 ..      35      56 ..      32      72 .. 0.84
   3 ?   -1.5   0.0      0.71   2.5e+03      44      55 .]     120     132 ..     118     132 .. 0.78

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.2
                   HTH_11 34 rdIkaLeelgvpIes 48
                             r I+ L+++g+ I++
  PHY93_07685|PHY93_07685 17 RSIELLKDKGLSITG 31
                             678999999988876 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.00052
                   HTH_11  4 qilelLleargpisgeeLAeeL 25
                              il+lLl+++gp+s+e++  +L
  PHY93_07685|PHY93_07685 35 MILTLLLKEHGPFSAEDIFNKL 56
                             59***************98777 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 0.71
                   HTH_11  44 vpIesepgr.GYr 55 
                              ++Ie + g+ GY+
  PHY93_07685|PHY93_07685 120 DKIEMTLGKkGYK 132
                              6788888888996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (148 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       711  (0.0396564); expected 358.6 (0.02)
Passed bias filter:                      434  (0.0242066); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.46u 0.22s 00:00:00.68 Elapsed: 00:00:00.40
# Mc/sec: 1104.63
//
Query:       PHY93_07690|PHY93_07690  [L=137]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      1e-26   93.6   0.0    1.2e-26   93.4   0.0    1.1  1  DUF3299   Protein of unknown function (DUF3299)


Domain annotation for each model (and alignments):
>> DUF3299  Protein of unknown function (DUF3299)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   93.4   0.0   6.4e-31   1.2e-26      42     137 ..      43     135 ..      13     136 .. 0.84

  Alignments for each domain:
  == domain 1  score: 93.4 bits;  conditional E-value: 6.4e-31
                              --GGGTTEEEEEEEEEEEEEE-TTSEEEEEEEESSTTTTTSS----GGG-EEEEEEEEEESTTTTS-EEEEEEEE---EE-SS-EE CS
                  DUF3299  42 vveeldgkkvrlpGyvvpleveeeekvteFlLvPyfGACiHvPPPppNQiiyvklekgvkleelldavwveGtlkveeasselgea 127
                                +++ gk++ + G+++pl+++++ +v eFl+ Py+ AC+HvPPPppNQ++ vk++kg++++  + ++ ++G+l+ve++++   e+
  PHY93_07690|PHY93_07690  43 ELKKILGKEITIKGFMMPLDYDAK-TVVEFLFMPYVPACMHVPPPPPNQLVLVKMKKGTTVQPSFYPIELTGKLTVEANKD--LES 125
                              3467889*************6665.588***********************************************997654..478 PP

                              SEEEEEEEEE CS
                  DUF3299 128 aYsleaekie 137
                              +Y+++  ki+
  PHY93_07690|PHY93_07690 126 SYKMDGLKIK 135
                              9999988876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (137 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       344  (0.0191868); expected 358.6 (0.02)
Passed bias filter:                      306  (0.0170673); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.38
# Mc/sec: 1087.50
//
Query:       PHY93_07695|PHY93_07695  [L=226]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.6e-29  101.7   0.0    5.9e-29  101.3   0.0    1.1  1  ABC_tran      ABC transporter
    5.7e-07   29.6   0.6      0.011   15.6   0.1    2.2  2  AAA_21        AAA domain, putative AbiEii toxin, Type IV TA s
    6.4e-05   22.9   0.1    0.00012   22.0   0.1    1.4  1  RsgA_GTPase   RsgA GTPase
     0.0022   18.4   0.1      0.021   15.3   0.0    2.5  2  AAA           ATPase family associated with various cellular 
     0.0051   16.5   0.0     0.0094   15.7   0.0    1.4  1  AAA_29        P-loop containing region of AAA domain
     0.0053   17.0   0.6       0.07   13.4   0.3    2.3  1  AAA_22        AAA domain
     0.0066   16.9   0.1      0.009   16.4   0.1    1.6  1  AAA_16        AAA ATPase domain
     0.0076   16.0   0.0          1    9.1   0.0    2.2  2  IstB_IS21     IstB-like ATP binding protein
     0.0093   16.3   0.0      0.021   15.2   0.0    1.6  1  RNA_helicase  RNA helicase
  ------ inclusion threshold ------
       0.02   14.7   0.1      0.072   12.8   0.0    1.9  2  AAA_24        AAA domain
      0.026   14.2   0.1       0.25   11.0   0.0    1.9  2  AAA_30        AAA domain
      0.031   14.4   0.1        0.1   12.7   0.0    1.8  2  MMR_HSR1      50S ribosome-binding GTPase
      0.034   14.3   0.0      0.081   13.1   0.0    1.6  1  AAA_33        AAA domain
      0.035   14.3   0.1       0.63   10.3   0.0    2.2  2  AAA_28        AAA domain
       0.04   13.9   0.1       0.11   12.5   0.0    1.7  2  AAA_5         AAA domain (dynein-related subfamily)
      0.042   13.8   0.0      0.073   13.0   0.0    1.4  1  ATPase_2      ATPase domain predominantly from Archaea
      0.059   13.3   0.1       0.19   11.6   0.0    1.9  2  Rad17         Rad17 P-loop domain
      0.066   11.9   0.0        3.1    6.3   0.0    2.0  2  AAA_13        AAA domain
       0.07   12.9   0.0       0.12   12.2   0.0    1.3  1  RuvB_N        Holliday junction DNA helicase RuvB P-loop doma
      0.078   12.9   0.0       0.14   12.0   0.0    1.4  1  NTPase_1      NTPase
       0.11   13.0   0.3       0.18   12.3   0.3    1.7  1  AAA_23        AAA domain
       0.11   12.4   0.0        0.2   11.6   0.0    1.3  1  Pesticin      Bacterial toxin homologue of phage lysozyme, C-
       0.15   11.2   0.0       0.36    9.9   0.0    1.5  2  PIF1          PIF1-like helicase
       0.16   12.3   0.3        6.6    7.1   0.1    2.5  2  TFIIE_beta    TFIIE beta subunit core domain


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  101.3   0.0   7.8e-32   5.9e-29       5     137 .]      31     178 ..      27     178 .. 0.94

  Alignments for each domain:
  == domain 1  score: 101.3 bits;  conditional E-value: 7.8e-32
                              EEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGG....B-HHHCCHCEEEE-SS--S-TTSBHHHH....... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxx....... RF
                 ABC_tran   5 slklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlke....qeleslrkeigvlpqepqlfpeltvren....... 79 
                              +l++  gekv + G++G GKStLl++lag l+ ++G++++ g++l++     + +   +++g+++q  +l p l++ren       
  PHY93_07695|PHY93_07695  31 ELEILSGEKVFLYGPSGHGKSTLLNILAGVLEVKSGHVEVLGTNLHDisqgARDHLRGENVGYIFQIFNLIPYLNIRENivlpcli 116
                              578899***************************************999986667777789*************************9 PP

                              ........HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTTT CS
                              ........xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ........esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpta 137
                                      +  +++++++++lgl++ ++++v    + LS Gq+qrva aral+ +pkl+++DEpt+
  PHY93_07695|PHY93_07695 117 nkkrsfgvDFYAQADELIETLGLTNHAEKKV----TDLSIGQQQRVAAARALIGNPKLIIADEPTS 178
                              9888888888888************999999....*****************************96 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.3   0.1   0.00015      0.11       3      26 ..      41      69 ..      40     105 .. 0.75
   2 !   15.6   0.1   1.4e-05     0.011     235     301 ..     148     212 ..     130     213 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00015
                   AAA_21  3 vliGpNgsGKSnLLdaldllarl.....d 26
                             +l+Gp g GKS+LL +l ++  +      
  PHY93_07695|PHY93_07695 41 FLYGPSGHGKSTLLNILAGVLEVksghvE 69
                             79***************999877644442 PP

  == domain 2  score: 15.6 bits;  conditional E-value: 1.4e-05
                   AAA_21 235 relSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsr.ngaQviltTHSpll 301
                              ++lS G+++  a + al+  +   +l++ DEp ++L+ + ++++++ll ++ + ++  +++++H+++l
  PHY93_07695|PHY93_07695 148 TDLSIGQQQRVAAARALIGNP---KLIIADEPTSSLDEQNTTEFMTLLLNEWEkRRFTLVFVSHDTSL 212
                              577888888877777777766...99**********************777777***********876 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.0   0.1   1.6e-07   0.00012      95     130 ..      33      68 ..      25      74 .. 0.87

  Alignments for each domain:
  == domain 1  score: 22.0 bits;  conditional E-value: 1.6e-07
                              HHCTTSEEEEECSTTSSHHHHHHHHCTT-----S-- CS
              RsgA_GTPase  95 ellkdktsvlvGqSGvGKStLinallpelelktgev 130
                              e l+++ ++l G+SG GKStL+n l++ le+k g+v
  PHY93_07695|PHY93_07695  33 EILSGEKVFLYGPSGHGKSTLLNILAGVLEVKSGHV 68 
                              468889999******************999888877 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.0       2.6     2e+03      58      72 ..      23      37 ..      10      39 .. 0.76
   2 !   15.3   0.0   2.8e-05     0.021       1      38 [.      40      86 ..      40     215 .. 0.76

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 2.6
                             TSEEEEEETGGGHHH CS
                      AAA 58 kpsilfiDEidalak 72
                             +p +l iDE++ l +
  PHY93_07695|PHY93_07695 23 APLVLNIDELEILSG 37
                             5899*****998865 PP

  == domain 2  score: 15.3 bits;  conditional E-value: 2.8e-05
                             EEEESSTTSSHHHHHHHHHHHH.....THEEEEEETTTCSSS....S CS
                      AAA  1 vllyGppGtGKTllakavakel.....gvefleisgsellsk....y 38
                             v lyGp G GK++l + +a  l     +ve+l ++++++ +     +
  PHY93_07695|PHY93_07695 40 VFLYGPSGHGKSTLLNILAGVLevksgHVEVLGTNLHDISQGardhL 86
                             679*****************994433225555555555542244443 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   1.3e-05    0.0094      22      42 ..      36      57 ..      28      67 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 1.3e-05
                   AAA_29 22 kg.atlltGpsGsGKSTllDAi 42
                             +g  ++l GpsG GKSTll  +
  PHY93_07695|PHY93_07695 36 SGeKVFLYGPSGHGKSTLLNIL 57
                             344899************9655 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.4   0.3   9.4e-05      0.07       9     133 ..      41     212 ..      35     216 .. 0.71

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 9.4e-05
                   AAA_22   9 vvtGesGtGKTtllrrlleqldeeakaee.....................................erpevv..fvtlpsst..ss 53 
                              +++G+sG GK+tll+ l+  l+  + + e                                     ++  v+  +++ + s   + 
  PHY93_07695|PHY93_07695  41 FLYGPSGHGKSTLLNILAGVLEVKSGHVEvlgtnlhdisqgardhlrgenvgyifqifnlipylniRENIVLpcLINKKRSFgvDF 126
                              799**************999988877777999999999999999999999999999998888888777777765555555554555 PP

                   AAA_22  54 kdllrellralglelkaerlsseell.ealeqalrarav...ielliiDEaqh.lrseealeeLrsllnl.srkgvqliLvGtp.e 132
                                 + el + lgl ++a +++  +l   + ++ + ara    ++l+i DE    l++++  e+   lln  ++  ++l++v +  +
  PHY93_07695|PHY93_07695 127 YAQADELIETLGLTNHA-EKKVTDLSiGQQQRVAAARALignPKLIIADEPTSsLDEQNTTEFMTLLLNEwEKRRFTLVFVSHDtS 211
                              55556666666766666.66666666666666666666699999999999888886333333333345555588888888766555 PP

                   AAA_22 133 l 133
                              l
  PHY93_07695|PHY93_07695 212 L 212
                              5 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.1   1.2e-05     0.009      25      62 ..      38      76 ..      28     195 .. 0.83

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 1.2e-05
                   AAA_16 25 elvllsGesGvGKsslvrellralekdggif.lrgkcdq 62
                             e v+l+G+sG GKs+l++ l+  le + g++ + g++ +
  PHY93_07695|PHY93_07695 38 EKVFLYGPSGHGKSTLLNILAGVLEVKSGHVeVLGTNLH 76
                             569**************9999877777666664444443 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.1   0.0    0.0013         1      46      76 ..      36      67 ..       8      96 .. 0.71
   2 ?    5.1   0.0     0.023        17      95     143 ..     154     201 ..     127     217 .. 0.79

  Alignments for each domain:
  == domain 1  score: 9.1 bits;  conditional E-value: 0.0013
                IstB_IS21 46 kkenivllGpsGvGKshlaial.gveavragl 76
                             + e + l GpsG GKs l   l gv  v++g+
  PHY93_07695|PHY93_07695 36 SGEKVFLYGPSGHGKSTLLNILaGVLEVKSGH 67
                             568999*********98755442566666654 PP

  == domain 2  score: 5.1 bits;  conditional E-value: 0.023
                IstB_IS21  95 rdgklaralkrllkvdllilDdlgllpldqaeaellfeviekryerrsi 143
                              +++++a a + + +++l+i D+  +  ld++++++++ ++ + +e+r  
  PHY93_07695|PHY93_07695 154 QQQRVAAARALIGNPKLIIADEP-TSSLDEQNTTEFMTLLLNEWEKRRF 201
                              45566666677788898888886.6789999999999999999998754 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0   2.7e-05     0.021       1      24 [.      40      63 ..      40      96 .. 0.85

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 2.7e-05
             RNA_helicase  1 iwlyGpsgeGKStlakeLakallk 24
                             ++lyGpsg GKStl + La  l+ 
  PHY93_07695|PHY93_07695 40 VFLYGPSGHGKSTLLNILAGVLEV 63
                             689**************9877764 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   9.6e-05     0.072       3      22 ..      38      57 ..      36      83 .. 0.85
   2 ?   -1.3   0.0       2.1   1.5e+03     109     133 ..     186     211 ..     182     220 .. 0.63

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 9.6e-05
                   AAA_24  3 lkiliyGpsgiGKTtlakel 22
                              k+++yGpsg GK+tl++ l
  PHY93_07695|PHY93_07695 38 EKVFLYGPSGHGKSTLLNIL 57
                             699*************9877 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 2.1
                   AAA_24 109 eefrrllkklqelrk.nvifiahekt 133
                              +ef+ ll + +e r  + +f++h + 
  PHY93_07695|PHY93_07695 186 TEFMTLLLNEWEKRRfTLVFVSHDTS 211
                              55555555544444469999999765 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   0.0   0.00033      0.25      17      52 ..      38      71 ..      32      85 .. 0.84
   2 ?    1.0   0.0      0.39   2.9e+02      59     111 ..     130     191 ..     124     210 .. 0.58

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00033
                   AAA_30 17 gdrvavltGpAGtGKttalkalreaweaaggrvigl 52
                             +   ++l Gp G GK+t+l+ l+ ++e + g+v +l
  PHY93_07695|PHY93_07695 38 E--KVFLYGPSGHGKSTLLNILAGVLEVKSGHVEVL 71
                             4..37899*******************997777776 PP

  == domain 2  score: 1.0 bits;  conditional E-value: 0.39
                   AAA_30  59 AkvLaeelgieastiakllkrlk.........grarlepgtllivDE.agmvdtkqlaallka 111
                              A++L e lg++ +  +k++  l          +ra + + +l+i DE ++ +d ++++++++ 
  PHY93_07695|PHY93_07695 130 ADELIETLGLTNHAEKKVT-DLSigqqqrvaaARALIGNPKLIIADEpTSSLDEQNTTEFMTL 191
                              5555555555333222222.2223444567766666777799999995566676666665554 PP

>> MMR_HSR1  50S ribosome-binding GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0   0.00014       0.1       1      26 [.      39      65 ..      39      89 .. 0.82
   2 ?   -1.0   0.0       2.4   1.8e+03      17      35 ..     162     181 ..     123     210 .. 0.64

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 0.00014
                             EEEEEESTTSSHHHHHHHHHTS.TEEE CS
                 MMR_HSR1  1 evaivGrpNvGKStLinaltge.kaiv 26
                             +v ++G +  GKStL+n l g  +++ 
  PHY93_07695|PHY93_07695 39 KVFLYGPSGHGKSTLLNILAGVlEVKS 65
                             58899**************98544444 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 2.4
                              HHHHTS.TEEESSSTTSSSS CS
                 MMR_HSR1  17 naltge.kaivsdkpgtTrd 35 
                              +al+g+ k i++d+p   +d
  PHY93_07695|PHY93_07695 162 RALIGNpKLIIADEPTSSLD 181
                              34444444444444444444 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   0.00011     0.081       2      90 ..      40     190 ..      40     219 .. 0.65

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 0.00011
                   AAA_33   2 vllvGlpGsGKstlaerllkklg.....avllssdt.................................................. 32 
                              v+l G++G GKstl+  l+  l      +++l ++                                                   
  PHY93_07695|PHY93_07695  40 VFLYGPSGHGKSTLLNILAGVLEvksghVEVLGTNLhdisqgardhlrgenvgyifqifnlipylnirenivlpclinkkrsfgvd 125
                              7899************9987777777789999998888888888888888888777777777777777777777665444444444 PP

                   AAA_33  33 ...lrrrlfgtdqqskt............dytrvldrlyqilnelarkalsagrn..vildatnlsrrer..arflk 90 
                                                             ++v+d  +++++++a+ ++  g++  +i+d +  s +e+   +f+ 
  PHY93_07695|PHY93_07695 126 fyaQ------------AdelietlgltnhAEKKVTDLSIGQQQRVAAARALIGNPklIIADEPTSSLDEQntTEFMT 190
                              4331............0333333333333566788888888889988888888887666688855533332233333 PP

>> AAA_28  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   0.0   0.00085      0.63       1      21 [.      39      59 ..      39      89 .. 0.79
   2 ?    2.0   0.0       0.3   2.2e+02     128     157 ..     179     207 ..     130     213 .. 0.68

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00085
                   AAA_28  1 kivitGgestGKTtlleaLaa 21
                             k+ + G+++ GK+tll+ La 
  PHY93_07695|PHY93_07695 39 KVFLYGPSGHGKSTLLNILAG 59
                             6889***************94 PP

  == domain 2  score: 2.0 bits;  conditional E-value: 0.3
                   AAA_28 128 redleereaiderlrealrelgipviivps 157
                                d+++ +++ ++l++ ++++++ ++ v s
  PHY93_07695|PHY93_07695 179 SLDEQNTTEFMTLLLNEWEKRRFTLVFV-S 207
                              3466677778888888888888888777.3 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   0.00014      0.11       2      24 ..      40      64 ..      39      77 .. 0.81
   2 ?   -2.3   0.0       5.3   3.9e+03     113     124 ..     194     211 ..     164     221 .. 0.60

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 0.00014
                             EEEE--SSSSHHHHHHHGGGGB..S CS
                    AAA_5  2 vlLvGppGtgKselaerlaaal..n 24
                             v+L Gp+G gKs+l   la +l  +
  PHY93_07695|PHY93_07695 40 VFLYGPSGHGKSTLLNILAGVLevK 64
                             99****************9999543 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 5.3
                              .......-EEEEEESS-- CS
                    AAA_5 113 r......frviatanpld 124
                              +      f++++ +++ +
  PHY93_07695|PHY93_07695 194 NewekrrFTLVFVSHDTS 211
                              033333477777777665 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   9.8e-05     0.073      22      48 ..      39      65 ..      29     112 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 9.8e-05
                 ATPase_2 22 iyfiYGpegsGKtaLlkeiienledkd 48
                              +f+YGp g GK++Ll+ ++  le k+
  PHY93_07695|PHY93_07695 39 KVFLYGPSGHGKSTLLNILAGVLEVKS 65
                             589*************99888876554 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00025      0.19      48      73 ..      40      65 ..      24      96 .. 0.74
   2 ?   -2.0   0.0       3.8   2.8e+03     130     171 ..     165     206 ..     154     211 .. 0.68

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00025
                    Rad17 48 LLisGPsGCgkstvvkvLskelgikl 73
                             + + GPsG gkst +++L+  l +k 
  PHY93_07695|PHY93_07695 40 VFLYGPSGHGKSTLLNILAGVLEVKS 65
                             5789***************9887664 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 3.8
                    Rad17 130 rtdkklilvedlPnkfyrds.dalrevirkylrssealplilv 171
                               ++ kli+ ++  +    +    +  ++++    ++  +l++v
  PHY93_07695|PHY93_07695 165 IGNPKLIIADEPTSSLDEQNtTEFMTLLLNEWEKRRF-TLVFV 206
                              5777888888766666544337788888777666554.77776 PP

>> AAA_13  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.0     0.031        23      20      39 ..      41      60 ..      37      85 .. 0.85
   2 ?    6.3   0.0    0.0041       3.1     522     576 ..     163     215 ..     156     222 .. 0.83

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.031
                   AAA_13 20 liYGwNGaGKTtLSrllrsl 39
                             ++YG  G GK+tL ++l+ +
  PHY93_07695|PHY93_07695 41 FLYGPSGHGKSTLLNILAGV 60
                             79**************9986 PP

  == domain 2  score: 6.3 bits;  conditional E-value: 0.0041
                   AAA_13 522 seigkdkivviDDPvSSLDsnslfivfsliksrllkkkkakQlfiLTHnleffke 576
                              + ig+ k ++ D P SSLD +     ++l+ ++  +k  +  +f++ H +++ k+
  PHY93_07695|PHY93_07695 163 ALIGNPKLIIADEPTSSLDEQNTTEFMTLLLNEW-EKRRFTLVFVS-HDTSLKKY 215
                              5578999**************9999999999998.89999999997.77776666 PP

>> RuvB_N  Holliday junction DNA helicase RuvB P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0   0.00016      0.12      34      60 ..      38      64 ..      27      82 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 0.00016
                   RuvB_N 34 dhvllyGpPGlGkttlakiiakelgvk 60
                             + v+lyGp G Gk+tl +i+a  l+vk
  PHY93_07695|PHY93_07695 38 EKVFLYGPSGHGKSTLLNILAGVLEVK 64
                             5799*****************988876 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.0   0.00019      0.14       1      40 [.      39      80 ..      39      88 .. 0.78

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00019
                             EEEEE--TTSSHHHHHHHHHHHH.....GGGEEEEEEEEE-- CS
                 NTPase_1  1 kvfiTGppGvGKtTlvkkvlellkss..gvkvgGfyteevre 40
                             kvf+ Gp+G GK+Tl++ ++ +l+ +   v+v G   +++ +
  PHY93_07695|PHY93_07695 39 KVFLYGPSGHGKSTLLNILAGVLEVKsgHVEVLGTNLHDISQ 80
                             699****************99987653367777776666655 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.3   0.00024      0.18      23      43 ..      41      61 ..      31     215 .. 0.92

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00024
                   AAA_23 23 lItGpNGaGKTTildAiklaL 43
                              ++Gp G GK+T+l+ +  +L
  PHY93_07695|PHY93_07695 41 FLYGPSGHGKSTLLNILAGVL 61
                             68*************987766 PP

>> Pesticin  Bacterial toxin homologue of phage lysozyme, C-term
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00027       0.2      35     112 ..     123     203 ..     121     215 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00027
                              TEE-TT--HHHHHHTT--HHHHHHTTTTTT-BCH..HHHHHHHHS-.-B--HHHHHHHHHHHHHHHHHHHHHHHHHTTSSS CS
                 Pesticin  35 GvDlGqrsvkdlkalglpaslvdkLepYlglkkq..eAkdflaknP.Lslseeeaklldkavkdkaldklakeynkanskk 112
                              GvD  ++  + +++lgl+++  +k++     ++q  +A+  l  nP L +++e  ++ld++   +++  l +e++k   + 
  PHY93_07695|PHY93_07695 123 GVDFYAQADELIETLGLTNHAEKKVTDLSIGQQQrvAAARALIGNPkLIIADEPTSSLDEQNTTEFMTLLLNEWEKRRFTL 203
                              8999999999999***********9998655444235777899999688899999*******************9975554 PP

>> PIF1  PIF1-like helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.0   0.00049      0.36      18      52 ..      33      67 ..      26      75 .. 0.81
   2 ?   -2.3   0.0       2.6     2e+03      85     110 ..     150     175 ..     137     192 .. 0.71

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00049
                             ..HCTS-EEEEESTTSSCHHHHHHHHHHCHCTCCC CS
                     PIF1 18 lnekgklfFvtGsgGtgKtflwkallkklrsegki 52
                                +g+ +F++G +G gK+ l++ l  +l+ +   
  PHY93_07695|PHY93_07695 33 EILSGEKVFLYGPSGHGKSTLLNILAGVLEVKSGH 67
                             5568999******************9998776544 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 2.6
                              HHHHHHHTSCCCHHHHHC-SEEEEEC CS
                     PIF1  85 estckikrgsklaellkktsliiwDE 110
                               s  + +r    + l+ + +lii DE
  PHY93_07695|PHY93_07695 150 LSIGQQQRVAAARALIGNPKLIIADE 175
                              44445555566677888889999998 PP

>> TFIIE_beta  TFIIE beta subunit core domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.1   0.1    0.0088       6.6      59      68 .]      12      21 ..       5      21 .. 0.88
   2 ?    2.7   0.0       0.2   1.5e+02      33      55 ..     151     175 ..     129     191 .. 0.77

  Alignments for each domain:
  == domain 1  score: 7.1 bits;  conditional E-value: 0.0088
               TFIIE_beta 59 kfsfkPlyni 68
                             kfs+kP +ni
  PHY93_07695|PHY93_07695 12 KFSYKPHHNI 21
                             9********9 PP

  == domain 2  score: 2.7 bits;  conditional E-value: 0.2
               TFIIE_beta  33 dls.dknwllleaLknnpkiey.Dp 55 
                              +++ +++ + ++aL  npk+ + D+
  PHY93_07695|PHY93_07695 151 SIGqQQRVAAARALIGNPKLIIaDE 175
                              33347778899********999754 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (226 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       415  (0.0231469); expected 358.6 (0.02)
Passed bias filter:                      400  (0.0223102); expected 358.6 (0.02)
Passed Vit filter:                        96  (0.00535445); expected 17.9 (0.001)
Passed Fwd filter:                        24  (0.00133861); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              24  [number of targets reported over threshold]
# CPU time: 0.56u 0.23s 00:00:00.79 Elapsed: 00:00:00.42
# Mc/sec: 1628.49
//
Query:       PHY93_07700|PHY93_07700  [L=415]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    1.9e-12   47.9   0.1    2.5e-11   44.3   0.0    2.1  2  MacB_PCD     MacB-like periplasmic core domain
    3.3e-11   43.5   2.6    3.3e-11   43.5   2.6    2.5  2  FtsX         FtsX-like permease family
  ------ inclusion threshold ------
        0.6   10.4   3.1        2.3    8.6   0.2    2.5  2  Sigma_reg_N  Sigma factor regulator N-terminal


Domain annotation for each model (and alignments):
>> MacB_PCD  MacB-like periplasmic core domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.3   0.0   4.2e-15   2.5e-11       1     194 [.      17     259 ..      17     260 .. 0.72
   2 ?    1.6   0.0     0.053   3.2e+02       1      22 [.     340     361 ..     340     368 .. 0.89

  Alignments for each domain:
  == domain 1  score: 44.3 bits;  conditional E-value: 4.2e-15
                 MacB_PCD   1 slltvLGiaiGvaaviaivslgeglqasvlsqisdlgnlvtvtpgk..............gsgeslsdpdvealrrevp.veavap 71 
                              s+l vL+i+++v+ + +i  + +g+++ ++ +is+ + l+ +  +               g  ++++++ +e+++ + + ve   p
  PHY93_07700|PHY93_07700  17 SMLCVLSITLSVTLFLGIERIRNGAREGFTNTISKTD-LI-IGAKGgplqlllytvfhigGAVNNIRMSTYEDIK-NNRlVEWSIP 99 
                              6899******************************776.44.3222235778888888888888888888887664.4578**99** PP

                 MacB_PCD  72 vvtvrgggsgeeevtvvgvdpdyfkvfglklaeG.rf..fteadlrggpnvvvigeelaerlf..pvGdtirl............. 139
                              ++    g++  ++ +vv++d+++f  + ++   G +   ++   + + +  vv+g+e+a++ f  +vGd i l             
  PHY93_07700|PHY93_07700 100 IS---LGDT-YKGYRVVATDENFFLHYRFR---GdKHvvLNSGVAPTETFDVVLGSEVAKK-FhlKVGDPIVLshgisseailshd 177
                              95...3322.33368********9977774...411111222222246677**********.66********************** PP

                 MacB_PCD 140 .kpftVvGvledppgsgsalg.ddavylp..........lttlqrrs..........................itvrlkdgadlea 187
                                pf +vG++ +p++ +     d+ v+++          +      +                          ++v+lk+   + +
  PHY93_07700|PHY93_07700 178 tTPFHIVGIM-APTQ-T---PiDTGVFINlygmeamhfgW------EtgvpsgdkinpdrfkkenikitqltsFMVKLKSRIAVLK 252
                              999******9.4322.2...23788****66544433331......0344445555556666666666667779999999999999 PP

                 MacB_PCD 188 aaaelek 194
                              +++e+++
  PHY93_07700|PHY93_07700 253 MRREIDQ 259
                              9998876 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.053
                 MacB_PCD   1 slltvLGiaiGvaaviaivslg 22 
                              s+l +LG + Gva++ +++ ++
  PHY93_07700|PHY93_07700 340 SFLVLLGCIMGVASLYGLLYFV 361
                              89************98887665 PP

>> FtsX  FtsX-like permease family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   1.8     0.084     5e+02      73      91 ..     287     306 ..     265     312 .. 0.56
   2 !   43.5   2.6   5.5e-15   3.3e-11       1      91 [.     315     404 ..     315     408 .. 0.94

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.084
                     FtsX  73 ivllllla.llagllsiski 91 
                              i++l+ l+ ll+g+lsi+  
  PHY93_07700|PHY93_07700 287 ILFLVSLCvLLVGVLSILIS 306
                              33333333033344444443 PP

  == domain 2  score: 43.5 bits;  conditional E-value: 5.5e-15
                     FtsX   1 kreigilralGmkkkqvlllllteillitlvalviGlglgllaaqllsdvllssvfsselkisidlitvliiivlllllallagll 86 
                              +re++ilr+lG+++++v+ lll+e+ +++l+++++G++ ++ +++++  +l+s+++   l ++   it +  ++ +++  +lagl+
  PHY93_07700|PHY93_07700 315 RREMAILRSLGASSRHVFALLLYESSFLVLLGCIMGVASLYGLLYFVRPWLESNFS-VYLEVQPLSITEWYYLAGIFVAGTLAGLI 399
                              79**************************************************9976.8999999999999999************* PP

                     FtsX  87 siski 91 
                              +++k+
  PHY93_07700|PHY93_07700 400 PAIKA 404
                              **997 PP

>> Sigma_reg_N  Sigma factor regulator N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.6   0.2   0.00038       2.3       2      27 ..       8      33 ..       7      40 .. 0.92
   2 ?    1.7   0.2     0.055   3.3e+02      17      46 ..     288     318 ..     284     325 .. 0.60

  Alignments for each domain:
  == domain 1  score: 8.6 bits;  conditional E-value: 0.00038
              Sigma_reg_N  2 kilkkakrksilrivlislivlllif 27
                             k++k++k++s+l + +i+l+v+l++ 
  PHY93_07700|PHY93_07700  8 KSIKNRKFTSMLCVLSITLSVTLFLG 33
                             79********************9875 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.055
              Sigma_reg_N  17 lislivlllifvil.vvtllylaekegnklr 46 
                              l+ +++++l++ +l +++ ly + +e ++ +
  PHY93_07700|PHY93_07700 288 LFLVSLCVLLVGVLsILISLYTSINERRREM 318
                              4445555444444448888888666655554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (415 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       808  (0.0450667); expected 358.6 (0.02)
Passed bias filter:                      531  (0.0296168); expected 358.6 (0.02)
Passed Vit filter:                        44  (0.00245412); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.57u 0.25s 00:00:00.82 Elapsed: 00:00:00.41
# Mc/sec: 3026.67
//
Query:       PHY93_07705|PHY93_07705  [L=129]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
      0.031   13.9   4.2      0.037   13.6   4.2    1.2  1  Virul_fac_BrkB  Virulence factor BrkB
      0.072   13.2   0.4      0.072   13.2   0.4    1.9  2  DHHC            DHHC palmitoyltransferase
       0.12   12.6   3.9       0.16   12.1   0.3    2.0  2  DUF3784         Domain of unknown function (DUF3784)
       0.41   11.1   3.1         11    6.6   3.1    2.1  1  DUF4231         Protein of unknown function (DUF4231)
        1.7    8.8   6.2       0.94    9.6   1.0    2.2  2  CBP_BcsF        Cellulose biosynthesis protein BcsF


Domain annotation for each model (and alignments):
>> Virul_fac_BrkB  Virulence factor BrkB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   4.2     1e-05     0.037     107     183 ..      32     100 ..      11     112 .. 0.68

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 1e-05
           Virul_fac_BrkB 107 sflrkrllsllllllllvllllslvlsvflqslllasapllglglelsellllqllrwlvallllvla.fallYrvlp 183
                              +f++++ + l  +++++++ll++l+++ +l++  ++   +l+lg+ l   + l  +++   + l++l  f++++ v+ 
  PHY93_07705|PHY93_07705  32 PFIKHKPIHLPQVIIAVIFLLIALIAPHLLERPRQY---WLWLGEKL---G-LINTKI--FFTLIYLSlFSIVHLVFI 100
                              69******************************8875...67766544...2.222222..222222221333332222 PP

>> DHHC  DHHC palmitoyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.1      0.29     1e+03      97      97 ..      44      44 ..       5      65 .. 0.57
   2 ?   13.2   0.4     2e-05     0.072      38      86 ..      70     117 ..      61     127 .. 0.86

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 0.29
                     DHHC 97 i 97
                             +
  PHY93_07705|PHY93_07705 44 V 44
                             2 PP

  == domain 2  score: 13.2 bits;  conditional E-value: 2e-05
                     DHHC  38 wlnnciGerNykyFllfllylllllilalvlllialvklveeekksefl 86 
                              wl+   G  N k+F + l+yl+l++i+ lv+++i   ++ + +kk   +
  PHY93_07705|PHY93_07705  70 WLGEKLGLINTKIF-FTLIYLSLFSIVHLVFIIIRRDRMKRLWKKYPST 117
                              99************.999************9999988888888876655 PP

>> DUF3784  Domain of unknown function (DUF3784)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.3   4.6e-05      0.16      48      88 ..      16      56 ..       3      59 .. 0.71
   2 ?    1.7   0.3     0.083     3e+02      69      88 ..      83     102 ..      69     106 .. 0.48

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 4.6e-05
                  DUF3784 48 ivllligilflllgll.saiesealliialiviiiiviyliv 88
                              +++++g  fl++g+l ++i+++ + + ++i+ +i+++++++
  PHY93_07705|PHY93_07705 16 FGFIVTG-GFLVMGALiPFIKHKPIHLPQVIIAVIFLLIALI 56
                             3466666.8888888868888888888888888888888776 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.083
                  DUF3784  69 ealliialiviiiiviyliv 88 
                               ++li+  ++ i+ ++++i+
  PHY93_07705|PHY93_07705  83 FFTLIYLSLFSIVHLVFIII 102
                              22233333344444444443 PP

>> DUF4231  Protein of unknown function (DUF4231)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.6   3.1     0.003        11      36      80 ..      44     118 ..       9     127 .. 0.58

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.003
                  DUF4231  36 s..............................sklgagvsvlkiltallsalvailaaleeffrykerWrryRsta 80 
                              +                                l     +++++ + l ++v ++ +++   r+k+ W++y st+
  PHY93_07705|PHY93_07705  44 ViiavifllialiaphllerprqywlwlgekLGLINTKIFFTLIYLSLFSIVHLVFIIIRRDRMKRLWKKYPSTY 118
                              033333334444455555577777777743311222334455555555666666777788888888888888877 PP

>> CBP_BcsF  Cellulose biosynthesis protein BcsF
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.6   1.0   0.00026      0.94      11      36 ..      44      69 ..      41      71 .. 0.91
   2 ?    1.6   0.3     0.087   3.1e+02      16      29 ..      82      95 ..      77     115 .. 0.56

  Alignments for each domain:
  == domain 1  score: 9.6 bits;  conditional E-value: 0.00026
                 CBP_BcsF 11 ilcaLiflpLgyllarllrrlsdtlr 36
                             +++a+ifl+ ++++ +ll r ++++ 
  PHY93_07705|PHY93_07705 44 VIIAVIFLLIALIAPHLLERPRQYWL 69
                             5789*******************996 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.087
                 CBP_BcsF 16 iflpLgyllarllr 29
                             if++L yl   ++ 
  PHY93_07705|PHY93_07705 82 IFFTLIYLSLFSIV 95
                             45555554433333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (129 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1038  (0.057895); expected 358.6 (0.02)
Passed bias filter:                      523  (0.0291706); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.49u 0.21s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 945.66
//
Query:       PHY93_07710|PHY93_07710  [L=588]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    5.6e-97  325.4   0.0    7.4e-97  325.0   0.0    1.2  1  Carbam_trans_N  Carbamoyltransferase N-terminus
    2.8e-69  232.1   0.0    9.5e-69  230.3   0.0    1.8  2  Carbam_trans_C  Carbamoyltransferase C-terminus
     0.0013   18.5   0.0       0.16   11.6   0.0    2.2  2  Peptidase_M22   Glycoprotease family


Domain annotation for each model (and alignments):
>> Carbam_trans_N  Carbamoyltransferase N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  325.0   0.0  1.2e-100   7.4e-97       2     338 .]       3     345 ..       2     345 .. 0.96

  Alignments for each domain:
  == domain 1  score: 325.0 bits;  conditional E-value: 1.2e-100
           Carbam_trans_N   2 ilGikltlflHDgavalvddgklvaaveeErltrikrdqklpklkaidyaleeagvelsdiDqivfdeidgeiesqlkekyveeaa 87 
                              +lG++   f+HD+++al++dg +vaa eeEr++r+k+dq +p  ++i+++l+ ag+ l ++D +vf++++   +++l e+y  +a+
  PHY93_07710|PHY93_07710   3 VLGLS--CFFHDSSAALLRDGVIVAASEEERFSRKKHDQAFPM-QSIEFCLSFAGITLDQVDAVVFYDKPLLKFDRLLETYFSRAP 85 
                              79999..8**********************************9.****************************************** PP

           Carbam_trans_N  88 erlkeliqgkslllleklylkkilekllve.kvdrkdvslyeHhlsHaaSaystSpFakkeklvlcldgdGdiaprllaveketel 172
                               +lk++ +++ ++l+ek+y kk+++  l +  +  +++ + eHhlsHaaSa++ Sp+  +e++vlc+dg+G++a+++ +++k+ +l
  PHY93_07710|PHY93_07710  86 FGLKSFLKAMPIWLKEKIYFKKLIRDSLKKiSKITPSLYFSEHHLSHAASAFYASPY--DEAAVLCIDGVGEWATTSGWIGKGSDL 169
                              **********************998877665777899********************..*************************** PP

           Carbam_trans_N 173 kikslvsfsesiGhlYaaateylGfkknsdegKlmalaayGkpk..eriveelyellkkagyrinl.....ennieiskkkvhdff 251
                              k+  +++f++s+G+ Y+a+t ylGf++ns+e+K+m+la+yGkp   + i+++l +  +++++++nl     ++++e+   k+ ++f
  PHY93_07710|PHY93_07710 170 KPLFEIHFPHSLGLFYSAFTGYLGFQVNSGEYKMMGLAPYGKPIyiDLIINNLIHFNNDGSFQLNLdyfdfTKDSEMITDKFIELF 255
                              *******************************************999************************99************** PP

           Carbam_trans_N 252 easalrlkearek....dedlaAsiqvflErlvvevlnivyeklkirnLclaGGvalNiklNsallesglFedvwvqPaanDsGsA 333
                              ++++ r++e  ++    ++dlaAs+q ++E  v+++ ++++  +++ nL++aGGvalN+++N++l esg+F+++w+qPa +DsG+A
  PHY93_07710|PHY93_07710 256 KNPR-RSNEDIAEftqfHKDLAASVQAVTEIAVLKLARQIKLLTGLDNLTMAGGVALNCVANGKLKESGIFKNIWIQPASGDSGGA 340
                              ***9.55555555455566******************************************************************* PP

           Carbam_trans_N 334 iGAAl 338
                              +GAAl
  PHY93_07710|PHY93_07710 341 LGAAL 345
                              ****7 PP

>> Carbam_trans_C  Carbamoyltransferase C-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.3   0.0      0.24   1.4e+03      89     114 ..     263     290 ..     236     312 .. 0.62
   2 !  230.3   0.0   1.6e-72   9.5e-69       2     170 .]     403     571 ..     402     571 .. 0.97

  Alignments for each domain:
  == domain 1  score: -1.3 bits;  conditional E-value: 0.24
           Carbam_trans_C  89 eeipavt..HvDgtaRvqtvkkeanpry 114
                              e+i++ t  H D +a vq v++ a  ++
  PHY93_07710|PHY93_07710 263 EDIAEFTqfHKDLAASVQAVTEIAVLKL 290
                              4444433239999999999988654444 PP

  == domain 2  score: 230.3 bits;  conditional E-value: 1.6e-72
           Carbam_trans_C   2 ellaegkvvgwfqgrmEfGpRALGnRSiladprkeemkeklnekikkResfrPfApsvleeeaeeyfe..eekespymllvakvke 85 
                              e++ +g+v+g+fqgrmEfGpRALG+RSi++dpr ++m++ +n kikkResfrPfAp++l+e +++yf   ++++spyml++++vk+
  PHY93_07710|PHY93_07710 403 EEIIKGSVIGLFQGRMEFGPRALGSRSIIGDPRFSNMQSIMNLKIKKRESFRPFAPAILKEFVSDYFYweKSTASPYMLFTTQVKN 488
                              67999**************************************************************9766667***********7 PP

           Carbam_trans_C  86 ekreeipavtHvDgtaRvqtvkkeanpryhelleafekltgvpvllNTSfNvrgepivetpedalelflkteldalvlgdllvek 170
                              +    +pa+tHvDg+aR+q+v+++ +pr+h+l+++f k++g+pv++NTSfNvrgepiv +p +a+++f++te+d+lvl+++l++k
  PHY93_07710|PHY93_07710 489 T--LPLPAITHVDGSARLQVVDENIHPRFHRLIKTFYKKSGCPVIINTSFNVRGEPIVARPLEAINCFMTTEMDVLVLENFLLKK 571
                              6..69*****************************************************************************987 PP

>> Peptidase_M22  Glycoprotease family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    4.5   0.0    0.0041        24      28      59 ..      36      68 ..      31      69 .. 0.79
   2 !   11.6   0.0   2.7e-05      0.16     195     243 ..     267     319 ..     239     328 .. 0.82

  Alignments for each domain:
  == domain 1  score: 4.5 bits;  conditional E-value: 0.0041
                             HHHHHH.HHHHHHHHHHHTSTGGGEEEEEEEEE CS
            Peptidase_M22 28 aHserl.lplieealaeaglsledldaIavtkg 59
                             +H +++ ++ ie +l+ ag++l+++da+++  +
  PHY93_07710|PHY93_07710 36 KHDQAFpMQSIEFCLSFAGITLDQVDAVVFYDK 68
                             5555543789******************98655 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 2.7e-05
                              T....HHHHHHHHHHHHHHHHHHHHHHHHHH.CTBSEEEEESGGGGXHHHHHCH CS
            Peptidase_M22 195 e....vedlaasfqeavvdhlvekteralkl.pkakelvilGGvaankrLreal 243
                              e     +dlaas+q+ v + +v k++r +kl ++ ++l ++GGva n   + +l
  PHY93_07710|PHY93_07710 267 EftqfHKDLAASVQA-VTEIAVLKLARQIKLlTGLDNLTMAGGVALNCVANGKL 319
                              1444579********.7************999*************997666555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (588 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       437  (0.0243739); expected 358.6 (0.02)
Passed bias filter:                      392  (0.021864); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.61u 0.24s 00:00:00.85 Elapsed: 00:00:00.42
# Mc/sec: 4249.55
//
Query:       PHY93_07715|PHY93_07715  [L=271]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.7e-08   34.0  18.3    2.7e-08   34.0  18.3    2.2  2  ABC2_membrane_4  ABC-2 family transporter protein
  ------ inclusion threshold ------
      0.074   13.2   3.1       0.28   11.3   0.2    2.8  2  COX6C            Cytochrome c oxidase subunit VIc
        2.3    7.6  35.0       0.45    9.9  30.2    2.0  2  ABC2_membrane    ABC-2 type transporter
        6.8    6.1  10.9          2    7.8   0.8    2.4  2  Spo7             Spo7-like protein
        7.6    6.0  42.5         40    3.7  41.8    2.1  1  ABC2_membrane_5  ABC-2 family transporter protein


Domain annotation for each model (and alignments):
>> ABC2_membrane_4  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   34.0  18.3   7.4e-12   2.7e-08       7     153 ..      18     169 ..      13     177 .. 0.79
   2 ?    0.7   3.2      0.12   4.3e+02     106     153 ..     178     224 ..     168     238 .. 0.65

  Alignments for each domain:
  == domain 1  score: 34.0 bits;  conditional E-value: 7.4e-12
          ABC2_membrane_4   7 lKlkrskivwllvlaallvpllallyfnllgktgldpaefysls...vfgftll.lllplilgiiasylifrEeqndtlknLltiP 88 
                              lK  rsk ++++++a+ l+ l+a ++ +++ +++   a +   +   +++ft++    ++i gi++  +i+  ++++ + + l  P
  PHY93_07715|PHY93_07715  18 LKELRSKTLIFIFIATTLMILFAHALLKMFISSNEGSAIMINGAnslSLMFTMInAWSVIIAGIFGISSIRSDFKDNIIYQYLAFP 103
                              67779**************999876666655555545555553211234444333678999************************* PP

          ABC2_membrane_4  89 vsrtklllaKlivllllsvllmlvtflitvl.fallsgfvgfsvklvlellkkclelgllvffavl 153
                              +srt+++++ ++ + +l++ ++l +++++++ f++  ++ +++++ ++++l + l ++l++f+ +l
  PHY93_07715|PHY93_07715 104 ISRTQYMFSRIFGTWILVFGYYLYSYILSAIlFSIATHSQALHWSHLISVLLMGLYVFLVIFISFL 169
                              *************************9877661566666667**********999999999998776 PP

  == domain 2  score: 0.7 bits;  conditional E-value: 0.12
          ABC2_membrane_4 106 svllmlvtflitvlfallsgfvgfsvklvlellkkclelgllvffavl 153
                               ++l+l+t+++++ f+  +   +++ +  +++l  + ++gl+++f++ 
  PHY93_07715|PHY93_07715 178 GAFLLLITTVAAISFSTSAI-RVLEYADYFKNLSVFKVIGLIIYFILP 224
                              45666777777766755444.457777888888888888887776544 PP

>> COX6C  Cytochrome c oxidase subunit VIc
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.2   0.1      0.11   4.1e+02       8      38 ..      19      49 ..      12      53 .. 0.69
   2 ?   11.3   0.2   7.8e-05      0.28      19      52 ..     176     209 ..     166     214 .. 0.90

  Alignments for each domain:
  == domain 1  score: 1.2 bits;  conditional E-value: 0.11
                    COX6C  8 rgllakrlkrhlvvafvlslgvaaaykfava 38
                             + l  k+l +  +   ++ l++ a++k+++ 
  PHY93_07715|PHY93_07715 19 KELRSKTLIFIFIATTLMILFAHALLKMFIS 49
                             5555566666666666667778888898875 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 7.8e-05
                    COX6C  19 lvvafvlslgvaaaykfavaepRKkayadFYknY 52 
                               ++af+l ++++aa+ f +   R  +yad++kn 
  PHY93_07715|PHY93_07715 176 KIGAFLLLITTVAAISFSTSAIRVLEYADYFKNL 209
                              589*****************************96 PP

>> ABC2_membrane  ABC-2 type transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9  30.2   0.00013      0.45       2     170 ..       8     189 ..       7     203 .. 0.69
   2 ?   -2.0   2.3      0.54   1.9e+03      68      77 ..     214     223 ..     178     264 .. 0.49

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00013
            ABC2_membrane   2 qikallkreflqrwrdpslgllwrliqplllalvfgtvfgn.lg.nsedglnr.......pgllffsvlflafsaltsvapvfere 78 
                              q++a++k ++l+ +r+++l+  + +i + l++l+   +    +  n+ +++++       +++ ++ +  + +++++++++++   
  PHY93_07715|PHY93_07715   8 QWRAMIKDTVLKELRSKTLI--FIFIATTLMILFAHALLKMfISsNEGSAIMInganslsLMFTMINAWSVIIAGIFGISSIRSDF 91 
                              99***************777..4688888888888888885333443333333689985544444445555567899999999999 PP

            ABC2_membrane  79 rgvl.erelvsplyslsayvlakvlvelpvsllqalifllivyflvgldls......rfflflllllltalaasslgllisalaps 157
                              + ++ ++ l++p+ s+  y+++++++  ++ +   l   +++ +l+++         + ++ +ll+ l++++++++++l s++a +
  PHY93_07715|PHY93_07715  92 KDNIiYQYLAFPI-SRTQYMFSRIFGTWILVFGYYLYSYILSAILFSIATHsqalhwSHLISVLLMGLYVFLVIFISFLYSMVAGK 176
                              99999********.**********88888888777777777777776666533322223555555555555555555555555555 PP

            ABC2_membrane 158 fedasqlaslvll 170
                              +  + +l++ v  
  PHY93_07715|PHY93_07715 177 IGAFLLLITTVAA 189
                              5555555555544 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 0.54
            ABC2_membrane  68 ltsvapvfer 77 
                              +++++++f+ 
  PHY93_07715|PHY93_07715 214 VIGLIIYFIL 223
                              2333333333 PP

>> Spo7  Spo7-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.8   0.8   0.00056         2      24      92 ..      18      82 ..       9      88 .. 0.82
   2 ?    2.7   3.5     0.021        74      20      86 ..      98     165 ..      91     198 .. 0.80

  Alignments for each domain:
  == domain 1  score: 7.8 bits;  conditional E-value: 0.00056
                     Spo7 24 lrarrrkytlflllLalviafflyalflapredgsgvggsvywvvevvekvlliggvvTlvLfwlsGey 92
                             l+++r+k  +f+++ ++++++f++al+    ++++g++    ++++ ++++ l+++++ +  + ++G++
  PHY93_07715|PHY93_07715 18 LKELRSKTLIFIFIATTLMILFAHALLKMFISSNEGSA----IMINGANSLSLMFTMINAWSVIIAGIF 82
                             7899*********9999999999999764445544444....899999999999999999888888876 PP

  == domain 2  score: 2.7 bits;  conditional E-value: 0.021
                     Spo7  20 qalelrarrrkytlflllLalviafflyalfl..apredgsgvggsvywvvevvekvlliggvvTlvLf 86 
                              q+l+  + r +y +f  ++ ++i++f+y l+    +    s  ++s+ + ++ + +vll+g  v lv+f
  PHY93_07715|PHY93_07715  98 QYLAFPISRTQY-MFSRIFGTWILVFGYYLYSyiLSAILFSIATHSQALHWSHLISVLLMGLYVFLVIF 165
                              666677777776.68899999*********862234444677788888888889999999888877766 PP

>> ABC2_membrane_5  ABC-2 family transporter protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.7  41.8     0.011        40      25     186 ..      53     223 ..      12     243 .. 0.69

  Alignments for each domain:
  == domain 1  score: 3.7 bits;  conditional E-value: 0.011
          ABC2_membrane_5  25 aiiiliflndsvllifsil...slvisiililttlsyDekskwnkylltLPvtrkeiVksKYlfvlililiailitlllliiavli 107
                              + +i+i + +s++l+f+++   s++i+ i  +++++ D k++  + +l +P++r ++  s+ +++ il++ + l++++l++i   i
  PHY93_07715|PHY93_07715  53 GSAIMINGANSLSLMFTMInawSVIIAGIFGISSIRSDFKDNIIYQYLAFPISRTQYMFSRIFGTWILVFGYYLYSYILSAILFSI 138
                              45567777888888888876555566666678999*********************************************997777 PP

          ABC2_membrane_5 108 kgnvtisevllsiliglvialiflaivlPlyfkfgvekgri...vliiiifgiifllvaifsl....skl.elslidlsnyillii 185
                                  +   + +s li+++++ +++ +v+ + f++++  g+i   +l+i  +++i ++++ + +     ++  ls++++  +i+++i
  PHY93_07715|PHY93_07715 139 ATHSQ--ALHWSHLISVLLMGLYVFLVIFISFLYSMVAGKIgafLLLITTVAAISFSTSAIRVleyaDYFkNLSVFKVIGLIIYFI 222
                              77765..6667777777777777777777777777777777432222222223334444444322222224444444444444444 PP

          ABC2_membrane_5 186 l 186
                              l
  PHY93_07715|PHY93_07715 223 L 223
                              4 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (271 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1093  (0.0609627); expected 358.6 (0.02)
Passed bias filter:                      250  (0.0139439); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.58u 0.25s 00:00:00.83 Elapsed: 00:00:00.42
# Mc/sec: 1915.81
//
Query:       PHY93_16450|PHY93_16450  [L=52]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (52 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       308  (0.0171789); expected 358.6 (0.02)
Passed bias filter:                      164  (0.00914719); expected 358.6 (0.02)
Passed Vit filter:                         4  (0.000223102); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.37u 0.22s 00:00:00.59 Elapsed: 00:00:00.39
# Mc/sec: 403.83
//
Query:       PHY93_07720|PHY93_07720  [L=236]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    7.4e-29  101.0   0.0    1.2e-28  100.3   0.0    1.3  1  ABC_tran     ABC transporter
    1.4e-09   38.2   1.4     0.0011   18.9   0.2    2.1  2  AAA_21       AAA domain, putative AbiEii toxin, Type IV TA sy
    0.00044   19.9   0.0     0.0012   18.6   0.0    1.7  1  AAA_29       P-loop containing region of AAA domain
    0.00072   20.1   0.6     0.0018   18.8   0.0    1.8  2  AAA_23       AAA domain
    0.00086   19.6   0.0      0.002   18.4   0.0    1.6  1  AAA_22       AAA domain
    0.00096   19.6   0.0     0.0016   18.8   0.0    1.3  1  AAA_16       AAA ATPase domain
     0.0028   17.6   0.0     0.0087   16.1   0.0    1.7  2  TsaE         Threonylcarbamoyl adenosine biosynthesis protein
     0.0033   17.3   0.0     0.0075   16.2   0.0    1.6  1  RsgA_GTPase  RsgA GTPase
     0.0038   17.7   0.0       0.01   16.3   0.0    1.7  1  AAA          ATPase family associated with various cellular a
     0.0061   16.3   0.0      0.018   14.8   0.0    1.8  1  AAA_30       AAA domain
  ------ inclusion threshold ------
       0.02   15.0   0.4       0.79    9.8   0.1    2.8  3  AAA_14       AAA domain
      0.031   13.7   0.6       0.19   11.1   0.0    2.0  2  SMC_N        RecF/RecN/SMC N terminal domain
      0.045   13.3   0.2       0.28   10.8   0.1    2.0  2  cobW         CobW/HypB/UreG, nucleotide-binding domain
      0.048   12.3   0.0       0.08   11.6   0.0    1.3  1  AAA_13       AAA domain
      0.052   13.5   0.0       0.12   12.3   0.0    1.6  2  NTPase_1     NTPase
      0.063   13.0   0.1      0.095   12.4   0.1    1.3  1  AAA_15       AAA ATPase domain
      0.065   13.3   0.5       0.12   12.5   0.1    1.5  2  DUF87        Helicase HerA, central domain
      0.067   13.2   0.0       0.17   11.8   0.0    1.7  1  AAA_5        AAA domain (dynein-related subfamily)
      0.068   13.1   0.1       0.21   11.5   0.1    1.8  2  NACHT        NACHT domain
      0.088   12.4   0.1       0.18   11.4   0.1    1.4  1  AAA_27       AAA domain
      0.092   13.1   0.1       0.28   11.5   0.1    1.9  1  AAA_19       AAA domain
       0.12   11.9   0.0       0.32   10.5   0.0    1.6  2  AAA_7        P-loop containing dynein motor region


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  100.3   0.0   1.5e-31   1.2e-28       1     136 [.      19     160 ..      19     161 .. 0.98

  Alignments for each domain:
  == domain 1  score: 100.3 bits;  conditional E-value: 1.5e-31
                              EEEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEEEETTCEGGGB-HHHCCHCEEEE-SS--S-TTSBHHHH....... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....... RF
                 ABC_tran   1 lknvslklkegekvaivGenGaGKStLlkllagllkpteGeilldgkdlkeqeleslrkeigvlpqepqlfpeltvren....... 79 
                              l++v+l++k g++ a++G+nGaGK+tL+kl+++l++ + Gei+++g ++      s+r  +g++p++ ++fp +tvr         
  PHY93_07720|PHY93_07720  19 LHDVNLEVKMGKIFALLGPNGAGKTTLVKLILNLMHADHGEIKIKGIPSYL---ASSRIGVGFIPEKFSFFPYYTVRGVleffgtm 101
                              789******************************************999887...9**********************99******* PP

                              ......HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHTSSEEEEESTT CS
                              ......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 ......esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkkpkllllDEpt 136
                                    + +++i++al+ l+++ l+++++    +sLS+Gq qr  la +l+ + ++l+lDEp+
  PHY93_07720|PHY93_07720 102 kglsglDLKSQIDNALKDLDIEVLQNRKL----QSLSKGQVQRTGLASLLVGEHDVLILDEPF 160
                              *****************************....*****************************7 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.9   0.2   1.3e-06    0.0011       1      45 [.      31      81 ..      31      95 .. 0.65
   2 !   18.7   0.1   1.5e-06    0.0013     221     298 ..     117     191 ..      94     196 .. 0.78

  Alignments for each domain:
  == domain 1  score: 18.9 bits;  conditional E-value: 1.3e-06
                   AAA_21  1 lnvliGpNgsGKSnLLdaldllarl......drdvegltdelsggggirki 45
                             + +l GpNg+GK++L +++  l  +      ++ + +   +++ g+g++  
  PHY93_07720|PHY93_07720 31 IFALLGPNGAGKTTLVKLILNLMHAdhgeikIKGIPSYLASSRIGVGFIPE 81
                             5789***************77754445554444444444444444444444 PP

  == domain 2  score: 18.7 bits;  conditional E-value: 1.5e-06
                   AAA_21 221 vvflengdgqelparelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQviltTHS 298
                              +  l+ +  q++ + +lS G+ +  +l+++l   +   ++l++DEp +gL+P  +r l +++++ ++ g  ++l +H 
  PHY93_07720|PHY93_07720 117 LKDLDIEVLQNRKLQSLSKGQVQRTGLASLLVGEH---DVLILDEPFSGLDPIGMRDLKDIIRKQRAAGKTIFLNSHI 191
                              34455566777889999***999967777777777...9*************99999999999998889999999996 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.6   0.0   1.4e-06    0.0012      13      50 ..      20      57 ..      15      62 .. 0.80

  Alignments for each domain:
  == domain 1  score: 18.6 bits;  conditional E-value: 1.4e-06
                   AAA_29 13 dghtieidlkgatlltGpsGsGKSTllDAiqalLvpak 50
                             ++  +e+++  ++ l Gp+G+GK+Tl+  i  l+ +++
  PHY93_07720|PHY93_07720 20 HDVNLEVKMGKIFALLGPNGAGKTTLVKLILNLMHADH 57
                             455677776669***************88888887765 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.0   2.2e-06    0.0018      19      39 ..      29      49 ..       5      58 .. 0.82
   2 ?   -1.2   0.2       3.1   2.5e+03     174     174 ..     132     132 ..      89     198 .. 0.59

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 2.2e-06
                   AAA_23 19 kgltlItGpNGaGKTTildAi 39
                              +++++ GpNGaGKTT++  i
  PHY93_07720|PHY93_07720 29 GKIFALLGPNGAGKTTLVKLI 49
                             479**************9766 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 3.1
                   AAA_23 174 k 174
                               
  PHY93_07720|PHY93_07720 132 S 132
                              2 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0   2.4e-06     0.002       6      99 ..      30     158 ..      25     192 .. 0.63

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 2.4e-06
                   AAA_22   6 gilvvtGesGtGKTtllrrlleqldeeakaee.....................erpevv.fvtlpsst....sskdl.lrellral 64 
                              +i ++ G+ G+GKTtl++ +l+  +++  + e                     e+ +++ ++t+ +      + k l   +l +++
  PHY93_07720|PHY93_07720  30 KIFALLGPNGAGKTTLVKLILNLMHAD--HGEikikgipsylassrigvgfipEKFSFFpYYTVRGVLeffgTMKGLsGLDLKSQI 113
                              78899**************99998543..44456899****999888888887444444433333322222233333333444444 PP

                   AAA_22  65 glelka......erlsseell.ealeqalrarav...ielliiDE 99 
                              ++ lk+      ++ +++ l   ++++   a      + +li+DE
  PHY93_07720|PHY93_07720 114 DNALKDldievlQNRKLQSLSkGQVQRTGLASLLvgeHDVLILDE 158
                              443334444344344444444444444444444488889999998 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.0     2e-06    0.0016      21     103 ..      28     122 ..      17     181 .. 0.74

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 2e-06
                   AAA_16  21 sgrpelvllsGesGvGKsslvrellralekd..................ggiflrgkcdqlesaipysalaqalareellrqllde 88 
                              +g   +  l G+ G GK++lv+ +l+ + +d                  g+ f+ +k+  +    py+++  +l++ + ++ l   
  PHY93_07720|PHY93_07720  28 MG--KIFALLGPNGAGKTTLVKLILNLMHADhgeikikgipsylassriGVGFIPEKFSFF----PYYTVRGVLEFFGTMKGLSGL 107
                              44..7899*****************999999999999999999999999899999999998....887777777666666666655 PP

                   AAA_16  89 aesaeleawreklee 103
                              + +++ + + + l+ 
  PHY93_07720|PHY93_07720 108 DLKSQIDNALKDLDI 122
                              444444444444444 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.1   0.0   1.1e-05    0.0087      17      46 ..      27      56 ..      11      69 .. 0.79
   2 ?   -2.0   0.0       4.1   3.3e+03      30      38 ..     181     189 ..     178     197 .. 0.78

  Alignments for each domain:
  == domain 1  score: 16.1 bits;  conditional E-value: 1.1e-05
                             CHTEEEEEEESTTSSHHHHHHHHHHHTT-- CS
                     TsaE 17 algdvilLeGdLGaGKTtlvrglakalgve 46
                             ++g++++L G+ GaGKTtlv+ +++ ++ +
  PHY93_07720|PHY93_07720 27 KMGKIFALLGPNGAGKTTLVKLILNLMHAD 56
                             34789******************9988664 PP

  == domain 2  score: -2.0 bits;  conditional E-value: 4.1
                              SSHHHHHHH CS
                     TsaE  30 aGKTtlvrg 38 
                              aGKT +  +
  PHY93_07720|PHY93_07720 181 AGKTIFLNS 189
                              9***99865 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.0   9.2e-06    0.0075      89     131 ..      18      61 ..       1      64 [. 0.78

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 9.2e-06
                              THHHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT-----S--- CS
              RsgA_GTPase  89 gleelkellkd.ktsvlvGqSGvGKStLinallpelelktgevs 131
                              +l++++ ++k  k+ +l+G+ G+GK+tL++ +l+ +++  ge++
  PHY93_07720|PHY93_07720  18 ALHDVNLEVKMgKIFALLGPNGAGKTTLVKLILNLMHADHGEIK 61 
                              5566666666669********************99999988886 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0   1.2e-05      0.01       3      34 ..      34      65 ..      32      82 .. 0.85

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 1.2e-05
                             EESSTTSSHHHHHHHHHHHHTHEEEEEETTTC CS
                      AAA  3 lyGppGtGKTllakavakelgvefleisgsel 34
                             l Gp G GKT+l+k + + ++++  ei+ + +
  PHY93_07720|PHY93_07720 34 LLGPNGAGKTTLVKLILNLMHADHGEIKIKGI 65
                             89*****************9988877776655 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.0   2.2e-05     0.018      19      50 ..      30      61 ..      23     188 .. 0.63

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 2.2e-05
                   AAA_30 19 rvavltGpAGtGKttalkalreaweaaggrvi 50
                             ++ +l Gp G+GKtt++k + ++++a+ g++ 
  PHY93_07720|PHY93_07720 30 KIFALLGPNGAGKTTLVKLILNLMHADHGEIK 61
                             477899**************999998854443 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.1   0.00097      0.79       3      24 ..      30      51 ..      28      65 .. 0.81
   2 ?   -1.6   0.0       3.1   2.5e+03      57      72 ..     143     158 ..     110     162 .. 0.56
   3 ?    1.3   0.0      0.41   3.3e+02      10      27 ..     178     195 ..     173     207 .. 0.78

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00097
                   AAA_14  3 kilvitGaRrvGKTtllkqlik 24
                             ki ++ G+  +GKTtl+k +++
  PHY93_07720|PHY93_07720 30 KIFALLGPNGAGKTTLVKLILN 51
                             8999************988873 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 3.1
                   AAA_14  57 lek.lkeekktylflDE 72 
                              l++ l   ++ +l+lDE
  PHY93_07720|PHY93_07720 143 LASlLV-GEHDVLILDE 158
                              222133.3778888988 PP

  == domain 3  score: 1.3 bits;  conditional E-value: 0.41
                   AAA_14  10 aRrvGKTtllkqlikell 27 
                               R +GKT +l+  i +++
  PHY93_07720|PHY93_07720 178 QRAAGKTIFLNSHILSEM 195
                              699******998886666 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   0.00024      0.19      25      49 ..      30      54 ..       1      72 [. 0.70
   2 ?    1.2   0.1      0.26   2.1e+02     136     192 ..     132     184 ..     106     203 .. 0.70

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00024
                             SEEEEEESTTSSHHHHHHHHHHHCT CS
                             xxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 25 sftaivGpNGSGKsnlldAilFvLG 49
                             ++ a++GpNG+GK+ l+  il ++ 
  PHY93_07720|PHY93_07720 30 KIFALLGPNGAGKTTLVKLILNLMH 54
                             46789***********998876665 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.26
                              CS-HHHHHHHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHHHHHCTTSEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 136 lLSgGektLvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaellkeksknaQf 192
                              +LS G+ + + la l     v  + + +lDe  + LD   ++ + +++++++     
  PHY93_07720|PHY93_07720 132 SLSKGQVQRTGLASL----LVGEHDVLILDEPFSGLDPIGMRDLKDIIRKQRAAGKT 184
                              566666666666544....46667788999999999999999999999998865443 PP

>> cobW  CobW/HypB/UreG, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.1   0.00034      0.28       4      23 ..      33      52 ..      30      62 .. 0.78
   2 ?    0.0   0.0      0.67   5.5e+02      11      34 ..     181     206 ..     179     211 .. 0.71

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00034
                             EEEESTTCCHHHHHHHHHCT CS
                     cobW  4 vltGflGsGKTtLlnhllen 23
                              l G+ G+GKTtL++ +l+ 
  PHY93_07720|PHY93_07720 33 ALLGPNGAGKTTLVKLILNL 52
                             6889**********999943 PP

  == domain 2  score: 0.0 bits;  conditional E-value: 0.67
                              CCHHHHHHHHH..CT--SS-EEEEES CS
                     cobW  11 sGKTtLlnhll..enraglklavivN 34 
                              +GKT +ln+ +  e ++  + a i+N
  PHY93_07720|PHY93_07720 181 AGKTIFLNSHIlsEMEQICDDAAILN 206
                              89**9999877665555555566655 PP

>> AAA_13  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   9.8e-05      0.08      16      40 ..      29      53 ..      16      74 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 9.8e-05
                   AAA_13 16 kriNliYGwNGaGKTtLSrllrsle 40
                             ++i  + G NGaGKTtL +l+ +l 
  PHY93_07720|PHY93_07720 29 GKIFALLGPNGAGKTTLVKLILNLM 53
                             5666678**************9984 PP

>> NTPase_1  NTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   0.00014      0.12       3      33 ..      33      65 ..      31      73 .. 0.81
   2 ?   -3.3   0.0       8.8   7.2e+03      94     103 ..     149     158 ..     133     158 .. 0.73

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00014
                             EEE--TTSSHHHHHHHHHHHH.....GGGEEEE CS
                 NTPase_1  3 fiTGppGvGKtTlvkkvlellkss..gvkvgGf 33
                             ++ Gp G GKtTlvk +l+l++ +  ++k++G+
  PHY93_07720|PHY93_07720 33 ALLGPNGAGKTTLVKLILNLMHADhgEIKIKGI 65
                             577***************999765335677776 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 8.8
                              HHH-EEEE-- CS
                 NTPase_1  94 seadviviDE 103
                               e dv+++DE
  PHY93_07720|PHY93_07720 149 GEHDVLILDE 158
                              6789999998 PP

>> AAA_15  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   0.00012     0.095      17      48 ..      24      54 ..      18     139 .. 0.74

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 0.00012
                   AAA_15 17 veidlseeltvliGkNnsGKSsilealdlFln 48
                              e+++ + +  l G+N++GK+++++++  +  
  PHY93_07720|PHY93_07720 24 LEVKMGK-IFALLGPNGAGKTTLVKLILNLMH 54
                             4666777.999***************955544 PP

>> DUF87  Helicase HerA, central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.1   0.00014      0.12      23      48 ..      29      54 ..      17      62 .. 0.80
   2 ?   -3.2   0.0         9   7.4e+03     140     168 ..     110     138 ..     101     141 .. 0.57

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 0.00014
                    DUF87 23 trHlAilgsTGsGKSntvavLleell 48
                              + +A lg  G+GK+++v+++l+ + 
  PHY93_07720|PHY93_07720 29 GKIFALLGPNGAGKTTLVKLILNLMH 54
                             6679******************9876 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 9
                    DUF87 140 depveklleelkkekeelrklknqaiarl 168
                              ++ + + l++l +e++++rkl++ ++ ++
  PHY93_07720|PHY93_07720 110 KSQIDNALKDLDIEVLQNRKLQSLSKGQV 138
                              44445555555566666666666666655 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   0.00021      0.17       3      25 ..      33      58 ..      31      83 .. 0.79

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00021
                             EEE--SSSSHHHHHHHGGGGB...S- CS
                    AAA_5  3 lLvGppGtgKselaerlaaal...nr 25
                              L+Gp G gK++l++ ++ ++     
  PHY93_07720|PHY93_07720 33 ALLGPNGAGKTTLVKLILNLMhadHG 58
                             59****************99955444 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   0.00026      0.21       3      28 ..      32      57 ..      30      64 .. 0.84
   2 ?   -1.9   0.0       3.3   2.7e+03      12      24 ..     182     195 ..     178     228 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00026
                             EEEEC-TTTCHHHHHHHHHHHHCTS- CS
                    NACHT  3 vilqGeaGsGKTtLlqklalawaegk 28
                              +l G++G GKTtL++ +  ++ +++
  PHY93_07720|PHY93_07720 32 FALLGPNGAGKTTLVKLILNLMHADH 57
                             5799************9988776655 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 3.3
                              CHHHHHH.HHHHHH CS
                    NACHT  12 GKTtLlq.klalaw 24 
                              GKT++l  ++ +++
  PHY93_07720|PHY93_07720 182 GKTIFLNsHILSEM 195
                              89999862455554 PP

>> AAA_27  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1   0.00022      0.18      11      50 ..      13      53 ..      10      58 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00022
                   AAA_27 11 yGk.ftdrsldfsaeeadlhliyGpNEAGKstalrAisdll 50
                             yG+ f+ + ++++ +  ++  ++GpN AGK+t+++ i +l+
  PHY93_07720|PHY93_07720 13 YGHdFALHDVNLEVKMGKIFALLGPNGAGKTTLVKLILNLM 53
                             7765788888888888999999************9999887 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   0.1   0.00034      0.28      10      40 ..      29      59 ..      22     187 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 0.00034
                   AAA_19 10 ekvllvtaGpGtGKTrvlkhivallvelggv 40
                              k+++++++ G GKT+++k i++l+ + +g+
  PHY93_07720|PHY93_07720 29 GKIFALLGPNGAGKTTLVKLILNLMHADHGE 59
                             578899****************999877654 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   0.00039      0.32      28      60 ..      24      56 ..      20      73 .. 0.84
   2 ?   -2.1   0.0       2.9   2.4e+03      44      59 ..     181     197 ..     178     221 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00039
                    AAA_7 28 lllknkkpvllvGptGtGKtviikdllkkldke 60
                             l +k +k + l Gp G GKt+++k +l+ ++ +
  PHY93_07720|PHY93_07720 24 LEVKMGKIFALLGPNGAGKTTLVKLILNLMHAD 56
                             5578899999**************999988755 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 2.9
                    AAA_7  44 tGKtviikd.llkkldk 59 
                               GKt+ +++ +l+++++
  PHY93_07720|PHY93_07720 181 AGKTIFLNShILSEMEQ 197
                              79999999988888873 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (236 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       473  (0.0263818); expected 358.6 (0.02)
Passed bias filter:                      453  (0.0252663); expected 358.6 (0.02)
Passed Vit filter:                        94  (0.0052429); expected 17.9 (0.001)
Passed Fwd filter:                        22  (0.00122706); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              22  [number of targets reported over threshold]
# CPU time: 0.54u 0.26s 00:00:00.80 Elapsed: 00:00:00.43
# Mc/sec: 1656.46
//
Query:       PHY93_07725|PHY93_07725  [L=158]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.3e-47  158.2   0.5    5.4e-47  157.9   0.5    1.1  1  GSHPx     Glutathione peroxidase
    7.9e-08   32.3   0.1    1.2e-07   31.7   0.1    1.3  1  AhpC-TSA  AhpC/TSA family
    0.00011   22.0   0.0    0.00016   21.4   0.0    1.5  1  Redoxin   Redoxin


Domain annotation for each model (and alignments):
>> GSHPx  Glutathione peroxidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  157.9   0.5     9e-51   5.4e-47       1     108 []       5     112 ..       5     112 .. 0.99

  Alignments for each domain:
  == domain 1  score: 157.9 bits;  conditional E-value: 9e-51
                              GGGBEEEBTTSSEEEGGGGTTSEEEEEEEESSSTTHHHHHHHHHHHHHHGGGTEEEEEEEE-TTTT---S-GGGHHHTSSHTTT-S CS
                    GSHPx   1 iyelsakdidgekvkleklrgkvvlivnvaskCglteqykeleelqkrykdkglvilgfPCnqfgkqepgsdeeikkfrqgkyevt 86 
                              iy++++k+i+ge+v+l +++gk++livnvaskCg+t+qykelee++++yk +gl il+fPCnqfg qepg+ eeik+f++ +y+v 
  PHY93_07725|PHY93_07725   5 IYDFEVKNINGESVSLAHFKGKTLLIVNVASKCGFTSQYKELEEIYREYKTQGLEILAFPCNQFGAQEPGDAEEIKNFCSLNYDVS 90 
                              7************************************************************************************* PP

                              SEEB--BBSSSTTB-HHHHHHH CS
                    GSHPx  87 fellekievnGekedplykflk 108
                              f+l++k++vnG+++ p+y+flk
  PHY93_07725|PHY93_07725  91 FPLFSKVDVNGDEAAPVYQFLK 112
                              *********************8 PP

>> AhpC-TSA  AhpC/TSA family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.7   0.1     2e-11   1.2e-07       3     105 ..       3     122 ..       1     138 [. 0.73

  Alignments for each domain:
  == domain 1  score: 31.7 bits;  conditional E-value: 2e-11
                              SB----EEESTTCEEEECHHHTTSEEEEEEESTST-CCHHHHHHHHHHCHHHCCCTTEEEEEEESSSCH........HHHHHHH.H CS
                 AhpC-TSA   3 dkapdfelknadgetvslsdykgkpvvlffypkdwcpvCttelpalaklyeefkergvevigvsvdspe........shkkfie.k 79 
                              + + dfe+kn +ge+vsl+ +kgk ++++ +++  c ++  + ++l++ y e+k +g+e+++  +++          ++k+f+   
  PHY93_07725|PHY93_07725   3 QTIYDFEVKNINGESVSLAHFKGKTLLIVNVAS-KCGFT-SQYKELEEIYREYKTQGLEILAFPCNQFGaqepgdaeEIKNFCSlN 86 
                              6678*******************9999999999.89775.89********************998876555666666777777624 PP

                              -H.SSEEEE-...TTSHHHHHTT-EETT.......T CS
                 AhpC-TSA  80 eslnfpllsD...eegkvakaygvlkee.......k 105
                              +++ fpl+s    +  ++a  y+ lke        k
  PHY93_07725|PHY93_07725  87 YDVSFPLFSKvdvNGDEAAPVYQFLKESlpgilgsK 122
                              458888887533444556666666655556555552 PP

>> Redoxin  Redoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.4   0.0   2.7e-08   0.00016       8      68 ..       7      63 ..       2     138 .. 0.80

  Alignments for each domain:
  == domain 1  score: 21.4 bits;  conditional E-value: 2.7e-08
                             --ECCEETTCEEEEEHHHHTTSEEEEEEESTTT-HHHHHTHHHHHTHHHHHHCSTTTEEEE CS
                  Redoxin  8 dftlplaatdgnsvslsefkgkkvvvnfvpgafcPtCsaehpyleklaellkekgvdvvav 68
                             df+ ++   +g+svsl+ fkgk+++++ v++  c+  s+   +le++++++k+ g +++a 
  PHY93_07725|PHY93_07725  7 DFEVKN--INGESVSLAHFKGKTLLIVNVAS-KCGFTSQYK-ELEEIYREYKTQGLEILAF 63
                             555534..789********************.****99866.*************999887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (158 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       477  (0.0266049); expected 358.6 (0.02)
Passed bias filter:                      451  (0.0251548); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1186.58
//
Query:       PHY93_07730|PHY93_07730  [L=299]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.4e-16   60.0   0.0    2.7e-16   59.1   0.0    1.5  1  DUF1731          Domain of unknown function (DUF1731)
    1.3e-11   44.5   0.0    6.2e-10   39.0   0.0    2.1  2  Epimerase        NAD dependent epimerase/dehydratase family
    2.9e-06   27.3   0.0    3.6e-06   27.0   0.0    1.2  1  NAD_binding_10   NAD(P)H-binding
    4.5e-06   26.0   0.1    4.6e-05   22.7   0.0    2.2  2  NAD_binding_4    Male sterility protein
    0.00048   19.6   0.0    0.00075   19.0   0.0    1.5  1  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
      0.001   19.0   0.6       0.34   10.8   0.0    2.2  2  KR               KR domain
     0.0035   16.9   0.0     0.0056   16.3   0.0    1.4  1  NmrA             NmrA-like family
     0.0043   16.1   0.0     0.0061   15.6   0.0    1.2  1  3Beta_HSD        3-beta hydroxysteroid dehydrogenase/isomeras
  ------ inclusion threshold ------
       0.13   12.3   0.0       0.25   11.3   0.0    1.5  1  Glyco_trans_4_2  Glycosyl transferase 4-like


Domain annotation for each model (and alignments):
>> DUF1731  Domain of unknown function (DUF1731)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.1   0.0   1.3e-19   2.7e-16       1      47 []     252     298 ..     252     298 .. 0.98

  Alignments for each domain:
  == domain 1  score: 59.1 bits;  conditional E-value: 1.3e-19
                  DUF1731   1 vPafalklllGemaellLegqrVlPkrLleaGFqFrypdleeALrdl 47 
                              vP   lkl++Gema l+L++q +++krL+e GF+F+y+++++AL+++
  PHY93_07730|PHY93_07730 252 VPTLPLKLAFGEMASLILDSQAIVSKRLQEVGFHFKYETVDSALNAI 298
                              8*******************************************976 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.0   0.0   3.1e-13   6.2e-10       3     125 ..       1     127 [.       1     143 [. 0.83
   2 ?    3.6   0.0      0.02        39     203     228 ..     191     216 ..     170     224 .. 0.85

  Alignments for each domain:
  == domain 1  score: 39.0 bits;  conditional E-value: 3.1e-13
                              EETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHCEEEE--TT-HHHHHHHHHHHT-SEEEE-.-S.---HHHHHHSHHH CS
                Epimerase   3 VtGatGfiGsalvkallekgyevigldrlssasntarledlelveldltdrsalerlfkeeqpdavihl.Aa.vggvaassedpad 86 
                              +tGatGfiG+ l+ +ll  g+e+++l+r++++ ++   +++ +   +++++ ++  l +  +++ vi+l +  +   ++s +++++
  PHY93_07730|PHY93_07730   1 ITGATGFIGKKLTVKLLGMGHEIHVLTRDKQKAKKI-FPQTAVSAFEWRNNREIPPLDAISGINGVINLmGEnITAKHWSDDQKKR 85 
                              8****************************5544433.334488899999999999888888********777999*********** PP

                              HHHHHTHHHHHHHHHHHHH...TCTEEEEEEEGGGGTSCSSS CS
                Epimerase  87 fieknlqgtlnlleaarka...gvkrllflsSsevYGkdaeq 125
                              + e+ +  t+nl++ + ++    ++ ++ +s  ++Y+ + ++
  PHY93_07730|PHY93_07730  86 LKESRVDSTQNLVKLLEQNlsnTLDFFISASAIAIYPVNIPK 127
                              ****************977554666899999999**976663 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.02
                              ETTST-EEEEEEHHHHHHHHHHHHHH CS
                Epimerase 203 lgdgtalRdflyveDvaeaillvleh 228
                              +g+g++ + ++  +D++++++ +++ 
  PHY93_07730|PHY93_07730 191 IGKGNQMMSWIELDDLVDLYVNAATD 216
                              589*****************999887 PP

>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.0   0.0   1.8e-09   3.6e-06       1     102 [.       3     121 ..       3     177 .. 0.75

  Alignments for each domain:
  == domain 1  score: 27.0 bits;  conditional E-value: 1.8e-09
                              TTTSHHHHHHHHHHHHC-T-EEEEEETTHHHCHHHHCTTTCEEEE--TT-CCHHHHHHTT-SEEEES---TCC......HHHH... CS
           NAD_binding_10   1 GAtGkvGrllvkellargghevtalvRnpeklaeleaeeglevvegdvtdvedlaealkgadaVvsalggggk......deeg... 77 
                              GAtG +G++l+ +ll   ghe+++l+R+++k++++  + +++++e   + +    +a++g++ V+  +g + +      d +    
  PHY93_07730|PHY93_07730   3 GATGFIGKKLTVKLLGM-GHEIHVLTRDKQKAKKIFPQTAVSAFEWRNNREIPPLDAISGINGVINLMGENITakhwsdD-QKkrl 86 
                              9****************.5***************9866666666666666666789************766665555541.22456 PP

                              .......HHHHHHHHHH...CT--EEEEEEETTTT CS
           NAD_binding_10  78 .......aknivdaake...agvkRfvlvsaigvg 102
                                     ++n+v+ +++   +    f+  sai ++
  PHY93_07730|PHY93_07730  87 kesrvdsTQNLVKLLEQnlsNTLDFFISASAIAIY 121
                              66777888888888887332345555666666665 PP

>> NAD_binding_4  Male sterility protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.7   0.0   2.3e-08   4.6e-05       1      39 [.       1      35 [.       1      61 [. 0.84
   2 ?    1.3   0.0     0.081   1.6e+02     103     140 ..      82     119 ..      69     243 .. 0.74

  Alignments for each domain:
  == domain 1  score: 22.7 bits;  conditional E-value: 2.3e-08
                             EE-TTSHHHHHHHHHHHHHS-.TEEEEEE-SSSHHHHHH CS
            NAD_binding_4  1 lTGaTGFLGkvLlekLLrttpevkiyllvRaksgesaee 39
                             +TGaTGF+Gk L  kLL      +i++l R k++  a++
  PHY93_07730|PHY93_07730  1 ITGATGFIGKKLTVKLLGMGH--EIHVLTRDKQK--AKK 35
                             8*****************998..8******9976..444 PP

  == domain 2  score: 1.3 bits;  conditional E-value: 0.081
                              TSSEEHHHHHHHHHHHHHHHTSSS--.-EEEEEEGGGT CS
            NAD_binding_4 103 pykellrvNveGtrevlelakklkklkvllhvSTayvn 140
                              + k+l++  v++t+++++l ++  ++ +  ++S ++++
  PHY93_07730|PHY93_07730  82 QKKRLKESRVDSTQNLVKLLEQNLSNTLDFFISASAIA 119
                              55667888888999999988876555455555554333 PP

>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.0   0.0   3.8e-07   0.00075       2      34 ..       1      33 [.       1     113 [. 0.94

  Alignments for each domain:
  == domain 1  score: 19.0 bits;  conditional E-value: 3.8e-07
                             EETTTSHHHHHHHHHHHHCT-CCEEEEEEESS- CS
            GDP_Man_Dehyd  2 iTGiaGfiGsylaelLlekgyevhgivrrsssf 34
                             iTG +GfiG  l+ +Ll  g+e+h+++r++++ 
  PHY93_07730|PHY93_07730  1 ITGATGFIGKKLTVKLLGMGHEIHVLTRDKQKA 33
                             9*************************9988764 PP

>> KR  KR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.2   0.1    0.0045         9       5      37 ..       1      32 [.       1      46 [. 0.80
   2 !   10.8   0.0   0.00017      0.34      82     138 ..      62     119 ..      56     128 .. 0.83

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.0045
                             EETTTSHHHHHHHHHHHHHHS-EEEEE-SS..- CS
                       KR  5 itGGlGgLGlelarwlaekgarhlvllsRsaaa 37
                             itG++G +G++l+  l+  g  ++ +l+R++++
  PHY93_07730|PHY93_07730  1 ITGATGFIGKKLTVKLLGMGH-EIHVLTRDKQK 32
                             8*****************996.57777787433 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 0.00017
                              --EEEE---------TTT--HHHHHHHHTTTTHHHHHHHHHTTT...S--SEEEEEEEHH CS
                       KR  82 ikGvihaAgvlrdklleemtaedleqvlapKvkGawnLhelled...esldffvlfSSia 138
                              i+Gvi+  g  ++ + ++ ++++ +++ ++ v+ ++nL +lle+   ++ldff+  S ia
  PHY93_07730|PHY93_07730  62 INGVINLMG--ENITAKHWSDDQKKRLKESRVDSTQNLVKLLEQnlsNTLDFFISASAIA 119
                              566665533..4556678899999999****************99999********9998 PP

>> NmrA  NmrA-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.3   0.0   2.8e-06    0.0056       3      36 ..       1      34 [.       1      84 [. 0.78

  Alignments for each domain:
  == domain 1  score: 16.3 bits;  conditional E-value: 2.8e-06
                             ESSTTSHHHHHHHHHHHHHT-EEEEEES-S-SHH CS
                     NmrA  3 viGaTGrqGksvvrallkaghkvralvRdtksel 36
                             ++GaTG +Gk ++  ll  gh++ +l+Rd ++ +
  PHY93_07730|PHY93_07730  1 ITGATGFIGKKLTVKLLGMGHEIHVLTRDKQKAK 34
                             78***************************86543 PP

>> 3Beta_HSD  3-beta hydroxysteroid dehydrogenase/isomerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   0.0     3e-06    0.0061       2     106 ..       1     104 [.       1     145 [. 0.69

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 3e-06
                3Beta_HSD   2 vtGgaGFlGralvkeLvrleelkevrvlDlrespelleelskvnvkkviegDvtdkdkleealegvdvvihlaslvdvagklted. 86 
                              +tG++GF+G++l  +L+ +++  e++vl  r++++ ++ + ++ v  +     ++ + l +a+ g++ vi l + +  a++ ++d 
  PHY93_07730|PHY93_07730   1 ITGATGFIGKKLTVKLLGMGH--EIHVLT-RDKQKAKKIFPQTAVSAFEWRNNREIPPL-DAISGINGVINLMGENITAKHWSDDq 82 
                              79******************5..999885.44555556677777775555555555555.58999999999998887777655541 PP

                3Beta_HSD  87 ..eimkvnvkGTrnvleacvka 106
                                ++ +  v  T+n+++   ++
  PHY93_07730|PHY93_07730  83 kkRLKESRVDSTQNLVKLLEQN 104
                              1157778899999986544443 PP

>> Glyco_trans_4_2  Glycosyl transferase 4-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00013      0.25      15      71 ..      11      70 ..       3      73 .. 0.81

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00013
          Glyco_trans_4_2 15 rlakeLakrgyeVhvitpkkga.kdeleaegihvhrlkvdrkg.pleylk.afklkklik 71
                             +l  +L   g+e+hv+t++k++ k++  +  +   +++++r++ pl  ++ ++ +++l+ 
  PHY93_07730|PHY93_07730 11 KLTVKLLGMGHEIHVLTRDKQKaKKIFPQTAVSAFEWRNNREIpPLDAISgINGVINLMG 70
                             666788899*********9888577777778899999999***99999986668877775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (299 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       531  (0.0296168); expected 358.6 (0.02)
Passed bias filter:                      463  (0.0258241); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.55u 0.24s 00:00:00.79 Elapsed: 00:00:00.42
# Mc/sec: 2139.43
//
Query:       PHY93_07735|PHY93_07735  [L=190]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.5e-06   27.4   0.0    3.5e-06   26.8   0.0    1.2  1  Abhydrolase_1  alpha/beta hydrolase fold
    1.9e-05   24.1   0.0    2.4e-05   23.7   0.0    1.1  1  Hydrolase_4    Serine aminopeptidase, S33
  ------ inclusion threshold ------
      0.034   13.5   0.0       0.23   10.8   0.0    2.0  2  DUF915         Alpha/beta hydrolase of unknown function (DUF9
      0.058   13.2   0.0       0.07   13.0   0.0    1.1  1  Palm_thioest   Palmitoyl protein thioesterase
       0.13   12.4   0.0       0.22   11.7   0.0    1.4  1  DUF2985        Protein of unknown function (DUF2985)
       0.14   10.9   0.0       0.17   10.5   0.0    1.1  1  HgmA           homogentisate 1,2-dioxygenase


Domain annotation for each model (and alignments):
>> Abhydrolase_1  alpha/beta hydrolase fold
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.8   0.0   1.2e-09   3.5e-06       2     116 ..      48     168 ..      47     178 .. 0.87

  Alignments for each domain:
  == domain 1  score: 26.8 bits;  conditional E-value: 1.2e-09
                              EEEEE-STTTCGGGGTTGHHHHHHHHTTSEEEEEEETTSTTSSSTTTGB.CHHSHHHHHHHHHHH.HHHCTTSSEEEEEETHHHHH CS
            Abhydrolase_1   2 vlvilhGlpgssdvwaerglapaLakdgfdvillDlrGvgySspapacinddygtasvaddldri.ldalgddkltlvGhSmGGmi 86 
                              +l + hG+ gs    +   la+ + k+g+ +i++  +G+g+Ss+  +      +t    ++ +++ l      ++  +G+S GG++
  PHY93_07735|PHY93_07735  48 ALFLAHGYMGSPSEMMF--LAQPFIKEGWSIIGFLIPGHGSSSKVANAFK---RTRWQSEMSEQLsLVTSTFSEVRAIGFSTGGLL 128
                              78999*****9988888..99999999*******************9855...4444789999999999***************** PP

                              HHHHHHHH..GGGEEEEEEESE........CSSCCHHHHH CS
            Abhydrolase_1  87 alayaaey..perVkalvllga........idpaasliea 116
                                 y+  +  p + k+l l+++        id++++ i  
  PHY93_07735|PHY93_07735 129 LHDYLINHstPPSLKSLHLISPyfiqklptIDWPIEKIFN 168
                              **********************999977777777765555 PP

>> Hydrolase_4  Serine aminopeptidase, S33
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.7   0.0     8e-09   2.4e-05       4     117 ..      46     158 ..      43     187 .. 0.80

  Alignments for each domain:
  == domain 1  score: 23.7 bits;  conditional E-value: 8e-09
              Hydrolase_4   4 kavvvlvHGlaehsgryaelaeaLaaqGfavyalDhrGhGrsegkrghvpsfddyvdDlaafvekvkeehpelplfllGhSmGGli 89 
                               ++++l+HG+  + + +  la+ + ++G++++++   GhG s  k +   + +++   +++ ++ v ++ +e     +G S+GGl+
  PHY93_07735|PHY93_07735  46 SKALFLAHGYMGSPSEMMFLAQPFIKEGWSIIGFLIPGHGSS-SKVANAFKRTRWQSEMSEQLSLVTSTFSEV--RAIGFSTGGLL 128
                              6789**************************************.666666666777777777777777666655..689******** PP

              Hydrolase_4  90 allyl..lrypdkvaglilsaPalkikakl 117
                                 yl  +  p++++ l l++P +  k ++
  PHY93_07735|PHY93_07735 129 LHDYLinHSTPPSLKSLHLISPYFIQKLPT 158
                              *****87777889**********9776543 PP

>> DUF915  Alpha/beta hydrolase of unknown function (DUF915)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.3   0.0      0.12   3.5e+02      14      41 ..      49      75 ..      40      81 .. 0.82
   2 ?   10.8   0.0   7.6e-05      0.23      83     128 ..      94     140 ..      86     158 .. 0.71

  Alignments for each domain:
  == domain 1  score: 0.3 bits;  conditional E-value: 0.12
                   DUF915 14 tifihGyggtaeslnemvkqlenkegkk 41
                               + hGy g+ + + ++++ +  keg++
  PHY93_07735|PHY93_07735 49 LFLAHGYMGSPSEMMFLAQPFI-KEGWS 75
                             5567***********9999996.88875 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 7.6e-05
                   DUF915  83 kkqakwlkkvlseLk.kkYnikkfnavGhSmGglaltsYleeyaddk 128
                               k + w +++ ++L   +  + ++ a+G+S Ggl l  Yl++ +   
  PHY93_07735|PHY93_07735  94 FKRTRWQSEMSEQLSlVTSTFSEVRAIGFSTGGLLLHDYLINHSTPP 140
                              55666666666666523557999*****************9876543 PP

>> Palm_thioest  Palmitoyl protein thioesterase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   2.3e-05      0.07      40      87 ..      89     136 ..      48     150 .. 0.62

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 2.3e-05
             Palm_thioest  40 a...edrkasffgnlndqveavckklelangfhaiGfSQGglflRalierc 87 
                              +   + ++  + +++ +q++ v++     +++ aiGfS Ggl+l  ++ ++
  PHY93_07735|PHY93_07735  89 KvanAFKRTRWQSEMSEQLSLVTST---FSEVRAIGFSTGGLLLHDYLINH 136
                              1344677888889999999999887...378************98877665 PP

>> DUF2985  Protein of unknown function (DUF2985)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   7.4e-05      0.22      38      68 ..      31      61 ..       7      67 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 7.4e-05
                  DUF2985 38 insarkkwieidsqilnALFcvtgfglaPwr 68
                             i++++ +wie d +i  ALF   g    P+ 
  PHY93_07735|PHY93_07735 31 IKEKQAIWIEGDPKISKALFLAHGYMGSPSE 61
                             6799*****************9999888865 PP

>> HgmA  homogentisate 1,2-dioxygenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   5.8e-05      0.17     289     366 ..      59     137 ..      52     149 .. 0.77

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 5.8e-05
                              GGGGEEEEEE-SSTT-EEEEEEE..E-SEEE--TTS--S---B--SSEEEEEEEE---.--------TT-EEEE-TT--B- CS
                     HgmA 289 PsiftvltapsekeGvaivdfvi..fpPrWlvaektfrPPyyhrnvmsefmGlieGay.dakeeGfvpgGaslhslmtahG 366
                              Ps +  l+ p  keG +i+ f+i        va+   r  +  +  mse + l++ ++ + ++ Gf +gG  lh+ + +h 
  PHY93_07735|PHY93_07735  59 PSEMMFLAQPFIKEGWSIIGFLIpgHGSSSKVANAFKRTRW--QSEMSEQLSLVTSTFsEVRAIGFSTGGLLLHDYLINHS 137
                              66677778888888888888888222344556665556665..467*********998578999*************9996 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (190 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       385  (0.0214736); expected 358.6 (0.02)
Passed bias filter:                      350  (0.0195214); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.44u 0.24s 00:00:00.68 Elapsed: 00:00:00.39
# Mc/sec: 1453.49
//
Query:       PHY93_07740|PHY93_07740  [L=1078]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    8.8e-22   77.6   1.5    2.8e-10   40.2   0.0    4.0  4  GGDEF     Diguanylate cyclase, GGDEF domain
  ------ inclusion threshold ------
        2.6    9.0   6.1        0.5   11.3   1.3    2.4  2  ERp29     Endoplasmic reticulum protein ERp29, C-terminal dom


Domain annotation for each model (and alignments):
>> GGDEF  Diguanylate cyclase, GGDEF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0      0.33   2.9e+03      95     122 ..     214     241 ..     209     264 .. 0.79
   2 !   40.2   0.0   3.2e-14   2.8e-10      23     103 ..     609     692 ..     589     708 .. 0.83
   3 !    4.3   0.1    0.0034        30     120     155 ..     745     778 ..     732     782 .. 0.78
   4 !   29.1   0.0   7.8e-11     7e-07      30     109 ..     920    1000 ..     906    1036 .. 0.81

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 0.33
                              HHHHHHHHHHHHHHCS-EEETTCCEEE- CS
                    GGDEF  95 eaaelaerirrllaklkepvelsgeely 122
                              e +e+ +ri+r ++ l+e+++ +g++ y
  PHY93_07740|PHY93_07740 214 ELSEAHRRIDREVKILEEEYKSKGHTNY 241
                              4678999999*******99999998865 PP

  == domain 2  score: 40.2 bits;  conditional E-value: 3.2e-14
                              HHCC.HHCTSEEEEEEEEETTHHHHHHHH..-HHHHHHHHHHHHHHHHCCS-TTSEEEEESSSEEEEEEECSSHHHHHHHHHHH CS
                    GGDEF  23 lqra.rreqkslavllldldnFkkindty..GhsvGDevLqevakrLssslrksdlvaRlggdeFaillpetsseeaaelaeri 103
                              l++  +++q + ++ ++d++n+  +n+++  G ++GD+ L ++ak+++++++ +  +++lggdeF +++ e++ ++++++ + i
  PHY93_07740|PHY93_07740 609 LEDLiKEKQGKATFAFIDVNNLGYVNNNFvkGRNAGDAYLASIAKAINEATKGKAQLFKLGGDEFGVIIHEADPKKTQAILQNI 692
                              3444455688999***************999******************************************98777776654 PP

  == domain 3  score: 4.3 bits;  conditional E-value: 0.0034
                              EE---EEEEEEEE..-TTS-HHHHHHHHHHHHHHHH CS
                    GGDEF 120 elyvtisiGialappeegedleellkeAdealyeaK 155
                                   isiG ++++  +g+++e+ll++A+ +  + K
  PHY93_07740|PHY93_07740 745 YSSEGISIGAVTIK--NGDNYENLLHAAEAQAVKQK 778
                              555579*******5..************98776666 PP

  == domain 4  score: 29.1 bits;  conditional E-value: 7.8e-11
                               TSEEEEEEEEETTHHHHHH.HH-HHHHHHHHHHHHHHHHCCS-TTSEEEEESSSEEEEEEECSSHHHHHHHHHHHHHHHHC CS
                    GGDEF   30 qkslavllldldnFkkind.tyGhsvGDevLqevakrLssslrksdlvaRlggdeFaillpetsseeaaelaerirrllak 109 
                               +++ +++ ++ +n+ kin  + G ++GD++L + ak+L++ lr +d+ ++++g eF+i+   +  e+ a l +r r+ l +
  PHY93_07740|PHY93_07740  920 ENKRGLIWINTENLGKINYfKNGTATGDQLLAATAKTLEKELRAGDIPFKMQGSEFVIIQDGMAPESIAPLVSRFRNSLIN 1000
                               5677899999999999997478*************************************9999987666555555555444 PP

>> ERp29  Endoplasmic reticulum protein ERp29, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.2       1.7   1.5e+04      24      61 ..     222     260 ..     213     262 .. 0.58
   2 ?   11.3   1.3   5.6e-05       0.5      52      94 ..    1005    1046 ..    1003    1048 .. 0.91

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 1.7
                    ERp29  24 lleeakkaaeklksekekkaae.yYvkvmekiaekgeey 61 
                              + +e+k + e++ks+ + ++ e + +k+m+++ e++e y
  PHY93_07740|PHY93_07740 222 IDREVKILEEEYKSKGHTNYSEwMSIKLMDRFDEHKERY 260
                              445555556666655555554423467888888777766 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 5.6e-05
                    ERp29   52 ekiaekgeeyvekElkRLekllkkgklaaekkdelkkrlNILs 94  
                               +ki +++ +y+++E++R+++l  + + +++k++el+  lN  s
  PHY93_07740|PHY93_07740 1005 KKIYSDQMKYISEEINRVKSLS-ATADNSKKLAELTENLNMVS 1046
                               8999****************99.899999*******9999765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1078 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       875  (0.0488036); expected 358.6 (0.02)
Passed bias filter:                      601  (0.0335211); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.87u 0.25s 00:00:01.12 Elapsed: 00:00:00.45
# Mc/sec: 7150.15
//
Query:       PHY93_07745|PHY93_07745  [L=270]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    5.4e-05   22.9   1.5    8.4e-05   22.2   0.1    2.1  3  Hexapep_2  Hexapeptide repeat of succinyl-transferase
    7.5e-05   22.3   2.7    0.00041   20.0   0.2    2.8  2  Hexapep    Bacterial transferase hexapeptide (six repeats)
  ------ inclusion threshold ------
       0.38   10.3   8.8          1    8.9   8.9    1.6  1  DUF1189    Protein of unknown function (DUF1189)


Domain annotation for each model (and alignments):
>> Hexapep_2  Hexapeptide repeat of succinyl-transferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0      0.89   5.3e+03      26      32 ..     170     176 ..     167     177 .. 0.53
   2 ?   -2.4   0.0      0.73   4.4e+03       4      13 ..     189     198 ..     187     201 .. 0.49
   3 !   22.2   0.1   1.4e-08   8.4e-05       3      34 .]     217     250 ..     215     250 .. 0.87

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 0.89
                              E-TT-EE CS
                Hexapep_2  26 vgaGvvi 32 
                              vg Gv+i
  PHY93_07745|PHY93_07745 170 VGKGVMI 176
                              4445554 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 0.73
                              E-TT-EE-TT CS
                Hexapep_2   4 IGdnCliGan 13 
                               +d + iG +
  PHY93_07745|PHY93_07745 189 LEDYVTIGGS 198
                              4555555555 PP

  == domain 3  score: 22.2 bits;  conditional E-value: 1.4e-08
                              EE-TT-EE-TT-EE..SEEE-TT-EE-TT-EE-S CS
                Hexapep_2   3 iIGdnCliGanagi..GvslGdncvvgaGvvita 34 
                              +I +  +iG  a    Gv++G+++vvg++vv+++
  PHY93_07745|PHY93_07745 217 HIKKGAMIGLAAKLlgGVTIGEKAVVGPNVVVYP 250
                              56678899999996689***************95 PP

>> Hexapep  Bacterial transferase hexapeptide (six repeats)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.2     0.049   2.9e+02       4      17 ..     170     196 ..     167     202 .. 0.45
   2 !   20.0   0.2   6.9e-08   0.00041       2      34 ..     216     248 ..     215     250 .. 0.92

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.049
                              EETTEEE-T.............TEEEE CS
                  Hexapep   4 IGsnvlIgp.............favig 17 
                              +G++v+I               +++ig
  PHY93_07745|PHY93_07745 170 VGKGVMINTsnvsdpcliiledYVTIG 196
                              555555554333333333333344444 PP

  == domain 2  score: 20.0 bits;  conditional E-value: 6.9e-08
                              EEEETTEEE-TTEEEETTEEE-TTEEEETTEEE CS
                  Hexapep   2 tvIGsnvlIgpfaviggnVkIGdnvkIgagvvi 34 
                              ++I ++++Ig  a+++g+V+IG+ +++g++vv+
  PHY93_07745|PHY93_07745 216 LHIKKGAMIGLAAKLLGGVTIGEKAVVGPNVVV 248
                              578999999999********************8 PP

>> DUF1189  Protein of unknown function (DUF1189)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   8.9   0.00017         1     126     228 ..      12     112 ..       7     121 .. 0.78

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.00017
                  DUF1189 126 qsysysdledqkltkedlreflssvksilkiilvlilivlflvsllltlidalilaliglilarilkiklsYkqlfkisvyalTlP 211
                              qs  y+d+++   tk+ ++ + ++v   l+ +  +i+++ +++  + +l+ a++l+  ++++++i+   + Y+ l+k   ya+ ++
  PHY93_07745|PHY93_07745  12 QSTEYEDINKRVSTKTGFVAIFENVFRKLGNFAFFIFLIPIFI--ICVLCLAIALTPGVFFIQWIQPHIVDYSMLLKSFCYAFAIA 95 
                              7889******9***********777777777777777766665..566666********************************997 PP

                  DUF1189 212 t.ilnaileilnftvpyf 228
                                +l+ il+++   vp f
  PHY93_07745|PHY93_07745  96 SgFLAFILTLIT-VVPIF 112
                              635555555555.55544 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (270 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       670  (0.0373696); expected 358.6 (0.02)
Passed bias filter:                      284  (0.0158403); expected 358.6 (0.02)
Passed Vit filter:                        37  (0.0020637); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.52u 0.22s 00:00:00.74 Elapsed: 00:00:00.42
# Mc/sec: 1915.31
//
Query:       PHY93_07750|PHY93_07750  [L=439]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.7e-37  127.9  42.9    2.1e-24   86.0  15.7    3.0  3  MatE             MatE
    2.1e-05   24.6  23.0    0.00021   21.4  12.0    4.9  4  Polysacc_synt_C  Polysaccharide biosynthesis C-terminal domai
  ------ inclusion threshold ------
        2.2    8.1   4.7        1.1    9.0   0.5    2.5  2  TMEM40           Transmembrane protein 40 family


Domain annotation for each model (and alignments):
>> MatE  MatE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.6  12.8   6.6e-18   3.9e-14       1     160 [.      16     172 ..      16     173 .. 0.94
   2 !   86.0  15.7   3.4e-28   2.1e-24       1     159 [.     232     391 ..     232     393 .. 0.99
   3 ?   -1.2   0.4      0.23   1.4e+03      75      92 ..     404     421 ..     402     428 .. 0.68

  Alignments for each domain:
  == domain 1  score: 52.6 bits;  conditional E-value: 6.6e-18
                     MatE   1 PialenllesllslidtllvgrlgskalAavsialsilsllfvfllglstalttlvgqalGaknfkrakealrqglilllllslii 86 
                              Pi+  ++ ++l++  d++++g++++ a++a+++a  i+ ++ ++++g+  ++ ++++   G +      + l+ ++i+++  sl+i
  PHY93_07750|PHY93_07750  16 PIITGQIGQMLFGVGDIIVAGHYSALAVSAIGVAAAIFAPFLMVGIGILLCTGPITSEKKGRGE--SDPTLLFNSFIVATMSSLVI 99 
                              999************************************************************9..6689**************** PP

                     MatE  87 allvllfseqilslftqdeevlelakrylrililgipalalqlvlsgilrgagktkvplyislislllniplny 160
                              ++++l+++  i +l + ++++++ ++ yl++++ +i + +++++++ +l++ +kt v+  ++l+ +l+n+ l+ 
  PHY93_07750|PHY93_07750 100 IIAILVLAYNIQWL-GLNPQIAPTVALYLKWTAGSIWPALIFQATKEFLQAESKTYVSNGLILFFNLVNVALCA 172
                              ***77777777655.68888********************************************99****9986 PP

  == domain 2  score: 86.0 bits;  conditional E-value: 3.4e-28
                     MatE   1 PialenllesllslidtllvgrlgskalAavsialsilsllfvfllglstalttlvgqalGaknfkrakealrqglilllllslii 86 
                              Pi ++ l+e+l++ ++t+lvg+++ +a A+ s++++++sl+f+++l++++a+++lvg + G+k+ +++ ++   +l+l+l + +++
  PHY93_07750|PHY93_07750 232 PISFTILCEVLVFSTVTVLVGKMSLVASASQSLVINLTSLTFMVPLAIGSAVAVLVGEQMGKKSIEGILRYSLGSLFLALMIQILF 317
                              9************************************************************************************* PP

                     MatE  87 allvllfseqilslftqdeevlelakrylrililgipalalqlvlsgilrgagktkvplyislisl.llnipln 159
                              a l+l  + ++l + ++d+ ++++a+ +l +++l++++++lq+vlsg++rg  +tk+p+++ +is+ ++++p++
  PHY93_07750|PHY93_07750 318 ATLYLTIPGKLLGVASSDPVIIAYASALLFWVGLFQIPDGLQVVLSGVMRGLHETKIPMILGFISYwIIGLPIG 391
                              ***********************************************************************986 PP

  == domain 3  score: -1.2 bits;  conditional E-value: 0.23
                     MatE  75 glilllllsliiallvll 92 
                              gl+++l+++l+ + ++l+
  PHY93_07750|PHY93_07750 404 GLWMGLAIGLLCMCILLF 421
                              778888888877777443 PP

>> Polysacc_synt_C  Polysaccharide biosynthesis C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -5.9   9.9         3   1.8e+04      56     112 ..      46     110 ..       6     127 .. 0.58
   2 !   21.4  12.0   3.5e-08   0.00021       2     116 ..     127     254 ..     126     289 .. 0.71
   3 ?   -5.4   8.7         3   1.8e+04       4      32 ..     310     338 ..     263     354 .. 0.46
   4 !   16.9   3.1   8.2e-07    0.0049       2      81 ..     346     428 ..     345     432 .. 0.88

  Alignments for each domain:
  == domain 1  score: -5.9 bits;  conditional E-value: 3
          Polysacc_synt_C  56 vGaaiatvlallvvavlnlyalrrllgikl........ellrrllkpllaalvmgivvyllllll 112
                              +G+a+a+ + +l+v + +l +   ++  k          l++++++  +++lv+ i+++ l++ +
  PHY93_07750|PHY93_07750  46 IGVAAAIFAPFLMVGIGILLCTGPITSEKKgrgesdptLLFNSFIVATMSSLVIIIAILVLAYNI 110
                              44444444444444444444444444444444455555455556666666666666633333333 PP

  == domain 2  score: 21.4 bits;  conditional E-value: 3.5e-08
          Polysacc_synt_C   2 LailalsiiflslstvlssiLqglgrqkialkalvigalvklilnllli......plfgivGaaiatvlallvvavlnlyalrrll 81 
                              L + a si ++ +++ +   Lq+  ++      +++  lv+++l  +++      p+fg++Gaai t ++ +++av +++++++  
  PHY93_07750|PHY93_07750 127 LKWTAGSIWPALIFQATKEFLQAESKTYVSNGLILFFNLVNVALCAVFMfgwgpiPEFGVLGAAIVTSICRILMAVSLYFYMKKVC 212
                              889999999999******************99999999**********988888899999************************** PP

          Polysacc_synt_C  82 gikl....ellrrll...kpllaalvmgivvylllllllgll 116
                               +      e l++++    p+ +++++ ++v+  + +l+g  
  PHY93_07750|PHY93_07750 213 AFETkknnETLKKIFklgLPISFTILCEVLVFSTVTVLVGKM 254
                              ***997773344444222444444444444332332222222 PP

  == domain 3  score: -5.4 bits;  conditional E-value: 3
          Polysacc_synt_C   4 ilalsiiflslstvlssiLqglgrqkial 32 
                               l++ i+f++l+ +  + L g+   + ++
  PHY93_07750|PHY93_07750 310 ALMIQILFATLYLTIPGKLLGVASSDPVI 338
                              23333333333333333333333333333 PP

  == domain 4  score: 16.9 bits;  conditional E-value: 8.2e-07
          Polysacc_synt_C   2 LailalsiiflslstvlssiLqglgrqkialkalvig.alvklilnllliplfgi..vGaaiatvlallvvavlnlyalrrll 81 
                              L ++ l  i+ +l++vls+++ gl+++ki+++  +i+  ++ l +  +++++ g+   G  ++ +++ll++++l++++ ++++
  PHY93_07750|PHY93_07750 346 LFWVGLFQIPDGLQVVLSGVMRGLHETKIPMILGFISyWIIGLPIGCYFTYRRGLeaRGLWMGLAIGLLCMCILLFILYKNKI 428
                              78888999999**********************999834799999999998887544******************99888776 PP

>> TMEM40  Transmembrane protein 40 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.0   0.5   0.00019       1.1      54      91 ..      25      62 ..       9      72 .. 0.92
   2 ?   -1.1   0.3      0.25   1.5e+03      71      99 ..     384     414 ..     375     433 .. 0.57

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.00019
                   TMEM40 54 lcfaigallvsyhyyadwfmslgvglltfasletvgiy 91
                             + f++g ++v+ hy a    ++gv    fa +  vgi 
  PHY93_07750|PHY93_07750 25 MLFGVGDIIVAGHYSALAVSAIGVAAAIFAPFLMVGIG 62
                             579*****************************999995 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 0.25
                   TMEM40  71 wfmslgvgl.ltf.asletvgiyfglvyrih 99 
                              w++ l +g  +t+   le+ g+++gl   + 
  PHY93_07750|PHY93_07750 384 WIIGLPIGCyFTYrRGLEARGLWMGLAIGLL 414
                              6666666541344235677777776654433 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (439 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       831  (0.0463495); expected 358.6 (0.02)
Passed bias filter:                      279  (0.0155614); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.62u 0.26s 00:00:00.88 Elapsed: 00:00:00.44
# Mc/sec: 2981.72
//
Query:       PHY93_07755|PHY93_07755  [L=274]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    8.4e-25   87.7   0.0    1.5e-24   86.9   0.0    1.4  1  PseudoU_synth_2  RNA pseudouridylate synthase


Domain annotation for each model (and alignments):
>> PseudoU_synth_2  RNA pseudouridylate synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.9   0.0   8.1e-29   1.5e-24       4     159 ..      97     223 ..      94     224 .. 0.91

  Alignments for each domain:
  == domain 1  score: 86.9 bits;  conditional E-value: 8.1e-29
          PseudoU_synth_2   4 vvnKPagvpvqpeakdgsekekettatssraeeekkelklvhRLDkatsGllllAksseaanklakafeerkvrKkYlalvfgape 89 
                              +++KP g+ +q+++       +++++  + ++ + ++  +vhRLD++ sGl+l+A +++aa+++++++++++vrK Y + v+ + +
  PHY93_07755|PHY93_07755  97 LWYKPTGLLSQGTE-----FGDHCSILRQIEKVK-NKAWMVHRLDREASGLMLFAYNKNAAARFSELWQKHEVRKFYKVEVV-GVV 175
                              689***********.....888888877776655.55668*****************************************8.999 PP

          PseudoU_synth_2  90 eeegaikkkiskdtekqegarrkaeeldgkkavtylkvlksgsseksakvslveleletGrkhQiRvhla 159
                              +++g+i++ ++                  k+a t + vl+       + +s++ +e++tGr hQiR+h++
  PHY93_07755|PHY93_07755 176 KSAGEINENLDG-----------------KSAKTSYTVLETN-----EYTSKLLVEIHTGRLHQIRRHFE 223
                              999999988766.................9***********9.....999******************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (274 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       407  (0.0227007); expected 358.6 (0.02)
Passed bias filter:                      335  (0.0186848); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.20s 00:00:00.70 Elapsed: 00:00:00.41
# Mc/sec: 2028.43
//
Query:       PHY93_07760|PHY93_07760  [L=429]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    3.8e-55  187.3  10.4    3.8e-55  187.3  10.4    1.5  2  Peptidase_S8  Subtilase family
  ------ inclusion threshold ------
      0.068   13.9   0.1       0.57   10.9   0.0    2.3  2  N_BRCA1_IG    Ig-like domain from next to BRCA1 gene


Domain annotation for each model (and alignments):
>> Peptidase_S8  Subtilase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0      0.23   2.1e+03      74     100 ..      20      47 ..      12      63 .. 0.58
   2 !  187.3  10.4   4.2e-59   3.8e-55       2     288 ..     150     413 ..     149     420 .. 0.86

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 0.23
                              -B...SSSSSB-SSTTSEEEEEE-SSTT CS
                              xx.xxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8  74 an.apeegekngvapgakilsvkvldts 100
                              a+ +p +g+++ v pg  +l  k l++ 
  PHY93_07760|PHY93_07760  20 AQaTPFNGYIVKVKPGSNFLNQKSLSNF 47 
                              2245777777777777777755555433 PP

  == domain 2  score: 187.3 bits;  conditional E-value: 4.2e-59
                              TT-EEEEECS-B-TT-TTTGGGEEE..EEEE---TTSG.GGEETT-SS-TT-SC-S.............SS.......HHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.............xxxxxx...xxxxxxxx RF
             Peptidase_S8   2 kgvlvavlDtGvdpshpdlsvttdgerklvdvideegagfngadsettstnwardd.............ngnsie...HGthvAGi 71 
                              k+v++av+DtGvd++hpdl++           id + +++ng+   + ++n  +dd             +    +   HGth+AG+
  PHY93_07760|PHY93_07760 150 KDVKIAVIDTGVDYTHPDLKD----------QIDVNLSELNGKPGVDDDNNGFVDDiygydfankdgdpQ----DghgHGTHCAGV 221
                              89******************4..........455556666666666666666666655555555533330....2445******** PP

                              HH-B..SSSSSB-SSTTSEEEEEE-SSTTSB-HH..HHHHHHHHHHHHCT-SEEEE-EESCETTCHHCHHHHHHHHHHHH.CCT-E CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8  72 aaanapeegekngvapgakilsvkvldtsggsmetgteliraieeaaedkvdvinmslgestslpktgrsiealainravnkkgvl 157
                              ++a   ++ ++ g+   +ki  +k+l+++g+      + i+ai++ ++ +v ++++s+g + +++++ ++    ai++a+ + g+ 
  PHY93_07760|PHY93_07760 222 IGAA-HNDIGVAGIMAHVKIVPIKFLSDKGSGES--IDAIAAIDYGIKRGVNIMSNSWG-GGEKEQSLED----AIKAAE-SAGIT 298
                              ***9.9999*****************88887654..899********************.6677777766....999999.99*** PP

                              EEEE--SS-T-HHEEE-TTCEECTTTST..TCEEEEEESTTSSB-TT--B-TT.......-EEEE-S-CCCCCCCCCHHHTTTHHE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8 158 vviSaGNngktgsslqagspvgtpstsk..nvitvgayttegkiapfSsrGpssdgklkpdivapGgnivstwsrqsnnsaglssy 241
                              +v++aGN++     +++  + ++p++++  nvi+vg+yt+ g  ++fS+ G +s     ++++apG+ni+st+++ +        y
  PHY93_07760|PHY93_07760 299 FVAAAGNES-----ANNDTTASYPANYEvgNVISVGSYTSTGAKSSFSNFGVKS-----VHVTAPGSNILSTYKNGG--------Y 366
                              *********.....578899999****999***********************9.....7*****************........* PP

                              EEE-SHHHCHHHHHHHHHHHHHHHTT--HHHHHHHHHCCS-EE.... CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
             Peptidase_S8 242 qsmsGTSmAsPnaagaaAlllsalpkltpetvraallntAqdlgkad 288
                              ++msGTSmA+P++ag++ llls  p+ltp+++r+ l+nt   ++k +
  PHY93_07760|PHY93_07760 367 TTMSGTSMATPHIAGIVGLLLSQEPNLTPAQIRERLVNTSVKTSKLS 413
                              ****************************************8886654 PP

>> N_BRCA1_IG  Ig-like domain from next to BRCA1 gene
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.0      0.24   2.1e+03       7      33 ..      31      57 ..      30      79 .. 0.82
   2 ?   10.9   0.0   6.4e-05      0.57       5      26 ..     103     124 ..      99     135 .. 0.89

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.24
               N_BRCA1_IG  7 vvppgteftktWrlrNtGseaWpagtk 33
                             +v+pg++f  +  l N G+++  a+t+
  PHY93_07760|PHY93_07760 31 KVKPGSNFLNQKSLSNFGKTTKVANTS 57
                             588999999999999999988766665 PP

  == domain 2  score: 10.9 bits;  conditional E-value: 6.4e-05
               N_BRCA1_IG   5 gtvvppgteftktWrlrNtGse 26 
                              +  vp++t f+k+W ++N+G++
  PHY93_07760|PHY93_07760 103 EVPVPKDTSFKKQWGMKNDGKN 124
                              55799***************86 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (429 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       331  (0.0184617); expected 358.6 (0.02)
Passed bias filter:                      235  (0.0131073); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.21s 00:00:00.75 Elapsed: 00:00:00.42
# Mc/sec: 3099.83
//
Query:       PHY93_07765|PHY93_07765  [L=335]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.9e-30  103.3   0.2    3.4e-29  100.8   0.1    2.2  2  ACP_syn_III_C    3-Oxoacyl-[acyl-carrier-protein (ACP)] synth
    4.7e-24   84.0   0.2    3.2e-23   81.4   0.0    2.3  2  ACP_syn_III      3-Oxoacyl-[acyl-carrier-protein (ACP)] synth
    1.4e-06   27.9   0.0      3e-06   26.8   0.0    1.5  1  Chal_sti_synt_N  Chalcone and stilbene synthases, N-terminal 
    9.8e-05   21.8   0.0     0.0003   20.2   0.0    1.8  2  Thiolase_N       Thiolase, N-terminal domain
  ------ inclusion threshold ------
      0.055   13.6   0.0       0.13   12.3   0.0    1.6  1  RBD              Raf-like Ras-binding domain


Domain annotation for each model (and alignments):
>> ACP_syn_III_C  3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.0      0.46   1.6e+03       2      15 ..      66      79 ..      65      83 .. 0.85
   2 !  100.8   0.1   9.6e-33   3.4e-29       1      87 [.     248     334 ..     248     335 .] 0.98

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.46
                             HHTT--GGG-SEEE CS
            ACP_syn_III_C  2 ekagltpedidalv 15
                             ++ag++++did+++
  PHY93_07765|PHY93_07765 66 SNAGIDKKDIDMII 79
                             5799*******998 PP

  == domain 2  score: 100.8 bits;  conditional E-value: 9.6e-33
                              HHHTT--GGG-SEEEE-SSSHHHHHHHHHHHT--GGGB--THHHH-B-GGGHHHHHHHHHHHTTSS-TT-EEEEEEEETTTEEEEE CS
            ACP_syn_III_C   1 LekagltpedidalvphqanlriidavakklglpeekvvvnldeyGntsaasiplaLdeaveegklkpgdlvllvgfGaGltwgaa 86 
                              +++a+l+ +did++++hqanlri+ +va+ l +pe kv++++++yGnt+aa+ipl +d+a++ g lk+g lv+ ++fG G+twg++
  PHY93_07765|PHY93_07765 248 CKEANLNLADIDLFLFHQANLRINSKVAEMLSIPEGKVFNTIQNYGNTTAATIPLGMDDAIKAGVLKKGMLVASAAFGSGFTWGST 333
                              689**********************************************************************************9 PP

                              E CS
            ACP_syn_III_C  87 l 87 
                              +
  PHY93_07765|PHY93_07765 334 I 334
                              8 PP

>> ACP_syn_III  3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   81.4   0.0     9e-27   3.2e-23       1      80 []     108     193 ..     108     193 .. 0.92
   2 ?   -0.7   0.0      0.37   1.3e+03      18      37 ..     305     324 ..     303     332 .. 0.78

  Alignments for each domain:
  == domain 1  score: 81.4 bits;  conditional E-value: 9e-27
                              EEEE-GGGHHHHHHHHHHHHHHTTS-SEEEEEEEEEGGGCS-TTT..HHHHTTB-EEEEEEEEEEE....SSSSCEEEEEEEEE-G CS
              ACP_syn_III   1 fDlnaaCsgfvyalsvAdaliesgaakrvLvigaetlskilDwkd..rstavlfGDGAgAvvleas....eeegarildselgsdg 80 
                              +D++++C+gf+yals+Ad++i sg++k++L++g+e+ sk lD +   r+ +vlfGDGAgAv+++++     ++++++++++l +dg
  PHY93_07765|PHY93_07765 108 LDIRQQCTGFIYALSIADKFILSGSHKNILIVGSEVHSKGLDLTPngRNVSVLFGDGAGAVIVSRKeladPKKDSHVIATQLFADG 193
                              59*****************************************8446******************988776667889999999987 PP

  == domain 2  score: -0.7 bits;  conditional E-value: 0.37
                              HHHHHTTS-SEEEEEEEEEG CS
              ACP_syn_III  18 daliesgaakrvLvigaetl 37 
                              d++i++g  k+ +++++ ++
  PHY93_07765|PHY93_07765 305 DDAIKAGVLKKGMLVASAAF 324
                              67899999999998888766 PP

>> Chal_sti_synt_N  Chalcone and stilbene synthases, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.8   0.0   8.4e-10     3e-06      99     222 ..      53     171 ..      24     174 .. 0.83

  Alignments for each domain:
  == domain 1  score: 26.8 bits;  conditional E-value: 8.4e-10
          Chal_sti_synt_N  99 vlklgkeaalkalkewGrPkskithlvfvs.ssevelPGadlklakklGlrpsvkrvmlyflGcygGatvlrlakdiaennkGarv 183
                                +lg ea+l+a+ + G  k++i  +++ + + + e+PG+  +l +kl + p++  +    + c g   +l +a       +   +
  PHY93_07765|PHY93_07765  53 NSDLGLEASLRAISNAGIDKKDIDMIIYATlTPDHEFPGTGCFLQAKLDV-PEIAVLD-IRQQCTGFIYALSIADKFILSGSHKNI 136
                              4679************************986789**************97.5565555.5677**************999999*** PP

          Chal_sti_synt_N 184 lvvaseitvlgfrgPskdrlddlvGaalfGdGaaaviiG 222
                              l+v se+   g+    + r        lfGdGa avi+ 
  PHY93_07765|PHY93_07765 137 LIVGSEVHSKGLDLTPNGRNV----SVLFGDGAGAVIVS 171
                              *******99988655555544....569*********96 PP

>> Thiolase_N  Thiolase, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.2   0.0   8.5e-08    0.0003       8     118 ..      38     147 ..      36     189 .. 0.83
   2 ?   -3.3   0.0       1.2   4.4e+03      65      97 ..     273     305 ..     265     317 .. 0.64

  Alignments for each domain:
  == domain 1  score: 20.2 bits;  conditional E-value: 8.5e-08
                              EE--EETTSTTTTS-HHHHHHHHHHHHHHHHTS-GGGCCEEEEEHSSCTTSTSCHHHHHHHHTTS-TTSEEEEEEHGGGHHHHHHH CS
               Thiolase_N   8 rtpigkfggslkdlsaeeLlaealkallekagvdpeevdevivGnvlqagegqniarqaalkagipeevpavtvnkvcsSglkava 93 
                              rt i++ + +  ++s ++L+ ea  +++++ag+d++++d +i ++     e       ++ k+++  e+++  + ++c   + a+ 
  PHY93_07765|PHY93_07765  38 RTGIVERHWVDPETSNSDLGLEASLRAISNAGIDKKDIDMIIYATLTPDHEFPGTGCFLQAKLDV-PEIAVLDIRQQCTGFIYALS 122
                              6666666667778999*****************************99987777777777888889.5688999************* PP

                              HHHHHHHTTSHSEEEEEEEEESTTS CS
               Thiolase_N  94 laaqsiaageadvvvagGvEsmsna 118
                               a + i +g+ + ++++G E  s+ 
  PHY93_07765|PHY93_07765 123 IADKFILSGSHKNILIVGSEVHSKG 147
                              ********************87765 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 1.2
                              HHHHHTTS-TTSEEEEEEHGGGHHHHHHHHHHH CS
               Thiolase_N  65 qaalkagipeevpavtvnkvcsSglkavalaaq 97 
                              ++a ++ ipe  ++ t+++     ++++ l+++
  PHY93_07765|PHY93_07765 273 KVAEMLSIPEGKVFNTIQNYGNTTAATIPLGMD 305
                              566667777777777777777666666666553 PP

>> RBD  Raf-like Ras-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   3.7e-05      0.13      13      49 ..     231     267 ..     225     278 .. 0.86

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 3.7e-05
                      RBD  13 vvevkpgetvrdaLekalkkRglnpsacaVylkgsek 49 
                              +v v+ ++   ++L  ++k  +ln+++++++l ++ +
  PHY93_07765|PHY93_07765 231 TVFVHATKRMAECLVSVCKEANLNLADIDLFLFHQAN 267
                              6789999*************************98644 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (335 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       465  (0.0259356); expected 358.6 (0.02)
Passed bias filter:                      441  (0.024597); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.54u 0.22s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 2443.07
//
Query:       PHY93_16455|PHY93_16455  [L=102]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.013   15.4   0.0      0.013   15.4   0.0    1.1  1  Erv26     Transmembrane adaptor Erv26
      0.072   12.9   0.1        0.1   12.4   0.1    1.2  1  DUF2427   Domain of unknown function (DUF2427)


Domain annotation for each model (and alignments):
>> Erv26  Transmembrane adaptor Erv26
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.4   0.0   1.4e-06     0.013     135     168 ..       3      38 ..       1      70 [. 0.82

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 1.4e-06
                    Erv26 135 vpsfteiasffglcvWlv.PfalfvsLsAgdn.vLP 168
                                s+ +i+  +g+c+W+v P+ +f+s+  +d   LP
  PHY93_16455|PHY93_16455   3 NISYEQIIVVLGMCIWFVfPIGMFLSVVRQDReALP 38 
                              56899************98*******9888742565 PP

>> DUF2427  Domain of unknown function (DUF2427)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.1   1.1e-05       0.1      22      44 ..      10      32 ..       4      39 .. 0.82

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 1.1e-05
                  DUF2427 22 iilmtlalvvvyPvalvLslaks 44
                             i+++ + + +v+P+++ Ls++++
  PHY93_16455|PHY93_16455 10 IVVLGMCIWFVFPIGMFLSVVRQ 32
                             5667788899**********995 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (102 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       643  (0.0358637); expected 358.6 (0.02)
Passed bias filter:                      532  (0.0296726); expected 358.6 (0.02)
Passed Vit filter:                        41  (0.0022868); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 766.81
//
Query:       PHY93_07770|PHY93_07770  [L=167]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (167 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1345  (0.0750181); expected 358.6 (0.02)
Passed bias filter:                      532  (0.0296726); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.41
# Mc/sec: 1220.70
//
Query:       PHY93_07775|PHY93_07775  [L=204]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.6e-44  151.3   0.1      3e-44  151.1   0.1    1.0  1  DTW       DTW domain


Domain annotation for each model (and alignments):
>> DTW  DTW domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  151.1   0.1   1.7e-48     3e-44       1     197 [.       4     185 ..       4     186 .. 0.96

  Alignments for each domain:
  == domain 1  score: 151.1 bits;  conditional E-value: 1.7e-48
                      DTW   1 relCerCllpaevclcsslppleklpikvlilqhpkEkkkstntarllalslanlrvvvgsdveeeaklsallkdpkrksvllFPs 86 
                              re+C+rC      clc+ l+p++++ +++++lqhp+E+++++nt++l+++s+ ++++++g+d++++ +l+++++d+k++  l+FP+
  PHY93_07775|PHY93_07775   4 REVCPRCEYILARCLCHTLKPIDNT-TQIIVLQHPSETGHALNTVHLMKKSFLKMDLFIGEDFSDHLELNSIIRDHKETIGLIFPG 88 
                              689******************9988.************************************************************ PP

                      DTW  87 knaksledllaseaakasekkeefeekrlillDGTWsqAkkilrrnprledlpqvkLkkgesseyerlRkqpkkgclSTiEaiaya 172
                               n++ l++l +            ++ ++lil+DGTW++A+ki+  +++l++l++ +L +++  +y ++R ++ ++ lST+Ea+++a
  PHY93_07775|PHY93_07775  89 GNSTVLNSLSS------------KKITHLILIDGTWKKARKIYLLSKNLHQLQTHSLGPTKPGQY-KIRSSTFEDGLSTLEATVCA 161
                              ***98875543............4789**************************************.******************** PP

                      DTW 173 LkeleeekealdnLldvfkamvekq 197
                              L  +e ++   ++L ++f+ m+e+q
  PHY93_07775|PHY93_07775 162 LGCVE-KNLDTQSLEETFSKMIEFQ 185
                              *****.6899************988 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (204 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       749  (0.0417759); expected 358.6 (0.02)
Passed bias filter:                      455  (0.0253779); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1521.79
//
Query:       PHY93_07780|PHY93_07780  [L=115]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    8.4e-14   51.7   2.9    8.4e-14   51.7   2.9    1.5  2  HIPIP       High potential iron-sulfur protein
     0.0029   17.4   1.2     0.0085   15.9   1.2    1.8  1  TAT_signal  TAT (twin-arginine translocation) pathway signal 
  ------ inclusion threshold ------
      0.047   14.1   0.2      0.059   13.8   0.2    1.1  1  HsbA        Hydrophobic surface binding protein A


Domain annotation for each model (and alignments):
>> HIPIP  High potential iron-sulfur protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.0       1.5     9e+03      44      49 ..      33      38 ..      24      48 .. 0.50
   2 !   51.7   2.9   1.4e-17   8.4e-14       5      66 .]      55     114 ..      51     114 .. 0.93

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 1.5
                             SEEEET CS
                    HIPIP 44 ewgpCt 49
                             ++  C+
  PHY93_07780|PHY93_07780 33 AADACP 38
                             333444 PP

  == domain 2  score: 51.7 bits;  conditional E-value: 1.4e-17
                              HHHHT-BSSGGGSSHHHH--SSGG-SGGGBTTEESTSTT.SEEEETTSTTEBEETT-B-TT-- CS
                    HIPIP   5 AkalgYvedaakadkakharyeegqhCanCalyqkkeea.ewgpCtlfagklVaakGWCsawa 66 
                              +k+l+Yv da++++    +++++g++C +C++y++++++ +++pCt++  k V + GWC+++a
  PHY93_07780|PHY93_07780  55 GKTLQYVLDAKTTK---SPKFKAGSKCGTCKFYNAAKAEgGYAPCTMMGMKYVTNCGWCTSFA 114
                              789*********96...9***************9998887********************996 PP

>> TAT_signal  TAT (twin-arginine translocation) pathway signal sequence
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   1.2   1.4e-06    0.0085       1      16 [.       5      20 ..       5      22 .. 0.90

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 1.4e-06
               TAT_signal  1 klSRRdFLKgsAAaaA 16
                             +lSRR+F K + AaaA
  PHY93_07780|PHY93_07780  5 NLSRRSFFKFAVAAAA 20
                             58*********99998 PP

>> HsbA  Hydrophobic surface binding protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.8   0.2   9.8e-06     0.059      37      99 ..      17      80 ..       6      83 .. 0.82

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 9.8e-06
                             HHHHHHHHHHHHHH..HHHTS----HHHHHHHHHHHHHCHHHHHHHHHHHHHTHHHHHHHT-HHH CS
                     HsbA 37 asnalvsaikkatt..daqasapltdeealalaqavqtLepdvkaaldaliaKkpafdkagltsl 99
                             a++a+v  i kat+  +a+a+ p t+   +a+a++++++ ++ + +lda  +K p+f++   +++
  PHY93_07780|PHY93_07780 17 AAAAIVPFIAKATKsfAADAC-PATAPAGKAIASPTEGMGKTLQYVLDAKTTKSPKFKAGSKCGT 80
                             566666667888885344444.4699********************************9888776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (115 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       450  (0.025099); expected 358.6 (0.02)
Passed bias filter:                      262  (0.0146132); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.38u 0.23s 00:00:00.61 Elapsed: 00:00:00.39
# Mc/sec: 877.42
//
Query:       PHY93_07785|PHY93_07785  [L=145]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.5e-34  116.9   0.1    4.6e-34  116.5   0.1    1.2  1  DUF525    ApaG domain
  ------ inclusion threshold ------
      0.081   13.3   0.0       0.17   12.3   0.0    1.5  1  PapD_C    Pili assembly chaperone PapD, C-terminal domain


Domain annotation for each model (and alignments):
>> DUF525  ApaG domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  116.5   0.1   5.1e-38   4.6e-34       1      86 [.      38     123 ..      38     124 .. 0.98

  Alignments for each domain:
  == domain 1  score: 116.5 bits;  conditional E-value: 5.1e-38
                              EE--BTTB--EEEEEEEEEEE-SSS-EEEEEEEEEEEETTS-EEEEEEESBTTB--EE-TTEEEEEEEEEEESSSEEEEEEEEEEE CS
                   DUF525   1 eeqsspeeekyvfaYsirieneseesvqLlsRhweitdadgkveevegeGvvGeqPlLepgesFeYtSgvsletpsGsmeGsytmv 86 
                              +e+s+pe+++y+f+Y+iri+n+ + s+++++Rhw+i+d++gk+ ev+g Gv+GeqP+L+pges+eY+S+++l++psG+m+G+y+m 
  PHY93_07785|PHY93_07785  38 PERSDPEHNQYFFSYKIRITNRADFSCRVIHRHWKIKDGNGKIYEVQGSGVIGEQPMLAPGESYEYESFCPLHSPSGNMRGKYQMI 123
                              589*********************************************************************************96 PP

>> PapD_C  Pili assembly chaperone PapD, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   1.9e-05      0.17      24      60 ..      91     128 ..      74     129 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 1.9e-05
                              EEEEEEE-TTEEEEE...TT--S--TT-EEEEEEE-TTS- CS
                   PapD_C  24 aleagmvaPfssatf...akkaapaagatvsftvINDyGg 60 
                              +  + m+aP++s ++    ++++p+++ + +++ I+ +G+
  PHY93_07785|PHY93_07785  91 E--QPMLAPGESYEYesfCPLHSPSGNMRGKYQMIDQFGN 128
                              2..27***********999********************7 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (145 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       340  (0.0189637); expected 358.6 (0.02)
Passed bias filter:                      307  (0.0171231); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.22s 00:00:00.65 Elapsed: 00:00:00.40
# Mc/sec: 1089.17
//
Query:       PHY93_07790|PHY93_07790  [L=96]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.8e-05   25.0   0.0    2.6e-05   24.5   0.0    1.1  1  HTH_31           Helix-turn-helix domain
    7.1e-05   22.6   0.0    9.8e-05   22.1   0.0    1.2  1  HTH_25           Helix-turn-helix domain
    8.1e-05   22.6   0.1    0.00011   22.2   0.1    1.3  1  HTH_19           Helix-turn-helix domain
  ------ inclusion threshold ------
      0.011   15.8   0.0      0.017   15.1   0.0    1.4  1  HTH_3            Helix-turn-helix
      0.024   14.2   0.1      0.037   13.6   0.1    1.3  1  HTH_24           Winged helix-turn-helix DNA-binding
      0.034   13.9   0.1      0.063   13.0   0.1    1.4  1  HTH_DeoR         DeoR-like helix-turn-helix domain
      0.072   13.0   0.1       0.11   12.5   0.1    1.3  1  FBA_1            F-box associated
      0.078   12.9   0.0       0.11   12.5   0.0    1.3  1  HTH_37           Helix-turn-helix domain
      0.081   12.9   0.0      0.088   12.8   0.0    1.1  1  Peptidase_M16_C  Peptidase M16 inactive domain


Domain annotation for each model (and alignments):
>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.5   0.0   1.3e-08   2.6e-05       3      59 ..      20      75 ..      20      78 .. 0.94

  Alignments for each domain:
  == domain 1  score: 24.5 bits;  conditional E-value: 1.3e-08
                   HTH_31  3 GalLralReraGLsqeevAerlgvsestlsrlEqGrrgrpspavlealaralgldpa 59
                             G+ Lr  Re++ Ls+++vA+ l++    + + E+Gr    s ++l++++  ++ +++
  PHY93_07790|PHY93_07790 20 GQILRYVREARKLSLKDVAAKLNLKSLDIDHFENGRK-FYSSEDLNKFLVCYNFSQE 75
                             7889*********************************.8*********999998765 PP

>> HTH_25  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.1   0.0   4.9e-08   9.8e-05       2      34 ..      23      55 ..      22      63 .. 0.92

  Alignments for each domain:
  == domain 1  score: 22.1 bits;  conditional E-value: 4.9e-08
                             HHHHHHTTT--HHHHHHHSS--HHHHHHHHCT- CS
                   HTH_25  2 LraaRearglsleevaketkIrkdylealEedd 34
                             Lr  Rear+lsl++va++++++   + ++E+++
  PHY93_07790|PHY93_07790 23 LRYVREARKLSLKDVAAKLNLKSLDIDHFENGR 55
                             9*********************99999999885 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.2   0.1   5.4e-08   0.00011       1      50 [.      20      68 ..      20      84 .. 0.89

  Alignments for each domain:
  == domain 1  score: 22.2 bits;  conditional E-value: 5.4e-08
                   HTH_19  1 GerLkeaReelgltqeelaerlgisrskisaiEngkkdvpsaelllkiae 50
                             G+ L+ +Re ++l+++++a +l      i ++Eng+k   s+e+l+k++ 
  PHY93_07790|PHY93_07790 20 GQILRYVREARKLSLKDVAAKLNLKSLDIDHFENGRK-FYSSEDLNKFLV 68
                             899********************************99.999999999875 PP

>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.1   0.0   8.7e-06     0.017       1      23 [.      23      45 ..      23      62 .. 0.83

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 8.7e-06
                             HHHHHHHTTHHHHHHHHHHTSSH CS
                    HTH_3  1 lkelRkqlglsqeeLAeklGvsr 23
                             l+  R++++ls++++A+kl+++ 
  PHY93_07790|PHY93_07790 23 LRYVREARKLSLKDVAAKLNLKS 45
                             799****************9865 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.1   1.8e-05     0.037       2      29 ..      16      43 ..      15      45 .. 0.91

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 1.8e-05
                   HTH_24  2 detdrkILelLqknprisqreLAerlgl 29
                             d  + +IL+++++  ++s +++A +l+l
  PHY93_07790|PHY93_07790 16 DSREGQILRYVREARKLSLKDVAAKLNL 43
                             677889*********************9 PP

>> HTH_DeoR  DeoR-like helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.1   3.2e-05     0.063       1      25 [.      18      42 ..      18      44 .. 0.95

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 3.2e-05
                 HTH_DeoR  1 Rieqilellkqqgklsveelvellg 25
                             R  qil ++++ +kls++++++ l+
  PHY93_07790|PHY93_07790 18 REGQILRYVREARKLSLKDVAAKLN 42
                             899*******************997 PP

>> FBA_1  F-box associated
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.1   5.3e-05      0.11      18      41 ..      62      85 ..      49      95 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 5.3e-05
                    FBA_1 18 eeeefllsFDFttErfgprlplPf 41
                             + ++fl++++F++E+f+ ++ l +
  PHY93_07790|PHY93_07790 62 DLNKFLVCYNFSQENFKDIMALKV 85
                             2233*************9998865 PP

>> HTH_37  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.5   0.0   5.3e-05      0.11      23      55 ..      23      55 ..       5      67 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.5 bits;  conditional E-value: 5.3e-05
                             HHHHHHHCT--HHHHHHHHT--HHHHHHHHTT- CS
                   HTH_37 23 iaeliekrelsqseaaqllgiaqPkvsrllrgk 55
                             +++++e+r+ls +++a++l+ +  ++++ ++g+
  PHY93_07790|PHY93_07790 23 LRYVREARKLSLKDVAAKLNLKSLDIDHFENGR 55
                             7899*******************9999999876 PP

>> Peptidase_M16_C  Peptidase M16 inactive domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   4.4e-05     0.088      51     108 ..      38      92 ..       5      94 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 4.4e-05
                              SGSCTSSSSSGGGSSEEEEEEEESSSSSEEEEEEEEEECTCTHTTHHHHHHHHHHHHS CS
          Peptidase_M16_C  51 pakptgepltpatlkkppvvlkkldeeqahlslafegpskendeddlalavlntlLgg 108
                               ak   ++l+  ++  ++++   +d   +++ +++ + +  n +d++al+vln lL +
  PHY93_07790|PHY93_07790  38 AAKLNLKSLDIDHFENGRKFYSSED--LNKFLVCYNFSQE-NFKDIMALKVLNKLLVN 92 
                              5677778888889999999999999..9***********9.**************975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (96 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       658  (0.0367003); expected 358.6 (0.02)
Passed bias filter:                      416  (0.0232026); expected 358.6 (0.02)
Passed Vit filter:                        52  (0.00290033); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.41u 0.21s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 742.96
//
Query:       PHY93_07795|PHY93_07795  [L=461]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.1e-48  165.3   0.0    2.1e-48  164.4   0.0    1.5  1  DEAD           DEAD/DEAH box helicase
    1.3e-30  106.0   0.1    2.3e-28   98.8   0.0    2.5  2  Helicase_C     Helicase conserved C-terminal domain
    4.2e-22   77.9   0.9    4.2e-22   77.9   0.9    1.9  2  DbpA           DbpA RNA binding domain
    9.2e-10   38.8   0.0      2e-09   37.7   0.0    1.5  1  ResIII         Type III restriction enzyme, res subunit
     0.0009   18.7   0.0     0.0018   17.6   0.0    1.6  1  CMS1           U3-containing 90S pre-ribosomal complex subuni
    0.00091   19.6   0.2      0.097   13.0   0.0    2.3  2  AAA_19         AAA domain
     0.0062   16.4   0.2      0.042   13.7   0.0    2.1  2  Helicase_RecD  Helicase
  ------ inclusion threshold ------
       0.13   12.3   0.1        7.3    6.6   0.0    2.4  2  baeRF_family2  Bacterial archaeo-eukaryotic release factor fa
       0.13   12.2   0.1       0.54   10.2   0.0    2.0  2  Flavi_DEAD     Flavivirus DEAD domain
       0.14   10.8   0.0       0.24   10.0   0.0    1.2  1  DUF3352        Protein of unknown function (DUF3352)


Domain annotation for each model (and alignments):
>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  164.4   0.0   1.2e-51   2.1e-48       1     175 [.      31     197 ..      31     198 .. 0.95

  Alignments for each domain:
  == domain 1  score: 164.4 bits;  conditional E-value: 1.2e-51
                              -HHHHHHHHHHHTTCEEEEEESTTSSHHHHHHHHHHHHHHHSTTSTS-EEEEEESSHHHHHHHHHHHHHHTTTST.SEEEEEETTS CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxx RF
                     DEAD   1 tdiQaeaiplilgggdvlvaaeTGsGKTlaflipvlqivyetkgktgpkalivePtreLaeqtlnnlkkfkkyid.lrvlliiggv 85 
                              t+iQ+ea+plil g+d++++a+TGsGKT+af + +l+++    ++++ + l+++PtreLaeq++++++++  +++ ++vl+i gg 
  PHY93_07795|PHY93_07795  31 TPIQEEALPLILAGNDLIAQAKTGSGKTAAFGLGILHKLN--LENKKLQSLVLCPTRELAEQVAEEIRRLARFTKnCKVLVICGGA 114
                              89**********************************9995..589999************************96669********* PP

                              SHHHHHHHHHTTCSEEEEEHHHHHHHHHCTSSHCTTEEEEEEETHHHHHHTTTHHHHHHHHHHSHHHCTTSTTTSEEEEEESSBSH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                     DEAD  86 aardqlskldngvdivvgtpgrlddllstgklnlsqvrflVlDEadrlldqgfsdfinrilnqlpqitcdgklqrqvivlSATlpk 171
                              ++ +q++ l++gv+i+vgtpgr++++l++g++nl+ +++lVlDEadr+ld+gf+d+++++++ +       ++  q +++SAT+p+
  PHY93_07795|PHY93_07795 115 SEYQQINSLEHGVHIIVGTPGRVLKFLKKGSINLEALEILVLDEADRMLDMGFRDEMEAVAAFI-------PKAAQALLFSATFPE 193
                              ****************************************************************.......45567*********9 PP

                              HHHH CS
                              xxxx RF
                     DEAD 172 dvkk 175
                              +++ 
  PHY93_07795|PHY93_07795 194 EIES 197
                              8876 PP

>> Helicase_C  Helicase conserved C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.7   0.0     0.021        37       7      60 ..      67     124 ..      62     133 .. 0.73
   2 !   98.8   0.0   1.3e-31   2.3e-28       4     111 .]     235     341 ..     232     341 .. 0.93

  Alignments for each domain:
  == domain 1  score: 4.7 bits;  conditional E-value: 0.021
                              HHHHHHTTTTSEEEEEESSHHHHHH.....HHHHHHHTTSTEEEESTTSTHHHHHHHHH CS
               Helicase_C   7 lellkleeeggkilifvntidrlek.....vklllekkgikvavlhgelpqnereeile 60 
                               +l +le+++ ++l+ ++t++ +e+      +l + +k+ kv+v+ g  +  +++ +le
  PHY93_07795|PHY93_07795  67 HKL-NLENKKLQSLVLCPTRELAEQvaeeiRRLARFTKNCKVLVICGGASEYQQINSLE 124
                              333.6899999**********77666445323333345899999999988888887776 PP

  == domain 2  score: 98.8 bits;  conditional E-value: 1.3e-31
                              HHHHHHHHHTTTTSEEEEEESSHHHHHHHHHHHHHTTSTEEEESTTSTHHHHHHHHHHHHTTSSSEEEESGGGTSSSTSTTESEEE CS
               Helicase_C   4 eallellkleeeggkilifvntidrlekvklllekkgikvavlhgelpqnereeileqfnkgesdvLiatdvaerGidipkvnlVi 89 
                              eal++ l  + + + ++if++t++++ +v  +le+ g++++++hg+l qner  +l++f ++++ +L+atdva+rG+di++++ Vi
  PHY93_07795|PHY93_07795 235 EALVRVL-GHYKPESTVIFCKTKQNCAEVAAMLERLGVSALAMHGDLDQNERTVVLTKFSHHSCLILVATDVAARGLDIKDLEAVI 319
                              6677777.6778999***********9888888999***********************999999********************* PP

                              ESSSSSSHHHHHHHHTTSSSTT CS
               Helicase_C  90 nfdlprnvtsyiqriGRtgRag 111
                              nfdlp++ + y +riGRt+Rag
  PHY93_07795|PHY93_07795 320 NFDLPTDAEVYTHRIGRTARAG 341
                              ********************97 PP

>> DbpA  DbpA RNA binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.9   0.0         8   1.4e+04      44      57 ..     209     222 ..     209     223 .. 0.83
   2 !   77.9   0.9   2.3e-25   4.2e-22       1      70 [.     391     460 ..     391     461 .] 0.98

  Alignments for each domain:
  == domain 1  score: -3.9 bits;  conditional E-value: 8
                              EEE-TT-HHHHHHH CS
                     DbpA  44 vevpkekaeevlka 57 
                              v+v++++ ++++++
  PHY93_07795|PHY93_07795 209 VAVDSKHEKDIIRQ 222
                              78999999999876 PP

  == domain 2  score: 77.9 bits;  conditional E-value: 2.3e-25
                              EEEES-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE-SS-EEEEE-TT-HHHHHHHHTT--SSS----E CS
                     DbpA   1 rlfinvGkkdklrpgdivgaiakeaglsgkdIGkIdildkfSfvevpkekaeevlkalkkkkikGrkvrv 70 
                              +++in+Gkkdk+rpgdi+ga+ +eag+ + +IG+I+il++ S+v++++++ + ++++l+ +kikGrk+rv
  PHY93_07795|PHY93_07795 391 TMYINGGKKDKIRPGDILGALVNEAGIAATYIGNINILNNQSYVAIASAQLDLAISKLNIGKIKGRKFRV 460
                              689*****************************************************************98 PP

>> ResIII  Type III restriction enzyme, res subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.7   0.0   1.1e-12     2e-09      26     170 ..      46     192 ..      27     193 .. 0.84

  Alignments for each domain:
  == domain 1  score: 37.7 bits;  conditional E-value: 1.1e-12
                              EEEEEESTTSTHHHHH.HHHHHHH-S.....-EEEEESSHHHHHHHHHHGGGGTGG........GEEEESSS-B--.......-SE CS
                   ResIII  26 rglikmaTGtGKTlva.aklierllkkgkeekflflvprkslleqtleefkkflseayke....igkkvsgdkkkakekdstnkki 106
                               ++ ++ TG+GKT    + +  +l  ++k+ + l+l+p+++l eq  ee+++++  +++     i++  s+ ++++  + ++  +i
  PHY93_07795|PHY93_07795  46 DLIAQAKTGSGKTAAFgLGILHKLNLENKKLQSLVLCPTRELAEQVAEEIRRLARFTKNCkvlvICGGASEYQQIN--SLEHGVHI 129
                              578899**********899999999998888****************99988888876555566666666666666..899***** PP

                              EEEEHHHHHHTH........HHHTTT-SEEEEETGGGTTS....TTTHHHHHT-.--SEEEEEESS-S CS
                   ResIII 107 lvttiqsldadseeeeeeseellrdrfdviiiDEaHrlgak...kswreilekf.keavllglTATpe 170
                              +v t  ++ + +     ++ +   ++ ++++ DEa r+ ++   +++++++  + k+a  l ++AT++
  PHY93_07795|PHY93_07795 130 IVGTPGRVLKFL-----KKGSINLEALEILVLDEADRMLDMgfrDEMEAVAAFIpKAAQALLFSATFP 192
                              ************.....77778888888************97777****99999566899******96 PP

>> CMS1  U3-containing 90S pre-ribosomal complex subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.0     1e-06    0.0018     177     210 ..     126     159 ..      73     200 .. 0.77

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 1e-06
                     CMS1 177 rigiavGtpgRildLleeeslsvdeLkrivlDas 210
                               + i vGtpgR+l+ l+++s++++ L+ +vlD +
  PHY93_07795|PHY93_07795 126 GVHIIVGTPGRVLKFLKKGSINLEALEILVLDEA 159
                              47899************************99854 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.0   0.0   5.4e-05     0.097       1     111 [.      34     159 ..      34     187 .. 0.64
   2 ?    4.5   0.0     0.023        41      35      83 ..     239     285 ..     231     376 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 5.4e-05
                   AAA_19   1 qreave.alkekvllvtaGpGtGKTrvlkhivallvelggvkpeeillvaftgrAakelrerlaalgaeatTiHrlal........ 77 
                              q+ea+   l+ + l+  a  G+GKT      + + ++l++ k  + l++++t+  a++++e+++ l + ++ +  l +        
  PHY93_07795|PHY93_07795  34 QEEALPlILAGNDLIAQAKTGSGKTAAFGLGILHKLNLENKK-LQSLVLCPTRELAEQVAEEIRRLARFTKNCKVLVIcggaseyq 118
                              56666656677778888999*******998888888888665.899***************9988777644444442233443443 PP

                   AAA_19  78 ............ldfddlltealelleeaeeekklqeeellivDEf 111
                                          +++ +++   l++l++   + +l++ e+l+ DE+
  PHY93_07795|PHY93_07795 119 qinslehgvhiiVGTPGRV---LKFLKK--GSINLEALEILVLDEA 159
                              3334443333333333333...333332..3334433336666665 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.023
                   AAA_19  35 velggvkpeeillvaftgrAakelrerlaalgaeatTiHrlalldfddl 83 
                                lg+ kpe+ ++ + t++ + e++  l+ lg++a  +H+   ld +++
  PHY93_07795|PHY93_07795 239 RVLGHYKPESTVIFCKTKQNCAEVAAMLERLGVSALAMHGD--LDQNER 285
                              34567789*******************************65..443333 PP

>> Helicase_RecD  Helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.7   0.0   2.3e-05     0.042       3      99 ..      50     159 ..      48     165 .. 0.74
   2 ?   -0.0   0.1      0.38   6.9e+02      17      72 ..     173     228 ..     171     278 .. 0.74

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 2.3e-05
            Helicase_RecD   3 tAdRGRGKSaalGlalaaliaegk..snilvtapskenvktlfeflakglealglke.............eekkkkaekaelrvr. 72 
                              +A+ G GK+aa Gl + + ++ ++   + lv  p++e ++++ e +++  + ++  +                      ++l++  
  PHY93_07795|PHY93_07795  50 QAKTGSGKTAAFGLGILHKLNLENkkLQSLVLCPTRELAEQVAEEIRRLARFTKNCKvlvicggaseyqqI--------NSLEHGv 127
                              6999*******998876665554435999****************97777665555589999775433221........2233333 PP

            Helicase_RecD  73 .......kqrieyiapdellklkeqadllvvDEA 99 
                                     ++ +++++  ++  +    ++lv DEA
  PHY93_07795|PHY93_07795 128 hiivgtpGRVLKFLKKGSINLEA--LEILVLDEA 159
                              35566779999**9999998865..7*******9 PP

  == domain 2  score: -0.0 bits;  conditional E-value: 0.38
            Helicase_RecD  17 alaaliaegksnilvtapskenvktlfeflakglealglkeeekkkkaekaelrvr 72 
                              a+aa+i ++ + +l +a+ +e +++l + ++k+ +++ ++++++k+  +++ ++v+
  PHY93_07795|PHY93_07795 173 AVAAFIPKAAQALLFSATFPEEIESLSDVFQKNPKRVAVDSKHEKDIIRQIFIEVE 228
                              56777777778888999999999999999999999988888666666665555555 PP

>> baeRF_family2  Bacterial archaeo-eukaryotic release factor family 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.6   0.0     0.004       7.3      57      85 ..      85     114 ..      66     125 .. 0.80
   2 ?    3.2   0.1     0.048        85      57     114 ..     256     311 ..     226     320 .. 0.75

  Alignments for each domain:
  == domain 1  score: 6.6 bits;  conditional E-value: 0.004
            baeRF_family2  57 erNaeavAeevdrlvres.gaelVvlaGDv 85 
                              ++ ae+vAee+ rl+r + + +++v++G  
  PHY93_07795|PHY93_07795  85 RELAEQVAEEIRRLARFTkNCKVLVICGGA 114
                              5669************65157889999865 PP

  == domain 2  score: 3.2 bits;  conditional E-value: 0.048
            baeRF_family2  57 erNaeavAeevdrlvresgaelVvlaGD..vrarsllrdeLpervrelvvevegggraag 114
                              ++N+++vA    ++ ++ g+ ++ + GD    +r+ +  + +++   ++v +++ +r+ +
  PHY93_07795|PHY93_07795 256 KQNCAEVA----AMLERLGVSALAMHGDldQNERTVVLTKFSHHSCLILVATDVAARGLD 311
                              45555555....555666899999999622567899999999999999999888888765 PP

>> Flavi_DEAD  Flavivirus DEAD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0    0.0003      0.54      10      56 ..      50      98 ..      43     112 .. 0.79
   2 ?   -2.2   0.0         2   3.6e+03      35      60 ..     248     273 ..     231     298 .. 0.67

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.0003
                             E--TTS-TTTTHHHHHHHH..HHHTT--EEEEESSHHHHHHHHHHTTTS CS
               Flavi_DEAD 10 dlhPGaGktrkvlpelvke..aierrlrtlvLaPtrvvlaemeealkgl 56
                             +++ G+Gkt  +   ++++    +++l++lvL Ptr  ++ ++e ++ l
  PHY93_07795|PHY93_07795 50 QAKTGSGKTAAFGLGILHKlnLENKKLQSLVLCPTRELAEQVAEEIRRL 98
                             56789****999777776521357899**********999999988765 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 2
                              -EEEEESSHHHHHHHHHHTTTS-EEE CS
               Flavi_DEAD  35 rtlvLaPtrvvlaemeealkglevry 60 
                               t++   t+   ae++  l+ l v+ 
  PHY93_07795|PHY93_07795 248 STVIFCKTKQNCAEVAAMLERLGVSA 273
                              56777777777777777776666654 PP

>> DUF3352  Protein of unknown function (DUF3352)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.0   0.00013      0.24      37      77 ..     173     214 ..     163     219 .. 0.89

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.00013
                  DUF3352  37 aaakfvPkdApltvslltdperlqalaq.fgtpearralrqe 77 
                              a+a f+Pk A+++++ +t pe++++l+  f++ ++r a++ +
  PHY93_07795|PHY93_07795 173 AVAAFIPKAAQALLFSATFPEEIESLSDvFQKNPKRVAVDSK 214
                              6788******************************99998876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (461 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       632  (0.0352502); expected 358.6 (0.02)
Passed bias filter:                      528  (0.0294495); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.58u 0.23s 00:00:00.81 Elapsed: 00:00:00.41
# Mc/sec: 3367.47
//
Query:       PHY93_07800|PHY93_07800  [L=343]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.9e-23   83.0   0.6    8.1e-23   81.6   0.6    1.7  1  Phosphodiest   Type I phosphodiesterase / nucleotide pyrophos
    2.8e-11   43.4   0.1    7.2e-11   42.0   0.1    1.7  1  Sulfatase      Sulfatase
    2.5e-05   23.7   0.1    3.6e-05   23.3   0.1    1.2  1  Metalloenzyme  Metalloenzyme superfamily
    0.00042   19.0   0.3    0.00063   18.5   0.3    1.1  1  DUF229         Protein of unknown function (DUF229)


Domain annotation for each model (and alignments):
>> Phosphodiest  Type I phosphodiesterase / nucleotide pyrophosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   81.6   0.6   1.8e-26   8.1e-23       2     258 ..      38     311 ..      37     335 .. 0.66

  Alignments for each domain:
  == domain 1  score: 81.6 bits;  conditional E-value: 1.8e-26
                              EEEEETT-B...TTHHHHHGS.TSHHHHHHHHHSEEESEEE-SSS-SHHHHHHHHHHSS-HHHHS--SSSEEETTTTEEEEEETTT CS
             Phosphodiest   2 lvislDGlr...adlldrlae.llpnlaaLakegvsapnlrpvfPtlTfpnhaslvTGlyPgeHGivgNtfydrktgeyvvfvted 83 
                              +vi+ DG      +ll +  +  lpnl++++++g+++ + ++   t+T p+++ ++TG + + +G+ +N+fy +  +  +vf + +
  PHY93_07800|PHY93_07800  38 IVIGWDGSLrerVELLLK--QgQLPNLKSIIDHGSYVSTTITKDATETKPGWTQILTGYSSKTTGVLNNKFYAPIPKGLTVFERLS 121
                              677777765233333333..44**************************************************99999988998888 PP

                              TGG.............GGGCTTS-HHHHHHHTH.TTC.EEEESE...TTTTSEBTTCT.SC..................TBHHSBT CS
             Phosphodiest  84 eda.............prwwqgepiwdtaakar.glk.aaalfw...pgsevdystyyylvs.................etppryl 134
                              +++             +               + g++  +++     + s ++  ++++                    e  p+y+
  PHY93_07800|PHY93_07800 122 QKFgkklklifltgkvN---------------NvGIRgPHNICMnclKRSTINSKKTRWWDEfaetpvfgghkkimnhrEGEPYYY 192
                              88544443333333321...............243332222222122334444333333332444444444444443323333333 PP

                              CT.CSTTS..CHHH.HHHHHHHHHHHHCHTHSHHHHHCTSSESEEEEEECCCHHHHHHH-TTSHHHHHHHHHHHHHHHHHHHHHHH CS
             Phosphodiest 135 eddfnakv..pled.kvdkavlqtwldaafakvvlekelekpdlllvyleetDtvgHkfGpdspevedalrrvDkaigdLlealde 217
                                 +n kv  ++++  +     ++ l +af   vl++ + +  + ++++ee+D +gH fG +s+e  +al + D ++g++l+ l+e
  PHY93_07800|PHY93_07800 193 --LYNSKVvdHFQTaLIE---GPNVLRKAFL--VLDRVKNDAFFAFIHFEEPDEQGHVFGENSKEYSKALMDNDINLGKMLNKLKE 271
                              ..3444445444442222...2333444442..232223899******************************************** PP

                              TTGTTTEEEEEEES---EEEHTTSEEEGGGTSTGGHGEEEE CS
             Phosphodiest 218 rglsaetniilvSDHGmadvsddkvielndlleekgllhlk 258
                               +l ++t +i++ DHG+   + ++ +  n++l    + +l+
  PHY93_07800|PHY93_07800 272 LNLVNNTILIVTTDHGFDIGKHSHHDARNTFLVST-IKNLR 311
                              *****************988644444456666654.55555 PP

>> Sulfatase  Sulfatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   42.0   0.1   1.6e-14   7.2e-11       2     284 ..      36     309 ..      35     329 .. 0.80

  Alignments for each domain:
  == domain 1  score: 42.0 bits;  conditional E-value: 1.6e-14
                              EEEEEEESSE-TTGSGGGTTTSCSSHHHHHHHHTSEEESSEE-S.SSSHHHHHHHHHHSS-HHHHTHSSCCSTTTHHCTTTS-HHH CS
                Sulfatase   2 nvvliladdlgagdlglyggktattpnldrlaeeglrftnfysa.aplcspsraalltgryphnsgvasntevgggglpqteatLp 86 
                              n+++i +d   +  ++l     +  pnl+++ ++g   + +++  a+ + p   ++ltg +++++gv +n  +   ++p+  + + 
  PHY93_07800|PHY93_07800  36 NIIVIGWDGSLRERVELLLKQGQ-LPNLKSIIDHGSYVSTTITKdATETKPGWTQILTGYSSKTTGVLNNKFY--APIPKGLTVFE 118
                              77888888777777777777777.8**************999752689******************9877755..79999999999 PP

                              HHHHHTT-EEEEEEES-SCCSGGGSHHCCTTTSE.EEETSSSCHHTCCCCCCCCCECTCCC..........TTTTCSHHHHHHHHH CS
                Sulfatase  87 ellkeaGYntaaigkwhlgwssrqsvyknrgfdr.flgfptgsaalkdpekseyngevlrv..........ppeggysddrlldea 161
                              +l ++ G +  +i    +g  ++ +    ++     l+++t++++ +++++++  ++v++           +p ++ +  +++d +
  PHY93_07800|PHY93_07800 119 RLSQKFGKKLKLIF--LTGKVNNVGIRGPHNICMnCLKRSTINSKKTRWWDEFAETPVFGGhkkimnhregEPYYYLYNSKVVDHF 202
                              99999888886664..5566666665555666555999999999999999999999998889********9888888899999999 PP

                              HHHH.HCCC.TSSEEEEEEE-TTSSSTCTCGGHTCCGSTTTTCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTGGGEEEEE CS
                Sulfatase 162 lefl.larn.dkpfflylatlapHappeapdeyakkyatffddgseaarqlleaylnsveyvDdligrvlaaLeenglldntlvvf 245
                              ++ l    n  ++ fl+l    + a ++a+  +++  +++   g     ++  +y  ++  +D ++g+ l++L+e++l +nt++++
  PHY93_07800|PHY93_07800 203 QTALiEGPNvLRKAFLVLDRVKNDA-FFAFIHFEEPDEQGHVFG-----ENSKEYSKALMDNDINLGKMLNKLKELNLVNNTILIV 282
                              9999999999**************6.999999999977776665.....8899********************************* PP

                              EESSSSCCCGHHTTSSSCTTCSSSHHHHBEEEEEEETTT CS
                Sulfatase 246 tSDhgasleesngplrggkganayeggtrvPllvwwpge 284
                              t Dhg  +  +++ ++          + r  +lv   ++
  PHY93_07800|PHY93_07800 283 TTDHGFDI--GKHSHH----------DARNTFLVSTIKN 309
                              *******9..333333..........4444555555555 PP

>> Metalloenzyme  Metalloenzyme superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.3   0.1     8e-09   3.6e-05     123     189 ..     219     290 ..     177     314 .. 0.81

  Alignments for each domain:
  == domain 1  score: 23.3 bits;  conditional E-value: 8e-09
                              HHHHH.CC.-S..EEEEEE-HHHHHHHT..T-HHHHHHHHHHHHHHHHHHHTTS-T....TTEEEEEE-SSB--T CS
                              xxxxxxxxxxx..xxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxx RF
            Metalloenzyme 123 aldailsgkfd..lvvvniknaDmvGHt..gdleatiaaieaaDeavkeildaieq....vdgilvvtADHgnae 189
                              +ld +   k d  + +++++++D+ GH   ++ +++ +a+ + D +++++l+++++    +++il+vt DHg + 
  PHY93_07800|PHY93_07800 219 VLDRV---KNDafFAFIHFEEPDEQGHVfgENSKEYSKALMDNDINLGKMLNKLKElnlvNNTILIVTTDHGFDI 290
                              44555...3344499************54489**********************985555679*********775 PP

>> DUF229  Protein of unknown function (DUF229)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.5   0.3   1.4e-07   0.00063     286     350 ..     220     294 ..     207     301 .. 0.88

  Alignments for each domain:
  == domain 1  score: 18.5 bits;  conditional E-value: 1.4e-07
                   DUF229 286 lerysnsrlfgffwsnslshdkfnlleal..........DedllkylkklekkgllentlvlllsDHGlrfgklr 350
                              l+r +n+ +f+f++ ++++++   + e            D +l k+l kl++ +l +nt++++  DHG  +gk+ 
  PHY93_07800|PHY93_07800 220 LDRVKNDAFFAFIHFEEPDEQGHVFGENSkeyskalmdnDINLGKMLNKLKELNLVNNTILIVTTDHGFDIGKHS 294
                              78899999999999999998888888877889999998888999************************9999876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (343 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       381  (0.0212505); expected 358.6 (0.02)
Passed bias filter:                      327  (0.0182386); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.54u 0.23s 00:00:00.77 Elapsed: 00:00:00.42
# Mc/sec: 2475.48
//
Query:       PHY93_07805|PHY93_07805  [L=347]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      0.008   16.6   0.0      0.015   15.7   0.0    1.5  1  Glyco_trans_1_4  Glycosyl transferases group 1
  ------ inclusion threshold ------
      0.078   13.6   0.1       0.32   11.6   0.0    1.9  2  DUF4541          Domain of unknown function (DUF4541)


Domain annotation for each model (and alignments):
>> Glyco_trans_1_4  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   1.7e-06     0.015      31     101 ..     214     283 ..     185     312 .. 0.76

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 1.7e-06
                              HEEEEEES---..HHHHHHHTT-T.TEEEE---..THHHHHHHH-SEEEE--.---SHHHHHHHHTT-EEEE-T CS
          Glyco_trans_1_4  31 dvrlvivGdgprpeeleelaagleerveftGfv..edlaellaaadvfvaPs.egfglkllEamaaglpvVatd 101
                              ++++ ++G++   e+l+++ a+l    +f G +   + a++la ++ ++  + + f++ +l  ma g+pv+  +
  PHY93_07805|PHY93_07805 214 ELQFKFIGND---EHLNSMKADL-GASKFFGNRcsGEHAPVLAGSKALISFNsQEFPNLVLATMATGRPVILGN 283
                              4889999*54...3566444455.4789999998878***********9998889****************876 PP

>> DUF4541  Domain of unknown function (DUF4541)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   3.6e-05      0.32      12      41 ..      83     112 ..      74     133 .. 0.81
   2 ?   -1.6   0.0      0.49   4.4e+03       1      31 [.     294     324 ..     294     337 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 3.6e-05
                  DUF4541  12 vsaYDrlfkveegydsklhRdDrehaksig 41 
                              +++YD++ + ++g+++  +R+D+++  +  
  PHY93_07805|PHY93_07805  83 SCEYDLIINISKGFSQGIKRCDKSKIITYL 112
                              589*******************99876655 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 0.49
                  DUF4541   1 tyFnnekkekkvsaYDrlfkveegydsklhR 31 
                              tyF + +k +++++ D +f+ e++ + ++ R
  PHY93_07805|PHY93_07805 294 TYFASFHKGSIRAMIDEVFANEDQLEGQKIR 324
                              6888888888999999999998887766655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (347 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       423  (0.0235931); expected 358.6 (0.02)
Passed bias filter:                      293  (0.0163422); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.21s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 2550.02
//
Query:       PHY93_07810|PHY93_07810  [L=321]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.9e-49  168.8   0.0    9.6e-49  166.6   0.0    1.8  1  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
      2e-47  161.7   0.0    2.5e-47  161.4   0.0    1.1  1  Epimerase        NAD dependent epimerase/dehydratase family
    5.5e-08   32.2   0.0    7.2e-08   31.8   0.0    1.1  1  3Beta_HSD        3-beta hydroxysteroid dehydrogenase/isomeras
    2.4e-05   23.6   0.0    3.4e-05   23.1   0.0    1.2  1  RmlD_sub_bind    RmlD substrate binding domain
    7.2e-05   22.1   0.0    0.00014   21.2   0.0    1.5  1  NAD_binding_4    Male sterility protein
    0.00011   22.1   0.0    0.00016   21.5   0.0    1.3  1  Methyltransf_31  Methyltransferase domain
    0.00045   19.5   0.1     0.0079   15.4   0.0    2.5  2  Polysacc_synt_2  Polysaccharide biosynthesis protein


Domain annotation for each model (and alignments):
>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  166.6   0.0   3.7e-52   9.6e-49       1     332 []      16     315 ..      16     315 .. 0.88

  Alignments for each domain:
  == domain 1  score: 166.6 bits;  conditional E-value: 3.7e-52
                              EEETTTSHHHHHHHHHHHHCT-CCEEEEEEESS-TTHHHHHCTTT...TTGCCEEEEE--TT-HHHHHHHHHHHT-SEEEE--S-- CS
            GDP_Man_Dehyd   1 LiTGiaGfiGsylaelLlekgyevhgivrrsssfntgriehlakdpkeeleenlklhkgDltDssslerllaevqpdevynLAAqs 86 
                              L+ G aGf+ s l+e+ l+ g +v+gi++  +  + ++i+ l +       +n+++h++++ ++      +++ ++d ++ +A   
  PHY93_07810|PHY93_07810  16 LVAGAAGFVPSTLCEFYLNLGAHVIGIDNFIT-GSRSNIDLLSS------YKNFEFHQHNIYERL---PNFKDQKIDYILSMASPA 91 
                              89************************987654.46688887764......369*********975...6799************96 PP

                              -HHHHTTSHHHHHHHHTHHHHHHHHHHHHCT..TTSEEEEEEEGGGG-S-SSSSB-TT.....S-----SHHHHHHHHHHHHHHHH CS
            GDP_Man_Dehyd  87 hVdvsfekPeytaevnvlGtlrLLeairalglekkvrfyqaStsEvYGkvqevpqtEt.....tpfyPrsPYaaaKlyadwivvny 167
                                      P + ++vn  Gtl+LLe++++    k++rf+ aStsEvYG+++ +pq+E+     + + Prs+Y  +K +a+ +++++
  PHY93_07810|PHY93_07810  92 SPIDFAIIPVEIMRVNSEGTLKLLELAKE----KNARFLEASTSEVYGDPEIHPQKEDyvghvNCIGPRSCYDESKRFAEALTMSF 173
                              65555566*******************97....579*********************9777778899******************* PP

                              HHHH---EEEEEE-EEESTTS-TTSCCCHHHHHHHHHHTTS-C-EECTTTT-EEEEEEHHHHHHHHHHHHHCSS---EEE-TT-EE CS
            GDP_Man_Dehyd 168 reayglfavngilfnhesprrgetfvtrkitravarialgkqevlylGnldakRdwghvkDyveamwlmlqqdkpedyviatgeth 253
                              +++y++ + + ++fn+++pr+ ++   r i+++++++ +g+ + +++G+++++R++ +  D v+a++++l ++ p  +++++ +++
  PHY93_07810|PHY93_07810 174 HHKYNVDTRIVRIFNTYGPRMRPN-DGRVIPNFITQAMKGE-DLTVYGDGSQTRSFCFSTDLVQAIHTVLMSNDPTPFNCGNPDEY 257
                              ********************9887.99************98.8899**************************************** PP

                              ECHHCHHCCHHCCCHHHHHH............TTGGCCCEECGG--SS--SB--B-THHHHHHH----SS-HHHHHHHH CS
            GDP_Man_Dehyd 254 svrefvelaflelgktiewegkgeeevgrakesgkvvvevdpkyfrpgevdlllgdaskakeeLgWkpkvsfeelvrem 332
                              +v++ +el ++ lg t +                   v     +  + + +++  d  k+++  ++ p+v+fee++r++
  PHY93_07810|PHY93_07810 258 TVKQTAELIIKILGSTSK------------------IVY---LPLPKDDPKRRRPDLGKLQRVSDYAPQVGFEEGIRQT 315
                              ****99988888876522..................122...2222334566677999999999*********999986 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  161.4   0.0   9.6e-51   2.5e-47       1     241 []      15     252 ..      15     252 .. 0.91

  Alignments for each domain:
  == domain 1  score: 161.4 bits;  conditional E-value: 9.6e-51
                              EEEETTTSHHHHHHHHHHHHCTSEEEEEES-STTTTCHHCHHC......EEEE--TT-HHHHHHHHHHHT-SEEEE--S---HHHH CS
                Epimerase   1 ilVtGatGfiGsalvkallekgyevigldrlssasntarledl......elveldltdrsalerlfkeeqpdavihlAavggvaas 80 
                              +lV+Ga+Gf+ s l++  l+ g +vig+d+  ++s+++ +  l      e+++ ++ +  +l   fk++++d+++ +A  +++ + 
  PHY93_07810|PHY93_07810  15 VLVAGAAGFVPSTLCEFYLNLGAHVIGIDNFITGSRSNIDL-LssyknfEFHQHNIYE--RL-PNFKDQKIDYILSMASPASPIDF 96 
                              79*****************************8888766544.3688877888888875..44.556778**********9999999 PP

                              HHSHHHHHHHHTHHHHHHHHHHHHHTCTEEEEEEEGGGGTSCSSSS.BSTCSTTS--.--SSHHHHHHHHHHHHHHHHHHHHT-EE CS
                Epimerase  81 sedpadfieknlqgtlnlleaarkagvkrllflsSsevYGkdaeqp.keettltgpl.kpnspYaaaKlageklveayaaqyglna 164
                              ++ p ++++ n +gtl+lle a+++++ r+l +s+sevYG+++  p ke+++   ++  p+s Y  +K+ +e l+ +++++y++++
  PHY93_07810|PHY93_07810  97 AIIPVEIMRVNSEGTLKLLELAKEKNA-RFLEASTSEVYGDPEIHPqKEDYVGHVNCiGPRSCYDESKRFAEALTMSFHHKYNVDT 181
                              ***************************.************99998867888877777***************************** PP

                              EEEEESEEESTTS-TTSTTSHHHHHHHHHHTTSSSEEEETTST-EEEEEEHHHHHHHHHHHHHHHTT-STTEEEEES CS
                Epimerase 165 iilrlfnlyGprngegevsrvipalirkilegkqevtllgdgtalRdflyveDvaeaillvlehvdagdkgeiyniG 241
                               i+r+fn yGpr   +++ rvip +i+++ +g+ ++t++gdg++ R f+++ D+++ai++vl      +++  +n+G
  PHY93_07810|PHY93_07810 182 RIVRIFNTYGPR-MRPNDGRVIPNFITQAMKGE-DLTVYGDGSQTRSFCFSTDLVQAIHTVLMS----NDPTPFNCG 252
                              ***********9.9999****************.****************************99....456678876 PP

>> 3Beta_HSD  3-beta hydroxysteroid dehydrogenase/isomerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.8   0.0   2.8e-11   7.2e-08       1     225 [.      16     237 ..      16     254 .. 0.80

  Alignments for each domain:
  == domain 1  score: 31.8 bits;  conditional E-value: 2.8e-11
                3Beta_HSD   1 vvtGgaGFlGralvkeLvrleelkevrvlD..lrespelleelskvnvkkviegDvtdkdkleeal.egvdvvihlas.lvdvagk 82 
                              +v G+aGF+ ++l++  ++l+   +v  +D  +  s +  + ls+ ++ ++++  + +   l +   +++d ++ +as ++++   
  PHY93_07810|PHY93_07810  16 LVAGAAGFVPSTLCEFYLNLGA--HVIGIDnfITGSRSNIDLLSSYKNFEFHQHNIYER--LPNFKdQKIDYILSMASpASPIDFA 97 
                              699******************5..66677767777777889999999999******875..4443316899999999934555558 PP

                3Beta_HSD  83 ltedeimkvnvkGTrnvleacvkagvrvlvYtSsaevvgpnslgeeilngdEeleyesl...hqdaypesKalaEklvlkaNgrtl 165
                              +   eim+vn +GT ++le +++++ r+l   S+ ev g+     ei+  +E+   + +   + ++y esK+ aE+l ++      
  PHY93_07810|PHY93_07810  98 IIPVEIMRVNSEGTLKLLELAKEKNARFL-EASTSEVYGD----PEIHPQKEDYVGHVNcigPRSCYDESKRFAEALTMSFHH--- 175
                              99999*******************98866.79*******9....6777777766544444789**************998777... PP

                3Beta_HSD 166 knggrlyTcaLRpagiyGegdk....llvpllkqlaklglalfkigdeevlsdrvYvgNvawah 225
                                  ++ T  +R    yG++ +    ++ p + + a +g+ l  +gd +++ ++ ++  +++a+
  PHY93_07810|PHY93_07810 176 --KYNVDTRIVRIFNTYGPRMRpndgRVIPNFITQAMKGEDLTVYGDGSQTRSFCFSTDLVQAI 237
                              ..44689999********97542222455555555555669*************9999988775 PP

>> RmlD_sub_bind  RmlD substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.1   0.0   1.3e-08   3.4e-05       3     237 ..      15     276 ..      13     300 .. 0.73

  Alignments for each domain:
  == domain 1  score: 23.1 bits;  conditional E-value: 1.3e-08
                              EEEESTTSHHHHHHHHHCTTTSEEEEEE-TT...............T--TTSHHHHHHH..HHHH--SEEEE------HHHHHHSH CS
            RmlD_sub_bind   3 ilvtGanGqlGseLakqlaeeglevlaltre...............eldltdaeavael..lkeakpdvvvnaAAytavDkaEsee 71 
                              +lv Ga G + s L +   + g++v+++++                ++++++ +  ++l  +k++k d + ++A           +
  PHY93_07810|PHY93_07810  15 VLVAGAAGFVPSTLCEFYLNLGAHVIGIDNFitgsrsnidllssykNFEFHQHNIYERLpnFKDQKIDYILSMASPASPIDFAIIP 100
                              67777777777777777777777777776556667666666666664444444444443225777888888888877776666778 PP

                              HHHHHHHTHHHHHHHHHHHHCT-EEEEEEEGGGS-S-....TTS-B-.TTS----SSHHHHHHHHHHHHHHH....H-SSEEEEEE CS
            RmlD_sub_bind  72 eaayavnaeavealAeaaaavgalLihvStDyVFdGe....kkrpYe.eddetsPlnvYGrtKlaGEqavla....agkkalivRt 148
                               + ++vn+e++ +l e+a++ +a ++  St  V+       +k+ Y    +  +P++ Y ++K   E    +    ++ ++ ivR+
  PHY93_07810|PHY93_07810 101 VEIMRVNSEGTLKLLELAKEKNARFLEASTSEVYGDPeihpQKEDYVgHVNCIGPRSCYDESKRFAEALTMSfhhkYNVDTRIVRI 186
                              8999******************************76657765555651457789**************999855556667889999 PP

                              -SEESS....SSS-HHHHHHHHHHH-SEEEEESS..-EE--EEHHHHHHHHHHHHHHCHH.GGG-EEEE---BS-EEHHHHHHHHH CS
            RmlD_sub_bind 149 swvyge....kgknfvktmlrlakereelkvvaD..qlgsPTsardlAevllqllekaaeekelagvyHlanegetswlefArail 228
                                 yg     ++   + +++  a + e l+v  D  q++s     dl +++ ++l            + ++n +e +  + A+ i+
  PHY93_07810|PHY93_07810 187 FNTYGPrmrpNDGRVIPNFITQAMKGEDLTVYGDgsQTRSFCFSTDLVQAIHTVLMSND-----PTPFNCGNPDEYTVKQTAELII 267
                              99999866555556778889999999*****9994455555555555555555555544.....5789999999999999999999 PP

                              HHHCHTTSE CS
            RmlD_sub_bind 229 keagadsee 237
                              k +g++s+ 
  PHY93_07810|PHY93_07810 268 KILGSTSKI 276
                              998887644 PP

>> NAD_binding_4  Male sterility protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.2   0.0   5.3e-08   0.00014     106     210 ..     102     196 ..      78     231 .. 0.80

  Alignments for each domain:
  == domain 1  score: 21.2 bits;  conditional E-value: 5.3e-08
                              EEHHHHHHHHHHHHHHHTSSS--.-EEEEEEGGGTTS-TTT--SSS-H......HHH--EEEETTTCCCHHHHHHHHHHHHHHHHH CS
            NAD_binding_4 106 ellrvNveGtrevlelakklkklkvllhvSTayvngeregeveekvyeegekeekldederaklkglpntYeqsKalaEklvrear 191
                              e++rvN eGt ++lelak+  +   +l  ST+ v+g+ e +            +k+d   + +  g    Y  sK  aE l  + +
  PHY93_07810|PHY93_07810 102 EIMRVNSEGTLKLLELAKEK-NA-RFLEASTSEVYGDPEIHP-----------QKEDYVGHVNCIGPRSCYDESKRFAEALTMSFH 174
                              789***************54.44.7******99999999664...........4567777888889999***************** PP

                              HHH---EEEEEE-EEE-...-S CS
            NAD_binding_4 192 rrsglpvvivRpsiitg...es 210
                              ++ ++ + ivR+ + +g   ++
  PHY93_07810|PHY93_07810 175 HKYNVDTRIVRIFNTYGprmRP 196
                              ***********98877765544 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.5   0.0   6.4e-08   0.00016      24     113 ..      32     119 ..      15     154 .. 0.77

  Alignments for each domain:
  == domain 1  score: 21.5 bits;  conditional E-value: 6.4e-08
          Methyltransf_31  24 elgpkaevvGiDiseeaielArenaqklg.ldnveFeqgdiee.leklledekfDlilsnevlnaladpdkileeiervlkpggil 107
                               l+ +a+v+GiD+    i+ +r+n + l  ++n+eF+q +i e l++ ++d+k+D+ils +  +   d + i  ei rv ++g+  
  PHY93_07810|PHY93_07810  32 YLNLGAHVIGIDN---FITGSRSNIDLLSsYKNFEFHQHNIYErLPN-FKDQKIDYILSMASPASPIDFAIIPVEIMRVNSEGTLK 113
                              4666899999995...8999999999875277**************8.9**********877666666666666777777777766 PP

          Methyltransf_31 108 liedpr 113
                              l+e ++
  PHY93_07810|PHY93_07810 114 LLELAK 119
                              666555 PP

>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.4   0.0     0.055   1.4e+02       1      28 [.      15      42 ..      15     132 .. 0.52
   2 !   15.4   0.0   3.1e-06    0.0079     133     207 ..     154     231 ..     150     277 .. 0.69

  Alignments for each domain:
  == domain 1  score: 1.4 bits;  conditional E-value: 0.055
                             EEEETTTSHHHHHHHHHHHHHB-SEEEE CS
          Polysacc_synt_2  1 vlvtGagGsiGselvrqilkkkpkkiil 28
                             vlv+Ga+G + s+l++  l+  ++ i +
  PHY93_07810|PHY93_07810 15 VLVAGAAGFVPSTLCEFYLNLGAHVIGI 42
                             5677777777777776666665554443 PP

  == domain 2  score: 15.4 bits;  conditional E-value: 3.1e-06
                              S--SHHHHHHHHHHHHHHHGGG--SSS--EE..EEEEE-EETT.GTTSSHHHHHHHHHTTSSEEE.S-TT-EEEEE-HH CS
          Polysacc_synt_2 133 nPtnvmGatKrlaekllqalakeseekktkf..vvvRfGNVlg.SrGSviplFkkqikeggpvtv.TdpemtRyfmtie 207
                               P + +  +Kr+ae l+++++++  + +t++  ++  +G  +    G vip F  q  +g+++tv  d + tR f   +
  PHY93_07810|PHY93_07810 154 GPRSCYDESKRFAEALTMSFHHKY-NVDTRIvrIFNTYGPRMRpNDGRVIPNFITQAMKGEDLTVyGDGSQTRSFCFST 231
                              68899999*********9999887.444444113446777776256******************944666777555444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (321 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       421  (0.0234815); expected 358.6 (0.02)
Passed bias filter:                      408  (0.0227564); expected 358.6 (0.02)
Passed Vit filter:                        35  (0.00195214); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.52u 0.25s 00:00:00.77 Elapsed: 00:00:00.42
# Mc/sec: 2295.87
//
Query:       PHY93_07815|PHY93_07815  [L=299]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.6e-35  122.3  42.9    8.2e-21   74.6  16.7    2.0  2  EamA      EamA-like transporter family


Domain annotation for each model (and alignments):
>> EamA  EamA-like transporter family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.0  18.3     1e-18   1.9e-14       1     136 [.       1     137 [.       1     138 [. 0.95
   2 !   74.6  16.7   4.6e-25   8.2e-21       1     135 [.     160     296 ..     160     298 .. 0.95

  Alignments for each domain:
  == domain 1  score: 54.0 bits;  conditional E-value: 1e-18
                     EamA   1 llgillallaalfwaiyfvls.killrkvspltltfvrfliagillliiallkegklaklslkdwllllllgllgtvlafllffya 85 
                              +lg++++++a l+wa+ +++    l++ +s  +++f   l+  +++l++++  ++ + + + +++++++++g++g++++ l+f++a
  PHY93_07815|PHY93_07815   1 MLGVFFVIIAGLLWAVDTLIRyPLLFSGISAERIVFTEHLFLVLFFLPLLFKDRRVIWQTKISSIFYFIVIGVFGSAIGTLCFTKA 86 
                              579*****************98888***************************9999967777789999****************** PP

                     EamA  86 lkktsasnaslitslePvftlilsvlllgekltlkqllgivlillGvllil 136
                              ++ +++s + l++ l+P+++  l++l+lgek+++  l+ ++++llG lli+
  PHY93_07815|PHY93_07815  87 FTMINPSLVILLQKLQPIISFTLASLFLGEKMKKPFLCWAGVALLGGLLIS 137
                              **********************************************99986 PP

  == domain 2  score: 74.6 bits;  conditional E-value: 4.6e-25
                     EamA   1 llgillallaalfwaiyfvlskil.lrkvspltltfvrfliagillliiallkegklaklslkd..wllllllgllgtvlafllff 83 
                              ++g+ll ++a+++w++++v+ k+l  + ++  ++ + rfl+++i++ ++a  ++g +  +++++  w  +ll+ ll+++l++++++
  PHY93_07815|PHY93_07815 160 MMGYLLTMVAVVSWGASTVFGKKLtAQGLDGSHIMAGRFLFGFIFMAFYAYANKGLM-HFDWQAivWGKILLMVLLSGLLGMYFYY 244
                              589******************88857888999*************************.88888866888899************** PP

                     EamA  84 yalkktsasnaslitslePvftlilsvlllgekltlkqllgivlillGvlli 135
                              ++lk++sa + +++  + P+ ++ + +++lg klt  q++g++l  lG ++i
  PHY93_07815|PHY93_07815 245 KGLKTISARVCAIAEMFFPLSAVTINWVFLGAKLTPVQMIGAGLLTLGSAVI 296
                              ************************************************9987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (299 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       702  (0.0391544); expected 358.6 (0.02)
Passed bias filter:                      218  (0.0121591); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.50u 0.22s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 2175.53
//
Query:       PHY93_16460|PHY93_16460  [L=90]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
    3.8e-05   24.0   0.0    6.7e-05   23.2   0.0    1.4  1  HTH_26      Cro/C1-type HTH DNA-binding domain
  ------ inclusion threshold ------
       0.15   12.1   0.6       0.34   11.0   0.1    1.7  2  Bac_DnaA_C  Bacterial dnaA protein helix-turn-helix


Domain annotation for each model (and alignments):
>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.2   0.0   7.5e-09   6.7e-05       1      58 [.      13      69 ..      13      70 .. 0.96

  Alignments for each domain:
  == domain 1  score: 23.2 bits;  conditional E-value: 7.5e-09
                   HTH_26  1 kLrelmadrgitkseLargtgisaatlsrlvkgkpervsldtLdkiCdaLgctpgDLl 58
                             +Lr l++++++ + +L+r+t i  + l+++++g +e  sl+ +  ++++++ +++DL+
  PHY93_16460|PHY93_16460 13 NLRSLLKEKEMAIVSLSRKTKIPLQILHGWLSG-VEPRSLKQIKIVAEYFDQSIDDLC 69
                             8********************************.899******************995 PP

>> Bac_DnaA_C  Bacterial dnaA protein helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.0      0.28   2.6e+03      18      27 ..      24      33 ..       7      37 .. 0.59
   2 ?   11.0   0.1   3.8e-05      0.34       5      29 ..      54      79 ..      52      81 .. 0.83

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 0.28
                             HHHS----CS CS
               Bac_DnaA_C 18 dlkskkRkke 27
                              ++s +Rk +
  PHY93_16460|PHY93_16460 24 AIVSLSRKTK 33
                             3444455544 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 3.8e-05
                             HHTHHHHTT--HHHHHS--.--CSSH CS
               Bac_DnaA_C  5 ieaVaeyfgvsvedlkskk.Rkkeiv 29
                             i++Vaeyf+ s++dl+ ++ +kk+i 
  PHY93_16460|PHY93_16460 54 IKIVAEYFDQSIDDLCFSSsKKKKIL 79
                             799************86654888775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (90 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       594  (0.0331307); expected 358.6 (0.02)
Passed bias filter:                      341  (0.0190195); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.43u 0.21s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 679.70
//
Query:       PHY93_07820|PHY93_07820  [L=584]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    4.6e-56  189.6   0.0    6.3e-56  189.2   0.0    1.2  1  NAD_synthase  NAD synthase
    2.2e-06   27.2   0.0    1.4e-05   24.6   0.0    2.0  1  CN_hydrolase  Carbon-nitrogen hydrolase
  ------ inclusion threshold ------
      0.016   14.9   0.0       0.03   14.0   0.0    1.4  1  Asn_synthase  Asparagine synthase
      0.031   13.6   0.0       0.06   12.7   0.0    1.4  1  Tic22         Tic22-like family
       0.14   12.1   0.2       0.34   10.8   0.2    1.7  1  EGL-1         Programmed cell death activator EGL-1
       0.14   11.9   0.0       0.22   11.2   0.0    1.3  1  ATP_bind_3    PP-loop family


Domain annotation for each model (and alignments):
>> NAD_synthase  NAD synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  189.2   0.0   2.1e-59   6.3e-56       3     241 ..     310     561 ..     308     562 .. 0.92

  Alignments for each domain:
  == domain 1  score: 189.2 bits;  conditional E-value: 2.1e-59
                              HHHHHHHHHHHHHCTTSEEEEEE-SSHHHHHHHHHHH....HHHTCGEEEEEE--SSSTTHHHHHHHHHHHHHHTSEEEE---HHH CS
             NAD_synthase   3 eelvdflkeyvkkagakgvvlGlSGGvDSslvaalav....kalgkenvlalllPssvsseedvedalalaenlgievktidikpi 84 
                              ++l   + +y  k++ k++ + lSGG+DSslv a+ +    + + +  + a+ +P+ +ss  ++  a  l++n+g++ +t++ik i
  PHY93_07820|PHY93_07820 310 DALILAISDYSLKNNIKKFTIALSGGMDSSLVLAILKimkdRSIYPMTIEAVFMPGFFSSSMSYDLAYDLCHNIGVKLTTMPIKFI 395
                              567788999999*******************9766541111455888999*********************************988 PP

                              HHHHHH....HHHHHH-HHHHHHHHHHHHHHHHHHHHHHHTEEEB---BHHHHTTT-S-TTTTT--SBETTTTS-HHHHHHHHHHT CS
             NAD_synthase  85 vrafeq....elkeakedlakgNlkaRiRmailyaianklnllvlgTgnksElvvGyfTkyGDgaadlapiaellKtevkeLakel 166
                               ++++     ++k +   l ++N+++R+R ++ ya +n+++++vl T+nksEl+vGy T+yGD  ++l  +++l+K+ev+eLa+ +
  PHY93_07820|PHY93_07820 396 HSTIRTvyrdSFKTELVGLSDENIQSRLRGTLIYARSNEVGSMVLNTSNKSELAVGYSTIYGDSVGALSVLGDLYKSEVFELARFI 481
                              877666333366666699******************************************************************** PP

                              T......--HHHHCS--B--SSTT-BHHHHHSS-HHHHHHHHT.HSSSS...HHHHHTTT--HHHHHHHHHHHHHTGGGGSS CS
             NAD_synthase 167 n......vPervlkkpPsAdLkpgqtDeeeLgikYdelDeiLk.lvekkkspeeiikekelpaevvekieklvkksehKrkl 241
                              n      +Pe+++ +pPsA+L+++q D ++L+ +Yd lD iL+ l+ ++ s e++ik k+ ++e+v k+++l+ kse+Krk+
  PHY93_07820|PHY93_07820 482 NqqydnmIPEEIISRPPSAELRENQEDAQSLP-PYDRLDPILEaLLSQRYSMEDLIK-KGHNKEEVIKVFQLLVKSEYKRKQ 561
                              ********************************.*********************999.9*********************96 PP

>> CN_hydrolase  Carbon-nitrogen hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.6   0.0   4.6e-09   1.4e-05      35     161 ..      34     165 ..      32     263 .. 0.69

  Alignments for each domain:
  == domain 1  score: 24.6 bits;  conditional E-value: 4.6e-09
                              EEEEETTTTTBS.........SSHHHHHHHHBHSSSHHHHHHHHHHHHHTEEEEEEEEEEEC...CTTEEEEEEEEEEEETTSEEE CS
             CN_hydrolase  35 LivlPElfitgy.........keeahfleaAeaglgetlallaalarkngiavviglierel...tngklqayntavlldldgklv 108
                              L ++PElf+tgy         ++ +++ ++   +  ++ +++++++ +   ++ +   ++ +    + ++   n ++ll++++k+ 
  PHY93_07820|PHY93_07820  34 LHLFPELFLTGYplqdlvlqkSFIDDYQAFLADLSLWSERQFKNASDNCALLLGGLSYQF-DsfgLPSQI--ENVIYLLEPGKKIR 116
                              568*********999999997555555544446666777777777666655555555555.459999999..************** PP

                              EEEE-SS--EECTTSCECCGHHTSCS-SSS-EEEETTEEEEEEEGGGGGSHHH CS
             CN_hydrolase 109 gkyrKlhLfpgeprpptaverelfepgdgipvfdtpvgkiGaaiCyeigfpel 161
                                y K  L    p+   + e+++f +g   + f+ +  +iG++iC++++f  l
  PHY93_07820|PHY93_07820 117 NLYTKQLL----PNYDIYEEKKYFTAGSVPATFKFKDKIIGLLICEDMWFSHL 165
                              *******8....67888999999999997777899999************754 PP

>> Asn_synthase  Asparagine synthase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   0.0   9.9e-06      0.03      20      45 ..     328     353 ..     325     390 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 9.9e-06
             Asn_synthase  20 vGalLSGGlDSSliaalaarqskspl 45 
                              +++ LSGG+DSSl+ a+++ + ++++
  PHY93_07820|PHY93_07820 328 FTIALSGGMDSSLVLAILKIMKDRSI 353
                              6789*************998776555 PP

>> Tic22  Tic22-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.0     2e-05      0.06      37      88 ..     402     452 ..     369     467 .. 0.76

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 2e-05
                    Tic22  37 isqeaegaaaataLssdevaktLaGvpvytvsnsnnefvlvsdpdgeksigl 88 
                              +  ++ +++  ++Ls ++++ +L G+ +y+ sn  + +vl +++++e ++g 
  PHY93_07820|PHY93_07820 402 VYRDSFKTEL-VGLSDENIQSRLRGTLIYARSNEVGSMVLNTSNKSELAVGY 452
                              4444444443.4*********************************9988875 PP

>> EGL-1  Programmed cell death activator EGL-1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   0.2   0.00011      0.34       1      10 [.     381     390 ..     381     390 .. 0.99

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00011
                              HHHHHHHHHH CS
                    EGL-1   1 HeIGtKLAaM 10 
                              H+IG+KL++M
  PHY93_07820|PHY93_07820 381 HNIGVKLTTM 390
                              9********9 PP

>> ATP_bind_3  PP-loop family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   7.4e-05      0.22       2      32 ..     328     358 ..     327     405 .. 0.67

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 7.4e-05
                              EEEE--SCHHHHHHHHHHHHHCTTTTTEEEE CS
               ATP_bind_3   2 vlvAvSgGlDSmaLllllaklkkklgiklva 32 
                              + +A+SgG+DS + l +l+ +k+++   +++
  PHY93_07820|PHY93_07820 328 FTIALSGGMDSSLVLAILKIMKDRSIYPMTI 358
                              789***************9998877663333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (584 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       384  (0.0214178); expected 358.6 (0.02)
Passed bias filter:                      345  (0.0192426); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.63u 0.26s 00:00:00.89 Elapsed: 00:00:00.44
# Mc/sec: 3955.95
//
Query:       PHY93_07825|PHY93_07825  [L=110]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.057   13.6   4.9      0.069   13.3   4.9    1.1  1  Kinesin_assoc  Kinesin-associated
       0.39   10.7   6.3       0.48   10.3   6.3    1.3  1  IL2            Interleukin 2
        1.7    7.1  17.6        1.8    7.0  17.6    1.0  1  FapA           Flagellar Assembly Protein A
        4.7    7.9  11.9    2.7e+02    2.3  11.9    2.1  1  YabA           Initiation control protein YabA
          9    6.5  10.3         49    4.2   6.3    2.9  2  DUF4145        Domain of unknown function (DUF4145)


Domain annotation for each model (and alignments):
>> Kinesin_assoc  Kinesin-associated
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   4.9   1.9e-05     0.069      12      97 ..      10      99 ..       2     109 .. 0.63

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 1.9e-05
            Kinesin_assoc 12 vrelkeeverlkdlllaqglediidseaeplkeglvll...aseraknlsavtaavaglspssslsal.ssraesvssleerivfspa 95
                              ++lk+e+e+l++  l+qgl +   se ++l++++  +   + ++ak++++ ++    + ++  ++al +++a++  +++++++   +
  PHY93_07825|PHY93_07825 10 FQDLKQEIEKLRKKHLVQGLVEKFYSEKKSLEKRIEKTvsdEMKKAKKFMTEQKKELDIIQKKVEVALkKKKATTKKKVAKKVAPKTT 97
                             579*****************99999998888887655533433334444444444444444444444404455566777777754444 PP

            Kinesin_assoc 96 se 97
                             ++
  PHY93_07825|PHY93_07825 98 KK 99
                             43 PP

>> IL2  Interleukin 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.3   6.3   0.00013      0.48      29      96 ..       4      70 ..       1      97 [. 0.86

  Alignments for each domain:
  == domain 1  score: 10.3 bits;  conditional E-value: 0.00013
                             HHHHHHHHHHHHHHHHBTT--HHHHTCEEEE-BSS--SGGGHHHHHHTHHHHHHHHHHHHHHSS--TT CS
                      IL2 29 eqllldlqlllekvknyknlklsrmltfklylPkkatelkhlqcleeelkpleevlnlaqsknfeled 96
                             +qll+ +q l ++++  ++++l + l  k+y  kk+ e +  + + +e+k  ++ +  +q+k++++ +
  PHY93_07825|PHY93_07825  4 KQLLKPFQDLKQEIEKLRKKHLVQGLVEKFYSEKKSLEKRIEKTVSDEMKKAKKFM-TEQKKELDIIQ 70
                             799************************************************99988.46667666544 PP

>> FapA  Flagellar Assembly Protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.0  17.6   0.00051       1.8     340     438 ..       4     107 ..       1     110 [] 0.66

  Alignments for each domain:
  == domain 1  score: 7.0 bits;  conditional E-value: 0.00051
                     FapA 340 keleeeleeleeeleklkkk......ikklpklkaekqlesekkeqlk.klletkeklkeeleeleeelkelkeeleskkeeakik 418
                              k+l +  ++l++e+ekl+kk      ++k+ +  ++k le+++++++  +++++k+ ++e+ +el+ ++k+++  l++kk+ +k k
  PHY93_07825|PHY93_07825   4 KQLLKPFQDLKQEIEKLRKKhlvqglVEKFYS--EKKSLEKRIEKTVSdEMKKAKKFMTEQKKELDIIQKKVEVALKKKKATTKKK 87 
                              67777888888888888888875444444444..2445566666665414555555556666666666667777777776666*** PP

                     FapA 419 vnkeiypgvkikigkkklii 438
                              v k++ p+++ k+  k+++ 
  PHY93_07825|PHY93_07825  88 VAKKVAPKTTKKVAAKTTKK 107
                              **********9998777665 PP

>> YabA  Initiation control protein YabA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.3  11.9     0.075   2.7e+02       6      52 ..      33      77 ..       1     107 [. 0.48

  Alignments for each domain:
  == domain 1  score: 2.3 bits;  conditional E-value: 0.075
                             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                     YabA  6 lfdkleeleeqleelleeleelkeelaelleenaeLeleneklrerl 52
                             ++++ ++le+++e++++  +e+k++ + ++e+ +eL + ++k+   l
  PHY93_07825|PHY93_07825 33 FYSEKKSLEKRIEKTVS--DEMKKAKKFMTEQKKELDIIQKKVEVAL 77
                             22333334444443333..2344444444444444444444444444 PP

>> DUF4145  Domain of unknown function (DUF4145)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.2   0.1     0.028        99      34      49 ..      10      25 ..       1      28 [. 0.73
   2 ?    4.2   6.3     0.014        49      21      57 ..      25      58 ..      23     110 .] 0.91

  Alignments for each domain:
  == domain 1  score: 3.2 bits;  conditional E-value: 0.028
                  DUF4145 34 gkdLknkiealvekgv 49
                              +dLk++ie+l++k  
  PHY93_07825|PHY93_07825 10 FQDLKQEIEKLRKKHL 25
                             359*********9975 PP

  == domain 2  score: 4.2 bits;  conditional E-value: 0.014
                  DUF4145 21 aLEkllkdkgiakgkdLknkiealvekgvipeklkel 57
                             +++ l+ +++  ++k+L+++ie+ v++++  +k k+ 
  PHY93_07825|PHY93_07825 25 LVQGLVEKFY-SEKKSLEKRIEKTVSDEM--KKAKKF 58
                             5899999***.9999***********994..666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (110 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      4041  (0.225389); expected 358.6 (0.02)
Passed bias filter:                      588  (0.032796); expected 358.6 (0.02)
Passed Vit filter:                        82  (0.0045736); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.48u 0.24s 00:00:00.72 Elapsed: 00:00:00.41
# Mc/sec: 801.93
//
Query:       PHY93_07830|PHY93_07830  [L=347]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (347 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       198  (0.0110436); expected 358.6 (0.02)
Passed bias filter:                      111  (0.00619109); expected 358.6 (0.02)
Passed Vit filter:                         5  (0.000278878); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.21s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 2586.27
//
Query:       PHY93_18070|PHY93_18070  [L=74]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.5e-08   33.9   0.1    1.7e-08   33.8   0.1    1.1  1  Bmp       ABC transporter substrate-binding protein PnrA-like
  ------ inclusion threshold ------
      0.033   14.6   0.0      0.034   14.6   0.0    1.1  1  DUF1889   Domain of unknown function (DUF1889)


Domain annotation for each model (and alignments):
>> Bmp  ABC transporter substrate-binding protein PnrA-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   33.8   0.1   1.9e-12   1.7e-08       3      49 ..      28      72 ..      26      74 .] 0.92

  Alignments for each domain:
  == domain 1  score: 33.8 bits;  conditional E-value: 1.9e-12
                             EEEEECSS-TTTSCHHHHHHHHHHHHHHHCTTEEEEEEEEC.GGGHH CS
                      Bmp  3 kvavlvegtidDksfnessyeGirrlkkeqnieliskesslltdedy 49
                             + +v+++g ++D+sfn+s++eG+++ kke +i+  ++es++  d+dy
  PHY93_18070|PHY93_18070 28 VGMVTDVGGVNDQSFNQSAWEGLQKSKKELGIKASYQESRQ--DADY 72
                             679************************************99..6776 PP

>> DUF1889  Domain of unknown function (DUF1889)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.0   3.8e-06     0.034      26      74 ..      23      71 ..       3      74 .] 0.82

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 3.8e-06
                  DUF1889 26 dkaldfigamdvsaptpssmnestakgifkylkelgvpasaaditarad 74
                             dk + +    dv      s+n+s+  g+ k  kelg+ as  +    ad
  PHY93_18070|PHY93_18070 23 DKLVRVGMVTDVGGVNDQSFNQSAWEGLQKSKKELGIKASYQESRQDAD 71
                             5655555567999999************************988777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (74 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       492  (0.0274416); expected 358.6 (0.02)
Passed bias filter:                      346  (0.0192983); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.41
# Mc/sec: 542.02
//
Query:       PHY93_18075|PHY93_18075  [L=408]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.8e-40  138.8  22.1    9.8e-22   77.7   4.1    2.0  2  OEP       Outer membrane efflux protein
  ------ inclusion threshold ------
        2.2    8.7  12.3       0.61   10.4   0.3    3.4  4  DUF5638   Family of unknown function (DUF5638)


Domain annotation for each model (and alignments):
>> OEP  Outer membrane efflux protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   67.4  10.1   1.5e-22   1.4e-18       1     169 [.      26     186 ..      26     205 .. 0.94
   2 !   77.7   4.1   1.1e-25   9.8e-22       3     185 ..     228     404 ..     226     407 .. 0.92

  Alignments for each domain:
  == domain 1  score: 67.4 bits;  conditional E-value: 1.5e-22
                      OEP   1 ldellalalennpdlkaaeaeieaaeanlkaakaeflPtlslsgsygyegngsegggddggtgttsvgltlsqplfdggkrrarvk 86 
                              l e++++al  n+  ++a+  i+++ +++++ ++++lP +s  g y +e+  s   +         +gl++sq +++gg+ ++ + 
  PHY93_18075|PHY93_18075  26 LKESYESALHTNQNENIAQSLINQSFEQKRQFQGNYLPVISGRGKYLKEEKISPALNA--------IGLNFSQSIYKGGRDSYLID 103
                              67999********************99999999999*****************99987........******************** PP

                      OEP  87 aakaqleaaeaqleqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislldvlqaqvrllqarael 169
                              +a  ++ +ae+q+   r +l ++v qay+ + l+ + ++ +e + k+++++++ +++r ++G++   ++lqa+++l+ a+a l
  PHY93_18075|PHY93_18075 104 SADKNIAIAENQKIVDRITLYINVIQAYYTYFLTLNDYKNLELLKKQSKERVDETRKRVQVGRSRRGELLQAEAQLATAEALL 186
                              ******************************************************************88**********99866 PP

  == domain 2  score: 77.7 bits;  conditional E-value: 1.1e-25
                      OEP   3 ellalalennpdlkaaeaeieaaeanlkaakaeflPtlslsgsygyegngsegggddggtgttsvgltlsqplfdggkrrarvkaa 88 
                                l++a++ +pd+k+ e++i++ae nl+ +k+ ++Ptl+l ++y  +   +   + d++     +gl l++pl+ gg +++ v+++
  PHY93_18075|PHY93_18075 228 AYLDTAYS-RPDVKSRELKIQQAELNLDFSKSFYYPTLNLDSNYYLNKRAGALHNSDWD-----IGLVLNIPLYEGGVTKSLVRES 307
                              56788887.8***********************************98777776666665.....********************** PP

                      OEP  89 kaqleaaeaqleqarqqlrlevaqaylqlllakeqlelaeealklaekalelaearykaGlislldvlqaqvrllqaraelaeaeq 174
                               +++e+a ++l++ + +++l++   y  +     q+++ + al+  +k +e a + y++Gl+s ldvl   + +l+++++ ++ + 
  PHY93_18075|PHY93_18075 308 VSKKEQAIYTLADFKKSVELDITVKYETYHRYLDQVKAFDLALDKTKKSYEEAVRDYRLGLVSNLDVLASLNLYLDSKINSENTKI 393
                              ****************************************************************9999999999999998888888 PP

                      OEP 175 qlqlaraqLey 185
                              q  l++  Le+
  PHY93_18075|PHY93_18075 394 QAMLNLKLLEA 404
                              88877777766 PP

>> DUF5638  Family of unknown function (DUF5638)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.9   0.1      0.94   8.4e+03      40      55 ..      30      45 ..      25      52 .. 0.49
   2 ?    4.8   0.5    0.0037        34      54      90 ..     125     161 ..     102     165 .. 0.80
   3 ?   -0.7   0.1       0.2   1.8e+03      29      73 ..     219     242 ..     203     255 .. 0.55
   4 ?   10.4   0.3   6.8e-05      0.61      50      94 ..     323     367 ..     310     373 .. 0.80

  Alignments for each domain:
  == domain 1  score: -2.9 bits;  conditional E-value: 0.94
                             HHHHHHT--SHHHHHH CS
                  DUF5638 40 Ynesftkakkektkee 55
                             Y+++ + +++e+ +++
  PHY93_18075|PHY93_18075 30 YESALHTNQNENIAQS 45
                             4444444444444433 PP

  == domain 2  score: 4.8 bits;  conditional E-value: 0.0037
                              HHHHHHHHHHHHHHHHHHTTSS-HHHHHHHHTTT--- CS
                  DUF5638  54 eeiveeYeelvlllsqvkngeisadeAleaiekktes 90 
                               ++++ Y  ++l+l++ kn e+  ++ +e ++++ + 
  PHY93_18075|PHY93_18075 125 INVIQAYYTYFLTLNDYKNLELLKKQSKERVDETRKR 161
                              5788899999999999999999888888888877665 PP

  == domain 3  score: -0.7 bits;  conditional E-value: 0.2
                              HHHHHHHHHHHHHHHHHT--SHHHHHHHHHHHHHHHHHHHHHHTT CS
                  DUF5638  29 ikkqlqeiktyYnesftkakkektkeeiveeYeelvlllsqvkng 73 
                              + ++ q++++y ++++++   ++                      
  PHY93_18075|PHY93_18075 219 VPEENQRVQAYLDTAYSRPDVKS---------------------R 242
                              33444556666666665444333.....................3 PP

  == domain 4  score: 10.4 bits;  conditional E-value: 6.8e-05
                              HHHHHHHHHHHHHHHHHHHHHHTTSS-HHHHHHHHTTT---HHHH CS
                  DUF5638  50 ektkeeiveeYeelvlllsqvkngeisadeAleaiekktesrkid 94 
                              ++ +  i+ +Ye ++  l qvk+  + +d+ +++ e++   ++++
  PHY93_18075|PHY93_18075 323 KSVELDITVKYETYHRYLDQVKAFDLALDKTKKSYEEAVRDYRLG 367
                              4445689************************99998887766665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (408 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       917  (0.0511462); expected 358.6 (0.02)
Passed bias filter:                      437  (0.0243739); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.55u 0.21s 00:00:00.76 Elapsed: 00:00:00.40
# Mc/sec: 3043.82
//
Query:       PHY93_18080|PHY93_18080  [L=1019]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
   1.3e-275  916.9  13.7   1.5e-275  916.7  13.7    1.0  1  ACR_tran  AcrB/AcrD/AcrF family
    0.00033   19.7  14.8       0.02   13.8   1.8    2.9  3  MMPL      MMPL family


Domain annotation for each model (and alignments):
>> ACR_tran  AcrB/AcrD/AcrF family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  916.7  13.7  1.7e-279  1.5e-275       2    1020 ..       4    1012 ..       3    1013 .. 0.98

  Alignments for each domain:
  == domain 1  score: 916.7 bits;  conditional E-value: 1.7e-279
                               HHHHHTSHHHHHHHHHHHHHHHHHHHCTSSBESSSS-S--EEEEEEE-TTC-HHHHHHHTHHHHHCTCTS-TTEEEEEEEETTS CS
                 ACR_tran    2 ikffikrpifalvlaliilllGilsilslPvdalPeiapptvqvstsypGaspevvesevtqplEqalngldglkyvsSqSseg 85  
                               ++++ik+p+fa++l+++++l+G ls++++ v++lP+++ p ++++++  Ga+p+v+es v++ lE+a++ ++g+++++S+ + g
  PHY93_18080|PHY93_18080    4 SEISIKKPVFAWMLMVAMMLFGFLSFREMGVSQLPDVDLPVININVTWEGAAPDVIESDVVDTLESAVMSVEGVETITSSIKRG 87  
                               6899******************************************************************************** PP

                               EEEEEEEESTTS-HHHHHHHHHHHHHHHGGGS-HHHHHH-EEEEEEECCECEEEEEEESSSSS-HHHHHHHHHHHTHHHHHTST CS
                 ACR_tran   86 lssitltFedgtdidiArqqvqnrlqeaknkLPeevqepgiskiktssseilvlavtskdgsltktelrdlaetnikdqLsrve 169 
                               +++it++F  ++++d+A +++qn+l++a++ LP +v +p +sk ++++++i+ l v+ +  +lt+++l +++  n++d+   ++
  PHY93_18080|PHY93_18080   88 TANITVEFGLNKNLDVAVNDIQNKLSQAQRRLPTNVDPPVVSKSNPEDQPIMWLSVSDD--TLTPKDLMTYLRDNVRDKFLTTN 169 
                               ********************************************************999..*********************** PP

                               TEEEEEESS.-SEEEEEEE-HHHHHCTT--HHHHHHHHHHHSSB-EEEEETT-SB-EEEEESB---SHHHHHTSEEE....ETT CS
                 ACR_tran  170 GVgdvqliGgsekavriwldpqklaklgltltdvvsalkeqnvnvaaGqlegqeeelliraqgqlqsaediekiivk....nqd 249 
                               GV+d+ql+G  ++++r+w+d  kl++l+lt+td++++++++ ++ ++Gql++++ e+ +r+ g+ + ++++ k+ ++    + +
  PHY93_18080|PHY93_18080  170 GVADIQLSGYVDPNLRVWVDDRKLNSLELTVTDIINTITSEHAELPSGQLDNNKIEFAVRTLGEATDVNEFSKLSINkrgsSPN 253 
                               ****************************************************************************98888889 PP

                               SCEEEHHHCEEEEEEESSSSSEEEETTEEEEEEEEEEETTSBHHHHHHHHHHHHHCCGGGSSTTEEEEEEEESHHHHHHHHHHH CS
                 ACR_tran  250 gskvrlrDvAkVelgaeeerlaatfngkpavllevkklpganaievakavkekleeLkeslPegveivvvydrtefvrasieeV 333 
                                +++ l+ vA++e+g ++ + ++++ gk  v++++kk+ g+n+++va++v++k++eL+++lP  ++i v yd t+f+++s++e 
  PHY93_18080|PHY93_18080  254 YTPIALGRVARIEDGLNDVTRRSRVMGKSSVGIGIKKQRGSNSVAVAESVYKKIDELNKFLPPTMKIGVNYDSTRFIKESVREL 337 
                               99********************************************************************************** PP

                               HHHHHHHHHHHHHHHHHHHSSHHHHHHHHHHHHHHHHHHHHHHHHTT--BCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT CS
                 ACR_tran  334 vktLleaivLvvlvvflFLqnlratlipaiavPlsllgtfavlkalgfslNlltLfgLvlAiGlvvDdAiVvvEnierkleeeg 417 
                               ++tL+++++L +lv + FL+++ at  + +a+P s+lg f+vlka++f+lN +tL gL l iG+vvDdAi v+Eni+r+ e+ g
  PHY93_18080|PHY93_18080  338 SFTLILSAILTALVCWAFLGSWSATFNVILAIPTSILGSFVVLKAMNFTLNYFTLLGLSLSIGIVVDDAIMVLENIFRHFEM-G 420 
                               **********************************************************************************.* PP

                               S-HHHHHHHHHHHHHHHHHHHHHHHHHHCTGGGGSBHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHS---STT-CTSH CS
                 ACR_tran  418 ekpleaalksmkeiqgalvaialvllavflPilflgGveGklfrqfaltivlaillsvlvaltltPalcallLkerkeekekkf 501 
                               +++ +a+l ++kei++a +a ++ ++a+flPi+ ++G++Gk f qfa+ti++a+ ls++ altltP+ ca ++++ +++   +f
  PHY93_18080|PHY93_18080  421 KDKTRASLDGAKEITFAAIAATIAIIAIFLPIAYMKGIIGKYFYQFAVTISVAVFLSLIEALTLTPMRCAQFMSHGSKRS--RF 502 
                               **************************************************************************999977..59 PP

                               HHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHHHHHHHHHHHHHHCS-BESS----TSEEEEEEE-STTB-HHHHHHHHHHHHH CS
                 ACR_tran  502 frefnrlfealeraYakllekvlrhravvllvalvllvlsvllfvripkeflPeedegvlvtsvqlppgvsleqtqkvlkqvek 585 
                                +  ++ f++ e+ Y+k+l +v++hr +++ + ++++v+s  l++++ kef+P +d+ ++++++++++g+sl+ + +++k+ve 
  PHY93_18080|PHY93_18080  503 GQMMDNAFSWFEKLYKKTLPFVIKHRLITIFISIIIFVISSTLVMKLRKEFVPPQDQSSIFLIIKTKEGSSLDFSDNKVKEVEA 586 
                               999********************************************************************************* PP

                               HHHTTTTEEEEEEEECECSSE..ECCCEEEEEEEES-GCGS-SGGGSHHHHHHHHHHHCTTSTSSEEEEEETTSSCCCSSSSCE CS
                 ACR_tran  586 ilkekpevesvfavtGfaesgdtagpnsakvfisLkpekerkeeeksvealierlrkelkkipganvellapiqlreletlsgv 669 
                               +lk+ pe+e+ f   G a        +s+++f +Lk +k+r   + s+++lie  rk ++k++g++v+++++    +    sg+
  PHY93_18080|PHY93_18080  587 YLKNRPEIERSFVAIGGAGG---GDSSSSIAFLTLKSKKDR---KYSQQELIEIYRKDFRKLQGVRVIVQDTSLGAI--GGSGR 662 
                               ************99997444...588999************...89********************99998877776..66777 PP

                               EEEEEE.SSSSHHHHHHHHHHHHHHHHCCSTTEEEEEESS-S-EEEEEEEE-HHHHHHCTCSHHHHHHHHHHHHTTEEEEEEEE CS
                 ACR_tran  670 rselqvklfgddleaLseaaeqllaalkelpelsdvrseqqedqpqlqveidrekaarlGvsisdindtletalggsyvndfie 753 
                                + +++ ++g++ ++L +++++ ++ +  +    dv s++ e++++l++ ++r+ka  +G+sisd + t+++ +gg+++++f +
  PHY93_18080|PHY93_18080  663 GFPIEFSIAGNEWDKLIASSKATMKDMTDSGVFVDVDSNYRENVKELNIIPNRDKARLHGISISDLGITVNALVGGAVIGKFTQ 746 
                               77777788**************************************************************************** PP

                               TTEEEEEEEEE-GGGSSSGGGGCCSEEEETTSCEEEGGGTEEEEEEEE-SEEEEETTCEEEEEEEEESTTS-HHHHHHHHHHHC CS
                 ACR_tran  754 egrrvkvvvrleedlrsspedlkklkvrnkkgkmvplsavakieeekgpnsierengsrsvvisgnvaegdslseaeeavekia 837 
                               +g+r+++ +rle+ ++ ++e +k++k+rn+ g++v++s++ +++ ++g + i+r+++ r++ + +n+++g+s+  a e  + +a
  PHY93_18080|PHY93_18080  747 NGHRYDIRIRLENIKADDIERIKAIKLRNNRGELVRISDIGEVKFKDGVQAITRQERARAISVYANIKAGYSQASALELAKTMA 830 
                               ************************************************************************************ PP

                               TT..SSTTEEEEEEHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHTSSSTCHHHHTTHHHHHHHHHHHHHHTT--BSHHHHHH CS
                 ACR_tran  838 kkvklpegvtiewtgqaeqeqeasnsllilvalalllvflvLaalyeslsepllilltvPlalvGallalllrglelsviaqvG 921 
                               +k +l  g+++  +g+a+ ++e+ +sl ++++l + + ++vLa +++s+ +p+++l+ +P+++ Ga++al+l ++++++++++G
  PHY93_18080|PHY93_18080  831 SK-HLFFGAKVIESGSAKTFRESFESLIFVLILGIAVSYMVLASQFNSFFDPITVLVALPFSVSGAFVALYLKNQSINIYSLIG 913 
                               **.********************************************************************************* PP

                               HHHHHHHHHHHHHHHHHHHHHHHHTTTTCHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHCT-STTHHHHHHHHHHHHHHHHHH CS
                 ACR_tran  922 lilliGlavkNaillvefakelrekegksleeaileaakeRLrPiLMTalaailGvlPLalstgaGselqqplgivvlgGlvts 1005
                               +ill+G+++kN illv+f +++r++e+k++++a lea+ +RLrPi+MT+ a+i G++P a++ g G+e+ +p+++ v+gG+++s
  PHY93_18080|PHY93_18080  914 IILLMGIVKKNSILLVDFTNQVRDHEKKNIHDALLEACPKRLRPIIMTSFATIAGAIPAAFAFGPGAESLSPMAMSVIGGVLVS 997 
                               ************************************************************************************ PP

                               HHHHHHHHHHHHHHH CS
                 ACR_tran 1006 tvLtLllvPvlYvlv 1020
                               t+LtLl+vP++Y l+
  PHY93_18080|PHY93_18080  998 TFLTLLVVPAIYSLL 1012
                               ************986 PP

>> MMPL  MMPL family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.3   7.2   0.00011      0.96     146     297 ..     338     487 ..     326     515 .. 0.72
   2 ?   -2.3   0.0      0.19   1.7e+03      83     130 ..     557     604 ..     543     606 .. 0.86
   3 !   13.8   1.8   2.3e-06      0.02     105     305 ..     821    1015 ..     767    1019 .] 0.71

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.00011
                     MMPL 146 klievvtlvvilviLlivyrSlvaallplltvvvsllaalglvlilalllglelstfvlgllvvlliavGtDYallLvsRyreela 231
                               ++ ++++++ +++    ++S  a + ++l + +s+l ++ +     ++  ++l+ f+l l   l i++ +D a++++  +    +
  PHY93_18080|PHY93_18080 338 SFTLILSAILTALVCWAFLGSWSATFNVILAIPTSILGSFVV----LKAMNFTLNYFTL-LGLSLSIGIVVDDAIMVLENIFRHFE 418
                              555566666666666666666666666666666666555433....3333455555554.56678899999*************** PP

                     MMPL 232 agedreeaviravastgkvvtaaGltvaiamlg...LvvarlpvlaqvGvaialGvlvdvlivlTllPA 297
                               g+d+ +a  +  + +  + +aa++ +++ +l    +  +  +++ q++v+i+++v++++  +lTl+P 
  PHY93_18080|PHY93_18080 419 MGKDKTRASLDGAKEITFAAIAATIAIIAIFLPiayMKGIIGKYFYQFAVTISVAVFLSLIEALTLTPM 487
                              ****988877766665555555554444444442447777789************************95 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 0.19
                     MMPL  83 kDgkaaralvtlegdpgsteadesvaairaaveearpleglkvevtGp 130
                              +D++++ ++++++  ++ + +d++v++++a +++ ++ e   v ++G 
  PHY93_18080|PHY93_18080 557 QDQSSIFLIIKTKEGSSLDFSDNKVKEVEAYLKNRPEIERSFVAIGGA 604
                              799999999999999999999***********9999999999999886 PP

  == domain 3  score: 13.8 bits;  conditional E-value: 2.3e-06
                     MMPL  105 esvaairaaveearpleglkvevtGpaatladlrdasdrdlklievvtlvvilviLlivyrSlvaallplltvvvsllaalglv 188 
                               ++++  ++++++     g+kv  +G+a t+++    s ++l ++ +++++v  ++L+  + S+  ++ +l+   +s+  a+  v
  PHY93_18080|PHY93_18080  821 SALELAKTMASKHL-FFGAKVIESGSAKTFRE----SFESLIFVLILGIAVSYMVLASQFNSFFDPITVLVALPFSVSGAF--V 897 
                               44444444444444.88999999999999999....7789999999********************988866666654444..5 PP

                     MMPL  189 lilalllglelstfvlgllvvlliavGtDYallLvsRyreelaage.dreeavirav.astgkvvtaaGltvaiam.lgLvva. 268 
                               ++  +++ +++++    + ++ll+++     +lLv    + +++++ + ++a+ +a  ++  + ++ + +t+a+a+ +++++  
  PHY93_18080|PHY93_18080  898 ALYLKNQSINIYSL---IGIILLMGIVKKNSILLVDFTNQVRDHEKkNIHDALLEACpKRLRPIIMTSFATIAGAIpAAFAFGp 978 
                               56667767776665...4678899999******9975444444333033459999983455678889999*****944577753 PP

                     MMPL  269 rlpvlaqvGvaialGvlvdvlivlTllPAllvllGra 305 
                                 ++l+ +++ +  Gvlv+++++l ++PA+ +ll+  
  PHY93_18080|PHY93_18080  979 GAESLSPMAMSVIGGVLVSTFLTLLVVPAIYSLLSPN 1015
                               689******************************9876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1019 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1073  (0.0598472); expected 358.6 (0.02)
Passed bias filter:                      530  (0.029561); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.86u 0.29s 00:00:01.14 Elapsed: 00:00:00.48
# Mc/sec: 6391.23
//
Query:       PHY93_18085|PHY93_18085  [L=164]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.7e-09   37.6   3.9      4e-09   37.0   3.9    1.3  1  CxxCxxCC  Putative zinc- or iron-chelating domain


Domain annotation for each model (and alignments):
>> CxxCxxCC  Putative zinc- or iron-chelating domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.0   3.9   2.2e-13     4e-09       1      70 [.      30     103 ..      30     118 .. 0.75

  Alignments for each domain:
  == domain 1  score: 37.0 bits;  conditional E-value: 2.2e-13
                 CxxCxxCC   1 eCke.CgaCCkelkvklteedlerlkaaevaeeeeeskkiak......adgrCvfldeetklCkiYeeRpkicrlfp 70 
                              +C e C +CC+ +++++ + + erl a   +++ e++ ++++      ++g+C+fl ++  +C++Ye Rp icr++ 
  PHY93_18085|PHY93_18085  30 KCAEgCSKCCY-TDISIFKVESERLLAWFNSQSAETKIELQTlwkrpvEKGACTFLYND--RCSVYEARPVICRTQG 103
                              69888******.8888888777777544443444444444446779*99**********..9************875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (164 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       622  (0.0346924); expected 358.6 (0.02)
Passed bias filter:                      397  (0.0221429); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.45
# Mc/sec: 1097.20
//
Query:       PHY93_18090|PHY93_18090  [L=105]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    4.8e-25   88.0   7.8    5.7e-25   87.8   7.8    1.1  1  Multi_Drug_Res  Small Multidrug Resistance protein
  ------ inclusion threshold ------
        1.6    8.8  10.2        2.4    8.3  10.2    1.3  1  FUSC_2          Fusaric acid resistance protein-like


Domain annotation for each model (and alignments):
>> Multi_Drug_Res  Small Multidrug Resistance protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   87.8   7.8   6.3e-29   5.7e-25       1      93 []       1      93 [.       1      93 [. 0.99

  Alignments for each domain:
  == domain 1  score: 87.8 bits;  conditional E-value: 6.3e-29
                             XX-HHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHH--------HH CS
           Multi_Drug_Res  1 mnwvllvlAillevvgailLklsegftkltpsllvivgygisfllLskalkslpvsvAYavwsGiGtvlivlvgillfgeslslkkli 88
                             mnw++l++A+++e++g+i+Lk s+gf+k  p+l+vivgy+++ +lLs   k++p++++Ya+ws++G+++++l+ +++f e+ +  +l 
  PHY93_18090|PHY93_18090  1 MNWFYLLIAVIAEIFGTISLKHSNGFQKILPTLGVIVGYALATYLLSIVCKNIPIGIVYALWSAVGIIGLLLIDHYVFLEKYNYFQLS 88
                             8*************************************************************************************** PP

                             HHHHH CS
           Multi_Drug_Res 89 glali 93
                             gl+li
  PHY93_18090|PHY93_18090 89 GLMLI 93
                             ***98 PP

>> FUSC_2  Fusaric acid resistance protein-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3  10.2   0.00026       2.4      37      97 ..      29     102 ..       2     105 .] 0.61

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.00026
                   FUSC_2  37 vqRilGtvlGavlallllyllpgnlalallvfll..vfli........afflkrny...alafifltllallly 97 
                              +  +lG+++G +la  ll ++ +n+++ ++ +l+  v +i         f+ k+ny   ++ ++++t +++l +
  PHY93_18090|PHY93_18090  29 ILPTLGVIVGYALATYLLSIVCKNIPIGIVYALWsaVGIIglllidhyVFLEKYNYfqlSGLMLIVTGSLILNF 102
                              33468999999999999999999966665544442244455555676455557777766666666666666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (105 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       555  (0.0309554); expected 358.6 (0.02)
Passed bias filter:                      216  (0.0120475); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.39u 0.24s 00:00:00.63 Elapsed: 00:00:00.40
# Mc/sec: 795.90
//
Query:       PHY93_18095|PHY93_18095  [L=555]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    1.6e-13   50.8   0.0    2.1e-13   50.4   0.0    1.1  1  Amino_oxidase  Flavin containing amine oxidoreductase
    8.7e-07   29.1   0.0    1.8e-06   28.1   0.0    1.6  1  NAD_binding_8  NAD(P)-binding Rossmann-like domain
     0.0027   17.4   0.0     0.0041   16.7   0.0    1.4  1  DAO            FAD dependent oxidoreductase
  ------ inclusion threshold ------
      0.023   13.9   0.0      0.048   12.9   0.0    1.4  1  Thi4           Thi4 family
      0.063   12.4   0.0      0.095   11.8   0.0    1.2  1  FAD_binding_2  FAD binding domain


Domain annotation for each model (and alignments):
>> Amino_oxidase  Flavin containing amine oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   50.4   0.0   5.9e-17   2.1e-13       1     425 [.     103     529 ..     103     546 .. 0.74

  Alignments for each domain:
  == domain 1  score: 50.4 bits;  conditional E-value: 5.9e-17
                              HHHHHHHHHHHHTTEEEEEEESSSSSBTTS-EEEETTEEEESS--EEET..TTHHHHHHHHHTTCCCCEEEESCCGCEEEEETTEE CS
            Amino_oxidase   1 laGLaaArqLlsaGfdVtvlEardrvGGRirtvrsdGylielGamwftg..agnpllellkelgledslslpdpgapkrvlskggr 84 
                              ++GL+ A++L++   d ++lE +  +GG    +  +  ++  Ga  +t   +++ +  +lk+lgl ++l+ ++ + ++ ++s++ +
  PHY93_18095|PHY93_18095 103 MSGLISAYKLQNL--DPLILEQDVYFGGNSKGEDYEQSIFSIGAAYITIpdKNSGIELMLKDLGLFNELK-KEED-EDVKVSFQSK 184
                              8*********987..*********************************99999*************9987.4444.6777777777 PP

                              CC............TTEECHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHH..........HHHCCCCHHHHHHHHHCHHHHHH CS
            Amino_oxidase  85 ef............pgdlspvpaewealleqgalsaellsleeklrlgleall..........qktldeldldskslaesleelgr 148
                                             +d+ +v++e+++  e                      +            +++  +lds s++ +l ++++
  PHY93_18095|PHY93_18095 185 LMkdfwlgasdpthAEDFIKVDKELRRIYE--------------------NAFpdipwkpdsaITESEFNRLDSMSFEKWLTATFG 250
                              766666666666666666666666555555....................444444444443222333348999************ PP

                              HHHHHHHHHHHHHHHHHHHHHHHHHHCHTSTTTTCBHHHHTCCCCHHHHHTSCCCEETTHTHHHHHHHHH....TTTTEEEETSEE CS
            Amino_oxidase 149 repgdvevwdrliepelfaklefasglfagdpselsaklalpllwelegfggslllprgGlsqlpealae....elrgldirlntr 230
                                 ++  +++++ +        ++   f++ ++elsa     +l ++  + +++l + gG +++ ++l e    + +++++r ++ 
  PHY93_18095|PHY93_18095 251 VVHPH--IMEYFQL--------YCWSSFNASIDELSAA---QALNFVASEVDGVLALPGGNAAITQRLFErllaSTSKNSLRAGAM 323
                              *9999..8999999........6777777777666665...334444445555555559*99999999998998************ PP

                              EEEEEE.ETTCEEEEETTSTEE....EESEEEE-S-HHHHHSSEEES.CCSHHHHHHHHHSEEEEEEEEEEEESSGGSGCSTS.E. CS
            Amino_oxidase 231 Vkeikr.egdgvtvtledgevv....eaDaVvvTvplgvlkailfsP.plpdekaeairnlgfgsvnkvilefdrkfwednal.g. 308
                              V +++  ++++v++t+ed   +    +aD ++v++p  v+k   f   + p+  ++ i+++ + +  ++   ++++f  +  + + 
  PHY93_18095|PHY93_18095 324 VLRVEAkSENEVWITYEDAAGLiktiSADFCIVASPKFVAK---FIVkGIPENQTAIIDQMNYRGYLVCNAIYKGAFESPAYDvYc 406
                              ******99999*********999******************...666488***************************333333533 PP

                              CE.....CECCCEEETTTEEEEECCECCCSTTTEEEEEEEEEC...HHHHHHHTTS.-HHHHHHHHHHHHHHHHT...GTSSTCSE CS
            Amino_oxidase 309 qg.....vlvseltttlgeafissdfpsrappgkglvllvyvg...gdaanelesl.sdeelvqavlrdLrklfg...eevpepka 382
                               +      + + +++ ++   +++  +  ++ ++  vl+vy +   + a + l ++  ++ +++ +l +L+++ +    ++++ k 
  PHY93_18095|PHY93_18095 407 MEgsmptSPSAMKPPKRAFSDVCLGSWAVDDKTNYGVLTVYKAlpyDGARQFLFNPgAHDKHKNLILAELSNFAKtcgIDHSKLKG 492
                              33465556666666666666666655555555555569999655133344444677899999999999999999965555555555 PP

                              EEEEECCTETTT.SSSEEE.BTTHHHHHHHHHHCHHCSTTEEE. CS
            Amino_oxidase 383 tlvtrWhtdpla.rgsysyvsvgpghedydplakpegdprlffA 425
                              +  trW+  +++  g+      + ++  +  + kp  ++ +ffA
  PHY93_18095|PHY93_18095 493 VRMTRWG-HSIPvAGTG-----MISSGKLALMSKP-IMNSIFFA 529
                              9999998.555523332.....2245556666666.66666665 PP

>> NAD_binding_8  NAD(P)-binding Rossmann-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.1   0.0   4.9e-10   1.8e-06       1      64 [.      98     159 ..      98     163 .. 0.89

  Alignments for each domain:
  == domain 1  score: 28.1 bits;  conditional E-value: 4.9e-10
                              EE--SHHHHHHHHHHHCCTEEEEEE-SSSSSSGGG-EECETTCEECTS---EEETTHHHHCHHH CS
            NAD_binding_8   1 IvGaGlsGlvaAylLakagfdvlllekrdrlGGraasyevpgvrvdygahifhgsgyypnvrrl 64 
                              ++G+G+sGl  Ay L++  +d l+le+  ++GG+++ +++++ ++  ga +++ ++++  +  +
  PHY93_18095|PHY93_18095  98 VIGGGMSGLISAYKLQN--LDPLILEQDVYFGGNSKGEDYEQSIFSIGAAYITIPDKNSGIELM 159
                              8***************8..7*******************************9987766555555 PP

>> DAO  FAD dependent oxidoreductase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.0   1.2e-06    0.0041       2      38 ..      96     131 ..      95     257 .. 0.85

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 1.2e-06
                              EEEECTSHHHHHHHHHHHHTTEEEEESSSSTTSSGGG CS
                      DAO   2 vviiGGGiiGlstAyeLarrgVtllekgdiagsgaSg 38 
                              +v+iGGG+ Gl  Ay L+    ++le++  +g g S 
  PHY93_18095|PHY93_18095  96 LVVIGGGMSGLISAYKLQNLDPLILEQDVYFG-GNSK 131
                              79***************6557*******9999.8775 PP

>> Thi4  Thi4 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   1.3e-05     0.048      20      58 ..      96     131 ..      91     145 .. 0.88

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 1.3e-05
                              EEEE--SHHHHHHHHHHHHCTTS-EEEEESSSS--TTTT CS
                     Thi4  20 vvivGaGssGLtaayylakkpdlkvailersvspGGGaw 58 
                              +v++G+G sGL +ay l    +l  +ile+ v +GG + 
  PHY93_18095|PHY93_18095  96 LVVIGGGMSGLISAYKLQ---NLDPLILEQDVYFGGNSK 131
                              79*************995...5799**********9765 PP

>> FAD_binding_2  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   2.7e-05     0.095       2      38 ..      96     130 ..      95     156 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 2.7e-05
                              EEEE--SHHHHHHHHHHHHTTT-EEEEESSSGGGSGG CS
            FAD_binding_2   2 viViGsGlAGLaAAleaaeaGlkvavvekeqefggat 38 
                              ++ViG+G++GL +A+++  ++l+ +++e+  +fgg++
  PHY93_18095|PHY93_18095  96 LVVIGGGMSGLISAYKL--QNLDPLILEQDVYFGGNS 130
                              69*************66..777889999999999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (555 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       321  (0.017904); expected 358.6 (0.02)
Passed bias filter:                      305  (0.0170115); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.59u 0.24s 00:00:00.83 Elapsed: 00:00:00.41
# Mc/sec: 4017.81
//
Query:       PHY93_18100|PHY93_18100  [L=275]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
      1e-16   60.6   0.1      2e-16   59.7   0.1    1.5  1  HTH_1           Bacterial regulatory helix-turn-helix protein
    1.5e-16   60.5   0.0    2.5e-16   59.7   0.0    1.4  1  LysR_substrate  LysR substrate binding domain
     0.0013   18.8   0.1     0.0038   17.2   0.1    1.8  1  HTH_Mga         M protein trans-acting positive regulator (MG
     0.0033   16.9   0.2      0.064   12.8   0.1    2.5  2  HTH_24          Winged helix-turn-helix DNA-binding
  ------ inclusion threshold ------
      0.073   13.3   0.1       0.82   10.0   0.0    2.2  2  BRICHOS         BRICHOS domain
       0.38   10.7   1.9       0.66    9.9   0.1    2.3  3  HTH_5           Bacterial regulatory protein, arsR family


Domain annotation for each model (and alignments):
>> HTH_1  Bacterial regulatory helix-turn-helix protein, lysR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.7   0.1   6.6e-20     2e-16       3      60 .]       6      63 ..       4      63 .. 0.96

  Alignments for each domain:
  == domain 1  score: 59.7 bits;  conditional E-value: 6.6e-20
                             HHHHHHHHHHHSSHHHHHHHHTS-HHHHHHHHHHHHHHHTS-SEEESSSEEEE-HHHH CS
                    HTH_1  3 qlrlfvavaeegsftrAAeeLglsqpavsrqikrLEeelgvpLfeRtgrglrLTeaGe 60
                             +l  f++ a+  ++t+AA+eLglsqpa+s+ ikrLE e+g++Lf R + gl LT  Ge
  PHY93_18100|PHY93_18100  6 DLNSFLTTARMLHLTKAAKELGLSQPALSHCIKRLELEVGEELFLRRKDGLILTKSGE 63
                             7899******************************************8889*****997 PP

>> LysR_substrate  LysR substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   59.7   0.0   8.5e-20   2.5e-16       3     164 ..      89     233 ..      87     256 .. 0.92

  Alignments for each domain:
  == domain 1  score: 59.7 bits;  conditional E-value: 8.5e-20
                              TSCEEEEEEEECCCHHHHHHHHHHHHHHHSTTEEEEEEEESHHHHHHHHHTTSSSEEEEESSSCCTTEEEEEEEEEEEEEEEETTS CS
           LysR_substrate   3 glrgrLrigapptlaryllppllarfraryPevelelvegdseelldllaegelDlairagppedsglearpLaeeplvlvaspdh 88 
                              + +++L++g+ p++a+y lp++++++     +++l+ + g s e+ d++++g++D++i+ +p ++s+l++ ++ ++++ l  ++  
  PHY93_18100|PHY93_18100  89 QSHQTLTLGIHPSVASYSLPQIMKEL----KNIKLNFRFGLSREVSDWIQDGKVDCGIVINPYPHSNLVINQIDQDRVTLWSHKK- 169
                              6789*******************998....89*************************************************9888. PP

                              GGGGSSSECGGGGCTSEEEEESTTSTHHHHHHHHHHCTTEECEEEEEESSHHHHHHHHHTTS-BEEEEGGGHHCCC CS
           LysR_substrate  89 pLargepvsledLadeplilleegsglrdlledalreaglkprvalevnsleallalvaaGlGiallprsavrdel 164
                               L + +++           +++++ +   ++++ l+++g++    + v++le ++ +v  G G+++lp+ +v+++ 
  PHY93_18100|PHY93_18100 170 -LSNPDKL-----------FFDPQLHQTHSILRQLEKKGIQFPNQYAVSNLELIAKFVYEGTGVGILPEKVVKNYY 233
                              .6666555...........889999999********************************************9865 PP

>> HTH_Mga  M protein trans-acting positive regulator (MGA) HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.2   0.1   1.3e-06    0.0038      12      53 ..       9      49 ..       6      54 .. 0.90

  Alignments for each domain:
  == domain 1  score: 17.2 bits;  conditional E-value: 1.3e-06
                  HTH_Mga 12 elLteneksltldelakeLglseltlqsdiseLnelFpeels 53
                             ++Lt+ ++ l+l+++akeLgls  +l ++i  L  ++ eel+
  PHY93_18100|PHY93_18100  9 SFLTT-ARMLHLTKAAKELGLSQPALSHCIKRLELEVGEELF 49
                             57888.**************************9988888887 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.8   0.1   2.1e-05     0.064      24      42 ..      23      41 ..      14      43 .. 0.93
   2 ?    1.5   0.0     0.076   2.3e+02      35      46 ..     186     197 ..     184     197 .. 0.84

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 2.1e-05
                   HTH_24 24 AerlglSpstvnrrlkrLe 42
                             A++lglS+++++ ++krLe
  PHY93_18100|PHY93_18100 23 AKELGLSQPALSHCIKRLE 41
                             99****************9 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.076
                   HTH_24  35 nrrlkrLeeeGl 46 
                              +  l++Le++G+
  PHY93_18100|PHY93_18100 186 HSILRQLEKKGI 197
                              678999999997 PP

>> BRICHOS  BRICHOS domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.0       0.2   6.1e+02      43      81 ..     174     216 ..     158     218 .. 0.66
   2 ?   10.0   0.0   0.00027      0.82      18      48 ..     244     274 ..     229     275 .] 0.91

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.2
                  BRICHOS  43 lrlleekk..eeeeets....eslgvyvvkeepvkdlsqlgkkiq 81 
                               +l+ + +  ++++       e++g+  ++++ v +l+   k ++
  PHY93_18100|PHY93_18100 174 DKLFFDPQlhQTHS--IlrqlEKKGIQFPNQYAVSNLELIAKFVY 216
                              44555544332222..13367889999999999999998877765 PP

  == domain 2  score: 10.0 bits;  conditional E-value: 0.00027
                  BRICHOS  18 yrlaskkaCyimkmdkssipsleellrllee 48 
                              +++++ k C+i +m+++ + sle+l+  +++
  PHY93_18100|PHY93_18100 244 IKPFQDKICFIYSMENKGLGSLEQLKMSIKK 274
                              89*********************99887776 PP

>> HTH_5  Bacterial regulatory protein, arsR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.9   0.1   0.00022      0.66      22      40 ..      23      41 ..      19      42 .. 0.90
   2 ?   -2.4   0.0       1.6   4.7e+03      26      40 ..      97     111 ..      96     115 .. 0.55
   3 ?   -2.4   0.1       1.6   4.7e+03      36      44 ..     189     197 ..     188     197 .. 0.80

  Alignments for each domain:
  == domain 1  score: 9.9 bits;  conditional E-value: 0.00022
                             HHHHTS-HHHHHHHHHHHH CS
                    HTH_5 22 aeelglsqstvShHLkkLr 40
                             a+elglsq+++Sh  k+L+
  PHY93_18100|PHY93_18100 23 AKELGLSQPALSHCIKRLE 41
                             799**********888885 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 1.6
                              TS-HHHHHHHHHHHH CS
                    HTH_5  26 glsqstvShHLkkLr 40 
                              g+ +s  S+ L + +
  PHY93_18100|PHY93_18100  97 GIHPSVASYSLPQIM 111
                              566666666664443 PP

  == domain 3  score: -2.4 bits;  conditional E-value: 1.6
                              HHHHHHTTS CS
                    HTH_5  36 LkkLreaGL 44 
                              L++L++ G+
  PHY93_18100|PHY93_18100 189 LRQLEKKGI 197
                              788998886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (275 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       443  (0.0247086); expected 358.6 (0.02)
Passed bias filter:                      382  (0.0213063); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.46u 0.25s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 2060.55
//
Query:       PHY93_16465|PHY93_16465  [L=252]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (252 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       630  (0.0351386); expected 358.6 (0.02)
Passed bias filter:                      445  (0.0248201); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.43
# Mc/sec: 1770.17
//
Query:       PHY93_18105|PHY93_18105  [L=148]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (148 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       408  (0.0227564); expected 358.6 (0.02)
Passed bias filter:                      321  (0.017904); expected 358.6 (0.02)
Passed Vit filter:                        30  (0.00167327); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.24s 00:00:00.68 Elapsed: 00:00:00.42
# Mc/sec: 1054.30
//
Query:       PHY93_18110|PHY93_18110  [L=196]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.5e-12   46.2   0.0    9.7e-12   44.8   0.0    1.6  1  Y_phosphatase2   Tyrosine phosphatase family
    8.7e-08   32.4   0.0    2.9e-07   30.7   0.0    1.8  1  Y_phosphatase3   Tyrosine phosphatase family
    3.8e-07   30.0   0.0    8.4e-07   28.9   0.0    1.7  1  DSPc             Dual specificity phosphatase, catalytic doma
    0.00032   20.3   0.0    0.00049   19.7   0.0    1.2  1  Y_phosphatase    Protein-tyrosine phosphatase
     0.0043   16.0   0.0      0.008   15.2   0.0    1.4  1  Myotub-related   Myotubularin-like phosphatase domain
  ------ inclusion threshold ------
      0.036   14.3   0.0      0.065   13.5   0.0    1.5  1  DUF424           Protein of unknown function (DUF424)
       0.17   12.0   0.0       0.28   11.3   0.0    1.3  1  PTPlike_phytase  Inositol hexakisphosphate


Domain annotation for each model (and alignments):
>> Y_phosphatase2  Tyrosine phosphatase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.8   0.0   3.8e-15   9.7e-12       5     128 ..      27     170 ..      25     184 .. 0.85

  Alignments for each domain:
  == domain 1  score: 44.8 bits;  conditional E-value: 3.8e-15
                              TT-EEEETTEEEES.S--HHHHHHHHHCT-SEEEE-SSS---HHHHH.HHHHCT-EEEE-------GG.................G CS
           Y_phosphatase2   5 lnFsaveselyrss.yprasnfsflksLkLktiislspeeesqdelq.fleeekiklyhiaiesnkee.................l 71 
                               nF +v++++yr++   + +   +lksLk+k+ii l+  +   d       +e  ++ +  +++n+ +                  
  PHY93_18110|PHY93_18110  27 VNFLKVNNGVYRGArLTSVEAVQYLKSLKIKNIINLQGGDLNSDVGIiIPWAEPGETAENIAQENATAlslglgflsaplnslepI 112
                              59***********944667889*******************99998843334444555555556666689**************99 PP

                              ----HHHHHHHHHHHH-GGG-SEEEE-SSSSSHHHHHHHHHH.HHTTB-HHHHHHHHH CS
           Y_phosphatase2  72 veiksdllkkalklllnkenypvllhckrGkhrtglvigclR.klqkWslasilnEyr 128
                               ++++  + ++l ++  + n+pv++hc++G  rtglv++  R k  + ++  + +E++
  PHY93_18110|PHY93_18110 113 TNDEDRTIDEVLTFMHKQSNQPVFIHCEHGADRTGLVVALYRvKYEGANVEAARAEWI 170
                              9***************************************998888888877777776 PP

>> Y_phosphatase3  Tyrosine phosphatase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.7   0.0   1.1e-10   2.9e-07      28     141 ..      36     153 ..      30     170 .. 0.69

  Alignments for each domain:
  == domain 1  score: 30.7 bits;  conditional E-value: 1.1e-10
           Y_phosphatase3  28 lyRsaelsklteadlakLadlgirtviDLRspeErea...eaplega..ryvhlpveeaaeeekeeeeaeetlaelYrellesakk 108
                              +yR a l++++   +++L++l+i+++i L   + +++     p+++   +  ++   e a++ +      ++  +  + + ++  +
  PHY93_18110|PHY93_18110  36 VYRGARLTSVE--AVQYLKSLKIKNIINLQGGDLNSDvgiIIPWAEPgeTAENIAQ-ENATALSLGLGFLSAPLNSLEPITNDEDR 118
                              79999999887..6999999999999999988875443332222222213333322.1222233333333444445555555999* PP

           Y_phosphatase3 109 ayrkvfealad.ee.pvlfHCtaGKDRTGvlaall 141
                              ++ +v++ + + ++ pv +HC +G DRTG+++al 
  PHY93_18110|PHY93_18110 119 TIDEVLTFMHKqSNqPVFIHCEHGADRTGLVVALY 153
                              ***********6558*****************985 PP

>> DSPc  Dual specificity phosphatase, catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.9   0.0   3.3e-10   8.4e-07      50     106 ..     107     165 ..      36     182 .. 0.64

  Alignments for each domain:
  == domain 1  score: 28.9 bits;  conditional E-value: 3.3e-10
                              STTSCCGGGHHHHHHHHHHH..HHTT-EEEEEESSSSSHHHHHHHHHHHHHHTSCHHHH CS
                     DSPc  50 ehetkiskyleeavefidka..kqkgkkvlVHCqaGisRSatliiaYlmktknlslnea 106
                              ++ + i+++ +++++ + ++  kq+++ v++HC++G  R++ +++ Y  k+++ +++ a
  PHY93_18110|PHY93_18110 107 NSLEPITNDEDRTIDEVLTFmhKQSNQPVFIHCEHGADRTGLVVALYRVKYEGANVEAA 165
                              45555555555555555544457999*****************************9988 PP

>> Y_phosphatase  Protein-tyrosine phosphatase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.7   0.0   1.9e-07   0.00049     157     190 ..     122     152 ..     107     161 .. 0.81

  Alignments for each domain:
  == domain 1  score: 19.7 bits;  conditional E-value: 1.9e-07
                              HHHHHHHHHHSTTSS-EEEECSSSSHHHHHHHHH CS
            Y_phosphatase 157 klirkvekskeaksgpvvVhCsaGvgRtgtfval 190
                              ++++ ++k++   ++pv +hC +G+ Rtg +val
  PHY93_18110|PHY93_18110 122 EVLTFMHKQS---NQPVFIHCEHGADRTGLVVAL 152
                              5666677777...9*****************998 PP

>> Myotub-related  Myotubularin-like phosphatase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0   3.1e-06     0.008     229     255 ..     129     155 ..     115     160 .. 0.84

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 3.1e-06
                              HCS---EEEE-SSSSSHHHHHHHHHHH CS
           Myotub-related 229 elekssvLvhcsdGwDrtsqlsslaql 255
                              ++++++v +hc++G Drt  +++l  +
  PHY93_18110|PHY93_18110 129 KQSNQPVFIHCEHGADRTGLVVALYRV 155
                              456889*****************9765 PP

>> DUF424  Protein of unknown function (DUF424)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.0   2.5e-05     0.065      10      59 ..       8      60 ..       1      76 [. 0.76

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 2.5e-05
                             EEEEEGGGTT-EEEETT...EEEE--HHHH--EEE-HHHHHHHHHHHEEEEEE CS
                   DUF424 10 vavcdkellgktfkege...lllnvsegfyggelaseeeaikeLekatiaNiv 59
                             +a+   +   +tf + +   + l+v++g+y g   +  ea++ L+++ i Ni+
  PHY93_18110|PHY93_18110  8 LAFVLVSFSTQTFADSNlivNFLKVNNGVYRGARLTSVEAVQYLKSLKIKNII 60
                             555555555566777774434578***********************999997 PP

>> PTPlike_phytase  Inositol hexakisphosphate
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00011      0.28     114     152 ..     116     153 ..     110     155 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00011
                              -HHHHHHHHHHHHTS-TT-EEEEE-SSSSHHHHHHHHHH CS
          PTPlike_phytase 114 eeedfdalvsilkeapektalvfnCqmGrgRTTtamvia 152
                              e++++d+++ ++ + + ++++ ++C+ G  RT ++++++
  PHY93_18110|PHY93_18110 116 EDRTIDEVLTFMHKQS-NQPVFIHCEHGADRTGLVVALY 153
                              6899**********98.556667*********9998876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (196 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       495  (0.0276089); expected 358.6 (0.02)
Passed bias filter:                      427  (0.0238162); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.48u 0.25s 00:00:00.73 Elapsed: 00:00:00.43
# Mc/sec: 1359.15
//
Query:       PHY93_18115|PHY93_18115  [L=104]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (104 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       227  (0.0126611); expected 358.6 (0.02)
Passed bias filter:                      126  (0.00702772); expected 358.6 (0.02)
Passed Vit filter:                         1  (5.57756e-05); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.44u 0.20s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 772.46
//
Query:       PHY93_21625|PHY93_21625  [L=86]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
      0.016   15.7   0.1      0.018   15.6   0.1    1.2  1  TEX33       Testis-expressed sequence 33 protein family
      0.034   14.5   0.1      0.039   14.3   0.1    1.2  1  MqsR_toxin  Motility quorum-sensing regulator, toxin of MqsA


Domain annotation for each model (and alignments):
>> TEX33  Testis-expressed sequence 33 protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.6   0.1     2e-06     0.018      69     102 ..      12      45 ..       3      63 .. 0.90

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 2e-06
                    TEX33  69 dvlqGapqetkSlmkasyTkevieksvrdlehwh 102
                               v++G+ +etkS m + +  +v+e + +d   w 
  PHY93_21625|PHY93_21625  12 KVMKGQEKETKSKMDSKFWDDVYESKSEDGVSWY 45 
                              589***********************99998886 PP

>> MqsR_toxin  Motility quorum-sensing regulator, toxin of MqsA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.3   0.1   4.3e-06     0.039      53      79 ..      19      45 ..       2      59 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.3 bits;  conditional E-value: 4.3e-06
                             EEE--STTTT--EEEE--EETTE.E-- CS
               MqsR_toxin 53 ksmttyadhrvWqDvYhveteegkelY 79
                             k  ++  d++ W DvY+ + e+g  +Y
  PHY93_21625|PHY93_21625 19 KETKSKMDSKFWDDVYESKSEDGVSWY 45
                             6667799****************9999 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (86 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       520  (0.0290033); expected 358.6 (0.02)
Passed bias filter:                      340  (0.0189637); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.40u 0.20s 00:00:00.60 Elapsed: 00:00:00.37
# Mc/sec: 701.11
//
Query:       PHY93_21630|PHY93_21630  [L=74]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.7e-10   39.7   0.1    3.3e-10   39.4   0.1    1.1  1  SHOCT           Short C-terminal domain
     0.0051   16.9   0.0     0.0055   16.7   0.0    1.1  1  DUF1707         Domain of unknown function (DUF1707)
  ------ inclusion threshold ------
      0.018   15.3   0.0       0.02   15.2   0.0    1.1  1  DUF4381         Domain of unknown function (DUF4381)
      0.078   12.6   0.0      0.095   12.3   0.0    1.0  1  RNA_pol_Rpb2_2  RNA polymerase Rpb2, domain 2
       0.09   12.7   2.8       0.13   12.2   2.8    1.2  1  PsbI            Photosystem II reaction centre I protein (PSI


Domain annotation for each model (and alignments):
>> SHOCT  Short C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.4   0.1   9.3e-14   3.3e-10       2      25 ..      49      72 ..      48      74 .] 0.93

  Alignments for each domain:
  == domain 1  score: 39.4 bits;  conditional E-value: 9.3e-14
                    SHOCT  2 aLekLkeLyarGeIteEEFeakKa 25
                             aL++Lke+yarGeI+  EF++kK+
  PHY93_21630|PHY93_21630 49 ALDILKERYARGEISNQEFDEKKH 72
                             9**********************7 PP

>> DUF1707  Domain of unknown function (DUF1707)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.0   1.5e-06    0.0055      10      32 ..      48      70 ..      38      74 .] 0.84

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 1.5e-06
                  DUF1707 10 ravelLrealaeGrLtldEfdeR 32
                              a+++L+e +a+G ++ +Efde 
  PHY93_21630|PHY93_21630 48 SALDILKERYARGEISNQEFDEK 70
                             599******************97 PP

>> DUF4381  Domain of unknown function (DUF4381)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.2   0.0   5.5e-06      0.02      19      58 ..      15      56 ..       7      71 .. 0.75

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 5.5e-06
                  DUF4381 19 pGwwlllaalll.llllvlalwllrrrkrn.rreAlreLaal 58
                             +Gw +ll+++l+ +++++++ + +rr + n  + Al+ L++ 
  PHY93_21630|PHY93_21630 15 MGWSMLLLWILVtIVIVGAVSLFIRRGNINrEKSALDILKER 56
                             69****999999877777777777777777456699988865 PP

>> RNA_pol_Rpb2_2  RNA polymerase Rpb2, domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0   2.7e-05     0.095     105     144 ..      30      70 ..      25      71 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 2.7e-05
                              HHHH.CSSTTSSSCCCCCHHHHHHHCHHHHHHHTTTTSSTT CS
           RNA_pol_Rpb2_2 105 yigk.vvalrrgeearlqsareilqkrydlgeigreklnkh 144
                               +g+ ++++rrg  +r +sa +il++ry++gei ++++ ++
  PHY93_21630|PHY93_21630  30 IVGAvSLFIRRGNINREKSALDILKERYARGEISNQEFDEK 70 
                              66777899***************************998765 PP

>> PsbI  Photosystem II reaction centre I protein (PSII 4.8 kDa protein)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   2.8   3.6e-05      0.13       1      20 [.      19      38 ..      19      39 .. 0.97

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 3.6e-05
                     PsbI  1 mltLKivVyivViffvslFv 20
                             ml L i+V+iv++  vslF+
  PHY93_21630|PHY93_21630 19 MLLLWILVTIVIVGAVSLFI 38
                             999****************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (74 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       970  (0.0541023); expected 358.6 (0.02)
Passed bias filter:                      637  (0.035529); expected 358.6 (0.02)
Passed Vit filter:                        80  (0.00446204); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.48u 0.18s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 569.70
//
Query:       PHY93_21635|PHY93_21635  [L=83]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.1e-14   54.8   0.0    1.2e-14   54.7   0.0    1.0  1  DrsE      DsrE/DsrF-like family


Domain annotation for each model (and alignments):
>> DrsE  DsrE/DsrF-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   54.7   0.0   6.7e-19   1.2e-14      32     115 ..       2      83 .]       1      83 [] 0.87

  Alignments for each domain:
  == domain 1  score: 54.7 bits;  conditional E-value: 6.7e-19
                              -EEEEEE-GGGGGGGBS---TGGGTS---GGGGGGCGGGT-EEEEEHHHHHHTT--GGGE-T--EEEE-HHHHHHHHHH-SEEE CS
                     DrsE  32 hevsvffygdGvllllkgqtanpadeknlaellkalkeygvklyvCgqaakargldededlgvgvevsglgelaelqnegdrvi 115
                              +e+++f++gd++ +++k q + p++++n   +lk  ++++ ++ vCg++++arg++e+e+   g   s+l +l ++   +d+v+
  PHY93_21635|PHY93_21635   2 QEIKLFLIGDAAACAKKTQ-KTPQGYYNTELMLKLIAKHNSEIGVCGTCMDARGISESELT-EGTRRSTLEQLTDWTVWADKVL 83 
                              89***************55.66667777777777777799****************76555.7******************997 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (83 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       369  (0.0205812); expected 358.6 (0.02)
Passed bias filter:                      289  (0.0161191); expected 358.6 (0.02)
Passed Vit filter:                        17  (0.000948185); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.43u 0.19s 00:00:00.62 Elapsed: 00:00:00.39
# Mc/sec: 645.76
//
Query:       PHY93_21640|PHY93_21640  [L=142]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.4e-20   73.6   1.6    1.4e-20   73.6   1.6    1.7  2  Mntp      Putative manganese efflux pump


Domain annotation for each model (and alignments):
>> Mntp  Putative manganese efflux pump
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.1   0.2     0.081   1.5e+03      76      96 ..       5      25 ..       2      28 .. 0.65
   2 !   73.6   1.6   7.9e-25   1.4e-20       4     108 ..      32     139 ..      29     142 .] 0.86

  Alignments for each domain:
  == domain 1  score: -1.1 bits;  conditional E-value: 0.081
                     Mntp 76 ksllllaiatSiDAlavGlsL 96
                              +++++++  S D++++ +++
  PHY93_21640|PHY93_21640  5 YEIIVIGFVLSADSFSAAVAM 25
                             456777777777777766655 PP

  == domain 2  score: 73.6 bits;  conditional E-value: 7.9e-25
                     Mntp   4 lkealkialifGlfqalmpliGwllGkllselieavdhwiafllLlllGlkmivealkeeeeekkek...eelslksllllaiatS 86 
                               k+a ++a+  G  +alm+liG l+G+l+ +  +a+dhwi+f+lL  + ++m +e++ +  +++ ++   + +s+k++ll+++atS
  PHY93_21640|PHY93_21640  32 EKDAYRFAIASGGAEALMALIGALAGSLVISKFSAIDHWIGFILLGGVAIHMGHEGIVDLMSKTLKEeklDFHSFKRVLLVSFATS 117
                              57899***********************************************9999855444443332236688************ PP

                     Mntp  87 iDAlavGlsLallkvnillavl 108
                              +DA+ vG++L++ k  il  ++
  PHY93_21640|PHY93_21640 118 LDAFGVGVGLGISKKPILPYIT 139
                              ************9998887665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (142 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       407  (0.0227007); expected 358.6 (0.02)
Passed bias filter:                      291  (0.0162307); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.20s 00:00:00.62 Elapsed: 00:00:00.38
# Mc/sec: 1127.45
//
Query:       PHY93_21645|PHY93_21645  [L=228]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (228 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       258  (0.0143901); expected 358.6 (0.02)
Passed bias filter:                       75  (0.00418317); expected 358.6 (0.02)
Passed Vit filter:                         6  (0.000334653); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.20s 00:00:00.68 Elapsed: 00:00:00.41
# Mc/sec: 1655.97
//
Query:       PHY93_21650|PHY93_21650  [L=248]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (248 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       597  (0.033298); expected 358.6 (0.02)
Passed bias filter:                      450  (0.025099); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.39
# Mc/sec: 1906.19
//
Query:       PHY93_21655|PHY93_21655  [L=222]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.065   13.1   0.0        0.7    9.7   0.0    2.0  2  DUF4020   Domain of unknown function (DUF4020)


Domain annotation for each model (and alignments):
>> DUF4020  Domain of unknown function (DUF4020)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.0     0.019   3.3e+02      99     124 ..     105     130 ..     101     136 .. 0.86
   2 ?    9.7   0.0   3.9e-05       0.7       9      60 ..     163     213 ..     159     221 .. 0.87

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.019
                  DUF4020  99 irapapnlErkillyreLrkkelakk 124
                              ++++  nlE++ + y++++  +++++
  PHY93_21655|PHY93_21655 105 MESFQENLEKDRFSYQNIQMMDIPVN 130
                              789999**********9998888775 PP

  == domain 2  score: 9.7 bits;  conditional E-value: 3.9e-05
                  DUF4020   9 peqkadWLqkllvaedEkerikfarllarevkslpkkaqrklWdaWlevylr 60 
                              p +++   + l+++e +k   k ++++  ++++l   +q  + +aW+++++ 
  PHY93_21655|PHY93_21655 163 PTENTFVFHDLMPLERDKSTKKIINSMFFDIDTLCA-NQDVFVNAWVGKFWT 213
                              66677677899***********************97.5889**********6 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (222 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       408  (0.0227564); expected 358.6 (0.02)
Passed bias filter:                      301  (0.0167884); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.22s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 1625.70
//
Query:       PHY93_16470|PHY93_16470  [L=199]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (199 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       241  (0.0134419); expected 358.6 (0.02)
Passed bias filter:                      235  (0.0131073); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.20s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 1508.73
//
Query:       PHY93_21660|PHY93_21660  [L=172]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    5.7e-52  177.2   0.0    6.4e-52  177.0   0.0    1.0  1  GDP_Man_Dehyd    GDP-mannose 4,6 dehydratase
    2.9e-37  128.4   0.0    3.2e-37  128.3   0.0    1.0  1  Epimerase        NAD dependent epimerase/dehydratase family
    1.7e-17   63.4   0.0      2e-17   63.1   0.0    1.0  1  3Beta_HSD        3-beta hydroxysteroid dehydrogenase/isomeras
      2e-16   59.9   0.0    2.7e-15   56.3   0.0    2.0  1  NAD_binding_4    Male sterility protein
    6.5e-16   58.3   0.0    7.8e-16   58.0   0.0    1.1  1  RmlD_sub_bind    RmlD substrate binding domain
      2e-15   56.7   0.0    2.2e-15   56.6   0.0    1.1  1  Polysacc_synt_2  Polysaccharide biosynthesis protein
    3.6e-05   23.7   0.0    4.2e-05   23.5   0.0    1.1  1  NAD_binding_10   NAD(P)H-binding
    0.00045   19.7   0.0     0.0046   16.4   0.0    2.1  1  adh_short        short chain dehydrogenase
  ------ inclusion threshold ------
      0.013   14.4   0.0      0.016   14.2   0.0    1.1  1  DUF1729          Domain of unknown function (DUF1729)
      0.025   14.5   0.0      0.033   14.1   0.0    1.3  1  KR               KR domain
      0.054   13.8   0.0      0.086   13.1   0.0    1.3  1  Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding doma
       0.11   12.0   0.0       0.18   11.3   0.0    1.3  1  NmrA             NmrA-like family


Domain annotation for each model (and alignments):
>> GDP_Man_Dehyd  GDP-mannose 4,6 dehydratase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  177.0   0.0   4.3e-55   6.4e-52       1     174 [.       4     171 ..       4     172 .] 0.93

  Alignments for each domain:
  == domain 1  score: 177.0 bits;  conditional E-value: 4.3e-55
                              EEETTTSHHHHHHHHHHHHCT-CCEEEEEEESS-TTHHHHHCTTT...TTGCCEEEEE--TT-HHHHHHHHHHHT-SEEEE--S-- CS
            GDP_Man_Dehyd   1 LiTGiaGfiGsylaelLlekgyevhgivrrsssfntgriehlakdpkeeleenlklhkgDltDssslerllaevqpdevynLAAqs 86 
                              LiTG+ GfiGs++++++ +++ +   iv++++ +++++ ++l +   +e+++n+k++kgD+ D++ +++l++ev  d ++++AA+s
  PHY93_21660|PHY93_21660   4 LITGGLGFIGSNFIKHWFKNHPQD-SIVNLDKMTYAANPRNLIE---FENNPNYKFVKGDILDQELVDKLVSEV--DLIVHFAAES 83 
                              9*****************998777.689**************96...66789*********************9..9********* PP

                              -HHHHTTSHHHHHHHHTHHHHHHHHHHHHCT..TTSEEEEEEEGGGG-S-S....SSSB-TTS-----SHHHHHHHHHHHHHHHHH CS
            GDP_Man_Dehyd  87 hVdvsfekPeytaevnvlGtlrLLeairalglekkvrfyqaStsEvYGkvq....evpqtEttpfyPrsPYaaaKlyadwivvnyr 168
                              hVd+s+++P  ++++nvlGt++LL a+++++    +rf+++St+Ev+G+ +     + ++E+tp++P sPY+a+K+ +d++v++++
  PHY93_21660|PHY93_21660  84 HVDRSIDDPSLFVKTNVLGTYNLLMAAKKYN----KRFHHISTDEVFGTIAlddhTSQFSESTPYDPSSPYSASKAGSDHLVQSFY 165
                              *****************************97....59************9655435668*************************** PP

                              HHH--- CS
            GDP_Man_Dehyd 169 eayglf 174
                              ++++l+
  PHY93_21660|PHY93_21660 166 KTFKLP 171
                              ***997 PP

>> Epimerase  NAD dependent epimerase/dehydratase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  128.3   0.0   2.1e-40   3.2e-37       2     162 ..       4     170 ..       3     172 .] 0.91

  Alignments for each domain:
  == domain 1  score: 128.3 bits;  conditional E-value: 2.1e-40
                              EEETTTSHHHHHHHHHHHHCT.SE.EEEEES-STTTTCHHCHHC......EEEE--TT-HHHHHHHHHHHT-SEEEE--S---HHH CS
                Epimerase   2 lVtGatGfiGsalvkallekg.ye.vigldrlssasntarledl......elveldltdrsalerlfkeeqpdavihlAavggvaa 79 
                              l+tG+ GfiGs+++k++ +++ ++ +++ld+ ++a n  +l +       ++v++d++d++ +++l++  ++d ++h+Aa+++v++
  PHY93_21660|PHY93_21660   4 LITGGLGFIGSNFIKHWFKNHpQDsIVNLDKMTYAANPRNLIEFennpnyKFVKGDILDQELVDKLVS--EVDLIVHFAAESHVDR 87 
                              9****************99998778************999988899**********************..89************** PP

                              HHHSHHHHHHHHTHHHHHHHHHHHHHTCTEEEEEEEGGGGT....SCSSSSBSTCSTTS----SSHHHHHHHHHHHHHHHHHHHHT CS
                Epimerase  80 ssedpadfieknlqgtlnlleaarkagvkrllflsSsevYG....kdaeqpkeettltgplkpnspYaaaKlageklveayaaqyg 161
                              s++dp+ f+++n+ gt+nll aa+k++  r++++s++ev+G    +d++++ +e+t   p+ p+spY+a+K+ +++lv+++ ++++
  PHY93_21660|PHY93_21660  88 SIDDPSLFVKTNVLGTYNLLMAAKKYNK-RFHHISTDEVFGtialDDHTSQFSEST---PYDPSSPYSASKAGSDHLVQSFYKTFK 169
                              ****************************.************555434433355555...**********************99887 PP

                              - CS
                Epimerase 162 l 162
                              l
  PHY93_21660|PHY93_21660 170 L 170
                              6 PP

>> 3Beta_HSD  3-beta hydroxysteroid dehydrogenase/isomerase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   63.1   0.0   1.3e-20     2e-17       1     158 [.       4     162 ..       4     168 .. 0.88

  Alignments for each domain:
  == domain 1  score: 63.1 bits;  conditional E-value: 1.3e-20
                3Beta_HSD   1 vvtGgaGFlGralvkeLvrleelkevrvlD...lrespelleelskvnvkkviegDvtdkdkleealegvdvvihlaslvdvag.k 82 
                              ++tGg GF+G++ +k+ ++ ++   +  lD    + +p+ l e+++  + k+++gD++d++ +++ + +vd+++h a+ + v    
  PHY93_21660|PHY93_21660   4 LITGGLGFIGSNFIKHWFKNHPQDSIVNLDkmtYAANPRNLIEFENNPNYKFVKGDILDQELVDKLVSEVDLIVHFAAESHVDRsI 89 
                              69****************************554455666666777777777*******************************9834 PP

                3Beta_HSD  83 ltedeimkvnvkGTrnvleacvkagvrvlvYtSsaevvgpnslgeeilngdEeleyeslhqdaypesKalaEklvl 158
                              +    + k nv GT n+l a++k + +++ + S+ ev g   l ++  +  E+++y+  ++++y+ sKa +++lv 
  PHY93_21660|PHY93_21660  90 DDPSLFVKTNVLGTYNLLMAAKKYN-KRFHHISTDEVFGTIALDDHTSQFSESTPYD--PSSPYSASKAGSDHLVQ 162
                              5566789***********9999987.7889**********99999999999999998..5799*******999996 PP

>> NAD_binding_4  Male sterility protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.3   0.0   1.8e-18   2.7e-15       1     197 [.       5     171 ..       5     172 .] 0.84

  Alignments for each domain:
  == domain 1  score: 56.3 bits;  conditional E-value: 1.8e-18
                              EE-TTSHHHHHHHHHHHHHS-.TEEEEEE-SSSHHHHHHHHHHHT-SS-HHHHHHHHHTTTEEEEE--TTSGGGG--HHHHHHHHH CS
            NAD_binding_4   1 lTGaTGFLGkvLlekLLrttpevkiyllvRaksgesaeeRleeelekkelfsallkelaerikvveGDlseprlGLseedlqelae 86 
                              +TG+ GF+G+ +++ + +++p+  i+ l + +  +++++ +  e+e              + k+v+GD+      L++e +++l++
  PHY93_21660|PHY93_21660   5 ITGGLGFIGSNFIKHWFKNHPQDSIVNLDKMTYAANPRNLI--EFE-----------NNPNYKFVKGDI------LDQELVDKLVS 71 
                              8********************87888887777665555555..222...........2467899****9......77888****** PP

                              H--EEEE--SS-S.STTSSE...EHHHHHHHHHHHHHHHTSSS--.-EEEEEE.GGGTTS-TTT--SSS-H......HHH--EEEE CS
            NAD_binding_4  87 evdviihsaAtvnfdepyke...llrvNveGtrevlelakklkklkvllhvST.ayvngeregeveekvyeegekeekldederak 168
                              evd+i+h aA  ++d+++++   ++++Nv+Gt ++l  akk +k   ++h+ST  ++ +   +               +++ ++++
  PHY93_21660|PHY93_21660  72 EVDLIVHFAAESHVDRSIDDpslFVKTNVLGTYNLLMAAKKYNKR--FHHISTdEVFGTIALDD-------------HTSQFSEST 142
                              ******************9988899***************88555..******66665555543.............489999999 PP

                              TTTCCCHHHHHHHHHHHHHHHHHHHH--- CS
            NAD_binding_4 169 lkglpntYeqsKalaEklvrearrrsglp 197
                                + +  Y+ sKa +++lv++  +  +lp
  PHY93_21660|PHY93_21660 143 PYDPSSPYSASKAGSDHLVQSFYKTFKLP 171
                              ********************988776666 PP

>> RmlD_sub_bind  RmlD substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   58.0   0.0   5.2e-19   7.8e-16       1     138 [.       1     163 [.       1     170 [. 0.91

  Alignments for each domain:
  == domain 1  score: 58.0 bits;  conditional E-value: 5.2e-19
                              EEEEEESTTSHHHHHHHHHCTTTS..EEEEEE-TT.....................T--TTSHHHHHHHHHHH--SEEEE------ CS
            RmlD_sub_bind   1 mkilvtGanGqlGseLakqlaeeg..levlaltre.....................eldltdaeavaellkeakpdvvvnaAAyta 63 
                              mk+l+tG+ G +Gs+ +k   +++   +++ l++                      + d+ d+e v++l++e   d++v+ AA   
  PHY93_21660|PHY93_21660   1 MKLLITGGLGFIGSNFIKHWFKNHpqDSIVNLDKMtyaanprnliefennpnykfvKGDILDQELVDKLVSE--VDLIVHFAAESH 84 
                              89*************9998766541135777777699999*******************************9..899********* PP

                              HHHHHHSHHHHHHHHTHHHHHHHHHHHHCT-EEEEEEEGGGS-S-....TTS-B-TTS----SSHHHHHHHHHHHHHHH CS
            RmlD_sub_bind  64 vDkaEseeeaayavnaeavealAeaaaavgalLihvStDyVFdGe....kkrpYeeddetsPlnvYGrtKlaGEqavla 138
                              vD+  +++ +  + n+ ++ +l  aa++++  + h+StD VF       ++++++e+ + +P + Y ++K+   + v++
  PHY93_21660|PHY93_21660  85 VDRSIDDPSLFVKTNVLGTYNLLMAAKKYNKRFHHISTDEVFGTIalddHTSQFSESTPYDPSSPYSASKAGSDHLVQS 163
                              ******************************************87677778999*****************999999987 PP

>> Polysacc_synt_2  Polysaccharide biosynthesis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   56.6   0.0   1.5e-18   2.2e-15       1     146 [.       3     140 ..       3     164 .. 0.83

  Alignments for each domain:
  == domain 1  score: 56.6 bits;  conditional E-value: 1.5e-18
                              EEEETTTSHHHHHHHHHHHHHB-SEEEEEES-HHHHHHHHHH......-TTEEEE....E--TT-HHHHHHHTT..T-SEEEE--- CS
          Polysacc_synt_2   1 vlvtGagGsiGselvrqilkkkpkkiillerdElklyeiekeleeelkkkklkveivpvigdvrdkerlekaleelkvdvvfhaAA 86 
                              +l+tG+ G iGs+++++  k++p+  i+ + d ++  +  ++l e  ++ ++k+    v gd+ d+e ++k+++  +vd+++h AA
  PHY93_21660|PHY93_21660   3 LLITGGLGFIGSNFIKHWFKNHPQDSIV-NLDKMTYAANPRNLIEFENNPNYKF----VKGDILDQELVDKLVS--EVDLIVHFAA 81 
                              59*******************9998655.4444444444444555555555544....58**************..********** PP

                              ---HHHHHHSHHHHHHHHHHHHHHHHHHHHHTT-SEEEEEEEGGGSS--SHHHHHHHHHH CS
          Polysacc_synt_2  87 lKhVPlveenpleaiktNvlgtenvieaaieagvkkvvliStDKAvnPtnvmGatKrlae 146
                                hV      p   +ktNvlgt n++ aa++++ k++  iStD     + +  +t +++e
  PHY93_21660|PHY93_21660  82 ESHVDRSIDDPSLFVKTNVLGTYNLLMAAKKYN-KRFHHISTDEVFGTIALDDHTSQFSE 140
                              ****************************99998.99*******98777766666665555 PP

>> NAD_binding_10  NAD(P)H-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.5   0.0   2.8e-08   4.2e-05      24     131 ..      36     161 ..       7     166 .. 0.67

  Alignments for each domain:
  == domain 1  score: 23.5 bits;  conditional E-value: 2.8e-08
                              EEETTHHHCHHHHCTTTCEEEE--TT-CCHHHHHHTT-S.EEEES---TCC...HHHH...........HHHHHHHHHHCT--EEE CS
           NAD_binding_10  24 alvRnpeklaeleaeeglevvegdvtdvedlaealkgad.aVvsalggggk...deeg...........aknivdaakeagvkRfv 94 
                               ++ np  l e+e++++ + v+gd++d+e + + ++ +d +V +a+ ++ +   d              + n++ aak+ + kRf 
  PHY93_21660|PHY93_21660  36 TYAANPRNLIEFENNPNYKFVKGDILDQELVDKLVSEVDlIVHFAAESHVDrsiD--DpslfvktnvlgTYNLLMAAKKYN-KRFH 118
                              4677999999*****************************5567777555544552..044677777899*****9999865.7998 PP

                              EEEETTT.....TSGCGCHHHHHHH.HCCHHHHHHHHHHHHHH CS
           NAD_binding_10  95 lvsaigv.....gdevpgefgewnk.ellkaylaakraaeell 131
                               +s+  v      d++ ++f+e +  +  ++y a k+ +++l+
  PHY93_21660|PHY93_21660 119 HISTDEVfgtiaLDDHTSQFSESTPyDPSSPYSASKAGSDHLV 161
                              8888554211223455666666555134455555555555555 PP

>> adh_short  short chain dehydrogenase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.0   3.1e-06    0.0046       4     164 ..       4     165 ..       2     169 .. 0.82

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 3.1e-06
                              EEESTTSHHHHHHHHHHHHTT-EEEEEESCHHHHHHHHHHHHHT..TSEEEEEE-TTTSHHHHHHHHHHHHHHHSSESEEEE---S CS
                adh_short   4 lvtGassGIGraiakelakeGakvvvvdrseekleevakelkee..gakalaiqvDvtdreevealvekavkklgkldvLvnNAGi 87 
                              l+tG+ + IG ++ k+  k+  +  +v+  + + ++   +l e   + ++ ++++D+ d+e v++lv+++       d++v+ A+ 
  PHY93_21660|PHY93_21660   4 LITGGLGFIGSNFIKHWFKNHPQDSIVNLDKMTYAANPRNLIEFenNPNYKFVKGDILDQELVDKLVSEV-------DLIVHFAAE 82 
                              89****************9999988888888888777777766556789***********9999999887.......*******99 PP

                              S--SSGGGCSHHHHHHHHHHHTHHHHHHHHHHHHHHH.......HCTTEEEEE..EEEGGG.TSB-TTBHHHHHHHHHHHHHHHHH CS
                adh_short  88 tgsgpfselseeewervievNltgvflltravlpaml.......kqssGrIvn..vsSvag.kvpvagvaaYsAsKaavagltrsl 163
                              +      + s ++    +++N+ g+++l  a+ ++ +       ++  G+I     +S+ +   p+   ++YsAsKa+ ++l++s+
  PHY93_21660|PHY93_21660  83 S----HVDRSIDDPSLFVKTNVLGTYNLLMAAKKYNKrfhhistDEVFGTIALddHTSQFSeSTPYDPSSPYSASKAGSDHLVQSF 164
                              3....4455566677789**********9999998556668888889999995345666654899*****************9987 PP

                              H CS
                adh_short 164 a 164
                               
  PHY93_21660|PHY93_21660 165 Y 165
                              5 PP

>> DUF1729  Domain of unknown function (DUF1729)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.2   0.0     1e-05     0.016     170     232 ..      12      75 ..       9     114 .. 0.68

  Alignments for each domain:
  == domain 1  score: 14.2 bits;  conditional E-value: 1e-05
                  DUF1729 170 lnkdyakpwfavdeegelveleemtYsevvrRlveLaflksrkewidpsw..kklfqdllqrvee 232
                              +++++ k wf  + + ++v+l++mtY+   r l+e    + + ++++     ++l+ +l+ +v  
  PHY93_21660|PHY93_21660  12 IGSNFIKHWFKNHPQDSIVNLDKMTYAANPRNLIEFENNP-NYKFVKGDIldQELVDKLVSEVDL 75 
                              578899****9999999******************99866.555665433113344444444443 PP

>> KR  KR domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   0.0   2.2e-05     0.033       4      76 ..       4      74 ..       2     119 .. 0.83

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 2.2e-05
                             EEETTTSHHHHHHHHHHHHHH.S-EEEEE-SS..--HHHHHHHHHHHHTT-EEEE----TT-HHHHHHHHHHHH CS
                       KR  4 litGGlGgLGlelarwlaekg.arhlvllsRsaaadedskaliaelealgaevevvaaDvsdkdavealleeik 76
                             litGGlG +G  ++++  +++ + ++v l +  +  ++ + ++ e+e+ + + ++v+ D+ d++ v +l++e++
  PHY93_21660|PHY93_21660  4 LITGGLGFIGSNFIKHWFKNHpQDSIVNLDKM-TYAANPR-NLIEFEN-NPNYKFVKGDILDQELVDKLVSEVD 74
                             9**********999877766659999999999.4444444.4444554.678999***********99999875 PP

>> Sacchrp_dh_NADP  Saccharopine dehydrogenase NADP binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   5.7e-05     0.086       2      78 ..       4      81 ..       3      90 .. 0.84

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 5.7e-05
                             EEE--.SHHHHHHHHHHHCTCCT-GEEEEEESSH..HHHHHHHCHHTTTCEEEEE--TTTHHHHHHHHHTTSSEEEE-SS CS
          Sacchrp_dh_NADP  2 liiGa.GsvGqavaellarhfdvdaeitvadrsk..eklealaakalgvrfeaialdaenyeavLaallkegdlvvnlsp 78
                             li G+ G++G+ +++   ++++ d  i+  d+    ++ ++l++ +++++ ++++ d+ ++e  +++l++e dl+v+ + 
  PHY93_21660|PHY93_21660  4 LITGGlGFIGSNFIKHWFKNHPQD-SIVNLDKMTyaANPRNLIEFENNPNYKFVKGDILDQEL-VDKLVSEVDLIVHFAA 81
                             666777***************986.888888754115556788888****************9.************9875 PP

>> NmrA  NmrA-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00012      0.18       2      73 ..       4      81 ..       3      97 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00012
                             EESSTTSHHHHHHHHHHHHHT-EEEEEES-S.....-SHHHHHHHHSTT.EEEES-TT-HHHHHHHHTT-SEEEE--- CS
                     NmrA  2 lviGaTGrqGksvvrallkaghkvralvRdt.....kselakslkeaGv.elvkgdlddkeslvealkgvdvvfsvtg 73
                             l++G+ G +G+ ++++  k+  +  ++  d      +  ++ +++++++ ++vkgd+ d+e++++++++vd++    +
  PHY93_21660|PHY93_21660  4 LITGGLGFIGSNFIKHWFKNHPQDSIVNLDKmtyaaNPRNLIEFENNPNyKFVKGDILDQELVDKLVSEVDLIVHFAA 81
                             7899999999999999998554444444444556668889999*****95688******************9876555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (172 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       415  (0.0231469); expected 358.6 (0.02)
Passed bias filter:                      334  (0.018629); expected 358.6 (0.02)
Passed Vit filter:                        39  (0.00217525); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.49u 0.24s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 1256.21
//
Query:       PHY93_18120|PHY93_18120  [L=379]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.9e-10   40.2   0.0    4.6e-10   39.6   0.0    1.3  1  Peptidase_M10    Matrixin
     0.0011   19.5   0.1     0.0023   18.5   0.1    1.5  1  Reprolysin_3     Metallo-peptidase family M12B Reprolysin-lik
     0.0034   16.6   0.2     0.0053   16.0   0.2    1.2  1  DUF4953          Met-zincin
     0.0053   16.7   0.1     0.0092   15.9   0.1    1.4  1  Peptidase_M43    Pregnancy-associated plasma protein-A
     0.0072   16.6   0.0       0.02   15.2   0.0    1.7  1  CarboxypepD_reg  Carboxypeptidase regulatory-like domain
  ------ inclusion threshold ------
      0.014   15.0   0.5      0.014   15.0   0.5    1.6  2  Peptidase_M57    Dual-action HEIGH metallo-peptidase
      0.016   14.9   0.3      0.035   13.7   0.2    1.6  2  Reprolysin_4     Metallo-peptidase family M12B Reprolysin-lik
      0.031   13.2   0.3      0.059   12.3   0.3    1.4  1  Peptidase_M66    Peptidase M66
      0.038   14.1   0.1      0.062   13.4   0.1    1.4  1  Reprolysin_5     Metallo-peptidase family M12
       0.18   11.8   0.0       0.28   11.2   0.0    1.2  1  Peptidase_M54    Peptidase family M54


Domain annotation for each model (and alignments):
>> Peptidase_M10  Matrixin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   39.6   0.0   2.6e-13   4.6e-10       8     157 ..      42     194 ..      17     195 .. 0.72

  Alignments for each domain:
  == domain 1  score: 39.6 bits;  conditional E-value: 2.6e-13
                              EEEESSSXTT...SXHHHHHHHHHHHHHHHHTTSSSEEEEE...SSSCESEEEEEESSSSSSSSSXBSSSS....ESEEEBSSSST CS
                              xxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxx RF
            Peptidase_M10   8 tyrilnetpd...leeeevrkairrAfkvwsevtplkFtev...kkgeadikieFgrgehgdgypfdgkgg....vlahafapgeg 83 
                              t  i+ ++++   l+e  v++   +  + w+ +++++ ++     k++ad++  + +   +d+  f+g+g     +++ +   ge 
  PHY93_18120|PHY93_18120  42 TVDIFVNSQNdqgLSEPVVQSIAGNSIDEWNGQSKINLRKNttlGKDQADLNELYFS---SDSSIFNGSGVvgitLVGFNETNGEI 124
                              444433332224588888888888899999988888777765567788888877764...45666666654333334444444555 PP

                              TTTEEEEETTS-EESSTS-.SSSEEHHHHHHHHHHHHTTBESXSSTTSTTSSSCTXTTTXSSXHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
            Peptidase_M10  84 lggdihfdddeqWtlgeekveqgvslflVaaHEiGHalGLeHssdkdalmyplykeekkvrlskdDvkgiqelY 157
                               ++di + d+  ++++    +++  l  V +HE+GH lGL H ++ ++ m+  ++ + ++++ +dD +g+ ++Y
  PHY93_18120|PHY93_18120 125 ASADILISDNYFFSTDP---TAANYLGNVITHEVGHFLGLGHGQVAGSTMFYALT-QGQNKIADDDKAGLYSIY 194
                              56666666665555553...5677899***********************98886.57889*********9999 PP

>> Reprolysin_3  Metallo-peptidase family M12B Reprolysin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.5   0.1   1.3e-06    0.0023      44     123 ..      70     163 ..      47     164 .. 0.68

  Alignments for each domain:
  == domain 1  score: 18.5 bits;  conditional E-value: 1.3e-06
             Reprolysin_3  44 tealdelaevtaeaergqagyDlvhlftarde.....sgvgGlAyvgsvcnsskk..........agvnsgssvlgkvga...... 108
                              +++ +++ ++++++  g++++Dl  l   +d+     sgv G+  vg   ++++           +          +++       
  PHY93_18120|PHY93_18120  70 EWNGQSKINLRKNTTLGKDQADLNELYFSSDSsifngSGVVGITLVGFNETNGEIasadilisdnY--------FFSTDPtaanyl 147
                              445555556666677899*****9987777887988888888877754444444445333344322........222222444555 PP

             Reprolysin_3 109 .dtvaHEiGHnfganH 123
                               ++++HE+GH +g+ H
  PHY93_18120|PHY93_18120 148 gNVITHEVGHFLGLGH 163
                              5**************9 PP

>> DUF4953  Met-zincin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   0.2     3e-06    0.0053       7      35 ..     141     169 ..     138     175 .. 0.80

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 3e-06
                  DUF4953   7 elmgallrfvvaHEvGhtLGLrhNfaASs 35 
                                + ++l  v++HEvGh LGL h   A s
  PHY93_18120|PHY93_18120 141 PTAANYLGNVITHEVGHFLGLGHGQVAGS 169
                              567789999**************765544 PP

>> Peptidase_M43  Pregnancy-associated plasma protein-A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.1   5.1e-06    0.0092      56      86 ..     133     165 ..      98     194 .. 0.75

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 5.1e-06
            Peptidase_M43  56 Gaylaa.dststnk.sstLthelGhfLgLihtf 86 
                               +y+ + d+t  n    ++the+GhfLgL h  
  PHY93_18120|PHY93_18120 133 DNYFFStDPTAANYlGNVITHEVGHFLGLGHGQ 165
                              4566655788777526799**********9965 PP

>> CarboxypepD_reg  Carboxypeptidase regulatory-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0   1.1e-05      0.02       2      52 ..     204     257 ..     203     264 .. 0.83

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 1.1e-05
          CarboxypepD_reg   2 isGrVtdasg.apiagatVtvtnadtgtv.astttdadGafrlrglpp.gtysv 52 
                              +sG+++   g a + ga+V + +  tg+v     ++ +G+fr++glp+ ++y +
  PHY93_18120|PHY93_18120 204 LSGTIVGGKGlALVFGAHVQAISVKTGKVmGASISELNGKFRIDGLPQnDQYLI 257
                              789999987747788********99998825568**************777765 PP

>> Peptidase_M57  Dual-action HEIGH metallo-peptidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.0   0.5     8e-06     0.014      37     150 ..      39     164 ..      26     180 .. 0.70
   2 ?   -3.8   0.1       4.6   8.3e+03     182     196 ..     284     298 ..     281     302 .. 0.73

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 8e-06
            Peptidase_M57  37 svkvikiivntgsafsstsklrtgLd.laianynal.glsltfrltrgtntq..asdmvvaditaktasgaggsa..GfP.sgGlP 115
                              ++ +++i vn+ ++++++  + +++    i+ +n + +++l+ + t g+     ++   + d ++ + sg +g +  Gf  ++G+ 
  PHY93_18120|PHY93_18120  39 ASSTVDIFVNSQNDQGLSEPVVQSIAgNSIDEWNGQsKINLRKNTTLGKDQAdlNELYFSSDSSIFNGSGVVGITlvGFNeTNGEI 124
                              56788888888888887777666664278899997657777777777766653345566667777776665554233887667764 PP

            Peptidase_M57 116 .ykviqigt....glesysvdvnehvithelGhtvGlRhs 150
                                  i i+     +++ ++ +    vithe+Gh +Gl h 
  PHY93_18120|PHY93_18120 125 aSADILISDnyffSTDPTAANYLGNVITHEVGHFLGLGHG 164
                              1445666542233556666778899************996 PP

  == domain 2  score: -3.8 bits;  conditional E-value: 4.6
            Peptidase_M57 182 atsgsimnsCfssse 196
                              +  gs +++C ssse
  PHY93_18120|PHY93_18120 284 KYRGSFFQACGSSSE 298
                              456888999988776 PP

>> Reprolysin_4  Metallo-peptidase family M12B Reprolysin-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.2     2e-05     0.035      84     156 ..      82     168 ..      43     190 .. 0.64
   2 ?   -3.0   0.0       2.6   4.7e+03      42      61 ..     238     261 ..     221     265 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 2e-05
             Reprolysin_4  84 tstrdskdyDlaallrdtrasqqn.vgvawvgalclsarqnkkasgvaas..........rd....ey..difAHEiGHtfGaaHd 152
                              + t ++ ++Dl  l     +s  n  gv  +  ++   ++  ++  ++a           +d    +y  +++ HE+GH +G+ H 
  PHY93_18120|PHY93_18120  82 NTTLGKDQADLNELYFSSDSSIFNgSGVVGITLVG---FNETNGEIASADilisdnyffsTDptaaNYlgNVITHEVGHFLGLGHG 164
                              34567777777777666643333324444444444...554455444443455445555533666688999**************8 PP

             Reprolysin_4 153 lsde 156
                                 +
  PHY93_18120|PHY93_18120 165 QVAG 168
                              6654 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 2.6
             Reprolysin_4  42 rdlnvrLeli....sdqdviytds 61 
                              ++ln+++++     +dq +iyt +
  PHY93_18120|PHY93_18120 238 SELNGKFRIDglpqNDQYLIYTSP 261
                              678999998888888999999987 PP

>> Peptidase_M66  Peptidase M66
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.3   3.3e-05     0.059     191     222 ..     146     175 ..     140     181 .. 0.69

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 3.3e-05
            Peptidase_M66 191 tltgefiHEqGHalGLpHylageaaskgsypy 222
                               l+++  HE+GH lGL+H     a+s   y  
  PHY93_18120|PHY93_18120 146 YLGNVITHEVGHFLGLGH--GQVAGSTMFYAL 175
                              578999************..333333334555 PP

>> Reprolysin_5  Metallo-peptidase family M12
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.1   3.5e-05     0.062      89     159 ..      86     164 ..      37     195 .. 0.68

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 3.5e-05
             Reprolysin_5  89 gqqnddlailflmtn..fsgg...vGlAwlgqlcnsgsagsvs...trveksnsvvvstatevqvvaHElGHnfGavHD 159
                              g++++dl+ l+  ++    +g   vG+  +g  +++g+ +s +   ++++ +    + + +  +v++HE+GH +G  H 
  PHY93_18120|PHY93_18120  86 GKDQADLNELYFSSDssIFNGsgvVGITLVGFNETNGEIASADiliSDNYFFSTDPTAANYLGNVITHEVGHFLGLGHG 164
                              4445555544333330133334579999999999999855555222443443444444777789**************5 PP

>> Peptidase_M54  Peptidase family M54
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   0.00015      0.28     148     164 ..     150     166 ..     113     186 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00015
                              HHHHHHHHHTT----S- CS
            Peptidase_M54 148 evlhelGhlyGLshCke 164
                               ++he+Gh +GL+h + 
  PHY93_18120|PHY93_18120 150 VITHEVGHFLGLGHGQV 166
                              379***********875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (379 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       366  (0.0204139); expected 358.6 (0.02)
Passed bias filter:                      314  (0.0175135); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.55u 0.21s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 2756.12
//
Query:       PHY93_18125|PHY93_18125  [L=250]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.057   13.4   0.0       0.17   11.8   0.0    1.8  1  MRAP      Melanocortin-2 receptor accessory protein family


Domain annotation for each model (and alignments):
>> MRAP  Melanocortin-2 receptor accessory protein family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   9.5e-06      0.17      38      67 ..     220     249 ..     201     250 .] 0.80

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 9.5e-06
                     MRAP  38 iviafWvsLavfvvllflvLlylsksGspq 67 
                              + i fW ++a fv ++ +++  l k+ s +
  PHY93_18125|PHY93_18125 220 VPIFFWSAIAFFVFFFSFIFFKLGKTDSKH 249
                              5699********************999877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (250 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       690  (0.0384851); expected 358.6 (0.02)
Passed bias filter:                      466  (0.0259914); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.21s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 1883.05
//
Query:       PHY93_18130|PHY93_18130  [L=870]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    5.9e-12   46.3   0.2      0.011   16.2   0.1    4.1  3  ABC_tran       ABC transporter
    1.7e-09   38.0   0.0    4.3e-09   36.7   0.0    1.7  1  UvrA_DNA-bind  UvrA DNA-binding domain
      9e-07   28.5   0.1       0.43   10.0   0.0    3.4  3  PhoH           PhoH-like protein
    1.7e-06   28.3   4.8     0.0032   17.8   1.3    3.5  3  DnaJ_CXXCXGXG  DnaJ central domain
    4.4e-06   26.3   2.7       0.21   11.0   0.1    3.9  3  SMC_N          RecF/RecN/SMC N terminal domain
    8.6e-06   25.6   0.5      0.037   13.7   0.1    3.2  3  AAA_24         AAA domain
      2e-05   24.9   0.3        1.7    8.9   0.0    3.9  4  AAA_22         AAA domain
    2.1e-05   24.2   0.0      0.001   18.8   0.0    2.4  2  AAA_29         P-loop containing region of AAA domain
    4.4e-05   23.4   2.2        1.7    8.4   0.0    3.8  4  AAA_21         AAA domain, putative AbiEii toxin, Type IV TA 
      9e-05   22.9   0.0       0.21   11.9   0.0    2.8  2  AAA_16         AAA ATPase domain
    9.7e-05   22.3   0.1      0.082   12.8   0.0    2.4  2  RsgA_GTPase    RsgA GTPase
    0.00038   20.3   6.3     0.0063   16.4   0.2    3.3  3  Anti-TRAP      Tryptophan RNA-binding attenuator protein inhi
    0.00045   19.9   0.0          1    8.9   0.0    2.9  3  AAA_25         AAA domain
    0.00097   19.5   0.0        1.4    9.3   0.0    2.6  2  RNA_helicase   RNA helicase
     0.0011   18.9   0.4        1.1    9.3   0.0    3.6  3  HypA           Hydrogenase/urease nickel incorporation, metal
     0.0019   17.7   0.1       0.66    9.5   0.0    2.4  2  AAA_7          P-loop containing dynein motor region
  ------ inclusion threshold ------
      0.013   16.0   0.1      0.013   16.0   0.1    3.7  3  AAA_23         AAA domain
      0.014   15.3   0.0        5.4    6.9   0.0    2.5  2  NACHT          NACHT domain
      0.016   15.6   0.0          4    7.9   0.0    2.7  2  AAA            ATPase family associated with various cellular
      0.033   13.9   0.9         15    5.2   0.0    3.4  3  IstB_IS21      IstB-like ATP binding protein
      0.048   13.2   0.1         10    5.7   0.0    2.7  2  cobW           CobW/HypB/UreG, nucleotide-binding domain
      0.057   13.6   0.0        1.8    8.8   0.0    2.6  2  Roc            Ras of Complex, Roc, domain of DAPkinase
       0.13   12.8   0.1          8    7.0   0.0    3.1  2  AAA_18         AAA domain
       0.17   11.9   0.0        7.4    6.6   0.0    2.8  2  CbiA           CobQ/CobB/MinD/ParA nucleotide binding domain
        0.2   11.8   0.1         19    5.4   0.0    2.6  2  AAA_33         AAA domain
       0.21   11.6   1.3         12    6.0   0.0    3.2  2  zinc_ribbon_6  Zinc-ribbon
       0.24   11.1   0.0         22    4.7   0.0    3.1  3  AAA_30         AAA domain
        3.6    7.2  11.0         25    4.5   0.7    4.6  5  TF_Zn_Ribbon   TFIIB zinc-binding


Domain annotation for each model (and alignments):
>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.1   1.8e-05     0.011       1      28 [.      21      48 ..      21      58 .. 0.91
   2 !    8.8   0.0    0.0035       2.2      76     136 ..     435     499 ..     385     500 .. 0.77
   3 !   15.4   0.0   3.2e-05      0.02      11     126 ..     601     816 ..     591     824 .. 0.74

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 1.8e-05
                             EEEEEEEEETTSEEEEEESTTSSHHHHH CS
                             xxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  1 lknvslklkegekvaivGenGaGKStLl 28
                             lkn++++++ ++++ + G++G+GKS+L+
  PHY93_18130|PHY93_18130 21 LKNINVDIRINKITCVAGPSGSGKSSLA 48
                             79************************96 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.0035
                              HHHH.....HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHH..HTSSEEEEESTT CS
                              xxxx.....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxx RF
                 ABC_tran  76 vren.....esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarall..kkpkllllDEpt 136
                              ++e+     ++ e++++++  lgl +l++t+     +s+S  + qr+ l + l     ++l++lDEp+
  PHY93_18130|PHY93_18130 435 IHEKmgntfNKLERLYAVAVDLGLGHLQNTRK---VRSMSSSEYQRLLLSKYLSyeGSQSLFVLDEPS 499
                              33336666788889999999******888874...7***************998334689******95 PP

  == domain 3  score: 15.4 bits;  conditional E-value: 3.2e-05
                              TSEEEEEESTTSSHHHHH.HHHTTSS--..SEEEEEETTCEGGG.B-HHHCCHCEEEE-SS--S-TTSBHHHH............. CS
                              xxxxxxxxxxxxxxxxxx.xxxxxxxxx..xxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxx............. RF
                 ABC_tran  11 gekvaivGenGaGKStLl.kllagllkp..teGeilldgkdlke.qeleslrkeigvlpqepqlfpeltvren............. 79 
                              + +    Ge+G+GK+++l  lla+++++     ++ +++ ++k+ + +e ++  i + +  +++ p++tv++              
  PHY93_18130|PHY93_18130 601 NAINWAYGESGTGKTSFLvHLLANEVHKkvFGTRLSFEDYKFKKlKGIEDFKDVILINSGLDKVSPRSTVATFtdlgvfvrkyfag 686
                              555556799*****886515666666653222334555555555777888888888888889999999999889999999999999 PP

                              ...................................................................................... CS
                              ...................................................................................... RF
                 ABC_tran  80 ...................................................................................... 79 
                                                                                                                    
  PHY93_18130|PHY93_18130 687 lemskklnlkeghfssnselgqcstcegrgvklvemhfmedvefvcedcqgkklkpyyanisdgnitvyeafskpiseilphirlt 772
                              99999999999999999999999999999999999999999999999999999999999999999988885555555555555444 PP

                              HHHTCHHHHHHHSTTGGTTCBGESTTSGGS-HHHHHHHHHHHHHHHT CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                 ABC_tran  80 esdeeiekalsklglkelkdtvvksspssLSgGqkqrvalarallkk 126
                               + ++i ++ + l+l+      +++  +sLSgG++qr++l  +l kk
  PHY93_18130|PHY93_18130 773 PKGKRIWEYFKILKLD---YLSLDRTLTSLSGGERQRLQLLSLLDKK 816
                              4444444444444444...44444446*************9988766 PP

>> UvrA_DNA-bind  UvrA DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   36.7   0.0   6.8e-12   4.3e-09       1      93 [.     285     377 ..     285     389 .. 0.83

  Alignments for each domain:
  == domain 1  score: 36.7 bits;  conditional E-value: 6.8e-12
                              -S----.-----------GGG..TT-HHHHHHHHHHHTTTS------------S-THHHHH----...................-- CS
            UvrA_DNA-bind   1 DpdlvvpdpslslaegAiapwsskkssyyrqlleavaehygidldtpfkeLpeeqkdilLyGsgeekikveyksggrkrsyektfe 86 
                              D +++v+dp++s++ gAi+ +  ++ +  ++++   ++++gid+d+pf+eLpe++   l  G g+ +    y ++ r+ +y+k+++
  PHY93_18130|PHY93_18130 285 DREKLVKDPTKSIRGGAINFLLFSRFEHMFTTFLRECKKVGIDIDKPFQELPESKWTFLYLGGGKYEGFNAYFEYLRSLRYKKNIR 370
                              899******************888888889999999************************99998766666666666666666665 PP

                              -HHHHHH CS
            UvrA_DNA-bind  87 Gvipnle 93 
                                ++ ++
  PHY93_18130|PHY93_18130 371 IYVRSMQ 377
                              5555555 PP

>> PhoH  PhoH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.0   0.0   0.00068      0.43       6      46 ..      18      58 ..      13      64 .. 0.77
   2 !    6.5   0.0    0.0082       5.2      62     115 ..     497     551 ..     460     557 .. 0.77
   3 !    7.9   0.0    0.0029       1.9      15      46 ..     597     628 ..     585     636 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.00068
                             SHHHHHHHHHHHH-SEEEEE--TTSSTTHHHHHHHHHHHHT CS
                     PhoH  6 tkeQkeylealkkndivfaiGpaGtGKtylavalavealkk 46
                             t++ k++   ++ n+i++++Gp+G+GK+ la  + ++  k+
  PHY93_18130|PHY93_18130 18 THNLKNINVDIRINKITCVAGPSGSGKSSLAFHTLLTESKR 58
                             55556666678899*****************9876665555 PP

  == domain 2  score: 6.5 bits;  conditional E-value: 0.0082
                              T----SS---------TTTHHHHHHHTTTS..-TTCHHHHHHTTSEEEEEGGGGTT CS
                     PhoH  62 geelGflpgdleekvdpylrplydaLkdll..gaekvekllekgkievaplaymRG 115
                              + +lG +++ ++ek+  ylr l d+ ++++  +++++ k++ +++ie+ p a  RG
  PHY93_18130|PHY93_18130 497 EPSLGLTQT-TQEKMVKYLRLLRDQGNTIImvEHSEYLKAMADEVIEMGPAAGERG 551
                              557887776.79*************9998722455566779999****99999988 PP

  == domain 3  score: 7.9 bits;  conditional E-value: 0.0029
                              HHHH-SEEEEE--TTSSTTHHHHHHHHHHHHT CS
                     PhoH  15 alkkndivfaiGpaGtGKtylavalavealkk 46 
                               ++kn i  a G++GtGKt + v l ++ ++k
  PHY93_18130|PHY93_18130 597 LIQKNAINWAYGESGTGKTSFLVHLLANEVHK 628
                              477999*************8776665555555 PP

>> DnaJ_CXXCXGXG  DnaJ central domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2   0.0      0.01       6.5      17      52 ..     245     280 ..     234     292 .. 0.56
   2 ?    2.2   0.0      0.38   2.4e+02      41      50 ..     379     388 ..     364     399 .. 0.64
   3 !   17.8   1.3     5e-06    0.0032      12      50 ..     704     738 ..     696     742 .. 0.73

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.01
            DnaJ_CXXCXGXG  17 CktCkGsG.vvreeqkt.lgpfvqqsqstCpeCeGtGk 52 
                              C+ C+ +  + ++ + + l+p+       Cp+CeG+G 
  PHY93_18130|PHY93_18130 245 CPYCDKKAlEAKVGHIEsLSPLN--ALGACPKCEGHGM 280
                              66666666332222222233322..3346777777665 PP

  == domain 2  score: 2.2 bits;  conditional E-value: 0.38
            DnaJ_CXXCXGXG  41 qstCpeCeGt 50 
                              +  C++CeGt
  PHY93_18130|PHY93_18130 379 EILCEDCEGT 388
                              4455555554 PP

  == domain 3  score: 17.8 bits;  conditional E-value: 5e-06
            DnaJ_CXXCXGXG  12 gkkktCktCkGsGvvreeqktlgpfvqqsqstCpeCeGt 50 
                              ++  +C+tC+G+Gv+ +e+     f++ ++  C++C+G+
  PHY93_18130|PHY93_18130 704 SELGQCSTCEGRGVKLVEM----HFMEDVEFVCEDCQGK 738
                              44668********533332....36778899*******8 PP

>> SMC_N  RecF/RecN/SMC N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.0   0.1   0.00032      0.21       3      40 ..       9      47 ..       7      62 .. 0.74
   2 !    6.4   0.1    0.0082       5.3     157     211 ..     488     543 ..     135     550 .. 0.83
   3 !    6.3   0.0    0.0089       5.7     122     204 ..     761     864 ..     580     869 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 0.00032
                             EEEEEESETTEECEEEEEETT.SSEEEEEESTTSSHHHH CS
                             xxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxx RF
                    SMC_N  3 krleienFksyagktvilpfs.ksftaivGpNGSGKsnl 40
                             ++++i++ ++ + k++ +++  +++t++ Gp GSGKs+l
  PHY93_18130|PHY93_18130  9 HSIQIRGARTHNLKNINVDIRiNKITCVAGPSGSGKSSL 47
                             5667777666655555555542459************98 PP

  == domain 2  score: 6.4 bits;  conditional E-value: 0.0082
                              S--SEEEECTTTTTS-HHHHHHHHHHHHHHCTTSEEEEE-SSHHHCCC-.SCEEEE CS
                              xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxx RF
                    SMC_N 157 kpaplyllDeidaaLDeknvkkvaellkeksknaQfivislreemleka.dklvgv 211
                                ++l++lDe    L ++  +k++++l+  +++   i++  ++e l+ + d+++ +
  PHY93_18130|PHY93_18130 488 GSQSLFVLDEPSLGLTQTTQEKMVKYLRLLRDQGNTIIMVEHSEYLKAMaDEVIEM 543
                              5689************************9999977666655555555443877765 PP

  == domain 3  score: 6.3 bits;  conditional E-value: 0.0089
                              HHHHHHHCTT-STT.......................CS-HHHHH.HHHHHHHHHHHCCS--SEEEECTTTTTS-HHHHHHHHHHH CS
                              xxxxxxxxxxxxxx.......................xxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 122 evsellesagiske.......................lLSgGekt.LvalaLlfAiqkvkpaplyllDeidaaLDeknvkkvaell 183
                               +se+l++ +++++                       +LSgGe++ L  l+Ll    k   + l ++ ++ + L  ++ + +aell
  PHY93_18130|PHY93_18130 761 PISEILPHIRLTPKgkriweyfkilkldylsldrtltSLSGGERQrLQLLSLL---DKKVESTLIIFENLTSGLSYHEFEPLAELL 843
                              34444444444444777777777777777777788889*****8625566665...9999999*********************** PP

                              HHHCTTSEEEEE-SSHHHCCC CS
                              xxxxxxxxxxxxxxxxxxxxx RF
                    SMC_N 184 keksknaQfivislreemlek 204
                              ++   +   +v+  ++ ++ k
  PHY93_18130|PHY93_18130 844 HQLAGSGNTLVVIDQNSFFDK 864
                              *99988888888777776665 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.2   0.0    0.0057       3.6       4      22 ..      33      51 ..      30      63 .. 0.81
   2 ?    0.8   0.0      0.55   3.5e+02     107     132 ..     506     531 ..     503     557 .. 0.85
   3 !   13.7   0.1   5.8e-05     0.037       6      56 ..     605     655 ..     600     676 .. 0.87

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.0057
                   AAA_24  4 kiliyGpsgiGKTtlakel 22
                               ++ Gpsg+GK++la + 
  PHY93_18130|PHY93_18130 33 ITCVAGPSGSGKSSLAFHT 51
                             579************9876 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.55
                   AAA_24 107 laeefrrllkklqelrknvifiahek 132
                               +e+++++l+ l++ ++++i++ h++
  PHY93_18130|PHY93_18130 506 TQEKMVKYLRLLRDQGNTIIMVEHSE 531
                              57899999999999999*****9987 PP

  == domain 3  score: 13.7 bits;  conditional E-value: 5.8e-05
                   AAA_24   6 liyGpsgiGKTtlakelgpkplfidtekGlksldadkfpdieswedfldev 56 
                              + yG+sg+GKT+++ +l  + +   +++   s ++ kf++++++edf+d +
  PHY93_18130|PHY93_18130 605 WAYGESGTGKTSFLVHLLANEVHKKVFGTRLSFEDYKFKKLKGIEDFKDVI 655
                              78***************8888888888888899999999999999999876 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.9   0.0    0.0026       1.7       6      35 ..      32      61 ..      29     101 .. 0.76
   2 ?    4.0   0.1      0.09        58      57     122 ..     449     522 ..     409     532 .. 0.71
   3 ?    6.8   0.0     0.012       7.6      11      30 ..     607     626 ..     600     686 .. 0.67
   4 ?   -1.6   0.0       4.8   3.1e+03      60      98 ..     823     857 ..     804     862 .. 0.72

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.0026
                   AAA_22  6 gilvvtGesGtGKTtllrrlleqldeeaka 35
                             +i++v G+sG+GK+ l+   l +  ++ ++
  PHY93_18130|PHY93_18130 32 KITCVAGPSGSGKSSLAFHTLLTESKRRFI 61
                             6899***********997777766555554 PP

  == domain 2  score: 4.0 bits;  conditional E-value: 0.09
                   AAA_22  57 lrellralglelkaerlsseell.ealeqalrarav.....ielliiDEaqh.lr...seealeeLrsllnlsrkg 122
                              l +++ +lgl++  ++ + + +  +  ++ l +++      ++l+++DE    l+   +e+++++Lr l +  + +
  PHY93_18130|PHY93_18130 449 LYAVAVDLGLGHLQNTRKVRSMSsSEYQRLLLSKYLsyegsQSLFVLDEPSLgLTqttQEKMVKYLRLLRD--QGN 522
                              455555566656555555666666677777777777777799**********9987655*******99999..554 PP

  == domain 3  score: 6.8 bits;  conditional E-value: 0.012
                   AAA_22  11 tGesGtGKTtllrrlleqld 30 
                              +GesGtGKT  l  ll + +
  PHY93_18130|PHY93_18130 607 YGESGTGKTSFLVHLLANEV 626
                              7********99999888764 PP

  == domain 4  score: -1.6 bits;  conditional E-value: 4.8
                   AAA_22  60 llralglelkaerlsseellealeqalraravielliiD 98 
                              ++++l+++l++    + e l+ l ++l   +   l++iD
  PHY93_18130|PHY93_18130 823 IFENLTSGLSY---HEFEPLAELLHQLAGSGN-TLVVID 857
                              55666666666...555556566666666666.699999 PP

>> AAA_29  P-loop containing region of AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.0   1.6e-06     0.001      16      55 ..      25      62 ..      16      65 .. 0.83
   2 ?    2.6   0.0      0.18   1.1e+02      23      39 ..     602     618 ..     589     626 .. 0.75

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 1.6e-06
                   AAA_29 16 tieidlkgatlltGpsGsGKSTllDAiqalLvpakkvrfN 55
                              ++i+ + +t ++GpsGsGKS+l  A+ +lL+ +k++  N
  PHY93_18130|PHY93_18130 25 NVDIRINKITCVAGPSGSGKSSL--AFHTLLTESKRRFIN 62
                             566777789**************..7******99977777 PP

  == domain 2  score: 2.6 bits;  conditional E-value: 0.18
                   AAA_29  23 gatlltGpsGsGKSTll 39 
                               +    G+sG+GK+++l
  PHY93_18130|PHY93_18130 602 AINWAYGESGTGKTSFL 618
                              466678*******9987 PP

>> AAA_21  AAA domain, putative AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6   0.0     0.038        24       1      15 [.      33      47 ..      33      82 .. 0.92
   2 !    8.4   0.0    0.0027       1.7     244     301 ..     478     533 ..     405     535 .. 0.86
   3 ?   -1.9   0.0       3.5   2.3e+03       5      16 ..     607     618 ..     607     652 .. 0.92
   4 !    7.4   0.2    0.0052       3.3     231     292 ..     793     853 ..     746     856 .. 0.83

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.038
                   AAA_21  1 lnvliGpNgsGKSnL 15
                             ++++ Gp gsGKS+L
  PHY93_18130|PHY93_18130 33 ITCVAGPSGSGKSSL 47
                             7999*********98 PP

  == domain 2  score: 8.4 bits;  conditional E-value: 0.0027
                   AAA_21 244 llalltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQviltTHSpll 301
                              l  l  +l +  +  sl+++DEp +gL    +++ ++ l++l++ g  +i++ HS +l
  PHY93_18130|PHY93_18130 478 L-LLSKYLSYEGSQ-SLFVLDEPSLGLTQTTQEKMVKYLRLLRDQGNTIIMVEHSEYL 533
                              4.555556666666.***********************************99998776 PP

  == domain 3  score: -1.9 bits;  conditional E-value: 3.5
                   AAA_21   5 iGpNgsGKSnLL 16 
                              +G  g+GK+++L
  PHY93_18130|PHY93_18130 607 YGESGTGKTSFL 618
                              7999******98 PP

  == domain 4  score: 7.4 bits;  conditional E-value: 0.0052
                   AAA_21 231 elparelSdGtkrllalltallralkkgsllliDEpEngLHPkllrrllellkelsrngaQv 292
                              ++++++lS G ++    l++ll+   +++l++++ + +gL ++  + l+ell +l+  g  +
  PHY93_18130|PHY93_18130 793 DRTLTSLSGGERQR-LQLLSLLDKKVESTLIIFENLTSGLSYHEFEPLAELLHQLAGSGNTL 853
                              5678999*******.7777777777777***************9999999997776655555 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.9   0.0   0.00033      0.21      25      55 ..      32      60 ..      14     122 .. 0.84
   2 !    7.8   0.0    0.0064       4.1      30      58 ..     607     635 ..     605     662 .. 0.76

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00033
                   AAA_16 25 elvllsGesGvGKsslv.rellralekdggif 55
                              ++ + G+sG+GKssl+  +ll++ +++   f
  PHY93_18130|PHY93_18130 32 KITCVAGPSGSGKSSLAfHTLLTESKRR---F 60
                             57889************66666655555...4 PP

  == domain 2  score: 7.8 bits;  conditional E-value: 0.0064
                   AAA_16  30 sGesGvGKsslv.rellralekdggif.lrg 58 
                              +GesG+GK+s +   l++++ k+  +f +r 
  PHY93_18130|PHY93_18130 607 YGESGTGKTSFLvHLLANEVHKK--VFgTRL 635
                              7********98846666677777..223444 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.8   0.0   0.00013     0.082      81     116 ..      12      48 ..       2      62 .. 0.78
   2 !    6.9   0.0    0.0086       5.5      98     123 ..     600     625 ..     569     638 .. 0.74

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 0.00013
                              E--TTTHTTHHHHHHHCTT.SEEEEECSTTSSHHHHH CS
              RsgA_GTPase  81 lvsaktkegleelkellkd.ktsvlvGqSGvGKStLi 116
                               ++  ++++l++++  ++  k+++++G+SG GKS+L 
  PHY93_18130|PHY93_18130  12 QIRGARTHNLKNINVDIRInKITCVAGPSGSGKSSLA 48 
                              55556677888999888876***************96 PP

  == domain 2  score: 6.9 bits;  conditional E-value: 0.0086
                              TTSEEEEECSTTSSHHHHHHHHCTT- CS
              RsgA_GTPase  98 kdktsvlvGqSGvGKStLinallpel 123
                              k+ +    G+SG GK++++ +ll ++
  PHY93_18130|PHY93_18130 600 KNAINWAYGESGTGKTSFLVHLLANE 625
                              34777889*********988887754 PP

>> Anti-TRAP  Tryptophan RNA-binding attenuator protein inhibitory protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.2   9.9e-06    0.0063       8      51 ..     240     290 ..     232     292 .. 0.75
   2 ?   -1.7   0.1       4.6     3e+03      10      19 ..     379     388 ..     374     393 .. 0.79
   3 ?    5.6   0.2     0.025        16      12      43 ..     708     742 ..     703     745 .. 0.81

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 9.9e-06
                              HCEEE-TTTTTT......SEETTE.......E-TTTTTSSEEE-HHHHHHH CS
                Anti-TRAP   8 eLEtkCdaCngs......Gkiepeeprasl.eCPkCsGkglipTaqGqkLl 51 
                               LE kC+ C++       G+ie+  p  +l  CPkC+G+g+ +  + +kL+
  PHY93_18130|PHY93_18130 240 RLELKCPYCDKKaleakvGHIESLSPLNALgACPKCEGHGMRLIYDREKLV 290
                              59*******86322223388888888777757********98887777775 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 4.6
                              EEE-TTTTTT CS
                Anti-TRAP  10 EtkCdaCngs 19 
                              E  C+ C+g+
  PHY93_18130|PHY93_18130 379 EILCEDCEGT 388
                              6678999887 PP

  == domain 3  score: 5.6 bits;  conditional E-value: 0.025
                              E-TTTTTTSEETTE.........E-TTTTTSSEEE CS
                Anti-TRAP  12 kCdaCngsGkiepe...eprasleCPkCsGkglip 43 
                              +C +C+g G    e    +   + C +C+Gk+l p
  PHY93_18130|PHY93_18130 708 QCSTCEGRGVKLVEmhfMEDVEFVCEDCQGKKLKP 742
                              6999***99988885555567889*******9866 PP

>> AAA_25  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.9   0.0    0.0065       4.2      33      56 ..      31      54 ..      12      69 .. 0.84
   2 !    8.9   0.0    0.0016         1      29      61 ..     597     629 ..     584     642 .. 0.81
   3 ?   -0.9   0.0       1.6     1e+03     102     154 ..     806     862 ..     790     868 .. 0.65

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.0065
                   AAA_25 33 gelallaGapgtGKttlaldlala 56
                             ++++ +aG++g+GK+ la +  l+
  PHY93_18130|PHY93_18130 31 NKITCVAGPSGSGKSSLAFHTLLT 54
                             678899************998775 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 0.0016
                   AAA_25  29 llpagelallaGapgtGKttlaldlalavatGk 61 
                              l+ +++++  +G +gtGKt ++++l +  +  k
  PHY93_18130|PHY93_18130 597 LIQKNAINWAYGESGTGKTSFLVHLLANEVHKK 629
                              6778888899***************99877644 PP

  == domain 3  score: -0.9 bits;  conditional E-value: 1.6
                   AAA_25 102 rllvldlagv..eslpLfakdrggtlltadvdaleaaieeveg..vrlvviDplsra 154
                              rl++l+l ++  es+ ++++   + l   +++ l++ + + +g    lvviD  s++
  PHY93_18130|PHY93_18130 806 RLQLLSLLDKkvESTLIIFENLTSGLSYHEFEPLAELLHQLAGsgNTLVVIDQNSFF 862
                              55555544443333333344444444566788899999988877799*****87776 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    7.4   0.0    0.0087       5.6       2      26 ..      35      56 ..      34      79 .. 0.72
   2 !    9.3   0.0    0.0023       1.4       2      26 ..     605     630 ..     604     652 .. 0.79

  Alignments for each domain:
  == domain 1  score: 7.4 bits;  conditional E-value: 0.0087
             RNA_helicase  2 wlyGpsgeGKStlakeLakallkkl 26
                             ++ Gpsg GKS+la +   +ll+++
  PHY93_18130|PHY93_18130 35 CVAGPSGSGKSSLAFH---TLLTES 56
                             689***********99...444333 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.0023
             RNA_helicase   2 wlyGpsgeGKStlake.Lakallkkl 26 
                              w yG+sg+GK+++  + La+++ kk+
  PHY93_18130|PHY93_18130 605 WAYGESGTGKTSFLVHlLANEVHKKV 630
                              99********9876553777777665 PP

>> HypA  Hydrogenase/urease nickel incorporation, metallochaperone, hypA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.3   0.0    0.0017       1.1      68     108 ..     240     291 ..     215     294 .. 0.84
   2 ?    1.8   0.0      0.36   2.3e+02      44      79 ..     353     388 ..     347     398 .. 0.81
   3 ?    3.1   0.1      0.14        90      66      97 ..     702     740 ..     678     746 .. 0.63

  Alignments for each domain:
  == domain 1  score: 9.3 bits;  conditional E-value: 0.0017
                              --EEEETTTS-EEECHHH.HH..........S-TTTSSS-EEEEESSSEEEE CS
                     HypA  68 pvkvrCreCgkefeleek.al..........rCpkCgsadveivsGeellvk 108
                              +++++C  C+k+  +++  ++           CpkC++++++++  +e lvk
  PHY93_18130|PHY93_18130 240 RLELKCPYCDKKALEAKVgHIeslsplnalgACPKCEGHGMRLIYDREKLVK 291
                              67899*****9888775333367899****************9999988776 PP

  == domain 2  score: 1.8 bits;  conditional E-value: 0.36
                              HHHHHHHHHCC.TTTT-EEEEEEE--EEEETTTS-E CS
                     HypA  44 LefafellaegtvlegaeLeieevpvkvrCreCgke 79 
                              ++ +fe l++    ++ ++ +++++ ++ C++C+ +
  PHY93_18130|PHY93_18130 353 FNAYFEYLRSLRYKKNIRIYVRSMQREILCEDCEGT 388
                              5677888888888889999999999********844 PP

  == domain 3  score: 3.1 bits;  conditional E-value: 0.14
                              EE--EEEETTTS-EEE.CHH.HHH......S-TTTSSS-E CS
                     HypA  66 evpvkvrCreCgkefe.lee.kal......rCpkCgsadv 97 
                              + +   +C++C+ ++  l e + +       C++C+++++
  PHY93_18130|PHY93_18130 702 SNSELGQCSTCEGRGVkLVEmH-FmedvefVCEDCQGKKL 740
                              4555567888877665333331.13334448888888766 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   0.0     0.015       9.6      30      60 ..      28      58 ..       3      70 .. 0.75
   2 !    9.5   0.0     0.001      0.66      20      69 ..     588     637 ..     572     644 .. 0.76

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.015
                    AAA_7 30 lknkkpvllvGptGtGKtviikd.llkkldke 60
                             ++ +k +++ Gp+G+GK++++ + ll++ + +
  PHY93_18130|PHY93_18130 28 IRINKITCVAGPSGSGKSSLAFHtLLTESK-R 58
                             567788999**********99884554444.4 PP

  == domain 2  score: 9.5 bits;  conditional E-value: 0.001
                    AAA_7  20 vrysyllelllknkkpvllvGptGtGKtviikdllkkldkekylsltinf 69 
                              +r+ +  ell++++     +G++GtGKt+ + +ll +  ++k+  + ++f
  PHY93_18130|PHY93_18130 588 IRNLHKKELLIQKNAINWAYGESGTGKTSFLVHLLANEVHKKVFGTRLSF 637
                              5666666788999999999************9966665557666666666 PP

>> AAA_23  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   16.0   0.1   2.1e-05     0.013       1     163 [.      10     214 ..      10     220 .. 0.58
   2 ?   -1.0   0.7       3.4   2.2e+03     103     103 ..     449     449 ..     301     604 .. 0.57
   3 ?    1.0   0.6      0.83   5.3e+02      25      36 ..     607     618 ..     588     623 .. 0.87

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 2.1e-05
                   AAA_23   1 kLkienfrsf..rdqeidF.skgltlItGpNGaGKTTildAiklaLygetprlsrks.........grgfeksdveiese...... 68 
                              +++i++ r +  ++ ++d   +++t++ Gp G+GK+++  A++  L++ ++r+ ++                + ve+ s       
  PHY93_18130|PHY93_18130  10 SIQIRGARTHnlKNINVDIrINKITCVAGPSGSGKSSL--AFHTLLTESKRRFINSLptdmkffweI----PHTVEVDSIypvlpa 89 
                              6999******665555566888***************9..788888886554433323322222210....122222111333333 PP

                   AAA_23  69 ......gkvkayveltfenkdgry....................trsiererelskkkgkttkkaklellei....deleqfisel 124
                                    + v+++  + +   +g++                     +++++ +++++k +  +++++++++ +    ++ +++is++
  PHY93_18130|PHY93_18130  90 wglpqhNPVNNSRPVALDALGGHErvqkifmelgnfvcpdhhvpFQKVSNLINVISKIEAHKNFDAEDIIHVfigrEDYKKYISDE 175
                              33333322233322222222222244555555666666666666666666667777777777777777776677777777777777 PP

                   AAA_23 125 lgskkiilnlilflgqerfeefelkdkkerleelekele 163
                              ++ + +  + ++++ +e+ ++++   k   l+ l+++l+
  PHY93_18130|PHY93_18130 176 MNPNRSMGTSVQIFNEEDPWYELVRVKGRNLNVLNNKLK 214
                              777766667777777777777666666666666666665 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 3.4
                   AAA_23 103 t 103
                               
  PHY93_18130|PHY93_18130 449 L 449
                              0 PP

  == domain 3  score: 1.0 bits;  conditional E-value: 0.83
                   AAA_23  25 tGpNGaGKTTil 36 
                              +G+ G+GKT++l
  PHY93_18130|PHY93_18130 607 YGESGTGKTSFL 618
                              8*********97 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   0.0      0.02        13       3      19 ..      34      50 ..      32      75 .. 0.77
   2 ?    6.9   0.0    0.0084       5.4       4      31 ..     605     632 ..     603     641 .. 0.78

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.02
                             EEEEC-TTTCHHHHHHH CS
                    NACHT  3 vilqGeaGsGKTtLlqk 19
                              ++ G++GsGK+ L+ +
  PHY93_18130|PHY93_18130 34 TCVAGPSGSGKSSLAFH 50
                             799***********854 PP

  == domain 2  score: 6.9 bits;  conditional E-value: 0.0084
                              EEEC-TTTCHHHHHHHHHHHHCTS-SCC CS
                    NACHT   4 ilqGeaGsGKTtLlqklalawaegklpq 31 
                              +  Ge+G GKT +l +l     ++k ++
  PHY93_18130|PHY93_18130 605 WAYGESGTGKTSFLVHLLANEVHKKVFG 632
                              567***********99987666666665 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.8   0.0     0.054        35       2      28 ..      35      62 ..      34      71 .. 0.83
   2 ?    7.9   0.0    0.0062         4       4      27 ..     607     631 ..     605     664 .. 0.78

  Alignments for each domain:
  == domain 1  score: 4.8 bits;  conditional E-value: 0.054
                             EEESSTTSSHHHHH.HHHHHHHTHEEEE CS
                      AAA  2 llyGppGtGKTlla.kavakelgvefle 28
                             ++ Gp G GK++la + + +e++++f++
  PHY93_18130|PHY93_18130 35 CVAGPSGSGKSSLAfHTLLTESKRRFIN 62
                             789********99857788888888876 PP

  == domain 2  score: 7.9 bits;  conditional E-value: 0.0062
                              ESSTTSSHHH.HHHHHHHHHTHEEE CS
                      AAA   4 yGppGtGKTl.lakavakelgvefl 27 
                              yG  GtGKT+ l++ +a+e++ +++
  PHY93_18130|PHY93_18130 607 YGESGTGKTSfLVHLLANEVHKKVF 631
                              9********7479999**9865554 PP

>> IstB_IS21  IstB-like ATP binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.2   0.0     0.024        15      45      65 ..      29      49 ..       9      56 .. 0.82
   2 ?    4.6   0.0     0.037        24      15      67 ..     568     621 ..     557     640 .. 0.74
   3 ?   -0.5   0.0       1.3   8.6e+02     123     154 ..     802     836 ..     774     857 .. 0.60

  Alignments for each domain:
  == domain 1  score: 5.2 bits;  conditional E-value: 0.024
                IstB_IS21 45 ekkenivllGpsGvGKshlai 65
                             + ++  ++ GpsG GKs la 
  PHY93_18130|PHY93_18130 29 RINKITCVAGPSGSGKSSLAF 49
                             55666799**********995 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.037
                IstB_IS21  15 aqktledidfraarsldkrkvkeLatlsfiekkeni.vllGpsGvGKshlaial 67 
                              ++k l++ d ++  ++  + +++L + + + +k++i    G sG+GK+ + + l
  PHY93_18130|PHY93_18130 568 PKKILKTTDKKTYIEIIDASIRNLHKKELLIQKNAInWAYGESGTGKTSFLVHL 621
                              5677788888888889999999998888766655552679*******9765554 PP

  == domain 3  score: -0.5 bits;  conditional E-value: 1.3
                IstB_IS21 123 dqaeaellfeviekryerrsii...itsnlpfaew 154
                               + ++ +l+ +++k++e + ii   +ts l+  e+
  PHY93_18130|PHY93_18130 802 GERQRLQLLSLLDKKVESTLIIfenLTSGLSYHEF 836
                              34455566777777777666653333444444444 PP

>> cobW  CobW/HypB/UreG, nucleotide-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.7   0.0     0.016        10       2      27 ..      33      58 ..      32      65 .. 0.82
   2 ?    4.6   0.0     0.035        22       7      28 ..     608     629 ..     603     631 .. 0.87

  Alignments for each domain:
  == domain 1  score: 5.7 bits;  conditional E-value: 0.016
                             EEEEEESTTCCHHHHHHHHHCT--SS CS
                     cobW  2 vtvltGflGsGKTtLlnhllenragl 27
                             +t ++G+ GsGK++L  h+l  ++++
  PHY93_18130|PHY93_18130 33 ITCVAGPSGSGKSSLAFHTLLTESKR 58
                             6899***********99999555444 PP

  == domain 2  score: 4.6 bits;  conditional E-value: 0.035
                              ESTTCCHHHHHHHHHCT--SS- CS
                     cobW   7 GflGsGKTtLlnhllenraglk 28 
                              G  G+GKT++l hll+n+ ++k
  PHY93_18130|PHY93_18130 608 GESGTGKTSFLVHLLANEVHKK 629
                              667************9988877 PP

>> Roc  Ras of Complex, Roc, domain of DAPkinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.8   0.0      0.41   2.6e+02       3      19 ..      35      51 ..      32      80 .. 0.79
   2 ?    8.8   0.0    0.0029       1.8       6      48 ..     608     649 ..     605     658 .. 0.72

  Alignments for each domain:
  == domain 1  score: 1.8 bits;  conditional E-value: 0.41
                             EEESSTTSSHHHHHHCH CS
                      Roc  3 vlvGdsgvGKtsllkrf 19
                             ++ G sg+GK+sl+ + 
  PHY93_18130|PHY93_18130 35 CVAGPSGSGKSSLAFHT 51
                             567**********7554 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.0029
                              SSTTSSHHHHHHCHCT-CCC-EEETTTTEEEEEEECGGSGGCT CS
                      Roc   6 GdsgvGKtsllkrfvedkfsekekstigvdfltkevtkikgve 48 
                              G+sg+GKts+l +++ +++++k   t  ++f + +++k+kg+e
  PHY93_18130|PHY93_18130 608 GESGTGKTSFLVHLLANEVHKKVFGT-RLSFEDYKFKKLKGIE 649
                              9***************9998775444.4555566665666554 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.0   0.0     0.012         8       2      16 ..      35      49 ..      35      83 .. 0.90
   2 ?    1.6   0.0      0.58   3.7e+02       5      21 ..     608     624 ..     607     659 .. 0.68

  Alignments for each domain:
  == domain 1  score: 7.0 bits;  conditional E-value: 0.012
                   AAA_18  2 lltGtpGvGKttlak 16
                             +++G++G+GK++la 
  PHY93_18130|PHY93_18130 35 CVAGPSGSGKSSLAF 49
                             79**********996 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.58
                   AAA_18   5 GtpGvGKttlakeLskr 21 
                              G +G+GKt++  +L   
  PHY93_18130|PHY93_18130 608 GESGTGKTSFLVHLLAN 624
                              778*******9999333 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.5   0.0      0.22   1.4e+02       2      22 ..      34      54 ..      33     181 .. 0.83
   2 ?    6.6   0.0     0.012       7.4       4      22 ..     606     624 ..     603     823 .. 0.86

  Alignments for each domain:
  == domain 1  score: 2.5 bits;  conditional E-value: 0.22
                             EEEESSTTSSHHHHHHHHHHH CS
                             xxxxxxxxxxxxxxxxxxxxx RF
                     CbiA  2 aiastkGGvGKTtlaanLara 22
                             + +++ +G+GK++la + +  
  PHY93_18130|PHY93_18130 34 TCVAGPSGSGKSSLAFHTLLT 54
                             667899*******99875544 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.012
                              EESSTTSSHHHHHHHHHHH CS
                              xxxxxxxxxxxxxxxxxxx RF
                     CbiA   4 astkGGvGKTtlaanLara 22 
                              a + +G+GKT+++++L++ 
  PHY93_18130|PHY93_18130 606 AYGESGTGKTSFLVHLLAN 624
                              5689************875 PP

>> AAA_33  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.4   0.0      0.03        19       4      17 ..      36      49 ..      33      63 .. 0.82
   2 ?    3.5   0.0      0.12        75       6      29 ..     608     636 ..     605     659 .. 0.73

  Alignments for each domain:
  == domain 1  score: 5.4 bits;  conditional E-value: 0.03
                   AAA_33  4 lvGlpGsGKstlae 17
                             + G++GsGKs la 
  PHY93_18130|PHY93_18130 36 VAGPSGSGKSSLAF 49
                             78********9985 PP

  == domain 2  score: 3.5 bits;  conditional E-value: 0.12
                   AAA_33   6 GlpGsGKstlaerllkklg.....avlls 29 
                              G +G+GK+ ++ +ll+++      +++ls
  PHY93_18130|PHY93_18130 608 GESGTGKTSFLVHLLANEVhkkvfGTRLS 636
                              88********9999755434455566666 PP

>> zinc_ribbon_6  Zinc-ribbon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.0     0.019        12       8      38 ..     358     388 ..     352     392 .. 0.69
   2 ?    3.0   0.0      0.16     1e+02      28      43 ..     728     743 ..     717     745 .. 0.80

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.019
            zinc_ribbon_6   8 raldaeiaeqpmpeeyknkkvkilCnDCekk 38 
                              ++l +   ++++   +++ + +ilC+DCe +
  PHY93_18130|PHY93_18130 358 EYLRSLRYKKNIRIYVRSMQREILCEDCEGT 388
                              5555555555555566777889******975 PP

  == domain 2  score: 3.0 bits;  conditional E-value: 0.16
            zinc_ribbon_6  28 vkilCnDCekksevkf 43 
                              v+ +C+DC+ k   ++
  PHY93_18130|PHY93_18130 728 VEFVCEDCQGKKLKPY 743
                              6779*****9987665 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.6   0.0      0.31     2e+02      19      34 ..      32      47 ..      28      60 .. 0.86
   2 ?   -0.6   0.0       1.5   9.4e+02      87     122 ..     488     527 ..     442     536 .. 0.71
   3 ?    4.7   0.0     0.035        22      13      38 ..     596     621 ..     593     636 .. 0.75

  Alignments for each domain:
  == domain 1  score: 1.6 bits;  conditional E-value: 0.31
                   AAA_30 19 rvavltGpAGtGKtta 34
                             +++++ Gp G+GK+ +
  PHY93_18130|PHY93_18130 32 KITCVAGPSGSGKSSL 47
                             58899********976 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 1.5
                   AAA_30  87 epgtllivDEagmv....dtkqlaallkaaekagakvilv 122
                               +++l++ DE ++      ++++ + l+ ++++g ++i+v
  PHY93_18130|PHY93_18130 488 GSQSLFVLDEPSLGltqtTQEKMVKYLRLLRDQGNTIIMV 527
                              35599999**887644546677888899999999999987 PP

  == domain 3  score: 4.7 bits;  conditional E-value: 0.035
                   AAA_30  13 lltsgdrvavltGpAGtGKttalkal 38 
                              ll +++ +  + G  GtGKt  l +l
  PHY93_18130|PHY93_18130 596 LLIQKNAINWAYGESGTGKTSFLVHL 621
                              566677799999********999877 PP

>> TF_Zn_Ribbon  TFIIB zinc-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.0         2   1.3e+03      18      24 ..     123     129 ..     121     135 .. 0.76
   2 ?    0.8   0.1      0.54   3.5e+02       2       8 ..     244     250 ..     243     255 .. 0.80
   3 ?   -0.7   0.1       1.6     1e+03       3       8 ..     272     277 ..     270     288 .. 0.70
   4 ?    4.4   0.0     0.041        26      11      27 ..     371     388 ..     367     395 .. 0.81
   5 ?    4.5   0.7     0.039        25      18      29 ..     728     740 ..     708     744 .. 0.85

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 2
                              TCEEESS CS
             TF_Zn_Ribbon  18 gelvCtd 24 
                              g++vC+d
  PHY93_18130|PHY93_18130 123 GNFVCPD 129
                              7888875 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.54
                              EETTTTC CS
             TF_Zn_Ribbon   2 kCPnCgs 8  
                              kCP+C  
  PHY93_18130|PHY93_18130 244 KCPYCDK 250
                              9****86 PP

  == domain 3  score: -0.7 bits;  conditional E-value: 1.6
                              ETTTTC CS
             TF_Zn_Ribbon   3 CPnCgs 8  
                              CP+C +
  PHY93_18130|PHY93_18130 272 CPKCEG 277
                              999976 PP

  == domain 4  score: 4.4 bits;  conditional E-value: 0.041
                              CHEETSTTCEEESSS.SB CS
             TF_Zn_Ribbon  11 lveDpergelvCtdC.Gl 27 
                              +++  ++ e++C+dC G+
  PHY93_18130|PHY93_18130 371 IYVRSMQREILCEDCeGT 388
                              56788999*******886 PP

  == domain 5  score: 4.5 bits;  conditional E-value: 0.039
                              TCEEESSS.SBEE CS
             TF_Zn_Ribbon  18 gelvCtdC.GlVl 29 
                               e+vC+dC G  l
  PHY93_18130|PHY93_18130 728 VEFVCEDCqGKKL 740
                              69******99765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (870 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       571  (0.0318478); expected 358.6 (0.02)
Passed bias filter:                      441  (0.024597); expected 358.6 (0.02)
Passed Vit filter:                        85  (0.00474092); expected 17.9 (0.001)
Passed Fwd filter:                        31  (0.00172904); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              28  [number of targets reported over threshold]
# CPU time: 0.84u 0.25s 00:00:01.08 Elapsed: 00:00:00.45
# Mc/sec: 5760.10
//
Query:       PHY93_18135|PHY93_18135  [L=132]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.9e-44  151.1   0.2    2.1e-44  150.9   0.2    1.0  1  Ribosomal_S9  Ribosomal protein S9/S16


Domain annotation for each model (and alignments):
>> Ribosomal_S9  Ribosomal protein S9/S16
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  150.9   0.2   1.2e-48   2.1e-44       1     119 [.      14     132 .]      14     132 .] 0.99

  Alignments for each domain:
  == domain 1  score: 150.9 bits;  conditional E-value: 1.2e-48
                              EECTTEEEEEEEEESSSEEEETTEECCHHSTTSCHHHHHCHHHHHTTTSSSEEEEEEEESS-HHHHHHHHHHHHHHHHHHHHHHHH CS
             Ribosomal_S9   1 GrrKesvArvwikegkgkilvngksleeYfkeeaarekvleplkltgllgkfdvfvkvkgGGlsgqaeAirlgiaraLvalekeek 86 
                              GrrK++vAr+++ +g+gki+vn+++++++fk+e++   v +pl+lt+l +kfd+ ++v+gGG+sgqa+AirlgiaraL+++++  +
  PHY93_18135|PHY93_18135  14 GRRKTAVARIYMAAGSGKITVNKRDVKNFFKQETSLYVVNQPLNLTKLAEKFDFVINVNGGGISGQAGAIRLGIARALLKVQPGLR 99 
                              9**********************************************************************************88* PP

                              HHHCTCCCTS-B--------TTSSCTTB----S CS
             Ribosomal_S9  87 keLkkaglltrDpRvvErkKtgkkkARkkyqws 119
                              +eLk+ag+ltrDpR vErkK+g+ +ARk+yq+s
  PHY93_18135|PHY93_18135 100 PELKAAGFLTRDPREVERKKPGRSGARKRYQFS 132
                              *******************************96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (132 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       542  (0.0302304); expected 358.6 (0.02)
Passed bias filter:                      495  (0.0276089); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.22s 00:00:00.66 Elapsed: 00:00:00.40
# Mc/sec: 998.66
//
Query:       PHY93_18140|PHY93_18140  [L=144]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.4e-53  179.7   0.2    2.8e-53  179.5   0.2    1.0  1  Ribosomal_L13  Ribosomal protein L13


Domain annotation for each model (and alignments):
>> Ribosomal_L13  Ribosomal protein L13
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  179.5   0.2   1.5e-57   2.8e-53       1     124 [.      17     140 ..      17     141 .. 0.99

  Alignments for each domain:
  == domain 1  score: 179.5 bits;  conditional E-value: 1.5e-57
                              -EEEEEETTSBHHHHHHHHHHHHHTTTSTT--TTS--S-EEEEEEGGCBB-SSTHHTT-EEEEE-SSTTSEEEEEHHHHHCCSHHH CS
            Ribosomal_L13   1 kWyviDAegqvlgrlaskiakvLrGkhkptytphvdcGdyvvvinaekvaltgkkleqkvyyrhtgypgglkevtakellekkpee 86 
                              kW+v+DA++qv+grla++ia +LrGk  p++t ++d Gdyvvvina+kv++tg+k+e+k y++ht+++gg+k+++ake lek+pe 
  PHY93_18140|PHY93_18140  17 KWFVVDAQDQVVGRLATQIADILRGKLNPKFTYNTDSGDYVVVINADKVKFTGNKWEDKDYFWHTNFTGGIKKRSAKEQLEKHPEL 102
                              7************************************************************************************* PP

                              HHHHHHHCCS-SSHHHHHHGCTEEEESSSTTSGGGGSC CS
            Ribosomal_L13  87 ilekaVkgmLpknklgrrrlkrLkvyageehpheaqkp 124
                              i+ +aVkgmLpkn+lgr++l++Lkv+ag++h h+aq+p
  PHY93_18140|PHY93_18140 103 IVLEAVKGMLPKNTLGRKQLTKLKVFAGATHDHAAQNP 140
                              ************************************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (144 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       472  (0.0263261); expected 358.6 (0.02)
Passed bias filter:                      350  (0.0195214); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.23s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 1108.12
//
Query:       PHY93_18145|PHY93_18145  [L=811]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    3.5e-28   99.0   6.5    5.3e-28   98.4   6.5    1.3  1  Bac_surface_Ag  Surface antigen
    9.9e-23   80.5  13.3    4.5e-06   27.2   0.8    5.8  5  POTRA           Surface antigen variable number repeat


Domain annotation for each model (and alignments):
>> Bac_surface_Ag  Surface antigen
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   98.4   6.5   5.9e-32   5.3e-28       1     321 [.     465     811 .]     465     811 .] 0.81

  Alignments for each domain:
  == domain 1  score: 98.4 bits;  conditional E-value: 5.9e-32
                              STSSSS-EEEEEEEES.................S.SEEEEEEEEEESTSSTTS-EEEEEEEEEE.GGGTBS.S-EEEEEEEEEEEE CS
           Bac_surface_Ag   1 NllGtGqslslsaslg.................s.yeqslnlsftePyflgdrvslglslfare.sdsdesdsyrtksvgfsvslg 67 
                              N+ G + s+s++++ +                 +  e+ +++s+ ePy+l + +++ + l++ +  +++ ++ ++ + +++s +l+
  PHY93_18145|PHY93_18145 465 NFMGMNRSASVKVQANqrfnldgftdarkkedkKlLEYLGKISYIEPYLLHSFIKTQVELELASsFQRKRFYGFDADIFRISPQLS 550
                              99*********99977777777777777777775699**********8888866666666665542356666999999******** PP

                              EEESSSEEEEEEEEEEEEEEES---BHHHHHHHHSCS--EEEEEEEEEEEEEEEEEESSSSS-SSEEEEEEEEEEE-..TTSSS-. CS
           Bac_surface_Ag  68 rpltenyslslglsvqknkilkdsssennrnvssasklqtgksltsslslslsydtrddalfPtrGvllklrleftgpllggdvs. 152
                               ++t+n s+s++++++  +i ++++++          +++++++   ++ s++yd+r+d+++P++G++l+l+ e++ +++g+  + 
  PHY93_18145|PHY93_18145 551 KSITKNLSTSVKYQFE--RINQFDATLL---------KDNDNFKIGGITPSVTYDKRNDPINPRDGYYLNLSSEWANNYFGSMKNd 625
                              ****777777666555..5669999994.........55689**********************************6666664334 PP

                              .....EEEEEEEEEEEEESSTTSSSEEEEEEEEEEEEESS....................SS-.--GGG-B-BSSTTSSTEE-TT- CS
           Bac_surface_Ag 153 .....ylkldakasyyvpltkekdlvlaarvalgyisgyg....................tkdelpfyerFyaGGsnsvRGfesgg 213
                                   y+k+  + ++y+pl+   +++la+ +a+gy + ++                    t  ++p  + F + G+  +RGf + +
  PHY93_18145|PHY93_18145 626 dlevnYIKVISRNKFYYPLG---NFTLAFSLAMGYEKNFStdilkdpagkvllnsnnvprTHGYIPSIKVFRLDGYDEIRGFDESE 708
                              44566**************9...8***********99999********************999*********************** PP

                              BS-EEEEEEE--BSEEEEEEEEEEEE-SSS-...GGTTEEEEEEEEEEEEE-TT--TTTTTTS--TTTS-EEEEEEEEEEEETTEE CS
           Bac_surface_Ag 214 lgprdesgdalGGdsyavaslElrfplpflk...kqnsvrlalFfDaGnvwdkegqspsssrsasstaeirasvGvgLrwqsPlGP 296
                              +     sg+++ Gd  ++  + + + + f +    ++++ + +FfDaG v  +  +++ +        ++r+svG+gL + +P+G 
  PHY93_18145|PHY93_18145 709 INRL-RSGQPI-GDVVVQKEA-YFTAFKFEPrynITDTIQIGVFFDAGRV--SVDEFKPF--------DLRTSVGAGLKFLTPVGS 781
                              *983.345555.455444443.3334444444443668***********9..55555553........369*************** PP

                              EEEEEEEEEE-STT.--....EESEEEEEC CS
           Bac_surface_Ag 297 lrfdyAiplkkedg.dk....tqrFqFgiG 321
                              l fdy+i+l+++ + d       rF+ +iG
  PHY93_18145|PHY93_18145 782 LDFDYGIKLQRKTYpDSkvdsVGRFHLSIG 811
                              *********999995557875569999988 PP

>> POTRA  Surface antigen variable number repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.9   0.0   2.9e-05      0.26      35      78 ..      65     101 ..      37     103 .. 0.83
   2 !    5.4   0.6     0.003        27       6      61 ..     108     164 ..     106     184 .. 0.65
   3 !   27.2   0.8     5e-10   4.5e-06       2      79 ..     188     270 ..     187     271 .. 0.84
   4 !   16.0   0.1   1.5e-06     0.013      16      59 ..     289     333 ..     286     347 .. 0.90
   5 !   23.9   0.0   5.1e-09   4.6e-05       4      80 .]     363     438 ..     361     438 .. 0.90

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 2.9e-05
                              HHHHHHHHHHHHHHCTT-EE.EEEEEEHSSTTSEEEEEEEEEEE CS
                    POTRA  35 kleadkealksryanlGyfdasVqvelpeddedknrvdltinvd 78 
                              k+++ ++     + ++Gyf+ sV++e    ++++++v+++i ++
  PHY93_18145|PHY93_18145  65 KIDQIIK----ELFSNGYFSSSVKTEM---TGTESDVIVKILIQ 101
                              6777777....****************...99999999999885 PP

  == domain 2  score: 5.4 bits;  conditional E-value: 0.003
                              EEEES.SSS-HHHHHTTT..SSSTT.SBHCHHHHHHHHHHHHHHHHCTT-EE.EE.EEEE CS
                    POTRA   6 infeGnkktkdeelrrel..elkeg.dvynpekleadkealksryanlGyfdasV.qvel 61 
                               +f Gnk ++ +elrr l  +++   ++ ++  l + ++   + y+  G+++ +V ++++
  PHY93_18145|PHY93_18145 108 FQFLGNKIFSHQELRRKLidKIRNDfGKTDRGALGNFIN---DVYEGAGFYNTNVkSYQN 164
                              5799**************543322235555555555555...889999999988865544 PP

  == domain 3  score: 27.2 bits;  conditional E-value: 5e-10
                              EEEEEEEES.SSS-HHHHHTTTSSSTT.....SBHCHHHHHHHHHHHHHHHHCTT-EE.EE...EEEEHSSTTSEEEEEEEEEEEE CS
                    POTRA   2 kikkinfeGnkktkdeelrrelelkeg.....dvynpekleadkealksryanlGyfdasV...qvelpeddedknrvdltinvdE 79 
                              k+++i + Gn ++k e+l ++++ +       ++y+++ +e+  + +k+ y+++Gy++++V   +v +   ++d  + ++++ + E
  PHY93_18145|PHY93_18145 188 KVSNILYRGNIAIKGEDLNNLFKKNATplalaGYYDKAFFENYADIIKKEYLSKGYVFVEVskpRVVT---NDDDETLSIEFGIAE 270
                              7999******************5433366777**************************9**9774444...566666789999988 PP

  == domain 4  score: 16.0 bits;  conditional E-value: 1.5e-06
                              HHHHHTTTSSSTTSBHCHHHHHHHHHHHHHHHHCTT-EE.EE.EE CS
                    POTRA  16 deelrrelelkegdvynpekleadkealksryanlGyfdasV.qv 59 
                              +e+++++l  k g+++n  +lead+++   + ++ Gy++as+ + 
  PHY93_18145|PHY93_18145 289 QEVVKKVLTNKDGQPLNVVELEADLKKTIAYFQDDGYYFASIaNL 333
                              68999***99******************************99644 PP

  == domain 5  score: 23.9 bits;  conditional E-value: 5.1e-09
                              EEEEEES.SSS-HHHHHTTTSSSTTSBHCHHHHHHHHHHHHHHHHCTT-EE.EEEEEE....HSSTTSEEEEEEEEEEEE- CS
                    POTRA   4 kkinfeGnkktkdeelrrelelkegdvynpekleadkealksryanlGyfdasVqvel....peddedknrvdltinvdEg 80 
                              +++ ++Gn kt  +++ re+++++g++ +p+kle  ++    ++ nlG f+ s ++++    ++dd+   + +l+i v+E+
  PHY93_18145|PHY93_18145 363 NEVIVNGNIKTLPDVIFREINMRKGELITPAKLEMVRQ----KLSNLGLFS-SLRISPymmyEGDDKSCAKTNLVIQVKEK 438
                              6899**********************************....*********.998888889966666666677*****995 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (811 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       585  (0.0326287); expected 358.6 (0.02)
Passed bias filter:                      414  (0.0230911); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.69u 0.26s 00:00:00.95 Elapsed: 00:00:00.42
# Mc/sec: 5741.31
//
Query:       PHY93_18150|PHY93_18150  [L=761]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.2e-17   62.5  11.0    4.2e-17   62.5  11.0    2.8  2  TamB      TamB, inner membrane protein subunit of TAM complex
    0.00095   18.8   2.3        0.8    9.2   0.1    4.4  4  AsmA_2    AsmA-like C-terminal region


Domain annotation for each model (and alignments):
>> TamB  TamB, inner membrane protein subunit of TAM complex
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    2.2   0.9    0.0096        86      10      83 ..      82     159 ..      73     272 .. 0.60
   2 !   62.5  11.0   4.7e-21   4.2e-17       3     380 ..     386     760 ..     384     761 .] 0.81

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.0096
                     TamB  10 gGtltlnGsisleslkdieldLtlslknllvlntkdad...gtvsgd..ltlkgsldqpvlsgeltissatitlyeapa 83 
                              + ++ +n+++++ +l +  ++L+ s ++l++++ + ++   + ++gd  ++++g+ ++ + s   ++   + +++++pa
  PHY93_18150|PHY93_18150  82 KSRGEINAGVTI-NLANNYTELDGSMQGLRLSDFNFYQklkMEYDGDlvVDFDGNGTKENFSSRFKTKVNNPFIANIPA 159
                              567888899999.788888999999999999999888888877888844444444444444444444444444444443 PP

  == domain 2  score: 62.5 bits;  conditional E-value: 4.7e-21
                     TamB   3 ltardangGtltlnGsisleslkdieldLtlslknllvlntkdadgtvsgdltlkgsldqpvlsgeltissatitlyeapaseaas 88 
                              +t+++ ++G+++++G+  + +   + ++++ ++++ +++  k   + +s++ t++g+ +  +l+g++t+  +++   +++ ++ ++
  PHY93_18150|PHY93_18150 386 FTGNY-GEGEFKASGTFIF-DDLYPQVNIDYRIDRSTISLFKRSSLLASSSGTITGTDLPYKLNGKVTLLYGEFLDDPSDFTKENK 469
                              77886.88***********.688888************9999999999*************************9998888766655 PP

                     TamB  89 erskdvvfvnpeeteekeasagtaeksaeptgldlelalfvdlklelgpdvrvdgegleaeleGdLtvngtangrlslfGsirltr 174
                               +  dv+ +  +           +++ ae++g   +++l+v+ +     ++ ++++++e+ ++G+ +++g+   +++++ +++++ 
  PHY93_18150|PHY93_18150 470 VNL-DVFKKYLP-----------QKSAAEKKG---YINLNVSFDTVN--PILLKNNLAEVYAKGSGQLTGDIL-DPEINARVEVIP 537
                              532.33333322...........223344455...776666666666..********9999999888889955.599*******96 PP

                     TamB 175 ..GtynlfgkeFelegGeitfagdpp.ldptLditaiyrvnasssqtnerdpvrvllnvtGtlskPqvslssePnlsekeilslLl 257
                                 ++++ g +F l +G++++ +    +   L + + +++          +++ v l ++G ++k ++ lsseP+l++++++slL 
  PHY93_18150|PHY93_18150 538 tvSKFKFKGHDFLLNQGYVEIRDHGKsRVSDLKFIGLTKI----------NDYDVKLDISGSIEKSNINLSSEPPLAQEDLVSLLT 613
                              34777778***************99999999**8888888..........79********************************** PP

                     TamB 258 lgrslsdls..sgqlgaaaasllgsaglsllsgqlnklssalgldnlsldsatsstggdaqd................rtglvvev 325
                              lg +++++   +++ + ++++++++++l    ++ ++l+s+lgl nls+  +++ ++ +  +                 tg+++ +
  PHY93_18150|PHY93_18150 614 LGVTSDMSKnlEASDRKSVTTVGIGTLLVDQLKINEDLNSTLGL-NLSV-LPEFKEDET--SlvsgksainegatsklKTGTKIKL 695
                              ***9999998999999999999998876555554455999****.9999.555544332..234678899999999**99****** PP

                     TamB 326 gkylndrlyvsvgsavglggssegdvsieyrltpnlslraklfng.n.....ngq.....vdLsyk 380
                               k+ +  + vsv+s+vg + +++++ ++++++++n+s+++ ++ +       n +     +dL+y+
  PHY93_18150|PHY93_18150 696 HKQVSKLIDVSVSSTVGGSIEQTQEMNVNFNINKNFSIEGVYEVKpAedentN-TpnsvgADLKYR 760
                              *************9999555555*****************9976644666540.134456777776 PP

>> AsmA_2  AsmA-like C-terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    9.2   0.1   8.9e-05       0.8     134     174 ..      60     100 ..      38     120 .. 0.85
   2 !    2.9   0.1    0.0076        68      21      83 ..     176     238 ..     173     298 .. 0.59
   3 !    2.6   0.0    0.0091        82       3      56 ..     369     422 ..     367     478 .. 0.86
   4 ?   -1.2   0.0      0.13   1.2e+03     148     185 ..     499     540 ..     480     557 .. 0.70

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 8.9e-05
                   AsmA_2 134 ddikgtftienGvvttkdfklkgpaaavtvsGtvdldtetl 174
                              d+++++f+++n+++t+kd+k+  + ++++++ t++l+++  
  PHY93_18150|PHY93_18150  60 DRLSLDFSLQNNLLTFKDIKIYKSRGEINAGVTINLANNYT 100
                              88999999999999999999999999999999999987654 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.0076
                   AsmA_2  21 rlrspggklsgsgswstkggaartnldlkldgvdlgallkrlglaevl.gG.kgslelnlswqga 83 
                              ++++ +gk+ ++  ++ k++  +++++ ++d  d  + l  ++ + +  +  +g+++++l+ q +
  PHY93_18150|PHY93_18150 176 NANLLSGKIKLDSLINFKSR--QVSVKSSVDTTDMREMLGIFAGHNMSeKNiSGKIKAQLNSQFN 238
                              56666777777777777664..6677777777777777777777664422223333333334333 PP

  == domain 3  score: 2.6 bits;  conditional E-value: 0.0091
                   AsmA_2   3 nvsgklrlkdeglrldnlrlrspggklsgsgswstkggaartnldlkldgvdlg 56 
                              +++  +  k++  ++ +++++ ++g + +sg+   ++  +++n+d+++d + ++
  PHY93_18150|PHY93_18150 369 DLEYGIIKKGDVFEISRFTGNYGEGEFKASGTFIFDDLYPQVNIDYRIDRSTIS 422
                              566677789999**********************999999******99987775 PP

  == domain 4  score: -1.2 bits;  conditional E-value: 0.13
                   AsmA_2 148 ttkdfklkgpaaavtvsGtvdldtet.....ldlnvvvvppis 185
                              t++++ lk++ a+v ++G+  l+ ++     ++ +v+v p++s
  PHY93_18150|PHY93_18150 499 TVNPILLKNNLAEVYAKGSGQLT-GDildpeINARVEVIPTVS 540
                              56777777777777777776665.3322222666666666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (761 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       493  (0.0274974); expected 358.6 (0.02)
Passed bias filter:                      298  (0.0166211); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.65u 0.26s 00:00:00.91 Elapsed: 00:00:00.43
# Mc/sec: 5306.56
//
Query:       PHY93_21665|PHY93_21665  [L=207]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    7.6e-20   70.9   0.0    1.1e-19   70.4   0.0    1.2  1  AMP-binding  AMP-binding enzyme
  ------ inclusion threshold ------
      0.072   13.1   0.2         13    5.9   0.0    2.6  3  Surp         Surp module


Domain annotation for each model (and alignments):
>> AMP-binding  AMP-binding enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.4   0.0   1.2e-23   1.1e-19       8     211 ..      19     206 ..      12     207 .] 0.77

  Alignments for each domain:
  == domain 1  score: 70.4 bits;  conditional E-value: 1.2e-23
                              STTSEEEEE.CCSTEEEEHHHHHHHHHHHHHHHHHTTSSTT-EEEEEESSSHHHHHHHHHHHHTT-EEEEEETTS-HHHHHHHHHH CS
              AMP-binding   8 tpdkvalvd.sgegqtlTYreldervnrlAagLrslGvkkgdrVaillpnspewvvallailkaGavvvplnptltaeelayiled 92 
                              + +++a++   ++++ l Y++l+e v +  a++++lG+k+g+r++ l+pns+e++++++a+l+ G   +pl  ++++ e +   + 
  PHY93_21665|PHY93_21665  19 YGERTAFIPvVDGQKNLNYEQLNELVFKHLAWFEELGIKRGERIGALMPNSVEMLALFIACLRGGYGFAPLACDTSSVEAENWAKL 104
                              56778886565689************************************************************************ PP

                              HTESEEEETCTCCCHHHHHHHHSCC-EECEEEEESCCS-HCCHCCCHCCCCSCTTS-TSCCCS-BTTSEEEEEEE--SSSS-EEEE CS
              AMP-binding  93 seakvliatvdselleklleaaakleavklvivldadellkeeelkeeeeseekaekpeeeeelkpddlayiiYTSGTTGkPKGVm 178
                               +++ +i  + ++l   ++e  +k   v l+ +  ++e+++    ++++          +  +++     + +YTSGTTG PK+++
  PHY93_21665|PHY93_21665 105 IRPTRVI--MGNILPTPVKEGLKKA-NVNLTEIHNNGEFAFL---PTDK----------KITKCSGG-SKLYLYTSGTTGLPKAIV 173
                              *******..7666644455555542.2333332232222222...2222..........22223333.34668************* PP

                              EEHHHHHHHHHHHHHHHC.SCCTTT-EEEESS-T CS
              AMP-binding 179 lshrnlvanvaslkletr.fklkeddvvlsilpl 211
                              l  + l ++ +++ +++   +++++ +++ +lp 
  PHY93_21665|PHY93_21665 174 LDGDRLWSSGHTF-VRQNgLNFESNFRIWNYLPQ 206
                              ***9999998887.55555778889999999996 PP

>> Surp  Surp module
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0      0.83   7.4e+03       5      13 ..      71      79 ..      70      86 .. 0.72
   2 ?    5.9   0.0    0.0015        13      21      38 ..     130     145 ..     121     150 .. 0.79
   3 ?    4.3   0.0    0.0043        39      10      22 ..     186     198 ..     185     200 .. 0.89

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 0.83
                             HHHHHHHTT CS
                     Surp  5 kktAqfVar 13
                             + +A f+a+
  PHY93_21665|PHY93_21665 71 EMLALFIAC 79
                             678999995 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.0015
                              HHHHH.T--TTSGGGSTT CS
                     Surp  21 klrerernnpqFaFLkdp 38 
                              +l+e  +nn +FaFL ++
  PHY93_21665|PHY93_21665 130 NLTEI-HNNGEFAFL-PT 145
                              55665.78*******.77 PP

  == domain 3  score: 4.3 bits;  conditional E-value: 0.0043
                              HHTT-S.SHHHHH CS
                     Surp  10 fVarnGkeFeqkl 22 
                              fV +nG +Fe++ 
  PHY93_21665|PHY93_21665 186 FVRQNGLNFESNF 198
                              999*******986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (207 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       406  (0.0226449); expected 358.6 (0.02)
Passed bias filter:                      396  (0.0220871); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.49u 0.20s 00:00:00.69 Elapsed: 00:00:00.40
# Mc/sec: 1559.63
//
Query:       PHY93_21670|PHY93_21670  [L=324]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
      0.021   13.6   0.0      0.051   12.4   0.0    1.6  2  Peptidase_M29  Thermophilic metalloprotease (M29)


Domain annotation for each model (and alignments):
>> Peptidase_M29  Thermophilic metalloprotease (M29)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -4.1   0.0      0.28     5e+03      14      53 ..      16      55 ..      13      61 .. 0.79
   2 ?   12.4   0.0   2.8e-06     0.051     206     389 ..     145     314 ..     123     318 .. 0.75

  Alignments for each domain:
  == domain 1  score: -4.1 bits;  conditional E-value: 0.28
                             HTTT---TT-EEEEEEETT-HHHHHHHHHHHHHTT-SEEE CS
            Peptidase_M29 14 kvglnlqkgqevvinaevealelarlvaeeaykagakkvv 53
                             +++ nl+++++ ++ +++ + +l+  + e+a + g+k  +
  PHY93_21670|PHY93_21670 16 SHCGNLKAEESCLLLFDATTKDLTGKFLEAAQSLGVKLEI 55
                             5677889999999999999999999999998888887655 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 2.8e-06
                              EEEEE.ETTEEEEEEE-TTB--EESS---SSS----SBSS---EEE-EEEEEEEEEEE-SS-EEET..TEEEBS-EEEEETTEEEE CS
            Peptidase_M29 206 eLhyksspgtdLtvglaeghiWiggaektkkgiefvaNiPteevftaPdkrgvnGvvratkPlsys..GnliegirltFedGkvve 289
                              ++h+k++ gtd ++g+  ++    + +   ++++ +   P+ e  ++P +   +G+   +  +     G l + i+l++  G++ve
  PHY93_21670|PHY93_21670 145 TVHVKTAAGTDVRLGIIGREG-NCCPGF-VNENYSLGSPPDIESNVSPVEYLSEGIAIIDGSVACDeiGLLETPIELKISGGRIVE 228
                              677777777777777743333.333333.3566777777888888888888888887777766665225556679*********** PP

                              EE-SB-HHH..HHHHTT..SSSGGGSEEEEE---TTSHHHHHT-----HHHHHT..TS-EEEEE---GGGB--..-----SHHHHT CS
            Peptidase_M29 290 akAekGeev..Lkklle..tDegarrLGEvALvpndspisqsgilfyntLfDen..ascHlAlGaaypecleggeelteeelkaag 369
                              +  +++  v  +++l++   D  a  L E+ ++ n    ++   l+ n+L De   +++H+ +G+                   +g
  PHY93_21670|PHY93_21670 229 VRSAREDYVakVNNLFSriNDPKAYVLAECGIGLNP--LAK---LTGNMLTDEGalGCVHFGFGSNITV---------------GG 294
                              *7666655413567776336*************997..888...**********99999*999987765...............59 PP

                              ----S-EEEEE---TT-EEE CS
            Peptidase_M29 370 lNdSlihvDfmigsedldid 389
                              lNd   hvDf+++++ l id
  PHY93_21670|PHY93_21670 295 LNDVPFHVDFIMKDASLWID 314
                              99999999999998887765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (324 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       354  (0.0197445); expected 358.6 (0.02)
Passed bias filter:                      344  (0.0191868); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.22s 00:00:00.73 Elapsed: 00:00:00.41
# Mc/sec: 2396.15
//
Query:       PHY93_16475|PHY93_16475  [L=135]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (135 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       263  (0.014669); expected 358.6 (0.02)
Passed bias filter:                      221  (0.0123264); expected 358.6 (0.02)
Passed Vit filter:                        13  (0.000725082); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.39
# Mc/sec: 1035.86
//
Query:       PHY93_21675|PHY93_21675  [L=305]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.7e-12   46.1   0.0    1.1e-11   44.6   0.1    1.9  2  Glycos_transf_1  Glycosyl transferases group 1
    7.9e-11   42.5   0.0    1.3e-10   41.8   0.0    1.4  1  Glyco_trans_1_4  Glycosyl transferases group 1
    8.5e-07   29.1   0.0    2.2e-06   27.8   0.0    1.6  1  Glyco_transf_4   Glycosyltransferase Family 4
  ------ inclusion threshold ------
      0.016   15.4   0.3       0.14   12.4   0.0    2.3  2  DUF3913          Protein of unknown function (DUF3913)


Domain annotation for each model (and alignments):
>> Glycos_transf_1  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.3   0.0       1.2   5.5e+03       6      30 ..      56      80 ..      55      82 .. 0.83
   2 !   44.6   0.1   2.5e-15   1.1e-11      13     101 ..     219     304 ..     209     305 .] 0.93

  Alignments for each domain:
  == domain 1  score: -3.3 bits;  conditional E-value: 1.2
                             HHHTTTTTT-EEEEEESS-TTTTTH CS
          Glycos_transf_1  6 rkklgknekkkiilsvgrlekeKgv 30
                             +++lg++ k+  ils g l+ + ++
  PHY93_21675|PHY93_21675 56 FNELGIPCKEIAILSWGELRAKYNL 80
                             6778888899999999999999886 PP

  == domain 2  score: 44.6 bits;  conditional E-value: 2.5e-15
                              TT-EEEEEESS-TTTTTHHHHHHHHHCCCCCHCSCEEEEEES.STTHHHHHHHHHHHCTTCGGGEEECCHSSSHHHHHHCESEEEE CS
          Glycos_transf_1  13 ekkkiilsvgrlekeKgvdllikafallkkqlnpnvklviaGngeeekelkklaeelelsdnviflgevsredleellknadifvl 98 
                              +kk  il+ +r+e+ Kg+++li+++++l+k+l++++ ++++G+g+   ++kkla + +  dnv+f+g+ +  +  ++++++di+vl
  PHY93_21675|PHY93_21675 219 NKKVKILFFARMEEIKGIEYLIESIKELNKDLHDKIEFHFYGDGTLAGSIKKLASAFN--DNVFFYGFYE-GNFQNIFSASDIYVL 301
                              58899************************************************88865..7********8.99************* PP

                              EES CS
          Glycos_transf_1  99 psi 101
                              ps 
  PHY93_21675|PHY93_21675 302 PSL 304
                              *96 PP

>> Glyco_trans_1_4  Glycosyl transferases group 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   41.8   0.0   2.9e-14   1.3e-10       3      80 ..     223     303 ..     221     305 .] 0.89

  Alignments for each domain:
  == domain 1  score: 41.8 bits;  conditional E-value: 2.9e-14
                              EEEEES---GG.GTHHHHHHHHHHHH.H..H.EEEEEES---..HHHHHHHTT-T.TEEEE---.THHHHHHHH-SEEEE-- CS
          Glyco_trans_1_4   3 vilfvGrleenvkgvdllleavpllrkk..d.vrlvivGdgprpeeleelaagleerveftGfv.edlaellaaadvfvaPs 80 
                              +ilf+ r+ e++kg+++l+e +++l k+  d ++++++Gdg+ + ++++la+ ++++v f Gf   + +++++a+d++v+Ps
  PHY93_21675|PHY93_21675 223 KILFFARM-EEIKGIEYLIESIKELNKDlhDkIEFHFYGDGTLAGSIKKLASAFNDNVFFYGFYeGNFQNIFSASDIYVLPS 303
                              79******.899**************777538*********95569998887888*********557**************8 PP

>> Glyco_transf_4  Glycosyltransferase Family 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.8   0.0   4.8e-10   2.2e-06       2     166 ..      19     208 ..      18     211 .. 0.84

  Alignments for each domain:
  == domain 1  score: 27.8 bits;  conditional E-value: 4.8e-10
           Glyco_transf_4   2 GGverhvleLaraLarrGheVtvvtpgddgpleeev............................elvvrvprvplpllkrllrsla 59 
                              GG +r++++La    +++ e++v++   + ++ e                                ++ ++++ ++l+    ++l 
  PHY93_21675|PHY93_21675  19 GGGNRYLYDLACMANKNNNEIVVYSNCFGIEPVEIGwfnelgipckeiailswgelrakynlrnNFLKKLICRIIFLPSSVIIRLY 104
                              9***********************887777777666789999999999********999999998888899999999999999999 PP

           Glyco_transf_4  60 flrrlrrllkrekpDvv.Hahspaalgaallalrr...rlgiplVltvHglyekrllkarlkplsrllralerrllrrad.rviav 140
                               l  + rllk ekpD++  a++ +++g  + +  +    l++++ ++v +          l+++++++ a++ +++ ++  ++i+ 
  PHY93_21675|PHY93_21675 105 QLILFLRLLKSEKPDLIvGANGGYPAGGTVNRFILagaLLKLRCYYSVVNVP-------SLNFWDKIRMAFWDQIIPKVSeKIIVD 183
                              999**************74444444433333333333679999999998888.......688888999999999988877589999 PP

           Glyco_transf_4 141 SeatadelrerygvppekitVipnGv 166
                              S++++++l + +++++++it+++nG 
  PHY93_21675|PHY93_21675 184 SKEIKKQLNQ-HRFHENQITILYNGL 208
                              **********.**************6 PP

>> DUF3913  Protein of unknown function (DUF3913)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.0   0.1      0.24   1.1e+03      17      31 ..     168     180 ..     160     189 .. 0.80
   2 ?   12.4   0.0   3.1e-05      0.14      16      38 ..     207     229 ..     197     241 .. 0.84

  Alignments for each domain:
  == domain 1  score: 0.0 bits;  conditional E-value: 0.24
                  DUF3913  17 iwdnvPtiPriGekv 31 
                               wd +  iP++ ek+
  PHY93_21675|PHY93_21675 168 FWDQI--IPKVSEKI 180
                              68875..9*****98 PP

  == domain 2  score: 12.4 bits;  conditional E-value: 3.1e-05
                  DUF3913  16 GiwdnvPtiPriGekveilktvr 38 
                              G+ dn+P  Pri  kv il   r
  PHY93_21675|PHY93_21675 207 GLKDNLPYAPRINKKVKILFFAR 229
                              899***************97666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (305 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       721  (0.0402142); expected 358.6 (0.02)
Passed bias filter:                      520  (0.0290033); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.53u 0.23s 00:00:00.76 Elapsed: 00:00:00.41
# Mc/sec: 2254.96
//
Query:       PHY93_18155|PHY93_18155  [L=276]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
  ------ inclusion threshold ------
       0.15   12.6   0.0       0.38   11.3   0.0    1.6  1  Glyco_hydro_5_C  Glycoside hydrolase family 5 C-terminal doma


Domain annotation for each model (and alignments):
>> Glyco_hydro_5_C  Glycoside hydrolase family 5 C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   2.1e-05      0.38       3      63 ..      89     150 ..      88     167 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 2.1e-05
          Glyco_hydro_5_C   3 yPakvaGtplsfsfdlktgeftlewtadkssaedseTeIflPe.lhypkgrkvevsgg...kwey 63 
                              yP+ ++Gt + ++fd ++++ t  +++ +s++e s   I + + +      ++e+ +g   ++++
  PHY93_18155|PHY93_18155  89 YPVRIKGTAKVCRFDANESQITCDYNKFQSISE-SDQYILVHHeF--AGLANIEIPNGadsNYSI 150
                              9*************************8888877.46666666633..344566666444444444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (276 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       429  (0.0239277); expected 358.6 (0.02)
Passed bias filter:                      306  (0.0170673); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.48u 0.20s 00:00:00.68 Elapsed: 00:00:00.38
# Mc/sec: 2158.09
//
Query:       PHY93_18160|PHY93_18160  [L=262]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.8e-34  118.9   0.2    3.1e-34  118.1   0.1    1.5  2  DUF4423         Domain of unknown function (DUF4423)
    6.1e-06   26.2   0.1    1.4e-05   25.1   0.1    1.6  1  HTH_3           Helix-turn-helix
    1.8e-05   24.6   0.0    4.6e-05   23.4   0.0    1.7  1  HTH_19          Helix-turn-helix domain
      9e-05   22.5   0.2      0.003   17.6   0.0    2.4  2  DUF2250         Uncharacterized protein conserved in archaea 
     0.0026   18.1   0.0     0.0046   17.3   0.0    1.3  1  HTH_31          Helix-turn-helix domain
     0.0094   15.6   0.0      0.017   14.9   0.0    1.5  1  DUF3394         Domain of unknown function (DUF3394)
  ------ inclusion threshold ------
      0.026   14.4   0.0      0.063   13.1   0.0    1.6  1  YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitox
      0.047   14.1   0.1        0.1   13.0   0.1    1.6  1  HTH_26          Cro/C1-type HTH DNA-binding domain


Domain annotation for each model (and alignments):
>> DUF4423  Domain of unknown function (DUF4423)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.0       2.2     5e+03      99     108 ..      66      75 ..      44      91 .. 0.54
   2 !  118.1   0.1   1.4e-37   3.1e-34       9     167 ..     101     256 ..      95     257 .. 0.94

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 2.2
                  DUF4423  99 kqmlelAiea 108
                              k+m++   e 
  PHY93_18160|PHY93_18160  66 KKMIQAICEK 75 
                              2222222222 PP

  == domain 2  score: 118.1 bits;  conditional E-value: 1.4e-37
                  DUF4423   9 kLdeeefeyfssWyypvirellplkdfkadpeelakrlrpkisaeevekalefLlklgllkkdedgkyrqtekslttssev.ksea 93 
                              +++ + f+++s+Wy+ +i+el  +  fkad +++ak+l   i++ee+++a e+L++lgll +++ g + ++++ +t + +v +s a
  PHY93_18160|PHY93_18160 101 QVNIDTFSVISEWYHYAILELTYVSGFKADAKWIAKKLS--ITVEEAKSATERLKRLGLLLEEG-GSLIKSSRLITNNGNVnSSGA 183
                              566789*********************************..***********************.7**********6666515679 PP

                  DUF4423  94 vrsyhkqmlelAiealervpkeeRdissltlaiskedyekikkeirefrkkilaiaeeskeaerVyqLnlqlFp 167
                               ++++kq++++A+ a+++ ++ee di+s+t+ai+++++ek++  i++fr+++ a++e  ++ + Vy+L +ql+p
  PHY93_18160|PHY93_18160 184 HKELQKQVITKALIAVDECSAEEKDITSMTMAIDRANIEKARFLIQKFRRDLCALLEDGDQ-TCVYNLGIQLYP 256
                              99***********************************************************.***********9 PP

>> HTH_3  Helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.1   0.1   6.2e-09   1.4e-05       7      54 ..      35      82 ..      30      83 .. 0.89

  Alignments for each domain:
  == domain 1  score: 25.1 bits;  conditional E-value: 6.2e-09
                             HTTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHHH CS
                    HTH_3  7 qlglsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvslde 54
                              + +s++ +A+ l++ +s++s+  +G+r+ s ++++++++ L  s+ e
  PHY93_18160|PHY93_18160 35 NARYSLRAFAKNLDLDPSSLSQVLSGKRKLSKKMIQAICEKLSASPKE 82
                             66799***********************************99877766 PP

>> HTH_19  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.4   0.0     2e-08   4.6e-05       8      58 ..      33      82 ..      30      86 .. 0.91

  Alignments for each domain:
  == domain 1  score: 23.4 bits;  conditional E-value: 2e-08
                   HTH_19  8 ReelgltqeelaerlgisrskisaiEngkkdvpsaelllkiaealgidley 58
                              +++ +++++ a++l+ ++s++s+  +gk+ ++s +++++i+e+l  ++++
  PHY93_18160|PHY93_18160 33 KKNARYSLRAFAKNLDLDPSSLSQVLSGKR-KLSKKMIQAICEKLSASPKE 82
                             58999*************************.************99766665 PP

>> DUF2250  Uncharacterized protein conserved in archaea (DUF2250)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.4   0.0     0.074   1.7e+02      29      55 ..      66      92 ..      54      95 .. 0.79
   2 !   17.6   0.0   1.3e-06     0.003      22      63 ..     129     169 ..     110     175 .. 0.87

  Alignments for each domain:
  == domain 1  score: 2.4 bits;  conditional E-value: 0.074
                  DUF2250 29 akeleipleevrellkkLeelGLlerv 55
                              k++++  e+ +   k+Le+ GL++++
  PHY93_18160|PHY93_18160 66 KKMIQAICEKLSASPKELERFGLVKKM 92
                             45666667888888899*******986 PP

  == domain 2  score: 17.6 bits;  conditional E-value: 1.3e-06
                  DUF2250  22 vdYaksiakeleipleevrellkkLeelGLlervegktikrt 63 
                              +d ak iak+l i +ee++++ ++L++lGLl +  g+ ik +
  PHY93_18160|PHY93_18160 129 AD-AKWIAKKLSITVEEAKSATERLKRLGLLLEEGGSLIKSS 169
                              44.99**********************************986 PP

>> HTH_31  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.3   0.0     2e-06    0.0046      10      63 ..      33      85 ..      29      86 .. 0.92

  Alignments for each domain:
  == domain 1  score: 17.3 bits;  conditional E-value: 2e-06
                   HTH_31 10 ReraGLsqeevAerlgvsestlsrlEqGrrgrpspavlealaralgldpaerae 63
                              + a+ s+++ A+ l + +s ls++ +G+r   s   + a+++ l ++p e+++
  PHY93_18160|PHY93_18160 33 KKNARYSLRAFAKNLDLDPSSLSQVLSGKR-KLSKKMIQAICEKLSASPKELER 85
                             567899************************.6*****************99875 PP

>> DUF3394  Domain of unknown function (DUF3394)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.9   0.0   7.4e-06     0.017      81     133 ..     124     181 ..      97     220 .. 0.75

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 7.4e-06
                  DUF3394  81 vegenlegeeiektvalplgeeatgeerLeaaGltlleedg.....kvlvdevefgsp 133
                              v+g + + + i+k++ ++++e++++ erL+++Gl l e +      +++ ++ +++s 
  PHY93_18160|PHY93_18160 124 VSGFKADAKWIAKKLSITVEEAKSATERLKRLGLLLEEGGSlikssRLITNNGNVNSS 181
                              899999****************************988766544443344444444444 PP

>> YdaS_antitoxin  Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   2.8e-05     0.063      11      45 ..      40      74 ..      35      84 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 2.8e-05
           YdaS_antitoxin 11 qkaLAealgvsqqaVsqWlkgkkqvpaervpeIek 45
                              +a+A++l+  ++  sq+l+gk++++ + + +I +
  PHY93_18160|PHY93_18160 40 LRAFAKNLDLDPSSLSQVLSGKRKLSKKMIQAICE 74
                             579**************************999954 PP

>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.1   4.6e-05       0.1      10      57 ..      37      83 ..      30      86 .. 0.91

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 4.6e-05
                   HTH_26 10 gitkseLargtgisaatlsrlvkgkpervsldtLdkiCdaLgctpgDL 57
                             +++   +a+ ++++ ++ls  ++gk + +s + +++iC+ L  +p +L
  PHY93_18160|PHY93_18160 37 RYSLRAFAKNLDLDPSSLSQVLSGK-RKLSKKMIQAICEKLSASPKEL 83
                             55788899****************9.9******************998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (262 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       933  (0.0520386); expected 358.6 (0.02)
Passed bias filter:                      627  (0.0349713); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                         8  (0.000446204); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               8  [number of targets reported over threshold]
# CPU time: 0.52u 0.21s 00:00:00.73 Elapsed: 00:00:00.40
# Mc/sec: 1975.14
//
Query:       PHY93_18165|PHY93_18165  [L=196]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.059   13.1   0.1       0.08   12.6   0.1    1.2  1  SAD_SRA   SAD/SRA domain


Domain annotation for each model (and alignments):
>> SAD_SRA  SAD/SRA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.1   4.5e-06      0.08      23      69 ..      45     100 ..      37     154 .. 0.72

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 4.5e-06
                              TTSS--SS-SEEEE-GGG.....EEEEEE-S-STT-EEETTEEEEE-SSSB....T CS
                  SAD_SRA  23 agvHrplqagIsgskeeg.....AvSivlsggYeddedegdeliYtGsggr....k 69 
                              + + + + +gI+  +++      ++S+++sg+Y++++d +++++ tG g+      
  PHY93_18165|PHY93_18165  45 VQLLKLHKKGIEIPDTDFsgpgiCYSVAMSGKYSEEQDFTYQVLGTGGGSGrfvyL 100
                              55555566777777666466888***************999999999663324431 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (196 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       460  (0.0256568); expected 358.6 (0.02)
Passed bias filter:                      401  (0.022366); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.39
# Mc/sec: 1496.80
//
Query:       PHY93_18170|PHY93_18170  [L=316]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.013   15.5   0.7      0.054   13.6   0.0    2.4  3  LysM      LysM domain


Domain annotation for each model (and alignments):
>> LysM  LysM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0     3e-06     0.054       2      29 ..      23      63 ..      23      78 .. 0.81
   2 ?   -1.6   0.0      0.16   2.9e+03      25      41 ..     210     225 ..     209     226 .. 0.84
   3 ?   -3.7   0.0      0.73   1.3e+04      25      32 ..     247     255 ..     245     256 .. 0.79

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 3e-06
                             EE-TT--HHHHHHHC............TCHHHHHHHHC.TC CS
                     LysM  2 tVkkGDTLwsIAkry............gitveklleaN.nl 29
                             +V++GDT +sIAkr+            +  +e+++++N ++
  PHY93_18170|PHY93_18170 23 HVRQGDTSESIAKRNmhqvwikygehyKDYEEDIKKWNpKI 63
                             69***************999999999988889999999843 PP

  == domain 2  score: -1.6 bits;  conditional E-value: 0.16
                              HHCTCSSCGG--TTEEE CS
                     LysM  25 eaNnlsspdkifpGqkL 41 
                              ++N l+++  i +G+ L
  PHY93_18170|PHY93_18170 210 KLNTLNTNE-IIAGSPL 225
                              689999999.9999877 PP

  == domain 3  score: -3.7 bits;  conditional E-value: 0.73
                              HHC.TCSSC CS
                     LysM  25 eaN.nlssp 32 
                              ++N nl+s+
  PHY93_18170|PHY93_18170 247 NLNmNLKSS 255
                              789999986 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (316 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       609  (0.0339673); expected 358.6 (0.02)
Passed bias filter:                      383  (0.021362); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.49u 0.23s 00:00:00.72 Elapsed: 00:00:00.40
# Mc/sec: 2375.23
//
Query:       PHY93_18175|PHY93_18175  [L=93]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (93 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       697  (0.0388756); expected 358.6 (0.02)
Passed bias filter:                      363  (0.0202465); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.23s 00:00:00.63 Elapsed: 00:00:00.39
# Mc/sec: 713.14
//
Query:       PHY93_18180|PHY93_18180  [L=133]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00073   19.9   0.0     0.0012   19.2   0.0    1.3  1  Rtt106    Histone chaperone Rttp106-like


Domain annotation for each model (and alignments):
>> Rtt106  Histone chaperone Rttp106-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.2   0.0     7e-08    0.0012       6      72 ..      14      79 ..      10      88 .. 0.81

  Alignments for each domain:
  == domain 1  score: 19.2 bits;  conditional E-value: 7e-08
                   Rtt106  6 srkakeGlLyflekgllfgfkkPllfiplediesvsfeRv.svtsrtfdlvvelkkeeveFsmidqee 72
                              +++++G+L+ l+k ++f  k  +l i++++    s+e   s ++++++l++++++++++F +++ e+
  PHY93_18180|PHY93_18180 14 AHASNPGQLVDLSKPFVF--KSNVLEINHTNLVDYSTEEDdSLNRKNCNLTITYRDTNMKFRNLKIEK 79
                             56899*************..776776777666666666559*************99*****9987665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (133 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       416  (0.0232026); expected 358.6 (0.02)
Passed bias filter:                      259  (0.0144459); expected 358.6 (0.02)
Passed Vit filter:                        18  (0.00100396); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.22s 00:00:00.64 Elapsed: 00:00:00.38
# Mc/sec: 1042.22
//
Query:       PHY93_18185|PHY93_18185  [L=133]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
  ------ inclusion threshold ------
      0.085   12.1   0.0       0.11   11.8   0.0    1.1  1  Linocin_M18  Encapsulating protein for peroxidase


Domain annotation for each model (and alignments):
>> Linocin_M18  Encapsulating protein for peroxidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0     6e-06      0.11      35     100 ..      21      86 ..      11      89 .. 0.95

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 6e-06
                              GTSEEE----TT--EEEEEEEEE---TT-SSEEEEEEEEE-EEEEEEEEEEHHHHHHHHHT-SS-- CS
              Linocin_M18  35 rvvdvegPlGaglsavplgrlkeeeekeegvkakvrkvlplvelrkdFtLsrrdleavergaedld 100
                              ++vd++ P+ ++ ++++++  + ++ ++e+v +  rk  ++ +++kd ++++r l   + ++ed+d
  PHY93_18185|PHY93_18185  21 KLVDLSKPFVFNSNVLEINSANLVDYTTEQVGSLDRKNSNITIIYKDTNMKWRSLQMEKAHGEDVD 86 
                              799*****************************************************9999999998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (133 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       395  (0.0220313); expected 358.6 (0.02)
Passed bias filter:                      258  (0.0143901); expected 358.6 (0.02)
Passed Vit filter:                        12  (0.000669307); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.21s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 964.80
//
Query:       PHY93_18190|PHY93_18190  [L=130]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (130 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       798  (0.0445089); expected 358.6 (0.02)
Passed bias filter:                      608  (0.0339115); expected 358.6 (0.02)
Passed Vit filter:                        47  (0.00262145); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.23s 00:00:00.71 Elapsed: 00:00:00.43
# Mc/sec: 902.09
//
Query:       PHY93_18195|PHY93_18195  [L=210]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.022   15.0   0.1      0.084   13.1   0.0    1.9  2  DUF3222   Protein of unknown function (DUF3222)


Domain annotation for each model (and alignments):
>> DUF3222  Protein of unknown function (DUF3222)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.6   0.0      0.19   3.4e+03       7      23 ..      66      82 ..      61      84 .. 0.76
   2 ?   13.1   0.0   4.7e-06     0.084      14      52 ..      99     139 ..      92     148 .. 0.87

  Alignments for each domain:
  == domain 1  score: -1.6 bits;  conditional E-value: 0.19
                             HHHHHHHHHHHHTTEEE CS
                  DUF3222  7 edvrkialallktaiei 23
                             +d  kia  llk  ++i
  PHY93_18195|PHY93_18195 66 NDKSKIAERLLKNQVDI 82
                             57778888888877765 PP

  == domain 2  score: 13.1 bits;  conditional E-value: 4.7e-06
                              HHHHHTTEEEEE-SSS-E.EEEET.TSS-EEETTS--SS-- CS
                  DUF3222  14 lallktaieivseedGGa.rnqck.lcgasvawlqkGdeik 52 
                              ++llk  i i +   G a +nq k l +as  w ++Gd+i 
  PHY93_18195|PHY93_18195  99 TSLLKEHIMIATKVVGAAkKNQTKaLAKASEEWSKNGDDIA 139
                              678899999999999988459*99789************97 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (210 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1177  (0.0656478); expected 358.6 (0.02)
Passed bias filter:                      685  (0.0382063); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.51u 0.22s 00:00:00.73 Elapsed: 00:00:00.40
# Mc/sec: 1569.75
//
Query:       PHY93_21255|PHY93_21255  [L=86]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0088   16.1   0.7      0.045   13.8   0.7    2.0  1  DUF5101   Domain of unknown function (DUF5101)


Domain annotation for each model (and alignments):
>> DUF5101  Domain of unknown function (DUF5101)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.8   0.7   2.5e-06     0.045      38      72 ..      45      79 ..       5      84 .. 0.81

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 2.5e-06
                  DUF5101 38 kaktkdysLkYDlskCiEileGkEnqevvelkeal 72
                             ++   dy   YDlsk +E++e  E  + + ++++l
  PHY93_21255|PHY93_21255 45 QEIESDYVSEYDLSKSLEMIESSEKRKQLAIRKTL 79
                             455689******************99998888876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (86 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1005  (0.0560544); expected 358.6 (0.02)
Passed bias filter:                      341  (0.0190195); expected 358.6 (0.02)
Passed Vit filter:                        27  (0.00150594); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.20s 00:00:00.65 Elapsed: 00:00:00.39
# Mc/sec: 655.08
//
Query:       PHY93_18200|PHY93_18200  [L=199]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (199 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1564  (0.087233); expected 358.6 (0.02)
Passed bias filter:                      597  (0.033298); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.47u 0.24s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 1478.96
//
Query:       PHY93_18205|PHY93_18205  [L=40]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (40 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       820  (0.045736); expected 358.6 (0.02)
Passed bias filter:                      279  (0.0155614); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.40u 0.21s 00:00:00.61 Elapsed: 00:00:00.39
# Mc/sec: 309.57
//
Query:       PHY93_18210|PHY93_18210  [L=859]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.051   13.8   0.2       0.99    9.7   0.0    2.9  2  PGDYG     PGDYG protein


Domain annotation for each model (and alignments):
>> PGDYG  PGDYG protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.7   0.0   5.5e-05      0.99      17      82 ..     207     274 ..     188     290 .. 0.75
   2 ?    0.3   0.0     0.047   8.4e+02      49      78 ..     583     612 ..     565     628 .. 0.77

  Alignments for each domain:
  == domain 1  score: 9.7 bits;  conditional E-value: 5.5e-05
                    PGDYG  17 GdrWvvsrerf..dakyvalkpglarGeagayrn.rPievlakemdeafsiarsaagdvlrgaaGdwll 82 
                              G  W+v +++f  d+  ++++ ++  G++g+++  +   vlak +d  ++ +   agd+l+ +  +w+ 
  PHY93_18210|PHY93_18210 207 G-DWIVLNNTFafDRIGNSIAITNVFGRTGTITAsKGDYVLAKMGDVDLTTTPPIAGDILKYDGTNWVP 274
                              3.488888886214445666667889****99876999*****************************95 PP

  == domain 2  score: 0.3 bits;  conditional E-value: 0.047
                    PGDYG  49 rPievlakemdeafsiarsaagdvlrgaaG 78 
                              +   +la  ++ ++ ia+ ++g vl+++a 
  PHY93_18210|PHY93_18210 583 KAPDLLAASVTYTLPIADGTSGQVLTTNAA 612
                              555789999999*************98764 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (859 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       845  (0.0471303); expected 358.6 (0.02)
Passed bias filter:                      393  (0.0219198); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.74u 0.24s 00:00:00.98 Elapsed: 00:00:00.43
# Mc/sec: 5972.56
//
Query:       PHY93_21680|PHY93_21680  [L=345]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      0.006   16.4   0.0      0.014   15.1   0.0    1.5  1  T_hemolysin  Thermostable hemolysin


Domain annotation for each model (and alignments):
>> T_hemolysin  Thermostable hemolysin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.1   0.0     8e-07     0.014     139     171 ..      35      67 ..      30      69 .. 0.91

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 8e-07
              T_hemolysin 139 eLaeAdperlgeeaeeWGsYYdeqPqVlagelk 171
                              ++a A ++++ +++++WG Y d++P V++ge +
  PHY93_21680|PHY93_21680  35 FIAAAVEQEIVDNRKRWGLYLDDAPMVVFGERE 67 
                              7999*************************9866 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (345 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       411  (0.0229238); expected 358.6 (0.02)
Passed bias filter:                      331  (0.0184617); expected 358.6 (0.02)
Passed Vit filter:                        21  (0.00117129); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.19s 00:00:00.71 Elapsed: 00:00:00.40
# Mc/sec: 2602.51
//
Query:       PHY93_21685|PHY93_21685  [L=260]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    9.1e-20   70.9   0.0      2e-19   69.8   0.0    1.6  1  MurB_C         UDP-N-acetylenolpyruvoylglucosamine reductase,
    2.6e-17   62.8   0.0    4.5e-17   62.1   0.0    1.3  1  FAD_binding_4  FAD binding domain


Domain annotation for each model (and alignments):
>> MurB_C  UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   69.8   0.0   2.2e-23     2e-19       3     119 ..     162     258 ..     160     259 .. 0.92

  Alignments for each domain:
  == domain 1  score: 69.8 bits;  conditional E-value: 2.2e-23
                              HHHHHHHHHHHSHCHSTTCTCEESESB---EESHHHHHHHHEEEETTSSEEE-HHHHHHH.TT-TTSEETTEEEESSSTTEEEESS CS
                   MurB_C   3 reavlelrakklmvkqpldtpsaGSfFknPivegeeaeelkeyeaeegevklsagwLIeq.aglkGlrvggaqvsekhalflvNgg 87 
                              +e+v+++ +kk  + qp  ++s GS+Fkn   ++             ++   + g +I+q ++lk +++g+aq+s+ ha+f++N+g
  PHY93_21685|PHY93_21685 162 KEKVKNIIQKK-SSIQP--MNSLGSIFKNL--PN-------------QD---PSGMIIDQkLNLKDFSIGDAQISPTHANFIINNG 226
                              789********.8****..79********6..44.............46...89****9736**********************99 PP

                              S--HHHHHHHHHHHHHHHHHHHS----BSSEE CS
                   MurB_C  88 gataadilalarevrkkVkekfgveLepEvvl 119
                              +a+a+d l+l+r ++++ kek + +Le E++l
  PHY93_21685|PHY93_21685 227 SASASDYLKLIRLIQSQAKEKLNLDLELEIKL 258
                              ******************************97 PP

>> FAD_binding_4  FAD binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   62.1   0.0     5e-21   4.5e-17       2     124 ..      22     140 ..      21     144 .. 0.89

  Alignments for each domain:
  == domain 1  score: 62.1 bits;  conditional E-value: 5e-21
                              EEEEEESSHHHHHHHHHHHHHCTSCEEEESSSTTEE.STTCSCCEEEEEETTS--EEEEETTTTEEEEETTSBHHHHHHHHHHHTT CS
            FAD_binding_4   2 aavvrpeseeevaaalrlaneaglpvlvrGgGssll.gqavatggvvldlsrlnrileideeegtatveaGvtlgdlvealaakgl 86 
                              + ++  ++ +e ++a+++ +e++lp++++G+Gs++l ++++  +g+v++  + +  +ei + ++ ++v +Gv+l++l +++   ++
  PHY93_21685|PHY93_21685  22 DFFIHTKNSKEFIEAIKYGQEKKLPITILGNGSNILiSDSG-VRGLVIKN-NSTE-IEILP-DNKVKVASGVQLSQLINFT-LDNN 102
                              567888999***************************99997.*******9.6677.78888.9******************.**** PP

                              ECSSGGGTTCGSBHHHTTTTT-EETTEEGG--HHGTEE CS
            FAD_binding_4  87 llglepgsgipgtvGGaiatnagGygsekyGlirdnvl 124
                              llgle  ++ip+t+GGai++ ++G + ++   + d v+
  PHY93_21685|PHY93_21685 103 LLGLEEFAYIPSTIGGAIIGDIHGDNKSLFSQFIDSVE 140
                              ************************98888855555444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (260 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       647  (0.0360868); expected 358.6 (0.02)
Passed bias filter:                      481  (0.026828); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.52u 0.23s 00:00:00.75 Elapsed: 00:00:00.42
# Mc/sec: 1878.46
//
Query:       PHY93_18215|PHY93_18215  [L=156]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
  ------ inclusion threshold ------
      0.025   14.7   2.8      0.038   14.1   2.8    1.2  1  Fimbrial_CS1  CS1 type fimbrial major subunit


Domain annotation for each model (and alignments):
>> Fimbrial_CS1  CS1 type fimbrial major subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.1   2.8   2.1e-06     0.038      54     126 ..      36     106 ..      32     109 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.1 bits;  conditional E-value: 2.1e-06
             Fimbrial_CS1  54 tkkvkvsLandaqlvnqvseskaiplsVklggveLstaattletaeliPgdaengsvvkelkisqktlatvva 126
                              ++++++ L+ + + + ++++ + +  ++++ + ++  + t+l++++l+  + ++gs++++l+i  k  ++ va
  PHY93_18215|PHY93_18215  36 KNDLTITLKHPKKASTTTEALNVTVSNIQIVNHQIIITGTNLNAVSLF--NIKEGSNSANLQIESKSSTSIVA 106
                              679999***999999888877777888*********************..9*************999988765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (156 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       840  (0.0468515); expected 358.6 (0.02)
Passed bias filter:                      419  (0.02337); expected 358.6 (0.02)
Passed Vit filter:                        25  (0.00139439); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.46u 0.23s 00:00:00.69 Elapsed: 00:00:00.42
# Mc/sec: 1104.76
//
Query:       PHY93_18220|PHY93_18220  [L=268]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    3.2e-41  141.0   0.1    5.6e-41  140.2   0.1    1.4  1  Methyltransf_32  Methyltransferase domain
    1.2e-09   38.1   0.0    1.9e-09   37.5   0.0    1.4  1  Methyltransf_31  Methyltransferase domain
  ------ inclusion threshold ------
      0.038   13.5   0.6       0.12   11.9   0.2    1.8  2  TRM13            Methyltransferase TRM13
      0.079   13.7   0.0       0.22   12.2   0.0    1.8  2  Methyltransf_25  Methyltransferase domain


Domain annotation for each model (and alignments):
>> Methyltransf_32  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  140.2   0.1   1.3e-44   5.6e-41       1     157 [.      31     169 ..      31     170 .. 0.95

  Alignments for each domain:
  == domain 1  score: 140.2 bits;  conditional E-value: 1.3e-44
          Methyltransf_32   1 kKlheverlaelvakllkelakesgaltvvDvGaGkgYLsfvlal...kekeyklkvvgidakeelvekaekraeklgkkfnkrls 83 
                              +Kl++v++l++++++ll  +    +++t+vD+GaGk+YL+f+l++   k+++ k +v+gi++++elv k++++aekl+  f   +s
  PHY93_18220|PHY93_18220  31 RKLKQVYHLCQFIEPLLSAV---GDDVTLVDHGAGKSYLGFILYDlfmKNQKGKKHVYGIETRDELVLKSKELAEKLK--F-PYMS 110
                              7*****************96...8899********************877779*************************..9.99** PP

          Methyltransf_32  84 faelsieeatssktltkkveaeeekeeqeekesvdvligLHaCdtltdtalrlalekeakllvlvpCCyhelae 157
                              f +ls+e++t+s+                 ++++d++++LHaC+t+td+a+++al+k+a ++vlvpCC++ela+
  PHY93_18220|PHY93_18220 111 FLNLSVEDSTHSD---------------LLPARIDIVTALHACNTATDDAIAFALKKNASHIVLVPCCQAELAT 169
                              *********9855...............679****************************************986 PP

>> Methyltransf_31  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.5   0.0   4.2e-13   1.9e-09       3      92 ..      52     146 ..      51     215 .. 0.80

  Alignments for each domain:
  == domain 1  score: 37.5 bits;  conditional E-value: 4.2e-13
          Methyltransf_31   3 kglrvlDlGCGtGeltfelae....elgpkaevvGiDiseeaielArenaqklgldnveFeqgdieelekl.ledekfDlilsnev 83 
                              ++++++D G+G+++l+f l++    +   k++v+Gi+   e + +++e a+kl++  ++F   ++e+   + l ++++D++++  +
  PHY93_18220|PHY93_18220  52 DDVTLVDHGAGKSYLGFILYDlfmkNQKGKKHVYGIETRDELVLKSKELAEKLKFPYMSFLNLSVEDSTHSdLLPARIDIVTALHA 137
                              57899****************77543333677***********************************55555555*****999877 PP

          Methyltransf_31  84 lnaladpdk 92 
                              +n+ +d + 
  PHY93_18220|PHY93_18220 138 CNTATDDAI 146
                              765555443 PP

>> TRM13  Methyltransferase TRM13
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.2   2.7e-05      0.12      17     140 ..      51     164 ..      24     175 .. 0.85
   2 ?   -0.5   0.0      0.16   7.3e+02     226     261 ..     201     236 ..     194     237 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 2.7e-05
                    TRM13  17 ekssayvEfGaGkgelsryvnqaleedkkenskyvLidrasnrlkaDrklrkdeselaikRlkidIkdLnlsaleelekkkkvvav 102
                               ++ ++v+ GaGk++l  ++ + + +++k +++++ i+ + + + + + l+++ + + ++ l + ++d + s l+     +  +++
  PHY93_18220|PHY93_18220  51 GDDVTLVDHGAGKSYLGFILYDLFMKNQKGKKHVYGIETRDELVLKSKELAEKLKFPYMSFLNLSVEDSTHSDLLP---ARIDIVT 133
                              567899****************999999999999999988888888888888888899**********99999988...3455667 PP

                    TRM13 103 sKHLCGaATDLtLrcllnsekaskkakleglliAlCCh 140
                              + H C +ATD ++   l+++++        +++  CC+
  PHY93_18220|PHY93_18220 134 ALHACNTATDDAIAFALKKNAS-------HIVLVPCCQ 164
                              89********999988887764.......467777775 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 0.16
                    TRM13 226 lidegRllalkekgfeaelvkYvekevslEnvlLla 261
                              l +  R+l l+ +g+++ +++ v  e s  n l++a
  PHY93_18220|PHY93_18220 201 LTNVLRCLQLEAHGYQVTVTELVGWEHSMKNELIVA 236
                              55677999***************9999999999887 PP

>> Methyltransf_25  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   0.0     5e-05      0.22       3      88 ..      58     152 ..      56     158 .. 0.75
   2 ?   -2.5   0.0       1.9   8.6e+03      51      58 ..     234     241 ..     203     258 .. 0.57

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 5e-05
                              EET-TTSHHHHHHHCTS.....TSSEEEEEESSHHHHHHHHHHHHHTTT.TEEEEESBCCGBS...SSTTTEEEEEEESTGGGSSH CS
          Methyltransf_25   3 dlGcGtGrltlalakrl.....gkakvtgvDiseemleaareraeeegl.nvefvqgdaedlp...fedgsfDlvvssgalhhlsd 79 
                              d G+G+  l + l + +     gk++v+g++  +e++ + +e ae+ ++  ++f++ ++ed     +  +++D+v++ +a +  +d
  PHY93_18220|PHY93_18220  58 DHGAGKSYLGFILYDLFmknqkGKKHVYGIETRDELVLKSKELAEKLKFpYMSFLNLSVEDSThsdLLPARIDIVTALHACNTATD 143
                              677777777777777766655459********************99777888888888877442226788*******777777777 PP

                              HHHHHHHHH CS
          Methyltransf_25  80 edlekalke 88 
                              + ++ alk+
  PHY93_18220|PHY93_18220 144 DAIAFALKK 152
                              777666665 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 1.9
                              EESBCCGB CS
          Methyltransf_25  51 vqgdaedl 58 
                              ++++++d+
  PHY93_18220|PHY93_18220 234 IVASFKDM 241
                              23333333 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (268 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       754  (0.0420548); expected 358.6 (0.02)
Passed bias filter:                      653  (0.0364214); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.54u 0.21s 00:00:00.75 Elapsed: 00:00:00.42
# Mc/sec: 1931.28
//
Query:       PHY93_18225|PHY93_18225  [L=106]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    6.6e-05   23.3   0.3    7.9e-05   23.1   0.3    1.2  1  DUF1636         Protein of unknown function (DUF1636)
    0.00083   19.3   0.1    0.00083   19.3   0.1    1.6  2  PhnA_Zn_Ribbon  PhnA Zinc-Ribbon


Domain annotation for each model (and alignments):
>> DUF1636  Protein of unknown function (DUF1636)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.1   0.3   8.8e-09   7.9e-05       1      65 [.      19      81 ..      19     104 .. 0.82

  Alignments for each domain:
  == domain 1  score: 23.1 bits;  conditional E-value: 8.8e-09
                  DUF1636  1 lfVCktCrsseeeeeeegeseGekLlealqalaeeaeleeeveiqeveClsaC.krpcavalaapg 65
                             ++VC++C s+ ++  ++++++ e++ ++l+++a+ +el ++v++ +++Cl  C  ++ a+a+a+++
  PHY93_18225|PHY93_18225 19 VMVCSKCGSQFKD--THSQESPERMKSELKSKAK-SELGKSVRVITTSCLNICpVDKIAIAVATTK 81
                             68********999..77777889********976.59****************5467777777654 PP

>> PhnA_Zn_Ribbon  PhnA Zinc-Ribbon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.3   0.1   9.2e-08   0.00083      14      29 ..      14      29 ..       9      30 .. 0.84
   2 ?   -3.2   0.5      0.99   8.8e+03      19      23 ..      65      69 ..      63      69 .. 0.66

  Alignments for each domain:
  == domain 1  score: 19.3 bits;  conditional E-value: 9.2e-08
           PhnA_Zn_Ribbon 14 YedgallvCpeCahEw 29
                              ed+ ++vC++C++++
  PHY93_18225|PHY93_18225 14 WEDTIVMVCSKCGSQF 29
                             59*************8 PP

  == domain 2  score: -3.2 bits;  conditional E-value: 0.99
           PhnA_Zn_Ribbon 19 llvCp 23
                             l +Cp
  PHY93_18225|PHY93_18225 65 LNICP 69
                             55887 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (106 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       755  (0.0421105); expected 358.6 (0.02)
Passed bias filter:                      489  (0.0272742); expected 358.6 (0.02)
Passed Vit filter:                        73  (0.00407162); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.44u 0.23s 00:00:00.67 Elapsed: 00:00:00.41
# Mc/sec: 770.37
//
Query:       PHY93_18230|PHY93_18230  [L=414]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
       0.14   12.1   4.5       0.32   11.0   4.5    1.5  1  DUF1658   Protein of unknown function (DUF1658)


Domain annotation for each model (and alignments):
>> DUF1658  Protein of unknown function (DUF1658)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.0   4.5   1.8e-05      0.32       3      21 .]      73      93 ..      72      93 .. 0.93

  Alignments for each domain:
  == domain 1  score: 11.0 bits;  conditional E-value: 1.8e-05
                  DUF1658  3 lKTrriPARPs..HGrdGrgi 21
                             l+++r+P RP+  H+ +G g+
  PHY93_18230|PHY93_18230 73 LPSPRPPSRPCgqHSKVGCGF 93
                             79****************876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (414 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       616  (0.0343577); expected 358.6 (0.02)
Passed bias filter:                      483  (0.0269396); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.22s 00:00:00.75 Elapsed: 00:00:00.40
# Mc/sec: 3085.84
//
Query:       PHY93_18235|PHY93_18235  [L=276]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.8e-15   56.2   0.0    3.9e-15   55.8   0.0    1.2  1  LysR_substrate  LysR substrate binding domain


Domain annotation for each model (and alignments):
>> LysR_substrate  LysR substrate binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   55.8   0.0   2.2e-19   3.9e-15       6     204 ..      89     273 ..      84     274 .. 0.92

  Alignments for each domain:
  == domain 1  score: 55.8 bits;  conditional E-value: 2.2e-19
                              EEEEEEEECCCHHHHHHHHHHHHHHHSTTEEEEEEEESHHHHHHHHHTTSSSEEEEESSSCCTTEEEEEEEEEEEEEEEETTSGGG CS
           LysR_substrate   6 grLrigapptlaryllppllarfraryPevelelvegdseelldllaegelDlairagppedsglearpLaeeplvlvaspdhpLa 91 
                                ++++++  +a+++l+p  ++ +    ++e+  + g+    + ll+++ +D++i  g p ++++++ ++  e++v++as +  + 
  PHY93_18235|PHY93_18235  89 PVIHLATTREFASRILMPNWKKIKYSADQIEIITSDGN---SESLLLNNLADIVIDCGTPYHPDIRFKKITPEKMVIAASSEF-IK 170
                              57899******************999999999999888...777778***********************************8.77 PP

                              GSSSECGGGGCTSEEEEESTTSTHHHHHHHHHHCTTEECEEEEEESSHHHHHHHHHTTS-BEEEEGGGHHCCCHTTTEEEEEESST CS
           LysR_substrate  92 rgepvsledLadeplilleegsglrdlledalreaglkprvalevnsleallalvaaGlGiallprsavrdeladgrlvalplpep 177
                              ++ ++    L + + i+       r  ++ + ++  lk+++ + +++l++l+++  +  G++++p+++++++l+   lv   ++  
  PHY93_18235|PHY93_18235 171 KKGKT----LLGSDYIH-----FQRTDINSLQEDMSLKLNPKFIFSDLSTLRSALIHQYGWSIIPHYVIKEDLQKKSLVDMKIKL- 246
                              77666....67777777.....55999**999***********************************************999999. PP

                              TCEEEEEEEEETTCCCHHHHHHHHHHH CS
           LysR_substrate 178 plprelylvyrkgrelspavrafidfl 204
                                p+ +++ ++k+ +  ++++a+i+fl
  PHY93_18235|PHY93_18235 247 SSPMSFGVWWKKDLQDKELIEALIQFL 273
                              999**********************98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (276 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       548  (0.030565); expected 358.6 (0.02)
Passed bias filter:                      395  (0.0220313); expected 358.6 (0.02)
Passed Vit filter:                        26  (0.00145016); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.47u 0.23s 00:00:00.70 Elapsed: 00:00:00.40
# Mc/sec: 2092.25
//
[ok]
